Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_Position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	A	T	G	C	Cg	cG	tCw	wGa	tCa	tGa	tCt	aGa	tC	Ga	tCh	dGa	cC	Gg	wrC	Gyw	Cc	gG	wA	Tw	tC_mutation	tC_mutation_to_G	tC_mutation_to_T	APOBEC_mutation	APOBEC_mutation_to_G	APOBEC_mutation_to_T	"CONTEXT(+/-20)"	a_counts	t_counts	g_counts	c_counts	cg_counts	tcw_counts	wga_counts	tca_counts	tga_counts	tct_counts	aga_counts	tc_counts	ga_counts	tch_counts	dga_counts	cc_counts	gg_counts	wrc_counts	gyw_counts	cc_counts	gg_counts	wa_counts	tw_counts	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut	init_n_lod	newbase	end	tum_allele1	tum_allele2	start	effect_idx	newbase_idx	pat_idx	is_coding	is_flank	is_indel	is_ins	is_del	is_missense	is_nonsense	is_splice	is_silent	gene_idx	context_and_effect	context65	categ_idx	trackpos	categ	gene	chr	pos	type	classification	ref_allele	patient	DistBetween_Mutations	Distance_to_LT_end	Distance_to_RT_end	Strain_Mutation_ID	Dataset_Mutation_ID	Complex_ID	Complex_Size	StrainCluster_ID	Dataset_Cluster_ID	Distance_Between_Clusters	Cluster_Size_Mutations	Cluster_Size_Complexes	Cluster_Length	Cluster_Coordination	Content_of_non_coordinated_cluster	Cluster_Pvalue
KLHL17	339451	broad.mit.edu	37	chr1	900527	900527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggagctgctcaatttcccgCcgccatcctccccgacgctg	5	9	9	18	4	1	0	1	0	0	0	4	2	4	1	6	1	2	3	6	1	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:900527C>T	uc001aca.1	+	12	1992	c.1885C>T	c.(1885-1887)CCG>TCG	p.P629S	KLHL17_uc001acc.1_RNA|PLEKHN1_uc001acd.2_5'Flank|PLEKHN1_uc001acf.2_5'Flank|PLEKHN1_uc001ace.2_5'Flank	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	629	Interaction with F-actin (By similarity).				actin cytoskeleton organization	actin cytoskeleton|cell junction|postsynaptic density|postsynaptic membrane	protein complex scaffold				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.52e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.59e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000469)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CAATTTCCCGCCGCCATCCTC	0.652													4	15					0	0	0.009096	0	0		T	900527	T	T	900527	3	4	1	1	0	0	0	0	1	0	0	0	8388	739	26	2	1931	2	KLHL17	1	900527	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08		900527	248350094	1	1											
UBE2J2	118424	broad.mit.edu	37	chr1	1192407	1192407	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctctatactgcccagggtggGgcccttctccaccatgaagc	7	9	10	15	0	2	1	0	1	2	0	3	1	2	1	4	3	3	0	4	3	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:1192407G>T	uc001adn.2	-	5	689	c.379C>A	c.(379-381)CCC>ACC	p.P127T	UBE2J2_uc001adm.2_Missense_Mutation_p.P92T|UBE2J2_uc001ado.2_Missense_Mutation_p.P143T|UBE2J2_uc001adp.2_Missense_Mutation_p.P127T|UBE2J2_uc001adq.2_Missense_Mutation_p.P75T|UBE2J2_uc001adr.2_Missense_Mutation_p.P75T|UBE2J2_uc001ads.2_Missense_Mutation_p.P75T	NM_194458	NP_919440	Q8N2K1	UB2J2_HUMAN	ubiquitin conjugating enzyme E2, J2 isoform 3	127	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ATP binding|ubiquitin-protein ligase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.66e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.53e-21)|Colorectal(212;0.00019)|COAD - Colon adenocarcinoma(227;0.000215)|Kidney(185;0.00255)|BRCA - Breast invasive adenocarcinoma(365;0.00266)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0371)|Lung(427;0.205)		CCCAGGGTGGGGCCCTTCTCC	0.592													22	98					1.55795e-14	1.76631e-14	0.012319	1	0		T	1192407	T	T	1192407	3	4	1	1	0	0	0	0	1	0	0	0	16887	1232	43	5	412	5	UBE2J2	1	1192407	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	291880	1192407	248058214	2	2											
TAS1R3	83756	broad.mit.edu	37	chr1	1266841	1266841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggggactacgtgctgggggGgctgttccccctgggcgagg	3	7	21	10	2	0	0	0	0	0	0	1	2	1	1	2	7	2	3	2	7	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:1266841G>A	uc010nyk.1	+	1	116	c.116G>A	c.(115-117)GGG>GAG	p.G39E		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	39	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)	Aspartame(DB00168)	GTGCTGGGGGGGCTGTTCCCC	0.697													5	15					0	0	0.000602	0	0		A	1266841	A	A	1266841	3	1	1	1	0	0	0	0	1	0	0	0	15589	1232	43	4	118	4	TAS1R3	1	1266841	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	74434	1266841	247983780	3	3											
ATAD3C	219293	broad.mit.edu	37	chr1	1403815	1403815	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccgaggccatgatggacGcctgcgtgcaagactttgtc	8	9	13	11	3	0	3	0	2	0	1	1	5	0	4	3	2	2	1	3	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:1403815G>A	uc001aft.2	+	12	2136	c.1141G>A	c.(1141-1143)GCC>ACC	p.A381T		NM_001039211	NP_001034300	Q5T2N8	ATD3C_HUMAN	ATPase family, AAA domain containing 3C	381							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		CATGATGGACGCCTGCGTGCA	0.657													5	31					0	0	0.000602	0	0		A	1403815	A	A	1403815	3	1	1	1	0	0	0	0	1	0	0	0	1076	1087	38	1	1187	1	ATAD3C	1	1403815	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	136974	1403815	247846806	4	4											
PLCH2	9651	broad.mit.edu	37	chr1	2411682	2411682	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcagcctgagcattggCgaggtcctgcagctgctgca	7	8	15	11	1	0	1	0	1	0	0	1	3	1	1	2	3	6	6	2	3	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:2411682C>T	uc001aji.1	+	4	850	c.576C>T	c.(574-576)GGC>GGT	p.G192G	PLCH2_uc010nyz.1_5'UTR|PLCH2_uc009vle.1_5'UTR|PLCH2_uc001ajj.1_5'UTR|PLCH2_uc001ajk.1_5'UTR	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	192	Potential.|EF-hand 1.				intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		TGAGCATTGGCGAGGTCCTGC	0.627													10	79					0	0	0.008291	0	0		T	2411682	T	T	2411682	2	4	1	1	0	0	0	0	0	0	0	1	12057	755	27	1		1	PLCH2	1	2411682	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1007867	2411682	246838939	5	5											
PRDM16	63976	broad.mit.edu	37	chr1	3322195	3322195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaagcatatccacagcaCggtgaagcctttcatatgtg	12	9	9	11	1	1	1	1	1	0	0	2	1	2	1	2	1	3	3	2	1	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:3322195C>T	uc001akf.2	+	8	1249	c.1169C>T	c.(1168-1170)ACG>ATG	p.T390M	PRDM16_uc001akc.2_Missense_Mutation_p.T390M|PRDM16_uc001akd.2_Missense_Mutation_p.T390M|PRDM16_uc001ake.2_Missense_Mutation_p.T390M|PRDM16_uc009vlh.2_Missense_Mutation_p.T91M	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	390					brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		ATCCACAGCACGGTGAAGCCT	0.701			T	EVI1	MDS|AML								5	77					0	0	0.001168	0	0		T	3322195	T	T	3322195	3	4	1	1	0	0	0	0	1	0	0	0	12479	536	19	1	1199	1	PRDM16	1	3322195	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	910513	3322195	245928426	6	6											
MEGF6	1953	broad.mit.edu	37	chr1	3428675	3428675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacactgggccagccctgCggcacattcgtccacatctg	7	7	11	16	2	1	0	0	0	1	0	3	0	2	0	3	3	2	2	3	3	0	1	rs115175505	by1000genomes	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:3428675C>T	uc001akl.2	-	8	1098	c.871G>A	c.(871-873)GCA>ACA	p.A291T	MEGF6_uc001akk.2_Missense_Mutation_p.A186T	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	291	EGF-like 5; calcium-binding (Potential).					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		GCCAGCCCTGCGGCACATTCG	0.652													20	81					0	0	0.010504	0	0		T	3428675	T	T	3428675	3	4	1	1	0	0	0	0	1	0	0	0	9480	768	27	1	3874	1	MEGF6	1	3428675	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	106480	3428675	245821946	7	7											
GPR153	387509	broad.mit.edu	37	chr1	6313841	6313841	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggtcacgaggcccgtggtCtgcagagaggttttggcggg	5	9	19	8	3	2	1	1	0	1	1	2	3	2	1	1	6	1	2	1	6	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:6313841C>T	uc001amp.1	-	3	983	c.723G>A	c.(721-723)CAG>CAA	p.Q241Q		NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	241	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		GGCCCGTGGTCTGCAGAGAGG	0.662													9	47					0	0	0.006214	0	0		T	6313841	T	T	6313841	2	4	1	1	0	0	0	0	0	0	0	1	6674	912	32	4		4	GPR153	1	6313841	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2885166	6313841	242936780	8	8											
NOL9	79707	broad.mit.edu	37	chr1	6592755	6592755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatttactgtggtcagagcGgaactgaaccacgtggctgg	10	10	13	8	2	1	2	1	1	0	1	1	3	1	3	1	4	4	1	1	4	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:6592755G>A	uc001ans.2	-	8	1322	c.1303C>T	c.(1303-1305)CGC>TGC	p.R435C	NOL9_uc010nzs.1_RNA	NM_024654	NP_078930	Q5SY16	NOL9_HUMAN	nucleolar protein 9	435					maturation of 5.8S rRNA	nucleolus	ATP binding|polynucleotide 5'-hydroxyl-kinase activity|RNA binding			skin(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;2.46e-35)|all_epithelial(116;1.41e-22)|all_lung(118;7.59e-07)|Lung NSC(185;4.28e-06)|Colorectal(325;4.52e-05)|Breast(487;0.000353)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.47e-07)|COAD - Colon adenocarcinoma(227;1.47e-05)|Kidney(185;5.27e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|BRCA - Breast invasive adenocarcinoma(365;0.00113)|STAD - Stomach adenocarcinoma(132;0.0017)|READ - Rectum adenocarcinoma(331;0.0649)		TGGTCAGAGCGGAACTGAACC	0.493													12	117					0	0	0.010729	0	0		A	6592755	A	A	6592755	3	1	1	1	0	0	0	0	1	0	0	0	10547	1116	39	1	825	1	NOL9	1	6592755	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	278914	6592755	242657866	9	9											
RERE	473	broad.mit.edu	37	chr1	8418690	8418690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccgctcccggagctccCgctcgcggatggtggggtcg	2	8	15	16	6	1	0	0	0	1	0	6	2	3	2	3	5	1	3	3	5	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:8418690C>T	uc001ape.2	-	21	4715	c.3905G>A	c.(3904-3906)CGG>CAG	p.R1302Q	RERE_uc001apf.2_Missense_Mutation_p.R1302Q|RERE_uc001apd.2_Missense_Mutation_p.R748Q	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1302	Arg/Glu-rich (mixed charge).				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		CCGGAGCTCCCGCTCGCGGAT	0.667													5	17					0	0	0.00308	0	0		T	8418690	T	T	8418690	3	4	1	1	0	0	0	0	1	0	0	0	13256	652	23	1	811	1	RERE	1	8418690	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1825935	8418690	240831931	10	10											
UBIAD1	29914	broad.mit.edu	37	chr1	11345830	11345830	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccactggtctatgccatccCcctcgccctcagcaccgagg	6	7	8	20	2	2	0	1	0	1	0	4	1	3	0	6	2	2	1	6	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:11345830C>A	uc001asg.2	+	2	993	c.659C>A	c.(658-660)CCC>CAC	p.P220H		NM_013319	NP_037451	Q9Y5Z9	UBIA1_HUMAN	UbiA prenyltransferase domain containing 1	220	Helical; (Potential).				menaquinone biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrion|nucleus	prenyltransferase activity				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000818)|all_lung(284;0.00105)|Colorectal(325;0.0062)|Breast(348;0.012)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.52e-06)|COAD - Colon adenocarcinoma(227;0.000254)|BRCA - Breast invasive adenocarcinoma(304;0.000299)|Kidney(185;0.000754)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0487)		TATGCCATCCCCCTCGCCCTC	0.612													20	140					8.10497e-08	8.87561e-08	0.010504	1	0		A	11345830	A	A	11345830	3	1	1	1	0	0	0	0	1	0	0	0	16911	623	22	5	665	5	UBIAD1	1	11345830	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2927140	11345830	237904791	11	11											
MTHFR	4524	broad.mit.edu	37	chr1	11850909	11850909	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggacggggactcctccTcatacagctttccccaccgc	6	8	10	17	3	1	0	1	0	0	0	4	2	4	2	5	3	3	1	5	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:11850909T>G	uc001atc.1	-	12	1983	c.1799A>C	c.(1798-1800)GAG>GCG	p.E600A	MTHFR_uc001atb.1_Missense_Mutation_p.E623A	NM_005957	NP_005948	P42898	MTHR_HUMAN	5,10-methylenetetrahydrofolate reductase	600					blood circulation|folic acid metabolic process	cytosol	methylenetetrahydrofolate reductase (NADPH) activity|protein binding				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)	Benazepril(DB00542)|Cyanocobalamin(DB00115)|Folic Acid(DB00158)|L-Methionine(DB00134)|Menadione(DB00170)|Methotrexate(DB00563)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|Raltitrexed(DB00293)|Riboflavin(DB00140)|S-Adenosylmethionine(DB00118)|Tetrahydrofolic acid(DB00116)	GGACTCCTCCTCATACAGCTT	0.443													12	102					0	0	0.001368	0	0		G	11850909	G	G	11850909	3	3	1	1	0	0	0	0	1	0	0	0	9949	1551	54	5	175	5	MTHFR	1	11850909	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	505079	11850909	237399712	12	12											
VPS13D	55187	broad.mit.edu	37	chr1	12337952	12337952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaactgtattctttgaattGcacccagttggcaggtagag	11	13	10	7	0	1	2	0	1	1	1	1	2	1	2	1	2	2	5	1	2	5	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:12337952G>A	uc001atv.2	+	19	4448	c.4307G>A	c.(4306-4308)TGC>TAC	p.C1436Y	VPS13D_uc001atw.2_Missense_Mutation_p.C1436Y|VPS13D_uc001atx.2_Missense_Mutation_p.C624Y	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	1436					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TCTTTGAATTGCACCCAGTTG	0.493													14	165					0	0	0.001855	0	0		A	12337952	A	A	12337952	3	1	1	1	0	0	0	0	1	0	0	0	17218	1319	46	2	4377	2	VPS13D	1	12337952	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	487043	12337952	236912669	13	13											
HMGCL	3155	broad.mit.edu	37	chr1	24140703	24140703	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacagaaatattggctgaCtgcgctgccttcaggattgc	9	10	11	11	2	1	2	1	1	0	1	1	3	1	3	1	2	3	3	1	2	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:24140703C>T	uc001bib.2	-	5	518	c.474G>A	c.(472-474)CAG>CAA	p.Q158Q	HMGCL_uc010oec.1_Intron|HMGCL_uc009vqr.2_Intron|HMGCL_uc001bic.2_Silent_p.Q133Q|HMGCL_uc009vqs.1_Intron|HMGCL_uc001bid.1_Silent_p.Q158Q	NM_000191	NP_000182	P35914	HMGCL_HUMAN	3-hydroxy-3-methylglutaryl CoA lyase isoform 1	158					acetoacetic acid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA lyase activity|metal ion binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.0044)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.38e-24)|Colorectal(126;5.58e-08)|COAD - Colon adenocarcinoma(152;3.12e-06)|GBM - Glioblastoma multiforme(114;4.9e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000982)|KIRC - Kidney renal clear cell carcinoma(1967;0.0034)|STAD - Stomach adenocarcinoma(196;0.0128)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0856)|LUSC - Lung squamous cell carcinoma(448;0.188)		TATTGGCTGACTGCGCTGCCT	0.498													24	116					0	0	0.004656	0	0		T	24140703	T	T	24140703	2	4	1	1	0	0	0	0	0	0	0	1	7245	564	20	4		4	HMGCL	1	24140703	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	11802751	24140703	225109918	14	14											
LDLRAP1	26119	broad.mit.edu	37	chr1	25893405	25893405	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagcccaggacatgcattaCgcccagtgcctctcgcctgt	8	8	9	16	2	1	0	0	0	1	0	2	1	1	1	4	1	4	1	4	1	1	1	rs147242385		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:25893405C>T	uc001bkl.3	+	9	963	c.849C>T	c.(847-849)TAC>TAT	p.Y283Y	LDLRAP1_uc009vrw.2_RNA|LDLRAP1_uc009vrx.2_Silent_p.Y113Y	NM_015627	NP_056442	Q5SW96	ARH_HUMAN	low density lipoprotein receptor adaptor protein	283					amyloid precursor protein metabolic process|cholesterol homeostasis|cholesterol metabolic process|positive regulation of receptor-mediated endocytosis|receptor internalization|receptor-mediated endocytosis of low-density lipoprotein particle involved in cholesterol transport|regulation of establishment of protein localization in plasma membrane|regulation of protein binding	basal plasma membrane|cytosol|early endosome|internal side of plasma membrane|neurofilament|recycling endosome	beta-amyloid binding|clathrin binding|low-density lipoprotein particle receptor binding|phosphatidylinositol-4,5-bisphosphate binding|phosphotyrosine binding|protein binding, bridging|protein complex binding|receptor signaling complex scaffold activity|signaling adaptor activity			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.63e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000728)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000969)|GBM - Glioblastoma multiforme(114;0.00914)|READ - Rectum adenocarcinoma(331;0.0649)		ACATGCATTACGCCCAGTGCC	0.642													6	20					0	0	0.001168	0	0		T	25893405	T	T	25893405	2	4	1	1	0	0	0	0	0	0	0	1	8724	547	19	1		1	LDLRAP1	1	25893405	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1752702	25893405	223357216	15	15											
ARID1A	8289	broad.mit.edu	37	chr1	27087486	27087486	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctcctcatacctcccCtcacctgcctggcatccgag	5	12	5	19	1	3	0	2	0	1	0	7	1	6	0	7	1	2	1	7	1	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:27087486C>A	uc001bmv.1	+	5	2433	c.2060C>A	c.(2059-2061)CCT>CAT	p.P687H	ARID1A_uc001bmt.1_Missense_Mutation_p.P687H|ARID1A_uc001bmu.1_Missense_Mutation_p.P687H|ARID1A_uc001bmw.1_Missense_Mutation_p.P304H	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	687					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CATACCTCCCCTCACCTGCCT	0.602			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								7	81					0.000157383	0.00016551	0.00308	1	0		A	27087486	A	A	27087486	3	1	1	1	0	0	0	0	1	0	0	0	913	681	24	5	2078	5	ARID1A	1	27087486	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1194081	27087486	222163135	16	16											
MAP3K6	9064	broad.mit.edu	37	chr1	27691347	27691347	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagctctcacgcacaccaaGgtggtagaacagggagggct	12	5	14	10	1	1	1	1	0	1	1	2	3	1	2	1	4	2	4	1	4	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:27691347G>T	uc001bny.1	-	2	646	c.397C>A	c.(397-399)CTT>ATT	p.L133I	MAP3K6_uc009vsw.1_Missense_Mutation_p.L133I|MAP3K6_uc001bnz.1_5'Flank	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	133					activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		CGCACACCAAGGTGGTAGAAC	0.637													13	57					4.93089e-13	5.57521e-13	0.00245	1	0		T	27691347	T	T	27691347	3	4	1	1	0	0	0	0	1	0	0	0	9272	1000	35	5	3581	5	MAP3K6	1	27691347	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	603861	27691347	221559274	17	17											
GPR3	2827	broad.mit.edu	37	chr1	27721183	27721183	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaactccatgatcaaccCtatcatctacgccttccgca	11	10	3	17	2	3	1	2	1	1	0	5	1	5	1	4	0	4	1	4	0	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:27721183C>A	uc001bod.2	+	2	976	c.881C>A	c.(880-882)CCT>CAT	p.P294H		NM_005281	NP_005272	P46089	GPR3_HUMAN	G protein-coupled receptor 3	294	Helical; Name=7; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane				ovary(1)	1		Breast(348;1.53e-05)|Ovarian(437;0.0606)|all_lung(284;0.157)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;2.81e-26)|Colorectal(126;1.24e-08)|KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;4.45e-06)|Lung(427;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|LUSC - Lung squamous cell carcinoma(448;0.008)|READ - Rectum adenocarcinoma(331;0.0419)		ATGATCAACCCTATCATCTAC	0.562													7	180					0.000157383	0.00016551	0.00308	1	0		A	27721183	A	A	27721183	3	1	1	1	0	0	0	0	1	0	0	0	6701	681	24	5	883	5	GPR3	1	27721183	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	29836	27721183	221529438	18	18											
TMEM39B	55116	broad.mit.edu	37	chr1	32566155	32566155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgacgtctcccacttcCgcttccatgtgagtctcctc	4	13	6	18	2	3	2	0	2	3	0	8	2	5	2	5	0	0	1	5	0	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:32566155C>T	uc010ogv.1	+	8	1374	c.1228C>T	c.(1228-1230)CGC>TGC	p.R410C	TMEM39B_uc010ogt.1_RNA|TMEM39B_uc010ogu.1_Missense_Mutation_p.R283C|TMEM39B_uc001bue.3_Missense_Mutation_p.R411C|TMEM39B_uc001buf.3_Missense_Mutation_p.R211C|TMEM39B_uc010ogw.1_Missense_Mutation_p.R211C	NM_018056	NP_060526	Q9GZU3	TM39B_HUMAN	transmembrane protein 39B	410						integral to membrane					0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				CTCCCACTTCCGCTTCCATGT	0.582													7	73					0	0	0.00308	0	0		T	32566155	T	T	32566155	3	4	1	1	0	0	0	0	1	0	0	0	16187	652	23	1	1258	1	TMEM39B	1	32566155	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4844972	32566155	216684466	19	19											
ZMYM4	9202	broad.mit.edu	37	chr1	35847348	35847348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtagttcatcgtgtatcacgGcatacaagcaggtacatgac	12	10	10	9	2	2	1	2	1	0	0	3	1	2	1	0	2	3	6	0	2	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:35847348G>A	uc001byt.2	+	9	1638	c.1558G>A	c.(1558-1560)GCA>ACA	p.A520T	ZMYM4_uc009vuu.2_Missense_Mutation_p.A488T|ZMYM4_uc001byu.2_Missense_Mutation_p.A196T|ZMYM4_uc009vuv.2_Missense_Mutation_p.A259T	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	520	MYM-type 4.				multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GTGTATCACGGCATACAAGCA	0.388													12	138					0	0	0.001368	0	0		A	35847348	A	A	35847348	3	1	1	1	0	0	0	0	1	0	0	0	17727	1203	42	2	1592	2	ZMYM4	1	35847348	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3281193	35847348	213403273	20	20											
EIF2C3	192669	broad.mit.edu	37	chr1	36509104	36509104	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttgatacagacattacacaCccatatgagttcgattttta	13	14	6	8	1	0	3	0	2	0	1	1	4	0	3	1	0	2	2	1	0	4	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:36509104C>T	uc001bzp.2	+	17	2485	c.2229C>T	c.(2227-2229)CAC>CAT	p.H743H	EIF2C3_uc001bzq.2_Silent_p.H509H	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	743	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				ACATTACACACCCATATGAGT	0.363													5	69					0	0	0.004482	0	0		T	36509104	T	T	36509104	2	4	1	1	0	0	0	0	0	0	0	1	5013	506	18	4		4	EIF2C3	1	36509104	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	661756	36509104	212741517	21	21											
SNIP1	79753	broad.mit.edu	37	chr1	38006062	38006062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgttgttgccaccaggccGaggaaccaactcctgagact	9	10	10	12	1	0	1	0	1	0	1	1	4	1	2	5	2	3	2	5	2	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:38006062G>A	uc001cbi.2	-	3	695	c.622C>T	c.(622-624)CGG>TGG	p.R208W	SNIP1_uc010oid.1_RNA	NM_024700	NP_078976	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein	208					production of miRNAs involved in gene silencing by miRNA	nucleus	protein binding			upper_aerodigestive_tract(1)|lung(1)	2		Myeloproliferative disorder(586;0.0393)				CCACCAGGCCGAGGAACCAAC	0.532													11	119					0	0	0.010729	0	0		A	38006062	A	A	38006062	3	1	1	1	0	0	0	0	1	0	0	0	14873	1057	37	1	576	1	SNIP1	1	38006062	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1496958	38006062	211244559	22	22											
EPHA10	284656	broad.mit.edu	37	chr1	38227196	38227196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctgccaggctccccttccGagtgcgccacgcacgttccg	4	7	12	18	5	0	0	0	0	0	0	3	1	3	0	6	2	2	4	6	2	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:38227196G>A	uc009vvi.2	-	3	817	c.731C>T	c.(730-732)TCG>TTG	p.S244L	EPHA10_uc001cbw.3_Missense_Mutation_p.S244L	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	244	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CTCCCCTTCCGAGTGCGCCAC	0.731													3	10					0	0	0.009096	0	0		A	38227196	A	A	38227196	3	1	1	1	0	0	0	0	1	0	0	0	5174	1059	37	1	2393	1	EPHA10	1	38227196	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	221134	38227196	211023425	23	23											
MTF1	4520	broad.mit.edu	37	chr1	38304332	38304332	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtatgagttcgaatgtgCttcctcagatcactgagtgt	8	14	10	9	1	2	3	2	2	0	1	4	4	3	3	2	0	1	3	2	0	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:38304332C>T	uc001cce.1	-	4	885	c.744G>A	c.(742-744)AAG>AAA	p.K248K	MTF1_uc009vvj.1_5'UTR	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	248	C2H2-type 4.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TTCGAATGTGCTTCCTCAGAT	0.463													16	104					0	0	0.006122	0	0		T	38304332	T	T	38304332	2	4	1	1	0	0	0	0	0	0	0	1	9940	796	28	2		2	MTF1	1	38304332	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	77136	38304332	210946289	24	24											
MACF1	23499	broad.mit.edu	37	chr1	39800302	39800302	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagactttgcatctacgcTgaaggttctagaagcccagg	11	10	11	9	1	2	3	0	1	2	2	2	3	2	3	1	2	3	4	1	2	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:39800302T>C	uc010oiu.1	+	1	3493	c.3362T>C	c.(3361-3363)CTG>CCG	p.L1121P	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2686	Plectin 11.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GCATCTACGCTGAAGGTTCTA	0.428													14	69					0	0	0.00245	0	0		C	39800302	C	C	39800302	3	2	1	1	0	0	0	0	1	0	0	0	9162	1580	55	3	8133	3	MACF1	1	39800302	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1495970	39800302	209450319	25	25											
HIVEP3	59269	broad.mit.edu	37	chr1	42041284	42041284	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcatcctcctccggctccCctctcctctcttcttccttc	2	14	4	21	1	3	0	0	0	3	0	11	1	8	0	7	1	1	2	7	1	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:42041284C>A	uc001cgz.3	-	5	6351	c.5138G>T	c.(5137-5139)GGG>GTG	p.G1713V	HIVEP3_uc001cha.3_Missense_Mutation_p.G1713V|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1713					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CTCCGGCTCCCCTCTCCTCTC	0.562													19	133					2.39187e-15	2.72285e-15	0.008871	1	0		A	42041284	A	A	42041284	3	1	1	1	0	0	0	0	1	0	0	0	7204	623	22	5	2102	5	HIVEP3	1	42041284	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2240982	42041284	207209337	26	26											
RNF220	55182	broad.mit.edu	37	chr1	44878229	44878229	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacagagtctccccacttgCgcttctcagatgcagatggc	9	9	9	14	1	2	3	1	0	2	3	4	3	2	3	2	1	2	2	2	1	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:44878229C>T	uc001clv.1	+	2	820	c.460C>T	c.(460-462)CGC>TGC	p.R154C	RNF220_uc001clw.1_Missense_Mutation_p.R154C	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	154					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TCCCCACTTGCGCTTCTCAGA	0.542													36	143					0	0	0.004878	0	0		T	44878229	T	T	44878229	3	4	1	1	0	0	0	0	1	0	0	0	13508	768	27	1	462	1	RNF220	1	44878229	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2836945	44878229	204372392	27	27											
MUTYH	4595	broad.mit.edu	37	chr1	45797950	45797950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggttgaaatctcctggcCgggctgggtccaccagctgc	5	10	13	13	1	1	1	0	1	1	0	3	1	2	1	4	4	2	3	4	4	1	2	rs149866955	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:45797950C>T	uc001cnm.2	-	10	1028	c.812G>A	c.(811-813)CGG>CAG	p.R271Q	MUTYH_uc009vxn.2_Missense_Mutation_p.R96Q|MUTYH_uc001cnf.2_Missense_Mutation_p.R246Q|MUTYH_uc009vxo.2_Missense_Mutation_p.R246Q|MUTYH_uc001cng.2_Missense_Mutation_p.R257Q|MUTYH_uc001cnj.2_Missense_Mutation_p.R154Q|MUTYH_uc001cni.2_Missense_Mutation_p.R246Q|MUTYH_uc001cnh.2_Missense_Mutation_p.R247Q|MUTYH_uc001cno.2_Missense_Mutation_p.R154Q|MUTYH_uc001cnk.2_Missense_Mutation_p.R131Q|MUTYH_uc010oll.1_Intron|MUTYH_uc001cnl.2_Missense_Mutation_p.R260Q|MUTYH_uc009vxp.2_Missense_Mutation_p.R274Q|MUTYH_uc001cnn.2_Missense_Mutation_p.R261Q	NM_012222	NP_036354	Q9UIF7	MUTYH_HUMAN	mutY homolog isoform 1	271					depurination|mismatch repair	nucleoplasm	4 iron, 4 sulfur cluster binding|DNA N-glycosylase activity|endonuclease activity|metal ion binding|MutSalpha complex binding				0	Acute lymphoblastic leukemia(166;0.155)					ATCTCCTGGCCGGGCTGGGTC	0.612			Mis			colorectal		BER_DNA_glycosylases	MUTYH-associated_polyposis				6	61					0	0	0.00308	0	0		T	45797950	T	T	45797950	3	4	1	1	0	0	0	0	1	0	0	0	10011	652	23	1	856	1	MUTYH	1	45797950	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	919721	45797950	203452671	28	28											
TSPAN1	10103	broad.mit.edu	37	chr1	46650505	46650505	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcctgccatcaagaaagatTatggttcccaggaagacttc	12	10	9	10	0	1	3	1	0	0	3	3	4	2	4	3	2	2	1	3	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:46650505T>C	uc001cpd.2	+	6	852	c.388T>C	c.(388-390)TAT>CAT	p.Y130H	TSPAN1_uc009vyd.1_Missense_Mutation_p.Y130H	NM_005727	NP_005718	O60635	TSN1_HUMAN	tetraspan 1	130	Extracellular (Potential).					integral to membrane|lysosomal membrane				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Medulloblastoma(700;0.00498)|all_neural(321;0.0212)				CAAGAAAGATTATGGTTCCCA	0.542													14	163					0	0	0.00245	0	0		C	46650505	C	C	46650505	3	2	1	1	0	0	0	0	1	0	0	0	16659	1754	61	3	402	3	TSPAN1	1	46650505	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	852555	46650505	202600116	29	29											
KIAA0494	9813	broad.mit.edu	37	chr1	47154079	47154079	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctcatagcaaccacatcGctttctatcaggttgactct	9	14	6	12	1	4	1	2	1	2	0	5	1	4	1	1	1	3	4	1	1	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:47154079G>A	uc001cqk.3	-	7	1910	c.933C>T	c.(931-933)AGC>AGT	p.S311S	KIAA0494_uc010omh.1_Intron|KIAA0494_uc010omj.1_Intron|KIAA0494_uc001cql.1_Silent_p.S311S	NM_014774	NP_055589	O75071	K0494_HUMAN	hypothetical protein LOC9813	311							calcium ion binding				0	Acute lymphoblastic leukemia(166;0.155)					CAACCACATCGCTTTCTATCA	0.443													33	259					0	0	0.003271	0	0		A	47154079	A	A	47154079	2	1	1	1	0	0	0	0	0	0	0	1	8195	1078	38	1		1	KIAA0494	1	47154079	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	503574	47154079	202096542	30	30											
NRD1	4898	broad.mit.edu	37	chr1	52344138	52344138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgccttgttccttccaggCatggccagaataggaaaggg	9	10	12	10	1	0	1	0	0	0	1	3	2	2	2	4	4	0	2	4	4	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:52344138C>T	uc001ctc.3	-	1	472	c.150G>A	c.(148-150)ATG>ATA	p.M50I	NRD1_uc001ctd.3_Missense_Mutation_p.M50I|NRD1_uc001cte.2_5'Flank|NRD1_uc001ctf.2_Missense_Mutation_p.M50I|NRD1_uc010ong.1_Intron|NRD1_uc009vzc.1_5'Flank	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	50					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						TCCTTCCAGGCATGGCCAGAA	0.642													8	41					0	0	0.00308	0	0		T	52344138	T	T	52344138	3	4	1	1	0	0	0	0	1	0	0	0	10664	710	25	2	3641	2	NRD1	1	52344138	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5190059	52344138	196906483	31	31											
DHCR24	1718	broad.mit.edu	37	chr1	55319114	55319114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggccactcacccatgcaCgctgcggacaaacttctcca	9	7	8	17	2	2	0	1	0	1	0	3	1	2	1	3	2	3	2	3	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:55319114C>T	uc001cyc.1	-	8	1519	c.1390G>A	c.(1390-1392)GTG>ATG	p.V464M	DHCR24_uc010ooi.1_Missense_Mutation_p.V107M|DHCR24_uc010ooj.1_Missense_Mutation_p.V278M|DHCR24_uc010ook.1_Missense_Mutation_p.V423M	NM_014762	NP_055577	Q15392	DHC24_HUMAN	24-dehydrocholesterol reductase precursor	464					anti-apoptosis|apoptosis|cell cycle arrest|cholesterol biosynthetic process|negative regulation of caspase activity|neuroprotection|response to oxidative stress|skin development	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus	delta24-sterol reductase activity|enzyme binding|flavin adenine dinucleotide binding|peptide antigen binding			pancreas(1)	1						CACCCATGCACGCTGCGGACA	0.567													5	36					0	0	0.001168	0	0		T	55319114	T	T	55319114	3	4	1	1	0	0	0	0	1	0	0	0	4482	536	19	1	168	1	DHCR24	1	55319114	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2974976	55319114	193931507	32	32											
USP24	23358	broad.mit.edu	37	chr1	55591012	55591012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgtattgcaactcgagcaGcagggatgatttcctcaacc	10	11	9	11	1	1	1	1	1	0	0	3	3	2	2	2	1	5	4	2	1	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:55591012G>A	uc001cyg.3	-	31	3461	c.3461C>T	c.(3460-3462)GCT>GTT	p.A1154V		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	1314					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						AACTCGAGCAGCAGGGATGAT	0.388													14	133					0	0	0.001855	0	0		A	55591012	A	A	55591012	3	1	1	1	0	0	0	0	1	0	0	0	17081	971	34	2	4061	2	USP24	1	55591012	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	271898	55591012	193659609	33	33											
C8A	731	broad.mit.edu	37	chr1	57340626	57340626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaaaatctggtttagtaccGacaccggagcctcttgcagc	10	10	9	12	2	3	0	1	0	2	0	3	2	3	1	3	2	4	3	3	2	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:57340626G>A	uc001cyo.2	+	3	308	c.176G>A	c.(175-177)CGA>CAA	p.R59Q		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	59	TSP type-1 1.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex		p.R59Q(1)		ovary(1)|central_nervous_system(1)|skin(1)	3						GTTTAGTACCGACACCGGAGC	0.413													7	42					0	0	0.00308	0	0		A	57340626	A	A	57340626	3	1	1	1	0	0	0	0	1	0	0	0	2419	1058	37	1	186	1	C8A	1	57340626	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1749614	57340626	191909995	34	34											
ANKRD13C	81573	broad.mit.edu	37	chr1	70819761	70819761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgcaccgggtagtgtgcggGgcaactgcctccatccgcga	6	7	15	13	4	0	0	0	0	0	0	2	1	2	0	4	3	4	3	4	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:70819761G>A	uc001dex.3	-	1	657	c.331C>T	c.(331-333)CCC>TCC	p.P111S	ANKRD13C_uc009wbk.2_Missense_Mutation_p.P111S|ANKRD13C_uc001dey.3_Missense_Mutation_p.P111S|HHLA3_uc010oqp.1_5'Flank|HHLA3_uc001dfa.2_5'Flank|HHLA3_uc001dfb.2_5'Flank|HHLA3_uc001dfc.2_5'Flank	NM_030816	NP_110443	Q8N6S4	AN13C_HUMAN	ankyrin repeat domain 13C	111	ANK 1.				protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0						TAGTGTGCGGGGCAACTGCCT	0.617													5	42					0	0	0.000602	0	0		A	70819761	A	A	70819761	3	1	1	1	0	0	0	0	1	0	0	0	643	1232	43	4	1346	4	ANKRD13C	1	70819761	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	13479135	70819761	178430860	35	35											
TNNI3K	51086	broad.mit.edu	37	chr1	74834788	74834788	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaattgagttccatgagatTattggctcaggtaacctaaa	14	12	9	6	0	1	2	1	2	0	1	2	4	2	2	2	2	1	3	2	2	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:74834788T>C	uc001dgf.1	+	14	1455	c.1404T>C	c.(1402-1404)ATT>ATC	p.I468I	TNNI3K_uc001dgc.1_Silent_p.I569I|TNNI3K_uc001dgd.2_Silent_p.I569I|TNNI3K_uc001dge.1_Silent_p.I569I	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	468	Protein kinase.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						TCCATGAGATTATTGGCTCAG	0.328													13	65					0	0	0.001368	0	0		C	74834788	C	C	74834788	2	2	1	1	0	0	0	0	0	0	0	1	16354	1742	61	3		3	TNNI3K	1	74834788	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	4015027	74834788	174415833	36	36											
LHX8	431707	broad.mit.edu	37	chr1	75622741	75622741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatggaacgatgttaactgCgctgcatagttatatggatg	12	12	12	5	2	0	1	0	0	0	1	0	4	0	3	0	2	4	4	0	2	5	4	rs34889650	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:75622741C>T	uc001dgo.2	+	9	1638	c.974C>T	c.(973-975)GCG>GTG	p.A325V	LHX8_uc001dgq.2_Missense_Mutation_p.A264V	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	325						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						ATGTTAACTGCGCTGCATAGT	0.453													12	118					0	0	0.001368	0	0		T	75622741	T	T	75622741	3	4	1	1	0	0	0	0	1	0	0	0	8792	768	27	1	1004	1	LHX8	1	75622741	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	787953	75622741	173627880	37	37											
MSH4	4438	broad.mit.edu	37	chr1	76272810	76272810	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actatcccagtttgcagacaAcacaacatatgcaaaggtaa	17	8	6	10	0	0	1	0	0	0	1	1	1	1	1	1	1	4	4	1	1	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:76272810A>G	uc001dhd.1	+	3	613	c.572A>G	c.(571-573)AAC>AGC	p.N191S		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	191					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						TTTGCAGACAACACAACATAT	0.373								MMR					15	173					0	0	0.006122	0	0		G	76272810	G	G	76272810	3	3	1	1	0	0	0	0	1	0	0	0	9890	43	2	3	582	3	MSH4	1	76272810	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	650069	76272810	172977811	38	38											
IFI44	10561	broad.mit.edu	37	chr1	79120723	79120723	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagagcttactgtctgcCttgagaacttatgaaccata	13	11	9	8	0	1	3	0	2	1	2	1	5	1	4	2	1	5	1	2	1	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:79120723C>A	uc001dip.3	+	4	643	c.519C>A	c.(517-519)GCC>GCA	p.A173A	IFI44_uc010orr.1_Silent_p.A173A|IFI44_uc010ors.1_5'UTR	NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	173					response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2						TACTGTCTGCCTTGAGAACTT	0.413													13	120					6.53275e-17	7.4724e-17	0.00245	1	0		A	79120723	A	A	79120723	2	1	1	1	0	0	0	0	0	0	0	1	7533	668	24	5		5	IFI44	1	79120723	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2847913	79120723	170129898	39	39											
ELTD1	64123	broad.mit.edu	37	chr1	79412005	79412005	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataaacctgtcttggttactGctggatctgaagccaggtac	10	12	10	9	0	2	1	0	1	2	0	2	2	2	2	2	3	5	3	2	3	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:79412005G>A	uc001diq.3	-	3	435	c.279C>T	c.(277-279)AGC>AGT	p.S93S		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	93	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		CTTGGTTACTGCTGGATCTGA	0.363													10	77					0	0	0.008291	0	0		A	79412005	A	A	79412005	2	1	1	1	0	0	0	0	0	0	0	1	5092	1310	46	2		2	ELTD1	1	79412005	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	291282	79412005	169838616	40	40											
CLCA4	22802	broad.mit.edu	37	chr1	87045052	87045052	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaggggaaattgaagcaaAcccgccaagacctgaaattg	15	6	11	9	1	0	3	0	2	0	1	0	4	0	4	3	2	3	2	3	2	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:87045052A>G	uc009wcs.2	+	13	2182	c.2138A>G	c.(2137-2139)AAC>AGC	p.N713S	CLCA4_uc009wct.2_Missense_Mutation_p.N476S|CLCA4_uc009wcu.2_Missense_Mutation_p.N533S	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	713						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		ATTGAAGCAAACCCGCCAAGA	0.423													10	71					0	0	0.006214	0	0		G	87045052	G	G	87045052	3	3	1	1	0	0	0	0	1	0	0	0	3462	43	2	3	2188	3	CLCA4	1	87045052	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	7633047	87045052	162205569	41	41											
GBP2	2634	broad.mit.edu	37	chr1	89579814	89579814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctcctggagggtttccGtgggcagctgcaccttctgg	4	10	15	12	1	1	0	0	0	1	0	3	1	3	1	3	4	3	6	3	4	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:89579814G>A	uc001dmz.1	-	7	1305	c.1034C>T	c.(1033-1035)ACG>ATG	p.T345M	GBP2_uc001dmy.1_RNA	NM_004120	NP_004111	P32456	GBP2_HUMAN	guanylate binding protein 2,	345					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)	1		Lung NSC(277;0.0908)		all cancers(265;0.0151)|Epithelial(280;0.0284)		GAGGGTTTCCGTGGGCAGCTG	0.542													24	182					0	0	0.003954	0	0		A	89579814	A	A	89579814	3	1	1	1	0	0	0	0	1	0	0	0	6289	1145	40	1	761	1	GBP2	1	89579814	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2534762	89579814	159670807	42	42											
GBP5	115362	broad.mit.edu	37	chr1	89735131	89735131	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcgctaccacaactacaggTtgcgtaatggcagacaggat	13	8	10	10	2	0	1	0	0	0	1	1	2	0	2	1	3	4	4	1	3	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:89735131T>C	uc001dnc.2	-	3	645	c.108A>G	c.(106-108)CAA>CAG	p.Q36Q	GBP5_uc001dnd.2_Silent_p.Q36Q|GBP5_uc001dne.1_Silent_p.Q36Q	NM_052942	NP_443174	Q96PP8	GBP5_HUMAN	guanylate-binding protein 5	36						plasma membrane	GTP binding|GTPase activity			ovary(1)	1				all cancers(265;0.00784)|Epithelial(280;0.0286)		CAACTACAGGTTGCGTAATGG	0.493													5	289					0	0	0.001168	0	0		C	89735131	C	C	89735131	2	2	1	1	0	0	0	0	0	0	0	1	6292	1722	60	3		3	GBP5	1	89735131	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	155317	89735131	159515490	43	43											
LRRC8B	23507	broad.mit.edu	37	chr1	90048552	90048552	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgttacgagaaacagctcCattggtttgcaaagtttttc	10	15	8	8	1	1	1	0	0	1	1	3	2	2	1	1	1	4	5	1	1	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:90048552C>A	uc001dni.2	+	7	850	c.343C>A	c.(343-345)CAT>AAT	p.H115N	LRRC8B_uc001dnh.2_Missense_Mutation_p.H115N|LRRC8B_uc001dnj.2_Missense_Mutation_p.H115N	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	115						integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		GAAACAGCTCCATTGGTTTGC	0.512													28	274					7.76418e-22	8.92374e-22	0.005443	1	0		A	90048552	A	A	90048552	3	1	1	1	0	0	0	0	1	0	0	0	9040	594	21	5	345	5	LRRC8B	1	90048552	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	313421	90048552	159202069	44	44											
EVI5	7813	broad.mit.edu	37	chr1	93257933	93257933	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtttctaaaggcagcagTcattttgttggtaaccatga	11	13	11	6	0	2	1	1	1	1	0	2	1	2	1	1	3	2	5	1	3	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:93257933T>C	uc001dox.2	-	1	29	c.19A>G	c.(19-21)ACT>GCT	p.T7A	EVI5_uc010otf.1_Missense_Mutation_p.T7A	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	7	Interaction with alpha-tubulin, gamma- tubulin, BIRC5 and FBXO5.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		AAGGCAGCAGTCATTTTGTTG	0.348													12	98					0	0	0.003163	0	0		C	93257933	C	C	93257933	3	2	1	1	0	0	0	0	1	0	0	0	5297	1667	58	3	2485	3	EVI5	1	93257933	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3209381	93257933	155992688	45	45											
ABCA4	24	broad.mit.edu	37	chr1	94512630	94512630	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggaacccaccctggatgCtcacgttcaaagaaggagtc	12	6	10	13	1	2	1	2	0	0	1	3	4	2	4	3	3	2	2	3	3	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:94512630C>T	uc001dqh.2	-	19	2867	c.2763G>A	c.(2761-2763)GAG>GAA	p.E921E	ABCA4_uc010otn.1_Silent_p.E847E	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	921	Cytoplasmic.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		ACCCTGGATGCTCACGTTCAA	0.493													33	174					0	0	0.002836	0	0		T	94512630	T	T	94512630	2	4	1	1	0	0	0	0	0	0	0	1	34	796	28	2		2	ABCA4	1	94512630	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1254697	94512630	154737991	46	46											
AGL	178	broad.mit.edu	37	chr1	100350169	100350169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcgctgttggaattcttcGaaatcatctgacacaattca	12	13	7	9	2	4	1	2	1	2	0	6	3	4	2	0	1	0	2	0	1	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:100350169G>A	uc001dsi.1	+	20	2991	c.2591G>A	c.(2590-2592)CGA>CAA	p.R864Q	AGL_uc001dsj.1_Missense_Mutation_p.R864Q|AGL_uc001dsk.1_Missense_Mutation_p.R864Q|AGL_uc001dsl.1_Missense_Mutation_p.R864Q|AGL_uc001dsm.1_Missense_Mutation_p.R848Q|AGL_uc001dsn.1_Missense_Mutation_p.R847Q	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	864	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		GGAATTCTTCGAAATCATCTG	0.333													15	142					0	0	0.007413	0	0		A	100350169	A	A	100350169	3	1	1	1	0	0	0	0	1	0	0	0	384	1058	37	1	2734	1	AGL	1	100350169	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5837539	100350169	148900452	47	47											
SLC25A24	29957	broad.mit.edu	37	chr1	108697684	108697684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catttcccctccaaagcgagCggatacctccttcttttacc	8	12	5	16	2	1	0	0	0	1	0	4	2	4	1	6	1	4	0	6	1	3	5	rs143348106		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:108697684C>T	uc001dvn.3	-	6	957	c.743G>A	c.(742-744)CGC>CAC	p.R248H	SLC25A24_uc001dvm.2_Missense_Mutation_p.R229H	NM_013386	NP_037518	Q6NUK1	SCMC1_HUMAN	solute carrier family 25 member 24 isoform 1	248	Solcar 1.|Mitochondrial matrix (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)	1		all_epithelial(167;3.72e-05)|all_lung(203;0.000567)|Lung NSC(277;0.0011)|Melanoma(281;0.211)		Colorectal(144;0.0345)|Lung(183;0.0971)|COAD - Colon adenocarcinoma(174;0.127)|Epithelial(280;0.134)		CCAAAGCGAGCGGATACCTCC	0.393													18	133					0	0	0.008871	0	0		T	108697684	T	T	108697684	3	4	1	1	0	0	0	0	1	0	0	0	14512	768	27	1	710	1	SLC25A24	1	108697684	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	8347515	108697684	140552937	48	48											
KIAA1324	57535	broad.mit.edu	37	chr1	109740119	109740119	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaaatgtctgtgtgcacCgacaatgtcactgacctccg	11	9	10	11	2	2	1	1	1	1	0	3	3	3	2	3	1	1	1	3	1	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:109740119C>T	uc001dwq.2	+	17	2281	c.2145C>T	c.(2143-2145)ACC>ACT	p.T715T	KIAA1324_uc009wex.1_Silent_p.T665T|KIAA1324_uc009wey.2_Silent_p.T628T|KIAA1324_uc010ovg.1_Silent_p.T613T|KIAA1324_uc001dwr.2_Silent_p.T365T|KIAA1324_uc001dws.1_RNA|KIAA1324_uc009wez.1_RNA	NM_020775	NP_065826	Q6UXG2	K1324_HUMAN	hypothetical protein LOC57535 precursor	715	Extracellular (Potential).				macroautophagy|positive regulation of vacuole organization|regulation of apoptosis	integral to plasma membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	5		all_epithelial(167;0.000102)|all_lung(203;0.000323)|Lung NSC(277;0.00063)		Colorectal(144;0.0188)|Lung(183;0.0527)|COAD - Colon adenocarcinoma(174;0.14)|Epithelial(280;0.21)|all cancers(265;0.249)		CTGTGTGCACCGACAATGTCA	0.537													12	175					0	0	0.00245	0	0		T	109740119	T	T	109740119	2	4	1	1	0	0	0	0	0	0	0	1	8239	639	23	1		1	KIAA1324	1	109740119	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1042435	109740119	139510502	49	49											
AHCYL1	10768	broad.mit.edu	37	chr1	110561069	110561069	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtatgcaatatgggccacTccaacacagaaatcgatgtg	13	9	9	10	2	0	1	0	0	0	1	3	2	1	1	2	1	2	2	2	1	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:110561069T>C	uc001dyx.2	+	12	1565	c.1198T>C	c.(1198-1200)TCC>CCC	p.S400P	AHCYL1_uc010ovw.1_Missense_Mutation_p.S353P|AHCYL1_uc001dyy.2_Missense_Mutation_p.S353P|AHCYL1_uc010ovx.1_Missense_Mutation_p.S353P	NM_006621	NP_006612	O43865	SAHH2_HUMAN	S-adenosylhomocysteine hydrolase-like 1	400	NAD binding (By similarity).				one-carbon metabolic process	endoplasmic reticulum	adenosylhomocysteinase activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0259)|Colorectal(144;0.123)|all cancers(265;0.134)|Epithelial(280;0.141)|LUSC - Lung squamous cell carcinoma(189;0.143)		TATGGGCCACTCCAACACAGA	0.403													8	89					0	0	0.004482	0	0		C	110561069	C	C	110561069	3	2	1	1	0	0	0	0	1	0	0	0	410	1551	54	3	1244	3	AHCYL1	1	110561069	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	820950	110561069	138689552	50	50											
SLC16A4	9122	broad.mit.edu	37	chr1	110924274	110924274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cataattacaatggactcacCgggtagaagtcccatagtca	14	9	8	10	1	2	1	2	0	0	1	3	2	3	2	2	2	1	1	2	2	6	4	rs145736696		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:110924274C>T	uc001dzo.1	-	4	546	c.364G>A	c.(364-366)GGT>AGT	p.G122S	SLC16A4_uc009wfs.1_Intron|SLC16A4_uc001dzp.1_Missense_Mutation_p.G122S|SLC16A4_uc010ovy.1_Missense_Mutation_p.G60S|SLC16A4_uc001dzq.1_Missense_Mutation_p.G60S|SLC16A4_uc010ovz.1_Intron	NM_004696	NP_004687	O15374	MOT5_HUMAN	solute carrier family 16, member 4	122	Helical; (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			ovary(3)	3		all_cancers(81;0.000476)|all_epithelial(167;0.000401)|all_lung(203;0.00277)|Lung NSC(277;0.0043)		Lung(183;0.0251)|all cancers(265;0.0766)|Epithelial(280;0.0807)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.14)	Pyruvic acid(DB00119)	ATGGACTCACCGGGTAGAAGT	0.294													4	47					0	0	0.009096	0	0		T	110924274	T	T	110924274	3	4	1	1	0	0	0	0	1	0	0	0	14435	666	23	1	1123	1	SLC16A4	1	110924274	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	363205	110924274	138326347	51	51											
KCNA3	3738	broad.mit.edu	37	chr1	111216142	111216142	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccagaaggcatccgggatGctgctgaaacctgaagtggg	11	6	14	10	1	0	3	0	2	0	1	1	4	1	4	3	3	3	3	3	3	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:111216142G>A	uc001dzv.1	-	1	1514	c.1290C>T	c.(1288-1290)AGC>AGT	p.S430S		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	430						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		CATCCGGGATGCTGCTGAAAC	0.542													8	59					0	0	0.006214	0	0		A	111216142	A	A	111216142	2	1	1	1	0	0	0	0	0	0	0	1	8020	1310	46	2		2	KCNA3	1	111216142	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	291868	111216142	138034479	52	52											
C1orf103	55791	broad.mit.edu	37	chr1	111495091	111495091	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtccatcaattttcacacCatgactctgaactttagaaa	14	12	5	10	0	3	3	2	2	1	1	4	4	4	3	2	0	1	0	2	0	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:111495091C>A	uc001eaa.2	-	2	671	c.415G>T	c.(415-417)GGT>TGT	p.G139C	C1orf103_uc001dzz.2_Intron|C1orf103_uc001eab.2_Intron|C1orf103_uc001eac.1_Intron	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	139					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		ATTTTCACACCATGACTCTGA	0.363													16	164					1.3612e-06	1.47515e-06	0.003163	1	0		A	111495091	A	A	111495091	3	1	1	1	0	0	0	0	1	0	0	0	1980	594	21	5	1906	5	C1orf103	1	111495091	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	278949	111495091	137755530	53	53											
ADORA3	140	broad.mit.edu	37	chr1	112042838	112042838	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagaaccagaaacaaggActtagccgtcttgaactccc	16	6	8	11	1	1	3	0	1	1	2	2	5	2	4	3	1	4	0	3	1	7	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:112042838A>C	uc001ebh.3	-	2	1458	c.691T>G	c.(691-693)TCC>GCC	p.S231A	ADORA3_uc001ebg.3_Intron|ADORA3_uc001ebf.2_Intron	NM_000677	NP_000668	P33765	AA3R_HUMAN	adenosine A3 receptor isoform 2	231	Cytoplasmic (By similarity).				activation of adenylate cyclase activity|inflammatory response|regulation of heart contraction	integral to plasma membrane	adenosine receptor activity, G-protein coupled			ovary(2)|large_intestine(1)|skin(1)	4		all_cancers(81;1.63e-06)|all_epithelial(167;5.01e-06)|all_lung(203;8.02e-05)|Lung NSC(277;0.000156)		all cancers(265;0.0185)|Colorectal(144;0.0186)|Lung(183;0.0238)|COAD - Colon adenocarcinoma(174;0.0644)|Epithelial(280;0.0872)|LUSC - Lung squamous cell carcinoma(189;0.134)	Adenosine(DB00640)|Aminophylline(DB01223)	AGAAACAAGGACTTAGCCGTC	0.413													8	105					0	0	0.00308	0	0		C	112042838	C	C	112042838	3	2	1	1	0	0	0	0	1	0	0	0	329	275	10	5	983	5	ADORA3	1	112042838	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	547747	112042838	137207783	54	54											
RSBN1	54665	broad.mit.edu	37	chr1	114320337	114320337	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catatcaaggaactctgggaAataatcaccaacttcttcat	15	11	5	10	0	5	0	3	0	2	0	5	2	5	2	1	2	2	0	1	2	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:114320337A>G	uc001edq.2	-	3	1507	c.1471T>C	c.(1471-1473)TTC>CTC	p.F491L	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	491						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AACTCTGGGAAATAATCACCA	0.393													10	69					0	0	0.006214	0	0		G	114320337	G	G	114320337	3	3	1	1	0	0	0	0	1	0	0	0	13721	14	1	3	957	3	RSBN1	1	114320337	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2277499	114320337	134930284	55	55											
IGSF3	3321	broad.mit.edu	37	chr1	117142762	117142762	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcgggttcggaagctggaGgacctgtccccccactggac	6	8	14	13	2	0	0	0	0	0	0	3	4	1	4	4	5	1	3	4	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:117142762G>T	uc001egr.1	-	7	2535	c.1830C>A	c.(1828-1830)TCC>TCA	p.S610S	IGSF3_uc001egq.1_Silent_p.S630S|IGSF3_uc001egs.1_Silent_p.S283S	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	610	Ig-like C2-type 5.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		GGAAGCTGGAGGACCTGTCCC	0.632													3	32					0.00909568	0.00931889	0.009096	1	0		T	117142762	T	T	117142762	2	4	1	1	0	0	0	0	0	0	0	1	7617	987	35	5		5	IGSF3	1	117142762	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2822425	117142762	132107859	56	56											
PTGFRN	5738	broad.mit.edu	37	chr1	117492122	117492122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgtgtccctgtgggcacccGgacacaacaggagctggcac	9	5	13	14	2	0	0	0	0	0	0	1	2	1	2	2	4	2	3	2	4	1	0	rs150341125	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:117492122G>A	uc001egv.1	+	4	1278	c.1141G>A	c.(1141-1143)GGA>AGA	p.G381R		NM_020440	NP_065173	Q9P2B2	FPRP_HUMAN	prostaglandin F2 receptor negative regulator	381	Ig-like C2-type 3.|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	protein binding			liver(1)	1	Lung SC(450;0.225)	all_cancers(81;0.00104)|all_lung(203;8.97e-05)|all_epithelial(167;0.000139)|Lung NSC(69;0.000446)		Lung(183;0.0704)|LUSC - Lung squamous cell carcinoma(189;0.227)|Colorectal(144;0.248)		GTGGGCACCCGGACACAACAG	0.532													13	113					0	0	0.00499	0	0		A	117492122	A	A	117492122	3	1	1	1	0	0	0	0	1	0	0	0	12773	1117	39	1	1155	1	PTGFRN	1	117492122	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	349360	117492122	131758499	57	57											
TTF2	8458	broad.mit.edu	37	chr1	117626723	117626723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaaaatgaggtggagaaaCgggtgaacagcaacaaacta	19	4	13	5	1	0	3	0	2	0	1	0	5	0	4	0	4	5	1	0	4	7	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:117626723C>T	uc001egy.2	+	11	2007	c.1987C>T	c.(1987-1989)CGG>TGG	p.R663W		NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	663	Helicase ATP-binding.				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		GGTGGAGAAACGGGTGAACAG	0.473													13	162					0	0	0.001368	0	0		T	117626723	T	T	117626723	3	4	1	1	0	0	0	0	1	0	0	0	16745	527	19	1	2029	1	TTF2	1	117626723	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	134601	117626723	131623898	58	58											
ANKRD35	148741	broad.mit.edu	37	chr1	145558843	145558843	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatctgtgcaggatggacgTacacccctgatgatcgcatc	10	9	10	12	2	1	2	0	2	1	0	3	4	1	4	2	2	2	3	2	2	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:145558843T>C	uc001eob.1	+	7	570	c.462T>C	c.(460-462)CGT>CGC	p.R154R	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_5'UTR	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	154	ANK 4.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					AGGATGGACGTACACCCCTGA	0.562													16	139					0	0	0.004007	0	0		C	145558843	C	C	145558843	2	2	1	1	0	0	0	0	0	0	0	1	664	1625	57	3		3	ANKRD35	1	145558843	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	27932120	145558843	103691778	59	59											
CHD1L	9557	broad.mit.edu	37	chr1	146747814	146747814	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgagacactgtggaagaaAtagtctataggaaagcagcc	15	7	12	7	1	1	2	0	0	1	2	2	5	1	4	1	2	2	1	1	2	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:146747814A>T	uc001epm.3	+	14	1495	c.1432A>T	c.(1432-1434)ATA>TTA	p.I478L	uc001epp.2_Intron|CHD1L_uc001epn.3_Missense_Mutation_p.I365L|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Missense_Mutation_p.I384L|CHD1L_uc010ozp.1_Missense_Mutation_p.I197L|CHD1L_uc001epo.3_Missense_Mutation_p.I274L|CHD1L_uc010ozq.1_Missense_Mutation_p.I51L|CHD1L_uc009wji.2_Missense_Mutation_p.I197L	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	478	Helicase C-terminal.				chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)					TGTGGAAGAAATAGTCTATAG	0.483													24	137					0	0	0.003954	0	0		T	146747814	T	T	146747814	3	4	1	1	0	0	0	0	1	0	0	0	3327	101	4	5	1486	5	CHD1L	1	146747814	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1188971	146747814	102502807	60	60											
SF3B4	10262	broad.mit.edu	37	chr1	149899128	149899128	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtccagcctggagaaacagTtcccacagcagcggttcact	10	7	11	13	1	1	1	1	0	0	1	3	2	3	1	3	3	4	3	3	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:149899128T>A	uc001etj.1	-	2	144	c.93A>T	c.(91-93)GAA>GAT	p.E31D	SF3B4_uc001eti.1_5'Flank|SF3B4_uc001etk.1_Missense_Mutation_p.E31D|SF3B4_uc009wll.1_Missense_Mutation_p.E31D	NM_005850	NP_005841	Q15427	SF3B4_HUMAN	splicing factor 3b, subunit 4	31	RRM 1.					nucleoplasm|U12-type spliceosomal complex	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Breast(34;0.0009)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			GGAGAAACAGTTCCCACAGCA	0.542													9	103					0	0	0.010729	0	0		A	149899128	A	A	149899128	3	1	1	1	0	0	0	0	1	0	0	0	14178	1722	60	5	1201	5	SF3B4	1	149899128	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3151314	149899128	99351493	61	61											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150530959	150530959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccctcagtgctccgtgcGgtgcggccggggccagagaa	5	5	16	15	4	1	1	1	0	0	1	2	2	2	1	5	4	3	1	5	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:150530959G>A	uc001eux.2	+	15	2629	c.2393G>A	c.(2392-2394)CGG>CAG	p.R798Q	ADAMTSL4_uc001euw.2_Missense_Mutation_p.R798Q|ADAMTSL4_uc009wlw.2_Missense_Mutation_p.R821Q|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.R759Q|ADAMTSL4_uc009wlx.2_5'UTR	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	798	TSP type-1 3.				apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			TGCTCCGTGCGGTGCGGCCGG	0.657													6	29					0	0	0.001984	0	0		A	150530959	A	A	150530959	3	1	1	1	0	0	0	0	1	0	0	0	277	1116	39	1	2443	1	ADAMTSL4	1	150530959	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	631831	150530959	98719662	62	62											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150530983	150530983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggccggggccagagaagccGgcaggttcgctgtgttggga	6	6	19	10	4	0	1	0	0	0	1	1	3	0	2	3	6	1	4	3	6	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:150530983G>A	uc001eux.2	+	15	2653	c.2417G>A	c.(2416-2418)CGG>CAG	p.R806Q	ADAMTSL4_uc001euw.2_Missense_Mutation_p.R806Q|ADAMTSL4_uc009wlw.2_Missense_Mutation_p.R829Q|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.R767Q|ADAMTSL4_uc009wlx.2_5'UTR	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	806	TSP type-1 3.				apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CAGAGAAGCCGGCAGGTTCGC	0.662													8	36					0	0	0.010729	0	0		A	150530983	A	A	150530983	3	1	1	1	0	0	0	0	1	0	0	0	277	1116	39	1	2467	1	ADAMTSL4	1	150530983	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	24	150530983	98719638	63	63											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150532582	150532582	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattgccccctggtggtacaGgcccggctctgcgtctaccc	4	9	11	17	2	2	0	0	0	2	0	2	0	2	0	4	4	4	2	4	4	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:150532582G>T	uc001eux.2	+	19	3371	c.3135G>T	c.(3133-3135)CAG>CAT	p.Q1045H	ADAMTSL4_uc009wlw.2_Missense_Mutation_p.Q1068H|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.Q1006H|ADAMTSL4_uc009wlx.2_Missense_Mutation_p.Q208H	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	1045	PLAC.				apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			TGGTGGTACAGGCCCGGCTCT	0.622											OREG0013787	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	140					2.89027e-11	3.23943e-11	0.002299	1	0		T	150532582	T	T	150532582	3	4	1	1	0	0	0	0	1	0	0	0	277	991	35	5	3276	5	ADAMTSL4	1	150532582	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1599	150532582	98718039	64	64											
KPRP	448834	broad.mit.edu	37	chr1	152733224	152733224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcttctgtccaccacggcGtcttgaccagtgtccagagt	8	10	10	13	2	2	2	0	1	2	1	4	2	4	2	4	1	1	1	4	1	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:152733224G>A	uc001fal.1	+	2	1218	c.1160G>A	c.(1159-1161)CGT>CAT	p.R387H		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	387	Pro-rich.					cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCACCACGGCGTCTTGACCAG	0.642													22	52					0	0	0.003954	0	0		A	152733224	A	A	152733224	3	1	1	1	0	0	0	0	1	0	0	0	8452	1145	40	1	1162	1	KPRP	1	152733224	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2200642	152733224	96517397	65	65											
INTS3	65123	broad.mit.edu	37	chr1	153745538	153745538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccaatgccgaagaagagtCgggctccagcagtgcttcag	10	6	12	13	2	1	2	1	0	0	2	3	3	2	2	4	1	3	3	4	1	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:153745538C>T	uc009wom.2	+	30	3253	c.3032C>T	c.(3031-3033)TCG>TTG	p.S1011L	INTS3_uc001fct.2_Missense_Mutation_p.S1011L|INTS3_uc001fcu.2_Missense_Mutation_p.S703L|INTS3_uc001fcv.2_Missense_Mutation_p.S805L|INTS3_uc010peb.1_Missense_Mutation_p.S871L|INTS3_uc001fcw.2_Missense_Mutation_p.S524L|INTS3_uc010pec.1_Missense_Mutation_p.S524L|INTS3_uc001fcy.2_Missense_Mutation_p.S374L|INTS3_uc001fcx.2_Missense_Mutation_p.S308L	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	1012					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GAAGAAGAGTCGGGCTCCAGC	0.612													12	127					0	0	0.001368	0	0		T	153745538	T	T	153745538	3	4	1	1	0	0	0	0	1	0	0	0	7795	893	31	1	3146	1	INTS3	1	153745538	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1012314	153745538	95505083	66	66											
ADAR	103	broad.mit.edu	37	chr1	154569663	154569663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttcatggcttcctctgcgGccatctgctttgccactttc	3	15	7	16	1	3	0	1	0	2	0	5	0	4	0	4	2	3	2	4	2	0	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:154569663G>A	uc001ffh.2	-	5	2215	c.2015C>T	c.(2014-2016)GCC>GTC	p.A672V	ADAR_uc001ffj.2_Missense_Mutation_p.A672V|ADAR_uc001ffi.2_Missense_Mutation_p.A672V|ADAR_uc001ffk.2_Missense_Mutation_p.A377V	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	672	DRBM 2.				adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		TTCCTCTGCGGCCATCTGCTT	0.532													6	95					0	0	0.00308	0	0		A	154569663	A	A	154569663	3	1	1	1	0	0	0	0	1	0	0	0	281	1203	42	2	1709	2	ADAR	1	154569663	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	824125	154569663	94680958	67	67											
ZBTB7B	51043	broad.mit.edu	37	chr1	154987740	154987740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgttgcccgccgcagcCgcaagccccggaaagctttc	6	6	12	17	4	0	0	0	0	0	0	1	1	0	1	6	2	4	4	6	2	2	2	rs150590726		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:154987740C>T	uc001fgk.3	+	3	762	c.604C>T	c.(604-606)CGC>TGC	p.R202C	ZBTB7B_uc009wpa.2_Missense_Mutation_p.R202C|ZBTB7B_uc001fgj.3_Missense_Mutation_p.R236C|ZBTB7B_uc010peq.1_Missense_Mutation_p.R236C|ZBTB7B_uc001fgl.3_Missense_Mutation_p.R202C	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	202					cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CCGCCGCAGCCGCAAGCCCCG	0.652													4	36					0	0	0.009096	0	0		T	154987740	T	T	154987740	3	4	1	1	0	0	0	0	1	0	0	0	17579	652	23	1	606	1	ZBTB7B	1	154987740	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	418077	154987740	94262881	68	68											
DCST1	149095	broad.mit.edu	37	chr1	155015940	155015940	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggagtgggccctggggcTgctgcacgtgctgctctcct	2	10	16	13	1	1	0	0	0	1	0	2	1	1	1	2	4	4	6	2	4	0	0	rs141900210		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:155015940T>C	uc001fgn.1	+	10	1223	c.1127T>C	c.(1126-1128)CTG>CCG	p.L376P	DCST1_uc010per.1_Missense_Mutation_p.L401P|DCST1_uc010pes.1_Missense_Mutation_p.L351P	NM_152494	NP_689707	Q5T197	DCST1_HUMAN	DC-STAMP domain containing 1 isoform 1	376	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(1)|skin(1)	2	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			GCCCTGGGGCTGCTGCACGTG	0.692													6	70					0	0	0.004482	0	0		C	155015940	C	C	155015940	3	2	1	1	0	0	0	0	1	0	0	0	4305	1580	55	3	1161	3	DCST1	1	155015940	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	28200	155015940	94234681	69	69											
HCN3	57657	broad.mit.edu	37	chr1	155253807	155253807	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccagtgctgtggttcgcAtcttcaacctcattgggatg	6	13	12	10	1	3	0	2	0	1	0	4	1	3	1	2	3	2	3	2	3	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:155253807A>G	uc001fjz.1	+	3	759	c.751A>G	c.(751-753)ATC>GTC	p.I251V	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_5'UTR	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	251	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			TGTGGTTCGCATCTTCAACCT	0.577													18	146					0	0	0.008871	0	0		G	155253807	G	G	155253807	3	3	1	1	0	0	0	0	1	0	0	0	7014	217	8	3	761	3	HCN3	1	155253807	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	237867	155253807	93996814	70	70											
PKLR	5313	broad.mit.edu	37	chr1	155263029	155263029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgaaggcagcctccacagCaccaatggcggtgacctcag	10	6	11	14	1	1	2	1	2	0	0	2	2	2	2	4	3	2	2	4	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:155263029C>T	uc001fkb.3	-	9	1414	c.1375G>A	c.(1375-1377)GCT>ACT	p.A459T	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Missense_Mutation_p.A428T	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	459			A -> V (in PKRD).		endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	GCCTCCACAGCACCAATGGCG	0.612													5	72					0	0	0.004482	0	0		T	155263029	T	T	155263029	3	4	1	1	0	0	0	0	1	0	0	0	11995	710	25	2	361	2	PKLR	1	155263029	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	9222	155263029	93987592	71	71											
RUSC1	23623	broad.mit.edu	37	chr1	155300198	155300198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggctcccctcagggcaGtgcgggctctctgtgatcac	4	10	12	15	1	4	1	2	1	2	0	6	1	5	1	2	3	1	3	2	3	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:155300198G>A	uc001fkj.2	+	10	2774	c.2545G>A	c.(2545-2547)GTG>ATG	p.V849M	RAG1AP1_uc010pey.1_Intron|RUSC1_uc001fkk.2_Missense_Mutation_p.V743M|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_Missense_Mutation_p.V380M|RUSC1_uc001fkl.2_Missense_Mutation_p.V439M|RUSC1_uc001fkp.2_Missense_Mutation_p.V380M|RUSC1_uc001fkq.2_Missense_Mutation_p.V274M|RUSC1_uc010pgb.1_Missense_Mutation_p.V347M|RUSC1_uc009wqp.1_Missense_Mutation_p.V374M|RUSC1_uc001fkn.2_Missense_Mutation_p.V158M|RUSC1_uc001fko.2_RNA|RUSC1_uc001fkr.2_Missense_Mutation_p.V380M|RUSC1_uc001fks.2_Missense_Mutation_p.V116M	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	849	SH3.					cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			CCTCAGGGCAGTGCGGGCTCT	0.612													7	55					0	0	0.004482	0	0		A	155300198	A	A	155300198	3	1	1	1	0	0	0	0	1	0	0	0	13775	1029	36	4	2710	4	RUSC1	1	155300198	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	37169	155300198	93950423	72	72											
GON4L	54856	broad.mit.edu	37	chr1	155823178	155823178	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcctgagtgtcattttttTccctctctttgagccagtag	6	16	9	10	0	2	2	1	2	1	0	4	2	3	2	3	1	1	1	3	1	1	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:155823178T>C	uc001flz.2	-	2	491	c.394A>G	c.(394-396)AAA>GAA	p.K132E	GON4L_uc001fly.1_Missense_Mutation_p.K132E|GON4L_uc009wrh.1_Missense_Mutation_p.K132E|GON4L_uc001fma.1_Missense_Mutation_p.K132E|GON4L_uc001fmc.2_Missense_Mutation_p.K132E|GON4L_uc001fmd.3_Missense_Mutation_p.K132E|GON4L_uc009wri.2_5'UTR	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	132					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					GTCATTTTTTTCCCTCTCTTT	0.458													60	177					0	0	0.00361	0	0		C	155823178	C	C	155823178	3	2	1	1	0	0	0	0	1	0	0	0	6587	1792	62	3	6569	3	GON4L	1	155823178	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	522980	155823178	93427443	73	73											
ARHGEF2	9181	broad.mit.edu	37	chr1	155931509	155931509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcgtggatgagtttgcGcctcagaagttcctctcggc	6	11	12	12	3	2	2	1	1	1	1	5	3	3	3	3	2	1	2	3	2	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:155931509G>A	uc001fmt.2	-	11	1529	c.1411C>T	c.(1411-1413)CGC>TGC	p.R471C	ARHGEF2_uc001fmr.2_Missense_Mutation_p.R443C|ARHGEF2_uc001fms.2_Missense_Mutation_p.R470C|ARHGEF2_uc001fmu.2_Missense_Mutation_p.R515C|ARHGEF2_uc010pgt.1_Missense_Mutation_p.R444C|ARHGEF2_uc010pgu.1_Missense_Mutation_p.R516C	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	471					actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					ATGAGTTTGCGCCTCAGAAGT	0.602													25	77					0	0	0.003954	0	0		A	155931509	A	A	155931509	3	1	1	1	0	0	0	0	1	0	0	0	903	1087	38	1	1597	1	ARHGEF2	1	155931509	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	108331	155931509	93319112	74	74											
IQGAP3	128239	broad.mit.edu	37	chr1	156507037	156507037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcatggcgaggaggttgcGtagggcgatgtccagtcgtc	7	9	17	8	4	1	0	1	0	0	0	4	3	2	1	1	4	1	2	1	4	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:156507037G>A	uc001fpf.2	-	27	3433	c.3358C>T	c.(3358-3360)CGC>TGC	p.R1120C		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1120	Ras-GAP.				small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGGAGGTTGCGTAGGGCGATG	0.567													8	67					0	0	0.00308	0	0		A	156507037	A	A	156507037	3	1	1	1	0	0	0	0	1	0	0	0	7832	1145	40	1	1585	1	IQGAP3	1	156507037	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	575528	156507037	92743584	75	75											
IQGAP3	128239	broad.mit.edu	37	chr1	156521764	156521764	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagctccagactatacttAcggtcagtctcttcctgggt	7	12	8	14	1	2	1	1	0	1	1	5	1	4	1	3	2	3	1	3	2	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:156521764A>G	uc001fpf.2	-	14	1645	c.1570_splice	c.e14+1	p.R524_splice	IQGAP3_uc009wsb.1_Splice_Site_p.R481_splice	NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3						small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GACTATACTTACGGTCAGTCT	0.572													19	108					0	0	0.012319	0	0		G	156521764	G	G	156521764	5	3	1	1	0	0	0	0	0	0	1	0	7832	405	14	3	3423	3	IQGAP3	1	156521764	Splice_Site	SNP	A	TCGA-B7-5816-01A-21D-1600-08	14727	156521764	92728857	76	76											
FCRL3	115352	broad.mit.edu	37	chr1	157665902	157665902	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcacagtagtatctccCtgcatcactctccttcacgg	8	11	7	15	1	4	0	2	0	2	0	6	0	4	0	2	1	3	5	2	1	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:157665902C>A	uc001frb.2	-	7	1352	c.1060G>T	c.(1060-1062)GGG>TGG	p.G354W	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.G354W|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Missense_Mutation_p.G80W|FCRL3_uc001frc.1_Missense_Mutation_p.G354W	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	354	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					TAGTATCTCCCTGCATCACTC	0.522													14	117					2.31682e-05	2.47226e-05	0.003163	1	0		A	157665902	A	A	157665902	3	1	1	1	0	0	0	0	1	0	0	0	5810	681	24	5	1180	5	FCRL3	1	157665902	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1144138	157665902	91584719	77	77											
OR10J1	26476	broad.mit.edu	37	chr1	159410002	159410002	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttattatgaacaagaggctgCgtatccaacttgtcctgggg	10	12	11	8	1	0	2	0	1	0	1	2	2	2	2	2	3	3	2	2	3	6	4	rs139843472	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:159410002C>T	uc010piv.1	+	1	454	c.454C>T	c.(454-456)CGT>TGT	p.R152C	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	152	Helical; Name=4; (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)					CAAGAGGCTGCGTATCCAACT	0.498													40	244					0	0	0.005524	0	0		T	159410002	T	T	159410002	3	4	1	1	0	0	0	0	1	0	0	0	10929	768	27	1	456	1	OR10J1	1	159410002	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1744100	159410002	89840619	78	78											
KCNJ10	3766	broad.mit.edu	37	chr1	160011355	160011355	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaggctaaagtcagctatgTatttaccactggctgacagt	13	11	9	8	0	1	1	1	1	0	0	1	1	1	1	1	2	2	4	1	2	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:160011355T>C	uc001fuw.1	-	2	1118	c.968A>G	c.(967-969)TAC>TGC	p.Y323C		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	323	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GTCAGCTATGTATTTACCACT	0.532													12	60					0	0	0.010729	0	0		C	160011355	C	C	160011355	3	2	1	1	0	0	0	0	1	0	0	0	8060	1638	57	3	175	3	KCNJ10	1	160011355	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	601353	160011355	89239266	79	79											
ARHGAP30	257106	broad.mit.edu	37	chr1	161022247	161022247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccctgtcctcagcccccCgtggaagtttacgcttagtc	6	11	8	16	2	1	0	1	0	0	0	3	1	2	1	6	1	3	2	6	1	4	4	rs149524176	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:161022247C>T	uc001fxl.2	-	8	1269	c.923G>A	c.(922-924)CGG>CAG	p.R308Q	ARHGAP30_uc001fxk.2_Missense_Mutation_p.R308Q|ARHGAP30_uc001fxm.2_Missense_Mutation_p.R154Q|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_Missense_Mutation_p.R154Q	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	308					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			CTCAGCCCCCCGTGGAAGTTT	0.537													31	252					0	0	0.012213	0	0		T	161022247	T	T	161022247	3	4	1	1	0	0	0	0	1	0	0	0	879	652	23	1	2402	1	ARHGAP30	1	161022247	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1010892	161022247	88228374	80	80											
USP21	27005	broad.mit.edu	37	chr1	161130687	161130687	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccccttcgagcagatcAtggggttcccctgcctggct	5	9	12	15	1	1	1	1	0	0	1	3	2	2	1	5	4	2	3	5	4	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:161130687A>G	uc010pke.1	+	3	634	c.257A>G	c.(256-258)CAT>CGT	p.H86R	USP21_uc010pkc.1_Missense_Mutation_p.H86R|USP21_uc010pkd.1_Missense_Mutation_p.H86R|USP21_uc010pkf.1_Missense_Mutation_p.H86R	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	86					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CGAGCAGATCATGGGGTTCCC	0.637													13	51					0	0	0.00245	0	0		G	161130687	G	G	161130687	3	3	1	1	0	0	0	0	1	0	0	0	17079	217	8	3	259	3	USP21	1	161130687	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	108440	161130687	88119934	81	81											
FCGR2A	2212	broad.mit.edu	37	chr1	161476270	161476270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggaatctcattcccaccCacacgcagcccagctacagg	11	6	8	16	1	1	0	1	0	1	0	3	1	2	1	3	2	3	2	3	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:161476270C>T	uc001gan.2	+	3	306	c.253C>T	c.(253-255)CAC>TAC	p.H85Y	FCGR2A_uc001gam.2_Missense_Mutation_p.H84Y|FCGR2A_uc001gao.2_RNA	NM_001136219	NP_001129691	P12318	FCG2A_HUMAN	Fc fragment of IgG, low affinity IIa, receptor	85	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CATTCCCACCCACACGCAGCC	0.597													9	65					0	0	0.008291	0	0		T	161476270	T	T	161476270	3	4	1	1	0	0	0	0	1	0	0	0	5795	594	21	4	263	4	FCGR2A	1	161476270	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	345583	161476270	87774351	82	82											
OLFML2B	25903	broad.mit.edu	37	chr1	161953757	161953757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctgtgtgctcaggtccGcggcattgagcttgctcagg	4	12	13	12	2	3	1	2	1	1	0	4	1	4	1	2	3	3	4	2	3	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:161953757G>A	uc001gbu.2	-	8	2385	c.1961C>T	c.(1960-1962)GCG>GTG	p.A654V	OLFML2B_uc001gbt.2_Missense_Mutation_p.A137V|OLFML2B_uc010pkq.1_Missense_Mutation_p.A655V	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	654	Olfactomedin-like.									skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			GCTCAGGTCCGCGGCATTGAG	0.587													11	70					0	0	0.010729	0	0		A	161953757	A	A	161953757	3	1	1	1	0	0	0	0	1	0	0	0	10877	1087	38	1	295	1	OLFML2B	1	161953757	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	477487	161953757	87296864	83	83											
LMX1A	4009	broad.mit.edu	37	chr1	165175203	165175203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatggccaggagctgctgtgGggtgggcagagccgtgtagg	6	7	21	7	1	0	1	0	0	0	1	0	3	0	2	2	6	3	4	2	6	1	1	rs140864022		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:165175203G>A	uc001gcy.1	-	7	1107	c.886C>T	c.(886-888)CCA>TCA	p.P296S	LMX1A_uc001gcz.1_Missense_Mutation_p.P296S|LMX1A_uc001gcw.1_Missense_Mutation_p.P14S|LMX1A_uc001gcx.1_Missense_Mutation_p.P47S	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	296						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					AGCTGCTGTGGGGTGGGCAGA	0.577													8	91					0	0	0.00308	0	0		A	165175203	A	A	165175203	3	1	1	1	0	0	0	0	1	0	0	0	8878	1232	43	4	270	4	LMX1A	1	165175203	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3221446	165175203	84075418	84	84											
ILDR2	387597	broad.mit.edu	37	chr1	166927191	166927191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcccaaggattctcccatgCgatcctggcagtaggacttg	8	10	11	12	1	1	0	0	0	1	0	3	3	2	2	3	3	2	2	3	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:166927191C>T	uc001gdx.1	-	2	250	c.194G>A	c.(193-195)CGC>CAC	p.R65H		NM_199351	NP_955383	Q71H61	ILDR2_HUMAN	immunoglobulin-like domain containing receptor	65	Ig-like V-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1						TTCTCCCATGCGATCCTGGCA	0.557													7	260					0	0	0.001984	0	0		T	166927191	T	T	166927191	3	4	1	1	0	0	0	0	1	0	0	0	7726	768	27	1	1761	1	ILDR2	1	166927191	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1751988	166927191	82323430	85	85											
SLC9A11	284525	broad.mit.edu	37	chr1	173526643	173526643	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcactaacaaaatagtaaGcaacctgtggagagggaaac	17	6	10	8	0	1	1	1	0	0	1	1	3	1	2	1	2	4	3	1	2	7	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:173526643G>T	uc001giz.2	-	10	1474	c.1051C>A	c.(1051-1053)CTT>ATT	p.L351I	SLC9A11_uc009wwe.2_5'UTR|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	351	Helical; (Potential).				sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						AAAATAGTAAGCAACCTGTGG	0.299													25	233					1.1804e-14	1.34008e-14	0.003954	1	0		T	173526643	T	T	173526643	3	4	1	1	0	0	0	0	1	0	0	0	14736	971	34	5	2399	5	SLC9A11	1	173526643	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	6599452	173526643	75723978	86	86											
RC3H1	149041	broad.mit.edu	37	chr1	173952672	173952672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgttcgttcacctaaagatCgagctgccctcatggcacga	9	10	9	13	3	2	1	2	0	0	1	4	3	2	1	2	1	2	4	2	1	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:173952672C>T	uc001gju.3	-	3	563	c.476G>A	c.(475-477)CGA>CAA	p.R159Q	RC3H1_uc010pms.1_Missense_Mutation_p.R159Q|RC3H1_uc001gjv.2_Missense_Mutation_p.R159Q|RC3H1_uc010pmt.1_Missense_Mutation_p.R159Q	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	159					cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						ACCTAAAGATCGAGCTGCCCT	0.507													21	119					0	0	0.010504	0	0		T	173952672	T	T	173952672	3	4	1	1	0	0	0	0	1	0	0	0	13191	884	31	1	2993	1	RC3H1	1	173952672	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	426029	173952672	75297949	87	87											
RABGAP1L	9910	broad.mit.edu	37	chr1	174219653	174219653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctgtacagcattcaaacGttcttccagacaagtgtctg	10	14	7	10	1	4	1	1	0	3	1	5	1	5	1	1	0	3	3	1	0	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:174219653G>A	uc001gjx.2	+	6	953	c.758G>A	c.(757-759)CGT>CAT	p.R253H	RABGAP1L_uc009wwq.1_Missense_Mutation_p.R253H|RABGAP1L_uc001gjw.2_Missense_Mutation_p.R216H|RABGAP1L_uc001gjy.2_5'UTR	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	253	PID.				regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						GCATTCAAACGTTCTTCCAGA	0.373													15	104					0	0	0.003163	0	0		A	174219653	A	A	174219653	3	1	1	1	0	0	0	0	1	0	0	0	12990	1145	40	1	776	1	RABGAP1L	1	174219653	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	266981	174219653	75030968	88	88											
TOR1AIP1	26092	broad.mit.edu	37	chr1	179886654	179886654	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtggctacttcctctgatAgctgctcttgcctctgggag	4	14	12	11	0	3	1	0	1	3	0	4	2	4	2	2	3	4	3	2	3	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:179886654A>G	uc001gnq.2	+	10	1250	c.1032A>G	c.(1030-1032)ATA>ATG	p.I344M		NM_015602	NP_056417	Q5JTV8	TOIP1_HUMAN	lamina-associated polypeptide 1B	344	Helical; (Potential).					integral to membrane|nuclear inner membrane				breast(1)|central_nervous_system(1)	2						TTCCTCTGATAGCTGCTCTTG	0.418													40	293					0	0	0.010771	0	0		G	179886654	G	G	179886654	3	3	1	1	0	0	0	0	1	0	0	0	16398	410	15	3	1070	3	TOR1AIP1	1	179886654	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	5667001	179886654	69363967	89	89											
CACNA1E	777	broad.mit.edu	37	chr1	181680204	181680204	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcctggatagacaaagcAggtaggcctggggggctgca	9	6	17	9	1	0	1	0	0	0	1	0	2	0	2	2	6	3	4	2	6	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:181680204A>C	uc001gow.2	+	8	1335	c.1170A>C	c.(1168-1170)GCA>GCC	p.A390A	CACNA1E_uc009wxs.2_Silent_p.A297A	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	390	Cytoplasmic (Potential).|Binding to the beta subunit (By similarity).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TAGACAAAGCAGGTAGGCCTG	0.607													7	40					0	0	0.001984	0	0		C	181680204	C	C	181680204	2	2	1	1	0	0	0	0	0	0	0	1	2545	202	7	5		5	CACNA1E	1	181680204	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1793550	181680204	67570417	90	90											
CACNA1E	777	broad.mit.edu	37	chr1	181721320	181721320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagaccatcaagtctctgcGggtgctccgagttctaaggc	9	9	11	12	2	3	1	1	0	2	1	5	2	4	1	2	2	2	2	2	2	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:181721320G>A	uc001gow.2	+	27	3938	c.3773G>A	c.(3772-3774)CGG>CAG	p.R1258Q	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1146Q|CACNA1E_uc001gox.1_Missense_Mutation_p.R484Q|CACNA1E_uc009wxt.2_Missense_Mutation_p.R484Q	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1258	III.|Helical; Name=S4 of repeat III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						AAGTCTCTGCGGGTGCTCCGA	0.498													6	74					0	0	0.001984	0	0		A	181721320	A	A	181721320	3	1	1	1	0	0	0	0	1	0	0	0	2545	1116	39	1	3879	1	CACNA1E	1	181721320	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	41116	181721320	67529301	91	91											
ZNF648	127665	broad.mit.edu	37	chr1	182026233	182026233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggagcactggtagggccGctcgcccgtgtgcaggcgcc	6	5	17	13	4	0	0	0	0	0	0	1	2	0	1	3	4	2	4	3	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:182026233G>A	uc001goz.2	-	2	1121	c.913C>T	c.(913-915)CGG>TGG	p.R305W		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	305					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGGTAGGGCCGCTCGCCCGTG	0.692													5	20					0	0	0.000602	0	0		A	182026233	A	A	182026233	3	1	1	1	0	0	0	0	1	0	0	0	18088	1086	38	1	797	1	ZNF648	1	182026233	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	304913	182026233	67224388	92	92											
LAMC1	3915	broad.mit.edu	37	chr1	183072489	183072489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttgacatcacctatgtgCgtctcaagttccacaccagc	9	12	6	14	1	2	1	2	1	1	0	4	1	3	1	3	0	2	1	3	0	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:183072489C>T	uc001gpy.3	+	2	702	c.445C>T	c.(445-447)CGT>TGT	p.R149C	LAMC1_uc001gpx.2_Missense_Mutation_p.R149C	NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	149	Laminin N-terminal.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CACCTATGTGCGTCTCAAGTT	0.488													47	323					0	0	0.00361	0	0		T	183072489	T	T	183072489	3	4	1	1	0	0	0	0	1	0	0	0	8630	768	27	1	451	1	LAMC1	1	183072489	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1046256	183072489	66178132	93	93											
C1orf25	81627	broad.mit.edu	37	chr1	185106736	185106736	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataatatataacttgaatttAccttctaccatattaccatc	15	16	1	9	0	1	1	0	1	1	0	2	1	1	1	3	0	4	0	3	0	9	11			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:185106736A>G	uc001grf.3	-	10	1785	c.1513_splice	c.e10+1	p.E505_splice	C1orf25_uc010pon.1_Splice_Site_p.E349_splice	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA							intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						ACTTGAATTTACCTTCTACCA	0.318													18	150					0	0	0.006122	0	0		G	185106736	G	G	185106736	5	3	1	1	0	0	0	0	0	0	1	0	2037	405	14	3	710	3	C1orf25	1	185106736	Splice_Site	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2034247	185106736	64143885	94	94											
CFH	3075	broad.mit.edu	37	chr1	196709865	196709865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaggttttggaattgatGggcctgcaattgcaaaatgc	11	13	12	5	0	0	2	0	2	0	0	0	3	0	3	1	3	3	3	1	3	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:196709865G>A	uc001gtj.3	+	18	3139	c.2899G>A	c.(2899-2901)GGG>AGG	p.G967R		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	967	Sushi 16.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						TGGAATTGATGGGCCTGCAAT	0.363													23	179					0	0	0.005443	0	0		A	196709865	A	A	196709865	3	1	1	1	0	0	0	0	1	0	0	0	3286	1348	47	4	2987	4	CFH	1	196709865	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	11603129	196709865	52540756	95	95											
CFHR5	81494	broad.mit.edu	37	chr1	196973799	196973799	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgttttccagagtctactGcatattgtgggccccctcca	6	13	9	13	0	1	1	0	0	1	1	3	1	3	1	4	1	2	3	4	1	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:196973799G>T	uc001gts.3	+	9	1467	c.1339G>T	c.(1339-1341)GCA>TCA	p.A447S		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	447	Sushi 8.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						AGAGTCTACTGCATATTGTGG	0.373													43	154					4.67007e-22	5.37122e-22	0.00874	1	0		T	196973799	T	T	196973799	3	4	1	1	0	0	0	0	1	0	0	0	3291	1319	46	5	1373	5	CFHR5	1	196973799	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	263934	196973799	52276822	96	96											
C1orf53	388722	broad.mit.edu	37	chr1	197874962	197874962	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtggatccagctactggcTatgtggtgctcacacagatt	9	12	11	9	0	1	1	1	0	0	1	2	2	2	2	1	3	3	3	1	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:197874962T>C	uc001guh.2	+	2	399	c.301T>C	c.(301-303)TAT>CAT	p.Y101H		NM_001024594	NP_001019765	Q5VUE5	CA053_HUMAN	hypothetical protein LOC388722	101											0						AGCTACTGGCTATGTGGTGCT	0.423													17	146					0	0	0.007413	0	0		C	197874962	C	C	197874962	3	2	1	1	0	0	0	0	1	0	0	0	2048	1522	53	3	307	3	C1orf53	1	197874962	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	901163	197874962	51375659	97	97											
ZNF281	23528	broad.mit.edu	37	chr1	200378080	200378080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacttggggagaggatggCaccttctccatctccaacca	9	9	10	13	0	2	2	0	1	2	1	4	4	2	3	4	4	1	1	4	4	1	2	rs149674415	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:200378080C>T	uc001gve.2	-	2	861	c.754G>A	c.(754-756)GCC>ACC	p.A252T	uc010ppi.1_5'Flank|ZNF281_uc001gvf.1_Missense_Mutation_p.A252T|ZNF281_uc001gvg.1_Missense_Mutation_p.A216T	NM_012482	NP_036614	Q9Y2X9	ZN281_HUMAN	zinc finger protein 281	252					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)	2						GAGAGGATGGCACCTTCTCCA	0.483													22	201					0	0	0.00278	0	0		T	200378080	T	T	200378080	3	4	1	1	0	0	0	0	1	0	0	0	17843	710	25	2	1937	2	ZNF281	1	200378080	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2503118	200378080	48872541	98	98											
KIF14	9928	broad.mit.edu	37	chr1	200561223	200561223	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttactgtgatctctgtgccAtgagcaactcattttttgca	8	16	7	10	0	2	2	1	2	1	0	3	2	2	2	1	0	5	2	1	0	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:200561223A>G	uc010ppk.1	-	16	3237	c.2798T>C	c.(2797-2799)ATG>ACG	p.M933T	KIF14_uc010ppj.1_Missense_Mutation_p.M442T	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	933	Potential.|Required for CIT-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						TCTCTGTGCCATGAGCAACTC	0.383													26	208					0	0	0.008361	0	0		G	200561223	G	G	200561223	3	3	1	1	0	0	0	0	1	0	0	0	8292	217	8	3	2208	3	KIF14	1	200561223	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	183143	200561223	48689398	99	99											
ELF3	1999	broad.mit.edu	37	chr1	201981091	201981091	+	Missense_Mutation	SNP	C	T	T																															cctggcccttgcagagaaggCcagctggttgggggaacagc																										TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:201981091C>T	uc001gxg.3	+	2	3362	c.170C>T	c.(169-171)GCC>GTC	p.A57V	ELF3_uc001gxi.3_Missense_Mutation_p.A57V|ELF3_uc001gxh.3_Missense_Mutation_p.A57V	NM_004433	NP_004424	P78545	ELF3_HUMAN	E74-like factor 3 (ets domain transcription	57	PNT.				epidermis development|epithelial cell differentiation|inflammatory response|mammary gland involution|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0						GCAGAGAAGGCCAGCTGGTTG	0.498													5	222					0	0	0.001368	0	0		T	201981091	T	T	201981091	3	4	1	1	0	0	0	0	1	0	0	0	5063	739	26	2	176	2	ELF3	1	201981091	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1419868	201981091	47269530	100	100	1	3									
ELF3	1999	broad.mit.edu	37	chr1	201981093	201981093	+	Missense_Mutation	SNP	A	T	T																															tggcccttgcagagaaggccAgctggttgggggaacagccc																										TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:201981093A>T	uc001gxg.3	+	2	3364	c.172A>T	c.(172-174)AGC>TGC	p.S58C	ELF3_uc001gxi.3_Missense_Mutation_p.S58C|ELF3_uc001gxh.3_Missense_Mutation_p.S58C	NM_004433	NP_004424	P78545	ELF3_HUMAN	E74-like factor 3 (ets domain transcription	58	PNT.				epidermis development|epithelial cell differentiation|inflammatory response|mammary gland involution|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0						AGAGAAGGCCAGCTGGTTGGG	0.502													5	224					0	0	0.001368	0	0		T	201981093	T	T	201981093	3	4	1	1	0	0	0	0	1	0	0	0	5063	188	7	5	178	5	ELF3	1	201981093	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2	201981093	47269528	101	101	1	3									
ELF3	1999	broad.mit.edu	37	chr1	201981099	201981099	+	Missense_Mutation	SNP	T	G	G																															ttgcagagaaggccagctggTtgggggaacagccccagttc																										TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:201981099T>G	uc001gxg.3	+	2	3370	c.178T>G	c.(178-180)TTG>GTG	p.L60V	ELF3_uc001gxi.3_Missense_Mutation_p.L60V|ELF3_uc001gxh.3_Missense_Mutation_p.L60V	NM_004433	NP_004424	P78545	ELF3_HUMAN	E74-like factor 3 (ets domain transcription	60	PNT.				epidermis development|epithelial cell differentiation|inflammatory response|mammary gland involution|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0						GGCCAGCTGGTTGGGGGAACA	0.517													6	222					0	0	0.001368	0	0		G	201981099	G	G	201981099	3	3	1	1	0	0	0	0	1	0	0	0	5063	1722	60	5	184	5	ELF3	1	201981099	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	6	201981099	47269522	102	102	1	3									
TMEM183A	92703	broad.mit.edu	37	chr1	202976930	202976930	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggattacgccaactcggaTccggcggtcgtgaggtctgg	6	8	16	11	6	1	1	0	1	1	0	4	3	2	3	2	6	2	0	2	6	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:202976930T>C	uc001gyu.1	+	2	196	c.138T>C	c.(136-138)GAT>GAC	p.D46D	TMEM183A_uc009xai.1_Silent_p.D46D|TMEM183A_uc001gyv.1_RNA|TMEM183A_uc001gyw.1_Silent_p.D46D|TMEM183A_uc001gyx.1_Silent_p.D46D	NM_001079809	NP_001073277	Q8IXX5	T183A_HUMAN	transmembrane protein 183B	46						integral to membrane					0			BRCA - Breast invasive adenocarcinoma(75;0.18)			CCAACTCGGATCCGGCGGTCG	0.582													5	71					0	0	0.001984	0	0		C	202976930	C	C	202976930	2	2	1	1	0	0	0	0	0	0	0	1	16127	1432	50	3		3	TMEM183A	1	202976930	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	995831	202976930	46273691	103	103											
TMEM183A	92703	broad.mit.edu	37	chr1	202984028	202984028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttcagaagaactggacGgggctggaggagaagagtat	12	9	16	4	1	1	4	1	0	0	4	1	7	1	6	0	5	1	3	0	5	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:202984028G>A	uc001gyu.1	+	4	437	c.379G>A	c.(379-381)GGG>AGG	p.G127R	TMEM183A_uc009xai.1_Missense_Mutation_p.G127R|TMEM183A_uc001gyv.1_RNA|TMEM183A_uc001gyw.1_Missense_Mutation_p.G126R|TMEM183A_uc001gyx.1_Missense_Mutation_p.G126R	NM_001079809	NP_001073277	Q8IXX5	T183A_HUMAN	transmembrane protein 183B	127						integral to membrane					0			BRCA - Breast invasive adenocarcinoma(75;0.18)			AGAACTGGACGGGGCTGGAGG	0.398													6	65					0	0	0.00308	0	0		A	202984028	A	A	202984028	3	1	1	1	0	0	0	0	1	0	0	0	16127	1116	39	1	393	1	TMEM183A	1	202984028	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	7098	202984028	46266593	104	104											
ADORA1	134	broad.mit.edu	37	chr1	203097975	203097975	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctgtgcccgccatgccGccctccatctcagctttcca	5	9	7	20	2	1	0	1	0	1	0	4	0	3	0	7	0	4	1	7	0	0	1	rs61731145	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:203097975G>A	uc001gze.1	+	3	439	c.6G>A	c.(4-6)CCG>CCA	p.P2P	ADORA1_uc001gzf.1_Silent_p.P2P|ADORA1_uc010pqg.1_5'UTR|ADORA1_uc009xak.1_Intron|ADORA1_uc010pqh.1_Intron	NM_000674	NP_000665	P30542	AA1R_HUMAN	adenosine A1 receptor	2	Extracellular (Potential).				induction of apoptosis by extracellular signals|inflammatory response|nervous system development|phagocytosis	integral to plasma membrane				large_intestine(1)	1					Aminophylline(DB01223)|Caffeine(DB00201)|Defibrotide(DB04932)|Gabapentin(DB00996)|Imipramine(DB00458)|Pegademase bovine(DB00061)|Theophylline(DB00277)	CCGCCATGCCGCCCTCCATCT	0.662													10	100					0	0	0.001368	0	0		A	203097975	A	A	203097975	2	1	1	1	0	0	0	0	0	0	0	1	326	1074	38	1		1	ADORA1	1	203097975	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	113947	203097975	46152646	105	105											
PM20D1	148811	broad.mit.edu	37	chr1	205814522	205814522	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgctccaacccagagaaTgggggcacctcccagccttc	9	6	9	17	1	1	1	1	0	0	1	4	2	3	1	5	2	2	2	5	2	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:205814522T>C	uc001hdj.2	-	3	465	c.420A>G	c.(418-420)CCA>CCG	p.P140P	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	140						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			ACCCAGAGAATGGGGGCACCT	0.572													13	137					0	0	0.001855	0	0		C	205814522	C	C	205814522	2	2	1	1	0	0	0	0	0	0	0	1	12147	1451	51	3		3	PM20D1	1	205814522	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2716547	205814522	43436099	106	106											
DYRK3	8444	broad.mit.edu	37	chr1	206821237	206821237	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtctatgatcacaaacttCgacagtacgtggccctaaaa	13	9	9	10	2	2	1	1	1	1	0	3	2	2	1	1	2	2	1	1	2	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:206821237C>T	uc001hej.2	+	3	862	c.694C>T	c.(694-696)CGA>TGA	p.R232*	DYRK3_uc001hek.2_Intron|DYRK3_uc001hei.2_Nonsense_Mutation_p.R212*	NM_003582	NP_003573	O43781	DYRK3_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	232	Protein kinase.				erythrocyte differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|central_nervous_system(1)	3	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			TCACAAACTTCGACAGTACGT	0.468													8	149					0	0	0.00308	0	0		T	206821237	T	T	206821237	4	4	1	1	0	0	0	0	0	1	0	0	4863	876	31	1	725	1	DYRK3	1	206821237	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1006715	206821237	42429384	107	107											
CR2	1380	broad.mit.edu	37	chr1	207647197	207647197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacttccagctggttcacGtgtggagctagttaatacgt	10	12	11	8	2	1	1	1	0	0	1	2	2	2	2	1	2	4	4	1	2	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:207647197G>A	uc001hfw.2	+	11	2124	c.2030G>A	c.(2029-2031)CGT>CAT	p.R677H	CR2_uc001hfv.2_Missense_Mutation_p.R736H|CR2_uc009xch.2_Missense_Mutation_p.R677H	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	677	Sushi 11.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						GCTGGTTCACGTGTGGAGCTA	0.418													29	154					0	0	0.009535	0	0		A	207647197	A	A	207647197	3	1	1	1	0	0	0	0	1	0	0	0	3845	1145	40	1	2253	1	CR2	1	207647197	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	825960	207647197	41603424	108	108											
CR1L	1379	broad.mit.edu	37	chr1	207870962	207870962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcccggctacgacctcagagGatctacgtatttgcactgca	9	9	10	13	3	2	1	1	0	1	1	2	3	2	2	2	2	4	4	2	2	3	4	rs114605476	by1000genomes	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:207870962G>A	uc001hga.3	+	6	1098	c.977G>A	c.(976-978)GGA>GAA	p.G326E	CR1L_uc001hfz.2_RNA|CR1L_uc001hgb.1_RNA	NM_175710	NP_783641	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	326	Sushi 5.					cytoplasm|extracellular region|membrane					0						GACCTCAGAGGATCTACGTAT	0.542													86	278					0	0	0.00361	0	0		A	207870962	A	A	207870962	3	1	1	1	0	0	0	0	1	0	0	0	3844	1174	41	4	999	4	CR1L	1	207870962	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	223765	207870962	41379659	109	109											
PLXNA2	5362	broad.mit.edu	37	chr1	208390570	208390570	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtgggagaccagggccAgggtgtctgaagggatcttg	10	7	17	7	0	2	2	0	1	2	1	2	4	2	3	2	4	0	0	2	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:208390570A>G	uc001hgz.2	-	2	1456	c.698T>C	c.(697-699)CTG>CCG	p.L233P	PLXNA2_uc001hha.3_Missense_Mutation_p.L287P	NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	233	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GACCAGGGCCAGGGTGTCTGA	0.557													25	299					0	0	0.003954	0	0		G	208390570	G	G	208390570	3	3	1	1	0	0	0	0	1	0	0	0	12139	188	7	3	5110	3	PLXNA2	1	208390570	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	519608	208390570	40860051	110	110											
LAMB3	3914	broad.mit.edu	37	chr1	209797250	209797250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgatacatagtaaggagaCcattgaagcttctgtcaaga	14	11	9	7	0	3	4	1	2	2	2	3	5	3	4	1	1	2	2	1	1	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:209797250C>T	uc001hhg.2	-	14	2462	c.2072G>A	c.(2071-2073)GGT>GAT	p.G691D	LAMB3_uc009xco.2_Missense_Mutation_p.G691D|LAMB3_uc001hhh.2_Missense_Mutation_p.G691D|LAMB3_uc010psl.1_RNA|hsa-mir-4260|MI0015859_5'Flank	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	691	Domain II.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		AGTAAGGAGACCATTGAAGCT	0.552													18	155					0	0	0.006122	0	0		T	209797250	T	T	209797250	3	4	1	1	0	0	0	0	1	0	0	0	8628	507	18	4	1482	4	LAMB3	1	209797250	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1406680	209797250	39453371	111	111											
HHAT	55733	broad.mit.edu	37	chr1	210577992	210577992	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccagtcttacacaatgggcCcatcctcagcttctcggagt	8	11	8	14	1	3	0	1	0	2	0	6	1	5	1	3	2	2	1	3	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:210577992C>A	uc009xcx.2	+	6	819	c.653C>A	c.(652-654)CCC>CAC	p.P218H	HHAT_uc010psq.1_Intron|HHAT_uc001hhz.3_Missense_Mutation_p.P218H|HHAT_uc010psr.1_Missense_Mutation_p.P219H|HHAT_uc010pss.1_Missense_Mutation_p.P173H|HHAT_uc009xcy.2_Missense_Mutation_p.P153H|HHAT_uc010pst.1_Missense_Mutation_p.P155H|HHAT_uc010psu.1_Missense_Mutation_p.P153H	NM_001122834	NP_001116306	Q5VTY9	HHAT_HUMAN	hedgehog acyltransferase	218	Helical; (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)		CACAATGGGCCCATCCTCAGC	0.527													18	110					1.67942e-08	1.85246e-08	0.006122	1	0		A	210577992	A	A	210577992	3	1	1	1	0	0	0	0	1	0	0	0	7105	623	22	5	769	5	HHAT	1	210577992	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	780742	210577992	38672629	112	112											
KCNH1	3756	broad.mit.edu	37	chr1	211192300	211192300	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggtagttcatgcggataAgtttggggtcagaaatcacc	11	11	12	7	1	4	1	4	0	0	1	4	2	4	2	1	4	1	3	1	4	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:211192300A>C	uc001hib.2	-	6	1027	c.857T>G	c.(856-858)CTT>CGT	p.L286R	KCNH1_uc001hic.2_Missense_Mutation_p.L286R	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	286	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		CATGCGGATAAGTTTGGGGTC	0.443													31	158					0	0	0.010818	0	0		C	211192300	C	C	211192300	3	2	1	1	0	0	0	0	1	0	0	0	8047	72	3	5	2136	5	KCNH1	1	211192300	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	614308	211192300	38058321	113	113											
PPP2R5A	5525	broad.mit.edu	37	chr1	212515580	212515580	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagagccctgatttccagccTagcattgcaaaacgatacat	13	9	8	11	1	0	2	0	1	0	1	1	4	1	2	3	0	6	2	3	0	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:212515580T>C	uc001hjb.2	+	4	1105	c.531T>C	c.(529-531)CCT>CCC	p.P177P	PPP2R5A_uc010ptd.1_Silent_p.P118P	NM_006243	NP_006234	Q15172	2A5A_HUMAN	protein phosphatase 2, regulatory subunit B	177					negative regulation of establishment of protein localization in plasma membrane|negative regulation of lipid kinase activity|positive regulation of protein dephosphorylation|signal transduction	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex	kinase binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0125)|all cancers(67;0.029)|Epithelial(68;0.154)|GBM - Glioblastoma multiforme(131;0.155)		ATTTCCAGCCTAGCATTGCAA	0.338													11	137					0	0	0.008291	0	0		C	212515580	C	C	212515580	2	2	1	1	0	0	0	0	0	0	0	1	12414	1509	53	3		3	PPP2R5A	1	212515580	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1323280	212515580	36735041	114	114											
PARP1	142	broad.mit.edu	37	chr1	226555951	226555951	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcttcatcccaaagtcGtgggggatcagggtgtaaaa	10	10	13	8	1	3	0	2	0	1	0	5	1	4	1	1	4	0	2	1	4	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:226555951G>A	uc001hqd.3	-	16	2397	c.2226C>T	c.(2224-2226)CAC>CAT	p.H742H		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	742	PARP alpha-helical.				cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		TCCCAAAGTCGTGGGGGATCA	0.572								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					16	83					0	0	0.004007	0	0		A	226555951	A	A	226555951	2	1	1	1	0	0	0	0	0	0	0	1	11473	1136	40	1		1	PARP1	1	226555951	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	14040371	226555951	22694670	115	115											
OBSCN	84033	broad.mit.edu	37	chr1	228400306	228400306	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacggtgtggaagaaggaCggccagctggtgaccgaggg	10	4	20	7	3	0	3	0	1	0	2	0	7	0	5	2	6	1	1	2	6	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:228400306C>T	uc009xez.1	+	2	866	c.822C>T	c.(820-822)GAC>GAT	p.D274D	OBSCN_uc001hsn.2_Silent_p.D274D|uc001hsm.1_RNA	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	274	Ig-like 3.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGAAGAAGGACGGCCAGCTGG	0.677													13	50					0	0	0.001368	0	0		T	228400306	T	T	228400306	2	4	1	1	0	0	0	0	0	0	0	1	10831	535	19	1		1	OBSCN	1	228400306	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1844355	228400306	20850315	116	116											
TAF5L	27097	broad.mit.edu	37	chr1	229730525	229730525	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggtggaatttgacacagTccacatctgccaggtgtcct	9	11	11	10	0	1	1	0	1	1	0	3	2	3	2	3	3	1	0	3	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:229730525T>C	uc001htq.2	-	5	1455	c.1289A>G	c.(1288-1290)GAC>GGC	p.D430G		NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	430	WD 4.				histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				TTTGACACAGTCCACATCTGC	0.587													29	189					0	0	0.009535	0	0		C	229730525	C	C	229730525	3	2	1	1	0	0	0	0	1	0	0	0	15554	1667	58	3	484	3	TAF5L	1	229730525	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1330219	229730525	19520096	117	117											
PGBD5	79605	broad.mit.edu	37	chr1	230492787	230492787	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcttctcgaagcgggcctgGctcatgacgagggcgaggct	7	8	15	11	4	3	1	1	1	2	0	4	4	3	1	1	4	1	2	1	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:230492787G>A	uc010pwb.1	-	2	405	c.405C>T	c.(403-405)AGC>AGT	p.S135S	PGBD5_uc001htv.2_Silent_p.S234S	NM_024554	NP_078830	Q8N414	PGBD5_HUMAN	piggyBac transposable element derived 5	135						integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(184;0.0397)	Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;0.201)		AGCGGGCCTGGCTCATGACGA	0.617													7	52					0	0	0.001984	0	0		A	230492787	A	A	230492787	2	1	1	1	0	0	0	0	0	0	0	1	11803	1194	42	2		2	PGBD5	1	230492787	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	762262	230492787	18757834	118	118											
TSNAX	7257	broad.mit.edu	37	chr1	231700291	231700291	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagccctcctctgatgcacaGgataagcagtttggtacttg	9	11	10	11	0	1	1	0	1	1	0	2	2	2	2	2	2	4	4	2	2	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:231700291G>T	uc001huw.2	+	6	671	c.513G>T	c.(511-513)CAG>CAT	p.Q171H	TSNAX-DISC1_uc010pwe.1_Intron|TSNAX-DISC1_uc010pwf.1_Intron|TSNAX-DISC1_uc010pwg.1_Intron|TSNAX-DISC1_uc010pwh.1_Intron|TSNAX-DISC1_uc010pwi.1_Intron|TSNAX-DISC1_uc010pwj.1_Intron|TSNAX-DISC1_uc010pwk.1_Intron|TSNAX-DISC1_uc010pwl.1_Intron	NM_005999	NP_005990	Q99598	TSNAX_HUMAN	translin-associated factor X	171	Interaction with C1D.				cell differentiation|multicellular organismal development|spermatogenesis	nucleus|perinuclear region of cytoplasm	protein transporter activity|sequence-specific DNA binding				0		all_cancers(173;0.0395)|Acute lymphoblastic leukemia(190;3.76e-06)|Prostate(94;0.116)				CTGATGCACAGGATAAGCAGT	0.413													48	340					1.38658e-30	1.59916e-30	0.00361	1	0		T	231700291	T	T	231700291	3	4	1	1	0	0	0	0	1	0	0	0	16657	991	35	5	535	5	TSNAX	1	231700291	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1207504	231700291	17550330	119	119											
LGALS8	3964	broad.mit.edu	37	chr1	236703909	236703909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctctatggccacaggatcGgcccagagaaaatagacact	13	7	10	11	1	1	2	0	0	1	2	2	4	1	3	2	3	1	1	2	3	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:236703909G>A	uc001hxz.1	+	6	772	c.391G>A	c.(391-393)GGC>AGC	p.G131S	LGALS8_uc001hxw.1_Missense_Mutation_p.G131S|LGALS8_uc001hxy.1_Missense_Mutation_p.G131S|LGALS8_uc009xgg.1_RNA|LGALS8_uc001hya.1_Missense_Mutation_p.G131S|LGALS8_uc001hyb.1_Missense_Mutation_p.G131S|LGALS8_uc001hyc.1_Intron	NM_201543	NP_963837	O00214	LEG8_HUMAN	galectin-8 isoform b	131	Galectin 1.					cytoplasm|extracellular space	sugar binding			ovary(1)	1	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.0253)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CCACAGGATCGGCCCAGAGAA	0.463													18	214					0	0	0.010504	0	0		A	236703909	A	A	236703909	3	1	1	1	0	0	0	0	1	0	0	0	8763	1116	39	1	405	1	LGALS8	1	236703909	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5003618	236703909	12546712	120	120											
RYR2	6262	broad.mit.edu	37	chr1	237870288	237870288	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtggaagatgtttgtccaaAcataccgtctttggagaaac	12	12	10	7	1	1	2	0	0	1	2	2	4	2	3	2	2	3	1	2	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:237870288A>G	uc001hyl.1	+	68	9740	c.9620A>G	c.(9619-9621)AAC>AGC	p.N3207S	RYR2_uc010pxz.1_Missense_Mutation_p.N162S	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3207					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GTTTGTCCAAACATACCGTCT	0.423													29	254					0	0	0.007291	0	0		G	237870288	G	G	237870288	3	3	1	1	0	0	0	0	1	0	0	0	13794	43	2	3	9890	3	RYR2	1	237870288	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1166379	237870288	11380333	121	121											
KIF26B	55083	broad.mit.edu	37	chr1	245809424	245809424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttctcccctgtggtagtGtctggaggtcgcagccgcct	4	12	12	13	2	3	0	0	0	3	0	5	1	3	1	4	3	1	2	4	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:245809424G>A	uc001ibf.1	+	10	2540	c.2100G>A	c.(2098-2100)ATG>ATA	p.M700I	KIF26B_uc010pyq.1_Missense_Mutation_p.M700I|KIF26B_uc001ibg.1_Missense_Mutation_p.M318I|KIF26B_uc001ibh.1_5'UTR	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	700	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CTGTGGTAGTGTCTGGAGGTC	0.478													5	46					0	0	0.001168	0	0		A	245809424	A	A	245809424	3	1	1	1	0	0	0	0	1	0	0	0	8311	1391	48	4	2138	4	KIF26B	1	245809424	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	7939136	245809424	3441197	122	122											
ZNF124	7678	broad.mit.edu	37	chr1	247319982	247319982	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacattcatagggtttctcTccagtatgagtcctttcatg	8	16	8	9	0	3	2	2	2	1	0	6	2	5	2	2	1	0	2	2	1	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:247319982T>C	uc001ick.2	-	4	1081	c.942A>G	c.(940-942)GGA>GGG	p.G314G	ZNF124_uc001ici.2_Intron|ZNF124_uc001icj.1_Silent_p.G252G	NM_003431	NP_003422	Q15973	ZN124_HUMAN	zinc finger protein 124	314					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	all_cancers(71;5.07e-05)|all_epithelial(71;8.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00739)			AGGGTTTCTCTCCAGTATGAG	0.398													21	170					0	0	0.00278	0	0		C	247319982	C	C	247319982	2	2	1	1	0	0	0	0	0	0	0	1	17745	1538	54	3		3	ZNF124	1	247319982	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1510558	247319982	1930639	123	123											
OR2G3	81469	broad.mit.edu	37	chr1	247769393	247769393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttgcaattgcctctctGtggcaaccataggctggacc	8	11	9	13	0	1	0	0	0	1	0	2	1	1	1	4	3	4	3	4	3	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:247769393G>A	uc010pyz.1	+	1	506	c.506G>A	c.(505-507)TGT>TAT	p.C169Y		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TTGCCTCTCTGTGGCAACCAT	0.468													22	164					0	0	0.012319	0	0		A	247769393	A	A	247769393	3	1	1	1	0	0	0	0	1	0	0	0	11018	1377	48	4	508	4	OR2G3	1	247769393	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	449411	247769393	1481228	124	124											
TRIM58	25893	broad.mit.edu	37	chr1	248028080	248028080	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctttctggcccaggaggAgcaacggcagctgaggcggc	7	6	17	11	2	1	1	0	1	1	0	1	3	1	3	1	7	3	4	1	7	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr1:248028080A>G	uc001ido.2	+	3	638	c.590A>G	c.(589-591)GAG>GGG	p.E197G		NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	197	Potential.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GCCCAGGAGGAGCAACGGCAG	0.612													9	49					0	0	0.004482	0	0		G	248028080	G	G	248028080	3	3	1	1	0	0	0	0	1	0	0	0	16557	304	11	3	600	3	TRIM58	1	248028080	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	258687	248028080	1222541	125	125											
TPO	7173	broad.mit.edu	37	chr2	1491722	1491722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagcaccttggatctggCgtccatcaacctgcagaggg	8	9	11	13	1	2	1	1	0	1	1	4	2	4	2	4	3	3	2	4	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:1491722C>T	uc002qww.2	+	10	1818	c.1727C>T	c.(1726-1728)GCG>GTG	p.A576V	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Intron|TPO_uc002qwr.2_Missense_Mutation_p.A576V|TPO_uc002qwx.2_Intron|TPO_uc010yio.1_Missense_Mutation_p.A403V|TPO_uc010yip.1_Missense_Mutation_p.A576V|TPO_uc002qwy.1_Intron|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	576	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity	p.A576E(1)		ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	TTGGATCTGGCGTCCATCAAC	0.592													19	103					0	0	0.012319	0	0		T	1491722	T	T	1491722	3	4	1	1	0	0	0	0	1	0	0	0	16436	768	27	1	1761	1	TPO	2	1491722	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08		1491722	241707651	126	126											
TPO	7173	broad.mit.edu	37	chr2	1544475	1544475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacctcaccgcagcgggccGcagctcaggactcggagcag	8	3	15	15	4	2	0	2	0	0	0	3	3	2	3	3	4	3	4	3	4	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:1544475G>A	uc002qww.2	+	16	2819	c.2728G>A	c.(2728-2730)GCA>ACA	p.A910T	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Missense_Mutation_p.A853T|TPO_uc002qwr.2_Missense_Mutation_p.A910T|TPO_uc002qwx.2_Missense_Mutation_p.A853T|TPO_uc010yio.1_Missense_Mutation_p.A737T|TPO_uc010yip.1_Missense_Mutation_p.A866T|TPO_uc002qwy.1_Missense_Mutation_p.A206T|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	910	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	GCAGCGGGCCGCAGCTCAGGA	0.642													10	54					0	0	0.008291	0	0		A	1544475	A	A	1544475	3	1	1	1	0	0	0	0	1	0	0	0	16436	1087	38	1	2786	1	TPO	2	1544475	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	52753	1544475	241654898	127	127											
PXDN	7837	broad.mit.edu	37	chr2	1670060	1670060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacgcatactctccgctgTccccctgtacgacgttctgt	6	11	8	16	4	2	0	0	0	2	0	4	1	3	0	3	0	3	5	3	0	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:1670060T>C	uc002qxa.2	-	10	1281	c.1217A>G	c.(1216-1218)GAC>GGC	p.D406G	PXDN_uc002qxb.1_Missense_Mutation_p.D406G|PXDN_uc002qxc.1_Missense_Mutation_p.D223G	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	406	Ig-like C2-type 2.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CTCTCCGCTGTCCCCCTGTAC	0.582													7	48					0	0	0.001984	0	0		C	1670060	C	C	1670060	3	2	1	1	0	0	0	0	1	0	0	0	12872	1667	58	3	3278	3	PXDN	2	1670060	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	125585	1670060	241529313	128	128											
MBOAT2	129642	broad.mit.edu	37	chr2	9017244	9017244	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatggtatgatctgccttcAatgaaagtaatgtagtcttt	12	16	8	5	0	3	2	1	2	2	0	3	2	3	2	1	1	1	3	1	1	6	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:9017244A>G	uc002qzg.1	-	7	739	c.606T>C	c.(604-606)ATT>ATC	p.I202I	MBOAT2_uc010yix.1_Silent_p.I202I	NM_138799	NP_620154	Q6ZWT7	MBOA2_HUMAN	O-acyltransferase (membrane bound) domain	202	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					ATCTGCCTTCAATGAAAGTAA	0.418													19	131					0	0	0.010504	0	0		G	9017244	G	G	9017244	2	3	1	1	0	0	0	0	0	0	0	1	9375	126	5	3		3	MBOAT2	2	9017244	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	7347184	9017244	234182129	129	129											
ASAP2	8853	broad.mit.edu	37	chr2	9541417	9541417	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccagaccaagttgaagccTaagcgggtgaaagcgctcta	13	6	11	11	2	1	3	0	2	1	1	1	3	1	3	3	1	3	2	3	1	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:9541417T>A	uc002qzh.2	+	27	3178	c.2838T>A	c.(2836-2838)CCT>CCA	p.P946P	ASAP2_uc002qzi.2_Silent_p.P901P	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	946	SH3.				regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						AGTTGAAGCCTAAGCGGGTGA	0.597													21	60					0	0	0.002299	0	0		A	9541417	A	A	9541417	2	1	1	1	0	0	0	0	0	0	0	1	1012	1509	53	5		5	ASAP2	2	9541417	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	524173	9541417	233657956	130	130											
GRHL1	29841	broad.mit.edu	37	chr2	10101557	10101557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagaccttcaaggaaggcGttcaggaggtaaggaaacaa	16	5	13	7	1	2	1	2	0	0	1	2	5	2	4	1	5	1	2	1	5	5	3	rs140278187		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:10101557G>A	uc002raa.2	+	4	832	c.661G>A	c.(661-663)GTT>ATT	p.V221I	GRHL1_uc002rab.2_RNA|GRHL1_uc002rad.2_Silent_p.A57A|GRHL1_uc010yjb.1_Missense_Mutation_p.V70I	NM_198182	NP_937825	Q9NZI5	GRHL1_HUMAN	grainyhead-like 1	221					cellular lipid metabolic process|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding			pancreas(1)|skin(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.246)		CAAGGAAGGCGTTCAGGAGGT	0.463													16	119					0	0	0.00499	0	0		A	10101557	A	A	10101557	3	1	1	1	0	0	0	0	1	0	0	0	6779	1145	40	1	675	1	GRHL1	2	10101557	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	560140	10101557	233097816	131	131											
ODC1	4953	broad.mit.edu	37	chr2	10581771	10581771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttcaggcaggtcacagcGctcaacaatccgatcgaggc	11	7	10	13	3	3	0	3	0	0	0	5	2	4	0	1	3	2	2	1	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:10581771G>A	uc010exg.1	-	11	1539	c.1105C>T	c.(1105-1107)CGC>TGC	p.R369C	ODC1_uc002ran.1_Missense_Mutation_p.R55C|ODC1_uc002rao.1_Missense_Mutation_p.R369C|ODC1_uc010yjd.1_Missense_Mutation_p.R239C	NM_002539	NP_002530	P11926	DCOR_HUMAN	ornithine decarboxylase 1	369					polyamine biosynthetic process|regulation of cellular amino acid metabolic process|response to virus	cytosol	ornithine decarboxylase activity|protein binding			ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.161)	Pyridoxal Phosphate(DB00114)|Spermine(DB00127)	AGGTCACAGCGCTCAACAATC	0.478													10	76					0	0	0.010729	0	0		A	10581771	A	A	10581771	3	1	1	1	0	0	0	0	1	0	0	0	10844	1087	38	1	288	1	ODC1	2	10581771	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	480214	10581771	232617602	132	132											
C2orf50	130813	broad.mit.edu	37	chr2	11284096	11284096	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccatgtgcctctcttttcGgacacagttcccagttccac	7	12	7	15	1	1	0	0	0	1	0	5	2	3	1	4	1	1	2	4	1	0	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:11284096G>A	uc010yji.1	+	3	630	c.348G>A	c.(346-348)TCG>TCA	p.S116S	C2orf50_uc010yjj.1_Silent_p.S116S	NM_182500	NP_872306	Q96LR7	CB050_HUMAN	hypothetical protein LOC130813	116											0	all_hematologic(175;0.0797)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.0997)|OV - Ovarian serous cystadenocarcinoma(76;0.134)		CTCTCTTTTCGGACACAGTTC	0.572													18	67					0	0	0.007413	0	0		A	11284096	A	A	11284096	2	1	1	1	0	0	0	0	0	0	0	1	2175	1103	39	1		1	C2orf50	2	11284096	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	702325	11284096	231915277	133	133											
OSR1	130497	broad.mit.edu	37	chr2	19553341	19553341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcatccaccaagctggacaCcgtgcccggcactttggaga	9	6	11	15	3	0	1	0	0	0	1	1	3	1	2	4	3	2	3	4	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:19553341C>T	uc002rdc.2	-	2	529	c.226G>A	c.(226-228)GTG>ATG	p.V76M		NM_145260	NP_660303	Q8TAX0	OSR1_HUMAN	odd-skipped related 1	76					chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|heart development|mesangial cell development|mesonephric duct morphogenesis|metanephric cap mesenchymal cell proliferation involved in metanephros development|metanephric glomerulus vasculature development|metanephric interstitial cell development|metanephric mesenchymal cell differentiation|metanephric nephron tubule development|metanephric smooth muscle tissue development|middle ear morphogenesis|negative regulation of apoptosis|negative regulation of nephron tubule epithelial cell differentiation|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|pattern specification involved in metanephros development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of gastrulation|positive regulation of transcription from RNA polymerase II promoter|pronephros development|renal vesicle progenitor cell differentiation|specification of anterior mesonephric tubule identity|specification of posterior mesonephric tubule identity|stem cell differentiation|transcription, DNA-dependent|ureter urothelium development|ureteric bud development	nucleolus	nucleic acid binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	Acute lymphoblastic leukemia(84;0.221)				AAGCTGGACACCGTGCCCGGC	0.627													9	32					0	0	0.010729	0	0		T	19553341	T	T	19553341	3	4	1	1	0	0	0	0	1	0	0	0	11312	507	18	4	582	4	OSR1	2	19553341	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	8269245	19553341	223646032	134	134											
OSR1	130497	broad.mit.edu	37	chr2	19553481	19553481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgaaggcactgtgggcaggCcgttcactgcctgaaggaag	9	6	15	11	2	1	1	1	1	0	0	1	3	1	2	3	4	1	3	3	4	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:19553481C>T	uc002rdc.2	-	2	389	c.86G>A	c.(85-87)GGC>GAC	p.G29D		NM_145260	NP_660303	Q8TAX0	OSR1_HUMAN	odd-skipped related 1	29					chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|heart development|mesangial cell development|mesonephric duct morphogenesis|metanephric cap mesenchymal cell proliferation involved in metanephros development|metanephric glomerulus vasculature development|metanephric interstitial cell development|metanephric mesenchymal cell differentiation|metanephric nephron tubule development|metanephric smooth muscle tissue development|middle ear morphogenesis|negative regulation of apoptosis|negative regulation of nephron tubule epithelial cell differentiation|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|pattern specification involved in metanephros development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of gastrulation|positive regulation of transcription from RNA polymerase II promoter|pronephros development|renal vesicle progenitor cell differentiation|specification of anterior mesonephric tubule identity|specification of posterior mesonephric tubule identity|stem cell differentiation|transcription, DNA-dependent|ureter urothelium development|ureteric bud development	nucleolus	nucleic acid binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	Acute lymphoblastic leukemia(84;0.221)				TGTGGGCAGGCCGTTCACTGC	0.607													6	22					0	0	0.001168	0	0		T	19553481	T	T	19553481	3	4	1	1	0	0	0	0	1	0	0	0	11312	739	26	2	722	2	OSR1	2	19553481	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	140	19553481	223645892	135	135											
PUM2	23369	broad.mit.edu	37	chr2	20511272	20511272	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacttaaaatctttgcaatcGgcatccattccatttggcaa	12	14	5	10	1	1	0	0	0	1	0	4	0	3	0	2	2	2	3	2	2	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:20511272G>A	uc002rds.1	-	4	524	c.501C>T	c.(499-501)GCC>GCT	p.A167A	PUM2_uc002rdt.1_Silent_p.A167A|PUM2_uc002rdr.2_Silent_p.A106A|PUM2_uc010yjy.1_Silent_p.A167A|PUM2_uc002rdu.1_Silent_p.A167A|PUM2_uc010yjz.1_Silent_p.A106A	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2	167	Interaction with SNAPIN.				regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTTGCAATCGGCATCCATTC	0.338													14	136					0	0	0.001855	0	0		A	20511272	A	A	20511272	2	1	1	1	0	0	0	0	0	0	0	1	12851	1103	39	1		1	PUM2	2	20511272	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	957791	20511272	222688101	136	136											
PUM2	23369	broad.mit.edu	37	chr2	20511425	20511425	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcagcatctctagtgccCtgaggaaaaagaatctgttt	11	13	9	8	0	3	2	1	1	2	1	4	3	3	3	1	1	2	3	1	1	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:20511425C>A	uc002rds.1	-	4	372	c.349_splice	c.e4-1	p.G117_splice	PUM2_uc002rdt.1_Splice_Site_p.G117_splice|PUM2_uc002rdr.2_Splice_Site_p.G56_splice|PUM2_uc010yjy.1_Splice_Site_p.G117_splice|PUM2_uc002rdu.1_Splice_Site_p.G117_splice|PUM2_uc010yjz.1_Splice_Site_p.G56_splice	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2						regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTCTAGTGCCCTGAGGAAAAA	0.388													12	78					6.40141e-05	6.77892e-05	0.010729	1	0		A	20511425	A	A	20511425	5	1	1	1	0	0	0	0	0	0	1	0	12851	695	24	5	2914	5	PUM2	2	20511425	Splice_Site	SNP	C	TCGA-B7-5816-01A-21D-1600-08	153	20511425	222687948	137	137											
APOB	338	broad.mit.edu	37	chr2	21234948	21234948	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctgatattcagaacgcaGcagtgcattttgcttagaga	12	11	10	8	1	1	3	1	1	0	2	1	4	1	3	1	0	5	4	1	0	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:21234948G>A	uc002red.2	-	26	4920	c.4792C>T	c.(4792-4794)CTG>TTG	p.L1598L		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1598					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TCAGAACGCAGCAGTGCATTT	0.408													16	126					0	0	0.00499	0	0		A	21234948	A	A	21234948	2	1	1	1	0	0	0	0	0	0	0	1	785	962	34	2		2	APOB	2	21234948	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	723523	21234948	221964425	138	138											
OTOF	9381	broad.mit.edu	37	chr2	26683875	26683875	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcgccccgcgggaaccGgttcaggtccagctcgatgg	5	8	14	14	5	1	0	1	0	0	0	3	2	2	1	4	4	3	2	4	4	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:26683875G>A	uc002rhk.2	-	44	5684	c.5557C>T	c.(5557-5559)CGG>TGG	p.R1853W	OTOF_uc010yla.1_Missense_Mutation_p.R583W|OTOF_uc002rhh.2_Missense_Mutation_p.R1086W|OTOF_uc002rhi.2_Missense_Mutation_p.R1163W|OTOF_uc002rhj.2_Missense_Mutation_p.R1086W	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1853	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGCGGGAACCGGTTCAGGTCC	0.662													4	48					0	0	0.009096	0	0		A	26683875	A	A	26683875	3	1	1	1	0	0	0	0	1	0	0	0	11322	1115	39	1	633	1	OTOF	2	26683875	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5448927	26683875	216515498	139	139											
CAD	790	broad.mit.edu	37	chr2	27461031	27461031	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcagcgctcagtgcacatAtgtcacgtggcacggaagga	11	7	12	11	3	3	0	3	0	0	0	3	2	3	2	0	3	2	3	0	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:27461031A>G	uc002rji.2	+	30	4998	c.4836A>G	c.(4834-4836)ATA>ATG	p.I1612M	CAD_uc010eyw.2_Missense_Mutation_p.I1549M	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1612	DHOase (dihydroorotase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	CAGTGCACATATGTCACGTGG	0.577													6	48					0	0	0.001168	0	0		G	27461031	G	G	27461031	3	3	1	1	0	0	0	0	1	0	0	0	2568	439	16	3	4954	3	CAD	2	27461031	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	777156	27461031	215738342	140	140											
STRN	6801	broad.mit.edu	37	chr2	37152258	37152258	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgaattacctttcctgttTaagagcatactccaacattt	12	15	4	10	0	0	2	0	1	0	1	2	2	2	2	3	0	4	2	3	0	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:37152258T>C	uc002rpn.2	-	2	337	c.328A>G	c.(328-330)AAA>GAA	p.K110E	STRN_uc010ezx.2_Missense_Mutation_p.K110E	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	110	Potential.				dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				CTTTCCTGTTTAAGAGCATAC	0.289													3	170					0	0	0.004672	0	0		C	37152258	C	C	37152258	3	2	1	1	0	0	0	0	1	0	0	0	15354	1763	61	3	2082	3	STRN	2	37152258	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	9691227	37152258	206047115	141	141											
SLC8A1	6546	broad.mit.edu	37	chr2	40656250	40656250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgacctcgtgcatgctgaCagccttccttgcttggtcag	5	13	11	12	1	1	2	1	2	0	0	3	2	2	2	3	1	4	4	3	1	0	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:40656250C>T	uc002rrx.2	-	1	1195	c.1171G>A	c.(1171-1173)GTC>ATC	p.V391I	SLC8A1_uc002rry.2_Missense_Mutation_p.V391I|SLC8A1_uc002rrz.2_Missense_Mutation_p.V391I|SLC8A1_uc002rsa.2_Missense_Mutation_p.V391I|SLC8A1_uc002rsd.3_Missense_Mutation_p.V391I|SLC8A1_uc002rsb.1_Missense_Mutation_p.V391I|SLC8A1_uc010fan.1_Missense_Mutation_p.V391I|SLC8A1_uc002rsc.1_Missense_Mutation_p.V391I	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	391	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	TGCATGCTGACAGCCTTCCTT	0.453													26	171					0	0	0.005443	0	0		T	40656250	T	T	40656250	3	4	1	1	0	0	0	0	1	0	0	0	14731	478	17	4	1898	4	SLC8A1	2	40656250	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3503992	40656250	202543123	142	142											
EML4	27436	broad.mit.edu	37	chr2	42508059	42508059	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattccttccgatgttgacaActatgatgacatcagaacgg	12	11	8	10	2	1	4	1	3	0	1	3	5	3	4	2	1	2	1	2	1	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:42508059A>G	uc002rsi.2	+	7	999	c.737A>G	c.(736-738)AAC>AGC	p.N246S	EML4_uc010fap.2_Missense_Mutation_p.N188S	NM_019063	NP_061936	Q9HC35	EMAL4_HUMAN	echinoderm microtubule associated protein like 4	246					microtubule-based process|mitosis	cytoplasm|microtubule	protein binding		EML4/ALK(246)	lung(246)|ovary(2)|central_nervous_system(1)|skin(1)	250						GATGTTGACAACTATGATGAC	0.413			T	ALK	NSCLC								7	65					0	0	0.00308	0	0		G	42508059	G	G	42508059	3	3	1	1	0	0	0	0	1	0	0	0	5107	43	2	3	763	3	EML4	2	42508059	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1851809	42508059	200691314	143	143											
PLEKHH2	130271	broad.mit.edu	37	chr2	43958648	43958648	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctctcagatatggagacaCcccactttgtgtcacagtaa	11	10	8	12	0	2	2	2	0	1	2	3	3	2	2	3	1	0	1	3	1	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:43958648C>T	uc010yny.1	+	19	2933	c.2850C>T	c.(2848-2850)CAC>CAT	p.H950H	PLEKHH2_uc002rtf.3_Silent_p.H949H	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	950						cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TATGGAGACACCCCACTTTGT	0.358													16	117					0	0	0.010504	0	0		T	43958648	T	T	43958648	2	4	1	1	0	0	0	0	0	0	0	1	12096	506	18	4		4	PLEKHH2	2	43958648	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1450589	43958648	199240725	144	144											
PRKCE	5581	broad.mit.edu	37	chr2	46378253	46378253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgatgtacgagatgatggCtggacagcctccctttgagg	8	10	14	9	1	0	4	0	3	0	1	1	6	1	5	2	3	2	3	2	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:46378253C>T	uc002rut.2	+	13	2002	c.1805C>T	c.(1804-1806)GCT>GTT	p.A602V		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	602	Protein kinase.				activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			GAGATGATGGCTGGACAGCCT	0.582													6	30					0	0	0.00308	0	0		T	46378253	T	T	46378253	3	4	1	1	0	0	0	0	1	0	0	0	12533	797	28	2	1855	2	PRKCE	2	46378253	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2419605	46378253	196821120	145	145											
LHCGR	3973	broad.mit.edu	37	chr2	48925908	48925908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggactctaggccatagctcgGcagggcctgcaatttggtgg	7	9	15	10	1	1	0	0	0	1	0	2	1	1	1	2	6	2	3	2	6	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:48925908G>A	uc002rwu.3	-	9	782	c.712C>T	c.(712-714)CCG>TCG	p.P238S	GTF2A1L_uc002rwt.2_Intron|LHCGR_uc002rwv.2_RNA	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	238	Extracellular (Potential).|LRR 6.				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	CCATAGCTCGGCAGGGCCTGC	0.353									Familial_Male-Limited_Precocious_Puberty				13	53					0	0	0.001368	0	0		A	48925908	A	A	48925908	3	1	1	1	0	0	0	0	1	0	0	0	8778	1203	42	2	1399	2	LHCGR	2	48925908	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2547655	48925908	194273465	146	146											
SPTBN1	6711	broad.mit.edu	37	chr2	54856269	54856269	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctgtcctcggacgattaCgggaaagacctgaccagcgt	10	8	11	12	4	0	2	0	1	0	1	3	5	2	4	4	2	2	0	4	2	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:54856269C>T	uc002rxu.2	+	14	2247	c.1998C>T	c.(1996-1998)TAC>TAT	p.Y666Y	SPTBN1_uc002rxv.1_Silent_p.Y666Y|SPTBN1_uc002rxx.2_Silent_p.Y653Y	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	666	Spectrin 4.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			CGGACGATTACGGGAAAGACC	0.602													7	90					0	0	0.001984	0	0		T	54856269	T	T	54856269	2	4	1	1	0	0	0	0	0	0	0	1	15144	547	19	1		1	SPTBN1	2	54856269	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5930361	54856269	188343104	147	147											
EFEMP1	2202	broad.mit.edu	37	chr2	56145129	56145129	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggtatcctccatagtggTtgacacacttcattccacct	10	12	7	12	0	1	2	1	1	0	1	4	2	4	2	4	2	0	2	4	2	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:56145129T>C	uc002rzh.2	-	4	518	c.188A>G	c.(187-189)AAC>AGC	p.N63S	EFEMP1_uc002rzi.2_Missense_Mutation_p.N63S|EFEMP1_uc002rzj.2_Missense_Mutation_p.N63S|EFEMP1_uc010ypc.1_Missense_Mutation_p.N5S	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	63	EGF-like 1; atypical.				negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TCCATAGTGGTTGACACACTT	0.438													12	170					0	0	0.003163	0	0		C	56145129	C	C	56145129	3	2	1	1	0	0	0	0	1	0	0	0	4947	1725	60	3	1325	3	EFEMP1	2	56145129	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1288860	56145129	187054244	148	148											
EFEMP1	2202	broad.mit.edu	37	chr2	56149565	56149565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcagcatagttaggaaaaggGctttcaacattgtgaatctc	13	12	9	7	0	3	1	2	1	1	0	4	2	3	2	0	2	2	3	0	2	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:56149565G>A	uc002rzh.2	-	2	341	c.11C>T	c.(10-12)GCC>GTC	p.A4V	EFEMP1_uc002rzi.2_Missense_Mutation_p.A4V|EFEMP1_uc002rzj.2_Missense_Mutation_p.A4V|EFEMP1_uc010ypc.1_5'UTR	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	4					negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TAGGAAAAGGGCTTTCAACAT	0.433													21	165					0	0	0.012319	0	0		A	56149565	A	A	56149565	3	1	1	1	0	0	0	0	1	0	0	0	4947	1203	42	2	1510	2	EFEMP1	2	56149565	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4436	56149565	187049808	149	149											
VRK2	7444	broad.mit.edu	37	chr2	58386659	58386659	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctccatcttggtataaatAcacttccacagtcagcacgg	12	11	6	12	1	3	0	1	0	2	0	5	0	4	0	2	2	2	2	2	2	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:58386659A>G	uc002rzo.2	+	16	2103	c.1358A>G	c.(1357-1359)TAC>TGC	p.Y453C	VRK2_uc010fcb.2_3'UTR|VRK2_uc002rzs.2_3'UTR|VRK2_uc002rzr.2_3'UTR|VRK2_uc010fcc.2_Missense_Mutation_p.Y335C|VRK2_uc002rzv.2_Missense_Mutation_p.Y453C|VRK2_uc010fcd.2_Missense_Mutation_p.Y430C|VRK2_uc002rzp.2_Missense_Mutation_p.Y453C|VRK2_uc010ypg.1_Missense_Mutation_p.Y453C|VRK2_uc002rzq.2_3'UTR|VRK2_uc002rzu.2_3'UTR|VRK2_uc002rzt.2_Missense_Mutation_p.Y335C|FANCL_uc002rzw.3_3'UTR|FANCL_uc002rzx.3_3'UTR|FANCL_uc010fce.2_3'UTR	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	453						integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						TGGTATAAATACACTTCCACA	0.393													12	122					0	0	0.001855	0	0		G	58386659	G	G	58386659	3	3	1	1	0	0	0	0	1	0	0	0	17246	391	14	3	1417	3	VRK2	2	58386659	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2237094	58386659	184812714	150	150											
BCL11A	53335	broad.mit.edu	37	chr2	60687881	60687881	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggaccactaatatggggCgtgctccctccacttcccgt	6	9	9	17	3	0	0	0	0	0	0	3	1	3	1	5	3	1	1	5	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:60687881C>T	uc002sae.1	-	4	2394	c.2166G>A	c.(2164-2166)ACG>ACA	p.T722T	BCL11A_uc002sab.2_Silent_p.T722T|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Silent_p.T391T|BCL11A_uc010ypj.1_Silent_p.T688T|BCL11A_uc002sad.1_Silent_p.T570T|BCL11A_uc002saf.1_Silent_p.T688T	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	722					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			TAATATGGGGCGTGCTCCCTC	0.632			T	IGH@	B-CLL								12	97					0	0	0.010729	0	0		T	60687881	T	T	60687881	2	4	1	1	0	0	0	0	0	0	0	1	1364	755	27	1		1	BCL11A	2	60687881	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2301222	60687881	182511492	151	151											
REL	5966	broad.mit.edu	37	chr2	61144153	61144153	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacccaatttatgacaaccGtaagtacttcattttcttat	13	15	4	9	1	2	1	1	1	1	0	2	2	2	1	2	0	3	2	2	0	7	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:61144153G>A	uc002sam.1	+	5	759	c.535_splice	c.e5+1	p.R179_splice	REL_uc002san.1_Splice_Site_p.R179_splice	NM_002908	NP_002899	Q04864	REL_HUMAN	v-rel reticuloendotheliosis viral oncogene						positive regulation of I-kappaB kinase/NF-kappaB cascade	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	all_hematologic(2;0.0797)	Ovarian(717;0.0728)	LUSC - Lung squamous cell carcinoma(5;6.2e-08)|Lung(5;1.65e-06)|Epithelial(17;0.064)|all cancers(80;0.221)			TATGACAACCGTAAGTACTTC	0.274			A		Hodgkin Lymphoma								9	154					0	0	0.006214	0	0		A	61144153	A	A	61144153	5	1	1	1	0	0	0	0	0	0	1	0	13240	1159	40	1	554	1	REL	2	61144153	Splice_Site	SNP	G	TCGA-B7-5816-01A-21D-1600-08	456272	61144153	182055220	152	152											
USP34	9736	broad.mit.edu	37	chr2	61607348	61607348	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatagtcaaagtaggtgAcataaagtacttaaatgcaa	17	10	7	7	0	2	1	2	1	0	0	2	1	2	1	1	1	2	3	1	1	9	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:61607348A>G	uc002sbe.2	-	7	992	c.970T>C	c.(970-972)TCA>CCA	p.S324P		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	324					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			AAAGTAGGTGACATAAAGTAC	0.348													12	78					0	0	0.001368	0	0		G	61607348	G	G	61607348	3	3	1	1	0	0	0	0	1	0	0	0	17091	275	10	3	9966	3	USP34	2	61607348	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	463195	61607348	181592025	153	153											
MCEE	84693	broad.mit.edu	37	chr2	71337204	71337204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacctcttcacttagactgcGgatcttcttttttttcaaat	8	18	5	10	1	5	1	2	0	3	1	5	3	5	2	1	1	1	0	1	1	2	7	rs138436961	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:71337204G>A	uc002shs.2	-	3	472	c.427C>T	c.(427-429)CGC>TGC	p.R143C		NM_032601	NP_115990	Q96PE7	MCEE_HUMAN	methylmalonyl CoA epimerase precursor	143					fatty acid beta-oxidation|L-methylmalonyl-CoA metabolic process	mitochondrial matrix	methylmalonyl-CoA epimerase activity			ovary(1)	1						CTTAGACTGCGGATCTTCTTT	0.378													15	72					0	0	0.00499	0	0		A	71337204	A	A	71337204	3	1	1	1	0	0	0	0	1	0	0	0	9395	1116	39	1	107	1	MCEE	2	71337204	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	9729856	71337204	171862169	154	154											
DYSF	8291	broad.mit.edu	37	chr2	71883367	71883367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaacaccttcaagctgtacCggggcaagacgcaggaggag	12	5	14	10	2	1	1	1	0	0	1	1	3	1	3	2	4	3	5	2	4	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:71883367C>T	uc002sie.2	+	42	4961	c.4585C>T	c.(4585-4587)CGG>TGG	p.R1529W	DYSF_uc010feg.2_Missense_Mutation_p.R1560W|DYSF_uc010feh.2_Missense_Mutation_p.R1536W|DYSF_uc002sig.3_Missense_Mutation_p.R1515W|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.R1550W|DYSF_uc010fef.2_Missense_Mutation_p.R1567W|DYSF_uc010fei.2_Missense_Mutation_p.R1546W|DYSF_uc010fek.2_Missense_Mutation_p.R1547W|DYSF_uc010fej.2_Missense_Mutation_p.R1537W|DYSF_uc010fel.2_Missense_Mutation_p.R1516W|DYSF_uc010feo.2_Missense_Mutation_p.R1561W|DYSF_uc010fem.2_Missense_Mutation_p.R1551W|DYSF_uc010fen.2_Missense_Mutation_p.R1568W|DYSF_uc002sif.2_Missense_Mutation_p.R1530W|DYSF_uc010yqy.1_Missense_Mutation_p.R410W|DYSF_uc010yqz.1_Missense_Mutation_p.R290W	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1529	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CAAGCTGTACCGGGGCAAGAC	0.498													56	438					0	0	0.00361	0	0		T	71883367	T	T	71883367	3	4	1	1	0	0	0	0	1	0	0	0	4865	643	23	1	5010	1	DYSF	2	71883367	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	546163	71883367	171316006	155	155											
CCT7	10574	broad.mit.edu	37	chr2	73477494	73477494	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcattctccgtggcggCgccgagcagtttatggagga	7	10	13	11	4	2	0	1	0	1	0	3	3	2	2	3	4	1	2	3	4	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:73477494C>T	uc002siz.2	+	10	1233	c.1131C>T	c.(1129-1131)GGC>GGT	p.G377G	CCT7_uc002sja.2_Silent_p.G173G|CCT7_uc010yrf.1_Silent_p.G333G|CCT7_uc010feu.2_Silent_p.G335G|CCT7_uc010yrg.1_Silent_p.G277G|CCT7_uc010yrh.1_Silent_p.G249G|CCT7_uc010yri.1_Silent_p.G290G	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	377					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						TCCGTGGCGGCGCCGAGCAGT	0.522													14	130					0	0	0.00245	0	0		T	73477494	T	T	73477494	2	4	1	1	0	0	0	0	0	0	0	1	2962	755	27	1		1	CCT7	2	73477494	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1594127	73477494	169721879	156	156											
FBXO41	150726	broad.mit.edu	37	chr2	73493774	73493774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctggcctcccgcgccgcCgtctccttcaggaactggtc	3	8	12	18	5	2	0	1	0	1	0	5	1	3	1	5	3	1	1	5	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:73493774C>T	uc002sjb.1	-	3	1125	c.1125G>A	c.(1123-1125)ACG>ACA	p.T375T		NM_001080410	NP_001073879	Q8TF61	FBX41_HUMAN	F-box protein 41	314	Potential.					intracellular	protein binding|zinc ion binding			breast(2)|pancreas(1)	3						CCCGCGCCGCCGTCTCCTTCA	0.667													6	16					0	0	0.00308	0	0		T	73493774	T	T	73493774	2	4	1	1	0	0	0	0	0	0	0	1	5764	639	23	1		1	FBXO41	2	73493774	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	16280	73493774	169705599	157	157											
ALMS1	7840	broad.mit.edu	37	chr2	73680416	73680416	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaatccaggatgcagaaaaTagtgctaaaactcttaagga	18	8	9	6	0	1	1	0	0	1	1	2	4	2	3	1	2	3	2	1	2	7	3	rs45483291		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:73680416T>C	uc002sje.1	+	10	6876	c.6765T>C	c.(6763-6765)AAT>AAC	p.N2255N	ALMS1_uc002sjf.1_Silent_p.N2211N|ALMS1_uc002sjg.2_Silent_p.N1641N|ALMS1_uc002sjh.1_Silent_p.N1641N	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2253					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						ATGCAGAAAATAGTGCTAAAA	0.403													7	94					0	0	0.001984	0	0		C	73680416	C	C	73680416	2	2	1	1	0	0	0	0	0	0	0	1	535	1403	49	3		3	ALMS1	2	73680416	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	186642	73680416	169518957	158	158											
ST3GAL5	8869	broad.mit.edu	37	chr2	86067345	86067345	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaagaggaacttggtttcCgttgtcacattatgcatggt	9	16	10	6	1	1	1	1	0	0	1	2	2	2	2	1	3	2	3	1	3	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:86067345C>T	uc002sqq.1	-	7	1308	c.1179G>A	c.(1177-1179)ACG>ACA	p.T393T	ST3GAL5_uc010fgq.1_Silent_p.T212T|ST3GAL5_uc002sqp.1_Silent_p.T370T	NM_003896	NP_003887	Q9UNP4	SIAT9_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	393	Lumenal (Potential).				ganglioside biosynthetic process|protein glycosylation	integral to Golgi membrane|integral to plasma membrane	lactosylceramide alpha-2,3-sialyltransferase activity|neolactotetraosylceramide alpha-2,3-sialyltransferase activity				0						ACTTGGTTTCCGTTGTCACAT	0.428													48	143					0	0	0.00361	0	0		T	86067345	T	T	86067345	2	4	1	1	0	0	0	0	0	0	0	1	15243	639	23	1		1	ST3GAL5	2	86067345	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	12386929	86067345	157132028	159	159											
POLR1A	25885	broad.mit.edu	37	chr2	86279961	86279961	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaggtgaagcctctgtagaGctgcaggtaggcggtgaaga	11	7	16	7	1	1	4	0	2	1	2	1	4	1	4	1	4	3	4	1	4	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:86279961G>T	uc002sqs.2	-	16	2750	c.2371C>A	c.(2371-2373)CTC>ATC	p.L791I	POLR1A_uc010ytb.1_Missense_Mutation_p.L157I	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	791					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						CCTCTGTAGAGCTGCAGGTAG	0.652													3	39					2.56e-06	2.76533e-06	0.009096	1	0		T	86279961	T	T	86279961	3	4	1	1	0	0	0	0	1	0	0	0	12228	971	34	5	2867	5	POLR1A	2	86279961	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	212616	86279961	156919412	160	160											
VPS24	51652	broad.mit.edu	37	chr2	86733008	86733008	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatcctctgaggcagccatCgctcctggaggttctggctc	5	11	11	14	1	3	1	1	1	2	0	7	2	5	2	3	4	1	4	3	4	0	1	rs140879959	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:86733008C>T	uc002srj.2	-	6	717	c.588G>A	c.(586-588)GCG>GCA	p.A196A	VPS24_uc002srk.2_Silent_p.A130A|VPS24_uc002srl.2_Silent_p.A156A|VPS24_uc010ytl.1_Silent_p.A225A	NM_016079	NP_057163	Q9Y3E7	CHMP3_HUMAN	vacuolar protein sorting 24 isoform 1	196	Potential.|Intramolecular interaction with N- terminus.|Interaction with STAMBP.|Interaction with VPS4A.			Missing: Membrane association; releases autoinhibition.	cell cycle|cell division|cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			central_nervous_system(1)	1						AGGCAGCCATCGCTCCTGGAG	0.602													10	62					0	0	0.010729	0	0		T	86733008	T	T	86733008	2	4	1	1	0	0	0	0	0	0	0	1	17221	871	31	1		1	VPS24	2	86733008	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	453047	86733008	156466365	161	161											
SMYD1	150572	broad.mit.edu	37	chr2	88409944	88409944	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgtactacaagatgcgCgaggctgccctgaacaacca	12	8	9	12	2	1	2	1	1	0	1	1	3	1	2	2	1	6	2	2	1	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:88409944C>T	uc002ssr.2	+	10	1388	c.1386C>T	c.(1384-1386)CGC>CGT	p.R462R	SMYD1_uc002ssq.1_Intron|SMYD1_uc002sss.2_Silent_p.R158R	NM_198274	NP_938015	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	462					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						ACAAGATGCGCGAGGCTGCCC	0.567													3	17					0	0	0.004672	0	0		T	88409944	T	T	88409944	2	4	1	1	0	0	0	0	0	0	0	1	14846	755	27	1		1	SMYD1	2	88409944	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1676936	88409944	154789429	162	162											
EIF2AK3	9451	broad.mit.edu	37	chr2	88870468	88870468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcattggggtcagaaccGtctgctcttcctcatcctgg	5	12	11	13	1	4	1	2	0	2	1	6	1	6	1	3	4	2	2	3	4	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:88870468G>A	uc002stc.3	-	14	3111	c.2909C>T	c.(2908-2910)ACG>ATG	p.T970M		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	970	Cytoplasmic (Potential).|Protein kinase.				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						GGTCAGAACCGTCTGCTCTTC	0.468													20	192					0	0	0.007413	0	0		A	88870468	A	A	88870468	3	1	1	1	0	0	0	0	1	0	0	0	5004	1145	40	1	457	1	EIF2AK3	2	88870468	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	460524	88870468	154328905	163	163											
CNNM3	26505	broad.mit.edu	37	chr2	97483049	97483049	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccagcatcatgcagagcggCcacacgcgcatcccggtgta	9	5	12	15	4	1	1	1	0	0	1	2	1	2	1	3	2	3	4	3	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:97483049C>A	uc002swy.2	+	1	1059	c.1035C>A	c.(1033-1035)GGC>GGA	p.G345G	CNNM3_uc002swz.2_Silent_p.G345G	NM_017623	NP_060093	Q8NE01	CNNM3_HUMAN	cyclin M3 isoform 1	345	CBS 1.				ion transport	integral to membrane|plasma membrane	protein binding			ovary(1)	1						TGCAGAGCGGCCACACGCGCA	0.642													3	45					0.004672	0.00481026	0.004672	1	0		A	97483049	A	A	97483049	2	1	1	1	0	0	0	0	0	0	0	1	3617	726	26	5		5	CNNM3	2	97483049	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	8612581	97483049	145716324	164	164											
VWA3B	200403	broad.mit.edu	37	chr2	98736120	98736120	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagtgcgtcaccatagtgCtggattttggcggcattctg	8	12	12	9	2	2	0	1	0	1	0	2	1	2	1	1	3	3	2	1	3	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:98736120C>A	uc002syo.2	+	4	700	c.436C>A	c.(436-438)CTG>ATG	p.L146M	VWA3B_uc010yvh.1_Intron|VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Translation_Start_Site|VWA3B_uc002sym.2_Missense_Mutation_p.L146M|VWA3B_uc002syn.1_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	146										ovary(3)|large_intestine(2)|skin(1)	6						CACCATAGTGCTGGATTTTGG	0.522													8	427					5.18039e-06	5.58145e-06	0.00308	1	0		A	98736120	A	A	98736120	3	1	1	1	0	0	0	0	1	0	0	0	17267	796	28	5	446	5	VWA3B	2	98736120	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1253071	98736120	144463253	165	165											
INPP4A	3631	broad.mit.edu	37	chr2	99203982	99203982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatgaagaatgttggaagtCgcaaatatgcatttaattcc	15	12	8	6	1	0	2	0	1	0	1	2	3	1	3	1	1	1	3	1	1	7	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:99203982C>T	uc002syy.2	+	26	3238	c.2845C>T	c.(2845-2847)CGC>TGC	p.R949C	INPP4A_uc010yvk.1_Missense_Mutation_p.R910C|INPP4A_uc002syx.2_Missense_Mutation_p.R944C|INPP4A_uc010fik.2_Missense_Mutation_p.R278C	NM_001134224	NP_001127696	Q96PE3	INP4A_HUMAN	inositol polyphosphate-4-phosphatase, type 1	949					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			kidney(1)	1						TGTTGGAAGTCGCAAATATGC	0.423													8	70					0	0	0.004482	0	0		T	99203982	T	T	99203982	3	4	1	1	0	0	0	0	1	0	0	0	7768	884	31	1	3124	1	INPP4A	2	99203982	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	467862	99203982	143995391	166	166											
RPL31	6160	broad.mit.edu	37	chr2	101620636	101620636	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaggggcttcaagaagcgtGcacctcgggcactcaaagag	11	6	14	10	2	2	2	2	0	0	2	3	2	2	2	1	3	2	4	1	3	4	2	rs148930940		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:101620636G>A	uc002taq.3	+	3	211	c.124G>A	c.(124-126)GCA>ACA	p.A42T	RPL31_uc002tar.3_Missense_Mutation_p.A42T|RPL31_uc010yvu.1_Missense_Mutation_p.A42T|RPL31_uc010yvv.1_Missense_Mutation_p.A42T|RPL31_uc010fiu.1_Missense_Mutation_p.A42T|RPL31_uc002tas.1_Missense_Mutation_p.A42T|RPL31_uc002tat.1_Missense_Mutation_p.A42T	NM_000993	NP_000984	P62899	RL31_HUMAN	ribosomal protein L31 isoform 1	42					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0						CAAGAAGCGTGCACCTCGGGC	0.408													10	64					0	0	0.010729	0	0		A	101620636	A	A	101620636	3	1	1	1	0	0	0	0	1	0	0	0	13606	1319	46	2	130	2	RPL31	2	101620636	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2416654	101620636	141578737	167	167											
TMEM182	130827	broad.mit.edu	37	chr2	103414327	103414327	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggggtctccagtttacCgtggtttctgggcagtcctg	3	14	13	11	1	2	0	0	0	2	0	5	0	4	0	4	4	1	3	4	4	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:103414327C>T	uc010fjb.2	+	4	524	c.337C>T	c.(337-339)CGT>TGT	p.R113C	TMEM182_uc002tcc.3_Missense_Mutation_p.R70C|TMEM182_uc002tcd.3_Missense_Mutation_p.R17C|TMEM182_uc010ywe.1_RNA	NM_144632	NP_653233	Q6ZP80	TM182_HUMAN	transmembrane protein 182 precursor	113	Extracellular (Potential).					integral to membrane					0						TCCAGTTTACCGTGGTTTCTG	0.458													16	122					0	0	0.004007	0	0		T	103414327	T	T	103414327	3	4	1	1	0	0	0	0	1	0	0	0	16126	652	23	1	351	1	TMEM182	2	103414327	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1793691	103414327	139785046	168	168											
TGFBRAP1	9392	broad.mit.edu	37	chr2	105924566	105924566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgcagctgtttggtggCagtgaacgtggctggcccag	5	11	15	10	1	1	1	0	1	1	0	2	1	1	1	1	4	3	5	1	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:105924566C>T	uc002tcq.2	-	2	277	c.193G>A	c.(193-195)GCC>ACC	p.A65T	TGFBRAP1_uc002tcr.3_Missense_Mutation_p.A65T	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	65	CNH.				regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						TGTTTGGTGGCAGTGAACGTG	0.612													4	20					0	0	0.001984	0	0		T	105924566	T	T	105924566	3	4	1	1	0	0	0	0	1	0	0	0	15849	710	25	2	2433	2	TGFBRAP1	2	105924566	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2510239	105924566	137274807	169	169											
RGPD4	285190	broad.mit.edu	37	chr2	108455373	108455373	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcaaaatactgggtggaaAgagcagcaaaacttttccca	16	7	10	8	0	0	1	0	0	0	1	1	3	1	2	1	2	5	3	1	2	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:108455373A>G	uc010ywk.1	+	4	440	c.358A>G	c.(358-360)AGA>GGA	p.R120G	RGPD4_uc002tdu.2_5'UTR	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	120					intracellular transport		binding			skin(2)	2						CTGGGTGGAAAGAGCAGCAAA	0.338													44	299					0	0	0.00361	0	0		G	108455373	G	G	108455373	3	3	1	1	0	0	0	0	1	0	0	0	13313	64	3	3	372	3	RGPD4	2	108455373	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2530807	108455373	134744000	170	170											
GCC2	9648	broad.mit.edu	37	chr2	109086795	109086795	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatgaaaaagtcaaacactTagaagataccttaaaagaac	23	7	5	6	0	1	4	1	1	0	3	1	4	1	4	1	0	3	0	1	0	10	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:109086795T>C	uc002tec.2	+	6	1164	c.1010T>C	c.(1009-1011)TTA>TCA	p.L337S	GCC2_uc002ted.2_Missense_Mutation_p.L236S	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	337	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						GTCAAACACTTAGAAGATACC	0.299													17	132					0	0	0.00499	0	0		C	109086795	C	C	109086795	3	2	1	1	0	0	0	0	1	0	0	0	6301	1764	61	3	1032	3	GCC2	2	109086795	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	631422	109086795	134112578	171	171											
CLASP1	23332	broad.mit.edu	37	chr2	122217561	122217561	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcgcagtccttaccccaaCgtgatacaagcctcccgcac	10	7	6	18	3	0	1	0	1	0	0	3	1	2	1	5	0	4	2	5	0	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:122217561C>T	uc002tnc.2	-	12	1563	c.1173G>A	c.(1171-1173)ACG>ACA	p.T391T	CLASP1_uc002tna.2_5'Flank|CLASP1_uc010yyw.1_RNA|CLASP1_uc002tnb.2_RNA|CLASP1_uc010yyx.1_RNA|CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Silent_p.T391T|CLASP1_uc010yza.1_Silent_p.T391T|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_RNA|CLASP1_uc002tng.1_Silent_p.T391T	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	391					axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					CTTACCCCAACGTGATACAAG	0.458													7	37					0	0	0.001984	0	0		T	122217561	T	T	122217561	2	4	1	1	0	0	0	0	0	0	0	1	3457	523	19	1		1	CLASP1	2	122217561	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	13130766	122217561	120981812	172	172											
CNTNAP5	129684	broad.mit.edu	37	chr2	125530475	125530475	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaaccaatggcactatgTccgggctgagaggaacctca	12	7	11	11	1	1	2	1	2	0	1	2	4	2	3	3	3	2	2	3	3	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:125530475T>C	uc002tno.2	+	17	2994	c.2630T>C	c.(2629-2631)GTC>GCC	p.V877A	CNTNAP5_uc010flu.2_Missense_Mutation_p.V878A	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	877	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TGGCACTATGTCCGGGCTGAG	0.552													5	227					0	0	0.000602	0	0		C	125530475	C	C	125530475	3	2	1	1	0	0	0	0	1	0	0	0	3653	1667	58	3	2696	3	CNTNAP5	2	125530475	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3312914	125530475	117668898	173	173											
CNTNAP5	129684	broad.mit.edu	37	chr2	125530547	125530547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggagcaccagggagacgtCggaggagggccattttcgac	11	5	16	9	3	0	1	0	0	0	1	2	6	0	4	2	5	1	1	2	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:125530547C>T	uc002tno.2	+	17	3066	c.2702C>T	c.(2701-2703)TCG>TTG	p.S901L	CNTNAP5_uc010flu.2_Missense_Mutation_p.S902L	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	901	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		AGGGAGACGTCGGAGGAGGGC	0.532													14	162					0	0	0.003163	0	0		T	125530547	T	T	125530547	3	4	1	1	0	0	0	0	1	0	0	0	3653	893	31	1	2768	1	CNTNAP5	2	125530547	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	72	125530547	117668826	174	174											
ZRANB3	84083	broad.mit.edu	37	chr2	135965210	135965210	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgacatttcagagagcaaaAccgtgaatcccaagagttcg	14	8	9	10	2	1	4	1	2	0	2	3	5	2	4	2	0	2	2	2	0	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:135965210A>G	uc002tum.2	-	19	2920	c.2803T>C	c.(2803-2805)TTT>CTT	p.F935L	ZRANB3_uc002tuk.2_Missense_Mutation_p.F478L|ZRANB3_uc002tul.2_Missense_Mutation_p.F933L	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	935						intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		AGAGAGCAAAACCGTGAATCC	0.443													50	343					0	0	0.00361	0	0		G	135965210	G	G	135965210	3	3	1	1	0	0	0	0	1	0	0	0	18249	43	2	3	448	3	ZRANB3	2	135965210	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	10434663	135965210	107234163	175	175											
LCT	3938	broad.mit.edu	37	chr2	136547160	136547160	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggctggtggagacaagcGtgaggccctgtagcggggtc	6	7	18	10	2	0	2	0	1	0	1	1	3	0	2	2	6	2	2	2	6	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:136547160G>A	uc002tuu.1	-	16	5555	c.5544C>T	c.(5542-5544)CAC>CAT	p.H1848H		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1848	Extracellular (Potential).				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		GGAGACAAGCGTGAGGCCCTG	0.567													5	47					0	0	0.000602	0	0		A	136547160	A	A	136547160	2	1	1	1	0	0	0	0	0	0	0	1	8709	1136	40	1		1	LCT	2	136547160	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	581950	136547160	106652213	176	176											
LCT	3938	broad.mit.edu	37	chr2	136567247	136567247	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatctctttcgaacttgggTtggctggagaacttttccca	9	14	9	9	1	1	1	0	0	1	1	4	3	2	1	1	3	2	2	1	3	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:136567247T>C	uc002tuu.1	-	8	2681	c.2670A>G	c.(2668-2670)CAA>CAG	p.Q890Q		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	890	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CGAACTTGGGTTGGCTGGAGA	0.507													22	202					0	0	0.00333	0	0		C	136567247	C	C	136567247	2	2	1	1	0	0	0	0	0	0	0	1	8709	1722	60	3		3	LCT	2	136567247	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	20087	136567247	106632126	177	177											
LRP1B	53353	broad.mit.edu	37	chr2	141081496	141081496	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacgatgagatatcaaaacAccttttgttttatcaatatt	15	16	4	6	1	2	1	2	1	0	1	2	3	2	1	1	0	2	1	1	0	7	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:141081496A>G	uc002tvj.1	-	81	13452	c.12480T>C	c.(12478-12480)GGT>GGC	p.G4160G		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4160	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATATCAAAACACCTTTTGTTT	0.269										TSP Lung(27;0.18)			12	150					0	0	0.010729	0	0		G	141081496	G	G	141081496	2	3	1	1	0	0	0	0	0	0	0	1	8973	146	6	3		3	LRP1B	2	141081496	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	4514249	141081496	102117877	178	178											
LRP1B	53353	broad.mit.edu	37	chr2	141081540	141081540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctaagtactctactgaacCatggccaaatttttgaactc	13	12	6	10	0	1	2	0	2	1	0	2	2	1	2	2	1	5	2	2	1	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:141081540C>T	uc002tvj.1	-	81	13408	c.12436G>A	c.(12436-12438)GGT>AGT	p.G4146S		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4146	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TCTACTGAACCATGGCCAAAT	0.299										TSP Lung(27;0.18)			29	155					0	0	0.008361	0	0		T	141081540	T	T	141081540	3	4	1	1	0	0	0	0	1	0	0	0	8973	594	21	4	1407	4	LRP1B	2	141081540	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	44	141081540	102117833	179	179											
LRP1B	53353	broad.mit.edu	37	chr2	141291695	141291695	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatggcttgaagcctcttcGacagcttctgttttcttata	7	16	8	10	1	3	1	0	1	3	0	4	2	3	1	1	1	2	4	1	1	3	7	rs140801406		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:141291695G>A	uc002tvj.1	-	47	8629	c.7657C>T	c.(7657-7659)CGA>TGA	p.R2553*		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2553	Extracellular (Potential).|LDL-receptor class A 12.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding	p.R2553*(1)		lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		AAGCCTCTTCGACAGCTTCTG	0.353										TSP Lung(27;0.18)			14	42					0	0	0.00278	0	0		A	141291695	A	A	141291695	4	1	1	1	0	0	0	0	0	1	0	0	8973	1066	37	1	6322	1	LRP1B	2	141291695	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	210155	141291695	101907678	180	180											
LRP1B	53353	broad.mit.edu	37	chr2	141356315	141356315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttggagtgagtatgtctGtactgaccaccacttgagca	10	12	10	9	0	1	3	0	3	1	0	1	4	1	4	2	1	2	3	2	1	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:141356315G>A	uc002tvj.1	-	43	8051	c.7079C>T	c.(7078-7080)ACA>ATA	p.T2360I		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2360	Extracellular (Potential).|LDL-receptor class B 25.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GAGTATGTCTGTACTGACCAC	0.388										TSP Lung(27;0.18)			17	126					0	0	0.006122	0	0		A	141356315	A	A	141356315	3	1	1	1	0	0	0	0	1	0	0	0	8973	1377	48	4	6916	4	LRP1B	2	141356315	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	64620	141356315	101843058	181	181											
LRP1B	53353	broad.mit.edu	37	chr2	141526896	141526896	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttcatgaacagagtacaTaagaaatgattctataccta	16	12	5	8	0	2	4	1	2	1	2	3	4	3	4	2	0	3	1	2	0	7	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:141526896T>C	uc002tvj.1	-	35	6616	c.5644A>G	c.(5644-5646)ATG>GTG	p.M1882V		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1882	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACAGAGTACATAAGAAATGAT	0.378										TSP Lung(27;0.18)			6	89					0	0	0.001984	0	0		C	141526896	C	C	141526896	3	2	1	1	0	0	0	0	1	0	0	0	8973	1406	49	3	8383	3	LRP1B	2	141526896	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	170581	141526896	101672477	182	182											
GALNT5	11227	broad.mit.edu	37	chr2	158156134	158156134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acttggaacatacgaccctgGccttgatgtttggggtgggg	7	11	15	8	1	0	1	0	1	0	0	0	3	0	2	2	6	2	1	2	6	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:158156134G>A	uc002tzg.2	+	6	2327	c.2072G>A	c.(2071-2073)GGC>GAC	p.G691D	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	691	Catalytic subdomain B.|Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						TACGACCCTGGCCTTGATGTT	0.363													15	91					0	0	0.00245	0	0		A	158156134	A	A	158156134	3	1	1	1	0	0	0	0	1	0	0	0	6231	1203	42	2	2094	2	GALNT5	2	158156134	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	16629238	158156134	85043239	183	183											
GCG	2641	broad.mit.edu	37	chr2	163003887	163003887	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcttggtattcatcaacCactgcacaaaatcttgggca	11	12	6	12	0	4	0	2	0	2	0	5	0	5	0	2	2	2	3	2	2	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:163003887C>A	uc002ucc.2	-	3	329	c.230G>T	c.(229-231)TGG>TTG	p.W77L		NM_002054	NP_002045	P01275	GLUC_HUMAN	glucagon preproprotein	77					cell proliferation|cellular response to glucagon stimulus|energy reserve metabolic process|feeding behavior|regulation of insulin secretion	plasma membrane|soluble fraction	hormone activity				0					Exenatide(DB01276)|Phentolamine(DB00692)	ATTCATCAACCACTGCACAAA	0.423													43	336					4.67007e-22	5.37122e-22	0.00874	1	0		A	163003887	A	A	163003887	3	1	1	1	0	0	0	0	1	0	0	0	6305	595	21	5	328	5	GCG	2	163003887	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4847753	163003887	80195486	184	184											
STK39	27347	broad.mit.edu	37	chr2	168997200	168997200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catccaacatggggtgccaaCgaatgtttttcttactttat	10	15	7	9	1	1	0	0	0	1	0	2	1	2	0	2	2	4	1	2	2	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:168997200C>T	uc002uea.2	-	6	857	c.697G>A	c.(697-699)GTT>ATT	p.V233I		NM_013233	NP_037365	Q9UEW8	STK39_HUMAN	serine threonine kinase 39 (STE20/SPS1 homolog,	233	Protein kinase.				response to stress	cytoplasm|nucleus	ATP binding|protein binding|receptor signaling protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2						GGGGTGCCAACGAATGTTTTT	0.373													5	74					0	0	0.001984	0	0		T	168997200	T	T	168997200	3	4	1	1	0	0	0	0	1	0	0	0	15330	536	19	1	992	1	STK39	2	168997200	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5993313	168997200	74202173	185	185											
DFNB59	494513	broad.mit.edu	37	chr2	179320750	179320750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attttagaaaaattaactttGaccacagcttgatacgtcag	15	13	6	7	1	1	3	1	2	0	1	1	3	1	3	1	0	3	1	1	0	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:179320750G>A	uc002umi.3	+	4	777	c.421G>A	c.(421-423)GAC>AAC	p.D141N	DFNB59_uc002umj.3_Missense_Mutation_p.D141N	NM_001042702	NP_001036167	Q0ZLH3	PJVK_HUMAN	deafness, autosomal recessive 59	141					sensory perception of sound						0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			AATTAACTTTGACCACAGCTT	0.373													6	62					0	0	0.001168	0	0		A	179320750	A	A	179320750	3	1	1	1	0	0	0	0	1	0	0	0	4462	1290	45	4	431	4	DFNB59	2	179320750	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	10323550	179320750	63878623	186	186											
TTN	7273	broad.mit.edu	37	chr2	179429562	179429562	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaataattttggtgcctccAtcattcactggctcatgcca	9	13	6	13	0	3	0	3	0	0	0	4	0	4	0	4	2	2	1	4	2	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:179429562A>G	uc010zfg.1	-	275	73817	c.73593T>C	c.(73591-73593)GAT>GAC	p.D24531D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.D18226D|TTN_uc010zfi.1_Silent_p.D18159D|TTN_uc010zfj.1_Silent_p.D18034D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25458							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGTGCCTCCATCATTCACTG	0.393													14	73					0	0	0.004007	0	0		G	179429562	G	G	179429562	2	3	1	1	0	0	0	0	0	0	0	1	16761	214	8	3		3	TTN	2	179429562	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	108812	179429562	63769811	187	187											
TTN	7273	broad.mit.edu	37	chr2	179434797	179434797	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctccaatcagacgcttatgGcatcttgtccatctaatgcc	9	13	6	13	1	4	1	1	0	3	1	6	1	5	1	3	1	1	2	3	1	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:179434797G>A	uc010zfg.1	-	275	68582	c.68358C>T	c.(68356-68358)TGC>TGT	p.C22786C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.C16481C|TTN_uc010zfi.1_Silent_p.C16414C|TTN_uc010zfj.1_Silent_p.C16289C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23713							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GACGCTTATGGCATCTTGTCC	0.423													26	132					0	0	0.00333	0	0		A	179434797	A	A	179434797	2	1	1	1	0	0	0	0	0	0	0	1	16761	1195	42	2		2	TTN	2	179434797	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5235	179434797	63764576	188	188											
TTN	7273	broad.mit.edu	37	chr2	179442553	179442553	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaacttatgaccaccgtcaTatttaggttcagtccaaatg	12	14	6	9	1	2	1	2	1	0	0	3	1	3	1	3	1	1	1	3	1	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:179442553T>C	uc010zfg.1	-	272	61120	c.60896A>G	c.(60895-60897)TAT>TGT	p.Y20299C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Y13994C|TTN_uc010zfi.1_Missense_Mutation_p.Y13927C|TTN_uc010zfj.1_Missense_Mutation_p.Y13802C|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21226							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACCACCGTCATATTTAGGTTC	0.393													11	101					0	0	0.010729	0	0		C	179442553	C	C	179442553	3	2	1	1	0	0	0	0	1	0	0	0	16761	1406	49	3	39539	3	TTN	2	179442553	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	7756	179442553	63756820	189	189											
TTN	7273	broad.mit.edu	37	chr2	179446303	179446303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttattaacggcatacacaCggaattgatattgtgtgtct	11	15	8	7	2	2	1	0	1	2	0	2	2	2	2	0	2	2	1	0	2	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:179446303C>T	uc010zfg.1	-	265	59212	c.58988G>A	c.(58987-58989)CGT>CAT	p.R19663H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R13358H|TTN_uc010zfi.1_Missense_Mutation_p.R13291H|TTN_uc010zfj.1_Missense_Mutation_p.R13166H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20590							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGCATACACACGGAATTGATA	0.453													13	85					0	0	0.00245	0	0		T	179446303	T	T	179446303	3	4	1	1	0	0	0	0	1	0	0	0	16761	536	19	1	41475	1	TTN	2	179446303	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3750	179446303	63753070	190	190											
TTN	7273	broad.mit.edu	37	chr2	179486698	179486698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atatgatgtcatattttttgCcctttttaatttcagcacca	10	19	4	8	0	2	1	2	1	0	0	2	1	2	1	2	0	2	1	2	0	3	9			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:179486698C>T	uc010zfg.1	-	193	37471	c.37247G>A	c.(37246-37248)GGC>GAC	p.G12416D	TTN_uc010zfh.1_Missense_Mutation_p.G6111D|TTN_uc010zfi.1_Missense_Mutation_p.G6044D|TTN_uc010zfj.1_Missense_Mutation_p.G5919D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13343							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATATTTTTTGCCCTTTTTAAT	0.353													6	48					0	0	0.001168	0	0		T	179486698	T	T	179486698	3	4	1	1	0	0	0	0	1	0	0	0	16761	739	26	2	63218	2	TTN	2	179486698	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	40395	179486698	63712675	191	191											
DNAJC10	54431	broad.mit.edu	37	chr2	183619751	183619751	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataacattcaggcttatccaAcaacagtggtattcaaccag	15	10	6	10	0	2	0	2	0	0	0	3	0	3	0	2	2	4	2	2	2	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:183619751A>G	uc002uow.1	+	17	1988	c.1573A>G	c.(1573-1575)ACG>GCG	p.T525A	DNAJC10_uc002uox.1_RNA|DNAJC10_uc002uoy.1_RNA|DNAJC10_uc002uoz.1_Missense_Mutation_p.T479A|DNAJC10_uc010fro.1_RNA	NM_018981	NP_061854	Q8IXB1	DJC10_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 10	525	Thioredoxin 2.				apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|ER-associated protein catabolic process|glycerol ether metabolic process|negative regulation of protein phosphorylation|protein folding|response to endoplasmic reticulum stress	endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|extracellular region	ATPase activator activity|ATPase binding|chaperone binding|electron carrier activity|heat shock protein binding|misfolded protein binding|protein disulfide oxidoreductase activity|unfolded protein binding			ovary(1)|large_intestine(1)|breast(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			GGCTTATCCAACAACAGTGGT	0.323													10	95					0	0	0.001368	0	0		G	183619751	G	G	183619751	3	3	1	1	0	0	0	0	1	0	0	0	4635	43	2	3	1631	3	DNAJC10	2	183619751	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	4133053	183619751	59579622	192	192											
NCKAP1	10787	broad.mit.edu	37	chr2	183821200	183821200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttcttacttggtaaagcGtatttccagatgagaagtca	11	15	8	7	1	3	2	1	1	2	2	4	3	4	2	1	1	2	2	1	1	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:183821200G>A	uc002upc.2	-	20	2545	c.2143C>T	c.(2143-2145)CGC>TGC	p.R715C	NCKAP1_uc002upb.2_Missense_Mutation_p.R721C	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	715					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			TTGGTAAAGCGTATTTCCAGA	0.318													12	189					0	0	0.00245	0	0		A	183821200	A	A	183821200	3	1	1	1	0	0	0	0	1	0	0	0	10240	1145	40	1	1291	1	NCKAP1	2	183821200	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	201449	183821200	59378173	193	193											
ZNF804A	91752	broad.mit.edu	37	chr2	185798372	185798372	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggaatttgctcgaaatgtaGcatctaaatccaggaaagat	15	10	10	6	1	1	1	0	0	1	1	3	4	2	3	1	2	2	3	1	2	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:185798372G>C	uc002uph.2	+	3	892	c.298G>C	c.(298-300)GCA>CCA	p.A100P		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	100						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TCGAAATGTAGCATCTAAATC	0.373													6	83					0	0	0.001168	0	0		C	185798372	C	C	185798372	3	2	1	1	0	0	0	0	1	0	0	0	18195	971	34	5	308	5	ZNF804A	2	185798372	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1977172	185798372	57401001	194	194											
ZSWIM2	151112	broad.mit.edu	37	chr2	187702109	187702109	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtttgtccagtctctcttTttctgctgcagctactagtt	4	19	8	10	0	3	0	0	0	3	0	5	0	4	0	1	0	4	5	1	0	2	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:187702109T>C	uc002upu.1	-	5	707	c.667A>G	c.(667-669)AAA>GAA	p.K223E		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	223					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			AGTCTCTCTTTTTCTGCTGCA	0.378													7	228					0	0	0.004482	0	0		C	187702109	C	C	187702109	3	2	1	1	0	0	0	0	1	0	0	0	18266	1850	64	3	1254	3	ZSWIM2	2	187702109	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1903737	187702109	55497264	195	195											
CALCRL	10203	broad.mit.edu	37	chr2	188245466	188245466	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgattcagttcctgctgcaAcatcgttccagcagagccat	9	12	8	12	1	1	2	1	1	0	1	4	2	3	2	3	0	5	5	3	0	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:188245466A>G	uc002upv.3	-	6	781	c.233T>C	c.(232-234)GTT>GCT	p.V78A	CALCRL_uc010frt.2_Missense_Mutation_p.V78A	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	78	Extracellular (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			TCCTGCTGCAACATCGTTCCA	0.418													7	75					0	0	0.00308	0	0		G	188245466	G	G	188245466	3	3	1	1	0	0	0	0	1	0	0	0	2583	43	2	3	1192	3	CALCRL	2	188245466	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	543357	188245466	54953907	196	196											
OSGEPL1	64172	broad.mit.edu	37	chr2	190619912	190619912	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattaccttgtcaagcatgTcacctggtgctatgtccaaa	11	13	7	10	0	2	0	2	0	0	0	3	0	3	0	3	1	3	2	3	1	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:190619912T>C	uc002uqz.1	-	3	1130	c.596A>G	c.(595-597)GAC>GGC	p.D199G	OSGEPL1_uc002ura.1_RNA|OSGEPL1_uc010zfy.1_Missense_Mutation_p.D199G	NM_022353	NP_071748	Q9H4B0	OSGP2_HUMAN	O-sialoglycoprotein endopeptidase-like 1	199					proteolysis|tRNA processing		metalloendopeptidase activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0293)|all cancers(119;0.0831)			GTCAAGCATGTCACCTGGTGC	0.368													4	72					0	0	0.009096	0	0		C	190619912	C	C	190619912	3	2	1	1	0	0	0	0	1	0	0	0	11307	1667	58	3	672	3	OSGEPL1	2	190619912	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2374446	190619912	52579461	197	197											
HECW2	57520	broad.mit.edu	37	chr2	197084840	197084840	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgaccaattccagttctCttgcatcaaaaacagatacc	14	10	5	12	1	2	2	1	1	1	1	4	3	3	2	3	0	3	2	3	0	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:197084840C>A	uc002utm.1	-	26	4514	c.4331G>T	c.(4330-4332)AGA>ATA	p.R1444I	HECW2_uc002utl.1_Missense_Mutation_p.R1088I	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	1444	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						TTCCAGTTCTCTTGCATCAAA	0.413													8	66					0.000274275	0.000286633	0.004482	1	0		A	197084840	A	A	197084840	3	1	1	1	0	0	0	0	1	0	0	0	7059	913	32	5	403	5	HECW2	2	197084840	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	6464928	197084840	46114533	198	198											
SF3B1	23451	broad.mit.edu	37	chr2	198285757	198285757	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaatgaaagatcacctgtTctgttgactgtggtatatca	13	14	8	6	0	3	3	2	2	1	1	3	3	3	3	1	1	0	3	1	1	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:198285757T>C	uc002uue.2	-	3	344	c.296A>G	c.(295-297)GAA>GGA	p.E99G	SF3B1_uc010fsk.1_RNA|SF3B1_uc002uuf.2_Missense_Mutation_p.E99G|SF3B1_uc002uug.2_Missense_Mutation_p.E99G	NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	99					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GATCACCTGTTCTGTTGACTG	0.373													42	277					0	0	0.009718	0	0		C	198285757	C	C	198285757	3	2	1	1	0	0	0	0	1	0	0	0	14174	1783	62	3	3734	3	SF3B1	2	198285757	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1200917	198285757	44913616	199	199											
ORC2L	4999	broad.mit.edu	37	chr2	201791550	201791550	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacgtgaatggaatcttgcaGcatagtggttcgaaaccttt	12	12	10	7	2	1	1	0	1	1	0	2	3	1	2	1	2	4	3	1	2	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:201791550G>A	uc002uwr.2	-	12	1248	c.991C>T	c.(991-993)CTG>TTG	p.L331L	ORC2L_uc010zhj.1_Silent_p.L331L	NM_006190	NP_006181	Q13416	ORC2_HUMAN	origin recognition complex, subunit 2	331					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0						GAATCTTGCAGCATAGTGGTT	0.368													28	181					0	0	0.009535	0	0		A	201791550	A	A	201791550	2	1	1	1	0	0	0	0	0	0	0	1	11281	962	34	2		2	ORC2L	2	201791550	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3505793	201791550	41407823	200	200											
FAM117B	150864	broad.mit.edu	37	chr2	203560705	203560705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcttgctggacactggcctCgggatagccatgggcaagct	8	9	13	11	1	1	0	0	0	1	0	2	2	1	2	2	4	3	3	2	4	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:203560705C>T	uc010zhx.1	+	2	713	c.703C>T	c.(703-705)CGG>TGG	p.R235W	FAM117B_uc010zhw.1_Missense_Mutation_p.R235W	NM_173511	NP_775782	Q6P1L5	F117B_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	235										ovary(1)	1						ACACTGGCCTCGGGATAGCCA	0.488													9	75					0	0	0.004482	0	0		T	203560705	T	T	203560705	3	4	1	1	0	0	0	0	1	0	0	0	5421	875	31	1	709	1	FAM117B	2	203560705	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1769155	203560705	39638668	201	201											
NRP2	8828	broad.mit.edu	37	chr2	206628415	206628415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagatgacaggaatttcttgCggctgcagagtgacagccag	11	8	13	9	1	1	4	0	2	1	2	1	5	1	5	1	2	3	2	1	2	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:206628415C>T	uc002vaw.2	+	13	2853	c.2062C>T	c.(2062-2064)CGG>TGG	p.R688W	NRP2_uc002vau.2_Missense_Mutation_p.R688W|NRP2_uc002vav.2_Missense_Mutation_p.R688W|NRP2_uc002vax.2_Missense_Mutation_p.R688W|NRP2_uc002vay.2_Missense_Mutation_p.R688W	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	688	Extracellular (Potential).|MAM.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						GAATTTCTTGCGGCTGCAGAG	0.572											OREG0015155	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	127					0	0	0.010729	0	0		T	206628415	T	T	206628415	3	4	1	1	0	0	0	0	1	0	0	0	10680	759	27	1	2139	1	NRP2	2	206628415	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3067710	206628415	36570958	202	202											
FAM119A	151194	broad.mit.edu	37	chr2	208486553	208486553	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcagccactatgcccAccagccccgtgccagcaccc	8	3	10	20	1	0	0	0	0	0	0	0	0	0	0	7	1	5	3	7	1	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:208486553A>G	uc002vcf.2	-	3	396	c.236T>C	c.(235-237)GTG>GCG	p.V79A	FAM119A_uc002vce.2_Missense_Mutation_p.V79A|FAM119A_uc010fuk.1_Missense_Mutation_p.V79A|FAM119A_uc002vcg.3_Missense_Mutation_p.V79A	NM_145280	NP_660323	Q8WXB1	MT21A_HUMAN	hypothetical protein LOC151194	79	Helical; (Potential).					integral to membrane	methyltransferase activity				0				LUSC - Lung squamous cell carcinoma(261;0.0705)|Epithelial(149;0.131)|Lung(261;0.135)		CACTATGCCCACCAGCCCCGT	0.562													10	101					0	0	0.001368	0	0		G	208486553	G	G	208486553	3	3	1	1	0	0	0	0	1	0	0	0	5424	159	6	3	428	3	FAM119A	2	208486553	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1858138	208486553	34712820	203	203											
CRYGB	1419	broad.mit.edu	37	chr2	209007376	209007376	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacttcagtacaaatccaTgactcgtctaagagagccaa	16	9	6	10	1	2	2	1	1	1	1	4	3	3	2	2	0	3	1	2	0	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:209007376T>C	uc002vcp.3	-	3	547	c.514A>G	c.(514-516)ATG>GTG	p.M172V		NM_005210	NP_005201	P07316	CRGB_HUMAN	crystallin, gamma B	172	Beta/gamma crystallin 'Greek key' 4.				visual perception		structural constituent of eye lens				0				Epithelial(149;0.0641)|LUSC - Lung squamous cell carcinoma(261;0.0703)|Lung(261;0.132)		TACAAATCCATGACTCGTCTA	0.443													23	156					0	0	0.00278	0	0		C	209007376	C	C	209007376	3	2	1	1	0	0	0	0	1	0	0	0	3918	1464	51	3	17	3	CRYGB	2	209007376	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	520823	209007376	34191997	204	204											
ERBB4	2066	broad.mit.edu	37	chr2	212289018	212289018	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaggtcatcagttcccataTagtaactcctatattggaga	14	12	7	8	0	2	1	2	0	0	1	4	2	4	1	2	2	1	2	2	2	6	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:212289018T>C	uc002veg.1	-	23	2826	c.2728A>G	c.(2728-2730)ATA>GTA	p.I910V	ERBB4_uc002veh.1_Missense_Mutation_p.I910V|ERBB4_uc010zji.1_Missense_Mutation_p.I900V|ERBB4_uc010zjj.1_Missense_Mutation_p.I900V	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	910	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		AGTTCCCATATAGTAACTCCT	0.373										TSP Lung(8;0.080)			6	84					0	0	0.001168	0	0		C	212289018	C	C	212289018	3	2	1	1	0	0	0	0	1	0	0	0	5217	1406	49	3	1222	3	ERBB4	2	212289018	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3281642	212289018	30910355	205	205											
ERBB4	2066	broad.mit.edu	37	chr2	212568916	212568916	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatgactgtatgttcaggAaacctacaagtgaagagtag	14	9	11	7	0	1	3	1	2	0	1	1	4	1	4	2	1	2	3	2	1	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:212568916A>G	uc002veg.1	-	11	1300	c.1202T>C	c.(1201-1203)TTC>TCC	p.F401S	ERBB4_uc002veh.1_Missense_Mutation_p.F401S|ERBB4_uc010zji.1_Missense_Mutation_p.F401S|ERBB4_uc010zjj.1_Missense_Mutation_p.F401S|ERBB4_uc010fut.1_Missense_Mutation_p.F401S	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	401	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TATGTTCAGGAAACCTACAAG	0.358										TSP Lung(8;0.080)			50	110					0	0	0.00361	0	0		G	212568916	G	G	212568916	3	3	1	1	0	0	0	0	1	0	0	0	5217	246	9	3	2796	3	ERBB4	2	212568916	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	279898	212568916	30630457	206	206											
IKZF2	22807	broad.mit.edu	37	chr2	213872278	213872278	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaatctgttctccttctcCattgaagaccttgtagatgt	8	16	6	11	0	3	3	0	1	3	2	5	3	3	3	4	0	0	2	4	0	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:213872278C>A	uc002vem.2	-	8	1556	c.1387G>T	c.(1387-1389)GGA>TGA	p.G463*	IKZF2_uc010fuu.2_Nonsense_Mutation_p.G318*|IKZF2_uc002vej.2_Nonsense_Mutation_p.G410*|IKZF2_uc002vek.2_RNA|IKZF2_uc010fuv.2_Nonsense_Mutation_p.G389*|IKZF2_uc002vel.2_Nonsense_Mutation_p.G384*|IKZF2_uc010fuw.2_Nonsense_Mutation_p.G237*|IKZF2_uc010fux.2_Nonsense_Mutation_p.G237*|IKZF2_uc010fuy.2_Nonsense_Mutation_p.G391*|IKZF2_uc002ven.2_Nonsense_Mutation_p.G437*|IKZF2_uc002vei.2_Nonsense_Mutation_p.G241*	NM_016260	NP_057344	Q9UKS7	IKZF2_HUMAN	helios isoform 1	463					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		TCTCCTTCTCCATTGAAGACC	0.488													22	323					8.10497e-08	8.87561e-08	0.010504	1	0		A	213872278	A	A	213872278	4	1	1	1	0	0	0	0	0	1	0	0	7631	603	21	5	197	5	IKZF2	2	213872278	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1303362	213872278	29327095	207	207											
IKZF2	22807	broad.mit.edu	37	chr2	214012446	214012446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttactgcttgtcatgtgaCttggtgaggcatgctgtcca	7	14	11	9	0	1	2	1	2	0	0	2	2	2	2	1	2	3	3	1	2	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:214012446C>T	uc002vem.2	-	3	294	c.125G>A	c.(124-126)AGT>AAT	p.S42N	IKZF2_uc010fuu.2_Missense_Mutation_p.S42N|IKZF2_uc002vej.2_5'UTR|IKZF2_uc002vek.2_RNA|IKZF2_uc010fuv.2_Missense_Mutation_p.S42N|IKZF2_uc002vel.2_5'UTR|IKZF2_uc010fuw.2_5'UTR|IKZF2_uc010fux.2_5'UTR|IKZF2_uc010fuy.2_Missense_Mutation_p.S42N|IKZF2_uc002ven.2_Missense_Mutation_p.S42N	NM_016260	NP_057344	Q9UKS7	IKZF2_HUMAN	helios isoform 1	42					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		TGTCATGTGACTTGGTGAGGC	0.453													26	378					0	0	0.004656	0	0		T	214012446	T	T	214012446	3	4	1	1	0	0	0	0	1	0	0	0	7631	565	20	4	1479	4	IKZF2	2	214012446	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	140168	214012446	29186927	208	208											
ATIC	471	broad.mit.edu	37	chr2	216182940	216182940	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgtgtgaaaactttgcaTcctgcagtccatgctggtaa	10	11	11	9	1	0	1	0	1	0	0	2	2	2	2	2	2	4	4	2	2	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:216182940T>C	uc002vex.3	+	3	381	c.207T>C	c.(205-207)CAT>CAC	p.H69H	ATIC_uc010zjo.1_Silent_p.H10H|ATIC_uc002vey.3_Silent_p.H68H	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	69					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity		ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	AAACTTTGCATCCTGCAGTCC	0.408			T	ALK	ALCL								11	218					0	0	0.010729	0	0		C	216182940	C	C	216182940	2	2	1	1	0	0	0	0	0	0	0	1	1106	1432	50	3		3	ATIC	2	216182940	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2170494	216182940	27016433	209	209											
TNS1	7145	broad.mit.edu	37	chr2	218712809	218712809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actggggatgggggtctctgCcaatggctgagggctgggcc	5	8	19	9	0	1	1	0	1	1	0	2	2	1	2	2	7	1	2	2	7	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:218712809C>T	uc002vgt.2	-	17	2454	c.2056G>A	c.(2056-2058)GCA>ACA	p.A686T	TNS1_uc002vgr.2_Missense_Mutation_p.A686T|TNS1_uc002vgs.2_Missense_Mutation_p.A686T|TNS1_uc010zjv.1_Missense_Mutation_p.A686T|TNS1_uc010fvj.1_Missense_Mutation_p.A754T|TNS1_uc010fvk.1_Missense_Mutation_p.A811T|TNS1_uc010fvi.1_Missense_Mutation_p.A373T	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	686						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GGGGTCTCTGCCAATGGCTGA	0.532													9	43					0	0	0.004482	0	0		T	218712809	T	T	218712809	3	4	1	1	0	0	0	0	1	0	0	0	16368	739	26	2	3219	2	TNS1	2	218712809	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2529869	218712809	24486564	210	210											
ZNF142	7701	broad.mit.edu	37	chr2	219508771	219508771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcactaccatctgcaccCgcccctctagcaccaatgcc	9	7	6	19	1	3	0	1	0	2	0	3	1	3	1	6	1	4	2	6	1	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:219508771C>T	uc002vin.2	-	8	2904	c.2468G>A	c.(2467-2469)CGG>CAG	p.R823Q	ZNF142_uc002vil.2_Missense_Mutation_p.R784Q|ZNF142_uc010fvt.2_Missense_Mutation_p.R660Q|ZNF142_uc002vim.2_Missense_Mutation_p.R660Q	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	823					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		CATCTGCACCCGCCCCTCTAG	0.582													27	216					0	0	0.009535	0	0		T	219508771	T	T	219508771	3	4	1	1	0	0	0	0	1	0	0	0	17756	652	23	1	2607	1	ZNF142	2	219508771	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	795962	219508771	23690602	211	211											
CRYBA2	1412	broad.mit.edu	37	chr2	219855055	219855055	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtaagtacagaactctccGctgtgccggtcccgctccaa	8	8	9	16	4	1	1	0	0	1	1	4	1	3	1	5	1	3	4	5	1	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:219855055G>A	uc002vjj.1	-	5	548	c.513C>T	c.(511-513)AGC>AGT	p.S171S	CRYBA2_uc002vjk.1_Silent_p.S171S	NM_057094	NP_476435	P53672	CRBA2_HUMAN	crystallin, beta A2	171	Beta/gamma crystallin 'Greek key' 4.						structural constituent of eye lens				0		Renal(207;0.0474)		Epithelial(149;9.77e-07)|all cancers(144;0.000167)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGAACTCTCCGCTGTGCCGGT	0.627													9	73					0	0	0.008291	0	0		A	219855055	A	A	219855055	2	1	1	1	0	0	0	0	0	0	0	1	3911	1078	38	1		1	CRYBA2	2	219855055	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	346284	219855055	23344318	212	212											
KCNE4	23704	broad.mit.edu	37	chr2	223917619	223917619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagccccctggagtcccGtgcggccggcggcggcagcg	4	3	17	17	6	0	0	0	0	0	0	1	1	1	1	4	5	4	2	4	5	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:223917619G>A	uc002vnl.3	+	2	225	c.71G>A	c.(70-72)CGT>CAT	p.R24H		NM_080671	NP_542402	Q8WWG9	KCNE4_HUMAN	potassium voltage-gated channel, Isk-related	24						integral to membrane	voltage-gated potassium channel activity			ovary(1)	1		Renal(207;0.0183)|Lung NSC(271;0.137)|all_lung(227;0.175)		Epithelial(121;4.48e-11)|all cancers(144;2.88e-08)|Lung(261;0.00688)|LUSC - Lung squamous cell carcinoma(224;0.008)		CTGGAGTCCCGTGCGGCCGGC	0.617													8	46					0	0	0.001368	0	0		A	223917619	A	A	223917619	3	1	1	1	0	0	0	0	1	0	0	0	8041	1145	40	1	73	1	KCNE4	2	223917619	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4062564	223917619	19281754	213	213											
SPHKAP	80309	broad.mit.edu	37	chr2	228882136	228882136	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagtaatccagcagtaacTcaaatcctctcccttcattt	12	13	3	13	0	3	0	2	0	1	0	6	0	5	0	3	0	2	3	3	0	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:228882136T>C	uc002vpq.2	-	7	3481	c.3434A>G	c.(3433-3435)GAG>GGG	p.E1145G	SPHKAP_uc002vpp.2_Missense_Mutation_p.E1145G|SPHKAP_uc010zlx.1_Missense_Mutation_p.E1145G	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1145						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CAGCAGTAACTCAAATCCTCT	0.522													13	88					0	0	0.001855	0	0		C	228882136	C	C	228882136	3	2	1	1	0	0	0	0	1	0	0	0	15073	1551	54	3	1692	3	SPHKAP	2	228882136	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	4964517	228882136	14317237	214	214											
SP100	6672	broad.mit.edu	37	chr2	231314895	231314895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttatctccagagtcctgcGaacaaattgctgtccaagtg	10	12	9	10	1	1	1	0	0	1	1	4	2	3	1	3	0	3	2	3	0	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:231314895G>A	uc002vqt.2	+	8	886	c.745G>A	c.(745-747)GAA>AAA	p.E249K	SP100_uc002vqs.2_Missense_Mutation_p.E249K|SP100_uc002vqu.1_Missense_Mutation_p.E249K|SP100_uc010zmb.1_Missense_Mutation_p.E249K|SP100_uc002vqq.1_Missense_Mutation_p.E249K|SP100_uc002vqr.1_Missense_Mutation_p.E224K|SP100_uc010zmc.1_Missense_Mutation_p.E224K|SP100_uc002vqv.1_Missense_Mutation_p.E213K	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	249					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		AGAGTCCTGCGAACAAATTGC	0.473													15	128					0	0	0.006122	0	0		A	231314895	A	A	231314895	3	1	1	1	0	0	0	0	1	0	0	0	14985	1059	37	1	775	1	SP100	2	231314895	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2432759	231314895	11884478	215	215											
ITM2C	81618	broad.mit.edu	37	chr2	231742762	231742762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaactgcaatgccatccGccacttcgagaacaccttcg	12	7	7	15	3	0	2	0	0	0	2	3	3	1	2	4	0	4	1	4	0	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:231742762G>A	uc002vqz.2	+	6	872	c.752G>A	c.(751-753)CGC>CAC	p.R251H	ITM2C_uc002vra.2_Missense_Mutation_p.R204H|ITM2C_uc002vrb.2_Missense_Mutation_p.R214H|ITM2C_uc002vrc.2_Missense_Mutation_p.R140H|ITM2C_uc002vrd.2_Missense_Mutation_p.R103H	NM_030926	NP_112188	Q9NQX7	ITM2C_HUMAN	integral membrane protein 2C isoform 1	251					negative regulation of neuron projection development|neuron differentiation	Golgi apparatus|integral to membrane|lysosomal membrane|perinuclear region of cytoplasm	beta-amyloid binding				0		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;8.47e-12)|all cancers(144;3.44e-09)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)		AATGCCATCCGCCACTTCGAG	0.577													3	38					0	0	0.009096	0	0		A	231742762	A	A	231742762	3	1	1	1	0	0	0	0	1	0	0	0	7930	1087	38	1	774	1	ITM2C	2	231742762	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	427867	231742762	11456611	216	216											
HJURP	55355	broad.mit.edu	37	chr2	234752914	234752914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacacgtacatcccttccagCtctgttacctgcacactgaa	10	10	5	16	1	1	1	0	1	1	0	3	1	3	1	3	0	4	4	3	0	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:234752914C>T	uc002vvg.2	-	7	577	c.511G>A	c.(511-513)GCT>ACT	p.A171T	HJURP_uc010znd.1_Missense_Mutation_p.A110T|HJURP_uc010zne.1_Missense_Mutation_p.A79T	NM_018410	NP_060880	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	171					cell cycle|CenH3-containing nucleosome assembly at centromere|centromeric core chromatin assembly|chromosome segregation|regulation of DNA binding|regulation of protein complex assembly	condensed chromosome kinetochore|cytoplasm|nucleolus|nucleoplasm	DNA binding|histone binding			ovary(1)	1		Breast(86;0.00204)|all_lung(227;0.00433)|Renal(207;0.00685)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0719)|Lung SC(224;0.128)		Epithelial(121;2.01e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000186)|Lung(119;0.00521)|LUSC - Lung squamous cell carcinoma(224;0.00829)		TCCCTTCCAGCTCTGTTACCT	0.552													13	125					0	0	0.001855	0	0		T	234752914	T	T	234752914	3	4	1	1	0	0	0	0	1	0	0	0	7205	797	28	2	1747	2	HJURP	2	234752914	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3010152	234752914	8446459	217	217											
CXCR7	57007	broad.mit.edu	37	chr2	237489793	237489793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgttcccttctccattatcGctgtcttctacttcctgctg	3	17	5	16	2	3	0	0	0	3	0	7	0	5	0	4	0	2	3	4	0	2	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:237489793G>A	uc010fyq.2	+	3	915	c.685G>A	c.(685-687)GCT>ACT	p.A229T	CXCR7_uc002vwd.2_Missense_Mutation_p.A229T	NM_020311	NP_064707	P25106	CXCR7_HUMAN	chemokine orphan receptor 1	229	Helical; Name=5; (Potential).				interspecies interaction between organisms	integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3		Breast(86;0.000182)|Renal(207;0.00339)|all_hematologic(139;0.0048)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|all_lung(227;0.147)|all_neural(83;0.223)		Epithelial(121;8.35e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.09e-11)|Kidney(56;1.11e-07)|KIRC - Kidney renal clear cell carcinoma(57;3.03e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000176)|Lung(119;0.00468)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.118)		CTCCATTATCGCTGTCTTCTA	0.577													9	129					0	0	0.004482	0	0		A	237489793	A	A	237489793	3	1	1	1	0	0	0	0	1	0	0	0	4099	1087	38	1	687	1	CXCR7	2	237489793	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2736879	237489793	5709580	218	218											
COL6A3	1293	broad.mit.edu	37	chr2	238253001	238253001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagcacagacctgcaaagCgttgatgagctgccggtctt	10	8	12	11	2	1	4	0	2	1	2	1	4	1	4	2	1	5	4	2	1	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:238253001C>T	uc002vwl.2	-	36	7945	c.7660G>A	c.(7660-7662)GCT>ACT	p.A2554T	COL6A3_uc002vwo.2_Missense_Mutation_p.A2348T|COL6A3_uc010znj.1_Missense_Mutation_p.A1947T|COL6A3_uc002vwj.2_5'Flank|COL6A3_uc002vwp.1_Missense_Mutation_p.A375T	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2554	VWFA 11.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		ACCTGCAAAGCGTTGATGAGC	0.557													8	216					0	0	0.004482	0	0		T	238253001	T	T	238253001	3	4	1	1	0	0	0	0	1	0	0	0	3704	768	27	1	1909	1	COL6A3	2	238253001	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	763208	238253001	4946372	219	219											
COL6A3	1293	broad.mit.edu	37	chr2	238285492	238285492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatctccaatcttgggaagcGactctgcagccaggataaac	12	8	10	11	1	3	0	0	0	3	0	4	4	3	2	2	2	4	1	2	2	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:238285492G>A	uc002vwl.2	-	7	3278	c.2993C>T	c.(2992-2994)TCG>TTG	p.S998L	COL6A3_uc002vwo.2_Missense_Mutation_p.S792L|COL6A3_uc010znj.1_Missense_Mutation_p.S391L|COL6A3_uc002vwq.2_Missense_Mutation_p.S792L|COL6A3_uc002vwr.2_Missense_Mutation_p.S591L|COL6A3_uc010znk.1_Missense_Mutation_p.S798L	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	998	Nonhelical region.|VWFA 5.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CTTGGGAAGCGACTCTGCAGC	0.498													36	290					0	0	0.00623	0	0		A	238285492	A	A	238285492	3	1	1	1	0	0	0	0	1	0	0	0	3704	1059	37	1	6739	1	COL6A3	2	238285492	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	32491	238285492	4913881	220	220											
UBE2F	140739	broad.mit.edu	37	chr2	238881799	238881799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgacgatggtctcaaagggtCccggacggcagccacagcgt	9	6	14	12	4	1	1	1	1	1	0	3	3	2	2	2	4	2	1	2	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:238881799C>T	uc002vxk.2	+	2	141	c.50C>T	c.(49-51)TCC>TTC	p.S17F	UBE2F_uc010znn.1_Missense_Mutation_p.S17F|UBE2F_uc002vxl.2_RNA|UBE2F_uc010zno.1_RNA|UBE2F_uc010znp.1_Missense_Mutation_p.S17F|SCLY_uc002vxm.3_5'UTR	NM_080678	NP_542409	Q969M7	UBE2F_HUMAN	NEDD8-conjugating enzyme	17	Interaction with UBA3.				protein neddylation		ATP binding|NEDD8 ligase activity|protein binding				0		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;6.7e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|Kidney(56;3.53e-09)|KIRC - Kidney renal clear cell carcinoma(57;9.79e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000136)|Lung(119;0.0126)|LUSC - Lung squamous cell carcinoma(224;0.0301)		CTCAAAGGGTCCCGGACGGCA	0.473													10	80					0	0	0.001855	0	0		T	238881799	T	T	238881799	3	4	1	1	0	0	0	0	1	0	0	0	16881	855	30	4	52	4	UBE2F	2	238881799	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	596307	238881799	4317574	221	221											
HDAC4	9759	broad.mit.edu	37	chr2	239988477	239988477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcgcaaatggcggtcaggtCgtggcctccctcgagggcca	6	7	15	13	4	1	0	1	0	0	0	5	1	2	0	3	5	0	1	3	5	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:239988477C>T	uc002vyk.3	-	24	3721	c.2929G>A	c.(2929-2931)GAC>AAC	p.D977N	HDAC4_uc010fyy.2_Missense_Mutation_p.D934N	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	977	Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		GCGGTCAGGTCGTGGCCTCCC	0.627													10	64					0	0	0.008291	0	0		T	239988477	T	T	239988477	3	4	1	1	0	0	0	0	1	0	0	0	7025	884	31	1	341	1	HDAC4	2	239988477	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1106678	239988477	3210896	222	222											
HDLBP	3069	broad.mit.edu	37	chr2	242174570	242174570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcctgtagctccttcacaCgctccagcagtccagccttg	6	9	9	17	2	1	0	1	0	0	0	4	0	4	0	5	1	3	4	5	1	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:242174570C>T	uc002waz.2	-	23	3338	c.3110G>A	c.(3109-3111)CGT>CAT	p.R1037H	HDLBP_uc002wba.2_Missense_Mutation_p.R1037H|HDLBP_uc002wbb.2_Missense_Mutation_p.R989H	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	1037	KH 12.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		CTCCTTCACACGCTCCAGCAG	0.542													10	55					0	0	0.006214	0	0		T	242174570	T	T	242174570	3	4	1	1	0	0	0	0	1	0	0	0	7041	536	19	1	720	1	HDLBP	2	242174570	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2186093	242174570	1024803	223	223											
FARP2	9855	broad.mit.edu	37	chr2	242429430	242429430	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgtttcaccatctacgcGgctcagaaaacaatcgtggt	11	10	8	12	3	3	1	2	0	1	1	4	1	3	1	1	2	2	2	1	2	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr2:242429430G>A	uc002wbi.1	+	22	2592	c.2475G>A	c.(2473-2475)GCG>GCA	p.A825A		NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	825	PH 1.				axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		CCATCTACGCGGCTCAGAAAA	0.552													4	80					0	0	0.009096	0	0		A	242429430	A	A	242429430	2	1	1	1	0	0	0	0	0	0	0	1	5691	1103	39	1		1	FARP2	2	242429430	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	254860	242429430	769943	224	224											
CHL1	10752	broad.mit.edu	37	chr3	402087	402087	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatggaactatccttgccaAtgccaatattgatgttgtgg	10	13	9	9	0	0	1	0	1	0	0	1	2	1	2	4	2	3	1	4	2	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:402087A>G	uc003bou.2	+	11	1509	c.1238A>G	c.(1237-1239)AAT>AGT	p.N413S	CHL1_uc003bot.2_Missense_Mutation_p.N429S|CHL1_uc003bow.1_Missense_Mutation_p.N413S|CHL1_uc011asi.1_Missense_Mutation_p.N429S	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	413	Ig-like C2-type 4.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		ATCCTTGCCAATGCCAATATT	0.433													24	202					0	0	0.00333	0	0		G	402087	G	G	402087	3	3	1	1	0	0	0	0	1	0	0	0	3352	101	4	3	1324	3	CHL1	3	402087	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08		402087	197620343	225	225											
CRELD1	78987	broad.mit.edu	37	chr3	9984784	9984784	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccaaggcctgcctaggcTgcatgggggcagggccaggt	6	6	18	11	0	0	0	0	0	0	0	0	0	0	0	4	6	3	3	4	6	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:9984784T>C	uc003bug.2	+	9	959	c.841T>C	c.(841-843)TGC>CGC	p.C281R	CIDEC_uc003bto.2_Intron|CRELD1_uc003buf.2_Missense_Mutation_p.C281R|CRELD1_uc003buh.2_Missense_Mutation_p.C281R|CRELD1_uc003bui.2_Missense_Mutation_p.C281R|CRELD1_uc003buj.2_RNA	NM_001077415	NP_001070883	Q96HD1	CREL1_HUMAN	cysteine-rich with EGF-like domains 1 isoform 3	281	FU 2.|Extracellular (Potential).				cardiac septum development|endocardial cushion development	integral to membrane	calcium ion binding			ovary(1)	1						CTGCCTAGGCTGCATGGGGGC	0.622													22	131					0	0	0.00333	0	0		C	9984784	C	C	9984784	3	2	1	1	0	0	0	0	1	0	0	0	3869	1580	55	3	871	3	CRELD1	3	9984784	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	9582697	9984784	188037646	226	226											
FANCD2	2177	broad.mit.edu	37	chr3	10140588	10140588	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcagaactttgcctacttAtgtttattgtcaaatgcttc	10	16	7	8	0	1	1	1	0	0	1	2	2	1	1	1	0	5	3	1	0	5	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:10140588A>G	uc003buw.2	+	43	4448	c.4370A>G	c.(4369-4371)TAT>TGT	p.Y1457C	FANCD2_uc003bux.1_Intron|FANCD2_uc003buy.1_Intron|FANCD2_uc010hcw.1_Intron|C3orf24_uc003buz.2_Intron	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	1457					DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		TTGCCTACTTATGTTTATTGT	0.403			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				25	253					0	0	0.007291	0	0		G	10140588	G	G	10140588	3	3	1	1	0	0	0	0	1	0	0	0	5679	449	16	3	4536	3	FANCD2	3	10140588	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	155804	10140588	187881842	227	227											
NUP210	23225	broad.mit.edu	37	chr3	13399741	13399741	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgcttgttctgctgcAgcagcggacaggacatgtcc	7	9	11	14	1	1	0	0	0	1	0	2	2	2	2	3	2	5	5	3	2	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:13399741A>T	uc003bxv.1	-	16	2392	c.2309T>A	c.(2308-2310)CTG>CAG	p.L770Q	NUP210_uc003bxx.2_Missense_Mutation_p.L442Q	NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	770	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					GTTCTGCTGCAGCAGCGGACA	0.662													7	69					0	0	0.001984	0	0		T	13399741	T	T	13399741	3	4	1	1	0	0	0	0	1	0	0	0	10779	188	7	5	3454	5	NUP210	3	13399741	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	3259153	13399741	184622689	228	228											
FGD5	152273	broad.mit.edu	37	chr3	14861657	14861657	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcacctctttttgcagcgAgagctgttctcctctttctg	5	15	9	12	1	4	1	0	0	4	1	5	3	4	1	2	0	4	4	2	0	0	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:14861657A>T	uc003bzc.2	+	1	1189	c.1079A>T	c.(1078-1080)GAG>GTG	p.E360V	FGD5_uc011avk.1_Missense_Mutation_p.E360V	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	360					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						TTTTGCAGCGAGAGCTGTTCT	0.527													13	108					0	0	0.001368	0	0		T	14861657	T	T	14861657	3	4	1	1	0	0	0	0	1	0	0	0	5850	304	11	5	1081	5	FGD5	3	14861657	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1461916	14861657	183160773	229	229											
TBC1D5	9779	broad.mit.edu	37	chr3	17447931	17447931	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttccagcaaatgctgcggaaCctgctgcttctcagctgccc	7	10	9	15	1	1	0	1	0	1	0	3	1	2	1	3	1	8	5	3	1	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:17447931C>A	uc003cbf.2	-	5	1920	c.255G>T	c.(253-255)AGG>AGT	p.R85S	TBC1D5_uc010hev.2_Missense_Mutation_p.R85S|TBC1D5_uc003cbe.2_Missense_Mutation_p.R85S|TBC1D5_uc010hew.1_Missense_Mutation_p.R37S	NM_014744	NP_055559	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5 isoform b	85	Rab-GAP TBC.					intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						TGCTGCGGAACCTGCTGCTTC	0.388													40	144					5.44703e-19	6.24333e-19	0.009718	1	0		A	17447931	A	A	17447931	3	1	1	1	0	0	0	0	1	0	0	0	15648	506	18	5	2274	5	TBC1D5	3	17447931	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2586274	17447931	180574499	230	230											
SATB1	6304	broad.mit.edu	37	chr3	18456690	18456690	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcctcactgtggtgtgcgaCcattgttcgggaggcaagtc	6	12	13	10	2	1	0	1	0	0	0	4	2	2	1	2	3	1	2	2	3	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:18456690C>T	uc003cbh.2	-	5	2287	c.552G>A	c.(550-552)TGG>TGA	p.W184*	SATB1_uc003cbi.2_Nonsense_Mutation_p.W184*|SATB1_uc003cbj.2_Nonsense_Mutation_p.W184*	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	184	PDZ-like dimerization domain.				cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						TGGTGTGCGACCATTGTTCGG	0.453													16	134					0	0	0.007413	0	0		T	18456690	T	T	18456690	4	4	1	1	0	0	0	0	0	1	0	0	13878	508	18	4	1767	4	SATB1	3	18456690	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1008759	18456690	179565740	231	231											
NGLY1	55768	broad.mit.edu	37	chr3	25770727	25770727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatttgaaactcgaacataaCgatctttcacaatattgtaa	16	14	4	7	2	2	1	1	1	1	0	3	3	2	1	0	0	3	1	0	0	7	7	rs139134926	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:25770727C>T	uc003cdl.2	-	10	1616	c.1508G>A	c.(1507-1509)CGT>CAT	p.R503H	NGLY1_uc010hfg.2_Missense_Mutation_p.R485H|NGLY1_uc003cdm.2_Missense_Mutation_p.R503H|NGLY1_uc011awo.1_Missense_Mutation_p.R461H|NGLY1_uc003cdk.2_RNA	NM_018297	NP_060767	Q96IV0	NGLY1_HUMAN	N-glycanase 1 isoform 1	503	PAW.				glycoprotein catabolic process	cytoplasm	metal ion binding|peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase activity|protein binding			breast(1)	1						TCGAACATAACGATCTTTCAC	0.348													7	166					0	0	0.00308	0	0		T	25770727	T	T	25770727	3	4	1	1	0	0	0	0	1	0	0	0	10417	536	19	1	468	1	NGLY1	3	25770727	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	7314037	25770727	172251703	232	232											
NEK10	152110	broad.mit.edu	37	chr3	27326096	27326096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaatctttatacttactaaCggttactttgtccttatccc	11	17	3	10	1	1	0	0	0	1	0	3	0	3	0	2	1	4	1	2	1	8	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:27326096C>T	uc003cdt.1	-	23	2285	c.2011G>A	c.(2011-2013)GTT>ATT	p.V671I	NEK10_uc003cds.1_Missense_Mutation_p.V68I	NM_199347	NP_955379	Q6ZWH5	NEK10_HUMAN	NIMA-related kinase 10 isoform 3	671	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						TACTTACTAACGGTTACTTTG	0.303													10	128					0	0	0.006214	0	0		T	27326096	T	T	27326096	3	4	1	1	0	0	0	0	1	0	0	0	10341	536	19	1	139	1	NEK10	3	27326096	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1555369	27326096	170696334	233	233											
OSBPL10	114884	broad.mit.edu	37	chr3	31712295	31712295	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccagctcctacctgtggActttccctccatagaaaggc	8	9	9	15	1	0	1	0	0	0	1	3	2	3	2	5	3	2	1	5	3	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:31712295A>G	uc003cev.2	-	10	2288	c.1907T>C	c.(1906-1908)GTC>GCC	p.V636A	OSBPL10_uc003ceu.1_Missense_Mutation_p.V393A|OSBPL10_uc011axf.1_Missense_Mutation_p.V572A	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	636					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		CTACCTGTGGACTTTCCCTCC	0.502													20	190					0	0	0.012319	0	0		G	31712295	G	G	31712295	3	3	1	1	0	0	0	0	1	0	0	0	11294	275	10	3	403	3	OSBPL10	3	31712295	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	4386199	31712295	166310135	234	234											
GOLGA4	2803	broad.mit.edu	37	chr3	37340400	37340400	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagagaacctacttaagcgTtgtaaggaaacaattcagtc	16	9	8	8	1	1	1	1	0	0	1	2	3	1	2	1	1	4	2	1	1	7	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:37340400T>G	uc003cgv.2	+	8	1195	c.891T>G	c.(889-891)CGT>CGG	p.R297R	GOLGA4_uc010hgr.1_Intron|GOLGA4_uc003cgw.2_Silent_p.R319R|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Silent_p.R178R	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	297	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TACTTAAGCGTTGTAAGGAAA	0.373													13	163					0	0	0.001368	0	0		G	37340400	G	G	37340400	2	3	1	1	0	0	0	0	0	0	0	1	6570	1712	60	5		5	GOLGA4	3	37340400	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	5628105	37340400	160682030	235	235											
ITGA9	3680	broad.mit.edu	37	chr3	37574822	37574822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagcaaggcctgtcattaCggtggatgtctccatcttcc	8	11	10	12	1	3	1	1	0	2	1	5	2	4	2	3	3	2	1	3	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:37574822C>T	uc003chd.2	+	14	1444	c.1391C>T	c.(1390-1392)ACG>ATG	p.T464M	ITGA9_uc003chc.2_Missense_Mutation_p.T464M	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	464	Extracellular (Potential).|FG-GAP 7.				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		CCTGTCATTACGGTGGATGTC	0.542													7	72					0	0	0.00308	0	0		T	37574822	T	T	37574822	3	4	1	1	0	0	0	0	1	0	0	0	7899	536	19	1	1445	1	ITGA9	3	37574822	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	234422	37574822	160447608	236	236											
ACVR2B	93	broad.mit.edu	37	chr3	38518872	38518872	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagcggcctggagcgctgCgaaggcgagcaggacaagcg	10	2	18	11	5	0	1	0	0	0	1	0	5	0	3	1	4	5	2	1	4	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:38518872C>T	uc003cif.2	+	2	171	c.147C>T	c.(145-147)TGC>TGT	p.C49C	ACVR2B_uc003cig.2_5'UTR	NM_001106	NP_001097	Q13705	AVR2B_HUMAN	activin A receptor, type IIB precursor	49	Extracellular (Potential).				activin receptor signaling pathway|anterior/posterior pattern formation|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|regulation of transcription, DNA-dependent	cell surface|cytoplasm|integral to plasma membrane	activin receptor activity|ATP binding|growth factor binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)		TGGAGCGCTGCGAAGGCGAGC	0.637													8	50					0	0	0.006214	0	0		T	38518872	T	T	38518872	2	4	1	1	0	0	0	0	0	0	0	1	224	776	27	1		1	ACVR2B	3	38518872	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	944050	38518872	159503558	237	237											
XIRP1	165904	broad.mit.edu	37	chr3	39230481	39230481	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagcgggctgcacgaacGtctcctccacctggctgggg	6	6	14	15	3	1	0	0	0	1	0	3	1	2	0	4	4	4	3	4	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:39230481G>A	uc003cjk.1	-	2	677	c.456C>T	c.(454-456)GAC>GAT	p.D152D	XIRP1_uc003cji.2_Silent_p.D152D|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	152	Xin 3.						actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CTGCACGAACGTCTCCTCCAC	0.622													12	71					0	0	0.001368	0	0		A	39230481	A	A	39230481	2	1	1	1	0	0	0	0	0	0	0	1	17455	1136	40	1		1	XIRP1	3	39230481	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	711609	39230481	158791949	238	238											
CTNNB1	1499	broad.mit.edu	37	chr3	41275213	41275213	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggtgacagggaagacaTcactgagcctgccatctgtg	9	8	14	10	0	2	3	1	2	1	1	2	4	2	4	2	3	2	1	2	3	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:41275213T>C	uc010hia.1	+	10	1535	c.1379T>C	c.(1378-1380)ATC>ACC	p.I460T	CTNNB1_uc003ckp.2_Missense_Mutation_p.I460T|CTNNB1_uc003ckq.2_Missense_Mutation_p.I460T|CTNNB1_uc003ckr.2_Missense_Mutation_p.I460T|CTNNB1_uc011azf.1_Missense_Mutation_p.I453T|CTNNB1_uc011azg.1_Missense_Mutation_p.I388T|CTNNB1_uc003cks.2_Missense_Mutation_p.I63T|CTNNB1_uc003ckt.1_5'Flank	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	460	ARM 8.				adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	AGGGAAGACATCACTGAGCCT	0.507		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				20	179					0	0	0.007413	0	0		C	41275213	C	C	41275213	3	2	1	1	0	0	0	0	1	0	0	0	4019	1435	50	3	1409	3	CTNNB1	3	41275213	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2044732	41275213	156747217	239	239											
NKTR	4820	broad.mit.edu	37	chr3	42679502	42679502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggaaaaaaaatagcgtttCacataaaaagcatagcagca	20	7	8	6	1	1	0	1	0	0	0	1	1	1	1	0	1	4	4	0	1	9	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:42679502C>T	uc003clo.2	+	13	2453	c.2306C>T	c.(2305-2307)TCA>TTA	p.S769L	NKTR_uc003clm.1_Missense_Mutation_p.S516L|NKTR_uc003clp.2_Missense_Mutation_p.S516L|NKTR_uc011azp.1_Intron|NKTR_uc003clq.1_Missense_Mutation_p.S659L|NKTR_uc003clr.1_Missense_Mutation_p.S516L|NKTR_uc003cls.2_Missense_Mutation_p.S469L	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	769	Arg/Ser-rich.				protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		AATAGCGTTTCACATAAAAAG	0.398													12	103					0	0	0.001368	0	0		T	42679502	T	T	42679502	3	4	1	1	0	0	0	0	1	0	0	0	10467	838	29	4	2352	4	NKTR	3	42679502	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1404289	42679502	155342928	240	240											
ZNF197	10168	broad.mit.edu	37	chr3	44673974	44673974	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttatttcaggagttggtgAtgttcgaggaggtgtcagta	8	15	15	3	1	2	1	2	1	0	0	3	4	2	3	0	4	0	4	0	4	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:44673974A>G	uc003cnm.2	+	5	858	c.652A>G	c.(652-654)ATG>GTG	p.M218V	ZNF197_uc003cnn.2_Missense_Mutation_p.M218V|ZNF197_uc003cno.2_RNA|ZNF197_uc003cnp.2_Missense_Mutation_p.M218V	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	218	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|skin(1)	4				KIRC - Kidney renal clear cell carcinoma(197;0.0478)|Kidney(197;0.0598)		GGAGTTGGTGATGTTCGAGGA	0.498													37	333					0	0	0.004878	0	0		G	44673974	G	G	44673974	3	3	1	1	0	0	0	0	1	0	0	0	17784	333	12	3	666	3	ZNF197	3	44673974	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1994472	44673974	153348456	241	241											
LARS2	23395	broad.mit.edu	37	chr3	45530204	45530204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aataggaattcccagtactaGctcagaggacaccatcttag	14	9	8	10	0	2	1	1	0	1	1	3	3	3	3	2	2	2	2	2	2	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:45530204G>A	uc003cop.1	+	12	1324	c.1139G>A	c.(1138-1140)AGC>AAC	p.S380N	LARS2_uc010hit.1_Missense_Mutation_p.S337N	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial	380					leucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|leucine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.0122)|KIRC - Kidney renal clear cell carcinoma(197;0.0313)|Kidney(197;0.0372)	L-Leucine(DB00149)	CCCAGTACTAGCTCAGAGGAC	0.473													12	111					0	0	0.001855	0	0		A	45530204	A	A	45530204	3	1	1	1	0	0	0	0	1	0	0	0	8651	971	34	2	1177	2	LARS2	3	45530204	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	856230	45530204	152492226	242	242											
LARS2	23395	broad.mit.edu	37	chr3	45554714	45554714	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtatctacagagagaggaAgtggatctcacaggtaagaa	16	7	12	6	0	2	3	1	0	2	3	3	6	2	5	0	3	1	2	0	3	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:45554714A>C	uc003cop.1	+	16	2033	c.1848A>C	c.(1846-1848)GAA>GAC	p.E616D	LARS2_uc010hit.1_Missense_Mutation_p.E573D	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial	616					leucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|leucine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.0122)|KIRC - Kidney renal clear cell carcinoma(197;0.0313)|Kidney(197;0.0372)	L-Leucine(DB00149)	AGAGAGAGGAAGTGGATCTCA	0.547													14	130					0	0	0.003163	0	0		C	45554714	C	C	45554714	3	2	1	1	0	0	0	0	1	0	0	0	8651	69	3	5	1902	5	LARS2	3	45554714	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	24510	45554714	152467716	243	243											
ALS2CL	259173	broad.mit.edu	37	chr3	46712551	46712551	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctggatgtgctcgtaacAggactggagggagagaggca	10	9	16	6	1	1	1	0	0	1	1	2	6	1	5	0	5	2	3	0	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:46712551A>C	uc003cqa.1	-	26	2975	c.2785T>G	c.(2785-2787)TGT>GGT	p.C929G	ALS2CL_uc003cpx.1_Missense_Mutation_p.C276G|ALS2CL_uc003cpy.1_RNA|ALS2CL_uc003cpz.1_Missense_Mutation_p.C444G|ALS2CL_uc003cqb.1_Missense_Mutation_p.C929G|ALS2CL_uc003cqc.1_RNA	NM_147129	NP_667340	Q60I27	AL2CL_HUMAN	ALS2 C-terminal like isoform 1	929	VPS9.				endosome organization|regulation of Rho protein signal transduction		GTPase activator activity|identical protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)|central_nervous_system(2)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000726)|KIRC - Kidney renal clear cell carcinoma(197;0.0171)|Kidney(197;0.0202)		TGCTCGTAACAGGACTGGAGG	0.587													12	151					0	0	0.001368	0	0		C	46712551	C	C	46712551	3	2	1	1	0	0	0	0	1	0	0	0	551	188	7	5	80	5	ALS2CL	3	46712551	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1157837	46712551	151309879	244	244											
CSPG5	10675	broad.mit.edu	37	chr3	47614327	47614327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgatgatggactcgcagcGcatccccttgtgccagatgt	7	10	13	11	2	0	3	0	2	0	1	2	4	1	4	3	2	2	2	3	2	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:47614327G>A	uc003crp.3	-	3	1407	c.1231C>T	c.(1231-1233)CGC>TGC	p.R411C	CSPG5_uc003crn.2_Missense_Mutation_p.R273C|CSPG5_uc003cro.3_Missense_Mutation_p.R411C|CSPG5_uc011bbb.1_Missense_Mutation_p.R273C	NM_006574	NP_006565	O95196	CSPG5_HUMAN	chondroitin sulfate proteoglycan 5 (neuroglycan	411	EGF-like.|Extracellular (Potential).				cell differentiation|intracellular transport|nervous system development|regulation of growth	endoplasmic reticulum membrane|Golgi-associated vesicle membrane|integral to plasma membrane|membrane fraction	growth factor activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000266)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		GACTCGCAGCGCATCCCCTTG	0.612													7	47					0	0	0.00308	0	0		A	47614327	A	A	47614327	3	1	1	1	0	0	0	0	1	0	0	0	3964	1087	38	1	400	1	CSPG5	3	47614327	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	901776	47614327	150408103	245	245											
FBXW12	285231	broad.mit.edu	37	chr3	48423258	48423258	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggatgggagccagtgatGgatatatgattgtctttacc	9	14	12	6	0	2	2	0	2	2	0	2	5	2	5	2	3	2	0	2	3	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:48423258G>T	uc003csr.2	+	9	1240	c.1054G>T	c.(1054-1056)GGA>TGA	p.G352*	FBXW12_uc010hjv.2_Nonsense_Mutation_p.G333*|FBXW12_uc003css.2_Nonsense_Mutation_p.G282*|FBXW12_uc010hjw.2_Nonsense_Mutation_p.G251*	NM_207102	NP_996985	Q6X9E4	FBW12_HUMAN	F-box and WD repeat domain containing 12 isoform	352	WD 4.										0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		AGCCAGTGATGGATATATGAT	0.448													25	158					1.10923e-09	1.23166e-09	0.00278	1	0		T	48423258	T	T	48423258	4	4	1	1	0	0	0	0	0	1	0	0	5779	1349	47	5	1121	5	FBXW12	3	48423258	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	808931	48423258	149599172	246	246											
PLXNB1	5364	broad.mit.edu	37	chr3	48454330	48454330	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggggatgccgctgcccaGgaggtcactggtgagatcgg	8	6	18	9	2	1	1	1	1	0	1	2	5	1	3	2	6	2	1	2	6	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:48454330G>T	uc003csw.2	-	25	4945	c.4675C>A	c.(4675-4677)CTG>ATG	p.L1559M	PLXNB1_uc003cst.2_Missense_Mutation_p.L9M|PLXNB1_uc003csu.2_Missense_Mutation_p.L1376M|PLXNB1_uc003csx.2_Missense_Mutation_p.L1559M	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1559	Cytoplasmic (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CCGCTGCCCAGGAGGTCACTG	0.587													9	75					1.33987e-11	1.50476e-11	0.008291	1	0		T	48454330	T	T	48454330	3	4	1	1	0	0	0	0	1	0	0	0	12142	991	35	5	1788	5	PLXNB1	3	48454330	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	31072	48454330	149568100	247	247											
CELSR3	1951	broad.mit.edu	37	chr3	48667139	48667139	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccccaggacagagtagTggggcctgtgaaggagagag	10	5	17	9	0	0	3	0	1	0	2	0	6	0	5	4	4	1	1	4	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:48667139T>C	uc003cuf.1	-	50	11750	c.11750A>G	c.(11749-11751)CAC>CGC	p.H3917R	SLC26A6_uc003cug.2_Missense_Mutation_p.H491R|SLC26A6_uc003cuh.2_Missense_Mutation_p.H512R|SLC26A6_uc010hke.2_Missense_Mutation_p.H363R|SLC26A6_uc003cuk.2_Missense_Mutation_p.H405R|SLC26A6_uc003cui.2_Missense_Mutation_p.H512R|SLC26A6_uc003cuj.2_Missense_Mutation_p.H512R|SLC26A6_uc011bbp.1_Missense_Mutation_p.H476R	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	Error:Variant_position_missing_in_Q9NYQ7_after_alignment					homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GACAGAGTAGTGGGGCCTGTG	0.557													9	100					0	0	0.008291	0	0		C	48667139	C	C	48667139	3	2	1	1	0	0	0	0	1	0	0	0	3226	1696	59	3		3	CELSR3	3	48667139	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	212809	48667139	149355291	248	248											
CELSR3	1951	broad.mit.edu	37	chr3	48697746	48697746	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcggtcacgctgaccacActggtgcccacagctgcatc	8	7	10	16	2	1	1	1	1	0	0	2	1	1	1	2	2	4	3	2	2	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:48697746A>G	uc003cul.2	-	1	2603	c.2322T>C	c.(2320-2322)AGT>AGC	p.S774S	CELSR3_uc003cuf.1_Silent_p.S844S	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	774	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CGCTGACCACACTGGTGCCCA	0.562													11	71					0	0	0.010729	0	0		G	48697746	G	G	48697746	2	3	1	1	0	0	0	0	0	0	0	1	3226	156	6	3		3	CELSR3	3	48697746	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	30607	48697746	149324684	249	249											
IP6K2	51447	broad.mit.edu	37	chr3	48726074	48726074	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcttcttgagcacagggcCcaggagttcacggcgcaggt	8	7	14	12	2	2	1	1	1	1	0	2	2	2	2	1	4	2	4	1	4	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:48726074C>A	uc003cup.2	-	6	1157	c.913G>T	c.(913-915)GGC>TGC	p.G305C	NCKIPSD_uc003cum.2_5'Flank|NCKIPSD_uc003cun.2_5'Flank|NCKIPSD_uc010hkh.1_5'Flank|IP6K2_uc003cuq.2_Missense_Mutation_p.G305C	NM_001005909	NP_001005909	Q9UHH9	IP6K2_HUMAN	inositol hexaphosphate kinase 2 isoform a	305					negative regulation of cell growth|phosphatidylinositol phosphorylation|positive regulation of apoptosis|type I interferon-mediated signaling pathway	intermediate filament cytoskeleton|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						AGCACAGGGCCCAGGAGTTCA	0.547													12	91					9.31168e-06	1.00003e-05	0.001855	1	0		A	48726074	A	A	48726074	3	1	1	1	0	0	0	0	1	0	0	0	7805	623	22	5	371	5	IP6K2	3	48726074	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	28328	48726074	149296356	250	250											
PRKAR2A	5576	broad.mit.edu	37	chr3	48820505	48820505	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcctttcaaacatggcatcGagaacttgagaaagctgttc	13	11	8	9	1	1	2	1	1	0	2	4	4	2	2	1	1	3	3	1	1	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:48820505G>A	uc010hki.1	-	5	697	c.456C>T	c.(454-456)CTC>CTT	p.L152L	PRKAR2A_uc003cux.1_Silent_p.L152L|PRKAR2A_uc003cuy.1_Silent_p.L152L	NM_004157	NP_004148	P13861	KAP2_HUMAN	cAMP-dependent protein kinase, regulatory	152	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|membrane fraction	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000176)|Kidney(197;0.00246)|KIRC - Kidney renal clear cell carcinoma(197;0.00261)		ACATGGCATCGAGAACTTGAG	0.393													46	140					0	0	0.00361	0	0		A	48820505	A	A	48820505	2	1	1	1	0	0	0	0	0	0	0	1	12527	1045	37	1		1	PRKAR2A	3	48820505	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	94431	48820505	149201925	251	251											
P4HTM	54681	broad.mit.edu	37	chr3	49044327	49044327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggcctaccgcgatgcgcGcgtggaactctgagggaaga	8	5	16	12	6	1	2	0	1	1	1	1	5	1	4	3	3	3	0	3	3	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:49044327G>A	uc003cvg.2	+	9	1845	c.1496G>A	c.(1495-1497)CGC>CAC	p.R499H	P4HTM_uc003cvh.2_Missense_Mutation_p.R560H|WDR6_uc011bbx.1_5'Flank|WDR6_uc003cvj.2_5'Flank|WDR6_uc011bby.1_5'Flank|WDR6_uc010hkn.2_5'Flank|WDR6_uc011bbz.1_5'Flank	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	499	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	CGCGATGCGCGCGTGGAACTC	0.667													3	17					0	0	0.004672	0	0		A	49044327	A	A	49044327	3	1	1	1	0	0	0	0	1	0	0	0	11379	1087	38	1	1713	1	P4HTM	3	49044327	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	223822	49044327	148978103	252	252											
MST1R	4486	broad.mit.edu	37	chr3	49934714	49934714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcctggtggtacttaccGtgctagcagacactcagtcc	7	10	10	14	1	1	1	1	0	0	1	2	1	2	1	4	2	5	3	4	2	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:49934714G>A	uc003cxy.3	-	7	2446	c.2182C>T	c.(2182-2184)CGG>TGG	p.R728W	MST1R_uc011bdd.1_Missense_Mutation_p.R728W|MST1R_uc011bdc.1_5'Flank	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	728	IPT/TIG 2.|Extracellular (Potential).				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		GGTACTTACCGTGCTAGCAGA	0.597													11	98					0	0	0.001368	0	0		A	49934714	A	A	49934714	3	1	1	1	0	0	0	0	1	0	0	0	9909	1159	40	1	2076	1	MST1R	3	49934714	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	890387	49934714	148087716	253	253											
SEMA3F	6405	broad.mit.edu	37	chr3	50197137	50197137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccacccaggaccacctcccgGccacgccccgggtccggctc	5	3	10	23	4	0	0	0	0	0	0	3	1	2	1	9	4	0	1	9	4	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:50197137G>A	uc003cyj.2	+	2	280	c.82G>A	c.(82-84)GCC>ACC	p.A28T	SEMA3F_uc003cyk.2_Missense_Mutation_p.A28T	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	28					axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		CCACCTCCCGGCCACGCCCCG	0.602													14	85					0	0	0.003163	0	0		A	50197137	A	A	50197137	3	1	1	1	0	0	0	0	1	0	0	0	14054	1203	42	2	84	2	SEMA3F	3	50197137	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	262423	50197137	147825293	254	254											
NAT6	24142	broad.mit.edu	37	chr3	50334195	50334195	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaggtcccttgggaccccTtggggcagcttgggcagtca	5	9	16	11	0	1	0	1	0	0	0	2	2	2	2	3	6	1	3	3	6	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:50334195T>C	uc003czi.2	-	2	803	c.700A>G	c.(700-702)AGG>GGG	p.R234G	HYAL3_uc003czc.1_Intron|HYAL3_uc003czd.1_Intron|HYAL3_uc003cze.1_Intron|HYAL3_uc003czf.1_Intron|HYAL3_uc003czg.1_Intron|NAT6_uc003czj.2_Missense_Mutation_p.R256G|NAT6_uc003czk.3_Missense_Mutation_p.R234G|NAT6_uc003czl.1_Missense_Mutation_p.R234G	NM_012191	NP_036323	Q93015	NAT6_HUMAN	N-acetyltransferase 6	234						cytoplasm	N-acetyltransferase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		TTGGGACCCCTTGGGGCAGCT	0.652													11	77					0	0	0.001368	0	0		C	50334195	C	C	50334195	3	2	1	1	0	0	0	0	1	0	0	0	10196	1608	56	3	164	3	NAT6	3	50334195	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	137058	50334195	147688235	255	255											
CACNA2D2	9254	broad.mit.edu	37	chr3	50403525	50403525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagtcataggactccttgcGggtgtagaaggagttattgt	10	13	13	5	1	1	1	1	0	0	1	2	3	2	3	1	3	1	2	1	3	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:50403525G>A	uc003daq.2	-	33	2838	c.2800C>T	c.(2800-2802)CGC>TGC	p.R934C	CACNA2D2_uc003dap.2_Missense_Mutation_p.R927C|CACNA2D2_uc003dao.2_5'Flank	NM_006030	NP_006021	Q9NY47	CA2D2_HUMAN	calcium channel, voltage-dependent, alpha	934	Extracellular (Potential).				energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000365)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)	Gabapentin(DB00996)	GACTCCTTGCGGGTGTAGAAG	0.577													7	124					0	0	0.00308	0	0		A	50403525	A	A	50403525	3	1	1	1	0	0	0	0	1	0	0	0	2552	1116	39	1	686	1	CACNA2D2	3	50403525	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	69330	50403525	147618905	256	256											
VPRBP	9730	broad.mit.edu	37	chr3	51457723	51457723	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attagcgatacgaggggttcGgggtagagagacaggagaag	13	6	18	4	3	0	3	0	0	0	3	1	7	0	3	0	5	2	2	0	5	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:51457723G>A	uc003dbe.1	-	14	2869	c.2701C>T	c.(2701-2703)CGA>TGA	p.R901*	VPRBP_uc003dbf.1_Nonsense_Mutation_p.R177*	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	901					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		CGAGGGGTTCGGGGTAGAGAG	0.587													13	95					0	0	0.00499	0	0		A	51457723	A	A	51457723	4	1	1	1	0	0	0	0	0	1	0	0	17211	1124	39	1	1866	1	VPRBP	3	51457723	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1054198	51457723	146564707	257	257											
GRM2	2912	broad.mit.edu	37	chr3	51743220	51743220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcactggaccgcatcaaccGtgacccgcacctgctgcctg	7	7	10	17	3	1	1	1	1	0	0	1	2	1	2	5	1	4	4	5	1	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:51743220G>A	uc010hlv.2	+	2	460	c.221G>A	c.(220-222)CGT>CAT	p.R74H	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	74	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	CGCATCAACCGTGACCCGCAC	0.627													6	174					0	0	0.00308	0	0		A	51743220	A	A	51743220	3	1	1	1	0	0	0	0	1	0	0	0	6813	1145	40	1	223	1	GRM2	3	51743220	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	285497	51743220	146279210	258	258											
IQCF2	389123	broad.mit.edu	37	chr3	51897123	51897123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggataattcagtgctggtggCggatgacgctgtcgagggtg	7	10	18	6	3	1	1	1	1	0	0	2	4	1	3	0	5	1	2	0	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:51897123C>T	uc003dbt.1	+	3	270	c.232C>T	c.(232-234)CGG>TGG	p.R78W	IQCF1_uc003dbq.3_Intron|IQCF2_uc003dbu.1_RNA	NM_203424	NP_982248	Q8IXL9	IQCF2_HUMAN	IQ motif containing F2	78											0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GTGCTGGTGGCGGATGACGCT	0.602													13	74					0	0	0.001855	0	0		T	51897123	T	T	51897123	3	4	1	1	0	0	0	0	1	0	0	0	7824	759	27	1	242	1	IQCF2	3	51897123	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	153903	51897123	146125307	259	259											
RRP9	9136	broad.mit.edu	37	chr3	51970287	51970287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcaccgacactgcatcccGgtgtcctgtgaaggtgtaca	8	9	10	14	2	1	1	1	1	0	0	3	2	3	1	4	2	2	2	4	2	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:51970287G>A	uc003dbw.1	-	8	760	c.721C>T	c.(721-723)CGG>TGG	p.R241W		NM_004704	NP_004695	O43818	U3IP2_HUMAN	RNA, U3 small nucleolar interacting protein 2	241	WD 3.				rRNA processing	nucleolus|small nuclear ribonucleoprotein complex|small nucleolar ribonucleoprotein complex	RNA binding			breast(2)|ovary(1)	3				BRCA - Breast invasive adenocarcinoma(193;8.04e-05)|Kidney(197;0.000553)|KIRC - Kidney renal clear cell carcinoma(197;0.000724)		ACTGCATCCCGGTGTCCTGTG	0.557													15	75					0	0	0.003163	0	0		A	51970287	A	A	51970287	3	1	1	1	0	0	0	0	1	0	0	0	13716	1115	39	1	738	1	RRP9	3	51970287	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	73164	51970287	146052143	260	260											
WDR82	80335	broad.mit.edu	37	chr3	52295479	52295479	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtcatccacaggtgacaTggacaaggccaccaccctgc	11	6	10	14	0	1	1	1	1	0	0	2	2	2	2	4	3	1	0	4	3	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:52295479T>C	uc003ddl.2	-	4	625	c.343A>G	c.(343-345)ATG>GTG	p.M115V	WDR82_uc003ddk.2_Missense_Mutation_p.M40V	NM_025222	NP_079498	Q6UXN9	WDR82_HUMAN	WD repeat domain 82	115	WD 2.				histone H3-K4 methylation	chromatin|PTW/PP1 phosphatase complex|Set1C/COMPASS complex	protein binding				0				BRCA - Breast invasive adenocarcinoma(193;2.67e-05)|Kidney(197;0.00198)|KIRC - Kidney renal clear cell carcinoma(197;0.00223)|OV - Ovarian serous cystadenocarcinoma(275;0.246)		ACAGGTGACATGGACAAGGCC	0.443													11	62					0	0	0.008291	0	0		C	52295479	C	C	52295479	3	2	1	1	0	0	0	0	1	0	0	0	17357	1464	51	3	622	3	WDR82	3	52295479	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	325192	52295479	145726951	261	261											
TNNC1	7134	broad.mit.edu	37	chr3	52485532	52485532	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctcatccaggtcgatgtagCcatcagcatttctgtgggga	8	11	12	10	1	3	0	2	0	1	0	5	2	4	1	2	3	2	3	2	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:52485532C>A	uc003deb.2	-	5	355	c.329G>T	c.(328-330)GGC>GTC	p.G110V		NM_003280	NP_003271	P63316	TNNC1_HUMAN	troponin C, slow	110	EF-hand 3.|2.				cardiac muscle contraction|muscle filament sliding|regulation of ATPase activity|regulation of muscle filament sliding speed|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin filament binding|calcium ion binding|calcium-dependent protein binding|protein homodimerization activity|troponin I binding|troponin T binding				0				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00175)|KIRC - Kidney renal clear cell carcinoma(197;0.00198)|OV - Ovarian serous cystadenocarcinoma(275;0.0525)	Bepridil(DB01244)|Dihydroxyaluminium(DB01375)|Levosimendan(DB00922)	GTCGATGTAGCCATCAGCATT	0.607													7	66					2.7689e-08	3.04816e-08	0.001984	1	0		A	52485532	A	A	52485532	3	1	1	1	0	0	0	0	1	0	0	0	16349	739	26	5	164	5	TNNC1	3	52485532	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	190053	52485532	145536898	262	262											
STAB1	23166	broad.mit.edu	37	chr3	52556145	52556145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcacttgtacctgcctgcccGactacgagggtgatggctgg	6	10	13	12	2	1	1	1	1	0	0	1	3	1	1	3	3	4	2	3	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:52556145G>A	uc003dej.2	+	59	6438	c.6364G>A	c.(6364-6366)GAC>AAC	p.D2122N	STAB1_uc003dek.1_Missense_Mutation_p.D137N|STAB1_uc003del.2_Missense_Mutation_p.D9N	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2122	EGF-like 15.|Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CTGCCTGCCCGACTACGAGGG	0.662													7	44					0	0	0.001984	0	0		A	52556145	A	A	52556145	3	1	1	1	0	0	0	0	1	0	0	0	15262	1058	37	1	6598	1	STAB1	3	52556145	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	70613	52556145	145466285	263	263											
GLT8D1	55830	broad.mit.edu	37	chr3	52730292	52730292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgtatatggccttctttgCgctgggaaccagaattggca	9	12	11	9	1	1	1	0	0	1	1	1	2	1	2	2	3	2	3	2	3	4	5	rs140103588		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:52730292C>T	uc003dfi.3	-	6	629	c.490G>A	c.(490-492)GCA>ACA	p.A164T	GLT8D1_uc003dfj.2_Missense_Mutation_p.A164T|GLT8D1_uc003dfk.2_Missense_Mutation_p.A164T|GLT8D1_uc003dfl.2_Missense_Mutation_p.A164T|GLT8D1_uc003dfm.2_Missense_Mutation_p.A164T|GLT8D1_uc003dfn.2_Missense_Mutation_p.A164T|GLT8D1_uc003dfo.1_Missense_Mutation_p.A164T	NM_152932	NP_690909	Q68CQ7	GL8D1_HUMAN	glycosyltransferase 8 domain containing 1	164	Lumenal (Potential).					integral to membrane|mitochondrion	transferase activity, transferring glycosyl groups				0				BRCA - Breast invasive adenocarcinoma(193;6.78e-05)|Kidney(197;0.000618)|KIRC - Kidney renal clear cell carcinoma(197;0.000779)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		GCCTTCTTTGCGCTGGGAACC	0.408													12	82					0	0	0.010729	0	0		T	52730292	T	T	52730292	3	4	1	1	0	0	0	0	1	0	0	0	6484	768	27	1	645	1	GLT8D1	3	52730292	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	174147	52730292	145292138	264	264											
DCP1A	55802	broad.mit.edu	37	chr3	53326499	53326499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctggggggaacctgtgcaGtaggagcttcagctggcaga	9	7	17	8	0	1	1	1	0	0	1	1	3	1	3	1	5	5	6	1	5	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:53326499G>A	uc003dgs.3	-	7	1076	c.983C>T	c.(982-984)ACT>ATT	p.T328I	DCP1A_uc003dgt.3_RNA	NM_018403	NP_060873	Q9NPI6	DCP1A_HUMAN	DCP1 decapping enzyme homolog A	328					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasmic mRNA processing body|cytosol|nucleus	hydrolase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000164)|KIRC - Kidney renal clear cell carcinoma(197;0.00525)|Kidney(197;0.00579)|OV - Ovarian serous cystadenocarcinoma(275;0.0647)		AACCTGTGCAGTAGGAGCTTC	0.557													4	64					0	0	0.000602	0	0		A	53326499	A	A	53326499	3	1	1	1	0	0	0	0	1	0	0	0	4301	1029	36	4	781	4	DCP1A	3	53326499	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	596207	53326499	144695931	265	265											
PTPRG	5793	broad.mit.edu	37	chr3	62254810	62254810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgcctgctacactgttcGtcgtttttcaatcagaaata	11	14	6	10	2	2	1	2	0	0	1	4	1	2	1	1	0	3	3	1	0	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:62254810G>A	uc003dlb.2	+	20	3694	c.2975G>A	c.(2974-2976)CGT>CAT	p.R992H	PTPRG_uc003dlc.2_Missense_Mutation_p.R963H|PTPRG_uc011bfi.1_Missense_Mutation_p.R238H|uc010hno.2_Intron|uc003dld.3_Intron|uc010hnp.2_Intron|uc003dle.3_Intron	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	992	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		TACACTGTTCGTCGTTTTTCA	0.393													22	111					0	0	0.012319	0	0		A	62254810	A	A	62254810	3	1	1	1	0	0	0	0	1	0	0	0	12827	1145	40	1	3053	1	PTPRG	3	62254810	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	8928311	62254810	135767620	266	266											
PRICKLE2	166336	broad.mit.edu	37	chr3	64133333	64133333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcagaaacaggtctcagtgGcatgccagtgttggccatca	11	8	12	10	0	2	1	2	0	1	1	3	1	2	1	2	3	3	3	2	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:64133333G>A	uc003dmf.2	-	7	1419	c.833C>T	c.(832-834)GCC>GTC	p.A278V		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	278	LIM zinc-binding 3.					cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		GGTCTCAGTGGCATGCCAGTG	0.537													11	117					0	0	0.001368	0	0		A	64133333	A	A	64133333	3	1	1	1	0	0	0	0	1	0	0	0	12509	1203	42	2	1709	2	PRICKLE2	3	64133333	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1878523	64133333	133889097	267	267											
ADAMTS9	56999	broad.mit.edu	37	chr3	64527080	64527080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggtcagagtgcatccccGcacagaatatctgaaagacc	12	7	11	11	1	2	4	1	1	1	3	3	4	3	4	3	2	1	2	3	2	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:64527080G>A	uc003dmg.2	-	35	5335	c.5303C>T	c.(5302-5304)GCG>GTG	p.A1768V	ADAMTS9_uc011bfo.1_Missense_Mutation_p.A1740V|ADAMTS9_uc011bfp.1_Missense_Mutation_p.A679V	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1768	GON.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		GTGCATCCCCGCACAGAATAT	0.463													14	157					0	0	0.00245	0	0		A	64527080	A	A	64527080	3	1	1	1	0	0	0	0	1	0	0	0	273	1087	38	1	524	1	ADAMTS9	3	64527080	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	393747	64527080	133495350	268	268											
MAGI1	9223	broad.mit.edu	37	chr3	65349248	65349248	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaagccaaatcccttggcTcctctttccagttccacagt	9	12	5	15	0	1	0	0	0	1	0	5	0	5	0	5	1	1	2	5	1	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:65349248T>C	uc003dmn.2	-	21	3913	c.3387A>G	c.(3385-3387)GGA>GGG	p.G1129G	MAGI1_uc003dmm.2_Silent_p.G1157G|MAGI1_uc003dmo.2_Silent_p.G1158G|MAGI1_uc003dmp.2_Silent_p.G1062G	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	1158	PDZ 6.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		ATCCCTTGGCTCCTCTTTCCA	0.443													19	222					0	0	0.008871	0	0		C	65349248	C	C	65349248	2	2	1	1	0	0	0	0	0	0	0	1	9208	1538	54	3		3	MAGI1	3	65349248	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	822168	65349248	132673182	269	269											
ZBTB11	27107	broad.mit.edu	37	chr3	101390079	101390079	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagatttatgagctttgtActcttctccttcaattaaca	12	16	4	9	0	3	2	1	1	2	1	4	2	3	2	1	0	4	2	1	0	5	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:101390079A>G	uc003dve.3	-	3	903	c.673T>C	c.(673-675)TAC>CAC	p.Y225H	ZBTB11_uc003dvf.2_3'UTR	NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	225	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TGAGCTTTGTACTCTTCTCCT	0.388													22	184					0	0	0.010504	0	0		G	101390079	G	G	101390079	3	3	1	1	0	0	0	0	1	0	0	0	17549	391	14	3	2524	3	ZBTB11	3	101390079	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	36040831	101390079	96632351	270	270											
ALCAM	214	broad.mit.edu	37	chr3	105258914	105258914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aatgcttagggaatggcaacCctcccccagaggaatttttg	11	10	10	10	0	0	1	0	0	0	1	1	3	1	3	3	3	2	2	3	3	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:105258914C>T	uc003dvx.2	+	7	1366	c.826C>T	c.(826-828)CCT>TCT	p.P276S	ALCAM_uc003dvw.1_Missense_Mutation_p.P276S|ALCAM_uc003dvy.2_Missense_Mutation_p.P276S|ALCAM_uc011bhh.1_Missense_Mutation_p.P225S|ALCAM_uc010hpp.2_Intron	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	276	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						GAATGGCAACCCTCCCCCAGA	0.398													30	249					0	0	0.008361	0	0		T	105258914	T	T	105258914	3	4	1	1	0	0	0	0	1	0	0	0	487	623	22	4	852	4	ALCAM	3	105258914	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3868835	105258914	92763516	271	271											
CBLB	868	broad.mit.edu	37	chr3	105400357	105400357	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagatcataatcagagggCgtcctgttgagtgaagaacc	14	8	12	7	1	2	6	2	2	0	4	3	6	3	6	2	1	1	1	2	1	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:105400357C>T	uc003dwc.2	-	16	2716	c.2394G>A	c.(2392-2394)ACG>ACA	p.T798T	CBLB_uc003dwa.2_Intron|CBLB_uc011bhi.1_Intron|CBLB_uc003dwd.1_Silent_p.T798T|CBLB_uc003dwe.1_3'UTR	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	798	Pro-rich.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						AATCAGAGGGCGTCCTGTTGA	0.438			Mis S		AML								8	127					0	0	0.004482	0	0		T	105400357	T	T	105400357	2	4	1	1	0	0	0	0	0	0	0	1	2704	755	27	1		1	CBLB	3	105400357	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	141443	105400357	92622073	272	272											
DZIP3	9666	broad.mit.edu	37	chr3	108373083	108373083	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaaagatgatgcaagtgatGttcaagaggattctgcaatg	15	11	11	4	0	2	4	1	2	1	2	2	5	2	5	0	1	2	3	0	1	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:108373083G>C	uc003dxd.2	+	19	2547	c.2125G>C	c.(2125-2127)GTT>CTT	p.V709L	DZIP3_uc003dxf.1_Missense_Mutation_p.V709L|DZIP3_uc011bhm.1_Missense_Mutation_p.V160L|DZIP3_uc003dxg.1_Missense_Mutation_p.V432L	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	709					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TGCAAGTGATGTTCAAGAGGA	0.423													15	194					0	0	0.00499	0	0		C	108373083	C	C	108373083	3	2	1	1	0	0	0	0	1	0	0	0	4871	1377	48	5	2195	5	DZIP3	3	108373083	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2972726	108373083	89649347	273	273											
WDR52	55779	broad.mit.edu	37	chr3	113099764	113099764	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagaatcttagatttgacActtgaaaaatggaaacattt	17	12	6	6	0	1	4	0	2	1	2	1	5	1	5	1	1	1	0	1	1	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:113099764A>G	uc003eae.1	-	16	2080	c.2034T>C	c.(2032-2034)AGT>AGC	p.S678S		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	678										central_nervous_system(1)	1						TAGATTTGACACTTGAAAAAT	0.289													13	180					0	0	0.00245	0	0		G	113099764	G	G	113099764	2	3	1	1	0	0	0	0	0	0	0	1	17330	156	6	3		3	WDR52	3	113099764	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	4726681	113099764	84922666	274	274											
TMEM39A	55254	broad.mit.edu	37	chr3	119165887	119165887	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagccaaggaaaaggagatTgaggactgaatggcttcgaa	15	7	14	5	1	0	3	0	2	0	1	1	7	0	5	1	4	1	2	1	4	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:119165887T>C	uc003eck.1	-	5	916	c.553A>G	c.(553-555)AAT>GAT	p.N185D	TMEM39A_uc003ecl.1_Missense_Mutation_p.N33D	NM_018266	NP_060736	Q9NV64	TM39A_HUMAN	transmembrane protein 39A	185	Helical; (Potential).					integral to membrane				ovary(1)|breast(1)	2				GBM - Glioblastoma multiforme(114;0.244)		AAAAGGAGATTGAGGACTGAA	0.408													7	61					0	0	0.00308	0	0		C	119165887	C	C	119165887	3	2	1	1	0	0	0	0	1	0	0	0	16186	1812	63	3	933	3	TMEM39A	3	119165887	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	6066123	119165887	78856543	275	275											
STXBP5L	9515	broad.mit.edu	37	chr3	120957878	120957878	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcaccagttacatgcacAgcatactttgcagattgtcc	12	11	7	11	0	1	1	1	0	0	1	2	2	2	1	2	0	5	4	2	0	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:120957878A>G	uc003eec.3	+	13	1385	c.1245A>G	c.(1243-1245)ACA>ACG	p.T415T	STXBP5L_uc011bji.1_Silent_p.T415T	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	415	WD 8.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		TTACATGCACAGCATACTTTG	0.323													9	98					0	0	0.004482	0	0		G	120957878	G	G	120957878	2	3	1	1	0	0	0	0	0	0	0	1	15382	175	7	3		3	STXBP5L	3	120957878	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1791991	120957878	77064552	276	276											
POLQ	10721	broad.mit.edu	37	chr3	121248490	121248490	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctttccatccataactcAccctcagcttgatgatgtag	9	14	5	13	0	2	2	2	2	0	0	5	2	5	2	4	0	2	2	4	0	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:121248490A>G	uc003eee.3	-	7	1237	c.1108_splice	c.e7+1	p.G370_splice		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta						DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TCCATAACTCACCCTCAGCTT	0.358								DNA_polymerases_(catalytic_subunits)					28	254					0	0	0.008361	0	0		G	121248490	G	G	121248490	5	3	1	1	0	0	0	0	0	0	1	0	12227	173	6	3	6758	3	POLQ	3	121248490	Splice_Site	SNP	A	TCGA-B7-5816-01A-21D-1600-08	290612	121248490	76773940	277	277											
PARP14	54625	broad.mit.edu	37	chr3	122437467	122437467	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattaacatttccctggaccAtaagagacctttgattaagg	13	13	7	8	0	0	2	0	1	0	1	1	4	1	3	3	2	1	0	3	2	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:122437467A>G	uc003efq.3	+	14	4528	c.4469A>G	c.(4468-4470)CAT>CGT	p.H1490R	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Missense_Mutation_p.H1207R|PARP14_uc003efs.1_Missense_Mutation_p.H1207R	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	1490					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		TCCCTGGACCATAAGAGACCT	0.398													34	301					0	0	0.003271	0	0		G	122437467	G	G	122437467	3	3	1	1	0	0	0	0	1	0	0	0	11477	217	8	3	4523	3	PARP14	3	122437467	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1188977	122437467	75584963	278	278											
RUVBL1	8607	broad.mit.edu	37	chr3	127801405	127801405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattccttccgtctgggcacGgattttaatgatcttttaaa	9	16	8	8	2	2	1	0	1	2	0	4	3	4	2	2	2	0	1	2	2	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:127801405G>A	uc003ekh.2	-	10	1236	c.1132C>T	c.(1132-1134)CGT>TGT	p.R378C	RUVBL1_uc003eke.2_Intron|RUVBL1_uc003ekf.2_Intron|RUVBL1_uc010hss.2_Intron	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1	378					cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		GTCTGGGCACGGATTTTAATG	0.473													9	61					0	0	0.004482	0	0		A	127801405	A	A	127801405	3	1	1	1	0	0	0	0	1	0	0	0	13777	1116	39	1	246	1	RUVBL1	3	127801405	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5363938	127801405	70221025	279	279											
IFT122	55764	broad.mit.edu	37	chr3	129185901	129185901	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggacgacagtcccagggaCgacaacttgtgagtgtgtcc	10	7	14	10	2	0	1	0	1	0	0	2	6	2	3	2	2	1	0	2	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:129185901C>T	uc003emm.2	+	8	938	c.732C>T	c.(730-732)GAC>GAT	p.D244D	IFT122_uc003eml.2_Silent_p.D295D|IFT122_uc003emn.2_Intron|IFT122_uc003emo.2_Intron|IFT122_uc003emp.2_Silent_p.D94D|IFT122_uc010htc.2_Intron|IFT122_uc011bky.1_Intron|IFT122_uc003emq.2_Intron|IFT122_uc003emr.2_Intron|IFT122_uc011bla.1_Intron|IFT122_uc011bkx.1_Intron|IFT122_uc011bkz.1_Intron	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	244					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						GTCCCAGGGACGACAACTTGT	0.542													8	79					0	0	0.006214	0	0		T	129185901	T	T	129185901	2	4	1	1	0	0	0	0	0	0	0	1	7571	535	19	1		1	IFT122	3	129185901	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1384496	129185901	68836529	280	280											
ATP2C1	27032	broad.mit.edu	37	chr3	130716593	130716593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactttgtttgtcttctggcGtgaggtatattcactggcca	6	16	11	8	1	3	1	1	1	2	0	3	2	3	1	1	3	0	2	1	3	2	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:130716593G>A	uc003enl.2	+	25	2609	c.2387G>A	c.(2386-2388)CGT>CAT	p.R796H	ATP2C1_uc011blg.1_Missense_Mutation_p.R830H|ATP2C1_uc011blh.1_Missense_Mutation_p.R791H|ATP2C1_uc011bli.1_Missense_Mutation_p.R830H|ATP2C1_uc003enk.2_Missense_Mutation_p.R780H|ATP2C1_uc003enm.2_Missense_Mutation_p.R796H|ATP2C1_uc003enn.2_Missense_Mutation_p.R780H|ATP2C1_uc003eno.2_Missense_Mutation_p.R796H|ATP2C1_uc003enp.2_Missense_Mutation_p.R796H|ATP2C1_uc003enq.2_Missense_Mutation_p.R796H|ATP2C1_uc003enr.2_Missense_Mutation_p.R796H|ATP2C1_uc003ens.2_Missense_Mutation_p.R796H|ATP2C1_uc003ent.2_Missense_Mutation_p.R796H|ATP2C1_uc003enu.2_Missense_Mutation_p.R474H	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	796	Lumenal (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	GTCTTCTGGCGTGAGGTATAT	0.368									Hailey-Hailey_disease				28	202					0	0	0.012213	0	0		A	130716593	A	A	130716593	3	1	1	1	0	0	0	0	1	0	0	0	1144	1145	40	1	2481	1	ATP2C1	3	130716593	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1530692	130716593	67305837	281	281											
RAB6B	51560	broad.mit.edu	37	chr3	133560152	133560152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtcgtacaccaccacaGccaccgtggagtcccggatg	9	7	11	14	3	0	1	0	1	0	0	2	3	1	3	5	2	2	1	5	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:133560152G>A	uc003epy.2	-	4	647	c.266C>T	c.(265-267)GCT>GTT	p.A89V	RAB6B_uc011blu.1_Missense_Mutation_p.A76V	NM_016577	NP_057661	Q9NRW1	RAB6B_HUMAN	RAB6B, member RAS oncogene family	89					protein transport|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|Golgi membrane	GTP binding|GTPase activity|protein binding			pancreas(1)	1						CACCACCACAGCCACCGTGGA	0.637													9	100					0	0	0.006214	0	0		A	133560152	A	A	133560152	3	1	1	1	0	0	0	0	1	0	0	0	12977	971	34	2	380	2	RAB6B	3	133560152	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2843559	133560152	64462278	282	282											
EPHB1	2047	broad.mit.edu	37	chr3	134825395	134825395	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctcccatctgcacctgtcGgaccggttattaccgagcgg	6	10	11	14	4	2	0	0	0	2	0	4	2	2	1	4	3	3	2	4	3	2	2	rs143323362	by1000genomes	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:134825395G>T	uc003eqt.2	+	4	1131	c.911G>T	c.(910-912)CGG>CTG	p.R304L	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_Nonsense_Mutation_p.G193*|EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	304	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						TGCACCTGTCGGACCGGTTAT	0.592													9	55					3.09899e-07	3.38034e-07	0.004482	1	0		T	134825395	T	T	134825395	3	4	1	1	0	0	0	0	1	0	0	0	5182	1116	39	5	925	5	EPHB1	3	134825395	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1265243	134825395	63197035	283	283											
PPP2R3A	5523	broad.mit.edu	37	chr3	135745935	135745935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttatgaaatggggaaaattGcaaaggtaatgtaactacta	17	12	9	3	0	0	1	0	1	0	0	0	2	0	2	0	3	3	3	0	3	9	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:135745935G>A	uc003eqv.1	+	3	2822	c.2257G>A	c.(2257-2259)GCA>ACA	p.A753T	PPP2R3A_uc011blz.1_Missense_Mutation_p.A17T|PPP2R3A_uc003eqw.1_Missense_Mutation_p.A132T|PPP2R3A_uc011bma.1_RNA	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	753					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						GGGGAAAATTGCAAAGGTAAT	0.398													10	49					0	0	0.006214	0	0		A	135745935	A	A	135745935	3	1	1	1	0	0	0	0	1	0	0	0	12410	1319	46	2	2399	2	PPP2R3A	3	135745935	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	920540	135745935	62276495	284	284											
PCCB	5096	broad.mit.edu	37	chr3	136002741	136002741	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatgggcccatgtgctggTggggccgtctactccccagc	5	9	13	14	1	2	0	1	0	1	0	3	0	3	0	4	4	3	1	4	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:136002741T>C	uc003eqy.1	+	6	657	c.606T>C	c.(604-606)GGT>GGC	p.G202G	PCCB_uc003eqz.1_Silent_p.G202G|PCCB_uc011bmc.1_Silent_p.G222G|PCCB_uc011bmd.1_Silent_p.G119G	NM_000532	NP_000523	P05166	PCCB_HUMAN	propionyl Coenzyme A carboxylase, beta	202	Carboxyltransferase.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|propionyl-CoA carboxylase activity				0					Biotin(DB00121)|L-Valine(DB00161)	CATGTGCTGGTGGGGCCGTCT	0.493													8	83					0	0	0.006214	0	0		C	136002741	C	C	136002741	2	2	1	1	0	0	0	0	0	0	0	1	11524	1683	59	3		3	PCCB	3	136002741	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	256806	136002741	62019689	285	285											
NMNAT3	349565	broad.mit.edu	37	chr3	139279978	139279978	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtactttacgctctgcccTtggcccaaggctcgcctgat	6	11	10	14	2	1	1	0	1	1	0	2	1	1	1	3	3	3	3	3	3	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:139279978T>C	uc003etj.2	-	4	673	c.633A>G	c.(631-633)CAA>CAG	p.Q211Q	NMNAT3_uc003etk.2_Silent_p.Q174Q|NMNAT3_uc003etl.2_RNA|NMNAT3_uc010hul.2_Silent_p.Q122Q	NM_178177	NP_835471	Q96T66	NMNA3_HUMAN	nicotinamide mononucleotide adenylyltransferase	211					water-soluble vitamin metabolic process	cytosol|mitochondrion	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity				0						CGCTCTGCCCTTGGCCCAAGG	0.542													15	272					0	0	0.004007	0	0		C	139279978	C	C	139279978	2	2	1	1	0	0	0	0	0	0	0	1	10519	1606	56	3		3	NMNAT3	3	139279978	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3277237	139279978	58742452	286	286											
ZBTB38	253461	broad.mit.edu	37	chr3	141162737	141162737	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttgcattggctgagtacAggacaaggcatgaaatttgg	12	12	12	5	0	0	2	0	2	0	0	0	3	0	3	0	4	2	4	0	4	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:141162737A>G	uc003etw.2	+	8	2489	c.1507A>G	c.(1507-1509)AGG>GGG	p.R503G	ZBTB38_uc010hun.2_Missense_Mutation_p.R500G|ZBTB38_uc010huo.2_Missense_Mutation_p.R503G|ZBTB38_uc003ety.2_Missense_Mutation_p.R503G|ZBTB38_uc010hup.2_Missense_Mutation_p.R504G	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	503	C2H2-type 4.				positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						GGCTGAGTACAGGACAAGGCA	0.398													45	199					0	0	0.013114	0	0		G	141162737	G	G	141162737	3	3	1	1	0	0	0	0	1	0	0	0	17564	179	7	3	1509	3	ZBTB38	3	141162737	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1882759	141162737	56859693	287	287											
ATP1B3	483	broad.mit.edu	37	chr3	141626115	141626115	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccttaagaagtttctaaaAcgtgagtatgttttcttaga	13	15	8	5	1	2	3	0	1	2	2	2	4	2	3	1	0	1	3	1	0	6	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:141626115A>G	uc003eug.1	+	3	519	c.345A>G	c.(343-345)AAA>AAG	p.K115K	ATP1B3_uc011bne.1_RNA|ATP1B3_uc003euh.1_Silent_p.K101K	NM_001679	NP_001670	P54709	AT1B3_HUMAN	Na+/K+ -ATPase beta 3 subunit	115	Extracellular (Potential).				ATP biosynthetic process|blood coagulation|leukocyte migration	melanosome|sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity				0						AGTTTCTAAAACGTGAGTATG	0.294													17	140					0	0	0.004007	0	0		G	141626115	G	G	141626115	2	3	1	1	0	0	0	0	0	0	0	1	1135	57	2	3		3	ATP1B3	3	141626115	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	463378	141626115	56396315	288	288											
MED12L	116931	broad.mit.edu	37	chr3	151101884	151101884	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttagtgaattattcacaAcagttcttgacatgctgggt	10	16	8	7	0	3	2	1	2	2	0	3	2	3	2	0	1	2	2	0	1	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:151101884A>G	uc003eyp.2	+	33	4737	c.4699A>G	c.(4699-4701)ACA>GCA	p.T1567A	MED12L_uc011bnz.1_Missense_Mutation_p.T1427A|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.T730A	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1567					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ATTATTCACAACAGTTCTTGA	0.343													7	121					0	0	0.001984	0	0		G	151101884	G	G	151101884	3	3	1	1	0	0	0	0	1	0	0	0	9447	43	2	3	4829	3	MED12L	3	151101884	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	9475769	151101884	46920546	289	289											
IGSF10	285313	broad.mit.edu	37	chr3	151163001	151163001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agccaacatgcttacttctgGctttttgcctttttcagcaa	8	16	6	11	0	2	0	1	0	1	0	2	0	2	0	2	1	6	3	2	1	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:151163001G>A	uc011bod.1	-	4	4768	c.4768C>T	c.(4768-4770)CCA>TCA	p.P1590S		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1590					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTTACTTCTGGCTTTTTGCCT	0.413													18	327					0	0	0.007413	0	0		A	151163001	A	A	151163001	3	1	1	1	0	0	0	0	1	0	0	0	7613	1203	42	2	3163	2	IGSF10	3	151163001	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	61117	151163001	46859429	290	290											
P2RY1	5028	broad.mit.edu	37	chr3	152554485	152554485	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgacagggtttatgccaCgtatcaggtgacaagaggtc	12	9	12	8	1	1	3	1	2	0	1	2	3	1	3	1	3	1	2	1	3	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:152554485C>G	uc003ezq.2	+	1	1750	c.914C>G	c.(913-915)ACG>AGG	p.T305R		NM_002563	NP_002554	P47900	P2RY1_HUMAN	purinergic receptor P2Y1	305	Helical; Name=7; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			GTTTATGCCACGTATCAGGTG	0.483													13	248					0	0	0.001855	0	0		G	152554485	G	G	152554485	3	3	1	1	0	0	0	0	1	0	0	0	11365	536	19	5	916	5	P2RY1	3	152554485	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1391484	152554485	45467945	291	291											
SMC4	10051	broad.mit.edu	37	chr3	160122248	160122248	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgttggaaatcttcttcgaAgccatggaattgacttggac	11	13	10	7	1	2	1	0	1	2	0	3	5	2	4	1	3	1	1	1	3	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:160122248A>G	uc003fdh.2	+	5	756	c.643A>G	c.(643-645)AGC>GGC	p.S215G	IFT80_uc003fda.2_Intron|SMC4_uc003fdf.1_RNA|SMC4_uc003fdg.1_Missense_Mutation_p.S215G|SMC4_uc010hwc.1_Intron|SMC4_uc003fdi.2_Missense_Mutation_p.S190G|SMC4_uc003fdj.2_Missense_Mutation_p.S215G|SMC4_uc010hwd.2_Missense_Mutation_p.S215G|uc011boz.1_5'Flank|MIR15B_hsa-mir-15b|MI0000438_5'Flank|uc003fdk.2_5'Flank|MIR16-2_hsa-mir-16-2|MI0000115_5'Flank	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	215					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TCTTCTTCGAAGCCATGGAAT	0.303													9	186					0	0	0.008291	0	0		G	160122248	G	G	160122248	3	3	1	1	0	0	0	0	1	0	0	0	14810	72	3	3	657	3	SMC4	3	160122248	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	7567763	160122248	37900182	292	292											
C3orf57	165679	broad.mit.edu	37	chr3	161064099	161064099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaatattccttcacacGcctcaaatccatggttggct	11	11	8	11	1	2	1	2	0	0	1	4	2	4	1	3	3	0	2	3	3	3	4	rs144350794		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:161064099G>A	uc003fee.2	-	3	787	c.13C>T	c.(13-15)CGT>TGT	p.R5C		NM_001040100	NP_001035189	Q8NFR3	SSPTB_HUMAN	ADMP	5	Cytoplasmic (Potential).				sphingolipid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	protein binding				0			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			TCCTTCACACGCCTCAAATCC	0.408													7	156					0	0	0.00308	0	0		A	161064099	A	A	161064099	3	1	1	1	0	0	0	0	1	0	0	0	2238	1087	38	1	221	1	C3orf57	3	161064099	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	941851	161064099	36958331	293	293											
ZBBX	79740	broad.mit.edu	37	chr3	167086318	167086318	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctccatctcttggttcTcaaactctaactgtactttc	7	18	3	13	0	5	0	1	0	5	0	9	0	5	0	1	1	3	2	1	1	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:167086318T>G	uc003fep.2	-	5	436	c.113A>C	c.(112-114)GAG>GCG	p.E38A	ZBBX_uc011bpc.1_Missense_Mutation_p.E38A|ZBBX_uc003feq.2_Missense_Mutation_p.E9A	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	38	Potential.					intracellular	zinc ion binding			ovary(2)	2						CTCTTGGTTCTCAAACTCTAA	0.358													10	198					0	0	0.001368	0	0		G	167086318	G	G	167086318	3	3	1	1	0	0	0	0	1	0	0	0	17542	1551	54	5	2357	5	ZBBX	3	167086318	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	6022219	167086318	30936112	294	294											
GOLIM4	27333	broad.mit.edu	37	chr3	167742312	167742312	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgggattcaatccttactAcctcctcttctgcctcttcc	5	16	4	16	0	5	0	1	0	4	0	8	1	8	1	5	1	3	0	5	1	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:167742312A>G	uc003ffe.2	-	14	2204	c.1860_splice	c.e14+1	p.E620_splice	GOLIM4_uc011bpe.1_Splice_Site_p.E621_splice|GOLIM4_uc011bpf.1_Splice_Site_p.E593_splice|GOLIM4_uc011bpg.1_Splice_Site_p.E592_splice	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4						transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						AATCCTTACTACCTCCTCTTC	0.453													8	199					0	0	0.00308	0	0		G	167742312	G	G	167742312	5	3	1	1	0	0	0	0	0	0	1	0	6581	405	14	3	240	3	GOLIM4	3	167742312	Splice_Site	SNP	A	TCGA-B7-5816-01A-21D-1600-08	655994	167742312	30280118	295	295											
SAMD7	344658	broad.mit.edu	37	chr3	169644902	169644902	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggaaagaggaggcttcggaGcagatttttgcaacctgtga	11	9	15	6	1	0	3	0	1	0	2	1	6	0	6	1	4	3	3	1	4	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:169644902G>T	uc003fgd.2	+	6	1119	c.852G>T	c.(850-852)GAG>GAT	p.E284D	SAMD7_uc003fge.2_Missense_Mutation_p.E284D|SAMD7_uc011bpo.1_Missense_Mutation_p.E185D	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	284										skin(1)	1	all_cancers(22;1.55e-22)|all_epithelial(15;2.41e-27)|all_lung(20;3.52e-17)|Lung NSC(18;1.44e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0106)			AGGCTTCGGAGCAGATTTTTG	0.567													6	158					3.59834e-05	3.83241e-05	0.001168	1	0		T	169644902	T	T	169644902	3	4	1	1	0	0	0	0	1	0	0	0	13849	962	34	5	866	5	SAMD7	3	169644902	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1902590	169644902	28377528	296	296											
PLD1	5337	broad.mit.edu	37	chr3	171379864	171379864	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttacttcgatatagatatAgtgcctgctgttctctatca	10	16	6	9	1	2	1	1	0	1	1	4	2	2	1	1	0	3	2	1	0	6	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:171379864A>G	uc003fhs.2	-	20	2442	c.2326T>C	c.(2326-2328)TAT>CAT	p.Y776H	PLD1_uc003fht.2_Missense_Mutation_p.Y738H|PLD1_uc003fhu.3_Missense_Mutation_p.Y70H|PLD1_uc003fhv.1_Missense_Mutation_p.Y101H	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	776	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	ATATAGATATAGTGCCTGCTG	0.458													9	104					0	0	0.008291	0	0		G	171379864	G	G	171379864	3	3	1	1	0	0	0	0	1	0	0	0	12064	420	15	3	930	3	PLD1	3	171379864	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1734962	171379864	26642566	297	297											
PLD1	5337	broad.mit.edu	37	chr3	171406484	171406484	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggagggaacccagagaCggtcctgaagtgacccgctt	10	6	14	11	2	0	3	0	2	0	1	1	6	1	5	3	3	1	1	3	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:171406484C>T	uc003fhs.2	-	14	1637	c.1521G>A	c.(1519-1521)CCG>CCA	p.P507P	PLD1_uc003fht.2_Silent_p.P507P	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	507	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	AACCCAGAGACGGTCCTGAAG	0.453													10	152					0	0	0.010729	0	0		T	171406484	T	T	171406484	2	4	1	1	0	0	0	0	0	0	0	1	12064	523	19	1		1	PLD1	3	171406484	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	26620	171406484	26615946	298	298											
ECT2	1894	broad.mit.edu	37	chr3	172523602	172523602	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccagcttctcttaagcatAttcacctaatgcctctttct	8	15	3	15	0	4	0	1	0	3	0	5	0	4	0	4	0	3	2	4	0	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:172523602A>C	uc003fii.2	+	20	2233	c.2095A>C	c.(2095-2097)ATT>CTT	p.I699L	ECT2_uc010hwv.1_Missense_Mutation_p.I730L|ECT2_uc003fih.2_Missense_Mutation_p.I698L|ECT2_uc003fij.1_Missense_Mutation_p.I699L|ECT2_uc003fik.1_Missense_Mutation_p.I699L|ECT2_uc003fil.1_Missense_Mutation_p.I730L|ECT2_uc003fim.1_5'UTR	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	699	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			TCTTAAGCATATTCACCTAAT	0.388													17	157					0	0	0.004007	0	0		C	172523602	C	C	172523602	3	2	1	1	0	0	0	0	1	0	0	0	4907	449	16	5	2169	5	ECT2	3	172523602	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1117118	172523602	25498828	299	299											
SPATA16	83893	broad.mit.edu	37	chr3	172634270	172634270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgaggatgcaggaaaactcCcctagtctcaaagtaaaaga	16	7	9	9	0	1	2	1	1	1	1	3	4	2	4	2	2	2	2	2	2	6	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:172634270C>T	uc003fin.3	-	9	1498	c.1340G>A	c.(1339-1341)GGG>GAG	p.G447E		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	447					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			AGGAAAACTCCCCTAGTCTCA	0.458													24	415					0	0	0.002299	0	0		T	172634270	T	T	172634270	3	4	1	1	0	0	0	0	1	0	0	0	15026	637	22	4	381	4	SPATA16	3	172634270	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	110668	172634270	25388160	300	300											
NLGN1	22871	broad.mit.edu	37	chr3	173322455	173322455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggcatgcttggtacacCggggattgggtgccccattg	6	11	15	9	1	0	1	0	1	0	0	0	2	0	2	3	5	3	3	3	5	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:173322455C>T	uc003fio.1	+	3	490	c.67C>T	c.(67-69)CGG>TGG	p.R23W	NLGN1_uc010hww.1_Missense_Mutation_p.R23W|NLGN1_uc003fip.1_Missense_Mutation_p.R23W	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	23					calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			CTTGGTACACCGGGGATTGGG	0.507													49	284					0	0	0.00361	0	0		T	173322455	T	T	173322455	3	4	1	1	0	0	0	0	1	0	0	0	10480	643	23	1	69	1	NLGN1	3	173322455	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	688185	173322455	24699975	301	301											
PIK3CA	5290	broad.mit.edu	37	chr3	178916726	178916726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgactttagaatgcctccGtgaggctacattaataacca	13	11	8	9	1	0	3	0	2	0	1	1	3	1	3	3	1	3	1	3	1	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:178916726G>A	uc003fjk.2	+	2	270	c.113G>A	c.(112-114)CGT>CAT	p.R38H		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	38	PI3K-ABD.		R -> H (in cancer; shows an increase in lipid kinase activity; may disrupt the interaction between the PI3K-ABD domain and the N-terminal lobe of PI3K/PI4K kinase domain possibly affecting the conformation of the kinase domain).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.R38H(4)|p.R38S(1)|p.R38G(1)|p.R38C(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GAATGCCTCCGTGAGGCTACA	0.393		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			26	218					0	0	0.003954	0	0		A	178916726	A	A	178916726	3	1	1	1	0	0	0	0	1	0	0	0	11932	1145	40	1	115	1	PIK3CA	3	178916726	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5594271	178916726	19105704	302	302											
NDUFB5	4711	broad.mit.edu	37	chr3	179341807	179341807	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaacttattgatcattctccGaaagcaactcctgacaatta	14	12	5	10	1	2	2	1	2	1	0	4	4	3	2	2	0	3	1	2	0	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:179341807G>A	uc003fkc.2	+	6	578	c.549G>A	c.(547-549)CCG>CCA	p.P183P	NDUFB5_uc003fkd.2_RNA|NDUFB5_uc003fke.2_Silent_p.P131P	NM_002492	NP_002483	O43674	NDUB5_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	183					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			skin(1)	1	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)		NADH(DB00157)	ATCATTCTCCGAAAGCAACTC	0.338													16	213					0	0	0.003163	0	0		A	179341807	A	A	179341807	2	1	1	1	0	0	0	0	0	0	0	1	10303	1045	37	1		1	NDUFB5	3	179341807	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	425081	179341807	18680623	303	303											
CCDC39	339829	broad.mit.edu	37	chr3	180349276	180349276	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttattacataataggccTgtgttttctcctcttctcct	6	19	4	12	0	3	0	0	0	3	0	5	0	3	0	4	1	1	1	4	1	4	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:180349276T>C	uc010hxe.2	-	14	2094	c.1979A>G	c.(1978-1980)CAG>CGG	p.Q660R	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	660					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			ATAATAGGCCTGTGTTTTCTC	0.338													8	177					0	0	0.010729	0	0		C	180349276	C	C	180349276	3	2	1	1	0	0	0	0	1	0	0	0	2814	1580	55	3	874	3	CCDC39	3	180349276	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1007469	180349276	17673154	304	304											
MCF2L2	23101	broad.mit.edu	37	chr3	182933788	182933788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgctgctaggtccacaGccaactcacaggacttgatc	10	9	8	14	0	2	1	2	1	0	0	4	2	3	2	2	2	4	2	2	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:182933788G>A	uc003fli.1	-	22	2555	c.2465C>T	c.(2464-2466)GCT>GTT	p.A822V		NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	822	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TAGGTCCACAGCCAACTCACA	0.458													20	240					0	0	0.008871	0	0		A	182933788	A	A	182933788	3	1	1	1	0	0	0	0	1	0	0	0	9398	971	34	2	915	2	MCF2L2	3	182933788	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2584512	182933788	15088642	305	305											
KLHL6	89857	broad.mit.edu	37	chr3	183226231	183226231	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccagcctcagtattccAacgcagttttctgggttcaa	9	12	8	12	1	4	0	3	0	1	0	5	0	5	0	3	1	3	4	3	1	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:183226231A>G	uc003flr.2	-	3	583	c.525T>C	c.(523-525)GTT>GTC	p.V175V	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_Silent_p.V173V	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	175	BACK.									haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			TCAGTATTCCAACGCAGTTTT	0.433													10	187					0	0	0.003163	0	0		G	183226231	G	G	183226231	2	3	1	1	0	0	0	0	0	0	0	1	8409	117	5	3		3	KLHL6	3	183226231	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	292443	183226231	14796199	306	306											
YEATS2	55689	broad.mit.edu	37	chr3	183446626	183446626	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagctataaaccaaatgacCttgtggaagttaggtaagca	15	10	9	7	0	0	1	0	1	0	0	0	2	0	2	2	2	3	4	2	2	8	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:183446626C>A	uc003fly.2	+	7	994	c.799C>A	c.(799-801)CTT>ATT	p.L267I		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	267	YEATS.				histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			ACCAAATGACCTTGTGGAAGT	0.378													23	218					4.26978e-12	4.80818e-12	0.00333	1	0		A	183446626	A	A	183446626	3	1	1	1	0	0	0	0	1	0	0	0	17498	681	24	5	821	5	YEATS2	3	183446626	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	220395	183446626	14575804	307	307											
DVL3	1857	broad.mit.edu	37	chr3	183881466	183881466	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgaaggaggagatctcGgatgacaatgccaagctacc	12	7	14	8	1	1	3	0	2	1	1	2	6	1	5	2	4	3	1	2	4	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:183881466G>A	uc003fms.2	+	2	323	c.183G>A	c.(181-183)TCG>TCA	p.S61S	DVL3_uc011bqw.1_Silent_p.S61S|DVL3_uc003fmt.2_5'UTR|DVL3_uc003fmu.2_5'Flank	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	61	DIX.				canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			AGGAGATCTCGGATGACAATG	0.567													7	181					0	0	0.001984	0	0		A	183881466	A	A	183881466	2	1	1	1	0	0	0	0	0	0	0	1	4843	1103	39	1		1	DVL3	3	183881466	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	434840	183881466	14140964	308	308											
PSMD2	5708	broad.mit.edu	37	chr3	184024258	184024258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agacaaggacaagaaggaagCccctgctgacatgggagcac	15	3	13	10	0	0	3	0	1	0	2	0	6	0	6	2	3	3	2	2	3	4	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:184024258C>T	uc003fnn.1	+	15	1958	c.1925C>T	c.(1924-1926)GCC>GTC	p.A642V	PSMD2_uc011brj.1_Missense_Mutation_p.A483V|PSMD2_uc011brk.1_Missense_Mutation_p.A512V	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	642					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	aagaaggaagCCCCTGCTGAC	0.378													10	126					0	0	0.006214	0	0		T	184024258	T	T	184024258	3	4	1	1	0	0	0	0	1	0	0	0	12720	739	26	2	1983	2	PSMD2	3	184024258	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	142792	184024258	13998172	309	309											
EIF4G1	1981	broad.mit.edu	37	chr3	184044344	184044344	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgattctaacaaccagctCtttgcacctggagggcgact	10	10	9	12	2	2	0	0	0	2	0	3	3	2	1	2	2	4	2	2	2	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:184044344C>A	uc003fnp.2	+	22	3450	c.3252C>A	c.(3250-3252)CTC>CTA	p.L1084L	EIF4G1_uc003fnt.2_Silent_p.L795L|EIF4G1_uc003fnq.2_Silent_p.L997L|EIF4G1_uc003fnr.2_Silent_p.L920L|EIF4G1_uc010hxx.2_Silent_p.L1091L|EIF4G1_uc003fns.2_Silent_p.L1044L|EIF4G1_uc010hxy.2_Silent_p.L1091L|EIF4G1_uc003fnv.3_Silent_p.L1085L|EIF4G1_uc003fnu.3_Silent_p.L1084L|EIF4G1_uc003fnw.2_Silent_p.L1091L|EIF4G1_uc003fnx.2_Silent_p.L889L|EIF4G1_uc003fny.3_Silent_p.L888L|EIF4G1_uc003foa.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1084	eIF3/EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ACAACCAGCTCTTTGCACCTG	0.592													17	145					0.000422831	0.000441606	0.004007	1	0		A	184044344	A	A	184044344	2	1	1	1	0	0	0	0	0	0	0	1	5044	900	32	5		5	EIF4G1	3	184044344	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	20086	184044344	13978086	310	310											
C3orf70	285382	broad.mit.edu	37	chr3	184870603	184870603	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgacgccggcgaggccgcCgcactcatttcctctccctc	4	8	9	20	6	2	0	1	0	1	0	6	2	4	0	6	2	0	1	6	2	0	1	rs150259905	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:184870603C>T	uc003fpd.2	-	1	200	c.9G>A	c.(7-9)GCG>GCA	p.A3A		NM_001025266	NP_001020437	A6NLC5	CC070_HUMAN	hypothetical protein LOC285382	3											0						GCGAGGCCGCCGCACTCATTT	0.721													3	10					0	0	0.004672	0	0		T	184870603	T	T	184870603	2	4	1	1	0	0	0	0	0	0	0	1	2245	639	23	1		1	C3orf70	3	184870603	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	826259	184870603	13151827	311	311											
IGF2BP2	10644	broad.mit.edu	37	chr3	185407235	185407235	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggggaccaggatccgcagCgggaaatcaatctgtctggc	9	7	15	10	2	3	0	1	0	2	0	4	3	4	3	2	5	1	1	2	5	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:185407235C>T	uc003fpo.2	-	6	664	c.585G>A	c.(583-585)CCG>CCA	p.P195P	IGF2BP2_uc010hyi.2_Silent_p.P138P|IGF2BP2_uc010hyj.2_Silent_p.P132P|IGF2BP2_uc010hyk.2_Silent_p.P59P|IGF2BP2_uc010hyl.2_Silent_p.P132P|IGF2BP2_uc003fpp.2_Silent_p.P195P|IGF2BP2_uc003fpq.2_Silent_p.P200P	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	195	KH 1.				anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			GGATCCGCAGCGGGAAATCAA	0.622													11	260					0	0	0.001855	0	0		T	185407235	T	T	185407235	2	4	1	1	0	0	0	0	0	0	0	1	7590	755	27	1		1	IGF2BP2	3	185407235	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	536632	185407235	12615195	312	312											
HRG	3273	broad.mit.edu	37	chr3	186395475	186395475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattggatctgtgtaccgaCtccctcctctaagaaaaggt	12	11	8	10	1	2	1	0	0	2	1	4	3	4	2	3	2	1	1	3	2	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:186395475C>T	uc003fqq.2	+	7	1404	c.1381C>T	c.(1381-1383)CTC>TTC	p.L461F		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	461	His/Pro-rich (HRR).				fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		TGTGTACCGACTCCCTCCTCT	0.547													10	166					0	0	0.006214	0	0		T	186395475	T	T	186395475	3	4	1	1	0	0	0	0	1	0	0	0	7370	565	20	4	1407	4	HRG	3	186395475	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	988240	186395475	11626955	313	313											
BCL6	604	broad.mit.edu	37	chr3	187447537	187447537	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggggaaggggttggccacaGgcatccggacatcccgaaac	10	5	15	11	2	0	0	0	0	0	0	2	3	2	2	3	7	1	2	3	7	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:187447537G>T	uc003frp.3	-	5	1113	c.656C>A	c.(655-657)CCT>CAT	p.P219H	BCL6_uc011bsf.1_Missense_Mutation_p.P219H|BCL6_uc010hza.2_Missense_Mutation_p.P117H|BCL6_uc003frq.1_Missense_Mutation_p.P219H	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	219					negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		GTTGGCCACAGGCATCCGGAC	0.612			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								4	58					0.00909568	0.00931889	0.009096	1	0		T	187447537	T	T	187447537	3	4	1	1	0	0	0	0	1	0	0	0	1377	1000	35	5	1488	5	BCL6	3	187447537	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1052062	187447537	10574893	314	314											
FGF12	2257	broad.mit.edu	37	chr3	192125831	192125831	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacctggtctccgcctcaccGgcctcttgcggccgctgcag	3	8	12	18	4	3	0	1	0	2	0	4	1	3	0	6	3	2	2	6	3	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:192125831G>T	uc003fsx.2	-	1	1008	c.182C>A	c.(181-183)CCG>CAG	p.P61Q	FGF12_uc003fsy.2_Intron	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	61					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		CCGCCTCACCGGCCTCTTGCG	0.672													11	246					2.4624e-09	2.73055e-09	0.008871	1	0		T	192125831	T	T	192125831	3	4	1	1	0	0	0	0	1	0	0	0	5855	1116	39	5	569	5	FGF12	3	192125831	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4678294	192125831	5896599	315	315											
GP5	2814	broad.mit.edu	37	chr3	194118947	194118947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacacacttgcaagctggcGgacaggggaagggctgggcg	10	4	18	9	2	0	1	0	0	0	1	0	3	0	3	0	6	2	3	0	6	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:194118947G>A	uc003ftv.1	-	2	96	c.65C>T	c.(64-66)CCG>CTG	p.P22L		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	22	LRRNT.|Extracellular (Potential).				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		GCAAGCTGGCGGACAGGGGAA	0.662													7	33					0	0	0.001984	0	0		A	194118947	A	A	194118947	3	1	1	1	0	0	0	0	1	0	0	0	6598	1116	39	1	1621	1	GP5	3	194118947	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1993116	194118947	3903483	316	316											
C3orf21	152002	broad.mit.edu	37	chr3	194790481	194790481	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtgttgcagttcccgtggTagatcttgacgtggccctca	6	12	13	10	2	2	2	1	1	1	1	3	3	3	2	2	2	1	4	2	2	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:194790481T>C	uc003fum.3	-	4	1253	c.1145A>G	c.(1144-1146)TAC>TGC	p.Y382C	C3orf21_uc003ful.2_Missense_Mutation_p.Y179C|C3orf21_uc003fuk.2_Missense_Mutation_p.Y176C	NM_152531	NP_689744	Q8NBI6	CC021_HUMAN	hypothetical protein LOC152002	382						integral to membrane	transferase activity, transferring glycosyl groups				0	all_cancers(143;9.33e-09)|Ovarian(172;0.0634)		Epithelial(36;1.73e-20)|all cancers(36;1.42e-18)|OV - Ovarian serous cystadenocarcinoma(49;1.56e-17)|Lung(62;0.000117)|LUSC - Lung squamous cell carcinoma(58;0.000146)	GBM - Glioblastoma multiforme(46;1.36e-05)		GTTCCCGTGGTAGATCTTGAC	0.627													17	189					0	0	0.008871	0	0		C	194790481	C	C	194790481	3	2	1	1	0	0	0	0	1	0	0	0	2217	1638	57	3	40	3	C3orf21	3	194790481	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	671534	194790481	3231949	317	317											
BDH1	622	broad.mit.edu	37	chr3	197238857	197238857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtagtccatggggtggtagCgggtgtagggggtggtggcg	5	9	23	4	2	0	0	0	0	0	0	1	0	1	0	1	8	1	3	1	8	3	3	rs144840608	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr3:197238857C>T	uc003fxr.2	-	8	1343	c.941G>A	c.(940-942)CGC>CAC	p.R314H	BDH1_uc003fxs.2_Missense_Mutation_p.R314H|BDH1_uc003fxt.2_Missense_Mutation_p.R227H|BDH1_uc003fxu.2_Missense_Mutation_p.R314H	NM_203314	NP_976059	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1	314					cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			ovary(1)	1	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	GGGGTGGTAGCGGGTGTAGGG	0.587													25	147					0	0	0.005524	0	0		T	197238857	T	T	197238857	3	4	1	1	0	0	0	0	1	0	0	0	1391	768	27	1	94	1	BDH1	3	197238857	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2448376	197238857	783573	318	318											
PIGG	54872	broad.mit.edu	37	chr4	524279	524279	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccttggcattctgttcacGggcaccaaagacttacttaa	10	12	8	11	1	2	1	1	0	1	1	3	1	3	1	2	2	1	3	2	2	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:524279G>A	uc003gak.3	+	11	2452	c.2316G>A	c.(2314-2316)ACG>ACA	p.T772T	PIGG_uc003gaj.3_Silent_p.T764T|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Silent_p.T639T|PIGG_uc003gal.3_Silent_p.T683T	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	772	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						TTCTGTTCACGGGCACCAAAG	0.383													27	282					0	0	0.003954	0	0		A	524279	A	A	524279	2	1	1	1	0	0	0	0	0	0	0	1	11907	1103	39	1		1	PIGG	4	524279	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08		524279	190629997	319	319											
PDE6B	5158	broad.mit.edu	37	chr4	651213	651213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgaacaagctggagaaccGcaaggacatcgcacaggaca	16	3	12	10	2	0	2	0	1	0	1	1	6	0	4	1	3	3	3	1	3	4	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:651213G>A	uc003gap.2	+	10	1384	c.1331G>A	c.(1330-1332)CGC>CAC	p.R444H	PDE6B_uc003gao.3_Missense_Mutation_p.R444H|PDE6B_uc011buy.1_Missense_Mutation_p.R165H|uc003gaq.1_5'Flank	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	444					cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						CTGGAGAACCGCAAGGACATC	0.597													8	75					0	0	0.004482	0	0		A	651213	A	A	651213	3	1	1	1	0	0	0	0	1	0	0	0	11665	1087	38	1	1369	1	PDE6B	4	651213	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	126934	651213	190503063	320	320											
CRIPAK	285464	broad.mit.edu	37	chr4	1389482	1389482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcccatgtggagtgcccGcctgctcacacaaagccctg	7	7	11	16	2	1	0	1	0	0	0	1	1	1	1	4	1	4	1	4	1	1	0	rs138375760	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:1389482G>A	uc003gdf.2	+	1	4143	c.1183G>A	c.(1183-1185)GCC>ACC	p.A395T		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	395	Interaction with PAK1.				ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			TGGAGTGCCCGCCTGCTCACA	0.607													24	152					0	0	0.005443	0	0		A	1389482	A	A	1389482	3	1	1	1	0	0	0	0	1	0	0	0	3880	1087	38	1	1185	1	CRIPAK	4	1389482	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	738269	1389482	189764794	321	321											
TACC3	10460	broad.mit.edu	37	chr4	1725278	1725278	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtcacagaaagaaaatGtgccacccaagaacctggcc	14	6	10	11	0	1	3	1	0	0	3	1	3	1	3	4	1	2	0	4	1	5	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:1725278G>T	uc003gdo.2	+	2	238	c.130G>T	c.(130-132)GTG>TTG	p.V44L	TMEM129_uc003gdn.2_5'Flank|TMEM129_uc003gdm.2_5'Flank|TACC3_uc010ibz.2_Missense_Mutation_p.V44L|TACC3_uc003gdp.2_Missense_Mutation_p.V44L	NM_006342	NP_006333	Q9Y6A5	TACC3_HUMAN	transforming, acidic coiled-coil containing	44						centrosome				ovary(1)|central_nervous_system(1)	2		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.00765)|Epithelial(3;0.0126)			GAAAGAAAATGTGCCACCCAA	0.483													5	51					0.000602214	0.000625823	0.000602	1	0		T	1725278	T	T	1725278	3	4	1	1	0	0	0	0	1	0	0	0	15528	1377	48	5	132	5	TACC3	4	1725278	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	335796	1725278	189428998	322	322											
MAN2B2	23324	broad.mit.edu	37	chr4	6611524	6611524	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatgctcccttctcctccaGgaacatgacagcacagaatt	11	10	7	13	0	1	3	0	2	1	1	4	4	3	4	3	1	3	2	3	1	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:6611524G>T	uc003gjf.1	+	13	2043	c.2007_splice	c.e13-1	p.R669_splice	MAN2B2_uc003gje.1_Splice_Site_p.R669_splice|MAN2B2_uc011bwf.1_Splice_Site_p.R618_splice	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2						mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						TTCTCCTCCAGGAACATGACA	0.577													6	121					1.6384e-10	1.83019e-10	0.001984	1	0		T	6611524	T	T	6611524	5	4	1	1	0	0	0	0	0	0	1	0	9235	1014	35	5	2056	5	MAN2B2	4	6611524	Splice_Site	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4886246	6611524	184542752	323	323											
MAN2B2	23324	broad.mit.edu	37	chr4	6612993	6612993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaggcccgtggtgctgttcGgagacctcgctggtaaaggg	7	8	16	10	3	0	1	0	0	0	1	2	2	0	1	2	5	1	4	2	5	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:6612993G>A	uc003gjf.1	+	15	2587	c.2551G>A	c.(2551-2553)GGA>AGA	p.G851R	MAN2B2_uc003gje.1_Missense_Mutation_p.G851R|MAN2B2_uc011bwf.1_Missense_Mutation_p.G800R	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	851					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						GGTGCTGTTCGGAGACCTCGC	0.657													12	48					0	0	0.001855	0	0		A	6612993	A	A	6612993	3	1	1	1	0	0	0	0	1	0	0	0	9235	1117	39	1	2609	1	MAN2B2	4	6612993	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1469	6612993	184541283	324	324											
BOD1L	259282	broad.mit.edu	37	chr4	13604480	13604480	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgtatctactgtgaaaccTtcaccaccttctttgctgtc	7	15	7	12	0	3	1	1	1	2	0	4	1	3	1	3	1	3	2	3	1	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:13604480T>C	uc003gmz.1	-	10	4161	c.4044A>G	c.(4042-4044)GAA>GAG	p.E1348E	BOD1L_uc010idr.1_Silent_p.E685E	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1348							DNA binding			ovary(5)|breast(1)	6						CTGTGAAACCTTCACCACCTT	0.468													7	233					0	0	0.00308	0	0		C	13604480	C	C	13604480	2	2	1	1	0	0	0	0	0	0	0	1	1484	1606	56	3		3	BOD1L	4	13604480	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	6991487	13604480	177549796	325	325											
CPEB2	132864	broad.mit.edu	37	chr4	15055785	15055785	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcttcagaagatttgggcCtttggtagtagattggcctc	8	14	12	7	0	1	3	1	0	0	3	2	3	1	3	2	3	1	3	2	3	4	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:15055785C>A	uc003gni.1	+	7	1157	c.1070C>A	c.(1069-1071)CCT>CAT	p.P357H	CPEB2_uc003gnj.1_Missense_Mutation_p.P327H|CPEB2_uc003gnk.1_Missense_Mutation_p.P365H|CPEB2_uc003gnl.1_Missense_Mutation_p.P338H|CPEB2_uc003gnm.1_Missense_Mutation_p.P335H|CPEB2_uc003gnn.1_Missense_Mutation_p.P330H	NM_182485	NP_872291	Q7Z5Q1	CPEB2_HUMAN	cytoplasmic polyadenylation element binding	357	RRM 1.				regulation of translation	cytoplasm	nucleotide binding|RNA binding			skin(1)	1						AGATTTGGGCCTTTGGTAGTA	0.328													28	196					8.88839e-20	1.02018e-19	0.010818	1	0		A	15055785	A	A	15055785	3	1	1	1	0	0	0	0	1	0	0	0	3804	681	24	5	2444	5	CPEB2	4	15055785	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1451305	15055785	176098491	326	326											
LDB2	9079	broad.mit.edu	37	chr4	16597436	16597436	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtttgagaatgtaatacaGgtcggtcacccctccttcaa	10	12	9	10	1	2	1	2	1	0	1	4	2	3	1	3	2	1	2	3	2	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:16597436G>A	uc003goz.2	-	3	614	c.298C>T	c.(298-300)CTG>TTG	p.L100L	LDB2_uc003gpa.2_Silent_p.L100L|LDB2_uc003gpb.2_Silent_p.L100L|LDB2_uc011bxh.1_Silent_p.L100L|LDB2_uc010iee.2_Silent_p.L100L|LDB2_uc003goy.2_5'UTR|LDB2_uc011bxi.1_5'UTR	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	100							LIM domain binding|transcription cofactor activity				0						ATGTAATACAGGTCGGTCACC	0.498													13	99					0	0	0.001855	0	0		A	16597436	A	A	16597436	2	1	1	1	0	0	0	0	0	0	0	1	8712	991	35	4		4	LDB2	4	16597436	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1541651	16597436	174556840	327	327											
SLC34A2	10568	broad.mit.edu	37	chr4	25676133	25676133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgtttcccccaggaatcgGcgtgataaccattgagaggg	9	10	13	9	2	0	2	0	2	0	1	2	4	1	3	3	3	1	1	3	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:25676133G>A	uc003grr.2	+	12	1421	c.1340G>A	c.(1339-1341)GGC>GAC	p.G447D	SLC34A2_uc003grs.2_Missense_Mutation_p.G446D|SLC34A2_uc010iev.2_Missense_Mutation_p.G446D	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	447	Extracellular (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				CCAGGAATCGGCGTGATAACC	0.572													38	130					0	0	0.004289	0	0		A	25676133	A	A	25676133	3	1	1	1	0	0	0	0	1	0	0	0	14593	1203	42	2	1382	2	SLC34A2	4	25676133	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	9078697	25676133	165478143	328	328											
PTTG2	10744	broad.mit.edu	37	chr4	37962340	37962340	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccaaaaagatgaccgaGaagactgttaaaacaaaaag	20	6	8	7	1	1	4	0	1	1	3	1	5	1	4	2	0	2	1	2	0	7	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:37962340G>T	uc011bye.1	+	1	285	c.285G>T	c.(283-285)GAG>GAT	p.E95D	TBC1D1_uc003gtb.2_Intron|TBC1D1_uc011byd.1_Intron|TBC1D1_uc010ifd.2_Intron	NM_006607	NP_006598	Q9NZH5	PTTG2_HUMAN	pituitary tumor-transforming 2	95					chromosome organization|DNA metabolic process	cytoplasm|nucleus	SH3 domain binding				0						AGATGACCGAGAAGACTGTTA	0.403													4	167					0.00909568	0.00931889	0.009096	1	0		T	37962340	T	T	37962340	3	4	1	1	0	0	0	0	1	0	0	0	12846	933	33	5	287	5	PTTG2	4	37962340	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	12286207	37962340	153191936	329	329											
GABRA4	2557	broad.mit.edu	37	chr4	46930594	46930594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtttcagctgcatttgcaCggctgaatgggtttggactg	6	14	14	7	1	1	1	1	1	0	0	1	2	1	2	0	4	3	6	0	4	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:46930594C>T	uc003gxg.2	-	9	1452	c.1313G>A	c.(1312-1314)CGT>CAT	p.R438H		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	438	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TGCATTTGCACGGCTGAATGG	0.463													18	136					0	0	0.006122	0	0		T	46930594	T	T	46930594	3	4	1	1	0	0	0	0	1	0	0	0	6177	536	19	1	355	1	GABRA4	4	46930594	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	8968254	46930594	144223682	330	330											
ATP10D	57205	broad.mit.edu	37	chr4	47525066	47525066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaccgatgctggaaagacGttactgttggggactttatt	9	14	12	6	2	0	2	0	1	0	1	0	5	0	4	1	3	2	3	1	3	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:47525066G>A	uc003gxk.1	+	4	687	c.523G>A	c.(523-525)GTT>ATT	p.V175I	ATP10D_uc003gxj.3_Missense_Mutation_p.V175I	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	175	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						CTGGAAAGACGTTACTGTTGG	0.353													12	109					0	0	0.001368	0	0		A	47525066	A	A	47525066	3	1	1	1	0	0	0	0	1	0	0	0	1119	1145	40	1	533	1	ATP10D	4	47525066	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	594472	47525066	143629210	331	331											
ENAM	10117	broad.mit.edu	37	chr4	71508334	71508334	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcccaattatgcaggaaaTccagcaaatctcagaagaaa	18	8	6	9	0	1	2	1	0	1	2	4	3	3	3	2	1	2	2	2	1	7	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:71508334T>A	uc011caw.1	+	9	1472	c.1191T>A	c.(1189-1191)AAT>AAA	p.N397K		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	397					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			ATGCAGGAAATCCAGCAAATC	0.473													24	193					0	0	0.00278	0	0		A	71508334	A	A	71508334	3	1	1	1	0	0	0	0	1	0	0	0	5120	1432	50	5	1221	5	ENAM	4	71508334	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	23983268	71508334	119645942	332	332											
NPFFR2	10886	broad.mit.edu	37	chr4	72897782	72897782	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtggagcaggcagtccgCgggggacagacgtcggctgg	7	4	21	9	4	0	1	0	0	0	1	2	4	1	4	1	7	1	3	1	7	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:72897782C>T	uc003hgg.2	+	1	262	c.164C>T	c.(163-165)GCG>GTG	p.A55V	NPFFR2_uc010iig.1_5'UTR	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	55	Extracellular (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			AGGCAGTCCGCGGGGGACAGA	0.677													3	23					0	0	0.000602	0	0		T	72897782	T	T	72897782	3	4	1	1	0	0	0	0	1	0	0	0	10597	768	27	1	166	1	NPFFR2	4	72897782	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1389448	72897782	118256494	333	333											
HNRPDL	9987	broad.mit.edu	37	chr4	83347273	83347273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagatgccttgccataagtgCtctgttggcctattttgaaa	9	14	10	8	0	1	2	0	1	1	1	1	3	1	2	3	1	3	2	3	1	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:83347273C>T	uc003hmr.2	-	7	1737	c.1202G>A	c.(1201-1203)AGC>AAC	p.S401N	HNRPDL_uc003hmq.2_RNA|HNRPDL_uc003hms.2_RNA|HNRPDL_uc003hmt.2_Missense_Mutation_p.S344N	NM_031372	NP_112740	O14979	HNRDL_HUMAN	heterogeneous nuclear ribonucleoprotein D-like	401	Necessary for interaction with TNPO1.|Gly-rich.|Necessary for its nuclear import and export.				regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|heterogeneous nuclear ribonucleoprotein complex	double-stranded DNA binding|nucleotide binding|poly(A) RNA binding|protein binding|single-stranded DNA binding			skin(1)	1		Hepatocellular(203;0.114)				GCCATAAGTGCTCTGTTGGCC	0.363													18	136					0	0	0.008871	0	0		T	83347273	T	T	83347273	3	4	1	1	0	0	0	0	1	0	0	0	7292	797	28	2	64	2	HNRPDL	4	83347273	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	10449491	83347273	107807003	334	334											
HPSE	10855	broad.mit.edu	37	chr4	84230574	84230574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctggaaaactttttgcacaGatgaaataaaaatgtccaat	17	11	6	7	0	0	2	0	1	0	1	1	3	1	3	2	1	2	1	2	1	7	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:84230574G>A	uc003hoj.3	-	7	1064	c.965C>T	c.(964-966)TCT>TTT	p.S322F	HPSE_uc010ika.2_Missense_Mutation_p.S264F|HPSE_uc011ccq.1_RNA|HPSE_uc011ccr.1_RNA|HPSE_uc011ccs.1_Missense_Mutation_p.S65F|HPSE_uc011cct.1_Missense_Mutation_p.S322F|HPSE_uc003hok.3_Missense_Mutation_p.S322F	NM_001098540	NP_001092010	Q9Y251	HPSE_HUMAN	heparanase precursor	322					carbohydrate metabolic process|cell adhesion|proteoglycan metabolic process	extracellular region|lysosomal membrane|nucleus	beta-glucuronidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.114)		COAD - Colon adenocarcinoma(81;0.141)	Heparin(DB01109)	TTTTTGCACAGATGAAATAAA	0.299													15	92					0	0	0.006122	0	0		A	84230574	A	A	84230574	3	1	1	1	0	0	0	0	1	0	0	0	7360	942	33	4	690	4	HPSE	4	84230574	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	883301	84230574	106923702	335	335											
ADH1A	124	broad.mit.edu	37	chr4	100205628	100205628	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagactttctctagaggCgaggctgcatcaattttggc	10	11	11	9	1	2	3	1	0	1	3	3	4	2	3	0	3	1	2	0	3	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:100205628C>T	uc003hur.1	-	5	566	c.495G>A	c.(493-495)TCG>TCA	p.S165S	uc003hum.1_Intron|ADH1A_uc011ceg.1_Silent_p.S165S|ADH1A_uc010ilf.1_5'UTR	NM_000667	NP_000658	P07327	ADH1A_HUMAN	class I alcohol dehydrogenase, alpha subunit	165					ethanol oxidation|transcription, DNA-dependent|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|protein binding|zinc ion binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(123;9.56e-08)	Fomepizole(DB01213)|NADH(DB00157)	TCTCTAGAGGCGAGGCTGCAT	0.478													10	80					0	0	0.010729	0	0		T	100205628	T	T	100205628	2	4	1	1	0	0	0	0	0	0	0	1	307	755	27	1		1	ADH1A	4	100205628	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	15975054	100205628	90948648	336	336											
TACR3	6870	broad.mit.edu	37	chr4	104640800	104640800	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccacgcctccacccccgtcTatccaggtttctgctgctgg	4	10	8	19	2	2	0	0	0	2	0	4	0	4	0	6	2	2	3	6	2	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:104640800T>C	uc003hxe.1	-	1	176	c.33A>G	c.(31-33)ATA>ATG	p.I11M		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	11	Extracellular (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		CACCCCCGTCTATCCAGGTTT	0.677													13	24					0	0	0.00245	0	0		C	104640800	C	C	104640800	3	2	1	1	0	0	0	0	1	0	0	0	15532	1512	53	3	1384	3	TACR3	4	104640800	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	4435172	104640800	86513476	337	337											
GSTCD	79807	broad.mit.edu	37	chr4	106638749	106638749	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacttcaatttatactttaGgtgacccaatgaaagaagaa	16	12	6	7	0	2	4	2	2	0	2	2	4	2	4	1	1	1	0	1	1	8	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:106638749G>A	uc003hxz.3	+	2	52	c.-20_splice	c.e2-1		GSTCD_uc003hxx.2_Splice_Site|GSTCD_uc003hxy.3_Splice_Site|GSTCD_uc011cfb.1_Intron|GSTCD_uc010ils.1_Splice_Site	NM_001031720	NP_001026890	Q8NEC7	GSTCD_HUMAN	glutathione S-transferase, C-terminal domain							cytoplasm	rRNA methyltransferase activity			breast(1)|central_nervous_system(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.15e-07)|READ - Rectum adenocarcinoma(30;0.139)		TTATACTTTAGGTGACCCAAT	0.313													8	89					0	0	0.00308	0	0		A	106638749	A	A	106638749	5	1	1	1	0	0	0	0	0	0	1	0	6851	1014	35	4		4	GSTCD	4	106638749	Splice_Site	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1997949	106638749	84515527	338	338											
DKK2	27123	broad.mit.edu	37	chr4	107845346	107845346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtctgatgatcgtaggcagGggtctccttcatgccctgca	7	11	12	11	1	3	2	1	2	2	0	5	2	3	2	2	3	2	3	2	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:107845346G>A	uc003hyi.2	-	4	1250	c.545C>T	c.(544-546)CCC>CTC	p.P182L	DKK2_uc003hyj.1_3'UTR	NM_014421	NP_055236	Q9UBU2	DKK2_HUMAN	dickkopf homolog 2 precursor	182					multicellular organismal development|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular space				ovary(3)|lung(1)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.34e-06)		TCGTAGGCAGGGGTCTCCTTC	0.433													14	123					0	0	0.001855	0	0		A	107845346	A	A	107845346	3	1	1	1	0	0	0	0	1	0	0	0	4551	1232	43	4	238	4	DKK2	4	107845346	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1206597	107845346	83308930	339	339											
LRIT3	345193	broad.mit.edu	37	chr4	110789030	110789030	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtaatgttctactgcggTgtgatgccactggcttcccc	6	12	11	12	1	1	1	0	1	1	0	2	1	2	1	3	2	3	4	3	2	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:110789030T>C	uc003hzx.3	+	2	881	c.688T>C	c.(688-690)TGT>CGT	p.C230R	LRIT3_uc003hzw.3_Missense_Mutation_p.C92R	NM_198506	NP_940908	Q3SXY7	LRIT3_HUMAN	leucine-rich repeat, immunoglobulin-like and	230	Ig-like.					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;0.0011)		TCTACTGCGGTGTGATGCCAC	0.478													12	91					0	0	0.003163	0	0		C	110789030	C	C	110789030	3	2	1	1	0	0	0	0	1	0	0	0	8967	1696	59	3	694	3	LRIT3	4	110789030	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2943684	110789030	80365246	340	340											
ALPK1	80216	broad.mit.edu	37	chr4	113333128	113333128	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaagttgcagccagccaCgccaattgccccgcaggtgg	9	5	11	16	2	0	0	0	0	0	0	0	0	0	0	6	2	4	3	6	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:113333128C>T	uc003iap.3	+	5	701	c.422C>T	c.(421-423)ACG>ATG	p.T141M	ALPK1_uc011cfw.1_RNA|ALPK1_uc003ian.3_Missense_Mutation_p.T141M|ALPK1_uc011cfx.1_Missense_Mutation_p.T63M|ALPK1_uc003iao.3_RNA|ALPK1_uc003iaq.2_Missense_Mutation_p.T85M|ALPK1_uc010imo.2_Translation_Start_Site|ALPK1_uc003iar.2_Missense_Mutation_p.T111M	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	141							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		CAGCCAGCCACGCCAATTGCC	0.597													6	40					0	0	0.001168	0	0		T	113333128	T	T	113333128	3	4	1	1	0	0	0	0	1	0	0	0	544	536	19	1	432	1	ALPK1	4	113333128	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2544098	113333128	77821148	341	341											
C4orf21	55345	broad.mit.edu	37	chr4	113462384	113462384	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatagcactgattgcaggaTgacaacggtattgagttctc	12	11	10	8	1	1	3	0	3	1	0	2	4	1	4	0	2	3	4	0	2	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:113462384T>C	uc003iau.2	-	25	5850	c.5639A>G	c.(5638-5640)CAT>CGT	p.H1880R	C4orf21_uc003iav.2_RNA|C4orf21_uc003iat.2_Missense_Mutation_p.H338R	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	702						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		GATTGCAGGATGACAACGGTA	0.358													4	36					0	0	0.000602	0	0		C	113462384	C	C	113462384	3	2	1	1	0	0	0	0	1	0	0	0	2257	1464	51	3	691	3	C4orf21	4	113462384	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	129256	113462384	77691892	342	342											
ANK2	287	broad.mit.edu	37	chr4	114290805	114290805	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccagaccccaacatccagCgagcggggaggctctcccat	9	5	10	17	2	1	1	0	0	1	1	4	3	3	2	5	3	3	1	5	3	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:114290805C>T	uc003ibe.3	+	43	11554	c.11454C>T	c.(11452-11454)AGC>AGT	p.S3818S	ANK2_uc003ibd.3_Silent_p.S1724S|ANK2_uc003ibf.3_Silent_p.S1733S|ANK2_uc011cgc.1_Silent_p.S909S|ANK2_uc003ibg.3_Silent_p.S717S|ANK2_uc003ibh.3_Silent_p.S407S|ANK2_uc011cgd.1_Silent_p.S1120S	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3785					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CAACATCCAGCGAGCGGGGAG	0.567													5	85					0	0	0.000602	0	0		T	114290805	T	T	114290805	2	4	1	1	0	0	0	0	0	0	0	1	621	767	27	1		1	ANK2	4	114290805	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	828421	114290805	76863471	343	343											
SEC24D	9871	broad.mit.edu	37	chr4	119665262	119665262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagagcagccgtgagccaCgcagtccttggccaatgagt	10	6	12	13	2	0	3	0	2	0	1	1	3	1	3	4	1	3	2	4	1	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:119665262C>T	uc003ici.3	-	15	2148	c.1876G>A	c.(1876-1878)GTG>ATG	p.V626M	SEC24D_uc003ich.3_RNA|SEC24D_uc003icj.3_Missense_Mutation_p.V627M|SEC24D_uc003icl.2_RNA	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D	626					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0						CCGTGAGCCACGCAGTCCTTG	0.448													8	40					0	0	0.00245	0	0		T	119665262	T	T	119665262	3	4	1	1	0	0	0	0	1	0	0	0	14022	536	19	1	1258	1	SEC24D	4	119665262	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5374457	119665262	71489014	344	344											
TRPC3	7222	broad.mit.edu	37	chr4	122833134	122833134	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgtgatattgggcagcgTggtgatgccttcgaacctgt	8	12	13	8	2	0	2	0	2	0	0	1	3	0	2	2	2	4	1	2	2	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:122833134T>G	uc003ieg.2	-	5	1530	c.1456A>C	c.(1456-1458)ACG>CCG	p.T486P	TRPC3_uc010inr.2_Missense_Mutation_p.T358P|TRPC3_uc003ief.2_Missense_Mutation_p.T413P|TRPC3_uc011cgl.1_Missense_Mutation_p.T150P	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	401	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						TTGGGCAGCGTGGTGATGCCT	0.458													10	109					0	0	0.008291	0	0		G	122833134	G	G	122833134	3	3	1	1	0	0	0	0	1	0	0	0	16605	1696	59	5	1341	5	TRPC3	4	122833134	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3167872	122833134	68321142	345	345											
KIAA1109	84162	broad.mit.edu	37	chr4	123156162	123156162	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggataattactaaagaaatTcccaaaattatagatggtaa	19	12	6	4	0	0	2	0	0	0	2	1	3	1	3	1	2	1	1	1	2	10	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:123156162T>C	uc003ieh.2	+	25	3603	c.3558T>C	c.(3556-3558)ATT>ATC	p.I1186I	KIAA1109_uc003iei.1_Silent_p.I939I|KIAA1109_uc010ins.1_Silent_p.I529I	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1186					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CTAAAGAAATTCCCAAAATTA	0.358													24	142					0	0	0.00333	0	0		C	123156162	C	C	123156162	2	2	1	1	0	0	0	0	0	0	0	1	8224	1771	62	3		3	KIAA1109	4	123156162	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	323028	123156162	67998114	346	346											
KIAA1109	84162	broad.mit.edu	37	chr4	123176338	123176338	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacaacaggcttacaaaagTtgctcgctttctccaagaaa	15	10	6	10	1	1	1	0	0	1	1	3	1	1	1	1	1	4	4	1	1	7	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:123176338T>C	uc003ieh.2	+	38	6323	c.6278T>C	c.(6277-6279)GTT>GCT	p.V2093A	KIAA1109_uc003iel.1_Missense_Mutation_p.V28A|KIAA1109_uc003iek.2_Missense_Mutation_p.V712A	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2093					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CTTACAAAAGTTGCTCGCTTT	0.338													15	138					0	0	0.003163	0	0		C	123176338	C	C	123176338	3	2	1	1	0	0	0	0	1	0	0	0	8224	1725	60	3	6428	3	KIAA1109	4	123176338	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	20176	123176338	67977938	347	347											
FAT4	79633	broad.mit.edu	37	chr4	126372586	126372586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcagaattagatcgagaaaCccttcccatctataatctct	13	12	5	11	1	2	3	0	0	2	3	5	4	3	3	2	0	2	1	2	0	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:126372586C>T	uc003ifj.3	+	9	10415	c.10415C>T	c.(10414-10416)ACC>ATC	p.T3472I	FAT4_uc011cgp.1_Missense_Mutation_p.T1770I|FAT4_uc003ifi.1_Missense_Mutation_p.T950I	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3472	Cadherin 33.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GATCGAGAAACCCTTCCCATC	0.428													25	231					0	0	0.00333	0	0		T	126372586	T	T	126372586	3	4	1	1	0	0	0	0	1	0	0	0	5706	507	18	4	10449	4	FAT4	4	126372586	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3196248	126372586	64781690	348	348											
RNF150	57484	broad.mit.edu	37	chr4	141832415	141832415	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactgaactttcattcactgTtgtgtcgctggcacctgtga	7	14	10	10	1	2	2	2	2	0	0	3	3	2	2	1	1	1	3	1	1	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:141832415T>G	uc003iio.1	-	6	1735	c.1081A>C	c.(1081-1083)ACA>CCA	p.T361P	RNF150_uc010iok.1_Missense_Mutation_p.T319P|RNF150_uc003iip.1_Missense_Mutation_p.T361P	NM_020724	NP_065775	Q9ULK6	RN150_HUMAN	ring finger protein 150 precursor	361	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1	all_hematologic(180;0.162)					TCATTCACTGTTGTGTCGCTG	0.592													8	100					0	0	0.006214	0	0		G	141832415	G	G	141832415	3	3	1	1	0	0	0	0	1	0	0	0	13476	1725	60	5	243	5	RNF150	4	141832415	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	15459829	141832415	49321861	349	349											
SMAD1	4086	broad.mit.edu	37	chr4	146474973	146474973	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggaggggaggtgtatgcCgaatgccttagtgacagtag	9	10	17	5	1	0	1	0	1	0	0	0	4	0	3	2	4	2	3	2	4	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:146474973C>T	uc003ikc.2	+	6	1451	c.1035C>T	c.(1033-1035)GCC>GCT	p.A345A	SMAD1_uc003ikd.2_Silent_p.A345A|SMAD1_uc010iov.2_Silent_p.A345A|SMAD1_uc011cic.1_Silent_p.A306A	NM_005900	NP_005891	Q15797	SMAD1_HUMAN	Sma- and Mad-related protein 1	345	MH2.				BMP signaling pathway|embryonic pattern specification|primary miRNA processing|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|nuclear inner membrane	co-SMAD binding|I-SMAD binding|identical protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity			ovary(1)	1	all_hematologic(180;0.151)					AGGTGTATGCCGAATGCCTTA	0.408													20	239					0	0	0.008871	0	0		T	146474973	T	T	146474973	2	4	1	1	0	0	0	0	0	0	0	1	14782	639	23	1		1	SMAD1	4	146474973	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4642558	146474973	44679303	350	350											
TLR2	7097	broad.mit.edu	37	chr4	154624401	154624401	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctataattacttatctaaTttatcgtcttcctggttcaa	10	19	3	9	1	3	0	1	0	2	0	6	0	5	0	2	1	1	1	2	1	7	9			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:154624401T>C	uc003inq.2	+	3	561	c.342T>C	c.(340-342)AAT>AAC	p.N114N	TLR2_uc003inr.2_Silent_p.N114N|TLR2_uc003ins.2_Silent_p.N114N	NM_003264	NP_003255	O60603	TLR2_HUMAN	toll-like receptor 2 precursor	114	LRR 3.|Extracellular (Potential).			N->S: Prevents addition of N-glycans. Reduces secretion of the N-terminal ectodomain.	cellular response to diacyl bacterial lipopeptide|cellular response to lipoteichoic acid|cellular response to triacyl bacterial lipopeptide|detection of diacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|I-kappaB phosphorylation|induction of apoptosis|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of interferon-beta production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of Wnt receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|integral to plasma membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	Gram-positive bacterial cell surface binding|lipopolysaccharide receptor activity|peptidoglycan binding|protein heterodimerization activity|transmembrane receptor activity|triacyl lipopeptide binding			ovary(1)|lung(1)|breast(1)	3	all_hematologic(180;0.093)	Renal(120;0.117)				ACTTATCTAATTTATCGTCTT	0.363													12	105					0	0	0.010729	0	0		C	154624401	C	C	154624401	2	2	1	1	0	0	0	0	0	0	0	1	15976	1490	52	3		3	TLR2	4	154624401	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	8149428	154624401	36529875	351	351											
LRAT	9227	broad.mit.edu	37	chr4	155665738	155665738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgacagacgacatggggcGcacgcagaaggtggtctcca	10	5	14	12	3	1	3	0	1	1	2	2	4	1	3	2	4	0	2	2	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:155665738G>A	uc003iom.1	+	1	587	c.260G>A	c.(259-261)CGC>CAC	p.R87H	uc003iol.2_Intron|LRAT_uc003ion.1_Missense_Mutation_p.R87H	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	87	Cytoplasmic (By similarity).				response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)	GACATGGGGCGCACGCAGAAG	0.597													7	50					0	0	0.00308	0	0		A	155665738	A	A	155665738	3	1	1	1	0	0	0	0	1	0	0	0	8948	1087	38	1	262	1	LRAT	4	155665738	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1041337	155665738	35488538	352	352											
FNIP2	57600	broad.mit.edu	37	chr4	159790317	159790317	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actagaggtttgtatgtgaaGgctgcggaaggacctgtgct	9	11	15	6	1	0	2	0	1	0	1	0	4	0	4	1	4	2	4	1	4	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:159790317G>T	uc003iqe.3	+	13	2712	c.2529G>T	c.(2527-2529)AAG>AAT	p.K843N		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	843	Interaction with PRKAA1.				DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		TGTATGTGAAGGCTGCGGAAG	0.647													9	36					6.40141e-05	6.77892e-05	0.010729	1	0		T	159790317	T	T	159790317	3	4	1	1	0	0	0	0	1	0	0	0	5990	991	35	5	2579	5	FNIP2	4	159790317	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4124579	159790317	31363959	353	353											
SC4MOL	6307	broad.mit.edu	37	chr4	166259034	166259034	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcctttgatttgtggaaccTattattttacagagtatttc	9	19	7	6	0	0	2	0	1	0	1	1	3	0	3	2	1	3	1	2	1	5	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:166259034T>C	uc003ire.2	+	3	479	c.349T>C	c.(349-351)TAT>CAT	p.Y117H	SC4MOL_uc010irb.2_Missense_Mutation_p.Y117H|SC4MOL_uc003irf.2_5'UTR	NM_006745	NP_006736	Q15800	ERG25_HUMAN	sterol-C4-methyl oxidase-like isoform 1	117	Helical; (Potential).				cholesterol biosynthetic process|fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	C-4 methylsterol oxidase activity|iron ion binding				0	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0875)	NADH(DB00157)	TTGTGGAACCTATTATTTTAC	0.358													20	115					0	0	0.007413	0	0		C	166259034	C	C	166259034	3	2	1	1	0	0	0	0	1	0	0	0	13890	1522	53	3	355	3	SC4MOL	4	166259034	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	6468717	166259034	24895242	354	354											
TLL1	7092	broad.mit.edu	37	chr4	167020518	167020518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaactacccaggacaggttGactgtgaatggctattagta	13	10	10	8	0	0	2	0	2	0	0	0	3	0	3	1	3	2	3	1	3	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:167020518G>A	uc003irh.1	+	20	3393	c.2746G>A	c.(2746-2748)GAC>AAC	p.D916N	TLL1_uc011cjn.1_Missense_Mutation_p.D939N|TLL1_uc011cjo.1_Missense_Mutation_p.D740N	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	916	CUB 5.				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		AGGACAGGTTGACTGTGAATG	0.458													60	233					0	0	0.00361	0	0		A	167020518	A	A	167020518	3	1	1	1	0	0	0	0	1	0	0	0	15970	1290	45	4	2824	4	TLL1	4	167020518	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	761484	167020518	24133758	355	355											
MFAP3L	9848	broad.mit.edu	37	chr4	170912709	170912709	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtttcgggggaatgttcCgccgacagttctgtctcctc	5	12	12	12	3	2	0	0	0	2	0	6	2	3	1	3	2	0	4	3	2	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:170912709C>T	uc003isp.3	-	3	1228	c.1050G>A	c.(1048-1050)GCG>GCA	p.A350A	MFAP3L_uc003isn.3_Silent_p.A247A	NM_021647	NP_067679	O75121	MFA3L_HUMAN	microfibrillar-associated protein 3-like isoform	350	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0201)|LUSC - Lung squamous cell carcinoma(193;0.116)		GGGAATGTTCCGCCGACAGTT	0.502													16	144					0	0	0.007413	0	0		T	170912709	T	T	170912709	2	4	1	1	0	0	0	0	0	0	0	1	9534	639	23	1		1	MFAP3L	4	170912709	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3892191	170912709	20241567	356	356											
KIAA1712	80817	broad.mit.edu	37	chr4	175225417	175225417	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattccatcacaacaaagaaAgaaaatcagttctggtaagt	18	9	7	7	0	3	2	2	0	1	2	4	3	4	2	1	1	1	2	1	1	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:175225417A>C	uc003itr.2	+	6	818	c.404A>C	c.(403-405)AAG>ACG	p.K135T	KIAA1712_uc010iro.2_Missense_Mutation_p.K135T|KIAA1712_uc003its.2_RNA	NM_001040157	NP_001035247	Q9C0F1	CEP44_HUMAN	HBV PreS1-transactivated protein 3 isoform a	135						centrosome|midbody|spindle pole					0		Prostate(90;0.00276)|Melanoma(52;0.0179)|Renal(120;0.0376)|Breast(14;0.0991)|all_hematologic(60;0.124)|all_neural(102;0.196)		all cancers(43;4.06e-18)|Epithelial(43;1.18e-15)|OV - Ovarian serous cystadenocarcinoma(60;4.65e-09)|GBM - Glioblastoma multiforme(59;0.00098)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0949)		CAACAAAGAAAGAAAATCAGT	0.323													4	70					0	0	0.009096	0	0		C	175225417	C	C	175225417	3	2	1	1	0	0	0	0	1	0	0	0	8269	72	3	5	418	5	KIAA1712	4	175225417	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	4312708	175225417	15928859	357	357											
WDR17	116966	broad.mit.edu	37	chr4	177017731	177017731	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgattggtatgaaggactaCaaagagtaagatacatttac	17	11	9	4	0	0	4	0	2	0	2	0	5	0	5	0	2	3	2	0	2	7	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:177017731C>G	uc003iuj.2	+	2	217	c.61C>G	c.(61-63)CAA>GAA	p.Q21E	WDR17_uc003iuk.2_Intron|WDR17_uc003ium.3_Intron|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	21										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TGAAGGACTACAAAGAGTAAG	0.338													11	156					0	0	0.010729	0	0		G	177017731	G	G	177017731	3	3	1	1	0	0	0	0	1	0	0	0	17303	479	17	5	63	5	WDR17	4	177017731	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1792314	177017731	14136545	358	358											
ODZ3	55714	broad.mit.edu	37	chr4	183609430	183609430	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagcctgccacccccgctGtgccgagcacgggacctgca	7	4	13	17	3	0	1	0	0	0	1	0	4	0	2	6	1	5	3	6	1	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:183609430G>T	uc003ivd.1	+	11	2184	c.2147G>T	c.(2146-2148)TGT>TTT	p.C716F	ODZ3_uc003ive.1_Missense_Mutation_p.C122F	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	716	Extracellular (Potential).|EGF-like 7.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CACCCCCGCTGTGCCGAGCAC	0.612													17	66					5.3912e-06	5.80484e-06	0.006122	1	0		T	183609430	T	T	183609430	3	4	1	1	0	0	0	0	1	0	0	0	10855	1377	48	5	2189	5	ODZ3	4	183609430	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	6591699	183609430	7544846	359	359											
ODZ3	55714	broad.mit.edu	37	chr4	183664511	183664511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggcagtctgtacgtaggcGatttcaactatgtgcggcgg	8	11	14	8	4	2	0	1	0	1	0	2	1	2	0	0	4	3	3	0	4	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:183664511G>A	uc003ivd.1	+	18	3605	c.3568G>A	c.(3568-3570)GAT>AAT	p.D1190N	ODZ3_uc003ive.1_Missense_Mutation_p.D596N	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1190	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GTACGTAGGCGATTTCAACTA	0.468													18	75					0	0	0.006122	0	0		A	183664511	A	A	183664511	3	1	1	1	0	0	0	0	1	0	0	0	10855	1058	37	1	3638	1	ODZ3	4	183664511	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	55081	183664511	7489765	360	360											
WWC2	80014	broad.mit.edu	37	chr4	184175055	184175055	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtcaccccacagaaacgtAcccaagatgaattagaacgc	15	6	7	13	3	1	4	1	1	0	3	2	4	1	4	3	0	3	1	3	0	6	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:184175055A>G	uc010irx.2	+	9	1281	c.1099A>G	c.(1099-1101)ACC>GCC	p.T367A	WWC2_uc003ivk.3_Missense_Mutation_p.T162A|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_Missense_Mutation_p.T49A	NM_024949	NP_079225	Q6AWC2	WWC2_HUMAN	WW and C2 domain containing 2	367	Potential.									ovary(2)|lung(1)	3		all_lung(41;5.28e-14)|Lung NSC(41;1.35e-13)|Colorectal(36;0.00681)|Hepatocellular(41;0.00886)|Renal(120;0.00992)|Prostate(90;0.0237)|all_hematologic(60;0.0592)|Esophageal squamous(56;0.179)|all_neural(102;0.202)		all cancers(43;3.38e-24)|Epithelial(43;1.4e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.09e-09)|GBM - Glioblastoma multiforme(59;3.33e-05)|Colorectal(24;3.58e-05)|STAD - Stomach adenocarcinoma(60;4.21e-05)|COAD - Colon adenocarcinoma(29;0.000171)|LUSC - Lung squamous cell carcinoma(40;0.0145)|READ - Rectum adenocarcinoma(43;0.242)		ACAGAAACGTACCCAAGATGA	0.483													6	35					0	0	0.001984	0	0		G	184175055	G	G	184175055	3	3	1	1	0	0	0	0	1	0	0	0	17438	391	14	3	1133	3	WWC2	4	184175055	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	510544	184175055	6979221	361	361											
C4orf41	60684	broad.mit.edu	37	chr4	184622874	184622874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttacagactggagagagtgCtagtgaatgcttttgtcttc	9	14	11	7	0	1	3	0	1	1	2	2	5	1	4	0	1	3	2	0	1	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:184622874C>T	uc003ivx.2	+	26	3052	c.2876C>T	c.(2875-2877)GCT>GTT	p.A959V	C4orf41_uc003ivw.2_Missense_Mutation_p.A959V|C4orf41_uc010isc.2_Missense_Mutation_p.A303V|C4orf41_uc003ivy.2_Missense_Mutation_p.A565V	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	959											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		GGAGAGAGTGCTAGTGAATGC	0.373													9	126					0	0	0.010729	0	0		T	184622874	T	T	184622874	3	4	1	1	0	0	0	0	1	0	0	0	2273	797	28	2	2974	2	C4orf41	4	184622874	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	447819	184622874	6531402	362	362											
IRF2	3660	broad.mit.edu	37	chr4	185339701	185339701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttacctttcttagaaggccGttctgataggggcagcattc	8	14	10	9	1	2	2	0	1	2	1	3	2	2	2	2	3	2	3	2	3	4	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:185339701G>A	uc003iwf.3	-	4	549	c.349C>T	c.(349-351)CGG>TGG	p.R117W		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	117					blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		TTAGAAGGCCGTTCTGATAGG	0.403													20	142					0	0	0.008871	0	0		A	185339701	A	A	185339701	3	1	1	1	0	0	0	0	1	0	0	0	7844	1144	40	1	724	1	IRF2	4	185339701	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	716827	185339701	5814575	363	363											
CCDC110	256309	broad.mit.edu	37	chr4	186381154	186381154	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacgataaaagttattataaTtcttcaagatgtcagaattt	17	15	5	4	1	3	2	2	0	1	2	3	3	3	2	0	0	1	1	0	0	8	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:186381154T>C	uc003ixu.3	-	6	663	c.587A>G	c.(586-588)AAT>AGT	p.N196S	CCDC110_uc003ixv.3_Missense_Mutation_p.N159S|CCDC110_uc011ckt.1_Missense_Mutation_p.N196S	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	196						nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		GTTATTATAATTCTTCAAGAT	0.333													11	90					0	0	0.010729	0	0		C	186381154	C	C	186381154	3	2	1	1	0	0	0	0	1	0	0	0	2750	1493	52	3	1922	3	CCDC110	4	186381154	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1041453	186381154	4773122	364	364											
ZFP42	132625	broad.mit.edu	37	chr4	188924074	188924074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaagccaagacctgcaggCggaaatagaacctgtcagcg	13	5	12	11	2	2	2	2	0	0	2	2	3	2	3	3	2	4	1	3	2	5	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr4:188924074C>T	uc003izg.1	+	3	358	c.113C>T	c.(112-114)GCG>GTG	p.A38V	ZFP42_uc003izh.1_Missense_Mutation_p.A38V|ZFP42_uc003izi.1_Missense_Mutation_p.A38V	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	38					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		GACCTGCAGGCGGAAATAGAA	0.572													8	83					0	0	0.006214	0	0		T	188924074	T	T	188924074	3	4	1	1	0	0	0	0	1	0	0	0	17675	768	27	1	115	1	ZFP42	4	188924074	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2542920	188924074	2230202	365	365											
PLEKHG4B	153478	broad.mit.edu	37	chr5	156192	156192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcccgtgcaggaagtcGccgagttaattgaccagcat	10	8	10	13	3	0	1	0	1	0	0	2	3	1	2	4	1	2	3	4	1	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:156192G>A	uc003jak.2	+	8	1197	c.1147G>A	c.(1147-1149)GCC>ACC	p.A383T		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	383					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		GCAGGAAGTCGCCGAGTTAAT	0.572													25	92					0	0	0.00632	0	0		A	156192	A	A	156192	3	1	1	1	0	0	0	0	1	0	0	0	12091	1087	38	1	1177	1	PLEKHG4B	5	156192	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08		156192	180759068	366	366											
CCT5	22948	broad.mit.edu	37	chr5	10258614	10258614	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tataaagcccttcagaaataCgaaaaggagaaatttgaaga	20	8	8	5	1	1	4	1	1	0	3	1	6	1	4	1	1	2	0	1	1	9	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:10258614C>T	uc003jeq.2	+	6	1011	c.840C>T	c.(838-840)TAC>TAT	p.Y280Y	CCT5_uc011cmq.1_Silent_p.Y127Y|CCT5_uc003jer.2_Silent_p.Y280Y|CCT5_uc010its.2_Silent_p.Y280Y|CCT5_uc011cmr.1_Silent_p.Y225Y|CCT5_uc011cms.1_Silent_p.Y242Y|CCT5_uc011cmt.1_Silent_p.Y187Y	NM_012073	NP_036205	P48643	TCPE_HUMAN	chaperonin containing TCP1, subunit 5 (epsilon)	280					'de novo' posttranslational protein folding|response to virus	microtubule organizing center|nucleolus	ATP binding|unfolded protein binding			ovary(2)	2						TTCAGAAATACGAAAAGGAGA	0.383													11	119					0	0	0.008291	0	0		T	10258614	T	T	10258614	2	4	1	1	0	0	0	0	0	0	0	1	2959	547	19	1		1	CCT5	5	10258614	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	10102422	10258614	170656646	367	367											
ZNF622	90441	broad.mit.edu	37	chr5	16463215	16463215	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatattacaaactatgcttAcctaaaatcatagaagtctg	16	13	4	8	0	3	1	2	0	1	1	3	1	3	1	1	0	4	1	1	0	9	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:16463215A>G	uc003jfq.2	-	3	1169	c.1049_splice	c.e3+1	p.R350_splice		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622							cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						AACTATGCTTACCTAAAATCA	0.284													5	224					0	0	0.000602	0	0		G	16463215	G	G	16463215	5	3	1	1	0	0	0	0	0	0	1	0	18071	405	14	3	398	3	ZNF622	5	16463215	Splice_Site	SNP	A	TCGA-B7-5816-01A-21D-1600-08	6204601	16463215	164452045	368	368											
PRDM9	56979	broad.mit.edu	37	chr5	23527040	23527040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtctgcagggagtgtgggCggggctttagccggcagtca	6	9	18	8	2	2	0	1	0	1	0	2	1	2	1	1	5	2	3	1	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:23527040C>T	uc003jgo.2	+	11	2025	c.1843C>T	c.(1843-1845)CGG>TGG	p.R615W		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	615	C2H2-type 5.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						GGAGTGTGGGCGGGGCTTTAG	0.627										HNSCC(3;0.000094)			6	79					0	0	0.008291	0	0		T	23527040	T	T	23527040	3	4	1	1	0	0	0	0	1	0	0	0	12485	759	27	1	1881	1	PRDM9	5	23527040	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	7063825	23527040	157388220	369	369											
PDZD2	23037	broad.mit.edu	37	chr5	32090692	32090692	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttccggcagcattgtttccGggagcctgggccacccaggt	5	9	13	14	2	0	0	0	0	0	0	2	1	2	1	5	4	2	3	5	4	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:32090692G>T	uc003jhl.2	+	20	7526	c.7138G>T	c.(7138-7140)GGG>TGG	p.G2380W	PDZD2_uc003jhm.2_Missense_Mutation_p.G2380W	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2380					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CATTGTTTCCGGGAGCCTGGG	0.617													6	58					2.74318e-10	3.06019e-10	0.006214	1	0		T	32090692	T	T	32090692	3	4	1	1	0	0	0	0	1	0	0	0	11720	1116	39	5	7212	5	PDZD2	5	32090692	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	8563652	32090692	148824568	370	370											
NPR3	4883	broad.mit.edu	37	chr5	32712358	32712358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccatgctgtcggctggggCgctggccgctggcttccagc	2	8	16	15	3	0	0	0	0	0	0	2	0	1	0	3	5	2	5	3	5	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:32712358C>T	uc003jhv.2	+	1	694	c.476C>T	c.(475-477)GCG>GTG	p.A159V	NPR3_uc010iuo.2_Intron|NPR3_uc011cnz.1_Intron|NPR3_uc003jhu.2_Missense_Mutation_p.A159V	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	159	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	TCGGCTGGGGCGCTGGCCGCT	0.667													8	26					0	0	0.008291	0	0		T	32712358	T	T	32712358	3	4	1	1	0	0	0	0	1	0	0	0	10615	768	27	1	478	1	NPR3	5	32712358	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	621666	32712358	148202902	371	371											
NUP155	9631	broad.mit.edu	37	chr5	37364349	37364349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacaaagtaataggatacGtccaaactgctcaacaagtt	18	9	6	8	1	1	0	1	0	0	0	2	1	2	1	1	1	5	3	1	1	9	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:37364349G>A	uc003jku.1	-	2	413	c.295C>T	c.(295-297)CAT>TAT	p.H99Y	NUP155_uc003jkt.1_Missense_Mutation_p.H40Y|NUP155_uc010iuz.1_Missense_Mutation_p.H99Y	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	99					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AATAGGATACGTCCAAACTGC	0.343													4	64					0	0	0.009096	0	0		A	37364349	A	A	37364349	3	1	1	1	0	0	0	0	1	0	0	0	10775	1159	40	1	4016	1	NUP155	5	37364349	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4651991	37364349	143550911	372	372											
EGFLAM	133584	broad.mit.edu	37	chr5	38438416	38438416	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatccatgtgaagcatgacTtcacctccggagtgaatgtg	10	10	10	11	1	1	3	1	3	0	0	3	4	3	4	4	1	1	1	4	1	2	1	rs143262017		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:38438416T>C	uc003jlc.1	+	17	2647	c.2323T>C	c.(2323-2325)TTC>CTC	p.F775L	EGFLAM_uc003jlb.1_Missense_Mutation_p.F775L|EGFLAM_uc003jle.1_Missense_Mutation_p.F541L|EGFLAM_uc003jlf.1_Missense_Mutation_p.F141L	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	775	Laminin G-like 2.			F -> L (in Ref. 2; CAH56137).		cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					GAAGCATGACTTCACCTCCGG	0.498													4	58					0	0	0.009096	0	0		C	38438416	C	C	38438416	3	2	1	1	0	0	0	0	1	0	0	0	4972	1609	56	3	2403	3	EGFLAM	5	38438416	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1074067	38438416	142476844	373	373											
C6	729	broad.mit.edu	37	chr5	41149516	41149516	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacatttctcagccaaaaacTtacaagcgggtgaagtaaag	17	8	8	8	1	1	1	1	1	1	0	2	1	1	1	1	1	5	1	1	1	8	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:41149516T>G	uc003jmk.2	-	17	2660	c.2450A>C	c.(2449-2451)AAG>ACG	p.K817T	C6_uc003jml.1_Missense_Mutation_p.K817T	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	817	C5b-binding domain.|Complement control factor I module 1.|Kazal-like 1.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding	p.K817R(1)		ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				AGCCAAAAACTTACAAGCGGG	0.423													41	199					0	0	0.00874	0	0		G	41149516	G	G	41149516	3	3	1	1	0	0	0	0	1	0	0	0	2318	1609	56	5	362	5	C6	5	41149516	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2711100	41149516	139765744	374	374											
PELO	53918	broad.mit.edu	37	chr5	52097317	52097317	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtggctagccgcctttcAgacactaaagctgctgggga	9	9	12	11	1	1	1	1	0	0	1	1	2	1	2	2	3	3	3	2	3	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:52097317A>G	uc003jos.2	+	3	1786	c.801A>G	c.(799-801)TCA>TCG	p.S267S	ITGA1_uc003jov.2_Intron|ITGA1_uc003jou.2_Intron|PELO_uc003jot.1_Intron	NM_015946	NP_057030	Q9BRX2	PELO_HUMAN	pelota homolog	267					cell cycle|cell division|translation	cytoplasm|nucleus	endonuclease activity|metal ion binding|protein binding				0		Lung NSC(810;4.94e-05)|Breast(144;0.0848)				GCCGCCTTTCAGACACTAAAG	0.478													11	85					0	0	0.001855	0	0		G	52097317	G	G	52097317	2	3	1	1	0	0	0	0	0	0	0	1	11743	175	7	3		3	PELO	5	52097317	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	10947801	52097317	128817943	375	375											
ITGA2	3673	broad.mit.edu	37	chr5	52366056	52366056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatatggtagtaaatcaagCacagagttgccccgagcaca	15	7	10	9	1	1	1	1	0	0	1	1	3	1	1	2	1	3	5	2	1	6	4	rs148414859		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:52366056C>T	uc003joy.2	+	17	2344	c.2201C>T	c.(2200-2202)GCA>GTA	p.A734V	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Missense_Mutation_p.A658V|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	734	Extracellular (Potential).				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				GTAAATCAAGCACAGAGTTGC	0.408													13	90					0	0	0.003163	0	0		T	52366056	T	T	52366056	3	4	1	1	0	0	0	0	1	0	0	0	7891	710	25	2	2267	2	ITGA2	5	52366056	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	268739	52366056	128549204	376	376											
PDE4D	5144	broad.mit.edu	37	chr5	58270635	58270635	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagagtcttggagtcactGcagctagtgtcttcttccac	9	12	9	11	0	4	1	1	0	3	1	5	2	5	2	1	1	2	2	1	1	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:58270635G>A	uc003jsa.2	-	15	2458	c.2286C>T	c.(2284-2286)TGC>TGT	p.C762C	PDE4D_uc003jrx.2_Silent_p.C626C|PDE4D_uc003jry.2_Silent_p.C460C|PDE4D_uc003jrz.2_Silent_p.C698C|PDE4D_uc003jsb.2_Silent_p.C701C|PDE4D_uc003jrt.2_Silent_p.C460C|PDE4D_uc003jru.2_Silent_p.C538C|PDE4D_uc003jrv.2_Silent_p.C632C|PDE4D_uc003jrw.2_Silent_p.C640C|PDE4D_uc003jrs.2_Silent_p.C471C	NM_001104631	NP_001098101	Q08499	PDE4D_HUMAN	phosphodiesterase 4D isoform 1	762					signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)	TGGAGTCACTGCAGCTAGTGT	0.458													39	409					0	0	0.00361	0	0		A	58270635	A	A	58270635	2	1	1	1	0	0	0	0	0	0	0	1	11661	1311	46	2		2	PDE4D	5	58270635	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5904579	58270635	122644625	377	377											
DEPDC1B	55789	broad.mit.edu	37	chr5	59943279	59943279	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgcctggtgggagatcAttccattctggaaatttaat	11	13	11	6	0	2	1	1	0	1	1	3	4	3	2	2	3	1	0	2	3	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:59943279A>G	uc003jsh.2	-	3	469	c.396T>C	c.(394-396)AAT>AAC	p.N132N	DEPDC1B_uc011cqm.1_Silent_p.N132N|DEPDC1B_uc011cqn.1_Silent_p.N105N	NM_018369	NP_060839	Q8WUY9	DEP1B_HUMAN	DEP domain containing 1B isoform 1	132					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)	1		Lung NSC(810;0.000214)|Prostate(74;0.0147)|Breast(144;0.0991)|Ovarian(174;0.17)				GTGGGAGATCATTCCATTCTG	0.453													11	91					0	0	0.010729	0	0		G	59943279	G	G	59943279	2	3	1	1	0	0	0	0	0	0	0	1	4446	214	8	3		3	DEPDC1B	5	59943279	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1672644	59943279	120971981	378	378											
IPO11	51194	broad.mit.edu	37	chr5	61789842	61789842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggtataagccattgcgacGcagggtgatttggctcatcg	9	11	13	8	3	1	1	1	1	0	0	2	2	1	1	1	3	2	3	1	3	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:61789842G>A	uc003jtc.2	+	16	1671	c.1481G>A	c.(1480-1482)CGC>CAC	p.R494H	IPO11_uc011cqr.1_Missense_Mutation_p.R534H|IPO11_uc003jtb.1_Missense_Mutation_p.R494H	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	494	HEAT 5.					cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		CCATTGCGACGCAGGGTGATT	0.323													17	98					0	0	0.00499	0	0		A	61789842	A	A	61789842	3	1	1	1	0	0	0	0	1	0	0	0	7809	1087	38	1	1663	1	IPO11	5	61789842	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1846563	61789842	119125418	379	379											
HTR1A	3350	broad.mit.edu	37	chr5	63256782	63256782	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgctccccgactctccAttcacactcttcttgggctg	4	14	6	17	1	4	0	1	0	3	0	7	1	6	0	4	1	1	2	4	1	0	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:63256782A>G	uc011cqt.1	-	1	765	c.765T>C	c.(763-765)AAT>AAC	p.N255N		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	255	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	CCGACTCTCCATTCACACTCT	0.657													10	109					0	0	0.008291	0	0		G	63256782	G	G	63256782	2	3	1	1	0	0	0	0	0	0	0	1	7452	214	8	3		3	HTR1A	5	63256782	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1466940	63256782	117658478	380	380											
HTR1A	3350	broad.mit.edu	37	chr5	63257021	63257021	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcggtcttccggggtgcGccagcccagcatgggcggga	5	5	18	13	5	1	0	0	0	1	0	2	2	2	1	3	5	4	1	3	5	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:63257021G>T	uc011cqt.1	-	1	526	c.526C>A	c.(526-528)CGC>AGC	p.R176S		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	176	Helical; Name=4; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TCCGGGGTGCGCCAGCCCAGC	0.597													7	179					0.00307968	0.00317669	0.00308	1	0		T	63257021	T	T	63257021	3	4	1	1	0	0	0	0	1	0	0	0	7452	1087	38	5	745	5	HTR1A	5	63257021	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	239	63257021	117658239	381	381											
RNF180	285671	broad.mit.edu	37	chr5	63510254	63510254	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaatttttcattgggcagCattaatcagaggcttaataa	13	13	8	7	0	2	1	2	0	0	1	2	1	2	1	1	2	1	3	1	2	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:63510254C>T	uc003jti.2	+	4	1211	c.1101C>T	c.(1099-1101)AGC>AGT	p.S367S	RNF180_uc003jth.3_Silent_p.S367S|RNF180_uc010iws.2_Intron	NM_001113561	NP_001107033	Q86T96	RN180_HUMAN	ring finger protein 180 isoform 1	367	Interaction with ZIC2 (By similarity).|Cytoplasmic (Potential).					integral to membrane|nuclear envelope	zinc ion binding				0		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0848)|Colorectal(97;0.234)		Lung(70;0.114)		CATTGGGCAGCATTAATCAGA	0.488													12	100					0	0	0.010729	0	0		T	63510254	T	T	63510254	2	4	1	1	0	0	0	0	0	0	0	1	13489	709	25	2		2	RNF180	5	63510254	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	253233	63510254	117405006	382	382											
PPWD1	23398	broad.mit.edu	37	chr5	64881883	64881883	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgggaggagaaagcataTggggaggagaatttgaagat	15	8	17	1	0	0	4	0	1	0	3	0	8	0	6	0	5	1	2	0	5	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:64881883T>C	uc003jtv.3	+	10	1679	c.1672T>C	c.(1672-1674)TGG>CGG	p.W558R	PPWD1_uc011cqv.1_Missense_Mutation_p.W528R|PPWD1_uc011cqw.1_Missense_Mutation_p.W402R	NM_015342	NP_056157	Q96BP3	PPWD1_HUMAN	peptidylprolyl isomerase domain and WD repeat	558	PPIase cyclophilin-type.				protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00451)		AGAAAGCATATGGGGAGGAGA	0.413													25	157					0	0	0.005443	0	0		C	64881883	C	C	64881883	3	2	1	1	0	0	0	0	1	0	0	0	12436	1464	51	3	1710	3	PPWD1	5	64881883	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1371629	64881883	116033377	383	383											
C5orf44	80006	broad.mit.edu	37	chr5	64931134	64931134	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttttacttcacagtgatgcGgctgactaagcctactttat	9	16	7	9	1	1	2	1	2	0	0	1	2	1	2	1	1	4	1	1	1	4	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:64931134G>T	uc003jtz.3	+	2	383	c.53G>T	c.(52-54)CGG>CTG	p.R18L	C5orf44_uc003jua.3_Missense_Mutation_p.R18L|C5orf44_uc003juc.3_Missense_Mutation_p.R18L|C5orf44_uc010iwv.2_Missense_Mutation_p.R18L	NM_024941	NP_079217	A5PLN9	CE044_HUMAN	hypothetical protein LOC80006 isoform 2	18										ovary(1)	1						ACAGTGATGCGGCTGACTAAG	0.358													8	56					1.12685e-05	1.20863e-05	0.004482	1	0		T	64931134	T	T	64931134	3	4	1	1	0	0	0	0	1	0	0	0	2306	1116	39	5	59	5	C5orf44	5	64931134	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	49251	64931134	115984126	384	384											
POLK	51426	broad.mit.edu	37	chr5	74892828	74892828	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccagccttacttatgtgaAgtgaaaacaggccaagctct	12	9	9	11	1	1	2	0	2	1	0	1	2	1	2	3	1	4	1	3	1	6	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:74892828A>G	uc003kdw.2	+	13	2406	c.2310A>G	c.(2308-2310)GAA>GAG	p.E770E	POLK_uc003kdx.2_RNA|POLK_uc003kdy.2_RNA|POLK_uc010izq.2_Silent_p.E572E|POLK_uc003kec.2_Silent_p.E680E|POLK_uc010izr.2_RNA|POLK_uc010izs.2_RNA|POLK_uc003ked.2_Intron|POLK_uc003kee.2_Intron|POLK_uc003kef.2_Silent_p.E680E	NM_016218	NP_057302	Q9UBT6	POLK_HUMAN	DNA-directed DNA polymerase kappa	770					DNA replication|nucleotide-excision repair, DNA gap filling	nucleus	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|kidney(2)	4		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;2.9e-54)|all cancers(79;1.27e-42)		ACTTATGTGAAGTGAAAACAG	0.373								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					16	205					0	0	0.007413	0	0		G	74892828	G	G	74892828	2	3	1	1	0	0	0	0	0	0	0	1	12223	69	3	3		3	POLK	5	74892828	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	9961694	74892828	106022432	385	385											
AP3B1	8546	broad.mit.edu	37	chr5	77471506	77471506	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacatagaaactcttcagatAaggttcaaacatcccctgga	16	9	6	10	0	3	2	2	0	1	2	4	3	4	3	2	2	3	1	2	2	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:77471506A>G	uc003kfj.2	-	11	1236	c.1111T>C	c.(1111-1113)TAT>CAT	p.Y371H		NM_003664	NP_003655	O00203	AP3B1_HUMAN	adaptor-related protein complex 3, beta 1	371					endocytosis|melanosome organization	clathrin coated vesicle membrane|Golgi apparatus|membrane coat	protein phosphatase binding|protein transporter activity			central_nervous_system(1)	1		all_lung(232;0.000397)|Lung NSC(167;0.00106)|Ovarian(174;0.0105)|Prostate(461;0.215)		OV - Ovarian serous cystadenocarcinoma(54;8.23e-47)|Epithelial(54;2.74e-41)|all cancers(79;4.8e-36)		CTCTTCAGATAAGGTTCAAAC	0.318									Hermansky-Pudlak_syndrome				7	92					0	0	0.00308	0	0		G	77471506	G	G	77471506	3	3	1	1	0	0	0	0	1	0	0	0	744	362	13	3	2241	3	AP3B1	5	77471506	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2578678	77471506	103443754	386	386											
BHMT2	23743	broad.mit.edu	37	chr5	78375234	78375234	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgagagcaggatcaaatgTcatgcagacttttacctttt	11	14	8	8	0	2	2	2	1	0	2	2	4	2	3	1	1	3	2	1	1	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:78375234T>C	uc003kft.2	+	3	232	c.209T>C	c.(208-210)GTC>GCC	p.V70A	BHMT2_uc011cth.1_Missense_Mutation_p.V70A	NM_017614	NP_060084	Q9H2M3	BHMT2_HUMAN	betaine-homocysteine methyltransferase 2	70	Hcy-binding.				methionine biosynthetic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00063)|Lung NSC(167;0.00171)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;2.09e-45)|Epithelial(54;9.3e-41)|all cancers(79;4.09e-36)	L-Methionine(DB00134)	GGATCAAATGTCATGCAGACT	0.373													10	110					0	0	0.001368	0	0		C	78375234	C	C	78375234	3	2	1	1	0	0	0	0	1	0	0	0	1427	1667	58	3	219	3	BHMT2	5	78375234	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	903728	78375234	102540026	387	387											
THBS4	7060	broad.mit.edu	37	chr5	79378294	79378294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatagacaccacaatgcGtggaggccgacttggcgttt	10	8	11	12	3	0	1	0	0	0	1	0	3	0	2	3	3	1	1	3	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:79378294G>A	uc003kgh.2	+	22	3073	c.2750G>A	c.(2749-2751)CGT>CAT	p.R917H	uc003kgi.3_RNA	NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	917	TSP C-terminal.				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		ACCACAATGCGTGGAGGCCGA	0.512													24	168					0	0	0.002299	0	0		A	79378294	A	A	79378294	3	1	1	1	0	0	0	0	1	0	0	0	15881	1145	40	1	2832	1	THBS4	5	79378294	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1003060	79378294	101536966	388	388											
VCAN	1462	broad.mit.edu	37	chr5	82835480	82835480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaatctataccagctgaaCatgtagtcacagattcacca	14	10	6	11	0	3	3	2	2	1	1	3	3	3	3	2	0	3	2	2	0	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:82835480C>T	uc003kii.3	+	8	7014	c.6658C>T	c.(6658-6660)CAT>TAT	p.H2220Y	VCAN_uc003kij.3_Missense_Mutation_p.H1233Y|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.H884Y	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2220	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ACCAGCTGAACATGTAGTCAC	0.373													29	209					0	0	0.009535	0	0		T	82835480	T	T	82835480	3	4	1	1	0	0	0	0	1	0	0	0	17164	478	17	4	6684	4	VCAN	5	82835480	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3457186	82835480	98079780	389	389											
VCAN	1462	broad.mit.edu	37	chr5	82876243	82876243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagccggaggtggcaggagtCgaggcgctgatccctaaaat	10	6	16	9	3	0	1	0	1	0	0	2	5	1	3	2	5	1	2	2	5	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:82876243C>T	uc003kii.3	+	15	10537	c.10181C>T	c.(10180-10182)TCG>TTG	p.S3394L	VCAN_uc003kij.3_Missense_Mutation_p.S2407L|VCAN_uc010jau.2_Missense_Mutation_p.S1640L|VCAN_uc003kik.3_Missense_Mutation_p.S653L|VCAN_uc003kil.3_Missense_Mutation_p.S2058L	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3394					cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TGGCAGGAGTCGAGGCGCTGA	0.408													5	81					0	0	0.000602	0	0		T	82876243	T	T	82876243	3	4	1	1	0	0	0	0	1	0	0	0	17164	893	31	1	10235	1	VCAN	5	82876243	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	40763	82876243	98039017	390	390											
NR2F1	7025	broad.mit.edu	37	chr5	92923860	92923860	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcagcgccgtcgagtgggCccgcaacatccccttcttcc	5	9	9	18	4	2	0	1	0	1	0	5	1	4	0	5	1	2	1	5	1	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:92923860C>G	uc003kkj.2	+	2	2388	c.701C>G	c.(700-702)GCC>GGC	p.A234G		NM_005654	NP_005645	P10589	COT1_HUMAN	nuclear receptor subfamily 2, group F, member 1	234					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			urinary_tract(1)|ovary(1)|lung(1)	3		all_cancers(142;1.62e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0416)|all cancers(79;9.57e-18)		GTCGAGTGGGCCCGCAACATC	0.642													5	92					0	0	0.001168	0	0		G	92923860	G	G	92923860	3	3	1	1	0	0	0	0	1	0	0	0	10646	739	26	5	707	5	NR2F1	5	92923860	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	10047617	92923860	87991400	391	391											
TTC37	9652	broad.mit.edu	37	chr5	94863727	94863727	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaagtctacctgatcaagcGtacgaattgcttcctctgaa	12	11	7	11	2	3	2	1	2	2	0	4	3	4	2	2	0	4	2	2	0	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:94863727G>A	uc003klb.2	-	13	1394	c.1124C>T	c.(1123-1125)ACG>ATG	p.T375M	TTC37_uc010jbf.1_Missense_Mutation_p.T327M	NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	375							binding			ovary(3)|pancreas(1)	4						CTGATCAAGCGTACGAATTGC	0.373													8	105					0	0	0.00308	0	0		A	94863727	A	A	94863727	3	1	1	1	0	0	0	0	1	0	0	0	16731	1145	40	1	3694	1	TTC37	5	94863727	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1939867	94863727	86051533	392	392											
SLCO6A1	133482	broad.mit.edu	37	chr5	101834249	101834249	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgaatgttattgcaacaCtcacagcaggtgctgactaa	13	9	9	10	1	1	1	1	1	0	0	1	2	1	1	0	1	5	4	0	1	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:101834249C>T	uc003knn.2	-	1	472	c.300G>A	c.(298-300)GAG>GAA	p.E100E	SLCO6A1_uc003kno.2_Silent_p.E100E|SLCO6A1_uc003knp.2_Silent_p.E100E|SLCO6A1_uc003knq.2_Silent_p.E100E	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	100	Cytoplasmic (Potential).|Cys-rich.					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		TATTGCAACACTCACAGCAGG	0.517													12	225					0	0	0.010729	0	0		T	101834249	T	T	101834249	2	4	1	1	0	0	0	0	0	0	0	1	14757	564	20	4		4	SLCO6A1	5	101834249	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	6970522	101834249	79081011	393	393											
TSLP	85480	broad.mit.edu	37	chr5	110407479	110407479	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggactggcaatgagaGgcaaaacctggtgcttgagc	10	8	14	9	0	0	2	0	2	0	1	0	4	0	3	2	4	3	3	2	4	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:110407479G>T	uc003kpb.2	+	1	90	c.-109G>T	c.(-111--107)GAGGC>GATGC		TSLP_uc003kpa.2_Intron|TSLP_uc010jbt.1_5'Flank	NM_033035	NP_149024	Q969D9	TSLP_HUMAN	thymic stromal lymphopoietin isoform 1							extracellular space	cytokine activity				0		all_cancers(142;2.72e-05)|all_epithelial(76;4.39e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0417)|Ovarian(225;0.0443)|Colorectal(57;0.0464)|all_lung(232;0.0507)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.24e-08)|Epithelial(69;1.54e-07)|all cancers(49;1.73e-05)|COAD - Colon adenocarcinoma(37;0.109)		GGCAATGAGAGGCAAAACCTG	0.512													9	72					0.000274275	0.000286633	0.004482	1	0		T	110407479	T	T	110407479	1	4	1	1	0	0	0	0	0	0	0	0	16654	1015	35	5		5	TSLP	5	110407479	Translation_Start_Site	SNP	G	TCGA-B7-5816-01A-21D-1600-08	8573230	110407479	70507781	394	394											
CAMK4	814	broad.mit.edu	37	chr5	110819980	110819980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agatataaatgctgaagaggCccccaaaatggtgcccaagg	15	6	11	9	0	0	3	0	1	0	2	0	3	0	3	3	3	2	1	3	3	7	2	rs147516085	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:110819980C>T	uc011cvj.1	+	12	1337	c.1238C>T	c.(1237-1239)GCC>GTC	p.A413V	CAMK4_uc003kpf.2_Missense_Mutation_p.A413V|CAMK4_uc010jbv.2_Missense_Mutation_p.A216V|CAMK4_uc003kpg.2_Missense_Mutation_p.A104V	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	413					activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		GCTGAAGAGGCCCCCAAAATG	0.552													6	76					0	0	0.001168	0	0		T	110819980	T	T	110819980	3	4	1	1	0	0	0	0	1	0	0	0	2608	739	26	2	1280	2	CAMK4	5	110819980	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	412501	110819980	70095280	395	395											
DCP2	167227	broad.mit.edu	37	chr5	112349031	112349031	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacagatgctgtatatgaCttgcctagctccagtgaaga	13	11	9	8	0	0	4	0	2	0	2	1	4	1	4	2	0	4	3	2	0	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:112349031C>T	uc003kqh.2	+	11	1311	c.1113C>T	c.(1111-1113)GAC>GAT	p.D371D	DCP2_uc011cwa.1_Silent_p.D160D|DCP2_uc010jcc.2_Silent_p.D242D	NM_152624	NP_689837	Q8IU60	DCP2_HUMAN	DCP2 decapping enzyme	371					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasmic mRNA processing body|cytosol|nucleus|RNA-induced silencing complex	exoribonuclease activity, producing 5'-phosphomonoesters|manganese ion binding|protein binding|protein binding|RNA binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		OV - Ovarian serous cystadenocarcinoma(64;6.98e-08)|Epithelial(69;7.87e-08)|all cancers(49;1.06e-05)|COAD - Colon adenocarcinoma(37;0.0123)|Colorectal(14;0.0171)		CTGTATATGACTTGCCTAGCT	0.393													16	239					0	0	0.003163	0	0		T	112349031	T	T	112349031	2	4	1	1	0	0	0	0	0	0	0	1	4303	564	20	4		4	DCP2	5	112349031	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1529051	112349031	68566229	396	396											
MCC	4163	broad.mit.edu	37	chr5	112676242	112676242	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagctctagatagcttcCtcctacagagttgccaatgt	9	11	9	12	0	1	2	0	0	1	2	3	2	3	2	4	1	4	3	4	1	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:112676242C>A	uc003kql.3	-	3	1017	c.601G>T	c.(601-603)GGA>TGA	p.G201*	MCC_uc003kqk.3_RNA	NM_001085377	NP_001078846	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 1	Error:Variant_position_missing_in_P23508_after_alignment					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		AGATAGCTTCCTCCTACAGAG	0.468													11	142					1.08611e-07	1.18782e-07	0.010729	1	0		A	112676242	A	A	112676242	4	1	1	1	0	0	0	0	0	1	0	0	9391	690	24	5	2587	5	MCC	5	112676242	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	327211	112676242	68239018	397	397											
PGGT1B	5229	broad.mit.edu	37	chr5	114577261	114577261	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggattgaacggaatacccAggtatgaagagcctcggaaa	15	7	12	7	2	0	3	0	2	0	1	1	6	0	6	2	4	3	1	2	4	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:114577261A>G	uc003kqw.3	-	3	323	c.302T>C	c.(301-303)CTG>CCG	p.L101P	PGGT1B_uc003kqx.3_5'UTR|PGGT1B_uc010jch.2_Missense_Mutation_p.L101P	NM_005023	NP_005014	P53609	PGTB1_HUMAN	geranylgeranyltransferase type 1 beta	101					protein geranylgeranylation	CAAX-protein geranylgeranyltransferase complex	CAAX-protein geranylgeranyltransferase activity				0		all_cancers(142;0.000523)|all_epithelial(76;6.45e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		Epithelial(69;2.95e-08)|OV - Ovarian serous cystadenocarcinoma(64;4.98e-08)|all cancers(49;3.1e-06)	Pravastatin(DB00175)	CGGAATACCCAGGTATGAAGA	0.343													5	86					0	0	0.001984	0	0		G	114577261	G	G	114577261	3	3	1	1	0	0	0	0	1	0	0	0	11808	188	7	3	859	3	PGGT1B	5	114577261	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1901019	114577261	66337999	398	398											
FEM1C	56929	broad.mit.edu	37	chr5	114860032	114860032	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagggaaacaaaagtctcTagcttttctgggatatgccc	12	11	10	8	0	2	1	0	1	2	0	3	3	2	3	1	2	3	1	1	2	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:114860032T>C	uc003krb.1	-	3	2389	c.1827A>G	c.(1825-1827)CTA>CTG	p.L609L		NM_020177	NP_064562	Q96JP0	FEM1C_HUMAN	feminization 1 homolog a	609						cytoplasm				breast(2)|ovary(1)	3		all_cancers(142;0.000575)|all_epithelial(76;9.98e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;2.5e-07)|Epithelial(69;2.66e-07)|all cancers(49;1.39e-05)		CAAAAGTCTCTAGCTTTTCTG	0.353													11	147					0	0	0.010729	0	0		C	114860032	C	C	114860032	2	2	1	1	0	0	0	0	0	0	0	1	5825	1509	53	3		3	FEM1C	5	114860032	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	282771	114860032	66055228	399	399											
AQPEP	206338	broad.mit.edu	37	chr5	115358121	115358121	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattgattaatctaatataTacaatagggagaaccgtaac	17	12	6	6	1	2	2	1	1	1	1	2	3	2	2	1	1	3	1	1	1	9	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:115358121T>C	uc003kro.2	+	19	2954	c.2790T>C	c.(2788-2790)TAT>TAC	p.Y930Y	AQPEP_uc003krp.2_RNA|AQPEP_uc003krq.2_RNA|AQPEP_uc003krr.2_RNA|AQPEP_uc003krs.2_RNA	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	930	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						ATCTAATATATACAATAGGGA	0.284													32	408					0	0	0.00623	0	0		C	115358121	C	C	115358121	2	2	1	1	0	0	0	0	0	0	0	1	834	1413	49	3		3	AQPEP	5	115358121	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	498089	115358121	65557139	400	400											
TNFAIP8	25816	broad.mit.edu	37	chr5	118728727	118728727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caagacagtcatcaagctggCcattctttataggaataatc	14	11	7	9	0	3	1	2	0	1	1	4	2	3	2	1	2	1	1	1	2	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:118728727C>T	uc003ksh.2	+	3	936	c.248C>T	c.(247-249)GCC>GTC	p.A83V	TNFAIP8_uc003ksf.1_Missense_Mutation_p.P61S|TNFAIP8_uc003ksg.2_Missense_Mutation_p.A73V|TNFAIP8_uc011cwf.1_Missense_Mutation_p.A77V|TNFAIP8_uc003ksi.2_Missense_Mutation_p.A83V	NM_014350	NP_055165	O95379	TFIP8_HUMAN	tumor necrosis factor, alpha-induced protein 8	83	Potential.				anti-apoptosis|apoptosis|negative regulation of anti-apoptosis	cytoplasm	caspase inhibitor activity|protein binding			ovary(1)	1		all_cancers(142;0.0317)|Prostate(80;0.111)|Breast(839;0.231)		Epithelial(69;4.63e-83)|OV - Ovarian serous cystadenocarcinoma(64;1.39e-82)|all cancers(49;4.88e-75)|GBM - Glioblastoma multiforme(465;0.00338)|BRCA - Breast invasive adenocarcinoma(61;0.0148)|COAD - Colon adenocarcinoma(49;0.0829)		ATCAAGCTGGCCATTCTTTAT	0.423													6	38					0	0	0.001168	0	0		T	118728727	T	T	118728727	3	4	1	1	0	0	0	0	1	0	0	0	16301	739	26	2	259	2	TNFAIP8	5	118728727	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3370606	118728727	62186533	401	401											
SNX2	6643	broad.mit.edu	37	chr5	122139221	122139221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtgaaaagaagattcagcGactttcttggtttgcacagc	12	11	10	8	1	2	3	1	1	1	2	2	4	2	3	0	1	3	2	0	1	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:122139221G>A	uc003kte.2	+	6	605	c.556G>A	c.(556-558)GAC>AAC	p.D186N	SNX2_uc011cwn.1_Missense_Mutation_p.D69N	NM_003100	NP_003091	O60749	SNX2_HUMAN	sorting nexin 2	186	PX.				cell communication|endocytosis|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding|protein transporter activity			kidney(1)	1		all_cancers(142;1.14e-44)|all_lung(232;1.03e-13)|Lung NSC(810;2.5e-13)|Breast(839;0.000812)|Myeloproliferative disorder(839;0.0122)|Prostate(80;0.0235)|all_hematologic(541;0.0592)|all_neural(839;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	all cancers(49;2.13e-24)|Epithelial(69;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(64;5.6e-11)|BRCA - Breast invasive adenocarcinoma(61;0.00013)|GBM - Glioblastoma multiforme(465;0.000357)|COAD - Colon adenocarcinoma(49;0.000887)|Lung(113;0.0109)		AAGATTCAGCGACTTTCTTGG	0.353													15	129					0	0	0.003163	0	0		A	122139221	A	A	122139221	3	1	1	1	0	0	0	0	1	0	0	0	14916	1058	37	1	578	1	SNX2	5	122139221	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3410494	122139221	58776039	402	402											
LMNB1	4001	broad.mit.edu	37	chr5	126156790	126156790	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgaagaaattgatgttgAtgggaaatttatccgcttga	13	13	10	5	2	0	4	0	3	0	1	2	6	1	5	1	1	0	2	1	1	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:126156790A>G	uc003kud.1	+	7	1717	c.1349A>G	c.(1348-1350)GAT>GGT	p.D450G	LMNB1_uc010jdb.1_RNA|LMNB1_uc011cxb.1_Missense_Mutation_p.D240G	NM_005573	NP_005564	P20700	LMNB1_HUMAN	lamin B1	450	Tail.				cellular component disassembly involved in apoptosis	lamin filament|nuclear inner membrane	protein binding|structural molecule activity			kidney(1)|central_nervous_system(1)	2		all_cancers(142;0.103)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.033)|OV - Ovarian serous cystadenocarcinoma(64;0.0398)|all cancers(49;0.0903)		ATTGATGTTGATGGGAAATTT	0.403													18	177					0	0	0.006122	0	0		G	126156790	G	G	126156790	3	3	1	1	0	0	0	0	1	0	0	0	8866	333	12	3	1375	3	LMNB1	5	126156790	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	4017569	126156790	54758470	403	403											
PRRC1	133619	broad.mit.edu	37	chr5	126860552	126860552	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatgacattacaaggggaCatgctgggagagctccccag	11	8	12	10	0	0	2	0	1	0	1	1	4	1	3	2	3	3	2	2	3	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:126860552C>G	uc003kuk.2	+	3	613	c.433C>G	c.(433-435)CAT>GAT	p.H145D	PRRC1_uc003kuj.3_Missense_Mutation_p.H145D	NM_130809	NP_570721	Q96M27	PRRC1_HUMAN	proline-rich coiled-coil 1	145						Golgi apparatus					0		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0851)|Epithelial(69;0.113)		TACAAGGGGACATGCTGGGAG	0.448													21	314					0	0	0.010504	0	0		G	126860552	G	G	126860552	3	3	1	1	0	0	0	0	1	0	0	0	12626	478	17	5	439	5	PRRC1	5	126860552	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	703762	126860552	54054708	404	404											
SLC12A2	6558	broad.mit.edu	37	chr5	127483327	127483327	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttaaggtaatgagtatggTgtcaggatttacaccactaa	14	13	9	5	0	1	1	1	1	0	0	1	2	1	2	1	3	1	2	1	3	5	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:127483327T>C	uc003kus.2	+	11	1951	c.1787T>C	c.(1786-1788)GTG>GCG	p.V596A	SLC12A2_uc010jdf.2_RNA|SLC12A2_uc010jdg.2_Missense_Mutation_p.V596A	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12	596	Helical; (Potential).				potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	ATGAGTATGGTGTCAGGATTT	0.338													21	263					0	0	0.012319	0	0		C	127483327	C	C	127483327	3	2	1	1	0	0	0	0	1	0	0	0	14408	1696	59	3	1829	3	SLC12A2	5	127483327	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	622775	127483327	53431933	405	405											
P4HA2	8974	broad.mit.edu	37	chr5	131543466	131543466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgacatcgtagtacctgaCgatgtgcgggctgtcccact	8	10	11	12	3	0	2	0	2	0	0	2	3	1	2	2	1	2	3	2	1	2	2	rs148040234		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:131543466C>T	uc003kwh.2	-	8	1579	c.1015G>A	c.(1015-1017)GTC>ATC	p.V339I	P4HA2_uc003kwg.2_Missense_Mutation_p.V339I|P4HA2_uc003kwi.2_Missense_Mutation_p.V339I|P4HA2_uc003kwk.2_Missense_Mutation_p.V339I|P4HA2_uc003kwl.2_Missense_Mutation_p.V339I|P4HA2_uc003kwj.2_Missense_Mutation_p.V339I	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	339						endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	TAGTACCTGACGATGTGCGGG	0.527													28	401					0	0	0.007291	0	0		T	131543466	T	T	131543466	3	4	1	1	0	0	0	0	1	0	0	0	11376	536	19	1	688	1	P4HA2	5	131543466	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4060139	131543466	49371794	406	406											
C5orf15	56951	broad.mit.edu	37	chr5	133292616	133292616	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaacattctgatctaggcgAtggtattccactgttttgga	9	16	9	7	1	2	1	0	1	2	0	3	3	3	2	1	3	1	2	1	3	3	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:133292616A>G	uc003kyo.2	-	3	863	c.732T>C	c.(730-732)CAT>CAC	p.H244H		NM_020199	NP_064584	Q8NC54	KCT2_HUMAN	keratinocytes associated transmembrane protein 2	244	Cytoplasmic (Potential).					integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00806)|Kidney(363;0.02)			GATCTAGGCGATGGTATTCCA	0.343													21	248					0	0	0.00278	0	0		G	133292616	G	G	133292616	2	3	1	1	0	0	0	0	0	0	0	1	2286	330	12	3		3	C5orf15	5	133292616	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1749150	133292616	47622644	407	407											
PHF15	23338	broad.mit.edu	37	chr5	133914618	133914618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccgtccagccctgcagccGgggactgtcccatcctagcc	5	7	11	18	2	0	0	0	0	0	0	3	1	3	1	7	2	5	1	7	2	1	1	rs150023113		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:133914618G>A	uc003kzo.1	+	11	2163	c.1984G>A	c.(1984-1986)GGG>AGG	p.G662R	PHF15_uc011cxt.1_Missense_Mutation_p.G706R|PHF15_uc003kzk.2_Missense_Mutation_p.G722R|PHF15_uc003kzm.2_Missense_Mutation_p.G663R|PHF15_uc003kzn.2_3'UTR	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	662	Pro-rich.				histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CCCTGCAGCCGGGGACTGTCC	0.657													14	150					0	0	0.00245	0	0		A	133914618	A	A	133914618	3	1	1	1	0	0	0	0	1	0	0	0	11845	1116	39	1	2022	1	PHF15	5	133914618	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	622002	133914618	47000642	408	408											
DDX46	9879	broad.mit.edu	37	chr5	134109426	134109426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaagaagaaatgagaaagcGaaaagaaagagtagaaaaat	25	3	12	1	1	0	6	0	1	0	6	0	9	0	7	0	1	1	1	0	1	10	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:134109426G>A	uc003kzw.2	+	5	656	c.488G>A	c.(487-489)CGA>CAA	p.R163Q	DDX46_uc003kzv.1_RNA	NM_014829	NP_055644	Q7L014	DDX46_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46	163	Potential.				mRNA processing|RNA splicing	Cajal body|nuclear speck	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ATGAGAAAGCGAAAAGAAAGA	0.353													3	73					0	0	0.009096	0	0		A	134109426	A	A	134109426	3	1	1	1	0	0	0	0	1	0	0	0	4367	1058	37	1	506	1	DDX46	5	134109426	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	194808	134109426	46805834	409	409											
TRPC7	57113	broad.mit.edu	37	chr5	135583370	135583370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagcacgacggctatcgCgtagagcccttccgatatga	9	8	11	13	5	1	2	1	1	0	1	3	4	2	2	2	1	2	4	2	1	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:135583370C>T	uc003lbn.1	-	6	1633	c.1630G>A	c.(1630-1632)GCG>ACG	p.A544T	TRPC7_uc010jef.1_Missense_Mutation_p.A481T|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.A475T|TRPC7_uc010jei.1_Missense_Mutation_p.A420T|TRPC7_uc010jej.1_Missense_Mutation_p.A96T	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	545	Helical; (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ACGGCTATCGCGTAGAGCCCT	0.522													19	121					0	0	0.010504	0	0		T	135583370	T	T	135583370	3	4	1	1	0	0	0	0	1	0	0	0	16610	768	27	1	979	1	TRPC7	5	135583370	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1473944	135583370	45331890	410	410											
SPOCK1	6695	broad.mit.edu	37	chr5	136602745	136602745	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtttctgaaataatcatcCtatataaggaaaaaatagaa	20	11	5	5	0	2	2	1	1	1	1	3	3	3	3	1	1	0	1	1	1	10	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:136602745C>A	uc003lbo.2	-	2	378	c.187_splice	c.e2-1	p.D63_splice	SPOCK1_uc003lbp.2_Splice_Site_p.D63_splice	NM_004598	NP_004589	Q08629	TICN1_HUMAN	sparc/osteonectin, cwcv and kazal-like domains						cell adhesion|cell proliferation|cellular component movement|nervous system development|signal transduction	proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AATAATCATCCTATATAAGGA	0.368													19	229					3.32936e-07	3.62926e-07	0.006122	1	0		A	136602745	A	A	136602745	5	1	1	1	0	0	0	0	0	0	1	0	15104	695	24	5	1169	5	SPOCK1	5	136602745	Splice_Site	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1019375	136602745	44312515	411	411											
CTNNA1	1495	broad.mit.edu	37	chr5	138253547	138253547	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgttctcacagatgctgtCgatgacattacttccattga	9	14	8	10	2	1	3	1	2	1	1	4	4	2	3	1	0	2	2	1	0	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:138253547C>T	uc003ldh.2	+	11	1601	c.1506C>T	c.(1504-1506)GTC>GTT	p.V502V	CTNNA1_uc011cyx.1_Silent_p.V399V|CTNNA1_uc011cyy.1_Silent_p.V379V|CTNNA1_uc003ldi.2_Silent_p.V200V|CTNNA1_uc003ldj.2_Silent_p.V502V|CTNNA1_uc003ldl.2_Silent_p.V132V	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	502					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CAGATGCTGTCGATGACATTA	0.408													50	679					0	0	0.00361	0	0		T	138253547	T	T	138253547	2	4	1	1	0	0	0	0	0	0	0	1	4015	871	31	1		1	CTNNA1	5	138253547	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1650802	138253547	42661713	412	412											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139909134	139909134	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaaataagtctttgccAcctacatttggcccagccac	11	9	6	15	0	1	0	0	0	1	0	1	0	1	0	5	1	4	1	5	1	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:139909134A>G	uc003lfs.1	+	29	6727	c.6603A>G	c.(6601-6603)CCA>CCG	p.P2201P	ANKHD1_uc003lfr.2_Silent_p.P2201P|ANKHD1-EIF4EBP3_uc011czh.1_Silent_p.P940P|ANKHD1_uc003lfw.2_Silent_p.P839P|ANKHD1_uc010jfl.2_Silent_p.P636P|ANKHD1-EIF4EBP3_uc003lfx.1_Silent_p.P338P	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	2201						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTCTTTGCCACCTACATTTG	0.493													14	278					0	0	0.001855	0	0		G	139909134	G	G	139909134	2	3	1	1	0	0	0	0	0	0	0	1	629	146	6	3		3	ANKHD1-EIF4EBP3	5	139909134	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1655587	139909134	41006126	413	413											
HARS2	23438	broad.mit.edu	37	chr5	140076918	140076918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcatgtttgaccccaaggGccacaaggtgccatgtgtgg	8	8	15	10	0	0	1	0	1	0	0	0	1	0	1	4	4	1	2	4	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140076918G>A	uc003lgx.2	+	10	1340	c.1124G>A	c.(1123-1125)GGC>GAC	p.G375D	HARS2_uc011czr.1_Missense_Mutation_p.G350D|HARS2_uc011czs.1_Missense_Mutation_p.G231D|HARS2_uc011czt.1_Missense_Mutation_p.G203D|HARS2_uc011czu.1_Missense_Mutation_p.G201D	NM_012208	NP_036340	P49590	SYHM_HUMAN	histidyl-tRNA synthetase 2 precursor	375					histidyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|histidine-tRNA ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACCCCAAGGGCCACAAGGTG	0.587													7	117					0	0	0.001984	0	0		A	140076918	A	A	140076918	3	1	1	1	0	0	0	0	1	0	0	0	6976	1203	42	2	1162	2	HARS2	5	140076918	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	167784	140076918	40838342	414	414											
PCDHA1	56147	broad.mit.edu	37	chr5	140166090	140166090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcgtccaaaacacacaGggaccttctggaggtaaatc	12	7	12	10	1	1	0	0	0	1	0	3	2	2	2	2	5	1	1	2	5	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140166090G>A	uc003lhb.2	+	1	215	c.215G>A	c.(214-216)AGG>AAG	p.R72K	PCDHA1_uc003lha.2_Missense_Mutation_p.R72K|PCDHA1_uc003lgz.2_Missense_Mutation_p.R72K	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	72	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAACACACAGGGACCTTCTG	0.597													19	216					0	0	0.006122	0	0		A	140166090	A	A	140166090	3	1	1	1	0	0	0	0	1	0	0	0	11538	1000	35	4	217	4	PCDHA1	5	140166090	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	89172	140166090	40749170	415	415											
PCDHA2	56146	broad.mit.edu	37	chr5	140174888	140174888	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtgatcgtggacaggccGctgcaggttttccatgtgga	7	10	16	8	2	0	1	0	1	0	0	2	4	1	3	2	5	1	3	2	5	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140174888G>A	uc003lhd.2	+	1	445	c.339G>A	c.(337-339)CCG>CCA	p.P113P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.P113P|PCDHA2_uc011czy.1_Silent_p.P113P	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	113	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGACAGGCCGCTGCAGGTTT	0.527													11	201					0	0	0.001855	0	0		A	140174888	A	A	140174888	2	1	1	1	0	0	0	0	0	0	0	1	11543	1074	38	1		1	PCDHA2	5	140174888	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	8798	140174888	40740372	416	416											
PCDHA8	56140	broad.mit.edu	37	chr5	140222556	140222556	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctgggcagcaacgtgacGctgcaggtgttcgtgctgga	6	9	15	11	3	1	1	0	1	1	0	2	2	1	2	1	3	4	6	1	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140222556G>A	uc003lhs.2	+	1	1650	c.1650G>A	c.(1648-1650)ACG>ACA	p.T550T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.T550T	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	550	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAACGTGACGCTGCAGGTGT	0.692													6	142					0	0	0.00308	0	0		A	140222556	A	A	140222556	2	1	1	1	0	0	0	0	0	0	0	1	11549	1074	38	1		1	PCDHA8	5	140222556	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	47668	140222556	40692704	417	417											
PCDHA11	56138	broad.mit.edu	37	chr5	140250228	140250228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtcggtgcacgcggagagcGgcaaggtgtacgcgctgcag	7	6	18	10	6	0	1	0	0	0	1	1	2	0	1	0	4	4	5	0	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140250228G>A	uc003lia.2	+	1	2398	c.1540G>A	c.(1540-1542)GGC>AGC	p.G514S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.G514S	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	514	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGGAGAGCGGCAAGGTGTA	0.697													10	111					0	0	0.010729	0	0		A	140250228	A	A	140250228	3	1	1	1	0	0	0	0	1	0	0	0	11540	1116	39	1	1542	1	PCDHA11	5	140250228	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	27672	140250228	40665032	418	418											
PCDHA13	56136	broad.mit.edu	37	chr5	140263678	140263678	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctacaatgcgtggctttcgTatgaattgcagctggcggcg	7	11	14	9	4	0	1	0	1	0	0	1	1	0	1	0	3	4	5	0	3	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140263678T>C	uc003lif.2	+	1	1825	c.1825T>C	c.(1825-1827)TAT>CAT	p.Y609H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.Y609H|PCDHA13_uc003lid.2_Missense_Mutation_p.Y609H	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	609	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGCTTTCGTATGAATTGCA	0.682													4	81					0	0	0.004482	0	0		C	140263678	C	C	140263678	3	2	1	1	0	0	0	0	1	0	0	0	11542	1638	57	3	1827	3	PCDHA13	5	140263678	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	13450	140263678	40651582	419	419											
PCDHAC1	56135	broad.mit.edu	37	chr5	140307318	140307318	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagcacgcaagcagagctgCgacaccgctttcacgtgcac	11	5	10	15	4	1	1	1	0	0	1	1	2	1	1	1	0	5	6	1	0	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140307318C>T	uc003lih.2	+	1	1017	c.841C>T	c.(841-843)CGA>TGA	p.R281*	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Nonsense_Mutation_p.R281*	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	281	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCAGAGCTGCGACACCGCTT	0.542													6	100					0	0	0.004482	0	0		T	140307318	T	T	140307318	4	4	1	1	0	0	0	0	0	1	0	0	11551	760	27	1	843	1	PCDHAC1	5	140307318	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	43640	140307318	40607942	420	420											
PCDHB2	56133	broad.mit.edu	37	chr5	140474700	140474700	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgtgtcctacctttccAggtgttactagaaaatccct	8	13	7	13	0	0	1	0	0	0	1	3	1	3	1	5	1	2	1	5	1	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140474700A>C	uc003lil.2	+	1	464	c.326A>C	c.(325-327)CAG>CCG	p.Q109P	PCDHB2_uc003lim.1_Intron	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	109	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTACCTTTCCAGGTGTTACTA	0.473													11	117					0	0	0.001368	0	0		C	140474700	C	C	140474700	3	2	1	1	0	0	0	0	1	0	0	0	11561	188	7	5	328	5	PCDHB2	5	140474700	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	167382	140474700	40440560	421	421											
PCDHB3	56132	broad.mit.edu	37	chr5	140481206	140481206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatcgaggccaaggatggcGgaggcctatccggaaagtct	11	6	14	10	3	1	0	0	0	1	0	3	4	2	3	3	6	0	0	3	6	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140481206G>A	uc003lio.2	+	1	973	c.973G>A	c.(973-975)GGA>AGA	p.G325R	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	325	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAAGGATGGCGGAGGCCTATC	0.438													15	121					0	0	0.00245	0	0		A	140481206	A	A	140481206	3	1	1	1	0	0	0	0	1	0	0	0	11562	1117	39	1	975	1	PCDHB3	5	140481206	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	6506	140481206	40434054	422	422											
PCDHB3	56132	broad.mit.edu	37	chr5	140482261	140482261	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacctgcctctcccggaggcGgcaccggcccaggcccaggc	5	4	13	19	3	1	0	0	0	1	0	2	1	1	1	6	6	2	1	6	6	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140482261G>A	uc003lio.2	+	1	2028	c.2028G>A	c.(2026-2028)GCG>GCA	p.A676A	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	676	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCCGGAGGCGGCACCGGCCC	0.667													8	164					0	0	0.006214	0	0		A	140482261	A	A	140482261	2	1	1	1	0	0	0	0	0	0	0	1	11562	1103	39	1		1	PCDHB3	5	140482261	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1055	140482261	40432999	423	423											
PCDHB3	56132	broad.mit.edu	37	chr5	140482556	140482556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccaattatccccaacttcGttgctcagggtgcagagagg	10	9	11	11	1	1	1	1	0	0	1	3	2	2	1	3	2	4	3	3	2	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140482556G>A	uc003lio.2	+	1	2323	c.2323G>A	c.(2323-2325)GTT>ATT	p.V775I	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	775	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCCCAACTTCGTTGCTCAGGG	0.502													17	215					0	0	0.003954	0	0		A	140482556	A	A	140482556	3	1	1	1	0	0	0	0	1	0	0	0	11562	1145	40	1	2325	1	PCDHB3	5	140482556	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	295	140482556	40432704	424	424											
PCDHB5	26167	broad.mit.edu	37	chr5	140516493	140516493	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctactcgctgctgccgcccCagaacccacacctgcgcctc	6	6	7	22	3	0	1	0	0	0	1	2	1	0	1	7	0	5	2	7	0	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140516493C>A	uc003liq.2	+	1	1694	c.1477C>A	c.(1477-1479)CAG>AAG	p.Q493K		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	493	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTGCCGCCCCAGAACCCACA	0.657													16	116					0.00074312	0.000770814	0.006122	1	0		A	140516493	A	A	140516493	3	1	1	1	0	0	0	0	1	0	0	0	11564	595	21	5	1479	5	PCDHB5	5	140516493	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	33937	140516493	40398767	425	425											
PCDHB6	56130	broad.mit.edu	37	chr5	140531173	140531173	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctccgacgtcaatgacaaCgtccccgccttcacccaaac	10	7	6	18	4	3	1	2	1	1	0	5	2	4	1	5	0	2	0	5	0	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140531173C>T	uc003lir.2	+	1	1335	c.1335C>T	c.(1333-1335)AAC>AAT	p.N445N	PCDHB6_uc011dah.1_Silent_p.N309N	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	445	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCAATGACAACGTCCCCGCCT	0.577													69	97					0	0	0.00361	0	0		T	140531173	T	T	140531173	2	4	1	1	0	0	0	0	0	0	0	1	11565	535	19	1		1	PCDHB6	5	140531173	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	14680	140531173	40384087	426	426											
PCDHB7	56129	broad.mit.edu	37	chr5	140553418	140553418	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggaaaatgcactgtagtGgttgatgtaacagatataaa	15	12	10	4	0	1	2	0	1	1	1	1	3	1	3	0	2	2	4	0	2	7	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140553418G>T	uc003lit.2	+	1	1176	c.1002G>T	c.(1000-1002)GTG>GTT	p.V334V		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	334	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCACTGTAGTGGTTGATGTAA	0.448													7	120					1.12685e-05	1.20863e-05	0.004482	1	0		T	140553418	T	T	140553418	2	4	1	1	0	0	0	0	0	0	0	1	11566	1335	47	5		5	PCDHB7	5	140553418	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	22245	140553418	40361842	427	427											
PCDHB8	56128	broad.mit.edu	37	chr5	140559148	140559148	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctccatcaacacagacaaCggccacctgttcgccctcag	10	7	7	17	2	3	1	2	0	1	1	5	1	3	1	4	1	2	1	4	1	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140559148C>T	uc011dai.1	+	1	1719	c.1533C>T	c.(1531-1533)AAC>AAT	p.N511N	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	511	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACACAGACAACGGCCACCTGT	0.677													22	140					0	0	0.009535	0	0		T	140559148	T	T	140559148	2	4	1	1	0	0	0	0	0	0	0	1	11567	535	19	1		1	PCDHB8	5	140559148	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5730	140559148	40356112	428	428											
PCDHB10	56126	broad.mit.edu	37	chr5	140573645	140573645	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcctccctggtctccatcaAcgcggacaacggccacctgt	7	7	9	18	4	2	0	1	0	1	0	4	1	3	1	5	3	2	0	5	3	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140573645A>G	uc003lix.2	+	1	1694	c.1520A>G	c.(1519-1521)AAC>AGC	p.N507S		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	507	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTCTCCATCAACGCGGACAAC	0.697													10	125					0	0	0.001368	0	0		G	140573645	G	G	140573645	3	3	1	1	0	0	0	0	1	0	0	0	11554	43	2	3	1522	3	PCDHB10	5	140573645	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	14497	140573645	40341615	429	429											
PCDHB12	56124	broad.mit.edu	37	chr5	140588755	140588755	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgagagaaatgctagacagGgaggagctctgtggctccaa	12	7	14	8	0	1	3	0	1	1	2	2	6	2	5	1	3	2	3	1	3	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140588755G>C	uc003liz.2	+	1	465	c.276G>C	c.(274-276)AGG>AGC	p.R92S	PCDHB12_uc011dak.1_Intron	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	92	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGCTAGACAGGGAGGAGCTCT	0.483													11	205					0	0	0.008291	0	0		C	140588755	C	C	140588755	3	2	1	1	0	0	0	0	1	0	0	0	11556	1223	43	5	278	5	PCDHB12	5	140588755	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	15110	140588755	40326505	430	430											
PCDHB13	56123	broad.mit.edu	37	chr5	140595303	140595303	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtgggcgcttcagaccaCggctccccggcgctgagcag	5	5	15	16	6	1	2	1	1	0	1	2	2	2	2	3	3	1	4	3	3	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140595303C>T	uc003lja.1	+	1	1795	c.1608C>T	c.(1606-1608)CAC>CAT	p.H536H		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	536	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTTCAGACCACGGCTCCCCGG	0.677													6	94					0	0	0.001168	0	0		T	140595303	T	T	140595303	2	4	1	1	0	0	0	0	0	0	0	1	11557	535	19	1		1	PCDHB13	5	140595303	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	6548	140595303	40319957	431	431											
PCDHB13	56123	broad.mit.edu	37	chr5	140595729	140595729	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctctcccggaggcggccccGacccaggcccaggccgactt	5	4	12	20	4	1	0	0	0	1	0	2	3	1	1	7	5	0	0	7	5	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140595729G>A	uc003lja.1	+	1	2221	c.2034G>A	c.(2032-2034)CCG>CCA	p.P678P		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	678	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGCGGCCCCGACCCAGGCCC	0.687													17	199					0	0	0.012319	0	0		A	140595729	A	A	140595729	2	1	1	1	0	0	0	0	0	0	0	1	11557	1045	37	1		1	PCDHB13	5	140595729	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	426	140595729	40319531	432	432											
SLC25A2	83884	broad.mit.edu	37	chr5	140682918	140682918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaagtagagtactcgagagtCcatggtagaagcccaagggg	13	6	15	7	1	0	3	0	0	0	3	2	5	1	3	2	3	2	3	2	3	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140682918C>T	uc003ljf.2	-	1	695	c.515G>A	c.(514-516)GGA>GAA	p.G172E		NM_031947	NP_114153	Q9BXI2	ORNT2_HUMAN	solute carrier family 25 member 2	172	Helical; Name=4; (Potential).|Solcar 2.				mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity			ovary(1)	1		all_lung(500;0.000249)|Lung NSC(810;0.0011)|Ovarian(839;0.00556)|Breast(839;0.0173)|all_hematologic(541;0.152)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.00204)	L-Ornithine(DB00129)	ACTCGAGAGTCCATGGTAGAA	0.433													16	257					0	0	0.00499	0	0		T	140682918	T	T	140682918	3	4	1	1	0	0	0	0	1	0	0	0	14507	855	30	4	394	4	SLC25A2	5	140682918	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	87189	140682918	40232342	433	433											
PCDHGA3	56112	broad.mit.edu	37	chr5	140724035	140724035	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaataaaaattggtgaactAacggttcctggaacccgatt	15	10	9	7	2	0	1	0	1	0	0	1	4	1	2	2	3	3	1	2	3	7	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140724035A>G	uc003ljm.1	+	1	435	c.435A>G	c.(433-435)CTA>CTG	p.L145L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Silent_p.L145L	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	145	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGGTGAACTAACGGTTCCTG	0.343													12	131					0	0	0.001368	0	0		G	140724035	G	G	140724035	2	3	1	1	0	0	0	0	0	0	0	1	11574	349	13	3		3	PCDHGA3	5	140724035	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	41117	140724035	40191225	434	434											
PCDHGA4	56111	broad.mit.edu	37	chr5	140737042	140737042	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctattcccacgaggtctccCtcaccgcggactcgcggaag	7	7	10	17	5	2	0	1	0	1	0	5	3	3	2	4	3	0	0	4	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140737042C>A	uc003ljq.1	+	1	2275	c.2275C>A	c.(2275-2277)CTC>ATC	p.L759I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGB2_uc003ljs.1_5'Flank|PCDHGA4_uc003ljp.1_Missense_Mutation_p.L759I|PCDHGB2_uc011dar.1_5'Flank	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	759	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAGGTCTCCCTCACCGCGGA	0.602													10	141					2.80697e-09	3.11058e-09	0.010729	1	0		A	140737042	A	A	140737042	3	1	1	1	0	0	0	0	1	0	0	0	11575	681	24	5	2277	5	PCDHGA4	5	140737042	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	13007	140737042	40178218	435	435											
PCDHGA5	56110	broad.mit.edu	37	chr5	140744549	140744549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcacagctttagatggcGgagacccggtactctccggc	7	9	11	14	3	2	2	1	0	1	2	4	3	3	2	3	4	2	2	3	4	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140744549G>A	uc003lju.1	+	1	652	c.652G>A	c.(652-654)GGA>AGA	p.G218R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.G218R	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	218	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTAGATGGCGGAGACCCGGT	0.577													8	106					0	0	0.00308	0	0		A	140744549	A	A	140744549	3	1	1	1	0	0	0	0	1	0	0	0	11576	1117	39	1	654	1	PCDHGA5	5	140744549	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	7507	140744549	40170711	436	436											
PCDHGA5	56110	broad.mit.edu	37	chr5	140744934	140744934	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgaatgacaatgcccccgAagtgatcctcacctctctga	10	9	8	14	2	2	4	1	4	1	0	4	5	3	4	4	0	1	0	4	0	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140744934A>G	uc003lju.1	+	1	1037	c.1037A>G	c.(1036-1038)GAA>GGA	p.E346G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.E346G	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	346	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATGCCCCCGAAGTGATCCTC	0.507													4	93					0	0	0.009096	0	0		G	140744934	G	G	140744934	3	3	1	1	0	0	0	0	1	0	0	0	11576	246	9	3	1039	3	PCDHGA5	5	140744934	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	385	140744934	40170326	437	437											
PCDHGA7	56108	broad.mit.edu	37	chr5	140762728	140762728	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcggcagcttggtcactgcgGgcaggatagaccgggaagag	9	5	18	9	3	1	2	1	0	0	2	1	4	1	4	1	5	2	3	1	5	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140762728G>T	uc003lka.1	+	1	262	c.262G>T	c.(262-264)GGC>TGC	p.G88C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.G88C	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	88	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTCACTGCGGGCAGGATAGA	0.572													11	127					0.000673444	0.000698975	0.008291	1	0		T	140762728	T	T	140762728	3	4	1	1	0	0	0	0	1	0	0	0	11578	1232	43	5	264	5	PCDHGA7	5	140762728	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	17794	140762728	40152532	438	438											
PCDHGA8	9708	broad.mit.edu	37	chr5	140773440	140773440	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatcattacgtctttgtttAgcccagtgttagaaaattct	10	17	7	7	1	3	2	1	1	2	1	3	2	3	2	1	0	2	2	1	0	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140773440A>G	uc003lkd.1	+	1	1958	c.1060A>G	c.(1060-1062)AGC>GGC	p.S354G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.S354G	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	354	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTCTTTGTTTAGCCCAGTGTT	0.453													18	223					0	0	0.00499	0	0		G	140773440	G	G	140773440	3	3	1	1	0	0	0	0	1	0	0	0	11579	420	15	3	1062	3	PCDHGA8	5	140773440	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	10712	140773440	40141820	439	439											
PCDHGC3	5098	broad.mit.edu	37	chr5	140856480	140856480	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcacgcgcgtggtacaagTccttgcaacggatctggatg	8	8	14	11	5	1	0	0	0	1	0	2	2	2	2	1	4	3	3	1	4	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:140856480T>C	uc003lkv.1	+	1	912	c.797T>C	c.(796-798)GTC>GCC	p.V266A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Missense_Mutation_p.V266A|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	266	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGTACAAGTCCTTGCAACG	0.592													11	131					0	0	0.008291	0	0		C	140856480	C	C	140856480	3	2	1	1	0	0	0	0	1	0	0	0	11588	1667	58	3	799	3	PCDHGC3	5	140856480	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	83040	140856480	40058780	440	440											
HDAC3	8841	broad.mit.edu	37	chr5	141014386	141014386	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctccctcaccagtcatcGcctacgttgaaggcattaag	9	10	8	14	2	2	1	2	1	0	0	5	1	4	1	4	1	1	2	4	1	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:141014386G>A	uc003llf.2	-	3	339	c.273C>T	c.(271-273)GGC>GGT	p.G91G	HDAC3_uc003lle.1_Silent_p.G34G|HDAC3_uc010jgd.1_Intron|HDAC3_uc010jge.1_Intron|RELL2_uc003lli.2_5'Flank|RELL2_uc003llh.2_5'Flank|RELL2_uc003llg.2_5'Flank|RELL2_uc010jgf.2_5'Flank	NM_003883	NP_003874	O15379	HDAC3_HUMAN	histone deacetylase 3	91	Histone deacetylase.				anti-apoptosis|cellular lipid metabolic process|negative regulation of cell cycle|negative regulation of JNK cascade|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|spindle assembly|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|spindle microtubule|transcriptional repressor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription corepressor activity|transcription factor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Vorinostat(DB02546)	ACCAGTCATCGCCTACGTTGA	0.517													7	260					0	0	0.001984	0	0		A	141014386	A	A	141014386	2	1	1	1	0	0	0	0	0	0	0	1	7024	1074	38	1		1	HDAC3	5	141014386	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	157906	141014386	39900874	441	441											
FCHSD1	89848	broad.mit.edu	37	chr5	141026256	141026256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccaggccactcttgccagCcacgccttctgctccccact	5	9	6	21	1	2	0	0	0	2	0	4	0	4	0	7	1	3	1	7	1	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:141026256C>T	uc003llk.2	-	11	1009	c.958G>A	c.(958-960)GCT>ACT	p.A320T	FCHSD1_uc010jgg.2_5'UTR|FCHSD1_uc003llj.2_RNA	NM_033449	NP_258260	Q86WN1	FCSD1_HUMAN	FCH and double SH3 domains 1	320									FCHSD1/BRAF(2)	skin(2)|ovary(1)|central_nervous_system(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCTTGCCAGCCACGCCTTCT	0.612													4	26					0	0	0.009096	0	0		T	141026256	T	T	141026256	3	4	1	1	0	0	0	0	1	0	0	0	5803	739	26	2	1154	2	FCHSD1	5	141026256	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	11870	141026256	39889004	442	442											
PCDH1	5097	broad.mit.edu	37	chr5	141248141	141248141	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcctctcacctggatgAccgagtggcctatggggcta	6	8	16	11	1	1	1	1	1	1	0	2	3	1	2	4	6	0	1	4	6	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:141248141A>T	uc003llq.2	-	2	1013	c.896T>A	c.(895-897)GTC>GAC	p.V299D	PCDH1_uc003llp.2_Missense_Mutation_p.V299D|PCDH1_uc011dbf.1_Missense_Mutation_p.V277D	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	299	Extracellular (Potential).|Cadherin 3.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		CACCTGGATGACCGAGTGGCC	0.572													8	48					0	0	0.004482	0	0		T	141248141	T	T	141248141	3	4	1	1	0	0	0	0	1	0	0	0	11525	275	10	5	2917	5	PCDH1	5	141248141	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	221885	141248141	39667119	443	443											
KIAA0141	9812	broad.mit.edu	37	chr5	141314083	141314083	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagctttcctcggggtgcttTtcaccaaggagccctacctg	7	11	10	13	1	1	0	1	0	0	0	3	1	2	1	4	3	4	2	4	3	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:141314083T>G	uc003lls.2	+	10	1203	c.1081T>G	c.(1081-1083)TTC>GTC	p.F361V	KIAA0141_uc003llt.2_Missense_Mutation_p.F361V|KIAA0141_uc003llu.1_RNA	NM_001142603	NP_001136075	Q14154	DELE_HUMAN	hypothetical protein LOC9812 precursor	361	TPR 5.				apoptosis|regulation of caspase activity	mitochondrion	protein binding			skin(1)	1		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGGGTGCTTTTCACCAAGGA	0.527													34	351					0	0	0.003271	0	0		G	141314083	G	G	141314083	3	3	1	1	0	0	0	0	1	0	0	0	8172	1841	64	5	1119	5	KIAA0141	5	141314083	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	65942	141314083	39601177	444	444											
NDFIP1	80762	broad.mit.edu	37	chr5	141515313	141515313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggatgaggattttgtgggtCgggatgattttgatgatgct	8	15	16	2	1	0	4	0	4	0	0	1	7	0	7	0	4	1	1	0	4	0	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:141515313C>T	uc003lmi.3	+	4	517	c.301C>T	c.(301-303)CGG>TGG	p.R101W	NDFIP1_uc003lmj.1_Intron	NM_030571	NP_085048	Q9BT67	NFIP1_HUMAN	Nedd4 family interacting protein 1	101	Cytoplasmic (Potential).				cellular iron ion homeostasis|negative regulation of gene expression|negative regulation of protein transport|negative regulation of transporter activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of protein ubiquitination	endosome membrane|extracellular region|Golgi membrane|integral to membrane|perinuclear region of cytoplasm	signal transducer activity				0		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTTGTGGGTCGGGATGATTT	0.363													19	317					0	0	0.007413	0	0		T	141515313	T	T	141515313	3	4	1	1	0	0	0	0	1	0	0	0	10264	875	31	1	315	1	NDFIP1	5	141515313	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	201230	141515313	39399947	445	445											
SH3RF2	153769	broad.mit.edu	37	chr5	145317822	145317822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaaccccagacgtctgcagGccagtcctttccggctagtg	7	8	10	16	2	1	1	0	0	1	1	3	1	3	1	6	2	2	2	6	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:145317822G>A	uc003lnt.2	+	2	569	c.331G>A	c.(331-333)GCC>ACC	p.A111T	SH3RF2_uc011dbl.1_Missense_Mutation_p.A111T	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	111							ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACGTCTGCAGGCCAGTCCTTT	0.547													11	51					0	0	0.001368	0	0		A	145317822	A	A	145317822	3	1	1	1	0	0	0	0	1	0	0	0	14284	1203	42	2	333	2	SH3RF2	5	145317822	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3802509	145317822	35597438	446	446											
ADRB2	154	broad.mit.edu	37	chr5	148206413	148206413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatggggcaacccgggaacGgcagcgccttcttgctggca	7	6	14	14	3	1	0	0	0	1	0	1	1	1	1	3	5	4	4	3	5	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:148206413G>A	uc003lpr.1	+	1	258	c.19G>A	c.(19-21)GGC>AGC	p.G7S	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	7	Extracellular.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	ACCCGGGAACGGCAGCGCCTT	0.711													3	43					0	0	0.000602	0	0		A	148206413	A	A	148206413	3	1	1	1	0	0	0	0	1	0	0	0	341	1116	39	1	21	1	ADRB2	5	148206413	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2888591	148206413	32708847	447	447											
TIGD6	81789	broad.mit.edu	37	chr5	149375542	149375542	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgatctctaaatctgttcaGccagcccacacttgcttgaa	10	11	7	13	1	3	1	1	1	2	0	4	2	3	1	2	0	3	2	2	0	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:149375542G>A	uc003lri.2	-	2	1132	c.370C>T	c.(370-372)CTG>TTG	p.L124L	TIGD6_uc003lrj.2_Silent_p.L124L	NM_030953	NP_112215	Q17RP2	TIGD6_HUMAN	hypothetical protein LOC81789	124	HTH CENPB-type.|H-T-H motif (By similarity).				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			AATCTGTTCAGCCAGCCCACA	0.403													7	348					0	0	0.001984	0	0		A	149375542	A	A	149375542	2	1	1	1	0	0	0	0	0	0	0	1	15925	962	34	2		2	TIGD6	5	149375542	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1169129	149375542	31539718	448	448											
ARSI	340075	broad.mit.edu	37	chr5	149676950	149676950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcacccccattaaagtcagGatgagcccgggggttctcag	10	7	12	12	1	2	1	2	1	1	0	3	2	2	2	3	3	2	2	3	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:149676950G>A	uc003lrv.2	-	2	2126	c.1537C>T	c.(1537-1539)CCT>TCT	p.P513S		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	513						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTAAAGTCAGGATGAGCCCGG	0.637													24	169					0	0	0.00333	0	0		A	149676950	A	A	149676950	3	1	1	1	0	0	0	0	1	0	0	0	995	1174	41	4	176	4	ARSI	5	149676950	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	301408	149676950	31238310	449	449											
CCDC69	26112	broad.mit.edu	37	chr5	150584990	150584990	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgaggggacctaattcaTggggctctggtctgggtggc	6	11	16	8	0	3	1	1	1	2	0	3	2	3	2	1	7	0	1	1	7	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:150584990T>C	uc003ltq.2	-	2	218	c.95A>G	c.(94-96)CAT>CGT	p.H32R	CCDC69_uc010jhu.2_Intron|CCDC69_uc011dcq.1_RNA	NM_015621	NP_056436	A6NI79	CCD69_HUMAN	coiled-coil domain containing 69	32										ovary(2)	2		Medulloblastoma(196;0.091)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACCTAATTCATGGGGCTCTGG	0.527													8	88					0	0	0.004482	0	0		C	150584990	C	C	150584990	3	2	1	1	0	0	0	0	1	0	0	0	2844	1464	51	3	827	3	CCDC69	5	150584990	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	908040	150584990	30330270	450	450											
FAT2	2196	broad.mit.edu	37	chr5	150917444	150917444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagtgtccaagtctgtggCagaaaccttcaaaatgaagt	14	10	9	8	0	3	2	2	1	1	1	4	2	4	2	2	1	1	1	2	1	5	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:150917444C>T	uc003lue.3	-	11	9116	c.9103G>A	c.(9103-9105)GCC>ACC	p.A3035T	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3035	Extracellular (Potential).|Cadherin 27.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AAGTCTGTGGCAGAAACCTTC	0.468													7	111					0	0	0.00308	0	0		T	150917444	T	T	150917444	3	4	1	1	0	0	0	0	1	0	0	0	5704	710	25	2	3998	2	FAT2	5	150917444	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	332454	150917444	29997816	451	451											
KIF4B	285643	broad.mit.edu	37	chr5	154393781	154393781	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcctagggtaatacaacTgctcttcaaagaaattgata	15	13	6	7	0	2	2	1	1	1	1	3	2	3	2	1	1	3	2	1	1	8	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:154393781T>G	uc010jih.1	+	1	522	c.362T>G	c.(361-363)CTG>CGG	p.L121R		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	121	Kinesin-motor.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			GTAATACAACTGCTCTTCAAA	0.393													17	127					0	0	0.004007	0	0		G	154393781	G	G	154393781	3	3	1	1	0	0	0	0	1	0	0	0	8320	1580	55	5	364	5	KIF4B	5	154393781	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3476337	154393781	26521479	452	452											
LSM11	134353	broad.mit.edu	37	chr5	157181069	157181069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctaggcaaagcatatgaaCgggattcttcactgactctc	11	11	8	11	1	3	2	1	2	2	0	5	3	4	3	1	2	2	2	1	2	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:157181069C>T	uc003lxe.1	+	3	650	c.646C>T	c.(646-648)CGG>TGG	p.R216W	LSM11_uc003lxf.1_5'Flank	NM_173491	NP_775762	P83369	LSM11_HUMAN	LSM11, U7 small nuclear RNA associated	216					histone mRNA 3'-end processing|S phase of mitotic cell cycle|termination of RNA polymerase II transcription	histone pre-mRNA 3'end processing complex|nucleoplasm|U7 snRNP	protein binding|U7 snRNA binding				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AGCATATGAACGGGATTCTTC	0.463													8	126					0	0	0.001368	0	0		T	157181069	T	T	157181069	3	4	1	1	0	0	0	0	1	0	0	0	9070	527	19	1	656	1	LSM11	5	157181069	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2787288	157181069	23734191	453	453											
TTC1	7265	broad.mit.edu	37	chr5	159463806	159463806	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagagctgcagcaaggatgaAacaggtatgtatctgtgacc	13	9	12	7	0	1	3	0	2	1	1	1	4	1	4	1	2	4	5	1	2	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:159463806A>C	uc003lxu.2	+	4	550	c.500A>C	c.(499-501)AAA>ACA	p.K167T		NM_003314	NP_003305	Q99614	TTC1_HUMAN	tetratricopeptide repeat domain 1	167	TPR 2.				protein folding		unfolded protein binding			skin(1)	1	Renal(175;0.00196)	all_hematologic(541;0.00014)|Breast(839;0.0101)|all_neural(177;0.0281)|Medulloblastoma(196;0.0425)|Lung NSC(249;0.119)|all_lung(500;0.163)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	Epithelial(171;8.37e-05)|all cancers(165;0.000694)|OV - Ovarian serous cystadenocarcinoma(192;0.0402)		GCAAGGATGAAACAGGTATGT	0.418													14	111					0	0	0.001855	0	0		C	159463806	C	C	159463806	3	2	1	1	0	0	0	0	1	0	0	0	16704	14	1	5	510	5	TTC1	5	159463806	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2282737	159463806	21451454	454	454											
CPEB4	80315	broad.mit.edu	37	chr5	173317434	173317434	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcctctctcacagcaccAcccacatcaccctcatttcc	8	8	4	21	1	4	0	3	0	1	0	6	0	5	0	5	1	1	1	5	1	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:173317434A>G	uc003mcs.3	+	1	2104	c.698A>G	c.(697-699)CAC>CGC	p.H233R	CPEB4_uc010jju.1_Missense_Mutation_p.H233R|CPEB4_uc010jjv.2_Missense_Mutation_p.H233R|CPEB4_uc011dfg.1_Missense_Mutation_p.H233R|CPEB4_uc003mct.3_5'Flank|CPEB4_uc003mcu.3_5'Flank	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	233	His-rich.						nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TCACAGCACCACCCACATCAC	0.537													9	149					0	0	0.008291	0	0		G	173317434	G	G	173317434	3	3	1	1	0	0	0	0	1	0	0	0	3806	159	6	3	700	3	CPEB4	5	173317434	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	13853628	173317434	7597826	455	455											
CDHR2	54825	broad.mit.edu	37	chr5	176012966	176012966	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcctaggaagcctcctcAttaccattgaggacgtgaat	10	11	9	11	1	2	2	1	2	1	0	4	4	3	4	4	2	2	0	4	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:176012966A>G	uc003mem.1	+	20	2812	c.2746A>G	c.(2746-2748)ATT>GTT	p.I916V	CDHR2_uc003men.1_Missense_Mutation_p.I916V	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	916	Extracellular (Potential).|Cadherin 8.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						AAGCCTCCTCATTACCATTGA	0.403													15	145					0	0	0.00499	0	0		G	176012966	G	G	176012966	3	3	1	1	0	0	0	0	1	0	0	0	3122	217	8	3	2820	3	CDHR2	5	176012966	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2695532	176012966	4902294	456	456											
ZNF346	23567	broad.mit.edu	37	chr5	176477895	176477895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagctcaaactaatggcaCgctatgggcggctggcggac	10	6	13	12	3	1	0	1	0	0	0	1	1	1	1	1	5	2	4	1	5	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:176477895C>T	uc003mfi.2	+	5	704	c.661C>T	c.(661-663)CGC>TGC	p.R221C	ZNF346_uc011dfr.1_Missense_Mutation_p.R189C|ZNF346_uc011dfs.1_Missense_Mutation_p.R123C|ZNF346_uc003mfj.2_Intron|ZNF346_uc003mfk.1_Missense_Mutation_p.R246C|ZNF346_uc011dft.1_Intron	NM_012279	NP_036411	Q9UL40	ZN346_HUMAN	zinc finger protein 346	221						cytoplasm|nucleolus	double-stranded RNA binding|zinc ion binding				0	all_cancers(89;6.3e-05)|Renal(175;0.000269)|Lung NSC(126;0.00476)|all_lung(126;0.00806)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACTAATGGCACGCTATGGGCG	0.567													9	70					0	0	0.008291	0	0		T	176477895	T	T	176477895	3	4	1	1	0	0	0	0	1	0	0	0	17885	536	19	1	679	1	ZNF346	5	176477895	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	464929	176477895	4437365	457	457											
ADAMTS2	9509	broad.mit.edu	37	chr5	178555036	178555036	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagagtcctcttccaggacGttgttgtcgtcgacattcag	8	12	10	11	3	2	1	1	0	1	1	6	3	4	2	2	1	0	2	2	1	0	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr5:178555036G>A	uc003mjw.2	-	17	2541	c.2541C>T	c.(2539-2541)AAC>AAT	p.N847N		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	847	Spacer.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CTTCCAGGACGTTGTTGTCGT	0.587													24	144					0	0	0.00333	0	0		A	178555036	A	A	178555036	2	1	1	1	0	0	0	0	0	0	0	1	265	1136	40	1		1	ADAMTS2	5	178555036	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2077141	178555036	2360224	458	458											
TUBB2B	347733	broad.mit.edu	37	chr6	3224988	3224988	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtctcgcgggggcatctaCgcctcgtcctcgccctcctc	2	9	10	20	6	2	0	0	0	2	0	8	0	4	0	5	2	1	1	5	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:3224988C>T	uc003mvg.2	-	4	1526	c.1335G>A	c.(1333-1335)GCG>GCA	p.A445A	TUBB2B_uc010jnj.2_Silent_p.A408A|TUBB2B_uc010jnk.2_Silent_p.A373A|TUBB2B_uc003mvh.2_Silent_p.A418A|uc011dhu.1_RNA	NM_178012	NP_821080	Q9BVA1	TBB2B_HUMAN	tubulin, beta 2B	445					'de novo' posttranslational protein folding|microtubule-based movement|neuron migration|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			large_intestine(1)	1	Ovarian(93;0.0386)	all_hematologic(90;0.108)				GGGGCATCTACGCCTCGTCCT	0.627													17	65					0	0	0.008871	0	0		T	3224988	T	T	3224988	2	4	1	1	0	0	0	0	0	0	0	1	16781	523	19	1		1	TUBB2B	6	3224988	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08		3224988	167890079	459	459											
EDN1	1906	broad.mit.edu	37	chr6	12292633	12292633	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggggagaaacccactcccAgtccaccctggcggctccgc	7	4	12	18	3	0	1	0	0	0	1	3	2	3	1	5	4	1	1	5	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:12292633A>G	uc003nae.3	+	2	458	c.124A>G	c.(124-126)AGT>GGT	p.S42G	EDN1_uc010jpb.2_Missense_Mutation_p.S42G|EDN1_uc003nad.2_Missense_Mutation_p.S42G|EDN1_uc003naf.3_Missense_Mutation_p.S41G	NM_001955	NP_001946	P05305	EDN1_HUMAN	endothelin 1 precursor	42					artery smooth muscle contraction|calcium-mediated signaling|leukocyte activation|negative regulation of blood coagulation|negative regulation of cellular protein metabolic process|negative regulation of nitric-oxide synthase biosynthetic process|negative regulation of transcription from RNA polymerase II promoter|nitric oxide transport|peptide hormone secretion|phosphatidylinositol 3-kinase cascade|positive regulation of cardiac muscle hypertrophy|positive regulation of cell size|positive regulation of endothelial cell migration|positive regulation of heart rate|positive regulation of hormone secretion|positive regulation of JUN kinase activity|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of sarcomere organization|positive regulation of smooth muscle cell proliferation|prostaglandin biosynthetic process|protein kinase C deactivation|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	cytoplasm|extracellular space	cytokine activity|endothelin A receptor binding|endothelin B receptor binding|hormone activity			skin(1)	1	all_cancers(95;0.241)|Breast(50;0.0266)|Ovarian(93;0.12)	all_hematologic(90;0.117)				ACCCACTCCCAGTCCACCCTG	0.607													20	139					0	0	0.012319	0	0		G	12292633	G	G	12292633	3	3	1	1	0	0	0	0	1	0	0	0	4922	188	7	3	130	3	EDN1	6	12292633	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	9067645	12292633	158822434	460	460											
NUP153	9972	broad.mit.edu	37	chr6	17632903	17632903	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaacccagattttgtgccTggctttgcactttcacatgc	8	15	7	11	0	1	1	1	0	0	1	1	1	1	1	2	1	4	2	2	1	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:17632903T>C	uc003ncd.1	-	17	2837	c.2637A>G	c.(2635-2637)CCA>CCG	p.P879P	NUP153_uc011dje.1_Silent_p.P910P|NUP153_uc010jpl.1_Silent_p.P837P	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	879	RanBP2-type 4.				carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			ATTTTGTGCCTGGCTTTGCAC	0.393													19	156					0	0	0.006122	0	0		C	17632903	C	C	17632903	2	2	1	1	0	0	0	0	0	0	0	1	10774	1567	55	3		3	NUP153	6	17632903	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	5340270	17632903	153482164	461	461											
SLC17A3	10786	broad.mit.edu	37	chr6	25850802	25850802	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatggaccaaatgggtagaGatctgagcatagctttgatg	13	11	12	5	0	1	3	0	2	1	1	1	5	1	4	1	2	2	3	1	2	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:25850802G>T	uc003nfi.3	-	7	754	c.644C>A	c.(643-645)TCT>TAT	p.S215Y	SLC17A3_uc003nfk.3_Missense_Mutation_p.S293Y|SLC17A3_uc011djz.1_3'UTR|SLC17A3_uc011dka.1_Missense_Mutation_p.S215Y	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	215					glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						AATGGGTAGAGATCTGAGCAT	0.423													20	119					8.28177e-16	9.4471e-16	0.007413	1	0		T	25850802	T	T	25850802	3	4	1	1	0	0	0	0	1	0	0	0	14443	942	33	5	638	5	SLC17A3	6	25850802	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	8217899	25850802	145264265	462	462											
HIST1H2BI	8346	broad.mit.edu	37	chr6	26273222	26273222	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgcctgaaccagctaagTcagctcccgccccgaagaag	12	5	9	15	2	1	2	1	1	0	1	2	3	2	2	5	0	4	2	5	0	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:26273222T>C	uc003nhk.2	+	1	19	c.19T>C	c.(19-21)TCA>CCA	p.S7P	HIST1H3G_uc003nhi.2_5'Flank	NM_003525	NP_003516	P62807	H2B1C_HUMAN	histone cluster 1, H2bi	7					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0						ACCAGCTAAGTCAGCTCCCGC	0.547													17	168					0	0	0.004007	0	0		C	26273222	C	C	26273222	3	2	1	1	0	0	0	0	1	0	0	0	7164	1667	58	3	21	3	HIST1H2BI	6	26273222	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	422420	26273222	144841845	463	463											
HIST1H2AJ	8331	broad.mit.edu	37	chr6	27782514	27782514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccctgcttaccacgcccaGacatggcaaaaggtctatta	11	9	7	14	1	1	1	0	0	1	1	2	1	2	1	3	2	2	2	3	2	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:27782514G>A	uc003njn.1	-	1	5	c.5C>T	c.(4-6)TCT>TTT	p.S2F	HIST1H2BM_uc003njo.2_5'Flank	NM_021066	NP_066544	Q99878	H2A1J_HUMAN	histone cluster 1, H2aj	2				S->A: Blocks the inhibition of transcription by RPS6KA5/MSK1.	nucleosome assembly	nucleosome|nucleus	DNA binding				0						ACCACGCCCAGACATGGCAAA	0.532													4	97					0	0	0.001168	0	0		A	27782514	A	A	27782514	3	1	1	1	0	0	0	0	1	0	0	0	7152	942	33	4	385	4	HIST1H2AJ	6	27782514	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1509292	27782514	143332553	464	464											
TRIM27	5987	broad.mit.edu	37	chr6	28876773	28876773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactgctttagactctccGtcaagaatagacatttttgg	11	14	8	8	1	2	4	1	1	1	3	3	4	2	4	1	1	2	1	1	1	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:28876773G>A	uc003nlr.2	-	5	1222	c.863C>T	c.(862-864)ACG>ATG	p.T288M	TRIM27_uc003nls.2_Missense_Mutation_p.T288M|TRIM27_uc003nlt.1_Missense_Mutation_p.T288M	NM_006510	NP_006501	P14373	TRI27_HUMAN	ret finger protein	288	Potential.				cell proliferation|negative regulation of gene expression, epigenetic|negative regulation of transcription from RNA polymerase II promoter|protein trimerization|spermatogenesis|transcription, DNA-dependent	cytoplasm|integral to plasma membrane|membrane fraction|nuclear membrane|PML body	DNA binding|protein binding|transmembrane receptor protein tyrosine kinase activity|zinc ion binding			ovary(1)	1						TAGACTCTCCGTCAAGAATAG	0.403			T	RET	papillary thyroid								13	117					0	0	0.001368	0	0		A	28876773	A	A	28876773	3	1	1	1	0	0	0	0	1	0	0	0	16527	1145	40	1	694	1	TRIM27	6	28876773	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1094259	28876773	142238294	465	465											
OR11A1	26531	broad.mit.edu	37	chr6	29394491	29394491	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaatcaagtgtttcagtttGtttgatacagagaatcttcc	11	16	7	7	0	4	2	3	1	1	1	5	3	5	2	1	0	1	3	1	0	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:29394491G>C	uc003nmg.2	-	1	1019	c.928C>G	c.(928-930)CAA>GAA	p.Q310E		NM_013937	NP_039225	Q9GZK7	O11A1_HUMAN	olfactory receptor, family 11, subfamily A,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTTTCAGTTTGTTTGATACAG	0.468													34	98					0	0	0.012213	0	0		C	29394491	C	C	29394491	3	2	1	1	0	0	0	0	1	0	0	0	10943	1386	48	5	23	5	OR11A1	6	29394491	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	517718	29394491	141720576	466	466											
TRIM10	10107	broad.mit.edu	37	chr6	30122214	30122214	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagctcgctggtggtcctcGgacaagaggagcttggggtg	6	9	18	8	2	0	2	0	1	0	1	3	4	1	4	1	6	2	3	1	6	1	1	rs139417693		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:30122214G>A	uc003npo.3	-	7	1054	c.978C>T	c.(976-978)TCC>TCT	p.S326S	TRIM10_uc003npn.2_Silent_p.S326S	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	326	B30.2/SPRY.					cytoplasm	zinc ion binding				0						GGTGGTCCTCGGACAAGAGGA	0.547													12	80					0	0	0.001368	0	0		A	30122214	A	A	30122214	2	1	1	1	0	0	0	0	0	0	0	1	16512	1103	39	1		1	TRIM10	6	30122214	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	727723	30122214	140992853	467	467											
TRIM26	7726	broad.mit.edu	37	chr6	30166571	30166571	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcagcttctctcggtgtcGctcgcacaactttgcatcct	5	13	9	14	3	1	0	0	0	1	0	6	0	2	0	1	1	4	5	1	1	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:30166571G>A	uc003npr.2	-	3	519	c.310C>T	c.(310-312)CGA>TGA	p.R104*	TRIM26_uc003nps.2_Nonsense_Mutation_p.R104*|TRIM26_uc010jry.2_5'UTR|TRIM26_uc003npt.2_Nonsense_Mutation_p.R104*|TRIM26_uc003npu.1_Nonsense_Mutation_p.R104*	NM_003449	NP_003440	Q12899	TRI26_HUMAN	tripartite motif-containing 26	104	B box-type.						DNA binding|zinc ion binding			ovary(2)|lung(1)	3						TCTCGGTGTCGCTCGCACAAC	0.642													18	80					0	0	0.008871	0	0		A	30166571	A	A	30166571	4	1	1	1	0	0	0	0	0	1	0	0	16526	1095	38	1	1337	1	TRIM26	6	30166571	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	44357	30166571	140948496	468	468											
TRIM39	56658	broad.mit.edu	37	chr6	30303538	30303538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagactagtggaaagtcGccgacagcagatcttgaggg	12	7	14	8	2	2	3	1	1	1	2	3	6	2	4	1	2	1	1	1	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:30303538G>A	uc010jrz.2	+	5	878	c.566G>A	c.(565-567)CGC>CAC	p.R189H	TRIM39_uc003npz.2_Missense_Mutation_p.R189H|TRIM39_uc003nqb.2_Missense_Mutation_p.R189H|TRIM39_uc003nqc.2_Missense_Mutation_p.R189H|TRIM39_uc010jsa.1_Missense_Mutation_p.R189H	NM_021253	NP_067076	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 1	189	Potential.				apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						GTGGAAAGTCGCCGACAGCAG	0.478													10	32					0	0	0.008291	0	0		A	30303538	A	A	30303538	3	1	1	1	0	0	0	0	1	0	0	0	16539	1087	38	1	576	1	TRIM39	6	30303538	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	136967	30303538	140811529	469	469											
ABCF1	23	broad.mit.edu	37	chr6	30557938	30557938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctacaggtggtcagaaggCgcgagttgtgtttgctgagc	7	11	16	7	2	1	2	1	1	0	1	1	3	1	2	0	3	4	4	0	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:30557938C>T	uc003nql.2	+	23	2341	c.2246C>T	c.(2245-2247)GCG>GTG	p.A749V	ABCF1_uc003nqm.2_Missense_Mutation_p.A711V|ABCF1_uc010jsb.2_Missense_Mutation_p.A142V	NM_001025091	NP_001020262	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F, member 1	749	ABC transporter 2.				inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2						GGTCAGAAGGCGCGAGTTGTG	0.537													9	102					0	0	0.008291	0	0		T	30557938	T	T	30557938	3	4	1	1	0	0	0	0	1	0	0	0	65	768	27	1	2336	1	ABCF1	6	30557938	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	254400	30557938	140557129	470	470											
HLA-B	3106	broad.mit.edu	37	chr6	31323092	31323092	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacccctcatccccctccttAccccatctcagggtgagggg	6	8	9	18	0	2	1	2	1	1	0	5	2	4	1	7	3	1	0	7	3	1	1	rs80008536		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:31323092A>G	uc003nth.2	-	4	949	c.895_splice	c.e4+1	p.E299_splice	HLA-C_uc003ntb.2_Intron|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_Intron|HLA-B_uc011dnk.1_Intron|HLA-B_uc003ntf.2_Intron|HLA-B_uc003ntg.1_Splice_Site_p.E178_splice|HLA-B_uc003nti.1_Intron	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B						antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						CCCCCTCCTTACCCCATCTCA	0.587									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				7	72					0	0	0.00308	0	0		G	31323092	G	G	31323092	5	3	1	1	0	0	0	0	0	0	1	0	7212	405	14	3	207	3	HLA-B	6	31323092	Splice_Site	SNP	A	TCGA-B7-5816-01A-21D-1600-08	765154	31323092	139791975	471	471											
HLA-B	3106	broad.mit.edu	37	chr6	31323265	31323265	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtcctcgccatcccgctGccaggtcagtgtgatctccg	4	11	11	15	3	2	1	1	1	1	0	6	1	4	1	5	2	1	1	5	2	0	1	rs41564218		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:31323265G>A	uc003nth.2	-	4	778	c.724C>T	c.(724-726)CAG>TAG	p.Q242*	HLA-C_uc003ntb.2_RNA|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_RNA|HLA-B_uc011dnk.1_RNA|HLA-B_uc003ntf.2_Intron|HLA-B_uc003ntg.1_Nonsense_Mutation_p.Q121*|HLA-B_uc003nti.1_RNA|HLA-B_uc010jsn.1_RNA	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B	242	Alpha-3.|Ig-like C1-type.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						CCATCCCGCTGCCAGGTCAGT	0.602									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				6	164					0	0	0.001984	0	0		A	31323265	A	A	31323265	4	1	1	1	0	0	0	0	0	1	0	0	7212	1328	46	2	380	2	HLA-B	6	31323265	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	173	31323265	139791802	472	472											
BAT2	7916	broad.mit.edu	37	chr6	31595600	31595600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatgaggatgaggcatggcGgcagcgacgaaagcagtcgt	12	5	17	7	4	0	3	0	2	0	1	1	6	0	4	0	4	2	3	0	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:31595600G>A	uc003nvb.3	+	12	1598	c.1349G>A	c.(1348-1350)CGG>CAG	p.R450Q	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Missense_Mutation_p.R450Q	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	450	4 X 57 AA type A repeats.|2 X type B repeats.					cytoplasm|nucleus	protein binding				0						GAGGCATGGCGGCAGCGACGA	0.627													8	28					0	0	0.004482	0	0		A	31595600	A	A	31595600	3	1	1	1	0	0	0	0	1	0	0	0	1320	1116	39	1	1391	1	BAT2	6	31595600	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	272335	31595600	139519467	473	473											
HSPA1A	3303	broad.mit.edu	37	chr6	31785400	31785400	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgggcctgggggcttcGgggctcagggtcccaaggga	4	6	19	12	2	1	0	1	0	0	0	4	1	3	1	3	7	0	2	3	7	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:31785400G>T	uc003nxj.2	+	1	2110	c.1867G>T	c.(1867-1869)GGG>TGG	p.G623W	HSPA1L_uc003nxh.2_5'Flank|HSPA1L_uc010jte.2_5'Flank|HSPA1A_uc003nxi.1_Missense_Mutation_p.G458W|uc011dok.1_RNA	NM_005345	NP_005336	P08107	HSP71_HUMAN	heat shock 70kDa protein 1A	623					anti-apoptosis|mRNA catabolic process|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of inclusion body assembly|protein refolding|response to unfolded protein	cytosol|endoplasmic reticulum|inclusion body|mitochondrion|nuclear speck|perinuclear region of cytoplasm|ribonucleoprotein complex	ATP binding|protein binding involved in protein folding|protein N-terminus binding|receptor activity|ubiquitin protein ligase binding|unfolded protein binding			ovary(1)	1						TGGGGGCTTCGGGGCTCAGGG	0.592													34	105					1.26612e-14	1.43642e-14	0.003271	1	0		T	31785400	T	T	31785400	3	4	1	1	0	0	0	0	1	0	0	0	7424	1116	39	5	1869	5	HSPA1A	6	31785400	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	189800	31785400	139329667	474	474											
CFB	629	broad.mit.edu	37	chr6	31919243	31919243	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctatgctgaccccaatacTtgcagaggtgagagaatgct	11	9	10	11	0	0	4	0	2	0	2	0	5	0	4	3	1	4	3	3	1	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:31919243T>C	uc003nyj.3	+	16	2360	c.2082T>C	c.(2080-2082)ACT>ACC	p.T694T	CFB_uc011dor.1_Silent_p.T1196T	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	694	Peptidase S1.				complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						ACCCCAATACTTGCAGAGGTG	0.517													35	265					0	0	0.002836	0	0		C	31919243	C	C	31919243	2	2	1	1	0	0	0	0	0	0	0	1	3281	1596	56	3		3	CFB	6	31919243	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	133843	31919243	139195824	475	475											
SKIV2L	6499	broad.mit.edu	37	chr6	31928060	31928060	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggagccccagtcccatcCgacctacaggcccaaagaca	11	4	9	17	1	0	1	0	0	0	1	2	3	2	2	6	2	2	0	6	2	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:31928060C>A	uc003nyn.1	+	4	689	c.300C>A	c.(298-300)TCC>TCA	p.S100S	RDBP_uc003nyk.2_5'Flank|RDBP_uc011dot.1_5'Flank|RDBP_uc003nyl.1_5'Flank|RDBP_uc003nym.1_5'Flank|SKIV2L_uc011dou.1_Intron|SKIV2L_uc011dov.1_Intron	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	100						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						CAGTCCCATCCGACCTACAGG	0.522													20	234					1.22574e-08	1.35472e-08	0.002299	1	0		A	31928060	A	A	31928060	2	1	1	1	0	0	0	0	0	0	0	1	14384	639	23	5		5	SKIV2L	6	31928060	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	8817	31928060	139187007	476	476											
TNXB	7148	broad.mit.edu	37	chr6	32032630	32032630	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagacacggggcccacgCgctggccaccgtggaagccg	8	2	15	16	5	0	1	0	0	0	1	0	2	0	2	4	4	2	2	4	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:32032630C>T	uc003nzl.2	-	19	7011	c.6809G>A	c.(6808-6810)CGC>CAC	p.R2270H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2342	Fibronectin type-III 15.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GGGGCCCACGCGCTGGCCACC	0.597													6	25					0	0	0.00308	0	0		T	32032630	T	T	32032630	3	4	1	1	0	0	0	0	1	0	0	0	16371	768	27	1	8008	1	TNXB	6	32032630	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	104570	32032630	139082437	477	477											
HLA-DQA2	3118	broad.mit.edu	37	chr6	32713678	32713678	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggtcaacatcacctggCtgagcaatgggcactcagtc	9	9	11	12	0	3	1	3	1	0	0	4	1	3	1	1	3	2	3	1	3	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:32713678C>T	uc003obx.2	+	3	500	c.442C>T	c.(442-444)CTG>TTG	p.L148L		NM_020056	NP_064440	P01906	DQA2_HUMAN	major histocompatibility complex, class II, DQ	148	Alpha-2.|Extracellular (Potential).|Ig-like C1-type.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to plasma membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CATCACCTGGCTGAGCAATGG	0.507													14	391					0	0	0.004007	0	0		T	32713678	T	T	32713678	2	4	1	1	0	0	0	0	0	0	0	1	7221	796	28	2		2	HLA-DQA2	6	32713678	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	681048	32713678	138401389	478	478											
RING1	6015	broad.mit.edu	37	chr6	33179529	33179529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtgaagacaactgggaatgCcacagtggaccacctctcca	12	7	10	12	0	1	2	0	1	1	1	2	4	1	4	4	2	2	0	4	2	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:33179529C>T	uc003odk.2	+	6	1063	c.869C>T	c.(868-870)GCC>GTC	p.A290V	RING1_uc003odl.2_Missense_Mutation_p.A261V	NM_002931	NP_002922	Q06587	RING1_HUMAN	ring finger protein 1	290	Necessary for interaction with CBX2 (By similarity).				histone H2A monoubiquitination|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear speck|PcG protein complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						ACTGGGAATGCCACAGTGGAC	0.612													13	303					0	0	0.001368	0	0		T	33179529	T	T	33179529	3	4	1	1	0	0	0	0	1	0	0	0	13399	739	26	2	887	2	RING1	6	33179529	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	465851	33179529	137935538	479	479											
BTBD9	114781	broad.mit.edu	37	chr6	38562049	38562049	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcttctgcagtggtgtcttgGagaggaatttctgcttcagg	6	14	14	7	0	4	1	1	0	3	1	4	3	4	2	0	4	2	3	0	4	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:38562049G>T	uc003ooa.3	-	4	816	c.240C>A	c.(238-240)CTC>CTA	p.L80L	BTBD9_uc003ony.3_Silent_p.L12L|BTBD9_uc010jwv.2_Silent_p.L12L|BTBD9_uc010jww.2_RNA|BTBD9_uc010jwx.2_Silent_p.L80L	NM_052893	NP_443125	Q96Q07	BTBD9_HUMAN	BTB (POZ) domain containing 9 isoform a	80	BTB.				cell adhesion						0						TGGTGTCTTGGAGAGGAATTT	0.458													18	186					5.01169e-05	5.32413e-05	0.00499	1	0		T	38562049	T	T	38562049	2	4	1	1	0	0	0	0	0	0	0	1	1551	1161	41	5		5	BTBD9	6	38562049	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5382520	38562049	132553018	480	480											
KLHDC3	116138	broad.mit.edu	37	chr6	42986439	42986439	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaccggcacttccatgacCtctggaagtttaatcctggt	9	12	9	11	1	1	2	0	2	1	0	3	3	3	3	4	3	1	2	4	3	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:42986439C>A	uc003otl.2	+	7	971	c.802C>A	c.(802-804)CTC>ATC	p.L268I	C6orf153_uc003otp.1_5'Flank|KLHDC3_uc003otm.2_RNA|KLHDC3_uc010jyf.2_Missense_Mutation_p.L244I|KLHDC3_uc003otn.2_Missense_Mutation_p.L152I|KLHDC3_uc003oto.2_Missense_Mutation_p.L209I	NM_057161	NP_476502	Q9BQ90	KLDC3_HUMAN	kelch domain containing 3	268	Kelch 5.				reciprocal meiotic recombination	cytoplasm|nuclear chromatin	chromatin binding|protein binding			upper_aerodigestive_tract(1)	1			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			CTTCCATGACCTCTGGAAGTT	0.483													25	299					9.57634e-11	1.07116e-10	0.00333	1	0		A	42986439	A	A	42986439	3	1	1	1	0	0	0	0	1	0	0	0	8373	681	24	5	824	5	KLHDC3	6	42986439	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4424390	42986439	128128628	481	481											
ZNF318	24149	broad.mit.edu	37	chr6	43323496	43323496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaatgtcgggaaagctacGtcgccttttttcctgtgtac	7	15	9	10	3	1	0	1	0	0	0	4	1	2	1	2	1	3	2	2	1	4	6	rs151197319	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:43323496G>A	uc003oux.2	-	4	1654	c.1576C>T	c.(1576-1578)CGT>TGT	p.R526C	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	526					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			GGAAAGCTACGTCGCCTTTTT	0.493													84	496					0	0	0.00361	0	0		A	43323496	A	A	43323496	3	1	1	1	0	0	0	0	1	0	0	0	17861	1145	40	1	5291	1	ZNF318	6	43323496	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	337057	43323496	127791571	482	482											
AARS2	57505	broad.mit.edu	37	chr6	44278779	44278779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaagctctaccagctgggggGctcccaccccaccagcaagg	10	4	11	16	0	1	0	0	0	1	0	2	0	2	0	5	4	4	4	5	4	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:44278779G>A	uc010jza.1	-	4	704	c.701C>T	c.(700-702)GCC>GTC	p.A234V	SPATS1_uc003oxg.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	234					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	CAGCTGGGGGGCTCCCACCCC	0.542													12	157					0	0	0.010729	0	0		A	44278779	A	A	44278779	3	1	1	1	0	0	0	0	1	0	0	0	20	1203	42	2	2332	2	AARS2	6	44278779	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	955283	44278779	126836288	483	483											
SUPT3H	8464	broad.mit.edu	37	chr6	44922278	44922278	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctaagatttccattgcgAcaacattgggttttatctcc	10	15	7	9	1	1	1	0	0	1	1	3	2	2	1	2	1	3	2	2	1	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:44922278A>T	uc003oxo.2	-	10	998	c.680T>A	c.(679-681)GTC>GAC	p.V227D	SUPT3H_uc003oxn.1_Missense_Mutation_p.V216D|SUPT3H_uc011dvv.1_Missense_Mutation_p.V64D|SUPT3H_uc003oxp.2_Missense_Mutation_p.V216D|SUPT3H_uc011dvw.1_Missense_Mutation_p.V130D	NM_181356	NP_852001	O75486	SUPT3_HUMAN	suppressor of Ty 3 homolog isoform 2	298					histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3						TTCCATTGCGACAACATTGGG	0.393													16	162					0	0	0.00499	0	0		T	44922278	T	T	44922278	3	4	1	1	0	0	0	0	1	0	0	0	15422	275	10	5	322	5	SUPT3H	6	44922278	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	643499	44922278	126192789	484	484											
GSTA2	2939	broad.mit.edu	37	chr6	52615457	52615457	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgccaggctgtagaaacTtcttcactgtgggcaggtta	8	11	13	9	0	2	1	1	0	1	1	2	1	2	1	1	4	2	5	1	4	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:52615457T>G	uc003pay.2	-	7	737	c.587A>C	c.(586-588)AAG>ACG	p.K196T		NM_000846	NP_000837	P09210	GSTA2_HUMAN	glutathione S-transferase alpha 2	196	GST C-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.118)				Aminophenazone(DB01424)|Amsacrine(DB00276)|Busulfan(DB01008)|Chlorambucil(DB00291)|Chloroquine(DB00608)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Ethacrynic acid(DB00903)|Glutathione(DB00143)|Mechlorethamine(DB00888)|Praziquantel(DB01058)|Vitamin E(DB00163)	CTGTAGAAACTTCTTCACTGT	0.453													56	169					0	0	0.00361	0	0		G	52615457	G	G	52615457	3	3	1	1	0	0	0	0	1	0	0	0	6847	1609	56	5	85	5	GSTA2	6	52615457	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	7693179	52615457	118499610	485	485											
GCM1	8521	broad.mit.edu	37	chr6	52993350	52993350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagagaagctgcaaggccagCtggtcagaggaaaaggataa	16	4	15	6	0	1	2	1	0	0	2	1	6	1	4	1	4	3	3	1	4	5	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:52993350C>T	uc003pbp.2	-	6	1174	c.965G>A	c.(964-966)AGC>AAC	p.S322N		NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	322						transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					GCAAGGCCAGCTGGTCAGAGG	0.478													14	128					0	0	0.00245	0	0		T	52993350	T	T	52993350	3	4	1	1	0	0	0	0	1	0	0	0	6312	797	28	2	349	2	GCM1	6	52993350	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	377893	52993350	118121717	486	486											
PRIM2	5558	broad.mit.edu	37	chr6	57467139	57467139	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaggaaggcaagaggacAgactatacacctttcagttg	15	7	12	7	0	1	2	1	0	0	2	1	5	1	5	1	4	1	2	1	4	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:57467139A>G	uc003pdx.2	+	12	1167	c.1080A>G	c.(1078-1080)ACA>ACG	p.T360T		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	360					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		GCAAGAGGACAGACTATACAC	0.428													4	136					0	0	0.004482	0	0		G	57467139	G	G	57467139	2	3	1	1	0	0	0	0	0	0	0	1	12513	175	7	3		3	PRIM2	6	57467139	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	4473789	57467139	113647928	487	487											
FILIP1	27145	broad.mit.edu	37	chr6	76022804	76022804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgttctcgtggtctggtGtcactcgaatatgcaggggc	5	13	14	9	2	3	0	1	0	2	0	5	1	3	0	0	4	2	3	0	4	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:76022804G>A	uc003pia.2	-	5	3117	c.2744C>T	c.(2743-2745)ACA>ATA	p.T915I	FILIP1_uc003phy.1_Missense_Mutation_p.T915I|FILIP1_uc003phz.2_Missense_Mutation_p.T816I|FILIP1_uc010kbe.2_Missense_Mutation_p.T918I|FILIP1_uc003pib.1_Missense_Mutation_p.T667I	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	915										skin(3)|ovary(1)	4						GTGGTCTGGTGTCACTCGAAT	0.507													29	251					0	0	0.009535	0	0		A	76022804	A	A	76022804	3	1	1	1	0	0	0	0	1	0	0	0	5908	1377	48	4	905	4	FILIP1	6	76022804	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	18555665	76022804	95092263	488	488											
SNAP91	9892	broad.mit.edu	37	chr6	84417621	84417621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtactgagcggcggcgatcCgatccgtgagcgtttggccc	5	9	15	12	6	0	2	0	2	0	0	2	4	2	2	3	3	3	2	3	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:84417621C>T	uc011dze.1	-	2	343	c.26G>A	c.(25-27)CGG>CAG	p.R9Q	SNAP91_uc003pkb.2_5'UTR|SNAP91_uc003pkc.2_Missense_Mutation_p.R9Q|SNAP91_uc003pkd.2_Missense_Mutation_p.R9Q|SNAP91_uc003pka.2_Missense_Mutation_p.R9Q|SNAP91_uc011dzf.1_5'UTR	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	9					clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		GGCGGCGATCCGATCCGTGAG	0.577													8	34					0	0	0.00308	0	0		T	84417621	T	T	84417621	3	4	1	1	0	0	0	0	1	0	0	0	14858	652	23	1	2805	1	SNAP91	6	84417621	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	8394817	84417621	86697446	489	489											
SYNCRIP	10492	broad.mit.edu	37	chr6	86332298	86332298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaccactcattaacctacGccttgcctgggcagctgttt	7	14	7	13	1	1	0	1	0	0	0	1	0	1	0	4	1	5	3	4	1	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:86332298G>A	uc003pla.2	-	8	1451	c.910C>T	c.(910-912)CGT>TGT	p.R304C	SYNCRIP_uc003pku.2_Missense_Mutation_p.R304C|SYNCRIP_uc003pkw.2_Intron|SYNCRIP_uc003pky.2_Missense_Mutation_p.R206C|SYNCRIP_uc003pkv.2_Missense_Mutation_p.R304C|SYNCRIP_uc003pkx.2_Missense_Mutation_p.R152C|SYNCRIP_uc003pkz.2_Intron	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	304	RRM 2.				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		ATTAACCTACGCCTTGCCTGG	0.433													50	399					0	0	0.00361	0	0		A	86332298	A	A	86332298	3	1	1	1	0	0	0	0	1	0	0	0	15469	1087	38	1	1023	1	SYNCRIP	6	86332298	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1914677	86332298	84782769	490	490											
MDN1	23195	broad.mit.edu	37	chr6	90461210	90461210	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacagaagatgtcagaatgTacgtctcatctattgtaggc	12	12	9	8	1	4	3	3	0	2	3	5	3	4	3	0	1	1	2	0	1	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:90461210T>C	uc003pnn.1	-	23	3283	c.3167A>G	c.(3166-3168)TAC>TGC	p.Y1056C	MDN1_uc003pno.1_Missense_Mutation_p.Y475C	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1056					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TGTCAGAATGTACGTCTCATC	0.498													6	95					0	0	0.001984	0	0		C	90461210	C	C	90461210	3	2	1	1	0	0	0	0	1	0	0	0	9433	1638	57	3	13943	3	MDN1	6	90461210	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	4128912	90461210	80653857	491	491											
CASP8AP2	9994	broad.mit.edu	37	chr6	90577950	90577950	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgaagtggctgatgaatgTttcaaattgcatcaagtatg	13	13	11	4	0	2	3	2	3	0	0	2	4	2	3	0	1	1	4	0	1	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:90577950T>C	uc003pnr.2	+	8	5137	c.4941T>C	c.(4939-4941)TGT>TGC	p.C1647C	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Silent_p.C1647C|CASP8AP2_uc011dzz.1_Silent_p.C1647C	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	1647					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		CTGATGAATGTTTCAAATTGC	0.373													6	63					0	0	0.004482	0	0		C	90577950	C	C	90577950	2	2	1	1	0	0	0	0	0	0	0	1	2681	1731	60	3		3	CASP8AP2	6	90577950	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	116740	90577950	80537117	492	492											
CD164	8763	broad.mit.edu	37	chr6	109690119	109690119	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaaagaaaattacagcctGcacacccaagaccaggacaa	20	3	7	11	0	0	3	0	0	0	3	0	4	0	4	3	1	3	1	3	1	7	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:109690119G>A	uc003pte.2	-	6	710	c.529C>T	c.(529-531)CAG>TAG	p.Q177*	CD164_uc003ptd.2_Intron|CD164_uc003ptf.2_Nonsense_Mutation_p.Q158*|CD164_uc011eap.1_Intron|CD164_uc010kdn.2_Nonsense_Mutation_p.Q164*	NM_006016	NP_006007	Q04900	MUC24_HUMAN	CD164 molecule, sialomucin isoform 1	177	Helical; (Potential).				hemopoiesis|heterophilic cell-cell adhesion|immune response|muscle organ development|negative regulation of cell adhesion|negative regulation of cell proliferation|signal transduction	endosome membrane|extracellular region|integral to plasma membrane|lysosomal membrane	protein binding				0		all_cancers(87;4.65e-22)|all_epithelial(87;2.54e-20)|all_lung(197;1.6e-05)|Lung NSC(302;2.92e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.0175)		Epithelial(106;7.83e-46)|all cancers(137;1.15e-45)|OV - Ovarian serous cystadenocarcinoma(136;2.89e-26)|BRCA - Breast invasive adenocarcinoma(108;0.00128)|GBM - Glioblastoma multiforme(226;0.16)		ATTACAGCCTGCACACCCAAG	0.393													9	78					0	0	0.004482	0	0		A	109690119	A	A	109690119	4	1	1	1	0	0	0	0	0	1	0	0	2972	1328	46	2	119	2	CD164	6	109690119	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	19112169	109690119	61424948	493	493											
AKD1	221264	broad.mit.edu	37	chr6	109814734	109814734	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactgctccatcttcttcttAtacttttttcttgtgtattc	6	22	3	10	0	4	0	0	0	4	0	6	0	5	0	1	0	3	2	1	0	4	10			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:109814734A>G	uc003ptn.2	-	41	5651	c.5574T>C	c.(5572-5574)TAT>TAC	p.Y1858Y	AKD1_uc011eas.1_Silent_p.Y243Y	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1858					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TCTTCTTCTTATACTTTTTTC	0.363													18	184					0	0	0.006122	0	0		G	109814734	G	G	109814734	2	3	1	1	0	0	0	0	0	0	0	1	460	456	16	3		3	AKD1	6	109814734	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	124615	109814734	61300333	494	494											
REV3L	5980	broad.mit.edu	37	chr6	111694064	111694064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaaatcttcacaggccaCgtctacaagttcaccatcag	12	11	5	13	1	6	0	3	0	3	0	6	0	6	0	2	1	1	1	2	1	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:111694064C>T	uc003puy.3	-	13	5817	c.5494G>A	c.(5494-5496)GTG>ATG	p.V1832M	REV3L_uc003pux.3_Missense_Mutation_p.V1754M|REV3L_uc003puz.3_Missense_Mutation_p.V1754M	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1832					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TCACAGGCCACGTCTACAAGT	0.423								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					25	248					0	0	0.005443	0	0		T	111694064	T	T	111694064	3	4	1	1	0	0	0	0	1	0	0	0	13265	536	19	1	3978	1	REV3L	6	111694064	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1879330	111694064	59421003	495	495											
LAMA4	3910	broad.mit.edu	37	chr6	112493865	112493865	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcatgtcttcggcatccCtgacatagttaagggcctgg	7	13	11	10	1	2	1	1	1	1	0	4	1	3	1	2	3	0	3	2	3	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:112493865C>A	uc003pvu.2	-	12	1808	c.1499G>T	c.(1498-1500)AGG>ATG	p.R500M	LAMA4_uc003pvv.2_Missense_Mutation_p.R493M|LAMA4_uc003pvt.2_Missense_Mutation_p.R493M	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	500	Potential.|Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		TTCGGCATCCCTGACATAGTT	0.537													6	82					0.00307968	0.00317669	0.00308	1	0		A	112493865	A	A	112493865	3	1	1	1	0	0	0	0	1	0	0	0	8624	681	24	5	4084	5	LAMA4	6	112493865	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	799801	112493865	58621202	496	496											
COL10A1	1300	broad.mit.edu	37	chr6	116446526	116446526	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctttatggtgtagggaaTgaagaactgtgtcttggtgt	9	15	13	4	0	2	2	0	1	2	1	2	3	2	3	0	3	1	1	0	3	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:116446526T>C	uc003pwm.2	-	2	226	c.130A>G	c.(130-132)ATT>GTT	p.I44V	NT5DC1_uc003pwj.2_Intron|NT5DC1_uc003pwk.2_Intron|NT5DC1_uc003pwl.2_Intron	NM_000493	NP_000484	Q03692	COAA1_HUMAN	type X collagen alpha 1 precursor	44	Nonhelical region (NC2).				skeletal system development	collagen	metal ion binding			central_nervous_system(1)	1		all_cancers(87;0.0176)|all_epithelial(87;0.0263)|Colorectal(196;0.234)		all cancers(137;0.0157)|OV - Ovarian serous cystadenocarcinoma(136;0.0325)|GBM - Glioblastoma multiforme(226;0.0446)|Epithelial(106;0.0711)		GTGTAGGGAATGAAGAACTGT	0.358													35	380					0	0	0.004878	0	0		C	116446526	C	C	116446526	3	2	1	1	0	0	0	0	1	0	0	0	3669	1464	51	3	1920	3	COL10A1	6	116446526	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3952661	116446526	54668541	497	497											
GJA1	2697	broad.mit.edu	37	chr6	121768698	121768698	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctatgttttcttcaagggCgttaaggatcgggttaaggg	8	15	13	5	2	3	0	1	0	2	0	4	1	3	1	0	4	0	3	0	4	4	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:121768698C>T	uc003pyr.2	+	2	955	c.705C>T	c.(703-705)GGC>GGT	p.G235G	GJA1_uc011ebo.1_Silent_p.G136G|GJA1_uc011ebp.1_Silent_p.G23G	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	235	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	TCTTCAAGGGCGTTAAGGATC	0.488													13	150					0	0	0.00245	0	0		T	121768698	T	T	121768698	2	4	1	1	0	0	0	0	0	0	0	1	6415	755	27	1		1	GJA1	6	121768698	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5322172	121768698	49346369	498	498											
HDDC2	51020	broad.mit.edu	37	chr6	125621702	125621702	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggtctttgttaagacggTcatctttgatcaccatagcc	9	13	8	11	2	4	2	2	1	2	1	4	2	4	2	3	2	1	1	3	2	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:125621702T>C	uc003qaa.1	-	2	392	c.188A>G	c.(187-189)GAC>GGC	p.D63G	HDDC2_uc003qab.1_RNA	NM_016063	NP_057147	Q7Z4H3	HDDC2_HUMAN	HD domain containing 2	63	HD.						metal ion binding|phosphoric diester hydrolase activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0186)		GTTAAGACGGTCATCTTTGAT	0.498													10	112					0	0	0.008291	0	0		C	125621702	C	C	125621702	3	2	1	1	0	0	0	0	1	0	0	0	7032	1667	58	3	446	3	HDDC2	6	125621702	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3853004	125621702	45493365	499	499											
TMEM200A	114801	broad.mit.edu	37	chr6	130761733	130761733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttgttcgtggcaaaatcCggctttattccccatctggt	6	15	10	10	2	1	0	0	0	1	0	4	0	3	0	3	4	0	4	3	4	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:130761733C>T	uc003qca.2	+	3	1037	c.166C>T	c.(166-168)CGG>TGG	p.R56W	TMEM200A_uc010kfh.2_Missense_Mutation_p.R56W|TMEM200A_uc010kfi.2_Missense_Mutation_p.R56W|TMEM200A_uc003qcb.2_Missense_Mutation_p.R56W	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	56	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		TGGCAAAATCCGGCTTTATTC	0.498													18	149					0	0	0.00499	0	0		T	130761733	T	T	130761733	3	4	1	1	0	0	0	0	1	0	0	0	16148	643	23	1	168	1	TMEM200A	6	130761733	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5140031	130761733	40353334	500	500											
EPB41L2	2037	broad.mit.edu	37	chr6	131206297	131206297	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcacttccctcctgccgTccccatcttgtaccacggca	5	12	5	19	2	2	0	1	0	2	0	6	0	5	0	6	1	2	2	6	1	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:131206297T>C	uc003qch.2	-	12	1954	c.1772A>G	c.(1771-1773)GAC>GGC	p.D591G	EPB41L2_uc003qce.1_5'Flank|EPB41L2_uc003qcf.1_5'Flank|EPB41L2_uc003qcg.1_Missense_Mutation_p.D591G|EPB41L2_uc011eby.1_Missense_Mutation_p.D591G|EPB41L2_uc003qci.2_Missense_Mutation_p.D591G|EPB41L2_uc010kfk.2_Missense_Mutation_p.D591G|EPB41L2_uc010kfl.1_Missense_Mutation_p.D591G	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	591	Hydrophilic.				cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		CCTCCTGCCGTCCCCATCTTG	0.473											OREG0017660	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	217					0	0	0.003163	0	0		C	131206297	C	C	131206297	3	2	1	1	0	0	0	0	1	0	0	0	5161	1667	58	3	1277	3	EPB41L2	6	131206297	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	444564	131206297	39908770	501	501											
EYA4	2070	broad.mit.edu	37	chr6	133844197	133844197	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcctccctattttaggagTaactgcataaatgtcttggt	9	17	7	8	0	1	0	0	0	1	0	3	1	3	1	2	2	2	2	2	2	5	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:133844197T>C	uc003qec.3	+	18	2078	c.1620T>C	c.(1618-1620)AGT>AGC	p.S540S	EYA4_uc011ecq.1_Silent_p.S486S|EYA4_uc011ecr.1_Silent_p.S492S|EYA4_uc003qed.3_Silent_p.S540S|EYA4_uc003qee.3_Silent_p.S517S|EYA4_uc011ecs.1_Silent_p.S546S|uc003qeg.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	540					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		ATTTTAGGAGTAACTGCATAA	0.333													14	166					0	0	0.001855	0	0		C	133844197	C	C	133844197	2	2	1	1	0	0	0	0	0	0	0	1	5339	1635	57	3		3	EYA4	6	133844197	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2637900	133844197	37270870	502	502											
IFNGR1	3459	broad.mit.edu	37	chr6	137528210	137528210	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgtaacattagttggtgtAggcactgtaagaaaataaaa	17	12	9	3	0	0	1	0	0	0	1	0	1	0	1	0	2	1	5	0	2	8	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:137528210A>G	uc003qho.2	-	2	193	c.90T>C	c.(88-90)CCT>CCC	p.P30P	IFNGR1_uc011edm.1_Silent_p.P2P|IFNGR1_uc011edn.1_Silent_p.P20P	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	30	Extracellular (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	TAGTTGGTGTAGGCACTGTAA	0.358													11	133					0	0	0.008291	0	0		G	137528210	G	G	137528210	2	3	1	1	0	0	0	0	0	0	0	1	7565	407	15	3		3	IFNGR1	6	137528210	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	3684013	137528210	33586857	503	503											
HEBP2	23593	broad.mit.edu	37	chr6	138727163	138727163	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtggagcctggttcaggTccttttagtgagtctaccat	7	14	11	9	1	2	1	1	1	1	0	3	2	3	2	3	3	3	1	3	3	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:138727163T>C	uc003qhw.1	+	3	591	c.294T>C	c.(292-294)GGT>GGC	p.G98G		NM_014320	NP_055135	Q9Y5Z4	HEBP2_HUMAN	heme binding protein 2	98						mitochondrion					0	Breast(32;0.0933)			GBM - Glioblastoma multiforme(68;0.000732)|OV - Ovarian serous cystadenocarcinoma(155;0.00171)		CTGGTTCAGGTCCTTTTAGTG	0.398													30	266					0	0	0.00632	0	0		C	138727163	C	C	138727163	2	2	1	1	0	0	0	0	0	0	0	1	7053	1654	58	3		3	HEBP2	6	138727163	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1198953	138727163	32387904	504	504											
C6orf97	80129	broad.mit.edu	37	chr6	151907169	151907169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctgacacacctggaggCagagctggtttctggaggtg	8	9	15	9	0	2	2	1	1	1	1	2	4	2	4	1	5	2	4	1	5	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:151907169C>T	uc003qol.2	+	7	1327	c.1238C>T	c.(1237-1239)GCA>GTA	p.A413V		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	413	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		CACCTGGAGGCAGAGCTGGTT	0.488													6	53					0	0	0.001168	0	0		T	151907169	T	T	151907169	3	4	1	1	0	0	0	0	1	0	0	0	2377	710	25	2	1264	2	C6orf97	6	151907169	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	13180006	151907169	19207898	505	505											
TIAM2	26230	broad.mit.edu	37	chr6	155578018	155578018	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagggtcagaaaggaggagaGcagcccaaactggtccgggg	12	3	18	8	1	1	2	1	0	0	2	2	5	2	3	2	6	3	1	2	6	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:155578018G>T	uc003qqb.2	+	29	6142	c.4869G>T	c.(4867-4869)GAG>GAT	p.E1623D	TIAM2_uc003qqe.2_Missense_Mutation_p.E1623D|TIAM2_uc010kjj.2_Missense_Mutation_p.E1185D|TIAM2_uc003qqf.2_Missense_Mutation_p.E999D|TIAM2_uc011efl.1_Missense_Mutation_p.E967D|TIAM2_uc003qqg.2_Missense_Mutation_p.E935D|TIAM2_uc003qqh.2_Missense_Mutation_p.E548D|uc003qqi.1_5'Flank	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1623					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		AAGGAGGAGAGCAGCCCAAAC	0.592													6	72					0.00198382	0.00205011	0.001984	1	0		T	155578018	T	T	155578018	3	4	1	1	0	0	0	0	1	0	0	0	15916	962	34	5	4963	5	TIAM2	6	155578018	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3670849	155578018	15537049	506	506											
TAGAP	117289	broad.mit.edu	37	chr6	159458069	159458069	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggcacctggggctgcctgCtgggagagctgatgccactg	5	8	17	11	0	0	2	0	1	0	1	0	3	0	2	3	4	4	4	3	4	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:159458069C>G	uc003qrz.2	-	10	1318	c.986G>C	c.(985-987)AGC>ACC	p.S329T	TAGAP_uc011eft.1_Missense_Mutation_p.S266T|TAGAP_uc003qsa.2_Missense_Mutation_p.S151T	NM_054114	NP_473455	Q8N103	TAGAP_HUMAN	T-cell activation Rho GTPase-activating protein	329					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-16)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		GGGCTGCCTGCTGGGAGAGCT	0.622													10	110					0	0	0.00499	0	0		G	159458069	G	G	159458069	3	3	1	1	0	0	0	0	1	0	0	0	15562	797	28	5	1213	5	TAGAP	6	159458069	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3880051	159458069	11656998	507	507											
MLLT4	4301	broad.mit.edu	37	chr6	168265382	168265382	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacctgatatgcgaatgcTgtcctctcccaagtattcac	9	12	7	13	2	2	1	1	1	1	0	5	3	3	1	3	0	2	2	3	0	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:168265382T>A	uc003qwd.2	+	2	399	c.257T>A	c.(256-258)CTG>CAG	p.L86Q	MLLT4_uc003qwb.1_Missense_Mutation_p.L86Q|MLLT4_uc003qwc.1_Missense_Mutation_p.L86Q	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	86	Ras-associating 1.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		ATGCGAATGCTGTCCTCTCCC	0.473			T	MLL	AL								101	349					0	0	0.00361	0	0		A	168265382	A	A	168265382	3	1	1	1	0	0	0	0	1	0	0	0	9647	1580	55	5	263	5	MLLT4	6	168265382	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	8807313	168265382	2849685	508	508											
C6orf120	387263	broad.mit.edu	37	chr6	170102881	170102881	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgtgtccatccccgcgcActtccggcgcccagtgggca	4	6	12	19	6	0	0	0	0	0	0	3	0	3	0	6	2	0	2	6	2	0	1	rs144803739		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr6:170102881A>G	uc003qxb.2	+	1	625	c.326A>G	c.(325-327)CAC>CGC	p.H109R	WDR27_uc010kkw.1_5'Flank|WDR27_uc003qwx.2_5'Flank|WDR27_uc003qwy.2_5'Flank|WDR27_uc011egw.1_5'Flank|WDR27_uc010kkx.2_5'Flank|C6orf120_uc011egx.1_Missense_Mutation_p.H128R	NM_001029863	NP_001025034	Q7Z4R8	CF120_HUMAN	hypothetical protein LOC387263 precursor	109						extracellular region					0		Breast(66;0.000338)		OV - Ovarian serous cystadenocarcinoma(33;9.65e-22)|BRCA - Breast invasive adenocarcinoma(81;1.29e-07)|GBM - Glioblastoma multiforme(31;0.0015)		ATCCCCGCGCACTTCCGGCGC	0.667													4	51					0	0	0.009096	0	0		G	170102881	G	G	170102881	3	3	1	1	0	0	0	0	1	0	0	0	2327	159	6	3	328	3	C6orf120	6	170102881	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1837499	170102881	1012186	509	509											
CHST12	55501	broad.mit.edu	37	chr7	2472729	2472729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcgacgacatccccaactCggagctgagccacctgatcg	10	7	9	15	4	0	2	0	2	0	0	4	5	1	3	4	1	3	1	4	1	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:2472729C>T	uc003smc.2	+	2	590	c.455C>T	c.(454-456)TCG>TTG	p.S152L	CHST12_uc003smd.2_Missense_Mutation_p.S152L	NM_018641	NP_061111	Q9NRB3	CHSTC_HUMAN	carbohydrate sulfotransferase 12	152	Lumenal (Potential).				dermatan sulfate biosynthetic process	integral to Golgi membrane	3'-phosphoadenosine 5'-phosphosulfate binding|chondroitin 4-sulfotransferase activity|protein binding			kidney(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0847)|OV - Ovarian serous cystadenocarcinoma(56;2.25e-13)		ATCCCCAACTCGGAGCTGAGC	0.667													7	119					0	0	0.008291	0	0		T	2472729	T	T	2472729	3	4	1	1	0	0	0	0	1	0	0	0	3403	893	31	1	457	1	CHST12	7	2472729	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08		2472729	156665934	510	510											
IQCE	23288	broad.mit.edu	37	chr7	2618111	2618111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcaatctgcttaccacaggGcacggattttgttcggactc	8	12	9	12	2	2	0	1	0	1	0	4	2	2	2	1	3	2	3	1	3	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:2618111G>A	uc003smo.3	+	8	765	c.581G>A	c.(580-582)GGC>GAC	p.G194D	IQCE_uc010ksm.1_Missense_Mutation_p.G194D|IQCE_uc003sml.1_Missense_Mutation_p.G194D|IQCE_uc011jvy.1_Missense_Mutation_p.G178D|IQCE_uc011jvz.1_Missense_Mutation_p.G129D|IQCE_uc003smk.3_Missense_Mutation_p.G178D|IQCE_uc003smn.3_Missense_Mutation_p.G129D	NM_152558	NP_689771	Q6IPM2	IQCE_HUMAN	IQ motif containing E isoform 1	194	Potential.										0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.23e-13)		TTACCACAGGGCACGGATTTT	0.602													15	91					0	0	0.004007	0	0		A	2618111	A	A	2618111	3	1	1	1	0	0	0	0	1	0	0	0	7822	1217	42	2	611	2	IQCE	7	2618111	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	145382	2618111	156520552	511	511											
SDK1	221935	broad.mit.edu	37	chr7	4008919	4008919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggccagtggctctgtccGgattcctaggttcatgcttc	4	14	11	12	1	3	0	1	0	2	0	6	1	5	1	3	4	1	3	3	4	1	4	rs144938504		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:4008919G>A	uc003smx.2	+	11	1716	c.1577G>A	c.(1576-1578)CGG>CAG	p.R526Q		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	526	Ig-like C2-type 5.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GGCTCTGTCCGGATTCCTAGG	0.502													9	656					0	0	0.006214	0	0		A	4008919	A	A	4008919	3	1	1	1	0	0	0	0	1	0	0	0	13993	1116	39	1	1619	1	SDK1	7	4008919	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1390808	4008919	155129744	512	512											
WIPI2	26100	broad.mit.edu	37	chr7	5266905	5266905	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagtgacagaaatgttcAaccagggcagagccttcgcc	12	6	10	13	1	1	3	1	1	0	2	2	3	1	3	4	1	2	2	4	1	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:5266905A>G	uc003snv.2	+	10	1159	c.943A>G	c.(943-945)AAC>GAC	p.N315D	WIPI2_uc003snw.2_Missense_Mutation_p.N315D|WIPI2_uc003snx.2_Missense_Mutation_p.N297D|WIPI2_uc003sny.2_Missense_Mutation_p.N297D|WIPI2_uc010ksv.2_Missense_Mutation_p.N171D|WIPI2_uc003soa.2_Missense_Mutation_p.N256D|WIPI2_uc003sob.2_Missense_Mutation_p.N58D	NM_015610	NP_056425	Q9Y4P8	WIPI2_HUMAN	WD repeat domain, phosphoinositide interacting 2	315					autophagic vacuole assembly	cytosol|PAS complex|pre-autophagosomal structure membrane	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding			ovary(2)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0925)|OV - Ovarian serous cystadenocarcinoma(56;2.59e-14)		AGAAATGTTCAACCAGGGCAG	0.622													7	55					0	0	0.001984	0	0		G	5266905	G	G	5266905	3	3	1	1	0	0	0	0	1	0	0	0	17397	130	5	3	1015	3	WIPI2	7	5266905	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1257986	5266905	153871758	513	513											
WIPI2	26100	broad.mit.edu	37	chr7	5270512	5270512	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcgcctgcctggaggaCgaggccagcgccctgcgcct	4	5	17	15	4	0	0	0	0	0	0	0	3	0	2	5	5	3	0	5	5	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:5270512C>T	uc003snv.2	+	13	1515	c.1299C>T	c.(1297-1299)GAC>GAT	p.D433D	WIPI2_uc003snw.2_Silent_p.D422D|WIPI2_uc003snx.2_Silent_p.D415D|WIPI2_uc003sny.2_Silent_p.D404D|WIPI2_uc010ksv.2_Silent_p.D289D|WIPI2_uc003soa.2_Silent_p.D363D|WIPI2_uc003sob.2_Silent_p.D176D	NM_015610	NP_056425	Q9Y4P8	WIPI2_HUMAN	WD repeat domain, phosphoinositide interacting 2	433					autophagic vacuole assembly	cytosol|PAS complex|pre-autophagosomal structure membrane	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding			ovary(2)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0925)|OV - Ovarian serous cystadenocarcinoma(56;2.59e-14)		GCCTGGAGGACGAGGCCAGCG	0.632													5	40					0	0	0.001168	0	0		T	5270512	T	T	5270512	2	4	1	1	0	0	0	0	0	0	0	1	17397	535	19	1		1	WIPI2	7	5270512	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3607	5270512	153868151	514	514											
SLC29A4	222962	broad.mit.edu	37	chr7	5334526	5334526	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctacgggtacacggggatgCtgcccaagcggtacacgcag	9	6	14	12	4	1	0	0	0	1	0	1	1	1	1	1	4	6	4	1	4	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:5334526C>T	uc003sod.2	+	6	741	c.580C>T	c.(580-582)CTG>TTG	p.L194L	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Silent_p.L194L|SLC29A4_uc003soe.2_Silent_p.L180L	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	194	Extracellular (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		CACGGGGATGCTGCCCAAGCG	0.498													27	228					0	0	0.003954	0	0		T	5334526	T	T	5334526	2	4	1	1	0	0	0	0	0	0	0	1	14562	796	28	2		2	SLC29A4	7	5334526	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	64014	5334526	153804137	515	515											
TNRC18	84629	broad.mit.edu	37	chr7	5352201	5352201	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcggcgatcttgggccggTtctccacggacggcaggcgc	5	6	17	13	6	2	0	0	0	2	0	3	2	2	1	2	7	0	2	2	7	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:5352201T>C	uc003soi.3	-	27	8670	c.8321A>G	c.(8320-8322)AAC>AGC	p.N2774S		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2774							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CTTGGGCCGGTTCTCCACGGA	0.711													4	18					0	0	0.006214	0	0		C	5352201	C	C	5352201	3	2	1	1	0	0	0	0	1	0	0	0	16364	1725	60	3	601	3	TNRC18	7	5352201	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	17675	5352201	153786462	516	516											
TNRC18	84629	broad.mit.edu	37	chr7	5354738	5354738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggtcttccggctgcggcGcttggcacttggcaccagaa	5	9	14	13	3	1	1	0	0	1	1	2	1	2	1	2	5	1	5	2	5	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:5354738G>A	uc003soi.3	-	26	7253	c.6904C>T	c.(6904-6906)CGC>TGC	p.R2302C		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2302							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CGGCTGCGGCGCTTGGCACTT	0.677													7	19					0	0	0.001984	0	0		A	5354738	A	A	5354738	3	1	1	1	0	0	0	0	1	0	0	0	16364	1087	38	1	2022	1	TNRC18	7	5354738	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2537	5354738	153783925	517	517											
THSD7A	221981	broad.mit.edu	37	chr7	11521576	11521576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacagggatggggaagatgGcatctctgcacagctgtctg	9	8	14	10	0	2	1	0	0	2	1	3	3	2	3	1	4	2	3	1	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:11521576G>A	uc003ssf.3	-	7	2108	c.1856C>T	c.(1855-1857)GCC>GTC	p.A619V		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	619	Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		GGGGAAGATGGCATCTCTGCA	0.493										HNSCC(18;0.044)			5	68					0	0	0.000602	0	0		A	11521576	A	A	11521576	3	1	1	1	0	0	0	0	1	0	0	0	15904	1203	42	2	3201	2	THSD7A	7	11521576	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	6166838	11521576	147617087	518	518											
ITGB8	3696	broad.mit.edu	37	chr7	20418790	20418790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatagaaaaattaaattccGttggaaacgatttatctaga	18	13	6	4	2	1	2	0	0	1	2	2	4	2	3	1	1	1	1	1	1	9	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:20418790G>A	uc003suu.2	+	4	1210	c.505G>A	c.(505-507)GTT>ATT	p.V169I	ITGB8_uc011jyh.1_Missense_Mutation_p.V34I|ITGB8_uc003sut.2_Missense_Mutation_p.V169I	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	169	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						ATTAAATTCCGTTGGAAACGA	0.338													18	122					0	0	0.00499	0	0		A	20418790	A	A	20418790	3	1	1	1	0	0	0	0	1	0	0	0	7917	1145	40	1	519	1	ITGB8	7	20418790	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	8897214	20418790	138719873	519	519											
JAZF1	221895	broad.mit.edu	37	chr7	27934856	27934856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacctgtcggagtgctgctgCggaatgaagaggagggggtg	8	7	19	7	2	0	2	0	1	0	1	1	5	0	5	1	5	3	2	1	5	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:27934856C>T	uc003szn.2	-	3	609	c.368G>A	c.(367-369)CGC>CAC	p.R123H	JAZF1_uc003szm.2_Missense_Mutation_p.R59H	NM_175061	NP_778231	Q86VZ6	JAZF1_HUMAN	JAZF zinc finger 1	123					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcriptional repressor complex	nucleic acid binding|transcription corepressor activity|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131						AGTGCTGCTGCGGAATGAAGA	0.612			T	SUZ12	endometrial stromal tumours								6	22					0	0	0.001984	0	0		T	27934856	T	T	27934856	3	4	1	1	0	0	0	0	1	0	0	0	7962	768	27	1	375	1	JAZF1	7	27934856	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	7516066	27934856	131203807	520	520											
INMT	11185	broad.mit.edu	37	chr7	30795374	30795374	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgctggctttgacattgaAcagctcctacacagtcccca	10	10	8	13	0	0	2	0	2	0	0	2	3	2	2	3	1	4	3	3	1	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:30795374A>G	uc003tbs.1	+	3	715	c.699A>G	c.(697-699)GAA>GAG	p.E233E	FAM188B_uc010kwe.2_Intron|INMT_uc010kwc.1_RNA|INMT_uc010kwd.1_Silent_p.E232E	NM_006774	NP_006765	O95050	INMT_HUMAN	indolethylamine N-methyltransferase	233						cytoplasm	amine N-methyltransferase activity				0						TTGACATTGAACAGCTCCTAC	0.577													12	103					0	0	0.001368	0	0		G	30795374	G	G	30795374	2	3	1	1	0	0	0	0	0	0	0	1	7761	40	2	3		3	INMT	7	30795374	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2860518	30795374	128343289	521	521											
BBS9	27241	broad.mit.edu	37	chr7	33644526	33644526	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagaagaaagatcagtagaAcaagactctacagaactgtt	18	8	8	7	0	2	6	1	0	1	6	2	6	2	6	0	0	3	2	0	0	8	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:33644526A>C	uc003tdn.1	+	22	3084	c.2571A>C	c.(2569-2571)GAA>GAC	p.E857D	BBS9_uc003tdo.1_Missense_Mutation_p.E822D|BBS9_uc003tdp.1_Missense_Mutation_p.E852D|BBS9_uc003tdq.1_Missense_Mutation_p.E817D|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Missense_Mutation_p.E381D|BBS9_uc003tds.1_Missense_Mutation_p.E280D|BBS9_uc003tdt.2_Intron	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	857					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			GATCAGTAGAACAAGACTCTA	0.418									Bardet-Biedl_syndrome				14	51					0	0	0.003163	0	0		C	33644526	C	C	33644526	3	2	1	1	0	0	0	0	1	0	0	0	1343	40	2	5	2653	5	BBS9	7	33644526	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2849152	33644526	125494137	522	522											
GPR141	353345	broad.mit.edu	37	chr7	37780104	37780104	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggctggtgggtgtcattTccattcttttcctcctggtg	2	16	13	10	1	2	0	1	0	1	0	5	0	5	0	3	4	0	1	3	4	0	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:37780104T>C	uc003tfm.1	+	1	109	c.109T>C	c.(109-111)TCC>CCC	p.S37P	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	37	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						GGGTGTCATTTCCATTCTTTT	0.502													11	112					0	0	0.010729	0	0		C	37780104	C	C	37780104	3	2	1	1	0	0	0	0	1	0	0	0	6664	1783	62	3	111	3	GPR141	7	37780104	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	4135578	37780104	121358559	523	523											
INHBA	3624	broad.mit.edu	37	chr7	41729419	41729419	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtagtggttgatgactgtTgagtggaaggacagtgagga	10	10	18	3	1	0	4	0	4	0	0	0	7	0	7	0	5	0	3	0	5	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:41729419T>C	uc003thq.2	-	2	1345	c.1110A>G	c.(1108-1110)TCA>TCG	p.S370S	INHBA_uc003thr.2_Silent_p.S370S	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	370					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						TGATGACTGTTGAGTGGAAGG	0.562										TSP Lung(11;0.080)			7	108					0	0	0.006214	0	0		C	41729419	C	C	41729419	2	2	1	1	0	0	0	0	0	0	0	1	7757	1799	63	3		3	INHBA	7	41729419	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3949315	41729419	117409244	524	524											
TNS3	64759	broad.mit.edu	37	chr7	47408631	47408631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaaggcccaggtccggaaCgagggtgccctgcggatctt	7	6	15	13	3	1	0	0	0	1	0	2	3	2	2	4	5	3	0	4	5	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:47408631C>T	uc003tnv.2	-	17	1979	c.1612G>A	c.(1612-1614)GTT>ATT	p.V538I	TNS3_uc003tnw.2_Missense_Mutation_p.V538I	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	538						focal adhesion	protein binding			ovary(4)	4						AGGTCCGGAACGAGGGTGCCC	0.632													11	76					0	0	0.001368	0	0		T	47408631	T	T	47408631	3	4	1	1	0	0	0	0	1	0	0	0	16369	536	19	1	2785	1	TNS3	7	47408631	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5679212	47408631	111730032	525	525											
ABCA13	154664	broad.mit.edu	37	chr7	48318563	48318563	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaagataaatgatttgtTggtgccatttcttgacttgg	11	16	10	4	0	1	4	0	3	1	1	1	4	1	4	1	2	1	1	1	2	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:48318563T>C	uc003toq.2	+	18	7797	c.7772T>C	c.(7771-7773)TTG>TCG	p.L2591S	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2591					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AATGATTTGTTGGTGCCATTT	0.313													9	147					0	0	0.004482	0	0		C	48318563	C	C	48318563	3	2	1	1	0	0	0	0	1	0	0	0	31	1821	63	3	7671	3	ABCA13	7	48318563	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	909932	48318563	110820100	526	526											
ABCA13	154664	broad.mit.edu	37	chr7	48428702	48428702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggagtcaccctggtgtctGtgaccaaggaatatgagggc	9	8	15	9	1	2	2	1	2	1	0	2	4	2	4	2	4	0	0	2	4	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:48428702G>A	uc003toq.2	+	37	11564	c.11539G>A	c.(11539-11541)GTG>ATG	p.V3847M	ABCA13_uc010kys.1_Missense_Mutation_p.V921M|ABCA13_uc003tos.1_Missense_Mutation_p.V673M|ABCA13_uc010kyt.1_RNA	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3847	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CCTGGTGTCTGTGACCAAGGA	0.537													11	116					0	0	0.001368	0	0		A	48428702	A	A	48428702	3	1	1	1	0	0	0	0	1	0	0	0	31	1377	48	4	11514	4	ABCA13	7	48428702	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	110139	48428702	110709961	527	527											
IKZF1	10320	broad.mit.edu	37	chr7	50444307	50444307	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaatggggaagaatgtgcGgaggatttacgaatgcttga	13	10	15	3	2	0	3	0	2	0	1	0	7	0	6	0	4	3	1	0	4	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:50444307G>A	uc003tow.3	+	5	405	c.237G>A	c.(235-237)GCG>GCA	p.A79A	IKZF1_uc003tox.3_Silent_p.A79A|IKZF1_uc003toy.3_Silent_p.A79A|IKZF1_uc011kck.1_Intron|IKZF1_uc003toz.3_Silent_p.A49A|IKZF1_uc010kyx.2_Intron	NM_006060	NP_006051	Q13422	IKZF1_HUMAN	zinc finger protein, subfamily 1A, 1 (Ikaros)	79					cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding	p.?(74)		haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				AAGAATGTGCGGAGGATTTAC	0.498			D		ALL								13	126					0	0	0.001368	0	0		A	50444307	A	A	50444307	2	1	1	1	0	0	0	0	0	0	0	1	7630	1103	39	1		1	IKZF1	7	50444307	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2015605	50444307	108694356	528	528											
EGFR	1956	broad.mit.edu	37	chr7	55224509	55224509	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactggatattctgaaaacCgtaaaggaaatcacaggttt	16	10	9	6	1	2	1	1	1	1	0	2	4	2	3	1	3	2	2	1	3	7	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:55224509C>T	uc003tqk.2	+	10	1437	c.1191C>T	c.(1189-1191)ACC>ACT	p.T397T	EGFR_uc003tqh.2_Silent_p.T397T|EGFR_uc003tqi.2_Silent_p.T397T|EGFR_uc003tqj.2_Silent_p.T397T|EGFR_uc010kzg.1_Silent_p.T352T|EGFR_uc011kco.1_Silent_p.T344T|EGFR_uc011kcp.1_RNA|EGFR_uc011kcq.1_RNA	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	397	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	TTCTGAAAACCGTAAAGGAAA	0.393		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			16	121					0	0	0.003163	0	0		T	55224509	T	T	55224509	2	4	1	1	0	0	0	0	0	0	0	1	4973	639	23	1		1	EGFR	7	55224509	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4780202	55224509	103914154	529	529											
ZNF479	90827	broad.mit.edu	37	chr7	57194347	57194347	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacatcacatctctatataAattccgctgagcacaatcca	15	11	3	12	1	2	1	1	1	1	0	5	1	4	1	2	0	2	2	2	0	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:57194347A>T	uc010kzo.2	-	3	389	c.118T>A	c.(118-120)TTA>ATA	p.L40I		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	40	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TCTCTATATAAATTCCGCTGA	0.388													15	180					0	0	0.006122	0	0		T	57194347	T	T	57194347	3	4	1	1	0	0	0	0	1	0	0	0	17958	11	1	5	1468	5	ZNF479	7	57194347	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1969838	57194347	101944316	530	530											
ZNF107	51427	broad.mit.edu	37	chr7	64168653	64168653	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaatagacataagataatTcatactggagagaaacctta	18	11	6	6	0	1	3	1	0	0	3	1	5	1	4	1	1	2	0	1	1	7	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:64168653T>A	uc003ttd.2	+	7	2757	c.1971T>A	c.(1969-1971)ATT>ATA	p.I657I	ZNF107_uc003tte.2_Silent_p.I657I	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	657	C2H2-type 21.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				ATAAGATAATTCATACTGGAG	0.373													11	50					0	0	0.010729	0	0		A	64168653	A	A	64168653	2	1	1	1	0	0	0	0	0	0	0	1	17740	1771	62	5		5	ZNF107	7	64168653	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	6974306	64168653	94970010	531	531											
ASL	435	broad.mit.edu	37	chr7	65546853	65546853	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcatggagaagttcaacGcgtccattgcctacgaccgg	10	8	10	13	4	2	1	2	0	0	1	3	3	3	1	4	2	3	1	4	2	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:65546853G>A	uc003tuo.2	+	3	187	c.76G>A	c.(76-78)GCG>ACG	p.A26T	ASL_uc011kdu.1_Missense_Mutation_p.A26T|ASL_uc010kzx.1_Missense_Mutation_p.A26T|ASL_uc011kdv.1_Missense_Mutation_p.A26T|ASL_uc003tup.2_Missense_Mutation_p.A26T|ASL_uc003tur.2_Missense_Mutation_p.A26T|ASL_uc003tuq.2_Missense_Mutation_p.A26T	NM_000048	NP_000039	P04424	ARLY_HUMAN	argininosuccinate lyase isoform 1	26					arginine biosynthetic process via ornithine|arginine catabolic process|urea cycle	cytosol	argininosuccinate lyase activity			breast(2)	2					L-Arginine(DB00125)	GAAGTTCAACGCGTCCATTGC	0.587													6	50					0	0	0.00308	0	0		A	65546853	A	A	65546853	3	1	1	1	0	0	0	0	1	0	0	0	1045	1087	38	1	82	1	ASL	7	65546853	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1378200	65546853	93591810	532	532											
CALN1	83698	broad.mit.edu	37	chr7	71571249	71571249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgaagccgttcccatccCggtccagaacccgaaaggcc	11	5	10	15	3	0	3	0	1	0	2	3	4	3	3	6	2	2	1	6	2	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:71571249C>T	uc003twa.3	-	3	676	c.149G>A	c.(148-150)CGG>CAG	p.R50Q	CALN1_uc003twb.3_Missense_Mutation_p.R92Q|CALN1_uc003twc.3_Missense_Mutation_p.R50Q	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2	50	EF-hand 1.|Cytoplasmic (Potential).|1 (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				GTTCCCATCCCGGTCCAGAAC	0.542													10	36					0	0	0.010729	0	0		T	71571249	T	T	71571249	3	4	1	1	0	0	0	0	1	0	0	0	2594	652	23	1	526	1	CALN1	7	71571249	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	6024396	71571249	87567414	533	533											
CLDN4	1364	broad.mit.edu	37	chr7	73245572	73245572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtaatgggcatcgcgctggCcgtcctgggctggctggccg	3	8	18	12	4	0	0	0	0	0	0	2	0	1	0	3	6	0	5	3	6	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:73245572C>T	uc003tzi.3	+	1	380	c.41C>T	c.(40-42)GCC>GTC	p.A14V	RFC2_uc011kfa.1_Intron|CLDN4_uc003tzh.1_RNA	NM_001305	NP_001296	O14493	CLD4_HUMAN	claudin 4	14	Helical; (Potential).				calcium-independent cell-cell adhesion	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity|transmembrane receptor activity				0		Lung NSC(55;0.159)				ATCGCGCTGGCCGTCCTGGGC	0.657													9	50					0	0	0.006214	0	0		T	73245572	T	T	73245572	3	4	1	1	0	0	0	0	1	0	0	0	3490	739	26	2	43	2	CLDN4	7	73245572	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1674323	73245572	85893091	534	534											
LAT2	7462	broad.mit.edu	37	chr7	73638400	73638400	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggggacctcagcctgtcActggccctgaagactggccc	8	6	13	14	0	2	3	2	1	0	2	2	4	2	4	4	4	1	0	4	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:73638400A>G	uc003uag.2	+	12	1051	c.501A>G	c.(499-501)TCA>TCG	p.S167S	RFC2_uc011kfa.1_Intron|LAT2_uc003uah.2_Silent_p.S167S|LAT2_uc003uai.2_Silent_p.S167S|LAT2_uc010lbo.2_RNA	NM_032464	NP_115853	Q9GZY6	NTAL_HUMAN	linker for activation of T cells family member	167	Cytoplasmic (Potential).				B cell activation|B cell receptor signaling pathway|calcium-mediated signaling|mast cell degranulation	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding				0						TCAGCCTGTCACTGGCCCTGA	0.597													5	50					0	0	0.001984	0	0		G	73638400	G	G	73638400	2	3	1	1	0	0	0	0	0	0	0	1	8661	146	6	3		3	LAT2	7	73638400	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	392828	73638400	85500263	535	535											
GTF2I	2969	broad.mit.edu	37	chr7	74148279	74148279	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcagacatgagcttctgaAttcaacacgtgaagatttac	13	13	7	8	1	3	5	2	3	1	2	3	5	3	5	0	0	3	1	0	0	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:74148279A>G	uc003uau.2	+	16	1689	c.1319A>G	c.(1318-1320)AAT>AGT	p.N440S	GTF2I_uc003uav.2_Missense_Mutation_p.N419S|GTF2I_uc003uaw.2_Missense_Mutation_p.N420S|GTF2I_uc003uay.2_Missense_Mutation_p.N418S|GTF2I_uc003uax.2_Missense_Mutation_p.N399S	NM_032999	NP_127492	P78347	GTF2I_HUMAN	general transcription factor IIi isoform 1	440	GTF2I-like 2.				negative regulation of angiogenesis|signal transduction|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0						GAGCTTCTGAATTCAACACGT	0.358													4	190					0	0	0.009096	0	0		G	74148279	G	G	74148279	3	3	1	1	0	0	0	0	1	0	0	0	6883	101	4	3	1377	3	GTF2I	7	74148279	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	509879	74148279	84990384	536	536											
POM121C	100101267	broad.mit.edu	37	chr7	75068449	75068449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaagaagcggggactccaCtggccaccaggggctcaaat	13	4	12	12	1	1	1	1	0	0	1	2	2	2	2	3	5	1	1	3	5	4	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:75068449C>T	uc010lde.1	-	4	1007	c.1007G>A	c.(1006-1008)AGT>AAT	p.S336N	POM121C_uc003udk.3_Missense_Mutation_p.S94N			A8CG34	P121C_HUMAN	Homo sapiens POM121-2 mRNA for nuclear pore membrane protein 121-2, partial cds.	336	Required for targeting to the nucleus and nuclear pore complex.|Pore side (Potential).|Ser-rich.				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						GGGGACTCCACTGGCCACCAG	0.468													7	278					0	0	0.001984	0	0		T	75068449	T	T	75068449	3	4	1	1	0	0	0	0	1	0	0	0	12259	565	20	4	2722	4	POM121C	7	75068449	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	920170	75068449	84070214	537	537											
RSBN1L	222194	broad.mit.edu	37	chr7	77379112	77379112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaccagcctaatggaggtGcatcggttatccatgcctac	10	9	10	12	1	0	0	0	0	0	0	2	1	1	1	4	3	5	3	4	3	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:77379112G>A	uc010ldt.1	+	3	1119	c.1075G>A	c.(1075-1077)GCA>ACA	p.A359T	RSBN1L_uc003ugm.2_Missense_Mutation_p.A141T	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	359						nucleus				ovary(1)	1						TAATGGAGGTGCATCGGTTAT	0.438													5	175					0	0	0.000602	0	0		A	77379112	A	A	77379112	3	1	1	1	0	0	0	0	1	0	0	0	13722	1319	46	2	1085	2	RSBN1L	7	77379112	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2310663	77379112	81759551	538	538											
GNAI1	2770	broad.mit.edu	37	chr7	79828642	79828642	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattgtggaaagatagtggTgtacaagcctgtttcaacag	13	11	12	5	0	1	2	1	0	0	2	1	3	1	3	1	2	3	2	1	2	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:79828642T>C	uc003uhb.1	+	4	742	c.405T>C	c.(403-405)GGT>GGC	p.G135G	GNAI1_uc011kgt.1_Silent_p.G83G	NM_002069	NP_002060	P63096	GNAI1_HUMAN	guanine nucleotide binding protein (G protein),	135					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody|nucleus	G-protein beta/gamma-subunit complex binding|GTP binding|metabotropic serotonin receptor binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						AAGATAGTGGTGTACAAGCCT	0.403													15	60					0	0	0.004007	0	0		C	79828642	C	C	79828642	2	2	1	1	0	0	0	0	0	0	0	1	6519	1683	59	3		3	GNAI1	7	79828642	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2449530	79828642	79310021	539	539											
SEMA3D	223117	broad.mit.edu	37	chr7	84628962	84628962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtctttgtatctcaaccGtgactcagccaatagatcct	10	13	7	11	1	3	2	2	1	2	1	5	2	4	2	3	0	2	2	3	0	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:84628962G>A	uc003uic.2	-	17	2168	c.2128C>T	c.(2128-2130)CGG>TGG	p.R710W	SEMA3D_uc010led.2_Missense_Mutation_p.R710W|SEMA3D_uc003uib.2_Missense_Mutation_p.R349W	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	710					cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						TATCTCAACCGTGACTCAGCC	0.488													15	140					0	0	0.00245	0	0		A	84628962	A	A	84628962	3	1	1	1	0	0	0	0	1	0	0	0	14052	1144	40	1	209	1	SEMA3D	7	84628962	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4800320	84628962	74509701	540	540											
ABCB1	5243	broad.mit.edu	37	chr7	87173503	87173503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaggcctccatttataatgGcacaaaatacaccaacaaca	17	7	5	12	0	0	0	0	0	0	0	1	0	1	0	3	2	3	2	3	2	7	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:87173503G>A	uc003uiz.1	-	18	2571	c.2153C>T	c.(2152-2154)GCC>GTC	p.A718V	ABCB1_uc011khc.1_Missense_Mutation_p.A654V	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	718	ABC transmembrane type-1 2.|Helical; (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	ATTTATAATGGCACAAAATAC	0.358													21	138					0	0	0.008871	0	0		A	87173503	A	A	87173503	3	1	1	1	0	0	0	0	1	0	0	0	40	1203	42	2	1737	2	ABCB1	7	87173503	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2544541	87173503	71965160	541	541											
SAMD9L	219285	broad.mit.edu	37	chr7	92762328	92762328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatcagagggtgaatgataCgcacacctgtgtatctccca	12	9	9	11	1	2	3	1	2	1	1	3	3	2	3	2	1	1	2	2	1	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:92762328C>T	uc003umh.1	-	5	4173	c.2957G>A	c.(2956-2958)CGT>CAT	p.R986H	SAMD9L_uc003umj.1_Missense_Mutation_p.R986H|SAMD9L_uc003umi.1_Missense_Mutation_p.R986H|SAMD9L_uc010lfb.1_Missense_Mutation_p.R986H|SAMD9L_uc003umk.1_Missense_Mutation_p.R986H|SAMD9L_uc010lfc.1_Missense_Mutation_p.R986H|SAMD9L_uc010lfd.1_Missense_Mutation_p.R986H|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	986										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			GTGAATGATACGCACACCTGT	0.378													50	142					0	0	0.00361	0	0		T	92762328	T	T	92762328	3	4	1	1	0	0	0	0	1	0	0	0	13852	536	19	1	1801	1	SAMD9L	7	92762328	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5588825	92762328	66376335	542	542											
SLC25A13	10165	broad.mit.edu	37	chr7	95799420	95799420	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctttgtgcataaatttatcCctcacaaaatcgttcacctt	11	16	3	11	1	3	0	2	0	1	0	5	0	4	0	2	0	1	2	2	0	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:95799420C>A	uc003uof.3	-	13	1439	c.1248G>T	c.(1246-1248)AGG>AGT	p.R416S	SLC25A13_uc003uog.3_Missense_Mutation_p.R417S|SLC25A13_uc011kik.1_Missense_Mutation_p.R308S	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	416	Solcar 1.				ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	TAAATTTATCCCTCACAAAAT	0.338													15	225					2.32078e-09	2.57522e-09	0.003163	1	0		A	95799420	A	A	95799420	3	1	1	1	0	0	0	0	1	0	0	0	14500	622	22	5	803	5	SLC25A13	7	95799420	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3037092	95799420	63339243	543	543											
TRRAP	8295	broad.mit.edu	37	chr7	98567888	98567888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaagcaggagccccgggagCgggagaacagcgagtccaaa	13	2	15	11	3	1	1	1	0	0	1	2	5	2	3	3	3	5	1	3	3	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:98567888C>T	uc003upp.2	+	51	7854	c.7645C>T	c.(7645-7647)CGG>TGG	p.R2549W	TRRAP_uc011kis.1_Missense_Mutation_p.R2531W|TRRAP_uc003upr.2_Missense_Mutation_p.R2248W	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2549					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GCCCCGGGAGCGGGAGAACAG	0.637													5	55					0	0	0.001168	0	0		T	98567888	T	T	98567888	3	4	1	1	0	0	0	0	1	0	0	0	16627	759	27	1	7785	1	TRRAP	7	98567888	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2768468	98567888	60570775	544	544											
PTCD1	26024	broad.mit.edu	37	chr7	99032463	99032463	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaagtaccagtacggggTgtttctccggcctcgccata	9	9	11	12	3	1	1	0	0	1	1	3	1	1	1	4	3	2	3	4	3	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:99032463T>A	uc003uqh.2	-	2	534	c.403A>T	c.(403-405)ACC>TCC	p.T135S	PTCD1_uc011kiw.1_Missense_Mutation_p.T184S	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	135	PPR 1.									ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			CAGTACGGGGTGTTTCTCCGG	0.552													38	194					0	0	0.004878	0	0		A	99032463	A	A	99032463	3	1	1	1	0	0	0	0	1	0	0	0	12749	1696	59	5	1727	5	PTCD1	7	99032463	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	464575	99032463	60106200	545	545											
ZKSCAN5	23660	broad.mit.edu	37	chr7	99123463	99123463	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagggacaatatggagcTcatagtgaagcagatttctg	12	10	12	7	0	2	2	1	1	1	1	3	4	3	4	1	2	2	2	1	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:99123463T>C	uc003uqv.2	+	6	924	c.800T>C	c.(799-801)CTC>CCC	p.L267P	ZKSCAN5_uc010lfx.2_Missense_Mutation_p.L267P|ZKSCAN5_uc003uqw.2_Missense_Mutation_p.L267P|ZKSCAN5_uc003uqx.2_Missense_Mutation_p.L194P|ZKSCAN5_uc003uqy.2_Missense_Mutation_p.L3P	NM_145102	NP_659570	Q9Y2L8	ZKSC5_HUMAN	zinc finger with KRAB and SCAN domains 5	267	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					AATATGGAGCTCATAGTGAAG	0.423													29	195					0	0	0.007291	0	0		C	99123463	C	C	99123463	3	2	1	1	0	0	0	0	1	0	0	0	17715	1551	54	3	818	3	ZKSCAN5	7	99123463	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	91000	99123463	60015200	546	546											
ZKSCAN1	7586	broad.mit.edu	37	chr7	99627895	99627895	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggtgaagatcgaggacatGgctgtgtccctcattctgga	9	11	13	8	1	2	2	1	1	1	1	4	5	3	4	1	4	0	1	1	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:99627895G>T	uc003usk.1	+	5	915	c.696G>T	c.(694-696)ATG>ATT	p.M232I	ZKSCAN1_uc003usl.1_Missense_Mutation_p.M196I|ZKSCAN1_uc003usm.1_Missense_Mutation_p.M19I	NM_003439	NP_003430	P17029	ZKSC1_HUMAN	zinc finger protein 36	232	KRAB.				viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			TCGAGGACATGGCTGTGTCCC	0.502													15	95					0.000219431	0.000230327	0.00245	1	0		T	99627895	T	T	99627895	3	4	1	1	0	0	0	0	1	0	0	0	17711	1348	47	5	710	5	ZKSCAN1	7	99627895	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	504432	99627895	59510768	547	547											
TAF6	6878	broad.mit.edu	37	chr7	99709350	99709350	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgggcaggatcactcaCgtatttttctagatagagcg	11	11	12	7	2	3	2	2	0	1	2	3	4	3	4	0	3	1	2	0	3	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:99709350C>T	uc003uti.2	-	9	981	c.900_splice	c.e9+1	p.Y300_splice	TAF6_uc003utg.2_Splice_Site_p.Y222_splice|TAF6_uc003uth.2_Splice_Site_p.Y357_splice|TAF6_uc003utk.2_Splice_Site_p.Y300_splice|TAF6_uc011kji.1_Splice_Site_p.Y337_splice|TAF6_uc003utj.2_Splice_Site_p.Y290_splice|TAF6_uc003utl.2_Splice_Site_p.Y300_splice|TAF6_uc003utm.2_Splice_Site_p.Y300_splice|TAF6_uc003utn.1_Splice_Site	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha						negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GGATCACTCACGTATTTTTCT	0.463													10	74					0	0	0.006214	0	0		T	99709350	T	T	99709350	5	4	1	1	0	0	0	0	0	0	1	0	15555	550	19	1	1160	1	TAF6	7	99709350	Splice_Site	SNP	C	TCGA-B7-5816-01A-21D-1600-08	81455	99709350	59429313	548	548											
SPDYE3	441272	broad.mit.edu	37	chr7	99913460	99913460	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaagatctgagggtgtcAgacaaggtaaggttgttctc	12	10	13	6	0	3	3	1	1	2	2	4	4	3	3	0	3	0	3	0	3	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:99913460A>G	uc003uug.1	+	2	363	c.123A>G	c.(121-123)TCA>TCG	p.S41S		NM_001004351	NP_001004351	A6NKU9	SPDE3_HUMAN	speedy homolog E3	418											0						TGAGGGTGTCAGACAAGGTAA	0.522													6	326					0	0	0.00308	0	0		G	99913460	G	G	99913460	2	3	1	1	0	0	0	0	0	0	0	1	15055	175	7	3		3	SPDYE3	7	99913460	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	204110	99913460	59225203	549	549											
ZAN	7455	broad.mit.edu	37	chr7	100388641	100388641	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagaaccgcaagaatgacAtgatgctgcccagtggcgcc	13	5	11	12	2	0	4	0	2	0	2	0	4	0	4	3	1	3	2	3	1	4	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:100388641A>G	uc003uwj.2	+	41	7600	c.7435A>G	c.(7435-7437)ATG>GTG	p.M2479V	ZAN_uc003uwk.2_Missense_Mutation_p.M2479V|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Intron	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2479	VWFD 4.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CAAGAATGACATGATGCTGCC	0.607													3	19					0	0	0.004672	0	0		G	100388641	G	G	100388641	3	3	1	1	0	0	0	0	1	0	0	0	17539	217	8	3	7588	3	ZAN	7	100388641	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	475181	100388641	58750022	550	550											
MUC17	140453	broad.mit.edu	37	chr7	100678670	100678670	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctacacctgctgaaggtAccagcatgccaacctcaact	11	8	6	16	0	1	1	1	1	0	0	2	1	2	1	5	1	7	3	5	1	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:100678670A>G	uc003uxp.1	+	3	4026	c.3973A>G	c.(3973-3975)ACC>GCC	p.T1325A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1325	Extracellular (Potential).|20.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TGCTGAAGGTACCAGCATGCC	0.463													41	359					0	0	0.006999	0	0		G	100678670	G	G	100678670	3	3	1	1	0	0	0	0	1	0	0	0	9992	391	14	3	3983	3	MUC17	7	100678670	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	290029	100678670	58459993	551	551											
ZNHIT1	10467	broad.mit.edu	37	chr7	100866016	100866016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcgggactccctcagctcGgcaagagactgcctcagttt	8	8	11	14	3	2	1	2	0	0	1	4	3	3	2	2	2	2	3	2	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:100866016G>A	uc003uye.2	+	2	646	c.154G>A	c.(154-156)GGC>AGC	p.G52S	ZNHIT1_uc003uyf.2_RNA	NM_006349	NP_006340	O43257	ZNHI1_HUMAN	zinc finger, HIT domain containing 1	52							metal ion binding|protein binding			large_intestine(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					CCCTCAGCTCGGCAAGAGACT	0.662													6	77					0	0	0.001984	0	0		A	100866016	A	A	100866016	3	1	1	1	0	0	0	0	1	0	0	0	18231	1116	39	1	160	1	ZNHIT1	7	100866016	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	187346	100866016	58272647	552	552											
SLC26A5	375611	broad.mit.edu	37	chr7	103038409	103038409	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgttccaacgacatccacaTtgtatgattctttcaagtta	11	15	6	9	1	2	1	1	1	1	0	4	2	4	1	2	0	1	3	2	0	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:103038409T>C	uc003vbz.2	-	9	1177	c.941A>G	c.(940-942)AAT>AGT	p.N314S	SLC26A5_uc003vbt.1_Missense_Mutation_p.N314S|SLC26A5_uc003vbu.1_Missense_Mutation_p.N314S|SLC26A5_uc003vbv.1_Missense_Mutation_p.N314S|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Missense_Mutation_p.N314S|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_RNA	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	314	Extracellular (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						GACATCCACATTGTATGATTC	0.373													16	145					0	0	0.00499	0	0		C	103038409	C	C	103038409	3	2	1	1	0	0	0	0	1	0	0	0	14545	1493	52	3	1382	3	SLC26A5	7	103038409	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2172393	103038409	56100254	553	553											
ORC5L	5001	broad.mit.edu	37	chr7	103824586	103824586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaccttctcctttaaccaCgggttcacaatatttaggaa	11	14	6	10	1	2	0	1	0	1	0	3	1	2	1	3	2	2	2	3	2	6	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:103824586C>T	uc003vcb.2	-	7	829	c.718G>A	c.(718-720)GTG>ATG	p.V240M	ORC5L_uc011klp.1_Missense_Mutation_p.V108M|ORC5L_uc003vcc.2_Missense_Mutation_p.V240M	NM_002553	NP_002544	O43913	ORC5_HUMAN	origin recognition complex subunit 5 isoform 1	240					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	cytoplasm|nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|identical protein binding				0						CCTTTAACCACGGGTTCACAA	0.249													6	38					0	0	0.001984	0	0		T	103824586	T	T	103824586	3	4	1	1	0	0	0	0	1	0	0	0	11284	536	19	1	719	1	ORC5L	7	103824586	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	786177	103824586	55314077	554	554											
PIK3CG	5294	broad.mit.edu	37	chr7	106522606	106522606	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagactgaatctttggaTctatgcctcctgccatatgg	8	13	11	9	0	2	2	0	1	2	1	3	4	3	3	3	3	2	0	3	3	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:106522606T>A	uc003vdv.3	+	7	2668	c.2583T>A	c.(2581-2583)GAT>GAA	p.D861E	PIK3CG_uc003vdu.2_Missense_Mutation_p.D861E|PIK3CG_uc003vdw.2_Missense_Mutation_p.D861E	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	861	PI3K/PI4K.				G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						AATCTTTGGATCTATGCCTCC	0.343													24	86					0	0	0.00278	0	0		A	106522606	A	A	106522606	3	1	1	1	0	0	0	0	1	0	0	0	11935	1432	50	5	2605	5	PIK3CG	7	106522606	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2698020	106522606	52616057	555	555											
HBP1	26959	broad.mit.edu	37	chr7	106820374	106820374	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacaaatcagatgcctaaTgcagtacagaaactcctgtt	16	9	7	9	0	1	3	1	0	0	3	2	3	2	3	2	0	4	3	2	0	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:106820374T>C	uc003vdy.2	+	2	222	c.36T>C	c.(34-36)AAT>AAC	p.N12N	HBP1_uc011klv.1_Silent_p.N22N|HBP1_uc003vdz.2_Silent_p.N12N|HBP1_uc003vea.2_Silent_p.N12N|HBP1_uc003veb.1_Silent_p.N12N	NM_012257	NP_036389	O60381	HBP1_HUMAN	HMG-box transcription factor 1	12					cell cycle arrest|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	DNA binding			skin(1)	1						AGATGCCTAATGCAGTACAGA	0.418													23	186					0	0	0.00333	0	0		C	106820374	C	C	106820374	2	2	1	1	0	0	0	0	0	0	0	1	7001	1461	51	3		3	HBP1	7	106820374	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	297768	106820374	52318289	556	556											
LAMB4	22798	broad.mit.edu	37	chr7	107692696	107692696	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttcatttagctgcatgatTtgtcttctatagaggaaata	11	17	8	5	0	3	2	1	1	2	1	3	3	3	3	0	1	2	3	0	1	5	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:107692696T>G	uc010ljo.1	-	26	3846	c.3762A>C	c.(3760-3762)CAA>CAC	p.Q1254H	LAMB4_uc003vey.2_Missense_Mutation_p.Q1254H|LAMB4_uc010ljp.1_Missense_Mutation_p.Q223H	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	1254	Domain II.|Potential.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						GCTGCATGATTTGTCTTCTAT	0.333													18	145					0	0	0.008871	0	0		G	107692696	G	G	107692696	3	3	1	1	0	0	0	0	1	0	0	0	8629	1838	64	5	1559	5	LAMB4	7	107692696	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	872322	107692696	51445967	557	557											
LAMB4	22798	broad.mit.edu	37	chr7	107738871	107738871	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcagcccagggggtcggtgGcgcttagtccgtagtggttg	4	9	19	9	3	0	0	0	0	0	0	2	0	1	0	2	6	1	4	2	6	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:107738871G>A	uc010ljo.1	-	11	1421	c.1337C>T	c.(1336-1338)GCC>GTC	p.A446V	LAMB4_uc003vey.2_Missense_Mutation_p.A446V	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	446	Laminin EGF-like 3.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						GGGGTCGGTGGCGCTTAGTCC	0.547													7	75					0	0	0.001984	0	0		A	107738871	A	A	107738871	3	1	1	1	0	0	0	0	1	0	0	0	8629	1203	42	2	4044	2	LAMB4	7	107738871	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	46175	107738871	51399792	558	558											
NRCAM	4897	broad.mit.edu	37	chr7	107824928	107824928	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccaatgctgttcactgcCatcacgcggaaggagtagtt	9	11	10	11	2	2	0	2	0	0	0	3	2	3	2	2	2	2	4	2	2	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:107824928C>A	uc003vfb.2	-	21	2637	c.2166G>T	c.(2164-2166)ATG>ATT	p.M722I	NRCAM_uc003vfc.2_Missense_Mutation_p.M706I|NRCAM_uc011kmk.1_Missense_Mutation_p.M717I|NRCAM_uc003vfd.2_Missense_Mutation_p.M698I|NRCAM_uc003vfe.2_Missense_Mutation_p.M698I	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	722	Fibronectin type-III 1.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						TGTTCACTGCCATCACGCGGA	0.547													10	64					0.000442599	0.000461099	0.006214	1	0		A	107824928	A	A	107824928	3	1	1	1	0	0	0	0	1	0	0	0	10663	594	21	5	1830	5	NRCAM	7	107824928	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	86057	107824928	51313735	559	559											
ANKRD7	56311	broad.mit.edu	37	chr7	117865046	117865046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaaatatgatgtaaatatGcaggacaaaaaatacaggtg	21	8	9	3	0	0	2	0	1	0	1	0	3	0	3	0	2	2	2	0	2	10	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:117865046G>A	uc003vji.2	+	1	335	c.162G>A	c.(160-162)ATG>ATA	p.M54I		NM_019644	NP_062618	Q92527	ANKR7_HUMAN	ankyrin repeat domain 7	54					male gonad development						0						ATGTAAATATGCAGGACAAAA	0.458													10	95					0	0	0.010729	0	0		A	117865046	A	A	117865046	3	1	1	1	0	0	0	0	1	0	0	0	686	1319	46	2	164	2	ANKRD7	7	117865046	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	10040118	117865046	41273617	560	560											
PTPRZ1	5803	broad.mit.edu	37	chr7	121659280	121659280	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcgtgtcagccctgacttTtatctgtctagtggttcttg	5	17	10	9	1	4	1	1	1	3	0	5	2	4	1	1	1	1	1	1	1	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:121659280T>G	uc003vjy.2	+	13	5341	c.4946T>G	c.(4945-4947)TTT>TGT	p.F1649C	PTPRZ1_uc003vjz.2_Missense_Mutation_p.F789C|PTPRZ1_uc011knt.1_Missense_Mutation_p.F239C	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1649	Helical; (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						GCCCTGACTTTTATCTGTCTA	0.413													54	117					0	0	0.00361	0	0		G	121659280	G	G	121659280	3	3	1	1	0	0	0	0	1	0	0	0	12839	1841	64	5	4996	5	PTPRZ1	7	121659280	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3794234	121659280	37479383	561	561											
AASS	10157	broad.mit.edu	37	chr7	121773676	121773676	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcggggcccttctctcccaGgcgttcacatcctccctccg	4	9	9	19	3	2	0	1	0	1	0	7	0	6	0	5	3	1	1	5	3	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:121773676G>T	uc003vka.2	-	1	201	c.105C>A	c.(103-105)GCC>GCA	p.A35A	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Silent_p.A35A|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	35	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	TTCTCTCCCAGGCGTTCACAT	0.577													14	103					0.000219431	0.000230327	0.00245	1	0		T	121773676	T	T	121773676	2	4	1	1	0	0	0	0	0	0	0	1	24	987	35	5		5	AASS	7	121773676	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	114396	121773676	37364987	562	562											
CADPS2	93664	broad.mit.edu	37	chr7	122269329	122269329	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attttatctgccaattgcagCcggccatcaagttcccttct	8	14	6	13	1	3	0	1	0	2	0	4	0	4	0	4	1	3	2	4	1	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:122269329C>T	uc010lkp.2	-	4	1003	c.840G>A	c.(838-840)CGG>CGA	p.R280R	CADPS2_uc010lkq.2_Silent_p.R280R	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	280					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						CCAATTGCAGCCGGCCATCAA	0.358													8	32					0	0	0.004482	0	0		T	122269329	T	T	122269329	2	4	1	1	0	0	0	0	0	0	0	1	2574	726	26	2		2	CADPS2	7	122269329	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	495653	122269329	36869334	563	563											
RNF148	378925	broad.mit.edu	37	chr7	122342177	122342177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaggtgtaagtctccagaCgcaatctaagtaaaagtagg	14	10	10	7	1	3	1	0	0	3	1	4	1	3	1	1	2	0	4	1	2	7	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:122342177C>T	uc003vkk.1	-	1	845	c.628G>A	c.(628-630)GTC>ATC	p.V210I	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron|RNF133_uc003vkj.1_5'Flank|RNF148_uc010lkr.1_Intron	NM_198085	NP_932351	Q8N7C7	RN148_HUMAN	ring finger protein 148 precursor	210						integral to membrane	zinc ion binding				0						AGTCTCCAGACGCAATCTAAG	0.448													18	169					0	0	0.007413	0	0		T	122342177	T	T	122342177	3	4	1	1	0	0	0	0	1	0	0	0	13474	536	19	1	293	1	RNF148	7	122342177	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	72848	122342177	36796486	564	564											
GRM8	2918	broad.mit.edu	37	chr7	126883204	126883204	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatccagtagaacttggCggtcaagaggaagaaacaag	16	5	14	6	1	1	3	1	0	0	3	2	6	2	5	1	4	2	1	1	4	6	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:126883204C>A	uc003vlr.2	-	1	366	c.55G>T	c.(55-57)GCC>TCC	p.A19S	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.A19S|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	19					negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TAGAACTTGGCGGTCAAGAGG	0.478										HNSCC(24;0.065)			21	127					2.37509e-13	2.68727e-13	0.010504	1	0		A	126883204	A	A	126883204	3	1	1	1	0	0	0	0	1	0	0	0	6819	768	27	5	2761	5	GRM8	7	126883204	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4541027	126883204	32255459	565	565											
FLNC	2318	broad.mit.edu	37	chr7	128483511	128483511	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtgctgaccaagggagcCggcaaggccaagctggatgt	10	5	16	10	2	0	1	0	1	0	0	0	3	0	3	3	5	3	3	3	5	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:128483511C>T	uc003vnz.3	+	18	2900	c.2691C>T	c.(2689-2691)GCC>GCT	p.A897A	FLNC_uc003voa.3_Silent_p.A897A	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	897	Filamin 7.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CCAAGGGAGCCGGCAAGGCCA	0.592													6	45					0	0	0.001984	0	0		T	128483511	T	T	128483511	2	4	1	1	0	0	0	0	0	0	0	1	5949	639	23	1		1	FLNC	7	128483511	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1600307	128483511	30655152	566	566											
AKR1B1	231	broad.mit.edu	37	chr7	134130027	134130027	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagttcctgttgtagcTgagtaaggtggtcatatcct	7	14	10	10	0	1	1	1	1	0	0	4	1	4	1	4	2	1	5	4	2	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:134130027T>G	uc003vrp.1	-	9	945	c.871A>C	c.(871-873)AGC>CGC	p.S291R	AKR1B1_uc003vrq.1_RNA	NM_001628	NP_001619	P15121	ALDR_HUMAN	aldo-keto reductase family 1, member B1	291					C21-steroid hormone biosynthetic process|carbohydrate metabolic process|response to stress	cytosol|extracellular space|nucleus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding			ovary(3)	3					NADH(DB00157)|Sulindac(DB00605)	CTGTTGTAGCTGAGTAAGGTG	0.438													3	26					0	0	0.004672	0	0		G	134130027	G	G	134130027	3	3	1	1	0	0	0	0	1	0	0	0	466	1580	55	5	87	5	AKR1B1	7	134130027	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	5646516	134130027	25008636	567	567											
SLC13A4	26266	broad.mit.edu	37	chr7	135380132	135380132	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacttgcagcccaggaacaGccagtgcatccagaaccagc	12	5	9	15	0	1	1	1	0	0	1	2	2	2	2	4	1	7	2	4	1	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:135380132G>A	uc003vta.2	-	9	1689	c.1000C>T	c.(1000-1002)CTG>TTG	p.L334L	SLC13A4_uc003vtb.2_Silent_p.L335L	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	334						integral to plasma membrane	sodium:sulfate symporter activity				0						CCCAGGAACAGCCAGTGCATC	0.577													11	61					0	0	0.010729	0	0		A	135380132	A	A	135380132	2	1	1	1	0	0	0	0	0	0	0	1	14419	962	34	2		2	SLC13A4	7	135380132	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1250105	135380132	23758531	568	568											
KLRG2	346689	broad.mit.edu	37	chr7	139168322	139168322	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcgtggggaccaggcttcCcacgggctccattgggagct	6	7	15	13	2	0	0	0	0	0	0	2	2	2	2	3	5	2	3	3	5	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:139168322C>A	uc003vvb.2	-	1	136	c.67G>T	c.(67-69)GGA>TGA	p.G23*	KLRG2_uc010lnc.2_Nonsense_Mutation_p.G23*	NM_198508	NP_940910	A4D1S0	KLRG2_HUMAN	killer cell lectin-like receptor subfamily G,	23	Pro-rich.					integral to membrane	sugar binding			central_nervous_system(1)	1	Melanoma(164;0.233)					ACCAGGCTTCCCACGGGCTCC	0.716													3	17					0.00909568	0.00931889	0.009096	1	0		A	139168322	A	A	139168322	4	1	1	1	0	0	0	0	0	1	0	0	8438	632	22	5	1182	5	KLRG2	7	139168322	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3788190	139168322	19970341	569	569											
AGK	55750	broad.mit.edu	37	chr7	141315316	141315316	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttatcccactgggagagAccagtagtttgagtcatacc	11	11	10	9	0	1	2	1	1	0	1	2	5	2	3	3	1	1	2	3	1	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:141315316A>G	uc003vwi.2	+	8	640	c.469A>G	c.(469-471)ACC>GCC	p.T157A	AGK_uc011krg.1_RNA	NM_018238	NP_060708	Q53H12	AGK_HUMAN	acylglycerol kinase precursor	157	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway	mitochondrial membrane	acylglycerol kinase activity|ATP binding|diacylglycerol kinase activity|NAD+ kinase activity			ovary(1)|breast(1)	2	Melanoma(164;0.0171)					ACTGGGAGAGACCAGTAGTTT	0.448													6	321					0	0	0.001984	0	0		G	141315316	G	G	141315316	3	3	1	1	0	0	0	0	1	0	0	0	383	275	10	3	495	3	AGK	7	141315316	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2146994	141315316	17823347	570	570											
WEE2	494551	broad.mit.edu	37	chr7	141422976	141422976	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atctgaaaacactaagtctgGcaatcattttgaagagccaa	16	10	7	8	0	3	3	1	2	2	1	3	3	3	3	1	1	2	1	1	1	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:141422976G>T	uc003vwn.2	+	6	1329	c.923G>T	c.(922-924)GGC>GTC	p.G308V	FLJ40852_uc011krh.1_Intron|FLJ40852_uc010lnm.2_Intron|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028	P0C1S8	WEE2_HUMAN	WEE1 homolog 2	308	Protein kinase.				egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)					ACTAAGTCTGGCAATCATTTT	0.423													29	315					9.80776e-20	1.12493e-19	0.00632	1	0		T	141422976	T	T	141422976	3	4	1	1	0	0	0	0	1	0	0	0	17371	1203	42	5	945	5	WEE2	7	141422976	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	107660	141422976	17715687	571	571											
TAS2R4	50832	broad.mit.edu	37	chr7	141478568	141478568	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcatgtttttggactcgAgcagtgtctggtttgtgacc	5	17	12	7	1	2	1	1	1	1	0	3	3	2	2	1	2	1	4	1	2	0	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:141478568A>T	uc003vwq.1	+	1	280	c.280A>T	c.(280-282)AGC>TGC	p.S94C		NM_016944	NP_058640	Q9NYW5	TA2R4_HUMAN	taste receptor T2R4	94	Helical; Name=3; (Potential).				sensory perception of taste	cilium membrane	taste receptor activity				0	Melanoma(164;0.0171)			BRCA - Breast invasive adenocarcinoma(188;0.196)		TTTGGACTCGAGCAGTGTCTG	0.423													34	295					0	0	0.003755	0	0		T	141478568	T	T	141478568	3	4	1	1	0	0	0	0	1	0	0	0	15602	304	11	5	282	5	TAS2R4	7	141478568	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	55592	141478568	17660095	572	572											
ARHGEF5	7984	broad.mit.edu	37	chr7	144060439	144060439	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctcttgcatccccaggAggtccaagttctggaggagc	8	8	14	11	0	2	0	0	0	2	0	4	3	4	3	3	5	2	3	3	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:144060439A>C	uc003wel.2	+	2	795	c.677A>C	c.(676-678)GAG>GCG	p.E226A	ARHGEF5_uc003wek.2_Missense_Mutation_p.E226A	NM_005435	NP_005426	Q12774	ARHG5_HUMAN	rho guanine nucleotide exchange factor 5	226					intracellular signal transduction|regulation of Rho protein signal transduction	intracellular	GTP binding|protein binding|Rho guanyl-nucleotide exchange factor activity			skin(2)	2	Melanoma(164;0.14)					CATCCCCAGGAGGTCCAAGTT	0.567													19	209					0	0	0.00278	0	0		C	144060439	C	C	144060439	3	2	1	1	0	0	0	0	1	0	0	0	909	304	11	5	679	5	ARHGEF5	7	144060439	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2581871	144060439	15078224	573	573											
ARHGEF5	7984	broad.mit.edu	37	chr7	144070295	144070295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgcacccctagctgatccGggactgcaataacaatgtcc	10	9	8	14	1	1	1	0	1	1	0	3	2	3	2	4	1	4	3	4	1	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:144070295G>A	uc003wel.2	+	10	4176	c.4058G>A	c.(4057-4059)CGG>CAG	p.R1353Q	ARHGEF5_uc003wek.2_Missense_Mutation_p.R1353Q|ARHGEF5_uc003wem.2_Missense_Mutation_p.R208Q	NM_005435	NP_005426	Q12774	ARHG5_HUMAN	rho guanine nucleotide exchange factor 5	1353	DH.				intracellular signal transduction|regulation of Rho protein signal transduction	intracellular	GTP binding|protein binding|Rho guanyl-nucleotide exchange factor activity			skin(2)	2	Melanoma(164;0.14)					TAGCTGATCCGGGACTGCAAT	0.493													9	160					0	0	0.00245	0	0		A	144070295	A	A	144070295	3	1	1	1	0	0	0	0	1	0	0	0	909	1116	39	1	4092	1	ARHGEF5	7	144070295	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	9856	144070295	15068368	574	574											
CUL1	8454	broad.mit.edu	37	chr7	148454195	148454195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctcaatagacattgggttCgccgtgaatgtgacgaagga	12	9	12	8	3	1	3	1	2	0	1	2	5	1	4	2	2	0	1	2	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:148454195C>T	uc010lpg.2	+	4	962	c.436C>T	c.(436-438)CGC>TGC	p.R146C	CUL1_uc003wey.2_Missense_Mutation_p.R146C|CUL1_uc003wez.2_Missense_Mutation_p.R36C	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	146					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			ACATTGGGTTCGCCGTGAATG	0.318													16	172					0	0	0.00499	0	0		T	148454195	T	T	148454195	3	4	1	1	0	0	0	0	1	0	0	0	4057	884	31	1	446	1	CUL1	7	148454195	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4383900	148454195	10684468	575	575											
ZNF425	155054	broad.mit.edu	37	chr7	148801971	148801971	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggtcacactgcggacacTggaagggcttctctccgctg	7	8	12	14	3	2	0	1	0	1	0	4	2	3	2	2	4	1	2	2	4	1	1	rs146873821	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:148801971T>C	uc003wfj.2	-	4	1065	c.992A>G	c.(991-993)CAG>CGG	p.Q331R		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	331	C2H2-type 5.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			CTGCGGACACTGGAAGGGCTT	0.672													9	36					0	0	0.004482	0	0		C	148801971	C	C	148801971	3	2	1	1	0	0	0	0	1	0	0	0	17924	1580	55	3	1270	3	ZNF425	7	148801971	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	347776	148801971	10336692	576	576											
ZNF746	155061	broad.mit.edu	37	chr7	149171815	149171815	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagggccgctcgccggtgTgcagcatgcgatggcggatg	6	6	19	10	5	0	0	0	0	0	0	1	3	0	2	2	5	3	3	2	5	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:149171815T>C	uc003wfw.2	-	7	1866	c.1595A>G	c.(1594-1596)CAC>CGC	p.H532R	ZNF746_uc010lpi.2_Missense_Mutation_p.H533R	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2	532	C2H2-type 2.				negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			CTCGCCGGTGTGCAGCATGCG	0.637													3	5					0	0	0.009096	0	0		C	149171815	C	C	149171815	3	2	1	1	0	0	0	0	1	0	0	0	18154	1696	59	3	343	3	ZNF746	7	149171815	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	369844	149171815	9966848	577	577											
KCNH2	3757	broad.mit.edu	37	chr7	150648700	150648700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgctgctgttgtagggtttgCctatctggtcgcccaggttg	3	14	14	10	2	1	0	0	0	1	0	2	0	1	0	2	3	2	6	2	3	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:150648700C>T	uc003wic.2	-	7	1794	c.1781G>A	c.(1780-1782)GGC>GAC	p.G594D	KCNH2_uc003wib.2_Missense_Mutation_p.G254D|KCNH2_uc011kux.1_Missense_Mutation_p.G498D|KCNH2_uc003wid.2_Missense_Mutation_p.G254D|KCNH2_uc003wie.2_Missense_Mutation_p.G594D	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	594	Extracellular (Potential).				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	GTAGGGTTTGCCTATCTGGTC	0.612													3	49					0	0	0.000602	0	0		T	150648700	T	T	150648700	3	4	1	1	0	0	0	0	1	0	0	0	8048	739	26	2	2003	2	KCNH2	7	150648700	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1476885	150648700	8489963	578	578											
PTPRN2	5799	broad.mit.edu	37	chr7	158109597	158109597	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtaaaagtccattgccggaAccttctggcaccttccaaac	11	9	8	13	1	1	0	0	0	1	0	3	1	3	1	5	3	3	2	5	3	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr7:158109597A>G	uc003wno.2	-	3	312	c.191T>C	c.(190-192)GTT>GCT	p.V64A	PTPRN2_uc003wnp.2_Missense_Mutation_p.V47A|PTPRN2_uc003wnq.2_Missense_Mutation_p.V64A|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Missense_Mutation_p.V87A	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	64	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CATTGCCGGAACCTTCTGGCA	0.577													6	36					0	0	0.001984	0	0		G	158109597	G	G	158109597	3	3	1	1	0	0	0	0	1	0	0	0	12833	43	2	3	2940	3	PTPRN2	7	158109597	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	7460897	158109597	1029066	579	579											
ARHGEF10	9639	broad.mit.edu	37	chr8	1844563	1844563	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatttcagcacagccgtggCagtcctcaagaaaacatgtg	13	8	9	11	1	2	1	2	0	0	1	3	1	3	1	2	1	3	2	2	1	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:1844563C>A	uc003wpr.2	+	14	1683	c.1505C>A	c.(1504-1506)GCA>GAA	p.A502E	ARHGEF10_uc003wpq.1_Missense_Mutation_p.A527E|ARHGEF10_uc003wps.2_Missense_Mutation_p.A464E|ARHGEF10_uc003wpt.2_Missense_Mutation_p.A378E|ARHGEF10_uc003wpv.2_Missense_Mutation_p.A235E|ARHGEF10_uc010lre.2_Missense_Mutation_p.A182E	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	527	DH.				centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		ACAGCCGTGGCAGTCCTCAAG	0.393													29	212					1.04121e-07	1.13947e-07	0.005443	1	0		A	1844563	A	A	1844563	3	1	1	1	0	0	0	0	1	0	0	0	894	710	25	5	1555	5	ARHGEF10	8	1844563	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08		1844563	144519459	580	580											
MYOM2	9172	broad.mit.edu	37	chr8	2024225	2024225	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatccctgccccaagatgcTgacccgctggtcacaggggc	7	7	11	16	1	1	2	1	1	0	1	2	2	2	2	4	3	2	2	4	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:2024225T>C	uc003wpx.3	+	11	1263	c.1125T>C	c.(1123-1125)GCT>GCC	p.A375A	MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	375					muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CCCAAGATGCTGACCCGCTGG	0.592													3	26					0	0	0.004672	0	0		C	2024225	C	C	2024225	2	2	1	1	0	0	0	0	0	0	0	1	10110	1567	55	3		3	MYOM2	8	2024225	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	179662	2024225	144339797	581	581											
MYOM2	9172	broad.mit.edu	37	chr8	2033495	2033495	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacccactccccgtggcaaGgacccgctcatgtacttcat	8	8	7	18	2	2	0	2	0	0	0	3	1	3	1	5	2	1	3	5	2	2	2	rs137923713	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:2033495G>T	uc003wpx.3	+	14	1755	c.1617G>T	c.(1615-1617)AAG>AAT	p.K539N	MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	539	Fibronectin type-III 2.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CCCGTGGCAAGGACCCGCTCA	0.597													11	41					5.50884e-06	5.92386e-06	0.001368	1	0		T	2033495	T	T	2033495	3	4	1	1	0	0	0	0	1	0	0	0	10110	991	35	5	1667	5	MYOM2	8	2033495	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	9270	2033495	144330527	582	582											
MYOM2	9172	broad.mit.edu	37	chr8	2050557	2050557	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacgtcggagcctgtgctggTagaggcgagaccaggtaagg	9	6	17	9	3	0	2	0	0	0	2	1	4	0	3	2	5	2	3	2	5	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:2050557T>C	uc003wpx.3	+	21	2858	c.2720T>C	c.(2719-2721)GTA>GCA	p.V907A	MYOM2_uc011kwi.1_Missense_Mutation_p.V332A	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	907	Ig-like C2-type 3.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CCTGTGCTGGTAGAGGCGAGA	0.512													4	59					0	0	0.009096	0	0		C	2050557	C	C	2050557	3	2	1	1	0	0	0	0	1	0	0	0	10110	1638	57	3	2798	3	MYOM2	8	2050557	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	17062	2050557	144313465	583	583											
CSMD1	64478	broad.mit.edu	37	chr8	2832084	2832084	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagtgcacgacggcgccatAggtaaacagctctccagtga	11	7	12	11	3	1	1	0	1	1	0	2	2	1	1	2	2	3	4	2	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:2832084A>G	uc011kwk.1	-	56	9022	c.8632T>C	c.(8632-8634)TAT>CAT	p.Y2878H	CSMD1_uc011kwj.1_Missense_Mutation_p.Y2207H|CSMD1_uc010lrg.2_Missense_Mutation_p.Y888H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2878	Sushi 21.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ACGGCGCCATAGGTAAACAGC	0.557													4	37					0	0	0.000602	0	0		G	2832084	G	G	2832084	3	3	1	1	0	0	0	0	1	0	0	0	3947	420	15	3	2125	3	CSMD1	8	2832084	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	781527	2832084	143531938	584	584											
CSMD1	64478	broad.mit.edu	37	chr8	3000057	3000057	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtggatgagggtttcatgCgttgtgctcagcagggccgc	7	10	16	8	2	2	1	2	1	0	0	2	2	2	2	1	3	3	4	1	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:3000057C>T	uc011kwk.1	-	41	6564	c.6174G>A	c.(6172-6174)ACG>ACA	p.T2058T	CSMD1_uc011kwj.1_Silent_p.T1450T|CSMD1_uc010lrg.2_Silent_p.T126T	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2058	Extracellular (Potential).|CUB 12.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GGGTTTCATGCGTTGTGCTCA	0.478													10	109					0	0	0.008291	0	0		T	3000057	T	T	3000057	2	4	1	1	0	0	0	0	0	0	0	1	3947	755	27	1		1	CSMD1	8	3000057	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	167973	3000057	143363965	585	585											
CSMD1	64478	broad.mit.edu	37	chr8	3474261	3474261	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacctgctcttctaccattTtctggaatcccaggatctgg	8	13	8	12	0	4	0	0	0	4	0	5	3	5	2	3	3	3	1	3	3	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:3474261T>C	uc011kwk.1	-	8	1458	c.1068A>G	c.(1066-1068)GAA>GAG	p.E356E		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	356	Extracellular (Potential).|Sushi 2.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TTCTACCATTTTCTGGAATCC	0.378													4	53					0	0	0.000602	0	0		C	3474261	C	C	3474261	2	2	1	1	0	0	0	0	0	0	0	1	3947	1838	64	3		3	CSMD1	8	3474261	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	474204	3474261	142889761	586	586											
AGPAT5	55326	broad.mit.edu	37	chr8	6605313	6605313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtttatgaagggaaagacGatggagggcagcgaagagag	14	6	18	3	2	0	3	0	1	0	2	0	8	0	5	0	4	1	2	0	4	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:6605313G>A	uc003wqo.2	+	6	1021	c.709G>A	c.(709-711)GAT>AAT	p.D237N	AGPAT5_uc011kwm.1_Intron	NM_018361	NP_060831	Q9NUQ2	PLCE_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 5	237					phospholipid biosynthetic process	integral to membrane|mitochondrion	1-acylglycerol-3-phosphate O-acyltransferase activity				0			STAD - Stomach adenocarcinoma(24;0.0578)	READ - Rectum adenocarcinoma(644;0.156)|COAD - Colon adenocarcinoma(149;0.191)		AGGGAAAGACGATGGAGGGCA	0.433													15	96					0	0	0.004007	0	0		A	6605313	A	A	6605313	3	1	1	1	0	0	0	0	1	0	0	0	390	1058	37	1	731	1	AGPAT5	8	6605313	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3131052	6605313	139758709	587	587											
SGK223	157285	broad.mit.edu	37	chr8	8235191	8235191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcgctgtccccggagggcGagcacctttgatcactgtca	6	9	11	15	3	2	1	2	1	0	0	4	3	3	2	4	2	1	2	4	2	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:8235191G>A	uc003wsh.3	-	2	728	c.728C>T	c.(727-729)TCG>TTG	p.S243L		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	243							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						CCCGGAGGGCGAGCACCTTTG	0.652													7	84					0	0	0.00308	0	0		A	8235191	A	A	8235191	3	1	1	1	0	0	0	0	1	0	0	0	14235	1059	37	1	3496	1	SGK223	8	8235191	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1629878	8235191	138128831	588	588											
TNKS	8658	broad.mit.edu	37	chr8	9564375	9564375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtttactccactgcacgagGctgcttccaagaaccgtgta	10	10	9	12	2	0	1	0	0	0	1	2	2	2	1	3	1	4	5	3	1	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:9564375G>A	uc003wss.2	+	8	1329	c.1324G>A	c.(1324-1326)GCT>ACT	p.A442T	TNKS_uc011kwv.1_Missense_Mutation_p.A442T|TNKS_uc011kww.1_Missense_Mutation_p.A205T	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	442	ANK 6.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		ACTGCACGAGGCTGCTTCCAA	0.448													14	175					0	0	0.00245	0	0		A	9564375	A	A	9564375	3	1	1	1	0	0	0	0	1	0	0	0	16344	1203	42	2	1354	2	TNKS	8	9564375	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1329184	9564375	136799647	589	589											
RP1L1	94137	broad.mit.edu	37	chr8	10465956	10465956	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacatcttctgactctggCtgggcctctccttctgcctc	3	15	7	16	0	6	1	0	1	6	0	8	1	6	1	3	2	2	1	3	2	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:10465956C>T	uc003wtc.2	-	4	5881	c.5652G>A	c.(5650-5652)CAG>CAA	p.Q1884Q		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1884					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CTGACTCTGGCTGGGCCTCTC	0.622													52	352					0	0	0.00361	0	0		T	10465956	T	T	10465956	2	4	1	1	0	0	0	0	0	0	0	1	13558	796	28	2		2	RP1L1	8	10465956	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	901581	10465956	135898066	590	590											
RP1L1	94137	broad.mit.edu	37	chr8	10468348	10468348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggagcccatcagcgccCtcatgatctgcgtggaggca	7	8	13	13	2	3	1	2	1	1	0	3	3	3	3	2	3	3	2	2	3	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:10468348C>T	uc003wtc.2	-	4	3489	c.3260G>A	c.(3259-3261)AGG>AAG	p.R1087K		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1087					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CATCAGCGCCCTCATGATCTG	0.692													9	80					0	0	0.008291	0	0		T	10468348	T	T	10468348	3	4	1	1	0	0	0	0	1	0	0	0	13558	681	24	4	3946	4	RP1L1	8	10468348	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2392	10468348	135895674	591	591											
RP1L1	94137	broad.mit.edu	37	chr8	10470816	10470816	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgcctggcggagaccgCgaatggatcacactcggctt	7	8	14	12	4	1	1	1	0	0	1	2	4	1	2	2	4	2	2	2	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:10470816C>T	uc003wtc.2	-	4	1021	c.792G>A	c.(790-792)TCG>TCA	p.S264S		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	264					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GCGGAGACCGCGAATGGATCA	0.632													7	114					0	0	0.00308	0	0		T	10470816	T	T	10470816	2	4	1	1	0	0	0	0	0	0	0	1	13558	755	27	1		1	RP1L1	8	10470816	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2468	10470816	135893206	592	592											
AMAC1L2	83650	broad.mit.edu	37	chr8	11189448	11189448	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgcggtcaccaaggcccAccctgccctggtgtgcgctg	5	8	12	16	2	1	0	1	0	0	0	1	0	1	0	4	3	3	1	4	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:11189448A>G	uc003wtp.1	+	1	954	c.833A>G	c.(832-834)CAC>CGC	p.H278R		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	278	DUF6 2.					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		ACCAAGGCCCACCCTGCCCTG	0.567													10	214					0	0	0.003163	0	0		G	11189448	G	G	11189448	3	3	1	1	0	0	0	0	1	0	0	0	560	159	6	3	835	3	AMAC1L2	8	11189448	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	718632	11189448	135174574	593	593											
NEIL2	252969	broad.mit.edu	37	chr8	11643661	11643661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagaaagaacagtgccctgCtggccaccaggtcatgaagg	12	5	12	12	0	1	3	1	1	0	2	1	3	1	3	4	3	3	1	4	3	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:11643661C>T	uc003wug.2	+	5	1553	c.878C>T	c.(877-879)GCT>GTT	p.A293V	NEIL2_uc003wue.2_Missense_Mutation_p.A293V|NEIL2_uc003wuf.2_Missense_Mutation_p.A232V|NEIL2_uc011kxd.1_Missense_Mutation_p.A177V	NM_145043	NP_659480	Q969S2	NEIL2_HUMAN	nei like 2 isoform a	293	FPG-type.				base-excision repair|nucleotide-excision repair	nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|hydrolase activity, hydrolyzing N-glycosyl compounds|zinc ion binding				0	all_epithelial(15;0.103)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.166)		CAGTGCCCTGCTGGCCACCAG	0.607								BER_DNA_glycosylases					19	69					0	0	0.007413	0	0		T	11643661	T	T	11643661	3	4	1	1	0	0	0	0	1	0	0	0	10338	797	28	2	897	2	NEIL2	8	11643661	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	454213	11643661	134720361	594	594											
MTUS1	57509	broad.mit.edu	37	chr8	17612117	17612117	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcccaccttttgtcctggCgggctacttagaatcaattc	8	12	9	12	1	1	1	1	0	0	1	3	2	2	1	3	2	2	1	3	2	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:17612117C>T	uc003wxv.2	-	2	1674	c.1200G>A	c.(1198-1200)CCG>CCA	p.P400P	MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Silent_p.P400P|MTUS1_uc010lsz.2_Silent_p.P400P	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	400						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		TTTGTCCTGGCGGGCTACTTA	0.448													14	107					0	0	0.001855	0	0		T	17612117	T	T	17612117	2	4	1	1	0	0	0	0	0	0	0	1	9983	755	27	1		1	MTUS1	8	17612117	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5968456	17612117	128751905	595	595											
FGL1	2267	broad.mit.edu	37	chr8	17739683	17739683	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctcctgggcacagtcctcGagcgcctgcaaaacaggtga	9	7	12	13	2	0	1	0	1	0	0	3	2	2	1	3	2	4	3	3	2	2	0	rs146639128		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:17739683G>A	uc003wxx.2	-	4	393	c.69C>T	c.(67-69)CTC>CTT	p.L23L	FGL1_uc003wxy.2_Silent_p.L23L|FGL1_uc003wxz.2_Silent_p.L23L|FGL1_uc003wya.2_Silent_p.L23L|FGL1_uc003wyb.2_Silent_p.L23L|FGL1_uc003wyc.2_Silent_p.L23L|FGL1_uc003wyd.2_RNA|FGL1_uc003wye.2_Silent_p.L73L|FGL1_uc003wyf.2_5'UTR	NM_201553	NP_963847	Q08830	FGL1_HUMAN	fibrinogen-like 1 precursor	23	Potential.				signal transduction	fibrinogen complex	receptor binding				0				Colorectal(111;0.0573)|COAD - Colon adenocarcinoma(73;0.215)		CACAGTCCTCGAGCGCCTGCA	0.488													17	104					0	0	0.006122	0	0		A	17739683	A	A	17739683	2	1	1	1	0	0	0	0	0	0	0	1	5886	1045	37	1		1	FGL1	8	17739683	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	127566	17739683	128624339	596	596											
PCM1	5108	broad.mit.edu	37	chr8	17796319	17796319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtcagcttagtgaaaaccGaaagcccttcaactttttgc	12	11	7	11	2	2	1	2	1	0	0	2	2	2	1	2	0	5	1	2	0	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:17796319G>A	uc003wyi.3	+	5	835	c.413G>A	c.(412-414)CGA>CAA	p.R138Q	PCM1_uc011kyh.1_Missense_Mutation_p.R138Q|PCM1_uc003wyj.3_Missense_Mutation_p.R138Q|PCM1_uc003wyg.2_Missense_Mutation_p.R138Q|PCM1_uc003wyh.2_Missense_Mutation_p.R138Q|PCM1_uc010lta.1_Missense_Mutation_p.R138Q	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	138					centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		AGTGAAAACCGAAAGCCCTTC	0.398			T	RET|JAK2	papillary thyroid|CML|MPD								10	94					0	0	0.001368	0	0		A	17796319	A	A	17796319	3	1	1	1	0	0	0	0	1	0	0	0	11603	1058	37	1	423	1	PCM1	8	17796319	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	56636	17796319	128567703	597	597											
ASAH1	427	broad.mit.edu	37	chr8	17915118	17915118	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtaacatctatcaaggtTgtgtatacggtcagctgaaa	12	13	10	6	1	3	1	2	1	1	0	3	1	3	1	0	3	3	4	0	3	6	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:17915118T>C	uc003wyl.2	-	14	1425	c.1113A>G	c.(1111-1113)ACA>ACG	p.T371T	ASAH1_uc010ltb.1_RNA|ASAH1_uc003wym.2_Silent_p.T346T|ASAH1_uc003wyn.2_Silent_p.T387T|ASAH1_uc003wyo.2_Silent_p.T365T	NM_177924	NP_808592	Q13510	ASAH1_HUMAN	N-acylsphingosine amidohydrolase 1 isoform a	371					ceramide metabolic process	lysosome	ceramidase activity				0				Colorectal(111;0.0646)|COAD - Colon adenocarcinoma(73;0.228)		CTATCAAGGTTGTGTATACGG	0.393													4	66					0	0	0.009096	0	0		C	17915118	C	C	17915118	2	2	1	1	0	0	0	0	0	0	0	1	1007	1799	63	3		3	ASAH1	8	17915118	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	118799	17915118	128448904	598	598											
FAM160B2	64760	broad.mit.edu	37	chr8	21958207	21958207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttgagggccgcccttacGtggcctggggctcaccagag	6	7	14	14	2	1	2	1	1	0	1	1	2	1	2	5	4	1	1	5	4	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:21958207G>A	uc011kyx.1	+	11	1495	c.1444G>A	c.(1444-1446)GTG>ATG	p.V482M	FAM160B2_uc011kyy.1_RNA	NM_022749	NP_073586	Q86V87	F16B2_HUMAN	retinoic acid induced 16	482											0						CCGCCCTTACGTGGCCTGGGG	0.627													20	185					0	0	0.008871	0	0		A	21958207	A	A	21958207	3	1	1	1	0	0	0	0	1	0	0	0	5482	1145	40	1	1285	1	FAM160B2	8	21958207	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4043089	21958207	124405815	599	599											
HR	55806	broad.mit.edu	37	chr8	21980012	21980012	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccctgggtcttacctgctgGcctgcatccccgggggccca	3	8	13	17	1	1	0	0	0	1	0	2	0	2	0	6	4	3	2	6	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:21980012G>A	uc003xas.2	-	8	2780	c.2115C>T	c.(2113-2115)GGC>GGT	p.G705G	HR_uc003xat.2_Silent_p.G705G	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	705							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		TTACCTGCTGGCCTGCATCCC	0.612													4	17					0	0	0.009096	0	0		A	21980012	A	A	21980012	2	1	1	1	0	0	0	0	0	0	0	1	7363	1190	42	2		2	HR	8	21980012	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	21805	21980012	124384010	600	600											
LGI3	203190	broad.mit.edu	37	chr8	22006196	22006196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaactccaggtcggtgtcaCggtgccaggggtgcagtgcc	7	7	15	12	2	1	0	1	0	0	0	3	0	2	0	3	5	4	1	3	5	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:22006196C>T	uc003xav.2	-	8	1413	c.1124G>A	c.(1123-1125)CGT>CAT	p.R375H	LGI3_uc010ltu.2_Missense_Mutation_p.R351H	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	375	EAR 4.				exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		GTCGGTGTCACGGTGCCAGGG	0.632													10	54					0	0	0.006214	0	0		T	22006196	T	T	22006196	3	4	1	1	0	0	0	0	1	0	0	0	8769	536	19	1	526	1	LGI3	8	22006196	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	26184	22006196	124357826	601	601											
BMP1	649	broad.mit.edu	37	chr8	22053004	22053004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgctctcggcccaaccgcGggggctgtgagcagcggtgc	5	6	17	13	4	1	1	0	1	1	0	2	1	1	1	2	4	5	3	2	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:22053004G>A	uc003xbg.2	+	13	1913	c.1669G>A	c.(1669-1671)GGG>AGG	p.G557R	BMP1_uc003xba.2_Missense_Mutation_p.G557R|BMP1_uc003xbb.2_Missense_Mutation_p.G557R|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Missense_Mutation_p.G306R|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Missense_Mutation_p.G306R|BMP1_uc011kzc.1_Missense_Mutation_p.G306R|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	557	EGF-like 1; calcium-binding (Potential).				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		GCCCAACCGCGGGGGCTGTGA	0.632													6	99					0	0	0.001984	0	0		A	22053004	A	A	22053004	3	1	1	1	0	0	0	0	1	0	0	0	1457	1116	39	1	1719	1	BMP1	8	22053004	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	46808	22053004	124311018	602	602											
BIN3	55909	broad.mit.edu	37	chr8	22488012	22488012	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtccagggccgtcaccatGttcagaaggtcctggtcttg	6	11	13	11	1	3	1	2	0	1	1	5	1	5	1	4	3	0	1	4	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:22488012G>A	uc003xcl.2	-	5	337	c.240C>T	c.(238-240)AAC>AAT	p.N80N	BIN3_uc003xck.2_Silent_p.N32N|BIN3_uc010ltw.2_Silent_p.N26N	NM_018688	NP_061158	Q9NQY0	BIN3_HUMAN	bridging integrator 3	80	BAR.				actin filament organization|barrier septum formation|cell cycle|protein localization|unidimensional cell growth	cytoplasm|cytoskeleton	cytoskeletal adaptor activity				0		Prostate(55;0.0424)|Breast(100;0.102)|all_epithelial(46;0.143)		BRCA - Breast invasive adenocarcinoma(99;0.00664)|Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)		CCGTCACCATGTTCAGAAGGT	0.542													5	234					0	0	0.000602	0	0		A	22488012	A	A	22488012	2	1	1	1	0	0	0	0	0	0	0	1	1435	1368	48	4		4	BIN3	8	22488012	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	435008	22488012	123876010	603	603											
NEFL	4747	broad.mit.edu	37	chr8	24813503	24813503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacctcctcttcatagcgcGcctgcaggttgcgcagggtc	5	9	12	15	3	2	0	1	0	1	0	4	0	3	0	3	2	3	4	3	2	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:24813503G>A	uc003xee.2	-	1	629	c.527C>T	c.(526-528)GCG>GTG	p.A176V		NM_006158	NP_006149	P07196	NFL_HUMAN	neurofilament, light polypeptide 68kDa	176	Rod.|Coil 1B.				anterograde axon cargo transport|axon transport of mitochondrion|neurofilament bundle assembly|retrograde axon cargo transport|synaptic transmission	cytosol|neurofilament	identical protein binding|protein C-terminus binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.00965)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		TTCATAGCGCGCCTGCAGGTT	0.716													8	29					0	0	0.00308	0	0		A	24813503	A	A	24813503	3	1	1	1	0	0	0	0	1	0	0	0	10334	1087	38	1	1121	1	NEFL	8	24813503	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2325491	24813503	121550519	604	604											
SCARA3	51435	broad.mit.edu	37	chr8	27516873	27516873	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccacacccatgccgaggagCtctactacctgaacaagtct	11	8	7	15	1	2	1	0	1	2	0	3	3	3	2	4	1	5	1	4	1	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:27516873C>A	uc003xga.1	+	5	1327	c.1186C>A	c.(1186-1188)CTC>ATC	p.L396I	SCARA3_uc003xgb.1_Missense_Mutation_p.L396I	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	396	Extracellular (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		TGCCGAGGAGCTCTACTACCT	0.607													7	64					0.000274275	0.000286633	0.004482	1	0		A	27516873	A	A	27516873	3	1	1	1	0	0	0	0	1	0	0	0	13904	797	28	5	1204	5	SCARA3	8	27516873	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2703370	27516873	118847149	605	605											
KIF13B	23303	broad.mit.edu	37	chr8	28974391	28974391	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattctcttgcgtaacaccAgttgcatgtcagcagggtgg	9	11	12	9	1	2	1	1	0	1	1	3	1	2	1	1	2	4	4	1	2	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:28974391A>G	uc003xhh.3	-	31	3853	c.3794T>C	c.(3793-3795)CTG>CCG	p.L1265P	uc003xhi.1_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1265					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		GCGTAACACCAGTTGCATGTC	0.592													12	116					0	0	0.010729	0	0		G	28974391	G	G	28974391	3	3	1	1	0	0	0	0	1	0	0	0	8291	188	7	3	1726	3	KIF13B	8	28974391	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1457518	28974391	117389631	606	606											
WHSC1L1	54904	broad.mit.edu	37	chr8	38133958	38133958	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttctgttttgatctttcGtctcttctgttttaacttag	4	23	7	7	1	4	1	0	1	4	0	6	1	4	1	0	1	1	3	0	1	2	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:38133958G>A	uc003xli.2	-	23	4446	c.3928C>T	c.(3928-3930)CGA>TGA	p.R1310*	WHSC1L1_uc011lbm.1_Nonsense_Mutation_p.R1299*|WHSC1L1_uc010lwe.2_Nonsense_Mutation_p.R1261*|WHSC1L1_uc003xlh.2_Nonsense_Mutation_p.R89*	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1310					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			TTGATCTTTCGTCTCTTCTGT	0.403			T	NUP98	AML								15	130					0	0	0.004007	0	0		A	38133958	A	A	38133958	4	1	1	1	0	0	0	0	0	1	0	0	17389	1153	40	1	393	1	WHSC1L1	8	38133958	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	9159567	38133958	108230064	607	607											
TM2D2	83877	broad.mit.edu	37	chr8	38851174	38851174	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcgctgtaggcctgaccGccgaactgtggaataacaac	11	7	11	12	4	0	1	0	1	0	0	1	3	0	2	3	2	3	2	3	2	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:38851174G>A	uc003xmk.2	-	3	404	c.321C>T	c.(319-321)GGC>GGT	p.G107G	TM2D2_uc003xml.2_Silent_p.G64G|TM2D2_uc003xmm.2_Silent_p.G64G|TM2D2_uc003xmn.2_Silent_p.G64G	NM_078473	NP_510882	Q9BX73	TM2D2_HUMAN	TM2 domain containing 2 isoform a	107						integral to membrane					0		all_lung(54;0.00338)|Lung NSC(58;0.0133)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			AGGCCTGACCGCCGAACTGTG	0.453													11	53					0	0	0.010729	0	0		A	38851174	A	A	38851174	2	1	1	1	0	0	0	0	0	0	0	1	15989	1074	38	1		1	TM2D2	8	38851174	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	717216	38851174	107512848	608	608											
ANK1	286	broad.mit.edu	37	chr8	41530009	41530009	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgcgtcatcctgcctcttAgaacctggcagcttctcttc	5	13	8	15	2	3	1	1	0	2	1	7	1	4	1	3	1	3	2	3	1	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:41530009A>G	uc003xok.2	-	38	5043	c.4959T>C	c.(4957-4959)TCT>TCC	p.S1653S	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Intron|ANK1_uc003xoi.2_Silent_p.S1653S|ANK1_uc003xoj.2_Silent_p.S1653S|ANK1_uc003xol.2_Intron|ANK1_uc003xom.2_Silent_p.S1694S	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1653	55 kDa regulatory domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			CCTGCCTCTTAGAACCTGGCA	0.527													38	410					0	0	0.011902	0	0		G	41530009	G	G	41530009	2	3	1	1	0	0	0	0	0	0	0	1	620	407	15	3		3	ANK1	8	41530009	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2678835	41530009	104834013	609	609											
RNF170	81790	broad.mit.edu	37	chr8	42716936	42716936	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttataatcattaatatcctgAtgcaatctcagaacatcctg	14	14	4	9	0	2	2	2	1	1	1	5	2	4	2	2	0	2	1	2	0	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:42716936A>G	uc003xpo.2	-	6	936	c.459T>C	c.(457-459)CAT>CAC	p.H153H	RNF170_uc011lcx.1_Intron|RNF170_uc010lxp.2_Silent_p.H69H|RNF170_uc003xpm.2_Silent_p.H153H|RNF170_uc003xpp.2_Silent_p.H57H|RNF170_uc003xpn.2_Silent_p.H57H|RNF170_uc003xpq.3_Silent_p.H153H	NM_001160223	NP_001153695	Q96K19	RN170_HUMAN	ring finger protein 170 isoform a	153						integral to membrane	zinc ion binding				0	all_lung(13;1.25e-11)|Lung NSC(13;3.55e-10)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00645)|Lung NSC(58;0.0176)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			TAATATCCTGATGCAATCTCA	0.353													10	117					0	0	0.00245	0	0		G	42716936	G	G	42716936	2	3	1	1	0	0	0	0	0	0	0	1	13487	330	12	3		3	RNF170	8	42716936	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1186927	42716936	103647086	610	610											
HOOK3	84376	broad.mit.edu	37	chr8	42798549	42798549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcttggaaggatgcttcagCtcatcttaggctgtgctgtg	7	13	13	8	0	3	0	2	0	1	0	3	2	3	2	0	3	4	5	0	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:42798549C>T	uc003xpr.2	+	5	603	c.361C>T	c.(361-363)CTC>TTC	p.L121F	HOOK3_uc010lxq.1_Missense_Mutation_p.L121F	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	121	Sufficient for interaction with microtubules.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			GATGCTTCAGCTCATCTTAGG	0.378			T	RET	papillary thyroid								4	160					0	0	0.009096	0	0		T	42798549	T	T	42798549	3	4	1	1	0	0	0	0	1	0	0	0	7300	797	28	2	379	2	HOOK3	8	42798549	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	81613	42798549	103565473	611	611											
PRKDC	5591	broad.mit.edu	37	chr8	48733488	48733488	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcttgctgcggatcatgTaaggtagatatgtttcctaa	10	14	10	7	1	2	1	2	0	0	1	3	2	3	2	1	2	3	5	1	2	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:48733488T>C	uc003xqi.2	-	67	9185	c.9128A>G	c.(9127-9129)TAC>TGC	p.Y3043C	PRKDC_uc003xqj.2_Missense_Mutation_p.Y3043C|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3043	KIP-binding.|FAT.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				GCGGATCATGTAAGGTAGATA	0.413								NHEJ					6	99					0	0	0.001984	0	0		C	48733488	C	C	48733488	3	2	1	1	0	0	0	0	1	0	0	0	12543	1638	57	3	3342	3	PRKDC	8	48733488	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	5934939	48733488	97630534	612	612											
SNTG1	54212	broad.mit.edu	37	chr8	51314811	51314811	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaggatggtaaccaggaGcctttcaaagtgcggctgca	10	8	13	10	1	1	0	1	0	0	0	1	2	1	2	2	4	5	4	2	4	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:51314811G>A	uc010lxy.1	+	5	440	c.69G>A	c.(67-69)GAG>GAA	p.E23E	SNTG1_uc003xqs.1_Silent_p.E23E|SNTG1_uc010lxz.1_Silent_p.E23E|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	23					cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				GTAACCAGGAGCCTTTCAAAG	0.383													26	187					0	0	0.00333	0	0		A	51314811	A	A	51314811	2	1	1	1	0	0	0	0	0	0	0	1	14899	962	34	2		2	SNTG1	8	51314811	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2581323	51314811	95049211	613	613											
MOS	4342	broad.mit.edu	37	chr8	57025621	57025621	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaggcgctgcccggggagCgagtcctcgaagacggcagc	8	3	16	14	5	0	1	0	0	0	1	2	4	1	2	3	4	3	2	3	4	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:57025621C>T	uc011leb.1	-	1	921	c.921G>A	c.(919-921)TCG>TCA	p.S307S		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	307	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			GCCCGGGGAGCGAGTCCTCGA	0.692													3	36					0	0	0.004672	0	0		T	57025621	T	T	57025621	2	4	1	1	0	0	0	0	0	0	0	1	9730	755	27	1		1	MOS	8	57025621	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5710810	57025621	89338401	614	614											
NSMAF	8439	broad.mit.edu	37	chr8	59548042	59548042	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttaccttgatgatgggctgGgatattgaatctggttcaaa	10	15	11	5	0	2	3	1	3	1	0	2	4	2	4	1	3	1	2	1	3	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:59548042G>A	uc003xtt.2	-	3	427	c.213C>T	c.(211-213)TCC>TCT	p.S71S	NSMAF_uc011lee.1_Silent_p.S102S|NSMAF_uc003xtu.2_Silent_p.S71S	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	71					ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				TGATGGGCTGGGATATTGAAT	0.313													30	256					0	0	0.009535	0	0		A	59548042	A	A	59548042	2	1	1	1	0	0	0	0	0	0	0	1	10693	1219	43	4		4	NSMAF	8	59548042	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2522421	59548042	86815980	615	615											
C8orf45	157777	broad.mit.edu	37	chr8	67786678	67786678	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacctttaaaagctgctgAagtctttcaatcagtaagtc	13	12	6	10	0	3	1	2	1	1	0	4	1	3	1	2	0	3	3	2	0	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:67786678A>G	uc003xwz.3	+	3	383	c.212A>G	c.(211-213)GAA>GGA	p.E71G	C8orf45_uc003xwv.2_Missense_Mutation_p.E71G|C8orf45_uc011lev.1_Missense_Mutation_p.E71G|C8orf45_uc011lew.1_Intron|C8orf45_uc011lex.1_5'UTR|C8orf45_uc003xwy.3_Missense_Mutation_p.E71G	NM_173518	NP_775789	Q4G0Z9	CH045_HUMAN	minichromosome maintenance complex	71					DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)			AAAGCTGCTGAAGTCTTTCAA	0.313													11	127					0	0	0.001368	0	0		G	67786678	G	G	67786678	3	3	1	1	0	0	0	0	1	0	0	0	2433	246	9	3	218	3	C8orf45	8	67786678	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	8238636	67786678	78577344	616	616											
CSPP1	79848	broad.mit.edu	37	chr8	68102921	68102921	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcctgccattgaagatgAcgtcctccctccaccatcac	10	10	5	16	1	1	3	1	2	0	1	5	3	5	3	6	0	1	0	6	0	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:68102921A>G	uc003xxi.2	+	29	3378	c.3347A>G	c.(3346-3348)GAC>GGC	p.D1116G	ARFGEF1_uc003xxl.1_Intron|CSPP1_uc003xxj.2_Missense_Mutation_p.D1081G|CSPP1_uc003xxk.2_Missense_Mutation_p.D736G|CSPP1_uc010lyw.2_Missense_Mutation_p.D176G	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	1116						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			ATTGAAGATGACGTCCTCCCT	0.488													4	112					0	0	0.009096	0	0		G	68102921	G	G	68102921	3	3	1	1	0	0	0	0	1	0	0	0	3965	275	10	3	3461	3	CSPP1	8	68102921	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	316243	68102921	78261101	617	617											
PREX2	80243	broad.mit.edu	37	chr8	68930142	68930142	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaaaaatgtgacagaagAaacagtgaaggtgaggaggt	18	6	14	3	0	0	6	0	4	0	2	0	7	0	7	0	3	1	0	0	3	5	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:68930142A>G	uc003xxv.1	+	2	230	c.203A>G	c.(202-204)GAA>GGA	p.E68G	PREX2_uc003xxu.1_Missense_Mutation_p.E68G|PREX2_uc011lez.1_Intron	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	68	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GTGACAGAAGAAACAGTGAAG	0.418													3	33					0	0	0.004672	0	0		G	68930142	G	G	68930142	3	3	1	1	0	0	0	0	1	0	0	0	12499	246	9	3	209	3	PREX2	8	68930142	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	827221	68930142	77433880	618	618											
SULF1	23213	broad.mit.edu	37	chr8	70536271	70536271	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaatctggaagaagaagaAgaattgcaagtgttgcaacc	18	8	10	5	0	1	4	0	0	1	4	1	5	1	5	1	1	3	3	1	1	9	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:70536271A>C	uc010lza.1	+	15	2406	c.1689A>C	c.(1687-1689)GAA>GAC	p.E563D	SULF1_uc003xyd.2_Missense_Mutation_p.E563D|SULF1_uc003xye.2_Missense_Mutation_p.E563D|SULF1_uc003xyf.2_Missense_Mutation_p.E563D|SULF1_uc003xyg.2_Missense_Mutation_p.E563D|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	563					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			AAGAAGAAGAAGAATTGCAAG	0.463													28	140					0	0	0.004656	0	0		C	70536271	C	C	70536271	3	2	1	1	0	0	0	0	1	0	0	0	15395	69	3	5	1731	5	SULF1	8	70536271	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1606129	70536271	75827751	619	619											
SLCO5A1	81796	broad.mit.edu	37	chr8	70585382	70585382	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtattttatggagtaccAggccagaaaaataaaaataa	18	11	7	5	0	0	1	0	0	0	1	0	2	0	2	2	2	1	2	2	2	9	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:70585382A>C	uc003xyl.2	-	10	2976	c.2269T>G	c.(2269-2271)TGG>GGG	p.W757G	SLCO5A1_uc010lzb.2_Missense_Mutation_p.W702G|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_3'UTR	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	757	Helical; Name=12; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			ATGGAGTACCAGGCCAGAAAA	0.498													8	147					0	0	0.00308	0	0		C	70585382	C	C	70585382	3	2	1	1	0	0	0	0	1	0	0	0	14756	188	7	5	281	5	SLCO5A1	8	70585382	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	49111	70585382	75778640	620	620											
PRDM14	63978	broad.mit.edu	37	chr8	70981746	70981746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacccgcgtactcgtggctgCtgctcaggaagggcggcact	6	7	14	14	4	1	0	1	0	0	0	2	1	1	1	1	4	3	5	1	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:70981746C>T	uc003xym.2	-	2	552	c.350G>A	c.(349-351)AGC>AAC	p.S117N		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	117					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			CTCGTGGCTGCTGCTCAGGAA	0.592													6	34					0	0	0.001168	0	0		T	70981746	T	T	70981746	3	4	1	1	0	0	0	0	1	0	0	0	12477	797	28	2	1393	2	PRDM14	8	70981746	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	396364	70981746	75382276	621	621											
NCOA2	10499	broad.mit.edu	37	chr8	71039221	71039221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgatgcatttgtctctgtCgaagatgctggttcaggatt	7	15	12	7	1	2	2	1	1	1	1	4	4	2	3	0	2	2	4	0	2	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:71039221C>T	uc003xyn.1	-	19	3905	c.3743G>A	c.(3742-3744)CGA>CAA	p.R1248Q	NCOA2_uc011lfb.1_Missense_Mutation_p.R336Q	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	1248					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TTGTCTCTGTCGAAGATGCTG	0.493			T	RUNXBP2	AML								3	55					0	0	0.004672	0	0		T	71039221	T	T	71039221	3	4	1	1	0	0	0	0	1	0	0	0	10248	884	31	1	671	1	NCOA2	8	71039221	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	57475	71039221	75324801	622	622											
ZFHX4	79776	broad.mit.edu	37	chr8	77763422	77763422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcccagtatcatgcaattcGggctgcgacaatgtgtaacc	10	11	9	11	2	1	0	1	0	0	0	3	1	2	0	2	1	3	4	2	1	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:77763422G>A	uc003yav.2	+	10	4517	c.4130G>A	c.(4129-4131)CGG>CAG	p.R1377Q	ZFHX4_uc003yau.1_Missense_Mutation_p.R1422Q|ZFHX4_uc003yaw.1_Missense_Mutation_p.R1377Q	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1377						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CATGCAATTCGGGCTGCGACA	0.458										HNSCC(33;0.089)			7	54					0	0	0.001984	0	0		A	77763422	A	A	77763422	3	1	1	1	0	0	0	0	1	0	0	0	17660	1116	39	1	4299	1	ZFHX4	8	77763422	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	6724201	77763422	68600600	623	623											
LRRCC1	85444	broad.mit.edu	37	chr8	86050680	86050680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaggaaaagaaacttaaagCggaaagagacaaaagtattg	22	5	10	4	1	0	2	0	0	0	2	0	5	0	4	0	2	2	1	0	2	10	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:86050680C>T	uc003ycw.2	+	17	2964	c.2810C>T	c.(2809-2811)GCG>GTG	p.A937V	LRRCC1_uc003ycx.2_Missense_Mutation_p.A844V|LRRCC1_uc003ycy.2_Missense_Mutation_p.A917V	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	937					cell division|mitosis	centriole|nucleus					0						AAACTTAAAGCGGAAAGAGAC	0.333													10	154					0	0	0.008291	0	0		T	86050680	T	T	86050680	3	4	1	1	0	0	0	0	1	0	0	0	9044	768	27	1	2876	1	LRRCC1	8	86050680	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	8287258	86050680	60313342	624	624											
OSGIN2	734	broad.mit.edu	37	chr8	90937188	90937188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggcttactgccgctgacGcagtactgtgtgcttacaac	7	11	11	12	2	0	1	0	1	0	0	0	1	0	1	1	1	6	5	1	1	4	3	rs141987995	by1000genomes	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:90937188G>A	uc003yeg.2	+	6	1292	c.946G>A	c.(946-948)GCA>ACA	p.A316T	OSGIN2_uc003yeh.2_Missense_Mutation_p.A360T	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	316					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			TGCCGCTGACGCAGTACTGTG	0.428													24	238					0	0	0.00278	0	0		A	90937188	A	A	90937188	3	1	1	1	0	0	0	0	1	0	0	0	11309	1087	38	1	1100	1	OSGIN2	8	90937188	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4886508	90937188	55426834	625	625											
RUNX1T1	862	broad.mit.edu	37	chr8	93029468	93029468	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttacacgttgtcggtgtaAatgaactggttcttggagct	9	14	11	7	2	1	1	0	1	1	0	2	2	1	2	0	3	3	4	0	3	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:93029468A>G	uc003yfd.2	-	2	296	c.212T>C	c.(211-213)TTT>TCT	p.F71S	RUNX1T1_uc003yfc.1_Missense_Mutation_p.F44S|RUNX1T1_uc003yfe.1_Missense_Mutation_p.F34S|RUNX1T1_uc010mao.2_Missense_Mutation_p.F44S|RUNX1T1_uc011lgi.1_Missense_Mutation_p.F82S|RUNX1T1_uc003yfh.1_Missense_Mutation_p.F34S|RUNX1T1_uc003yfb.1_Missense_Mutation_p.F34S|RUNX1T1_uc003yff.1_Missense_Mutation_p.F34S|RUNX1T1_uc003yfg.1_Missense_Mutation_p.F34S	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	71					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			TGTCGGTGTAAATGAACTGGT	0.398													11	152					0	0	0.008291	0	0		G	93029468	G	G	93029468	3	3	1	1	0	0	0	0	1	0	0	0	13772	14	1	3	1642	3	RUNX1T1	8	93029468	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2092280	93029468	53334554	626	626											
KCNS2	3788	broad.mit.edu	37	chr8	99440939	99440939	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacatttgagctggtggcCaggtttgctgtggcccctga	5	13	13	10	0	1	2	1	2	0	0	1	2	1	2	3	4	2	3	3	4	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:99440939C>A	uc003yin.2	+	2	1082	c.732C>A	c.(730-732)GCC>GCA	p.A244A		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	244	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			AGCTGGTGGCCAGGTTTGCTG	0.517													38	260					6.02501e-08	6.61089e-08	0.00623	1	0		A	99440939	A	A	99440939	2	1	1	1	0	0	0	0	0	0	0	1	8105	581	21	5		5	KCNS2	8	99440939	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	6411471	99440939	46923083	627	627											
VPS13B	157680	broad.mit.edu	37	chr8	100520072	100520072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactgacaagctgaacagacGcaccttgttggttcgaccca	11	9	9	12	2	0	3	0	2	0	1	1	4	0	3	2	1	3	4	2	1	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:100520072G>A	uc003yiv.2	+	28	4343	c.4232G>A	c.(4231-4233)CGC>CAC	p.R1411H	VPS13B_uc003yiw.2_Intron|VPS13B_uc003yiu.1_3'UTR|VPS13B_uc003yix.1_Missense_Mutation_p.R881H	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1411					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CTGAACAGACGCACCTTGTTG	0.458													9	185					0	0	0.001368	0	0		A	100520072	A	A	100520072	3	1	1	1	0	0	0	0	1	0	0	0	17216	1087	38	1	4532	1	VPS13B	8	100520072	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1079133	100520072	45843950	628	628											
VPS13B	157680	broad.mit.edu	37	chr8	100847902	100847902	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctacttttgagagttgAacctctagatgaagtaacaa	15	11	8	7	0	1	4	0	3	1	2	1	5	1	4	2	0	4	2	2	0	7	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:100847902A>G	uc003yiv.2	+	54	10064	c.9953A>G	c.(9952-9954)GAA>GGA	p.E3318G	VPS13B_uc003yiw.2_Missense_Mutation_p.E3293G	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3318					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TTGAGAGTTGAACCTCTAGAT	0.463													17	174					0	0	0.006122	0	0		G	100847902	G	G	100847902	3	3	1	1	0	0	0	0	1	0	0	0	17216	246	9	3	10357	3	VPS13B	8	100847902	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	327830	100847902	45516120	629	629											
RGS22	26166	broad.mit.edu	37	chr8	101075932	101075932	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaatagactcaaaacaaTcatcaaatgacacttttgtt	17	12	4	8	0	3	3	3	2	0	1	3	3	3	3	0	0	1	1	0	0	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:101075932T>A	uc003yjb.1	-	8	1259	c.1064A>T	c.(1063-1065)GAT>GTT	p.D355V	RGS22_uc003yja.1_Missense_Mutation_p.D174V|RGS22_uc003yjc.1_Missense_Mutation_p.D343V|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	355					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			CTCAAAACAATCATCAAATGA	0.323													16	167					0	0	0.003163	0	0		A	101075932	A	A	101075932	3	1	1	1	0	0	0	0	1	0	0	0	13330	1435	50	5	2810	5	RGS22	8	101075932	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	228030	101075932	45288090	630	630											
RGS22	26166	broad.mit.edu	37	chr8	101078439	101078439	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttaagtttgttgtagggtAcacaacagggtaacgaaaag	15	11	11	4	1	0	0	0	0	0	0	0	1	0	0	0	2	3	5	0	2	7	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:101078439A>G	uc003yjb.1	-	7	875	c.680T>C	c.(679-681)GTA>GCA	p.V227A	RGS22_uc003yja.1_Missense_Mutation_p.V46A|RGS22_uc003yjc.1_Missense_Mutation_p.V215A|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	227					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			GTTGTAGGGTACACAACAGGG	0.368													9	183					0	0	0.006214	0	0		G	101078439	G	G	101078439	3	3	1	1	0	0	0	0	1	0	0	0	13330	391	14	3	3198	3	RGS22	8	101078439	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2507	101078439	45285583	631	631											
SPAG1	6674	broad.mit.edu	37	chr8	101253220	101253220	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattttactttagaagatatAcaggccctaaaaaggcagta	16	11	7	7	0	0	2	0	0	0	2	0	2	0	2	1	2	2	2	1	2	9	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:101253220A>G	uc003yjh.1	+	19	2837	c.2751A>G	c.(2749-2751)ATA>ATG	p.I917M	SPAG1_uc003yji.1_Missense_Mutation_p.I917M	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	917					single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		TAGAAGATATACAGGCCCTAA	0.368													24	164					0	0	0.00278	0	0		G	101253220	G	G	101253220	3	3	1	1	0	0	0	0	1	0	0	0	15000	381	14	3	2821	3	SPAG1	8	101253220	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	174781	101253220	45110802	632	632											
UBR5	51366	broad.mit.edu	37	chr8	103287986	103287986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaataccctgccgaacagttCtaaagaaaggcgccaacgtc	14	6	9	12	3	1	1	0	0	1	1	2	3	1	1	3	1	4	1	3	1	7	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:103287986C>T	uc003ykr.1	-	46	6613	c.6580G>A	c.(6580-6582)GAA>AAA	p.E2194K	UBR5_uc003yks.1_Missense_Mutation_p.E2194K	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	2194					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			CCGAACAGTTCTAAAGAAAGG	0.448													14	56					0	0	0.001855	0	0		T	103287986	T	T	103287986	3	4	1	1	0	0	0	0	1	0	0	0	16931	922	32	4	1875	4	UBR5	8	103287986	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2034766	103287986	43076036	633	633											
FZD6	8323	broad.mit.edu	37	chr8	104343682	104343682	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacatctctgcttgttcAcccggtttcaggagtgagaa	8	13	9	11	1	3	1	2	1	1	1	5	3	4	2	2	2	1	3	2	2	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:104343682A>G	uc003ylh.2	+	7	2350	c.2066A>G	c.(2065-2067)CAC>CGC	p.H689R	FZD6_uc003ylj.2_Missense_Mutation_p.H689R|FZD6_uc011lhn.1_Missense_Mutation_p.H655R|FZD6_uc011lho.1_Missense_Mutation_p.H384R|FZD6_uc011lhp.1_Missense_Mutation_p.H634R	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	689	Cytoplasmic (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			CTGCTTGTTCACCCGGTTTCA	0.458													16	157					0	0	0.004007	0	0		G	104343682	G	G	104343682	3	3	1	1	0	0	0	0	1	0	0	0	6148	159	6	3	2088	3	FZD6	8	104343682	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1055696	104343682	42020340	634	634											
ABRA	137735	broad.mit.edu	37	chr8	107781945	107781945	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcacattttctcctccgCgttggggagccgtggctgtg	3	13	14	11	3	1	0	0	0	1	0	3	1	2	1	3	4	1	3	3	4	0	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:107781945C>T	uc003ymm.3	-	1	528	c.474G>A	c.(472-474)ACG>ACA	p.T158T		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	158					positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			TTCTCCTCCGCGTTGGGGAGC	0.582													6	275					0	0	0.004482	0	0		T	107781945	T	T	107781945	2	4	1	1	0	0	0	0	0	0	0	1	100	755	27	1		1	ABRA	8	107781945	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3438263	107781945	38582077	635	635											
SYBU	55638	broad.mit.edu	37	chr8	110590145	110590145	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcttggttttgaggtgtCtcactgtcacctctttctgc	4	17	9	11	0	5	1	3	1	3	0	6	1	5	1	1	2	2	2	1	2	0	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:110590145C>A	uc003ynj.3	-	6	999	c.836G>T	c.(835-837)AGA>ATA	p.R279I	SYBU_uc003yni.3_Missense_Mutation_p.R276I|SYBU_uc003ynk.3_Missense_Mutation_p.R160I|SYBU_uc010mco.2_Missense_Mutation_p.R278I|SYBU_uc003ynl.3_Missense_Mutation_p.R278I|SYBU_uc010mcp.2_Missense_Mutation_p.R279I|SYBU_uc010mcq.2_Missense_Mutation_p.R279I|SYBU_uc003yno.3_Missense_Mutation_p.R160I|SYBU_uc010mcr.2_Missense_Mutation_p.R279I|SYBU_uc003ynm.3_Missense_Mutation_p.R278I|SYBU_uc003ynn.3_Missense_Mutation_p.R278I|SYBU_uc010mcs.2_Missense_Mutation_p.R160I|SYBU_uc010mct.2_Missense_Mutation_p.R279I|SYBU_uc010mcu.2_Missense_Mutation_p.R278I|SYBU_uc003ynp.3_Missense_Mutation_p.R211I|SYBU_uc010mcv.2_Missense_Mutation_p.R279I|SYBU_uc003ynh.3_Missense_Mutation_p.R73I|SYBU_uc011lhw.1_Missense_Mutation_p.R149I	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	279	Potential.|Sufficient for interaction with KIF5B.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						TTTGAGGTGTCTCACTGTCAC	0.498													26	300					4.72057e-08	5.18983e-08	0.003954	1	0		A	110590145	A	A	110590145	3	1	1	1	0	0	0	0	1	0	0	0	15452	913	32	5	1163	5	SYBU	8	110590145	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2808200	110590145	35773877	636	636											
CSMD3	114788	broad.mit.edu	37	chr8	113243835	113243835	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaatccttgaaatacataAgtagctccatcaggctcagc	15	10	6	10	0	2	1	2	1	0	0	4	1	4	1	2	1	3	3	2	1	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:113243835A>C	uc003ynu.2	-	69	10926	c.10767T>G	c.(10765-10767)ACT>ACG	p.T3589T	CSMD3_uc003yns.2_Silent_p.T2791T|CSMD3_uc003ynt.2_Silent_p.T3549T|CSMD3_uc011lhx.1_Silent_p.T3420T	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3589	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GAAATACATAAGTAGCTCCAT	0.333										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			14	210					0	0	0.004007	0	0		C	113243835	C	C	113243835	2	2	1	1	0	0	0	0	0	0	0	1	3949	59	3	5		5	CSMD3	8	113243835	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2653690	113243835	33120187	637	637											
TRPS1	7227	broad.mit.edu	37	chr8	116426263	116426263	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaaggttttactctttaggTtttccatttttttccacttg	6	22	5	8	0	1	0	0	0	1	0	3	0	3	0	2	2	1	2	2	2	3	11			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:116426263T>C	uc003ynz.2	-	6	4293	c.3834A>G	c.(3832-3834)AAA>AAG	p.K1278K	TRPS1_uc011lhy.1_Silent_p.K1282K|TRPS1_uc003yny.2_Silent_p.K1291K|TRPS1_uc010mcy.2_Silent_p.K1278K	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1278	Transcriptional repressor domain (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			ACTCTTTAGGTTTTCCATTTT	0.368									Langer-Giedion_syndrome				18	302					0	0	0.00499	0	0		C	116426263	C	C	116426263	2	2	1	1	0	0	0	0	0	0	0	1	16619	1722	60	3		3	TRPS1	8	116426263	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3182428	116426263	29937759	638	638											
TRPS1	7227	broad.mit.edu	37	chr8	116426653	116426653	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaaaaatgaggaggcagAttgaaggtgggataaggcac	15	6	16	4	0	0	4	0	3	0	1	0	6	0	6	0	5	0	3	0	5	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:116426653A>G	uc003ynz.2	-	6	3903	c.3444T>C	c.(3442-3444)AAT>AAC	p.N1148N	TRPS1_uc011lhy.1_Silent_p.N1152N|TRPS1_uc003yny.2_Silent_p.N1161N|TRPS1_uc010mcy.2_Silent_p.N1148N	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1148	Mediates interaction with RNF4 (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GAGGAGGCAGATTGAAGGTGG	0.488									Langer-Giedion_syndrome				9	86					0	0	0.008291	0	0		G	116426653	G	G	116426653	2	3	1	1	0	0	0	0	0	0	0	1	16619	330	12	3		3	TRPS1	8	116426653	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	390	116426653	29937369	639	639											
TRPS1	7227	broad.mit.edu	37	chr8	116616779	116616779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcctgactgcactgctcCgtgctgcttgccataatgtt	5	12	10	14	2	0	1	0	1	0	0	1	1	1	1	4	0	5	5	4	0	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:116616779C>T	uc003ynz.2	-	3	1837	c.1378G>A	c.(1378-1380)GGA>AGA	p.G460R	TRPS1_uc011lhy.1_Missense_Mutation_p.G464R|TRPS1_uc003yny.2_Missense_Mutation_p.G473R|TRPS1_uc010mcy.2_Missense_Mutation_p.G460R	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	460					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TGCACTGCTCCGTGCTGCTTG	0.443									Langer-Giedion_syndrome				7	112					0	0	0.00308	0	0		T	116616779	T	T	116616779	3	4	1	1	0	0	0	0	1	0	0	0	16619	661	23	1	2483	1	TRPS1	8	116616779	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	190126	116616779	29747243	640	640											
RAD21	5885	broad.mit.edu	37	chr8	117868492	117868492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catggttggcattggttcaaCgggatccactgaatcaggac	10	10	12	9	1	2	1	2	1	0	0	3	3	3	3	1	5	1	3	1	5	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:117868492C>T	uc003yod.2	-	8	1138	c.850G>A	c.(850-852)GTT>ATT	p.V284I		NM_006265	NP_006256	O60216	RAD21_HUMAN	RAD21 homolog	284					apoptosis|cell division|chromosome segregation|double-strand break repair|mitotic metaphase/anaphase transition|mitotic prometaphase|protein localization to chromatin|reciprocal meiotic recombination|regulation of transcription from RNA polymerase II promoter	chromosome, centromeric region|cohesin complex|nuclear chromosome|nucleoplasm	protein binding			lung(1)|skin(1)	2	all_cancers(13;1.21e-21)|Lung NSC(37;0.000134)|Ovarian(258;0.0172)					ATTGGTTCAACGGGATCCACT	0.363													15	224					0	0	0.003163	0	0		T	117868492	T	T	117868492	3	4	1	1	0	0	0	0	1	0	0	0	13006	536	19	1	1073	1	RAD21	8	117868492	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1251713	117868492	28495530	641	641											
TAF2	6873	broad.mit.edu	37	chr8	120744180	120744180	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctcagtctgaaagggaaGgagaacgaatagacctgcca	14	7	11	9	1	2	3	1	1	2	2	3	6	2	4	2	2	2	0	2	2	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:120744180G>T	uc003you.2	-	26	3854	c.3584C>A	c.(3583-3585)CCT>CAT	p.P1195H		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	1195					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TGAAAGGGAAGGAGAACGAAT	0.418													13	170					1.01871e-10	1.13872e-10	0.008871	1	0		T	120744180	T	T	120744180	3	4	1	1	0	0	0	0	1	0	0	0	15549	1000	35	5	19	5	TAF2	8	120744180	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2875688	120744180	25619842	642	642											
ATAD2	29028	broad.mit.edu	37	chr8	124358423	124358423	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttccaaagcatgaatgacaGctggtgccaagtgagaacct	13	9	10	9	0	0	3	0	3	0	1	1	4	1	3	3	1	4	2	3	1	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:124358423G>T	uc003yqh.3	-	18	2543	c.2435C>A	c.(2434-2436)GCT>GAT	p.A812D	ATAD2_uc011lii.1_Missense_Mutation_p.A603D|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.A812D	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	812					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			ATGAATGACAGCTGGTGCCAA	0.398													22	170					9.95505e-16	1.13481e-15	0.002299	1	0		T	124358423	T	T	124358423	3	4	1	1	0	0	0	0	1	0	0	0	1072	971	34	5	1781	5	ATAD2	8	124358423	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3614243	124358423	22005599	643	643											
KIAA0196	9897	broad.mit.edu	37	chr8	126044600	126044600	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccaggacaagtggtggcCaatcaaccgggtcggtcggt	8	7	15	11	3	1	0	1	0	0	0	4	1	2	1	3	6	1	0	3	6	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:126044600C>T	uc003yrt.2	-	27	3547	c.3218G>A	c.(3217-3219)TGG>TAG	p.W1073*	KIAA0196_uc011lir.1_Nonsense_Mutation_p.W925*|KIAA0196_uc003yru.1_Intron	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	1073					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			AAGTGGTGGCCAATCAACCGG	0.522													30	162					0	0	0.009535	0	0		T	126044600	T	T	126044600	4	4	1	1	0	0	0	0	0	1	0	0	8177	595	21	4	273	4	KIAA0196	8	126044600	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1686177	126044600	20319422	644	644											
ZFAT	57623	broad.mit.edu	37	chr8	135614707	135614707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccagcatatggcggtcacGgtccagctcgttcttgaact	8	10	11	12	3	2	1	1	1	1	0	4	2	3	1	2	3	3	3	2	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:135614707G>A	uc003yup.2	-	6	1430	c.1255C>T	c.(1255-1257)CGT>TGT	p.R419C	ZFAT_uc003yun.2_Missense_Mutation_p.R407C|ZFAT_uc003yuo.2_Missense_Mutation_p.R407C|ZFAT_uc010meh.2_Missense_Mutation_p.R407C|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.R407C|ZFAT_uc010mej.2_Missense_Mutation_p.R357C|ZFAT_uc003yur.2_Missense_Mutation_p.R407C	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	419	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			TGGCGGTCACGGTCCAGCTCG	0.597													3	59					0	0	0.004672	0	0		A	135614707	A	A	135614707	3	1	1	1	0	0	0	0	1	0	0	0	17657	1116	39	1	2520	1	ZFAT	8	135614707	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	9570107	135614707	10749315	645	645											
FAM135B	51059	broad.mit.edu	37	chr8	139164159	139164159	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtccttgagcatcaaactgCttccctttccctttggggat	6	15	8	12	0	1	1	1	1	0	0	4	2	4	2	3	2	3	2	3	2	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:139164159C>A	uc003yuy.2	-	13	2730	c.2559G>T	c.(2557-2559)AAG>AAT	p.K853N	FAM135B_uc003yux.2_Missense_Mutation_p.K754N|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.K415N|FAM135B_uc003yvb.2_Missense_Mutation_p.K415N	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	853										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CATCAAACTGCTTCCCTTTCC	0.488										HNSCC(54;0.14)			20	139					4.96729e-08	5.4539e-08	0.008871	1	0		A	139164159	A	A	139164159	3	1	1	1	0	0	0	0	1	0	0	0	5460	796	28	5	1693	5	FAM135B	8	139164159	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3549452	139164159	7199863	646	646											
FAM135B	51059	broad.mit.edu	37	chr8	139255234	139255234	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaaagaccaagttttccAgagaaatgatagactgttct	14	11	7	9	0	1	4	0	1	1	3	3	5	3	4	3	0	0	2	3	0	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:139255234A>C	uc003yuy.2	-	7	791	c.620T>G	c.(619-621)CTG>CGG	p.L207R	FAM135B_uc003yux.2_Missense_Mutation_p.L108R|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	207										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CAAGTTTTCCAGAGAAATGAT	0.463										HNSCC(54;0.14)			13	113					0	0	0.003163	0	0		C	139255234	C	C	139255234	3	2	1	1	0	0	0	0	1	0	0	0	5460	188	7	5	3656	5	FAM135B	8	139255234	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	91075	139255234	7108788	647	647											
COL22A1	169044	broad.mit.edu	37	chr8	139691881	139691881	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaacacattgccctcccagTgcacagttttctgaccctct	8	13	5	15	0	2	1	0	1	2	0	3	1	3	1	3	0	3	2	3	0	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:139691881T>C	uc003yvd.2	-	40	3498	c.3051A>G	c.(3049-3051)GCA>GCG	p.A1017A	COL22A1_uc011ljo.1_Intron	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1017	Pro-rich.|Gly-rich.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GCCCTCCCAGTGCACAGTTTT	0.343										HNSCC(7;0.00092)			17	252					0	0	0.006122	0	0		C	139691881	C	C	139691881	2	2	1	1	0	0	0	0	0	0	0	1	3684	1683	59	3		3	COL22A1	8	139691881	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	436647	139691881	6672141	648	648											
KCNK9	51305	broad.mit.edu	37	chr8	140630896	140630896	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcatggtcaagaacctgaGgacgaccaggttgaggaagg	12	7	15	7	1	2	3	2	2	0	1	2	6	2	5	2	5	1	2	2	5	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:140630896G>T	uc003yvf.1	-	2	794	c.730C>A	c.(730-732)CTC>ATC	p.L244I	KCNK9_uc003yvg.1_Missense_Mutation_p.L244I|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	244	Cytoplasmic (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			AAGAACCTGAGGACGACCAGG	0.572													10	66					2.17888e-05	2.32804e-05	0.006214	1	0		T	140630896	T	T	140630896	3	4	1	1	0	0	0	0	1	0	0	0	8088	1000	35	5	398	5	KCNK9	8	140630896	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	939015	140630896	5733126	649	649											
PTK2	5747	broad.mit.edu	37	chr8	141712786	141712786	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatggctgtgattccatgTgaaccagggtagccagaaac	11	8	12	10	0	0	3	0	2	0	1	1	3	1	3	4	2	3	2	4	2	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:141712786T>C	uc003yvu.2	-	25	2480	c.2250A>G	c.(2248-2250)TCA>TCG	p.S750S	PTK2_uc011ljp.1_Silent_p.S58S|PTK2_uc003yvo.2_Silent_p.S378S|PTK2_uc011ljq.1_Silent_p.S445S|PTK2_uc003yvp.2_Silent_p.S418S|PTK2_uc003yvq.2_Silent_p.S276S|PTK2_uc003yvr.2_Silent_p.S690S|PTK2_uc003yvs.2_Intron|PTK2_uc003yvt.2_Silent_p.S772S|PTK2_uc003yvv.2_Silent_p.S650S|PTK2_uc011ljr.1_Silent_p.S750S	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	750	Interaction with TGFB1I1.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			TGATTCCATGTGAACCAGGGT	0.443													8	119					0	0	0.004482	0	0		C	141712786	C	C	141712786	2	2	1	1	0	0	0	0	0	0	0	1	12785	1683	59	3		3	PTK2	8	141712786	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1081890	141712786	4651236	650	650											
PTK2	5747	broad.mit.edu	37	chr8	141828420	141828420	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgattccttcttctgggcCgattgccagttccactgaaa	8	13	8	12	1	2	2	0	2	2	0	4	3	4	2	4	1	1	1	4	1	1	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:141828420C>A	uc003yvu.2	-	10	1053	c.823G>T	c.(823-825)GGC>TGC	p.G275C	PTK2_uc003yvq.2_5'UTR|PTK2_uc003yvr.2_Missense_Mutation_p.G174C|PTK2_uc003yvs.2_Missense_Mutation_p.G275C|PTK2_uc003yvt.2_Missense_Mutation_p.G297C|PTK2_uc003yvv.2_Missense_Mutation_p.G162C|PTK2_uc011ljr.1_Missense_Mutation_p.G275C	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	275	FERM.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			TCTTCTGGGCCGATTGCCAGT	0.418													16	158					4.96729e-08	5.4539e-08	0.008871	1	0		A	141828420	A	A	141828420	3	1	1	1	0	0	0	0	1	0	0	0	12785	652	23	5	2427	5	PTK2	8	141828420	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	115634	141828420	4535602	651	651											
TOP1MT	116447	broad.mit.edu	37	chr8	144406219	144406219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtctcgtcttcatttcccGagacttccagtcagcccggt	5	13	8	15	3	4	1	2	0	2	1	7	2	6	1	3	1	1	0	3	1	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:144406219G>A	uc003yxz.2	-	7	929	c.910C>T	c.(910-912)CGG>TGG	p.R304W	TOP1MT_uc011lkd.1_Missense_Mutation_p.R206W|TOP1MT_uc011lke.1_Missense_Mutation_p.R206W|TOP1MT_uc010mfb.2_Missense_Mutation_p.R206W|TOP1MT_uc011lkf.1_Missense_Mutation_p.R99W|TOP1MT_uc010mfd.1_Missense_Mutation_p.R99W	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	304					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	TTCATTTCCCGAGACTTCCAG	0.582													6	184					0	0	0.001168	0	0		A	144406219	A	A	144406219	3	1	1	1	0	0	0	0	1	0	0	0	16390	1057	37	1	927	1	TOP1MT	8	144406219	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2577799	144406219	1957803	652	652											
ZC3H3	23144	broad.mit.edu	37	chr8	144590009	144590009	+	Missense_Mutation	SNP	C	T	T																															ccggcgtcttcttgacaatgCggtagcgggtcttgatcacc																										TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:144590009C>T	uc003yyd.2	-	4	1651	c.1622G>A	c.(1621-1623)CGC>CAC	p.R541H		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	541					mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			CTTGACAATGCGGTAGCGGGT	0.647													8	91					0	0	0.004482	0	0		T	144590009	T	T	144590009	3	4	1	1	0	0	0	0	1	0	0	0	17594	768	27	1	1260	1	ZC3H3	8	144590009	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	183790	144590009	1774013	653	653	2	2									
ZC3H3	23144	broad.mit.edu	37	chr8	144590012	144590012	+	Missense_Mutation	SNP	T	C	C																															gcgtcttcttgacaatgcggTagcgggtcttgatcaccttg																										TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:144590012T>C	uc003yyd.2	-	4	1648	c.1619A>G	c.(1618-1620)TAC>TGC	p.Y540C		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	540					mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			GACAATGCGGTAGCGGGTCTT	0.657													6	92					0	0	0.004482	0	0		C	144590012	C	C	144590012	3	2	1	1	0	0	0	0	1	0	0	0	17594	1638	57	3	1263	3	ZC3H3	8	144590012	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3	144590012	1774010	654	654	2	2									
RECQL4	9401	broad.mit.edu	37	chr8	145740422	145740422	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtagcacagggacttgccGgcacctgtaggcagcaccag	9	6	14	12	1	0	0	0	0	0	0	0	1	0	1	3	4	3	6	3	4	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr8:145740422G>A	uc003zdj.2	-	9	1550	c.1518C>T	c.(1516-1518)GCC>GCT	p.A506A	LRRC14_uc003zdk.1_5'Flank|LRRC14_uc003zdl.1_5'Flank	NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	506	Helicase ATP-binding.|ATP (Potential).				DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			GGGACTTGCCGGCACCTGTAG	0.667			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				3	15					0	0	0.004672	0	0		A	145740422	A	A	145740422	2	1	1	1	0	0	0	0	0	0	0	1	13227	1103	39	1		1	RECQL4	8	145740422	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1150410	145740422	623600	655	655											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													4	53					0	0	0.006214	0	0		G	164038	G	G	164038	5	3	1	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-B7-5816-01A-21D-1600-08		164038	141049393	656	656											
PTPRD	5789	broad.mit.edu	37	chr9	8465638	8465638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcaacttctctcccataaCggatgcttctgcgcttccta	8	14	5	14	2	3	0	1	0	2	0	6	1	5	1	2	1	4	2	2	1	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:8465638C>T	uc003zkk.2	-	31	4253	c.3542G>A	c.(3541-3543)CGT>CAT	p.R1181H	PTPRD_uc003zkp.2_Missense_Mutation_p.R770H|PTPRD_uc003zkq.2_Missense_Mutation_p.R770H|PTPRD_uc003zkr.2_Missense_Mutation_p.R765H|PTPRD_uc003zks.2_Missense_Mutation_p.R760H|PTPRD_uc003zkl.2_Missense_Mutation_p.R1172H|PTPRD_uc003zkm.2_Missense_Mutation_p.R1168H|PTPRD_uc003zkn.2_Missense_Mutation_p.R770H|PTPRD_uc003zko.2_Missense_Mutation_p.R767H	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1181	Extracellular (Potential).	Cleavage (Probable).		R->A: No reduction in cleavage. 10-fold reduction in cleavage; when associated with A-1178.	transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TCTCCCATAACGGATGCTTCT	0.403										TSP Lung(15;0.13)			9	134					0	0	0.004482	0	0		T	8465638	T	T	8465638	3	4	1	1	0	0	0	0	1	0	0	0	12824	536	19	1	2321	1	PTPRD	9	8465638	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	8301600	8465638	132747793	657	657											
PTPRD	5789	broad.mit.edu	37	chr9	8485893	8485893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagtgtcatagtggtgtcaGctggaacaataagctgctcc	10	11	12	8	0	2	1	2	1	0	0	3	2	3	2	1	2	4	3	1	2	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:8485893G>A	uc003zkk.2	-	27	3635	c.2924C>T	c.(2923-2925)GCT>GTT	p.A975V	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Missense_Mutation_p.A966V|PTPRD_uc003zkm.2_Missense_Mutation_p.A962V|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	975	Fibronectin type-III 7.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		AGTGGTGTCAGCTGGAACAAT	0.478										TSP Lung(15;0.13)			25	155					0	0	0.00333	0	0		A	8485893	A	A	8485893	3	1	1	1	0	0	0	0	1	0	0	0	12824	971	34	2	2958	2	PTPRD	9	8485893	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	20255	8485893	132727538	658	658											
PTPRD	5789	broad.mit.edu	37	chr9	8525005	8525005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actcatattttccttggtcaGactcttcactctgctcaatc	8	16	4	13	0	6	1	4	0	2	1	8	1	7	1	1	1	1	1	1	1	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:8525005G>A	uc003zkk.2	-	17	1310	c.599C>T	c.(598-600)TCT>TTT	p.S200F	PTPRD_uc003zkp.2_Missense_Mutation_p.S200F|PTPRD_uc003zkq.2_Missense_Mutation_p.S200F|PTPRD_uc003zkr.2_Missense_Mutation_p.S194F|PTPRD_uc003zks.2_Missense_Mutation_p.S194F|PTPRD_uc003zkl.2_Missense_Mutation_p.S200F|PTPRD_uc003zkm.2_Missense_Mutation_p.S191F|PTPRD_uc003zkn.2_Missense_Mutation_p.S200F|PTPRD_uc003zko.2_Missense_Mutation_p.S197F	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	200	Extracellular (Potential).|Ig-like C2-type 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TCCTTGGTCAGACTCTTCACT	0.338										TSP Lung(15;0.13)			25	295					0	0	0.005443	0	0		A	8525005	A	A	8525005	3	1	1	1	0	0	0	0	1	0	0	0	12824	942	33	4	5323	4	PTPRD	9	8525005	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	39112	8525005	132688426	659	659											
MPDZ	8777	broad.mit.edu	37	chr9	13107093	13107093	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccccttttcagacgtccGtcttcagaggctgctccctg	4	12	9	16	3	3	2	2	0	1	2	6	2	5	2	4	1	1	2	4	1	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:13107093G>A	uc010mhy.2	-	45	6048	c.5997C>T	c.(5995-5997)GAC>GAT	p.D1999D	MPDZ_uc003zkx.3_Silent_p.D223D|MPDZ_uc003zky.3_Silent_p.D562D|MPDZ_uc010mib.2_Silent_p.D733D|MPDZ_uc010mhx.2_Silent_p.D850D|MPDZ_uc011lmm.1_Silent_p.D887D|MPDZ_uc003zkz.3_Silent_p.D721D|MPDZ_uc010mhz.2_Silent_p.D1995D|MPDZ_uc011lmn.1_Silent_p.D1966D|MPDZ_uc003zlb.3_Silent_p.D1999D	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	2028	PDZ 13.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		TCAGACGTCCGTCTTCAGAGG	0.438													44	213					0	0	0.00361	0	0		A	13107093	A	A	13107093	2	1	1	1	0	0	0	0	0	0	0	1	9740	1136	40	1		1	MPDZ	9	13107093	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4582088	13107093	128106338	660	660											
MLLT3	4300	broad.mit.edu	37	chr9	20346569	20346569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttcttctataaggttcaCgatctagaggagtgaagaag	13	12	11	5	1	4	3	1	1	3	2	4	5	4	4	0	2	0	2	0	2	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:20346569C>T	uc003zoe.2	-	11	1838	c.1579G>A	c.(1579-1581)GTG>ATG	p.V527M	MLLT3_uc011lne.1_Missense_Mutation_p.V495M|MLLT3_uc011lnf.1_Missense_Mutation_p.V524M	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	527					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		ATAAGGTTCACGATCTAGAGG	0.408			T	MLL	ALL								13	84					0	0	0.001368	0	0		T	20346569	T	T	20346569	3	4	1	1	0	0	0	0	1	0	0	0	9646	536	19	1	131	1	MLLT3	9	20346569	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	7239476	20346569	120866862	661	661											
IFNA16	3449	broad.mit.edu	37	chr9	21216926	21216926	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcaatctcttccaccccaaCctcctgtgtcacacaggctt	8	10	6	17	0	2	0	1	0	1	0	5	0	4	0	5	2	1	2	5	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:21216926C>A	uc003zor.1	-	1	385	c.379G>T	c.(379-381)GTT>TTT	p.V127F	IFNA14_uc003zoo.1_Intron	NM_002173	NP_002164	P05015	IFN16_HUMAN	interferon, alpha 16 precursor	127					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			skin(1)	1				Lung(24;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		TCCACCCCAACCTCCTGTGTC	0.448													90	292					1.42479e-40	1.6455e-40	0.00361	1	0		A	21216926	A	A	21216926	3	1	1	1	0	0	0	0	1	0	0	0	7551	507	18	5	194	5	IFNA16	9	21216926	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	870357	21216926	119996505	662	662											
TEK	7010	broad.mit.edu	37	chr9	27157925	27157925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcattgcctctgggtggcGcccccatgagcccatcacca	6	8	10	17	1	2	1	1	1	1	0	2	1	2	1	5	2	3	1	5	2	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:27157925G>A	uc003zqi.3	+	2	591	c.149G>A	c.(148-150)CGC>CAC	p.R50H	TEK_uc010mjc.1_Intron|TEK_uc011lnn.1_Missense_Mutation_p.R50H|TEK_uc011lno.1_Missense_Mutation_p.R50H|TEK_uc011lnp.1_Intron|TEK_uc003zqj.1_Missense_Mutation_p.R27H	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	50	Extracellular (Potential).|Ig-like C2-type 1.				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		TCTGGGTGGCGCCCCCATGAG	0.502													17	125					0	0	0.00499	0	0		A	27157925	A	A	27157925	3	1	1	1	0	0	0	0	1	0	0	0	15776	1087	38	1	155	1	TEK	9	27157925	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5940999	27157925	114055506	663	663											
LINGO2	158038	broad.mit.edu	37	chr9	27950565	27950565	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaacagatttgttctgggcAgagcactcacagcgagcggg	10	8	13	10	2	2	2	1	0	1	2	2	3	2	2	0	2	4	3	0	2	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:27950565A>G	uc003zqu.1	-	2	299	c.105T>C	c.(103-105)TCT>TCC	p.S35S	LINGO2_uc010mjf.1_Silent_p.S35S|LINGO2_uc003zqv.1_Silent_p.S35S	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	35	LRRNT.|Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		TGTTCTGGGCAGAGCACTCAC	0.527													11	103					0	0	0.008291	0	0		G	27950565	G	G	27950565	2	3	1	1	0	0	0	0	0	0	0	1	8832	175	7	3		3	LINGO2	9	27950565	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	792640	27950565	113262866	664	664											
ACO1	48	broad.mit.edu	37	chr9	32431807	32431807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcgtcagtatgtcatccCggggatgtttaaggaagtct	9	11	14	7	2	3	0	2	0	1	0	4	3	4	3	1	4	1	2	1	4	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:32431807C>T	uc003zqw.3	+	15	1972	c.1817C>T	c.(1816-1818)CCG>CTG	p.P606L	ACO1_uc010mjh.1_Missense_Mutation_p.P440L|ACO1_uc003zqx.3_Missense_Mutation_p.P606L|ACO1_uc003zqy.3_RNA	NM_002197	NP_002188	P21399	ACOC_HUMAN	aconitase 1	606					citrate metabolic process|response to iron(II) ion|tricarboxylic acid cycle	cytosol|endoplasmic reticulum|Golgi apparatus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron-responsive element binding|isocitrate hydro-lyase (cis-aconitate-forming) activity|metal ion binding|protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;3.94e-06)		TATGTCATCCCGGGGATGTTT	0.517											OREG0019130	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	130					0	0	0.000602	0	0		T	32431807	T	T	32431807	3	4	1	1	0	0	0	0	1	0	0	0	146	652	23	1	1871	1	ACO1	9	32431807	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4481242	32431807	108781624	665	665											
TAF1L	138474	broad.mit.edu	37	chr9	32631373	32631373	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggatggatgacagcgtcAccatagggtctgtgcggcgt	8	8	15	10	3	2	1	1	1	1	0	2	3	2	3	2	4	2	0	2	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:32631373A>G	uc003zrg.1	-	1	4295	c.4205T>C	c.(4204-4206)GTG>GCG	p.V1402A	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1402					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TGACAGCGTCACCATAGGGTC	0.463													8	445					0	0	0.00308	0	0		G	32631373	G	G	32631373	3	3	1	1	0	0	0	0	1	0	0	0	15548	159	6	3	1279	3	TAF1L	9	32631373	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	199566	32631373	108582058	666	666											
UNC13B	10497	broad.mit.edu	37	chr9	35396839	35396839	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctgctgtggctgcaggTggtttgagcagttcgtgcta	4	14	14	9	1	1	1	0	1	1	0	3	1	1	1	1	3	4	7	1	3	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:35396839T>C	uc003zwq.2	+	27	3482	c.3190T>C	c.(3190-3192)TGG>CGG	p.W1064R	UNC13B_uc003zwr.2_Missense_Mutation_p.W1064R	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	1064	MHD1.				excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			TGGCTGCAGGTGGTTTGAGCA	0.562													16	166					0	0	0.00333	0	0		C	35396839	C	C	35396839	3	2	1	1	0	0	0	0	1	0	0	0	17011	1710	59	3	3296	3	UNC13B	9	35396839	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2765466	35396839	105816592	667	667											
NPR2	4882	broad.mit.edu	37	chr9	35800819	35800819	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtgcctttgacttggaCgacccatcctgtgataaaag	9	11	9	12	1	0	2	0	2	0	0	1	4	1	3	4	1	1	0	4	1	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:35800819C>T	uc003zyd.2	+	6	1332	c.1332C>T	c.(1330-1332)GAC>GAT	p.D444D	NPR2_uc010mlb.2_Silent_p.D444D	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	444	Extracellular (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	TTGACTTGGACGACCCATCCT	0.587													13	76					0	0	0.00245	0	0		T	35800819	T	T	35800819	2	4	1	1	0	0	0	0	0	0	0	1	10614	535	19	1		1	NPR2	9	35800819	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	403980	35800819	105412612	668	668											
CCIN	881	broad.mit.edu	37	chr9	36169823	36169823	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagctgcttcgtggggcTcagtatttcaacacaccacg	9	9	12	11	2	2	0	2	0	0	0	3	2	2	1	1	3	3	4	1	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:36169823T>G	uc003zzb.3	+	1	435	c.324T>G	c.(322-324)GCT>GCG	p.A108A		NM_005893	NP_005884	Q13939	CALI_HUMAN	calicin	108	BTB.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			ovary(1)|skin(1)	2			STAD - Stomach adenocarcinoma(86;0.228)			TTCGTGGGGCTCAGTATTTCA	0.532													15	106					0	0	0.003163	0	0		G	36169823	G	G	36169823	2	3	1	1	0	0	0	0	0	0	0	1	2881	1538	54	5		5	CCIN	9	36169823	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	369004	36169823	105043608	669	669											
PTAR1	375743	broad.mit.edu	37	chr9	72347172	72347172	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatctcttcttgtatgagTcgctgtgccctttctgtggg	3	17	10	11	1	3	1	0	1	3	0	6	1	4	1	2	1	1	2	2	1	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:72347172T>C	uc004ahj.3	-	5	547	c.525A>G	c.(523-525)CGA>CGG	p.R175R	PTAR1_uc004ahi.2_Silent_p.R96R	NM_001099666	NP_001093136	Q7Z6K3	PTAR1_HUMAN	protein prenyltransferase alpha subunit repeat	175					protein prenylation		protein prenyltransferase activity			central_nervous_system(1)	1						CTTGTATGAGTCGCTGTGCCC	0.493													10	87					0	0	0.010729	0	0		C	72347172	C	C	72347172	2	2	1	1	0	0	0	0	0	0	0	1	12746	1654	58	3		3	PTAR1	9	72347172	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	36177349	72347172	68866259	670	670											
ZCCHC6	79670	broad.mit.edu	37	chr9	88967932	88967932	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttttctgggggtattcccAtagttccctggtgttatctt	4	18	9	10	0	2	0	0	0	2	0	4	0	4	0	3	3	0	3	3	3	3	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:88967932A>T	uc004aoq.2	-	2	398	c.183T>A	c.(181-183)TAT>TAA	p.Y61*	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Nonsense_Mutation_p.Y61*|ZCCHC6_uc004aou.2_Nonsense_Mutation_p.Y61*|ZCCHC6_uc004aov.2_Nonsense_Mutation_p.Y61*|ZCCHC6_uc004aow.2_Nonsense_Mutation_p.Y61*|ZCCHC6_uc010mqf.1_Nonsense_Mutation_p.Y61*	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	61					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						GGGTATTCCCATAGTTCCCTG	0.418													89	284					0	0	0.00361	0	0		T	88967932	T	T	88967932	4	4	1	1	0	0	0	0	0	1	0	0	17617	224	8	5	4408	5	ZCCHC6	9	88967932	Nonsense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	16620760	88967932	52245499	671	671											
SHC3	53358	broad.mit.edu	37	chr9	91652990	91652990	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaaggagcccgggttggtgGtgctcttcctgaccaggaag	8	8	15	10	1	1	1	0	1	1	0	2	3	2	3	3	5	2	2	3	5	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:91652990G>T	uc004aqg.2	-	11	1881	c.1574C>A	c.(1573-1575)ACC>AAC	p.T525N		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	525	SH2.				central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						CGGGTTGGTGGTGCTCTTCCT	0.617													36	231					2.09667e-21	2.40814e-21	0.003755	1	0		T	91652990	T	T	91652990	3	4	1	1	0	0	0	0	1	0	0	0	14297	1261	44	5	218	5	SHC3	9	91652990	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2685058	91652990	49560441	672	672											
IARS	3376	broad.mit.edu	37	chr9	95022511	95022511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccgtttgctcattttttggCcatcacttgtaaaacaaaag	11	15	6	9	1	2	0	2	0	0	0	3	0	3	0	2	1	2	3	2	1	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:95022511C>T	uc004art.1	-	18	2050	c.1793G>A	c.(1792-1794)GGC>GAC	p.G598D	IARS_uc004ars.1_Missense_Mutation_p.G443D|IARS_uc004aru.3_Missense_Mutation_p.G598D|IARS_uc010mqr.2_Missense_Mutation_p.G488D|IARS_uc010mqt.2_Intron	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	598					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	CATTTTTTGGCCATCACTTGT	0.373													9	124					0	0	0.004482	0	0		T	95022511	T	T	95022511	3	4	1	1	0	0	0	0	1	0	0	0	7489	739	26	2	2063	2	IARS	9	95022511	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3369521	95022511	46190920	673	673											
FGD3	89846	broad.mit.edu	37	chr9	95796864	95796864	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcccagcctgctctgcggCcccctgcggctgtcagagag	5	6	13	17	2	2	1	1	0	1	1	2	2	2	1	4	2	5	2	4	2	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:95796864C>T	uc004asw.2	+	17	2455	c.1827C>T	c.(1825-1827)GGC>GGT	p.G609G	FGD3_uc004asx.2_Silent_p.G608G|FGD3_uc004asz.2_Silent_p.G609G|FGD3_uc011luc.1_Silent_p.G212G	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	609	PH 2.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						TGCTCTGCGGCCCCCTGCGGC	0.662													7	60					0	0	0.004482	0	0		T	95796864	T	T	95796864	2	4	1	1	0	0	0	0	0	0	0	1	5848	726	26	2		2	FGD3	9	95796864	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	774353	95796864	45416567	674	674											
FGD3	89846	broad.mit.edu	37	chr9	95797867	95797867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctatgggcgcagctgctcCgtgagctgagtctcccactg	5	9	12	15	2	1	2	0	2	1	0	3	2	2	2	3	1	3	4	3	1	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:95797867C>T	uc004asw.2	+	18	2802	c.2174C>T	c.(2173-2175)CCG>CTG	p.P725L	FGD3_uc004asx.2_Missense_Mutation_p.P724L|FGD3_uc004asz.2_Missense_Mutation_p.P725L|FGD3_uc011luc.1_Missense_Mutation_p.P328L	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	725					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						GCAGCTGCTCCGTGAGCTGAG	0.657													3	41					0	0	0.000602	0	0		T	95797867	T	T	95797867	3	4	1	1	0	0	0	0	1	0	0	0	5848	652	23	1	2236	1	FGD3	9	95797867	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1003	95797867	45415564	675	675											
FBP1	2203	broad.mit.edu	37	chr9	97369155	97369155	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagggtcaaagtccctggcgTagccctcgttaaggctgtag	8	9	13	11	2	1	0	1	0	0	0	3	0	2	0	2	3	1	4	2	3	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:97369155T>C	uc004auw.3	-	5	978	c.647A>G	c.(646-648)TAC>TGC	p.Y216C	FBP1_uc010mrl.2_Missense_Mutation_p.Y216C	NM_000507	NP_000498	P09467	F16P1_HUMAN	fructose-1,6-bisphosphatase 1	216	Substrate binding.				gluconeogenesis	cytosol	fructose 1,6-bisphosphate 1-phosphatase activity|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding|metal ion binding				0		Acute lymphoblastic leukemia(62;0.136)			Adenosine monophosphate(DB00131)	GTCCCTGGCGTAGCCCTCGTT	0.512													4	86					0	0	0.001168	0	0		C	97369155	C	C	97369155	3	2	1	1	0	0	0	0	1	0	0	0	5719	1638	57	3	381	3	FBP1	9	97369155	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1571288	97369155	43844276	676	676											
PTCH1	5727	broad.mit.edu	37	chr9	98239102	98239102	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggccagaagaaaaacaTcatccacaccaacaccaaga	18	3	7	13	1	1	3	1	0	0	3	2	3	2	3	4	1	2	0	4	1	5	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:98239102T>C	uc004avk.3	-	11	1729	c.1541A>G	c.(1540-1542)GAT>GGT	p.D514G	PTCH1_uc010mro.2_Missense_Mutation_p.D363G|PTCH1_uc010mrp.2_Missense_Mutation_p.D363G|PTCH1_uc010mrq.2_Missense_Mutation_p.D363G|PTCH1_uc004avl.3_Missense_Mutation_p.D363G|PTCH1_uc010mrr.2_Missense_Mutation_p.D448G|PTCH1_uc004avm.3_Missense_Mutation_p.D513G|PTCH1_uc010mrs.1_Missense_Mutation_p.D182G	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	514	SSD.|Helical; (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				AAGAAAAACATCATCCACACC	0.423									Basal_Cell_Nevus_syndrome				7	41					0	0	0.00308	0	0		C	98239102	C	C	98239102	3	2	1	1	0	0	0	0	1	0	0	0	12752	1435	50	3	2854	3	PTCH1	9	98239102	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	869947	98239102	42974329	677	677											
C9orf21	195827	broad.mit.edu	37	chr9	99404101	99404101	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgaactcctacaagctgTaaaacagagttgataggttt	13	12	9	7	0	0	3	0	2	0	1	1	3	1	3	1	1	5	5	1	1	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:99404101T>C	uc004awm.2	-	6	657	c.621A>G	c.(619-621)TTA>TTG	p.L207L		NM_153698	NP_714542	Q7RTV5	CI021_HUMAN	hypothetical protein LOC195827	207							antioxidant activity|oxidoreductase activity			large_intestine(1)	1		Acute lymphoblastic leukemia(62;0.0559)				CTACAAGCTGTAAAACAGAGT	0.393													14	135					0	0	0.003163	0	0		C	99404101	C	C	99404101	2	2	1	1	0	0	0	0	0	0	0	1	2476	1635	57	3		3	C9orf21	9	99404101	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1164999	99404101	41809330	678	678											
KIAA1529	57653	broad.mit.edu	37	chr9	100136907	100136907	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaaggaagagagtgagaaAcccctgattgaacgtggaag	15	6	14	6	1	0	5	0	4	0	2	0	9	0	7	2	2	2	0	2	2	5	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:100136907A>C	uc011lut.1	+	47	6005	c.5232A>C	c.(5230-5232)AAA>AAC	p.K1744N	KIAA1529_uc004axe.1_Missense_Mutation_p.K1550N|KIAA1529_uc004axg.1_Missense_Mutation_p.K1605N|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Missense_Mutation_p.K698N	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				AGAGTGAGAAACCCCTGATTG	0.428													4	62					0	0	0.009096	0	0		C	100136907	C	C	100136907	3	2	1	1	0	0	0	0	1	0	0	0	8256	40	2	5	4792	5	KIAA1529	9	100136907	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	732806	100136907	41076524	679	679											
C9orf156	51531	broad.mit.edu	37	chr9	100672422	100672422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgcttccttgcaagactgCtgctccttccactctttcta	5	15	5	16	0	2	1	0	0	2	1	5	1	5	1	4	0	4	4	4	0	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:100672422C>T	uc004axv.1	-	4	963	c.886G>A	c.(886-888)GCA>ACA	p.A296T	C9orf156_uc004axw.1_Missense_Mutation_p.A193T|C9orf156_uc004axx.1_Missense_Mutation_p.A150T|C9orf156_uc010msq.1_Missense_Mutation_p.A193T	NM_016481	NP_057565	Q9BU70	NAP1_HUMAN	Nef associated protein 1	296					interspecies interaction between organisms		hydrolase activity				0		Acute lymphoblastic leukemia(62;0.158)				TGCAAGACTGCTGCTCCTTCC	0.562													7	118					0	0	0.00308	0	0		T	100672422	T	T	100672422	3	4	1	1	0	0	0	0	1	0	0	0	2468	797	28	2	447	2	C9orf156	9	100672422	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	535515	100672422	40541009	680	680											
CORO2A	7464	broad.mit.edu	37	chr9	100899955	100899955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcagacttttgggtagtgggGgtccaacttccctgtctgca	6	12	13	10	0	1	1	0	0	1	1	3	1	3	1	2	3	2	3	2	3	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:100899955G>A	uc004ayl.2	-	3	483	c.217C>T	c.(217-219)CCC>TCC	p.P73S	CORO2A_uc004aym.2_Missense_Mutation_p.P73S	NM_003389	NP_003380	Q92828	COR2A_HUMAN	coronin, actin binding protein, 2A	73					actin cytoskeleton organization|intracellular signal transduction	actin cytoskeleton|transcriptional repressor complex	actin filament binding			skin(2)|ovary(1)|pancreas(1)	4		Acute lymphoblastic leukemia(62;0.0559)				GGGTAGTGGGGGTCCAACTTC	0.517													16	106					0	0	0.00499	0	0		A	100899955	A	A	100899955	3	1	1	1	0	0	0	0	1	0	0	0	3759	1232	43	4	1400	4	CORO2A	9	100899955	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	227533	100899955	40313476	681	681											
INVS	27130	broad.mit.edu	37	chr9	102988442	102988442	+	Silent	SNP	C	T	T																															ttgcacttgaccacccggcaCaggagccctaagtgtttggc																										TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:102988442C>T	uc004bap.1	+	4	584	c.372C>T	c.(370-372)CAC>CAT	p.H124H	INVS_uc010mta.1_Silent_p.H28H|INVS_uc011lve.1_Silent_p.H28H|INVS_uc004bao.1_Silent_p.H124H|INVS_uc004baq.1_Silent_p.H28H|INVS_uc004bar.1_Silent_p.H28H|INVS_uc010mtb.1_5'UTR	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	124	ANK 4.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				CCACCCGGCACAGGAGCCCTA	0.438													9	58					0	0	0.004482	0	0		T	102988442	T	T	102988442	2	4	1	1	0	0	0	0	0	0	0	1	7803	477	17	4		4	INVS	9	102988442	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2088487	102988442	38224989	682	682	3	2									
INVS	27130	broad.mit.edu	37	chr9	102988444	102988444	+	Missense_Mutation	SNP	G	T	T																															gcacttgaccacccggcacaGgagccctaagtgtttggcac																										TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:102988444G>T	uc004bap.1	+	4	586	c.374G>T	c.(373-375)AGG>ATG	p.R125M	INVS_uc010mta.1_Missense_Mutation_p.R29M|INVS_uc011lve.1_Missense_Mutation_p.R29M|INVS_uc004bao.1_Missense_Mutation_p.R125M|INVS_uc004baq.1_Missense_Mutation_p.R29M|INVS_uc004bar.1_Missense_Mutation_p.R29M|INVS_uc010mtb.1_Translation_Start_Site	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	125	ANK 4.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				ACCCGGCACAGGAGCCCTAAG	0.433													8	57					0.000157383	0.00016551	0.00308	1	0		T	102988444	T	T	102988444	3	4	1	1	0	0	0	0	1	0	0	0	7803	1000	35	5	384	5	INVS	9	102988444	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2	102988444	38224987	683	683	3	2									
TEX10	54881	broad.mit.edu	37	chr9	103111628	103111628	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgaaaatcatgttggcgTtttctttttttagtcattct	7	23	6	5	1	4	1	2	1	2	0	4	1	4	1	0	1	0	2	0	1	3	10			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:103111628T>C	uc004bas.2	-	2	233	c.18A>G	c.(16-18)AAA>AAG	p.K6K	TEX10_uc011lvf.1_5'Flank|TEX10_uc011lvg.1_Silent_p.K9K|TEX10_uc011lvh.1_Intron|TEX10_uc004bat.2_Silent_p.K6K	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	6						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		CATGTTGGCGTTTTCTTTTTT	0.284													3	42					0	0	0.004672	0	0		C	103111628	C	C	103111628	2	2	1	1	0	0	0	0	0	0	0	1	15797	1722	60	3		3	TEX10	9	103111628	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	123184	103111628	38101803	684	684											
BAAT	570	broad.mit.edu	37	chr9	104124938	104124938	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttcccatgtctcttcagCtgtcctatggcttgttcagc	4	17	7	13	0	4	0	2	0	2	0	7	0	6	0	2	1	2	3	2	1	1	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:104124938C>A	uc010mtd.2	-	4	1138	c.1029G>T	c.(1027-1029)CAG>CAT	p.Q343H	BAAT_uc004bbd.3_Missense_Mutation_p.Q343H	NM_001127610	NP_001121082	Q14032	BAAT_HUMAN	bile acid Coenzyme A: amino acid	343					acyl-CoA metabolic process|bile acid and bile salt transport|bile acid biosynthetic process|digestion|fatty acid metabolic process|glycine metabolic process	cytosol|peroxisomal matrix	carboxylesterase activity|glycine N-choloyltransferase activity|N-acyltransferase activity|palmitoyl-CoA hydrolase activity			ovary(1)|lung(1)|skin(1)	3		Acute lymphoblastic leukemia(62;0.0559)			Glycine(DB00145)	GTCTCTTCAGCTGTCCTATGG	0.502													7	95					7.48243e-07	8.11933e-07	0.006214	1	0		A	104124938	A	A	104124938	3	1	1	1	0	0	0	0	1	0	0	0	1281	796	28	5	231	5	BAAT	9	104124938	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1013310	104124938	37088493	685	685											
OR13C8	138802	broad.mit.edu	37	chr9	107331882	107331882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgcctatgtggccatggCagctgggtcctgggtcactg	4	10	17	10	0	1	0	1	0	0	0	2	0	2	0	3	5	2	2	3	5	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:107331882C>T	uc011lvo.1	+	1	434	c.434C>T	c.(433-435)GCA>GTA	p.A145V		NM_001004483	NP_001004483	Q8NGS7	O13C8_HUMAN	olfactory receptor, family 13, subfamily C,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GTGGCCATGGCAGCTGGGTCC	0.502													19	123					0	0	0.008871	0	0		T	107331882	T	T	107331882	3	4	1	1	0	0	0	0	1	0	0	0	10957	710	25	2	436	2	OR13C8	9	107331882	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3206944	107331882	33881549	686	686											
ABCA1	19	broad.mit.edu	37	chr9	107550741	107550741	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctctgggactcctctcaaaAgggcaaagaactccacgtgt	11	9	9	12	1	2	1	1	0	2	1	6	2	4	2	2	2	1	1	2	2	4	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:107550741A>G	uc004bcl.2	-	45	6348	c.6035T>C	c.(6034-6036)CTT>CCT	p.L2012P	NIPSNAP3B_uc004bcj.1_RNA	NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	2012	ABC transporter 2.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TCCTCTCAAAAGGGCAAAGAA	0.483													17	276					0	0	0.004007	0	0		G	107550741	G	G	107550741	3	3	1	1	0	0	0	0	1	0	0	0	28	72	3	3	774	3	ABCA1	9	107550741	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	218859	107550741	33662690	687	687											
KIAA0368	23392	broad.mit.edu	37	chr9	114199319	114199319	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggattccagaacctccGccactgtttgaagaagaacc	11	9	10	11	1	0	4	0	1	0	3	2	5	2	5	5	1	2	1	5	1	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:114199319G>A	uc004bfe.1	-	8	1143	c.1143C>T	c.(1141-1143)GGC>GGT	p.G381G	KIAA0368_uc010muc.1_Silent_p.G203G	NM_001080398	NP_001073867			KIAA0368 protein												0						CAGAACCTCCGCCACTGTTTG	0.453													25	117					0	0	0.00333	0	0		A	114199319	A	A	114199319	2	1	1	1	0	0	0	0	0	0	0	1	8187	1074	38	1		1	KIAA0368	9	114199319	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	6648578	114199319	27014112	688	688											
ZNF483	158399	broad.mit.edu	37	chr9	114296627	114296627	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagtctcaaaaagctccCgactaggtgagttggtgaaa	15	8	11	7	1	1	3	1	2	1	1	3	4	2	3	1	2	1	2	1	2	6	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:114296627C>T	uc004bff.2	+	5	939	c.715C>T	c.(715-717)CGA>TGA	p.R239*	ZNF483_uc011lwq.1_Nonsense_Mutation_p.R239*|ZNF483_uc004bfg.2_Nonsense_Mutation_p.R239*	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	239	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						AAAAAGCTCCCGACTAGGTGA	0.378													6	150					0	0	0.001168	0	0		T	114296627	T	T	114296627	4	4	1	1	0	0	0	0	0	1	0	0	17961	644	23	1	729	1	ZNF483	9	114296627	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	97308	114296627	26916804	689	689											
FKBP15	23307	broad.mit.edu	37	chr9	115945145	115945145	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaggttactctgctcaacAtacctgtgaaagaaatagag	15	10	8	8	0	3	3	2	1	1	2	3	3	3	3	1	1	4	2	1	1	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:115945145A>G	uc004bgs.2	-	19	1933	c.1815T>C	c.(1813-1815)TAT>TAC	p.Y605Y	FKBP15_uc010muu.1_Silent_p.Y669Y|FKBP15_uc004bgr.2_Silent_p.Y52Y|FKBP15_uc011lxc.1_Silent_p.Y186Y|FKBP15_uc011lxd.1_Silent_p.Y537Y|FKBP15_uc010mut.1_Silent_p.Y473Y	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	605	Potential.				endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						TCTGCTCAACATACCTGTGAA	0.438													54	405					0	0	0.00361	0	0		G	115945145	G	G	115945145	2	3	1	1	0	0	0	0	0	0	0	1	5919	224	8	3		3	FKBP15	9	115945145	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1648518	115945145	25268286	690	690											
KIF12	113220	broad.mit.edu	37	chr9	116857359	116857359	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcttgcatatcgcagggTgctgagagtctcaggaaggc	8	9	15	9	2	1	1	1	1	1	1	4	3	1	2	0	4	2	4	0	4	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:116857359T>C	uc004bif.2	-	8	887	c.649A>G	c.(649-651)ACC>GCC	p.T217A	KIF12_uc004big.2_RNA	NM_138424	NP_612433	Q96FN5	KIF12_HUMAN	kinesin family member 12	350					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						TATCGCAGGGTGCTGAGAGTC	0.652													4	34					0	0	0.001168	0	0		C	116857359	C	C	116857359	3	2	1	1	0	0	0	0	1	0	0	0	8289	1696	59	3	928	3	KIF12	9	116857359	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	912214	116857359	24356072	691	691											
RBM18	92400	broad.mit.edu	37	chr9	125007550	125007550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttaccttaggttagactgaGtaggctcagtgcttgaggat	9	13	12	7	0	1	3	1	2	0	1	1	4	1	4	1	3	2	4	1	3	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:125007550G>A	uc004bma.2	-	5	564	c.398C>T	c.(397-399)ACT>ATT	p.T133I	RBM18_uc004blz.2_RNA|RBM18_uc010mvy.2_RNA|RBM18_uc011lyp.1_RNA	NM_033117	NP_149108	Q96H35	RBM18_HUMAN	RNA binding motif protein 18	133							nucleotide binding|RNA binding				0						GTTAGACTGAGTAGGCTCAGT	0.358													17	187					0	0	0.010504	0	0		A	125007550	A	A	125007550	3	1	1	1	0	0	0	0	1	0	0	0	13145	1029	36	4	182	4	RBM18	9	125007550	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	8150191	125007550	16205881	692	692											
OR1L6	392390	broad.mit.edu	37	chr9	125512246	125512246	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcatgtacctgctcgctgcGgtggggaatgtgctcatcat	7	12	12	10	2	3	0	3	0	0	0	4	1	3	1	1	3	4	4	1	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:125512246G>A	uc011lzc.1	+	1	228	c.228G>A	c.(226-228)GCG>GCA	p.A76A		NM_001004453	NP_001004453	Q8NGR2	OR1L6_HUMAN	olfactory receptor, family 1, subfamily L,	76	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGCTCGCTGCGGTGGGGAATG	0.537													28	172					0	0	0.005443	0	0		A	125512246	A	A	125512246	2	1	1	1	0	0	0	0	0	0	0	1	10985	1103	39	1		1	OR1L6	9	125512246	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	504696	125512246	15701185	693	693											
RC3H2	54542	broad.mit.edu	37	chr9	125659721	125659721	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgggtttgtgcacattcTcatcaaattcattatagcag	11	15	8	7	0	3	1	3	1	1	0	4	1	3	1	0	1	2	3	0	1	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:125659721T>G	uc010mwc.1	-	2	309	c.68A>C	c.(67-69)GAG>GCG	p.E23A	RC3H2_uc004bnc.2_RNA|RC3H2_uc004bnd.1_Missense_Mutation_p.E23A|RC3H2_uc004bne.3_Missense_Mutation_p.E23A|RC3H2_uc011lzg.1_Missense_Mutation_p.E23A|RC3H2_uc004bng.1_Missense_Mutation_p.E23A	NM_001100588	NP_001094058	Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type zinc finger domains 2	23	RING-type; degenerate.					cell surface|endomembrane system|membrane|membrane fraction|perinuclear region of cytoplasm	DNA binding|zinc ion binding			ovary(2)|lung(2)	4						GTGCACATTCTCATCAAATTC	0.448													9	77					0	0	0.004482	0	0		G	125659721	G	G	125659721	3	3	1	1	0	0	0	0	1	0	0	0	13192	1551	54	5	3665	5	RC3H2	9	125659721	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	147475	125659721	15553710	694	694											
RALGPS1	9649	broad.mit.edu	37	chr9	129974417	129974417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtctctcctcagccccaccGgcccgtgcatctgttctctg	4	11	8	18	2	4	0	1	0	3	0	7	0	5	0	5	1	2	2	5	1	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:129974417G>A	uc004bqo.1	+	15	1522	c.1255G>A	c.(1255-1257)GGC>AGC	p.G419S	RALGPS1_uc011mac.1_Missense_Mutation_p.G377S|RALGPS1_uc004bqq.3_Missense_Mutation_p.G377S	NM_014636	NP_055451	Q5JS13	RGPS1_HUMAN	Ral GEF with PH domain and SH3 binding motif 1	419					small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity			ovary(1)	1						CAGCCCCACCGGCCCGTGCAT	0.622													3	35					0	0	0.004672	0	0		A	129974417	A	A	129974417	3	1	1	1	0	0	0	0	1	0	0	0	13042	1116	39	1	1309	1	RALGPS1	9	129974417	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4314696	129974417	11239014	695	695											
C9orf117	286207	broad.mit.edu	37	chr9	130473600	130473600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgggagacaaccaagcgggCcatcaaagagaacaacggca	16	2	13	10	2	1	2	1	0	0	2	1	4	1	2	2	3	4	1	2	3	5	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:130473600C>T	uc004brn.1	+	4	720	c.680C>T	c.(679-681)GCC>GTC	p.A227V	PTRH1_uc004brm.2_Intron|C9orf117_uc010mxl.1_RNA	NM_001012502	NP_001012520	Q5JU67	CI117_HUMAN	hypothetical protein LOC286207	227											0						ACCAAGCGGGCCATCAAAGAG	0.562													4	44					0	0	0.000602	0	0		T	130473600	T	T	130473600	3	4	1	1	0	0	0	0	1	0	0	0	2454	739	26	2	694	2	C9orf117	9	130473600	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	499183	130473600	10739831	696	696											
ST6GALNAC6	30815	broad.mit.edu	37	chr9	130652960	130652960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggtcgtcaaattgccgCatgcggccgggagagacggc	10	5	16	10	5	1	2	1	0	0	2	2	4	1	3	2	4	2	1	2	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:130652960C>T	uc004bso.1	-	5	779	c.660G>A	c.(658-660)ATG>ATA	p.M220I	ST6GALNAC6_uc004bsn.1_Missense_Mutation_p.M186I|ST6GALNAC6_uc011man.1_Intron|ST6GALNAC6_uc004bsp.1_Missense_Mutation_p.M220I|ST6GALNAC6_uc004bsq.1_Missense_Mutation_p.M186I|ST6GALNAC6_uc004bsr.2_Missense_Mutation_p.M186I|ST6GALNAC6_uc010mxp.1_RNA	NM_013443	NP_038471	Q969X2	SIA7F_HUMAN	sialytransferase 7F	220	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane|plasma membrane					0						CAAATTGCCGCATGCGGCCGG	0.642													9	67					0	0	0.004482	0	0		T	130652960	T	T	130652960	3	4	1	1	0	0	0	0	1	0	0	0	15253	710	25	2	353	2	ST6GALNAC6	9	130652960	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	179360	130652960	10560471	697	697											
PIP5KL1	138429	broad.mit.edu	37	chr9	130687433	130687433	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggcccctctcatcctcGtggagacgttggaaggctat	6	9	12	14	3	1	1	1	0	1	1	4	3	2	2	4	4	0	2	4	4	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:130687433G>A	uc011mao.1	-	9	915	c.870C>T	c.(868-870)CAC>CAT	p.H290H	PIP5KL1_uc004bsu.2_Silent_p.H87H	NM_001135219	NP_001128691	Q5T9C9	PI5L1_HUMAN	phosphatidylinositol-4-phosphate 5-kinase-like 1	290	PIPK.					cytoplasm|membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			lung(1)|kidney(1)	2						TCTCATCCTCGTGGAGACGTT	0.607													7	65					0	0	0.00308	0	0		A	130687433	A	A	130687433	2	1	1	1	0	0	0	0	0	0	0	1	11961	1136	40	1		1	PIP5KL1	9	130687433	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	34473	130687433	10525998	698	698											
GOLGA2	2801	broad.mit.edu	37	chr9	131023773	131023773	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctgccgccacatggcgCtctctcctttgagattctcc	4	13	7	17	2	3	1	0	1	3	1	7	2	5	1	5	1	1	1	5	1	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:131023773C>A	uc011maw.1	-	15	1224	c.1211G>T	c.(1210-1212)AGC>ATC	p.S404I	GOLGA2_uc010mxw.2_Intron|GOLGA2_uc004buh.2_5'Flank|GOLGA2_uc004bul.1_Missense_Mutation_p.S305I|uc004bun.2_5'Flank	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	404	Potential.					Golgi cisterna membrane	protein binding			ovary(1)	1						CCACATGGCGCTCTCTCCTTT	0.433													21	167					1.1804e-14	1.34008e-14	0.003954	1	0		A	131023773	A	A	131023773	3	1	1	1	0	0	0	0	1	0	0	0	6567	797	28	5	1845	5	GOLGA2	9	131023773	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	336340	131023773	10189658	699	699											
SPTAN1	6709	broad.mit.edu	37	chr9	131388889	131388889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagatcaagagcttccgcGtagcctccaacccctacacc	10	6	7	18	2	1	2	1	0	0	2	3	2	3	2	7	0	4	2	7	0	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:131388889G>A	uc004bvl.3	+	48	6597	c.6484G>A	c.(6484-6486)GTA>ATA	p.V2162I	SPTAN1_uc004bvm.3_Missense_Mutation_p.V2167I|SPTAN1_uc004bvn.3_Missense_Mutation_p.V2142I|SPTAN1_uc010mye.1_5'UTR|SPTAN1_uc010myf.1_5'UTR	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	2162	Spectrin 22.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						GAGCTTCCGCGTAGCCTCCAA	0.617													4	17					0	0	0.001168	0	0		A	131388889	A	A	131388889	3	1	1	1	0	0	0	0	1	0	0	0	15142	1145	40	1	6689	1	SPTAN1	9	131388889	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	365116	131388889	9824542	700	700											
ZER1	10444	broad.mit.edu	37	chr9	131503844	131503844	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaggaagagcttcatgccGttgaaattgaggaacatctc	12	10	10	9	1	2	3	1	2	1	1	4	5	3	5	2	2	3	2	2	2	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:131503844G>A	uc004bwa.1	-	11	2140	c.1707C>T	c.(1705-1707)AAC>AAT	p.N569N		NM_006336	NP_006327	Q7Z7L7	ZER1_HUMAN	zyg-11 homolog B (C. elegans)-like	569	ARM 3.				ATP hydrolysis coupled proton transport|regulation of ubiquitin-protein ligase activity	Cul2-RING ubiquitin ligase complex|vacuolar proton-transporting V-type ATPase, V1 domain	protein binding|proton-transporting ATPase activity, rotational mechanism|ubiquitin-protein ligase activity			ovary(1)	1						GCTTCATGCCGTTGAAATTGA	0.562													33	96					0	0	0.012213	0	0		A	131503844	A	A	131503844	2	1	1	1	0	0	0	0	0	0	0	1	17650	1136	40	1		1	ZER1	9	131503844	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	114955	131503844	9709587	701	701											
PPP2R4	5524	broad.mit.edu	37	chr9	131899905	131899905	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcccagacactttgtggaTgagaaggccgtgaatgagaa	13	7	14	7	1	0	4	0	3	0	3	0	8	0	5	2	2	1	0	2	2	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:131899905T>C	uc004bxm.1	+	9	1092	c.825T>C	c.(823-825)GAT>GAC	p.D275D	PPP2R4_uc004bxl.1_Silent_p.D240D|PPP2R4_uc011mbo.1_Silent_p.D275D|PPP2R4_uc010myr.1_Intron|PPP2R4_uc004bxn.1_Silent_p.D240D|PPP2R4_uc004bxo.1_Silent_p.D198D|PPP2R4_uc011mbp.1_Silent_p.D211D|PPP2R4_uc011mbq.1_Silent_p.D198D|PPP2R4_uc010mys.1_Silent_p.D205D|PPP2R4_uc011mbr.1_5'Flank|PPP2R4_uc004bxp.2_5'Flank	NM_178001	NP_821068	Q15257	PTPA_HUMAN	protein phosphatase 2A, regulatory subunit B'	275					ATP catabolic process|negative regulation of phosphoprotein phosphatase activity|negative regulation of protein dephosphorylation|positive regulation of apoptosis|positive regulation of phosphoprotein phosphatase activity|positive regulation of protein dephosphorylation	calcium channel complex|cytoplasm|nucleus|protein phosphatase type 2A complex|soluble fraction	ATP binding|peptidyl-prolyl cis-trans isomerase activity|protein heterodimerization activity|protein homodimerization activity|protein phosphatase 2A binding|protein phosphatase type 2A regulator activity|protein tyrosine phosphatase activator activity|receptor binding			ovary(1)|lung(1)|pancreas(1)	3		Medulloblastoma(224;0.235)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)		ACTTTGTGGATGAGAAGGCCG	0.562													2	11					0	0	0.004672	0	0		C	131899905	C	C	131899905	2	2	1	1	0	0	0	0	0	0	0	1	12413	1461	51	3		3	PPP2R4	9	131899905	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	396061	131899905	9313526	702	702											
FUBP3	8939	broad.mit.edu	37	chr9	133470916	133470916	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacttgaataattccacacCtctagtggacccctcagtat	11	12	5	13	0	3	1	2	1	1	0	4	2	4	2	4	1	0	1	4	1	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:133470916C>A	uc004bzr.1	+	2	239	c.131C>A	c.(130-132)CCT>CAT	p.P44H	FUBP3_uc010mzd.1_5'UTR|FUBP3_uc004bzs.1_Intron	NM_003934	NP_003925	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	44					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		AATTCCACACCTCTAGTGGAC	0.413													7	225					5.18039e-06	5.58145e-06	0.00308	1	0		A	133470916	A	A	133470916	3	1	1	1	0	0	0	0	1	0	0	0	6107	681	24	5	137	5	FUBP3	9	133470916	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1571011	133470916	7742515	703	703											
NUP214	8021	broad.mit.edu	37	chr9	134073173	134073173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catcagttttggtgggacatCtctaagtgctggcaagacta	10	12	11	8	0	2	1	1	0	1	1	3	2	2	2	0	3	1	3	0	3	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:134073173C>T	uc004cag.2	+	29	4403	c.4292C>T	c.(4291-4293)TCT>TTT	p.S1431F	NUP214_uc004cah.2_Missense_Mutation_p.S1421F|NUP214_uc004cai.2_Missense_Mutation_p.S861F|NUP214_uc010mzg.2_RNA|NUP214_uc011mcg.1_Missense_Mutation_p.S257F|NUP214_uc011mcf.1_Missense_Mutation_p.S208F|NUP214_uc010mzh.1_5'UTR|NUP214_uc010mzi.1_5'UTR	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	1431	Pro/Ser/Thr-rich.|11 X 3 AA approximate repeats.|11 X 5 AA approximate repeats.|18 X 4 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		GGTGGGACATCTCTAAGTGCT	0.547			T	DEK|SET|ABL1	AML|T-ALL								27	157					0	0	0.003954	0	0		T	134073173	T	T	134073173	3	4	1	1	0	0	0	0	1	0	0	0	10781	913	32	4	4406	4	NUP214	9	134073173	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	602257	134073173	7140258	704	704											
POMT1	10585	broad.mit.edu	37	chr9	134394318	134394318	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacgggagcacggtgtggaAcgtggaggagcaccgatacg	10	4	17	10	5	0	0	0	0	0	0	0	5	0	4	2	5	4	2	2	5	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:134394318A>G	uc004cav.2	+	15	1728	c.1526A>G	c.(1525-1527)AAC>AGC	p.N509S	POMT1_uc004cax.2_Missense_Mutation_p.N487S|POMT1_uc011mcj.1_Missense_Mutation_p.N265S|POMT1_uc004cau.2_Missense_Mutation_p.N487S|POMT1_uc004caw.2_Missense_Mutation_p.N433S|POMT1_uc011mck.1_Missense_Mutation_p.N370S|POMT1_uc011mcl.1_Missense_Mutation_p.N335S|POMT1_uc011mcm.1_Missense_Mutation_p.N457S|POMT1_uc011mcn.1_3'UTR	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	509	MIR 3.				multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		ACGGTGTGGAACGTGGAGGAG	0.627													5	60					0	0	0.001984	0	0		G	134394318	G	G	134394318	3	3	1	1	0	0	0	0	1	0	0	0	12264	43	2	3	1580	3	POMT1	9	134394318	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	321145	134394318	6819113	705	705											
SETX	23064	broad.mit.edu	37	chr9	135202796	135202796	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcagttcctcctgtacaatTataatctgacctatcagatt	11	15	4	11	0	3	2	2	1	1	1	5	2	5	2	3	0	1	2	3	0	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:135202796T>C	uc004cbk.2	-	10	4372	c.4189A>G	c.(4189-4191)AAT>GAT	p.N1397D	SETX_uc004cbj.2_Missense_Mutation_p.N1016D|SETX_uc010mzt.2_Missense_Mutation_p.N1016D	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1397					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		CCTGTACAATTATAATCTGAC	0.373													5	313					0	0	0.000602	0	0		C	135202796	C	C	135202796	3	2	1	1	0	0	0	0	1	0	0	0	14166	1754	61	3	3912	3	SETX	9	135202796	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	808478	135202796	6010635	706	706											
TSC1	7248	broad.mit.edu	37	chr9	135771689	135771689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccaacactgtccggggtcGggggagacgggtgagggcca	7	5	19	10	3	0	2	0	1	0	1	3	3	2	2	3	6	1	0	3	6	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:135771689G>A	uc004cca.2	-	23	3662	c.3428C>T	c.(3427-3429)CCG>CTG	p.P1143L	TSC1_uc004ccb.3_Missense_Mutation_p.P1142L|TSC1_uc011mcq.1_Missense_Mutation_p.P1092L|TSC1_uc011mcr.1_3'UTR	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	1143					activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding	p.?(1)		lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		GTCCGGGGTCGGGGGAGACGG	0.493			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				23	175					0	0	0.00278	0	0		A	135771689	A	A	135771689	3	1	1	1	0	0	0	0	1	0	0	0	16631	1116	39	1	70	1	TSC1	9	135771689	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	568893	135771689	5441742	707	707											
RPL7A	6130	broad.mit.edu	37	chr9	136218179	136218179	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggctcgtatcgccaagctCgaaaaggcaaaggctaaaga	14	6	12	9	3	0	1	0	0	0	1	3	2	0	1	1	3	1	5	1	3	7	2	rs138448510		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:136218179C>T	uc004cde.1	+	8	789	c.759C>T	c.(757-759)CTC>CTT	p.L253L	RPL7A_uc004cdf.1_Silent_p.L77L	NM_000972	NP_000963	P62424	RL7A_HUMAN	ribosomal protein L7a	253					endocrine pancreas development|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|membrane fraction|polysomal ribosome	RNA binding|structural constituent of ribosome				0				OV - Ovarian serous cystadenocarcinoma(145;4.93e-07)|Epithelial(140;4.09e-06)|all cancers(34;3.78e-05)		TCGCCAAGCTCGAAAAGGCAA	0.418													4	30					0	0	0.009096	0	0		T	136218179	T	T	136218179	2	4	1	1	0	0	0	0	0	0	0	1	13625	871	31	1		1	RPL7A	9	136218179	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	446490	136218179	4995252	708	708											
SURF2	6835	broad.mit.edu	37	chr9	136226847	136226847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaagaatgtcagaagcaagGggtggagtacgtgcctgcct	11	8	15	7	1	1	3	1	1	0	2	1	4	1	4	2	3	4	2	2	3	5	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:136226847G>A	uc004cdi.2	+	4	407	c.359G>A	c.(358-360)GGG>GAG	p.G120E		NM_017503	NP_059973	Q15527	SURF2_HUMAN	surfeit 2	120							protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.87e-07)|Epithelial(140;4.02e-06)|all cancers(34;3.71e-05)		CAGAAGCAAGGGGTGGAGTAC	0.637													6	30					0	0	0.001168	0	0		A	136226847	A	A	136226847	3	1	1	1	0	0	0	0	1	0	0	0	15429	1232	43	4	373	4	SURF2	9	136226847	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	8668	136226847	4986584	709	709											
SNAPC4	6621	broad.mit.edu	37	chr9	139272334	139272334	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgtggagtaggagaccGgacagagctcgcaggctgca	9	8	15	9	2	1	2	0	0	1	2	2	5	1	4	1	4	2	5	1	4	1	3	rs142001603	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:139272334G>A	uc004chh.2	-	21	3954	c.3945C>T	c.(3943-3945)TCC>TCT	p.S1315S		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	1315	SNAPC2-binding.				snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		GTAGGAGACCGGACAGAGCTC	0.697													4	34					0	0	0.001168	0	0		A	139272334	A	A	139272334	2	1	1	1	0	0	0	0	0	0	0	1	14862	1103	39	1		1	SNAPC4	9	139272334	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3045487	139272334	1941097	710	710											
NOTCH1	4851	broad.mit.edu	37	chr9	139407497	139407497	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagggcagcaggcagttgcActtgtacccggcaacgtcgt	8	8	14	11	3	0	0	0	0	0	0	1	0	0	0	1	3	4	8	1	3	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:139407497A>G	uc004chz.2	-	15	2443	c.2443T>C	c.(2443-2445)TGC>CGC	p.C815R	NOTCH1_uc004cia.1_Missense_Mutation_p.C45R	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	815	Extracellular (Potential).|EGF-like 21; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.G812fs*59(1)|p.G812fs*58(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		AGGCAGTTGCACTTGTACCCG	0.642			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			7	28					0	0	0.001984	0	0		G	139407497	G	G	139407497	3	3	1	1	0	0	0	0	1	0	0	0	10566	159	6	3	5304	3	NOTCH1	9	139407497	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	135163	139407497	1805934	711	711											
C9orf86	55684	broad.mit.edu	37	chr9	139726231	139726231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccacgtgccagtgtgcGtgctgggaaactaccgggac	8	6	13	14	3	0	0	0	0	0	0	0	2	0	2	4	2	5	1	4	2	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr9:139726231G>A	uc004cji.1	+	6	785	c.517G>A	c.(517-519)GTG>ATG	p.V173M	C9orf86_uc004cjm.2_Missense_Mutation_p.V173M|C9orf86_uc004cjh.2_Missense_Mutation_p.V173M|C9orf86_uc004cjj.1_Missense_Mutation_p.V173M|C9orf86_uc004cjk.1_RNA|C9orf86_uc010nbr.1_Missense_Mutation_p.V173M|C9orf86_uc004cjl.1_RNA|C9orf86_uc010nbs.1_Missense_Mutation_p.V58M	NM_024718	NP_078994	Q3YEC7	PARF_HUMAN	Rab-like GTP-binding protein 1 isoform 1	173	Small GTPase-like.				small GTPase mediated signal transduction	cytoplasm|nucleus	GTP binding|protein binding				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.61e-05)|Epithelial(140;0.000183)		GCCAGTGTGCGTGCTGGGAAA	0.607													6	35					0	0	0.001168	0	0		A	139726231	A	A	139726231	3	1	1	1	0	0	0	0	1	0	0	0	2505	1145	40	1	539	1	C9orf86	9	139726231	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	318734	139726231	1487200	712	712											
DIP2C	22982	broad.mit.edu	37	chr10	465046	465046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcgttgccgtacttgggcGctgtccgggaccccgtggaa	4	8	16	13	6	0	0	0	0	0	0	1	2	1	2	4	4	2	3	4	4	2	3	rs77328768	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:465046G>A	uc001ifp.2	-	6	788	c.698C>T	c.(697-699)GCG>GTG	p.A233V		NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	233						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GTACTTGGGCGCTGTCCGGGA	0.557													26	93					0	0	0.00333	0	0		A	465046	A	A	465046	3	1	1	1	0	0	0	0	1	0	0	0	4535	1087	38	1	4100	1	DIP2C	10	465046	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08		465046	135069701	713	713											
TUBAL3	79861	broad.mit.edu	37	chr10	5437415	5437415	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcggggtggaagagtgaacGgtgctggcccgtccggatcc	6	7	17	11	4	0	2	0	1	0	1	3	4	2	4	3	6	2	1	3	6	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:5437415G>A	uc001ihy.2	-	3	311	c.271C>T	c.(271-273)CGT>TGT	p.R91C	TUBAL3_uc001ihz.2_Missense_Mutation_p.R51C	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	91					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						AAGAGTGAACGGTGCTGGCCC	0.597													12	170					0	0	0.003163	0	0		A	5437415	A	A	5437415	3	1	1	1	0	0	0	0	1	0	0	0	16777	1116	39	1	1077	1	TUBAL3	10	5437415	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4972369	5437415	130097332	714	714											
NET1	10276	broad.mit.edu	37	chr10	5495290	5495290	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatttggtgatctggactcTtacatacctctgcatgaagg	10	14	9	8	0	3	2	0	2	3	0	3	3	3	3	1	3	3	1	1	3	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:5495290T>C	uc001iia.2	+	7	810	c.672T>C	c.(670-672)TCT>TCC	p.S224S	NET1_uc010qar.1_Silent_p.S43S|NET1_uc001iib.2_Silent_p.S170S|NET1_uc010qas.1_Silent_p.S43S	NM_001047160	NP_001040625	Q7Z628	ARHG8_HUMAN	neuroepithelial cell transforming gene 1 isoform	224	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1						ATCTGGACTCTTACATACCTC	0.408													38	225					0	0	0.005524	0	0		C	5495290	C	C	5495290	2	2	1	1	0	0	0	0	0	0	0	1	10357	1596	56	3		3	NET1	10	5495290	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	57875	5495290	130039457	715	715											
FBXO18	84893	broad.mit.edu	37	chr10	5957467	5957467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatcgcaaagcaggccgaaCgcgtcttccccagcaacgtc	10	5	10	16	5	1	0	0	0	1	0	4	1	2	0	3	1	4	4	3	1	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:5957467C>T	uc001iis.2	+	9	1593	c.1498C>T	c.(1498-1500)CGC>TGC	p.R500C	FBXO18_uc001iir.2_Missense_Mutation_p.R426C|FBXO18_uc009xig.2_Missense_Mutation_p.R426C|FBXO18_uc001iit.2_Missense_Mutation_p.R551C	NM_178150	NP_835363	Q8NFZ0	FBX18_HUMAN	F-box only protein, helicase, 18 isoform 2	500					DNA repair	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(2)|skin(1)	3						GCAGGCCGAACGCGTCTTCCC	0.532													8	64					0	0	0.004482	0	0		T	5957467	T	T	5957467	3	4	1	1	0	0	0	0	1	0	0	0	5745	536	19	1	1694	1	FBXO18	10	5957467	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	462177	5957467	129577280	716	716											
PRKCQ	5588	broad.mit.edu	37	chr10	6553148	6553148	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttctggatatacatctGcccgttctctaggaacagaa	10	14	7	10	1	3	1	0	0	3	1	4	3	3	3	1	2	3	1	1	2	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:6553148G>A	uc001ijj.1	-	3	202	c.127C>T	c.(127-129)CAG>TAG	p.Q43*	PRKCQ_uc009xim.1_Nonsense_Mutation_p.Q43*|PRKCQ_uc001iji.1_Nonsense_Mutation_p.Q76*|PRKCQ_uc009xin.1_Nonsense_Mutation_p.Q7*|PRKCQ_uc010qax.1_5'UTR	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	43	C2.				axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						ATATACATCTGCCCGTTCTCT	0.458													21	192					0	0	0.010504	0	0		A	6553148	A	A	6553148	4	1	1	1	0	0	0	0	0	1	0	0	12537	1328	46	2	2057	2	PRKCQ	10	6553148	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	595681	6553148	128981599	717	717											
CELF2	10659	broad.mit.edu	37	chr10	11363285	11363285	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacagtacgcagccgccgcGctgcccactctgtacagcca	9	5	9	18	4	1	0	0	0	1	0	1	0	1	0	4	0	6	4	4	0	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:11363285G>A	uc001iki.3	+	11	1283	c.1191G>A	c.(1189-1191)GCG>GCA	p.A397A	CELF2_uc010qbj.1_Silent_p.A403A|CELF2_uc001ikk.2_Silent_p.A422A|CELF2_uc001ikl.3_Silent_p.A410A|CELF2_uc010qbl.1_Silent_p.A373A|CELF2_uc010qbm.1_Silent_p.A169A|CELF2_uc001iko.3_Silent_p.A377A|CELF2_uc001ikp.3_Silent_p.A379A|CELF2_uc010qbn.1_Silent_p.A385A|CELF2_uc010qbo.1_Silent_p.A292A|CELF2_uc010qbp.1_Silent_p.A169A	NM_001025077	NP_001020248	O95319	CELF2_HUMAN	CUG triplet repeat, RNA binding protein 2	397	Necessary for RNA-binding, TNNT2 exon 5 and NMDA R1 exon 21 inclusion.|Ala-rich.				mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0						CAGCCGCCGCGCTGCCCACTC	0.662													3	24					0	0	0.000602	0	0		A	11363285	A	A	11363285	2	1	1	1	0	0	0	0	0	0	0	1	3219	1074	38	1		1	CELF2	10	11363285	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4810137	11363285	124171462	718	718											
FRMD4A	55691	broad.mit.edu	37	chr10	13701408	13701408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagttccagtgcgggaggcCgcggatggggctgttctgca	5	8	19	9	3	1	0	0	0	1	0	2	3	2	3	2	6	2	4	2	6	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:13701408C>T	uc001ims.2	-	21	2333	c.1981G>A	c.(1981-1983)GGC>AGC	p.G661S	FRMD4A_uc009xjf.1_Missense_Mutation_p.G661S	NM_018027	NP_060497	Q9P2Q2	FRM4A_HUMAN	FERM domain containing 4A	661	Ser-rich.					cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3						TGCGGGAGGCCGCGGATGGGG	0.652													5	69					0	0	0.001168	0	0		T	13701408	T	T	13701408	3	4	1	1	0	0	0	0	1	0	0	0	6065	652	23	1	1154	1	FRMD4A	10	13701408	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2338123	13701408	121833339	719	719											
NMT2	9397	broad.mit.edu	37	chr10	15172276	15172276	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgatctcaacttcttatgaAcacaaagaaagttgatttct	14	14	5	8	1	3	3	1	2	3	1	5	4	3	3	0	0	2	1	0	0	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:15172276A>G	uc001inz.1	-	7	839	c.755T>C	c.(754-756)GTT>GCT	p.V252A	NMT2_uc001ioa.1_Missense_Mutation_p.V239A|NMT2_uc009xjo.1_Missense_Mutation_p.V252A|NMT2_uc010qbz.1_Missense_Mutation_p.V64A	NM_004808	NP_004799	O60551	NMT2_HUMAN	N-myristoyltransferase 2	252					N-terminal protein myristoylation|protein lipoylation	Golgi apparatus|plasma membrane	glycylpeptide N-tetradecanoyltransferase activity			ovary(1)	1						CTTCTTATGAACACAAAGAAA	0.413													4	88					0	0	0.009096	0	0		G	15172276	G	G	15172276	3	3	1	1	0	0	0	0	1	0	0	0	10523	43	2	3	765	3	NMT2	10	15172276	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1470868	15172276	120362471	720	720											
RSU1	6251	broad.mit.edu	37	chr10	16806444	16806444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatctgtgtgggcagctcctCgatttggttattaaaaaagt	10	14	11	6	1	1	0	0	0	1	0	3	2	2	0	1	2	1	3	1	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:16806444C>T	uc001iok.2	-	3	528	c.226G>A	c.(226-228)GAG>AAG	p.E76K	RSU1_uc001iol.2_Missense_Mutation_p.E76K|RSU1_uc001iom.2_Missense_Mutation_p.E23K|RSU1_uc001ion.2_Missense_Mutation_p.E76K	NM_152724	NP_689937	Q15404	RSU1_HUMAN	ras suppressor protein 1 isoform 2	76	LRR 2.				cell junction assembly|signal transduction	cytosol	protein binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(1;7.54e-08)		GGCAGCTCCTCGATTTGGTTA	0.463													20	220					0	0	0.007413	0	0		T	16806444	T	T	16806444	3	4	1	1	0	0	0	0	1	0	0	0	13741	893	31	1	631	1	RSU1	10	16806444	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1634168	16806444	118728303	721	721											
APBB1IP	54518	broad.mit.edu	37	chr10	26800723	26800723	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacagcacaaagtcactgatGgtggatgagcggcagctggc	12	6	14	9	1	1	2	1	2	0	0	1	3	1	3	0	4	4	3	0	4	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:26800723G>T	uc001iss.2	+	7	900	c.579G>T	c.(577-579)ATG>ATT	p.M193I	APBB1IP_uc009xks.1_Missense_Mutation_p.M193I	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	193	Ras-associating.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						AGTCACTGATGGTGGATGAGC	0.483													13	97					6.31663e-08	6.92631e-08	0.003163	1	0		T	26800723	T	T	26800723	3	4	1	1	0	0	0	0	1	0	0	0	760	1348	47	5	597	5	APBB1IP	10	26800723	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	9994279	26800723	108734024	722	722											
APBB1IP	54518	broad.mit.edu	37	chr10	26825134	26825134	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaatttattatgtacccaaAggaaagactaaggtcagaaa	18	9	9	5	0	1	2	1	0	0	2	1	4	1	4	1	3	1	1	1	3	8	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:26825134A>C	uc001iss.2	+	10	1353	c.1032A>C	c.(1030-1032)AAA>AAC	p.K344N	APBB1IP_uc009xks.1_Missense_Mutation_p.K344N	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	344	PH.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						ATGTACCCAAAGGAAAGACTA	0.333													5	207					0	0	0.001168	0	0		C	26825134	C	C	26825134	3	2	1	1	0	0	0	0	1	0	0	0	760	69	3	5	1062	5	APBB1IP	10	26825134	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	24411	26825134	108709613	723	723											
YME1L1	10730	broad.mit.edu	37	chr10	27405252	27405252	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctagtttcattccatctgTcattctcaggtaacagggac	9	14	7	11	0	5	0	3	0	3	0	7	1	6	1	1	2	1	2	1	2	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:27405252T>C	uc001iti.2	-	17	2095	c.1913A>G	c.(1912-1914)GAC>GGC	p.D638G	YME1L1_uc001itj.2_Missense_Mutation_p.D581G|YME1L1_uc010qdl.1_Missense_Mutation_p.D548G|YME1L1_uc009xkv.2_RNA	NM_139312	NP_647473	Q96TA2	YMEL1_HUMAN	YME1-like 1 isoform 1	638					protein catabolic process|proteolysis	membrane|mitochondrion	ATP binding|metal ion binding|metalloendopeptidase activity|nucleoside-triphosphatase activity			ovary(1)	1						ATTCCATCTGTCATTCTCAGG	0.318													15	149					0	0	0.003163	0	0		C	27405252	C	C	27405252	3	2	1	1	0	0	0	0	1	0	0	0	17513	1667	58	3	424	3	YME1L1	10	27405252	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	580118	27405252	108129495	724	724											
SVIL	6840	broad.mit.edu	37	chr10	29821757	29821757	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaatgtagagaaccatctcGctcctgcctgtcctctcagt	8	12	8	13	1	2	2	1	1	2	1	6	3	4	2	4	0	2	2	4	0	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:29821757G>A	uc001iut.1	-	8	2292	c.1539C>T	c.(1537-1539)AGC>AGT	p.S513S	SVIL_uc001iuu.1_Intron|SVIL_uc009xld.1_Silent_p.S513S	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	513					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				GAACCATCTCGCTCCTGCCTG	0.557													18	138					0	0	0.010504	0	0		A	29821757	A	A	29821757	2	1	1	1	0	0	0	0	0	0	0	1	15446	1078	38	1		1	SVIL	10	29821757	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2416505	29821757	105712990	725	725											
KIF5B	3799	broad.mit.edu	37	chr10	32306280	32306280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggagatctgcattatcaCgtaccaactaaacgtacaca	15	8	7	11	3	2	1	1	0	1	1	2	2	2	1	1	1	6	3	1	1	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:32306280C>T	uc001iwe.3	-	24	3022	c.2552G>A	c.(2551-2553)CGT>CAT	p.R851H		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	851					stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				TGCATTATCACGTACCAACTA	0.383													11	79					0	0	0.008291	0	0		T	32306280	T	T	32306280	3	4	1	1	0	0	0	0	1	0	0	0	8322	536	19	1	347	1	KIF5B	10	32306280	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2484523	32306280	103228467	726	726											
C10orf68	79741	broad.mit.edu	37	chr10	33137552	33137552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttaaaaacaaagatatGtccgtacaacgtcaagaagg	18	10	7	6	2	1	2	1	0	0	2	2	2	2	2	1	1	3	1	1	1	10	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:33137552G>A	uc001iwn.3	+	19	2003	c.1530G>A	c.(1528-1530)ATG>ATA	p.M510I	C10orf68_uc001iwl.1_Missense_Mutation_p.M469I|C10orf68_uc001iwm.1_Missense_Mutation_p.M514I|C10orf68_uc010qei.1_Missense_Mutation_p.M486I|C10orf68_uc001iwo.3_RNA	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	510										skin(2)|ovary(1)	3						ACAAAGATATGTCCGTACAAC	0.313													6	142					0	0	0.00308	0	0		A	33137552	A	A	33137552	3	1	1	1	0	0	0	0	1	0	0	0	1616	1377	48	4	1596	4	C10orf68	10	33137552	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	831272	33137552	102397195	727	727											
PARD3	56288	broad.mit.edu	37	chr10	34759011	34759011	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaacaagcagaggtggttAccttcctgtcgcaggtttta	10	11	11	9	1	0	1	0	0	0	1	2	1	1	1	2	3	3	5	2	3	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:34759011A>G	uc010qej.1	-	4	582	c.582_splice	c.e4+1	p.K194_splice	PARD3_uc010qek.1_Splice_Site_p.K194_splice|PARD3_uc010qel.1_Splice_Site_p.K194_splice|PARD3_uc010qem.1_Splice_Site_p.K194_splice|PARD3_uc010qen.1_Splice_Site_p.K194_splice|PARD3_uc010qeo.1_Splice_Site_p.K194_splice|PARD3_uc010qep.1_Splice_Site_p.K194_splice|PARD3_uc010qeq.1_Splice_Site_p.K194_splice|PARD3_uc001ixp.1_Splice_Site_p.K59_splice|PARD3_uc001ixq.1_Splice_Site_p.K194_splice|PARD3_uc001ixr.1_Splice_Site_p.K194_splice|PARD3_uc001ixt.1_Splice_Site_p.K59_splice|PARD3_uc001ixu.1_Splice_Site_p.K194_splice	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				AGAGGTGGTTACCTTCCTGTC	0.517													10	103					0	0	0.008291	0	0		G	34759011	G	G	34759011	5	3	1	1	0	0	0	0	0	0	1	0	11462	405	14	3	3609	3	PARD3	10	34759011	Splice_Site	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1621459	34759011	100775736	728	728											
CREM	1390	broad.mit.edu	37	chr10	35495831	35495831	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttttactgcagctgccactGgtgacatgccaacttaccag	9	11	9	12	0	0	1	0	1	0	0	0	1	0	1	3	1	7	3	3	1	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:35495831G>T	uc001iyb.2	+	7	769	c.607G>T	c.(607-609)GGT>TGT	p.G203C	CREM_uc001ixy.2_5'UTR|CREM_uc001ixz.2_5'UTR|CREM_uc001iya.2_Missense_Mutation_p.G152C|CREM_uc001iyc.2_Missense_Mutation_p.G124C|CREM_uc001iyd.2_Missense_Mutation_p.G203C|CREM_uc001iye.2_Missense_Mutation_p.G140C|CREM_uc001iyf.2_Missense_Mutation_p.G173C|CREM_uc001iyg.2_Missense_Mutation_p.G110C|CREM_uc001iyh.2_Missense_Mutation_p.G148C|CREM_uc001iyi.2_Missense_Mutation_p.G85C|CREM_uc001iyj.2_Missense_Mutation_p.G82C|CREM_uc001iyk.2_Missense_Mutation_p.G82C|CREM_uc001iyl.2_Missense_Mutation_p.G24C|CREM_uc001iym.2_Missense_Mutation_p.G24C|CREM_uc001iyn.2_Missense_Mutation_p.G12C|CREM_uc001iyo.2_Missense_Mutation_p.G12C|CREM_uc001iyp.2_Missense_Mutation_p.G6C|CREM_uc001iyq.2_Missense_Mutation_p.G16C|CREM_uc001iyr.2_Missense_Mutation_p.G16C|CREM_uc001iys.2_5'UTR|CREM_uc001iyt.2_5'UTR	NM_181571	NP_853549	Q03060	CREM_HUMAN	cAMP responsive element modulator isoform a	264					cell differentiation|multicellular organismal development|signal transduction|spermatogenesis	nucleus	cAMP response element binding protein binding|protein binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGCTGCCACTGGTGACATGCC	0.433													22	207					3.6726e-16	4.19798e-16	0.003954	1	0		T	35495831	T	T	35495831	3	4	1	1	0	0	0	0	1	0	0	0	3871	1348	47	5	881	5	CREM	10	35495831	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	736820	35495831	100038916	729	729											
ANKRD30A	91074	broad.mit.edu	37	chr10	37438712	37438712	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaccccatttagcctgccaTtgaaatgcaaaactctgttc	12	11	5	13	0	1	1	0	1	1	0	2	1	1	1	4	0	5	2	4	0	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:37438712T>C	uc001iza.1	+	11	1511	c.1412T>C	c.(1411-1413)ATT>ACT	p.I471T		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	527						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						TAGCCTGCCATTGAAATGCAA	0.279													6	127					0	0	0.006214	0	0		C	37438712	C	C	37438712	3	2	1	1	0	0	0	0	1	0	0	0	658	1493	52	3	1454	3	ANKRD30A	10	37438712	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1942881	37438712	98096035	730	730											
FRMPD2	143162	broad.mit.edu	37	chr10	49419998	49419998	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcaggaaggccttaccCtcaagaacttcagctcagca	12	7	9	13	0	4	1	4	0	0	1	4	2	4	2	2	3	4	2	2	3	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:49419998C>A	uc001jgi.2	-	13	1717	c.1610G>T	c.(1609-1611)AGG>ATG	p.R537M	FRMPD2_uc001jgh.2_Missense_Mutation_p.R505M|FRMPD2_uc001jgj.2_Missense_Mutation_p.R515M	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	537	FERM.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		AGGCCTTACCCTCAAGAACTT	0.577													4	25					0.00909568	0.00931889	0.009096	1	0		A	49419998	A	A	49419998	3	1	1	1	0	0	0	0	1	0	0	0	6072	695	24	5	2387	5	FRMPD2	10	49419998	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	11981286	49419998	86114749	731	731											
EGR2	1959	broad.mit.edu	37	chr10	64573280	64573280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagttgcgcatgcagatcCgacactggaagggcttatgc	10	9	13	9	2	0	2	0	1	0	1	1	4	1	3	1	2	3	4	1	2	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:64573280C>T	uc010qim.1	-	3	1272	c.1118G>A	c.(1117-1119)CGG>CAG	p.R373Q	EGR2_uc010qin.1_Missense_Mutation_p.R323Q|EGR2_uc001jmi.2_Missense_Mutation_p.R373Q|EGR2_uc010qio.1_Missense_Mutation_p.R386Q|EGR2_uc009xph.2_Missense_Mutation_p.R373Q	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	373	C2H2-type 2.				fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					CATGCAGATCCGACACTGGAA	0.617													20	147					0	0	0.007413	0	0		T	64573280	T	T	64573280	3	4	1	1	0	0	0	0	1	0	0	0	4978	652	23	1	316	1	EGR2	10	64573280	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	15153282	64573280	70961467	732	732											
JMJD1C	221037	broad.mit.edu	37	chr10	64949203	64949203	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catagtccgtccacttttgcTactctattaaggaaaaaaca	14	12	5	10	1	1	0	0	0	1	0	3	1	3	1	2	1	3	1	2	1	7	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:64949203T>C	uc001jmn.2	-	18	6595	c.6295A>G	c.(6295-6297)AGC>GGC	p.S2099G	JMJD1C_uc001jml.2_Missense_Mutation_p.S1862G|JMJD1C_uc001jmm.2_Missense_Mutation_p.S1811G|JMJD1C_uc010qiq.1_Missense_Mutation_p.S1917G|JMJD1C_uc009xpi.2_Missense_Mutation_p.S1917G|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmo.2_Missense_Mutation_p.S6G	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	2099					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					CCACTTTTGCTACTCTATTAA	0.303													3	134					0	0	0.004672	0	0		C	64949203	C	C	64949203	3	2	1	1	0	0	0	0	1	0	0	0	7966	1522	53	3	1363	3	JMJD1C	10	64949203	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	375923	64949203	70585544	733	733											
STOX1	219736	broad.mit.edu	37	chr10	70645584	70645584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggattacccagttggcGtgaaccctttaagacaagct	10	13	9	9	1	0	2	0	1	0	1	0	3	0	3	2	2	3	2	2	2	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:70645584G>A	uc001jos.2	+	3	2119	c.2032G>A	c.(2032-2034)GTG>ATG	p.V678M	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Missense_Mutation_p.V568M	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	678						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						CCCAGTTGGCGTGAACCCTTT	0.423													16	191					0	0	0.00499	0	0		A	70645584	A	A	70645584	3	1	1	1	0	0	0	0	1	0	0	0	15344	1145	40	1	2042	1	STOX1	10	70645584	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5696381	70645584	64889163	734	734											
SUPV3L1	6832	broad.mit.edu	37	chr10	70949034	70949034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgttttaggtacccagatgCtagagccatgcagcggaaga	12	9	12	8	1	0	3	0	0	0	3	0	4	0	4	2	2	5	4	2	2	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:70949034C>T	uc001jpe.1	+	5	639	c.584C>T	c.(583-585)GCT>GTT	p.A195V	SUPV3L1_uc010qjd.1_Missense_Mutation_p.A64V	NM_003171	NP_003162	Q8IYB8	SUV3_HUMAN	suppressor of var1, 3-like 1 precursor	195	Helicase ATP-binding.				DNA duplex unwinding	mitochondrial nucleoid|nucleus	ATP binding|DNA binding|DNA helicase activity|RNA binding			urinary_tract(1)|ovary(1)	2						TACCCAGATGCTAGAGCCATG	0.403													18	127					0	0	0.006122	0	0		T	70949034	T	T	70949034	3	4	1	1	0	0	0	0	1	0	0	0	15427	797	28	2	602	2	SUPV3L1	10	70949034	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	303450	70949034	64585713	735	735											
PLA2G12B	84647	broad.mit.edu	37	chr10	74700992	74700992	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatcgagtggagacaccatCggaattttgcatcacagcga	13	8	11	9	3	1	2	1	0	0	2	3	6	1	3	1	2	2	1	1	2	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:74700992C>T	uc001jtf.1	-	3	468	c.401G>A	c.(400-402)CGA>CAA	p.R134Q	PLA2G12B_uc009xqt.1_Missense_Mutation_p.R44Q|PLA2G12B_uc010qjz.1_Missense_Mutation_p.R134Q	NM_032562	NP_115951	Q9BX93	PG12B_HUMAN	phospholipase A2, group XIIB precursor	134					lipid catabolic process	extracellular region	calcium ion binding|phospholipase A2 activity			ovary(1)	1	Prostate(51;0.0198)					GAGACACCATCGGAATTTTGC	0.502													32	217					0	0	0.012213	0	0		T	74700992	T	T	74700992	3	4	1	1	0	0	0	0	1	0	0	0	12010	884	31	1	194	1	PLA2G12B	10	74700992	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3751958	74700992	60833755	736	736											
USP54	159195	broad.mit.edu	37	chr10	75280778	75280778	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggacctctcaaagccgtcActcctccctgaaagggccag	10	6	10	15	1	2	1	2	1	1	0	5	2	4	2	5	2	1	0	5	2	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:75280778A>G	uc001juo.2	-	16	2387	c.2370T>C	c.(2368-2370)AGT>AGC	p.S790S	USP54_uc010qkk.1_Intron|USP54_uc001juk.2_Intron|USP54_uc001jul.2_Intron|USP54_uc001jum.2_RNA|USP54_uc001jun.2_Intron|USP54_uc001jup.2_Silent_p.S790S	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	790					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					CAAAGCCGTCACTCCTCCCTG	0.463													13	101					0	0	0.001855	0	0		G	75280778	G	G	75280778	2	3	1	1	0	0	0	0	0	0	0	1	17111	156	6	3		3	USP54	10	75280778	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	579786	75280778	60253969	737	737											
FUT11	170384	broad.mit.edu	37	chr10	75533122	75533122	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgacagaaaaactgtggCgtcccatgcacctgggcgct	11	7	11	12	2	0	2	0	1	0	1	1	2	1	2	2	2	2	2	2	2	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:75533122C>T	uc001jva.2	+	2	926	c.883C>T	c.(883-885)CGT>TGT	p.R295C	FUT11_uc001juy.1_3'UTR|FUT11_uc001juz.1_Missense_Mutation_p.R295C	NM_173540	NP_775811	Q495W5	FUT11_HUMAN	fucosyltransferase 11 (alpha (1,3)	295	Lumenal (Potential).				protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity				0	Prostate(51;0.0112)					AAAACTGTGGCGTCCCATGCA	0.532													16	96					0	0	0.004007	0	0		T	75533122	T	T	75533122	3	4	1	1	0	0	0	0	1	0	0	0	6117	768	27	1	889	1	FUT11	10	75533122	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	252344	75533122	60001625	738	738											
NDST2	8509	broad.mit.edu	37	chr10	75565362	75565362	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctgccaaagggggcttcGctcctgagggaaaagttcaa	11	8	12	10	1	1	1	1	1	0	0	3	2	2	2	3	3	2	3	3	3	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:75565362G>A	uc001jvk.2	-	8	2533	c.1729C>T	c.(1729-1731)CGA>TGA	p.R577*	NDST2_uc010qks.1_Nonsense_Mutation_p.R203*|NDST2_uc010qkt.1_Nonsense_Mutation_p.R454*|NDST2_uc001jvl.1_5'Flank|NDST2_uc009xro.2_Nonsense_Mutation_p.R203*|NDST2_uc010qku.1_Nonsense_Mutation_p.R452*	NM_003635	NP_003626	P52849	NDST2_HUMAN	heparan glucosaminyl	577	Lumenal (Potential).|Heparan sulfate N-deacetylase 2.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			ovary(1)	1	Prostate(51;0.0112)					AGGGGGCTTCGCTCCTGAGGG	0.463													7	62					0	0	0.001984	0	0		A	75565362	A	A	75565362	4	1	1	1	0	0	0	0	0	1	0	0	10275	1095	38	1	954	1	NDST2	10	75565362	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	32240	75565362	59969385	739	739											
SAMD8	142891	broad.mit.edu	37	chr10	76910318	76910318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taatcaactctgcattcgccGctggactaccaagcatgtag	11	10	8	12	2	2	0	1	0	1	0	3	1	2	1	2	1	4	4	2	1	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:76910318G>A	uc001jwx.1	+	2	135	c.32G>A	c.(31-33)CGC>CAC	p.R11H	SAMD8_uc001jwy.1_Missense_Mutation_p.R11H	NM_144660	NP_653261	Q96LT4	SAMD8_HUMAN	sterile alpha motif domain containing 8	11					sphingomyelin biosynthetic process	integral to membrane					0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					TGCATTCGCCGCTGGACTACC	0.433													11	58					0	0	0.010729	0	0		A	76910318	A	A	76910318	3	1	1	1	0	0	0	0	1	0	0	0	13850	1087	38	1	34	1	SAMD8	10	76910318	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1344956	76910318	58624429	740	740											
CDHR1	92211	broad.mit.edu	37	chr10	85973847	85973847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctttcagaccctctccCggagccccatggctgccttc	4	12	7	18	1	3	1	1	0	2	1	6	2	3	2	5	2	2	1	5	2	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:85973847C>T	uc001kcv.2	+	17	2050	c.2050C>T	c.(2050-2052)CGG>TGG	p.R684W	CDHR1_uc001kcw.2_Intron|CDHR1_uc009xst.2_Missense_Mutation_p.R388W|CDHR1_uc001kcx.2_5'UTR	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	684	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						GACCCTCTCCCGGAGCCCCAT	0.572													12	117					0	0	0.010729	0	0		T	85973847	T	T	85973847	3	4	1	1	0	0	0	0	1	0	0	0	3121	643	23	1	2116	1	CDHR1	10	85973847	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	9063529	85973847	49560900	741	741											
GRID1	2894	broad.mit.edu	37	chr10	87898605	87898605	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaaggagtgggctccctgtgGgctgagcagcaggatggcgc	7	6	19	9	1	0	1	0	1	0	0	1	4	1	3	1	5	2	4	1	5	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:87898605G>T	uc001kdl.1	-	4	798	c.697C>A	c.(697-699)CCA>ACA	p.P233T	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	233	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	GCTCCCTGTGGGCTGAGCAGC	0.612										Multiple Myeloma(13;0.14)			13	121					4.3838e-07	4.77246e-07	0.001855	1	0		T	87898605	T	T	87898605	3	4	1	1	0	0	0	0	1	0	0	0	6787	1232	43	5	2384	5	GRID1	10	87898605	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1924758	87898605	47636142	742	742											
BTAF1	9044	broad.mit.edu	37	chr10	93749219	93749219	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagtgcacaacaaggacGccctgtcccaattcaaaaat	15	6	7	13	1	1	0	1	0	0	0	2	1	2	1	2	1	3	2	2	1	5	1	rs142341012		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:93749219G>A	uc001khr.2	+	20	2834	c.2736G>A	c.(2734-2736)ACG>ACA	p.T912T	BTAF1_uc001khs.1_Silent_p.T582T|BTAF1_uc001kht.1_Silent_p.T350T	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	912					negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				CAACAAGGACGCCCTGTCCCA	0.403													17	100					0	0	0.00499	0	0		A	93749219	A	A	93749219	2	1	1	1	0	0	0	0	0	0	0	1	1539	1074	38	1		1	BTAF1	10	93749219	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5850614	93749219	41785528	743	743											
CYP26A1	1592	broad.mit.edu	37	chr10	94834608	94834608	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccgaggaagtgggcagcAgcctggagcagtggctgagc	9	5	17	10	1	1	1	1	1	0	0	1	4	1	3	2	4	4	4	2	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:94834608A>G	uc001kil.2	+	3	532	c.487A>G	c.(487-489)AGC>GGC	p.S163G	CYP26A1_uc001kik.1_Missense_Mutation_p.S94G|CYP26A1_uc001kim.1_Missense_Mutation_p.S61G	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	163					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				AGTGGGCAGCAGCCTGGAGCA	0.642													7	51					0	0	0.006214	0	0		G	94834608	G	G	94834608	3	3	1	1	0	0	0	0	1	0	0	0	4158	188	7	3	497	3	CYP26A1	10	94834608	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1085389	94834608	40700139	744	744											
PLCE1	51196	broad.mit.edu	37	chr10	95790896	95790896	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcagatgaaagtagtgaAaaggtctcagacatcaatat	16	9	10	6	0	2	4	2	2	1	2	3	4	2	4	0	1	1	3	0	1	6	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:95790896A>G	uc001kjk.2	+	2	727	c.93A>G	c.(91-93)GAA>GAG	p.E31E	PLCE1_uc010qnx.1_Silent_p.E31E	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	31					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				AAAGTAGTGAAAAGGTCTCAG	0.418													23	123					0	0	0.002299	0	0		G	95790896	G	G	95790896	2	3	1	1	0	0	0	0	0	0	0	1	12053	11	1	3		3	PLCE1	10	95790896	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	956288	95790896	39743851	745	745											
PLCE1	51196	broad.mit.edu	37	chr10	96084180	96084180	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactatgtgcttttggaagaGgtggtgaaagacactaccaa	13	10	12	6	0	0	3	0	1	0	2	0	5	0	4	1	3	2	1	1	3	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:96084180G>T	uc001kjk.2	+	31	7210	c.6576G>T	c.(6574-6576)GAG>GAT	p.E2192D	PLCE1_uc010qnx.1_Missense_Mutation_p.E2176D|PLCE1_uc001kjm.2_Missense_Mutation_p.E1884D|PLCE1_uc001kjp.2_Missense_Mutation_p.E550D	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	2192	Ras-associating 2.				activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				TTTTGGAAGAGGTGGTGAAAG	0.463													46	370					1.19451e-25	1.3767e-25	0.00361	1	0		T	96084180	T	T	96084180	3	4	1	1	0	0	0	0	1	0	0	0	12053	991	35	5	6980	5	PLCE1	10	96084180	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	293284	96084180	39450567	746	746											
SORBS1	10580	broad.mit.edu	37	chr10	97135731	97135731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagctattaaacttaccGgtttcccaaactccaattcc	12	12	4	13	1	0	1	0	1	0	0	3	1	3	1	4	1	4	2	4	1	7	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:97135731G>A	uc001kkp.2	-	17	1781	c.1736C>T	c.(1735-1737)CCG>CTG	p.P579L	SORBS1_uc001kkk.2_Intron|SORBS1_uc001kkl.2_Missense_Mutation_p.P181L|SORBS1_uc001kkn.2_Missense_Mutation_p.P366L|SORBS1_uc001kkm.2_Missense_Mutation_p.P435L|SORBS1_uc001kko.2_Missense_Mutation_p.P601L|SORBS1_uc001kkq.2_Missense_Mutation_p.P464L|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_Intron|SORBS1_uc001kku.2_Intron|SORBS1_uc001kkv.2_Intron|SORBS1_uc001kkw.2_Missense_Mutation_p.P533L|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Intron	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	579					focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		TAAACTTACCGGTTTCCCAAA	0.373													16	107					0	0	0.00499	0	0		A	97135731	A	A	97135731	3	1	1	1	0	0	0	0	1	0	0	0	14952	1130	39	1	2266	1	SORBS1	10	97135731	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1051551	97135731	38399016	747	747											
ENTPD1	953	broad.mit.edu	37	chr10	97599483	97599483	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcgggttcttctcacacAagtttatacatctataagtg	11	14	8	8	1	3	0	1	0	3	0	4	1	3	0	0	1	2	2	0	1	5	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:97599483A>G	uc001klh.3	+	3	504	c.180A>G	c.(178-180)ACA>ACG	p.T60T	ENTPD1_uc001kle.1_Silent_p.T67T|ENTPD1_uc001kli.3_Silent_p.T67T|uc001klg.1_Intron|ENTPD1_uc010qoj.1_Silent_p.T72T|ENTPD1_uc010qok.1_5'UTR|ENTPD1_uc010qol.1_5'UTR|ENTPD1_uc010qom.1_Silent_p.T60T|ENTPD1_uc010qon.1_5'UTR|ENTPD1_uc009xva.2_Intron|ENTPD1_uc009xuz.2_RNA	NM_001776	NP_001767	P49961	ENTP1_HUMAN	ectonucleoside triphosphate diphosphohydrolase 1	60	Extracellular (Potential).				cell adhesion	integral to plasma membrane	ATP binding			ovary(3)	3		Colorectal(252;0.0821)		Epithelial(162;1.31e-07)|all cancers(201;5.33e-06)		CTTCTCACACAAGTTTATACA	0.428													44	348					0	0	0.011902	0	0		G	97599483	G	G	97599483	2	3	1	1	0	0	0	0	0	0	0	1	5146	117	5	3		3	ENTPD1	10	97599483	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	463752	97599483	37935264	748	748											
PIK3AP1	118788	broad.mit.edu	37	chr10	98469667	98469667	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgccgactggacaggaacagGgtctgcaggtactggcacca	10	6	14	11	1	1	0	0	0	1	0	1	3	1	2	2	5	4	3	2	5	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:98469667G>A	uc001kmq.2	-	2	215	c.87C>T	c.(85-87)ACC>ACT	p.T29T		NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	29						cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		ACAGGAACAGGGTCTGCAGGT	0.597													5	47					0	0	0.001168	0	0		A	98469667	A	A	98469667	2	1	1	1	0	0	0	0	0	0	0	1	11927	1219	43	4		4	PIK3AP1	10	98469667	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	870184	98469667	37065080	749	749											
SLIT1	6585	broad.mit.edu	37	chr10	98820480	98820480	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgatgccattgctgcaggtGcacatggccgggcaggagcc	8	6	15	12	2	0	0	0	0	0	0	0	2	0	1	3	4	5	4	3	4	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:98820480G>A	uc001kmw.2	-	9	1110	c.858C>T	c.(856-858)TGC>TGT	p.C286C	SLIT1_uc009xvh.1_Silent_p.C286C	NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	286	LRRNT 2.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		TGCTGCAGGTGCACATGGCCG	0.662													9	30					0	0	0.004482	0	0		A	98820480	A	A	98820480	2	1	1	1	0	0	0	0	0	0	0	1	14764	1311	46	2		2	SLIT1	10	98820480	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	350813	98820480	36714267	750	750											
ABCC2	1244	broad.mit.edu	37	chr10	101606727	101606727	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacttgcaggaccccatcCtgttctctggaagcctgagg	7	11	10	13	0	2	1	1	1	1	0	4	3	3	3	4	3	2	2	4	3	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:101606727C>A	uc001kqf.2	+	30	4295	c.4156C>A	c.(4156-4158)CTG>ATG	p.L1386M		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	1386	Cytoplasmic (By similarity).|ABC transporter 2.					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GGACCCCATCCTGTTCTCTGG	0.532													63	476					3.94896e-32	4.55755e-32	0.00361	1	0		A	101606727	A	A	101606727	3	1	1	1	0	0	0	0	1	0	0	0	53	680	24	5	4274	5	ABCC2	10	101606727	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2786247	101606727	33928020	751	751											
PAX2	5076	broad.mit.edu	37	chr10	102586780	102586780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcagggagcgagttctccGgcaacccgtacagccacccc	8	4	11	18	4	1	0	0	0	1	0	2	2	1	1	6	2	4	4	6	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:102586780G>A	uc001krk.3	+	10	1655	c.1105G>A	c.(1105-1107)GGC>AGC	p.G369S	PAX2_uc001krl.3_Silent_p.P373P|PAX2_uc001krm.3_Missense_Mutation_p.G369S|PAX2_uc001kro.3_Missense_Mutation_p.G346S|PAX2_uc001krn.3_Missense_Mutation_p.G346S|PAX2_uc010qps.1_Missense_Mutation_p.G345S	NM_003990	NP_003981	Q02962	PAX2_HUMAN	paired box protein 2 isoform e	369					anti-apoptosis|axonogenesis|brain morphogenesis|branching involved in ureteric bud morphogenesis|cell fate determination|cellular response to glucose stimulus|cellular response to hydrogen peroxide|cellular response to retinoic acid|cochlea development|glial cell differentiation|inner ear morphogenesis|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesodermal cell fate specification|mesonephros development|metanephric collecting duct development|metanephric distal convoluted tubule development|metanephric mesenchymal cell differentiation|metanephric nephron tubule formation|negative regulation of caspase activity|negative regulation of cytolysis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|negative regulation of reactive oxygen species metabolic process|negative regulation of transcription, DNA-dependent|nephric duct formation|neural tube closure|optic chiasma development|optic cup morphogenesis involved in camera-type eye development|optic nerve structural organization|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of metanephric glomerulus development|positive regulation of optic nerve formation|positive regulation of transcription from RNA polymerase II promoter|pronephric field specification|protein kinase B signaling cascade|reactive oxygen species metabolic process|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of metanephros size|retinal pigment epithelium development|stem cell differentiation|transcription from RNA polymerase II promoter|ureter maturation|vestibulocochlear nerve formation|visual perception	centriolar satellite|nucleus|protein complex|protein-DNA complex	core promoter proximal region sequence-specific DNA binding|superoxide-generating NADPH oxidase activity				0		Colorectal(252;0.234)		Epithelial(162;1.32e-08)|all cancers(201;7.32e-07)		CGAGTTCTCCGGCAACCCGTA	0.682													4	40					0	0	0.009096	0	0		A	102586780	A	A	102586780	3	1	1	1	0	0	0	0	1	0	0	0	11498	1116	39	1	1230	1	PAX2	10	102586780	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	980053	102586780	32947967	752	752											
SFXN3	81855	broad.mit.edu	37	chr10	102795320	102795320	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaagtatgtgtatgactcCgccttccatccggacacagg	9	9	10	13	2	0	1	0	1	0	0	3	2	3	2	5	2	0	2	5	2	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:102795320C>T	uc001ksp.2	+	4	696	c.240C>T	c.(238-240)TCC>TCT	p.S80S	SFXN3_uc001ksq.2_Silent_p.S80S|SFXN3_uc010qpx.1_Silent_p.S80S	NM_030971	NP_112233	Q9BWM7	SFXN3_HUMAN	sideroflexin 3	80					iron ion homeostasis	integral to membrane|mitochondrial membrane	cation transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		TGTATGACTCCGCCTTCCATC	0.597													9	61					0	0	0.006214	0	0		T	102795320	T	T	102795320	2	4	1	1	0	0	0	0	0	0	0	1	14221	639	23	1		1	SFXN3	10	102795320	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	208540	102795320	32739427	753	753											
CUEDC2	79004	broad.mit.edu	37	chr10	104184490	104184490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttctcctctgatgggcccGaggggcccaggtcctccagg	5	8	14	14	1	2	1	0	1	2	0	5	2	4	1	5	5	0	1	5	5	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:104184490G>A	uc001kvn.2	-	3	285	c.134C>T	c.(133-135)TCG>TTG	p.S45L	CUEDC2_uc001kvm.2_5'Flank	NM_024040	NP_076945	Q9H467	CUED2_HUMAN	CUE domain containing 2	45						cytoplasm|nucleus	protein binding				0		Colorectal(252;0.122)		Epithelial(162;9.17e-09)|all cancers(201;2.16e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		TGATGGGCCCGAGGGGCCCAG	0.587													11	103					0	0	0.010729	0	0		A	104184490	A	A	104184490	3	1	1	1	0	0	0	0	1	0	0	0	4056	1059	37	1	757	1	CUEDC2	10	104184490	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1389170	104184490	31350257	754	754											
PDCD11	22984	broad.mit.edu	37	chr10	105177579	105177579	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgtcgtattgaactgtgagCcatccaaagagaggatgctc	11	11	11	8	1	0	3	0	2	0	1	3	5	1	4	2	1	3	2	2	1	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:105177579C>T	uc001kwy.1	+	14	1888	c.1801C>T	c.(1801-1803)CCA>TCA	p.P601S		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	601	S1 motif 6.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		GAACTGTGAGCCATCCAAAGA	0.522													18	165					0	0	0.007413	0	0		T	105177579	T	T	105177579	3	4	1	1	0	0	0	0	1	0	0	0	11636	739	26	2	1851	2	PDCD11	10	105177579	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	993089	105177579	30357168	755	755											
SORCS3	22986	broad.mit.edu	37	chr10	106976777	106976777	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttcagccccatcgaggaCggcatcaagcacgtgtataa	13	7	9	12	3	2	0	2	0	0	0	3	2	2	1	2	2	3	3	2	2	4	3	rs143982937	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:106976777C>T	uc001kyi.1	+	19	2858	c.2631C>T	c.(2629-2631)GAC>GAT	p.D877D	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	877	PKD.|Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		CCATCGAGGACGGCATCAAGC	0.527													18	78					0	0	0.006122	0	0		T	106976777	T	T	106976777	2	4	1	1	0	0	0	0	0	0	0	1	14957	535	19	1		1	SORCS3	10	106976777	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1799198	106976777	28557970	756	756											
PDCD4	27250	broad.mit.edu	37	chr10	112647631	112647631	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaattagcactggatactcCtagagcaccacaggtttgta	12	11	9	9	0	0	2	0	1	0	1	1	3	1	3	2	2	3	4	2	2	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:112647631C>A	uc001kzh.2	+	6	1007	c.764C>A	c.(763-765)CCT>CAT	p.P255H	PDCD4_uc001kzg.2_Missense_Mutation_p.P244H|PDCD4_uc010qre.1_Missense_Mutation_p.P241H	NM_014456	NP_055271	Q53EL6	PDCD4_HUMAN	programmed cell death 4 isoform 1	255	MI 1.			P->A: Reduced inhibition of EIF4A1 helicase activity. Strongly reduced inhibition of translation.	apoptosis|cell aging|negative regulation of cell cycle|negative regulation of JUN kinase activity|negative regulation of transcription, DNA-dependent	cytosol|nucleus	protein binding|RNA binding			ovary(1)|breast(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.000526)|all cancers(201;0.00794)|BRCA - Breast invasive adenocarcinoma(275;0.125)		CTGGATACTCCTAGAGCACCA	0.358													5	146					5.9392e-07	6.45313e-07	0.001168	1	0		A	112647631	A	A	112647631	3	1	1	1	0	0	0	0	1	0	0	0	11640	681	24	5	796	5	PDCD4	10	112647631	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5670854	112647631	22887116	757	757											
BAG3	9531	broad.mit.edu	37	chr10	121436448	121436448	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagagtatttgaccaaagAgctgctggccctggattcag	11	9	12	9	1	1	3	1	1	0	2	1	5	1	4	2	2	2	3	2	2	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:121436448A>T	uc001lem.2	+	4	1688	c.1382A>T	c.(1381-1383)GAG>GTG	p.E461V	BAG3_uc001lel.2_Missense_Mutation_p.E460V	NM_004281	NP_004272	O95817	BAG3_HUMAN	BCL2-associated athanogene 3	461	BAG.				anti-apoptosis|apoptosis|protein folding	cytosol				ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)		TTGACCAAAGAGCTGCTGGCC	0.522													7	55					0	0	0.001984	0	0		T	121436448	T	T	121436448	3	4	1	1	0	0	0	0	1	0	0	0	1289	304	11	5	1396	5	BAG3	10	121436448	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	8788817	121436448	14098299	758	758											
INPP5F	22876	broad.mit.edu	37	chr10	121541188	121541188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taattcggcagaaagcattgGtgggcaaactcccaggagac	13	7	12	9	1	0	2	0	0	0	2	2	3	1	2	1	4	2	3	1	4	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:121541188G>A	uc001leo.2	+	3	386	c.220G>A	c.(220-222)GTG>ATG	p.V74M	INPP5F_uc001len.3_Missense_Mutation_p.V74M	NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	74							phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		GAAAGCATTGGTGGGCAAACT	0.443													16	88					0	0	0.003163	0	0		A	121541188	A	A	121541188	3	1	1	1	0	0	0	0	1	0	0	0	7774	1261	44	4	230	4	INPP5F	10	121541188	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	104740	121541188	13993559	759	759											
C10orf88	80007	broad.mit.edu	37	chr10	124691943	124691943	+	Nonstop_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acactgtttatgttgagagcTtatctttctccatttgaaag	10	17	7	7	0	2	2	0	2	2	1	3	3	2	2	1	0	1	3	1	0	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:124691943T>G	uc001lgw.2	-	6	1563	c.1338A>C	c.(1336-1338)TAA>TAC	p.*446Y	C10orf88_uc001lgx.2_Nonstop_Mutation_p.*348Y	NM_024942	NP_079218	Q9H8K7	CJ088_HUMAN	hypothetical protein LOC80007	446											0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)		TGTTGAGAGCTTATCTTTCTC	0.343													16	89					0	0	0.003163	0	0		G	124691943	G	G	124691943	4	3	1	1	0	0	0	0	0	0	0	0	1625	1616	56	5	3	5	C10orf88	10	124691943	Nonstop_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3150755	124691943	10842804	760	760											
PSTK	118672	broad.mit.edu	37	chr10	124746960	124746960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacacatcaagtgcagaagcGcaaaggttggctggttgcag	13	7	13	8	1	1	1	1	0	0	1	1	1	1	1	0	3	4	6	0	3	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:124746960G>A	uc001lgy.1	+	6	1428	c.988G>A	c.(988-990)GCA>ACA	p.A330T		NM_153336	NP_699167	Q8IV42	PSTK_HUMAN	phosphoseryl-tRNA kinase	330							ATP binding|kinase activity			liver(1)	1		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0725)		gtgcagaagcgcaaaggttgg	0.01													12	117					0	0	0.00245	0	0		A	124746960	A	A	124746960	3	1	1	1	0	0	0	0	1	0	0	0	12742	1087	38	1	1010	1	PSTK	10	124746960	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	55017	124746960	10787787	761	761											
HMX3	340784	broad.mit.edu	37	chr10	124897036	124897036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaagcggcagctggcggCggagctggaggcggccaacc	7	3	20	11	4	0	0	0	0	0	0	0	3	0	3	2	8	4	3	2	8	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:124897036C>T	uc010quc.1	+	2	863	c.863C>T	c.(862-864)GCG>GTG	p.A288V		NM_001105574	NP_001099044	A6NHT5	HMX3_HUMAN	H6 family homeobox 3	288					cell differentiation	nucleus	sequence-specific DNA binding transcription factor activity				0		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.122)|COAD - Colon adenocarcinoma(40;0.141)		CAGCTGGCGGCGGAGCTGGAG	0.607													3	10					0	0	0.004672	0	0		T	124897036	T	T	124897036	3	4	1	1	0	0	0	0	1	0	0	0	7264	768	27	1	869	1	HMX3	10	124897036	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	150076	124897036	10637711	762	762											
CHST15	51363	broad.mit.edu	37	chr10	125804216	125804216	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggctgccctatgatgtagaAgtgcggcaggcagcgcaggc	8	6	17	10	2	0	2	0	1	0	1	0	2	0	2	1	4	3	5	1	4	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:125804216A>G	uc001lhl.2	-	2	1279	c.766T>C	c.(766-768)TTC>CTC	p.F256L	CHST15_uc001lhm.2_Missense_Mutation_p.F256L|CHST15_uc001lhn.2_Missense_Mutation_p.F256L|CHST15_uc010que.1_Missense_Mutation_p.F256L|CHST15_uc001lho.2_Missense_Mutation_p.F256L	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	256	Lumenal (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1						ATGATGTAGAAGTGCGGCAGG	0.657													5	25					0	0	0.000602	0	0		G	125804216	G	G	125804216	3	3	1	1	0	0	0	0	1	0	0	0	3406	72	3	3	943	3	CHST15	10	125804216	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	907180	125804216	9730531	763	763											
LHPP	64077	broad.mit.edu	37	chr10	126205813	126205813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcggtgtggaatgagagCgctgcaggtgcgcaccggga	8	5	18	10	4	0	1	0	1	0	1	0	4	0	3	2	4	4	3	2	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:126205813C>T	uc001lhs.1	+	6	709	c.689C>T	c.(688-690)GCG>GTG	p.A230V	LHPP_uc001lht.1_Intron|LHPP_uc009yai.1_Intron	NM_022126	NP_071409	Q9H008	LHPP_HUMAN	phospholysine phosphohistidine inorganic	230					protein dephosphorylation	cytosol|nucleus	inorganic diphosphatase activity|magnesium ion binding|phosphohistidine phosphatase activity|protein homodimerization activity				0		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.163)|Colorectal(40;0.187)		GGAATGAGAGCGCTGCAGGTG	0.552													3	12					0	0	0.004672	0	0		T	126205813	T	T	126205813	3	4	1	1	0	0	0	0	1	0	0	0	8785	768	27	1	711	1	LHPP	10	126205813	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	401597	126205813	9328934	764	764											
ADAM12	8038	broad.mit.edu	37	chr10	127734632	127734632	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctactcacccctctgcCgtggcactgcattgcacact	7	9	7	18	1	2	0	1	0	1	0	2	0	2	0	4	1	5	3	4	1	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:127734632C>A	uc001ljk.2	-	17	2409	c.1996G>T	c.(1996-1998)GGC>TGC	p.G666C	ADAM12_uc010qul.1_Missense_Mutation_p.G617C|ADAM12_uc001ljm.2_Missense_Mutation_p.G666C|ADAM12_uc001ljn.2_Missense_Mutation_p.G663C|ADAM12_uc001ljl.3_Missense_Mutation_p.G663C	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	666	Extracellular (Potential).|EGF-like.				cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		ACCCCTCTGCCGTGGCACTGC	0.433													18	117					6.49762e-13	7.33673e-13	0.006122	1	0		A	127734632	A	A	127734632	3	1	1	1	0	0	0	0	1	0	0	0	236	652	23	5	869	5	ADAM12	10	127734632	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1528819	127734632	7800115	765	765											
FAM196A	642938	broad.mit.edu	37	chr10	128974248	128974248	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagaaacccattgttttggcTtttaaagggatctgcagctg	10	14	10	7	0	1	1	0	0	1	1	1	2	1	2	1	2	3	4	1	2	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:128974248T>C	uc001lju.1	-	1	453	c.412A>G	c.(412-414)AGC>GGC	p.S138G	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.S138G|FAM196A_uc001ljv.1_Missense_Mutation_p.S138G|FAM196A_uc009yap.1_Missense_Mutation_p.S138G	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	138										ovary(2)	2						TTGTTTTGGCTTTTAAAGGGA	0.567													4	112					0	0	0.009096	0	0		C	128974248	C	C	128974248	3	2	1	1	0	0	0	0	1	0	0	0	5539	1609	56	3	1039	3	FAM196A	10	128974248	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1239616	128974248	6560499	766	766											
KNDC1	85442	broad.mit.edu	37	chr10	135020704	135020704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagtgatcgtgaacatcgcgGccgcaccctgcgacacgctg	8	6	12	15	6	0	2	0	2	0	0	2	3	0	2	2	1	2	2	2	1	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr10:135020704G>A	uc001llz.1	+	20	3644	c.3643G>A	c.(3643-3645)GCC>ACC	p.A1215T	KNDC1_uc001lma.1_3'UTR	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1215					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		GAACATCGCGGCCGCACCCTG	0.677													6	19					0	0	0.001168	0	0		A	135020704	A	A	135020704	3	1	1	1	0	0	0	0	1	0	0	0	8442	1203	42	2	3721	2	KNDC1	10	135020704	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	6046456	135020704	514043	767	767											
ANO9	338440	broad.mit.edu	37	chr11	420541	420541	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccaggcggatctccacgaGgttgctgaagagcgcgagca	9	6	15	11	4	1	2	0	1	1	1	3	5	2	3	2	3	3	3	2	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:420541G>T	uc001lpi.2	-	19	1793	c.1708C>A	c.(1708-1710)CTC>ATC	p.L570I	ANO9_uc001lph.2_Missense_Mutation_p.L263I|ANO9_uc010qvv.1_Missense_Mutation_p.L426I	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	570	Helical; (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						ATCTCCACGAGGTTGCTGAAG	0.682													6	15					3.59834e-05	3.83241e-05	0.001168	1	0		T	420541	T	T	420541	3	4	1	1	0	0	0	0	1	0	0	0	704	1000	35	5	660	5	ANO9	11	420541	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08		420541	134585975	768	768											
ANO9	338440	broad.mit.edu	37	chr11	428382	428382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacaaagcttcagggccaCgcacctgttgatctgcggag	9	8	12	12	2	3	1	2	1	1	0	3	2	3	2	2	2	2	3	2	2	1	2	rs139493381	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:428382C>T	uc001lpi.2	-	14	1283	c.1198G>A	c.(1198-1200)GTG>ATG	p.V400M	ANO9_uc001lph.2_Missense_Mutation_p.V93M|ANO9_uc010qvv.1_Missense_Mutation_p.V256M	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	400	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						TTCAGGGCCACGCACCTGTTG	0.687													6	53					0	0	0.001168	0	0		T	428382	T	T	428382	3	4	1	1	0	0	0	0	1	0	0	0	704	536	19	1	1190	1	ANO9	11	428382	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	7841	428382	134578134	769	769											
ANO9	338440	broad.mit.edu	37	chr11	428757	428757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgaggatgacggtgctgcGtaggtaggagtgctggtatg	8	9	19	5	3	0	1	0	1	0	0	0	5	0	3	0	5	3	5	0	5	3	3	rs140961109	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:428757G>A	uc001lpi.2	-	12	1070	c.985C>T	c.(985-987)CGC>TGC	p.R329C	ANO9_uc001lph.2_Missense_Mutation_p.R22C|ANO9_uc010qvv.1_Missense_Mutation_p.R185C	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	329	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						ACGGTGCTGCGTAGGTAGGAG	0.652													4	49					0	0	0.001168	0	0		A	428757	A	A	428757	3	1	1	1	0	0	0	0	1	0	0	0	704	1145	40	1	1411	1	ANO9	11	428757	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	375	428757	134577759	770	770											
MUC6	4588	broad.mit.edu	37	chr11	1025196	1025196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtacctgggaggcacgggCgatcctgatgaggatggtca	8	7	17	9	3	1	2	1	2	0	0	2	5	2	4	2	6	1	2	2	6	1	1	rs146061704	by1000genomes	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:1025196C>T	uc001lsw.2	-	23	3022	c.2971G>A	c.(2971-2973)GCC>ACC	p.A991T		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	991	VWFD 3.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GAGGCACGGGCGATCCTGATG	0.667													18	154					0	0	0.010504	0	0		T	1025196	T	T	1025196	3	4	1	1	0	0	0	0	1	0	0	0	9998	768	27	1	4392	1	MUC6	11	1025196	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	596439	1025196	133981320	771	771											
MUC5B	727897	broad.mit.edu	37	chr11	1261544	1261544	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaggctgtggcatgtccTggaactccagccacaacgcc	10	6	12	13	1	0	0	0	0	0	0	2	2	2	2	4	4	3	2	4	4	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:1261544T>G	uc009ycr.1	+	46	6114	c.5988T>G	c.(5986-5988)CCT>CCG	p.P1996P	MUC5B_uc001ltb.2_Silent_p.P1306P|MUC5B_uc001lta.2_Silent_p.P971P	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1303					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		TGGCATGTCCTGGAACTCCAG	0.607													3	28					0	0	0.004672	0	0		G	1261544	G	G	1261544	2	3	1	1	0	0	0	0	0	0	0	1	9997	1567	55	5		5	MUC5B	11	1261544	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	236348	1261544	133744972	772	772											
INS-IGF2	723961	broad.mit.edu	37	chr11	2170469	2170469	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctggacgatgatccgccGgcctggccaatattagcagt	8	9	12	12	3	0	1	0	1	0	0	1	3	1	2	5	3	2	1	5	3	3	2	rs78341923	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:2170469G>A	uc001lvm.2	-	3	353	c.294C>T	c.(292-294)GCC>GCT	p.A98A	IGF2_uc001lvh.2_5'UTR|INS-IGF2_uc001lvi.2_RNA	NM_001042376	NP_001035835	Q1WM24	Q1WM24_HUMAN	insulin- insulin-like growth factor 2	98					glucose metabolic process	extracellular region	hormone activity				0		all_epithelial(84;0.00018)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)|all_lung(207;0.24)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;0.00256)|LUSC - Lung squamous cell carcinoma(625;0.0832)|Lung(200;0.156)		ATGATCCGCCGGCCTGGCCAA	0.632													17	92					0	0	0.004656	0	0		A	2170469	A	A	2170469	2	1	1	1	0	0	0	0	0	0	0	1	7779	1103	39	1		1	INS-IGF2	11	2170469	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	908925	2170469	132836047	773	773											
INS-IGF2	723961	broad.mit.edu	37	chr11	2170496	2170496	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatattagcagtcaccacCaaagcagggggtgccctggc	11	6	11	13	0	1	0	1	0	0	0	1	0	1	0	4	3	3	2	4	3	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:2170496C>T	uc001lvm.2	-	3	326	c.267G>A	c.(265-267)TTG>TTA	p.L89L	IGF2_uc001lvh.2_5'UTR|INS-IGF2_uc001lvi.2_RNA	NM_001042376	NP_001035835	Q1WM24	Q1WM24_HUMAN	insulin- insulin-like growth factor 2	89					glucose metabolic process	extracellular region	hormone activity				0		all_epithelial(84;0.00018)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)|all_lung(207;0.24)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;0.00256)|LUSC - Lung squamous cell carcinoma(625;0.0832)|Lung(200;0.156)		CAGTCACCACCAAAGCAGGGG	0.607													18	129					0	0	0.010504	0	0		T	2170496	T	T	2170496	2	4	1	1	0	0	0	0	0	0	0	1	7779	593	21	4		4	INS-IGF2	11	2170496	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	27	2170496	132836020	774	774											
CARS	833	broad.mit.edu	37	chr11	3028185	3028185	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgagctgcagaatctcAgggactgtaggagaagcaga	12	7	14	8	1	1	4	1	1	1	3	3	6	1	5	0	2	3	5	0	2	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:3028185A>G	uc001lxh.2	-	18	1898	c.1824T>C	c.(1822-1824)CCT>CCC	p.P608P	CARS_uc009ydu.2_RNA|CARS_uc001lxe.2_Silent_p.P598P|CARS_uc001lxf.2_Silent_p.P691P|CARS_uc001lxg.2_Silent_p.P608P|CARS_uc010qxo.1_Silent_p.P691P|CARS_uc010qxp.1_Silent_p.P621P	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	608					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	GCAGAATCTCAGGGACTGTAG	0.622			T	ALK	ALCL								30	213					0	0	0.009535	0	0		G	3028185	G	G	3028185	2	3	1	1	0	0	0	0	0	0	0	1	2660	175	7	3		3	CARS	11	3028185	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	857689	3028185	131978331	775	775											
MRGPRE	116534	broad.mit.edu	37	chr11	3249900	3249900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgagcagccagaggactgCcccattccccagcagcccac	9	4	10	18	0	0	2	0	1	0	1	1	3	1	3	6	1	5	3	6	1	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:3249900C>T	uc001lxq.3	-	2	437	c.127G>A	c.(127-129)GCA>ACA	p.A43T		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	43	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		Medulloblastoma(188;0.00106)|all_epithelial(84;0.00111)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00529)|LUSC - Lung squamous cell carcinoma(625;0.19)		CAGAGGACTGCCCCATTCCCC	0.642													13	84					0	0	0.00245	0	0		T	3249900	T	T	3249900	3	4	1	1	0	0	0	0	1	0	0	0	9782	739	26	2	812	2	MRGPRE	11	3249900	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	221715	3249900	131756616	776	776											
PGAP2	27315	broad.mit.edu	37	chr11	3846621	3846621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatggcgttccacatgaCggcctggtgggacttcggga	8	8	14	11	3	0	1	0	1	0	0	2	3	1	3	2	5	1	1	2	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:3846621C>T	uc001lys.2	+	7	1007	c.881C>T	c.(880-882)ACG>ATG	p.T294M	PGAP2_uc001lyl.2_Missense_Mutation_p.T251M|PGAP2_uc010qxw.1_Missense_Mutation_p.T351M|PGAP2_uc010qxx.1_3'UTR|PGAP2_uc001lyp.3_3'UTR|PGAP2_uc010qxy.1_Missense_Mutation_p.T286M|PGAP2_uc010qxz.1_Missense_Mutation_p.T290M|PGAP2_uc001lyn.3_3'UTR|PGAP2_uc010qya.1_RNA|PGAP2_uc001lyr.2_3'UTR|PGAP2_uc010qyb.1_3'UTR|PGAP2_uc001lyt.2_Missense_Mutation_p.T77M	NM_014489	NP_055304	Q9UHJ9	PGAP2_HUMAN	FGF receptor activating protein 1 isoform 1	294					GPI anchor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein transporter activity				0						TTCCACATGACGGCCTGGTGG	0.527											OREG0020703	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	50					0	0	0.00308	0	0		T	3846621	T	T	3846621	3	4	1	1	0	0	0	0	1	0	0	0	11797	536	19	1	1082	1	PGAP2	11	3846621	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	596721	3846621	131159895	777	777											
OR51F1	256892	broad.mit.edu	37	chr11	4790663	4790663	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagaggcttaaggagcaaaAgtagtggcaatattagtact	16	9	12	4	0	0	1	0	0	0	1	0	3	0	2	0	3	2	5	0	3	8	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:4790663A>C	uc010qyl.1	-	1	485	c.485T>G	c.(484-486)CTT>CGT	p.L162R		NM_001004752	NP_001004752	A6NLW9	A6NLW9_HUMAN	olfactory receptor, family 51, subfamily F,	162						integral to membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.87e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0045)|LUSC - Lung squamous cell carcinoma(625;0.192)		AAGGAGCAAAAGTAGTGGCAA	0.398													24	138					0	0	0.002299	0	0		C	4790663	C	C	4790663	3	2	1	1	0	0	0	0	1	0	0	0	11115	72	3	5	456	5	OR51F1	11	4790663	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	944042	4790663	130215853	778	778											
OR52R1	119695	broad.mit.edu	37	chr11	4824880	4824880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacacagatatgggaggaaCgtgtgctaaaagctttgagg	13	9	14	5	1	0	3	0	2	0	1	0	5	0	5	0	3	3	2	0	3	4	3	rs150778227		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:4824880C>T	uc010qym.1	-	1	968	c.968G>A	c.(967-969)CGT>CAT	p.R323H		NM_001005177	NP_001005177	Q8NGF1	O52R1_HUMAN	olfactory receptor, family 52, subfamily R,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0184)|all_neural(188;0.0227)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATGGGAGGAACGTGTGCTAAA	0.473													4	105					0	0	0.009096	0	0		T	4824880	T	T	4824880	3	4	1	1	0	0	0	0	1	0	0	0	11150	536	19	1	219	1	OR52R1	11	4824880	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	34217	4824880	130181636	779	779											
OR51T1	401665	broad.mit.edu	37	chr11	4903923	4903923	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctctctttggcacaccGcctcttccactccaccccaa	7	9	4	21	1	2	0	0	0	2	0	5	0	4	0	7	1	1	1	7	1	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:4903923G>A	uc010qyp.1	+	1	875	c.875G>A	c.(874-876)CGC>CAC	p.R292H		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTGGCACACCGCCTCTTCCAC	0.488													7	121					0	0	0.00308	0	0		A	4903923	A	A	4903923	3	1	1	1	0	0	0	0	1	0	0	0	11125	1087	38	1	877	1	OR51T1	11	4903923	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	79043	4903923	130102593	780	780											
OR51V1	283111	broad.mit.edu	37	chr11	5221797	5221797	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aattgcccaaaagcaccatgGcatagattgaggagaagggg	15	6	13	7	0	0	3	0	1	0	2	0	4	0	3	2	4	2	2	2	4	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:5221797G>C	uc010qyz.1	-	1	134	c.134C>G	c.(133-135)GCC>GGC	p.A45G		NM_001004760	NP_001004760	Q9H2C8	O51V1_HUMAN	olfactory receptor, family 51, subfamily V,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.83e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAGCACCATGGCATAGATTGA	0.507													4	113					0	0	0.009096	0	0		C	5221797	C	C	5221797	3	2	1	1	0	0	0	0	1	0	0	0	11126	1203	42	5	834	5	OR51V1	11	5221797	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	317874	5221797	129784719	781	781											
OR51M1	390059	broad.mit.edu	37	chr11	5410819	5410819	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgatcattattaagaccaAccctcgtctgcacacaccca	12	10	4	15	1	3	2	1	1	2	1	4	2	3	2	3	0	2	1	3	0	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:5410819A>C	uc010qzc.1	+	1	191	c.191A>C	c.(190-192)AAC>ACC	p.N64T	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004756	NP_001004756	B2RNI9	B2RNI9_HUMAN	olfactory receptor, family 51, subfamily M,	64						integral to membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.98e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATTAAGACCAACCCTCGTCTG	0.473													11	237					0	0	0.001368	0	0		C	5410819	C	C	5410819	3	2	1	1	0	0	0	0	1	0	0	0	11122	43	2	5	193	5	OR51M1	11	5410819	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	189022	5410819	129595697	782	782											
UBQLNL	143630	broad.mit.edu	37	chr11	5537570	5537570	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggttgcctgcagtcttcacTatcactcgagtggcacttga	7	13	10	11	1	3	1	2	1	1	0	4	2	3	1	1	2	2	3	1	2	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:5537570T>C	uc001maz.3	-	1	387	c.102A>G	c.(100-102)ATA>ATG	p.I34M	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	34	Ubiquitin-like.									large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		CAGTCTTCACTATCACTCGAG	0.488													27	179					0	0	0.004656	0	0		C	5537570	C	C	5537570	3	2	1	1	0	0	0	0	1	0	0	0	16926	1512	53	3	1329	3	UBQLNL	11	5537570	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	126751	5537570	129468946	783	783											
OR52N5	390075	broad.mit.edu	37	chr11	5798944	5798944	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgacactcttgcgtatctgTtttgtctttactccataaac	9	17	5	10	1	3	1	0	1	3	0	4	1	4	1	1	0	3	2	1	0	4	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:5798944T>G	uc010qzn.1	-	1	921	c.921A>C	c.(919-921)AAA>AAC	p.K307N	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001922	NP_001001922	Q8NH56	O52N5_HUMAN	olfactory receptor, family 52, subfamily N,	307	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.05e-11)|LUSC - Lung squamous cell carcinoma(625;0.112)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.195)		TGCGTATCTGTTTTGTCTTTA	0.388													44	136					0	0	0.010771	0	0		G	5798944	G	G	5798944	3	3	1	1	0	0	0	0	1	0	0	0	11149	1722	60	5	57	5	OR52N5	11	5798944	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	261374	5798944	129207572	784	784											
OR52N5	390075	broad.mit.edu	37	chr11	5799070	5799070	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgggcaaagaaagtgaaGaatgctggaacataggtgat	15	7	15	4	1	0	4	0	2	0	2	0	5	0	5	0	4	2	2	0	4	6	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:5799070G>T	uc010qzn.1	-	1	795	c.795C>A	c.(793-795)TTC>TTA	p.F265L	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001922	NP_001001922	Q8NH56	O52N5_HUMAN	olfactory receptor, family 52, subfamily N,	265	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.05e-11)|LUSC - Lung squamous cell carcinoma(625;0.112)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.195)		AGAAAGTGAAGAATGCTGGAA	0.483													12	88					0.000151284	0.0001597	0.001855	1	0		T	5799070	T	T	5799070	3	4	1	1	0	0	0	0	1	0	0	0	11149	933	33	5	183	5	OR52N5	11	5799070	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	126	5799070	129207446	785	785											
CNGA4	1262	broad.mit.edu	37	chr11	6261352	6261352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaggatctcgagtcgctacGttcgcacctggagtttcttc	6	13	11	11	4	2	0	0	0	2	0	6	3	2	2	1	2	1	5	1	2	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:6261352G>A	uc001mco.2	+	4	435	c.328G>A	c.(328-330)GTT>ATT	p.V110I	CNGA4_uc010raa.1_Intron|CNGA4_uc001mcn.2_Missense_Mutation_p.V70I	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	110	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAGTCGCTACGTTCGCACCTG	0.607													25	172					0	0	0.00632	0	0		A	6261352	A	A	6261352	3	1	1	1	0	0	0	0	1	0	0	0	3602	1145	40	1	342	1	CNGA4	11	6261352	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	462282	6261352	128745164	786	786											
TAF10	6881	broad.mit.edu	37	chr11	6632238	6632238	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatggttagagtgtacttgCggtcctgagggaagagggaa	10	9	16	6	1	0	3	0	1	0	2	1	5	1	5	2	4	2	2	2	4	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:6632238C>T	uc001mej.1	-	5	597	c.572G>A	c.(571-573)CGC>CAC	p.R191H		NM_006284	NP_006275	Q12962	TAF10_HUMAN	TBP-related factor 10	191					histone deubiquitination|histone H3 acetylation|protein homooligomerization|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	PCAF complex|perinuclear region of cytoplasm|STAGA complex|transcription factor TFIID complex|transcription factor TFTC complex	estrogen receptor binding|RNA polymerase binding|transcription coactivator activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.0481)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.129)		AGTGTACTTGCGGTCCTGAGG	0.313													12	85					0	0	0.010729	0	0		T	6632238	T	T	6632238	3	4	1	1	0	0	0	0	1	0	0	0	15539	768	27	1	88	1	TAF10	11	6632238	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	370886	6632238	128374278	787	787											
DCHS1	8642	broad.mit.edu	37	chr11	6650800	6650800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccataagtcacttgccCgttggcccctgaggaggggc	6	8	13	14	1	1	1	1	1	0	0	2	2	2	2	5	4	1	1	5	4	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:6650800C>T	uc001mem.1	-	12	5454	c.5044G>A	c.(5044-5046)GGG>AGG	p.G1682R		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1682	Cadherin 16.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTCACTTGCCCGTTGGCCCCT	0.557													3	26					0	0	0.009096	0	0		T	6650800	T	T	6650800	3	4	1	1	0	0	0	0	1	0	0	0	4290	652	23	1	4892	1	DCHS1	11	6650800	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	18562	6650800	128355716	788	788											
OR2AG1	144125	broad.mit.edu	37	chr11	6807156	6807156	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacagcctgaggaataaggaGgtcatgcgggccttgaggag	11	7	16	7	1	1	2	1	2	0	0	1	5	1	5	2	5	3	0	2	5	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:6807156G>A	uc001mer.1	+	1	888	c.888G>A	c.(886-888)GAG>GAA	p.E296E		NM_001004489	NP_001004489	Q9H205	O2AG1_HUMAN	olfactory receptor, family 2, subfamily AG,	296	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.19e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GGAATAAGGAGGTCATGCGGG	0.507													12	114					0	0	0.008871	0	0		A	6807156	A	A	6807156	2	1	1	1	0	0	0	0	0	0	0	1	11003	991	35	4		4	OR2AG1	11	6807156	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	156356	6807156	128199360	789	789											
OR10A5	144124	broad.mit.edu	37	chr11	6866973	6866973	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatgagcttctcttccctAcctactgaaatacagtcatt	10	14	4	13	0	3	2	2	2	1	0	5	2	4	2	2	0	4	1	2	0	4	6	rs141353777		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:6866973A>G	uc001met.1	+	1	60	c.60A>G	c.(58-60)CTA>CTG	p.L20L		NM_178168	NP_835462	Q9H207	O10A5_HUMAN	olfactory receptor, family 10, subfamily A,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TCTCTTCCCTACCTACTGAAA	0.428													14	519					0	0	0.008871	0	0		G	6866973	G	G	6866973	2	3	1	1	0	0	0	0	0	0	0	1	10912	378	14	3		3	OR10A5	11	6866973	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	59817	6866973	128139543	790	790											
OR2D3	120775	broad.mit.edu	37	chr11	6942342	6942342	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggtctttcacaggactTgcagacccagatcctgctat	8	11	9	13	0	2	2	1	0	1	2	3	3	3	3	3	2	2	2	3	2	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:6942342T>C	uc010rav.1	+	1	110	c.110T>C	c.(109-111)TTG>TCG	p.L37S		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	37	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TCACAGGACTTGCAGACCCAG	0.423													22	176					0	0	0.00278	0	0		C	6942342	C	C	6942342	3	2	1	1	0	0	0	0	1	0	0	0	11014	1821	63	3	112	3	OR2D3	11	6942342	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	75369	6942342	128064174	791	791											
CYB5R2	51700	broad.mit.edu	37	chr11	7690880	7690880	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataattaggtccacaaagccTctgtcatcatcactggagac	13	10	7	11	0	4	1	3	0	1	1	5	2	5	1	2	2	1	0	2	2	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:7690880T>C	uc001mfm.2	-	4	472	c.234A>G	c.(232-234)AGA>AGG	p.R78R	CYB5R2_uc001mfn.2_RNA|CYB5R2_uc009yfk.2_Silent_p.R78R|CYB5R2_uc009yfl.1_Silent_p.R78R	NM_016229	NP_057313	Q6BCY4	NB5R2_HUMAN	cytochrome b5 reductase b5R.2	78	FAD-binding FR-type.				sterol biosynthetic process	membrane|soluble fraction	cytochrome-b5 reductase activity				0				Epithelial(150;5.48e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CCACAAAGCCTCTGTCATCAT	0.483													12	93					0	0	0.010729	0	0		C	7690880	C	C	7690880	2	2	1	1	0	0	0	0	0	0	0	1	4130	1548	54	3		3	CYB5R2	11	7690880	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	748538	7690880	127315636	792	792											
SCUBE2	57758	broad.mit.edu	37	chr11	9090944	9090944	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctctctggttcttggccaGctcaaaaccaggcctgcact	7	11	9	14	0	4	0	1	0	3	0	5	0	4	0	3	3	3	3	3	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:9090944G>A	uc001mhh.1	-	5	696	c.616C>T	c.(616-618)CTG>TTG	p.L206L	SCUBE2_uc001mhi.1_Silent_p.L206L|SCUBE2_uc001mhj.1_Silent_p.L206L	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	206	EGF-like 4 (Potential).					extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		TTCTTGGCCAGCTCAAAACCA	0.582													5	101					0	0	0.000602	0	0		A	9090944	A	A	9090944	2	1	1	1	0	0	0	0	0	0	0	1	13970	962	34	2		2	SCUBE2	11	9090944	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1400064	9090944	125915572	793	793											
AMPD3	272	broad.mit.edu	37	chr11	10500212	10500212	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagccacttccctgcccAcgccagcaccctatgccatg	7	7	8	19	1	0	0	0	0	0	0	1	1	1	1	6	1	4	1	6	1	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:10500212A>C	uc001mio.1	+	3	696	c.361A>C	c.(361-363)ACG>CCG	p.T121P	AMPD3_uc010rbz.1_Intron|AMPD3_uc001min.1_Missense_Mutation_p.T130P|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfx.1_Missense_Mutation_p.T121P|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.T128P|AMPD3_uc009yfy.2_Missense_Mutation_p.T121P	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	121					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		TTCCCTGCCCACGCCAGCACC	0.617													9	118					0	0	0.008871	0	0		C	10500212	C	C	10500212	3	2	1	1	0	0	0	0	1	0	0	0	587	159	6	5	418	5	AMPD3	11	10500212	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1409268	10500212	124506304	794	794											
ABCC8	6833	broad.mit.edu	37	chr11	17415246	17415246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaatgggccccttaccgCgatggtgaccacagtgcggt	8	8	12	13	3	1	1	1	1	0	0	1	2	1	1	4	3	2	0	4	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:17415246C>T	uc001mnc.2	-	38	4732	c.4606G>A	c.(4606-4608)GCG>ACG	p.A1536T		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1536	Cytoplasmic (By similarity).|ABC transporter 2.				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	CCCCTTACCGCGATGGTGACC	0.622													45	206					0	0	0.00361	0	0		T	17415246	T	T	17415246	3	4	1	1	0	0	0	0	1	0	0	0	58	768	27	1	147	1	ABCC8	11	17415246	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	6915034	17415246	117591270	795	795											
MRGPRX1	259249	broad.mit.edu	37	chr11	18955646	18955646	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgaatgccaaagggcaggCcacagaggaggaagaccagt	15	3	14	9	0	0	3	0	1	0	2	0	5	0	5	3	4	1	1	3	4	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:18955646C>G	uc001mpg.2	-	1	904	c.686G>C	c.(685-687)GGC>GCC	p.G229A		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	229	Helical; Name=6; (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						AAAGGGCAGGCCACAGAGGAG	0.488													6	115					0	0	0.001168	0	0		G	18955646	G	G	18955646	3	3	1	1	0	0	0	0	1	0	0	0	9784	739	26	5	286	5	MRGPRX1	11	18955646	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1540400	18955646	116050870	796	796											
MRGPRX1	259249	broad.mit.edu	37	chr11	18955974	18955974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacaggacggacaggcagcGctcggtgctcacggcactca	9	4	13	15	4	2	0	2	0	0	0	3	2	2	2	1	5	2	4	1	5	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:18955974G>A	uc001mpg.2	-	1	576	c.358C>T	c.(358-360)CGC>TGC	p.R120C		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	120	Cytoplasmic (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						GACAGGCAGCGCTCGGTGCTC	0.587													5	126					0	0	0.001168	0	0		A	18955974	A	A	18955974	3	1	1	1	0	0	0	0	1	0	0	0	9784	1087	38	1	614	1	MRGPRX1	11	18955974	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	328	18955974	116050542	797	797											
MRGPRX2	117194	broad.mit.edu	37	chr11	19077584	19077584	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcagcgctcggtgctgacGgtgctcagcatgctcaggcc	6	7	15	13	3	2	1	2	1	0	0	3	1	2	1	1	4	5	6	1	4	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:19077584G>A	uc001mph.2	-	2	454	c.366C>T	c.(364-366)ACC>ACT	p.T122T		NM_054030	NP_473371	Q96LB1	MRGX2_HUMAN	MAS-related GPR, member X2	122	Cytoplasmic (Potential).				sensory perception of pain|sleep	plasma membrane	G-protein coupled receptor activity|neuropeptide binding			ovary(1)	1						CGGTGCTGACGGTGCTCAGCA	0.597													20	61					0	0	0.007413	0	0		A	19077584	A	A	19077584	2	1	1	1	0	0	0	0	0	0	0	1	9785	1103	39	1		1	MRGPRX2	11	19077584	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	121610	19077584	115928932	798	798											
E2F8	79733	broad.mit.edu	37	chr11	19251862	19251862	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggaagggtgcagaattCtgagaactctcagctggtaa	11	10	13	7	0	2	2	1	1	2	2	3	4	2	3	0	3	3	3	0	3	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:19251862C>A	uc001mpm.2	-	9	1806	c.1284G>T	c.(1282-1284)CAG>CAT	p.Q428H	E2F8_uc009yhv.2_Intron|E2F8_uc001mpn.3_Missense_Mutation_p.Q428H	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	428					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						GTGCAGAATTCTGAGAACTCT	0.418													26	167					7.92952e-12	8.92338e-12	0.003954	1	0		A	19251862	A	A	19251862	3	1	1	1	0	0	0	0	1	0	0	0	4879	912	32	5	1339	5	E2F8	11	19251862	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	174278	19251862	115754654	799	799											
E2F8	79733	broad.mit.edu	37	chr11	19256576	19256576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaactctctaggacgttcaCgatatcgtaaatgcgtcgac	12	11	8	10	5	2	0	1	0	1	0	5	3	2	1	0	1	2	2	0	1	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:19256576C>T	uc001mpm.2	-	5	1003	c.481G>A	c.(481-483)GTG>ATG	p.V161M	E2F8_uc009yhv.2_RNA|E2F8_uc001mpn.3_Missense_Mutation_p.V161M	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	161	Potential.				cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						AGGACGTTCACGATATCGTAA	0.423													9	49					0	0	0.008291	0	0		T	19256576	T	T	19256576	3	4	1	1	0	0	0	0	1	0	0	0	4879	536	19	1	2158	1	E2F8	11	19256576	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4714	19256576	115749940	800	800											
HTATIP2	10553	broad.mit.edu	37	chr11	20398193	20398193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggcaaaagctggagggtGcaaacatttcaacttgctat	12	10	11	8	0	1	0	1	0	0	0	1	1	1	1	0	3	5	5	0	3	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:20398193G>A	uc009yia.1	+	4	437	c.371G>A	c.(370-372)TGC>TAC	p.C124Y	HTATIP2_uc009yib.1_Missense_Mutation_p.C124Y|HTATIP2_uc001mpx.2_Missense_Mutation_p.C158Y|HTATIP2_uc001mpz.2_Missense_Mutation_p.C124Y	NM_006410	NP_006401	Q9BUP3	HTAI2_HUMAN	HIV-1 Tat interactive protein 2, 30kDa isoform	124					angiogenesis|anti-apoptosis|apoptosis|cell differentiation|cellular amino acid metabolic process|induction of apoptosis|interspecies interaction between organisms|nuclear import|regulation of angiogenesis|regulation of transcription from RNA polymerase II promoter	cytoplasm|nuclear envelope	NAD binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor|protein binding|transcription coactivator activity				0						GCTGGAGGGTGCAAACATTTC	0.393													13	151					0	0	0.00245	0	0		A	20398193	A	A	20398193	3	1	1	1	0	0	0	0	1	0	0	0	7448	1319	46	2	586	2	HTATIP2	11	20398193	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1141617	20398193	114608323	801	801											
NELL1	4745	broad.mit.edu	37	chr11	20940864	20940864	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggatttacaagagcttttggCcaagatgactgcaaaagtag	14	10	11	6	0	0	3	0	1	0	2	0	4	0	4	1	2	3	3	1	2	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:20940864C>A	uc001mqe.2	+	7	896	c.743C>A	c.(742-744)GCC>GAC	p.A248D	NELL1_uc001mqf.2_Missense_Mutation_p.A248D|NELL1_uc009yid.2_Missense_Mutation_p.A276D|NELL1_uc010rdo.1_Missense_Mutation_p.A191D|NELL1_uc010rdp.1_Missense_Mutation_p.A8D	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	248					cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						GAGCTTTTGGCCAAGATGACT	0.318													10	104					0.00010058	0.000106242	0.001368	1	0		A	20940864	A	A	20940864	3	1	1	1	0	0	0	0	1	0	0	0	10352	739	26	5	769	5	NELL1	11	20940864	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	542671	20940864	114065652	802	802											
KIF18A	81930	broad.mit.edu	37	chr11	28104447	28104447	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgaaatcattaactttgcTtggtcattttcattagtgaa	11	19	6	5	0	3	2	3	2	0	0	3	2	3	2	0	1	2	1	0	1	4	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:28104447T>C	uc001msc.2	-	9	1400	c.1218A>G	c.(1216-1218)CAA>CAG	p.Q406Q		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	406	Potential.				blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						TTAACTTTGCTTGGTCATTTT	0.264													12	54					0	0	0.001855	0	0		C	28104447	C	C	28104447	2	2	1	1	0	0	0	0	0	0	0	1	8296	1606	56	3		3	KIF18A	11	28104447	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	7163583	28104447	106902069	803	803											
EIF3M	10480	broad.mit.edu	37	chr11	32615494	32615494	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctcgagttgatgcccacAggtaatgttaaacgttactc	11	11	10	9	2	0	1	0	1	0	0	2	2	0	1	1	2	3	5	1	2	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:32615494A>G	uc001mtu.2	+	6	659	c.616A>G	c.(616-618)AGG>GGG	p.R206G	EIF3M_uc010ref.1_Missense_Mutation_p.R74G	NM_006360	NP_006351	Q7L2H7	EIF3M_HUMAN	eukaryotic translation initiation factor 3,	206						eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)|breast(1)|skin(1)	3	Breast(20;0.109)					TGATGCCCACAGGTAATGTTA	0.403													10	125					0	0	0.008291	0	0		G	32615494	G	G	32615494	3	3	1	1	0	0	0	0	1	0	0	0	5031	202	7	3	638	3	EIF3M	11	32615494	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	4511047	32615494	102391022	804	804											
EIF3M	10480	broad.mit.edu	37	chr11	32616545	32616545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtcaagtttttggaaggcGagcttattcatgatgtaagt	11	14	11	5	1	2	1	2	1	0	0	2	3	2	2	0	2	1	3	0	2	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:32616545G>A	uc001mtu.2	+	7	746	c.703G>A	c.(703-705)GAG>AAG	p.E235K	EIF3M_uc010ref.1_Missense_Mutation_p.E103K	NM_006360	NP_006351	Q7L2H7	EIF3M_HUMAN	eukaryotic translation initiation factor 3,	235	PCI.					eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)|breast(1)|skin(1)	3	Breast(20;0.109)					TTTGGAAGGCGAGCTTATTCA	0.323													22	151					0	0	0.012319	0	0		A	32616545	A	A	32616545	3	1	1	1	0	0	0	0	1	0	0	0	5031	1059	37	1	729	1	EIF3M	11	32616545	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1051	32616545	102389971	805	805											
CSTF3	1479	broad.mit.edu	37	chr11	33163287	33163287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcgttcataagtcttccGtgctttgtctataggttgat	8	16	10	7	2	3	1	1	1	2	0	4	1	4	1	1	2	1	3	1	2	4	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:33163287G>A	uc001muh.2	-	3	317	c.151C>T	c.(151-153)CGG>TGG	p.R51W	CSTF3_uc001mui.2_Missense_Mutation_p.R51W|CSTF3_uc001muj.2_3'UTR	NM_001326	NP_001317	Q12996	CSTF3_HUMAN	cleavage stimulation factor subunit 3 isoform 1	51	HAT 1.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding				0						TAAGTCTTCCGTGCTTTGTCT	0.249													10	97					0	0	0.010729	0	0		A	33163287	A	A	33163287	3	1	1	1	0	0	0	0	1	0	0	0	3989	1144	40	1	2165	1	CSTF3	11	33163287	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	546742	33163287	101843229	806	806											
HSD17B12	51144	broad.mit.edu	37	chr11	43876298	43876298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acttcgtagctacaaaactgGctaaaatccggaagccaact	15	8	7	11	2	0	0	0	0	0	0	2	1	1	1	2	2	5	3	2	2	8	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:43876298G>A	uc001mxq.3	+	10	953	c.718G>A	c.(718-720)GCT>ACT	p.A240T		NM_016142	NP_057226	Q53GQ0	DHB12_HUMAN	hydroxysteroid (17-beta) dehydrogenase 12	240					long-chain fatty-acyl-CoA biosynthetic process|steroid biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	estradiol 17-beta-dehydrogenase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity				0						TACAAAACTGGCTAAAATCCG	0.468													27	173					0	0	0.004289	0	0		A	43876298	A	A	43876298	3	1	1	1	0	0	0	0	1	0	0	0	7397	1203	42	2	756	2	HSD17B12	11	43876298	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	10713011	43876298	91130218	807	807											
EXT2	2132	broad.mit.edu	37	chr11	44253919	44253919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggtctggcgggaatttcCtgaccggttggtgggttacc	5	13	15	8	2	1	1	0	1	1	0	2	2	2	2	3	6	1	2	3	6	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:44253919C>T	uc001mxz.2	+	11	2013	c.1679C>T	c.(1678-1680)CCT>CTT	p.P560L	EXT2_uc010rfo.1_Missense_Mutation_p.P588L|EXT2_uc001mxy.2_Missense_Mutation_p.P573L|EXT2_uc009ykt.2_Missense_Mutation_p.P570L|EXT2_uc001mya.2_Missense_Mutation_p.P593L	NM_207122	NP_997005	Q93063	EXT2_HUMAN	exostosin 2 isoform 2	560	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity			lung(2)|breast(2)|skin(1)	5						CGGGAATTTCCTGACCGGTTG	0.478			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses				13	82					0	0	0.00245	0	0		T	44253919	T	T	44253919	3	4	1	1	0	0	0	0	1	0	0	0	5332	681	24	4	1917	4	EXT2	11	44253919	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	377621	44253919	90752597	808	808											
PTPRJ	5795	broad.mit.edu	37	chr11	48158582	48158582	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatgtgtccaacattgatgTaagtaccaacaccacagcag	15	8	7	11	0	0	1	0	1	0	0	1	1	1	1	3	0	4	3	3	0	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:48158582T>C	uc001ngp.3	+	10	2256	c.1901T>C	c.(1900-1902)GTA>GCA	p.V634A	PTPRJ_uc010rhr.1_Missense_Mutation_p.V79A	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	634	Extracellular (Potential).|Fibronectin type-III 7.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						AACATTGATGTAAGTACCAAC	0.408													24	186					0	0	0.003954	0	0		C	48158582	C	C	48158582	3	2	1	1	0	0	0	0	1	0	0	0	12829	1638	57	3	1948	3	PTPRJ	11	48158582	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3904663	48158582	86847934	809	809											
OR4A15	81328	broad.mit.edu	37	chr11	55135841	55135841	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaagcctcttcatgaatTgatcaccatgaatcgtcgag	11	12	8	10	2	3	3	2	3	1	0	5	4	3	3	2	0	1	1	2	0	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:55135841T>C	uc010rif.1	+	1	482	c.482T>C	c.(481-483)TTG>TCG	p.L161S		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	161	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CTTCATGAATTGATCACCATG	0.418													55	383					0	0	0.00361	0	0		C	55135841	C	C	55135841	3	2	1	1	0	0	0	0	1	0	0	0	11059	1821	63	3	484	3	OR4A15	11	55135841	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	6977259	55135841	79870675	810	810											
OR4P4	81300	broad.mit.edu	37	chr11	55406750	55406750	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgttgtcaaatactccTgaaaagaaatcaacttttct	13	14	7	7	0	3	2	2	1	1	1	4	2	4	2	1	1	2	1	1	1	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:55406750T>C	uc010rij.1	+	1	917	c.917T>C	c.(916-918)CTG>CCG	p.L306P		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	306	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						CAAATACTCCTGAAAAGAAAT	0.398													12	93					0	0	0.010729	0	0		C	55406750	C	C	55406750	3	2	1	1	0	0	0	0	1	0	0	0	11099	1580	55	3	919	3	OR4P4	11	55406750	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	270909	55406750	79599766	811	811											
OR5D13	390142	broad.mit.edu	37	chr11	55541814	55541814	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaggaacaaagatatcaatAacatgtttgaaaaattagtt	19	13	6	3	0	1	2	1	1	0	1	1	3	1	3	0	1	2	2	0	1	9	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:55541814A>G	uc010ril.1	+	1	901	c.901A>G	c.(901-903)AAC>GAC	p.N301D		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				AGATATCAATAACATGTTTGA	0.338													9	64					0	0	0.006214	0	0		G	55541814	G	G	55541814	3	3	1	1	0	0	0	0	1	0	0	0	11173	362	13	3	903	3	OR5D13	11	55541814	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	135064	55541814	79464702	812	812											
OR5M9	390162	broad.mit.edu	37	chr11	56230449	56230449	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatagacataaggcacagaGatgagccgaacacacacagt	17	4	9	11	1	0	3	0	1	0	2	0	5	0	3	2	1	2	1	2	1	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:56230449G>A	uc010rjj.1	-	1	429	c.429C>T	c.(427-429)ATC>ATT	p.I143I		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					AAGGCACAGAGATGAGCCGAA	0.438													5	150					0	0	0.000602	0	0		A	56230449	A	A	56230449	2	1	1	1	0	0	0	0	0	0	0	1	11196	932	33	4		4	OR5M9	11	56230449	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	688635	56230449	78776067	813	813											
OR4D10	390197	broad.mit.edu	37	chr11	59245321	59245321	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactatcatgagtagagaccAttgcattgggctcacagtgg	11	10	12	8	0	2	2	2	1	0	1	2	4	2	2	1	2	1	3	1	2	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:59245321A>G	uc001nnz.1	+	1	419	c.419A>G	c.(418-420)CAT>CGT	p.H140R		NM_001004705	NP_001004705	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						AGTAGAGACCATTGCATTGGG	0.527													11	128					0	0	0.001368	0	0		G	59245321	G	G	59245321	3	3	1	1	0	0	0	0	1	0	0	0	11073	217	8	3	421	3	OR4D10	11	59245321	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	3014872	59245321	75761195	814	814											
MS4A10	341116	broad.mit.edu	37	chr11	60565880	60565880	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcgcagaatgatgatgcAtgccttgttccgaatacacc	10	12	8	11	2	0	3	0	2	0	1	2	4	1	3	3	0	3	3	3	0	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:60565880A>G	uc001npz.1	+	7	711	c.615A>G	c.(613-615)GCA>GCG	p.A205A		NM_206893	NP_996776	Q96PG2	M4A10_HUMAN	membrane-spanning 4-domains, subfamily A, member	205	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(1)|skin(1)	2						ATGATGATGCATGCCTTGTTC	0.542													7	56					0	0	0.00308	0	0		G	60565880	G	G	60565880	2	3	1	1	0	0	0	0	0	0	0	1	9873	204	8	3		3	MS4A10	11	60565880	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1320559	60565880	74440636	815	815											
TMEM109	79073	broad.mit.edu	37	chr11	60687309	60687309	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggccaacagaagagagaAgccccagttgatgtcttgac	13	6	11	11	0	1	5	0	2	1	3	1	6	1	5	4	1	2	1	4	1	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:60687309A>C	uc001nqg.2	+	2	522	c.144A>C	c.(142-144)GAA>GAC	p.E48D	TMEM109_uc001nqh.2_Missense_Mutation_p.E48D	NM_024092	NP_076997	Q9BVC6	TM109_HUMAN	transmembrane protein 109 precursor	48						integral to membrane|nuclear outer membrane|sarcoplasmic reticulum membrane					0						AGAAGAGAGAAGCCCCAGTTG	0.557													9	153					0	0	0.004482	0	0		C	60687309	C	C	60687309	3	2	1	1	0	0	0	0	1	0	0	0	16050	69	3	5	146	5	TMEM109	11	60687309	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	121429	60687309	74319207	816	816											
FEN1	2237	broad.mit.edu	37	chr11	61562938	61562938	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaaggtggccattgatgcCtctatgagcatttatcagtt	9	14	10	8	1	2	2	1	2	1	0	2	2	2	2	2	2	2	3	2	2	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:61562938C>A	uc001nsg.2	+	2	477	c.105C>A	c.(103-105)GCC>GCA	p.A35A	C11orf10_uc001nsf.2_5'Flank|MIR611_hsa-mir-611|MI0003624_5'Flank	NM_004111	NP_004102	P39748	FEN1_HUMAN	flap structure-specific endonuclease 1	35	N-domain.				base-excision repair|DNA replication, removal of RNA primer|double-strand break repair|phosphatidylinositol-mediated signaling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|UV protection	mitochondrion|nucleolus|nucleoplasm	5'-3' exonuclease activity|5'-flap endonuclease activity|damaged DNA binding|double-stranded DNA binding|double-stranded DNA specific exodeoxyribonuclease activity|metal ion binding|protein binding|ribonuclease H activity			ovary(1)	1						CCATTGATGCCTCTATGAGCA	0.532								Direct_reversal_of_damage|Editing_and_processing_nucleases					11	83					0.00829132	0.00852617	0.008291	1	0		A	61562938	A	A	61562938	2	1	1	1	0	0	0	0	0	0	0	1	5826	668	24	5		5	FEN1	11	61562938	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	875629	61562938	73443578	817	817											
GANAB	23193	broad.mit.edu	37	chr11	62406583	62406583	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctagcaccagcaacacCtgcggggacagaggtttgga	11	6	13	11	1	1	1	0	0	1	1	1	3	1	3	2	4	5	4	2	4	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:62406583C>A	uc001nub.2	-	4	286	c.253_splice	c.e4-1	p.V85_splice	GANAB_uc001nua.2_Splice_Site_p.V85_splice|GANAB_uc001nuc.2_Splice_Site|GANAB_uc010rma.1_Intron|GANAB_uc010rmb.1_Intron	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2						post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5						CCAGCAACACCTGCGGGGACA	0.522													6	64					0.000157383	0.00016551	0.00308	1	0		A	62406583	A	A	62406583	5	1	1	1	0	0	0	0	0	0	1	0	6248	695	24	5	2736	5	GANAB	11	62406583	Splice_Site	SNP	C	TCGA-B7-5816-01A-21D-1600-08	843645	62406583	72599933	818	818											
STIP1	10963	broad.mit.edu	37	chr11	63970612	63970612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtagtcaagggttatacacGgaaagccgctgcgctggaag	11	8	14	8	3	1	0	1	0	0	0	1	2	1	2	1	3	3	4	1	3	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:63970612G>A	uc001nyk.1	+	12	1445	c.1298G>A	c.(1297-1299)CGG>CAG	p.R433Q	STIP1_uc010rnb.1_Missense_Mutation_p.R409Q	NM_006819	NP_006810	P31948	STIP1_HUMAN	stress-induced-phosphoprotein 1	433	TPR 9.				axon guidance|response to stress	Golgi apparatus|nucleus				ovary(2)|liver(1)	3						GGTTATACACGGAAAGCCGCT	0.557													10	73					0	0	0.001368	0	0		A	63970612	A	A	63970612	3	1	1	1	0	0	0	0	1	0	0	0	15310	1116	39	1	1344	1	STIP1	11	63970612	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1564029	63970612	71035904	819	819											
SLC25A45	283130	broad.mit.edu	37	chr11	65144459	65144459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcacgggcccctggtacCggggtggggggctccctggc	3	6	19	13	2	0	0	0	0	0	0	1	0	1	0	4	8	2	3	4	8	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:65144459C>T	uc001odp.1	-	5	850	c.428G>A	c.(427-429)CGG>CAG	p.R143Q	SLC25A45_uc009yqi.1_Missense_Mutation_p.R81Q|SLC25A45_uc001odq.1_Missense_Mutation_p.R119Q|SLC25A45_uc001odr.1_Missense_Mutation_p.R143Q|SLC25A45_uc001ods.1_Missense_Mutation_p.R101Q|SLC25A45_uc001odt.1_Missense_Mutation_p.R101Q	NM_001077241	NP_001070709	Q8N413	S2545_HUMAN	solute carrier family 25, member 45 isoform b	143	Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0						CCCCTGGTACCGGGGTGGGGG	0.667													4	39					0	0	0.009096	0	0		T	65144459	T	T	65144459	3	4	1	1	0	0	0	0	1	0	0	0	14535	652	23	1	446	1	SLC25A45	11	65144459	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1173847	65144459	69862057	820	820											
KCNK7	10089	broad.mit.edu	37	chr11	65360998	65360998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggggtgcaggctgcggcCgcggccgggcagcaagtcct	5	4	18	14	5	0	0	0	0	0	0	1	0	1	0	3	6	3	4	3	6	1	0	rs78054727	by1000genomes	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:65360998C>T	uc001oes.2	-	2	891	c.667G>A	c.(667-669)GGC>AGC	p.G223S	KCNK7_uc001oeq.2_Missense_Mutation_p.G223S|KCNK7_uc001oer.2_Missense_Mutation_p.G223S|KCNK7_uc001oeu.2_Missense_Mutation_p.G223S	NM_033347	NP_203133	Q9Y2U2	KCNK7_HUMAN	potassium channel, subfamily K, member 7 isoform	223						integral to membrane	potassium channel activity|voltage-gated ion channel activity				0						AGGCTGCGGCCGCGGCCGGGC	0.657													6	25					0	0	0.001984	0	0		T	65360998	T	T	65360998	3	4	1	1	0	0	0	0	1	0	0	0	8087	652	23	1	365	1	KCNK7	11	65360998	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	216539	65360998	69645518	821	821											
MAP3K11	4296	broad.mit.edu	37	chr11	65375502	65375502	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcaatgccacggtatggCacctccccggtcagcagttc	8	8	10	15	2	2	0	2	0	0	0	4	0	3	0	4	3	2	4	4	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:65375502C>T	uc001oew.2	-	3	1453	c.960G>A	c.(958-960)GTG>GTA	p.V320V	MAP3K11_uc001oev.2_5'Flank|MAP3K11_uc010rol.1_Silent_p.V63V|MAP3K11_uc001oex.1_5'UTR	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	320	Protein kinase.				activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						CACGGTATGGCACCTCCCCGG	0.602													7	85					0	0	0.00308	0	0		T	65375502	T	T	65375502	2	4	1	1	0	0	0	0	0	0	0	1	9263	697	25	2		2	MAP3K11	11	65375502	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	14504	65375502	69631014	822	822											
EFEMP2	30008	broad.mit.edu	37	chr11	65637348	65637348	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgcaggagaagccatccCgatgcagctcatagccctgg	10	6	11	14	1	1	1	1	0	0	1	2	3	2	1	3	2	5	3	3	2	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:65637348C>A	uc001ofy.3	-	7	901	c.707G>T	c.(706-708)CGG>CTG	p.R236L	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Missense_Mutation_p.R236L	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	236	EGF-like 4; calcium-binding (Potential).				blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		GAAGCCATCCCGATGCAGCTC	0.607													12	99					1.49906e-05	1.60476e-05	0.00245	1	0		A	65637348	A	A	65637348	3	1	1	1	0	0	0	0	1	0	0	0	4948	652	23	5	644	5	EFEMP2	11	65637348	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	261846	65637348	69369168	823	823											
SART1	9092	broad.mit.edu	37	chr11	65746365	65746365	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctacatcgtgctcagcggCagcggcaagagcatgaacgc	10	5	12	14	4	1	2	1	1	0	1	2	2	1	2	1	2	6	4	1	2	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:65746365C>A	uc001ogl.2	+	19	2456	c.2364C>A	c.(2362-2364)GGC>GGA	p.G788G		NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	788					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1						TGCTCAGCGGCAGCGGCAAGA	0.537													20	109					4.35082e-09	4.81821e-09	0.010504	1	0		A	65746365	A	A	65746365	2	1	1	1	0	0	0	0	0	0	0	1	13871	697	25	5		5	SART1	11	65746365	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	109017	65746365	69260151	824	824											
SF3B2	10992	broad.mit.edu	37	chr11	65824848	65824848	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagatgagaacagagaggTgagactgatgatttattcct	13	11	13	4	0	0	6	0	4	0	4	1	10	1	6	1	2	1	0	1	2	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:65824848T>C	uc001ogy.1	+	7	817	c.777_splice	c.e7+2	p.E259_splice		NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2						interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						AACAGAGAGGTGAGACTGATG	0.537													14	138					0	0	0.001855	0	0		C	65824848	C	C	65824848	5	2	1	1	0	0	0	0	0	0	1	0	14176	1710	59	3	805	3	SF3B2	11	65824848	Splice_Site	SNP	T	TCGA-B7-5816-01A-21D-1600-08	78483	65824848	69181668	825	825											
RBM4	5936	broad.mit.edu	37	chr11	66411054	66411054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatagatcgttcaggccgCgtggcagacttgaccgagca	9	7	13	12	5	1	3	1	1	0	2	2	5	1	3	3	2	1	3	3	2	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:66411054C>T	uc009yrj.2	+	3	1034	c.546C>T	c.(544-546)CGC>CGT	p.R182R	RBM4_uc009yrk.2_Silent_p.R157R|RBM4_uc001oiw.1_Silent_p.R182R|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Silent_p.R182R|RBM4_uc001oiz.1_Silent_p.R182R	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	182					circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		GTTCAGGCCGCGTGGCAGACT	0.557													7	84					0	0	0.004482	0	0		T	66411054	T	T	66411054	2	4	1	1	0	0	0	0	0	0	0	1	13159	755	27	1		1	RBM4	11	66411054	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	586206	66411054	68595462	826	826											
LRP5	4041	broad.mit.edu	37	chr11	68197061	68197061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcccacccatgtgcccGtgacaatggtggctgctccc	7	7	11	16	1	0	1	0	1	0	0	1	1	1	1	4	2	4	3	4	2	1	0	rs143924910		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:68197061G>A	uc001ont.2	+	17	3731	c.3656G>A	c.(3655-3657)CGT>CAT	p.R1219H	LRP5_uc009ysg.2_Missense_Mutation_p.R629H	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1219	EGF-like 4.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CCATGTGCCCGTGACAATGGT	0.582													9	59					0	0	0.004007	0	0		A	68197061	A	A	68197061	3	1	1	1	0	0	0	0	1	0	0	0	8978	1145	40	1	3722	1	LRP5	11	68197061	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1786007	68197061	66809455	827	827											
IGHMBP2	3508	broad.mit.edu	37	chr11	68704492	68704492	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcgcgcaggggcagccCgccagcaaggagcagcaggc	10	0	18	13	3	0	0	0	0	0	0	0	2	0	2	2	5	5	5	2	5	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:68704492C>T	uc001ook.1	+	13	2646	c.2544C>T	c.(2542-2544)CCC>CCT	p.P848P	IGHMBP2_uc001ool.1_Silent_p.P472P|IGHMBP2_uc001oom.1_Silent_p.P426P	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	848	Gln/Pro-rich.				cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			AGGGGCAGCCCGCCAGCAAGG	0.582													4	21					0	0	0.009096	0	0		T	68704492	T	T	68704492	2	4	1	1	0	0	0	0	0	0	0	1	7607	639	23	1		1	IGHMBP2	11	68704492	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	507431	68704492	66302024	828	828											
NUMA1	4926	broad.mit.edu	37	chr11	71724953	71724953	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagccttgctgtggtcttgtAccttggtgcggaaggcagcc	5	11	14	11	1	1	0	0	0	1	0	1	1	1	1	3	4	5	3	3	4	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:71724953A>G	uc001orl.1	-	15	3768	c.3596T>C	c.(3595-3597)GTA>GCA	p.V1199A	NUMA1_uc009ysw.1_Missense_Mutation_p.V762A|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.V1199A|NUMA1_uc001orn.2_Missense_Mutation_p.V762A|NUMA1_uc009ysx.1_Missense_Mutation_p.V1199A|NUMA1_uc001oro.1_Missense_Mutation_p.V1199A	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1199	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						GTGGTCTTGTACCTTGGTGCG	0.607			T	RARA	APL								13	110					0	0	0.004007	0	0		G	71724953	G	G	71724953	3	3	1	1	0	0	0	0	1	0	0	0	10769	391	14	3	2803	3	NUMA1	11	71724953	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	3020461	71724953	63281563	829	829											
INPPL1	3636	broad.mit.edu	37	chr11	71942235	71942235	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctggattaccgcccggTgagggggggtcatcttgtcc	5	10	16	10	2	3	1	1	1	2	0	4	3	4	3	3	6	1	0	3	6	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:71942235T>C	uc001osf.2	+	12	1644	c.1497_splice	c.e12+2	p.P499_splice	INPPL1_uc001osg.2_Splice_Site_p.P257_splice	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1						actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						TACCGCCCGGTGAGGGGGGGT	0.602													13	163					0	0	0.001368	0	0		C	71942235	C	C	71942235	5	2	1	1	0	0	0	0	0	0	1	0	7777	1710	59	3	1545	3	INPPL1	11	71942235	Splice_Site	SNP	T	TCGA-B7-5816-01A-21D-1600-08	217282	71942235	63064281	830	830											
P2RY6	5031	broad.mit.edu	37	chr11	73008170	73008170	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcactgtcatcggcttcctgCtgccctttgctgccctgctg	2	14	9	16	1	2	0	2	0	0	0	4	0	3	0	3	1	5	4	3	1	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:73008170C>T	uc001otm.2	+	4	1012	c.607C>T	c.(607-609)CTG>TTG	p.L203L	P2RY6_uc001otn.2_Silent_p.L203L|P2RY6_uc001oto.2_Silent_p.L203L|P2RY6_uc001otp.2_Silent_p.L203L|P2RY6_uc001otq.2_Silent_p.L203L|P2RY6_uc001otr.2_Silent_p.L203L|P2RY6_uc001ots.2_Silent_p.L203L	NM_176796	NP_789766	Q15077	P2RY6_HUMAN	pyrimidinergic receptor P2Y6	203	Helical; Name=5; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1						CGGCTTCCTGCTGCCCTTTGC	0.657													5	58					0	0	0.004482	0	0		T	73008170	T	T	73008170	2	4	1	1	0	0	0	0	0	0	0	1	11373	796	28	2		2	P2RY6	11	73008170	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1065935	73008170	61998346	831	831											
MAP6	4135	broad.mit.edu	37	chr11	75298700	75298700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggactatgggaccttcacCcttgacaggtgctgggacta	8	10	13	10	0	1	1	1	1	0	0	1	4	1	4	2	4	1	1	2	4	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:75298700C>T	uc001owu.2	-	4	1911	c.1846G>A	c.(1846-1848)GGT>AGT	p.G616S		NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	616	Pro-rich.					Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					GGACCTTCACCCTTGACAGGT	0.542													35	247					0	0	0.004289	0	0		T	75298700	T	T	75298700	3	4	1	1	0	0	0	0	1	0	0	0	9282	623	22	4	599	4	MAP6	11	75298700	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2290530	75298700	59707816	832	832											
MAP6	4135	broad.mit.edu	37	chr11	75299206	75299206	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccttgagtcttacttgaaTcactgacgggttgagccagg	9	11	12	9	1	2	4	1	4	1	0	2	5	2	4	2	2	2	1	2	2	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:75299206T>C	uc001owu.2	-	4	1405	c.1340A>G	c.(1339-1341)GAT>GGT	p.D447G		NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	447						Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					CTTACTTGAATCACTGACGGG	0.522													9	96					0	0	0.006214	0	0		C	75299206	C	C	75299206	3	2	1	1	0	0	0	0	1	0	0	0	9282	1435	50	3	1105	3	MAP6	11	75299206	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	506	75299206	59707310	833	833											
TMEM135	65084	broad.mit.edu	37	chr11	87029199	87029199	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatgtatttcaaaggcatTgaagcagggaaggttcccta	14	10	10	7	0	1	1	1	1	0	0	2	2	2	2	1	3	1	4	1	3	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:87029199T>C	uc001pch.2	+	13	1121	c.1098T>C	c.(1096-1098)ATT>ATC	p.I366I	TMEM135_uc010rtt.1_Silent_p.I227I|TMEM135_uc001pci.2_Silent_p.I344I	NM_022918	NP_075069	Q86UB9	TM135_HUMAN	transmembrane protein 135	366						integral to membrane					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				TCAAAGGCATTGAAGCAGGGA	0.373													35	194					0	0	0.005524	0	0		C	87029199	C	C	87029199	2	2	1	1	0	0	0	0	0	0	0	1	16076	1800	63	3		3	TMEM135	11	87029199	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	11729993	87029199	47977317	834	834											
TYR	7299	broad.mit.edu	37	chr11	88911703	88911703	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcttgggggatctgaaatCtggagagacattgattttgc	9	13	13	6	0	2	3	0	2	2	1	2	6	2	5	0	3	2	1	0	3	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:88911703C>T	uc001pcs.2	+	1	664	c.582C>T	c.(580-582)ATC>ATT	p.I194I		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	194	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	GATCTGAAATCTGGAGAGACA	0.438									Oculocutaneous_Albinism				50	213					0	0	0.00361	0	0		T	88911703	T	T	88911703	2	4	1	1	0	0	0	0	0	0	0	1	16839	903	32	4		4	TYR	11	88911703	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1882504	88911703	46094813	835	835											
DYNC2H1	79659	broad.mit.edu	37	chr11	103057190	103057190	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttaagttctgatactaaaCagccctttattctggtagga	11	14	9	7	0	2	1	0	1	2	0	2	2	2	2	1	3	3	3	1	3	6	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:103057190C>T	uc001pho.2	+	42	6997	c.6853C>T	c.(6853-6855)CAG>TAG	p.Q2285*	DYNC2H1_uc001phn.1_Nonsense_Mutation_p.Q2285*|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2285	AAA 3 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TGATACTAAACAGCCCTTTAT	0.403													9	86					0	0	0.008291	0	0		T	103057190	T	T	103057190	4	4	1	1	0	0	0	0	0	1	0	0	4852	479	17	4	7019	4	DYNC2H1	11	103057190	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	14145487	103057190	31949326	836	836											
DDI1	414301	broad.mit.edu	37	chr11	103908380	103908380	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcttgtgccgagcgatgtaAcatcatgaggctggtggacc	8	9	15	9	2	1	1	1	1	0	0	1	4	1	2	2	4	3	3	2	4	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:103908380A>C	uc001phr.2	+	1	1073	c.830A>C	c.(829-831)AAC>ACC	p.N277T	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	277					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		GAGCGATGTAACATCATGAGG	0.502													13	137					0	0	0.003163	0	0		C	103908380	C	C	103908380	3	2	1	1	0	0	0	0	1	0	0	0	4331	43	2	5	832	5	DDI1	11	103908380	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	851190	103908380	31098136	837	837											
DLAT	1737	broad.mit.edu	37	chr11	111916693	111916693	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtacggaaagaacttaataAggtaaaagttctgaaaattc	18	10	9	4	1	1	2	0	1	1	1	2	3	1	3	0	3	2	3	0	3	9	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:111916693A>C	uc001pmo.2	+	10	2056	c.1397A>C	c.(1396-1398)AAG>ACG	p.K466T	DLAT_uc009yyk.1_Missense_Mutation_p.K361T|DLAT_uc010rwr.1_Missense_Mutation_p.K339T	NM_001931	NP_001922	P10515	ODP2_HUMAN	dihydrolipoamide S-acetyltransferase precursor	466	Catalytic (By similarity).				glycolysis|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial pyruvate dehydrogenase complex	dihydrolipoyllysine-residue acetyltransferase activity|protein binding				0		all_cancers(61;4.53e-11)|all_epithelial(67;2.76e-06)|Melanoma(852;9.42e-06)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0512)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)		Epithelial(105;4.87e-07)|BRCA - Breast invasive adenocarcinoma(274;6.83e-07)|all cancers(92;9.63e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0557)	NADH(DB00157)	GAACTTAATAAGGTAAAAGTT	0.269													16	52					0	0	0.004007	0	0		C	111916693	C	C	111916693	3	2	1	1	0	0	0	0	1	0	0	0	4555	86	3	5	1435	5	DLAT	11	111916693	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	8008313	111916693	23089823	838	838											
UBE4A	9354	broad.mit.edu	37	chr11	118243291	118243291	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcactgtgtccaataccCgaacagttcttctcacccca	10	10	4	17	1	3	0	2	0	2	0	5	1	4	0	5	0	2	1	5	0	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:118243291C>T	uc001psw.2	+	6	760	c.631C>T	c.(631-633)CGA>TGA	p.R211*	UBE4A_uc001psv.2_Nonsense_Mutation_p.R211*	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	211					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		GTCCAATACCCGAACAGTTCT	0.463													15	151					0	0	0.003163	0	0		T	118243291	T	T	118243291	4	4	1	1	0	0	0	0	0	1	0	0	16908	644	23	1	649	1	UBE4A	11	118243291	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	6326598	118243291	16763225	839	839											
MLL	4297	broad.mit.edu	37	chr11	118376657	118376657	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaatgttgtatccatgcaAactaccacaacccctacaag	14	10	5	12	0	0	1	0	1	0	0	1	1	1	1	4	0	5	3	4	0	7	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:118376657A>G	uc001pta.2	+	27	10064	c.10041A>G	c.(10039-10041)CAA>CAG	p.Q3347Q	MLL_uc001ptb.2_Silent_p.Q3350Q	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3347					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TATCCATGCAAACTACCACAA	0.488			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								45	299					0	0	0.00361	0	0		G	118376657	G	G	118376657	2	3	1	1	0	0	0	0	0	0	0	1	9638	11	1	3		3	MLL	11	118376657	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	133366	118376657	16629859	840	840											
PHLDB1	23187	broad.mit.edu	37	chr11	118498177	118498177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaggagcctggagctgctgGcaagaagcctgccgcaacct	10	5	14	12	1	0	2	0	0	0	2	0	4	0	4	4	3	6	4	4	3	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:118498177G>A	uc001ptr.1	+	7	991	c.638G>A	c.(637-639)GGC>GAC	p.G213D	PHLDB1_uc010ryh.1_Missense_Mutation_p.G212D|PHLDB1_uc001pts.2_Missense_Mutation_p.G213D|PHLDB1_uc001ptt.2_Missense_Mutation_p.G213D|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Missense_Mutation_p.G13D|PHLDB1_uc001ptw.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	213											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		GGAGCTGCTGGCAAGAAGCCT	0.617													7	70					0	0	0.004482	0	0		A	118498177	A	A	118498177	3	1	1	1	0	0	0	0	1	0	0	0	11870	1203	42	2	656	2	PHLDB1	11	118498177	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	121520	118498177	16508339	841	841											
TRIM29	23650	broad.mit.edu	37	chr11	120008663	120008663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccattctccaggctgccaCtggggcccgacgggctccgg	4	7	14	16	3	1	0	0	0	1	0	3	1	2	0	5	5	2	2	5	5	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:120008663C>T	uc001pwz.2	-	1	201	c.77G>A	c.(76-78)AGT>AAT	p.S26N	TRIM29_uc001pxa.2_RNA	NM_012101	NP_036233	Q14134	TRI29_HUMAN	tripartite motif protein TRIM29	26					transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(109;0.00117)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)		CAGGCTGCCACTGGGGCCCGA	0.677													5	25					0	0	0.000602	0	0		T	120008663	T	T	120008663	3	4	1	1	0	0	0	0	1	0	0	0	16529	565	20	4	1725	4	TRIM29	11	120008663	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1510486	120008663	14997853	842	842											
GRIK4	2900	broad.mit.edu	37	chr11	120702712	120702712	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcatccacgccaacgcCtccatgtcccacaccatcct	10	8	3	20	2	2	0	2	0	0	0	6	0	6	0	7	0	1	0	7	0	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:120702712C>A	uc001pxn.2	+	7	950	c.663C>A	c.(661-663)GCC>GCA	p.A221A	GRIK4_uc009zav.1_Silent_p.A221A|GRIK4_uc009zaw.1_Silent_p.A221A|GRIK4_uc009zax.1_Silent_p.A221A	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	221	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	ACGCCAACGCCTCCATGTCCC	0.662													6	76					2.0095e-06	2.17349e-06	0.001984	1	0		A	120702712	A	A	120702712	2	1	1	1	0	0	0	0	0	0	0	1	6792	668	24	5		5	GRIK4	11	120702712	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	694049	120702712	14303804	843	843											
SC5DL	6309	broad.mit.edu	37	chr11	121178116	121178116	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctttgaggggaagggaccGctcagttatgtgaaggagat	10	10	15	6	1	1	3	1	2	0	1	2	6	2	5	2	4	0	2	2	4	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:121178116G>A	uc001pxu.2	+	5	943	c.795G>A	c.(793-795)CCG>CCA	p.P265P	SC5DL_uc001pxt.2_3'UTR|SC5DL_uc001pxv.2_Silent_p.P265P	NM_006918	NP_008849	O75845	SC5D_HUMAN	sterol-C5-desaturase	265				PQILQPFINGSAHHTDHHMFFDYNYGQYFTLWDRIGGSFKN PSSFEGKGPLSYVKEMTEGKRSSHSGNGCKNEKLFNGEFTK TE -> RMKNYSMESLQRLNRLLPSYS (in Ref. 1; BAA18970).	fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	C-5 sterol desaturase activity|iron ion binding|lathosterol oxidase activity			ovary(1)	1		Breast(109;0.00328)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)	OV - Ovarian serous cystadenocarcinoma(1;0.0334)	BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.144)		GGAAGGGACCGCTCAGTTATG	0.408													13	120					0	0	0.001855	0	0		A	121178116	A	A	121178116	2	1	1	1	0	0	0	0	0	0	0	1	13891	1074	38	1		1	SC5DL	11	121178116	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	475404	121178116	13828400	844	844											
C11orf63	79864	broad.mit.edu	37	chr11	122774913	122774913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atggtgcccgtcgcagcaagCcgttttcagagctgagcgac	8	8	13	12	4	1	2	1	1	0	1	2	3	1	2	2	1	5	4	2	1	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:122774913C>T	uc001pym.2	+	3	922	c.625C>T	c.(625-627)CCG>TCG	p.P209S	C11orf63_uc001pyl.1_Missense_Mutation_p.P209S	NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	209										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		TCGCAGCAAGCCGTTTTCAGA	0.517													8	100					0	0	0.004482	0	0		T	122774913	T	T	122774913	3	4	1	1	0	0	0	0	1	0	0	0	1657	739	26	2	631	2	C11orf63	11	122774913	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1596797	122774913	12231603	845	845											
SCN3B	55800	broad.mit.edu	37	chr11	123504900	123504900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccttgttctcagatgggatgGcaaggtagtcagacctatag	10	11	12	8	0	2	2	2	0	1	2	3	3	2	3	2	3	0	3	2	3	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:123504900G>A	uc001pza.1	-	6	1006	c.599C>T	c.(598-600)GCC>GTC	p.A200V	SCN3B_uc001pzb.1_Missense_Mutation_p.A200V	NM_001040151	NP_001035241	Q9NY72	SCN3B_HUMAN	voltage-gated sodium channel beta-3 subunit	200	Cytoplasmic (Potential).				axon guidance	integral to membrane|plasma membrane	voltage-gated sodium channel activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0227)		AGATGGGATGGCAAGGTAGTC	0.542													10	72					0	0	0.006214	0	0		A	123504900	A	A	123504900	3	1	1	1	0	0	0	0	1	0	0	0	13944	1203	42	2	52	2	SCN3B	11	123504900	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	729987	123504900	11501616	846	846											
OR4D5	219875	broad.mit.edu	37	chr11	123810680	123810680	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctgctgactgtcatggcGtatgaccgctacattgccat	7	13	9	12	2	1	2	1	2	0	0	2	2	2	2	3	1	3	3	3	1	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:123810680G>A	uc001pzk.1	+	1	357	c.357G>A	c.(355-357)GCG>GCA	p.A119A		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CTGTCATGGCGTATGACCGCT	0.522													4	176					0	0	0.009096	0	0		A	123810680	A	A	123810680	2	1	1	1	0	0	0	0	0	0	0	1	11076	1132	40	1		1	OR4D5	11	123810680	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	305780	123810680	11195836	847	847											
OR10S1	219873	broad.mit.edu	37	chr11	123847769	123847769	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgctggcaagcatgactagCtcattaatggtggtgtctgt	9	13	12	7	0	2	1	1	1	1	0	2	1	2	1	0	3	3	4	0	3	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:123847769C>A	uc001pzm.1	-	1	630	c.630G>T	c.(628-630)GAG>GAT	p.E210D		NM_001004474	NP_001004474	Q8NGN2	O10S1_HUMAN	olfactory receptor, family 10, subfamily S,	210	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GCATGACTAGCTCATTAATGG	0.542													15	65					5.35267e-07	5.81963e-07	0.007413	1	0		A	123847769	A	A	123847769	3	1	1	1	0	0	0	0	1	0	0	0	10937	796	28	5	369	5	OR10S1	11	123847769	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	37089	123847769	11158747	848	848											
OR8G2	26492	broad.mit.edu	37	chr11	124095694	124095694	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaatgctggtgaactttgtGacagagaagaacatcatctc	15	10	9	7	0	2	4	1	2	1	2	3	5	2	4	0	1	3	1	0	1	5	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:124095694G>A	uc010saf.1	+	1	297	c.297G>A	c.(295-297)GTG>GTA	p.V99V		NM_001007249	NP_001007250	Q15614	OR8G2_HUMAN	olfactory receptor, family 8, subfamily G,	99						integral to membrane	olfactory receptor activity				0		Breast(109;0.0157)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.91e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		TGAACTTTGTGACAGAGAAGA	0.443													31	300					0	0	0.008361	0	0		A	124095694	A	A	124095694	2	1	1	1	0	0	0	0	0	0	0	1	11254	1277	45	4		4	OR8G2	11	124095694	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	247925	124095694	10910822	849	849											
RPUSD4	84881	broad.mit.edu	37	chr11	126073382	126073382	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttggcatctctaaacgcagGcggtgcagggaatgcacaaa	12	8	12	9	2	1	0	0	0	1	0	2	1	1	1	0	4	3	4	0	4	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr11:126073382G>A	uc001qde.2	-	7	1119	c.1065C>T	c.(1063-1065)CGC>CGT	p.R355R	RPUSD4_uc010sbl.1_Silent_p.R162R|RPUSD4_uc009zbz.2_Silent_p.R324R|RPUSD4_uc009zby.2_RNA	NM_032795	NP_116184	Q96CM3	RUSD4_HUMAN	RNA pseudouridylate synthase domain containing 4	355					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			breast(1)	1	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0761)		CTAAACGCAGGCGGTGCAGGG	0.567													20	108					0	0	0.007413	0	0		A	126073382	A	A	126073382	2	1	1	1	0	0	0	0	0	0	0	1	13694	1190	42	2		2	RPUSD4	11	126073382	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1977688	126073382	8933134	850	850											
KCNA1	3736	broad.mit.edu	37	chr12	5021148	5021148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggacttcacgggcaccGtccaccgcatcgacaacacc	12	4	8	17	4	1	0	1	0	0	0	3	2	2	1	4	2	1	2	4	2	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:5021148G>A	uc001qnh.2	+	2	1709	c.604G>A	c.(604-606)GTC>ATC	p.V202I		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	202					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CACGGGCACCGTCCACCGCAT	0.532													15	69					0	0	0.004007	0	0		A	5021148	A	A	5021148	3	1	1	1	0	0	0	0	1	0	0	0	8017	1145	40	1	606	1	KCNA1	12	5021148	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08		5021148	128830747	851	851											
MRPL51	51258	broad.mit.edu	37	chr12	6602121	6602121	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggagagtgagccttatacCgatcaatctaggcacacctg	11	8	11	11	2	2	2	1	1	1	1	2	4	2	2	3	2	2	1	3	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:6602121C>A	uc001qom.2	-	2	266	c.97G>T	c.(97-99)GGT>TGT	p.G33C	MRPL51_uc001qon.1_RNA|NCAPD2_uc009zen.1_5'Flank|NCAPD2_uc001qoo.2_5'Flank|NCAPD2_uc010sfd.1_5'Flank	NM_016497	NP_057581	Q4U2R6	RM51_HUMAN	mitochondrial ribosomal protein L51 precursor	33					translation	mitochondrial large ribosomal subunit	protein binding|structural constituent of ribosome				0						AGCCTTATACCGATCAATCTA	0.522													11	106					3.86212e-05	4.1055e-05	0.008291	1	0		A	6602121	A	A	6602121	3	1	1	1	0	0	0	0	1	0	0	0	9833	652	23	5	297	5	MRPL51	12	6602121	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1580973	6602121	127249774	852	852											
CHD4	1108	broad.mit.edu	37	chr12	6692236	6692236	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcaccttcctctgaagcCactgagtaatcggactggtt	9	12	8	12	1	3	2	2	2	1	0	5	3	4	3	3	2	1	2	3	2	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:6692236C>A	uc001qpo.2	-	27	4268	c.4104G>T	c.(4102-4104)GTG>GTT	p.V1368V	CHD4_uc001qpn.2_Silent_p.V1361V|CHD4_uc001qpp.2_Silent_p.V1393V|uc001qpq.1_3'UTR|SCARNA11_uc001qpr.1_5'Flank	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1368					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						CCTCTGAAGCCACTGAGTAAT	0.502													13	101					1.05317e-09	1.17019e-09	0.00245	1	0		A	6692236	A	A	6692236	2	1	1	1	0	0	0	0	0	0	0	1	3330	581	21	5		5	CHD4	12	6692236	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	90115	6692236	127159659	853	853											
ATN1	1822	broad.mit.edu	37	chr12	7046278	7046278	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcggctaccctttccacGgtcattgccaccgtggcttc	4	13	8	16	3	2	0	1	0	1	0	5	0	3	0	4	3	2	2	4	3	1	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:7046278G>A	uc001qrw.1	+	5	2085	c.1848G>A	c.(1846-1848)ACG>ACA	p.T616T	ATN1_uc001qrx.1_Silent_p.T616T	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	616					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						CCCTTTCCACGGTCATTGCCA	0.667													10	93					0	0	0.001368	0	0		A	7046278	A	A	7046278	2	1	1	1	0	0	0	0	0	0	0	1	1112	1103	39	1		1	ATN1	12	7046278	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	354042	7046278	126805617	854	854											
C1S	716	broad.mit.edu	37	chr12	7173936	7173936	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgggtttgaagttgtggAggtaaagtaccaccttggct	9	12	15	5	0	0	1	0	1	0	0	0	3	0	3	2	5	1	5	2	5	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:7173936A>G	uc001qsj.2	+	11	1705	c.986A>G	c.(985-987)GAG>GGG	p.E329G	C1S_uc001qsk.2_Missense_Mutation_p.E329G|C1S_uc001qsl.2_Missense_Mutation_p.E329G|C1S_uc009zfr.2_Missense_Mutation_p.E162G|C1S_uc009zfs.2_RNA	NM_201442	NP_958850	P09871	C1S_HUMAN	complement component 1, s subcomponent	329	Sushi 1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity			skin(1)	1					Abciximab(DB00054)|Adalimumab(DB00051)|Basiliximab(DB00074)|Cetuximab(DB00002)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Rituximab(DB00073)|Trastuzumab(DB00072)	GAAGTTGTGGAGGTAAAGTAC	0.478													5	71					0	0	0.000602	0	0		G	7173936	G	G	7173936	3	3	1	1	0	0	0	0	1	0	0	0	1977	318	11	3	1012	3	C1S	12	7173936	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	127658	7173936	126677959	855	855											
CD163	9332	broad.mit.edu	37	chr12	7649572	7649572	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcgaccaatggctgtgacGgcagttggacatcccagttg	9	9	12	11	2	0	1	0	1	0	0	2	3	1	2	2	3	0	4	2	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:7649572G>A	uc001qsz.3	-	5	1064	c.936C>T	c.(934-936)GCC>GCT	p.A312A	CD163_uc001qta.3_Silent_p.A312A|CD163_uc009zfw.2_Silent_p.A312A	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	312	SRCR 3.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						TGGCTGTGACGGCAGTTGGAC	0.507													7	57					0	0	0.006214	0	0		A	7649572	A	A	7649572	2	1	1	1	0	0	0	0	0	0	0	1	2970	1103	39	1		1	CD163	12	7649572	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	475636	7649572	126202323	856	856											
C3AR1	719	broad.mit.edu	37	chr12	8212287	8212287	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctattatggttgtctgtAgtgaagatttcccggtacac	9	15	9	8	1	2	2	0	1	2	1	3	2	3	2	1	2	1	3	1	2	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:8212287A>G	uc001qtv.1	-	2	587	c.495T>C	c.(493-495)ACT>ACC	p.T165T		NM_004054	NP_004045	Q16581	C3AR_HUMAN	complement component 3a receptor 1	165	Extracellular (Potential).				blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)		GGTTGTCTGTAGTGAAGATTT	0.433													16	130					0	0	0.008871	0	0		G	8212287	G	G	8212287	2	3	1	1	0	0	0	0	0	0	0	1	2208	407	15	3		3	C3AR1	12	8212287	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	562715	8212287	125639608	857	857											
RIMKLB	57494	broad.mit.edu	37	chr12	8902584	8902584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctagagaagatgggatgtcGgttaatgaaccgacctcaag	13	9	12	7	2	2	3	1	1	1	2	3	6	2	4	2	2	1	1	2	2	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:8902584G>A	uc001quu.2	+	3	553	c.302G>A	c.(301-303)CGG>CAG	p.R101Q	RIMKLB_uc009zgf.1_RNA|RIMKLB_uc001qux.2_Missense_Mutation_p.R101Q|RIMKLB_uc010sgl.1_Missense_Mutation_p.R101Q|RIMKLB_uc001quw.2_Missense_Mutation_p.R101Q	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	101					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						ATGGGATGTCGGTTAATGAAC	0.488													19	133					0	0	0.010504	0	0		A	8902584	A	A	8902584	3	1	1	1	0	0	0	0	1	0	0	0	13391	1116	39	1	308	1	RIMKLB	12	8902584	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	690297	8902584	124949311	858	858											
RIMKLB	57494	broad.mit.edu	37	chr12	8926159	8926159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccctctggccggctcaccCggcgtatgtccctgctctcc	3	10	9	19	3	3	0	1	0	2	0	5	0	4	0	5	3	2	3	5	3	2	2	rs34259191		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:8926159C>T	uc001quu.2	+	6	1191	c.940C>T	c.(940-942)CGG>TGG	p.R314W	RIMKLB_uc009zgf.1_Intron|RIMKLB_uc001qux.2_Missense_Mutation_p.R314W|RIMKLB_uc010sgl.1_Missense_Mutation_p.R314W|RIMKLB_uc001quw.2_Intron	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	314					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						CCGGCTCACCCGGCGTATGTC	0.552													16	59					0	0	0.007413	0	0		T	8926159	T	T	8926159	3	4	1	1	0	0	0	0	1	0	0	0	13391	643	23	1	958	1	RIMKLB	12	8926159	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	23575	8926159	124925736	859	859											
A2M	2	broad.mit.edu	37	chr12	9246162	9246162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgtgcatggcctcttccCattacatctgactctatggt	7	13	9	12	1	3	1	0	1	3	0	4	1	4	1	2	3	2	1	2	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:9246162C>T	uc001qvk.1	-	18	2252	c.2139G>A	c.(2137-2139)ATG>ATA	p.M713I	A2M_uc009zgk.1_Missense_Mutation_p.M563I	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	713	Bait region.				blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GGCCTCTTCCCATTACATCTG	0.428													8	48					0	0	0.004482	0	0		T	9246162	T	T	9246162	3	4	1	1	0	0	0	0	1	0	0	0	4	594	21	4	2361	4	A2M	12	9246162	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	320003	9246162	124605733	860	860											
LOH12CR1	118426	broad.mit.edu	37	chr12	12618589	12618589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagatgtccgccatcctccGccgcatacagatgggcatcg	8	7	11	15	5	0	2	0	0	0	2	4	3	3	2	5	1	1	2	5	1	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:12618589G>A	uc001ral.2	+	4	836	c.470G>A	c.(469-471)CGC>CAC	p.R157H	LOH12CR1_uc009zhu.2_Missense_Mutation_p.R109H	NM_058169	NP_477517	Q969J3	L12R1_HUMAN	LOH1CR12	157										ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.0205)		GCCATCCTCCGCCGCATACAG	0.582													12	70					0	0	0.004007	0	0		A	12618589	A	A	12618589	3	1	1	1	0	0	0	0	1	0	0	0	8909	1087	38	1	484	1	LOH12CR1	12	12618589	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3372427	12618589	121233306	861	861											
EPS8	2059	broad.mit.edu	37	chr12	15776135	15776135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatttggctatagactctcGccccttcagggcagactgtc	7	12	10	12	1	2	3	1	1	1	2	4	3	2	3	2	2	0	2	2	2	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:15776135G>A	uc009zif.2	-	20	2406	c.2312C>T	c.(2311-2313)GCG>GTG	p.A771V	EPS8_uc001rdb.2_Missense_Mutation_p.A771V|EPS8_uc009zig.2_Missense_Mutation_p.A511V|EPS8_uc010shv.1_Missense_Mutation_p.A511V	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	771					cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		ATAGACTCTCGCCCCTTCAGG	0.398													21	132					0	0	0.008871	0	0		A	15776135	A	A	15776135	3	1	1	1	0	0	0	0	1	0	0	0	5202	1087	38	1	164	1	EPS8	12	15776135	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3157546	15776135	118075760	862	862											
ABCC9	10060	broad.mit.edu	37	chr12	22005084	22005084	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttttccagtgttcataaaGctcaacatctttggtttgaa	10	17	7	7	0	3	1	2	1	1	0	4	1	4	1	1	1	2	4	1	1	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:22005084G>T	uc001rfi.1	-	22	2736	c.2716C>A	c.(2716-2718)CTT>ATT	p.L906I	ABCC9_uc001rfh.2_Missense_Mutation_p.L906I|ABCC9_uc001rfj.1_Missense_Mutation_p.L870I	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	906	Cytoplasmic (Potential).|ABC transporter 1.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TGTTCATAAAGCTCAACATCT	0.388													12	60					2.27111e-07	2.47892e-07	0.001368	1	0		T	22005084	T	T	22005084	3	4	1	1	0	0	0	0	1	0	0	0	59	971	34	5	2143	5	ABCC9	12	22005084	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	6228949	22005084	111846811	863	863											
ST8SIA1	6489	broad.mit.edu	37	chr12	22354742	22354742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaagtcctgtggacaggCgcttggcatggattcctcta	10	10	12	9	1	1	0	0	0	1	0	3	3	3	2	2	4	0	2	2	4	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:22354742C>T	uc001rfo.3	-	5	1297	c.815G>A	c.(814-816)CGC>CAC	p.R272H	ST8SIA1_uc009zix.2_Missense_Mutation_p.R129H	NM_003034	NP_003025	Q92185	SIA8A_HUMAN	alpha-2,8-sialyltransferase 1	272	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(3)	3						TGTGGACAGGCGCTTGGCATG	0.507													15	112					0	0	0.003163	0	0		T	22354742	T	T	22354742	3	4	1	1	0	0	0	0	1	0	0	0	15256	768	27	1	259	1	ST8SIA1	12	22354742	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	349658	22354742	111497153	864	864											
SOX5	6660	broad.mit.edu	37	chr12	23757415	23757415	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccttggggtatgcctggcAgcttccctcctggagatacc	5	11	12	13	0	0	1	0	0	0	1	2	2	2	1	5	4	4	3	5	4	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:23757415A>C	uc001rfw.2	-	9	1172	c.1070T>G	c.(1069-1071)CTG>CGG	p.L357R	SOX5_uc001rfx.2_Missense_Mutation_p.L344R|SOX5_uc001rfy.2_Missense_Mutation_p.L344R|SOX5_uc010siv.1_Missense_Mutation_p.L344R|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.L309R	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	357					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TATGCCTGGCAGCTTCCCTCC	0.493													10	88					0	0	0.008291	0	0		C	23757415	C	C	23757415	3	2	1	1	0	0	0	0	1	0	0	0	14979	188	7	5	1259	5	SOX5	12	23757415	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1402673	23757415	110094480	865	865											
TM7SF3	51768	broad.mit.edu	37	chr12	27156306	27156306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtatctaaatttccccaCagaaaattcaataagaccta	18	10	4	9	0	2	2	1	0	1	2	3	3	3	2	3	0	0	1	3	0	9	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:27156306C>T	uc010sjl.1	-	2	347	c.109G>A	c.(109-111)GTG>ATG	p.V37M		NM_016551	NP_057635	Q9NS93	TM7S3_HUMAN	transmembrane 7 superfamily member 3 precursor	37						integral to membrane|plasma membrane				upper_aerodigestive_tract(2)	2	Colorectal(261;0.0847)					AATTTCCCCACAGAAAATTCA	0.323													9	86					0	0	0.006214	0	0		T	27156306	T	T	27156306	3	4	1	1	0	0	0	0	1	0	0	0	16000	478	17	4	1647	4	TM7SF3	12	27156306	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3398891	27156306	106695589	866	866											
GXYLT1	283464	broad.mit.edu	37	chr12	42499688	42499688	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtttactccagtttttcCataatatggatgcctagcaa	12	14	7	8	0	0	1	0	0	0	1	2	2	2	2	3	1	3	3	3	1	5	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:42499688C>A	uc001rms.3	-	5	1021	c.796G>T	c.(796-798)GGA>TGA	p.G266*	GXYLT1_uc001rmt.3_Nonsense_Mutation_p.G235*	NM_173601	NP_775872	Q4G148	GXLT1_HUMAN	glycosyltransferase 8 domain containing 3	266	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						CCAGTTTTTCCATAATATGGA	0.368													24	91					2.21704e-12	2.49828e-12	0.00278	1	0		A	42499688	A	A	42499688	4	1	1	1	0	0	0	0	0	1	0	0	6919	603	21	5	542	5	GXYLT1	12	42499688	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	15343382	42499688	91352207	867	867											
IRAK4	51135	broad.mit.edu	37	chr12	44177520	44177520	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgaacaccgtgaacctcAgttattggtaaatgaaatat	15	11	9	6	1	1	3	1	3	0	0	1	4	1	4	2	2	2	2	2	2	7	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:44177520A>C	uc001rnu.3	+	11	1311	c.1181A>C	c.(1180-1182)CAG>CCG	p.Q394P	IRAK4_uc001rnt.3_Missense_Mutation_p.Q394P|IRAK4_uc001rnx.3_Missense_Mutation_p.Q270P|IRAK4_uc001rny.3_Missense_Mutation_p.Q270P|IRAK4_uc010sky.1_Missense_Mutation_p.Q270P|IRAK4_uc001rnv.3_Missense_Mutation_p.Q270P|IRAK4_uc001rnw.3_Missense_Mutation_p.Q270P	NM_001114182	NP_001107654	Q9NWZ3	IRAK4_HUMAN	interleukin-1 receptor-associated kinase 4	394	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0	all_cancers(12;0.00149)	Lung NSC(34;0.0804)|all_lung(34;0.181)		GBM - Glioblastoma multiforme(48;0.04)		CGTGAACCTCAGTTATTGGTA	0.269													5	42					0	0	0.001168	0	0		C	44177520	C	C	44177520	3	2	1	1	0	0	0	0	1	0	0	0	7841	188	7	5	1215	5	IRAK4	12	44177520	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1677832	44177520	89674375	868	868											
NELL2	4753	broad.mit.edu	37	chr12	45173737	45173737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacacttctgtgtgagggCggtgactgcctgagcggtaa	9	9	15	8	2	1	3	0	3	1	0	1	4	1	3	1	3	3	1	1	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:45173737C>T	uc001rog.2	-	4	999	c.404G>A	c.(403-405)CGC>CAC	p.R135H	NELL2_uc001rof.3_Missense_Mutation_p.R134H|NELL2_uc001roh.2_Missense_Mutation_p.R135H|NELL2_uc009zkd.2_Missense_Mutation_p.R134H|NELL2_uc010skz.1_Missense_Mutation_p.R185H|NELL2_uc010sla.1_Missense_Mutation_p.R158H|NELL2_uc001roi.1_Missense_Mutation_p.R135H|NELL2_uc010slb.1_Missense_Mutation_p.R134H|NELL2_uc001roj.2_Missense_Mutation_p.R135H	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	135	TSP N-terminal.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		TGTGTGAGGGCGGTGACTGCC	0.488													21	183					0	0	0.010504	0	0		T	45173737	T	T	45173737	3	4	1	1	0	0	0	0	1	0	0	0	10353	768	27	1	2114	1	NELL2	12	45173737	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	996217	45173737	88678158	869	869											
COL2A1	1280	broad.mit.edu	37	chr12	48367873	48367873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggcagccccactcaccGtgcagccatccttcagggca	7	7	9	18	1	3	0	2	0	1	0	4	0	4	0	5	2	3	3	5	2	0	1	rs121912886		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:48367873G>A	uc001rqu.2	-	53	4497	c.4316C>T	c.(4315-4317)ACG>ATG	p.T1439M	COL2A1_uc001rqt.2_Missense_Mutation_p.T220M|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.T1370M	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1439	Fibrillar collagen NC1.		T -> M (in SEDC).		axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CCCACTCACCGTGCAGCCATC	0.617													18	71					0	0	0.007413	0	0		A	48367873	A	A	48367873	3	1	1	1	0	0	0	0	1	0	0	0	3690	1159	40	1	155	1	COL2A1	12	48367873	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3194136	48367873	85484022	870	870											
OR8S1	341568	broad.mit.edu	37	chr12	48921795	48921795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgaaggccgcagggagcccgGacacccggagctgagcattc	9	3	15	14	4	0	1	0	1	0	0	1	5	0	4	3	4	3	3	3	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:48921795G>A	uc010slu.1	+	2	989	c.989G>A	c.(988-990)GGA>GAA	p.G330E		NM_001005203	NP_001005203	Q8NH09	OR8S1_HUMAN	olfactory receptor, family 8, subfamily S,	330	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AGGGAGCCCGGACACCCGGAG	0.677													3	41					0	0	0.004672	0	0		A	48921795	A	A	48921795	3	1	1	1	0	0	0	0	1	0	0	0	11265	1174	41	4	995	4	OR8S1	12	48921795	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	553922	48921795	84930100	871	871											
CCNT1	904	broad.mit.edu	37	chr12	49110337	49110337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctgaagcagattggccGcctgctggcgataagaaagt	10	9	13	9	2	0	3	0	1	0	2	1	4	1	3	3	2	2	2	3	2	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:49110337G>A	uc001rse.1	-	1	445	c.122C>T	c.(121-123)GCG>GTG	p.A41V	CCNT1_uc009zkz.1_5'UTR	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	41					cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						CAGATTGGCCGCCTGCTGGCG	0.552											OREG0021767	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	220					0	0	0.008291	0	0		A	49110337	A	A	49110337	3	1	1	1	0	0	0	0	1	0	0	0	2937	1087	38	1	2094	1	CCNT1	12	49110337	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	188542	49110337	84741558	872	872											
ADCY6	112	broad.mit.edu	37	chr12	49170889	49170889	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaatggggcactgcttacgaGatggcctcaatcatgtctac	10	10	11	10	1	3	1	2	0	1	1	3	3	3	1	1	3	3	2	1	3	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:49170889G>A	uc001rsh.3	-	5	2034	c.1374C>T	c.(1372-1374)ATC>ATT	p.I458I	ADCY6_uc001rsj.3_Silent_p.I458I|ADCY6_uc001rsi.3_Silent_p.I458I|ADCY6_uc010slw.1_5'Flank	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	458	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						CTGCTTACGAGATGGCCTCAA	0.567													30	256					0	0	0.010818	0	0		A	49170889	A	A	49170889	2	1	1	1	0	0	0	0	0	0	0	1	298	932	33	4		4	ADCY6	12	49170889	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	60552	49170889	84681006	873	873											
MLL2	8085	broad.mit.edu	37	chr12	49445987	49445987	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcctcaggcggcggagagagGggcgattcctccagcggccg	6	5	17	13	5	1	1	1	0	0	1	4	4	4	2	4	6	1	0	4	6	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:49445987G>A	uc001rta.3	-	10	1479	c.1479C>T	c.(1477-1479)CCC>CCT	p.P493P		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	493	15 X 5 AA repeats of S/P-P-P-E/P-E/A.|Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GCGGAGAGAGGGGCGATTCCT	0.617			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			7	71					0	0	0.004482	0	0		A	49445987	A	A	49445987	2	1	1	1	0	0	0	0	0	0	0	1	9639	1219	43	4		4	MLL2	12	49445987	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	275098	49445987	84405908	874	874											
PRPF40B	25766	broad.mit.edu	37	chr12	50036136	50036136	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgtgcctgctctggagcTaggcactgcctgggaagagg	6	8	17	10	0	1	1	0	0	1	1	1	3	1	3	2	5	4	4	2	5	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:50036136T>C	uc001rur.1	+	19	2001	c.1937T>C	c.(1936-1938)CTA>CCA	p.L646P	FMNL3_uc001ruv.1_3'UTR|FMNL3_uc001ruw.1_3'UTR|PRPF40B_uc001rup.1_Missense_Mutation_p.L668P|PRPF40B_uc001ruq.1_Missense_Mutation_p.L633P|PRPF40B_uc001rus.1_Missense_Mutation_p.L589P|FMNL3_uc001rut.1_3'UTR|FMNL3_uc001ruu.1_3'UTR	NM_001031698	NP_001026868	Q6NWY9	PR40B_HUMAN	Huntingtin interacting protein C isoform 1	646					mRNA processing|RNA splicing	nuclear speck				skin(2)|ovary(1)|pancreas(1)|kidney(1)	5						GCTCTGGAGCTAGGCACTGCC	0.667													11	87					0	0	0.010729	0	0		C	50036136	C	C	50036136	3	2	1	1	0	0	0	0	1	0	0	0	12594	1522	53	3	2011	3	PRPF40B	12	50036136	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	590149	50036136	83815759	875	875											
LASS5	91012	broad.mit.edu	37	chr12	50528418	50528418	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggtcagcagcaggccatTgaggagccaccatgaagcat	12	6	13	10	0	1	2	1	2	0	0	1	3	1	3	3	3	4	3	3	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:50528418T>C	uc001rwd.3	-	9	957	c.940A>G	c.(940-942)AAT>GAT	p.N314D	LASS5_uc001rwc.2_Missense_Mutation_p.N233D|LASS5_uc001rwe.3_Missense_Mutation_p.N255D|LASS5_uc001rwf.3_RNA|LASS5_uc010smq.1_Missense_Mutation_p.N170D	NM_147190	NP_671723	Q8N5B7	CERS5_HUMAN	LAG1 homolog, ceramide synthase 5	314	TLC.|Helical; (Potential).				ceramide biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity				0						AGCAGGCCATTGAGGAGCCAC	0.493													13	148					0	0	0.001855	0	0		C	50528418	C	C	50528418	3	2	1	1	0	0	0	0	1	0	0	0	8658	1812	63	3	246	3	LASS5	12	50528418	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	492282	50528418	83323477	876	876											
METTL7A	25840	broad.mit.edu	37	chr12	51319130	51319130	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaccccaaccccaacttTgagaagtttttgatcaagag	13	11	7	10	0	1	4	1	3	0	2	1	5	1	4	4	0	2	1	4	0	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:51319130T>C	uc001rxb.2	+	1	597	c.309T>C	c.(307-309)TTT>TTC	p.F103F	METTL7A_uc010smv.1_Intron	NM_014033	NP_054752	Q9H8H3	MET7A_HUMAN	methyltransferase like 7A precursor	103						endoplasmic reticulum|lipid particle|membrane	methyltransferase activity				0						ACCCCAACTTTGAGAAGTTTT	0.557													18	73					0	0	0.006122	0	0		C	51319130	C	C	51319130	2	2	1	1	0	0	0	0	0	0	0	1	9523	1809	63	3		3	METTL7A	12	51319130	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	790712	51319130	82532765	877	877											
DAZAP2	9802	broad.mit.edu	37	chr12	51634178	51634178	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcctcctgggaatccagTataccctcagaccttgcatc	9	9	8	15	0	1	1	1	0	0	1	4	2	3	2	5	1	3	3	5	1	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:51634178T>C	uc010snd.1	+	2	249	c.65T>C	c.(64-66)GTA>GCA	p.V22A	DAZAP2_uc001ryb.2_Missense_Mutation_p.V22A|DAZAP2_uc010snc.1_Missense_Mutation_p.V22A|DAZAP2_uc010sne.1_Missense_Mutation_p.V22A|DAZAP2_uc010snf.1_Missense_Mutation_p.V22A	NM_001136266	NP_001129738	Q15038	DAZP2_HUMAN	DAZ associated protein 2 isoform c	22	Pro-rich.						WW domain binding				0						GGGAATCCAGTATACCCTCAG	0.498													13	156					0	0	0.00245	0	0		C	51634178	C	C	51634178	3	2	1	1	0	0	0	0	1	0	0	0	4248	1638	57	3	71	3	DAZAP2	12	51634178	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	315048	51634178	82217717	878	878											
KRT7	3855	broad.mit.edu	37	chr12	52639292	52639292	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggagctggaagccgccCtgcagcggggcaagcaggat	10	3	18	10	2	0	0	0	0	0	0	0	4	0	4	2	6	5	4	2	6	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:52639292C>A	uc001saa.1	+	7	1208	c.1081C>A	c.(1081-1083)CTG>ATG	p.L361M	KRT7_uc009zmf.1_Intron	NM_005556	NP_005547	P08729	K2C7_HUMAN	keratin 7	361	Rod.|Coil 2.				cytoskeleton organization|DNA replication|interphase|interspecies interaction between organisms|regulation of translation	Golgi apparatus|keratin filament|nucleus	protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.105)		GGAAGCCGCCCTGCAGCGGGG	0.642													4	35					5.18039e-06	5.58145e-06	0.00308	1	0		A	52639292	A	A	52639292	3	1	1	1	0	0	0	0	1	0	0	0	8499	680	24	5	1107	5	KRT7	12	52639292	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1005114	52639292	81212603	879	879											
KRT72	140807	broad.mit.edu	37	chr12	52979783	52979783	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcatctggaggccttttTggtggcacagctgctccccg	5	11	11	14	1	2	0	1	0	1	0	3	1	3	1	4	4	2	3	4	4	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:52979783T>G	uc001sar.2	-	9	1605	c.1519A>C	c.(1519-1521)AAA>CAA	p.K507Q	KRT72_uc001saq.2_Missense_Mutation_p.K507Q|KRT72_uc010sns.1_Missense_Mutation_p.K465Q|KRT72_uc010snt.1_Missense_Mutation_p.K319Q	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	507	Tail.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		GAGGCCTTTTTGGTGGCACAG	0.567													44	268					0	0	0.013114	0	0		G	52979783	G	G	52979783	3	3	1	1	0	0	0	0	1	0	0	0	8501	1821	63	5	20	5	KRT72	12	52979783	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	340491	52979783	80872112	880	880											
ESPL1	9700	broad.mit.edu	37	chr12	53671679	53671679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggggcaggccccagctgtaCggtgtctccagcagacagca	9	5	14	13	1	1	1	0	0	1	1	2	1	1	1	3	4	4	5	3	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:53671679C>T	uc001sck.2	+	11	2390	c.2299C>T	c.(2299-2301)CGG>TGG	p.R767W	ESPL1_uc001scj.2_Missense_Mutation_p.R442W|ESPL1_uc010soe.1_5'Flank	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	767					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CCCAGCTGTACGGTGTCTCCA	0.572													9	77					0	0	0.001368	0	0		T	53671679	T	T	53671679	3	4	1	1	0	0	0	0	1	0	0	0	5261	527	19	1	2337	1	ESPL1	12	53671679	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	691896	53671679	80180216	881	881											
ESPL1	9700	broad.mit.edu	37	chr12	53680370	53680370	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggtggcctcagctgctgtActacccaactttttgcaagc	8	12	9	12	0	1	0	1	0	0	0	1	0	1	0	2	2	7	4	2	2	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:53680370A>G	uc001sck.2	+	18	3941	c.3850A>G	c.(3850-3852)ACT>GCT	p.T1284A	ESPL1_uc001scj.2_Missense_Mutation_p.T959A|ESPL1_uc010soe.1_Intron	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1284					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CAGCTGCTGTACTACCCAACT	0.547													7	97					0	0	0.001984	0	0		G	53680370	G	G	53680370	3	3	1	1	0	0	0	0	1	0	0	0	5261	391	14	3	3916	3	ESPL1	12	53680370	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	8691	53680370	80171525	882	882											
ESPL1	9700	broad.mit.edu	37	chr12	53683934	53683934	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtgggcaacaccctcctgCtgacccggctggaaaaggac	9	5	12	15	2	0	1	0	1	0	0	1	3	1	3	4	4	2	3	4	4	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:53683934C>T	uc001sck.2	+	23	5270	c.5179C>T	c.(5179-5181)CTG>TTG	p.L1727L	ESPL1_uc001scj.2_Silent_p.L1402L	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1727					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CACCCTCCTGCTGACCCGGCT	0.597													9	49					0	0	0.004482	0	0		T	53683934	T	T	53683934	2	4	1	1	0	0	0	0	0	0	0	1	5261	796	28	2		2	ESPL1	12	53683934	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3564	53683934	80167961	883	883											
DGKA	1606	broad.mit.edu	37	chr12	56347164	56347164	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccttcccatgcaaattgaCggagaaccctggatgcagac	12	7	9	13	1	0	3	0	1	0	2	1	5	1	4	3	2	3	2	3	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:56347164C>T	uc001sij.2	+	23	2358	c.2094C>T	c.(2092-2094)GAC>GAT	p.D698D	DGKA_uc001sik.2_Silent_p.D698D|DGKA_uc001sil.2_Silent_p.D698D|DGKA_uc001sim.2_Silent_p.D698D|DGKA_uc001sin.2_Silent_p.D698D|DGKA_uc009zof.2_Silent_p.D344D|DGKA_uc001sio.2_Silent_p.D440D	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	698					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	TGCAAATTGACGGAGAACCCT	0.473													44	330					0	0	0.00361	0	0		T	56347164	T	T	56347164	2	4	1	1	0	0	0	0	0	0	0	1	4471	535	19	1		1	DGKA	12	56347164	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2663230	56347164	77504731	884	884											
CDK2	1017	broad.mit.edu	37	chr12	56362617	56362617	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccattctcatcgggtccTccaccgagaccttaaacctc	8	10	6	17	2	1	1	1	0	1	1	6	2	3	1	6	1	2	0	6	1	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:56362617T>C	uc001sit.3	+	4	608	c.371T>C	c.(370-372)CTC>CCC	p.L124P	CDK2_uc001siu.3_Missense_Mutation_p.L124P|CDK2_uc010spy.1_Missense_Mutation_p.L98P	NM_001798	NP_001789	P24941	CDK2_HUMAN	cyclin-dependent kinase 2 isoform 1	124	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|blood coagulation|cell division|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA replication|G1/S transition of mitotic cell cycle|G2 phase of mitotic cell cycle|G2/M transition of mitotic cell cycle|histone phosphorylation|M/G1 transition of mitotic cell cycle|mitosis|positive regulation of cell proliferation|Ras protein signal transduction|regulation of DNA replication|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cyclin-dependent protein kinase holoenzyme complex|cytosol	ATP binding|cyclin-dependent protein kinase activity|identical protein binding			stomach(1)|central_nervous_system(1)	2			UCEC - Uterine corpus endometrioid carcinoma (6;0.123)|OV - Ovarian serous cystadenocarcinoma(18;0.235)			CATCGGGTCCTCCACCGAGAC	0.502													15	127					0	0	0.00499	0	0		C	56362617	C	C	56362617	3	2	1	1	0	0	0	0	1	0	0	0	3139	1551	54	3	385	3	CDK2	12	56362617	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	15453	56362617	77489278	885	885											
TIMELESS	8914	broad.mit.edu	37	chr12	56827603	56827603	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcctggtggtgctgggtgaGgatgggcagaaggtcgctct	5	10	19	7	1	1	2	0	1	1	1	3	3	2	3	1	6	1	3	1	6	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:56827603G>T	uc001slf.2	-	3	373	c.205C>A	c.(205-207)CTC>ATC	p.L69I	TIMELESS_uc001slg.2_Missense_Mutation_p.L69I	NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	69					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						TGCTGGGTGAGGATGGGCAGA	0.547													11	136					3.86212e-05	4.1055e-05	0.008291	1	0		T	56827603	T	T	56827603	3	4	1	1	0	0	0	0	1	0	0	0	15929	1000	35	5	3529	5	TIMELESS	12	56827603	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	464986	56827603	77024292	886	886											
BAZ2A	11176	broad.mit.edu	37	chr12	57000083	57000083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcttggtctcttgtttcCgcttatttctggcctgtaaa	5	18	8	10	1	3	0	0	0	3	0	5	0	4	0	2	2	1	4	2	2	3	6	rs139817454	by1000genomes	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:57000083C>T	uc001slq.1	-	12	2407	c.2213G>A	c.(2212-2214)CGG>CAG	p.R738Q	BAZ2A_uc001slp.1_Missense_Mutation_p.R736Q|BAZ2A_uc009zov.1_5'Flank|BAZ2A_uc009zow.1_Missense_Mutation_p.R706Q	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	738	Lys-rich.|Potential.				chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						CTCTTGTTTCCGCTTATTTCT	0.428													10	111					0	0	0.008291	0	0		T	57000083	T	T	57000083	3	4	1	1	0	0	0	0	1	0	0	0	1332	652	23	1	3576	1	BAZ2A	12	57000083	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	172480	57000083	76851812	887	887											
NACA	4666	broad.mit.edu	37	chr12	57106630	57106630	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcggactgcctttgctctCgacacatttgcttgtgacat	6	14	9	12	2	1	1	0	1	1	0	3	3	1	2	1	1	3	3	1	1	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:57106630C>A	uc001slz.2	-	7	922	c.573G>T	c.(571-573)TCG>TCT	p.S191S	NACA_uc001sly.2_Silent_p.S191S|NACA_uc009zoy.1_Silent_p.S2054S|NACA_uc001smc.2_Silent_p.S191S|NACA_uc001sma.2_Silent_p.S901S|NACA_uc001smb.2_Silent_p.S191S|NACA_uc010squ.1_RNA	NM_001113201	NP_001106672	Q13765	NACA_HUMAN	nascent polypeptide-associated complex alpha	191	UBA.				interspecies interaction between organisms|protein transport|transcription, DNA-dependent|translation	nascent polypeptide-associated complex|nucleus	DNA binding			ovary(1)	1						CCTTTGCTCTCGACACATTTG	0.428			T	BCL6	NHL								11	181					4.68919e-08	5.15873e-08	0.008291	1	0		A	57106630	A	A	57106630	2	1	1	1	0	0	0	0	0	0	0	1	10151	871	31	5		5	NACA	12	57106630	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	106547	57106630	76745265	888	888											
LRP1	4035	broad.mit.edu	37	chr12	57566979	57566979	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctggtggctgccacacTgatgagttccagtgccggct	5	9	12	15	1	0	2	0	2	0	0	1	2	1	2	5	3	2	3	5	3	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:57566979T>C	uc001snd.2	+	21	3658	c.3192T>C	c.(3190-3192)ACT>ACC	p.T1064T		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1064	Extracellular (Potential).|LDL-receptor class A 8.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GCTGCCACACTGATGAGTTCC	0.652											OREG0021936	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	22					0	0	0.009096	0	0		C	57566979	C	C	57566979	2	2	1	1	0	0	0	0	0	0	0	1	8969	1567	55	3		3	LRP1	12	57566979	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	460349	57566979	76284916	889	889											
R3HDM2	22864	broad.mit.edu	37	chr12	57652728	57652728	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctgcccccgctggtccAtgctgtagtatttacaatga	7	13	9	12	1	1	1	0	1	1	0	2	1	2	1	3	1	3	5	3	1	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:57652728A>G	uc009zpm.1	-	18	2239	c.2204T>C	c.(2203-2205)ATG>ACG	p.M735T	R3HDM2_uc010srn.1_RNA|R3HDM2_uc001snu.2_Missense_Mutation_p.M430T|R3HDM2_uc001snr.2_Missense_Mutation_p.M462T|R3HDM2_uc001sns.2_Missense_Mutation_p.M735T|R3HDM2_uc001snt.2_Missense_Mutation_p.M749T|R3HDM2_uc009zpn.1_Intron	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	735						nucleus	nucleic acid binding			ovary(2)	2						CCGCTGGTCCATGCTGTAGTA	0.567													14	115					0	0	0.00245	0	0		G	57652728	G	G	57652728	3	3	1	1	0	0	0	0	1	0	0	0	12913	217	8	3	746	3	R3HDM2	12	57652728	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	85749	57652728	76199167	890	890											
OS9	10956	broad.mit.edu	37	chr12	58114666	58114666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggtggggagggcacaGgggacctggacgaatttgac	9	6	17	9	1	0	1	0	1	0	0	1	5	1	4	2	7	0	1	2	7	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:58114666G>A	uc001spj.2	+	15	2037	c.1978G>A	c.(1978-1980)GGG>AGG	p.G660R	OS9_uc010srx.1_Missense_Mutation_p.G399R|OS9_uc001spk.2_Missense_Mutation_p.G645R|OS9_uc001spl.2_Missense_Mutation_p.G605R|OS9_uc001spm.2_Missense_Mutation_p.G590R|OS9_uc001spn.2_Missense_Mutation_p.G606R|OS9_uc010sry.1_Missense_Mutation_p.G573R|OS9_uc010srz.1_Missense_Mutation_p.G531R	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	660					ER-associated protein catabolic process|protein retention in ER lumen|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to endoplasmic reticulum stress	endoplasmic reticulum lumen|Hrd1p ubiquitin ligase complex	glycoprotein binding|protein binding|sugar binding			ovary(1)	1	all_neural(12;0.00548)|Glioma(12;0.0126)|Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			GGAGGGCACAGGGGACCTGGA	0.612													12	65					0	0	0.010729	0	0		A	58114666	A	A	58114666	3	1	1	1	0	0	0	0	1	0	0	0	11291	1000	35	4	2036	4	OS9	12	58114666	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	461938	58114666	75737229	891	891											
USP15	9958	broad.mit.edu	37	chr12	62786960	62786960	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatgagagacaagttggatAccttagttgattttcctatc	12	14	8	7	0	0	3	0	2	0	1	2	5	1	4	2	1	1	2	2	1	4	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:62786960A>G	uc001src.1	+	19	2557	c.2548A>G	c.(2548-2550)ACC>GCC	p.T850A	USP15_uc001srb.1_Missense_Mutation_p.T821A	NM_006313	NP_006304	Q9Y4E8	UBP15_HUMAN	ubiquitin specific peptidase 15	850					protein deubiquitination|ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)	3			GBM - Glioblastoma multiforme(1;0.000276)	GBM - Glioblastoma multiforme(28;0.0622)		CAAGTTGGATACCTTAGTTGA	0.343													9	227					0	0	0.004482	0	0		G	62786960	G	G	62786960	3	3	1	1	0	0	0	0	1	0	0	0	17072	391	14	3	2531	3	USP15	12	62786960	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	4672294	62786960	71064935	892	892											
MON2	23041	broad.mit.edu	37	chr12	62861070	62861070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcgccttgtcactggagtGcaagaagaaattcccacctg	10	8	11	12	2	1	2	1	0	0	2	2	3	2	3	3	1	1	1	3	1	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:62861070G>A	uc001sre.2	+	1	474	c.83G>A	c.(82-84)TGC>TAC	p.C28Y	MON2_uc009zqj.2_Missense_Mutation_p.C28Y|MON2_uc010ssl.1_5'UTR|MON2_uc010ssm.1_Missense_Mutation_p.C28Y|MON2_uc010ssn.1_Missense_Mutation_p.C28Y|MON2_uc001srd.1_Missense_Mutation_p.C28Y	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	28					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		TCACTGGAGTGCAAGAAGAAA	0.567													10	106					0	0	0.008291	0	0		A	62861070	A	A	62861070	3	1	1	1	0	0	0	0	1	0	0	0	9718	1319	46	2	85	2	MON2	12	62861070	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	74110	62861070	70990825	893	893											
SRGAP1	57522	broad.mit.edu	37	chr12	64456869	64456869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catggagatgtaccctgctgCgttctgtccaccaatgaagt	9	11	10	11	1	1	2	0	1	1	1	2	3	2	2	3	1	3	3	3	1	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:64456869C>T	uc010ssp.1	+	7	1030	c.974C>T	c.(973-975)GCG>GTG	p.A325V	SRGAP1_uc001srt.2_Missense_Mutation_p.A325V|SRGAP1_uc001srv.2_Missense_Mutation_p.A285V	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	325					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		TACCCTGCTGCGTTCTGTCCA	0.393													6	127					0	0	0.001984	0	0		T	64456869	T	T	64456869	3	4	1	1	0	0	0	0	1	0	0	0	15170	768	27	1	1000	1	SRGAP1	12	64456869	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1595799	64456869	69395026	894	894											
C12orf56	115749	broad.mit.edu	37	chr12	64678530	64678530	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtataatttcaatgcaTgccctagaaaataaacgata	16	12	6	7	1	2	1	1	0	1	1	2	2	2	1	1	0	3	2	1	0	9	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:64678530T>C	uc001ssa.3	-	6	744	c.744A>G	c.(742-744)GCA>GCG	p.A248A	uc001srx.2_Intron|C12orf56_uc001sry.2_5'UTR|C12orf56_uc001srz.2_5'UTR	NM_001099676	NP_001093146	Q8IXR9	CL056_HUMAN	hypothetical protein LOC115749	411											0			GBM - Glioblastoma multiforme(3;0.000582)	GBM - Glioblastoma multiforme(28;0.0259)		TTTCAATGCATGCCCTAGAAA	0.368													3	16					0	0	0.004672	0	0		C	64678530	C	C	64678530	2	2	1	1	0	0	0	0	0	0	0	1	1703	1451	51	3		3	C12orf56	12	64678530	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	221661	64678530	69173365	895	895											
BBS10	79738	broad.mit.edu	37	chr12	76741004	76741004	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactatcaccattcgcatgTcaccatctgctgggcggtac	8	12	8	13	2	3	0	2	0	1	0	4	0	3	0	2	2	3	3	2	2	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:76741004T>C	uc001syd.1	-	2	845	c.761A>G	c.(760-762)GAC>GGC	p.D254G		NM_024685	NP_078961	Q8TAM1	BBS10_HUMAN	Bardet-Biedl syndrome 10	254					cellular protein metabolic process|nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	cilium	ATP binding			ovary(1)|skin(1)	2						CATTCGCATGTCACCATCTGC	0.423									Bardet-Biedl_syndrome				4	68					0	0	0.000602	0	0		C	76741004	C	C	76741004	3	2	1	1	0	0	0	0	1	0	0	0	1337	1667	58	3	1414	3	BBS10	12	76741004	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	12062474	76741004	57110891	896	896											
CSRP2	1466	broad.mit.edu	37	chr12	77252786	77252786	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatagccaaatcccttgggCccaaagttctttgcatagca	11	10	7	13	0	1	0	0	0	1	0	2	0	2	0	4	1	3	3	4	1	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:77252786C>T	uc001syl.1	-	6	611	c.528G>A	c.(526-528)GGG>GGA	p.G176G		NM_001321	NP_001312	Q16527	CSRP2_HUMAN	cysteine and glycine-rich protein 2	176	Gly-rich.				multicellular organismal development	nucleus	zinc ion binding			ovary(1)	1						ATCCCTTGGGCCCAAAGTTCT	0.453													12	103					0	0	0.001368	0	0		T	77252786	T	T	77252786	2	4	1	1	0	0	0	0	0	0	0	1	3970	726	26	2		2	CSRP2	12	77252786	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	511782	77252786	56599109	897	897											
NAV3	89795	broad.mit.edu	37	chr12	78582508	78582508	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagtgcctgaattgctgccTtgtggataccttgttggaga	8	13	13	7	0	0	2	0	1	0	1	0	5	0	3	3	2	4	2	3	2	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:78582508T>A	uc001syp.2	+	33	6179	c.6006T>A	c.(6004-6006)CCT>CCA	p.P2002P	NAV3_uc001syo.2_Silent_p.P1980P|NAV3_uc010sub.1_Silent_p.P1459P|NAV3_uc009zsf.2_Silent_p.P811P	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2002						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AATTGCTGCCTTGTGGATACC	0.383										HNSCC(70;0.22)			16	172					0	0	0.004007	0	0		A	78582508	A	A	78582508	2	1	1	1	0	0	0	0	0	0	0	1	10203	1596	56	5		5	NAV3	12	78582508	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1329722	78582508	55269387	898	898											
MYF6	4618	broad.mit.edu	37	chr12	81101622	81101622	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggagtgatggtaccttgTccccctgccaggaccaaatg	9	8	12	12	0	0	1	0	1	0	0	1	3	1	3	5	3	2	1	5	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:81101622T>C	uc001szf.1	+	1	177	c.124T>C	c.(124-126)TCC>CCC	p.S42P		NM_002469	NP_002460	P23409	MYF6_HUMAN	myogenic factor 6	42					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						TGGTACCTTGTCCCCCTGCCA	0.597													3	80					0	0	0.004482	0	0		C	81101622	C	C	81101622	3	2	1	1	0	0	0	0	1	0	0	0	10046	1667	58	3	126	3	MYF6	12	81101622	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2519114	81101622	52750273	899	899											
PPFIA2	8499	broad.mit.edu	37	chr12	81769649	81769649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcatgtatggaggtagattCtctctgagcactgaggtaac	10	12	12	7	0	3	3	1	2	2	1	4	4	3	4	0	3	2	4	0	3	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:81769649C>T	uc001szo.1	-	10	1218	c.1057G>A	c.(1057-1059)GAA>AAA	p.E353K	PPFIA2_uc010sue.1_Missense_Mutation_p.E253K|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	279										ovary(3)|lung(2)|pancreas(1)	6						GAGGTAGATTCTCTCTGAGCA	0.368													13	81					0	0	0.00245	0	0		T	81769649	T	T	81769649	3	4	1	1	0	0	0	0	1	0	0	0	12329	922	32	4	2808	4	PPFIA2	12	81769649	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	668027	81769649	52082246	900	900											
LRRIQ1	84125	broad.mit.edu	37	chr12	85441250	85441250	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attagagaacattcagaaggTattttgcttttgtttttcat	11	19	7	4	0	2	2	2	0	0	2	2	3	2	2	0	1	2	3	0	1	4	9			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:85441250T>C	uc001tac.2	+	6	789	c.678_splice	c.e6+2	p.K226_splice	LRRIQ1_uc001tab.1_Splice_Site_p.K226_splice|LRRIQ1_uc001taa.1_Splice_Site_p.K226_splice|LRRIQ1_uc001tad.2_Missense_Mutation_p.V135A	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1											ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		ATTCAGAAGGTATTTTGCTTT	0.294													8	73					0	0	0.004482	0	0		C	85441250	C	C	85441250	5	2	1	1	0	0	0	0	0	0	1	0	9047	1652	57	3	698	3	LRRIQ1	12	85441250	Splice_Site	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3671601	85441250	48410645	901	901											
TMPO	7112	broad.mit.edu	37	chr12	98921765	98921765	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggatcagcttgtgaaataCggagtgaatcctggtcctat	10	13	11	7	1	1	2	1	2	0	0	3	4	3	4	2	3	2	1	2	3	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:98921765C>T	uc001tfj.2	+	2	618	c.381C>T	c.(379-381)TAC>TAT	p.Y127Y	TMPO_uc001tfi.1_Silent_p.Y127Y|TMPO_uc001tfk.2_Silent_p.Y127Y|TMPO_uc001tfl.2_RNA|TMPO_uc001tfh.1_Silent_p.Y127Y	NM_001032283	NP_001027454	P42167	LAP2B_HUMAN	thymopoietin isoform beta	127	Nucleoplasmic (Potential).|LEM.					integral to membrane|nuclear inner membrane	DNA binding|lamin binding	p.Y127H(1)		ovary(2)	2						TTGTGAAATACGGAGTGAATC	0.348													13	213					0	0	0.00245	0	0		T	98921765	T	T	98921765	2	4	1	1	0	0	0	0	0	0	0	1	16262	547	19	1		1	TMPO	12	98921765	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	13480515	98921765	34930130	902	902											
BTBD11	121551	broad.mit.edu	37	chr12	108004005	108004005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatctcgaaagctggatgCggtggccatcgaagccaagt	10	8	13	10	3	1	0	0	0	1	0	3	3	1	1	2	3	4	2	2	3	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:108004005C>T	uc001tmk.1	+	5	2203	c.1682C>T	c.(1681-1683)GCG>GTG	p.A561V	BTBD11_uc009zut.1_Missense_Mutation_p.A561V|BTBD11_uc001tmj.2_Missense_Mutation_p.A561V|BTBD11_uc001tml.1_Missense_Mutation_p.A98V	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	561						integral to membrane	DNA binding			skin(2)|ovary(1)	3						AAGCTGGATGCGGTGGCCATC	0.582											OREG0022090	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	156					0	0	0.00333	0	0		T	108004005	T	T	108004005	3	4	1	1	0	0	0	0	1	0	0	0	1542	768	27	1	1805	1	BTBD11	12	108004005	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	9082240	108004005	25847890	903	903											
TCHP	84260	broad.mit.edu	37	chr12	110353251	110353251	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggaagcagaccagcaggAggaggaggaagaggaggagg	15	1	21	4	0	0	2	0	0	0	2	0	9	0	9	1	8	2	2	1	8	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:110353251A>C	uc001tpn.2	+	12	1517	c.1364A>C	c.(1363-1365)GAG>GCG	p.E455A	TCHP_uc001tpo.1_RNA|TCHP_uc001tpp.2_Missense_Mutation_p.E455A	NM_001143852	NP_001137324	Q9BT92	TCHP_HUMAN	trichoplein	455	Glu-rich.|Potential.|Interaction with keratin proteins.				apoptosis|negative regulation of cell growth	apical cortex|centrosome|keratin filament|mitochondrion|plasma membrane	protein binding			skin(1)	1						GACCAGCaggaggaggaggaa	0.577													5	65					0	0	0.00308	0	0		C	110353251	C	C	110353251	3	2	1	1	0	0	0	0	1	0	0	0	15727	304	11	5	1406	5	TCHP	12	110353251	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2349246	110353251	23498644	904	904											
ACAD10	80724	broad.mit.edu	37	chr12	112185160	112185160	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaggacagcttctatgTcataaacggtcacaaatggt	14	9	11	7	1	3	1	2	0	1	1	3	3	3	3	0	4	2	1	0	4	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:112185160T>C	uc001tsq.2	+	16	2656	c.2456T>C	c.(2455-2457)GTC>GCC	p.V819A	ACAD10_uc001tsp.2_Missense_Mutation_p.V819A|ACAD10_uc009zvx.2_Missense_Mutation_p.V850A|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	819							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						AGCTTCTATGTCATAAACGGT	0.498													3	166					0	0	0.004672	0	0		C	112185160	C	C	112185160	3	2	1	1	0	0	0	0	1	0	0	0	108	1667	58	3	2611	3	ACAD10	12	112185160	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1831909	112185160	21666735	905	905											
PTPN11	5781	broad.mit.edu	37	chr12	112926270	112926270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaattggccggacagggaCgttcattgtgattgatattc	9	13	13	6	2	1	2	1	2	0	0	2	5	1	5	1	4	0	1	1	4	2	6	rs121918457		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:112926270C>T	uc001ttx.2	+	12	1783	c.1403C>T	c.(1402-1404)ACG>ATG	p.T468M		NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	472	Tyrosine-protein phosphatase.		T -> M (in LEOPARD1).		axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding			haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						CGGACAGGGACGTTCATTGTG	0.443			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				15	146					0	0	0.00245	0	0		T	112926270	T	T	112926270	3	4	1	1	0	0	0	0	1	0	0	0	12803	536	19	1	1449	1	PTPN11	12	112926270	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	741110	112926270	20925625	906	906											
DTX1	1840	broad.mit.edu	37	chr12	113515274	113515274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctacgacccgtcgtcggCgccgggcaagggcatcgtgt	5	8	14	14	7	1	0	0	0	1	0	4	1	1	0	2	3	1	2	2	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:113515274C>T	uc001tuk.1	+	2	641	c.305C>T	c.(304-306)GCG>GTG	p.A102V		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	102	WWE 2.				negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						CCGTCGTCGGCGCCGGGCAAG	0.652													7	26					0	0	0.001984	0	0		T	113515274	T	T	113515274	3	4	1	1	0	0	0	0	1	0	0	0	4799	768	27	1	311	1	DTX1	12	113515274	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	589004	113515274	20336621	907	907											
RNFT2	84900	broad.mit.edu	37	chr12	117204721	117204721	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcagctgtacaacaggTgagcatgggaatccaacccc	12	5	10	14	0	0	1	0	1	0	0	1	2	1	2	4	2	6	4	4	2	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:117204721T>C	uc009zwn.2	+	6	961	c.728_splice	c.e6+2	p.S243_splice	RNFT2_uc001twb.3_Splice_Site_p.S243_splice|RNFT2_uc001twa.3_Splice_Site_p.S153_splice|RNFT2_uc001twc.3_Splice_Site	NM_001109903	NP_001103373	Q96EX2	RNFT2_HUMAN	transmembrane protein 118 isoform 1							integral to membrane	zinc ion binding				0	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.034)		GTACAACAGGTGAGCATGGGA	0.552													3	15					0	0	0.004672	0	0		C	117204721	C	C	117204721	5	2	1	1	0	0	0	0	0	0	1	0	13527	1710	59	3	748	3	RNFT2	12	117204721	Splice_Site	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3689447	117204721	16647174	908	908											
RNF34	80196	broad.mit.edu	37	chr12	121858580	121858580	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaagaaaaccaaaagtcCtgtaggtttatcttttcatt	15	14	6	6	0	2	2	1	1	1	1	3	2	3	2	2	1	1	2	2	1	8	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:121858580C>A	uc001ual.1	+	5	1041	c.927C>A	c.(925-927)TCC>TCA	p.S309S	RNF34_uc001uak.1_Silent_p.S310S|RNF34_uc001uam.1_Silent_p.S309S	NM_025126	NP_079402	Q969K3	RNF34_HUMAN	ring finger protein 34 isoform 2	309					apoptosis	endomembrane system|membrane|nuclear speck	ligase activity|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000432)|Epithelial(86;0.00233)		ACCAAAAGTCCTGTAGGTTTA	0.328													16	101					2.31682e-05	2.47226e-05	0.003163	1	0		A	121858580	A	A	121858580	2	1	1	1	0	0	0	0	0	0	0	1	13514	695	24	5		5	RNF34	12	121858580	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4653859	121858580	11993315	909	909											
LRRC43	254050	broad.mit.edu	37	chr12	122684857	122684857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctggcggggaccaccGtgaccatcgtggaggagaag	8	6	16	11	3	0	2	0	1	0	1	2	5	1	4	4	5	1	1	4	5	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:122684857G>A	uc009zxm.2	+	8	1496	c.1471G>A	c.(1471-1473)GTG>ATG	p.V491M	LRRC43_uc001ubw.3_Missense_Mutation_p.V306M|LRRC43_uc009zxn.2_Missense_Mutation_p.V252M	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	491											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		GGGGACCACCGTGACCATCGT	0.642													8	53					0	0	0.001368	0	0		A	122684857	A	A	122684857	3	1	1	1	0	0	0	0	1	0	0	0	9019	1145	40	1	1501	1	LRRC43	12	122684857	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	826277	122684857	11167038	910	910											
KNTC1	9735	broad.mit.edu	37	chr12	123105091	123105091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatatccagttagaacttcCggcttttgcattagcttgtc	8	16	8	9	1	0	1	0	0	0	1	3	1	2	1	2	1	3	5	2	1	5	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:123105091C>T	uc001ucv.2	+	60	6378	c.6215C>T	c.(6214-6216)CCG>CTG	p.P2072L	KNTC1_uc010taf.1_Missense_Mutation_p.P997L|GPR81_uc001ucw.1_RNA	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	2072					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		TTAGAACTTCCGGCTTTTGCA	0.458													7	44					0	0	0.001984	0	0		T	123105091	T	T	123105091	3	4	1	1	0	0	0	0	1	0	0	0	8444	652	23	1	6449	1	KNTC1	12	123105091	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	420234	123105091	10746804	911	911											
GPR81	27198	broad.mit.edu	37	chr12	123214587	123214587	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaaggaacacgatgctcccGgccctgttcatggccaacgt	9	8	11	13	3	1	0	1	0	0	0	2	2	2	1	3	3	3	3	3	3	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:123214587G>A	uc001ucz.2	-	1	543	c.300C>T	c.(298-300)GCC>GCT	p.A100A	GPR81_uc001ucw.1_RNA	NM_032554	NP_115943	Q9BXC0	HCAR1_HUMAN	G protein-coupled receptor 81	100	Helical; Name=3; (Potential).				response to estradiol stimulus	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.14e-05)|Epithelial(86;3.25e-05)|BRCA - Breast invasive adenocarcinoma(302;0.197)		CGATGCTCCCGGCCCTGTTCA	0.597													5	34					0	0	0.004482	0	0		A	123214587	A	A	123214587	2	1	1	1	0	0	0	0	0	0	0	1	6726	1103	39	1		1	GPR81	12	123214587	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	109496	123214587	10637308	912	912											
NCOR2	9612	broad.mit.edu	37	chr12	124821440	124821440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttcgcaggggtgcgggCgatggtggcgtggccagaga	5	8	20	8	4	1	1	0	0	1	1	2	3	1	1	1	6	1	2	1	6	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:124821440C>T	uc010tay.1	-	40	6160	c.6004G>A	c.(6004-6006)GCC>ACC	p.A2002T	NCOR2_uc010taz.1_Missense_Mutation_p.A1986T|NCOR2_uc010tax.1_Missense_Mutation_p.A113T	NM_006312	NP_006303	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 1	2003					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GGGGTGCGGGCGATGGTGGCG	0.736													4	25					0	0	0.009096	0	0		T	124821440	T	T	124821440	3	4	1	1	0	0	0	0	1	0	0	0	10255	768	27	1	1610	1	NCOR2	12	124821440	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1606853	124821440	9030455	913	913											
DHX37	57647	broad.mit.edu	37	chr12	125432653	125432653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtttttcttccaagcaGccagcaaggcttcatggcag	8	11	12	10	0	2	0	1	0	1	0	3	0	3	0	2	4	3	5	2	4	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:125432653G>A	uc001ugy.2	-	26	3464	c.3365C>T	c.(3364-3366)GCT>GTT	p.A1122V	DHX37_uc001ugz.1_Missense_Mutation_p.A209V	NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	1122							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		CTTCCAAGCAGCCAGCAAGGC	0.597													3	64					0	0	0.004672	0	0		A	125432653	A	A	125432653	3	1	1	1	0	0	0	0	1	0	0	0	4516	971	34	2	116	2	DHX37	12	125432653	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	611213	125432653	8419242	914	914											
FZD10	11211	broad.mit.edu	37	chr12	130648814	130648814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggagaagctcatggtgCgtatcgggctcttctctgtg	6	12	14	9	2	3	1	1	0	2	1	5	2	3	1	0	3	3	4	0	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:130648814C>T	uc001uii.2	+	1	1783	c.1327C>T	c.(1327-1329)CGT>TGT	p.R443C	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	443	Cytoplasmic (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		GCTCATGGTGCGTATCGGGCT	0.582													7	48					0	0	0.00308	0	0		T	130648814	T	T	130648814	3	4	1	1	0	0	0	0	1	0	0	0	6143	768	27	1	1329	1	FZD10	12	130648814	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5216161	130648814	3203081	915	915											
GPR133	283383	broad.mit.edu	37	chr12	131490544	131490544	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccgtcgtgggtctgctgtAccacagcatgcactactacc	8	9	9	15	2	1	0	0	0	1	0	2	0	1	0	3	1	6	4	3	1	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:131490544A>G	uc001uit.3	+	12	1842	c.1283A>G	c.(1282-1284)TAC>TGC	p.Y428C	GPR133_uc010tbm.1_Missense_Mutation_p.Y460C	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	428	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		GGTCTGCTGTACCACAGCATG	0.632													8	47					0	0	0.004482	0	0		G	131490544	G	G	131490544	3	3	1	1	0	0	0	0	1	0	0	0	6658	391	14	3	1329	3	GPR133	12	131490544	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	841730	131490544	2361351	916	916											
EP400	57634	broad.mit.edu	37	chr12	132472386	132472386	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggagatgcagtggatggCcacagactttgcccaggaga	11	6	16	8	0	0	3	0	0	0	3	0	7	0	5	2	5	2	1	2	5	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:132472386C>A	uc001ujn.2	+	6	2395	c.2360C>A	c.(2359-2361)GCC>GAC	p.A787D	EP400_uc001ujl.2_Missense_Mutation_p.A786D|EP400_uc001ujm.2_Missense_Mutation_p.A787D|EP400_uc001ujj.1_Missense_Mutation_p.A750D|EP400_uc001ujk.2_Missense_Mutation_p.A823D	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	823	HSA.				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CAGTGGATGGCCACAGACTTT	0.617													5	30					0.00116845	0.00120824	0.001168	1	0		A	132472386	A	A	132472386	3	1	1	1	0	0	0	0	1	0	0	0	5157	739	26	5	2379	5	EP400	12	132472386	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	981842	132472386	1379509	917	917											
EP400	57634	broad.mit.edu	37	chr12	132490715	132490715	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacttggttctcatcgactcGcttttcatcatggatcagtt	7	16	8	10	2	4	0	4	0	1	0	7	3	4	1	0	2	0	3	0	2	0	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:132490715G>A	uc001ujn.2	+	13	3029	c.2994G>A	c.(2992-2994)TCG>TCA	p.S998S	EP400_uc001ujl.2_Silent_p.S997S|EP400_uc001ujm.2_Silent_p.S998S	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1034	Interactions with RUVBL1 and RUVBL2.				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		TCATCGACTCGCTTTTCATCA	0.522													11	65					0	0	0.010729	0	0		A	132490715	A	A	132490715	2	1	1	1	0	0	0	0	0	0	0	1	5157	1074	38	1		1	EP400	12	132490715	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	18329	132490715	1361180	918	918											
DDX51	317781	broad.mit.edu	37	chr12	132625272	132625272	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctgaggctgcagggcacGtagtggtgctacagggacgg	8	6	19	8	2	0	1	0	1	0	0	0	3	0	2	0	5	4	6	0	5	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr12:132625272G>A	uc001ujy.3	-	10	1488	c.1449C>T	c.(1447-1449)TAC>TAT	p.Y483Y		NM_175066	NP_778236	Q8N8A6	DDX51_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 51	483					rRNA processing	nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			lung(1)|pancreas(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.241)		OV - Ovarian serous cystadenocarcinoma(86;7.59e-08)|Epithelial(86;3.62e-07)|all cancers(50;2.13e-05)		TGCAGGGCACGTAGTGGTGCT	0.627													12	58					0	0	0.010729	0	0		A	132625272	A	A	132625272	2	1	1	1	0	0	0	0	0	0	0	1	4372	1140	40	1		1	DDX51	12	132625272	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	134557	132625272	1226623	919	919											
SKA3	221150	broad.mit.edu	37	chr13	21742240	21742240	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacacactcaaaatcatcCatttttagtgcacattttgg	12	15	5	9	0	2	0	2	0	0	0	3	0	3	0	1	1	2	2	1	1	4	6	rs147994613		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:21742240C>A	uc001unt.2	-	4	724	c.630G>T	c.(628-630)ATG>ATT	p.M210I	SKA3_uc001unv.2_Missense_Mutation_p.M128I|SKA3_uc001unu.2_Missense_Mutation_p.M210I	NM_145061	NP_659498	Q8IX90	SKA3_HUMAN	SKA3	210					cell division|chromosome segregation|mitosis|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytoplasm|spindle microtubule	protein binding				0						CAAAATCATCCATTTTTAGTG	0.343													37	402					1.08052e-11	1.21431e-11	0.004289	1	0		A	21742240	A	A	21742240	3	1	1	1	0	0	0	0	1	0	0	0	14379	594	21	5	679	5	SKA3	13	21742240	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08		21742240	93427638	920	920											
SACS	26278	broad.mit.edu	37	chr13	23913780	23913780	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggttccacagaatcttcaAgtaagtcattaaggtcatca	13	13	7	8	0	5	1	4	0	1	1	6	1	6	1	1	2	0	2	1	2	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:23913780A>G	uc001uon.2	-	10	4824	c.4235T>C	c.(4234-4236)CTT>CCT	p.L1412P	SACS_uc001uoo.2_Missense_Mutation_p.L1265P|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1412					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AGAATCTTCAAGTAAGTCATT	0.358													27	173					0	0	0.004656	0	0		G	23913780	G	G	23913780	3	3	1	1	0	0	0	0	1	0	0	0	13829	72	3	3	9508	3	SACS	13	23913780	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2171540	23913780	91256098	921	921											
RNF17	56163	broad.mit.edu	37	chr13	25370393	25370393	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggtgaatgaattttgcaaTaggagttcacaccttgatcc	13	12	9	7	0	1	3	1	3	0	0	2	4	2	4	2	2	1	2	2	2	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:25370393T>C	uc001upr.2	+	11	1400	c.1359T>C	c.(1357-1359)AAT>AAC	p.N453N	RNF17_uc010tdd.1_Silent_p.N312N|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Silent_p.N453N|RNF17_uc001ups.2_Silent_p.N392N|RNF17_uc001upq.1_3'UTR	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	453					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		AATTTTGCAATAGGAGTTCAC	0.308													23	172					0	0	0.002299	0	0		C	25370393	C	C	25370393	2	2	1	1	0	0	0	0	0	0	0	1	13486	1403	49	3		3	RNF17	13	25370393	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1456613	25370393	89799485	922	922											
POLR1D	51082	broad.mit.edu	37	chr13	28240022	28240022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttccgcgctcgaggttccGccagttactccccgccacga	5	8	10	18	6	0	0	0	0	0	0	4	2	3	0	6	1	1	4	6	1	1	3	rs141669019		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:28240022G>A	uc001urp.2	+	3	419	c.301G>A	c.(301-303)GCC>ACC	p.A101T	POLR1D_uc010aam.2_Missense_Mutation_p.A73T|POLR1D_uc001urq.2_RNA	NM_152705	NP_689918	Q9Y2S0	RPAC2_HUMAN	polymerase (RNA) I polypeptide D isoform 2	Error:Variant_position_missing_in_Q9Y2S0_after_alignment					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein dimerization activity				0		Lung SC(185;0.0161)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.0758)|OV - Ovarian serous cystadenocarcinoma(117;0.1)|Epithelial(112;0.213)		TCGAGGTTCCGCCAGTTACTC	0.612													10	70					0	0	0.006214	0	0		A	28240022	A	A	28240022	3	1	1	1	0	0	0	0	1	0	0	0	12231	1087	38	1	691	1	POLR1D	13	28240022	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2869629	28240022	86929856	923	923											
USPL1	10208	broad.mit.edu	37	chr13	31232078	31232078	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatacaggaattctcaaaAccaatactttgctatcacaa	19	10	3	9	0	2	0	2	0	1	0	3	1	2	1	1	1	4	1	1	1	10	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:31232078A>C	uc001utc.2	+	9	2296	c.1864A>C	c.(1864-1866)ACC>CCC	p.T622P	USPL1_uc001utd.2_Missense_Mutation_p.T293P|USPL1_uc001ute.1_Missense_Mutation_p.T293P	NM_005800	NP_005791	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	622					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			pancreas(2)|skin(1)	3		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0306)|Epithelial(112;0.131)|OV - Ovarian serous cystadenocarcinoma(117;0.134)		AATTCTCAAAACCAATACTTT	0.348													16	118					0	0	0.007413	0	0		C	31232078	C	C	31232078	3	2	1	1	0	0	0	0	1	0	0	0	17118	43	2	5	1894	5	USPL1	13	31232078	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2992056	31232078	83937800	924	924											
CSNK1A1L	122011	broad.mit.edu	37	chr13	37679304	37679304	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgatgcccagataaacGtctccaaaggagccagaccc	12	6	11	12	1	1	3	0	1	1	2	2	4	1	4	4	2	3	0	4	2	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:37679304G>A	uc001uwm.1	-	1	498	c.90C>T	c.(88-90)GAC>GAT	p.D30D		NM_145203	NP_660204	Q8N752	KC1AL_HUMAN	casein kinase 1, alpha 1-like	30	ATP (By similarity).|Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)	1		Lung NSC(96;7.97e-05)|Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.109)		all cancers(112;3.58e-07)|Epithelial(112;1.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00695)|BRCA - Breast invasive adenocarcinoma(63;0.0117)|GBM - Glioblastoma multiforme(144;0.0407)		CCAGATAAACGTCTCCAAAGG	0.537													30	133					0	0	0.002836	0	0		A	37679304	A	A	37679304	2	1	1	1	0	0	0	0	0	0	0	1	3954	1136	40	1		1	CSNK1A1L	13	37679304	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	6447226	37679304	77490574	925	925											
C13orf23	80209	broad.mit.edu	37	chr13	39585610	39585610	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggatagctttccagagcCgaagctgaatggacctgatg	10	9	13	9	1	0	3	0	2	0	1	1	6	1	5	3	2	3	3	3	2	3	2	rs138416326		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:39585610C>A	uc001uwy.2	-	13	3600	c.2727G>T	c.(2725-2727)TCG>TCT	p.S909S	C13orf23_uc001uwz.2_Silent_p.S887S	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	909										ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		TTTCCAGAGCCGAAGCTGAAT	0.507													11	76					0.000673444	0.000698975	0.008291	1	0		A	39585610	A	A	39585610	2	1	1	1	0	0	0	0	0	0	0	1	1724	639	23	5		5	C13orf23	13	39585610	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1906306	39585610	75584268	926	926											
C13orf23	80209	broad.mit.edu	37	chr13	39608303	39608303	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtatccatgcacatattcaaTtgcttttaatttgtattctg	10	19	5	7	0	2	0	1	0	1	0	3	0	3	0	1	0	2	4	1	0	5	9			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:39608303T>C	uc001uwy.2	-	2	949	c.76A>G	c.(76-78)ATT>GTT	p.I26V	C13orf23_uc001uwz.2_Intron	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	26										ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		ACATATTCAATTGCTTTTAAT	0.303													5	105					0	0	0.00308	0	0		C	39608303	C	C	39608303	3	2	1	1	0	0	0	0	1	0	0	0	1724	1493	52	3	2806	3	C13orf23	13	39608303	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	22693	39608303	75561575	927	927											
NHLRC3	387921	broad.mit.edu	37	chr13	39613801	39613801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acctcatggtatatttgcagCcagtactctatatgaacaat	13	13	6	9	0	2	1	1	1	1	0	2	1	2	1	2	1	4	3	2	1	7	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:39613801C>T	uc001uxc.2	+	3	660	c.338C>T	c.(337-339)GCC>GTC	p.A113V	C13orf23_uc001uwy.2_5'Flank|C13orf23_uc001uwz.2_5'Flank|NHLRC3_uc001uxa.1_Missense_Mutation_p.A113V|NHLRC3_uc001uxb.1_Missense_Mutation_p.A113V|NHLRC3_uc001uxd.2_Missense_Mutation_p.A113V|NHLRC3_uc001uxe.2_5'UTR	NM_001012754	NP_001012772	Q5JS37	NHLC3_HUMAN	NHL repeat containing 3 isoform a	113						extracellular region				skin(1)	1		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;2.37e-08)|Epithelial(112;3.14e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00101)|BRCA - Breast invasive adenocarcinoma(63;0.00335)|GBM - Glioblastoma multiforme(144;0.0128)		ATATTTGCAGCCAGTACTCTA	0.383													13	121					0	0	0.001855	0	0		T	39613801	T	T	39613801	3	4	1	1	0	0	0	0	1	0	0	0	10426	739	26	2	348	2	NHLRC3	13	39613801	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5498	39613801	75556077	928	928											
TSC22D1	8848	broad.mit.edu	37	chr13	45148680	45148680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagggtcacaccttggagagCtggttgttgctgttgttgtt	5	15	15	6	0	1	1	1	0	0	1	1	3	1	1	1	3	2	7	1	3	0	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:45148680C>T	uc001uzn.3	-	1	2022	c.1531G>A	c.(1531-1533)GCT>ACT	p.A511T	TSC22D1_uc001uzo.1_Missense_Mutation_p.A511T	NM_183422	NP_904358	Q15714	T22D1_HUMAN	TSC22 domain family, member 1 isoform 1	511	Gln-rich.				transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(4;8.74e-08)|Acute lymphoblastic leukemia(4;1.78e-07)|Lung NSC(96;2.21e-05)|Breast(139;0.000625)|Prostate(109;0.000947)|Hepatocellular(98;0.0202)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000522)|BRCA - Breast invasive adenocarcinoma(63;0.118)		CCTTGGAGAGCTGgttgttgc	0.398													23	187					0	0	0.00333	0	0		T	45148680	T	T	45148680	3	4	1	1	0	0	0	0	1	0	0	0	16633	797	28	2	1831	2	TSC22D1	13	45148680	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5534879	45148680	70021198	929	929											
RB1	5925	broad.mit.edu	37	chr13	49039361	49039361	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccctaccttgtcaccaatAcctcacattcctcgaagccc	9	9	3	20	1	2	0	2	0	0	0	4	1	3	0	7	0	3	0	7	0	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:49039361A>G	uc001vcb.2	+	23	2512	c.2346A>G	c.(2344-2346)ATA>ATG	p.I782M		NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	782	Interaction with LIMD1.|Domain C; mediates interaction with E4F1.				androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(7)|p.I782fs*28(1)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TGTCACCAATACCTCACATTC	0.378		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			41	288					0	0	0.009718	0	0		G	49039361	G	G	49039361	3	3	1	1	0	0	0	0	1	0	0	0	13123	381	14	3	2436	3	RB1	13	49039361	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	3890681	49039361	66130517	930	930											
RCBTB2	1102	broad.mit.edu	37	chr13	49084844	49084844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactgcccataagaattggCgccccaagcatacacttggc	12	7	8	14	1	0	1	0	0	0	1	0	1	0	1	3	2	4	1	3	2	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:49084844C>T	uc001vch.2	-	10	1218	c.847G>A	c.(847-849)GCC>ACC	p.A283T	RCBTB2_uc010tgg.1_Missense_Mutation_p.A288T|RCBTB2_uc001vci.2_Missense_Mutation_p.A259T|RCBTB2_uc010tgh.1_Intron|RCBTB2_uc001vcj.2_Intron|RCBTB2_uc010acv.1_RNA|RCBTB2_uc010tgi.1_Intron	NM_001268	NP_001259	O95199	RCBT2_HUMAN	regulator of chromosome condensation and BTB	283	RCC1 5.						Ran guanyl-nucleotide exchange factor activity			ovary(2)|lung(2)|skin(1)	5		all_cancers(8;4.86e-71)|all_epithelial(8;2.11e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;2.3e-10)|Lung NSC(96;1.07e-07)|Breast(56;1.53e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.00826)|Myeloproliferative disorder(33;0.0179)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(99;1.8e-09)|LUSC - Lung squamous cell carcinoma(3;0.116)		TAAGAATTGGCGCCCCAAGCA	0.473													19	111					0	0	0.008871	0	0		T	49084844	T	T	49084844	3	4	1	1	0	0	0	0	1	0	0	0	13197	768	27	1	832	1	RCBTB2	13	49084844	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	45483	49084844	66085034	931	931											
THSD1	55901	broad.mit.edu	37	chr13	52952823	52952823	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgatgagcacagtggcaaTgatgatgaacaagcacaagg	15	6	13	7	1	0	5	0	5	0	0	0	5	0	5	0	2	3	3	0	2	4	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:52952823T>C	uc001vgo.2	-	5	1827	c.1282A>G	c.(1282-1284)ATT>GTT	p.I428V	THSD1_uc001vgp.2_Missense_Mutation_p.I375V|THSD1_uc010tgz.1_Missense_Mutation_p.I49V|THSD1_uc010aea.2_5'UTR	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	428	Helical; (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		ACAGTGGCAATGATGATGAAC	0.562													7	73					0	0	0.00308	0	0		C	52952823	C	C	52952823	3	2	1	1	0	0	0	0	1	0	0	0	15902	1464	51	3	1280	3	THSD1	13	52952823	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3867979	52952823	62217055	932	932											
PCDH17	27253	broad.mit.edu	37	chr13	58208600	58208600	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgtttgagatcgacccGtccagcggcgagatccgcac	8	7	11	15	5	0	2	0	1	0	2	3	5	2	2	4	1	1	2	4	1	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:58208600G>A	uc001vhq.1	+	1	2812	c.1920G>A	c.(1918-1920)CCG>CCA	p.P640P	PCDH17_uc010aec.1_Silent_p.P640P	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	640	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		AGATCGACCCGTCCAGCGGCG	0.647													11	162					0	0	0.001368	0	0		A	58208600	A	A	58208600	2	1	1	1	0	0	0	0	0	0	0	1	11531	1132	40	1		1	PCDH17	13	58208600	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5255777	58208600	56961278	933	933											
PCDH9	5101	broad.mit.edu	37	chr13	67800109	67800109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaatgaccaccatggcacCggcgatgatggcaatcatga	14	6	10	11	2	1	3	1	3	0	0	1	4	1	3	3	3	1	2	3	3	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:67800109C>T	uc001vik.2	-	2	3156	c.2464G>A	c.(2464-2466)GGT>AGT	p.G822S	PCDH9_uc001vil.2_Missense_Mutation_p.G822S|PCDH9_uc010thl.1_Missense_Mutation_p.G822S|PCDH9_uc001vin.3_Missense_Mutation_p.G822S	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	822	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		ACCATGGCACCGGCGATGATG	0.527													35	266					0	0	0.003755	0	0		T	67800109	T	T	67800109	3	4	1	1	0	0	0	0	1	0	0	0	11537	652	23	1	1265	1	PCDH9	13	67800109	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	9591509	67800109	47369769	934	934											
PCDH9	5101	broad.mit.edu	37	chr13	67801921	67801921	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactttgattttcatcacatAggtatctttctgttctctat	8	21	4	8	0	5	1	2	1	3	0	6	1	5	1	0	1	1	2	0	1	4	9			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:67801921A>G	uc001vik.2	-	2	1344	c.652T>C	c.(652-654)TAT>CAT	p.Y218H	PCDH9_uc001vil.2_Missense_Mutation_p.Y218H|PCDH9_uc010thl.1_Missense_Mutation_p.Y218H|PCDH9_uc001vin.3_Missense_Mutation_p.Y218H	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	218	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		TTCATCACATAGGTATCTTTC	0.448													30	261					0	0	0.009535	0	0		G	67801921	G	G	67801921	3	3	1	1	0	0	0	0	1	0	0	0	11537	420	15	3	3077	3	PCDH9	13	67801921	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1812	67801921	47367957	935	935											
SLITRK5	26050	broad.mit.edu	37	chr13	88329745	88329745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaccagagcgaccacaccaGcaccaacaactccgacgtga	15	2	8	16	3	0	2	0	1	0	1	1	5	1	2	5	0	5	1	5	0	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:88329745G>A	uc001vln.2	+	2	2321	c.2102G>A	c.(2101-2103)AGC>AAC	p.S701N	SLITRK5_uc010tic.1_Missense_Mutation_p.S460N	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	701	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GACCACACCAGCACCAACAAC	0.632													10	56					0	0	0.006214	0	0		A	88329745	A	A	88329745	3	1	1	1	0	0	0	0	1	0	0	0	14771	971	34	2	2104	2	SLITRK5	13	88329745	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	20527824	88329745	26840133	936	936											
SLITRK5	26050	broad.mit.edu	37	chr13	88330384	88330384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagcaggctacgggaacCggtgctctacagccccccga	9	4	13	15	3	1	0	0	0	1	0	1	3	1	2	4	4	6	3	4	4	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:88330384C>T	uc001vln.2	+	2	2960	c.2741C>T	c.(2740-2742)CCG>CTG	p.P914L	SLITRK5_uc010tic.1_Missense_Mutation_p.P673L	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	914	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CTACGGGAACCGGTGCTCTAC	0.567													5	207					0	0	0.001984	0	0		T	88330384	T	T	88330384	3	4	1	1	0	0	0	0	1	0	0	0	14771	652	23	1	2743	1	SLITRK5	13	88330384	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	639	88330384	26839494	937	937											
SLITRK5	26050	broad.mit.edu	37	chr13	88330402	88330402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accggtgctctacagcccccCgagtgctgtctttgtagaac	7	10	10	14	2	2	1	0	0	2	1	2	2	2	1	4	1	5	3	4	1	3	3	rs139601648		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:88330402C>T	uc001vln.2	+	2	2978	c.2759C>T	c.(2758-2760)CCG>CTG	p.P920L	SLITRK5_uc010tic.1_Missense_Mutation_p.P679L	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	920	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					TACAGCCCCCCGAGTGCTGTC	0.542													5	212					0	0	0.000602	0	0		T	88330402	T	T	88330402	3	4	1	1	0	0	0	0	1	0	0	0	14771	652	23	1	2761	1	SLITRK5	13	88330402	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	18	88330402	26839476	938	938											
GPC6	10082	broad.mit.edu	37	chr13	94938667	94938667	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgagtcggtcatggacccGatagatgtcaagatttctga	11	12	11	7	2	3	4	2	2	1	2	4	6	3	5	1	2	0	0	1	2	2	3	rs138238361		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:94938667G>A	uc001vlt.2	+	5	1574	c.942G>A	c.(940-942)CCG>CCA	p.P314P	GPC6_uc010tig.1_Silent_p.P314P	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	314						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				TCATGGACCCGATAGATGTCA	0.418													4	72					0	0	0.000602	0	0		A	94938667	A	A	94938667	2	1	1	1	0	0	0	0	0	0	0	1	6617	1045	37	1		1	GPC6	13	94938667	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	6608265	94938667	20231211	939	939											
FARP1	10160	broad.mit.edu	37	chr13	99047705	99047705	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gataggacccagcagagtaaAcctcagcccccgcagccaag	13	3	10	15	1	1	1	1	0	0	1	1	3	1	2	5	1	4	3	5	1	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:99047705A>G	uc001vnj.2	+	13	1725	c.1389A>G	c.(1387-1389)AAA>AAG	p.K463K	FARP1_uc001vnh.2_Silent_p.K463K	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	463					regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			AGCAGAGTAAACCTCAGCCCC	0.612													8	95					0	0	0.004482	0	0		G	99047705	G	G	99047705	2	3	1	1	0	0	0	0	0	0	0	1	5690	40	2	3		3	FARP1	13	99047705	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	4109038	99047705	16122173	940	940											
NALCN	259232	broad.mit.edu	37	chr13	101733934	101733934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcgacgtcaccaggagatCgtatcggtttcttctgcttt	8	13	10	10	4	3	1	1	0	2	1	5	3	3	1	1	2	2	3	1	2	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:101733934C>T	uc001vox.1	-	34	4018	c.3829G>A	c.(3829-3831)GAT>AAT	p.D1277N		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1277	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					ACCAGGAGATCGTATCGGTTT	0.448													11	99					0	0	0.003163	0	0		T	101733934	T	T	101733934	3	4	1	1	0	0	0	0	1	0	0	0	10166	884	31	1	1431	1	NALCN	13	101733934	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2686229	101733934	13435944	941	941											
MYO16	23026	broad.mit.edu	37	chr13	109496835	109496835	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagcggttccaccaaaccCgagcaggtaatcatgctttc	11	9	9	12	2	1	1	1	1	0	0	3	2	2	1	3	2	4	4	3	2	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:109496835C>T	uc001vqt.1	+	10	1302	c.1176C>T	c.(1174-1176)CCC>CCT	p.P392P	MYO16_uc010agk.1_Silent_p.P414P|MYO16_uc001vqu.1_Silent_p.P192P	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	392					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			CCACCAAACCCGAGCAGGTAA	0.388													7	80					0	0	0.004482	0	0		T	109496835	T	T	109496835	2	4	1	1	0	0	0	0	0	0	0	1	10082	639	23	1		1	MYO16	13	109496835	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	7762901	109496835	5673043	942	942											
MYO16	23026	broad.mit.edu	37	chr13	109535430	109535430	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagctgtatttcagctcCtcagggaagctgtgttcctc	6	13	9	13	0	2	0	2	0	0	0	6	1	5	1	3	1	3	5	3	1	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:109535430C>A	uc001vqt.1	+	13	1509	c.1383C>A	c.(1381-1383)TCC>TCA	p.S461S	MYO16_uc010agk.1_Silent_p.S483S|MYO16_uc001vqu.1_Silent_p.S261S	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	461	Myosin head-like 1.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			ATTTCAGCTCCTCAGGGAAGC	0.547													72	246					1.77355e-41	2.04971e-41	0.00361	1	0		A	109535430	A	A	109535430	2	1	1	1	0	0	0	0	0	0	0	1	10082	668	24	5		5	MYO16	13	109535430	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	38595	109535430	5634448	943	943											
CUL4A	8451	broad.mit.edu	37	chr13	113909114	113909114	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatggccacggggataggTacgaaaactgcagagtgcat	15	6	13	7	2	0	1	0	0	0	1	0	3	0	2	1	4	4	3	1	4	6	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr13:113909114T>C	uc010tjy.1	+	18	1869	c.1858_splice	c.e18+2	p.E620_splice	CUL4A_uc010tjx.1_Splice_Site_p.E520_splice|CUL4A_uc010agu.2_Splice_Site_p.E481_splice|CUL4A_uc010tjz.1_Splice_Site_p.E299_splice	NM_001008895	NP_001008895	Q13619	CUL4A_HUMAN	cullin 4A isoform 1						cell cycle arrest|DNA repair|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	ubiquitin protein ligase binding			central_nervous_system(2)|skin(1)	3	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.112)			CGGGGATAGGTACGAAAACTG	0.438													15	130					0	0	0.00499	0	0		C	113909114	C	C	113909114	5	2	1	1	0	0	0	0	0	0	1	0	4060	1652	57	3	1926	3	CUL4A	13	113909114	Splice_Site	SNP	T	TCGA-B7-5816-01A-21D-1600-08	4373684	113909114	1260764	944	944											
OR4K15	81127	broad.mit.edu	37	chr14	20443857	20443857	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattttcactactttatctAgcaattctgttgggcaactt	10	17	5	9	0	3	0	1	0	2	0	3	0	3	0	0	1	3	3	0	1	5	9			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:20443857A>G	uc010tkx.1	+	1	180	c.180A>G	c.(178-180)CTA>CTG	p.L60L		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	60	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TACTTTATCTAGCAATTCTGT	0.433													43	298					0	0	0.007835	0	0		G	20443857	G	G	20443857	2	3	1	1	0	0	0	0	0	0	0	1	11089	407	15	3		3	OR4K15	14	20443857	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08		20443857	86905683	945	945											
CHD8	57680	broad.mit.edu	37	chr14	21883898	21883898	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttaccacaaagaactgcaTggaaggcaaagtctcgccat	14	7	9	11	1	1	1	0	0	1	1	2	2	1	2	2	2	3	3	2	2	5	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:21883898T>C	uc001was.1	-	6	1142	c.1048A>G	c.(1048-1050)ATG>GTG	p.M350V	CHD8_uc001war.1_Missense_Mutation_p.M246V	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	629					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		AAGAACTGCATGGAAGGCAAA	0.453													9	131					0	0	0.004482	0	0		C	21883898	C	C	21883898	3	2	1	1	0	0	0	0	1	0	0	0	3334	1464	51	3	5992	3	CHD8	14	21883898	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1440041	21883898	85465642	946	946											
OR10G2	26534	broad.mit.edu	37	chr14	22102296	22102296	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcgcctcccatcagcggTgcgtatcttcaggatggcat	6	9	12	14	4	3	0	2	0	1	0	4	1	4	1	3	4	2	2	3	4	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:22102296T>C	uc010tmc.1	-	1	703	c.703A>G	c.(703-705)ACC>GCC	p.T235A		NM_001005466	NP_001005466	Q8NGC3	O10G2_HUMAN	olfactory receptor, family 10, subfamily G,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(95;0.00113)	Acute lymphoblastic leukemia(2;0.0279)		GBM - Glioblastoma multiforme(265;0.0142)		CCATCAGCGGTGCGTATCTTC	0.542													5	47					0	0	0.000602	0	0		C	22102296	C	C	22102296	3	2	1	1	0	0	0	0	1	0	0	0	10918	1696	59	3	232	3	OR10G2	14	22102296	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	218398	22102296	85247244	947	947											
SLC7A7	9056	broad.mit.edu	37	chr14	23243598	23243598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgatcaggctccttccagcGcagataaagctgacccacaa	12	7	8	14	2	1	2	1	1	0	1	4	3	3	2	3	1	2	3	3	1	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:23243598G>A	uc001wgr.3	-	8	1348	c.1210C>T	c.(1210-1212)CGC>TGC	p.R404C	SLC7A7_uc001wgs.3_Missense_Mutation_p.R404C|SLC7A7_uc001wgt.3_Missense_Mutation_p.R404C|SLC7A7_uc001wgu.3_Missense_Mutation_p.R404C|SLC7A7_uc001wgv.3_Missense_Mutation_p.R404C	NM_003982	NP_003973	Q9UM01	YLAT1_HUMAN	solute carrier family 7 member 7	404					blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity			ovary(1)|breast(1)	2	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.00741)		TCCTTCCAGCGCAGATAAAGC	0.502													35	272					0	0	0.004289	0	0		A	23243598	A	A	23243598	3	1	1	1	0	0	0	0	1	0	0	0	14728	1087	38	1	337	1	SLC7A7	14	23243598	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1141302	23243598	84105942	948	948											
RBM23	55147	broad.mit.edu	37	chr14	23374315	23374315	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctcacctgtgaagcctgTacaatgataggcactcccag	10	9	9	13	0	1	2	1	2	0	0	2	2	2	2	3	1	3	3	3	1	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:23374315T>C	uc001whg.2	-	8	913	c.714A>G	c.(712-714)GTA>GTG	p.V238V	RBM23_uc001whh.2_Silent_p.V222V|RBM23_uc001whi.2_Silent_p.V204V|RBM23_uc010tne.1_Silent_p.V68V|RBM23_uc001whj.2_5'UTR|RBM23_uc001whk.1_Silent_p.V238V	NM_001077351	NP_001070819	Q86U06	RBM23_HUMAN	RNA binding motif protein 23 isoform 1	238	RRM 1.				mRNA processing	nucleus	nucleotide binding|RNA binding			skin(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.0128)		GTGAAGCCTGTACAATGATAG	0.522													13	71					0	0	0.001855	0	0		C	23374315	C	C	23374315	2	2	1	1	0	0	0	0	0	0	0	1	13148	1625	57	3		3	RBM23	14	23374315	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	130717	23374315	83975225	949	949											
PABPN1	8106	broad.mit.edu	37	chr14	23793252	23793252	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagtccctatttagaggaagGcaaatcaaggtaagcctatg	14	9	11	7	0	1	1	1	0	0	1	2	3	2	2	2	3	1	2	2	3	7	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:23793252G>A	uc001wjk.2	+	5	2002	c.720G>A	c.(718-720)AGG>AGA	p.R240R	PABPN1_uc001wjh.3_Silent_p.R267R|PABPN1_uc001wjj.2_Silent_p.R240R	NM_004643	NP_004634	Q86U42	PABP2_HUMAN	poly(A) binding protein, nuclear 1	240	Necessary for homooligomerization.|RRM.				modification by virus of host mRNA processing|mRNA 3'-end processing|muscle contraction|nuclear mRNA splicing, via spliceosome|poly(A)+ mRNA export from nucleus|termination of RNA polymerase II transcription|viral infectious cycle	cytoplasm|nucleoplasm|ribonucleoprotein complex	nucleotide binding|protein binding|RNA binding			ovary(2)	2	all_cancers(95;6.69e-06)			GBM - Glioblastoma multiforme(265;0.00643)		TTAGAGGAAGGCAAATCAAGG	0.408													10	107					0	0	0.006214	0	0		A	23793252	A	A	23793252	2	1	1	1	0	0	0	0	0	0	0	1	11387	1194	42	2		2	PABPN1	14	23793252	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	418937	23793252	83556288	950	950											
MYH6	4624	broad.mit.edu	37	chr14	23853710	23853710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgcccttcaccgactctgCgttgcgcttctgctcggcct	3	12	9	17	4	3	0	1	0	2	0	4	1	3	0	3	1	4	3	3	1	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:23853710C>T	uc001wjv.2	-	36	5573	c.5506G>A	c.(5506-5508)GCA>ACA	p.A1836T		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1836	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		ACCGACTCTGCGTTGCGCTTC	0.632													16	154					0	0	0.007413	0	0		T	23853710	T	T	23853710	3	4	1	1	0	0	0	0	1	0	0	0	10056	768	27	1	329	1	MYH6	14	23853710	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	60458	23853710	83495830	951	951											
MYH7	4625	broad.mit.edu	37	chr14	23898214	23898214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcctatgaagtactggcGtggctgcttggtctccaggg	6	11	14	10	1	1	1	0	1	1	0	3	2	2	1	2	4	2	3	2	4	3	3	rs121913625		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:23898214G>A	uc001wjx.2	-	14	1463	c.1357C>T	c.(1357-1359)CGC>TGC	p.R453C		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	453	Myosin head-like.		R -> C (in CMH1).|R -> H (in CMH1).		adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		AAGTACTGGCGTGGCTGCTTG	0.557													5	91					0	0	0.000602	0	0		A	23898214	A	A	23898214	3	1	1	1	0	0	0	0	1	0	0	0	10057	1145	40	1	4558	1	MYH7	14	23898214	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	44504	23898214	83451326	952	952											
LTB4R2	56413	broad.mit.edu	37	chr14	24780927	24780927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggtgggatggagaaggacGgtccggaatgggacctttga	9	7	20	5	2	0	2	0	1	0	1	1	7	1	6	2	8	0	0	2	8	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:24780927G>A	uc001woq.1	+	1	2767	c.1150G>A	c.(1150-1152)GGT>AGT	p.G384S	CIDEB_uc001woo.2_5'Flank|CIDEB_uc001wop.2_5'Flank|LTB4R2_uc001wor.2_Missense_Mutation_p.G353S|LTB4R_uc001wos.2_5'UTR|LTB4R_uc010alp.2_5'Flank|LTB4R_uc001wou.2_5'Flank	NM_019839	NP_062813	Q9NPC1	LT4R2_HUMAN	leukotriene B4 receptor 2	384	Cytoplasmic (Potential).				chemotaxis|negative regulation of adenylate cyclase activity	integral to plasma membrane					0				GBM - Glioblastoma multiforme(265;0.018)		GGAGAAGGACGGTCCGGAATG	0.632													8	33					0	0	0.004482	0	0		A	24780927	A	A	24780927	3	1	1	1	0	0	0	0	1	0	0	0	9090	1116	39	1	1059	1	LTB4R2	14	24780927	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	882713	24780927	82568613	953	953											
NYNRIN	57523	broad.mit.edu	37	chr14	24884853	24884853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttcttccaggttctgccgCctttctctgacctgtccacg	3	14	8	16	2	3	1	0	1	3	0	6	1	5	1	5	1	1	2	5	1	0	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:24884853C>T	uc001wpf.3	+	9	4216	c.3898C>T	c.(3898-3900)CCT>TCT	p.P1300S		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	1300					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						GGTTCTGCCGCCTTTCTCTGA	0.607													21	190					0	0	0.012319	0	0		T	24884853	T	T	24884853	3	4	1	1	0	0	0	0	1	0	0	0	10815	739	26	2	3928	2	NYNRIN	14	24884853	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	103926	24884853	82464687	954	954											
GZMH	2999	broad.mit.edu	37	chr14	25075943	25075943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacacacgaggggcccccCggagtccccctgtgaacaga	9	5	11	16	2	0	2	0	1	0	1	1	4	1	3	5	3	2	0	5	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:25075943C>T	uc001wpr.1	-	5	652	c.607G>A	c.(607-609)GGG>AGG	p.G203R	GZMH_uc010aly.1_Missense_Mutation_p.G117R|GZMH_uc010alz.1_Silent_p.P71P	NM_033423	NP_219491	P20718	GRAH_HUMAN	granzyme H precursor	203	Peptidase S1.				apoptosis|cytolysis|proteolysis	cytoplasm	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(265;0.0267)		AGGGGCCCCCCGGAGTCCCCC	0.532													8	131					0	0	0.008291	0	0		T	25075943	T	T	25075943	3	4	1	1	0	0	0	0	1	0	0	0	6933	652	23	1	137	1	GZMH	14	25075943	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	191090	25075943	82273597	955	955											
GZMB	3002	broad.mit.edu	37	chr14	25101617	25101617	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagggataaactgctgggtCggctcctgttctttgatatt	8	14	11	8	1	1	1	0	1	1	0	3	2	2	2	1	3	2	3	1	3	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:25101617C>T	uc001wps.2	-	3	318	c.252G>A	c.(250-252)CCG>CCA	p.P84P	GZMB_uc010ama.2_Silent_p.P72P|GZMB_uc010amb.2_Intron	NM_004131	NP_004122	P10144	GRAB_HUMAN	granzyme B precursor	84	Peptidase S1.				activation of pro-apoptotic gene products|cleavage of lamin|cytolysis|induction of apoptosis by intracellular signals	cytosol|immunological synapse|nucleus	protein binding|serine-type endopeptidase activity				0				GBM - Glioblastoma multiforme(265;0.028)		ACTGCTGGGTCGGCTCCTGTT	0.527													5	90					0	0	0.002299	0	0		T	25101617	T	T	25101617	2	4	1	1	0	0	0	0	0	0	0	1	6932	871	31	1		1	GZMB	14	25101617	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	25674	25101617	82247923	956	956											
FAM179B	23116	broad.mit.edu	37	chr14	45433605	45433605	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaaaaaataaattaccaTgggaaaatgagcaacctgga	21	6	9	5	0	0	1	0	1	0	0	0	4	0	4	2	3	3	1	2	3	10	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:45433605T>C	uc001wvv.2	+	1	2190	c.1981T>C	c.(1981-1983)TGG>CGG	p.W661R	FAM179B_uc001wvw.2_Missense_Mutation_p.W661R|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Missense_Mutation_p.W661R|FAM179B_uc001wvu.2_Missense_Mutation_p.W661R	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	661							binding			skin(2)|upper_aerodigestive_tract(1)	3						TAAATTACCATGGGAAAATGA	0.423													8	73					0	0	0.00308	0	0		C	45433605	C	C	45433605	3	2	1	1	0	0	0	0	1	0	0	0	5517	1464	51	3	1983	3	FAM179B	14	45433605	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	20331988	45433605	61915935	957	957											
TRIM9	114088	broad.mit.edu	37	chr14	51444057	51444057	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtcggggactgggagcccGgtgtgcagcgtgacctgggg	6	6	20	9	3	0	1	0	1	0	0	1	3	0	3	2	6	3	1	2	6	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:51444057G>A	uc001wyx.3	-	10	2850	c.2085C>T	c.(2083-2085)ACC>ACT	p.T695T		NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	695	B30.2/SPRY.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					CTGGGAGCCCGGTGTGCAGCG	0.597													3	58					0	0	0.004672	0	0		A	51444057	A	A	51444057	2	1	1	1	0	0	0	0	0	0	0	1	16575	1103	39	1		1	TRIM9	14	51444057	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	6010452	51444057	55905483	958	958											
SLC35F4	341880	broad.mit.edu	37	chr14	58060660	58060660	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtcacccacatacctgAtctgttctgtctctcaactc	8	12	7	14	0	5	1	2	1	3	0	7	2	5	2	2	2	2	1	2	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:58060660A>T	uc001xdb.1	-	2	394	c.394T>A	c.(394-396)TCA>ACA	p.S132T	SLC35F4_uc010aoz.1_RNA|SLC35F4_uc010apa.1_5'UTR	NM_001080455	NP_001073924			solute carrier family 35, member F4											ovary(2)	2						CACATACCTGATCTGTTCTGT	0.448													8	79					0	0	0.00308	0	0		T	58060660	T	T	58060660	3	4	1	1	0	0	0	0	1	0	0	0	14616	333	12	5	1199	5	SLC35F4	14	58060660	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	6616603	58060660	49288880	959	959											
KIAA0586	9786	broad.mit.edu	37	chr14	58915174	58915174	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccctaatcttggtagctgTaatccatctttatataacac	12	14	4	11	0	2	0	0	0	2	0	3	0	3	0	2	1	2	3	2	1	6	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:58915174T>C	uc001xdv.3	+	7	1197	c.924T>C	c.(922-924)TGT>TGC	p.C308C	KIAA0586_uc010trr.1_Silent_p.C349C|KIAA0586_uc001xdt.3_Silent_p.C264C|KIAA0586_uc001xdu.3_Silent_p.C293C|KIAA0586_uc010trs.1_Silent_p.C223C|KIAA0586_uc010trt.1_Silent_p.C168C|KIAA0586_uc010tru.1_Silent_p.C168C	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	308										ovary(1)	1						TTGGTAGCTGTAATCCATCTT	0.368													8	110					0	0	0.004482	0	0		C	58915174	C	C	58915174	2	2	1	1	0	0	0	0	0	0	0	1	8202	1644	57	3		3	KIAA0586	14	58915174	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	854514	58915174	48434366	960	960											
RTN1	6252	broad.mit.edu	37	chr14	60213155	60213155	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttccccatcttttgatgTtgttgagaaggtgtggtcca	6	16	10	9	0	1	2	0	2	1	1	4	3	4	2	4	2	0	2	4	2	1	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:60213155T>C	uc001xen.1	-	2	495	c.286A>G	c.(286-288)ACA>GCA	p.T96A		NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	96					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		TCTTTTGATGTTGTTGAGAAG	0.468													6	68					0	0	0.001984	0	0		C	60213155	C	C	60213155	3	2	1	1	0	0	0	0	1	0	0	0	13750	1725	60	3	2141	3	RTN1	14	60213155	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1297981	60213155	47136385	961	961											
HIF1A	3091	broad.mit.edu	37	chr14	62213706	62213706	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaagtggattaccacagcTgaccagttatgattgtgaag	13	11	11	6	0	0	4	0	4	0	0	0	5	0	5	2	1	2	2	2	1	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:62213706T>C	uc001xfq.2	+	15	2788	c.2384T>C	c.(2383-2385)CTG>CCG	p.L795P	HIF1A_uc001xfr.2_3'UTR|HIF1A_uc001xfs.2_Missense_Mutation_p.L796P	NM_001530	NP_001521	Q16665	HIF1A_HUMAN	hypoxia-inducible factor 1, alpha subunit	795	CTAD.			L->A: Inhibits interaction with EP300 and transactivation activity.	cellular response to hypoxia|collagen metabolic process|connective tissue replacement involved in inflammatory response wound healing|elastin metabolic process|epithelial to mesenchymal transition|oxygen homeostasis|positive regulation of chemokine production|positive regulation of epithelial cell migration|positive regulation of hormone biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|regulation of transforming growth factor-beta2 production	cytoplasm|nucleolus|transcription factor complex	histone acetyltransferase binding|Hsp90 protein binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			kidney(3)|lung(1)	4				OV - Ovarian serous cystadenocarcinoma(108;1.62e-09)|BRCA - Breast invasive adenocarcinoma(234;0.189)		TTACCACAGCTGACCAGTTAT	0.373													11	198					0	0	0.008291	0	0		C	62213706	C	C	62213706	3	2	1	1	0	0	0	0	1	0	0	0	7119	1580	55	3	2442	3	HIF1A	14	62213706	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2000551	62213706	45135834	962	962											
SYNE2	23224	broad.mit.edu	37	chr14	64679610	64679610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcagctgattcagaagagcGagcccctggatgctgtgctg	9	8	14	10	1	1	3	1	1	0	2	1	5	1	4	2	1	6	4	2	1	1	1	rs34990313		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:64679610G>A	uc001xgm.2	+	105	19173	c.18943G>A	c.(18943-18945)GAG>AAG	p.E6315K	SYNE2_uc001xgl.2_Missense_Mutation_p.E6315K|SYNE2_uc010apy.2_Missense_Mutation_p.E2700K|SYNE2_uc001xgn.2_Missense_Mutation_p.E1277K|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.E285K|SYNE2_uc001xgq.2_Missense_Mutation_p.E680K|SYNE2_uc001xgr.2_Missense_Mutation_p.E98K|SYNE2_uc010tsi.1_5'Flank|SYNE2_uc001xgs.2_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6315	Spectrin 8.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TCAGAAGAGCGAGCCCCTGGA	0.527													8	111					0	0	0.006214	0	0		A	64679610	A	A	64679610	3	1	1	1	0	0	0	0	1	0	0	0	15471	1059	37	1	19357	1	SYNE2	14	64679610	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2465904	64679610	42669930	963	963											
ZFYVE26	23503	broad.mit.edu	37	chr14	68249834	68249834	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctctgcagccagaggCacctccctgcggccacgaag	8	5	11	17	2	1	1	0	0	1	1	2	2	2	1	5	2	4	3	5	2	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:68249834C>T	uc001xka.2	-	21	4174	c.4035G>A	c.(4033-4035)GTG>GTA	p.V1345V	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Silent_p.V1345V	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1345					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		CAGCCAGAGGCACCTCCCTGC	0.622													12	92					0	0	0.001368	0	0		T	68249834	T	T	68249834	2	4	1	1	0	0	0	0	0	0	0	1	17693	697	25	2		2	ZFYVE26	14	68249834	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3570224	68249834	39099706	964	964											
ACTN1	87	broad.mit.edu	37	chr14	69369233	69369233	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtggtagaagctagacacGtaagtcatgatggctttctc	10	11	12	8	2	2	3	1	1	1	2	3	3	2	3	0	2	1	4	0	2	4	4	rs149168564	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:69369233G>A	uc001xkl.2	-	8	1033	c.723C>T	c.(721-723)TAC>TAT	p.Y241Y	ACTN1_uc010ttb.1_Silent_p.Y176Y|ACTN1_uc001xkm.2_Silent_p.Y241Y|ACTN1_uc001xkn.2_Silent_p.Y241Y|ACTN1_uc001xko.1_Silent_p.Y176Y|ACTN1_uc010ttd.1_Silent_p.Y220Y	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	241	CH 2.|Actin-binding.				focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		AGCTAGACACGTAAGTCATGA	0.552													16	118					0	0	0.012319	0	0		A	69369233	A	A	69369233	2	1	1	1	0	0	0	0	0	0	0	1	204	1140	40	1		1	ACTN1	14	69369233	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1119399	69369233	37980307	965	965											
SFRS5	6430	broad.mit.edu	37	chr14	70237203	70237203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggatctcaaagatttcatgaGacaagctggggaagtaacgt	14	9	12	6	1	2	2	2	1	1	2	3	5	2	4	0	3	2	2	0	3	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:70237203G>A	uc001xll.2	+	7	1837	c.386G>A	c.(385-387)AGA>AAA	p.R129K	SFRS5_uc001xlm.2_RNA|SFRS5_uc001xln.1_3'UTR|SFRS5_uc001xlo.2_Missense_Mutation_p.R129K|SFRS5_uc001xlp.2_Missense_Mutation_p.R129K|SFRS5_uc001xlq.2_Missense_Mutation_p.R126K	NM_006925	NP_008856	Q13243	SRSF5_HUMAN	splicing factor, arginine/serine-rich 5	129	RRM 2.				mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|protein binding|RNA binding				0				all cancers(60;0.00144)|BRCA - Breast invasive adenocarcinoma(234;0.0132)|OV - Ovarian serous cystadenocarcinoma(108;0.0154)		GATTTCATGAGACAAGCTGGG	0.358													8	102					0	0	0.00308	0	0		A	70237203	A	A	70237203	3	1	1	1	0	0	0	0	1	0	0	0	14205	942	33	4	404	4	SFRS5	14	70237203	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	867970	70237203	37112337	966	966											
ESRRB	2103	broad.mit.edu	37	chr14	76928919	76928919	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacagctgcccggccaccaaCgagtgcgagatcaccaaacg	12	4	10	15	4	1	1	1	0	0	1	1	3	1	1	4	1	6	1	4	1	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:76928919C>T	uc001xsq.1	+	3	496	c.429C>T	c.(427-429)AAC>AAT	p.N143N	ESRRB_uc001xsr.2_Silent_p.N143N|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	143						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		CGGCCACCAACGAGTGCGAGA	0.632													9	46					0	0	0.006214	0	0		T	76928919	T	T	76928919	2	4	1	1	0	0	0	0	0	0	0	1	5269	535	19	1		1	ESRRB	14	76928919	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	6691716	76928919	30420621	967	967											
ANGEL1	23357	broad.mit.edu	37	chr14	77255720	77255720	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgagagttccatctcgatAcagcctgtgatctggggcac	8	11	11	11	1	2	2	0	2	2	1	4	4	3	2	2	2	2	2	2	2	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:77255720A>G	uc001xsv.2	-	10	1977	c.1864T>C	c.(1864-1866)TAT>CAT	p.Y622H	uc001xsu.1_5'Flank|ANGEL1_uc010tvf.1_Intron	NM_015305	NP_056120	Q9UNK9	ANGE1_HUMAN	angel homolog 1	622										ovary(2)|central_nervous_system(1)|skin(1)	4			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0285)		CCATCTCGATACAGCCTGTGA	0.557													11	84					0	0	0.001368	0	0		G	77255720	G	G	77255720	3	3	1	1	0	0	0	0	1	0	0	0	608	391	14	3	152	3	ANGEL1	14	77255720	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	326801	77255720	30093820	968	968											
ISM2	145501	broad.mit.edu	37	chr14	77950769	77950769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgggtcctgggaggcgtgGcattccctggggtcagggct	3	9	18	11	1	1	0	1	0	0	0	3	1	3	1	3	7	0	2	3	7	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:77950769G>A	uc001xtz.2	-	3	598	c.524C>T	c.(523-525)GCC>GTC	p.A175V	ISM2_uc001xua.2_Missense_Mutation_p.A175V|ISM2_uc001xty.2_Missense_Mutation_p.A87V|ISM2_uc010tvl.1_Intron	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	175						extracellular region				skin(1)	1						GGGAGGCGTGGCATTCCCTGG	0.597													4	152					0	0	0.009096	0	0		A	77950769	A	A	77950769	3	1	1	1	0	0	0	0	1	0	0	0	7877	1203	42	2	1211	2	ISM2	14	77950769	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	695049	77950769	29398771	969	969											
ISM2	145501	broad.mit.edu	37	chr14	77951252	77951252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcagaggcctaggatctgggGaggctgagacctgagggaga	10	6	18	7	0	2	4	1	2	1	3	2	8	2	6	2	6	0	1	2	6	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:77951252G>A	uc001xtz.2	-	2	226	c.152C>T	c.(151-153)TCC>TTC	p.S51F	ISM2_uc001xua.2_Missense_Mutation_p.S51F|ISM2_uc001xty.2_5'UTR|ISM2_uc010tvl.1_Missense_Mutation_p.S51F	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	51						extracellular region				skin(1)	1						AGGATCTGGGGAGGCTGAGAC	0.607													9	79					0	0	0.010729	0	0		A	77951252	A	A	77951252	3	1	1	1	0	0	0	0	1	0	0	0	7877	1174	41	4	1587	4	ISM2	14	77951252	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	483	77951252	29398288	970	970											
C14orf145	145508	broad.mit.edu	37	chr14	81382887	81382887	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgattcgctggatgattctGccattgatgtacacaaatcc	10	13	8	10	1	1	3	0	3	1	0	3	4	2	4	2	1	2	2	2	1	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:81382887G>T	uc001xux.2	-	2	176	c.5C>A	c.(4-6)GCA>GAA	p.A2E	C14orf145_uc001xuz.2_Missense_Mutation_p.A2E|C14orf145_uc001xva.1_Missense_Mutation_p.A2E|C14orf145_uc010ata.1_Missense_Mutation_p.A2E	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	2						centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		GGATGATTCTGCCATTGATGT	0.393													20	115					2.37509e-13	2.68727e-13	0.010504	1	0		T	81382887	T	T	81382887	3	4	1	1	0	0	0	0	1	0	0	0	1752	1319	46	5	3371	5	C14orf145	14	81382887	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3431635	81382887	25966653	971	971											
STON2	85439	broad.mit.edu	37	chr14	81737109	81737109	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggctttggaggcagaagTtgtgggcatgctgaactcga	8	10	16	7	1	0	2	0	1	0	1	1	4	0	3	0	4	2	6	0	4	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:81737109T>C	uc010tvu.1	-	5	2719	c.2518A>G	c.(2518-2520)ACT>GCT	p.T840A	STON2_uc001xvk.1_Missense_Mutation_p.T840A|STON2_uc010tvt.1_Missense_Mutation_p.T637A	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	840	MHD.				endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		GAGGCAGAAGTTGTGGGCATG	0.502													33	178					0	0	0.003271	0	0		C	81737109	C	C	81737109	3	2	1	1	0	0	0	0	1	0	0	0	15343	1725	60	3	201	3	STON2	14	81737109	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	354222	81737109	25612431	972	972											
EML5	161436	broad.mit.edu	37	chr14	89154773	89154773	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacatcattgtgtcattttTccccagtgtgcctatgtagc	8	15	7	11	0	2	0	2	0	0	0	3	0	3	0	3	0	2	1	3	0	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:89154773T>C	uc001xxg.2	-	19	2770	c.2584A>G	c.(2584-2586)AAA>GAA	p.K862E	EML5_uc001xxh.1_Intron	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	862	WD 14.					cytoplasm|microtubule				ovary(3)	3						GTGTCATTTTTCCCCAGTGTG	0.388													53	441					0	0	0.00361	0	0		C	89154773	C	C	89154773	3	2	1	1	0	0	0	0	1	0	0	0	5108	1792	62	3	3453	3	EML5	14	89154773	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	7417664	89154773	18194767	973	973											
FOXN3	1112	broad.mit.edu	37	chr14	89747302	89747302	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagggacctaccttggagaAgggctccatttctcttgaag	9	11	11	10	0	1	2	0	1	1	1	3	4	2	3	3	3	1	1	3	3	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:89747302A>C	uc001xxo.3	-	4	874	c.737T>G	c.(736-738)CTT>CGT	p.L246R	FOXN3_uc001xxn.3_Missense_Mutation_p.L246R|FOXN3_uc010atk.2_Missense_Mutation_p.L246R	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1	246					DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(2)|ovary(1)	3						ACCTTGGAGAAGGGCTCCATT	0.517													6	28					0	0	0.001984	0	0		C	89747302	C	C	89747302	3	2	1	1	0	0	0	0	1	0	0	0	6035	72	3	5	751	5	FOXN3	14	89747302	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	592529	89747302	17602238	974	974											
TTC7B	145567	broad.mit.edu	37	chr14	91252559	91252559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcggtcagatgcttgcGgacctcagtcagctggggct	5	8	17	11	3	3	1	3	0	0	1	3	2	3	2	1	6	3	3	1	6	0	1	rs148256811	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:91252559G>A	uc001xyp.2	-	2	357	c.235C>T	c.(235-237)CGC>TGC	p.R79C		NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	79							binding			ovary(2)	2		Melanoma(154;0.222)				AGATGCTTGCGGACCTCAGTC	0.642													10	38					0	0	0.008291	0	0		A	91252559	A	A	91252559	3	1	1	1	0	0	0	0	1	0	0	0	16739	1116	39	1	2372	1	TTC7B	14	91252559	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1505257	91252559	16096981	975	975											
SMEK1	55671	broad.mit.edu	37	chr14	91937310	91937310	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaacaattccaatacaaGtgccaatagttgggcagtct	13	12	8	8	0	1	0	0	0	1	0	2	0	2	0	2	1	3	3	2	1	7	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:91937310G>A	uc001xzn.2	-	10	2353	c.1531C>T	c.(1531-1533)CTT>TTT	p.L511F	SMEK1_uc001xzm.2_Missense_Mutation_p.L498F|SMEK1_uc001xzo.2_Missense_Mutation_p.L498F|SMEK1_uc010atz.2_Missense_Mutation_p.L272F|SMEK1_uc001xzp.1_RNA	NM_032560	NP_115949	Q6IN85	P4R3A_HUMAN	SMEK homolog 1, suppressor of mek1	511						microtubule organizing center|nucleus	protein binding				0		all_cancers(154;0.0691)|all_epithelial(191;0.219)		COAD - Colon adenocarcinoma(157;0.221)		TCCAATACAAGTGCCAATAGT	0.318													14	114					0	0	0.001855	0	0		A	91937310	A	A	91937310	3	1	1	1	0	0	0	0	1	0	0	0	14818	1029	36	4	994	4	SMEK1	14	91937310	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	684751	91937310	15412230	976	976											
TECPR2	9895	broad.mit.edu	37	chr14	102880991	102880991	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggggctctgtaactcccagCtggtgttggaggagccatct	7	10	14	10	0	2	0	0	0	2	0	3	2	3	2	2	5	3	4	2	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:102880991C>T	uc001ylw.1	+	5	647	c.499C>T	c.(499-501)CTG>TTG	p.L167L	TECPR2_uc010txw.1_Silent_p.L167L|TECPR2_uc010awl.2_Silent_p.L167L|TECPR2_uc010txx.1_Intron	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	167							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						TAACTCCCAGCTGGTGTTGGA	0.507													18	178					0	0	0.007413	0	0		T	102880991	T	T	102880991	2	4	1	1	0	0	0	0	0	0	0	1	15769	796	28	2		2	TECPR2	14	102880991	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	10943681	102880991	4468549	977	977											
TECPR2	9895	broad.mit.edu	37	chr14	102912238	102912238	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaacctgtggttcagaactgGcattatttccaagaagcccc	11	10	9	11	0	1	2	1	0	0	2	2	3	2	2	4	2	3	2	4	2	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:102912238G>T	uc001ylw.1	+	13	3177	c.3029G>T	c.(3028-3030)GGC>GTC	p.G1010V	TECPR2_uc010awl.2_Missense_Mutation_p.G1010V|TECPR2_uc010txx.1_Missense_Mutation_p.G173V	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1010	TECPR 2.						protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						TTCAGAACTGGCATTATTTCC	0.552													23	85					4.59853e-10	5.1197e-10	0.005443	1	0		T	102912238	T	T	102912238	3	4	1	1	0	0	0	0	1	0	0	0	15769	1203	42	5	3075	5	TECPR2	14	102912238	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	31247	102912238	4437302	978	978											
PACS2	23241	broad.mit.edu	37	chr14	105834841	105834841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggggaagccgaagaagcagCggagatcgattgtaagaacg	14	5	16	6	4	0	3	0	0	0	3	1	7	0	4	1	3	4	2	1	3	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:105834841C>T	uc001yqt.2	+	7	881	c.706C>T	c.(706-708)CGG>TGG	p.R236W	PACS2_uc001yqs.2_Missense_Mutation_p.R169W|PACS2_uc001yqv.2_Missense_Mutation_p.R236W|PACS2_uc001yqu.2_Missense_Mutation_p.R236W	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	236					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		GAAGAAGCAGCGGAGATCGAT	0.597													5	110					0	0	0.001168	0	0		T	105834841	T	T	105834841	3	4	1	1	0	0	0	0	1	0	0	0	11392	759	27	1	732	1	PACS2	14	105834841	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2922603	105834841	1514699	979	979											
MTA1	9112	broad.mit.edu	37	chr14	105935825	105935825	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctggcaaaccacggacaggCcaggcacatggtaagaggaa	14	4	13	10	1	1	1	0	0	1	1	1	3	1	3	2	6	1	3	2	6	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr14:105935825C>T	uc001yqx.2	+	19	2022	c.1835C>T	c.(1834-1836)GCC>GTC	p.A612V	MTA1_uc001yqy.2_RNA|MTA1_uc001yrb.2_Missense_Mutation_p.A377V	NM_004689	NP_004680	Q13330	MTA1_HUMAN	metastasis associated protein	612					signal transduction	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		CACGGACAGGCCAGGCACATG	0.627													5	41					0	0	0.001168	0	0		T	105935825	T	T	105935825	3	4	1	1	0	0	0	0	1	0	0	0	9926	739	26	2	1909	2	MTA1	14	105935825	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	100984	105935825	1413715	980	980											
CYFIP1	23191	broad.mit.edu	37	chr15	22969309	22969309	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atcaccctgcacgtcttctgGgagctcaactatgacttcct	8	12	7	14	1	4	1	2	1	2	0	5	2	5	2	2	1	3	2	2	1	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:22969309G>T	uc001yus.2	+	22	2639	c.2535G>T	c.(2533-2535)TGG>TGT	p.W845C	CYFIP1_uc001yut.2_Missense_Mutation_p.W845C|CYFIP1_uc010aya.1_Missense_Mutation_p.W873C|CYFIP1_uc001yuu.2_Missense_Mutation_p.W414C|CYFIP1_uc001yuv.2_Missense_Mutation_p.W39C	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	845				FW->AA: Constitutive induction of the formation of actin filaments; when associated with A-841.	axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		ACGTCTTCTGGGAGCTCAACT	0.637													11	91					2.27111e-07	2.47892e-07	0.001368	1	0		T	22969309	T	T	22969309	3	4	1	1	0	0	0	0	1	0	0	0	4140	1241	43	5	2998	5	CYFIP1	15	22969309	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08		22969309	79562083	981	981											
NDN	4692	broad.mit.edu	37	chr15	23931620	23931620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggctccacgtatgggacgcGctggtacttcaggtaattca	8	10	12	11	4	2	0	2	0	0	0	3	1	3	1	1	4	1	5	1	4	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:23931620G>A	uc001ywk.2	-	1	831	c.745C>T	c.(745-747)CGC>TGC	p.R249C		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	249	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		TATGGGACGCGCTGGTACTTC	0.587									Prader-Willi_syndrome				7	56					0	0	0.00308	0	0		A	23931620	A	A	23931620	3	1	1	1	0	0	0	0	1	0	0	0	10266	1087	38	1	224	1	NDN	15	23931620	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	962311	23931620	78599772	982	982											
ATP10A	57194	broad.mit.edu	37	chr15	25925050	25925050	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgcatctcctgggggacTtcctggtcaactgacgtgcc	6	10	11	14	1	2	1	1	1	1	0	4	2	3	2	3	3	3	1	3	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:25925050T>G	uc010ayu.2	-	21	4044	c.3938A>C	c.(3937-3939)AAG>ACG	p.K1313T		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1313	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CCTGGGGGACTTCCTGGTCAA	0.517													27	148					0	0	0.008361	0	0		G	25925050	G	G	25925050	3	3	1	1	0	0	0	0	1	0	0	0	1117	1609	56	5	565	5	ATP10A	15	25925050	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1993430	25925050	76606342	983	983											
TJP1	7082	broad.mit.edu	37	chr15	30003035	30003035	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacttccgaacttcctacCttcaccatgtgctcccttag	7	14	4	16	1	2	0	1	0	1	0	5	1	5	0	5	0	4	1	5	0	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:30003035C>A	uc001zcr.2	-	24	4847	c.4372G>T	c.(4372-4374)GGT>TGT	p.G1458C	TJP1_uc010azl.2_Missense_Mutation_p.G1446C|TJP1_uc001zcq.2_Missense_Mutation_p.G1382C|TJP1_uc001zcs.2_Missense_Mutation_p.G1378C	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	1458					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		AACTTCCTACCTTCACCATGT	0.453													21	204					2.39556e-15	2.7252e-15	0.00278	1	0		A	30003035	A	A	30003035	3	1	1	1	0	0	0	0	1	0	0	0	15954	695	24	5	894	5	TJP1	15	30003035	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4077985	30003035	72528357	984	984											
MTMR10	54893	broad.mit.edu	37	chr15	31239370	31239370	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtgaggggagttgaacAggaaggtgccaaacagtgag	12	6	18	5	0	0	3	0	3	0	0	0	5	0	5	1	5	3	2	1	5	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:31239370A>G	uc001zfh.1	-	14	1609	c.1511T>C	c.(1510-1512)CTG>CCG	p.L504P	MTMR10_uc010ubk.1_5'UTR|MTMR10_uc001zfg.1_Missense_Mutation_p.L85P|MTMR10_uc010azx.1_Missense_Mutation_p.L256P|MTMR10_uc001zfi.1_Missense_Mutation_p.L256P|MTMR10_uc001zfj.2_Missense_Mutation_p.L422P|MTMR10_uc001zfk.2_Missense_Mutation_p.L256P	NM_017762	NP_060232	Q9NXD2	MTMRA_HUMAN	myotubularin related protein 10	504	Myotubularin phosphatase.						phosphatase activity			ovary(1)	1		all_lung(180;2.81e-11)		all cancers(64;7.26e-15)|Epithelial(43;7.2e-11)|GBM - Glioblastoma multiforme(186;0.000158)|BRCA - Breast invasive adenocarcinoma(123;0.00426)|Lung(196;0.174)		GGAGTTGAACAGGAAGGTGCC	0.488													26	146					0	0	0.004656	0	0		G	31239370	G	G	31239370	3	3	1	1	0	0	0	0	1	0	0	0	9957	188	7	3	834	3	MTMR10	15	31239370	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1236335	31239370	71292022	985	985											
NOP10	55505	broad.mit.edu	37	chr15	34634282	34634282	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagcaggatgggctgagcAggtctgttgtcccatcgggt	6	9	16	10	2	1	1	0	1	1	0	3	3	2	2	2	4	2	4	2	4	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:34634282A>G	uc001zie.1	-	2	170	c.82T>C	c.(82-84)TGC>CGC	p.C28R	C15orf55_uc010ucc.1_5'Flank|C15orf55_uc010ucd.1_5'Flank	NM_018648	NP_061118	Q9NPE3	NOP10_HUMAN	nucleolar protein family A, member 3	28					pseudouridine synthesis|rRNA processing	Cajal body|nucleolus|small nucleolar ribonucleoprotein complex	protein binding				0						TGGGCTGAGCAGGTCTGTTGT	0.532													4	69					0	0	0.009096	0	0		G	34634282	G	G	34634282	3	3	1	1	0	0	0	0	1	0	0	0	10554	188	7	3	116	3	NOP10	15	34634282	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	3394912	34634282	67897110	986	986											
AQR	9716	broad.mit.edu	37	chr15	35224614	35224614	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaggatggtattaaaccAgcgccttgtgggtagcaggg	10	9	14	8	1	0	0	0	0	0	0	1	1	1	1	3	4	3	3	3	4	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:35224614A>C	uc001ziv.2	-	11	986	c.805T>G	c.(805-807)TGG>GGG	p.W269G		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	269						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		GTATTAAACCAGCGCCTTGTG	0.428													8	88					0	0	0.004482	0	0		C	35224614	C	C	35224614	3	2	1	1	0	0	0	0	1	0	0	0	835	188	7	5	3752	5	AQR	15	35224614	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	590332	35224614	67306778	987	987											
EIF2AK4	440275	broad.mit.edu	37	chr15	40309416	40309416	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggctgtacctgaaatcctCgcagctggaggcagatatga	11	8	13	9	1	0	3	0	2	0	1	2	4	1	4	2	3	2	5	2	3	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:40309416C>T	uc001zkm.1	+	29	4088	c.4038C>T	c.(4036-4038)CTC>CTT	p.L1346L	EIF2AK4_uc010bbj.1_Silent_p.L1047L|EIF2AK4_uc001zkn.1_Silent_p.L446L|EIF2AK4_uc001zko.1_Silent_p.L227L|EIF2AK4_uc010bbk.1_RNA	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	1346	Histidyl-tRNA synthetase-like.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		CTGAAATCCTCGCAGCTGGAG	0.413													45	143					0	0	0.011902	0	0		T	40309416	T	T	40309416	2	4	1	1	0	0	0	0	0	0	0	1	5005	871	31	1		1	EIF2AK4	15	40309416	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5084802	40309416	62221976	988	988											
DISP2	85455	broad.mit.edu	37	chr15	40655938	40655938	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccccaccaacaacttccAccctccagcctgtgggtcca	9	6	6	20	0	0	0	0	0	0	0	3	1	3	0	8	1	3	0	8	1	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:40655938A>C	uc001zlk.1	+	2	321	c.232A>C	c.(232-234)ACC>CCC	p.T78P		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	78					smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		AACAACTTCCACCCTCCAGCC	0.657													6	61					0	0	0.003271	0	0		C	40655938	C	C	40655938	3	2	1	1	0	0	0	0	1	0	0	0	4546	159	6	5	238	5	DISP2	15	40655938	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	346522	40655938	61875454	989	989											
BAHD1	22893	broad.mit.edu	37	chr15	40751732	40751732	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagctgtcgccgctgccgAtgcctggcaaccccgccgac	5	6	11	19	5	1	0	1	0	0	0	2	2	1	0	6	1	4	3	6	1	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:40751732A>C	uc001zlu.2	+	2	1140	c.1069A>C	c.(1069-1071)ATG>CTG	p.M357L	BAHD1_uc001zlt.2_Missense_Mutation_p.M357L|BAHD1_uc010bbp.1_Missense_Mutation_p.M357L|BAHD1_uc001zlv.2_Missense_Mutation_p.M357L	NM_014952	NP_055767	Q8TBE0	BAHD1_HUMAN	bromo adjacent homology domain containing 1	357	Pro-rich.				heterochromatin formation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin silencing complex|chromosome	chromatin binding|DNA binding|protein binding				0		all_cancers(109;8.28e-19)|all_epithelial(112;2.64e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.46e-06)|BRCA - Breast invasive adenocarcinoma(123;0.08)		GCCGCTGCCGATGCCTGGCAA	0.637													18	54					0	0	0.010818	0	0		C	40751732	C	C	40751732	3	2	1	1	0	0	0	0	1	0	0	0	1298	333	12	5	1071	5	BAHD1	15	40751732	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	95794	40751732	61779660	990	990											
INO80	54617	broad.mit.edu	37	chr15	41346200	41346200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcaaaatcatgtgtaagCgagaaagttgatctgaaatg	15	11	10	5	1	3	3	2	2	1	1	3	4	3	3	0	0	1	3	0	0	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:41346200C>T	uc001zni.2	-	19	2414	c.2201G>A	c.(2200-2202)CGC>CAC	p.R734H	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	734	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						CATGTGTAAGCGAGAAAGTTG	0.368													8	74					0	0	0.004482	0	0		T	41346200	T	T	41346200	3	4	1	1	0	0	0	0	1	0	0	0	7762	768	27	1	2541	1	INO80	15	41346200	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	594468	41346200	61185192	991	991											
MGA	23269	broad.mit.edu	37	chr15	42032304	42032304	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaccacgtaccctgttgccTtcaacatccaattccaaaat	14	10	3	14	1	1	0	1	0	0	0	3	0	3	0	5	0	4	2	5	0	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:42032304T>G	uc010ucy.1	+	14	4669	c.4488T>G	c.(4486-4488)CCT>CCG	p.P1496P	MGA_uc010ucz.1_Silent_p.P1496P|MGA_uc010uda.1_Silent_p.P112P	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1496						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		CCCTGTTGCCTTCAACATCCA	0.522													21	87					0	0	0.002299	0	0		G	42032304	G	G	42032304	2	3	1	1	0	0	0	0	0	0	0	1	9558	1596	56	5		5	MGA	15	42032304	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	686104	42032304	60499088	992	992											
SPTBN5	51332	broad.mit.edu	37	chr15	42155999	42155999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctggtaccggagcaagttgCcatggaaactcgcccacctg	9	7	12	13	2	0	0	0	0	0	0	1	2	0	2	4	3	4	4	4	3	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:42155999C>T	uc001zos.2	-	41	7280	c.6947G>A	c.(6946-6948)GGC>GAC	p.G2316D		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	2351	Spectrin 20.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		GAGCAAGTTGCCATGGAAACT	0.602													8	116					0	0	0.008291	0	0		T	42155999	T	T	42155999	3	4	1	1	0	0	0	0	1	0	0	0	15147	739	26	2	4084	2	SPTBN5	15	42155999	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	123695	42155999	60375393	993	993											
SPTBN5	51332	broad.mit.edu	37	chr15	42167136	42167136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcttggcagccagggtcCggctctcactctccagctgt	5	10	10	16	1	3	0	1	0	3	0	6	0	4	0	4	3	2	3	4	3	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:42167136C>T	uc001zos.2	-	23	4634	c.4301G>A	c.(4300-4302)CGG>CAG	p.R1434Q		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	1469	Spectrin 11.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		AGCCAGGGTCCGGCTCTCACT	0.667													4	29					0	0	0.009096	0	0		T	42167136	T	T	42167136	3	4	1	1	0	0	0	0	1	0	0	0	15147	652	23	1	6802	1	SPTBN5	15	42167136	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	11137	42167136	60364256	994	994											
CAPN3	825	broad.mit.edu	37	chr15	42652149	42652149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctattcagccatcatcagccGcaattttcctattatcggag	10	13	6	12	2	3	0	3	0	0	0	5	1	4	1	3	1	2	1	3	1	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:42652149G>A	uc001zpn.1	+	1	452	c.146G>A	c.(145-147)CGC>CAC	p.R49H	CAPN3_uc001zpk.1_Intron|CAPN3_uc001zpl.1_Intron|CAPN3_uc010udf.1_Intron|CAPN3_uc010udg.1_Intron|CAPN3_uc001zpo.1_Missense_Mutation_p.R49H|CAPN3_uc001zpp.1_Missense_Mutation_p.R49H	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	49					muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)		ATCATCAGCCGCAATTTTCCT	0.527													28	286					0	0	0.012213	0	0		A	42652149	A	A	42652149	3	1	1	1	0	0	0	0	1	0	0	0	2631	1087	38	1	200	1	CAPN3	15	42652149	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	485013	42652149	59879243	995	995											
EPB42	2038	broad.mit.edu	37	chr15	43500967	43500967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcagggattcccaggcatCgcagcactgtgagaagaggg	10	5	17	9	1	0	2	0	1	0	2	2	4	1	3	1	4	1	4	1	4	1	1	rs121917734		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:43500967C>T	uc001zra.3	-	7	1139	c.839G>A	c.(838-840)CGA>CAA	p.R280Q	EPB42_uc001zqz.3_5'UTR|EPB42_uc010bde.2_Missense_Mutation_p.R125Q|EPB42_uc001zrb.3_Missense_Mutation_p.R310Q|EPB42_uc010udm.1_Missense_Mutation_p.R202Q	NM_001114134	NP_001107606	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2 isoform 2	280			R -> Q (in SPH5; Tozeur).		erythrocyte maturation|peptide cross-linking|regulation of cell shape	cytoplasm|cytoskeleton|plasma membrane	ATP binding|protein binding|protein-glutamine gamma-glutamyltransferase activity|structural constituent of cytoskeleton			ovary(2)	2		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		TCCCAGGCATCGCAGCACTGT	0.602													8	58					0	0	0.00308	0	0		T	43500967	T	T	43500967	3	4	1	1	0	0	0	0	1	0	0	0	5166	884	31	1	1264	1	EPB42	15	43500967	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	848818	43500967	59030425	996	996											
LCMT2	9836	broad.mit.edu	37	chr15	43620632	43620632	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattagtccagtccttactGcccagcacttaaggaagaaa	14	10	7	10	0	0	1	0	0	0	1	2	2	2	2	3	1	3	1	3	1	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:43620632G>A	uc001zrg.2	-	1	2260	c.2056C>T	c.(2056-2058)CAG>TAG	p.Q686*	LCMT2_uc010udn.1_Nonsense_Mutation_p.Q265*|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	686					tRNA processing		methyltransferase activity|protein binding				0		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.1e-07)	L-Leucine(DB00149)	AGTCCTTACTGCCCAGCACTT	0.453													19	166					0	0	0.006122	0	0		A	43620632	A	A	43620632	4	1	1	1	0	0	0	0	0	1	0	0	8695	1328	46	2	8	2	LCMT2	15	43620632	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	119665	43620632	58910760	997	997											
GATM	2628	broad.mit.edu	37	chr15	45661663	45661663	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcaaatgatctttgggAaaataatgccctccttgctt	10	17	6	8	0	2	1	1	1	1	0	3	2	3	2	2	1	2	1	2	1	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:45661663A>G	uc001zvc.2	-	3	674	c.345T>C	c.(343-345)TTT>TTC	p.F115F	GATM_uc001zvb.2_5'UTR|GATM_uc010uev.1_Silent_p.F168F	NM_001482	NP_001473	P50440	GATM_HUMAN	L-arginine:glycine amidinotransferase precursor	115					creatine biosynthetic process	mitochondrial inner membrane|mitochondrial intermembrane space	glycine amidinotransferase activity|protein binding				0		all_cancers(109;1.25e-09)|all_epithelial(112;5.56e-08)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;4.87e-16)|GBM - Glioblastoma multiforme(94;1.97e-06)	Creatine(DB00148)|Glycine(DB00145)|L-Ornithine(DB00129)	GATCTTTGGGAAAATAATGCC	0.383													16	95					0	0	0.003163	0	0		G	45661663	G	G	45661663	2	3	1	1	0	0	0	0	0	0	0	1	6278	243	9	3		3	GATM	15	45661663	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2041031	45661663	56869729	998	998											
CYP19A1	1588	broad.mit.edu	37	chr15	51503021	51503021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctagtgttccagacacCtgtctgagtttcttggggta	6	16	10	9	0	3	2	0	1	3	1	5	2	4	2	2	2	0	3	2	2	2	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:51503021C>T	uc001zyz.3	-	11	1747	c.1496G>A	c.(1495-1497)AGG>AAG	p.R499K	CYP19A1_uc001zza.3_Missense_Mutation_p.R499K	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	499					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	TTCCAGACACCTGTCTGAGTT	0.448													5	346					0	0	0.000602	0	0		T	51503021	T	T	51503021	3	4	1	1	0	0	0	0	1	0	0	0	4151	681	24	4	19	4	CYP19A1	15	51503021	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5841358	51503021	51028371	999	999											
DMXL2	23312	broad.mit.edu	37	chr15	51773499	51773499	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagagcttttgaatgtgaaGgtacatcatccatcctgtga	11	13	9	8	0	2	4	2	3	0	1	4	4	4	4	2	1	2	2	2	1	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:51773499G>T	uc002abf.2	-	24	6029	c.5804C>A	c.(5803-5805)CCT>CAT	p.P1935H	DMXL2_uc002abd.2_Missense_Mutation_p.P5H|DMXL2_uc010ufy.1_Missense_Mutation_p.P1935H|DMXL2_uc010bfa.2_Missense_Mutation_p.P1299H	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	1935						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		TGAATGTGAAGGTACATCATC	0.393													7	532					8.12818e-05	8.59118e-05	0.001984	1	0		T	51773499	T	T	51773499	3	4	1	1	0	0	0	0	1	0	0	0	4601	1000	35	5	3389	5	DMXL2	15	51773499	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	270478	51773499	50757893	1000	1000											
MYO5C	55930	broad.mit.edu	37	chr15	52515817	52515817	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttctctgaataacttcTgcaggtggttgatttcttga	7	19	8	7	0	4	3	0	3	4	0	5	3	4	3	0	2	2	2	0	2	2	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:52515817T>C	uc010bff.2	-	29	3688	c.3551A>G	c.(3550-3552)CAG>CGG	p.Q1184R	MYO5C_uc010uga.1_RNA	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	1184	Potential.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		GAATAACTTCTGCAGGTGGTT	0.438													22	118					0	0	0.012319	0	0		C	52515817	C	C	52515817	3	2	1	1	0	0	0	0	1	0	0	0	10098	1580	55	3	1729	3	MYO5C	15	52515817	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	742318	52515817	50015575	1001	1001											
MYO5C	55930	broad.mit.edu	37	chr15	52548869	52548869	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttgcagtttttcattagcGtaattgatgcaaaattgttc	10	18	8	5	1	1	1	1	1	0	0	2	1	1	1	0	0	3	6	0	0	4	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:52548869G>A	uc010bff.2	-	11	1499	c.1362C>T	c.(1360-1362)TAC>TAT	p.Y454Y	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	454	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		TTTCATTAGCGTAATTGATGC	0.353											OREG0023130	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	183					0	0	0.010504	0	0		A	52548869	A	A	52548869	2	1	1	1	0	0	0	0	0	0	0	1	10098	1140	40	1		1	MYO5C	15	52548869	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	33052	52548869	49982523	1002	1002											
UNC13C	440279	broad.mit.edu	37	chr15	54305975	54305975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtgaaattgagcagttgcGcacagggtttgtccagtctc	10	11	12	8	1	1	2	0	2	1	0	3	2	2	2	1	1	2	4	1	1	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:54305975G>A	uc002ack.2	+	1	875	c.875G>A	c.(874-876)CGC>CAC	p.R292H		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	292					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GAGCAGTTGCGCACAGGGTTT	0.453													25	189					0	0	0.00278	0	0		A	54305975	A	A	54305975	3	1	1	1	0	0	0	0	1	0	0	0	17012	1087	38	1	877	1	UNC13C	15	54305975	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1757106	54305975	48225417	1003	1003											
GCOM1	145781	broad.mit.edu	37	chr15	57929928	57929928	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacttcaactcctagaacaTgaaacagaaatgtctgggga	16	8	8	9	0	2	3	1	1	1	2	3	4	3	4	1	2	4	0	1	2	6	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:57929928T>C	uc002aei.2	+	9	1088	c.969T>C	c.(967-969)CAT>CAC	p.H323H	GCOM1_uc002aej.2_Silent_p.H323H|GCOM1_uc002aek.2_RNA|GCOM1_uc002ael.2_RNA|GCOM1_uc002aem.2_Silent_p.H323H|GCOM1_uc002aeq.2_RNA|GCOM1_uc002aen.2_RNA|GCOM1_uc010bfy.2_RNA|GCOM1_uc002aeo.2_Silent_p.H323H|GCOM1_uc002aep.2_RNA|GCOM1_uc010bfx.2_RNA	NM_001018100	NP_001018110	P0CAP1	GCOM1_HUMAN	GRINL1A upstream protein isoform 7	323	Potential.				intracellular signal transduction	extrinsic to internal side of plasma membrane|I band				ovary(1)	1						TCCTAGAACATGAAACAGAAA	0.378													9	39					0	0	0.004482	0	0		C	57929928	C	C	57929928	2	2	1	1	0	0	0	0	0	0	0	1	6319	1461	51	3		3	GCOM1	15	57929928	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3623953	57929928	44601464	1004	1004											
TLN2	83660	broad.mit.edu	37	chr15	63084970	63084970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgatcgaatgcgcccGtgccgtcacggaaaaggtaa	11	6	14	10	5	1	1	1	1	0	0	2	4	1	3	2	3	3	2	2	3	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:63084970G>A	uc002alb.3	+	43	5867	c.5867G>A	c.(5866-5868)CGT>CAT	p.R1956H	TLN2_uc002alc.3_Missense_Mutation_p.R349H	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1956					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GAATGCGCCCGTGCCGTCACG	0.577													6	44					0	0	0.001168	0	0		A	63084970	A	A	63084970	3	1	1	1	0	0	0	0	1	0	0	0	15973	1145	40	1	6037	1	TLN2	15	63084970	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5155042	63084970	39446422	1005	1005											
HERC1	8925	broad.mit.edu	37	chr15	63908706	63908706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agtctgcacgtagagcagatCcacctcctccaggtcctcta	9	9	8	15	1	2	2	0	0	2	2	6	2	6	2	5	1	2	3	5	1	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:63908706C>T	uc002amp.2	-	75	14012	c.13864G>A	c.(13864-13866)GAT>AAT	p.D4622N		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	4622	HECT.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TAGAGCAGATCCACCTCCTCC	0.532													9	89					0	0	0.006214	0	0		T	63908706	T	T	63908706	3	4	1	1	0	0	0	0	1	0	0	0	7073	855	30	4	737	4	HERC1	15	63908706	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	823736	63908706	38622686	1006	1006											
PIF1	80119	broad.mit.edu	37	chr15	65108840	65108840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgggggtcacagcgaaccGccatggggtcaaagtccagc	10	4	14	13	3	2	0	2	0	0	0	3	1	3	0	3	4	3	0	3	4	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:65108840G>A	uc002ant.2	-	12	1865	c.1799C>T	c.(1798-1800)GCG>GTG	p.A600V	PIF1_uc002anr.2_Missense_Mutation_p.A148V|PIF1_uc002ans.2_Missense_Mutation_p.A291V|PIF1_uc010uiq.1_Missense_Mutation_p.A600V	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	600	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0						ACAGCGAACCGCCATGGGGTC	0.642													10	102					0	0	0.008291	0	0		A	65108840	A	A	65108840	3	1	1	1	0	0	0	0	1	0	0	0	11902	1087	38	1	134	1	PIF1	15	65108840	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1200134	65108840	37422552	1007	1007											
TLE3	7090	broad.mit.edu	37	chr15	70350533	70350533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggaggtttacccggcatcGacctgagccctggggtcgtg	5	8	15	13	4	0	1	0	1	0	0	2	3	0	2	4	5	2	2	4	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:70350533G>A	uc002asm.2	-	12	2135	c.1016C>T	c.(1015-1017)TCG>TTG	p.S339L	TLE3_uc002ask.2_Missense_Mutation_p.S283L|TLE3_uc002asl.2_Missense_Mutation_p.S344L|TLE3_uc010ukd.1_Missense_Mutation_p.S332L|TLE3_uc010bik.1_Intron|TLE3_uc010bil.1_Missense_Mutation_p.S339L|TLE3_uc002asn.2_Missense_Mutation_p.S339L|TLE3_uc002asp.2_Missense_Mutation_p.S339L|TLE3_uc002aso.2_Missense_Mutation_p.S339L	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	339	Pro/Ser-rich.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						ACCCGGCATCGACCTGAGCCC	0.607													9	113					0	0	0.008291	0	0		A	70350533	A	A	70350533	3	1	1	1	0	0	0	0	1	0	0	0	15965	1059	37	1	1338	1	TLE3	15	70350533	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5241693	70350533	32180859	1008	1008											
HEXA	3073	broad.mit.edu	37	chr15	72647903	72647903	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagccccaatttgttacctcGgagagctccccagacagtct	9	9	8	15	1	1	2	0	0	1	2	3	3	2	2	5	1	3	2	5	1	2	2	rs121907962		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:72647903G>A	uc002aun.3	-	3	616	c.409C>T	c.(409-411)CGA>TGA	p.R137*	CELF6_uc002auk.3_RNA|HEXA_uc010ukn.1_Nonsense_Mutation_p.R148*|HEXA_uc002auo.3_Silent_p.S15S|HEXA_uc010bix.2_Nonsense_Mutation_p.R137*|HEXA_uc010biy.2_Silent_p.S15S|HEXA_uc010uko.1_Silent_p.S15S|HEXA_uc010biz.1_RNA	NM_000520	NP_000511	P06865	HEXA_HUMAN	hexosaminidase A preproprotein	137					cell death	lysosome	beta-N-acetylhexosaminidase activity|cation binding|protein heterodimerization activity			ovary(3)|upper_aerodigestive_tract(1)	4						TTGTTACCTCGGAGAGCTCCC	0.363													4	122					0	0	0.001168	0	0		A	72647903	A	A	72647903	4	1	1	1	0	0	0	0	0	1	0	0	7089	1124	39	1	1228	1	HEXA	15	72647903	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2297370	72647903	29883489	1009	1009											
ISLR2	57611	broad.mit.edu	37	chr15	74427112	74427112	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgaggagccagaggacgtgCagggggagggccttgatgaa	10	4	20	7	2	0	3	0	2	0	1	0	7	0	6	2	5	2	1	2	5	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:74427112C>T	uc002axd.2	+	4	2786	c.2017C>T	c.(2017-2019)CAG>TAG	p.Q673*	ISLR2_uc002axe.2_Nonsense_Mutation_p.Q673*|ISLR2_uc010bjg.2_Nonsense_Mutation_p.Q673*|ISLR2_uc010bjf.2_Nonsense_Mutation_p.Q673*	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	673	Cytoplasmic (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						AGAGGACGTGCAGGGGGAGGG	0.682											OREG0023277	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	43					0	0	0.010729	0	0		T	74427112	T	T	74427112	4	4	1	1	0	0	0	0	0	1	0	0	7875	711	25	2	2019	2	ISLR2	15	74427112	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1779209	74427112	28104280	1010	1010											
SEMA7A	8482	broad.mit.edu	37	chr15	74708310	74708310	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagactgacagtgaacttTccccaccctggtccccctgg	7	9	10	15	0	0	3	0	2	0	1	2	4	2	3	5	3	1	0	5	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:74708310T>C	uc002axv.2	-	8	858	c.818A>G	c.(817-819)GAA>GGA	p.E273G	SEMA7A_uc010ulk.1_Missense_Mutation_p.E108G|SEMA7A_uc010ull.1_Missense_Mutation_p.E259G	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	273	Sema.				axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						CAGTGAACTTTCCCCACCCTG	0.567													13	92					0	0	0.003163	0	0		C	74708310	C	C	74708310	3	2	1	1	0	0	0	0	1	0	0	0	14068	1783	62	3	1210	3	SEMA7A	15	74708310	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	281198	74708310	27823082	1011	1011											
CSK	1445	broad.mit.edu	37	chr15	75091756	75091756	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgacggcaaggtggagcactAccgcatcatgtaccatgcca	11	6	11	13	3	1	0	1	0	0	0	1	2	1	1	3	3	4	4	3	3	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:75091756A>G	uc010bkb.1	+	6	569	c.386A>G	c.(385-387)TAC>TGC	p.Y129C	CSK_uc002ays.2_Missense_Mutation_p.Y129C|CSK_uc010bkc.1_5'UTR	NM_001127190	NP_001120662	P41240	CSK_HUMAN	c-src tyrosine kinase	129	SH2.				blood coagulation|epidermal growth factor receptor signaling pathway|T cell costimulation|T cell receptor signaling pathway	centrosome|cytosol|Golgi apparatus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein C-terminus binding			lung(2)|central_nervous_system(1)	3						GTGGAGCACTACCGCATCATG	0.607													8	52					0	0	0.006214	0	0		G	75091756	G	G	75091756	3	3	1	1	0	0	0	0	1	0	0	0	3946	391	14	3	400	3	CSK	15	75091756	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	383446	75091756	27439636	1012	1012											
MAN2C1	4123	broad.mit.edu	37	chr15	75648662	75648662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcttgacggtctccaataCgaccgcgggtgaagacacgg	9	7	13	12	5	1	3	0	2	1	1	2	4	1	3	2	3	2	1	2	3	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:75648662C>T	uc002baf.2	-	24	2883	c.2866G>A	c.(2866-2868)GTA>ATA	p.V956I	MIR631_hsa-mir-631|MI0003645_5'Flank|MAN2C1_uc002bag.2_Missense_Mutation_p.V933I|MAN2C1_uc002bah.2_Missense_Mutation_p.V973I|MAN2C1_uc010bkk.2_Missense_Mutation_p.V857I	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	956					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						GTCTCCAATACGACCGCGGGT	0.662													5	10					0	0	0.000602	0	0		T	75648662	T	T	75648662	3	4	1	1	0	0	0	0	1	0	0	0	9236	536	19	1	268	1	MAN2C1	15	75648662	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	556906	75648662	26882730	1013	1013											
SGK269	79834	broad.mit.edu	37	chr15	77425370	77425370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gactgcatagttattaagtgGatcttttgcatatgaagcag	12	14	10	5	0	1	1	0	1	1	0	1	3	1	2	0	1	3	4	0	1	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:77425370G>A	uc002bcm.2	-	5	4362	c.4054C>T	c.(4054-4056)CCA>TCA	p.P1352S		NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	1352	Protein kinase.				cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		TTATTAAGTGGATCTTTTGCA	0.388													23	136					0	0	0.00278	0	0		A	77425370	A	A	77425370	3	1	1	1	0	0	0	0	1	0	0	0	14236	1174	41	4	1194	4	SGK269	15	77425370	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1776708	77425370	25106022	1014	1014											
KIAA1199	57214	broad.mit.edu	37	chr15	81234237	81234237	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacgagagagagaagtttgCtttctgctccatgaaaggct	12	10	12	7	1	1	3	0	1	1	2	2	7	2	3	1	1	3	4	1	1	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:81234237C>A	uc002bfw.1	+	25	3715	c.3455C>A	c.(3454-3456)GCT>GAT	p.A1152D	KIAA1199_uc010unn.1_Missense_Mutation_p.A1152D	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	1152										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GAGAAGTTTGCTTTCTGCTCC	0.493													7	84					0.000157383	0.00016551	0.00308	1	0		A	81234237	A	A	81234237	3	1	1	1	0	0	0	0	1	0	0	0	8229	797	28	5	3549	5	KIAA1199	15	81234237	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3808867	81234237	21297155	1015	1015											
CPEB1	64506	broad.mit.edu	37	chr15	83218321	83218321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcattccatgcagagcacCgacaaacaccgtcctgctgg	11	7	9	14	2	0	1	0	0	0	1	2	2	2	1	4	1	5	4	4	1	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:83218321C>T	uc002bit.2	-	9	1620	c.1483G>A	c.(1483-1485)GGT>AGT	p.G495S	CPEB1_uc002biq.2_Missense_Mutation_p.G355S|CPEB1_uc002bir.2_Missense_Mutation_p.G360S|CPEB1_uc002bis.2_Missense_Mutation_p.G355S|CPEB1_uc010uod.1_Missense_Mutation_p.G204S|CPEB1_uc010uoe.1_Missense_Mutation_p.G433S|CPEB1_uc002biu.2_Missense_Mutation_p.G457S|CPEB1_uc010uof.1_Missense_Mutation_p.G355S|CPEB1_uc002biv.2_Missense_Mutation_p.G430S|CPEB1_uc002bip.2_Missense_Mutation_p.G204S	NM_001079533	NP_001073001	Q9BZB8	CPEB1_HUMAN	cytoplasmic polyadenylation element binding	435	RRM 2.|Necessary for stress granule assembly and correct localization in dcp1 bodies.				mRNA processing|regulation of translation	cell junction|cytoplasmic mRNA processing body|dendrite|postsynaptic density|postsynaptic membrane	nucleotide binding|RNA binding			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(143;0.229)			TGCAGAGCACCGACAAACACC	0.542													8	74					0	0	0.00308	0	0		T	83218321	T	T	83218321	3	4	1	1	0	0	0	0	1	0	0	0	3803	652	23	1	413	1	CPEB1	15	83218321	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1984084	83218321	19313071	1016	1016											
ACAN	176	broad.mit.edu	37	chr15	89398644	89398644	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgccctctggagctgagaTcctagagggctctgcctctg	6	10	12	13	0	3	2	0	1	3	2	4	4	4	3	3	2	3	2	3	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:89398644T>A	uc010upo.1	+	12	3202	c.2828T>A	c.(2827-2829)ATC>AAC	p.I943N	ACAN_uc010upp.1_Missense_Mutation_p.I943N|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	943					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			GGAGCTGAGATCCTAGAGGGC	0.562													4	99					0	0	0.000602	0	0		A	89398644	A	A	89398644	3	1	1	1	0	0	0	0	1	0	0	0	117	1435	50	5	2870	5	ACAN	15	89398644	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	6180323	89398644	13132748	1017	1017											
BLM	641	broad.mit.edu	37	chr15	91354482	91354482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtccagcagcagaggccccGgaagaagtgccgctgaggag	10	4	16	11	2	0	3	0	1	0	2	1	5	1	5	4	3	3	3	4	3	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:91354482G>A	uc002bpr.2	+	21	4019	c.3922G>A	c.(3922-3924)GGA>AGA	p.G1308R	BLM_uc010uqh.1_Missense_Mutation_p.G1308R|BLM_uc010uqi.1_Missense_Mutation_p.G933R|BLM_uc010bnx.2_Missense_Mutation_p.G1177R|BLM_uc002bpt.2_Missense_Mutation_p.G283R	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	1308					double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			CAGAGGCCCCGGAAGAAGTGC	0.502			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				9	89					0	0	0.004482	0	0		A	91354482	A	A	91354482	3	1	1	1	0	0	0	0	1	0	0	0	1446	1117	39	1	4000	1	BLM	15	91354482	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1955838	91354482	11176910	1018	1018											
SV2B	9899	broad.mit.edu	37	chr15	91769808	91769808	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atggatgagtgtggccatggCcgcttccagtggatcctctt	6	12	13	10	1	1	1	0	1	1	0	3	3	3	3	4	4	0	1	4	4	0	2	rs34439404		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:91769808C>T	uc002bqv.2	+	1	706	c.315C>T	c.(313-315)GGC>GGT	p.G105G	SV2B_uc002bqt.2_Silent_p.G105G|SV2B_uc010uqv.1_Intron|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	105	Cytoplasmic (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			GTGGCCATGGCCGCTTCCAGT	0.582													5	41					0	0	0.001168	0	0		T	91769808	T	T	91769808	2	4	1	1	0	0	0	0	0	0	0	1	15443	726	26	2		2	SV2B	15	91769808	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	415326	91769808	10761584	1019	1019											
LRRK1	79705	broad.mit.edu	37	chr15	101528930	101528930	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaagctcctggtcctgacGcacggggctgacccggagag	7	6	16	12	3	0	4	0	3	0	1	2	5	2	4	3	4	1	3	3	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:101528930G>A	uc002bwr.2	+	5	844	c.525G>A	c.(523-525)ACG>ACA	p.T175T	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bwq.1_Silent_p.T175T	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	175	ANK 3.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGGTCCTGACGCACGGGGCTG	0.632													12	112					0	0	0.010729	0	0		A	101528930	A	A	101528930	2	1	1	1	0	0	0	0	0	0	0	1	9050	1074	38	1		1	LRRK1	15	101528930	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	9759122	101528930	1002462	1020	1020											
SNRPA1	6627	broad.mit.edu	37	chr15	101833229	101833229	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttcccctacagacacgtaCcatattctgttgttgttcac	8	15	5	13	1	2	1	1	0	1	1	3	1	3	1	3	0	2	4	3	0	3	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr15:101833229C>G	uc002bww.2	-	2	307	c.230_splice	c.e2+1	p.C77_splice	SNRPA1_uc002bwx.2_Intron|SNRPA1_uc010bpc.2_Intron	NM_003090	NP_003081	P09661	RU2A_HUMAN	small nuclear ribonucleoprotein polypeptide A'							catalytic step 2 spliceosome|nucleoplasm|U2 snRNP	protein binding|RNA binding			kidney(1)	1	Lung NSC(78;0.00156)|all_lung(78;0.00195)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00113)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CAGACACGTACCATATTCTGT	0.373													4	91					0	0	0.000602	0	0		G	101833229	G	G	101833229	5	3	1	1	0	0	0	0	0	0	1	0	14885	521	18	5	568	5	SNRPA1	15	101833229	Splice_Site	SNP	C	TCGA-B7-5816-01A-21D-1600-08	304299	101833229	698163	1021	1021											
WDR24	84219	broad.mit.edu	37	chr16	739557	739557	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacacactgatggcattggcGggagcatccaggtggcagtg	9	7	15	10	1	0	1	0	1	0	0	1	2	1	2	1	5	1	3	1	5	0	1	rs143404878	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:739557G>A	uc002ciz.1	-	1	844	c.84C>T	c.(82-84)CCC>CCT	p.P28P		NM_032259	NP_115635	Q96S15	WDR24_HUMAN	WD repeat domain 24	90										ovary(1)|central_nervous_system(1)	2		Hepatocellular(780;0.0218)				TGGCATTGGCGGGAGCATCCA	0.607													6	34					0	0	0.001168	0	0		A	739557	A	A	739557	2	1	1	1	0	0	0	0	0	0	0	1	17307	1103	39	1		1	WDR24	16	739557	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08		739557	89615196	1022	1022											
METRN	79006	broad.mit.edu	37	chr16	766974	766974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgctgagctgctcctggccGcatgcaccagcgacttcggt	6	8	12	15	4	0	1	0	1	0	0	2	2	1	1	3	2	4	5	3	2	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:766974G>A	uc002cjd.2	+	3	664	c.547G>A	c.(547-549)GCA>ACA	p.A183T	uc010bra.1_5'Flank	NM_024042	NP_076947	Q9UJH8	METRN_HUMAN	meteorin, glial cell differentiation regulator	183											0		Hepatocellular(780;0.00335)				GCTCCTGGCCGCATGCACCAG	0.682													4	32					0	0	0.000602	0	0		A	766974	A	A	766974	3	1	1	1	0	0	0	0	1	0	0	0	9506	1087	38	1	557	1	METRN	16	766974	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	27417	766974	89587779	1023	1023											
SSTR5	6755	broad.mit.edu	37	chr16	1129609	1129609	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcggagcggaaggtgacGcgcatggtgttggtggtggt	5	9	20	7	5	0	1	0	1	0	0	1	3	0	3	0	7	1	3	0	7	1	1	rs151120448		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:1129609G>A	uc002ckq.2	+	1	829	c.741G>A	c.(739-741)ACG>ACA	p.T247T	LOC146336_uc002cko.2_5'Flank|LOC146336_uc002ckp.1_5'Flank	NM_001053	NP_001044	P35346	SSR5_HUMAN	somatostatin receptor 5	247	Cytoplasmic (Potential).				negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			lung(1)	1		Hepatocellular(780;0.00369)			Octreotide(DB00104)	GGAAGGTGACGCGCATGGTGT	0.672													3	28					0	0	0.004672	0	0		A	1129609	A	A	1129609	2	1	1	1	0	0	0	0	0	0	0	1	15226	1074	38	1		1	SSTR5	16	1129609	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	362635	1129609	89225144	1024	1024											
UNKL	64718	broad.mit.edu	37	chr16	1416248	1416248	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccccgctgaggtcaccacTgcaggggctggcccttgcag	5	7	14	15	1	1	1	1	1	0	0	2	1	2	1	4	4	2	4	4	4	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:1416248T>C	uc010brn.1	-	9	1184	c.1166A>G	c.(1165-1167)CAG>CGG	p.Q389R	UNKL_uc002cln.2_Missense_Mutation_p.Q231R|UNKL_uc002clo.2_Missense_Mutation_p.Q228R|UNKL_uc002clp.2_Missense_Mutation_p.Q181R			Q9H9P5	UNKL_HUMAN	SubName: Full=Putative ubiquitin-protein ligase;          EC=6.3.2.19; Flags: Fragment;	679						cytoplasm|nucleus	ligase activity|nucleic acid binding|zinc ion binding				0		Hepatocellular(780;0.0893)				AGGTCACCACTGCAGGGGCTG	0.682													3	4					0	0	0.004672	0	0		C	1416248	C	C	1416248	3	2	1	1	0	0	0	0	1	0	0	0	17027	1580	55	3	10	3	UNKL	16	1416248	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	286639	1416248	88938505	1025	1025											
TBL3	10607	broad.mit.edu	37	chr16	2026090	2026090	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctggatgtgttccggaaggGgtggctctttgccagctgtg	4	12	16	9	1	1	0	0	0	1	0	2	2	2	2	3	5	2	3	3	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:2026090G>T	uc002cnu.1	+	12	1265	c.1163G>T	c.(1162-1164)GGG>GTG	p.G388V	TBL3_uc002cnv.1_Missense_Mutation_p.G274V|TBL3_uc010bsb.1_Missense_Mutation_p.G177V|TBL3_uc010bsc.1_Missense_Mutation_p.G274V|TBL3_uc010uvt.1_5'UTR|TBL3_uc002cnw.1_5'Flank	NM_006453	NP_006444	Q12788	TBL3_HUMAN	transducin beta-like 3	388	WD 8.				G-protein signaling, coupled to cGMP nucleotide second messenger|rRNA processing	nucleolus|small-subunit processome	receptor signaling protein activity				0						TTCCGGAAGGGGTGGCTCTTT	0.627													18	169					8.28177e-16	9.4471e-16	0.007413	1	0		T	2026090	T	T	2026090	3	4	1	1	0	0	0	0	1	0	0	0	15668	1232	43	5	1209	5	TBL3	16	2026090	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	609842	2026090	88328663	1026	1026											
ZNF200	7752	broad.mit.edu	37	chr16	3283691	3283691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcccagcttggagtctggcGgaactctcagtataaaggac	10	8	13	10	1	2	0	1	0	2	0	3	3	2	3	1	5	2	2	1	5	4	3	rs61731430		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:3283691G>A	uc002cuj.2	-	2	697	c.65C>T	c.(64-66)CCG>CTG	p.P22L	ZNF200_uc002cum.3_Missense_Mutation_p.P22L|ZNF200_uc010bti.2_Missense_Mutation_p.P22L|ZNF200_uc002cuk.2_Missense_Mutation_p.P22L|ZNF200_uc002cui.2_Missense_Mutation_p.P22L|ZNF200_uc002cul.3_Missense_Mutation_p.P22L	NM_003454	NP_003445	P98182	ZN200_HUMAN	zinc finger protein 200 isoform 1	22					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						GGAGTCTGGCGGAACTCTCAG	0.562													15	109					0	0	0.00245	0	0		A	3283691	A	A	3283691	3	1	1	1	0	0	0	0	1	0	0	0	17787	1116	39	1	1138	1	ZNF200	16	3283691	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1257601	3283691	87071062	1027	1027											
BTBD12	84464	broad.mit.edu	37	chr16	3632656	3632656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcgccctcctcttcacctGcagactcaaatgccgctcca	7	9	5	20	2	3	1	2	0	1	1	6	1	5	1	6	0	2	2	6	0	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:3632656G>A	uc002cvp.2	-	15	5819	c.5192C>T	c.(5191-5193)GCA>GTA	p.A1731V		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1731	Interaction with PLK1 and TERF2-TERF2IP.|Interaction with SLX1.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						CTCTTCACCTGCAGACTCAAA	0.617								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				8	33					0	0	0.006214	0	0		A	3632656	A	A	3632656	3	1	1	1	0	0	0	0	1	0	0	0	1543	1319	46	2	316	2	BTBD12	16	3632656	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	348965	3632656	86722097	1028	1028											
BTBD12	84464	broad.mit.edu	37	chr16	3633383	3633383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagggtctggcagtgaggcGcctgcaacagcggctgtgag	7	6	18	10	3	1	2	0	2	1	0	1	3	1	2	1	4	3	3	1	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:3633383G>A	uc002cvp.2	-	14	5495	c.4868C>T	c.(4867-4869)GCG>GTG	p.A1623V		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1623	Interaction with MUS81.|Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						GCAGTGAGGCGCCTGCAACAG	0.622								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				9	80					0	0	0.001855	0	0		A	3633383	A	A	3633383	3	1	1	1	0	0	0	0	1	0	0	0	1543	1087	38	1	644	1	BTBD12	16	3633383	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	727	3633383	86721370	1029	1029											
TRAP1	10131	broad.mit.edu	37	chr16	3716054	3716054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaactttgcatacttctcaGcatcttttttactctggtca	10	17	4	10	0	4	0	2	0	3	0	5	0	4	0	0	1	5	2	0	1	4	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:3716054G>A	uc002cvt.3	-	12	1390	c.1301C>T	c.(1300-1302)GCT>GTT	p.A434V	TRAP1_uc002cvs.2_Missense_Mutation_p.A225V|TRAP1_uc010uxf.1_Missense_Mutation_p.A381V	NM_016292	NP_057376	Q12931	TRAP1_HUMAN	TNF receptor-associated protein 1 precursor	434					cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)				ATACTTCTCAGCATCTTTTTT	0.443													29	85					0	0	0.008361	0	0		A	3716054	A	A	3716054	3	1	1	1	0	0	0	0	1	0	0	0	16481	971	34	2	841	2	TRAP1	16	3716054	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	82671	3716054	86638699	1030	1030											
CREBBP	1387	broad.mit.edu	37	chr16	3778795	3778795	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgagaatgttcagcacctGctgttgctgctgaggggagc	7	12	14	8	0	1	2	1	2	0	1	1	4	1	3	1	2	5	6	1	2	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:3778795G>A	uc002cvv.2	-	31	6457	c.6253C>T	c.(6253-6255)CAG>TAG	p.Q2085*	CREBBP_uc002cvw.2_Nonsense_Mutation_p.Q2047*	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2085	Poly-Gln.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TTCAGCACCTGCTGTTGCTGC	0.607			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				34	136					0	0	0.00623	0	0		A	3778795	A	A	3778795	4	1	1	1	0	0	0	0	0	1	0	0	3864	1328	46	2	1079	2	CREBBP	16	3778795	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	62741	3778795	86575958	1031	1031											
MGRN1	23295	broad.mit.edu	37	chr16	4723611	4723611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgcctctgtacctcctgcgCcgacacgctgcgctaccagg	5	8	11	17	4	1	0	0	0	1	0	2	1	2	0	5	1	5	3	5	1	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:4723611C>T	uc002cwz.2	+	10	1044	c.908C>T	c.(907-909)GCC>GTC	p.A303V	MGRN1_uc002cxa.2_Missense_Mutation_p.A303V|MGRN1_uc010btx.2_Missense_Mutation_p.A304V|MGRN1_uc010btw.2_Missense_Mutation_p.A304V|MGRN1_uc002cxb.2_Missense_Mutation_p.A342V|MGRN1_uc010uxo.1_Missense_Mutation_p.A303V|MGRN1_uc010uxp.1_Missense_Mutation_p.A303V|MGRN1_uc010uxq.1_RNA	NM_001142290	NP_001135762	O60291	MGRN1_HUMAN	mahogunin, ring finger 1 isoform 3	303	RING-type.				endosome to lysosome transport|negative regulation of cAMP-mediated signaling|negative regulation of G-protein coupled receptor protein signaling pathway|protein monoubiquitination	cytosol|early endosome|nucleus|plasma membrane|plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2						ACCTCCTGCGCCGACACGCTG	0.637													6	52					0	0	0.006214	0	0		T	4723611	T	T	4723611	3	4	1	1	0	0	0	0	1	0	0	0	9577	739	26	2	949	2	MGRN1	16	4723611	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	944816	4723611	85631142	1032	1032											
PPL	5493	broad.mit.edu	37	chr16	4947716	4947716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgaggtggctctcctcgCagatgagcaggttcaggtac	8	10	13	10	1	2	3	1	2	1	1	4	3	2	3	1	4	2	5	1	4	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:4947716C>T	uc002cyd.1	-	9	1022	c.932G>A	c.(931-933)TGC>TAC	p.C311Y		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	311	Potential.|Spectrin 1.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						GCTCTCCTCGCAGATGAGCAG	0.607													7	39					0	0	0.001984	0	0		T	4947716	T	T	4947716	3	4	1	1	0	0	0	0	1	0	0	0	12356	710	25	2	4394	2	PPL	16	4947716	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	224105	4947716	85407037	1033	1033											
SEC14L5	9717	broad.mit.edu	37	chr16	5058571	5058571	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggccagcgggcagctgatCgacaaaggctgggtcctggg	8	5	18	10	2	0	1	0	1	0	0	2	2	1	1	2	5	2	3	2	5	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:5058571C>T	uc002cye.2	+	14	1902	c.1722C>T	c.(1720-1722)ATC>ATT	p.I574I		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	574	GOLD.					integral to membrane|intracellular	transporter activity				0						GGCAGCTGATCGACAAAGGCT	0.647													11	83					0	0	0.001368	0	0		T	5058571	T	T	5058571	2	4	1	1	0	0	0	0	0	0	0	1	14010	874	31	1		1	SEC14L5	16	5058571	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	110855	5058571	85296182	1034	1034											
ABAT	18	broad.mit.edu	37	chr16	8862106	8862106	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgggcgcgttccatgggagGaccatgggtaaggagggacc	9	6	18	8	2	0	0	0	0	0	0	1	4	1	4	3	6	0	2	3	6	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:8862106G>A	uc002czc.3	+	10	826	c.660G>A	c.(658-660)AGG>AGA	p.R220R	ABAT_uc002czd.3_Silent_p.R220R|ABAT_uc010buh.2_Silent_p.R162R|ABAT_uc010bui.2_Silent_p.R220R	NM_020686	NP_065737	P80404	GABT_HUMAN	4-aminobutyrate aminotransferase precursor	220			R -> K (in GABATD; 25% reduction in activity).		behavioral response to cocaine|gamma-aminobutyric acid catabolic process|neurotransmitter catabolic process|neurotransmitter secretion	4-aminobutyrate transaminase complex|mitochondrial matrix	(S)-3-amino-2-methylpropionate transaminase activity|4-aminobutyrate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|succinate-semialdehyde dehydrogenase binding			upper_aerodigestive_tract(1)	1					Divalproex sodium(DB00510)|Isoniazid(DB00951)|L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)|Tiagabine(DB00906)|Valproic Acid(DB00313)|Vigabatrin(DB01080)	TCCATGGGAGGACCATGGGTA	0.468													10	88					0	0	0.001368	0	0		A	8862106	A	A	8862106	2	1	1	1	0	0	0	0	0	0	0	1	27	1165	41	4		4	ABAT	16	8862106	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3803535	8862106	81492647	1035	1035											
ABAT	18	broad.mit.edu	37	chr16	8866730	8866730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgagggtggagacaaccacGcatccgatgacttctttcgg	9	8	12	12	4	1	2	0	1	1	1	3	5	2	2	3	3	1	1	3	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:8866730G>A	uc002czc.3	+	12	1076	c.910G>A	c.(910-912)GCA>ACA	p.A304T	ABAT_uc002czd.3_Missense_Mutation_p.A304T|ABAT_uc010buh.2_Missense_Mutation_p.A246T|ABAT_uc010bui.2_Missense_Mutation_p.A304T	NM_020686	NP_065737	P80404	GABT_HUMAN	4-aminobutyrate aminotransferase precursor	304					behavioral response to cocaine|gamma-aminobutyric acid catabolic process|neurotransmitter catabolic process|neurotransmitter secretion	4-aminobutyrate transaminase complex|mitochondrial matrix	(S)-3-amino-2-methylpropionate transaminase activity|4-aminobutyrate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|succinate-semialdehyde dehydrogenase binding			upper_aerodigestive_tract(1)	1					Divalproex sodium(DB00510)|Isoniazid(DB00951)|L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)|Tiagabine(DB00906)|Valproic Acid(DB00313)|Vigabatrin(DB01080)	AGACAACCACGCATCCGATGA	0.547													6	44					0	0	0.001168	0	0		A	8866730	A	A	8866730	3	1	1	1	0	0	0	0	1	0	0	0	27	1087	38	1	952	1	ABAT	16	8866730	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4624	8866730	81488023	1036	1036											
GRIN2A	2903	broad.mit.edu	37	chr16	9943686	9943686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggggtctatgtcttccaCgatgacgaatggggcctcct	7	10	13	11	2	2	1	0	1	2	0	4	3	4	1	3	4	0	0	3	4	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:9943686C>T	uc002czo.3	-	5	1803	c.1255G>A	c.(1255-1257)GTG>ATG	p.V419M	GRIN2A_uc010uym.1_Missense_Mutation_p.V419M|GRIN2A_uc010uyn.1_Missense_Mutation_p.V262M|GRIN2A_uc002czr.3_Missense_Mutation_p.V419M	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	419	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ATGTCTTCCACGATGACGAAT	0.572													16	118					0	0	0.003163	0	0		T	9943686	T	T	9943686	3	4	1	1	0	0	0	0	1	0	0	0	6795	536	19	1	3175	1	GRIN2A	16	9943686	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1076956	9943686	80411067	1037	1037											
CLEC16A	23274	broad.mit.edu	37	chr16	11154783	11154783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgggtgttcttcatgctgCgttccctgtcactgcaattg	4	15	10	12	2	3	0	2	0	1	0	5	0	5	0	2	1	3	4	2	1	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:11154783C>T	uc002dao.2	+	19	2250	c.2020C>T	c.(2020-2022)CGT>TGT	p.R674C	CLEC16A_uc002dan.3_Missense_Mutation_p.R656C	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	674										ovary(1)|central_nervous_system(1)	2						CTTCATGCTGCGTTCCCTGTC	0.537													37	270					0	0	0.007835	0	0		T	11154783	T	T	11154783	3	4	1	1	0	0	0	0	1	0	0	0	3503	768	27	1	2090	1	CLEC16A	16	11154783	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1211097	11154783	79199970	1038	1038											
RSL1D1	26156	broad.mit.edu	37	chr16	11933734	11933734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtatcaccactttcaggtgCcacatcatctttactaagaa	13	12	5	11	0	4	1	3	0	1	1	4	1	4	1	2	1	2	1	2	1	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:11933734C>T	uc002dbp.1	-	8	1037	c.964G>A	c.(964-966)GCA>ACA	p.A322T	RSL1D1_uc010buv.1_Missense_Mutation_p.A321T|RSL1D1_uc010uyw.1_Missense_Mutation_p.A102T|RSL1D1_uc010buw.2_RNA	NM_015659	NP_056474	O76021	RL1D1_HUMAN	ribosomal L1 domain containing 1	322					regulation of protein localization|translation	large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						CTTTCAGGTGCCACATCATCT	0.289													51	331					0	0	0.00361	0	0		T	11933734	T	T	11933734	3	4	1	1	0	0	0	0	1	0	0	0	13725	739	26	2	516	2	RSL1D1	16	11933734	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	778951	11933734	78421019	1039	1039											
ERCC4	2072	broad.mit.edu	37	chr16	14038694	14038694	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgacactcggaaagccggTgagtcctgcactttgtcagg	9	9	12	11	2	1	2	1	2	0	0	3	3	2	3	2	3	2	1	2	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:14038694T>C	uc002dce.2	+	10	2026	c.2017_splice	c.e10+2	p.G673_splice	ERCC4_uc010uyz.1_Splice_Site_p.G223_splice	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent						double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						GGAAAGCCGGTGAGTCCTGCA	0.483			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				5	38					0	0	0.000602	0	0		C	14038694	C	C	14038694	5	2	1	1	0	0	0	0	0	0	1	0	5223	1710	59	3	2057	3	ERCC4	16	14038694	Splice_Site	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2104960	14038694	76316059	1040	1040											
ABCC6	368	broad.mit.edu	37	chr16	16244625	16244625	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acacaggagctgtttctggcCcacgctgggaacgattggga	9	8	14	10	2	1	0	0	0	1	0	1	4	1	3	1	4	2	3	1	4	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:16244625C>A	uc002den.3	-	30	4250	c.4213G>T	c.(4213-4215)GGC>TGC	p.G1405C	ABCC6_uc010bvo.2_RNA|ABCC6_uc002dem.2_Missense_Mutation_p.G157C	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	1405	Cytoplasmic (By similarity).|ABC transporter 2.				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		TGTTTCTGGCCCACGCTGGGA	0.602													4	24					0.00024832	0.000259996	0.009096	1	0		A	16244625	A	A	16244625	3	1	1	1	0	0	0	0	1	0	0	0	57	623	22	5	306	5	ABCC6	16	16244625	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2205931	16244625	74110128	1041	1041											
SMG1	23049	broad.mit.edu	37	chr16	18853038	18853038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaccggggtgtttcttggCgattaattgtagcaaacatg	10	12	13	6	2	1	0	0	0	1	0	1	2	1	1	1	4	3	3	1	4	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:18853038C>T	uc002dfm.2	-	41	6908	c.6545G>A	c.(6544-6546)CGC>CAC	p.R2182H	SMG1_uc010bwb.2_Missense_Mutation_p.R2042H|SMG1_uc010bwa.2_Missense_Mutation_p.R913H|SMG1_uc002dfo.3_Missense_Mutation_p.R480H	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2182	PI3K/PI4K.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TGTTTCTTGGCGATTAATTGT	0.398													42	362					0	0	0.00874	0	0		T	18853038	T	T	18853038	3	4	1	1	0	0	0	0	1	0	0	0	14820	768	27	1	4532	1	SMG1	16	18853038	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2608413	18853038	71501715	1042	1042											
C16orf62	57020	broad.mit.edu	37	chr16	19580856	19580856	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcgtcctcgatgggacTgaccccctctccatgtttgc	6	10	10	15	2	1	1	0	1	1	0	4	3	2	2	4	1	3	2	4	1	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:19580856T>A	uc002dgn.1	+	3	240	c.228T>A	c.(226-228)ACT>ACA	p.T76T	C16orf62_uc002dgo.1_Silent_p.T76T|C16orf62_uc010vas.1_5'UTR|C16orf62_uc002dgm.1_Silent_p.T76T	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	76						integral to membrane				ovary(1)	1						TCGATGGGACTGACCCCCTCT	0.597													3	53					0	0	0.004672	0	0		A	19580856	A	A	19580856	2	1	1	1	0	0	0	0	0	0	0	1	1828	1567	55	5		5	C16orf62	16	19580856	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	727818	19580856	70773897	1043	1043											
PDILT	204474	broad.mit.edu	37	chr16	20373875	20373875	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctccaacagtgggaacaGcatcttgcactttttagacc	10	12	7	12	0	1	1	0	0	1	1	3	2	3	2	3	1	4	2	3	1	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:20373875G>A	uc002dhc.1	-	10	1490	c.1267C>T	c.(1267-1269)CTG>TTG	p.L423L		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	423	Thioredoxin.				cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						AGTGGGAACAGCATCTTGCAC	0.463													13	120					0	0	0.003163	0	0		A	20373875	A	A	20373875	2	1	1	1	0	0	0	0	0	0	0	1	11693	962	34	2		2	PDILT	16	20373875	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	793019	20373875	69980878	1044	1044											
DNAH3	55567	broad.mit.edu	37	chr16	21145622	21145622	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgagcatcatggggttcAccgtgtgcagatgctcctcg	6	10	13	12	2	2	2	2	1	0	1	4	2	3	2	3	2	3	4	3	2	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:21145622A>G	uc010vbe.1	-	7	1040	c.1040T>C	c.(1039-1041)GTG>GCG	p.V347A	DNAH3_uc002die.2_Missense_Mutation_p.V318A	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	347	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CATGGGGTTCACCGTGTGCAG	0.527													5	174					0	0	0.001168	0	0		G	21145622	G	G	21145622	3	3	1	1	0	0	0	0	1	0	0	0	4609	159	6	3	11533	3	DNAH3	16	21145622	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	771747	21145622	69209131	1045	1045											
ERN2	10595	broad.mit.edu	37	chr16	23713786	23713786	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgctgggtgagccctctcGctctcctgagacttggagtg	5	11	14	11	1	2	2	0	2	2	1	4	4	2	3	2	2	2	2	2	2	0	1	rs144370049		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:23713786G>A	uc002dma.3	-	10	1319	c.1150C>T	c.(1150-1152)CGA>TGA	p.R384*	ERN2_uc010bxp.2_Nonsense_Mutation_p.R384*|ERN2_uc010bxq.1_Nonsense_Mutation_p.R192*	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	336	Lumenal (Potential).				apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		GAGCCCTCTCGCTCTCCTGAG	0.597													40	244					0	0	0.005524	0	0		A	23713786	A	A	23713786	4	1	1	1	0	0	0	0	0	1	0	0	5246	1095	38	1	1826	1	ERN2	16	23713786	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2568164	23713786	66640967	1046	1046											
ZKSCAN2	342357	broad.mit.edu	37	chr16	25258237	25258237	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acggagcacgggctgcagggTtcaacaaagcatccatgtcc	11	6	12	12	2	1	0	1	0	0	0	3	1	3	1	2	3	4	5	2	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:25258237T>C	uc002dod.3	-	5	1687	c.1280A>G	c.(1279-1281)AAC>AGC	p.N427S	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.N223S|ZKSCAN2_uc002doe.2_Missense_Mutation_p.N427S	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	427					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		GGCTGCAGGGTTCAACAAAGC	0.488													20	223					0	0	0.012319	0	0		C	25258237	C	C	25258237	3	2	1	1	0	0	0	0	1	0	0	0	17712	1725	60	3	1635	3	ZKSCAN2	16	25258237	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1544451	25258237	65096516	1047	1047											
GTF3C1	2975	broad.mit.edu	37	chr16	27539961	27539961	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acattcagggtggatctcttGcaagcgaagagacaccacct	12	8	10	11	1	2	1	1	0	1	1	3	4	2	2	2	2	2	1	2	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:27539961G>A	uc002dov.1	-	6	971	c.931C>T	c.(931-933)CAA>TAA	p.Q311*	GTF3C1_uc002dou.2_Nonsense_Mutation_p.Q311*	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	311						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TGGATCTCTTGCAAGCGAAGA	0.498													29	176					0	0	0.007291	0	0		A	27539961	A	A	27539961	4	1	1	1	0	0	0	0	0	1	0	0	6888	1328	46	2	5526	2	GTF3C1	16	27539961	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2281724	27539961	62814792	1048	1048											
KIAA0556	23247	broad.mit.edu	37	chr16	27751547	27751547	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcggaagaaagcaaaggcacCcatgagatggctggtgccag	13	5	14	9	1	0	2	0	1	0	2	1	4	0	3	2	4	2	3	2	4	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:27751547C>A	uc002dow.2	+	15	1953	c.1929C>A	c.(1927-1929)ACC>ACA	p.T643T		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	643	Potential.									ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						GCAAAGGCACCCATGAGATGG	0.552													13	89					7.93312e-07	8.6028e-07	0.00245	1	0		A	27751547	A	A	27751547	2	1	1	1	0	0	0	0	0	0	0	1	8199	610	22	5		5	KIAA0556	16	27751547	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	211586	27751547	62603206	1049	1049											
TAOK2	9344	broad.mit.edu	37	chr16	29998312	29998312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggaggaggaagaagaggaaGagggggctccgattgggacc	13	3	20	5	1	0	3	0	0	0	3	1	9	1	8	2	7	0	1	2	7	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:29998312G>A	uc002dva.1	+	16	3502	c.2719G>A	c.(2719-2721)GAG>AAG	p.E907K	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Missense_Mutation_p.E914K|TAOK2_uc002dvd.1_Missense_Mutation_p.E734K	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	907	Glu-rich.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						AGAAGAGGAAGAGGGGGCTCC	0.622													23	131					0	0	0.002299	0	0		A	29998312	A	A	29998312	3	1	1	1	0	0	0	0	1	0	0	0	15573	943	33	4	2777	4	TAOK2	16	29998312	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2246765	29998312	60356441	1050	1050											
SEPT1	1731	broad.mit.edu	37	chr16	30392561	30392561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggccacatctaggggccGgagcctgcacccagggattg	9	5	15	12	1	1	0	0	0	1	0	1	3	1	2	4	5	2	1	4	5	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:30392561G>A	uc002dxy.2	-	7	632	c.445C>T	c.(445-447)CGG>TGG	p.R149W	SEPT1_uc002dxw.2_5'Flank|SEPT1_uc002dxx.2_5'UTR|SEPT1_uc010veq.1_3'UTR	NM_052838	NP_443070	Q8WYJ6	SEPT1_HUMAN	septin 1	149				LRP -> SR (in Ref. 1; AAL40393).	cell cycle|cell division	microtubule organizing center|septin complex	GTP binding|protein binding			ovary(1)	1			Colorectal(24;0.193)			TCTAGGGGCCGGAGCCTGCAC	0.637													17	69					0	0	0.006122	0	0		A	30392561	A	A	30392561	3	1	1	1	0	0	0	0	1	0	0	0	14084	1115	39	1	682	1	SEPT1	16	30392561	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	394249	30392561	59962192	1051	1051											
STX1B	112755	broad.mit.edu	37	chr16	31004510	31004510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagacacagctcgctccaCgtagtccacagaatgttcca	11	8	8	14	2	1	2	1	0	0	2	5	2	4	2	3	0	1	4	3	0	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:31004510C>T	uc010cad.2	-	9	839	c.727G>A	c.(727-729)GTG>ATG	p.V243M	STX1B_uc010vfd.1_Missense_Mutation_p.V243M	NM_052874	NP_443106	P61266	STX1B_HUMAN	syntaxin 1B	243	t-SNARE coiled-coil homology.|Cytoplasmic (Potential).				intracellular protein transport|neurotransmitter transport|synaptic transmission	integral to plasma membrane	extracellular-glutamate-gated ion channel activity|SNAP receptor activity				0						GCTCGCTCCACGTAGTCCACA	0.607													25	138					0	0	0.003954	0	0		T	31004510	T	T	31004510	3	4	1	1	0	0	0	0	1	0	0	0	15369	536	19	1	147	1	STX1B	16	31004510	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	611949	31004510	59350243	1052	1052											
PAPD5	64282	broad.mit.edu	37	chr16	50256229	50256229	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttcagaaatatcctgtaTtgccatacttggttttagta	10	19	6	6	0	1	1	1	0	0	1	2	1	2	1	2	1	2	3	2	1	6	10			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:50256229T>A	uc010vgo.1	+	7	1041	c.1006T>A	c.(1006-1008)TTG>ATG	p.L336M	PAPD5_uc010cbi.2_RNA|PAPD5_uc002efz.2_Missense_Mutation_p.L127M|PAPD5_uc002ega.2_Missense_Mutation_p.L127M	NM_001040284	NP_001035374	Q8NDF8	PAPD5_HUMAN	PAP associated domain containing 5 isoform a	257					cell division|DNA replication|histone mRNA catabolic process|mitosis	cytoplasm|nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding				0		all_cancers(37;0.0452)		BRCA - Breast invasive adenocarcinoma(181;0.0843)|GBM - Glioblastoma multiforme(240;0.231)		ATATCCTGTATTGCCATACTT	0.328													3	34					0	0	0.004672	0	0		A	50256229	A	A	50256229	3	1	1	1	0	0	0	0	1	0	0	0	11444	1490	52	5	1032	5	PAPD5	16	50256229	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	19251719	50256229	40098524	1053	1053											
ADCY7	113	broad.mit.edu	37	chr16	50343556	50343556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctgtgtgagcccctccCggtgagtgcgccgggcccgg	3	6	16	16	4	0	2	0	2	0	0	1	2	1	2	6	3	3	0	6	3	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:50343556C>T	uc002egd.1	+	17	2427	c.2159C>T	c.(2158-2160)CCG>CTG	p.P720L	ADCY7_uc002egc.1_Missense_Mutation_p.P720L	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	720	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	GAGCCCCTCCCGGTGAGTGCG	0.632													9	24					0	0	0.008291	0	0		T	50343556	T	T	50343556	3	4	1	1	0	0	0	0	1	0	0	0	299	666	23	1	2225	1	ADCY7	16	50343556	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	87327	50343556	40011197	1054	1054											
SALL1	6299	broad.mit.edu	37	chr16	51175243	51175243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaggctctgtgccaatccaGctgctgctgccagctgctga	6	9	12	14	1	1	1	0	1	1	0	2	2	2	1	3	1	7	6	3	1	1	0	rs59416382		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:51175243G>A	uc010vgs.1	-	2	921	c.890C>T	c.(889-891)GCT>GTT	p.A297V	SALL1_uc010vgr.1_Missense_Mutation_p.A200V|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	297	Poly-Ala.				adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TGCCAATCCAGCTGCTGCTGC	0.522													23	53					0	0	0.00278	0	0		A	51175243	A	A	51175243	3	1	1	1	0	0	0	0	1	0	0	0	13835	971	34	2	3092	2	SALL1	16	51175243	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	831687	51175243	39179510	1055	1055											
IRX5	10265	broad.mit.edu	37	chr16	54967668	54967668	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaatggattaaaccagacCgtgttgaaccgagcggacgc	12	8	11	10	4	1	2	1	1	0	1	1	5	1	4	3	2	3	1	3	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:54967668C>T	uc002ehv.2	+	3	1335	c.1335C>T	c.(1333-1335)ACC>ACT	p.T445T	IRX5_uc002ehw.2_Silent_p.T379T	NM_005853	NP_005844	P78411	IRX5_HUMAN	iroquois homeobox protein 5	445					response to stimulus|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|vitamin D binding				0						TAAACCAGACCGTGTTGAACC	0.557													8	95					0	0	0.004482	0	0		T	54967668	T	T	54967668	2	4	1	1	0	0	0	0	0	0	0	1	7863	639	23	1		1	IRX5	16	54967668	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3792425	54967668	35387085	1056	1056											
CCDC135	84229	broad.mit.edu	37	chr16	57760152	57760152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caccgaggtggacagcaaagGcaacaagatcatcatgacgc	15	4	11	11	2	2	2	2	1	0	1	2	4	2	3	1	3	2	2	1	3	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:57760152G>A	uc002emi.2	+	13	2020	c.1931G>A	c.(1930-1932)GGC>GAC	p.G644D	CCDC135_uc002emj.2_Missense_Mutation_p.G644D|CCDC135_uc002emk.2_Missense_Mutation_p.G579D	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	644						cytoplasm				central_nervous_system(1)	1						GACAGCAAAGGCAACAAGATC	0.667													5	83					0	0	0.001168	0	0		A	57760152	A	A	57760152	3	1	1	1	0	0	0	0	1	0	0	0	2772	1203	42	2	1977	2	CCDC135	16	57760152	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2792484	57760152	32594601	1057	1057											
CNGB1	1258	broad.mit.edu	37	chr16	57931415	57931415	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcgccaccacgttggccGtgcgccggttcccgccccca	3	6	12	20	7	0	0	0	0	0	0	1	0	1	0	7	2	2	2	7	2	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:57931415G>A	uc002emt.2	-	31	3193	c.3128C>T	c.(3127-3129)ACG>ATG	p.T1043M	CNGB1_uc010cdh.2_Missense_Mutation_p.T1037M	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	1043	Cytoplasmic (Potential).|cAMP (By similarity).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						CACGTTGGCCGTGCGCCGGTT	0.547													6	50					0	0	0.001984	0	0		A	57931415	A	A	57931415	3	1	1	1	0	0	0	0	1	0	0	0	3603	1145	40	1	639	1	CNGB1	16	57931415	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	171263	57931415	32423338	1058	1058											
PRSS54	221191	broad.mit.edu	37	chr16	58324876	58324876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggcctgttctgaatggCggatgcgatgctgaggaccc	7	9	14	11	2	1	2	0	2	1	0	1	5	1	4	2	4	2	2	2	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:58324876C>T	uc002enf.2	-	4	645	c.250G>A	c.(250-252)GCC>ACC	p.A84T	PRSS54_uc002eng.2_Missense_Mutation_p.A84T|PRSS54_uc010vie.1_Intron	NM_001080492	NP_001073961	Q6PEW0	PRS54_HUMAN	plasma kallikrein-like protein 4 precursor	84	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						TTCTGAATGGCGGATGCGATG	0.652													5	39					0	0	0.001984	0	0		T	58324876	T	T	58324876	3	4	1	1	0	0	0	0	1	0	0	0	12655	768	27	1	953	1	PRSS54	16	58324876	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	393461	58324876	32029877	1059	1059											
SETD6	79918	broad.mit.edu	37	chr16	58551980	58551980	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcggatggtagccactcAgcccattcctaaaggccatg	9	10	9	13	1	2	0	1	0	1	0	4	1	3	1	4	3	2	1	4	3	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:58551980A>G	uc002ens.2	+	6	877	c.818A>G	c.(817-819)CAG>CGG	p.Q273R	SETD6_uc002enr.2_Missense_Mutation_p.Q249R|SETD6_uc010cdm.2_RNA	NM_001160305	NP_001153777	Q8TBK2	SETD6_HUMAN	SET domain containing 6 isoform a	273	SET.				negative regulation of NF-kappaB transcription factor activity|peptidyl-lysine monomethylation|regulation of inflammatory response	nucleus	NF-kappaB binding|protein-lysine N-methyltransferase activity			ovary(1)	1						GTAGCCACTCAGCCCATTCCT	0.463													10	82					0	0	0.010729	0	0		G	58551980	G	G	58551980	3	3	1	1	0	0	0	0	1	0	0	0	14160	188	7	3	840	3	SETD6	16	58551980	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	227104	58551980	31802773	1060	1060											
CDH11	1009	broad.mit.edu	37	chr16	64981565	64981565	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgctagtttcttaaaacGaggtccccagttctgtagat	10	14	8	9	1	3	1	0	0	3	1	4	2	4	1	2	1	2	4	2	1	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:64981565G>T	uc002eoi.2	-	13	2766	c.2332C>A	c.(2332-2334)CGT>AGT	p.R778S	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_3'UTR|CDH11_uc010vin.1_Missense_Mutation_p.R652S	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	778	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		TTCTTAAAACGAGGTCCCCAG	0.458			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			19	193					6.94344e-10	7.72007e-10	0.006122	1	0		T	64981565	T	T	64981565	3	4	1	1	0	0	0	0	1	0	0	0	3100	1058	37	5	62	5	CDH11	16	64981565	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	6429585	64981565	25373188	1061	1061											
DYNC1LI2	1783	broad.mit.edu	37	chr16	66764114	66764114	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctattttcttttcattgtcCcagcctgcaggtctaaaggc	7	15	8	11	0	3	0	1	0	2	0	4	0	4	0	2	2	2	2	2	2	3	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:66764114C>A	uc002eqb.1	-	8	973	c.942G>T	c.(940-942)TGG>TGT	p.W314C	DYNC1LI2_uc010vis.1_Missense_Mutation_p.W237C	NM_006141	NP_006132	O43237	DC1L2_HUMAN	dynein, cytoplasmic, light intermediate	314					transport	centrosome|cytoplasmic dynein complex|microtubule	ATP binding|motor activity			central_nervous_system(3)|skin(1)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0907)|Epithelial(162;0.212)		TTTCATTGTCCCAGCCTGCAG	0.443													6	79					0.00116845	0.00120824	0.001168	1	0		A	66764114	A	A	66764114	3	1	1	1	0	0	0	0	1	0	0	0	4851	624	22	5	560	5	DYNC1LI2	16	66764114	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1782549	66764114	23590639	1062	1062											
CDH16	1014	broad.mit.edu	37	chr16	66944197	66944197	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgccaatcccgttgcacCgtggggttgggaccaagggt	7	7	16	11	3	0	0	0	0	0	0	1	1	1	1	4	5	1	3	4	5	2	2	rs149929306		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:66944197C>T	uc002eql.2	-	15	2206	c.2133G>A	c.(2131-2133)ACG>ACA	p.T711T	CDH16_uc010cdy.2_Silent_p.T689T|CDH16_uc002eqm.2_Silent_p.T614T	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	711	Extracellular (Potential).|Ectodomain G.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		CCCGTTGCACCGTGGGGTTGG	0.632													9	100					0	0	0.004482	0	0		T	66944197	T	T	66944197	2	4	1	1	0	0	0	0	0	0	0	1	3104	639	23	1		1	CDH16	16	66944197	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	180083	66944197	23410556	1063	1063											
SLC9A5	6553	broad.mit.edu	37	chr16	67289730	67289730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctggccctgaccacaCgcttcaccaagcgggtccgc	6	7	9	19	3	1	1	1	1	0	0	4	1	4	1	6	2	1	1	6	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:67289730C>T	uc002esm.2	+	5	871	c.808C>T	c.(808-810)CGC>TGC	p.R270C	SLC9A5_uc010cee.2_Translation_Start_Site|SLC9A5_uc010vji.1_Intron	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	270					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		CCTGACCACACGCTTCACCAA	0.627													3	19					0	0	0.004672	0	0		T	67289730	T	T	67289730	3	4	1	1	0	0	0	0	1	0	0	0	14742	536	19	1	826	1	SLC9A5	16	67289730	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	345533	67289730	23065023	1064	1064											
FAM65A	79567	broad.mit.edu	37	chr16	67572574	67572574	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaggacagcctctccttcaGgagtttcccggtcttcagcc	6	11	10	14	1	4	1	2	1	2	0	6	3	5	3	4	3	2	1	4	3	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:67572574G>A	uc010vjp.1	+	3	261	c.165_splice	c.e3-1	p.R55_splice	FAM65A_uc010cei.1_Splice_Site|FAM65A_uc002eth.2_Splice_Site_p.R35_splice|FAM65A_uc010cej.2_Missense_Mutation_p.R38K|FAM65A_uc002eti.1_Intron|FAM65A_uc010vjq.1_Splice_Site_p.R49_splice|FAM65A_uc002etj.1_Splice_Site_p.R34_splice|FAM65A_uc002etk.2_Splice_Site_p.R34_splice	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567							cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		CTCTCCTTCAGGAGTTTCCCG	0.662													6	74					0	0	0.00308	0	0		A	67572574	A	A	67572574	5	1	1	1	0	0	0	0	0	0	1	0	5613	1014	35	4	110	4	FAM65A	16	67572574	Splice_Site	SNP	G	TCGA-B7-5816-01A-21D-1600-08	282844	67572574	22782179	1065	1065											
CTCF	10664	broad.mit.edu	37	chr16	67650676	67650676	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcacaagtgcccagactgCgacatggcctttgtgaccag	9	8	10	14	1	1	2	1	1	0	1	1	3	1	2	4	1	2	0	4	1	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:67650676C>T	uc002etl.2	+	5	1271	c.981C>T	c.(979-981)TGC>TGT	p.C327C	CTCF_uc010cek.2_5'UTR	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor	327	C2H2-type 3.				chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)		GCCCAGACTGCGACATGGCCT	0.498													64	427					0	0	0.00361	0	0		T	67650676	T	T	67650676	2	4	1	1	0	0	0	0	0	0	0	1	4003	776	27	1		1	CTCF	16	67650676	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	78102	67650676	22704077	1066	1066											
LCAT	3931	broad.mit.edu	37	chr16	67976822	67976822	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgccaaagccagggacGcggatctggacaccaggggc	9	5	15	12	2	2	0	0	0	2	0	2	3	2	3	3	5	2	0	3	5	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:67976822G>A	uc002euy.1	-	3	380	c.369C>T	c.(367-369)CGC>CGT	p.R123R		NM_000229	NP_000220	P04180	LCAT_HUMAN	lecithin-cholesterol acyltransferase precursor	123			R -> C (in FED).		cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|high-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|reverse cholesterol transport|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein A-I binding|phosphatidylcholine-sterol O-acyltransferase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00418)|Epithelial(162;0.0183)|all cancers(182;0.12)		AGCCAGGGACGCGGATCTGGA	0.657													12	106					0	0	0.001368	0	0		A	67976822	A	A	67976822	2	1	1	1	0	0	0	0	0	0	0	1	8674	1074	38	1		1	LCAT	16	67976822	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	326146	67976822	22377931	1067	1067											
SLC12A4	6560	broad.mit.edu	37	chr16	67988673	67988673	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agatcatgaaataggagcccCcagctacagcagagaaatga	17	5	10	9	0	1	4	1	2	0	2	1	6	1	5	2	1	4	2	2	1	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:67988673C>A	uc002euz.2	-	6	689	c.548G>T	c.(547-549)GGG>GTG	p.G183V	SLC12A4_uc010ceu.2_Missense_Mutation_p.G177V|SLC12A4_uc010vkh.1_Missense_Mutation_p.G152V|SLC12A4_uc010vki.1_Missense_Mutation_p.G183V|SLC12A4_uc010vkj.1_Missense_Mutation_p.G185V|SLC12A4_uc002eva.2_Missense_Mutation_p.G183V|SLC12A4_uc002evb.2_RNA|SLC12A4_uc010cew.1_Missense_Mutation_p.G66V	NM_005072	NP_005063	Q9UP95	S12A4_HUMAN	solute carrier family 12, member 4 isoform a	183	Cytoplasmic (Potential).				cell volume homeostasis|potassium ion transport|sodium ion transport	integral to plasma membrane|membrane fraction	potassium:chloride symporter activity			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	ATAGGAGCCCCCAGCTACAGC	0.453													10	54					3.86212e-05	4.1055e-05	0.008291	1	0		A	67988673	A	A	67988673	3	1	1	1	0	0	0	0	1	0	0	0	14410	623	22	5	2785	5	SLC12A4	16	67988673	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	11851	67988673	22366080	1068	1068											
CDH3	1001	broad.mit.edu	37	chr16	68716295	68716295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaactcaccagcgtggCgtgccacctaccttatcatg	8	8	7	18	2	2	0	2	0	0	0	2	0	2	0	6	1	4	0	6	1	3	2	rs74026937	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:68716295C>T	uc002ewf.2	+	9	2219	c.1087C>T	c.(1087-1089)CGT>TGT	p.R363C	CDH3_uc010vli.1_Missense_Mutation_p.R308C	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	363	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		ACCAGCGTGGCGTGCCACCTA	0.597													5	45					0	0	0.000602	0	0		T	68716295	T	T	68716295	3	4	1	1	0	0	0	0	1	0	0	0	3114	768	27	1	1121	1	CDH3	16	68716295	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	727622	68716295	21638458	1069	1069											
TMCO7	79613	broad.mit.edu	37	chr16	68901094	68901094	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctaatggtgttcaggcagTagtccggggcattttggaag	9	11	14	7	1	1	0	1	0	0	0	2	1	2	1	2	5	0	4	2	5	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:68901094T>C	uc002ewi.3	+	4	977	c.965T>C	c.(964-966)GTA>GCA	p.V322A	TMCO7_uc002ewh.2_Missense_Mutation_p.V322A	NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	322						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		GTTCAGGCAGTAGTCCGGGGC	0.478													20	242					0	0	0.012319	0	0		C	68901094	C	C	68901094	3	2	1	1	0	0	0	0	1	0	0	0	16026	1638	57	3	979	3	TMCO7	16	68901094	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	184799	68901094	21453659	1070	1070											
PDPR	55066	broad.mit.edu	37	chr16	70166126	70166126	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtctgggggctttgagaAgaacccgaaaccaattttca	11	10	10	10	1	2	2	1	1	1	2	2	4	2	2	3	2	2	1	3	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:70166126A>G	uc002eyf.1	+	9	1877	c.920A>G	c.(919-921)AAG>AGG	p.K307R	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.K207R|PDPR_uc002eyg.1_Missense_Mutation_p.K35R	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	307					glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		GGCTTTGAGAAGAACCCGAAA	0.473													15	75					0	0	0.003163	0	0		G	70166126	G	G	70166126	3	3	1	1	0	0	0	0	1	0	0	0	11708	72	3	3	946	3	PDPR	16	70166126	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1265032	70166126	20188627	1071	1071											
HYDIN	54768	broad.mit.edu	37	chr16	70891679	70891679	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcggtagttttgcctaccAgcaggaaagggactgtgatg	9	11	14	7	1	0	1	0	1	0	0	1	3	0	3	2	3	3	4	2	3	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:70891679A>G	uc002ezr.2	-	72	12349	c.12221T>C	c.(12220-12222)CTG>CCG	p.L4074P	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4075										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TTTGCCTACCAGCAGGAAAGG	0.473													4	74					0	0	0.000602	0	0		G	70891679	G	G	70891679	3	3	1	1	0	0	0	0	1	0	0	0	7483	188	7	3	3201	3	HYDIN	16	70891679	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	725553	70891679	19463074	1072	1072											
PHLPP2	23035	broad.mit.edu	37	chr16	71689152	71689152	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacctgcttacctgtgagatAccaagaaggtgttagccatg	11	10	10	10	0	0	2	0	1	0	2	0	3	0	2	4	1	4	2	4	1	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:71689152A>G	uc002fax.2	-	16	2582	c.2576T>C	c.(2575-2577)GTA>GCA	p.V859A	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Missense_Mutation_p.V792A	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	859	PP2C-like.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						CCTGTGAGATACCAAGAAGGT	0.428													25	184					0	0	0.004656	0	0		G	71689152	G	G	71689152	3	3	1	1	0	0	0	0	1	0	0	0	11874	391	14	3	1407	3	PHLPP2	16	71689152	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	797473	71689152	18665601	1073	1073											
ZFHX3	463	broad.mit.edu	37	chr16	72993577	72993577	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgccactgccactcccacaGgcgcccccgccctgggtcag	5	5	10	21	2	1	0	1	0	0	0	2	0	2	0	6	2	2	0	6	2	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:72993577G>T	uc002fck.2	-	2	1141	c.468C>A	c.(466-468)GCC>GCA	p.A156A	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	156					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CACTCCCACAGGCGCCCCCGC	0.677													3	42					0.00024832	0.000259996	0.009096	1	0		T	72993577	T	T	72993577	2	4	1	1	0	0	0	0	0	0	0	1	17659	987	35	5		5	ZFHX3	16	72993577	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1304425	72993577	17361176	1074	1074											
ADAT1	23536	broad.mit.edu	37	chr16	75646156	75646156	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccttccaatcagtgctCtctgcatggcttcctggctg	5	13	8	15	0	3	0	2	0	1	0	6	0	5	0	3	2	2	4	3	2	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:75646156C>A	uc002feo.1	-	7	1130	c.1028G>T	c.(1027-1029)AGA>ATA	p.R343I	ADAT1_uc002fep.1_Missense_Mutation_p.R194I	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	343	A to I editase.				tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						AATCAGTGCTCTCTGCATGGC	0.348													22	103					0.000175454	0.000184398	0.010504	1	0		A	75646156	A	A	75646156	3	1	1	1	0	0	0	0	1	0	0	0	284	913	32	5	500	5	ADAT1	16	75646156	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2652579	75646156	14708597	1075	1075											
ATMIN	23300	broad.mit.edu	37	chr16	81078031	81078031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatatcgaagagttcttttCggcctcaaatatccagactc	11	13	7	10	2	2	3	1	1	1	2	6	4	3	3	2	1	0	1	2	1	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:81078031C>T	uc002ffz.1	+	4	1946	c.1928C>T	c.(1927-1929)TCG>TTG	p.S643L	ATMIN_uc002fga.2_Missense_Mutation_p.S485L|ATMIN_uc010vnn.1_Missense_Mutation_p.S414L|ATMIN_uc002fgb.1_Missense_Mutation_p.S485L	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	643					response to DNA damage stimulus	nucleus	zinc ion binding				0						GAGTTCTTTTCGGCCTCAAAT	0.498													14	98					0	0	0.001855	0	0		T	81078031	T	T	81078031	3	4	1	1	0	0	0	0	1	0	0	0	1111	893	31	1	1942	1	ATMIN	16	81078031	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	5431875	81078031	9276722	1076	1076											
HSDL1	83693	broad.mit.edu	37	chr16	84163719	84163719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaccatcaaactagcggCggcaatgttcacatttatga	13	10	9	9	2	2	1	2	1	0	0	2	2	2	2	1	3	2	2	1	3	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:84163719C>T	uc002fhk.2	-	4	722	c.538G>A	c.(538-540)GCC>ACC	p.A180T	HSDL1_uc010vnv.1_Missense_Mutation_p.A125T	NM_031463	NP_113651	Q3SXM5	HSDL1_HUMAN	hydroxysteroid dehydrogenase like 1 isoform a	180						mitochondrion	oxidoreductase activity|protein binding				0						AAACTAGCGGCGGCAATGTTC	0.498													25	149					0	0	0.003954	0	0		T	84163719	T	T	84163719	3	4	1	1	0	0	0	0	1	0	0	0	7409	768	27	1	466	1	HSDL1	16	84163719	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3085688	84163719	6191034	1077	1077											
ANKRD11	29123	broad.mit.edu	37	chr16	89348778	89348778	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaagtccttttcgtacTggccggagtccttcctgcta	6	12	10	13	2	0	0	0	0	0	0	4	2	3	2	5	3	2	2	5	3	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:89348778T>G	uc002fmx.1	-	9	4633	c.4172A>C	c.(4171-4173)CAG>CCG	p.Q1391P	ANKRD11_uc002fmy.1_Missense_Mutation_p.Q1391P|ANKRD11_uc002fnc.1_Missense_Mutation_p.Q1391P|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Missense_Mutation_p.Q1348P	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1391	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CTTTTCGTACTGGCCGGAGTC	0.483													22	187					0	0	0.00333	0	0		G	89348778	G	G	89348778	3	3	1	1	0	0	0	0	1	0	0	0	639	1580	55	5	3839	5	ANKRD11	16	89348778	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	5185059	89348778	1005975	1078	1078											
SPG7	6687	broad.mit.edu	37	chr16	89620279	89620279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgggatggcacctggcatcGggcccatctccttccctgag	5	10	12	14	1	1	1	0	1	1	0	4	2	2	2	4	4	0	2	4	4	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:89620279G>A	uc002fnj.2	+	15	2035	c.2014G>A	c.(2014-2016)GGG>AGG	p.G672R	SPG7_uc002fnl.2_Missense_Mutation_p.G81R	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1	672	Mitochondrial matrix (Potential).				cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		ACCTGGCATCGGGCCCATCTC	0.652													17	106					0	0	0.00499	0	0		A	89620279	A	A	89620279	3	1	1	1	0	0	0	0	1	0	0	0	15069	1116	39	1	2222	1	SPG7	16	89620279	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	271501	89620279	734474	1079	1079											
FANCA	2175	broad.mit.edu	37	chr16	89849268	89849268	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctcaagcaacattaccTcagtaatgtccccagctgat	12	9	8	12	0	2	1	2	1	0	0	3	1	3	1	3	1	4	4	3	1	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:89849268T>G	uc002fou.1	-	17	1667	c.1625A>C	c.(1624-1626)GAG>GCG	p.E542A	FANCA_uc010vpn.1_Missense_Mutation_p.E542A	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	542					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		CAACATTACCTCAGTAATGTC	0.463			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				9	66					0	0	0.006214	0	0		G	89849268	G	G	89849268	3	3	1	1	0	0	0	0	1	0	0	0	5676	1565	54	5	2850	5	FANCA	16	89849268	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	228989	89849268	505485	1080	1080											
SPIRE2	84501	broad.mit.edu	37	chr16	89921027	89921027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgctgatgcaggacatcCgggcccggaactacaagctg	11	6	13	11	2	0	2	0	1	0	1	1	4	1	4	2	3	5	3	2	3	3	1	rs142759329		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:89921027C>T	uc002foz.1	+	5	911	c.859C>T	c.(859-861)CGG>TGG	p.R287W	SPIRE2_uc010civ.1_Missense_Mutation_p.R202W|SPIRE2_uc010ciw.1_Missense_Mutation_p.R287W|SPIRE2_uc002fpa.1_Missense_Mutation_p.R239W|SPIRE2_uc010cix.1_Missense_Mutation_p.R156W	NM_032451	NP_115827	Q8WWL2	SPIR2_HUMAN	spire homolog 2	287	WH2 2.				transport	cytoplasm|cytoskeleton	actin binding			central_nervous_system(1)	1		Lung NSC(15;5.15e-06)|all_lung(18;8.38e-06)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0286)		GCAGGACATCCGGGCCCGGAA	0.647													12	70					0	0	0.001368	0	0		T	89921027	T	T	89921027	3	4	1	1	0	0	0	0	1	0	0	0	15097	643	23	1	877	1	SPIRE2	16	89921027	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	71759	89921027	433726	1081	1081											
DBNDD1	79007	broad.mit.edu	37	chr16	90075836	90075836	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcagcctccttaacgaTctctgcatccaaagacacag	12	8	5	16	1	2	1	1	0	1	1	5	2	4	1	4	0	3	1	4	0	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr16:90075836T>C	uc002fqf.1	-	2	222	c.34A>G	c.(34-36)ATC>GTC	p.I12V	DBNDD1_uc002fqe.1_Missense_Mutation_p.I32V|DBNDD1_uc002fqg.1_RNA	NM_001042610	NP_001036075	Q9H9R9	DBND1_HUMAN	dysbindin (dystrobrevin binding protein 1)	12						cytoplasm					0		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0275)		TCCTTAACGATCTCTGCATCC	0.642													13	130					0	0	0.00499	0	0		C	90075836	C	C	90075836	3	2	1	1	0	0	0	0	1	0	0	0	4256	1435	50	3	454	3	DBNDD1	16	90075836	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	154809	90075836	278917	1082	1082											
ZZEF1	23140	broad.mit.edu	37	chr17	3935533	3935533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattatccatataaacgcagCgggttcccacacagaggacc	13	7	8	13	2	0	1	0	0	0	1	2	2	2	2	3	2	2	2	3	2	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:3935533C>T	uc002fxe.2	-	42	6843	c.6779G>A	c.(6778-6780)CGC>CAC	p.R2260H	ZZEF1_uc002fxh.2_Missense_Mutation_p.R574H|ZZEF1_uc002fxi.2_Missense_Mutation_p.R495H	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	2260							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						ATAAACGCAGCGGGTTCCCAC	0.458													17	124					0	0	0.00499	0	0		T	3935533	T	T	3935533	3	4	1	1	0	0	0	0	1	0	0	0	18280	768	27	1	2162	1	ZZEF1	17	3935533	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08		3935533	77259677	1083	1083											
MYBBP1A	10514	broad.mit.edu	37	chr17	4446275	4446275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctgtgtctcatgcacgCagccctcagcagtgttgccc	5	11	9	16	1	3	0	2	0	2	0	5	0	3	0	3	0	4	4	3	0	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:4446275C>T	uc002fyb.3	-	20	2887	c.2825G>A	c.(2824-2826)TGC>TAC	p.C942Y	MYBBP1A_uc002fxz.3_Missense_Mutation_p.C942Y|MYBBP1A_uc002fya.3_5'Flank|MYBBP1A_uc010vsa.1_5'UTR	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	942					nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						CTCATGCACGCAGCCCTCAGC	0.672													11	111					0	0	0.001368	0	0		T	4446275	T	T	4446275	3	4	1	1	0	0	0	0	1	0	0	0	10026	710	25	2	1229	2	MYBBP1A	17	4446275	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	510742	4446275	76748935	1084	1084											
CAMTA2	23125	broad.mit.edu	37	chr17	4880351	4880351	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcagagggctgggtactcAccgtccagtgacagccagtc	8	8	13	12	1	2	2	2	1	0	1	4	2	3	2	3	2	2	3	3	2	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:4880351A>G	uc002gah.1	-	11	2008	c.1900_splice	c.e11+1	p.D634_splice	CAMTA2_uc010cku.1_Splice_Site_p.D657_splice|CAMTA2_uc002gag.1_Splice_Site_p.D633_splice|CAMTA2_uc002gai.1_Splice_Site_p.D636_splice|CAMTA2_uc010ckv.1_Splice_Site_p.D281_splice	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2						cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						CTGGGTACTCACCGTCCAGTG	0.577													6	64					0	0	0.008291	0	0		G	4880351	G	G	4880351	5	3	1	1	0	0	0	0	0	0	1	0	2617	173	6	3	1808	3	CAMTA2	17	4880351	Splice_Site	SNP	A	TCGA-B7-5816-01A-21D-1600-08	434076	4880351	76314859	1085	1085											
GPR172B	55065	broad.mit.edu	37	chr17	4936856	4936856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaggtggtaggccaggcGcccatagggcaaacaggaaa	13	3	15	10	1	0	0	0	0	0	0	0	1	0	1	3	6	2	2	3	6	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:4936856G>A	uc002gap.3	-	3	1641	c.928C>T	c.(928-930)CGC>TGC	p.R310C	GPR172B_uc002gao.3_Missense_Mutation_p.R310C|GPR172B_uc010ckw.2_Missense_Mutation_p.R188C|GPR172B_uc010ckx.2_Missense_Mutation_p.R310C	NM_001104577	NP_001098047	Q9NWF4	RFT_HUMAN	G protein-coupled receptor 172B precursor	310						integral to plasma membrane	receptor activity|riboflavin transporter activity				0						TAGGCCAGGCGCCCATAGGGC	0.642													14	84					0	0	0.00245	0	0		A	4936856	A	A	4936856	3	1	1	1	0	0	0	0	1	0	0	0	6685	1087	38	1	430	1	GPR172B	17	4936856	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	56505	4936856	76258354	1086	1086											
TEKT1	83659	broad.mit.edu	37	chr17	6704118	6704118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcattagcctatattgtgCgacatcacgacacagctcca	11	11	6	13	2	2	0	2	0	0	0	3	2	3	0	2	0	3	1	2	0	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:6704118C>T	uc002gdt.2	-	7	1107	c.997G>A	c.(997-999)GCA>ACA	p.A333T	TEKT1_uc010vth.1_Missense_Mutation_p.A187T	NM_053285	NP_444515	Q969V4	TEKT1_HUMAN	tektin 1	333	Potential.				microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|skin(1)	2		Myeloproliferative disorder(207;0.0255)				CTATATTGTGCGACATCACGA	0.517											OREG0024124	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	230					0	0	0.010504	0	0		T	6704118	T	T	6704118	3	4	1	1	0	0	0	0	1	0	0	0	15777	768	27	1	267	1	TEKT1	17	6704118	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1767262	6704118	74491092	1087	1087											
FGF11	2256	broad.mit.edu	37	chr17	7345947	7345947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtgtcgctttaaggagtGtgtctttgagaattactacg	9	15	12	5	2	1	2	0	2	1	1	2	4	1	3	0	1	2	1	0	1	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:7345947G>A	uc002ggz.2	+	4	694	c.443G>A	c.(442-444)TGT>TAT	p.C148Y	FGF11_uc010vtw.1_3'UTR|FGF11_uc010cmi.2_Missense_Mutation_p.C24Y|FGF11_uc010vtx.1_Missense_Mutation_p.C89Y|FGF11_uc002gha.3_Missense_Mutation_p.C24Y|CHRNB1_uc002ghb.2_5'Flank|CHRNB1_uc010vty.1_5'Flank	NM_004112	NP_004103	Q92914	FGF11_HUMAN	fibroblast growth factor 11	148					cell-cell signaling|nervous system development|signal transduction		growth factor activity				0		Prostate(122;0.157)				TTTAAGGAGTGTGTCTTTGAG	0.547													65	262					0	0	0.00361	0	0		A	7345947	A	A	7345947	3	1	1	1	0	0	0	0	1	0	0	0	5854	1377	48	4	457	4	FGF11	17	7345947	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	641829	7345947	73849263	1088	1088											
EIF4A1	1973	broad.mit.edu	37	chr17	7480480	7480480	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caaaagctcaacagcaacacCcaggtgagggcagtcttgct	13	6	10	12	0	2	1	1	1	1	0	2	1	2	1	1	2	5	4	1	2	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:7480480C>A	uc002gho.1	+	14	1946	c.621C>A	c.(619-621)ACC>ACA	p.T207T	EIF4A1_uc002ghr.1_Silent_p.T207T|EIF4A1_uc002ghq.1_Silent_p.T207T|EIF4A1_uc002ghp.1_Silent_p.T207T|SNORA67_uc010cml.1_5'Flank|CD68_uc002ghv.2_5'Flank|CD68_uc002ghu.2_5'Flank	NM_001416	NP_001407	P60842	IF4A1_HUMAN	eukaryotic translation initiation factor 4A	207	Helicase ATP-binding.				nuclear-transcribed mRNA poly(A) tail shortening	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA cap binding|translation initiation factor activity			ovary(1)	1						ACAGCAACACCCAGGTGAGGG	0.413													20	84					5.03518e-11	5.6359e-11	0.007413	1	0		A	7480480	A	A	7480480	2	1	1	1	0	0	0	0	0	0	0	1	5032	610	22	5		5	EIF4A1	17	7480480	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	134533	7480480	73714730	1089	1089											
FXR2	9513	broad.mit.edu	37	chr17	7496382	7496382	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccccggcccccagtcggcCgcctccggctttcttcccct	2	9	8	22	4	1	0	0	0	1	0	4	0	3	0	9	3	1	1	9	3	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:7496382C>A	uc002gia.1	-	13	1675	c.1448G>T	c.(1447-1449)CGG>CTG	p.R483L	SOX15_uc002ghy.1_5'Flank|SOX15_uc002ghz.1_5'Flank	NM_004860	NP_004851	P51116	FXR2_HUMAN	fragile X mental retardation syndrome related	483						cytosolic large ribosomal subunit	protein binding|RNA binding				0				READ - Rectum adenocarcinoma(115;0.17)		CCCAGTCGGCCGCCTCCGGCT	0.622													3	18					0.00024832	0.000259996	0.009096	1	0		A	7496382	A	A	7496382	3	1	1	1	0	0	0	0	1	0	0	0	6130	652	23	5	493	5	FXR2	17	7496382	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	15902	7496382	73698828	1090	1090											
ALOXE3	59344	broad.mit.edu	37	chr17	8012618	8012618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgaagtgggccaggcccGtgctcatgaggtagatgagg	9	7	18	7	1	1	4	1	3	0	1	1	4	1	4	2	5	1	2	2	5	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:8012618G>A	uc010cnr.2	-	12	1806	c.1436C>T	c.(1435-1437)ACG>ATG	p.T479M	ALOXE3_uc002gka.2_Missense_Mutation_p.T635M|ALOXE3_uc010vuo.1_Missense_Mutation_p.T611M	NM_021628	NP_067641	Q9BYJ1	LOXE3_HUMAN	arachidonate lipoxygenase 3 isoform 2	479	Lipoxygenase.				leukotriene biosynthetic process		iron ion binding|lipoxygenase activity			skin(3)|lung(1)|central_nervous_system(1)	5						GGCCAGGCCCGTGCTCATGAG	0.652													9	46					0	0	0.006214	0	0		A	8012618	A	A	8012618	3	1	1	1	0	0	0	0	1	0	0	0	542	1145	40	1	719	1	ALOXE3	17	8012618	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	516236	8012618	73182592	1091	1091											
MYH4	4622	broad.mit.edu	37	chr17	10367791	10367791	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgaatatcatgcccacctGcattttgccagaggcaggtt	10	11	10	10	0	1	2	1	1	0	1	1	3	1	2	3	2	3	3	3	2	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:10367791G>T	uc002gmn.2	-	7	757	c.646C>A	c.(646-648)CAG>AAG	p.Q216K	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	216	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						ATGCCCACCTGCATTTTGCCA	0.308													8	38					0.000978159	0.00101398	0.010729	1	0		T	10367791	T	T	10367791	3	4	1	1	0	0	0	0	1	0	0	0	10055	1328	46	5	5309	5	MYH4	17	10367791	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2355173	10367791	70827419	1092	1092											
DNAH9	1770	broad.mit.edu	37	chr17	11593307	11593307	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggcactggaggcagctgAtgcaggccaccggtgtgagc	8	5	17	11	2	0	2	0	2	0	0	0	3	0	3	2	5	4	4	2	5	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:11593307A>G	uc002gne.2	+	20	4236	c.4168A>G	c.(4168-4170)ATG>GTG	p.M1390V	DNAH9_uc010coo.2_Missense_Mutation_p.M684V	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1390	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GAGGCAGCTGATGCAGGCCAC	0.622													5	28					0	0	0.001168	0	0		G	11593307	G	G	11593307	3	3	1	1	0	0	0	0	1	0	0	0	4614	333	12	3	4246	3	DNAH9	17	11593307	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1225516	11593307	69601903	1093	1093											
TOM1L2	146691	broad.mit.edu	37	chr17	17766051	17766051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggccccacatacgtcttgCgctgctcagccaaggagttt	7	9	12	13	2	2	0	1	0	1	0	2	1	2	1	3	3	4	3	3	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:17766051C>T	uc002grz.3	-	11	1353	c.1196G>A	c.(1195-1197)CGC>CAC	p.R399H	TOM1L2_uc002gry.3_Missense_Mutation_p.R349H|TOM1L2_uc010vwy.1_Missense_Mutation_p.R346H|TOM1L2_uc010cpr.2_Missense_Mutation_p.R354H|TOM1L2_uc010vwz.1_Missense_Mutation_p.R251H|TOM1L2_uc010vxa.1_Missense_Mutation_p.R301H|TOM1L2_uc002grv.3_Missense_Mutation_p.R132H	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	399					intracellular protein transport	intracellular					0	all_neural(463;0.228)					ATACGTCTTGCGCTGCTCAGC	0.527													38	283					0	0	0.00623	0	0		T	17766051	T	T	17766051	3	4	1	1	0	0	0	0	1	0	0	0	16378	768	27	1	347	1	TOM1L2	17	17766051	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	6172744	17766051	63429159	1094	1094											
TRIM16L	147166	broad.mit.edu	37	chr17	18630984	18630984	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccaacggtatcaaggcccaCctggagtacaggagtgccga	11	5	13	12	2	1	0	1	0	0	0	1	3	1	2	4	4	3	2	4	4	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:18630984C>T	uc002gug.1	+	7	801	c.114C>T	c.(112-114)CAC>CAT	p.H38H	TRIM16L_uc010vyf.1_Silent_p.H92H|TRIM16L_uc002guh.1_Silent_p.H38H|TRIM16L_uc010cqg.1_Silent_p.H140H|TRIM16L_uc002gui.1_Silent_p.H38H|TRIM16L_uc010vyg.1_Silent_p.H38H|TRIM16L_uc010vyh.1_Silent_p.H38H	NM_001037330	NP_001032407	Q309B1	TR16L_HUMAN	tripartite motif-containing 16-like	38						cytoplasm					0						TCAAGGCCCACCTGGAGTACA	0.567													12	116					0	0	0.00245	0	0		T	18630984	T	T	18630984	2	4	1	1	0	0	0	0	0	0	0	1	16518	506	18	4		4	TRIM16L	17	18630984	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	864933	18630984	62564226	1095	1095											
SLC47A1	55244	broad.mit.edu	37	chr17	19480786	19480786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggaaacagctggtgctgCggcgagggcttctgctcctg	6	8	15	12	2	1	0	0	0	1	0	2	2	2	1	2	4	5	4	2	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:19480786C>T	uc002gvy.1	+	17	1719	c.1633C>T	c.(1633-1635)CGG>TGG	p.R545W	SLC47A1_uc002gvx.2_Missense_Mutation_p.R545W|SLC47A1_uc010vyz.1_3'UTR|SLC47A1_uc010cqp.1_Missense_Mutation_p.R243W|SLC47A1_uc010cqq.1_Missense_Mutation_p.R291W|SLC47A1_uc010vza.1_Missense_Mutation_p.R257W|SLC47A1_uc010vzb.1_Missense_Mutation_p.R220W|SLC47A1_uc010vzc.1_Missense_Mutation_p.R217W	NM_018242	NP_060712	Q96FL8	S47A1_HUMAN	solute carrier family 47, member 1	545	Cytoplasmic (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.49e-05)|all_epithelial(12;0.00263)|Hepatocellular(7;0.00345)					GCTGGTGCTGCGGCGAGGGCT	0.522													20	200					0	0	0.010504	0	0		T	19480786	T	T	19480786	3	4	1	1	0	0	0	0	1	0	0	0	14672	759	27	1	1699	1	SLC47A1	17	19480786	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	849802	19480786	61714424	1096	1096											
ALDH3A2	224	broad.mit.edu	37	chr17	19568270	19568270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgtcctcagctcatcaaaCggatgattgatgagacatcc	11	11	8	11	1	4	3	3	3	1	1	6	5	6	4	2	1	2	1	2	1	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:19568270C>T	uc002gwb.1	+	8	1338	c.1117C>T	c.(1117-1119)CGG>TGG	p.R373W	ALDH3A2_uc002gwa.1_Missense_Mutation_p.R373W|ALDH3A2_uc010cqr.1_Missense_Mutation_p.R180W|ALDH3A2_uc002gwc.1_Missense_Mutation_p.R373W|ALDH3A2_uc002gwd.1_Missense_Mutation_p.R180W	NM_000382	NP_000373	P51648	AL3A2_HUMAN	aldehyde dehydrogenase 3A2 isoform 2	373	Cytoplasmic.				cellular aldehyde metabolic process|central nervous system development|epidermis development|lipid metabolic process|peripheral nervous system development	endoplasmic reticulum membrane|integral to membrane	3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(2)	2	all_cancers(12;1.39e-05)|all_epithelial(12;0.00158)|Breast(13;0.245)				NADH(DB00157)	GCTCATCAAACGGATGATTGA	0.512													6	81					0	0	0.001984	0	0		T	19568270	T	T	19568270	3	4	1	1	0	0	0	0	1	0	0	0	498	527	19	1	1147	1	ALDH3A2	17	19568270	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	87484	19568270	61626940	1097	1097											
USP22	23326	broad.mit.edu	37	chr17	20921375	20921375	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtgggtcagggcctgcacGatgcagttcatgaagcatgt	8	10	15	8	1	2	1	2	1	0	0	2	2	2	1	1	2	3	4	1	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:20921375G>A	uc002gym.3	-	5	774	c.570C>T	c.(568-570)ATC>ATT	p.I190I	USP22_uc002gyn.3_Silent_p.I178I|USP22_uc002gyl.3_Silent_p.I85I	NM_015276	NP_056091	Q9UPT9	UBP22_HUMAN	ubiquitin thiolesterase 22	190					cell cycle|embryo development|histone deubiquitination|histone H4 acetylation|histone ubiquitination|positive regulation of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1						GGGCCTGCACGATGCAGTTCA	0.572													17	150					0	0	0.00499	0	0		A	20921375	A	A	20921375	2	1	1	1	0	0	0	0	0	0	0	1	17080	1048	37	1		1	USP22	17	20921375	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1353105	20921375	60273835	1098	1098											
USP22	23326	broad.mit.edu	37	chr17	20921424	20921424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggttgatcagcccacgcagaCctggacacaaatcaccagag	13	5	10	13	1	2	3	2	1	0	2	2	4	2	4	3	2	1	2	3	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:20921424C>T	uc002gym.3	-	5	725	c.521G>A	c.(520-522)GGT>GAT	p.G174D	USP22_uc002gyn.3_Missense_Mutation_p.G162D|USP22_uc002gyl.3_Missense_Mutation_p.G69D	NM_015276	NP_056091	Q9UPT9	UBP22_HUMAN	ubiquitin thiolesterase 22	174					cell cycle|embryo development|histone deubiquitination|histone H4 acetylation|histone ubiquitination|positive regulation of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1						CCCACGCAGACCTGGACACAA	0.542													11	98					0	0	0.001368	0	0		T	20921424	T	T	20921424	3	4	1	1	0	0	0	0	1	0	0	0	17080	521	18	4	1092	4	USP22	17	20921424	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	49	20921424	60273786	1099	1099											
VTN	7448	broad.mit.edu	37	chr17	26694878	26694878	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacgtggcgcgggatggccgGcgggagttctggttgcggcc	3	7	20	11	6	1	0	0	0	1	0	1	2	1	2	2	7	1	2	2	7	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:26694878G>A	uc002hbc.2	-	7	1331	c.1182C>T	c.(1180-1182)CGC>CGT	p.R394R	SARM1_uc010wah.1_Intron|SEBOX_uc010wai.1_5'Flank|SEBOX_uc010crk.1_5'UTR|SARM1_uc010waj.1_Intron	NM_000638	NP_000629	P04004	VTNC_HUMAN	vitronectin precursor	394	Heparin-binding.				cell adhesion mediated by integrin|immune response|negative regulation of endopeptidase activity|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein binding|positive regulation of receptor-mediated endocytosis|positive regulation of smooth muscle cell migration|positive regulation of vascular endothelial growth factor receptor signaling pathway|smooth muscle cell-matrix adhesion	alphav-beta3 integrin-vitronectin complex|extracellular space	heparin binding|integrin binding|scavenger receptor activity			ovary(1)|kidney(1)	2	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Urokinase(DB00013)	GGGATGGCCGGCGGGAGTTCT	0.597													7	35					0	0	0.008291	0	0		A	26694878	A	A	26694878	2	1	1	1	0	0	0	0	0	0	0	1	17263	1190	42	2		2	VTN	17	26694878	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5773454	26694878	54500332	1100	1100											
SPAG5	10615	broad.mit.edu	37	chr17	26912386	26912386	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaggtagaagtaagactcActgtctgctgaaccagctct	12	9	10	10	0	3	3	1	1	2	2	3	3	3	3	1	1	3	5	1	1	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:26912386A>G	uc002hbq.2	-	9	1996	c.1904T>C	c.(1903-1905)GTG>GCG	p.V635A	SGK494_uc010waq.1_Intron	NM_006461	NP_006452	Q96R06	SPAG5_HUMAN	sperm associated antigen 5	635	Gln-rich.				cell division|mitosis|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytoplasm|spindle pole	protein binding			central_nervous_system(1)	1	Lung NSC(42;0.00431)					AGTAAGACTCACTGTCTGCTG	0.468													7	142					0	0	0.001984	0	0		G	26912386	G	G	26912386	3	3	1	1	0	0	0	0	1	0	0	0	15006	159	6	3	1741	3	SPAG5	17	26912386	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	217508	26912386	54282824	1101	1101											
C17orf63	55731	broad.mit.edu	37	chr17	27086766	27086766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtacgacgaacgtgtttccGctggggaaccttcacactgt	9	10	11	11	4	1	0	1	0	0	0	2	3	2	1	2	2	3	3	2	2	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:27086766G>A	uc002hct.1	-	3	478	c.211C>T	c.(211-213)CGG>TGG	p.R71W	C17orf63_uc010wax.1_Missense_Mutation_p.R71W|C17orf63_uc010way.1_Missense_Mutation_p.R71W|C17orf63_uc002hcw.2_5'UTR	NM_018182	NP_060652	Q8WU58	CQ063_HUMAN	hypothetical protein LOC55731	71										ovary(1)	1	all_epithelial(6;5.06e-20)|Lung NSC(42;0.01)		Epithelial(11;3.38e-06)|all cancers(11;2.46e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.104)			ACGTGTTTCCGCTGGGGAACC	0.552													5	24					0	0	0.000602	0	0		A	27086766	A	A	27086766	3	1	1	1	0	0	0	0	1	0	0	0	1874	1086	38	1		1	C17orf63	17	27086766	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	174380	27086766	54108444	1102	1102											
TMEM132E	124842	broad.mit.edu	37	chr17	32964233	32964233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggctctcctacagtgatgGcaccacagccccactctccc	7	8	7	19	0	2	1	0	1	2	0	4	1	2	1	5	2	2	2	5	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:32964233G>A	uc002hif.2	+	10	2265	c.1937G>A	c.(1936-1938)GGC>GAC	p.G646D		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	646	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		TACAGTGATGGCACCACAGCC	0.562													20	134					0	0	0.002299	0	0		A	32964233	A	A	32964233	3	1	1	1	0	0	0	0	1	0	0	0	16073	1203	42	2	1975	2	TMEM132E	17	32964233	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5877467	32964233	48230977	1103	1103											
CCT6B	10693	broad.mit.edu	37	chr17	33266337	33266337	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acactcctcaataaaagtgaActtttcttcaccctaaaggg	14	11	5	11	0	3	1	2	1	1	0	4	1	4	1	2	1	1	0	2	1	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:33266337A>G	uc002hig.2	-	10	1172	c.1078T>C	c.(1078-1080)TTC>CTC	p.F360L	CCT6B_uc010ctg.2_Missense_Mutation_p.F323L|CCT6B_uc010wcc.1_Missense_Mutation_p.F315L	NM_006584	NP_006575	Q92526	TCPW_HUMAN	chaperonin containing TCP1, subunit 6B	360					chaperone-mediated protein complex assembly|protein folding|spermatogenesis	cytoplasm	ATP binding|protein transporter activity|unfolded protein binding			pancreas(1)	1		Ovarian(249;0.17)				ATAAAAGTGAACTTTTCTTCA	0.323													19	148					0	0	0.007413	0	0		G	33266337	G	G	33266337	3	3	1	1	0	0	0	0	1	0	0	0	2961	43	2	3	534	3	CCT6B	17	33266337	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	302104	33266337	47928873	1104	1104											
LIG3	3980	broad.mit.edu	37	chr17	33325729	33325729	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtggtccttggagccttctAtgggcaagggagcaaaggtc	8	9	16	8	0	1	0	0	0	1	0	3	2	2	2	2	6	2	2	2	6	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:33325729A>G	uc002hik.1	+	14	2204	c.2096A>G	c.(2095-2097)TAT>TGT	p.Y699C	LIG3_uc002hij.2_Missense_Mutation_p.Y699C	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	699					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	GGAGCCTTCTATGGGCAAGGG	0.567								Other_BER_factors			OREG0024326	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	133					0	0	0.007413	0	0		G	33325729	G	G	33325729	3	3	1	1	0	0	0	0	1	0	0	0	8798	449	16	3	2146	3	LIG3	17	33325729	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	59392	33325729	47869481	1105	1105											
SLFN11	91607	broad.mit.edu	37	chr17	33679963	33679963	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaatccaagtggctggtCtgaaagtaatccagaaagat	14	9	10	8	0	1	3	0	1	1	2	3	3	3	3	2	2	1	3	2	2	5	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:33679963C>A	uc010ctp.2	-	7	2560	c.2118G>T	c.(2116-2118)CAG>CAT	p.Q706H	SLFN11_uc010ctq.2_Missense_Mutation_p.Q706H|SLFN11_uc002hjh.3_Missense_Mutation_p.Q706H|SLFN11_uc002hjg.3_Missense_Mutation_p.Q706H|SLFN11_uc010ctr.2_Missense_Mutation_p.Q706H	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	706						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		AGTGGCTGGTCTGAAAGTAAT	0.498													22	207					1.96895e-08	2.16896e-08	0.00278	1	0		A	33679963	A	A	33679963	3	1	1	1	0	0	0	0	1	0	0	0	14758	912	32	5	591	5	SLFN11	17	33679963	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	354234	33679963	47515247	1106	1106											
AP2B1	163	broad.mit.edu	37	chr17	33935348	33935348	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatatcaatgcccaaatggTggaagatcagggatttctgg	12	11	12	6	0	3	2	2	1	1	1	3	4	3	4	1	4	1	0	1	4	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:33935348T>C	uc002hjr.2	+	5	656	c.467T>C	c.(466-468)GTG>GCG	p.V156A	AP2B1_uc002hjq.2_Missense_Mutation_p.V156A|AP2B1_uc010wci.1_Missense_Mutation_p.V118A|AP2B1_uc002hjs.2_Missense_Mutation_p.V99A|AP2B1_uc002hjt.2_Missense_Mutation_p.V156A|AP2B1_uc010ctv.2_Missense_Mutation_p.V156A	NM_001282	NP_001273	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1	156					axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|coated pit|cytosol|endocytic vesicle membrane|plasma membrane	clathrin binding|protein transporter activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		GCCCAAATGGTGGAAGATCAG	0.438													21	231					0	0	0.010504	0	0		C	33935348	C	C	33935348	3	2	1	1	0	0	0	0	1	0	0	0	741	1696	59	3	481	3	AP2B1	17	33935348	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	255385	33935348	47259862	1107	1107											
GGNBP2	79893	broad.mit.edu	37	chr17	34934525	34934525	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttatgaaggcttgcggTgctgtccacatgaacgacac	10	10	10	11	2	0	2	0	2	0	0	1	3	1	2	1	2	3	2	1	2	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:34934525T>C	uc002hnb.2	+	7	1003	c.754T>C	c.(754-756)TGC>CGC	p.C252R	GGNBP2_uc002hna.2_Missense_Mutation_p.C252R|GGNBP2_uc002hnc.1_Missense_Mutation_p.C81R	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	252					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		AGGCTTGCGGTGCTGTCCACA	0.453													9	348					0	0	0.004482	0	0		C	34934525	C	C	34934525	3	2	1	1	0	0	0	0	1	0	0	0	6374	1696	59	3	776	3	GGNBP2	17	34934525	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	999177	34934525	46260685	1108	1108											
HNF1B	6928	broad.mit.edu	37	chr17	36065026	36065026	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatattcgtcaaggtgctgaCtgggggcaaacctcctcctg	8	10	12	11	1	1	1	1	1	0	0	4	2	3	1	3	3	2	2	3	3	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:36065026C>A	uc002hok.3	-	6	1458	c.1237G>T	c.(1237-1239)GTC>TTC	p.V413F	HNF1B_uc010wdi.1_Missense_Mutation_p.V387F	NM_000458	NP_000449	P35680	HNF1B_HUMAN	hepatocyte nuclear factor 1-beta isoform 1	413					endocrine pancreas development|genitalia development|kidney development|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric nephron tubule development|regulation of pronephros size	nucleus	DNA binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			AAGGTGCTGACTGGGGGCAAA	0.493									Hereditary_Prostate_Cancer				10	74					2.17888e-05	2.32804e-05	0.006214	1	0		A	36065026	A	A	36065026	3	1	1	1	0	0	0	0	1	0	0	0	7268	565	20	5	452	5	HNF1B	17	36065026	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1130501	36065026	45130184	1109	1109											
RPL19	6143	broad.mit.edu	37	chr17	37359334	37359334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggctgctcagaagatacCgtgaatctaagaagatcgat	13	8	11	9	3	2	5	1	1	1	4	3	6	2	5	2	1	2	2	2	1	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:37359334C>T	uc002hrq.1	+	4	390	c.328C>T	c.(328-330)CGT>TGT	p.R110C	RPL19_uc002hrr.1_Missense_Mutation_p.R108C	NM_000981	NP_000972	P84098	RL19_HUMAN	ribosomal protein L19	110					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	RNA binding|structural constituent of ribosome				0						CAGAAGATACCGTGAATCTAA	0.498													12	160					0	0	0.001368	0	0		T	37359334	T	T	37359334	3	4	1	1	0	0	0	0	1	0	0	0	13591	652	23	1	342	1	RPL19	17	37359334	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1294308	37359334	43835876	1110	1110											
MED1	5469	broad.mit.edu	37	chr17	37571384	37571384	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctgcacatccattaccActgaaagacaaaatacatag	17	8	5	11	0	0	2	0	1	0	1	2	2	2	2	3	0	3	1	3	0	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:37571384A>G	uc002hrv.3	-	16	1606	c.1394T>C	c.(1393-1395)GTG>GCG	p.V465A	MED1_uc010wee.1_Missense_Mutation_p.V293A|MED1_uc002hru.2_Missense_Mutation_p.V465A	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	465	Interaction with ESR1.|Interaction with THRA.|Interaction with the Mediator complex and THRA.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		ATCCATTACCACTGAAAGACA	0.423										HNSCC(31;0.082)			55	367					0	0	0.00361	0	0		G	37571384	G	G	37571384	3	3	1	1	0	0	0	0	1	0	0	0	9443	173	6	3	3359	3	MED1	17	37571384	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	212050	37571384	43623826	1111	1111											
CDK12	51755	broad.mit.edu	37	chr17	37682159	37682159	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaatcaaagtgaattggCagtgttattaaacctgctgc	12	12	10	7	0	1	2	1	2	0	0	1	2	1	2	1	1	3	4	1	1	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:37682159C>A	uc010cvv.2	+	13	3936	c.3350C>A	c.(3349-3351)GCA>GAA	p.A1117E	CDK12_uc010wef.1_Missense_Mutation_p.A1116E|CDK12_uc002hrw.3_Missense_Mutation_p.A1117E	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	1117					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						AGTGAATTGGCAGTGTTATTA	0.498										TCGA Ovarian(9;0.13)			8	100					0.000442599	0.000461099	0.006214	1	0		A	37682159	A	A	37682159	3	1	1	1	0	0	0	0	1	0	0	0	3131	710	25	5	3400	5	CDK12	17	37682159	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	110775	37682159	43513051	1112	1112											
KRT16	3868	broad.mit.edu	37	chr17	39767703	39767703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catccaacacccggcgcaggCcattgacgtcggcctccaca	9	5	9	18	4	0	1	0	1	0	0	3	1	2	1	5	3	1	1	5	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:39767703C>T	uc002hxg.3	-	3	804	c.665G>A	c.(664-666)GGC>GAC	p.G222D	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	222	Coil 1B.|Rod.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				CCGGCGCAGGCCATTGACGTC	0.617													6	72					0	0	0.001984	0	0		T	39767703	T	T	39767703	3	4	1	1	0	0	0	0	1	0	0	0	8469	739	26	2	780	2	KRT16	17	39767703	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2085544	39767703	41427507	1113	1113											
ATP6V0A1	535	broad.mit.edu	37	chr17	40665982	40665982	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcggctctgggccctcaGcctcgctcatgcgcgtgagt	3	10	13	15	4	3	1	2	1	1	0	4	1	3	1	2	2	3	2	2	2	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:40665982G>T	uc002hzr.2	+	20	2401	c.2234G>T	c.(2233-2235)AGC>ATC	p.S745I	ATP6V0A1_uc002hzq.2_Missense_Mutation_p.S739I|ATP6V0A1_uc002hzs.2_Missense_Mutation_p.S746I|ATP6V0A1_uc010wgj.1_Missense_Mutation_p.S702I|ATP6V0A1_uc010wgk.1_Missense_Mutation_p.S696I|ATP6V0A1_uc010cyg.2_Missense_Mutation_p.S391I|ATP6V0A1_uc010wgl.1_Missense_Mutation_p.S604I|ATP6V0A1_uc002hzt.2_Missense_Mutation_p.S29I	NM_001130021	NP_001123493	Q93050	VPP1_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a1	745	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytoplasmic vesicle membrane|endosome membrane|Golgi apparatus|integral to membrane|melanosome|nucleus|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1		all_cancers(22;1.18e-05)|Breast(137;0.000105)|all_epithelial(22;0.000254)		BRCA - Breast invasive adenocarcinoma(366;0.137)		TGGGCCCTCAGCCTCGCTCAT	0.597													17	149					6.94344e-10	7.72007e-10	0.006122	1	0		T	40665982	T	T	40665982	3	4	1	1	0	0	0	0	1	0	0	0	1169	971	34	5	2329	5	ATP6V0A1	17	40665982	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	898279	40665982	40529228	1114	1114											
GRN	2896	broad.mit.edu	37	chr17	42430091	42430091	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccgctgcgcagccaggggTaccaagtgtttgcgcaggga	7	8	15	11	3	0	0	0	0	0	0	1	1	1	1	3	3	4	5	3	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:42430091T>C	uc002igp.1	+	13	1926	c.1707T>C	c.(1705-1707)GGT>GGC	p.G569G	GRN_uc002igr.1_3'UTR	NM_002087	NP_002078	P28799	GRN_HUMAN	granulin precursor	569					signal transduction	extracellular space	cytokine activity|growth factor activity			ovary(2)|central_nervous_system(2)|skin(1)	5		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		CAGCCAGGGGTACCAAGTGTT	0.652													8	51					0	0	0.010729	0	0		C	42430091	C	C	42430091	2	2	1	1	0	0	0	0	0	0	0	1	6820	1625	57	3		3	GRN	17	42430091	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1764109	42430091	38765119	1115	1115											
GPATCH8	23131	broad.mit.edu	37	chr17	42501806	42501806	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagttcacaataaaagtTggctctgaggtcttccaagg	13	10	9	9	0	3	1	1	1	2	0	4	1	4	1	1	3	0	3	1	3	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:42501806T>C	uc002igw.1	-	6	467	c.403A>G	c.(403-405)AAC>GAC	p.N135D	GPATCH8_uc002igv.1_Missense_Mutation_p.N57D|GPATCH8_uc010wiz.1_Missense_Mutation_p.N57D	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	135						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		CAATAAAAGTTGGCTCTGAGG	0.373													7	144					0	0	0.001984	0	0		C	42501806	C	C	42501806	3	2	1	1	0	0	0	0	1	0	0	0	6609	1812	63	3	4117	3	GPATCH8	17	42501806	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	71715	42501806	38693404	1116	1116											
FMNL1	752	broad.mit.edu	37	chr17	43317920	43317920	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatatttttgatgtgggggcGctgctggaggacacagagac	10	10	15	6	1	0	2	0	1	0	1	0	5	0	4	0	4	1	2	0	4	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:43317920G>A	uc002iin.2	+	12	1358	c.1158G>A	c.(1156-1158)GCG>GCA	p.A386A	FMNL1_uc002iiq.2_5'Flank|FMNL1_uc010dag.2_5'Flank	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	386	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						ATGTGGGGGCGCTGCTGGAGG	0.597													10	65					0	0	0.008291	0	0		A	43317920	A	A	43317920	2	1	1	1	0	0	0	0	0	0	0	1	5965	1074	38	1		1	FMNL1	17	43317920	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	816114	43317920	37877290	1117	1117											
CRHR1	1394	broad.mit.edu	37	chr17	43912119	43912119	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacagcatcaagcagtccAcagcagtctgagctggcagg	11	7	11	12	0	3	1	2	1	1	0	4	1	4	1	1	2	4	5	1	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:43912119A>G	uc010dap.2	+	14	1589	c.1324A>G	c.(1324-1326)ACA>GCA	p.T442A	CRHR1_uc010wjx.1_Missense_Mutation_p.T238A|CRHR1_uc002ijp.2_Silent_p.P266P|CRHR1_uc002ijm.2_Missense_Mutation_p.T413A|CRHR1_uc002ijn.2_Missense_Mutation_p.T373A|CRHR1_uc010dar.2_Missense_Mutation_p.T399A|CRHR1_uc010dao.2_Missense_Mutation_p.T312A|CRHR1_uc010daq.2_Missense_Mutation_p.T238A	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	442	Cytoplasmic (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		CAAGCAGTCCACAGCAGTCTG	0.647													3	53					0	0	0.009096	0	0		G	43912119	G	G	43912119	3	3	1	1	0	0	0	0	1	0	0	0	3874	159	6	3	1378	3	CRHR1	17	43912119	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	594199	43912119	37283091	1118	1118											
SGCA	6442	broad.mit.edu	37	chr17	48246568	48246568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccacttctgtcttgctacGacaccttggcaccccacttc	6	12	5	18	1	2	0	0	0	2	0	4	1	3	0	4	1	2	2	4	1	1	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:48246568G>A	uc002iqi.2	+	6	736	c.700G>A	c.(700-702)GAC>AAC	p.D234N	SGCA_uc010wmh.1_Missense_Mutation_p.D132N|SGCA_uc002iqj.2_Intron|SGCA_uc010wmi.1_RNA|uc010dbn.1_5'Flank	NM_000023	NP_000014	Q16586	SGCA_HUMAN	sarcoglycan, alpha isoform 1 precursor	234	Extracellular (Potential).				muscle contraction|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(2)	2						GTCTTGCTACGACACCTTGGC	0.642											OREG0024558	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	39					0	0	0.010729	0	0		A	48246568	A	A	48246568	3	1	1	1	0	0	0	0	1	0	0	0	14224	1058	37	1	722	1	SGCA	17	48246568	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4334449	48246568	32948642	1119	1119											
EME1	146956	broad.mit.edu	37	chr17	48452823	48452823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtcaggttgctaagcaGtgaaagtgaagatgaagaag	15	7	14	5	0	1	5	1	3	0	2	1	5	1	5	1	1	2	3	1	1	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:48452823G>A	uc002iqs.1	+	2	327	c.254G>A	c.(253-255)AGT>AAT	p.S85N	MRPL27_uc002iqq.2_5'Flank|MRPL27_uc002iqr.2_5'Flank|EME1_uc010dbp.1_Missense_Mutation_p.S85N	NM_152463	NP_689676	Q96AY2	EME1_HUMAN	essential meiotic endonuclease 1 homolog 1	85					DNA recombination|DNA repair	nucleolus	DNA binding|endonuclease activity|metal ion binding|protein binding				0	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			TTGCTAAGCAGTGAAAGTGAA	0.473								Direct_reversal_of_damage|Homologous_recombination					13	137					0	0	0.00245	0	0		A	48452823	A	A	48452823	3	1	1	1	0	0	0	0	1	0	0	0	5096	1029	36	4	256	4	EME1	17	48452823	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	206255	48452823	32742387	1120	1120											
LRRC59	55379	broad.mit.edu	37	chr17	48470164	48470164	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggagatccaggtgctggAggttgaccagacggccaaag	11	6	16	8	1	0	4	0	2	0	2	1	6	1	5	3	5	1	2	3	5	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:48470164A>T	uc002iqt.2	-	3	414	c.260T>A	c.(259-261)CTC>CAC	p.L87H		NM_018509	NP_060979	Q96AG4	LRC59_HUMAN	leucine rich repeat containing 59	87	LRR 4.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial nucleoid	protein binding			central_nervous_system(1)	1	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			CAGGTGCTGGAGGTTGACCAG	0.527													13	122					0	0	0.00245	0	0		T	48470164	T	T	48470164	3	4	1	1	0	0	0	0	1	0	0	0	9033	304	11	5	683	5	LRRC59	17	48470164	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	17341	48470164	32725046	1121	1121											
CACNA1G	8913	broad.mit.edu	37	chr17	48650021	48650021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgcggtcctgcagaagcGtgcccacgctgcgcggggac	6	5	16	14	5	0	1	0	0	0	1	1	2	1	2	2	3	5	3	2	3	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:48650021G>A	uc002irk.1	+	6	1225	c.853G>A	c.(853-855)GTG>ATG	p.V285M	CACNA1G_uc002iri.1_Missense_Mutation_p.V285M|CACNA1G_uc002irj.1_Missense_Mutation_p.V285M|CACNA1G_uc002irl.1_Missense_Mutation_p.V285M|CACNA1G_uc002irm.1_Missense_Mutation_p.V285M|CACNA1G_uc002irn.1_Missense_Mutation_p.V285M|CACNA1G_uc002iro.1_Missense_Mutation_p.V285M|CACNA1G_uc002irp.1_Missense_Mutation_p.V285M|CACNA1G_uc002irq.1_Missense_Mutation_p.V285M|CACNA1G_uc002irr.1_Missense_Mutation_p.V285M|CACNA1G_uc002irs.1_Missense_Mutation_p.V285M|CACNA1G_uc002irt.1_Missense_Mutation_p.V285M|CACNA1G_uc002irv.1_Missense_Mutation_p.V285M|CACNA1G_uc002irw.1_Missense_Mutation_p.V285M|CACNA1G_uc002iru.1_Missense_Mutation_p.V285M|CACNA1G_uc002irx.1_Missense_Mutation_p.V198M|CACNA1G_uc002iry.1_Missense_Mutation_p.V198M|CACNA1G_uc002irz.1_Missense_Mutation_p.V198M|CACNA1G_uc002isa.1_Missense_Mutation_p.V198M|CACNA1G_uc002isb.1_Missense_Mutation_p.V198M|CACNA1G_uc002isc.1_Missense_Mutation_p.V198M|CACNA1G_uc002isd.1_Missense_Mutation_p.V198M|CACNA1G_uc002ise.1_Missense_Mutation_p.V198M|CACNA1G_uc002isf.1_Missense_Mutation_p.V198M|CACNA1G_uc002isg.1_Missense_Mutation_p.V198M|CACNA1G_uc002ish.1_Missense_Mutation_p.V198M|CACNA1G_uc002isi.1_Missense_Mutation_p.V198M	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	285	Extracellular (Potential).|I.				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	CTGCAGAAGCGTGCCCACGCT	0.632													5	12					0	0	0.001168	0	0		A	48650021	A	A	48650021	3	1	1	1	0	0	0	0	1	0	0	0	2547	1145	40	1	875	1	CACNA1G	17	48650021	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	179857	48650021	32545189	1122	1122											
ABCC3	8714	broad.mit.edu	37	chr17	48736701	48736701	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcagctgctggaggcaTggaggaagcaggaaaagcag	13	4	17	7	0	0	0	0	0	0	0	0	4	0	4	0	5	6	7	0	5	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:48736701T>C	uc002isl.2	+	7	858	c.778T>C	c.(778-780)TGG>CGG	p.W260R	ABCC3_uc002isk.3_Missense_Mutation_p.W260R	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	260	Cytoplasmic (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	GCTGGAGGCATGGAGGAAGCA	0.617													9	69					0	0	0.006214	0	0		C	48736701	C	C	48736701	3	2	1	1	0	0	0	0	1	0	0	0	54	1464	51	3	804	3	ABCC3	17	48736701	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	86680	48736701	32458509	1123	1123											
KIF2B	84643	broad.mit.edu	37	chr17	51901904	51901904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaactcacactggtgctcCgggactcctttataggccag	9	9	10	13	1	1	0	1	0	0	0	3	1	3	1	3	3	2	2	3	3	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:51901904C>T	uc002iua.2	+	1	1666	c.1510C>T	c.(1510-1512)CGG>TGG	p.R504W	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	504					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						ACTGGTGCTCCGGGACTCCTT	0.478													7	62					0	0	0.00308	0	0		T	51901904	T	T	51901904	3	4	1	1	0	0	0	0	1	0	0	0	8314	643	23	1	1512	1	KIF2B	17	51901904	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3165203	51901904	29293306	1124	1124											
CUEDC1	404093	broad.mit.edu	37	chr17	55962691	55962691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagctggtcgatggtggCgtccacagcgccgctgttgg	5	8	16	12	4	0	0	0	0	0	0	2	1	1	0	2	4	3	4	2	4	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:55962691C>T	uc002ivd.1	-	2	954	c.235G>A	c.(235-237)GCC>ACC	p.A79T	CUEDC1_uc002ive.1_Missense_Mutation_p.A79T	NM_017949	NP_060419	Q9NWM3	CUED1_HUMAN	CUE domain-containing 1	79	CUE.									skin(2)	2						TCGATGGTGGCGTCCACAGCG	0.622													9	66					0	0	0.001368	0	0		T	55962691	T	T	55962691	3	4	1	1	0	0	0	0	1	0	0	0	4055	768	27	1	961	1	CUEDC1	17	55962691	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4060787	55962691	25232519	1125	1125											
MPO	4353	broad.mit.edu	37	chr17	56350262	56350262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggccatgaggccccggaGgatggggtcaatgccacctg	7	6	17	11	1	1	1	1	1	0	0	1	3	1	3	5	7	1	0	5	7	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:56350262G>A	uc002ivu.1	-	10	1816	c.1639C>T	c.(1639-1641)CTC>TTC	p.L547F		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	547					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	AGGCCCCGGAGGATGGGGTCA	0.567													56	177					0	0	0.00361	0	0		A	56350262	A	A	56350262	3	1	1	1	0	0	0	0	1	0	0	0	9750	1000	35	4	610	4	MPO	17	56350262	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	387571	56350262	24844948	1126	1126											
MPO	4353	broad.mit.edu	37	chr17	56352929	56352929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggcccccacgatcttccGggcttcctggtagagcctct	5	10	10	16	2	2	1	0	0	2	1	4	2	4	1	5	3	1	2	5	3	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:56352929G>A	uc002ivu.1	-	8	1516	c.1339C>T	c.(1339-1341)CGG>TGG	p.R447W		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	447			R -> Q (in a colorectal cancer sample; somatic mutation).		anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity	p.R447Q(1)		ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	ACGATCTTCCGGGCTTCCTGG	0.443													11	60					0	0	0.010729	0	0		A	56352929	A	A	56352929	3	1	1	1	0	0	0	0	1	0	0	0	9750	1115	39	1	918	1	MPO	17	56352929	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2667	56352929	24842281	1127	1127											
BZRAP1	9256	broad.mit.edu	37	chr17	56393891	56393891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagctcctctacctcactgGctgtgtccacctgggggcaa	6	9	10	16	0	2	0	1	0	1	0	4	0	4	0	5	3	2	3	5	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:56393891G>A	uc002ivx.3	-	15	2754	c.1883C>T	c.(1882-1884)GCC>GTC	p.A628V	BZRAP1_uc010dcs.2_Missense_Mutation_p.A568V|BZRAP1_uc010wnt.1_Missense_Mutation_p.A628V	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	628						mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TACCTCACTGGCTGTGTCCAC	0.632													9	51					0	0	0.004482	0	0		A	56393891	A	A	56393891	3	1	1	1	0	0	0	0	1	0	0	0	1580	1203	42	2	3758	2	BZRAP1	17	56393891	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	40962	56393891	24801319	1128	1128											
TRIM37	4591	broad.mit.edu	37	chr17	57126583	57126583	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcatcttcttcatcctCtttggcctctcttacagaag	6	16	4	15	0	6	1	2	0	4	1	9	1	8	1	3	1	1	0	3	1	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:57126583C>A	uc002iwy.3	-	15	1930	c.1486G>T	c.(1486-1488)GAG>TAG	p.E496*	TRIM37_uc002iwz.3_Nonsense_Mutation_p.E496*|TRIM37_uc002ixa.3_Nonsense_Mutation_p.E374*|TRIM37_uc010woc.1_Nonsense_Mutation_p.E462*	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	496						perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TCTTCATCCTCTTTGGCCTCT	0.393									Mulibrey_Nanism				13	133					1.5842e-08	1.74859e-08	0.001855	1	0		A	57126583	A	A	57126583	4	1	1	1	0	0	0	0	0	1	0	0	16537	922	32	5	1456	5	TRIM37	17	57126583	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	732692	57126583	24068627	1129	1129											
TRIM37	4591	broad.mit.edu	37	chr17	57158518	57158518	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagtttggctacctcttcAttcactttagtgacgtgttg	7	16	9	9	2	3	1	2	1	1	0	3	2	3	1	1	1	1	3	1	1	3	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:57158518A>G	uc002iwy.3	-	6	876	c.432T>C	c.(430-432)AAT>AAC	p.N144N	TRIM37_uc002iwz.3_Silent_p.N144N|TRIM37_uc002ixa.3_Silent_p.N22N|TRIM37_uc010woc.1_Silent_p.N110N	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	144	Potential.					perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					CTACCTCTTCATTCACTTTAG	0.343									Mulibrey_Nanism				16	172					0	0	0.00499	0	0		G	57158518	G	G	57158518	2	3	1	1	0	0	0	0	0	0	0	1	16537	214	8	3		3	TRIM37	17	57158518	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	31935	57158518	24036692	1130	1130											
PRR11	55771	broad.mit.edu	37	chr17	57247159	57247159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaagctaaaagccaaagccGaaagattattcaaaaaaaaa	24	5	6	6	1	1	1	1	0	0	1	1	3	1	1	2	0	3	1	2	0	10	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:57247159G>A	uc002ixf.1	+	2	125	c.46G>A	c.(46-48)GAA>AAA	p.E16K	PRR11_uc002ixg.1_RNA	NM_018304	NP_060774	Q96HE9	PRR11_HUMAN	proline rich 11	16										ovary(2)	2	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					AGCCAAAGCCGAAAGATTATT	0.338													10	80					0	0	0.006214	0	0		A	57247159	A	A	57247159	3	1	1	1	0	0	0	0	1	0	0	0	12605	1059	37	1	48	1	PRR11	17	57247159	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	88641	57247159	23948051	1131	1131											
KCNH6	81033	broad.mit.edu	37	chr17	61622451	61622451	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggcaggctggagtcccgCgtgtcctcagacctcagccg	5	8	13	15	3	3	1	2	0	1	1	5	2	5	2	4	3	1	2	4	3	0	0	rs140681295		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:61622451C>T	uc002jay.2	+	13	2597	c.2517C>T	c.(2515-2517)CGC>CGT	p.R839R	KCNH6_uc010wpl.1_Silent_p.R680R|KCNH6_uc010wpm.1_Silent_p.R803R|KCNH6_uc002jaz.1_Silent_p.R750R	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	839	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	TGGAGTCCCGCGTGTCCTCAG	0.612													8	135					0	0	0.00308	0	0		T	61622451	T	T	61622451	2	4	1	1	0	0	0	0	0	0	0	1	8052	755	27	1		1	KCNH6	17	61622451	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4375292	61622451	19572759	1132	1132											
CSH2	1443	broad.mit.edu	37	chr17	61949631	61949631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgagtttgtgtcaaacttgCtgtaggtctgcttgaggatc	7	15	13	6	0	2	2	1	2	1	0	3	3	2	3	0	2	3	4	0	2	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:61949631C>T	uc002jch.2	-	5	624	c.509G>A	c.(508-510)AGC>AAC	p.S170N	CSH2_uc002jcg.2_Missense_Mutation_p.S75N|CSH2_uc002jci.2_3'UTR|GH2_uc002jcj.2_Missense_Mutation_p.A169T|CSH2_uc002jck.2_Missense_Mutation_p.S170N	NM_020991	NP_066271	P01243	CSH_HUMAN	chorionic somatomammotropin hormone 2 isoform 1	170					female pregnancy|signal transduction	extracellular region	hormone activity|metal ion binding				0						GTCAAACTTGCTGTAGGTCTG	0.547													30	210					0	0	0.009535	0	0		T	61949631	T	T	61949631	3	4	1	1	0	0	0	0	1	0	0	0	3944	797	28	2	148	2	CSH2	17	61949631	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	327180	61949631	19245579	1133	1133											
SCN4A	6329	broad.mit.edu	37	chr17	62018729	62018729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgaagtctgagaggcggCtgtaggcgatgaactgggtg	9	7	17	8	3	1	2	0	2	1	1	1	5	1	2	1	4	1	2	1	4	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:62018729C>T	uc002jds.1	-	24	4990	c.4913G>A	c.(4912-4914)AGC>AAC	p.S1638N		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1638					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	TGAGAGGCGGCTGTAGGCGAT	0.572													9	50					0	0	0.010729	0	0		T	62018729	T	T	62018729	3	4	1	1	0	0	0	0	1	0	0	0	13945	797	28	2	601	2	SCN4A	17	62018729	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	69098	62018729	19176481	1134	1134											
OTOP2	92736	broad.mit.edu	37	chr17	72920768	72920768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccccaaggagagcccccCggcgccgcgtgcgggcccca	5	1	16	19	5	0	1	0	0	0	1	0	2	0	1	8	4	2	0	8	4	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:72920768C>T	uc010wrp.1	+	3	130	c.41C>T	c.(40-42)CCG>CTG	p.P14L	USH1G_uc002jme.1_5'Flank|USH1G_uc010wro.1_5'Flank|OTOP2_uc002jmf.1_Missense_Mutation_p.P14L	NM_178160	NP_835454	Q7RTS6	OTOP2_HUMAN	otopetrin 2	14						integral to membrane				ovary(3)|large_intestine(1)	4	all_lung(278;0.172)|Lung NSC(278;0.207)					GAGAGCCCCCCGGCGCCGCGT	0.692													3	9					0	0	0.000602	0	0		T	72920768	T	T	72920768	3	4	1	1	0	0	0	0	1	0	0	0	11325	652	23	1	43	1	OTOP2	17	72920768	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	10902039	72920768	8274442	1135	1135											
OTOP3	347741	broad.mit.edu	37	chr17	72939797	72939797	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcgaagctgagcttggCatcctcatggaaaaatccac	13	8	10	10	1	1	2	1	1	0	1	4	5	3	3	2	2	2	3	2	2	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:72939797C>T	uc010wrr.1	+	5	783	c.783C>T	c.(781-783)GGC>GGT	p.G261G	OTOP3_uc010wrq.1_Silent_p.G243G	NM_178233	NP_839947	Q7RTS5	OTOP3_HUMAN	otopetrin 3	261						integral to membrane|intracellular	zinc ion binding			ovary(1)	1	all_lung(278;0.151)|Lung NSC(278;0.185)					CTGAGCTTGGCATCCTCATGG	0.448													4	63					0	0	0.009096	0	0		T	72939797	T	T	72939797	2	4	1	1	0	0	0	0	0	0	0	1	11326	697	25	2		2	OTOP3	17	72939797	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	19029	72939797	8255413	1136	1136											
UNC13D	201294	broad.mit.edu	37	chr17	73831088	73831088	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggctgatctgggcaaagcaGgtggatagatccaccgctga	10	8	14	9	1	1	3	0	2	1	1	2	4	2	4	2	4	1	4	2	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:73831088G>T	uc002jpp.2	-	21	2285	c.1905C>A	c.(1903-1905)ACC>ACA	p.T635T	UNC13D_uc010wsk.1_Silent_p.T635T|UNC13D_uc002jpq.1_Silent_p.T285T	NM_199242	NP_954712	Q70J99	UN13D_HUMAN	unc-13 homolog D	635	MHD1.				positive regulation of exocytosis|regulation of mast cell degranulation	exocytic vesicle|late endosome|lysosome|membrane|recycling endosome	protein binding			upper_aerodigestive_tract(1)|skin(1)	2			all cancers(21;2.11e-06)|Epithelial(20;2.32e-06)|BRCA - Breast invasive adenocarcinoma(9;0.000618)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGGCAAAGCAGGTGGATAGAT	0.587									Familial_Hemophagocytic_Lymphohistiocytosis				10	61					1.58986e-06	1.72072e-06	0.008291	1	0		T	73831088	T	T	73831088	2	4	1	1	0	0	0	0	0	0	0	1	17013	987	35	5		5	UNC13D	17	73831088	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	891291	73831088	7364122	1137	1137											
EVPL	2125	broad.mit.edu	37	chr17	74004369	74004369	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatggccgcctccagccgCgagagctcctggccccgctg	5	5	14	17	4	0	1	0	0	0	1	2	3	2	2	7	3	2	2	7	3	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:74004369C>T	uc002jqi.2	-	22	5145	c.4917G>A	c.(4915-4917)TCG>TCA	p.S1639S	EVPL_uc010wss.1_Silent_p.S1661S|EVPL_uc010wst.1_Silent_p.S1109S	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1639	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CCTCCAGCCGCGAGAGCTCCT	0.677													4	23					0	0	0.000602	0	0		T	74004369	T	T	74004369	2	4	1	1	0	0	0	0	0	0	0	1	5300	755	27	1		1	EVPL	17	74004369	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	173281	74004369	7190841	1138	1138											
QRICH2	84074	broad.mit.edu	37	chr17	74300520	74300520	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaggctctccagccgtcCgtaatcgcctgctccagctc	5	10	10	16	3	1	1	0	1	1	0	6	1	3	1	5	1	3	4	5	1	1	1	rs139449389	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:74300520C>T	uc002jrd.1	-	3	363	c.183G>A	c.(181-183)ACG>ACA	p.T61T	QRICH2_uc010dgw.1_5'UTR	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	61							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						TCCAGCCGTCCGTAATCGCCT	0.592													4	37					0	0	0.000602	0	0		T	74300520	T	T	74300520	2	4	1	1	0	0	0	0	0	0	0	1	12905	639	23	1		1	QRICH2	17	74300520	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	296151	74300520	6894690	1139	1139											
TK1	7083	broad.mit.edu	37	chr17	76171657	76171657	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccacaattacggtcttccCggcgttggccatggcctcgc	6	9	11	15	4	1	0	0	0	1	0	3	0	2	0	4	4	2	1	4	4	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:76171657C>T	uc002juw.2	-	5	556	c.346G>A	c.(346-348)GGG>AGG	p.G116R	TK1_uc002jux.2_Missense_Mutation_p.G158R	NM_003258	NP_003249	P04183	KITH_HUMAN	thymidine kinase 1	116					DNA replication|protein homotetramerization|pyrimidine base metabolic process|pyrimidine nucleoside salvage	cytosol	ATP binding|thymidine kinase activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|OV - Ovarian serous cystadenocarcinoma(97;0.0804)|Lung(188;0.23)			ACGGTCTTCCCGGCGTTGGCC	0.592													6	91					0	0	0.008291	0	0		T	76171657	T	T	76171657	3	4	1	1	0	0	0	0	1	0	0	0	15957	652	23	1	370	1	TK1	17	76171657	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1871137	76171657	5023553	1140	1140											
AFMID	125061	broad.mit.edu	37	chr17	76200772	76200772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatggtccacccgctgaCggcacagggagtggccgtgg	6	7	15	13	3	1	1	1	1	0	0	2	2	2	2	3	5	0	2	3	5	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:76200772C>T	uc002jva.3	+	5	359	c.344C>T	c.(343-345)ACG>ATG	p.T115M	AFMID_uc002jvb.3_Intron|AFMID_uc002juz.3_Missense_Mutation_p.T115M	NM_001010982	NP_001010982	Q63HM1	AFMID_HUMAN	arylformamidase isoform 1	115						cytosol|nucleus	arylformamidase activity			large_intestine(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|OV - Ovarian serous cystadenocarcinoma(97;0.134)			CACCCGCTGACGGCACAGGGA	0.592													3	51					0	0	0.004672	0	0		T	76200772	T	T	76200772	3	4	1	1	0	0	0	0	1	0	0	0	362	536	19	1	362	1	AFMID	17	76200772	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	29115	76200772	4994438	1141	1141											
USP36	57602	broad.mit.edu	37	chr17	76817075	76817075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggacagatctgtacccGgatctccagcgcgacgtcca	9	6	12	14	4	2	1	0	0	2	1	4	4	3	3	3	3	2	2	3	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:76817075G>A	uc002jvz.1	-	8	1151	c.826C>T	c.(826-828)CGG>TGG	p.R276W	USP36_uc002jwa.1_Missense_Mutation_p.R276W|USP36_uc002jwc.1_5'UTR	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	276					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			ATCTGTACCCGGATCTCCAGC	0.552													4	10					0	0	0.000602	0	0		A	76817075	A	A	76817075	3	1	1	1	0	0	0	0	1	0	0	0	17093	1115	39	1	2597	1	USP36	17	76817075	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	616303	76817075	4378135	1142	1142											
USP36	57602	broad.mit.edu	37	chr17	76825020	76825020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agacgggcttgatggcgttgCcgctgttggcgaaggcctgg	5	9	18	9	4	0	2	0	1	0	1	0	3	0	2	2	5	1	4	2	5	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:76825020C>T	uc002jvz.1	-	5	870	c.545G>A	c.(544-546)GGC>GAC	p.G182D	USP36_uc002jwa.1_Missense_Mutation_p.G182D|USP36_uc002jwd.1_Missense_Mutation_p.G182D	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	182					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			GATGGCGTTGCCGCTGTTGGC	0.443													5	65					0	0	0.001168	0	0		T	76825020	T	T	76825020	3	4	1	1	0	0	0	0	1	0	0	0	17093	739	26	2	2890	2	USP36	17	76825020	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	7945	76825020	4370190	1143	1143											
CCDC40	55036	broad.mit.edu	37	chr17	78013765	78013765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggaaggggaagaggaggCtgtgtcctatggagatgctg	10	8	19	4	0	0	2	0	0	0	2	1	6	1	5	1	6	1	2	1	6	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:78013765C>T	uc010dht.2	+	3	275	c.248C>T	c.(247-249)GCT>GTT	p.A83V	CCDC40_uc010wub.1_Missense_Mutation_p.A83V	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	83					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			gaagaggaggCTGTGTCCTAT	0.348													8	57					0	0	0.00308	0	0		T	78013765	T	T	78013765	3	4	1	1	0	0	0	0	1	0	0	0	2815	797	28	2	258	2	CCDC40	17	78013765	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1188745	78013765	3181445	1144	1144											
RNF213	57674	broad.mit.edu	37	chr17	78323578	78323578	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaactctgtagatcaccacTttctccaggctgctaacaag	11	12	6	12	0	3	1	1	0	2	1	4	1	3	1	2	1	3	3	2	1	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:78323578T>G	uc002jyh.1	+	5	4402	c.4179T>G	c.(4177-4179)ACT>ACG	p.T1393T		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			AGATCACCACTTTCTCCAGGC	0.473													5	233					0	0	0.000602	0	0		G	78323578	G	G	78323578	2	3	1	1	0	0	0	0	0	0	0	1	13502	1596	56	5		5	RNF213	17	78323578	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	309813	78323578	2871632	1145	1145											
CHMP6	79643	broad.mit.edu	37	chr17	78971093	78971093	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggcaggaagcttcacTcaggaggatgaagacgccat	11	7	12	11	1	2	2	2	1	0	1	3	5	3	5	2	4	1	2	2	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:78971093T>C	uc002jyw.3	+	6	525	c.447T>C	c.(445-447)ACT>ACC	p.T149T		NM_024591	NP_078867	Q96FZ7	CHMP6_HUMAN	chromatin modifying protein 6	149					cellular membrane organization|endosome transport|protein transport	cytosol|endomembrane system|late endosome membrane	protein N-terminus binding			ovary(1)	1	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0175)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			GAAGCTTCACTCAGGAGGATG	0.627													5	22					0	0	0.001168	0	0		C	78971093	C	C	78971093	2	2	1	1	0	0	0	0	0	0	0	1	3363	1538	54	3		3	CHMP6	17	78971093	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	647515	78971093	2224117	1146	1146											
P4HB	5034	broad.mit.edu	37	chr17	79803557	79803557	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgttctcatggtccttgtaCgtctctcccagtttatccca	6	16	6	13	1	2	0	1	0	2	0	7	0	5	0	3	1	1	3	3	1	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:79803557C>T	uc002kbn.1	-	9	1436	c.1239G>A	c.(1237-1239)ACG>ACA	p.T413T	P4HB_uc002kbl.1_Silent_p.T90T|P4HB_uc002kbm.1_Silent_p.T90T	NM_000918	NP_000909	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta subunit precursor	413	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|lipid metabolic process|lipoprotein metabolic process|peptidyl-proline hydroxylation to 4-hydroxy-L-proline	cell surface|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|extracellular region|melanosome|plasma membrane	electron carrier activity|procollagen-proline 4-dioxygenase activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			GGTCCTTGTACGTCTCTCCCA	0.517													17	64					0	0	0.00499	0	0		T	79803557	T	T	79803557	2	4	1	1	0	0	0	0	0	0	0	1	11378	523	19	1		1	P4HB	17	79803557	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	832464	79803557	1391653	1147	1147											
RFNG	5986	broad.mit.edu	37	chr17	80007611	80007611	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaggtgagagtggaagAgggggctgtgcagcaggcgg	8	6	20	7	1	1	2	0	1	1	2	2	4	1	3	1	6	2	3	1	6	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:80007611A>G	uc002kdj.2	-	6	778	c.770T>C	c.(769-771)CTC>CCC	p.L257P	RFNG_uc002kdh.2_Missense_Mutation_p.L42P|GPS1_uc002kdk.1_5'Flank|GPS1_uc002kdl.1_5'Flank|GPS1_uc010dij.1_5'Flank|GPS1_uc002kdm.1_5'Flank|GPS1_uc002kdn.1_5'Flank|GPS1_uc002kdo.1_5'Flank|GPS1_uc010wvh.1_5'Flank	NM_002917	NP_002908	Q9Y644	RFNG_HUMAN	radical fringe	257	Lumenal (Potential).				cell differentiation|nervous system development|organ morphogenesis|pattern specification process	extracellular region|integral to Golgi membrane	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			AGAGTGGAAGAGGGGGCTGTG	0.662													3	6					0	0	0.000602	0	0		G	80007611	G	G	80007611	3	3	1	1	0	0	0	0	1	0	0	0	13277	304	11	3	237	3	RFNG	17	80007611	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	204054	80007611	1187599	1148	1148											
FN3KRP	79672	broad.mit.edu	37	chr17	80684911	80684911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttttactccgcctaccacgGcaaaatccccaaggccccag	10	7	6	18	2	0	0	0	0	0	0	2	0	2	0	7	2	2	1	7	2	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr17:80684911G>A	uc002kfu.2	+	6	844	c.794G>A	c.(793-795)GGC>GAC	p.G265D	FN3KRP_uc010wvr.1_Missense_Mutation_p.G215D	NM_024619	NP_078895	Q9HA64	KT3K_HUMAN	fructosamine 3 kinase related protein	265				G -> C (in Ref. 4; AAH01458).			kinase activity				0	Breast(20;0.000523)|all_neural(118;0.0952)		BRCA - Breast invasive adenocarcinoma(99;0.0344)|OV - Ovarian serous cystadenocarcinoma(97;0.061)			GCCTACCACGGCAAAATCCCC	0.502													11	161					0	0	0.004007	0	0		A	80684911	A	A	80684911	3	1	1	1	0	0	0	0	1	0	0	0	5978	1203	42	2	816	2	FN3KRP	17	80684911	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	677300	80684911	510299	1149	1149											
LAMA1	284217	broad.mit.edu	37	chr18	6978296	6978296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctcctggctcagccccGccacgtccctcagcgtgctc	4	7	10	20	3	2	0	2	0	0	0	5	0	4	0	5	1	4	4	5	1	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:6978296G>A	uc002knm.2	-	43	6183	c.6089C>T	c.(6088-6090)GCG>GTG	p.A2030V	LAMA1_uc010wzj.1_Missense_Mutation_p.A1506V	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2030	Domain II and I.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding	p.A2030A(1)		ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCTCAGCCCCGCCACGTCCCT	0.552													18	54					0	0	0.007413	0	0		A	6978296	A	A	6978296	3	1	1	1	0	0	0	0	1	0	0	0	8621	1087	38	1	3222	1	LAMA1	18	6978296	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08		6978296	71098952	1150	1150											
PTPRM	5797	broad.mit.edu	37	chr18	8376108	8376108	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctggccggatcatggggTcccctaccatgccaccggcc	5	7	13	16	2	1	0	1	0	0	0	2	1	2	1	7	6	2	1	7	6	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:8376108T>C	uc002knn.3	+	23	3700	c.3197T>C	c.(3196-3198)GTC>GCC	p.V1066A	PTPRM_uc010dkv.2_Missense_Mutation_p.V1079A|PTPRM_uc010wzl.1_Missense_Mutation_p.V853A	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1066	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				GATCATGGGGTCCCCTACCAT	0.577													11	70					0	0	0.001368	0	0		C	8376108	C	C	8376108	3	2	1	1	0	0	0	0	1	0	0	0	12831	1667	58	3	3334	3	PTPRM	18	8376108	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1397812	8376108	69701140	1151	1151											
RALBP1	10928	broad.mit.edu	37	chr18	9517199	9517199	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgatgcagtagagaggAccatgatgtatgatggcatt	11	11	14	5	0	0	4	0	3	0	1	0	6	0	5	1	3	1	5	1	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:9517199A>G	uc002kob.2	+	3	824	c.601A>G	c.(601-603)ACC>GCC	p.T201A	RALBP1_uc002koc.2_Missense_Mutation_p.T201A	NM_006788	NP_006779	Q15311	RBP1_HUMAN	ralA binding protein 1	201	Rho-GAP.				chemotaxis|positive regulation of Cdc42 GTPase activity|small GTPase mediated signal transduction|transport	cytosol|membrane	ATPase activity, coupled to movement of substances|Rac GTPase activator activity|Rac GTPase binding|Ral GTPase binding			central_nervous_system(1)	1						AGTAGAGAGGACCATGATGTA	0.423													7	42					0	0	0.00308	0	0		G	9517199	G	G	9517199	3	3	1	1	0	0	0	0	1	0	0	0	13037	275	10	3	607	3	RALBP1	18	9517199	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1141091	9517199	68560049	1152	1152											
GNAL	2774	broad.mit.edu	37	chr18	11753646	11753646	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggaaaagaaacagaaaattCtggacatccggaaaaatgtt	19	7	10	5	1	1	2	0	0	1	2	2	5	2	5	1	3	1	1	1	3	7	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:11753646C>T	uc010dkz.2	+	4	484	c.238C>T	c.(238-240)CTG>TTG	p.L80L	GNAL_uc002kqc.2_Silent_p.L157L|GNAL_uc002kqd.2_Silent_p.L80L	NM_001142339	NP_001135811	P38405	GNAL_HUMAN	guanine nucleotide binding protein (G protein),	80					activation of adenylate cyclase activity by dopamine receptor signaling pathway|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception of smell|synaptic transmission	heterotrimeric G-protein complex	adenylate cyclase activity|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						ACAGAAAATTCTGGACATCCG	0.323													8	70					0	0	0.00308	0	0		T	11753646	T	T	11753646	2	4	1	1	0	0	0	0	0	0	0	1	6522	912	32	4		4	GNAL	18	11753646	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2236447	11753646	66323602	1153	1153											
RNMT	8731	broad.mit.edu	37	chr18	13741531	13741531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctgattgacaaatttcGtgacccacaaatgtgttttg	11	15	7	8	1	1	3	0	3	1	0	2	3	1	3	1	0	0	1	1	0	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:13741531G>A	uc002ksk.1	+	6	882	c.815G>A	c.(814-816)CGT>CAT	p.R272H	RNMT_uc002ksl.1_Missense_Mutation_p.R272H|RNMT_uc002ksm.1_Missense_Mutation_p.R272H|RNMT_uc010dlk.2_Missense_Mutation_p.R272H|RNMT_uc010xae.1_RNA	NM_003799	NP_003790	O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	272					mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	mRNA (guanine-N7-)-methyltransferase activity|RNA binding				0						GACAAATTTCGTGACCCACAA	0.338													13	190					0	0	0.00245	0	0		A	13741531	A	A	13741531	3	1	1	1	0	0	0	0	1	0	0	0	13531	1145	40	1	833	1	RNMT	18	13741531	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1987885	13741531	64335717	1154	1154											
MC5R	4161	broad.mit.edu	37	chr18	13826447	13826447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgcccggggccagctctgCgcggcagaggaccagcatgc	6	5	15	15	3	2	1	0	0	2	1	2	2	2	2	3	4	5	3	3	4	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:13826447C>T	uc010xaf.1	+	1	683	c.683C>T	c.(682-684)GCG>GTG	p.A228V		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	228	Cytoplasmic (Potential).			ALPGASSARQRTSM -> LCPGPALRGRGPAW (in Ref. 1).	G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6						GCCAGCTCTGCGCGGCAGAGG	0.612													40	295					0	0	0.007835	0	0		T	13826447	T	T	13826447	3	4	1	1	0	0	0	0	1	0	0	0	9385	768	27	1	685	1	MC5R	18	13826447	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	84916	13826447	64250801	1155	1155											
ROCK1	6093	broad.mit.edu	37	chr18	18564452	18564452	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aattcattttgtaacaacagCcgcttatttgattcctgctc	10	16	5	10	1	1	1	1	1	0	0	3	1	2	1	2	0	4	3	2	0	4	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:18564452C>T	uc002kte.2	-	20	3290	c.2349G>A	c.(2347-2349)CGG>CGA	p.R783R		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	783	Glu-rich.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					GTAACAACAGCCGCTTATTTG	0.313													18	142					0	0	0.006122	0	0		T	18564452	T	T	18564452	2	4	1	1	0	0	0	0	0	0	0	1	13542	726	26	2		2	ROCK1	18	18564452	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4738005	18564452	59512796	1156	1156											
ROCK1	6093	broad.mit.edu	37	chr18	18586465	18586465	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctctgttcagggactctaActgactaattgacttgctca	9	14	7	11	0	4	2	2	2	2	0	5	3	4	3	0	1	2	2	0	1	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:18586465A>G	uc002kte.2	-	16	2673	c.1732T>C	c.(1732-1734)TTA>CTA	p.L578L		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	578	Interaction with FHOD1.|Potential.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					AGGGACTCTAACTGACTAATT	0.383													8	280					0	0	0.00308	0	0		G	18586465	G	G	18586465	2	3	1	1	0	0	0	0	0	0	0	1	13542	40	2	3		3	ROCK1	18	18586465	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	22013	18586465	59490783	1157	1157											
NPC1	4864	broad.mit.edu	37	chr18	21131673	21131673	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggagcaaacttgtatcAttcagagaggcaggagccct	12	9	11	9	0	3	1	3	0	0	1	3	4	3	3	1	3	3	3	1	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:21131673A>G	uc002kum.3	-	10	1846	c.1572T>C	c.(1570-1572)AAT>AAC	p.N524N	NPC1_uc010xaz.1_Intron|NPC1_uc010xba.1_Silent_p.N369N	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	524					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					AACTTGTATCATTCAGAGAGG	0.438													32	212					0	0	0.002836	0	0		G	21131673	G	G	21131673	2	3	1	1	0	0	0	0	0	0	0	1	10589	214	8	3		3	NPC1	18	21131673	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2545208	21131673	56945575	1158	1158											
DSC3	1825	broad.mit.edu	37	chr18	28588412	28588412	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgttcaaggctgtcactctgGgaatatctctagcaaatggc	10	12	10	9	0	4	0	2	0	2	0	5	1	4	1	0	3	1	3	0	3	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:28588412G>T	uc002kwj.3	-	10	1498	c.1343C>A	c.(1342-1344)CCC>CAC	p.P448H	DSC3_uc002kwi.3_Missense_Mutation_p.P448H	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	448	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			TGTCACTCTGGGAATATCTCT	0.438													5	188					0.000602214	0.000625823	0.000602	1	0		T	28588412	T	T	28588412	3	4	1	1	0	0	0	0	1	0	0	0	4773	1232	43	5	1406	5	DSC3	18	28588412	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	7456739	28588412	49488836	1159	1159											
KIAA1012	22878	broad.mit.edu	37	chr18	29429625	29429625	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctgtatgcacaggcaaGtgagcttgtggttttttcaa	8	17	10	6	0	2	1	1	1	1	0	2	1	2	1	0	2	2	5	0	2	3	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:29429625G>A	uc002kxc.3	-	25	4003	c.3639C>T	c.(3637-3639)CAC>CAT	p.H1213H	KIAA1012_uc002kxb.3_Silent_p.H1159H|KIAA1012_uc002kxd.3_RNA	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	1213					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						GCACAGGCAAGTGAGCTTGTG	0.353													11	155					0	0	0.010729	0	0		A	29429625	A	A	29429625	2	1	1	1	0	0	0	0	0	0	0	1	8220	1020	36	4		4	KIAA1012	18	29429625	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	841213	29429625	48647623	1160	1160											
DTNA	1837	broad.mit.edu	37	chr18	32459614	32459614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctgaaaaggcttttctagCgcaaatccatgcccgaaaac	13	9	7	12	2	2	1	0	1	2	0	3	2	3	1	2	1	3	2	2	1	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:32459614C>T	uc010dmn.1	+	19	2013	c.2012C>T	c.(2011-2013)GCG>GTG	p.A671V	DTNA_uc002kxw.2_Missense_Mutation_p.A614V|DTNA_uc010dmj.2_Missense_Mutation_p.A611V|DTNA_uc002kxz.2_Missense_Mutation_p.A618V|DTNA_uc002kxy.2_Missense_Mutation_p.A611V|DTNA_uc010xby.1_Missense_Mutation_p.A361V|DTNA_uc010xbz.1_Missense_Mutation_p.A380V|DTNA_uc010xca.1_Missense_Mutation_p.A323V|DTNA_uc002kye.2_Missense_Mutation_p.A319V	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	671					neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						GCTTTTCTAGCGCAAATCCAT	0.478													6	100					0	0	0.00308	0	0		T	32459614	T	T	32459614	3	4	1	1	0	0	0	0	1	0	0	0	4794	768	27	1	2176	1	DTNA	18	32459614	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3029989	32459614	45617634	1161	1161											
ZNF396	252884	broad.mit.edu	37	chr18	32954226	32954226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaagtttgtgttaggaGtgatgatgactttcccaatt	9	16	10	6	0	1	4	0	4	1	0	2	5	2	5	1	1	0	2	1	1	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:32954226G>A	uc010xcf.1	-	2	163	c.31C>T	c.(31-33)CTC>TTC	p.L11F		NM_145756	NP_665699	Q96N95	ZN396_HUMAN	zinc finger protein 396	11					viral reproduction	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TGTGTTAGGAGTGATGATGAC	0.458													26	109					0	0	0.005443	0	0		A	32954226	A	A	32954226	3	1	1	1	0	0	0	0	1	0	0	0	17907	1029	36	4	986	4	ZNF396	18	32954226	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	494612	32954226	45123022	1162	1162											
INO80C	125476	broad.mit.edu	37	chr18	33060460	33060460	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaggtttggcagcttttTccacaggtcctgtgctaaac	9	12	10	10	0	0	0	0	0	0	0	2	0	2	0	2	3	3	5	2	3	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:33060460T>C	uc002kyy.3	-	2	341	c.224A>G	c.(223-225)GAA>GGA	p.E75G	INO80C_uc002kyw.1_Missense_Mutation_p.E75G|INO80C_uc002kyx.3_Missense_Mutation_p.E20G|INO80C_uc010dmt.2_Missense_Mutation_p.E111G	NM_194281	NP_919257	Q6PI98	IN80C_HUMAN	Ies6-similar protein isoform 2	75					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex|MLL1 complex					0						GGCAGCTTTTTCCACAGGTCC	0.413													19	141					0	0	0.012319	0	0		C	33060460	C	C	33060460	3	2	1	1	0	0	0	0	1	0	0	0	7764	1783	62	3	370	3	INO80C	18	33060460	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	106234	33060460	45016788	1163	1163											
MOCOS	55034	broad.mit.edu	37	chr18	33800026	33800026	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctttttgtttaggtgaccagGtggcctgtaggaaaccaagg	9	12	13	7	0	0	1	0	1	0	0	0	2	0	2	3	5	1	2	3	5	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:33800026G>A	uc002kzq.3	+	9	1829	c.1806G>A	c.(1804-1806)AGG>AGA	p.R602R		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	602					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	AGGTGACCAGGTGGCCTGTAG	0.512													14	89					0	0	0.00245	0	0		A	33800026	A	A	33800026	2	1	1	1	0	0	0	0	0	0	0	1	9707	1252	44	4		4	MOCOS	18	33800026	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	739566	33800026	44277222	1164	1164											
CELF4	56853	broad.mit.edu	37	chr18	35145328	35145328	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtactcacctttgtgcaTgcctgtgaacctgtccttca	6	14	9	12	0	2	1	2	1	0	0	3	1	3	1	4	1	4	2	4	1	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:35145328T>C	uc002lae.2	-	1	673	c.277A>G	c.(277-279)ATG>GTG	p.M93V	CELF4_uc010dnd.1_Missense_Mutation_p.M93V|CELF4_uc002lag.2_Missense_Mutation_p.M93V|CELF4_uc002laf.2_Missense_Mutation_p.M89V|CELF4_uc002lai.2_Missense_Mutation_p.M89V	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	93	RRM 1.|Sufficient for RNA-binding and MSE- dependent splicing activity.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						CCTTTGTGCATGCCTGTGAAC	0.617													7	129					0	0	0.004482	0	0		C	35145328	C	C	35145328	3	2	1	1	0	0	0	0	1	0	0	0	3221	1464	51	3	1231	3	CELF4	18	35145328	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1345302	35145328	42931920	1165	1165											
ST8SIA5	29906	broad.mit.edu	37	chr18	44260101	44260101	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagggcatggcgtggaagccGggacgcggcttgacgttgtc	6	7	19	9	5	0	1	0	1	0	0	1	4	0	3	1	5	1	3	1	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:44260101G>A	uc002lcj.1	-	7	1603	c.1035C>T	c.(1033-1035)CCC>CCT	p.P345P	ST8SIA5_uc002lci.1_Silent_p.P192P|ST8SIA5_uc010xcy.1_Silent_p.P381P|ST8SIA5_uc010xcz.1_Silent_p.P314P	NM_013305	NP_037437	O15466	SIA8E_HUMAN	ST8 alpha-N-acetyl-neuraminide	345	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						CGTGGAAGCCGGGACGCGGCT	0.607													24	74					0	0	0.00632	0	0		A	44260101	A	A	44260101	2	1	1	1	0	0	0	0	0	0	0	1	15260	1103	39	1		1	ST8SIA5	18	44260101	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	9114773	44260101	33817147	1166	1166											
ZBTB7C	201501	broad.mit.edu	37	chr18	45567233	45567233	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatagcagccagagcctcAggctggacaaagtcgatctc	12	6	12	11	1	2	1	1	0	1	1	4	4	2	3	2	3	3	2	2	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:45567233A>G	uc002lda.2	-	1	262	c.246T>C	c.(244-246)CCT>CCC	p.P82P	ZBTB7C_uc002ldb.2_Silent_p.P82P|ZBTB7C_uc010dnu.2_Silent_p.P91P|ZBTB7C_uc010dnv.2_Silent_p.P104P|ZBTB7C_uc010dnw.2_Silent_p.P82P|ZBTB7C_uc010dnx.1_Silent_p.P82P|ZBTB7C_uc010dny.1_Silent_p.P82P|ZBTB7C_uc010dnz.1_Silent_p.P104P|ZBTB7C_uc010dob.1_Silent_p.P82P|ZBTB7C_uc010doc.1_Silent_p.P91P|ZBTB7C_uc010dod.1_Silent_p.P104P|ZBTB7C_uc010doe.1_Silent_p.P82P|ZBTB7C_uc010dof.1_Silent_p.P82P|ZBTB7C_uc010dog.1_Silent_p.P82P|ZBTB7C_uc010doh.1_Silent_p.P91P|ZBTB7C_uc010doi.1_Silent_p.P82P|ZBTB7C_uc010doj.1_Silent_p.P91P|ZBTB7C_uc010dok.1_Silent_p.P131P|ZBTB7C_uc010dol.1_Silent_p.P91P|ZBTB7C_uc010doa.1_Silent_p.P104P|ZBTB7C_uc010don.1_Silent_p.P90P|ZBTB7C_uc010doo.1_Silent_p.P82P|ZBTB7C_uc010dop.1_Silent_p.P82P|ZBTB7C_uc010doq.1_Silent_p.P91P|ZBTB7C_uc010dor.1_Silent_p.P104P|ZBTB7C_uc010dos.1_Silent_p.P82P|ZBTB7C_uc010dot.1_Silent_p.P82P|ZBTB7C_uc010dou.1_Silent_p.P91P|ZBTB7C_uc010dom.1_Silent_p.P91P	NM_001039360	NP_001034449	A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	82	BTB.					intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						CCAGAGCCTCAGGCTGGACAA	0.582													3	51					0	0	0.009096	0	0		G	45567233	G	G	45567233	2	3	1	1	0	0	0	0	0	0	0	1	17580	175	7	3		3	ZBTB7C	18	45567233	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1307132	45567233	32510015	1167	1167											
KIAA0427	9811	broad.mit.edu	37	chr18	46287807	46287807	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccagcagaacaagatggAcaagctgatcgagatcctga	14	6	10	11	1	0	5	0	2	0	3	3	7	2	6	3	1	3	2	3	1	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:46287807A>G	uc002ldc.2	+	9	1403	c.1118A>G	c.(1117-1119)GAC>GGC	p.D373G	KIAA0427_uc002ldd.2_Missense_Mutation_p.D375G|KIAA0427_uc002lde.3_Missense_Mutation_p.D2G	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	373					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						AACAAGATGGACAAGCTGATC	0.572													6	65					0	0	0.001984	0	0		G	46287807	G	G	46287807	3	3	1	1	0	0	0	0	1	0	0	0	8192	275	10	3	1154	3	KIAA0427	18	46287807	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	720574	46287807	31789441	1168	1168											
ME2	4200	broad.mit.edu	37	chr18	48473427	48473427	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taataaaatggctttccgatAcccagaacctgaagacaagg	16	8	8	9	1	0	3	0	1	0	2	1	4	1	3	3	2	2	1	3	2	7	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:48473427A>G	uc002ley.2	+	16	1884	c.1628A>G	c.(1627-1629)TAC>TGC	p.Y543C	ME2_uc010dpd.2_3'UTR	NM_002396	NP_002387	P23368	MAOM_HUMAN	malic enzyme 2, NAD(+)-dependent, mitochondrial	543					malate metabolic process	mitochondrial matrix	electron carrier activity|malate dehydrogenase (decarboxylating) activity|malate dehydrogenase (oxaloacetate-decarboxylating) activity|metal ion binding|NAD binding				0		Colorectal(6;0.0273)|all_epithelial(6;0.118)		Colorectal(21;0.0313)|READ - Rectum adenocarcinoma(32;0.105)|STAD - Stomach adenocarcinoma(97;0.184)	NADH(DB00157)	GCTTTCCGATACCCAGAACCT	0.393													44	296					0	0	0.010771	0	0		G	48473427	G	G	48473427	3	3	1	1	0	0	0	0	1	0	0	0	9436	391	14	3	1686	3	ME2	18	48473427	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2185620	48473427	29603821	1169	1169											
TCF4	6925	broad.mit.edu	37	chr18	52896116	52896116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgaggatgacggccaccGcctggtggaggatcaggagc	9	5	17	10	2	1	2	1	2	0	0	1	7	1	6	3	6	1	0	3	6	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:52896116G>A	uc002lfz.2	-	18	2441	c.1829C>T	c.(1828-1830)GCG>GTG	p.A610V	TCF4_uc002lfw.3_Missense_Mutation_p.A454V|TCF4_uc010xdu.1_Missense_Mutation_p.A480V|TCF4_uc010xdv.1_Missense_Mutation_p.A480V|TCF4_uc002lfx.2_Missense_Mutation_p.A543V|TCF4_uc010xdw.1_Missense_Mutation_p.A480V|TCF4_uc002lfy.2_Missense_Mutation_p.A568V|TCF4_uc010xdx.1_Missense_Mutation_p.A586V|TCF4_uc010dph.1_Missense_Mutation_p.A614V|TCF4_uc010xdy.1_Missense_Mutation_p.A590V|TCF4_uc002lga.2_Missense_Mutation_p.A716V|TCF4_uc002lgb.1_Missense_Mutation_p.A450V|TCF4_uc010dpi.2_Missense_Mutation_p.A620V|TCF4_uc002lfv.2_Missense_Mutation_p.A393V	NM_003199	NP_003190	P15884	ITF2_HUMAN	transcription factor 4 isoform b	610	Helix-loop-helix motif.		A -> V (in PTHS; loss of function).		positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)		GACGGCCACCGCCTGGTGGAG	0.607													13	67					0	0	0.001368	0	0		A	52896116	A	A	52896116	3	1	1	1	0	0	0	0	1	0	0	0	15720	1087	38	1	182	1	TCF4	18	52896116	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4422689	52896116	25181132	1170	1170											
CDH20	28316	broad.mit.edu	37	chr18	59157872	59157872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggggctgatggaccttaCgaccaccgttctctcggaca	7	9	12	13	3	1	1	0	1	1	0	3	4	1	3	3	4	1	2	3	4	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:59157872C>T	uc010dps.1	+	1	98	c.86C>T	c.(85-87)ACG>ATG	p.T29M	CDH20_uc002lif.2_Missense_Mutation_p.T23M	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	29					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				ATGGACCTTACGACCACCGTT	0.522													15	181					0	0	0.004007	0	0		T	59157872	T	T	59157872	3	4	1	1	0	0	0	0	1	0	0	0	3109	536	19	1	88	1	CDH20	18	59157872	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	6261756	59157872	18919376	1171	1171											
CDH20	28316	broad.mit.edu	37	chr18	59166434	59166434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cccagcttcattcagatatgGacaggggagacggatccatc	11	8	11	11	1	2	2	2	0	0	2	4	5	3	4	2	4	1	1	2	4	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:59166434G>A	uc010dps.1	+	2	274	c.262G>A	c.(262-264)GAC>AAC	p.D88N	CDH20_uc002lif.2_Missense_Mutation_p.D82N	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	88	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				TTCAGATATGGACAGGGGAGA	0.453													3	65					0	0	0.009096	0	0		A	59166434	A	A	59166434	3	1	1	1	0	0	0	0	1	0	0	0	3109	1174	41	4	268	4	CDH20	18	59166434	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	8562	59166434	18910814	1172	1172											
DOK6	220164	broad.mit.edu	37	chr18	67345077	67345077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctggccgcaggagtgcagCgggaacagaatggtaggtgt	9	8	17	7	2	1	1	0	0	1	1	1	3	1	3	1	5	3	3	1	5	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:67345077C>T	uc002lkl.2	+	4	587	c.397C>T	c.(397-399)CGG>TGG	p.R133W		NM_152721	NP_689934	Q6PKX4	DOK6_HUMAN	docking protein 6	133	IRS-type PTB.						insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)				AGGAGTGCAGCGGGAACAGAA	0.443													7	53					0	0	0.001984	0	0		T	67345077	T	T	67345077	3	4	1	1	0	0	0	0	1	0	0	0	4707	759	27	1	411	1	DOK6	18	67345077	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	8178643	67345077	10732171	1173	1173											
GALR1	2587	broad.mit.edu	37	chr18	74962947	74962947	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctcctcctccctcagggTgtcccgcaacgcgctgctgg	3	8	12	18	4	1	0	1	0	0	0	5	0	5	0	4	2	2	4	4	2	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr18:74962947T>C	uc002lms.3	+	1	940	c.443T>C	c.(442-444)GTG>GCG	p.V148A		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	148	Cytoplasmic (Potential).				digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		TCCCTCAGGGTGTCCCGCAAC	0.692													5	41					0	0	0.001984	0	0		C	74962947	C	C	74962947	3	2	1	1	0	0	0	0	1	0	0	0	6242	1696	59	3	445	3	GALR1	18	74962947	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	7617870	74962947	3114301	1174	1174											
SHC2	25759	broad.mit.edu	37	chr19	422188	422188	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaggtgcttgggctgcccGgcgtgcatgccggtgaggac	5	7	18	11	3	0	1	0	1	0	0	0	2	0	2	2	5	5	4	2	5	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:422188G>A	uc002loq.3	-	11	1578	c.1578C>T	c.(1576-1578)GCC>GCT	p.A526A	SHC2_uc002lop.3_Silent_p.A267A	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	526	SH2.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGGCTGCCCGGCGTGCATGC	0.687													5	7					0	0	0.000602	0	0		A	422188	A	A	422188	2	1	1	1	0	0	0	0	0	0	0	1	14296	1103	39	1		1	SHC2	19	422188	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08		422188	58706795	1175	1175											
HCN2	610	broad.mit.edu	37	chr19	608088	608088	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctgaccatgctcagcaTgattgtgggtgccacctgct	6	11	12	12	0	1	2	1	2	0	0	1	2	1	2	3	2	4	4	3	2	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:608088T>C	uc002lpe.2	+	4	1396	c.1343T>C	c.(1342-1344)ATG>ACG	p.M448T		NM_001194	NP_001185	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic	448	Helical; Name=Segment S6; (Potential).				cell-cell signaling|muscle contraction	voltage-gated potassium channel complex	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATGCTCAGCATGATTGTGGGT	0.622													9	57					0	0	0.006214	0	0		C	608088	C	C	608088	3	2	1	1	0	0	0	0	1	0	0	0	7013	1464	51	3	1357	3	HCN2	19	608088	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	185900	608088	58520895	1176	1176											
HMHA1	23526	broad.mit.edu	37	chr19	1079757	1079757	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccgacgcgaagacgcagaAgcaggagctggaggatacca	13	2	16	10	4	0	2	0	0	0	2	0	7	0	5	2	4	3	3	2	4	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:1079757A>G	uc002lqz.1	+	12	1661	c.1430A>G	c.(1429-1431)AAG>AGG	p.K477R	HMHA1_uc010xgd.1_Missense_Mutation_p.K493R|HMHA1_uc010xge.1_Missense_Mutation_p.K317R|HMHA1_uc002lra.1_Missense_Mutation_p.K317R|HMHA1_uc002lrb.1_Missense_Mutation_p.K360R|HMHA1_uc002lrc.1_Missense_Mutation_p.K112R	NM_012292	NP_036424	Q92619	HMHA1_HUMAN	minor histocompatibility antigen HA-1	477	Potential.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGACGCAGAAGCAGGAGCTG	0.682													3	45					0	0	0.004672	0	0		G	1079757	G	G	1079757	3	3	1	1	0	0	0	0	1	0	0	0	7256	72	3	3	1476	3	HMHA1	19	1079757	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	471669	1079757	58049226	1177	1177											
AP3D1	8943	broad.mit.edu	37	chr19	2118661	2118661	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccggtccaccatgagcTgggtgacggcctgagcgccc	6	5	15	15	3	0	3	0	3	0	0	1	3	1	3	5	3	3	2	5	3	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:2118661T>G	uc002luz.2	-	15	1875	c.1652A>C	c.(1651-1653)CAG>CCG	p.Q551P	AP3D1_uc002luy.2_Missense_Mutation_p.Q460P|AP3D1_uc002lva.2_Missense_Mutation_p.Q551P	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	551	HEAT 11.				eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACCATGAGCTGGGTGACGGC	0.642													5	32					0	0	0.004482	0	0		G	2118661	G	G	2118661	3	3	1	1	0	0	0	0	1	0	0	0	746	1580	55	5	2031	5	AP3D1	19	2118661	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1038904	2118661	57010322	1178	1178											
TLE6	79816	broad.mit.edu	37	chr19	2989687	2989687	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcaggtctcaactgccAggccctggatgccaacctgg	7	8	12	14	0	1	0	1	0	1	0	2	1	1	1	4	4	5	1	4	4	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:2989687A>G	uc002lwu.2	+	12	1179	c.779A>G	c.(778-780)CAG>CGG	p.Q260R	TLE6_uc002lwt.2_Missense_Mutation_p.Q383R|TLE6_uc010dtg.2_Missense_Mutation_p.Q383R|TLE6_uc002lwv.2_Missense_Mutation_p.Q164R	NM_024760	NP_079036	Q9H808	TLE6_HUMAN	transducin-like enhancer of split 6 isoform 2	260	WD 3.				regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCAACTGCCAGGCcctggat	0.552													8	70					0	0	0.00308	0	0		G	2989687	G	G	2989687	3	3	1	1	0	0	0	0	1	0	0	0	15967	188	7	3	1194	3	TLE6	19	2989687	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	871026	2989687	56139296	1179	1179											
TLE6	79816	broad.mit.edu	37	chr19	2991983	2991983	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtaccaattcaagtctcagGtgcggaggccgggatggggt	9	8	16	8	2	2	0	2	0	1	0	3	2	2	2	2	6	2	1	2	6	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:2991983G>A	uc002lwu.2	+	13	1417	c.1017_splice	c.e13+1	p.Q339_splice	TLE6_uc002lwt.2_Splice_Site_p.Q462_splice|TLE6_uc010dtg.2_Splice_Site_p.Q462_splice|TLE6_uc002lwv.2_Splice_Site_p.Q243_splice	NM_024760	NP_079036	Q9H808	TLE6_HUMAN	transducin-like enhancer of split 6 isoform 2						regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAAGTCTCAGGTGCGGAGGCC	0.473													9	85					0	0	0.001368	0	0		A	2991983	A	A	2991983	5	1	1	1	0	0	0	0	0	0	1	0	15967	1275	44	4	1437	4	TLE6	19	2991983	Splice_Site	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2296	2991983	56137000	1180	1180											
UBXN6	80700	broad.mit.edu	37	chr19	4447552	4447552	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaggcacgcccacctgaaAcaccttgttctgcagcttga	11	8	9	13	1	1	3	0	2	1	1	1	3	1	3	3	1	3	4	3	1	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:4447552A>G	uc002man.1	-	6	706	c.610T>C	c.(610-612)TTT>CTT	p.F204L	UBXN6_uc010dty.1_Missense_Mutation_p.F108L|UBXN6_uc002mam.1_Missense_Mutation_p.F151L	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	204	PUB.					microtubule organizing center|nucleus	protein binding				0						CCCACCTGAAACACCTTGTTC	0.672													10	132					0	0	0.001368	0	0		G	4447552	G	G	4447552	3	3	1	1	0	0	0	0	1	0	0	0	16943	43	2	3	739	3	UBXN6	19	4447552	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1455569	4447552	54681431	1181	1181											
PRR22	163154	broad.mit.edu	37	chr19	5784292	5784292	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggggagcagaggccatgcCttcaggctcccacttaggga	9	7	14	11	0	1	1	1	0	0	1	2	3	2	3	3	5	2	2	3	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:5784292C>A	uc002mdb.1	-	1	319	c.-40G>T	c.(-42--38)AAGGC>AATGC		PRR22_uc010xiv.1_Intron	NM_153359	NP_699190	Q8IZ63	PRR22_HUMAN	proline rich 22 isoform 2												0						GAGGCCATGCCTTCAGGCTCC	0.617													17	139					2.72e-22	3.13269e-22	0.006122	1	0		A	5784292	A	A	5784292	1	1	1	1	0	0	0	0	0	0	0	0	12615	696	24	5		5	PRR22	19	5784292	Translation_Start_Site	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1336740	5784292	53344691	1182	1182											
CLPP	8192	broad.mit.edu	37	chr19	6364536	6364536	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacccgatctgcacctggtgCgtgggccaggccgccagcat	7	6	13	15	3	1	0	0	0	1	0	1	1	1	0	5	3	4	2	5	3	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:6364536C>T	uc002mem.1	+	4	564	c.441C>T	c.(439-441)TGC>TGT	p.C147C	CLPP_uc002men.1_5'Flank	NM_006012	NP_006003	Q16740	CLPP_HUMAN	caseinolytic peptidase, ATP-dependent,	147					proteolysis	mitochondrial matrix	ATP binding|protein binding|serine-type endopeptidase activity			ovary(1)	1						GCACCTGGTGCGTGGGCCAGG	0.677													3	17					0	0	0.004672	0	0		T	6364536	T	T	6364536	2	4	1	1	0	0	0	0	0	0	0	1	3555	776	27	1		1	CLPP	19	6364536	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	580244	6364536	52764447	1183	1183											
C3	718	broad.mit.edu	37	chr19	6697473	6697473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacatatggaacggacaacGaggacttgggggggatggtt	11	8	17	5	2	0	1	0	1	0	0	0	6	0	5	0	7	2	1	0	7	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:6697473G>A	uc002mfm.2	-	21	2740	c.2678C>T	c.(2677-2679)TCG>TTG	p.S893L		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	893					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		AACGGACAACGAGGACTTGGG	0.572													15	81					0	0	0.006122	0	0		A	6697473	A	A	6697473	3	1	1	1	0	0	0	0	1	0	0	0	2207	1059	37	1	2397	1	C3	19	6697473	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	332937	6697473	52431510	1184	1184											
SH2D3A	10045	broad.mit.edu	37	chr19	6755214	6755214	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtgccttggcttgaagctgCccatcggaggccctgagact	6	9	14	12	1	0	2	0	2	0	1	1	4	0	3	3	4	3	2	3	4	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:6755214C>T	uc002mft.2	-	5	803	c.609G>A	c.(607-609)GGG>GGA	p.G203G	SH2D3A_uc010xjg.1_Silent_p.G81G	NM_005490	NP_005481	Q9BRG2	SH23A_HUMAN	SH2 domain containing 3A	203					JNK cascade|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			breast(2)	2						CTTGAAGCTGCCCATCGGAGG	0.647													15	132					0	0	0.012319	0	0		T	6755214	T	T	6755214	2	4	1	1	0	0	0	0	0	0	0	1	14258	726	26	2		2	SH2D3A	19	6755214	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	57741	6755214	52373769	1185	1185											
VAV1	7409	broad.mit.edu	37	chr19	6833612	6833612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggagtgtctggggagggtcCctccatgtggccgacatggg	6	8	18	9	1	1	0	0	0	1	0	3	3	3	2	3	6	0	0	3	6	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:6833612C>T	uc002mfu.1	+	17	1781	c.1684C>T	c.(1684-1686)CCT>TCT	p.P562S	VAV1_uc010xjh.1_Missense_Mutation_p.P530S|VAV1_uc010dva.1_Missense_Mutation_p.P562S|VAV1_uc002mfv.1_Missense_Mutation_p.P507S	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	562	Phorbol-ester/DAG-type.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						GGGGAGGGTCCCTCCATGTGG	0.567													18	151					0	0	0.010504	0	0		T	6833612	T	T	6833612	3	4	1	1	0	0	0	0	1	0	0	0	17157	623	22	4	1750	4	VAV1	19	6833612	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	78398	6833612	52295371	1186	1186											
EMR1	2015	broad.mit.edu	37	chr19	6926447	6926447	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttctggatgctggtggAggctgtgatactgttcttga	5	16	13	7	0	3	2	0	2	3	0	3	4	3	4	0	4	2	3	0	4	1	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:6926447A>G	uc002mfw.2	+	16	2095	c.2057A>G	c.(2056-2058)GAG>GGG	p.E686G	EMR1_uc010dvc.2_Missense_Mutation_p.E621G|EMR1_uc010dvb.2_Missense_Mutation_p.E634G|EMR1_uc010xji.1_Missense_Mutation_p.E545G|EMR1_uc010xjj.1_Missense_Mutation_p.E509G	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	686	Helical; Name=3; (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					ATGCTGGTGGAGGCTGTGATA	0.522													14	108					0	0	0.004007	0	0		G	6926447	G	G	6926447	3	3	1	1	0	0	0	0	1	0	0	0	5112	304	11	3	2119	3	EMR1	19	6926447	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	92835	6926447	52202536	1187	1187											
EMR1	2015	broad.mit.edu	37	chr19	6926611	6926611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggctatggaatgcataatCggtgagtgacatcctctctc	10	11	11	9	1	1	2	0	2	1	0	5	3	2	3	1	3	1	2	1	3	3	2	rs149410886		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:6926611C>T	uc002mfw.2	+	16	2259	c.2221C>T	c.(2221-2223)CGC>TGC	p.R741C	EMR1_uc010dvc.2_Missense_Mutation_p.R676C|EMR1_uc010dvb.2_Missense_Mutation_p.R689C|EMR1_uc010xji.1_Missense_Mutation_p.R600C|EMR1_uc010xjj.1_Missense_Mutation_p.R564C	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	741	Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					AATGCATAATCGGTGAGTGAC	0.502													35	117					0	0	0.007835	0	0		T	6926611	T	T	6926611	3	4	1	1	0	0	0	0	1	0	0	0	5112	898	31	1	2283	1	EMR1	19	6926611	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	164	6926611	52202372	1188	1188											
INSR	3643	broad.mit.edu	37	chr19	7167978	7167978	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctctaactcttctacttaCgcctctttgtagaacagcat	9	15	4	13	1	4	1	0	0	4	1	5	1	4	1	1	0	5	2	1	0	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:7167978C>T	uc002mgd.1	-	7	1719	c.1610_splice	c.e7+1	p.A537_splice	INSR_uc002mge.1_Splice_Site_p.A537_splice|INSR_uc002mgf.2_Splice_Site_p.A537_splice	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor						activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CTTCTACTTACGCCTCTTTGT	0.537													7	52					0	0	0.001984	0	0		T	7167978	T	T	7167978	5	4	1	1	0	0	0	0	0	0	1	0	7789	550	19	1	2601	1	INSR	19	7167978	Splice_Site	SNP	C	TCGA-B7-5816-01A-21D-1600-08	241367	7167978	51961005	1189	1189											
XAB2	56949	broad.mit.edu	37	chr19	7685199	7685199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgagaccttgagcatctgcGaggccatgaagttgacctgc	9	8	12	12	2	1	4	0	3	1	1	1	6	1	4	4	1	3	2	4	1	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:7685199G>A	uc002mgx.2	-	16	2254	c.2228C>T	c.(2227-2229)TCG>TTG	p.S743L		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	743					transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						GAGCATCTGCGAGGCCATGAA	0.627								Direct_reversal_of_damage|NER					7	50					0	0	0.001984	0	0		A	7685199	A	A	7685199	3	1	1	1	0	0	0	0	1	0	0	0	17444	1059	37	1	355	1	XAB2	19	7685199	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	517221	7685199	51443784	1190	1190											
CLEC4M	10332	broad.mit.edu	37	chr19	7830088	7830088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtgtcttggccatggcGccctggtgctgcaactcctc	4	10	13	14	1	1	0	0	0	1	0	3	0	2	0	3	4	3	2	3	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:7830088G>A	uc002mih.2	+	3	266	c.148G>A	c.(148-150)GCC>ACC	p.A50T	CLEC4M_uc010xjv.1_Intron|CLEC4M_uc002mhy.2_Intron|CLEC4M_uc010xjw.1_Intron|CLEC4M_uc010dvt.2_Missense_Mutation_p.A50T|CLEC4M_uc010dvs.2_Missense_Mutation_p.A49T|CLEC4M_uc010xjx.1_Missense_Mutation_p.A22T|CLEC4M_uc002mhz.2_Missense_Mutation_p.A50T|CLEC4M_uc002mic.2_Missense_Mutation_p.A22T|CLEC4M_uc002mia.2_Intron	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	50	Helical; Signal-anchor for type II membrane protein; (Probable).				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						TGGCCATGGCGCCCTGGTGCT	0.632													10	109					0	0	0.010729	0	0		A	7830088	A	A	7830088	3	1	1	1	0	0	0	0	1	0	0	0	3521	1087	38	1	158	1	CLEC4M	19	7830088	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	144889	7830088	51298895	1191	1191											
FBN3	84467	broad.mit.edu	37	chr19	8190894	8190894	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgggaaggactcacactcGttcacatctgggtaaggagg	10	7	13	11	2	3	0	2	0	1	0	4	3	3	3	1	5	0	2	1	5	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:8190894G>A	uc002mjf.2	-	21	2634	c.2613C>T	c.(2611-2613)AAC>AAT	p.N871N		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	871	EGF-like 11; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						ACTCACACTCGTTCACATCTG	0.617													8	51					0	0	0.00308	0	0		A	8190894	A	A	8190894	2	1	1	1	0	0	0	0	0	0	0	1	5718	1136	40	1		1	FBN3	19	8190894	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	360806	8190894	50938089	1192	1192											
KANK3	256949	broad.mit.edu	37	chr19	8389521	8389521	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggggtcttacattgtccAggatggcagggtcacagcct	7	11	14	9	0	2	0	1	0	1	0	3	1	3	1	2	5	2	1	2	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:8389521A>G	uc010dwa.2	-	9	2342	c.2276T>C	c.(2275-2277)CTG>CCG	p.L759P		NM_198471	NP_940873	Q6NY19	KANK3_HUMAN	ankyrin repeat domain 47	759											0						TACATTGTCCAGGATGGCAGG	0.632													7	50					0	0	0.00308	0	0		G	8389521	G	G	8389521	3	3	1	1	0	0	0	0	1	0	0	0	7994	188	7	3	201	3	KANK3	19	8389521	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	198627	8389521	50739462	1193	1193											
PRAM1	84106	broad.mit.edu	37	chr19	8555592	8555592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccccgcgacgtgtcttagCgttggggtcgatcatcatct	6	11	11	13	5	4	0	2	0	2	0	5	2	4	0	2	2	1	1	2	2	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:8555592C>T	uc002mkd.2	-	7	1812	c.1792G>A	c.(1792-1794)GCT>ACT	p.A598T	PRAM1_uc002mkc.2_Missense_Mutation_p.A597T	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	646	SH3.						lipid binding|protein binding				0						CGTGTCTTAGCGTTGGGGTCG	0.622													8	22					0	0	0.00308	0	0		T	8555592	T	T	8555592	3	4	1	1	0	0	0	0	1	0	0	0	12445	768	27	1	236	1	PRAM1	19	8555592	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	166071	8555592	50573391	1194	1194											
ADAMTS10	81794	broad.mit.edu	37	chr19	8654188	8654188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcaggcactgccgtcaccgCcacacactcggcacttgtcc	7	6	9	19	4	1	0	1	0	0	0	3	0	2	0	4	2	1	3	4	2	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:8654188C>T	uc002mkj.1	-	18	2370	c.2096G>A	c.(2095-2097)GGC>GAC	p.G699D	ADAMTS10_uc002mki.1_Missense_Mutation_p.G186D|ADAMTS10_uc002mkk.1_Missense_Mutation_p.G331D	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	699	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						GCCGTCACCGCCACACACTCG	0.677													3	35					0	0	0.004672	0	0		T	8654188	T	T	8654188	3	4	1	1	0	0	0	0	1	0	0	0	256	739	26	2	1251	2	ADAMTS10	19	8654188	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	98596	8654188	50474795	1195	1195											
MUC16	94025	broad.mit.edu	37	chr19	9056251	9056251	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacgctctctgtcattctggTatccaaaatgggtgatgaag	11	12	10	8	1	3	2	1	2	2	0	5	2	4	2	1	2	1	2	1	2	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:9056251T>C	uc002mkp.2	-	3	31399	c.31195A>G	c.(31195-31197)ACC>GCC	p.T10399A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10401	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTCATTCTGGTATCCAAAATG	0.493													48	300					0	0	0.00361	0	0		C	9056251	C	C	9056251	3	2	1	1	0	0	0	0	1	0	0	0	9991	1638	57	3	12656	3	MUC16	19	9056251	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	402063	9056251	50072732	1196	1196											
MUC16	94025	broad.mit.edu	37	chr19	9063262	9063262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgtccagaactggaggtccCcacatcggtcactgttctgt	8	11	10	12	1	2	1	1	0	1	1	5	2	4	2	3	3	1	1	3	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:9063262C>T	uc002mkp.2	-	3	24388	c.24184G>A	c.(24184-24186)GGG>AGG	p.G8062R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8064	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGGAGGTCCCCACATCGGTC	0.463													18	123					0	0	0.006122	0	0		T	9063262	T	T	9063262	3	4	1	1	0	0	0	0	1	0	0	0	9991	623	22	4	19667	4	MUC16	19	9063262	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	7011	9063262	50065721	1197	1197											
MUC16	94025	broad.mit.edu	37	chr19	9070331	9070331	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatgcatggcttctgtgtgCgcagtgtctttgtaagtggt	5	15	14	7	1	2	0	0	0	2	0	2	0	2	0	0	2	2	5	0	2	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:9070331C>T	uc002mkp.2	-	3	17319	c.17115G>A	c.(17113-17115)GCG>GCA	p.A5705A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5707	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTTCTGTGTGCGCAGTGTCTT	0.507													13	108					0	0	0.00245	0	0		T	9070331	T	T	9070331	2	4	1	1	0	0	0	0	0	0	0	1	9991	755	27	1		1	MUC16	19	9070331	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	7069	9070331	50058652	1198	1198											
COL5A3	50509	broad.mit.edu	37	chr19	10090070	10090070	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacaccagctggtccaggCgggcctgtctgaccttggaa	9	7	13	12	1	1	2	0	1	1	1	2	3	2	3	4	4	1	1	4	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:10090070C>T	uc002mmq.1	-	38	2822	c.2736G>A	c.(2734-2736)CCG>CCA	p.P912P		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	912	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			CTGGTCCAGGCGGGCCTGTCT	0.542													12	151					0	0	0.001368	0	0		T	10090070	T	T	10090070	2	4	1	1	0	0	0	0	0	0	0	1	3701	755	27	1		1	COL5A3	19	10090070	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1019739	10090070	49038913	1199	1199											
KRI1	65095	broad.mit.edu	37	chr19	10665838	10665838	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggctgtacgcccgcttgTcccgcagctcctcctgctct	2	12	9	18	3	2	0	0	0	2	0	5	0	5	0	4	1	3	6	4	1	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:10665838T>C	uc002moy.1	-	18	1733	c.1724A>G	c.(1723-1725)GAC>GGC	p.D575G	KRI1_uc002mow.1_Missense_Mutation_p.D194G|KRI1_uc002mox.1_Missense_Mutation_p.D571G	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	575										ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			CGCCCGCTTGTCCCGCAGCTC	0.527													5	68					0	0	0.001168	0	0		C	10665838	C	C	10665838	3	2	1	1	0	0	0	0	1	0	0	0	8460	1667	58	3	413	3	KRI1	19	10665838	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	575768	10665838	48463145	1200	1200											
AP1M2	10053	broad.mit.edu	37	chr19	10692430	10692430	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggtccactcactcctgcAggatcttgctgtcggtggtc	5	11	13	12	1	2	0	1	0	1	0	6	1	4	1	2	5	2	2	2	5	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:10692430A>G	uc002mpc.2	-	4	476	c.392T>C	c.(391-393)CTG>CCG	p.L131P	AP1M2_uc002mpd.2_Missense_Mutation_p.L131P	NM_005498	NP_005489	Q9Y6Q5	AP1M2_HUMAN	adaptor-related protein complex 1, mu 2 subunit	131					cellular membrane organization|post-Golgi vesicle-mediated transport|protein targeting|regulation of defense response to virus by virus|vesicle targeting|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding			ovary(2)	2			Epithelial(33;1.58e-05)|all cancers(31;6.36e-05)			TCACTCCTGCAGGATCTTGCT	0.602													5	33					0	0	0.001984	0	0		G	10692430	G	G	10692430	3	3	1	1	0	0	0	0	1	0	0	0	735	188	7	3	915	3	AP1M2	19	10692430	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	26592	10692430	48436553	1201	1201											
SMARCA4	6597	broad.mit.edu	37	chr19	11132513	11132513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccgccgcctgctgctgaCgggcacaccgctgcagaaca	8	4	11	18	4	0	2	0	1	0	1	0	2	0	2	5	1	4	5	5	1	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:11132513C>T	uc002mqf.3	+	19	3013	c.2729C>T	c.(2728-2730)ACG>ATG	p.T910M	SMARCA4_uc010dxp.2_Missense_Mutation_p.T910M|SMARCA4_uc010dxo.2_Missense_Mutation_p.T910M|SMARCA4_uc002mqg.1_Missense_Mutation_p.T910M|SMARCA4_uc010dxq.2_Missense_Mutation_p.T910M|SMARCA4_uc010dxr.2_Missense_Mutation_p.T910M|SMARCA4_uc002mqj.3_Missense_Mutation_p.T910M|SMARCA4_uc010dxs.2_Missense_Mutation_p.T910M|SMARCA4_uc010dxt.1_Missense_Mutation_p.T130M|SMARCA4_uc002mqh.3_Missense_Mutation_p.T33M|SMARCA4_uc002mqi.1_Missense_Mutation_p.T113M	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	910	Helicase ATP-binding.				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.T910M(1)|p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				CTGCTGCTGACGGGCACACCG	0.592			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				7	38					0	0	0.001984	0	0		T	11132513	T	T	11132513	3	4	1	1	0	0	0	0	1	0	0	0	14795	536	19	1	2799	1	SMARCA4	19	11132513	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	440083	11132513	47996470	1202	1202											
DOCK6	57572	broad.mit.edu	37	chr19	11348926	11348926	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcacagcaaggttgcgcacGgagccctggcggctgctgaa	8	5	15	13	4	0	1	0	1	0	0	0	2	0	2	1	4	4	6	1	4	2	1	rs117437635	by1000genomes	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:11348926G>A	uc002mqs.3	-	15	1739	c.1698C>T	c.(1696-1698)TCC>TCT	p.S566S	DOCK6_uc010xlq.1_5'Flank|LOC55908_uc010dxw.2_Intron|LOC55908_uc010dxx.2_Silent_p.T36T	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	566	DHR-1.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						GGTTGCGCACGGAGCCCTGGC	0.662													4	45					0	0	0.009096	0	0		A	11348926	A	A	11348926	2	1	1	1	0	0	0	0	0	0	0	1	4697	1103	39	1		1	DOCK6	19	11348926	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	216413	11348926	47780057	1203	1203											
ZNF442	79973	broad.mit.edu	37	chr19	12461253	12461253	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgagataacgctttcccAcactgcttgcattcataggg	10	12	9	10	1	1	2	1	2	0	1	2	3	2	2	1	1	3	3	1	1	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:12461253A>G	uc002mtr.1	-	6	1757	c.1146T>C	c.(1144-1146)TGT>TGC	p.C382C	ZNF442_uc010xmk.1_Silent_p.C313C	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	382	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						ACGCTTTCCCACACTGCTTGC	0.413													42	384					0	0	0.00623	0	0		G	12461253	G	G	12461253	2	3	1	1	0	0	0	0	0	0	0	1	17940	157	6	3		3	ZNF442	19	12461253	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1112327	12461253	46667730	1204	1204											
MAN2B1	4125	broad.mit.edu	37	chr19	12776537	12776537	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccataaaagtactggtccAcggttttgagccagcccacg	10	10	9	12	2	0	1	0	1	0	0	2	1	2	1	4	2	3	2	4	2	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:12776537A>G	uc002mub.2	-	2	318	c.242T>C	c.(241-243)GTG>GCG	p.V81A	MAN2B1_uc010dyv.1_Missense_Mutation_p.V81A|WDR83_uc002mue.3_5'Flank|WDR83_uc002muc.2_5'Flank	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	81					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						GTACTGGTCCACGGTTTTGAG	0.577													6	99					0	0	0.004482	0	0		G	12776537	G	G	12776537	3	3	1	1	0	0	0	0	1	0	0	0	9234	159	6	3	2885	3	MAN2B1	19	12776537	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	315284	12776537	46352446	1205	1205											
DHPS	1725	broad.mit.edu	37	chr19	12792443	12792443	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtggtgccgaaggcctcCagcagtgcgcggtaattcac	7	7	14	13	4	1	0	1	0	0	0	2	1	2	0	4	4	3	2	4	4	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:12792443C>T	uc002muh.1	-	1	235	c.138G>A	c.(136-138)CTG>CTA	p.L46L	DHPS_uc002muf.1_5'Flank|DHPS_uc002mug.1_5'Flank|DHPS_uc002mui.1_Silent_p.L46L|DHPS_uc002muj.1_Silent_p.L46L|DHPS_uc002muk.1_RNA|DHPS_uc010xmn.1_RNA	NM_001930	NP_001921	P49366	DHYS_HUMAN	deoxyhypusine synthase isoform a	46					peptidyl-lysine modification to hypusine|positive regulation of cell proliferation|post-translational protein modification|spermidine catabolic process to deoxyhypusine, using deoxyhypusine synthase|translation	cytosol	deoxyhypusine synthase activity|protein binding			central_nervous_system(1)	1					Sulfadoxine(DB01299)	CGAAGGCCTCCAGCAGTGCGC	0.637													12	55					0	0	0.003163	0	0		T	12792443	T	T	12792443	2	4	1	1	0	0	0	0	0	0	0	1	4491	581	21	4		4	DHPS	19	12792443	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	15906	12792443	46336540	1206	1206											
BRD4	23476	broad.mit.edu	37	chr19	15350213	15350213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatcccaacctttttgggcGcaactggagtcttcggctcc	6	11	9	15	2	1	0	0	0	1	0	4	1	3	1	4	3	2	2	4	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:15350213G>A	uc002nar.2	-	17	3788	c.3566C>T	c.(3565-3567)GCG>GTG	p.A1189V		NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	1189					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			CTTTTTGGGCGCAACTGGAGT	0.627			T	NUT|C15orf55	lethal midline carcinoma of young people								13	91					0	0	0.00245	0	0		A	15350213	A	A	15350213	3	1	1	1	0	0	0	0	1	0	0	0	1507	1087	38	1	538	1	BRD4	19	15350213	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2557770	15350213	43778770	1207	1207											
CYP4F11	57834	broad.mit.edu	37	chr19	16038108	16038108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcgtcaacatccgacggtGgcggctccacttgtcaccac	8	7	11	15	4	2	0	2	0	0	0	4	1	4	0	3	4	1	1	3	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:16038108G>A	uc002nbu.2	-	5	475	c.439C>T	c.(439-441)CAC>TAC	p.H147Y	CYP4F11_uc010eab.1_Missense_Mutation_p.H147Y|CYP4F11_uc002nbt.2_Missense_Mutation_p.H147Y	NM_001128932	NP_001122404	Q9HBI6	CP4FB_HUMAN	cytochrome P450 family 4 subfamily F polypeptide	147					inflammatory response|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)	1						ATCCGACGGTGGCGGCTCCAC	0.527													5	81					0	0	0.010729	0	0		A	16038108	A	A	16038108	3	1	1	1	0	0	0	0	1	0	0	0	4189	1348	47	4	1171	4	CYP4F11	19	16038108	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	687895	16038108	43090875	1208	1208											
TMEM38A	79041	broad.mit.edu	37	chr19	16790827	16790827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcccggcgccaccccatcGcgtcctggctgtgcgccatg	3	8	12	18	5	0	0	0	0	0	0	3	0	2	0	6	2	1	1	6	2	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:16790827G>A	uc002nes.2	+	2	248	c.157G>A	c.(157-159)GCG>ACG	p.A53T		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	53	Helical; (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity	p.A53V(1)		central_nervous_system(2)|ovary(1)	3						CCACCCCATCGCGTCCTGGCT	0.602													5	42					0	0	0.000602	0	0		A	16790827	A	A	16790827	3	1	1	1	0	0	0	0	1	0	0	0	16184	1087	38	1	163	1	TMEM38A	19	16790827	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	752719	16790827	42338156	1209	1209											
MYO9B	4650	broad.mit.edu	37	chr19	17311596	17311596	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgttccgccagatcaccaaCgccaatgagctcaagtacct	11	8	8	14	2	2	2	2	1	0	1	3	2	3	2	5	0	3	3	5	0	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:17311596C>T	uc010eak.2	+	26	4673	c.4521C>T	c.(4519-4521)AAC>AAT	p.N1507N	MYO9B_uc002nfi.2_Silent_p.N1507N|MYO9B_uc002nfj.1_Silent_p.N1507N|MYO9B_uc002nfl.1_Silent_p.N56N	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	1507	Tail.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						AGATCACCAACGCCAATGAGC	0.567													6	70					0	0	0.001168	0	0		T	17311596	T	T	17311596	2	4	1	1	0	0	0	0	0	0	0	1	10103	535	19	1		1	MYO9B	19	17311596	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	520769	17311596	41817387	1210	1210											
ARRDC2	27106	broad.mit.edu	37	chr19	18121388	18121388	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcgcttccagctcctccTgagtactcggaggtggtagc	5	11	11	14	2	1	1	0	1	1	0	6	2	4	2	3	3	3	4	3	3	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:18121388T>C	uc002nhv.2	+	7	1163	c.1020T>C	c.(1018-1020)CCT>CCC	p.P340P	ARRDC2_uc002nhu.2_Silent_p.P335P	NM_015683	NP_056498	Q8TBH0	ARRD2_HUMAN	arrestin domain containing 2 isoform 1	340										pancreas(1)	1						CAGCTCCTCCTGAGTACTCGG	0.657													14	92					0	0	0.004007	0	0		C	18121388	C	C	18121388	2	2	1	1	0	0	0	0	0	0	0	1	984	1567	55	3		3	ARRDC2	19	18121388	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	809792	18121388	41007595	1211	1211											
IL12RB1	3594	broad.mit.edu	37	chr19	18187108	18187108	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactattattattctcaccAgtatcatcatcctgaggtcc	10	16	4	11	0	3	1	3	1	1	0	6	1	5	1	3	1	1	1	3	1	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:18187108A>G	uc002nhw.1	-	6	643	c.579T>C	c.(577-579)ACT>ACC	p.T193T	IL12RB1_uc010xqb.1_Silent_p.T193T|IL12RB1_uc002nhx.1_Silent_p.T233T|IL12RB1_uc002nhy.2_Silent_p.T193T	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1	193	Extracellular (Potential).|Fibronectin type-III 2.				cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1						TATTCTCACCAGTATCATCAT	0.254													7	76					0	0	0.008291	0	0		G	18187108	G	G	18187108	2	3	1	1	0	0	0	0	0	0	0	1	7642	202	7	3		3	IL12RB1	19	18187108	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	65720	18187108	40941875	1212	1212											
DDX49	54555	broad.mit.edu	37	chr19	19033456	19033456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accagcgctacctgctggtgCctgagaaggtcaaggacgcc	9	6	13	13	2	1	1	1	1	0	1	1	3	1	2	4	3	4	2	4	3	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:19033456C>T	uc002nkq.1	+	6	736	c.679C>T	c.(679-681)CCT>TCT	p.P227S	HOMER3_uc002nko.1_Intron|HOMER3_uc002nkp.1_Intron|DDX49_uc002nkr.1_RNA|DDX49_uc002nks.1_Missense_Mutation_p.P120S|DDX49_uc002nkt.1_Missense_Mutation_p.P109S	NM_019070	NP_061943	Q9Y6V7	DDX49_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 49	227	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			Epithelial(12;0.0289)			CCTGCTGGTGCCTGAGAAGGT	0.597													11	51					0	0	0.010729	0	0		T	19033456	T	T	19033456	3	4	1	1	0	0	0	0	1	0	0	0	4369	739	26	2	701	2	DDX49	19	19033456	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	846348	19033456	40095527	1213	1213											
RFXANK	8625	broad.mit.edu	37	chr19	19310005	19310005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgaagccgactctggctacaCcccgatggaccttgccgtgg	7	7	12	15	4	1	0	0	0	1	0	1	4	1	1	5	3	3	1	5	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:19310005C>T	uc002nls.2	+	9	1179	c.674C>T	c.(673-675)ACC>ATC	p.T225I	RFXANK_uc002nlt.2_Missense_Mutation_p.T202I|RFXANK_uc002nlu.2_Missense_Mutation_p.T203I|RFXANK_uc002nlv.2_Missense_Mutation_p.T225I|RFXANK_uc002nlw.2_Missense_Mutation_p.T224I	NM_003721	NP_003712	O14593	RFXK_HUMAN	regulatory factor X-associated	225	ANK 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(2)	2			Epithelial(12;0.00228)			TCTGGCTACACCCCGATGGAC	0.647													9	117					0	0	0.008291	0	0		T	19310005	T	T	19310005	3	4	1	1	0	0	0	0	1	0	0	0	13294	507	18	4	700	4	RFXANK	19	19310005	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	276549	19310005	39818978	1214	1214											
ZNF626	199777	broad.mit.edu	37	chr19	20829108	20829108	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagaccaggttactgtagTtctctaacatcacattccta	12	12	7	10	0	2	1	1	0	1	1	4	2	3	2	2	2	2	3	2	2	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:20829108T>C	uc002npb.1	-	2	257	c.107A>G	c.(106-108)AAC>AGC	p.N36S	ZNF626_uc002npc.1_Intron|ZNF626_uc002npd.1_Missense_Mutation_p.N36S	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	36	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GTTACTGTAGTTCTCTAACAT	0.353													22	169					0	0	0.00333	0	0		C	20829108	C	C	20829108	3	2	1	1	0	0	0	0	1	0	0	0	18075	1725	60	3	1548	3	ZNF626	19	20829108	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1519103	20829108	38299875	1215	1215											
ZNF257	113835	broad.mit.edu	37	chr19	22271691	22271691	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgtgaagagtgtggaaaagCctttaaccggtcttcacacc	12	10	10	9	1	2	2	1	1	1	1	2	3	2	3	3	2	2	0	3	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:22271691C>A	uc010ecx.2	+	4	1308	c.1139C>A	c.(1138-1140)GCC>GAC	p.A380D	ZNF257_uc010ecy.2_Missense_Mutation_p.A348D	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	380	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				TGTGGAAAAGCCTTTAACCGG	0.378													11	45					1.58986e-06	1.72072e-06	0.008291	1	0		A	22271691	A	A	22271691	3	1	1	1	0	0	0	0	1	0	0	0	17825	739	26	5	1153	5	ZNF257	19	22271691	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1442583	22271691	36857292	1216	1216											
ZNF91	7644	broad.mit.edu	37	chr19	23557475	23557475	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtagttctctaacatcAcattcctatataaattctgc	11	17	3	10	0	4	0	1	0	3	0	6	0	5	0	1	0	2	2	1	0	6	9			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:23557475A>C	uc002nre.2	-	2	235	c.122T>G	c.(121-123)GTG>GGG	p.V41G	ZNF91_uc010xrj.1_Missense_Mutation_p.V41G	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	41	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				CTCTAACATCACATTCCTATA	0.363													28	137					0	0	0.005443	0	0		C	23557475	C	C	23557475	3	2	1	1	0	0	0	0	1	0	0	0	18225	159	6	5	3465	5	ZNF91	19	23557475	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1285784	23557475	35571508	1217	1217											
ZNF681	148213	broad.mit.edu	37	chr19	23938230	23938230	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgaagttatcctcacccaAgaagaccaggtttctgtagt	12	12	8	9	0	2	3	1	1	1	2	3	3	3	3	3	1	0	3	3	1	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:23938230A>C	uc002nrk.3	-	2	269	c.127T>G	c.(127-129)TTG>GTG	p.L43V	ZNF681_uc002nrl.3_Intron|ZNF681_uc002nrj.3_Intron|ZNF681_uc002nrm.1_5'Flank	NM_138286	NP_612143	Q96N22	ZN681_HUMAN	zinc finger protein 681	43	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				TCCTCACCCAAGAAGACCAGG	0.348													47	152					0	0	0.00361	0	0		C	23938230	C	C	23938230	3	2	1	1	0	0	0	0	1	0	0	0	18113	69	3	5	1822	5	ZNF681	19	23938230	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	380755	23938230	35190753	1218	1218											
TSHZ3	57616	broad.mit.edu	37	chr19	31768228	31768228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgacggcagatgtctttgccGttgtcaccgtggatgaggag	7	10	15	9	4	2	2	1	1	1	1	2	5	2	4	2	3	1	2	2	3	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:31768228G>A	uc002nsy.3	-	2	2536	c.2471C>T	c.(2470-2472)ACG>ATG	p.T824M		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	824					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TGTCTTTGCCGTTGTCACCGT	0.522													36	94					0	0	0.005524	0	0		A	31768228	A	A	31768228	3	1	1	1	0	0	0	0	1	0	0	0	16651	1145	40	1	778	1	TSHZ3	19	31768228	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	7829998	31768228	27360755	1219	1219											
ZNF792	126375	broad.mit.edu	37	chr19	35450236	35450236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacctgtttccggggaaGgtttgcactgaactcagagc	8	10	12	11	1	1	2	1	1	0	1	2	3	2	3	2	3	4	4	2	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:35450236G>A	uc002nxh.1	-	4	910	c.523C>T	c.(523-525)CTT>TTT	p.L175F		NM_175872	NP_787068	Q3KQV3	ZN792_HUMAN	zinc finger protein 792	175					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;4.18e-08)|Lung NSC(56;6.62e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			TTCCGGGGAAGGTTTGCACTG	0.502													6	494					0	0	0.00308	0	0		A	35450236	A	A	35450236	3	1	1	1	0	0	0	0	1	0	0	0	18189	1000	35	4	1379	4	ZNF792	19	35450236	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3682008	35450236	23678747	1220	1220											
MAG	4099	broad.mit.edu	37	chr19	35786830	35786830	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtactacttccgtggggacCtgggcggctacaaccagtac	9	8	12	12	2	0	0	0	0	0	0	1	1	1	1	3	4	5	3	3	4	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:35786830C>A	uc002nyy.1	+	4	510	c.361C>A	c.(361-363)CTG>ATG	p.L121M	MAG_uc002nyx.1_Missense_Mutation_p.L121M|MAG_uc010eds.1_Missense_Mutation_p.L96M|MAG_uc002nyz.1_Missense_Mutation_p.L121M	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	121	Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			CCGTGGGGACCTGGGCGGCTA	0.667													46	191					6.34439e-16	7.24701e-16	0.00361	1	0		A	35786830	A	A	35786830	3	1	1	1	0	0	0	0	1	0	0	0	9180	680	24	5	367	5	MAG	19	35786830	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	336594	35786830	23342153	1221	1221											
SIPA1L3	23094	broad.mit.edu	37	chr19	38572756	38572756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtgtgacgcggaggacgCgggggagccgcggggggccc	5	2	23	11	7	0	1	0	1	0	0	0	5	0	4	2	7	1	0	2	7	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:38572756C>T	uc002ohk.2	+	3	1060	c.551C>T	c.(550-552)GCG>GTG	p.A184V		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	184					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GCGGAGGACGCGGGGGAGCCG	0.741													4	28					0	0	0.001168	0	0		T	38572756	T	T	38572756	3	4	1	1	0	0	0	0	1	0	0	0	14356	768	27	1	553	1	SIPA1L3	19	38572756	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2785926	38572756	20556227	1222	1222											
SUPT5H	6829	broad.mit.edu	37	chr19	39949688	39949688	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgagtattacatgaagaaaTacgccaagtcatctgtggga	14	9	11	7	2	2	2	1	1	1	1	2	4	2	3	1	1	2	1	1	1	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:39949688T>C	uc002olo.3	+	7	612	c.433T>C	c.(433-435)TAC>CAC	p.Y145H	SUPT5H_uc002olp.3_Missense_Mutation_p.Y145H|SUPT5H_uc002olq.3_Missense_Mutation_p.Y141H|SUPT5H_uc002oln.3_Missense_Mutation_p.Y145H|SUPT5H_uc002olr.3_Missense_Mutation_p.Y145H	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	145					cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			CATGAAGAAATACGCCAAGTC	0.582													11	129					0	0	0.008291	0	0		C	39949688	C	C	39949688	3	2	1	1	0	0	0	0	1	0	0	0	15424	1406	49	3	455	3	SUPT5H	19	39949688	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1376932	39949688	19179295	1223	1223											
SPTBN4	57731	broad.mit.edu	37	chr19	41063263	41063263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtgccagttccatgcagcGgaccctgagagcctttgagc	8	8	12	13	1	0	2	0	2	0	1	1	4	1	3	4	1	5	2	4	1	0	2	rs145142511		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:41063263G>A	uc002ony.2	+	26	5710	c.5624G>A	c.(5623-5625)CGG>CAG	p.R1875Q	SPTBN4_uc002onx.2_Missense_Mutation_p.R1875Q|SPTBN4_uc002onz.2_Missense_Mutation_p.R1875Q|SPTBN4_uc010egx.2_Missense_Mutation_p.R618Q|SPTBN4_uc002ooa.2_Missense_Mutation_p.R551Q	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1875	Spectrin 16.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TCCATGCAGCGGACCCTGAGA	0.682													28	47					0	0	0.008361	0	0		A	41063263	A	A	41063263	3	1	1	1	0	0	0	0	1	0	0	0	15146	1116	39	1	5722	1	SPTBN4	19	41063263	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1113575	41063263	18065720	1224	1224											
ADCK4	79934	broad.mit.edu	37	chr19	41198161	41198161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagccggtgccgcagcagcaCcgggatgaggtcctgtatgc	7	6	15	13	3	0	1	0	1	0	0	1	2	1	2	4	3	5	4	4	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:41198161C>T	uc002oor.2	-	15	1716	c.1414G>A	c.(1414-1416)GTG>ATG	p.V472M	NUMBL_uc010xvq.1_5'Flank|NUMBL_uc002oon.2_5'Flank|NUMBL_uc002ooo.2_5'Flank|NUMBL_uc010xvr.1_5'Flank|ADCK4_uc002oop.1_Missense_Mutation_p.V149M|ADCK4_uc002ooq.1_Missense_Mutation_p.V431M	NM_024876	NP_079152	Q96D53	ADCK4_HUMAN	aarF domain containing kinase 4 isoform a	472						integral to membrane	protein serine/threonine kinase activity				0			Lung(22;9.49e-05)|LUSC - Lung squamous cell carcinoma(20;0.000219)			CGCAGCAGCACCGGGATGAGG	0.677													8	14					0	0	0.001368	0	0		T	41198161	T	T	41198161	3	4	1	1	0	0	0	0	1	0	0	0	290	507	18	4	224	4	ADCK4	19	41198161	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	134898	41198161	17930822	1225	1225											
ATP1A3	478	broad.mit.edu	37	chr19	42492227	42492227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccactctggggtggtaggcGgtggcgtgagtgcgttaggc	4	9	19	9	3	1	1	0	1	1	0	1	1	1	1	1	7	1	2	1	7	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:42492227G>A	uc002osg.2	-	4	372	c.218C>T	c.(217-219)CCG>CTG	p.P73L	ATP1A3_uc010xwf.1_Missense_Mutation_p.P84L|ATP1A3_uc010xwg.1_Missense_Mutation_p.P43L|ATP1A3_uc010xwh.1_Missense_Mutation_p.P86L|ATP1A3_uc002osh.2_Missense_Mutation_p.P73L	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	73	Interaction with phosphoinositide-3 kinase (By similarity).|Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						GGTGGTAGGCGGTGGCGTGAG	0.627													11	110					0	0	0.001368	0	0		A	42492227	A	A	42492227	3	1	1	1	0	0	0	0	1	0	0	0	1131	1116	39	1	2903	1	ATP1A3	19	42492227	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1294066	42492227	16636756	1226	1226											
CD177	57126	broad.mit.edu	37	chr19	43866319	43866319	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaaccacaccagacaaatCgggatcttctctgcgcgtga	11	9	9	12	3	2	3	0	2	2	1	4	4	2	4	2	1	2	0	2	1	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:43866319C>T	uc002owi.2	+	10	1203	c.1161C>T	c.(1159-1161)ATC>ATT	p.I387I	CD177_uc010eis.2_RNA|CD177_uc002owj.2_RNA	NM_020406	NP_065139	Q8N6Q3	CD177_HUMAN	CD177 molecule precursor	387					blood coagulation|leukocyte migration	anchored to membrane|plasma membrane				central_nervous_system(1)	1		Prostate(69;0.00682)				CCAGACAAATCGGGATCTTCT	0.587													8	127					0	0	0.00308	0	0		T	43866319	T	T	43866319	2	4	1	1	0	0	0	0	0	0	0	1	2974	874	31	1		1	CD177	19	43866319	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1374092	43866319	15262664	1227	1227											
TEX101	83639	broad.mit.edu	37	chr19	43920324	43920324	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccagccaatatgtttaactgGaccacagaggaagtggagac	14	7	11	9	0	0	2	0	0	0	2	0	5	0	4	3	3	2	1	3	3	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:43920324G>A	uc010xwo.1	+	3	333	c.138G>A	c.(136-138)TGG>TGA	p.W46*	TEX101_uc002owk.2_Nonsense_Mutation_p.W64*	NM_001130011	NP_001123483	Q9BY14	TX101_HUMAN	testis expressed 101 isoform 2	46						anchored to membrane|plasma membrane				ovary(1)	1		Prostate(69;0.0199)				TGTTTAACTGGACCACAGAGG	0.463													6	68					0	0	0.001984	0	0		A	43920324	A	A	43920324	4	1	1	1	0	0	0	0	0	1	0	0	15798	1183	41	4	202	4	TEX101	19	43920324	Nonsense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	54005	43920324	15208659	1228	1228											
ZNF404	342908	broad.mit.edu	37	chr19	44377018	44377018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaattagttgagaattaaGtctaaaggtttttccacatt	15	16	6	4	0	1	1	0	1	1	1	2	2	2	1	1	1	0	2	1	1	7	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:44377018G>A	uc002oxs.3	-	2	1348	c.1339C>T	c.(1339-1341)CTT>TTT	p.L447F		NM_001033719	NP_001028891	Q494X3	ZN404_HUMAN	zinc finger protein 404	450	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				TGAGAATTAAGTCTAAAGGTT	0.378													4	26					0	0	0.009096	0	0		A	44377018	A	A	44377018	3	1	1	1	0	0	0	0	1	0	0	0	17911	1029	36	4	314	4	ZNF404	19	44377018	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	456694	44377018	14751965	1229	1229											
ZNF155	7711	broad.mit.edu	37	chr19	44495769	44495769	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggctgctggaccctgccCagaggaagctgtaccgagat	8	7	15	11	1	0	2	0	0	0	2	0	5	0	4	3	4	4	4	3	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:44495769C>T	uc002oxy.1	+	3	290	c.85C>T	c.(85-87)CAG>TAG	p.Q29*	ZNF155_uc002oxz.1_Nonsense_Mutation_p.Q29*|ZNF155_uc010xwt.1_Nonsense_Mutation_p.Q40*	NM_003445	NP_003436	Q12901	ZN155_HUMAN	zinc finger protein 155	29	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)	2		Prostate(69;0.0352)				GGACCCTGCCCAGAGGAAGCT	0.532													17	219					0	0	0.007413	0	0		T	44495769	T	T	44495769	4	4	1	1	0	0	0	0	0	1	0	0	17761	595	21	4	91	4	ZNF155	19	44495769	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	118751	44495769	14633214	1230	1230											
RELB	5971	broad.mit.edu	37	chr19	45525310	45525310	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaggacttctcttcctgcaGctccgggattgtggagggct	6	11	14	10	1	1	1	0	0	1	1	4	4	3	4	2	4	2	3	2	4	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:45525310G>A	uc002paj.1	+	6	631	c.505_splice	c.e6-1	p.L169_splice		NM_006509	NP_006500	Q01201	RELB_HUMAN	reticuloendotheliosis viral oncogene homolog B							nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00986)		TCTTCCTGCAGCTCCGGGATT	0.637													3	25					0	0	0.004672	0	0		A	45525310	A	A	45525310	5	1	1	1	0	0	0	0	0	0	1	0	13242	985	34	2	514	2	RELB	19	45525310	Splice_Site	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1029541	45525310	13603673	1231	1231											
MARK4	57787	broad.mit.edu	37	chr19	45797677	45797677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacgcccgggggctgagcGcccgtcactgttgccaaatg	8	6	14	13	4	1	2	1	1	0	1	1	2	1	2	3	2	3	2	3	2	2	1	rs146014354		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:45797677G>A	uc002pbb.1	+	14	1570	c.1565G>A	c.(1564-1566)CGC>CAC	p.R522H	MARK4_uc002pba.1_Missense_Mutation_p.R522H			Q96L34	MARK4_HUMAN	RecName: Full=MAP/microtubule affinity-regulating kinase 4;          EC=2.7.11.1; AltName: Full=MAP/microtubule affinity-regulating kinase-like 1;	522					microtubule bundle formation|nervous system development|positive regulation of programmed cell death	centrosome|neuron projection	ATP binding|gamma-tubulin binding|microtubule binding|protein serine/threonine kinase activity|tau-protein kinase activity|ubiquitin binding			central_nervous_system(2)|large_intestine(1)	3		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		GGGGCTGAGCGCCCGTCACTG	0.587													12	57					0	0	0.001855	0	0		A	45797677	A	A	45797677	3	1	1	1	0	0	0	0	1	0	0	0	9333	1087	38	1	1619	1	MARK4	19	45797677	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	272367	45797677	13331306	1232	1232											
PPP1R13L	10848	broad.mit.edu	37	chr19	45901550	45901550	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgtccagaaagtcccgCgcgctctggaatgcctcgct	7	10	10	14	4	2	1	1	0	1	1	5	2	4	2	3	1	1	2	3	1	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:45901550C>T	uc002pbn.2	-	2	104	c.27G>A	c.(25-27)GCG>GCA	p.A9A	PPP1R13L_uc002pbo.2_Silent_p.A9A|PPP1R13L_uc002pbp.2_Silent_p.A9A	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	9					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		GAAAGTCCCGCGCGCTCTGGA	0.711													4	50					0	0	0.009096	0	0		T	45901550	T	T	45901550	2	4	1	1	0	0	0	0	0	0	0	1	12380	755	27	1		1	PPP1R13L	19	45901550	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	103873	45901550	13227433	1233	1233											
RTN2	6253	broad.mit.edu	37	chr19	45997881	45997881	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagtcctccccggatccCgttccccgggccacccagcc	6	5	10	20	3	0	1	0	0	0	1	4	3	4	2	9	2	1	1	9	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:45997881C>A	uc002pcb.2	-	3	690	c.462G>T	c.(460-462)ACG>ACT	p.T154T	RTN2_uc002pcc.2_Silent_p.T154T|RTN2_uc002pcd.2_RNA	NM_005619	NP_005610	O75298	RTN2_HUMAN	reticulon 2 isoform A	154						integral to endoplasmic reticulum membrane	signal transducer activity			ovary(3)	3		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00829)|Epithelial(262;0.184)|GBM - Glioblastoma multiforme(486;0.246)		CCCCGGATCCCGTTCCCCGGG	0.642													25	98					1.1804e-14	1.34008e-14	0.003954	1	0		A	45997881	A	A	45997881	2	1	1	1	0	0	0	0	0	0	0	1	13751	639	23	5		5	RTN2	19	45997881	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	96331	45997881	13131102	1234	1234											
FBXO46	23403	broad.mit.edu	37	chr19	46216164	46216164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggacacaaagactacaggcGctggggtggtcggtcgtggg	8	6	18	9	4	0	1	0	0	0	1	2	2	0	2	0	7	1	1	0	7	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:46216164G>A	uc002pcy.2	-	2	715	c.590C>T	c.(589-591)GCG>GTG	p.A197V	FBXO46_uc002pcz.2_Missense_Mutation_p.A197V	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	197							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		GACTACAGGCGCTGGGGTGGT	0.687													3	18					0	0	0.009096	0	0		A	46216164	A	A	46216164	3	1	1	1	0	0	0	0	1	0	0	0	5769	1087	38	1	1225	1	FBXO46	19	46216164	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	218283	46216164	12912819	1235	1235											
PGLYRP1	8993	broad.mit.edu	37	chr19	46522784	46522784	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggctggacagtcactcacCcatgtagttgcccatgaagc	9	9	10	13	0	2	1	2	1	0	0	2	2	2	2	2	2	2	3	2	2	2	2	rs143499039	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:46522784C>A	uc002pdx.1	-	2	453	c.409G>T	c.(409-411)GAT>TAT	p.D137Y		NM_005091	NP_005082	O75594	PGRP1_HUMAN	peptidoglycan recognition protein 1 precursor	137					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region	bacterial cell surface binding|N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(2)	2		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.0036)|GBM - Glioblastoma multiforme(486;0.022)|Epithelial(262;0.208)		AGTCACTCACCCATGTAGTTG	0.602													9	79					7.48243e-07	8.11933e-07	0.006214	1	0		A	46522784	A	A	46522784	3	1	1	1	0	0	0	0	1	0	0	0	11812	637	22	5	189	5	PGLYRP1	19	46522784	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	306620	46522784	12606199	1236	1236											
PNMAL2	57469	broad.mit.edu	37	chr19	46997605	46997605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatgacggacaagacctgtCggagggggtctcgcttgtct	8	9	14	10	3	2	2	0	1	2	1	4	4	2	4	1	4	0	1	1	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:46997605C>T	uc002pes.2	-	1	1565	c.1118G>A	c.(1117-1119)CGA>CAA	p.R373Q	uc002peu.1_5'Flank	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	373										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		CAAGACCTGTCGGAGGGGGTC	0.647													4	79					0	0	0.009096	0	0		T	46997605	T	T	46997605	3	4	1	1	0	0	0	0	1	0	0	0	12177	884	31	1	793	1	PNMAL2	19	46997605	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	474821	46997605	12131378	1237	1237											
PPFIA3	8541	broad.mit.edu	37	chr19	49643262	49643262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagcccccaagaagaagaGcatcaagtcatccataggcc	16	4	8	13	0	2	3	2	0	0	3	3	3	3	3	4	1	2	1	4	1	6	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:49643262G>A	uc002pmr.2	+	18	2617	c.2285G>A	c.(2284-2286)AGC>AAC	p.S762N	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_Missense_Mutation_p.S630N|PPFIA3_uc002pmt.2_5'Flank	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	762						cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		AAGAAGAAGAGCATCAAGTCA	0.552													40	111					0	0	0.00623	0	0		A	49643262	A	A	49643262	3	1	1	1	0	0	0	0	1	0	0	0	12330	971	34	2	2351	2	PPFIA3	19	49643262	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2645657	49643262	9485721	1238	1238											
TEAD2	8463	broad.mit.edu	37	chr19	49863248	49863248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccccagccccctcactgcCgccggtaccctcctcactgc	5	6	6	24	2	2	0	2	0	0	0	3	0	3	0	8	1	4	1	8	1	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:49863248C>T	uc002pnj.2	-	2	176	c.85G>A	c.(85-87)GGC>AGC	p.G29S	TEAD2_uc002png.2_Missense_Mutation_p.G29S|TEAD2_uc002pnh.2_Missense_Mutation_p.G29S|TEAD2_uc002pni.2_Missense_Mutation_p.G29S|TEAD2_uc010yao.1_Intron|TEAD2_uc010emw.2_Missense_Mutation_p.G29S	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	29					hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		CCCTCACTGCCGCCGGTACCC	0.701													5	34					0	0	0.001168	0	0		T	49863248	T	T	49863248	3	4	1	1	0	0	0	0	1	0	0	0	15764	652	23	1	1302	1	TEAD2	19	49863248	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	219986	49863248	9265735	1239	1239											
MYH14	79784	broad.mit.edu	37	chr19	50720986	50720986	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgaggtgccaccccacGtgtacgcagtgaccgagggg	8	4	15	14	4	0	1	0	1	0	0	0	3	0	1	5	3	2	2	5	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:50720986G>A	uc002prr.1	+	3	567	c.520G>A	c.(520-522)GTG>ATG	p.V174M	MYH14_uc010enu.1_Missense_Mutation_p.V174M|MYH14_uc002prq.1_Missense_Mutation_p.V174M	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	174	Myosin head-like.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		GCCACCCCACGTGTACGCAGT	0.617													11	111					0	0	0.010729	0	0		A	50720986	A	A	50720986	3	1	1	1	0	0	0	0	1	0	0	0	10051	1145	40	1	526	1	MYH14	19	50720986	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	857738	50720986	8407997	1240	1240											
POLD1	5424	broad.mit.edu	37	chr19	50918172	50918172	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggactgcaagggcctggAggccgtgcgcagggacaact	9	5	16	11	2	0	0	0	0	0	0	0	3	0	3	2	5	3	2	2	5	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:50918172A>G	uc002psb.3	+	20	2545	c.2489A>G	c.(2488-2490)GAG>GGG	p.E830G	POLD1_uc002psc.3_Missense_Mutation_p.E830G|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Missense_Mutation_p.E856G	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	830					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		AAGGGCCTGGAGGCCGTGCGC	0.617								DNA_polymerases_(catalytic_subunits)			OREG0025635	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	34					0	0	0.009096	0	0		G	50918172	G	G	50918172	3	3	1	1	0	0	0	0	1	0	0	0	12209	304	11	3	2563	3	POLD1	19	50918172	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	197186	50918172	8210811	1241	1241											
LRRC4B	94030	broad.mit.edu	37	chr19	51022368	51022368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccagcccctcgaaggccGcctccgagatgtattccagc	8	7	10	16	3	0	2	0	1	0	1	3	4	2	2	7	1	2	1	7	1	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:51022368G>A	uc002pss.2	-	3	739	c.602C>T	c.(601-603)GCG>GTG	p.A201V		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	201	LRR 5.|Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		CTCGAAGGCCGCCTCCGAGAT	0.657													10	17					0	0	0.008291	0	0		A	51022368	A	A	51022368	3	1	1	1	0	0	0	0	1	0	0	0	9025	1087	38	1	1543	1	LRRC4B	19	51022368	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	104196	51022368	8106615	1242	1242											
C19orf48	84798	broad.mit.edu	37	chr19	51301392	51301392	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggattctggcctgcttcAcccctggagcaccaggccag	7	7	11	16	0	2	0	1	0	1	0	2	2	2	2	6	4	2	2	6	4	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:51301392A>G	uc002ptf.2	-	5	1236	c.314T>C	c.(313-315)GTG>GCG	p.V105A	C19orf48_uc002pte.2_RNA|C19orf48_uc002ptg.2_Missense_Mutation_p.V105A	NM_199249	NP_954857	Q6RUI8	CS048_HUMAN	multidrug resistance-related protein	105										ovary(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00531)|GBM - Glioblastoma multiforme(134;0.0145)		GGCCTGCTTCACCCCTGGAGC	0.612													16	161					0	0	0.006122	0	0		G	51301392	G	G	51301392	3	3	1	1	0	0	0	0	1	0	0	0	1934	159	6	3	43	3	C19orf48	19	51301392	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	279024	51301392	7827591	1243	1243											
SIGLEC8	27181	broad.mit.edu	37	chr19	51958778	51958778	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctcacgtgcactcgaggCagctccagcagcccagggtt	7	7	11	16	2	1	0	1	0	0	0	4	1	3	0	3	2	4	5	3	2	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:51958778C>A	uc002pwt.2	-	4	1012	c.945G>T	c.(943-945)CTG>CTT	p.L315L	SIGLEC8_uc010yda.1_Silent_p.L206L|SIGLEC8_uc002pwu.2_RNA|SIGLEC8_uc010eox.2_Silent_p.L222L	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	315	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		GCACTCGAGGCAGCTCCAGCA	0.632													13	31					9.31168e-06	1.00003e-05	0.001855	1	0		A	51958778	A	A	51958778	2	1	1	1	0	0	0	0	0	0	0	1	14339	697	25	5		5	SIGLEC8	19	51958778	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	657386	51958778	7170205	1244	1244											
ZNF614	80110	broad.mit.edu	37	chr19	52519952	52519952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgatgagcaattagatagCgcttcattgtaaagcccttt	11	13	9	8	1	1	3	1	2	0	1	1	3	1	3	1	0	3	4	1	0	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:52519952C>T	uc002pyj.2	-	5	1301	c.899G>A	c.(898-900)CGC>CAC	p.R300H	ZNF614_uc002pyi.3_Intron|ZNF614_uc010epj.2_Missense_Mutation_p.R3H	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	300	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		AATTAGATAGCGCTTCATTGT	0.408													40	286					0	0	0.006999	0	0		T	52519952	T	T	52519952	3	4	1	1	0	0	0	0	1	0	0	0	18064	768	27	1	862	1	ZNF614	19	52519952	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	561174	52519952	6609031	1245	1245											
ZNF528	84436	broad.mit.edu	37	chr19	52919773	52919773	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgtagtaaatgtggcaaAgcatttcgagggtgttcagg	12	11	14	4	1	1	1	1	0	0	1	2	2	1	1	0	3	1	5	0	3	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:52919773A>C	uc002pzh.2	+	7	2094	c.1668A>C	c.(1666-1668)AAA>AAC	p.K556N	ZNF528_uc002pzi.2_Missense_Mutation_p.K323N	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	556	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		AATGTGGCAAAGCATTTCGAG	0.398													30	117					0	0	0.00632	0	0		C	52919773	C	C	52919773	3	2	1	1	0	0	0	0	1	0	0	0	17994	69	3	5	1682	5	ZNF528	19	52919773	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	399821	52919773	6209210	1246	1246											
ZNF761	388561	broad.mit.edu	37	chr19	53959611	53959611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggcaagaccttcagtcGgacgtcatcccttacatgcc	8	10	10	13	2	2	1	2	0	0	1	4	2	3	2	3	2	2	1	3	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:53959611G>A	uc010eqp.2	+	7	2308	c.1850G>A	c.(1849-1851)CGG>CAG	p.R617Q	ZNF761_uc010ydy.1_Missense_Mutation_p.R563Q|ZNF761_uc002qbt.1_Missense_Mutation_p.R563Q	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	617	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		ACCTTCAGTCGGACGTCATCC	0.393													28	211					0	0	0.002836	0	0		A	53959611	A	A	53959611	3	1	1	1	0	0	0	0	1	0	0	0	18161	1116	39	1	1861	1	ZNF761	19	53959611	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1039838	53959611	5169372	1247	1247											
LILRA1	11024	broad.mit.edu	37	chr19	55106591	55106591	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatcaaacccaccctctcaGctctacccagccctgtggtg	9	8	6	18	0	3	0	2	0	2	0	4	0	3	0	4	1	4	1	4	1	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:55106591G>C	uc002qgh.1	+	5	567	c.385G>C	c.(385-387)GCT>CCT	p.A129P	LILRA2_uc010yfg.1_Intron|LILRA1_uc010yfh.1_Missense_Mutation_p.A129P	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	129	Ig-like C2-type 2.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		CACCCTCTCAGCTCTACCCAG	0.557													21	129					0	0	0.008871	0	0		C	55106591	C	C	55106591	3	2	1	1	0	0	0	0	1	0	0	0	8800	971	34	5	399	5	LILRA1	19	55106591	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1146980	55106591	4022392	1248	1248											
NCR1	9437	broad.mit.edu	37	chr19	55420813	55420813	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccaccgagggacatacCgatgttttggctcctataac	10	9	9	13	2	0	0	0	0	0	0	1	3	1	1	4	2	3	2	4	2	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:55420813C>T	uc002qib.2	+	4	603	c.565C>T	c.(565-567)CGA>TGA	p.R189*	NCR1_uc002qic.2_Nonsense_Mutation_p.R189*|NCR1_uc002qie.2_Nonsense_Mutation_p.R189*|NCR1_uc002qid.2_Nonsense_Mutation_p.R94*|NCR1_uc002qif.2_Nonsense_Mutation_p.R94*|NCR1_uc010esj.2_Nonsense_Mutation_p.R82*	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1	189	Extracellular (Potential).|Ig-like 2.				cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		AGGGACATACCGATGTTTTGG	0.587													21	76					0	0	0.010504	0	0		T	55420813	T	T	55420813	4	4	1	1	0	0	0	0	0	1	0	0	10256	644	23	1	579	1	NCR1	19	55420813	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	314222	55420813	3708170	1249	1249											
GP6	51206	broad.mit.edu	37	chr19	55530062	55530062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatgagacggtcagttcagCggtggcttctgagaattcta	10	11	13	7	2	4	2	2	2	2	2	4	5	4	2	0	3	1	2	0	3	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:55530062C>T	uc002qik.2	-	6	710	c.682G>A	c.(682-684)GCT>ACT	p.A228T	GP6_uc002qil.2_Missense_Mutation_p.A228T|GP6_uc010esq.2_Missense_Mutation_p.A210T	NM_016363	NP_057447	Q9HCN6	GPVI_HUMAN	glycoprotein VI (platelet) isoform 2	228	Extracellular (Potential).				enzyme linked receptor protein signaling pathway|leukocyte migration|platelet activation	integral to plasma membrane	collagen binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.156)	GBM - Glioblastoma multiforme(193;0.0515)		GTCAGTTCAGCGGTGGCTTCT	0.458													31	121					0	0	0.008361	0	0		T	55530062	T	T	55530062	3	4	1	1	0	0	0	0	1	0	0	0	6599	768	27	1	1192	1	GP6	19	55530062	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	109249	55530062	3598921	1250	1250											
ISOC2	79763	broad.mit.edu	37	chr19	55966630	55966630	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaggggccctctcacctgCgtgaggagcaggcgtccacc	6	5	15	15	2	1	1	1	1	1	0	3	2	2	2	4	5	2	2	4	5	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:55966630C>T	uc002qlb.2	-	4	590	c.416G>A	c.(415-417)CGC>CAC	p.R139H	ISOC2_uc002qla.2_Missense_Mutation_p.R155H|ISOC2_uc002qlc.2_Missense_Mutation_p.R69H	NM_001136201	NP_001129673	Q96AB3	ISOC2_HUMAN	isochorismatase domain containing 2 isoform 1	139					protein destabilization	mitochondrion|nucleus	catalytic activity|protein binding			ovary(1)	1	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0535)		CTCTCACCTGCGTGAGGAGCA	0.687													3	14					0	0	0.004672	0	0		T	55966630	T	T	55966630	3	4	1	1	0	0	0	0	1	0	0	0	7879	768	27	1	213	1	ISOC2	19	55966630	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	436568	55966630	3162353	1251	1251											
ZNF524	147807	broad.mit.edu	37	chr19	56114077	56114077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggagcgcccgtaccagtGccccatctgccggctgcgct	4	6	15	16	4	1	0	0	0	1	0	1	1	1	1	5	3	5	3	5	3	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:56114077G>A	uc002qlk.1	+	2	682	c.599G>A	c.(598-600)TGC>TAC	p.C200Y	FIZ1_uc002qlj.3_5'Flank	NM_153219	NP_694951	Q96C55	ZN524_HUMAN	zinc finger protein 524	200	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		CCGTACCAGTGCCCCATCTGC	0.726													8	18					0	0	0.00308	0	0		A	56114077	A	A	56114077	3	1	1	1	0	0	0	0	1	0	0	0	17991	1319	46	2	601	2	ZNF524	19	56114077	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	147447	56114077	3014906	1252	1252											
ZNF784	147808	broad.mit.edu	37	chr19	56133447	56133447	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccagtgtgcacgcgctcGtggtctcgcatgtctgagga	5	10	14	12	5	2	1	0	1	2	0	5	2	2	2	1	2	1	3	1	2	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:56133447G>A	uc002qll.1	-	2	656	c.642C>T	c.(640-642)CAC>CAT	p.H214H	ZNF784_uc010etb.1_RNA	NM_203374	NP_976308	Q8NCA9	ZN784_HUMAN	zinc finger protein 784	214	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		GCACGCGCTCGTGGTCTCGCA	0.537													4	6					0	0	0.001168	0	0		A	56133447	A	A	56133447	2	1	1	1	0	0	0	0	0	0	0	1	18181	1136	40	1		1	ZNF784	19	56133447	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	19370	56133447	2995536	1253	1253											
ZNF787	126208	broad.mit.edu	37	chr19	56600295	56600295	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcgtgcgctggtgccgCgtcagcttggaccagtggct	3	10	17	11	4	1	0	1	0	0	0	1	1	1	1	2	3	4	3	2	3	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:56600295C>T	uc010eth.1	-	3	365	c.246G>A	c.(244-246)ACG>ACA	p.T82T		NM_001002836	NP_001002836	Q6DD87	ZN787_HUMAN	zinc finger protein 787	82	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0559)		GCTGGTGCCGCGTCAGCTTGG	0.507													4	9					0	0	0.009096	0	0		T	56600295	T	T	56600295	2	4	1	1	0	0	0	0	0	0	0	1	18184	755	27	1		1	ZNF787	19	56600295	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	466848	56600295	2528688	1254	1254											
ZSCAN5A	79149	broad.mit.edu	37	chr19	56733195	56733195	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttctggcagacgtcacAcgtgtagggcctctcgccag	6	9	12	14	3	3	1	1	0	2	1	4	1	3	1	2	2	1	3	2	2	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:56733195A>G	uc002qmq.2	-	5	1406	c.1240T>C	c.(1240-1242)TGT>CGT	p.C414R	ZSCAN5A_uc010ygi.1_Missense_Mutation_p.C297R|ZSCAN5A_uc002qmr.2_Missense_Mutation_p.C414R|ZSCAN5A_uc002qms.1_Missense_Mutation_p.C413R	NM_024303	NP_077279	Q9BUG6	ZSA5A_HUMAN	zinc finger and SCAN domain containing 5A	414	C2H2-type 3.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						CAGACGTCACACGTGTAGGGC	0.507													7	59					0	0	0.00308	0	0		G	56733195	G	G	56733195	3	3	1	1	0	0	0	0	1	0	0	0	18263	159	6	3	254	3	ZSCAN5A	19	56733195	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	132900	56733195	2395788	1255	1255											
ZNF71	58491	broad.mit.edu	37	chr19	57133549	57133549	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaccggggagaagccgtaCgcctgcaaggagtgcggcaa	11	3	15	12	4	0	1	0	0	0	1	0	3	0	2	3	4	4	3	3	4	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:57133549C>T	uc002qnm.3	+	3	1132	c.894C>T	c.(892-894)TAC>TAT	p.Y298Y		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	298	C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		AGAAGCCGTACGCCTGCAAGG	0.667													5	56					0	0	0.001984	0	0		T	57133549	T	T	57133549	2	4	1	1	0	0	0	0	0	0	0	1	18139	547	19	1		1	ZNF71	19	57133549	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	400354	57133549	1995434	1256	1256											
ZNF71	58491	broad.mit.edu	37	chr19	57133703	57133703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaccagcgcttccacatcGgcgtgaagccgttcgagtgc	8	7	12	14	5	0	1	0	1	0	0	3	2	1	1	3	1	4	3	3	1	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:57133703G>A	uc002qnm.3	+	3	1286	c.1048G>A	c.(1048-1050)GGC>AGC	p.G350S		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	350						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		CTTCCACATCGGCGTGAAGCC	0.642													6	43					0	0	0.001984	0	0		A	57133703	A	A	57133703	3	1	1	1	0	0	0	0	1	0	0	0	18139	1116	39	1	1050	1	ZNF71	19	57133703	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	154	57133703	1995280	1257	1257											
DUXA	503835	broad.mit.edu	37	chr19	57669726	57669726	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactctggaacaccgatttcTttagcaagttcttctctgga	9	14	8	10	1	4	0	0	0	4	0	5	4	4	2	1	2	2	2	1	2	3	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:57669726T>G	uc002qoa.1	-	4	453	c.408A>C	c.(406-408)AAA>AAC	p.K136N		NM_001012729	NP_001012747	A6NLW8	DUXA_HUMAN	double homeobox A	136	Homeobox 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0123)		CACCGATTTCTTTAGCAAGTT	0.433													39	324					0	0	0.011902	0	0		G	57669726	G	G	57669726	3	3	1	1	0	0	0	0	1	0	0	0	4840	1606	56	5	218	5	DUXA	19	57669726	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	536023	57669726	1459257	1258	1258											
ZNF606	80095	broad.mit.edu	37	chr19	58500078	58500078	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccacggccacgtccttgaaGgtcactggttcctaaaagaa	11	9	9	12	2	1	2	1	1	0	1	4	2	4	2	4	3	0	1	4	3	4	3	rs139860010	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:58500078G>T	uc002qqw.2	-	5	807	c.189C>A	c.(187-189)ACC>ACA	p.T63T	ZNF606_uc010yhp.1_5'UTR	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	63	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		CGTCCTTGAAGGTCACTGGTT	0.557													20	248					1.22574e-08	1.35472e-08	0.002299	1	0		T	58500078	T	T	58500078	2	4	1	1	0	0	0	0	0	0	0	1	18057	987	35	5		5	ZNF606	19	58500078	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	830352	58500078	628905	1259	1259											
ZSCAN18	65982	broad.mit.edu	37	chr19	58600183	58600183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taagaattgaggatgagcccGcaggggagcccagcagcatc	12	5	14	10	1	0	3	0	2	0	1	1	5	0	5	2	3	4	3	2	3	2	2	rs73058515	by1000genomes	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr19:58600183G>A	uc002qri.2	-	3	734	c.425C>T	c.(424-426)GCG>GTG	p.A142V	ZSCAN18_uc002qrj.3_Missense_Mutation_p.A142V|ZSCAN18_uc010yhs.1_Missense_Mutation_p.A7V|ZSCAN18_uc002qrh.2_Missense_Mutation_p.A142V|ZSCAN18_uc010yht.1_Missense_Mutation_p.A198V|ZSCAN18_uc002qrk.1_Missense_Mutation_p.A142V|ZSCAN18_uc002qrl.2_Missense_Mutation_p.A142V	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	142					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		GGATGAGCCCGCAGGGGAGCC	0.597													24	64					0	0	0.009535	0	0		A	58600183	A	A	58600183	3	1	1	1	0	0	0	0	1	0	0	0	18255	1087	38	1	1127	1	ZSCAN18	19	58600183	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	100105	58600183	528800	1260	1260											
TBC1D20	128637	broad.mit.edu	37	chr20	419477	419477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaagtctttgaaagtagagGctgccgtcctgcaggggaaa	12	8	13	8	1	1	2	0	1	1	1	2	3	2	3	2	3	2	3	2	3	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:419477G>A	uc002wds.2	-	8	1103	c.965C>T	c.(964-966)GCC>GTC	p.A322V	TBC1D20_uc002wdv.2_Missense_Mutation_p.A145V|TBC1D20_uc002wdt.2_RNA|TBC1D20_uc002wdu.2_RNA	NM_144628	NP_653229	Q96BZ9	TBC20_HUMAN	TBC1 domain family, member 20	322					interspecies interaction between organisms	integral to membrane|intracellular	Rab GTPase activator activity			central_nervous_system(1)	1		all_epithelial(17;0.228)|Breast(17;0.231)				GAAAGTAGAGGCTGCCGTCCT	0.552													4	114					0	0	0.009096	0	0		A	419477	A	A	419477	3	1	1	1	0	0	0	0	1	0	0	0	15634	1203	42	2	250	2	TBC1D20	20	419477	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08		419477	62606043	1261	1261											
SIRPA	140885	broad.mit.edu	37	chr20	1902288	1902288	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcactctcaagtcatctgCgaggtggcccacgtcacctt	7	11	9	14	2	5	0	4	0	2	0	6	1	5	0	2	2	1	1	2	2	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:1902288C>T	uc002wfq.2	+	4	1044	c.684C>T	c.(682-684)TGC>TGT	p.C228C	SIRPA_uc010zps.1_Silent_p.C208C|SIRPA_uc002wfr.2_Silent_p.C228C|SIRPA_uc002wfs.2_Silent_p.C228C|SIRPA_uc002wft.2_Silent_p.C228C	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	228	Ig-like C1-type 1.|Extracellular (Potential).				blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		AAGTCATCTGCGAGGTGGCCC	0.612													15	55					0	0	0.004007	0	0		T	1902288	T	T	1902288	2	4	1	1	0	0	0	0	0	0	0	1	14357	776	27	1		1	SIRPA	20	1902288	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1482811	1902288	61123232	1262	1262											
STK35	140901	broad.mit.edu	37	chr20	2083828	2083829	+	Frame_Shift_Ins	INS	-	C	C																															caagaagatccgctgcgacgINScccccgagaacgtggagctg																										TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:2083828_2083829insC	uc010gak.2	+	2	709_710	c.709_710insC	c.(709-711)GCCfs	p.A237fs	STK35_uc010zpu.1_Frame_Shift_Ins_p.A104fs|STK35_uc002wfw.3_Frame_Shift_Ins_p.A104fs	NM_080836	NP_543026	Q8TDR2	STK35_HUMAN	serine/threonine kinase 35	237	Protein kinase.					cytoplasm|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CCGCTGCGACGCCCCCGAGAAC	0.683													4	7	---	---	---	---						.	C	2083829	C	C	2083828	7	5	1	1	0	1	1	0	0	0	0	0	15326	1087	38	0	715	0	STK35	20	2083828	Frame_Shift_Ins	INS	-	TCGA-B7-5816-01A-21D-1600-08	181540	2083828	60941692	1263	1263											
SLC4A11	83959	broad.mit.edu	37	chr20	3210170	3210170	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccccatgcagcccctcacCtcttcttgaattggtagagg	7	11	8	15	0	3	2	1	1	2	1	4	2	4	2	5	2	2	2	5	2	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:3210170C>A	uc002wig.2	-	13	1838	c.1790G>T	c.(1789-1791)AGC>ATC	p.S597I	SLC4A11_uc010zqe.1_Missense_Mutation_p.S624I|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.S581I	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	597	Membrane (bicarbonate transporter).|Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						AGCCCCTCACCTCTTCTTGAA	0.657													4	38					0.00116845	0.00120824	0.001168	1	0		A	3210170	A	A	3210170	3	1	1	1	0	0	0	0	1	0	0	0	14677	695	24	5	913	5	SLC4A11	20	3210170	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1126342	3210170	59815350	1264	1264											
CHGB	1114	broad.mit.edu	37	chr20	5904061	5904061	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccatcacagaggcaggggagGggagccacgtgcctatttca	10	6	14	11	1	2	1	2	0	0	1	2	3	2	3	3	5	2	1	3	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:5904061G>T	uc002wmg.2	+	4	1577	c.1271G>T	c.(1270-1272)GGG>GTG	p.G424V	CHGB_uc010zqz.1_Missense_Mutation_p.G107V	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	424						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						GGCAGGGGAGGGGAGCCACGT	0.527													14	76					6.49762e-13	7.33673e-13	0.006122	1	0		T	5904061	T	T	5904061	3	4	1	1	0	0	0	0	1	0	0	0	3342	1232	43	5	1285	5	CHGB	20	5904061	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2693891	5904061	57121459	1265	1265											
TRMT6	51605	broad.mit.edu	37	chr20	5922653	5922653	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctaaatgtcttttcctctgCtcttcttgtctcctctgttt	3	22	4	12	0	7	0	0	0	7	0	9	0	8	0	2	0	1	2	2	0	2	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:5922653C>T	uc002wmh.1	-	8	1178	c.1056G>A	c.(1054-1056)GAG>GAA	p.E352E	TRMT6_uc010zra.1_Silent_p.E182E|TRMT6_uc010gbn.1_3'UTR	NM_015939	NP_057023	Q9UJA5	TRM6_HUMAN	tRNA methyltransferase 6	352					regulation of translational initiation|tRNA processing	nucleus	protein binding|translation initiation factor activity			pancreas(1)	1						TTTTCCTCTGCTCTTCTTGTC	0.448													30	219					0	0	0.010771	0	0		T	5922653	T	T	5922653	2	4	1	1	0	0	0	0	0	0	0	1	16594	796	28	2		2	TRMT6	20	5922653	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	18592	5922653	57102867	1266	1266											
PLCB4	5332	broad.mit.edu	37	chr20	9368181	9368181	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataactcatggaaaagcaaTgtgtacagatatccttttta	16	13	6	6	0	1	1	1	0	0	1	2	2	2	2	1	1	3	2	1	1	8	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:9368181T>C	uc002wnf.2	+	14	1272	c.1136T>C	c.(1135-1137)ATG>ACG	p.M379T	PLCB4_uc010gbw.1_Missense_Mutation_p.M379T|PLCB4_uc010gbx.2_Missense_Mutation_p.M379T|PLCB4_uc002wne.2_Missense_Mutation_p.M379T|PLCB4_uc002wnh.2_Missense_Mutation_p.M226T	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	379	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						GGAAAAGCAATGTGTACAGAT	0.348													10	78					0	0	0.010729	0	0		C	9368181	C	C	9368181	3	2	1	1	0	0	0	0	1	0	0	0	12049	1464	51	3	1182	3	PLCB4	20	9368181	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3445528	9368181	53657339	1267	1267											
ANKRD5	63926	broad.mit.edu	37	chr20	10019036	10019036	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagacaagaagcagatagaGaagctgaccaagcttggata	19	5	11	6	0	0	5	0	1	0	4	0	7	0	6	1	1	3	3	1	1	7	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:10019036G>T	uc002wno.2	+	3	480	c.87G>T	c.(85-87)GAG>GAT	p.E29D	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Missense_Mutation_p.E29D|ANKRD5_uc010gbz.2_5'UTR	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	29							calcium ion binding			ovary(1)|breast(1)	2						AGCAGATAGAGAAGCTGACCA	0.403													13	131					4.3838e-07	4.77246e-07	0.001855	1	0		T	10019036	T	T	10019036	3	4	1	1	0	0	0	0	1	0	0	0	676	933	33	5	89	5	ANKRD5	20	10019036	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	650855	10019036	53006484	1268	1268											
SEL1L2	80343	broad.mit.edu	37	chr20	13846098	13846098	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctatatcaccatccttataGgcaaagtaagctgtcaggaa	14	11	7	9	0	3	0	2	0	1	0	4	1	4	1	2	2	1	3	2	2	7	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:13846098G>T	uc010gcf.2	-	16	1549	c.1467C>A	c.(1465-1467)GCC>GCA	p.A489A	SEL1L2_uc002woq.3_Silent_p.A350A|SEL1L2_uc010zrl.1_Intron|SEL1L2_uc002wor.2_Intron	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	489	Extracellular (Potential).					integral to membrane	binding			ovary(2)	2						CATCCTTATAGGCAAAGTAAG	0.413													22	148					3.62473e-10	4.03823e-10	0.012319	1	0		T	13846098	T	T	13846098	2	4	1	1	0	0	0	0	0	0	0	1	14036	987	35	5		5	SEL1L2	20	13846098	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	3827062	13846098	49179422	1269	1269											
MACROD2	140733	broad.mit.edu	37	chr20	15210620	15210620	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtagggccaatagccaggggCcatattaatggttcccacaa	12	8	11	10	0	0	0	0	0	0	0	1	0	1	0	4	4	1	2	4	4	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:15210620C>T	uc002wou.2	+	6	717	c.453C>T	c.(451-453)GGC>GGT	p.G151G	MACROD2_uc002wot.2_Silent_p.G151G|MACROD2_uc002woz.2_5'UTR	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	151	Macro.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				TAGCCAGGGGCCATATTAATG	0.353													11	88					0	0	0.010729	0	0		T	15210620	T	T	15210620	2	4	1	1	0	0	0	0	0	0	0	1	9164	726	26	2		2	MACROD2	20	15210620	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1364522	15210620	47814900	1270	1270											
CRNKL1	51340	broad.mit.edu	37	chr20	20017972	20017972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggcagagttcttaccccatCatcagtctggacctttcttc	7	13	8	13	0	5	1	2	0	3	1	6	2	5	2	3	2	1	2	3	2	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:20017972C>T	uc002wrs.2	-	14	2406	c.2374G>A	c.(2374-2376)GAT>AAT	p.D792N		NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	792	HAT 16.				spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						CTTACCCCATCATCAGTCTGG	0.428													26	431					0	0	0.004656	0	0		T	20017972	T	T	20017972	3	4	1	1	0	0	0	0	1	0	0	0	3894	826	29	4	180	4	CRNKL1	20	20017972	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4807352	20017972	43007548	1271	1271											
SSTR4	6754	broad.mit.edu	37	chr20	23016664	23016664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggtcactctccccatcGccatcttcgcagacaccaga	8	10	7	16	2	3	2	1	0	2	2	6	2	3	2	4	1	0	2	4	1	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:23016664G>A	uc002wsr.2	+	1	608	c.544G>A	c.(544-546)GCC>ACC	p.A182T		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	182	Helical; Name=4; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					TCTCCCCATCGCCATCTTCGC	0.692													10	55					0	0	0.003163	0	0		A	23016664	A	A	23016664	3	1	1	1	0	0	0	0	1	0	0	0	15225	1087	38	1	546	1	SSTR4	20	23016664	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2998692	23016664	40008856	1272	1272											
CST8	10047	broad.mit.edu	37	chr20	23473695	23473695	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcgccattcaagaaaactCcaagctgaaaagggtaggtg	14	7	11	9	1	1	2	1	1	0	1	2	2	2	2	2	2	3	2	2	2	7	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:23473695C>A	uc002wth.1	+	3	689	c.332C>A	c.(331-333)TCC>TAC	p.S111Y		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	111						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					CAAGAAAACTCCAAGCTGAAA	0.468													18	154					3.52763e-06	3.80811e-06	0.00499	1	0		A	23473695	A	A	23473695	3	1	1	1	0	0	0	0	1	0	0	0	3981	855	30	5	338	5	CST8	20	23473695	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	457031	23473695	39551825	1273	1273											
CST9L	128821	broad.mit.edu	37	chr20	23548877	23548877	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggaattcaagatgtgccCcagtctgtaggcatagtagt	11	10	11	9	0	2	1	1	0	1	1	2	2	2	2	3	2	1	3	3	2	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:23548877C>A	uc002wtk.3	-	1	510	c.211G>T	c.(211-213)GGG>TGG	p.G71W		NM_080610	NP_542177	Q9H4G1	CST9L_HUMAN	cystatin 9-like precursor	71						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					AAGATGTGCCCCAGTCTGTAG	0.532													10	58					2.74318e-10	3.06019e-10	0.006214	1	0		A	23548877	A	A	23548877	3	1	1	1	0	0	0	0	1	0	0	0	3983	623	22	5	244	5	CST9L	20	23548877	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	75182	23548877	39476643	1274	1274											
PYGB	5834	broad.mit.edu	37	chr20	25261593	25261593	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggcaccagcacgtggcCgcgctgtttcccggcgatgt	4	11	13	13	5	0	0	0	0	0	0	1	1	1	0	3	3	1	4	3	3	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:25261593C>T	uc002wup.2	+	11	1357	c.1248C>T	c.(1246-1248)GCC>GCT	p.A416A		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	416					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	AGCACGTGGCCGCGCTGTTTC	0.642													10	106					0	0	0.010729	0	0		T	25261593	T	T	25261593	2	4	1	1	0	0	0	0	0	0	0	1	12885	639	23	1		1	PYGB	20	25261593	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1712716	25261593	37763927	1275	1275											
PYGB	5834	broad.mit.edu	37	chr20	25274898	25274898	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagccagactgcttcaaggAcatcgtgaacatgctgatgc	11	8	12	10	1	1	3	1	2	0	1	2	5	1	5	1	2	5	2	1	2	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:25274898A>G	uc002wup.2	+	18	2391	c.2282A>G	c.(2281-2283)GAC>GGC	p.D761G		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	761					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	TGCTTCAAGGACATCGTGAAC	0.507											OREG0025844	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	78					0	0	0.001855	0	0		G	25274898	G	G	25274898	3	3	1	1	0	0	0	0	1	0	0	0	12885	275	10	3	2352	3	PYGB	20	25274898	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	13305	25274898	37750622	1276	1276											
ZNF341	84905	broad.mit.edu	37	chr20	32354675	32354675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggttgggccagcccctgcCgggtgcgccacagccccagg	5	4	16	16	2	0	0	0	0	0	0	0	0	0	0	7	4	4	1	7	4	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:32354675C>T	uc002wzy.2	+	9	1261	c.1241C>T	c.(1240-1242)CCG>CTG	p.P414L	ZNF341_uc002wzx.2_Missense_Mutation_p.P407L|ZNF341_uc010geq.2_Missense_Mutation_p.P324L|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	414					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CAGCCCCTGCCGGGTGCGCCA	0.637													22	205					0	0	0.003954	0	0		T	32354675	T	T	32354675	3	4	1	1	0	0	0	0	1	0	0	0	17882	652	23	1	1254	1	ZNF341	20	32354675	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	7079777	32354675	30670845	1277	1277											
GDF5	8200	broad.mit.edu	37	chr20	34022311	34022311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggccgagttcttaaagtttCggaagagcttccagatgtcg	9	11	13	8	3	1	2	0	0	1	2	4	4	2	3	2	2	1	3	2	2	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:34022311C>T	uc002xck.1	-	2	1221	c.902G>A	c.(901-903)CGA>CAA	p.R301Q	GDF5_uc010gfc.1_Missense_Mutation_p.R301Q|uc002xcj.2_Missense_Mutation_p.S241L|GDF5_uc010zvc.1_Missense_Mutation_p.R301Q	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	301					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			CTTAAAGTTTCGGAAGAGCTT	0.692													5	17					0	0	0.000602	0	0		T	34022311	T	T	34022311	3	4	1	1	0	0	0	0	1	0	0	0	6331	884	31	1	607	1	GDF5	20	34022311	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1667636	34022311	29003209	1278	1278											
SLA2	84174	broad.mit.edu	37	chr20	35269703	35269703	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaactcaagcttgggctTggcagagattttcttctgct	8	13	12	8	0	3	1	1	0	2	1	3	4	3	2	0	3	3	4	0	3	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:35269703T>C	uc002xfv.2	-	2	398	c.36A>G	c.(34-36)CCA>CCG	p.P12P	SLA2_uc002xfu.2_Silent_p.P12P	NM_032214	NP_115590	Q9H6Q3	SLAP2_HUMAN	Src-like-adaptor 2 isoform a	12					antigen receptor-mediated signaling pathway|B cell mediated immunity|intracellular receptor mediated signaling pathway|negative regulation of B cell activation|negative regulation of calcium-mediated signaling|negative regulation of transcription from RNA polymerase II promoter|T cell activation	cytoplasmic membrane-bounded vesicle|endosome membrane|plasma membrane	protein N-terminus binding|SH3/SH2 adaptor activity				0	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				AGCTTGGGCTTGGCAGAGATT	0.547													23	160					0	0	0.012319	0	0		C	35269703	C	C	35269703	2	2	1	1	0	0	0	0	0	0	0	1	14389	1799	63	3		3	SLA2	20	35269703	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1247392	35269703	27755817	1279	1279											
TGM2	7052	broad.mit.edu	37	chr20	36789944	36789944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccggcacaggtcggccGtgtggtggtctcggccattg	3	10	15	13	4	2	0	0	0	2	0	5	0	2	0	3	6	0	1	3	6	0	1	rs147890243		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:36789944G>A	uc002xhr.2	-	2	168	c.68C>T	c.(67-69)ACG>ATG	p.T23M	TGM2_uc010zvx.1_Missense_Mutation_p.T23M|TGM2_uc010zvy.1_Intron|TGM2_uc002xhs.1_Missense_Mutation_p.T23M|TGM2_uc002xht.2_Missense_Mutation_p.T23M|TGM2_uc002xhu.3_Missense_Mutation_p.T23M	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	23					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)	CAGGTCGGCCGTGTGGTGGTC	0.612													7	98					0	0	0.00308	0	0		A	36789944	A	A	36789944	3	1	1	1	0	0	0	0	1	0	0	0	15855	1145	40	1	2075	1	TGM2	20	36789944	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1520241	36789944	26235576	1280	1280											
PLCG1	5335	broad.mit.edu	37	chr20	39794919	39794919	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttgacagacaacctcgtcTttgactccctctatgacctc	8	13	5	15	1	3	4	0	3	3	1	6	4	4	4	3	0	1	0	3	0	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:39794919T>G	uc002xjp.1	+	17	2006	c.1885T>G	c.(1885-1887)TTT>GTT	p.F629V	PLCG1_uc002xjo.1_Missense_Mutation_p.F629V|PLCG1_uc010zwe.1_Missense_Mutation_p.F255V|PLCG1_uc010ggf.2_5'UTR	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	629	SH2 1.				activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				CAACCTCGTCTTTGACTCCCT	0.562													12	104					0	0	0.010729	0	0		G	39794919	G	G	39794919	3	3	1	1	0	0	0	0	1	0	0	0	12054	1609	56	5	1951	5	PLCG1	20	39794919	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3004975	39794919	23230601	1281	1281											
SFRS6	6431	broad.mit.edu	37	chr20	42089677	42089677	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcgctcaaagtcaagatcaAggtccaggtcgagttccaga	12	8	10	11	2	3	2	3	0	0	2	7	3	5	2	2	2	0	2	2	2	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:42089677A>G	uc010zwg.1	+	6	1179	c.1009A>G	c.(1009-1011)AGG>GGG	p.R337G	SFRS6_uc002xki.2_Missense_Mutation_p.R208G|SFRS6_uc002xkk.2_Intron	NM_006275	NP_006266	Q13247	SRSF6_HUMAN	arginine/serine-rich splicing factor 6	337	Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			GTCAAGATCAAGGTCCAGGTC	0.458													15	123					0	0	0.004007	0	0		G	42089677	G	G	42089677	3	3	1	1	0	0	0	0	1	0	0	0	14206	63	3	3	1031	3	SFRS6	20	42089677	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2294758	42089677	20935843	1282	1282											
UBE2C	11065	broad.mit.edu	37	chr20	44444242	44444242	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggctacccttacaatgcGcccacagtgaagttcctcac	10	9	8	14	1	1	1	1	1	0	0	2	1	2	1	3	1	3	2	3	1	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:44444242G>A	uc002xpm.2	+	4	359	c.279G>A	c.(277-279)GCG>GCA	p.A93A	UBE2C_uc002xpl.2_Intron|UBE2C_uc002xpn.2_Silent_p.A54A|UBE2C_uc002xpo.2_Silent_p.A64A|UBE2C_uc002xpp.2_Intron|UBE2C_uc002xpq.2_Silent_p.A54A	NM_007019	NP_008950	O00762	UBE2C_HUMAN	ubiquitin-conjugating enzyme E2C isoform 1	93					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cyclin catabolic process|exit from mitosis|free ubiquitin chain polymerization|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|positive regulation of exit from mitosis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|protein K48-linked ubiquitination|spindle organization	anaphase-promoting complex|cytosol|nucleoplasm	ATP binding|protein binding|ubiquitin-protein ligase activity				0		Myeloproliferative disorder(115;0.0122)				CTTACAATGCGCCCACAGTGA	0.522													41	135					0	0	0.00874	0	0		A	44444242	A	A	44444242	2	1	1	1	0	0	0	0	0	0	0	1	16872	1074	38	1		1	UBE2C	20	44444242	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2354565	44444242	18581278	1283	1283											
ZSWIM3	140831	broad.mit.edu	37	chr20	44505382	44505382	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaatttgtctgcattcGgacccaatcaaacaggaaga	14	9	10	8	1	2	2	1	1	1	1	3	4	2	4	1	3	2	1	1	3	4	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:44505382G>A	uc002xqd.2	+	2	388	c.185G>A	c.(184-186)CGG>CAG	p.R62Q	ZSWIM3_uc010zxg.1_Missense_Mutation_p.R56Q	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	62							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				GTCTGCATTCGGACCCAATCA	0.478													14	95					0	0	0.00245	0	0		A	44505382	A	A	44505382	3	1	1	1	0	0	0	0	1	0	0	0	18267	1116	39	1	191	1	ZSWIM3	20	44505382	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	61140	44505382	18520138	1284	1284											
MMP9	4318	broad.mit.edu	37	chr20	44639177	44639177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattgacgacgcctttgccCgcgccttcgcactgtggagc	5	10	12	14	5	0	2	0	2	0	0	1	4	0	3	3	1	2	1	3	1	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:44639177C>T	uc002xqz.2	+	3	446	c.427C>T	c.(427-429)CGC>TGC	p.R143C		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	143					collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	CGCCTTTGCCCGCGCCTTCGC	0.602													7	36					0	0	0.00308	0	0		T	44639177	T	T	44639177	3	4	1	1	0	0	0	0	1	0	0	0	9687	652	23	1	437	1	MMP9	20	44639177	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	133795	44639177	18386343	1285	1285											
ZNFX1	57169	broad.mit.edu	37	chr20	47872372	47872372	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccagcgagaactgaggTccagctgccaaacatcctcg	10	6	11	14	2	0	2	0	1	0	1	3	3	2	2	4	1	6	2	4	1	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:47872372T>C	uc002xui.2	-	9	3024	c.2777A>G	c.(2776-2778)GAC>GGC	p.D926G		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	926	Potential.						metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			AGAACTGAGGTCCAGCTGCCA	0.478													5	69					0	0	0.000602	0	0		C	47872372	C	C	47872372	3	2	1	1	0	0	0	0	1	0	0	0	18230	1667	58	3	3003	3	ZNFX1	20	47872372	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3233195	47872372	15153148	1286	1286											
KCNB1	3745	broad.mit.edu	37	chr20	48098562	48098562	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccgctcccgtagggtctcGgcctcacgcttgagctcctc	3	10	10	18	4	2	1	1	1	1	0	7	1	5	1	4	2	1	4	4	2	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:48098562G>A	uc002xur.1	-	1	620	c.456C>T	c.(454-456)GCC>GCT	p.A152A	KCNB1_uc002xus.1_Silent_p.A152A	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	152	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GTAGGGTCTCGGCCTCACGCT	0.577													47	109					0	0	0.00361	0	0		A	48098562	A	A	48098562	2	1	1	1	0	0	0	0	0	0	0	1	8028	1103	39	1		1	KCNB1	20	48098562	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	226190	48098562	14926958	1287	1287											
FAM65C	140876	broad.mit.edu	37	chr20	49225219	49225219	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcccaggtctggctgtcAtctgactcgatccgaccctt	5	12	9	15	3	3	1	1	1	2	0	7	3	5	1	3	2	0	1	3	2	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:49225219A>G	uc002xvm.2	-	10	1047	c.729T>C	c.(727-729)GAT>GAC	p.D243D	FAM65C_uc010zyt.1_Silent_p.D247D|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Silent_p.D243D	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	243										ovary(2)	2						TCTGGCTGTCATCTGACTCGA	0.657													17	121					0	0	0.012319	0	0		G	49225219	G	G	49225219	2	3	1	1	0	0	0	0	0	0	0	1	5615	214	8	3		3	FAM65C	20	49225219	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1126657	49225219	13800301	1288	1288											
AURKA	6790	broad.mit.edu	37	chr20	54961381	54961381	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctggagacaggatgaggtAcactggttgcctgcaattgc	9	9	14	9	0	0	2	0	1	0	1	0	4	0	3	2	4	4	3	2	4	2	3	rs45533839		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:54961381A>T	uc002xxd.1	-	5	817	c.251T>A	c.(250-252)GTA>GAA	p.V84E	AURKA_uc002xxe.1_Missense_Mutation_p.V84E|AURKA_uc002xxf.1_Missense_Mutation_p.V84E|AURKA_uc002xxg.1_Missense_Mutation_p.V84E|AURKA_uc002xxh.1_Missense_Mutation_p.V84E|AURKA_uc002xxi.1_Missense_Mutation_p.V84E|AURKA_uc002xxj.1_Missense_Mutation_p.V84E|AURKA_uc002xxk.1_Missense_Mutation_p.V84E|AURKA_uc010zzd.1_Intron	NM_198433	NP_940835	O14965	AURKA_HUMAN	serine/threonine protein kinase 6	84					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|phosphatidylinositol-mediated signaling|regulation of protein stability|spindle organization	cytosol|nucleus|perinuclear region of cytoplasm|spindle microtubule|spindle pole centrosome	ATP binding|protein kinase binding|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(1)|large_intestine(1)|skin(1)	8			Colorectal(105;0.202)			AGGATGAGGTACACTGGTTGC	0.493													26	192					0	0	0.003954	0	0		T	54961381	T	T	54961381	3	4	1	1	0	0	0	0	1	0	0	0	1222	391	14	5	988	5	AURKA	20	54961381	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	5736162	54961381	8064139	1289	1289											
CSTF1	1477	broad.mit.edu	37	chr20	54978709	54978709	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcatagtgcactcccccAccaaccccgggttcatgacg	8	7	9	17	2	1	1	1	1	0	0	2	1	2	1	5	1	3	4	5	1	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:54978709A>G	uc002xxl.1	+	6	1422	c.1222A>G	c.(1222-1224)ACC>GCC	p.T408A	CSTF1_uc002xxm.1_Missense_Mutation_p.T408A|CSTF1_uc002xxn.1_Missense_Mutation_p.T408A|CSTF1_uc002xxo.1_Missense_Mutation_p.T351A	NM_001033521	NP_001028693	Q05048	CSTF1_HUMAN	cleavage stimulation factor subunit 1	408	WD 6.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding			central_nervous_system(1)	1			Colorectal(105;0.202)			GCACTCCCCCACCAACCCCGG	0.572													11	115					0	0	0.008291	0	0		G	54978709	G	G	54978709	3	3	1	1	0	0	0	0	1	0	0	0	3986	159	6	3	1240	3	CSTF1	20	54978709	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	17328	54978709	8046811	1290	1290											
CTCFL	140690	broad.mit.edu	37	chr20	56089762	56089762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcccgctctgggtgaagcGggtgtggcagatgtggcatt	5	10	18	8	2	1	2	0	1	1	1	2	2	2	2	1	5	1	3	1	5	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:56089762G>A	uc010gix.1	-	6	1878	c.1216C>T	c.(1216-1218)CGC>TGC	p.R406C	CTCFL_uc010giw.1_Missense_Mutation_p.R406C|CTCFL_uc002xym.2_Missense_Mutation_p.R406C|CTCFL_uc010giz.1_5'UTR|CTCFL_uc010giy.1_Missense_Mutation_p.R76C|CTCFL_uc010gja.1_Intron|CTCFL_uc010gjb.1_Missense_Mutation_p.R406C|CTCFL_uc010gjc.1_Missense_Mutation_p.R406C|CTCFL_uc010gjd.1_Missense_Mutation_p.R406C|CTCFL_uc010gje.2_Missense_Mutation_p.R406C|CTCFL_uc010gjf.2_Missense_Mutation_p.R201C|CTCFL_uc010gjg.2_Missense_Mutation_p.R138C|CTCFL_uc010gjh.1_Intron|CTCFL_uc010gji.1_Missense_Mutation_p.R201C|CTCFL_uc010gjj.1_Missense_Mutation_p.R406C	NM_080618	NP_542185	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor-like protein	406	C2H2-type 6.				cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			TGGGTGAAGCGGGTGTGGCAG	0.527											OREG0026065	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	144					0	0	0.00333	0	0		A	56089762	A	A	56089762	3	1	1	1	0	0	0	0	1	0	0	0	4004	1116	39	1	795	1	CTCFL	20	56089762	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1111053	56089762	6935758	1291	1291											
NPEPL1	79716	broad.mit.edu	37	chr20	57290352	57290352	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtcgaggagggggacctgggGagggactccaagagacgcag	10	3	20	8	2	0	1	0	0	0	1	2	7	1	5	2	6	0	1	2	6	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:57290352G>A	uc010zzs.1	+	12	1637	c.1542G>A	c.(1540-1542)GGG>GGA	p.G514G	NPEPL1_uc010zzr.1_Silent_p.G466G|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Silent_p.G486G|NPEPL1_uc002xzp.2_3'UTR	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	514					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			GGGACCTGGGGAGGGACTCCA	0.592													6	18					0	0	0.00308	0	0		A	57290352	A	A	57290352	2	1	1	1	0	0	0	0	0	0	0	1	10593	1161	41	4		4	NPEPL1	20	57290352	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1200590	57290352	5735168	1292	1292											
TUBB1	81027	broad.mit.edu	37	chr20	57599037	57599037	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggagccctacaacgcGgttctgtctatccaccagct	7	10	11	13	2	2	0	0	0	2	0	3	1	3	1	3	3	4	2	3	3	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:57599037G>A	uc002yak.2	+	4	824	c.555G>A	c.(553-555)GCG>GCA	p.A185A		NM_030773	NP_110400	Q9H4B7	TBB1_HUMAN	beta tubulin 1, class VI	185					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity			ovary(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)		Colchicine(DB01394)|Docetaxel(DB01248)|Paclitaxel(DB01229)|Vindesine(DB00309)	CCTACAACGCGGTTCTGTCTA	0.517													14	164					0	0	0.00499	0	0		A	57599037	A	A	57599037	2	1	1	1	0	0	0	0	0	0	0	1	16779	1103	39	1		1	TUBB1	20	57599037	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	308685	57599037	5426483	1293	1293											
OSBPL2	9885	broad.mit.edu	37	chr20	60861750	60861750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctggaggatcaacacccggCcccccaactctgcccaggtc	8	6	9	18	1	3	0	1	0	2	0	4	2	3	2	5	4	3	0	5	4	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:60861750C>T	uc002yck.1	+	11	1310	c.1108C>T	c.(1108-1110)CCC>TCC	p.P370S	OSBPL2_uc002ycl.1_Missense_Mutation_p.P358S|OSBPL2_uc011aah.1_Missense_Mutation_p.P278S	NM_144498	NP_653081	Q9H1P3	OSBL2_HUMAN	oxysterol-binding protein-like protein 2 isoform	370					lipid transport		lipid binding			ovary(1)|central_nervous_system(1)	2	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;1.33e-06)			CAACACCCGGCCCCCCAACTC	0.657													4	90					0	0	0.009096	0	0		T	60861750	T	T	60861750	3	4	1	1	0	0	0	0	1	0	0	0	11297	739	26	2	1146	2	OSBPL2	20	60861750	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3262713	60861750	2163770	1294	1294											
LAMA5	3911	broad.mit.edu	37	chr20	60887002	60887002	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcattgctgtagaaggcgacGtaatggggggcaccatcggc	9	7	16	9	3	0	1	0	0	0	1	1	2	0	1	1	5	1	5	1	5	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:60887002G>A	uc002ycq.2	-	70	9676	c.9609C>T	c.(9607-9609)TAC>TAT	p.Y3203Y		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3203	Laminin G-like 3.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGAAGGCGACGTAATGGGGGG	0.637													12	91					0	0	0.00245	0	0		A	60887002	A	A	60887002	2	1	1	1	0	0	0	0	0	0	0	1	8625	1140	40	1		1	LAMA5	20	60887002	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	25252	60887002	2138518	1295	1295											
SLCO4A1	28231	broad.mit.edu	37	chr20	61297923	61297923	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcacagccagctacggcGggaggtgagggccagatggc	8	4	18	11	3	1	2	1	1	0	1	1	3	1	3	2	5	3	1	2	5	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:61297923G>A	uc002ydb.1	+	7	1673	c.1468G>A	c.(1468-1470)GGG>AGG	p.G490R	SLCO4A1_uc002ydc.1_RNA|LOC100127888_uc002ydd.2_RNA|SLCO4A1_uc002yde.1_5'Flank	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	490	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)			CAGCTACGGCGGGAGGTGAGG	0.672													17	112					0	0	0.004007	0	0		A	61297923	A	A	61297923	3	1	1	1	0	0	0	0	1	0	0	0	14754	1116	39	1	1490	1	SLCO4A1	20	61297923	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	410921	61297923	1727597	1296	1296											
DIDO1	11083	broad.mit.edu	37	chr20	61512124	61512124	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcggtgccctcgccgggTctggcctgtggctctctgtc	0	10	17	14	3	2	0	0	0	2	0	5	0	2	0	3	6	1	1	3	6	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:61512124T>C	uc002ydr.1	-	16	5448	c.5184A>G	c.(5182-5184)AGA>AGG	p.R1728R	DIDO1_uc002yds.1_Silent_p.R1728R	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1728	Pro-rich.				apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CCTCGCCGGGTCTGGCCTGTG	0.637													16	107					0	0	0.010504	0	0		C	61512124	C	C	61512124	2	2	1	1	0	0	0	0	0	0	0	1	4528	1664	58	3		3	DIDO1	20	61512124	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	214201	61512124	1513396	1297	1297											
DIDO1	11083	broad.mit.edu	37	chr20	61513523	61513523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggaagagggggcggaggcGgcggcgacccaggaggtgtg	7	3	23	8	4	0	1	0	0	0	1	0	5	0	4	1	9	0	0	1	9	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:61513523G>A	uc002ydr.1	-	16	4049	c.3785C>T	c.(3784-3786)CCG>CTG	p.P1262L	DIDO1_uc002yds.1_Missense_Mutation_p.P1262L	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1262	Pro-rich.				apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GGGCGGAGGCGGCGGCGACCC	0.627													7	126					0	0	0.00308	0	0		A	61513523	A	A	61513523	3	1	1	1	0	0	0	0	1	0	0	0	4528	1116	39	1	2941	1	DIDO1	20	61513523	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1399	61513523	1511997	1298	1298											
ZBTB46	140685	broad.mit.edu	37	chr20	62421220	62421220	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgacgtcggcaggaaggaCggcaccggggagctggcccg	7	2	18	14	6	0	0	0	0	0	0	1	4	0	3	3	7	1	3	3	7	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr20:62421220C>T	uc002ygv.1	-	2	1092	c.891G>A	c.(889-891)CCG>CCA	p.P297P	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	297					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					GCAGGAAGGACGGCACCGGGG	0.632													9	93					0	0	0.010729	0	0		T	62421220	T	T	62421220	2	4	1	1	0	0	0	0	0	0	0	1	17572	523	19	1		1	ZBTB46	20	62421220	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	907697	62421220	604300	1299	1299											
NRIP1	8204	broad.mit.edu	37	chr21	16339996	16339996	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccatagcaccttaaatccTtctccacttttaaagaatca	14	12	2	13	0	2	1	1	0	1	1	4	1	3	1	4	0	1	1	4	0	6	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:16339996T>G	uc002yjx.2	-	4	1116	c.518A>C	c.(517-519)AAG>ACG	p.K173T		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	173	Repression domain 1.				androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		CCTTAAATCCTTCTCCACTTT	0.408													10	125					0	0	0.006214	0	0		G	16339996	G	G	16339996	3	3	1	1	0	0	0	0	1	0	0	0	10671	1609	56	5	2962	5	NRIP1	21	16339996	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08		16339996	31789899	1300	1300											
USP25	29761	broad.mit.edu	37	chr21	17202863	17202863	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccttagatttgcaggaaagCatatccagaatccatcgaac	14	10	7	10	1	0	2	0	0	0	2	4	4	3	3	3	1	3	2	3	1	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:17202863C>T	uc002yjy.1	+	15	1924	c.1707C>T	c.(1705-1707)AGC>AGT	p.S569S	USP25_uc011aby.1_Silent_p.S569S|USP25_uc002yjz.1_Silent_p.S569S|USP25_uc010gla.1_Intron	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	569	Potential.				protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		TGCAGGAAAGCATATCCAGAA	0.289													7	121					0	0	0.004482	0	0		T	17202863	T	T	17202863	2	4	1	1	0	0	0	0	0	0	0	1	17082	709	25	2		2	USP25	21	17202863	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	862867	17202863	30927032	1301	1301											
TMPRSS15	5651	broad.mit.edu	37	chr21	19647634	19647634	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggaacatcagcttcttgCaatatgtttgcagtagtacc	12	12	9	8	0	2	1	1	0	1	1	2	2	2	2	1	1	5	6	1	1	5	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:19647634C>T	uc002ykw.2	-	24	2815	c.2784G>A	c.(2782-2784)TTG>TTA	p.L928L		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	928	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						CAGCTTCTTGCAATATGTTTG	0.398													12	134					0	0	0.010729	0	0		T	19647634	T	T	19647634	2	4	1	1	0	0	0	0	0	0	0	1	16271	709	25	2		2	TMPRSS15	21	19647634	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2444771	19647634	28482261	1302	1302											
KRTAP19-7	337974	broad.mit.edu	37	chr21	31933569	31933569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccgaatcctccacagcCgtagcctaggcctccatagt	9	7	8	17	2	0	0	0	0	0	0	3	1	3	0	8	1	2	1	8	1	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:31933569C>T	uc011adb.1	-	1	40	c.40G>A	c.(40-42)GGC>AGC	p.G14S		NM_181614	NP_853645	Q3SYF9	KR197_HUMAN	keratin associated protein 19-7	14						intermediate filament					0						CCTCCACAGCCGTAGCCTAGG	0.542													8	49					0	0	0.004482	0	0		T	31933569	T	T	31933569	3	4	1	1	0	0	0	0	1	0	0	0	8550	652	23	1	154	1	KRTAP19-7	21	31933569	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	12285935	31933569	16196326	1303	1303											
TIAM1	7074	broad.mit.edu	37	chr21	32638798	32638798	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagcgtttcttcttaaagCtcgccgtctccatgaaagtg	8	13	10	10	3	3	1	0	1	3	0	5	2	3	2	2	1	2	2	2	1	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:32638798C>A	uc002yow.1	-	5	963	c.491G>T	c.(490-492)AGC>ATC	p.S164I	TIAM1_uc011adk.1_Missense_Mutation_p.S164I|TIAM1_uc011adl.1_Missense_Mutation_p.S164I|TIAM1_uc002yox.1_Intron	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	164					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CTTCTTAAAGCTCGCCGTCTC	0.507													20	116					2.39187e-15	2.72285e-15	0.008871	1	0		A	32638798	A	A	32638798	3	1	1	1	0	0	0	0	1	0	0	0	15915	797	28	5	4384	5	TIAM1	21	32638798	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	705229	32638798	15491097	1304	1304											
DNAJC28	54943	broad.mit.edu	37	chr21	34860883	34860883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcctagacactaaaattGcctctctgagttgctcaata	11	15	5	10	0	2	2	1	1	1	1	4	2	3	2	2	0	2	2	2	0	5	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:34860883G>A	uc002yrv.2	-	2	1267	c.818C>T	c.(817-819)GCA>GTA	p.A273V	DNAJC28_uc002yrw.2_Missense_Mutation_p.A273V	NM_017833	NP_060303	Q9NX36	DJC28_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 28	273	Potential.						heat shock protein binding				0						CACTAAAATTGCCTCTCTGAG	0.383													42	398					0	0	0.00874	0	0		A	34860883	A	A	34860883	3	1	1	1	0	0	0	0	1	0	0	0	4652	1319	46	2	352	2	DNAJC28	21	34860883	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2222085	34860883	13269012	1305	1305											
SON	6651	broad.mit.edu	37	chr21	34927501	34927501	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccgccggagccgcaccccTagccgtcggagccgcacccc	6	2	12	21	6	0	0	0	0	0	0	1	2	0	2	9	2	4	2	9	2	1	1	rs139304331		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:34927501T>C	uc002yse.1	+	3	6013	c.5964T>C	c.(5962-5964)CCT>CCC	p.P1988P	SON_uc002ysb.1_Silent_p.P1988P|SON_uc002ysc.2_Silent_p.P1988P|SON_uc002ysd.2_Silent_p.P979P|SON_uc002ysf.1_Intron|SON_uc002ysg.2_Silent_p.P979P	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	1988	2-7.|2 X 19 AA repeats of P-S-R-R-R-R-S-R-S-V- V-R-R-R-S-F-S-I-S.|7 X 7 AA repeats of P-S-R-R-S-R-[TS].				anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						gccgcacccctagccgtcgga	0.154													5	43					0	0	0.000602	0	0		C	34927501	C	C	34927501	2	2	1	1	0	0	0	0	0	0	0	1	14951	1509	53	3		3	SON	21	34927501	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	66618	34927501	13202394	1306	1306											
DOPEY2	9980	broad.mit.edu	37	chr21	37664458	37664458	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccctgccttcctgtcggAtgtagaggagaatcaccaag	9	8	13	11	1	1	2	1	0	0	2	3	4	2	3	4	3	1	1	4	3	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:37664458A>G	uc002yvg.2	+	36	6651	c.6572A>G	c.(6571-6573)GAT>GGT	p.D2191G	DOPEY2_uc011aeb.1_Missense_Mutation_p.D2140G	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	2191					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						TTCCTGTCGGATGTAGAGGAG	0.433													5	149					0	0	0.001168	0	0		G	37664458	G	G	37664458	3	3	1	1	0	0	0	0	1	0	0	0	4714	333	12	3	6710	3	DOPEY2	21	37664458	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2736957	37664458	10465437	1307	1307											
KCNJ6	3763	broad.mit.edu	37	chr21	39086527	39086527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttacctgtggcttccacCattccttctaggatgaccac	8	13	6	14	0	2	1	0	1	2	0	4	2	4	2	5	2	1	1	5	2	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:39086527C>T	uc011aej.1	-	3	986	c.933G>A	c.(931-933)ATG>ATA	p.M311I	KCNJ6_uc002ywo.2_Missense_Mutation_p.M311I	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	311	Cytoplasmic (By similarity).				synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	TGGCTTCCACCATTCCTTCTA	0.438													25	170					0	0	0.008361	0	0		T	39086527	T	T	39086527	3	4	1	1	0	0	0	0	1	0	0	0	8071	594	21	4	346	4	KCNJ6	21	39086527	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1422069	39086527	9043368	1308	1308											
BRWD1	54014	broad.mit.edu	37	chr21	40568902	40568902	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attttgtgaatattggtatgCctgtgcttgtgttctgaatt	7	20	10	4	0	1	2	0	2	1	0	1	2	1	2	1	1	2	3	1	1	4	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:40568902C>T	uc002yxk.1	-	41	6232	c.6093G>A	c.(6091-6093)AGG>AGA	p.R2031R	BRWD1_uc010goc.1_Silent_p.R674R|BRWD1_uc002yxl.2_Silent_p.R2031R	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	2031					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				TATTGGTATGCCTGTGCTTGT	0.398													17	360					0	0	0.004007	0	0		T	40568902	T	T	40568902	2	4	1	1	0	0	0	0	0	0	0	1	1528	738	26	2		2	BRWD1	21	40568902	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1482375	40568902	7560993	1309	1309											
BRWD1	54014	broad.mit.edu	37	chr21	40668215	40668215	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggtggggaaccataatTcactggcatttcaggaggtc	10	12	12	7	0	2	0	2	0	0	0	3	2	2	2	1	6	1	1	1	6	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:40668215T>A	uc002yxk.1	-	6	563	c.424A>T	c.(424-426)AAT>TAT	p.N142Y	BRWD1_uc002yxl.2_Missense_Mutation_p.N142Y	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				GAACCATAATTCACTGGCATT	0.383													11	241					0	0	0.010729	0	0		A	40668215	A	A	40668215	3	1	1	1	0	0	0	0	1	0	0	0	1528	1783	62	5	6925	5	BRWD1	21	40668215	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	99313	40668215	7461680	1310	1310											
DSCAM	1826	broad.mit.edu	37	chr21	42080640	42080640	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtggtgctggcaaacactAcctcttgcagagatgcattg	9	10	11	11	1	1	1	0	0	1	1	1	2	1	1	2	2	5	4	2	2	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:42080640A>G	uc002yyq.1	-	2	553	c.101T>C	c.(100-102)GTA>GCA	p.V34A	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	34	Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				GGCAAACACTACCTCTTGCAG	0.537													18	159					0	0	0.006122	0	0		G	42080640	G	G	42080640	3	3	1	1	0	0	0	0	1	0	0	0	4774	391	14	3	6065	3	DSCAM	21	42080640	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1412425	42080640	6049255	1311	1311											
ZNF295	49854	broad.mit.edu	37	chr21	43413728	43413728	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgactaacagtttttccTtgcgcttcgtttctactttg	5	21	6	9	2	1	1	0	1	1	0	3	1	2	1	1	0	3	3	1	0	2	10			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:43413728T>G	uc002zab.3	-	3	691	c.477A>C	c.(475-477)CAA>CAC	p.Q159H	ZNF295_uc002yzz.3_Missense_Mutation_p.Q159H|ZNF295_uc002yzy.3_Missense_Mutation_p.Q159H|ZNF295_uc002zaa.3_Missense_Mutation_p.Q159H|ZNF295_uc010gov.1_Missense_Mutation_p.Q159H|ZNF295_uc002zac.2_Missense_Mutation_p.Q159H	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	159					negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CAGTTTTTCCTTGCGCTTCGT	0.408													33	242					0	0	0.012213	0	0		G	43413728	G	G	43413728	3	3	1	1	0	0	0	0	1	0	0	0	17852	1606	56	5	2727	5	ZNF295	21	43413728	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1333088	43413728	4716167	1312	1312											
WDR4	10785	broad.mit.edu	37	chr21	44283598	44283598	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctagacggccacacccGtgtggctccagcaccgaaaa	11	5	10	15	3	1	1	0	0	1	1	2	2	2	1	4	2	2	3	4	2	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:44283598G>A	uc002zci.2	-	4	478	c.405C>T	c.(403-405)CAC>CAT	p.H135H	WDR4_uc002zck.1_Silent_p.H135H|WDR4_uc002zcl.1_Translation_Start_Site|WDR4_uc010gpg.1_Silent_p.H135H|WDR4_uc011aew.1_Translation_Start_Site|WDR4_uc010gph.1_Translation_Start_Site	NM_033661	NP_387510	P57081	WDR4_HUMAN	WD repeat domain 4 protein	135					tRNA modification	cytoplasm|nucleoplasm	protein binding			ovary(1)	1				Colorectal(79;0.0165)|Lung(125;0.0484)|STAD - Stomach adenocarcinoma(101;0.0624)|COAD - Colon adenocarcinoma(84;0.128)|LUSC - Lung squamous cell carcinoma(216;0.244)		GGCCACACCCGTGTGGCTCCA	0.592													10	63					0	0	0.001368	0	0		A	44283598	A	A	44283598	2	1	1	1	0	0	0	0	0	0	0	1	17319	1136	40	1		1	WDR4	21	44283598	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	869870	44283598	3846297	1313	1313											
TRPM2	7226	broad.mit.edu	37	chr21	45825124	45825124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcgcaatcttgctcttcGtggcagggctgacctgcagg	5	10	14	12	3	2	1	0	1	2	0	4	1	2	1	1	4	2	5	1	4	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:45825124G>A	uc002zet.1	+	18	2851	c.2638G>A	c.(2638-2640)GTG>ATG	p.V880M	TRPM2_uc002zeu.1_Missense_Mutation_p.V880M|TRPM2_uc002zew.1_Missense_Mutation_p.V880M|TRPM2_uc010gpt.1_Missense_Mutation_p.V880M|TRPM2_uc002zex.1_Missense_Mutation_p.V666M|TRPM2_uc002zey.1_Missense_Mutation_p.V393M	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	880	Helical; (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CTTGCTCTTCGTGGCAGGGCT	0.622													13	61					0	0	0.003163	0	0		A	45825124	A	A	45825124	3	1	1	1	0	0	0	0	1	0	0	0	16612	1145	40	1	2704	1	TRPM2	21	45825124	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1541526	45825124	2304771	1314	1314											
UBE2G2	7327	broad.mit.edu	37	chr21	46193537	46193537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaccgctccgcgctgctctCgtagcccatggggtcatcgc	4	8	11	18	5	2	0	1	0	1	0	5	0	3	0	4	2	2	4	4	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:46193537C>T	uc002zfy.2	-	5	385	c.310G>A	c.(310-312)GAG>AAG	p.E104K	UBE2G2_uc002zfx.2_Missense_Mutation_p.E76K	NM_003343	NP_003334	P60604	UB2G2_HUMAN	ubiquitin-conjugating enzyme E2G 2 isoform 1	104				MGYESSA -> HGLREQP (in Ref. 1; AAC32312).	protein K48-linked ubiquitination	cytosol	ATP binding|protein binding|ubiquitin-protein ligase activity			breast(3)|central_nervous_system(1)	4				Colorectal(79;0.0638)		GCGCTGCTCTCGTAGCCCATG	0.627													6	55					0	0	0.001168	0	0		T	46193537	T	T	46193537	3	4	1	1	0	0	0	0	1	0	0	0	16883	893	31	1	195	1	UBE2G2	21	46193537	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	368413	46193537	1936358	1315	1315											
POFUT2	23275	broad.mit.edu	37	chr21	46689830	46689830	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggctgcggatcttcctcacGgccccttccagactgggtac	6	9	11	15	2	2	1	1	0	1	1	4	2	4	2	4	4	2	2	4	4	1	3	rs149698576	byFrequency	TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:46689830G>A	uc002zhc.2	-	7	961	c.936C>T	c.(934-936)GCC>GCT	p.A312A	POFUT2_uc002zha.2_RNA|POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Silent_p.A312A	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	312					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)		TCTTCCTCACGGCCCCTTCCA	0.572													5	92					0	0	0.004482	0	0		A	46689830	A	A	46689830	2	1	1	1	0	0	0	0	0	0	0	1	12203	1103	39	1		1	POFUT2	21	46689830	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	496293	46689830	1440065	1316	1316											
COL6A1	1291	broad.mit.edu	37	chr21	47423458	47423458	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgcccacgacgtgcgggTggcggtggtgcagtacagcg	5	5	17	14	6	0	0	0	0	0	0	0	1	0	0	3	4	4	2	3	4	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:47423458T>C	uc002zhu.1	+	35	2720	c.2618T>C	c.(2617-2619)GTG>GCG	p.V873A	COL6A1_uc010gqd.1_Missense_Mutation_p.V204A|COL6A1_uc002zhv.1_Missense_Mutation_p.V204A|COL6A1_uc002zhw.1_5'UTR	NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	873	C-terminal globular domain.|VWFA 3.				axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	GACGTGCGGGTGGCGGTGGTG	0.701													6	25					0	0	0.001984	0	0		C	47423458	C	C	47423458	3	2	1	1	0	0	0	0	1	0	0	0	3702	1696	59	3	2756	3	COL6A1	21	47423458	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	733628	47423458	706437	1317	1317											
COL6A2	1292	broad.mit.edu	37	chr21	47544809	47544809	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttccccagggtgagcccgGcccccctggagaccccggtc	4	5	12	20	2	0	2	0	1	0	1	2	3	1	2	9	4	1	0	9	4	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:47544809G>C	uc002zia.1	+	23	1827	c.1745G>C	c.(1744-1746)GGC>GCC	p.G582A	COL6A2_uc002zhy.1_Missense_Mutation_p.G582A|COL6A2_uc002zhz.1_Missense_Mutation_p.G582A|COL6A2_uc002zib.1_5'UTR|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	582	Triple-helical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GGTGAGCCCGGCCCCCCTGGA	0.637													6	85					0	0	0.001168	0	0		C	47544809	C	C	47544809	3	2	1	1	0	0	0	0	1	0	0	0	3703	1203	42	5	1831	5	COL6A2	21	47544809	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	121351	47544809	585086	1318	1318											
LSS	4047	broad.mit.edu	37	chr21	47616150	47616150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcggccctctgctgccgccGacagaactctaagccctgcg	7	7	10	17	4	2	1	0	0	2	1	3	2	2	1	4	1	5	1	4	1	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr21:47616150G>A	uc002zij.2	-	18	1781	c.1702C>T	c.(1702-1704)CGG>TGG	p.R568W	LSS_uc011afv.1_Missense_Mutation_p.R557W|LSS_uc002zil.2_Missense_Mutation_p.R568W|LSS_uc002zik.2_Missense_Mutation_p.R488W	NM_001001438	NP_001001438	P48449	ERG7_HUMAN	lanosterol synthase isoform 1	568	PFTB 3.				cholesterol biosynthetic process	endoplasmic reticulum membrane	lanosterol synthase activity				0	Breast(49;0.214)					TGCTGCCGCCGACAGAACTCT	0.552													7	36					0	0	0.001984	0	0		A	47616150	A	A	47616150	3	1	1	1	0	0	0	0	1	0	0	0	9083	1057	37	1	516	1	LSS	21	47616150	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	71341	47616150	513745	1319	1319											
CABIN1	23523	broad.mit.edu	37	chr22	24462992	24462992	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtccctggaggagattcagCggctgtatgaagcaggcgac	10	7	15	9	2	1	2	1	1	0	1	2	5	2	3	1	4	2	3	1	4	2	2	rs145607829		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:24462992C>G	uc002zzi.1	+	16	2219	c.2092C>G	c.(2092-2094)CGG>GGG	p.R698G	CABIN1_uc002zzj.1_Missense_Mutation_p.R648G|CABIN1_uc002zzl.1_Missense_Mutation_p.R698G	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	698					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GGAGATTCAGCGGCTGTATGA	0.557													13	53					0	0	0.003163	0	0		G	24462992	G	G	24462992	3	3	1	1	0	0	0	0	1	0	0	0	2531	759	27	5	2150	5	CABIN1	22	24462992	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08		24462992	26841574	1320	1320											
GGT1	2678	broad.mit.edu	37	chr22	25023429	25023429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatgacctccgagttcttcGctgcccagctccgggcccag	6	8	10	17	3	1	1	0	1	1	0	4	2	3	1	5	1	2	3	5	1	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:25023429G>A	uc003aan.1	+	12	1538	c.1051G>A	c.(1051-1053)GCT>ACT	p.A351T	GGT1_uc003aas.1_Missense_Mutation_p.A351T|GGT1_uc003aat.1_Missense_Mutation_p.A351T|GGT1_uc003aau.1_Missense_Mutation_p.A351T|GGT1_uc003aav.1_Missense_Mutation_p.A351T|GGT1_uc003aaw.1_Missense_Mutation_p.A351T|GGT1_uc003aax.1_Missense_Mutation_p.A351T|GGT1_uc003aay.1_Missense_Mutation_p.A7T	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor	351	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	CGAGTTCTTCGCTGCCCAGCT	0.647													6	33					0	0	0.001984	0	0		A	25023429	A	A	25023429	3	1	1	1	0	0	0	0	1	0	0	0	6376	1087	38	1	1081	1	GGT1	22	25023429	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	560437	25023429	26281137	1321	1321											
SEZ6L	23544	broad.mit.edu	37	chr22	26702070	26702070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccagagggccagaagctgCacctgcactttgagaggctg	9	7	13	12	0	0	3	0	1	0	3	1	4	1	3	3	2	3	4	3	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:26702070C>T	uc003acb.2	+	6	1630	c.1474C>T	c.(1474-1476)CAC>TAC	p.H492Y	SEZ6L_uc003acc.2_Missense_Mutation_p.H492Y|SEZ6L_uc011akc.1_Missense_Mutation_p.H492Y|SEZ6L_uc003acd.2_Missense_Mutation_p.H492Y|SEZ6L_uc011akd.1_Missense_Mutation_p.H492Y|SEZ6L_uc003ace.2_Missense_Mutation_p.H492Y|SEZ6L_uc003acf.1_Missense_Mutation_p.H265Y|SEZ6L_uc010gvc.1_Missense_Mutation_p.H265Y	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	492	CUB 2.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CCAGAAGCTGCACCTGCACTT	0.527													15	77					0	0	0.006122	0	0		T	26702070	T	T	26702070	3	4	1	1	0	0	0	0	1	0	0	0	14168	710	25	2	1496	2	SEZ6L	22	26702070	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1678641	26702070	24602496	1322	1322											
EWSR1	2130	broad.mit.edu	37	chr22	29683003	29683003	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagctatggacagcagagtAgctatggtcaacaaagcagc	14	6	12	9	0	1	1	1	0	0	1	1	2	1	2	0	2	6	6	0	2	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:29683003A>G	uc003aet.2	+	7	1001	c.673A>G	c.(673-675)AGC>GGC	p.S225G	EWSR1_uc003aes.3_Missense_Mutation_p.S225G|EWSR1_uc003aev.2_Missense_Mutation_p.S231G|EWSR1_uc003aew.2_Missense_Mutation_p.S169G|EWSR1_uc003aex.2_Missense_Mutation_p.S225G|EWSR1_uc003aey.2_Missense_Mutation_p.S20G|EWSR1_uc003aez.2_5'Flank	NM_005243	NP_005234	Q01844	EWS_HUMAN	Ewing sarcoma breakpoint region 1 isoform 2	225	25.|EAD (Gln/Pro/Thr-rich).|31 X approximate tandem repeats.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	calmodulin binding|nucleotide binding|RNA binding|zinc ion binding		EWSR1/FLI1(2266)|EWSR1/ATF1(323)|EWSR1/WT1(231)|EWSR1/ERG(162)|EWSR1/NR4A3(140)|EWSR1/DDIT3(43)|EWSR1/CREB1(42)|EWSR1/FEV(10)|EWSR1/POU5F1(10)|EWSR1/ETV1(7)|EWSR1/ETV4(6)|EWSR1/ZNF384(4)|EWSR1/PBX1(3)|EWSR1/SP3(3)|EWSR1/PATZ1(2)	bone(2526)|soft_tissue(702)|skin(8)|autonomic_ganglia(4)|haematopoietic_and_lymphoid_tissue(4)|salivary_gland(2)|central_nervous_system(2)|NS(2)|pancreas(2)|lung(1)|ovary(1)	3254						ACAGCAGAGTAGCTATGGTCA	0.502			T	FLI1|ERG|ZNF278|NR4A3|FEV|ATF1|ETV1|ETV4|WT1|ZNF384|CREB1|POU5F1| PBX1	Ewing sarcoma| desmoplastic small round cell tumor |ALL|clear cell sarcoma|sarcoma|myoepithelioma								4	80					0	0	0.009096	0	0		G	29683003	G	G	29683003	3	3	1	1	0	0	0	0	1	0	0	0	5304	420	15	3	721	3	EWSR1	22	29683003	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2980933	29683003	21621563	1323	1323											
EWSR1	2130	broad.mit.edu	37	chr22	29693885	29693885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcctccaatgaacagtatgCggggtggtctgccaccccgt	8	8	12	13	2	1	1	0	1	1	0	2	1	2	1	5	3	4	1	5	3	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:29693885C>T	uc003aet.2	+	13	1691	c.1363C>T	c.(1363-1365)CGG>TGG	p.R455W	EWSR1_uc003aev.2_Missense_Mutation_p.R460W|EWSR1_uc003aew.2_Missense_Mutation_p.R399W|EWSR1_uc003aex.2_Missense_Mutation_p.R454W|EWSR1_uc003aey.2_Missense_Mutation_p.R250W|EWSR1_uc003aez.2_Missense_Mutation_p.R116W	NM_005243	NP_005234	Q01844	EWS_HUMAN	Ewing sarcoma breakpoint region 1 isoform 2	455	Arg/Gly/Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	calmodulin binding|nucleotide binding|RNA binding|zinc ion binding		EWSR1/FLI1(2266)|EWSR1/ATF1(323)|EWSR1/WT1(231)|EWSR1/ERG(162)|EWSR1/NR4A3(140)|EWSR1/DDIT3(43)|EWSR1/CREB1(42)|EWSR1/FEV(10)|EWSR1/POU5F1(10)|EWSR1/ETV1(7)|EWSR1/ETV4(6)|EWSR1/ZNF384(4)|EWSR1/PBX1(3)|EWSR1/SP3(3)|EWSR1/PATZ1(2)	bone(2526)|soft_tissue(702)|skin(8)|autonomic_ganglia(4)|haematopoietic_and_lymphoid_tissue(4)|salivary_gland(2)|central_nervous_system(2)|NS(2)|pancreas(2)|lung(1)|ovary(1)	3254						GAACAGTATGCGGGGTGGTCT	0.488			T	FLI1|ERG|ZNF278|NR4A3|FEV|ATF1|ETV1|ETV4|WT1|ZNF384|CREB1|POU5F1| PBX1	Ewing sarcoma| desmoplastic small round cell tumor |ALL|clear cell sarcoma|sarcoma|myoepithelioma								16	148					0	0	0.004007	0	0		T	29693885	T	T	29693885	3	4	1	1	0	0	0	0	1	0	0	0	5304	759	27	1	1530	1	EWSR1	22	29693885	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	10882	29693885	21610681	1324	1324											
NF2	4771	broad.mit.edu	37	chr22	30051659	30051659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtacgcagagcaccgaggccGagccaggtgaggcccattca	10	4	14	13	3	1	2	1	1	0	1	1	4	1	2	4	3	3	3	4	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:30051659G>A	uc003age.3	+	6	1036	c.593G>A	c.(592-594)CGA>CAA	p.R198Q	NF2_uc003afy.3_Missense_Mutation_p.R198Q|NF2_uc003afz.3_Missense_Mutation_p.R115Q|NF2_uc003agf.3_Missense_Mutation_p.R198Q|NF2_uc003agb.3_Missense_Mutation_p.R121Q|NF2_uc003agc.3_Missense_Mutation_p.R160Q|NF2_uc003agd.3_Intron|NF2_uc003agg.3_Missense_Mutation_p.R198Q|NF2_uc003aga.3_Missense_Mutation_p.R156Q|NF2_uc003agh.3_Missense_Mutation_p.R157Q|NF2_uc003agi.3_Missense_Mutation_p.R115Q|NF2_uc003agj.3_Intron|NF2_uc003agk.3_Missense_Mutation_p.R160Q	NM_000268	NP_000259	P35240	MERL_HUMAN	neurofibromin 2 isoform 1	198	FERM.				actin cytoskeleton organization|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of cell-matrix adhesion|negative regulation of DNA replication|negative regulation of tyrosine phosphorylation of Stat3 protein|negative regulation of tyrosine phosphorylation of Stat5 protein|positive regulation of stress fiber assembly|regulation of hippo signaling cascade|Schwann cell proliferation	cytoskeleton|early endosome|extrinsic to membrane|filopodium membrane|nucleolus|perinuclear region of cytoplasm|ruffle membrane	cytoskeletal protein binding|protein binding	p.R198*(3)|p.L127_D382del(1)|p.R198fs*4(1)|p.L140_P252del(1)|p.?(1)		meninges(372)|soft_tissue(284)|central_nervous_system(20)|kidney(10)|pleura(9)|skin(7)|large_intestine(5)|breast(5)|urinary_tract(3)|thyroid(2)|endometrium(2)|ovary(2)|lung(2)|stomach(2)|bone(2)|pituitary(1)	728						CACCGAGGCCGAGCCAGGTGA	0.398			D|Mis|N|F|S|O		meningioma|acoustic neuroma|renal 	meningioma|acoustic neuroma			Neurofibromatosis_type_2				7	86					0	0	0.00308	0	0		A	30051659	A	A	30051659	3	1	1	1	0	0	0	0	1	0	0	0	10376	1058	37	1	615	1	NF2	22	30051659	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	357774	30051659	21252907	1325	1325											
SEC14L4	284904	broad.mit.edu	37	chr22	30888485	30888485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaatcacaatcttcctgcGtgtctcctcactcatgaacg	10	11	6	14	2	5	2	3	1	2	1	7	2	6	2	2	0	2	0	2	0	3	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:30888485G>A	uc003aid.2	-	8	740	c.640C>T	c.(640-642)CGC>TGC	p.R214C	SEC14L4_uc011akz.1_Missense_Mutation_p.R214C|SEC14L4_uc003aie.2_Missense_Mutation_p.R199C|SEC14L4_uc003aif.2_Missense_Mutation_p.R160C	NM_174977	NP_777637	Q9UDX3	S14L4_HUMAN	SEC14p-like protein TAP3 isoform a	214	CRAL-TRIO.					integral to membrane|intracellular	lipid binding|transporter activity			skin(1)	1					Vitamin E(DB00163)	ATCTTCCTGCGTGTCTCCTCA	0.527													6	40					0	0	0.010729	0	0		A	30888485	A	A	30888485	3	1	1	1	0	0	0	0	1	0	0	0	14009	1145	40	1	606	1	SEC14L4	22	30888485	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	836826	30888485	20416081	1326	1326											
RNF185	91445	broad.mit.edu	37	chr22	31583100	31583100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatggcaagcaaggggccctCggcctctgcatctcctgaga	8	7	13	13	1	2	1	0	1	2	1	4	3	2	1	3	4	2	3	3	4	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:31583100C>T	uc003akb.2	+	2	220	c.20C>T	c.(19-21)TCG>TTG	p.S7L	RNF185_uc010gwh.2_RNA|RNF185_uc011alm.1_5'UTR|RNF185_uc003akc.2_5'UTR|RNF185_uc003ake.2_Missense_Mutation_p.S7L	NM_152267	NP_689480	Q96GF1	RN185_HUMAN	ring finger protein 185 isoform 1	7						integral to membrane	zinc ion binding				0						AAGGGGCCCTCGGCCTCTGCA	0.587													18	154					0	0	0.002299	0	0		T	31583100	T	T	31583100	3	4	1	1	0	0	0	0	1	0	0	0	13493	893	31	1	22	1	RNF185	22	31583100	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	694615	31583100	19721466	1327	1327											
SFI1	9814	broad.mit.edu	37	chr22	32009168	32009168	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagcgggcgacagtgcgggCcctgtggttctgggccttct	3	9	17	12	3	2	0	0	0	2	0	2	1	2	0	2	4	2	2	2	4	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:32009168C>G	uc003ale.2	+	25	2924	c.2531C>G	c.(2530-2532)GCC>GGC	p.A844G	SFI1_uc003alf.2_Missense_Mutation_p.A813G|SFI1_uc003alg.2_Missense_Mutation_p.A762G|SFI1_uc011alp.1_Missense_Mutation_p.A750G|SFI1_uc011alq.1_Missense_Mutation_p.A789G|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_RNA|SFI1_uc003ali.2_5'Flank|SFI1_uc003alj.2_5'Flank	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	844					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						ACAGTGCGGGCCCTGTGGTTC	0.617													6	36					0	0	0.001168	0	0		G	32009168	G	G	32009168	3	3	1	1	0	0	0	0	1	0	0	0	14181	739	26	5	2625	5	SFI1	22	32009168	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	426068	32009168	19295398	1328	1328											
SLC5A4	6527	broad.mit.edu	37	chr22	32651216	32651216	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcaccaccagaaaatagAtgacaatgactgagatgtca	17	7	7	10	0	2	5	2	3	0	3	2	6	2	5	3	0	0	0	3	0	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:32651216A>G	uc003ami.2	-	1	103	c.101T>C	c.(100-102)ATC>ACC	p.I34T		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	34	Helical; (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						CAGAAAATAGATGACAATGAC	0.537													31	285					0	0	0.010818	0	0		G	32651216	G	G	32651216	3	3	1	1	0	0	0	0	1	0	0	0	14692	333	12	3	1938	3	SLC5A4	22	32651216	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	642048	32651216	18653350	1329	1329											
FBXO7	25793	broad.mit.edu	37	chr22	32887092	32887092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggaaaatgtagccaacatAtacaaagatcttcagaaact	18	8	8	7	0	2	2	1	0	1	2	2	3	2	3	1	2	4	1	1	2	8	4	rs146429630		TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:32887092A>G	uc003amq.2	+	6	1174	c.891A>G	c.(889-891)ATA>ATG	p.I297M	FBXO7_uc003amp.1_3'UTR|FBXO7_uc003amr.2_Missense_Mutation_p.I183M|FBXO7_uc003ams.2_Missense_Mutation_p.I141M|FBXO7_uc003amt.2_Missense_Mutation_p.I218M|FBXO7_uc003amu.2_Missense_Mutation_p.I183M|FBXO7_uc003amv.2_5'Flank	NM_012179	NP_036311	Q9Y3I1	FBX7_HUMAN	F-box only protein 7 isoform 1	297					cell death|regulation of protein stability|ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)	1						TAGCCAACATATACAAAGATC	0.368													11	99					0	0	0.010729	0	0		G	32887092	G	G	32887092	3	3	1	1	0	0	0	0	1	0	0	0	5774	439	16	3	954	3	FBXO7	22	32887092	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	235876	32887092	18417474	1330	1330											
APOL3	80833	broad.mit.edu	37	chr22	36541535	36541535	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttacctgggcaattcagcCgcagtcacgaatctcttcca	9	10	9	13	2	3	0	2	0	1	0	5	1	4	0	3	2	2	3	3	2	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:36541535C>T	uc003aot.2	-	2	374	c.336G>A	c.(334-336)GCG>GCA	p.A112A	APOL3_uc003aoq.2_Silent_p.A41A|APOL3_uc003aor.2_Silent_p.A41A|APOL3_uc003aos.2_Silent_p.A41A|APOL3_uc003aou.2_5'UTR|APOL3_uc003aov.2_5'UTR	NM_145640	NP_663615	O95236	APOL3_HUMAN	apolipoprotein L3 isoform 1	112					inflammatory response|lipoprotein metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|extracellular region	lipid binding|lipid transporter activity|signal transducer activity				0						GCAATTCAGCCGCAGTCACGA	0.562													7	95					0	0	0.00308	0	0		T	36541535	T	T	36541535	2	4	1	1	0	0	0	0	0	0	0	1	807	639	23	1		1	APOL3	22	36541535	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3654443	36541535	14763031	1331	1331											
FOXRED2	80020	broad.mit.edu	37	chr22	36902213	36902213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcggcgttagccttgcccGtgtaccgcttgttgatgctg	4	13	12	12	4	0	1	0	1	0	0	1	1	0	1	3	1	4	5	3	1	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:36902213G>A	uc003apn.3	-	1	365	c.257C>T	c.(256-258)ACG>ATG	p.T86M	FOXRED2_uc003apo.3_Missense_Mutation_p.T86M|FOXRED2_uc003app.3_Missense_Mutation_p.T86M	NM_024955	NP_079231	Q8IWF2	FXRD2_HUMAN	FAD-dependent oxidoreductase domain containing 2	86					ER-associated protein catabolic process	endoplasmic reticulum lumen	flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			lung(1)|kidney(1)	2						AGCCTTGCCCGTGTACCGCTT	0.642													8	35					0	0	0.00308	0	0		A	36902213	A	A	36902213	3	1	1	1	0	0	0	0	1	0	0	0	6048	1145	40	1	1829	1	FOXRED2	22	36902213	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	360678	36902213	14402353	1332	1332											
GGA1	26088	broad.mit.edu	37	chr22	38021856	38021856	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatctcccgcctgcgggCaccacctacccagctatgcc	6	7	9	19	2	1	0	0	0	1	0	2	1	1	1	6	2	4	2	6	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:38021856C>T	uc003atc.2	+	11	1358	c.993C>T	c.(991-993)GGC>GGT	p.G331G	GGA1_uc003atd.2_Intron|GGA1_uc003ate.2_Silent_p.G331G|GGA1_uc003atf.2_Silent_p.G258G	NM_013365	NP_037497	Q9UJY5	GGA1_HUMAN	golgi associated, gamma adaptin ear containing,	331	Unstructured hinge.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|Golgi apparatus part	protein binding			breast(2)|ovary(1)	3	Melanoma(58;0.0574)					CGCCTGCGGGCACCACCTACC	0.652													12	51					0	0	0.010729	0	0		T	38021856	T	T	38021856	2	4	1	1	0	0	0	0	0	0	0	1	6367	697	25	2		2	GGA1	22	38021856	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1119643	38021856	13282710	1333	1333											
EIF3L	51386	broad.mit.edu	37	chr22	38273988	38273988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagctttcaaccatccgcaGcttcctgaagctctacacca	10	9	5	17	1	2	1	1	1	1	0	4	1	4	1	5	0	5	4	5	0	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:38273988G>A	uc003auf.2	+	11	1472	c.1385G>A	c.(1384-1386)AGC>AAC	p.S462N	EIF3L_uc003aue.1_Missense_Mutation_p.S462N|EIF3L_uc011ann.1_Missense_Mutation_p.S414N|EIF3L_uc003aug.2_Missense_Mutation_p.S354N|EIF3L_uc003auh.2_Missense_Mutation_p.S195N	NM_016091	NP_057175	Q9Y262	EIF3L_HUMAN	eukaryotic translation initiation factor 3	462						eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1						ACCATCCGCAGCTTCCTGAAG	0.542													13	101					0	0	0.00245	0	0		A	38273988	A	A	38273988	3	1	1	1	0	0	0	0	1	0	0	0	5030	971	34	2	1427	2	EIF3L	22	38273988	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	252132	38273988	13030578	1334	1334											
CSNK1E	1454	broad.mit.edu	37	chr22	38696761	38696761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtgttgatggaagcgtagCgggccgtgccggtcaggttc	5	9	18	9	5	1	1	1	1	0	0	2	2	1	2	2	4	3	3	2	4	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:38696761C>T	uc003avj.2	-	5	794	c.533G>A	c.(532-534)CGC>CAC	p.R178H	CSNK1E_uc003avk.2_Missense_Mutation_p.R178H|CSNK1E_uc003avl.1_RNA|CSNK1E_uc003avm.1_Missense_Mutation_p.R178H|CSNK1E_uc003avo.2_Missense_Mutation_p.R178H|CSNK1E_uc003avp.1_Missense_Mutation_p.R178H|CSNK1E_uc003avq.1_Missense_Mutation_p.R178H	NM_152221	NP_689407	P49674	KC1E_HUMAN	casein kinase 1 epsilon	178	Protein kinase.				DNA repair|G2/M transition of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|signal transduction	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Melanoma(58;0.045)					GGAAGCGTAGCGGGCCGTGCC	0.652													6	78					0	0	0.001984	0	0		T	38696761	T	T	38696761	3	4	1	1	0	0	0	0	1	0	0	0	3956	768	27	1	741	1	CSNK1E	22	38696761	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	422773	38696761	12607805	1335	1335											
APOBEC3F	200316	broad.mit.edu	37	chr22	39441119	39441119	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagcaccccaatgtcaccctGaccatctccgccgcccgcct	7	6	7	21	3	2	1	1	1	1	0	3	2	2	1	8	0	1	1	8	0	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:39441119G>C	uc003aww.2	+	3	638	c.345G>C	c.(343-345)CTG>CTC	p.L115L	APOBEC3F_uc011aog.1_Silent_p.L115L	NM_145298	NP_660341	Q9HC16	ABC3G_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	116					base conversion or substitution editing|DNA cytosine deamination|innate immune response|interspecies interaction between organisms|negative regulation of retroviral genome replication|negative regulation of transposition|positive regulation of defense response to virus by host|response to virus|viral reproduction	apolipoprotein B mRNA editing enzyme complex|cytosol|mitochondrion	cytidine deaminase activity|dCTP deaminase activity|protein homodimerization activity|RNA binding|zinc ion binding				0	Melanoma(58;0.04)					ATGTCACCCTGACCATCTCCG	0.597													8	89					0	0	0.00308	0	0		C	39441119	C	C	39441119	2	2	1	1	0	0	0	0	0	0	0	1	793	1277	45	5		5	APOBEC3F	22	39441119	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	744358	39441119	11863447	1336	1336											
APOBEC3H	164668	broad.mit.edu	37	chr22	39496366	39496366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccttactacccgaggaaggCcctcttgtgttaccagctga	8	10	10	13	1	1	1	0	1	1	0	1	3	1	2	4	2	4	2	4	2	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:39496366C>T	uc011aoh.1	+	2	149	c.83C>T	c.(82-84)GCC>GTC	p.A28V	APOBEC3H_uc011aoi.1_5'Flank|APOBEC3H_uc003axa.3_5'Flank	NM_181773	NP_861438	Q6NTF7	ABC3H_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	28					DNA cytosine deamination|negative regulation of retroviral genome replication|negative regulation of transposition	cytoplasm|nucleus	cytidine deaminase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Melanoma(58;0.04)					CCGAGGAAGGCCCTCTTGTGT	0.567													10	87					0	0	0.010729	0	0		T	39496366	T	T	39496366	3	4	1	1	0	0	0	0	1	0	0	0	795	739	26	2	85	2	APOBEC3H	22	39496366	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	55247	39496366	11808200	1337	1337											
SYNGR1	9145	broad.mit.edu	37	chr22	39777832	39777832	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacgtggagcccactgggccGgatcccgccggtatgggcgg	5	6	17	13	5	0	0	0	0	0	0	1	2	1	2	4	6	2	1	4	6	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:39777832G>A	uc003axq.3	+	4	677	c.615G>A	c.(613-615)CCG>CCA	p.P205P	TAB1_uc003axr.2_Intron	NM_004711	NP_004702	O43759	SNG1_HUMAN	synaptogyrin 1 isoform 1a	205					regulation of long-term neuronal synaptic plasticity|regulation of short-term neuronal synaptic plasticity	cell junction|integral to plasma membrane|melanosome					0	Melanoma(58;0.04)					CCACTGGGCCGGATCCCGCCG	0.672													3	12					0	0	0.009096	0	0		A	39777832	A	A	39777832	2	1	1	1	0	0	0	0	0	0	0	1	15473	1103	39	1		1	SYNGR1	22	39777832	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	281466	39777832	11526734	1338	1338											
TAB1	10454	broad.mit.edu	37	chr22	39811581	39811581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaccaacttcgtggcccagCggctgtccgcagagctcctg	6	8	12	15	3	0	2	0	1	0	1	3	2	2	2	4	2	3	3	4	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:39811581C>T	uc003axt.2	+	3	296	c.247C>T	c.(247-249)CGG>TGG	p.R83W	TAB1_uc003axr.2_Missense_Mutation_p.R159W|TAB1_uc011aok.1_5'UTR|TAB1_uc003axu.1_Missense_Mutation_p.R83W	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	83	PP2C-like.				activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1						CGTGGCCCAGCGGCTGTCCGC	0.627													7	51					0	0	0.001984	0	0		T	39811581	T	T	39811581	3	4	1	1	0	0	0	0	1	0	0	0	15520	759	27	1	257	1	TAB1	22	39811581	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	33749	39811581	11492985	1339	1339											
SMCR7L	54471	broad.mit.edu	37	chr22	39909840	39909840	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctcacactggaggtgcagTatgagcgtgacaaacatctc	11	8	10	12	1	2	2	1	2	1	0	3	3	2	3	1	2	3	2	1	2	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:39909840T>C	uc003axx.2	+	6	1402	c.904T>C	c.(904-906)TAT>CAT	p.Y302H	SMCR7L_uc003axw.2_Missense_Mutation_p.Y302H|SMCR7L_uc010gxz.1_Missense_Mutation_p.Y124H|SMCR7L_uc003axy.2_Missense_Mutation_p.Y124H	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	302						integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					GGAGGTGCAGTATGAGCGTGA	0.572											OREG0026577	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	128					0	0	0.001168	0	0		C	39909840	C	C	39909840	3	2	1	1	0	0	0	0	1	0	0	0	14816	1638	57	3	918	3	SMCR7L	22	39909840	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	98259	39909840	11394726	1340	1340											
MCHR1	2847	broad.mit.edu	37	chr22	41075620	41075620	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgggtggaggggagctcAgctcggttgtgggagcaggc	5	7	22	7	2	1	0	1	0	0	0	2	3	1	3	0	7	3	4	0	7	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:41075620A>G	uc003ayz.2	+	1	439	c.171A>G	c.(169-171)TCA>TCG	p.S57S	MCHR1_uc003aza.2_Intron	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	57	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						AGGGGAGCTCAGCTCGGTTGT	0.692													3	17					0	0	0.001168	0	0		G	41075620	G	G	41075620	2	3	1	1	0	0	0	0	0	0	0	1	9400	175	7	3		3	MCHR1	22	41075620	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1165780	41075620	10228946	1341	1341											
NAGA	4668	broad.mit.edu	37	chr22	42464549	42464549	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcccattgtccagcatcaGcacctgggccacatgtccca	9	7	9	16	0	1	0	1	0	0	0	3	1	3	0	5	1	3	2	5	1	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:42464549G>A	uc003bbx.2	-	3	183	c.46C>T	c.(46-48)CTG>TTG	p.L16L	NAGA_uc003bby.2_Silent_p.L16L|NAGA_uc003bbw.3_Silent_p.L16L	NM_000262	NP_000253	P17050	NAGAB_HUMAN	alpha-N-acetylgalactosaminidase precursor	16					glycoside catabolic process|glycosylceramide catabolic process|oligosaccharide metabolic process	lysosome	alpha-galactosidase activity|alpha-N-acetylgalactosaminidase activity|cation binding|protein homodimerization activity			central_nervous_system(1)	1						TCCAGCATCAGCACCTGGGCC	0.602													14	99					0	0	0.004007	0	0		A	42464549	A	A	42464549	2	1	1	1	0	0	0	0	0	0	0	1	10159	962	34	2		2	NAGA	22	42464549	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1388929	42464549	8840017	1342	1342											
ARFGAP3	26286	broad.mit.edu	37	chr22	43213821	43213821	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttttcgtctttcttcatTtgaatttcaagatccttata	9	21	3	8	1	5	2	2	1	3	1	7	2	6	2	1	0	0	0	1	0	4	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:43213821T>G	uc003bdd.2	-	10	1075	c.855A>C	c.(853-855)CAA>CAC	p.Q285H	ARFGAP3_uc010gzf.2_Missense_Mutation_p.Q241H|ARFGAP3_uc011apu.1_Missense_Mutation_p.Q213H	NM_014570	NP_055385	Q9NP61	ARFG3_HUMAN	ADP-ribosylation factor GTPase activating	285					intracellular protein transport|protein secretion|regulation of ARF GTPase activity|vesicle-mediated transport	cytosol|Golgi membrane	ARF GTPase activator activity|protein transporter activity|zinc ion binding			breast(1)	1						ctttcttcatttgaatttcaa	0.159													13	168					0	0	0.001368	0	0		G	43213821	G	G	43213821	3	3	1	1	0	0	0	0	1	0	0	0	851	1838	64	5	723	5	ARFGAP3	22	43213821	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	749272	43213821	8090745	1343	1343											
FBLN1	2192	broad.mit.edu	37	chr22	45938087	45938087	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgggaagggacatcgctgCgtgaactctcccggcagttt	7	10	14	10	3	1	1	0	1	1	0	3	3	1	3	1	3	2	3	1	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:45938087C>T	uc003bgj.1	+	10	1266	c.1119C>T	c.(1117-1119)TGC>TGT	p.C373C	FBLN1_uc003bgg.1_Silent_p.C373C|FBLN1_uc003bgh.2_Silent_p.C373C|FBLN1_uc010gzz.2_Silent_p.C411C|FBLN1_uc003bgi.1_Silent_p.C373C	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	373	EGF-like 5; calcium-binding.|Self-association and FN1-binding; calcium is necessary for homotypic binding, but not for heterotypic binding.				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GACATCGCTGCGTGAACTCTC	0.567													7	245					0	0	0.001984	0	0		T	45938087	T	T	45938087	2	4	1	1	0	0	0	0	0	0	0	1	5712	776	27	1		1	FBLN1	22	45938087	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2724266	45938087	5366479	1344	1344											
CELSR1	9620	broad.mit.edu	37	chr22	46806395	46806395	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaactgccggttgtgcacTgggaagtcttctggcaggtt	7	11	14	9	2	2	0	0	0	2	0	2	2	2	1	1	4	3	4	1	4	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:46806395T>C	uc003bhw.1	-	7	4833	c.4833A>G	c.(4831-4833)CCA>CCG	p.P1611P	CELSR1_uc011arc.1_5'Flank	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1611	Extracellular (Potential).|Laminin G-like 1.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GGTTGTGCACTGGGAAGTCTT	0.602													5	96					0	0	0.001984	0	0		C	46806395	C	C	46806395	2	2	1	1	0	0	0	0	0	0	0	1	3224	1567	55	3		3	CELSR1	22	46806395	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	868308	46806395	4498171	1345	1345											
CELSR1	9620	broad.mit.edu	37	chr22	46929685	46929685	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacgtcggggtcatgggccGggatgcagccgatcacgccg	7	5	16	13	6	2	0	2	0	0	0	3	2	2	1	3	4	2	1	3	4	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:46929685G>T	uc003bhw.1	-	1	3383	c.3383C>A	c.(3382-3384)CCG>CAG	p.P1128Q		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1128	Extracellular (Potential).|Cadherin 9.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GTCATGGGCCGGGATGCAGCC	0.607													12	101					1.02788e-11	1.15594e-11	0.00499	1	0		T	46929685	T	T	46929685	3	4	1	1	0	0	0	0	1	0	0	0	3224	1116	39	5	5801	5	CELSR1	22	46929685	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	123290	46929685	4374881	1346	1346											
BRD1	23774	broad.mit.edu	37	chr22	50217218	50217218	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccactggccctcggggatgtAgggcaccccgtagcactcct	6	7	12	16	2	0	0	0	0	0	0	2	1	1	1	5	4	1	4	5	4	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:50217218A>G	uc003biv.2	-	1	1235	c.748T>C	c.(748-750)TAC>CAC	p.Y250H	BRD1_uc011arf.1_5'UTR|BRD1_uc011arg.1_Missense_Mutation_p.Y250H|BRD1_uc011arh.1_Missense_Mutation_p.Y250H|BRD1_uc003biu.3_Missense_Mutation_p.Y250H	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	250	PHD-type.				histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		TCGGGGATGTAGGGCACCCCG	0.642													4	37					0	0	0.000602	0	0		G	50217218	G	G	50217218	3	3	1	1	0	0	0	0	1	0	0	0	1504	420	15	3	2476	3	BRD1	22	50217218	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	3287533	50217218	1087348	1347	1347											
ZBED4	9889	broad.mit.edu	37	chr22	50278514	50278514	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacttgcagtctcacttgAaccctggagatgggctgatg	9	10	13	9	0	1	3	1	2	1	1	2	5	1	4	1	3	2	2	1	3	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:50278514A>G	uc003bix.2	+	2	1674	c.1204A>G	c.(1204-1206)AAC>GAC	p.N402D		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	402						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		GTCTCACTTGAACCCTGGAGA	0.602													11	108					0	0	0.010729	0	0		G	50278514	G	G	50278514	3	3	1	1	0	0	0	0	1	0	0	0	17545	246	9	3	1206	3	ZBED4	22	50278514	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	61296	50278514	1026052	1348	1348											
MLC1	23209	broad.mit.edu	37	chr22	50523301	50523301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtgggcatccggtcataggCcagctcctctctgaatggct	6	10	12	13	2	2	1	1	1	1	0	5	1	4	1	3	4	1	3	3	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:50523301C>T	uc003bjg.1	-	2	304	c.31G>A	c.(31-33)GCC>ACC	p.A11T	MLC1_uc011arl.1_Missense_Mutation_p.A11T|MLC1_uc003bjh.1_Missense_Mutation_p.A11T|MLC1_uc011arm.1_Missense_Mutation_p.A11T|MLC1_uc011arn.1_Intron|MLC1_uc011aro.1_Missense_Mutation_p.A11T	NM_139202	NP_631941	Q15049	MLC1_HUMAN	megalencephalic leukoencephalopathy with	11						basolateral plasma membrane|endosome|integral to membrane|integral to membrane of membrane fraction	ion channel activity			pancreas(1)	1		all_cancers(38;7.69e-11)|all_epithelial(38;9.52e-10)|all_lung(38;3.67e-05)|Breast(42;0.000776)|Lung NSC(38;0.000946)|Ovarian(80;0.0365)|Lung SC(80;0.113)		READ - Rectum adenocarcinoma(2;0.000669)|Colorectal(2;0.00242)|LUAD - Lung adenocarcinoma(64;0.0695)|BRCA - Breast invasive adenocarcinoma(115;0.216)		CGGTCATAGGCCAGCTCCTCT	0.602													5	53					0	0	0.001984	0	0		T	50523301	T	T	50523301	3	4	1	1	0	0	0	0	1	0	0	0	9630	739	26	2	1146	2	MLC1	22	50523301	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	244787	50523301	781265	1349	1349											
TUBGCP6	85378	broad.mit.edu	37	chr22	50656674	50656674	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctggatctcctccaggtcGcccacggtggccaacctggc	5	7	12	17	3	1	0	0	0	1	0	4	1	2	1	5	5	1	1	5	5	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:50656674G>A	uc003bkb.1	-	23	5624	c.5112C>T	c.(5110-5112)GGC>GGT	p.G1704G	TUBGCP6_uc003bka.1_Nonsense_Mutation_p.R781*|TUBGCP6_uc010har.1_Silent_p.G1696G|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	1704					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CCTCCAGGTCGCCCACGGTGG	0.637													6	41					0	0	0.00308	0	0		A	50656674	A	A	50656674	2	1	1	1	0	0	0	0	0	0	0	1	16796	1074	38	1		1	TUBGCP6	22	50656674	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	133373	50656674	647892	1350	1350											
HDAC10	83933	broad.mit.edu	37	chr22	50686566	50686566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggggctcatcggcacagCggtcacatctagggacagtt	8	8	14	11	2	3	0	2	0	1	0	4	1	3	1	0	5	1	4	0	5	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:50686566C>T	uc003bkg.2	-	13	1463	c.1090G>A	c.(1090-1092)GCT>ACT	p.A364T	HDAC10_uc003bke.2_Missense_Mutation_p.A90T|HDAC10_uc003bkf.2_Missense_Mutation_p.A90T|HDAC10_uc010hav.2_Missense_Mutation_p.A344T|HDAC10_uc003bkh.2_Missense_Mutation_p.A157T|HDAC10_uc003bki.2_Missense_Mutation_p.A314T|HDAC10_uc003bkj.2_RNA|HDAC10_uc003bkk.1_5'UTR	NM_032019	NP_114408	Q969S8	HDA10_HUMAN	histone deacetylase 10 isoform 1	364					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nucleus	histone deacetylase activity|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		ATCGGCACAGCGGTCACATCT	0.647													7	32					0	0	0.001984	0	0		T	50686566	T	T	50686566	3	4	1	1	0	0	0	0	1	0	0	0	7021	768	27	1	951	1	HDAC10	22	50686566	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	29892	50686566	618000	1351	1351											
CPT1B	1375	broad.mit.edu	37	chr22	51016265	51016265	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaggtagacgtgtttcaggGcctcccgactgagccggaag	9	7	14	11	3	1	2	1	1	0	1	2	4	2	3	3	3	1	2	3	3	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:51016265G>C	uc003bmk.3	-	1	242	c.80C>G	c.(79-81)GCC>GGC	p.A27G	CPT1B_uc003bml.2_Missense_Mutation_p.A27G|CPT1B_uc003bmm.2_Missense_Mutation_p.A27G|CPT1B_uc003bmo.2_Missense_Mutation_p.A27G|CPT1B_uc011asa.1_Missense_Mutation_p.A27G|CPT1B_uc003bmn.2_Missense_Mutation_p.A27G|CPT1B_uc011asb.1_Missense_Mutation_p.A27G|CHKB-CPT1B_uc003bmp.2_5'UTR	NM_001145137	NP_001138609	Q92523	CPT1B_HUMAN	carnitine palmitoyltransferase 1B isoform a	27	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)	2		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		all cancers(3;3.56e-77)|OV - Ovarian serous cystadenocarcinoma(4;5.39e-74)|Epithelial(4;5.58e-70)|GBM - Glioblastoma multiforme(4;5.59e-08)|LUAD - Lung adenocarcinoma(64;0.0016)|Lung(4;0.00942)|BRCA - Breast invasive adenocarcinoma(115;0.207)		GTGTTTCAGGGCCTCCCGACT	0.632													12	81					0	0	0.010729	0	0		C	51016265	C	C	51016265	3	2	1	1	0	0	0	0	1	0	0	0	3835	1203	42	5	2310	5	CPT1B	22	51016265	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	329699	51016265	288301	1352	1352											
SHANK3	85358	broad.mit.edu	37	chr22	51117291	51117291	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctggacttccgcactcgCgatgggctcactgccgtgca	6	8	11	16	4	1	0	1	0	0	0	3	2	2	1	3	2	2	3	3	2	0	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chr22:51117291C>T	uc003bne.1	+	5	543	c.543C>T	c.(541-543)CGC>CGT	p.R181R		NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	181										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		TCCGCACTCGCGATGGGCTCA	0.667													3	13					0	0	0.004672	0	0		T	51117291	T	T	51117291	2	4	1	1	0	0	0	0	0	0	0	1	14291	755	27	1		1	SHANK3	22	51117291	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	101026	51117291	187275	1353	1353											
GYG2	8908	broad.mit.edu	37	chrX	2795350	2795350	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaggatgcactggaggTggtatccaaattcttcccct	8	12	10	11	0	2	0	0	0	2	0	4	2	4	2	3	4	2	3	3	4	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:2795350T>C	uc004cqs.1	+	11	1626	c.1344_splice	c.e11+2	p.E448_splice	GYG2_uc004cqt.1_Splice_Site_p.E417_splice|GYG2_uc004cqu.1_Splice_Site_p.E416_splice|GYG2_uc004cqv.1_Intron|GYG2_uc004cqw.1_Splice_Site_p.E408_splice|GYG2_uc004cqx.1_Intron|GYG2_uc010ndc.1_Intron	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b						glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCACTGGAGGTGGTATCCAAA	0.542													4	44					0	0	0.001168	0	0		C	2795350	C	C	2795350	5	2	1	1	0	0	0	0	0	0	1	0	6922	1710	59	3	1384	3	GYG2	23	2795350	Splice_Site	SNP	T	TCGA-B7-5816-01A-21D-1600-08		2795350	152475210	1354	1354											
SHROOM2	357	broad.mit.edu	37	chrX	9912766	9912766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggacgtgcaggccaacaCcgtgctgggggccgaggtgg	7	4	20	10	3	0	0	0	0	0	0	0	3	0	2	3	7	3	2	3	7	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:9912766C>T	uc004csu.1	+	9	4487	c.4397C>T	c.(4396-4398)ACC>ATC	p.T1466I	SHROOM2_uc004csv.2_Missense_Mutation_p.T300I|SHROOM2_uc011mic.1_Missense_Mutation_p.T301I|SHROOM2_uc004csw.1_Missense_Mutation_p.T301I	NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	1466	ASD2.				apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				CAGGCCAACACCGTGCTGGGG	0.632													6	50					0	0	0.001168	0	0		T	9912766	T	T	9912766	3	4	1	1	0	0	0	0	1	0	0	0	14319	507	18	4	4431	4	SHROOM2	23	9912766	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	7117416	9912766	145357794	1355	1355											
WWC3	55841	broad.mit.edu	37	chrX	10077957	10077957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcagctcatcattgcacagCgccgctctgcgggagatgtg	7	10	12	12	3	4	1	3	0	1	1	4	2	4	1	1	1	4	3	1	1	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:10077957C>T	uc004csx.3	+	9	1069	c.871C>T	c.(871-873)CGC>TGC	p.R291C	WWC3_uc010nds.2_5'UTR|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	291	Potential.									ovary(4)	4						CATTGCACAGCGCCGCTCTGC	0.687													10	94					0	0	0.008291	0	0		T	10077957	T	T	10077957	3	4	1	1	0	0	0	0	1	0	0	0	17439	768	27	1	901	1	WWC3	23	10077957	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	165191	10077957	145192603	1356	1356											
CLCN4	1183	broad.mit.edu	37	chrX	10201604	10201604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatggcaaaccaggaccccGaatccatcatgtttaattag	14	9	8	10	1	1	1	1	0	0	1	2	3	2	2	4	2	1	2	4	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:10201604G>A	uc004csy.3	+	13	2693	c.2263G>A	c.(2263-2265)GAA>AAA	p.E755K	CLCN4_uc011mid.1_Missense_Mutation_p.E661K	NM_001830	NP_001821	P51793	CLCN4_HUMAN	chloride channel 4	755	CBS 2.|Cytoplasmic (By similarity).					early endosome membrane|integral to membrane|late endosome membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						CCAGGACCCCGAATCCATCAT	0.368													16	145					0	0	0.00499	0	0		A	10201604	A	A	10201604	3	1	1	1	0	0	0	0	1	0	0	0	3468	1059	37	1	2305	1	CLCN4	23	10201604	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	123647	10201604	145068956	1357	1357											
MSL3	10943	broad.mit.edu	37	chrX	11783634	11783634	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgttgaatccatccacGccacagtccacagagagtca	11	9	7	14	1	1	2	1	1	0	1	4	3	4	2	5	0	0	1	5	0	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:11783634G>A	uc004cuw.2	+	9	1062	c.957G>A	c.(955-957)ACG>ACA	p.T319T	MSL3_uc004cuv.1_Silent_p.T319T|MSL3_uc004cux.2_Silent_p.T260T|MSL3_uc011mig.1_Silent_p.T170T|MSL3_uc011mih.1_Silent_p.T307T|MSL3_uc004cuy.2_Silent_p.T153T	NM_078629	NP_523353	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	319					histone H4-K16 acetylation|multicellular organismal development|transcription from RNA polymerase II promoter	MSL complex	DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ATCCATCCACGCCACAGTCCA	0.577													24	174					0	0	0.005443	0	0		A	11783634	A	A	11783634	2	1	1	1	0	0	0	0	0	0	0	1	9897	1074	38	1		1	MSL3	23	11783634	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1582030	11783634	143486926	1358	1358											
FANCB	2187	broad.mit.edu	37	chrX	14876021	14876021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggtggaaccaccaggtaaCgattctcttgtttgtcttca	9	13	10	9	1	3	0	1	0	2	0	4	3	3	1	2	3	2	2	2	3	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:14876021C>T	uc004cwg.1	-	5	1428	c.1160G>A	c.(1159-1161)CGT>CAT	p.R387H	FANCB_uc004cwh.1_Missense_Mutation_p.R387H	NM_001018113	NP_001018123	Q8NB91	FANCB_HUMAN	Fanconi anemia complementation group B	387					DNA repair	nucleoplasm				lung(1)	1	Hepatocellular(33;0.183)					CACCAGGTAACGATTCTCTTG	0.318								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				25	256					0	0	0.004656	0	0		T	14876021	T	T	14876021	3	4	1	1	0	0	0	0	1	0	0	0	5677	536	19	1	1443	1	FANCB	23	14876021	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	3092387	14876021	140394539	1359	1359											
GRPR	2925	broad.mit.edu	37	chrX	16170760	16170760	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaacatctgtcacgagcggTatgtctagattgacccttga	11	11	10	9	2	3	3	1	2	2	1	3	5	3	3	1	1	2	1	1	1	3	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:16170760T>C	uc004cxj.2	+	3	1800	c.1147T>C	c.(1147-1149)TAT>CAT	p.Y383H		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	383	Cytoplasmic (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					TCACGAGCGGTATGTCTAGAT	0.517													35	321					0	0	0.004289	0	0		C	16170760	C	C	16170760	3	2	1	1	0	0	0	0	1	0	0	0	6824	1638	57	3	1157	3	GRPR	23	16170760	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1294739	16170760	139099800	1360	1360											
MAGEB3	4114	broad.mit.edu	37	chrX	30254158	30254158	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actaacaagaaaaaagtatcCttttcatcccctcttatttt	14	15	2	10	0	2	1	1	0	1	1	4	1	4	1	3	0	1	1	3	0	7	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:30254158C>A	uc004dca.1	+	5	854	c.117C>A	c.(115-117)TCC>TCA	p.S39S		NM_002365	NP_002356	O15480	MAGB3_HUMAN	melanoma antigen family B, 3	39											0						AAAAAGTATCCTTTTCATCCC	0.502													10	58					6.40141e-05	6.77892e-05	0.010729	1	0		A	30254158	A	A	30254158	2	1	1	1	0	0	0	0	0	0	0	1	9195	668	24	5		5	MAGEB3	23	30254158	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	14083398	30254158	125016402	1361	1361											
FAM47B	170062	broad.mit.edu	37	chrX	34961414	34961414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgaaacagctggatcccGagaggaagctggaggacgct	11	6	15	9	2	0	2	0	1	0	1	1	7	1	6	1	4	4	4	1	4	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:34961414G>A	uc004ddi.1	+	1	484	c.466G>A	c.(466-468)GAG>AAG	p.E156K		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	156										ovary(3)|breast(1)	4						GCTGGATCCCGAGAGGAAGCT	0.567													10	78					0	0	0.006214	0	0		A	34961414	A	A	34961414	3	1	1	1	0	0	0	0	1	0	0	0	5584	1059	37	1	468	1	FAM47B	23	34961414	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4707256	34961414	120309146	1362	1362											
BCOR	54880	broad.mit.edu	37	chrX	39911559	39911559	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattctgcctctgcaatggTgacaatttccacgtttggaa	11	13	8	9	1	2	1	0	1	2	0	3	2	3	2	2	2	2	2	2	2	4	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:39911559T>C	uc004den.3	-	15	5363	c.5071A>G	c.(5071-5073)ACC>GCC	p.T1691A	BCOR_uc004dep.3_Missense_Mutation_p.T1657A|BCOR_uc004deo.3_Missense_Mutation_p.T1639A|BCOR_uc010nhb.2_3'UTR|BCOR_uc004dem.3_Missense_Mutation_p.T1657A	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	1691					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						TCTGCAATGGTGACAATTTCC	0.448													15	75					0	0	0.003163	0	0		C	39911559	C	C	39911559	3	2	1	1	0	0	0	0	1	0	0	0	1387	1696	59	3	200	3	BCOR	23	39911559	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	4950145	39911559	115359001	1363	1363											
DDX3X	1654	broad.mit.edu	37	chrX	41203054	41203054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttattcagatggtccaggCgaggctttgagggccatgaa	10	11	13	7	1	1	3	1	2	0	1	2	4	2	3	2	4	0	1	2	4	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:41203054C>T	uc004dfe.2	+	8	1599	c.744C>T	c.(742-744)GGC>GGT	p.G248G	DDX3X_uc010nhf.1_Silent_p.G232G|DDX3X_uc004dff.2_Silent_p.G248G|DDX3X_uc011mkq.1_Silent_p.G232G|DDX3X_uc011mkr.1_Silent_p.G248G|DDX3X_uc011mks.1_Intron|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_Intron	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	248	Helicase ATP-binding.				interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						ATGGTCCAGGCGAGGCTTTGA	0.408										HNSCC(61;0.18)			19	147					0	0	0.007413	0	0		T	41203054	T	T	41203054	2	4	1	1	0	0	0	0	0	0	0	1	4361	755	27	1		1	DDX3X	23	41203054	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1291495	41203054	114067506	1364	1364											
DDX3X	1654	broad.mit.edu	37	chrX	41203302	41203302	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaatggaaggtatgggcGccgcaaacaatacccaatct	15	6	11	9	2	1	0	0	0	1	0	1	2	1	2	2	4	2	2	2	4	8	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:41203302G>A	uc004dfe.2	+	9	1640	c.785G>A	c.(784-786)CGC>CAC	p.R262H	DDX3X_uc010nhf.1_Missense_Mutation_p.R246H|DDX3X_uc004dff.2_Missense_Mutation_p.R262H|DDX3X_uc011mkq.1_Missense_Mutation_p.R246H|DDX3X_uc011mkr.1_Missense_Mutation_p.R262H|DDX3X_uc011mks.1_Intron|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	262	Necessary for interaction with XPO1.|Helicase ATP-binding.				interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						AGGTATGGGCGCCGCAAACAA	0.383										HNSCC(61;0.18)			5	52					0	0	0.001168	0	0		A	41203302	A	A	41203302	3	1	1	1	0	0	0	0	1	0	0	0	4361	1087	38	1	819	1	DDX3X	23	41203302	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	248	41203302	114067258	1365	1365											
DDX3X	1654	broad.mit.edu	37	chrX	41206134	41206134	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggcaacctcattctttaaCgagaggaacataaatattac	15	11	6	9	1	2	1	1	0	1	1	2	3	2	2	1	2	4	1	1	2	7	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:41206134C>T	uc004dfe.2	+	15	2493	c.1638C>T	c.(1636-1638)AAC>AAT	p.N546N	DDX3X_uc004dff.2_Silent_p.N546N|DDX3X_uc011mkq.1_Silent_p.N530N|DDX3X_uc011mkr.1_Silent_p.N416N|DDX3X_uc011mks.1_Intron|DDX3X_uc004dfg.2_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	546	Helicase C-terminal.				interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						CATTCTTTAACGAGAGGAACA	0.358										HNSCC(61;0.18)			33	187					0	0	0.004878	0	0		T	41206134	T	T	41206134	2	4	1	1	0	0	0	0	0	0	0	1	4361	535	19	1		1	DDX3X	23	41206134	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2832	41206134	114064426	1366	1366											
CDK16	5127	broad.mit.edu	37	chrX	47086419	47086419	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caactgaggagacgtggccaGgcatcctgtccaacgaggag	11	5	14	11	2	0	2	0	1	0	1	2	5	2	3	3	4	2	1	3	4	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:47086419G>T	uc004dho.2	+	12	1558	c.1162G>T	c.(1162-1164)GGC>TGC	p.G388C	CDK16_uc011mli.1_Missense_Mutation_p.G394C|CDK16_uc011mlk.1_Missense_Mutation_p.G388C|CDK16_uc011mll.1_Missense_Mutation_p.G462C	NM_006201	NP_006192	Q00536	CDK16_HUMAN	PCTAIRE protein kinase 1 isoform 1	388	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding			lung(1)	1						GACGTGGCCAGGCATCCTGTC	0.592													3	29					0.004672	0.00481026	0.004672	1	0		T	47086419	T	T	47086419	3	4	1	1	0	0	0	0	1	0	0	0	3135	1000	35	5	1446	5	CDK16	23	47086419	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	5880285	47086419	108184141	1367	1367											
USP11	8237	broad.mit.edu	37	chrX	47101688	47101688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttatccccatggatccgCgccgcaagccagagcaggtg	8	8	11	14	3	1	1	0	0	1	1	3	2	3	2	5	2	2	2	5	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:47101688C>T	uc004dhp.2	+	10	1516	c.1516C>T	c.(1516-1518)CGC>TGC	p.R506C	USP11_uc004dhq.2_Missense_Mutation_p.R233C	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	506					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CATGGATCCGCGCCGCAAGCC	0.537													4	24					0	0	0.000602	0	0		T	47101688	T	T	47101688	3	4	1	1	0	0	0	0	1	0	0	0	17068	768	27	1	1554	1	USP11	23	47101688	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	15269	47101688	108168872	1368	1368											
ZNF81	347344	broad.mit.edu	37	chrX	47774787	47774787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggagtgaagttctgtgaaCgtaatcaatgtggaaaagtc	14	10	12	5	1	2	2	1	2	1	0	3	4	2	4	0	2	1	2	0	2	6	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:47774787C>T	uc010nhy.1	+	6	1110	c.742C>T	c.(742-744)CGT>TGT	p.R248C		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	248						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				GTTCTGTGAACGTAATCAATG	0.388													14	117					0	0	0.001855	0	0		T	47774787	T	T	47774787	3	4	1	1	0	0	0	0	1	0	0	0	18199	536	19	1	756	1	ZNF81	23	47774787	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	673099	47774787	107495773	1369	1369											
PPP1R3F	89801	broad.mit.edu	37	chrX	49137887	49137887	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggcctgccgaggaggaactGaagacgaagaacatggatga	15	4	15	7	2	0	4	0	2	0	2	0	9	0	7	2	4	3	0	2	4	4	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:49137887G>A	uc004dnh.1	+	2	1039	c.1023G>A	c.(1021-1023)CTG>CTA	p.L341L	PPP1R3F_uc011mnd.1_Silent_p.L13L|PPP1R3F_uc004dni.2_5'UTR|PPP1R3F_uc004dnj.1_5'UTR	NM_033215	NP_149992	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory (inhibitor)	341	Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	Ovarian(276;0.236)					AGGAGGAACTGAAGACGAAGA	0.483													5	28					0	0	0.001168	0	0		A	49137887	A	A	49137887	2	1	1	1	0	0	0	0	0	0	0	1	12397	1277	45	4		4	PPP1R3F	23	49137887	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1363100	49137887	106132673	1370	1370											
MAGED1	9500	broad.mit.edu	37	chrX	51639696	51639696	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaaaccagacagccaggcaGaccccaccagcacgtcagag	15	1	9	16	1	1	3	1	0	0	3	1	3	1	3	5	1	3	2	5	1	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:51639696G>A	uc004dpm.2	+	4	1040	c.945G>A	c.(943-945)CAG>CAA	p.Q315Q	MAGED1_uc004dpn.2_Silent_p.Q371Q|MAGED1_uc004dpo.2_Silent_p.Q315Q	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	315	Pro-rich.|22 X 6 AA tandem repeats of W-[PQ]-X-P-X- X.				apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					CAGCCAGGCAGACCCCACCAG	0.617										Multiple Myeloma(10;0.10)			7	40					0	0	0.001984	0	0		A	51639696	A	A	51639696	2	1	1	1	0	0	0	0	0	0	0	1	9201	933	33	4		4	MAGED1	23	51639696	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2501809	51639696	103630864	1371	1371											
HUWE1	10075	broad.mit.edu	37	chrX	53587255	53587255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggtcctctgactgcgccCgatgccctgggtgagacgag	6	8	15	12	3	1	2	0	2	1	1	2	5	2	2	3	2	2	0	3	2	1	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:53587255C>T	uc004dsp.2	-	56	8032	c.7630G>A	c.(7630-7632)GGG>AGG	p.G2544R	HUWE1_uc004dsn.2_Missense_Mutation_p.G1368R	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2544					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						TGACTGCGCCCGATGCCCTGG	0.562													3	60					0	0	0.004672	0	0		T	53587255	T	T	53587255	3	4	1	1	0	0	0	0	1	0	0	0	7477	652	23	1	5610	1	HUWE1	23	53587255	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1947559	53587255	101683305	1372	1372											
HUWE1	10075	broad.mit.edu	37	chrX	53589856	53589856	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcttcatccatcagcacGtcctcttgtgattcatcctc	7	13	7	14	1	4	1	3	1	1	0	8	2	7	2	3	1	2	2	3	1	0	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:53589856G>A	uc004dsp.2	-	53	7542	c.7140C>T	c.(7138-7140)GAC>GAT	p.D2380D	HUWE1_uc004dsn.2_Silent_p.D1204D	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2380	Glu-rich.				base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CCATCAGCACGTCCTCTTGTG	0.547													24	114					0	0	0.003954	0	0		A	53589856	A	A	53589856	2	1	1	1	0	0	0	0	0	0	0	1	7477	1136	40	1		1	HUWE1	23	53589856	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2601	53589856	101680704	1373	1373											
HUWE1	10075	broad.mit.edu	37	chrX	53631775	53631775	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagaccctcttgaaggacTttgggttcatgtgacagtgt	9	12	13	7	0	2	3	1	2	1	1	2	5	2	4	1	3	0	1	1	3	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:53631775T>G	uc004dsp.2	-	26	2919	c.2517A>C	c.(2515-2517)AAA>AAC	p.K839N		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	839					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CTTGAAGGACTTTGGGTTCAT	0.448													8	65					0	0	0.00308	0	0		G	53631775	G	G	53631775	3	3	1	1	0	0	0	0	1	0	0	0	7477	1606	56	5	10843	5	HUWE1	23	53631775	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	41919	53631775	101638785	1374	1374											
VSIG4	11326	broad.mit.edu	37	chrX	65242699	65242699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctggctgcttcgtagaCatgctctagaaaaaaaggag	13	10	10	8	1	1	2	0	0	1	2	2	3	1	3	1	2	3	4	1	2	6	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:65242699C>T	uc004dwh.2	-	7	1073	c.946G>A	c.(946-948)GTC>ATC	p.V316I	VSIG4_uc004dwi.2_Missense_Mutation_p.V222I|VSIG4_uc010nkq.1_Intron|VSIG4_uc004dwj.2_Missense_Mutation_p.V316I|VSIG4_uc011moy.1_Missense_Mutation_p.V222I|VSIG4_uc004dwk.2_Missense_Mutation_p.V316I|VSIG4_uc004dwl.2_Missense_Mutation_p.V212I	NM_007268	NP_009199	Q9Y279	VSIG4_HUMAN	V-set and immunoglobulin domain containing 4	316	Cytoplasmic (Potential).				complement activation, alternative pathway	integral to membrane	protein binding				0						GCTTCGTAGACATGCTCTAGA	0.473													4	65					0	0	0.009096	0	0		T	65242699	T	T	65242699	3	4	1	1	0	0	0	0	1	0	0	0	17251	478	17	4	265	4	VSIG4	23	65242699	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	11610924	65242699	90027861	1375	1375											
STARD8	9754	broad.mit.edu	37	chrX	67941416	67941416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttggcagcagcacaagccGccaccttgctgctccccgat	7	7	11	16	2	0	0	0	0	0	0	1	1	1	0	5	2	5	6	5	2	1	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:67941416G>A	uc004dxa.2	+	9	2419	c.2047G>A	c.(2047-2049)GCC>ACC	p.A683T	STARD8_uc004dxb.2_Missense_Mutation_p.A763T|STARD8_uc004dxc.3_Missense_Mutation_p.A683T	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	683	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						AGCACAAGCCGCCACCTTGCT	0.562													6	57					0	0	0.001984	0	0		A	67941416	A	A	67941416	3	1	1	1	0	0	0	0	1	0	0	0	15288	1087	38	1	2325	1	STARD8	23	67941416	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2698717	67941416	87329144	1376	1376											
AWAT1	158833	broad.mit.edu	37	chrX	69455639	69455639	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccagtgctttactttgcCtggttgttcctggactggaa	6	15	10	10	0	0	0	0	0	0	0	1	2	1	2	3	3	4	3	3	3	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:69455639C>A	uc004dxy.2	+	2	191	c.150C>A	c.(148-150)GCC>GCA	p.A50A		NM_001013579	NP_001013597	Q58HT5	AWAT1_HUMAN	wax synthase 1	50	Helical; (Potential).				lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	long-chain-alcohol O-fatty-acyltransferase activity			ovary(3)	3						TTTACTTTGCCTGGTTGTTCC	0.502													23	241					3.5997e-14	4.07836e-14	0.002299	1	0		A	69455639	A	A	69455639	2	1	1	1	0	0	0	0	0	0	0	1	1235	668	24	5		5	AWAT1	23	69455639	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1514223	69455639	85814921	1377	1377											
GDPD2	54857	broad.mit.edu	37	chrX	69647041	69647041	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacagctgaatgcggagctActgtgtttgagactgatgtg	10	11	14	6	1	0	4	0	3	0	2	0	6	0	5	0	1	4	3	0	1	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:69647041A>G	uc004dyh.2	+	9	1008	c.757A>G	c.(757-759)ACT>GCT	p.T253A	GDPD2_uc010nkx.1_Missense_Mutation_p.T253A|GDPD2_uc010nky.1_Missense_Mutation_p.T39A|GDPD2_uc011mpk.1_Missense_Mutation_p.T253A|GDPD2_uc011mpl.1_Missense_Mutation_p.T174A|GDPD2_uc011mpm.1_Missense_Mutation_p.T174A	NM_017711	NP_060181	Q9HCC8	GDPD2_HUMAN	osteoblast differentiation promoting factor	253	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol inositolphosphodiesterase activity|metal ion binding			ovary(2)	2	Renal(35;0.156)					ATGCGGAGCTACTGTGTTTGA	0.582													21	126					0	0	0.002299	0	0		G	69647041	G	G	69647041	3	3	1	1	0	0	0	0	1	0	0	0	6339	391	14	3	787	3	GDPD2	23	69647041	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	191402	69647041	85623519	1378	1378											
DLG3	1741	broad.mit.edu	37	chrX	69719080	69719080	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaaggaccgagtcaatgAtgacctgatctccgaatttc	13	10	9	9	2	2	4	1	4	1	0	4	7	2	5	3	1	0	0	3	1	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:69719080A>G	uc004dyi.1	+	15	2253	c.1925A>G	c.(1924-1926)GAT>GGT	p.D642G	DLG3_uc004dyj.1_Missense_Mutation_p.D337G|DLG3_uc011mpn.1_Missense_Mutation_p.D190G	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	642	Guanylate kinase-like.				axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					CGAGTCAATGATGACCTGATC	0.527													11	75					0	0	0.008291	0	0		G	69719080	G	G	69719080	3	3	1	1	0	0	0	0	1	0	0	0	4562	333	12	3	2271	3	DLG3	23	69719080	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	72039	69719080	85551480	1379	1379											
MED12	9968	broad.mit.edu	37	chrX	70349624	70349624	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtggcagtggtggtcggagGcagggtggccgcaacatctc	6	7	19	9	2	1	0	0	0	1	0	3	1	1	1	1	8	1	3	1	8	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:70349624G>A	uc004dyy.2	+	27	3985	c.3786G>A	c.(3784-3786)AGG>AGA	p.R1262R	MED12_uc011mpq.1_Silent_p.R1262R|MED12_uc004dyz.2_Silent_p.R1262R|MED12_uc004dza.2_Silent_p.R1109R|MED12_uc010nla.2_5'UTR	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1262					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					GTGGTCGGAGGCAGGGTGGCC	0.577											OREG0019857	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	13					0	0	0.001984	0	0		A	70349624	A	A	70349624	2	1	1	1	0	0	0	0	0	0	0	1	9446	1194	42	2		2	MED12	23	70349624	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	630544	70349624	84920936	1380	1380											
NLGN3	54413	broad.mit.edu	37	chrX	70367985	70367985	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcactgccaacttggataTcgtcgctacttacatccagg	9	12	8	12	2	1	0	1	0	0	0	4	1	2	1	2	2	4	2	2	2	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:70367985T>A	uc004dzd.1	+	1	586	c.386T>A	c.(385-387)ATC>AAC	p.I129N	NLGN3_uc010nlb.1_Missense_Mutation_p.I129N|NLGN3_uc004dzb.2_Missense_Mutation_p.I129N|NLGN3_uc004dzc.2_Missense_Mutation_p.I12N|NLGN3_uc011mps.1_Missense_Mutation_p.I129N|NLGN3_uc011mpr.1_Missense_Mutation_p.I129N	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	129	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					AACTTGGATATCGTCGCTACT	0.582													11	77					0	0	0.010729	0	0		A	70367985	A	A	70367985	3	1	1	1	0	0	0	0	1	0	0	0	10482	1435	50	5	388	5	NLGN3	23	70367985	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	18361	70367985	84902575	1381	1381											
ZMYM3	9203	broad.mit.edu	37	chrX	70462271	70462271	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctccactcgagagaacaccGtatctacaatggtcaagggg	12	7	10	12	2	2	1	1	0	1	1	4	3	3	1	3	3	2	1	3	3	5	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:70462271G>A	uc004dzh.1	-	23	3638	c.3551C>T	c.(3550-3552)ACG>ATG	p.T1184M	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Missense_Mutation_p.T1184M|ZMYM3_uc004dzj.1_Missense_Mutation_p.T1172M	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	1184					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					AGAGAACACCGTATCTACAAT	0.547													5	34					0	0	0.001984	0	0		A	70462271	A	A	70462271	3	1	1	1	0	0	0	0	1	0	0	0	17726	1145	40	1	573	1	ZMYM3	23	70462271	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	94286	70462271	84808289	1382	1382											
ITGB1BP2	26548	broad.mit.edu	37	chrX	70522261	70522261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tatctccttatctatactagGgctgtactatgggaccacac	10	13	7	11	0	2	0	0	0	2	0	3	1	2	1	2	2	2	2	2	2	7	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:70522261G>A	uc004dzr.1	+	4	201	c.172G>A	c.(172-174)GGC>AGC	p.G58S	BCYRN1_uc011mpt.1_Intron|ITGB1BP2_uc004dzs.1_Missense_Mutation_p.G40S	NM_012278	NP_036410	Q9UKP3	ITBP2_HUMAN	integrin beta 1 binding protein 2	58	Cys-rich.|CHORD 1.				muscle organ development|signal transduction		SH3 domain binding			ovary(1)	1	Renal(35;0.156)					TCTATACTAGGGCTGTACTAT	0.443													16	139					0	0	0.003163	0	0		A	70522261	A	A	70522261	3	1	1	1	0	0	0	0	1	0	0	0	7908	1246	43	4	186	4	ITGB1BP2	23	70522261	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	59990	70522261	84748299	1383	1383											
TAF1	6872	broad.mit.edu	37	chrX	70618474	70618474	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaagagatgcgaaaagaaCggcggaggattcaagagcaa	17	3	16	5	3	1	3	1	0	0	3	1	8	1	6	0	4	3	1	0	4	6	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:70618474C>T	uc004dzu.3	+	24	3721	c.3670C>T	c.(3670-3672)CGG>TGG	p.R1224W	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.R1245W|TAF1_uc004dzv.3_Missense_Mutation_p.R398W	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	1224	HMG box.				G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				GCGAAAAGAACGGCGGAGGAT	0.473													9	65					0	0	0.006214	0	0		T	70618474	T	T	70618474	3	4	1	1	0	0	0	0	1	0	0	0	15538	527	19	1	3827	1	TAF1	23	70618474	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	96213	70618474	84652086	1384	1384											
ACRC	93953	broad.mit.edu	37	chrX	70823685	70823685	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgacaatagtgatgattcGgatgttcccgacgacaacag	13	8	11	9	4	0	2	0	2	0	0	2	7	1	3	1	1	1	1	1	1	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:70823685G>A	uc004eae.2	+	8	1059	c.558G>A	c.(556-558)TCG>TCA	p.S186S	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	186	Asp/Ser-rich.					nucleus				ovary(3)	3	Renal(35;0.156)					GTGATGATTCGGATGTTCCCG	0.498													56	437					0	0	0.00361	0	0		A	70823685	A	A	70823685	2	1	1	1	0	0	0	0	0	0	0	1	171	1103	39	1		1	ACRC	23	70823685	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	205211	70823685	84446875	1385	1385											
PHKA1	5255	broad.mit.edu	37	chrX	71856206	71856206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcccatgtgtctgtagggtCgtccactgagtttcattcta	6	15	9	11	1	3	1	1	1	2	0	6	1	5	1	2	1	0	2	2	1	2	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:71856206C>T	uc004eax.3	-	15	1791	c.1490G>A	c.(1489-1491)CGA>CAA	p.R497Q	PHKA1_uc004eay.3_Missense_Mutation_p.R497Q|PHKA1_uc011mqi.1_Missense_Mutation_p.R497Q	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	497					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					TCTGTAGGGTCGTCCACTGAG	0.358													10	135					0	0	0.010729	0	0		T	71856206	T	T	71856206	3	4	1	1	0	0	0	0	1	0	0	0	11862	884	31	1	2253	1	PHKA1	23	71856206	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1032521	71856206	83414354	1386	1386											
ZDHHC15	158866	broad.mit.edu	37	chrX	74649028	74649028	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaaaatccaatgcagttaTtaaccctaaaaaaaaagaaa	22	8	5	6	0	0	1	0	0	0	1	1	2	1	2	2	1	2	2	2	1	11	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:74649028T>C	uc004ecg.2	-	7	966	c.488A>G	c.(487-489)AAT>AGT	p.N163S	ZDHHC15_uc004ech.2_Missense_Mutation_p.N154S|ZDHHC15_uc011mqo.1_Intron	NM_144969	NP_659406	Q96MV8	ZDH15_HUMAN	zinc finger, DHHC-type containing 15 isoform 1	163	DHHC-type.					integral to membrane	zinc ion binding			ovary(2)	2						AATGCAGTTATTAACCCTAAA	0.353													26	68					0	0	0.005443	0	0		C	74649028	C	C	74649028	3	2	1	1	0	0	0	0	1	0	0	0	17630	1493	52	3	545	3	ZDHHC15	23	74649028	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	2792822	74649028	80621532	1387	1387											
MAGEE1	57692	broad.mit.edu	37	chrX	75649389	75649389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgagggaccaagcacttccGtactgccaatccccggtgag	9	7	12	13	2	0	2	0	2	0	0	2	3	2	3	5	2	3	2	5	2	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:75649389G>A	uc004ecm.1	+	1	1273	c.1066G>A	c.(1066-1068)GTA>ATA	p.V356I		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	356	Pro-rich.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						AAGCACTTCCGTACTGCCAAT	0.687													3	30					0	0	0.004672	0	0		A	75649389	A	A	75649389	3	1	1	1	0	0	0	0	1	0	0	0	9203	1145	40	1	1068	1	MAGEE1	23	75649389	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1000361	75649389	79621171	1388	1388											
MAGT1	84061	broad.mit.edu	37	chrX	77112976	77112976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggaaagttgatgaaagttgGagctgaattcatgtttagct	13	13	12	3	0	1	3	1	3	0	0	1	5	1	5	0	2	2	5	0	2	4	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:77112976G>A	uc004fof.2	-	4	567	c.505C>T	c.(505-507)CCA>TCA	p.P169S	MAGT1_uc004fog.3_RNA	NM_032121	NP_115497	Q9H0U3	MAGT1_HUMAN	magnesium transporter 1	137					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				upper_aerodigestive_tract(1)	1						ATGAAAGTTGGAGCTGAATTC	0.378													49	148					0	0	0.00361	0	0		A	77112976	A	A	77112976	3	1	1	1	0	0	0	0	1	0	0	0	9214	1174	41	4	626	4	MAGT1	23	77112976	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1463587	77112976	78157584	1389	1389											
PGK1	5230	broad.mit.edu	37	chrX	77372817	77372817	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctctataggttaaagcCgagccagccaaaatagaagc	14	10	8	9	1	1	1	0	0	1	1	2	2	1	1	3	1	4	1	3	1	8	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:77372817C>T	uc004ecz.3	+	5	598	c.426C>T	c.(424-426)GCC>GCT	p.A142A	PGK1_uc010nlz.2_RNA|PGK1_uc011mqq.1_Silent_p.A114A	NM_000291	NP_000282	P00558	PGK1_HUMAN	phosphoglycerate kinase 1	142					gluconeogenesis|glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			upper_aerodigestive_tract(1)|ovary(1)	2						AGGTTAAAGCCGAGCCAGCCA	0.423													8	85					0	0	0.00308	0	0		T	77372817	T	T	77372817	2	4	1	1	0	0	0	0	0	0	0	1	11809	639	23	1		1	PGK1	23	77372817	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	259841	77372817	77897743	1390	1390											
TBX22	50945	broad.mit.edu	37	chrX	79277874	79277874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcggagcagcctgagctgCgggagaaaaagggcggagag	12	2	20	7	3	0	3	0	1	0	2	0	6	0	4	1	5	4	2	1	5	2	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:79277874C>T	uc010nmg.1	+	2	240	c.106C>T	c.(106-108)CGG>TGG	p.R36W	TBX22_uc004edi.1_5'UTR|TBX22_uc004edj.1_Missense_Mutation_p.R36W	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	36					multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						GCCTGAGCTGCGGGAGAAAAA	0.607													5	23					0	0	0.000602	0	0		T	79277874	T	T	79277874	3	4	1	1	0	0	0	0	1	0	0	0	15683	759	27	1	108	1	TBX22	23	79277874	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1905057	79277874	75992686	1391	1391											
CYLC1	1538	broad.mit.edu	37	chrX	83129420	83129420	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcacatctgcaaattcAaagatggaaggactggaatc	15	8	11	7	0	2	1	1	0	1	1	3	5	2	4	0	4	1	2	0	4	4	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:83129420A>G	uc004eei.1	+	4	1725	c.1704A>G	c.(1702-1704)TCA>TCG	p.S568S	CYLC1_uc004eeh.1_Silent_p.S567S	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	568					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						CTGCAAATTCAAAGATGGAAG	0.373													12	57					0	0	0.001368	0	0		G	83129420	G	G	83129420	2	3	1	1	0	0	0	0	0	0	0	1	4144	117	5	3		3	CYLC1	23	83129420	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	3851546	83129420	72141140	1392	1392											
PCDH11X	27328	broad.mit.edu	37	chrX	91133016	91133016	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtacagtaggactaatcActgtaactgatcctgattat	13	13	8	7	0	1	2	1	2	0	0	2	3	2	3	1	2	2	3	1	2	5	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:91133016A>G	uc004efk.1	+	2	2622	c.1777A>G	c.(1777-1779)ACT>GCT	p.T593A	PCDH11X_uc004efl.1_Missense_Mutation_p.T593A|PCDH11X_uc004efo.1_Missense_Mutation_p.T593A|PCDH11X_uc010nmv.1_Missense_Mutation_p.T593A|PCDH11X_uc004efm.1_Missense_Mutation_p.T593A|PCDH11X_uc004efn.1_Missense_Mutation_p.T593A|PCDH11X_uc004efh.1_Missense_Mutation_p.T593A|PCDH11X_uc004efj.1_Missense_Mutation_p.T593A	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	593	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						AGGACTAATCACTGTAACTGA	0.398													20	163					0	0	0.003954	0	0		G	91133016	G	G	91133016	3	3	1	1	0	0	0	0	1	0	0	0	11527	159	6	3	1783	3	PCDH11X	23	91133016	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	8003596	91133016	64137544	1393	1393											
PCDH11X	27328	broad.mit.edu	37	chrX	91133119	91133119	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaactggtgtcatccgacCaaatatttcatttgatagag	14	12	7	8	1	2	2	2	1	0	1	3	3	3	2	2	1	1	0	2	1	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:91133119C>G	uc004efk.1	+	2	2725	c.1880C>G	c.(1879-1881)CCA>CGA	p.P627R	PCDH11X_uc004efl.1_Missense_Mutation_p.P627R|PCDH11X_uc004efo.1_Missense_Mutation_p.P627R|PCDH11X_uc010nmv.1_Missense_Mutation_p.P627R|PCDH11X_uc004efm.1_Missense_Mutation_p.P627R|PCDH11X_uc004efn.1_Missense_Mutation_p.P627R|PCDH11X_uc004efh.1_Missense_Mutation_p.P627R|PCDH11X_uc004efj.1_Missense_Mutation_p.P627R	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	627	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						GTCATCCGACCAAATATTTCA	0.383													20	92					0	0	0.004289	0	0		G	91133119	G	G	91133119	3	3	1	1	0	0	0	0	1	0	0	0	11527	594	21	5	1886	5	PCDH11X	23	91133119	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	103	91133119	64137441	1394	1394											
PCDH19	57526	broad.mit.edu	37	chrX	99662949	99662949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacggtgcccaggcgcggcGggtcgccaccgtctagcgca	6	4	15	16	7	1	0	0	0	1	0	2	0	1	0	3	4	3	1	3	4	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:99662949G>A	uc010nmz.2	-	1	2323	c.647C>T	c.(646-648)CCG>CTG	p.P216L	PCDH19_uc004efw.3_Missense_Mutation_p.P216L|PCDH19_uc004efx.3_Missense_Mutation_p.P216L	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	216	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CAGGCGCGGCGGGTCGCCACC	0.617													22	104					0	0	0.00278	0	0		A	99662949	A	A	99662949	3	1	1	1	0	0	0	0	1	0	0	0	11533	1116	39	1	2823	1	PCDH19	23	99662949	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	8529830	99662949	55607611	1395	1395											
XKRX	402415	broad.mit.edu	37	chrX	100183185	100183185	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaaggtggagaaaaggaTgctaaatggaaaagtaaatc	21	6	11	3	0	0	1	0	0	0	1	1	4	0	3	0	4	1	2	0	4	10	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:100183185T>C	uc004egn.2	-	1	714	c.109A>G	c.(109-111)ATC>GTC	p.I37V	XKRX_uc011mre.1_5'UTR	NM_212559	NP_997724	Q6PP77	XKR2_HUMAN	XK, Kell blood group complex subunit-related,	37	Helical; (Potential).					integral to membrane|plasma membrane				breast(1)	1						GAGAAAAGGATGCTAAATGGA	0.433													34	237					0	0	0.010818	0	0		C	100183185	C	C	100183185	3	2	1	1	0	0	0	0	1	0	0	0	17465	1464	51	3	1252	3	XKRX	23	100183185	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	520236	100183185	55087375	1396	1396											
TAF7L	54457	broad.mit.edu	37	chrX	100532688	100532688	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctatttccttggttccatcTtcagcaatgacttcccaacc	8	15	4	14	0	3	1	1	1	2	0	6	1	6	1	4	1	2	2	4	1	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:100532688T>C	uc004ehb.2	-	9	867	c.855A>G	c.(853-855)GAA>GAG	p.E285E	TAF7L_uc004eha.2_Silent_p.E199E|TAF7L_uc004ehc.1_Silent_p.E199E	NM_024885	NP_079161	Q5H9L4	TAF7L_HUMAN	TATA box binding protein-associated factor, RNA	285					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription initiation from RNA polymerase II promoter	cytoplasm|transcription factor TFIID complex	binding			breast(1)	1						TGGTTCCATCTTCAGCAATGA	0.473													42	241					0	0	0.006999	0	0		C	100532688	C	C	100532688	2	2	1	1	0	0	0	0	0	0	0	1	15558	1606	56	3		3	TAF7L	23	100532688	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	349503	100532688	54737872	1397	1397											
BHLHB9	80823	broad.mit.edu	37	chrX	102004166	102004166	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcagagcctaagactctGggcaaagccatgggagattt	11	9	12	9	0	2	3	1	0	1	3	2	4	2	3	2	2	2	1	2	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:102004166G>C	uc010nog.2	+	4	814	c.243G>C	c.(241-243)CTG>CTC	p.L81L	BHLHB9_uc011mrq.1_Silent_p.L81L|BHLHB9_uc011mrr.1_Silent_p.L81L|BHLHB9_uc011mrs.1_Silent_p.L81L|BHLHB9_uc011mrt.1_Silent_p.L81L|BHLHB9_uc004ejo.2_Silent_p.L81L|BHLHB9_uc011mru.1_Silent_p.L81L|BHLHB9_uc011mrv.1_Silent_p.L81L	NM_001142526	NP_001135998	Q6PI77	BHLH9_HUMAN	basic helix-loop-helix domain containing, class	81						cytoplasm|nucleus	binding			ovary(2)	2						CTAAGACTCTGGGCAAAGCCA	0.522													21	87					0	0	0.010504	0	0		C	102004166	C	C	102004166	2	2	1	1	0	0	0	0	0	0	0	1	1421	1335	47	5		5	BHLHB9	23	102004166	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1471478	102004166	53266394	1398	1398											
MORF4L2	9643	broad.mit.edu	37	chrX	102931578	102931578	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatggttttaattcttcAggaatcttcactttaacctc	10	16	5	10	0	4	0	2	0	2	0	5	1	4	1	2	2	2	1	2	2	3	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:102931578A>C	uc004ekw.2	-	4	1610	c.378T>G	c.(376-378)CCT>CCG	p.P126P	MORF4L2_uc004ela.2_Silent_p.P126P|MORF4L2_uc004ekx.2_Silent_p.P126P|MORF4L2_uc004elb.2_Silent_p.P126P|MORF4L2_uc004eky.2_Silent_p.P126P|MORF4L2_uc010nos.2_Silent_p.P126P|MORF4L2_uc004ekz.2_Silent_p.P126P|MORF4L2_uc011mry.1_Silent_p.P126P|MORF4L2_uc011mrz.1_Silent_p.P126P|MORF4L2_uc004elc.2_Silent_p.P126P|MORF4L2_uc004elf.2_Silent_p.P126P|MORF4L2_uc004ele.2_Silent_p.P126P|MORF4L2_uc011msa.1_Silent_p.P126P|MORF4L2_uc011msb.1_Silent_p.P126P|MORF4L2_uc011msc.1_Silent_p.P126P|MORF4L2_uc011msd.1_Silent_p.P126P|MORF4L2_uc004eld.2_Silent_p.P126P	NM_012286	NP_036418	Q15014	MO4L2_HUMAN	mortality factor 4 like 2	126					chromatin modification|DNA repair|regulation of cell growth|transcription, DNA-dependent	nucleolus	protein binding				0						TTAATTCTTCAGGAATCTTCA	0.478													41	414					0	0	0.00361	0	0		C	102931578	C	C	102931578	2	2	1	1	0	0	0	0	0	0	0	1	9725	175	7	5		5	MORF4L2	23	102931578	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	927412	102931578	52338982	1399	1399											
TBC1D8B	54885	broad.mit.edu	37	chrX	106070451	106070451	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaatctgtcatcattagcAtcaaaggaaaaacagctttt	16	11	6	8	0	4	0	3	0	1	0	4	1	4	1	0	1	3	3	0	1	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:106070451A>G	uc004emo.2	+	7	1252	c.1087A>G	c.(1087-1089)ATC>GTC	p.I363V	MORC4_uc004emp.3_Intron|TBC1D8B_uc004emm.2_Missense_Mutation_p.I363V|TBC1D8B_uc004emn.2_Missense_Mutation_p.I363V	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	363						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						CATCATTAGCATCAAAGGAAA	0.373													46	361					0	0	0.013114	0	0		G	106070451	G	G	106070451	3	3	1	1	0	0	0	0	1	0	0	0	15651	217	8	3	1113	3	TBC1D8B	23	106070451	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	3138873	106070451	49200109	1400	1400											
IRS4	8471	broad.mit.edu	37	chrX	107977613	107977613	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcaacacaaaaataaagTctgaatcttcccccagactt	15	10	4	12	0	3	2	1	1	2	1	4	2	4	2	2	0	1	0	2	0	6	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:107977613T>C	uc004eoc.2	-	1	1995	c.1962A>G	c.(1960-1962)AGA>AGG	p.R654R		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	654						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						AAAAATAAAGTCTGAATCTTC	0.517													69	530					0	0	0.00361	0	0		C	107977613	C	C	107977613	2	2	1	1	0	0	0	0	0	0	0	1	7858	1664	58	3		3	IRS4	23	107977613	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	1907162	107977613	47292947	1401	1401											
GUCY2F	2986	broad.mit.edu	37	chrX	108631747	108631747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccaattcgaattcggaccGgcacttctggcatgtgccgc	7	9	12	13	4	1	0	0	0	1	0	3	2	1	1	3	4	1	2	3	4	2	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:108631747G>A	uc004eod.3	-	15	3203	c.2927C>T	c.(2926-2928)CCG>CTG	p.P976L	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	976	Guanylate cyclase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						AATTCGGACCGGCACTTCTGG	0.448													70	266					0	0	0.00361	0	0		A	108631747	A	A	108631747	3	1	1	1	0	0	0	0	1	0	0	0	6914	1116	39	1	419	1	GUCY2F	23	108631747	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	654134	108631747	46638813	1402	1402											
PAK3	5063	broad.mit.edu	37	chrX	110406208	110406208	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaagaagatgaagaggaAgaagaagaagaagatgaaaa	25	2	14	0	0	0	11	0	2	0	9	0	13	0	12	0	1	0	0	0	1	11	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:110406208A>G	uc004epa.2	+	6	606	c.579A>G	c.(577-579)GAA>GAG	p.E193E	PAK3_uc010npt.1_Silent_p.E178E|PAK3_uc010npu.1_Silent_p.E178E|PAK3_uc004eoy.1_5'UTR|PAK3_uc004eoz.2_Silent_p.E178E|PAK3_uc011mst.1_RNA|PAK3_uc010npv.1_Silent_p.E214E|PAK3_uc010npw.1_Silent_p.E199E	NM_001128173	NP_001121645	O75914	PAK3_HUMAN	p21-activated kinase 3 isoform d	193	Linker.				multicellular organismal development		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding	p.P193Q(1)		lung(6)|ovary(3)|large_intestine(1)	10						atgaagaggaagaagaagaag	0.328										TSP Lung(19;0.15)			22	167					0	0	0.003954	0	0		G	110406208	G	G	110406208	2	3	1	1	0	0	0	0	0	0	0	1	11421	69	3	3		3	PAK3	23	110406208	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1774461	110406208	44864352	1403	1403											
LHFPL1	340596	broad.mit.edu	37	chrX	111914340	111914340	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgccaccaggagcagcagAgcacagccggcacctgtcac	11	3	12	15	1	1	1	1	0	0	1	1	2	1	2	4	2	5	4	4	2	0	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:111914340A>G	uc004epq.2	-	2	612	c.279T>C	c.(277-279)GCT>GCC	p.A93A	LHFPL1_uc004epp.2_Silent_p.A116A|LHFPL1_uc010nqa.2_Intron|LHFPL1_uc010nqb.2_Silent_p.A93A	NM_178175	NP_835469	Q86WI0	LHPL1_HUMAN	lipoma HMGIC fusion partner-like 1 precursor	93	Helical; (Potential).					integral to membrane					0						GGAGCAGCAGAGCACAGCCGG	0.582													17	100					0	0	0.007413	0	0		G	111914340	G	G	111914340	2	3	1	1	0	0	0	0	0	0	0	1	8780	291	11	3		3	LHFPL1	23	111914340	Silent	SNP	A	TCGA-B7-5816-01A-21D-1600-08	1508132	111914340	43356220	1404	1404											
ZBTB33	10009	broad.mit.edu	37	chrX	119388799	119388799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgtctgacaagcttgcGgagacattttaacattcatt	10	15	8	8	1	3	2	1	1	2	1	3	3	3	2	0	1	3	1	0	1	2	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:119388799G>A	uc004esn.1	+	2	1757	c.1529G>A	c.(1528-1530)CGG>CAG	p.R510Q	ZBTB33_uc010nqm.1_Missense_Mutation_p.R510Q	NM_006777	NP_006768	Q86T24	KAISO_HUMAN	kaiso	510	Interaction with CTNND1 (By similarity).|C2H2-type 1.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleolus|plasma membrane	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						ACAAGCTTGCGGAGACATTTT	0.368													48	210					0	0	0.00361	0	0		A	119388799	A	A	119388799	3	1	1	1	0	0	0	0	1	0	0	0	17561	1116	39	1	1531	1	ZBTB33	23	119388799	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	7474459	119388799	35881761	1405	1405											
GLUD2	2747	broad.mit.edu	37	chrX	120181966	120181966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccagcacagccagcaccGcacgccctgcaagggaggta	10	2	13	16	2	0	0	0	0	0	0	0	1	0	1	4	3	4	5	4	3	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:120181966G>A	uc004eto.2	+	1	505	c.428G>A	c.(427-429)CGC>CAC	p.R143H		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	143					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	AGCCAGCACCGCACGCCCTGC	0.567													8	83					0	0	0.010729	0	0		A	120181966	A	A	120181966	3	1	1	1	0	0	0	0	1	0	0	0	6492	1087	38	1	430	1	GLUD2	23	120181966	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	793167	120181966	35088594	1406	1406											
ODZ1	10178	broad.mit.edu	37	chrX	124029834	124029834	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaagtagtttattaccattTtccccatcagacttcctttc	9	17	3	12	0	2	1	2	0	0	1	5	1	4	1	4	0	1	2	4	0	4	8			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:124029834T>G	uc004euj.2	-	2	538	c.474A>C	c.(472-474)GAA>GAC	p.E158D	ODZ1_uc011muj.1_Missense_Mutation_p.E158D|ODZ1_uc010nqy.2_Missense_Mutation_p.E158D	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	158	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TATTACCATTTTCCCCATCAG	0.403													63	238					0	0	0.00361	0	0		G	124029834	G	G	124029834	3	3	1	1	0	0	0	0	1	0	0	0	10853	1838	64	5	7848	5	ODZ1	23	124029834	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	3847868	124029834	31240726	1407	1407											
XPNPEP2	7512	broad.mit.edu	37	chrX	128879210	128879210	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccaacatgacgagaggcGtgcgtggattacaggcttta	10	8	14	9	4	0	2	0	1	0	1	0	4	0	3	1	4	3	1	1	4	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:128879210G>A	uc004eut.1	+	4	510	c.266G>A	c.(265-267)CGT>CAT	p.R89H	XPNPEP2_uc011mum.1_Missense_Mutation_p.R89H	NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound	89					cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						GACGAGAGGCGTGCGTGGATT	0.498													6	65					0	0	0.001168	0	0		A	128879210	A	A	128879210	3	1	1	1	0	0	0	0	1	0	0	0	17469	1145	40	1	280	1	XPNPEP2	23	128879210	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	4849376	128879210	26391350	1408	1408											
RAB33A	9363	broad.mit.edu	37	chrX	129318542	129318542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgctcttgtttgagacatCggccaaggaccccaaagaga	12	8	10	11	1	1	2	0	1	1	2	2	5	1	3	3	2	1	2	3	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:129318542C>T	uc004evl.2	+	2	806	c.542C>T	c.(541-543)TCG>TTG	p.S181L	RAB33A_uc010nre.2_RNA	NM_004794	NP_004785	Q14088	RB33A_HUMAN	Ras-related protein Rab-33A	181					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding				0						TTTGAGACATCGGCCAAGGAC	0.517													26	137					0	0	0.00333	0	0		T	129318542	T	T	129318542	3	4	1	1	0	0	0	0	1	0	0	0	12947	893	31	1	548	1	RAB33A	23	129318542	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	439332	129318542	25952018	1409	1409											
ZNF280C	55609	broad.mit.edu	37	chrX	129380906	129380906	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcctcatcctgagtttcTtctactttcttctgccatgg	5	18	5	13	0	6	1	2	1	4	0	8	1	8	1	3	1	2	1	3	1	1	5			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:129380906T>G	uc004evm.2	-	3	259	c.105A>C	c.(103-105)GAA>GAC	p.E35D	ZNF280C_uc010nrf.1_Missense_Mutation_p.E35D	NM_017666	NP_060136	Q8ND82	Z280C_HUMAN	zinc finger protein 280C	35					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)	3						CCTGAGTTTCTTCTACTTTCT	0.373													51	397					0	0	0.00361	0	0		G	129380906	G	G	129380906	3	3	1	1	0	0	0	0	1	0	0	0	17841	1606	56	5	2176	5	ZNF280C	23	129380906	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	62364	129380906	25889654	1410	1410											
PHF6	84295	broad.mit.edu	37	chrX	133551319	133551319	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacattgaaaatatgtcaCgaggaatttacaagtaagaa	20	10	7	4	1	1	2	1	1	0	1	1	4	1	3	0	1	2	1	0	1	10	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:133551319C>T	uc004exj.2	+	9	1157	c.955C>T	c.(955-957)CGA>TGA	p.R319*	PHF6_uc004exk.2_Nonsense_Mutation_p.R319*|PHF6_uc011mvk.1_Nonsense_Mutation_p.R285*|PHF6_uc004exi.2_Nonsense_Mutation_p.R320*	NM_001015877	NP_001015877	Q8IWS0	PHF6_HUMAN	PHD finger protein 6 isoform 1	319	PHD-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					AAATATGTCACGAGGAATTTA	0.353													14	122					0	0	0.00245	0	0		T	133551319	T	T	133551319	4	4	1	1	0	0	0	0	0	1	0	0	11857	528	19	1	1090	1	PHF6	23	133551319	Nonsense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	4170413	133551319	21719241	1411	1411											
SAGE1	55511	broad.mit.edu	37	chrX	134989196	134989196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tattaatgtggcaggagctgGtactccagccatcagcacca	11	9	10	11	0	1	0	1	0	0	0	2	1	2	1	3	3	4	4	3	3	3	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:134989196G>A	uc004ezh.2	+	8	1015	c.848G>A	c.(847-849)GGT>GAT	p.G283D	SAGE1_uc010nry.1_Missense_Mutation_p.G252D|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	283										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GCAGGAGCTGGTACTCCAGCC	0.453													5	86					0	0	0.004482	0	0		A	134989196	A	A	134989196	3	1	1	1	0	0	0	0	1	0	0	0	13834	1261	44	4	874	4	SAGE1	23	134989196	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1437877	134989196	20281364	1412	1412											
FHL1	2273	broad.mit.edu	37	chrX	135290003	135290003	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcacaaagactgcttcacCtgtagtaactgcaagcaagt	13	9	9	10	0	1	1	1	0	0	1	1	1	1	1	1	1	4	6	1	1	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:135290003C>A	uc004ezo.2	+	4	484	c.384C>A	c.(382-384)ACC>ACA	p.T128T	FHL1_uc010nrz.2_Silent_p.T128T|FHL1_uc004ezm.2_Intron|FHL1_uc004ezl.2_Silent_p.T128T|FHL1_uc004ezq.2_Silent_p.T128T|FHL1_uc011mvy.1_Silent_p.T128T|FHL1_uc011mvz.1_Silent_p.T128T|FHL1_uc004ezn.2_Silent_p.T128T|FHL1_uc011mwa.1_Silent_p.T157T|FHL1_uc011mwb.1_RNA|FHL1_uc004ezp.2_Silent_p.T144T|FHL1_uc004ezr.2_Translation_Start_Site	NM_001159702	NP_001153174	Q13642	FHL1_HUMAN	four and a half LIM domains 1 isoform 1	128	LIM zinc-binding 2.		T -> TI (in XMPMA).		cell differentiation|cell growth|muscle organ development|organ morphogenesis	cytosol|nucleus|plasma membrane	protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(192;0.000127)					ACTGCTTCACCTGTAGTAACT	0.527													19	113					5.35267e-07	5.81963e-07	0.007413	1	0		A	135290003	A	A	135290003	2	1	1	1	0	0	0	0	0	0	0	1	5892	668	24	5		5	FHL1	23	135290003	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	300807	135290003	19980557	1413	1413											
FGF13	2258	broad.mit.edu	37	chrX	137717647	137717647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttaggcagaaaatgagctGcaggcttgttcttcttcaca	10	13	10	8	0	3	2	1	1	2	1	3	2	3	2	0	2	2	6	0	2	3	6			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:137717647G>A	uc004fam.2	-	4	1234	c.572C>T	c.(571-573)GCA>GTA	p.A191V	FGF13_uc004fan.2_Missense_Mutation_p.A138V|FGF13_uc011mwi.1_Missense_Mutation_p.A172V|FGF13_uc004faq.2_Missense_Mutation_p.A201V|FGF13_uc004far.2_Missense_Mutation_p.A172V|FGF13_uc011mwj.1_Missense_Mutation_p.A201V|FGF13_uc011mwk.1_Missense_Mutation_p.A145V	NM_004114	NP_004105	Q92913	FGF13_HUMAN	fibroblast growth factor 13 isoform 1	191					cell-cell signaling|MAPKKK cascade|nervous system development	cytoplasm|nucleus	growth factor activity|protein kinase activator activity			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AAAATGAGCTGCAGGCTTGTT	0.378													23	290					0	0	0.004878	0	0		A	137717647	A	A	137717647	3	1	1	1	0	0	0	0	1	0	0	0	5856	1319	46	2	173	2	FGF13	23	137717647	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	2427644	137717647	17552913	1414	1414											
CDR1	1038	broad.mit.edu	37	chrX	139866222	139866222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atccgggtcttccaggaaatCcgtgtcttccagcaagtcca	9	10	9	13	2	2	0	0	0	2	0	7	1	7	1	5	2	1	1	5	2	2	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:139866222C>T	uc004fbg.1	-	1	502	c.310G>A	c.(310-312)GAT>AAT	p.D104N	uc004fbf.1_RNA	NM_004065	NP_004056	P51861	CDR1_HUMAN	cerebellar degeneration-related protein 1,	104	17.|23 X 6 AA approximate repeats.										0	Acute lymphoblastic leukemia(192;7.65e-05)	Lung SC(4;0.051)				TCCAGGAAATCCGTGTCTTCC	0.458													50	164					0	0	0.00361	0	0		T	139866222	T	T	139866222	3	4	1	1	0	0	0	0	1	0	0	0	3174	855	30	4	482	4	CDR1	23	139866222	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2148575	139866222	15404338	1415	1415											
MAGEC3	139081	broad.mit.edu	37	chrX	140926121	140926121	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgctgctgccctgccactGggtgttggatgccaccttca	5	11	11	14	0	1	0	1	0	0	0	1	1	1	1	4	2	5	3	4	2	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:140926121G>T	uc011mwp.1	+	1	20	c.20G>T	c.(19-21)TGG>TTG	p.W7L		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	7										skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCCTGCCACTGGGTGTTGGAT	0.408													8	72					2.17888e-05	2.32804e-05	0.006214	1	0		T	140926121	T	T	140926121	3	4	1	1	0	0	0	0	1	0	0	0	9200	1357	47	5	22	5	MAGEC3	23	140926121	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	1059899	140926121	14344439	1416	1416											
MAGEC3	139081	broad.mit.edu	37	chrX	140953268	140953268	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgagtagccccggaaaaaGgccacagataaggactattc	14	6	10	11	1	0	2	0	1	0	1	1	4	0	4	4	3	1	1	4	3	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:140953268G>A	uc011mwp.1	+	2	135	c.135G>A	c.(133-135)AAG>AAA	p.K45K		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	45										skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCCGGAAAAAGGCCACAGATA	0.483													8	112					0	0	0.006214	0	0		A	140953268	A	A	140953268	2	1	1	1	0	0	0	0	0	0	0	1	9200	991	35	4		4	MAGEC3	23	140953268	Silent	SNP	G	TCGA-B7-5816-01A-21D-1600-08	27147	140953268	14317292	1417	1417											
MAGEC1	9947	broad.mit.edu	37	chrX	140993585	140993585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctcctctgcagaatcctgCgagttccttcttctcctctg	4	15	7	15	1	5	1	0	0	5	1	9	2	7	1	4	0	2	2	4	0	1	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:140993585C>T	uc004fbt.2	+	4	681	c.395C>T	c.(394-396)GCG>GTG	p.A132V	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	132							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CAGAATCCTGCGAGTTCCTTC	0.498										HNSCC(15;0.026)			43	181					0	0	0.00874	0	0		T	140993585	T	T	140993585	3	4	1	1	0	0	0	0	1	0	0	0	9198	768	27	1	401	1	MAGEC1	23	140993585	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	40317	140993585	14276975	1418	1418											
MAGEC1	9947	broad.mit.edu	37	chrX	140996354	140996354	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcaggaacattacctagAgtaccgggaggtgcccaact	11	7	13	10	1	0	1	0	0	0	1	0	3	0	3	3	4	6	2	3	4	5	3			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:140996354A>G	uc004fbt.2	+	4	3450	c.3164A>G	c.(3163-3165)GAG>GGG	p.E1055G	MAGEC1_uc010nsl.1_Missense_Mutation_p.E122G	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	1055	MAGE.						protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CATTACCTAGAGTACCGGGAG	0.522										HNSCC(15;0.026)			54	204					0	0	0.00361	0	0		G	140996354	G	G	140996354	3	3	1	1	0	0	0	0	1	0	0	0	9198	304	11	3	3170	3	MAGEC1	23	140996354	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	2769	140996354	14274206	1419	1419											
AFF2	2334	broad.mit.edu	37	chrX	148037708	148037708	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagtctcgggaattcatTgaaacagattcatctacatc	14	11	6	10	1	4	2	2	1	2	1	6	3	4	3	1	1	2	0	1	1	4	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:148037708T>C	uc004fcp.2	+	11	2612	c.2133T>C	c.(2131-2133)ATT>ATC	p.I711I	AFF2_uc004fcq.2_Silent_p.I701I|AFF2_uc004fcr.2_Silent_p.I672I|AFF2_uc011mxb.1_Silent_p.I676I|AFF2_uc004fcs.2_Silent_p.I678I|AFF2_uc011mxc.1_Silent_p.I352I	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	711					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					GGGAATTCATTGAAACAGATT	0.478													27	204					0	0	0.007291	0	0		C	148037708	C	C	148037708	2	2	1	1	0	0	0	0	0	0	0	1	357	1800	63	3		3	AFF2	23	148037708	Silent	SNP	T	TCGA-B7-5816-01A-21D-1600-08	7041354	148037708	7232852	1420	1420											
MAGEA11	4110	broad.mit.edu	37	chrX	148797293	148797293	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaggccaacctggaggaCaggagtcccaggagaaccca	14	2	13	12	0	0	1	0	0	0	1	1	6	1	4	4	5	3	0	4	5	3	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:148797293C>T	uc004fdq.2	+	4	324	c.222C>T	c.(220-222)GAC>GAT	p.D74D	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Silent_p.D45D	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	74						cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					ACCTGGAGGACAGGAGTCCCA	0.498													24	226					0	0	0.00278	0	0		T	148797293	T	T	148797293	2	4	1	1	0	0	0	0	0	0	0	1	9183	477	17	4		4	MAGEA11	23	148797293	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	759585	148797293	6473267	1421	1421											
GABRE	2564	broad.mit.edu	37	chrX	151138713	151138713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggatagtgttcaggatgCgagaggcttctggcagtttg	8	12	15	6	1	3	1	2	0	1	1	3	4	3	3	0	4	1	4	0	4	1	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:151138713C>T	uc004ffi.2	-	2	272	c.218G>A	c.(217-219)CGC>CAC	p.R73H	GABRE_uc011myd.1_RNA|GABRE_uc011mye.1_RNA	NM_004961	NP_004952	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor,	73	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GTTCAGGATGCGAGAGGCTTC	0.547													26	231					0	0	0.004289	0	0		T	151138713	T	T	151138713	3	4	1	1	0	0	0	0	1	0	0	0	6184	768	27	1	1334	1	GABRE	23	151138713	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	2341420	151138713	4131847	1422	1422											
HAUS7	55559	broad.mit.edu	37	chrX	152722663	152722663	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactggtccatgaagtgtagCtgcttctgggcgcaggcaca	9	9	13	10	1	1	1	0	1	1	0	2	1	2	1	1	3	3	5	1	3	3	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:152722663C>T	uc004fho.1	-	5	966	c.408G>A	c.(406-408)CAG>CAA	p.Q136Q	HAUS7_uc004fhl.2_RNA|HAUS7_uc004fhm.2_RNA|HAUS7_uc004fhn.1_Silent_p.Q136Q|HAUS7_uc004fhp.1_RNA|HAUS7_uc011myq.1_RNA	NM_017518	NP_059988	Q99871	HAUS7_HUMAN	HAUS augmin-like complex subunit 7	136					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleolus|plasma membrane|spindle	thioesterase binding				0						TGAAGTGTAGCTGCTTCTGGG	0.602													4	37					0	0	0.001168	0	0		T	152722663	T	T	152722663	2	4	1	1	0	0	0	0	0	0	0	1	6987	796	28	2		2	HAUS7	23	152722663	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	1583950	152722663	2547897	1423	1423											
DUSP9	1852	broad.mit.edu	37	chrX	152915490	152915490	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cactgcttggcgggggtcagCcgttctgtcaccgtcactgt	4	11	13	13	3	4	0	3	0	1	0	4	0	4	0	2	3	2	2	2	3	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:152915490C>T	uc004fhx.3	+	4	1089	c.885C>T	c.(883-885)AGC>AGT	p.S295S	DUSP9_uc004fhy.3_Silent_p.S295S	NM_001395	NP_001386	Q99956	DUS9_HUMAN	dual specificity phosphatase 9	295	Tyrosine-protein phosphatase.				inactivation of MAPK activity|JNK cascade	cytosol|endoplasmic reticulum|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)	2	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CGGGGGTCAGCCGTTCTGTCA	0.607													30	261					0	0	0.002836	0	0		T	152915490	T	T	152915490	2	4	1	1	0	0	0	0	0	0	0	1	4838	738	26	2		2	DUSP9	23	152915490	Silent	SNP	C	TCGA-B7-5816-01A-21D-1600-08	192827	152915490	2355070	1424	1424											
PDZD4	57595	broad.mit.edu	37	chrX	153068923	153068923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccaggatcttcttgttcCgcttcttcatggttttgcgg	3	18	10	10	2	4	0	1	0	3	0	6	1	6	1	2	3	1	3	2	3	0	7			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:153068923C>T	uc004fiz.1	-	8	2445	c.2195G>A	c.(2194-2196)CGG>CAG	p.R732Q	PDZD4_uc004fiy.1_Missense_Mutation_p.R657Q|PDZD4_uc004fix.2_Missense_Mutation_p.R636Q|PDZD4_uc004fja.1_Missense_Mutation_p.R738Q|PDZD4_uc011mze.1_Missense_Mutation_p.R623Q	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	732						cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTTCTTGTTCCGCTTCTTCAT	0.602													15	45					0	0	0.006122	0	0		T	153068923	T	T	153068923	3	4	1	1	0	0	0	0	1	0	0	0	11722	652	23	1	118	1	PDZD4	23	153068923	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	153433	153068923	2201637	1425	1425											
TKTL1	8277	broad.mit.edu	37	chrX	153537725	153537725	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtttgtggatgtggcaacagGatggctcggacaaggactgg	9	9	17	6	1	0	0	0	0	0	0	1	4	0	4	0	7	1	3	0	7	2	1			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:153537725G>A	uc004fkg.2	+	3	467	c.281G>A	c.(280-282)GGA>GAA	p.G94E	TKTL1_uc011mzl.1_Missense_Mutation_p.G88E|TKTL1_uc011mzm.1_Intron|TKTL1_uc004fkh.2_Missense_Mutation_p.G38E	NM_012253	NP_036385	P51854	TKTL1_HUMAN	transketolase-like 1 isoform a	94					glucose catabolic process|thiamine metabolic process	cytoplasm|nucleus	metal ion binding|transketolase activity			ovary(3)|skin(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.82e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GTGGCAACAGGATGGCTCGGA	0.542													25	377					0	0	0.012213	0	0		A	153537725	A	A	153537725	3	1	1	1	0	0	0	0	1	0	0	0	15960	1174	41	4	291	4	TKTL1	23	153537725	Missense_Mutation	SNP	G	TCGA-B7-5816-01A-21D-1600-08	468802	153537725	1732835	1426	1426											
FLNA	2316	broad.mit.edu	37	chrX	153592920	153592920	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtggaagtcctggggcgCgtcacggatgtcagccatga	7	8	17	9	3	2	1	2	1	0	0	3	3	3	3	2	5	1	0	2	5	1	0			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:153592920C>A	uc004fkk.2	-	13	2245	c.1996G>T	c.(1996-1998)GCG>TCG	p.A666S	FLNA_uc010nuu.1_Missense_Mutation_p.A666S	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	666					actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding	p.A666A(1)		breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TCCTGGGGCGCGTCACGGATG	0.627													4	66					0.00909568	0.00931889	0.009096	1	0		A	153592920	A	A	153592920	3	1	1	1	0	0	0	0	1	0	0	0	5947	768	27	5	6091	5	FLNA	23	153592920	Missense_Mutation	SNP	C	TCGA-B7-5816-01A-21D-1600-08	55195	153592920	1677640	1427	1427											
ATP6AP1	537	broad.mit.edu	37	chrX	153664118	153664118	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctggatggggctgctcAcctccctgttcatgctcttc	4	13	10	14	0	4	0	2	0	2	0	6	1	5	1	2	3	2	5	2	3	0	2			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:153664118A>G	uc004flf.1	+	10	1355	c.1294A>G	c.(1294-1296)ACC>GCC	p.T432A	ATP6AP1_uc004flg.1_RNA|ATP6AP1_uc004flh.1_Missense_Mutation_p.T392A|GDI1_uc011mzo.1_5'Flank|GDI1_uc004fli.3_5'Flank	NM_001183	NP_001174	Q15904	VAS1_HUMAN	ATPase, H+ transporting, lysosomal accessory	432	Helical; (Potential).				ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain|vacuolar membrane	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(3)|breast(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGGGCTGCTCACCTCCCTGTT	0.557													40	350					0	0	0.009718	0	0		G	153664118	G	G	153664118	3	3	1	1	0	0	0	0	1	0	0	0	1166	159	6	3	1332	3	ATP6AP1	23	153664118	Missense_Mutation	SNP	A	TCGA-B7-5816-01A-21D-1600-08	71198	153664118	1606442	1428	1428											
FUNDC2	65991	broad.mit.edu	37	chrX	154279963	154279963	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttgcaaaccatactgggTacatcaaagttgactggcaa	14	9	9	9	0	1	1	1	1	0	0	1	1	1	1	1	2	5	5	1	2	5	4			TCGA-B7-5816-01A-21D-1600-08	TCGA-B7-5816-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f844b521-1ff0-4e58-9d70-9f7dc0ed0ee7	a2c1f792-39dd-4c35-8868-4be46623e3f0	g.chrX:154279963T>C	uc004fmw.2	+	4	529	c.379T>C	c.(379-381)TAC>CAC	p.Y127H		NM_023934	NP_076423	Q9BWH2	FUND2_HUMAN	FUN14 domain containing 2	127						mitochondrion					0	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CCATACTGGGTACATCAAAGT	0.403													7	79					0	0	0.00308	0	0		C	154279963	C	C	154279963	3	2	1	1	0	0	0	0	1	0	0	0	6112	1638	57	3	393	3	FUNDC2	23	154279963	Missense_Mutation	SNP	T	TCGA-B7-5816-01A-21D-1600-08	615845	154279963	990597	1429	1429											
ZBTB48	3104	broad.mit.edu	37	chr1	6646027	6646027	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcccaaatgtgggaagtgTtactttcggaaggagaacct	11	11	12	7	1	0	1	0	0	0	1	2	4	1	3	2	3	2	1	2	3	5	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:6646027T>C	uc009vmc.1	+	4	1104	c.981T>C	c.(979-981)TGT>TGC	p.C327C	ZBTB48_uc001anx.2_Silent_p.C327C|ZBTB48_uc009vmd.1_Silent_p.C327C|ZBTB48_uc001any.1_5'UTR	NM_005341	NP_005332	P10074	ZBT48_HUMAN	zinc finger and BTB domain containing 48	327	C2H2-type 2; degenerate.					cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.35e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00109)|STAD - Stomach adenocarcinoma(132;0.017)|READ - Rectum adenocarcinoma(331;0.0642)		GTGGGAAGTGTTACTTTCGGA	0.572													32	95					0	0	0.013726	0	0		C	6646027	C	C	6646027	2	2	2	1	0	0	0	0	0	0	0	1	17574	1731	60	3		3	ZBTB48	1	6646027	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08		6646027	242604594	1	1430											
VPS13D	55187	broad.mit.edu	37	chr1	12336395	12336395	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactcagattaaagaaaagaTttttccccaggaggagcagc	15	8	9	9	0	1	3	1	0	0	3	2	5	2	5	2	2	2	1	2	2	4	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:12336395T>G	uc001atv.2	+	19	2891	c.2750T>G	c.(2749-2751)ATT>AGT	p.I917S	VPS13D_uc001atw.2_Missense_Mutation_p.I917S|VPS13D_uc001atx.2_Missense_Mutation_p.I105S	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	917					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AAAGAAAAGATTTTTCCCCAG	0.433											OREG0013110	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	54					0	0	0.012213	0	0		G	12336395	G	G	12336395	3	3	2	1	0	0	0	0	1	0	0	0	17218	1493	52	5	2820	5	VPS13D	1	12336395	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	5690368	12336395	236914226	2	1431											
NBPF1	55672	broad.mit.edu	37	chr1	16902774	16902774	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccttacctgggctgagctTttggacaaggtgctgtgcca	7	11	12	11	0	0	1	0	1	0	0	0	2	0	2	3	3	4	3	3	3	2	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:16902774T>G	uc009vos.1	-	19	2995	c.2107A>C	c.(2107-2109)AAG>CAG	p.K703Q	NBPF1_uc009vot.1_Intron|NBPF1_uc001ayz.1_Missense_Mutation_p.K161Q|NBPF1_uc010oce.1_Missense_Mutation_p.K432Q	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	703						cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		GGGCTGAGCTTTTGGACAAGG	0.562													17	469					0	0	0.030593	0	0		G	16902774	G	G	16902774	3	3	2	1	0	0	0	0	1	0	0	0	10210	1850	64	5	1361	5	NBPF1	1	16902774	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	4566379	16902774	232347847	3	1432											
KIF17	57576	broad.mit.edu	37	chr1	21031296	21031296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggtggcctccttgagcCgctcgcccgtggccccggtc	1	10	13	17	4	1	1	0	1	1	0	4	1	2	1	6	4	1	1	6	4	0	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:21031296C>T	uc001bdr.3	-	5	885	c.767G>A	c.(766-768)CGG>CAG	p.R256Q	KIF17_uc001bds.3_Missense_Mutation_p.R256Q	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	256	Kinesin-motor.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		CTCCTTGAGCCGCTCGCCCGT	0.682													54	17					0	0	0.01441	0	0		T	21031296	T	T	21031296	3	4	2	1	0	0	0	0	1	0	0	0	8295	652	23	1	2366	1	KIF17	1	21031296	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4128522	21031296	228219325	4	1433											
EIF4G3	8672	broad.mit.edu	37	chr1	21177780	21177780	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttttatttcgctcagccTcagtgctgttcctctccaca	5	17	6	13	1	3	0	2	0	1	0	6	0	4	0	3	0	2	4	3	0	1	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:21177780T>G	uc001bec.2	-	23	3831	c.3575A>C	c.(3574-3576)GAG>GCG	p.E1192A	EIF4G3_uc010odi.1_Missense_Mutation_p.E796A|EIF4G3_uc010odj.1_Missense_Mutation_p.E1191A|EIF4G3_uc009vpz.2_Missense_Mutation_p.E912A|EIF4G3_uc001bed.2_Missense_Mutation_p.E1192A|EIF4G3_uc001bef.2_Missense_Mutation_p.E1228A|EIF4G3_uc001bee.2_Missense_Mutation_p.E1198A	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	1192					interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		TCGCTCAGCCTCAGTGCTGTT	0.463													85	174					0	0	0.01441	0	0		G	21177780	G	G	21177780	3	3	2	1	0	0	0	0	1	0	0	0	5046	1551	54	5	1222	5	EIF4G3	1	21177780	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	146484	21177780	228072841	5	1434											
FHL3	2275	broad.mit.edu	37	chr1	38465047	38465047	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtacttgcgtccatacaggGactcgttgcattttgcacag	8	13	10	10	2	0	0	0	0	0	0	2	1	1	1	1	1	5	4	1	1	2	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:38465047G>A	uc001ccj.2	-	2	125	c.38C>T	c.(37-39)TCC>TTC	p.S13F	FHL3_uc001cck.2_Missense_Mutation_p.S13F|FHL3_uc001ccl.2_Missense_Mutation_p.S13F|FHL3_uc001ccm.2_Intron|FHL3_uc009vvl.1_Missense_Mutation_p.S13F	NM_004468	NP_004459	Q13643	FHL3_HUMAN	four and a half LIM domains 3	13	C4-type (Potential).				muscle organ development		zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TCCATACAGGGACTCGTTGCA	0.542													39	15					0	0	0.021022	0	0		A	38465047	A	A	38465047	3	1	2	1	0	0	0	0	1	0	0	0	5894	1174	41	4	824	4	FHL3	1	38465047	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	17287267	38465047	210785574	6	1435											
ROR1	4919	broad.mit.edu	37	chr1	64608163	64608163	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatcagggcgccagtgccAgccatggaattcccagtatc	11	7	10	13	1	1	0	1	0	0	0	3	1	2	1	4	2	2	1	4	2	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:64608163A>G	uc001dbj.2	+	7	1403	c.1004A>G	c.(1003-1005)CAG>CGG	p.Q335R	ROR1_uc001dbi.3_Missense_Mutation_p.Q335R|uc001dbl.2_Intron	NM_005012	NP_005003	Q01973	ROR1_HUMAN	receptor tyrosine kinase-like orphan receptor 1	335	Kringle.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19						CGCCAGTGCCAGCCATGGAAT	0.527													43	64					0	0	0.033182	0	0		G	64608163	G	G	64608163	3	3	2	1	0	0	0	0	1	0	0	0	13551	188	7	3	1030	3	ROR1	1	64608163	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	26143116	64608163	184642458	7	1436											
DIRAS3	9077	broad.mit.edu	37	chr1	68512316	68512316	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattatgcacttgtcaagcAgcttctcagtggtgttgggc	7	14	12	8	0	2	1	2	1	1	0	3	1	2	1	0	2	3	4	0	2	2	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:68512316A>T	uc001ded.2	-	2	960	c.665T>A	c.(664-666)CTG>CAG	p.L222Q	uc001deb.1_Intron|uc001dec.1_Intron	NM_004675	NP_004666	O95661	DIRA3_HUMAN	DIRAS family, GTP-binding RAS-like 3	222					regulation of cyclin-dependent protein kinase activity|regulation of gene expression by genetic imprinting|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						CTTGTCAAGCAGCTTCTCAGT	0.502													72	155					0	0	0.01441	0	0		T	68512316	T	T	68512316	3	4	2	1	0	0	0	0	1	0	0	0	4538	188	7	5	28	5	DIRAS3	1	68512316	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	3904153	68512316	180738305	8	1437											
WDR63	126820	broad.mit.edu	37	chr1	85564286	85564286	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcagtctcttcaatagAaaatggacataagaaagtaa	17	10	8	6	0	2	2	1	0	1	2	3	3	2	3	0	1	1	2	0	1	7	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:85564286A>G	uc001dkt.2	+	13	1615	c.1424A>G	c.(1423-1425)GAA>GGA	p.E475G	WDR63_uc009wcl.2_Missense_Mutation_p.E436G	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	475										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		TCTTCAATAGAAAATGGACAT	0.348													6	258					0	0	0.021553	0	0		G	85564286	G	G	85564286	3	3	2	1	0	0	0	0	1	0	0	0	17340	246	9	3	1470	3	WDR63	1	85564286	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	17051970	85564286	163686335	9	1438											
SYDE2	84144	broad.mit.edu	37	chr1	85630437	85630437	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccaacaacatctttagggTtgcctaaattaaattaaatt	16	14	4	7	0	1	0	0	0	1	0	2	0	2	0	2	1	3	1	2	1	9	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:85630437T>A	uc009wcm.2	-	6	2906	c.2857A>T	c.(2857-2859)ACC>TCC	p.T953S		NM_032184	NP_115560	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2	953	Rho-GAP.				activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|central_nervous_system(1)	2				all cancers(265;0.0126)|Epithelial(280;0.0336)		ATCTTTAGGGTTGCCtaaatt	0.328													2	2					0	0	0.004672	0	0		A	85630437	A	A	85630437	3	1	2	1	0	0	0	0	1	0	0	0	15461	1725	60	5	735	5	SYDE2	1	85630437	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	66151	85630437	163620184	10	1439											
COL24A1	255631	broad.mit.edu	37	chr1	86252065	86252065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgaattcctgggcttcctGgcaagcctgatgaacccttt	7	13	9	12	0	0	3	0	3	0	0	2	3	2	3	4	2	2	2	4	2	3	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:86252065G>A	uc001dlj.2	-	48	4073	c.4031C>T	c.(4030-4032)CCA>CTA	p.P1344L	COL24A1_uc001dli.2_Missense_Mutation_p.P480L|COL24A1_uc010osd.1_Missense_Mutation_p.P644L|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	1344	Collagen-like 15.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		TGGGCTTCCTGGCAAGCCTGA	0.493													45	123					0	0	0.013114	0	0		A	86252065	A	A	86252065	3	1	2	1	0	0	0	0	1	0	0	0	3686	1348	47	4	1165	4	COL24A1	1	86252065	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	621628	86252065	162998556	11	1440											
LRRC8C	84230	broad.mit.edu	37	chr1	90179007	90179007	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtccagtttacagtggactGtaatgtggacattcaggaca	11	11	12	7	0	1	0	1	0	0	0	2	3	2	3	1	4	1	2	1	4	2	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:90179007G>T	uc001dnl.3	+	3	1120	c.878G>T	c.(877-879)TGT>TTT	p.C293F		NM_032270	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member	293						endoplasmic reticulum membrane|integral to membrane				ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		ACAGTGGACTGTAATGTGGAC	0.383													201	103					5.85473e-103	6.21996e-103	0.01441	1	0		T	90179007	T	T	90179007	3	4	2	1	0	0	0	0	1	0	0	0	9041	1377	48	5	884	5	LRRC8C	1	90179007	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	3926942	90179007	159071614	12	1441											
COL11A1	1301	broad.mit.edu	37	chr1	103471441	103471441	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggaagtccatcaaaccctcGatctccctgtaaaaccatca	13	8	5	15	2	3	0	2	0	1	0	6	2	4	1	4	1	2	1	4	1	4	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:103471441G>A	uc001dul.2	-	18	2116	c.1798C>T	c.(1798-1800)CGA>TGA	p.R600*	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Nonsense_Mutation_p.R612*|COL11A1_uc001dun.2_Nonsense_Mutation_p.R561*|COL11A1_uc009weh.2_Nonsense_Mutation_p.R484*	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	600	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TCAAACCCTCGATCTCCCTGT	0.318													48	127					0	0	0.01441	0	0		A	103471441	A	A	103471441	4	1	2	1	0	0	0	0	0	1	0	0	3670	1066	37	1	3822	1	COL11A1	1	103471441	Nonsense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	13292434	103471441	145779180	13	1442											
AKNAD1	254268	broad.mit.edu	37	chr1	109395176	109395176	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagacttcaaggccatccttTtttgaggtaaaactgtaatc	13	13	7	8	0	1	2	1	1	0	1	3	2	2	2	2	2	1	2	2	2	5	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:109395176T>G	uc001dwa.2	-	2	380	c.111A>C	c.(109-111)AAA>AAC	p.K37N	AKNAD1_uc010ovb.1_Intron|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	37										ovary(3)	3						GGCCATCCTTTTTTGAGGTAA	0.393													65	156					0	0	0.01441	0	0		G	109395176	G	G	109395176	3	3	2	1	0	0	0	0	1	0	0	0	464	1838	64	5	2459	5	AKNAD1	1	109395176	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	5923735	109395176	139855445	14	1443											
GSTM2	2946	broad.mit.edu	37	chr1	110211094	110211094	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatacacagactcaagctaCgaggaaaagaagtacacgat	19	5	9	8	2	1	2	1	0	0	2	1	6	1	3	0	1	4	2	0	1	8	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:110211094C>T	uc001dyi.2	+	2	398	c.84C>T	c.(82-84)TAC>TAT	p.Y28Y	GSTM2_uc001dyj.2_Silent_p.Y28Y|GSTM2_uc010ovt.1_Silent_p.Y28Y|GSTM2_uc009wfk.2_RNA	NM_000848	NP_000839	P28161	GSTM2_HUMAN	glutathione S-transferase mu 2 isoform 1	28	GST N-terminal.				glutathione metabolic process|xenobiotic catabolic process	cytoplasm	glutathione transferase activity				0		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		all cancers(265;0.0122)|Colorectal(144;0.0129)|Epithelial(280;0.0146)|Lung(183;0.0422)|COAD - Colon adenocarcinoma(174;0.047)|LUSC - Lung squamous cell carcinoma(189;0.227)	Glutathione(DB00143)	ACTCAAGCTACGAGGAAAAGA	0.587													48	91					0	0	0.01441	0	0		T	110211094	T	T	110211094	2	4	2	1	0	0	0	0	0	0	0	1	6854	547	19	1		1	GSTM2	1	110211094	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	815918	110211094	139039527	15	1444											
CSDE1	7812	broad.mit.edu	37	chr1	115268968	115268968	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgcacacaagttgcaacctGctgtccaggcctctgtttgt	7	12	9	13	1	1	0	0	0	1	0	3	0	2	0	3	1	3	5	3	1	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:115268968G>A	uc001efk.2	-	14	1970	c.1504C>T	c.(1504-1506)CAG>TAG	p.Q502*	CSDE1_uc001efi.2_Nonsense_Mutation_p.Q548*|CSDE1_uc001efj.2_RNA|CSDE1_uc001efl.2_Nonsense_Mutation_p.Q471*|CSDE1_uc001efm.2_Nonsense_Mutation_p.Q517*|CSDE1_uc009wgv.2_Nonsense_Mutation_p.Q502*|CSDE1_uc001efn.2_Nonsense_Mutation_p.Q471*	NM_001007553	NP_001007554	O75534	CSDE1_HUMAN	upstream of NRAS isoform 1	502	CSD 6.				male gonad development|regulation of transcription, DNA-dependent	cytoplasm	DNA binding|protein binding|RNA binding			ovary(1)	1	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;2.21e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTTGCAACCTGCTGTCCAGGC	0.398													45	81					0	0	0.01441	0	0		A	115268968	A	A	115268968	4	1	2	1	0	0	0	0	0	1	0	0	3932	1328	46	2	920	2	CSDE1	1	115268968	Nonsense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	5057874	115268968	133981653	16	1445											
HSD3B2	3284	broad.mit.edu	37	chr1	119985586	119985586	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagcctgccaggacgtgtcGgtcgtcatccacaccgcctg	7	7	12	15	4	1	1	1	0	0	1	4	2	2	2	5	2	2	0	5	2	0	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:119985586G>A	uc001ehu.2	+	4	535	c.393G>A	c.(391-393)TCG>TCA	p.S131S				P26439	3BHS2_HUMAN	RecName: Full=3 beta-hydroxysteroid dehydrogenase/Delta 5-->4-isomerase type 2; AltName: Full=3-beta-HSD II; Includes:   RecName: Full=3-beta-hydroxy-Delta(5)-steroid dehydrogenase;            EC=1.1.1.145;   AltName: Full=3-beta-hydroxy-5-ene steroid dehydrogenase;   AltName: Full=Progesterone reductase; Includes:   RecName: Full=Steroid Delta-isomerase;            EC=5.3.3.1;   AltName: Full=Delta-5-3-ketosteroid isomerase;	Error:Variant_position_missing_in_P26439_after_alignment					androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)	AGGACGTGTCGGTCGTCATCC	0.517													13	13					0	0	0.007413	0	0		A	119985586	A	A	119985586	2	1	2	1	0	0	0	0	0	0	0	1	7407	1131	39	1		1	HSD3B2	1	119985586	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	4716618	119985586	129265035	17	1446											
PDE4DIP	9659	broad.mit.edu	37	chr1	144879446	144879446	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcttcctgcttccctagcTggttctccaagggcttcctc	4	14	7	16	0	2	0	0	0	2	0	7	0	5	0	4	2	2	4	4	2	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:144879446T>G	uc001elw.3	-	27	4295	c.4004A>C	c.(4003-4005)CAG>CCG	p.Q1335P	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.Q1291P|PDE4DIP_uc001elv.3_Missense_Mutation_p.Q342P	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1335					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CTTCCCTAGCTGGTTCTCCAA	0.542			T	PDGFRB	MPD								50	351					0	0	0.01441	0	0		G	144879446	G	G	144879446	3	3	2	1	0	0	0	0	1	0	0	0	11662	1580	55	5	3108	5	PDE4DIP	1	144879446	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	24893860	144879446	104371175	18	1447											
ANKRD35	148741	broad.mit.edu	37	chr1	145562407	145562407	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcctggcctcccagagcAgcggtctccgagggctgtgg	5	7	15	14	2	1	1	0	0	1	1	4	2	3	1	4	4	3	3	4	4	0	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:145562407A>G	uc001eob.1	+	10	2203	c.2095A>G	c.(2095-2097)AGC>GGC	p.S699G	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Missense_Mutation_p.S542G	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	699										ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CTCCCAGAGCAGCGGTCTCCG	0.637													16	26					0	0	0.010504	0	0		G	145562407	G	G	145562407	3	3	2	1	0	0	0	0	1	0	0	0	664	188	7	3	2133	3	ANKRD35	1	145562407	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	682961	145562407	103688214	19	1448											
FMO5	2330	broad.mit.edu	37	chr1	146684985	146684985	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattcagtgaccacttccCattggcctgaagtggcaaaa	12	9	9	11	0	1	3	1	2	0	1	2	3	2	3	3	2	0	1	3	2	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:146684985C>T	uc001epi.2	-	4	766	c.377G>A	c.(376-378)TGG>TAG	p.W126*	FMO5_uc001eph.3_Nonsense_Mutation_p.W126*|FMO5_uc001epj.2_Nonsense_Mutation_p.W126*|FMO5_uc001epk.3_Nonsense_Mutation_p.W126*	NM_001461	NP_001452	P49326	FMO5_HUMAN	flavin containing monooxygenase 5 isoform 1	126						integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			ovary(3)	3	all_hematologic(923;0.0487)					GACCACTTCCCATTGGCCTGA	0.473													128	304					0	0	0.01441	0	0		T	146684985	T	T	146684985	4	4	2	1	0	0	0	0	0	1	0	0	5972	595	21	4	1391	4	FMO5	1	146684985	Nonsense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1122578	146684985	102565636	20	1449											
HORMAD1	84072	broad.mit.edu	37	chr1	150686581	150686581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atattttttctgtaaagcatCataacatcctagcatcctaa	14	15	3	9	0	2	0	1	0	1	0	4	0	4	0	2	0	3	3	2	0	6	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:150686581C>T	uc001evk.1	-	5	365	c.259G>A	c.(259-261)GAT>AAT	p.D87N	HORMAD1_uc001evl.1_Missense_Mutation_p.D87N|HORMAD1_uc001evm.1_Missense_Mutation_p.D16N	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	87	HORMA.				blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			TGTAAAGCATCATAACATCCT	0.254													24	105					0	0	0.021523	0	0		T	150686581	T	T	150686581	3	4	2	1	0	0	0	0	1	0	0	0	7302	826	29	4	969	4	HORMAD1	1	150686581	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4001596	150686581	98564040	21	1450											
MLLT11	10962	broad.mit.edu	37	chr1	151039727	151039727	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaccctgtgagtagccagtaCagttcctttcttttctggag	7	14	10	10	0	2	1	0	1	2	0	3	3	3	2	3	1	2	3	3	1	2	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:151039727C>T	uc001ewq.2	+	2	912	c.27C>T	c.(25-27)TAC>TAT	p.Y9Y		NM_006818	NP_006809	Q13015	AF1Q_HUMAN	MLLT11 protein	9					positive regulation of apoptosis|positive regulation of mitochondrial depolarization|positive regulation of release of cytochrome c from mitochondria|positive regulation of transcription, DNA-dependent						0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GTAGCCAGTACAGTTCCTTTC	0.507													5	147					0	0	0.021553	0	0		T	151039727	T	T	151039727	2	4	2	1	0	0	0	0	0	0	0	1	9645	489	17	4		4	MLLT11	1	151039727	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	353146	151039727	98210894	22	1451											
TCHH	7062	broad.mit.edu	37	chr1	152085274	152085274	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctctcctgttcctgcctcTtctgcctgcgtcgttgccca	1	14	7	19	2	3	0	0	0	3	0	6	0	4	0	6	0	4	2	6	0	0	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:152085274T>G	uc001ezp.2	-	2	419	c.419A>C	c.(418-420)AAG>ACG	p.K140T	TCHH_uc009wne.1_Missense_Mutation_p.K140T	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	140					keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCCTGCCTCTTCTGCCTGCG	0.577													120	231					0	0	0.01441	0	0		G	152085274	G	G	152085274	3	3	2	1	0	0	0	0	1	0	0	0	15725	1609	56	5	5416	5	TCHH	1	152085274	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	1045547	152085274	97165347	23	1452											
FLG2	388698	broad.mit.edu	37	chr1	152331335	152331335	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaacatcaattacggtgAcaacacttctcaagaggtcg	16	8	8	9	2	2	3	2	1	1	2	4	3	2	3	0	2	3	0	0	2	6	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:152331335A>G	uc001ezw.3	-	2	99	c.26T>C	c.(25-27)GTC>GCC	p.V9A	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	9	S-100-like (By similarity).|EF-hand 1.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AATTACGGTGACAACACTTCT	0.403													3	156					0	0	0.004672	0	0		G	152331335	G	G	152331335	3	3	2	1	0	0	0	0	1	0	0	0	5937	275	10	3	7157	3	FLG2	1	152331335	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	246061	152331335	96919286	24	1453											
RUSC1	23623	broad.mit.edu	37	chr1	155297950	155297950	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttcttttaggagaccatcTagctggctgcccccgacagt	7	11	9	14	1	2	1	0	0	2	1	2	3	2	1	4	2	2	2	4	2	2	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:155297950T>C	uc001fkj.2	+	9	2653	c.2424T>C	c.(2422-2424)TCT>TCC	p.S808S	RAG1AP1_uc010pey.1_Intron|RUSC1_uc001fkk.2_Silent_p.S702S|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_Silent_p.S339S|RUSC1_uc001fkl.2_Silent_p.S398S|RUSC1_uc001fkp.2_Silent_p.S339S|RUSC1_uc001fkq.2_Silent_p.S233S|RUSC1_uc010pgb.1_Silent_p.S306S|RUSC1_uc009wqp.1_Silent_p.S333S|RUSC1_uc001fkn.2_Silent_p.S117S|RUSC1_uc001fko.2_RNA|RUSC1_uc001fkr.2_Silent_p.S339S|RUSC1_uc001fks.2_Intron	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	808						cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			GGAGACCATCTAGCTGGCTGC	0.592													135	254					0	0	0.01441	0	0		C	155297950	C	C	155297950	2	2	2	1	0	0	0	0	0	0	0	1	13775	1509	53	3		3	RUSC1	1	155297950	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2966615	155297950	93952671	25	1454											
FCRL4	83417	broad.mit.edu	37	chr1	157545319	157545319	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taacttttcattctcttaacTttcttcatccttagagctga	9	19	3	10	0	4	2	2	1	2	1	6	2	5	2	1	0	3	1	1	0	3	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:157545319T>C	uc001fqw.2	-	12	1679	c.1543A>G	c.(1543-1545)AGT>GGT	p.S515G	FCRL4_uc010phy.1_RNA	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	515	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				TTCTCTTAACTTTCTTCATCC	0.458													26	56					0	0	0.027356	0	0		C	157545319	C	C	157545319	3	2	2	1	0	0	0	0	1	0	0	0	5811	1609	56	3	8	3	FCRL4	1	157545319	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2247369	157545319	91705302	26	1455											
IFI16	3428	broad.mit.edu	37	chr1	159021773	159021773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctgatgtgaatgctgaccGaaacatggagatcccaaaag	14	7	12	8	1	0	4	0	3	0	1	1	6	1	4	2	2	2	2	2	2	4	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:159021773G>A	uc001ftg.2	+	9	2092	c.1802G>A	c.(1801-1803)CGA>CAA	p.R601Q	IFI16_uc010pis.1_Missense_Mutation_p.R601Q|IFI16_uc001fth.2_Missense_Mutation_p.R144Q|IFI16_uc010pit.1_Missense_Mutation_p.R200Q	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	657	HIN-200 2.				cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					AATGCTGACCGAAACATGGAG	0.428													41	80					0	0	0.030466	0	0		A	159021773	A	A	159021773	3	1	2	1	0	0	0	0	1	0	0	0	7527	1058	37	1	1832	1	IFI16	1	159021773	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	1476454	159021773	90228848	27	1456											
LY9	4063	broad.mit.edu	37	chr1	160793331	160793331	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacactcccctcaggcctgcCaggcaacagcctacacccac	10	4	7	20	0	1	0	1	0	0	0	2	1	2	0	6	2	4	1	6	2	2	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:160793331C>T	uc001fwu.2	+	8	1625	c.1575C>T	c.(1573-1575)GCC>GCT	p.A525A	LY9_uc001fwv.2_Silent_p.A511A|LY9_uc001fww.2_Silent_p.A435A|LY9_uc001fwx.2_Silent_p.A435A|LY9_uc001fwy.1_Silent_p.A323A|LY9_uc001fwz.2_Silent_p.A163A	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	525	Cytoplasmic (Potential).				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			TCAGGCCTGCCAGGCAACAGC	0.572													27	43					0	0	0.037714	0	0		T	160793331	T	T	160793331	2	4	2	1	0	0	0	0	0	0	0	1	9119	581	21	4		4	LY9	1	160793331	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1771558	160793331	88457290	28	1457											
LRRC52	440699	broad.mit.edu	37	chr1	165513858	165513858	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcatctaccttgacctcAgctccaacaacctaacctcg	12	9	3	17	1	3	1	2	1	1	0	5	1	4	1	5	0	6	1	5	0	5	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:165513858A>C	uc001gde.2	+	1	381	c.325A>C	c.(325-327)AGC>CGC	p.S109R	LOC400794_uc001gdc.2_Intron|LOC400794_uc001gdd.2_Intron|LOC400794_uc009wvd.2_Intron	NM_001005214	NP_001005214	Q8N7C0	LRC52_HUMAN	leucine rich repeat containing 52 precursor	109	LRR 3.|Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)					CCTTGACCTCAGCTCCAACAA	0.488													132	247					0	0	0.01441	0	0		C	165513858	C	C	165513858	3	2	2	1	0	0	0	0	1	0	0	0	9028	188	7	5	327	5	LRRC52	1	165513858	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	4720527	165513858	83736763	29	1458											
CD247	919	broad.mit.edu	37	chr1	167404663	167404663	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggccttcctgagggttcttCcttctctgctaggaaagaca	8	12	10	11	0	2	2	0	1	2	1	5	3	4	3	3	3	1	2	3	3	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:167404663C>T	uc001gei.3	-	5	454	c.309G>A	c.(307-309)AGG>AGA	p.R103R	CD247_uc001gej.3_Silent_p.R102R|CD247_uc001gek.2_Silent_p.R103R	NM_198053	NP_932170	P20963	CD3Z_HUMAN	T-cell receptor zeta chain isoform 1 precursor	103	Cytoplasmic (Potential).|ITAM 2.				interspecies interaction between organisms|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytoplasm|integral to membrane	protein homodimerization activity|transmembrane receptor activity				0			LUSC - Lung squamous cell carcinoma(543;0.236)			GAGGGTTCTTCCTTCTCTGCT	0.507													17	46					0	0	0.008871	0	0		T	167404663	T	T	167404663	2	4	2	1	0	0	0	0	0	0	0	1	2991	854	30	4		4	CD247	1	167404663	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1890805	167404663	81845958	30	1459											
TBX19	9095	broad.mit.edu	37	chr1	168262459	168262459	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcccatcgaatggtaacAaactgctccttccctgaaac	12	9	7	13	1	0	1	0	1	0	0	3	2	2	1	3	1	5	2	3	1	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:168262459A>C	uc001gfl.2	+	3	597	c.546A>C	c.(544-546)ACA>ACC	p.T182T	TBX19_uc001gfj.3_Silent_p.T113T	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	182	T-box.				anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					GAATGGTAACAAACTGCTCCT	0.373													3	99					0	0	0.004672	0	0		C	168262459	C	C	168262459	2	2	2	1	0	0	0	0	0	0	0	1	15679	117	5	5		5	TBX19	1	168262459	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	857796	168262459	80988162	31	1460											
FMO2	2327	broad.mit.edu	37	chr1	171168622	171168622	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgagctgagtaagaatgctGctcaggtgtgatgctctctg	8	13	13	7	0	2	4	1	3	1	1	3	4	2	4	0	1	4	5	0	1	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:171168622G>T	uc001ghk.1	+	5	739	c.622G>T	c.(622-624)GCT>TCT	p.A208S	FMO2_uc010pmd.1_Intron	NM_001460	NP_001451	Q99518	FMO2_HUMAN	flavin containing monooxygenase 2	208					drug metabolic process|NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|host cell microsome|integral to membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TAAGAATGCTGCTCAGGTGTG	0.502													26	121					4.01765e-15	4.14297e-15	0.036044	1	0		T	171168622	T	T	171168622	3	4	2	1	0	0	0	0	1	0	0	0	5969	1319	46	5	636	5	FMO2	1	171168622	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2906163	171168622	78081999	32	1461											
BAT2L2	23215	broad.mit.edu	37	chr1	171553241	171553241	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcaaacatcaaatactcAgcccattcctatattgtatg	14	12	4	11	0	3	0	3	0	0	0	4	0	4	0	2	0	4	2	2	0	6	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:171553241A>G	uc010pmg.1	+	29	7816	c.7550A>G	c.(7549-7551)CAG>CGG	p.Q2517R	BAT2L2_uc010pmh.1_Missense_Mutation_p.Q1429R|BAT2L2_uc010pmi.1_Missense_Mutation_p.Q354R|BAT2L2_uc010pmj.1_Missense_Mutation_p.Q44R	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	2517	Gln-rich.						protein C-terminus binding				0						TCAAATACTCAGCCCATTCCT	0.473													82	265					0	0	0.01441	0	0		G	171553241	G	G	171553241	3	3	2	1	0	0	0	0	1	0	0	0	1322	188	7	3	7660	3	BAT2L2	1	171553241	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	384619	171553241	77697380	33	1462											
HMCN1	83872	broad.mit.edu	37	chr1	185932925	185932925	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatgacctcagatggtaccTtatttatcaaaaatgcagct	13	12	8	8	0	2	2	2	1	0	1	2	3	2	3	2	2	3	3	2	2	5	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:185932925T>G	uc001grq.1	+	13	2225	c.1996T>G	c.(1996-1998)TTA>GTA	p.L666V	HMCN1_uc001grr.1_Missense_Mutation_p.L7V	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	666	Ig-like C2-type 3.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AGATGGTACCTTATTTATCAA	0.333													42	139					0	0	0.036044	0	0		G	185932925	G	G	185932925	3	3	2	1	0	0	0	0	1	0	0	0	7236	1606	56	5	2046	5	HMCN1	1	185932925	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	14379684	185932925	63317696	34	1463											
CFHR5	81494	broad.mit.edu	37	chr1	196964892	196964892	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcaactctccaatggtgAagttaaggagataagaaaag	16	9	9	7	0	2	3	1	1	1	2	4	4	3	3	2	2	1	1	2	2	7	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:196964892A>C	uc001gts.3	+	5	781	c.653A>C	c.(652-654)GAA>GCA	p.E218A		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	218	Sushi 4.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						TCCAATGGTGAAGTTAAGGAG	0.323													37	81					0	0	0.030466	0	0		C	196964892	C	C	196964892	3	2	2	1	0	0	0	0	1	0	0	0	3291	246	9	5	671	5	CFHR5	1	196964892	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	11031967	196964892	52285729	35	1464											
KIF14	9928	broad.mit.edu	37	chr1	200539132	200539132	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttcatcaaactcctacTcctgaaaaaagacaaaccat	16	10	3	12	0	3	2	2	1	1	1	5	2	5	2	3	0	3	1	3	0	6	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:200539132T>A	uc010ppk.1	-	23	4007	c.3568A>T	c.(3568-3570)AGT>TGT	p.S1190C	KIF14_uc010ppj.1_Missense_Mutation_p.S699C	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	1190	Required for CIT-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						AAACTCCTACTCCTGAAAAAA	0.299													54	97					0	0	0.01441	0	0		A	200539132	A	A	200539132	3	1	2	1	0	0	0	0	1	0	0	0	8292	1565	54	5	1410	5	KIF14	1	200539132	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	3574240	200539132	48711489	36	1465											
SYT2	127833	broad.mit.edu	37	chr1	202573584	202573584	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaccaatgtgccctaccTgaccccctttcatgtccttc	8	11	4	18	0	1	1	1	1	0	0	3	1	2	1	6	0	3	0	6	0	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:202573584T>G	uc001gye.2	-	3	537	c.344A>C	c.(343-345)CAG>CCG	p.Q115P	SYT2_uc010pqb.1_Missense_Mutation_p.Q115P|SYT2_uc009xaf.2_Intron	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	115	Cytoplasmic (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	GTGCCCTACCTGACCCCCTTT	0.473													59	161					0	0	0.01441	0	0		G	202573584	G	G	202573584	3	3	2	1	0	0	0	0	1	0	0	0	15499	1594	55	5	943	5	SYT2	1	202573584	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2034452	202573584	46677037	37	1466											
CAMK1G	57172	broad.mit.edu	37	chr1	209778918	209778918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttgaccggatcctggagCggggtgtctacacagagaag	9	9	14	9	2	2	2	0	1	2	1	3	5	3	4	2	4	2	0	2	4	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:209778918C>T	uc001hhd.2	+	5	436	c.334C>T	c.(334-336)CGG>TGG	p.R112W	CAMK1G_uc001hhf.3_Missense_Mutation_p.R112W|CAMK1G_uc001hhe.2_Missense_Mutation_p.R112W	NM_020439	NP_065172	Q96NX5	KCC1G_HUMAN	calcium/calmodulin-dependent protein kinase IG	112	Protein kinase.					Golgi membrane|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0475)		GATCCTGGAGCGGGGTGTCTA	0.488													59	118					0	0	0.01441	0	0		T	209778918	T	T	209778918	3	4	2	1	0	0	0	0	1	0	0	0	2601	759	27	1	348	1	CAMK1G	1	209778918	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	7205334	209778918	39471703	38	1467											
PPP2R5A	5525	broad.mit.edu	37	chr1	212515555	212515555	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatgaattcttcttgagatTtttggagagccctgatttcc	9	17	8	7	0	2	4	0	3	2	2	3	6	3	4	2	1	1	0	2	1	2	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:212515555T>G	uc001hjb.2	+	4	1080	c.506T>G	c.(505-507)TTT>TGT	p.F169C	PPP2R5A_uc010ptd.1_Missense_Mutation_p.F110C	NM_006243	NP_006234	Q15172	2A5A_HUMAN	protein phosphatase 2, regulatory subunit B	169					negative regulation of establishment of protein localization in plasma membrane|negative regulation of lipid kinase activity|positive regulation of protein dephosphorylation|signal transduction	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex	kinase binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0125)|all cancers(67;0.029)|Epithelial(68;0.154)|GBM - Glioblastoma multiforme(131;0.155)		TTCTTGAGATTTTTGGAGAGC	0.333													3	145					0	0	0.009096	0	0		G	212515555	G	G	212515555	3	3	2	1	0	0	0	0	1	0	0	0	12414	1841	64	5	520	5	PPP2R5A	1	212515555	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2736637	212515555	36735066	39	1468											
CENPF	1063	broad.mit.edu	37	chr1	214819864	214819864	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagctgatgaaaagaagcaGctctgtgtcttacaacaact	15	9	9	8	0	2	3	0	2	2	1	2	4	2	3	0	0	6	3	0	0	7	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:214819864G>T	uc001hkm.2	+	13	7125	c.6951G>T	c.(6949-6951)CAG>CAT	p.Q2317H		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2413	2-2.|Interaction with NDE1 and NDEL1.|Potential.|2 X 177 AA tandem repeats.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		AAAAGAAGCAGCTCTGTGTCT	0.453													64	36					3.19223e-45	3.36592e-45	0.01441	1	0		T	214819864	T	T	214819864	3	4	2	1	0	0	0	0	1	0	0	0	3234	962	34	5	6997	5	CENPF	1	214819864	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2304309	214819864	34430757	40	1469											
USH2A	7399	broad.mit.edu	37	chr1	216062370	216062370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttgacttcacatccagaaGaatcggaggaactacaggtc	13	9	9	10	1	2	3	1	1	1	2	5	5	3	5	1	3	2	0	1	3	4	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:216062370G>A	uc001hku.1	-	41	8008	c.7621C>T	c.(7621-7623)CTT>TTT	p.L2541F		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2541	Fibronectin type-III 12.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACATCCAGAAGAATCGGAGGA	0.418										HNSCC(13;0.011)			4	141					0	0	0.009096	0	0		A	216062370	A	A	216062370	3	1	2	1	0	0	0	0	1	0	0	0	17062	942	33	4	8115	4	USH2A	1	216062370	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	1242506	216062370	33188251	41	1470											
USH2A	7399	broad.mit.edu	37	chr1	216595483	216595483	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcagcagagctgtgacaaaAagtgcttcggtctgggagtc	11	8	14	8	1	1	2	0	1	1	1	3	3	1	3	0	2	4	4	0	2	2	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:216595483A>C	uc001hku.1	-	2	583	c.196T>G	c.(196-198)TTT>GTT	p.F66V	USH2A_uc001hkv.2_Missense_Mutation_p.F66V	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	66	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTGTGACAAAAAGTGCTTCGG	0.498										HNSCC(13;0.011)			24	57					0	0	0.01892	0	0		C	216595483	C	C	216595483	3	2	2	1	0	0	0	0	1	0	0	0	17062	14	1	5	15710	5	USH2A	1	216595483	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	533113	216595483	32655138	42	1471											
EPRS	2058	broad.mit.edu	37	chr1	220156722	220156722	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgtcatggtattcaatcaTttctgactttgtgatgacct	9	18	7	7	0	4	3	3	3	1	0	4	3	4	3	1	1	0	1	1	1	3	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:220156722T>A	uc001hly.1	-	22	3379	c.3109A>T	c.(3109-3111)ATG>TTG	p.M1037L		NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	1037	Prolyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	TATTCAATCATTTCTGACTTT	0.348													37	12					0	0	0.01441	0	0		A	220156722	A	A	220156722	3	1	2	1	0	0	0	0	1	0	0	0	5199	1493	52	5	1473	5	EPRS	1	220156722	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	3561239	220156722	29093899	43	1472											
OBSCN	84033	broad.mit.edu	37	chr1	228563836	228563836	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggaatgggtccctacagCagcccctcggagcaagtcct	9	6	12	14	1	0	0	0	0	0	0	3	2	2	2	4	3	4	3	4	3	3	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:228563836C>T	uc009xez.1	+	99	22958	c.22914C>T	c.(22912-22914)AGC>AGT	p.S7638S	OBSCN_uc001hsr.1_Silent_p.S2267S	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	7638	Fibronectin type-III 4.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GTCCCTACAGCAGCCCCTCGG	0.627													10	30					0	0	0.016723	0	0		T	228563836	T	T	228563836	2	4	2	1	0	0	0	0	0	0	0	1	10831	709	25	2		2	OBSCN	1	228563836	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	8407114	228563836	20686785	44	1473											
LYST	1130	broad.mit.edu	37	chr1	235894451	235894451	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaactgccatgaggttggaTagtagatggggtcataccat	11	10	12	8	0	1	2	1	1	0	1	1	3	1	3	3	4	3	2	3	4	4	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:235894451T>C	uc001hxj.2	-	35	9003	c.8828A>G	c.(8827-8829)TAT>TGT	p.Y2943C	LYST_uc001hxi.2_Missense_Mutation_p.Y167C	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2943					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TGAGGTTGGATAGTAGATGGG	0.383									Chediak-Higashi_syndrome				56	93					0	0	0.01441	0	0		C	235894451	C	C	235894451	3	2	2	1	0	0	0	0	1	0	0	0	9146	1406	49	3	2653	3	LYST	1	235894451	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	7330615	235894451	13356170	45	1474											
CEP170	9859	broad.mit.edu	37	chr1	243349125	243349125	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcctcactgttgggatTctctaactcaatggtataag	10	14	7	10	0	3	0	2	0	1	0	5	1	4	1	1	2	1	2	1	2	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:243349125T>C	uc001hzs.2	-	10	1930	c.1522A>G	c.(1522-1524)AAT>GAT	p.N508D	CEP170_uc001hzt.2_Intron|CEP170_uc001hzu.2_Intron	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	508						centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			CTGTTGGGATTCTCTAACTCA	0.348													116	219					0	0	0.01441	0	0		C	243349125	C	C	243349125	3	2	2	1	0	0	0	0	1	0	0	0	3253	1783	62	3	3306	3	CEP170	1	243349125	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	7454674	243349125	5901496	46	1475											
OR2M7	391196	broad.mit.edu	37	chr1	248487439	248487439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggatccaggagaaggcagtCataagtccacaaattttggg	14	8	12	7	0	1	1	1	0	0	1	3	3	3	2	2	4	0	1	2	4	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr1:248487439C>T	uc010pzk.1	-	1	432	c.432G>A	c.(430-432)ATG>ATA	p.M144I		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	144	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AGAAGGCAGTCATAAGTCCAC	0.463													157	307					0	0	0.01441	0	0		T	248487439	T	T	248487439	3	4	2	1	0	0	0	0	1	0	0	0	11033	826	29	4	509	4	OR2M7	1	248487439	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	5138314	248487439	763182	47	1476											
MYT1L	23040	broad.mit.edu	37	chr2	1812849	1812849	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctggaggggtgctcaccGttgctggcccgctgtttgat	3	11	17	10	2	1	1	1	1	0	0	1	2	1	2	2	5	2	6	2	5	0	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:1812849G>A	uc002qxe.2	-	22	3998	c.3171C>T	c.(3169-3171)AAC>AAT	p.N1057N	MYT1L_uc002qxd.2_Silent_p.N1055N|MYT1L_uc010ewk.2_Silent_p.N53N	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	1057	Potential.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		GGTGCTCACCGTTGCTGGCCC	0.587													33	56					0	0	0.010818	0	0		A	1812849	A	A	1812849	2	1	2	1	0	0	0	0	0	0	0	1	10125	1159	40	1		1	MYT1L	2	1812849	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08		1812849	241386524	48	1477											
ASAP2	8853	broad.mit.edu	37	chr2	9508631	9508631	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaggactcagtcaaaccCaacccaggcagcgacatgta	13	5	10	13	1	2	1	2	1	0	0	2	3	2	2	2	2	3	3	2	2	3	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:9508631C>T	uc002qzh.2	+	16	1879	c.1539C>T	c.(1537-1539)CCC>CCT	p.P513P	ASAP2_uc002qzi.2_Silent_p.P513P	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	513	Arf-GAP.				regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						CAGTCAAACCCAACCCAGGCA	0.478													18	56					0	0	0.010504	0	0		T	9508631	T	T	9508631	2	4	2	1	0	0	0	0	0	0	0	1	1012	581	21	4		4	ASAP2	2	9508631	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	7695782	9508631	233690742	49	1478											
OTOF	9381	broad.mit.edu	37	chr2	26739298	26739298	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgttacctccggaagctcTtctctcctgggggccgggag	4	10	13	14	2	2	0	0	0	2	0	5	2	4	2	5	4	2	2	5	4	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:26739298T>G	uc002rhk.2	-	5	624	c.497A>C	c.(496-498)AAG>ACG	p.K166T	OTOF_uc010ylb.1_RNA	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	166	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCGGAAGCTCTTCTCTCCTGG	0.627													4	174					0	0	0.009096	0	0		G	26739298	G	G	26739298	3	3	2	1	0	0	0	0	1	0	0	0	11322	1609	56	5	5993	5	OTOF	2	26739298	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	17230667	26739298	216460075	50	1479											
TRIM54	57159	broad.mit.edu	37	chr2	27522174	27522174	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatgaagaagagaagatcAatatttactgcctgagctgt	15	10	10	6	0	1	5	1	2	0	3	1	6	1	5	1	0	4	2	1	0	6	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:27522174A>G	uc002rjo.2	+	3	403	c.403A>G	c.(403-405)AAT>GAT	p.N135D	TRIM54_uc002rjn.2_Missense_Mutation_p.N135D	NM_187841	NP_912730	Q9BYV2	TRI54_HUMAN	ring finger protein 30 isoform 2	135	B box-type.				cell differentiation|microtubule-based process|multicellular organismal development|negative regulation of microtubule depolymerization	microtubule|sarcomere	signal transducer activity|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGAGAAGATCAATATTTACTG	0.567													25	49					0	0	0.016522	0	0		G	27522174	G	G	27522174	3	3	2	1	0	0	0	0	1	0	0	0	16554	130	5	3	413	3	TRIM54	2	27522174	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	782876	27522174	215677199	51	1480											
MPV17	4358	broad.mit.edu	37	chr2	27534778	27534778	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcaacatacctgtaatgaagGgggaccaggtagaagttggc	13	7	14	7	0	0	2	0	1	0	1	0	3	0	3	2	4	2	4	2	4	6	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:27534778G>A	uc002rjr.2	-	6	497	c.450C>T	c.(448-450)CCC>CCT	p.P150P	MPV17_uc002rjq.2_Intron|MPV17_uc002rjs.2_Silent_p.P150P|MPV17_uc002rjt.2_RNA	NM_002437	NP_002428	P39210	MPV17_HUMAN	Mpv17 protein	150	Helical; (Potential).				cellular response to reactive oxygen species|glomerular basement membrane development|homeostatic process|inner ear development|mitochondrial genome maintenance|regulation of reactive oxygen species metabolic process	integral to peroxisomal membrane|mitochondrial inner membrane					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGTAATGAAGGGGGACCAGGT	0.507													11	22					0	0	0.020292	0	0		A	27534778	A	A	27534778	2	1	2	1	0	0	0	0	0	0	0	1	9763	1219	43	4		4	MPV17	2	27534778	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	12604	27534778	215664595	52	1481											
SPDYA	245711	broad.mit.edu	37	chr2	29039042	29039042	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaaatacacataataacaaCaaatctaaacgccccaaagg	23	5	3	10	1	1	0	0	0	1	0	1	0	1	0	2	1	4	0	2	1	10	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:29039042C>T	uc002rmj.2	+	3	368	c.162C>T	c.(160-162)AAC>AAT	p.N54N	SPDYA_uc002rmi.2_Silent_p.N54N|SPDYA_uc002rmk.2_Silent_p.N54N|SPDYA_uc002rml.2_Silent_p.N54N	NM_182756	NP_877433	Q5MJ70	SPDYA_HUMAN	speedy homolog A isoform 1	54					G1/S transition of mitotic cell cycle|multicellular organismal development|positive regulation of cell proliferation|response to DNA damage stimulus	nucleus	protein kinase binding			upper_aerodigestive_tract(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					ATAATAACAACAAATCTAAAC	0.343													83	134					0	0	0.01441	0	0		T	29039042	T	T	29039042	2	4	2	1	0	0	0	0	0	0	0	1	15052	477	17	4		4	SPDYA	2	29039042	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1504264	29039042	214160331	53	1482											
CYP1B1	1545	broad.mit.edu	37	chr2	38302315	38302315	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgccaggcgagcgaacgAgaggtgagccgcctggccca	8	2	16	15	6	0	2	0	1	0	1	0	5	0	2	5	3	3	0	5	3	1	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:38302315A>G	uc002rqo.2	-	3	620	c.217T>C	c.(217-219)TCG>CCG	p.S73P		NM_000104	NP_000095	Q16678	CP1B1_HUMAN	cytochrome P450, family 1, subfamily B,	73					visual perception|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			ovary(1)|central_nervous_system(1)	2		all_hematologic(82;0.21)			Estrone(DB00655)	CGAGCGAACGAGAGGTGAGCC	0.721													2	1					0	0	0.004672	0	0		G	38302315	G	G	38302315	3	3	2	1	0	0	0	0	1	0	0	0	4154	304	11	3	1422	3	CYP1B1	2	38302315	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	9263273	38302315	204897058	54	1483											
MDH1	4190	broad.mit.edu	37	chr2	63834000	63834000	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattattttcaaacagaataAgacctggaagtttgttgaag	15	13	8	5	0	1	3	1	1	0	2	1	4	1	4	1	1	1	2	1	1	6	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:63834000A>C	uc002scj.1	+	9	940	c.884A>C	c.(883-885)AAG>ACG	p.K295T	MDH1_uc010ypv.1_Missense_Mutation_p.K313T|MDH1_uc010ypw.1_Missense_Mutation_p.K200T	NM_005917	NP_005908	P40925	MDHC_HUMAN	cytosolic malate dehydrogenase	295					gluconeogenesis|tricarboxylic acid cycle	centrosome|cytosol	L-malate dehydrogenase activity|malic enzyme activity			kidney(2)	2					NADH(DB00157)	AAACAGAATAAGACCTGGAAG	0.333													31	67					0	0	0.021022	0	0		C	63834000	C	C	63834000	3	2	2	1	0	0	0	0	1	0	0	0	9426	72	3	5	918	5	MDH1	2	63834000	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	25531685	63834000	179365373	55	1484											
SPRED2	200734	broad.mit.edu	37	chr2	65541156	65541156	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacgtaggaggagtccgcgtCctccgaggggtccgggtact	6	7	16	12	5	0	0	0	0	0	0	4	3	4	2	4	5	1	2	4	5	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:65541156C>T	uc002sdr.3	-	6	1271	c.736G>A	c.(736-738)GAC>AAC	p.D246N	SPRED2_uc010fcw.2_Missense_Mutation_p.D243N	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	246	KBD.				inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						GAGTCCGCGTCCTCCGAGGGG	0.632													32	93					0	0	0.012213	0	0		T	65541156	T	T	65541156	3	4	2	1	0	0	0	0	1	0	0	0	15118	855	30	4	524	4	SPRED2	2	65541156	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1707156	65541156	177658217	56	1485											
DNAH6	1768	broad.mit.edu	37	chr2	84806741	84806741	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagtataaacttgagtttGttccaactactaccacagaa	15	11	6	9	0	0	3	0	1	0	2	1	3	1	3	2	0	4	3	2	0	7	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:84806741G>C	uc010fgb.2	+	14	2304	c.2167G>C	c.(2167-2169)GTT>CTT	p.V723L	DNAH6_uc002soo.2_Missense_Mutation_p.V302L|DNAH6_uc002sop.2_Missense_Mutation_p.V302L	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	723	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1						ACTTGAGTTTGTTCCAACTAC	0.348													46	78					0	0	0.010771	0	0		C	84806741	C	C	84806741	3	2	2	1	0	0	0	0	1	0	0	0	4611	1377	48	5	2217	5	DNAH6	2	84806741	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	19265585	84806741	158392632	57	1486											
GPAT2	150763	broad.mit.edu	37	chr2	96690197	96690197	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacagcctcgctcaggaaGacgggcagcagctcagcact	10	4	11	16	2	2	1	2	0	0	1	3	2	2	2	2	2	4	5	2	2	1	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:96690197G>T	uc002svf.2	-	15	1870	c.1647C>A	c.(1645-1647)GTC>GTA	p.V549V	GPAT2_uc002svd.2_Silent_p.V368V|GPAT2_uc002sve.2_Silent_p.V351V|GPAT2_uc002svg.2_Silent_p.V428V|GPAT2_uc010yuh.1_Silent_p.V478V|GPAT2_uc002svh.2_Silent_p.V549V	NM_207328	NP_997211	Q6NUI2	GPAT2_HUMAN	glycerol-3-phosphate acyltransferase 2,	549					glycerol-3-phosphate metabolic process|phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity				0						CGCTCAGGAAGACGGGCAGCA	0.632													20	55					6.44725e-10	6.59992e-10	0.014323	1	0		T	96690197	T	T	96690197	2	4	2	1	0	0	0	0	0	0	0	1	6604	929	33	5		5	GPAT2	2	96690197	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	11883456	96690197	146509176	58	1487											
TBC1D8	11138	broad.mit.edu	37	chr2	101638823	101638823	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacgtcctttcggcgaggAtctccgtgtgggccccgcag	5	9	14	13	5	1	1	0	1	1	0	4	3	2	2	4	3	1	1	4	3	1	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:101638823A>G	uc010fiv.2	-	16	2767	c.2636T>C	c.(2635-2637)ATC>ACC	p.I879T	TBC1D8_uc002tau.3_Missense_Mutation_p.I636T	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8	879					blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						TTCGGCGAGGATCTCCGTGTG	0.587													14	26					0	0	0.016723	0	0		G	101638823	G	G	101638823	3	3	2	1	0	0	0	0	1	0	0	0	15650	333	12	3	806	3	TBC1D8	2	101638823	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	4948626	101638823	141560550	59	1488											
MAP4K4	9448	broad.mit.edu	37	chr2	102486168	102486168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggactactcctcatccagtGaggagtcggggacgacggat	9	7	14	11	4	1	1	1	1	0	0	4	6	3	5	2	5	1	0	2	5	1	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:102486168G>A	uc002tbg.2	+	20	2360	c.2305G>A	c.(2305-2307)GAG>AAG	p.E769K	MAP4K4_uc002tbc.2_Missense_Mutation_p.E850K|MAP4K4_uc002tbd.2_Missense_Mutation_p.E742K|MAP4K4_uc002tbe.2_Missense_Mutation_p.E688K|MAP4K4_uc002tbf.2_Missense_Mutation_p.E739K|MAP4K4_uc010yvy.1_Missense_Mutation_p.E765K|MAP4K4_uc002tbh.2_Missense_Mutation_p.E687K|MAP4K4_uc002tbi.2_Missense_Mutation_p.E572K|MAP4K4_uc010yvz.1_Missense_Mutation_p.E745K|MAP4K4_uc002tbk.2_Missense_Mutation_p.E224K|MAP4K4_uc002tbl.2_5'UTR	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	769					intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CTCATCCAGTGAGGAGTCGGG	0.582													10	7					0	0	0.008291	0	0		A	102486168	A	A	102486168	3	1	2	1	0	0	0	0	1	0	0	0	9280	1291	45	4	2634	4	MAP4K4	2	102486168	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	847345	102486168	140713205	60	1489											
DDX18	8886	broad.mit.edu	37	chr2	118575280	118575280	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaaaagaagaaaaagagaAaaatggtgaatgatgctgag	23	5	12	1	0	0	7	0	3	0	4	0	8	0	7	0	1	1	1	0	1	8	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:118575280A>C	uc002tlh.1	+	2	445	c.346A>C	c.(346-348)AAA>CAA	p.K116Q		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	116	Poly-Lys.						ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4						GAAAAAGAGAAAAATGGTGAA	0.348													75	144					0	0	0.01441	0	0		C	118575280	C	C	118575280	3	2	2	1	0	0	0	0	1	0	0	0	4348	15	1	5	352	5	DDX18	2	118575280	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	16089112	118575280	124624093	61	1490											
TMEM37	140738	broad.mit.edu	37	chr2	120194860	120194860	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtctttcgtcctctcctcCggcgggctcctgggttttgt	0	16	12	13	3	2	0	0	0	2	0	7	0	5	0	4	3	0	2	4	3	0	3	rs148949485		TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:120194860C>T	uc002tly.2	+	2	451	c.417C>T	c.(415-417)TCC>TCT	p.S139S		NM_183240	NP_899063	Q8WXS4	CCGL_HUMAN	transmembrane protein 37	139	Helical; (Potential).					integral to membrane	calcium channel activity|voltage-gated ion channel activity			breast(1)	1						TCCTCTCCTCCGGCGGGCTCC	0.547													122	237					0	0	0.01441	0	0		T	120194860	T	T	120194860	2	4	2	1	0	0	0	0	0	0	0	1	16183	639	23	1		1	TMEM37	2	120194860	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1619580	120194860	123004513	62	1491											
MYO7B	4648	broad.mit.edu	37	chr2	128392752	128392752	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggaaattgtggctcaacaTatctccagggaaggatgtga	12	9	13	7	1	2	1	1	1	1	0	3	4	2	4	1	4	1	1	1	4	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:128392752T>G	uc002top.2	+	42	5746	c.5693T>G	c.(5692-5694)ATA>AGA	p.I1898R	MYO7B_uc002tos.1_Missense_Mutation_p.I8R|MYO7B_uc002tot.2_Missense_Mutation_p.I8R	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	1898	FERM 2.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		TGGCTCAACATATCTCCAGGG	0.627													5	18					0	0	0.014758	0	0		G	128392752	G	G	128392752	3	3	2	1	0	0	0	0	1	0	0	0	10101	1406	49	5	5855	5	MYO7B	2	128392752	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	8197892	128392752	114806621	63	1492											
FMNL2	114793	broad.mit.edu	37	chr2	153475530	153475530	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggatatcgccatactgccAgttgtggcttctggcacatt	7	12	12	10	1	1	0	0	0	1	0	2	1	1	1	2	4	2	3	2	4	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:153475530A>C	uc002tye.2	+	14	1852	c.1485A>C	c.(1483-1485)CCA>CCC	p.P495P	FMNL2_uc010fob.2_5'Flank|FMNL2_uc002tyf.2_5'Flank	NM_052905	NP_443137	Q96PY5	FMNL2_HUMAN	formin-like 2	495					actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|ovary(1)	3						CCATACTGCCAGTTGTGGCTT	0.507													30	53					0	0	0.027894	0	0		C	153475530	C	C	153475530	2	2	2	1	0	0	0	0	0	0	0	1	5966	175	7	5		5	FMNL2	2	153475530	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	25082778	153475530	89723843	64	1493											
TANC1	85461	broad.mit.edu	37	chr2	160086957	160086957	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttctccatccagcagcataAagatgtcaagttcaaccagt	13	10	7	11	0	3	1	2	0	1	1	5	1	4	1	3	0	3	4	3	0	4	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:160086957A>C	uc002uag.2	+	27	5294	c.5020A>C	c.(5020-5022)AAG>CAG	p.K1674Q	TANC1_uc010zcm.1_3'UTR|TANC1_uc010fon.2_Missense_Mutation_p.K518Q	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1674	Ser-rich.					cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CAGCAGCATAAAGATGTCAAG	0.512													9	185					0	0	0.010729	0	0		C	160086957	C	C	160086957	3	2	2	1	0	0	0	0	1	0	0	0	15569	15	1	5	5123	5	TANC1	2	160086957	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	6611427	160086957	83112416	65	1494											
LRP2	4036	broad.mit.edu	37	chr2	170081876	170081876	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttcttgaaatccaatctaAggccaggttcatagaaggcc	12	11	9	9	0	3	2	1	1	2	1	4	2	4	2	3	3	0	2	3	3	5	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:170081876A>G	uc002ues.2	-	33	5695	c.5482T>C	c.(5482-5484)TTA>CTA	p.L1828L		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1828	LDL-receptor class B 15.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ATCCAATCTAAGGCCAGGTTC	0.388													54	79					0	0	0.01441	0	0		G	170081876	G	G	170081876	2	3	2	1	0	0	0	0	0	0	0	1	8974	69	3	3		3	LRP2	2	170081876	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	9994919	170081876	73117497	66	1495											
PPIG	9360	broad.mit.edu	37	chr2	170488410	170488410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaagctgatgagaaggaaaGgaaaaacagagagagagaaa	23	3	13	2	0	0	5	0	2	0	4	0	10	0	7	0	2	2	1	0	2	7	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:170488410G>A	uc002uez.2	+	11	1116	c.896G>A	c.(895-897)AGG>AAG	p.R299K	PPIG_uc010fpx.2_Missense_Mutation_p.R284K|PPIG_uc010fpy.2_Missense_Mutation_p.R292K|PPIG_uc002ufa.2_Missense_Mutation_p.R299K|PPIG_uc002ufb.2_Missense_Mutation_p.R299K|PPIG_uc002ufd.2_Missense_Mutation_p.R296K	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G	299					protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	gagaaggaaaggaaaaacaga	0.284													24	57					0	0	0.014323	0	0		A	170488410	A	A	170488410	3	1	2	1	0	0	0	0	1	0	0	0	12346	1000	35	4	930	4	PPIG	2	170488410	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	406534	170488410	72710963	67	1496											
CYBRD1	79901	broad.mit.edu	37	chr2	172398188	172398188	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatgcagttgctgccattcTtgcaattatctctgtggtgg	8	15	10	8	0	2	0	0	0	2	0	3	0	2	0	1	2	4	4	1	2	3	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:172398188T>G	uc002ugy.3	+	2	477	c.287T>G	c.(286-288)CTT>CGT	p.L96R	CYBRD1_uc002ugz.3_Intron	NM_024843	NP_079119	Q53TN4	CYBR1_HUMAN	cytochrome b reductase 1 isoform 1	96	Cytochrome b561.|Helical; Name=3; (Potential).				cellular iron ion homeostasis|electron transport chain|transmembrane transport	integral to membrane	ferric-chelate reductase activity|metal ion binding				0						GCTGCCATTCTTGCAATTATC	0.468													69	105					0	0	0.01441	0	0		G	172398188	G	G	172398188	3	3	2	1	0	0	0	0	1	0	0	0	4137	1609	56	5	293	5	CYBRD1	2	172398188	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	1909778	172398188	70801185	68	1497											
OSBPL6	114880	broad.mit.edu	37	chr2	179247154	179247154	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccttccttaggcttcagAtgatgagtcttacatcagtg	8	15	8	10	0	3	3	2	2	1	1	5	3	5	3	2	1	1	1	2	1	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:179247154A>C	uc002ulx.2	+	16	1919	c.1541A>C	c.(1540-1542)GAT>GCT	p.D514A	OSBPL6_uc002ulw.2_Missense_Mutation_p.D447A|OSBPL6_uc002uly.2_Missense_Mutation_p.D539A|OSBPL6_uc010zfe.1_Missense_Mutation_p.D483A|OSBPL6_uc002ulz.2_Missense_Mutation_p.D478A|OSBPL6_uc002uma.2_Missense_Mutation_p.D518A	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	514					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			TAGGCTTCAGATGATGAGTCT	0.353													34	66					0	0	0.017118	0	0		C	179247154	C	C	179247154	3	2	2	1	0	0	0	0	1	0	0	0	11300	333	12	5	1717	5	OSBPL6	2	179247154	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	6848966	179247154	63952219	69	1498											
TTN	7273	broad.mit.edu	37	chr2	179478624	179478624	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagtcactgcgtctttagtGatatcagaaggttctaggcg	10	12	12	7	2	4	3	2	1	2	2	4	3	4	3	0	2	1	1	0	2	4	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:179478624G>A	uc010zfg.1	-	212	41906	c.41682C>T	c.(41680-41682)ATC>ATT	p.I13894I	uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.I7589I|TTN_uc010zfi.1_Silent_p.I7522I|TTN_uc010zfj.1_Silent_p.I7397I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14821							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CGTCTTTAGTGATATCAGAAG	0.428													9	266					0	0	0.004482	0	0		A	179478624	A	A	179478624	2	1	2	1	0	0	0	0	0	0	0	1	16761	1280	45	4		4	TTN	2	179478624	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	231470	179478624	63720749	70	1499											
TTN	7273	broad.mit.edu	37	chr2	179665321	179665321	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacaggtgtagggattccAgtcactctcacttggagtct	9	11	10	11	0	3	0	2	0	2	0	5	2	4	2	2	3	0	1	2	3	1	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:179665321A>G	uc002und.2	-	4	609	c.384T>C	c.(382-384)ACT>ACC	p.T128T	TTN_uc010zfg.1_Silent_p.T128T|TTN_uc010zfh.1_Silent_p.T128T|TTN_uc010zfi.1_Silent_p.T128T|TTN_uc010zfj.1_Silent_p.T128T|TTN_uc002unb.2_Silent_p.T128T			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	128							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAGGGATTCCAGTCACTCTCA	0.522													62	139					0	0	0.01441	0	0		G	179665321	G	G	179665321	2	3	2	1	0	0	0	0	0	0	0	1	16761	175	7	3		3	TTN	2	179665321	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	186697	179665321	63534052	71	1500											
FAM171B	165215	broad.mit.edu	37	chr2	187625939	187625939	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcattgtcattggattttTtgctgtactactttgttatt	7	22	7	5	0	2	0	2	0	0	0	2	1	2	1	0	1	3	3	0	1	3	10			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:187625939T>G	uc002ups.2	+	7	1224	c.1112T>G	c.(1111-1113)TTT>TGT	p.F371C	FAM171B_uc002upr.1_Missense_Mutation_p.F371C|FAM171B_uc002upt.2_5'Flank	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	371	Helical; (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						ATTGGATTTTTTGCTGTACTA	0.338													48	111					0	0	0.01441	0	0		G	187625939	G	G	187625939	3	3	2	1	0	0	0	0	1	0	0	0	5502	1841	64	5	1138	5	FAM171B	2	187625939	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	7960618	187625939	55573434	72	1501											
ZSWIM2	151112	broad.mit.edu	37	chr2	187698698	187698698	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaatgtaaacgtgtgggaaAgatggcagcagctatcaaaa	17	7	12	5	1	1	1	1	0	0	1	1	3	1	2	0	2	3	4	0	2	7	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:187698698A>C	uc002upu.1	-	6	843	c.803T>G	c.(802-804)CTT>CGT	p.L268R		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	268	ZZ-type.				apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			CGTGTGGGAAAGATGGCAGCA	0.358													16	52					0	0	0.006122	0	0		C	187698698	C	C	187698698	3	2	2	1	0	0	0	0	1	0	0	0	18266	72	3	5	1114	5	ZSWIM2	2	187698698	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	72759	187698698	55500675	73	1502											
ASNSD1	54529	broad.mit.edu	37	chr2	190532199	190532199	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaactcgaatatgtcaCttaattcggccattggatac	14	11	8	8	2	1	2	1	0	0	2	3	4	1	3	1	2	2	0	1	2	6	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:190532199C>T	uc002uqt.2	+	4	1775	c.1341C>T	c.(1339-1341)CAC>CAT	p.H447H		NM_019048	NP_061921	Q9NWL6	ASND1_HUMAN	asparagine synthetase domain containing 1	447	Asparagine synthetase.				asparagine biosynthetic process|glutamine metabolic process		asparagine synthase (glutamine-hydrolyzing) activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0449)|all cancers(119;0.118)			GAATATGTCACTTAATTCGGC	0.408													80	156					0	0	0.01441	0	0		T	190532199	T	T	190532199	2	4	2	1	0	0	0	0	0	0	0	1	1050	564	20	4		4	ASNSD1	2	190532199	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	2833501	190532199	52667174	74	1503											
C2orf67	151050	broad.mit.edu	37	chr2	210908810	210908810	+	Frame_Shift_Del	DEL	T	-	-																															tgtagtgtttaaaaatgctgTttcttttgaaggcaaagtct																										TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:210908810delT	uc002vds.2	-	7	1982	c.1774delA	c.(1774-1776)ACAfs	p.T592fs	C2orf67_uc002vdt.2_Frame_Shift_Del_p.T592fs|C2orf67_uc002vdw.2_Frame_Shift_Del_p.T592fs|uc002vdu.1_Intron|C2orf67_uc002vdv.2_Frame_Shift_Del_p.T592fs|C2orf67_uc002vdx.1_Frame_Shift_Del_p.T592fs	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	592										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		AAAAATGCTGTTTCTTTTGAA	0.303													68	94	---	---	---	---						.	-	210908810	-	-	210908810	7	5	2	1	0	1	0	1	0	0	0	0	2189	1725	60	0	1225	0	C2orf67	2	210908810	Frame_Shift_Del	DEL	T	TCGA-B7-5818-01A-11D-1600-08	20376611	210908810	32290563	75	1504											
CCDC108	255101	broad.mit.edu	37	chr2	219890820	219890820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcctcgtgcccgcaccGtcaggcaccaggatgggcac	6	6	14	15	3	1	0	1	0	0	0	2	1	1	1	4	4	1	3	4	4	0	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:219890820G>A	uc002vjl.1	-	14	2357	c.2273C>T	c.(2272-2274)ACG>ATG	p.T758M		NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	758						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGCCCGCACCGTCAGGCACCA	0.587													28	57					0	0	0.034045	0	0		A	219890820	A	A	219890820	3	1	2	1	0	0	0	0	1	0	0	0	2746	1145	40	1	3592	1	CCDC108	2	219890820	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	8982010	219890820	23308553	76	1505											
DNPEP	23549	broad.mit.edu	37	chr2	220246268	220246268	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaaatggcacgtctcaccTtgtggaataaaggccggtgg	11	8	14	8	2	1	1	1	0	1	1	2	3	1	2	2	5	0	1	2	5	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:220246268T>C	uc010zlg.1	-	12	1242	c.1160A>G	c.(1159-1161)AAG>AGG	p.K387R	DNPEP_uc010zlf.1_RNA|DNPEP_uc002vle.2_Missense_Mutation_p.K379R|DNPEP_uc002vlf.1_Missense_Mutation_p.K365R|DNPEP_uc002vlh.2_Missense_Mutation_p.K326R|DNPEP_uc002vli.1_Missense_Mutation_p.K326R	NM_012100	NP_036232	Q9ULA0	DNPEP_HUMAN	aspartyl aminopeptidase	369					peptide metabolic process|proteolysis	cytoplasm	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0		Renal(207;0.0474)		Epithelial(149;1.09e-06)|all cancers(144;0.000179)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)	L-Glutamic Acid(DB00142)	ACGTCTCACCTTGTGGAATAA	0.438													74	164					0	0	0.01441	0	0		C	220246268	C	C	220246268	3	2	2	1	0	0	0	0	1	0	0	0	4685	1623	56	3	337	3	DNPEP	2	220246268	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	355448	220246268	22953105	77	1506											
SCG2	7857	broad.mit.edu	37	chr2	224463773	224463773	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggtagggattataatcTgggctgctttcttccttatg	6	17	10	8	0	2	0	0	0	2	0	3	1	3	1	2	3	1	3	2	3	4	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:224463773T>C	uc002vnm.2	-	2	361	c.228A>G	c.(226-228)CCA>CCG	p.P76P		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	76					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		GATTATAATCTGGGCTGCTTT	0.458													69	137					0	0	0.01441	0	0		C	224463773	C	C	224463773	2	2	2	1	0	0	0	0	0	0	0	1	13916	1567	55	3		3	SCG2	2	224463773	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08	4217505	224463773	18735600	78	1507											
DOCK10	55619	broad.mit.edu	37	chr2	225639814	225639814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gatgtaggcatatttggggtCcaaatccttggggtttacct	8	14	12	7	0	0	0	0	0	0	0	2	1	2	0	3	5	1	3	3	5	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:225639814C>T	uc010fwz.1	-	52	6060	c.5821G>A	c.(5821-5823)GAC>AAC	p.D1941N	DOCK10_uc002vob.2_Missense_Mutation_p.D1935N|DOCK10_uc002voa.2_Missense_Mutation_p.D597N	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1941	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		TATTTGGGGTCCAAATCCTTG	0.498													15	37					0	0	0.028581	0	0		T	225639814	T	T	225639814	3	4	2	1	0	0	0	0	1	0	0	0	4691	855	30	4	759	4	DOCK10	2	225639814	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1176041	225639814	17559559	79	1508											
CCL20	6364	broad.mit.edu	37	chr2	228680227	228680227	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtattcttcatcctaaatTtattgtgggcttcacacggc	8	15	7	11	2	3	0	2	0	1	0	4	0	4	0	2	2	0	2	2	2	4	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:228680227T>G	uc002vpl.2	+	2	204	c.134T>G	c.(133-135)TTT>TGT	p.F45C	CCL20_uc002vpm.2_Missense_Mutation_p.F44C	NM_004591	NP_004582	P78556	CCL20_HUMAN	chemokine (C-C motif) ligand 20 isoform 1	45					cell-cell signaling|chemotaxis|defense response to bacterium|immune response|inflammatory response|signal transduction	extracellular space	chemokine activity				0		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;7.3e-11)|all cancers(144;4.13e-08)|Lung(261;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0115)		CATCCTAAATTTATTGTGGGC	0.368													82	132					0	0	0.01441	0	0		G	228680227	G	G	228680227	3	3	2	1	0	0	0	0	1	0	0	0	2895	1841	64	5	140	5	CCL20	2	228680227	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	3040413	228680227	14519146	80	1509											
SPHKAP	80309	broad.mit.edu	37	chr2	228884214	228884214	+	Silent	SNP	A	G	G																															ctgccatctggactctgaacAacgacgattttggggagctc																										TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:228884214A>G	uc002vpq.2	-	7	1403	c.1356T>C	c.(1354-1356)GTT>GTC	p.V452V	SPHKAP_uc002vpp.2_Silent_p.V452V|SPHKAP_uc010zlx.1_Silent_p.V452V	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	452						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GACTCTGAACAACGACGATTT	0.507													54	112					0	0	0.01441	0	0		G	228884214	G	G	228884214	2	3	2	1	0	0	0	0	0	0	0	1	15073	117	5	3		3	SPHKAP	2	228884214	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	203987	228884214	14315159	81	1510	4	2									
SPHKAP	80309	broad.mit.edu	37	chr2	228884224	228884224	+	Missense_Mutation	SNP	T	G	G																															gactctgaacaacgacgattTtggggagctcattccatgac																										TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:228884224T>G	uc002vpq.2	-	7	1393	c.1346A>C	c.(1345-1347)AAA>ACA	p.K449T	SPHKAP_uc002vpp.2_Missense_Mutation_p.K449T|SPHKAP_uc010zlx.1_Missense_Mutation_p.K449T	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	449						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		AACGACGATTTTGGGGAGCTC	0.502													3	167					0	0	0.004672	0	0		G	228884224	G	G	228884224	3	3	2	1	0	0	0	0	1	0	0	0	15073	1841	64	5	3780	5	SPHKAP	2	228884224	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	10	228884224	14315149	82	1511	4	2									
SP140	11262	broad.mit.edu	37	chr2	231109759	231109759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaggctggtggaggagatGctgaagatgcacccagccta	12	6	14	9	0	0	3	0	1	0	2	0	5	0	4	2	4	3	3	2	4	3	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:231109759G>A	uc002vql.2	+	6	743	c.628G>A	c.(628-630)GCT>ACT	p.A210T	SP140_uc010zma.1_RNA|SP140_uc002vqk.2_Missense_Mutation_p.A210T|SP140_uc002vqn.2_Missense_Mutation_p.A210T|SP140_uc002vqm.2_Missense_Mutation_p.A210T|SP140_uc010fxl.2_Missense_Mutation_p.A210T	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	210					defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		TGGAGGAGATGCTGAAGATGC	0.453													30	73					0	0	0.030593	0	0		A	231109759	A	A	231109759	3	1	2	1	0	0	0	0	1	0	0	0	14987	1319	46	2	767	2	SP140	2	231109759	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2225535	231109759	12089614	83	1512											
SP100	6672	broad.mit.edu	37	chr2	231327182	231327182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggactctgaaggatccactGacgttgatgagcccttagaa	12	9	11	9	1	1	5	0	4	1	1	2	7	2	7	2	2	1	1	2	2	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:231327182G>A	uc002vqt.2	+	10	1147	c.1006G>A	c.(1006-1008)GAC>AAC	p.D336N	SP100_uc002vqs.2_Missense_Mutation_p.D336N|SP100_uc002vqu.1_Missense_Mutation_p.D336N|SP100_uc010zmb.1_Missense_Mutation_p.D336N|SP100_uc002vqq.1_Missense_Mutation_p.D336N|SP100_uc002vqr.1_Missense_Mutation_p.D311N|SP100_uc010zmc.1_Missense_Mutation_p.D311N|SP100_uc002vqv.1_Missense_Mutation_p.D300N	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	336					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		AGGATCCACTGACGTTGATGA	0.488													32	47					0	0	0.015359	0	0		A	231327182	A	A	231327182	3	1	2	1	0	0	0	0	1	0	0	0	14985	1290	45	4	1044	4	SP100	2	231327182	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	217423	231327182	11872191	84	1513											
AQP12A	375318	broad.mit.edu	37	chr2	241631397	241631397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctgtgaggcggccaggCgggcctccaaggccctgctc	4	6	14	17	2	1	1	0	1	1	0	3	1	2	1	5	5	1	1	5	5	1	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:241631397C>T	uc002vzu.2	+	1	136	c.67C>T	c.(67-69)CGG>TGG	p.R23W	AQP12A_uc002vzv.2_Intron	NM_198998	NP_945349	Q8IXF9	AQ12A_HUMAN	aquaporin 12A	23						integral to membrane	transporter activity				0		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;2.2e-31)|all cancers(36;1.08e-28)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.52e-06)|Lung(119;0.00163)|LUSC - Lung squamous cell carcinoma(224;0.008)|Colorectal(34;0.0124)|COAD - Colon adenocarcinoma(134;0.0757)		GGCGGCCAGGCGGGCCTCCAA	0.687													30	42					0	0	0.009535	0	0		T	241631397	T	T	241631397	3	4	2	1	0	0	0	0	1	0	0	0	824	759	27	1	69	1	AQP12A	2	241631397	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	10304215	241631397	1567976	85	1514											
PASK	23178	broad.mit.edu	37	chr2	242065717	242065717	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acgatcacgggcgtggaggtGacctggacgttcagccttgg	7	8	16	10	4	2	1	2	1	0	0	2	4	2	3	2	5	1	1	2	5	0	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr2:242065717G>A	uc002wao.1	-	10	2705	c.2613C>T	c.(2611-2613)GTC>GTT	p.V871V	PASK_uc010zol.1_Silent_p.V685V|PASK_uc010zom.1_Silent_p.V836V|PASK_uc010fzl.1_Silent_p.V871V|PASK_uc010zon.1_Silent_p.V652V|PASK_uc002wap.2_Silent_p.V414V|PASK_uc002waq.2_Silent_p.V871V	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	871					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		GCGTGGAGGTGACCTGGACGT	0.632													44	85					0	0	0.011902	0	0		A	242065717	A	A	242065717	2	1	2	1	0	0	0	0	0	0	0	1	11491	1277	45	4		4	PASK	2	242065717	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	434320	242065717	1133656	86	1515											
TTLL3	26140	broad.mit.edu	37	chr3	9877073	9877073	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatccaacaccaaataaaaAgaaacaagtgaagtatttgg	20	7	8	6	0	0	2	0	1	0	1	1	3	1	3	2	2	2	1	2	2	9	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:9877073A>T	uc003btg.2	+	13	2435	c.2219A>T	c.(2218-2220)AAG>ATG	p.K740M	ARPC4_uc003btc.1_Intron|TTLL3_uc003btd.3_3'UTR|TTLL3_uc003btf.3_3'UTR|TTLL3_uc003bth.3_3'UTR|TTLL3_uc011atj.1_3'UTR|TTLL3_uc003btj.3_3'UTR|TTLL3_uc003bti.3_3'UTR	NM_001025930	NP_001021100	Q9Y4R7	TTLL3_HUMAN	tubulin tyrosine ligase-like family, member 3	740					axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)					CCAAATAAAAAGAAACAAGTG	0.557													65	152					0	0	0.01441	0	0		T	9877073	T	T	9877073	3	4	2	1	0	0	0	0	1	0	0	0	16754	72	3	5	2265	5	TTLL3	3	9877073	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08		9877073	188145357	87	1516											
ZFYVE20	64145	broad.mit.edu	37	chr3	15116106	15116106	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctgcaggtcctcctccTcagcctgcctccgggacagc	4	7	10	20	2	1	0	1	0	0	0	5	1	5	1	7	2	4	2	7	2	0	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:15116106T>G	uc003bzm.1	-	14	2152	c.1538A>C	c.(1537-1539)GAG>GCG	p.E513A	ZFYVE20_uc010hek.1_Missense_Mutation_p.E513A	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	513	UIM.|Potential.|Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						GTCCTCCTCCTCAGCCTGCCT	0.607													37	72					0	0	0.01441	0	0		G	15116106	G	G	15116106	3	3	2	1	0	0	0	0	1	0	0	0	17691	1551	54	5	820	5	ZFYVE20	3	15116106	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	5239033	15116106	182906324	88	1517											
TRANK1	9881	broad.mit.edu	37	chr3	36888720	36888720	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggattcaccatgagagAtcgaccctgagaagagcctg	11	9	11	10	1	2	4	1	2	1	3	3	8	2	5	3	1	1	0	3	1	1	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:36888720A>G	uc003cgj.2	-	6	3525	c.3223T>C	c.(3223-3225)TCT>CCT	p.S1075P		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1625					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						ACCATGAGAGATCGACCCTGA	0.453													14	39					0	0	0.006122	0	0		G	36888720	G	G	36888720	3	3	2	1	0	0	0	0	1	0	0	0	16480	333	12	3	3940	3	TRANK1	3	36888720	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	21772614	36888720	161133710	89	1518											
TRANK1	9881	broad.mit.edu	37	chr3	36898084	36898084	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactccactgtggctgtcgtGtcattgaggatgttaaaggc	8	13	12	8	1	1	1	1	1	0	0	3	2	2	2	1	3	1	2	1	3	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:36898084G>A	uc003cgj.2	-	3	1649	c.1347C>T	c.(1345-1347)GAC>GAT	p.D449D		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	999					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TGGCTGTCGTGTCATTGAGGA	0.532													48	149					0	0	0.01441	0	0		A	36898084	A	A	36898084	2	1	2	1	0	0	0	0	0	0	0	1	16480	1368	48	4		4	TRANK1	3	36898084	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	9364	36898084	161124346	90	1519											
KBTBD5	131377	broad.mit.edu	37	chr3	42727322	42727322	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagccggagcgcgcgggcgAgctgcacctggaggaggtgt	6	4	20	11	6	0	0	0	0	0	0	0	5	0	3	2	5	4	2	2	5	0	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:42727322A>G	uc003clv.1	+	1	312	c.212A>G	c.(211-213)GAG>GGG	p.E71G		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	71	BTB.									ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		CGCGCGGGCGAGCTGCACCTG	0.697													11	20					0	0	0.020292	0	0		G	42727322	G	G	42727322	3	3	2	1	0	0	0	0	1	0	0	0	8012	304	11	3	214	3	KBTBD5	3	42727322	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	5829238	42727322	155295108	91	1520											
SNRK	54861	broad.mit.edu	37	chr3	43381977	43381977	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggggacatagcggatcgAgacgccattgtagagtacgt	10	9	14	8	4	0	2	0	0	0	2	1	5	0	4	1	3	2	2	1	3	3	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:43381977A>G	uc003cms.3	+	5	1262	c.930A>G	c.(928-930)CGA>CGG	p.R310R	SNRK_uc003cmt.3_Silent_p.R310R|SNRK_uc010hik.2_Silent_p.R310R|SNRK_uc011azr.1_Silent_p.R104R	NM_017719	NP_060189	Q9NRH2	SNRK_HUMAN	SNF related kinase	310	UBA.				myeloid cell differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.0636)|Kidney(284;0.0792)		TAGCGGATCGAGACGCCATTG	0.488													28	62					0	0	0.030593	0	0		G	43381977	G	G	43381977	2	3	2	1	0	0	0	0	0	0	0	1	14876	291	11	3		3	SNRK	3	43381977	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	654655	43381977	154640453	92	1521											
PTPN23	25930	broad.mit.edu	37	chr3	47453892	47453892	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgcatgcggcagcagagaaAgcacatgctgcaggagaagg	13	3	16	9	2	0	2	0	0	0	2	0	4	0	2	0	3	5	6	0	3	2	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:47453892A>T	uc003crf.1	+	23	4394	c.4298A>T	c.(4297-4299)AAG>ATG	p.K1433M	PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.K1303M|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1433	Tyrosine-protein phosphatase.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CAGCAGAGAAAGCACATGCTG	0.637													16	39					0	0	0.007413	0	0		T	47453892	T	T	47453892	3	4	2	1	0	0	0	0	1	0	0	0	12813	72	3	5	4388	5	PTPN23	3	47453892	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	4071915	47453892	150568538	93	1522											
DAG1	1605	broad.mit.edu	37	chr3	49570131	49570131	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccaggagagtgccctcAgaggcgccgcccacagaagt	10	3	12	16	2	1	3	1	0	0	3	1	4	1	3	5	2	1	0	5	2	1	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:49570131A>G	uc003cxc.3	+	3	2605	c.2187A>G	c.(2185-2187)TCA>TCG	p.S729S		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	729	Extracellular (Potential).|Peptidase S72.				cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GAGTGCCCTCAGAGGCGCCGC	0.587													26	63					0	0	0.024334	0	0		G	49570131	G	G	49570131	2	3	2	1	0	0	0	0	0	0	0	1	4228	175	7	3		3	DAG1	3	49570131	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	2116239	49570131	148452299	94	1523											
GRM2	2912	broad.mit.edu	37	chr3	51752122	51752122	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggactcgacaacgtcatcGctttgaagaccccatactcc	10	9	8	14	3	1	2	1	1	0	1	4	4	2	3	3	1	2	1	3	1	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:51752122G>A	uc010hlv.2	+	6	2852	c.2613G>A	c.(2611-2613)TCG>TCA	p.S871S	GRM2_uc003dbo.3_Silent_p.S253S|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	871	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	CAACGTCATCGCTTTGAAGAC	0.582													90	157					0	0	0.01441	0	0		A	51752122	A	A	51752122	2	1	2	1	0	0	0	0	0	0	0	1	6813	1074	38	1		1	GRM2	3	51752122	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2181991	51752122	146270308	95	1524											
TLR9	54106	broad.mit.edu	37	chr3	52255383	52255383	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggcagaggcgctggcgCagccgcacgtagcgggagcg	6	3	20	12	7	0	1	0	0	0	1	0	2	0	2	1	5	3	5	1	5	1	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:52255383C>A	uc003dda.1	-	2	3583	c.2949G>T	c.(2947-2949)CTG>CTT	p.L983L	TLR9_uc003ddb.2_Silent_p.L1080L	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	983	TIR.|Cytoplasmic (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	GGCGCTGGCGCAGCCGCACGT	0.711													8	31					1.28384e-07	1.30947e-07	0.012319	1	0		A	52255383	A	A	52255383	2	1	2	1	0	0	0	0	0	0	0	1	15983	697	25	5		5	TLR9	3	52255383	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	503261	52255383	145767047	96	1525											
CHDH	55349	broad.mit.edu	37	chr3	53852074	53852074	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtggtaggcgctgtcggcTtttgcccgcacaaaggcatc	6	9	15	11	3	0	0	0	0	0	0	2	0	0	0	1	5	1	5	1	5	2	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:53852074T>C	uc003dgz.2	-	9	1955	c.1515A>G	c.(1513-1515)AAA>AAG	p.K505K		NM_018397	NP_060867	Q8NE62	CHDH_HUMAN	choline dehydrogenase precursor	505					alcohol metabolic process		choline dehydrogenase activity|flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		Hepatocellular(537;0.152)		BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)	Choline(DB00122)	CGCTGTCGGCTTTTGCCCGCA	0.587													38	116					0	0	0.030466	0	0		C	53852074	C	C	53852074	2	2	2	1	0	0	0	0	0	0	0	1	3336	1606	56	3		3	CHDH	3	53852074	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08	1596691	53852074	144170356	97	1526											
ASB14	142686	broad.mit.edu	37	chr3	57312815	57312815	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgatccagcatgaagtTcacatcaaatccagcctgga	12	10	7	12	0	3	2	2	2	1	0	6	3	5	3	3	1	2	2	3	1	2	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:57312815T>G	uc003diq.2	-	8	1117	c.529A>C	c.(529-531)AAC>CAC	p.N177H	ASB14_uc003dip.1_Missense_Mutation_p.N56H	NM_001142733	NP_001136205	A6NK59	ASB14_HUMAN	ankyrin repeat and SOCS box-containing 14	341	ANK 8.				intracellular signal transduction						0				KIRC - Kidney renal clear cell carcinoma(284;0.011)|Kidney(284;0.0127)		AGCATGAAGTTCACATCAAAT	0.473													20	25					0	0	0.008871	0	0		G	57312815	G	G	57312815	3	3	2	1	0	0	0	0	1	0	0	0	1019	1783	62	5	754	5	ASB14	3	57312815	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	3460741	57312815	140709615	98	1527											
SLMAP	7871	broad.mit.edu	37	chr3	57898412	57898412	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaccagcagagagaagaAgcaacaaggttgcaaggtga	17	3	15	6	0	0	4	0	1	0	3	0	7	0	5	1	3	4	4	1	3	5	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:57898412A>C	uc003dje.1	+	18	2158	c.1953A>C	c.(1951-1953)GAA>GAC	p.E651D	SLMAP_uc003djd.1_Missense_Mutation_p.E634D|SLMAP_uc003djf.1_Missense_Mutation_p.E613D|SLMAP_uc003djg.1_Missense_Mutation_p.E245D|SLMAP_uc011bez.1_Missense_Mutation_p.E119D|SLMAP_uc011bfa.1_Missense_Mutation_p.E185D|SLMAP_uc003djh.2_Missense_Mutation_p.E144D|SLMAP_uc003dji.1_Missense_Mutation_p.E185D|SLMAP_uc011bfb.1_Missense_Mutation_p.E185D|SLMAP_uc011bfc.1_Missense_Mutation_p.E144D	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	651	Cytoplasmic (Potential).|Potential.				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)		AGAGAGAAGAAGCAACAAGGT	0.373													35	48					0	0	0.013726	0	0		C	57898412	C	C	57898412	3	2	2	1	0	0	0	0	1	0	0	0	14774	69	3	5	1968	5	SLMAP	3	57898412	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	585597	57898412	140124018	99	1528											
ACOX2	8309	broad.mit.edu	37	chr3	58512199	58512199	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctggaccttacctggccAcctgcaggtagagcactgtg	8	8	12	13	0	0	1	0	0	0	1	0	2	0	2	5	3	4	3	5	3	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:58512199A>C	uc003dkl.2	-	10	1515	c.1340T>G	c.(1339-1341)GTG>GGG	p.V447G		NM_003500	NP_003491	Q99424	ACOX2_HUMAN	acyl-Coenzyme A oxidase 2	447					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3alpha,7alpha,12alpha-trihydroxy-5beta-cholestanoyl-CoA 24-hydroxylase activity|acyl-CoA dehydrogenase activity|pristanoyl-CoA oxidase activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000194)|Kidney(10;0.00255)|KIRC - Kidney renal clear cell carcinoma(10;0.00268)|OV - Ovarian serous cystadenocarcinoma(275;0.156)		TTACCTGGCCACCTGCAGGTA	0.582													16	25					0	0	0.024245	0	0		C	58512199	C	C	58512199	3	2	2	1	0	0	0	0	1	0	0	0	159	159	6	5	729	5	ACOX2	3	58512199	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	613787	58512199	139510231	100	1529											
RYBP	23429	broad.mit.edu	37	chr3	72428498	72428498	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttttcaactttctccttcTtctcctttttagggggtggt	3	20	8	10	0	4	0	1	0	3	0	6	0	4	0	2	3	1	1	2	3	2	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:72428498T>G	uc003dpe.2	-	2	326	c.209A>C	c.(208-210)AAG>ACG	p.K70T		NM_012234	NP_036366	Q8N488	RYBP_HUMAN	RING1 and YY1 binding protein	80	Lys-rich.				apoptosis|histone H2A monoubiquitination|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleoplasm	DNA binding|protein binding|transcription corepressor activity|zinc ion binding				0		Prostate(10;0.00174)|Lung NSC(201;0.0659)|Myeloproliferative disorder(1037;0.204)		BRCA - Breast invasive adenocarcinoma(55;0.000197)|Epithelial(33;0.00068)|LUSC - Lung squamous cell carcinoma(21;0.00228)|Lung(16;0.00677)|KIRC - Kidney renal clear cell carcinoma(39;0.198)|Kidney(39;0.232)		TTTCTCCTTCTTCTCCTTTTT	0.403													4	193					0	0	0.014758	0	0		G	72428498	G	G	72428498	3	3	2	1	0	0	0	0	1	0	0	0	13791	1609	56	5	459	5	RYBP	3	72428498	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	13916299	72428498	125593932	101	1530											
ROBO2	6092	broad.mit.edu	37	chr3	77147286	77147286	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggccggccaacgcccacCattgagtggtacaaagatgg	11	5	14	11	2	0	2	0	1	0	1	0	3	0	2	4	4	2	1	4	4	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:77147286C>A	uc003dpy.3	+	2	826	c.183C>A	c.(181-183)ACC>ACA	p.T61T	ROBO2_uc003dpz.2_Silent_p.T61T|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Silent_p.T61T	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	61	Ig-like C2-type 1.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CAACGCCCACCATTGAGTGGT	0.592													23	39					2.27731e-05	2.31019e-05	0.012319	1	0		A	77147286	A	A	77147286	2	1	2	1	0	0	0	0	0	0	0	1	13539	594	21	5		5	ROBO2	3	77147286	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4718788	77147286	120875144	102	1531											
ROBO2	6092	broad.mit.edu	37	chr3	77623656	77623656	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	actatgtttttcaggttgatCgccaaccccagtttatccaa	10	14	6	11	1	1	1	1	1	0	0	3	1	2	1	4	1	1	3	4	1	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:77623656C>G	uc003dpy.3	+	14	2621	c.1978C>G	c.(1978-1980)CGC>GGC	p.R660G	ROBO2_uc003dpz.2_Missense_Mutation_p.R664G|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.R664G	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	660	Fibronectin type-III 2.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		TCAGGTTGATCGCCAACCCCA	0.428													3	132					0	0	0.004672	0	0		G	77623656	G	G	77623656	3	3	2	1	0	0	0	0	1	0	0	0	13539	884	31	5	2034	5	ROBO2	3	77623656	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	476370	77623656	120398774	103	1532											
CADM2	253559	broad.mit.edu	37	chr3	86114755	86114755	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttcctgtcttttccagAtcctaatgctttggctggcc	5	18	7	11	0	1	1	0	0	1	1	4	1	4	1	4	2	1	2	4	2	2	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:86114755A>G	uc003dqj.2	+	9	1690	c.1064A>G	c.(1063-1065)GAT>GGT	p.D355G	CADM2_uc003dqk.2_Missense_Mutation_p.D324G|CADM2_uc003dql.2_Missense_Mutation_p.D357G	NM_153184	NP_694854	Q8N3J6	CADM2_HUMAN	immunoglobulin superfamily, member 4D	355	Extracellular (Potential).				adherens junction organization|cell junction assembly	integral to membrane|plasma membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4		Lung NSC(201;0.0148)		LUSC - Lung squamous cell carcinoma(29;0.000815)|Lung(72;0.00304)|BRCA - Breast invasive adenocarcinoma(55;0.156)|Epithelial(33;0.157)		TCTTTTCCAGATCCTAATGCT	0.363													33	56					0	0	0.027894	0	0		G	86114755	G	G	86114755	3	3	2	1	0	0	0	0	1	0	0	0	2570	347	12	3	1169	3	CADM2	3	86114755	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	8491099	86114755	111907675	104	1533											
PROS1	5627	broad.mit.edu	37	chr3	93624914	93624914	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtttacaagtgcaagtaaaAgaagcttttccatctttgca	13	13	8	7	0	1	1	0	0	1	1	2	1	2	1	1	1	4	5	1	1	6	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:93624914A>G	uc003drb.3	-	5	761	c.420T>C	c.(418-420)TCT>TCC	p.S140S	PROS1_uc010hoo.2_Silent_p.S9S|PROS1_uc003dqz.3_Silent_p.S9S	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	140	EGF-like 1.				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	TGCAAGTAAAAGAAGCTTTTC	0.428													101	349					0	0	0.01441	0	0		G	93624914	G	G	93624914	2	3	2	1	0	0	0	0	0	0	0	1	12580	59	3	3		3	PROS1	3	93624914	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	7510159	93624914	104397516	105	1534											
C3orf26	84319	broad.mit.edu	37	chr3	99897207	99897207	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagtctgtgcaagtcagAatccttgaaactgggccttt	9	12	10	10	0	3	2	2	1	1	1	4	2	4	2	2	1	2	2	2	1	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:99897207A>G	uc003dtl.2	+	10	958	c.815A>G	c.(814-816)GAA>GGA	p.E272G		NM_032359	NP_115735	Q9BQ75	CC026_HUMAN	hypothetical protein LOC84319	272							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(1)	1						TGCAAGTCAGAATCCTTGAAA	0.388													25	150					0	0	0.021523	0	0		G	99897207	G	G	99897207	3	3	2	1	0	0	0	0	1	0	0	0	2221	246	9	3	867	3	C3orf26	3	99897207	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	6272293	99897207	98125223	106	1535											
RG9MTD1	54931	broad.mit.edu	37	chr3	101284689	101284689	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaatctcaccttagatcAaatgatacgtattttgttat	15	15	4	7	1	2	2	2	1	1	1	3	2	2	2	1	0	1	2	1	0	7	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:101284689A>G	uc003duz.2	+	2	1212	c.1064A>G	c.(1063-1065)CAA>CGA	p.Q355R		NM_017819	NP_060289	Q7L0Y3	MRRP1_HUMAN	RNA (guanine-9-) methyltransferase domain	355					tRNA processing	mitochondrion	methyltransferase activity|protein binding			ovary(1)	1						ACCTTAGATCAAATGATACGT	0.378													25	117					0	0	0.021523	0	0		G	101284689	G	G	101284689	3	3	2	1	0	0	0	0	1	0	0	0	13296	130	5	3	1066	3	RG9MTD1	3	101284689	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	1387482	101284689	96737741	107	1536											
MYH15	22989	broad.mit.edu	37	chr3	108179190	108179190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaatgaagctcctttctttCgtttcttctccccaaatggt	7	16	7	11	1	3	1	0	1	3	0	6	2	4	2	3	2	1	2	3	2	3	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:108179190C>T	uc003dxa.1	-	18	2006	c.1949G>A	c.(1948-1950)CGA>CAA	p.R650Q		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	650	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TCCTTTCTTTCGTTTCTTCTC	0.274													41	32					0	0	0.033182	0	0		T	108179190	T	T	108179190	3	4	2	1	0	0	0	0	1	0	0	0	10052	884	31	1	3991	1	MYH15	3	108179190	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	6894501	108179190	89843240	108	1537											
PHLDB2	90102	broad.mit.edu	37	chr3	111603306	111603306	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccacttggaagagcagacTttgatcattatactggccgg	11	11	10	9	1	1	3	1	1	0	2	2	4	2	4	2	3	2	1	2	3	3	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:111603306T>A	uc010hqa.2	+	2	793	c.382T>A	c.(382-384)TTT>ATT	p.F128I	PHLDB2_uc003dyc.2_Missense_Mutation_p.F155I|PHLDB2_uc003dyd.2_Missense_Mutation_p.F128I|PHLDB2_uc003dyg.2_Missense_Mutation_p.F128I|PHLDB2_uc003dyh.2_Missense_Mutation_p.F128I|PHLDB2_uc003dye.3_Missense_Mutation_p.F128I|PHLDB2_uc003dyf.3_Missense_Mutation_p.F128I	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	128						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						AAGAGCAGACTTTGATCATTA	0.438													126	535					0	0	0.01441	0	0		A	111603306	A	A	111603306	3	1	2	1	0	0	0	0	1	0	0	0	11871	1609	56	5	469	5	PHLDB2	3	111603306	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	3424116	111603306	86419124	109	1538											
KIAA1407	57577	broad.mit.edu	37	chr3	113753930	113753930	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctccaagaaggccgatttTttcagggtcttttctattct	7	16	8	10	1	4	1	1	0	3	1	5	2	5	1	3	2	0	0	3	2	3	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:113753930T>G	uc003eax.2	-	6	807	c.660A>C	c.(658-660)AAA>AAC	p.K220N	KIAA1407_uc011bin.1_RNA|KIAA1407_uc011bio.1_Missense_Mutation_p.K198N|KIAA1407_uc011bip.1_Missense_Mutation_p.K207N	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	220	Potential.									ovary(2)	2						AGGCCGATTTTTTCAGGGTCT	0.428													86	299					0	0	0.01441	0	0		G	113753930	G	G	113753930	3	3	2	1	0	0	0	0	1	0	0	0	8245	1838	64	5	2198	5	KIAA1407	3	113753930	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2150624	113753930	84268500	110	1539											
POLQ	10721	broad.mit.edu	37	chr3	121228492	121228492	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatatctaaagtatcagcTggagaaagtgaagaagaaag	21	7	10	3	0	2	4	1	1	1	3	2	5	2	4	0	1	1	2	0	1	10	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:121228492T>C	uc003eee.3	-	12	2004	c.1875A>G	c.(1873-1875)CCA>CCG	p.P625P		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	625					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AAGTATCAGCTGGAGAAAGTG	0.393								DNA_polymerases_(catalytic_subunits)					55	199					0	0	0.01441	0	0		C	121228492	C	C	121228492	2	2	2	1	0	0	0	0	0	0	0	1	12227	1567	55	3		3	POLQ	3	121228492	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08	7474562	121228492	76793938	111	1540											
CASR	846	broad.mit.edu	37	chr3	121981176	121981176	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actccattgcccacgccttgCaagatatatatacctgctta	11	12	5	13	1	0	1	0	0	0	1	1	1	1	1	4	0	4	2	4	0	6	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:121981176C>T	uc003eev.3	+	4	1666	c.1294C>T	c.(1294-1296)CAA>TAA	p.Q432*	CASR_uc003eew.3_Nonsense_Mutation_p.Q432*	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	432	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	CCACGCCTTGCAAGATATATA	0.478													50	255					0	0	0.01441	0	0		T	121981176	T	T	121981176	4	4	2	1	0	0	0	0	0	1	0	0	2685	711	25	2	1304	2	CASR	3	121981176	Nonsense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	752684	121981176	76041254	112	1541											
WDR5B	54554	broad.mit.edu	37	chr3	122133940	122133940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatatttttacagtctcatCaaaagatcccgagattataa	15	13	4	9	1	2	2	2	0	1	2	4	3	3	2	2	0	1	0	2	0	6	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:122133940C>T	uc003efa.1	-	1	943	c.436G>A	c.(436-438)GAT>AAT	p.D146N		NM_019069	NP_061942	Q86VZ2	WDR5B_HUMAN	WD repeat domain 5B	146	WD 3.									ovary(3)	3				GBM - Glioblastoma multiforme(114;0.0704)		ACAGTCTCATCAAAAGATCCC	0.388													54	220					0	0	0.01441	0	0		T	122133940	T	T	122133940	3	4	2	1	0	0	0	0	1	0	0	0	17335	826	29	4	560	4	WDR5B	3	122133940	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	152764	122133940	75888490	113	1542											
PARP14	54625	broad.mit.edu	37	chr3	122437724	122437724	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaaaattaatcatcggcacTacacagtgaacttgaacaca	17	9	5	10	1	2	2	2	2	0	0	3	2	2	2	0	1	3	1	0	1	6	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:122437724T>C	uc003efq.3	+	14	4785	c.4726T>C	c.(4726-4728)TAC>CAC	p.Y1576H	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Missense_Mutation_p.Y1293H|PARP14_uc003efs.1_Missense_Mutation_p.Y1293H	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	1576	WWE.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		TCATCGGCACTACACAGTGAA	0.378													28	82					0	0	0.024334	0	0		C	122437724	C	C	122437724	3	2	2	1	0	0	0	0	1	0	0	0	11477	1522	53	3	4780	3	PARP14	3	122437724	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	303784	122437724	75584706	114	1543											
KALRN	8997	broad.mit.edu	37	chr3	124132335	124132335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgacagcagagctagacGcctggaatgaagacttgctt	12	8	13	8	1	0	5	0	2	0	3	0	6	0	6	1	2	3	3	1	2	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:124132335G>A	uc003ehg.2	+	14	2486	c.2359G>A	c.(2359-2361)GCC>ACC	p.A787T	KALRN_uc010hrv.1_Missense_Mutation_p.A787T|KALRN_uc003ehf.1_Missense_Mutation_p.A787T|KALRN_uc011bjy.1_Missense_Mutation_p.A787T|KALRN_uc003ehh.1_Missense_Mutation_p.A133T	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	787					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						AGAGCTAGACGCCTGGAATGA	0.537													44	27					0	0	0.01441	0	0		A	124132335	A	A	124132335	3	1	2	1	0	0	0	0	1	0	0	0	7991	1087	38	1	2413	1	KALRN	3	124132335	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	1694611	124132335	73890095	115	1544											
ZNF148	7707	broad.mit.edu	37	chr3	124952156	124952156	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagataccgcttcttctTcaaaaactgcatggcatcat	12	13	6	10	1	4	2	2	1	2	1	4	2	4	2	1	1	3	3	1	1	4	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:124952156T>C	uc003ehx.3	-	9	1900	c.1414A>G	c.(1414-1416)AAG>GAG	p.K472E	SLC12A8_uc003ehw.3_Intron|ZNF148_uc003ehz.3_Missense_Mutation_p.K472E|ZNF148_uc010hsa.2_Missense_Mutation_p.K472E|ZNF148_uc003eia.3_Missense_Mutation_p.K472E|ZNF148_uc003ehy.2_Intron	NM_021964	NP_068799	Q9UQR1	ZN148_HUMAN	zinc finger protein 148	472					cellular defense response|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4						CGCTTCTTCTTCAAAAACTGC	0.443													76	308					0	0	0.01441	0	0		C	124952156	C	C	124952156	3	2	2	1	0	0	0	0	1	0	0	0	17759	1792	62	3	974	3	ZNF148	3	124952156	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	819821	124952156	73070274	116	1545											
COL6A6	131873	broad.mit.edu	37	chr3	130340692	130340692	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggacccggaggagaggcaGggaatcaaggccgtttggga	11	4	18	8	2	1	1	1	0	0	1	1	6	1	5	2	7	0	2	2	7	2	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:130340692G>T	uc010htl.2	+	23	4874	c.4843G>T	c.(4843-4845)GGG>TGG	p.G1615W	COL6A6_uc003eni.3_Translation_Start_Site	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1615	Triple-helical region.				axon guidance|cell adhesion	collagen		p.E1613_G1615del(1)		ovary(6)|central_nervous_system(1)|pancreas(1)	8						AGGAGAGGCAGGGAATCAAGG	0.428													28	138					3.73988e-18	3.87789e-18	0.030593	1	0		T	130340692	T	T	130340692	3	4	2	1	0	0	0	0	1	0	0	0	3706	1000	35	5	4933	5	COL6A6	3	130340692	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	5388536	130340692	67681738	117	1546											
COL6A6	131873	broad.mit.edu	37	chr3	130380597	130380597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggaagtgctgaatttgaaGacataagagccttccttgga	12	11	12	6	0	0	4	0	2	0	2	1	6	1	6	2	2	2	1	2	2	4	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:130380597G>A	uc010htl.2	+	34	5978	c.5947G>A	c.(5947-5949)GAC>AAC	p.D1983N	COL6A6_uc003eni.3_Missense_Mutation_p.D82N	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1983	VWFA 9.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TGAATTTGAAGACATAAGAGC	0.522													20	104					0	0	0.008871	0	0		A	130380597	A	A	130380597	3	1	2	1	0	0	0	0	1	0	0	0	3706	942	33	4	6081	4	COL6A6	3	130380597	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	39905	130380597	67641833	118	1547											
NCK1	4690	broad.mit.edu	37	chr3	136664858	136664858	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagatgtaatggatgttatTgaaaaacctgaaaatgaccc	16	10	10	5	0	0	4	0	3	0	1	0	6	0	5	2	2	1	2	2	2	6	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:136664858T>G	uc003erh.2	+	3	767	c.660T>G	c.(658-660)ATT>ATG	p.I220M	NCK1_uc011bme.1_Missense_Mutation_p.I156M	NM_006153	NP_006144	P16333	NCK1_HUMAN	NCK adaptor protein 1	220	SH3 3.				axon guidance|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of translation|signal complex assembly|T cell activation|T cell receptor signaling pathway	cytosol|endoplasmic reticulum|nucleus	cytoskeletal adaptor activity|receptor binding|receptor signaling complex scaffold activity			pancreas(1)	1						TGGATGTTATTGAAAAACCTG	0.388													10	424					0	0	0.008291	0	0		G	136664858	G	G	136664858	3	3	2	1	0	0	0	0	1	0	0	0	10238	1800	63	5	666	5	NCK1	3	136664858	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	6284261	136664858	61357572	119	1548											
PRR23C	389152	broad.mit.edu	37	chr3	138763216	138763216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcaggaccgacattggcgCgagctccagcaccaggtcga	9	5	13	14	5	0	0	0	0	0	0	3	4	1	1	3	3	2	3	3	3	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:138763216C>T	uc011bmt.1	-	1	519	c.247G>A	c.(247-249)GCG>ACG	p.A83T		NM_001134657	NP_001128129	Q6ZRP0	PR23C_HUMAN	proline rich 23C	83										skin(1)	1						GACATTGGCGCGAGCTCCAGC	0.682													3	11					0	0	0.009096	0	0		T	138763216	T	T	138763216	3	4	2	1	0	0	0	0	1	0	0	0	12618	768	27	1	545	1	PRR23C	3	138763216	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	2098358	138763216	59259214	120	1549											
PCOLCE2	26577	broad.mit.edu	37	chr3	142606588	142606588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaataaatccagactctcCagtaagaatgccaccacatg	15	7	6	13	0	1	2	0	0	1	2	3	2	2	2	5	0	1	1	5	0	5	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:142606588C>T	uc003evd.2	-	2	311	c.115G>A	c.(115-117)GGA>AGA	p.G39R		NM_013363	NP_037495	Q9UKZ9	PCOC2_HUMAN	procollagen C-endopeptidase enhancer 2	39	CUB 1.					extracellular region	collagen binding|heparin binding|peptidase activator activity			ovary(2)|skin(1)	3						CCAGACTCTCCAGTAAGAATG	0.363													25	93					0	0	0.027894	0	0		T	142606588	T	T	142606588	3	4	2	1	0	0	0	0	1	0	0	0	11614	603	21	4	1164	4	PCOLCE2	3	142606588	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	3843372	142606588	55415842	121	1550											
SIAH2	6478	broad.mit.edu	37	chr3	150460290	150460290	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttaatgtctgtagctagaaAgacgatgtcttctccctgaa	11	13	9	8	1	3	3	0	1	3	2	4	4	3	3	1	0	1	3	1	0	5	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:150460290A>C	uc003eyi.2	-	2	1240	c.613T>G	c.(613-615)TTT>GTT	p.F205V		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	205	SBD.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GTAGCTAGAAAGACGATGTCT	0.522													49	169					0	0	0.01441	0	0		C	150460290	C	C	150460290	3	2	2	1	0	0	0	0	1	0	0	0	14325	72	3	5	365	5	SIAH2	3	150460290	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	7853702	150460290	47562140	122	1551											
P2RY1	5028	broad.mit.edu	37	chr3	152554055	152554055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accccctcaagtccctgggcCggctcaaaaagaagaatgcg	12	5	10	14	2	2	2	2	0	0	2	3	2	3	2	4	2	1	1	4	2	5	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:152554055C>T	uc003ezq.2	+	1	1320	c.484C>T	c.(484-486)CGG>TGG	p.R162W		NM_002563	NP_002554	P47900	P2RY1_HUMAN	purinergic receptor P2Y1	162	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			GTCCCTGGGCCGGCTCAAAAA	0.552													35	160					0	0	0.021022	0	0		T	152554055	T	T	152554055	3	4	2	1	0	0	0	0	1	0	0	0	11365	643	23	1	486	1	P2RY1	3	152554055	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	2093765	152554055	45468375	123	1552											
C3orf79	152118	broad.mit.edu	37	chr3	153203896	153203896	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcaattttgcaaccaggTaacttcattctggtcaacga	12	11	8	10	1	3	0	2	0	1	0	3	1	3	0	1	3	4	3	1	3	4	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:153203896T>C	uc003ezt.2	+	2	285	c.223_splice	c.e2+2	p.G75_splice		NM_001101337	NP_001094807	P0CE67	CC079_HUMAN	chromosome 3 open reading frame 79												0						tgcaaccaggtaacttcattc	0.08													5	13					0	0	0.014758	0	0		C	153203896	C	C	153203896	5	2	2	1	0	0	0	0	0	0	1	0	2249	1652	57	3	231	3	C3orf79	3	153203896	Splice_Site	SNP	T	TCGA-B7-5818-01A-11D-1600-08	649841	153203896	44818534	124	1553											
C3orf33	285315	broad.mit.edu	37	chr3	155481395	155481395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catgttgtctttccatatttCataagtccttttaagttttt	8	22	4	7	0	2	0	1	0	1	0	4	0	4	0	2	0	0	2	2	0	3	9			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:155481395C>T	uc003fal.1	-	6	937	c.667G>A	c.(667-669)GAA>AAA	p.E223K	C3orf33_uc003fam.1_Missense_Mutation_p.E266K	NM_173657	NP_775928	Q96NB5	Q96NB5_HUMAN	hypothetical protein LOC285315	223							hydrolase activity, acting on ester bonds|nucleic acid binding				0			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TTCCATATTTCATAAGTCCTT	0.323													21	105					0	0	0.012319	0	0		T	155481395	T	T	155481395	3	4	2	1	0	0	0	0	1	0	0	0	2226	835	29	4	92	4	C3orf33	3	155481395	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	2277499	155481395	42541035	125	1554											
B3GALNT1	8706	broad.mit.edu	37	chr3	160804463	160804463	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcacaaagaaactcaggAgtgacagcagcaggaggctc	16	4	11	10	0	2	2	2	1	0	1	3	4	2	4	0	3	3	3	0	3	2	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:160804463A>G	uc003fdv.2	-	5	499	c.80T>C	c.(79-81)CTC>CCC	p.L27P	B3GALNT1_uc003fdw.2_Missense_Mutation_p.L27P|B3GALNT1_uc003fdx.2_Missense_Mutation_p.L27P|B3GALNT1_uc003fdy.2_Missense_Mutation_p.L27P|B3GALNT1_uc003fdz.2_Missense_Mutation_p.L27P|B3GALNT1_uc003fea.2_Missense_Mutation_p.L27P|B3GALNT1_uc011bpa.1_Missense_Mutation_p.L27P	NM_033169	NP_149359	O75752	B3GL1_HUMAN	UDP-Gal:betaGlcNAc beta	27	Helical; Signal-anchor for type II membrane protein; (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosylgalactosylglucosylceramide beta-D-acetylgalactosaminyltransferase activity|UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;4.41e-05)|Lung(72;4.61e-05)			GAAACTCAGGAGTGACAGCAG	0.512													33	106					0	0	0.015359	0	0		G	160804463	G	G	160804463	3	3	2	1	0	0	0	0	1	0	0	0	1246	304	11	3	919	3	B3GALNT1	3	160804463	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	5323068	160804463	37217967	126	1555											
ZBBX	79740	broad.mit.edu	37	chr3	167086288	167086288	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcttgtggatcggaatTcttgcagtttcttctccatc	5	19	8	9	1	4	0	0	0	4	0	7	2	4	2	1	2	1	3	1	2	1	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:167086288T>C	uc003fep.2	-	5	466	c.143A>G	c.(142-144)GAA>GGA	p.E48G	ZBBX_uc011bpc.1_Missense_Mutation_p.E48G|ZBBX_uc003feq.2_Missense_Mutation_p.E19G	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	48	Potential.					intracellular	zinc ion binding			ovary(2)	2						GGATCGGAATTCTTGCAGTTT	0.328													43	242					0	0	0.013114	0	0		C	167086288	C	C	167086288	3	2	2	1	0	0	0	0	1	0	0	0	17542	1783	62	3	2327	3	ZBBX	3	167086288	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	6281825	167086288	30936142	127	1556											
TNIK	23043	broad.mit.edu	37	chr3	170784001	170784001	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catttctttcacatagaaacTttaacctttgagctcgctta	11	16	4	10	1	2	2	1	1	1	1	3	2	2	2	1	0	3	2	1	0	4	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:170784001T>G	uc003fhh.2	-	32	4319	c.3974A>C	c.(3973-3975)AAG>ACG	p.K1325T	TNIK_uc003fhi.2_Missense_Mutation_p.K1270T|TNIK_uc003fhj.2_Missense_Mutation_p.K1296T|TNIK_uc003fhk.2_Missense_Mutation_p.K1317T|TNIK_uc003fhl.2_Missense_Mutation_p.K1241T|TNIK_uc003fhm.2_Missense_Mutation_p.K1262T|TNIK_uc003fhn.2_Missense_Mutation_p.K1288T|TNIK_uc003fho.2_Missense_Mutation_p.K1233T|TNIK_uc003fhg.2_Missense_Mutation_p.K503T	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	1325	CNH.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			ACATAGAAACTTTAACCTTTG	0.393													55	226					0	0	0.01441	0	0		G	170784001	G	G	170784001	3	3	2	1	0	0	0	0	1	0	0	0	16338	1609	56	5	116	5	TNIK	3	170784001	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	3697713	170784001	27238429	128	1557											
PIK3CA	5290	broad.mit.edu	37	chr3	178936082	178936082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctacacgagatcctctctctGaaatcactgagcaggagaaa	14	8	8	11	1	3	4	1	2	2	2	5	6	4	4	1	1	2	1	1	1	3	1	rs121913273		TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:178936082G>A	uc003fjk.2	+	10	1781	c.1624G>A	c.(1624-1626)GAA>AAA	p.E542K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	542	PI3K helical.		E -> V (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation).|E -> Q (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E542K(481)|p.E542V(8)|p.E542Q(6)|p.E542G(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCCTCTCTCTGAAATCACTGA	0.333	E542K(SW948_LARGE_INTESTINE)|E542K(T84_LARGE_INTESTINE)|E542K(CAL51_BREAST)|E542K(JHUEM1_ENDOMETRIUM)|E542K(NCIH1341_LUNG)|E542K(VMCUB1_URINARY_TRACT)|E542K(BT483_BREAST)|E542K(HGC27_STOMACH)|E542K(IM95_STOMACH)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			66	94					0	0	0.01441	0	0		A	178936082	A	A	178936082	3	1	2	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1658	4	PIK3CA	3	178936082	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	8152081	178936082	19086348	129	1558											
ZNF639	51193	broad.mit.edu	37	chr3	179051248	179051248	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgagagtctccaagacCaaactgatgaagaaccgcca	14	6	8	13	1	2	5	0	3	2	3	3	6	2	5	5	0	2	0	5	0	4	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:179051248C>A	uc003fjq.1	+	6	839	c.496C>A	c.(496-498)CAA>AAA	p.Q166K	ZNF639_uc003fjr.1_Missense_Mutation_p.Q166K	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	166					initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			TCTCCAAGACCAAACTGATGA	0.418													23	143					4.26978e-12	4.38686e-12	0.01892	1	0		A	179051248	A	A	179051248	3	1	2	1	0	0	0	0	1	0	0	0	18081	595	21	5	510	5	ZNF639	3	179051248	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	115166	179051248	18971182	130	1559											
TTC14	151613	broad.mit.edu	37	chr3	180328303	180328303	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatagctgaatttgaaaaAgaaaaaggaaataagtcaaa	23	7	8	3	0	1	4	1	2	0	2	1	5	1	5	0	1	1	1	0	1	9	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:180328303A>C	uc003fkk.2	+	12	2418	c.2286A>C	c.(2284-2286)AAA>AAC	p.K762N	TTC14_uc003fkl.2_3'UTR|TTC14_uc003fkm.2_Intron	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	762							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AATTTGAAAAAGAAAAAGGAA	0.299													39	150					0	0	0.030466	0	0		C	180328303	C	C	180328303	3	2	2	1	0	0	0	0	1	0	0	0	16707	69	3	5	2362	5	TTC14	3	180328303	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	1277055	180328303	17694127	131	1560											
CLCN2	1181	broad.mit.edu	37	chr3	184075422	184075422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctacctccaataggtgccGcgaagcagcagcccaccccc	9	4	9	19	2	0	0	0	0	0	0	1	1	1	0	7	1	5	2	7	1	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:184075422G>A	uc003foi.2	-	7	882	c.758C>T	c.(757-759)GCG>GTG	p.A253V	CLCN2_uc003foh.2_5'Flank|CLCN2_uc010hya.1_Missense_Mutation_p.A253V|CLCN2_uc011brl.1_Missense_Mutation_p.A253V|CLCN2_uc011brm.1_Missense_Mutation_p.A209V|CLCN2_uc011brn.1_Missense_Mutation_p.A253V	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	253						chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	AATAGGTGCCGCGAAGCAGCA	0.642													103	66					0	0	0.01441	0	0		A	184075422	A	A	184075422	3	1	2	1	0	0	0	0	1	0	0	0	3466	1087	38	1	2010	1	CLCN2	3	184075422	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	3747119	184075422	13947008	132	1561											
EPHB3	2049	broad.mit.edu	37	chr3	184295588	184295588	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccgccctgccgagtttgAgaccacaagtgagagaggtt	10	7	13	11	2	0	3	0	2	0	2	0	6	0	3	4	1	2	2	4	1	1	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:184295588A>G	uc003foz.2	+	7	2059	c.1622A>G	c.(1621-1623)GAG>GGG	p.E541G		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	541	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			GCCGAGTTTGAGACCACAAGT	0.642													23	106					0	0	0.027356	0	0		G	184295588	G	G	184295588	3	3	2	1	0	0	0	0	1	0	0	0	5184	304	11	3	1648	3	EPHB3	3	184295588	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	220166	184295588	13726842	133	1562											
AHSG	197	broad.mit.edu	37	chr3	186338625	186338625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggagaagtgtcgcacccccGgaaaacacgcacagtggtgc	12	4	13	12	3	0	1	0	0	0	1	1	3	0	2	2	3	2	2	2	3	3	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:186338625G>A	uc003fqk.3	+	7	1091	c.1010G>A	c.(1009-1011)CGG>CAG	p.R337Q	AHSG_uc003fql.3_Missense_Mutation_p.R338Q|AHSG_uc003fqm.3_Missense_Mutation_p.R336Q|AHSG_uc010hyp.2_Missense_Mutation_p.R300Q	NM_001622	NP_001613	P02765	FETUA_HUMAN	alpha-2-HS-glycoprotein	337					acute-phase response|negative regulation of bone mineralization|negative regulation of insulin receptor signaling pathway|pinocytosis|positive regulation of phagocytosis|regulation of inflammatory response|skeletal system development	extracellular space	cysteine-type endopeptidase inhibitor activity|protein binding				0	all_cancers(143;3.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.27e-20)	GBM - Glioblastoma multiforme(93;0.0463)		TCGCACCCCCGGAAAACACGC	0.607													50	177					0	0	0.01441	0	0		A	186338625	A	A	186338625	3	1	2	1	0	0	0	0	1	0	0	0	420	1116	39	1	1036	1	AHSG	3	186338625	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2043037	186338625	11683805	134	1563											
MUC4	4585	broad.mit.edu	37	chr3	195501076	195501076	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cggagagaggagccaaggggGaagccagtcgccggcttgaa	11	3	18	9	3	0	2	0	1	0	1	1	6	0	5	3	5	2	1	3	5	3	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:195501076G>A	uc011bto.1	-	5	13120	c.12660C>T	c.(12658-12660)TTC>TTT	p.F4220F	MUC4_uc003fuz.2_Missense_Mutation_p.S28F|MUC4_uc003fva.2_5'UTR|MUC4_uc003fvb.2_5'UTR|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_5'UTR|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_5'UTR|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_5'UTR|MUC4_uc011bti.1_5'UTR|MUC4_uc011btj.1_Silent_p.F89F|MUC4_uc011btk.1_5'UTR|MUC4_uc011btl.1_5'UTR|MUC4_uc011btm.1_Silent_p.F89F|MUC4_uc011btn.1_5'UTR|MUC4_uc003fvo.2_Silent_p.F112F|MUC4_uc003fvp.2_Silent_p.F61F|MUC4_uc010hzu.1_Silent_p.F960F	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1105					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGCCAAGGGGGAAGCCAGTCG	0.652													12	38					0	0	0.007413	0	0		A	195501076	A	A	195501076	2	1	2	1	0	0	0	0	0	0	0	1	9996	1165	41	4		4	MUC4	3	195501076	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	9162451	195501076	2521354	135	1564											
MUC4	4585	broad.mit.edu	37	chr3	195517394	195517394	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatccacttggtgaggataAaacagttgatgttgtaaccg	13	11	11	6	1	0	2	0	2	0	0	1	4	1	3	2	2	2	3	2	2	4	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:195517394A>C	uc011bto.1	-	2	1517	c.1057T>G	c.(1057-1059)TTA>GTA	p.L353V	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.L235V	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	358					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGTGAGGATAAAACAGTTGAT	0.473													104	460					0	0	0.01441	0	0		C	195517394	C	C	195517394	3	2	2	1	0	0	0	0	1	0	0	0	9996	11	1	5		5	MUC4	3	195517394	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	16318	195517394	2505036	136	1565											
WDR53	348793	broad.mit.edu	37	chr3	196281389	196281389	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccatcattccctccagtaAgcagcaaataggattctggg	11	10	8	12	0	2	0	1	0	1	0	5	1	5	1	3	2	2	3	3	2	3	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr3:196281389A>C	uc003fwt.2	-	4	1241	c.770T>G	c.(769-771)CTT>CGT	p.L257R		NM_182627	NP_872433	Q7Z5U6	WDR53_HUMAN	WD repeat domain 53	257	WD 5.									breast(1)|skin(1)	2	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.6e-23)|all cancers(36;1.54e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.29e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		CCCTCCAGTAAGCAGCAAATA	0.473													69	311					0	0	0.01441	0	0		C	196281389	C	C	196281389	3	2	2	1	0	0	0	0	1	0	0	0	17331	72	3	5	310	5	WDR53	3	196281389	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	763995	196281389	1741041	137	1566											
ZNF721	170960	broad.mit.edu	37	chr4	435590	435590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacacgtgtagggtttctctCcagtatgaattttcttatgc	8	16	8	9	1	2	1	0	1	2	0	4	1	3	1	1	1	1	3	1	1	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:435590C>T	uc003gag.2	-	3	3357	c.2666G>A	c.(2665-2667)GGA>GAA	p.G889E	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.G921E|ZNF721_uc010ibe.2_Missense_Mutation_p.G877E	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	889						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GGGTTTCTCTCCAGTATGAAT	0.388													27	56					0	0	0.021523	0	0		T	435590	T	T	435590	3	4	2	1	0	0	0	0	1	0	0	0	18147	855	30	4	109	4	ZNF721	4	435590	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08		435590	190718686	138	1567											
PIGG	54872	broad.mit.edu	37	chr4	533039	533039	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacatctctgcgttatcatTtatttatatggagtgtattt	9	20	7	5	1	2	1	1	1	1	0	3	2	2	2	0	1	1	2	0	1	5	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:533039T>G	uc003gak.3	+	13	2969	c.2833T>G	c.(2833-2835)TTA>GTA	p.L945V	PIGG_uc003gaj.3_Missense_Mutation_p.L937V|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Missense_Mutation_p.L812V|PIGG_uc003gal.3_Missense_Mutation_p.L856V	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	945					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						GCGTTATCATTTATTTATATG	0.423													62	91					0	0	0.01441	0	0		G	533039	G	G	533039	3	3	2	1	0	0	0	0	1	0	0	0	11907	1838	64	5	2883	5	PIGG	4	533039	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	97449	533039	190621237	139	1568											
HAUS3	79441	broad.mit.edu	37	chr4	2240726	2240726	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaagtttcataatctcactGgtcaagctagaaattttagc	13	14	6	8	0	4	1	4	0	1	1	5	1	4	1	0	1	2	2	0	1	6	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:2240726G>A	uc003ges.1	-	3	1184	c.954C>T	c.(952-954)ACC>ACT	p.T318T	POLN_uc011bvi.1_Intron|HAUS3_uc011bvj.1_Silent_p.T318T|HAUS3_uc003get.1_Silent_p.T318T	NM_024511	NP_078787	Q68CZ6	HAUS3_HUMAN	HAUS augmin-like complex, subunit 3	318	Potential.				cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				large_intestine(2)|breast(2)	4						TAATCTCACTGGTCAAGCTAG	0.348													35	88					0	0	0.013726	0	0		A	2240726	A	A	2240726	2	1	2	1	0	0	0	0	0	0	0	1	6983	1335	47	4		4	HAUS3	4	2240726	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	1707687	2240726	188913550	140	1569											
SLC2A9	56606	broad.mit.edu	37	chr4	9909888	9909888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcagccaaagtctcgatgcCccctgtactcaaggtgacgt	9	8	11	13	2	2	1	1	1	1	0	3	2	2	1	3	2	3	2	3	2	3	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:9909888C>T	uc003gmc.2	-	8	1145	c.1084G>A	c.(1084-1086)GGC>AGC	p.G362S	SLC2A9_uc003gmd.2_Missense_Mutation_p.G333S	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein	362	Helical; Name=8; (Potential).				glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						GTCTCGATGCCCCCTGTACTC	0.483													31	93					0	0	0.010818	0	0		T	9909888	T	T	9909888	3	4	2	1	0	0	0	0	1	0	0	0	14577	623	22	4	558	4	SLC2A9	4	9909888	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	7669162	9909888	181244388	141	1570											
PPARGC1A	10891	broad.mit.edu	37	chr4	23815666	23815666	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgtccctcagttcaccggtCttgtctgcttcgtcgtcaaa	5	14	8	14	3	5	0	3	0	2	0	8	0	6	0	2	1	1	2	2	1	1	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:23815666C>T	uc003gqs.2	-	8	1560	c.1440G>A	c.(1438-1440)AAG>AAA	p.K480K	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	480					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				GTTCACCGGTCTTGTCTGCTT	0.463													53	155					0	0	0.01441	0	0		T	23815666	T	T	23815666	2	4	2	1	0	0	0	0	0	0	0	1	12319	912	32	4		4	PPARGC1A	4	23815666	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	13905778	23815666	167338610	142	1571											
RBM47	54502	broad.mit.edu	37	chr4	40440536	40440537	+	Frame_Shift_Ins	INS	-	T	T																															tgagctcacgcactgcgcgcINSttggcctcgtgcttgtggca																										TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:40440536_40440537insT	uc003gvc.2	-	4	1084_1085	c.374_375insA	c.(373-375)AAGfs	p.K125fs	RBM47_uc003gvd.2_Frame_Shift_Ins_p.K125fs|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Frame_Shift_Ins_p.K87fs|RBM47_uc003gvg.1_Frame_Shift_Ins_p.K125fs	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	125	RRM 1.					nucleus	nucleotide binding|RNA binding			breast(3)	3						GCACTGCGCGCTTGGCCTCGTG	0.649													36	71	---	---	---	---						.	T	40440537	T	T	40440536	7	5	2	1	0	1	1	0	0	0	0	0	13166	796	28	0	1422	0	RBM47	4	40440536	Frame_Shift_Ins	INS	-	TCGA-B7-5818-01A-11D-1600-08	16624870	40440536	150713740	143	1572											
CLOCK	9575	broad.mit.edu	37	chr4	56310904	56310904	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgcgtgtccgttgttccaAttggtctttcagatgttgca	6	16	10	9	2	2	1	1	0	1	1	4	1	4	1	2	1	2	4	2	1	1	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:56310904A>C	uc003haz.1	-	20	2514	c.1588T>G	c.(1588-1590)TTG>GTG	p.L530V	CLOCK_uc003hba.1_Missense_Mutation_p.L530V|CLOCK_uc010igu.1_RNA	NM_004898	NP_004889	O15516	CLOCK_HUMAN	clock	530	Implicated in the circadian rhythmicity (By similarity).				circadian rhythm|photoperiodism|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|transcription factor complex	DNA binding|histone acetyltransferase activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(2)|ovary(1)	3	Lung NSC(11;0.00335)|Glioma(25;0.08)|all_epithelial(27;0.0992)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0107)			CGTTGTTCCAATTGGTCTTTC	0.383													50	100					0	0	0.01441	0	0		C	56310904	C	C	56310904	3	2	2	1	0	0	0	0	1	0	0	0	3552	98	4	5	972	5	CLOCK	4	56310904	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	15870368	56310904	134843372	144	1573											
CLOCK	9575	broad.mit.edu	37	chr4	56319950	56319950	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccactgttgccccttagtcaGgaacctataataacatgatt	12	12	6	11	0	1	1	1	1	0	0	1	2	1	2	4	1	3	1	4	1	5	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:56319950G>A	uc003haz.1	-	15	1950	c.1024C>T	c.(1024-1026)CTG>TTG	p.L342L	CLOCK_uc003hba.1_Silent_p.L342L	NM_004898	NP_004889	O15516	CLOCK_HUMAN	clock	342	PAC.				circadian rhythm|photoperiodism|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|transcription factor complex	DNA binding|histone acetyltransferase activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(2)|ovary(1)	3	Lung NSC(11;0.00335)|Glioma(25;0.08)|all_epithelial(27;0.0992)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0107)			CCCTTAGTCAGGAACCTATAA	0.313													36	48					0	0	0.027894	0	0		A	56319950	A	A	56319950	2	1	2	1	0	0	0	0	0	0	0	1	3552	991	35	4		4	CLOCK	4	56319950	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	9046	56319950	134834326	145	1574											
EPHA5	2044	broad.mit.edu	37	chr4	66467875	66467875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgcagtcccgcagggtaaAtttgagttctatgaagattc	10	13	11	7	1	1	3	0	2	1	1	3	3	2	3	1	1	1	5	1	1	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:66467875A>G	uc003hcy.2	-	3	587	c.394T>C	c.(394-396)TTT>CTT	p.F132L	EPHA5_uc003hcx.2_Missense_Mutation_p.F63L|EPHA5_uc003hcz.2_Missense_Mutation_p.F132L|EPHA5_uc011cah.1_Missense_Mutation_p.F132L|EPHA5_uc011cai.1_Missense_Mutation_p.F132L|EPHA5_uc003hda.2_Missense_Mutation_p.F132L	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	132	Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CGCAGGGTAAATTTGAGTTCT	0.423										TSP Lung(17;0.13)			65	124					0	0	0.01441	0	0		G	66467875	G	G	66467875	3	3	2	1	0	0	0	0	1	0	0	0	5178	101	4	3	2783	3	EPHA5	4	66467875	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	10147925	66467875	124686401	146	1575											
RUFY3	22902	broad.mit.edu	37	chr4	71640928	71640928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggaccagaagaactatgtaGaagaactgaacagacatttg	17	8	10	6	0	0	6	0	1	0	5	0	7	0	7	1	1	3	1	1	1	7	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:71640928G>A	uc003hfq.2	+	7	1397	c.802G>A	c.(802-804)GAA>AAA	p.E268K	RUFY3_uc003hfp.3_Missense_Mutation_p.E328K|RUFY3_uc011cax.1_Missense_Mutation_p.E286K|RUFY3_uc003hfr.2_Missense_Mutation_p.E268K|RUFY3_uc011cay.1_Missense_Mutation_p.E204K	NM_014961	NP_055776	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 2	268	Potential.				negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			GAACTATGTAGAAGAACTGAA	0.358													47	130					0	0	0.01441	0	0		A	71640928	A	A	71640928	3	1	2	1	0	0	0	0	1	0	0	0	13765	943	33	4	1190	4	RUFY3	4	71640928	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	5173053	71640928	119513348	147	1576											
HERC3	8916	broad.mit.edu	37	chr4	89588548	89588548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattgatgaacattttaaaaCgagtcccaaaatccctggga	16	10	7	8	1	0	2	0	2	0	0	2	4	2	3	2	1	2	0	2	1	6	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:89588548C>T	uc003hrw.1	+	13	1518	c.1352C>T	c.(1351-1353)ACG>ATG	p.T451M	HERC3_uc011cdn.1_Missense_Mutation_p.T333M|HERC3_uc011cdo.1_Translation_Start_Site	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	451					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		CATTTTAAAACGAGTCCCAAA	0.318													26	61					0	0	0.021523	0	0		T	89588548	T	T	89588548	3	4	2	1	0	0	0	0	1	0	0	0	7075	536	19	1	1394	1	HERC3	4	89588548	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	17947620	89588548	101565728	148	1577											
NHEDC2	133308	broad.mit.edu	37	chr4	103988638	103988638	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcttcttgatgcatggAgggcgtgtaattcattcctg	6	15	12	8	1	2	1	1	1	1	0	3	2	3	2	1	2	2	3	1	2	1	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:103988638A>C	uc003hwx.3	-	2	942	c.70T>G	c.(70-72)TCC>GCC	p.S24A	NHEDC2_uc003hwy.2_Missense_Mutation_p.S24A|NHEDC2_uc011cew.1_Missense_Mutation_p.S24A|NHEDC2_uc011cex.1_Missense_Mutation_p.S24A|NHEDC2_uc011cey.1_Missense_Mutation_p.S24A	NM_178833	NP_849155	Q86UD5	NHDC2_HUMAN	Na+/H+ exchanger domain containing 2	24					sodium ion transport	integral to membrane|mitochondrial membrane	solute:hydrogen antiporter activity				0				OV - Ovarian serous cystadenocarcinoma(123;2.3e-08)		TGATGCATGGAGGGCGTGTAA	0.363													48	100					0	0	0.01441	0	0		C	103988638	C	C	103988638	3	2	2	1	0	0	0	0	1	0	0	0	10420	304	11	5	1587	5	NHEDC2	4	103988638	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	14400090	103988638	87165638	149	1578											
NDST4	64579	broad.mit.edu	37	chr4	115767007	115767007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagagtatgccctgtctgagGggtcaatgaggatggtgatg	10	10	16	5	0	2	4	1	3	1	1	2	5	2	5	1	4	1	1	1	4	3	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:115767007G>A	uc003ibu.2	-	10	2766	c.2087C>T	c.(2086-2088)CCC>CTC	p.P696L	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	696	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		CCTGTCTGAGGGGTCAATGAG	0.428													48	79					0	0	0.01441	0	0		A	115767007	A	A	115767007	3	1	2	1	0	0	0	0	1	0	0	0	10277	1232	43	4	551	4	NDST4	4	115767007	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	11778369	115767007	75387269	150	1579											
BBS7	55212	broad.mit.edu	37	chr4	122754405	122754405	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtaggtactttcaagttGtgtatctagaaaggtgttct	9	16	10	6	0	3	1	1	0	2	1	3	1	3	1	1	2	1	5	1	2	6	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:122754405G>A	uc003ied.2	-	15	1831	c.1657C>T	c.(1657-1659)CAA>TAA	p.Q553*	BBS7_uc003iee.1_Nonsense_Mutation_p.Q553*	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	553					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						CTTTCAAGTTGTGTATCTAGA	0.358									Bardet-Biedl_syndrome				47	102					0	0	0.01441	0	0		A	122754405	A	A	122754405	4	1	2	1	0	0	0	0	0	1	0	0	1342	1386	48	4	515	4	BBS7	4	122754405	Nonsense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	6987398	122754405	68399871	151	1580											
SLC25A31	83447	broad.mit.edu	37	chr4	128694699	128694699	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatatgataaaattaaagaAttctttcatattgatattgg	16	18	5	2	0	2	3	1	2	1	1	2	3	2	3	0	1	0	0	0	1	9	10			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:128694699A>C	uc003ifl.2	+	6	1064	c.918A>C	c.(916-918)GAA>GAC	p.E306D		NM_031291	NP_112581	Q9H0C2	ADT4_HUMAN	solute carrier family 25 (mitochondrial carrier;	306	Solcar 3.				transmembrane transport	cilium|flagellum|integral to membrane|mitochondrial inner membrane	binding|transporter activity				0						AAATTAAAGAATTCTTTCATA	0.358													34	64					0	0	0.021022	0	0		C	128694699	C	C	128694699	3	2	2	1	0	0	0	0	1	0	0	0	14520	98	4	5	940	5	SLC25A31	4	128694699	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	5940294	128694699	62459577	152	1581											
GUCY1A3	2982	broad.mit.edu	37	chr4	156634545	156634545	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctccatatttccctgtgAggttgctcagcagctgtggc	5	13	12	11	0	1	1	1	1	0	0	3	1	3	1	2	2	4	5	2	2	1	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:156634545A>C	uc003iov.2	+	8	1918	c.1382A>C	c.(1381-1383)GAG>GCG	p.E461A	GUCY1A3_uc010iqc.2_Missense_Mutation_p.E461A|GUCY1A3_uc003iow.2_Missense_Mutation_p.E461A|GUCY1A3_uc010iqd.2_Missense_Mutation_p.E460A|GUCY1A3_uc003iox.2_Missense_Mutation_p.E461A|GUCY1A3_uc003ioz.2_Missense_Mutation_p.E226A|GUCY1A3_uc003ioy.2_Missense_Mutation_p.E461A|GUCY1A3_uc010iqe.2_Missense_Mutation_p.E226A|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Missense_Mutation_p.E461A	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	461					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		TTTCCCTGTGAGGTTGCTCAG	0.527													21	67					0	0	0.010504	0	0		C	156634545	C	C	156634545	3	2	2	1	0	0	0	0	1	0	0	0	6910	304	11	5	1415	5	GUCY1A3	4	156634545	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	27939846	156634545	34519731	153	1582											
FAT1	2195	broad.mit.edu	37	chr4	187629762	187629762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttaaactgaatttagcttttCcaggtgtacttttaaaaaca	14	16	5	6	0	0	1	0	1	0	0	1	1	1	1	1	1	4	2	1	1	8	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr4:187629762C>T	uc003izf.2	-	2	1408	c.1220G>A	c.(1219-1221)GGA>GAA	p.G407E	FAT1_uc010iso.1_Missense_Mutation_p.G407E	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	407	Extracellular (Potential).|Cadherin 3.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TTTAGCTTTTCCAGGTGTACT	0.378										HNSCC(5;0.00058)			63	175					0	0	0.01441	0	0		T	187629762	T	T	187629762	3	4	2	1	0	0	0	0	1	0	0	0	5703	855	30	4	12650	4	FAT1	4	187629762	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	30995217	187629762	3524514	154	1583											
CTNND2	1501	broad.mit.edu	37	chr5	11732288	11732288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatggcagaggtggtttctGtttcagagccatccccgttg	6	12	14	9	1	2	2	1	0	1	2	3	3	3	3	3	4	1	4	3	4	0	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:11732288G>A	uc003jfa.1	-	2	279	c.134C>T	c.(133-135)ACA>ATA	p.T45I	CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	45					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GGTGGTTTCTGTTTCAGAGCC	0.483													69	85					0	0	0.01441	0	0		A	11732288	A	A	11732288	3	1	2	1	0	0	0	0	1	0	0	0	4023	1377	48	4	3627	4	CTNND2	5	11732288	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08		11732288	169182972	155	1584											
DNAH5	1767	broad.mit.edu	37	chr5	13864542	13864542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttcagaagaggtgcctcCatgatatttcttaacttaaa	13	15	6	7	0	2	3	1	1	1	2	3	3	3	3	2	1	2	0	2	1	6	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:13864542C>T	uc003jfd.2	-	28	4602	c.4560G>A	c.(4558-4560)ATG>ATA	p.M1520I		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1520	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GAGGTGCCTCCATGATATTTC	0.418									Kartagener_syndrome				42	100					0	0	0.033182	0	0		T	13864542	T	T	13864542	3	4	2	1	0	0	0	0	1	0	0	0	4610	594	21	4	9522	4	DNAH5	5	13864542	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	2132254	13864542	167050718	156	1585											
FAM105A	54491	broad.mit.edu	37	chr5	14601526	14601526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagaatggaaaggagagaCaccccgtaacaagctgatga	18	4	12	7	1	0	4	0	2	0	2	0	8	0	6	2	2	2	2	2	2	5	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:14601526C>T	uc003jfj.2	+	4	436	c.323C>T	c.(322-324)ACA>ATA	p.T108I		NM_019018	NP_061891	Q9NUU6	F105A_HUMAN	hypothetical protein LOC54491	108										ovary(1)	1	Lung NSC(4;0.00592)					AAAGGAGAGACACCCCGTAAC	0.413													29	55					0	0	0.010818	0	0		T	14601526	T	T	14601526	3	4	2	1	0	0	0	0	1	0	0	0	5398	478	17	4	337	4	FAM105A	5	14601526	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	736984	14601526	166313734	157	1586											
RXFP3	51289	broad.mit.edu	37	chr5	33937024	33937024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggagttgccggacggcgCgccgccaggacatcccccgg	5	4	16	16	6	0	0	0	0	0	0	1	3	1	3	5	5	1	2	5	5	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:33937024C>T	uc003jic.1	+	1	536	c.179C>T	c.(178-180)GCG>GTG	p.A60V		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	60	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CCGGACGGCGCGCCGCCAGGA	0.701													44	54					0	0	0.01441	0	0		T	33937024	T	T	33937024	3	4	2	1	0	0	0	0	1	0	0	0	13786	768	27	1	181	1	RXFP3	5	33937024	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	19335498	33937024	146978236	158	1587											
PRLR	5618	broad.mit.edu	37	chr5	35068965	35068965	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagatccacacggttgtaTcattcatggtgaagtctaaa	13	11	9	8	1	3	2	2	1	1	1	4	3	4	2	1	2	0	2	1	2	4	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:35068965T>C	uc003jjm.2	-	8	1231	c.701A>G	c.(700-702)GAT>GGT	p.D234G	PRLR_uc003jjg.1_Missense_Mutation_p.D234G|PRLR_uc003jjh.1_Missense_Mutation_p.D234G|PRLR_uc003jji.1_Missense_Mutation_p.D163G|PRLR_uc003jjj.1_Intron|PRLR_uc003jjk.1_Intron|PRLR_uc003jjl.3_Missense_Mutation_p.D133G|PRLR_uc010iuw.1_Intron	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	234	Extracellular (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	CACGGTTGTATCATTCATGGT	0.408													8	27					0	0	0.020292	0	0		C	35068965	C	C	35068965	3	2	2	1	0	0	0	0	1	0	0	0	12553	1435	50	3	1179	3	PRLR	5	35068965	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	1131941	35068965	145846295	159	1588											
ADAMTS6	11174	broad.mit.edu	37	chr5	64511238	64511238	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaatgaaaagctgtcccAgcaacatcaaatttcctagg	14	11	7	9	0	1	1	1	1	0	0	3	1	3	1	2	1	3	3	2	1	6	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:64511238A>G	uc003jtp.2	-	19	3163	c.2349T>C	c.(2347-2349)GCT>GCC	p.A783A	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA|ADAMTS6_uc003jtr.1_Silent_p.A404A	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	783	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		AAGCTGTCCCAGCAACATCAA	0.398													61	117					0	0	0.01441	0	0		G	64511238	G	G	64511238	2	3	2	1	0	0	0	0	0	0	0	1	270	175	7	3		3	ADAMTS6	5	64511238	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	29442273	64511238	116404022	160	1589											
BDP1	55814	broad.mit.edu	37	chr5	70805419	70805419	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcctcaaaggaagaggtaCtagagaagattcttgtctct	12	13	9	7	0	3	3	1	0	2	3	5	5	4	4	1	2	1	1	1	2	5	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:70805419C>A	uc003kbp.1	+	17	2763	c.2500C>A	c.(2500-2502)CTA>ATA	p.L834I	BDP1_uc003kbn.1_Missense_Mutation_p.L834I|BDP1_uc003kbo.2_Missense_Mutation_p.L834I	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	834	9 X 55 AA repeats of G-R-R-X-I-S-P-X-E-N- G-X-E-E-V-K-P-X-X-E-M-E-T-D-L-K-X-T-G-R- E-X-X-X-R-E-K-T-X-E-X-X-D-A-X-E-E-I-D-X- D-L-E-E-T.|1; approximate.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		GGAAGAGGTACTAGAGAAGAT	0.428													34	100					3.78316e-11	3.87981e-11	0.025465	1	0		A	70805419	A	A	70805419	3	1	2	1	0	0	0	0	1	0	0	0	1396	564	20	5	2566	5	BDP1	5	70805419	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	6294181	70805419	110109841	161	1590											
HEXB	3074	broad.mit.edu	37	chr5	74001088	74001088	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgttcttcactggcacatAgttgatgaccagtctttccc	9	14	7	11	0	3	2	1	2	2	0	4	2	4	2	2	1	0	3	2	1	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:74001088A>T	uc003kdf.3	+	6	831	c.714A>T	c.(712-714)ATA>ATT	p.I238I	HEXB_uc003kdd.2_Silent_p.I13I|HEXB_uc003kde.2_Silent_p.I238I|HEXB_uc010izh.2_RNA	NM_000521	NP_000512	P07686	HEXB_HUMAN	hexosaminidase B preproprotein	238					cell death	lysosome	cation binding|protein heterodimerization activity|protein homodimerization activity			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.72e-57)		ACTGGCACATAGTTGATGACC	0.328													37	89					0	0	0.013114	0	0		T	74001088	T	T	74001088	2	4	2	1	0	0	0	0	0	0	0	1	7090	410	15	5		5	HEXB	5	74001088	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	3195669	74001088	106914172	162	1591											
DMGDH	29958	broad.mit.edu	37	chr5	78324391	78324391	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttcttgcctgtggcccagCaactccaagaactccaagct	9	10	7	15	0	1	1	0	0	1	1	3	1	3	1	4	1	5	2	4	1	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:78324391C>A	uc003kfs.2	-	12	1903	c.1897G>T	c.(1897-1899)GCT>TCT	p.A633S	DMGDH_uc011cte.1_Missense_Mutation_p.A483S|DMGDH_uc011ctf.1_Missense_Mutation_p.A432S|DMGDH_uc011ctg.1_Missense_Mutation_p.A253S	NM_013391	NP_037523	Q9UI17	M2GD_HUMAN	dimethylglycine dehydrogenase precursor	633					choline metabolic process|glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|dimethylglycine dehydrogenase activity|electron carrier activity			ovary(2)|liver(1)|skin(1)	4		all_lung(232;0.000638)|Lung NSC(167;0.00173)|Ovarian(174;0.0262)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;6.52e-45)|Epithelial(54;5.96e-40)|all cancers(79;3.56e-35)		TGTGGCCCAGCAACTCCAAGA	0.393													132	310					8.36638e-50	8.83817e-50	0.01441	1	0		A	78324391	A	A	78324391	3	1	2	1	0	0	0	0	1	0	0	0	4587	710	25	5	723	5	DMGDH	5	78324391	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4323303	78324391	102590869	163	1592											
GPR98	84059	broad.mit.edu	37	chr5	90124912	90124912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtgggttctcggctggCagtggctcacaagaaggcca	7	10	14	10	1	3	1	1	0	2	1	4	1	3	1	1	5	0	4	1	5	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:90124912C>T	uc003kju.2	+	77	16616	c.16520C>T	c.(16519-16521)GCA>GTA	p.A5507V	GPR98_uc003kjt.2_Missense_Mutation_p.A3213V|GPR98_uc003kjw.2_Missense_Mutation_p.A1168V	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	5507	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TCTCGGCTGGCAGTGGCTCAC	0.448													58	186					0	0	0.01441	0	0		T	90124912	T	T	90124912	3	4	2	1	0	0	0	0	1	0	0	0	6737	710	25	2	16826	2	GPR98	5	90124912	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	11800521	90124912	90790348	164	1593											
SLCO4C1	353189	broad.mit.edu	37	chr5	101593661	101593661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttacctccaagagtagctGcgaagctggatgtcaatccg	10	11	10	10	2	1	1	1	0	0	1	3	3	3	2	3	1	4	3	3	1	5	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:101593661G>A	uc003knm.2	-	7	1546	c.1259C>T	c.(1258-1260)GCA>GTA	p.A420V		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	420	Helical; Name=8; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		AAGAGTAGCTGCGAAGCTGGA	0.299													35	71					0	0	0.019004	0	0		A	101593661	A	A	101593661	3	1	2	1	0	0	0	0	1	0	0	0	14755	1319	46	2	943	2	SLCO4C1	5	101593661	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	11468749	101593661	79321599	165	1594											
YTHDC2	64848	broad.mit.edu	37	chr5	112917175	112917175	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttatttttacgccgaatgaGagctccatctaaaccttggt	10	14	7	10	2	1	1	0	1	1	1	2	3	2	1	3	1	3	1	3	1	5	6	rs116542037	by1000genomes	TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:112917175G>A	uc003kqn.2	+	25	3599	c.3416G>A	c.(3415-3417)AGA>AAA	p.R1139K		NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	1139							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		CGCCGAATGAGAGCTCCATCT	0.393													65	123					0	0	0.01441	0	0		A	112917175	A	A	112917175	3	1	2	1	0	0	0	0	1	0	0	0	17523	942	33	4	3514	4	YTHDC2	5	112917175	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	11323514	112917175	67998085	166	1595											
PCDHA1	56147	broad.mit.edu	37	chr5	140167731	140167731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccggcagcaggcggcgcgcGcatcccgttccgcgtggggc	3	4	18	16	8	0	0	0	0	0	0	2	0	2	0	3	5	1	4	3	5	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:140167731G>A	uc003lhb.2	+	1	1856	c.1856G>A	c.(1855-1857)CGC>CAC	p.R619H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.R619H	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	619	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGGCGCGCGCATCCCGTTC	0.667													24	33					0	0	0.024334	0	0		A	140167731	A	A	140167731	3	1	2	1	0	0	0	0	1	0	0	0	11538	1087	38	1	1858	1	PCDHA1	5	140167731	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	27250556	140167731	40747529	167	1596											
PCDHB7	56129	broad.mit.edu	37	chr5	140553975	140553975	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgccctcaggtccctggActacgaggccctgcaggcgt	5	9	13	14	2	1	0	1	0	0	0	2	2	2	1	3	4	3	2	3	4	1	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:140553975A>G	uc003lit.2	+	1	1733	c.1559A>G	c.(1558-1560)GAC>GGC	p.D520G		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	520	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGTCCCTGGACTACGAGGCC	0.701													30	61					0	0	0.015359	0	0		G	140553975	G	G	140553975	3	3	2	1	0	0	0	0	1	0	0	0	11566	275	10	3	1561	3	PCDHB7	5	140553975	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	386244	140553975	40361285	168	1597											
PCDHGA2	56113	broad.mit.edu	37	chr5	140720519	140720519	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccgccactgtcacgctcAccgtggccgtggccgacagg	5	7	12	17	5	3	0	2	0	1	0	4	1	3	0	5	3	0	1	5	3	0	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:140720519A>G	uc003ljk.1	+	1	2166	c.1981A>G	c.(1981-1983)ACC>GCC	p.T661A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.T661A	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	661	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCACGCTCACCGTGGCCGT	0.682													6	41					0	0	0.014323	0	0		G	140720519	G	G	140720519	3	3	2	1	0	0	0	0	1	0	0	0	11573	159	6	3	1983	3	PCDHGA2	5	140720519	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	166544	140720519	40194741	169	1598											
PCDHGA2	56113	broad.mit.edu	37	chr5	140720559	140720559	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccccgacatcctggccgAcctgggcagcctcgagccct	6	6	11	18	3	0	0	0	0	0	0	3	4	2	0	7	2	2	1	7	2	0	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:140720559A>G	uc003ljk.1	+	1	2206	c.2021A>G	c.(2020-2022)GAC>GGC	p.D674G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.D674G	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	674	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCCTGGCCGACCTGGGCAGC	0.687													13	80					0	0	0.021523	0	0		G	140720559	G	G	140720559	3	3	2	1	0	0	0	0	1	0	0	0	11573	275	10	3	2023	3	PCDHGA2	5	140720559	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	40	140720559	40194701	170	1599											
PCDHGA3	56112	broad.mit.edu	37	chr5	140724034	140724034	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaataaaaattggtgaacTaacggttcctggaacccgat	15	9	10	7	2	0	1	0	1	0	0	1	4	1	3	2	4	3	1	2	4	7	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:140724034T>C	uc003ljm.1	+	1	434	c.434T>C	c.(433-435)CTA>CCA	p.L145P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Missense_Mutation_p.L145P	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	145	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTGGTGAACTAACGGTTCCT	0.348													30	57					0	0	0.037714	0	0		C	140724034	C	C	140724034	3	2	2	1	0	0	0	0	1	0	0	0	11574	1522	53	3	436	3	PCDHGA3	5	140724034	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	3475	140724034	40191226	171	1600											
PCDHGB3	56102	broad.mit.edu	37	chr5	140751700	140751700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcttcgatatggtgccgcGctctgcagagcctggctacc	5	10	12	14	3	2	1	0	0	2	1	3	2	2	1	3	2	4	4	3	2	2	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:140751700G>A	uc003ljw.1	+	1	1739	c.1739G>A	c.(1738-1740)CGC>CAC	p.R580H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.R580H|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	580	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGGTGCCGCGCTCTGCAGAG	0.642													22	34					0	0	0.027356	0	0		A	140751700	A	A	140751700	3	1	2	1	0	0	0	0	1	0	0	0	11583	1087	38	1	1741	1	PCDHGB3	5	140751700	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	27666	140751700	40163560	172	1601											
FAT2	2196	broad.mit.edu	37	chr5	150901495	150901495	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggtctcggtctgtggcatgGatcttacccaccatgccacc	6	10	11	14	1	3	0	0	0	3	0	4	1	3	1	4	4	2	1	4	4	1	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:150901495G>A	uc003lue.3	-	18	10672	c.10659C>T	c.(10657-10659)ATC>ATT	p.I3553I	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Silent_p.I246I	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3553	Cadherin 32.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTGTGGCATGGATCTTACCCA	0.572													23	52					0	0	0.014323	0	0		A	150901495	A	A	150901495	2	1	2	1	0	0	0	0	0	0	0	1	5704	1164	41	4		4	FAT2	5	150901495	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	10149795	150901495	30013765	173	1602											
OR2Y1	134083	broad.mit.edu	37	chr5	180166564	180166564	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatggccacagagaggcatGgccattgcgagacctgtctg	9	7	14	11	2	1	2	0	0	1	2	1	5	1	2	3	3	1	1	3	3	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:180166564G>A	uc003mmf.1	-	1	495	c.495C>T	c.(493-495)GCC>GCT	p.A165A		NM_001001657	NP_001001657	Q8NGV0	OR2Y1_HUMAN	olfactory receptor, family 2, subfamily Y,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(89;1.25e-05)|all_epithelial(37;4.36e-06)|Renal(175;0.000159)|Lung NSC(126;0.00317)|all_lung(126;0.0041)|Breast(19;0.114)	all_cancers(40;0.0834)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGAGAGGCATGGCCATTGCGA	0.547													24	42					0	0	0.01892	0	0		A	180166564	A	A	180166564	2	1	2	1	0	0	0	0	0	0	0	1	11054	1335	47	4		4	OR2Y1	5	180166564	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	29265069	180166564	748696	174	1603											
GNB2L1	10399	broad.mit.edu	37	chr5	180665127	180665127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatgctggggcctgtggcaGcacacagccagtagcggtta	8	8	15	10	1	0	1	0	1	0	0	0	1	0	1	2	4	4	5	2	4	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr5:180665127G>A	uc003mni.1	-	6	855	c.749C>T	c.(748-750)GCT>GTT	p.A250V	GNB2L1_uc003mnh.1_Missense_Mutation_p.A209V|GNB2L1_uc003mnk.1_Missense_Mutation_p.A172V|GNB2L1_uc003mnj.1_Missense_Mutation_p.A204V|GNB2L1_uc003mnl.1_Missense_Mutation_p.A34V	NM_006098	NP_006089	P63244	GBLP_HUMAN	guanine nucleotide binding protein (G protein),	250	WD 6.				apoptosis|cell cycle|gastrulation|interspecies interaction between organisms|negative regulation of cell growth|negative regulation of phagocytosis|negative regulation of translation|negative regulation of Wnt receptor signaling pathway|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of gastrulation|positive regulation of GTPase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein homooligomerization|positive regulation of protein phosphorylation|regulation of cell cycle|regulation of cell division|regulation of establishment of cell polarity|regulation of protein localization|rhythmic process	cytoskeleton|dendrite|midbody|nucleus|perikaryon|perinuclear region of cytoplasm|phagocytic cup|small ribosomal subunit	ion channel inhibitor activity|protein kinase C binding|protein phosphatase binding|protein tyrosine kinase inhibitor activity|receptor tyrosine kinase binding|SH2 domain binding				0	all_cancers(89;8.79e-06)|all_epithelial(37;1.13e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0654)	all_cancers(40;0.000209)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.101)|all cancers(165;0.11)		GCCTGTGGCAGCACACAGCCA	0.512													4	84					0	0	0.009096	0	0		A	180665127	A	A	180665127	3	1	2	1	0	0	0	0	1	0	0	0	6533	971	34	2	216	2	GNB2L1	5	180665127	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	498563	180665127	250133	175	1604											
FOXC1	2296	broad.mit.edu	37	chr6	1611204	1611204	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggcggcggcggcgcttcaAgaagaaggacgcggtgaagg	9	3	20	9	7	1	3	1	1	0	2	1	4	1	4	0	7	0	1	0	7	4	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:1611204A>C	uc003mtp.2	+	1	524	c.524A>C	c.(523-525)AAG>ACG	p.K175T		NM_001453	NP_001444	Q12948	FOXC1_HUMAN	forkhead box C1	175					anti-apoptosis|artery morphogenesis|blood vessel remodeling|brain development|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|germ cell migration|glycosaminoglycan metabolic process|lacrimal gland development|lymphangiogenesis|metanephros development|negative regulation of mitotic cell cycle|neural crest cell fate commitment|Notch signaling pathway|odontogenesis of dentine-containing tooth|ossification|ovarian follicle development|paraxial mesodermal cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	nuclear heterochromatin|transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(93;0.0733)	all_cancers(2;4.45e-07)|all_epithelial(2;4.33e-05)|all_lung(73;0.0713)|all_hematologic(90;0.0895)		Epithelial(2;0.0904)|OV - Ovarian serous cystadenocarcinoma(45;0.095)|all cancers(2;0.168)		CGGCGCTTCAAGAAGAAGGAC	0.493													3	8					0	0	0.021553	0	0		C	1611204	C	C	1611204	3	2	2	1	0	0	0	0	1	0	0	0	6008	72	3	5	526	5	FOXC1	6	1611204	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08		1611204	169503863	176	1605											
F13A1	2162	broad.mit.edu	37	chr6	6174920	6174920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gataagctgtgatggtgtaaCggttgtggctgttgttccgg	6	14	16	5	2	0	1	0	1	0	0	1	2	1	1	1	4	2	6	1	4	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:6174920C>T	uc003mwv.2	-	12	1763	c.1640G>A	c.(1639-1641)CGT>CAT	p.R547H	F13A1_uc011dib.1_Missense_Mutation_p.R484H	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	547					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	GATGGTGTAACGGTTGTGGCT	0.507													61	93					0	0	0.01441	0	0		T	6174920	T	T	6174920	3	4	2	1	0	0	0	0	1	0	0	0	5348	536	19	1	574	1	F13A1	6	6174920	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4563716	6174920	164940147	177	1606											
SYCP2L	221711	broad.mit.edu	37	chr6	10907896	10907896	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgaagctttcaaagaaatTaaggatcgagaatttgagac	16	10	10	5	1	1	4	1	2	0	3	2	7	1	5	0	1	1	2	0	1	5	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:10907896T>G	uc003mzo.2	+	10	1094	c.798T>G	c.(796-798)ATT>ATG	p.I266M	SYCP2L_uc011din.1_Missense_Mutation_p.I107M|SYCP2L_uc010jow.2_Translation_Start_Site	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	266						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			TCAAAGAAATTAAGGATCGAG	0.393													61	157					0	0	0.01441	0	0		G	10907896	G	G	10907896	3	3	2	1	0	0	0	0	1	0	0	0	15458	1742	61	5	836	5	SYCP2L	6	10907896	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	4732976	10907896	160207171	178	1607											
HIST1H4H	8365	broad.mit.edu	37	chr6	26285499	26285499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcacggtcttgcgtttggCgtgctctgtgtaagtgacag	5	14	14	8	3	3	1	1	1	2	0	3	1	3	1	0	2	2	3	0	2	1	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:26285499C>T	uc003nhm.2	-	1	229	c.229G>A	c.(229-231)GCC>ACC	p.A77T	HIST1H4H_uc003nhl.1_RNA	NM_003543	NP_003534	P62805	H4_HUMAN	histone cluster 1, H4h	77				A -> P (in Ref. 11; CAG46986).	CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						TTGCGTTTGGCGTGCTCTGTG	0.537										HNSCC(76;0.23)			4	108					0	0	0.009096	0	0		T	26285499	T	T	26285499	3	4	2	1	0	0	0	0	1	0	0	0	7188	768	27	1	86	1	HIST1H4H	6	26285499	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	15377603	26285499	144829568	179	1608											
PGBD1	84547	broad.mit.edu	37	chr6	28269472	28269472	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgaacttcgctgatgttcTtttagagagaggtcagtatc	10	14	11	6	1	2	4	1	2	1	2	4	6	2	4	0	1	1	3	0	1	3	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:28269472T>A	uc003nky.2	+	7	2211	c.1841T>A	c.(1840-1842)CTT>CAT	p.L614H	PGBD1_uc003nkz.2_Missense_Mutation_p.L614H	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	614					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						GCTGATGTTCTTTTAGAGAGA	0.413													102	209					0	0	0.01441	0	0		A	28269472	A	A	28269472	3	1	2	1	0	0	0	0	1	0	0	0	11799	1609	56	5	1863	5	PGBD1	6	28269472	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	1983973	28269472	142845595	180	1609											
MDC1	9656	broad.mit.edu	37	chr6	30671627	30671627	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgaattggtgtctcaagaAgctggggagaggcaggctca	11	8	15	7	0	2	3	2	1	1	2	3	4	2	3	0	5	1	3	0	5	3	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:30671627A>C	uc003nrg.3	-	10	5773	c.5333T>G	c.(5332-5334)CTT>CGT	p.L1778R	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Missense_Mutation_p.L1385R	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1778	Required for nuclear localization (NLS2).				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TGTCTCAAGAAGCTGGGGAGA	0.557								Other_conserved_DNA_damage_response_genes					56	102					0	0	0.01441	0	0		C	30671627	C	C	30671627	3	2	2	1	0	0	0	0	1	0	0	0	9421	72	3	5	960	5	MDC1	6	30671627	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	2402155	30671627	140443440	181	1610											
C6orf10	10665	broad.mit.edu	37	chr6	32261435	32261435	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacacctgactcactcttctTtacttgggactcctgtcctc	6	14	6	15	0	3	1	1	1	2	0	6	3	5	2	3	1	1	0	3	1	1	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:32261435T>G	uc011dpy.1	-	12	1188	c.1015A>C	c.(1015-1017)AAG>CAG	p.K339Q	C6orf10_uc011dpx.1_Missense_Mutation_p.K121Q	NM_006781	NP_006772	Q5SRN2	CF010_HUMAN	chromosome 6 open reading frame 10	339						integral to membrane				skin(1)	1						TCACTCTTCTTTACTTGGGAC	0.458													90	216					0	0	0.01441	0	0		G	32261435	G	G	32261435	3	3	2	1	0	0	0	0	1	0	0	0	2320	1850	64	5	680	5	C6orf10	6	32261435	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	1589808	32261435	138853632	182	1611											
HLA-DOA	3111	broad.mit.edu	37	chr6	32974922	32974922	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccacgaggaagcccaccagGccgatggccaggcccagggc	9	1	14	17	2	0	0	0	0	0	0	0	3	0	1	6	5	1	0	6	5	1	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:32974922G>A	uc003ocr.2	-	4	760	c.684C>T	c.(682-684)GGC>GGT	p.G228G	HLA-DOA_uc010juj.2_Intron|HLA-DOA_uc010jui.2_3'UTR	NM_002119	NP_002110	P06340	DOA_HUMAN	major histocompatibility complex, class II, DO	228	Helical; (Potential).				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endosome membrane|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0						AGCCCACCAGGCCGATGGCCA	0.627													52	105					0	0	0.01441	0	0		A	32974922	A	A	32974922	2	1	2	1	0	0	0	0	0	0	0	1	7216	1190	42	2		2	HLA-DOA	6	32974922	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	713487	32974922	138140145	183	1612											
MDGA1	266727	broad.mit.edu	37	chr6	37626122	37626122	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgtgcaatacgctcgatgCgcagcgtctcgttgaacacc	8	9	11	13	6	1	1	0	1	1	0	3	2	1	1	1	0	6	4	1	0	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:37626122C>T	uc003onu.1	-	3	1460	c.281G>A	c.(280-282)CGC>CAC	p.R94H		NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	94	Ig-like 1.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						ACGCTCGATGCGCAGCGTCTC	0.657													7	37					0	0	0.02938	0	0		T	37626122	T	T	37626122	3	4	2	1	0	0	0	0	1	0	0	0	9424	768	27	1	2646	1	MDGA1	6	37626122	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4651200	37626122	133488945	184	1613											
DNAH8	1769	broad.mit.edu	37	chr6	38877485	38877485	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatgggcctgtttcatgaCatggtttcagagagctgtga	10	12	12	7	0	2	3	2	2	0	1	2	4	2	3	1	2	1	3	1	2	1	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:38877485C>T	uc003ooe.1	+	63	9654	c.9054C>T	c.(9052-9054)GAC>GAT	p.D3018D	uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TGTTTCATGACATGGTTTCAG	0.398													29	66					0	0	0.030593	0	0		T	38877485	T	T	38877485	2	4	2	1	0	0	0	0	0	0	0	1	4613	477	17	4		4	DNAH8	6	38877485	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1251363	38877485	132237582	185	1614											
DNAH8	1769	broad.mit.edu	37	chr6	38906676	38906676	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggcctatacgaaaaccaCaaattcctgtttgtactcct	13	11	6	11	1	0	1	0	0	0	1	2	2	2	1	4	1	3	2	4	1	6	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:38906676C>T	uc003ooe.1	+	77	11868	c.11268C>T	c.(11266-11268)CAC>CAT	p.H3756H	DNAH8_uc003oog.1_Silent_p.H205H|uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ACGAAAACCACAAATTCCTGT	0.383													51	76					0	0	0.01441	0	0		T	38906676	T	T	38906676	2	4	2	1	0	0	0	0	0	0	0	1	4613	477	17	4		4	DNAH8	6	38906676	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	29191	38906676	132208391	186	1615											
SPATS1	221409	broad.mit.edu	37	chr6	44320470	44320470	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgtgttacaggtgctaaTtgcagtgattttctggaatc	8	16	10	7	0	2	1	0	1	2	0	3	2	2	2	0	2	3	3	0	2	3	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:44320470T>G	uc003oxk.2	+	2	494	c.147T>G	c.(145-147)AAT>AAG	p.N49K	SPATS1_uc003oxg.2_RNA|SPATS1_uc010jzb.2_Intron	NM_145026	NP_659463	Q496A3	SPAS1_HUMAN	spermatogenesis associated, serine-rich 1	49										skin(1)	1	all_lung(25;0.00469)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CAGGTGCTAATTGCAGTGATT	0.348													40	59					0	0	0.033182	0	0		G	44320470	G	G	44320470	3	3	2	1	0	0	0	0	1	0	0	0	15043	1490	52	5	153	5	SPATS1	6	44320470	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	5413794	44320470	126794597	187	1616											
TDRD6	221400	broad.mit.edu	37	chr6	46656373	46656373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaggaggtgcacgggtgcGtcctggacgtgctgctgctc	5	8	17	11	3	0	0	0	0	0	0	2	2	1	2	1	4	5	5	1	4	1	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:46656373G>A	uc003oyj.2	+	1	508	c.508G>A	c.(508-510)GTC>ATC	p.V170I	TDRD6_uc010jze.2_Missense_Mutation_p.V164I	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	170					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			GCACGGGTGCGTCCTGGACGT	0.701													21	45					0	0	0.021523	0	0		A	46656373	A	A	46656373	3	1	2	1	0	0	0	0	1	0	0	0	15759	1145	40	1	510	1	TDRD6	6	46656373	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2335903	46656373	124458694	188	1617											
TDRD6	221400	broad.mit.edu	37	chr6	46658380	46658380	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtggtccagagcacttattAgtgggatacagtctgtggag	10	11	14	6	0	1	1	0	0	1	1	2	3	2	3	1	3	2	1	1	3	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:46658380A>G	uc003oyj.2	+	1	2515	c.2515A>G	c.(2515-2517)AGT>GGT	p.S839G	TDRD6_uc010jze.2_Missense_Mutation_p.S833G	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	839	Tudor 4.				cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			AGCACTTATTAGTGGGATACA	0.388													85	123					0	0	0.01441	0	0		G	46658380	G	G	46658380	3	3	2	1	0	0	0	0	1	0	0	0	15759	420	15	3	2517	3	TDRD6	6	46658380	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	2007	46658380	124456687	189	1618											
LGSN	51557	broad.mit.edu	37	chr6	63990680	63990680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctgaccaggcctggtagagGaggaaaaactctcgacattg	12	8	12	9	1	2	2	0	1	2	1	3	5	2	4	2	4	1	1	2	4	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:63990680G>A	uc003peh.2	-	4	810	c.776C>T	c.(775-777)TCC>TTC	p.S259F	LGSN_uc003pei.2_Intron	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	259					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	CCTGGTAGAGGAGGAAAAACT	0.433													20	61					0	0	0.014323	0	0		A	63990680	A	A	63990680	3	1	2	1	0	0	0	0	1	0	0	0	8775	1174	41	4	757	4	LGSN	6	63990680	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	17332300	63990680	107124387	190	1619											
LMBRD1	55788	broad.mit.edu	37	chr6	70409038	70409038	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagaagtatcatgcagagaAaaaggagtgcttggggcctg	13	7	15	6	0	1	2	1	0	0	2	1	4	1	3	1	3	2	4	1	3	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:70409038A>C	uc003pfa.2	-	13	1350	c.1235T>G	c.(1234-1236)TTT>TGT	p.F412C	LMBRD1_uc003pey.2_Missense_Mutation_p.F208C|LMBRD1_uc003pez.2_Missense_Mutation_p.F339C|LMBRD1_uc010kal.2_Missense_Mutation_p.F339C|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	412	Helical; Name=8; (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						CATGCAGAGAAAAAGGAGTGC	0.338													52	96					0	0	0.01441	0	0		C	70409038	C	C	70409038	3	2	2	1	0	0	0	0	1	0	0	0	8859	14	1	5	403	5	LMBRD1	6	70409038	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	6418358	70409038	100706029	191	1620											
RIMS1	22999	broad.mit.edu	37	chr6	72967833	72967833	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtacttttgccagtaggcTataggtctagtgctagagaa	10	13	12	6	0	1	1	0	0	1	1	1	2	1	1	1	2	3	4	1	2	7	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:72967833T>C	uc003pga.2	+	17	2853	c.2776T>C	c.(2776-2778)TAT>CAT	p.Y926H	RIMS1_uc011dyb.1_Missense_Mutation_p.Y551H|RIMS1_uc003pgc.2_Missense_Mutation_p.Y552H|RIMS1_uc010kaq.2_Missense_Mutation_p.Y399H|RIMS1_uc011dyc.1_Missense_Mutation_p.Y400H|RIMS1_uc010kar.2_Missense_Mutation_p.Y319H|RIMS1_uc011dyd.1_Missense_Mutation_p.Y385H|RIMS1_uc003pgf.2_Missense_Mutation_p.Y142H|RIMS1_uc003pgg.2_Missense_Mutation_p.Y143H|RIMS1_uc003pgi.2_Missense_Mutation_p.Y142H|RIMS1_uc003pgh.2_Missense_Mutation_p.Y142H|RIMS1_uc003pgd.2_Missense_Mutation_p.Y143H|RIMS1_uc003pge.2_Missense_Mutation_p.Y143H|RIMS1_uc011dye.1_5'UTR|RIMS1_uc011dyf.1_5'Flank|RIMS1_uc003pgb.3_Missense_Mutation_p.Y552H|RIMS1_uc010kas.1_Missense_Mutation_p.Y385H	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	926					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				GCCAGTAGGCTATAGGTCTAG	0.373													16	30					0	0	0.0333	0	0		C	72967833	C	C	72967833	3	2	2	1	0	0	0	0	1	0	0	0	13392	1522	53	3	3005	3	RIMS1	6	72967833	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2558795	72967833	98147234	192	1621											
COL12A1	1303	broad.mit.edu	37	chr6	75833113	75833113	+	Frame_Shift_Del	DEL	T	-	-																															tctgtaggggcttctgttggTttcacagctaaaatttaaaa																										TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:75833113delT	uc003phs.2	-	43	7045	c.6879delA	c.(6877-6879)AAAfs	p.K2293fs	COL12A1_uc003pht.2_Frame_Shift_Del_p.K1129fs	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2293					cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CTTCTGTTGGTTTCACAGCta	0.413													10	14	---	---	---	---						.	-	75833113	-	-	75833113	7	5	2	1	0	1	0	1	0	0	0	0	3672	1722	60	0	2408	0	COL12A1	6	75833113	Frame_Shift_Del	DEL	T	TCGA-B7-5818-01A-11D-1600-08	2865280	75833113	95281954	193	1622											
C6orf167	253714	broad.mit.edu	37	chr6	97609879	97609879	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataagcttacaaacaaaccTtgtggttcactgactaacac	16	10	5	10	0	1	1	1	1	0	0	1	1	1	1	1	1	5	2	1	1	6	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:97609879T>G	uc003ppb.2	-	22	3650	c.3384A>C	c.(3382-3384)CAA>CAC	p.Q1128H	C6orf167_uc011eaf.1_Missense_Mutation_p.Q1088H	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	1128					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		CAAACAAACCTTGTGGTTCAC	0.333													4	121					0	0	0.021553	0	0		G	97609879	G	G	97609879	3	3	2	1	0	0	0	0	1	0	0	0	2345	1623	56	5	363	5	C6orf167	6	97609879	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	21776766	97609879	73505188	194	1623											
SFRS18	25957	broad.mit.edu	37	chr6	99849296	99849296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tactggaactaccactactaGaacttcccgacctactcctt	11	11	4	15	1	0	1	0	0	0	1	2	3	2	2	4	1	6	0	4	1	7	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:99849296G>A	uc003ppo.3	-	12	1766	c.1538C>T	c.(1537-1539)TCT>TTT	p.S513F	SFRS18_uc003ppl.2_Missense_Mutation_p.S59F|SFRS18_uc003ppp.3_Missense_Mutation_p.S513F|SFRS18_uc011eag.1_Missense_Mutation_p.S513F	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	513	Ser-rich.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		accactactaGAACTTCCCGA	0.284													29	72					0	0	0.030593	0	0		A	99849296	A	A	99849296	3	1	2	1	0	0	0	0	1	0	0	0	14199	942	33	4	883	4	SFRS18	6	99849296	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2239417	99849296	71265771	195	1624											
LIN28B	389421	broad.mit.edu	37	chr6	105526496	105526496	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctcgagaagtgggaggCgggcatggctgtacatcacc	8	7	14	12	2	1	1	1	0	0	1	3	3	2	2	2	4	1	3	2	4	2	1	rs141067774	byFrequency	TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:105526496C>T	uc003pqv.1	+	4	794	c.591C>T	c.(589-591)GGC>GGT	p.G197G	LIN28B_uc010kda.1_3'UTR	NM_001004317	NP_001004317	Q6ZN17	LN28B_HUMAN	lin-28 homolog B	197					miRNA catabolic process|pre-miRNA processing|regulation of transcription, DNA-dependent|RNA 3'-end processing	cytoplasm|nucleus	DNA binding|protein binding|RNA binding|zinc ion binding				0		all_cancers(87;0.00346)|Acute lymphoblastic leukemia(125;2.26e-08)|all_hematologic(75;2.79e-06)|all_epithelial(87;0.204)				AAGTGGGAGGCGGGCATGGCT	0.557													22	55					0	0	0.021523	0	0		T	105526496	T	T	105526496	2	4	2	1	0	0	0	0	0	0	0	1	8823	755	27	1		1	LIN28B	6	105526496	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	5677200	105526496	65588571	196	1625											
SLC22A16	85413	broad.mit.edu	37	chr6	110777963	110777963	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgatgtgttctccctcttaTtcctgctacaccttgagagc	6	15	7	13	1	2	1	0	1	2	1	5	3	3	1	3	0	3	2	3	0	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:110777963T>G	uc003puf.2	-	2	378	c.311A>C	c.(310-312)AAT>ACT	p.N104T	SLC22A16_uc003pue.2_Missense_Mutation_p.N85T|SLC22A16_uc003pug.2_Missense_Mutation_p.N104T	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	104					acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		CTCCCTCTTATTCCTGCTACA	0.473													85	216					0	0	0.01441	0	0		G	110777963	G	G	110777963	3	3	2	1	0	0	0	0	1	0	0	0	14472	1493	52	5	1450	5	SLC22A16	6	110777963	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	5251467	110777963	60337104	197	1626											
HINT3	135114	broad.mit.edu	37	chr6	126288037	126288037	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttttttcctttagaatgAggacctaatttgcttcaaag	11	17	7	6	0	1	2	1	1	0	1	2	3	2	3	2	1	1	2	2	1	4	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr6:126288037A>T	uc003qal.3	+	2	469	c.206A>T	c.(205-207)GAG>GTG	p.E69V	HINT3_uc010keu.2_5'UTR	NM_138571	NP_612638	Q9NQE9	HINT3_HUMAN	histidine triad nucleotide binding protein 3	69	HIT.					mitochondrion|nucleolus	hydrolase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.153)|GBM - Glioblastoma multiforme(226;0.0321)		CTTTAGAATGAGGACCTAATT	0.338													25	41					0	0	0.021523	0	0		T	126288037	T	T	126288037	3	4	2	1	0	0	0	0	1	0	0	0	7129	304	11	5	212	5	HINT3	6	126288037	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	15510074	126288037	44827030	198	1627											
RBAK	57786	broad.mit.edu	37	chr7	5104689	5104689	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcaccagccacttccaaaAggggagaaatcctatgaatg	14	6	11	10	0	0	2	0	1	0	1	2	3	2	2	4	3	1	1	4	3	5	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:5104689A>T	uc010kss.1	+	6	1926	c.1602A>T	c.(1600-1602)AAA>AAT	p.K534N	LOC389458_uc003snr.2_Intron|RBAK_uc003sns.1_Missense_Mutation_p.K534N	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	534	Interaction with AR.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		CACTTCCAAAAGGGGAGAAAT	0.368													29	109					0	0	0.015359	0	0		T	5104689	T	T	5104689	3	4	2	1	0	0	0	0	1	0	0	0	13125	69	3	5	1616	5	RBAK	7	5104689	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08		5104689	154033974	199	1628											
RAC1	5879	broad.mit.edu	37	chr7	6442041	6442041	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtcctctgcccgcctccCgtgaagaagaggaagagaaa	12	5	12	12	2	1	4	0	1	1	3	3	6	3	5	4	1	1	1	4	1	4	0	rs144238799	byFrequency	TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:6442041C>T	uc003spx.2	+	6	784	c.543C>T	c.(541-543)CCC>CCT	p.P181P	RAC1_uc003spw.2_Silent_p.P200P	NM_006908	NP_008839	P63000	RAC1_HUMAN	ras-related C3 botulinum toxin substrate 1	181					actin filament polymerization|apoptosis|axon guidance|cell motility|cell-matrix adhesion|induction of apoptosis by extracellular signals|inflammatory response|lamellipodium assembly|localization within membrane|negative regulation of interleukin-23 production|negative regulation of receptor-mediated endocytosis|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of lamellipodium assembly|positive regulation of Rho protein signal transduction|regulation of cell migration|regulation of defense response to virus by virus|regulation of hydrogen peroxide metabolic process|regulation of respiratory burst|ruffle organization|small GTPase mediated signal transduction|T cell costimulation|viral reproduction	cytosol|melanosome|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity|thioesterase binding			lung(2)	2		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.104)	Pravastatin(DB00175)|Simvastatin(DB00641)	GCCCGCCTCCCGTGAAGAAGA	0.522													10	30					0	0	0.008291	0	0		T	6442041	T	T	6442041	2	4	2	1	0	0	0	0	0	0	0	1	12999	639	23	1		1	RAC1	7	6442041	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1337352	6442041	152696622	200	1629											
RPA3	6119	broad.mit.edu	37	chr7	7676645	7676645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagatcaatcatgttgcaCaatccctaaaggataaaact	17	10	5	9	0	3	1	3	0	0	1	4	2	4	2	1	1	2	2	1	1	7	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:7676645C>T	uc003sri.2	-	8	1524	c.352G>A	c.(352-354)GTG>ATG	p.V118M	RPA3_uc003srh.2_Missense_Mutation_p.V79M	NM_002947	NP_002938	P35244	RFA3_HUMAN	replication protein A3, 14kDa	118					cell cycle checkpoint|DNA recombinase assembly|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	cytoplasm|DNA replication factor A complex|nucleoplasm	protein binding|single-stranded DNA binding			large_intestine(1)	1		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.202)		TCATGTTGCACAATCCCTAAA	0.333								Direct_reversal_of_damage|NER					68	212					0	0	0.01441	0	0		T	7676645	T	T	7676645	3	4	2	1	0	0	0	0	1	0	0	0	13563	478	17	4	17	4	RPA3	7	7676645	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1234604	7676645	151462018	201	1630											
TMEM195	392636	broad.mit.edu	37	chr7	15427074	15427074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caagtcttggtttacctggaCcccatcccggtcccttaaat	8	12	7	14	1	1	0	0	0	1	0	3	1	3	1	5	3	1	1	5	3	4	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:15427074C>T	uc003stb.1	-	9	1084	c.914G>A	c.(913-915)GGT>GAT	p.G305D		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	305					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						TTTACCTGGACCCCATCCCGG	0.388													74	242					0	0	0.01441	0	0		T	15427074	T	T	15427074	3	4	2	1	0	0	0	0	1	0	0	0	16142	507	18	4	443	4	TMEM195	7	15427074	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	7750429	15427074	143711589	202	1631											
DNAH11	8701	broad.mit.edu	37	chr7	21751479	21751479	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagatctgggctggaatccGtgagtatttctttttgtttt	7	18	10	6	1	2	2	0	1	2	1	3	3	3	3	1	2	0	3	1	2	3	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:21751479G>A	uc003svc.2	+	43	7035	c.7004_splice	c.e43+1	p.P2335_splice		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11						microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GCTGGAATCCGTGAGTATTTC	0.274									Kartagener_syndrome				18	29					0	0	0.0333	0	0		A	21751479	A	A	21751479	5	1	2	1	0	0	0	0	0	0	1	0	4605	1159	40	1	7172	1	DNAH11	7	21751479	Splice_Site	SNP	G	TCGA-B7-5818-01A-11D-1600-08	6324405	21751479	137387184	203	1632											
HOXA6	3203	broad.mit.edu	37	chr7	27187000	27187000	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cggtcggcgccttcgtcatgGagtgctttgccctgcccgct	2	11	13	15	5	1	0	1	0	0	0	3	1	1	1	3	3	3	2	3	3	0	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:27187000G>A	uc003syo.1	-	1	369	c.369C>T	c.(367-369)CTC>CTT	p.L123L	uc003syp.1_Missense_Mutation_p.G28E|HOXA6_uc003syq.1_RNA	NM_024014	NP_076919	P31267	HXA6_HUMAN	homeobox A6	123						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CTTCGTCATGGAGTGCTTTGC	0.622													30	105					0	0	0.013726	0	0		A	27187000	A	A	27187000	2	1	2	1	0	0	0	0	0	0	0	1	7312	1161	41	4		4	HOXA6	7	27187000	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	5435521	27187000	131951663	204	1633											
CRHR2	1395	broad.mit.edu	37	chr7	30695305	30695305	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgcccaggaggggcaggAgcaccagggtggccttcact	8	6	16	11	0	1	1	1	1	0	0	1	3	1	3	3	6	2	2	3	6	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:30695305A>G	uc003tbn.2	-	10	1188	c.944T>C	c.(943-945)CTC>CCC	p.L315P	CRHR2_uc010kvw.1_Missense_Mutation_p.L315P|CRHR2_uc010kvx.1_Missense_Mutation_p.L314P|CRHR2_uc010kvy.1_Missense_Mutation_p.L151P|CRHR2_uc003tbo.2_Missense_Mutation_p.L301P|CRHR2_uc003tbp.2_Missense_Mutation_p.L342P	NM_001883	NP_001874	Q13324	CRFR2_HUMAN	corticotropin releasing hormone receptor 2	315	Helical; Name=6; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(2)|ovary(1)|skin(1)	4						GAGGGGCAGGAGCACCAGGGT	0.617													66	183					0	0	0.01441	0	0		G	30695305	G	G	30695305	3	3	2	1	0	0	0	0	1	0	0	0	3875	304	11	3	303	3	CRHR2	7	30695305	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	3508305	30695305	128443358	205	1634											
HERPUD2	64224	broad.mit.edu	37	chr7	35674016	35674016	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgacctccttcttgcctaAaaggaaaccatccagcttgg	11	10	8	12	0	1	1	0	1	1	0	3	3	3	2	5	2	3	1	5	2	3	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:35674016A>C	uc003tet.2	-	7	1770	c.965T>G	c.(964-966)TTT>TGT	p.F322C	HERPUD2_uc003tes.3_Missense_Mutation_p.F322C	NM_022373	NP_071768	Q9BSE4	HERP2_HUMAN	HERPUD family member 2	322	Helical; (Potential).				response to unfolded protein	integral to membrane				ovary(3)	3						TTCTTGCCTAAAAGGAAACCA	0.348													31	96					0	0	0.013726	0	0		C	35674016	C	C	35674016	3	2	2	1	0	0	0	0	1	0	0	0	7080	14	1	5	263	5	HERPUD2	7	35674016	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	4978711	35674016	123464647	206	1635											
AOAH	313	broad.mit.edu	37	chr7	36580049	36580049	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcagagtctgcatgacgttGgagtagagtttctcaggagt	9	13	13	6	1	3	3	2	1	2	2	4	5	3	5	0	2	1	4	0	2	1	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:36580049G>A	uc003tfh.3	-	16	1583	c.1182C>T	c.(1180-1182)TCC>TCT	p.S394S	AOAH_uc010kxf.2_Silent_p.S394S|AOAH_uc011kba.1_Silent_p.S362S	NM_001637	NP_001628	P28039	AOAH_HUMAN	acyloxyacyl hydrolase precursor	394					inflammatory response|lipid metabolic process	extracellular region	acyloxyacyl hydrolase activity|lipoprotein lipase activity			skin(1)	1						GCATGACGTTGGAGTAGAGTT	0.443													18	77					0	0	0.021523	0	0		A	36580049	A	A	36580049	2	1	2	1	0	0	0	0	0	0	0	1	726	1335	47	4		4	AOAH	7	36580049	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	906033	36580049	122558614	207	1636											
ZMIZ2	83637	broad.mit.edu	37	chr7	44801066	44801066	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagcgggccttgtgacgAgttgcggctgaccttccctg	6	9	15	11	3	0	2	0	2	0	0	1	4	1	3	3	3	2	2	3	3	1	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:44801066A>G	uc003tlr.2	+	10	1382	c.1259A>G	c.(1258-1260)GAG>GGG	p.E420G	ZMIZ2_uc003tlq.2_Missense_Mutation_p.E362G|ZMIZ2_uc003tls.2_Missense_Mutation_p.E394G|ZMIZ2_uc003tlt.2_Missense_Mutation_p.E43G|ZMIZ2_uc010kyj.2_5'UTR	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	420					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						CCTTGTGACGAGTTGCGGCTG	0.647													7	47					0	0	0.016723	0	0		G	44801066	G	G	44801066	3	3	2	1	0	0	0	0	1	0	0	0	17722	304	11	3	1293	3	ZMIZ2	7	44801066	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	8221017	44801066	114337597	208	1637											
ZNF716	441234	broad.mit.edu	37	chr7	57529170	57529170	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgtggcaaagcctttagcTtatcctcaacccttaagaaa	14	11	6	10	0	1	1	1	0	0	1	2	1	2	1	3	1	3	2	3	1	7	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:57529170T>G	uc011kdi.1	+	4	1115	c.1003T>G	c.(1003-1005)TTA>GTA	p.L335V		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						AGCCTTTAGCTTATCCTCAAC	0.413													20	48					0	0	0.008871	0	0		G	57529170	G	G	57529170	3	3	2	1	0	0	0	0	1	0	0	0	18144	1606	56	5	1017	5	ZNF716	7	57529170	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	12728104	57529170	101609493	209	1638											
PION	54103	broad.mit.edu	37	chr7	76941425	76941425	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagaaactcacctgtttcTtatagttctgaagcagtcgc	11	12	8	10	1	3	2	1	1	2	1	4	3	3	2	1	0	2	3	1	0	4	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:76941425T>C	uc003ugf.2	-	29	2445	c.2366A>G	c.(2365-2367)AAG>AGG	p.K789R	PION_uc011kgo.1_Missense_Mutation_p.K110R|PION_uc003ugd.2_Missense_Mutation_p.K183R	NM_017439	NP_059135	A4D1B5	GSAP_HUMAN	pigeon homolog	789					beta-amyloid formation|regulation of proteolysis	trans-Golgi network	beta-amyloid binding			central_nervous_system(1)	1						CACCTGTTTCTTATAGTTCTG	0.408													22	54					0	0	0.012319	0	0		C	76941425	C	C	76941425	3	2	2	1	0	0	0	0	1	0	0	0	11953	1609	56	3	210	3	PION	7	76941425	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	19412255	76941425	82197238	210	1639											
PCLO	27445	broad.mit.edu	37	chr7	82474775	82474775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctgccaactgcttaggatCaacccctggggatttcgcct	7	11	10	13	1	1	0	1	0	0	0	2	2	1	2	4	3	5	2	4	3	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:82474775C>T	uc003uhx.2	-	13	14147	c.13858G>A	c.(13858-13860)GAT>AAT	p.D4620N	PCLO_uc003uhv.2_Missense_Mutation_p.D4620N|PCLO_uc003uht.1_Missense_Mutation_p.D71N|PCLO_uc003uhu.1_Missense_Mutation_p.D50N	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4508					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TGCTTAGGATCAACCCCTGGG	0.423													8	48					0	0	0.004482	0	0		T	82474775	T	T	82474775	3	4	2	1	0	0	0	0	1	0	0	0	11602	826	29	4	1639	4	PCLO	7	82474775	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	5533350	82474775	76663888	211	1640											
ABCB1	5243	broad.mit.edu	37	chr7	87179266	87179266	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccatagcgaatgttttcAgctatcgtggtggcaaacaa	11	10	11	9	3	1	0	1	0	0	0	2	1	1	0	1	3	3	3	1	3	5	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:87179266A>C	uc003uiz.1	-	14	1873	c.1455T>G	c.(1453-1455)GCT>GCG	p.A485A	ABCB1_uc011khc.1_Silent_p.A421A	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	485	ABC transporter 1.|Cytoplasmic (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	GAATGTTTTCAGCTATCGTGG	0.433													5	329					0	0	0.014758	0	0		C	87179266	C	C	87179266	2	2	2	1	0	0	0	0	0	0	0	1	40	175	7	5		5	ABCB1	7	87179266	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	4704491	87179266	71959397	212	1641											
FZD1	8321	broad.mit.edu	37	chr7	90895500	90895500	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctggcggctggcatgaagtgGggccacgaggccatcgaagc	8	5	17	11	3	0	1	0	1	0	0	1	3	0	1	2	6	1	2	2	6	2	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:90895500G>A	uc003ula.2	+	1	1718	c.1305G>A	c.(1303-1305)TGG>TGA	p.W435*		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	435	Cytoplasmic (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			GCATGAAGTGGGGCCACGAGG	0.607													27	83					0	0	0.030593	0	0		A	90895500	A	A	90895500	4	1	2	1	0	0	0	0	0	1	0	0	6142	1241	43	4	1307	4	FZD1	7	90895500	Nonsense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	3716234	90895500	68243163	213	1642											
SAMD9L	219285	broad.mit.edu	37	chr7	92763078	92763078	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatgataaagattgatgAtttttgcaaatattggttta	14	17	9	1	0	0	5	0	4	0	1	0	6	0	5	0	1	1	2	0	1	5	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:92763078A>C	uc003umh.1	-	5	3423	c.2207T>G	c.(2206-2208)ATC>AGC	p.I736S	SAMD9L_uc003umj.1_Missense_Mutation_p.I736S|SAMD9L_uc003umi.1_Missense_Mutation_p.I736S|SAMD9L_uc010lfb.1_Missense_Mutation_p.I736S|SAMD9L_uc003umk.1_Missense_Mutation_p.I736S|SAMD9L_uc010lfc.1_Missense_Mutation_p.I736S|SAMD9L_uc010lfd.1_Missense_Mutation_p.I736S|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	736										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			AAGATTGATGATTTTTGCAAA	0.363													87	234					0	0	0.01441	0	0		C	92763078	C	C	92763078	3	2	2	1	0	0	0	0	1	0	0	0	13852	333	12	5	2551	5	SAMD9L	7	92763078	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	1867578	92763078	66375585	214	1643											
RELN	5649	broad.mit.edu	37	chr7	103183254	103183254	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaaagaggttgtttccacTagaaaggattccacactttc	14	11	8	8	0	0	2	0	0	0	2	3	4	2	3	2	2	0	2	2	2	4	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:103183254T>C	uc003vca.2	-	43	6755	c.6595A>G	c.(6595-6597)AGT>GGT	p.S2199G	RELN_uc010liz.2_Missense_Mutation_p.S2199G	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2199					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TTGTTTCCACTAGAAAGGATT	0.378													69	207					0	0	0.01441	0	0		C	103183254	C	C	103183254	3	2	2	1	0	0	0	0	1	0	0	0	13245	1522	53	3	3879	3	RELN	7	103183254	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	10420176	103183254	55955409	215	1644											
CDHR3	222256	broad.mit.edu	37	chr7	105615310	105615310	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggagaagcactacacctaAtcctcttacctgctacaggc	11	8	9	13	0	1	1	0	0	1	1	2	2	2	1	3	3	5	2	3	3	5	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:105615310A>C	uc003vdl.3	+	2	175	c.67A>C	c.(67-69)ATC>CTC	p.I23L	CDHR3_uc003vdk.2_5'UTR|CDHR3_uc011kls.1_RNA|CDHR3_uc003vdm.3_Intron|CDHR3_uc011klt.1_Intron	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	23	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						ACTACACCTAATCCTCTTACC	0.473													43	136					0	0	0.036044	0	0		C	105615310	C	C	105615310	3	2	2	1	0	0	0	0	1	0	0	0	3123	101	4	5	73	5	CDHR3	7	105615310	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	2432056	105615310	53523353	216	1645											
CDHR3	222256	broad.mit.edu	37	chr7	105673077	105673077	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgagggtggcaagctgggCaacccaaagaacagaaatcc	16	4	12	9	0	0	3	0	1	0	2	1	3	1	3	2	3	3	3	2	3	6	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:105673077C>T	uc003vdl.3	+	19	2700	c.2592C>T	c.(2590-2592)GGC>GGT	p.G864G	CDHR3_uc003vdk.2_3'UTR|CDHR3_uc003vdm.3_Silent_p.G851G|CDHR3_uc011klt.1_Silent_p.G776G|CDHR3_uc003vdn.2_3'UTR	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	864	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						GCAAGCTGGGCAACCCAAAGA	0.542													14	38					0	0	0.024245	0	0		T	105673077	T	T	105673077	2	4	2	1	0	0	0	0	0	0	0	1	3123	697	25	2		2	CDHR3	7	105673077	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	57767	105673077	53465586	217	1646											
ST7	7982	broad.mit.edu	37	chr7	116759770	116759770	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gattccaataggcaaagtgtCtcaggtatggaatttccttc	11	13	9	8	0	1	0	1	0	1	0	5	2	3	1	2	3	0	2	2	3	5	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:116759770C>T	uc003vin.2	+	3	604	c.390C>T	c.(388-390)GTC>GTT	p.V130V	ST7_uc011knl.1_Silent_p.V130V|ST7_uc003vio.2_Silent_p.V130V|ST7_uc003viq.2_Silent_p.V84V|ST7_uc011knm.1_Silent_p.V87V|ST7_uc003vir.2_Silent_p.V78V|ST7OT2_uc003viu.2_Intron|ST7_uc011knn.1_Silent_p.V78V|ST7OT2_uc003viw.2_Intron|ST7_uc003vix.1_5'UTR	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b	130						integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		GGCAAAGTGTCTCAGGTATGG	0.373													40	149					0	0	0.033182	0	0		T	116759770	T	T	116759770	2	4	2	1	0	0	0	0	0	0	0	1	15254	900	32	4		4	ST7	7	116759770	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	11086693	116759770	42378893	218	1647											
RNF148	378925	broad.mit.edu	37	chr7	122342678	122342678	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacctgaaatgttatatTcaggtgagctgtccaaatgg	12	12	9	8	0	1	2	1	2	0	0	3	2	3	2	3	2	2	2	3	2	5	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:122342678T>G	uc003vkk.1	-	1	344	c.127A>C	c.(127-129)AAT>CAT	p.N43H	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron|RNF148_uc010lkr.1_Missense_Mutation_p.N43H	NM_198085	NP_932351	Q8N7C7	RN148_HUMAN	ring finger protein 148 precursor	43						integral to membrane	zinc ion binding				0						AATGTTATATTCAGGTGAGCT	0.443													6	75					0	0	0.021553	0	0		G	122342678	G	G	122342678	3	3	2	1	0	0	0	0	1	0	0	0	13474	1783	62	5	794	5	RNF148	7	122342678	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	5582908	122342678	36795985	219	1648											
FLNC	2318	broad.mit.edu	37	chr7	128470736	128470736	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgccggcctcggcctgggCgatgagacagacgagatgcc	8	4	16	13	5	0	3	0	1	0	3	1	7	0	3	4	3	1	0	4	3	0	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:128470736C>T	uc003vnz.3	+	1	254	c.45C>T	c.(43-45)GGC>GGT	p.G15G	FLNC_uc003voa.3_Silent_p.G15G	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	15	Actin-binding.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						TCGGCCTGGGCGATGAGACAG	0.468													5	12					0	0	0.014758	0	0		T	128470736	T	T	128470736	2	4	2	1	0	0	0	0	0	0	0	1	5949	755	27	1		1	FLNC	7	128470736	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	6128058	128470736	30667927	220	1649											
WDR91	29062	broad.mit.edu	37	chr7	134890686	134890686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcacacacactcacagttccGagtcccccaggcggtccatg	9	7	8	17	2	2	0	2	0	0	0	5	1	5	0	4	2	0	1	4	2	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:134890686G>A	uc003vsp.2	-	5	781	c.719C>T	c.(718-720)TCG>TTG	p.S240L	WDR91_uc010lmq.2_5'UTR|WDR91_uc010lmr.2_RNA	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91	240										breast(2)|ovary(1)|skin(1)	4						TCACAGTTCCGAGTCCCCCAG	0.552													68	210					0	0	0.01441	0	0		A	134890686	A	A	134890686	3	1	2	1	0	0	0	0	1	0	0	0	17364	1059	37	1	1568	1	WDR91	7	134890686	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	6419950	134890686	24247977	221	1650											
DENND2A	27147	broad.mit.edu	37	chr7	140285447	140285447	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggaaaattcaagacacacTtctttcccaggcagcgacca	14	7	7	13	1	2	1	1	0	1	1	3	3	3	2	2	2	1	1	2	2	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:140285447T>G	uc010lnj.2	-	3	1332	c.1187A>C	c.(1186-1188)AAG>ACG	p.K396T	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.K396T|DENND2A_uc003vvw.2_Missense_Mutation_p.K396T|DENND2A_uc003vvx.2_Missense_Mutation_p.K396T	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	396										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					CAAGACACACTTCTTTCCCAG	0.522													71	222					0	0	0.01441	0	0		G	140285447	G	G	140285447	3	3	2	1	0	0	0	0	1	0	0	0	4435	1609	56	5	1906	5	DENND2A	7	140285447	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	5394761	140285447	18853216	222	1651											
ZNF282	8427	broad.mit.edu	37	chr7	148903882	148903882	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagctttataacaaccttgTtaaggagaactacaaaaccc	16	9	7	9	0	0	1	0	0	0	1	0	3	0	2	2	2	6	2	2	2	8	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr7:148903882T>C	uc003wfm.2	+	3	785	c.680T>C	c.(679-681)GTT>GCT	p.V227A	ZNF282_uc011kun.1_Missense_Mutation_p.V227A|ZNF282_uc003wfn.2_Missense_Mutation_p.V167A|ZNF282_uc003wfo.2_Missense_Mutation_p.V167A	NM_003575	NP_003566	Q9UDV7	ZN282_HUMAN	zinc finger protein 282	227	KRAB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)	Lung(243;0.145)		AACAACCTTGTTAAGGAGAAC	0.463													73	244					0	0	0.01441	0	0		C	148903882	C	C	148903882	3	2	2	1	0	0	0	0	1	0	0	0	17844	1725	60	3	690	3	ZNF282	7	148903882	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	8618435	148903882	10234781	223	1652											
MYOM2	9172	broad.mit.edu	37	chr8	2092696	2092696	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttctcggtgaaggtggagCaggccaagtacgtcagcatg	10	8	14	9	2	2	1	1	1	1	0	3	2	2	2	1	4	3	3	1	4	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:2092696C>T	uc003wpx.3	+	37	4327	c.4189C>T	c.(4189-4191)CAG>TAG	p.Q1397*	MYOM2_uc011kwi.1_Nonsense_Mutation_p.Q822*	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1397	Ig-like C2-type 5.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		GAAGGTGGAGCAGGCCAAGTA	0.537													35	68					0	0	0.012213	0	0		T	2092696	T	T	2092696	4	4	2	1	0	0	0	0	0	1	0	0	10110	711	25	2	4331	2	MYOM2	8	2092696	Nonsense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08		2092696	144271326	224	1653											
CSMD1	64478	broad.mit.edu	37	chr8	2836245	2836245	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacaggatactcattccatActcaaaactctcagggaagt	14	10	7	10	0	3	0	3	0	1	0	5	2	4	2	1	2	4	1	1	2	6	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:2836245A>G	uc011kwk.1	-	55	8848	c.8458T>C	c.(8458-8460)TAT>CAT	p.Y2820H	CSMD1_uc011kwj.1_Missense_Mutation_p.Y2149H|CSMD1_uc010lrg.2_Missense_Mutation_p.Y830H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2820	Extracellular (Potential).|Sushi 20.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CTCATTCCATACTCAAAACTC	0.453													12	16					0	0	0.016723	0	0		G	2836245	G	G	2836245	3	3	2	1	0	0	0	0	1	0	0	0	3947	391	14	3	2303	3	CSMD1	8	2836245	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	743549	2836245	143527777	225	1654											
PRSS55	203074	broad.mit.edu	37	chr8	10383244	10383244	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcatccccccagcccagTcagtggtgagtacaggggca	8	6	11	16	0	2	1	2	1	0	0	3	1	3	1	5	3	2	2	5	3	1	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:10383244T>C	uc003wta.2	+	1	164	c.149T>C	c.(148-150)GTC>GCC	p.V50A	uc010lru.2_Intron	NM_198464	NP_940866	Q6UWB4	PRS55_HUMAN	hypothetical protein LOC203074 precursor	50	Extracellular (Potential).				proteolysis	integral to membrane	serine-type endopeptidase activity			ovary(1)	1						CCCAGCCCAGTCAGTGGTGAG	0.667													3	12					0	0	0.00308	0	0		C	10383244	C	C	10383244	3	2	2	1	0	0	0	0	1	0	0	0	12656	1667	58	3	151	3	PRSS55	8	10383244	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	7546999	10383244	135980778	226	1655											
DLC1	10395	broad.mit.edu	37	chr8	12960317	12960317	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcgtttccgatgaggactAatttctagcttcatcaccgc	9	13	7	12	3	3	1	2	1	1	0	5	3	4	2	2	1	1	2	2	1	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:12960317A>C	uc003wwm.2	-	8	1992	c.1548T>G	c.(1546-1548)ATT>ATG	p.I516M	DLC1_uc003wwk.1_Missense_Mutation_p.I79M|DLC1_uc003wwl.1_Missense_Mutation_p.I113M|DLC1_uc011kxx.1_Missense_Mutation_p.I5M	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	516					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GATGAGGACTAATTTCTAGCT	0.368													49	167					0	0	0.01441	0	0		C	12960317	C	C	12960317	3	2	2	1	0	0	0	0	1	0	0	0	4556	358	13	5	3082	5	DLC1	8	12960317	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	2577073	12960317	133403705	227	1656											
DCTN6	10671	broad.mit.edu	37	chr8	30034704	30034704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaacctatgatcattggcaCcaataatgtgtttgaagttg	14	13	8	6	0	1	2	1	2	0	0	1	2	1	2	2	1	1	3	2	1	6	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:30034704C>T	uc003xhy.2	+	4	344	c.257C>T	c.(256-258)ACC>ATC	p.T86I		NM_006571	NP_006562	O00399	DCTN6_HUMAN	dynactin 6	86						centrosome	transferase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.099)|Kidney(114;0.119)		ATCATTGGCACCAATAATGTG	0.353													30	96					0	0	0.009535	0	0		T	30034704	T	T	30034704	3	4	2	1	0	0	0	0	1	0	0	0	4314	507	18	4	271	4	DCTN6	8	30034704	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	17074387	30034704	116329318	228	1657											
DDHD2	23259	broad.mit.edu	37	chr8	38095637	38095637	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaccagccagttgcagggTctgatgattggggttcaaca	10	11	12	8	0	2	2	1	2	1	0	2	2	2	2	2	3	4	3	2	3	2	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:38095637T>G	uc003xlb.2	+	5	909	c.532T>G	c.(532-534)TCT>GCT	p.S178A	DDHD2_uc003xla.2_Missense_Mutation_p.S178A|DDHD2_uc003xlc.2_Missense_Mutation_p.S178A|DDHD2_uc011lbl.1_Intron	NM_015214	NP_056029	O94830	DDHD2_HUMAN	DDHD domain containing 2 isoform 1	178					lipid catabolic process	centrosome	hydrolase activity|metal ion binding			large_intestine(1)|ovary(1)	2	Colorectal(12;0.000442)	all_lung(54;0.0657)|Lung NSC(58;0.175)	BRCA - Breast invasive adenocarcinoma(5;3.76e-25)|COAD - Colon adenocarcinoma(9;0.0977)			AGTTGCAGGGTCTGATGATTG	0.408													44	117					0	0	0.01441	0	0		G	38095637	G	G	38095637	3	3	2	1	0	0	0	0	1	0	0	0	4330	1667	58	5	546	5	DDHD2	8	38095637	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	8060933	38095637	108268385	229	1658											
ST18	9705	broad.mit.edu	37	chr8	53028967	53028967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtctttaagttgctctcCatagatgtgatctacaacag	11	14	7	9	1	3	2	0	1	3	1	5	2	3	2	1	0	3	2	1	0	4	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:53028967C>T	uc003xqz.2	-	20	3027	c.2871G>A	c.(2869-2871)ATG>ATA	p.M957I	ST18_uc011ldq.1_Missense_Mutation_p.M604I|ST18_uc011ldr.1_Missense_Mutation_p.M922I|ST18_uc011lds.1_Missense_Mutation_p.M862I|ST18_uc003xra.2_Missense_Mutation_p.M957I	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	957	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				AGTTGCTCTCCATAGATGTGA	0.418													36	106					0	0	0.021022	0	0		T	53028967	T	T	53028967	3	4	2	1	0	0	0	0	1	0	0	0	15237	594	21	4	280	4	ST18	8	53028967	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	14933330	53028967	93335055	230	1659											
C8orf46	254778	broad.mit.edu	37	chr8	67428149	67428149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagacatctcaagaagatGactgaagagtatccagccct	14	8	8	11	0	1	6	1	2	1	4	4	6	3	6	3	0	1	1	3	0	4	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:67428149G>A	uc003xwg.2	+	6	855	c.462G>A	c.(460-462)ATG>ATA	p.M154I	C8orf46_uc003xwh.2_RNA|C8orf46_uc011let.1_Missense_Mutation_p.D134N|C8orf46_uc003xwi.2_Missense_Mutation_p.M19I	NM_152765	NP_689978	Q8TAG6	CH046_HUMAN	hypothetical protein LOC254778	154										skin(2)	2			Epithelial(68;0.0224)|BRCA - Breast invasive adenocarcinoma(89;0.0508)|all cancers(69;0.0558)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			TCAAGAAGATGACTGAAGAGT	0.537													44	77					0	0	0.011902	0	0		A	67428149	A	A	67428149	3	1	2	1	0	0	0	0	1	0	0	0	2434	1290	45	4	484	4	C8orf46	8	67428149	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	14399182	67428149	78935873	231	1660											
CNGB3	54714	broad.mit.edu	37	chr8	87751938	87751938	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagttgacttggttttgagAgatttctcttcacctttgtt	6	19	10	6	0	2	3	1	2	1	1	3	5	2	4	1	2	0	3	1	2	0	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:87751938A>G	uc003ydx.2	-	2	202	c.156T>C	c.(154-156)TCT>TCC	p.S52S		NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	52	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						TGGTTTTGAGAGATTTCTCTT	0.323													4	176					0	0	0.021553	0	0		G	87751938	G	G	87751938	2	3	2	1	0	0	0	0	0	0	0	1	3604	291	11	3		3	CNGB3	8	87751938	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	20323789	87751938	58612084	232	1661											
KIAA1429	25962	broad.mit.edu	37	chr8	95527160	95527160	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatctaaggtttttcagaggTtcaagccacttgccaagttc	11	13	8	9	0	3	1	2	0	1	1	4	1	3	1	2	2	2	3	2	2	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:95527160T>G	uc003ygo.1	-	11	2701	c.2688A>C	c.(2686-2688)GAA>GAC	p.E896D	KIAA1429_uc003ygp.2_Missense_Mutation_p.E896D|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	896					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			TTTTCAGAGGTTCAAGCCACT	0.254													18	50					0	0	0.008871	0	0		G	95527160	G	G	95527160	3	3	2	1	0	0	0	0	1	0	0	0	8247	1722	60	5	2860	5	KIAA1429	8	95527160	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	7775222	95527160	50836862	233	1662											
COLEC10	10584	broad.mit.edu	37	chr8	120118230	120118230	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgggtgttcattggcgtgAatgaccttgaaagggaggga	9	11	16	5	2	1	3	1	3	0	0	2	5	1	5	1	4	0	1	1	4	2	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:120118230A>T	uc003yoo.2	+	6	731	c.634A>T	c.(634-636)AAT>TAT	p.N212Y		NM_006438	NP_006429	Q9Y6Z7	COL10_HUMAN	collectin sub-family member 10 precursor	212	C-type lectin.					collagen|cytoplasm	mannose binding			ovary(2)|skin(1)	3	all_cancers(13;4.13e-26)|Lung NSC(37;1.36e-07)|Ovarian(258;0.018)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00113)			CATTGGCGTGAATGACCTTGA	0.522													27	46					0	0	0.027356	0	0		T	120118230	T	T	120118230	3	4	2	1	0	0	0	0	1	0	0	0	3713	246	9	5	656	5	COLEC10	8	120118230	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	24591070	120118230	26245792	234	1663											
GSDMC	56169	broad.mit.edu	37	chr8	130763788	130763788	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccccttaataaatacttacTttgccagaagggttcctcta	11	13	5	12	0	1	1	0	0	1	1	2	1	2	1	4	1	3	1	4	1	7	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:130763788T>C	uc003ysr.2	-	10	1825	c.943A>G	c.(943-945)AAT>GAT	p.N315D		NM_031415	NP_113603	Q9BYG8	GSDMC_HUMAN	melanoma-derived leucine zipper, extra-nuclear	315						mitochondrion				ovary(2)|skin(1)	3						AAATACTTACTTTGCCAGAAG	0.468													40	97					0	0	0.025465	0	0		C	130763788	C	C	130763788	3	2	2	1	0	0	0	0	1	0	0	0	6834	1623	56	3	603	3	GSDMC	8	130763788	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	10645558	130763788	15600234	235	1664											
GSDMC	56169	broad.mit.edu	37	chr8	130788350	130788350	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctctcccatggcctcacctTttttgaaagtcttccaggtt	6	15	6	14	0	3	1	1	1	2	0	5	1	4	1	5	2	0	1	5	2	1	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr8:130788350T>G	uc003ysr.2	-	3	1284	c.402A>C	c.(400-402)AAA>AAC	p.K134N		NM_031415	NP_113603	Q9BYG8	GSDMC_HUMAN	melanoma-derived leucine zipper, extra-nuclear	134						mitochondrion				ovary(2)|skin(1)	3						GGCCTCACCTTTTTTGAAAGT	0.478													38	64					0	0	0.023175	0	0		G	130788350	G	G	130788350	3	3	2	1	0	0	0	0	1	0	0	0	6834	1838	64	5	1172	5	GSDMC	8	130788350	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	24562	130788350	15575672	236	1665											
CNTLN	54875	broad.mit.edu	37	chr9	17309068	17309068	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaacagctttacaatgagTtacatatttgttttgaaacc	14	15	6	6	0	0	3	0	3	0	0	0	3	0	3	1	0	5	3	1	0	6	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:17309068T>G	uc003zmz.2	+	8	1185	c.1159T>G	c.(1159-1161)TTA>GTA	p.L387V	CNTLN_uc003zmy.2_Missense_Mutation_p.L387V|CNTLN_uc010mio.2_Missense_Mutation_p.L66V	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	387						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		TTACAATGAGTTACATATTTG	0.229													21	32					0	0	0.010504	0	0		G	17309068	G	G	17309068	3	3	2	1	0	0	0	0	1	0	0	0	3642	1722	60	5	1219	5	CNTLN	9	17309068	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08		17309068	123904363	237	1666											
LINGO2	158038	broad.mit.edu	37	chr9	27949805	27949805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcagagaacatgcctgcttCaatagtgctgatgggattgt	10	12	12	7	0	2	2	2	1	0	1	2	4	2	3	1	1	4	2	1	1	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:27949805C>T	uc003zqu.1	-	2	1059	c.865G>A	c.(865-867)GAA>AAA	p.E289K	LINGO2_uc010mjf.1_Missense_Mutation_p.E289K|LINGO2_uc003zqv.1_Missense_Mutation_p.E289K	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	289	LRR 10.|Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		ATGCCTGCTTCAATAGTGCTG	0.512													74	106					0	0	0.01441	0	0		T	27949805	T	T	27949805	3	4	2	1	0	0	0	0	1	0	0	0	8832	835	29	4	959	4	LINGO2	9	27949805	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	10640737	27949805	113263626	238	1667											
ACO1	48	broad.mit.edu	37	chr9	32430504	32430504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgggccaactatttagcctCtccccccttagtaatagcat	9	11	6	15	1	1	0	0	0	1	0	2	0	1	0	6	1	3	2	6	1	6	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:32430504C>T	uc003zqw.3	+	14	1813	c.1658C>T	c.(1657-1659)TCT>TTT	p.S553F	ACO1_uc010mjh.1_Missense_Mutation_p.S387F|ACO1_uc003zqx.3_Missense_Mutation_p.S553F|ACO1_uc003zqy.3_RNA	NM_002197	NP_002188	P21399	ACOC_HUMAN	aconitase 1	553					citrate metabolic process|response to iron(II) ion|tricarboxylic acid cycle	cytosol|endoplasmic reticulum|Golgi apparatus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron-responsive element binding|isocitrate hydro-lyase (cis-aconitate-forming) activity|metal ion binding|protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;3.94e-06)		TATTTAGCCTCTCCCCCCTTA	0.443													90	108					0	0	0.01441	0	0		T	32430504	T	T	32430504	3	4	2	1	0	0	0	0	1	0	0	0	146	913	32	4	1708	4	ACO1	9	32430504	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4480699	32430504	108782927	239	1668											
TAF1L	138474	broad.mit.edu	37	chr9	32634599	32634599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catcatcgtgatttcatcatCagcgagacactgctctgggg	9	11	10	11	2	5	2	4	1	1	1	6	3	5	2	0	2	2	1	0	2	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:32634599C>T	uc003zrg.1	-	1	1069	c.979G>A	c.(979-981)GAT>AAT	p.D327N	uc003zrh.1_RNA	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	327					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		ATTTCATCATCAGCGAGACAC	0.473													47	129					0	0	0.01441	0	0		T	32634599	T	T	32634599	3	4	2	1	0	0	0	0	1	0	0	0	15548	826	29	4	4505	4	TAF1L	9	32634599	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	204095	32634599	108578832	240	1669											
UBE2R2	54926	broad.mit.edu	37	chr9	33900231	33900231	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgacccacagagtggagaActgccttctgaaaggtggaa	13	7	13	8	0	1	4	0	2	1	2	1	7	1	5	2	3	2	0	2	3	3	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:33900231A>G	uc003ztm.2	+	3	898	c.324A>G	c.(322-324)GAA>GAG	p.E108E		NM_017811	NP_060281	Q712K3	UB2R2_HUMAN	ubiquitin-conjugating enzyme UBC3B	108					protein K48-linked ubiquitination|protein monoubiquitination		ATP binding|ubiquitin-protein ligase activity				0			LUSC - Lung squamous cell carcinoma(29;0.0176)	GBM - Glioblastoma multiforme(74;0.188)		AGAGTGGAGAACTGCCTTCTG	0.393													67	108					0	0	0.01441	0	0		G	33900231	G	G	33900231	2	3	2	1	0	0	0	0	0	0	0	1	16897	40	2	3		3	UBE2R2	9	33900231	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	1265632	33900231	107313200	241	1670											
KIAA1539	80256	broad.mit.edu	37	chr9	35107429	35107429	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctccagaagggtgtggcTttggcatcagaactgttggc	7	11	15	8	0	1	2	1	0	0	2	2	2	2	2	1	5	1	4	1	5	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:35107429T>G	uc003zwl.2	-	3	1168	c.843A>C	c.(841-843)AAA>AAC	p.K281N	KIAA1539_uc003zwm.2_Missense_Mutation_p.K281N|KIAA1539_uc003zwn.2_5'UTR|KIAA1539_uc003zwo.2_Missense_Mutation_p.K281N|KIAA1539_uc003zwp.1_Missense_Mutation_p.K281N|KIAA1539_uc010mkk.1_RNA	NM_025182	NP_079458	Q7L5A3	K1539_HUMAN	hypothetical protein LOC80256	281						nucleus				ovary(2)	2	all_epithelial(49;0.217)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			AGGGTGTGGCTTTGGCATCAG	0.537													79	115					0	0	0.01441	0	0		G	35107429	G	G	35107429	3	3	2	1	0	0	0	0	1	0	0	0	8258	1606	56	5	801	5	KIAA1539	9	35107429	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	1207198	35107429	106106002	242	1671											
UNC13B	10497	broad.mit.edu	37	chr9	35295915	35295915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaccttgattatccagagcGgcgggctatcaggtgggtat	8	11	14	8	2	1	3	1	2	0	1	2	3	2	3	2	4	1	2	2	4	3	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:35295915G>A	uc003zwq.2	+	8	1041	c.749G>A	c.(748-750)CGG>CAG	p.R250Q	UNC13B_uc010mkl.1_Missense_Mutation_p.R250Q|UNC13B_uc003zwr.2_Missense_Mutation_p.R250Q	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	250					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			TATCCAGAGCGGCGGGCTATC	0.478													8	20					0	0	0.00308	0	0		A	35295915	A	A	35295915	3	1	2	1	0	0	0	0	1	0	0	0	17011	1116	39	1	779	1	UNC13B	9	35295915	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	188486	35295915	105917516	243	1672											
C9orf41	138199	broad.mit.edu	37	chr9	77598770	77598770	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtatatgttgacaatacAgattctttttccacctgcaa	13	14	5	9	0	1	2	0	1	1	1	2	2	2	2	2	0	2	3	2	0	5	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:77598770A>G	uc004ajq.2	-	8	1296	c.1143T>C	c.(1141-1143)TCT>TCC	p.S381S	uc004ajp.2_Intron	NM_152420	NP_689633	Q8N4J0	CI041_HUMAN	hypothetical protein LOC138199	381										ovary(1)|skin(1)	2						TTGACAATACAGATTCTTTTT	0.313													43	95					0	0	0.033182	0	0		G	77598770	G	G	77598770	2	3	2	1	0	0	0	0	0	0	0	1	2485	175	7	3		3	C9orf41	9	77598770	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	42302855	77598770	63614661	244	1673											
KIF27	55582	broad.mit.edu	37	chr9	86518481	86518481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcgaggaggaggggctgaCacatgtgatcatgacagtct	11	9	14	7	1	2	3	1	3	1	0	3	6	2	5	0	4	0	1	0	4	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:86518481C>T	uc004ana.2	-	4	1096	c.952G>A	c.(952-954)GTC>ATC	p.V318I	KIF27_uc010mpw.2_Missense_Mutation_p.V318I|KIF27_uc010mpx.2_Missense_Mutation_p.V318I	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	318					cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						GAGGGGCTGACACATGTGATC	0.443													55	112					0	0	0.01441	0	0		T	86518481	T	T	86518481	3	4	2	1	0	0	0	0	1	0	0	0	8312	478	17	4	3313	4	KIF27	9	86518481	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	8919711	86518481	54694950	245	1674											
CDK20	23552	broad.mit.edu	37	chr9	90589344	90589344	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccctccccgatgcggcccagGatgcagtactggtccatccc	6	7	10	18	2	0	0	0	0	0	0	3	2	3	1	6	3	3	2	6	3	1	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:90589344G>A	uc004apr.2	-	1	324	c.18C>T	c.(16-18)ATC>ATT	p.I6I	CDK20_uc004aps.2_Silent_p.I6I|CDK20_uc004apt.2_Silent_p.I6I|CDK20_uc004apu.2_Silent_p.I6I	NM_001039803	NP_001034892	Q8IZL9	CDK20_HUMAN	cell cycle related kinase isoform 3	6	Protein kinase.				cell division|multicellular organismal development	cilium|mitochondrion|nucleus	ATP binding|cyclin-dependent protein kinase activity			skin(1)	1						TGCGGCCCAGGATGCAGTACT	0.682													7	18					0	0	0.00308	0	0		A	90589344	A	A	90589344	2	1	2	1	0	0	0	0	0	0	0	1	3140	1164	41	4		4	CDK20	9	90589344	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	4070863	90589344	50624087	246	1675											
C9orf102	375748	broad.mit.edu	37	chr9	98691033	98691033	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagcagtactgtatggcGtctgggcttgattaccgacg	8	11	12	10	3	1	1	0	1	1	0	1	2	1	1	1	2	4	4	1	2	4	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:98691033G>A	uc004avt.3	+	11	2059	c.1671G>A	c.(1669-1671)GCG>GCA	p.A557A	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Silent_p.A259A|C9orf102_uc010mry.1_Silent_p.A259A|C9orf102_uc010mrz.2_Silent_p.A368A|C9orf102_uc004avu.2_5'UTR	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	557	Helicase C-terminal.				DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				ACTGTATGGCGTCTGGGCTTG	0.408													71	130					0	0	0.01441	0	0		A	98691033	A	A	98691033	2	1	2	1	0	0	0	0	0	0	0	1	2448	1132	40	1		1	C9orf102	9	98691033	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	8101689	98691033	42522398	247	1676											
FOXE1	2304	broad.mit.edu	37	chr9	100617277	100617277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accatgctcgccatgctgccGcttatcccggtgggatagat	7	10	11	13	3	0	1	0	0	0	1	2	2	1	2	4	2	3	3	4	2	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:100617277G>A	uc004axu.2	+	1	1741	c.1081G>A	c.(1081-1083)GCT>ACT	p.A361T		NM_004473	NP_004464	O00358	FOXE1_HUMAN	forkhead box E1	361					cell migration|embryonic organ morphogenesis|hair follicle morphogenesis|hard palate development|lens morphogenesis in camera-type eye|negative regulation of transcription from RNA polymerase II promoter|pattern specification process|peripheral nervous system development|pharynx development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|soft palate development|thymus development|thyroid gland development|thyroid hormone generation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		Acute lymphoblastic leukemia(62;0.158)				CCATGCTGCCGCTTATCCCGG	0.637													9	21					0	0	0.013537	0	0		A	100617277	A	A	100617277	3	1	2	1	0	0	0	0	1	0	0	0	6017	1087	38	1	1083	1	FOXE1	9	100617277	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	1926244	100617277	40596154	248	1677											
NIPSNAP3B	55335	broad.mit.edu	37	chr9	107533246	107533246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctacacaaaagtagttggtGttttccacacagaatatgga	14	11	9	7	0	0	1	0	0	0	1	1	2	1	2	1	2	1	4	1	2	6	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:107533246G>A	uc004bci.2	+	4	618	c.547G>A	c.(547-549)GTT>ATT	p.V183I	NIPSNAP3A_uc011lvu.1_Intron|NIPSNAP3B_uc004bcj.1_RNA	NM_018376	NP_060846	Q9BS92	NPS3B_HUMAN	nipsnap homolog 3B	183										pancreas(1)|skin(1)	2						AGTAGTTGGTGTTTTCCACAC	0.403													86	140					0	0	0.01441	0	0		A	107533246	A	A	107533246	3	1	2	1	0	0	0	0	1	0	0	0	10450	1377	48	4	561	4	NIPSNAP3B	9	107533246	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	6915969	107533246	33680185	249	1678											
ZNF462	58499	broad.mit.edu	37	chr9	109689886	109689886	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatccggcagcatacggcCaccattcgaagcctctgcga	9	7	11	14	4	1	1	0	1	1	0	3	3	2	1	4	2	4	2	4	2	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:109689886C>T	uc004bcz.2	+	3	3982	c.3693C>T	c.(3691-3693)GCC>GCT	p.A1231A	ZNF462_uc010mto.2_Silent_p.A1079A|ZNF462_uc004bda.2_Silent_p.A1079A	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1231					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						AGCATACGGCCACCATTCGAA	0.537													6	267					0	0	0.006214	0	0		T	109689886	T	T	109689886	2	4	2	1	0	0	0	0	0	0	0	1	17951	581	21	4		4	ZNF462	9	109689886	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	2156640	109689886	31523545	250	1679											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112899000	112899000	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccacaaccagctcacggtgTtcttcccgagatggagagtt	9	10	10	12	2	2	2	1	0	1	2	4	4	4	2	3	2	2	3	3	2	1	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:112899000T>G	uc004bei.2	+	9	2064	c.1872T>G	c.(1870-1872)TGT>TGG	p.C624W	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.C392W|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.C392W|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.C202W|AKAP2_uc011lwi.1_Missense_Mutation_p.C250W|AKAP2_uc004bem.2_Missense_Mutation_p.C250W|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.C210W|AKAP2_uc011lwj.1_Missense_Mutation_p.C161W|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.C161W	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	161							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						GCTCACGGTGTTCTTCCCGAG	0.567													20	33					0	0	0.012319	0	0		G	112899000	G	G	112899000	3	3	2	1	0	0	0	0	1	0	0	0	11429	1731	60	5	1206	5	PALM2-AKAP2	9	112899000	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	3209114	112899000	28314431	251	1680											
PHYHD1	254295	broad.mit.edu	37	chr9	131702969	131702969	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagcccgggataacagcctCtttgtgcccaccccagtgca	8	7	9	17	1	1	0	0	0	1	0	1	1	1	1	6	1	5	1	6	1	1	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:131702969C>T	uc004bwo.2	+	11	1611	c.678C>T	c.(676-678)CTC>CTT	p.L226L	PHYHD1_uc004bwn.2_Missense_Mutation_p.S219F|PHYHD1_uc004bwm.2_RNA|PHYHD1_uc004bwp.2_Silent_p.L205L|NUP188_uc004bwq.1_5'Flank	NM_001100876	NP_001094346	Q5SRE7	PHYD1_HUMAN	phytanoyl-CoA dioxygenase domain containing 1	226							metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						ATAACAGCCTCTTTGTGCCCA	0.627													4	46					0	0	0.009096	0	0		T	131702969	T	T	131702969	2	4	2	1	0	0	0	0	0	0	0	1	11884	913	32	4		4	PHYHD1	9	131702969	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	18803969	131702969	9510462	252	1681											
MED22	6837	broad.mit.edu	37	chr9	136208530	136208530	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaggcaggtcattagctTcgcaaaggcttgagcttttc	10	11	11	9	1	1	2	1	1	0	1	3	2	1	2	0	3	2	5	0	3	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:136208530T>G	uc004cdc.2	-	5	662	c.428A>C	c.(427-429)GAA>GCA	p.E143A	MED22_uc004cdd.2_3'UTR	NM_133640	NP_598395	Q15528	MED22_HUMAN	mediator complex subunit 22 isoform b	143					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|mediator complex|soluble fraction	protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.14e-06)|Epithelial(140;8.2e-06)|all cancers(34;6.94e-05)		GTCATTAGCTTCGCAAAGGCT	0.612													14	28					0	0	0.024245	0	0		G	136208530	G	G	136208530	3	3	2	1	0	0	0	0	1	0	0	0	9458	1783	62	5	178	5	MED22	9	136208530	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	4505561	136208530	5004901	253	1682											
MAN1B1	11253	broad.mit.edu	37	chr9	139995979	139995979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcctgccttcagaacaccatCcaagattccttactcggatg	10	10	7	14	1	1	2	1	0	0	2	4	3	3	3	5	1	3	0	5	1	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr9:139995979C>T	uc004cld.2	+	8	1144	c.1109C>T	c.(1108-1110)TCC>TTC	p.S370F	MAN1B1_uc004clc.2_Missense_Mutation_p.S271F|MAN1B1_uc011meo.1_Missense_Mutation_p.S271F|MAN1B1_uc011mep.1_Missense_Mutation_p.S370F|MAN1B1_uc010ncc.2_RNA|MAN1B1_uc004clf.1_5'Flank	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	370	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		AGAACACCATCCAAGATTCCT	0.547													34	60					0	0	0.013726	0	0		T	139995979	T	T	139995979	3	4	2	1	0	0	0	0	1	0	0	0	9230	855	30	4	1139	4	MAN1B1	9	139995979	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	3787449	139995979	1217452	254	1683											
SUV39H2	79723	broad.mit.edu	37	chr10	14941679	14941679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgtgtctcattttgtgaatCacagcgtaagaagacatacg	13	12	9	7	2	2	3	2	1	1	2	3	3	2	3	0	0	2	1	0	0	4	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:14941679C>T	uc001inh.2	+	3	867	c.811C>T	c.(811-813)CAC>TAC	p.H271Y	SUV39H2_uc001ing.2_Missense_Mutation_p.H151Y|SUV39H2_uc001ini.2_Missense_Mutation_p.H271Y|SUV39H2_uc001inj.2_Missense_Mutation_p.H271Y|DCLRE1C_uc010qbx.1_Intron	NM_024670	NP_078946	Q9H5I1	SUV92_HUMAN	suppressor of variegation 3-9 homolog 2	331	SET.				cell cycle|cell differentiation|chromatin assembly or disassembly|chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin|chromosome, centromeric region|nucleus	histone methyltransferase activity (H3-K9 specific)|protein binding|zinc ion binding			breast(2)|ovary(1)	3						TTTTGTGAATCACAGCGTAAG	0.383													54	99					0	0	0.01441	0	0		T	14941679	T	T	14941679	3	4	2	1	0	0	0	0	1	0	0	0	15438	826	29	4	817	4	SUV39H2	10	14941679	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08		14941679	120593068	255	1684											
PLXDC2	84898	broad.mit.edu	37	chr10	20466336	20466336	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttggtgtagtaaacttcaAaggtaaaaatataataataa	20	12	7	2	0	1	0	1	0	0	0	1	0	1	0	0	2	1	4	0	2	11	9			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:20466336A>G	uc001iqg.1	+	9	1696	c.1059A>G	c.(1057-1059)CAA>CAG	p.Q353Q	PLXDC2_uc001iqh.1_Silent_p.Q304Q|PLXDC2_uc009xkc.1_RNA	NM_032812	NP_116201	Q6UX71	PXDC2_HUMAN	plexin domain containing 2 precursor	353	Extracellular (Potential).|PSI.					integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4						GTAAACTTCAAAGGtaaaaat	0.244													49	78					0	0	0.01441	0	0		G	20466336	G	G	20466336	2	3	2	1	0	0	0	0	0	0	0	1	12137	11	1	3		3	PLXDC2	10	20466336	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	5524657	20466336	115068411	256	1685											
ARMC3	219681	broad.mit.edu	37	chr10	23250949	23250949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaaatgataaggagtctcGaacaatgctaagagacaatc	17	8	9	7	1	1	2	0	1	1	1	3	5	1	3	0	1	3	2	0	1	6	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:23250949G>A	uc001irm.3	+	7	757	c.674G>A	c.(673-675)CGA>CAA	p.R225Q	ARMC3_uc010qcv.1_Missense_Mutation_p.R225Q|ARMC3_uc010qcw.1_Intron	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	225	ARM 6.						binding				0						AAGGAGTCTCGAACAATGCTA	0.368													35	61					0	0	0.013726	0	0		A	23250949	A	A	23250949	3	1	2	1	0	0	0	0	1	0	0	0	953	1058	37	1	696	1	ARMC3	10	23250949	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2784613	23250949	112283798	257	1686											
NRP1	8829	broad.mit.edu	37	chr10	33619745	33619745	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcacttgggtgataagAatgaggataaccaggagatg	13	12	12	4	0	1	4	1	2	0	2	1	6	1	5	1	3	1	0	1	3	3	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:33619745A>T	uc001iwx.3	-	2	662	c.139T>A	c.(139-141)TCT>ACT	p.S47T	NRP1_uc001iwv.3_Missense_Mutation_p.S47T|NRP1_uc009xlz.2_Missense_Mutation_p.S47T|NRP1_uc001iww.3_5'UTR|NRP1_uc001iwy.3_Missense_Mutation_p.S47T|NRP1_uc001iwz.2_Missense_Mutation_p.S47T|NRP1_uc001ixa.2_Missense_Mutation_p.S47T|NRP1_uc001ixb.1_Missense_Mutation_p.S47T|NRP1_uc001ixc.1_Missense_Mutation_p.S47T	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	47	CUB 1.|Extracellular (Potential).				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	GGGTGATAAGAATGAGGATAA	0.418													44	76					0	0	0.01441	0	0		T	33619745	T	T	33619745	3	4	2	1	0	0	0	0	1	0	0	0	10679	246	9	5	2707	5	NRP1	10	33619745	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	10368796	33619745	101915002	258	1687											
ALOX5	240	broad.mit.edu	37	chr10	45878028	45878028	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaatgacgactggtaccTgaagtacatcacgctgaaga	13	8	11	9	2	1	5	1	4	0	1	1	6	1	5	1	1	2	4	1	1	5	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:45878028T>C	uc001jce.2	+	2	347	c.248T>C	c.(247-249)CTG>CCG	p.L83P	ALOX5_uc009xmt.2_Missense_Mutation_p.L83P|ALOX5_uc010qfg.1_Missense_Mutation_p.L83P	NM_000698	NP_000689	P09917	LOX5_HUMAN	arachidonate 5-lipoxygenase	83	PLAT.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	cytosol|nuclear envelope lumen|nuclear matrix|nuclear membrane	arachidonate 5-lipoxygenase activity|iron ion binding|lipoxygenase activity|protein binding			ovary(1)|pancreas(1)	2		Lung SC(717;0.0257)			Diethylcarbamazine(DB00711)|Hydrocortisone(DB00741)|Leflunomide(DB01097)|Masoprocol(DB00179)|Meclofenamic acid(DB00939)|Minocycline(DB01017)|Montelukast(DB00471)|Quinacrine(DB01103)|Vitamin E(DB00163)|Zileuton(DB00744)	GACTGGTACCTGAAGTACATC	0.577													15	44					0	0	0.020292	0	0		C	45878028	C	C	45878028	3	2	2	1	0	0	0	0	1	0	0	0	540	1580	55	3	254	3	ALOX5	10	45878028	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	12258283	45878028	89656719	259	1688											
DKK1	22943	broad.mit.edu	37	chr10	54076318	54076318	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcttctccttcgtaggacaAgaaggttctgtttgtctccg	6	15	10	10	2	4	1	0	0	4	1	7	2	4	2	2	2	0	3	2	2	3	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:54076318A>C	uc001jjr.2	+	4	706	c.552A>C	c.(550-552)CAA>CAC	p.Q184H	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	184					negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						TCGTAGGACAAGAAGGTTCTG	0.413													67	170					0	0	0.01441	0	0		C	54076318	C	C	54076318	3	2	2	1	0	0	0	0	1	0	0	0	4550	69	3	5	566	5	DKK1	10	54076318	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	8198290	54076318	81458429	260	1689											
PCDH15	65217	broad.mit.edu	37	chr10	55973714	55973714	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accttaataaccaaatcaaaTttctggtgaaagtctctgtt	14	14	5	8	0	3	1	1	1	2	0	4	1	3	1	2	1	1	1	2	1	5	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:55973714T>G	uc001jju.1	-	10	1475	c.1080A>C	c.(1078-1080)AAA>AAC	p.K360N	PCDH15_uc010qhq.1_Missense_Mutation_p.K365N|PCDH15_uc010qhr.1_Missense_Mutation_p.K360N|PCDH15_uc010qhs.1_Missense_Mutation_p.K365N|PCDH15_uc010qht.1_Missense_Mutation_p.K360N|PCDH15_uc010qhu.1_Missense_Mutation_p.K360N|PCDH15_uc001jjv.1_Missense_Mutation_p.K338N|PCDH15_uc010qhv.1_Missense_Mutation_p.K360N|PCDH15_uc010qhw.1_Missense_Mutation_p.K323N|PCDH15_uc010qhx.1_Missense_Mutation_p.K360N|PCDH15_uc010qhy.1_Missense_Mutation_p.K365N|PCDH15_uc010qhz.1_Missense_Mutation_p.K360N|PCDH15_uc010qia.1_Missense_Mutation_p.K338N|PCDH15_uc010qib.1_Missense_Mutation_p.K338N|PCDH15_uc001jjw.2_Missense_Mutation_p.K360N	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	360	Cadherin 3.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CCAAATCAAATTTCTGGTGAA	0.383										HNSCC(58;0.16)			24	82					0	0	0.024334	0	0		G	55973714	G	G	55973714	3	3	2	1	0	0	0	0	1	0	0	0	11530	1490	52	5	6527	5	PCDH15	10	55973714	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	1897396	55973714	79561033	261	1690											
REEP3	221035	broad.mit.edu	37	chr10	65359005	65359005	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actttggacggcaaggtttaAaccttgcagctactgctgct	9	12	10	10	1	0	0	0	0	0	0	0	1	0	1	1	3	6	6	1	3	4	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:65359005A>T	uc001jmt.2	+	5	562	c.379A>T	c.(379-381)AAC>TAC	p.N127Y	REEP3_uc009xpl.1_Missense_Mutation_p.N127Y	NM_001001330	NP_001001330	Q6NUK4	REEP3_HUMAN	receptor accessory protein 3	127						integral to membrane					0	Prostate(12;0.0119)|all_hematologic(501;0.191)					GCAAGGTTTAAACCTTGCAGC	0.388													24	46					0	0	0.01892	0	0		T	65359005	T	T	65359005	3	4	2	1	0	0	0	0	1	0	0	0	13231	14	1	5	397	5	REEP3	10	65359005	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	9385291	65359005	70175742	262	1691											
TET1	80312	broad.mit.edu	37	chr10	70406713	70406713	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttactaaccctacaaaaaaCctagtgtctataactaaaga	18	11	3	9	0	1	1	0	0	1	1	1	1	1	1	2	0	5	0	2	0	11	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:70406713C>T	uc001jok.3	+	4	4732	c.4227C>T	c.(4225-4227)AAC>AAT	p.N1409N		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1409					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						CTACAAAAAACCTAGTGTCTA	0.383													5	155					0	0	0.014758	0	0		T	70406713	T	T	70406713	2	4	2	1	0	0	0	0	0	0	0	1	15794	506	18	4		4	TET1	10	70406713	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	5047708	70406713	65128034	263	1692											
MYST4	23522	broad.mit.edu	37	chr10	76735809	76735809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcaccacccaaacgtatgCgtcgtaaaactgaattatct	14	10	6	11	3	1	1	0	1	1	0	2	1	1	1	2	0	4	3	2	0	6	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:76735809C>T	uc001jwn.1	+	8	2207	c.1714C>T	c.(1714-1716)CGT>TGT	p.R572C	MYST4_uc001jwm.1_Intron|MYST4_uc001jwo.1_Intron|MYST4_uc001jwp.1_Intron	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	572	Negatively regulates HAT activity.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					CAAACGTATGCGTCGTAAAAC	0.453			T	CREBBP	AML								4	190					0	0	0.009096	0	0		T	76735809	T	T	76735809	3	4	2	1	0	0	0	0	1	0	0	0	10123	768	27	1	1736	1	MYST4	10	76735809	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	6329096	76735809	58798938	264	1693											
KCNMA1	3778	broad.mit.edu	37	chr10	78799339	78799339	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcactggagagatattctgtGtacatttcatttgagactcc	10	14	9	8	0	2	2	1	1	1	2	3	5	3	3	1	1	1	2	1	1	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:78799339G>A	uc001jxn.2	-	15	1983	c.1806C>T	c.(1804-1806)TAC>TAT	p.Y602Y	KCNMA1_uc001jxj.2_Silent_p.Y602Y|KCNMA1_uc001jxk.1_Silent_p.Y217Y|KCNMA1_uc009xrt.1_Silent_p.Y422Y|KCNMA1_uc001jxl.1_Silent_p.Y256Y|KCNMA1_uc001jxo.2_Silent_p.Y602Y|KCNMA1_uc001jxm.2_Silent_p.Y602Y|KCNMA1_uc001jxq.2_Silent_p.Y602Y	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	602	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	GATATTCTGTGTACATTTCAT	0.423													4	121					0	0	0.014758	0	0		A	78799339	A	A	78799339	2	1	2	1	0	0	0	0	0	0	0	1	8089	1372	48	4		4	KCNMA1	10	78799339	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2063530	78799339	56735408	265	1694											
WAPAL	23063	broad.mit.edu	37	chr10	88277753	88277753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	taagggtagtccgtttgttgGaaaagacttcatcgaatttt	11	15	10	5	2	1	1	1	0	0	1	3	3	2	2	1	2	0	3	1	2	5	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:88277753G>A	uc001kdo.2	-	2	516	c.74C>T	c.(73-75)TCC>TTC	p.S25F	WAPAL_uc001kdn.2_Missense_Mutation_p.S68F|WAPAL_uc009xsw.2_Missense_Mutation_p.S25F|WAPAL_uc010qmh.1_Missense_Mutation_p.S25F|WAPAL_uc010qmi.1_Missense_Mutation_p.S62F|WAPAL_uc010qmj.1_Missense_Mutation_p.S25F	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	25	Mediates interaction with the cohesin complex.				cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						CCGTTTGTTGGAAAAGACTTC	0.398													61	93					0	0	0.01441	0	0		A	88277753	A	A	88277753	3	1	2	1	0	0	0	0	1	0	0	0	17274	1174	41	4	3570	4	WAPAL	10	88277753	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	9478414	88277753	47256994	266	1695											
ANKRD1	27063	broad.mit.edu	37	chr10	92678659	92678659	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgttcttgtctgacaagAatttttctactactggcagt	9	17	8	7	0	3	2	0	1	3	1	3	3	3	2	0	1	2	2	0	1	4	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:92678659A>T	uc001khe.1	-	4	664	c.416T>A	c.(415-417)TTC>TAC	p.F139Y		NM_014391	NP_055206	Q15327	ANKR1_HUMAN	cardiac ankyrin repeat protein	139					cellular lipid metabolic process|defense response|signal transduction		DNA binding				0		Colorectal(252;0.0475)				GTCTGACAAGAATTTTTCTAC	0.358													76	94					0	0	0.01441	0	0		T	92678659	T	T	92678659	3	4	2	1	0	0	0	0	1	0	0	0	637	246	9	5	567	5	ANKRD1	10	92678659	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	4400906	92678659	42856088	267	1696											
HECTD2	143279	broad.mit.edu	37	chr10	93221110	93221110	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagaattaaatgctgcattTaaggtaattatacataaaac	18	12	5	6	0	0	1	0	0	0	1	0	1	0	1	1	1	4	3	1	1	9	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:93221110T>G	uc001khl.2	+	4	607	c.507T>G	c.(505-507)TTT>TTG	p.F169L	LOC100188947_uc010qnl.1_Intron|HECTD2_uc001khk.2_Missense_Mutation_p.F169L|HECTD2_uc010qnm.1_Missense_Mutation_p.F169L|HECTD2_uc001khm.2_RNA|HECTD2_uc009xty.1_5'Flank	NM_182765	NP_877497	Q5U5R9	HECD2_HUMAN	HECT domain containing 2 isoform a	169					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			skin(1)	1						ATGCTGCATTTAAGGTAATTA	0.274													79	133					0	0	0.01441	0	0		G	93221110	G	G	93221110	3	3	2	1	0	0	0	0	1	0	0	0	7056	1751	61	5	521	5	HECTD2	10	93221110	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	542451	93221110	42313637	268	1697											
SORBS1	10580	broad.mit.edu	37	chr10	97158896	97158896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gccaggtgaggtgggtttttCctgggttggtgctgagtcct	3	14	17	7	0	0	2	0	2	0	0	2	2	2	2	3	5	1	3	3	5	0	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:97158896C>T	uc001kkp.2	-	10	1081	c.1036G>A	c.(1036-1038)GAA>AAA	p.E346K	SORBS1_uc001kkl.2_5'UTR|SORBS1_uc001kkn.2_Missense_Mutation_p.E179K|SORBS1_uc001kkm.2_Missense_Mutation_p.E202K|SORBS1_uc001kko.2_Missense_Mutation_p.E346K|SORBS1_uc001kkq.2_Missense_Mutation_p.E277K|SORBS1_uc001kkr.2_Missense_Mutation_p.E182K|SORBS1_uc001kks.2_Missense_Mutation_p.E182K|SORBS1_uc001kkt.2_RNA|SORBS1_uc001kku.2_Missense_Mutation_p.E223K|SORBS1_uc001kkv.2_Missense_Mutation_p.E314K|SORBS1_uc001kkw.2_Missense_Mutation_p.E346K|SORBS1_uc010qoe.1_Missense_Mutation_p.E191K|SORBS1_uc010qof.1_Missense_Mutation_p.E544K	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	346					focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		GTGGGTTTTTCCTGGGTTGGT	0.473													5	141					0	0	0.014758	0	0		T	97158896	T	T	97158896	3	4	2	1	0	0	0	0	1	0	0	0	14952	864	30	4	3127	4	SORBS1	10	97158896	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	3937786	97158896	38375851	269	1698											
ZNF518A	9849	broad.mit.edu	37	chr10	97918544	97918544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcatttcaaaaacacgagaGagaaggcaaaattgttgaat	18	9	9	5	1	2	3	2	1	0	2	2	5	2	3	0	1	1	2	0	1	6	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:97918544G>A	uc001klp.2	+	6	3322	c.2465G>A	c.(2464-2466)AGA>AAA	p.R822K	ZNF518A_uc001klo.1_Missense_Mutation_p.R292K|ZNF518A_uc001klq.2_Missense_Mutation_p.R822K|ZNF518A_uc001klr.2_Missense_Mutation_p.R822K	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	822					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		AAACACGAGAGAGAAGGCAAA	0.383													37	65					0	0	0.015359	0	0		A	97918544	A	A	97918544	3	1	2	1	0	0	0	0	1	0	0	0	17987	942	33	4	2467	4	ZNF518A	10	97918544	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	759648	97918544	37616203	270	1699											
C10orf79	80217	broad.mit.edu	37	chr10	105923947	105923947	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caattccagatctaaaataaTttctcgaattcgaacatttc	15	14	3	9	2	2	1	0	0	2	1	6	3	3	1	1	0	1	0	1	0	6	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:105923947T>G	uc001kxw.2	-	24	3267	c.3151A>C	c.(3151-3153)ATT>CTT	p.I1051L	C10orf79_uc009xxq.2_Missense_Mutation_p.I359L	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1051											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TCTAAAATAATTTCTCGAATT	0.383													31	49					0	0	0.037714	0	0		G	105923947	G	G	105923947	3	3	2	1	0	0	0	0	1	0	0	0	1621	1493	52	5	1906	5	C10orf79	10	105923947	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	8005403	105923947	29610800	271	1700											
C10orf79	80217	broad.mit.edu	37	chr10	105927437	105927437	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttccaattctttcagcTcttcaaccgtgcgcgctttc	5	16	5	15	3	5	0	2	0	3	0	7	0	6	0	2	0	3	2	2	0	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:105927437T>C	uc001kxw.2	-	22	2866	c.2750A>G	c.(2749-2751)GAG>GGG	p.E917G	C10orf79_uc009xxq.2_Missense_Mutation_p.E225G|C10orf79_uc001kxx.3_Missense_Mutation_p.E918G	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	917	Potential.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TTCTTTCAGCTCTTCAACCGT	0.358													47	76					0	0	0.013114	0	0		C	105927437	C	C	105927437	3	2	2	1	0	0	0	0	1	0	0	0	1621	1551	54	3	2315	3	C10orf79	10	105927437	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	3490	105927437	29607310	272	1701											
PNLIPRP2	5408	broad.mit.edu	37	chr10	118394392	118394392	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaatcacctaagaagcttCgagtattactcaagcagcgt	13	10	8	10	2	2	1	2	0	0	1	3	2	2	1	1	0	5	4	1	0	6	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:118394392C>T	uc001lcq.2	+	11	884	c.861C>T	c.(859-861)TTC>TTT	p.F287F	PNLIPRP2_uc009xyu.1_RNA|PNLIPRP2_uc009xyv.1_RNA	NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2	286					galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		TAAGAAGCTTCGAGTATTACT	0.493													30	45					0	0	0.019004	0	0		T	118394392	T	T	118394392	2	4	2	1	0	0	0	0	0	0	0	1	12170	883	31	1		1	PNLIPRP2	10	118394392	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	12466955	118394392	17140355	273	1702											
SFXN4	119559	broad.mit.edu	37	chr10	120917394	120917394	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatactcacgtaacttctgtTtccattgatgctgttgaacg	10	15	7	9	2	2	2	1	2	1	0	3	2	3	2	1	0	4	4	1	0	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:120917394T>G	uc001leb.2	-	8	505	c.460A>C	c.(460-462)AAC>CAC	p.N154H	SFXN4_uc001ldy.2_Missense_Mutation_p.N38H|SFXN4_uc001ldz.2_Missense_Mutation_p.N38H|SFXN4_uc001lea.2_RNA	NM_213649	NP_998814	Q6P4A7	SFXN4_HUMAN	sideroflexin 4	154					iron ion homeostasis	integral to membrane|mitochondrial membrane	cation transmembrane transporter activity			ovary(1)	1		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0261)		TAACTTCTGTTTCCATTGATG	0.403													53	104					0	0	0.01441	0	0		G	120917394	G	G	120917394	3	3	2	1	0	0	0	0	1	0	0	0	14222	1841	64	5	581	5	SFXN4	10	120917394	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2523002	120917394	14617353	274	1703											
SEC23IP	11196	broad.mit.edu	37	chr10	121677497	121677497	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataaaccatctgcatgcacTctttatgagtcggaacccag	12	10	8	11	1	2	1	0	1	2	0	3	3	2	2	2	1	4	2	2	1	4	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:121677497T>A	uc001leu.1	+	9	1766	c.1694T>A	c.(1693-1695)CTC>CAC	p.L565H	SEC23IP_uc010qtc.1_Missense_Mutation_p.L354H|SEC23IP_uc009xzk.1_5'Flank	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	565					Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		CTGCATGCACTCTTTATGAGT	0.363													63	121					0	0	0.01441	0	0		A	121677497	A	A	121677497	3	1	2	1	0	0	0	0	1	0	0	0	14018	1551	54	5	1728	5	SEC23IP	10	121677497	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	760103	121677497	13857250	275	1704											
GPR123	84435	broad.mit.edu	37	chr10	134942949	134942949	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaaattgctagaaggcctGccgtttggcaccgacgggac	9	8	14	10	3	0	1	0	0	0	1	0	3	0	2	3	4	2	4	3	4	4	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr10:134942949G>A	uc001llx.3	+	7	2053	c.1617G>A	c.(1615-1617)CTG>CTA	p.L539L	GPR123_uc001llw.2_Silent_p.L1258L	NM_001083909	NP_001077378	Q86SQ6	GP123_HUMAN	G protein-coupled receptor 123	539	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		TAGAAGGCCTGCCGTTTGGCA	0.622													7	22					0	0	0.00308	0	0		A	134942949	A	A	134942949	2	1	2	1	0	0	0	0	0	0	0	1	6652	1306	46	2		2	GPR123	10	134942949	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	13265452	134942949	591798	276	1705											
TH	7054	broad.mit.edu	37	chr11	2186587	2186587	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaatctcaggctcctcagaCaggcagtgctggcaggaggc	9	6	14	12	1	2	1	2	0	1	1	4	3	3	2	1	5	1	4	1	5	1	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:2186587C>T	uc001lvq.2	-	13	1321	c.1302G>A	c.(1300-1302)CTG>CTA	p.L434L	TH_uc001lvp.2_Silent_p.L430L|TH_uc001lvr.2_Silent_p.L403L|TH_uc010qxj.1_Silent_p.L407L|TH_uc001lvs.2_Silent_p.L309L|TH_uc001lvt.2_Silent_p.L313L	NM_199292	NP_954986	P07101	TY3H_HUMAN	tyrosine hydroxylase isoform a	434					dopamine biosynthetic process from tyrosine|embryonic camera-type eye morphogenesis|epinephrine biosynthetic process|eye photoreceptor cell development|heart morphogenesis|hormone biosynthetic process|learning|locomotory behavior|memory|neurotransmitter biosynthetic process|neurotransmitter secretion|norepinephrine biosynthetic process|pigmentation|regulation of heart contraction|response to ethanol|response to hypoxia|synaptic transmission, dopaminergic|visual perception	cytosol|internal side of plasma membrane|melanosome membrane|nucleus|perikaryon|smooth endoplasmic reticulum	protein binding|tyrosine 3-monooxygenase activity				0		all_epithelial(84;1.46e-23)|Lung NSC(207;4.44e-11)|all_lung(207;1.11e-09)|Ovarian(85;1.78e-06)|Breast(177;1.78e-05)|Medulloblastoma(188;0.0208)|all_neural(188;0.0416)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;8.45e-09)|Lung(200;0.000152)|LUSC - Lung squamous cell carcinoma(625;0.00154)	L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Metyrosine(DB00765)|Tetrahydrobiopterin(DB00360)	GCTCCTCAGACAGGCAGTGCT	0.632													34	84					0	0	0.021022	0	0		T	2186587	T	T	2186587	2	4	2	1	0	0	0	0	0	0	0	1	15863	465	17	4		4	TH	11	2186587	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08		2186587	132819929	277	1706											
UBQLN3	50613	broad.mit.edu	37	chr11	5529962	5529962	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtggcagtggcaaagggaTtgccgccaaactgctcctgg	9	8	14	10	1	0	0	0	0	0	0	1	1	1	1	3	4	3	3	3	4	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:5529962T>G	uc001may.1	-	2	913	c.827A>C	c.(826-828)AAT>ACT	p.N276T	HBG2_uc001mak.1_Intron	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	276										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGCAAAGGGATTGCCGCCAAA	0.512													56	100					0	0	0.01441	0	0		G	5529962	G	G	5529962	3	3	2	1	0	0	0	0	1	0	0	0	16924	1493	52	5	1144	5	UBQLN3	11	5529962	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	3343375	5529962	129476554	278	1707											
ST5	6764	broad.mit.edu	37	chr11	8715660	8715660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcttaattcttcttgtggaGaaacttcattttgttgcctg	7	18	9	7	0	3	1	1	0	2	1	3	2	3	1	1	2	2	2	1	2	2	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:8715660G>A	uc001mgt.2	-	20	3583	c.3397C>T	c.(3397-3399)CTC>TTC	p.L1133F	ST5_uc009yfr.2_Missense_Mutation_p.L713F|ST5_uc001mgu.2_Missense_Mutation_p.L713F|ST5_uc001mgv.2_Missense_Mutation_p.L1133F|ST5_uc010rbp.1_Missense_Mutation_p.L646F	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	1133					positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		TTCTTGTGGAGAAACTTCATT	0.547													5	89					0	0	0.014758	0	0		A	8715660	A	A	8715660	3	1	2	1	0	0	0	0	1	0	0	0	15245	942	33	4	20	4	ST5	11	8715660	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	3185698	8715660	126290856	279	1708											
DENND5A	23258	broad.mit.edu	37	chr11	9165810	9165810	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccatgcccttccctaaccaCcggccacacgggaacctgaa	10	6	7	18	2	0	1	0	1	0	0	2	2	2	2	7	2	3	0	7	2	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:9165810C>T	uc001mhl.2	-	19	3393	c.3138G>A	c.(3136-3138)CGG>CGA	p.R1046R	DENND5A_uc001mhk.2_Silent_p.R389R|DENND5A_uc010rbw.1_Silent_p.R1046R	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	1046	PLAT.									liver(1)	1						TCCCTAACCACCGGCCACACG	0.592													8	24					0	0	0.006214	0	0		T	9165810	T	T	9165810	2	4	2	1	0	0	0	0	0	0	0	1	4442	494	18	4		4	DENND5A	11	9165810	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	450150	9165810	125840706	280	1709											
DENND5A	23258	broad.mit.edu	37	chr11	9182384	9182384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctagctccacagcttctcggCccatcttttccaccagcatc	7	11	5	18	1	2	0	0	0	2	0	6	0	4	0	4	1	3	3	4	1	1	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:9182384C>T	uc001mhl.2	-	12	2567	c.2312G>A	c.(2311-2313)GGC>GAC	p.G771D	DENND5A_uc001mhk.2_Missense_Mutation_p.G114D|DENND5A_uc010rbw.1_Missense_Mutation_p.G771D|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	771										liver(1)	1						AGCTTCTCGGCCCATCTTTTC	0.512													45	82					0	0	0.01441	0	0		T	9182384	T	T	9182384	3	4	2	1	0	0	0	0	1	0	0	0	4442	739	26	2	1599	2	DENND5A	11	9182384	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	16574	9182384	125824132	281	1710											
USH1C	10083	broad.mit.edu	37	chr11	17546043	17546043	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagccaggtttcacatggctGataaagatgccaggcttctg	10	10	12	9	0	2	2	1	1	1	1	2	3	2	2	2	3	2	3	2	3	2	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:17546043G>A	uc001mnf.2	-	9	823	c.714C>T	c.(712-714)ATC>ATT	p.I238I	USH1C_uc001mne.2_Silent_p.I238I|USH1C_uc009yhb.2_Silent_p.I238I|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_Silent_p.I202I	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	238	PDZ 2.				equilibrioception|G2/M transition of mitotic cell cycle|photoreceptor cell maintenance|sensory perception of sound	apical part of cell|cytoplasm|stereocilium	protein binding			ovary(1)	1						TCACATGGCTGATAAAGATGC	0.592													3	8					0	0	0.009096	0	0		A	17546043	A	A	17546043	2	1	2	1	0	0	0	0	0	0	0	1	17060	1280	45	4		4	USH1C	11	17546043	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	8363659	17546043	117460473	282	1711											
MRGPRX3	117195	broad.mit.edu	37	chr11	18158908	18158908	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtgctctggctcctgggCtgccgcatgcgcaggaacgc	4	9	15	13	3	1	0	0	0	1	0	2	1	2	1	2	3	4	6	2	3	1	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:18158908C>A	uc001mnu.2	+	3	520	c.159C>A	c.(157-159)GGC>GGA	p.G53G		NM_054031	NP_473372	Q96LB0	MRGX3_HUMAN	MAS-related GPR, member X3	53	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						GGCTCCTGGGCTGCCGCATGC	0.592													58	133					1.27862e-28	1.33318e-28	0.01441	1	0		A	18158908	A	A	18158908	2	1	2	1	0	0	0	0	0	0	0	1	9786	784	28	5		5	MRGPRX3	11	18158908	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	612865	18158908	116847608	283	1712											
NAV2	89797	broad.mit.edu	37	chr11	20077454	20077454	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccatgtccctggatgagaaGagcagaaccatgagccgttc	11	8	11	11	1	0	4	0	2	0	3	3	6	2	5	4	1	3	2	4	1	2	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:20077454G>A	uc010rdm.1	+	20	5212	c.4851G>A	c.(4849-4851)AAG>AAA	p.K1617K	NAV2_uc001mpp.2_Silent_p.K1530K|NAV2_uc001mpr.3_Silent_p.K1594K|NAV2_uc001mpt.2_Silent_p.K643K|NAV2_uc009yhx.2_Silent_p.K658K|NAV2_uc009yhy.1_Silent_p.K556K|NAV2_uc009yhz.2_Silent_p.K239K|NAV2_uc001mpu.2_Silent_p.K32K	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1617	Ser-rich.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						TGGATGAGAAGAGCAGAACCA	0.433													14	66					0	0	0.028581	0	0		A	20077454	A	A	20077454	2	1	2	1	0	0	0	0	0	0	0	1	10202	933	33	4		4	NAV2	11	20077454	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	1918546	20077454	114929062	284	1713											
SLC17A6	57084	broad.mit.edu	37	chr11	22399195	22399195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacaacacaggccaatggagGttggcctagtggttgggaaa	12	7	14	8	0	0	0	0	0	0	0	0	2	0	2	2	6	1	2	2	6	4	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:22399195G>A	uc001mqk.2	+	12	2071	c.1658G>A	c.(1657-1659)GGT>GAT	p.G553D		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	553	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						GCCAATGGAGGTTGGCCTAGT	0.388													28	48					0	0	0.030593	0	0		A	22399195	A	A	22399195	3	1	2	1	0	0	0	0	1	0	0	0	14446	1261	44	4	1704	4	SLC17A6	11	22399195	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2321741	22399195	112607321	285	1714											
KCNA4	3739	broad.mit.edu	37	chr11	30032683	30032683	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcaccacagcccaccaaaAtgcatctgggatgctttgga	11	8	10	12	0	2	0	1	0	1	0	2	2	2	2	3	3	3	2	3	3	2	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:30032683A>T	uc001msk.2	-	2	2695	c.1543T>A	c.(1543-1545)TTT>ATT	p.F515I		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	515						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCCCACCAAAATGCATCTGGG	0.517													29	69					0	0	0.037714	0	0		T	30032683	T	T	30032683	3	4	2	1	0	0	0	0	1	0	0	0	8021	101	4	5	422	5	KCNA4	11	30032683	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	7633488	30032683	104973833	286	1715											
PTPRJ	5795	broad.mit.edu	37	chr11	48145248	48145248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcaatggcaatggcactGcctcctgccgggttcttctt	6	11	12	12	1	2	0	0	0	2	0	3	1	3	1	3	4	3	4	3	4	2	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:48145248G>A	uc001ngp.3	+	5	1055	c.700G>A	c.(700-702)GCC>ACC	p.A234T	PTPRJ_uc001ngo.3_Missense_Mutation_p.A234T	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	234	Extracellular (Potential).|Fibronectin type-III 2.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						CAATGGCACTGCCTCCTGCCG	0.512													36	63					0	0	0.015359	0	0		A	48145248	A	A	48145248	3	1	2	1	0	0	0	0	1	0	0	0	12829	1319	46	2	718	2	PTPRJ	11	48145248	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	18112565	48145248	86861268	287	1716											
OR4C3	256144	broad.mit.edu	37	chr11	48346744	48346744	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccacgctggcttcccctgtGtattttttcctggccaacct	4	14	7	16	1	0	0	0	0	0	0	2	0	2	0	6	2	1	3	6	2	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:48346744G>A	uc010rhv.1	+	1	252	c.252G>A	c.(250-252)GTG>GTA	p.V84V		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CTTCCCCTGTGTATTTTTTCC	0.453													27	212					0	0	0.013726	0	0		A	48346744	A	A	48346744	2	1	2	1	0	0	0	0	0	0	0	1	11069	1364	48	4		4	OR4C3	11	48346744	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	201496	48346744	86659772	288	1717											
OR4C12	283093	broad.mit.edu	37	chr11	50003318	50003318	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacaactactatgatgtgAgaaatacaggtggagagggc	16	7	13	5	0	0	4	0	2	0	3	0	6	0	4	0	3	3	0	0	3	6	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:50003318A>G	uc010ria.1	-	1	720	c.720T>C	c.(718-720)TCT>TCC	p.S240S		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	240	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						CTATGATGTGAGAAATACAGG	0.398													35	57					0	0	0.012213	0	0		G	50003318	G	G	50003318	2	3	2	1	0	0	0	0	0	0	0	1	11065	291	11	3		3	OR4C12	11	50003318	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	1656574	50003318	85003198	289	1718											
OR4S2	219431	broad.mit.edu	37	chr11	55418466	55418466	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagtttgttttgtggtgttTtctttcttctacataatcat	8	22	6	5	0	4	0	1	0	3	0	4	0	4	0	0	1	1	3	0	1	3	9			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:55418466T>G	uc001nhs.1	+	1	87	c.87T>G	c.(85-87)TTT>TTG	p.F29L		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	29	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				TTGTGGTGTTTTCTTTCTTCT	0.388													94	173					0	0	0.01441	0	0		G	55418466	G	G	55418466	3	3	2	1	0	0	0	0	1	0	0	0	11102	1838	64	5	89	5	OR4S2	11	55418466	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	5415148	55418466	79588050	290	1719											
OR8H3	390152	broad.mit.edu	37	chr11	55890633	55890633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttttacttacttaaagcCaagaaagtcttattccttgg	12	16	6	7	0	1	1	0	0	1	1	2	2	2	1	2	1	3	0	2	1	7	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:55890633C>T	uc001nii.1	+	1	785	c.785C>T	c.(784-786)CCA>CTA	p.P262L		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					TACTTAAAGCCAAGAAAGTCT	0.383													51	130					0	0	0.01441	0	0		T	55890633	T	T	55890633	3	4	2	1	0	0	0	0	1	0	0	0	11258	594	21	4	787	4	OR8H3	11	55890633	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	472167	55890633	79115883	291	1720											
OR8H1	219469	broad.mit.edu	37	chr11	56058388	56058388	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgtgaagctggaggtccaGgcggattatcaatatcatcc	11	10	12	8	1	2	1	2	1	0	0	4	3	4	3	2	4	1	1	2	4	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:56058388G>A	uc010rje.1	-	1	151	c.151C>T	c.(151-153)CTG>TTG	p.L51L		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	51	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					TGGAGGTCCAGGCGGATTATC	0.418													159	340					0	0	0.01441	0	0		A	56058388	A	A	56058388	2	1	2	1	0	0	0	0	0	0	0	1	11256	991	35	4		4	OR8H1	11	56058388	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	167755	56058388	78948128	292	1721											
OR5M9	390162	broad.mit.edu	37	chr11	56230020	56230020	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttctcagactgtagatCatgggattcaacataggaat	13	14	8	6	0	3	2	3	0	1	2	4	4	3	4	0	2	1	1	0	2	5	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:56230020C>A	uc010rjj.1	-	1	858	c.858G>T	c.(856-858)ATG>ATT	p.M286I		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					GACTGTAGATCATGGGATTCA	0.423													57	134					6.60958e-23	6.87886e-23	0.01441	1	0		A	56230020	A	A	56230020	3	1	2	1	0	0	0	0	1	0	0	0	11196	826	29	5	76	5	OR5M9	11	56230020	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	171632	56230020	78776496	293	1722											
OR5M1	390168	broad.mit.edu	37	chr11	56380316	56380316	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcctgaagatcgctgcaaaAatgaaaagataggacagaag	19	6	10	6	1	0	5	0	2	0	3	2	6	1	6	1	1	1	2	1	1	7	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:56380316A>C	uc001nja.1	-	1	663	c.663T>G	c.(661-663)ATT>ATG	p.I221M		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	221	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TCGCTGCAAAAATGAAAAGAT	0.448													47	72					0	0	0.01441	0	0		C	56380316	C	C	56380316	3	2	2	1	0	0	0	0	1	0	0	0	11191	10	1	5	288	5	OR5M1	11	56380316	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	150296	56380316	78626200	294	1723											
FAM111B	374393	broad.mit.edu	37	chr11	58893717	58893717	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgagacctacgatgaagAgaaaggtaaacaagagtcat	18	7	10	6	1	1	4	1	2	0	3	1	7	1	4	1	1	2	1	1	1	6	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:58893717A>G	uc001nnl.2	+	4	2390	c.2147A>G	c.(2146-2148)GAG>GGG	p.E716G	FAM111B_uc001nnm.2_Missense_Mutation_p.E686G|FAM111B_uc010rko.1_Missense_Mutation_p.E686G	NM_198947	NP_945185	Q6SJ93	F111B_HUMAN	hypothetical protein LOC374393 isoform a	716							catalytic activity			ovary(2)	2						TACGATGAAGAGAAAGGTAAA	0.318													41	90					0	0	0.027894	0	0		G	58893717	G	G	58893717	3	3	2	1	0	0	0	0	1	0	0	0	5411	304	11	3	2153	3	FAM111B	11	58893717	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	2513401	58893717	76112799	295	1724											
MS4A12	54860	broad.mit.edu	37	chr11	60274594	60274594	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactcagctaatgcccctaaAtagtaaaagaaaaaggggta	18	8	8	7	0	1	1	1	0	0	1	1	1	1	1	2	2	3	3	2	2	10	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:60274594A>G	uc001npr.2	+	7	858	c.801A>G	c.(799-801)AAA>AAG	p.K267K		NM_017716	NP_060186	Q9NXJ0	M4A12_HUMAN	membrane-spanning 4-domains, subfamily A, member	267	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						ATGCCCCTAAATAGTAAAAGA	0.383													46	65					0	0	0.010771	0	0		G	60274594	G	G	60274594	2	3	2	1	0	0	0	0	0	0	0	1	9874	98	4	3		3	MS4A12	11	60274594	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	1380877	60274594	74731922	296	1725											
EEF1G	1937	broad.mit.edu	37	chr11	62327809	62327810	+	Frame_Shift_Del	DEL	CT	-	-																															agttcttcagggaagcgataCtctgagtaccacagggacca																										TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:62327809_62327810delCT	uc001ntm.1	-	8	1120_1121	c.974_975delAG	c.(973-975)GAGfs	p.E325fs	EEF1G_uc010rlw.1_Frame_Shift_Del_p.E375fs|EEF1G_uc001ntn.1_Frame_Shift_Del_p.E205fs	NM_001404	NP_001395	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1	325	EF-1-gamma C-terminal.				response to virus	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						GGAAGCGATACTCTGAGTACCA	0.49													14	22	---	---	---	---						.	-	62327810	-	-	62327809	7	5	2	1	0	1	0	1	0	0	0	0	4934	564	20	0	350	0	EEF1G	11	62327809	Frame_Shift_Del	DEL	CT	TCGA-B7-5818-01A-11D-1600-08	2053215	62327809	72678707	297	1726											
CDC42BPG	55561	broad.mit.edu	37	chr11	64606691	64606691	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtccggcgtccctactgcCactgatgaatccacctgtgg	7	10	10	14	2	0	2	0	2	0	0	3	2	3	2	5	2	2	0	5	2	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:64606691C>T	uc001obs.3	-	7	690	c.690G>A	c.(688-690)GTG>GTA	p.V230V		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	230	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						TCCCTACTGCCACTGATGAAT	0.622													40	68					0	0	0.023175	0	0		T	64606691	T	T	64606691	2	4	2	1	0	0	0	0	0	0	0	1	3077	581	21	4		4	CDC42BPG	11	64606691	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	2278882	64606691	70399825	298	1727											
OR2AT4	341152	broad.mit.edu	37	chr11	74800405	74800405	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taggccatgaccaccaggatGaaggcttctgaacatgtaaa	14	8	10	9	0	1	3	0	3	1	0	1	4	1	4	3	3	1	2	3	3	5	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:74800405G>A	uc010rro.1	-	1	354	c.354C>T	c.(352-354)TTC>TTT	p.F118F		NM_001005285	NP_001005285	A6NND4	O2AT4_HUMAN	olfactory receptor, family 2, subfamily AT,	118	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCACCAGGATGAAGGCTTCTG	0.507													50	81					0	0	0.01441	0	0		A	74800405	A	A	74800405	2	1	2	1	0	0	0	0	0	0	0	1	11006	1281	45	4		4	OR2AT4	11	74800405	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	10193714	74800405	60206111	299	1728											
C11orf30	56946	broad.mit.edu	37	chr11	76239322	76239322	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctcctaggttcttattaAacccaaaccagtgacttttc	10	16	4	11	0	2	1	0	1	2	0	4	1	2	1	3	1	2	1	3	1	5	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:76239322A>C	uc001oxl.2	+	14	2149	c.2006A>C	c.(2005-2007)AAA>ACA	p.K669T	C11orf30_uc001oxm.2_Missense_Mutation_p.K585T|C11orf30_uc010rsb.1_Missense_Mutation_p.K684T|C11orf30_uc010rsc.1_Missense_Mutation_p.K684T|C11orf30_uc001oxn.2_Missense_Mutation_p.K670T|C11orf30_uc010rsd.1_Missense_Mutation_p.K683T|C11orf30_uc001oxo.1_Missense_Mutation_p.K37T|C11orf30_uc010rse.1_Missense_Mutation_p.K37T	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	669					chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						GTTCTTATTAAACCCAAACCA	0.353													6	148					0	0	0.00308	0	0		C	76239322	C	C	76239322	3	2	2	1	0	0	0	0	1	0	0	0	1639	14	1	5	2056	5	C11orf30	11	76239322	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	1438917	76239322	58767194	300	1729											
C11orf30	56946	broad.mit.edu	37	chr11	76248947	76248947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acattctcctgagagtccatCaattgctgtggtagagtcag	10	12	10	9	0	3	2	2	1	1	2	5	3	4	2	2	1	1	2	2	1	2	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:76248947C>T	uc001oxl.2	+	16	2611	c.2468C>T	c.(2467-2469)TCA>TTA	p.S823L	C11orf30_uc001oxm.2_Missense_Mutation_p.S739L|C11orf30_uc010rsb.1_Missense_Mutation_p.S838L|C11orf30_uc010rsc.1_Missense_Mutation_p.S838L|C11orf30_uc001oxn.2_Missense_Mutation_p.S824L|C11orf30_uc010rsd.1_Intron|C11orf30_uc001oxo.1_Missense_Mutation_p.S191L|C11orf30_uc010rse.1_Intron	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	823					chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						GAGAGTCCATCAATTGCTGTG	0.418													38	100					0	0	0.021022	0	0		T	76248947	T	T	76248947	3	4	2	1	0	0	0	0	1	0	0	0	1639	838	29	4	2526	4	C11orf30	11	76248947	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	9625	76248947	58757569	301	1730											
DLG2	1740	broad.mit.edu	37	chr11	83770425	83770425	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcgtcttctacgcacataCagccgaacgatagaccctgc	10	8	9	14	4	2	1	0	0	2	1	3	3	2	1	2	1	5	1	2	1	4	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:83770425C>T	uc001paj.2	-	6	840	c.537G>A	c.(535-537)CTG>CTA	p.L179L	DLG2_uc001pai.2_Silent_p.L128L|DLG2_uc010rsy.1_Silent_p.L146L|DLG2_uc010rsz.1_Silent_p.L179L|DLG2_uc010rta.1_Silent_p.L179L|DLG2_uc001pak.2_Silent_p.L284L|DLG2_uc010rtb.1_Silent_p.L146L|DLG2_uc001pal.1_Silent_p.L179L|DLG2_uc001pam.1_Silent_p.L218L	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	179	PDZ 1.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				TACGCACATACAGCCGAACGA	0.448													56	108					0	0	0.01441	0	0		T	83770425	T	T	83770425	2	4	2	1	0	0	0	0	0	0	0	1	4561	465	17	4		4	DLG2	11	83770425	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	7521478	83770425	51236091	302	1731											
GRM5	2915	broad.mit.edu	37	chr11	88301037	88301037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgactactggtgtatcaCggtaaatgatgaagactaca	14	11	9	7	1	1	4	1	3	0	1	1	4	1	4	0	2	2	2	0	2	6	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:88301037C>T	uc001pcq.2	-	7	2014	c.1814G>A	c.(1813-1815)CGT>CAT	p.R605H	GRM5_uc009yvm.2_Missense_Mutation_p.R605H	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	605	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	TGGTGTATCACGGTAAATGAT	0.507													21	58					0	0	0.010504	0	0		T	88301037	T	T	88301037	3	4	2	1	0	0	0	0	1	0	0	0	6816	536	19	1	1836	1	GRM5	11	88301037	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4530612	88301037	46705479	303	1732											
GRM5	2915	broad.mit.edu	37	chr11	88338027	88338027	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgcatagcctgggcagAgggacatctgcatgttgtgg	7	10	15	9	0	1	1	0	0	1	1	2	2	2	2	2	3	3	4	2	3	1	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:88338027A>G	uc001pcq.2	-	4	1453	c.1253T>C	c.(1252-1254)CTC>CCC	p.L418P	GRM5_uc009yvm.2_Missense_Mutation_p.L418P	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	418	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	GCCTGGGCAGAGGGACATCTG	0.468													48	94					0	0	0.01441	0	0		G	88338027	G	G	88338027	3	3	2	1	0	0	0	0	1	0	0	0	6816	304	11	3	2409	3	GRM5	11	88338027	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	36990	88338027	46668489	304	1733											
DYNC2H1	79659	broad.mit.edu	37	chr11	103104860	103104860	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcttaattaatcagcttGacagagaacataagagatgg	17	10	9	5	0	2	3	1	1	1	2	2	5	2	3	0	1	2	1	0	1	5	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:103104860G>T	uc001pho.2	+	61	9682	c.9538G>T	c.(9538-9540)GAC>TAC	p.D3180Y	DYNC2H1_uc001phn.1_Missense_Mutation_p.D3180Y|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3180	Potential.				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TAATCAGCTTGACAGAGAACA	0.403													4	6					2.56e-06	2.60166e-06	0.009096	1	0		T	103104860	T	T	103104860	3	4	2	1	0	0	0	0	1	0	0	0	4852	1290	45	5	9780	5	DYNC2H1	11	103104860	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	14766833	103104860	31901656	305	1734											
ESAM	90952	broad.mit.edu	37	chr11	124626210	124626210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agctcagggtcacgtttgccCccacatggggcacaccctgg	7	7	12	15	1	2	0	2	0	0	0	2	0	2	0	3	4	2	3	3	4	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr11:124626210C>T	uc001qav.3	-	4	673	c.500G>A	c.(499-501)GGG>GAG	p.G167E	ESAM_uc010sao.1_Intron|ESAM_uc001qau.3_Missense_Mutation_p.G94E|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Missense_Mutation_p.G167E	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	167	Extracellular (Potential).|Ig-like C2-type.				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		CACGTTTGCCCCCACATGGGG	0.587													15	9					0	0	0.020292	0	0		T	124626210	T	T	124626210	3	4	2	1	0	0	0	0	1	0	0	0	5255	623	22	4	688	4	ESAM	11	124626210	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	21521350	124626210	10380306	306	1735											
WNK1	65125	broad.mit.edu	37	chr12	992681	992681	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgtggaaccagagggtgatCagggattggagagtctacaa	12	8	16	5	0	2	3	1	1	1	2	2	6	2	5	1	4	2	0	1	4	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:992681C>T	uc001qio.3	+	16	4117	c.3610C>T	c.(3610-3612)CAG>TAG	p.Q1204*	WNK1_uc001qip.3_Nonsense_Mutation_p.Q957*|WNK1_uc001qir.3_Nonsense_Mutation_p.Q377*	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1204					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			AGAGGGTGATCAGGGATTGGA	0.413													46	96					0	0	0.01441	0	0		T	992681	T	T	992681	4	4	2	1	0	0	0	0	0	1	0	0	17403	827	29	4	5174	4	WNK1	12	992681	Nonsense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08		992681	132859214	307	1736											
KCNA1	3736	broad.mit.edu	37	chr12	5020811	5020811	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccgcaaccggcccagcttCgacgccatcctctactacta	9	7	7	18	4	1	0	0	0	1	0	3	2	2	0	5	1	4	2	5	1	4	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:5020811C>T	uc001qnh.2	+	2	1372	c.267C>T	c.(265-267)TTC>TTT	p.F89F		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	89					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	GGCCCAGCTTCGACGCCATCC	0.607													28	39					0	0	0.017118	0	0		T	5020811	T	T	5020811	2	4	2	1	0	0	0	0	0	0	0	1	8017	883	31	1		1	KCNA1	12	5020811	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4028130	5020811	128831084	308	1737											
CD163L1	283316	broad.mit.edu	37	chr12	7556290	7556290	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttagcacgacgactgccaaAgacgctgaacggacatccta	13	7	9	12	4	0	2	0	1	0	1	1	5	1	3	2	1	3	2	2	1	4	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:7556290A>G	uc001qsy.2	-	6	1275	c.1249T>C	c.(1249-1251)TTT>CTT	p.F417L	CD163L1_uc010sge.1_Missense_Mutation_p.F427L	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	417	SRCR 4.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						CGACTGCCAAAGACGCTGAAC	0.458													10	297					0	0	0.008291	0	0		G	7556290	G	G	7556290	3	3	2	1	0	0	0	0	1	0	0	0	2971	72	3	3	3168	3	CD163L1	12	7556290	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	2535479	7556290	126295605	309	1738											
LOH12CR1	118426	broad.mit.edu	37	chr12	12514147	12514147	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actttattttcagtgactccTtcaccagccaagcatagagc	11	12	6	12	0	2	2	2	1	0	1	3	2	3	2	3	0	3	1	3	0	3	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:12514147T>G	uc001ral.2	+	2	432	c.66T>G	c.(64-66)CCT>CCG	p.P22P	LOH12CR1_uc009zhu.2_Intron	NM_058169	NP_477517	Q969J3	L12R1_HUMAN	LOH1CR12	22										ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.0205)		CAGTGACTCCTTCACCAGCCA	0.443													71	108					0	0	0.01441	0	0		G	12514147	G	G	12514147	2	3	2	1	0	0	0	0	0	0	0	1	8909	1596	56	5		5	LOH12CR1	12	12514147	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08	4957857	12514147	121337748	310	1739											
GRIN2B	2904	broad.mit.edu	37	chr12	13716421	13716421	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcctcactgatgtcatacaGgttgcctgctttcttgcaag	7	14	9	11	0	3	1	2	1	1	0	4	1	4	1	2	1	4	3	2	1	2	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:13716421G>A	uc001rbt.2	-	13	3930	c.3751C>T	c.(3751-3753)CTG>TTG	p.L1251L		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1251	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ATGTCATACAGGTTGCCTGCT	0.602													31	62					0	0	0.009535	0	0		A	13716421	A	A	13716421	2	1	2	1	0	0	0	0	0	0	0	1	6796	991	35	4		4	GRIN2B	12	13716421	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	1202274	13716421	120135474	311	1740											
GRIN2B	2904	broad.mit.edu	37	chr12	13768468	13768468	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttccattgattttcttccCatgcttgccattggtaacca	7	16	7	11	0	1	1	0	1	1	0	3	1	3	1	4	2	3	3	4	2	1	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:13768468C>A	uc001rbt.2	-	6	1638	c.1459G>T	c.(1459-1461)GGG>TGG	p.G487W		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	487	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ATTTTCTTCCCATGCTTGCCA	0.383													90	201					2.68325e-40	2.81341e-40	0.01441	1	0		A	13768468	A	A	13768468	3	1	2	1	0	0	0	0	1	0	0	0	6796	594	21	5	3027	5	GRIN2B	12	13768468	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	52047	13768468	120083427	312	1741											
LST-3TM12	338821	broad.mit.edu	37	chr12	21172216	21172216	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtatttgtaagttacttTggatctaaactacacagacc	13	15	6	7	0	1	1	0	0	1	1	1	2	1	2	1	1	3	3	1	1	6	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:21172216T>A	uc010sin.1	+	2	120	c.120T>A	c.(118-120)TTT>TTA	p.F40L	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Intron	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	40						membrane	transporter activity				0						TAAGTTACTTTGGATCTAAAC	0.323													29	49					0	0	0.034045	0	0		A	21172216	A	A	21172216	3	1	2	1	0	0	0	0	1	0	0	0	9084	1809	63	5	126	5	LST-3TM12	12	21172216	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	7403748	21172216	112679679	313	1742											
LRRK2	120892	broad.mit.edu	37	chr12	40687444	40687445	+	Nonsense_Mutation	DNP	GC	CT	CT																															cagcgttgctcaccaaatttGcaaagacattccaattcctt																								rs72547970		TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:40687444_40687445GC>CT	uc001rmg.3	+	21	2908_2909	c.2787_2788GC>CT	c.(2785-2790)TTGCAA>TTCTAA	p.929_930LQ>F*	LRRK2_uc001rmh.1_Nonsense_Mutation_p.551_552LQ>F*|LRRK2_uc009zjw.2_5'Flank	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	929_930			Q -> R (in PARK8; could be a poymorphism).		activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CACCAAATTTGCAAAGACATTC	0.347													31	61					0	0	0.004672	0	0		CT	40687445	CT	CT	40687444	4	2	2	1	0	0	0	0	0	1	0	0	9051	1310	46	5	2869	5	LRRK2	12	40687444	Nonsense_Mutation	DNP	GC	TCGA-B7-5818-01A-11D-1600-08	19515228	40687444	93164451	314	1743											
NELL2	4753	broad.mit.edu	37	chr12	44915892	44915892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttgggtcacattcagggCagcaaaaaagatcaactgtg	13	8	11	9	0	3	1	3	0	0	1	3	1	3	1	1	2	2	2	1	2	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:44915892C>T	uc001rog.2	-	18	2661	c.2066G>A	c.(2065-2067)TGC>TAC	p.C689Y	NELL2_uc001rof.3_Missense_Mutation_p.C688Y|NELL2_uc001roh.2_Missense_Mutation_p.C689Y|NELL2_uc009zkd.2_Missense_Mutation_p.C641Y|NELL2_uc010skz.1_Missense_Mutation_p.C739Y|NELL2_uc010sla.1_Missense_Mutation_p.C712Y	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	689	VWFC 3.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		ACATTCAGGGCAGCAAAAAAG	0.433													38	63					0	0	0.019004	0	0		T	44915892	T	T	44915892	3	4	2	1	0	0	0	0	1	0	0	0	10353	710	25	2	396	2	NELL2	12	44915892	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4228448	44915892	88936003	315	1744											
KRT6A	3853	broad.mit.edu	37	chr12	52885418	52885418	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gaggttgttgatgtactgctCgaacaacggctccaggttct	8	12	12	9	2	1	1	0	1	1	0	3	3	2	1	1	3	4	6	1	3	3	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:52885418C>G	uc001sam.2	-	2	852	c.643G>C	c.(643-645)GAG>CAG	p.E215Q		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	215	Rod.|Linker 1.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		ATGTACTGCTCGAACAACGGC	0.597													45	90					0	0	0.01441	0	0		G	52885418	G	G	52885418	3	3	2	1	0	0	0	0	1	0	0	0	8496	893	31	5	1083	5	KRT6A	12	52885418	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	7969526	52885418	80966477	316	1745											
OR6C74	254783	broad.mit.edu	37	chr12	55641464	55641464	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaacccctgcattacacCaccatcatgagcagcagagt	13	7	7	14	0	1	2	1	1	0	1	1	2	1	2	4	0	6	4	4	0	2	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:55641464C>A	uc010spg.1	+	1	393	c.393C>A	c.(391-393)ACC>ACA	p.T131T		NM_001005490	NP_001005490	A6NCV1	O6C74_HUMAN	olfactory receptor, family 6, subfamily C,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TGCATTACACCACCATCATGA	0.488													77	172					1.75807e-36	1.83991e-36	0.01441	1	0		A	55641464	A	A	55641464	2	1	2	1	0	0	0	0	0	0	0	1	11217	581	21	5		5	OR6C74	12	55641464	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	2756046	55641464	78210431	317	1746											
GLS2	27165	broad.mit.edu	37	chr12	56867316	56867316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacaggcacatcattccCatgacattgggtaccaccag	11	8	10	12	0	1	2	1	2	0	0	2	2	2	2	3	3	1	2	3	3	1	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:56867316C>T	uc001slj.2	-	13	1566	c.1287G>A	c.(1285-1287)ATG>ATA	p.M429I	GLS2_uc009zos.2_RNA|GLS2_uc001slk.2_Missense_Mutation_p.M164I|GLS2_uc009zot.2_Missense_Mutation_p.M90I	NM_013267	NP_037399	Q9UI32	GLSL_HUMAN	glutaminase 2 precursor	429					cellular amino acid biosynthetic process|glutamate secretion|glutamine metabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity|protein binding			ovary(1)|central_nervous_system(1)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	ACATCATTCCCATGACATTGG	0.532													41	88					0	0	0.010771	0	0		T	56867316	T	T	56867316	3	4	2	1	0	0	0	0	1	0	0	0	6479	594	21	4	545	4	GLS2	12	56867316	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1225852	56867316	76984579	318	1747											
GLIPR1L2	144321	broad.mit.edu	37	chr12	75816696	75816696	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttgtagaggaacactgacGagaagaccttatgaaccagg	14	8	12	7	1	0	5	0	2	0	3	0	7	0	6	2	2	2	2	2	2	5	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:75816696G>A	uc001sxr.1	+	4	605	c.597G>A	c.(595-597)ACG>ACA	p.T199T	GLIPR1L2_uc001sxp.1_Silent_p.T199T|GLIPR1L2_uc001sxq.1_Silent_p.T92T	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	199						integral to membrane				ovary(1)	1						GAACACTGACGAGAAGACCTT	0.294													85	176					0	0	0.01441	0	0		A	75816696	A	A	75816696	2	1	2	1	0	0	0	0	0	0	0	1	6458	1045	37	1		1	GLIPR1L2	12	75816696	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	18949380	75816696	58035199	319	1748											
MYBPC1	4604	broad.mit.edu	37	chr12	102038445	102038445	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttctattctatcagcttTtgcaaaaattcttgatcctg	9	19	4	9	0	5	1	1	1	4	0	6	1	6	1	1	0	2	2	1	0	4	9			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:102038445T>C	uc001tii.2	+	10	863	c.761T>C	c.(760-762)TTT>TCT	p.F254S	MYBPC1_uc001tif.1_Missense_Mutation_p.F267S|MYBPC1_uc001tig.2_Missense_Mutation_p.F279S|MYBPC1_uc010svq.1_Missense_Mutation_p.F241S|MYBPC1_uc001tih.2_Missense_Mutation_p.F279S|MYBPC1_uc001tij.2_Missense_Mutation_p.F254S|MYBPC1_uc010svr.1_Missense_Mutation_p.F254S|MYBPC1_uc010svs.1_Missense_Mutation_p.F254S|MYBPC1_uc010svt.1_Missense_Mutation_p.F242S|MYBPC1_uc010svu.1_Missense_Mutation_p.F235S|MYBPC1_uc001tik.2_Missense_Mutation_p.F228S	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	254	Ig-like C2-type 2.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						CTATCAGCTTTTGCAAAAATT	0.348													33	65					0	0	0.013726	0	0		C	102038445	C	C	102038445	3	2	2	1	0	0	0	0	1	0	0	0	10029	1841	64	3	882	3	MYBPC1	12	102038445	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	26221749	102038445	31813450	320	1749											
ASCL1	429	broad.mit.edu	37	chr12	103352558	103352558	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctggacgagcatgacgCggtgagcgccgccttccagg	6	6	16	13	5	0	2	0	2	0	0	1	4	1	3	3	3	3	3	3	3	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:103352558C>G	uc001tjr.3	+	1	1107	c.536C>G	c.(535-537)GCG>GGG	p.A179G		NM_004316	NP_004307	P50553	ASCL1_HUMAN	achaete-scute complex homolog 1	179					cerebral cortex GABAergic interneuron differentiation|negative regulation of apoptosis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|noradrenergic neuron fate commitment|Notch signaling pathway|positive regulation of neuron differentiation|positive regulation of transcription from RNA polymerase II promoter|response to retinoic acid|sympathetic nervous system development	nucleus	bHLH transcription factor binding|E-box binding|sequence-specific DNA binding transcription factor activity|transcription factor binding transcription factor activity				0						GAGCATGACGCGGTGAGCGCC	0.647													6	28					0	0	0.006214	0	0		G	103352558	G	G	103352558	3	3	2	1	0	0	0	0	1	0	0	0	1035	768	27	5	538	5	ASCL1	12	103352558	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1314113	103352558	30499337	321	1750											
KIAA1033	23325	broad.mit.edu	37	chr12	105538520	105538520	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtaactcactacctagacaAgactttctacaatctaacaa	16	10	3	12	1	3	2	1	0	2	2	3	2	3	2	1	0	4	1	1	0	8	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:105538520A>G	uc001tld.2	+	22	2291	c.2204A>G	c.(2203-2205)AAG>AGG	p.K735R	KIAA1033_uc010swr.1_Missense_Mutation_p.K736R|KIAA1033_uc010sws.1_Missense_Mutation_p.K547R	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	735					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						TACCTAGACAAGACTTTCTAC	0.363													47	103					0	0	0.010771	0	0		G	105538520	G	G	105538520	3	3	2	1	0	0	0	0	1	0	0	0	8222	72	3	3	2290	3	KIAA1033	12	105538520	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	2185962	105538520	28313375	322	1751											
TAOK3	51347	broad.mit.edu	37	chr12	118693289	118693289	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttccatgtccaatttcAtgcaaaccaataaaaagttc	17	11	3	10	0	1	0	1	0	0	0	4	0	3	0	3	0	3	2	3	0	7	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:118693289A>C	uc001twx.2	-	3	379	c.84T>G	c.(82-84)CAT>CAG	p.H28Q	TAOK3_uc001twy.3_Missense_Mutation_p.H28Q	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	28	Protein kinase.				MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GTCCAATTTCATGCAAACCAA	0.373													4	201					0	0	0.009096	0	0		C	118693289	C	C	118693289	3	2	2	1	0	0	0	0	1	0	0	0	15574	214	8	5	2688	5	TAOK3	12	118693289	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	13154769	118693289	15158606	323	1752											
ZCCHC8	55596	broad.mit.edu	37	chr12	122958316	122958316	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaagggcaccttcagtgtTtaccggagccaactctgctt	10	10	10	11	1	2	1	1	0	1	1	2	2	2	2	3	2	4	3	3	2	4	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:122958316T>G	uc001ucn.2	-	14	1983	c.1852A>C	c.(1852-1854)AAC>CAC	p.N618H	ZCCHC8_uc001ucl.2_Missense_Mutation_p.N229H|ZCCHC8_uc001ucm.2_Missense_Mutation_p.N380H|ZCCHC8_uc009zxp.2_Missense_Mutation_p.N380H|ZCCHC8_uc009zxq.2_Missense_Mutation_p.N380H	NM_017612	NP_060082	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	618						catalytic step 2 spliceosome	nucleic acid binding|protein binding|zinc ion binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.25e-05)|Epithelial(86;0.000113)|BRCA - Breast invasive adenocarcinoma(302;0.202)		CCTTCAGTGTTTACCGGAGCC	0.483													5	332					0	0	0.014758	0	0		G	122958316	G	G	122958316	3	3	2	1	0	0	0	0	1	0	0	0	17619	1841	64	5	275	5	ZCCHC8	12	122958316	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	4265027	122958316	10893579	324	1753											
TMEM132D	121256	broad.mit.edu	37	chr12	129558617	129558617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttttgaggtaggggatgttgGgggctcacttttctgatctt	5	17	14	5	0	3	2	1	2	2	0	3	3	3	3	0	5	0	3	0	5	1	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:129558617G>A	uc009zyl.1	-	9	3431	c.3103C>T	c.(3103-3105)CCA>TCA	p.P1035S	TMEM132D_uc001uia.2_Missense_Mutation_p.P573S	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	1035	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GGGGATGTTGGGGGCTCACTT	0.483													41	121					0	0	0.025465	0	0		A	129558617	A	A	129558617	3	1	2	1	0	0	0	0	1	0	0	0	16072	1232	43	4	200	4	TMEM132D	12	129558617	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	6600301	129558617	4293278	325	1754											
PIWIL1	9271	broad.mit.edu	37	chr12	130845758	130845758	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaagtaatcggaaggacAaatacgatgctattaaaaaa	19	9	8	5	2	1	0	1	0	0	0	2	3	1	2	0	2	2	2	0	2	9	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:130845758A>G	uc001uik.2	+	15	1789	c.1699A>G	c.(1699-1701)AAA>GAA	p.K567E	PIWIL1_uc001uij.1_Missense_Mutation_p.K567E	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	567	RNA-binding (By similarity).|Piwi.				gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		TCGGAAGGACAAATACGATGC	0.443													21	53					0	0	0.012319	0	0		G	130845758	G	G	130845758	3	3	2	1	0	0	0	0	1	0	0	0	11976	131	5	3	1753	3	PIWIL1	12	130845758	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	1287141	130845758	3006137	326	1755											
SFRS8	6433	broad.mit.edu	37	chr12	132237891	132237891	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actagcagcggggccacctcCacaaccaccaccacaaggta	13	3	8	17	1	0	0	0	0	0	0	1	0	1	0	6	3	3	2	6	3	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr12:132237891C>G	uc001uja.1	+	8	1445	c.1305C>G	c.(1303-1305)TCC>TCG	p.S435S	SFRS8_uc010tbn.1_Silent_p.S435S|SFRS8_uc001ujb.1_Silent_p.S228S|SFRS8_uc001uiz.1_Silent_p.S309S	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	435	Poly-Thr.				mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		GGGCCACCTCCACAACCACCA	0.647													3	1					0	0	0.006214	0	0		G	132237891	G	G	132237891	2	3	2	1	0	0	0	0	0	0	0	1	14208	581	21	5		5	SFRS8	12	132237891	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1392133	132237891	1614004	327	1756											
SACS	26278	broad.mit.edu	37	chr13	23908827	23908827	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaagttgaaaccaatttctAaaaggagatgtttcagccta	15	11	7	8	0	2	2	1	1	1	1	2	3	2	2	3	1	2	2	3	1	6	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:23908827A>G	uc001uon.2	-	10	9777	c.9188T>C	c.(9187-9189)TTA>TCA	p.L3063S	SACS_uc001uoo.2_Missense_Mutation_p.L2916S|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3063					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		ACCAATTTCTAAAAGGAGATG	0.353													3	195					0	0	0.004672	0	0		G	23908827	G	G	23908827	3	3	2	1	0	0	0	0	1	0	0	0	13829	372	13	3	4555	3	SACS	13	23908827	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08		23908827	91261051	328	1757											
CENPJ	55835	broad.mit.edu	37	chr13	25457496	25457496	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattattaaactctatgagtTtgttgccatcactgtaaaat	13	16	5	7	0	2	1	1	1	1	0	2	1	2	1	1	0	2	3	1	0	6	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:25457496T>G	uc001upt.3	-	17	4089	c.3836A>C	c.(3835-3837)AAA>ACA	p.K1279T	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	1279					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		CTCTATGAGTTTGTTGCCATC	0.303													5	301					0	0	0.014758	0	0		G	25457496	G	G	25457496	3	3	2	1	0	0	0	0	1	0	0	0	3237	1841	64	5	184	5	CENPJ	13	25457496	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	1548669	25457496	89712382	329	1758											
PAN3	255967	broad.mit.edu	37	chr13	28752031	28752031	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcacctgcttcatccttgTttaatgactttggtgccctc	6	16	6	13	0	2	1	2	1	0	0	4	1	3	1	3	1	2	2	3	1	1	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:28752031T>G	uc001urz.2	+	3	219	c.211T>G	c.(211-213)TTT>GTT	p.F71V	PAN3_uc010tdo.1_Missense_Mutation_p.F217V|PAN3_uc001ury.2_5'UTR|PAN3_uc001urx.2_Missense_Mutation_p.F71V	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	217	Interaction with polyadenylate-binding protein.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		TTCATCCTTGTTTAATGACTT	0.363													3	124					0	0	0.009096	0	0		G	28752031	G	G	28752031	3	3	2	1	0	0	0	0	1	0	0	0	11434	1725	60	5	663	5	PAN3	13	28752031	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	3294535	28752031	86417847	330	1759											
PAN3	255967	broad.mit.edu	37	chr13	28862253	28862253	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcatataatttcttgtctTaacaaggtaatttgtatcta	13	18	5	5	0	4	0	1	0	3	0	4	0	4	0	0	1	1	2	0	1	7	9			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:28862253T>A	uc001urz.2	+	17	2087	c.2079T>A	c.(2077-2079)CTT>CTA	p.L693L	PAN3_uc001ury.2_Silent_p.L527L|PAN3_uc001urx.2_Silent_p.L639L	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	839	Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		TTTCTTGTCTTAACAAGGTAA	0.338													43	128					0	0	0.013114	0	0		A	28862253	A	A	28862253	2	1	2	1	0	0	0	0	0	0	0	1	11434	1741	61	5		5	PAN3	13	28862253	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08	110222	28862253	86307625	331	1760											
POSTN	10631	broad.mit.edu	37	chr13	38154095	38154095	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggttgtgtcaggagctctttCaagtctgcagcttcaagtag	8	13	12	8	0	5	0	3	0	2	0	5	1	5	1	0	2	3	5	0	2	3	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:38154095C>T	uc001uwo.3	-	12	1681	c.1563G>A	c.(1561-1563)TTG>TTA	p.L521L	POSTN_uc010tet.1_Silent_p.L49L|POSTN_uc001uwp.3_Silent_p.L521L|POSTN_uc001uwr.2_Silent_p.L521L|POSTN_uc001uwq.2_Silent_p.L521L|POSTN_uc010teu.1_Silent_p.L521L|POSTN_uc010tev.1_Silent_p.L521L|POSTN_uc010tew.1_Silent_p.L521L|POSTN_uc010tex.1_Silent_p.L436L	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	521	FAS1 4.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		GGAGCTCTTTCAAGTCTGCAG	0.398													42	177					0	0	0.033182	0	0		T	38154095	T	T	38154095	2	4	2	1	0	0	0	0	0	0	0	1	12278	825	29	4		4	POSTN	13	38154095	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	9291842	38154095	77015783	332	1761											
KCTD4	386618	broad.mit.edu	37	chr13	45768205	45768205	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatgcgagactttattttTgatatgaaatcaggagcatt	14	14	8	5	1	1	3	1	2	0	1	1	5	1	4	0	1	2	1	0	1	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:45768205T>G	uc001uzx.3	-	2	902	c.498A>C	c.(496-498)TCA>TCC	p.S166S	GTF2F2_uc001uzv.2_Intron|GTF2F2_uc001uzw.2_Intron	NM_198404	NP_940686	Q8WVF5	KCTD4_HUMAN	potassium channel tetramerisation domain	166						voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		Lung NSC(96;6.55e-05)|Breast(139;0.00378)|Prostate(109;0.00438)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000249)|BRCA - Breast invasive adenocarcinoma(63;0.207)		ACTTTATTTTTGATATGAAAT	0.368													6	300					0	0	0.02938	0	0		G	45768205	G	G	45768205	2	3	2	1	0	0	0	0	0	0	0	1	8127	1799	63	5		5	KCTD4	13	45768205	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08	7614110	45768205	69401673	333	1762											
COG3	83548	broad.mit.edu	37	chr13	46056546	46056546	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccctacattgtcggtgaatAgtgacggatttatacctatg	10	13	9	9	2	0	2	0	2	0	0	1	3	0	3	3	2	2	0	3	2	6	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:46056546A>G	uc001vak.2	+	6	756	c.655A>G	c.(655-657)AGT>GGT	p.S219G	COG3_uc010tfu.1_RNA|COG3_uc001vai.2_Missense_Mutation_p.S219G|COG3_uc001vaj.1_Missense_Mutation_p.S219G|COG3_uc010tfv.1_Missense_Mutation_p.S56G|COG3_uc010aci.2_Translation_Start_Site	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3	219					ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)		GTCGGTGAATAGTGACGGATT	0.299													53	150					0	0	0.01441	0	0		G	46056546	G	G	46056546	3	3	2	1	0	0	0	0	1	0	0	0	3662	420	15	3	677	3	COG3	13	46056546	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	288341	46056546	69113332	334	1763											
SPERT	220082	broad.mit.edu	37	chr13	46287419	46287419	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagccgcaggatggcgagcCagcactcctatccactgaac	10	6	11	14	2	0	2	0	2	0	0	2	4	2	3	4	2	4	2	4	2	2	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:46287419C>T	uc001van.1	+	3	339	c.259C>T	c.(259-261)CAG>TAG	p.Q87*	SPERT_uc001vao.2_Nonsense_Mutation_p.Q51*	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	87						cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		GATGGCGAGCCAGCACTCCTA	0.682													14	65					0	0	0.028581	0	0		T	46287419	T	T	46287419	4	4	2	1	0	0	0	0	0	1	0	0	15064	595	21	4	269	4	SPERT	13	46287419	Nonsense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	230873	46287419	68882459	335	1764											
INTS6	26512	broad.mit.edu	37	chr13	51939913	51939913	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctattaatatggttgatcTgattggctcttcgatgaatt	9	18	9	5	1	2	3	0	3	2	0	3	4	2	3	0	2	1	3	0	2	4	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:51939913T>C	uc001vfk.2	-	18	3253	c.2639A>G	c.(2638-2640)CAG>CGG	p.Q880R	INTS6_uc001vfi.2_Missense_Mutation_p.Q564R|INTS6_uc001vfj.2_Missense_Mutation_p.Q867R|INTS6_uc001vfl.2_Missense_Mutation_p.Q702R	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	880					snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)		ATGGTTGATCTGATTGGCTCT	0.299													17	55					0	0	0.008871	0	0		C	51939913	C	C	51939913	3	2	2	1	0	0	0	0	1	0	0	0	7798	1580	55	3	28	3	INTS6	13	51939913	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	5652494	51939913	63229965	336	1765											
PCDH17	27253	broad.mit.edu	37	chr13	58207479	58207479	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggtcatcgatctgaacGccaccgacgccgatgaaggt	10	7	12	12	5	2	2	1	2	1	0	3	5	2	2	3	2	1	0	3	2	2	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:58207479G>A	uc001vhq.1	+	1	1691	c.799G>A	c.(799-801)GCC>ACC	p.A267T	PCDH17_uc010aec.1_Missense_Mutation_p.A267T	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	267	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CGATCTGAACGCCACCGACGC	0.592													23	121					0	0	0.021523	0	0		A	58207479	A	A	58207479	3	1	2	1	0	0	0	0	1	0	0	0	11531	1087	38	1	801	1	PCDH17	13	58207479	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	6267566	58207479	56962399	337	1766											
PCDH20	64881	broad.mit.edu	37	chr13	61985441	61985441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtcaatttttcctttcagtgGaatctgtacttccaaatttt	9	19	5	8	0	3	0	2	0	1	0	5	1	5	1	2	1	1	1	2	1	4	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:61985441G>A	uc001vid.3	-	2	3155	c.2791C>T	c.(2791-2793)CCA>TCA	p.P931S	PCDH20_uc010thj.1_Missense_Mutation_p.P931S	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	904	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		CCTTTCAGTGGAATCTGTACT	0.383													37	136					0	0	0.023175	0	0		A	61985441	A	A	61985441	3	1	2	1	0	0	0	0	1	0	0	0	11534	1174	41	4	68	4	PCDH20	13	61985441	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	3777962	61985441	53184437	338	1767											
KLHL1	57626	broad.mit.edu	37	chr13	70370969	70370969	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatgtctttaagccatctcGacctccaattacaaagagtt	13	12	5	11	1	2	1	0	0	2	1	4	2	3	1	3	0	2	1	3	0	5	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:70370969G>A	uc001vip.2	-	7	2334	c.1540C>T	c.(1540-1542)CGA>TGA	p.R514*	KLHL1_uc010thm.1_Nonsense_Mutation_p.R453*	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	514	Kelch 2.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		AAGCCATCTCGACCTCCAATT	0.438													157	146					0	0	0.01441	0	0		A	70370969	A	A	70370969	4	1	2	1	0	0	0	0	0	1	0	0	8381	1066	37	1	726	1	KLHL1	13	70370969	Nonsense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	8385528	70370969	44798909	339	1768											
C13orf37	440145	broad.mit.edu	37	chr13	73293091	73293091	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actaataggaatctccaaccTtcagtgcttcagtagccttg	11	12	7	11	0	3	0	2	0	1	0	4	1	3	1	3	1	3	2	3	1	5	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:73293091T>G	uc001viu.2	-	2	422	c.224A>C	c.(223-225)AAG>ACG	p.K75T		NM_001071775	NP_001065243	Q08AG7	MZT1_HUMAN	hypothetical protein LOC440145	75					gamma-tubulin complex localization	centrosome|gamma-tubulin ring complex|spindle	protein binding				0						ATCTCCAACCTTCAGTGCTTC	0.353													85	317					0	0	0.01441	0	0		G	73293091	G	G	73293091	3	3	2	1	0	0	0	0	1	0	0	0	1734	1623	56	5	32	5	C13orf37	13	73293091	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2922122	73293091	41876787	340	1769											
MYCBP2	23077	broad.mit.edu	37	chr13	77745688	77745688	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaacgacagtgcttacaacAgacaatgctctgctacagtt	13	9	8	11	2	1	1	0	0	1	1	1	3	1	1	0	0	7	4	0	0	5	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:77745688A>T	uc001vkf.2	-	39	5710	c.5619T>A	c.(5617-5619)TCT>TCA	p.S1873S	MYCBP2_uc010aev.2_Silent_p.S1277S	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1873					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TGCTTACAACAGACAATGCTC	0.398													25	84					0	0	0.027356	0	0		T	77745688	T	T	77745688	2	4	2	1	0	0	0	0	0	0	0	1	10036	175	7	5		5	MYCBP2	13	77745688	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	4452597	77745688	37424190	341	1770											
DZIP1	22873	broad.mit.edu	37	chr13	96285518	96285518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attttcttcagtgtggcggcGttgaatgtgactttgtagaa	8	16	12	5	2	2	3	1	2	1	1	2	3	2	3	0	2	0	2	0	2	3	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:96285518G>A	uc001vmk.2	-	6	1507	c.655C>T	c.(655-657)CGC>TGC	p.R219C	DZIP1_uc001vml.2_Missense_Mutation_p.R219C|DZIP1_uc001vmn.2_Missense_Mutation_p.R208C	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	219	C2H2-type.				germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			GTGTGGCGGCGTTGAATGTGA	0.408													17	56					0	0	0.0333	0	0		A	96285518	A	A	96285518	3	1	2	1	0	0	0	0	1	0	0	0	4869	1145	40	1	2020	1	DZIP1	13	96285518	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	18539830	96285518	18884360	342	1771											
GPR183	1880	broad.mit.edu	37	chr13	99948218	99948218	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtggtagagttgatttttTtcctgttttgaacaatgacg	8	17	12	4	1	0	4	0	3	0	1	1	4	1	4	1	2	1	3	1	2	3	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:99948218T>A	uc001vog.2	-	2	356	c.182A>T	c.(181-183)AAA>ATA	p.K61I	UBAC2_uc001voa.3_Intron|UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron	NM_004951	NP_004942	P32249	GP183_HUMAN	EBV-induced G protein-coupled receptor 2	61	Cytoplasmic (Potential).				humoral immune response|mature B cell differentiation involved in immune response	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0						GTTGATTTTTTTCCTGTTTTG	0.438													57	166					0	0	0.01441	0	0		A	99948218	A	A	99948218	3	1	2	1	0	0	0	0	1	0	0	0	6693	1841	64	5	907	5	GPR183	13	99948218	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	3662700	99948218	15221660	343	1772											
FGF14	2259	broad.mit.edu	37	chr13	102379009	102379009	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctggtttggttttctttActctgttccctttcatagct	3	21	7	10	0	3	0	1	0	2	0	4	0	4	0	1	2	3	5	1	2	2	8			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:102379009A>C	uc001vpe.2	-	4	560	c.560T>G	c.(559-561)GTA>GGA	p.V187G	FGF14_uc001vpf.2_Missense_Mutation_p.V192G	NM_004115	NP_004106	Q92915	FGF14_HUMAN	fibroblast growth factor 14 isoform 1A	187					cell death|cell-cell signaling|JNK cascade|nervous system development|signal transduction	nucleus	growth factor activity|heparin binding			ovary(2)|lung(1)|large_intestine(1)	4	all_neural(89;0.0239)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GGTTTTCTTTACTCTGTTCCC	0.358													35	116					0	0	0.012213	0	0		C	102379009	C	C	102379009	3	2	2	1	0	0	0	0	1	0	0	0	5857	391	14	5	191	5	FGF14	13	102379009	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	2430791	102379009	12790869	344	1773											
ARHGEF7	8874	broad.mit.edu	37	chr13	111933004	111933004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaaccccaccataaagcctCattcagtgccatctcatacc	13	8	4	16	0	3	0	3	0	1	0	4	1	3	0	6	0	4	0	6	0	4	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:111933004C>T	uc001vrs.2	+	16	2018	c.1768C>T	c.(1768-1770)CAT>TAT	p.H590Y	ARHGEF7_uc001vrr.2_Missense_Mutation_p.H569Y|ARHGEF7_uc001vrt.2_Missense_Mutation_p.H540Y|ARHGEF7_uc010tjn.1_RNA|ARHGEF7_uc001vru.1_Missense_Mutation_p.H412Y|ARHGEF7_uc001vrv.3_Missense_Mutation_p.H412Y|ARHGEF7_uc001vrw.3_Missense_Mutation_p.H412Y|ARHGEF7_uc001vrx.3_Missense_Mutation_p.H412Y|ARHGEF7_uc010tjo.1_Missense_Mutation_p.H487Y|ARHGEF7_uc010tjp.1_Missense_Mutation_p.H334Y|ARHGEF7_uc001vry.1_5'Flank	NM_001113511	NP_001106983	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform c	590					apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			CATAAAGCCTCATTCAGTGCC	0.537													63	146					0	0	0.01441	0	0		T	111933004	T	T	111933004	3	4	2	1	0	0	0	0	1	0	0	0	911	826	29	4	1830	4	ARHGEF7	13	111933004	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	9553995	111933004	3236874	345	1774											
RASA3	22821	broad.mit.edu	37	chr13	114786883	114786883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaacatcatcttaccacGcctcgtaggagctggactgc	9	9	10	13	2	2	0	1	0	1	0	3	2	2	2	2	2	5	3	2	2	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr13:114786883G>A	uc001vui.2	-	9	913	c.782C>T	c.(781-783)GCG>GTG	p.A261V	RASA3_uc010tkk.1_Missense_Mutation_p.A229V|RASA3_uc001vuj.2_5'UTR|RASA3_uc010tkl.1_RNA|RASA3_uc010aha.1_RNA	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	261					intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			ATCTTACCACGCCTCGTAGGA	0.532													22	68					0	0	0.014323	0	0		A	114786883	A	A	114786883	3	1	2	1	0	0	0	0	1	0	0	0	13087	1087	38	1	1786	1	RASA3	13	114786883	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2853879	114786883	382995	346	1775											
ACIN1	22985	broad.mit.edu	37	chr14	23559303	23559303	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcgtcctccgactcagcTgaagcttctgcaaagtacag	10	10	8	13	2	3	1	1	1	2	0	6	2	5	1	2	0	4	4	2	0	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:23559303T>G	uc001wit.3	-	4	826	c.498A>C	c.(496-498)TCA>TCC	p.S166S	ACIN1_uc010akg.2_Silent_p.S166S|ACIN1_uc010tnj.1_Intron	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	166	Glu-rich.				apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		CCGACTCAGCTGAAGCTTCTG	0.562													17	43					0	0	0.007413	0	0		G	23559303	G	G	23559303	2	3	2	1	0	0	0	0	0	0	0	1	142	1567	55	5		5	ACIN1	14	23559303	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08		23559303	83790237	347	1776											
NUBPL	80224	broad.mit.edu	37	chr14	32315787	32315787	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagcacagacccttggtctTgaagttctaggtaagactgt	10	12	10	9	0	2	3	0	1	2	2	2	3	2	3	1	2	1	3	1	2	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:32315787T>G	uc001wrk.3	+	9	859	c.804T>G	c.(802-804)CTT>CTG	p.L268L	NUBPL_uc010amj.2_RNA|NUBPL_uc010tpl.1_Silent_p.L172L	NM_025152	NP_079428	Q8TB37	NUBPL_HUMAN	nucleotide binding protein-like	268					mitochondrial respiratory chain complex I assembly|mitochondrion morphogenesis	mitochondrion	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding				0	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.214)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0677)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0102)		CCCTTGGTCTTGAAGTTCTAG	0.398													25	35					0	0	0.024334	0	0		G	32315787	G	G	32315787	2	3	2	1	0	0	0	0	0	0	0	1	10736	1799	63	5		5	NUBPL	14	32315787	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08	8756484	32315787	75033753	348	1777											
KLHL28	54813	broad.mit.edu	37	chr14	45414826	45414826	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagagattcaactgtgtcCtgagaaataaaaacagtccc	16	8	9	8	0	1	2	1	1	0	2	3	5	3	3	2	1	2	0	2	1	5	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:45414826C>T	uc001wvq.2	-	2	552	c.306G>A	c.(304-306)CAG>CAA	p.Q102Q	KLHL28_uc001wvr.2_Silent_p.Q102Q|KLHL28_uc001wvt.3_Silent_p.Q102Q	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	102	BTB.									ovary(1)	1						CAACTGTGTCCTGAGAAATAA	0.423													51	83					0	0	0.01441	0	0		T	45414826	T	T	45414826	2	4	2	1	0	0	0	0	0	0	0	1	8398	680	24	4		4	KLHL28	14	45414826	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	13099039	45414826	61934714	349	1778											
DDHD1	80821	broad.mit.edu	37	chr14	53525293	53525293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttcctgggcggatgccacGcaacgccaagaaaactgcta	12	7	10	12	3	0	1	0	0	0	1	1	2	1	2	3	2	4	2	3	2	5	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:53525293G>A	uc001xai.2	-	9	2124	c.1894C>T	c.(1894-1896)CGT>TGT	p.R632C	DDHD1_uc001xaj.2_Missense_Mutation_p.R639C|DDHD1_uc001xah.2_Missense_Mutation_p.R632C|DDHD1_uc001xag.2_Missense_Mutation_p.R214C|DDHD1_uc001xak.1_Missense_Mutation_p.R28C	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	632	DDHD.				lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					CGGATGCCACGCAACGCCAAG	0.383													38	97					0	0	0.025465	0	0		A	53525293	A	A	53525293	3	1	2	1	0	0	0	0	1	0	0	0	4329	1087	38	1	828	1	DDHD1	14	53525293	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	8110467	53525293	53824247	350	1779											
C14orf37	145407	broad.mit.edu	37	chr14	58598379	58598379	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattattccaggaggtgtcActggagatcccagaactggt	10	10	11	10	0	1	2	1	0	0	2	3	4	3	3	3	4	1	0	3	4	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:58598379A>C	uc001xdc.2	-	4	1793	c.1682T>G	c.(1681-1683)GTG>GGG	p.V561G	C14orf37_uc010tro.1_Missense_Mutation_p.V599G|C14orf37_uc001xdd.2_Missense_Mutation_p.V561G|C14orf37_uc001xde.2_Missense_Mutation_p.V561G	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	561	Extracellular (Potential).					integral to membrane	binding				0						AGGAGGTGTCACTGGAGATCC	0.488													39	87					0	0	0.030466	0	0		C	58598379	C	C	58598379	3	2	2	1	0	0	0	0	1	0	0	0	1774	159	6	5	662	5	C14orf37	14	58598379	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	5073086	58598379	48751161	351	1780											
DHRS7	51635	broad.mit.edu	37	chr14	60622819	60622819	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtaagccagctcctcaccaAttccactcgaggctccagtc	9	8	8	16	1	1	0	1	0	0	0	6	1	4	0	5	2	2	3	5	2	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:60622819A>C	uc001xes.2	-	2	369	c.185T>G	c.(184-186)ATT>AGT	p.I62S	C14orf135_uc001xeq.2_Intron|DHRS7_uc001xet.2_Missense_Mutation_p.I12S|DHRS7_uc001xeu.2_Missense_Mutation_p.I62S	NM_016029	NP_057113	Q9Y394	DHRS7_HUMAN	dehydrogenase/reductase (SDR family) member 7	62	NAD (By similarity).						binding|oxidoreductase activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.121)		CTCCTCACCAATTCCACTCGA	0.463													34	93					0	0	0.013726	0	0		C	60622819	C	C	60622819	3	2	2	1	0	0	0	0	1	0	0	0	4501	101	4	5	858	5	DHRS7	14	60622819	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	2024440	60622819	46726721	352	1781											
SIX6	4990	broad.mit.edu	37	chr14	60976600	60976600	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaaaaaacgtgagctcGcccaggcaaccggactgacc	13	3	10	15	3	0	2	0	2	0	0	1	3	0	3	4	2	4	3	4	2	4	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:60976600G>T	uc001xfa.3	+	1	663	c.484G>T	c.(484-486)GCC>TCC	p.A162S		NM_007374	NP_031400	O95475	SIX6_HUMAN	SIX homeobox 6	162	Homeobox.				organ morphogenesis|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.088)		ACGTGAGCTCGCCCAGGCAAC	0.597													10	14					0.00829132	0.00838079	0.008291	1	0		T	60976600	T	T	60976600	3	4	2	1	0	0	0	0	1	0	0	0	14376	1087	38	5	486	5	SIX6	14	60976600	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	353781	60976600	46372940	353	1782											
HIF1A	3091	broad.mit.edu	37	chr14	62204985	62204985	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatcaagaagttgcattaaAattagaaccaaatccagagt	19	9	6	7	0	1	3	1	0	0	3	2	3	2	3	2	0	2	2	2	0	8	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:62204985A>C	uc001xfq.2	+	10	1834	c.1430A>C	c.(1429-1431)AAA>ACA	p.K477T	HIF1A_uc001xfr.2_Missense_Mutation_p.K477T|HIF1A_uc001xfs.2_Missense_Mutation_p.K478T	NM_001530	NP_001521	Q16665	HIF1A_HUMAN	hypoxia-inducible factor 1, alpha subunit	477	ODD.			K->R: Abolishes 1 sumoylation. Abolishes 2 sumoylations; when associated with R- 391. No change in HIF1A protein turnover rate but increased transcriptional activity; when associated with R-377; R- 391 and R-532.	cellular response to hypoxia|collagen metabolic process|connective tissue replacement involved in inflammatory response wound healing|elastin metabolic process|epithelial to mesenchymal transition|oxygen homeostasis|positive regulation of chemokine production|positive regulation of epithelial cell migration|positive regulation of hormone biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|regulation of transforming growth factor-beta2 production	cytoplasm|nucleolus|transcription factor complex	histone acetyltransferase binding|Hsp90 protein binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			kidney(3)|lung(1)	4				OV - Ovarian serous cystadenocarcinoma(108;1.62e-09)|BRCA - Breast invasive adenocarcinoma(234;0.189)		GTTGCATTAAAATTAGAACCA	0.438													5	358					0	0	0.014758	0	0		C	62204985	C	C	62204985	3	2	2	1	0	0	0	0	1	0	0	0	7119	14	1	5	1468	5	HIF1A	14	62204985	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	1228385	62204985	45144555	354	1783											
SYNE2	23224	broad.mit.edu	37	chr14	64375920	64375920	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaacagggttcctggggcatCgacgatctccatatttcatt	9	12	10	10	2	2	0	1	0	1	0	5	3	3	0	2	3	1	2	2	3	2	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:64375920C>T	uc001xgm.2	+	2	284	c.54C>T	c.(52-54)ATC>ATT	p.I18I	SYNE2_uc001xgk.2_Silent_p.I18I|SYNE2_uc001xgl.2_Silent_p.I18I	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	18	Cytoplasmic (Potential).|Actin-binding.				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CCTGGGGCATCGACGATCTCC	0.443													44	120					0	0	0.013114	0	0		T	64375920	T	T	64375920	2	4	2	1	0	0	0	0	0	0	0	1	15471	874	31	1		1	SYNE2	14	64375920	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	2170935	64375920	42973620	355	1784											
PLEKHG3	26030	broad.mit.edu	37	chr14	65208090	65208090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctctcggcggagcagcGtggcacaggaggacagcaag	9	5	16	11	3	1	0	0	0	1	0	3	3	1	3	0	5	3	4	0	5	1	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:65208090G>A	uc001xho.1	+	16	2124	c.1855G>A	c.(1855-1857)GTG>ATG	p.V619M	PLEKHG3_uc001xhn.1_Missense_Mutation_p.V563M|PLEKHG3_uc001xhp.2_Missense_Mutation_p.V740M|PLEKHG3_uc010aqh.1_Missense_Mutation_p.V161M|PLEKHG3_uc001xhq.1_Missense_Mutation_p.V124M	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	619					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GCGGAGCAGCGTGGCACAGGA	0.672													10	25					0	0	0.016723	0	0		A	65208090	A	A	65208090	3	1	2	1	0	0	0	0	1	0	0	0	12089	1145	40	1	1737	1	PLEKHG3	14	65208090	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	832170	65208090	42141450	356	1785											
VTI1B	10490	broad.mit.edu	37	chr14	68123178	68123178	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcgttgttcccccagctcTtctatgatttctgagccaat	6	16	6	13	1	4	2	0	2	4	0	6	2	5	2	3	0	2	3	3	0	2	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:68123178T>C	uc001xjt.2	-	4	891	c.495A>G	c.(493-495)GAA>GAG	p.E165E	VTI1B_uc010aqp.2_Silent_p.E104E|VTI1B_uc001xju.2_Silent_p.E124E	NM_006370	NP_006361	Q9UEU0	VTI1B_HUMAN	vesicle transport through interaction with	165	Potential.|Cytoplasmic (Potential).				cell proliferation|cellular membrane fusion|intracellular protein transport|vesicle docking involved in exocytosis	endomembrane system|integral to membrane					0				all cancers(60;0.000344)|OV - Ovarian serous cystadenocarcinoma(108;0.00212)|BRCA - Breast invasive adenocarcinoma(234;0.00941)		CCCCCAGCTCTTCTATGATTT	0.517													87	160					0	0	0.01441	0	0		C	68123178	C	C	68123178	2	2	2	1	0	0	0	0	0	0	0	1	17262	1606	56	3		3	VTI1B	14	68123178	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2915088	68123178	39226362	357	1786											
MAP3K9	4293	broad.mit.edu	37	chr14	71215717	71215717	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtggggatcaggattccaGcagtctgaatagaacatgtg	12	9	14	6	0	2	2	1	1	1	1	3	5	3	4	1	3	2	1	1	3	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:71215717G>A	uc001xmm.2	-	5	1155	c.1155C>T	c.(1153-1155)TGC>TGT	p.C385C	MAP3K9_uc010ttk.1_Silent_p.C122C|MAP3K9_uc001xmk.2_Silent_p.C79C|MAP3K9_uc001xml.2_Silent_p.C385C	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	385	Protein kinase.				activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		CAGGATTCCAGCAGTCTGAAT	0.448													36	115					0	0	0.017118	0	0		A	71215717	A	A	71215717	2	1	2	1	0	0	0	0	0	0	0	1	9275	963	34	2		2	MAP3K9	14	71215717	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	3092539	71215717	36133823	358	1787											
TMEM63C	57156	broad.mit.edu	37	chr14	77705999	77705999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agccaaggccaagaagactgGgaaggtgatgatcaggatcc	14	5	14	8	0	1	4	1	2	0	2	2	6	2	6	3	4	1	0	3	4	4	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:77705999G>A	uc001xtf.2	+	12	1072	c.860G>A	c.(859-861)GGG>GAG	p.G287E	TMEM63C_uc010asq.1_Missense_Mutation_p.G287E	NM_020431	NP_065164	Q9P1W3	TM63C_HUMAN	transmembrane protein 63C	287						integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0342)		AAGAAGACTGGGAAGGTGATG	0.612													5	13					0	0	0.014758	0	0		A	77705999	A	A	77705999	3	1	2	1	0	0	0	0	1	0	0	0	16217	1232	43	4	898	4	TMEM63C	14	77705999	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	6490282	77705999	29643541	359	1788											
SEL1L	6400	broad.mit.edu	37	chr14	81972546	81972546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaagaaaagggaagtggCagggctccccatgtgctgtg	12	6	16	7	0	0	1	0	0	0	1	1	3	1	3	2	4	1	3	2	4	5	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:81972546C>T	uc010tvv.1	-	4	497	c.380G>A	c.(379-381)TGC>TAC	p.C127Y	SEL1L_uc001xvo.3_Missense_Mutation_p.C127Y	NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	127	Lumenal (Potential).|Interaction with ERLEC1, OS9 and SYVN1.|Fibronectin type-II.				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		AGGGAAGTGGCAGGGCTCCCC	0.433													6	97					0	0	0.021553	0	0		T	81972546	T	T	81972546	3	4	2	1	0	0	0	0	1	0	0	0	14035	710	25	2	2076	2	SEL1L	14	81972546	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4266547	81972546	25376994	360	1789											
ATG2B	55102	broad.mit.edu	37	chr14	96798979	96798979	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccatatcagccatggagaaGaatacttcttcttctagaga	13	12	7	9	0	4	3	1	0	3	3	5	5	5	3	2	1	2	0	2	1	5	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:96798979G>A	uc001yfi.2	-	9	1586	c.1221C>T	c.(1219-1221)TTC>TTT	p.F407F		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	407										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		CCATGGAGAAGAATACTTCTT	0.373													47	90					0	0	0.01441	0	0		A	96798979	A	A	96798979	2	1	2	1	0	0	0	0	0	0	0	1	1095	933	33	4		4	ATG2B	14	96798979	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	14826433	96798979	10550561	361	1790											
BCL11B	64919	broad.mit.edu	37	chr14	99723822	99723822	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatacctgcaatgttctccTgcttgggacagatgcctttc	7	13	8	13	0	1	1	0	0	1	1	3	2	1	2	4	1	4	3	4	1	2	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr14:99723822T>G	uc001yga.2	-	2	680	c.413A>C	c.(412-414)CAG>CCG	p.Q138P	BCL11B_uc001ygb.2_Missense_Mutation_p.Q138P	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	138						nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		AATGTTCTCCTGCTTGGGACA	0.602			T	TLX3	T-ALL								5	299					0	0	0.021553	0	0		G	99723822	G	G	99723822	3	3	2	1	0	0	0	0	1	0	0	0	1365	1580	55	5	2283	5	BCL11B	14	99723822	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2924843	99723822	7625718	362	1791											
NIPA1	123606	broad.mit.edu	37	chr15	23052723	23052723	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttgcccaagatgttgagcTtttccttcaggagataggaa	11	12	10	8	0	1	3	1	1	0	2	2	5	2	4	2	2	2	2	2	2	3	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:23052723T>A	uc001yvc.2	-	4	375	c.350A>T	c.(349-351)AAG>ATG	p.K117M	NIPA1_uc001yvd.2_Translation_Start_Site|NIPA1_uc001yve.2_Missense_Mutation_p.K42M	NM_144599	NP_653200	Q7RTP0	NIPA1_HUMAN	non-imprinted in Prader-Willi/Angelman syndrome	117	Cytoplasmic (Potential).				cell death	early endosome|integral to membrane|plasma membrane					0		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;4.18e-06)|Epithelial(43;3.97e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00165)		GATGTTGAGCTTTTCCTTCAG	0.438													12	207					0	0	0.010729	0	0		A	23052723	A	A	23052723	3	1	2	1	0	0	0	0	1	0	0	0	10441	1609	56	5	647	5	NIPA1	15	23052723	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08		23052723	79478669	363	1792											
FMN1	342184	broad.mit.edu	37	chr15	33359769	33359769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgcttcttttctctgacttCcctctgattctgtctccacg	3	18	5	15	1	5	2	0	2	5	0	8	2	6	2	2	0	1	1	2	0	0	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:33359769C>T	uc001zhf.3	-	1	317	c.317G>A	c.(316-318)GGA>GAA	p.G106E	FMN1_uc001zhg.2_Missense_Mutation_p.G106E	NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	Error:Variant_position_missing_in_Q68DA7_after_alignment					actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		TCTCTGACTTCCCTCTGATTC	0.488													44	89					0	0	0.036044	0	0		T	33359769	T	T	33359769	3	4	2	1	0	0	0	0	1	0	0	0	5963	855	30	4	3341	4	FMN1	15	33359769	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	10307046	33359769	69171623	364	1793											
RYR3	6263	broad.mit.edu	37	chr15	34080453	34080453	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcagcaaagccaggccCgacctgctgagaagccactt	12	6	9	14	1	2	1	2	1	0	1	2	3	2	1	4	1	4	2	4	1	2	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:34080453C>T	uc001zhi.2	+	67	9694	c.9624C>T	c.(9622-9624)CCC>CCT	p.P3208P	RYR3_uc010bar.2_Silent_p.P3208P	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3208					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AAGCCAGGCCCGACCTGCTGA	0.498													42	84					0	0	0.01441	0	0		T	34080453	T	T	34080453	2	4	2	1	0	0	0	0	0	0	0	1	13795	639	23	1		1	RYR3	15	34080453	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	720684	34080453	68450939	365	1794											
MGA	23269	broad.mit.edu	37	chr15	42035185	42035185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcttcagttgcttttcCtaagtctttggtagcatctc	5	18	9	9	0	3	0	1	0	2	0	5	0	4	0	1	2	2	5	1	2	2	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:42035185C>T	uc010ucy.1	+	15	5208	c.5027C>T	c.(5026-5028)CCT>CTT	p.P1676L	MGA_uc010ucz.1_Intron|MGA_uc010uda.1_Missense_Mutation_p.P292L	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1676	Thr-rich.					MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		GTTGCTTTTCCTAAGTCTTTG	0.483													31	59					0	0	0.009535	0	0		T	42035185	T	T	42035185	3	4	2	1	0	0	0	0	1	0	0	0	9558	681	24	4	5081	4	MGA	15	42035185	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	7954732	42035185	60496207	366	1795											
SECISBP2L	9728	broad.mit.edu	37	chr15	49303937	49303937	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctccttaccttcctgggAaacaatctcctgtggcaagt	9	11	9	12	0	1	0	0	0	1	0	4	2	3	1	4	2	3	2	4	2	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:49303937A>T	uc001zxe.1	-	13	1989	c.1855T>A	c.(1855-1857)TCC>ACC	p.S619T	SECISBP2L_uc001zxd.1_Missense_Mutation_p.S574T|SECISBP2L_uc010bep.1_Missense_Mutation_p.S381T	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	619										breast(1)|skin(1)	2						CCTTCCTGGGAAACAATCTCC	0.423													34	90					0	0	0.012213	0	0		T	49303937	T	T	49303937	3	4	2	1	0	0	0	0	1	0	0	0	14032	246	9	5	1474	5	SECISBP2L	15	49303937	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	7268752	49303937	53227455	367	1796											
PIGB	9488	broad.mit.edu	37	chr15	55643036	55643036	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagtcatattcaaaaagtTtgttacaacaatcccaataa	18	12	4	7	0	2	1	2	1	0	0	3	1	3	1	1	0	2	2	1	0	8	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:55643036T>A	uc002act.2	+	10	1579	c.1263T>A	c.(1261-1263)GTT>GTA	p.V421V	PIGB_uc010ugg.1_Silent_p.V226V	NM_004855	NP_004846	Q92521	PIGB_HUMAN	phosphatidylinositol glycan, class B	421					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	integral to membrane|intrinsic to endoplasmic reticulum membrane	glycolipid mannosyltransferase activity				0				all cancers(107;0.0255)		TTCAAAAAGTTTGTTACAACA	0.338													6	159					0	0	0.021553	0	0		A	55643036	A	A	55643036	2	1	2	1	0	0	0	0	0	0	0	1	11904	1828	64	5		5	PIGB	15	55643036	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08	6339099	55643036	46888356	368	1797											
MNS1	55329	broad.mit.edu	37	chr15	56736697	56736697	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaatcatgagtttctcttTtagcagctgctcataagctt	10	16	6	9	0	4	1	3	1	1	0	5	1	4	1	0	0	4	5	0	0	3	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:56736697T>G	uc002adr.2	-	5	796	c.631A>C	c.(631-633)AAA>CAA	p.K211Q	MNS1_uc010bfo.2_Missense_Mutation_p.K79Q|TEX9_uc002adp.2_Intron|TEX9_uc010ugl.1_Intron	NM_018365	NP_060835	Q8NEH6	MNS1_HUMAN	meiosis-specific nuclear structural 1	211	Potential.|Glu-rich.				meiosis					ovary(1)	1				all cancers(107;0.0196)|GBM - Glioblastoma multiforme(80;0.101)		AGTTTCTCTTTTAGCAGCTGC	0.328													45	124					0	0	0.01441	0	0		G	56736697	G	G	56736697	3	3	2	1	0	0	0	0	1	0	0	0	9695	1850	64	5	880	5	MNS1	15	56736697	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	1093661	56736697	45794695	369	1798											
LCTL	197021	broad.mit.edu	37	chr15	66845441	66845441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgatcgttctggtagctggGcccctggcgggaggggtagt	5	9	18	9	3	1	0	0	0	1	0	2	2	1	1	2	6	1	4	2	6	2	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:66845441G>A	uc002aqc.2	-	9	1210	c.1078C>T	c.(1078-1080)CCC>TCC	p.P360S	LCTL_uc002aqd.3_Missense_Mutation_p.P187S|LCTL_uc010bhw.2_Missense_Mutation_p.P58S	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	360	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						TGGTAGCTGGGCCCCTGGCGG	0.502													62	140					0	0	0.01441	0	0		A	66845441	A	A	66845441	3	1	2	1	0	0	0	0	1	0	0	0	8710	1203	42	2	645	2	LCTL	15	66845441	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	10108744	66845441	35685951	370	1799											
MYO9A	4649	broad.mit.edu	37	chr15	72196349	72196349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggtgtatcgaagctgtctaAgtaccaagacatcactgaac	13	9	9	10	2	2	2	1	1	1	1	3	3	2	2	1	1	3	3	1	1	6	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:72196349A>G	uc002atl.3	-	21	3271	c.2798T>C	c.(2797-2799)CTT>CCT	p.L933P	MYO9A_uc010biq.2_Missense_Mutation_p.L553P|MYO9A_uc002atn.1_Missense_Mutation_p.L914P	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	933	Myosin head-like 2.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						AAGCTGTCTAAGTACCAAGAC	0.378													15	31					0	0	0.024245	0	0		G	72196349	G	G	72196349	3	3	2	1	0	0	0	0	1	0	0	0	10102	72	3	3	4936	3	MYO9A	15	72196349	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	5350908	72196349	30335043	371	1800											
KIAA1199	57214	broad.mit.edu	37	chr15	81241151	81241151	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttcagagcaaatggcattCgttggcttcaaaggcagctt	10	13	10	8	1	2	1	2	0	0	1	3	1	2	1	0	3	2	6	0	3	2	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:81241151C>T	uc002bfw.1	+	29	4232	c.3972C>T	c.(3970-3972)TTC>TTT	p.F1324F	KIAA1199_uc010unn.1_Silent_p.F1324F|MESDC2_uc002bfx.2_RNA|MESDC2_uc010uno.1_RNA	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	1324										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						AAATGGCATTCGTTGGCTTCA	0.552													65	105					0	0	0.01441	0	0		T	81241151	T	T	81241151	2	4	2	1	0	0	0	0	0	0	0	1	8229	883	31	1		1	KIAA1199	15	81241151	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	9044802	81241151	21290241	372	1801											
ZSCAN2	54993	broad.mit.edu	37	chr15	85164607	85164607	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaccctacaaatgtaccgActgtgggcagaggttcagcc	12	7	11	11	1	1	1	1	0	0	1	1	3	1	1	3	2	4	3	3	2	4	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:85164607A>C	uc002bkr.2	+	3	1407	c.1181A>C	c.(1180-1182)GAC>GCC	p.D394A	ZSCAN2_uc010bmz.1_Missense_Mutation_p.D392A|ZSCAN2_uc010bna.2_Missense_Mutation_p.D244A|ZSCAN2_uc010uox.1_Intron|ZSCAN2_uc010uoy.1_Intron|ZSCAN2_uc010uoz.1_Intron	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	394	C2H2-type 7.				cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		AAATGTACCGACTGTGGGCAG	0.507													42	81					0	0	0.01441	0	0		C	85164607	C	C	85164607	3	2	2	1	0	0	0	0	1	0	0	0	18256	275	10	5	1277	5	ZSCAN2	15	85164607	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	3923456	85164607	17366785	373	1802											
C15orf58	390637	broad.mit.edu	37	chr15	90784820	90784820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggctattacctggcccacaGactgcccgtggagcaggcgc	7	7	13	14	2	0	1	0	0	0	1	0	2	0	2	3	4	3	2	3	4	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:90784820G>A	uc002bpc.2	+	4	859	c.680G>A	c.(679-681)AGA>AAA	p.R227K		NM_001013657	NP_001013679	Q6ZNW5	VTC2_HUMAN	hypothetical protein LOC390637	227					glucose metabolic process	cytoplasm	GDP-D-glucose phosphorylase activity				0						CTGGCCCACAGACTGCCCGTG	0.627													16	47					0	0	0.007413	0	0		A	90784820	A	A	90784820	3	1	2	1	0	0	0	0	1	0	0	0	1809	942	33	4	682	4	C15orf58	15	90784820	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	5620213	90784820	11746572	374	1803											
IQGAP1	8826	broad.mit.edu	37	chr15	90997755	90997755	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagcttgcgtggaccatgTgaacctggtggtgcaagagg	9	8	15	9	1	0	2	0	1	0	1	0	3	0	3	3	4	4	2	3	4	3	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:90997755T>G	uc002bpl.1	+	14	1684	c.1583T>G	c.(1582-1584)GTG>GGG	p.V528G		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	528					energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			GTGGACCATGTGAACCTGGTG	0.433													67	116					0	0	0.01441	0	0		G	90997755	G	G	90997755	3	3	2	1	0	0	0	0	1	0	0	0	7830	1696	59	5	1637	5	IQGAP1	15	90997755	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	212935	90997755	11533637	375	1804											
ASB7	140460	broad.mit.edu	37	chr15	101170069	101170069	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttgggtcgcttagaagaCggacagactcctttacactt	11	11	9	10	2	0	3	0	0	0	3	2	4	1	4	1	2	2	1	1	2	4	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr15:101170069C>T	uc002bwk.2	+	5	1408	c.639C>T	c.(637-639)GAC>GAT	p.D213D	ASB7_uc002bwj.2_Silent_p.D213D	NM_198243	NP_937886	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box-containing protein 7	213	ANK 7.				intracellular signal transduction					skin(1)	1	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			GCTTAGAAGACGGACAGACTC	0.468													40	65					0	0	0.010771	0	0		T	101170069	T	T	101170069	2	4	2	1	0	0	0	0	0	0	0	1	1029	535	19	1		1	ASB7	15	101170069	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	10172314	101170069	1361323	376	1805											
EME2	197342	broad.mit.edu	37	chr16	1825336	1825336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctcgccagcacgtttcccGggggacacagcagccagaga	9	5	13	14	3	1	1	0	0	1	1	3	3	2	2	3	2	3	3	3	2	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:1825336G>A	uc002cmq.1	+	5	722	c.722G>A	c.(721-723)CGG>CAG	p.R241Q	MRPS34_uc002cmn.2_5'Flank|MRPS34_uc002cmo.2_5'Flank|MRPS34_uc002cmp.1_5'Flank|EME2_uc010brw.1_Missense_Mutation_p.R197Q	NM_001010865	NP_001010865	A4GXA9	EME2_HUMAN	essential meiotic endonuclease 1 homolog 2	197					DNA recombination|DNA repair	nucleus	DNA binding|endonuclease activity			lung(1)|central_nervous_system(1)|pancreas(1)	3						CACGTTTCCCGGGGGACACAG	0.692								Direct_reversal_of_damage|Homologous_recombination					12	22					0	0	0.013537	0	0		A	1825336	A	A	1825336	3	1	2	1	0	0	0	0	1	0	0	0	5097	1116	39	1	740	1	EME2	16	1825336	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08		1825336	88529417	377	1806											
SEPX1	51734	broad.mit.edu	37	chr16	1990794	1990794	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacctttagggacaaactTcagcgagctgctgaatattc	11	11	8	11	1	2	1	2	1	0	0	3	3	2	2	1	1	4	2	1	1	4	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:1990794T>G	uc010uvs.1	-	4	441	c.304A>C	c.(304-306)AAG>CAG	p.K102Q		NM_016332	NP_057416	Q9NZV6	MSRB1_HUMAN	selenoprotein X, 1	102					protein repair	cytoplasm|nucleus	peptide-methionine-(S)-S-oxide reductase activity|zinc ion binding			ovary(1)	1					L-Methionine(DB00134)	GGGACAAACTTCAGCGAGCTG	0.592													17	40					0	0	0.007413	0	0		G	1990794	G	G	1990794	3	3	2	1	0	0	0	0	1	0	0	0	14098	1792	62	5	54	5	SEPX1	16	1990794	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	165458	1990794	88363959	378	1807											
SMG1	23049	broad.mit.edu	37	chr16	18844380	18844380	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacgccatcggtggtctgctCaataagaccgtccagttcat	10	10	9	12	3	3	1	2	0	1	1	5	1	4	1	3	2	2	2	3	2	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:18844380C>G	uc002dfm.2	-	51	9037	c.8674G>C	c.(8674-8676)GAG>CAG	p.E2892Q	SMG1_uc010bwb.2_Missense_Mutation_p.E2752Q|SMG1_uc010bwa.2_Missense_Mutation_p.E1623Q	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2892					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						GTGGTCTGCTCAATAAGACCG	0.453													100	185					0	0	0.01441	0	0		G	18844380	G	G	18844380	3	3	2	1	0	0	0	0	1	0	0	0	14820	835	29	5	2363	5	SMG1	16	18844380	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	16853586	18844380	71510373	379	1808											
ACSM2A	123876	broad.mit.edu	37	chr16	20480970	20480970	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagtggcatctgaatgtccTtctctgagaattaagctact	11	13	8	9	0	2	2	0	2	2	1	4	3	3	2	1	1	2	2	1	1	4	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:20480970T>G	uc010bwe.2	+	5	764	c.525T>G	c.(523-525)CCT>CCG	p.P175P	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Silent_p.P96P|ACSM2A_uc002dhf.3_Silent_p.P175P|ACSM2A_uc002dhg.3_Silent_p.P175P|ACSM2A_uc010vay.1_Silent_p.P96P	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	175					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CTGAATGTCCTTCTCTGAGAA	0.408													89	264					0	0	0.01441	0	0		G	20480970	G	G	20480970	2	3	2	1	0	0	0	0	0	0	0	1	183	1596	56	5		5	ACSM2A	16	20480970	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08	1636590	20480970	69873783	380	1809											
ACSM2A	123876	broad.mit.edu	37	chr16	20497948	20497948	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacagggaaaattcaacgagCcaagcttcgagacaaggagt	16	5	11	9	2	1	1	1	0	0	1	2	5	1	3	1	2	3	1	1	2	5	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:20497948C>A	uc010bwe.2	+	15	1921	c.1682C>A	c.(1681-1683)GCC>GAC	p.A561D	ACSM2A_uc002dhf.3_Missense_Mutation_p.A561D|ACSM2A_uc002dhg.3_Missense_Mutation_p.A561D|ACSM2A_uc010vay.1_Missense_Mutation_p.A482D|ACSM2A_uc002dhh.3_Missense_Mutation_p.A191D|uc002dhi.1_5'Flank	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	561					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						ATTCAACGAGCCAAGCTTCGA	0.468													108	185					5.11506e-57	5.41368e-57	0.01441	1	0		A	20497948	A	A	20497948	3	1	2	1	0	0	0	0	1	0	0	0	183	739	26	5	1732	5	ACSM2A	16	20497948	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	16978	20497948	69856805	381	1810											
DNAH3	55567	broad.mit.edu	37	chr16	21078701	21078701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagcttctctgccatccGtggctggtcggctgccacca	5	11	11	14	2	1	1	0	1	1	0	4	1	2	1	4	3	3	3	4	3	1	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:21078701G>A	uc010vbe.1	-	24	3421	c.3421C>T	c.(3421-3423)CGG>TGG	p.R1141W		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1141	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TCTGCCATCCGTGGCTGGTCG	0.463													31	80					0	0	0.025465	0	0		A	21078701	A	A	21078701	3	1	2	1	0	0	0	0	1	0	0	0	4609	1144	40	1	9084	1	DNAH3	16	21078701	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	580753	21078701	69276052	382	1811											
EARS2	124454	broad.mit.edu	37	chr16	23546498	23546498	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggtatgtggggaagccGtcgctcttcatgatgactgg	7	11	16	7	2	2	2	1	2	1	0	3	3	2	3	1	5	1	2	1	5	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:23546498G>A	uc002dlt.3	-	4	701	c.669C>T	c.(667-669)GAC>GAT	p.D223D	EARS2_uc002dlr.3_RNA|EARS2_uc002dls.3_RNA|EARS2_uc002dlu.2_Silent_p.D223D	NM_001083614	NP_001077083	Q5JPH6	SYEM_HUMAN	glutamyl-tRNA synthetase 2 precursor	223					glutamyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|glutamate-tRNA ligase activity|RNA binding				0				GBM - Glioblastoma multiforme(48;0.0353)	L-Glutamic Acid(DB00142)	TGGGGAAGCCGTCGCTCTTCA	0.627													3	37					0	0	0.004672	0	0		A	23546498	A	A	23546498	2	1	2	1	0	0	0	0	0	0	0	1	4884	1136	40	1		1	EARS2	16	23546498	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2467797	23546498	66808255	383	1812											
ABCC12	94160	broad.mit.edu	37	chr16	48173246	48173246	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttgacagtatattgagcAcctggaaagaaaagcgcaaa	17	7	9	8	1	0	3	0	2	0	1	0	4	0	4	1	1	2	3	1	1	6	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:48173246A>G	uc002efc.1	-	5	1005	c.659T>C	c.(658-660)GTG>GCG	p.V220A	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.V220A|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	220	ABC transmembrane type-1 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TATATTGAGCACCTGGAAAGA	0.458													3	101					0	0	0.004672	0	0		G	48173246	G	G	48173246	3	3	2	1	0	0	0	0	1	0	0	0	52	173	6	3	3520	3	ABCC12	16	48173246	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	24626748	48173246	42181507	384	1813											
ADCY7	113	broad.mit.edu	37	chr16	50325788	50325788	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaggcttcacgacacccAgtgtccgggtggggctgcag	6	7	17	11	2	1	0	1	0	0	0	2	2	2	1	2	5	1	3	2	5	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:50325788A>G	uc002egd.1	+	3	785	c.517A>G	c.(517-519)AGT>GGT	p.S173G	ADCY7_uc002egb.1_Missense_Mutation_p.S173G|ADCY7_uc002egc.1_Missense_Mutation_p.S173G	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	173					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	CACGACACCCAGTGTCCGGGT	0.657													12	31					0	0	0.020292	0	0		G	50325788	G	G	50325788	3	3	2	1	0	0	0	0	1	0	0	0	299	188	7	3	527	3	ADCY7	16	50325788	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	2152542	50325788	40028965	385	1814											
CES7	221223	broad.mit.edu	37	chr16	55900005	55900005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtccttgaaggcccagttcCccggagcatgctgatcccat	7	9	11	14	1	0	2	0	2	0	0	3	3	3	3	5	3	2	3	5	3	1	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:55900005C>T	uc002eip.2	-	5	724	c.575G>A	c.(574-576)GGG>GAG	p.G192E	CES7_uc002eio.2_Missense_Mutation_p.G192E|CES7_uc002eiq.2_5'UTR|CES7_uc002eir.2_Missense_Mutation_p.G86E	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	192						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		GGCCCAGTTCCCCGGAGCATG	0.577													15	41					0	0	0.008871	0	0		T	55900005	T	T	55900005	3	4	2	1	0	0	0	0	1	0	0	0	3275	623	22	4	1188	4	CES7	16	55900005	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	5574217	55900005	34454748	386	1815											
BBS2	583	broad.mit.edu	37	chr16	56540055	56540055	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattctccagtatcgggatgTtttgtcataaactccaactg	11	14	7	9	1	2	0	1	0	1	0	5	1	3	1	2	1	2	2	2	1	5	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:56540055T>C	uc002ejd.2	-	6	928	c.694A>G	c.(694-696)ACA>GCA	p.T232A	BBS2_uc010ccg.2_Missense_Mutation_p.T232A	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein	232					adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						TATCGGGATGTTTTGTCATAA	0.368									Bardet-Biedl_syndrome				4	82					0	0	0.014758	0	0		C	56540055	C	C	56540055	3	2	2	1	0	0	0	0	1	0	0	0	1339	1725	60	3	1519	3	BBS2	16	56540055	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	640050	56540055	33814698	387	1816											
RLTPR	146206	broad.mit.edu	37	chr16	67685834	67685834	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccttagggacatgcggCtatcaatcacggggaccttg	8	9	12	12	2	2	0	2	0	0	0	2	2	2	2	2	4	2	1	2	4	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:67685834C>T	uc002etn.2	+	26	2719	c.2599C>T	c.(2599-2601)CTA>TTA	p.L867L	RLTPR_uc010cel.1_Silent_p.L860L|RLTPR_uc010vjr.1_Silent_p.L831L|RLTPR_uc010vjs.1_5'Flank	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	867										breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		GGACATGCGGCTATCAATCAC	0.458													6	151					0	0	0.021553	0	0		T	67685834	T	T	67685834	2	4	2	1	0	0	0	0	0	0	0	1	13419	796	28	2		2	RLTPR	16	67685834	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	11145779	67685834	22668919	388	1817											
HYDIN	54768	broad.mit.edu	37	chr16	70867875	70867875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gggtccaaagggaatatgttCctggtccagtgagatctcca	10	10	12	9	0	1	1	0	1	1	1	5	3	4	2	4	3	0	1	4	3	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:70867875C>T	uc002ezr.2	-	79	13719	c.13591G>A	c.(13591-13593)GAA>AAA	p.E4531K	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4532										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GGAATATGTTCCTGGTCCAGT	0.572													7	16					0	0	0.010729	0	0		T	70867875	T	T	70867875	3	4	2	1	0	0	0	0	1	0	0	0	7483	864	30	4	1803	4	HYDIN	16	70867875	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	3182041	70867875	19486878	389	1818											
HYDIN	54768	broad.mit.edu	37	chr16	71012905	71012905	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatactctttgtctgtgtttTtcctggcttgattcaagaac	7	19	7	8	0	3	2	1	1	2	1	4	2	4	2	1	1	2	2	1	1	4	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:71012905T>G	uc002ezr.2	-	30	4675	c.4547A>C	c.(4546-4548)AAA>ACA	p.K1516T		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	1517										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GTCTGTGTTTTTCCTGGCTTG	0.433													6	99					0	0	0.006122	0	0		G	71012905	G	G	71012905	3	3	2	1	0	0	0	0	1	0	0	0	7483	1841	64	5	11043	5	HYDIN	16	71012905	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	145030	71012905	19341848	390	1819											
FOXF1	2294	broad.mit.edu	37	chr16	86544609	86544609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggcggccgcgcggcttccGaaggaaatgccaggcgctca	7	4	16	14	7	1	0	1	0	0	0	2	2	2	1	3	5	1	2	3	5	2	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr16:86544609G>A	uc002fjl.2	+	1	477	c.434G>A	c.(433-435)CGA>CAA	p.R145Q	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	145					branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						CGCGGCTTCCGAAGGAAATGC	0.682													30	29					0	0	0.012213	0	0		A	86544609	A	A	86544609	3	1	2	1	0	0	0	0	1	0	0	0	6019	1058	37	1	436	1	FOXF1	16	86544609	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	15531704	86544609	3810144	391	1820											
SERPINF2	5345	broad.mit.edu	37	chr17	1650311	1650311	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctgtgcggtgccctccAggtgctcagaaccacacgtt	7	8	11	15	2	1	1	1	0	0	1	2	1	2	1	4	2	5	2	4	2	1	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:1650311A>C	uc002ftk.1	+	6	445	c.368_splice	c.e6-2	p.G123_splice	SERPINF2_uc010vqr.1_Splice_Site_p.G59_splice	NM_000934	NP_000925	P08697	A2AP_HUMAN	alpha-2-antiplasmin isoform a precursor						acute-phase response|fibrinolysis|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)	Streptokinase(DB00086)	GGTGCCCTCCAGGTGCTCAGA	0.682													4	5					0	0	0.014758	0	0		C	1650311	C	C	1650311	5	2	2	1	0	0	0	0	0	0	1	0	14140	202	7	5	394	5	SERPINF2	17	1650311	Splice_Site	SNP	A	TCGA-B7-5818-01A-11D-1600-08		1650311	79544899	392	1821											
MINK1	50488	broad.mit.edu	37	chr17	4799503	4799503	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcagtcctttgccgacctcCcccaccgccctctgctggtc	3	10	8	20	2	1	0	0	0	1	0	4	1	3	0	7	1	3	2	7	1	0	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:4799503C>T	uc010vsl.1	+	29	3677	c.3481C>T	c.(3481-3483)CCC>TCC	p.P1161S	MINK1_uc010vsk.1_Missense_Mutation_p.P1132S|MINK1_uc010vsm.1_Missense_Mutation_p.P1141S|MINK1_uc010vsn.1_Missense_Mutation_p.P1124S|MINK1_uc010vso.1_Missense_Mutation_p.P1069S|MINK1_uc010vsp.1_Missense_Mutation_p.P622S	NM_153827	NP_722549	Q8N4C8	MINK1_HUMAN	misshapen-like kinase 1 isoform 3	1161	Mediates interaction with RAP2A.|CNH.				JNK cascade	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)|skin(1)	6						TGCCGACCTCCCCCACCGCCC	0.642											OREG0024107	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	15					0	0	0.01892	0	0		T	4799503	T	T	4799503	3	4	2	1	0	0	0	0	1	0	0	0	9605	623	22	4	3362	4	MINK1	17	4799503	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	3149192	4799503	76395707	393	1822											
TP53	7157	broad.mit.edu	37	chr17	7578176	7578176	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccccagttgcaaaccagaCctcaggcggctcatagggca	11	5	11	14	1	2	1	2	0	0	1	2	2	2	1	4	3	2	4	4	3	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:7578176C>T	uc002gim.2	-	6	866	c.672_splice	c.e6+1	p.E224_splice	TP53_uc002gig.1_Splice_Site_p.E224_splice|TP53_uc002gih.2_Splice_Site_p.E224_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Splice_Site_p.E92_splice|TP53_uc010cng.1_Splice_Site_p.E92_splice|TP53_uc002gii.1_Splice_Site_p.E92_splice|TP53_uc010cnh.1_Splice_Site_p.E224_splice|TP53_uc010cni.1_Splice_Site_p.E224_splice|TP53_uc002gij.2_Splice_Site_p.E224_splice|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Splice_Site_p.E131_splice|TP53_uc002gio.2_Splice_Site_p.E92_splice|TP53_uc010vug.1_Missense_Mutation_p.V186I	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.?(26)|p.0?(7)|p.V225fs*24(1)|p.E224_V225insXX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCAAACCAGACCTCAGGCGGC	0.517		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			10	14					0	0	0.008291	0	0		T	7578176	T	T	7578176	5	4	2	1	0	0	0	0	0	0	1	0	16407	521	18	4	621	4	TP53	17	7578176	Splice_Site	SNP	C	TCGA-B7-5818-01A-11D-1600-08	2778673	7578176	73617034	394	1823											
NCOR1	9611	broad.mit.edu	37	chr17	16068450	16068450	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattggagaggatggagctTcatgtttgcctccgaatgct	10	12	12	7	1	1	1	1	0	0	1	2	5	2	3	2	3	3	3	2	3	2	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:16068450T>C	uc002gpo.2	-	5	701	c.461A>G	c.(460-462)GAA>GGA	p.E154G	NCOR1_uc002gpn.2_Missense_Mutation_p.E154G|NCOR1_uc002gpp.1_Missense_Mutation_p.E45G|NCOR1_uc002gpr.2_Missense_Mutation_p.E45G|NCOR1_uc002gps.1_Missense_Mutation_p.E154G|NCOR1_uc010coz.1_5'UTR|NCOR1_uc010cpb.1_Missense_Mutation_p.E154G|NCOR1_uc010cpa.1_Missense_Mutation_p.E154G|NCOR1_uc002gpu.2_Missense_Mutation_p.E154G	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	154	Interaction with ZBTB33 and HEXIM1.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GGATGGAGCTTCATGTTTGCC	0.383													21	178					0	0	0.034045	0	0		C	16068450	C	C	16068450	3	2	2	1	0	0	0	0	1	0	0	0	10254	1783	62	3	7029	3	NCOR1	17	16068450	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	8490274	16068450	65126760	395	1824											
TRPV2	51393	broad.mit.edu	37	chr17	16326203	16326203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagggacttgcttttatttcGgtgagtgagcctttcttgga	7	16	12	6	1	1	2	0	2	1	0	2	4	1	4	1	3	2	1	1	3	2	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:16326203G>A	uc002gpy.2	+	4	992	c.625G>A	c.(625-627)GGT>AGT	p.G209S	TRPV2_uc002gpz.2_5'UTR	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	209	Cytoplasmic (Potential).|Required for interaction with SLC50A1 (By similarity).|ANK 4.				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CTTTTATTTCGGTGAGTGAGC	0.343													2	2					0	0	0.004672	0	0		A	16326203	A	A	16326203	3	1	2	1	0	0	0	0	1	0	0	0	16622	1130	39	1	635	1	TRPV2	17	16326203	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	257753	16326203	64869007	396	1825											
POLDIP2	26073	broad.mit.edu	37	chr17	26679998	26679998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgttggatgggaacctgatCagtggaggtgtaggggagga	10	9	19	3	0	1	1	1	1	0	0	1	6	1	6	1	7	1	2	1	7	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:26679998C>T	uc002haz.2	-	9	694	c.562G>A	c.(562-564)GAT>AAT	p.D188N	POLDIP2_uc010wag.1_RNA	NM_015584	NP_056399	Q9Y2S7	PDIP2_HUMAN	DNA polymerase delta interacting protein 2	188						mitochondrial nucleoid|nucleus					0	all_lung(13;0.000354)|Lung NSC(42;0.00115)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		GGAACCTGATCAGTGGAGGTG	0.483													25	33					0	0	0.024334	0	0		T	26679998	T	T	26679998	3	4	2	1	0	0	0	0	1	0	0	0	12213	826	29	4	568	4	POLDIP2	17	26679998	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	10353795	26679998	54515212	397	1826											
EFCAB5	374786	broad.mit.edu	37	chr17	28405470	28405470	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatgtgctgcagagacaaGtggggtgtccctagagccgg	9	7	15	10	1	0	2	0	0	0	2	1	3	1	2	3	3	3	2	3	3	3	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:28405470G>C	uc002het.2	+	15	3167	c.2975G>C	c.(2974-2976)AGT>ACT	p.S992T	EFCAB5_uc010cse.2_Missense_Mutation_p.S747T|EFCAB5_uc010csf.2_Intron	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	992							calcium ion binding			ovary(1)|skin(1)	2						GCAGAGACAAGTGGGGTGTCC	0.473													37	100					0	0	0.017118	0	0		C	28405470	C	C	28405470	3	2	2	1	0	0	0	0	1	0	0	0	4944	1029	36	5	3200	5	EFCAB5	17	28405470	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	1725472	28405470	52789740	398	1827											
AMAC1	146861	broad.mit.edu	37	chr17	33520866	33520866	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaccagtcgtagccactgAgaccctggctctcaaggcag	10	6	10	15	1	1	1	1	1	1	1	3	2	1	1	3	2	1	3	3	2	2	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:33520866A>G	uc002hjd.2	-	1	547	c.461T>C	c.(460-462)CTC>CCC	p.L154P		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	154	DUF6 1.					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		GTAGCCACTGAGACCCTGGCT	0.602													46	163					0	0	0.01441	0	0		G	33520866	G	G	33520866	3	3	2	1	0	0	0	0	1	0	0	0	559	304	11	3	559	3	AMAC1	17	33520866	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	5115396	33520866	47674344	399	1828											
CCL15	6359	broad.mit.edu	37	chr17	34324842	34324842	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctttttcatgcaatcctgAactcccggaccactgggttt	8	13	8	12	1	1	1	1	1	0	0	3	2	3	2	3	2	3	3	3	2	2	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:34324842A>C	uc010wcu.1	-	4	872	c.303T>G	c.(301-303)GTT>GTG	p.V101V	CCL14-CCL15_uc010wcs.1_RNA|CCL14-CCL15_uc010wct.1_RNA	NM_032965	NP_116741	Q16663	CCL15_HUMAN	chemokine (C-C motif) ligand 15 precursor	101					cell-cell signaling|cellular calcium ion homeostasis|immune response	extracellular space	chemoattractant activity|chemokine activity|heparin binding|signal transducer activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TGCAATCCTGAACTCCCGGAC	0.498													18	66					0	0	0.010504	0	0		C	34324842	C	C	34324842	2	2	2	1	0	0	0	0	0	0	0	1	2889	233	9	5		5	CCL15	17	34324842	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	803976	34324842	46870368	400	1829											
HDAC5	10014	broad.mit.edu	37	chr17	42158248	42158248	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccattgccatggtgaatGtcctatgaggggaggtagaa	10	10	15	6	0	0	3	0	2	0	1	1	4	1	4	3	4	2	1	3	4	4	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:42158248G>A	uc002ifd.1	-	21	2821	c.2610C>T	c.(2608-2610)GAC>GAT	p.D870D	HDAC5_uc002ife.1_Silent_p.D870D|HDAC5_uc002iff.1_Silent_p.D871D|HDAC5_uc010czp.1_Silent_p.D785D	NM_005474	NP_005465	Q9UQL6	HDAC5_HUMAN	histone deacetylase 5 isoform 1	870	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|chromatin remodeling|chromatin silencing|inflammatory response|negative regulation of cell migration involved in sprouting angiogenesis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			ovary(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.118)		CATGGTGAATGTCCTATGAGG	0.458													16	71					0	0	0.024245	0	0		A	42158248	A	A	42158248	2	1	2	1	0	0	0	0	0	0	0	1	7026	1368	48	4		4	HDAC5	17	42158248	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	7833406	42158248	39036962	401	1830											
SLC35B1	10237	broad.mit.edu	37	chr17	47784418	47784418	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttggctccttccccataCtttcctcttgttctagaaat	6	17	5	13	0	2	1	0	0	2	1	5	1	5	1	4	1	2	3	4	1	3	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:47784418C>T	uc002iph.1	-	2	204	c.117G>A	c.(115-117)AAG>AAA	p.K39K	SLC35B1_uc002ipi.1_5'UTR|SLC35B1_uc002ipj.1_5'UTR|SLC35B1_uc010wly.1_Silent_p.K39K	NM_005827	NP_005818	P78383	S35B1_HUMAN	solute carrier family 35, member B1	39						endoplasmic reticulum membrane|integral to membrane|microsome	UDP-galactose transmembrane transporter activity				0						CTTCCCCATACTTTCCTCTTG	0.408													111	122					0	0	0.01441	0	0		T	47784418	T	T	47784418	2	4	2	1	0	0	0	0	0	0	0	1	14600	564	20	4		4	SLC35B1	17	47784418	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	5626170	47784418	33410792	402	1831											
SGCA	6442	broad.mit.edu	37	chr17	48243432	48243432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcttctggactcctctcCtcgtgggcaagttggggcct	4	12	11	14	1	3	0	0	0	3	0	6	1	4	1	3	4	0	2	3	4	1	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:48243432C>T	uc002iqi.2	+	1	67	c.31C>T	c.(31-33)CTC>TTC	p.L11F	SGCA_uc010wmh.1_5'UTR|SGCA_uc002iqj.2_Missense_Mutation_p.L11F|SGCA_uc010wmi.1_RNA	NM_000023	NP_000014	Q16586	SGCA_HUMAN	sarcoglycan, alpha isoform 1 precursor	11					muscle contraction|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(2)	2						GACTCCTCTCCTCGTGGGCAA	0.512													78	187					0	0	0.01441	0	0		T	48243432	T	T	48243432	3	4	2	1	0	0	0	0	1	0	0	0	14224	681	24	4	33	4	SGCA	17	48243432	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	459014	48243432	32951778	403	1832											
C17orf47	284083	broad.mit.edu	37	chr17	56620386	56620386	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatacctgggtgtaggtcCttgggacatgtaagtaattt	9	14	13	5	0	0	0	0	0	0	0	1	2	1	2	2	4	1	3	2	4	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:56620386C>A	uc002iwq.1	-	1	1298	c.1162G>T	c.(1162-1164)GGA>TGA	p.G388*	SEPT4_uc010wnx.1_5'Flank|SEPT4_uc010wny.1_5'Flank	NM_001038704	NP_001033793	Q8NEP4	CQ047_HUMAN	hypothetical protein LOC284083	388										breast(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GGTGTAGGTCCTTGGGACATG	0.507													87	93					4.493e-44	4.72859e-44	0.01441	1	0		A	56620386	A	A	56620386	4	1	2	1	0	0	0	0	0	1	0	0	1861	690	24	5	558	5	C17orf47	17	56620386	Nonsense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	8376954	56620386	24574824	404	1833											
MARCH10	162333	broad.mit.edu	37	chr17	60814271	60814271	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggggtcgatgtcccccCaaatctacttcttttgtgat	7	14	9	11	1	2	2	0	2	2	0	4	3	3	2	3	2	1	0	3	2	2	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:60814271C>A	uc010ddr.2	-	6	1196	c.958G>T	c.(958-960)GGG>TGG	p.G320W	MARCH10_uc002jag.3_Missense_Mutation_p.G320W|MARCH10_uc010dds.2_Missense_Mutation_p.G358W|MARCH10_uc002jah.2_Missense_Mutation_p.G319W|uc002jaj.1_RNA|uc002jak.2_RNA	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	320							ligase activity|zinc ion binding				0						GATGTCCCCCCAAATCTACTT	0.458													361	368					6.28282e-146	6.6874e-146	0.01441	1	0		A	60814271	A	A	60814271	3	1	2	1	0	0	0	0	1	0	0	0	9317	594	21	5	1492	5	MARCH10	17	60814271	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4193885	60814271	20380939	405	1834											
USP36	57602	broad.mit.edu	37	chr17	76795750	76795750	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgtctccaaatcagtaccTtttctcccgtaagctttatc	8	15	4	14	1	3	0	1	0	2	0	6	0	3	0	4	0	2	3	4	0	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:76795750T>C	uc002jvz.1	-	18	3448	c.3123A>G	c.(3121-3123)AAA>AAG	p.K1041K	USP36_uc002jwa.1_Silent_p.K1041K|USP36_uc002jvy.1_Silent_p.K101K	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	1039					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			AATCAGTACCTTTTCTCCCGT	0.517													58	63					0	0	0.01441	0	0		C	76795750	C	C	76795750	2	2	2	1	0	0	0	0	0	0	0	1	17093	1623	56	3		3	USP36	17	76795750	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08	15981479	76795750	4399460	406	1835											
RNF213	57674	broad.mit.edu	37	chr17	78346774	78346774	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctttctcgttggcctctcaGagatggccaaggagaagcag	9	9	13	10	1	2	2	1	0	2	2	4	4	2	2	2	3	1	3	2	3	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr17:78346774G>C	uc002jyh.1	+	24	7194	c.6971_splice	c.e24-1	p.E2324_splice	uc002jyi.1_Intron|RNF213_uc010dhw.1_Splice_Site_p.E706_splice	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213											ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TGGCCTCTCAGAGATGGCCAA	0.567													10	28					0	0	0.008291	0	0		C	78346774	C	C	78346774	5	2	2	1	0	0	0	0	0	0	1	0	13502	956	33	5	13260	5	RNF213	17	78346774	Splice_Site	SNP	G	TCGA-B7-5818-01A-11D-1600-08	1551024	78346774	2848436	407	1836											
LAMA1	284217	broad.mit.edu	37	chr18	7026061	7026061	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccccgtagaagccgggCaagcactgctcacagtggac	9	5	13	14	2	1	1	1	0	0	1	2	2	2	2	3	3	3	5	3	3	3	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr18:7026061C>A	uc002knm.2	-	17	2413	c.2319G>T	c.(2317-2319)TTG>TTT	p.L773F	LAMA1_uc010wzj.1_Missense_Mutation_p.L249F	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	773	Laminin EGF-like 6.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGAAGCCGGGCAAGCACTGCT	0.582													14	20					1.05317e-09	1.07615e-09	0.020292	1	0		A	7026061	A	A	7026061	3	1	2	1	0	0	0	0	1	0	0	0	8621	709	25	5	7096	5	LAMA1	18	7026061	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08		7026061	71051187	408	1837											
PTPRM	5797	broad.mit.edu	37	chr18	8076538	8076538	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagagaaccaactcaaacAtatggtgtaatcactttata	16	11	7	7	0	2	1	2	0	0	1	2	3	2	2	1	2	3	1	1	2	7	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr18:8076538A>G	uc002knn.3	+	9	2030	c.1527A>G	c.(1525-1527)ACA>ACG	p.T509T	PTPRM_uc010dkv.2_Silent_p.T509T|PTPRM_uc010wzl.1_Silent_p.T296T	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	509	Fibronectin type-III 3.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				CAACTCAAACATATGGTGTAA	0.343													37	89					0	0	0.023175	0	0		G	8076538	G	G	8076538	2	3	2	1	0	0	0	0	0	0	0	1	12831	204	8	3		3	PTPRM	18	8076538	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	1050477	8076538	70000710	409	1838											
ROCK1	6093	broad.mit.edu	37	chr18	18564356	18564356	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaataatctctttgcttcCaataaagtatttatttcctg	11	19	3	8	0	2	0	0	0	2	0	5	0	4	0	2	0	1	2	2	0	7	9			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr18:18564356C>T	uc002kte.2	-	20	3386	c.2445G>A	c.(2443-2445)TTG>TTA	p.L815L		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	815	Glu-rich.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					TCTTTGCTTCCAATAAAGTAT	0.308													38	78					0	0	0.019004	0	0		T	18564356	T	T	18564356	2	4	2	1	0	0	0	0	0	0	0	1	13542	593	21	4		4	ROCK1	18	18564356	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	10487818	18564356	59512892	410	1839											
DSG3	1830	broad.mit.edu	37	chr18	29044186	29044186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcagtcaaccccagtcaCaattcaggtaataaatgtaa	16	10	6	9	0	4	0	4	0	0	0	4	0	4	0	2	1	1	3	2	1	6	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr18:29044186C>T	uc002kws.2	+	9	1221	c.1112C>T	c.(1111-1113)ACA>ATA	p.T371I		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	371	Cadherin 3.|Extracellular (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			ACCCCAGTCACAATTCAGGTA	0.378													4	89					0	0	0.009096	0	0		T	29044186	T	T	29044186	3	4	2	1	0	0	0	0	1	0	0	0	4784	478	17	4	1146	4	DSG3	18	29044186	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	10479830	29044186	49033062	411	1840											
LIPG	9388	broad.mit.edu	37	chr18	47109931	47109931	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcccacttgtagagtggAgcggatcgagcagaatgcca	10	8	12	11	2	1	2	0	0	1	2	3	5	1	4	2	2	3	2	2	2	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr18:47109931A>T	uc002ldv.2	+	8	1415	c.1163A>T	c.(1162-1164)GAG>GTG	p.E388V	LIPG_uc010xdh.1_Missense_Mutation_p.E314V	NM_006033	NP_006024	Q9Y5X9	LIPE_HUMAN	endothelial lipase precursor	388	PLAT.				cholesterol homeostasis|high-density lipoprotein particle remodeling|phospholipid catabolic process|phospholipid homeostasis|positive regulation of cholesterol transport|positive regulation of high-density lipoprotein particle clearance|reverse cholesterol transport	extracellular space	heparin binding|lipoprotein lipase activity|phospholipase A1 activity|protein binding|triglyceride lipase activity			ovary(1)|skin(1)	2						TGTAGAGTGGAGCGGATCGAG	0.567													43	35					0	0	0.010771	0	0		T	47109931	T	T	47109931	3	4	2	1	0	0	0	0	1	0	0	0	8840	304	11	5	1193	5	LIPG	18	47109931	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	18065745	47109931	30967317	412	1841											
NARS	4677	broad.mit.edu	37	chr18	55269717	55269717	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgggcatcaacacgtcgAcctttaaatataagtgaaag	15	10	8	8	2	1	1	1	1	0	0	2	2	1	1	1	1	1	1	1	1	6	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr18:55269717A>C	uc002lgs.2	-	13	1613	c.1385T>G	c.(1384-1386)GTC>GGC	p.V462G	NARS_uc002lgt.2_Missense_Mutation_p.V461G|NARS_uc010xea.1_Missense_Mutation_p.V213G	NM_004539	NP_004530	O43776	SYNC_HUMAN	asparaginyl-tRNA synthetase	462					asparaginyl-tRNA aminoacylation	cytosol|soluble fraction	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding				0		Colorectal(73;0.227)			L-Asparagine(DB00174)	CAACACGTCGACCTTTAAATA	0.398													26	31					0	0	0.021523	0	0		C	55269717	C	C	55269717	3	2	2	1	0	0	0	0	1	0	0	0	10188	289	10	5	269	5	NARS	18	55269717	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	8159786	55269717	22807531	413	1842											
ATP8B1	5205	broad.mit.edu	37	chr18	55319362	55319362	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaatgcttccaaaaattgAaaaagcattcacaaaagtcc	18	9	5	9	0	1	1	1	1	0	0	3	1	3	1	2	0	3	3	2	0	7	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr18:55319362A>C	uc002lgw.2	-	25	3304	c.3304T>G	c.(3304-3306)TCA>GCA	p.S1102A	uc002lgu.1_Intron|uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	1102	Helical; (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				CCAAAAATTGAAAAAGCATTC	0.358									Byler_disease				33	16					0	0	0.009535	0	0		C	55319362	C	C	55319362	3	2	2	1	0	0	0	0	1	0	0	0	1195	246	9	5	463	5	ATP8B1	18	55319362	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	49645	55319362	22757886	414	1843											
SERPINB4	6318	broad.mit.edu	37	chr18	61326649	61326649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacctgtaaaaatagatacGttttttctccgaagagcttg	12	15	7	7	2	1	2	0	0	1	2	2	3	1	2	2	0	3	3	2	0	7	8	rs140004752		TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr18:61326649G>A	uc002ljg.2	-	3	361	c.335C>T	c.(334-336)ACG>ATG	p.T112M	SERPINB3_uc002lji.2_Missense_Mutation_p.T112M|SERPINB3_uc010dqa.2_Missense_Mutation_p.T112M|SERPINB3_uc010dqb.2_Missense_Mutation_p.T112M			P48594	SPB4_HUMAN	SubName: Full=Squamous cell carcinoma antigen 2;	112					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						AAATAGATACGTTTTTTCTCC	0.418													49	63					0	0	0.01441	0	0		A	61326649	A	A	61326649	3	1	2	1	0	0	0	0	1	0	0	0	14128	1145	40	1		1	SERPINB4	18	61326649	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	6007287	61326649	16750599	415	1844											
CDH7	1005	broad.mit.edu	37	chr18	63548089	63548089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcgctttaaacgactcGcggacatgtatgggactggc	9	9	12	11	4	0	0	0	0	0	0	2	4	0	2	1	3	1	2	1	3	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr18:63548089G>A	uc002ljz.2	+	12	2642	c.2317G>A	c.(2317-2319)GCG>ACG	p.A773T	CDH7_uc002lkb.2_Missense_Mutation_p.A773T	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	773	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.A773T(1)		ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				TAAACGACTCGCGGACATGTA	0.408													46	32					0	0	0.013114	0	0		A	63548089	A	A	63548089	3	1	2	1	0	0	0	0	1	0	0	0	3118	1087	38	1	2359	1	CDH7	18	63548089	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2221440	63548089	14529159	416	1845											
CCDC102B	79839	broad.mit.edu	37	chr18	66504478	66504478	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagttacccaggatctgaagCttcctggcttcgtagaagaa	12	10	10	9	1	1	3	0	1	1	2	3	4	2	4	2	2	2	4	2	2	6	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr18:66504478C>T	uc002lkk.2	+	4	701	c.478C>T	c.(478-480)CTT>TTT	p.L160F	CCDC102B_uc002lki.2_Missense_Mutation_p.L160F|CCDC102B_uc002lkj.1_Missense_Mutation_p.L160F	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	160										ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				GGATCTGAAGCTTCCTGGCTT	0.393													67	64					0	0	0.01441	0	0		T	66504478	T	T	66504478	3	4	2	1	0	0	0	0	1	0	0	0	2740	797	28	2	480	2	CCDC102B	18	66504478	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	2956389	66504478	11572770	417	1846											
RTTN	25914	broad.mit.edu	37	chr18	67871349	67871349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggtttggtatgaggcagAagatagtgcaggaacttccg	11	11	14	5	1	0	3	0	1	0	2	1	4	1	4	1	4	2	4	1	4	4	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr18:67871349A>G	uc002lkp.2	-	3	438	c.370T>C	c.(370-372)TCT>CCT	p.S124P	RTTN_uc010xfb.1_5'UTR|RTTN_uc002lkq.1_Missense_Mutation_p.S124P	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	124							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TATGAGGCAGAAGATAGTGCA	0.368													57	45					0	0	0.01441	0	0		G	67871349	G	G	67871349	3	3	2	1	0	0	0	0	1	0	0	0	13762	246	9	3	6498	3	RTTN	18	67871349	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	1366871	67871349	10205899	418	1847											
ADNP2	22850	broad.mit.edu	37	chr18	77893739	77893739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttaggtgaaactaaatcatCtaggagcgatgtgataagtt	14	13	10	4	1	2	2	1	2	1	0	2	4	2	3	0	2	2	1	0	2	6	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr18:77893739C>T	uc002lnw.2	+	4	898	c.443C>T	c.(442-444)TCT>TTT	p.S148F		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	148					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		ACTAAATCATCTAGGAGCGAT	0.408													14	60					0	0	0.020292	0	0		T	77893739	T	T	77893739	3	4	2	1	0	0	0	0	1	0	0	0	324	913	32	4	453	4	ADNP2	18	77893739	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	10022390	77893739	183509	419	1848											
GTF2F1	2962	broad.mit.edu	37	chr19	6387561	6387561	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacgcctcccttcttgatGcccttgaacctgcagggagc	6	11	10	14	1	1	2	0	2	1	0	2	3	2	3	4	1	5	2	4	1	2	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:6387561G>A	uc002meq.2	-	5	621	c.336C>T	c.(334-336)GGC>GGT	p.G112G	GTF2F1_uc010xjb.1_5'UTR|GTF2F1_uc010xjc.1_Intron	NM_002096	NP_002087	P35269	T2FA_HUMAN	general transcription factor IIF, polypeptide 1,	112					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|response to virus|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cell junction|transcription factor TFIIF complex	catalytic activity|DNA binding|phosphatase activator activity|transcription coactivator activity|transcription factor binding				0						CCTTCTTGATGCCCTTGAACC	0.632													18	34					0	0	0.006122	0	0		A	6387561	A	A	6387561	2	1	2	1	0	0	0	0	0	0	0	1	6874	1306	46	2		2	GTF2F1	19	6387561	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08		6387561	52741422	420	1849											
MUC16	94025	broad.mit.edu	37	chr19	9082954	9082954	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagtaaaacctgttgatTgaaatgagcttgcacttatg	12	15	8	6	0	1	3	1	3	0	0	1	3	1	3	1	0	3	4	1	0	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:9082954T>A	uc002mkp.2	-	1	9065	c.8861A>T	c.(8860-8862)CAA>CTA	p.Q2954L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2955	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACCTGTTGATTGAAATGAGCT	0.498													61	112					0	0	0.01441	0	0		A	9082954	A	A	9082954	3	1	2	1	0	0	0	0	1	0	0	0	9991	1812	63	5	34998	5	MUC16	19	9082954	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2695393	9082954	50046029	421	1850											
DNMT1	1786	broad.mit.edu	37	chr19	10250741	10250741	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctgaggaaggaaaccaccaGagagtttttgaacttggagt	13	9	12	7	0	0	3	0	2	0	1	0	7	0	6	3	3	2	1	3	3	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:10250741G>A	uc002mng.2	-	32	3919	c.3739C>T	c.(3739-3741)CTG>TTG	p.L1247L	DNMT1_uc002mne.2_RNA|DNMT1_uc002mnf.2_Silent_p.L171L|DNMT1_uc010xlc.1_Silent_p.L1263L|DNMT1_uc002mnh.2_Silent_p.L1142L|DNMT1_uc010xld.1_Silent_p.L1247L	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	1247	Catalytic.|Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	GAAACCACCAGAGAGTTTTTG	0.607													22	61					0	0	0.016522	0	0		A	10250741	A	A	10250741	2	1	2	1	0	0	0	0	0	0	0	1	4681	933	33	4		4	DNMT1	19	10250741	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	1167787	10250741	48878242	422	1851											
ICAM5	7087	broad.mit.edu	37	chr19	10404989	10404989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaacagtcgtcgtgagcgCggagtgtgagcgaggcccag	10	5	16	10	5	0	2	0	2	0	0	2	4	0	3	1	2	3	0	1	2	2	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:10404989C>T	uc002mnu.3	+	8	2050	c.1985C>T	c.(1984-1986)GCG>GTG	p.A662V	ICAM5_uc002mnv.3_Missense_Mutation_p.A537V	NM_003259	NP_003250	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5 precursor	662	Extracellular (Potential).|Ig-like C2-type 7.				cell-cell adhesion	integral to plasma membrane				breast(3)	3			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			GTCGTGAGCGCGGAGTGTGAG	0.662													52	124					0	0	0.01441	0	0		T	10404989	T	T	10404989	3	4	2	1	0	0	0	0	1	0	0	0	7499	768	27	1	2015	1	ICAM5	19	10404989	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	154248	10404989	48723994	423	1852											
ZNF439	90594	broad.mit.edu	37	chr19	11977395	11977395	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attgaatatgagtaccaaaaCcccaggagaaacttcaggta	17	8	8	8	0	1	3	1	2	0	1	1	4	1	3	3	2	3	2	3	2	7	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:11977395C>A	uc002mss.2	+	2	347	c.219C>A	c.(217-219)AAC>AAA	p.N73K	ZNF439_uc002msr.2_5'UTR	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	73	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						AGTACCAAAACCCCAGGAGAA	0.313													28	57					1.30897e-18	1.35978e-18	0.009535	1	0		A	11977395	A	A	11977395	3	1	2	1	0	0	0	0	1	0	0	0	17936	506	18	5	225	5	ZNF439	19	11977395	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1572406	11977395	47151588	424	1853											
NWD1	284434	broad.mit.edu	37	chr19	16918624	16918624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcgcctatgacaacatcGtcctggtgctggacatcacc	9	9	8	15	2	1	1	1	1	0	0	4	2	2	2	4	2	2	1	4	2	2	1	rs141165642	byFrequency	TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:16918624G>A	uc002neu.3	+	18	4386	c.3964G>A	c.(3964-3966)GTC>ATC	p.V1322I	NWD1_uc002net.3_Missense_Mutation_p.V1187I|NWD1_uc002nev.3_Missense_Mutation_p.V1116I			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1322							ATP binding			skin(3)|ovary(2)|pancreas(2)	7						TGACAACATCGTCCTGGTGCT	0.612													40	80					0	0	0.036044	0	0		A	16918624	A	A	16918624	3	1	2	1	0	0	0	0	1	0	0	0	10800	1145	40	1	3613	1	NWD1	19	16918624	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	4941229	16918624	42210359	425	1854											
CPAMD8	27151	broad.mit.edu	37	chr19	17036025	17036025	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtactaggtagtcggtGgtctctctctccacctcagg	5	13	10	13	1	3	0	1	0	2	0	7	0	4	0	3	4	1	2	3	4	3	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:17036025G>A	uc002nfb.2	-	26	3701	c.3669C>T	c.(3667-3669)ACC>ACT	p.T1223T		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1176						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						GGTAGTCGGTGGTCTCTCTCT	0.542													63	91					0	0	0.01441	0	0		A	17036025	A	A	17036025	2	1	2	1	0	0	0	0	0	0	0	1	3798	1335	47	4		4	CPAMD8	19	17036025	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	117401	17036025	42092958	426	1855											
FKBP8	23770	broad.mit.edu	37	chr19	18652561	18652561	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggcagcaaggaactctcGggccagggccccaggctgct	8	5	14	14	1	1	0	0	0	1	0	2	1	1	1	3	5	3	4	3	5	2	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:18652561G>A	uc002njk.1	-	2	333	c.220C>T	c.(220-222)CGA>TGA	p.R74*	FKBP8_uc002nji.1_5'Flank|FKBP8_uc010xqi.1_Nonsense_Mutation_p.R103*|FKBP8_uc002njj.1_Nonsense_Mutation_p.R74*|FKBP8_uc002njl.1_Nonsense_Mutation_p.R74*|FKBP8_uc002njm.1_Nonsense_Mutation_p.R74*|FKBP8_uc010ebr.1_5'UTR|FKBP8_uc002njn.2_RNA	NM_012181	NP_036313	Q14318	FKBP8_HUMAN	FK506-binding protein 8	74	Glu-rich.				apoptosis|interspecies interaction between organisms|intracellular signal transduction|protein folding	integral to endoplasmic reticulum membrane|mitochondrial membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|protein binding			ovary(1)	1						AGGAACTCTCGGGCCAGGGCC	0.607													10	12					0	0	0.016723	0	0		A	18652561	A	A	18652561	4	1	2	1	0	0	0	0	0	1	0	0	5928	1124	39	1	1053	1	FKBP8	19	18652561	Nonsense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	1616536	18652561	40476422	427	1856											
ZNF90	7643	broad.mit.edu	37	chr19	20229448	20229448	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttcgtacacataagagaaTtcatactggagagaaaccct	15	9	7	10	1	1	2	1	0	0	2	2	5	1	3	2	1	3	1	2	1	5	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:20229448T>G	uc002nor.2	+	4	1224	c.1085T>G	c.(1084-1086)ATT>AGT	p.I362S	ZNF90_uc002nos.1_Intron|ZNF90_uc002not.1_Intron	NM_007138	NP_009069	Q03938	ZNF90_HUMAN	zinc finger protein 90	362	C2H2-type 7.					Golgi apparatus|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CATAAGAGAATTCATACTGGA	0.378													11	31					0	0	0.010729	0	0		G	20229448	G	G	20229448	3	3	2	1	0	0	0	0	1	0	0	0	18224	1493	52	5	1099	5	ZNF90	19	20229448	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	1576887	20229448	38899535	428	1857											
ZNF99	7652	broad.mit.edu	37	chr19	22939044	22939044	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgaattatcttatgtttaGtaagggctgaaagatggtta	13	16	10	2	0	1	3	0	2	1	1	1	3	1	3	0	2	0	4	0	2	8	7			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:22939044G>T	uc010xrh.1	-	8	3074	c.3074C>A	c.(3073-3075)ACT>AAT	p.T1025N		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				CTTATGTTTAGTAAGGGCTGA	0.348													40	29					1.15505e-17	1.19546e-17	0.036044	1	0		T	22939044	T	T	22939044	3	4	2	1	0	0	0	0	1	0	0	0	18229	1029	36	5	38	5	ZNF99	19	22939044	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	2709596	22939044	36189939	429	1858											
SCN1B	6324	broad.mit.edu	37	chr19	35524523	35524523	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgtctatcttcatcaccAatgtcacctacaaccactcg	11	12	3	15	1	6	0	3	0	3	0	7	0	6	0	3	0	2	0	3	0	4	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:35524523A>G	uc002nxp.2	+	3	519	c.328A>G	c.(328-330)AAT>GAT	p.N110D	SCN1B_uc002nxo.1_Missense_Mutation_p.N110D|SCN1B_uc010xsg.1_Intron	NM_001037	NP_001028	Q07699	SCN1B_HUMAN	sodium channel, voltage-gated, type I, beta	110	Extracellular (Potential).|Ig-like C2-type.				axon guidance|synaptic transmission	integral to membrane	voltage-gated sodium channel activity			ovary(1)|central_nervous_system(1)	2	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			CTTCATCACCAATGTCACCTA	0.572													4	161					0	0	0.014758	0	0		G	35524523	G	G	35524523	3	3	2	1	0	0	0	0	1	0	0	0	13940	130	5	3	338	3	SCN1B	19	35524523	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	12585479	35524523	23604460	430	1859											
DYRK1B	9149	broad.mit.edu	37	chr19	40319150	40319150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggtgttgcgcaggaggtcGtacaggttgtaggacagcag	8	9	18	6	2	0	0	0	0	0	0	1	2	0	2	0	5	3	6	0	5	2	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:40319150G>A	uc002omj.2	-	6	874	c.594C>T	c.(592-594)TAC>TAT	p.Y198Y	DYRK1B_uc002omi.2_Silent_p.Y198Y|DYRK1B_uc002omk.2_Silent_p.Y198Y	NM_004714	NP_004705	Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	198	Protein kinase.				positive regulation of transcription, DNA-dependent	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|transcription coactivator activity			ovary(4)|stomach(1)|central_nervous_system(1)|skin(1)	7	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)		Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)			GCAGGAGGTCGTACAGGTTGT	0.622													6	17					0	0	0.021553	0	0		A	40319150	A	A	40319150	2	1	2	1	0	0	0	0	0	0	0	1	4861	1140	40	1		1	DYRK1B	19	40319150	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	4794627	40319150	18809833	431	1860											
PSG3	5671	broad.mit.edu	37	chr19	43242962	43242962	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtaggatcctgcgtccTcccgggtgacattctggatc	6	11	13	11	2	1	1	0	1	1	0	5	3	4	3	3	4	1	1	3	4	1	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:43242962T>G	uc002oue.2	-	2	476	c.344A>C	c.(343-345)GAG>GCG	p.E115A	PSG3_uc002ouf.2_RNA|PSG1_uc002oug.1_Intron|PSG3_uc010eil.2_Missense_Mutation_p.E137A	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	115	Ig-like V-type.				defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				TCCTGCGTCCTCCCGGGTGAC	0.468													15	707					0	0	0.020292	0	0		G	43242962	G	G	43242962	3	3	2	1	0	0	0	0	1	0	0	0	12678	1551	54	5	962	5	PSG3	19	43242962	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2923812	43242962	15886021	432	1861											
ZNF234	10780	broad.mit.edu	37	chr19	44660716	44660716	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacatgtgatgagtgtggaAaaagcttctgttacatctca	13	13	9	6	0	2	2	1	2	2	0	3	3	2	3	0	1	3	2	0	1	4	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:44660716A>C	uc002oym.2	+	6	854	c.547A>C	c.(547-549)AAA>CAA	p.K183Q	ZNF234_uc002oyl.3_Missense_Mutation_p.K183Q	NM_006630	NP_006621	Q14588	ZN234_HUMAN	zinc finger protein 234	183	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				TGAGTGTGGAAAAAGCTTCTG	0.393													6	290					0	0	0.021553	0	0		C	44660716	C	C	44660716	3	2	2	1	0	0	0	0	1	0	0	0	17812	15	1	5	561	5	ZNF234	19	44660716	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	1417754	44660716	14468267	433	1862											
ZNF285	26974	broad.mit.edu	37	chr19	44891747	44891747	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgggccgcattacgtttTtcaaccgttgatttcatacc	9	14	7	11	3	2	1	2	1	0	0	2	1	2	1	3	1	3	3	3	1	3	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:44891747T>G	uc002ozd.3	-	4	747	c.660A>C	c.(658-660)GAA>GAC	p.E220D	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Missense_Mutation_p.E227D	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	220					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						CATTACGTTTTTCAACCGTTG	0.468													4	270					0	0	0.009096	0	0		G	44891747	G	G	44891747	3	3	2	1	0	0	0	0	1	0	0	0	17847	1838	64	5	1116	5	ZNF285	19	44891747	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	231031	44891747	14237236	434	1863											
MEIS3	56917	broad.mit.edu	37	chr19	47918036	47918036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcctccctgcagccgccgtCccgatcctcgatgaccaggt	5	8	10	18	4	0	1	0	1	0	0	5	3	4	1	7	1	2	1	7	1	0	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:47918036C>T	uc002pgu.2	-	6	982	c.535G>A	c.(535-537)GAC>AAC	p.D179N	MEIS3_uc002pgo.2_5'Flank|MEIS3_uc002pgp.2_Missense_Mutation_p.D11N|MEIS3_uc002pgq.2_Missense_Mutation_p.D260N|MEIS3_uc002pgr.2_Missense_Mutation_p.D47N|MEIS3_uc002pgt.2_Missense_Mutation_p.D162N|MEIS3_uc002pgv.2_Missense_Mutation_p.D162N|MEIS3_uc002pgs.2_Missense_Mutation_p.D179N|MEIS3_uc010eld.2_Missense_Mutation_p.D179N	NM_001009813	NP_001009813	Q99687	MEIS3_HUMAN	Meis1, myeloid ecotropic viral integration site	179						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000198)|OV - Ovarian serous cystadenocarcinoma(262;0.000439)|Epithelial(262;0.0113)|GBM - Glioblastoma multiforme(486;0.0223)		CAGCCGCCGTCCCGATCCTCG	0.667													6	14					0	0	0.02938	0	0		T	47918036	T	T	47918036	3	4	2	1	0	0	0	0	1	0	0	0	9487	855	30	4	758	4	MEIS3	19	47918036	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	3026289	47918036	11210947	435	1864											
ZNF175	7728	broad.mit.edu	37	chr19	52091509	52091509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aactcacatgggagagaaacCctatgaatgccttgactgtg	13	9	10	9	0	1	3	1	2	0	1	1	5	1	4	2	1	3	0	2	1	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:52091509C>T	uc002pxb.2	+	5	2303	c.1925C>T	c.(1924-1926)CCC>CTC	p.P642L	uc002pxc.1_5'Flank	NM_007147	NP_009078	Q9Y473	ZN175_HUMAN	zinc finger protein 175	642					response to virus	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000426)|OV - Ovarian serous cystadenocarcinoma(262;0.0257)		GGAGAGAAACCCTATGAATGC	0.438													68	108					0	0	0.01441	0	0		T	52091509	T	T	52091509	3	4	2	1	0	0	0	0	1	0	0	0	17770	623	22	4	1939	4	ZNF175	19	52091509	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4173473	52091509	7037474	436	1865											
ZNF528	84436	broad.mit.edu	37	chr19	52918758	52918758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttacaaatgcagtgaatGtggcaaggtctttagttgca	11	13	10	7	0	1	1	0	1	1	0	2	1	2	1	1	2	3	4	1	2	5	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:52918758G>A	uc002pzh.2	+	7	1079	c.653G>A	c.(652-654)TGT>TAT	p.C218Y	ZNF528_uc002pzi.2_Translation_Start_Site	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	218	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		TGCAGTGAATGTGGCAAGGTC	0.408													52	90					0	0	0.01441	0	0		A	52918758	A	A	52918758	3	1	2	1	0	0	0	0	1	0	0	0	17994	1377	48	4	667	4	ZNF528	19	52918758	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	827249	52918758	6210225	437	1866											
NLRP4	147945	broad.mit.edu	37	chr19	56369641	56369641	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggatcaggtgacgatctcAgaaatctaccagccccgggg	10	6	13	12	3	3	2	2	1	2	1	4	4	3	3	3	4	2	0	3	4	2	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:56369641A>G	uc002qmd.3	+	3	1304	c.882A>G	c.(880-882)TCA>TCG	p.S294S	NLRP4_uc002qmf.2_Silent_p.S219S|NLRP4_uc010etf.2_Silent_p.S125S	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	294	NACHT.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		TGACGATCTCAGAAATCTACC	0.522													45	89					0	0	0.01441	0	0		G	56369641	G	G	56369641	2	3	2	1	0	0	0	0	0	0	0	1	10498	175	7	3		3	NLRP4	19	56369641	Silent	SNP	A	TCGA-B7-5818-01A-11D-1600-08	3450883	56369641	2759342	438	1867											
NLRP5	126206	broad.mit.edu	37	chr19	56538970	56538970	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagacacaagggttgcgtgcGatcatgaacaaccgtgagct	13	7	12	9	3	1	3	1	2	0	1	1	4	1	3	1	1	5	2	1	1	4	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:56538970G>A	uc002qmj.2	+	7	1371	c.1371G>A	c.(1369-1371)GCG>GCA	p.A457A	NLRP5_uc002qmi.2_Silent_p.A438A	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	457	NACHT.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		GGTTGCGTGCGATCATGAACA	0.597													17	33					0	0	0.028581	0	0		A	56538970	A	A	56538970	2	1	2	1	0	0	0	0	0	0	0	1	10499	1045	37	1		1	NLRP5	19	56538970	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	169329	56538970	2590013	439	1868											
USP29	57663	broad.mit.edu	37	chr19	57642751	57642751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactctcggctacctagcaCacaggcaggggtgatccctc	9	7	11	14	1	1	1	0	1	1	0	4	2	2	1	2	4	3	3	2	4	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr19:57642751C>T	uc002qny.2	+	4	3064	c.2708C>T	c.(2707-2709)ACA>ATA	p.T903I		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	903					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CTACCTAGCACACAGGCAGGG	0.493													31	73					0	0	0.019004	0	0		T	57642751	T	T	57642751	3	4	2	1	0	0	0	0	1	0	0	0	17085	478	17	4	2710	4	USP29	19	57642751	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	1103781	57642751	1486232	440	1869											
GZF1	64412	broad.mit.edu	37	chr20	23350829	23350829	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagcctgacgaagagtaTgtgtcatccaagctttcgga	12	9	11	9	2	1	2	1	1	0	1	3	5	2	3	2	1	3	2	2	1	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr20:23350829T>C	uc010gdb.2	+	7	2061	c.1887T>C	c.(1885-1887)TAT>TAC	p.Y629Y	GZF1_uc002wsy.2_Silent_p.Y629Y|GZF1_uc010zsq.1_Silent_p.Y153Y|GZF1_uc010zsr.1_Silent_p.Y138Y|GZF1_uc002wsz.2_Silent_p.Y629Y	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	629					transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					ACGAAGAGTATGTGTCATCCA	0.463													38	71					0	0	0.021022	0	0		C	23350829	C	C	23350829	2	2	2	1	0	0	0	0	0	0	0	1	6930	1471	51	3		3	GZF1	20	23350829	Silent	SNP	T	TCGA-B7-5818-01A-11D-1600-08		23350829	39674691	441	1870											
NCOA6	23054	broad.mit.edu	37	chr20	33329501	33329501	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgaggtcctccccagaaActactggaggtgttacttcc	8	13	9	11	0	0	2	0	1	0	1	3	3	3	3	4	3	3	1	4	3	3	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr20:33329501A>T	uc002xav.2	-	12	7130	c.4559T>A	c.(4558-4560)GTT>GAT	p.V1520D	NCOA6_uc002xaw.2_Missense_Mutation_p.V1520D	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1520					brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						CTCCCCAGAAACTACTGGAGG	0.443													48	96					0	0	0.01441	0	0		T	33329501	T	T	33329501	3	4	2	1	0	0	0	0	1	0	0	0	10252	43	2	5	1652	5	NCOA6	20	33329501	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	9978672	33329501	29696019	442	1871											
FAM83D	81610	broad.mit.edu	37	chr20	37581154	37581154	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtagcactttatccttcCtatcagtaactgctccgtgt	8	15	7	11	1	1	0	1	0	0	0	4	1	4	0	3	0	3	4	3	0	4	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr20:37581154C>T	uc002xjg.2	+	4	1880	c.1839C>T	c.(1837-1839)TCC>TCT	p.S613S		NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	583					cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				TTTATCCTTCCTATCAGTAAC	0.418													87	187					0	0	0.01441	0	0		T	37581154	T	T	37581154	2	4	2	1	0	0	0	0	0	0	0	1	5650	668	24	4		4	FAM83D	20	37581154	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	4251653	37581154	25444366	443	1872											
TOX2	84969	broad.mit.edu	37	chr20	42602048	42602048	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtggggatgagtgacggaaaCccagagctcctgtcaaccag	11	6	14	10	1	1	3	1	2	0	1	2	5	2	5	3	3	3	1	3	3	2	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr20:42602048C>G	uc002xlf.3	+	2	185	c.168C>G	c.(166-168)AAC>AAG	p.N56K	TOX2_uc010ggo.2_Missense_Mutation_p.N47K|TOX2_uc002xle.3_Missense_Mutation_p.N5K|TOX2_uc010ggp.2_Missense_Mutation_p.N5K|TOX2_uc002xlg.2_Missense_Mutation_p.N5K	NM_001098798	NP_001092268	Q96NM4	TOX2_HUMAN	TOX high mobility group box family member 2	56					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)			GTGACGGAAACCCAGAGCTCC	0.542													14	61					0	0	0.024245	0	0		G	42602048	G	G	42602048	3	3	2	1	0	0	0	0	1	0	0	0	16404	506	18	5	277	5	TOX2	20	42602048	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	5020894	42602048	20423472	444	1873											
SEMG2	6407	broad.mit.edu	37	chr20	43851115	43851115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaagatcaagagcatggccGgaaggcacataaaatatcat	17	7	9	8	1	3	2	3	0	0	2	3	3	3	3	1	3	1	2	1	3	6	2	rs138747718	by1000genomes	TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr20:43851115G>A	uc010ggz.2	+	2	899	c.842G>A	c.(841-843)CGG>CAG	p.R281Q	SEMG2_uc002xnk.2_Missense_Mutation_p.R281Q|SEMG2_uc002xnl.2_Missense_Mutation_p.R281Q	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	281	Repeat-rich region.|4 X 60 AA tandem repeats, type I.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				GAGCATGGCCGGAAGGCACAT	0.403													3	138					0	0	0.004672	0	0		A	43851115	A	A	43851115	3	1	2	1	0	0	0	0	1	0	0	0	14070	1116	39	1	848	1	SEMG2	20	43851115	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	1249067	43851115	19174405	445	1874											
CDH22	64405	broad.mit.edu	37	chr20	44839198	44839198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggattcgaagtccaggCgctgcgggagggagcagagg	8	5	20	8	3	0	1	0	0	0	1	2	5	1	4	1	5	2	3	1	5	1	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr20:44839198C>T	uc002xrm.2	-	6	1435	c.1034G>A	c.(1033-1035)CGC>CAC	p.R345H	CDH22_uc010ghk.1_Missense_Mutation_p.R345H|CDH22_uc002xrn.1_Missense_Mutation_p.R96H	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	345	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				GAAGTCCAGGCGCTGCGGGAG	0.677													7	30					0	0	0.004482	0	0		T	44839198	T	T	44839198	3	4	2	1	0	0	0	0	1	0	0	0	3110	782	27	1	1476	1	CDH22	20	44839198	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	988083	44839198	18186322	446	1875											
TPTE	7179	broad.mit.edu	37	chr21	10944678	10944678	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcatacctgggaatatTcctaagcaacttaatgtcaa	13	14	6	8	0	2	0	2	0	0	0	3	1	3	1	2	1	3	2	2	1	7	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr21:10944678T>G	uc002yip.1	-	11	924	c.556A>C	c.(556-558)AAT>CAT	p.N186H	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.N168H|TPTE_uc002yir.1_Missense_Mutation_p.N148H|TPTE_uc010gkv.1_Missense_Mutation_p.N48H	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	186					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CTGGGAATATTCCTAAGCAAC	0.284													46	309					0	0	0.01441	0	0		G	10944678	G	G	10944678	3	3	2	1	0	0	0	0	1	0	0	0	16456	1783	62	5	1155	5	TPTE	21	10944678	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08		10944678	37185217	447	1876											
GRIK1	2897	broad.mit.edu	37	chr21	31023457	31023457	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcatcatgccatccaaaAggccagtctcgggcctgggt	8	9	11	13	1	3	0	2	0	1	0	5	0	4	0	4	3	1	0	4	3	2	0			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr21:31023457A>G	uc002yno.1	-	6	1399	c.935T>C	c.(934-936)CTT>CCT	p.L312P	GRIK1_uc002ynn.2_Missense_Mutation_p.L312P|GRIK1_uc011acs.1_Missense_Mutation_p.L312P|GRIK1_uc011act.1_Missense_Mutation_p.L256P|GRIK1_uc010glq.1_Missense_Mutation_p.L170P|GRIK1_uc002ynr.2_Missense_Mutation_p.L312P	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	312	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	GCCATCCAAAAGGCCAGTCTC	0.443													43	43					0	0	0.01441	0	0		G	31023457	G	G	31023457	3	3	2	1	0	0	0	0	1	0	0	0	6789	72	3	3	2029	3	GRIK1	21	31023457	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	20078779	31023457	17106438	448	1877											
GART	2618	broad.mit.edu	37	chr21	34903839	34903839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcttcaatgacaattgtttCtccagctgccccaaaggctt	9	14	6	12	0	3	1	1	1	2	0	4	1	3	1	3	1	2	3	3	1	3	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr21:34903839C>T	uc002yrx.2	-	6	688	c.553G>A	c.(553-555)GAA>AAA	p.E185K	GART_uc002yrz.2_Missense_Mutation_p.E185K|GART_uc010gmd.2_5'UTR|GART_uc002yry.2_Missense_Mutation_p.E185K|GART_uc002ysa.2_Missense_Mutation_p.E185K	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	185	ATP (By similarity).|ATP-grasp.				'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	ACAATTGTTTCTCCAGCTGCC	0.338													81	83					0	0	0.01441	0	0		T	34903839	T	T	34903839	3	4	2	1	0	0	0	0	1	0	0	0	6258	922	32	4	2551	4	GART	21	34903839	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	3880382	34903839	13226056	449	1878											
MORC3	23515	broad.mit.edu	37	chr21	37741808	37741808	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaaaaagagaattataaAagacagtgtcatatgtttac	19	10	9	3	0	1	2	1	0	0	2	1	5	1	3	0	1	1	1	0	1	8	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr21:37741808A>C	uc002yvi.2	+	15	2218	c.2142A>C	c.(2140-2142)AAA>AAC	p.K714N		NM_015358	NP_056173	Q14149	MORC3_HUMAN	MORC family CW-type zinc finger 3	714	Potential.				cell aging|maintenance of protein location in nucleus|negative regulation of fibroblast proliferation|peptidyl-serine phosphorylation|protein stabilization	aggresome|intermediate filament cytoskeleton|PML body	ATP binding|zinc ion binding			ovary(2)	2						AGAATTATAAAAGACAGTGTC	0.383													4	72					0	0	0.009096	0	0		C	37741808	C	C	37741808	3	2	2	1	0	0	0	0	1	0	0	0	9721	11	1	5	2200	5	MORC3	21	37741808	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	2837969	37741808	10388087	450	1879											
HLCS	3141	broad.mit.edu	37	chr21	38308759	38308759	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgagtacctggcaaagaAcagcttctcccccgcgagtt	9	8	9	15	2	1	2	0	1	1	1	2	3	1	2	4	1	3	4	4	1	3	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr21:38308759A>G	uc010gnb.2	-	4	2187	c.986T>C	c.(985-987)GTT>GCT	p.V329A	HLCS_uc002yvs.2_Missense_Mutation_p.V329A|HLCS_uc010gnc.1_Missense_Mutation_p.V476A	NM_000411	NP_000402	P50747	BPL1_HUMAN	holocarboxylase synthetase	329					cell proliferation|histone biotinylation|response to biotin	chromatin|cytosol|mitochondrion|nuclear lamina|nuclear matrix	ATP binding|biotin binding|biotin-[acetyl-CoA-carboxylase] ligase activity|biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity|biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity|biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity|enzyme binding			ovary(2)|breast(1)|kidney(1)|liver(1)	5		Myeloproliferative disorder(46;0.0422)			Biotin(DB00121)	CTGGCAAAGAACAGCTTCTCC	0.522													3	139					0	0	0.004672	0	0		G	38308759	G	G	38308759	3	3	2	1	0	0	0	0	1	0	0	0	7229	43	2	3	1226	3	HLCS	21	38308759	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08	566951	38308759	9821136	451	1880											
AIRE	326	broad.mit.edu	37	chr21	45713694	45713694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggctcctggtgcgcgttGcggggtgtgcggagatggta	3	10	19	9	4	0	1	0	0	0	1	1	2	1	1	2	6	3	3	2	6	1	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr21:45713694G>A	uc002zei.2	+	11	1428	c.1301G>A	c.(1300-1302)TGC>TAC	p.C434Y	AIRE_uc010gpq.2_RNA|AIRE_uc002zej.2_Missense_Mutation_p.C237Y|AIRE_uc010gpr.2_Missense_Mutation_p.C237Y	NM_000383	NP_000374	O43918	AIRE_HUMAN	autoimmune regulator isoform 1	434	PHD-type 2.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	chromatin binding|histone binding|transcription regulatory region DNA binding|translation regulator activity|zinc ion binding			skin(1)	1				Colorectal(79;0.0806)		GGTGCGCGTTGCGGGGTGTGC	0.706									Autoimmune_PolyEndocrinopathy_Candidiasis_Ectodermal_Dystrophy				15	8					0	0	0.006122	0	0		A	45713694	A	A	45713694	3	1	2	1	0	0	0	0	1	0	0	0	437	1319	46	2	1631	2	AIRE	21	45713694	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	7404935	45713694	2416201	452	1881											
TRPM2	7226	broad.mit.edu	37	chr21	45833885	45833885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttccctgagtggctgaCggtcctcctactctgcctct	3	12	10	16	1	2	2	0	2	2	0	5	2	5	2	5	3	2	1	5	3	1	2	rs138586774		TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr21:45833885C>T	uc002zet.1	+	21	3287	c.3074C>T	c.(3073-3075)ACG>ATG	p.T1025M	TRPM2_uc002zeu.1_Missense_Mutation_p.T1025M|TRPM2_uc002zew.1_Missense_Mutation_p.T1025M|TRPM2_uc010gpt.1_Missense_Mutation_p.T1025M|TRPM2_uc002zex.1_Missense_Mutation_p.T811M|TRPM2_uc002zey.1_Missense_Mutation_p.T538M	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	1025	Extracellular (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GAGTGGCTGACGGTCCTCCTA	0.637													111	69					0	0	0.01441	0	0		T	45833885	T	T	45833885	3	4	2	1	0	0	0	0	1	0	0	0	16612	536	19	1	3152	1	TRPM2	21	45833885	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	120191	45833885	2296010	453	1882											
CECR2	27443	broad.mit.edu	37	chr22	17978449	17978449	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctctgtgtagggcctggAtgcagacagtctccgtgtgg	5	11	16	9	1	2	1	0	0	2	1	3	2	2	2	2	3	2	3	2	3	1	1			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr22:17978449A>G	uc010gqw.1	+	3	413	c.287A>G	c.(286-288)GAT>GGT	p.D96G	CECR2_uc010gqv.1_5'UTR|CECR2_uc002zml.2_5'UTR|CECR2_uc002zmm.1_5'UTR	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	138					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		TAGGGCCTGGATGCAGACAGT	0.483													29	103					0	0	0.009535	0	0		G	17978449	G	G	17978449	3	3	2	1	0	0	0	0	1	0	0	0	3209	333	12	3	299	3	CECR2	22	17978449	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08		17978449	33326117	454	1883											
CABIN1	23523	broad.mit.edu	37	chr22	24472130	24472130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctagggatgtcagagaCgcccatgctcccatcctccc	7	9	8	17	1	1	1	1	0	0	1	5	3	5	2	5	1	1	1	5	1	1	2	rs41310246	by1000genomes	TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr22:24472130C>T	uc002zzi.1	+	19	2772	c.2645C>T	c.(2644-2646)ACG>ATG	p.T882M	CABIN1_uc002zzj.1_Missense_Mutation_p.T832M|CABIN1_uc002zzl.1_Missense_Mutation_p.T882M	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	882					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						ATGTCAGAGACGCCCATGCTC	0.592													19	65					0	0	0.007413	0	0		T	24472130	T	T	24472130	3	4	2	1	0	0	0	0	1	0	0	0	2531	536	19	1	2715	1	CABIN1	22	24472130	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	6493681	24472130	26832436	455	1884											
RIBC2	26150	broad.mit.edu	37	chr22	45828195	45828195	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaatgaagtctatacaaatCaacccacgggagactatttc	15	10	7	9	1	2	3	1	2	1	1	3	4	2	3	1	1	2	0	1	1	7	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chr22:45828195C>T	uc011aqs.1	+	8	1296	c.1087C>T	c.(1087-1089)CAA>TAA	p.Q363*		NM_015653	NP_056468	Q9H4K1	RIBC2_HUMAN	RIB43A domain with coiled-coils 2	295											0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		CTATACAAATCAACCCACGGG	0.328													52	60					0	0	0.01441	0	0		T	45828195	T	T	45828195	4	4	2	1	0	0	0	0	0	1	0	0	13378	827	29	4	1112	4	RIBC2	22	45828195	Nonsense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	21356065	45828195	5476371	456	1885											
KAL1	3730	broad.mit.edu	37	chrX	8555945	8555945	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagaaatattgaatttcgAggaccacttaacctccagct	15	11	6	9	1	0	2	0	1	0	1	2	4	1	3	3	1	2	1	3	1	6	5			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chrX:8555945A>G	uc004csf.2	-	5	766	c.616T>C	c.(616-618)TCG>CCG	p.S206P		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	206	Fibronectin type-III 1.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						TTGAATTTCGAGGACCACTTA	0.443													26	12					0	0	0.027356	0	0		G	8555945	G	G	8555945	3	3	2	1	0	0	0	0	1	0	0	0	7990	304	11	3	1466	3	KAL1	23	8555945	Missense_Mutation	SNP	A	TCGA-B7-5818-01A-11D-1600-08		8555945	146714615	457	1886											
ATXN3L	92552	broad.mit.edu	37	chrX	13337535	13337535	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgcaggagttggtcagcTtcacagtctggcagatcacc	9	10	11	11	0	5	1	3	0	2	1	5	2	5	2	1	3	2	4	1	3	0	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chrX:13337535T>G	uc010ned.2	-	1	984	c.519A>C	c.(517-519)GAA>GAC	p.E173D		NM_001135995	NP_001129467	Q9H3M9	ATX3L_HUMAN	ataxin 3-like	173	Josephin.				protein deubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ubiquitin-specific protease activity			lung(2)|ovary(2)|large_intestine(1)|skin(1)	6						GTTGGTCAGCTTCACAGTCTG	0.363													65	25					0	0	0.01441	0	0		G	13337535	G	G	13337535	3	3	2	1	0	0	0	0	1	0	0	0	1215	1606	56	5	552	5	ATXN3L	23	13337535	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	4781590	13337535	141933025	458	1887											
GPRASP1	9737	broad.mit.edu	37	chrX	101910393	101910393	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctgaggaagagaccattTttgggtcgtggttctgggtc	7	12	16	6	1	1	2	0	1	1	1	3	4	1	3	1	5	0	2	1	5	1	3			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chrX:101910393T>G	uc004ejj.3	+	5	2353	c.1552T>G	c.(1552-1554)TTT>GTT	p.F518V	GPRASP1_uc004eji.3_Missense_Mutation_p.F518V|GPRASP1_uc010nod.2_Missense_Mutation_p.F518V	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	518	Glu-rich.					cytoplasm	protein binding			ovary(1)|lung(1)	2						AGAGACCATTTTTGGGTCGTG	0.507													75	42					0	0	0.01441	0	0		G	101910393	G	G	101910393	3	3	2	1	0	0	0	0	1	0	0	0	6738	1841	64	5	1554	5	GPRASP1	23	101910393	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	88572858	101910393	53360167	459	1888											
IRS4	8471	broad.mit.edu	37	chrX	107978572	107978572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggcagcgggctctgtattCgtctgcacacaaggctctca	7	9	12	13	3	3	0	1	0	3	0	5	0	3	0	0	3	2	5	0	3	2	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chrX:107978572C>T	uc004eoc.2	-	1	1036	c.1003G>A	c.(1003-1005)GAA>AAA	p.E335K		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	335	IRS-type PTB.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						GCTCTGTATTCGTCTGCACAC	0.592													101	39					0	0	0.01441	0	0		T	107978572	T	T	107978572	3	4	2	1	0	0	0	0	1	0	0	0	7858	893	31	1	2774	1	IRS4	23	107978572	Missense_Mutation	SNP	C	TCGA-B7-5818-01A-11D-1600-08	6068179	107978572	47291988	460	1889											
ENOX2	10495	broad.mit.edu	37	chrX	129771267	129771267	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctttgttagggtcatctTctctgtggactttgccttgt	3	20	10	8	0	4	0	1	0	3	0	5	1	4	1	1	2	1	2	1	2	1	6			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chrX:129771267T>G	uc004evw.2	-	12	1752	c.1334A>C	c.(1333-1335)GAA>GCA	p.E445A	ENOX2_uc004evx.2_Missense_Mutation_p.E416A|ENOX2_uc004evy.2_Missense_Mutation_p.E416A|ENOX2_uc004evv.2_Missense_Mutation_p.E270A	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	445	Potential.				cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						AGGGTCATCTTCTCTGTGGAC	0.478													234	90					0	0	0.01441	0	0		G	129771267	G	G	129771267	3	3	2	1	0	0	0	0	1	0	0	0	5135	1783	62	5	518	5	ENOX2	23	129771267	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	21792695	129771267	25499293	461	1890											
USP26	83844	broad.mit.edu	37	chrX	132160981	132160981	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccactggtgtcaggatcaTcagcaaaaacctgtttagga	13	9	9	10	0	3	0	3	0	0	0	3	2	3	2	2	3	2	2	2	3	3	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chrX:132160981T>G	uc010nrm.1	-	6	1738	c.1268A>C	c.(1267-1269)GAT>GCT	p.D423A	USP26_uc011mvf.1_Missense_Mutation_p.D423A	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	423					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					GTCAGGATCATCAGCAAAAAC	0.373													4	224					0	0	0.009096	0	0		G	132160981	G	G	132160981	3	3	2	1	0	0	0	0	1	0	0	0	17083	1435	50	5	1476	5	USP26	23	132160981	Missense_Mutation	SNP	T	TCGA-B7-5818-01A-11D-1600-08	2389714	132160981	23109579	462	1891											
SPANXN4	441525	broad.mit.edu	37	chrX	142121816	142121816	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgtttttttaccagaagaaGaagaatctgcacagagcctc	13	11	8	9	0	1	5	0	0	1	5	2	5	1	5	2	0	3	2	2	0	5	4			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chrX:142121816G>A	uc004fbv.3	+	2	181	c.84G>A	c.(82-84)AAG>AAA	p.K28K		NM_001009613	NP_001009613	Q5MJ08	SPXN4_HUMAN	SPANX family, member N4	28										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					ACCAGAAGAAGAAGAATCTGC	0.403													4	2					0	0	0.009096	0	0		A	142121816	A	A	142121816	2	1	2	1	0	0	0	0	0	0	0	1	15018	933	33	4		4	SPANXN4	23	142121816	Silent	SNP	G	TCGA-B7-5818-01A-11D-1600-08	9960835	142121816	13148744	463	1892											
MAGEA4	4103	broad.mit.edu	37	chrX	151092439	151092439	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccaagcacctcgcctgaCgcagagtccttgttccgaga	8	7	12	14	3	0	3	0	1	0	2	3	4	2	3	5	1	1	3	5	1	1	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chrX:151092439C>T	uc004fez.2	+	3	459	c.303C>T	c.(301-303)GAC>GAT	p.D101D	MAGEA4_uc004ffa.2_Silent_p.D101D|MAGEA4_uc004ffb.2_Silent_p.D101D|MAGEA4_uc004ffc.2_Silent_p.D101D|MAGEA4_uc004ffd.2_Silent_p.D101D	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	101							protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCTCGCCTGACGCAGAGTCCT	0.557													74	29					0	0	0.01441	0	0		T	151092439	T	T	151092439	2	4	2	1	0	0	0	0	0	0	0	1	9186	535	19	1		1	MAGEA4	23	151092439	Silent	SNP	C	TCGA-B7-5818-01A-11D-1600-08	8970623	151092439	4178121	464	1893											
MAGEA3	4102	broad.mit.edu	37	chrX	151935737	151935737	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcacaggaaagaaatactGccaatttccgacgacactcc	15	7	7	12	2	1	1	1	0	0	1	3	5	3	2	3	1	2	0	3	1	4	2			TCGA-B7-5818-01A-11D-1600-08	TCGA-B7-5818-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1146e861-b45e-4c5d-b1dd-c4045349cd1a	c4840f34-7adb-4861-960e-9e5dd9372be6	g.chrX:151935737G>T	uc004fgp.2	-	3	639	c.430C>A	c.(430-432)CAG>AAG	p.Q144K		NM_005362	NP_005353	P43357	MAGA3_HUMAN	melanoma antigen family A, 3	144	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					AAGAAATACTGCCAATTTCCG	0.517													118	47					2.55716e-62	2.71155e-62	0.01441	1	0		T	151935737	T	T	151935737	3	4	2	1	0	0	0	0	1	0	0	0	9185	1328	46	5	518	5	MAGEA3	23	151935737	Missense_Mutation	SNP	G	TCGA-B7-5818-01A-11D-1600-08	843298	151935737	3334823	465	1894											
CA6	765	broad.mit.edu	37	chr1	9027761	9027761	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgacgttcaggacatgctGcccaggaacctccagcacta	10	8	9	14	1	1	1	1	1	0	0	2	3	2	3	3	2	4	3	3	2	2	3	rs151137875		TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr1:9027761G>T	uc001apm.2	+	6	639	c.615G>T	c.(613-615)CTG>CTT	p.L205L	CA6_uc009vmn.2_Silent_p.L145L	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	205					one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)		AGGACATGCTGCCCAGGAACC	0.557													37	74					2.40579e-17	4.59288e-17	0.001287	1	0		T	9027761	T	T	9027761	2	4	3	1	0	0	0	0	0	0	0	1	2524	1306	46	5		5	CA6	1	9027761	Silent	SNP	G	TCGA-BR-4183-01A-02D-1126-08		9027761	240222860	1	1895											
SPTA1	6708	broad.mit.edu	37	chr1	158646014	158646014	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccagatcttctttcatCtcctggatctgaggtgcatc	8	13	9	11	0	5	3	1	1	4	2	7	5	5	4	2	2	1	1	2	2	0	2			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr1:158646014C>A	uc001fst.1	-	8	1228	c.1029G>T	c.(1027-1029)GAG>GAT	p.E343D		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	343	Spectrin 4.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CTTCTTTCATCTCCTGGATCT	0.483													54	204					3.76997e-23	7.27994e-23	0.00361	1	0		A	158646014	A	A	158646014	3	1	3	1	0	0	0	0	1	0	0	0	15141	912	32	5	6410	5	SPTA1	1	158646014	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	149618253	158646014	90604607	2	1896											
TADA1	117143	broad.mit.edu	37	chr1	166829516	166829516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catatttaaaatgaccatctCgtaaccgataagctttcctt	13	14	4	10	2	1	1	0	1	1	0	3	2	2	1	3	0	2	2	3	0	5	7			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr1:166829516C>T	uc001gdw.2	-	6	783	c.599G>A	c.(598-600)CGA>CAA	p.R200Q	TADA1_uc001gdv.2_Missense_Mutation_p.R58Q	NM_053053	NP_444281	Q96BN2	TADA1_HUMAN	transcriptional adaptor 1-like	200					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(1)	1						ATGACCATCTCGTAACCGATA	0.363													11	62					0	0	0.001368	0	0		T	166829516	T	T	166829516	3	4	3	1	0	0	0	0	1	0	0	0	15534	884	31	1	420	1	TADA1	1	166829516	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	8183502	166829516	82421105	3	1897											
CACNA1E	777	broad.mit.edu	37	chr1	181695296	181695296	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacccaacatgccttcgatCgagtgagtcagctgccccct	8	8	9	16	2	1	1	1	1	0	0	3	3	1	1	4	0	4	2	4	0	1	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr1:181695296C>T	uc001gow.2	+	18	2403	c.2238C>T	c.(2236-2238)ATC>ATT	p.I746I	CACNA1E_uc009wxs.2_Silent_p.I653I	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	746	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TGCCTTCGATCGAGTGAGTCA	0.423													6	24					0	0	0.001168	0	0		T	181695296	T	T	181695296	2	4	3	1	0	0	0	0	0	0	0	1	2545	874	31	1		1	CACNA1E	1	181695296	Silent	SNP	C	TCGA-BR-4183-01A-02D-1126-08	14865780	181695296	67555325	4	1898											
CACNA1E	777	broad.mit.edu	37	chr1	181724463	181724463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttcatctttgctgtcatcGcagttcagctcttcaaggga	7	15	9	10	1	6	0	4	0	2	0	7	1	6	1	0	1	2	5	0	1	1	4			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr1:181724463G>A	uc001gow.2	+	28	4084	c.3919G>A	c.(3919-3921)GCA>ACA	p.A1307T	CACNA1E_uc009wxs.2_Missense_Mutation_p.A1195T|CACNA1E_uc001gox.1_Missense_Mutation_p.A533T|CACNA1E_uc009wxt.2_Missense_Mutation_p.A533T	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1307	III.|Helical; Name=S5 of repeat III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TGCTGTCATCGCAGTTCAGCT	0.468													34	144					0	0	0.003271	0	0		A	181724463	A	A	181724463	3	1	3	1	0	0	0	0	1	0	0	0	2545	1087	38	1	4029	1	CACNA1E	1	181724463	Missense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08	29167	181724463	67526158	5	1899											
LRRN2	10446	broad.mit.edu	37	chr1	204587180	204587180	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctgtgccaaggtgggcCgctagcccagctgccaggag	6	6	16	13	1	0	0	0	0	0	0	0	1	0	1	5	4	4	2	5	4	2	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr1:204587180C>T	uc001hbe.1	-	3	2329	c.1941G>A	c.(1939-1941)GCG>GCA	p.A647A	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Silent_p.A647A|LRRN2_uc009xbf.1_Silent_p.A647A|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	647	Helical; (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			CAAGGTGGGCCGCTAGCCCAG	0.662													4	28					0	0	0.000602	0	0		T	204587180	T	T	204587180	2	4	3	1	0	0	0	0	0	0	0	1	9053	639	23	1		1	LRRN2	1	204587180	Silent	SNP	C	TCGA-BR-4183-01A-02D-1126-08	22862717	204587180	44663441	6	1900											
CR1	1378	broad.mit.edu	37	chr1	207680071	207680071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctgtaggtaaatcatgtcGtaatcctccagatcctgtga	10	13	8	10	1	1	2	1	1	0	1	6	2	5	2	4	1	0	3	4	1	4	3	rs56102840		TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr1:207680071G>A	uc001hfy.2	+	3	454	c.314G>A	c.(313-315)CGT>CAT	p.R105H	CR1_uc009xcl.1_Missense_Mutation_p.R105H|CR1_uc001hfx.2_Missense_Mutation_p.R105H|CR1_uc010psg.1_Missense_Mutation_p.R105H|CR1_uc009xcj.1_Missense_Mutation_p.R105H|CR1_uc009xck.1_Missense_Mutation_p.R105H	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	105	Extracellular (Potential).|Sushi 2.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						AAATCATGTCGTAATCCTCCA	0.393													5	75					0	0	0.00308	0	0		A	207680071	A	A	207680071	3	1	3	1	0	0	0	0	1	0	0	0	3843	1145	40	1	324	1	CR1	1	207680071	Missense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08	3092891	207680071	41570550	7	1901											
OR6F1	343169	broad.mit.edu	37	chr1	247875662	247875662	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctactcatgatggctccGtagtgtaaaggatagcagat	12	10	12	7	1	1	2	1	1	0	1	2	3	2	3	1	3	2	5	1	3	5	4			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr1:247875662G>A	uc001idj.1	-	1	396	c.396C>T	c.(394-396)TAC>TAT	p.Y132Y		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	132	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TGATGGCTCCGTAGTGTAAAG	0.557													6	43					0	0	0.001168	0	0		A	247875662	A	A	247875662	2	1	3	1	0	0	0	0	0	0	0	1	11220	1140	40	1		1	OR6F1	1	247875662	Silent	SNP	G	TCGA-BR-4183-01A-02D-1126-08	40195591	247875662	1374959	8	1902											
OR2T12	127064	broad.mit.edu	37	chr1	248457952	248457952	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcctcattttgctggtgtTttaggtttacacacgtcccc	5	15	10	11	1	1	0	1	0	0	0	2	0	2	0	3	3	2	3	3	3	2	6			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr1:248457952T>G	uc010pzj.1	-	1	929	c.929A>C	c.(928-930)AAA>ACA	p.K310T		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			TTGCTGGTGTTTTAGGTTTAC	0.433													24	160					0	0	0.005443	0	0		G	248457952	G	G	248457952	3	3	3	1	0	0	0	0	1	0	0	0	11038	1841	64	5	36	5	OR2T12	1	248457952	Missense_Mutation	SNP	T	TCGA-BR-4183-01A-02D-1126-08	582290	248457952	792669	9	1903											
ALLC	55821	broad.mit.edu	37	chr2	3749215	3749215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acaagtggaaaccactgcttCcagtgaccaaggttcgtgtg	11	9	11	10	1	0	1	0	1	0	0	2	2	1	2	3	2	2	2	3	2	3	2			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr2:3749215C>T	uc010ewt.2	+	11	1125	c.964C>T	c.(964-966)CCA>TCA	p.P322S	ALLC_uc002qyf.2_Missense_Mutation_p.P93S	NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	341							allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)		ACCACTGCTTCCAGTGACCAA	0.488										HNSCC(21;0.051)			5	23					0	0	0.001984	0	0		T	3749215	T	T	3749215	3	4	3	1	0	0	0	0	1	0	0	0	534	855	30	4	1002	4	ALLC	2	3749215	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08		3749215	239450158	10	1904											
FAM179A	165186	broad.mit.edu	37	chr2	29268228	29268228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcgcttgctgggcgagtgCgtttcctgagtggccgtgcg	3	10	17	11	5	0	1	0	1	0	0	1	2	1	1	2	2	4	3	2	2	0	2			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr2:29268228C>T	uc010ezl.2	+	19	3025	c.2674C>T	c.(2674-2676)CGT>TGT	p.R892C	FAM179A_uc010ymm.1_Missense_Mutation_p.R837C|FAM179A_uc002rmr.3_Missense_Mutation_p.R419C|FAM179A_uc002rms.1_Missense_Mutation_p.R190C	NM_199280	NP_954974	Q6ZUX3	F179A_HUMAN	hypothetical protein LOC165186	892							binding			ovary(3)|skin(1)	4						TGGGCGAGTGCGTTTCCTGAG	0.612													18	59					0	0	0.001523	0	0		T	29268228	T	T	29268228	3	4	3	1	0	0	0	0	1	0	0	0	5516	768	27	1	2744	1	FAM179A	2	29268228	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	25519013	29268228	213931145	11	1905											
POLR1A	25885	broad.mit.edu	37	chr2	86308050	86308050	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacagcctgcaagttcacCgtctggccattagtaaacat	12	10	8	11	1	2	1	1	1	1	0	2	1	2	1	3	1	3	3	3	1	4	3			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr2:86308050C>T	uc002sqs.2	-	9	1354	c.975G>A	c.(973-975)ACG>ACA	p.T325T	POLR1A_uc002sqv.2_Silent_p.T325T	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	325					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						GCAAGTTCACCGTCTGGCCAT	0.493													9	88					0	0	0.000673	0	0		T	86308050	T	T	86308050	2	4	3	1	0	0	0	0	0	0	0	1	12228	639	23	1		1	POLR1A	2	86308050	Silent	SNP	C	TCGA-BR-4183-01A-02D-1126-08	57039822	86308050	156891323	12	1906											
TMEM177	80775	broad.mit.edu	37	chr2	120461483	120461483	+	RNA	DEL	A	-	-																															catcctttgttggtttccttAaacttgtccacatctctgta																										TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr2:120461483delA	uc002tme.2	+	13		c.1505delA						Q53S58	TM177_HUMAN	Homo sapiens cDNA FLJ32751 fis, clone TESTI2001621.							integral to membrane				ovary(1)	1	Colorectal(110;0.196)					tggtttccttaaacttgtcca	0.005													2	4	---	---	---	---						.	-	120461483	-	-	120461483	6	5	3	0	1	1	0	1	0	0	0	0	16119	377	13	0		0	TMEM177	2	120461483	RNA	DEL	A	TCGA-BR-4183-01A-02D-1126-08	34153433	120461483	122737890	13	1907											
UGGT1	56886	broad.mit.edu	37	chr2	128922385	128922385	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatcgagtaccagtttttTgaagacagacacaggtatag	15	10	10	6	1	0	4	0	1	0	3	1	5	0	4	1	1	1	3	1	1	5	6			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr2:128922385T>G	uc002tps.2	+	26	3085	c.2907T>G	c.(2905-2907)TTT>TTG	p.F969L	UGGT1_uc010fme.1_Missense_Mutation_p.F844L|UGGT1_uc002tpr.2_Missense_Mutation_p.F945L	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	969					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						ACCAGTTTTTTGAAGACAGAC	0.388													9	35					0	0	0.000443	0	0		G	128922385	G	G	128922385	3	3	3	1	0	0	0	0	1	0	0	0	16967	1809	63	5	3009	5	UGGT1	2	128922385	Missense_Mutation	SNP	T	TCGA-BR-4183-01A-02D-1126-08	8460902	128922385	114276988	14	1908											
TTN	7273	broad.mit.edu	37	chr2	179424587	179424587	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggtcttcctcatttcacTgtcaatatcaaataaaggtt	13	14	5	9	0	5	0	4	0	1	0	6	0	6	0	1	2	0	1	1	2	6	5			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr2:179424587T>C	uc010zfg.1	-	275	78792	c.78568A>G	c.(78568-78570)AGT>GGT	p.S26190G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S19885G|TTN_uc010zfi.1_Missense_Mutation_p.S19818G|TTN_uc010zfj.1_Missense_Mutation_p.S19693G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27117							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTCATTTCACTGTCAATATCA	0.443													16	154					0	0	0.00499	0	0		C	179424587	C	C	179424587	3	2	3	1	0	0	0	0	1	0	0	0	16761	1580	55	3	21855	3	TTN	2	179424587	Missense_Mutation	SNP	T	TCGA-BR-4183-01A-02D-1126-08	50502202	179424587	63774786	15	1909											
RARB	5915	broad.mit.edu	37	chr3	25637920	25637920	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgaaaaggtgcagagcGtgtaattaccttgaaaatgg	13	12	11	5	1	0	3	0	2	0	1	0	3	0	3	1	2	3	2	1	2	6	5			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr3:25637920G>C	uc011awl.1	+	8	1247	c.1181G>C	c.(1180-1182)CGT>CCT	p.R394P	RARB_uc003cdi.1_Missense_Mutation_p.R275P|RARB_uc003cdh.2_Missense_Mutation_p.R387P	NM_016152	NP_057236	P10826	RARB_HUMAN	retinoic acid receptor, beta isoform 2	394	Ligand-binding.				embryonic digestive tract development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	protein binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|large_intestine(1)|pancreas(1)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tamibarotene(DB04942)|Tazarotene(DB00799)	GGTGCAGAGCGTGTAATTACC	0.378													18	95					0	0	0.000958	0	0		C	25637920	C	C	25637920	3	2	3	1	0	0	0	0	1	0	0	0	13078	1145	40	5	1190	5	RARB	3	25637920	Missense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08		25637920	172384510	16	1910											
TRAK1	22906	broad.mit.edu	37	chr3	42264466	42264466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaactccagcttgtggcaGcaccagccacttgaaatcca	11	7	7	16	0	0	1	0	1	0	0	2	1	2	1	5	1	4	3	5	1	2	2			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr3:42264466G>A	uc003cky.2	+	16	2315	c.2099G>A	c.(2098-2100)AGC>AAC	p.S700N	TRAK1_uc011azi.1_Missense_Mutation_p.S679N	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	700					endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						GCTTGTGGCAGCACCAGCCAC	0.557													3	21					0	0	0.000248	0	0		A	42264466	A	A	42264466	3	1	3	1	0	0	0	0	1	0	0	0	16475	971	34	2	2549	2	TRAK1	3	42264466	Missense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08	16626546	42264466	155757964	17	1911											
COL7A1	1294	broad.mit.edu	37	chr3	48629354	48629354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacgccgccattccaacCggtagccacgggcctcaggc	7	6	10	18	4	2	0	2	0	1	0	4	0	3	0	6	3	2	1	6	3	2	2			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr3:48629354C>T	uc003ctz.2	-	10	1335	c.1334G>A	c.(1333-1335)CGG>CAG	p.R445Q		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	445	Nonhelical region (NC1).|Fibronectin type-III 3.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CCATTCCAACCGGTAGCCACG	0.632													7	27					0	0	0.00308	0	0		T	48629354	T	T	48629354	3	4	3	1	0	0	0	0	1	0	0	0	3707	652	23	1	7936	1	COL7A1	3	48629354	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	6364888	48629354	149393076	18	1912											
LAMB2	3913	broad.mit.edu	37	chr3	49159423	49159423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtcagccactgcccccCggatggcaccctgggcaata	7	7	12	15	1	1	0	1	0	0	0	1	1	1	1	5	3	2	2	5	3	2	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr3:49159423C>T	uc003cwe.2	-	29	5176	c.4877G>A	c.(4876-4878)CGG>CAG	p.R1626Q	USP19_uc003cvz.3_5'Flank|USP19_uc011bcg.1_5'Flank|USP19_uc003cwb.2_5'Flank|USP19_uc003cwd.1_5'Flank|USP19_uc011bch.1_5'Flank|USP19_uc011bci.1_5'Flank	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1626	Potential.|Domain I.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity	p.R1626P(1)		ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CACTGCCCCCCGGATGGCACC	0.602													13	31					0	0	0.00499	0	0		T	49159423	T	T	49159423	3	4	3	1	0	0	0	0	1	0	0	0	8627	652	23	1	535	1	LAMB2	3	49159423	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	530069	49159423	148863007	19	1913											
ITIH1	3697	broad.mit.edu	37	chr3	52824909	52824909	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tatgtgctggacagtcatcgGatgtcagcccggacgcacgg	8	8	14	11	4	2	0	2	0	0	0	3	3	2	3	1	4	2	2	1	4	1	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr3:52824909G>A	uc003dfs.2	+	20	2490	c.2466G>A	c.(2464-2466)CGG>CGA	p.R822R	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Silent_p.R423R|ITIH1_uc010hmo.1_Silent_p.R376R|ITIH1_uc003dfu.2_Silent_p.R188R	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	822	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		ACAGTCATCGGATGTCAGCCC	0.632													10	65					0	0	0.001855	0	0		A	52824909	A	A	52824909	2	1	3	1	0	0	0	0	0	0	0	1	7919	1161	41	4		4	ITIH1	3	52824909	Silent	SNP	G	TCGA-BR-4183-01A-02D-1126-08	3665486	52824909	145197521	20	1914											
TP63	8626	broad.mit.edu	37	chr3	189612028	189612028	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaaatccctgagcaatttCgacatgcgatctggaagggc	12	9	11	9	2	1	2	0	2	1	0	3	5	2	3	1	2	2	1	1	2	4	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr3:189612028C>T	uc003fry.2	+	14	1869	c.1780C>T	c.(1780-1782)CGA>TGA	p.R594*	TP63_uc003frz.2_3'UTR|TP63_uc010hzc.1_3'UTR|TP63_uc003fsc.2_Nonsense_Mutation_p.R500*|TP63_uc003fsd.2_3'UTR|TP63_uc010hzd.1_Nonsense_Mutation_p.R415*	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	594	SAM.				anti-apoptosis|cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		TGAGCAATTTCGACATGCGAT	0.532									Hay-Wells_syndrome	HNSCC(45;0.13)			9	50					0	0	0.001368	0	0		T	189612028	T	T	189612028	4	4	3	1	0	0	0	0	0	1	0	0	16418	876	31	1	1999	1	TP63	3	189612028	Nonsense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	136787119	189612028	8410402	21	1915											
PCDHB7	56129	broad.mit.edu	37	chr5	140553745	140553745	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaccgtgctggtctccgaCgtcaatgacaacgctcccgc	9	8	9	15	5	2	1	1	1	1	0	4	2	3	1	3	1	3	2	3	1	3	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr5:140553745C>T	uc003lit.2	+	1	1503	c.1329C>T	c.(1327-1329)GAC>GAT	p.D443D		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	443	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGTCTCCGACGTCAATGACA	0.577													24	134					0	0	0.005443	0	0		T	140553745	T	T	140553745	2	4	3	1	0	0	0	0	0	0	0	1	11566	535	19	1		1	PCDHB7	5	140553745	Silent	SNP	C	TCGA-BR-4183-01A-02D-1126-08		140553745	40361515	22	1916											
STK10	6793	broad.mit.edu	37	chr5	171520875	171520875	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagactggctgggtgccagCggggtggaaggtgactcctc	6	8	18	9	1	0	2	0	2	0	1	2	4	1	3	2	6	2	1	2	6	1	0			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr5:171520875C>T	uc003mbo.1	-	9	1395	c.1095G>A	c.(1093-1095)CCG>CCA	p.P365P		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	365							ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TGGGTGCCAGCGGGGTGGAAG	0.592													4	20					0	0	0.000248	0	0		T	171520875	T	T	171520875	2	4	3	1	0	0	0	0	0	0	0	1	15311	755	27	1		1	STK10	5	171520875	Silent	SNP	C	TCGA-BR-4183-01A-02D-1126-08	30967130	171520875	9394385	23	1917											
RAET1E	135250	broad.mit.edu	37	chr6	150211239	150211239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accagggctgtccaggtctgGacaatgattttatagtgaag	11	11	12	7	0	1	2	0	2	1	0	2	3	2	3	2	3	0	1	2	3	4	3			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr6:150211239G>A	uc003qnl.1	-	2	188	c.128C>T	c.(127-129)TCC>TTC	p.S43F	uc003qni.1_Intron|RAET1E_uc003qnj.2_Missense_Mutation_p.S43F|RAET1E_uc003qnk.1_Intron|RAET1E_uc010kih.1_RNA	NM_139165	NP_631904	Q8TD07	N2DL4_HUMAN	retinoic acid early transcript 1E precursor	43	MHC class I alpha-1 like.|Extracellular (Potential).				antigen processing and presentation|immune response|regulation of immune response	integral to membrane|MHC class I protein complex	protein binding				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.58e-12)		TCCAGGTCTGGACAATGATTT	0.478													7	74					0	0	0.004482	0	0		A	150211239	A	A	150211239	3	1	3	1	0	0	0	0	1	0	0	0	13024	1174	41	4	675	4	RAET1E	6	150211239	Missense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08		150211239	20903828	24	1918											
CRHR2	1395	broad.mit.edu	37	chr7	30695259	30695259	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgacaggtcgtcctccccGggattgacgaagaagagcat	10	8	13	10	3	0	4	0	2	0	2	3	6	2	5	3	2	1	1	3	2	2	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr7:30695259G>A	uc003tbn.2	-	10	1234	c.990C>T	c.(988-990)CCC>CCT	p.P330P	CRHR2_uc010kvw.1_Silent_p.P330P|CRHR2_uc010kvx.1_Silent_p.P329P|CRHR2_uc010kvy.1_Silent_p.P166P|CRHR2_uc003tbo.2_Silent_p.P316P|CRHR2_uc003tbp.2_Silent_p.P357P	NM_001883	NP_001874	Q13324	CRFR2_HUMAN	corticotropin releasing hormone receptor 2	330	Helical; Name=6; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(2)|ovary(1)|skin(1)	4						CGTCCTCCCCGGGATTGACGA	0.602													16	106					0	0	0.00499	0	0		A	30695259	A	A	30695259	2	1	3	1	0	0	0	0	0	0	0	1	3875	1103	39	1		1	CRHR2	7	30695259	Silent	SNP	G	TCGA-BR-4183-01A-02D-1126-08		30695259	128443404	25	1919											
LRRC4	64101	broad.mit.edu	37	chr7	127670639	127670639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgaggtagacgaacgggaGcaggatggcattccaggtgt	10	7	17	7	3	0	2	0	1	0	1	1	5	1	4	1	5	2	3	1	5	2	2			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr7:127670639G>A	uc003vmk.2	-	2	192	c.55C>T	c.(55-57)CTC>TTC	p.L19F	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	19						cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		ACGAACGGGAGCAGGATGGCA	0.602													6	61					0	0	0.001168	0	0		A	127670639	A	A	127670639	3	1	3	1	0	0	0	0	1	0	0	0	9015	971	34	2	1910	2	LRRC4	7	127670639	Missense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08	96975380	127670639	31468024	26	1920											
ATP6V0A4	50617	broad.mit.edu	37	chr7	138447716	138447716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taggaagctttgtttcaaggCctgctggttctggttggctt	5	16	13	7	0	2	0	1	0	1	0	2	1	2	1	1	5	2	6	1	5	3	6			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr7:138447716C>T	uc003vuf.2	-	5	584	c.346G>A	c.(346-348)GCC>ACC	p.A116T	ATP6V0A4_uc003vug.2_Missense_Mutation_p.A116T|ATP6V0A4_uc003vuh.2_Missense_Mutation_p.A116T	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	116	Cytoplasmic (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						TGTTTCAAGGCCTGCTGGTTC	0.443													9	81					0	0	0.004482	0	0		T	138447716	T	T	138447716	3	4	3	1	0	0	0	0	1	0	0	0	1171	739	26	2	2244	2	ATP6V0A4	7	138447716	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	10777077	138447716	20690947	27	1921											
RANBP6	26953	broad.mit.edu	37	chr9	6015394	6015394	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaaagccgtcgtagcagtgCggcagccatttgtctcacct	9	9	10	13	3	1	0	1	0	1	0	3	0	1	0	3	1	4	3	3	1	3	2			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr9:6015394C>T	uc003zjr.2	-	1	225	c.214G>A	c.(214-216)GCA>ACA	p.A72T	RANBP6_uc011lmf.1_Intron|RANBP6_uc003zjs.2_Intron	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	72					protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		CGTAGCAGTGCGGCAGCCATT	0.458													16	80					0	0	0.00499	0	0		T	6015394	T	T	6015394	3	4	3	1	0	0	0	0	1	0	0	0	13056	768	27	1	3107	1	RANBP6	9	6015394	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08		6015394	135198037	28	1922											
KRTAP5-3	387266	broad.mit.edu	37	chr11	1629160	1629160	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggactgggagcagctgggCttgcagcagctggactggca	7	7	17	10	0	0	0	0	0	0	0	0	3	0	3	0	5	5	7	0	5	0	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr11:1629160C>T	uc001ltw.1	-	1	534	c.456G>A	c.(454-456)AAG>AAA	p.K152K		NM_001012708	NP_001012726	Q6L8H2	KRA53_HUMAN	keratin associated protein 5-3	152	5.|11 X 4 AA repeats of C-C-X-P.					keratin filament				ovary(2)	2		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000618)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)		AGCAGCTGGGCTTGCAGCAGC	0.423													9	142					0	0	0.000673	0	0		T	1629160	T	T	1629160	2	4	3	1	0	0	0	0	0	0	0	1	8578	796	28	2		2	KRTAP5-3	11	1629160	Silent	SNP	C	TCGA-BR-4183-01A-02D-1126-08		1629160	133377356	29	1923											
OSBPL5	114879	broad.mit.edu	37	chr11	3114795	3114795	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgctcctccagcggcacCgtgtgctgcctcagcctctg	3	10	11	17	2	3	0	1	0	2	0	5	0	5	0	5	1	5	3	5	1	0	0			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr11:3114795C>T	uc001lxk.2	-	17	2066	c.1908G>A	c.(1906-1908)ACG>ACA	p.T636T	OSBPL5_uc010qxq.1_Silent_p.T547T|OSBPL5_uc009ydw.2_Silent_p.T568T|OSBPL5_uc001lxl.2_Silent_p.T568T|OSBPL5_uc009ydx.2_Silent_p.T660T|OSBPL5_uc001lxj.2_Silent_p.T90T	NM_020896	NP_065947	Q9H0X9	OSBL5_HUMAN	oxysterol-binding protein-like protein 5 isoform	636					cholesterol metabolic process|cholesterol transport|Golgi to plasma membrane transport	cytosol	oxysterol binding|protein binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		CCAGCGGCACCGTGTGCTGCC	0.652													5	30					0	0	0.001168	0	0		T	3114795	T	T	3114795	2	4	3	1	0	0	0	0	0	0	0	1	11299	639	23	1		1	OSBPL5	11	3114795	Silent	SNP	C	TCGA-BR-4183-01A-02D-1126-08	1485635	3114795	131891721	30	1924											
SOX6	55553	broad.mit.edu	37	chr11	16340111	16340111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacactggtcattatctcaCggtcccgactcccttcgtca	8	12	6	15	3	3	0	3	0	1	0	7	1	5	0	2	2	1	0	2	2	2	3			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr11:16340111C>T	uc001mme.2	-	3	398	c.365G>A	c.(364-366)CGT>CAT	p.R122H	SOX6_uc001mmd.2_Missense_Mutation_p.R112H|SOX6_uc001mmf.2_Missense_Mutation_p.R109H|SOX6_uc001mmg.2_Missense_Mutation_p.R109H|SOX6_uc001mmh.1_RNA|SOX6_uc009ygs.2_RNA|SOX6_uc001mmi.3_Missense_Mutation_p.R109H|SOX6_uc001mmj.2_Missense_Mutation_p.R109H	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	109					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						CATTATCTCACGGTCCCGACT	0.453													16	100					0	0	0.006122	0	0		T	16340111	T	T	16340111	3	4	3	1	0	0	0	0	1	0	0	0	14980	536	19	1	2258	1	SOX6	11	16340111	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	13225316	16340111	118666405	31	1925											
OR5R1	219479	broad.mit.edu	37	chr11	56184928	56184928	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagtgatttgatttgggctGtaggtacataaagatcagtg	11	13	14	3	0	1	3	1	2	0	1	1	4	1	4	0	3	1	3	0	3	4	5			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr11:56184928G>T	uc010rji.1	-	1	781	c.781C>A	c.(781-783)CAG>AAG	p.Q261K		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GATTTGGGCTGTAGGTACATA	0.448													15	109					0.000308642	0.000563607	0.003163	1	0		T	56184928	T	T	56184928	3	4	3	1	0	0	0	0	1	0	0	0	11199	1386	48	5	195	5	OR5R1	11	56184928	Missense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08	39844817	56184928	78821588	32	1926											
EHBP1L1	254102	broad.mit.edu	37	chr11	65350742	65350742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccgagtactgatgaccCgtaagacagaaattatagtt	14	9	10	8	2	0	4	0	2	0	2	0	5	0	4	2	1	1	3	2	1	5	5			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr11:65350742C>T	uc001oeo.3	+	9	2864	c.2599C>T	c.(2599-2601)CGT>TGT	p.R867C	EHBP1L1_uc001oep.1_Intron	NM_001099409	NP_001092879	Q8N3D4	EH1L1_HUMAN	tangerin	867	Glu-rich.									central_nervous_system(1)	1						ACTGATGACCCGTAAGACAGA	0.557													9	27					0	0	0.000443	0	0		T	65350742	T	T	65350742	3	4	3	1	0	0	0	0	1	0	0	0	4982	652	23	1	2633	1	EHBP1L1	11	65350742	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	9165814	65350742	69655774	33	1927											
ACSM4	341392	broad.mit.edu	37	chr12	7475048	7475048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctgcggcactgcttgaccGgaggggagccactcaaccca	8	6	13	14	2	2	1	1	1	1	0	2	3	2	3	3	4	4	2	3	4	1	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr12:7475048G>A	uc001qsx.1	+	7	1036	c.1036G>A	c.(1036-1038)GGA>AGA	p.G346R		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	346					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						CTGCTTGACCGGAGGGGAGCC	0.498													4	43					0	0	0.00308	0	0		A	7475048	A	A	7475048	3	1	3	1	0	0	0	0	1	0	0	0	186	1117	39	1	1062	1	ACSM4	12	7475048	Missense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08		7475048	126376847	34	1928											
ADAMTS20	80070	broad.mit.edu	37	chr12	43833818	43833818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattgatttctttttttgacGtacttagaagaaaatttcca	12	18	5	6	1	1	4	0	2	1	2	2	4	2	4	1	0	1	1	1	0	5	8			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr12:43833818G>A	uc010skx.1	-	17	2345	c.2345C>T	c.(2344-2346)ACG>ATG	p.T782M	ADAMTS20_uc001rno.1_5'Flank|ADAMTS20_uc001rnp.1_5'Flank	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	782	Spacer.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TTTTTTTGACGTACTTAGAAG	0.313													3	2					0	0	0.004672	0	0		A	43833818	A	A	43833818	3	1	3	1	0	0	0	0	1	0	0	0	266	1145	40	1	3478	1	ADAMTS20	12	43833818	Missense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08	36358770	43833818	90018077	35	1929											
ANO6	196527	broad.mit.edu	37	chr12	45795715	45795715	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgactccacagacagccacGtccatcacggcctccatcat	10	7	6	18	2	2	2	2	1	0	1	5	2	5	2	5	1	1	0	5	1	0	0			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr12:45795715G>A	uc001roo.2	+	13	1859	c.1524G>A	c.(1522-1524)ACG>ACA	p.T508T	ANO6_uc010sld.1_Silent_p.T508T|ANO6_uc010sle.1_Silent_p.T508T|ANO6_uc010slf.1_Silent_p.T529T|ANO6_uc010slg.1_Silent_p.T490T	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	508	Extracellular (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						AGACAGCCACGTCCATCACGG	0.403													14	144					0	0	0.00278	0	0		A	45795715	A	A	45795715	2	1	3	1	0	0	0	0	0	0	0	1	701	1132	40	1		1	ANO6	12	45795715	Silent	SNP	G	TCGA-BR-4183-01A-02D-1126-08	1961897	45795715	88056180	36	1930											
FRY	10129	broad.mit.edu	37	chr13	32745282	32745282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctgctccgggaagtaaatGatatgcatcacacactcctt	11	11	7	12	1	1	1	1	1	0	0	4	2	4	2	3	1	2	3	3	1	4	3			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr13:32745282G>A	uc001utx.2	+	18	2522	c.2026G>A	c.(2026-2028)GAT>AAT	p.D676N	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	676					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		GGAAGTAAATGATATGCATCA	0.438													14	81					0	0	0.003163	0	0		A	32745282	A	A	32745282	3	1	3	1	0	0	0	0	1	0	0	0	6077	1290	45	4	2096	4	FRY	13	32745282	Missense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08		32745282	82424596	37	1931											
WDHD1	11169	broad.mit.edu	37	chr14	55474071	55474071	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgttgcatttttgtagcAgtggccaactaatagcacat	11	13	8	9	1	0	0	0	0	0	0	1	0	0	0	1	1	4	5	1	1	4	6			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr14:55474071A>C	uc001xbm.1	-	7	605	c.527T>G	c.(526-528)CTG>CGG	p.L176R	WDHD1_uc001xbn.1_Missense_Mutation_p.L53R	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	176						cytoplasm|nucleoplasm	DNA binding			skin(1)	1						TTTTTGTAGCAGTGGCCAACT	0.318													7	40					0	0	0.001984	0	0		C	55474071	C	C	55474071	3	2	3	1	0	0	0	0	1	0	0	0	17297	188	7	5	2942	5	WDHD1	14	55474071	Missense_Mutation	SNP	A	TCGA-BR-4183-01A-02D-1126-08		55474071	51875469	38	1932											
OTX2	5015	broad.mit.edu	37	chr14	57268588	57268588	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagttaaaacccaagcttgaAgctccatatccctgggtgga	12	9	10	10	0	0	1	0	1	0	0	2	3	2	2	3	2	3	3	3	2	5	3			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr14:57268588A>C	uc001xcp.2	-	3	906	c.735T>G	c.(733-735)GCT>GCG	p.A245A	OTX2_uc010aou.2_Silent_p.A245A|OTX2_uc001xcq.2_Silent_p.A253A	NM_172337	NP_758840	P32243	OTX2_HUMAN	orthodenticle homeobox 2 isoform b	245					axon guidance|forebrain development|midbrain development|positive regulation of embryonic development|positive regulation of gastrulation|primitive streak formation|protein complex assembly|regulation of fibroblast growth factor receptor signaling pathway|regulation of smoothened signaling pathway	growth cone|nucleus|protein complex	eukaryotic initiation factor 4E binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding			ovary(1)	1	Medulloblastoma(1;0.00184)|all_neural(1;0.00414)					CCAAGCTTGAAGCTCCATATC	0.493													7	61					0	0	0.00308	0	0		C	57268588	C	C	57268588	2	2	3	1	0	0	0	0	0	0	0	1	11340	59	3	5		5	OTX2	14	57268588	Silent	SNP	A	TCGA-BR-4183-01A-02D-1126-08	1794517	57268588	50080952	39	1933											
SIX6	4990	broad.mit.edu	37	chr14	60976532	60976532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactgcttcaaggagcgcaCgcggcacctgctacgcgagt	9	6	12	14	5	1	0	1	0	0	0	1	2	1	1	1	2	4	4	1	2	2	2			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr14:60976532C>T	uc001xfa.3	+	1	595	c.416C>T	c.(415-417)ACG>ATG	p.T139M		NM_007374	NP_031400	O95475	SIX6_HUMAN	SIX homeobox 6	139	Homeobox.				organ morphogenesis|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.088)		AAGGAGCGCACGCGGCACCTG	0.607													6	28					0	0	0.00308	0	0		T	60976532	T	T	60976532	3	4	3	1	0	0	0	0	1	0	0	0	14376	536	19	1	418	1	SIX6	14	60976532	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	3707944	60976532	46373008	40	1934											
FLRT2	23768	broad.mit.edu	37	chr14	86088177	86088177	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacgaattccccatgaacCttcccaagaatgtcagagtt	12	10	8	11	1	1	3	1	1	0	2	3	5	3	4	4	1	1	1	4	1	4	3	rs117507441	byFrequency	TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr14:86088177C>A	uc001xvr.2	+	2	1086	c.319C>A	c.(319-321)CTT>ATT	p.L107I	FLRT2_uc010atd.2_Missense_Mutation_p.L107I	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	107	Extracellular (Potential).|LRR 2.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		CCCCATGAACCTTCCCAAGAA	0.473													19	107					1.50039e-11	2.8322e-11	0.001882	1	0		A	86088177	A	A	86088177	3	1	3	1	0	0	0	0	1	0	0	0	5953	681	24	5	321	5	FLRT2	14	86088177	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	25111645	86088177	21261363	41	1935											
ATP10A	57194	broad.mit.edu	37	chr15	25972389	25972389	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggttttctttatacagcccGgcctttttcccgttgtcatg	5	17	8	11	2	2	0	1	0	1	0	3	0	3	0	3	2	2	2	3	2	2	8			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr15:25972389G>A	uc010ayu.2	-	4	871	c.765C>T	c.(763-765)GCC>GCT	p.A255A		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	255	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TATACAGCCCGGCCTTTTTCC	0.572													5	62					0	0	0.001984	0	0		A	25972389	A	A	25972389	2	1	3	1	0	0	0	0	0	0	0	1	1117	1103	39	1		1	ATP10A	15	25972389	Silent	SNP	G	TCGA-BR-4183-01A-02D-1126-08		25972389	76559003	42	1936											
CIB2	10518	broad.mit.edu	37	chr15	78398116	78398116	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccttggcaatcatgtcctcGaagtcagcaaagcccagctt	10	9	9	13	1	2	0	2	0	0	0	4	1	3	0	3	1	3	3	3	1	3	2			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr15:78398116G>A	uc002bdb.1	-	5	828	c.507C>T	c.(505-507)TTC>TTT	p.F169F	CIB2_uc002bdc.1_Silent_p.F126F|CIB2_uc010ums.1_Silent_p.F169F	NM_006383	NP_006374	O75838	CIB2_HUMAN	DNA-dependent protein kinase catalytic	169	EF-hand 3.						calcium ion binding				0						TCATGTCCTCGAAGTCAGCAA	0.617													6	50					0	0	0.001984	0	0		A	78398116	A	A	78398116	2	1	3	1	0	0	0	0	0	0	0	1	3424	1049	37	1		1	CIB2	15	78398116	Silent	SNP	G	TCGA-BR-4183-01A-02D-1126-08	52425727	78398116	24133276	43	1937											
BNC1	646	broad.mit.edu	37	chr15	83933367	83933367	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggctagaactcctgtgActgcagctctcgatgaaagc	10	8	13	10	1	1	3	0	2	1	1	3	5	2	4	1	2	4	3	1	2	3	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr15:83933367A>T	uc002bjt.1	-	4	724	c.636T>A	c.(634-636)AGT>AGA	p.S212R	BNC1_uc010uos.1_Missense_Mutation_p.S200R	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	212					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						AACTCCTGTGACTGCAGCTCT	0.463													6	187					0	0	0.001984	0	0		T	83933367	T	T	83933367	3	4	3	1	0	0	0	0	1	0	0	0	1475	272	10	5	2356	5	BNC1	15	83933367	Missense_Mutation	SNP	A	TCGA-BR-4183-01A-02D-1126-08	5535251	83933367	18598025	44	1938											
OR1E1	8387	broad.mit.edu	37	chr17	3301695	3301695	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagatgctggtttgattttGtcccatcatgctctgtctcc	5	17	9	10	0	3	2	1	2	2	1	5	3	4	2	2	1	2	3	2	1	0	3			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr17:3301695G>T	uc002fvj.1	-	1	10	c.10C>A	c.(10-12)CAA>AAA	p.Q4K		NM_003553	NP_003544	P30953	OR1E1_HUMAN	olfactory receptor, family 1, subfamily E,	4	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTTTGATTTTGTCCCATCATG	0.433													9	36					0.000673444	0.00121654	0.000673	1	0		T	3301695	T	T	3301695	3	4	3	1	0	0	0	0	1	0	0	0	10973	1386	48	5	938	5	OR1E1	17	3301695	Missense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08		3301695	77893515	45	1939											
TP53	7157	broad.mit.edu	37	chr17	7578370	7578370	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctccagccccagctgctcaCcatcgctatctgagcagcgc	7	8	8	18	2	3	1	1	1	2	0	5	1	3	1	4	0	5	4	4	0	1	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr17:7578370C>T	uc002gim.2	-	5	753	c.559_splice	c.e5+1	p.G187_splice	TP53_uc002gig.1_Splice_Site_p.G187_splice|TP53_uc002gih.2_Splice_Site_p.G187_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Intron|TP53_uc010cng.1_Intron|TP53_uc002gii.1_Intron|TP53_uc010cnh.1_Splice_Site_p.G187_splice|TP53_uc010cni.1_Splice_Site_p.G187_splice|TP53_uc002gij.2_Splice_Site_p.G187_splice|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Splice_Site_p.G94_splice|TP53_uc002gio.2_Splice_Site_p.G55_splice|TP53_uc010vug.1_Splice_Site_p.G148_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.?(24)|p.0?(7)|p.G187fs*16(2)|p.D186_P191delDGLAPP(1)|p.L188fs*19(1)|p.G187_L188delGL(1)|p.G187fs*22(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CAGCTGCTCACCATCGCTATC	0.632		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			4	15					0	0	0.000248	0	0		T	7578370	T	T	7578370	5	4	3	1	0	0	0	0	0	0	1	0	16407	521	18	4	738	4	TP53	17	7578370	Splice_Site	SNP	C	TCGA-BR-4183-01A-02D-1126-08	4276675	7578370	73616840	46	1940											
MYH2	4620	broad.mit.edu	37	chr17	10428137	10428137	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcagccatgcggttggcatgGttcagctggatttccatttc	6	13	12	10	1	1	0	1	0	0	0	3	1	2	1	2	4	3	5	2	4	0	4			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr17:10428137G>A	uc010coi.2	-	34	5036	c.4908C>T	c.(4906-4908)AAC>AAT	p.N1636N	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.N1636N|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1636	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GGTTGGCATGGTTCAGCTGGA	0.512													22	90					0	0	0.00278	0	0		A	10428137	A	A	10428137	2	1	3	1	0	0	0	0	0	0	0	1	10053	1252	44	4		4	MYH2	17	10428137	Silent	SNP	G	TCGA-BR-4183-01A-02D-1126-08	2849767	10428137	70767073	47	1941											
AMAC1	146861	broad.mit.edu	37	chr17	33520469	33520469	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccacaaccacctcggaatgTaggacagcgcacaccagggc	12	3	11	15	2	0	0	0	0	0	0	1	2	0	2	4	3	2	2	4	3	3	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr17:33520469T>C	uc002hjd.2	-	1	944	c.858A>G	c.(856-858)CTA>CTG	p.L286L		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	286	DUF6 2.|Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		CCTCGGAATGTAGGACAGCGC	0.592													4	142					0	0	0.001168	0	0		C	33520469	C	C	33520469	2	2	3	1	0	0	0	0	0	0	0	1	559	1625	57	3		3	AMAC1	17	33520469	Silent	SNP	T	TCGA-BR-4183-01A-02D-1126-08	23092332	33520469	47674741	48	1942											
MKS1	54903	broad.mit.edu	37	chr17	56293543	56293543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcttcaggatctcctgaCggtactgataatccaaagga	12	9	9	11	1	2	2	1	2	1	0	4	4	3	4	3	3	2	2	3	3	3	3			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr17:56293543C>T	uc002ivr.1	-	4	398	c.323G>A	c.(322-324)CGT>CAT	p.R108H	MKS1_uc010wnq.1_5'UTR|MKS1_uc002ivs.1_Missense_Mutation_p.R108H	NM_017777	NP_060247	Q9NXB0	MKS1_HUMAN	Meckel syndrome type 1 protein isoform 1	108					cilium assembly	centrosome|cilium|microtubule basal body	protein binding			ovary(1)	1						GATCTCCTGACGGTACTGATA	0.423													18	115					0	0	0.000958	0	0		T	56293543	T	T	56293543	3	4	3	1	0	0	0	0	1	0	0	0	9627	536	19	1	1416	1	MKS1	17	56293543	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	22773074	56293543	24901667	49	1943											
MPO	4353	broad.mit.edu	37	chr17	56350133	56350133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggccgtggtccctgctgcGctgcatgttcagagcaggca	6	8	15	12	2	1	1	1	0	0	1	2	2	2	1	2	3	4	6	2	3	0	1	rs142082076		TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr17:56350133G>A	uc002ivu.1	-	10	1945	c.1768C>T	c.(1768-1770)CGC>TGC	p.R590C		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	590					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	TCCCTGCTGCGCTGCATGTTC	0.607													10	64					0	0	0.001368	0	0		A	56350133	A	A	56350133	3	1	3	1	0	0	0	0	1	0	0	0	9750	1087	38	1	481	1	MPO	17	56350133	Missense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08	56590	56350133	24845077	50	1944											
CEP192	55125	broad.mit.edu	37	chr18	13049261	13049261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactactcaagacattcatcCggtggacttaagtgctacta	13	11	7	10	1	2	1	2	0	0	1	3	2	3	2	1	2	4	1	1	2	6	5			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr18:13049261C>T	uc010xac.1	+	16	2551	c.2471C>T	c.(2470-2472)CCG>CTG	p.P824L	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.P349L|CEP192_uc002kru.2_RNA|CEP192_uc002krs.1_Missense_Mutation_p.P565L	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	824										ovary(4)|pancreas(1)	5						GACATTCATCCGGTGGACTTA	0.393													15	129					0	0	0.004007	0	0		T	13049261	T	T	13049261	3	4	3	1	0	0	0	0	1	0	0	0	3254	652	23	1	2529	1	CEP192	18	13049261	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08		13049261	65027987	51	1945											
C19orf21	126353	broad.mit.edu	37	chr19	757262	757262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggatgcccaccagggaCgtccaacatgggcactccgc	9	4	12	16	2	0	0	0	0	0	0	2	2	2	2	5	3	2	1	5	3	1	0			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr19:757262C>T	uc002lpo.2	+	2	399	c.316C>T	c.(316-318)CGT>TGT	p.R106C		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	106										upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCACCAGGGACGTCCAACATG	0.662													4	19					0	0	0.000248	0	0		T	757262	T	T	757262	3	4	3	1	0	0	0	0	1	0	0	0	1916	536	19	1	318	1	C19orf21	19	757262	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08		757262	58371721	52	1946											
RFX2	5990	broad.mit.edu	37	chr19	6026240	6026240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggaggttttcaatcgcCatttcaagctaaagaaaatg	13	14	8	6	1	2	1	2	0	0	1	3	2	2	2	1	2	1	2	1	2	6	6			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr19:6026240C>T	uc002meb.2	-	6	800	c.531G>A	c.(529-531)ATG>ATA	p.M177I	RFX2_uc002mec.2_Intron	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	177					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						TTTCAATCGCCATTTCAAGCT	0.358													4	68					0	0	0.000602	0	0		T	6026240	T	T	6026240	3	4	3	1	0	0	0	0	1	0	0	0	13288	594	21	4	1692	4	RFX2	19	6026240	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	5268978	6026240	53102743	53	1947											
FBN3	84467	broad.mit.edu	37	chr19	8176646	8176646	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctcctgggagacgcattCatccaggtctgcaggagatg	8	9	14	10	1	2	2	1	0	1	2	4	4	4	2	2	3	2	3	2	3	0	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr19:8176646C>A	uc002mjf.2	-	31	3991	c.3970G>T	c.(3970-3972)GAA>TAA	p.E1324*		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1324	EGF-like 20; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GAGACGCATTCATCCAGGTCT	0.632													6	39					8.12818e-05	0.000150059	0.001984	1	0		A	8176646	A	A	8176646	4	1	3	1	0	0	0	0	0	1	0	0	5718	835	29	5	4591	5	FBN3	19	8176646	Nonsense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	2150406	8176646	50952337	54	1948											
ZNF43	7594	broad.mit.edu	37	chr19	21991815	21991815	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccacattcttcacatgtgtAgggtttctctccagtatgaa	9	14	8	10	0	3	1	1	1	2	0	5	1	4	1	2	1	0	3	2	1	3	5			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr19:21991815A>G	uc002nqj.2	-	4	1154	c.1024T>C	c.(1024-1026)TAC>CAC	p.Y342H	ZNF43_uc010ecv.2_Missense_Mutation_p.Y336H|ZNF43_uc002nql.2_Missense_Mutation_p.Y336H|ZNF43_uc002nqm.2_Missense_Mutation_p.Y336H|ZNF43_uc002nqk.2_Missense_Mutation_p.Y272H	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	342	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		TCACATGTGTAGGGTTTCTCT	0.383													8	85					0	0	0.000443	0	0		G	21991815	G	G	21991815	3	3	3	1	0	0	0	0	1	0	0	0	17928	420	15	3	1409	3	ZNF43	19	21991815	Missense_Mutation	SNP	A	TCGA-BR-4183-01A-02D-1126-08	13815169	21991815	37137168	55	1949											
FCGBP	8857	broad.mit.edu	37	chr19	40384037	40384037	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacttaacacgaaacccgcGtcgcactggcagccctccac	10	5	8	18	4	0	0	0	0	0	0	2	1	1	0	3	1	3	3	3	1	2	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr19:40384037G>A	uc002omp.3	-	21	9581	c.9573C>T	c.(9571-9573)GAC>GAT	p.D3191D		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	3191	TIL 7.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CGAAACCCGCGTCGCACTGGC	0.662													5	24					0	0	0.004007	0	0		A	40384037	A	A	40384037	2	1	3	1	0	0	0	0	0	0	0	1	5792	1136	40	1		1	FCGBP	19	40384037	Silent	SNP	G	TCGA-BR-4183-01A-02D-1126-08	18392222	40384037	18744946	56	1950											
PSG8	440533	broad.mit.edu	37	chr19	43258502	43258502	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccagagacttttactgtcAtggatttggagctttccttg	8	16	9	8	0	1	1	1	0	0	1	2	4	2	3	2	2	3	1	2	2	2	6			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr19:43258502A>T	uc002ouo.2	-	5	1324	c.1226T>A	c.(1225-1227)ATG>AAG	p.M409K	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc010eim.2_RNA|PSG8_uc002oui.2_Missense_Mutation_p.M248K|PSG8_uc002ouh.2_Missense_Mutation_p.M409K|PSG8_uc010ein.2_Missense_Mutation_p.M287K|PSG8_uc002ouj.3_Missense_Mutation_p.M191K|PSG8_uc002ouk.3_Missense_Mutation_p.M248K|PSG8_uc002oul.3_Missense_Mutation_p.M409K|PSG8_uc002oum.3_Missense_Mutation_p.M316K|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Missense_Mutation_p.M316K	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	409	Ig-like C2-type 3.					extracellular region					0		Prostate(69;0.00899)				TTTTACTGTCATGGATTTGGA	0.458													66	248					0	0	0.00361	0	0		T	43258502	T	T	43258502	3	4	3	1	0	0	0	0	1	0	0	0	12683	217	8	5	79	5	PSG8	19	43258502	Missense_Mutation	SNP	A	TCGA-BR-4183-01A-02D-1126-08	2874465	43258502	15870481	57	1951											
CACNG6	59285	broad.mit.edu	37	chr19	54502911	54502911	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatctggcagctgcggtgAtagcagtgctgggcctggca	7	9	16	9	1	1	2	0	2	1	0	1	2	1	2	1	4	4	5	1	4	2	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr19:54502911A>G	uc002qct.2	+	3	1020	c.430A>G	c.(430-432)ATA>GTA	p.I144V	CACNG6_uc002qcu.2_Intron|CACNG6_uc002qcv.2_Intron	NM_145814	NP_665813	Q9BXT2	CCG6_HUMAN	voltage-dependent calcium channel gamma-6	144	Helical; (Potential).					voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(2)	2	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.168)		AGCTGCGGTGATAGCAGTGCT	0.557													30	245					0	0	0.001512	0	0		G	54502911	G	G	54502911	3	3	3	1	0	0	0	0	1	0	0	0	2564	333	12	3	440	3	CACNG6	19	54502911	Missense_Mutation	SNP	A	TCGA-BR-4183-01A-02D-1126-08	11244409	54502911	4626072	58	1952											
HNF4A	3172	broad.mit.edu	37	chr20	43019236	43019236	+	Frame_Shift_Del	DEL	A	-	-																															caggagctccctcaaggatgAagaggttgtgcactgtgcgg																										TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr20:43019236delA	uc010zwo.1	+	2	192	c.4delA	c.(4-6)AAGfs	p.K2fs	HNF4A_uc002xlt.2_Intron|HNF4A_uc002xlu.2_Intron|HNF4A_uc002xlv.2_Intron|uc002xlw.1_Intron|uc002xlx.2_Intron			P41235	HNF4A_HUMAN	Homo sapiens NR2A1 mRNA for hepatocyte nuclear factor 4, alpha, complete cds.	Error:Variant_position_missing_in_P41235_after_alignment					blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			CTCAAGGATGAAGAGGTTGTG	0.607													2	4	---	---	---	---						.	-	43019236	-	-	43019236	7	5	3	1	0	1	0	1	0	0	0	0	7269	261	9	0		0	HNF4A	20	43019236	Frame_Shift_Del	DEL	A	TCGA-BR-4183-01A-02D-1126-08		43019236	20006284	59	1953											
DIDO1	11083	broad.mit.edu	37	chr20	61513050	61513050	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataggccacctcttcccgctCggctgcagctgcttcaggag	6	9	11	15	2	2	0	1	0	1	0	4	1	3	1	3	3	3	5	3	3	1	3			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr20:61513050C>T	uc002ydr.1	-	16	4522	c.4258G>A	c.(4258-4260)GAG>AAG	p.E1420K	DIDO1_uc002yds.1_Missense_Mutation_p.E1420K	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1420					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					TCTTCCCGCTCGGCTGCAGCT	0.612													7	96					0	0	0.001368	0	0		T	61513050	T	T	61513050	3	4	3	1	0	0	0	0	1	0	0	0	4528	893	31	1	2468	1	DIDO1	20	61513050	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	18493814	61513050	1512470	60	1954											
UFD1L	7353	broad.mit.edu	37	chr22	19445627	19445627	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgatggacactgccttGtcgggtttggtctccatcac	7	13	10	11	1	3	1	2	1	1	0	5	2	3	2	2	3	1	1	2	3	1	2			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr22:19445627G>A	uc002zpm.2	-	7	661	c.531C>T	c.(529-531)GAC>GAT	p.D177D	UFD1L_uc002zpo.2_Silent_p.D177D|UFD1L_uc011agy.1_Silent_p.D177D|UFD1L_uc002zpp.2_Silent_p.D130D	NM_005659	NP_005650	Q92890	UFD1_HUMAN	ubiquitin fusion degradation 1-like isoform A	177					skeletal system development|ubiquitin-dependent protein catabolic process	cytosol|nucleus	protein binding|ubiquitin-specific protease activity				0	Colorectal(54;0.0993)					ACACTGCCTTGTCGGGTTTGG	0.547													9	53					0	0	0.001855	0	0		A	19445627	A	A	19445627	2	1	3	1	0	0	0	0	0	0	0	1	16961	1368	48	4		4	UFD1L	22	19445627	Silent	SNP	G	TCGA-BR-4183-01A-02D-1126-08		19445627	31858939	61	1955											
PISD	23761	broad.mit.edu	37	chr22	32017095	32017095	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcattcccttcccgggtgAccagctggttcttgaaggag	6	11	12	12	1	2	2	1	2	1	0	4	3	4	3	3	3	1	3	3	3	1	4			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr22:32017095A>G	uc003alm.3	-	6	738	c.731T>C	c.(730-732)GTC>GCC	p.V244A	PISD_uc003alk.2_Missense_Mutation_p.V210A|PISD_uc003all.2_Missense_Mutation_p.V209A|PISD_uc011alr.1_Missense_Mutation_p.V209A|PISD_uc003aln.3_Missense_Mutation_p.V244A	NM_014338	NP_055153	Q9UG56	PISD_HUMAN	phosphatidylserine decarboxylase	244					phospholipid biosynthetic process	mitochondrion	phosphatidylserine decarboxylase activity			central_nervous_system(2)|ovary(1)	3					Phosphatidylserine(DB00144)	TTCCCGGGTGACCAGCTGGTT	0.627											OREG0003530	type=REGULATORY REGION|Gene=PISD|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	7	28					0	0	0.000443	0	0		G	32017095	G	G	32017095	3	3	3	1	0	0	0	0	1	0	0	0	11965	275	10	3	510	3	PISD	22	32017095	Missense_Mutation	SNP	A	TCGA-BR-4183-01A-02D-1126-08	12571468	32017095	19287471	62	1956											
SREBF2	6721	broad.mit.edu	37	chr22	42271622	42271622	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcgaggactttaatcagaAtgtccttctgatgtcccccc	9	12	8	12	1	2	2	1	1	1	1	5	5	4	3	4	1	0	0	4	1	2	3			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chr22:42271622A>G	uc003bbi.2	+	7	1449	c.1280A>G	c.(1279-1281)AAT>AGT	p.N427S	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|SREBF2_uc003bbj.2_RNA	NM_004599	NP_004590	Q12772	SRBP2_HUMAN	sterol regulatory element-binding transcription	427	Interaction with LMNA (By similarity).|Cytoplasmic (Potential).				cholesterol metabolic process	ER to Golgi transport vesicle membrane|Golgi membrane|nucleus|SREBP-SCAP-Insig complex	protein C-terminus binding			breast(2)|ovary(1)|central_nervous_system(1)	4						TTTAATCAGAATGTCCTTCTG	0.532													18	133					0	0	0.006122	0	0		G	42271622	G	G	42271622	3	3	3	1	0	0	0	0	1	0	0	0	15167	101	4	3	1306	3	SREBF2	22	42271622	Missense_Mutation	SNP	A	TCGA-BR-4183-01A-02D-1126-08	10254527	42271622	9032944	63	1957											
MXRA5	25878	broad.mit.edu	37	chrX	3229245	3229245	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgactctgactctcatctcGtccttcccgacctgattttc	5	16	5	15	2	3	3	1	3	3	0	8	4	5	3	3	0	0	0	3	0	0	4			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chrX:3229245G>A	uc004crg.3	-	7	7156	c.6999C>T	c.(6997-6999)GAC>GAT	p.D2333D		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2333	Ig-like C2-type 7.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				CTCTCATCTCGTCCTTCCCGA	0.532													23	102					0	0	0.004656	0	0		A	3229245	A	A	3229245	2	1	3	1	0	0	0	0	0	0	0	1	10021	1136	40	1		1	MXRA5	23	3229245	Silent	SNP	G	TCGA-BR-4183-01A-02D-1126-08		3229245	152041315	64	1958											
SH3KBP1	30011	broad.mit.edu	37	chrX	19725084	19725084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaatgccacctggcacCggcgcctccgtcgctcgcct	5	7	11	18	5	0	1	0	1	0	0	3	1	1	1	6	2	2	3	6	2	1	0			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chrX:19725084C>T	uc004czm.2	-	4	621	c.305G>A	c.(304-306)CGG>CAG	p.R102Q	SH3KBP1_uc004czl.2_Missense_Mutation_p.R65Q	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	102	SH3 2.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						CACCTGGCACCGGCGCCTCCG	0.532													5	21					0	0	0.001168	0	0		T	19725084	T	T	19725084	3	4	3	1	0	0	0	0	1	0	0	0	14280	652	23	1	1768	1	SH3KBP1	23	19725084	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	16495839	19725084	135545476	65	1959											
MAGEE2	139599	broad.mit.edu	37	chrX	75004861	75004861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctctgcgctacagtggCgtgcattctggcttaccaga	7	12	11	11	2	2	2	0	1	2	1	3	2	2	2	1	2	4	3	1	2	2	3			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chrX:75004861C>T	uc004ecj.1	-	1	211	c.26G>A	c.(25-27)CGC>CAC	p.R9H		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	9										ovary(1)|skin(1)	2						GCTACAGTGGCGTGCATTCTG	0.572													4	33					0	0	0.000248	0	0		T	75004861	T	T	75004861	3	4	3	1	0	0	0	0	1	0	0	0	9204	768	27	1	1549	1	MAGEE2	23	75004861	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	55279777	75004861	80265699	66	1960											
BRWD3	254065	broad.mit.edu	37	chrX	79975125	79975125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttggtcattggtttgctgcCcaattacctgttctactacc	6	16	7	12	0	2	0	1	0	1	0	2	0	2	0	3	2	5	3	3	2	4	7			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chrX:79975125C>T	uc004edt.2	-	18	2170	c.1907G>A	c.(1906-1908)GGG>GAG	p.G636E	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.G232E|BRWD3_uc004edp.2_Missense_Mutation_p.G465E|BRWD3_uc004edq.2_Missense_Mutation_p.G232E|BRWD3_uc010nmj.1_Missense_Mutation_p.G232E|BRWD3_uc004edr.2_Missense_Mutation_p.G306E|BRWD3_uc004eds.2_Missense_Mutation_p.G232E|BRWD3_uc004edu.2_Missense_Mutation_p.G306E|BRWD3_uc004edv.2_Missense_Mutation_p.G232E|BRWD3_uc004edw.2_Missense_Mutation_p.G232E|BRWD3_uc004edx.2_Missense_Mutation_p.G232E|BRWD3_uc004edy.2_Missense_Mutation_p.G232E|BRWD3_uc004edz.2_Missense_Mutation_p.G306E|BRWD3_uc004eea.2_Missense_Mutation_p.G306E|BRWD3_uc004eeb.2_Missense_Mutation_p.G232E	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	636										ovary(4)	4						GGTTTGCTGCCCAATTACCTG	0.373													9	107					0	0	0.000443	0	0		T	79975125	T	T	79975125	3	4	3	1	0	0	0	0	1	0	0	0	1529	623	22	4	3597	4	BRWD3	23	79975125	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	4970264	79975125	75295435	67	1961											
NAP1L3	4675	broad.mit.edu	37	chrX	92926799	92926799	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacttattttctgtatttcTtgtttccataatgtttgcca	7	22	5	7	0	2	1	0	1	2	0	3	1	3	1	2	0	1	3	2	0	3	9			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chrX:92926799T>G	uc004efq.2	-	1	1810	c.1505A>C	c.(1504-1506)AAG>ACG	p.K502T	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	502					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						TCTGTATTTCTTGTTTCCATA	0.318													8	40					0	0	0.004482	0	0		G	92926799	G	G	92926799	3	3	3	1	0	0	0	0	1	0	0	0	10176	1609	56	5	19	5	NAP1L3	23	92926799	Missense_Mutation	SNP	T	TCGA-BR-4183-01A-02D-1126-08	12951674	92926799	62343761	68	1962											
LAMP2	3920	broad.mit.edu	37	chrX	119575715	119575715	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaacttcccaggggggcatcCcagtagctgagattgttatt	9	11	12	9	0	0	1	0	1	0	1	2	3	2	1	2	3	2	4	2	3	3	5			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chrX:119575715C>G	uc004est.3	-	8	1143	c.963G>C	c.(961-963)TGG>TGC	p.W321C	LAMP2_uc004ess.3_Missense_Mutation_p.W321C|LAMP2_uc011mtz.1_Missense_Mutation_p.W210C|LAMP2_uc011mua.1_Missense_Mutation_p.W274C|LAMP2_uc010nqp.1_Missense_Mutation_p.W321C	NM_002294	NP_002285	P13473	LAMP2_HUMAN	lysosomal-associated membrane protein 2 isoform	321	Lumenal (Potential).|Second lumenal domain.		W -> R (in DAND).		platelet activation|platelet degranulation	endosome membrane|integral to membrane|late endosome|lysosomal membrane|membrane fraction|plasma membrane|platelet dense granule membrane				ovary(1)	1						GGGGGGCATCCCAGTAGCTGA	0.378													16	93					0	0	0.004007	0	0		G	119575715	G	G	119575715	3	3	3	1	0	0	0	0	1	0	0	0	8634	624	22	5	568	5	LAMP2	23	119575715	Missense_Mutation	SNP	C	TCGA-BR-4183-01A-02D-1126-08	26648916	119575715	35694845	69	1963											
FRMD7	90167	broad.mit.edu	37	chrX	131212786	131212786	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagtgttaaagacagggTccatataaataaaagggaaa	18	8	10	5	0	1	1	1	0	0	1	2	2	2	2	1	2	0	2	1	2	8	4			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chrX:131212786T>C	uc004ewn.2	-	12	1437	c.1259A>G	c.(1258-1260)GAC>GGC	p.D420G	FRMD7_uc011muy.1_Missense_Mutation_p.D405G	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	420					regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					AAAGACAGGGTCCATATAAAT	0.383													25	180					0	0	0.004656	0	0		C	131212786	C	C	131212786	3	2	3	1	0	0	0	0	1	0	0	0	6069	1667	58	3	889	3	FRMD7	23	131212786	Missense_Mutation	SNP	T	TCGA-BR-4183-01A-02D-1126-08	11637071	131212786	24057774	70	1964											
ARHGEF6	9459	broad.mit.edu	37	chrX	135764986	135764986	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acatttgaaaataacataagGtaccgctcctctttttcctg	12	14	5	10	1	1	1	0	1	1	0	3	1	3	1	3	1	2	2	3	1	5	6			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chrX:135764986G>T	uc004fab.2	-	13	1872	c.1410C>A	c.(1408-1410)TAC>TAA	p.Y470*	ARHGEF6_uc011mwd.1_Nonsense_Mutation_p.Y343*|ARHGEF6_uc011mwe.1_Nonsense_Mutation_p.Y316*	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	470	PH.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					ATAACATAAGGTACCGCTCCT	0.353													4	60					8.12818e-05	0.000150059	0.001984	1	0		T	135764986	T	T	135764986	4	4	3	1	0	0	0	0	0	1	0	0	910	1256	44	5	960	5	ARHGEF6	23	135764986	Nonsense_Mutation	SNP	G	TCGA-BR-4183-01A-02D-1126-08	4552200	135764986	19505574	71	1965											
IDS	3423	broad.mit.edu	37	chrX	148568478	148568478	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctccatcaactgtgaggcGgaatcaaaagggtcgaggta	12	7	14	8	2	2	1	2	1	0	0	4	3	3	2	1	5	1	2	1	5	5	1			TCGA-BR-4183-01A-02D-1126-08	TCGA-BR-4183-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	08e915c4-e7ca-40b9-9175-8967169c7019	f03b244a-cd1c-4101-b0fe-2ced7638bb2a	g.chrX:148568478G>A	uc011mxe.1	-	8	1356	c.1158C>T	c.(1156-1158)TCC>TCT	p.S386S	IDS_uc011mxd.1_Intron|IDS_uc011mxf.1_Silent_p.S296S|IDS_uc011mxg.1_Silent_p.S175S|IDS_uc010nsu.1_5'UTR|IDS_uc004fcw.3_Silent_p.S175S	NM_000202	NP_000193	P22304	IDS_HUMAN	iduronate-2-sulfatase isoform a precursor	386						lysosome	iduronate-2-sulfatase activity|metal ion binding				0	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					ACTGTGAGGCGGAATCAAAAG	0.433													7	73					0	0	0.001984	0	0		A	148568478	A	A	148568478	2	1	3	1	0	0	0	0	0	0	0	1	7519	1103	39	1		1	IDS	23	148568478	Silent	SNP	G	TCGA-BR-4183-01A-02D-1126-08	12803492	148568478	6702082	72	1966											
NOC2L	26155	broad.mit.edu	37	chr1	883877	883877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccagcctcacccggtacGccttctcctgcaggttgaca	7	8	10	16	2	2	1	1	1	1	0	3	1	2	1	5	3	3	3	5	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:883877G>A	uc001abz.3	-	13	1609	c.1550C>T	c.(1549-1551)GCG>GTG	p.A517V	NOC2L_uc001aby.3_Missense_Mutation_p.A314V|NOC2L_uc009vjq.2_Missense_Mutation_p.A517V	NM_015658	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog	517						nucleolus	protein binding			ovary(1)|skin(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.86e-38)|OV - Ovarian serous cystadenocarcinoma(86;6.08e-23)|Colorectal(212;0.000161)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(365;0.000475)|Kidney(185;0.00231)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		CACCCGGTACGCCTTCTCCTG	0.632													5	22					0	0	0.000602	0	0		A	883877	A	A	883877	3	1	4	1	0	0	0	0	1	0	0	0	10532	1087	38	1	727	1	NOC2L	1	883877	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08		883877	248366744	1	1967											
KLHL17	339451	broad.mit.edu	37	chr1	897043	897043	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccgccagacccacgtgacGctgcacgacatcgaccctca	10	4	9	18	5	1	2	1	1	0	1	2	4	1	2	4	0	2	2	4	0	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:897043G>A	uc001aca.1	+	3	509	c.402G>A	c.(400-402)ACG>ACA	p.T134T	NOC2L_uc001abz.3_5'Flank|NOC2L_uc009vjq.2_5'Flank|NOC2L_uc009vjr.1_5'Flank|KLHL17_uc001acb.1_Silent_p.T10T|KLHL17_uc010nya.1_Silent_p.T10T|KLHL17_uc001acc.1_5'Flank|KLHL17_uc010nyb.1_5'Flank	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	134	BTB.				actin cytoskeleton organization	actin cytoskeleton|cell junction|postsynaptic density|postsynaptic membrane	protein complex scaffold				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.52e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.59e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000469)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CCCACGTGACGCTGCACGACA	0.667													4	11					0	0	0.000602	0	0		A	897043	A	A	897043	2	1	4	1	0	0	0	0	0	0	0	1	8388	1074	38	1		1	KLHL17	1	897043	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	13166	897043	248353578	2	1968											
NADK	65220	broad.mit.edu	37	chr1	1693452	1693452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaagtggtcaccgggcatgGcccatgaagagagcgtgtcc	11	6	14	10	2	1	2	1	1	0	1	2	3	2	2	3	3	1	1	3	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:1693452G>A	uc009vkw.2	-	3	323	c.202C>T	c.(202-204)CCA>TCA	p.P68S	NADK_uc001aic.2_Missense_Mutation_p.P68S|NADK_uc001aid.3_Missense_Mutation_p.P68S|NADK_uc001aie.2_Missense_Mutation_p.P68S|NADK_uc009vkx.1_5'UTR	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	68					ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)		ACCGGGCATGGCCCATGAAGA	0.602													4	28					0	0	0.001168	0	0		A	1693452	A	A	1693452	3	1	4	1	0	0	0	0	1	0	0	0	10155	1203	42	2	1178	2	NADK	1	1693452	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	796409	1693452	247557169	3	1969											
MMEL1	79258	broad.mit.edu	37	chr1	2527522	2527522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtctccacaaacactgtccGcaccttgtcaatgagttctc	9	11	6	15	2	3	1	1	1	2	0	6	1	4	1	3	0	1	2	3	0	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:2527522G>A	uc001ajy.2	-	15	1640	c.1426C>T	c.(1426-1428)CGG>TGG	p.R476W	MMEL1_uc009vlg.1_RNA	NM_033467	NP_258428	Q495T6	MMEL1_HUMAN	membrane metallo-endopeptidase-like 1	476	Lumenal (Potential).				proteolysis	extracellular region|integral to membrane|intracellular membrane-bounded organelle	metal ion binding|metalloendopeptidase activity				0	all_cancers(77;0.000233)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.03e-20)|all_lung(118;5.15e-09)|Lung NSC(185;9.02e-07)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;8.52e-23)|GBM - Glioblastoma multiforme(42;1.49e-08)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;0.000213)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00219)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.131)		AACACTGTCCGCACCTTGTCA	0.597													32	84					0	0	0.007835	0	0		A	2527522	A	A	2527522	3	1	4	1	0	0	0	0	1	0	0	0	9664	1086	38	1	953	1	MMEL1	1	2527522	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	834070	2527522	246723099	4	1970											
WDR8	49856	broad.mit.edu	37	chr1	3551635	3551635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcacgtgattaaggatgcGcacctgaggaaggaaaccat	14	7	12	8	2	1	2	1	2	0	0	1	5	1	5	2	3	2	1	2	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:3551635G>A	uc001ako.2	-	8	850	c.742C>T	c.(742-744)CGC>TGC	p.R248C	WDR8_uc001akn.3_Missense_Mutation_p.R248C|WDR8_uc010nzi.1_3'UTR	NM_017818	NP_060288	Q9P2S5	WRP73_HUMAN	WD repeat domain 8	248	WD 4.					centrosome	protein binding				0	all_cancers(77;0.0128)|all_epithelial(69;0.00526)|Ovarian(185;0.0634)|Lung NSC(156;0.162)|all_lung(157;0.172)	all_epithelial(116;7.37e-22)|all_lung(118;8.23e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;4.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;4.16e-22)|GBM - Glioblastoma multiforme(42;1.05e-14)|Colorectal(212;1.19e-05)|BRCA - Breast invasive adenocarcinoma(365;2.67e-05)|COAD - Colon adenocarcinoma(227;5.82e-05)|Kidney(185;0.000364)|KIRC - Kidney renal clear cell carcinoma(229;0.00223)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		TTAAGGATGCGCACCTGAGGA	0.547													8	114					0	0	0.00308	0	0		A	3551635	A	A	3551635	3	1	4	1	0	0	0	0	1	0	0	0	17355	1087	38	1	660	1	WDR8	1	3551635	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1024113	3551635	245698986	5	1971											
TP73	7161	broad.mit.edu	37	chr1	3624161	3624161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccagatgagcagccgcGcggcctcggccagcccctac	7	4	13	17	4	0	2	0	1	0	1	1	3	0	3	6	3	4	1	6	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:3624161G>A	uc001akp.2	+	4	345	c.235G>A	c.(235-237)GCG>ACG	p.A79T	TP73_uc001akq.2_Missense_Mutation_p.A79T|TP73_uc010nzj.1_Missense_Mutation_p.A30T|TP73_uc001akr.2_Missense_Mutation_p.A30T|TP73_uc009vlk.1_Missense_Mutation_p.A30T|TP73_uc001aks.2_Missense_Mutation_p.A30T|TP73_uc009vll.2_Missense_Mutation_p.A8T|TP73_uc010nzk.1_Missense_Mutation_p.A8T	NM_005427	NP_005418	O15350	P73_HUMAN	tumor protein p73 isoform a	79					cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mismatch repair|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of JUN kinase activity|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|protein tetramerization|response to gamma radiation|response to X-ray	chromatin|cytosol|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|metal ion binding|p53 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|transcription repressor activity			ovary(1)|lung(1)	2	all_cancers(77;0.0395)|Ovarian(185;0.0634)|Lung NSC(156;0.188)|all_lung(157;0.198)	all_epithelial(116;7.42e-17)|all_lung(118;1.86e-06)|Lung NSC(185;0.000163)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.109)|Ovarian(437;0.127)		Epithelial(90;5.57e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.87e-22)|GBM - Glioblastoma multiforme(42;5.72e-16)|Colorectal(212;2.22e-05)|COAD - Colon adenocarcinoma(227;8.48e-05)|Kidney(185;0.000539)|BRCA - Breast invasive adenocarcinoma(365;0.000868)|STAD - Stomach adenocarcinoma(132;0.0072)|KIRC - Kidney renal clear cell carcinoma(229;0.00751)|Lung(427;0.226)		GAGCAGCCGCGCGGCCTCGGC	0.677													6	32					0	0	0.000978	0	0		A	3624161	A	A	3624161	3	1	4	1	0	0	0	0	1	0	0	0	16419	1087	38	1	288	1	TP73	1	3624161	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	72526	3624161	245626460	6	1972											
KIAA0562	9731	broad.mit.edu	37	chr1	3756275	3756275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaattttcgtatgatctgtGcaacttctggatcttggtac	8	17	8	8	1	3	1	0	1	3	0	4	2	3	2	0	2	3	3	0	2	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:3756275G>A	uc001aky.2	-	7	991	c.632C>T	c.(631-633)GCA>GTA	p.A211V	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Missense_Mutation_p.A211V	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	211	Potential.					centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		TATGATCTGTGCAACTTCTGG	0.358													5	114					0	0	0.000602	0	0		A	3756275	A	A	3756275	3	1	4	1	0	0	0	0	1	0	0	0	8200	1319	46	2	2209	2	KIAA0562	1	3756275	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	132114	3756275	245494346	7	1973											
KIAA0562	9731	broad.mit.edu	37	chr1	3768869	3768869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcctcacctaggtgaccGccacccactgacagttggcg	8	7	10	16	2	1	2	1	2	0	0	2	2	2	2	5	2	0	1	5	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:3768869G>A	uc001aky.2	-	2	462	c.103C>T	c.(103-105)CGG>TGG	p.R35W	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Missense_Mutation_p.R35W	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	35						centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		CTAGGTGACCGCCACCCACTG	0.622													5	14					0	0	0.001168	0	0		A	3768869	A	A	3768869	3	1	4	1	0	0	0	0	1	0	0	0	8200	1086	38	1	2758	1	KIAA0562	1	3768869	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12594	3768869	245481752	8	1974											
RNF207	388591	broad.mit.edu	37	chr1	6278394	6278394	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagagagtctacagaacacGcacgacgacagcaggaacaa	17	3	10	11	3	2	2	1	0	1	2	2	6	2	3	0	1	4	2	0	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:6278394G>A	uc001amg.2	+	17	1872	c.1698G>A	c.(1696-1698)ACG>ACA	p.T566T	RNF207_uc010nzp.1_RNA	NM_207396	NP_997279	Q6ZRF8	RN207_HUMAN	ring finger protein 207	566						intracellular	zinc ion binding				0	Ovarian(185;0.0634)	all_cancers(23;1.22e-38)|all_epithelial(116;4.25e-22)|all_lung(118;7.95e-08)|Lung NSC(185;1.6e-06)|all_neural(13;3.18e-06)|all_hematologic(16;8.99e-06)|Acute lymphoblastic leukemia(12;0.000365)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00104)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)|Medulloblastoma(700;0.211)		Epithelial(90;4.84e-38)|GBM - Glioblastoma multiforme(13;5.77e-32)|OV - Ovarian serous cystadenocarcinoma(86;2.88e-19)|Colorectal(212;6.9e-08)|COAD - Colon adenocarcinoma(227;8.13e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.00311)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.182)		TACAGAACACGCACGACGACA	0.592													11	31					0	0	0.000978	0	0		A	6278394	A	A	6278394	2	1	4	1	0	0	0	0	0	0	0	1	13499	1074	38	1		1	RNF207	1	6278394	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2509525	6278394	242972227	9	1975											
GPR153	387509	broad.mit.edu	37	chr1	6311422	6311422	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctgactcctcgtcgttggCcatgagggccatgcacttct	5	12	11	13	2	2	2	0	2	2	0	5	2	3	2	3	2	1	2	3	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:6311422C>A	uc001amp.1	-	4	1215	c.955G>T	c.(955-957)GCC>TCC	p.A319S	GPR153_uc001amo.1_5'Flank	NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	319	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		TCGTCGTTGGCCATGAGGGCC	0.637													17	34					1.28384e-07	1.3685e-07	0.001882	1	0		A	6311422	A	A	6311422	3	1	4	1	0	0	0	0	1	0	0	0	6674	739	26	5	886	5	GPR153	1	6311422	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	33028	6311422	242939199	10	1976											
ZBTB48	3104	broad.mit.edu	37	chr1	6642155	6642155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtggaggatgatggggatgGcgattacatgtctgagcctg	9	10	17	5	1	1	2	0	2	1	0	1	6	1	5	1	5	2	0	1	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:6642155G>A	uc009vmc.1	+	3	851	c.728G>A	c.(727-729)GGC>GAC	p.G243D	ZBTB48_uc001anx.2_Missense_Mutation_p.G243D|ZBTB48_uc009vmd.1_Missense_Mutation_p.G243D	NM_005341	NP_005332	P10074	ZBT48_HUMAN	zinc finger and BTB domain containing 48	243						cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.35e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00109)|STAD - Stomach adenocarcinoma(132;0.017)|READ - Rectum adenocarcinoma(331;0.0642)		GATGGGGATGGCGATTACATG	0.567													14	35					0	0	0.00245	0	0		A	6642155	A	A	6642155	3	1	4	1	0	0	0	0	1	0	0	0	17574	1203	42	2	734	2	ZBTB48	1	6642155	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	330733	6642155	242608466	11	1977											
PHF13	148479	broad.mit.edu	37	chr1	6680350	6680350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggaaagcaggtggtgttccGagatgaggacagcactggca	11	6	17	7	1	0	2	0	1	0	1	1	5	1	4	1	5	2	4	1	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:6680350G>A	uc001aob.3	+	3	1000	c.629G>A	c.(628-630)CGA>CAA	p.R210Q		NM_153812	NP_722519	Q86YI8	PHF13_HUMAN	PHD finger protein 13	210					cell division|chromatin modification|mitotic chromosome condensation	nucleoplasm	chromatin binding|methylated histone residue binding|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;1.46e-33)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.19e-07)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000501)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|STAD - Stomach adenocarcinoma(132;0.0165)|READ - Rectum adenocarcinoma(331;0.0642)		GTGGTGTTCCGAGATGAGGAC	0.507													4	18					0	0	0.009096	0	0		A	6680350	A	A	6680350	3	1	4	1	0	0	0	0	1	0	0	0	11843	1058	37	1	639	1	PHF13	1	6680350	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	38195	6680350	242570271	12	1978											
CAMTA1	23261	broad.mit.edu	37	chr1	7700554	7700554	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgctccatcaacaccgAcaagaaggagtgggcgaaat	13	6	10	12	2	2	1	1	0	1	1	3	4	3	2	3	2	2	1	3	2	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:7700554A>C	uc001aoi.2	+	7	812	c.605A>C	c.(604-606)GAC>GCC	p.D202A		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	202					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		ATCAACACCGACAAGAAGGAG	0.627													19	38					0	0	0.003954	0	0		C	7700554	C	C	7700554	3	2	4	1	0	0	0	0	1	0	0	0	2616	275	10	5	631	5	CAMTA1	1	7700554	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1020204	7700554	241550067	13	1979											
CAMTA1	23261	broad.mit.edu	37	chr1	7797322	7797322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtcttctagatgtgggCgtgtgccctagggcacttgg	4	12	14	11	1	2	1	0	0	2	1	2	1	2	1	2	3	1	1	2	3	2	4	rs149702154		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:7797322C>T	uc001aoi.2	+	15	3557	c.3350C>T	c.(3349-3351)GCG>GTG	p.A1117V	CAMTA1_uc010nzv.1_Missense_Mutation_p.A204V|CAMTA1_uc001aok.3_Missense_Mutation_p.A160V|CAMTA1_uc001aoj.2_Missense_Mutation_p.A73V	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1117	ANK 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		TAGATGTGGGCGTGTGCCCTA	0.547													5	88					0	0	0.001984	0	0		T	7797322	T	T	7797322	3	4	4	1	0	0	0	0	1	0	0	0	2616	768	27	1	3408	1	CAMTA1	1	7797322	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	96768	7797322	241453299	14	1980											
TNFRSF9	3604	broad.mit.edu	37	chr1	7993308	7993308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaacagcaggaagagcaacGcagtcgacgtcagcgcaaga	16	2	13	10	4	1	3	1	0	0	3	2	5	1	4	0	1	5	4	0	1	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:7993308G>A	uc001aot.2	-	7	721	c.593C>T	c.(592-594)GCG>GTG	p.A198V		NM_001561	NP_001552	Q07011	TNR9_HUMAN	tumor necrosis factor receptor superfamily,	198	Helical; (Potential).				induction of apoptosis|negative regulation of cell proliferation	integral to plasma membrane	binding|receptor activity			large_intestine(1)|lung(1)|ovary(1)|skin(1)	4	Ovarian(185;0.0634)|all_lung(157;0.151)	all_epithelial(116;9.63e-21)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.000625)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.93e-71)|GBM - Glioblastoma multiforme(8;3.72e-37)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;7.71e-06)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000419)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00103)|READ - Rectum adenocarcinoma(331;0.0649)		GAAGAGCAACGCAGTCGACGT	0.448													4	32					0	0	0.000602	0	0		A	7993308	A	A	7993308	3	1	4	1	0	0	0	0	1	0	0	0	16325	1087	38	1	182	1	TNFRSF9	1	7993308	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	195986	7993308	241257313	15	1981											
RERE	473	broad.mit.edu	37	chr1	8425885	8425885	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcacagaattcactggaCgggggtctggagggtgtgtt	8	11	15	7	1	3	1	2	0	1	1	3	3	3	3	0	5	1	1	0	5	2	3	rs139440766		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:8425885C>T	uc001ape.2	-	14	2244	c.1434G>A	c.(1432-1434)CCG>CCA	p.P478P	RERE_uc001apf.2_Silent_p.P478P|RERE_uc010nzx.1_Silent_p.P210P|RERE_uc001apd.2_5'UTR	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	478					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		ATTCACTGGACGGGGGTCTGG	0.637													14	28					0	0	0.00245	0	0		T	8425885	T	T	8425885	2	4	4	1	0	0	0	0	0	0	0	1	13256	523	19	1		1	RERE	1	8425885	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	432577	8425885	240824736	16	1982											
CA6	765	broad.mit.edu	37	chr1	9005999	9005999	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgggtggccaggcccaGcatgtgtctgactggaccta	6	9	14	12	0	1	1	0	1	1	0	1	2	1	2	3	4	2	2	3	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:9005999G>A	uc001apm.2	+	1	78	c.54G>A	c.(52-54)CAG>CAA	p.Q18Q	CA6_uc009vmn.2_Silent_p.Q18Q	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	18					one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)		GCCAGGCCCAGCATGTGTCTG	0.547													6	33					0	0	0.001984	0	0		A	9005999	A	A	9005999	2	1	4	1	0	0	0	0	0	0	0	1	2524	962	34	2		2	CA6	1	9005999	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	580114	9005999	240244622	17	1983											
SLC2A7	155184	broad.mit.edu	37	chr1	9063462	9063462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtttctcttggcaaaaatgCggtttatctccacaaatgtt	10	16	7	8	1	2	0	0	0	2	0	4	0	2	0	1	2	1	4	1	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:9063462C>T	uc009vmo.1	-	12	1436	c.1436G>A	c.(1435-1437)CGC>CAC	p.R479H		NM_207420	NP_997303	Q6PXP3	GTR7_HUMAN	intestinal facilitative glucose transporter 7	479	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity				0	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.04e-07)|COAD - Colon adenocarcinoma(227;7.66e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		GGCAAAAATGCGGTTTATCTC	0.473													10	45					0	0	0.008291	0	0		T	9063462	T	T	9063462	3	4	4	1	0	0	0	0	1	0	0	0	14575	768	27	1	106	1	SLC2A7	1	9063462	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	57463	9063462	240187159	18	1984											
SLC2A5	6518	broad.mit.edu	37	chr1	9097693	9097693	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttcagttcctccttttcCgggtacacttcagacacctt	6	16	5	14	1	3	1	2	0	1	1	6	1	6	1	4	1	1	2	4	1	1	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:9097693C>T	uc001apo.2	-	12	1750	c.1458G>A	c.(1456-1458)CCG>CCA	p.P486P	SLC2A5_uc010nzy.1_Silent_p.P427P|SLC2A5_uc010nzz.1_Silent_p.P371P|SLC2A5_uc010oaa.1_Silent_p.P442P|SLC2A5_uc010oab.1_Silent_p.P486P	NM_003039	NP_003030	P22732	GTR5_HUMAN	solute carrier family 2 (facilitated	486	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	fructose transmembrane transporter activity|glucose transmembrane transporter activity			pancreas(2)|ovary(1)	3	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.78e-07)|COAD - Colon adenocarcinoma(227;8.83e-05)|Kidney(185;0.000286)|KIRC - Kidney renal clear cell carcinoma(229;0.00103)|STAD - Stomach adenocarcinoma(132;0.0019)|BRCA - Breast invasive adenocarcinoma(304;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		CCTCCTTTTCCGGGTACACTT	0.507													12	84					0	0	0.001368	0	0		T	9097693	T	T	9097693	2	4	4	1	0	0	0	0	0	0	0	1	14573	639	23	1		1	SLC2A5	1	9097693	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	34231	9097693	240152928	19	1985											
H6PD	9563	broad.mit.edu	37	chr1	9324910	9324910	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtgtggtacatggactaCgacgccttcctgggatgagg	7	10	15	9	2	0	1	0	1	0	0	1	4	1	3	2	5	2	1	2	5	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:9324910C>T	uc001apt.2	+	5	2631	c.2358C>T	c.(2356-2358)TAC>TAT	p.Y786Y		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	786	6-phosphogluconolactonase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	ACATGGACTACGACGCCTTCC	0.667													5	16					0	0	0.000602	0	0		T	9324910	T	T	9324910	2	4	4	1	0	0	0	0	0	0	0	1	6952	547	19	1		1	H6PD	1	9324910	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	227217	9324910	239925711	20	1986											
UBE4B	10277	broad.mit.edu	37	chr1	10155571	10155571	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagttctctcagcagctcGccctctaatagccttgaaac	9	11	7	14	1	4	1	2	1	2	0	6	1	4	1	2	0	4	3	2	0	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:10155571G>A	uc001aqs.3	+	3	977	c.264G>A	c.(262-264)TCG>TCA	p.S88S	UBE4B_uc001aqr.3_Silent_p.S88S|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_5'UTR	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	88					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		TCAGCAGCTCGCCCTCTAATA	0.468													32	62					0	0	0.003271	0	0		A	10155571	A	A	10155571	2	1	4	1	0	0	0	0	0	0	0	1	16909	1074	38	1		1	UBE4B	1	10155571	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	830661	10155571	239095050	21	1987											
UBE4B	10277	broad.mit.edu	37	chr1	10197233	10197233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagttgccgtcgctatatccGcagactccgggctatccggg	6	10	12	13	5	0	1	0	0	0	1	4	1	3	1	4	2	1	4	4	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:10197233G>A	uc001aqs.3	+	17	3046	c.2333G>A	c.(2332-2334)CGC>CAC	p.R778H	UBE4B_uc001aqr.3_Missense_Mutation_p.R649H|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Missense_Mutation_p.R233H|UBE4B_uc001aqt.1_Missense_Mutation_p.R118H	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	778					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		CGCTATATCCGCAGACTCCGG	0.527													11	108					0	0	0.000978	0	0		A	10197233	A	A	10197233	3	1	4	1	0	0	0	0	1	0	0	0	16909	1087	38	1	2399	1	UBE4B	1	10197233	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	41662	10197233	239053388	22	1988											
CASZ1	54897	broad.mit.edu	37	chr1	10706370	10706370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtacttgcagtccgtggCgaggcaaggatcgctggaag	8	7	17	9	4	0	0	0	0	0	0	2	3	1	2	1	5	2	4	1	5	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:10706370C>T	uc001aro.2	-	17	3831	c.3511G>A	c.(3511-3513)GCC>ACC	p.A1171T		NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	1171					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		CAGTCCGTGGCGAGGCAAGGA	0.542													6	19					0	0	0.001984	0	0		T	10706370	T	T	10706370	3	4	4	1	0	0	0	0	1	0	0	0	2688	768	27	1	1788	1	CASZ1	1	10706370	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	509137	10706370	238544251	23	1989											
ANGPTL7	10218	broad.mit.edu	37	chr1	11253813	11253813	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctctccagacagccaacccgGctgcgtgtagagatggaggt	9	7	13	12	2	1	2	0	0	1	2	2	4	1	3	3	3	3	2	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:11253813G>A	uc001ase.2	+	3	893	c.654G>A	c.(652-654)CGG>CGA	p.R218R	MTOR_uc001asd.2_Intron	NM_021146	NP_066969	O43827	ANGL7_HUMAN	angiopoietin-like 7 precursor	218	Fibrinogen C-terminal.				response to oxidative stress|signal transduction	extracellular region	receptor binding				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000818)|all_lung(284;0.00105)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.39e-06)|COAD - Colon adenocarcinoma(227;0.000244)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0487)		AGCCAACCCGGCTGCGTGTAG	0.537													8	16					0	0	0.004482	0	0		A	11253813	A	A	11253813	2	1	4	1	0	0	0	0	0	0	0	1	619	1190	42	2		2	ANGPTL7	1	11253813	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	547443	11253813	237996808	24	1990											
MTOR	2475	broad.mit.edu	37	chr1	11308151	11308151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccatttcttctctcagacGctatatatatgaggaggaaa	12	14	7	8	1	3	2	1	1	2	1	5	4	4	4	1	2	0	1	1	2	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:11308151G>A	uc001asd.2	-	7	962	c.841C>T	c.(841-843)CGT>TGT	p.R281C		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	281					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TCTCTCAGACGCTATATATAT	0.413													15	69					0	0	0.007413	0	0		A	11308151	A	A	11308151	3	1	4	1	0	0	0	0	1	0	0	0	9972	1101	38	1	7016	1	MTOR	1	11308151	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	54338	11308151	237942470	25	1991											
PTCHD2	57540	broad.mit.edu	37	chr1	11562098	11562098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttttcccaccgagaggggcgGcaagatctactatgacggca	10	8	12	11	3	1	3	0	1	1	2	2	4	2	3	2	4	1	2	2	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:11562098G>A	uc001ash.3	+	2	1187	c.1049G>A	c.(1048-1050)GGC>GAC	p.G350D	PTCHD2_uc001asi.1_Missense_Mutation_p.G350D	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	350	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GAGAGGGGCGGCAAGATCTAC	0.632													7	9					0	0	0.00308	0	0		A	11562098	A	A	11562098	3	1	4	1	0	0	0	0	1	0	0	0	12755	1203	42	2	1051	2	PTCHD2	1	11562098	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	253947	11562098	237688523	26	1992											
PTCHD2	57540	broad.mit.edu	37	chr1	11574496	11574496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgtttgactatgaagtgCgcaggacgttcaacaatgac	12	10	10	9	2	1	3	1	3	0	0	1	4	1	4	1	1	2	3	1	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:11574496C>T	uc001ash.3	+	4	1504	c.1366C>T	c.(1366-1368)CGC>TGC	p.R456C	PTCHD2_uc001asi.1_Missense_Mutation_p.R456C	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	456	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CTATGAAGTGCGCAGGACGTT	0.532													26	59					0	0	0.00333	0	0		T	11574496	T	T	11574496	3	4	4	1	0	0	0	0	1	0	0	0	12755	768	27	1	1376	1	PTCHD2	1	11574496	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	12398	11574496	237676125	27	1993											
PTCHD2	57540	broad.mit.edu	37	chr1	11596418	11596418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagtggcgtacgctggaggCcgtgcggcacgtgggcgtgg	4	6	20	11	6	0	0	0	0	0	0	0	1	0	1	2	6	2	3	2	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:11596418C>T	uc001ash.3	+	21	3992	c.3854C>T	c.(3853-3855)GCC>GTC	p.A1285V		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1285	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		ACGCTGGAGGCCGTGCGGCAC	0.682													6	12					0	0	0.008291	0	0		T	11596418	T	T	11596418	3	4	4	1	0	0	0	0	1	0	0	0	12755	739	26	2	3932	2	PTCHD2	1	11596418	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	21922	11596418	237654203	28	1994											
NPPA	4878	broad.mit.edu	37	chr1	11907202	11907202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcccagtccgctctgggCtccaatcctgtccatcctgc	6	9	8	18	1	1	0	0	0	1	0	6	0	6	0	6	1	2	2	6	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:11907202C>T	uc001ati.2	-	2	517	c.418G>A	c.(418-420)GCC>ACC	p.A140T	CLCN6_uc010oav.1_Intron|CLCN6_uc010oaw.1_Intron|CLCN6_uc010oax.1_Intron|CLCN6_uc010oay.1_Intron|CLCN6_uc010oaz.1_Intron|CLCN6_uc010oba.1_Intron	NM_006172	NP_006163	P01160	ANF_HUMAN	natriuretic peptide precursor A preproprotein	140					cGMP biosynthetic process|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size	extracellular region	hormone activity			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00149)|all_lung(284;0.00189)|Breast(348;0.00586)|Colorectal(325;0.0062)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0556)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.04e-06)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|Kidney(185;0.000733)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCGCTCTGGGCTCCAATCCTG	0.597													42	139					0	0	0.00361	0	0		T	11907202	T	T	11907202	3	4	4	1	0	0	0	0	1	0	0	0	10610	797	28	2	45	2	NPPA	1	11907202	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	310784	11907202	237343419	29	1995											
PLOD1	5351	broad.mit.edu	37	chr1	12024350	12024350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtggacattgtgcaggggCggcgtgtgtgagtacctgca	7	9	17	8	3	0	1	0	1	0	0	0	2	0	2	1	4	3	3	1	4	1	2	rs11553676		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12024350C>T	uc001atm.2	+	12	1412	c.1321C>T	c.(1321-1323)CGG>TGG	p.R441W	PLOD1_uc010obb.1_Missense_Mutation_p.R488W	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	441					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	TGTGCAGGGGCGGCGTGTGTG	0.612													27	68					0	0	0.007291	0	0		T	12024350	T	T	12024350	3	4	4	1	0	0	0	0	1	0	0	0	12120	759	27	1	1367	1	PLOD1	1	12024350	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	117148	12024350	237226271	30	1996											
VPS13D	55187	broad.mit.edu	37	chr1	12387789	12387789	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctccaccagccgagataGcccaggggctgtggcagcgc	7	4	15	15	2	0	1	0	0	0	1	1	2	1	1	5	4	3	2	5	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12387789G>A	uc001atv.2	+	36	8216	c.8075G>A	c.(8074-8076)AGC>AAC	p.S2692N	VPS13D_uc001atw.2_Missense_Mutation_p.S2692N|VPS13D_uc001atx.2_Missense_Mutation_p.S1880N|VPS13D_uc001aty.1_Missense_Mutation_p.S430N	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2692					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AGCCGAGATAGCCCAGGGGCT	0.488													25	62					0	0	0.007835	0	0		A	12387789	A	A	12387789	3	1	4	1	0	0	0	0	1	0	0	0	17218	971	34	2	8213	2	VPS13D	1	12387789	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	363439	12387789	236862832	31	1997											
VPS13D	55187	broad.mit.edu	37	chr1	12422824	12422824	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacattgatacctgcatggTcatctttgccccccgttacc	8	13	6	14	1	2	1	1	1	1	0	2	1	2	1	5	1	5	2	5	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12422824T>C	uc001atv.2	+	51	10331	c.10190T>C	c.(10189-10191)GTC>GCC	p.V3397A	VPS13D_uc001atw.2_Missense_Mutation_p.V3372A|VPS13D_uc001atx.2_Missense_Mutation_p.V2584A	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3396					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		ACCTGCATGGTCATCTTTGCC	0.423													5	203					0	0	0.001168	0	0		C	12422824	C	C	12422824	3	2	4	1	0	0	0	0	1	0	0	0	17218	1667	58	3	10388	3	VPS13D	1	12422824	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	35035	12422824	236827797	32	1998											
DHRS3	9249	broad.mit.edu	37	chr1	12640620	12640620	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acatcacagatgaagtaatgGcactcagtgcccatctgccg	12	8	9	12	1	3	2	2	1	1	1	3	2	3	2	2	1	2	2	2	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12640620G>A	uc001auc.2	-	2	737	c.270C>T	c.(268-270)TGC>TGT	p.C90C	DHRS3_uc001aub.2_Silent_p.C5C|DHRS3_uc009vnm.2_Silent_p.C90C|DHRS3_uc001aud.3_Silent_p.C90C|DHRS3_uc001aue.1_RNA	NM_004753	NP_004744	O75911	DHRS3_HUMAN	dehydrogenase/reductase (SDR family) member 3	90					retinol metabolic process|visual perception	integral to membrane	electron carrier activity|NADP-retinol dehydrogenase activity|nucleotide binding			skin(1)	1	Ovarian(185;0.249)	Lung NSC(185;4.11e-05)|all_lung(284;4.58e-05)|Renal(390;0.000147)|Colorectal(325;0.000585)|Breast(348;0.000596)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|Colorectal(212;9.25e-07)|COAD - Colon adenocarcinoma(227;0.000326)|BRCA - Breast invasive adenocarcinoma(304;0.000344)|Kidney(185;0.00235)|KIRC - Kidney renal clear cell carcinoma(229;0.00656)|STAD - Stomach adenocarcinoma(313;0.00798)|READ - Rectum adenocarcinoma(331;0.0419)	Vitamin A(DB00162)	TGAAGTAATGGCACTCAGTGC	0.557													8	36					0	0	0.008291	0	0		A	12640620	A	A	12640620	2	1	4	1	0	0	0	0	0	0	0	1	4497	1195	42	2		2	DHRS3	1	12640620	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	217796	12640620	236610001	33	1999											
PRAMEF12	390999	broad.mit.edu	37	chr1	12836065	12836065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccattcttataaggttcGccccttacctgggccagatg	7	13	9	12	1	1	1	0	0	1	1	3	1	2	1	5	2	1	1	5	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12836065G>A	uc001aui.2	+	2	694	c.667G>A	c.(667-669)GCC>ACC	p.A223T		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	223										ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TATAAGGTTCGCCCCTTACCT	0.522													29	92					0	0	0.002836	0	0		A	12836065	A	A	12836065	3	1	4	1	0	0	0	0	1	0	0	0	12450	1087	38	1	673	1	PRAMEF12	1	12836065	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	195445	12836065	236414556	34	2000											
PRAMEF1	65121	broad.mit.edu	37	chr1	12854205	12854205	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactgtccaaggatgggagaGcaccagcccttaaaggtgtt	11	8	13	9	0	0	1	0	0	0	1	1	4	1	2	3	3	2	2	3	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12854205G>A	uc001auj.1	+	3	532	c.429G>A	c.(427-429)GAG>GAA	p.E143E		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	143											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GGATGGGAGAGCACCAGCCCT	0.537													7	221					0	0	0.003163	0	0		A	12854205	A	A	12854205	2	1	4	1	0	0	0	0	0	0	0	1	12447	962	34	2		2	PRAMEF1	1	12854205	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	18140	12854205	236396416	35	2001											
PRAMEF11	440560	broad.mit.edu	37	chr1	12884930	12884930	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcatcagctcagccctaAtttgagcaaatctgctccag	10	12	6	13	0	5	1	3	1	2	0	6	1	6	1	2	0	4	3	2	0	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12884930A>C	uc001auk.2	-	4	1377	c.1181T>G	c.(1180-1182)ATT>AGT	p.I394S		NM_001146344	NP_001139816	O60813	PRA11_HUMAN	PRAME family member 11	394											0						CTCAGCCCTAATTTGAGCAAA	0.478													20	255					0	0	0.00278	0	0		C	12884930	C	C	12884930	3	2	4	1	0	0	0	0	1	0	0	0	12449	101	4	5	133	5	PRAMEF11	1	12884930	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	30725	12884930	236365691	36	2002											
LOC649330	649330	broad.mit.edu	37	chr1	12907861	12907861	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgatcgtttcacacctgcGtttcctcggttcacttttgg	4	16	9	12	3	2	1	2	1	0	0	5	1	3	1	2	2	1	4	2	2	0	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12907861G>A	uc009vno.2	-	1	377	c.282C>T	c.(280-282)AAC>AAT	p.N94N	HNRNPCL1_uc010obf.1_Silent_p.N94N	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	94							nucleic acid binding|nucleotide binding				0						TCACACCTGCGTTTCCTCGGT	0.488													17	127					0	0	0.007413	0	0		A	12907861	A	A	12907861	2	1	4	1	0	0	0	0	0	0	0	1	8903	1136	40	1		1	LOC649330	1	12907861	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	22931	12907861	236342760	37	2003											
PRAMEF14	729528	broad.mit.edu	37	chr1	13669154	13669154	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaacaggtccttcagggcAcccatagacatacaatttct	13	9	6	13	0	2	1	1	0	1	1	3	1	3	1	2	2	2	1	2	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:13669154A>G	uc009vnw.1	-	4	1215	c.1032T>C	c.(1030-1032)GGT>GGC	p.G344G		NM_001099854	NP_001093324	Q5SWL7	PRA14_HUMAN	PRAME family member 14	344											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCTTCAGGGCACCCATAGACA	0.547													11	81					0	0	0.000978	0	0		G	13669154	G	G	13669154	2	3	4	1	0	0	0	0	0	0	0	1	12452	146	6	3		3	PRAMEF14	1	13669154	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	761293	13669154	235581467	38	2004											
PRDM2	7799	broad.mit.edu	37	chr1	14105372	14105372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgaaacgtttatgtttcCgtgtcaacattgtgaaagga	12	15	9	5	2	1	2	1	2	0	0	2	3	2	3	1	1	2	2	1	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:14105372C>T	uc001avi.2	+	8	1938	c.1082C>T	c.(1081-1083)CCG>CTG	p.P361L	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.P361L|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.P118L|PRDM2_uc001avk.2_Missense_Mutation_p.P160L|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	361	C2H2-type 1.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		TTTATGTTTCCGTGTCAACAT	0.423													30	72					0	0	0.009535	0	0		T	14105372	T	T	14105372	3	4	4	1	0	0	0	0	1	0	0	0	12480	652	23	1	1108	1	PRDM2	1	14105372	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	436218	14105372	235145249	39	2005											
PRDM2	7799	broad.mit.edu	37	chr1	14105506	14105506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcacacagattaaccggCggcgacatgagcggcgccat	10	6	13	12	5	0	2	0	1	0	1	0	3	0	2	2	4	2	1	2	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:14105506C>T	uc001avi.2	+	8	2072	c.1216C>T	c.(1216-1218)CGG>TGG	p.R406W	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.R406W|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.R163W|PRDM2_uc001avk.2_Missense_Mutation_p.R205W|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	406	C2H2-type 2.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GATTAACCGGCGGCGACATGA	0.512													16	53					0	0	0.004007	0	0		T	14105506	T	T	14105506	3	4	4	1	0	0	0	0	1	0	0	0	12480	759	27	1	1242	1	PRDM2	1	14105506	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	134	14105506	235145115	40	2006											
SPEN	23013	broad.mit.edu	37	chr1	16255155	16255155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagagtggagagagagagacGcttaatacggaaggaaaaag	18	4	16	3	2	0	4	0	0	0	4	0	10	0	6	0	3	1	1	0	3	5	2	rs149173601	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:16255155G>A	uc001axk.1	+	11	2624	c.2420G>A	c.(2419-2421)CGC>CAC	p.R807H	SPEN_uc010obp.1_Missense_Mutation_p.R766H	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	807	Arg-rich.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AGAGAGAGACGCTTAATACGG	0.423													7	190					0	0	0.00308	0	0		A	16255155	A	A	16255155	3	1	4	1	0	0	0	0	1	0	0	0	15063	1087	38	1	2462	1	SPEN	1	16255155	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2149649	16255155	232995466	41	2007											
SPEN	23013	broad.mit.edu	37	chr1	16257770	16257770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactgtggagccagctaccGtctcagaagaagcaaagcct	13	6	11	11	1	1	3	1	0	1	3	2	4	1	4	3	1	5	2	3	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:16257770G>A	uc001axk.1	+	11	5239	c.5035G>A	c.(5035-5037)GTC>ATC	p.V1679I	SPEN_uc010obp.1_Missense_Mutation_p.V1638I	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1679					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GCCAGCTACCGTCTCAGAAGA	0.537													47	96					0	0	0.00361	0	0		A	16257770	A	A	16257770	3	1	4	1	0	0	0	0	1	0	0	0	15063	1145	40	1	5077	1	SPEN	1	16257770	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2615	16257770	232992851	42	2008											
ZBTB17	7709	broad.mit.edu	37	chr1	16272720	16272720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggggcctatgggtgtgctgCgtcctgcctgctccagcctg	2	11	15	13	1	0	0	0	0	0	0	2	0	2	0	5	3	5	2	5	3	1	1	rs148471565		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:16272720C>T	uc001axl.3	-	5	703	c.464G>A	c.(463-465)CGC>CAC	p.R155H	ZBTB17_uc010obq.1_Missense_Mutation_p.R72H|ZBTB17_uc010obr.1_Missense_Mutation_p.R155H|ZBTB17_uc010obs.1_Missense_Mutation_p.R79H|ZBTB17_uc010obt.1_Missense_Mutation_p.R92H|ZBTB17_uc010obu.1_Missense_Mutation_p.R79H|ZBTB17_uc009vom.1_Missense_Mutation_p.R98H|ZBTB17_uc010obv.1_Missense_Mutation_p.R155H	NM_003443	NP_003434	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17	155					negative regulation of cell cycle	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		GGGTGTGCTGCGTCCTGCCTG	0.662													22	58					0	0	0.00333	0	0		T	16272720	T	T	16272720	3	4	4	1	0	0	0	0	1	0	0	0	17552	768	27	1	1995	1	ZBTB17	1	16272720	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	14950	16272720	232977901	43	2009											
NBPF1	55672	broad.mit.edu	37	chr1	16901707	16901707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaacttgaacatcttcatCgtcatcgttgtcattttctg	8	17	5	11	2	6	1	4	1	2	0	8	1	6	1	0	0	2	1	0	0	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:16901707C>T	uc009vos.1	-	20	3025	c.2137G>A	c.(2137-2139)GAT>AAT	p.D713N	NBPF1_uc009vot.1_Missense_Mutation_p.D171N|NBPF1_uc001ayz.1_Missense_Mutation_p.D171N|NBPF1_uc010oce.1_Missense_Mutation_p.D442N	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	713	NBPF 3.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		ACATCTTCATCGTCATCGTTG	0.433													20	245					0	0	0.00278	0	0		T	16901707	T	T	16901707	3	4	4	1	0	0	0	0	1	0	0	0	10210	884	31	1	1327	1	NBPF1	1	16901707	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	628987	16901707	232348914	44	2010											
ATP13A2	23400	broad.mit.edu	37	chr1	17314944	17314944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccacagtcattggcgcCgtctccgcacatgcccacgc	6	6	10	19	4	2	0	1	0	1	0	3	0	2	0	5	2	1	1	5	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:17314944C>T	uc001baa.2	-	24	2825	c.2635G>A	c.(2635-2637)GGC>AGC	p.G879S	ATP13A2_uc001azz.1_Missense_Mutation_p.G26S|ATP13A2_uc001bab.2_Missense_Mutation_p.G874S|ATP13A2_uc001bac.2_Missense_Mutation_p.G835S	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	879	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		TCATTGGCGCCGTCTCCGCAC	0.612													18	51					0	0	0.006122	0	0		T	17314944	T	T	17314944	3	4	4	1	0	0	0	0	1	0	0	0	1125	652	23	1	1167	1	ATP13A2	1	17314944	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	413237	17314944	231935677	45	2011											
PADI2	11240	broad.mit.edu	37	chr1	17413176	17413176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccaggatgtggatatagCgttggccgaagaacgggtct	9	8	16	8	3	1	1	0	0	1	1	1	4	1	3	2	5	2	1	2	5	4	3	rs138756249	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:17413176C>T	uc001baf.2	-	7	756	c.674G>A	c.(673-675)CGC>CAC	p.R225H	PADI2_uc010ocm.1_Missense_Mutation_p.A144T|PADI2_uc001bag.1_Missense_Mutation_p.R225H	NM_007365	NP_031391	Q9Y2J8	PADI2_HUMAN	peptidyl arginine deiminase, type II	225					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(3)|pancreas(1)|central_nervous_system(1)|skin(1)	6		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000422)|Renal(390;0.000518)|all_lung(284;0.000546)|Ovarian(437;0.00671)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;1.49e-05)|COAD - Colon adenocarcinoma(227;1.54e-05)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)	L-Citrulline(DB00155)	GTGGATATAGCGTTGGCCGAA	0.597													7	59					0	0	0.004482	0	0		T	17413176	T	T	17413176	3	4	4	1	0	0	0	0	1	0	0	0	11397	768	27	1	1363	1	PADI2	1	17413176	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	98232	17413176	231837445	46	2012											
PADI3	51702	broad.mit.edu	37	chr1	17596768	17596768	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctataggcatgtgctgggCcaagataaggtgtcctatga	10	10	13	8	0	0	2	0	1	0	1	1	2	1	2	3	3	1	2	3	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:17596768C>T	uc001bai.2	+	7	733	c.693C>T	c.(691-693)GGC>GGT	p.G231G		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	231					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	ATGTGCTGGGCCAAGATAAGG	0.597													7	121					0	0	0.004482	0	0		T	17596768	T	T	17596768	2	4	4	1	0	0	0	0	0	0	0	1	11398	726	26	2		2	PADI3	1	17596768	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	183592	17596768	231653853	47	2013											
RCC2	55920	broad.mit.edu	37	chr1	17743117	17743117	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctatccgctgtgcccgggcGatgaacttcccatctgagtt	6	12	10	13	3	2	2	0	2	2	0	4	3	4	2	3	1	2	2	3	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:17743117G>A	uc001bal.2	-	7	932	c.885C>T	c.(883-885)ATC>ATT	p.I295I	RCC2_uc001bam.2_Silent_p.I295I	NM_001136204	NP_001129676	Q9P258	RCC2_HUMAN	regulator of chromosome condensation 2	295	RCC1 4.				cell division|mitotic prometaphase	chromosome, centromeric region|cytosol|microtubule|nucleolus|spindle					0		Colorectal(325;0.000147)|Breast(348;0.00122)|Renal(390;0.00145)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;7.69e-06)|COAD - Colon adenocarcinoma(227;1.19e-05)|Kidney(64;0.000189)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.0135)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)		GTGCCCGGGCGATGAACTTCC	0.547													5	43					0	0	0.001984	0	0		A	17743117	A	A	17743117	2	1	4	1	0	0	0	0	0	0	0	1	13199	1048	37	1		1	RCC2	1	17743117	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	146349	17743117	231507504	48	2014											
KLHDC7A	127707	broad.mit.edu	37	chr1	18808238	18808238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcatcagcaggagggcGcccccaactcctcctatacc	8	6	8	19	1	1	0	1	0	0	0	3	1	3	1	6	2	4	2	6	2	3	2	rs145131334		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:18808238G>A	uc001bax.2	+	1	815	c.763G>A	c.(763-765)GCC>ACC	p.A255T	KLHDC7A_uc009vpg.2_Missense_Mutation_p.A37T	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	255						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GCAGGAGGGCGCCCCCAACTC	0.612													22	34					0	0	0.010504	0	0		A	18808238	A	A	18808238	3	1	4	1	0	0	0	0	1	0	0	0	8376	1087	38	1	765	1	KLHDC7A	1	18808238	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1065121	18808238	230442383	49	2015											
ALDH4A1	8659	broad.mit.edu	37	chr1	19199402	19199402	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccttgatgacctgcggCgacgtccagcgcaggatgta	7	9	13	12	4	1	2	0	2	1	0	3	4	2	3	3	2	2	2	3	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:19199402C>T	uc001bbb.2	-	15	1905	c.1629G>A	c.(1627-1629)TCG>TCA	p.S543S	ALDH4A1_uc010ocu.1_Silent_p.S483S|ALDH4A1_uc001bbc.2_Silent_p.S543S	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	543					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	TGACCTGCGGCGACGTCCAGC	0.587													5	53					0	0	0.001984	0	0		T	19199402	T	T	19199402	2	4	4	1	0	0	0	0	0	0	0	1	501	755	27	1		1	ALDH4A1	1	19199402	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	391164	19199402	230051219	50	2016											
UBR4	23352	broad.mit.edu	37	chr1	19468163	19468163	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctcaaaatctccatggTccacctcactctgttcctgg	8	12	5	16	0	4	0	2	0	3	0	8	0	6	0	5	2	0	1	5	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:19468163T>C	uc001bbi.2	-	56	8292	c.8288A>G	c.(8287-8289)GAC>GGC	p.D2763G	UBR4_uc001bbk.1_Missense_Mutation_p.D445G	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2763					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		ATCTCCATGGTCCACCTCACT	0.498													16	83					0	0	0.007413	0	0		C	19468163	C	C	19468163	3	2	4	1	0	0	0	0	1	0	0	0	16930	1667	58	3	7467	3	UBR4	1	19468163	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	268761	19468163	229782458	51	2017											
UBR4	23352	broad.mit.edu	37	chr1	19478277	19478277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccgttctattgcttgaGtcccaatctggatccgcatg	6	12	11	12	2	2	1	0	1	2	0	4	2	4	2	3	2	1	3	3	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:19478277G>A	uc001bbi.2	-	48	7077	c.7073C>T	c.(7072-7074)ACT>ATT	p.T2358I	UBR4_uc001bbk.1_Missense_Mutation_p.T12I|UBR4_uc001bbl.1_Missense_Mutation_p.T295I|UBR4_uc001bbm.1_Missense_Mutation_p.T1570I	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2358					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TATTGCTTGAGTCCCAATCTG	0.512													21	45					0	0	0.002299	0	0		A	19478277	A	A	19478277	3	1	4	1	0	0	0	0	1	0	0	0	16930	1029	36	4	8714	4	UBR4	1	19478277	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	10114	19478277	229772344	52	2018											
UBR4	23352	broad.mit.edu	37	chr1	19524463	19524463	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctcttgaagactagccacGttctgagctatgaacacatt	12	11	8	10	1	2	4	0	3	2	1	2	4	2	4	1	0	4	3	1	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:19524463G>A	uc001bbi.2	-	6	733	c.729C>T	c.(727-729)AAC>AAT	p.N243N		NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	243					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GACTAGCCACGTTCTGAGCTA	0.418													19	122					0	0	0.00333	0	0		A	19524463	A	A	19524463	2	1	4	1	0	0	0	0	0	0	0	1	16930	1136	40	1		1	UBR4	1	19524463	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	46186	19524463	229726158	53	2019											
KIAA0090	23065	broad.mit.edu	37	chr1	19566419	19566419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcccgggaagcgtccactgGgttgggctgggtaggcagga	6	6	20	9	2	0	0	0	0	0	0	1	2	1	2	2	7	1	4	2	7	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:19566419G>A	uc001bbo.2	-	8	890	c.847C>T	c.(847-849)CCA>TCA	p.P283S	KIAA0090_uc001bbp.2_Missense_Mutation_p.P283S|KIAA0090_uc001bbq.2_Missense_Mutation_p.P283S|KIAA0090_uc001bbr.2_Missense_Mutation_p.P261S	NM_015047	NP_055862	Q8N766	K0090_HUMAN	hypothetical protein LOC23065 precursor	283	Extracellular (Potential).					integral to membrane	protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|Breast(348;0.00366)|all_lung(284;0.00519)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;3.84e-05)|Kidney(64;0.000191)|KIRC - Kidney renal clear cell carcinoma(64;0.00274)|GBM - Glioblastoma multiforme(114;0.005)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0656)		GCGTCCACTGGGTTGGGCTGG	0.527													3	22					0	0	0.004672	0	0		A	19566419	A	A	19566419	3	1	4	1	0	0	0	0	1	0	0	0	8169	1232	43	4	2198	4	KIAA0090	1	19566419	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	41956	19566419	229684202	54	2020											
MUL1	79594	broad.mit.edu	37	chr1	20827511	20827511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaaagccaaaaaccagcGccagcaccttccagagcctg	13	4	9	15	1	0	1	0	0	0	1	1	1	1	1	6	1	5	2	6	1	3	1	rs117689813	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:20827511G>A	uc001bdi.3	-	4	888	c.731C>T	c.(730-732)GCG>GTG	p.A244V		NM_024544	NP_078820	Q969V5	MUL1_HUMAN	mitochondrial ubiquitin ligase activator of NFKB	244	Helical; (Potential).				activation of caspase activity|activation of JUN kinase activity|induction of apoptosis|mitochondrial fission|mitochondrion localization|negative regulation of cell growth|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to mitochondrial outer membrane|nucleus|peroxisome	identical protein binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00748)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000137)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)		AAAAACCAGCGCCAGCACCTT	0.592													13	44					0	0	0.001368	0	0		A	20827511	A	A	20827511	3	1	4	1	0	0	0	0	1	0	0	0	10002	1087	38	1	331	1	MUL1	1	20827511	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1261092	20827511	228423110	55	2021											
RAP1GAP	5909	broad.mit.edu	37	chr1	21926080	21926080	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcgggagaagtccttgagCgcctctgctctctgcgctgc	5	9	14	13	3	2	2	0	1	2	1	4	4	3	2	2	1	5	2	2	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:21926080C>T	uc001bex.2	-	21	1941	c.1683G>A	c.(1681-1683)GCG>GCA	p.A561A	RAP1GAP_uc001bev.2_Silent_p.A646A|RAP1GAP_uc001bew.2_Silent_p.A625A|RAP1GAP_uc001bey.2_Silent_p.A587A	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	561					regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		AGTCCTTGAGCGCCTCTGCTC	0.672													4	13					0	0	0.009096	0	0		T	21926080	T	T	21926080	2	4	4	1	0	0	0	0	0	0	0	1	13062	755	27	1		1	RAP1GAP	1	21926080	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1098569	21926080	227324541	56	2022											
USP48	84196	broad.mit.edu	37	chr1	22030030	22030030	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattatccacaactttatggAcatagatggtggcttgagtg	11	14	10	6	0	0	2	0	1	0	1	1	3	1	3	1	3	1	1	1	3	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:22030030A>G	uc001bfb.2	-	21	2835	c.2597T>C	c.(2596-2598)GTC>GCC	p.V866A	USP48_uc001bfa.2_Missense_Mutation_p.V404A|USP48_uc010odq.1_Missense_Mutation_p.V878A|USP48_uc009vqc.2_Missense_Mutation_p.V800A|USP48_uc001bfc.2_Missense_Mutation_p.V866A|USP48_uc001bfd.1_Intron	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	866					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		AACTTTATGGACATAGATGGT	0.428													21	71					0	0	0.00333	0	0		G	22030030	G	G	22030030	3	3	4	1	0	0	0	0	1	0	0	0	17105	275	10	3	538	3	USP48	1	22030030	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	103950	22030030	227220591	57	2023											
EPHB2	2048	broad.mit.edu	37	chr1	23191488	23191488	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgtctacaacatcatctgCaagagctgtggctcgggccg	8	9	11	13	3	3	1	1	0	2	1	5	1	3	1	1	2	4	3	1	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:23191488C>T	uc009vqj.1	+	5	1231	c.1086C>T	c.(1084-1086)TGC>TGT	p.C362C	EPHB2_uc001bge.2_Silent_p.C362C|EPHB2_uc001bgf.2_Silent_p.C362C|EPHB2_uc010odu.1_Silent_p.C362C|hsa-mir-4253|MI0015860_5'Flank	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	362	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		ACATCATCTGCAAGAGCTGTG	0.617									Hereditary_Prostate_Cancer				10	25					0	0	0.001855	0	0		T	23191488	T	T	23191488	2	4	4	1	0	0	0	0	0	0	0	1	5183	718	25	2		2	EPHB2	1	23191488	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1161458	23191488	226059133	58	2024											
LDLRAP1	26119	broad.mit.edu	37	chr1	25883728	25883728	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacaaccagagcctcgagtgCcacgccttcctctgcaccaa	10	6	7	18	2	1	1	0	0	1	1	3	2	2	1	6	0	4	1	6	0	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:25883728C>T	uc001bkl.3	+	4	543	c.429C>T	c.(427-429)TGC>TGT	p.C143C		NM_015627	NP_056442	Q5SW96	ARH_HUMAN	low density lipoprotein receptor adaptor protein	143	PID.				amyloid precursor protein metabolic process|cholesterol homeostasis|cholesterol metabolic process|positive regulation of receptor-mediated endocytosis|receptor internalization|receptor-mediated endocytosis of low-density lipoprotein particle involved in cholesterol transport|regulation of establishment of protein localization in plasma membrane|regulation of protein binding	basal plasma membrane|cytosol|early endosome|internal side of plasma membrane|neurofilament|recycling endosome	beta-amyloid binding|clathrin binding|low-density lipoprotein particle receptor binding|phosphatidylinositol-4,5-bisphosphate binding|phosphotyrosine binding|protein binding, bridging|protein complex binding|receptor signaling complex scaffold activity|signaling adaptor activity			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.63e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000728)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000969)|GBM - Glioblastoma multiforme(114;0.00914)|READ - Rectum adenocarcinoma(331;0.0649)		GCCTCGAGTGCCACGCCTTCC	0.622													10	27					0	0	0.001855	0	0		T	25883728	T	T	25883728	2	4	4	1	0	0	0	0	0	0	0	1	8724	747	26	2		2	LDLRAP1	1	25883728	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2692240	25883728	223366893	59	2025											
C1orf135	79000	broad.mit.edu	37	chr1	26161648	26161648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttacatcttgaaaaggagCtctagtgttgtgggcaatga	11	12	13	5	0	2	2	0	2	2	0	2	3	2	3	0	3	2	4	0	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:26161648C>T	uc001bkw.1	-	3	910	c.910G>A	c.(910-912)GCT>ACT	p.A304T		NM_024037	NP_076942	Q9H7T9	CA135_HUMAN	aurora A-binding protein	304											0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00521)|all_lung(284;0.00764)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.117)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0429)|OV - Ovarian serous cystadenocarcinoma(117;3.28e-25)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;1.75e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000787)|BRCA - Breast invasive adenocarcinoma(304;0.00102)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.015)|READ - Rectum adenocarcinoma(331;0.0649)		TGAAAAGGAGCTCTAGTGTTG	0.473													5	184					0	0	0.000602	0	0		T	26161648	T	T	26161648	3	4	4	1	0	0	0	0	1	0	0	0	2002	797	28	2	167	2	C1orf135	1	26161648	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	277920	26161648	223088973	60	2026											
EXTL1	2134	broad.mit.edu	37	chr1	26349584	26349584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggagagtgcagctcaatGcctctgcaatggaacagggg	11	7	14	9	0	2	1	1	0	1	1	2	3	2	2	1	4	5	3	1	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:26349584G>A	uc001blf.2	+	1	1314	c.447G>A	c.(445-447)ATG>ATA	p.M149I		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	149	Lumenal (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		GCAGCTCAATGCCTCTGCAAT	0.632													11	37					0	0	0.000978	0	0		A	26349584	A	A	26349584	3	1	4	1	0	0	0	0	1	0	0	0	5333	1319	46	2	449	2	EXTL1	1	26349584	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	187936	26349584	222901037	61	2027											
EXTL1	2134	broad.mit.edu	37	chr1	26361326	26361326	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcttttcctcttgcccaGgtattaccacactctcttca	6	16	4	15	0	4	0	1	0	3	0	6	0	5	0	3	1	2	1	3	1	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:26361326G>T	uc001blf.2	+	10	2547	c.1680_splice	c.e10-1	p.R560_splice		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1						skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		CTCTTGCCCAGGTATTACCAC	0.577													7	158					2.0095e-06	2.12941e-06	0.001984	1	0		T	26361326	T	T	26361326	5	4	4	1	0	0	0	0	0	0	1	0	5333	1014	35	5	1717	5	EXTL1	1	26361326	Splice_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11742	26361326	222889295	62	2028											
RPS6KA1	6195	broad.mit.edu	37	chr1	26900639	26900639	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagctgaagcccatcgagTcatccatcctggcccagcgg	8	6	10	17	2	1	1	1	1	0	0	4	2	3	1	5	2	3	1	5	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:26900639T>C	uc001bmr.1	+	22	2318	c.2155T>C	c.(2155-2157)TCA>CCA	p.S719P	RPS6KA1_uc010ofe.1_Missense_Mutation_p.S627P|RPS6KA1_uc001bms.1_Missense_Mutation_p.S728P|RPS6KA1_uc009vsl.1_Missense_Mutation_p.S562P	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	719					axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		GCCCATCGAGTCATCCATCCT	0.622													8	26					0	0	0.00308	0	0		C	26900639	C	C	26900639	3	2	4	1	0	0	0	0	1	0	0	0	13675	1667	58	3	2380	3	RPS6KA1	1	26900639	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	539313	26900639	222349982	63	2029											
ARID1A	8289	broad.mit.edu	37	chr1	27105886	27105886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctcagataagcttgggCgtgtgcaggagtttgacagt	9	11	14	7	1	1	2	1	1	0	1	1	3	1	3	0	2	3	4	0	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:27105886C>T	uc001bmv.1	+	20	5870	c.5497C>T	c.(5497-5499)CGT>TGT	p.R1833C	ARID1A_uc001bmu.1_Missense_Mutation_p.R1616C|ARID1A_uc001bmx.1_Missense_Mutation_p.R679C|ARID1A_uc009vsm.1_Missense_Mutation_p.R161C|ARID1A_uc009vsn.1_Missense_Mutation_p.R75C	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1833					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TAAGCTTGGGCGTGTGCAGGA	0.512			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								13	41					0	0	0.006122	0	0		T	27105886	T	T	27105886	3	4	4	1	0	0	0	0	1	0	0	0	913	768	27	1	5575	1	ARID1A	1	27105886	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	205247	27105886	222144735	64	2030											
GPR3	2827	broad.mit.edu	37	chr1	27720703	27720703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actggccatcactgtcgaccGctacctttctctgtacaatg	8	12	7	14	2	2	0	1	0	1	0	4	1	2	0	3	1	2	2	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:27720703G>A	uc001bod.2	+	2	496	c.401G>A	c.(400-402)CGC>CAC	p.R134H		NM_005281	NP_005272	P46089	GPR3_HUMAN	G protein-coupled receptor 3	134	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane				ovary(1)	1		Breast(348;1.53e-05)|Ovarian(437;0.0606)|all_lung(284;0.157)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;2.81e-26)|Colorectal(126;1.24e-08)|KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;4.45e-06)|Lung(427;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|LUSC - Lung squamous cell carcinoma(448;0.008)|READ - Rectum adenocarcinoma(331;0.0419)		ACTGTCGACCGCTACCTTTCT	0.577													12	57					0	0	0.003163	0	0		A	27720703	A	A	27720703	3	1	4	1	0	0	0	0	1	0	0	0	6701	1087	38	1	403	1	GPR3	1	27720703	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	614817	27720703	221529918	65	2031											
PPP1R8	5511	broad.mit.edu	37	chr1	28176610	28176610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgtgaactgtagaagaagCgtgtggagggccctggctcc	9	8	15	9	2	0	3	0	1	0	2	2	4	1	4	2	3	2	2	2	3	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:28176610C>T	uc001bov.1	+	7	763	c.709C>T	c.(709-711)CGT>TGT	p.R237C	PPP1R8_uc001bow.1_Missense_Mutation_p.R95C|PPP1R8_uc001box.1_Missense_Mutation_p.R13C|PPP1R8_uc009vtc.1_RNA|PPP1R8_uc009vtd.1_RNA	NM_014110	NP_054829	Q12972	PP1R8_HUMAN	protein phosphatase 1 regulatory inhibitor	237	Nuclear localization signal 2.			KKKR->AAAA: Abolishes nuclear import; when associated with A-195-197-A.	mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|RNA splicing|transcription, DNA-dependent	cytoplasm|nuclear speck|spliceosomal complex	DNA binding|endonuclease activity|protein binding|protein serine/threonine phosphatase inhibitor activity|ribonuclease E activity|RNA binding				0		Colorectal(325;3.46e-05)|all_lung(284;0.000129)|Lung NSC(340;0.000259)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;2.76e-24)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00248)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0649)		GTAGAAGAAGCGTGTGGAGGG	0.572													26	134					0	0	0.002445	0	0		T	28176610	T	T	28176610	3	4	4	1	0	0	0	0	1	0	0	0	12399	768	27	1	735	1	PPP1R8	1	28176610	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	455907	28176610	221074011	66	2032											
YTHDF2	51441	broad.mit.edu	37	chr1	29070189	29070189	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtggacacttctgtggCgtggcagaaatgaaatctgc	10	9	14	8	1	2	2	0	1	2	1	2	3	2	3	0	4	1	2	0	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:29070189C>T	uc001brc.2	+	4	1904	c.1407C>T	c.(1405-1407)GGC>GGT	p.G469G	YTHDF2_uc001brd.2_Silent_p.G466G|YTHDF2_uc010ofx.1_Silent_p.G419G|YTHDF2_uc001bre.2_Silent_p.G419G	NM_016258	NP_057342	Q9Y5A9	YTHD2_HUMAN	high glucose-regulated protein 8	469	YTH.				humoral immune response					ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000601)|all_lung(284;0.000771)|Breast(348;0.00502)|Renal(390;0.00758)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;5.46e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0221)|KIRC - Kidney renal clear cell carcinoma(1967;0.0296)|READ - Rectum adenocarcinoma(331;0.0649)		ACTTCTGTGGCGTGGCAGAAA	0.483													11	27					0	0	0.000978	0	0		T	29070189	T	T	29070189	2	4	4	1	0	0	0	0	0	0	0	1	17525	755	27	1		1	YTHDF2	1	29070189	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	893579	29070189	220180432	67	2033											
EPB41	2035	broad.mit.edu	37	chr1	29365769	29365769	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacgattttccccccagattGacatctacagacaccattcc	11	11	4	15	1	1	3	0	1	1	2	3	4	3	3	5	0	2	0	5	0	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:29365769G>C	uc001brm.1	+	10	1474	c.1467G>C	c.(1465-1467)TTG>TTC	p.L489F	EPB41_uc001brg.1_Missense_Mutation_p.L280F|EPB41_uc001brh.1_Missense_Mutation_p.L280F|EPB41_uc001bri.1_Missense_Mutation_p.L454F|EPB41_uc001brj.1_Missense_Mutation_p.L280F|EPB41_uc009vtk.1_Missense_Mutation_p.L454F|EPB41_uc001brk.2_Missense_Mutation_p.L489F|EPB41_uc001brl.1_Missense_Mutation_p.L489F|EPB41_uc009vtl.1_Missense_Mutation_p.L280F|EPB41_uc009vtm.1_Missense_Mutation_p.L122F	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1	489	FERM.				blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)		CCCCCAGATTGACATCTACAG	0.353													28	59					0	0	0.007291	0	0		C	29365769	C	C	29365769	3	2	4	1	0	0	0	0	1	0	0	0	5159	1281	45	5	1505	5	EPB41	1	29365769	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	295580	29365769	219884852	68	2034											
MECR	51102	broad.mit.edu	37	chr1	29533360	29533360	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgctctgaagagggatgTcactcggaacttggatcagt	10	9	13	9	2	3	2	2	1	1	1	4	5	3	5	0	3	2	1	0	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:29533360T>C	uc001brq.1	-	4	500	c.464A>G	c.(463-465)GAC>GGC	p.D155G	MECR_uc001brp.1_Missense_Mutation_p.D79G|MECR_uc001brr.1_Missense_Mutation_p.D79G|MECR_uc001brs.1_RNA|MECR_uc001brt.1_Missense_Mutation_p.D79G|MECR_uc010ofz.1_Missense_Mutation_p.D155G	NM_016011	NP_057095	Q9BV79	MECR_HUMAN	trans-2-enoyl-CoA reductase, mitochondrial	155					fatty acid biosynthetic process	mitochondrion	trans-2-enoyl-CoA reductase (NADPH) activity|zinc ion binding			ovary(1)	1		Colorectal(325;0.000389)|Breast(348;0.00765)|Lung NSC(340;0.0081)|all_lung(284;0.00914)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.39e-07)|COAD - Colon adenocarcinoma(152;2.04e-05)|STAD - Stomach adenocarcinoma(196;0.0195)|BRCA - Breast invasive adenocarcinoma(304;0.053)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.137)		AAGAGGGATGTCACTCGGAAC	0.567													8	39					0	0	0.004482	0	0		C	29533360	C	C	29533360	3	2	4	1	0	0	0	0	1	0	0	0	9442	1667	58	3	685	3	MECR	1	29533360	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	167591	29533360	219717261	69	2035											
FABP3	2170	broad.mit.edu	37	chr1	31838774	31838774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagtgcaaactgcagtgcCgtgggtgagtgtctggaagg	8	8	18	7	2	1	1	0	1	1	0	1	3	1	2	1	3	4	2	1	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:31838774C>T	uc001bss.1	-	4	423	c.361G>A	c.(361-363)GGC>AGC	p.G121S		NM_004102	NP_004093	P05413	FABPH_HUMAN	fatty acid binding protein 3	121					negative regulation of cell proliferation					ovary(1)	1		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0629)|Breast(348;0.0707)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0185)|READ - Rectum adenocarcinoma(331;0.149)		ACTGCAGTGCCGTGGGTGAGT	0.542													8	24					0	0	0.00308	0	0		T	31838774	T	T	31838774	3	4	4	1	0	0	0	0	1	0	0	0	5369	652	23	1	44	1	FABP3	1	31838774	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2305414	31838774	217411847	70	2036											
TINAGL1	64129	broad.mit.edu	37	chr1	32042850	32042850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgccgggagctagcaccggGtctgcacctgcggggcatcc	5	5	16	15	4	1	0	0	0	1	0	2	1	2	1	4	4	4	4	4	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:32042850G>A	uc001bta.2	+	2	227	c.101G>A	c.(100-102)GGT>GAT	p.G34D	TINAGL1_uc001bsz.2_Intron|TINAGL1_uc010ogi.1_Missense_Mutation_p.G34D|TINAGL1_uc010ogj.1_Missense_Mutation_p.G34D|TINAGL1_uc010ogk.1_Missense_Mutation_p.G34D	NM_022164	NP_071447	Q9GZM7	TINAL_HUMAN	tubulointerstitial nephritis antigen-like 1	34					endosome transport|immune response|proteolysis	extracellular region	cysteine-type endopeptidase activity|extracellular matrix structural constituent|polysaccharide binding|scavenger receptor activity				0		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		STAD - Stomach adenocarcinoma(196;0.0526)|READ - Rectum adenocarcinoma(331;0.145)		CTAGCACCGGGTCTGCACCTG	0.711													4	11					0	0	0.000602	0	0		A	32042850	A	A	32042850	3	1	4	1	0	0	0	0	1	0	0	0	15947	1261	44	4	103	4	TINAGL1	1	32042850	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	204076	32042850	217207771	71	2037											
SPOCD1	90853	broad.mit.edu	37	chr1	32265460	32265460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcttcagcctccattgggCcactctgtaggggaggcgtg	5	10	13	13	1	3	0	1	0	2	0	4	1	4	1	4	4	1	1	4	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:32265460C>T	uc001bts.1	-	6	1791	c.1733G>A	c.(1732-1734)GGC>GAC	p.G578D	SPOCD1_uc001btt.2_5'Flank|SPOCD1_uc001btu.2_Missense_Mutation_p.G578D|SPOCD1_uc001btv.2_Missense_Mutation_p.G71D|SPOCD1_uc001btw.1_5'Flank	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	578					transcription, DNA-dependent					ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)		CTCCATTGGGCCACTCTGTAG	0.622													4	29					0	0	0.001168	0	0		T	32265460	T	T	32265460	3	4	4	1	0	0	0	0	1	0	0	0	15103	739	26	2	1961	2	SPOCD1	1	32265460	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	222610	32265460	216985161	72	2038											
EIF3I	8668	broad.mit.edu	37	chr1	32690021	32690021	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactcttcaggggacaccaaGcatgtcctcactggctcagc	10	8	9	14	0	4	0	3	0	1	0	5	1	5	1	2	3	3	2	2	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:32690021G>A	uc001bur.3	+	5	728	c.195G>A	c.(193-195)AAG>AAA	p.K65K	C1orf91_uc001buo.3_5'Flank|C1orf91_uc001bup.3_5'Flank|C1orf91_uc009vub.1_5'Flank|C1orf91_uc010oha.1_5'Flank|C1orf91_uc001buq.3_5'Flank|EIF3I_uc009vuc.2_Silent_p.K65K|EIF3I_uc001bus.2_Silent_p.K17K	NM_003757	NP_003748	Q13347	EIF3I_HUMAN	eukaryotic translation initiation factor 3,	65	WD 2.					cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)				GGGACACCAAGCATGTCCTCA	0.488													5	48					0	0	0.00308	0	0		A	32690021	A	A	32690021	2	1	4	1	0	0	0	0	0	0	0	1	5027	962	34	2		2	EIF3I	1	32690021	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	424561	32690021	216560600	73	2039											
SYNC	81493	broad.mit.edu	37	chr1	33160998	33160998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccggatctcctcccttaggCcatctctctccagctctgct	4	12	7	18	1	4	0	0	0	4	0	8	1	5	1	5	2	2	2	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:33160998C>T	uc001bvt.2	-	2	801	c.701G>A	c.(700-702)GGC>GAC	p.G234D	SYNC_uc010ohl.1_Missense_Mutation_p.G234D	NM_030786	NP_110413	Q9H7C4	SYNCI_HUMAN	syncoilin, intermediate filament 1 isoform 1	234	Coil 1b.					intermediate filament|perinuclear region of cytoplasm	structural molecule activity			ovary(1)	1						CTCCCTTAGGCCATCTCTCTC	0.562													3	4					0	0	0.009096	0	0		T	33160998	T	T	33160998	3	4	4	1	0	0	0	0	1	0	0	0	15468	739	26	2	825	2	SYNC	1	33160998	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	470977	33160998	216089623	74	2040											
PHC2	1912	broad.mit.edu	37	chr1	33836643	33836643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgactgggccggggcctgcGcagacacattgctgcctgaa	8	7	14	12	2	0	3	0	2	0	1	0	3	0	3	3	3	3	2	3	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:33836643G>A	uc001bxg.1	-	3	440	c.386C>T	c.(385-387)GCG>GTG	p.A129V	PHC2_uc001bxh.1_Missense_Mutation_p.A129V|PHC2_uc009vuh.1_Missense_Mutation_p.A129V|PHC2_uc001bxi.1_Missense_Mutation_p.A129V	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	129					multicellular organismal development	PcG protein complex	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				CGGGGCCTGCGCAGACACATT	0.562													25	43					0	0	0.002836	0	0		A	33836643	A	A	33836643	3	1	4	1	0	0	0	0	1	0	0	0	11836	1087	38	1	2238	1	PHC2	1	33836643	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	675645	33836643	215413978	75	2041											
PHC2	1912	broad.mit.edu	37	chr1	33840979	33840979	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actcttacctgcacggtctgCcggtctggaataccactgta	8	11	9	13	2	3	0	0	0	3	0	3	1	3	1	3	3	4	2	3	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:33840979C>T	uc001bxg.1	-	1	216	c.162G>A	c.(160-162)CGG>CGA	p.R54R	PHC2_uc001bxh.1_Silent_p.R54R|PHC2_uc009vuh.1_Silent_p.R54R|PHC2_uc001bxi.1_Silent_p.R54R	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	54					multicellular organismal development	PcG protein complex	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				GCACGGTCTGCCGGTCTGGAA	0.373													18	76					0	0	0.008871	0	0		T	33840979	T	T	33840979	2	4	4	1	0	0	0	0	0	0	0	1	11836	726	26	2		2	PHC2	1	33840979	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4336	33840979	215409642	76	2042											
ZSCAN20	7579	broad.mit.edu	37	chr1	33944899	33944899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggttagacaatggctatgGccctggaattgcaagcccag	10	9	13	9	0	0	1	0	0	0	1	0	2	0	2	2	4	2	3	2	4	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:33944899G>A	uc001bxj.3	+	2	177	c.10G>A	c.(10-12)GCC>ACC	p.A4T	ZSCAN20_uc001bxk.2_Missense_Mutation_p.A4T|ZSCAN20_uc009vui.2_Missense_Mutation_p.A4T	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	4					viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AATGGCTATGGCCCTGGAATT	0.507													8	83					0	0	0.008291	0	0		A	33944899	A	A	33944899	3	1	4	1	0	0	0	0	1	0	0	0	18257	1203	42	2	12	2	ZSCAN20	1	33944899	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	103920	33944899	215305722	77	2043											
CSMD2	114784	broad.mit.edu	37	chr1	33985194	33985194	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgggctggatgttgcggTcgtacattgggttctcaaat	6	14	14	7	2	1	0	1	0	1	0	3	1	1	1	0	4	2	4	0	4	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:33985194T>C	uc001bxn.1	-	69	10417	c.10388A>G	c.(10387-10389)GAC>GGC	p.D3463G	CSMD2_uc001bxm.1_Missense_Mutation_p.D3607G	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3463	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GATGTTGCGGTCGTACATTGG	0.562													46	114					0	0	0.00361	0	0		C	33985194	C	C	33985194	3	2	4	1	0	0	0	0	1	0	0	0	3948	1667	58	3	79	3	CSMD2	1	33985194	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	40295	33985194	215265427	78	2044											
CSMD2	114784	broad.mit.edu	37	chr1	34128652	34128652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcccagatgcgcagcaCgtcgtgaacctcctctgtgt	7	9	9	16	3	1	2	0	1	1	1	4	2	3	2	4	0	3	2	4	0	1	0	rs142169949	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:34128652C>T	uc001bxn.1	-	26	4002	c.3973G>A	c.(3973-3975)GTG>ATG	p.V1325M	CSMD2_uc001bxm.1_Missense_Mutation_p.V1365M|CSMD2_uc001bxo.1_Missense_Mutation_p.V238M	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1325	CUB 8.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				ATGCGCAGCACGTCGTGAACC	0.602													16	25					0	0	0.010504	0	0		T	34128652	T	T	34128652	3	4	4	1	0	0	0	0	1	0	0	0	3948	536	19	1	6666	1	CSMD2	1	34128652	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	143458	34128652	215121969	79	2045											
ZMYM4	9202	broad.mit.edu	37	chr1	35855553	35855553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accttcttctttttagatggCcaaatgtgatgcttgtaagc	9	16	8	8	0	2	2	0	1	2	1	2	2	2	2	2	1	2	2	2	1	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:35855553C>T	uc001byt.2	+	15	2521	c.2441C>T	c.(2440-2442)GCC>GTC	p.A814V	ZMYM4_uc009vuu.2_Missense_Mutation_p.A782V|ZMYM4_uc001byu.2_Missense_Mutation_p.A490V|ZMYM4_uc009vuv.2_Missense_Mutation_p.A553V	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	814	MYM-type 9.				multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TTTTAGATGGCCAAATGTGAT	0.368													8	58					0	0	0.008291	0	0		T	35855553	T	T	35855553	3	4	4	1	0	0	0	0	1	0	0	0	17727	739	26	2	2499	2	ZMYM4	1	35855553	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1726901	35855553	213395068	80	2046											
PSMB2	5690	broad.mit.edu	37	chr1	36074953	36074953	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtagtccatgtaatacagCgctggcccttcatgctcatc	9	11	9	12	1	2	0	2	0	0	0	4	0	3	0	2	2	3	4	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:36074953C>T	uc001bzf.1	-	4	452	c.342G>A	c.(340-342)GCG>GCA	p.A114A	PSMB2_uc001bzd.1_Silent_p.A114A|PSMB2_uc010ohz.1_Silent_p.A89A|PSMB2_uc001bzg.1_Silent_p.A114A	NM_002794	NP_002785	P49721	PSB2_HUMAN	proteasome beta 2 subunit	114					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)			Bortezomib(DB00188)	TGTAATACAGCGCTGGCCCTT	0.512													4	42					0	0	0.009096	0	0		T	36074953	T	T	36074953	2	4	4	1	0	0	0	0	0	0	0	1	12699	755	27	1		1	PSMB2	1	36074953	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	219400	36074953	213175668	81	2047											
CLSPN	63967	broad.mit.edu	37	chr1	36203693	36203693	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagctgtaattttcccctgCtgtgcctgaaaaaaaaaaaa	15	11	6	9	0	1	1	1	1	0	0	2	1	2	1	3	0	3	3	3	0	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:36203693C>T	uc001bzi.2	-	22	3644	c.3564G>A	c.(3562-3564)CAG>CAA	p.Q1188Q	CLSPN_uc009vux.2_Silent_p.Q1124Q	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	1188					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TTTTCCCCTGCTGTGCCTGAA	0.343													9	20					0	0	0.008291	0	0		T	36203693	T	T	36203693	2	4	4	1	0	0	0	0	0	0	0	1	3563	796	28	2		2	CLSPN	1	36203693	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	128740	36203693	213046928	82	2048											
EIF2C1	26523	broad.mit.edu	37	chr1	36367904	36367904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgggccatcgcctgcttcGcaccccaaaaacagtgtcga	9	8	9	15	3	1	0	0	0	1	0	4	1	1	0	4	1	2	2	4	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:36367904G>A	uc001bzl.2	+	11	1576	c.1363G>A	c.(1363-1365)GCA>ACA	p.A455T	EIF2C1_uc001bzk.2_Missense_Mutation_p.A380T|EIF2C1_uc009vuy.2_Intron	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	455					negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CGCCTGCTTCGCACCCCAAAA	0.572													11	42					0	0	0.001368	0	0		A	36367904	A	A	36367904	3	1	4	1	0	0	0	0	1	0	0	0	5011	1087	38	1	1405	1	EIF2C1	1	36367904	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	164211	36367904	212882717	83	2049											
THRAP3	9967	broad.mit.edu	37	chr1	36752132	36752132	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccatggggccaatataacCgaggaggctatggaaactac	14	7	11	9	1	0	0	0	0	0	0	1	3	1	2	3	5	3	1	3	5	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:36752132C>T	uc001cae.3	+	4	525	c.301C>T	c.(301-303)CGA>TGA	p.R101*	THRAP3_uc001caf.3_Nonsense_Mutation_p.R101*|THRAP3_uc001cag.1_Nonsense_Mutation_p.R101*	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	101	Arg-rich.|Ser-rich.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CCAATATAACCGAGGAGGCTA	0.502			T	USP6	aneurysmal bone cysts								6	141					0	0	0.00308	0	0		T	36752132	T	T	36752132	4	4	4	1	0	0	0	0	0	1	0	0	15899	644	23	1	307	1	THRAP3	1	36752132	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	384228	36752132	212498489	84	2050											
OSCP1	127700	broad.mit.edu	37	chr1	36886127	36886127	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaccggaatccgggctcaggGccactgggtttcttaatctc	8	10	11	12	2	3	0	1	0	2	0	5	1	4	1	3	4	1	2	3	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:36886127G>A	uc001cap.2	-	9	1021	c.939C>T	c.(937-939)GGC>GGT	p.G313G	OSCP1_uc001caq.2_Silent_p.G303G	NM_145047	NP_659484	Q8WVF1	OSCP1_HUMAN	oxidored-nitro domain-containing protein isoform	313					transport	basal plasma membrane				ovary(2)|central_nervous_system(1)|pancreas(1)	4						CGGGCTCAGGGCCACTGGGTT	0.348											OREG0013368	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	304					0	0	0.00278	0	0		A	36886127	A	A	36886127	2	1	4	1	0	0	0	0	0	0	0	1	11305	1190	42	2		2	OSCP1	1	36886127	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	133995	36886127	212364494	85	2051											
EPHA10	284656	broad.mit.edu	37	chr1	38227345	38227345	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgccacgcatgcgcccacGtcctgaaaggccaggtggaa	10	4	13	14	4	0	1	0	1	0	0	1	2	1	2	4	3	2	1	4	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:38227345G>A	uc009vvi.2	-	3	668	c.582C>T	c.(580-582)GAC>GAT	p.D194D	EPHA10_uc001cbw.3_Silent_p.D194D	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	194	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				ATGCGCCCACGTCCTGAAAGG	0.677													5	18					0	0	0.000602	0	0		A	38227345	A	A	38227345	2	1	4	1	0	0	0	0	0	0	0	1	5174	1136	40	1		1	EPHA10	1	38227345	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1341218	38227345	211023276	86	2052											
MACF1	23499	broad.mit.edu	37	chr1	39797772	39797772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctagtagctgctaagatcGcccttgtgattctggagtcc	8	13	10	10	1	2	2	0	1	2	1	4	3	3	3	2	1	2	3	2	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:39797772G>A	uc010oiu.1	+	1	963	c.832G>A	c.(832-834)GCC>ACC	p.A278T	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1843	Plectin 4.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TGCTAAGATCGCCCTTGTGAT	0.488													23	53					0	0	0.003954	0	0		A	39797772	A	A	39797772	3	1	4	1	0	0	0	0	1	0	0	0	9162	1087	38	1	5603	1	MACF1	1	39797772	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1570427	39797772	209452849	87	2053											
MACF1	23499	broad.mit.edu	37	chr1	39926453	39926453	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcaggagtttatcgatggCattttagcatccagtgagtc	9	13	11	8	2	1	1	1	1	0	0	4	3	2	2	1	2	1	3	1	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:39926453C>T	uc010oiu.1	+	57	16970	c.16839C>T	c.(16837-16839)GGC>GGT	p.G5613G	MACF1_uc010ois.1_Silent_p.G5111G|MACF1_uc001cde.1_5'Flank|MACF1_uc001cdf.1_5'Flank	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7069	EF-hand 1.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TTATCGATGGCATTTTAGCAT	0.433													19	100					0	0	0.003954	0	0		T	39926453	T	T	39926453	2	4	4	1	0	0	0	0	0	0	0	1	9162	697	25	2		2	MACF1	1	39926453	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	128681	39926453	209324168	88	2054											
MACF1	23499	broad.mit.edu	37	chr1	39951352	39951352	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgacacttcagaaagcagCgctgcagggggccaaggcaa	12	4	13	12	2	1	1	1	0	0	1	2	2	2	1	2	3	3	4	2	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:39951352C>T	uc010oiu.1	+	64	17834	c.17703C>T	c.(17701-17703)AGC>AGT	p.S5901S	MACF1_uc010ois.1_Silent_p.S5393S|MACF1_uc001cde.1_Silent_p.S307S|MACF1_uc001cdf.1_Silent_p.S276S|MACF1_uc001cdg.2_3'UTR|MACF1_uc001cdh.2_3'UTR	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7351	Ser-rich.|C-terminal tail (By similarity).				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CAGAAAGCAGCGCTGCAGGGG	0.507													15	61					0	0	0.00499	0	0		T	39951352	T	T	39951352	2	4	4	1	0	0	0	0	0	0	0	1	9162	767	27	1		1	MACF1	1	39951352	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24899	39951352	209299269	89	2055											
PPIE	10450	broad.mit.edu	37	chr1	40205879	40205879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgacaaagttcttcatgctgCgttcattccttttggagaca	9	14	8	10	2	3	1	2	0	1	1	4	3	4	1	1	1	2	3	1	1	1	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:40205879C>T	uc001cds.1	+	2	117	c.74C>T	c.(73-75)GCG>GTG	p.A25V	PPIE_uc001cdt.1_5'UTR|PPIE_uc010oiy.1_5'UTR|PPIE_uc001cdu.1_RNA|PPIE_uc001cdv.2_Missense_Mutation_p.A25V|PPIE_uc001cdw.2_Missense_Mutation_p.A25V|PPIE_uc001cdx.1_5'Flank	NM_006112	NP_006103	Q9UNP9	PPIE_HUMAN	peptidylprolyl isomerase E isoform 1	25	RRM.				protein folding|regulation of transcription, DNA-dependent	catalytic step 2 spliceosome	cyclosporin A binding|nucleotide binding|peptidyl-prolyl cis-trans isomerase activity|protein binding|RNA binding				0	all_cancers(7;1.63e-13)|all_lung(5;2.27e-16)|all_epithelial(6;1.35e-15)|Lung NSC(20;1.49e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;2.7e-17)|all cancers(16;5.5e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CTTCATGCTGCGTTCATTCCT	0.453													4	33					0	0	0.009096	0	0		T	40205879	T	T	40205879	3	4	4	1	0	0	0	0	1	0	0	0	12344	768	27	1	80	1	PPIE	1	40205879	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	254527	40205879	209044742	90	2056											
MYCL1	4610	broad.mit.edu	37	chr1	40363547	40363547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtggaaatgcttcatgcaggGatccagggggtctgctcgca	8	9	15	9	1	2	0	1	0	1	0	4	2	3	2	1	4	3	4	1	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:40363547G>A	uc001cer.1	-	3	809	c.592C>T	c.(592-594)CCC>TCC	p.P198S	MYCL1_uc001ces.1_Missense_Mutation_p.P198S	NM_001033082	NP_001028254	P12524	MYCL1_HUMAN	l-myc-1 proto-oncogene isoform 1	198						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|liver(1)	2	all_cancers(7;1.73e-14)|all_lung(5;2.77e-17)|all_epithelial(6;6.81e-17)|Lung SC(1;2.85e-13)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.51e-19)|Epithelial(16;3.36e-18)|all cancers(16;8.43e-17)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TTCATGCAGGGATCCAGGGGG	0.517			A		small cell lung 								6	75					0	0	0.00308	0	0		A	40363547	A	A	40363547	3	1	4	1	0	0	0	0	1	0	0	0	10038	1174	41	4	506	4	MYCL1	1	40363547	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	157668	40363547	208887074	91	2057											
RLF	6018	broad.mit.edu	37	chr1	40702413	40702413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccggtacagactgttcccGtgtgtttaagcaatttaaat	10	14	8	9	2	0	1	0	0	0	1	2	1	2	1	2	1	2	4	2	1	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:40702413G>A	uc001cfc.3	+	8	2070	c.2039G>A	c.(2038-2040)CGT>CAT	p.R680H	RLF_uc001cfd.3_Missense_Mutation_p.R371H	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	680	C2H2-type 2.				chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			GACTGTTCCCGTGTGTTTAAG	0.378													27	87					0	0	0.008361	0	0		A	40702413	A	A	40702413	3	1	4	1	0	0	0	0	1	0	0	0	13414	1145	40	1	2069	1	RLF	1	40702413	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	338866	40702413	208548208	92	2058											
SMAP2	64744	broad.mit.edu	37	chr1	40887722	40887722	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggacagtcaatgagtggCggaaatggacaggcagcaaa	15	6	14	6	1	1	1	1	1	0	0	1	4	1	4	0	5	1	2	0	5	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:40887722C>T	uc001cfj.2	+	10	1304	c.1239C>T	c.(1237-1239)GGC>GGT	p.G413G	SMAP2_uc001cfk.2_Silent_p.G383G|SMAP2_uc010oji.1_Silent_p.G330G|SMAP2_uc010ojj.1_Silent_p.G229G	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	413	Interaction with PICALM (By similarity).				regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)			CAATGAGTGGCGGAAATGGAC	0.493													14	44					0	0	0.010504	0	0		T	40887722	T	T	40887722	2	4	4	1	0	0	0	0	0	0	0	1	14792	755	27	1		1	SMAP2	1	40887722	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	185309	40887722	208362899	93	2059											
DEM1	64789	broad.mit.edu	37	chr1	40981166	40981166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caaagagaaggaggtgagagCcaaggtgcagcattatatgg	15	6	15	5	0	0	2	0	1	0	2	0	5	0	3	1	4	3	2	1	4	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:40981166C>T	uc001cfp.2	+	3	1155	c.950C>T	c.(949-951)GCC>GTC	p.A317V	DEM1_uc001cfq.2_Missense_Mutation_p.A317V|DEM1_uc001cfr.2_Missense_Mutation_p.A317V|DEM1_uc001cfs.2_Missense_Mutation_p.A317V	NM_022774	NP_073611	Q9H790	EXO5_HUMAN	defects in morphology 1 homolog	317							DNA binding|exonuclease activity				0						GAGGTGAGAGCCAAGGTGCAG	0.522													7	51					0	0	0.001984	0	0		T	40981166	T	T	40981166	3	4	4	1	0	0	0	0	1	0	0	0	4431	739	26	2	952	2	DEM1	1	40981166	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	93444	40981166	208269455	94	2060											
KCNQ4	9132	broad.mit.edu	37	chr1	41300742	41300742	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcaggccacctggacatgCtgggccggatcaagagcctg	9	5	14	13	1	1	1	1	0	0	1	1	3	1	3	4	4	3	2	4	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:41300742C>T	uc001cgh.1	+	12	1799	c.1717C>T	c.(1717-1719)CTG>TTG	p.L573L	KCNQ4_uc001cgi.1_Silent_p.L519L	NM_004700	NP_004691	P56696	KCNQ4_HUMAN	potassium voltage-gated channel KQT-like protein	573	Cytoplasmic.|A-domain (Tetramerization).				sensory perception of sound	basal plasma membrane|voltage-gated potassium channel complex				central_nervous_system(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.38e-17)			CCTGGACATGCTGGGCCGGAT	0.602													22	57					0	0	0.00333	0	0		T	41300742	T	T	41300742	2	4	4	1	0	0	0	0	0	0	0	1	8101	796	28	2		2	KCNQ4	1	41300742	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	319576	41300742	207949879	95	2061											
CTPS	1503	broad.mit.edu	37	chr1	41463094	41463094	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttgctggagacctgctctAttgcccttgtgggcaaatac	7	12	11	11	0	1	1	0	0	1	1	1	2	1	1	2	2	4	4	2	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:41463094A>G	uc001cgk.3	+	9	1409	c.901A>G	c.(901-903)ATT>GTT	p.I301V	CTPS_uc010ojo.1_Missense_Mutation_p.I70V|CTPS_uc001cgl.3_Missense_Mutation_p.I301V|CTPS_uc010ojq.1_Missense_Mutation_p.I145V|CTPS_uc009vwe.2_Missense_Mutation_p.I21V	NM_001905	NP_001896	P17812	PYRG1_HUMAN	CTP synthase	301	Glutamine amidotransferase type-1.				CTP biosynthetic process|glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|response to drug	cytosol	ATP binding|CTP synthase activity|protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)			L-Glutamine(DB00130)	GACCTGCTCTATTGCCCTTGT	0.428													8	94					0	0	0.004482	0	0		G	41463094	G	G	41463094	3	3	4	1	0	0	0	0	1	0	0	0	4025	449	16	3	931	3	CTPS	1	41463094	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	162352	41463094	207787527	96	2062											
SLFNL1	200172	broad.mit.edu	37	chr1	41483534	41483534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggcgcacacgtagcgccGcacgtggtgcttgaaggcca	9	5	15	12	5	0	1	0	1	0	0	0	2	0	1	2	3	2	4	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:41483534G>A	uc001cgm.1	-	3	950	c.730C>T	c.(730-732)CGG>TGG	p.R244W	SLFNL1_uc009vwf.1_Missense_Mutation_p.R244W|SLFNL1_uc001cgn.1_Missense_Mutation_p.R185W|SLFNL1_uc009vwg.1_Missense_Mutation_p.R244W	NM_144990	NP_659427	Q499Z3	SLNL1_HUMAN	schlafen-like 1	244							ATP binding			skin(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0393)				ACGTAGCGCCGCACGTGGTGC	0.662													4	11					0	0	0.009096	0	0		A	41483534	A	A	41483534	3	1	4	1	0	0	0	0	1	0	0	0	14763	1086	38	1	505	1	SLFNL1	1	41483534	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	20440	41483534	207767087	97	2063											
FOXJ3	22887	broad.mit.edu	37	chr1	42664858	42664858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgttgttaaggctactgCgtgggctatcactaccatcc	8	12	10	11	1	1	0	1	0	0	0	2	1	2	0	2	2	3	4	2	2	4	5	rs146466322		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:42664858C>T	uc001che.2	-	9	986	c.674G>A	c.(673-675)CGC>CAC	p.R225H	FOXJ3_uc001chf.2_Missense_Mutation_p.R225H|FOXJ3_uc001chg.2_Missense_Mutation_p.R225H|FOXJ3_uc001chh.1_Missense_Mutation_p.R191H	NM_014947	NP_055762	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	225					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)	2	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				AAGGCTACTGCGTGGGCTATC	0.373													18	76					0	0	0.008871	0	0		T	42664858	T	T	42664858	3	4	4	1	0	0	0	0	1	0	0	0	6027	768	27	1	1222	1	FOXJ3	1	42664858	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1181324	42664858	206585763	98	2064											
LEPRE1	64175	broad.mit.edu	37	chr1	43213468	43213468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatttaggtaaaggatggCgctgggaaaggcagagacat	13	7	14	7	1	0	1	0	0	0	1	0	4	0	3	1	5	0	3	1	5	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:43213468C>T	uc001chv.2	-	13	1953	c.1840G>A	c.(1840-1842)GCC>ACC	p.A614T	LEPRE1_uc001chw.2_Missense_Mutation_p.A614T|LEPRE1_uc001chx.3_Missense_Mutation_p.A614T	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	614	Fe2OG dioxygenase.				negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	TAAAGGATGGCGCTGGGAAAG	0.557													5	94					0	0	0.000602	0	0		T	43213468	T	T	43213468	3	4	4	1	0	0	0	0	1	0	0	0	8745	782	27	1	401	1	LEPRE1	1	43213468	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	548610	43213468	206037153	99	2065											
SLC2A1	6513	broad.mit.edu	37	chr1	43396803	43396803	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccactgagagggaccagagCgtggtgagcgtggtgggcag	8	5	20	8	2	0	3	0	2	0	2	0	5	0	4	2	4	2	1	2	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:43396803C>T	uc001cik.2	-	3	714	c.189G>A	c.(187-189)ACG>ACA	p.T63T		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	63	Extracellular (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	GGGACCAGAGCGTGGTGAGCG	0.587											OREG0013425	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	47					0	0	0.000602	0	0		T	43396803	T	T	43396803	2	4	4	1	0	0	0	0	0	0	0	1	14563	755	27	1		1	SLC2A1	1	43396803	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	183335	43396803	205853818	100	2066											
EBNA1BP2	10969	broad.mit.edu	37	chr1	43634619	43634619	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcttctcaccttcttcccGtatttcctaagtgctcgcag	5	17	5	14	2	3	0	1	0	3	0	7	0	5	0	3	0	1	3	3	0	2	7	rs142130646	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:43634619G>A	uc001cin.2	-	5	725	c.528C>T	c.(526-528)TAC>TAT	p.Y176Y	EBNA1BP2_uc001cio.2_Silent_p.Y231Y|EBNA1BP2_uc001cim.2_Silent_p.Y71Y|EBNA1BP2_uc010ojx.1_Silent_p.Y231Y	NM_006824	NP_006815	Q99848	EBP2_HUMAN	EBNA1 binding protein 2 isoform 2	176					ribosome biogenesis	membrane fraction|nucleolus	protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCTTCTTCCCGTATTTCCTAA	0.493													49	215					0	0	0.00361	0	0		A	43634619	A	A	43634619	2	1	4	1	0	0	0	0	0	0	0	1	4891	1140	40	1		1	EBNA1BP2	1	43634619	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	237816	43634619	205616002	101	2067											
KIAA0467	23334	broad.mit.edu	37	chr1	43896333	43896333	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcagtatcttggggggCgactcacccactgggcctga	6	10	12	13	1	3	1	2	1	1	0	4	2	4	1	3	4	0	1	3	4	1	3	rs149192929	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:43896333C>T	uc001cjk.1	+	17	2412	c.1950C>T	c.(1948-1950)GGC>GGT	p.G650G		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1549						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TCTTGGGGGGCGACTCACCCA	0.602													27	63					0	0	0.009535	0	0		T	43896333	T	T	43896333	2	4	4	1	0	0	0	0	0	0	0	1	8194	755	27	1		1	KIAA0467	1	43896333	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	261714	43896333	205354288	102	2068											
KIAA0467	23334	broad.mit.edu	37	chr1	43904428	43904428	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcgcctggatgaggccacGctggacgtcatcacagttat	8	8	13	12	4	2	1	2	1	0	0	2	3	2	3	2	4	0	2	2	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:43904428G>A	uc001cjk.1	+	32	4332	c.3870G>A	c.(3868-3870)ACG>ACA	p.T1290T		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	2189						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				ATGAGGCCACGCTGGACGTCA	0.577													7	18					0	0	0.008291	0	0		A	43904428	A	A	43904428	2	1	4	1	0	0	0	0	0	0	0	1	8194	1074	38	1		1	KIAA0467	1	43904428	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8095	43904428	205346193	103	2069											
PTPRF	5792	broad.mit.edu	37	chr1	44086246	44086246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagttcaaggtcacggatgCccgggtgagtgagtgcattg	8	10	16	7	2	2	3	2	3	0	0	2	4	2	4	1	3	2	2	1	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:44086246C>T	uc001cjr.2	+	31	5700	c.5360C>T	c.(5359-5361)GCC>GTC	p.A1787V	PTPRF_uc001cjs.2_Missense_Mutation_p.A1778V|PTPRF_uc001cju.2_Missense_Mutation_p.A1176V|PTPRF_uc009vwt.2_Missense_Mutation_p.A1347V|PTPRF_uc001cjv.2_Missense_Mutation_p.A1258V|PTPRF_uc001cjw.2_Missense_Mutation_p.A1013V	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1787	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GTCACGGATGCCCGGGTGAGT	0.547													22	68					0	0	0.00333	0	0		T	44086246	T	T	44086246	3	4	4	1	0	0	0	0	1	0	0	0	12826	739	26	2	5474	2	PTPRF	1	44086246	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	181818	44086246	205164375	104	2070											
KDM4A	9682	broad.mit.edu	37	chr1	44128589	44128589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgagtggaatattggcCggctgagaacaatcctggac	11	10	13	7	1	0	3	0	3	0	1	1	6	1	5	2	4	1	1	2	4	4	3	rs140820309		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:44128589C>T	uc001cjx.2	+	5	620	c.454C>T	c.(454-456)CGG>TGG	p.R152W	KDM4A_uc010oki.1_Missense_Mutation_p.R152W	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	152	JmjC.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding	p.R152W(1)		skin(1)	1						GAATATTGGCCGGCTGAGAAC	0.478													17	57					0	0	0.004656	0	0		T	44128589	T	T	44128589	3	4	4	1	0	0	0	0	1	0	0	0	8144	643	23	1	468	1	KDM4A	1	44128589	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	42343	44128589	205122032	105	2071											
KDM4A	9682	broad.mit.edu	37	chr1	44137305	44137305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcgtctgtagggggacGccttgtcttctcaggctcca	4	12	12	13	2	3	0	1	0	3	0	6	1	5	1	3	3	1	2	3	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:44137305G>A	uc001cjx.2	+	11	1659	c.1493G>A	c.(1492-1494)CGC>CAC	p.R498H	KDM4A_uc010oki.1_Intron	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	498					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1						GTAGGGGGACGCCTTGTCTTC	0.478													30	46					0	0	0.002096	0	0		A	44137305	A	A	44137305	3	1	4	1	0	0	0	0	1	0	0	0	8144	1087	38	1	1531	1	KDM4A	1	44137305	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8716	44137305	205113316	106	2072											
B4GALT2	8704	broad.mit.edu	37	chr1	44446911	44446911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctgctgcacttcctcgtgGccgtcatcctctactttgac	4	13	8	16	2	2	1	1	1	1	0	5	1	4	1	4	1	3	2	4	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:44446911G>A	uc001clg.2	+	2	449	c.79G>A	c.(79-81)GCC>ACC	p.A27T	B4GALT2_uc001clh.2_5'UTR|B4GALT2_uc010okl.1_Missense_Mutation_p.A56T|B4GALT2_uc001cli.2_Missense_Mutation_p.A27T	NM_003780	NP_003771	O60909	B4GT2_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	27	Helical; Signal-anchor for type II membrane protein; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			N-Acetyl-D-glucosamine(DB00141)	CTTCCTCGTGGCCGTCATCCT	0.652													13	29					0	0	0.00245	0	0		A	44446911	A	A	44446911	3	1	4	1	0	0	0	0	1	0	0	0	1272	1203	42	2	81	2	B4GALT2	1	44446911	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	309606	44446911	204803710	107	2073											
SLC6A9	6536	broad.mit.edu	37	chr1	44467145	44467145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggaagtagtgtgagggcctCggggtaagccacgaaggcca	10	5	18	8	2	0	1	0	1	0	0	1	3	0	2	3	5	1	2	3	5	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:44467145C>T	uc001cll.2	-	9	1528	c.1336G>A	c.(1336-1338)GAG>AAG	p.E446K	SLC6A9_uc009vxe.2_Missense_Mutation_p.E302K|SLC6A9_uc010okm.1_Missense_Mutation_p.E373K|SLC6A9_uc001clm.2_Missense_Mutation_p.E392K|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Missense_Mutation_p.E377K|SLC6A9_uc001cln.2_Missense_Mutation_p.E373K|SLC6A9_uc010oko.1_Missense_Mutation_p.E262K|SLC6A9_uc010okp.1_RNA	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	446						integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	GTGAGGGCCTCGGGGTAAGCC	0.617													13	35					0	0	0.003163	0	0		T	44467145	T	T	44467145	3	4	4	1	0	0	0	0	1	0	0	0	14716	893	31	1	808	1	SLC6A9	1	44467145	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20234	44467145	204783476	108	2074											
RNF220	55182	broad.mit.edu	37	chr1	44877906	44877906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcccttgtcagcagccacGaccctttggtgtacctgtct	6	12	8	15	1	2	0	1	0	1	0	3	1	3	0	4	1	3	2	4	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:44877906G>A	uc001clv.1	+	2	497	c.137G>A	c.(136-138)CGA>CAA	p.R46Q	RNF220_uc001clw.1_Missense_Mutation_p.R46Q	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	46					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CAGCAGCCACGACCCTTTGGT	0.557													13	144					0	0	0.001855	0	0		A	44877906	A	A	44877906	3	1	4	1	0	0	0	0	1	0	0	0	13508	1058	37	1	139	1	RNF220	1	44877906	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	410761	44877906	204372715	109	2075											
RNF220	55182	broad.mit.edu	37	chr1	45110700	45110700	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcatcccctgcacaggCgaggagcctggtgaagccaa	10	6	13	12	1	1	1	1	1	0	0	2	4	2	2	4	3	3	1	4	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:45110700C>T	uc001clv.1	+	10	1617	c.1257C>T	c.(1255-1257)GGC>GGT	p.G419G	RNF220_uc001clw.1_Silent_p.G419G|RNF220_uc010oky.1_Silent_p.G206G|RNF220_uc010okz.1_Silent_p.G161G|RNF220_uc001clx.1_Silent_p.G135G|RNF220_uc001cly.1_Silent_p.G98G|RNF220_uc001clz.1_Silent_p.G98G|RNF220_uc001cma.1_Silent_p.G98G|TMEM53_uc001cmb.1_Intron	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	419					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CCTGCACAGGCGAGGAGCCTG	0.572													6	23					0	0	0.001168	0	0		T	45110700	T	T	45110700	2	4	4	1	0	0	0	0	0	0	0	1	13508	755	27	1		1	RNF220	1	45110700	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	232794	45110700	204139921	110	2076											
BEND5	79656	broad.mit.edu	37	chr1	49208298	49208298	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcttaaaacactaccttGccattgtctaggatatactt	12	14	6	9	0	1	1	0	1	1	0	1	2	1	2	2	1	5	1	2	1	6	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:49208298G>T	uc001crx.3	-	4	935	c.891C>A	c.(889-891)GGC>GGA	p.G297G	AGBL4_uc001cru.2_Intron|AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crw.3_Silent_p.G128G	NM_024603	NP_078879	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	297										skin(1)	1						ACACTACCTTGCCATTGTCTA	0.483													22	57					3.8784e-16	4.22562e-16	0.001882	1	0		T	49208298	T	T	49208298	2	4	4	1	0	0	0	0	0	0	0	1	1402	1306	46	5		5	BEND5	1	49208298	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4097598	49208298	200042323	111	2077											
FAF1	11124	broad.mit.edu	37	chr1	51050377	51050377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcattggagattttctcaagGcagatgacgccatgccaaat	12	11	9	9	1	2	3	2	1	1	2	3	4	2	3	2	2	1	1	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:51050377G>A	uc009vyx.1	-	11	1010	c.947C>T	c.(946-948)GCC>GTC	p.A316V	FAF1_uc009vyw.1_Intron|FAF1_uc001cse.1_Missense_Mutation_p.A316V|FAF1_uc010onc.1_Missense_Mutation_p.A74V	NM_007051	NP_008982	Q9UNN5	FAF1_HUMAN	FAS-associated factor 1	316					apoptosis|cytoplasmic sequestering of NF-kappaB|positive regulation of apoptosis|positive regulation of protein complex assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of protein catabolic process	CD95 death-inducing signaling complex|cytosol|perinuclear region of cytoplasm	heat shock protein binding|NF-kappaB binding|protein kinase binding|protein kinase regulator activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)		TTTTCTCAAGGCAGATGACGC	0.383													31	100					0	0	0.002445	0	0		A	51050377	A	A	51050377	3	1	4	1	0	0	0	0	1	0	0	0	5380	1203	42	2	1045	2	FAF1	1	51050377	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1842079	51050377	198200244	112	2078											
TTC39A	22996	broad.mit.edu	37	chr1	51767382	51767382	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtgctgctgggcctcacaGcactcctcgaaacgccggat	8	7	11	15	3	1	0	1	0	0	0	3	2	2	1	3	2	4	3	3	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:51767382G>A	uc001csl.2	-	12	1128	c.1023C>T	c.(1021-1023)TGC>TGT	p.C341C	TTC39A_uc001csk.2_Silent_p.C306C|TTC39A_uc010ond.1_Silent_p.C278C|TTC39A_uc010one.1_Silent_p.C305C|TTC39A_uc010onf.1_Silent_p.C309C|TTC39A_uc001csn.2_Silent_p.C340C|TTC39A_uc001cso.1_3'UTR|TTC39A_uc009vyy.1_Silent_p.C278C	NM_001080494	NP_001073963	Q5SRH9	TT39A_HUMAN	tetratricopeptide repeat domain 39A isoform 2	341	TPR 1.						binding			skin(1)	1						GGGCCTCACAGCACTCCTCGA	0.607													7	21					0	0	0.006214	0	0		A	51767382	A	A	51767382	2	1	4	1	0	0	0	0	0	0	0	1	16733	963	34	2		2	TTC39A	1	51767382	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	717005	51767382	197483239	113	2079											
ORC1L	4998	broad.mit.edu	37	chr1	52861918	52861918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgtggtttattcaactccGcaaatagttctgaggaaagt	11	14	9	7	1	2	1	1	1	1	0	3	2	3	2	1	2	1	3	1	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:52861918G>A	uc001ctt.2	-	5	740	c.521C>T	c.(520-522)GCG>GTG	p.A174V	ORC1L_uc010oni.1_Missense_Mutation_p.A174V|ORC1L_uc001ctu.2_Missense_Mutation_p.A174V|ORC1L_uc009vzd.2_5'UTR	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	174					cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						ATTCAACTCCGCAAATAGTTC	0.463													7	83					0	0	0.00308	0	0		A	52861918	A	A	52861918	3	1	4	1	0	0	0	0	1	0	0	0	11280	1087	38	1	2116	1	ORC1L	1	52861918	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1094536	52861918	196388703	114	2080											
ZCCHC11	23318	broad.mit.edu	37	chr1	52954594	52954594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacttaccttagcccagtagCgaaaggctaacaccaaggga	14	6	9	12	1	0	0	0	0	0	0	0	2	0	1	3	2	4	2	3	2	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:52954594C>T	uc001ctx.2	-	9	1736	c.1502G>A	c.(1501-1503)CGC>CAC	p.R501H	ZCCHC11_uc001cty.2_Missense_Mutation_p.R501H|ZCCHC11_uc001ctz.2_Missense_Mutation_p.R501H|ZCCHC11_uc009vze.1_Missense_Mutation_p.R501H|ZCCHC11_uc009vzf.1_Missense_Mutation_p.R260H|ZCCHC11_uc001cub.2_Missense_Mutation_p.R501H|ZCCHC11_uc001cuc.2_RNA	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	501					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						AGCCCAGTAGCGAAAGGCTAA	0.373													10	93					0	0	0.000978	0	0		T	52954594	T	T	52954594	3	4	4	1	0	0	0	0	1	0	0	0	17605	768	27	1	3523	1	ZCCHC11	1	52954594	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	92676	52954594	196296027	115	2081											
CYP2J2	1573	broad.mit.edu	37	chr1	60375619	60375619	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaatttcattatccatggaAagacattgtagagctaattg	14	13	9	5	0	1	2	1	0	0	2	2	4	2	4	1	2	1	2	1	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:60375619A>G	uc001czq.2	-	5	703	c.698T>C	c.(697-699)TTT>TCT	p.F233S		NM_000775	NP_000766	P51589	CP2J2_HUMAN	cytochrome P450, family 2, subfamily J,	233					epoxygenase P450 pathway|linoleic acid metabolic process|regulation of heart contraction|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	arachidonic acid 11,12-epoxygenase activity|arachidonic acid 14,15-epoxygenase activity|aromatase activity|electron carrier activity|heme binding|linoleic acid epoxygenase activity			ovary(1)	1	all_cancers(7;0.000396)					TATCCATGGAAAGACATTGTA	0.343													5	52					0	0	0.000602	0	0		G	60375619	G	G	60375619	3	3	4	1	0	0	0	0	1	0	0	0	4175	14	1	3	830	3	CYP2J2	1	60375619	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	7421025	60375619	188875002	116	2082											
INADL	10207	broad.mit.edu	37	chr1	62293227	62293227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgtagatgaaccaaggcGcactgaaacctctcttcctg	10	11	8	12	1	2	3	0	2	2	1	4	3	3	3	3	1	2	2	3	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:62293227G>A	uc001dab.2	+	16	2066	c.1952G>A	c.(1951-1953)CGC>CAC	p.R651H	INADL_uc009waf.1_Missense_Mutation_p.R651H|INADL_uc001daa.2_Missense_Mutation_p.R651H|INADL_uc001dad.3_Missense_Mutation_p.R348H|INADL_uc001dac.2_RNA	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	651					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						GAACCAAGGCGCACTGAAACC	0.463													26	115					0	0	0.00632	0	0		A	62293227	A	A	62293227	3	1	4	1	0	0	0	0	1	0	0	0	7747	1087	38	1	2010	1	INADL	1	62293227	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1917608	62293227	186957394	117	2083											
DOCK7	85440	broad.mit.edu	37	chr1	62993865	62993865	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccttgttagttgagggAccgatgtccctgcgattgcc	6	11	13	11	2	0	1	0	1	0	0	1	4	1	2	4	2	2	2	4	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:62993865A>G	uc001daq.2	-	31	3927	c.3893T>C	c.(3892-3894)GTC>GCC	p.V1298A	DOCK7_uc001dan.2_Missense_Mutation_p.V1159A|DOCK7_uc001dao.2_Missense_Mutation_p.V1159A|DOCK7_uc001dap.2_Missense_Mutation_p.V1267A|DOCK7_uc001dam.2_Missense_Mutation_p.V478A|DOCK7_uc010oov.1_Intron	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1298					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						TAGTTGAGGGACCGATGTCCC	0.433													12	37					0	0	0.00245	0	0		G	62993865	G	G	62993865	3	3	4	1	0	0	0	0	1	0	0	0	4698	275	10	3	2609	3	DOCK7	1	62993865	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	700638	62993865	186256756	118	2084											
DOCK7	85440	broad.mit.edu	37	chr1	63113777	63113777	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatatgcaaacatctatacCtcatctggtgatggatgcaa	13	13	7	8	0	3	1	1	1	2	0	3	2	3	2	1	2	4	2	1	2	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:63113777C>T	uc001daq.2	-	6	766	c.732G>A	c.(730-732)GAG>GAA	p.E244E	DOCK7_uc001dan.2_Silent_p.E136E|DOCK7_uc001dao.2_Silent_p.E136E|DOCK7_uc001dap.2_Silent_p.E244E|DOCK7_uc009wah.1_Silent_p.E244E	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	244					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						ACATCTATACCTCATCTGGTG	0.323													11	98					0	0	0.001368	0	0		T	63113777	T	T	63113777	2	4	4	1	0	0	0	0	0	0	0	1	4698	695	24	4		4	DOCK7	1	63113777	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	119912	63113777	186136844	119	2085											
ITGB3BP	23421	broad.mit.edu	37	chr1	63912521	63912521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcatagctgtcaagatgaCgtgatgctatatgaaagaag	15	11	10	5	1	2	5	2	3	0	2	2	5	2	5	0	0	2	2	0	0	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:63912521C>T	uc001dba.1	-	8	522	c.491G>A	c.(490-492)CGT>CAT	p.R164H	ITGB3BP_uc001dbb.1_Missense_Mutation_p.R203H|ITGB3BP_uc001dbc.1_RNA|ITGB3BP_uc001dbd.1_Intron	NM_014288	NP_055103	Q13352	CENPR_HUMAN	integrin beta 3 binding protein	164					apoptosis|cell adhesion|CenH3-containing nucleosome assembly at centromere|induction of apoptosis by extracellular signals|mitotic prometaphase|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome, centromeric region|cytosol|membrane fraction|nucleoplasm	protein C-terminus binding|signal transducer activity				0						GTCAAGATGACGTGATGCTAT	0.313													13	46					0	0	0.003163	0	0		T	63912521	T	T	63912521	3	4	4	1	0	0	0	0	1	0	0	0	7912	536	19	1	46	1	ITGB3BP	1	63912521	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	798744	63912521	185338100	120	2086											
EFCAB7	84455	broad.mit.edu	37	chr1	63991248	63991248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attattttccaatagaatggCgatcagtccacgaagcgatg	13	11	9	8	3	1	1	1	0	0	1	3	4	3	1	2	1	1	0	2	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:63991248C>T	uc001dbf.2	+	2	299	c.5C>T	c.(4-6)GCG>GTG	p.A2V	ITGB3BP_uc001dba.1_5'Flank|ITGB3BP_uc001dbb.1_5'Flank|ITGB3BP_uc001dbc.1_5'Flank|ITGB3BP_uc001dbd.1_5'Flank|ITGB3BP_uc009wak.1_5'Flank	NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	2							calcium ion binding				0						AATAGAATGGCGATCAGTCCA	0.368													18	72					0	0	0.010504	0	0		T	63991248	T	T	63991248	3	4	4	1	0	0	0	0	1	0	0	0	4946	768	27	1	7	1	EFCAB7	1	63991248	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	78727	63991248	185259373	121	2087											
EFCAB7	84455	broad.mit.edu	37	chr1	63999206	63999206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttgacagtaaattgatgCgtcaccagtttggaaaccac	13	10	10	8	1	1	2	1	2	0	0	1	3	1	3	2	2	2	3	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:63999206C>T	uc001dbf.2	+	5	862	c.568C>T	c.(568-570)CGT>TGT	p.R190C		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	190							calcium ion binding				0						TAAATTGATGCGTCACCAGTT	0.393													12	199					0	0	0.001368	0	0		T	63999206	T	T	63999206	3	4	4	1	0	0	0	0	1	0	0	0	4946	768	27	1	582	1	EFCAB7	1	63999206	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7958	63999206	185251415	122	2088											
EFCAB7	84455	broad.mit.edu	37	chr1	64034139	64034139	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatggctatgaaaatataatCgtgcatacttacagttgtga	14	13	9	5	1	0	2	0	2	0	0	1	3	0	2	0	1	3	3	0	1	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:64034139C>T	uc001dbf.2	+	12	1950	c.1656C>T	c.(1654-1656)ATC>ATT	p.I552I		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	552							calcium ion binding				0						AAAATATAATCGTGCATACTT	0.378													10	48					0	0	0.001368	0	0		T	64034139	T	T	64034139	2	4	4	1	0	0	0	0	0	0	0	1	4946	874	31	1		1	EFCAB7	1	64034139	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	34933	64034139	185216482	123	2089											
CACHD1	57685	broad.mit.edu	37	chr1	65138932	65138932	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggagcagcagcacatcAcccacaaggtatttgtcaca	12	8	9	12	0	2	0	2	0	0	0	2	1	2	1	1	2	3	4	1	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:65138932A>G	uc001dbo.1	+	18	2554	c.2449A>G	c.(2449-2451)ACC>GCC	p.T817A	CACHD1_uc001dbp.1_Missense_Mutation_p.T572A|CACHD1_uc001dbq.1_Missense_Mutation_p.T572A|CACHD1_uc010opa.1_Missense_Mutation_p.T61A	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	868	Extracellular (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						GCAGCACATCACCCACAAGGT	0.522													5	128					0	0	0.001168	0	0		G	65138932	G	G	65138932	3	3	4	1	0	0	0	0	1	0	0	0	2540	159	6	3	2519	3	CACHD1	1	65138932	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1104793	65138932	184111689	124	2090											
JAK1	3716	broad.mit.edu	37	chr1	65344791	65344791	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccagagcttggtgttctcGtcatacagggcaaagaggtt	10	11	12	8	1	2	2	1	0	1	2	3	2	2	2	1	3	3	4	1	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:65344791G>A	uc001dbu.1	-	4	495	c.246C>T	c.(244-246)GAC>GAT	p.D82D	JAK1_uc009wam.1_Silent_p.D70D|JAK1_uc001dbv.2_5'Flank	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	82	FERM.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		TGGTGTTCTCGTCATACAGGG	0.468			Mis		ALL								8	74					0	0	0.004482	0	0		A	65344791	A	A	65344791	2	1	4	1	0	0	0	0	0	0	0	1	7953	1136	40	1		1	JAK1	1	65344791	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	205859	65344791	183905830	125	2091											
DNAJC6	9829	broad.mit.edu	37	chr1	65851520	65851520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacagaggaatggatgtcGcccttactgtgatgtactca	12	10	10	9	1	1	2	1	1	0	1	2	4	1	4	1	2	3	1	1	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:65851520G>A	uc001dcd.1	+	7	919	c.755G>A	c.(754-756)CGC>CAC	p.R252H	DNAJC6_uc001dcc.1_Missense_Mutation_p.R283H|DNAJC6_uc010opc.1_Missense_Mutation_p.R239H|DNAJC6_uc001dce.1_Missense_Mutation_p.R309H	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	252	C2 tensin-type.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						AATGGATGTCGCCCTTACTGT	0.418													25	54					0	0	0.007291	0	0		A	65851520	A	A	65851520	3	1	4	1	0	0	0	0	1	0	0	0	4659	1087	38	1	781	1	DNAJC6	1	65851520	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	506729	65851520	183399101	126	2092											
IL23R	149233	broad.mit.edu	37	chr1	67724598	67724598	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaatcaaggagaatgcagTtctcctgacatacaaaactc	16	10	6	9	0	2	2	1	1	1	1	4	3	2	2	1	1	3	2	1	1	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:67724598T>G	uc001ddo.2	+	11	1762	c.1677T>G	c.(1675-1677)AGT>AGG	p.S559R	IL23R_uc009waz.2_Missense_Mutation_p.S356R|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_Missense_Mutation_p.S157R|IL23R_uc010opk.1_3'UTR|IL23R_uc010opl.1_Missense_Mutation_p.S141R|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_Missense_Mutation_p.S305R|IL23R_uc010opn.1_Missense_Mutation_p.S404R|IL23R_uc001ddr.2_RNA|IL23R_uc010ops.1_Missense_Mutation_p.S356R|IL23R_uc010opt.1_Missense_Mutation_p.S200R|IL23R_uc010opu.1_Missense_Mutation_p.S255R|IL23R_uc010opv.1_Missense_Mutation_p.S317R|IL23R_uc010opw.1_Missense_Mutation_p.S194R|IL23R_uc010opx.1_Missense_Mutation_p.S200R|IL23R_uc010opy.1_Missense_Mutation_p.S326R|IL23R_uc010opz.1_Missense_Mutation_p.S200R|IL23R_uc010oqa.1_Missense_Mutation_p.S200R|IL23R_uc010oqb.1_Missense_Mutation_p.S388R|IL23R_uc010oqc.1_Missense_Mutation_p.S275R|IL23R_uc010oqd.1_Missense_Mutation_p.S194R|IL23R_uc010oqe.1_Missense_Mutation_p.S157R|IL23R_uc010oqf.1_Missense_Mutation_p.S157R|IL23R_uc010oqg.1_Missense_Mutation_p.S157R|IL23R_uc010oqh.1_Missense_Mutation_p.S200R|IL23R_uc001dds.2_Missense_Mutation_p.S304R|IL23R_uc001ddt.2_Missense_Mutation_p.S157R	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	559	Cytoplasmic (Potential).				inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						GAGAATGCAGTTCTCCTGACA	0.383													29	74					0	0	0.009535	0	0		G	67724598	G	G	67724598	3	3	4	1	0	0	0	0	1	0	0	0	7692	1722	60	5	1715	5	IL23R	1	67724598	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1873078	67724598	181526023	127	2093											
IL12RB2	3595	broad.mit.edu	37	chr1	67838350	67838350	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatgccatcacagaggaaaAggggagcattttaatttcat	15	11	9	6	0	2	1	2	0	0	1	2	3	2	3	1	3	2	1	1	3	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:67838350A>G	uc001ddu.2	+	12	2241	c.1601A>G	c.(1600-1602)AAG>AGG	p.K534R	IL12RB2_uc010oqi.1_Missense_Mutation_p.K534R|IL12RB2_uc010oqj.1_Missense_Mutation_p.K534R|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Intron|IL12RB2_uc010oqm.1_Missense_Mutation_p.K534R|IL12RB2_uc010oqn.1_Intron	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	534	Fibronectin type-III 5.|Extracellular (Potential).				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						ACAGAGGAAAAGGGGAGCATT	0.478													25	53					0	0	0.00333	0	0		G	67838350	G	G	67838350	3	3	4	1	0	0	0	0	1	0	0	0	7643	72	3	3	1643	3	IL12RB2	1	67838350	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	113752	67838350	181412271	128	2094											
WLS	79971	broad.mit.edu	37	chr1	68659743	68659743	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggggaatgtgaacagaaaAcacgatgtcattggcttcaa	15	8	12	6	1	2	2	2	1	0	1	2	5	2	3	0	3	2	1	0	3	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:68659743A>C	uc001def.1	-	2	545	c.274T>G	c.(274-276)TTT>GTT	p.F92V	uc001deb.1_Intron|uc001dec.1_Intron|WLS_uc001dee.2_Missense_Mutation_p.F90V|WLS_uc001deg.1_Intron|WLS_uc001deh.1_Missense_Mutation_p.F92V|WLS_uc009wbf.1_Missense_Mutation_p.F47V	NM_024911	NP_079187	Q5T9L3	WLS_HUMAN	G protein-coupled receptor 177 isoform 1	92	Lumenal (Potential).				multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0						TGAACAGAAAACACGATGTCA	0.463													18	47					0	0	0.002299	0	0		C	68659743	C	C	68659743	3	2	4	1	0	0	0	0	1	0	0	0	17402	43	2	5	1521	5	WLS	1	68659743	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	821393	68659743	180590878	129	2095											
RPE65	6121	broad.mit.edu	37	chr1	68912408	68912408	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaccttctgtggtatgtgAcatgtccttctttaaagtca	8	18	7	8	0	3	1	1	1	2	0	4	1	4	1	2	1	1	1	2	1	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:68912408A>T	uc001dei.1	-	3	284	c.230T>A	c.(229-231)GTC>GAC	p.V77D		NM_000329	NP_000320	Q16518	RPE65_HUMAN	retinal pigment epithelium-specific protein	77					visual perception	cytoplasm|plasma membrane	all-trans-retinyl-palmitate hydrolase activity|metal ion binding|retinol isomerase activity			ovary(1)	1						GTGGTATGTGACATGTCCTTC	0.502													10	37					0	0	0.001368	0	0		T	68912408	T	T	68912408	3	4	4	1	0	0	0	0	1	0	0	0	13570	275	10	5	1419	5	RPE65	1	68912408	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	252665	68912408	180338213	130	2096											
LRRC7	57554	broad.mit.edu	37	chr1	70478695	70478695	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaacagtcatgtctctacgCtccaacaaattagaatttct	13	13	5	10	1	3	1	1	0	2	1	5	1	4	1	1	0	3	2	1	0	6	4	rs149111202	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:70478695C>T	uc001dep.2	+	11	1089	c.1059C>T	c.(1057-1059)CGC>CGT	p.R353R	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	353	LRR 15.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TGTCTCTACGCTCCAACAAAT	0.313													26	103					0	0	0.005443	0	0		T	70478695	T	T	70478695	2	4	4	1	0	0	0	0	0	0	0	1	9038	784	28	2		2	LRRC7	1	70478695	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1566287	70478695	178771926	131	2097											
SFRS11	9295	broad.mit.edu	37	chr1	70700384	70700384	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgccatttcacagattggCgctgttccactggctgcttt	5	16	9	11	1	1	1	1	0	0	1	2	1	2	1	2	2	2	4	2	2	0	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:70700384C>T	uc001des.2	+	5	577	c.453C>T	c.(451-453)GGC>GGT	p.G151G	SFRS11_uc001det.2_Silent_p.G151G|SFRS11_uc001deu.2_Silent_p.G151G|SFRS11_uc001dev.2_5'UTR|SFRS11_uc001dew.2_Silent_p.G91G	NM_004768	NP_004759	Q05519	SRS11_HUMAN	splicing factor, arginine/serine-rich 11	151					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0						CACAGATTGGCGCTGTTCCAC	0.343													4	35					0	0	0.001855	0	0		T	70700384	T	T	70700384	2	4	4	1	0	0	0	0	0	0	0	1	14191	755	27	1		1	SFRS11	1	70700384	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	221689	70700384	178550237	132	2098											
ANKRD13C	81573	broad.mit.edu	37	chr1	70766510	70766510	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacaaaagattcagagggCgccgcatccccattgaaaat	15	7	8	11	2	1	3	1	1	0	2	2	3	2	3	3	1	1	1	3	1	5	3	rs138861589		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:70766510C>T	uc001dex.3	-	7	1184	c.858G>A	c.(856-858)GCG>GCA	p.A286A	ANKRD13C_uc009wbk.2_Silent_p.A251A	NM_030816	NP_110443	Q8N6S4	AN13C_HUMAN	ankyrin repeat domain 13C	286					protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0						ATTCAGAGGGCGCCGCATCCC	0.393													9	20					0	0	0.008291	0	0		T	70766510	T	T	70766510	2	4	4	1	0	0	0	0	0	0	0	1	643	755	27	1		1	ANKRD13C	1	70766510	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	66126	70766510	178484111	133	2099											
MSH4	4438	broad.mit.edu	37	chr1	76272758	76272758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagaggtgaaataggaatgGcaagtattgatttaaaaaac	18	9	10	4	0	0	3	0	2	0	1	0	4	0	4	1	3	1	2	1	3	8	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:76272758G>A	uc001dhd.1	+	3	561	c.520G>A	c.(520-522)GCA>ACA	p.A174T		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	174					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						AATAGGAATGGCAAGTATTGA	0.383								MMR					6	75					0	0	0.00308	0	0		A	76272758	A	A	76272758	3	1	4	1	0	0	0	0	1	0	0	0	9890	1203	42	2	530	2	MSH4	1	76272758	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5506248	76272758	172977863	134	2100											
MSH4	4438	broad.mit.edu	37	chr1	76272778	76272778	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaagtattgatttaaaaaaCccccaaattatactatccca	17	11	3	10	0	0	1	0	1	0	0	1	1	1	1	3	0	2	2	3	0	9	7	rs144700439	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:76272778C>A	uc001dhd.1	+	3	581	c.540C>A	c.(538-540)AAC>AAA	p.N180K		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	180					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						ATTTAAAAAACCCCCAAATTA	0.393								MMR					22	77					5.35356e-11	5.77141e-11	0.00278	1	0		A	76272778	A	A	76272778	3	1	4	1	0	0	0	0	1	0	0	0	9890	506	18	5	550	5	MSH4	1	76272778	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20	76272778	172977843	135	2101											
ST6GALNAC3	256435	broad.mit.edu	37	chr1	76877955	76877955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttatttggggacctttccGcaatatgaggaaagatggca	11	12	12	6	1	0	2	0	1	0	1	1	4	1	4	2	4	0	3	2	4	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:76877955G>A	uc001dhh.2	+	3	639	c.476G>A	c.(475-477)CGC>CAC	p.R159H	ST6GALNAC3_uc001dhg.3_Missense_Mutation_p.R159H|ST6GALNAC3_uc010orh.1_Missense_Mutation_p.R94H	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	159	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						GGACCTTTCCGCAATATGAGG	0.408													7	106					0	0	0.00308	0	0		A	76877955	A	A	76877955	3	1	4	1	0	0	0	0	1	0	0	0	15250	1087	38	1	486	1	ST6GALNAC3	1	76877955	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	605177	76877955	172372666	136	2102											
USP33	23032	broad.mit.edu	37	chr1	78187762	78187762	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtggagcatatgcttcGccacatgatcctgctttgac	7	13	9	12	1	0	2	0	2	0	0	2	3	1	3	3	1	3	3	3	1	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:78187762G>A	uc001dht.2	-	14	1949	c.1602C>T	c.(1600-1602)GGC>GGT	p.G534G	USP33_uc001dhs.2_Silent_p.G255G|USP33_uc001dhu.2_Silent_p.G503G|USP33_uc001dhv.2_Silent_p.G339G|USP33_uc001dhw.2_Silent_p.G534G	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	534					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						CATATGCTTCGCCACATGATC	0.398													20	61					0	0	0.001882	0	0		A	78187762	A	A	78187762	2	1	4	1	0	0	0	0	0	0	0	1	17090	1074	38	1		1	USP33	1	78187762	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1309807	78187762	171062859	137	2103											
FAM73A	374986	broad.mit.edu	37	chr1	78272690	78272690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaattcttgtcatagctgcGcttgtggcaattctaattcc	8	16	7	10	1	4	0	2	0	2	0	5	0	5	0	1	1	2	3	1	1	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:78272690G>A	uc001dhx.2	+	5	573	c.541G>A	c.(541-543)GCT>ACT	p.A181T	FAM73A_uc010ork.1_Missense_Mutation_p.A181T|FAM73A_uc010orl.1_Missense_Mutation_p.A143T|FAM73A_uc001dhy.1_5'UTR	NM_198549	NP_940951	Q8NAN2	FA73A_HUMAN	hypothetical protein LOC374986	181						integral to membrane				ovary(1)	1				Colorectal(170;0.226)		TCATAGCTGCGCTTGTGGCAA	0.348													7	118					0	0	0.004482	0	0		A	78272690	A	A	78272690	3	1	4	1	0	0	0	0	1	0	0	0	5631	1087	38	1	559	1	FAM73A	1	78272690	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	84928	78272690	170977931	138	2104											
NEXN	91624	broad.mit.edu	37	chr1	78383873	78383873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggaacaaaggaagagaaCggaggaggaacgaaaacgca	21	0	15	5	3	0	2	0	0	0	2	0	9	0	7	0	5	4	1	0	5	7	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:78383873C>T	uc001dic.3	+	5	659	c.362C>T	c.(361-363)ACG>ATG	p.T121M	NEXN_uc001dia.3_Missense_Mutation_p.T121M|NEXN_uc009wcb.1_Missense_Mutation_p.T57M|NEXN_uc001dib.3_Missense_Mutation_p.T57M|NEXN_uc001did.1_Missense_Mutation_p.T45M|NEXN_uc001dif.1_Missense_Mutation_p.T13M	NM_144573	NP_653174	Q0ZGT2	NEXN_HUMAN	nexilin (F actin binding protein)	121	Glu-rich.				regulation of cell migration|regulation of cytoskeleton organization	cytoskeleton|Z disc	actin filament binding|structural constituent of muscle			ovary(2)	2				Colorectal(170;0.114)		AGGAAGAGAACGGAGGAGGAA	0.368													6	113					0	0	0.001984	0	0		T	78383873	T	T	78383873	3	4	4	1	0	0	0	0	1	0	0	0	10374	536	19	1	376	1	NEXN	1	78383873	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	111183	78383873	170866748	139	2105											
IFI44	10561	broad.mit.edu	37	chr1	79128420	79128420	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaagaaaacttggatttgCtctttctgacatctcggtgg	10	13	9	9	1	3	2	0	1	3	1	4	3	3	3	1	3	2	1	1	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:79128420C>A	uc001dip.3	+	8	1269	c.1145C>A	c.(1144-1146)GCT>GAT	p.A382D		NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	382					response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2						CTTGGATTTGCTCTTTCTGAC	0.358													16	57					3.52763e-06	3.73207e-06	0.00499	1	0		A	79128420	A	A	79128420	3	1	4	1	0	0	0	0	1	0	0	0	7533	797	28	5	1171	5	IFI44	1	79128420	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	744547	79128420	170122201	140	2106											
RPF1	80135	broad.mit.edu	37	chr1	84961086	84961086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttgagtcacttgccaaatgGcccaactgctcattttaaaa	12	13	6	10	0	2	1	2	1	0	0	2	1	2	1	2	1	3	1	2	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:84961086G>A	uc001djv.3	+	6	692	c.647G>A	c.(646-648)GGC>GAC	p.G216D		NM_025065	NP_079341	Q9H9Y2	RPF1_HUMAN	RNA processing factor 1	216	Brix.				rRNA processing|translation	nucleolus	aminoacyl-tRNA ligase activity|ATP binding|rRNA binding				0						TTGCCAAATGGCCCAACTGCT	0.313													6	36					0	0	0.004482	0	0		A	84961086	A	A	84961086	3	1	4	1	0	0	0	0	1	0	0	0	13571	1203	42	2	669	2	RPF1	1	84961086	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5832666	84961086	164289535	141	2107											
WDR63	126820	broad.mit.edu	37	chr1	85559307	85559307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagaaaatgattacctgtGtctcatggcatccaactatc	12	11	8	10	1	1	2	1	1	1	1	4	3	2	2	2	2	2	1	2	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:85559307G>A	uc001dkt.2	+	9	1215	c.1024G>A	c.(1024-1026)GTC>ATC	p.V342I	WDR63_uc009wcl.2_Missense_Mutation_p.V303I	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	342										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		GATTACCTGTGTCTCATGGCA	0.423													44	130					0	0	0.003214	0	0		A	85559307	A	A	85559307	3	1	4	1	0	0	0	0	1	0	0	0	17340	1377	48	4	1054	4	WDR63	1	85559307	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	598221	85559307	163691314	142	2108											
COL24A1	255631	broad.mit.edu	37	chr1	86590944	86590944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctctttggtattcatttttgCctcactgatgcgatgagtgg	6	17	10	8	1	3	2	2	2	1	0	3	3	3	2	1	2	2	1	1	2	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:86590944C>T	uc001dlj.2	-	3	1117	c.1075G>A	c.(1075-1077)GCA>ACA	p.A359T	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.A359T	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	359					cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		TTCATTTTTGCCTCACTGATG	0.403													6	86					0	0	0.001984	0	0		T	86590944	T	T	86590944	3	4	4	1	0	0	0	0	1	0	0	0	3686	739	26	2	4301	2	COL24A1	1	86590944	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1031637	86590944	162659677	143	2109											
COL24A1	255631	broad.mit.edu	37	chr1	86591810	86591810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggaccccctgaggtaacGgtgtagatgctgatggtaca	11	9	13	8	1	0	3	0	2	0	1	0	4	0	4	2	4	3	4	2	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:86591810G>A	uc001dlj.2	-	3	251	c.209C>T	c.(208-210)CCG>CTG	p.P70L	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.P70L	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	70	TSP N-terminal.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		CTGAGGTAACGGTGTAGATGC	0.418													18	65					0	0	0.006122	0	0		A	86591810	A	A	86591810	3	1	4	1	0	0	0	0	1	0	0	0	3686	1116	39	1	5167	1	COL24A1	1	86591810	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	866	86591810	162658811	144	2110											
CLCA2	9635	broad.mit.edu	37	chr1	86900199	86900199	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagactgtttttatttccAggtggttgaattttgtaatg	10	19	9	3	0	0	2	0	1	0	1	1	2	1	2	1	2	0	3	1	2	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:86900199A>G	uc001dlr.3	+	6	907	c.745_splice	c.e6-2	p.V249_splice		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor						cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		TTTTATTTCCAGGTGGTTGAA	0.398													23	42					0	0	0.002299	0	0		G	86900199	G	G	86900199	5	3	4	1	0	0	0	0	0	0	1	0	3461	202	7	3	765	3	CLCA2	1	86900199	Splice_Site	SNP	A	TCGA-BR-4184-01A-01D-1126-08	308389	86900199	162350422	145	2111											
SEP15	9403	broad.mit.edu	37	chr1	87333766	87333766	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcctctgaacagtttgggTttatcactcctaacaaaagc	12	12	7	10	0	2	1	1	1	1	0	4	1	4	1	2	1	3	2	2	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:87333766T>C	uc010osi.1	-	5	649	c.336A>G	c.(334-336)AAA>AAG	p.K112K	SEP15_uc010osj.1_Intron	NM_004261	NP_004252	O60613	SEP15_HUMAN	15 kDa selenoprotein isoform 1 precursor	109					'de novo' posttranslational protein folding	endoplasmic reticulum lumen	selenium binding				0		Lung NSC(277;0.153)		all cancers(265;0.00744)|Epithelial(280;0.0333)		ACAGTTTGGGTTTATCACTCC	0.279													19	47					0	0	0.00333	0	0		C	87333766	C	C	87333766	2	2	4	1	0	0	0	0	0	0	0	1	14078	1722	60	3		3	SEP15	1	87333766	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	433567	87333766	161916855	146	2112											
HS2ST1	9653	broad.mit.edu	37	chr1	87538675	87538675	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcgacatacaatggatggCcctcggcaagatgccacttt	11	8	10	12	2	0	1	0	0	0	1	1	3	0	2	2	3	3	1	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:87538675C>T	uc010osk.1	+	2	568	c.183C>T	c.(181-183)GGC>GGT	p.G61G	HS2ST1_uc001dmc.3_Silent_p.G61G|LOC339524_uc001dme.1_Silent_p.G22G	NM_012262	NP_036394	Q7LGA3	HS2ST_HUMAN	heparan sulfate 2-O-sulfotransferase 1 isoform	61	Lumenal (Potential).					Golgi membrane|integral to membrane				central_nervous_system(1)	1		Lung NSC(277;0.153)		all cancers(265;0.00699)|Epithelial(280;0.0261)		CAATGGATGGCCCTCGGCAAG	0.428													14	40					0	0	0.007413	0	0		T	87538675	T	T	87538675	2	4	4	1	0	0	0	0	0	0	0	1	7378	726	26	2		2	HS2ST1	1	87538675	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	204909	87538675	161711946	147	2113											
RBMXL1	494115	broad.mit.edu	37	chr1	89448926	89448926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagaggggagcggttcccttCgaggtggacctccataacta	9	8	14	10	2	0	1	0	0	0	1	3	5	2	3	3	5	2	1	3	5	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:89448926C>T	uc009wcx.2	-	3	1300	c.584G>A	c.(583-585)CGA>CAA	p.R195Q	CCBL2_uc001dmp.2_Intron|CCBL2_uc001dmq.2_Intron|CCBL2_uc001dmr.2_Intron|RBMXL1_uc001dms.2_Missense_Mutation_p.R195Q	NM_001162536	NP_001156008	Q96E39	RBMXL_HUMAN	RNA binding motif protein, X-linked-like 1	195							nucleotide binding|RNA binding				0						CGGTTCCCTTCGAGGTGGACC	0.483													6	170					0	0	0.001168	0	0		T	89448926	T	T	89448926	3	4	4	1	0	0	0	0	1	0	0	0	13178	884	31	1	592	1	RBMXL1	1	89448926	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1910251	89448926	159801695	148	2114											
GBP7	388646	broad.mit.edu	37	chr1	89630432	89630432	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accttttccatatcacccagGccctccgtgtccagaaggat	9	10	7	15	1	1	1	1	0	0	1	4	2	4	2	6	2	0	0	6	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:89630432G>A	uc001dna.2	-	3	439	c.300C>T	c.(298-300)GGC>GGT	p.G100G		NM_207398	NP_997281	Q8N8V2	GBP7_HUMAN	guanylate binding protein 4-like	100	GTP (By similarity).					integral to membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.0908)		all cancers(265;0.00835)|Epithelial(280;0.0322)		TATCACCCAGGCCCTCCGTGT	0.453													5	69					0	0	0.000602	0	0		A	89630432	A	A	89630432	2	1	4	1	0	0	0	0	0	0	0	1	6294	1190	42	2		2	GBP7	1	89630432	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	181506	89630432	159620189	149	2115											
GBP6	163351	broad.mit.edu	37	chr1	89847396	89847396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actactacagccagcagatgGcccagcgagtgaagctcccc	11	5	10	15	1	0	2	0	1	0	1	1	3	1	2	4	1	6	2	4	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:89847396G>A	uc001dnf.2	+	7	1289	c.1015G>A	c.(1015-1017)GCC>ACC	p.A339T	GBP6_uc010ost.1_Missense_Mutation_p.A209T	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	339							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		CCAGCAGATGGCCCAGCGAGT	0.587													6	48					0	0	0.00308	0	0		A	89847396	A	A	89847396	3	1	4	1	0	0	0	0	1	0	0	0	6293	1203	42	2	1037	2	GBP6	1	89847396	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	216964	89847396	159403225	150	2116											
LRRC8D	55144	broad.mit.edu	37	chr1	90398905	90398905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaccaagaccaagatgggcGgacaacaaacgacatttcct	16	5	8	12	2	0	2	0	0	0	2	1	4	1	3	3	2	3	0	3	2	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:90398905G>A	uc001dnm.2	+	3	703	c.278G>A	c.(277-279)CGG>CAG	p.R93Q	LRRC8D_uc001dnn.2_Missense_Mutation_p.R93Q	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	93						integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		CAAGATGGGCGGACAACAAAC	0.498													14	34					0	0	0.00245	0	0		A	90398905	A	A	90398905	3	1	4	1	0	0	0	0	1	0	0	0	9042	1116	39	1	280	1	LRRC8D	1	90398905	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	551509	90398905	158851716	151	2117											
LRRC8D	55144	broad.mit.edu	37	chr1	90400837	90400837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcagatgcttagatgtgaGctacaacaacatttcaatga	15	11	7	8	0	2	4	2	2	0	2	2	4	2	4	0	0	5	2	0	0	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:90400837G>A	uc001dnm.2	+	3	2635	c.2210G>A	c.(2209-2211)AGC>AAC	p.S737N	LRRC8D_uc001dnn.2_Missense_Mutation_p.S737N	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	737	LRR 10.					integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		TTAGATGTGAGCTACAACAAC	0.378													17	76					0	0	0.004007	0	0		A	90400837	A	A	90400837	3	1	4	1	0	0	0	0	1	0	0	0	9042	971	34	2	2212	2	LRRC8D	1	90400837	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1932	90400837	158849784	152	2118											
HFM1	164045	broad.mit.edu	37	chr1	91818691	91818691	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccagcatgatgataagcaGcaccatcttttaagatatct	14	12	6	9	0	2	3	0	2	2	1	2	3	2	3	2	0	4	3	2	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:91818691G>T	uc001doa.3	-	15	1848	c.1748C>A	c.(1747-1749)GCT>GAT	p.A583D	HFM1_uc009wdb.2_5'Flank|HFM1_uc010osu.1_Missense_Mutation_p.A262D|HFM1_uc010osv.1_Missense_Mutation_p.A267D	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	583	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		ATGATAAGCAGCACCATCTTT	0.318													15	52					4.14922e-12	4.48789e-12	0.004007	1	0		T	91818691	T	T	91818691	3	4	4	1	0	0	0	0	1	0	0	0	7099	971	34	5	2659	5	HFM1	1	91818691	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1417854	91818691	157431930	153	2119											
HFM1	164045	broad.mit.edu	37	chr1	91844024	91844024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctccatttcctagtcatgCtatcccatttttcctagaga	8	16	4	13	0	2	1	1	0	1	1	6	2	5	1	4	0	1	1	4	0	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:91844024C>T	uc001doa.3	-	10	1272	c.1172G>A	c.(1171-1173)AGC>AAC	p.S391N	HFM1_uc010osu.1_Missense_Mutation_p.S70N|HFM1_uc010osv.1_Missense_Mutation_p.S75N|HFM1_uc001doc.1_Missense_Mutation_p.S391N	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	391	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		CCTAGTCATGCTATCCCATTT	0.313													7	90					0	0	0.00308	0	0		T	91844024	T	T	91844024	3	4	4	1	0	0	0	0	1	0	0	0	7099	797	28	2	3255	2	HFM1	1	91844024	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	25333	91844024	157406597	154	2120											
CDC7	8317	broad.mit.edu	37	chr1	91977470	91977470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaattttttatataataggCgcctgaaaaagtaagtatga	16	13	8	4	1	0	2	0	2	0	0	0	2	0	2	1	1	0	3	1	1	9	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:91977470C>T	uc001doe.2	+	6	727	c.562C>T	c.(562-564)CGC>TGC	p.R188C	CDC7_uc001dof.2_Missense_Mutation_p.R188C|CDC7_uc010osw.1_Missense_Mutation_p.R160C|CDC7_uc009wdc.2_Missense_Mutation_p.R188C|CDC7_uc009wdd.2_5'Flank	NM_003503	NP_003494	O00311	CDC7_HUMAN	cell division cycle 7	188	Protein kinase.				cell cycle checkpoint|cell division|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|positive regulation of cell proliferation|regulation of S phase	cytoplasm|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	5		all_lung(203;0.0165)|Lung NSC(277;0.0562)		all cancers(265;0.00108)|Epithelial(280;0.0184)|KIRC - Kidney renal clear cell carcinoma(1967;0.124)		ATATAATAGGCGCCTGAAAAA	0.254													8	17					0	0	0.001368	0	0		T	91977470	T	T	91977470	3	4	4	1	0	0	0	0	1	0	0	0	3087	768	27	1	580	1	CDC7	1	91977470	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	133446	91977470	157273151	155	2121											
GLMN	11146	broad.mit.edu	37	chr1	92737086	92737086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tactagatatgccagagaagCcattgagtctgctaactgtt	12	12	9	8	0	1	3	0	1	1	2	1	4	1	3	2	0	5	2	2	0	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:92737086C>T	uc001dor.2	-	8	974	c.859G>A	c.(859-861)GCT>ACT	p.A287T	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Missense_Mutation_p.A287T	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	287	Potential.				muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		GCCAGAGAAGCCATTGAGTCT	0.348									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				7	90					0	0	0.004482	0	0		T	92737086	T	T	92737086	3	4	4	1	0	0	0	0	1	0	0	0	6463	739	26	2	973	2	GLMN	1	92737086	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	759616	92737086	156513535	156	2122											
MTF2	22823	broad.mit.edu	37	chr1	93584943	93584943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccagaatacctcaaacGtctaccattacagtggtaag	14	9	8	10	1	2	1	1	0	1	1	2	2	2	2	3	2	4	1	3	2	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:93584943G>A	uc009wdj.2	+	8	1074	c.782G>A	c.(781-783)CGT>CAT	p.R261H	MTF2_uc001dph.2_Missense_Mutation_p.R159H|MTF2_uc010oth.1_Missense_Mutation_p.R159H|MTF2_uc009wdk.2_Missense_Mutation_p.R261H|MTF2_uc001dpi.3_Silent_p.T29T|MTF2_uc010oti.1_Missense_Mutation_p.R159H|MTF2_uc001dpj.3_Missense_Mutation_p.R159H|MTF2_uc001dpl.3_Missense_Mutation_p.R159H	NM_007358	NP_031384	Q9Y483	MTF2_HUMAN	metal response element binding transcription	261						nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_lung(203;0.00196)|Lung NSC(277;0.00902)|Melanoma(281;0.099)|Ovarian(761;0.109)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00076)|GBM - Glioblastoma multiforme(16;0.00157)|Epithelial(280;0.0886)		TACCTCAAACGTCTACCATTA	0.323													12	34					0	0	0.003163	0	0		A	93584943	A	A	93584943	3	1	4	1	0	0	0	0	1	0	0	0	9941	1145	40	1	812	1	MTF2	1	93584943	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	847857	93584943	155665678	157	2123											
BCAR3	8412	broad.mit.edu	37	chr1	94140374	94140374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttgataggcatctgggCgatgctcagcgagaggggac	9	8	15	9	2	3	2	1	1	2	1	3	5	3	3	0	4	2	2	0	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:94140374C>T	uc001dpz.2	-	2	388	c.113G>A	c.(112-114)CGC>CAC	p.R38H	BCAR3_uc001dqa.2_Missense_Mutation_p.R38H|BCAR3_uc001dqb.2_Missense_Mutation_p.R38H	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	38					response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		GGCATCTGGGCGATGCTCAGC	0.532													4	39					0	0	0.009096	0	0		T	94140374	T	T	94140374	3	4	4	1	0	0	0	0	1	0	0	0	1350	768	27	1	2408	1	BCAR3	1	94140374	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	555431	94140374	155110247	158	2124											
GCLM	2730	broad.mit.edu	37	chr1	94360188	94360188	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttttggatcattgtgagTcaacagctgtatgtcaaatt	11	15	8	7	0	3	1	3	1	0	0	3	2	3	2	1	1	2	2	1	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:94360188T>C	uc001dqg.1	-	6	930	c.637A>G	c.(637-639)ACT>GCT	p.T213A		NM_002061	NP_002052	P48507	GSH0_HUMAN	glutamate-cysteine ligase regulatory protein	213					glutamate metabolic process|glutathione biosynthetic process|regulation of blood vessel size|response to drug|response to oxidative stress|xenobiotic metabolic process	cytosol|soluble fraction	glutamate-cysteine ligase catalytic subunit binding			ovary(1)	1		all_lung(203;0.000815)|Lung NSC(277;0.00363)		all cancers(265;0.00566)|GBM - Glioblastoma multiforme(16;0.0203)|Epithelial(280;0.131)	L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)	TCATTGTGAGTCAACAGCTGT	0.323													28	68					0	0	0.007291	0	0		C	94360188	C	C	94360188	3	2	4	1	0	0	0	0	1	0	0	0	6311	1667	58	3	195	3	GCLM	1	94360188	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	219814	94360188	154890433	159	2125											
ALG14	199857	broad.mit.edu	37	chr1	95448750	95448750	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggacatggataacgtttctAcacggcagatgctttcaacg	11	10	10	10	4	2	1	1	0	1	1	2	3	2	3	0	3	4	3	0	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:95448750A>G	uc001dra.2	-	4	586	c.533T>C	c.(532-534)GTA>GCA	p.V178A		NM_144988	NP_659425	Q96F25	ALG14_HUMAN	asparagine-linked glycosylation 14 homolog	178	Cytoplasmic (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity				0		all_lung(203;0.0232)|Lung NSC(277;0.0739)		all cancers(265;0.0615)|Epithelial(280;0.139)		TAACGTTTCTACACGGCAGAT	0.433													27	73					0	0	0.00632	0	0		G	95448750	G	G	95448750	3	3	4	1	0	0	0	0	1	0	0	0	516	391	14	3	121	3	ALG14	1	95448750	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1088562	95448750	153801871	160	2126											
LPPR5	163404	broad.mit.edu	37	chr1	99380468	99380468	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttgaaattattcaccacGcacacaacctaaaatttcag	15	11	3	12	1	2	1	2	1	0	0	2	1	2	1	3	0	1	1	3	0	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:99380468G>A	uc001dsb.2	-	5	1029	c.807C>T	c.(805-807)TGC>TGT	p.C269C	LPPR5_uc001dsc.2_Silent_p.C269C	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	269	Helical; (Potential).					integral to membrane	hydrolase activity				0						TATTCACCACGCACACAACCT	0.393													11	149					0	0	0.003163	0	0		A	99380468	A	A	99380468	2	1	4	1	0	0	0	0	0	0	0	1	8946	1079	38	1		1	LPPR5	1	99380468	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3931718	99380468	149870153	161	2127											
AGL	178	broad.mit.edu	37	chr1	100340251	100340251	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttcttttagaaaataggCgagtaaccaagtctgatcca	13	13	7	8	1	3	2	0	1	3	1	4	3	4	2	2	1	1	1	2	1	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:100340251C>T	uc001dsi.1	+	8	1367	c.967C>T	c.(967-969)CGA>TGA	p.R323*	AGL_uc001dsj.1_Nonsense_Mutation_p.R323*|AGL_uc001dsk.1_Nonsense_Mutation_p.R323*|AGL_uc001dsl.1_Nonsense_Mutation_p.R323*|AGL_uc001dsm.1_Nonsense_Mutation_p.R307*|AGL_uc001dsn.1_Nonsense_Mutation_p.R306*	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	323	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		AGAAAATAGGCGAGTAACCAA	0.333													5	38					0	0	0.001168	0	0		T	100340251	T	T	100340251	4	4	4	1	0	0	0	0	0	1	0	0	384	760	27	1	1062	1	AGL	1	100340251	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	959783	100340251	148910370	162	2128											
CCDC76	54482	broad.mit.edu	37	chr1	100606013	100606013	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcccatccagcattacaCgatgcacttaatgaccctaa	13	10	5	13	1	0	1	0	1	0	0	2	2	2	1	3	0	3	2	3	0	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:100606013C>T	uc001dsv.2	+	6	463	c.444C>T	c.(442-444)CAC>CAT	p.H148H	CCDC76_uc010ouf.1_RNA|CCDC76_uc009wea.2_Silent_p.H148H	NM_019083	NP_061956	Q9NUP7	TRM13_HUMAN	coiled-coil domain containing 76	148					tRNA processing		metal ion binding|methyltransferase activity			ovary(1)	1		all_epithelial(167;0.000542)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0814)|all cancers(265;0.133)|COAD - Colon adenocarcinoma(174;0.146)|Lung(183;0.194)		CAGCATTACACGATGCACTTA	0.393													6	130					0	0	0.004482	0	0		T	100606013	T	T	100606013	2	4	4	1	0	0	0	0	0	0	0	1	2853	535	19	1		1	CCDC76	1	100606013	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	265762	100606013	148644608	163	2129											
VCAM1	7412	broad.mit.edu	37	chr1	101194751	101194751	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacatgtagtgtcatgggCtgtgaatccccatctttctc	7	15	9	10	0	3	2	1	2	2	0	5	2	4	2	2	1	0	2	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:101194751C>A	uc001dti.2	+	5	1137	c.1017C>A	c.(1015-1017)GGC>GGA	p.G339G	VCAM1_uc001dtj.2_Intron|VCAM1_uc010ouj.1_Silent_p.G277G	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	339	Ig-like C2-type 4.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	GTGTCATGGGCTGTGAATCCC	0.547													27	64					1.17739e-12	1.27535e-12	0.005443	1	0		A	101194751	A	A	101194751	2	1	4	1	0	0	0	0	0	0	0	1	17163	784	28	5		5	VCAM1	1	101194751	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	588738	101194751	148055870	164	2130											
VCAM1	7412	broad.mit.edu	37	chr1	101197021	101197021	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctaagttacatattgatgAcatggaattcgaacccaaac	15	10	8	8	1	0	2	0	2	0	0	1	4	0	3	1	2	3	2	1	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:101197021A>G	uc001dti.2	+	6	1592	c.1472A>G	c.(1471-1473)GAC>GGC	p.D491G	VCAM1_uc001dtj.2_Missense_Mutation_p.D399G|VCAM1_uc010ouj.1_Missense_Mutation_p.D429G	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	491	Ig-like C2-type 5.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	CATATTGATGACATGGAATTC	0.363													5	118					0	0	0.001168	0	0		G	101197021	G	G	101197021	3	3	4	1	0	0	0	0	1	0	0	0	17163	275	10	3	1494	3	VCAM1	1	101197021	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	2270	101197021	148053600	165	2131											
NTNG1	22854	broad.mit.edu	37	chr1	107867347	107867347	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaatcaaagacaggttcgcGttttttgctggacctcgcct	9	12	10	10	3	1	1	1	0	0	1	3	3	1	2	2	2	1	3	2	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:107867347G>A	uc001dvh.3	+	3	1408	c.690G>A	c.(688-690)GCG>GCA	p.A230A	NTNG1_uc001dvf.3_Silent_p.A230A|NTNG1_uc010out.1_Silent_p.A230A|NTNG1_uc001dvc.3_Silent_p.A230A|NTNG1_uc001dvd.1_Silent_p.A230A	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	230	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		ACAGGTTCGCGTTTTTTGCTG	0.428													4	44					0	0	0.000602	0	0		A	107867347	A	A	107867347	2	1	4	1	0	0	0	0	0	0	0	1	10723	1132	40	1		1	NTNG1	1	107867347	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6670326	107867347	141383274	166	2132											
FAM102B	284611	broad.mit.edu	37	chr1	109154858	109154858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcaggaaataccactcgccGctgtttactggaaggctatg	11	10	10	10	2	1	0	1	0	0	0	2	2	1	2	2	3	2	3	2	3	5	4	rs141529277	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:109154858G>A	uc010ouy.1	+	4	427	c.347G>A	c.(346-348)CGC>CAC	p.R116H		NM_001010883	NP_001010883	Q5T8I3	F102B_HUMAN	hypothetical protein LOC284611	116										large_intestine(1)	1		all_epithelial(167;5.52e-05)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0217)|Lung(183;0.109)|COAD - Colon adenocarcinoma(174;0.141)|Epithelial(280;0.182)		ACCACTCGCCGCTGTTTACTG	0.363													35	84					0	0	0.006999	0	0		A	109154858	A	A	109154858	3	1	4	1	0	0	0	0	1	0	0	0	5394	1087	38	1	361	1	FAM102B	1	109154858	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1287511	109154858	140095763	167	2133											
GPSM2	29899	broad.mit.edu	37	chr1	109461284	109461284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taagcaaaaacctcttattgCcaaaccttctgcaaagctac	15	10	4	12	0	2	0	0	0	2	0	2	0	2	0	3	0	7	3	3	0	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:109461284C>T	uc010ovc.1	+	12	1809	c.1313C>T	c.(1312-1314)GCC>GTC	p.A438V	AKNAD1_uc010ovb.1_Intron|GPSM2_uc010ovd.1_Missense_Mutation_p.A438V|GPSM2_uc010ove.1_Missense_Mutation_p.A438V	NM_013296	NP_037428	P81274	GPSM2_HUMAN	LGN protein	438					G-protein coupled receptor protein signaling pathway	cell cortex|nucleus	GTPase activator activity|identical protein binding			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0353)|Lung(183;0.0984)|COAD - Colon adenocarcinoma(174;0.129)|Epithelial(280;0.175)|all cancers(265;0.209)		CCTCTTATTGCCAAACCTTCT	0.388													7	86					0	0	0.00308	0	0		T	109461284	T	T	109461284	3	4	4	1	0	0	0	0	1	0	0	0	6751	739	26	2	1355	2	GPSM2	1	109461284	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	306426	109461284	139789337	168	2134											
CELSR2	1952	broad.mit.edu	37	chr1	109811556	109811556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctggggccaagctgccccGctacgaggccctgcgtgggg	4	6	17	14	3	0	0	0	0	0	0	0	1	0	0	4	5	5	3	4	5	2	1	rs141644848		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:109811556G>A	uc001dxa.3	+	19	6618	c.6557G>A	c.(6556-6558)CGC>CAC	p.R2186H		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2186	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		AAGCTGCCCCGCTACGAGGCC	0.592													8	25					0	0	0.006214	0	0		A	109811556	A	A	109811556	3	1	4	1	0	0	0	0	1	0	0	0	3225	1087	38	1	6631	1	CELSR2	1	109811556	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	350272	109811556	139439065	169	2135											
MYBPHL	343263	broad.mit.edu	37	chr1	109840068	109840068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaggatgtcaatggtggCggtggcctccagcccaccca	8	6	12	15	1	1	0	1	0	0	0	2	1	2	1	5	5	1	0	5	5	1	0	rs34962971		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:109840068C>T	uc001dxk.1	-	3	456	c.406G>A	c.(406-408)GCC>ACC	p.A136T	MYBPHL_uc010ovh.1_Intron|MYBPHL_uc001dxl.2_Intron	NM_001010985	NP_001010985	A2RUH7	MBPHL_HUMAN	myosin binding protein H-like	136	Ig-like C2-type 1.									ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(203;0.00519)|all_epithelial(167;0.00575)|Lung NSC(277;0.00822)		Colorectal(144;0.0306)|Lung(183;0.0681)|COAD - Colon adenocarcinoma(174;0.117)|Epithelial(280;0.197)|all cancers(265;0.225)		TCAATGGTGGCGGTGGCCTCC	0.612													8	20					0	0	0.008291	0	0		T	109840068	T	T	109840068	3	4	4	1	0	0	0	0	1	0	0	0	10033	768	27	1	682	1	MYBPHL	1	109840068	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	28512	109840068	139410553	170	2136											
AMPD2	271	broad.mit.edu	37	chr1	110172028	110172028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagccccctgcctgaggCgtgggtggaggaggacaacc	8	4	18	11	1	0	2	0	1	0	1	0	6	0	5	4	6	3	0	4	6	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:110172028C>T	uc009wfh.1	+	15	2482	c.1940C>T	c.(1939-1941)GCG>GTG	p.A647V	AMPD2_uc009wfg.1_RNA|AMPD2_uc001dyb.1_Missense_Mutation_p.A566V|AMPD2_uc001dyc.1_Missense_Mutation_p.A647V|AMPD2_uc010ovr.1_Missense_Mutation_p.A572V|AMPD2_uc001dyd.1_Missense_Mutation_p.A528V|AMPD2_uc001dye.1_5'UTR	NM_004037	NP_004028	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2 (isoform L)	647					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|breast(1)	3		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		CTGCCTGAGGCGTGGGTGGAG	0.562													40	113					0	0	0.003214	0	0		T	110172028	T	T	110172028	3	4	4	1	0	0	0	0	1	0	0	0	586	768	27	1	2035	1	AMPD2	1	110172028	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	331960	110172028	139078593	171	2137											
ALX3	257	broad.mit.edu	37	chr1	110603359	110603359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtccatgcaaccgatcacGtggtccagttcagaaggccg	10	7	12	12	3	2	1	2	0	0	1	4	2	4	1	4	3	2	2	4	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:110603359G>A	uc001dzb.2	-	4	1116	c.1028C>T	c.(1027-1029)ACG>ATG	p.T343M		NM_006492	NP_006483	O95076	ALX3_HUMAN	aristaless-like homeobox 3	343						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(81;2.35e-05)|all_epithelial(167;7.69e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.015)|all cancers(265;0.0706)|Epithelial(280;0.0758)|Colorectal(144;0.113)|LUSC - Lung squamous cell carcinoma(189;0.135)		AACCGATCACGTGGTCCAGTT	0.577													13	42					0	0	0.00499	0	0		A	110603359	A	A	110603359	3	1	4	1	0	0	0	0	1	0	0	0	557	1145	40	1	7	1	ALX3	1	110603359	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	431331	110603359	138647262	172	2138											
SLC6A17	388662	broad.mit.edu	37	chr1	110737374	110737374	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcgacaccttcaaggtGcccaaggagatgttcacagg	12	8	10	11	1	3	1	3	0	0	1	4	3	3	1	2	3	1	1	2	3	2	2	rs143840691		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:110737374G>A	uc009wfq.2	+	9	1934	c.1473G>A	c.(1471-1473)GTG>GTA	p.V491V	SLC6A17_uc001dze.1_Silent_p.V89V	NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	491	Helical; Name=9; (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		CCTTCAAGGTGCCCAAGGAGA	0.577													4	48					0	0	0.009096	0	0		A	110737374	A	A	110737374	2	1	4	1	0	0	0	0	0	0	0	1	14705	1306	46	2		2	SLC6A17	1	110737374	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	134015	110737374	138513247	173	2139											
RBM15	64783	broad.mit.edu	37	chr1	110884009	110884009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtctcctgagagtgaccGcccacgaaaacgtcactgcg	10	7	11	13	4	2	2	1	2	1	1	3	4	2	2	3	1	2	0	3	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:110884009G>A	uc001dzl.1	+	1	2065	c.1982G>A	c.(1981-1983)CGC>CAC	p.R661H	RBM15_uc001dzm.1_Missense_Mutation_p.R661H|uc001dzj.2_5'Flank	NM_022768	NP_073605	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	661	Arg-rich.				interspecies interaction between organisms	nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		GAGAGTGACCGCCCACGAAAA	0.567			T	MKL1	acute megakaryocytic leukemia								7	27					0	0	0.001984	0	0		A	110884009	A	A	110884009	3	1	4	1	0	0	0	0	1	0	0	0	13141	1087	38	1	1984	1	RBM15	1	110884009	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	146635	110884009	138366612	174	2140											
KCNA3	3738	broad.mit.edu	37	chr1	111216253	111216253	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcccagctcccgcatggaCgccttcagcgtttgcccgag	7	8	10	16	4	1	0	1	0	0	0	3	2	3	1	4	1	3	3	4	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:111216253C>T	uc001dzv.1	-	1	1403	c.1179G>A	c.(1177-1179)GCG>GCA	p.A393A		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	393						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCCGCATGGACGCCTTCAGCG	0.587													8	80					0	0	0.00308	0	0		T	111216253	T	T	111216253	2	4	4	1	0	0	0	0	0	0	0	1	8020	523	19	1		1	KCNA3	1	111216253	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	332244	111216253	138034368	175	2141											
C1orf103	55791	broad.mit.edu	37	chr1	111495126	111495126	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagaaactgatgaagaaaaaTttccagttcccacagaagta	18	9	7	7	0	0	5	0	2	0	3	2	5	2	5	2	0	1	2	2	0	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:111495126T>A	uc001eaa.2	-	2	636	c.380A>T	c.(379-381)AAT>ATT	p.N127I	C1orf103_uc001dzz.2_Intron|C1orf103_uc001eab.2_Intron|C1orf103_uc001eac.1_Intron	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	127					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		TGAAGAAAAATTTCCAGTTCC	0.378													24	77					0	0	0.00333	0	0		A	111495126	A	A	111495126	3	1	4	1	0	0	0	0	1	0	0	0	1980	1493	52	5	1941	5	C1orf103	1	111495126	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	278873	111495126	137755495	176	2142											
OVGP1	5016	broad.mit.edu	37	chr1	111969183	111969183	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcagagaaaggggtccaGgtcatggggcaagatcgagg	11	5	19	6	1	1	2	1	0	0	2	3	4	2	2	1	7	1	2	1	7	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:111969183G>A	uc001eba.2	-	3	192	c.136C>T	c.(136-138)CTG>TTG	p.L46L	OVGP1_uc001eaz.2_5'UTR|OVGP1_uc010owb.1_5'UTR|OVGP1_uc010owc.1_Silent_p.L36L	NM_002557	NP_002548	Q12889	OVGP1_HUMAN	oviductal glycoprotein 1 precursor	46					chitin catabolic process|female pregnancy|single fertilization	transport vesicle	cation binding|chitinase activity			ovary(4)|large_intestine(1)	5		all_cancers(81;8.18e-06)|all_epithelial(167;5.64e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000302)		Lung(183;0.0253)|Colorectal(144;0.033)|all cancers(265;0.0552)|Epithelial(280;0.0802)|COAD - Colon adenocarcinoma(174;0.123)|LUSC - Lung squamous cell carcinoma(189;0.14)		AAGGGGTCCAGGTCATGGGGC	0.512													10	29					0	0	0.000978	0	0		A	111969183	A	A	111969183	2	1	4	1	0	0	0	0	0	0	0	1	11344	991	35	4		4	OVGP1	1	111969183	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	474057	111969183	137281438	177	2143											
KCND3	3752	broad.mit.edu	37	chr1	112524688	112524688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagaaggccaccgagtagcGctccccgcacggcagctcct	9	4	12	16	4	0	1	0	0	0	1	2	3	2	1	5	2	2	5	5	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:112524688G>A	uc001ebu.1	-	2	1141	c.661C>T	c.(661-663)CGC>TGC	p.R221C	KCND3_uc001ebv.1_Missense_Mutation_p.R221C	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	221						sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		ACCGAGTAGCGCTCCCCGCAC	0.657													6	9					0	0	0.006214	0	0		A	112524688	A	A	112524688	3	1	4	1	0	0	0	0	1	0	0	0	8036	1087	38	1	1334	1	KCND3	1	112524688	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	555505	112524688	136725933	178	2144											
CAPZA1	829	broad.mit.edu	37	chr1	113189836	113189836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttgtttctctttaggtacGcatagctgctaaattcatca	9	18	6	8	1	3	0	2	0	1	0	4	0	3	0	0	1	3	5	0	1	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:113189836G>A	uc001ecj.1	+	2	436	c.44G>A	c.(43-45)CGC>CAC	p.R15H		NM_006135	NP_006126	P52907	CAZA1_HUMAN	F-actin capping protein alpha-1 subunit	15					actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement|innate immune response|protein complex assembly	cytosol|extracellular region|F-actin capping protein complex|WASH complex	actin binding				0	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTTTAGGTACGCATAGCTGCT	0.303													14	86					0	0	0.007413	0	0		A	113189836	A	A	113189836	3	1	4	1	0	0	0	0	1	0	0	0	2643	1087	38	1	50	1	CAPZA1	1	113189836	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	665148	113189836	136060785	179	2145											
HIPK1	204851	broad.mit.edu	37	chr1	114499899	114499899	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaatcagctcaatacagtGcacaatcaggtattcaataa	17	9	6	9	0	4	0	4	0	0	0	4	0	4	0	0	1	4	4	0	1	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:114499899G>A	uc001eem.2	+	7	1907	c.1746G>A	c.(1744-1746)GTG>GTA	p.V582V	HIPK1_uc001eel.2_Silent_p.V582V|HIPK1_uc001een.2_Silent_p.V582V|HIPK1_uc001eeo.2_Silent_p.V208V|HIPK1_uc001eep.2_Silent_p.V188V	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	582					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCAATACAGTGCACAATCAGG	0.373													18	40					0	0	0.008871	0	0		A	114499899	A	A	114499899	2	1	4	1	0	0	0	0	0	0	0	1	7132	1306	46	2		2	HIPK1	1	114499899	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1310063	114499899	134750722	180	2146											
TRIM33	51592	broad.mit.edu	37	chr1	114967378	114967378	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactgatcaatcgaggaggCtacaaaaagtagaaattgca	18	7	9	7	1	1	2	1	1	0	1	2	4	1	3	0	2	2	3	0	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:114967378C>T	uc001eew.2	-	10	1780	c.1696_splice	c.e10-1	p.P566_splice	TRIM33_uc010owr.1_Splice_Site_p.P156_splice|TRIM33_uc010ows.1_Splice_Site_p.P174_splice|TRIM33_uc001eex.2_Splice_Site_p.P566_splice	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform						negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATCGAGGAGGCTACAAAAAGT	0.303			T	RET	papillary thyroid								3	31					0	0	0.004672	0	0		T	114967378	T	T	114967378	5	4	4	1	0	0	0	0	0	0	1	0	16533	811	28	2	1732	2	TRIM33	1	114967378	Splice_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	467479	114967378	134283243	181	2147											
NGF	4803	broad.mit.edu	37	chr1	115828756	115828756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtatctatccggataaaccGccaggcagcctgcttgccat	9	9	9	14	3	1	0	0	0	1	0	2	1	2	1	5	2	4	3	5	2	4	4	rs11466112		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:115828756G>A	uc001efu.1	-	3	830	c.661C>T	c.(661-663)CGG>TGG	p.R221W		NM_002506	NP_002497	P01138	NGF_HUMAN	nerve growth factor, beta polypeptide precursor	221					activation of MAPKK activity|activation of phospholipase C activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of cell cycle|nerve growth factor processing|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|Golgi lumen	growth factor activity|nerve growth factor receptor binding			upper_aerodigestive_tract(2)	2	Lung SC(450;0.211)	all_cancers(81;1.07e-06)|all_epithelial(167;4.43e-06)|all_lung(203;2.86e-05)|Lung NSC(69;4.99e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|all cancers(265;0.159)|Epithelial(280;0.179)	Clenbuterol(DB01407)	CGGATAAACCGCCAGGCAGCC	0.587													12	35					0	0	0.00245	0	0		A	115828756	A	A	115828756	3	1	4	1	0	0	0	0	1	0	0	0	10414	1086	38	1	68	1	NGF	1	115828756	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	861378	115828756	133421865	182	2148											
IGSF3	3321	broad.mit.edu	37	chr1	117150721	117150721	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagcacaaagacactgtcGctctctttggccaccttaag	10	11	7	13	1	2	1	1	0	1	1	4	1	2	1	2	1	1	2	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:117150721G>A	uc001egr.1	-	5	1770	c.1065C>T	c.(1063-1065)AGC>AGT	p.S355S	IGSF3_uc001egq.1_Silent_p.S355S|IGSF3_uc001egs.1_Silent_p.S28S	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	355	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		AGACACTGTCGCTCTCTTTGG	0.567													10	101					0	0	0.008291	0	0		A	117150721	A	A	117150721	2	1	4	1	0	0	0	0	0	0	0	1	7617	1078	38	1		1	IGSF3	1	117150721	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1321965	117150721	132099900	183	2149											
IGSF3	3321	broad.mit.edu	37	chr1	117156493	117156493	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcctcgcagtagaattcGccctggtcagaaggctgcag	8	7	14	12	3	1	2	1	0	0	2	3	2	1	2	2	3	1	4	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:117156493G>A	uc001egr.1	-	4	1431	c.726C>T	c.(724-726)GGC>GGT	p.G242G	IGSF3_uc001egq.1_Silent_p.G242G	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	242	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		AGTAGAATTCGCCCTGGTCAG	0.627													8	24					0	0	0.008291	0	0		A	117156493	A	A	117156493	2	1	4	1	0	0	0	0	0	0	0	1	7617	1074	38	1		1	IGSF3	1	117156493	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5772	117156493	132094128	184	2150											
IGSF3	3321	broad.mit.edu	37	chr1	117156666	117156666	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctcgccaactttctgccGgagccaggccacagacaggt	8	8	10	15	2	2	1	0	0	2	1	3	2	2	2	4	3	3	0	4	3	1	2	rs144111921		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:117156666G>T	uc001egr.1	-	4	1258	c.553C>A	c.(553-555)CGG>AGG	p.R185R	IGSF3_uc001egq.1_Silent_p.R185R	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	185	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		ACTTTCTGCCGGAGCCAGGCC	0.612													9	24					5.16669e-11	5.5711e-11	0.000978	1	0		T	117156666	T	T	117156666	2	4	4	1	0	0	0	0	0	0	0	1	7617	1115	39	5		5	IGSF3	1	117156666	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	173	117156666	132093955	185	2151											
SPAG17	200162	broad.mit.edu	37	chr1	118634571	118634571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctggtggtggagcttgcgGttcttcatactgtgctttct	3	16	13	9	1	3	0	1	0	2	0	3	1	3	1	1	4	4	3	1	4	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:118634571G>A	uc001ehk.2	-	9	1296	c.1228C>T	c.(1228-1230)CCG>TCG	p.P410S		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	410						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GGAGCTTGCGGTTCTTCATAC	0.448													46	171					0	0	0.00361	0	0		A	118634571	A	A	118634571	3	1	4	1	0	0	0	0	1	0	0	0	15004	1261	44	4	5603	4	SPAG17	1	118634571	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1477905	118634571	130616050	186	2152											
HSD3B2	3284	broad.mit.edu	37	chr1	119965056	119965056	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccaatttactcctatcAaccccccttcaaccgccaca	11	8	2	20	1	2	0	2	0	0	0	3	0	3	0	7	0	4	0	7	0	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:119965056A>G	uc001ehs.2	+	3	1705	c.932A>G	c.(931-933)CAA>CGA	p.Q311R	HSD3B2_uc001eht.2_Missense_Mutation_p.Q311R|HSD3B2_uc001ehu.2_Intron	NM_000198	NP_000189	P26439	3BHS2_HUMAN	3 beta-hydroxysteroid dehydrogenase 2	311					androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)	TACTCCTATCAACCCCCCTTC	0.488													5	47					0	0	0.001984	0	0		G	119965056	G	G	119965056	3	3	4	1	0	0	0	0	1	0	0	0	7407	130	5	3	942	3	HSD3B2	1	119965056	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1330485	119965056	129285565	187	2153											
HSD3B2	3284	broad.mit.edu	37	chr1	119985638	119985638	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcggagtcactcacagaCagtctatcatgaatgtcaat	12	12	7	10	1	6	2	4	1	2	1	7	3	6	3	0	1	0	0	0	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:119985638C>G	uc001ehu.2	+	4	587	c.445C>G	c.(445-447)CAG>GAG	p.Q149E				P26439	3BHS2_HUMAN	RecName: Full=3 beta-hydroxysteroid dehydrogenase/Delta 5-->4-isomerase type 2; AltName: Full=3-beta-HSD II; Includes:   RecName: Full=3-beta-hydroxy-Delta(5)-steroid dehydrogenase;            EC=1.1.1.145;   AltName: Full=3-beta-hydroxy-5-ene steroid dehydrogenase;   AltName: Full=Progesterone reductase; Includes:   RecName: Full=Steroid Delta-isomerase;            EC=5.3.3.1;   AltName: Full=Delta-5-3-ketosteroid isomerase;	Error:Variant_position_missing_in_P26439_after_alignment					androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)	CACTCACAGACAGTCTATCAT	0.498													4	40					0	0	0.001984	0	0		G	119985638	G	G	119985638	3	3	4	1	0	0	0	0	1	0	0	0	7407	493	17	5		5	HSD3B2	1	119985638	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20582	119985638	129264983	188	2154											
NOTCH2	4853	broad.mit.edu	37	chr1	120462077	120462077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcgggctgcaaggtgcaggGccatctcaccagtccggtct	7	7	14	13	2	2	0	1	0	2	0	4	0	3	0	3	4	3	3	3	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:120462077G>A	uc001eik.2	-	31	5895	c.5639C>T	c.(5638-5640)GCC>GTC	p.A1880V		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1880	Cytoplasmic (Potential).|ANK 2.				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		AAGGTGCAGGGCCATCTCACC	0.592			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				5	35					0	0	0.000602	0	0		A	120462077	A	A	120462077	3	1	4	1	0	0	0	0	1	0	0	0	10567	1203	42	2	1792	2	NOTCH2	1	120462077	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	476439	120462077	128788544	189	2155											
NOTCH2	4853	broad.mit.edu	37	chr1	120483245	120483245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacccaggccatcaacacacGttccctcattcaggcatgga	11	8	7	15	1	3	0	3	0	0	0	4	1	4	1	3	3	2	2	3	3	2	3	rs61755044	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:120483245G>A	uc001eik.2	-	19	3372	c.3116C>T	c.(3115-3117)ACG>ATG	p.T1039M	NOTCH2_uc001eil.2_Missense_Mutation_p.T1039M	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1039	Extracellular (Potential).|EGF-like 27; calcium-binding (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATCAACACACGTTCCCTCATT	0.522			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				26	87					0	0	0.004656	0	0		A	120483245	A	A	120483245	3	1	4	1	0	0	0	0	1	0	0	0	10567	1145	40	1	4363	1	NOTCH2	1	120483245	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	21168	120483245	128767376	190	2156											
NBPF9	400818	broad.mit.edu	37	chr1	144814869	144814869	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggggtgtagactggcacaGcaccttgtccaaaagctcag	11	7	13	10	0	1	1	1	0	0	1	2	2	2	1	2	3	2	4	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:144814869G>T	uc009wig.1	+	11	1357	c.1281G>T	c.(1279-1281)CAG>CAT	p.Q427H	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Missense_Mutation_p.Q427H|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Missense_Mutation_p.Q358H|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Missense_Mutation_p.Q358H|NBPF9_uc010oyg.1_Missense_Mutation_p.Q392H|NBPF9_uc009wii.1_Missense_Mutation_p.Q156H|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Missense_Mutation_p.Q87H	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	427						cytoplasm					0						GACTGGCACAGCACCTTGTCC	0.572													5	84					0.00307968	0.00319789	0.00308	1	0		T	144814869	T	T	144814869	3	4	4	1	0	0	0	0	1	0	0	0	10218	962	34	5	1309	5	NBPF9	1	144814869	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	24331624	144814869	104435752	191	2157											
PDE4DIP	9659	broad.mit.edu	37	chr1	144916600	144916600	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttcctatcatgaagagaCgtctgtaactgctgaatgat	11	14	9	7	1	2	4	1	3	1	1	3	5	3	4	1	0	2	3	1	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:144916600C>T	uc001elw.3	-	13	2046	c.1755G>A	c.(1753-1755)ACG>ACA	p.T585T	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Silent_p.T651T|PDE4DIP_uc001emc.1_Silent_p.T585T|PDE4DIP_uc001emd.1_Silent_p.T585T|PDE4DIP_uc001emb.1_Silent_p.T748T|PDE4DIP_uc001eme.1_Silent_p.T114T|PDE4DIP_uc001emf.1_Silent_p.T372T	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	585	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CATGAAGAGACGTCTGTAACT	0.418			T	PDGFRB	MPD								21	748					0	0	0.00333	0	0		T	144916600	T	T	144916600	2	4	4	1	0	0	0	0	0	0	0	1	11662	523	19	1		1	PDE4DIP	1	144916600	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	101731	144916600	104334021	192	2158											
PDE4DIP	9659	broad.mit.edu	37	chr1	144917533	144917533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattggaggagaggacatcgCgcagtctctctaagtcatga	11	9	12	9	2	3	2	1	1	2	1	5	5	3	4	0	3	0	1	0	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:144917533C>T	uc001elw.3	-	12	1862	c.1571G>A	c.(1570-1572)CGC>CAC	p.R524H	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R590H|PDE4DIP_uc001emc.1_Missense_Mutation_p.R524H|PDE4DIP_uc001emd.1_Missense_Mutation_p.R524H|PDE4DIP_uc001emb.1_Missense_Mutation_p.R687H|PDE4DIP_uc001eme.1_Missense_Mutation_p.R53H|PDE4DIP_uc001emf.1_Missense_Mutation_p.R311H	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	524	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GAGGACATCGCGCAGTCTCTC	0.458			T	PDGFRB	MPD								54	389					0	0	0.00361	0	0		T	144917533	T	T	144917533	3	4	4	1	0	0	0	0	1	0	0	0	11662	768	27	1	5611	1	PDE4DIP	1	144917533	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	933	144917533	104333088	193	2159											
TXNIP	10628	broad.mit.edu	37	chr1	145440095	145440095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgttcattcctgatgggCgggtgtctgtctctgctcga	4	14	13	10	2	3	1	1	1	2	0	6	2	4	1	1	2	1	3	1	2	0	2	rs143973146	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:145440095C>T	uc001enn.3	+	4	870	c.529C>T	c.(529-531)CGG>TGG	p.R177W	NBPF10_uc001emp.3_Intron|TXNIP_uc001enm.1_Intron|TXNIP_uc010oys.1_Missense_Mutation_p.R122W	NM_006472	NP_006463	Q9H3M7	TXNIP_HUMAN	thioredoxin interacting protein	177					cell cycle|keratinocyte differentiation|transcription, DNA-dependent		ubiquitin protein ligase binding			ovary(2)	2	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TCCTGATGGGCGGGTGTCTGT	0.428													10	293					0	0	0.000978	0	0		T	145440095	T	T	145440095	3	4	4	1	0	0	0	0	1	0	0	0	16829	759	27	1	543	1	TXNIP	1	145440095	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	522562	145440095	103810526	194	2160											
PDZK1	5174	broad.mit.edu	37	chr1	145748554	145748554	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctatctcgtgaaggaaggaGgcagctatggcttctctctg	8	11	13	9	1	3	1	0	1	3	0	5	3	3	3	0	4	1	4	0	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:145748554G>T	uc001eon.1	+	4	524	c.427G>T	c.(427-429)GGC>TGC	p.G143C	NBPF10_uc001emp.3_Intron|PDZK1_uc001eoo.1_Missense_Mutation_p.G143C|PDZK1_uc010oza.1_Missense_Mutation_p.G143C	NM_002614	NP_002605	Q5T2W1	NHRF3_HUMAN	PDZ domain containing 1	143	PDZ 2.				carnitine transport|cell proliferation|drug transport|positive regulation of ion transmembrane transport	brush border membrane|cytoplasm	PDZ domain binding|transporter activity				0	all_hematologic(18;0.00473)|Acute lymphoblastic leukemia(18;0.0786)		KIRC - Kidney renal clear cell carcinoma(6;0.0764)|Kidney(552;0.118)|Colorectal(543;0.229)			GAAGGAAGGAGGCAGCTATGG	0.522													6	75					8.12818e-05	8.5301e-05	0.001984	1	0		T	145748554	T	T	145748554	3	4	4	1	0	0	0	0	1	0	0	0	11726	1000	35	5	433	5	PDZK1	1	145748554	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	308459	145748554	103502067	195	2161											
CHD1L	9557	broad.mit.edu	37	chr1	146756152	146756152	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctagtcaagagggccgaTcactccgaaataaaggcagt	15	6	11	9	2	2	1	2	0	0	1	3	3	3	1	2	2	1	2	2	2	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:146756152T>C	uc001epm.3	+	16	1897	c.1834T>C	c.(1834-1836)TCA>CCA	p.S612P	uc001epp.2_Intron|CHD1L_uc001epn.3_Missense_Mutation_p.S499P|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Missense_Mutation_p.S518P|CHD1L_uc010ozp.1_Missense_Mutation_p.S331P|CHD1L_uc001epo.3_Missense_Mutation_p.S408P|CHD1L_uc010ozq.1_Missense_Mutation_p.S185P|CHD1L_uc009wji.2_Missense_Mutation_p.S331P	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	612					chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)					AGAGGGCCGATCACTCCGAAA	0.353													39	113					0	0	0.00874	0	0		C	146756152	C	C	146756152	3	2	4	1	0	0	0	0	1	0	0	0	3327	1435	50	3	1896	3	CHD1L	1	146756152	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1007598	146756152	102494469	196	2162											
SV2A	9900	broad.mit.edu	37	chr1	149879659	149879659	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaagttaaaagttacatgCtctacgcgctccccggggaa	11	9	11	10	3	1	1	0	1	1	0	2	2	2	2	2	2	3	4	2	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:149879659C>T	uc001etg.2	-	9	1970	c.1479G>A	c.(1477-1479)GAG>GAA	p.E493E	SV2A_uc009wlk.2_5'Flank|SV2A_uc001eth.2_Silent_p.E493E	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	493	Extracellular (Potential).			E -> G (in Ref. 4; CAD97824).	neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	AAGTTACATGCTCTACGCGCT	0.522													5	113					0	0	0.001168	0	0		T	149879659	T	T	149879659	2	4	4	1	0	0	0	0	0	0	0	1	15442	796	28	2		2	SV2A	1	149879659	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3123507	149879659	99370962	197	2163											
SF3B4	10262	broad.mit.edu	37	chr1	149898418	149898418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcggctgctgagccatggcGctcacccttggagtccttct	4	12	11	14	2	2	1	1	1	1	0	4	2	3	2	3	3	2	3	3	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:149898418G>A	uc001etj.1	-	3	607	c.556C>T	c.(556-558)CGC>TGC	p.R186C	SF3B4_uc001eti.1_5'Flank|SF3B4_uc001etk.1_Missense_Mutation_p.R186C|SF3B4_uc009wll.1_Missense_Mutation_p.R186C	NM_005850	NP_005841	Q15427	SF3B4_HUMAN	splicing factor 3b, subunit 4	186						nucleoplasm|U12-type spliceosomal complex	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Breast(34;0.0009)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			GAGCCATGGCGCTCACCCTTG	0.557													23	50					0	0	0.007291	0	0		A	149898418	A	A	149898418	3	1	4	1	0	0	0	0	1	0	0	0	14178	1087	38	1	734	1	SF3B4	1	149898418	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	18759	149898418	99352203	198	2164											
PRPF3	9129	broad.mit.edu	37	chr1	150305209	150305209	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgaggagaggaaaaaacagCtgagcttcattagcccccct	13	7	10	11	1	1	2	1	1	0	1	2	5	1	3	3	2	4	2	3	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:150305209C>A	uc001eum.3	+	5	640	c.478C>A	c.(478-480)CTG>ATG	p.L160M	PRPF3_uc009wlp.2_RNA|PRPF3_uc010pca.1_Missense_Mutation_p.L119M|PRPF3_uc010pcb.1_Missense_Mutation_p.L111M|PRPF3_uc009wlq.1_5'Flank	NM_004698	NP_004689	O43395	PRPF3_HUMAN	PRP3 pre-mRNA processing factor 3 homolog	160					nuclear mRNA splicing, via spliceosome	Cajal body|cytoplasm|nuclear speck|spliceosomal complex	protein binding			ovary(1)	1	Lung NSC(24;5.57e-29)|Breast(34;0.000844)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)	Colorectal(1306;0.0149)		GAAAAAACAGCTGAGCTTCAT	0.408													27	52					7.01153e-11	7.55411e-11	0.007291	1	0		A	150305209	A	A	150305209	3	1	4	1	0	0	0	0	1	0	0	0	12587	796	28	5	492	5	PRPF3	1	150305209	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	406791	150305209	98945412	199	2165											
HORMAD1	84072	broad.mit.edu	37	chr1	150680815	150680815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcattaggatataaatcttgCgaatgaggagaatgcttgct	13	12	11	5	1	1	2	0	1	1	1	1	5	1	3	0	2	3	3	0	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:150680815C>T	uc001evk.1	-	9	570	c.464G>A	c.(463-465)CGC>CAC	p.R155H	HORMAD1_uc001evl.1_Missense_Mutation_p.R148H|HORMAD1_uc001evm.1_Missense_Mutation_p.R75H	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	155	HORMA.				blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			ATAAATCTTGCGAATGAGGAG	0.328													13	59					0	0	0.00245	0	0		T	150680815	T	T	150680815	3	4	4	1	0	0	0	0	1	0	0	0	7302	768	27	1	748	1	HORMAD1	1	150680815	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	375606	150680815	98569806	200	2166											
HORMAD1	84072	broad.mit.edu	37	chr1	150680846	150680846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatgcttgctttcttggtgtCagtagacaacatgctagatt	10	15	9	7	0	2	2	1	0	1	2	2	2	2	2	0	1	4	4	0	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:150680846C>T	uc001evk.1	-	9	539	c.433G>A	c.(433-435)GAC>AAC	p.D145N	HORMAD1_uc001evl.1_Missense_Mutation_p.D138N|HORMAD1_uc001evm.1_Missense_Mutation_p.D65N	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	145	HORMA.				blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			TTCTTGGTGTCAGTAGACAAC	0.328													17	57					0	0	0.006122	0	0		T	150680846	T	T	150680846	3	4	4	1	0	0	0	0	1	0	0	0	7302	826	29	4	779	4	HORMAD1	1	150680846	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	31	150680846	98569775	201	2167											
GABPB2	126626	broad.mit.edu	37	chr1	151076045	151076045	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttactgaaataggtgacccCcatgcctcaacagtacagtt	12	10	7	12	0	1	2	1	2	0	0	1	2	1	2	3	1	4	2	3	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:151076045C>T	uc001ewr.2	+	6	961	c.630C>T	c.(628-630)CCC>CCT	p.P210P	GABPB2_uc010pcp.1_Silent_p.P226P|GABPB2_uc001ews.2_Silent_p.P170P|GABPB2_uc001ewt.2_Intron	NM_144618	NP_653219	Q8TAK5	GABP2_HUMAN	GA repeat binding protein, beta 2	210					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	protein heterodimerization activity|transcription regulatory region DNA binding				0				all cancers(107;7.17e-05)|GBM - Glioblastoma multiforme(94;0.000662)		TAGGTGACCCCCATGCCTCAA	0.433													10	52					0	0	0.000978	0	0		T	151076045	T	T	151076045	2	4	4	1	0	0	0	0	0	0	0	1	6173	610	22	4		4	GABPB2	1	151076045	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	395199	151076045	98174576	202	2168											
PI4KB	5298	broad.mit.edu	37	chr1	151276023	151276023	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctggccataccggatgTcccctgctgcaatgaacaca	10	9	9	13	1	1	2	0	2	1	0	2	3	2	3	4	2	4	2	4	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:151276023T>C	uc001ext.2	-	6	1929	c.1514A>G	c.(1513-1515)GAC>GGC	p.D505G	PI4KB_uc001exr.2_Missense_Mutation_p.D517G|PI4KB_uc001exs.2_Missense_Mutation_p.D490G|PI4KB_uc001exu.2_Missense_Mutation_p.D490G|PI4KB_uc010pcw.1_Missense_Mutation_p.D173G	NM_002651	NP_002642	Q9UBF8	PI4KB_HUMAN	catalytic phosphatidylinositol 4-kinase beta	505					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|receptor-mediated endocytosis	endosome|Golgi apparatus|mitochondrial outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum membrane	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			ovary(2)|skin(2)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			ATACCGGATGTCCCCTGCTGC	0.507													46	174					0	0	0.00361	0	0		C	151276023	C	C	151276023	3	2	4	1	0	0	0	0	1	0	0	0	11893	1667	58	3	964	3	PI4KB	1	151276023	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	199978	151276023	97974598	203	2169											
POGZ	23126	broad.mit.edu	37	chr1	151396574	151396574	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttggtctggacggcatcGcccacgttctcatttggttc	5	14	11	11	3	2	0	1	0	2	0	5	1	2	1	1	4	0	4	1	4	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:151396574G>A	uc001eyd.1	-	9	1680	c.1374C>T	c.(1372-1374)GGC>GGT	p.G458G	POGZ_uc001eye.1_Silent_p.G405G|POGZ_uc010pdb.1_Silent_p.G449G|POGZ_uc001eyf.1_Silent_p.G405G|POGZ_uc010pdc.1_Silent_p.G396G|POGZ_uc009wmv.1_Silent_p.G363G|POGZ_uc010pdd.1_Intron	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	458					cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GGACGGCATCGCCCACGTTCT	0.507													5	107					0	0	0.000602	0	0		A	151396574	A	A	151396574	2	1	4	1	0	0	0	0	0	0	0	1	12205	1074	38	1		1	POGZ	1	151396574	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	120551	151396574	97854047	204	2170											
CELF3	11189	broad.mit.edu	37	chr1	151680282	151680282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcacggcctgggtgtaggCgctgtaggctccaaactgga	7	8	15	11	2	1	0	1	0	0	0	2	1	2	1	2	5	1	5	2	5	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:151680282C>T	uc001eys.1	-	6	1410	c.616G>A	c.(616-618)GCC>ACC	p.A206T	CELF3_uc010pdh.1_Missense_Mutation_p.A14T|CELF3_uc001eyr.2_Missense_Mutation_p.A205T|CELF3_uc009wmy.2_Missense_Mutation_p.A206T|CELF3_uc009wmx.1_Missense_Mutation_p.A206T|CELF3_uc001eyt.2_Missense_Mutation_p.A129T|C1orf230_uc001eyu.2_5'Flank	NM_007185	NP_009116	Q5SZQ8	CELF3_HUMAN	trinucleotide repeat containing 4	206					nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	mRNA binding|nucleotide binding			ovary(1)|central_nervous_system(1)	2						TGGGTGTAGGCGCTGTAGGCT	0.677													4	11					0	0	0.000602	0	0		T	151680282	T	T	151680282	3	4	4	1	0	0	0	0	1	0	0	0	3220	768	27	1	809	1	CELF3	1	151680282	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	283708	151680282	97570339	205	2171											
TDRKH	11022	broad.mit.edu	37	chr1	151747603	151747603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcttcaggaagctcaattgCgtatcctttgtgtactaatt	9	16	8	8	1	3	0	2	0	1	0	4	1	4	1	1	1	3	3	1	1	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:151747603C>T	uc009wnb.1	-	11	1656	c.1474G>A	c.(1474-1476)GCA>ACA	p.A492T	TDRKH_uc001eyy.2_Missense_Mutation_p.A268T|TDRKH_uc001ezb.3_Missense_Mutation_p.A488T|TDRKH_uc001ezc.3_Missense_Mutation_p.A447T|TDRKH_uc001eza.3_Missense_Mutation_p.A492T|TDRKH_uc001ezd.3_Missense_Mutation_p.A492T|TDRKH_uc010pdn.1_Missense_Mutation_p.A268T	NM_006862	NP_006853	Q9Y2W6	TDRKH_HUMAN	tudor and KH domain containing isoform a	492							RNA binding			ovary(1)|pancreas(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			AGCTCAATTGCGTATCCTTTG	0.408													13	64					0	0	0.004007	0	0		T	151747603	T	T	151747603	3	4	4	1	0	0	0	0	1	0	0	0	15762	768	27	1	223	1	TDRKH	1	151747603	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	67321	151747603	97503018	206	2172											
TCHH	7062	broad.mit.edu	37	chr1	152082230	152082230	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttctccggttcctctcTcagcagctgctcttcctcct	2	16	5	18	1	5	0	1	0	4	0	11	0	8	0	4	1	3	4	4	1	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152082230T>G	uc001ezp.2	-	2	3463	c.3463A>C	c.(3463-3465)AGA>CGA	p.R1155R	TCHH_uc009wne.1_Silent_p.R1155R	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1155	4-9.|10 X 30 AA tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGTTCCTCTCTCAGCAGctgc	0.174													15	45					0	0	0.00499	0	0		G	152082230	G	G	152082230	2	3	4	1	0	0	0	0	0	0	0	1	15725	1559	54	5		5	TCHH	1	152082230	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	334627	152082230	97168391	207	2173											
TCHH	7062	broad.mit.edu	37	chr1	152085491	152085491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattcgttgaaatcgacacGcccattactgtcaagatcca	13	10	7	11	3	1	2	1	1	0	1	4	4	2	2	2	0	1	1	2	0	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152085491G>A	uc001ezp.2	-	2	202	c.202C>T	c.(202-204)CGT>TGT	p.R68C	TCHH_uc009wne.1_Missense_Mutation_p.R68C	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	68	2; high affinity (Potential).|EF-hand 2.|S-100-like.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AAATCGACACGCCCATTACTG	0.443													15	32					0	0	0.00499	0	0		A	152085491	A	A	152085491	3	1	4	1	0	0	0	0	1	0	0	0	15725	1087	38	1	5633	1	TCHH	1	152085491	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3261	152085491	97165130	208	2174											
HRNR	388697	broad.mit.edu	37	chr1	152188001	152188001	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctggaagactgacctgagCtagctccatgttggccacag	9	8	13	11	0	0	3	0	2	0	1	1	4	1	4	3	3	2	4	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152188001C>A	uc001ezt.1	-	3	6180	c.6104G>T	c.(6103-6105)AGC>ATC	p.S2035I		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2035	22.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGACCTGAGCTAGCTCCATG	0.572													6	403					0.000157383	0.0001649	0.00308	1	0		A	152188001	A	A	152188001	3	1	4	1	0	0	0	0	1	0	0	0	7375	797	28	5	2452	5	HRNR	1	152188001	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	102510	152188001	97062620	209	2175											
FLG	2312	broad.mit.edu	37	chr1	152278792	152278792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtggaagcttcatggtgaCgcgaccctgagtgcctggag	8	8	16	9	2	1	2	1	2	0	0	1	6	1	4	2	3	2	1	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152278792C>T	uc001ezu.1	-	3	8606	c.8570G>A	c.(8569-8571)CGT>CAT	p.R2857H		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2857	Ser-rich.|Filaggrin 17.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCATGGTGACGCGACCCTGA	0.572									Ichthyosis				11	569					0	0	0.000978	0	0		T	152278792	T	T	152278792	3	4	4	1	0	0	0	0	1	0	0	0	5936	536	19	1	3619	1	FLG	1	152278792	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	90791	152278792	96971829	210	2176											
FLG2	388698	broad.mit.edu	37	chr1	152327382	152327382	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatccatgttggccaaaGccagaggattgacctgagcc	10	8	11	12	0	0	4	0	3	0	1	1	5	1	5	6	2	2	1	6	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152327382G>A	uc001ezw.3	-	3	2953	c.2880C>T	c.(2878-2880)GGC>GGT	p.G960G	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	960	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTTGGCCAAAGCCAGAGGATT	0.502													15	393					0	0	0.007413	0	0		A	152327382	A	A	152327382	2	1	4	1	0	0	0	0	0	0	0	1	5937	958	34	2		2	FLG2	1	152327382	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	48590	152327382	96923239	211	2177											
KPRP	448834	broad.mit.edu	37	chr1	152733226	152733226	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctgtccaccacggcgtCttgaccagtgtccagagtca	7	10	10	14	2	3	2	1	1	2	1	5	2	5	2	4	1	0	1	4	1	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152733226C>A	uc001fal.1	+	2	1220	c.1162C>A	c.(1162-1164)CTT>ATT	p.L388I		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	388	Pro-rich.					cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACCACGGCGTCTTGACCAGTG	0.647													4	37					0.00024832	0.000259867	0.009096	1	0		A	152733226	A	A	152733226	3	1	4	1	0	0	0	0	1	0	0	0	8452	913	32	5	1164	5	KPRP	1	152733226	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	405844	152733226	96517395	212	2178											
LCE1F	353137	broad.mit.edu	37	chr1	152748933	152748933	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtgccccacaccgaagtGccccccaaagtgtcccccta	10	5	7	19	1	0	0	0	0	0	0	1	1	1	0	8	0	2	0	8	0	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152748933G>A	uc010pdv.1	+	1	86	c.86G>A	c.(85-87)TGC>TAC	p.C29Y		NM_178354	NP_848131	Q5T754	LCE1F_HUMAN	late cornified envelope 1F	29	Pro-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			acaccgaagtgccccccaaag	0.393													7	57					0	0	0.00308	0	0		A	152748933	A	A	152748933	3	1	4	1	0	0	0	0	1	0	0	0	8680	1319	46	2	88	2	LCE1F	1	152748933	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	15707	152748933	96501688	213	2179											
SPRR4	163778	broad.mit.edu	37	chr1	152944506	152944506	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaaaccaaggatccatgtgCtccccaggtcaagaagcaat	15	6	8	12	0	1	1	1	0	0	1	3	2	3	2	4	2	3	2	4	2	6	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152944506C>A	uc001fav.1	+	2	203	c.140C>A	c.(139-141)GCT>GAT	p.A47D		NM_173080	NP_775103	Q96PI1	SPRR4_HUMAN	small proline-rich protein 4	47	Gln-rich.				keratinization|peptide cross-linking	cell cortex					0	Lung NSC(65;1.46e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GATCCATGTGCTCCCCAGGTC	0.557													12	142					2.32078e-09	2.48856e-09	0.003163	1	0		A	152944506	A	A	152944506	3	1	4	1	0	0	0	0	1	0	0	0	15129	797	28	5	142	5	SPRR4	1	152944506	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	195573	152944506	96306115	214	2180											
NUP210L	91181	broad.mit.edu	37	chr1	154125256	154125256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgaggcgtatcggttgcGtagattcagcaatgagtaca	10	11	13	7	3	1	3	1	2	0	1	2	3	1	3	0	2	4	6	0	2	4	5	rs150389273	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154125256G>A	uc001fdw.2	-	2	368	c.296C>T	c.(295-297)ACG>ATG	p.T99M	NUP210L_uc010peh.1_Missense_Mutation_p.T99M	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	99						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TATCGGTTGCGTAGATTCAGC	0.423													7	67					0	0	0.00308	0	0		A	154125256	A	A	154125256	3	1	4	1	0	0	0	0	1	0	0	0	10780	1145	40	1	5526	1	NUP210L	1	154125256	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1180750	154125256	95125365	215	2181											
TPM3	7170	broad.mit.edu	37	chr1	154145414	154145414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcagctcgttcctctgtgCgttccaagtctccttcaatg	5	14	8	14	2	4	0	2	0	2	0	8	0	6	0	3	0	2	4	3	0	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154145414C>T	uc001fec.1	-	5	651	c.536G>A	c.(535-537)CGC>CAC	p.R179H	TPM3_uc001fdx.1_5'Flank|TPM3_uc010pei.1_Missense_Mutation_p.R52H|TPM3_uc001fdy.1_Missense_Mutation_p.R142H|TPM3_uc001fdz.1_Missense_Mutation_p.R142H|TPM3_uc001fea.1_Missense_Mutation_p.R142H|TPM3_uc001feb.1_Missense_Mutation_p.R142H|TPM3_uc010pej.1_Missense_Mutation_p.R75H|TPM3_uc009wor.2_Intron|TPM3_uc001fed.1_Missense_Mutation_p.R142H	NM_152263	NP_689476	P06753	TPM3_HUMAN	tropomyosin 3 isoform 1	178	By similarity.				cellular component movement|muscle filament sliding|regulation of muscle contraction	cytosol|muscle thin filament tropomyosin|stress fiber	actin binding		TPM3/ALK(33)	haematopoietic_and_lymphoid_tissue(22)|soft_tissue(11)|skin(1)	34	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)					TTCCTCTGTGCGTTCCAAGTC	0.468			T	NTRK1|ALK	papillary thyroid|ALCL								27	126					0	0	0.00632	0	0		T	154145414	T	T	154145414	3	4	4	1	0	0	0	0	1	0	0	0	16433	768	27	1	596	1	TPM3	1	154145414	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20158	154145414	95105207	216	2182											
ATP8B2	57198	broad.mit.edu	37	chr1	154317952	154317952	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaagtttctttgctatttCttctacaaaaactttgcttt	9	20	4	8	0	3	0	0	0	3	0	3	0	3	0	0	0	5	4	0	0	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154317952C>A	uc001fex.2	+	23	2724	c.2724C>A	c.(2722-2724)TTC>TTA	p.F908L		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	894	Helical; (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TTTGCTATTTCTTCTACAAAA	0.498											OREG0013835	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	291					2.17888e-05	2.29724e-05	0.006214	1	0		A	154317952	A	A	154317952	3	1	4	1	0	0	0	0	1	0	0	0	1196	912	32	5	2944	5	ATP8B2	1	154317952	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	172538	154317952	94932669	217	2183											
TDRD10	126668	broad.mit.edu	37	chr1	154493838	154493838	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccatgcagaaagtgacActtgcaatccaggagctgaa	13	7	11	10	0	0	3	0	2	0	1	2	4	2	4	2	2	3	4	2	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154493838A>C	uc009wow.2	+	6	1090	c.252A>C	c.(250-252)ACA>ACC	p.T84T	TDRD10_uc001ffd.2_Silent_p.T84T|TDRD10_uc001ffe.2_Silent_p.T5T	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	84	RRM.						nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGAAAGTGACACTTGCAATCC	0.498													45	128					0	0	0.00361	0	0		C	154493838	C	C	154493838	2	2	4	1	0	0	0	0	0	0	0	1	15756	146	6	5		5	TDRD10	1	154493838	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	175886	154493838	94756783	218	2184											
UBE2Q1	55585	broad.mit.edu	37	chr1	154523896	154523896	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggctccaaactgcactcGtgctttccccttcaccagtg	6	12	8	15	1	1	0	1	0	0	0	4	0	3	0	4	1	3	4	4	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154523896G>A	uc001fff.1	-	11	1238	c.1147C>T	c.(1147-1149)CGA>TGA	p.R383*		NM_017582	NP_060052	Q7Z7E8	UB2Q1_HUMAN	ubiquitin-conjugating enzyme E2Q	383							ATP binding|protein binding|ubiquitin-protein ligase activity				0	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			AACTGCACTCGTGCTTTCCCC	0.582													33	79					0	0	0.007835	0	0		A	154523896	A	A	154523896	4	1	4	1	0	0	0	0	0	1	0	0	16895	1153	40	1	133	1	UBE2Q1	1	154523896	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	30058	154523896	94726725	219	2185											
ADAR	103	broad.mit.edu	37	chr1	154574691	154574691	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttccaggaactttaagaTcctttgttcctgatcttggt	7	17	7	10	0	2	2	0	1	2	1	5	3	5	3	3	2	1	1	3	2	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154574691T>A	uc001ffh.2	-	2	627	c.427A>T	c.(427-429)ATC>TTC	p.I143F	ADAR_uc001ffj.2_Missense_Mutation_p.I143F|ADAR_uc001ffi.2_Missense_Mutation_p.I143F|ADAR_uc001ffk.2_5'UTR|ADAR_uc001ffl.1_5'UTR|ADAR_uc001ffm.1_RNA|ADAR_uc001ffn.1_3'UTR	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	143	DRADA 1.				adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		AACTTTAAGATCCTTTGTTCC	0.483													17	66					0	0	0.008871	0	0		A	154574691	A	A	154574691	3	1	4	1	0	0	0	0	1	0	0	0	281	1435	50	5	3309	5	ADAR	1	154574691	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	50795	154574691	94675930	220	2186											
KCNN3	3782	broad.mit.edu	37	chr1	154698441	154698441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttatgaacgtgcttctccGctttggtgagttccagcttt	6	16	10	9	2	1	2	0	2	1	0	3	2	2	2	2	1	3	5	2	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154698441G>A	uc001ffp.2	-	5	1966	c.1652C>T	c.(1651-1653)GCG>GTG	p.A551V	KCNN3_uc001ffo.2_Missense_Mutation_p.A246V	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	556						integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			GTGCTTCTCCGCTTTGGTGAG	0.567													7	20					0	0	0.00308	0	0		A	154698441	A	A	154698441	3	1	4	1	0	0	0	0	1	0	0	0	8096	1087	38	1	559	1	KCNN3	1	154698441	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	123750	154698441	94552180	221	2187											
PBXIP1	57326	broad.mit.edu	37	chr1	154919108	154919108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggcacaccccatctgggcCccggacacagtcggcctcca	8	4	11	18	2	1	0	0	0	1	0	3	2	2	1	6	4	0	1	6	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154919108C>T	uc001ffr.2	-	10	1101	c.1042G>A	c.(1042-1044)GGC>AGC	p.G348S	PBXIP1_uc001ffs.2_Missense_Mutation_p.G319S|PBXIP1_uc010pep.1_Missense_Mutation_p.G193S	NM_020524	NP_065385	Q96AQ6	PBIP1_HUMAN	pre-B-cell leukemia homeobox interacting protein	348	Potential.				cell differentiation|multicellular organismal development|negative regulation of transcription, DNA-dependent	cytosol|microtubule|nucleus	protein binding|transcription corepressor activity			large_intestine(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CCATCTGGGCCCCGGACACAG	0.692													7	19					0	0	0.006214	0	0		T	154919108	T	T	154919108	3	4	4	1	0	0	0	0	1	0	0	0	11515	623	22	4	1161	4	PBXIP1	1	154919108	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	220667	154919108	94331513	222	2188											
SHC1	6464	broad.mit.edu	37	chr1	154938054	154938054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caccagtagcaaatgcttagGctgcccactctgcaagccag	11	7	9	14	0	1	0	0	0	1	0	1	0	1	0	3	1	5	5	3	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154938054G>A	uc001ffv.2	-	11	1809	c.1588C>T	c.(1588-1590)CCT>TCT	p.P530S	SHC1_uc001ffu.2_Intron|SHC1_uc001ffz.1_Missense_Mutation_p.P301S|SHC1_uc001ffw.2_Missense_Mutation_p.P531S|SHC1_uc001ffx.2_Missense_Mutation_p.P421S|SHC1_uc001ffy.2_Missense_Mutation_p.P420S	NM_183001	NP_892113	P29353	SHC1_HUMAN	SHC-transforming protein 1 isoform 1	530	SH2.				activation of MAPK activity|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|positive regulation of DNA replication|Ras protein signal transduction|regulation of epidermal growth factor receptor activity|regulation of growth	cytosol|mitochondrial matrix|Shc-EGFR complex	epidermal growth factor receptor binding|insulin receptor binding|insulin-like growth factor receptor binding|phospholipid binding|protein binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(1)|skin(1)	2	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			AAATGCTTAGGCTGCCCACTC	0.582													7	50					0	0	0.00308	0	0		A	154938054	A	A	154938054	3	1	4	1	0	0	0	0	1	0	0	0	14295	1203	42	2	171	2	SHC1	1	154938054	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	18946	154938054	94312567	223	2189											
DCST2	127579	broad.mit.edu	37	chr1	154999075	154999075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagggacgaaggagacaacGccgggacaaaatactgatgt	15	4	14	8	4	0	2	0	1	0	1	0	7	0	4	1	3	2	0	1	3	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154999075G>A	uc001fgm.2	-	9	1539	c.1459C>T	c.(1459-1461)CGT>TGT	p.R487C	DCST2_uc009wpb.2_RNA	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	487	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			AGGAGACAACGCCGGGACAAA	0.532													9	108					0	0	0.004482	0	0		A	154999075	A	A	154999075	3	1	4	1	0	0	0	0	1	0	0	0	4306	1087	38	1	890	1	DCST2	1	154999075	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	61021	154999075	94251546	224	2190											
DCST1	149095	broad.mit.edu	37	chr1	155014205	155014205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacagatgtggtgaaccaggCcatactcagctgccgtcgtt	9	10	11	11	2	1	2	1	1	0	1	2	2	1	2	3	2	5	2	3	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:155014205C>T	uc001fgn.1	+	8	860	c.764C>T	c.(763-765)GCC>GTC	p.A255V	DCST1_uc010per.1_Missense_Mutation_p.A280V|DCST1_uc010pes.1_Missense_Mutation_p.A230V	NM_152494	NP_689707	Q5T197	DCST1_HUMAN	DC-STAMP domain containing 1 isoform 1	255	Extracellular (Potential).					integral to membrane	zinc ion binding			ovary(1)|skin(1)	2	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			GTGAACCAGGCCATACTCAGC	0.577													26	75					0	0	0.009535	0	0		T	155014205	T	T	155014205	3	4	4	1	0	0	0	0	1	0	0	0	4305	739	26	2	790	2	DCST1	1	155014205	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	15130	155014205	94236416	225	2191											
ASH1L	55870	broad.mit.edu	37	chr1	155317653	155317653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaataggcctttcgtagacGacaaacatctctcccaactg	12	10	7	12	2	1	1	0	0	1	1	4	2	2	1	2	1	2	2	2	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:155317653G>A	uc009wqq.2	-	20	8092	c.7612C>T	c.(7612-7614)CGT>TGT	p.R2538C	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.R2533C|MIR555_hsa-mir-555|MI0003561_5'Flank	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2538					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TTTCGTAGACGACAAACATCT	0.453													6	106					0	0	0.001984	0	0		A	155317653	A	A	155317653	3	1	4	1	0	0	0	0	1	0	0	0	1042	1058	37	1	1333	1	ASH1L	1	155317653	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	303448	155317653	93932968	226	2192											
TMEM79	84283	broad.mit.edu	37	chr1	156255748	156255748	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacacactgcgctgcggggTctttgccaccttccccattg	5	11	9	16	2	1	0	0	0	1	0	2	0	2	0	4	2	4	1	4	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:156255748T>C	uc010phi.1	+	2	927	c.731T>C	c.(730-732)GTC>GCC	p.V244A	TMEM79_uc001fod.2_Missense_Mutation_p.V85A|TMEM79_uc009wrw.2_Missense_Mutation_p.V244A	NM_032323	NP_115699	Q9BSE2	TMM79_HUMAN	transmembrane protein 79	244	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1	Hepatocellular(266;0.158)					CGCTGCGGGGTCTTTGCCACC	0.607													5	106					0	0	0.001984	0	0		C	156255748	C	C	156255748	3	2	4	1	0	0	0	0	1	0	0	0	16228	1667	58	3	733	3	TMEM79	1	156255748	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	938095	156255748	92994873	227	2193											
MEF2D	4209	broad.mit.edu	37	chr1	156452240	156452240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggcccacctcgatgatgtCggcgttggtgcggctctcgt	3	11	15	12	5	1	1	0	1	1	0	4	2	1	1	2	4	1	2	2	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:156452240C>T	uc001fpc.2	-	3	637	c.247G>A	c.(247-249)GAC>AAC	p.D83N	MEF2D_uc001fpb.2_Missense_Mutation_p.D83N|MEF2D_uc001fpd.2_Missense_Mutation_p.D83N|MEF2D_uc001fpe.1_Missense_Mutation_p.D83N|MEF2D_uc009wsa.2_RNA	NM_005920	NP_005911	Q14814	MEF2D_HUMAN	myocyte enhancer factor 2D	83	Mef2-type (Potential).				apoptosis|muscle organ development|nervous system development|positive regulation of transcription from RNA polymerase II promoter	nucleus	activating transcription factor binding|histone deacetylase binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCGATGATGTCGGCGTTGGTG	0.587													14	47					0	0	0.00499	0	0		T	156452240	T	T	156452240	3	4	4	1	0	0	0	0	1	0	0	0	9476	884	31	1	1358	1	MEF2D	1	156452240	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	196492	156452240	92798381	228	2194											
SH2D2A	9047	broad.mit.edu	37	chr1	156779590	156779590	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctcagggaaagtcctgcagGctcaggagtctgctgggaaa	10	7	14	10	0	3	0	2	0	1	0	4	3	4	3	2	4	2	3	2	4	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:156779590G>C	uc001fqd.2	-	6	717	c.577C>G	c.(577-579)CCT>GCT	p.P193A	SH2D2A_uc001fqc.1_Missense_Mutation_p.P165A|SH2D2A_uc009wsh.2_Missense_Mutation_p.P203A|SH2D2A_uc001fqe.2_Missense_Mutation_p.P175A|SH2D2A_uc010phs.1_Missense_Mutation_p.P193A	NM_003975	NP_003966	Q9NP31	SH22A_HUMAN	SH2 domain protein 2A isoform 2	193	Pro-rich.				angiogenesis|cell differentiation|signal transduction	cytoplasm|soluble fraction	SH3 domain binding|SH3/SH2 adaptor activity				0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					AGTCCTGCAGGCTCAGGAGTC	0.552													4	110					0	0	0.001168	0	0		C	156779590	C	C	156779590	3	2	4	1	0	0	0	0	1	0	0	0	14257	1203	42	5	604	5	SH2D2A	1	156779590	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	327350	156779590	92471031	229	2195											
INSRR	3645	broad.mit.edu	37	chr1	156812271	156812271	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgatgaccagagttggctgGccctgagataccacacccag	11	7	11	12	0	0	4	0	3	0	2	0	5	0	4	4	2	1	2	4	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:156812271G>A	uc010pht.1	-	18	3410	c.3156C>T	c.(3154-3156)GGC>GGT	p.G1052G	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	1052	Cytoplasmic (Potential).|Protein kinase.				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GAGTTGGCTGGCCCTGAGATA	0.567													7	84					0	0	0.00308	0	0		A	156812271	A	A	156812271	2	1	4	1	0	0	0	0	0	0	0	1	7790	1190	42	2		2	INSRR	1	156812271	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	32681	156812271	92438350	230	2196											
CD1D	912	broad.mit.edu	37	chr1	158151348	158151348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctgggggagctgcagacGcacagctggagcaacgactc	9	5	16	11	2	0	1	0	0	0	1	1	4	0	3	0	4	5	6	0	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158151348G>A	uc001frr.2	+	3	664	c.165G>A	c.(163-165)ACG>ACA	p.T55T	CD1D_uc009wsr.1_Silent_p.T55T|CD1D_uc009wss.2_Silent_p.T55T|CD1D_uc009wst.1_5'UTR	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	55	Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					AGCTGCAGACGCACAGCTGGA	0.632													5	62					0	0	0.001168	0	0		A	158151348	A	A	158151348	2	1	4	1	0	0	0	0	0	0	0	1	2980	1074	38	1		1	CD1D	1	158151348	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1339077	158151348	91099273	231	2197											
CD1B	910	broad.mit.edu	37	chr1	158298045	158298046	+	Missense_Mutation	DNP	GA	AT	AT																															ctcatgggatattctgatatGacctgttaaaaacagaagaa																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158298045_158298046GA>AT	uc001frx.2	-	6	1090_1091	c.982_983TC>AT	c.(982-984)TCA>ATA	p.S328I	CD1B_uc001frw.2_Missense_Mutation_p.S166I	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	328	Cytoplasmic (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					ATTCTGATATGACCTGTTAAAA	0.267													20	30					0	0	0.004672	0	0		AT	158298046	AT	AT	158298045	3	1	4	1	0	0	0	0	1	0	0	0	2978	1294	45	4	22	4	CD1B	1	158298045	Missense_Mutation	DNP	GA	TCGA-BR-4184-01A-01D-1126-08	146697	158298045	90952576	232	2198											
OR6K2	81448	broad.mit.edu	37	chr1	158669993	158669993	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggggtgtgataaagccAcaaacacagcaacttaaagt	17	6	11	7	0	0	1	0	1	0	0	0	2	0	2	1	3	4	1	1	3	7	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158669993A>G	uc001fsu.1	-	1	450	c.450T>C	c.(448-450)TGT>TGC	p.C150C		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TGATAAAGCCACAAACACAGC	0.478													5	85					0	0	0.001168	0	0		G	158669993	G	G	158669993	2	3	4	1	0	0	0	0	0	0	0	1	11221	157	6	3		3	OR6K2	1	158669993	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	371948	158669993	90580628	233	2199											
OR6K6	128371	broad.mit.edu	37	chr1	158724726	158724726	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agacaatggtgactgagttcCtcttctctatgttcccgcat	8	14	8	11	1	2	3	0	2	2	1	5	3	4	3	2	1	0	3	2	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158724726C>A	uc001fsw.1	+	1	121	c.121C>A	c.(121-123)CTC>ATC	p.L41I		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	41	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					GACTGAGTTCCTCTTCTCTAT	0.423													12	123					2.27111e-07	2.4189e-07	0.001368	1	0		A	158724726	A	A	158724726	3	1	4	1	0	0	0	0	1	0	0	0	11223	681	24	5	123	5	OR6K6	1	158724726	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	54733	158724726	90525895	234	2200											
OR6K6	128371	broad.mit.edu	37	chr1	158725144	158725144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agttggatcctgcttttgtgGcttcctccttgtgcttcctg	2	18	10	11	0	0	0	0	0	0	0	4	1	4	1	4	2	2	4	4	2	0	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158725144G>A	uc001fsw.1	+	1	539	c.539G>A	c.(538-540)GGC>GAC	p.G180D		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	180	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					TGCTTTTGTGGCTTCCTCCTT	0.478													6	78					0	0	0.001168	0	0		A	158725144	A	A	158725144	3	1	4	1	0	0	0	0	1	0	0	0	11223	1203	42	2	541	2	OR6K6	1	158725144	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	418	158725144	90525477	235	2201											
OR6K6	128371	broad.mit.edu	37	chr1	158725344	158725344	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattgctctatcctacatcCggattattatagtgattctg	9	17	6	9	1	3	1	1	1	2	0	5	2	5	2	2	1	2	1	2	1	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158725344C>T	uc001fsw.1	+	1	739	c.739C>T	c.(739-741)CGG>TGG	p.R247W		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	247	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					ATCCTACATCCGGATTATTAT	0.478													15	67					0	0	0.004007	0	0		T	158725344	T	T	158725344	3	4	4	1	0	0	0	0	1	0	0	0	11223	643	23	1	741	1	OR6K6	1	158725344	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	200	158725344	90525277	236	2202											
OR6N1	128372	broad.mit.edu	37	chr1	158735692	158735692	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagtagctcttcttcagctGcacatacatggaaaggatgc	11	11	10	9	0	3	1	1	1	2	0	3	3	3	3	0	2	5	4	0	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158735692G>A	uc010piq.1	-	1	781	c.781C>T	c.(781-783)CAG>TAG	p.Q261*		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TTCTTCAGCTGCACATACATG	0.537													16	163					0	0	0.001882	0	0		A	158735692	A	A	158735692	4	1	4	1	0	0	0	0	0	1	0	0	11225	1328	46	2	160	2	OR6N1	1	158735692	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	10348	158735692	90514929	237	2203											
MNDA	4332	broad.mit.edu	37	chr1	158813117	158813117	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctccagtgaaaaaaataaAccaggaagaagtgggtcttg	17	7	11	6	0	1	2	0	1	1	1	2	3	2	3	2	2	2	1	2	2	7	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158813117A>G	uc001fsz.1	+	3	514	c.314A>G	c.(313-315)AAC>AGC	p.N105S		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	105					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					AAAAAAATAAACCAGGAAGAA	0.428													7	29					0	0	0.004482	0	0		G	158813117	G	G	158813117	3	3	4	1	0	0	0	0	1	0	0	0	9694	43	2	3	320	3	MNDA	1	158813117	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	77425	158813117	90437504	238	2204											
OR10J1	26476	broad.mit.edu	37	chr1	159409955	159409955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggatatgaccgctatgtggCcatctgcaaccccctgagat	9	9	11	12	1	1	2	0	2	1	1	1	4	1	3	4	2	2	2	4	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:159409955C>T	uc010piv.1	+	1	407	c.407C>T	c.(406-408)GCC>GTC	p.A136V	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	136	Cytoplasmic (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)					CGCTATGTGGCCATCTGCAAC	0.483													7	93					0	0	0.001984	0	0		T	159409955	T	T	159409955	3	4	4	1	0	0	0	0	1	0	0	0	10929	739	26	2	409	2	OR10J1	1	159409955	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	596838	159409955	89840666	239	2205											
CCDC19	25790	broad.mit.edu	37	chr1	159850438	159850438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggttttcatcattgatgCgcttaatctcagcttgcatc	7	17	7	10	1	4	1	3	1	2	0	6	1	4	1	0	1	3	4	0	1	1	5	rs138411937		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:159850438C>T	uc001fui.2	-	8	968	c.950G>A	c.(949-951)CGC>CAC	p.R317H	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.R232H|CCDC19_uc001ful.2_Missense_Mutation_p.R232H|CCDC19_uc009wtc.1_Missense_Mutation_p.R303H	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	317	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			ATCATTGATGCGCTTAATCTC	0.463													22	80					0	0	0.00278	0	0		T	159850438	T	T	159850438	3	4	4	1	0	0	0	0	1	0	0	0	2798	768	27	1	725	1	CCDC19	1	159850438	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	440483	159850438	89400183	240	2206											
IGSF9	57549	broad.mit.edu	37	chr1	159907504	159907504	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagatgcacccaggagccGttagcaaaatcgtcttcagg	11	8	11	11	2	3	1	2	0	1	1	4	2	3	2	2	2	3	3	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:159907504G>A	uc001fur.2	-	4	570	c.372C>T	c.(370-372)AAC>AAT	p.N124N	IGSF9_uc001fuq.2_Silent_p.N124N	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	124	Ig-like 1.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			CCCAGGAGCCGTTAGCAAAAT	0.592													12	50					0	0	0.004007	0	0		A	159907504	A	A	159907504	2	1	4	1	0	0	0	0	0	0	0	1	7621	1136	40	1		1	IGSF9	1	159907504	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	57066	159907504	89343117	241	2207											
KCNJ10	3766	broad.mit.edu	37	chr1	160011659	160011659	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttctccccttccttggtttGgtgggtctgaagcagttttc	3	17	11	10	0	2	1	0	1	2	0	5	1	3	1	3	3	1	4	3	3	1	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:160011659G>T	uc001fuw.1	-	2	814	c.664C>A	c.(664-666)CAA>AAA	p.Q222K		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	222	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCCTTGGTTTGGTGGGTCTGA	0.527													23	36					1.10923e-09	1.19162e-09	0.00278	1	0		T	160011659	T	T	160011659	3	4	4	1	0	0	0	0	1	0	0	0	8060	1357	47	5	479	5	KCNJ10	1	160011659	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	104155	160011659	89238962	242	2208											
IGSF8	93185	broad.mit.edu	37	chr1	160062178	160062178	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggcacagtggtacacGccttcatcctcgggccccaa	7	7	12	15	2	1	0	1	0	0	0	3	0	2	0	4	4	1	2	4	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:160062178G>A	uc001fva.2	-	5	1665	c.1620C>T	c.(1618-1620)GGC>GGT	p.G540G	IGSF8_uc001fuz.2_Silent_p.G540G|IGSF8_uc009wtf.2_Silent_p.G540G	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	540	Ig-like C2-type 4.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			AGTGGTACACGCCTTCATCCT	0.662													6	25					0	0	0.001984	0	0		A	160062178	A	A	160062178	2	1	4	1	0	0	0	0	0	0	0	1	7620	1074	38	1		1	IGSF8	1	160062178	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	50519	160062178	89188443	243	2209											
ATP1A4	480	broad.mit.edu	37	chr1	160151577	160151577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcatctccaagactcgccGcaactcacttttccagcagg	10	9	6	16	2	3	1	2	0	1	1	6	1	4	1	3	1	2	2	3	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:160151577G>A	uc001fve.3	+	19	3319	c.2840G>A	c.(2839-2841)CGC>CAC	p.R947H	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Missense_Mutation_p.R450H|ATP1A4_uc001fvh.2_Missense_Mutation_p.R83H	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	947	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AAGACTCGCCGCAACTCACTT	0.527													18	59					0	0	0.00333	0	0		A	160151577	A	A	160151577	3	1	4	1	0	0	0	0	1	0	0	0	1132	1087	38	1	2914	1	ATP1A4	1	160151577	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	89399	160151577	89099044	244	2210											
COPA	1314	broad.mit.edu	37	chr1	160261166	160261166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccgagttctagtaggcGccgagcaaaggtggcagctg	8	6	17	10	3	1	0	0	0	1	0	1	2	1	0	2	4	2	5	2	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:160261166G>A	uc009wti.2	-	31	3773	c.3379C>T	c.(3379-3381)CGC>TGC	p.R1127C	COPA_uc001fvv.3_Missense_Mutation_p.R1136C	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	1127					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCTAGTAGGCGCCGAGCAAAG	0.547											OREG0013929	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	60					0	0	0.001882	0	0		A	160261166	A	A	160261166	3	1	4	1	0	0	0	0	1	0	0	0	3730	1087	38	1	307	1	COPA	1	160261166	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	109589	160261166	88989455	245	2211											
ARHGAP30	257106	broad.mit.edu	37	chr1	161022260	161022260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccccccgtggaagtttacGcttagtctcatggccagagc	8	9	11	13	2	1	1	1	0	1	1	2	2	1	2	4	2	3	2	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161022260G>A	uc001fxl.2	-	8	1256	c.910C>T	c.(910-912)CGT>TGT	p.R304C	ARHGAP30_uc001fxk.2_Missense_Mutation_p.R304C|ARHGAP30_uc001fxm.2_Missense_Mutation_p.R150C|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_Missense_Mutation_p.R150C	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	304					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			GGAAGTTTACGCTTAGTCTCA	0.552													69	152					0	0	0.00361	0	0		A	161022260	A	A	161022260	3	1	4	1	0	0	0	0	1	0	0	0	879	1087	38	1	2415	1	ARHGAP30	1	161022260	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	761094	161022260	88228361	246	2212											
ARHGAP30	257106	broad.mit.edu	37	chr1	161039355	161039355	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcaggtgctcctgcaagtcGcacccaaaaacccgctcctt	9	8	8	16	2	0	0	0	0	0	0	3	0	2	0	4	1	4	5	4	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161039355G>A	uc001fxl.2	-	1	406	c.60C>T	c.(58-60)TGC>TGT	p.C20C	ARHGAP30_uc001fxk.2_Silent_p.C20C|ARHGAP30_uc001fxm.2_5'UTR|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_5'UTR	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	20	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			CCTGCAAGTCGCACCCAAAAA	0.637													12	42					0	0	0.00245	0	0		A	161039355	A	A	161039355	2	1	4	1	0	0	0	0	0	0	0	1	879	1079	38	1		1	ARHGAP30	1	161039355	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	17095	161039355	88211266	247	2213											
DEDD	9191	broad.mit.edu	37	chr1	161094125	161094125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagaggaaagaaagcacgCgcacatctctgtgtgtcaga	15	6	11	9	2	2	3	1	0	1	3	3	4	2	4	0	1	1	2	0	1	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161094125C>T	uc001fxz.2	-	3	301	c.128G>A	c.(127-129)CGC>CAC	p.R43H	NIT1_uc001fxw.2_3'UTR|DEDD_uc009wty.2_Missense_Mutation_p.R43H|DEDD_uc001fya.2_Missense_Mutation_p.R43H|DEDD_uc001fyb.2_Missense_Mutation_p.R43H|DEDD_uc010pkb.1_Intron|DEDD_uc001fyc.2_Intron	NM_001039712	NP_001034801	O75618	DEDD_HUMAN	death effector domain-containing protein	43	DED.				apoptosis|induction of apoptosis via death domain receptors|negative regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding				0	all_cancers(52;3.39e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			AGAAAGCACGCGCACATCTCT	0.547													6	42					0	0	0.001168	0	0		T	161094125	T	T	161094125	3	4	4	1	0	0	0	0	1	0	0	0	4387	768	27	1	844	1	DEDD	1	161094125	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	54770	161094125	88156496	248	2214											
USP21	27005	broad.mit.edu	37	chr1	161130563	161130563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagaaacccagcctctgggCcaaaccccatgttacgacct	11	6	8	16	1	1	1	0	0	1	1	1	2	1	1	6	1	4	2	6	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161130563C>T	uc010pke.1	+	3	510	c.133C>T	c.(133-135)CCA>TCA	p.P45S	USP21_uc010pkc.1_Missense_Mutation_p.P45S|USP21_uc010pkd.1_Missense_Mutation_p.P45S|USP21_uc010pkf.1_Missense_Mutation_p.P45S	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	45					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			AGCCTCTGGGCCAAACCCCAT	0.632													13	32					0	0	0.00499	0	0		T	161130563	T	T	161130563	3	4	4	1	0	0	0	0	1	0	0	0	17079	739	26	2	135	2	USP21	1	161130563	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	36438	161130563	88120058	249	2215											
NDUFS2	4720	broad.mit.edu	37	chr1	161180180	161180180	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcacttaactatggttttagGtgaggggaatacaacttctc	11	13	10	7	0	1	1	0	1	1	0	2	2	1	2	0	4	3	2	0	4	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161180180G>T	uc001fyv.2	+	9	1314	c.866_splice	c.e9+1	p.S289_splice	NDUFS2_uc010pki.1_Splice_Site_p.S191_splice|NDUFS2_uc001fyw.2_Splice_Site_p.S289_splice|NDUFS2_uc010pkj.1_Splice_Site_p.S238_splice|NDUFS2_uc001fyx.2_Splice_Site_p.S263_splice	NM_004550	NP_004541	O75306	NDUS2_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 2						mitochondrial electron transport, NADH to ubiquinone|response to oxidative stress|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity|protein binding|quinone binding			skin(1)	1	all_cancers(52;1.16e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		NADH(DB00157)	ATGGTTTTAGGTGAGGGGAAT	0.458											OREG0013941	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	101					1.58986e-06	1.6861e-06	0.008291	1	0		T	161180180	T	T	161180180	5	4	4	1	0	0	0	0	0	0	1	0	10311	1275	44	5	897	5	NDUFS2	1	161180180	Splice_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	49617	161180180	88070441	250	2216											
MPZ	4359	broad.mit.edu	37	chr1	161277190	161277190	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccctgtcggtgtaaaccAcgatggcctgggccggggac	6	7	14	14	3	0	0	0	0	0	0	2	2	1	1	5	5	1	1	5	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161277190A>G	uc001gaf.3	-	2	159	c.122T>C	c.(121-123)GTG>GCG	p.V41A	MPZ_uc010pko.1_RNA	NM_000530	NP_000521	P25189	MYP0_HUMAN	myelin protein zero	31	Ig-like V-type.|Extracellular (Potential).				synaptic transmission	integral to plasma membrane	structural molecule activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4	all_cancers(52;6.96e-17)|all_hematologic(112;0.093)	Breast(1374;0.181)	BRCA - Breast invasive adenocarcinoma(70;0.00376)			GGTGTAAACCACGATGGCCTG	0.577													9	18					0	0	0.004482	0	0		G	161277190	G	G	161277190	3	3	4	1	0	0	0	0	1	0	0	0	9766	159	6	3	674	3	MPZ	1	161277190	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	97010	161277190	87973431	251	2217											
HSPA6	3310	broad.mit.edu	37	chr1	161495324	161495324	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagactccctgttcgagggCgtggacttctacacgtccat	8	11	10	12	3	1	1	0	0	1	1	4	3	3	2	2	2	1	1	2	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161495324C>T	uc001gap.2	+	2	1536	c.876C>T	c.(874-876)GGC>GGT	p.G292G	HSPA6_uc001gaq.2_Silent_p.G292G	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	292					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			TGTTCGAGGGCGTGGACTTCT	0.657													8	19					0	0	0.00308	0	0		T	161495324	T	T	161495324	2	4	4	1	0	0	0	0	0	0	0	1	7431	755	27	1		1	HSPA6	1	161495324	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	218134	161495324	87755297	252	2218											
FCGR3A	2214	broad.mit.edu	37	chr1	161514508	161514508	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccttgagtgatggtgatgTtcacagtctctgaagacaca	11	11	10	9	0	2	5	1	4	1	1	3	5	2	5	1	1	0	1	1	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161514508T>C	uc001gat.3	-	5	697	c.560A>G	c.(559-561)AAC>AGC	p.N187S	FCGR3A_uc001gar.2_Missense_Mutation_p.N223S|FCGR3A_uc001gas.2_Missense_Mutation_p.N222S|FCGR3A_uc009wuh.2_Missense_Mutation_p.N186S|FCGR3A_uc009wui.2_Missense_Mutation_p.N187S	NM_001127595	NP_001121067	P08637	FCG3A_HUMAN	Fc fragment of IgG, low affinity IIIa, receptor	187	Extracellular (Potential).|Ig-like C2-type 2.				immune response|regulation of immune response	extracellular region|integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GATGGTGATGTTCACAGTCTC	0.502													3	26					0	0	0.004672	0	0		C	161514508	C	C	161514508	3	2	4	1	0	0	0	0	1	0	0	0	5798	1725	60	3	212	3	FCGR3A	1	161514508	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	19184	161514508	87736113	253	2219											
FCGR3B	2215	broad.mit.edu	37	chr1	161599810	161599810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctccaggaacaccacaGcctttgggagatcttctgag	10	8	12	11	0	2	2	0	1	2	1	3	5	3	3	3	3	2	1	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161599810G>A	uc009wul.2	-	3	351	c.77C>T	c.(76-78)GCT>GTT	p.A26V		NM_000570	NP_000561	O75015	FCG3B_HUMAN	low affinity immunoglobulin gamma Fc region	26					immune response	anchored to membrane|extracellular region|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GAACACCACAGCCTTTGGGAG	0.552													16	37					0	0	0.00499	0	0		A	161599810	A	A	161599810	3	1	4	1	0	0	0	0	1	0	0	0	5799	971	34	2	636	2	FCGR3B	1	161599810	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	85302	161599810	87650811	254	2220											
OLFML2B	25903	broad.mit.edu	37	chr1	161967927	161967927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttggtcccactgaggcatGgttggcgatgctgggatctg	5	12	16	8	1	1	1	0	1	1	0	2	3	2	2	1	5	1	4	1	5	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161967927G>A	uc001gbu.2	-	6	1586	c.1162C>T	c.(1162-1164)CAT>TAT	p.H388Y	OLFML2B_uc010pkq.1_Missense_Mutation_p.H389Y	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	388										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			ACTGAGGCATGGTTGGCGATG	0.607													29	65					0	0	0.00632	0	0		A	161967927	A	A	161967927	3	1	4	1	0	0	0	0	1	0	0	0	10877	1348	47	4	1102	4	OLFML2B	1	161967927	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	368117	161967927	87282694	255	2221											
UHMK1	127933	broad.mit.edu	37	chr1	162473601	162473601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaaagcagtggtgaatgccGcaattccagcctatcaccta	12	9	9	11	1	1	1	1	1	0	0	2	1	2	1	4	1	3	3	4	1	6	4	rs150990527		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:162473601G>A	uc001gcc.1	+	4	947	c.811G>A	c.(811-813)GCA>ACA	p.A271T	UHMK1_uc001gcb.1_Missense_Mutation_p.A197T|UHMK1_uc009wuu.1_Missense_Mutation_p.A271T	NM_175866	NP_787062	Q8TAS1	UHMK1_HUMAN	kinase interacting stathmin	271	Protein kinase.				cell cycle arrest|neuron projection development|peptidyl-serine phosphorylation|positive regulation of translational initiation|protein autophosphorylation|regulation of protein export from nucleus	axon|dendrite cytoplasm|neuronal RNA granule|nucleus	protein binding|protein serine/threonine kinase activity|ribonucleoprotein binding|RNA binding				0	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			GGTGAATGCCGCAATTCCAGC	0.373													15	32					0	0	0.006122	0	0		A	162473601	A	A	162473601	3	1	4	1	0	0	0	0	1	0	0	0	16992	1087	38	1	875	1	UHMK1	1	162473601	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	505674	162473601	86777020	256	2222											
PBX1	5087	broad.mit.edu	37	chr1	164769123	164769123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgttcccgatttctggatgCgcggtgagtctcccatgggg	4	11	15	11	4	2	1	0	1	2	0	4	3	3	2	2	4	1	1	2	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:164769123C>T	uc001gct.2	+	4	956	c.698C>T	c.(697-699)GCG>GTG	p.A233V	PBX1_uc010pku.1_Missense_Mutation_p.A233V|PBX1_uc010pkv.1_Missense_Mutation_p.A150V|PBX1_uc001gcs.2_Missense_Mutation_p.A233V|PBX1_uc010pkw.1_Missense_Mutation_p.A123V	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	233	Homeobox; TALE-type.				negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						TTTCTGGATGCGCGGTGAGTC	0.612			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								4	16					0	0	0.009096	0	0		T	164769123	T	T	164769123	3	4	4	1	0	0	0	0	1	0	0	0	11511	768	27	1	712	1	PBX1	1	164769123	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2295522	164769123	84481498	257	2223											
LMX1A	4009	broad.mit.edu	37	chr1	165322399	165322399	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcaggaggcgcactgcacGcactgctcatgccagaagct	9	7	12	13	2	1	1	1	0	0	1	1	2	1	2	1	2	5	6	1	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:165322399G>A	uc001gcy.1	-	2	398	c.177C>T	c.(175-177)TGC>TGT	p.C59C	LMX1A_uc001gcz.1_Silent_p.C59C	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	59	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					CGCACTGCACGCACTGCTCAT	0.592													9	23					0	0	0.008291	0	0		A	165322399	A	A	165322399	2	1	4	1	0	0	0	0	0	0	0	1	8878	1079	38	1		1	LMX1A	1	165322399	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	553276	165322399	83928222	258	2224											
DUSP27	92235	broad.mit.edu	37	chr1	167096298	167096298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggaggagagccagtctatgGcaagctgggaggcggacagc	10	5	18	8	1	1	1	0	0	1	1	1	5	1	4	1	6	3	2	1	6	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:167096298G>A	uc001geb.1	+	5	1930	c.1930G>A	c.(1930-1932)GCA>ACA	p.A644T		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	644					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						CCAGTCTATGGCAAGCTGGGA	0.642													3	7					0	0	0.004672	0	0		A	167096298	A	A	167096298	3	1	4	1	0	0	0	0	1	0	0	0	4830	1203	42	2	1948	2	DUSP27	1	167096298	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1773899	167096298	82154323	259	2225											
CD247	919	broad.mit.edu	37	chr1	167400950	167400950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcctgcatgtgaagggCgtcgtaggtgtccttggtgg	5	10	18	8	2	0	1	0	1	0	0	2	1	1	1	2	5	1	2	2	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:167400950C>T	uc001gei.3	-	8	608	c.463G>A	c.(463-465)GCC>ACC	p.A155T	CD247_uc001gej.3_Missense_Mutation_p.A154T	NM_198053	NP_932170	P20963	CD3Z_HUMAN	T-cell receptor zeta chain isoform 1 precursor	155	ITAM 3.|Cytoplasmic (Potential).				interspecies interaction between organisms|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytoplasm|integral to membrane	protein homodimerization activity|transmembrane receptor activity				0			LUSC - Lung squamous cell carcinoma(543;0.236)			ATGTGAAGGGCGTCGTAGGTG	0.567													19	53					0	0	0.001882	0	0		T	167400950	T	T	167400950	3	4	4	1	0	0	0	0	1	0	0	0	2991	768	27	1	35	1	CD247	1	167400950	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	304652	167400950	81849671	260	2226											
GPR161	23432	broad.mit.edu	37	chr1	168065850	168065850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatgcccagtagttctttgCgaactgtcttgttccagagt	8	14	9	10	1	2	1	0	0	2	1	3	2	3	1	2	0	3	3	2	0	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:168065850C>T	uc001gfc.2	-	5	1309	c.995G>A	c.(994-996)CGC>CAC	p.R332H	GPR161_uc001gfb.2_Missense_Mutation_p.R200H|GPR161_uc010pll.1_Missense_Mutation_p.R242H|GPR161_uc010plm.1_Missense_Mutation_p.R218H|GPR161_uc009wvo.2_Missense_Mutation_p.R349H|GPR161_uc001gfd.2_Missense_Mutation_p.R332H|GPR161_uc010pln.1_Missense_Mutation_p.R352H|GPR161_uc001gfe.1_Missense_Mutation_p.R332H	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2	332	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)					TAGTTCTTTGCGAACTGTCTT	0.552													7	50					0	0	0.006214	0	0		T	168065850	T	T	168065850	3	4	4	1	0	0	0	0	1	0	0	0	6680	768	27	1	610	1	GPR161	1	168065850	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	664900	168065850	81184771	261	2227											
SELL	6402	broad.mit.edu	37	chr1	169672454	169672454	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcacaaatggttttcttCttcccaattaactcagttcc	10	16	4	11	0	4	0	2	0	2	0	6	1	6	0	2	1	1	2	2	1	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:169672454C>A	uc001ggk.2	-	6	1092	c.894G>T	c.(892-894)AAG>AAT	p.K298N	C1orf112_uc001ggj.2_Intron|SELL_uc010pls.1_Missense_Mutation_p.K251N|SELL_uc001ggl.1_Missense_Mutation_p.K311N	NM_000655	NP_000646	P14151	LYAM1_HUMAN	selectin L precursor	298	Extracellular (Potential).|Sushi 2.				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	integral to plasma membrane	glycosphingolipid binding|heparin binding|protease binding|sugar binding				0	all_hematologic(923;0.208)					TGGTTTTCTTCTTCCCAATTA	0.423													4	56					0.00909568	0.0094242	0.009096	1	0		A	169672454	A	A	169672454	3	1	4	1	0	0	0	0	1	0	0	0	14041	912	32	5	240	5	SELL	1	169672454	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1606604	169672454	79578167	262	2228											
SELE	6401	broad.mit.edu	37	chr1	169697058	169697058	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggctggtggacagcatcGcatctcacagctggaacaca	10	6	14	11	1	1	0	1	0	1	0	3	2	1	2	0	5	3	4	0	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:169697058G>A	uc001ggm.3	-	9	1447	c.1290C>T	c.(1288-1290)TGC>TGT	p.C430C	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	430	Extracellular (Potential).|Sushi 5.				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					GGACAGCATCGCATCTCACAG	0.502													6	71					0	0	0.004482	0	0		A	169697058	A	A	169697058	2	1	4	1	0	0	0	0	0	0	0	1	14038	1079	38	1		1	SELE	1	169697058	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	24604	169697058	79553563	263	2229											
SCYL3	57147	broad.mit.edu	37	chr1	169823904	169823904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatccaaggtagtgcacTgggacttgacatcatcacaa	13	8	8	12	0	2	1	2	1	0	0	3	2	3	2	2	2	1	2	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:169823904T>C	uc001ggs.2	-	13	1874	c.1676A>G	c.(1675-1677)CAG>CGG	p.Q559R	SCYL3_uc010plw.1_Missense_Mutation_p.Q151R|SCYL3_uc001ggt.2_Missense_Mutation_p.Q505R|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	559	Interaction with EZR.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GGTAGTGCACTGGGACTTGAC	0.478													5	142					0	0	0.001168	0	0		C	169823904	C	C	169823904	3	2	4	1	0	0	0	0	1	0	0	0	13974	1580	55	3	560	3	SCYL3	1	169823904	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	126846	169823904	79426717	264	2230											
FMO2	2327	broad.mit.edu	37	chr1	171178010	171178010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcgccttagagataggtgCgaagccagatttctgctctc	8	11	11	11	2	2	2	0	0	2	2	4	4	2	2	2	1	3	2	2	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:171178010C>T	uc001ghk.1	+	9	1451	c.1334C>T	c.(1333-1335)GCG>GTG	p.A445V	FMO2_uc010pmd.1_Missense_Mutation_p.A225V	NM_001460	NP_001451	Q99518	FMO2_HUMAN	flavin containing monooxygenase 2	445					drug metabolic process|NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|host cell microsome|integral to membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GAGATAGGTGCGAAGCCAGAT	0.473													24	215					0	0	0.005443	0	0		T	171178010	T	T	171178010	3	4	4	1	0	0	0	0	1	0	0	0	5969	768	27	1	1364	1	FMO2	1	171178010	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1354106	171178010	78072611	265	2231											
FMO1	2326	broad.mit.edu	37	chr1	171252297	171252297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctacaggtgtaaataagttaCcaccaccaagtgtcatgata	15	10	7	9	0	1	1	1	1	0	0	1	1	1	1	3	1	2	2	3	1	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:171252297C>T	uc009wvz.2	+	8	1334	c.1198C>T	c.(1198-1200)CCA>TCA	p.P400S	FMO1_uc010pme.1_Missense_Mutation_p.P337S|FMO1_uc001ghl.2_Missense_Mutation_p.P400S|FMO1_uc001ghm.2_Missense_Mutation_p.P400S|FMO1_uc001ghn.2_Intron	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	400					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AAATAAGTTACCACCACCAAG	0.338													12	158					0	0	0.001368	0	0		T	171252297	T	T	171252297	3	4	4	1	0	0	0	0	1	0	0	0	5968	507	18	4	1224	4	FMO1	1	171252297	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	74287	171252297	77998324	266	2232											
BAT2L2	23215	broad.mit.edu	37	chr1	171509407	171509407	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccatggatctaaccatacGcaaaaaccagacgagcagag	16	5	8	12	2	1	2	0	0	1	2	2	4	2	3	3	1	4	2	3	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:171509407G>A	uc010pmg.1	+	16	3062	c.2796G>A	c.(2794-2796)ACG>ACA	p.T932T	BAT2L2_uc010pmh.1_5'UTR	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	932							protein C-terminus binding				0						CTAACCATACGCAAAAACCAG	0.458													5	71					0	0	0.001984	0	0		A	171509407	A	A	171509407	2	1	4	1	0	0	0	0	0	0	0	1	1322	1074	38	1		1	BAT2L2	1	171509407	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	257110	171509407	77741214	267	2233											
C1orf9	51430	broad.mit.edu	37	chr1	172558919	172558919	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttatgctgaattgcaaaAttctacagatctaggatatg	13	16	7	5	0	2	2	0	1	2	1	2	3	2	3	0	1	3	2	0	1	7	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:172558919A>T	uc001giq.3	+	18	2994	c.2678A>T	c.(2677-2679)AAT>ATT	p.N893I	C1orf9_uc010pmm.1_Missense_Mutation_p.N893I|C1orf9_uc009wwd.2_Missense_Mutation_p.N849I|C1orf9_uc010pmn.1_Intron|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	893					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		GAATTGCAAAATTCTACAGAT	0.353													4	159					0	0	0.000602	0	0		T	172558919	T	T	172558919	3	4	4	1	0	0	0	0	1	0	0	0	2070	101	4	5	2748	5	C1orf9	1	172558919	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1049512	172558919	76691702	268	2234											
TNFSF18	8995	broad.mit.edu	37	chr1	173019955	173019955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataactattgagcaaaagaGccacagcttccaggatgatc	15	8	8	10	0	0	3	0	2	0	1	2	4	1	4	2	1	4	2	2	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:173019955G>A	uc001giu.2	-	1	149	c.148C>T	c.(148-150)CTC>TTC	p.L50F		NM_005092	NP_005083	Q9UNG2	TNF18_HUMAN	tumor necrosis factor (ligand) superfamily,	50	Cytoplasmic (Potential).				anti-apoptosis|cell-cell signaling|immune response|signal transduction	extracellular space|integral to membrane	cytokine activity|tumor necrosis factor receptor binding			central_nervous_system(1)	1						GAGCAAAAGAGCCACAGCTTC	0.393													16	41					0	0	0.006122	0	0		A	173019955	A	A	173019955	3	1	4	1	0	0	0	0	1	0	0	0	16334	971	34	2	463	2	TNFSF18	1	173019955	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	461036	173019955	76230666	269	2235											
SLC9A11	284525	broad.mit.edu	37	chr1	173526586	173526586	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgattacaactccccatcGccaattatattcataatttg	12	14	4	11	2	1	1	1	1	0	0	3	1	2	1	3	0	2	0	3	0	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:173526586G>A	uc001giz.2	-	10	1531	c.1108C>T	c.(1108-1110)CGA>TGA	p.R370*	SLC9A11_uc009wwe.2_5'UTR|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	370					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						ACTCCCCATCGCCAATTATAT	0.368													7	165					0	0	0.004482	0	0		A	173526586	A	A	173526586	4	1	4	1	0	0	0	0	0	1	0	0	14736	1095	38	1	2342	1	SLC9A11	1	173526586	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	506631	173526586	75724035	270	2236											
GPR52	9293	broad.mit.edu	37	chr1	174417499	174417499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctatttcattcagacgatgGcatatgctgatcttttcgtt	8	17	8	8	2	3	2	2	1	1	1	4	3	3	2	0	1	1	4	0	1	2	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:174417499G>A	uc001gka.1	+	1	288	c.250G>A	c.(250-252)GCA>ACA	p.A84T	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	84	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						TCAGACGATGGCATATGCTGA	0.423													40	151					0	0	0.00361	0	0		A	174417499	A	A	174417499	3	1	4	1	0	0	0	0	1	0	0	0	6713	1203	42	2	252	2	GPR52	1	174417499	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	890913	174417499	74833122	271	2237											
GPR52	9293	broad.mit.edu	37	chr1	174417942	174417942	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacattttcaaaatttgccgTcagcacaccaaagagataaa	17	9	5	10	1	2	1	2	0	0	1	2	2	2	1	2	0	2	1	2	0	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:174417942T>A	uc001gka.1	+	1	731	c.693T>A	c.(691-693)CGT>CGA	p.R231R	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron|uc010pmu.1_RNA	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	231	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						AAATTTGCCGTCAGCACACCA	0.458													6	130					0	0	0.001168	0	0		A	174417942	A	A	174417942	2	1	4	1	0	0	0	0	0	0	0	1	6713	1654	58	5		5	GPR52	1	174417942	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	443	174417942	74832679	272	2238											
MRPS14	63931	broad.mit.edu	37	chr1	174987651	174987651	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcgtctcttcacatcgCgccacattctccagtctaca	7	15	4	15	3	4	0	1	0	3	0	8	0	4	0	2	0	1	0	2	0	1	5	rs147012061		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:174987651C>T	uc001gkk.2	-	2	124	c.107G>A	c.(106-108)CGC>CAC	p.R36H	MRPS14_uc009wwr.2_Missense_Mutation_p.R21H	NM_022100	NP_071383	O60783	RT14_HUMAN	mitochondrial ribosomal protein S14	36					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0						CTTCACATCGCGCCACATTCT	0.438													15	80					0	0	0.00245	0	0		T	174987651	T	T	174987651	3	4	4	1	0	0	0	0	1	0	0	0	9842	768	27	1	287	1	MRPS14	1	174987651	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	569709	174987651	74262970	273	2239											
TNN	63923	broad.mit.edu	37	chr1	175046767	175046767	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcagtgacgatggggcttcGctcttggccctgggggaggc	4	9	17	11	2	2	1	1	1	1	0	3	3	2	2	1	6	0	2	1	6	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:175046767G>A	uc001gkl.1	+	2	326	c.213G>A	c.(211-213)TCG>TCA	p.S71S	TNN_uc010pmx.1_Silent_p.S71S	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	71					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		ATGGGGCTTCGCTCTTGGCCC	0.587													4	17					0	0	0.009096	0	0		A	175046767	A	A	175046767	2	1	4	1	0	0	0	0	0	0	0	1	16348	1074	38	1		1	TNN	1	175046767	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	59116	175046767	74203854	274	2240											
ASTN1	460	broad.mit.edu	37	chr1	176833575	176833575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacttgagtgagctgcgccGcaagcttatcttgggttcct	6	13	12	10	2	1	2	0	2	1	0	2	2	2	2	2	1	4	5	2	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:176833575G>A	uc001glc.2	-	23	3942	c.3730C>T	c.(3730-3732)CGG>TGG	p.R1244W	ASTN1_uc001glb.1_Intron	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	1252					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GAGCTGCGCCGCAAGCTTATC	0.567													19	40					0	0	0.008871	0	0		A	176833575	A	A	176833575	3	1	4	1	0	0	0	0	1	0	0	0	1065	1086	38	1	158	1	ASTN1	1	176833575	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1786808	176833575	72417046	275	2241											
RALGPS2	55103	broad.mit.edu	37	chr1	178855202	178855202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagcgtcatggagccccatgCgccatctcgaggccaagctg	8	7	12	14	3	2	0	1	0	1	0	3	2	2	1	4	2	4	1	4	2	2	1	rs149978883		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:178855202C>T	uc001glz.2	+	13	1477	c.1139C>T	c.(1138-1140)GCG>GTG	p.A380V	RALGPS2_uc010pnb.1_Missense_Mutation_p.A380V	NM_152663	NP_689876	Q86X27	RGPS2_HUMAN	Ral GEF with PH domain and SH3 binding motif 2	380					small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0						GAGCCCCATGCGCCATCTCGA	0.393													28	63					0	0	0.009535	0	0		T	178855202	T	T	178855202	3	4	4	1	0	0	0	0	1	0	0	0	13043	768	27	1	1185	1	RALGPS2	1	178855202	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2021627	178855202	70395419	276	2242											
ABL2	27	broad.mit.edu	37	chr1	179077318	179077318	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccactgatgggcactgcGcccagagctgccttctttcc	5	11	9	16	1	1	2	0	1	1	1	3	2	3	2	4	1	3	2	4	1	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:179077318G>A	uc001gmj.3	-	12	3371	c.3084C>T	c.(3082-3084)GGC>GGT	p.G1028G	ABL2_uc010pnf.1_Silent_p.G925G|ABL2_uc010png.1_Silent_p.G904G|ABL2_uc010pnh.1_Silent_p.G1007G|ABL2_uc001gmg.3_Silent_p.G910G|ABL2_uc001gmi.3_Silent_p.G1013G|ABL2_uc001gmh.3_Silent_p.G992G|ABL2_uc010pne.1_Silent_p.G889G	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	1028	Pro-rich.|F-actin-binding (By similarity).				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	TGGGCACTGCGCCCAGAGCTG	0.567			T	ETV6	AML								18	49					0	0	0.006122	0	0		A	179077318	A	A	179077318	2	1	4	1	0	0	0	0	0	0	0	1	93	1074	38	1		1	ABL2	1	179077318	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	222116	179077318	70173303	277	2243											
ABL2	27	broad.mit.edu	37	chr1	179078138	179078138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagtgtctttttgattaagCgtggtgtaaagaagcctgtg	9	14	12	6	1	1	2	0	1	1	1	1	2	1	2	2	1	2	1	2	1	4	4	rs147435995		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:179078138C>T	uc001gmj.3	-	12	2551	c.2264G>A	c.(2263-2265)CGC>CAC	p.R755H	ABL2_uc010pnf.1_Intron|ABL2_uc010png.1_Intron|ABL2_uc010pnh.1_Missense_Mutation_p.R734H|ABL2_uc001gmg.3_Intron|ABL2_uc001gmi.3_Missense_Mutation_p.R740H|ABL2_uc001gmh.3_Missense_Mutation_p.R719H|ABL2_uc010pne.1_Intron	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	755	F-actin-binding (By similarity).				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	TTTGATTAAGCGTGGTGTAAA	0.532			T	ETV6	AML								16	59					0	0	0.004007	0	0		T	179078138	T	T	179078138	3	4	4	1	0	0	0	0	1	0	0	0	93	768	27	1	1288	1	ABL2	1	179078138	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	820	179078138	70172483	278	2244											
C1orf125	126859	broad.mit.edu	37	chr1	179414261	179414261	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggggagatgccatcagagCgacagtacatggaggaaatt	14	6	15	6	1	1	2	1	0	0	2	1	6	1	4	1	4	3	1	1	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:179414261C>T	uc001gmo.2	+	16	1847	c.1720C>T	c.(1720-1722)CGA>TGA	p.R574*	C1orf125_uc009wxg.2_Intron|C1orf125_uc001gmn.1_Nonsense_Mutation_p.R362*|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Nonsense_Mutation_p.R574*	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	574	Potential.										0						GCCATCAGAGCGACAGTACAT	0.338													7	74					0	0	0.001984	0	0		T	179414261	T	T	179414261	4	4	4	1	0	0	0	0	0	1	0	0	1996	760	27	1	1778	1	C1orf125	1	179414261	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	336123	179414261	69836360	279	2245											
TDRD5	163589	broad.mit.edu	37	chr1	179620046	179620046	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcagttccagaagttgtgCggtttgaagccattagtggg	8	13	14	6	1	0	2	0	1	0	1	1	2	1	2	2	2	3	4	2	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:179620046C>T	uc001gnf.1	+	12	2095	c.1845C>T	c.(1843-1845)TGC>TGT	p.C615C	TDRD5_uc010pnp.1_Silent_p.C615C|TDRD5_uc001gnh.1_Silent_p.C170C	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	615					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						AGAAGTTGTGCGGTTTGAAGC	0.368													24	89					0	0	0.00632	0	0		T	179620046	T	T	179620046	2	4	4	1	0	0	0	0	0	0	0	1	15758	776	27	1		1	TDRD5	1	179620046	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	205785	179620046	69630575	280	2246											
CEP350	9857	broad.mit.edu	37	chr1	180010286	180010286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaggcacaacagcaacGccatgaaagagacttggccc	14	6	10	11	1	0	3	0	2	0	1	0	4	0	3	2	2	3	2	2	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:180010286G>A	uc001gnt.2	+	18	4507	c.4124G>A	c.(4123-4125)CGC>CAC	p.R1375H	CEP350_uc009wxl.2_Missense_Mutation_p.R1374H	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1375	Potential.					centrosome|nucleus|spindle				ovary(4)	4						CAACAGCAACGCCATGAAAGA	0.393													11	30					0	0	0.001368	0	0		A	180010286	A	A	180010286	3	1	4	1	0	0	0	0	1	0	0	0	3257	1087	38	1	4190	1	CEP350	1	180010286	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	390240	180010286	69240335	281	2247											
XPR1	9213	broad.mit.edu	37	chr1	180780557	180780557	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccacagcctgcaccagcatgGactacttttagagttggcct	9	10	9	13	0	0	1	0	0	0	1	0	2	0	2	4	2	4	3	4	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:180780557G>T	uc001goi.2	+	7	888	c.696G>T	c.(694-696)TGG>TGT	p.W232C	XPR1_uc009wxm.2_Missense_Mutation_p.W232C|XPR1_uc009wxn.2_Missense_Mutation_p.W232C	NM_004736	NP_004727	Q9UBH6	XPR1_HUMAN	xenotropic and polytropic retrovirus receptor	232	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0						CACCAGCATGGACTACTTTTA	0.328													14	28					1.15088e-07	1.22702e-07	0.004007	1	0		T	180780557	T	T	180780557	3	4	4	1	0	0	0	0	1	0	0	0	17477	1183	41	5	722	5	XPR1	1	180780557	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	770271	180780557	68470064	282	2248											
XPR1	9213	broad.mit.edu	37	chr1	180849411	180849411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaccagagcatatccctgCgccggcctcgcctcgcttct	7	8	8	18	4	1	1	0	0	1	1	4	1	2	1	5	1	3	2	5	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:180849411C>T	uc001goi.2	+	14	2200	c.2008C>T	c.(2008-2010)CGC>TGC	p.R670C	XPR1_uc009wxn.2_Missense_Mutation_p.R605C	NM_004736	NP_004727	Q9UBH6	XPR1_HUMAN	xenotropic and polytropic retrovirus receptor	670	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0						CATATCCCTGCGCCGGCCTCG	0.473													19	56					0	0	0.010504	0	0		T	180849411	T	T	180849411	3	4	4	1	0	0	0	0	1	0	0	0	17477	768	27	1	2062	1	XPR1	1	180849411	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	68854	180849411	68401210	283	2249											
STX6	10228	broad.mit.edu	37	chr1	180974435	180974435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacagaaaaggatattgatgGtttcatcaaggtcctctaga	14	11	9	7	0	3	3	2	1	1	2	4	4	4	4	1	3	0	1	1	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:180974435G>A	uc010pnq.1	-	2	437	c.200C>T	c.(199-201)ACC>ATC	p.T67I	STX6_uc001goo.2_Missense_Mutation_p.T67I|STX6_uc010pnr.1_Intron	NM_005819	NP_005810	O43752	STX6_HUMAN	syntaxin 6	67	Potential.|Cytoplasmic (Potential).				Golgi vesicle transport|intracellular protein transport|vesicle fusion	clathrin-coated vesicle|early endosome|integral to membrane|perinuclear region of cytoplasm|plasma membrane|trans-Golgi network membrane	SNAP receptor activity			ovary(1)	1						GATATTGATGGTTTCATCAAG	0.438													10	126					0	0	0.008291	0	0		A	180974435	A	A	180974435	3	1	4	1	0	0	0	0	1	0	0	0	15374	1261	44	4	595	4	STX6	1	180974435	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	125024	180974435	68276186	284	2250											
CACNA1E	777	broad.mit.edu	37	chr1	181706782	181706782	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtcctgaccaactcggagCgcaacaaagtgggtacacag	12	5	11	13	3	0	1	0	1	0	0	2	2	1	2	3	2	4	2	3	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:181706782C>T	uc001gow.2	+	23	3709	c.3544C>T	c.(3544-3546)CGC>TGC	p.R1182C	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1070C|CACNA1E_uc001gox.1_Missense_Mutation_p.R408C|CACNA1E_uc009wxt.2_Missense_Mutation_p.R408C	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1182	Extracellular (Potential).|III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CAACTCGGAGCGCAACAAAGT	0.597													11	50					0	0	0.001368	0	0		T	181706782	T	T	181706782	3	4	4	1	0	0	0	0	1	0	0	0	2545	768	27	1	3634	1	CACNA1E	1	181706782	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	732347	181706782	67543839	285	2251											
CACNA1E	777	broad.mit.edu	37	chr1	181732597	181732597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctcttccgagctgcccGcctcataaagctcctgcgtc	7	9	9	16	3	2	0	1	0	1	0	5	2	4	0	4	0	5	3	4	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:181732597G>A	uc001gow.2	+	34	4910	c.4745G>A	c.(4744-4746)CGC>CAC	p.R1582H	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1470H|CACNA1E_uc001gox.1_Missense_Mutation_p.R808H|CACNA1E_uc009wxt.2_Missense_Mutation_p.R808H	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1582	Helical; Name=S4 of repeat IV.|IV.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CGAGCTGCCCGCCTCATAAAG	0.473													17	41					0	0	0.00499	0	0		A	181732597	A	A	181732597	3	1	4	1	0	0	0	0	1	0	0	0	2545	1087	38	1	4879	1	CACNA1E	1	181732597	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	25815	181732597	67518024	286	2252											
RNASEL	6041	broad.mit.edu	37	chr1	182550411	182550411	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttcagaaggcccaggttgCagtagtctgaggatctcact	9	11	12	9	0	3	2	2	1	2	1	4	3	3	3	1	3	1	4	1	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:182550411C>T	uc001gpj.1	-	4	2021	c.1854G>A	c.(1852-1854)CTG>CTA	p.L618L	RNASEL_uc009wxz.1_Silent_p.L618L|RNASEL_uc001gpk.2_Silent_p.L618L	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	618	KEN.				mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						GCCCAGGTTGCAGTAGTCTGA	0.423									Hereditary_Prostate_Cancer				43	128					0	0	0.002522	0	0		T	182550411	T	T	182550411	2	4	4	1	0	0	0	0	0	0	0	1	13441	697	25	2		2	RNASEL	1	182550411	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	817814	182550411	66700210	287	2253											
C1orf14	81626	broad.mit.edu	37	chr1	182872293	182872293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggatacagttcaacaccagCaccctgtaaattaaaagcaa	18	7	6	10	0	1	0	1	0	0	0	1	1	1	1	2	1	4	4	2	1	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:182872293C>T	uc001gpu.2	-	9	1876	c.1591G>A	c.(1591-1593)GCT>ACT	p.A531T	C1orf14_uc001gpv.2_Missense_Mutation_p.A412T|C1orf14_uc010pnz.1_Missense_Mutation_p.A389T|C1orf14_uc001gpw.2_Missense_Mutation_p.A251T	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	603	PbH1 2.										0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		TCAACACCAGCACCCTGTAAA	0.328													28	88					0	0	0.009535	0	0		T	182872293	T	T	182872293	3	4	4	1	0	0	0	0	1	0	0	0	2003	710	25	2	378	2	C1orf14	1	182872293	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	321882	182872293	66378328	288	2254											
C1orf14	81626	broad.mit.edu	37	chr1	182873320	182873320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagaatgaaatacctgggCgccagttatttcactgtctg	12	12	9	8	1	2	2	1	1	1	1	2	2	2	2	2	1	1	1	2	1	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:182873320C>T	uc001gpu.2	-	8	1867	c.1582G>A	c.(1582-1584)GCC>ACC	p.A528T	C1orf14_uc001gpv.2_Missense_Mutation_p.A409T|C1orf14_uc010pnz.1_Missense_Mutation_p.A386T|C1orf14_uc001gpw.2_Missense_Mutation_p.A248T	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	600	PbH1 2.										0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		AATACCTGGGCGCCAGTTATT	0.363													8	83					0	0	0.00308	0	0		T	182873320	T	T	182873320	3	4	4	1	0	0	0	0	1	0	0	0	2003	768	27	1	391	1	C1orf14	1	182873320	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1027	182873320	66377301	289	2255											
LAMC1	3915	broad.mit.edu	37	chr1	183105532	183105532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttcagattttgataggCgtgtgaacgataacaagacg	12	13	11	5	3	1	4	1	2	0	2	1	5	1	4	0	1	2	1	0	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:183105532C>T	uc001gpy.3	+	25	4383	c.4126C>T	c.(4126-4128)CGT>TGT	p.R1376C		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	1376	Potential.|Domain II and I.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTTTGATAGGCGTGTGAACGA	0.453													8	29					0	0	0.008291	0	0		T	183105532	T	T	183105532	3	4	4	1	0	0	0	0	1	0	0	0	8630	768	27	1	4224	1	LAMC1	1	183105532	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	232212	183105532	66145089	290	2256											
EDEM3	80267	broad.mit.edu	37	chr1	184671996	184671996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctacctcctcatattcccGgatggcatccagtatgatac	9	13	6	13	1	2	1	1	1	1	0	5	2	5	2	4	2	2	2	4	2	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:184671996G>A	uc010pok.1	-	19	2599	c.2338C>T	c.(2338-2340)CGG>TGG	p.R780W	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.R780W	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	780					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						TCATATTCCCGGATGGCATCC	0.393													15	51					0	0	0.004007	0	0		A	184671996	A	A	184671996	3	1	4	1	0	0	0	0	1	0	0	0	4919	1115	39	1	468	1	EDEM3	1	184671996	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1566464	184671996	64578625	291	2257											
EDEM3	80267	broad.mit.edu	37	chr1	184692925	184692925	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgaatatttatagtcacGcccactaaattactacttcg	13	14	5	9	2	1	1	1	1	0	0	2	1	1	1	1	0	2	1	1	0	9	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:184692925G>A	uc010pok.1	-	8	1074	c.813C>T	c.(811-813)GGC>GGT	p.G271G	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Silent_p.G271G|EDEM3_uc001gqy.2_Silent_p.G194G	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	271					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						TTATAGTCACGCCCACTAAAT	0.318													31	90					0	0	0.00623	0	0		A	184692925	A	A	184692925	2	1	4	1	0	0	0	0	0	0	0	1	4919	1074	38	1		1	EDEM3	1	184692925	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	20929	184692925	64557696	292	2258											
FAM129A	116496	broad.mit.edu	37	chr1	184764913	184764913	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaggattcaccacggggTcatccactcttgaaataatc	12	9	7	13	1	3	1	2	1	1	0	5	2	4	2	3	3	0	0	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:184764913T>C	uc001gra.2	-	14	2179	c.1985A>G	c.(1984-1986)GAC>GGC	p.D662G	FAM129A_uc001grb.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	662					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						CACCACGGGGTCATCCACTCT	0.572													11	36					0	0	0.001368	0	0		C	184764913	C	C	184764913	3	2	4	1	0	0	0	0	1	0	0	0	5447	1667	58	3	805	3	FAM129A	1	184764913	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	71988	184764913	64485708	293	2259											
FAM129A	116496	broad.mit.edu	37	chr1	184777283	184777283	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcggctcttgagatcctgCaggcgctcgtgaagcaggtt	8	9	14	10	3	1	2	0	2	1	1	3	3	2	2	1	3	3	5	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:184777283C>T	uc001gra.2	-	10	1454	c.1260G>A	c.(1258-1260)CTG>CTA	p.L420L	FAM129A_uc001grb.1_Silent_p.L183L|FAM129A_uc009wyh.1_Silent_p.L248L|FAM129A_uc009wyi.1_Silent_p.L218L	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	420					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						TGAGATCCTGCAGGCGCTCGT	0.522													26	87					0	0	0.002445	0	0		T	184777283	T	T	184777283	2	4	4	1	0	0	0	0	0	0	0	1	5447	697	25	2		2	FAM129A	1	184777283	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	12370	184777283	64473338	294	2260											
C1orf25	81627	broad.mit.edu	37	chr1	185112528	185112528	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagacattccaaaggttttcGttcctcagccaaagcagcca	12	10	7	12	1	1	1	1	0	0	1	4	1	3	1	4	1	3	3	4	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:185112528G>A	uc001grf.3	-	7	1092	c.820C>T	c.(820-822)CGA>TGA	p.R274*	C1orf25_uc010pon.1_Nonsense_Mutation_p.R118*	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	274						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						AAAGGTTTTCGTTCCTCAGCC	0.353													9	75					0	0	0.006214	0	0		A	185112528	A	A	185112528	4	1	4	1	0	0	0	0	0	1	0	0	2037	1153	40	1	1417	1	C1orf25	1	185112528	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	335245	185112528	64138093	295	2261											
HMCN1	83872	broad.mit.edu	37	chr1	185985117	185985117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatgattgaaggcaacttggCcacgcctttgaataagcaag	14	9	10	8	1	0	3	0	3	0	0	0	3	0	3	2	2	2	2	2	2	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:185985117C>T	uc001grq.1	+	32	5166	c.4937C>T	c.(4936-4938)GCC>GTC	p.A1646V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1646	Ig-like C2-type 14.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GGCAACTTGGCCACGCCTTTG	0.403													15	60					0	0	0.003163	0	0		T	185985117	T	T	185985117	3	4	4	1	0	0	0	0	1	0	0	0	7236	739	26	2	5063	2	HMCN1	1	185985117	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	872589	185985117	63265504	296	2262											
HMCN1	83872	broad.mit.edu	37	chr1	186147696	186147696	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaggctgccaaattatggCactcaatacagtagctataa	15	9	9	8	0	1	1	1	0	0	1	1	2	1	1	1	2	3	4	1	2	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186147696C>T	uc001grq.1	+	104	16321	c.16092C>T	c.(16090-16092)GGC>GGT	p.G5364G	HMCN1_uc001grs.1_Intron	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5364					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CAAATTATGGCACTCAATACA	0.483													23	176					0	0	0.003954	0	0		T	186147696	T	T	186147696	2	4	4	1	0	0	0	0	0	0	0	1	7236	697	25	2		2	HMCN1	1	186147696	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	162579	186147696	63102925	297	2263											
HMCN1	83872	broad.mit.edu	37	chr1	186147722	186147722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacagtagctataaccttgCacggttctcccctgtgagaa	11	11	8	11	1	1	1	0	1	1	1	2	2	1	1	3	1	4	4	3	1	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186147722C>T	uc001grq.1	+	104	16347	c.16118C>T	c.(16117-16119)GCA>GTA	p.A5373V	HMCN1_uc001grs.1_Intron	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5373					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TATAACCTTGCACGGTTCTCC	0.453													48	174					0	0	0.00361	0	0		T	186147722	T	T	186147722	3	4	4	1	0	0	0	0	1	0	0	0	7236	710	25	2	16532	2	HMCN1	1	186147722	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	26	186147722	63102899	298	2264											
HMCN1	83872	broad.mit.edu	37	chr1	186158685	186158685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acccaatgatttggaatgtgCcttgagcccatatgccttgg	9	12	10	10	0	0	2	0	2	0	0	0	3	0	3	4	2	3	0	4	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186158685C>T	uc001grq.1	+	107	16812	c.16583C>T	c.(16582-16584)GCC>GTC	p.A5528V	HMCN1_uc001grs.1_Missense_Mutation_p.A980V	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5528					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TTGGAATGTGCCTTGAGCCCA	0.443													4	68					0	0	0.000602	0	0		T	186158685	T	T	186158685	3	4	4	1	0	0	0	0	1	0	0	0	7236	739	26	2	17009	2	HMCN1	1	186158685	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10963	186158685	63091936	299	2265											
HMCN1	83872	broad.mit.edu	37	chr1	186158913	186158913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgagaagcagagacctaccGcatgagggtccgagcctcat	12	5	12	12	3	1	3	1	1	0	2	2	6	2	3	4	1	3	2	4	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186158913G>A	uc001grq.1	+	107	17040	c.16811G>A	c.(16810-16812)CGC>CAC	p.R5604H	HMCN1_uc001grs.1_Missense_Mutation_p.R1056H	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5604					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GAGACCTACCGCATGAGGGTC	0.468													12	49					0	0	0.000978	0	0		A	186158913	A	A	186158913	3	1	4	1	0	0	0	0	1	0	0	0	7236	1087	38	1	17237	1	HMCN1	1	186158913	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	228	186158913	63091708	300	2266											
TPR	7175	broad.mit.edu	37	chr1	186312540	186312540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcaaccctttgtcgataaCgcagactctcaacctgagcc	10	10	7	14	2	2	2	2	1	1	1	4	3	2	2	3	0	4	2	3	0	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186312540C>T	uc001grv.2	-	27	3965	c.3668G>A	c.(3667-3669)CGT>CAT	p.R1223H		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1223	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		TTGTCGATAACGCAGACTCTC	0.368			T	NTRK1	papillary thyroid								8	108					0	0	0.004482	0	0		T	186312540	T	T	186312540	3	4	4	1	0	0	0	0	1	0	0	0	16442	536	19	1	3523	1	TPR	1	186312540	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	153627	186312540	62938081	301	2267											
PTGS2	5743	broad.mit.edu	37	chr1	186647441	186647441	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaggcacaggaggaagggCtctagtataataggagaggt	14	7	15	5	0	2	1	1	0	1	1	2	4	2	3	0	6	0	3	0	6	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186647441C>A	uc001gsb.2	-	4	546	c.409G>T	c.(409-411)GCC>TCC	p.A137S	PTGS2_uc009wyo.2_Missense_Mutation_p.E20D	NM_000963	NP_000954	P35354	PGH2_HUMAN	prostaglandin-endoperoxide synthase 2 precursor	137					cellular component movement|cyclooxygenase pathway|hormone biosynthetic process|positive regulation of brown fat cell differentiation|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of fever generation|positive regulation of fibroblast growth factor production|positive regulation of nitric oxide biosynthetic process|positive regulation of platelet-derived growth factor production|positive regulation of prostaglandin biosynthetic process|positive regulation of transforming growth factor-beta production|positive regulation vascular endothelial growth factor production|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|microsome|neuron projection|nucleus	enzyme binding|heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|central_nervous_system(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Carprofen(DB00821)|Celecoxib(DB00482)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Epoprostenol(DB01240)|Etodolac(DB00749)|Etoricoxib(DB01628)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ginseng(DB01404)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lenalidomide(DB00480)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mesalazine(DB00244)|Nabumetone(DB00461)|Naproxen(DB00788)|Oxaprozin(DB00991)|Phenylbutazone(DB00812)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Thalidomide(DB01041)|Tiaprofenic acid(DB01600)|Tolmetin(DB00500)|Valdecoxib(DB00580)	GGAGGAAGGGCTCTAGTATAA	0.448													8	64					0.000157383	0.0001649	0.00308	1	0		A	186647441	A	A	186647441	3	1	4	1	0	0	0	0	1	0	0	0	12779	797	28	5	1433	5	PTGS2	1	186647441	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	334901	186647441	62603180	302	2268											
FAM5C	339479	broad.mit.edu	37	chr1	190067862	190067862	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgaggagcatccgcttacgCcaggagggatcaaaccagct	11	6	13	11	2	1	1	1	1	0	0	2	4	2	4	3	3	4	3	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:190067862C>T	uc001gse.1	-	8	1819	c.1587G>A	c.(1585-1587)TGG>TGA	p.W529*	FAM5C_uc010pot.1_Nonsense_Mutation_p.W427*	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	529						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TCCGCTTACGCCAGGAGGGAT	0.423													6	118					0	0	0.00308	0	0		T	190067862	T	T	190067862	4	4	4	1	0	0	0	0	0	1	0	0	5608	740	26	2	717	2	FAM5C	1	190067862	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3420421	190067862	59182759	303	2269											
B3GALT2	8707	broad.mit.edu	37	chr1	193149563	193149563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgagaggtaattaggtggCtgtatttacagctcgaataa	13	12	12	4	1	0	1	0	1	0	1	1	4	0	1	0	3	2	4	0	3	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:193149563C>T	uc001gtc.3	-	2	1845	c.1130G>A	c.(1129-1131)AGC>AAC	p.S377N	CDC73_uc001gtb.2_Intron	NM_003783	NP_003774	O43825	B3GT2_HUMAN	UDP-Gal:betaGlcNAc beta	377	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1						AATTAGGTGGCTGTATTTACA	0.433													7	85					0	0	0.006214	0	0		T	193149563	T	T	193149563	3	4	4	1	0	0	0	0	1	0	0	0	1249	797	28	2	142	2	B3GALT2	1	193149563	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3081701	193149563	56101058	304	2270											
CFHR1	3078	broad.mit.edu	37	chr1	196801062	196801062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggatatcgtctttcatcacGttctcacacattgcgaacaa	11	12	7	11	3	4	0	3	0	2	0	6	2	4	1	0	1	2	1	0	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:196801062G>A	uc001gtn.2	+	6	1040	c.926G>A	c.(925-927)CGT>CAT	p.R309H	CFHR1_uc001gtm.2_Missense_Mutation_p.R213H	NM_002113	NP_002104	Q03591	FHR1_HUMAN	complement factor H-related 1 precursor	309	Sushi 5.				complement activation	extracellular space					0						CTTTCATCACGTTCTCACACA	0.383													6	60					0	0	0.001168	0	0		A	196801062	A	A	196801062	3	1	4	1	0	0	0	0	1	0	0	0	3287	1145	40	1	948	1	CFHR1	1	196801062	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3651499	196801062	52449559	305	2271											
CRB1	23418	broad.mit.edu	37	chr1	197390881	197390881	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacaccttcgtttgtaggCtgtctccaagacattaaaat	11	13	6	11	1	1	1	0	0	1	1	4	1	2	1	3	1	0	3	3	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:197390881C>A	uc001gtz.2	+	6	2058	c.1923C>A	c.(1921-1923)GGC>GGA	p.G641G	CRB1_uc010poz.1_Silent_p.G572G|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Silent_p.G529G|CRB1_uc010ppb.1_Silent_p.G641G|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_Silent_p.G122G|CRB1_uc001gub.1_Silent_p.G290G	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	641	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						CGTTTGTAGGCTGTCTCCAAG	0.428													12	123					3.27435e-08	3.49742e-08	0.00245	1	0		A	197390881	A	A	197390881	2	1	4	1	0	0	0	0	0	0	0	1	3851	784	28	5		5	CRB1	1	197390881	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	589819	197390881	51859740	306	2272											
LHX9	56956	broad.mit.edu	37	chr1	197889133	197889133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctcagcccggagaagcccgCcctgtgcgccggctgcgggg	4	4	17	16	5	1	1	1	0	0	1	1	2	1	1	4	4	4	2	4	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:197889133C>T	uc001guk.1	+	2	643	c.206C>T	c.(205-207)GCC>GTC	p.A69V	LHX9_uc001gui.1_Missense_Mutation_p.A60V|LHX9_uc001guj.1_Missense_Mutation_p.A75V	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	69	LIM zinc-binding 1.				motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						GAGAAGCCCGCCCTGTGCGCC	0.642													26	47					0	0	0.002096	0	0		T	197889133	T	T	197889133	3	4	4	1	0	0	0	0	1	0	0	0	8793	739	26	2	244	2	LHX9	1	197889133	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	498252	197889133	51361488	307	2273											
PTPRC	5788	broad.mit.edu	37	chr1	198685904	198685904	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttttatcattacatgcctAcatcattgcaaaagtgcaac	13	14	5	9	0	2	0	2	0	0	0	2	0	2	0	1	0	6	3	1	0	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:198685904A>C	uc001gur.1	+	13	1559	c.1379A>C	c.(1378-1380)TAC>TCC	p.Y460S	PTPRC_uc001gus.1_Missense_Mutation_p.Y412S|PTPRC_uc001gut.1_Missense_Mutation_p.Y299S|PTPRC_uc009wzf.1_Missense_Mutation_p.Y348S|PTPRC_uc010ppg.1_Missense_Mutation_p.Y396S	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	460	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TTACATGCCTACATCATTGCA	0.313													5	45					0	0	0.000602	0	0		C	198685904	C	C	198685904	3	2	4	1	0	0	0	0	1	0	0	0	12822	391	14	5	1436	5	PTPRC	1	198685904	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	796771	198685904	50564717	308	2274											
PTPRC	5788	broad.mit.edu	37	chr1	198687371	198687371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actctggttagaaatgagtcGcataagaattgcgatttccg	12	12	10	7	3	1	3	0	1	1	2	3	4	2	3	1	1	1	2	1	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:198687371G>A	uc001gur.1	+	14	1773	c.1593G>A	c.(1591-1593)TCG>TCA	p.S531S	PTPRC_uc001gus.1_Silent_p.S483S|PTPRC_uc001gut.1_Silent_p.S370S|PTPRC_uc009wzf.1_Silent_p.S419S|PTPRC_uc010ppg.1_Silent_p.S467S	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	531	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						GAAATGAGTCGCATAAGAATT	0.403													16	26					0	0	0.004007	0	0		A	198687371	A	A	198687371	2	1	4	1	0	0	0	0	0	0	0	1	12822	1074	38	1		1	PTPRC	1	198687371	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1467	198687371	50563250	309	2275											
PTPRC	5788	broad.mit.edu	37	chr1	198703517	198703517	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggaacagaaagccacagTtattgtcatggtcactcgat	12	11	10	8	1	2	1	2	0	0	1	3	3	2	2	1	2	2	1	1	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:198703517T>C	uc001gur.1	+	22	2414	c.2234T>C	c.(2233-2235)GTT>GCT	p.V745A	PTPRC_uc001gus.1_Missense_Mutation_p.V697A|PTPRC_uc001gut.1_Missense_Mutation_p.V584A|PTPRC_uc010ppg.1_Missense_Mutation_p.V681A	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	745	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						AAAGCCACAGTTATTGTCATG	0.408													8	354					0	0	0.006214	0	0		C	198703517	C	C	198703517	3	2	4	1	0	0	0	0	1	0	0	0	12822	1725	60	3	2327	3	PTPRC	1	198703517	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	16146	198703517	50547104	310	2276											
CACNA1S	779	broad.mit.edu	37	chr1	201022696	201022696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagaaggcgctggagatgCgggcactctcatctgggtcc	8	7	16	10	2	2	2	1	0	2	2	4	4	3	3	1	5	1	2	1	5	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:201022696C>T	uc001gvv.2	-	30	3913	c.3686G>A	c.(3685-3687)CGC>CAC	p.R1229H		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1229	IV.|Extracellular (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GCTGGAGATGCGGGCACTCTC	0.642													7	29					0	0	0.006214	0	0		T	201022696	T	T	201022696	3	4	4	1	0	0	0	0	1	0	0	0	2550	768	27	1	1995	1	CACNA1S	1	201022696	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2319179	201022696	48227925	311	2277											
PKP1	5317	broad.mit.edu	37	chr1	201252935	201252935	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaagatgaaaacaggcacGtctggcaggcagcgcgtgca	14	4	13	10	3	1	2	0	1	1	1	1	2	1	2	0	3	3	4	0	3	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:201252935G>A	uc001gwd.2	+	1	356	c.105G>A	c.(103-105)ACG>ACA	p.T35T	PKP1_uc001gwe.2_Silent_p.T35T|PKP1_uc009wzm.2_5'UTR	NM_000299	NP_000290	Q13835	PKP1_HUMAN	plakophilin 1 isoform 1b	35					cell adhesion|cellular component disassembly involved in apoptosis|multicellular organismal development	desmosome|intermediate filament|nucleus	intermediate filament binding|signal transducer activity|structural constituent of epidermis			ovary(2)	2						AAACAGGCACGTCTGGCAGGC	0.587													10	29					0	0	0.000978	0	0		A	201252935	A	A	201252935	2	1	4	1	0	0	0	0	0	0	0	1	12003	1132	40	1		1	PKP1	1	201252935	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	230239	201252935	47997686	312	2278											
CSRP1	1465	broad.mit.edu	37	chr1	201454427	201454427	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctttgcagtaaatctcGccatccttgtctgccagggt	7	12	8	14	1	2	0	0	0	2	0	4	0	3	0	5	1	2	2	5	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:201454427G>A	uc001gws.2	-	5	680	c.489C>T	c.(487-489)GGC>GGT	p.G163G	CSRP1_uc001gwr.1_RNA|CSRP1_uc010ppr.1_Silent_p.G157G	NM_004078	NP_004069	P21291	CSRP1_HUMAN	cysteine and glycine-rich protein 1 isoform 1	163	LIM zinc-binding 2.					nucleus	zinc ion binding			ovary(1)	1						AGTAAATCTCGCCATCCTTGT	0.507													7	108					0	0	0.001984	0	0		A	201454427	A	A	201454427	2	1	4	1	0	0	0	0	0	0	0	1	3969	1074	38	1		1	CSRP1	1	201454427	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	201492	201454427	47796194	313	2279											
NAV1	89796	broad.mit.edu	37	chr1	201751650	201751650	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcccgttctaacatccagtaCcgcagcctgccccggccagc	7	6	9	19	3	1	0	0	0	1	0	2	0	2	0	7	1	5	3	7	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:201751650C>T	uc001gwu.2	+	6	2357	c.2010C>T	c.(2008-2010)TAC>TAT	p.Y670Y	NAV1_uc001gwv.1_Silent_p.Y178Y|NAV1_uc001gww.1_Silent_p.Y279Y|NAV1_uc001gwx.2_Silent_p.Y279Y|NAV1_uc001gwy.1_Silent_p.Y51Y	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	670					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						ACATCCAGTACCGCAGCCTGC	0.597													7	28					0	0	0.00245	0	0		T	201751650	T	T	201751650	2	4	4	1	0	0	0	0	0	0	0	1	10201	518	18	4		4	NAV1	1	201751650	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	297223	201751650	47498971	314	2280											
NAV1	89796	broad.mit.edu	37	chr1	201763655	201763655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagaaaaagaactctgaggCccaggcagtcattcagggag	15	5	13	8	0	3	3	2	1	1	2	3	5	3	4	1	3	1	1	1	3	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:201763655C>T	uc001gwu.2	+	15	3814	c.3467C>T	c.(3466-3468)GCC>GTC	p.A1156V	NAV1_uc001gwv.1_Missense_Mutation_p.A681V|NAV1_uc001gww.1_Missense_Mutation_p.A757V|NAV1_uc001gwx.2_Missense_Mutation_p.A765V|NAV1_uc001gwy.1_Missense_Mutation_p.A529V	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	1156	Potential.				cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						AACTCTGAGGCCCAGGCAGTC	0.443													6	98					0	0	0.001168	0	0		T	201763655	T	T	201763655	3	4	4	1	0	0	0	0	1	0	0	0	10201	739	26	2	3582	2	NAV1	1	201763655	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	12005	201763655	47486966	315	2281											
LGR6	59352	broad.mit.edu	37	chr1	202270002	202270002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccataacaacaacatcaagGccatcccagaaaaggccttc	16	6	5	14	0	1	1	1	0	0	1	4	1	3	1	4	2	3	0	4	2	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202270002G>A	uc001gxu.2	+	8	811	c.811G>A	c.(811-813)GCC>ACC	p.A271T	LGR6_uc001gxv.2_Missense_Mutation_p.A219T|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Missense_Mutation_p.A132T|LGR6_uc009xac.1_RNA	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	271	LRR 8.|Extracellular (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						CAACATCAAGGCCATCCCAGA	0.502													60	158					0	0	0.00361	0	0		A	202270002	A	A	202270002	3	1	4	1	0	0	0	0	1	0	0	0	8774	1203	42	2	988	2	LGR6	1	202270002	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	506347	202270002	46980619	316	2282											
PPP1R12B	4660	broad.mit.edu	37	chr1	202418206	202418206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgtgtgatcaccaatcGccctcttcctagcactgcca	7	11	7	16	1	3	1	1	1	2	0	5	1	4	1	4	0	2	2	4	0	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202418206G>A	uc001gya.1	+	13	1901	c.1757G>A	c.(1756-1758)CGC>CAC	p.R586H	PPP1R12B_uc001gxz.1_Missense_Mutation_p.R586H	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	586					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			ATCACCAATCGCCCTCTTCCT	0.502													5	58					0	0	0.001984	0	0		A	202418206	A	A	202418206	3	1	4	1	0	0	0	0	1	0	0	0	12377	1087	38	1	1897	1	PPP1R12B	1	202418206	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	148204	202418206	46832415	317	2283											
SYT2	127833	broad.mit.edu	37	chr1	202573729	202573729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcaaccacagcaatggCgatcagtgcccagggtggta	11	5	12	13	1	1	0	1	0	0	0	1	1	1	0	3	3	4	3	3	3	3	1	rs147177966		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202573729C>T	uc001gye.2	-	3	392	c.199G>A	c.(199-201)GCC>ACC	p.A67T	SYT2_uc010pqb.1_Missense_Mutation_p.A67T|SYT2_uc009xaf.2_Intron	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	67	Helical; (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	ACAGCAATGGCGATCAGTGCC	0.502													5	14					0	0	0.00308	0	0		T	202573729	T	T	202573729	3	4	4	1	0	0	0	0	1	0	0	0	15499	768	27	1	1088	1	SYT2	1	202573729	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	155523	202573729	46676892	318	2284											
KDM5B	10765	broad.mit.edu	37	chr1	202704712	202704712	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatatcacatcgaggacacaGcacctaatgtgggacaaggc	15	6	10	10	1	1	0	1	0	0	0	2	3	1	2	1	3	1	1	1	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202704712G>A	uc001gyf.2	-	22	3384	c.3268C>T	c.(3268-3270)CTG>TTG	p.L1090L	KDM5B_uc009xag.2_Silent_p.L1126L|KDM5B_uc001gyg.1_Silent_p.L932L	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1090					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						CGAGGACACAGCACCTAATGT	0.383													31	63					0	0	0.009535	0	0		A	202704712	A	A	202704712	2	1	4	1	0	0	0	0	0	0	0	1	8150	962	34	2		2	KDM5B	1	202704712	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	130983	202704712	46545909	319	2285											
KDM5B	10765	broad.mit.edu	37	chr1	202746175	202746175	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagtctctggatacgtggCgtaaaatgaagtttatcaac	12	13	9	7	2	3	1	2	1	1	0	4	2	3	2	0	2	2	2	0	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202746175C>T	uc001gyf.2	-	2	368	c.252G>A	c.(250-252)ACG>ACA	p.T84T	KDM5B_uc009xag.2_Silent_p.T84T|KDM5B_uc001gyg.1_5'UTR	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	84					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						GGATACGTGGCGTAAAATGAA	0.378													25	104					0	0	0.00632	0	0		T	202746175	T	T	202746175	2	4	4	1	0	0	0	0	0	0	0	1	8150	755	27	1		1	KDM5B	1	202746175	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	41463	202746175	46504446	320	2286											
KLHL12	59349	broad.mit.edu	37	chr1	202863757	202863757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactggccactacgagtccgGcaccttcccgggctgtctgc	5	8	11	17	3	1	0	0	0	1	0	3	1	3	0	4	3	2	2	4	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202863757G>A	uc001gyo.1	-	9	1456	c.1256C>T	c.(1255-1257)GCC>GTC	p.A419V	KLHL12_uc001gym.1_Missense_Mutation_p.A152V|KLHL12_uc001gyn.1_Missense_Mutation_p.A269V|KLHL12_uc010pqc.1_Missense_Mutation_p.A457V|KLHL12_uc009xah.1_Missense_Mutation_p.A318V	NM_021633	NP_067646	Q53G59	KLH12_HUMAN	kelch-like 12	419	Kelch 3.|Interaction with DVL3.				Wnt receptor signaling pathway		protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)			TACGAGTCCGGCACCTTCCCG	0.542													10	111					0	0	0.000978	0	0		A	202863757	A	A	202863757	3	1	4	1	0	0	0	0	1	0	0	0	8384	1203	42	2	466	2	KLHL12	1	202863757	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	117582	202863757	46386864	321	2287											
ADIPOR1	51094	broad.mit.edu	37	chr1	202920110	202920110	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttctagcaggggtcccAgttcagccagttccaccgtg	6	11	10	14	1	3	0	1	0	2	0	6	0	5	0	4	2	2	3	4	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202920110A>G	uc001gyq.3	-	2	356	c.89T>C	c.(88-90)CTG>CCG	p.L30P	ADIPOR1_uc010pqd.1_5'Flank|ADIPOR1_uc001gyr.3_5'UTR|ADIPOR1_uc001gys.3_Missense_Mutation_p.L30P	NM_015999	NP_057083	Q96A54	ADR1_HUMAN	adiponectin receptor 1	30	Cytoplasmic (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane|plasma membrane	hormone binding|protein kinase binding|receptor activity				0			BRCA - Breast invasive adenocarcinoma(75;0.141)			CAGGGGTCCCAGTTCAGCCAG	0.547													19	75					0	0	0.010504	0	0		G	202920110	G	G	202920110	3	3	4	1	0	0	0	0	1	0	0	0	318	188	7	3	1066	3	ADIPOR1	1	202920110	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	56353	202920110	46330511	322	2288											
PLEKHA6	22874	broad.mit.edu	37	chr1	204226501	204226501	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggggagctgatggatcGcctcatcacataggcagcag	9	8	14	10	1	2	1	2	1	0	0	3	3	2	3	1	4	2	3	1	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:204226501G>A	uc001hau.2	-	9	1821	c.1504C>T	c.(1504-1506)CGA>TGA	p.R502*	PLEKHA6_uc009xaw.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xax.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xay.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xaz.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xba.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xbb.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xbc.1_Nonsense_Mutation_p.R126*	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	502										ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			CTGATGGATCGCCTCATCACA	0.592													3	2					0	0	0.004672	0	0		A	204226501	A	A	204226501	4	1	4	1	0	0	0	0	0	1	0	0	12079	1095	38	1	1698	1	PLEKHA6	1	204226501	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1306391	204226501	45024120	323	2289											
SLC45A3	85414	broad.mit.edu	37	chr1	205632060	205632060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtaaaacagcgtgaaggTcatgagtgccatccagctgc	11	8	12	10	2	1	2	1	2	0	0	2	2	2	2	2	1	5	2	2	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:205632060T>C	uc001hda.1	-	3	1198	c.859A>G	c.(859-861)ACC>GCC	p.T287A	SLC45A3_uc010prn.1_5'Flank|SLC45A3_uc010pro.1_Missense_Mutation_p.T121A|SLC45A3_uc010prp.1_Intron|ELK4_uc010prq.1_Intron	NM_033102	NP_149093	Q96JT2	S45A3_HUMAN	prostein	287	Helical; Name=7; (Potential).				transmembrane transport	integral to membrane			SLC45A3/BRAF(2)	ovary(2)|prostate(2)	4	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			AGCGTGAAGGTCATGAGTGCC	0.667			T	ETV1|ETV5|ELK4|ERG	prostate 								4	36					0	0	0.001168	0	0		C	205632060	C	C	205632060	3	2	4	1	0	0	0	0	1	0	0	0	14667	1667	58	3	814	3	SLC45A3	1	205632060	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1405559	205632060	43618561	324	2290											
PM20D1	148811	broad.mit.edu	37	chr1	205814498	205814498	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccccgaccatagatgatGccatcacgctccaacccaga	11	6	8	16	2	1	3	1	1	0	2	2	4	2	3	6	0	3	1	6	0	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:205814498G>A	uc001hdj.2	-	3	489	c.444C>T	c.(442-444)GGC>GGT	p.G148G	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	148						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			CATAGATGATGCCATCACGCT	0.567													23	67					0	0	0.004656	0	0		A	205814498	A	A	205814498	2	1	4	1	0	0	0	0	0	0	0	1	12147	1306	46	2		2	PM20D1	1	205814498	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	182438	205814498	43436123	325	2291											
SRGAP2	23380	broad.mit.edu	37	chr1	206626563	206626563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagaatgtgagcccatcgagGccattgccaagtttgactac	11	9	10	11	1	0	3	0	2	0	1	1	4	0	3	3	1	3	1	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:206626563G>A	uc001hdy.2	+	17	2269	c.1936G>A	c.(1936-1938)GCC>ACC	p.A646T	SRGAP2_uc010prt.1_Missense_Mutation_p.A569T|SRGAP2_uc001hdx.2_Missense_Mutation_p.A646T|SRGAP2_uc010pru.1_Missense_Mutation_p.A569T|SRGAP2_uc010prv.1_Missense_Mutation_p.A570T	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	733	SH3.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					GCCCATCGAGGCCATTGCCAA	0.532													3	11					0	0	0.009096	0	0		A	206626563	A	A	206626563	3	1	4	1	0	0	0	0	1	0	0	0	15171	1203	42	2	2003	2	SRGAP2	1	206626563	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	812065	206626563	42624058	326	2292											
FAIM3	9214	broad.mit.edu	37	chr1	207087292	207087292	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgaagttggtggtggatAccacggtaccacatgttcca	10	11	12	8	1	0	2	0	2	0	0	1	3	1	3	3	4	2	3	3	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:207087292A>G	uc001hey.2	-	2	364	c.185T>C	c.(184-186)GTA>GCA	p.V62A	FAIM3_uc010prz.1_Intron|FAIM3_uc010psa.1_Silent_p.G5G|FAIM3_uc010psb.1_Missense_Mutation_p.V62A	NM_005449	NP_005440	O60667	FAIM3_HUMAN	Fas apoptotic inhibitory molecule 3 isoform a	62	Ig-like.|Extracellular (Potential).				anti-apoptosis|cellular defense response	integral to membrane				central_nervous_system(1)	1	Breast(84;0.201)					GGTGGTGGATACCACGGTACC	0.502													4	150					0	0	0.000602	0	0		G	207087292	G	G	207087292	3	3	4	1	0	0	0	0	1	0	0	0	5388	391	14	3	1015	3	FAIM3	1	207087292	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	460729	207087292	42163329	327	2293											
CD34	947	broad.mit.edu	37	chr1	208061099	208061099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtcacaattcggtatcaGccaccacgtgttgtcttgct	8	12	9	12	3	3	0	2	0	1	0	4	1	3	0	2	1	2	3	2	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:208061099G>A	uc001hgw.1	-	8	1400	c.1142C>T	c.(1141-1143)GCT>GTT	p.A381V	CD34_uc001hgv.1_Missense_Mutation_p.A223V|CD34_uc001hgx.1_3'UTR|CD34_uc010psj.1_Missense_Mutation_p.A246V	NM_001025109	NP_001020280	P28906	CD34_HUMAN	CD34 antigen isoform a	381	Cytoplasmic (Potential).				cell-cell adhesion|leukocyte migration|regulation of immune response	integral to membrane	carbohydrate binding			ovary(1)	1						TTCGGTATCAGCCACCACGTG	0.617													9	36					0	0	0.008871	0	0		A	208061099	A	A	208061099	3	1	4	1	0	0	0	0	1	0	0	0	3009	971	34	2	19	2	CD34	1	208061099	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	973807	208061099	41189522	328	2294											
PLXNA2	5362	broad.mit.edu	37	chr1	208212226	208212226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggcacattcttatacacgGcatcaagaatcttctccttg	11	12	7	11	1	4	1	1	0	3	1	5	1	4	1	1	2	1	2	1	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:208212226G>A	uc001hgz.2	-	25	5362	c.4604C>T	c.(4603-4605)GCC>GTC	p.A1535V		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1535	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		CTTATACACGGCATCAAGAAT	0.527													27	71					0	0	0.005443	0	0		A	208212226	A	A	208212226	3	1	4	1	0	0	0	0	1	0	0	0	12139	1203	42	2	1112	2	PLXNA2	1	208212226	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	151127	208212226	41038395	329	2295											
HHAT	55733	broad.mit.edu	37	chr1	210591562	210591562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggccctggggctgggccGccttctttgctggtggtggc	0	11	17	13	1	1	0	0	0	1	0	1	0	1	0	4	7	1	2	4	7	0	2	rs148639278	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:210591562G>A	uc009xcx.2	+	7	915	c.749G>A	c.(748-750)CGC>CAC	p.R250H	HHAT_uc010psq.1_Missense_Mutation_p.R113H|HHAT_uc001hhz.3_Missense_Mutation_p.R250H|HHAT_uc010psr.1_Missense_Mutation_p.R251H|HHAT_uc010pss.1_Missense_Mutation_p.R205H|HHAT_uc009xcy.2_Missense_Mutation_p.R185H|HHAT_uc010pst.1_Missense_Mutation_p.R187H|HHAT_uc010psu.1_Missense_Mutation_p.R185H	NM_001122834	NP_001116306	Q5VTY9	HHAT_HUMAN	hedgehog acyltransferase	250					multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)		GGGCTGGGCCGCCTTCTTTGC	0.582													7	28					0	0	0.004482	0	0		A	210591562	A	A	210591562	3	1	4	1	0	0	0	0	1	0	0	0	7105	1087	38	1	869	1	HHAT	1	210591562	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2379336	210591562	38659059	330	2296											
KCNH1	3756	broad.mit.edu	37	chr1	210971031	210971031	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagccggaaggccgggtgCtccttgaacaccttgcggtt	6	8	14	13	3	0	1	0	1	0	0	1	2	1	2	5	4	4	2	5	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:210971031C>A	uc001hib.2	-	9	1904	c.1734G>T	c.(1732-1734)GAG>GAT	p.E578D	KCNH1_uc001hic.2_Missense_Mutation_p.E551D	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	578	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		AGGCCGGGTGCTCCTTGAACA	0.602													4	28					4.096e-09	4.38941e-09	0.001168	1	0		A	210971031	A	A	210971031	3	1	4	1	0	0	0	0	1	0	0	0	8047	796	28	5	1247	5	KCNH1	1	210971031	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	379469	210971031	38279590	331	2297											
RCOR3	55758	broad.mit.edu	37	chr1	211451507	211451507	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaatattactattcttggAaaaaaactcgctctaggaca	17	12	5	7	1	2	0	0	0	2	0	3	2	2	2	0	2	2	1	0	2	9	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:211451507A>G	uc001hig.2	+	5	560	c.391A>G	c.(391-393)AAA>GAA	p.K131E	RCOR3_uc010psv.1_RNA|RCOR3_uc001hie.2_Missense_Mutation_p.K189E|RCOR3_uc010psw.1_Missense_Mutation_p.K189E|RCOR3_uc001hif.2_Missense_Mutation_p.K189E	NM_018254	NP_060724	Q9P2K3	RCOR3_HUMAN	REST corepressor 3 isoform d	131	SANT 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		CTATTCTTGGAAAAAAACTCG	0.338													24	56					0	0	0.007291	0	0		G	211451507	G	G	211451507	3	3	4	1	0	0	0	0	1	0	0	0	13209	247	9	3	587	3	RCOR3	1	211451507	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	480476	211451507	37799114	332	2298											
NEK2	4751	broad.mit.edu	37	chr1	211842455	211842455	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacccccattcagacttacGctccaatctttcttctcttg	7	15	4	15	1	4	2	1	1	3	1	6	2	5	2	3	0	1	1	3	0	2	5	rs140995957		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:211842455G>A	uc001hir.1	-	6	1131	c.985C>T	c.(985-987)CAG>TAG	p.Q329*	NEK2_uc001hiq.1_Nonsense_Mutation_p.Q329*|NEK2_uc001his.3_Nonsense_Mutation_p.Q329*|NEK2_uc001hit.1_RNA	NM_002497	NP_002488	P51955	NEK2_HUMAN	NIMA-related kinase 2	329	Leucine-zipper.|Necessary for interaction with MAD1L1.|Potential.|Interaction with PCNT.				cell division|centrosome separation|G2/M transition of mitotic cell cycle|meiosis|protein autophosphorylation|regulation of mitosis	centrosome|condensed chromosome kinetochore|cytosol|nucleolus	ATP binding|metal ion binding|protein binding|protein phosphatase binding|protein serine/threonine kinase activity			breast(2)|stomach(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.00203)|all cancers(67;0.0339)|Epithelial(68;0.0546)		TCAGACTTACGCTCCAATCTT	0.423													70	225					0	0	0.00361	0	0		A	211842455	A	A	211842455	4	1	4	1	0	0	0	0	0	1	0	0	10343	1101	38	1	364	1	NEK2	1	211842455	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	390948	211842455	37408166	333	2299											
DTL	51514	broad.mit.edu	37	chr1	212273912	212273912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaccaagatcatgtctcCgagaaaagcccttattcctg	12	9	9	11	1	2	3	1	0	1	3	4	5	3	3	4	1	1	0	4	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:212273912C>T	uc009xdc.2	+	14	1894	c.1580C>T	c.(1579-1581)CCG>CTG	p.P527L	DTL_uc010ptb.1_Missense_Mutation_p.P485L|DTL_uc001hiz.3_Missense_Mutation_p.P256L	NM_016448	NP_057532	Q9NZJ0	DTL_HUMAN	denticleless homolog	527					DNA replication|G2/M transition DNA damage checkpoint|protein monoubiquitination|protein polyubiquitination|response to UV|translesion synthesis|ubiquitin-dependent protein catabolic process	centrosome|Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|nuclear membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00796)|all cancers(67;0.0385)|Epithelial(68;0.102)		ATCATGTCTCCGAGAAAAGCC	0.493													25	80					0	0	0.005443	0	0		T	212273912	T	T	212273912	3	4	4	1	0	0	0	0	1	0	0	0	4793	652	23	1	1634	1	DTL	1	212273912	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	431457	212273912	36976709	334	2300											
RPS6KC1	26750	broad.mit.edu	37	chr1	213414415	213414415	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggtctttgaatgaggaGcccttcatgaagactgaagg	11	9	13	8	0	2	5	1	4	1	1	2	6	2	6	2	3	1	0	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:213414415G>T	uc010ptr.1	+	11	1755	c.1596G>T	c.(1594-1596)GAG>GAT	p.E532D	RPS6KC1_uc001hkd.2_Missense_Mutation_p.E520D|RPS6KC1_uc010pts.1_Missense_Mutation_p.E320D|RPS6KC1_uc010ptt.1_Missense_Mutation_p.E320D|RPS6KC1_uc010ptu.1_Missense_Mutation_p.E351D|RPS6KC1_uc010ptv.1_Missense_Mutation_p.E67D|RPS6KC1_uc001hke.2_Missense_Mutation_p.E351D	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	532					cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		TGAATGAGGAGCCCTTCATGA	0.418													14	46					4.36969e-10	4.6962e-10	0.001855	1	0		T	213414415	T	T	213414415	3	4	4	1	0	0	0	0	1	0	0	0	13683	962	34	5	1638	5	RPS6KC1	1	213414415	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1140503	213414415	35836206	335	2301											
PROX1	5629	broad.mit.edu	37	chr1	214171100	214171100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttccacaccgccaaccagCgcctgcagtgctttggcgac	8	8	9	16	3	0	0	0	0	0	0	1	1	1	0	5	1	4	2	5	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:214171100C>T	uc001hkh.2	+	2	1494	c.1222C>T	c.(1222-1224)CGC>TGC	p.R408C	PROX1_uc001hkg.1_Missense_Mutation_p.R408C	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	408					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		CGCCAACCAGCGCCTGCAGTG	0.587													23	64					0	0	0.007291	0	0		T	214171100	T	T	214171100	3	4	4	1	0	0	0	0	1	0	0	0	12582	768	27	1	1224	1	PROX1	1	214171100	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	756685	214171100	35079521	336	2302											
PROX1	5629	broad.mit.edu	37	chr1	214171117	214171117	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcctgcagtgctttggCgacgtcatcattccgaaccc	7	9	10	15	4	2	0	2	0	0	0	3	2	3	0	3	1	4	2	3	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:214171117C>T	uc001hkh.2	+	2	1511	c.1239C>T	c.(1237-1239)GGC>GGT	p.G413G	PROX1_uc001hkg.1_Silent_p.G413G	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	413					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		AGTGCTTTGGCGACGTCATCA	0.562													8	94					0	0	0.006214	0	0		T	214171117	T	T	214171117	2	4	4	1	0	0	0	0	0	0	0	1	12582	755	27	1		1	PROX1	1	214171117	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	17	214171117	35079504	337	2303											
KCTD3	51133	broad.mit.edu	37	chr1	215793881	215793881	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactgactcacctggtactgCgtccccatctcctacaaaga	11	9	6	15	1	2	2	1	1	1	1	4	2	3	2	4	1	4	1	4	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:215793881C>T	uc001hks.2	+	18	2663	c.2369C>T	c.(2368-2370)GCG>GTG	p.A790V	KCTD3_uc001hkt.2_Missense_Mutation_p.A788V|KCTD3_uc010pub.1_Missense_Mutation_p.A688V|KCTD3_uc009xdn.2_Missense_Mutation_p.A514V	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	790						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		CCTGGTACTGCGTCCCCATCT	0.463													48	86					0	0	0.00361	0	0		T	215793881	T	T	215793881	3	4	4	1	0	0	0	0	1	0	0	0	8126	768	27	1	2439	1	KCTD3	1	215793881	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1622764	215793881	33456740	338	2304											
USH2A	7399	broad.mit.edu	37	chr1	216040396	216040396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgtggttaaggacactcGcagtgagattggctcctctc	7	12	12	10	1	1	1	0	1	1	1	4	3	2	2	1	3	0	3	1	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:216040396G>A	uc001hku.1	-	44	9185	c.8798C>T	c.(8797-8799)GCG>GTG	p.A2933V		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2933	Fibronectin type-III 16.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AAGGACACTCGCAGTGAGATT	0.453										HNSCC(13;0.011)			15	49					0	0	0.008871	0	0		A	216040396	A	A	216040396	3	1	4	1	0	0	0	0	1	0	0	0	17062	1087	38	1	6926	1	USH2A	1	216040396	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	246515	216040396	33210225	339	2305											
USH2A	7399	broad.mit.edu	37	chr1	216595645	216595645	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaatgacctgaaacaagaAgccagagcccaatgaaagaa	19	5	8	9	0	1	6	1	3	0	3	1	6	1	6	3	0	3	0	3	0	7	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:216595645A>C	uc001hku.1	-	2	421	c.34T>G	c.(34-36)TTC>GTC	p.F12V	USH2A_uc001hkv.2_Missense_Mutation_p.F12V	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	12					maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGAAACAAGAAGCCAGAGCCC	0.423										HNSCC(13;0.011)			7	82					0	0	0.00308	0	0		C	216595645	C	C	216595645	3	2	4	1	0	0	0	0	1	0	0	0	17062	72	3	5	15872	5	USH2A	1	216595645	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	555249	216595645	32654976	340	2306											
TGFB2	7042	broad.mit.edu	37	chr1	218607501	218607501	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaaacaagagcagaaggCgaatggctctccttcgatgt	13	8	12	8	2	1	3	0	1	1	2	3	5	1	3	1	2	2	2	1	2	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:218607501C>T	uc001hlm.2	+	3	1241	c.588C>T	c.(586-588)GGC>GGT	p.G196G	TGFB2_uc001hln.2_Silent_p.G224G|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	196					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		GAGCAGAAGGCGAATGGCTCT	0.453													81	76					0	0	0.00361	0	0		T	218607501	T	T	218607501	2	4	4	1	0	0	0	0	0	0	0	1	15843	755	27	1		1	TGFB2	1	218607501	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2011856	218607501	30643120	341	2307											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220345285	220345285	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaacagaatgcccaacatgCgcagacaacagagcggctcc	14	3	10	14	2	0	3	0	0	0	3	1	3	1	3	2	1	6	3	2	1	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:220345285C>T	uc010puk.1	-	23	2687	c.2523G>A	c.(2521-2523)GCG>GCA	p.A841A	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Silent_p.A421A	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	841					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		GCCCAACATGCGCAGACAACA	0.488													20	69					0	0	0.00278	0	0		T	220345285	T	T	220345285	2	4	4	1	0	0	0	0	0	0	0	1	12961	755	27	1		1	RAB3GAP2	1	220345285	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1737784	220345285	28905336	342	2308											
MOSC1	64757	broad.mit.edu	37	chr1	220970031	220970031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactgtggcgaggccaccGcccagtggataaccagcttc	8	6	14	13	2	0	0	0	0	0	0	1	3	0	2	4	4	2	1	4	4	1	2	rs140778482	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:220970031G>A	uc001hms.2	+	3	744	c.496G>A	c.(496-498)GCC>ACC	p.A166T	MOSC1_uc001hmt.2_Missense_Mutation_p.A166T	NM_022746	NP_073583	Q5VT66	MOSC1_HUMAN	MOCO sulphurase C-terminal domain containing 1	166							molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.0358)		CGAGGCCACCGCCCAGTGGAT	0.582													4	22					0	0	0.001168	0	0		A	220970031	A	A	220970031	3	1	4	1	0	0	0	0	1	0	0	0	9731	1087	38	1	506	1	MOSC1	1	220970031	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	624746	220970031	28280590	343	2309											
DUSP10	11221	broad.mit.edu	37	chr1	221912575	221912575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcagtcaatgatgacagggCcctgactcggcaggtgactc	9	8	13	11	1	1	4	1	4	0	0	3	4	1	4	1	3	1	2	1	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:221912575C>T	uc001hmy.1	-	2	694	c.512G>A	c.(511-513)GGC>GAC	p.G171D	DUSP10_uc001hmx.1_5'Flank|DUSP10_uc001hmz.1_Intron	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	171	Rhodanese.				inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		GATGACAGGGCCCTGACTCGG	0.517													14	38					0	0	0.00245	0	0		T	221912575	T	T	221912575	3	4	4	1	0	0	0	0	1	0	0	0	4816	739	26	2	948	2	DUSP10	1	221912575	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	942544	221912575	27338046	344	2310											
HHIPL2	79802	broad.mit.edu	37	chr1	222696094	222696094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctcgcaatgtattcttgCtgcttgtaggagaagccagc	8	11	11	11	1	1	1	0	0	1	1	2	2	1	1	2	1	4	5	2	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:222696094C>T	uc001hnh.1	-	9	2082	c.2024G>A	c.(2023-2025)AGC>AAC	p.S675N		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	675					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		TGTATTCTTGCTGCTTGTAGG	0.547													8	157					0	0	0.00308	0	0		T	222696094	T	T	222696094	3	4	4	1	0	0	0	0	1	0	0	0	7110	797	28	2	154	2	HHIPL2	1	222696094	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	783519	222696094	26554527	345	2311											
HHIPL2	79802	broad.mit.edu	37	chr1	222717211	222717211	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagacggggttcctcagcccGttggccacctcgctcaggca	6	7	13	15	3	2	1	2	0	0	1	4	2	3	1	4	4	1	4	4	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:222717211G>A	uc001hnh.1	-	2	700	c.642C>T	c.(640-642)AAC>AAT	p.N214N		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	214					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		TCCTCAGCCCGTTGGCCACCT	0.617													4	22					0	0	0.000602	0	0		A	222717211	A	A	222717211	2	1	4	1	0	0	0	0	0	0	0	1	7110	1136	40	1		1	HHIPL2	1	222717211	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	21117	222717211	26533410	346	2312											
MIA3	375056	broad.mit.edu	37	chr1	222803003	222803003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaatggtggaaaaagaacGccctctggcagataagaaag	17	6	11	7	1	1	3	0	0	1	3	1	4	1	4	1	3	2	1	1	3	7	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:222803003G>A	uc001hnl.2	+	4	2450	c.2441G>A	c.(2440-2442)CGC>CAC	p.R814H	MIA3_uc009xea.1_Missense_Mutation_p.R650H	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	814	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		GAAAAAGAACGCCCTCTGGCA	0.418													5	53					0	0	0.001168	0	0		A	222803003	A	A	222803003	3	1	4	1	0	0	0	0	1	0	0	0	9583	1087	38	1	2455	1	MIA3	1	222803003	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	85792	222803003	26447618	347	2313											
C1orf58	148362	broad.mit.edu	37	chr1	222898866	222898866	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacgactcatagaagcataCgttattcaatgtcaggctga	13	11	8	9	2	4	2	4	1	0	1	4	3	4	2	0	1	2	3	0	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:222898866C>T	uc001hnq.1	+	7	944	c.549C>T	c.(547-549)TAC>TAT	p.Y183Y	C1orf58_uc010put.1_Silent_p.Y151Y|C1orf58_uc010puu.1_Silent_p.Y183Y|C1orf58_uc010puv.1_Silent_p.Y151Y	NM_144695	NP_653296	Q5VW32	BROX_HUMAN	Bro1-domain-containing protein	183	BRO1.					membrane					0				GBM - Glioblastoma multiforme(131;0.0667)		TAGAAGCATACGTTATTCAAT	0.333													21	39					0	0	0.002299	0	0		T	222898866	T	T	222898866	2	4	4	1	0	0	0	0	0	0	0	1	2053	547	19	1		1	C1orf58	1	222898866	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	95863	222898866	26351755	348	2314											
DISP1	84976	broad.mit.edu	37	chr1	223177973	223177973	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatcttctctctgagtcgCgtgggctctgcgatggccat	4	13	13	11	3	4	2	0	2	4	0	6	3	4	2	1	2	1	1	1	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:223177973C>T	uc001hnu.1	+	8	3381	c.3234C>T	c.(3232-3234)CGC>CGT	p.R1078R		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1078					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		CTCTGAGTCGCGTGGGCTCTG	0.592													10	27					0	0	0.008291	0	0		T	223177973	T	T	223177973	2	4	4	1	0	0	0	0	0	0	0	1	4545	755	27	1		1	DISP1	1	223177973	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	279107	223177973	26072648	349	2315											
DISP1	84976	broad.mit.edu	37	chr1	223178672	223178672	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtccagatccaaaacggCgtggcacctctgaaggccac	10	8	10	13	2	1	2	0	1	1	1	3	2	3	2	4	3	1	1	4	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:223178672C>T	uc001hnu.1	+	8	4080	c.3933C>T	c.(3931-3933)GGC>GGT	p.G1311G		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1311					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TCCAAAACGGCGTGGCACCTC	0.577													6	83					0	0	0.001168	0	0		T	223178672	T	T	223178672	2	4	4	1	0	0	0	0	0	0	0	1	4545	755	27	1		1	DISP1	1	223178672	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	699	223178672	26071949	350	2316											
CAPN2	824	broad.mit.edu	37	chr1	223933116	223933116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggagcgagttctggagcGccctgctggagaaggcatac	10	6	16	9	2	1	1	0	0	1	1	1	5	1	3	1	4	4	3	1	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:223933116G>A	uc001hob.3	+	4	759	c.535G>A	c.(535-537)GCC>ACC	p.A179T	CAPN2_uc010puy.1_Missense_Mutation_p.A101T	NM_001748	NP_001739	P17655	CAN2_HUMAN	calpain 2 isoform 1	179	Calpain catalytic.				proteolysis	cytoplasm|plasma membrane				lung(3)|breast(1)|skin(1)	5				GBM - Glioblastoma multiforme(131;0.109)		GTTCTGGAGCGCCCTGCTGGA	0.562													9	38					0	0	0.001368	0	0		A	223933116	A	A	223933116	3	1	4	1	0	0	0	0	1	0	0	0	2630	1087	38	1	556	1	CAPN2	1	223933116	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	754444	223933116	25317505	351	2317											
EPHX1	2052	broad.mit.edu	37	chr1	226016576	226016576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggaggacgacagcatccGccctttcaaggtggaaacgt	11	6	13	11	3	1	0	1	0	0	0	2	4	2	3	2	4	2	1	2	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:226016576G>A	uc001hpk.2	+	2	226	c.146G>A	c.(145-147)CGC>CAC	p.R49H	EPHX1_uc001hpl.2_Missense_Mutation_p.R49H	NM_001136018	NP_001129490	P07099	HYEP_HUMAN	epoxide hydrolase 1	49					aromatic compound catabolic process|response to toxin	endoplasmic reticulum membrane|integral to membrane|microsome	cis-stilbene-oxide hydrolase activity|epoxide hydrolase activity			ovary(3)|lung(1)	4	Breast(184;0.197)					GACAGCATCCGCCCTTTCAAG	0.612													3	6					0	0	0.004672	0	0		A	226016576	A	A	226016576	3	1	4	1	0	0	0	0	1	0	0	0	5187	1087	38	1	148	1	EPHX1	1	226016576	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2083460	226016576	23234045	352	2318											
H3F3A	3020	broad.mit.edu	37	chr1	226253372	226253372	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaaggcctggtactgtggcGctccgtgaaattagacgtta	10	11	12	8	3	0	2	0	1	0	1	1	2	1	2	2	3	1	3	2	3	6	4	rs143861201		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:226253372G>A	uc001hpw.2	+	3	259	c.144G>A	c.(142-144)GCG>GCA	p.A48A	H3F3A_uc010pvl.1_Silent_p.A48A	NM_005324	NP_005315	P84243	H33_HUMAN	H3 histone, family 3B	48					blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding				0	Breast(184;0.179)			GBM - Glioblastoma multiforme(131;0.203)		GTACTGTGGCGCTCCGTGAAA	0.403													9	33					0	0	0.000978	0	0		A	226253372	A	A	226253372	2	1	4	1	0	0	0	0	0	0	0	1	6949	1074	38	1		1	H3F3A	1	226253372	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	236796	226253372	22997249	353	2319											
PARP1	142	broad.mit.edu	37	chr1	226576444	226576444	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactccatccacctcatcGccttttctctttctgaagga	7	14	4	16	1	3	1	1	1	2	0	8	2	6	2	5	1	0	0	5	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:226576444G>A	uc001hqd.3	-	5	801	c.630C>T	c.(628-630)GGC>GGT	p.G210G		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	210					cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		CCACCTCATCGCCTTTTCTCT	0.428								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					42	104					0	0	0.00361	0	0		A	226576444	A	A	226576444	2	1	4	1	0	0	0	0	0	0	0	1	11473	1074	38	1		1	PARP1	1	226576444	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	323072	226576444	22674177	354	2320											
ITPKB	3707	broad.mit.edu	37	chr1	226923286	226923286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagttggggtccagggtgCgctcagggtcactggagatg	6	9	18	8	1	2	2	2	1	0	1	3	3	3	2	1	5	1	2	1	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:226923286C>T	uc010pvo.1	-	2	2214	c.1874G>A	c.(1873-1875)CGC>CAC	p.R625H	ITPKB_uc001hqh.2_Missense_Mutation_p.R625H	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	625							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				GTCCAGGGTGCGCTCAGGGTC	0.557													6	77					0	0	0.001984	0	0		T	226923286	T	T	226923286	3	4	4	1	0	0	0	0	1	0	0	0	7934	768	27	1	994	1	ITPKB	1	226923286	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	346842	226923286	22327335	355	2321											
OBSCN	84033	broad.mit.edu	37	chr1	228461716	228461716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctacagctgccgtgtgggcGcagaggggcaggacttccca	7	7	15	12	2	1	1	0	0	1	1	2	2	2	2	2	4	3	3	2	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:228461716G>A	uc009xez.1	+	18	5427	c.5383G>A	c.(5383-5385)GCA>ACA	p.A1795T	OBSCN_uc001hsn.2_Missense_Mutation_p.A1795T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1795	Fibronectin type-III 2.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCGTGTGGGCGCAGAGGGGCA	0.682													3	5					0	0	0.009096	0	0		A	228461716	A	A	228461716	3	1	4	1	0	0	0	0	1	0	0	0	10831	1087	38	1	5449	1	OBSCN	1	228461716	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1538430	228461716	20788905	356	2322											
OBSCN	84033	broad.mit.edu	37	chr1	228467553	228467553	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctcacacggccgttggaGcccaagacagggcgtgagct	8	6	14	13	3	1	2	1	1	0	1	2	3	2	3	3	3	2	2	3	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:228467553G>A	uc009xez.1	+	28	7472	c.7428G>A	c.(7426-7428)GAG>GAA	p.E2476E	OBSCN_uc001hsn.2_Silent_p.E2476E|OBSCN_uc001hsp.1_Silent_p.E175E|OBSCN_uc001hsq.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2476	Ig-like 24.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGCCGTTGGAGCCCAAGACAG	0.652													3	3					0	0	0.004672	0	0		A	228467553	A	A	228467553	2	1	4	1	0	0	0	0	0	0	0	1	10831	962	34	2		2	OBSCN	1	228467553	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5837	228467553	20783068	357	2323											
OBSCN	84033	broad.mit.edu	37	chr1	228506834	228506834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacggccgatgagctggcccGcactggagatgctgacctct	7	7	13	14	3	1	3	0	2	1	1	1	5	1	3	3	3	2	3	3	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:228506834G>A	uc009xez.1	+	54	14425	c.14381G>A	c.(14380-14382)CGC>CAC	p.R4794H	OBSCN_uc001hsn.2_Missense_Mutation_p.R4794H	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4794					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GAGCTGGCCCGCACTGGAGAT	0.652													10	6					0	0	0.008291	0	0		A	228506834	A	A	228506834	3	1	4	1	0	0	0	0	1	0	0	0	10831	1087	38	1	14591	1	OBSCN	1	228506834	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	39281	228506834	20743787	358	2324											
HIST3H2A	92815	broad.mit.edu	37	chr1	228645350	228645350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatctcggcagtcaagtactCgagcaccgcggccagataga	11	6	12	12	4	2	2	1	0	1	2	4	4	2	2	2	2	2	3	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:228645350C>T	uc001hsy.2	-	1	211	c.169G>A	c.(169-171)GAG>AAG	p.E57K	HIST3H2BB_uc001hsz.2_5'Flank	NM_033445	NP_254280	Q7L7L0	H2A3_HUMAN	histone cluster 3, H2a	57					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)	1		Prostate(94;0.183)				GTCAAGTACTCGAGCACCGCG	0.687													4	33					0	0	0.000602	0	0		T	228645350	T	T	228645350	3	4	4	1	0	0	0	0	1	0	0	0	7198	893	31	1	227	1	HIST3H2A	1	228645350	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	138516	228645350	20605271	359	2325											
C1orf96	126731	broad.mit.edu	37	chr1	229462504	229462504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcgtgcacaggagcggacGcacagacgttgtgagtcttc	8	8	13	12	4	1	2	0	1	1	1	3	4	1	4	1	2	2	3	1	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:229462504G>A	uc001htl.3	-	3	695	c.617C>T	c.(616-618)GCG>GTG	p.A206V	C1orf96_uc009xfc.2_RNA	NM_145257	NP_660300	Q6IQ19	CA096_HUMAN	hypothetical protein LOC126731	206						centrosome					0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.178)				AGGAGCGGACGCACAGACGTT	0.532													6	70					0	0	0.001984	0	0		A	229462504	A	A	229462504	3	1	4	1	0	0	0	0	1	0	0	0	2076	1087	38	1	203	1	C1orf96	1	229462504	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	817154	229462504	19788117	360	2326											
ACTA1	58	broad.mit.edu	37	chr1	229568586	229568586	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgctctgagcctcgtcGcccacgtaggaatctttctg	5	13	9	14	3	4	1	0	1	4	0	6	2	4	2	2	1	2	2	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:229568586G>A	uc001htm.2	-	3	276	c.171C>T	c.(169-171)GGC>GGT	p.G57G		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	57					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	GAGCCTCGTCGCCCACGTAGG	0.592													23	69					0	0	0.00333	0	0		A	229568586	A	A	229568586	2	1	4	1	0	0	0	0	0	0	0	1	191	1074	38	1		1	ACTA1	1	229568586	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	106082	229568586	19682035	361	2327											
ABCB10	23456	broad.mit.edu	37	chr1	229676376	229676376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaagaaaccagcccgggCgaatgcctctttccttgcta	10	9	8	14	2	1	1	0	0	1	1	3	2	3	1	5	1	4	1	5	1	4	3	rs143346649		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:229676376C>T	uc001htp.3	-	5	1223	c.1180G>A	c.(1180-1182)GCC>ACC	p.A394T		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	394	Mitochondrial intermembrane (Potential).|Mitochondrial matrix (Potential).|ABC transmembrane type-1.					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				CCAGCCCGGGCGAATGCCTCT	0.413													30	71					0	0	0.002096	0	0		T	229676376	T	T	229676376	3	4	4	1	0	0	0	0	1	0	0	0	41	768	27	1	1072	1	ABCB10	1	229676376	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	107790	229676376	19574245	362	2328											
TAF5L	27097	broad.mit.edu	37	chr1	229730363	229730363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtcctcgccagcagacGccaagtacttaccgttggga	8	8	12	13	3	0	1	0	0	0	1	2	2	1	2	4	2	3	4	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:229730363G>A	uc001htq.2	-	5	1617	c.1451C>T	c.(1450-1452)GCG>GTG	p.A484V		NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	484	WD 5.				histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				GCCAGCAGACGCCAAGTACTT	0.587													11	65					0	0	0.001855	0	0		A	229730363	A	A	229730363	3	1	4	1	0	0	0	0	1	0	0	0	15554	1087	38	1	322	1	TAF5L	1	229730363	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	53987	229730363	19520258	363	2329											
URB2	9816	broad.mit.edu	37	chr1	229771702	229771702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtttcgaaccaaaaaaGcccaggaggcgcttattcgt	13	8	10	10	3	0	1	0	0	0	1	2	3	0	2	2	2	2	2	2	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:229771702G>A	uc001hts.1	+	4	1478	c.1342G>A	c.(1342-1344)GCC>ACC	p.A448T	URB2_uc009xfd.1_Missense_Mutation_p.A448T	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	448						nucleolus				central_nervous_system(2)|ovary(1)	3						AACCAAAAAAGCCCAGGAGGC	0.493													30	79					0	0	0.007291	0	0		A	229771702	A	A	229771702	3	1	4	1	0	0	0	0	1	0	0	0	17051	971	34	2	1352	2	URB2	1	229771702	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	41339	229771702	19478919	364	2330											
URB2	9816	broad.mit.edu	37	chr1	229783427	229783427	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccctttggaccatctgaaGccgctggagtatggaagcgt	8	10	13	10	2	1	1	0	1	1	0	2	4	2	4	3	3	2	2	3	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:229783427G>T	uc001hts.1	+	7	4213	c.4077G>T	c.(4075-4077)AAG>AAT	p.K1359N	URB2_uc009xfd.1_Missense_Mutation_p.K1359N	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	1359						nucleolus				central_nervous_system(2)|ovary(1)	3						ACCATCTGAAGCCGCTGGAGT	0.607													17	47					3.51602e-12	3.80537e-12	0.008871	1	0		T	229783427	T	T	229783427	3	4	4	1	0	0	0	0	1	0	0	0	17051	962	34	5	4099	5	URB2	1	229783427	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11725	229783427	19467194	365	2331											
PGBD5	79605	broad.mit.edu	37	chr1	230492910	230492910	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacgccttcatctccgtcagCgtcacctccacccaggctcc	7	8	6	20	3	4	0	3	0	1	0	7	0	6	0	6	1	2	1	6	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:230492910C>T	uc010pwb.1	-	2	282	c.282G>A	c.(280-282)ACG>ACA	p.T94T	PGBD5_uc001htv.2_Silent_p.T193T	NM_024554	NP_078830	Q8N414	PGBD5_HUMAN	piggyBac transposable element derived 5	94						integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(184;0.0397)	Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;0.201)		TCTCCGTCAGCGTCACCTCCA	0.577													9	31					0	0	0.006214	0	0		T	230492910	T	T	230492910	2	4	4	1	0	0	0	0	0	0	0	1	11803	755	27	1		1	PGBD5	1	230492910	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	709483	230492910	18757711	366	2332											
CAPN9	10753	broad.mit.edu	37	chr1	230910313	230910313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctagttctccggagtggCgttctgttggtccagctgag	4	13	13	11	2	2	1	0	1	2	0	5	2	4	2	3	3	1	4	3	3	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:230910313C>T	uc001htz.1	+	8	1002	c.889C>T	c.(889-891)CGT>TGT	p.R297C	CAPN9_uc009xfg.1_Missense_Mutation_p.R234C|CAPN9_uc001hua.1_Intron	NM_006615	NP_006606	O14815	CAN9_HUMAN	calpain 9 isoform 1	297	Calpain catalytic.				digestion|proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)				TCCGGAGTGGCGTTCTGTTGG	0.498													12	47					0	0	0.001368	0	0		T	230910313	T	T	230910313	3	4	4	1	0	0	0	0	1	0	0	0	2635	768	27	1	919	1	CAPN9	1	230910313	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	417403	230910313	18340308	367	2333											
TTC13	79573	broad.mit.edu	37	chr1	231090101	231090101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcattgttgaaaaatgcCgtattgcttcatcatacaga	14	12	8	7	1	2	2	2	1	0	1	2	3	2	2	1	0	4	4	1	0	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:231090101C>T	uc001huf.3	-	4	522	c.491G>A	c.(490-492)CGG>CAG	p.R164Q	TTC13_uc009xfi.2_Missense_Mutation_p.R164Q|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Missense_Mutation_p.R164Q|TTC13_uc009xfk.1_Missense_Mutation_p.R107Q	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	164	TPR 1.						binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		TGAAAAATGCCGTATTGCTTC	0.303													7	30					0	0	0.001984	0	0		T	231090101	T	T	231090101	3	4	4	1	0	0	0	0	1	0	0	0	16706	652	23	1	2171	1	TTC13	1	231090101	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	179788	231090101	18160520	368	2334											
EXOC8	149371	broad.mit.edu	37	chr1	231471819	231471819	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcaatgatgatttctttgTaactgtgcaaggccccttgg	8	15	9	9	0	2	2	1	2	1	0	2	2	2	2	2	2	2	2	2	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:231471819T>C	uc001huq.2	-	1	1760	c.1673A>G	c.(1672-1674)TAC>TGC	p.Y558C		NM_175876	NP_787072	Q8IYI6	EXOC8_HUMAN	exocyst complex 84-kDa subunit	558					exocytosis|protein transport	growth cone|nucleus	protein binding			skin(1)	1	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				GATTTCTTTGTAACTGTGCAA	0.483													19	49					0	0	0.007413	0	0		C	231471819	C	C	231471819	3	2	4	1	0	0	0	0	1	0	0	0	5319	1638	57	3	508	3	EXOC8	1	231471819	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	381718	231471819	17778802	369	2335											
NID1	4811	broad.mit.edu	37	chr1	236228195	236228195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgtcgtagaagcggagcGccccactcagctccagggca	9	6	12	14	3	2	1	1	0	1	1	4	2	3	2	3	2	3	3	3	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:236228195G>A	uc001hxo.2	-	1	287	c.185C>T	c.(184-186)GCG>GTG	p.A62V	NID1_uc009xgd.2_Missense_Mutation_p.A62V|uc001hxp.1_Silent_p.A112A	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	62					cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	GAAGCGGAGCGCCCCACTCAG	0.597													5	6					0	0	0.00308	0	0		A	236228195	A	A	236228195	3	1	4	1	0	0	0	0	1	0	0	0	10433	1087	38	1	3638	1	NID1	1	236228195	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4756376	236228195	13022426	370	2336											
HEATR1	55127	broad.mit.edu	37	chr1	236721600	236721600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgctatgcacagcagcGcgcttcccaggacattcttc	7	10	8	16	2	2	0	0	0	2	0	4	1	3	1	2	1	4	4	2	1	1	4	rs143495736	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:236721600G>A	uc001hyd.1	-	36	5266	c.5141C>T	c.(5140-5142)GCG>GTG	p.A1714V	HEATR1_uc009xgh.1_Missense_Mutation_p.A876V	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1714					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			GCACAGCAGCGCGCTTCCCAG	0.562													9	58					0	0	0.004482	0	0		A	236721600	A	A	236721600	3	1	4	1	0	0	0	0	1	0	0	0	7043	1087	38	1	1333	1	HEATR1	1	236721600	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	493405	236721600	12529021	371	2337											
MTR	4548	broad.mit.edu	37	chr1	237054573	237054573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acattcacctgtacgcagagGctgctgtgccccaggctgca	8	8	11	14	1	1	1	1	0	0	1	1	1	1	1	3	2	4	6	3	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:237054573G>A	uc001hyi.3	+	29	3571	c.3148G>A	c.(3148-3150)GCT>ACT	p.A1050T	MTR_uc010pxw.1_Missense_Mutation_p.A643T|MTR_uc010pxx.1_Missense_Mutation_p.A999T|MTR_uc010pxy.1_Missense_Mutation_p.A904T	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	1050	AdoMet activation.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	GTACGCAGAGGCTGCTGTGCC	0.557													26	58					0	0	0.002836	0	0		A	237054573	A	A	237054573	3	1	4	1	0	0	0	0	1	0	0	0	9976	1203	42	2	3262	2	MTR	1	237054573	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	332973	237054573	12196048	372	2338											
RYR2	6262	broad.mit.edu	37	chr1	237664107	237664107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgagtgccccaagcatctCgttccgaattaatggacaac	11	10	8	12	2	2	1	0	1	2	0	4	3	3	2	3	1	3	2	3	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:237664107C>T	uc001hyl.1	+	21	2420	c.2300C>T	c.(2299-2301)TCG>TTG	p.S767L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	767	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CCAAGCATCTCGTTCCGAATT	0.408													74	147					0	0	0.00361	0	0		T	237664107	T	T	237664107	3	4	4	1	0	0	0	0	1	0	0	0	13794	893	31	1	2382	1	RYR2	1	237664107	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	609534	237664107	11586514	373	2339											
RYR2	6262	broad.mit.edu	37	chr1	237753955	237753955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctaggtgaccagaatagacGgcaccatagacagttcccca	13	6	10	12	1	0	4	0	1	0	3	1	4	1	4	4	2	0	3	4	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:237753955G>A	uc001hyl.1	+	31	3943	c.3823G>A	c.(3823-3825)GGC>AGC	p.G1275S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1275	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CAGAATAGACGGCACCATAGA	0.423													6	178					0	0	0.001168	0	0		A	237753955	A	A	237753955	3	1	4	1	0	0	0	0	1	0	0	0	13794	1116	39	1	3945	1	RYR2	1	237753955	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	89848	237753955	11496666	374	2340											
RYR2	6262	broad.mit.edu	37	chr1	237774245	237774245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctggttggtgcagtgtttgGatcctctgcagttcatgtct	4	16	13	8	0	3	0	1	0	2	0	4	1	4	1	1	3	2	6	1	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:237774245G>A	uc001hyl.1	+	36	4987	c.4867G>A	c.(4867-4869)GAT>AAT	p.D1623N		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1623	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GCAGTGTTTGGATCCTCTGCA	0.507													4	6					0	0	0.009096	0	0		A	237774245	A	A	237774245	3	1	4	1	0	0	0	0	1	0	0	0	13794	1174	41	4	5009	4	RYR2	1	237774245	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	20290	237774245	11476376	375	2341											
RYR2	6262	broad.mit.edu	37	chr1	237780631	237780631	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactgccaggtccggcacCggatagaagccattgtagcc	9	7	13	12	2	0	2	0	1	0	1	1	3	1	3	5	3	3	2	5	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:237780631C>G	uc001hyl.1	+	38	5881	c.5761C>G	c.(5761-5763)CGG>GGG	p.R1921G		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1921	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GGTCCGGCACCGGATAGAAGC	0.413													13	37					0	0	0.00245	0	0		G	237780631	G	G	237780631	3	3	4	1	0	0	0	0	1	0	0	0	13794	643	23	5	5911	5	RYR2	1	237780631	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6386	237780631	11469990	376	2342											
KMO	8564	broad.mit.edu	37	chr1	241695795	241695795	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagctgtcattggtggtggCttggtaagaattttcagatg	8	15	14	4	0	2	2	2	0	0	2	2	2	2	2	0	4	1	4	0	4	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:241695795C>A	uc009xgp.2	+	1	116	c.51C>A	c.(49-51)GGC>GGA	p.G17G	KMO_uc001hyy.2_Silent_p.G17G|KMO_uc009xgo.1_Silent_p.G17G	NM_003679	NP_003670	O15229	KMO_HUMAN	kynurenine 3-monooxygenase	17					pyridine nucleotide biosynthetic process|response to salt stress	cytosol|integral to membrane|mitochondrial outer membrane	electron carrier activity|flavin adenine dinucleotide binding|kynurenine 3-monooxygenase activity|NAD(P)H oxidase activity			ovary(2)	2	Ovarian(103;0.103)|all_lung(81;0.23)		OV - Ovarian serous cystadenocarcinoma(106;0.0176)			TTGGTGGTGGCTTGGTAAGAA	0.328													23	87					7.26314e-15	7.90183e-15	0.007291	1	0		A	241695795	A	A	241695795	2	1	4	1	0	0	0	0	0	0	0	1	8440	784	28	5		5	KMO	1	241695795	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3915164	241695795	7554826	377	2343											
ZNF238	10472	broad.mit.edu	37	chr1	244217659	244217659	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcctgggaacatgtggatgCgattgccctcagactcagca	10	8	12	11	1	2	1	2	0	0	1	2	4	2	3	2	2	5	1	2	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:244217659C>T	uc001iae.2	+	1	1078	c.556C>T	c.(556-558)CGA>TGA	p.R186*	ZNF238_uc001iad.3_Nonsense_Mutation_p.R195*|ZNF238_uc001iaf.1_Nonsense_Mutation_p.R186*	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	186				KLNILPSKRDLAAEPGNMWMRLPSDSAGIPQAGGEAEPHAT AAGKTVASPCSSTESLSQRSVTSVRDSADVDCVLDLSVKSS LSGVENLNSSYFSSQ -> IEHPAQQKGLGGRAWEHVDAIA LRLSRHPPGWRRGRATRHSSWKNSSQPLQLNRVFVPE (in Ref. 1; AAA81368).	negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			CATGTGGATGCGATTGCCCTC	0.572													4	32					0	0	0.001168	0	0		T	244217659	T	T	244217659	4	4	4	1	0	0	0	0	0	1	0	0	17815	760	27	1	589	1	ZNF238	1	244217659	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2521864	244217659	5032962	378	2344											
PPPDE1	51029	broad.mit.edu	37	chr1	244869074	244869074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggctccagacccgggCgccacactaaactataaatg	13	5	9	14	2	0	1	0	0	0	1	1	1	1	1	3	2	2	2	3	2	5	3	rs141603902		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:244869074C>T	uc001iao.2	+	5	832	c.568C>T	c.(568-570)CGC>TGC	p.R190C	PPPDE1_uc001iap.2_Missense_Mutation_p.R157C|PPPDE1_uc001iaq.1_RNA	NM_016076	NP_057160	Q9BSY9	PPDE1_HUMAN	PPPDE peptidase domain containing 1	190										breast(3)	3						CAGACCCGGGCGCCACACTAA	0.502													12	19					0	0	0.001368	0	0		T	244869074	T	T	244869074	3	4	4	1	0	0	0	0	1	0	0	0	12430	768	27	1	586	1	PPPDE1	1	244869074	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	651415	244869074	4381547	379	2345											
ZNF124	7678	broad.mit.edu	37	chr1	247320104	247320104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtttctgaagggaactggCgtatctgaaggctttcccac	8	12	12	9	1	2	2	0	2	2	0	3	3	3	3	1	3	1	3	1	3	4	3	rs139164874	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:247320104C>T	uc001ick.2	-	4	959	c.820G>A	c.(820-822)GCC>ACC	p.A274T	ZNF124_uc001ici.2_Intron|ZNF124_uc001icj.1_Missense_Mutation_p.A212T	NM_003431	NP_003422	Q15973	ZN124_HUMAN	zinc finger protein 124	274	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	all_cancers(71;5.07e-05)|all_epithelial(71;8.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00739)			AGGGAACTGGCGTATCTGAAG	0.433													10	103					0	0	0.000978	0	0		T	247320104	T	T	247320104	3	4	4	1	0	0	0	0	1	0	0	0	17745	768	27	1	239	1	ZNF124	1	247320104	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2451030	247320104	1930517	380	2346											
ZNF496	84838	broad.mit.edu	37	chr1	247492570	247492570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgctctcaggctcctgcGcccgcacccagctctggatc	4	8	9	20	3	2	0	1	0	2	0	6	1	4	1	4	2	2	4	4	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:247492570G>A	uc001ico.2	-	3	776	c.311C>T	c.(310-312)GCG>GTG	p.A104V	ZNF496_uc009xgv.2_Missense_Mutation_p.A104V|ZNF496_uc001icp.2_Missense_Mutation_p.A104V|ZNF496_uc010pyv.1_Missense_Mutation_p.A104V	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	104	SCAN box.				positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			AGGCTCCTGCGCCCGCACCCA	0.677													11	17					0	0	0.003163	0	0		A	247492570	A	A	247492570	3	1	4	1	0	0	0	0	1	0	0	0	17970	1087	38	1	1480	1	ZNF496	1	247492570	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	172466	247492570	1758051	381	2347											
ZNF496	84838	broad.mit.edu	37	chr1	247492680	247492680	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaggccgcagccagcccccGcacaggtcccagaggcgctg	7	3	13	18	3	1	1	1	0	0	1	2	1	2	1	5	3	2	3	5	3	0	0	rs140768491		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:247492680G>A	uc001ico.2	-	3	666	c.201C>T	c.(199-201)TGC>TGT	p.C67C	ZNF496_uc009xgv.2_Silent_p.C67C|ZNF496_uc001icp.2_Silent_p.C67C|ZNF496_uc010pyv.1_Silent_p.C67C	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	67	SCAN box.				positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			GCCAGCCCCCGCACAGGTCCC	0.697													5	19					0	0	0.001168	0	0		A	247492680	A	A	247492680	2	1	4	1	0	0	0	0	0	0	0	1	17970	1079	38	1		1	ZNF496	1	247492680	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	110	247492680	1757941	382	2348											
OR2W5	441932	broad.mit.edu	37	chr1	247654661	247654661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctttacagcaagcattGcccctcagctgctgtggaac	8	11	9	13	0	2	0	1	0	1	0	2	1	2	1	2	1	8	5	2	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:247654661G>A	uc001icz.1	+	1	232	c.232G>A	c.(232-234)GCC>ACC	p.A78T		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	78	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			AGCAAGCATTGCCCCTCAGCT	0.527													10	36					0	0	0.006214	0	0		A	247654661	A	A	247654661	3	1	4	1	0	0	0	0	1	0	0	0	11053	1319	46	2	234	2	OR2W5	1	247654661	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	161981	247654661	1595960	383	2349											
OR2G2	81470	broad.mit.edu	37	chr1	247752569	247752569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcaaggaggtgaaaggggCattaaagaaagttctagcaa	17	7	13	4	0	2	2	1	1	1	1	2	4	2	3	0	4	1	3	0	4	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:247752569C>T	uc010pyy.1	+	1	908	c.908C>T	c.(907-909)GCA>GTA	p.A303V		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			GTGAAAGGGGCATTAAAGAAA	0.358													5	96					0	0	0.000602	0	0		T	247752569	T	T	247752569	3	4	4	1	0	0	0	0	1	0	0	0	11017	710	25	2	910	2	OR2G2	1	247752569	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	97908	247752569	1498052	384	2350											
OR2M3	127062	broad.mit.edu	37	chr1	248366705	248366705	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcactgcttggctctgagtgCtttcttttggctgttatggc	3	18	11	9	0	3	1	1	1	2	0	3	1	3	1	0	3	2	5	0	3	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:248366705C>T	uc010pzg.1	+	1	336	c.336C>T	c.(334-336)TGC>TGT	p.C112C		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GCTCTGAGTGCTTTCTTTTGG	0.453													12	191					0	0	0.003163	0	0		T	248366705	T	T	248366705	2	4	4	1	0	0	0	0	0	0	0	1	11030	805	28	2		2	OR2M3	1	248366705	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	614136	248366705	883916	385	2351											
OR2T4	127074	broad.mit.edu	37	chr1	248525590	248525590	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcatgtacttgtgctgtgtCctcatgctcctcatccctgt	4	17	7	13	0	3	0	3	0	0	0	6	0	6	0	3	0	3	3	3	0	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:248525590C>T	uc001ieh.1	+	1	708	c.708C>T	c.(706-708)GTC>GTT	p.V236V		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	236	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGTGCTGTGTCCTCATGCTCC	0.483													8	139					0	0	0.00308	0	0		T	248525590	T	T	248525590	2	4	4	1	0	0	0	0	0	0	0	1	11046	842	30	4		4	OR2T4	1	248525590	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	158885	248525590	725031	386	2352											
SH3BP5L	80851	broad.mit.edu	37	chr1	249108714	249108714	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggttcttgtcagccatgacGccctgctcagccacaaacac	9	8	8	16	2	3	1	2	1	1	0	3	1	3	1	3	1	4	2	3	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:249108714G>A	uc001iew.1	-	5	1023	c.471C>T	c.(469-471)GGC>GGT	p.G157G	SH3BP5L_uc010pzp.1_Silent_p.G50G|SH3BP5L_uc010pzq.1_Silent_p.G125G|SH3BP5L_uc001iev.1_Silent_p.G38G	NM_030645	NP_085148	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	157											0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			CAGCCATGACGCCCTGCTCAG	0.627													5	17					0	0	0.001168	0	0		A	249108714	A	A	249108714	2	1	4	1	0	0	0	0	0	0	0	1	14273	1074	38	1		1	SH3BP5L	1	249108714	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	583124	249108714	141907	387	2353											
TPO	7173	broad.mit.edu	37	chr2	1497645	1497645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacctgagcacagccatcGccagcaggagcgtggccgac	9	4	13	15	3	0	2	0	2	0	0	1	4	0	3	4	2	4	2	4	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:1497645G>A	uc002qww.2	+	11	1931	c.1840G>A	c.(1840-1842)GCC>ACC	p.A614T	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.A557T|TPO_uc002qwr.2_Missense_Mutation_p.A614T|TPO_uc002qwx.2_Missense_Mutation_p.A557T|TPO_uc010yio.1_Missense_Mutation_p.A441T|TPO_uc010yip.1_Missense_Mutation_p.A614T|TPO_uc002qwy.1_5'UTR|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	614	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CACAGCCATCGCCAGCAGGAG	0.602													10	41					0	0	0.001855	0	0		A	1497645	A	A	1497645	3	1	4	1	0	0	0	0	1	0	0	0	16436	1087	38	1	1878	1	TPO	2	1497645	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08		1497645	241701728	388	2354											
TPO	7173	broad.mit.edu	37	chr2	1507808	1507808	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcggcttccagtgtctctgCgcggacccctacgagttagg	5	9	14	13	4	1	0	0	0	1	0	3	2	2	1	3	4	2	2	3	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:1507808C>T	uc002qww.2	+	14	2566	c.2475C>T	c.(2473-2475)TGC>TGT	p.C825C	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Silent_p.C768C|TPO_uc002qwr.2_Silent_p.C825C|TPO_uc002qwx.2_Silent_p.C768C|TPO_uc010yio.1_Silent_p.C652C|TPO_uc010yip.1_Intron|TPO_uc002qwy.1_Intron|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	825	Extracellular (Potential).|EGF-like; calcium-binding (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	AGTGTCTCTGCGCGGACCCCT	0.577													9	29					0	0	0.006214	0	0		T	1507808	T	T	1507808	2	4	4	1	0	0	0	0	0	0	0	1	16436	776	27	1		1	TPO	2	1507808	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10163	1507808	241691565	389	2355											
PXDN	7837	broad.mit.edu	37	chr2	1652167	1652167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagctgcgagggcacacGcattttccccgccaccccga	8	5	10	18	4	0	0	0	0	0	0	1	2	1	0	5	1	3	4	5	1	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:1652167G>A	uc002qxa.2	-	17	3449	c.3385C>T	c.(3385-3387)CGT>TGT	p.R1129C		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1129					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GAGGGCACACGCATTTTCCCC	0.627													4	16					0	0	0.000602	0	0		A	1652167	A	A	1652167	3	1	4	1	0	0	0	0	1	0	0	0	12872	1087	38	1	1082	1	PXDN	2	1652167	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	144359	1652167	241547206	390	2356											
MYT1L	23040	broad.mit.edu	37	chr2	1855433	1855433	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgatgagaagcataattGccggtgatatgtccagaacc	12	9	10	10	2	0	3	0	2	0	2	2	5	2	3	4	1	3	1	4	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:1855433G>A	uc002qxe.2	-	19	3581	c.2754C>T	c.(2752-2754)GGC>GGT	p.G918G	MYT1L_uc002qxd.2_Silent_p.G916G	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	918	C2HC-type 4.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		AAGCATAATTGCCGGTGATAT	0.423													27	95					0	0	0.002836	0	0		A	1855433	A	A	1855433	2	1	4	1	0	0	0	0	0	0	0	1	10125	1306	46	2		2	MYT1L	2	1855433	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	203266	1855433	241343940	391	2357											
TSSC1	7260	broad.mit.edu	37	chr2	3197897	3197897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggattaaagtcaaggtcccGcaccagctgtccgtgggcat	9	8	13	11	2	1	0	1	0	0	0	3	1	3	1	3	3	1	3	3	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:3197897G>A	uc002qxj.2	-	7	887	c.694C>T	c.(694-696)CGG>TGG	p.R232W	TSSC1_uc002qxi.2_RNA	NM_003310	NP_003301	Q53HC9	TSSC1_HUMAN	tumor suppressing subtransferable candidate 1	232	WD 3.						protein binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.212)		OV - Ovarian serous cystadenocarcinoma(76;0.00877)|Epithelial(75;0.0283)|all cancers(51;0.0464)		TCAAGGTCCCGCACCAGCTGT	0.502													6	87					0	0	0.001984	0	0		A	3197897	A	A	3197897	3	1	4	1	0	0	0	0	1	0	0	0	16692	1086	38	1	481	1	TSSC1	2	3197897	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1342464	3197897	240001476	392	2358											
TTC15	51112	broad.mit.edu	37	chr2	3469366	3469366	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttgggtttttcttcccacAggattatgtgctggccgtgg	4	15	13	9	2	1	0	0	0	1	0	2	1	2	1	2	4	1	3	2	4	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:3469366A>C	uc002qxm.1	+	9	1884	c.1678_splice	c.e9-2	p.D560_splice	TTC15_uc002qxn.1_Splice_Site_p.D560_splice|TTC15_uc010ewm.1_Splice_Site_p.D566_splice	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15								binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		TTCTTCCCACAGGATTATGTG	0.522													4	68					0	0	0.001168	0	0		C	3469366	C	C	3469366	5	2	4	1	0	0	0	0	0	0	1	0	16708	202	7	5	1706	5	TTC15	2	3469366	Splice_Site	SNP	A	TCGA-BR-4184-01A-01D-1126-08	271469	3469366	239730007	393	2359											
TTC15	51112	broad.mit.edu	37	chr2	3482617	3482617	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccgttgcttgtgttacagCgcgttccttcacctcgggca	5	12	10	14	4	1	0	1	0	0	0	3	0	2	0	3	1	3	5	3	1	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:3482617C>T	uc002qxm.1	+	11	2084	c.1878C>T	c.(1876-1878)AGC>AGT	p.S626S	TTC15_uc002qxn.1_Silent_p.S626S|TTC15_uc010ewm.1_Silent_p.S632S	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15	626	TPR 3.						binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		TGTGTTACAGCGCGTTCCTTC	0.547													9	34					0	0	0.006214	0	0		T	3482617	T	T	3482617	2	4	4	1	0	0	0	0	0	0	0	1	16708	782	27	1		1	TTC15	2	3482617	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	13251	3482617	239716756	394	2360											
KIDINS220	57498	broad.mit.edu	37	chr2	8871355	8871355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaagctgggagtcatccGccacttcattgtgcagagag	9	11	11	10	1	3	1	3	0	0	1	4	3	4	2	2	1	2	2	2	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:8871355G>A	uc002qzc.2	-	30	4993	c.4811C>T	c.(4810-4812)GCG>GTG	p.A1604V	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Missense_Mutation_p.A1505V|KIDINS220_uc002qzb.2_Missense_Mutation_p.A458V	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1604	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GGAGTCATCCGCCACTTCATT	0.488													14	26					0	0	0.003163	0	0		A	8871355	A	A	8871355	3	1	4	1	0	0	0	0	1	0	0	0	8287	1087	38	1	508	1	KIDINS220	2	8871355	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5388738	8871355	234328018	395	2361											
KIDINS220	57498	broad.mit.edu	37	chr2	8890383	8890383	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggctgtaccctgatggCgccctaggaggaccctcatg	6	8	14	13	1	1	1	1	1	0	0	1	3	1	3	3	5	1	3	3	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:8890383C>T	uc002qzc.2	-	24	3455	c.3273G>A	c.(3271-3273)GCG>GCA	p.A1091A	KIDINS220_uc010yiv.1_Silent_p.A857A|KIDINS220_uc002qzd.2_Silent_p.A1049A|KIDINS220_uc010yiw.1_Silent_p.A1092A|KIDINS220_uc002qzb.2_5'UTR|KIDINS220_uc002qze.2_Silent_p.A96A	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1091	Mediates interaction with CRKL (By similarity).|Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					ACCCTGATGGCGCCCTAGGAG	0.577													14	43					0	0	0.00245	0	0		T	8890383	T	T	8890383	2	4	4	1	0	0	0	0	0	0	0	1	8287	755	27	1		1	KIDINS220	2	8890383	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	19028	8890383	234308990	396	2362											
ASAP2	8853	broad.mit.edu	37	chr2	9437489	9437489	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagtttggcggcaactgtgTatgcagagatgacccagatt	11	10	13	7	1	0	3	0	1	0	2	0	5	0	3	1	2	2	4	1	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:9437489T>C	uc002qzh.2	+	3	600	c.260T>C	c.(259-261)GTA>GCA	p.V87A	ASAP2_uc002qzi.2_Missense_Mutation_p.V87A	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	87					regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						GGCAACTGTGTATGCAGAGAT	0.488													5	64					0	0	0.001168	0	0		C	9437489	C	C	9437489	3	2	4	1	0	0	0	0	1	0	0	0	1012	1638	57	3	270	3	ASAP2	2	9437489	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	547106	9437489	233761884	397	2363											
ITGB1BP1	9270	broad.mit.edu	37	chr2	9548269	9548269	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgatgttgatacttttatGccatacttggaaactcccat	10	16	6	9	0	1	2	0	2	1	0	2	3	2	3	2	1	4	1	2	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:9548269G>A	uc002qzj.2	-	5	531	c.354C>T	c.(352-354)GGC>GGT	p.G118G	ITGB1BP1_uc002qzk.2_Silent_p.G118G|ITGB1BP1_uc002qzl.2_RNA|ITGB1BP1_uc002qzm.2_RNA|ITGB1BP1_uc010yiy.1_Silent_p.G74G|ITGB1BP1_uc002qzn.1_Silent_p.G118G	NM_004763	NP_004754	O14713	ITBP1_HUMAN	integrin cytoplasmic domain-associated protein 1	118	PID.				cell migration|cell-matrix adhesion|intracellular protein kinase cascade	cytosol|lamellipodium|membrane|ruffle	protein binding|protein binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.23)		ATACTTTTATGCCATACTTGG	0.308													10	55					0	0	0.001368	0	0		A	9548269	A	A	9548269	2	1	4	1	0	0	0	0	0	0	0	1	7907	1306	46	2		2	ITGB1BP1	2	9548269	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	110780	9548269	233651104	398	2364											
CPSF3	51692	broad.mit.edu	37	chr2	9572738	9572738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatgaagttaaggaagttgCgggaatcaagttttggtgtt	11	14	13	3	1	2	1	2	1	0	0	2	3	2	3	0	3	1	4	0	3	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:9572738C>T	uc002qzo.1	+	5	475	c.440C>T	c.(439-441)GCG>GTG	p.A147V	CPSF3_uc010ewx.1_Missense_Mutation_p.A147V|CPSF3_uc002qzp.1_Missense_Mutation_p.A110V	NM_016207	NP_057291	Q9UKF6	CPSF3_HUMAN	cleavage and polyadenylation specific factor 3,	147					histone mRNA 3'-end processing|mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex|ribonucleoprotein complex	5'-3' exonuclease activity|endoribonuclease activity|metal ion binding|protein binding|RNA binding			breast(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;2.39e-25)|all_epithelial(98;8.75e-19)|Lung NSC(108;2.38e-06)|Ovarian(717;0.0308)		all cancers(51;2.2e-40)|Epithelial(75;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(76;4.35e-21)|STAD - Stomach adenocarcinoma(1183;0.00644)		AAGGAAGTTGCGGGAATCAAG	0.463													4	47					0	0	0.001168	0	0		T	9572738	T	T	9572738	3	4	4	1	0	0	0	0	1	0	0	0	3829	768	27	1	458	1	CPSF3	2	9572738	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24469	9572738	233626635	399	2365											
IAH1	285148	broad.mit.edu	37	chr2	9624576	9624576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataggttgcaaactaaatcGcctgaactctgttgttggtg	11	13	10	7	1	1	1	0	1	1	0	2	1	1	1	1	2	3	4	1	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:9624576G>A	uc002qzr.2	+	5	487	c.461G>A	c.(460-462)CGC>CAC	p.R154H	IAH1_uc002qzs.2_Missense_Mutation_p.R41H|IAH1_uc002qzt.2_Missense_Mutation_p.R41H|IAH1_uc010yiz.1_RNA	NM_001039613	NP_001034702	Q2TAA2	IAH1_HUMAN	isoamyl acetate-hydrolyzing esterase 1 homolog	154					lipid catabolic process		hydrolase activity, acting on ester bonds				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					AAACTAAATCGCCTGAACTCT	0.483													19	72					0	0	0.001882	0	0		A	9624576	A	A	9624576	3	1	4	1	0	0	0	0	1	0	0	0	7487	1087	38	1	479	1	IAH1	2	9624576	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	51838	9624576	233574797	400	2366											
ADAM17	6868	broad.mit.edu	37	chr2	9634874	9634874	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaaaggtccctgcagcaCaccttgcaggagttgtcagt	10	8	11	12	0	1	1	1	0	0	1	2	2	2	2	3	2	3	4	3	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:9634874C>G	uc002qzu.2	-	15	1989	c.1806G>C	c.(1804-1806)GTG>GTC	p.V602V	IAH1_uc010yiz.1_RNA|ADAM17_uc010ewy.2_Silent_p.V602V|ADAM17_uc010ewz.2_Intron	NM_003183	NP_003174	P78536	ADA17_HUMAN	a disintegrin and metalloprotease domain 17	602	Extracellular (Potential).|Cys-rich.				B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			lung(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)		CCCTGCAGCACACCTTGCAGG	0.502													4	75					0	0	0.000602	0	0		G	9634874	G	G	9634874	2	3	4	1	0	0	0	0	0	0	0	1	238	465	17	5		5	ADAM17	2	9634874	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10298	9634874	233564499	401	2367											
YWHAQ	10971	broad.mit.edu	37	chr2	9728312	9728312	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgttttagccagcgtgcaGgcaagctctgggttattaag	9	11	12	9	2	1	0	0	0	1	0	1	0	1	0	2	2	4	5	2	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:9728312G>A	uc002qzw.2	-	3	728	c.564C>T	c.(562-564)GCC>GCT	p.A188A	YWHAQ_uc002qzx.2_Silent_p.A188A	NM_006826	NP_006817	P27348	1433T_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	188					negative regulation of transcription, DNA-dependent	centrosome|nucleus	protein N-terminus binding			breast(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.241)		CCAGCGTGCAGGCAAGCTCTG	0.398													17	55					0	0	0.001882	0	0		A	9728312	A	A	9728312	2	1	4	1	0	0	0	0	0	0	0	1	17531	987	35	4		4	YWHAQ	2	9728312	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	93438	9728312	233471061	402	2368											
TAF1B	9014	broad.mit.edu	37	chr2	10050891	10050891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatagcttaacttgccacGtggtaaaaatgactggaatg	13	11	10	7	1	0	1	0	1	0	0	0	2	0	2	1	2	4	3	1	2	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:10050891G>A	uc002qzz.2	+	10	1082	c.982G>A	c.(982-984)GTG>ATG	p.V328M	TAF1B_uc010exc.2_Missense_Mutation_p.V328M|TAF1B_uc002qzy.3_Missense_Mutation_p.V328M|TAF1B_uc010yja.1_Missense_Mutation_p.V73M|TAF1B_uc010exd.2_Missense_Mutation_p.V73M	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	328					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					AACTTGCCACGTGGTAAAAAT	0.343													19	60					0	0	0.001882	0	0		A	10050891	A	A	10050891	3	1	4	1	0	0	0	0	1	0	0	0	15545	1145	40	1	1020	1	TAF1B	2	10050891	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	322579	10050891	233148482	403	2369											
ODC1	4953	broad.mit.edu	37	chr2	10581770	10581770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatttcaggcaggtcacagCgctcaacaatccgatcgagg	11	7	11	12	3	3	0	3	0	0	0	5	2	4	0	1	3	2	3	1	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:10581770C>T	uc010exg.1	-	11	1540	c.1106G>A	c.(1105-1107)CGC>CAC	p.R369H	ODC1_uc002ran.1_Missense_Mutation_p.R55H|ODC1_uc002rao.1_Missense_Mutation_p.R369H|ODC1_uc010yjd.1_Missense_Mutation_p.R239H	NM_002539	NP_002530	P11926	DCOR_HUMAN	ornithine decarboxylase 1	369					polyamine biosynthetic process|regulation of cellular amino acid metabolic process|response to virus	cytosol	ornithine decarboxylase activity|protein binding			ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.161)	Pyridoxal Phosphate(DB00114)|Spermine(DB00127)	CAGGTCACAGCGCTCAACAAT	0.478													26	52					0	0	0.004656	0	0		T	10581770	T	T	10581770	3	4	4	1	0	0	0	0	1	0	0	0	10844	768	27	1	287	1	ODC1	2	10581770	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	530879	10581770	232617603	404	2370											
KCNF1	3754	broad.mit.edu	37	chr2	11053250	11053250	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggcgtgcattggctggtTcaccctggagtacctgctgc	5	10	14	12	2	1	0	1	0	0	0	1	2	1	1	2	4	4	5	2	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:11053250T>C	uc002rax.2	+	1	1188	c.698T>C	c.(697-699)TTC>TCC	p.F233S		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	233	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		ATTGGCTGGTTCACCCTGGAG	0.632													6	18					0	0	0.00308	0	0		C	11053250	C	C	11053250	3	2	4	1	0	0	0	0	1	0	0	0	8042	1783	62	3	700	3	KCNF1	2	11053250	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	471480	11053250	232146123	405	2371											
KCNF1	3754	broad.mit.edu	37	chr2	11053818	11053818	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcgtcctggagaccgcGgccaagcacgagctggagct	8	4	15	14	5	0	1	0	0	0	1	1	4	1	2	3	3	4	3	3	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:11053818G>A	uc002rax.2	+	1	1756	c.1266G>A	c.(1264-1266)GCG>GCA	p.A422A		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	422	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		TGGAGACCGCGGCCAAGCACG	0.617													5	10					0	0	0.001168	0	0		A	11053818	A	A	11053818	2	1	4	1	0	0	0	0	0	0	0	1	8042	1103	39	1		1	KCNF1	2	11053818	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	568	11053818	232145555	406	2372											
LPIN1	23175	broad.mit.edu	37	chr2	11924028	11924028	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacatggatcctgaagtggcGgccctgtattttcccaaaaa	11	10	10	10	1	0	1	0	1	0	0	2	3	2	2	3	3	0	1	3	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:11924028G>A	uc010yjn.1	+	9	1504	c.1230G>A	c.(1228-1230)GCG>GCA	p.A410A	LPIN1_uc010yjm.1_Silent_p.A495A|LPIN1_uc002rbt.2_Silent_p.A410A|LPIN1_uc002rbs.2_Silent_p.A446A	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	410					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		CTGAAGTGGCGGCCCTGTATT	0.428													41	134					0	0	0.00361	0	0		A	11924028	A	A	11924028	2	1	4	1	0	0	0	0	0	0	0	1	8936	1103	39	1		1	LPIN1	2	11924028	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	870210	11924028	231275345	407	2373											
NBAS	51594	broad.mit.edu	37	chr2	15696925	15696925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtaccagatgtattggCgtaaaaataataaacgatct	16	11	7	7	2	1	1	0	0	1	1	1	2	1	1	2	1	2	3	2	1	8	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:15696925C>T	uc002rcc.1	-	3	217	c.191G>A	c.(190-192)CGC>CAC	p.R64H	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	64										ovary(2)|liver(1)|skin(1)	4						GATGTATTGGCGTAAAAATAA	0.279													15	70					0	0	0.008871	0	0		T	15696925	T	T	15696925	3	4	4	1	0	0	0	0	1	0	0	0	10204	768	27	1	7124	1	NBAS	2	15696925	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3772897	15696925	227502448	408	2374											
NT5C1B	93034	broad.mit.edu	37	chr2	18764161	18764161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgacgctgtttataagccGcactcccacttgggcatggt	8	12	10	11	2	0	1	0	1	0	0	1	1	1	1	2	2	1	4	2	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:18764161G>A	uc002rcz.2	-	7	1278	c.1174C>T	c.(1174-1176)CGG>TGG	p.R392W	NT5C1B_uc002rcy.2_Missense_Mutation_p.R392W|NT5C1B_uc010exr.2_Missense_Mutation_p.R334W|NT5C1B_uc010yju.1_Missense_Mutation_p.R332W|NT5C1B_uc002rda.2_Missense_Mutation_p.R332W|NT5C1B_uc010yjv.1_Missense_Mutation_p.R409W|NT5C1B_uc010yjw.1_Missense_Mutation_p.R375W|NT5C1B_uc010exs.2_Missense_Mutation_p.R394W	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	392					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				TTTATAAGCCGCACTCCCACT	0.408													16	48					0	0	0.008871	0	0		A	18764161	A	A	18764161	3	1	4	1	0	0	0	0	1	0	0	0	10705	1086	38	1	674	1	NT5C1B	2	18764161	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3067236	18764161	224435212	409	2375											
OSR1	130497	broad.mit.edu	37	chr2	19552979	19552979	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagggccgctcgtcggtgtgCgtccgctcatggataagtag	6	10	15	10	5	1	0	1	0	0	0	4	1	2	1	2	3	1	3	2	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:19552979C>T	uc002rdc.2	-	2	891	c.588G>A	c.(586-588)ACG>ACA	p.T196T		NM_145260	NP_660303	Q8TAX0	OSR1_HUMAN	odd-skipped related 1	196	C2H2-type 1.				chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|heart development|mesangial cell development|mesonephric duct morphogenesis|metanephric cap mesenchymal cell proliferation involved in metanephros development|metanephric glomerulus vasculature development|metanephric interstitial cell development|metanephric mesenchymal cell differentiation|metanephric nephron tubule development|metanephric smooth muscle tissue development|middle ear morphogenesis|negative regulation of apoptosis|negative regulation of nephron tubule epithelial cell differentiation|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|pattern specification involved in metanephros development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of gastrulation|positive regulation of transcription from RNA polymerase II promoter|pronephros development|renal vesicle progenitor cell differentiation|specification of anterior mesonephric tubule identity|specification of posterior mesonephric tubule identity|stem cell differentiation|transcription, DNA-dependent|ureter urothelium development|ureteric bud development	nucleolus	nucleic acid binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	Acute lymphoblastic leukemia(84;0.221)				CGTCGGTGTGCGTCCGCTCAT	0.592													15	32					0	0	0.006122	0	0		T	19552979	T	T	19552979	2	4	4	1	0	0	0	0	0	0	0	1	11312	755	27	1		1	OSR1	2	19552979	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	788818	19552979	223646394	410	2376											
WDR35	57539	broad.mit.edu	37	chr2	20113444	20113444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gattgggcttcctgtggcaaCgcatgttggcagtttccctt	5	14	12	10	1	0	0	0	0	0	0	2	1	2	0	2	3	1	6	2	3	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:20113444C>T	uc002rdi.2	-	28	3529	c.3421G>A	c.(3421-3423)GTT>ATT	p.V1141I	WDR35_uc002rdj.2_Missense_Mutation_p.V1130I|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Silent_p.A533A	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	1141										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCTGTGGCAACGCATGTTGGC	0.408													8	96					0	0	0.006214	0	0		T	20113444	T	T	20113444	3	4	4	1	0	0	0	0	1	0	0	0	17315	536	19	1	128	1	WDR35	2	20113444	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	560465	20113444	223085929	411	2377											
WDR35	57539	broad.mit.edu	37	chr2	20136078	20136078	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagttttcaggagctggagTactctaaaccaatcccccaa	12	9	7	13	0	2	0	1	0	1	0	3	2	3	2	4	2	3	3	4	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:20136078T>C	uc002rdi.2	-	21	2457	c.2349A>G	c.(2347-2349)GTA>GTG	p.V783V	WDR35_uc002rdj.2_Silent_p.V772V|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Silent_p.V348V|WDR35_uc002rdk.3_Silent_p.V348V	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	783										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAGCTGGAGTACTCTAAACC	0.403													5	66					0	0	0.000602	0	0		C	20136078	C	C	20136078	2	2	4	1	0	0	0	0	0	0	0	1	17315	1625	57	3		3	WDR35	2	20136078	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	22634	20136078	223063295	412	2378											
ATAD2B	54454	broad.mit.edu	37	chr2	24033274	24033274	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaatctttctagagtgTgcaaaagtgctggagcaagg	13	9	13	6	0	2	2	0	0	2	2	2	4	2	3	0	2	3	3	0	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:24033274T>C	uc002rek.3	-	18	2660	c.2366A>G	c.(2365-2367)CAC>CGC	p.H789R	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rei.3_Missense_Mutation_p.H34R|ATAD2B_uc002rej.3_5'UTR	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	789							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTCTAGAGTGTGCAAAAGTGC	0.473													24	66					0	0	0.004656	0	0		C	24033274	C	C	24033274	3	2	4	1	0	0	0	0	1	0	0	0	1073	1696	59	3	2054	3	ATAD2B	2	24033274	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	3897196	24033274	219166099	413	2379											
ATAD2B	54454	broad.mit.edu	37	chr2	24033337	24033337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttctccagagagcaataagCgtggcctgtaagaggttggc	10	9	14	8	1	1	2	0	0	1	2	2	3	1	2	2	3	2	4	2	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:24033337C>T	uc002rek.3	-	18	2597	c.2303G>A	c.(2302-2304)CGC>CAC	p.R768H	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rei.3_Missense_Mutation_p.R13H|ATAD2B_uc002rej.3_5'UTR	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	768							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAGCAATAAGCGTGGCCTGTA	0.413													15	64					0	0	0.004007	0	0		T	24033337	T	T	24033337	3	4	4	1	0	0	0	0	1	0	0	0	1073	768	27	1	2117	1	ATAD2B	2	24033337	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	63	24033337	219166036	414	2380											
ITSN2	50618	broad.mit.edu	37	chr2	24484596	24484596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagccaaccaggttctcctaCggttttttcatcaacctacg	10	12	6	13	2	3	0	2	0	1	0	4	0	3	0	4	2	5	2	4	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:24484596C>T	uc002rfe.2	-	21	2629	c.2371G>A	c.(2371-2373)GTA>ATA	p.V791I	ITSN2_uc002rff.2_Missense_Mutation_p.V764I|ITSN2_uc002rfg.2_Missense_Mutation_p.V791I	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	791	SH3 1.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGTTCTCCTACGGTTTTTTCA	0.333													12	36					0	0	0.001368	0	0		T	24484596	T	T	24484596	3	4	4	1	0	0	0	0	1	0	0	0	7943	536	19	1	2853	1	ITSN2	2	24484596	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	451259	24484596	218714777	415	2381											
POMC	5443	broad.mit.edu	37	chr2	25383970	25383970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactcgcccttcttgtaggCgttcttgatgatggcgtttt	4	17	10	10	3	3	2	1	2	2	0	4	2	3	2	1	2	0	3	1	2	1	7	rs145696771		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:25383970C>T	uc002rfy.1	-	4	1047	c.784G>A	c.(784-786)GCC>ACC	p.A262T	POMC_uc002rfz.1_Missense_Mutation_p.A262T|POMC_uc002rga.1_Missense_Mutation_p.A262T	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	262					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)	TTCTTGTAGGCGTTCTTGATG	0.657													4	28					0	0	0.000602	0	0		T	25383970	T	T	25383970	3	4	4	1	0	0	0	0	1	0	0	0	12261	768	27	1	23	1	POMC	2	25383970	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	899374	25383970	217815403	416	2382											
POMC	5443	broad.mit.edu	37	chr2	25384011	25384011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacagcgtcaccaggggcGtctggctcttctcggaggtc	6	9	14	12	3	4	1	1	1	3	0	6	2	4	2	1	5	2	1	1	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:25384011G>A	uc002rfy.1	-	4	1006	c.743C>T	c.(742-744)ACG>ATG	p.T248M	POMC_uc002rfz.1_Missense_Mutation_p.T248M|POMC_uc002rga.1_Missense_Mutation_p.T248M	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	248					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)	CACCAGGGGCGTCTGGCTCTT	0.637													7	20					0	0	0.001984	0	0		A	25384011	A	A	25384011	3	1	4	1	0	0	0	0	1	0	0	0	12261	1145	40	1	64	1	POMC	2	25384011	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	41	25384011	217815362	417	2383											
HADHA	3030	broad.mit.edu	37	chr2	26414236	26414236	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtccactatcttctgggcGccatacagatccacaaagcg	10	8	9	14	3	2	1	0	0	2	1	4	1	4	1	3	2	2	0	3	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:26414236G>A	uc002rgy.2	-	20	2305	c.2175C>T	c.(2173-2175)GGC>GGT	p.G725G	HADHA_uc010yks.1_Silent_p.G638G	NM_000182	NP_000173	P40939	ECHA_HUMAN	mitochondrial trifunctional protein, alpha	725					fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)	TCTTCTGGGCGCCATACAGAT	0.517													18	57					0	0	0.007413	0	0		A	26414236	A	A	26414236	2	1	4	1	0	0	0	0	0	0	0	1	6959	1074	38	1		1	HADHA	2	26414236	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1030225	26414236	216785137	418	2384											
HADHA	3030	broad.mit.edu	37	chr2	26437359	26437359	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggcctttagtctgctttcGcactttttcttccacttttt	5	20	5	11	1	2	0	0	0	2	0	4	0	3	0	2	1	1	2	2	1	2	8	rs137852775		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:26437359G>A	uc002rgy.2	-	9	1001	c.871C>T	c.(871-873)CGA>TGA	p.R291*	HADHA_uc010yks.1_Nonsense_Mutation_p.R204*|HADHA_uc010ykt.1_Nonsense_Mutation_p.R204*	NM_000182	NP_000173	P40939	ECHA_HUMAN	mitochondrial trifunctional protein, alpha	291					fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)	GTCTGCTTTCGCACTTTTTCT	0.343													20	57					0	0	0.010504	0	0		A	26437359	A	A	26437359	4	1	4	1	0	0	0	0	0	1	0	0	6959	1095	38	1	1468	1	HADHA	2	26437359	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	23123	26437359	216762014	419	2385											
OTOF	9381	broad.mit.edu	37	chr2	26781400	26781400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatccggtcgcccctgccccGcagctccgagactgtcttga	5	8	11	17	4	1	2	0	1	1	1	4	4	3	2	6	1	2	2	6	1	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:26781400G>A	uc002rhk.2	-	1	167	c.40C>T	c.(40-42)CGG>TGG	p.R14W		NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	14	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCCTGCCCCGCAGCTCCGAG	0.652													5	16					0	0	0.000978	0	0		A	26781400	A	A	26781400	3	1	4	1	0	0	0	0	1	0	0	0	11322	1086	38	1	6466	1	OTOF	2	26781400	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	344041	26781400	216417973	420	2386											
DPYSL5	56896	broad.mit.edu	37	chr2	27121505	27121505	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgagctcatgatccctggCggggccaaggtgattgatgc	7	8	15	11	3	1	3	1	3	0	0	2	4	2	3	2	4	2	1	2	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:27121505C>T	uc002rhu.3	+	2	296	c.138C>T	c.(136-138)GGC>GGT	p.G46G	DPYSL5_uc002rhv.3_Silent_p.G46G	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	46					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGATCCCTGGCGGGGCCAAGG	0.592													17	57					0	0	0.004007	0	0		T	27121505	T	T	27121505	2	4	4	1	0	0	0	0	0	0	0	1	4756	755	27	1		1	DPYSL5	2	27121505	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	340105	27121505	216077868	421	2387											
PREB	10113	broad.mit.edu	37	chr2	27354540	27354540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgccccaatgactcacGccgtgagggcaacagatgca	10	5	11	15	2	1	3	1	2	0	1	1	3	1	3	4	1	3	2	4	1	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:27354540G>A	uc002rix.1	-	8	1412	c.1159C>T	c.(1159-1161)CGG>TGG	p.R387W	PREB_uc002riy.1_Missense_Mutation_p.R315W|PREB_uc002riz.1_RNA|PREB_uc002rja.1_Missense_Mutation_p.R329W	NM_013388	NP_037520	Q9HCU5	PREB_HUMAN	prolactin regulatory element binding protein	387	Cytoplasmic (Potential).				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|nucleus	DNA binding|guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AATGACTCACGCCGTGAGGGC	0.602													30	64					0	0	0.002096	0	0		A	27354540	A	A	27354540	3	1	4	1	0	0	0	0	1	0	0	0	12492	1101	38	1	102	1	PREB	2	27354540	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	233035	27354540	215844833	422	2388											
SLC5A6	8884	broad.mit.edu	37	chr2	27428236	27428236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actcaaacccagagatgcggCcgtgctgggaagccacggcc	10	4	13	14	3	1	1	1	0	0	1	1	3	1	2	4	3	4	1	4	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:27428236C>T	uc002rjd.2	-	7	1107	c.716G>A	c.(715-717)GGC>GAC	p.G239D	SLC5A6_uc010eyv.1_Missense_Mutation_p.G239D	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	239					biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	AGAGATGCGGCCGTGCTGGGA	0.607													6	19					0	0	0.001168	0	0		T	27428236	T	T	27428236	3	4	4	1	0	0	0	0	1	0	0	0	14694	739	26	2	1235	2	SLC5A6	2	27428236	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	73696	27428236	215771137	423	2389											
EIF2B4	8890	broad.mit.edu	37	chr2	27590383	27590383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttaaggaacttgatggCgttgtgcatgctcgctgaca	8	13	12	8	2	0	2	0	2	0	0	1	3	0	3	0	2	3	5	0	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:27590383C>T	uc002rkb.2	-	9	969	c.826G>A	c.(826-828)GCC>ACC	p.A276T	EIF2B4_uc002rjz.2_Missense_Mutation_p.A296T|EIF2B4_uc002rka.2_Missense_Mutation_p.A261T|EIF2B4_uc002rkc.2_Missense_Mutation_p.A275T|EIF2B4_uc002rkd.2_Missense_Mutation_p.A70T|EIF2B4_uc002rke.2_Missense_Mutation_p.A245T|EIF2B4_uc002rkf.1_3'UTR|SNX17_uc010ylj.1_5'Flank	NM_001034116	NP_001029288	Q9UI10	EI2BD_HUMAN	eukaryotic translation initiation factor 2B,	276					myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	translation initiation factor activity|translation initiation factor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AACTTGATGGCGTTGTGCATG	0.483													28	53					0	0	0.003271	0	0		T	27590383	T	T	27590383	3	4	4	1	0	0	0	0	1	0	0	0	5009	768	27	1	765	1	EIF2B4	2	27590383	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	162147	27590383	215608990	424	2390											
IFT172	26160	broad.mit.edu	37	chr2	27684350	27684350	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccatcagccactggtagTaactacgacgtagcttctcc	9	11	8	13	2	2	0	1	0	1	0	4	1	3	0	3	1	4	4	3	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:27684350T>C	uc002rku.2	-	22	2279	c.2228A>G	c.(2227-2229)TAC>TGC	p.Y743C		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	743					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CCACTGGTAGTAACTACGACG	0.572													4	67					0	0	0.000602	0	0		C	27684350	C	C	27684350	3	2	4	1	0	0	0	0	1	0	0	0	7573	1638	57	3	3129	3	IFT172	2	27684350	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	93967	27684350	215515023	425	2391											
PPP1CB	5500	broad.mit.edu	37	chr2	29016803	29016803	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccccaaattactgtggCgagtttgataatgctggtgg	9	12	12	8	1	1	1	1	1	0	0	1	2	1	1	2	3	3	2	2	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:29016803C>T	uc002rmg.2	+	8	979	c.819C>T	c.(817-819)GGC>GGT	p.G273G	PPP1CB_uc010ymj.1_Silent_p.G245G|PPP1CB_uc010yml.1_Silent_p.G245G|PPP1CB_uc002rmh.2_Silent_p.G273G|SPDYA_uc002rmi.2_5'UTR	NM_206876	NP_996759	P62140	PP1B_HUMAN	protein phosphatase 1, catalytic subunit, beta	273					cell cycle|cell division|glycogen metabolic process|triglyceride catabolic process	MLL5-L complex|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|myosin phosphatase activity|myosin-light-chain-phosphatase activity|protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)					ATTACTGTGGCGAGTTTGATA	0.348													15	60					0	0	0.004007	0	0		T	29016803	T	T	29016803	2	4	4	1	0	0	0	0	0	0	0	1	12372	755	27	1		1	PPP1CB	2	29016803	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1332453	29016803	214182570	426	2392											
FAM179A	165186	broad.mit.edu	37	chr2	29222106	29222106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaaccgtcacagctcctgCgtggactcggacagctgggt	8	7	14	12	3	1	0	1	0	0	0	3	3	2	3	2	4	4	2	2	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:29222106C>T	uc010ezl.2	+	4	550	c.199C>T	c.(199-201)CGT>TGT	p.R67C	FAM179A_uc010ymm.1_Missense_Mutation_p.R67C	NM_199280	NP_954974	Q6ZUX3	F179A_HUMAN	hypothetical protein LOC165186	67							binding			ovary(3)|skin(1)	4						ACAGCTCCTGCGTGGACTCGG	0.617													4	31					0	0	0.009096	0	0		T	29222106	T	T	29222106	3	4	4	1	0	0	0	0	1	0	0	0	5516	768	27	1	209	1	FAM179A	2	29222106	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	205303	29222106	213977267	427	2393											
XDH	7498	broad.mit.edu	37	chr2	31567583	31567583	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagacaagctcactgtgTccatgtaggcagctgtgacc	9	9	12	11	0	1	2	1	1	0	1	2	2	2	2	2	2	2	5	2	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:31567583T>C	uc002rnv.1	-	31	3450	c.3371A>G	c.(3370-3372)GAC>GGC	p.D1124G		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	1124					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	GCTCACTGTGTCCATGTAGGC	0.522													19	32					0	0	0.001882	0	0		C	31567583	C	C	31567583	3	2	4	1	0	0	0	0	1	0	0	0	17452	1667	58	3	654	3	XDH	2	31567583	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2345477	31567583	211631790	428	2394											
XDH	7498	broad.mit.edu	37	chr2	31610722	31610722	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggttggatccaggggCgtgaactcctctggtttgaa	6	12	14	9	1	1	2	0	2	1	0	4	3	4	3	3	5	1	2	3	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:31610722C>T	uc002rnv.1	-	8	685	c.606G>A	c.(604-606)ACG>ACA	p.T202T		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	202					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	GATCCAGGGGCGTGAACTCCT	0.537													3	5					0	0	0.004672	0	0		T	31610722	T	T	31610722	2	4	4	1	0	0	0	0	0	0	0	1	17452	755	27	1		1	XDH	2	31610722	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	43139	31610722	211588651	429	2395											
BIRC6	57448	broad.mit.edu	37	chr2	32678971	32678971	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcactttacttgtgtgTcaactagtgatggaaccaga	10	13	9	9	0	2	2	1	1	1	1	2	3	2	3	1	1	4	1	1	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:32678971T>C	uc010ezu.2	+	23	4848	c.4714T>C	c.(4714-4716)TCA>CCA	p.S1572P		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1572					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					TACTTGTGTGTCAACTAGTGA	0.373													40	113					0	0	0.002852	0	0		C	32678971	C	C	32678971	3	2	4	1	0	0	0	0	1	0	0	0	1439	1667	58	3	4804	3	BIRC6	2	32678971	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1068249	32678971	210520402	430	2396											
BIRC6	57448	broad.mit.edu	37	chr2	32750576	32750576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtcagctacaccacctcGcccaccatccaggaggggga	9	6	11	15	1	1	0	1	0	0	0	3	2	2	2	5	3	2	1	5	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:32750576G>A	uc010ezu.2	+	59	11935	c.11801G>A	c.(11800-11802)CGC>CAC	p.R3934H		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3934					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					ACACCACCTCGCCCACCATCC	0.443													18	49					0	0	0.010504	0	0		A	32750576	A	A	32750576	3	1	4	1	0	0	0	0	1	0	0	0	1439	1087	38	1	12035	1	BIRC6	2	32750576	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	71605	32750576	210448797	431	2397											
BIRC6	57448	broad.mit.edu	37	chr2	32756560	32756560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaagtttttgcaggaatggGtggactggctcttattgctg	8	14	13	6	0	1	0	0	0	1	0	1	2	1	2	0	4	2	4	0	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:32756560G>A	uc010ezu.2	+	61	12367	c.12233G>A	c.(12232-12234)GGT>GAT	p.G4078D	MIR558_hsa-mir-558|MI0003564_5'Flank	NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4078					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					GCAGGAATGGGTGGACTGGCT	0.408													5	46					0	0	0.001984	0	0		A	32756560	A	A	32756560	3	1	4	1	0	0	0	0	1	0	0	0	1439	1261	44	4	12475	4	BIRC6	2	32756560	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5984	32756560	210442813	432	2398											
TTC27	55622	broad.mit.edu	37	chr2	32958941	32958941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactacatctgtattggaacGcctgaagattttctattgct	11	15	7	8	1	2	2	0	1	2	1	2	3	2	3	1	1	4	2	1	1	6	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:32958941G>A	uc002rom.2	+	11	1511	c.1280G>A	c.(1279-1281)CGC>CAC	p.R427H	TTC27_uc010ymx.1_Missense_Mutation_p.R377H|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	427							protein binding			central_nervous_system(1)	1						GTATTGGAACGCCTGAAGATT	0.348													26	88					0	0	0.002096	0	0		A	32958941	A	A	32958941	3	1	4	1	0	0	0	0	1	0	0	0	16721	1087	38	1	1322	1	TTC27	2	32958941	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	202381	32958941	210240432	433	2399											
LTBP1	4052	broad.mit.edu	37	chr2	33540323	33540323	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctcaatctctgcagatggCcgtacgtgtgaaggtaagat	10	12	11	8	2	2	3	1	1	2	2	4	3	2	3	1	2	2	3	1	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:33540323C>T	uc002ros.2	+	24	3720	c.3720C>T	c.(3718-3720)GGC>GGT	p.G1240G	LTBP1_uc002rot.2_Silent_p.G914G|LTBP1_uc002rou.2_Silent_p.G913G|LTBP1_uc002rov.2_Silent_p.G860G|LTBP1_uc010ymz.1_Silent_p.G913G|LTBP1_uc010yna.1_Silent_p.G860G|LTBP1_uc010ynb.1_Silent_p.G179G	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1239	EGF-like 12; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CTGCAGATGGCCGTACGTGTG	0.448													4	74					0	0	0.009096	0	0		T	33540323	T	T	33540323	2	4	4	1	0	0	0	0	0	0	0	1	9091	726	26	2		2	LTBP1	2	33540323	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	581382	33540323	209659050	434	2400											
CRIM1	51232	broad.mit.edu	37	chr2	36704131	36704131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcgatgccaagggggcgttgCcatctgcttcaccgcccagt	6	9	12	14	3	2	0	1	0	1	0	3	1	2	0	4	2	3	2	4	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:36704131C>T	uc002rpd.2	+	6	1130	c.1091C>T	c.(1090-1092)GCC>GTC	p.A364V		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	364	VWFC 1.|Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				GGGGGCGTTGCCATCTGCTTC	0.498													9	87					0	0	0.004482	0	0		T	36704131	T	T	36704131	3	4	4	1	0	0	0	0	1	0	0	0	3876	739	26	2	1113	2	CRIM1	2	36704131	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3163808	36704131	206495242	435	2401											
CRIM1	51232	broad.mit.edu	37	chr2	36739513	36739513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttccagcaggacagtcacGgctgtcttatctgcaagtgc	8	11	11	11	1	3	0	1	0	2	0	4	1	4	1	1	2	3	4	1	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:36739513G>A	uc002rpd.2	+	10	1795	c.1756G>A	c.(1756-1758)GGC>AGC	p.G586S		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	586	Antistasin-like 4.|Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				GGACAGTCACGGCTGTCTTAT	0.522													29	67					0	0	0.002445	0	0		A	36739513	A	A	36739513	3	1	4	1	0	0	0	0	1	0	0	0	3876	1116	39	1	1794	1	CRIM1	2	36739513	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	35382	36739513	206459860	436	2402											
QPCT	25797	broad.mit.edu	37	chr2	37594392	37594392	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactgtttcagactccaaGccagatttgtcactccagct	10	11	7	13	0	2	3	2	0	0	3	4	3	4	3	3	0	2	2	3	0	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:37594392G>A	uc002rqg.2	+	4	686	c.564G>A	c.(562-564)AAG>AAA	p.K188K	QPCT_uc002rqh.2_Silent_p.K139K	NM_012413	NP_036545	Q16769	QPCT_HUMAN	glutaminyl-peptide cyclotransferase precursor	188					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	extracellular region	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|zinc ion binding			central_nervous_system(1)	1		Ovarian(717;0.051)|all_hematologic(82;0.21)				CAGACTCCAAGCCAGATTTGT	0.373													36	96					0	0	0.002852	0	0		A	37594392	A	A	37594392	2	1	4	1	0	0	0	0	0	0	0	1	12899	962	34	2		2	QPCT	2	37594392	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	854879	37594392	205604981	437	2403											
ABCG8	64241	broad.mit.edu	37	chr2	44101061	44101061	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccttcatggatacagcCgccctcttgttcatgatcgg	6	13	8	14	2	4	1	2	1	2	0	6	2	4	2	3	2	2	1	3	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:44101061C>T	uc002rtq.2	+	9	1437	c.1347C>T	c.(1345-1347)GCC>GCT	p.A449A	ABCG8_uc010yoa.1_Silent_p.A448A	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	449	Helical; Name=2; (Potential).|ABC transmembrane type-2.				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TGGATACAGCCGCCCTCTTGT	0.552													11	205					0	0	0.008291	0	0		T	44101061	T	T	44101061	2	4	4	1	0	0	0	0	0	0	0	1	72	639	23	1		1	ABCG8	2	44101061	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6506669	44101061	199098312	438	2404											
LRPPRC	10128	broad.mit.edu	37	chr2	44200831	44200831	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccttcctccttcacagcCttcattaaggcttttgccaa	10	13	4	14	0	2	0	2	0	0	0	4	0	4	0	5	1	3	1	5	1	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:44200831C>T	uc002rtr.2	-	11	1342	c.1284G>A	c.(1282-1284)AAG>AAA	p.K428K	LRPPRC_uc010yob.1_Silent_p.K328K	NM_133259	NP_573566	P42704	LPPRC_HUMAN	leucine-rich PPR motif-containing protein	428	PPR 7.				mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CCTTCACAGCCTTCATTAAGG	0.383													8	139					0	0	0.004482	0	0		T	44200831	T	T	44200831	2	4	4	1	0	0	0	0	0	0	0	1	8983	680	24	4		4	LRPPRC	2	44200831	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	99770	44200831	198998542	439	2405											
PPM1B	5495	broad.mit.edu	37	chr2	44428873	44428873	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaatccaagggaaaaggagCgaatccaaaatgcaggaggc	17	3	13	8	1	0	0	0	0	0	0	2	4	2	3	2	4	2	2	2	4	7	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:44428873C>T	uc002rtt.2	+	2	963	c.535C>T	c.(535-537)CGA>TGA	p.R179*	PPM1B_uc002rts.2_Nonsense_Mutation_p.R179*|PPM1B_uc002rtu.2_Nonsense_Mutation_p.R179*|PPM1B_uc002rtv.2_Intron|PPM1B_uc002rtw.2_Nonsense_Mutation_p.R179*|PPM1B_uc002rtx.2_Nonsense_Mutation_p.R179*	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	179					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GGAAAAGGAGCGAATCCAAAA	0.448													27	71					0	0	0.008361	0	0		T	44428873	T	T	44428873	4	4	4	1	0	0	0	0	0	1	0	0	12358	760	27	1	537	1	PPM1B	2	44428873	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	228042	44428873	198770500	440	2406											
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48809431	48809431	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcaacatggcctcattggcGcagaggtcatcctatgctgg	8	10	12	11	1	3	1	3	0	0	1	4	1	4	1	2	4	2	2	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:48809431G>A	uc010yol.1	+	1	1706	c.1659G>A	c.(1657-1659)GCG>GCA	p.A553A	STON1_uc002rwo.3_Silent_p.A553A|STON1_uc010fbm.2_Silent_p.A553A|STON1-GTF2A1L_uc002rwp.1_Silent_p.A553A|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Silent_p.A553A	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	553					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CCTCATTGGCGCAGAGGTCAT	0.478													30	69					0	0	0.002836	0	0		A	48809431	A	A	48809431	2	1	4	1	0	0	0	0	0	0	0	1	15342	1074	38	1		1	STON1-GTF2A1L	2	48809431	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4380558	48809431	194389942	441	2407											
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48873848	48873848	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttagaaaatgccaccagTgatatacttgtatctcctgg	12	12	7	10	0	1	2	0	1	1	1	2	2	1	2	3	1	2	1	3	1	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:48873848T>C	uc010yol.1	+	5	2663	c.2616T>C	c.(2614-2616)AGT>AGC	p.S872S	STON1-GTF2A1L_uc002rwp.1_Silent_p.S919S|GTF2A1L_uc002rws.1_Silent_p.S215S|GTF2A1L_uc010yom.1_Silent_p.S181S|GTF2A1L_uc002rwt.2_Silent_p.S215S	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	872					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ATGCCACCAGTGATATACTTG	0.413													26	72					0	0	0.005443	0	0		C	48873848	C	C	48873848	2	2	4	1	0	0	0	0	0	0	0	1	15342	1693	59	3		3	STON1-GTF2A1L	2	48873848	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	64417	48873848	194325525	442	2408											
FSHR	2492	broad.mit.edu	37	chr2	49189950	49189950	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgggagctgaagagcagtgGccattccttggatgggtgtt	7	11	16	7	0	0	2	0	1	0	1	1	4	1	4	2	4	2	3	2	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:49189950G>A	uc002rww.2	-	10	2084	c.2010C>T	c.(2008-2010)GGC>GGT	p.G670G	FSHR_uc002rwx.2_Silent_p.G608G|FSHR_uc010fbn.2_Silent_p.G644G	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	670	Cytoplasmic (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	AAGAGCAGTGGCCATTCCTTG	0.438									Gonadal_Dysgenesis_46_XX				6	65					0	0	0.001984	0	0		A	49189950	A	A	49189950	2	1	4	1	0	0	0	0	0	0	0	1	6087	1190	42	2		2	FSHR	2	49189950	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	316102	49189950	194009423	443	2409											
NRXN1	9378	broad.mit.edu	37	chr2	50463984	50463984	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccactcgcaccaatacGgcttctttctgaacagtgct	8	12	7	14	2	2	1	0	1	2	0	4	1	3	1	2	1	3	3	2	1	3	3	rs147580960		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:50463984G>A	uc010fbp.2	-	2	1191	c.384C>T	c.(382-384)GCC>GCT	p.A128A	NRXN1_uc002rxb.3_Silent_p.A835A|NRXN1_uc010fbq.2_Silent_p.A1203A|NRXN1_uc002rxe.3_Silent_p.A1163A|NRXN1_uc002rxc.1_RNA	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	128	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GCACCAATACGGCTTCTTTCT	0.443													4	50					0	0	0.009096	0	0		A	50463984	A	A	50463984	2	1	4	1	0	0	0	0	0	0	0	1	10684	1103	39	1		1	NRXN1	2	50463984	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1274034	50463984	192735389	444	2410											
NRXN1	9378	broad.mit.edu	37	chr2	50724782	50724782	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaggggacagaagaaagataCcgtcgttctgtgatgatgcc	12	8	14	7	2	1	5	0	2	1	3	2	7	1	6	2	2	2	1	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:50724782C>T	uc010fbq.2	-	14	4165	c.2688G>A	c.(2686-2688)CGG>CGA	p.R896R	NRXN1_uc002rxb.3_Silent_p.R528R|NRXN1_uc002rxe.3_Silent_p.R856R|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			AAGAAAGATACCGTCGTTCTG	0.398													30	69					0	0	0.009535	0	0		T	50724782	T	T	50724782	2	4	4	1	0	0	0	0	0	0	0	1	10684	494	18	4		4	NRXN1	2	50724782	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	260798	50724782	192474591	445	2411											
NRXN1	9378	broad.mit.edu	37	chr2	50779924	50779924	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatgtcttggcttgccatgGctaaataagatgaggccatt	10	13	11	7	0	1	3	0	2	1	1	1	3	1	3	2	3	1	2	2	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:50779924G>A	uc010fbq.2	-	9	3157	c.1680C>T	c.(1678-1680)AGC>AGT	p.S560S	NRXN1_uc002rxb.3_Silent_p.S192S|NRXN1_uc002rxe.3_Silent_p.S520S|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GCTTGCCATGGCTAAATAAGA	0.443													34	78					0	0	0.004878	0	0		A	50779924	A	A	50779924	2	1	4	1	0	0	0	0	0	0	0	1	10684	1194	42	2		2	NRXN1	2	50779924	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	55142	50779924	192419449	446	2412											
NRXN1	9378	broad.mit.edu	37	chr2	51254674	51254674	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccgcggaagccggttcgCgagcagtcgcacacggcctg	6	6	15	14	7	0	0	0	0	0	0	2	2	0	1	3	3	3	3	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:51254674C>T	uc010fbq.2	-	2	2215	c.738G>A	c.(736-738)TCG>TCA	p.S246S	NRXN1_uc002rxe.3_Silent_p.S246S|NRXN1_uc002rxd.1_Silent_p.S246S	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			AGCCGGTTCGCGAGCAGTCGC	0.756													4	8					0	0	0.001168	0	0		T	51254674	T	T	51254674	2	4	4	1	0	0	0	0	0	0	0	1	10684	755	27	1		1	NRXN1	2	51254674	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	474750	51254674	191944699	447	2413											
NRXN1	9378	broad.mit.edu	37	chr2	51255287	51255287	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcgttccacttggggaagCgcgtccattggccctcggcg	5	8	15	13	5	0	0	0	0	0	0	3	1	2	1	3	5	1	1	3	5	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:51255287C>T	uc010fbq.2	-	2	1602	c.125G>A	c.(124-126)CGC>CAC	p.R42H	NRXN1_uc002rxe.3_Missense_Mutation_p.R42H|NRXN1_uc002rxd.1_Missense_Mutation_p.R42H	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CTTGGGGAAGCGCGTCCATTG	0.672													4	3					0	0	0.009096	0	0		T	51255287	T	T	51255287	3	4	4	1	0	0	0	0	1	0	0	0	10684	768	27	1	4873	1	NRXN1	2	51255287	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	613	51255287	191944086	448	2414											
CHAC2	494143	broad.mit.edu	37	chr2	53995031	53995031	+	Frame_Shift_Del	DEL	T	-	-																															gagccgcgagaagatgtgggTttttggttacgggtccctga																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:53995031delT	uc002rxk.1	+	1	103	c.8delT	c.(7-9)GTTfs	p.V3fs	ASB3_uc002rxg.1_Intron|ASB3_uc002rxh.1_Intron|ASB3_uc002rxi.3_Intron|ASB3_uc010yoo.1_Intron	NM_001008708	NP_001008708	Q8WUX2	CHAC2_HUMAN	ChaC, cation transport regulator-like 2	3											0			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			AAGATGTGGGTTTTTGGTTAC	0.622											OREG0014616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	7	---	---	---	---						.	-	53995031	-	-	53995031	7	5	4	1	0	1	0	1	0	0	0	0	3312	1725	60	0	10	0	CHAC2	2	53995031	Frame_Shift_Del	DEL	T	TCGA-BR-4184-01A-01D-1126-08	2739744	53995031	189204342	449	2415											
MTIF2	4528	broad.mit.edu	37	chr2	55490845	55490845	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatctgttggccagggccaGgcacacagttgagctgtcca	9	8	12	12	0	1	1	0	1	1	0	2	1	2	1	3	3	1	4	3	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:55490845G>T	uc002ryn.2	-	5	887	c.150C>A	c.(148-150)GCC>GCA	p.A50A	MTIF2_uc010yox.1_Translation_Start_Site|MTIF2_uc002ryo.2_Silent_p.A50A|MTIF2_uc002ryp.1_RNA	NM_001005369	NP_001005369	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	50					regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1						GCCAGGGCCAGGCACACAGTT	0.423													13	86					9.05144e-12	9.78013e-12	0.001855	1	0		T	55490845	T	T	55490845	2	4	4	1	0	0	0	0	0	0	0	1	9952	987	35	5		5	MTIF2	2	55490845	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1495814	55490845	187708528	450	2416											
SMEK2	57223	broad.mit.edu	37	chr2	55786066	55786066	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaagccaccaggagatgTccttttgggaaggttttcct	8	14	11	8	0	0	2	0	1	0	1	2	4	2	3	4	3	1	1	4	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:55786066T>C	uc002rzc.2	-	16	2674	c.2299A>G	c.(2299-2301)ACA>GCA	p.T767A	SMEK2_uc002rzb.2_Missense_Mutation_p.T682A|SMEK2_uc002rzd.2_Missense_Mutation_p.T735A|SMEK2_uc002ryz.2_Missense_Mutation_p.T194A|SMEK2_uc002rza.2_Missense_Mutation_p.T551A	NM_001122964	NP_001116436	Q5MIZ7	P4R3B_HUMAN	SMEK homolog 2, suppressor of mek1 isoform 1	767						microtubule organizing center|nucleus	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			CCAGGAGATGTCCTTTTGGGA	0.378													4	87					0	0	0.009096	0	0		C	55786066	C	C	55786066	3	2	4	1	0	0	0	0	1	0	0	0	14819	1667	58	3	258	3	SMEK2	2	55786066	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	295221	55786066	187413307	451	2417											
EFEMP1	2202	broad.mit.edu	37	chr2	56098194	56098194	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggataacaacggaagccGccatgataattccaacacat	15	7	8	11	3	0	1	0	1	0	0	1	3	1	3	3	2	4	0	3	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:56098194G>A	uc002rzh.2	-	9	1395	c.1065C>T	c.(1063-1065)GGC>GGT	p.G355G	EFEMP1_uc002rzi.2_Silent_p.G355G|EFEMP1_uc002rzj.2_Silent_p.G355G|EFEMP1_uc010ypc.1_Silent_p.G217G	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	355	Mediates interaction with TIMP3.|EGF-like 6; calcium-binding (Potential).				negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			AACGGAAGCCGCCATGATAAT	0.388													14	46					0	0	0.003163	0	0		A	56098194	A	A	56098194	2	1	4	1	0	0	0	0	0	0	0	1	4947	1074	38	1		1	EFEMP1	2	56098194	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	312128	56098194	187101179	452	2418											
FANCL	55120	broad.mit.edu	37	chr2	58459193	58459193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaaacaccatatcaccttgCattcttcagttgtaaatctt	12	15	3	11	0	4	0	2	0	2	0	4	0	4	0	2	0	2	3	2	0	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:58459193C>T	uc002rzw.3	-	2	218	c.151G>A	c.(151-153)GCA>ACA	p.A51T	FANCL_uc002rzx.3_Missense_Mutation_p.A51T|FANCL_uc010fce.2_Missense_Mutation_p.A51T|FANCL_uc010fcf.1_Intron	NM_018062	NP_060532	Q9NW38	FANCL_HUMAN	Fanconi anemia, complementation group L isoform	51					DNA repair	cytoplasm|nucleoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TATCACCTTGCATTCTTCAGT	0.363								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				14	35					0	0	0.004007	0	0		T	58459193	T	T	58459193	3	4	4	1	0	0	0	0	1	0	0	0	5684	710	25	2	1043	2	FANCL	2	58459193	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2360999	58459193	184740180	453	2419											
PAPOLG	64895	broad.mit.edu	37	chr2	60997606	60997606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttgtaggctgtagaagatgCctttgtacctgttataaaat	11	16	9	5	0	0	2	0	0	0	2	0	2	0	2	2	1	2	5	2	1	7	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:60997606C>T	uc002sai.2	+	6	683	c.452C>T	c.(451-453)GCC>GTC	p.A151V	PAPOLG_uc002saj.2_5'UTR|PAPOLG_uc002sak.2_5'UTR	NM_022894	NP_075045	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma	151					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(2;0.0797)		LUSC - Lung squamous cell carcinoma(5;1.19e-07)|Lung(5;2.86e-06)|Epithelial(17;0.0768)			GTAGAAGATGCCTTTGTACCT	0.289													8	29					0	0	0.00308	0	0		T	60997606	T	T	60997606	3	4	4	1	0	0	0	0	1	0	0	0	11450	739	26	2	474	2	PAPOLG	2	60997606	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2538413	60997606	182201767	454	2420											
PUS10	150962	broad.mit.edu	37	chr2	61188644	61188644	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattcaatttcaagaacagcGcatacagcctttggtgagtt	12	12	8	9	1	2	2	2	1	0	1	2	2	2	2	1	1	4	2	1	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:61188644G>A	uc010fci.2	-	10	888	c.828C>T	c.(826-828)TGC>TGT	p.C276C	PUS10_uc002sao.2_Silent_p.C276C|PUS10_uc010ypk.1_Silent_p.C53C	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	276					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)			CAAGAACAGCGCATACAGCCT	0.348													25	324					0	0	0.009535	0	0		A	61188644	A	A	61188644	2	1	4	1	0	0	0	0	0	0	0	1	12856	1079	38	1		1	PUS10	2	61188644	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	191038	61188644	182010729	455	2421											
PUS10	150962	broad.mit.edu	37	chr2	61192233	61192233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaaacaatctgggcatatcGcagctctaaaataaaattca	18	10	5	8	1	3	0	1	0	2	0	4	0	3	0	0	1	2	3	0	1	8	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:61192233G>A	uc010fci.2	-	8	743	c.683C>T	c.(682-684)GCG>GTG	p.A228V	PUS10_uc002sao.2_Missense_Mutation_p.A228V|PUS10_uc010ypk.1_Missense_Mutation_p.A5V	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	228					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)			TGGGCATATCGCAGCTCTAAA	0.328													34	68					0	0	0.00623	0	0		A	61192233	A	A	61192233	3	1	4	1	0	0	0	0	1	0	0	0	12856	1087	38	1	950	1	PUS10	2	61192233	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3589	61192233	182007140	456	2422											
USP34	9736	broad.mit.edu	37	chr2	61415812	61415812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcatcactgctaacacGccgccttttaatgggagttg	8	12	8	13	2	2	0	2	0	0	0	3	1	3	1	3	1	2	2	3	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:61415812G>A	uc002sbe.2	-	80	10088	c.10066C>T	c.(10066-10068)CGT>TGT	p.R3356C	USP34_uc002sbd.2_Missense_Mutation_p.R158C	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	3356					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity	p.R3356P(1)		ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			CTGCTAACACGCCGCCTTTTA	0.478													15	52					0	0	0.00499	0	0		A	61415812	A	A	61415812	3	1	4	1	0	0	0	0	1	0	0	0	17091	1087	38	1	578	1	USP34	2	61415812	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	223579	61415812	181783561	457	2423											
USP34	9736	broad.mit.edu	37	chr2	61447484	61447484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgtgagccaaaagaaaccGctcgacccagttttccatat	13	10	7	11	2	0	2	0	1	0	1	2	3	1	2	4	0	2	2	4	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:61447484G>A	uc002sbe.2	-	67	8030	c.8008C>T	c.(8008-8010)CGG>TGG	p.R2670W		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2670					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			AAAAGAAACCGCTCGACCCAG	0.378													26	336					0	0	0.007291	0	0		A	61447484	A	A	61447484	3	1	4	1	0	0	0	0	1	0	0	0	17091	1086	38	1	2688	1	USP34	2	61447484	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	31672	61447484	181751889	458	2424											
USP34	9736	broad.mit.edu	37	chr2	61575222	61575222	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaacaagcatccagcattcGcattcgattatctactgatg	12	12	7	10	2	1	2	0	2	1	0	4	3	2	2	1	0	4	3	1	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:61575222G>A	uc002sbe.2	-	15	2090	c.2068C>T	c.(2068-2070)CGA>TGA	p.R690*		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	690					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TCCAGCATTCGCATTCGATTA	0.443													43	95					0	0	0.00361	0	0		A	61575222	A	A	61575222	4	1	4	1	0	0	0	0	0	1	0	0	17091	1095	38	1	8836	1	USP34	2	61575222	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	127738	61575222	181624151	459	2425											
USP34	9736	broad.mit.edu	37	chr2	61597500	61597500	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatgttgagtactcagtcGcccttctgctgccaaaaaat	12	12	7	10	1	2	1	1	1	1	0	3	1	2	1	2	0	3	3	2	0	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:61597500G>A	uc002sbe.2	-	10	1229	c.1207C>T	c.(1207-1209)CGA>TGA	p.R403*		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	403					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			GTACTCAGTCGCCCTTCTGCT	0.249													34	116					0	0	0.00623	0	0		A	61597500	A	A	61597500	4	1	4	1	0	0	0	0	0	1	0	0	17091	1095	38	1	9717	1	USP34	2	61597500	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	22278	61597500	181601873	460	2426											
VPS54	51542	broad.mit.edu	37	chr2	64144047	64144047	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactcacccaacaactgcatActgttgtccctcgacaataa	13	9	4	15	1	1	0	1	0	0	0	3	1	2	0	2	0	4	2	2	0	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:64144047A>G	uc002scq.2	-	16	2378	c.2215T>C	c.(2215-2217)TAT>CAT	p.Y739H	VPS54_uc002scp.2_Missense_Mutation_p.Y727H|VPS54_uc002scn.2_5'UTR|VPS54_uc002sco.2_Missense_Mutation_p.Y224H|VPS54_uc010fct.2_Missense_Mutation_p.Y586H	NM_016516	NP_057600	Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 isoform 1	739					protein transport|retrograde transport, endosome to Golgi						0						ACAACTGCATACTGTTGTCCC	0.378													3	74					0	0	0.004672	0	0		G	64144047	G	G	64144047	3	3	4	1	0	0	0	0	1	0	0	0	17242	391	14	3	750	3	VPS54	2	64144047	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	2546547	64144047	179055326	461	2427											
SPRED2	200734	broad.mit.edu	37	chr2	65540766	65540766	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aataagagccatccaccggaGgcaaaacttctcgtcgctag	13	7	9	12	3	1	1	0	0	1	1	4	2	2	2	3	2	2	2	3	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:65540766G>T	uc002sdr.3	-	6	1661	c.1126C>A	c.(1126-1128)CTC>ATC	p.L376I	SPRED2_uc010fcw.2_Missense_Mutation_p.L373I	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	376	SPR.				inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						ATCCACCGGAGGCAAAACTTC	0.572													7	30					8.12818e-05	8.5301e-05	0.001984	1	0		T	65540766	T	T	65540766	3	4	4	1	0	0	0	0	1	0	0	0	15118	1000	35	5	134	5	SPRED2	2	65540766	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1396719	65540766	177658607	462	2428											
PROKR1	10887	broad.mit.edu	37	chr2	68882118	68882118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgatcgccatcccttccGcctacttcaccaccgagacg	7	9	6	19	4	1	2	1	1	0	1	5	3	4	2	7	0	1	0	7	0	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:68882118G>A	uc010yqj.1	+	2	592	c.592G>A	c.(592-594)GCC>ACC	p.A198T	PROKR1_uc002ses.2_RNA	NM_138964	NP_620414	Q8TCW9	PKR1_HUMAN	G protein-coupled receptor 73	198	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1						CATCCCTTCCGCCTACTTCAC	0.567													11	96					0	0	0.008291	0	0		A	68882118	A	A	68882118	3	1	4	1	0	0	0	0	1	0	0	0	12574	1087	38	1	598	1	PROKR1	2	68882118	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3341352	68882118	174317255	463	2429											
AAK1	22848	broad.mit.edu	37	chr2	69870045	69870045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtccactgtgacctgctgtCgcccgatgccgaagactctt	6	10	10	15	4	1	2	0	1	1	1	3	4	2	2	4	0	2	1	4	0	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:69870045C>T	uc002sfp.2	-	2	633	c.128G>A	c.(127-129)CGA>CAA	p.R43Q	AAK1_uc010fdk.2_Missense_Mutation_p.R43Q|AAK1_uc010yqm.1_Missense_Mutation_p.R43Q|AAK1_uc010fdm.1_Missense_Mutation_p.R43Q	NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	43						coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0						GACCTGCTGTCGCCCGATGCC	0.622													7	29					0	0	0.006214	0	0		T	69870045	T	T	69870045	3	4	4	1	0	0	0	0	1	0	0	0	16	884	31	1	2841	1	AAK1	2	69870045	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	987927	69870045	173329328	464	2430											
TGFA	7039	broad.mit.edu	37	chr2	70692857	70692857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaccactgctgcagccaCgggcgggtctgctggggaga	7	5	17	12	2	1	1	0	0	1	1	1	3	1	2	2	5	4	3	2	5	0	0	rs147786817	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:70692857C>T	uc002sgs.3	-	3	312	c.106G>A	c.(106-108)GTG>ATG	p.V36M	TGFA_uc010fdq.2_Missense_Mutation_p.V42M|TGFA_uc010fdr.2_Missense_Mutation_p.V41M|TGFA_uc002sgt.3_Missense_Mutation_p.V35M|TGFA_uc002sgu.2_Missense_Mutation_p.V35M|TGFA_uc002sgv.2_Missense_Mutation_p.V36M|TGFA_uc002sgw.2_Missense_Mutation_p.V35M	NM_003236	NP_003227	P01135	TGFA_HUMAN	transforming growth factor, alpha isoform 1	36	Extracellular (Potential).				activation of MAPK activity|cell proliferation|positive regulation of cell division|positive regulation of epidermal growth factor receptor activity|positive regulation of epithelial cell proliferation|positive regulation of mitosis	cell surface|extracellular space|integral to membrane|plasma membrane	epidermal growth factor receptor binding|growth factor activity|MAP kinase kinase activity|signal transducer activity			prostate(1)	1						GCTGCAGCCACGGGCGGGTCT	0.567													6	12					0	0	0.00308	0	0		T	70692857	T	T	70692857	3	4	4	1	0	0	0	0	1	0	0	0	15840	536	19	1	392	1	TGFA	2	70692857	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	822812	70692857	172506516	465	2431											
ADD2	119	broad.mit.edu	37	chr2	70933382	70933382	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcaggatcatggtgacGcgcttcttctgctccatcag	6	12	10	13	2	5	1	2	1	3	0	6	2	6	2	1	2	2	3	1	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:70933382G>A	uc002sgz.2	-	3	624	c.159C>T	c.(157-159)CGC>CGT	p.R53R	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Silent_p.R53R|ADD2_uc002sha.2_Silent_p.R53R|ADD2_uc002sgx.2_Silent_p.R53R|ADD2_uc010fdt.1_Silent_p.R53R|ADD2_uc002shc.1_Silent_p.R53R|ADD2_uc002shd.1_Silent_p.R53R|ADD2_uc010fdu.1_Silent_p.R69R	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	53					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						TCATGGTGACGCGCTTCTTCT	0.647													5	17					0	0	0.00308	0	0		A	70933382	A	A	70933382	2	1	4	1	0	0	0	0	0	0	0	1	305	1074	38	1		1	ADD2	2	70933382	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	240525	70933382	172265991	466	2432											
CLEC4F	165530	broad.mit.edu	37	chr2	71036887	71036887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgctttgttctgggcggCgttgaatggtgtcccatctg	4	14	13	10	3	3	1	1	1	2	0	4	1	4	1	1	3	0	3	1	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:71036887C>T	uc002shf.2	-	6	1719	c.1642G>A	c.(1642-1644)GCC>ACC	p.A548T	CLEC4F_uc010yqv.1_Missense_Mutation_p.A548T	NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	548	Extracellular (Potential).|C-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5						TTCTGGGCGGCGTTGAATGGT	0.547													17	53					0	0	0.008871	0	0		T	71036887	T	T	71036887	3	4	4	1	0	0	0	0	1	0	0	0	3519	768	27	1	135	1	CLEC4F	2	71036887	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	103505	71036887	172162486	467	2433											
NAGK	55577	broad.mit.edu	37	chr2	71298926	71298926	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttaatcaccaccgatgcCgccggctccatcgccacagc	9	7	7	18	4	1	0	1	0	0	0	3	1	2	0	6	1	3	1	6	1	2	2	rs11539622	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:71298926C>T	uc002shp.3	+	4	730	c.324C>T	c.(322-324)GCC>GCT	p.A108A	NAGK_uc010fea.2_RNA|NAGK_uc002shq.3_5'UTR|NAGK_uc002shr.2_Silent_p.A57A	NM_017567	NP_060037	Q9UJ70	NAGK_HUMAN	N-Acetylglucosamine kinase	108					N-acetylglucosamine metabolic process|N-acetylmannosamine metabolic process		ATP binding|N-acetylglucosamine kinase activity|protein binding				0					N-Acetyl-D-glucosamine(DB00141)	CCACCGATGCCGCCGGCTCCA	0.572													5	20					0	0	0.006214	0	0		T	71298926	T	T	71298926	2	4	4	1	0	0	0	0	0	0	0	1	10160	639	23	1		1	NAGK	2	71298926	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	262039	71298926	171900447	468	2434											
ZNF638	27332	broad.mit.edu	37	chr2	71627611	71627611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttattttgtattaagatgCtgctttggaggccacagaga	10	16	10	5	0	0	2	0	0	0	2	0	4	0	3	1	2	2	3	1	2	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:71627611C>T	uc002shx.2	+	15	2979	c.2660C>T	c.(2659-2661)GCT>GTT	p.A887V	ZNF638_uc010yqw.1_Missense_Mutation_p.A466V|ZNF638_uc002shy.2_Missense_Mutation_p.A887V|ZNF638_uc002shz.2_Missense_Mutation_p.A887V|ZNF638_uc002sia.2_Missense_Mutation_p.A887V|ZNF638_uc002sib.1_Missense_Mutation_p.A887V|ZNF638_uc010fed.2_RNA|ZNF638_uc002sic.2_5'UTR	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	887					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						TATTAAGATGCTGCTTTGGAG	0.299													4	50					0	0	0.000602	0	0		T	71627611	T	T	71627611	3	4	4	1	0	0	0	0	1	0	0	0	18080	797	28	2	2714	2	ZNF638	2	71627611	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	328685	71627611	171571762	469	2435											
CCT7	10574	broad.mit.edu	37	chr2	73478490	73478490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttggagattatcccacGccagctgtgtgacaatgctg	8	10	12	11	1	0	2	0	1	0	1	1	3	1	2	3	2	2	2	3	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:73478490G>A	uc002siz.2	+	11	1442	c.1340G>A	c.(1339-1341)CGC>CAC	p.R447H	CCT7_uc002sja.2_Missense_Mutation_p.R243H|CCT7_uc010yrf.1_Missense_Mutation_p.R403H|CCT7_uc010feu.2_Missense_Mutation_p.R405H|CCT7_uc010yrg.1_Missense_Mutation_p.R347H|CCT7_uc010yrh.1_Missense_Mutation_p.R319H|CCT7_uc010yri.1_Missense_Mutation_p.R360H	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	447					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						ATTATCCCACGCCAGCTGTGT	0.537													8	115					0	0	0.004482	0	0		A	73478490	A	A	73478490	3	1	4	1	0	0	0	0	1	0	0	0	2962	1087	38	1	1382	1	CCT7	2	73478490	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1850879	73478490	169720883	470	2436											
EGR4	1961	broad.mit.edu	37	chr2	73518781	73518781	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcgtggtgaggtggtcgCtgcggctgaagttgcggagg	4	9	21	7	5	0	2	0	2	0	0	1	3	0	3	0	6	3	3	0	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:73518781C>A	uc010yrj.1	-	2	1649	c.1574G>T	c.(1573-1575)AGC>ATC	p.S525I	EGR4_uc010yrk.1_Missense_Mutation_p.S524I	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	421						intracellular	nucleic acid binding|zinc ion binding				0						GAGGTGGTCGCTGCGGCTGAA	0.662													6	13					1.76689e-08	1.88842e-08	0.006214	1	0		A	73518781	A	A	73518781	3	1	4	1	0	0	0	0	1	0	0	0	4980	797	28	5	199	5	EGR4	2	73518781	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	40291	73518781	169680592	471	2437											
EGR4	1961	broad.mit.edu	37	chr2	73519457	73519457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccttgaaggcagagacagCgtccagcgctggcgaggcgg	9	4	16	12	4	0	2	0	1	0	1	1	4	1	2	2	4	2	2	2	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:73519457C>T	uc010yrj.1	-	2	973	c.898G>A	c.(898-900)GCT>ACT	p.A300T	EGR4_uc010yrk.1_Missense_Mutation_p.A299T	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	196						intracellular	nucleic acid binding|zinc ion binding				0						GCAGAGACAGCGTCCAGCGCT	0.711													4	5					0	0	0.001168	0	0		T	73519457	T	T	73519457	3	4	4	1	0	0	0	0	1	0	0	0	4980	768	27	1	875	1	EGR4	2	73519457	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	676	73519457	169679916	472	2438											
ALMS1	7840	broad.mit.edu	37	chr2	73717261	73717261	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcaccgacattctaaatgCatttccaattcctctgttgt	9	16	4	12	1	3	0	1	0	3	0	6	1	5	0	3	0	1	2	3	0	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:73717261C>T	uc002sje.1	+	12	8289	c.8178C>T	c.(8176-8178)TGC>TGT	p.C2726C	ALMS1_uc002sjf.1_Silent_p.C2682C|ALMS1_uc002sjg.2_Silent_p.C2112C|ALMS1_uc002sjh.1_Silent_p.C2112C	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2724					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						ATTCTAAATGCATTTCCAATT	0.398													35	103					0	0	0.004289	0	0		T	73717261	T	T	73717261	2	4	4	1	0	0	0	0	0	0	0	1	535	718	25	2		2	ALMS1	2	73717261	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	197804	73717261	169482112	473	2439											
ACTG2	72	broad.mit.edu	37	chr2	74136221	74136221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtccctgccatgtacgtcGccattcaagctgtgctctcc	6	12	8	15	2	2	0	1	0	1	0	5	0	3	0	4	0	4	3	4	0	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:74136221G>A	uc002sjw.2	+	5	528	c.406G>A	c.(406-408)GCC>ACC	p.A136T	ACTG2_uc010fey.2_Missense_Mutation_p.A136T|ACTG2_uc010yrn.1_Missense_Mutation_p.A93T	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	136					muscle contraction	cytoskeleton|cytosol	ATP binding				0						CATGTACGTCGCCATTCAAGC	0.453													25	64					0	0	0.002096	0	0		A	74136221	A	A	74136221	3	1	4	1	0	0	0	0	1	0	0	0	197	1087	38	1	420	1	ACTG2	2	74136221	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	418960	74136221	169063152	474	2440											
TET3	200424	broad.mit.edu	37	chr2	74317033	74317033	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtgttgcagccggacctgCgcttgccaaggcaaagaccc	8	7	13	13	2	0	1	0	0	0	1	0	2	0	2	4	2	4	4	4	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:74317033C>T	uc002skb.3	+	5	2493	c.2493C>T	c.(2491-2493)TGC>TGT	p.C831C		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	831							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GCCGGACCTGCGCTTGCCAAG	0.557													41	100					0	0	0.00361	0	0		T	74317033	T	T	74317033	2	4	4	1	0	0	0	0	0	0	0	1	15796	776	27	1		1	TET3	2	74317033	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	180812	74317033	168882340	475	2441											
MOGS	7841	broad.mit.edu	37	chr2	74688835	74688835	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgcagcagcaagggaaaaAgactgacatagccaagagca	17	3	12	9	1	0	3	0	1	0	2	1	4	0	4	1	1	4	4	1	1	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:74688835A>G	uc010ffj.2	-	4	2244	c.2081T>C	c.(2080-2082)CTT>CCT	p.L694P	MOGS_uc010ffh.2_Missense_Mutation_p.L419P|MOGS_uc010yrt.1_Missense_Mutation_p.L575P|MOGS_uc010ffi.2_Missense_Mutation_p.L588P	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	694	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						CAAGGGAAAAAGACTGACATA	0.617													16	34					0	0	0.00499	0	0		G	74688835	G	G	74688835	3	3	4	1	0	0	0	0	1	0	0	0	9715	72	3	3	436	3	MOGS	2	74688835	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	371802	74688835	168510538	476	2442											
HK2	3099	broad.mit.edu	37	chr2	75116443	75116443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagagcacctgtgacgacaGcatcattgttaaggaggtgt	11	10	13	7	1	1	2	1	2	0	1	1	5	1	3	1	2	2	3	1	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:75116443G>A	uc002snd.2	+	17	4373	c.2447G>A	c.(2446-2448)AGC>AAC	p.S816N		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	816	Catalytic.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						TGTGACGACAGCATCATTGTT	0.612													8	23					0	0	0.00308	0	0		A	75116443	A	A	75116443	3	1	4	1	0	0	0	0	1	0	0	0	7207	971	34	2	2513	2	HK2	2	75116443	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	427608	75116443	168082930	477	2443											
LRRTM1	347730	broad.mit.edu	37	chr2	80530493	80530493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaggtcgggcgcgagcGcctgcagcttgttgtacgag	7	7	18	9	5	0	1	0	0	0	1	1	4	0	2	1	3	4	4	1	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:80530493G>A	uc002sok.1	-	2	722	c.452C>T	c.(451-453)GCG>GTG	p.A151V	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	151	LRR 3.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GGGCGCGAGCGCCTGCAGCTT	0.637										HNSCC(69;0.2)			8	27					0	0	0.004482	0	0		A	80530493	A	A	80530493	3	1	4	1	0	0	0	0	1	0	0	0	9057	1087	38	1	1120	1	LRRTM1	2	80530493	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5414050	80530493	162668880	478	2444											
KCMF1	56888	broad.mit.edu	37	chr2	85276640	85276640	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcaacaactggagaccgcAcgcaacgcaacccggcgtac	12	2	11	16	6	0	1	0	0	0	1	0	2	0	1	2	3	5	5	2	3	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:85276640A>G	uc002sox.3	+	6	1097	c.753A>G	c.(751-753)GCA>GCG	p.A251A		NM_020122	NP_064507	Q9P0J7	KCMF1_HUMAN	potassium channel modulatory factor 1	251	Potential.					intracellular	ligase activity|zinc ion binding			ovary(2)	2						TGGAGACCGCACGCAACGCAA	0.527													4	48					0	0	0.009096	0	0		G	85276640	G	G	85276640	2	3	4	1	0	0	0	0	0	0	0	1	8016	146	6	3		3	KCMF1	2	85276640	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	4746147	85276640	157922733	479	2445											
RETSAT	54884	broad.mit.edu	37	chr2	85578103	85578103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatctggtccaagataaaacGgccaatgctgccctcttcca	11	9	8	13	1	2	1	0	0	2	1	4	2	4	1	4	2	3	1	4	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:85578103G>A	uc002spd.2	-	3	588	c.397C>T	c.(397-399)CGT>TGT	p.R133C	RETSAT_uc010fge.2_RNA|RETSAT_uc010ysm.1_Missense_Mutation_p.R72C|RETSAT_uc010fgf.2_Intron	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	133					retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(2)	2					Vitamin A(DB00162)	AAGATAAAACGGCCAATGCTG	0.517													8	33					0	0	0.004007	0	0		A	85578103	A	A	85578103	3	1	4	1	0	0	0	0	1	0	0	0	13263	1116	39	1	1471	1	RETSAT	2	85578103	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	301463	85578103	157621270	480	2446											
KDM3A	55818	broad.mit.edu	37	chr2	86677062	86677062	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcacctgaaatttctgaaCgaattgtacagtggcctgca	12	11	9	9	1	2	2	1	2	1	0	2	3	2	2	2	1	3	2	2	1	4	3	rs150111816		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:86677062C>T	uc002sri.3	+	3	646	c.319C>T	c.(319-321)CGA>TGA	p.R107*	KDM3A_uc010ytj.1_Nonsense_Mutation_p.R107*|KDM3A_uc010ytk.1_Intron	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	107					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						AATTTCTGAACGAATTGTACA	0.373													12	126					0	0	0.001368	0	0		T	86677062	T	T	86677062	4	4	4	1	0	0	0	0	0	1	0	0	8142	528	19	1	325	1	KDM3A	2	86677062	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1098959	86677062	156522311	481	2447											
KDM3A	55818	broad.mit.edu	37	chr2	86705832	86705832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aattcaaactcttttcaaagCcagcctcaaaggaagaccta	16	9	5	11	0	4	1	3	0	1	1	4	2	4	2	3	1	3	0	3	1	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:86705832C>T	uc002sri.3	+	15	2617	c.2290C>T	c.(2290-2292)CCA>TCA	p.P764S	KDM3A_uc010ytj.1_Missense_Mutation_p.P764S|KDM3A_uc010ytk.1_Missense_Mutation_p.P712S	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	764					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						CTTTTCAAAGCCAGCCTCAAA	0.363													16	90					0	0	0.00499	0	0		T	86705832	T	T	86705832	3	4	4	1	0	0	0	0	1	0	0	0	8142	739	26	2	2344	2	KDM3A	2	86705832	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	28770	86705832	156493541	482	2448											
THNSL2	55258	broad.mit.edu	37	chr2	88474827	88474827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttcaaggggcaaagaacatgGacattatcgttctgctgccc	11	10	10	10	1	2	1	1	0	1	1	3	2	2	2	1	3	3	3	1	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:88474827G>A	uc002ssz.3	+	4	631	c.478G>A	c.(478-480)GAC>AAC	p.D160N	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_Missense_Mutation_p.D160N|THNSL2_uc002ssx.3_Missense_Mutation_p.D128N|THNSL2_uc002sta.3_Missense_Mutation_p.D2N|THNSL2_uc002ssy.3_Missense_Mutation_p.D160N|THNSL2_uc010fhe.2_Missense_Mutation_p.D2N	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	160					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						AAAGAACATGGACATTATCGT	0.493													12	35					0	0	0.00245	0	0		A	88474827	A	A	88474827	3	1	4	1	0	0	0	0	1	0	0	0	15888	1174	41	4	488	4	THNSL2	2	88474827	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1768995	88474827	154724546	483	2449											
FAHD2A	51011	broad.mit.edu	37	chr2	96072853	96072853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catcatcttcagcaagtttgCcagctccatcgtggggccct	7	11	9	14	1	3	0	2	0	1	0	5	0	4	0	3	2	3	3	3	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:96072853C>T	uc002sur.2	+	3	589	c.410C>T	c.(409-411)GCC>GTC	p.A137V	FAHD2A_uc002sus.2_Missense_Mutation_p.A137V	NM_016044	NP_057128	Q96GK7	FAH2A_HUMAN	fumarylacetoacetate hydrolase domain containing	137							hydrolase activity|metal ion binding			ovary(1)	1						AGCAAGTTTGCCAGCTCCATC	0.577													18	73					0	0	0.003954	0	0		T	96072853	T	T	96072853	3	4	4	1	0	0	0	0	1	0	0	0	5384	739	26	2	416	2	FAHD2A	2	96072853	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7598026	96072853	147126520	484	2450											
STARD7	56910	broad.mit.edu	37	chr2	96858204	96858204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacactcggatgctccacaGcactggtaaggaggaaagga	13	5	13	10	1	0	0	0	0	0	0	2	4	1	4	1	5	2	4	1	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:96858204G>A	uc002svm.3	-	6	1147	c.746C>T	c.(745-747)GCT>GTT	p.A249V	STARD7_uc002svl.2_Missense_Mutation_p.A27V	NM_020151	NP_064536	Q9NQZ5	STAR7_HUMAN	START domain containing 7 precursor	249	START.					mitochondrion					0						ATGCTCCACAGCACTGGTAAG	0.453													37	128					0	0	0.00623	0	0		A	96858204	A	A	96858204	3	1	4	1	0	0	0	0	1	0	0	0	15287	971	34	2	378	2	STARD7	2	96858204	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	785351	96858204	146341169	485	2451											
ITPRIPL1	150771	broad.mit.edu	37	chr2	96992605	96992605	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaacttctggacaggagAcacatccagtgaccagttag	14	7	11	9	0	1	3	0	1	1	2	2	6	2	4	2	2	1	1	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:96992605A>G	uc002svx.2	+	3	571	c.236A>G	c.(235-237)GAC>GGC	p.D79G	ITPRIPL1_uc010yuk.1_Missense_Mutation_p.D71G|ITPRIPL1_uc002svy.2_Missense_Mutation_p.D87G|ITPRIPL1_uc010yul.1_Missense_Mutation_p.D71G	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	79	Extracellular (Potential).					integral to membrane				central_nervous_system(2)|ovary(1)	3						TGGACAGGAGACACATCCAGT	0.572													4	57					0	0	0.009096	0	0		G	96992605	G	G	96992605	3	3	4	1	0	0	0	0	1	0	0	0	7940	275	10	3	276	3	ITPRIPL1	2	96992605	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	134401	96992605	146206768	486	2452											
NCAPH	23397	broad.mit.edu	37	chr2	97024926	97024926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcgctttaggcctcgacGcaaacgtatgtaattctagg	9	11	11	10	4	1	0	0	0	1	0	2	1	1	0	1	3	1	4	1	3	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:97024926G>A	uc002svz.1	+	10	1436	c.1352G>A	c.(1351-1353)CGC>CAC	p.R451H	NCAPH_uc010fhu.1_Missense_Mutation_p.R427H|NCAPH_uc010fhv.1_Missense_Mutation_p.R440H|NCAPH_uc010yum.1_Missense_Mutation_p.R427H|NCAPH_uc010fhw.1_Missense_Mutation_p.R440H|NCAPH_uc010yun.1_Missense_Mutation_p.R315H|NCAPH_uc002swa.1_Missense_Mutation_p.R46H	NM_015341	NP_056156	Q15003	CND2_HUMAN	non-SMC condensin I complex, subunit H	451					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|microtubule cytoskeleton|nucleus				urinary_tract(1)|skin(1)	2		Ovarian(717;0.0221)				AGGCCTCGACGCAAACGTATG	0.483													7	58					0	0	0.00308	0	0		A	97024926	A	A	97024926	3	1	4	1	0	0	0	0	1	0	0	0	10228	1087	38	1	1390	1	NCAPH	2	97024926	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	32321	97024926	146174447	487	2453											
FER1L5	90342	broad.mit.edu	37	chr2	97364841	97364841	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttggcaaccgggacatgtaCcagcccaacactctggatcc	10	7	9	15	1	1	0	0	0	1	0	2	2	2	2	4	3	4	2	4	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:97364841C>T	uc010fia.2	+	41	4659	c.4659C>T	c.(4657-4659)TAC>TAT	p.Y1553Y	FER1L5_uc002sws.3_Silent_p.Y271Y|FER1L5_uc010fib.1_RNA|FER1L5_uc002swt.3_Silent_p.Y271Y|FER1L5_uc010yus.1_Silent_p.Y270Y	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1553	C2 5.					integral to membrane				ovary(1)	1						GGGACATGTACCAGCCCAACA	0.423													4	23					0	0	0.000602	0	0		T	97364841	T	T	97364841	2	4	4	1	0	0	0	0	0	0	0	1	5828	518	18	4		4	FER1L5	2	97364841	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	339915	97364841	145834532	488	2454											
FER1L5	90342	broad.mit.edu	37	chr2	97369074	97369074	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcctcgatggtggcaaatgGcgcttgtcggtaggagctgg	6	10	17	8	3	0	0	0	0	0	0	3	2	1	1	1	6	1	4	1	6	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:97369074G>A	uc010fia.2	+	49	5790	c.5790G>A	c.(5788-5790)TGG>TGA	p.W1930*	FER1L5_uc002sws.3_Nonsense_Mutation_p.W639*|FER1L5_uc002swt.3_Nonsense_Mutation_p.W639*|FER1L5_uc010yus.1_Nonsense_Mutation_p.W638*	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1930						integral to membrane				ovary(1)	1						GTGGCAAATGGCGCTTGTCGG	0.517													17	53					0	0	0.010504	0	0		A	97369074	A	A	97369074	4	1	4	1	0	0	0	0	0	1	0	0	5828	1212	42	2	5984	2	FER1L5	2	97369074	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4233	97369074	145830299	489	2455											
ANKRD36	375248	broad.mit.edu	37	chr2	97784178	97784178	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaaggactgctctgcactAcgctgtgtataatgaagata	12	11	11	7	1	1	2	0	1	1	1	1	4	1	4	0	2	3	4	0	2	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:97784178A>G	uc010yva.1	+	3	654	c.410A>G	c.(409-411)TAC>TGC	p.Y137C	ANKRD36_uc002sxn.2_Missense_Mutation_p.Y137C|ANKRD36_uc010yuz.1_RNA|ANKRD36_uc010fic.2_5'UTR|ANKRD36_uc002sxo.2_Missense_Mutation_p.Y137C|ANKRD36_uc002sxp.3_RNA	NM_001164315	NP_001157787	A6QL64	AN36A_HUMAN	ankyrin repeat domain 36	137	ANK 4.										0						GCTCTGCACTACGCTGTGTAT	0.408													18	35					0	0	0.006122	0	0		G	97784178	G	G	97784178	3	3	4	1	0	0	0	0	1	0	0	0	665	391	14	3	420	3	ANKRD36	2	97784178	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	415104	97784178	145415195	490	2456											
LIPT1	51601	broad.mit.edu	37	chr2	99778541	99778541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagtcaatttccaatgatGtctatcaaaatctggctgtg	12	14	7	8	0	4	1	2	1	2	0	5	1	5	1	1	1	1	1	1	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:99778541G>A	uc002szm.3	+	4	461	c.121G>A	c.(121-123)GTC>ATC	p.V41I	MRPL30_uc002szl.1_Intron|LIPT1_uc002szn.3_Missense_Mutation_p.V41I|LIPT1_uc002szo.3_Missense_Mutation_p.V41I|LIPT1_uc002szp.3_Missense_Mutation_p.V41I|LIPT1_uc002szq.3_Missense_Mutation_p.V41I|MRPL30_uc002szr.2_Intron	NM_145198	NP_660199	Q9Y234	LIPT_HUMAN	lipoyltransferase 1 precursor	41					lipid metabolic process|protein lipoylation	mitochondrion	acyltransferase activity				0					Lipoic Acid(DB00166)	TTCCAATGATGTCTATCAAAA	0.388													8	143					0	0	0.004482	0	0		A	99778541	A	A	99778541	3	1	4	1	0	0	0	0	1	0	0	0	8846	1377	48	4	123	4	LIPT1	2	99778541	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1994363	99778541	143420832	491	2457											
EIF5B	9669	broad.mit.edu	37	chr2	99978220	99978220	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactgtaaaatccaaagtgActgttgatactggagtaatt	16	12	8	5	0	0	2	0	2	0	0	1	3	1	3	1	1	2	3	1	1	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:99978220A>T	uc002tab.2	+	4	1040	c.856A>T	c.(856-858)ACT>TCT	p.T286S		NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	286					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						ATCCAAAGTGACTGTTGATAC	0.378													37	143					0	0	0.00623	0	0		T	99978220	T	T	99978220	3	4	4	1	0	0	0	0	1	0	0	0	5052	275	10	5	870	5	EIF5B	2	99978220	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	199679	99978220	143221153	492	2458											
TBC1D8	11138	broad.mit.edu	37	chr2	101627911	101627911	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaatgaaaagaggtacgtGccattgggtttcccgaaaac	15	8	10	8	2	0	2	0	1	0	1	1	3	1	2	2	2	4	2	2	2	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:101627911G>A	uc010fiv.2	-	18	3003	c.2872_splice	c.e18+1	p.G958_splice	RPL31_uc010yvu.1_Intron|RPL31_uc010yvv.1_Intron|RPL31_uc010fiu.1_Intron|TBC1D8_uc002tau.3_Splice_Site_p.G715_splice	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8						blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						AGAGGTACGTGCCATTGGGTT	0.517													5	89					0	0	0.004482	0	0		A	101627911	A	A	101627911	5	1	4	1	0	0	0	0	0	0	1	0	15650	1333	46	2	560	2	TBC1D8	2	101627911	Splice_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1649691	101627911	141571462	493	2459											
IL1RL1	9173	broad.mit.edu	37	chr2	102965663	102965663	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttgaaaataaatgtggCtataccttatgcatttatgg	12	16	8	5	0	1	1	0	1	1	0	1	1	1	1	1	2	2	3	1	2	8	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:102965663C>A	uc002tbu.1	+	10	1513	c.1242C>A	c.(1240-1242)GGC>GGA	p.G414G	IL18R1_uc002tbw.3_Intron	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	414	TIR.|Cytoplasmic (Potential).				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4						ATAAATGTGGCTATACCTTAT	0.413													7	99					8.12818e-05	8.5301e-05	0.001984	1	0		A	102965663	A	A	102965663	2	1	4	1	0	0	0	0	0	0	0	1	7679	784	28	5		5	IL1RL1	2	102965663	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1337752	102965663	140233710	494	2460											
MFSD9	84804	broad.mit.edu	37	chr2	103334879	103334879	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttatgttgtccaaatccatCtactcactttttaatttact	10	20	2	9	0	2	0	1	0	1	0	4	0	4	0	2	0	2	1	2	0	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:103334879C>T	uc002tcb.2	-	6	1493	c.1425G>A	c.(1423-1425)TAG>TAA	p.*475*	MFSD9_uc010fja.2_RNA	NM_032718	NP_116107	Q8NBP5	MFSD9_HUMAN	major facilitator superfamily domain containing	475					transmembrane transport	integral to membrane|plasma membrane	transporter activity			ovary(2)|breast(2)	4						CCAAATCCATCTACTCACTTT	0.453													6	101					0	0	0.001984	0	0		T	103334879	T	T	103334879	2	4	4	1	0	0	0	0	0	0	0	1	9557	924	32	4		4	MFSD9	2	103334879	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	369216	103334879	139864494	495	2461											
MRPS9	64965	broad.mit.edu	37	chr2	105713663	105713663	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccggctgggaaagcacgAcgtgacctgcacagtctcag	10	6	13	12	3	1	2	1	2	1	0	2	4	1	3	2	2	2	3	2	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:105713663A>G	uc002tcn.3	+	10	1048	c.980A>G	c.(979-981)GAC>GGC	p.D327G		NM_182640	NP_872578	P82933	RT09_HUMAN	mitochondrial ribosomal protein S9 precursor	327					DNA damage response, detection of DNA damage|translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0						GGAAAGCACGACGTGACCTGC	0.512													4	44					0	0	0.000602	0	0		G	105713663	G	G	105713663	3	3	4	1	0	0	0	0	1	0	0	0	9867	275	10	3	1018	3	MRPS9	2	105713663	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	2378784	105713663	137485710	496	2462											
GPR45	11250	broad.mit.edu	37	chr2	105858977	105858977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacatgtgcatcctcaacaCggtccgcaagaacgccgtgc	10	7	9	15	4	1	1	1	0	0	1	3	1	3	1	3	1	5	2	3	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:105858977C>T	uc002tco.1	+	1	778	c.662C>T	c.(661-663)ACG>ATG	p.T221M		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	221	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						ATCCTCAACACGGTCCGCAAG	0.677													14	28					0	0	0.001855	0	0		T	105858977	T	T	105858977	3	4	4	1	0	0	0	0	1	0	0	0	6711	536	19	1	664	1	GPR45	2	105858977	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	145314	105858977	137340396	497	2463											
ST6GAL2	84620	broad.mit.edu	37	chr2	107460198	107460198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtgggcgcggggcagcGcctggcgtgcgtccaggccc	2	5	20	14	5	0	0	0	0	0	0	1	0	1	0	3	6	2	1	3	6	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:107460198G>A	uc002tdq.2	-	2	355	c.236C>T	c.(235-237)GCG>GTG	p.A79V	ST6GAL2_uc002tdr.2_Missense_Mutation_p.A79V|ST6GAL2_uc002tds.3_Missense_Mutation_p.A79V	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	79	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity	p.A79V(1)		pancreas(6)|ovary(4)|skin(1)	11						GCGGGGCAGCGCCTGGCGTGC	0.662													6	17					0	0	0.00308	0	0		A	107460198	A	A	107460198	3	1	4	1	0	0	0	0	1	0	0	0	15247	1087	38	1	1460	1	ST6GAL2	2	107460198	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1601221	107460198	135739175	498	2464											
SLC5A7	60482	broad.mit.edu	37	chr2	108618435	108618435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgccaaataccaaaagcCgtggctgggaactgttgact	12	8	11	10	1	0	1	0	1	0	0	0	2	0	2	3	2	4	3	3	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:108618435C>T	uc002tdv.2	+	6	956	c.680C>T	c.(679-681)CCG>CTG	p.P227L	SLC5A7_uc010ywm.1_5'UTR|SLC5A7_uc010fjj.2_Missense_Mutation_p.P227L|SLC5A7_uc010ywn.1_Missense_Mutation_p.P114L	NM_021815	NP_068587	Q9GZV3	SC5A7_HUMAN	solute carrier family 5 (choline transporter),	227	Cytoplasmic (Potential).				acetylcholine biosynthetic process|neurotransmitter secretion	integral to membrane|plasma membrane	choline:sodium symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4					Choline(DB00122)	TACCAAAAGCCGTGGCTGGGA	0.453													11	62					0	0	0.001368	0	0		T	108618435	T	T	108618435	3	4	4	1	0	0	0	0	1	0	0	0	14695	652	23	1	698	1	SLC5A7	2	108618435	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1158237	108618435	134580938	499	2465											
SULT1C3	442038	broad.mit.edu	37	chr2	108868906	108868906	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcccagactctagatagAcacgctttccttgaactgaa	13	9	8	11	1	1	6	0	2	1	4	2	6	2	6	2	0	2	1	2	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:108868906A>G	uc010ywo.1	+	2	258	c.258A>G	c.(256-258)AGA>AGG	p.R86R		NM_001008743	NP_001008743	Q6IMI6	ST1C3_HUMAN	sulfotransferase family, cytosolic, 1C, member	86						cytoplasm	alcohol sulfotransferase activity			skin(1)	1						CTCTAGATAGACACGCTTTCC	0.373													3	52					0	0	0.004672	0	0		G	108868906	G	G	108868906	2	3	4	1	0	0	0	0	0	0	0	1	15403	272	10	3		3	SULT1C3	2	108868906	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	250471	108868906	134330467	500	2466											
RANBP2	5903	broad.mit.edu	37	chr2	109382686	109382686	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccctgtgtctgctgatggAtttaaatttggcatttcgga	8	16	10	7	1	1	1	0	1	1	0	3	3	2	3	1	3	1	2	1	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:109382686A>G	uc002tem.3	+	20	5817	c.5691A>G	c.(5689-5691)GGA>GGG	p.G1897G		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1897					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						CTGCTGATGGATTTAAATTTG	0.383													19	205					0	0	0.00278	0	0		G	109382686	G	G	109382686	2	3	4	1	0	0	0	0	0	0	0	1	13053	320	12	3		3	RANBP2	2	109382686	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	513780	109382686	133816687	501	2467											
NPHP1	4867	broad.mit.edu	37	chr2	110927445	110927445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagcgatgtattcttcacCggttgaccatttgtgagatt	10	14	9	8	2	2	2	1	2	1	1	2	4	2	2	2	1	2	2	2	1	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:110927445C>T	uc002tfn.3	-	5	554	c.460G>A	c.(460-462)GGT>AGT	p.G154S	NPHP1_uc002tfm.3_Missense_Mutation_p.G154S|NPHP1_uc002tfl.3_Missense_Mutation_p.G154S|NPHP1_uc002tfo.3_Missense_Mutation_p.G92S|NPHP1_uc010ywx.1_Missense_Mutation_p.G154S|NPHP1_uc010fjv.1_Missense_Mutation_p.G154S	NM_207181	NP_997064	O15259	NPHP1_HUMAN	nephrocystin 1 isoform 2	154	SH3.				actin cytoskeleton organization|cell projection organization|cell-cell adhesion|excretion|retina development in camera-type eye|signal transduction|spermatid differentiation|visual behavior	adherens junction|cell-cell junction|cilium axoneme|cytoplasm|cytoskeleton|motile cilium|photoreceptor connecting cilium	protein binding|structural molecule activity			ovary(2)	2						TATTCTTCACCGGTTGACCAT	0.244													26	61					0	0	0.008361	0	0		T	110927445	T	T	110927445	3	4	4	1	0	0	0	0	1	0	0	0	10598	652	23	1	1805	1	NPHP1	2	110927445	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1544759	110927445	132271928	502	2468											
TTL	150465	broad.mit.edu	37	chr2	113243554	113243554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtgctgacaaactgtgtcGcaaagcttctttagtgaagt	10	12	12	7	1	1	2	0	2	1	0	2	2	1	2	0	1	3	3	0	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:113243554G>A	uc002thu.2	+	2	397	c.218G>A	c.(217-219)CGC>CAC	p.R73H		NM_153712	NP_714923	Q8NG68	TTL_HUMAN	tubulin tyrosine ligase	73	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)		AAACTGTGTCGCAAAGCTTCT	0.458			T	ETV6	ALL								9	102					0	0	0.006214	0	0		A	113243554	A	A	113243554	3	1	4	1	0	0	0	0	1	0	0	0	16747	1087	38	1	224	1	TTL	2	113243554	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2316109	113243554	129955819	503	2469											
POLR1B	84172	broad.mit.edu	37	chr2	113331267	113331267	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttggcatcaaacctggtgaCccacgcgttctgcagaagtt	9	11	10	11	2	2	2	1	1	1	1	2	2	2	2	2	2	2	4	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:113331267C>T	uc002thw.2	+	14	2980	c.2400C>T	c.(2398-2400)GAC>GAT	p.D800D	POLR1B_uc010fkn.2_Silent_p.D744D|POLR1B_uc002thx.2_Silent_p.D661D|POLR1B_uc010fko.2_Silent_p.D617D|POLR1B_uc010fkp.2_Silent_p.D239D|POLR1B_uc010yxn.1_Silent_p.D838D|POLR1B_uc002thy.2_Silent_p.D661D|POLR1B_uc010yxo.1_Silent_p.D577D	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	800				D -> G (in Ref. 1; BAC87247).	termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1						AACCTGGTGACCCACGCGTTC	0.463													38	95					0	0	0.006999	0	0		T	113331267	T	T	113331267	2	4	4	1	0	0	0	0	0	0	0	1	12229	506	18	4		4	POLR1B	2	113331267	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	87713	113331267	129868106	504	2470											
SLC20A1	6574	broad.mit.edu	37	chr2	113414818	113414818	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgaagagaaaaattgaaCgtaagtaataactaaacagc	21	7	9	4	1	0	3	0	2	0	1	0	5	0	4	0	1	4	2	0	1	9	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:113414818C>T	uc002tib.2	+	6	1224	c.778C>T	c.(778-780)CGA>TGA	p.R260*	SLC20A1_uc002tic.1_Nonsense_Mutation_p.R72*	NM_005415	NP_005406	Q8WUM9	S20A1_HUMAN	solute carrier family 20 (phosphate	260	Cytoplasmic (Potential).				phosphate metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to plasma membrane	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity			ovary(2)	2						AAAAATTGAACGTAAGTAATA	0.373													13	42					0	0	0.001368	0	0		T	113414818	T	T	113414818	4	4	4	1	0	0	0	0	0	1	0	0	14463	550	19	1	796	1	SLC20A1	2	113414818	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	83551	113414818	129784555	505	2471											
CKAP2L	150468	broad.mit.edu	37	chr2	113510001	113510001	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgttttaagttccataggaGgccgtttataggtttttccc	7	18	9	7	1	0	0	0	0	0	0	2	1	2	1	3	3	0	4	3	3	4	10			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:113510001G>T	uc002tie.2	-	5	1524	c.1445C>A	c.(1444-1446)CCT>CAT	p.P482H	CKAP2L_uc002tif.2_Missense_Mutation_p.P71H|CKAP2L_uc010yxp.1_Missense_Mutation_p.P317H|CKAP2L_uc010yxq.1_Missense_Mutation_p.P317H	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	482						centrosome					0						TTCCATAGGAGGCCGTTTATA	0.313													8	50					0.00307968	0.00319789	0.00308	1	0		T	113510001	T	T	113510001	3	4	4	1	0	0	0	0	1	0	0	0	3446	1000	35	5	812	5	CKAP2L	2	113510001	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	95183	113510001	129689372	506	2472											
CKAP2L	150468	broad.mit.edu	37	chr2	113514730	113514730	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctggagtttaatgctgatgGaccttttaggtttgacaggc	8	14	13	6	0	0	2	0	2	0	0	0	4	0	4	1	4	1	4	1	4	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:113514730G>T	uc002tie.2	-	4	297	c.218C>A	c.(217-219)TCC>TAC	p.S73Y	CKAP2L_uc002tif.2_5'UTR|CKAP2L_uc010yxp.1_5'UTR|CKAP2L_uc010yxq.1_5'UTR	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	73						centrosome					0						AATGCTGATGGACCTTTTAGG	0.403													11	201					0.00010058	0.000105469	0.001368	1	0		T	113514730	T	T	113514730	3	4	4	1	0	0	0	0	1	0	0	0	3446	1174	41	5	2043	5	CKAP2L	2	113514730	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4729	113514730	129684643	507	2473											
CKAP2L	150468	broad.mit.edu	37	chr2	113520091	113520091	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taaactcacttggtgttttgGctcttcagttttcccttggc	5	18	8	10	0	3	0	2	0	1	0	4	0	4	0	1	3	1	3	1	3	2	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:113520091G>A	uc002tie.2	-	2	172	c.93C>T	c.(91-93)AGC>AGT	p.S31S	CKAP2L_uc002tif.2_5'UTR|CKAP2L_uc010yxp.1_5'UTR|CKAP2L_uc010yxq.1_Intron	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	31						centrosome					0						TGGTGTTTTGGCTCTTCAGTT	0.413													6	33					0	0	0.00308	0	0		A	113520091	A	A	113520091	2	1	4	1	0	0	0	0	0	0	0	1	3446	1194	42	2		2	CKAP2L	2	113520091	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5361	113520091	129679282	508	2474											
DPP10	57628	broad.mit.edu	37	chr2	116572398	116572398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaggaggccagctggttaCagataagttccatattgact	12	10	10	9	0	0	2	0	1	0	1	1	3	1	3	3	3	2	3	3	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:116572398C>T	uc002tla.1	+	20	2187	c.1730C>T	c.(1729-1731)ACA>ATA	p.T577I	DPP10_uc002tlb.1_Missense_Mutation_p.T527I|DPP10_uc002tlc.1_Missense_Mutation_p.T573I|DPP10_uc002tle.2_Missense_Mutation_p.T581I|DPP10_uc002tlf.1_Missense_Mutation_p.T570I	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	577	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						CAGCTGGTTACAGATAAGTTC	0.408													27	83					0	0	0.009535	0	0		T	116572398	T	T	116572398	3	4	4	1	0	0	0	0	1	0	0	0	4733	478	17	4	1979	4	DPP10	2	116572398	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3052307	116572398	126626975	509	2475											
DDX18	8886	broad.mit.edu	37	chr2	118577236	118577236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaccaaagatacgaaaaaaGcaaaaactgaaaacaaaggg	26	2	7	6	1	0	2	0	1	0	1	0	3	0	2	1	1	5	1	1	1	11	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:118577236G>A	uc002tlh.1	+	3	481	c.382G>A	c.(382-384)GCA>ACA	p.A128T		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	128							ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4						TACGAAAAAAGCAAAAACTGA	0.308											OREG0003814	type=REGULATORY REGION|Gene=DDX18|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	13	42					0	0	0.004007	0	0		A	118577236	A	A	118577236	3	1	4	1	0	0	0	0	1	0	0	0	4348	971	34	2	392	2	DDX18	2	118577236	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2004838	118577236	124622137	510	2476											
CCDC93	54520	broad.mit.edu	37	chr2	118732839	118732839	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagccctgctggaagtgcCgttttcttgtcctcagcctg	5	12	11	13	1	2	0	1	0	1	0	3	2	3	1	4	1	4	2	4	1	1	3	rs140835483		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:118732839C>T	uc002tlj.2	-	9	801	c.675G>A	c.(673-675)ACG>ACA	p.T225T	CCDC93_uc010fld.1_Silent_p.T225T	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	225										large_intestine(1)|ovary(1)	2						CTGGAAGTGCCGTTTTCTTGT	0.522													47	97					0	0	0.00361	0	0		T	118732839	T	T	118732839	2	4	4	1	0	0	0	0	0	0	0	1	2875	639	23	1		1	CCDC93	2	118732839	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	155603	118732839	124466534	511	2477											
MARCO	8685	broad.mit.edu	37	chr2	119752090	119752090	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgcaggcgtggagtgcagCgtctgacccggaaacccttt	8	7	14	12	4	1	1	0	1	1	0	1	4	1	3	2	3	3	2	2	3	1	1	rs150890503	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:119752090C>T	uc002tln.1	+	17	1689	c.1557C>T	c.(1555-1557)AGC>AGT	p.S519S	MARCO_uc010yyf.1_Silent_p.S441S	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	519	SRCR.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TGGAGTGCAGCGTCTGACCCG	0.602													8	32					0	0	0.006214	0	0		T	119752090	T	T	119752090	2	4	4	1	0	0	0	0	0	0	0	1	9329	767	27	1		1	MARCO	2	119752090	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1019251	119752090	123447283	512	2478											
STEAP3	55240	broad.mit.edu	37	chr2	120005382	120005382	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggaggccatgcccctgcGcctcctcccggcctggaagg	4	6	15	16	2	0	0	0	0	0	0	2	2	2	2	7	6	2	0	7	6	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:120005382G>A	uc002tlp.2	+	4	777	c.620G>A	c.(619-621)CGC>CAC	p.R207H	STEAP3_uc002tlq.2_Missense_Mutation_p.R217H|STEAP3_uc002tlr.2_Missense_Mutation_p.R207H|STEAP3_uc010fle.2_Missense_Mutation_p.R207H	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	207	Cytoplasmic (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						ATGCCCCTGCGCCTCCTCCCG	0.662													5	22					0	0	0.001168	0	0		A	120005382	A	A	120005382	3	1	4	1	0	0	0	0	1	0	0	0	15304	1087	38	1	660	1	STEAP3	2	120005382	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	253292	120005382	123193991	513	2479											
STEAP3	55240	broad.mit.edu	37	chr2	120005645	120005645	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcgcttccccgactggCtggaccactggctacagcac	8	6	10	17	2	0	0	0	0	0	0	1	2	1	1	4	3	3	4	4	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:120005645C>T	uc002tlp.2	+	4	1040	c.883C>T	c.(883-885)CTG>TTG	p.L295L	STEAP3_uc002tlq.2_Silent_p.L305L|STEAP3_uc002tlr.2_Silent_p.L295L|STEAP3_uc010fle.2_Silent_p.L295L	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	295	Ferric oxidoreductase.|Cytoplasmic (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						CCCCGACTGGCTGGACCACTG	0.687													3	12					0	0	0.001984	0	0		T	120005645	T	T	120005645	2	4	4	1	0	0	0	0	0	0	0	1	15304	796	28	2		2	STEAP3	2	120005645	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	263	120005645	123193728	514	2480											
TMEM177	80775	broad.mit.edu	37	chr2	120438707	120438707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccttccaacctgtgagtgCaggcttcccaagactccctg	8	9	8	16	0	0	2	0	1	0	1	3	2	3	2	5	1	2	2	5	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:120438707C>T	uc010flg.1	+	2	751	c.278C>T	c.(277-279)GCA>GTA	p.A93V	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Missense_Mutation_p.A93V|TMEM177_uc002tmd.2_Missense_Mutation_p.A93V|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	93						integral to membrane				ovary(1)	1	Colorectal(110;0.196)					CCTGTGAGTGCAGGCTTCCCA	0.557													7	139					0	0	0.004482	0	0		T	120438707	T	T	120438707	3	4	4	1	0	0	0	0	1	0	0	0	16119	710	25	2	280	2	TMEM177	2	120438707	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	433062	120438707	122760666	515	2481											
TMEM177	80775	broad.mit.edu	37	chr2	120438980	120438980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcagggacctgggcactggGcgtgggtgccaagtacaccc	7	5	17	12	1	0	0	0	0	0	0	0	1	0	1	3	5	2	3	3	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:120438980G>A	uc010flg.1	+	2	1024	c.551G>A	c.(550-552)GGC>GAC	p.G184D	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Missense_Mutation_p.G184D|TMEM177_uc002tmd.2_Missense_Mutation_p.G184D|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	184	Helical; (Potential).					integral to membrane				ovary(1)	1	Colorectal(110;0.196)					TGGGCACTGGGCGTGGGTGCC	0.642													7	15					0	0	0.00308	0	0		A	120438980	A	A	120438980	3	1	4	1	0	0	0	0	1	0	0	0	16119	1203	42	2	553	2	TMEM177	2	120438980	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	273	120438980	122760393	516	2482											
TMEM177	80775	broad.mit.edu	37	chr2	120439194	120439194	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctatgagaagcttctgtcGggcaacctggccctgcgcag	7	10	12	12	2	2	1	0	1	2	1	3	2	2	1	2	2	3	3	2	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:120439194G>A	uc010flg.1	+	2	1238	c.765G>A	c.(763-765)TCG>TCA	p.S255S	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Silent_p.S255S|TMEM177_uc002tmd.2_Silent_p.S255S|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	255						integral to membrane				ovary(1)	1	Colorectal(110;0.196)					AGCTTCTGTCGGGCAACCTGG	0.587													6	51					0	0	0.001984	0	0		A	120439194	A	A	120439194	2	1	4	1	0	0	0	0	0	0	0	1	16119	1103	39	1		1	TMEM177	2	120439194	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	214	120439194	122760179	517	2483											
MYO7B	4648	broad.mit.edu	37	chr2	128339927	128339927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcaagaagatcaatgccGccatcttcacaccaccagcc	12	8	6	15	1	4	2	3	0	1	2	4	2	4	2	5	0	2	0	5	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:128339927G>A	uc002top.2	+	12	1302	c.1249G>A	c.(1249-1251)GCC>ACC	p.A417T		NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	417	Myosin head-like.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GATCAATGCCGCCATCTTCAC	0.547													9	24					0	0	0.004482	0	0		A	128339927	A	A	128339927	3	1	4	1	0	0	0	0	1	0	0	0	10101	1087	38	1	1291	1	MYO7B	2	128339927	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	7900733	128339927	114859446	518	2484											
MYO7B	4648	broad.mit.edu	37	chr2	128394476	128394476	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtggcagccgcctgctgtgCgagacctccctggtgagctc	4	8	14	15	3	0	2	0	1	0	1	2	3	1	2	4	2	4	3	4	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:128394476C>T	uc002top.2	+	46	6290	c.6237C>T	c.(6235-6237)TGC>TGT	p.C2079C	MYO7B_uc002tos.1_Silent_p.C189C|MYO7B_uc002tot.2_Silent_p.C189C	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	2079	FERM 2.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GCCTGCTGTGCGAGACCTCCC	0.612													4	11					0	0	0.001168	0	0		T	128394476	T	T	128394476	2	4	4	1	0	0	0	0	0	0	0	1	10101	776	27	1		1	MYO7B	2	128394476	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	54549	128394476	114804897	519	2485											
GPR17	2840	broad.mit.edu	37	chr2	128408489	128408489	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttttcatccgagaccaCaagtccgggaccccggccaa	9	7	10	15	3	1	1	1	0	0	1	3	3	3	2	6	3	0	1	6	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:128408489C>T	uc010yzn.1	+	4	875	c.264C>T	c.(262-264)CAC>CAT	p.H88H	LIMS2_uc002tow.2_5'Flank|LIMS2_uc002tox.2_Intron|LIMS2_uc010fmb.2_Intron|LIMS2_uc002toy.2_Intron|LIMS2_uc010yzm.1_Intron|LIMS2_uc002tpa.2_Intron|LIMS2_uc002toz.2_Intron|LIMS2_uc002tpb.2_Intron|GPR17_uc002tpc.2_Silent_p.H88H|GPR17_uc010yzo.1_Silent_p.H60H|GPR17_uc002tpd.2_Silent_p.H60H	NM_001161415	NP_001154887	Q13304	GPR17_HUMAN	G protein-coupled receptor 17 isoform a	88	Cytoplasmic (Potential).					integral to plasma membrane	chemokine receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	Colorectal(110;0.1)	Ovarian(717;0.15)		BRCA - Breast invasive adenocarcinoma(221;0.0677)		TCCGAGACCACAAGTCCGGGA	0.423													11	70					0	0	0.000978	0	0		T	128408489	T	T	128408489	2	4	4	1	0	0	0	0	0	0	0	1	6682	477	17	4		4	GPR17	2	128408489	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	14013	128408489	114790884	520	2486											
WDR33	55339	broad.mit.edu	37	chr2	128471545	128471545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccgctctgctcatgccGcctctctgacatcgggccca	4	8	9	20	4	3	1	1	1	2	0	5	1	3	1	5	1	2	2	5	1	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:128471545G>A	uc002tpg.1	-	18	3103	c.2920C>T	c.(2920-2922)CGG>TGG	p.R974W		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	974					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		TGCTCATGCCGCCTCTCTGAC	0.632													9	16					0	0	0.004007	0	0		A	128471545	A	A	128471545	3	1	4	1	0	0	0	0	1	0	0	0	17313	1086	38	1	1110	1	WDR33	2	128471545	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	63056	128471545	114727828	521	2487											
TUBA3E	112714	broad.mit.edu	37	chr2	130949603	130949603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggcgggcccaggcctccGcaatggccgtggtgttgctc	4	7	15	15	3	0	0	0	0	0	0	2	0	1	0	5	5	1	3	5	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:130949603G>A	uc002tqv.2	-	5	1255	c.1154C>T	c.(1153-1155)GCG>GTG	p.A385V		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	385					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					CCAGGCCTCCGCAATGGCCGT	0.627													7	60					0	0	0.006214	0	0		A	130949603	A	A	130949603	3	1	4	1	0	0	0	0	1	0	0	0	16774	1087	38	1	202	1	TUBA3E	2	130949603	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2478058	130949603	112249770	522	2488											
POTEE	445582	broad.mit.edu	37	chr2	131976329	131976329	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggcaagagcaaggtgggCgcttggggagactacgatga	11	5	18	7	3	0	3	0	1	0	2	0	5	0	3	0	5	3	3	0	5	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:131976329C>T	uc002tsn.2	+	1	406	c.354C>T	c.(352-354)GGC>GGT	p.G118G	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	118							ATP binding				0						GCAAGGTGGGCGCTTGGGGAG	0.597													30	118					0	0	0.006999	0	0		T	131976329	T	T	131976329	2	4	4	1	0	0	0	0	0	0	0	1	12283	755	27	1		1	POTEE	2	131976329	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1026726	131976329	111223044	523	2489											
POTEE	445582	broad.mit.edu	37	chr2	131976349	131976349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttggggagactacgatgAcagcgccttcatggagccca	9	7	13	12	3	1	2	1	1	0	1	1	5	1	3	2	3	3	1	2	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:131976349A>G	uc002tsn.2	+	1	426	c.374A>G	c.(373-375)GAC>GGC	p.D125G	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	125							ATP binding				0						GACTACGATGACAGCGCCTTC	0.592													10	138					0	0	0.001368	0	0		G	131976349	G	G	131976349	3	3	4	1	0	0	0	0	1	0	0	0	12283	275	10	3	376	3	POTEE	2	131976349	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	20	131976349	111223024	524	2490											
NCKAP5	344148	broad.mit.edu	37	chr2	133547759	133547759	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagggcatttcaaggccgatTttgtatttagttggtgttcc	7	16	11	7	1	1	0	1	0	0	0	2	1	2	0	2	3	0	4	2	3	3	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:133547759T>C	uc002ttp.2	-	13	1303	c.929A>G	c.(928-930)AAA>AGA	p.K310R	NCKAP5_uc002ttq.2_Missense_Mutation_p.K310R	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	310							protein binding				0						CAAGGCCGATTTTGTATTTAG	0.483													3	42					0	0	0.004672	0	0		C	133547759	C	C	133547759	3	2	4	1	0	0	0	0	1	0	0	0	10242	1841	64	3	4832	3	NCKAP5	2	133547759	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1571410	133547759	109651614	525	2491											
NCKAP5	344148	broad.mit.edu	37	chr2	133887575	133887575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactgctgctgcaagctacGcatctgaattctgttgcgtt	8	13	10	10	2	2	1	0	1	2	0	2	2	2	1	0	0	7	7	0	0	4	4	rs142446996	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:133887575G>A	uc002ttp.2	-	6	690	c.316C>T	c.(316-318)CGT>TGT	p.R106C	NCKAP5_uc002ttq.2_Missense_Mutation_p.R106C|NCKAP5_uc002ttt.1_Missense_Mutation_p.R106C|NCKAP5_uc002tts.1_Missense_Mutation_p.R81C	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	106	Potential.						protein binding				0						TGCAAGCTACGCATCTGAATT	0.488													12	24					0	0	0.001368	0	0		A	133887575	A	A	133887575	3	1	4	1	0	0	0	0	1	0	0	0	10242	1087	38	1	5473	1	NCKAP5	2	133887575	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	339816	133887575	109311798	526	2492											
NCKAP5	344148	broad.mit.edu	37	chr2	134060653	134060653	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaagctgagtcagcagatgCtcaatgtatttattggagtc	11	13	10	7	0	3	2	3	1	0	1	4	3	3	3	0	1	3	4	0	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:134060653C>A	uc002ttp.2	-	4	473	c.99G>T	c.(97-99)GAG>GAT	p.E33D	NCKAP5_uc002ttq.2_Missense_Mutation_p.E33D|NCKAP5_uc002ttt.1_Missense_Mutation_p.E33D|NCKAP5_uc002tts.1_Missense_Mutation_p.E8D	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	33							protein binding				0						TCAGCAGATGCTCAATGTATT	0.428													9	25					0.000442599	0.000462162	0.006214	1	0		A	134060653	A	A	134060653	3	1	4	1	0	0	0	0	1	0	0	0	10242	796	28	5	5698	5	NCKAP5	2	134060653	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	173078	134060653	109138720	527	2493											
MGAT5	4249	broad.mit.edu	37	chr2	135185968	135185968	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgccatatgaatttacgtgCgaggggatgctacagagaat	13	10	12	6	2	0	2	0	1	0	1	0	5	0	3	1	2	5	1	1	2	5	4	rs146926321	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:135185968C>T	uc002ttv.1	+	14	1972	c.1827C>T	c.(1825-1827)TGC>TGT	p.C609C		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	609	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		AATTTACGTGCGAGGGGATGC	0.453													18	85					0	0	0.001882	0	0		T	135185968	T	T	135185968	2	4	4	1	0	0	0	0	0	0	0	1	9566	776	27	1		1	MGAT5	2	135185968	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1125315	135185968	108013405	528	2494											
ACMSD	130013	broad.mit.edu	37	chr2	135630090	135630090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccatggattcagcatgcGcccagatctgtgtgcccagg	7	9	11	14	1	2	1	1	0	1	1	3	2	3	2	3	2	3	1	3	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:135630090G>A	uc002ttz.2	+	8	795	c.728G>A	c.(727-729)CGC>CAC	p.R243H	ACMSD_uc002tua.2_Missense_Mutation_p.R185H|uc010zbe.1_Intron	NM_138326	NP_612199	Q8TDX5	ACMSD_HUMAN	aminocarboxymuconate semialdehyde decarboxylase	243					quinolinate metabolic process|tryptophan catabolic process	cytosol	aminocarboxymuconate-semialdehyde decarboxylase activity|metal ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.115)		TTCAGCATGCGCCCAGATCTG	0.493													10	39					0	0	0.006214	0	0		A	135630090	A	A	135630090	3	1	4	1	0	0	0	0	1	0	0	0	144	1087	38	1	758	1	ACMSD	2	135630090	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	444122	135630090	107569283	529	2495											
R3HDM1	23518	broad.mit.edu	37	chr2	136473231	136473231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaccaccactttccatcatgCcccaattttctagacctttt	9	14	3	15	0	2	1	1	0	1	1	3	2	3	1	6	0	1	0	6	0	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:136473231C>T	uc002tuo.2	+	23	3113	c.2743C>T	c.(2743-2745)CCC>TCC	p.P915S	R3HDM1_uc010fni.2_Missense_Mutation_p.P914S|R3HDM1_uc002tup.2_Missense_Mutation_p.P860S|R3HDM1_uc010zbh.1_Missense_Mutation_p.P663S	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	915							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		TTCCATCATGCCCCAATTTTC	0.488													27	94					0	0	0.009535	0	0		T	136473231	T	T	136473231	3	4	4	1	0	0	0	0	1	0	0	0	12912	739	26	2	2825	2	R3HDM1	2	136473231	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	843141	136473231	106726142	530	2496											
UBXN4	23190	broad.mit.edu	37	chr2	136513161	136513161	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgtctactccatctgcGtcatttgaacctaacaacac	11	12	5	13	1	4	1	2	1	2	0	5	1	5	1	2	0	5	0	2	0	4	3	rs149655604	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:136513161G>A	uc002tur.2	+	5	719	c.408G>A	c.(406-408)GCG>GCA	p.A136A	UBXN4_uc002tus.2_5'UTR	NM_014607	NP_055422	Q92575	UBXN4_HUMAN	UBX domain containing 2	136	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|nuclear envelope	protein binding			skin(2)	2						CTCCATCTGCGTCATTTGAAC	0.393													24	45					0	0	0.003954	0	0		A	136513161	A	A	136513161	2	1	4	1	0	0	0	0	0	0	0	1	16942	1132	40	1		1	UBXN4	2	136513161	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	39930	136513161	106686212	531	2497											
LCT	3938	broad.mit.edu	37	chr2	136558281	136558281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcacgccaccttgactggCgcggtacacatcgttgtaca	10	9	9	13	4	1	1	1	1	0	0	2	1	1	1	2	2	2	3	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:136558281C>T	uc002tuu.1	-	12	4773	c.4762G>A	c.(4762-4764)GCC>ACC	p.A1588T		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1588	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CCTTGACTGGCGCGGTACACA	0.542													23	47					0	0	0.003954	0	0		T	136558281	T	T	136558281	3	4	4	1	0	0	0	0	1	0	0	0	8709	768	27	1	1045	1	LCT	2	136558281	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	45120	136558281	106641092	532	2498											
LCT	3938	broad.mit.edu	37	chr2	136567187	136567187	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgataagcggaagaggacacGccccacagaaagtcatcccg	14	4	11	12	3	1	3	1	1	0	2	2	5	2	5	3	2	1	0	3	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:136567187G>A	uc002tuu.1	-	8	2741	c.2730C>T	c.(2728-2730)GGC>GGT	p.G910G		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	910	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity	p.G910V(1)		ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		AAGAGGACACGCCCCACAGAA	0.527													8	74					0	0	0.00308	0	0		A	136567187	A	A	136567187	2	1	4	1	0	0	0	0	0	0	0	1	8709	1074	38	1		1	LCT	2	136567187	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8906	136567187	106632186	533	2499											
CXCR4	7852	broad.mit.edu	37	chr2	136872597	136872597	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctccaaggaaagcatagaGgatggggttcagacaacagt	14	6	14	7	0	1	2	1	0	0	2	2	4	2	4	1	5	2	3	1	5	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:136872597G>T	uc002tuz.2	-	2	996	c.901C>A	c.(901-903)CTC>ATC	p.L301I	CXCR4_uc002tuy.2_Missense_Mutation_p.L305I|CXCR4_uc010fnk.2_Missense_Mutation_p.L286I	NM_003467	NP_003458	P61073	CXCR4_HUMAN	chemokine (C-X-C motif) receptor 4 isoform b	301	Helical; Name=7.				activation of MAPK activity|apoptosis|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|inflammatory response|initiation of viral infection|regulation of chemotaxis|response to hypoxia|response to virus	cell leading edge|cell surface|cytoplasmic membrane-bounded vesicle|integral to membrane|plasma membrane	actin binding|C-X-C chemokine receptor activity|coreceptor activity|myosin light chain binding|ubiquitin binding|ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.155)	Framycetin(DB00452)	AAAGCATAGAGGATGGGGTTC	0.507													10	621					2.17888e-05	2.29724e-05	0.006214	1	0		T	136872597	T	T	136872597	3	4	4	1	0	0	0	0	1	0	0	0	4096	1000	35	5	161	5	CXCR4	2	136872597	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	305410	136872597	106326776	534	2500											
THSD7B	80731	broad.mit.edu	37	chr2	137928508	137928508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtctgccagaatgaccgcGgtatgacccagtgacccact	9	7	10	15	3	1	4	0	3	1	1	1	4	1	4	5	1	1	1	5	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:137928508G>A	uc002tva.1	+	6	1630	c.1630G>A	c.(1630-1632)GGA>AGA	p.G544R	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.G434R	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GAATGACCGCGGTATGACCCA	0.488													9	40					0	0	0.008291	0	0		A	137928508	A	A	137928508	3	1	4	1	0	0	0	0	1	0	0	0	15905	1130	39	1	1652	1	THSD7B	2	137928508	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1055911	137928508	105270865	535	2501											
HNMT	3176	broad.mit.edu	37	chr2	138762705	138762705	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttcctcctttctagatgCtgtattatgtaaaagacatc	10	18	5	8	0	1	2	0	0	1	2	4	2	3	2	2	0	1	3	2	0	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:138762705C>T	uc002tvc.2	+	6	581	c.433C>T	c.(433-435)CTG>TTG	p.L145L	HNMT_uc002tvf.2_Silent_p.L145L	NM_006895	NP_008826	P50135	HNMT_HUMAN	histamine N-methyltransferase isoform 1	145					respiratory gaseous exchange	cytoplasm	histamine N-methyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.125)	Amodiaquine(DB00613)|Histamine Phosphate(DB00667)|Quinacrine(DB01103)	TTTCTAGATGCTGTATTATGT	0.368													26	79					0	0	0.00632	0	0		T	138762705	T	T	138762705	2	4	4	1	0	0	0	0	0	0	0	1	7271	796	28	2		2	HNMT	2	138762705	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	834197	138762705	104436668	536	2502											
LRP1B	53353	broad.mit.edu	37	chr2	141259398	141259398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagacctccactgggaatgCacctgccatttttgcacata	12	10	7	12	0	0	1	0	0	0	1	1	2	1	2	4	1	3	2	4	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:141259398C>T	uc002tvj.1	-	55	9680	c.8708G>A	c.(8707-8709)TGC>TAC	p.C2903Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2903	Extracellular (Potential).|LDL-receptor class A 20.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACTGGGAATGCACCTGCCATT	0.373										TSP Lung(27;0.18)			7	25					0	0	0.000978	0	0		T	141259398	T	T	141259398	3	4	4	1	0	0	0	0	1	0	0	0	8973	710	25	2	5239	2	LRP1B	2	141259398	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2496693	141259398	101939975	537	2503											
LRP1B	53353	broad.mit.edu	37	chr2	141294197	141294197	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatctttacagtgaggaatgCcatcacaggtgagctggtag	11	11	12	7	0	2	2	1	2	1	0	2	3	2	3	1	3	3	2	1	3	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:141294197C>T	uc002tvj.1	-	46	8567	c.7595G>A	c.(7594-7596)GGC>GAC	p.G2532D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2532	Extracellular (Potential).|LDL-receptor class A 11.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GTGAGGAATGCCATCACAGGT	0.378										TSP Lung(27;0.18)			17	67					0	0	0.007413	0	0		T	141294197	T	T	141294197	3	4	4	1	0	0	0	0	1	0	0	0	8973	739	26	2	6388	2	LRP1B	2	141294197	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	34799	141294197	101905176	538	2504											
GTDC1	79712	broad.mit.edu	37	chr2	144765058	144765058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccgccatttcctttaaggCcgagcatcttctttaaatgg	9	13	7	12	2	2	0	0	0	2	0	3	1	3	0	4	2	1	1	4	2	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:144765058C>T	uc002tvp.2	-	7	845	c.566G>A	c.(565-567)GGC>GAC	p.G189D	GTDC1_uc002tvo.2_Missense_Mutation_p.G189D|GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Missense_Mutation_p.G189D|GTDC1_uc010fnn.2_Missense_Mutation_p.G189D|GTDC1_uc002tvs.2_Missense_Mutation_p.G157D|GTDC1_uc010fno.2_Missense_Mutation_p.G60D|GTDC1_uc002tvt.1_Missense_Mutation_p.G189D	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	189					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		TCCTTTAAGGCCGAGCATCTT	0.373													12	54					0	0	0.003163	0	0		T	144765058	T	T	144765058	3	4	4	1	0	0	0	0	1	0	0	0	6867	739	26	2	834	2	GTDC1	2	144765058	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3470861	144765058	98434315	539	2505											
KIF5C	3800	broad.mit.edu	37	chr2	149853828	149853828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagaaggaacatctgacgCggttgcaggatgctgaagaa	14	6	15	6	2	1	4	0	2	1	2	1	7	1	6	0	4	3	3	0	4	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:149853828C>T	uc010zbu.1	+	18	2442	c.2074C>T	c.(2074-2076)CGG>TGG	p.R692W	KIF5C_uc002tws.1_RNA|KIF5C_uc002twt.2_Missense_Mutation_p.R244W|KIF5C_uc002twu.1_5'Flank	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	692					microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		ACATCTGACGCGGTTGCAGGA	0.433													14	41					0	0	0.004007	0	0		T	149853828	T	T	149853828	3	4	4	1	0	0	0	0	1	0	0	0	8323	759	27	1	2066	1	KIF5C	2	149853828	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5088770	149853828	93345545	540	2506											
RND3	390	broad.mit.edu	37	chr2	151326517	151326517	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agattcacatcacagtgcagCtcttcgctttgtcctttcgt	7	15	7	12	2	3	1	2	0	1	1	6	1	4	1	1	0	2	3	1	0	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:151326517C>A	uc002txe.2	-	5	963	c.719G>T	c.(718-720)AGC>ATC	p.S240I	RND3_uc002txf.2_Missense_Mutation_p.S239I|RND3_uc002txg.2_Missense_Mutation_p.S240I|RND3_uc010zbv.1_Missense_Mutation_p.A123S|RND3_uc010zbw.1_Missense_Mutation_p.S103I	NM_005168	NP_005159	P61587	RND3_HUMAN	ras homolog gene family, member E precursor	240					actin cytoskeleton organization|cell adhesion|small GTPase mediated signal transduction	Golgi membrane	GTP binding|GTPase activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.106)		CACAGTGCAGCTCTTCGCTTT	0.418													5	66					3.59834e-05	3.78692e-05	0.001168	1	0		A	151326517	A	A	151326517	3	1	4	1	0	0	0	0	1	0	0	0	13446	797	28	5	19	5	RND3	2	151326517	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1472689	151326517	91872856	541	2507											
NEB	4703	broad.mit.edu	37	chr2	152500390	152500390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgctctggtcgggcaggCatgtccactggtgcaggtag	6	9	15	11	2	1	0	0	0	1	0	4	0	2	0	1	5	1	5	1	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:152500390C>T	uc010fnx.2	-	57	8089	c.7898G>A	c.(7897-7899)TGC>TAC	p.C2633Y		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2633	Nebulin 71.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GTCGGGCAGGCATGTCCACTG	0.537													9	191					0	0	0.008291	0	0		T	152500390	T	T	152500390	3	4	4	1	0	0	0	0	1	0	0	0	10321	710	25	2	18292	2	NEB	2	152500390	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1173873	152500390	90698983	542	2508											
NEB	4703	broad.mit.edu	37	chr2	152536281	152536281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcagctctgatgggaatcGcatcagttctcaggtcatat	9	12	11	9	1	4	1	3	1	2	0	6	2	4	2	0	3	1	4	0	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:152536281G>A	uc010fnx.2	-	32	3400	c.3209C>T	c.(3208-3210)GCG>GTG	p.A1070V		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1070	Nebulin 26.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GATGGGAATCGCATCAGTTCT	0.468													15	55					0	0	0.004007	0	0		A	152536281	A	A	152536281	3	1	4	1	0	0	0	0	1	0	0	0	10321	1087	38	1	23081	1	NEB	2	152536281	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	35891	152536281	90663092	543	2509											
NEB	4703	broad.mit.edu	37	chr2	152580820	152580820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggcctggacaagttcagggGcatcaggaggaagcaggtac	11	5	16	9	1	2	0	2	0	0	0	2	3	2	3	1	7	2	4	1	7	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:152580820G>A	uc010fnx.2	-	8	757	c.566C>T	c.(565-567)GCC>GTC	p.A189V		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	189	Nebulin 4.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		AAGTTCAGGGGCATCAGGAGG	0.493													5	17					0	0	0.000602	0	0		A	152580820	A	A	152580820	3	1	4	1	0	0	0	0	1	0	0	0	10321	1203	42	2	25820	2	NEB	2	152580820	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	44539	152580820	90618553	544	2510											
ARL5A	26225	broad.mit.edu	37	chr2	152663340	152663340	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagatgtcttacccctcGccagttagagcacagcatgc	11	8	10	12	1	1	2	0	0	1	2	2	3	1	3	3	1	4	3	3	1	3	2	rs150433799		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:152663340G>A	uc002txx.1	-	5	805	c.486C>T	c.(484-486)GGC>GGT	p.G162G	ARL5A_uc010zcc.1_RNA|ARL5A_uc002txv.1_Silent_p.G125G|ARL5A_uc002txw.1_Silent_p.G125G	NM_012097	NP_036229	Q9Y689	ARL5A_HUMAN	ADP-ribosylation factor-like 5A isoform 1	162					small GTPase mediated signal transduction	intracellular	GTP binding				0				BRCA - Breast invasive adenocarcinoma(221;0.153)		CTTACCCCTCGCCAGTTAGAG	0.358													5	48					0	0	0.001168	0	0		A	152663340	A	A	152663340	2	1	4	1	0	0	0	0	0	0	0	1	940	1074	38	1		1	ARL5A	2	152663340	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	82520	152663340	90536033	545	2511											
ACVR1	90	broad.mit.edu	37	chr2	158626897	158626897	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctaagatattttcatgcCtcagcatcacagtgttgtac	11	14	6	10	0	3	1	3	0	0	1	3	1	3	1	2	0	4	3	2	0	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:158626897C>A	uc002tzm.3	-	8	1112	c.773G>T	c.(772-774)AGG>ATG	p.R258M	ACVR1_uc002tzn.3_Missense_Mutation_p.R258M|ACVR1_uc010fog.2_Missense_Mutation_p.R258M	NM_001111067	NP_001104537	Q04771	ACVR1_HUMAN	activin A receptor, type I precursor	258	Cytoplasmic (Potential).|Protein kinase.				BMP signaling pathway|G1/S transition of mitotic cell cycle|negative regulation of activin receptor signaling pathway|negative regulation of apoptosis|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	activin receptor complex	activin binding|ATP binding|follistatin binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta binding			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.104)	Adenosine triphosphate(DB00171)	ATTTTCATGCCTCAGCATCAC	0.453													10	177					1.58986e-06	1.6861e-06	0.008291	1	0		A	158626897	A	A	158626897	3	1	4	1	0	0	0	0	1	0	0	0	220	681	24	5	776	5	ACVR1	2	158626897	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5963557	158626897	84572476	546	2512											
PKP4	8502	broad.mit.edu	37	chr2	159477502	159477502	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaacttttcttgttacagAcgtgccaaatactggtgtaa	12	15	7	7	1	1	1	0	0	1	1	1	1	1	1	1	1	4	2	1	1	6	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:159477502A>G	uc002tzv.2	+	5	541	c.281A>G	c.(280-282)GAC>GGC	p.D94G	PKP4_uc002tzt.1_5'UTR|PKP4_uc002tzu.2_Missense_Mutation_p.D94G|PKP4_uc002tzw.2_Missense_Mutation_p.D94G|PKP4_uc002tzx.2_5'UTR|PKP4_uc002tzy.1_5'UTR|PKP4_uc002tzz.1_Missense_Mutation_p.D94G|PKP4_uc002uaa.2_5'UTR	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	94					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						CTTGTTACAGACGTGCCAAAT	0.368										HNSCC(62;0.18)			8	110					0	0	0.004482	0	0		G	159477502	G	G	159477502	3	3	4	1	0	0	0	0	1	0	0	0	12006	289	10	3	295	3	PKP4	2	159477502	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	850605	159477502	83721871	547	2513											
PKP4	8502	broad.mit.edu	37	chr2	159526422	159526422	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacataaccaaaggcaggggCgacaggcaagtctgcggcaa	15	3	13	10	2	1	0	0	0	1	0	1	1	1	0	1	5	3	3	1	5	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:159526422C>T	uc002tzv.2	+	17	3179	c.2919C>T	c.(2917-2919)GGC>GGT	p.G973G	PKP4_uc002tzw.2_Silent_p.G973G|PKP4_uc002tzx.2_Silent_p.G630G|PKP4_uc002uaa.2_Silent_p.G825G|uc002uab.1_Intron|PKP4_uc002uac.2_Silent_p.G154G|PKP4_uc002uad.2_RNA|PKP4_uc002uae.1_Silent_p.G60G	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	973	ARM 9.				cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						AAGGCAGGGGCGACAGGCAAG	0.527										HNSCC(62;0.18)			9	19					0	0	0.008291	0	0		T	159526422	T	T	159526422	2	4	4	1	0	0	0	0	0	0	0	1	12006	755	27	1		1	PKP4	2	159526422	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	48920	159526422	83672951	548	2514											
TANC1	85461	broad.mit.edu	37	chr2	160050772	160050772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccttgtccaacaggtgaGccgtctcctgattttgggag	6	11	14	10	1	1	2	0	2	1	0	3	3	2	3	4	3	2	0	4	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:160050772G>A	uc002uag.2	+	17	3021	c.2747G>A	c.(2746-2748)AGC>AAC	p.S916N	TANC1_uc010zcm.1_Missense_Mutation_p.S908N|TANC1_uc010fom.1_Missense_Mutation_p.S722N	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	916	ANK 1.					cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CAACAGGTGAGCCGTCTCCTG	0.468													4	56					0	0	0.000602	0	0		A	160050772	A	A	160050772	3	1	4	1	0	0	0	0	1	0	0	0	15569	971	34	2	2805	2	TANC1	2	160050772	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	524350	160050772	83148601	549	2515											
BAZ2B	29994	broad.mit.edu	37	chr2	160304907	160304907	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtatgagcatcagttgttcgCcaccattctgcacctcaaaa	11	11	7	12	1	3	1	2	1	1	0	4	1	3	1	3	0	2	5	3	0	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:160304907C>T	uc002uao.2	-	5	700	c.348G>A	c.(346-348)TGG>TGA	p.W116*	BAZ2B_uc002uap.2_Nonsense_Mutation_p.W114*|BAZ2B_uc002uas.1_Nonsense_Mutation_p.W53*|BAZ2B_uc002uau.1_Nonsense_Mutation_p.W114*|BAZ2B_uc002uaq.1_Nonsense_Mutation_p.W44*|BAZ2B_uc002uat.3_Nonsense_Mutation_p.W53*|BAZ2B_uc010fop.1_Nonsense_Mutation_p.W114*	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	116					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CAGTTGTTCGCCACCATTCTG	0.388													8	115					0	0	0.00308	0	0		T	160304907	T	T	160304907	4	4	4	1	0	0	0	0	0	1	0	0	1333	740	26	2	6290	2	BAZ2B	2	160304907	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	254135	160304907	82894466	550	2516											
MARCH7	64844	broad.mit.edu	37	chr2	160605008	160605008	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgttctctagaaggaggCgagagggaagagatgaatct	12	10	14	5	1	2	4	0	1	2	3	3	8	2	6	0	3	0	1	0	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:160605008C>T	uc002uax.2	+	5	1329	c.1207C>T	c.(1207-1209)CGA>TGA	p.R403*	MARCH7_uc010foq.2_Nonsense_Mutation_p.R403*|MARCH7_uc010zcn.1_Nonsense_Mutation_p.R347*|MARCH7_uc010for.2_Nonsense_Mutation_p.R365*|MARCH7_uc002uay.2_RNA	NM_022826	NP_073737	Q9H992	MARH7_HUMAN	axotrophin	403	Ser-rich.						ligase activity|zinc ion binding				0						TAGAAGGAGGCGAGAGGGAAG	0.378													27	90					0	0	0.004656	0	0		T	160605008	T	T	160605008	4	4	4	1	0	0	0	0	0	1	0	0	9324	760	27	1	1221	1	MARCH7	2	160605008	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	300101	160605008	82594365	551	2517											
PLA2R1	22925	broad.mit.edu	37	chr2	160832609	160832609	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgctgtggatgaattcttgCtcatgtgcagaatgaattgt	9	16	11	5	0	2	3	1	2	1	1	2	4	2	4	0	1	3	3	0	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:160832609C>T	uc002ube.1	-	17	2772	c.2565G>A	c.(2563-2565)GAG>GAA	p.E855E	PLA2R1_uc010zcp.1_Silent_p.E855E|PLA2R1_uc002ubf.2_Silent_p.E855E	NM_007366	NP_031392	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1 isoform 1 precursor	855	Extracellular (Potential).|C-type lectin 5.				endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding			skin(2)|ovary(1)	3						TGAATTCTTGCTCATGTGCAG	0.423													36	90					0	0	0.004289	0	0		T	160832609	T	T	160832609	2	4	4	1	0	0	0	0	0	0	0	1	12029	796	28	2		2	PLA2R1	2	160832609	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	227601	160832609	82366764	552	2518											
RBMS1	5937	broad.mit.edu	37	chr2	161349809	161349809	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcccctttaccttggcttgCagatactgggggtaatagta	8	12	11	10	1	0	1	0	0	0	1	0	1	0	1	3	3	3	4	3	3	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:161349809C>T	uc002ubo.2	-	1	510	c.66G>A	c.(64-66)CTG>CTA	p.L22L	RBMS1_uc002ubn.2_Silent_p.L22L|RBMS1_uc002ubi.3_Silent_p.L22L|RBMS1_uc002ubm.2_5'UTR|RBMS1_uc002ubp.2_Silent_p.L22L|RBMS1_uc010fox.2_Silent_p.L22L	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	22					DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						CCTTGGCTTGCAGATACTGGG	0.677													4	12					0	0	0.00308	0	0		T	161349809	T	T	161349809	2	4	4	1	0	0	0	0	0	0	0	1	13173	697	25	2		2	RBMS1	2	161349809	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	517200	161349809	81849564	553	2519											
TANK	10010	broad.mit.edu	37	chr2	162081195	162081195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagaatttcataaaatatGcatgctagcaaaagcacaga	20	8	7	6	0	1	3	1	0	0	3	1	3	1	3	0	0	4	4	0	0	8	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:162081195G>A	uc002ubr.1	+	6	616	c.458G>A	c.(457-459)TGC>TAC	p.C153Y	TANK_uc002ubs.2_Missense_Mutation_p.C153Y	NM_004180	NP_004171	Q92844	TANK_HUMAN	TRAF interacting protein TANK isoform a	153						cytosol	metal ion binding|protein binding			ovary(1)	1						CATAAAATATGCATGCTAGCA	0.289													6	74					0	0	0.004482	0	0		A	162081195	A	A	162081195	3	1	4	1	0	0	0	0	1	0	0	0	15571	1319	46	2	509	2	TANK	2	162081195	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	731386	162081195	81118178	554	2520											
DPP4	1803	broad.mit.edu	37	chr2	162891760	162891760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aataagtgggacttctgtgtCgttaaattgggcatatgcta	11	14	11	5	1	1	0	0	0	1	0	2	1	1	1	0	2	1	3	0	2	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:162891760C>T	uc002ubz.2	-	9	1249	c.688G>A	c.(688-690)GAC>AAC	p.D230N	DPP4_uc010fpb.2_5'UTR	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	230	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	ACTTCTGTGTCGTTAAATTGG	0.443													7	89					0	0	0.001984	0	0		T	162891760	T	T	162891760	3	4	4	1	0	0	0	0	1	0	0	0	4735	884	31	1	1684	1	DPP4	2	162891760	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	810565	162891760	80307613	555	2521											
GCA	25801	broad.mit.edu	37	chr2	163204223	163204223	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcagctggtgactccgtgTatacttacttcagtgctgtt	6	15	9	11	1	2	1	2	1	0	0	3	1	3	1	2	1	4	4	2	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:163204223T>A	uc002ucg.2	+	2	339	c.163T>A	c.(163-165)TAT>AAT	p.Y55N	GCA_uc010zcu.1_Missense_Mutation_p.Y36N	NM_012198	NP_036330	P28676	GRAN_HUMAN	grancalcin, EF-hand calcium binding protein	55	EF-hand 1.				cellular membrane fusion	cytoplasm|plasma membrane	calcium ion binding|protein homodimerization activity				0						TGACTCCGTGTATACTTACTT	0.418													4	58					0	0	0.009096	0	0		A	163204223	A	A	163204223	3	1	4	1	0	0	0	0	1	0	0	0	6298	1638	57	5	169	5	GCA	2	163204223	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	312463	163204223	79995150	556	2522											
GRB14	2888	broad.mit.edu	37	chr2	165353759	165353759	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgaagaggcagtggggCtaccgtgagtgcccaggcgt	7	8	17	9	2	1	3	0	2	1	1	1	3	1	3	2	4	2	2	2	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:165353759C>A	uc002ucl.2	-	11	1797	c.1256G>T	c.(1255-1257)AGC>ATC	p.S419I	GRB14_uc010zcv.1_Missense_Mutation_p.S332I|GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	419					blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						GGCAGTGGGGCTACCGTGAGT	0.423													13	46					0.00316338	0.00328415	0.003163	1	0		A	165353759	A	A	165353759	3	1	4	1	0	0	0	0	1	0	0	0	6773	797	28	5	382	5	GRB14	2	165353759	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2149536	165353759	77845614	557	2523											
COBLL1	22837	broad.mit.edu	37	chr2	165548787	165548787	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagtcagcaaactctgtcGcatctgttctgggtcagagc	8	11	11	11	1	5	1	2	0	3	1	6	1	5	1	0	1	4	4	0	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:165548787G>A	uc010zcw.1	-	16	3683	c.3559C>T	c.(3559-3561)CGA>TGA	p.R1187*	COBLL1_uc002ucp.2_Nonsense_Mutation_p.R1120*|COBLL1_uc002ucq.2_Nonsense_Mutation_p.R1082*|COBLL1_uc010zcx.1_Nonsense_Mutation_p.R1128*|COBLL1_uc002ucn.2_Nonsense_Mutation_p.R548*|COBLL1_uc002uco.2_Nonsense_Mutation_p.R851*	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	1158	WH2.									ovary(2)|pancreas(1)	3						AAACTCTGTCGCATCTGTTCT	0.443													8	39					0	0	0.004482	0	0		A	165548787	A	A	165548787	4	1	4	1	0	0	0	0	0	1	0	0	3657	1095	38	1	150	1	COBLL1	2	165548787	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	195028	165548787	77650586	558	2524											
COBLL1	22837	broad.mit.edu	37	chr2	165550894	165550894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcactaggtgactcggtgCgctctttactgaaagactgt	8	12	12	9	2	1	3	0	2	1	1	2	3	1	3	0	3	2	2	0	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:165550894C>T	uc010zcw.1	-	15	3447	c.3323G>A	c.(3322-3324)CGC>CAC	p.R1108H	COBLL1_uc002ucp.2_Missense_Mutation_p.R1041H|COBLL1_uc002ucq.2_Missense_Mutation_p.R1003H|COBLL1_uc010zcx.1_Missense_Mutation_p.R1049H|COBLL1_uc002ucn.2_Missense_Mutation_p.R469H|COBLL1_uc002uco.2_Missense_Mutation_p.R772H	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	1079										ovary(2)|pancreas(1)	3						TGACTCGGTGCGCTCTTTACT	0.473													14	48					0	0	0.00245	0	0		T	165550894	T	T	165550894	3	4	4	1	0	0	0	0	1	0	0	0	3657	768	27	1	390	1	COBLL1	2	165550894	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2107	165550894	77648479	559	2525											
SCN3A	6328	broad.mit.edu	37	chr2	165946823	165946823	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagttcccatttagtttgTcaataatcatgtcttgtttt	8	20	7	6	0	3	0	2	0	1	0	4	1	4	1	1	1	0	3	1	1	3	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:165946823T>C	uc002ucx.2	-	28	6332	c.5840A>G	c.(5839-5841)GAC>GGC	p.D1947G	SCN3A_uc010zcy.1_Missense_Mutation_p.D430G|SCN3A_uc002ucy.2_Missense_Mutation_p.D1898G|SCN3A_uc002ucz.2_Missense_Mutation_p.D1898G	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1947						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	ATTTAGTTTGTCAATAATCAT	0.348													15	37					0	0	0.006122	0	0		C	165946823	C	C	165946823	3	2	4	1	0	0	0	0	1	0	0	0	13943	1667	58	3	166	3	SCN3A	2	165946823	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	395929	165946823	77252550	560	2526											
SCN3A	6328	broad.mit.edu	37	chr2	165997321	165997321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactaacgttactgttgcgtCgctctccatgtctgtgcggc	5	13	11	12	4	2	0	0	0	2	0	4	1	2	0	1	1	4	3	1	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:165997321C>T	uc002ucx.2	-	13	2351	c.1859G>A	c.(1858-1860)CGA>CAA	p.R620Q	SCN3A_uc002ucy.2_Missense_Mutation_p.R620Q|SCN3A_uc002ucz.2_Missense_Mutation_p.R620Q|SCN3A_uc002uda.1_Missense_Mutation_p.R489Q|SCN3A_uc002udb.1_Missense_Mutation_p.R489Q	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	620						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	ACTGTTGCGTCGCTCTCCATG	0.498													24	44					0	0	0.00632	0	0		T	165997321	T	T	165997321	3	4	4	1	0	0	0	0	1	0	0	0	13943	884	31	1	4207	1	SCN3A	2	165997321	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	50498	165997321	77202052	561	2527											
SCN2A	6326	broad.mit.edu	37	chr2	166152416	166152416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttgctgctattgaacaacGcattgcagaagagaaagcta	14	9	9	9	1	0	3	0	1	0	2	0	4	0	3	1	0	6	5	1	0	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:166152416G>A	uc002udc.2	+	2	373	c.83G>A	c.(82-84)CGC>CAC	p.R28H	SCN2A_uc002udd.2_Missense_Mutation_p.R28H|SCN2A_uc002ude.2_Missense_Mutation_p.R28H	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	28					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ATTGAACAACGCATTGCAGAA	0.488													9	35					0	0	0.006214	0	0		A	166152416	A	A	166152416	3	1	4	1	0	0	0	0	1	0	0	0	13941	1087	38	1	85	1	SCN2A	2	166152416	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	155095	166152416	77046957	562	2528											
SCN2A	6326	broad.mit.edu	37	chr2	166246006	166246006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtctcttatgagcccattaCgaccacgttgaaacgcaaac	13	9	7	12	3	1	2	0	2	1	0	2	3	1	2	2	0	4	2	2	0	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:166246006C>T	uc002udc.2	+	27	5980	c.5690C>T	c.(5689-5691)ACG>ATG	p.T1897M	SCN2A_uc002udd.2_Missense_Mutation_p.T1897M|SCN2A_uc002ude.2_Missense_Mutation_p.T1897M	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1897					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	GAGCCCATTACGACCACGTTG	0.453													14	57					0	0	0.004007	0	0		T	166246006	T	T	166246006	3	4	4	1	0	0	0	0	1	0	0	0	13941	536	19	1	5888	1	SCN2A	2	166246006	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	93590	166246006	76953367	563	2529											
CSRNP3	80034	broad.mit.edu	37	chr2	166514297	166514297	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccattctcaaaagggagaaaCgactgaggacaaagaatgta	18	6	10	7	1	1	3	1	1	1	2	2	6	1	4	1	2	1	1	1	2	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:166514297C>T	uc002udf.2	+	5	551	c.175C>T	c.(175-177)CGA>TGA	p.R59*	CSRNP3_uc002udg.2_Nonsense_Mutation_p.R59*	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	59					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						AAGGGAGAAACGACTGAGGAC	0.468													5	56					0	0	0.001168	0	0		T	166514297	T	T	166514297	4	4	4	1	0	0	0	0	0	1	0	0	3968	528	19	1	181	1	CSRNP3	2	166514297	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	268291	166514297	76685076	564	2530											
TTC21B	79809	broad.mit.edu	37	chr2	166797676	166797676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcacctgaataattctggcGcatctcaaggcattgtgcct	9	11	10	11	1	2	1	1	1	2	0	3	1	2	1	2	3	1	3	2	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:166797676G>A	uc002udk.2	-	6	704	c.571C>T	c.(571-573)CGC>TGC	p.R191C	TTC21B_uc002udl.2_Missense_Mutation_p.R191C|uc002udm.1_Intron	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	191	TPR 3.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TAATTCTGGCGCATCTCAAGG	0.408													18	47					0	0	0.007413	0	0		A	166797676	A	A	166797676	3	1	4	1	0	0	0	0	1	0	0	0	16714	1087	38	1	3475	1	TTC21B	2	166797676	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	283379	166797676	76401697	565	2531											
SCN1A	6323	broad.mit.edu	37	chr2	166900484	166900484	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcccacatcctttgctcGccctctaaagctgaaaaggc	11	9	7	14	1	1	2	0	1	1	1	4	2	3	2	3	1	2	2	3	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:166900484G>A	uc010zcz.1	-	11	1756	c.1738C>T	c.(1738-1740)CGA>TGA	p.R580*	SCN1A_uc002udo.3_Nonsense_Mutation_p.R449*|SCN1A_uc010fpk.2_Nonsense_Mutation_p.R449*	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	580						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TCCTTTGCTCGCCCTCTAAAG	0.478													21	74					0	0	0.00278	0	0		A	166900484	A	A	166900484	4	1	4	1	0	0	0	0	0	1	0	0	13939	1095	38	1	4355	1	SCN1A	2	166900484	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	102808	166900484	76298889	566	2532											
SCN9A	6335	broad.mit.edu	37	chr2	167133677	167133677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacagtcatcattgatcttgCagacacattctttgtagctc	10	15	6	10	0	4	2	2	1	2	1	5	2	4	2	0	0	3	3	0	0	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:167133677C>T	uc010fpl.2	-	16	2998	c.2657G>A	c.(2656-2658)TGC>TAC	p.C886Y	uc002udp.2_RNA	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	897	II.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	ATTGATCTTGCAGACACATTC	0.502													54	134					0	0	0.00361	0	0		T	167133677	T	T	167133677	3	4	4	1	0	0	0	0	1	0	0	0	13950	710	25	2	3324	2	SCN9A	2	167133677	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	233193	167133677	76065696	567	2533											
SCN9A	6335	broad.mit.edu	37	chr2	167133746	167133746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaaaatgaagacgatgatgGccaacactaaggtgaggtta	17	7	11	6	1	0	4	0	3	0	1	0	5	0	4	1	3	1	1	1	3	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:167133746G>A	uc010fpl.2	-	16	2929	c.2588C>T	c.(2587-2589)GCC>GTC	p.A863V	uc002udp.2_RNA	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	874	II.|Helical; Name=S5 of repeat II; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GACGATGATGGCCAACACTAA	0.463													16	170					0	0	0.004007	0	0		A	167133746	A	A	167133746	3	1	4	1	0	0	0	0	1	0	0	0	13950	1203	42	2	3393	2	SCN9A	2	167133746	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	69	167133746	76065627	568	2534											
SCN7A	6332	broad.mit.edu	37	chr2	167298020	167298020	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctccacagagaattcggaaCacattcaggaaggagtggaa	15	7	11	8	1	2	1	1	0	1	1	4	6	2	5	1	4	1	0	1	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:167298020C>G	uc002udu.1	-	14	2170	c.2043G>C	c.(2041-2043)GTG>GTC	p.V681V	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	681					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						GAATTCGGAACACATTCAGGA	0.443													24	72					0	0	0.008361	0	0		G	167298020	G	G	167298020	2	3	4	1	0	0	0	0	0	0	0	1	13948	465	17	5		5	SCN7A	2	167298020	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	164274	167298020	75901353	569	2535											
XIRP2	129446	broad.mit.edu	37	chr2	168099163	168099163	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtttcaaccagccagaggAaggaaacatcaactacaaga	17	5	9	10	1	2	2	2	0	0	2	2	4	2	4	2	2	5	1	2	2	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:168099163A>G	uc002udx.2	+	8	1279	c.1261A>G	c.(1261-1263)AAG>GAG	p.K421E	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.K246E|XIRP2_uc010fpq.2_Missense_Mutation_p.K199E|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	246					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CAGCCAGAGGAAGGAAACATC	0.413													5	108					0	0	0.001168	0	0		G	168099163	G	G	168099163	3	3	4	1	0	0	0	0	1	0	0	0	17456	247	9	3	1291	3	XIRP2	2	168099163	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	801143	168099163	75100210	570	2536											
XIRP2	129446	broad.mit.edu	37	chr2	168107993	168107993	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggagaaacaaaccataacaTacaacaagaaagtcgtacat	21	5	7	8	1	0	2	0	0	0	2	1	3	0	2	1	1	6	1	1	1	8	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:168107993T>C	uc002udx.2	+	8	10109	c.10091T>C	c.(10090-10092)ATA>ACA	p.I3364T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.I3189T|XIRP2_uc010fpq.2_Missense_Mutation_p.I3142T|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3189					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AACCATAACATACAACAAGAA	0.358													32	97					0	0	0.003755	0	0		C	168107993	C	C	168107993	3	2	4	1	0	0	0	0	1	0	0	0	17456	1406	49	3	10121	3	XIRP2	2	168107993	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	8830	168107993	75091380	571	2537											
LRP2	4036	broad.mit.edu	37	chr2	170026232	170026232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaatcagcttcatcagacGcatccaaacagtcagcggat	14	7	8	12	2	4	1	4	0	0	1	5	3	5	2	1	1	3	2	1	1	2	1	rs142613924		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170026232G>A	uc002ues.2	-	60	11690	c.11477C>T	c.(11476-11478)GCG>GTG	p.A3826V		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3826	Extracellular (Potential).|LDL-receptor class A 33.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TTCATCAGACGCATCCAAACA	0.453													22	88					0	0	0.00333	0	0		A	170026232	A	A	170026232	3	1	4	1	0	0	0	0	1	0	0	0	8974	1087	38	1	2570	1	LRP2	2	170026232	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1918239	170026232	73173141	572	2538											
LRP2	4036	broad.mit.edu	37	chr2	170037982	170037982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaacccaggtgggcatctGcccagtagagtagatcattg	10	10	12	9	0	2	2	1	0	1	2	2	2	2	2	2	2	2	4	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170037982G>A	uc002ues.2	-	52	10358	c.10145C>T	c.(10144-10146)GCA>GTA	p.A3382V		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3382	LDL-receptor class B 33.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GTGGGCATCTGCCCAGTAGAG	0.408													27	80					0	0	0.008361	0	0		A	170037982	A	A	170037982	3	1	4	1	0	0	0	0	1	0	0	0	8974	1319	46	2	3934	2	LRP2	2	170037982	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11750	170037982	73161391	573	2539											
LRP2	4036	broad.mit.edu	37	chr2	170048452	170048452	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcagtacaatccacatcGccatcacagacccaagactg	13	6	6	16	2	2	2	2	0	0	2	4	2	3	2	4	0	1	1	4	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170048452G>A	uc002ues.2	-	48	9135	c.8922C>T	c.(8920-8922)GGC>GGT	p.G2974G		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2974	LDL-receptor class A 22.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AATCCACATCGCCATCACAGA	0.478													18	47					0	0	0.008871	0	0		A	170048452	A	A	170048452	2	1	4	1	0	0	0	0	0	0	0	1	8974	1074	38	1		1	LRP2	2	170048452	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	10470	170048452	73150921	574	2540											
LRP2	4036	broad.mit.edu	37	chr2	170058336	170058336	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaagagtattggacacatcGcccattggcacaggtgaagg	12	8	13	8	1	0	2	0	1	0	1	1	3	0	3	1	4	0	3	1	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170058336G>A	uc002ues.2	-	44	8467	c.8254C>T	c.(8254-8256)CGA>TGA	p.R2752*		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2752	Extracellular (Potential).|LDL-receptor class A 17.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TGGACACATCGCCCATTGGCA	0.478													11	74					0	0	0.00245	0	0		A	170058336	A	A	170058336	4	1	4	1	0	0	0	0	0	1	0	0	8974	1095	38	1	5857	1	LRP2	2	170058336	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	9884	170058336	73141037	575	2541											
LRP2	4036	broad.mit.edu	37	chr2	170129448	170129448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcttaccaatgcagtggCgctcatctgtatccagttgg	8	13	9	11	1	3	0	1	0	2	0	4	0	4	0	2	2	2	4	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170129448C>T	uc002ues.2	-	15	2318	c.2105G>A	c.(2104-2106)CGC>CAC	p.R702H	LRP2_uc010zdf.1_Missense_Mutation_p.R633H	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	702	EGF-like 3.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AATGCAGTGGCGCTCATCTGT	0.483													100	230					0	0	0.00361	0	0		T	170129448	T	T	170129448	3	4	4	1	0	0	0	0	1	0	0	0	8974	768	27	1	12122	1	LRP2	2	170129448	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	71112	170129448	73069925	576	2542											
KBTBD10	10324	broad.mit.edu	37	chr2	170344508	170344508	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccttacagaaattacgaggCcaaactgaagctctctatat	14	11	6	10	1	1	2	0	1	1	1	3	3	2	2	2	1	4	1	2	1	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170344508C>T	uc010zdh.1	+	5	328	c.270C>T	c.(268-270)GGC>GGT	p.G90G	BBS5_uc002uet.2_Silent_p.G90G|BBS5_uc010fpw.2_Silent_p.G90G	NM_152384	NP_689597	O60662	KBTBA_HUMAN	Bardet-Biedl syndrome 5	Error:Variant_position_missing_in_O60662_after_alignment					striated muscle contraction	centrosome|nucleolus|plasma membrane|pseudopodium|ruffle					0						AATTACGAGGCCAAACTGAAG	0.299													36	93					0	0	0.004289	0	0		T	170344508	T	T	170344508	2	4	4	1	0	0	0	0	0	0	0	1	8006	726	26	2		2	KBTBD10	2	170344508	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	215060	170344508	72854865	577	2543											
MYO3B	140469	broad.mit.edu	37	chr2	171264268	171264268	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgagaaaaatagagacaCtctccctgccgatgtggttg	11	11	10	9	1	2	2	0	1	2	2	3	5	2	2	2	1	1	1	2	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:171264268C>A	uc002ufy.2	+	22	2707	c.2564C>A	c.(2563-2565)ACT>AAT	p.T855N	MYO3B_uc002ufv.2_Missense_Mutation_p.T842N|MYO3B_uc010fqb.1_Missense_Mutation_p.T842N|MYO3B_uc002ufz.2_Missense_Mutation_p.T855N|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	855	Myosin head-like.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						AATAGAGACACTCTCCCTGCC	0.458													37	97					1.17962e-10	1.27012e-10	0.00874	1	0		A	171264268	A	A	171264268	3	1	4	1	0	0	0	0	1	0	0	0	10095	565	20	5	2650	5	MYO3B	2	171264268	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	919760	171264268	71935105	578	2544											
SP5	389058	broad.mit.edu	37	chr2	171573002	171573002	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcccagcttggggctgacGccgcagaagacgcacctgca	9	5	12	15	3	0	3	0	1	0	2	1	3	1	3	3	2	2	5	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:171573002G>A	uc002uge.2	+	2	451	c.285G>A	c.(283-285)ACG>ACA	p.T95T	LOC440925_uc002ugd.2_5'Flank	NM_001003845	NP_001003845	Q6BEB4	SP5_HUMAN	Sp5 transcription factor	95					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGGGGCTGACGCCGCAGAAGA	0.716													3	4					0	0	0.009096	0	0		A	171573002	A	A	171573002	2	1	4	1	0	0	0	0	0	0	0	1	14992	1074	38	1		1	SP5	2	171573002	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	308734	171573002	71626371	579	2545											
SLC25A12	8604	broad.mit.edu	37	chr2	172641950	172641950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggaggaaggtctgcaatgCgtgacttaggtgttggttct	8	12	15	6	1	2	1	0	1	2	0	2	3	2	3	0	5	2	3	0	5	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:172641950C>T	uc002uhh.2	-	18	1960	c.1871G>A	c.(1870-1872)CGC>CAC	p.R624H	SLC25A12_uc010fqh.2_Missense_Mutation_p.R517H	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12	624					gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)		L-Aspartic Acid(DB00128)	GTCTGCAATGCGTGACTTAGG	0.502													23	80					0	0	0.00333	0	0		T	172641950	T	T	172641950	3	4	4	1	0	0	0	0	1	0	0	0	14499	768	27	1	169	1	SLC25A12	2	172641950	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1068948	172641950	70557423	580	2546											
DLX2	1746	broad.mit.edu	37	chr2	172966308	172966308	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaactggagtagatggtgCggggtttccggactttcttt	7	13	15	6	2	1	1	0	0	1	1	2	4	2	4	1	6	2	2	1	6	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:172966308C>T	uc002uhn.2	-	2	679	c.467G>A	c.(466-468)CGC>CAC	p.R156H	DLX2_uc010zdx.1_Missense_Mutation_p.R156H	NM_004405	NP_004396	Q07687	DLX2_HUMAN	distal-less homeobox 2	156	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.216)			GTAGATGGTGCGGGGTTTCCG	0.547													16	46					0	0	0.001882	0	0		T	172966308	T	T	172966308	3	4	4	1	0	0	0	0	1	0	0	0	4577	768	27	1	527	1	DLX2	2	172966308	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	324358	172966308	70233065	581	2547											
PDK1	5163	broad.mit.edu	37	chr2	173429383	173429383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatcgattctacatgagtcGcatttcaattagaatgttac	12	14	8	7	2	2	2	1	1	1	1	4	4	2	3	0	1	2	2	0	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:173429383G>A	uc002uhr.2	+	4	663	c.563G>A	c.(562-564)CGC>CAC	p.R188H	PDK1_uc010zdz.1_Missense_Mutation_p.R33H|PDK1_uc010zea.1_RNA|PDK1_uc002uhq.1_Missense_Mutation_p.R208H|PDK1_uc002uhs.2_Missense_Mutation_p.R188H|PDK1_uc010zeb.1_Missense_Mutation_p.R208H	NM_002610	NP_002601	Q15118	PDK1_HUMAN	pyruvate dehydrogenase kinase 1 precursor	188	Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|small GTPase mediated signal transduction	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(3)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.12)			TACATGAGTCGCATTTCAATT	0.398									Autosomal_Dominant_Polycystic_Kidney_Disease				17	64					0	0	0.004007	0	0		A	173429383	A	A	173429383	3	1	4	1	0	0	0	0	1	0	0	0	11694	1087	38	1	577	1	PDK1	2	173429383	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	463075	173429383	69769990	582	2548											
SP3	6670	broad.mit.edu	37	chr2	174774752	174774752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatcttgattgctggtggCggaagtattaacagttccta	10	14	11	6	1	1	1	0	1	1	0	2	3	2	2	1	3	2	3	1	3	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:174774752C>T	uc002uig.2	-	7	2427	c.2263G>A	c.(2263-2265)GCC>ACC	p.A755T	SP3_uc002uie.2_Missense_Mutation_p.A687T|SP3_uc002uif.2_Missense_Mutation_p.A702T|SP3_uc010zel.1_Missense_Mutation_p.A752T	NM_003111	NP_003102	Q02447	SP3_HUMAN	Sp3 transcription factor isoform 1	755					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	protein binding|zinc ion binding		EWSR1/SP3(3)	soft_tissue(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.185)			TTGCTGGTGGCGGAAGTATTA	0.388													7	87					0	0	0.004482	0	0		T	174774752	T	T	174774752	3	4	4	1	0	0	0	0	1	0	0	0	14990	768	27	1	86	1	SP3	2	174774752	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1345369	174774752	68424621	583	2549											
GPR155	151556	broad.mit.edu	37	chr2	175346233	175346233	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaattaacttacctatagggTatcccaatgcaaagtcatta	16	12	5	8	0	1	0	1	0	0	0	2	0	2	0	2	1	3	2	2	1	9	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:175346233T>C	uc002uit.2	-	3	843	c.452A>G	c.(451-453)TAC>TGC	p.Y151C	GPR155_uc002uiu.2_Missense_Mutation_p.Y151C|GPR155_uc002uiv.2_Missense_Mutation_p.Y151C|GPR155_uc010fqs.2_Missense_Mutation_p.Y151C	NM_001033045	NP_001028217	Q7Z3F1	GP155_HUMAN	G protein-coupled receptor 155 isoform 9	151	Helical; (Potential).				intracellular signal transduction|transmembrane transport	integral to membrane				ovary(1)	1						ACCTATAGGGTATCCCAATGC	0.294													7	191					0	0	0.001984	0	0		C	175346233	C	C	175346233	3	2	4	1	0	0	0	0	1	0	0	0	6675	1638	57	3	2220	3	GPR155	2	175346233	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	571481	175346233	67853140	584	2550											
KIAA1715	80856	broad.mit.edu	37	chr2	176794704	176794704	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcatttactactctgcCgtcaaagattctccacttag	11	12	7	11	1	3	1	1	0	2	1	4	2	3	2	2	1	4	1	2	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:176794704C>T	uc002ukc.1	-	13	1471	c.1278G>A	c.(1276-1278)ACG>ACA	p.T426T	KIAA1715_uc010zer.1_Silent_p.T457T|KIAA1715_uc010fqw.1_Silent_p.T492T|KIAA1715_uc010zes.1_Silent_p.T428T|KIAA1715_uc002ukd.1_Silent_p.T303T|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	426	Cytoplasmic (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			ACTACTCTGCCGTCAAAGATT	0.428													14	69					0	0	0.00245	0	0		T	176794704	T	T	176794704	2	4	4	1	0	0	0	0	0	0	0	1	8270	639	23	1		1	KIAA1715	2	176794704	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1448471	176794704	66404669	585	2551											
HOXD13	3239	broad.mit.edu	37	chr2	176958345	176958345	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgggtggaacagccaggtgTactgcaccaaggaccagcca	12	4	13	12	1	0	0	0	0	0	0	0	2	0	2	4	4	5	2	4	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:176958345T>C	uc002ukf.1	+	1	814	c.727T>C	c.(727-729)TAC>CAC	p.Y243H		NM_000523	NP_000514	P35453	HXD13_HUMAN	homeobox D13	243					skeletal system development|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0526)|READ - Rectum adenocarcinoma(9;0.0678)		CAGCCAGGTGTACTGCACCAA	0.612			T	NUP98	AML*								5	18					0	0	0.000602	0	0		C	176958345	C	C	176958345	3	2	4	1	0	0	0	0	1	0	0	0	7338	1638	57	3	729	3	HOXD13	2	176958345	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	163641	176958345	66241028	586	2552											
HOXD10	3236	broad.mit.edu	37	chr2	176982113	176982113	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagctcaaccctcgtggCgcggccaagccgcagctctc	6	6	10	19	4	2	0	1	0	1	0	5	0	3	0	4	2	4	3	4	2	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:176982113C>T	uc002ukj.2	+	1	622	c.552C>T	c.(550-552)GGC>GGT	p.G184G		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	184						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		ACCCTCGTGGCGCGGCCAAGC	0.587													10	19					0	0	0.001855	0	0		T	176982113	T	T	176982113	2	4	4	1	0	0	0	0	0	0	0	1	7335	755	27	1		1	HOXD10	2	176982113	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	23768	176982113	66217260	587	2553											
HOXD3	3232	broad.mit.edu	37	chr2	177036882	177036882	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggactacagttgcgccgcGcagattccaggcaaccacca	10	6	11	14	3	0	1	0	0	0	1	1	2	1	2	4	2	3	3	4	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:177036882G>A	uc002ukt.1	+	3	1355	c.1179G>A	c.(1177-1179)GCG>GCA	p.A393A		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	393					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		GTTGCGCCGCGCAGATTCCAG	0.657													7	18					0	0	0.001984	0	0		A	177036882	A	A	177036882	2	1	4	1	0	0	0	0	0	0	0	1	7339	1074	38	1		1	HOXD3	2	177036882	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	54769	177036882	66162491	588	2554											
PDE11A	50940	broad.mit.edu	37	chr2	178879125	178879125	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcactgcttcggataggcatGcacaataatgattttgtctt	10	15	8	8	1	2	1	1	1	1	0	3	2	2	2	0	2	2	3	0	2	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:178879125G>A	uc002ulq.2	-	2	1293	c.975C>T	c.(973-975)TGC>TGT	p.C325C	PDE11A_uc002ulr.2_Silent_p.C75C|PDE11A_uc002ult.1_Silent_p.C75C	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	325	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			GGATAGGCATGCACAATAATG	0.378									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				21	51					0	0	0.002299	0	0		A	178879125	A	A	178879125	2	1	4	1	0	0	0	0	0	0	0	1	11650	1311	46	2		2	PDE11A	2	178879125	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1842243	178879125	64320248	589	2555											
PDE11A	50940	broad.mit.edu	37	chr2	178936644	178936644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcactctcgattccagcagcGcactgagaatatgggctgtg	9	10	11	11	2	2	1	1	1	1	1	4	3	3	1	1	1	2	3	1	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:178936644G>A	uc002ulq.2	-	1	839	c.521C>T	c.(520-522)GCG>GTG	p.A174V	PDE11A_uc002ulr.2_Intron|PDE11A_uc002ult.1_Intron	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	174					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TTCCAGCAGCGCACTGAGAAT	0.562									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				22	57					0	0	0.001882	0	0		A	178936644	A	A	178936644	3	1	4	1	0	0	0	0	1	0	0	0	11650	1087	38	1	2360	1	PDE11A	2	178936644	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	57519	178936644	64262729	590	2556											
OSBPL6	114880	broad.mit.edu	37	chr2	179214085	179214085	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaacagattatacaaagctGcaagaagaattttgtctaat	17	12	6	6	0	2	3	1	0	1	3	2	3	2	3	0	0	4	2	0	0	8	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179214085G>A	uc002ulx.2	+	12	1500	c.1122G>A	c.(1120-1122)CTG>CTA	p.L374L	OSBPL6_uc002ulw.2_Silent_p.L343L|OSBPL6_uc002uly.2_Silent_p.L399L|OSBPL6_uc010zfe.1_Silent_p.L343L|OSBPL6_uc002ulz.2_Silent_p.L374L|OSBPL6_uc002uma.2_Silent_p.L378L	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	374					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			ATACAAAGCTGCAAGAAGAAT	0.398													31	108					0	0	0.002836	0	0		A	179214085	A	A	179214085	2	1	4	1	0	0	0	0	0	0	0	1	11300	1306	46	2		2	OSBPL6	2	179214085	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	277441	179214085	63985288	591	2557											
PRKRA	8575	broad.mit.edu	37	chr2	179300958	179300958	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtatttggaatactaaggAggcttcttttcagtaagttg	10	16	10	5	0	2	0	1	0	1	0	2	2	2	2	0	3	1	4	0	3	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179300958A>G	uc002umf.2	-	7	899	c.698T>C	c.(697-699)CTC>CCC	p.L233P	PRKRA_uc002umc.2_Missense_Mutation_p.L65P|PRKRA_uc002umd.2_Missense_Mutation_p.L208P|PRKRA_uc002ume.2_Missense_Mutation_p.L222P|PRKRA_uc002umg.2_Missense_Mutation_p.L120P|PRKRA_uc002umh.1_5'Flank	NM_003690	NP_003681	O75569	PRKRA_HUMAN	protein kinase, interferon-inducible double	233	Sufficient for self-association and interaction with TARBP2.				immune response|negative regulation of cell proliferation|production of siRNA involved in RNA interference|response to virus	perinuclear region of cytoplasm	double-stranded RNA binding|enzyme activator activity|protein homodimerization activity			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.00634)|all cancers(119;0.0265)			AATACTAAGGAGGCTTCTTTT	0.338													5	197					0	0	0.001168	0	0		G	179300958	G	G	179300958	3	3	4	1	0	0	0	0	1	0	0	0	12546	304	11	3	251	3	PRKRA	2	179300958	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	86873	179300958	63898415	592	2558											
PRKRA	8575	broad.mit.edu	37	chr2	179312289	179312289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgcagctctatgtttcGccagcttcttacttgtacct	5	16	6	14	1	3	0	0	0	3	0	4	0	3	0	3	0	5	5	3	0	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179312289G>A	uc002umf.2	-	3	461	c.260C>T	c.(259-261)GCG>GTG	p.A87V	PRKRA_uc002umd.2_Missense_Mutation_p.A62V|PRKRA_uc002ume.2_Missense_Mutation_p.A76V|PRKRA_uc002umg.2_5'UTR	NM_003690	NP_003681	O75569	PRKRA_HUMAN	protein kinase, interferon-inducible double	87	Sufficient for self-association and interaction with TARBP2.|DRBM 1.				immune response|negative regulation of cell proliferation|production of siRNA involved in RNA interference|response to virus	perinuclear region of cytoplasm	double-stranded RNA binding|enzyme activator activity|protein homodimerization activity			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.00634)|all cancers(119;0.0265)			TCTATGTTTCGCCAGCTTCTT	0.353													5	64					0	0	0.000602	0	0		A	179312289	A	A	179312289	3	1	4	1	0	0	0	0	1	0	0	0	12546	1087	38	1	705	1	PRKRA	2	179312289	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11331	179312289	63887084	593	2559											
DFNB59	494513	broad.mit.edu	37	chr2	179325727	179325727	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatagaagagtgatggatgTcatttctcgttcacagcttt	11	14	10	6	1	3	4	2	1	1	3	4	5	3	5	0	1	1	2	0	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179325727T>C	uc002umi.3	+	7	1141	c.785T>C	c.(784-786)GTC>GCC	p.V262A	DFNB59_uc002umj.3_Missense_Mutation_p.V262A	NM_001042702	NP_001036167	Q0ZLH3	PJVK_HUMAN	deafness, autosomal recessive 59	262					sensory perception of sound						0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			GTGATGGATGTCATTTCTCGT	0.333													12	167					0	0	0.001855	0	0		C	179325727	C	C	179325727	3	2	4	1	0	0	0	0	1	0	0	0	4462	1667	58	3	807	3	DFNB59	2	179325727	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	13438	179325727	63873646	594	2560											
TTN	7273	broad.mit.edu	37	chr2	179393094	179393094	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgctgactgatgcatttcGgatttcaagggagtatacat	10	13	11	7	2	1	2	1	2	0	0	3	4	1	4	0	2	2	3	0	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179393094G>A	uc010zfg.1	-	310	99804	c.99580C>T	c.(99580-99582)CGA>TGA	p.R33194*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.R26889*|TTN_uc010zfi.1_Nonsense_Mutation_p.R26822*|TTN_uc010zfj.1_Nonsense_Mutation_p.R26697*|TTN_uc002umq.2_Nonsense_Mutation_p.R211*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34121							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GATGCATTTCGGATTTCAAGG	0.393													32	47					0	0	0.004289	0	0		A	179393094	A	A	179393094	4	1	4	1	0	0	0	0	0	1	0	0	16761	1124	39	1	703	1	TTN	2	179393094	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	67367	179393094	63806279	595	2561											
TTN	7273	broad.mit.edu	37	chr2	179404438	179404438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgaccttgatgtagacaGccttcttgccacatttattt	8	15	6	12	0	1	3	0	2	1	1	1	3	1	3	4	0	2	1	4	0	2	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179404438G>A	uc010zfg.1	-	301	90874	c.90650C>T	c.(90649-90651)GCT>GTT	p.A30217V	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A23912V|TTN_uc010zfi.1_Missense_Mutation_p.A23845V|TTN_uc010zfj.1_Missense_Mutation_p.A23720V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31144							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GATGTAGACAGCCTTCTTGCC	0.488													12	128					0	0	0.00245	0	0		A	179404438	A	A	179404438	3	1	4	1	0	0	0	0	1	0	0	0	16761	971	34	2	9669	2	TTN	2	179404438	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11344	179404438	63794935	596	2562											
TTN	7273	broad.mit.edu	37	chr2	179412259	179412259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtgactttaatttgagtgCgcttgacactggaattgaca	11	13	11	6	1	0	4	0	4	0	0	0	6	0	5	0	1	1	1	0	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179412259C>T	uc010zfg.1	-	288	86614	c.86390G>A	c.(86389-86391)CGC>CAC	p.R28797H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R22492H|TTN_uc010zfi.1_Missense_Mutation_p.R22425H|TTN_uc010zfj.1_Missense_Mutation_p.R22300H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29724							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATTTGAGTGCGCTTGACACT	0.408													19	37					0	0	0.008871	0	0		T	179412259	T	T	179412259	3	4	4	1	0	0	0	0	1	0	0	0	16761	768	27	1	13981	1	TTN	2	179412259	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7821	179412259	63787114	597	2563											
TTN	7273	broad.mit.edu	37	chr2	179417232	179417232	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagggatatctgacaggTcaacttcaggtgtaataata	13	10	9	9	0	3	1	2	1	1	0	3	2	3	2	2	3	1	1	2	3	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179417232T>C	uc010zfg.1	-	284	82915	c.82691A>G	c.(82690-82692)GAC>GGC	p.D27564G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D21259G|TTN_uc010zfi.1_Missense_Mutation_p.D21192G|TTN_uc010zfj.1_Missense_Mutation_p.D21067G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28491							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATCTGACAGGTCAACTTCAGG	0.433													17	55					0	0	0.008871	0	0		C	179417232	C	C	179417232	3	2	4	1	0	0	0	0	1	0	0	0	16761	1667	58	3	17696	3	TTN	2	179417232	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	4973	179417232	63782141	598	2564											
TTN	7273	broad.mit.edu	37	chr2	179417976	179417976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgttttcaatgctgtatctgGcatcactgccaagattcttc	8	16	7	10	0	4	1	2	0	2	1	5	1	4	1	1	1	2	4	1	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179417976G>A	uc010zfg.1	-	284	82171	c.81947C>T	c.(81946-81948)GCC>GTC	p.A27316V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A21011V|TTN_uc010zfi.1_Missense_Mutation_p.A20944V|TTN_uc010zfj.1_Missense_Mutation_p.A20819V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28243							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCTGTATCTGGCATCACTGCC	0.403													58	128					0	0	0.00361	0	0		A	179417976	A	A	179417976	3	1	4	1	0	0	0	0	1	0	0	0	16761	1203	42	2	18440	2	TTN	2	179417976	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	744	179417976	63781397	599	2565											
TTN	7273	broad.mit.edu	37	chr2	179422671	179422671	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagttggaggaccaggcCtgtctagcacaacaatgtta	11	8	12	10	0	1	0	0	0	1	0	1	2	1	2	3	4	2	3	3	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179422671C>A	uc010zfg.1	-	277	79930	c.79706G>T	c.(79705-79707)AGG>ATG	p.R26569M	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R20264M|TTN_uc010zfi.1_Missense_Mutation_p.R20197M|TTN_uc010zfj.1_Missense_Mutation_p.R20072M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27496							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGGACCAGGCCTGTCTAGCAC	0.448													68	196					2.51111e-31	2.75894e-31	0.00361	1	0		A	179422671	A	A	179422671	3	1	4	1	0	0	0	0	1	0	0	0	16761	681	24	5	20709	5	TTN	2	179422671	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4695	179422671	63776702	600	2566											
TTN	7273	broad.mit.edu	37	chr2	179444834	179444834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatttcctctctgcatcacGtttttgtaccacatagttta	8	17	6	10	1	2	0	1	0	1	0	4	1	3	1	2	1	2	4	2	1	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179444834G>A	uc010zfg.1	-	267	59700	c.59476C>T	c.(59476-59478)CGT>TGT	p.R19826C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R13521C|TTN_uc010zfi.1_Missense_Mutation_p.R13454C|TTN_uc010zfj.1_Missense_Mutation_p.R13329C|uc002umv.1_3'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20753							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTGCATCACGTTTTTGTACC	0.443													32	100					0	0	0.002836	0	0		A	179444834	A	A	179444834	3	1	4	1	0	0	0	0	1	0	0	0	16761	1145	40	1	40979	1	TTN	2	179444834	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	22163	179444834	63754539	601	2567											
TTN	7273	broad.mit.edu	37	chr2	179498195	179498195	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagtcacacacatattcGcctttatctttaaggtccgc	10	12	5	14	2	2	0	1	0	1	0	4	0	3	0	3	1	0	0	3	1	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179498195G>A	uc010zfg.1	-	181	35411	c.35187C>T	c.(35185-35187)GGC>GGT	p.G11729G	TTN_uc010zfh.1_Silent_p.G5424G|TTN_uc010zfi.1_Silent_p.G5357G|TTN_uc010zfj.1_Silent_p.G5232G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12656							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACACATATTCGCCTTTATCTT	0.428													14	46					0	0	0.001855	0	0		A	179498195	A	A	179498195	2	1	4	1	0	0	0	0	0	0	0	1	16761	1074	38	1		1	TTN	2	179498195	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	53361	179498195	63701178	602	2568											
TTN	7273	broad.mit.edu	37	chr2	179530112	179530112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggtaacgtacttttcataCgtggagtttctggctcttca	8	15	10	8	2	4	0	2	0	2	0	4	2	4	1	0	3	3	4	0	3	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179530112C>T	uc010zfk.1	-	10	1021	c.473G>A	c.(472-474)CGT>CAT	p.R158H	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACTTTTCATACGTGGAGTTTC	0.348													12	145					0	0	0.001855	0	0		T	179530112	T	T	179530112	3	4	4	1	0	0	0	0	1	0	0	0	16761	551	19	1		1	TTN	2	179530112	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	31917	179530112	63669261	603	2569											
TTN	7273	broad.mit.edu	37	chr2	179549074	179549074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctcttgcttttggaggcGcctcttttttagttacagca	6	17	8	10	1	2	0	0	0	2	0	2	1	2	1	2	2	4	3	2	2	3	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179549074G>A	uc010zfg.1	-	129	29197	c.28973C>T	c.(28972-28974)GCG>GTG	p.A9658V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A6319V|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10585							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTTGGAGGCGCCTCTTTTTT	0.393													8	21					0	0	0.004482	0	0		A	179549074	A	A	179549074	3	1	4	1	0	0	0	0	1	0	0	0	16761	1087	38	1	71748	1	TTN	2	179549074	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	18962	179549074	63650299	604	2570											
TTN	7273	broad.mit.edu	37	chr2	179575896	179575896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttttaaaaatattgagtgtgGctgtattgtctaaaaatgat	14	17	8	2	0	1	2	0	2	1	0	1	2	1	2	0	1	0	2	0	1	8	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179575896G>A	uc010zfg.1	-	94	24559	c.24335C>T	c.(24334-24336)GCC>GTC	p.A8112V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A4773V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9039							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATTGAGTGTGGCTGTATTGTC	0.448													5	111					0	0	0.000602	0	0		A	179575896	A	A	179575896	3	1	4	1	0	0	0	0	1	0	0	0	16761	1203	42	2	76526	2	TTN	2	179575896	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	26822	179575896	63623477	605	2571											
TTN	7273	broad.mit.edu	37	chr2	179582535	179582535	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaaggtggaagtttgcGcgctgtaaagaagttacaga	16	8	13	4	2	0	3	0	0	0	3	0	4	0	4	0	2	2	4	0	2	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179582535G>A	uc010zfg.1	-	84	21558	c.21334C>T	c.(21334-21336)CGC>TGC	p.R7112C	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.R3773C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8039							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGAAGTTTGCGCGCTGTAAAG	0.378													17	48					0	0	0.00499	0	0		A	179582535	A	A	179582535	3	1	4	1	0	0	0	0	1	0	0	0	16761	1087	38	1	79567	1	TTN	2	179582535	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6639	179582535	63616838	606	2572											
TTN	7273	broad.mit.edu	37	chr2	179597674	179597674	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgatctccaaagaggctgtgCcttccacaaatgctatcctg	10	11	8	12	0	1	2	0	1	1	1	4	2	3	2	4	1	2	2	4	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179597674C>T	uc010zfg.1	-	52	12721	c.12497G>A	c.(12496-12498)GGC>GAC	p.G4166D	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.G827D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5093							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGAGGCTGTGCCTTCCACAAA	0.488													13	20					0	0	0.001855	0	0		T	179597674	T	T	179597674	3	4	4	1	0	0	0	0	1	0	0	0	16761	739	26	2	88532	2	TTN	2	179597674	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	15139	179597674	63601699	607	2573											
TTN	7273	broad.mit.edu	37	chr2	179604723	179604723	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagccactcagagaaaagacCtggctgctcgctggccacgg	10	6	12	13	2	1	2	1	0	0	2	2	3	1	2	3	3	2	3	3	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179604723C>A	uc010zfh.1	-	46	12948	c.12724G>T	c.(12724-12726)GGT>TGT	p.G4242C	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.G4175C|TTN_uc010zfj.1_Missense_Mutation_p.G4050C|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAGAAAAGACCTGGCTGCTCG	0.473													14	52					7.41877e-09	7.94206e-09	0.001882	1	0		A	179604723	A	A	179604723	3	1	4	1	0	0	0	0	1	0	0	0	16761	681	24	5	91552	5	TTN	2	179604723	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7049	179604723	63594650	608	2574											
TTN	7273	broad.mit.edu	37	chr2	179633400	179633400	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taatatgtatgaaaccatacCttccacataaagtgtggctg	14	12	7	8	0	0	1	0	1	0	0	1	1	1	1	3	1	2	2	3	1	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179633400C>A	uc010zfg.1	-	38	9387	c.9163G>T	c.(9163-9165)GCT>TCT	p.A3055S	TTN_uc010zfh.1_Missense_Mutation_p.A3009S|TTN_uc010zfi.1_Missense_Mutation_p.A3009S|TTN_uc010zfj.1_Missense_Mutation_p.A3009S|TTN_uc002unb.2_Missense_Mutation_p.A3055S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3055							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAAACCATACCTTCCACATAA	0.313													4	26					1.23904e-05	1.30714e-05	0.000602	1	0		A	179633400	A	A	179633400	3	1	4	1	0	0	0	0	1	0	0	0	16761	695	24	5	102125	5	TTN	2	179633400	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	28677	179633400	63565973	609	2575											
TTN	7273	broad.mit.edu	37	chr2	179640598	179640598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctgcgcttgaatttactgCgcagctcttccgactcttca	6	15	7	13	3	4	1	1	1	3	0	5	2	5	1	1	0	4	3	1	0	2	6	rs144135510	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179640598C>T	uc010zfg.1	-	28	6217	c.5993G>A	c.(5992-5994)CGC>CAC	p.R1998H	TTN_uc010zfh.1_Missense_Mutation_p.R1952H|TTN_uc010zfi.1_Missense_Mutation_p.R1952H|TTN_uc010zfj.1_Missense_Mutation_p.R1952H|TTN_uc002unb.2_Missense_Mutation_p.R1998H|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1998							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAATTTACTGCGCAGCTCTTC	0.453													49	97					0	0	0.003214	0	0		T	179640598	T	T	179640598	3	4	4	1	0	0	0	0	1	0	0	0	16761	768	27	1	105335	1	TTN	2	179640598	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7198	179640598	63558775	610	2576											
TTN	7273	broad.mit.edu	37	chr2	179648867	179648867	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccagtgatgctcacccctActtcctttttcacctcaacg	7	13	5	16	1	3	1	3	1	0	0	4	1	4	1	5	0	4	1	5	0	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179648867A>G	uc010zfg.1	-	16	2929	c.2705T>C	c.(2704-2706)GTA>GCA	p.V902A	TTN_uc010zfh.1_Missense_Mutation_p.V856A|TTN_uc010zfi.1_Missense_Mutation_p.V856A|TTN_uc010zfj.1_Missense_Mutation_p.V856A|TTN_uc002unb.2_Missense_Mutation_p.V902A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	902							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCTCACCCCTACTTCCTTTTT	0.547													5	87					0	0	0.000602	0	0		G	179648867	G	G	179648867	3	3	4	1	0	0	0	0	1	0	0	0	16761	391	14	3	108671	3	TTN	2	179648867	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	8269	179648867	63550506	611	2577											
TTN	7273	broad.mit.edu	37	chr2	179648990	179648990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgggcttcacagtaggaGccttcaccgatttggtgatc	8	11	11	11	1	2	1	2	1	0	0	3	3	2	2	2	3	1	2	2	3	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179648990G>A	uc010zfg.1	-	16	2806	c.2582C>T	c.(2581-2583)GCT>GTT	p.A861V	TTN_uc010zfh.1_Missense_Mutation_p.A815V|TTN_uc010zfi.1_Missense_Mutation_p.A815V|TTN_uc010zfj.1_Missense_Mutation_p.A815V|TTN_uc002unb.2_Missense_Mutation_p.A861V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	861							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CACAGTAGGAGCCTTCACCGA	0.493													20	50					0	0	0.001882	0	0		A	179648990	A	A	179648990	3	1	4	1	0	0	0	0	1	0	0	0	16761	971	34	2	108794	2	TTN	2	179648990	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	123	179648990	63550383	612	2578											
TTN	7273	broad.mit.edu	37	chr2	179665162	179665162	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcgaagtagctcttccaacGctattggtggcatttactga	9	13	10	9	2	1	1	0	1	1	0	3	2	2	1	1	2	3	4	1	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179665162G>A	uc002und.2	-	4	768	c.543C>T	c.(541-543)AGC>AGT	p.S181S	TTN_uc010zfg.1_Silent_p.S181S|TTN_uc010zfh.1_Silent_p.S181S|TTN_uc010zfi.1_Silent_p.S181S|TTN_uc010zfj.1_Silent_p.S181S|TTN_uc002unb.2_Silent_p.S181S			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	181							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTCTTCCAACGCTATTGGTGG	0.468													10	165					0	0	0.003163	0	0		A	179665162	A	A	179665162	2	1	4	1	0	0	0	0	0	0	0	1	16761	1078	38	1		1	TTN	2	179665162	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	16172	179665162	63534211	613	2579											
TTN	7273	broad.mit.edu	37	chr2	179666955	179666955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgttggctttagtcacggCggggatcgtcagtttagcgc	6	12	14	9	4	2	0	2	0	0	0	3	1	2	1	0	4	1	3	0	4	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179666955C>T	uc002und.2	-	3	430	c.205G>A	c.(205-207)GCC>ACC	p.A69T	TTN_uc010zfg.1_Missense_Mutation_p.A69T|TTN_uc010zfh.1_Missense_Mutation_p.A69T|TTN_uc010zfi.1_Missense_Mutation_p.A69T|TTN_uc010zfj.1_Missense_Mutation_p.A69T|TTN_uc002unb.2_Missense_Mutation_p.A69T			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	69							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTAGTCACGGCGGGGATCGTC	0.547													33	57					0	0	0.003271	0	0		T	179666955	T	T	179666955	3	4	4	1	0	0	0	0	1	0	0	0	16761	768	27	1	111223	1	TTN	2	179666955	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1793	179666955	63532418	614	2580											
CCDC141	285025	broad.mit.edu	37	chr2	179732869	179732869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaatctgcacatcatgggCatcacccagttccttcggct	8	11	9	13	1	3	1	2	1	1	0	5	1	4	1	2	2	1	4	2	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179732869C>T	uc002unf.1	-	6	790	c.733G>A	c.(733-735)GCC>ACC	p.A245T		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	245							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			ACATCATGGGCATCACCCAGT	0.493													14	49					0	0	0.004007	0	0		T	179732869	T	T	179732869	3	4	4	1	0	0	0	0	1	0	0	0	2778	710	25	2	1926	2	CCDC141	2	179732869	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	65914	179732869	63466504	615	2581											
SESTD1	91404	broad.mit.edu	37	chr2	179974726	179974726	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgcagtagaagccatgTcacttggactcccaaaatat	12	12	7	10	0	2	1	1	0	1	1	3	2	3	2	2	1	2	2	2	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179974726T>C	uc002uni.3	-	18	2141	c.1991A>G	c.(1990-1992)GAC>GGC	p.D664G	SESTD1_uc002unh.3_Missense_Mutation_p.D167G	NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	664					regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			AGAAGCCATGTCACTTGGACT	0.373													10	47					0	0	0.001368	0	0		C	179974726	C	C	179974726	3	2	4	1	0	0	0	0	1	0	0	0	14152	1667	58	3	103	3	SESTD1	2	179974726	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	241857	179974726	63224647	616	2582											
SESTD1	91404	broad.mit.edu	37	chr2	180047900	180047900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcaaaatgaggccactcCgtctgtcttttcctcctatt	7	16	6	12	1	3	1	1	1	2	0	6	1	6	1	4	1	0	0	4	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:180047900C>T	uc002uni.3	-	3	221	c.71G>A	c.(70-72)CGG>CAG	p.R24Q		NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	24	CRAL-TRIO.				regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			GAGGCCACTCCGTCTGTCTTT	0.348													17	44					0	0	0.006122	0	0		T	180047900	T	T	180047900	3	4	4	1	0	0	0	0	1	0	0	0	14152	652	23	1	2083	1	SESTD1	2	180047900	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	73174	180047900	63151473	617	2583											
NEUROD1	4760	broad.mit.edu	37	chr2	182542954	182542954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggtgtacagggaaggaagCgctggccgtcggcaggtggg	7	5	22	7	3	0	0	0	0	0	0	1	2	0	2	1	8	2	3	1	8	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:182542954C>T	uc002uof.2	-	2	870	c.634G>A	c.(634-636)GCT>ACT	p.A212T	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	212					amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			GGGAAGGAAGCGCTGGCCGTC	0.622													11	27					0	0	0.00499	0	0		T	182542954	T	T	182542954	3	4	4	1	0	0	0	0	1	0	0	0	10367	768	27	1	440	1	NEUROD1	2	182542954	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2495054	182542954	60656419	618	2584											
SSFA2	6744	broad.mit.edu	37	chr2	182786932	182786932	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcatcggtggctctaacGccaacagctccttctagaac	10	8	9	14	3	2	1	0	0	2	1	4	2	3	1	2	2	5	3	2	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:182786932G>A	uc002uoi.2	+	16	3790	c.3468G>A	c.(3466-3468)ACG>ACA	p.T1156T	SSFA2_uc002uoh.2_Silent_p.T1156T|SSFA2_uc002uoj.2_Silent_p.T1134T|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Silent_p.T981T|SSFA2_uc002uol.2_Silent_p.T1003T|SSFA2_uc002uom.2_Silent_p.T620T	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	1156						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			TGGCTCTAACGCCAACAGCTC	0.502													11	172					0	0	0.00245	0	0		A	182786932	A	A	182786932	2	1	4	1	0	0	0	0	0	0	0	1	15208	1074	38	1		1	SSFA2	2	182786932	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	243978	182786932	60412441	619	2585											
FRZB	2487	broad.mit.edu	37	chr2	183730941	183730941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcacagccctgccgggcccGctcgcacacagacttacagg	8	5	10	18	3	1	1	1	0	0	1	2	1	1	1	3	2	3	2	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:183730941G>A	uc002upa.1	-	1	558	c.340C>T	c.(340-342)CGG>TGG	p.R114W		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein precursor	114	FZ.				brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)			TGCCGGGCCCGCTCGCACACA	0.627													9	22					0	0	0.006214	0	0		A	183730941	A	A	183730941	3	1	4	1	0	0	0	0	1	0	0	0	6079	1086	38	1	661	1	FRZB	2	183730941	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	944009	183730941	59468432	620	2586											
ZNF804A	91752	broad.mit.edu	37	chr2	185800759	185800759	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggattcacagacacaaaatCggcttttcttttgcatttcc	10	14	7	10	1	2	1	1	0	1	1	4	2	3	2	1	2	1	2	1	2	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:185800759C>T	uc002uph.2	+	4	1230	c.636C>T	c.(634-636)ATC>ATT	p.I212I		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	212						intracellular	zinc ion binding	p.I212I(1)		ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						GACACAAAATCGGCTTTTCTT	0.438													6	77					0	0	0.001984	0	0		T	185800759	T	T	185800759	2	4	4	1	0	0	0	0	0	0	0	1	18195	874	31	1		1	ZNF804A	2	185800759	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2069818	185800759	57398614	621	2587											
CALCRL	10203	broad.mit.edu	37	chr2	188247920	188247920	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgcttgttgaatggggTcttgcataatcttttggtaa	7	18	10	6	0	3	1	0	1	3	0	3	1	3	1	0	3	2	4	0	3	3	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:188247920T>C	uc002upv.3	-	5	712	c.164A>G	c.(163-165)GAC>GGC	p.D55G	CALCRL_uc010frt.2_Missense_Mutation_p.D55G	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	55	Extracellular (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			TTGAATGGGGTCTTGCATAAT	0.343													5	80					0	0	0.000602	0	0		C	188247920	C	C	188247920	3	2	4	1	0	0	0	0	1	0	0	0	2583	1667	58	3	1265	3	CALCRL	2	188247920	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2447161	188247920	54951453	622	2588											
SLC40A1	30061	broad.mit.edu	37	chr2	190445148	190445148	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcaacgacactcaccacaGcatcctctctggcggttgtg	8	9	10	14	2	3	0	2	0	1	0	5	1	4	0	2	3	2	2	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:190445148G>A	uc002uqp.3	-	1	390	c.39C>T	c.(37-39)TGC>TGT	p.C13C	SLC40A1_uc002uqr.1_RNA|SLC40A1_uc002uqs.1_RNA|SLC40A1_uc002uqq.2_Silent_p.C13C|SLC40A1_uc010zfx.1_RNA	NM_014585	NP_055400	Q9NP59	S40A1_HUMAN	solute carrier family 40 (iron-regulated	13	Helical; (Potential).				anatomical structure morphogenesis|cellular iron ion homeostasis	cytoplasm|integral to plasma membrane	iron ion transmembrane transporter activity|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000917)|Epithelial(96;0.014)|all cancers(119;0.0491)			ACTCACCACAGCATCCTCTCT	0.587													14	46					0	0	0.008871	0	0		A	190445148	A	A	190445148	2	1	4	1	0	0	0	0	0	0	0	1	14653	963	34	2		2	SLC40A1	2	190445148	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2197228	190445148	52754225	623	2589											
ANKAR	150709	broad.mit.edu	37	chr2	190593148	190593148	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctaaaatgcagtatgttggTaagttattttccttatttta	11	19	7	4	0	0	0	0	0	0	0	1	0	1	0	1	1	1	6	1	1	7	10			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:190593148T>A	uc002uqw.1	+	13	2818	c.2818_splice	c.e13+2	p.G940_splice	ANKAR_uc002uqu.2_Splice_Site|ANKAR_uc002uqx.1_Splice_Site|ANKAR_uc002uqy.1_Splice_Site_p.G107_splice	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing							integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			AGTATGTTGGTAAGTTATTTT	0.169													4	35					0	0	0.009096	0	0		A	190593148	A	A	190593148	5	1	4	1	0	0	0	0	0	0	1	0	623	1652	57	5	3083	5	ANKAR	2	190593148	Splice_Site	SNP	T	TCGA-BR-4184-01A-01D-1126-08	148000	190593148	52606225	624	2590											
PMS1	5378	broad.mit.edu	37	chr2	190660570	190660570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgttgatgcacctgtaatgGcaatgaagtactacacctca	12	11	8	10	0	1	2	1	2	0	0	1	2	1	2	2	1	3	5	2	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:190660570G>A	uc002urh.3	+	3	737	c.208G>A	c.(208-210)GCA>ACA	p.A70T	PMS1_uc010zga.1_Missense_Mutation_p.A70T|PMS1_uc010zgb.1_Intron|PMS1_uc002urk.3_Missense_Mutation_p.A70T|PMS1_uc002uri.3_Missense_Mutation_p.A70T|PMS1_uc010zgc.1_5'UTR|PMS1_uc010zgd.1_Intron|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Missense_Mutation_p.A70T|PMS1_uc010frz.2_Missense_Mutation_p.A70T|PMS1_uc010zfz.1_Missense_Mutation_p.A70T	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	70					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			ACCTGTAATGGCAATGAAGTA	0.368			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					9	93					0	0	0.004482	0	0		A	190660570	A	A	190660570	3	1	4	1	0	0	0	0	1	0	0	0	12161	1203	42	2	214	2	PMS1	2	190660570	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	67422	190660570	52538803	625	2591											
MFSD6	54842	broad.mit.edu	37	chr2	191301521	191301521	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtctccccaggaagcgtaAccaaggagacaaccactgtt	12	7	9	13	1	1	1	0	0	1	1	2	3	1	2	4	2	3	2	4	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:191301521A>G	uc002urz.2	+	3	1090	c.766A>G	c.(766-768)ACC>GCC	p.T256A		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	256					transmembrane transport	integral to membrane				ovary(2)	2						AGGAAGCGTAACCAAGGAGAC	0.443													7	163					0	0	0.004482	0	0		G	191301521	G	G	191301521	3	3	4	1	0	0	0	0	1	0	0	0	9553	43	2	3	768	3	MFSD6	2	191301521	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	640951	191301521	51897852	626	2592											
MFSD6	54842	broad.mit.edu	37	chr2	191301738	191301738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatcgctatgggttgcagcGcatgtggggctccctgggct	5	10	16	10	2	0	1	0	0	0	1	2	1	1	1	1	4	2	6	1	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:191301738G>A	uc002urz.2	+	3	1307	c.983G>A	c.(982-984)CGC>CAC	p.R328H		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	328					transmembrane transport	integral to membrane				ovary(2)	2						GGGTTGCAGCGCATGTGGGGC	0.537													6	80					0	0	0.00308	0	0		A	191301738	A	A	191301738	3	1	4	1	0	0	0	0	1	0	0	0	9553	1087	38	1	985	1	MFSD6	2	191301738	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	217	191301738	51897635	627	2593											
STAT1	6772	broad.mit.edu	37	chr2	191851675	191851675	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgttgaacttcctaaatcTatacaatataggaaagaaat	19	12	5	5	0	1	2	0	1	1	1	2	3	2	3	1	1	2	1	1	1	11	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:191851675T>G	uc002usj.2	-	14	1516	c.1128_splice	c.e14-1	p.G376_splice	STAT1_uc010fse.1_Splice_Site_p.G376_splice|STAT1_uc002usk.2_Splice_Site_p.G376_splice|STAT1_uc002usl.2_Splice_Site_p.G378_splice|STAT1_uc010fsf.1_Splice_Site_p.G188_splice	NM_007315	NP_009330	P42224	STAT1_HUMAN	signal transducer and activator of transcription						activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)	TTCCTAAATCTATACAATATA	0.398													8	187					0	0	0.00308	0	0		G	191851675	G	G	191851675	5	3	4	1	0	0	0	0	0	0	1	0	15289	1536	53	5	1178	5	STAT1	2	191851675	Splice_Site	SNP	T	TCGA-BR-4184-01A-01D-1126-08	549937	191851675	51347698	628	2594											
DNAH7	56171	broad.mit.edu	37	chr2	196673563	196673563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggattatccagtccaatgCcaccagttagcagaaatctc	14	9	7	11	0	1	1	0	0	1	1	4	2	3	2	4	1	2	2	4	1	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:196673563C>T	uc002utj.3	-	53	10027	c.9926G>A	c.(9925-9927)GGC>GAC	p.G3309D		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3309					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CAGTCCAATGCCACCAGTTAG	0.408													5	53					0	0	0.001168	0	0		T	196673563	T	T	196673563	3	4	4	1	0	0	0	0	1	0	0	0	4612	739	26	2	2200	2	DNAH7	2	196673563	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4821888	196673563	46525810	629	2595											
DNAH7	56171	broad.mit.edu	37	chr2	196718175	196718175	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctagctccagagctgtgtgGctccatcgagttttctcacc	6	12	9	14	1	1	1	1	0	1	1	5	2	3	1	4	1	2	4	4	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:196718175G>A	uc002utj.3	-	46	8774	c.8673C>T	c.(8671-8673)AGC>AGT	p.S2891S		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2891					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GAGCTGTGTGGCTCCATCGAG	0.483													4	64					0	0	0.009096	0	0		A	196718175	A	A	196718175	2	1	4	1	0	0	0	0	0	0	0	1	4612	1194	42	2		2	DNAH7	2	196718175	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	44612	196718175	46481198	630	2596											
DNAH7	56171	broad.mit.edu	37	chr2	196771409	196771409	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatctggcagttctgatcGcccagcatacccagggttca	8	11	10	12	1	3	1	1	1	2	0	4	1	3	1	2	2	2	5	2	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:196771409G>A	uc002utj.3	-	27	4410	c.4309C>T	c.(4309-4311)CGA>TGA	p.R1437*		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1437	AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AGTTCTGATCGCCCAGCATAC	0.338													14	77					0	0	0.004007	0	0		A	196771409	A	A	196771409	4	1	4	1	0	0	0	0	0	1	0	0	4612	1095	38	1	7921	1	DNAH7	2	196771409	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	53234	196771409	46427964	631	2597											
CCDC150	284992	broad.mit.edu	37	chr2	197521851	197521851	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccactctgaagattgcctcGcagacaaaggtttgagtcta	11	10	10	10	1	2	4	0	2	2	2	3	4	2	4	2	1	1	2	2	1	3	3	rs146046280	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:197521851G>A	uc002utp.1	+	4	702	c.567G>A	c.(565-567)TCG>TCA	p.S189S	CCDC150_uc002uto.1_Silent_p.S189S|CCDC150_uc010zgq.1_RNA|CCDC150_uc010zgr.1_Intron|CCDC150_uc010zgs.1_Intron	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150	189	Potential.										0						AGATTGCCTCGCAGACAAAGG	0.428													9	73					0	0	0.006214	0	0		A	197521851	A	A	197521851	2	1	4	1	0	0	0	0	0	0	0	1	2788	1074	38	1		1	CCDC150	2	197521851	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	750442	197521851	45677522	632	2598											
PGAP1	80055	broad.mit.edu	37	chr2	197763060	197763060	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacaatggagaggtggtCtgttgagacccaggtcttag	10	9	13	9	0	2	2	0	1	2	2	2	4	2	2	2	4	0	1	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:197763060C>A	uc002utw.2	-	6	955	c.841G>T	c.(841-843)GAC>TAC	p.D281Y	PGAP1_uc002utx.2_Missense_Mutation_p.D107Y|PGAP1_uc002uty.1_Missense_Mutation_p.D281Y|PGAP1_uc010zgv.1_RNA|PGAP1_uc010fsj.2_Missense_Mutation_p.D107Y	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	281	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						GAGAGGTGGTCTGTTGAGACC	0.353													21	50					1.55469e-16	1.69565e-16	0.00333	1	0		A	197763060	A	A	197763060	3	1	4	1	0	0	0	0	1	0	0	0	11796	913	32	5	2015	5	PGAP1	2	197763060	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	241209	197763060	45436313	633	2599											
ANKRD44	91526	broad.mit.edu	37	chr2	197987425	197987425	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acattaatctgtccattggaGgctgcagcatgcagaggggt	10	10	13	8	0	1	1	0	0	1	1	2	2	2	2	1	4	3	4	1	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:197987425G>T	uc002uuc.2	-	7	809	c.642C>A	c.(640-642)GCC>GCA	p.A214A	ANKRD44_uc002utz.3_5'UTR|ANKRD44_uc002uua.1_Silent_p.A189A|ANKRD44_uc002uub.2_Silent_p.A214A|ANKRD44_uc010zgw.1_Silent_p.A142A	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	214	ANK 7.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GTCCATTGGAGGCTGCAGCAT	0.458													7	48					5.18039e-06	5.47617e-06	0.00308	1	0		T	197987425	T	T	197987425	2	4	4	1	0	0	0	0	0	0	0	1	672	987	35	5		5	ANKRD44	2	197987425	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	224365	197987425	45211948	634	2600											
PLCL1	5334	broad.mit.edu	37	chr2	198950276	198950276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agactccgggtccaatgatgGaccttcacacgggctggttt	8	10	12	11	2	1	2	1	1	0	1	3	3	3	3	3	4	0	2	3	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:198950276G>A	uc010fsp.2	+	2	2326	c.2035G>A	c.(2035-2037)GAC>AAC	p.D679N	PLCL1_uc002uuv.3_Missense_Mutation_p.D600N	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	679	PI-PLC Y-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TCCAATGATGGACCTTCACAC	0.443													23	64					0	0	0.002299	0	0		A	198950276	A	A	198950276	3	1	4	1	0	0	0	0	1	0	0	0	12058	1174	41	4	2041	4	PLCL1	2	198950276	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	962851	198950276	44249097	635	2601											
SATB2	23314	broad.mit.edu	37	chr2	200298074	200298074	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaataccttgggcctgggcCgcagagctgtgagaataccc	9	9	12	11	1	0	2	0	1	0	2	0	3	0	2	4	2	3	2	4	2	4	4	rs140116634		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:200298074C>T	uc002uuy.1	-	3	1150	c.333G>A	c.(331-333)GCG>GCA	p.A111A	SATB2_uc010fsq.1_Silent_p.A111A|SATB2_uc002uuz.1_Silent_p.A111A|SATB2_uc002uva.1_Silent_p.A111A	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	111						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGGCCTGGGCCGCAGAGCTGT	0.507													19	54					0	0	0.006122	0	0		T	200298074	T	T	200298074	2	4	4	1	0	0	0	0	0	0	0	1	13879	639	23	1		1	SATB2	2	200298074	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1347798	200298074	42901299	636	2602											
KCTD18	130535	broad.mit.edu	37	chr2	201369584	201369584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagcctcttcctgtagggCgatgcgggtttgctcatctg	5	13	12	11	2	4	0	2	0	2	0	5	1	5	0	2	2	3	3	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:201369584C>T	uc002uvs.2	-	3	776	c.259G>A	c.(259-261)GCC>ACC	p.A87T	KCTD18_uc002uvt.2_Missense_Mutation_p.A87T|KCTD18_uc002uvu.1_Missense_Mutation_p.A87T	NM_152387	NP_689600	Q6PI47	KCD18_HUMAN	potassium channel tetramerization domain	87						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1						TCCTGTAGGGCGATGCGGGTT	0.433													6	66					0	0	0.001168	0	0		T	201369584	T	T	201369584	3	4	4	1	0	0	0	0	1	0	0	0	8121	768	27	1	1041	1	KCTD18	2	201369584	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1071510	201369584	41829789	637	2603											
SGOL2	151246	broad.mit.edu	37	chr2	201437568	201437568	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaatgataacaaaggtgtAcatgacctagaaaaagataa	21	7	9	4	0	0	5	0	2	0	3	0	6	0	5	1	1	2	1	1	1	8	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:201437568A>G	uc002uvw.2	+	7	2612	c.2499A>G	c.(2497-2499)GTA>GTG	p.V833V	SGOL2_uc010zhd.1_Silent_p.V833V|SGOL2_uc010zhe.1_Silent_p.V833V	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	833					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						ACAAAGGTGTACATGACCTAG	0.308													12	140					0	0	0.001368	0	0		G	201437568	G	G	201437568	2	3	4	1	0	0	0	0	0	0	0	1	14242	378	14	3		3	SGOL2	2	201437568	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	67984	201437568	41761805	638	2604											
CLK1	1195	broad.mit.edu	37	chr2	201721521	201721521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatctggatttattaaggtgCgttcatcacgtttctgaaaa	11	16	8	6	2	4	1	2	1	2	0	4	2	4	2	0	2	1	2	0	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:201721521C>T	uc002uwe.2	-	9	1122	c.941G>A	c.(940-942)CGC>CAC	p.R314H	CLK1_uc002uwd.2_Missense_Mutation_p.R137H|CLK1_uc010zhi.1_Missense_Mutation_p.R356H|CLK1_uc002uwf.2_Missense_Mutation_p.R88H|CLK1_uc002uwg.2_Missense_Mutation_p.R163H|CLK1_uc010fsv.2_RNA	NM_004071	NP_004062	P49759	CLK1_HUMAN	CDC-like kinase 1 isoform 1	314	Protein kinase.				cell proliferation	nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			pancreas(2)	2						TATTAAGGTGCGTTCATCACG	0.323													30	50					0	0	0.004289	0	0		T	201721521	T	T	201721521	3	4	4	1	0	0	0	0	1	0	0	0	3539	768	27	1	533	1	CLK1	2	201721521	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	283953	201721521	41477852	639	2605											
FAM117B	150864	broad.mit.edu	37	chr2	203622048	203622048	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcagacaggggaagcaacaAcagcagccgttcccagtccg	12	3	13	13	2	0	1	0	0	0	1	2	2	2	2	3	3	5	4	3	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:203622048A>G	uc010zhx.1	+	6	1227	c.1217A>G	c.(1216-1218)AAC>AGC	p.N406S		NM_173511	NP_775782	Q6P1L5	F117B_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	406										ovary(1)	1						GGAAGCAACAACAGCAGCCGT	0.577													4	35					0	0	0.000602	0	0		G	203622048	G	G	203622048	3	3	4	1	0	0	0	0	1	0	0	0	5421	43	2	3	1239	3	FAM117B	2	203622048	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1900527	203622048	39577325	640	2606											
RAPH1	65059	broad.mit.edu	37	chr2	204354353	204354353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatccagctcttgagggCgtgttactttatcaatatcc	10	14	7	10	1	3	1	2	1	1	0	5	1	5	1	2	1	2	2	2	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:204354353C>T	uc002vad.2	-	4	911	c.686G>A	c.(685-687)CGC>CAC	p.R229H	RAPH1_uc002vae.2_Missense_Mutation_p.R229H|RAPH1_uc002vaf.2_Missense_Mutation_p.R229H	NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	229					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10						CTCTTGAGGGCGTGTTACTTT	0.403													22	89					0	0	0.004656	0	0		T	204354353	T	T	204354353	3	4	4	1	0	0	0	0	1	0	0	0	13075	768	27	1	3281	1	RAPH1	2	204354353	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	732305	204354353	38845020	641	2607											
PARD3B	117583	broad.mit.edu	37	chr2	205986630	205986630	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcctctcatgggatttggCagcaataaaaatgcaaagaa	15	9	9	8	1	1	1	1	0	1	1	3	2	1	2	1	2	2	3	1	2	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:205986630C>A	uc002var.1	+	8	1329	c.1122C>A	c.(1120-1122)GGC>GGA	p.G374G	PARD3B_uc010fub.1_Silent_p.G374G|PARD3B_uc002vao.1_Silent_p.G374G|PARD3B_uc002vap.1_Silent_p.G374G|PARD3B_uc002vaq.1_Silent_p.G374G	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	374					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		TGGGATTTGGCAGCAATAAAA	0.388													15	54					0.000422831	0.000441874	0.004007	1	0		A	205986630	A	A	205986630	2	1	4	1	0	0	0	0	0	0	0	1	11463	697	25	5		5	PARD3B	2	205986630	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1632277	205986630	37212743	642	2608											
NRP2	8828	broad.mit.edu	37	chr2	206608199	206608199	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaagccagagcatttgtgCgcaagttcaaagtctcctac	11	10	10	10	1	2	1	1	0	1	1	3	2	2	2	2	1	4	3	2	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:206608199C>T	uc002vaw.2	+	9	2355	c.1564C>T	c.(1564-1566)CGC>TGC	p.R522C	NRP2_uc002vat.2_Missense_Mutation_p.R522C|NRP2_uc002vau.2_Missense_Mutation_p.R522C|NRP2_uc002vav.2_Missense_Mutation_p.R522C|NRP2_uc002vax.2_Missense_Mutation_p.R522C|NRP2_uc002vay.2_Missense_Mutation_p.R522C|NRP2_uc010fud.2_Missense_Mutation_p.R522C	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	522	Extracellular (Potential).|F5/8 type C 2.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						AGCATTTGTGCGCAAGTTCAA	0.542													13	45					0	0	0.003163	0	0		T	206608199	T	T	206608199	3	4	4	1	0	0	0	0	1	0	0	0	10680	768	27	1	1598	1	NRP2	2	206608199	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	621569	206608199	36591174	643	2609											
EEF1B2	1933	broad.mit.edu	37	chr2	207026140	207026140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagacactacaggaagtggaGctacagatagtaaagatgat	18	7	11	5	0	0	4	0	1	0	3	0	6	0	6	0	2	3	2	0	2	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:207026140G>A	uc002vbf.1	+	4	432	c.274G>A	c.(274-276)GCT>ACT	p.A92T	NDUFS1_uc010ziq.1_5'Flank|NDUFS1_uc002vbe.2_5'Flank|NDUFS1_uc010zir.1_5'Flank|NDUFS1_uc010zis.1_5'Flank|NDUFS1_uc010zit.1_5'Flank|NDUFS1_uc010ziu.1_5'Flank|EEF1B2_uc002vbg.1_Missense_Mutation_p.A92T|EEF1B2_uc002vbh.1_Missense_Mutation_p.A92T|SNORD51_uc002vbi.1_5'Flank|SNORA41_uc002vbj.2_5'Flank	NM_001037663	NP_001032752	P24534	EF1B_HUMAN	eukaryotic translation elongation factor 1 beta	92						cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						AGGAAGTGGAGCTACAGATAG	0.378													37	77					0	0	0.00623	0	0		A	207026140	A	A	207026140	3	1	4	1	0	0	0	0	1	0	0	0	4931	971	34	2	284	2	EEF1B2	2	207026140	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	417941	207026140	36173233	644	2610											
ZDBF2	57683	broad.mit.edu	37	chr2	207170556	207170556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacctttccaaggaagtacGtactgatgtacagtataaga	16	10	8	7	1	0	2	0	1	0	1	1	3	1	3	2	1	4	4	2	1	8	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:207170556G>A	uc002vbp.2	+	5	1554	c.1304G>A	c.(1303-1305)CGT>CAT	p.R435H		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	435							nucleic acid binding|zinc ion binding			ovary(3)	3						AAGGAAGTACGTACTGATGTA	0.343													18	79					0	0	0.008871	0	0		A	207170556	A	A	207170556	3	1	4	1	0	0	0	0	1	0	0	0	17624	1145	40	1	1314	1	ZDBF2	2	207170556	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	144416	207170556	36028817	645	2611											
ZDBF2	57683	broad.mit.edu	37	chr2	207175899	207175899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaacagtcaatttggattcGgaccaaaccaagtgatatca	16	9	8	8	1	2	1	2	1	0	0	3	4	2	3	2	2	2	0	2	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:207175899G>A	uc002vbp.2	+	5	6897	c.6647G>A	c.(6646-6648)CGG>CAG	p.R2216Q		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	2216							nucleic acid binding|zinc ion binding			ovary(3)	3						ATTTGGATTCGGACCAAACCA	0.358													6	56					0	0	0.001168	0	0		A	207175899	A	A	207175899	3	1	4	1	0	0	0	0	1	0	0	0	17624	1116	39	1	6657	1	ZDBF2	2	207175899	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5343	207175899	36023474	646	2612											
ADAM23	8745	broad.mit.edu	37	chr2	207406814	207406814	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccatggaagcatcagaggCgtcaaagactccaaggtggc	13	6	12	10	1	2	2	2	0	0	2	3	3	3	3	2	4	2	1	2	4	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:207406814C>T	uc002vbq.2	+	5	835	c.612C>T	c.(610-612)GGC>GGT	p.G204G	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	204					cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		GCATCAGAGGCGTCAAAGACT	0.423													13	94					0	0	0.001855	0	0		T	207406814	T	T	207406814	2	4	4	1	0	0	0	0	0	0	0	1	245	755	27	1		1	ADAM23	2	207406814	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	230915	207406814	35792559	647	2613											
MDH1B	130752	broad.mit.edu	37	chr2	207619807	207619807	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccccagcgccacagcaataAtgttgtgtgcaatgcgtggg	9	8	12	12	2	0	0	0	0	0	0	0	0	0	0	3	1	4	3	3	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:207619807A>T	uc002vbs.2	-	5	891	c.836T>A	c.(835-837)ATT>AAT	p.I279N	MDH1B_uc010ziw.1_Intron|MDH1B_uc010fui.2_Missense_Mutation_p.I279N|MDH1B_uc010fuj.2_Missense_Mutation_p.I181N|MDH1B_uc002vbt.2_Intron	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)	279					carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		CACAGCAATAATGTTGTGTGC	0.463													5	89					0	0	0.001168	0	0		T	207619807	T	T	207619807	3	4	4	1	0	0	0	0	1	0	0	0	9427	101	4	5	752	5	MDH1B	2	207619807	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	212993	207619807	35579566	648	2614											
CRYGA	1418	broad.mit.edu	37	chr2	209025726	209025726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacagttctggaacacaggcGcagtcatcagtgagctcaga	13	7	11	10	1	4	2	3	1	1	1	4	3	4	3	0	2	3	3	0	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:209025726G>A	uc002vcq.3	-	3	344	c.327C>T	c.(325-327)TGC>TGT	p.C109C		NM_014617	NP_055432	P11844	CRGA_HUMAN	crystallin, gamma A	109	Beta/gamma crystallin 'Greek key' 3.				visual perception		structural constituent of eye lens				0				Epithelial(149;0.067)|LUSC - Lung squamous cell carcinoma(261;0.0708)|Lung(261;0.135)		GAACACAGGCGCAGTCATCAG	0.532													19	47					0	0	0.007413	0	0		A	209025726	A	A	209025726	2	1	4	1	0	0	0	0	0	0	0	1	3917	1079	38	1		1	CRYGA	2	209025726	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1405919	209025726	34173647	649	2615											
LANCL1	10314	broad.mit.edu	37	chr2	211302452	211302452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtagattaccccaggggCgccatggcaccaatggacaa	12	6	11	12	1	0	1	0	0	0	1	0	2	0	2	4	4	1	2	4	4	4	2	rs149749262	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:211302452C>T	uc010zjh.1	-	7	910	c.835G>A	c.(835-837)GCC>ACC	p.A279T	LANCL1_uc002ved.2_Missense_Mutation_p.A279T|LANCL1_uc010fuq.2_Missense_Mutation_p.A279T	NM_001136574	NP_001130046	O43813	LANC1_HUMAN	lanthionine synthetase C-like protein 1	279						cytoplasm|integral to plasma membrane|microtubule cytoskeleton|nucleus	catalytic activity|G-protein coupled receptor activity|glutathione binding|low-density lipoprotein particle receptor binding|SH3 domain binding|zinc ion binding				0				Epithelial(149;0.00562)|Lung(261;0.0468)|LUSC - Lung squamous cell carcinoma(261;0.0495)|all cancers(144;0.0569)		ACCCCAGGGGCGCCATGGCAC	0.378													22	41					0	0	0.005443	0	0		T	211302452	T	T	211302452	3	4	4	1	0	0	0	0	1	0	0	0	8636	768	27	1	380	1	LANCL1	2	211302452	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2276726	211302452	31896921	650	2616											
CPS1	1373	broad.mit.edu	37	chr2	211507258	211507258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctagtatccgcacactgCgtcaacttggcaagaagacg	11	9	9	12	3	2	2	1	0	1	2	4	2	3	2	1	1	2	3	1	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:211507258C>T	uc002vee.3	+	25	3142	c.3010C>T	c.(3010-3012)CGT>TGT	p.R1004C	CPS1_uc010fur.2_Missense_Mutation_p.R1010C|CPS1_uc010fus.2_Missense_Mutation_p.R553C	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1004					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		CCGCACACTGCGTCAACTTGG	0.463													6	79					0	0	0.001984	0	0		T	211507258	T	T	211507258	3	4	4	1	0	0	0	0	1	0	0	0	3826	768	27	1	3130	1	CPS1	2	211507258	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	204806	211507258	31692115	651	2617											
FN1	2335	broad.mit.edu	37	chr2	216269111	216269111	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacttaattttcagcttaCgtgtggtaaagactccagtg	10	13	10	8	1	1	1	1	0	0	1	2	1	2	1	1	2	2	3	1	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:216269111C>T	uc002vfa.2	-	20	3519	c.3253_splice	c.e20+1	p.L1085_splice	FN1_uc002vfb.2_Splice_Site_p.L1085_splice|FN1_uc002vfc.2_Splice_Site_p.L1085_splice|FN1_uc002vfd.2_Splice_Site_p.L1085_splice|FN1_uc002vfe.2_Splice_Site_p.L1085_splice|FN1_uc002vff.2_Splice_Site_p.L1085_splice|FN1_uc002vfg.2_Splice_Site_p.L1085_splice|FN1_uc002vfh.2_Splice_Site_p.L1085_splice|FN1_uc002vfi.2_Splice_Site_p.L1085_splice|FN1_uc002vfj.2_Splice_Site_p.L1085_splice	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein						acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTTCAGCTTACGTGTGGTAAA	0.358													19	72					0	0	0.001882	0	0		T	216269111	T	T	216269111	5	4	4	1	0	0	0	0	0	0	1	0	5976	550	19	1	4287	1	FN1	2	216269111	Splice_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4761853	216269111	26930262	652	2618											
FN1	2335	broad.mit.edu	37	chr2	216298122	216298122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcatggagtctttaggacGctcataagtgtcacccactc	10	11	9	11	1	4	0	3	0	1	0	5	3	4	2	1	2	0	1	1	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:216298122G>A	uc002vfa.2	-	3	606	c.340C>T	c.(340-342)CGT>TGT	p.R114C	FN1_uc002vfb.2_Missense_Mutation_p.R114C|FN1_uc002vfc.2_Missense_Mutation_p.R114C|FN1_uc002vfd.2_Missense_Mutation_p.R114C|FN1_uc002vfe.2_Missense_Mutation_p.R114C|FN1_uc002vff.2_Missense_Mutation_p.R114C|FN1_uc002vfg.2_Missense_Mutation_p.R114C|FN1_uc002vfh.2_Missense_Mutation_p.R114C|FN1_uc002vfi.2_Missense_Mutation_p.R114C|FN1_uc002vfj.2_Missense_Mutation_p.R114C|FN1_uc002vfl.2_Missense_Mutation_p.R114C	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	114	Fibronectin type-I 2.|Fibrin- and heparin-binding 1.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCTTTAGGACGCTCATAAGTG	0.488													20	63					0	0	0.008871	0	0		A	216298122	A	A	216298122	3	1	4	1	0	0	0	0	1	0	0	0	5976	1087	38	1	7302	1	FN1	2	216298122	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	29011	216298122	26901251	653	2619											
TNS1	7145	broad.mit.edu	37	chr2	218682847	218682847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgaggtgacggcccaggCtggggcttccagggctggct	4	7	17	13	2	0	1	0	1	0	0	2	2	2	1	3	7	0	4	3	7	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:218682847C>T	uc002vgt.2	-	24	4294	c.3896G>A	c.(3895-3897)AGC>AAC	p.S1299N	TNS1_uc002vgr.2_Missense_Mutation_p.S1286N|TNS1_uc002vgs.2_Missense_Mutation_p.S1278N|TNS1_uc010zjv.1_Missense_Mutation_p.S1278N	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1299						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		ACGGCCCAGGCTGGGGCTTCC	0.667													3	11					0	0	0.000602	0	0		T	218682847	T	T	218682847	3	4	4	1	0	0	0	0	1	0	0	0	16368	797	28	2	1351	2	TNS1	2	218682847	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2384725	218682847	24516526	654	2620											
TNS1	7145	broad.mit.edu	37	chr2	218751283	218751283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagactcaaagttggggatgCcgtgcatgatcacgtggtgc	9	10	14	8	2	2	2	2	1	0	1	2	3	2	3	1	3	3	2	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:218751283C>T	uc002vgt.2	-	11	976	c.578G>A	c.(577-579)GGC>GAC	p.G193D	TNS1_uc002vgr.2_Missense_Mutation_p.G193D|TNS1_uc002vgs.2_Missense_Mutation_p.G193D|TNS1_uc010zjv.1_Missense_Mutation_p.G193D|TNS1_uc010fvj.1_Missense_Mutation_p.G261D|TNS1_uc010fvk.1_Missense_Mutation_p.G318D|TNS1_uc002vgu.3_Missense_Mutation_p.G224D|TNS1_uc010fvi.1_5'Flank	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	193	C2 tensin-type.					cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GTTGGGGATGCCGTGCATGAT	0.522											OREG0015188	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	9					0	0	0.009096	0	0		T	218751283	T	T	218751283	3	4	4	1	0	0	0	0	1	0	0	0	16368	739	26	2	4721	2	TNS1	2	218751283	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	68436	218751283	24448090	655	2621											
ZNF142	7701	broad.mit.edu	37	chr2	219503385	219503385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcttgcgaaggtgggtgcGcagcaggaagcgcgtcttga	7	8	18	8	4	1	1	0	1	1	0	1	3	1	2	0	3	5	3	0	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:219503385G>A	uc002vin.2	-	10	5177	c.4741C>T	c.(4741-4743)CGC>TGC	p.R1581C	ZNF142_uc002vil.2_Missense_Mutation_p.R1542C|ZNF142_uc010fvt.2_Missense_Mutation_p.R1418C|ZNF142_uc002vim.2_Missense_Mutation_p.R1418C	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	1581	C2H2-type 29.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		AGGTGGGTGCGCAGCAGGAAG	0.617													6	28					0	0	0.001168	0	0		A	219503385	A	A	219503385	3	1	4	1	0	0	0	0	1	0	0	0	17756	1087	38	1	326	1	ZNF142	2	219503385	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	752102	219503385	23695988	656	2622											
RNF25	64320	broad.mit.edu	37	chr2	219528910	219528910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atggggttctggctttaggtCcatgggctccttgaggggcc	4	12	16	9	0	1	1	0	1	1	0	3	1	3	1	3	7	0	3	3	7	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:219528910C>T	uc002vit.2	-	10	1238	c.1150G>A	c.(1150-1152)GAC>AAC	p.D384N	RNF25_uc010fvw.2_Missense_Mutation_p.D272N	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	384					positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGCTTTAGGTCCATGGGCTCC	0.652													24	78					0	0	0.004656	0	0		T	219528910	T	T	219528910	3	4	4	1	0	0	0	0	1	0	0	0	13510	855	30	4	233	4	RNF25	2	219528910	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	25525	219528910	23670463	657	2623											
CCDC108	255101	broad.mit.edu	37	chr2	219892449	219892449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggaagtgcaggcgcatggCcatggacttgagtgggggca	8	7	18	8	1	0	1	0	1	0	0	0	3	0	3	1	6	1	3	1	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:219892449C>T	uc002vjl.1	-	13	2218	c.2134G>A	c.(2134-2136)GCC>ACC	p.A712T	CCDC108_uc010fwa.1_Missense_Mutation_p.A155T|CCDC108_uc010zkp.1_Missense_Mutation_p.A701T|CCDC108_uc010zkq.1_Missense_Mutation_p.A647T	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	712						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGGCGCATGGCCATGGACTTG	0.602													23	40					0	0	0.002299	0	0		T	219892449	T	T	219892449	3	4	4	1	0	0	0	0	1	0	0	0	2746	739	26	2	3735	2	CCDC108	2	219892449	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	363539	219892449	23306924	658	2624											
CCDC108	255101	broad.mit.edu	37	chr2	219895460	219895460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccgaggtgcagcccacaGcaacagagccaaagtacaac	14	4	9	14	1	1	1	0	0	1	1	2	2	1	1	3	1	7	3	3	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:219895460G>A	uc002vjl.1	-	9	1196	c.1112C>T	c.(1111-1113)GCT>GTT	p.A371V	CCDC108_uc010fwa.1_5'Flank|CCDC108_uc010zkp.1_Missense_Mutation_p.A360V|CCDC108_uc010zkq.1_Missense_Mutation_p.A306V	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	371						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCAGCCCACAGCAACAGAGCC	0.627													6	23					0	0	0.008291	0	0		A	219895460	A	A	219895460	3	1	4	1	0	0	0	0	1	0	0	0	2746	971	34	2	4773	2	CCDC108	2	219895460	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3011	219895460	23303913	659	2625											
IHH	3549	broad.mit.edu	37	chr2	219920499	219920499	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacggtctcccggcctcacGgctgacaaggccacacgcgc	8	4	11	18	5	2	1	1	1	1	0	3	1	2	1	3	4	0	1	3	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:219920499G>A	uc002vjo.1	-	3	666	c.666C>T	c.(664-666)GCC>GCT	p.A222A		NM_002181	NP_002172	Q14623	IHH_HUMAN	Indian hedgehog homolog precursor	222					cell-cell signaling|intein-mediated protein splicing|proteolysis	extracellular space|plasma membrane	cholesterol binding|patched binding|peptidase activity			breast(1)	1		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000188)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCGGCCTCACGGCTGACAAGG	0.672													4	12					0	0	0.009096	0	0		A	219920499	A	A	219920499	2	1	4	1	0	0	0	0	0	0	0	1	7623	1103	39	1		1	IHH	2	219920499	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	25039	219920499	23278874	660	2626											
DNAJB2	3300	broad.mit.edu	37	chr2	220145307	220145307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactttctgcaggtatcggCgcaaggctctccagtggcac	7	9	11	14	2	2	0	0	0	2	0	4	0	2	0	2	4	1	5	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:220145307C>T	uc002vkx.1	+	3	310	c.73C>T	c.(73-75)CGC>TGC	p.R25C	DNAJB2_uc010zla.1_Missense_Mutation_p.R25C|DNAJB2_uc002vkw.1_Missense_Mutation_p.R25C|DNAJB2_uc002vky.2_5'Flank|DNAJB2_uc010zlb.1_5'Flank	NM_006736	NP_006727	P25686	DNJB2_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 2	25	J.				ER-associated protein catabolic process|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of inclusion body assembly|negative regulation of protein deubiquitination|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding|response to unfolded protein	inclusion body	heat shock protein binding|Hsp70 protein binding|polyubiquitin binding|proteasome binding|protein binding|unfolded protein binding				0		Renal(207;0.0474)		Epithelial(149;1.97e-06)|all cancers(144;0.00028)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAGGTATCGGCGCAAGGCTCT	0.517													6	24					0	0	0.001984	0	0		T	220145307	T	T	220145307	3	4	4	1	0	0	0	0	1	0	0	0	4626	768	27	1	79	1	DNAJB2	2	220145307	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	224808	220145307	23054066	661	2627											
OBSL1	23363	broad.mit.edu	37	chr2	220432875	220432875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtggatgatgaggcgcCggacagtgccctcttcgatc	6	9	14	12	3	1	2	0	2	1	0	3	5	1	4	3	3	1	0	3	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:220432875C>T	uc010fwk.2	-	2	1241	c.1184G>A	c.(1183-1185)CGG>CAG	p.R395Q	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Missense_Mutation_p.R395Q|OBSL1_uc002vmj.2_5'UTR	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	395	Ig-like 4.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		GATGAGGCGCCGGACAGTGCC	0.622											OREG0003988	type=REGULATORY REGION|Gene=OBSL1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	8	13					0	0	0.006214	0	0		T	220432875	T	T	220432875	3	4	4	1	0	0	0	0	1	0	0	0	10832	652	23	1	4738	1	OBSL1	2	220432875	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	287568	220432875	22766498	662	2628											
EPHA4	2043	broad.mit.edu	37	chr2	222301233	222301233	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgtgcggccagatcacgAtgcacatagctcatatcaga	11	9	9	12	3	3	2	3	0	0	2	4	3	4	2	2	1	3	2	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:222301233A>G	uc002vmq.2	-	13	2274	c.2232T>C	c.(2230-2232)CAT>CAC	p.H744H	EPHA4_uc002vmr.2_Silent_p.H744H|EPHA4_uc010zlm.1_Silent_p.H685H|EPHA4_uc010zln.1_Silent_p.H744H	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	744	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		CCAGATCACGATGCACATAGC	0.488													10	108					0	0	0.000978	0	0		G	222301233	G	G	222301233	2	3	4	1	0	0	0	0	0	0	0	1	5177	330	12	3		3	EPHA4	2	222301233	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1868358	222301233	20898140	663	2629											
ACSL3	2181	broad.mit.edu	37	chr2	223795440	223795440	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaatgaagcaaaaacaaaaGctgatttctttgaagatgaa	21	9	7	4	0	1	5	0	4	1	1	1	5	1	5	0	0	3	2	0	0	9	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:223795440G>C	uc002vni.2	+	14	2093	c.1642G>C	c.(1642-1644)GCT>CCT	p.A548P	ACSL3_uc002vnj.2_Missense_Mutation_p.A548P	NM_004457	NP_004448	O95573	ACSL3_HUMAN	acyl-CoA synthetase long-chain family member 3	548	Cytoplasmic (Potential).				long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|fatty-acyl-CoA synthase activity|long-chain fatty acid-CoA ligase activity|protein binding			ovary(2)	2		Renal(207;0.0183)		Epithelial(121;1.28e-10)|all cancers(144;8.06e-08)|Lung(261;0.00834)|LUSC - Lung squamous cell carcinoma(224;0.00864)	Icosapent(DB00159)	AAAAACAAAAGCTGATTTCTT	0.403			T	ETV1	prostate								4	78					0	0	0.009096	0	0		C	223795440	C	C	223795440	3	2	4	1	0	0	0	0	1	0	0	0	178	971	34	5	1684	5	ACSL3	2	223795440	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1494207	223795440	19403933	664	2630											
SCG2	7857	broad.mit.edu	37	chr2	224463687	224463687	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccagtcttcttcactcAgtgaatccctctcgggcaag	8	12	7	14	1	6	1	3	1	3	0	9	1	8	1	2	1	0	1	2	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:224463687A>G	uc002vnm.2	-	2	447	c.314T>C	c.(313-315)CTG>CCG	p.L105P		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	105					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		TTCTTCACTCAGTGAATCCCT	0.453													41	96					0	0	0.009718	0	0		G	224463687	G	G	224463687	3	3	4	1	0	0	0	0	1	0	0	0	13916	188	7	3	1543	3	SCG2	2	224463687	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	668247	224463687	18735686	665	2631											
WDFY1	57590	broad.mit.edu	37	chr2	224758990	224758990	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttccacactgcaattccGccgtccgaggaacaggagac	11	7	10	13	3	0	1	0	0	0	1	3	4	3	2	4	2	2	2	4	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:224758990G>A	uc002vnq.2	-	8	843	c.792C>T	c.(790-792)GGC>GGT	p.G264G		NM_020830	NP_065881	Q8IWB7	WDFY1_HUMAN	WD repeat and FYVE domain containing 1	264	WD 6.					cytosol|early endosome|nucleus	1-phosphatidylinositol binding|zinc ion binding			lung(1)	1		all_lung(227;0.00682)|Lung NSC(271;0.00859)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;5.34e-10)|all cancers(144;1.67e-07)|Lung(261;0.00807)|LUSC - Lung squamous cell carcinoma(224;0.00843)		CTGCAATTCCGCCGTCCGAGG	0.557													12	30					0	0	0.004007	0	0		A	224758990	A	A	224758990	2	1	4	1	0	0	0	0	0	0	0	1	17294	1074	38	1		1	WDFY1	2	224758990	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	295303	224758990	18440383	666	2632											
KIAA1486	57624	broad.mit.edu	37	chr2	226447052	226447052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgcctgacttggacttcGccaaggcctcagtgccatgc	6	9	12	14	2	1	1	1	1	0	0	2	2	1	2	4	3	3	0	4	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:226447052G>A	uc002voe.2	+	4	1094	c.919G>A	c.(919-921)GCC>ACC	p.A307T	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.A77T	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	307										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		CTTGGACTTCGCCAAGGCCTC	0.592													14	29					0	0	0.00245	0	0		A	226447052	A	A	226447052	3	1	4	1	0	0	0	0	1	0	0	0	8253	1087	38	1	929	1	KIAA1486	2	226447052	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1688062	226447052	16752321	667	2633											
IRS1	3667	broad.mit.edu	37	chr2	227660941	227660941	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctttcgaggcagatggggCtgcagaacctgatggtgggg	8	8	17	8	1	0	3	0	1	0	2	1	4	0	3	2	6	2	3	2	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:227660941C>T	uc002voh.3	-	1	2566	c.2514G>A	c.(2512-2514)CAG>CAA	p.Q838Q		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	838					fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GCAGATGGGGCTGCAGAACCT	0.637													9	23					0	0	0.004482	0	0		T	227660941	T	T	227660941	2	4	4	1	0	0	0	0	0	0	0	1	7856	796	28	2		2	IRS1	2	227660941	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1213889	227660941	15538432	668	2634											
IRS1	3667	broad.mit.edu	37	chr2	227662528	227662528	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgctggccggggaggtggcGgtgatgctctcagtgcgtga	5	9	19	8	3	1	2	1	2	1	0	2	3	1	3	1	6	3	2	1	6	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:227662528G>A	uc002voh.3	-	1	979	c.927C>T	c.(925-927)ACC>ACT	p.T309T		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	309	Ser-rich.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GGGAGGTGGCGGTGATGCTCT	0.701											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	25					0	0	0.000978	0	0		A	227662528	A	A	227662528	2	1	4	1	0	0	0	0	0	0	0	1	7856	1103	39	1		1	IRS1	2	227662528	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1587	227662528	15536845	669	2635											
COL4A4	1286	broad.mit.edu	37	chr2	227872065	227872065	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctatacttcacgcagacctgGcaccggctgattttctggcg	7	11	10	13	3	2	2	1	1	1	1	2	2	2	2	2	3	1	3	2	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:227872065G>A	uc010zlt.1	-	47	5703	c.5049C>T	c.(5047-5049)TGC>TGT	p.C1683C		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1683	Collagen IV NC1.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CGCAGACCTGGCACCGGCTGA	0.507													19	438					0	0	0.00333	0	0		A	227872065	A	A	227872065	2	1	4	1	0	0	0	0	0	0	0	1	3696	1195	42	2		2	COL4A4	2	227872065	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	209537	227872065	15327308	670	2636											
SLC19A3	80704	broad.mit.edu	37	chr2	228564079	228564079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtaggccacctcggcggCggtgaccatcccatagaaga	10	6	13	12	3	0	3	0	1	0	2	2	3	1	3	4	4	0	2	4	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:228564079C>T	uc002vpi.2	-	3	441	c.352G>A	c.(352-354)GCC>ACC	p.A118T	SLC19A3_uc002vpj.2_RNA|SLC19A3_uc010zlv.1_Missense_Mutation_p.A114T	NM_025243	NP_079519	Q9BZV2	S19A3_HUMAN	solute carrier family 19, member 3	118	Helical; (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)	ACCTCGGCGGCGGTGACCATC	0.562													17	58					0	0	0.006122	0	0		T	228564079	T	T	228564079	3	4	4	1	0	0	0	0	1	0	0	0	14455	768	27	1	1154	1	SLC19A3	2	228564079	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	692014	228564079	14635294	671	2637											
SPHKAP	80309	broad.mit.edu	37	chr2	228882781	228882781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtgtctgctaattcttccGcaaagtctgtaatgcagtag	9	13	9	10	2	3	0	0	0	3	0	4	0	4	0	2	0	2	5	2	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:228882781G>A	uc002vpq.2	-	7	2836	c.2789C>T	c.(2788-2790)GCG>GTG	p.A930V	SPHKAP_uc002vpp.2_Missense_Mutation_p.A930V|SPHKAP_uc010zlx.1_Missense_Mutation_p.A930V	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	930	PKA-RII subunit binding domain (By similarity).					cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TAATTCTTCCGCAAAGTCTGT	0.473													13	147					0	0	0.003163	0	0		A	228882781	A	A	228882781	3	1	4	1	0	0	0	0	1	0	0	0	15073	1087	38	1	2337	1	SPHKAP	2	228882781	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	318702	228882781	14316592	672	2638											
SPHKAP	80309	broad.mit.edu	37	chr2	228883827	228883827	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaccacttggagccactgaGcatgtcacctcttctctttc	7	13	6	15	0	3	1	1	1	2	0	5	2	3	2	3	1	3	1	3	1	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:228883827G>A	uc002vpq.2	-	7	1790	c.1743C>T	c.(1741-1743)TGC>TGT	p.C581C	SPHKAP_uc002vpp.2_Silent_p.C581C|SPHKAP_uc010zlx.1_Silent_p.C581C	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	581						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GAGCCACTGAGCATGTCACCT	0.557													12	30					0	0	0.001368	0	0		A	228883827	A	A	228883827	2	1	4	1	0	0	0	0	0	0	0	1	15073	963	34	2		2	SPHKAP	2	228883827	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1046	228883827	14315546	673	2639											
DNER	92737	broad.mit.edu	37	chr2	230223321	230223321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggactgtaatcttcataggCgatggggctcacatcataca	12	10	10	9	1	4	0	3	0	1	0	4	2	4	1	0	4	1	2	0	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:230223321C>T	uc002vpv.2	-	13	2296	c.2149G>A	c.(2149-2151)GCC>ACC	p.A717T		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	717	Cytoplasmic (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		TCTTCATAGGCGATGGGGCTC	0.358													5	80					0	0	0.001168	0	0		T	230223321	T	T	230223321	3	4	4	1	0	0	0	0	1	0	0	0	4673	768	27	1	68	1	DNER	2	230223321	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1339494	230223321	12976052	674	2640											
TRIP12	9320	broad.mit.edu	37	chr2	230643195	230643195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccattaattttcctaagaagCgaaacttcatcttaaccttt	13	15	3	10	1	2	1	1	0	1	1	3	2	3	1	3	0	3	0	3	0	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:230643195C>T	uc002vpw.1	-	35	5202	c.5093G>A	c.(5092-5094)CGC>CAC	p.R1698H	TRIP12_uc002vpx.1_Missense_Mutation_p.R1746H|TRIP12_uc002vpy.1_Missense_Mutation_p.R1428H	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1698					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		TCCTAAGAAGCGAAACTTCAT	0.423													34	123					0	0	0.002836	0	0		T	230643195	T	T	230643195	3	4	4	1	0	0	0	0	1	0	0	0	16582	768	27	1	913	1	TRIP12	2	230643195	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	419874	230643195	12556178	675	2641											
TRIP12	9320	broad.mit.edu	37	chr2	230672494	230672494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcacgccactgccatatcGcaccatctgtgttctgtgca	8	11	7	15	2	3	0	1	0	2	0	4	0	3	0	3	0	2	3	3	0	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:230672494G>A	uc002vpw.1	-	16	2391	c.2282C>T	c.(2281-2283)GCG>GTG	p.A761V	TRIP12_uc002vpx.1_Missense_Mutation_p.A809V|TRIP12_uc002vpy.1_Missense_Mutation_p.A464V|TRIP12_uc010zlz.1_Intron|TRIP12_uc010fxh.1_Missense_Mutation_p.A767V	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	761	WWE.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		CTGCCATATCGCACCATCTGT	0.433													7	38					0	0	0.00308	0	0		A	230672494	A	A	230672494	3	1	4	1	0	0	0	0	1	0	0	0	16582	1087	38	1	3800	1	TRIP12	2	230672494	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	29299	230672494	12526879	676	2642											
SLC16A14	151473	broad.mit.edu	37	chr2	230910799	230910799	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggaaaacgtcgttttgcTccgataagttatacaaattg	13	12	10	6	3	0	0	0	0	0	0	2	3	1	1	1	1	3	3	1	1	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:230910799T>C	uc002vqd.1	-	4	1406	c.1043A>G	c.(1042-1044)GAG>GGG	p.E348G	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Missense_Mutation_p.E348G|SLC16A14_uc002vqf.2_Missense_Mutation_p.E348G	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	348	Cytoplasmic (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		GTCGTTTTGCTCCGATAAGTT	0.418													19	42					0	0	0.008871	0	0		C	230910799	C	C	230910799	3	2	4	1	0	0	0	0	1	0	0	0	14432	1551	54	3	497	3	SLC16A14	2	230910799	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	238305	230910799	12288574	677	2643											
SP110	3431	broad.mit.edu	37	chr2	231033861	231033861	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaagagtccagaaaccGccgtcattggcttcatgaaa	14	7	10	10	2	2	3	2	1	0	2	3	4	3	4	3	2	1	1	3	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:231033861G>A	uc002vqh.3	-	18	2289	c.2049C>T	c.(2047-2049)GGC>GGT	p.G683G	SP110_uc002vqg.3_Silent_p.G707G	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	683			G -> S (in a breast cancer sample; somatic mutation).		interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		TCCAGAAACCGCCGTCATTGG	0.488													76	176					0	0	0.00361	0	0		A	231033861	A	A	231033861	2	1	4	1	0	0	0	0	0	0	0	1	14986	1074	38	1		1	SP110	2	231033861	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	123062	231033861	12165512	678	2644											
SP110	3431	broad.mit.edu	37	chr2	231037655	231037655	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccttgacagcacacctcGcattcatccgagtttttccg	7	11	6	17	3	1	1	1	1	0	0	4	2	3	1	5	0	1	3	5	0	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:231037655G>A	uc002vqh.3	-	15	1851	c.1611C>T	c.(1609-1611)TGC>TGT	p.C537C	SP110_uc002vqg.3_Silent_p.C537C	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	537	PHD-type.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		AGCACACCTCGCATTCATCCG	0.562													21	38					0	0	0.00333	0	0		A	231037655	A	A	231037655	2	1	4	1	0	0	0	0	0	0	0	1	14986	1079	38	1		1	SP110	2	231037655	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3794	231037655	12161718	679	2645											
ITM2C	81618	broad.mit.edu	37	chr2	231740379	231740379	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggtgtgctgtatgaggaCtccctgtcctcccaggtccg	4	12	13	12	1	0	1	0	1	0	0	4	2	4	2	4	3	1	2	4	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:231740379C>T	uc002vqz.2	+	3	426	c.306C>T	c.(304-306)GAC>GAT	p.D102D	ITM2C_uc002vra.2_Silent_p.D55D|ITM2C_uc002vrb.2_Silent_p.D102D|ITM2C_uc002vrc.2_5'UTR|ITM2C_uc002vrd.2_5'UTR	NM_030926	NP_112188	Q9NQX7	ITM2C_HUMAN	integral membrane protein 2C isoform 1	102					negative regulation of neuron projection development|neuron differentiation	Golgi apparatus|integral to membrane|lysosomal membrane|perinuclear region of cytoplasm	beta-amyloid binding				0		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;8.47e-12)|all cancers(144;3.44e-09)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)		TGTATGAGGACTCCCTGTCCT	0.567													25	90					0	0	0.003954	0	0		T	231740379	T	T	231740379	2	4	4	1	0	0	0	0	0	0	0	1	7930	564	20	4		4	ITM2C	2	231740379	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	702724	231740379	11458994	680	2646											
NCL	4691	broad.mit.edu	37	chr2	232324987	232324987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccaacaaagagattgaaagCcgtagtcggttctgtgcctg	11	10	11	9	2	1	2	0	1	1	1	3	3	2	2	3	1	3	2	3	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:232324987C>T	uc002vru.2	-	6	1057	c.916G>A	c.(916-918)GCT>ACT	p.A306T		NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	306					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		AGATTGAAAGCCGTAGTCGGT	0.363													30	100					0	0	0.002445	0	0		T	232324987	T	T	232324987	3	4	4	1	0	0	0	0	1	0	0	0	10245	739	26	2	1252	2	NCL	2	232324987	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	584608	232324987	10874386	681	2647											
NCL	4691	broad.mit.edu	37	chr2	232325210	232325210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccactttctgtttcttggCttcaggagctgctttctgtt	3	20	8	10	0	4	0	1	0	3	0	5	1	5	1	1	2	2	5	1	2	0	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:232325210C>T	uc002vru.2	-	5	1018	c.877G>A	c.(877-879)GCC>ACC	p.A293T	SNORD82_uc010fxw.1_5'Flank	NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	293					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		TGTTTCTTGGCTTCAGGAGCT	0.418													10	141					0	0	0.001368	0	0		T	232325210	T	T	232325210	3	4	4	1	0	0	0	0	1	0	0	0	10245	797	28	2	1295	2	NCL	2	232325210	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	223	232325210	10874163	682	2648											
NCL	4691	broad.mit.edu	37	chr2	232327993	232327993	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctcctttggaggaggaGccattttcttggggtcacct	6	13	11	11	0	2	0	1	0	1	0	3	3	3	3	4	5	2	0	4	5	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:232327993G>T	uc002vru.2	-	2	194	c.53C>A	c.(52-54)GCT>GAT	p.A18D	SNORD82_uc010fxw.1_5'Flank	NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	18					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		TGGAGGAGGAGCCATTTTCTT	0.403													9	110					0.000442599	0.000462162	0.006214	1	0		T	232327993	T	T	232327993	3	4	4	1	0	0	0	0	1	0	0	0	10245	971	34	5	2131	5	NCL	2	232327993	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2783	232327993	10871380	683	2649											
NMUR1	10316	broad.mit.edu	37	chr2	232393472	232393472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgcgcatggccttgtggCgcaggatgaccagacaggtc	7	7	16	11	3	0	2	0	1	0	1	1	3	0	3	2	4	1	2	2	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:232393472C>T	uc002vry.3	-	2	370	c.260G>A	c.(259-261)CGC>CAC	p.R87H		NM_006056	NP_006047	Q9HB89	NMUR1_HUMAN	neuromedin U receptor 1	87	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|calcium ion transport|calcium-mediated signaling|chloride transport|smooth muscle contraction	integral to plasma membrane|membrane fraction	neuromedin U receptor activity			lung(3)|central_nervous_system(1)|pancreas(1)	5		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;8.37e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)		GGCCTTGTGGCGCAGGATGAC	0.622													10	41					0	0	0.008291	0	0		T	232393472	T	T	232393472	3	4	4	1	0	0	0	0	1	0	0	0	10525	768	27	1	1028	1	NMUR1	2	232393472	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	65479	232393472	10805901	684	2650											
DIS3L2	129563	broad.mit.edu	37	chr2	233128133	233128133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagcgctttgtggacggcGcacttcgtttggatcaggtc	6	11	14	10	4	1	0	1	0	0	0	3	2	1	2	0	4	2	4	0	4	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233128133G>A	uc010fxz.2	+	13	1918	c.1642G>A	c.(1642-1644)GCA>ACA	p.A548T	DIS3L2_uc002vsm.3_RNA|DIS3L2_uc002vso.2_RNA	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.	548							exonuclease activity|ribonuclease activity|RNA binding			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(139;0.00809)|Renal(207;0.0113)|Acute lymphoblastic leukemia(138;0.0195)|all_lung(227;0.0465)|Lung NSC(271;0.136)		Epithelial(121;1.6e-13)|BRCA - Breast invasive adenocarcinoma(100;0.00104)|LUSC - Lung squamous cell carcinoma(224;0.0109)|Lung(119;0.0149)		TGTGGACGGCGCACTTCGTTT	0.547													10	24					0	0	0.000978	0	0		A	233128133	A	A	233128133	3	1	4	1	0	0	0	0	1	0	0	0	4543	1087	38	1	1688	1	DIS3L2	2	233128133	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	734661	233128133	10071240	685	2651											
ALPP	250	broad.mit.edu	37	chr2	233245418	233245418	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atggagatgacagaggctgcCctgcgcctgctgagcaggaa	10	6	15	10	1	0	4	0	2	0	2	0	6	0	5	2	3	4	3	2	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233245418C>T	uc002vsq.2	+	8	1116	c.951C>T	c.(949-951)GCC>GCT	p.A317A	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	317						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		CAGAGGCTGCCCTGCGCCTGC	0.642													11	46					0	0	0.001855	0	0		T	233245418	T	T	233245418	2	4	4	1	0	0	0	0	0	0	0	1	548	610	22	4		4	ALPP	2	233245418	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	117285	233245418	9953955	686	2652											
ALPPL2	251	broad.mit.edu	37	chr2	233272672	233272672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgtgcctgcctcggcccGccaggaggggtgccaggaca	6	4	16	15	4	0	0	0	0	0	0	1	3	0	2	5	5	3	0	5	5	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233272672G>A	uc002vss.3	+	5	646	c.593G>A	c.(592-594)CGC>CAC	p.R198H		NM_031313	NP_112603	P10696	PPBN_HUMAN	placental-like alkaline phosphatase	198					phosphorylation	anchored to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			skin(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)|Levamisole(DB00848)	GCCTCGGCCCGCCAGGAGGGG	0.672													8	39					0	0	0.006214	0	0		A	233272672	A	A	233272672	3	1	4	1	0	0	0	0	1	0	0	0	549	1087	38	1	611	1	ALPPL2	2	233272672	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	27254	233272672	9926701	687	2653											
ALPPL2	251	broad.mit.edu	37	chr2	233274433	233274433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcgcacgtcatggccttcGccgcctgcctggagccctac	5	8	11	17	4	1	0	1	0	0	0	2	1	1	1	5	2	4	1	5	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233274433G>A	uc002vss.3	+	11	1503	c.1450G>A	c.(1450-1452)GCC>ACC	p.A484T		NM_031313	NP_112603	P10696	PPBN_HUMAN	placental-like alkaline phosphatase	484					phosphorylation	anchored to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			skin(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)|Levamisole(DB00848)	CATGGCCTTCGCCGCCTGCCT	0.751													3	2					0	0	0.009096	0	0		A	233274433	A	A	233274433	3	1	4	1	0	0	0	0	1	0	0	0	549	1087	38	1	1492	1	ALPPL2	2	233274433	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1761	233274433	9924940	688	2654											
EIF4E2	9470	broad.mit.edu	37	chr2	233431863	233431863	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatccgggacacacttcggCgagtgcttaacctacctccc	9	8	9	15	3	0	0	0	0	0	0	3	3	2	1	4	2	3	1	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233431863C>T	uc002vta.2	+	6	682	c.604C>T	c.(604-606)CGA>TGA	p.R202*	EIF4E2_uc002vtb.1_Nonsense_Mutation_p.R202*|EIF4E2_uc010zmi.1_Nonsense_Mutation_p.R157*	NM_004846	NP_004837	O60573	IF4E2_HUMAN	eukaryotic translation initiation factor 4E	202					regulation of translation	cytoplasm|mRNA cap binding complex	RNA cap binding|translation initiation factor activity|ubiquitin protein ligase binding				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;2.3e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000912)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CACACTTCGGCGAGTGCTTAA	0.488													8	183					0	0	0.00308	0	0		T	233431863	T	T	233431863	4	4	4	1	0	0	0	0	0	1	0	0	5038	760	27	1	626	1	EIF4E2	2	233431863	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	157430	233431863	9767510	689	2655											
GIGYF2	26058	broad.mit.edu	37	chr2	233655446	233655446	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggcgggaacacatggaaCgacgtcggaggtttgagttt	9	9	16	7	4	0	1	0	1	0	0	1	5	0	4	0	5	2	3	0	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233655446C>T	uc002vti.3	+	12	1088	c.751C>T	c.(751-753)CGA>TGA	p.R251*	GIGYF2_uc010zmj.1_Nonsense_Mutation_p.R251*|GIGYF2_uc002vtg.2_Nonsense_Mutation_p.R245*|GIGYF2_uc002vtj.3_Nonsense_Mutation_p.R273*|GIGYF2_uc002vtk.3_Nonsense_Mutation_p.R251*|GIGYF2_uc002vth.3_Nonsense_Mutation_p.R245*|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Nonsense_Mutation_p.R82*	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	251	Arg-rich.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		ACACATGGAACGACGTCGGAG	0.468													32	109					0	0	0.004289	0	0		T	233655446	T	T	233655446	4	4	4	1	0	0	0	0	0	1	0	0	6393	528	19	1	851	1	GIGYF2	2	233655446	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	223583	233655446	9543927	690	2656											
GIGYF2	26058	broad.mit.edu	37	chr2	233671276	233671276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctttattggtgaagagagCgtgtgatgaaagcttccaac	11	12	12	6	1	1	4	0	3	1	1	2	5	2	4	1	1	3	1	1	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233671276C>T	uc002vti.3	+	17	2052	c.1715C>T	c.(1714-1716)GCG>GTG	p.A572V	GIGYF2_uc010zmj.1_Missense_Mutation_p.A572V|GIGYF2_uc002vtg.2_Missense_Mutation_p.A566V|GIGYF2_uc002vtj.3_Missense_Mutation_p.A593V|GIGYF2_uc002vtk.3_Missense_Mutation_p.A572V|GIGYF2_uc002vth.3_Missense_Mutation_p.A566V|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Missense_Mutation_p.A403V	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	572	GYF.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		GTGAAGAGAGCGTGTGATGAA	0.453													7	169					0	0	0.001984	0	0		T	233671276	T	T	233671276	3	4	4	1	0	0	0	0	1	0	0	0	6393	768	27	1	1835	1	GIGYF2	2	233671276	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	15830	233671276	9528097	691	2657											
INPP5D	3635	broad.mit.edu	37	chr2	234072453	234072453	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacatcccccatgacatttaCgtgatcggcacccaagagga	12	8	8	13	2	0	3	0	2	0	1	2	4	1	4	3	2	2	1	3	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:234072453C>T	uc010zmo.1	+	11	1494	c.1341C>T	c.(1339-1341)TAC>TAT	p.Y447Y	INPP5D_uc010zmp.1_Silent_p.Y446Y	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	447					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		ATGACATTTACGTGATCGGCA	0.547													25	62					0	0	0.00632	0	0		T	234072453	T	T	234072453	2	4	4	1	0	0	0	0	0	0	0	1	7772	547	19	1		1	INPP5D	2	234072453	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	401177	234072453	9126920	692	2658											
INPP5D	3635	broad.mit.edu	37	chr2	234102498	234102498	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggttagaggccacagaaacGcagctgcccatctacacgcc	11	5	10	15	3	1	2	0	0	1	2	1	2	1	2	3	2	4	3	3	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:234102498G>A	uc010zmo.1	+	22	2640	c.2487G>A	c.(2485-2487)ACG>ACA	p.T829T	INPP5D_uc010zmp.1_Silent_p.T828T	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	829					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		CCACAGAAACGCAGCTGCCCA	0.592													18	72					0	0	0.001882	0	0		A	234102498	A	A	234102498	2	1	4	1	0	0	0	0	0	0	0	1	7772	1074	38	1		1	INPP5D	2	234102498	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	30045	234102498	9096875	693	2659											
ATG16L1	55054	broad.mit.edu	37	chr2	234202917	234202917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgaagctcatccatcaatgCggtggcgtggtcgccctctg	6	11	12	12	3	3	1	2	1	1	0	5	1	4	1	2	3	2	1	2	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:234202917C>T	uc002vty.2	+	18	2002	c.1745C>T	c.(1744-1746)GCG>GTG	p.A582V	ATG16L1_uc002vtx.1_Missense_Mutation_p.A419V|ATG16L1_uc002vua.2_Missense_Mutation_p.A563V|ATG16L1_uc002vub.2_Missense_Mutation_p.A440V|ATG16L1_uc002vtz.2_Missense_Mutation_p.A403V|ATG16L1_uc002vud.3_Missense_Mutation_p.A498V	NM_030803	NP_110430	Q676U5	A16L1_HUMAN	APG16 autophagy 16-like isoform 1	582	WD 7.				autophagic vacuole assembly|protein homooligomerization|protein transport	autophagic vacuole|pre-autophagosomal structure membrane	protein binding				0		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0539)		Epithelial(121;1.53e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000379)|LUSC - Lung squamous cell carcinoma(224;0.00619)|Lung(119;0.00732)|GBM - Glioblastoma multiforme(43;0.11)		TCCATCAATGCGGTGGCGTGG	0.522													7	20					0	0	0.006214	0	0		T	234202917	T	T	234202917	3	4	4	1	0	0	0	0	1	0	0	0	1092	768	27	1	1815	1	ATG16L1	2	234202917	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	100419	234202917	8996456	694	2660											
UGT1A8	54576	broad.mit.edu	37	chr2	234526664	234526664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggaaagcacaagtacgaaGtttgttttctctatttctga	12	15	8	6	1	2	1	0	1	2	0	3	3	2	2	0	1	2	4	0	1	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:234526664G>A	uc002vup.2	+	1	374	c.311G>A	c.(310-312)AGT>AAT	p.S104N	UGT1A8_uc010zmv.1_Missense_Mutation_p.S104N	NM_019076	NP_061949	Q9HAW9	UD18_HUMAN	UDP glycosyltransferase 1 family, polypeptide A8	104					drug metabolic process|fatty acid metabolic process|flavone metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme inhibitor activity|fatty acid binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|steroid binding			ovary(2)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;2.56e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000482)|Lung(119;0.00404)|LUSC - Lung squamous cell carcinoma(224;0.008)		CAAGTACGAAGTTTGTTTTCT	0.373													6	125					0	0	0.001984	0	0		A	234526664	A	A	234526664	3	1	4	1	0	0	0	0	1	0	0	0	16977	1029	36	4	313	4	UGT1A8	2	234526664	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	323747	234526664	8672709	695	2661											
TRPM8	79054	broad.mit.edu	37	chr2	234851360	234851360	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggggcatggtctccaacCgggacaccctcatcaggaat	9	8	11	13	1	3	0	2	0	1	0	4	2	3	2	3	5	1	1	3	5	2	1	rs35201441		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:234851360C>A	uc002vvh.2	+	6	707	c.667C>A	c.(667-669)CGG>AGG	p.R223R	TRPM8_uc010fyj.2_5'UTR|TRPM8_uc002vvi.3_Silent_p.R173R|TRPM8_uc002vvj.3_Silent_p.R146R	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	223	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	GGTCTCCAACCGGGACACCCT	0.557													12	94					0.00136819	0.00142269	0.001368	1	0		A	234851360	A	A	234851360	2	1	4	1	0	0	0	0	0	0	0	1	16618	643	23	5		5	TRPM8	2	234851360	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	324696	234851360	8348013	696	2662											
TRPM8	79054	broad.mit.edu	37	chr2	234869622	234869622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctataatgatgccctcctcaCgtttgtctggaaactggttg	8	14	9	10	1	2	1	1	1	1	0	3	2	3	2	2	2	2	2	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:234869622C>T	uc002vvh.2	+	12	1605	c.1565C>T	c.(1564-1566)ACG>ATG	p.T522M	TRPM8_uc010fyj.2_Missense_Mutation_p.T210M	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	522	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	GCCCTCCTCACGTTTGTCTGG	0.512													5	63					0	0	0.000602	0	0		T	234869622	T	T	234869622	3	4	4	1	0	0	0	0	1	0	0	0	16618	536	19	1	1607	1	TRPM8	2	234869622	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	18262	234869622	8329751	697	2663											
SH3BP4	23677	broad.mit.edu	37	chr2	235950141	235950141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccttcttcagaagcaagcGctcctacagtctctcggaac	9	9	7	16	2	3	1	1	0	2	1	6	2	4	2	3	1	4	2	3	1	4	3	rs144140235		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:235950141G>A	uc002vvp.2	+	4	1121	c.728G>A	c.(727-729)CGC>CAC	p.R243H	SH3BP4_uc010fym.2_Missense_Mutation_p.R243H|SH3BP4_uc002vvq.2_Missense_Mutation_p.R243H	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	243					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		AGAAGCAAGCGCTCCTACAGT	0.572													13	110					0	0	0.00245	0	0		A	235950141	A	A	235950141	3	1	4	1	0	0	0	0	1	0	0	0	14271	1087	38	1	734	1	SH3BP4	2	235950141	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1080519	235950141	7249232	698	2664											
AGAP1	116987	broad.mit.edu	37	chr2	236653360	236653360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtttgccatgtgggtggacGctgttatatttgtcttcagc	6	16	12	7	1	2	0	1	0	1	0	2	1	2	1	1	2	2	3	1	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:236653360G>A	uc002vvs.2	+	5	1010	c.415G>A	c.(415-417)GCT>ACT	p.A139T	AGAP1_uc002vvt.2_Missense_Mutation_p.A139T	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	139	Small GTPase-like.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						GTGGGTGGACGCTGTTATATT	0.502													16	74					0	0	0.00499	0	0		A	236653360	A	A	236653360	3	1	4	1	0	0	0	0	1	0	0	0	366	1087	38	1	433	1	AGAP1	2	236653360	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	703219	236653360	6546013	699	2665											
PRR21	643905	broad.mit.edu	37	chr2	240981392	240981392	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacttggatgaagaggcatgGatgaagggccgtgggtgaag	11	7	19	4	1	0	4	0	3	0	1	0	7	0	6	1	5	0	1	1	5	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:240981392G>A	uc010zod.1	-	1	1008	c.1008C>T	c.(1006-1008)ATC>ATT	p.I336I		NM_001080835	NP_001074304	Q8WXC7	PRR21_HUMAN	proline rich 21	336										ovary(1)|skin(1)	2						AAGAGGCATGGATGAAGGGCC	0.582													7	94					0	0	0.008291	0	0		A	240981392	A	A	240981392	2	1	4	1	0	0	0	0	0	0	0	1	12614	1164	41	4		4	PRR21	2	240981392	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4328032	240981392	2217981	700	2666											
RNPEPL1	57140	broad.mit.edu	37	chr2	241516387	241516387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctgacctccacagggtgCggcgcttcctggagagccag	7	7	13	14	2	0	2	0	1	0	1	3	3	3	2	5	3	2	1	5	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:241516387C>T	uc002vzi.2	+	10	1764	c.1171C>T	c.(1171-1173)CGG>TGG	p.R391W	RNPEPL1_uc010fzf.2_Missense_Mutation_p.R297W|RNPEPL1_uc002vzj.2_Missense_Mutation_p.R39W	NM_018226	NP_060696	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like	391					leukotriene biosynthetic process|proteolysis		aminopeptidase activity|metallopeptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)		CCACAGGGTGCGGCGCTTCCT	0.647													11	24					0	0	0.001368	0	0		T	241516387	T	T	241516387	3	4	4	1	0	0	0	0	1	0	0	0	13535	759	27	1	1201	1	RNPEPL1	2	241516387	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	534995	241516387	1682986	701	2667											
CAPN10	11132	broad.mit.edu	37	chr2	241537370	241537370	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggagccgctgctgagctgCgtgccacatcgctacgccca	7	6	12	16	4	0	1	0	1	0	0	1	2	0	2	3	1	6	4	3	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:241537370C>T	uc002vzk.1	+	10	1993	c.1809C>T	c.(1807-1809)TGC>TGT	p.C603C	CAPN10_uc002vzl.1_Silent_p.C448C|CAPN10_uc002vzm.1_Silent_p.C69C|CAPN10_uc002vzn.1_Silent_p.C475C|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_RNA|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	603	Domain III 2.				actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		TGCTGAGCTGCGTGCCACATC	0.682													4	8					0	0	0.009096	0	0		T	241537370	T	T	241537370	2	4	4	1	0	0	0	0	0	0	0	1	2626	776	27	1		1	CAPN10	2	241537370	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20983	241537370	1662003	702	2668											
GPR35	2859	broad.mit.edu	37	chr2	241569890	241569890	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaatttcaactccatggCgttcccgctgctgggattct	7	12	9	13	2	2	0	1	0	1	0	4	1	4	1	2	2	2	4	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:241569890C>T	uc002vzs.1	+	1	1096	c.521C>T	c.(520-522)GCG>GTG	p.A174V	GPR35_uc010fzh.1_Missense_Mutation_p.A205V|GPR35_uc010fzi.1_Missense_Mutation_p.A205V	NM_005301	NP_005292	Q9HC97	GPR35_HUMAN	G protein-coupled receptor 35	174	Extracellular (Potential).			A -> R (in Ref. 1; AAC52028).		integral to plasma membrane	G-protein coupled receptor activity			skin(2)|pancreas(1)	3		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;5.29e-32)|all cancers(36;1.38e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.02e-06)|Lung(119;0.00163)|Colorectal(34;0.00463)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.031)		AACTCCATGGCGTTCCCGCTG	0.657													11	28					0	0	0.008291	0	0		T	241569890	T	T	241569890	3	4	4	1	0	0	0	0	1	0	0	0	6705	768	27	1	523	1	GPR35	2	241569890	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	32520	241569890	1629483	703	2669											
KIF1A	547	broad.mit.edu	37	chr2	241683367	241683367	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcgctaacctgagcacGtccttgcagaggggcgggaa	9	5	16	11	3	0	2	0	1	0	1	1	3	1	3	2	4	3	3	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:241683367G>A	uc002vzy.2	-	31	3419	c.3273C>T	c.(3271-3273)GAC>GAT	p.D1091D	KIF1A_uc010fzk.2_Silent_p.D1192D|KIF1A_uc002vzz.1_Silent_p.D1192D	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	1091					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		ACCTGAGCACGTCCTTGCAGA	0.587													4	20					0	0	0.000978	0	0		A	241683367	A	A	241683367	2	1	4	1	0	0	0	0	0	0	0	1	8299	1136	40	1		1	KIF1A	2	241683367	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	113477	241683367	1516006	704	2670											
PASK	23178	broad.mit.edu	37	chr2	242051680	242051680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccatgagaacttccggtgCacagtactcgatggtcccac	9	8	9	15	2	0	1	0	1	0	1	3	3	2	1	4	2	3	2	4	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242051680C>T	uc002wao.1	-	15	3600	c.3508G>A	c.(3508-3510)GCA>ACA	p.A1170T	PASK_uc010zol.1_Missense_Mutation_p.A984T|PASK_uc010zom.1_Missense_Mutation_p.A1135T|PASK_uc010fzl.1_Missense_Mutation_p.A1177T|PASK_uc010zon.1_Missense_Mutation_p.A951T	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	1170	Protein kinase.				regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		ACTTCCGGTGCACAGTACTCG	0.542													7	40					0	0	0.004482	0	0		T	242051680	T	T	242051680	3	4	4	1	0	0	0	0	1	0	0	0	11491	710	25	2	479	2	PASK	2	242051680	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	368313	242051680	1147693	705	2671											
PASK	23178	broad.mit.edu	37	chr2	242075305	242075305	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctggcccccctcagctggGtcctggccctgccacgggtc	2	7	12	20	1	1	0	1	0	0	0	3	0	2	0	7	4	2	1	7	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242075305G>A	uc002wao.1	-	8	1379	c.1287C>T	c.(1285-1287)GAC>GAT	p.D429D	PASK_uc010zol.1_Silent_p.D243D|PASK_uc010zom.1_Silent_p.D394D|PASK_uc010fzl.1_Silent_p.D429D|PASK_uc010zon.1_Silent_p.D210D|PASK_uc002wap.2_5'Flank|PASK_uc002waq.2_Silent_p.D429D	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	429					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CCTCAGCTGGGTCCTGGCCCT	0.637													5	55					0	0	0.001168	0	0		A	242075305	A	A	242075305	2	1	4	1	0	0	0	0	0	0	0	1	11491	1252	44	4		4	PASK	2	242075305	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	23625	242075305	1124068	706	2672											
PASK	23178	broad.mit.edu	37	chr2	242077410	242077410	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggagggagctgcacagaaggGatcaggtctgtgatatgctg	10	8	17	6	0	2	2	1	1	1	1	2	5	2	5	0	4	3	3	0	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242077410G>A	uc002wao.1	-	6	926	c.834C>T	c.(832-834)ATC>ATT	p.I278I	PASK_uc010zol.1_Silent_p.I92I|PASK_uc010zom.1_Intron|PASK_uc010fzl.1_Silent_p.I278I|PASK_uc010zon.1_Silent_p.I59I|PASK_uc002waq.2_Silent_p.I278I	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	278					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		GCACAGAAGGGATCAGGTCTG	0.577													14	22					0	0	0.003163	0	0		A	242077410	A	A	242077410	2	1	4	1	0	0	0	0	0	0	0	1	11491	1164	41	4		4	PASK	2	242077410	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2105	242077410	1121963	707	2673											
PASK	23178	broad.mit.edu	37	chr2	242078072	242078072	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagttgcacactcacatcGctctggaaagcgacccaggt	12	7	9	13	2	2	0	1	0	1	0	3	2	2	1	1	2	2	3	1	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242078072G>A	uc002wao.1	-	5	830	c.738C>T	c.(736-738)AGC>AGT	p.S246S	PASK_uc010zol.1_Silent_p.S60S|PASK_uc010zom.1_Silent_p.S246S|PASK_uc010fzl.1_Silent_p.S246S|PASK_uc010zon.1_Silent_p.S27S|PASK_uc002waq.2_Silent_p.S246S	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	246					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CACTCACATCGCTCTGGAAAG	0.592													5	52					0	0	0.000602	0	0		A	242078072	A	A	242078072	2	1	4	1	0	0	0	0	0	0	0	1	11491	1078	38	1		1	PASK	2	242078072	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	662	242078072	1121301	708	2674											
HDLBP	3069	broad.mit.edu	37	chr2	242179074	242179074	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccacacagtccttggcGcccttgagggtgactttgtc	5	11	11	14	1	0	2	0	2	0	0	3	2	2	2	4	2	0	0	4	2	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242179074G>A	uc002waz.2	-	19	2781	c.2553C>T	c.(2551-2553)GGC>GGT	p.G851G	HDLBP_uc002wba.2_Silent_p.G851G|HDLBP_uc002wbb.2_Silent_p.G803G	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	851	KH 10.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		AGTCCTTGGCGCCCTTGAGGG	0.602													22	86					0	0	0.001882	0	0		A	242179074	A	A	242179074	2	1	4	1	0	0	0	0	0	0	0	1	7041	1074	38	1		1	HDLBP	2	242179074	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	101002	242179074	1020299	709	2675											
SEPT2	4735	broad.mit.edu	37	chr2	242285659	242285659	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgagagactcaagagaggCggcaggtcatcacactgtgc	11	7	13	10	1	4	3	3	1	1	2	4	5	4	3	0	3	1	1	0	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242285659C>T	uc002wbc.2	+	11	1342	c.921C>T	c.(919-921)GGC>GGT	p.G307G	SEPT2_uc002wbd.2_Silent_p.G307G|SEPT2_uc002wbf.2_Silent_p.G307G|SEPT2_uc002wbg.2_Silent_p.G307G|SEPT2_uc002wbh.2_Silent_p.G317G|SEPT2_uc010zop.1_Silent_p.G342G	NM_001008491	NP_001008491	Q15019	SEPT2_HUMAN	septin 2	307					cell division|mitosis	actin cytoskeleton|cleavage furrow|condensed chromosome kinetochore|midbody|nucleolus|septin complex|spindle	GTP binding			central_nervous_system(1)	1		all_cancers(19;7.62e-41)|all_epithelial(40;1.71e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.24e-34)|all cancers(36;7.15e-32)|OV - Ovarian serous cystadenocarcinoma(60;1.21e-15)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;3.16e-06)|Lung(119;7.81e-05)|LUSC - Lung squamous cell carcinoma(224;0.000742)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0889)		TCAAGAGAGGCGGCAGGTCAT	0.502													4	31					0	0	0.009096	0	0		T	242285659	T	T	242285659	2	4	4	1	0	0	0	0	0	0	0	1	14089	755	27	1		1	SEPT2	2	242285659	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	106585	242285659	913714	710	2676											
FARP2	9855	broad.mit.edu	37	chr2	242375909	242375909	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcagaaggcacagcaagAcccacacgtccgttcgagct	11	7	10	13	3	0	2	0	0	0	2	2	3	1	2	2	1	3	5	2	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242375909A>G	uc002wbi.1	+	12	1231	c.1114A>G	c.(1114-1116)ACC>GCC	p.T372A	FARP2_uc010zoq.1_Missense_Mutation_p.T372A|FARP2_uc010zor.1_Missense_Mutation_p.T372A	NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	372					axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		GCACAGCAAGACCCACACGTC	0.493													8	99					0	0	0.006214	0	0		G	242375909	G	G	242375909	3	3	4	1	0	0	0	0	1	0	0	0	5691	275	10	3	1156	3	FARP2	2	242375909	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	90250	242375909	823464	711	2677											
C2orf85	285093	broad.mit.edu	37	chr2	242814783	242814783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctctcggagcccaccgatgGccctgtggccactaaagagg	8	6	12	15	2	1	1	0	0	1	1	2	3	1	2	5	4	1	0	5	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242814783G>A	uc010fzu.1	+	2	1099	c.1076G>A	c.(1075-1077)GGC>GAC	p.G359D		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	359						integral to membrane				ovary(1)	1						CCCACCGATGGCCCTGTGGCC	0.602													7	13					0	0	0.004482	0	0		A	242814783	A	A	242814783	3	1	4	1	0	0	0	0	1	0	0	0	2203	1203	42	2	1082	2	C2orf85	2	242814783	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	438874	242814783	384590	712	2678											
LRRN1	57633	broad.mit.edu	37	chr3	3888176	3888176	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtcacaaccaaaaatgcCgccttcgcagtggacatctc	13	8	7	13	2	2	0	1	0	1	0	4	1	2	1	3	1	2	1	3	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:3888176C>A	uc003bpt.3	+	2	2612	c.1851C>A	c.(1849-1851)GCC>GCA	p.A617A	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	617	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		CCAAAAATGCCGCCTTCGCAG	0.473													41	113					1.22674e-20	1.34442e-20	0.00874	1	0		A	3888176	A	A	3888176	2	1	4	1	0	0	0	0	0	0	0	1	9052	639	23	5		5	LRRN1	3	3888176	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08		3888176	194134254	713	2679											
ITPR1	3708	broad.mit.edu	37	chr3	4703860	4703860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctggactttgccaatgatgCcagcaaggtgctgggctcca	8	9	12	12	0	0	1	0	1	0	0	1	2	1	2	4	3	4	3	4	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:4703860C>T	uc003bqa.2	+	15	1694	c.1346C>T	c.(1345-1347)GCC>GTC	p.A449V	ITPR1_uc010hca.1_Missense_Mutation_p.A434V|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Missense_Mutation_p.A434V	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	449	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GCCAATGATGCCAGCAAGGTG	0.547													16	50					0	0	0.00499	0	0		T	4703860	T	T	4703860	3	4	4	1	0	0	0	0	1	0	0	0	7936	739	26	2	1396	2	ITPR1	3	4703860	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	815684	4703860	193318570	714	2680											
ITPR1	3708	broad.mit.edu	37	chr3	4735265	4735265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgcggtcagaacgggatcGgatggatgagaacagccctc	11	6	15	9	3	1	2	1	1	0	2	3	7	1	5	1	4	4	0	1	4	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:4735265G>A	uc003bqa.2	+	33	4442	c.4094G>A	c.(4093-4095)CGG>CAG	p.R1365Q	ITPR1_uc010hca.1_Missense_Mutation_p.R1350Q|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.R296Q	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1374	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GAACGGGATCGGATGGATGAG	0.512													37	74					0	0	0.004289	0	0		A	4735265	A	A	4735265	3	1	4	1	0	0	0	0	1	0	0	0	7936	1116	39	1	4243	1	ITPR1	3	4735265	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	31405	4735265	193287165	715	2681											
ITPR1	3708	broad.mit.edu	37	chr3	4808340	4808340	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagtgaacaccagtgacttgGgaaataaaaagaaagacgat	19	6	10	6	1	0	4	0	2	0	2	0	6	0	5	1	1	1	0	1	1	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:4808340G>T	uc003bqa.2	+	42	5875	c.5527G>T	c.(5527-5529)GGA>TGA	p.G1843*	ITPR1_uc010hca.1_Nonsense_Mutation_p.G1828*|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Nonsense_Mutation_p.G813*	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1891	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		CAGTGACTTGGGAAATAAAAA	0.428													29	76					1.04352e-10	1.1238e-10	0.003755	1	0		T	4808340	T	T	4808340	4	4	4	1	0	0	0	0	0	1	0	0	7936	1233	43	5	5841	5	ITPR1	3	4808340	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	73075	4808340	193214090	716	2682											
ITPR1	3708	broad.mit.edu	37	chr3	4825528	4825528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcataacaaagaacttcagaGcatgctgaaacctggtggcc	14	7	10	10	0	1	3	1	1	0	2	1	3	1	3	2	2	5	3	2	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:4825528G>A	uc003bqa.2	+	48	6743	c.6395G>A	c.(6394-6396)AGC>AAC	p.S2132N	ITPR1_uc010hca.1_Missense_Mutation_p.S2117N|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.S1102N	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	2180	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GAACTTCAGAGCATGCTGAAA	0.488													12	26					0	0	0.001368	0	0		A	4825528	A	A	4825528	3	1	4	1	0	0	0	0	1	0	0	0	7936	971	34	2	6733	2	ITPR1	3	4825528	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	17188	4825528	193196902	717	2683											
GRM7	2917	broad.mit.edu	37	chr3	7188283	7188283	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctaggctggaattatgtgTctaccctcgcatcggaagga	9	10	11	11	2	1	0	0	0	1	0	3	3	1	3	2	4	1	2	2	4	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:7188283T>C	uc003bqm.2	+	2	938	c.664T>C	c.(664-666)TCT>CCT	p.S222P	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.S222P|GRM7_uc003bql.2_Missense_Mutation_p.S222P	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	222	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	GAATTATGTGTCTACCCTCGC	0.522													25	60					0	0	0.00632	0	0		C	7188283	C	C	7188283	3	2	4	1	0	0	0	0	1	0	0	0	6818	1667	58	3	670	3	GRM7	3	7188283	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2362755	7188283	190834147	718	2684											
C3orf32	51066	broad.mit.edu	37	chr3	8667298	8667298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccctggggcagttgagcCggtgctcagacacaaactca	9	7	12	13	1	2	2	2	1	0	1	3	2	3	2	2	3	3	4	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:8667298C>T	uc003bqu.2	-	10	983	c.737G>A	c.(736-738)CGG>CAG	p.R246Q	C3orf32_uc003bqz.2_Missense_Mutation_p.R246Q|C3orf32_uc003bqt.2_Missense_Mutation_p.R195Q|C3orf32_uc011atg.1_Missense_Mutation_p.R268Q|C3orf32_uc003bqv.2_Missense_Mutation_p.R195Q|C3orf32_uc003bqw.2_RNA|C3orf32_uc003bqx.2_RNA|C3orf32_uc003bqy.2_Missense_Mutation_p.R246Q	NM_015931	NP_057015	Q9Y2M2	CC032_HUMAN	hypothetical protein LOC51066	246										skin(1)	1						GCAGTTGAGCCGGTGCTCAGA	0.418													13	29					0	0	0.003163	0	0		T	8667298	T	T	8667298	3	4	4	1	0	0	0	0	1	0	0	0	2225	652	23	1	336	1	C3orf32	3	8667298	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1479015	8667298	189355132	719	2685											
SETD5	55209	broad.mit.edu	37	chr3	9476021	9476021	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctccccctgtccagacgAtcatccctcgttctgacctg	5	12	6	18	2	3	2	1	1	2	1	7	3	5	2	5	0	0	1	5	0	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:9476021A>G	uc003brt.2	+	5	616	c.181A>G	c.(181-183)ATC>GTC	p.I61V	SETD5_uc003brs.1_Missense_Mutation_p.I42V|SETD5_uc003bru.2_5'UTR|SETD5_uc003brv.2_5'UTR	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	61										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		TGTCCAGACGATCATCCCTCG	0.517													16	42					0	0	0.00499	0	0		G	9476021	G	G	9476021	3	3	4	1	0	0	0	0	1	0	0	0	14159	333	12	3	191	3	SETD5	3	9476021	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	808723	9476021	188546409	720	2686											
LHFPL4	375323	broad.mit.edu	37	chr3	9547876	9547876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagatcatgcagcccaggaCgaggcacagagctgaggggc	13	3	15	10	1	1	3	1	1	0	2	1	5	1	4	1	4	3	3	1	4	1	0	rs148006358		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:9547876C>T	uc003bry.2	-	3	704	c.418G>A	c.(418-420)GTC>ATC	p.V140I		NM_198560	NP_940962	Q7Z7J7	LHPL4_HUMAN	lipoma HMGIC fusion partner-like 4	140	Helical; (Potential).					integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)					CAGCCCAGGACGAGGCACAGA	0.617													12	29					0	0	0.001855	0	0		T	9547876	T	T	9547876	3	4	4	1	0	0	0	0	1	0	0	0	8783	536	19	1	333	1	LHFPL4	3	9547876	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	71855	9547876	188474554	721	2687											
LHFPL4	375323	broad.mit.edu	37	chr3	9594078	9594078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagcagcacgaagaaggCggccgccttgaaggcgctgg	10	3	18	10	4	0	3	0	1	0	2	0	5	0	3	2	5	2	3	2	5	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:9594078C>T	uc003bry.2	-	2	572	c.286G>A	c.(286-288)GCC>ACC	p.A96T		NM_198560	NP_940962	Q7Z7J7	LHPL4_HUMAN	lipoma HMGIC fusion partner-like 4	96						integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)					ACGAAGAAGGCGGCCGCCTTG	0.632													6	14					0	0	0.00308	0	0		T	9594078	T	T	9594078	3	4	4	1	0	0	0	0	1	0	0	0	8783	768	27	1	469	1	LHFPL4	3	9594078	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	46202	9594078	188428352	722	2688											
OGG1	4968	broad.mit.edu	37	chr3	9792752	9792752	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacaagagccaggctagcagGcccacaccagacgagctgga	13	2	13	13	1	0	2	0	0	0	2	0	5	0	3	3	3	3	3	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:9792752G>A	uc003bsi.2	+	2	604	c.261G>A	c.(259-261)AGG>AGA	p.R87R	OGG1_uc003bsh.2_Silent_p.R87R|OGG1_uc003bsj.2_Silent_p.R87R|OGG1_uc003bsk.2_Silent_p.R87R|OGG1_uc003bsl.2_Silent_p.R87R|OGG1_uc003bsm.2_Silent_p.R87R|OGG1_uc003bsn.2_Silent_p.R87R|OGG1_uc003bso.2_Silent_p.R87R|OGG1_uc003bsp.1_5'Flank|OGG1_uc010hcm.1_5'Flank|OGG1_uc003bsq.1_5'Flank|OGG1_uc003bsr.1_5'Flank	NM_002542	NP_002533	O15527	OGG1_HUMAN	8-oxoguanine DNA-glycosylase 1 isoform 1a	87					depurination|nucleotide-excision repair|regulation of protein import into nucleus, translocation|regulation of transcription, DNA-dependent|response to oxidative stress|response to radiation	mitochondrion|nuclear matrix|nuclear speck	damaged DNA binding|endonuclease activity|oxidized purine base lesion DNA N-glycosylase activity|protein binding				0	Medulloblastoma(99;0.227)					AGGCTAGCAGGCCCACACCAG	0.572								BER_DNA_glycosylases					4	16					0	0	0.009096	0	0		A	9792752	A	A	9792752	2	1	4	1	0	0	0	0	0	0	0	1	10864	1194	42	2		2	OGG1	3	9792752	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	198674	9792752	188229678	723	2689											
CRELD1	78987	broad.mit.edu	37	chr3	9982689	9982689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttgaggcagaacgcaacGccagccatctggtatgttcg	10	9	11	11	3	1	2	0	1	1	1	2	2	1	2	2	2	3	4	2	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:9982689G>A	uc003bug.2	+	6	734	c.616G>A	c.(616-618)GCC>ACC	p.A206T	CIDEC_uc003bto.2_Intron|CRELD1_uc003buf.2_Missense_Mutation_p.A206T|CRELD1_uc003buh.2_Missense_Mutation_p.A206T|CRELD1_uc003bui.2_Missense_Mutation_p.A206T|CRELD1_uc003buj.2_RNA	NM_001077415	NP_001070883	Q96HD1	CREL1_HUMAN	cysteine-rich with EGF-like domains 1 isoform 3	206	Extracellular (Potential).				cardiac septum development|endocardial cushion development	integral to membrane	calcium ion binding			ovary(1)	1						AGAACGCAACGCCAGCCATCT	0.642													10	21					0	0	0.001368	0	0		A	9982689	A	A	9982689	3	1	4	1	0	0	0	0	1	0	0	0	3869	1087	38	1	634	1	CRELD1	3	9982689	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	189937	9982689	188039741	724	2690											
FANCD2	2177	broad.mit.edu	37	chr3	10084330	10084330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattcttcattccgtaacaGccatggatacacttgaggta	11	13	7	10	1	3	1	2	1	1	0	4	2	4	2	2	2	3	2	2	2	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:10084330G>A	uc003buw.2	+	11	949	c.871G>A	c.(871-873)GCC>ACC	p.A291T	FANCD2_uc003bux.1_Missense_Mutation_p.A291T|FANCD2_uc003buy.1_Missense_Mutation_p.A291T	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	291	Interaction with FANCE.|Interaction with BRCA2.				DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		TTCCGTAACAGCCATGGATAC	0.383			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				23	99					0	0	0.005443	0	0		A	10084330	A	A	10084330	3	1	4	1	0	0	0	0	1	0	0	0	5679	971	34	2	909	2	FANCD2	3	10084330	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	101641	10084330	187938100	725	2691											
SLC6A1	6529	broad.mit.edu	37	chr3	11067198	11067198	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgttcttccgtggagtgAcgctgcccggggccaaggag	5	9	15	12	3	1	1	0	1	1	0	3	3	3	3	4	4	1	2	4	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:11067198A>G	uc010hdq.2	+	8	1189	c.778A>G	c.(778-780)ACG>GCG	p.T260A		NM_003042	NP_003033	P30531	SC6A1_HUMAN	solute carrier family 6 (neurotransmitter	260					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)|skin(1)	2		Ovarian(110;0.0392)		OV - Ovarian serous cystadenocarcinoma(96;0.00099)	Cocaine(DB00907)|Tiagabine(DB00906)	CCGTGGAGTGACGCTGCCCGG	0.582													7	31					0	0	0.00308	0	0		G	11067198	G	G	11067198	3	3	4	1	0	0	0	0	1	0	0	0	14698	275	10	3	800	3	SLC6A1	3	11067198	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	982868	11067198	186955232	726	2692											
ATG7	10533	broad.mit.edu	37	chr3	11372822	11372822	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgttcacagataacaatTggtgtatatgatccctgtaa	12	16	7	6	0	1	2	1	1	0	1	2	2	2	2	1	1	1	3	1	1	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:11372822T>C	uc003bwc.2	+	8	804	c.687T>C	c.(685-687)ATT>ATC	p.I229I	ATG7_uc003bwd.2_Silent_p.I229I|ATG7_uc011aum.1_Silent_p.I190I	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	229					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						AGATAACAATTGGTGTATATG	0.403													48	126					0	0	0.00361	0	0		C	11372822	C	C	11372822	2	2	4	1	0	0	0	0	0	0	0	1	1102	1800	63	3		3	ATG7	3	11372822	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	305624	11372822	186649608	727	2693											
VGLL4	9686	broad.mit.edu	37	chr3	11643341	11643341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcgactcattttggagaCgtggtcgttgtcacagtcta	8	13	12	8	3	3	1	2	0	1	1	4	4	3	1	0	2	1	1	0	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:11643341C>T	uc003bwf.2	-	3	586	c.220G>A	c.(220-222)GTC>ATC	p.V74I	VGLL4_uc010hdx.1_Missense_Mutation_p.V80I|VGLL4_uc003bwg.2_Missense_Mutation_p.V79I|VGLL4_uc011aun.1_Missense_Mutation_p.V15I	NM_014667	NP_055482	Q14135	VGLL4_HUMAN	vestigial like 4 isoform b	74					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1				LUSC - Lung squamous cell carcinoma(1;0.089)|Lung(1;0.111)		ATTTTGGAGACGTGGTCGTTG	0.547													24	87					0	0	0.00632	0	0		T	11643341	T	T	11643341	3	4	4	1	0	0	0	0	1	0	0	0	17187	536	19	1	692	1	VGLL4	3	11643341	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	270519	11643341	186379089	728	2694											
TSEN2	80746	broad.mit.edu	37	chr3	12544798	12544798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgggcagcagagctgatgCgtagacaggggcaggatgag	11	5	19	6	1	0	4	0	2	0	2	0	5	0	5	0	4	3	5	0	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:12544798C>T	uc003bxc.2	+	5	733	c.346C>T	c.(346-348)CGT>TGT	p.R116C	TSEN2_uc003bwy.2_Missense_Mutation_p.R116C|TSEN2_uc003bwz.2_Missense_Mutation_p.R116C|TSEN2_uc003bxa.2_Missense_Mutation_p.R116C|TSEN2_uc011auq.1_Missense_Mutation_p.R116C|TSEN2_uc003bxb.2_Missense_Mutation_p.R116C|TSEN2_uc011aur.1_Missense_Mutation_p.R25C	NM_025265	NP_079541	Q8NCE0	SEN2_HUMAN	tRNA-intron nuclease 2 isoform 1	116					mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|nucleolus|tRNA-intron endonuclease complex	nucleic acid binding|tRNA-intron endonuclease activity			central_nervous_system(1)	1						AGAGCTGATGCGTAGACAGGG	0.443													15	57					0	0	0.001882	0	0		T	12544798	T	T	12544798	3	4	4	1	0	0	0	0	1	0	0	0	16638	768	27	1	360	1	TSEN2	3	12544798	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	901457	12544798	185477632	729	2695											
TSEN2	80746	broad.mit.edu	37	chr3	12570415	12570415	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggaaaggccctccattttaCcatgcaaggttcggagtgat	10	10	11	10	2	0	1	0	1	0	0	2	3	1	3	3	4	2	2	3	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:12570415C>T	uc003bxc.2	+	9	1515	c.1128C>T	c.(1126-1128)TAC>TAT	p.Y376Y	TSEN2_uc003bwy.2_Silent_p.Y376Y|TSEN2_uc003bwz.2_Silent_p.Y317Y|TSEN2_uc003bxa.2_Silent_p.Y350Y|TSEN2_uc011auq.1_Silent_p.Y350Y|TSEN2_uc003bxb.2_Silent_p.Y376Y|TSEN2_uc011aur.1_Silent_p.Y285Y	NM_025265	NP_079541	Q8NCE0	SEN2_HUMAN	tRNA-intron nuclease 2 isoform 1	376					mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|nucleolus|tRNA-intron endonuclease complex	nucleic acid binding|tRNA-intron endonuclease activity			central_nervous_system(1)	1						CTCCATTTTACCATGCAAGGT	0.353													9	80					0	0	0.008291	0	0		T	12570415	T	T	12570415	2	4	4	1	0	0	0	0	0	0	0	1	16638	518	18	4		4	TSEN2	3	12570415	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	25617	12570415	185452015	730	2696											
RAF1	5894	broad.mit.edu	37	chr3	12647737	12647737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacagactctcgcatacgacGcatagtcaaagaaggtagtg	15	7	10	9	3	2	2	1	0	1	2	3	3	2	2	0	1	2	3	0	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:12647737G>A	uc003bxf.3	-	6	1058	c.643C>T	c.(643-645)CGT>TGT	p.R215C	RAF1_uc011aut.1_Intron|RAF1_uc011auu.1_Missense_Mutation_p.R133C	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	215					activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	CGCATACGACGCATAGTCAAA	0.418			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				22	45					0	0	0.003954	0	0		A	12647737	A	A	12647737	3	1	4	1	0	0	0	0	1	0	0	0	13027	1087	38	1	1351	1	RAF1	3	12647737	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	77322	12647737	185374693	731	2697											
NUP210	23225	broad.mit.edu	37	chr3	13381431	13381431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtgccgttcccgatggCgaggccctgtaccagcccag	7	6	12	16	3	0	0	0	0	0	0	1	2	1	0	5	2	3	2	5	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:13381431C>T	uc003bxv.1	-	25	3477	c.3394G>A	c.(3394-3396)GCC>ACC	p.A1132T		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1132	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					TTCCCGATGGCGAGGCCCTGT	0.493													16	56					0	0	0.002299	0	0		T	13381431	T	T	13381431	3	4	4	1	0	0	0	0	1	0	0	0	10779	768	27	1	2333	1	NUP210	3	13381431	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	733694	13381431	184640999	732	2698											
NUP210	23225	broad.mit.edu	37	chr3	13415302	13415302	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgcctgtggtcatcacGcccttgacagtaactgtggc	7	11	10	13	1	3	1	3	1	0	0	3	1	3	1	2	2	2	1	2	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:13415302G>A	uc003bxv.1	-	12	1586	c.1503C>T	c.(1501-1503)GGC>GGT	p.G501G	NUP210_uc003bxx.2_Silent_p.G173G	NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	501	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					TGGTCATCACGCCCTTGACAG	0.567													6	26					0	0	0.001984	0	0		A	13415302	A	A	13415302	2	1	4	1	0	0	0	0	0	0	0	1	10779	1074	38	1		1	NUP210	3	13415302	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	33871	13415302	184607128	733	2699											
HDAC11	79885	broad.mit.edu	37	chr3	13546068	13546068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaccagaagcgcacagcccGcatcattgctgactccatac	11	7	8	15	2	1	2	1	1	0	1	2	2	2	2	3	0	5	4	3	0	3	3	rs142419489		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:13546068G>A	uc003bxy.2	+	10	1062	c.929G>A	c.(928-930)CGC>CAC	p.R310H	HDAC11_uc010heb.2_3'UTR|HDAC11_uc011aux.1_Missense_Mutation_p.R118H|HDAC11_uc011auy.1_Missense_Mutation_p.R259H	NM_024827	NP_079103	Q96DB2	HDA11_HUMAN	histone deacetylase 11 isoform 1	310	Histone deacetylase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex|plasma membrane	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding			ovary(2)	2						CGCACAGCCCGCATCATTGCT	0.612													14	20					0	0	0.003163	0	0		A	13546068	A	A	13546068	3	1	4	1	0	0	0	0	1	0	0	0	7022	1087	38	1	967	1	HDAC11	3	13546068	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	130766	13546068	184476362	734	2700											
WNT7A	7476	broad.mit.edu	37	chr3	13896046	13896046	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctttcggcctgcctcgtTgttgtgcaagttcatgagag	6	14	11	10	2	1	1	1	1	0	1	3	2	1	1	3	1	3	4	3	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:13896046T>A	uc003bye.1	-	3	858	c.553A>T	c.(553-555)AAC>TAC	p.N185Y		NM_004625	NP_004616	O00755	WNT7A_HUMAN	wingless-type MMTV integration site family,	185					activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3						CCTGCCTCGTTGTTGTGCAAG	0.483													5	142					0	0	0.001168	0	0		A	13896046	A	A	13896046	3	1	4	1	0	0	0	0	1	0	0	0	17420	1812	63	5	504	5	WNT7A	3	13896046	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	349978	13896046	184126384	735	2701											
C3orf20	84077	broad.mit.edu	37	chr3	14724291	14724291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccccaagctactggcccGcatctccaaactcctcatga	9	7	7	18	1	2	1	1	1	1	0	4	1	3	1	5	2	3	2	5	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:14724291G>A	uc003byy.2	+	3	475	c.71G>A	c.(70-72)CGC>CAC	p.R24H	C3orf20_uc003byz.2_Intron|C3orf20_uc003bza.2_Intron|C3orf20_uc003byx.1_Missense_Mutation_p.R24H	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	24						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						CTACTGGCCCGCATCTCCAAA	0.463													12	104					0	0	0.001368	0	0		A	14724291	A	A	14724291	3	1	4	1	0	0	0	0	1	0	0	0	2216	1087	38	1	73	1	C3orf20	3	14724291	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	828245	14724291	183298139	736	2702											
ZFYVE20	64145	broad.mit.edu	37	chr3	15116081	15116081	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgttcacgcaacatctgcagCtgttcccgctgcaggtcctc	6	10	9	16	3	2	0	1	0	1	0	5	0	4	0	2	1	4	7	2	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:15116081C>A	uc003bzm.1	-	14	2177	c.1563G>T	c.(1561-1563)CAG>CAT	p.Q521H	ZFYVE20_uc010hek.1_Missense_Mutation_p.Q521H	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	521	Potential.|Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						ACATCTGCAGCTGTTCCCGCT	0.607													19	66					9.57634e-11	1.03153e-10	0.00333	1	0		A	15116081	A	A	15116081	3	1	4	1	0	0	0	0	1	0	0	0	17691	796	28	5	795	5	ZFYVE20	3	15116081	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	391790	15116081	182906349	737	2703											
ZFYVE20	64145	broad.mit.edu	37	chr3	15123940	15123940	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgctctctcttgagcagCgtgtccttgcagtgtgtaca	5	14	11	11	1	2	1	0	1	2	0	4	1	3	1	1	0	6	5	1	0	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:15123940C>T	uc003bzm.1	-	9	1388	c.774G>A	c.(772-774)ACG>ACA	p.T258T	ZFYVE20_uc010hek.1_Silent_p.T258T|ZFYVE20_uc011avn.1_Intron	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	258	FYVE-type.|Necessary for the correct targeting to endosomes.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						TCTTGAGCAGCGTGTCCTTGC	0.562													14	40					0	0	0.00499	0	0		T	15123940	T	T	15123940	2	4	4	1	0	0	0	0	0	0	0	1	17691	755	27	1		1	ZFYVE20	3	15123940	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7859	15123940	182898490	738	2704											
CAPN7	23473	broad.mit.edu	37	chr3	15269407	15269407	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctacattttccaagtgggtaCgaccagaagacctcaccaac	13	8	7	13	1	1	2	1	0	0	2	2	3	2	2	4	1	3	1	4	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:15269407C>T	uc003bzn.2	+	7	1057	c.787C>T	c.(787-789)CGA>TGA	p.R263*		NM_014296	NP_055111	Q9Y6W3	CAN7_HUMAN	calpain 7	263	Calpain catalytic.				proteolysis	nucleus	calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1						CAAGTGGGTACGACCAGAAGA	0.313													17	35					0	0	0.010504	0	0		T	15269407	T	T	15269407	4	4	4	1	0	0	0	0	0	1	0	0	2634	528	19	1	813	1	CAPN7	3	15269407	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	145467	15269407	182753023	739	2705											
HACL1	26061	broad.mit.edu	37	chr3	15609981	15609981	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcacagtccgtccaatgTccatagtatttgctccttca	10	12	7	12	1	1	0	1	0	0	0	5	1	5	0	4	0	2	3	4	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:15609981T>C	uc003caf.2	-	13	1368	c.1208A>G	c.(1207-1209)GAC>GGC	p.D403G	HACL1_uc011avr.1_RNA|HACL1_uc011avs.1_Missense_Mutation_p.D376G|HACL1_uc011avt.1_Missense_Mutation_p.D343G|HACL1_uc003cag.2_Missense_Mutation_p.D47G|HACL1_uc011avu.1_Missense_Mutation_p.D321G|HACL1_uc010hep.2_Missense_Mutation_p.D162G	NM_012260	NP_036392	Q9UJ83	HACL1_HUMAN	2-hydroxyphytanoyl-CoA lyase	403	Thiamine pyrophosphate binding.				fatty acid alpha-oxidation	peroxisomal matrix	carbon-carbon lyase activity|identical protein binding|magnesium ion binding|thiamine pyrophosphate binding				0						CCGTCCAATGTCCATAGTATT	0.368													7	120					0	0	0.004482	0	0		C	15609981	C	C	15609981	3	2	4	1	0	0	0	0	1	0	0	0	6957	1667	58	3	548	3	HACL1	3	15609981	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	340574	15609981	182412449	740	2706											
RFTN1	23180	broad.mit.edu	37	chr3	16358554	16358554	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacagggcccttcatctcCtcggagactccaccctcctg	6	9	9	17	1	2	1	1	0	1	1	6	3	4	2	5	3	0	0	5	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:16358554C>A	uc003cay.2	-	10	1800	c.1518G>T	c.(1516-1518)GAG>GAT	p.E506D	RFTN1_uc010hes.2_Missense_Mutation_p.E470D|OXNAD1_uc003cax.2_Intron|OXNAD1_uc011awb.1_Intron	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	506						plasma membrane				ovary(3)|central_nervous_system(1)	4						CCTTCATCTCCTCGGAGACTC	0.552													6	49					3.59834e-05	3.78692e-05	0.001168	1	0		A	16358554	A	A	16358554	3	1	4	1	0	0	0	0	1	0	0	0	13283	680	24	5	222	5	RFTN1	3	16358554	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	748573	16358554	181663876	741	2707											
KCNH8	131096	broad.mit.edu	37	chr3	19190212	19190212	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcacaccacgctggaaaaAtgccggttatgaaaggatta	14	10	9	8	2	1	1	1	1	0	0	1	3	1	3	2	3	1	2	2	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:19190212A>T	uc003cbk.1	+	1	196	c.1A>T	c.(1-3)ATG>TTG	p.M1L	KCNH8_uc011awe.1_Missense_Mutation_p.M1L|KCNH8_uc010hex.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	1	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						CGCTGGAAAAATGCCGGTTAT	0.502													40	84					0	0	0.007835	0	0		T	19190212	T	T	19190212	3	4	4	1	0	0	0	0	1	0	0	0	8054	101	4	5	3	5	KCNH8	3	19190212	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	2831658	19190212	178832218	742	2708											
TOP2B	7155	broad.mit.edu	37	chr3	25668727	25668727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcatatctaaacaagatgCgatgcctttccatatcagca	14	10	6	11	1	2	1	1	0	1	1	3	2	3	1	2	0	5	2	2	0	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:25668727C>T	uc011awn.1	-	16	2010	c.1967G>A	c.(1966-1968)CGC>CAC	p.R656H	TOP2B_uc003cdj.2_Missense_Mutation_p.R651H	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	656					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						AAACAAGATGCGATGCCTTTC	0.353													26	145					0	0	0.004656	0	0		T	25668727	T	T	25668727	3	4	4	1	0	0	0	0	1	0	0	0	16392	768	27	1	2997	1	TOP2B	3	25668727	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6478515	25668727	172353703	743	2709											
LRRC3B	116135	broad.mit.edu	37	chr3	26751777	26751777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taaaaaaactaccgattatgCcatgctggtcaccatgtttg	13	12	7	9	1	1	0	1	0	0	0	1	1	1	0	3	1	4	2	3	1	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:26751777C>T	uc003cdp.2	+	2	1203	c.614C>T	c.(613-615)GCC>GTC	p.A205V	LRRC3B_uc003cdq.2_Missense_Mutation_p.A205V	NM_052953	NP_443185	Q96PB8	LRC3B_HUMAN	leucine rich repeat containing 3B precursor	205	Helical; (Potential).					integral to membrane				pancreas(2)|ovary(1)|skin(1)	4						ACCGATTATGCCATGCTGGTC	0.468													6	30					0	0	0.00308	0	0		T	26751777	T	T	26751777	3	4	4	1	0	0	0	0	1	0	0	0	9014	739	26	2	616	2	LRRC3B	3	26751777	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1083050	26751777	171270653	744	2710											
NEK10	152110	broad.mit.edu	37	chr3	27244008	27244008	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcctactgcccagacatCagccttctccccatacggct	8	8	7	18	1	2	1	1	0	1	1	3	1	2	1	5	1	5	2	5	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:27244008C>A	uc010hfk.2	-	3	296	c.67G>T	c.(67-69)GAT>TAT	p.D23Y	NEK10_uc003cds.1_Missense_Mutation_p.D108Y|NEK10_uc010hfj.2_Missense_Mutation_p.D23Y			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	711	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						GCCCAGACATCAGCCTTCTCC	0.488													17	41					1.33834e-09	1.43568e-09	0.007413	1	0		A	27244008	A	A	27244008	3	1	4	1	0	0	0	0	1	0	0	0	10341	841	29	5		5	NEK10	3	27244008	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	492231	27244008	170778422	745	2711											
ZCWPW2	152098	broad.mit.edu	37	chr3	28476697	28476697	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcacatagaattcctgggCgatccccattcaagatcatg	12	11	7	11	1	3	2	3	0	0	2	5	3	5	2	3	1	0	0	3	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:28476697C>T	uc003ceh.2	+	4	597	c.429C>T	c.(427-429)GGC>GGT	p.G143G	ZCWPW2_uc003cei.2_Silent_p.G143G|ZCWPW2_uc010hfo.2_5'UTR	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	143	PWWP.						zinc ion binding			ovary(2)	2						AATTCCTGGGCGATCCCCATT	0.378													27	70					0	0	0.008361	0	0		T	28476697	T	T	28476697	2	4	4	1	0	0	0	0	0	0	0	1	17623	755	27	1		1	ZCWPW2	3	28476697	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1232689	28476697	169545733	746	2712											
OSBPL10	114884	broad.mit.edu	37	chr3	31710298	31710298	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggtgttggttgggttgtgCttcacttctgcggtaaccct	4	16	13	8	1	2	0	1	0	1	0	2	0	2	0	1	4	3	5	1	4	1	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:31710298C>T	uc003cev.2	-	11	2313	c.1932G>A	c.(1930-1932)AAG>AAA	p.K644K	OSBPL10_uc003ceu.1_Silent_p.K401K|OSBPL10_uc011axf.1_Silent_p.K580K	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	644					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		TTGGGTTGTGCTTCACTTCTG	0.398													38	125					0	0	0.009718	0	0		T	31710298	T	T	31710298	2	4	4	1	0	0	0	0	0	0	0	1	11294	796	28	2		2	OSBPL10	3	31710298	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3233601	31710298	166312132	747	2713											
OSBPL10	114884	broad.mit.edu	37	chr3	31725328	31725328	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgttcgtgacagctggcAggagagcgggaagcagtcct	8	7	18	8	2	0	2	0	1	0	1	2	4	1	3	1	4	3	4	1	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:31725328A>G	uc003cev.2	-	9	1905	c.1524T>C	c.(1522-1524)CCT>CCC	p.P508P	OSBPL10_uc003ceu.1_Silent_p.P265P|OSBPL10_uc011axf.1_Silent_p.P444P	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	508					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		GACAGCTGGCAGGAGAGCGGG	0.547													13	48					0	0	0.003163	0	0		G	31725328	G	G	31725328	2	3	4	1	0	0	0	0	0	0	0	1	11294	175	7	3		3	OSBPL10	3	31725328	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	15030	31725328	166297102	748	2714											
CMTM8	152189	broad.mit.edu	37	chr3	32409470	32409470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaacttcaacagctgggCggcctcatcggtgagtagcc	9	8	11	13	2	3	1	3	1	0	0	4	1	3	1	2	3	4	2	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:32409470C>T	uc003cex.2	+	3	722	c.428C>T	c.(427-429)GCG>GTG	p.A143V	CMTM8_uc010hfu.2_Missense_Mutation_p.A85V	NM_178868	NP_849199	Q8IZV2	CKLF8_HUMAN	CKLF-like MARVEL transmembrane domain containing	143	MARVEL.				chemotaxis	extracellular space|integral to membrane	cytokine activity				0						AACAGCTGGGCGGCCTCATCG	0.547													5	52					0	0	0.001984	0	0		T	32409470	T	T	32409470	3	4	4	1	0	0	0	0	1	0	0	0	3592	768	27	1	438	1	CMTM8	3	32409470	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	684142	32409470	165612960	749	2715											
CRTAP	10491	broad.mit.edu	37	chr3	33174107	33174107	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctctttgatcagaatgAcaaggtcatgcagcagaacc	12	10	9	10	0	4	4	2	2	2	2	4	4	4	4	1	1	4	3	1	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:33174107A>G	uc003cfl.3	+	5	1103	c.983A>G	c.(982-984)GAC>GGC	p.D328G	CRTAP_uc010hfz.2_Missense_Mutation_p.D285G|CRTAP_uc003cfm.2_Missense_Mutation_p.D149G|CRTAP_uc003cfn.2_Missense_Mutation_p.D149G	NM_006371	NP_006362	O75718	CRTAP_HUMAN	cartilage associated protein precursor	328						proteinaceous extracellular matrix	binding				0						GATCAGAATGACAAGGTCATG	0.502													14	152					0	0	0.00245	0	0		G	33174107	G	G	33174107	3	3	4	1	0	0	0	0	1	0	0	0	3901	275	10	3	1001	3	CRTAP	3	33174107	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	764637	33174107	164848323	750	2716											
UBP1	7342	broad.mit.edu	37	chr3	33453092	33453092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgaatgaaagcagaggtgCgttttgctgggtcccacaga	10	9	13	9	1	0	4	0	2	0	2	1	4	1	4	2	2	3	3	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:33453092C>T	uc003cfq.3	-	5	1066	c.536G>A	c.(535-537)CGC>CAC	p.R179H	UBP1_uc003cfr.3_Missense_Mutation_p.R179H|UBP1_uc010hga.2_Missense_Mutation_p.R179H	NM_014517	NP_055332	Q9NZI7	UBIP1_HUMAN	upstream binding protein 1 (LBP-1a) isoform a	179					negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|viral genome replication	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			kidney(2)	2						AGCAGAGGTGCGTTTTGCTGG	0.358													30	86					0	0	0.002445	0	0		T	33453092	T	T	33453092	3	4	4	1	0	0	0	0	1	0	0	0	16921	768	27	1	1134	1	UBP1	3	33453092	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	278985	33453092	164569338	751	2717											
CLASP2	23122	broad.mit.edu	37	chr3	33592749	33592749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catattaaaatataccttccGaacatcagaacttttgggtt	14	14	5	8	1	1	1	1	0	0	1	2	2	2	1	2	1	3	1	2	1	7	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:33592749G>A	uc003cfu.2	-	29	3502	c.3148C>T	c.(3148-3150)CGG>TGG	p.R1050W	CLASP2_uc003cfs.2_Missense_Mutation_p.R257W|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Missense_Mutation_p.R650W	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	1059										ovary(3)|central_nervous_system(1)	4						TATACCTTCCGAACATCAGAA	0.388													13	59					0	0	0.003163	0	0		A	33592749	A	A	33592749	3	1	4	1	0	0	0	0	1	0	0	0	3458	1057	37	1	1412	1	CLASP2	3	33592749	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	139657	33592749	164429681	752	2718											
CLASP2	23122	broad.mit.edu	37	chr3	33617676	33617676	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaccaaggcatctgccacCgcctcctccacatcagaacc	11	6	6	18	1	2	1	1	0	1	1	4	1	4	1	7	1	3	2	7	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:33617676C>T	uc003cfu.2	-	24	2793	c.2439G>A	c.(2437-2439)GCG>GCA	p.A813A	CLASP2_uc003cfs.2_Silent_p.A13A|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Silent_p.A406A	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	814										ovary(3)|central_nervous_system(1)	4						CATCTGCCACCGCCTCCTCCA	0.453													15	53					0	0	0.00245	0	0		T	33617676	T	T	33617676	2	4	4	1	0	0	0	0	0	0	0	1	3458	639	23	1		1	CLASP2	3	33617676	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24927	33617676	164404754	753	2719											
CLASP2	23122	broad.mit.edu	37	chr3	33729801	33729801	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaataagacacagacacacGccttctcgagatcgaaaatt	16	8	6	11	3	2	3	1	0	1	3	4	5	2	3	1	0	0	0	1	0	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:33729801G>A	uc003cfu.2	-	4	792	c.438C>T	c.(436-438)GGC>GGT	p.G146G	CLASP2_uc010hgb.2_RNA	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	146										ovary(3)|central_nervous_system(1)	4						ACAGACACACGCCTTCTCGAG	0.303													3	10					0	0	0.001168	0	0		A	33729801	A	A	33729801	2	1	4	1	0	0	0	0	0	0	0	1	3458	1074	38	1		1	CLASP2	3	33729801	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	112125	33729801	164292629	754	2720											
TRANK1	9881	broad.mit.edu	37	chr3	36873314	36873314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaatctcccggaagtggCgatacaggagaggcttgcag	11	7	13	10	2	2	1	1	0	1	1	3	4	2	2	1	4	2	2	1	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:36873314C>T	uc003cgj.2	-	12	6280	c.5978G>A	c.(5977-5979)CGC>CAC	p.R1993H		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2543					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						CCGGAAGTGGCGATACAGGAG	0.592													19	29					0	0	0.00333	0	0		T	36873314	T	T	36873314	3	4	4	1	0	0	0	0	1	0	0	0	16480	768	27	1	1161	1	TRANK1	3	36873314	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3143513	36873314	161149116	755	2721											
TRANK1	9881	broad.mit.edu	37	chr3	36873381	36873381	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactagcatcaccaagcacaGcaccagtgtccgctcagcct	11	6	7	17	1	2	0	2	0	0	0	3	0	3	0	4	0	4	4	4	0	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:36873381G>T	uc003cgj.2	-	12	6213	c.5911C>A	c.(5911-5913)CTG>ATG	p.L1971M		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2521					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						ACCAAGCACAGCACCAGTGTC	0.527													7	85					0.00307968	0.00319789	0.00308	1	0		T	36873381	T	T	36873381	3	4	4	1	0	0	0	0	1	0	0	0	16480	962	34	5	1228	5	TRANK1	3	36873381	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	67	36873381	161149049	756	2722											
TRANK1	9881	broad.mit.edu	37	chr3	36897695	36897695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacatacttctgcagcttggCcgtcccctgctggctccaca	6	10	8	17	1	1	0	0	0	1	0	3	0	3	0	4	2	4	4	4	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:36897695C>T	uc003cgj.2	-	3	2038	c.1736G>A	c.(1735-1737)GGC>GAC	p.G579D		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1129					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TGCAGCTTGGCCGTCCCCTGC	0.493													5	42					0	0	0.001168	0	0		T	36897695	T	T	36897695	3	4	4	1	0	0	0	0	1	0	0	0	16480	739	26	2	5439	2	TRANK1	3	36897695	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24314	36897695	161124735	757	2723											
LRRFIP2	9209	broad.mit.edu	37	chr3	37095348	37095348	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagggtggttttcctactgCtgggccagaagtgctgtcct	6	12	14	9	0	0	1	0	0	0	1	2	2	2	1	3	3	3	3	3	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:37095348C>T	uc003cgp.2	-	29	2583	c.2160G>A	c.(2158-2160)CAG>CAA	p.Q720Q	MLH1_uc011aye.1_Intron|LRRFIP2_uc011ayf.1_Silent_p.Q502Q|LRRFIP2_uc003cgr.2_Silent_p.Q423Q|LRRFIP2_uc003cgs.3_Silent_p.Q423Q|LRRFIP2_uc003cgt.3_Silent_p.Q399Q	NM_006309	NP_006300	Q9Y608	LRRF2_HUMAN	leucine rich repeat (in FLII) interacting	720					Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1						TTTCCTACTGCTGGGCCAGAA	0.522													4	59					0	0	0.000602	0	0		T	37095348	T	T	37095348	2	4	4	1	0	0	0	0	0	0	0	1	9046	796	28	2		2	LRRFIP2	3	37095348	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	197653	37095348	160927082	758	2724											
GOLGA4	2803	broad.mit.edu	37	chr3	37367797	37367797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgagttaaaatcaaaggaaGcttatgaaaaggatgagcag	18	9	11	3	0	1	3	1	3	0	0	1	5	1	5	0	2	2	3	0	2	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:37367797G>A	uc003cgv.2	+	14	4724	c.4420G>A	c.(4420-4422)GCT>ACT	p.A1474T	GOLGA4_uc010hgr.1_Missense_Mutation_p.A1035T|GOLGA4_uc003cgw.2_Missense_Mutation_p.A1496T|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.A1355T	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1474	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						ATCAAAGGAAGCTTATGAAAA	0.338													12	99					0	0	0.000978	0	0		A	37367797	A	A	37367797	3	1	4	1	0	0	0	0	1	0	0	0	6570	971	34	2	4544	2	GOLGA4	3	37367797	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	272449	37367797	160654633	759	2725											
GOLGA4	2803	broad.mit.edu	37	chr3	37388776	37388776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttgagtatatgatgggtCgtgagactaaggtataaatc	12	15	11	3	1	0	3	0	3	0	1	2	4	0	3	0	2	0	2	0	2	6	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:37388776C>T	uc003cgv.2	+	21	6869	c.6565C>T	c.(6565-6567)CGT>TGT	p.R2189C	GOLGA4_uc003cgw.2_Missense_Mutation_p.R2204C|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.R2070C	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	2189	GRIP.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TATGATGGGTCGTGAGACTAA	0.368													30	60					0	0	0.002445	0	0		T	37388776	T	T	37388776	3	4	4	1	0	0	0	0	1	0	0	0	6570	884	31	1	6717	1	GOLGA4	3	37388776	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20979	37388776	160633654	760	2726											
ITGA9	3680	broad.mit.edu	37	chr3	37559045	37559045	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggatggtgcctacaatgcGcactttggagagagcattgc	9	9	15	8	1	0	1	0	0	0	1	0	4	0	3	1	4	5	2	1	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:37559045G>A	uc003chd.2	+	10	1139	c.1086G>A	c.(1084-1086)GCG>GCA	p.A362A	ITGA9_uc003chc.2_Silent_p.A362A	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	362	Extracellular (Potential).|FG-GAP 6.				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		CCTACAATGCGCACTTTGGAG	0.532													3	6					0	0	0.004672	0	0		A	37559045	A	A	37559045	2	1	4	1	0	0	0	0	0	0	0	1	7899	1074	38	1		1	ITGA9	3	37559045	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	170269	37559045	160463385	761	2727											
PLCD1	5333	broad.mit.edu	37	chr3	38061761	38061761	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcaacttgtagaagcgCtctctcctccatgagctgga	8	11	9	13	1	1	2	0	1	1	1	5	3	4	3	3	1	4	4	3	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:38061761C>T	uc003chn.2	-	2	241	c.117G>A	c.(115-117)GAG>GAA	p.E39E	PLCD1_uc003chm.2_Silent_p.E60E	NM_006225	NP_006216	P51178	PLCD1_HUMAN	phospholipase C, delta 1 isoform 2	39	PH.|Substrate binding (By similarity).				intracellular signal transduction|lipid catabolic process|phospholipid metabolic process	cytoplasm	calcium ion binding|GTPase activating protein binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		TGTAGAAGCGCTCTCTCCTCC	0.597													11	34					0	0	0.00245	0	0		T	38061761	T	T	38061761	2	4	4	1	0	0	0	0	0	0	0	1	12050	796	28	2		2	PLCD1	3	38061761	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	502716	38061761	159960669	762	2728											
DLEC1	9940	broad.mit.edu	37	chr3	38136483	38136483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctaccccgacaaggagactgCcttctccatcatgcccagaa	11	7	7	16	1	2	2	1	0	1	2	3	4	2	2	5	1	3	0	5	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:38136483C>T	uc003cho.1	+	13	2054	c.2033C>T	c.(2032-2034)GCC>GTC	p.A678V	DLEC1_uc003chp.1_Missense_Mutation_p.A678V|DLEC1_uc010hgv.1_Missense_Mutation_p.A678V|DLEC1_uc003chr.1_5'UTR|DLEC1_uc010hgx.1_5'Flank|DLEC1_uc003chq.1_Intron	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	678					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		AAGGAGACTGCCTTCTCCATC	0.542													20	39					0	0	0.010504	0	0		T	38136483	T	T	38136483	3	4	4	1	0	0	0	0	1	0	0	0	4558	739	26	2	2083	2	DLEC1	3	38136483	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	74722	38136483	159885947	763	2729											
SLC22A14	9389	broad.mit.edu	37	chr3	38354921	38354921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgactcgggcctctgtcctgGacttctgtaagaataggcag	8	11	12	10	1	2	2	0	1	2	1	4	3	3	3	2	3	0	2	2	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:38354921G>A	uc010hhc.1	+	7	1150	c.1108G>A	c.(1108-1110)GAC>AAC	p.D370N	SLC22A14_uc003cib.2_Missense_Mutation_p.D370N|SLC22A14_uc011ayo.1_RNA	NM_004803	NP_004794	Q9Y267	S22AE_HUMAN	organic cation transporter like 4	370	Cytoplasmic (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0554)|Kidney(284;0.0696)		CTCTGTCCTGGACTTCTGTAA	0.592													16	62					0	0	0.007413	0	0		A	38354921	A	A	38354921	3	1	4	1	0	0	0	0	1	0	0	0	14470	1174	41	4	1130	4	SLC22A14	3	38354921	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	218438	38354921	159667509	764	2730											
EXOG	9941	broad.mit.edu	37	chr3	38565787	38565787	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattactttatgagtcgctaTgagaagaagctagaagaact	15	11	10	5	1	0	5	0	2	0	4	1	7	0	5	0	0	3	2	0	0	8	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:38565787T>C	uc003cih.2	+	6	1137	c.1041T>C	c.(1039-1041)TAT>TAC	p.Y347Y	EXOG_uc010hhg.2_RNA|EXOG_uc011ayq.1_Silent_p.Y297Y|EXOG_uc003cij.2_Silent_p.Y207Y|EXOG_uc010hhd.2_Silent_p.Y207Y|EXOG_uc010hhe.2_Silent_p.Y207Y|EXOG_uc003cik.2_Silent_p.Y207Y|EXOG_uc010hhf.2_Silent_p.Y207Y|EXOG_uc003cii.2_Silent_p.Y207Y	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	347						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						TGAGTCGCTATGAGAAGAAGC	0.408													5	84					0	0	0.000602	0	0		C	38565787	C	C	38565787	2	2	4	1	0	0	0	0	0	0	0	1	5320	1471	51	3		3	EXOG	3	38565787	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	210866	38565787	159456643	765	2731											
CSRNP1	64651	broad.mit.edu	37	chr3	39186606	39186606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgacggcaagcactgtggCgaagggccatacccagagta	12	4	14	11	3	0	1	0	0	0	1	0	3	0	1	2	3	3	3	2	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:39186606C>T	uc003cjg.2	-	3	561	c.347G>A	c.(346-348)CGC>CAC	p.R116H	CSRNP1_uc003cjh.2_Missense_Mutation_p.R116H	NM_033027	NP_149016	Q96S65	CSRN1_HUMAN	AXIN1 up-regulated 1	116					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(4)|skin(1)	5						AGCACTGTGGCGAAGGGCCAT	0.607													11	23					0	0	0.00245	0	0		T	39186606	T	T	39186606	3	4	4	1	0	0	0	0	1	0	0	0	3966	768	27	1	1434	1	CSRNP1	3	39186606	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	620819	39186606	158835824	766	2732											
SLC25A38	54977	broad.mit.edu	37	chr3	39437962	39437962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctaatggcagcaatggCgtggacggtgtatgaagaga	13	8	14	6	2	1	2	0	1	1	1	1	4	1	3	0	4	2	3	0	4	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:39437962C>T	uc003cjo.2	+	7	1267	c.866C>T	c.(865-867)GCG>GTG	p.A289V		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	289	Solcar 3.|Helical; Name=6; (Potential).				erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		GCAGCAATGGCGTGGACGGTG	0.527													27	101					0	0	0.005443	0	0		T	39437962	T	T	39437962	3	4	4	1	0	0	0	0	1	0	0	0	14527	768	27	1	892	1	SLC25A38	3	39437962	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	251356	39437962	158584468	767	2733											
ENTPD3	956	broad.mit.edu	37	chr3	40456333	40456333	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggaaatttcctggaggTgtgtgcaaacaaatgcatgg	13	10	13	5	0	0	0	0	0	0	0	1	2	1	2	1	4	3	2	1	4	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:40456333T>C	uc003ckd.3	+	6	689	c.597_splice	c.e6+2	p.E199_splice	ENTPD3_uc010hhy.2_Splice_Site_p.E199_splice|uc003cke.3_Intron	NM_001248	NP_001239	O75355	ENTP3_HUMAN	ectonucleoside triphosphate diphosphohydrolase							integral to membrane	ATP binding|hydrolase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0605)|Kidney(284;0.0758)		TTCCTGGAGGTGTGTGCAAAC	0.433													64	107					0	0	0.00361	0	0		C	40456333	C	C	40456333	5	2	4	1	0	0	0	0	0	0	1	0	5148	1710	59	3	617	3	ENTPD3	3	40456333	Splice_Site	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1018371	40456333	157566097	768	2734											
ZNF620	253639	broad.mit.edu	37	chr3	40557940	40557940	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctatgaatgtaaggagtgCggcaaggccttcagtagcag	11	8	13	9	1	1	1	1	1	0	0	1	2	1	2	2	3	2	4	2	3	5	4	rs139782096	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:40557940C>T	uc003ckk.2	+	5	1004	c.855C>T	c.(853-855)TGC>TGT	p.C285C	ZNF620_uc003ckl.2_Silent_p.C171C	NM_175888	NP_787084	Q6ZNG0	ZN620_HUMAN	zinc finger protein 620	285	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		GTAAGGAGTGCGGCAAGGCCT	0.443													22	62					0	0	0.002299	0	0		T	40557940	T	T	40557940	2	4	4	1	0	0	0	0	0	0	0	1	18069	776	27	1		1	ZNF620	3	40557940	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	101607	40557940	157464490	769	2735											
TRAK1	22906	broad.mit.edu	37	chr3	42235319	42235319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttgccatgctttagtgcGcagtggaaaatgaagaactt	11	13	10	7	1	1	2	0	1	1	1	1	3	1	3	1	1	4	2	1	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:42235319G>A	uc003cky.2	+	9	1120	c.904G>A	c.(904-906)GCA>ACA	p.A302T	TRAK1_uc011azh.1_Missense_Mutation_p.A302T|TRAK1_uc011azi.1_Missense_Mutation_p.A302T|TRAK1_uc003ckz.3_Missense_Mutation_p.A228T|TRAK1_uc011azj.1_Missense_Mutation_p.A228T|TRAK1_uc003cla.2_Missense_Mutation_p.A244T	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	302	Potential.|HAP1 N-terminal.				endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						GCTTTAGTGCGCAGTGGAAAA	0.463													33	98					0	0	0.00623	0	0		A	42235319	A	A	42235319	3	1	4	1	0	0	0	0	1	0	0	0	16475	1087	38	1	1054	1	TRAK1	3	42235319	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1677379	42235319	155787111	770	2736											
TRAK1	22906	broad.mit.edu	37	chr3	42240734	42240734	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttggaagaggccgagtcTccagacatcacgtacggcca	11	6	12	12	3	2	2	1	0	1	2	3	4	2	3	3	3	1	2	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:42240734T>C	uc003cky.2	+	11	1395	c.1179T>C	c.(1177-1179)TCT>TCC	p.S393S	TRAK1_uc011azh.1_Silent_p.S393S|TRAK1_uc011azi.1_Silent_p.S393S|TRAK1_uc003ckz.3_Silent_p.S319S|TRAK1_uc011azj.1_Silent_p.S319S|TRAK1_uc003cla.2_Silent_p.S335S	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	393	Interaction with HGS.				endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						AGGCCGAGTCTCCAGACATCA	0.502													4	28					0	0	0.009096	0	0		C	42240734	C	C	42240734	2	2	4	1	0	0	0	0	0	0	0	1	16475	1538	54	3		3	TRAK1	3	42240734	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	5415	42240734	155781696	771	2737											
SNRK	54861	broad.mit.edu	37	chr3	43389129	43389129	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggacaagaaacccatgTccctctcaacacaagtggtt	14	7	9	11	0	1	1	1	0	1	1	3	3	2	3	2	3	2	1	2	3	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:43389129T>C	uc003cms.3	+	7	1710	c.1378T>C	c.(1378-1380)TCC>CCC	p.S460P	SNRK_uc003cmt.3_Missense_Mutation_p.S460P|SNRK_uc010hik.2_Missense_Mutation_p.S460P|SNRK_uc011azr.1_Missense_Mutation_p.S254P	NM_017719	NP_060189	Q9NRH2	SNRK_HUMAN	SNF related kinase	460					myeloid cell differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.0636)|Kidney(284;0.0792)		GAAACCCATGTCCCTCTCAAC	0.547													25	40					0	0	0.005443	0	0		C	43389129	C	C	43389129	3	2	4	1	0	0	0	0	1	0	0	0	14876	1667	58	3	1396	3	SNRK	3	43389129	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1148395	43389129	154633301	772	2738											
C3orf23	285343	broad.mit.edu	37	chr3	44441970	44441970	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaattacagccagtattgAcacttgaagaatattactct	16	12	6	7	0	1	4	0	2	1	2	1	4	1	4	1	0	3	1	1	0	8	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:44441970A>G	uc010him.2	+	9	1254	c.1009A>G	c.(1009-1011)ACA>GCA	p.T337A	C3orf23_uc003cnd.3_Missense_Mutation_p.T337A|C3orf23_uc003cne.3_Missense_Mutation_p.T193A	NM_173826	NP_776187	Q8N3R3	CC023_HUMAN	hypothetical protein LOC285343 isoform 1	337						mitochondrion				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(197;0.0468)|Kidney(197;0.0585)		GCCAGTATTGACACTTGAAGA	0.333													10	62					0	0	0.006214	0	0		G	44441970	G	G	44441970	3	3	4	1	0	0	0	0	1	0	0	0	2219	275	10	3	1091	3	C3orf23	3	44441970	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1052841	44441970	153580460	773	2739											
ZNF660	285349	broad.mit.edu	37	chr3	44635896	44635896	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctcacagtacatgagcgaAtccacacgggagagaaaccc	15	4	9	13	2	1	2	1	1	0	1	2	5	2	3	3	1	3	1	3	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:44635896A>T	uc003cnl.1	+	3	544	c.211A>T	c.(211-213)ATC>TTC	p.I71F		NM_173658	NP_775929	Q6AZW8	ZN660_HUMAN	zinc finger protein 660	71	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(197;0.0468)|Kidney(197;0.0585)		ACATGAGCGAATCCACACGGG	0.443													33	62					0	0	0.002445	0	0		T	44635896	T	T	44635896	3	4	4	1	0	0	0	0	1	0	0	0	18095	101	4	5	213	5	ZNF660	3	44635896	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	193926	44635896	153386534	774	2740											
KIF15	56992	broad.mit.edu	37	chr3	44846554	44846554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacctaaagctcagaaagagCcatgtttgtttgcaaacact	14	10	7	10	0	1	2	1	0	0	2	1	2	1	2	2	0	4	4	2	0	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:44846554C>T	uc003cnx.3	+	15	1872	c.1723C>T	c.(1723-1725)CCA>TCA	p.P575S	KIF15_uc010hiq.2_Missense_Mutation_p.P478S|KIF15_uc003cny.1_Missense_Mutation_p.P210S	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	575	Potential.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		TCAGAAAGAGCCATGTTTGTT	0.284													7	62					0	0	0.001984	0	0		T	44846554	T	T	44846554	3	4	4	1	0	0	0	0	1	0	0	0	8293	739	26	2	1781	2	KIF15	3	44846554	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	210658	44846554	153175876	775	2741											
EXOSC7	23016	broad.mit.edu	37	chr3	45030680	45030680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaggactaccgatgtgtcGaagtggaaactgatgtggtg	10	10	16	5	2	0	2	0	2	0	0	1	6	0	4	1	3	2	0	1	3	3	1	rs146138646		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:45030680G>A	uc003coi.2	+	2	135	c.106G>A	c.(106-108)GAA>AAA	p.E36K	EXOSC7_uc003coh.1_5'UTR|EXOSC7_uc011bae.1_Missense_Mutation_p.E36K|EXOSC7_uc010his.1_Intron|EXOSC7_uc003coj.2_Missense_Mutation_p.E36K	NM_015004	NP_055819	Q15024	EXOS7_HUMAN	exosome component 7	36					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	3'-5'-exoribonuclease activity|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00911)|KIRC - Kidney renal clear cell carcinoma(197;0.0509)|Kidney(197;0.064)		CCGATGTGTCGAAGTGGAAAC	0.527													6	26					0	0	0.001984	0	0		A	45030680	A	A	45030680	3	1	4	1	0	0	0	0	1	0	0	0	5327	1059	37	1	112	1	EXOSC7	3	45030680	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	184126	45030680	152991750	776	2742											
FYCO1	79443	broad.mit.edu	37	chr3	45965219	45965221	+	In_Frame_Del	DEL	CTC	-	-																															ttgagctggccctggatgttCtccttgtgggagttgcatcg																								rs148020105		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:45965219_45965221delCTC	uc003cpb.3	-	17	4494_4496	c.4288_4290delGAG	c.(4288-4290)GAGdel	p.E1430del	FYCO1_uc011bal.1_In_Frame_Del_p.E1450del	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	1430	GOLD.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		CCTGGATGTTCTCCTTGTGGGAG	0.581													36	83	---	---	---	---						.	-	45965221	-	-	45965219	7	5	4	1	0	1	0	1	0	0	0	0	6139	912	32	0	154	0	FYCO1	3	45965219	In_Frame_Del	DEL	CTC	TCGA-BR-4184-01A-01D-1126-08	934539	45965219	152057211	777	2743											
FYCO1	79443	broad.mit.edu	37	chr3	46008705	46008705	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgcagctgctgacactcGccctccttgctctgtagaat	6	11	8	16	2	1	2	0	1	1	1	4	2	3	2	3	0	3	5	3	0	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:46008705G>A	uc003cpb.3	-	8	2327	c.2121C>T	c.(2119-2121)GGC>GGT	p.G707G	FYCO1_uc011bal.1_Silent_p.G707G	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	707	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GCTGACACTCGCCCTCCTTGC	0.612													13	89					0	0	0.004007	0	0		A	46008705	A	A	46008705	2	1	4	1	0	0	0	0	0	0	0	1	6139	1074	38	1		1	FYCO1	3	46008705	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	43486	46008705	152013725	778	2744											
FYCO1	79443	broad.mit.edu	37	chr3	46009957	46009957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctaccaagcaagtgaggCgaacgttgtcctccgctgca	10	7	11	13	3	0	1	0	1	0	0	2	2	2	1	3	1	5	5	3	1	4	2	rs146311777	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:46009957C>T	uc003cpb.3	-	8	1075	c.869G>A	c.(868-870)CGC>CAC	p.R290H	FYCO1_uc011bal.1_Missense_Mutation_p.R290H	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	290					transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GCAAGTGAGGCGAACGTTGTC	0.622													17	43					0	0	0.008871	0	0		T	46009957	T	T	46009957	3	4	4	1	0	0	0	0	1	0	0	0	6139	768	27	1	3611	1	FYCO1	3	46009957	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1252	46009957	152012473	779	2745											
CCR5	1234	broad.mit.edu	37	chr3	46414590	46414590	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctgaagagcatgactgAcatctacctgctcaacctgg	12	8	10	11	0	2	4	1	3	1	1	2	4	2	4	2	2	4	3	2	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:46414590A>G	uc003cpo.3	+	3	319	c.197A>G	c.(196-198)GAC>GGC	p.D66G	CCR5_uc010hjd.2_Missense_Mutation_p.D66G	NM_001100168	NP_001093638	P51681	CCR5_HUMAN	chemokine (C-C motif) receptor 5	66	Cytoplasmic (Potential).				cell-cell signaling|cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|immune response|inflammatory response|initiation of viral infection	endosome|external side of plasma membrane|integral to plasma membrane	actin binding|C-C chemokine receptor activity|coreceptor activity|phosphatidylinositol phospholipase C activity			lung(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.00112)|KIRC - Kidney renal clear cell carcinoma(197;0.017)|Kidney(197;0.02)	Maraviroc(DB04835)	AGCATGACTGACATCTACCTG	0.502													36	125					0	0	0.005524	0	0		G	46414590	G	G	46414590	3	3	4	1	0	0	0	0	1	0	0	0	2947	275	10	3	199	3	CCR5	3	46414590	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	404633	46414590	151607840	780	2746											
MYL3	4634	broad.mit.edu	37	chr3	46904789	46904789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaactcgacctccttagggCgctcaggctcagggggaggt	8	7	14	12	2	2	0	2	0	0	0	4	2	3	1	2	5	1	2	2	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:46904789C>T	uc003cql.1	-	1	185	c.92G>A	c.(91-93)CGC>CAC	p.R31H		NM_000258	NP_000249	P08590	MYL3_HUMAN	slow skeletal ventricular myosin alkali light	31					cardiac muscle contraction|muscle filament sliding|positive regulation of ATPase activity|regulation of striated muscle contraction|regulation of the force of heart contraction|ventricular cardiac muscle tissue morphogenesis	A band|cytosol|I band|muscle myosin complex	actin monomer binding|calcium ion binding|myosin II heavy chain binding|structural constituent of muscle				0				BRCA - Breast invasive adenocarcinoma(193;0.00116)|KIRC - Kidney renal clear cell carcinoma(197;0.00557)|Kidney(197;0.0063)		CTCCTTAGGGCGCTCAGGCTC	0.607													7	104					0	0	0.001984	0	0		T	46904789	T	T	46904789	3	4	4	1	0	0	0	0	1	0	0	0	10066	768	27	1	519	1	MYL3	3	46904789	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	490199	46904789	151117641	781	2747											
PTPN23	25930	broad.mit.edu	37	chr3	47453616	47453616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccccagcaacttgctgcGcttcatccaggaggtgcacg	8	7	11	15	2	1	0	1	0	0	0	2	1	2	1	3	2	6	4	3	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:47453616G>A	uc003crf.1	+	22	4202	c.4106G>A	c.(4105-4107)CGC>CAC	p.R1369H	PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.R1239H|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1369	Tyrosine-protein phosphatase.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		AACTTGCTGCGCTTCATCCAG	0.632													6	31					0	0	0.000978	0	0		A	47453616	A	A	47453616	3	1	4	1	0	0	0	0	1	0	0	0	12813	1087	38	1	4192	1	PTPN23	3	47453616	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	548827	47453616	150568814	782	2748											
CSPG5	10675	broad.mit.edu	37	chr3	47604238	47604238	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcctggattttgtggggaGcactaggatcatcctggaag	8	11	13	9	0	1	0	1	0	0	0	3	4	3	4	3	5	1	1	3	5	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:47604238G>T	uc003crp.3	-	5	1729	c.1553C>A	c.(1552-1554)GCT>GAT	p.A518D	CSPG5_uc003crm.2_RNA|CSPG5_uc003crn.2_Missense_Mutation_p.A353D|CSPG5_uc003cro.3_Missense_Mutation_p.A491D|CSPG5_uc011bbb.1_Missense_Mutation_p.A380D	NM_006574	NP_006565	O95196	CSPG5_HUMAN	chondroitin sulfate proteoglycan 5 (neuroglycan	518	Cytoplasmic (Potential).				cell differentiation|intracellular transport|nervous system development|regulation of growth	endoplasmic reticulum membrane|Golgi-associated vesicle membrane|integral to plasma membrane|membrane fraction	growth factor activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000266)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		TTTGTGGGGAGCACTAGGATC	0.473													24	74					5.45024e-15	5.93198e-15	0.00333	1	0		T	47604238	T	T	47604238	3	4	4	1	0	0	0	0	1	0	0	0	3964	971	34	5	151	5	CSPG5	3	47604238	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	150622	47604238	150418192	783	2749											
SMARCC1	6599	broad.mit.edu	37	chr3	47712178	47712178	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agaagggtctcctgttcagtCcattctcttccagcactagc	8	12	8	13	0	3	1	1	0	2	1	7	1	5	1	3	1	2	2	3	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:47712178C>T	uc003crq.2	-	19	1987	c.1869G>A	c.(1867-1869)TGG>TGA	p.W623*	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Nonsense_Mutation_p.W514*	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	623	SANT.				chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		CCTGTTCAGTCCATTCTCTTC	0.353													18	60					0	0	0.002299	0	0		T	47712178	T	T	47712178	4	4	4	1	0	0	0	0	0	1	0	0	14800	856	30	4	1488	4	SMARCC1	3	47712178	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	107940	47712178	150310252	784	2750											
DHX30	22907	broad.mit.edu	37	chr3	47888355	47888355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccacaggggacaatgagcGcttctcccgatactttggtg	8	10	12	11	2	1	1	0	1	1	0	2	3	1	2	2	3	3	1	2	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:47888355G>A	uc003cru.2	+	11	2219	c.1793G>A	c.(1792-1794)CGC>CAC	p.R598H	DHX30_uc003crt.2_Missense_Mutation_p.R559H|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	598	Helicase ATP-binding.					mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		GACAATGAGCGCTTCTCCCGA	0.597													4	8					0	0	0.000602	0	0		A	47888355	A	A	47888355	3	1	4	1	0	0	0	0	1	0	0	0	4510	1087	38	1	1838	1	DHX30	3	47888355	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	176177	47888355	150134075	785	2751											
SPINK8	646424	broad.mit.edu	37	chr3	48369810	48369810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagctagaacaaggatggCgtctgagcagatccccttca	11	8	12	10	1	2	3	1	1	1	2	3	4	3	4	2	3	3	3	2	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:48369810C>T	uc003csq.1	-	1	22	c.22G>A	c.(22-24)GCC>ACC	p.A8T		NM_001080525	NP_001073994	P0C7L1	ISK8_HUMAN	serine peptidase inhibitor, Kazal type 8	8						extracellular region	serine-type endopeptidase inhibitor activity				0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		ACAAGGATGGCGTCTGAGCAG	0.418													11	36					0	0	0.001855	0	0		T	48369810	T	T	48369810	3	4	4	1	0	0	0	0	1	0	0	0	15090	768	27	1	291	1	SPINK8	3	48369810	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	481455	48369810	149652620	786	2752											
FBXW12	285231	broad.mit.edu	37	chr3	48423521	48423521	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaggaggccgccatccatAcctcaggagctgctgtcacc	10	6	11	14	1	2	1	2	0	0	1	3	3	3	3	5	3	3	2	5	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:48423521A>G	uc003csr.2	+	10	1427	c.1241A>G	c.(1240-1242)TAC>TGC	p.Y414C	FBXW12_uc010hjv.2_Missense_Mutation_p.Y395C|FBXW12_uc003css.2_Missense_Mutation_p.Y344C|FBXW12_uc010hjw.2_Missense_Mutation_p.Y313C	NM_207102	NP_996985	Q6X9E4	FBW12_HUMAN	F-box and WD repeat domain containing 12 isoform	414	WD 5.										0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CGCCATCCATACCTCAGGAGC	0.483													3	34					0	0	0.009096	0	0		G	48423521	G	G	48423521	3	3	4	1	0	0	0	0	1	0	0	0	5779	391	14	3	1312	3	FBXW12	3	48423521	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	53711	48423521	149598909	787	2753											
PLXNB1	5364	broad.mit.edu	37	chr3	48455097	48455097	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtacatgaggacaatgAtgatgacacccagagccaga	15	6	10	10	0	0	6	0	4	0	2	0	7	0	7	3	1	2	1	3	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:48455097A>G	uc003csw.2	-	23	4787	c.4517T>C	c.(4516-4518)ATC>ACC	p.I1506T	PLXNB1_uc003cst.2_5'UTR|PLXNB1_uc003csu.2_Missense_Mutation_p.I1323T|PLXNB1_uc003csx.2_Missense_Mutation_p.I1506T|PLXNB1_uc010hjx.1_RNA	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1506	Helical; (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GAGGACAATGATGATGACACC	0.413													7	13					0	0	0.001984	0	0		G	48455097	G	G	48455097	3	3	4	1	0	0	0	0	1	0	0	0	12142	333	12	3	1954	3	PLXNB1	3	48455097	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	31576	48455097	149567333	788	2754											
CELSR3	1951	broad.mit.edu	37	chr3	48678953	48678953	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggaggtcattgccatcCacatctgtggagccaggtca	10	8	12	11	0	3	0	2	0	1	0	4	3	4	2	3	4	2	0	3	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:48678953C>A	uc003cul.2	-	33	9110	c.8829G>T	c.(8827-8829)GTG>GTT	p.V2943V	CELSR3_uc003cuf.1_Silent_p.V3041V|CELSR3_uc010hkf.2_Silent_p.V233V|CELSR3_uc010hkg.2_Silent_p.V926V	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	2943	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CATTGCCATCCACATCTGTGG	0.602													7	13					0.000157383	0.0001649	0.00308	1	0		A	48678953	A	A	48678953	2	1	4	1	0	0	0	0	0	0	0	1	3226	581	21	5		5	CELSR3	3	48678953	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	223856	48678953	149343477	789	2755											
QRICH1	54870	broad.mit.edu	37	chr3	49095173	49095173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actgggactctgcagagacgGggtctgaatggagggggctg	8	7	19	7	1	2	2	0	1	2	1	2	5	2	4	0	6	1	2	0	6	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49095173G>A	uc010hkq.2	-	4	756	c.460C>T	c.(460-462)CCG>TCG	p.P154S	QRICH1_uc003cvu.2_Missense_Mutation_p.P154S|QRICH1_uc003cvv.2_Missense_Mutation_p.P154S	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	154	Gln-rich.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		TGCAGAGACGGGGTCTGAATG	0.617													6	58					0	0	0.001984	0	0		A	49095173	A	A	49095173	3	1	4	1	0	0	0	0	1	0	0	0	12904	1232	43	4	1902	4	QRICH1	3	49095173	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	416220	49095173	148927257	790	2756											
QRICH1	54870	broad.mit.edu	37	chr3	49114337	49114337	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aactcctgaagggcttctggCcccttagaggccagtgagtc	8	9	12	12	0	1	3	0	2	1	1	3	3	2	3	4	3	1	1	4	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49114337C>T	uc010hkq.2	-	3	410	c.114G>A	c.(112-114)GGG>GGA	p.G38G	QRICH1_uc003cvu.2_Silent_p.G38G|QRICH1_uc003cvv.2_Silent_p.G38G	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	38	CARD.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GGGCTTCTGGCCCCTTAGAGG	0.527													13	92					0	0	0.001368	0	0		T	49114337	T	T	49114337	2	4	4	1	0	0	0	0	0	0	0	1	12904	726	26	2		2	QRICH1	3	49114337	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	19164	49114337	148908093	791	2757											
USP19	10869	broad.mit.edu	37	chr3	49148537	49148537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacacaaactcctgcaagcGctcattgttccgccagacga	12	7	7	15	3	1	1	1	0	0	1	3	2	3	1	3	0	4	3	3	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49148537G>A	uc003cwd.1	-	22	3243	c.3082C>T	c.(3082-3084)CGC>TGC	p.R1028C	USP19_uc003cwa.2_Missense_Mutation_p.R836C|USP19_uc003cvz.3_Missense_Mutation_p.R1131C|USP19_uc011bcg.1_Missense_Mutation_p.R1119C|USP19_uc003cwb.2_Intron|USP19_uc003cwc.1_Missense_Mutation_p.R786C|USP19_uc011bch.1_Missense_Mutation_p.R1129C	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	1028	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TCCTGCAAGCGCTCATTGTTC	0.617													18	36					0	0	0.001882	0	0		A	49148537	A	A	49148537	3	1	4	1	0	0	0	0	1	0	0	0	17076	1087	38	1	894	1	USP19	3	49148537	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	34200	49148537	148873893	792	2758											
CCDC71	64925	broad.mit.edu	37	chr3	49200838	49200838	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagagccccctttcattcgCcggacactgggggacccagt	7	7	12	15	2	1	1	1	0	0	1	2	3	1	3	4	3	1	1	4	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49200838C>T	uc003cwg.3	-	2	942	c.804G>A	c.(802-804)CGG>CGA	p.R268R		NM_022903	NP_075054	Q8IV32	CCD71_HUMAN	coiled-coil domain containing 71	268										ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CTTTCATTCGCCGGACACTGG	0.637													10	41					0	0	0.001855	0	0		T	49200838	T	T	49200838	2	4	4	1	0	0	0	0	0	0	0	1	2847	726	26	2		2	CCDC71	3	49200838	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	52301	49200838	148821592	793	2759											
CCDC36	339834	broad.mit.edu	37	chr3	49292916	49292916	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccttgagatgaagaaaaGatttgaagctgtaagtgtaa	16	11	10	4	0	0	5	0	3	0	3	1	6	1	5	1	0	1	3	1	0	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49292916G>T	uc003cwk.2	+	9	1013	c.626G>T	c.(625-627)AGA>ATA	p.R209I	CCDC36_uc011bck.1_Missense_Mutation_p.R209I	NM_178173	NP_835467	Q8IYA8	CCD36_HUMAN	coiled-coil domain containing 36	209										ovary(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(193;9.11e-05)|Kidney(197;0.00248)|KIRC - Kidney renal clear cell carcinoma(197;0.00262)		ATGAAGAAAAGATTTGAAGCT	0.388													26	55					2.80507e-11	3.02588e-11	0.002445	1	0		T	49292916	T	T	49292916	3	4	4	1	0	0	0	0	1	0	0	0	2811	942	33	5	648	5	CCDC36	3	49292916	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	92078	49292916	148729514	794	2760											
USP4	7375	broad.mit.edu	37	chr3	49322015	49322015	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgctcacatgcttctcgtaGgcctatgggaatcaaagcac	11	10	9	11	1	3	0	2	0	1	0	4	1	3	1	1	2	3	4	1	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49322015G>T	uc003cwq.2	-	18	2353	c.2274C>A	c.(2272-2274)GCC>GCA	p.A758A	USP4_uc003cwo.2_Silent_p.A470A|USP4_uc003cwp.2_Silent_p.A488A|USP4_uc003cwr.2_Silent_p.A711A	NM_003363	NP_003354	Q13107	UBP4_HUMAN	ubiquitin specific protease 4 isoform a	758					negative regulation of protein ubiquitination|protein deubiquitination|protein localization at cell surface|regulation of protein stability|ubiquitin-dependent protein catabolic process	lysosome|nucleus	adenosine receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|urinary_tract(1)|lung(1)	4		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)		GCTTCTCGTAGGCCTATGGGA	0.502													30	119					1.36161e-19	1.49098e-19	0.004289	1	0		T	49322015	T	T	49322015	2	4	4	1	0	0	0	0	0	0	0	1	17097	987	35	5		5	USP4	3	49322015	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	29099	49322015	148700415	795	2761											
BSN	8927	broad.mit.edu	37	chr3	49694978	49694978	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgtgagggccatgagcagCgtgggcatccagaccatcag	10	6	14	11	1	1	3	1	2	0	1	2	3	2	3	3	2	2	2	3	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49694978C>T	uc003cxe.3	+	5	8103	c.7989C>T	c.(7987-7989)AGC>AGT	p.S2663S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2663					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CCATGAGCAGCGTGGGCATCC	0.622													4	24					0	0	0.006214	0	0		T	49694978	T	T	49694978	2	4	4	1	0	0	0	0	0	0	0	1	1533	767	27	1		1	BSN	3	49694978	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	372963	49694978	148327452	796	2762											
BSN	8927	broad.mit.edu	37	chr3	49699714	49699714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggagcgacttcaaaaagCgggccccaagccctcatccc	10	6	10	15	2	2	0	2	0	0	0	3	2	3	1	4	2	3	0	4	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49699714C>T	uc003cxe.3	+	6	10550	c.10436C>T	c.(10435-10437)GCG>GTG	p.A3479V		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	3479					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CTTCAAAAAGCGGGCCCCAAG	0.627													6	17					0	0	0.001168	0	0		T	49699714	T	T	49699714	3	4	4	1	0	0	0	0	1	0	0	0	1533	768	27	1	10458	1	BSN	3	49699714	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4736	49699714	148322716	797	2763											
IP6K1	9807	broad.mit.edu	37	chr3	49785329	49785329	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccgggagatgaggggctTgcacacagtgtgatcgtcgt	7	10	15	9	3	0	3	0	2	0	1	3	4	1	3	1	3	1	2	1	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49785329T>C	uc003cxm.1	-	2	460	c.145A>G	c.(145-147)AAG>GAG	p.K49E	IP6K1_uc003cxn.1_Intron|IP6K1_uc011bcv.1_Intron|IP6K1_uc003cxo.2_Missense_Mutation_p.K49E	NM_153273	NP_695005	Q92551	IP6K1_HUMAN	inositol hexakisphosphate kinase 1 isoform 1	49					phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						ATGAGGGGCTTGCACACAGTG	0.562													4	43					0	0	0.000602	0	0		C	49785329	C	C	49785329	3	2	4	1	0	0	0	0	1	0	0	0	7804	1821	63	3	1200	3	IP6K1	3	49785329	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	85615	49785329	148237101	798	2764											
MST1R	4486	broad.mit.edu	37	chr3	49935976	49935976	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagcttaggtgggcagtggTcctgttgccaggagccagga	8	9	16	8	0	0	0	0	0	0	0	1	2	1	2	3	5	3	3	3	5	2	3	rs144558604	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49935976T>A	uc003cxy.3	-	4	1958	c.1694A>T	c.(1693-1695)GAC>GTC	p.D565V	MST1R_uc011bdd.1_Missense_Mutation_p.D565V|MST1R_uc011bde.1_Missense_Mutation_p.D565V|MST1R_uc011bdf.1_Missense_Mutation_p.D459V|MST1R_uc011bdc.1_5'Flank	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	565	Extracellular (Potential).				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		TGGGCAGTGGTCCTGTTGCCA	0.602													15	38					0	0	0.00499	0	0		A	49935976	A	A	49935976	3	1	4	1	0	0	0	0	1	0	0	0	9909	1667	58	5	2576	5	MST1R	3	49935976	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	150647	49935976	148086454	799	2765											
RBM6	10180	broad.mit.edu	37	chr3	50005976	50005976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaagataagtcacagctttCtggacgtgaagagcagagtt	13	9	11	8	1	2	4	1	1	1	3	2	5	2	5	1	1	2	3	1	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:50005976C>T	uc003cyc.2	+	3	1251	c.1118C>T	c.(1117-1119)TCT>TTT	p.S373F	RBM6_uc011bdh.1_RNA|RBM6_uc010hlc.1_Intron|RBM6_uc003cyd.2_Intron|RBM6_uc003cye.2_Intron|RBM6_uc011bdi.1_Intron|RBM6_uc010hld.1_Intron|RBM6_uc010hle.1_Intron|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	373					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		TCACAGCTTTCTGGACGTGAA	0.473													5	79					0	0	0.000602	0	0		T	50005976	T	T	50005976	3	4	4	1	0	0	0	0	1	0	0	0	13169	913	32	4	1124	4	RBM6	3	50005976	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	70000	50005976	148016454	800	2766											
GNAT1	2779	broad.mit.edu	37	chr3	50231062	50231062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggcctgttttgagcgcGcctcggagtaccagctcaac	7	9	11	14	3	1	1	1	1	0	0	3	2	2	2	4	2	4	3	4	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:50231062G>A	uc003cym.2	+	4	531	c.415G>A	c.(415-417)GCC>ACC	p.A139T	GNAT1_uc003cyl.2_Missense_Mutation_p.A139T	NM_144499	NP_653082	P11488	GNAT1_HUMAN	rod-type transducin alpha subunit	139					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|negative regulation of cyclic-nucleotide phosphodiesterase activity|rhodopsin mediated phototransduction|sensory perception of umami taste	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	acyl binding|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GDP binding|GTP binding|GTPase activity|protein kinase binding|signal transducer activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		TTTTGAGCGCGCCTCGGAGTA	0.483													8	16					0	0	0.006214	0	0		A	50231062	A	A	50231062	3	1	4	1	0	0	0	0	1	0	0	0	6526	1087	38	1	429	1	GNAT1	3	50231062	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	225086	50231062	147791368	801	2767											
SEMA3B	7869	broad.mit.edu	37	chr3	50314079	50314079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaaagggccgtaaccggaGgacccacgcccctgagcctc	10	3	13	15	3	0	2	0	1	0	1	1	5	0	4	6	3	2	1	6	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:50314079G>A	uc003cyu.2	+	19	2434	c.2192G>A	c.(2191-2193)AGG>AAG	p.R731K	SEMA3B_uc003cyt.2_Missense_Mutation_p.R730K|SEMA3B_uc003cyv.2_Missense_Mutation_p.R618K|SEMA3B_uc003cyw.2_Missense_Mutation_p.R454K|SEMA3B_uc010hli.2_Missense_Mutation_p.R623K|SEMA3B_uc003cyx.2_Missense_Mutation_p.R617K|SEMA3B_uc003cyy.2_Missense_Mutation_p.R388K|SEMA3B_uc011bdo.1_Missense_Mutation_p.R388K|C3orf45_uc003cyz.2_5'Flank	NM_004636	NP_004627	Q13214	SEM3B_HUMAN	semaphorin 3B isoform 1 precursor	731	Arg-rich (basic).				axon guidance|cell-cell signaling	endoplasmic reticulum|extracellular region|membrane	receptor activity			lung(2)|central_nervous_system(2)|kidney(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		CGTAACCGGAGGACCCACGCC	0.721													3	7					0	0	0.009096	0	0		A	50314079	A	A	50314079	3	1	4	1	0	0	0	0	1	0	0	0	14050	1000	35	4	2257	4	SEMA3B	3	50314079	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	83017	50314079	147708351	802	2768											
MAPKAPK3	7867	broad.mit.edu	37	chr3	50679181	50679181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaggattcaggagcgtggcGaccaggctttcactgagaga	10	7	15	9	2	2	2	2	1	0	1	2	6	2	4	1	4	1	2	1	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:50679181G>A	uc003day.1	+	6	999	c.403G>A	c.(403-405)GAC>AAC	p.D135N	MAPKAPK3_uc003daz.1_Missense_Mutation_p.D135N|MAPKAPK3_uc003dba.1_Missense_Mutation_p.D135N|MAPKAPK3_uc010hlr.1_Missense_Mutation_p.D135N	NM_004635	NP_004626	Q16644	MAPK3_HUMAN	mitogen-activated protein kinase-activated	135	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.0188)|Kidney(197;0.0223)		GGAGCGTGGCGACCAGGCTTT	0.483													7	61					0	0	0.00308	0	0		A	50679181	A	A	50679181	3	1	4	1	0	0	0	0	1	0	0	0	9308	1058	37	1	413	1	MAPKAPK3	3	50679181	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	365102	50679181	147343249	803	2769											
DOCK3	1795	broad.mit.edu	37	chr3	51418570	51418570	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtccggcagtgccagcagCggcgtgtcctccttgagtga	5	9	14	13	3	0	2	0	2	0	0	3	2	3	2	4	2	3	2	4	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:51418570C>T	uc011bds.1	+	53	5696	c.5673C>T	c.(5671-5673)AGC>AGT	p.S1891S		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1891						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		GTGCCAGCAGCGGCGTGTCCT	0.622													11	34					0	0	0.00245	0	0		T	51418570	T	T	51418570	2	4	4	1	0	0	0	0	0	0	0	1	4694	767	27	1		1	DOCK3	3	51418570	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	739389	51418570	146603860	804	2770											
VPRBP	9730	broad.mit.edu	37	chr3	51475546	51475546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagacagctcaacaaacatgCgatctggatcagaagatgag	16	7	10	8	1	3	4	2	1	1	3	3	6	3	5	0	1	4	1	0	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:51475546C>T	uc003dbe.1	-	8	1049	c.881G>A	c.(880-882)CGC>CAC	p.R294H	VPRBP_uc003dbg.1_Missense_Mutation_p.R294H	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	294					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		AACAAACATGCGATCTGGATC	0.433													22	78					0	0	0.001882	0	0		T	51475546	T	T	51475546	3	4	4	1	0	0	0	0	1	0	0	0	17211	768	27	1	3551	1	VPRBP	3	51475546	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	56976	51475546	146546884	805	2771											
RAD54L2	23132	broad.mit.edu	37	chr3	51673538	51673538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggctctgcagggaccagtgCccgctgtccaccacagggaa	8	6	13	14	1	1	0	0	0	1	0	2	2	2	2	4	3	2	3	4	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:51673538C>T	uc011bdt.1	+	12	2089	c.1964C>T	c.(1963-1965)GCC>GTC	p.A655V	RAD54L2_uc003dbh.2_Missense_Mutation_p.A246V|RAD54L2_uc011bdu.1_Missense_Mutation_p.A349V|RAD54L2_uc003dbj.2_5'UTR	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	655						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		GGGACCAGTGCCCGCTGTCCA	0.557													6	48					0	0	0.00308	0	0		T	51673538	T	T	51673538	3	4	4	1	0	0	0	0	1	0	0	0	13019	739	26	2	2006	2	RAD54L2	3	51673538	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	197992	51673538	146348892	806	2772											
GRM2	2912	broad.mit.edu	37	chr3	51750038	51750038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctttatgccttcaagactcGcaagtgccccgaaaacttca	11	10	7	13	2	2	1	2	0	0	1	3	2	2	1	3	0	3	2	3	0	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:51750038G>A	uc010hlv.2	+	4	2488	c.2249G>A	c.(2248-2250)CGC>CAC	p.R750H	GRM2_uc003dbo.3_Missense_Mutation_p.R132H|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	750	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	TTCAAGACTCGCAAGTGCCCC	0.547													18	53					0	0	0.007413	0	0		A	51750038	A	A	51750038	3	1	4	1	0	0	0	0	1	0	0	0	6813	1087	38	1	2259	1	GRM2	3	51750038	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	76500	51750038	146272392	807	2773											
PCBP4	57060	broad.mit.edu	37	chr3	51993937	51993937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gataacagcgcagatctggcGcacacacaggatgatggcat	13	6	12	10	2	1	2	0	1	1	1	1	4	1	3	0	3	2	3	0	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:51993937G>A	uc003dcd.1	-	6	886	c.490C>T	c.(490-492)CGC>TGC	p.R164C	PCBP4_uc003dcb.1_Missense_Mutation_p.R130C|PCBP4_uc003dcc.1_Missense_Mutation_p.R185C|PCBP4_uc003dce.1_Missense_Mutation_p.R164C|PCBP4_uc003dcf.1_Missense_Mutation_p.R164C|PCBP4_uc003dcg.1_Missense_Mutation_p.R130C|PCBP4_uc003dch.1_Missense_Mutation_p.R164C|PCBP4_uc003dci.1_Intron|PCBP4_uc003dcj.1_Missense_Mutation_p.R164C|PCBP4_uc003dck.1_Intron|PCBP4_uc003dcl.1_Missense_Mutation_p.R164C	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	164						cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CAGATCTGGCGCACACACAGG	0.642													7	56					0	0	0.004482	0	0		A	51993937	A	A	51993937	3	1	4	1	0	0	0	0	1	0	0	0	11522	1087	38	1	749	1	PCBP4	3	51993937	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	243899	51993937	146028493	808	2774											
PCBP4	57060	broad.mit.edu	37	chr3	51995032	51995032	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctaggcacctaccttcccGatgatgctgcccacttcctg	7	10	8	16	1	0	1	0	1	0	0	2	2	2	1	5	1	4	3	5	1	2	4	rs138501114		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:51995032G>A	uc003dcd.1	-	2	495	c.99C>T	c.(97-99)ATC>ATT	p.I33I	PCBP4_uc003dcb.1_5'UTR|PCBP4_uc003dcc.1_5'UTR|PCBP4_uc003dce.1_Silent_p.I33I|PCBP4_uc003dcf.1_Silent_p.I33I|PCBP4_uc003dcg.1_5'UTR|PCBP4_uc003dch.1_Silent_p.I33I|PCBP4_uc003dci.1_5'UTR|PCBP4_uc003dcj.1_Silent_p.I33I|PCBP4_uc003dck.1_Silent_p.I33I|PCBP4_uc003dcl.1_Silent_p.I33I	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	33	KH 1.					cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CTACCTTCCCGATGATGCTGC	0.542													11	109					0	0	0.000978	0	0		A	51995032	A	A	51995032	2	1	4	1	0	0	0	0	0	0	0	1	11522	1048	37	1		1	PCBP4	3	51995032	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1095	51995032	146027398	809	2775											
ABHD14A	25864	broad.mit.edu	37	chr3	52014637	52014637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaggagcaattctgggCtgtgaaggtactgggagaag	11	7	15	8	0	1	2	0	1	1	1	1	4	1	3	1	4	2	3	1	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52014637C>T	uc003dco.2	+	4	736	c.626C>T	c.(625-627)GCT>GTT	p.A209V	ABHD14B_uc003dcn.2_Intron|ACY1_uc011bea.1_Intron|ACY1_uc011beb.1_5'Flank|ACY1_uc003dcp.2_5'Flank|ACY1_uc003dcq.2_5'Flank	NM_015407	NP_056222	Q9BUJ0	ABHEA_HUMAN	abhydrolase domain containing 14A	209						cytoplasm|integral to membrane	hydrolase activity				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CAATTCTGGGCTGTGAAGGTA	0.567													13	50					0	0	0.001855	0	0		T	52014637	T	T	52014637	3	4	4	1	0	0	0	0	1	0	0	0	79	797	28	2	640	2	ABHD14A	3	52014637	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	19605	52014637	146007793	810	2776											
GLYCTK	132158	broad.mit.edu	37	chr3	52326603	52326603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggtgatgtaaaaagtatgGcccagttctacgggctgctg	11	10	13	7	1	1	1	0	1	1	0	1	1	1	1	1	3	2	5	1	3	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52326603G>A	uc003ddo.2	+	5	1129	c.1033G>A	c.(1033-1035)GCC>ACC	p.A345T	GLYCTK_uc003ddq.2_3'UTR|GLYCTK_uc003ddm.2_Intron|GLYCTK_uc003ddn.2_Intron|GLYCTK_uc003ddp.1_Intron|GLYCTK_uc003ddr.2_Missense_Mutation_p.A9T	NM_145262	NP_660305	Q8IVS8	GLCTK_HUMAN	glycerate kinase isoform 1	345					protein phosphorylation	Golgi apparatus|mitochondrion	ATP binding|glycerate kinase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;3.56e-05)|Kidney(197;0.00171)|KIRC - Kidney renal clear cell carcinoma(197;0.00194)|OV - Ovarian serous cystadenocarcinoma(275;0.235)		AAAAAGTATGGCCCAGTTCTA	0.612													8	29					0	0	0.006214	0	0		A	52326603	A	A	52326603	3	1	4	1	0	0	0	0	1	0	0	0	6497	1203	42	2	1047	2	GLYCTK	3	52326603	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	311966	52326603	145695827	811	2777											
DNAH1	25981	broad.mit.edu	37	chr3	52392637	52392637	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgagggggaggaggtacagTtgtgcttctccatctacccc	7	9	13	12	1	2	0	0	0	2	0	3	3	2	2	4	4	3	3	4	4	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52392637T>A	uc011bef.1	+	25	4411	c.4150T>A	c.(4150-4152)TTG>ATG	p.L1384M		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1384	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GGAGGTACAGTTGTGCTTCTC	0.597													3	12					0	0	0.009096	0	0		A	52392637	A	A	52392637	3	1	4	1	0	0	0	0	1	0	0	0	4603	1722	60	5	4244	5	DNAH1	3	52392637	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	66034	52392637	145629793	812	2778											
STAB1	23166	broad.mit.edu	37	chr3	52556909	52556909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catagtcagcctgggtgcccGcaagaacctctcagaacgct	10	7	10	14	2	2	2	2	0	1	2	3	2	2	2	3	1	4	2	3	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52556909G>A	uc003dej.2	+	62	6937	c.6863G>A	c.(6862-6864)CGC>CAC	p.R2288H	STAB1_uc003dek.1_Missense_Mutation_p.R303H|STAB1_uc003del.2_Missense_Mutation_p.R175H	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2288	Extracellular (Potential).|Link.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CTGGGTGCCCGCAAGAACCTC	0.617													4	48					0	0	0.009096	0	0		A	52556909	A	A	52556909	3	1	4	1	0	0	0	0	1	0	0	0	15262	1087	38	1	7109	1	STAB1	3	52556909	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	164272	52556909	145465521	813	2779											
ITIH3	3699	broad.mit.edu	37	chr3	52840399	52840399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccaggcacagtgctgcGccttattcaggatgcagtca	9	8	11	13	1	2	0	2	0	0	0	2	1	2	1	3	2	4	3	3	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52840399G>A	uc003dfv.2	+	18	2069	c.2033G>A	c.(2032-2034)CGC>CAC	p.R678H	ITIH3_uc011bek.1_Intron	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	678					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		ACAGTGCTGCGCCTTATTCAG	0.612													12	29					0	0	0.001368	0	0		A	52840399	A	A	52840399	3	1	4	1	0	0	0	0	1	0	0	0	7921	1087	38	1	2103	1	ITIH3	3	52840399	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	283490	52840399	145182031	814	2780											
ITIH4	3700	broad.mit.edu	37	chr3	52860646	52860646	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagaaagctgatgccctgggGctcgaagatgtgaatgtcca	11	8	13	9	1	0	4	0	2	0	2	2	5	1	4	2	2	2	2	2	2	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52860646G>A	uc003dfz.2	-	5	577	c.541C>T	c.(541-543)CCC>TCC	p.P181S	ITIH4_uc011bel.1_5'Flank|ITIH4_uc003dfy.2_Missense_Mutation_p.P57S|ITIH4_uc011bem.1_Missense_Mutation_p.P181S|ITIH4_uc011ben.1_Missense_Mutation_p.P181S	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	181					acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		ATGCCCTGGGGCTCGAAGATG	0.597													4	51					0	0	0.009096	0	0		A	52860646	A	A	52860646	3	1	4	1	0	0	0	0	1	0	0	0	7922	1203	42	2	2331	2	ITIH4	3	52860646	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	20247	52860646	145161784	815	2781											
SFMBT1	51460	broad.mit.edu	37	chr3	52966139	52966139	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacgtgatgaagaaatggAtccaagtaatacaaccaatg	18	7	8	8	1	0	3	0	2	0	1	1	4	1	4	3	1	3	1	3	1	8	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52966139A>T	uc003dgf.2	-	7	1208	c.639T>A	c.(637-639)GAT>GAA	p.D213E	SFMBT1_uc010hmr.2_Missense_Mutation_p.D160E|SFMBT1_uc003dgg.2_Missense_Mutation_p.D213E|SFMBT1_uc003dgh.2_Missense_Mutation_p.D213E	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	213	MBT 2.				regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		GAAGAAATGGATCCAAGTAAT	0.408													7	63					0	0	0.001984	0	0		T	52966139	T	T	52966139	3	4	4	1	0	0	0	0	1	0	0	0	14182	330	12	5	2025	5	SFMBT1	3	52966139	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	105493	52966139	145056291	816	2782											
PRKCD	5580	broad.mit.edu	37	chr3	53222784	53222784	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccgggatggccacatcaaGattgccgactttgggatgtg	9	9	14	9	2	1	1	1	0	0	1	1	5	1	3	3	3	1	0	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:53222784G>T	uc003dgl.2	+	16	1817	c.1464G>T	c.(1462-1464)AAG>AAT	p.K488N	PRKCD_uc003dgm.2_Missense_Mutation_p.K488N	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta	488	Protein kinase.				activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)		GCCACATCAAGATTGCCGACT	0.562													16	48					8.00594e-06	8.4562e-06	0.007413	1	0		T	53222784	T	T	53222784	3	4	4	1	0	0	0	0	1	0	0	0	12531	933	33	5	1518	5	PRKCD	3	53222784	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	256645	53222784	144799646	817	2783											
CACNA1D	776	broad.mit.edu	37	chr3	53778828	53778828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggtcctgcgtcccctcaggGccatcaacagagcaaaagga	11	5	12	13	1	2	1	2	0	0	1	4	2	4	2	4	3	3	1	4	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:53778828G>A	uc003dgv.3	+	23	3143	c.2980G>A	c.(2980-2982)GCC>ACC	p.A994T	CACNA1D_uc003dgu.3_Missense_Mutation_p.A1014T|CACNA1D_uc003dgy.3_Missense_Mutation_p.A994T|CACNA1D_uc003dgw.3_Missense_Mutation_p.A661T|CACNA1D_uc003dgx.1_Missense_Mutation_p.A142T	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	994	Helical; Name=S4 of repeat III; (Potential).|III.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	TCCCCTCAGGGCCATCAACAG	0.547													10	37					0	0	0.008291	0	0		A	53778828	A	A	53778828	3	1	4	1	0	0	0	0	1	0	0	0	2544	1203	42	2	3242	2	CACNA1D	3	53778828	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	556044	53778828	144243602	818	2784											
IL17RB	55540	broad.mit.edu	37	chr3	53899038	53899038	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgacgtcaacagtgtgtgCgatggtacctgtggcaagag	11	9	14	7	2	1	2	1	1	0	1	1	3	1	2	1	2	3	2	1	2	4	1	rs3733078		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:53899038C>T	uc003dha.2	+	11	1251	c.1212C>T	c.(1210-1212)TGC>TGT	p.C404C		NM_018725	NP_061195	Q9NRM6	I17RB_HUMAN	interleukin 17B receptor precursor	404	SEFIR.|Cytoplasmic (Potential).				defense response|regulation of cell growth	extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)		ACAGTGTGTGCGATGGTACCT	0.502													14	33					0	0	0.006122	0	0		T	53899038	T	T	53899038	2	4	4	1	0	0	0	0	0	0	0	1	7656	776	27	1		1	IL17RB	3	53899038	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	120210	53899038	144123392	819	2785											
ACTR8	93973	broad.mit.edu	37	chr3	53905304	53905304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttatccaggcccagggCttttccttcaaacagcgaga	9	10	10	12	1	1	1	1	0	0	1	3	2	3	1	3	3	2	2	3	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:53905304C>T	uc003dhd.2	-	11	1581	c.1522G>A	c.(1522-1524)GCC>ACC	p.A508T	ACTR8_uc003dhb.2_Missense_Mutation_p.A213T|ACTR8_uc003dhc.2_Missense_Mutation_p.A397T	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	508					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		AGGCCCAGGGCTTTTCCTTCA	0.532													7	95					0	0	0.00308	0	0		T	53905304	T	T	53905304	3	4	4	1	0	0	0	0	1	0	0	0	217	797	28	2	364	2	ACTR8	3	53905304	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6266	53905304	144117126	820	2786											
CACNA2D3	55799	broad.mit.edu	37	chr3	54922046	54922046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgagtgcccccattgaagCgtattggaccagcctggccc	7	8	13	13	1	0	2	0	2	0	0	0	3	0	3	5	3	3	1	5	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:54922046C>T	uc003dhf.2	+	24	2165	c.2117C>T	c.(2116-2118)GCG>GTG	p.A706V	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Missense_Mutation_p.A612V|CACNA2D3_uc003dhh.1_RNA|uc003dhk.1_Intron	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	706	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		CCCATTGAAGCGTATTGGACC	0.502													5	70					0	0	0.001984	0	0		T	54922046	T	T	54922046	3	4	4	1	0	0	0	0	1	0	0	0	2553	768	27	1	2211	1	CACNA2D3	3	54922046	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1016742	54922046	143100384	821	2787											
LRTM1	57408	broad.mit.edu	37	chr3	54952504	54952504	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaggctggtgagctgtcAaatcgctctttttcttccac	6	15	8	12	1	4	1	2	1	3	0	7	1	5	1	1	2	1	3	1	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:54952504A>G	uc003dhl.2	-	3	1154	c.1020T>C	c.(1018-1020)TTT>TTC	p.F340F	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	340	Cytoplasmic (Potential).					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		GTGAGCTGTCAAATCGCTCTT	0.502													52	189					0	0	0.00361	0	0		G	54952504	G	G	54952504	2	3	4	1	0	0	0	0	0	0	0	1	9062	127	5	3		3	LRTM1	3	54952504	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	30458	54952504	143069926	822	2788											
CACNA2D3	55799	broad.mit.edu	37	chr3	55038847	55038847	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaggaaagcagcgatggCgcccatggcctcctggatgt	11	6	13	11	2	0	0	0	0	0	0	1	3	1	2	3	4	3	1	3	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:55038847C>T	uc003dhf.2	+	32	2796	c.2748C>T	c.(2746-2748)GGC>GGT	p.G916G	CACNA2D3_uc003dhg.1_Silent_p.G822G|CACNA2D3_uc003dhh.1_RNA	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	916	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		GCAGCGATGGCGCCCATGGCC	0.453													27	51					0	0	0.00632	0	0		T	55038847	T	T	55038847	2	4	4	1	0	0	0	0	0	0	0	1	2553	755	27	1		1	CACNA2D3	3	55038847	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	86343	55038847	142983583	823	2789											
ERC2	26059	broad.mit.edu	37	chr3	55922476	55922476	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccggaggttggccaagtgCgcttctttttcggccaggga	6	11	14	10	3	1	0	0	0	1	0	3	2	2	2	3	5	1	2	3	5	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:55922476C>T	uc003dhr.1	-	14	2761	c.2505G>A	c.(2503-2505)GCG>GCA	p.A835A	ERC2_uc003dhq.1_RNA|ERC2_uc003dht.1_Silent_p.A314A	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	835	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		TGGCCAAGTGCGCTTCTTTTT	0.537													8	159					0	0	0.006214	0	0		T	55922476	T	T	55922476	2	4	4	1	0	0	0	0	0	0	0	1	5219	755	27	1		1	ERC2	3	55922476	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	883629	55922476	142099954	824	2790											
C3orf63	23272	broad.mit.edu	37	chr3	56675649	56675649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagatgcatcagaatggcGcgcatttgctagtgtttctg	9	12	12	8	2	2	2	1	0	1	2	2	3	2	2	0	1	2	4	0	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:56675649G>A	uc003did.3	-	15	2448	c.2347C>T	c.(2347-2349)CGC>TGC	p.R783C	C3orf63_uc003dic.3_Missense_Mutation_p.R387C|C3orf63_uc003die.3_Missense_Mutation_p.R783C	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	783										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		TCAGAATGGCGCGCATTTGCT	0.463													7	90					0	0	0.004482	0	0		A	56675649	A	A	56675649	3	1	4	1	0	0	0	0	1	0	0	0	2242	1087	38	1	2765	1	C3orf63	3	56675649	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	753173	56675649	141346781	825	2791											
IL17RD	54756	broad.mit.edu	37	chr3	57136541	57136541	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcacatcacagtgaagagCgtcgcgaatgccgatatgac	12	6	12	11	5	1	3	1	2	0	1	2	5	1	3	1	1	2	1	1	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:57136541C>T	uc003dil.2	-	10	1034	c.945G>A	c.(943-945)ACG>ACA	p.T315T	IL17RD_uc003dik.2_Silent_p.T291T|IL17RD_uc010hna.2_Silent_p.T171T|IL17RD_uc011bex.1_Silent_p.T171T	NM_017563	NP_060033	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D precursor	315	Helical; (Potential).					Golgi membrane|integral to membrane|plasma membrane	receptor activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)		CAGTGAAGAGCGTCGCGAATG	0.567													6	35					0	0	0.001168	0	0		T	57136541	T	T	57136541	2	4	4	1	0	0	0	0	0	0	0	1	7658	755	27	1		1	IL17RD	3	57136541	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	460892	57136541	140885889	826	2792											
APPL1	26060	broad.mit.edu	37	chr3	57293966	57293966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtttatgaaactatgcGccaaatcttagctgcccggg	9	13	10	9	2	1	1	0	1	1	0	1	1	1	1	2	1	4	3	2	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:57293966G>A	uc003dio.2	+	17	1724	c.1577G>A	c.(1576-1578)CGC>CAC	p.R526H	APPL1_uc010hnb.2_Missense_Mutation_p.R526H|APPL1_uc011bey.1_Missense_Mutation_p.R509H	NM_012096	NP_036228	Q9UKG1	DP13A_HUMAN	adaptor protein, phosphotyrosine interaction, PH	526	PID.				apoptosis|cell cycle|cell proliferation|insulin receptor signaling pathway|regulation of apoptosis|regulation of establishment of protein localization in plasma membrane|regulation of glucose import	cytosol|early endosome membrane|microsome|nucleus|vesicle membrane	protein kinase B binding			breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0124)|Kidney(284;0.0144)		GAAACTATGCGCCAAATCTTA	0.378													11	53					0	0	0.001368	0	0		A	57293966	A	A	57293966	3	1	4	1	0	0	0	0	1	0	0	0	817	1087	38	1	1643	1	APPL1	3	57293966	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	157425	57293966	140728464	827	2793											
SLMAP	7871	broad.mit.edu	37	chr3	57898261	57898261	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctctgagcgggacactgAcattgcttctttacaagaag	10	11	10	10	1	2	3	0	2	2	1	2	4	2	4	1	1	4	1	1	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:57898261A>G	uc003dje.1	+	18	2007	c.1802A>G	c.(1801-1803)GAC>GGC	p.D601G	SLMAP_uc003djd.1_Missense_Mutation_p.D584G|SLMAP_uc003djf.1_Missense_Mutation_p.D563G|SLMAP_uc003djg.1_Missense_Mutation_p.D195G|SLMAP_uc011bez.1_Missense_Mutation_p.D69G|SLMAP_uc011bfa.1_Missense_Mutation_p.D135G|SLMAP_uc003djh.2_Missense_Mutation_p.D94G|SLMAP_uc003dji.1_Missense_Mutation_p.D135G|SLMAP_uc011bfb.1_Missense_Mutation_p.D135G|SLMAP_uc011bfc.1_Missense_Mutation_p.D94G	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	601	Cytoplasmic (Potential).|Potential.				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)		CGGGACACTGACATTGCTTCT	0.453													4	87					0	0	0.001168	0	0		G	57898261	G	G	57898261	3	3	4	1	0	0	0	0	1	0	0	0	14774	275	10	3	1817	3	SLMAP	3	57898261	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	604295	57898261	140124169	828	2794											
FLNB	2317	broad.mit.edu	37	chr3	58129201	58129201	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctctgtgctccataggAgaggtccacatgccttctgg	6	12	11	12	0	3	1	0	0	3	1	6	2	5	1	3	3	2	1	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:58129201A>T	uc003djj.2	+	32	5451	c.5286A>T	c.(5284-5286)GGA>GGT	p.G1762G	FLNB_uc010hne.2_Silent_p.G1793G|FLNB_uc003djk.2_Silent_p.G1751G|FLNB_uc010hnf.2_Silent_p.G1738G|FLNB_uc003djl.2_Silent_p.G1582G|FLNB_uc003djm.2_Silent_p.G1569G	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1762	Filamin 16.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		GCTCCATAGGAGAGGTCCACA	0.547													10	36					0	0	0.008291	0	0		T	58129201	T	T	58129201	2	4	4	1	0	0	0	0	0	0	0	1	5948	318	11	5		5	FLNB	3	58129201	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	230940	58129201	139893229	829	2795											
FEZF2	55079	broad.mit.edu	37	chr3	62355881	62355881	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccctttgccgcaagtggcGcacgtgaaaggcttcttgtc	8	10	11	12	3	1	1	0	1	1	0	2	1	1	1	2	2	2	3	2	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:62355881G>A	uc003dlh.2	-	4	1464	c.1257C>T	c.(1255-1257)TGC>TGT	p.C419C	FEZF2_uc003dli.2_Silent_p.C419C	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	419	C2H2-type 6.				transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		CGCAAGTGGCGCACGTGAAAG	0.522													34	102					0	0	0.002522	0	0		A	62355881	A	A	62355881	2	1	4	1	0	0	0	0	0	0	0	1	5840	1079	38	1		1	FEZF2	3	62355881	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4226680	62355881	135666549	830	2796											
FEZF2	55079	broad.mit.edu	37	chr3	62355985	62355985	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttgtactgcttctcgcCgctgtgggtcagcttgtggt	4	15	12	10	2	2	0	1	0	1	0	3	0	2	0	1	2	3	4	1	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:62355985C>A	uc003dlh.2	-	4	1360	c.1153G>T	c.(1153-1155)GGC>TGC	p.G385C	FEZF2_uc003dli.2_Missense_Mutation_p.G385C	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	385					transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		TGCTTCTCGCCGCTGTGGGTC	0.507													29	87					1.88708e-17	2.06205e-17	0.008361	1	0		A	62355985	A	A	62355985	3	1	4	1	0	0	0	0	1	0	0	0	5840	652	23	5	230	5	FEZF2	3	62355985	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	104	62355985	135666445	831	2797											
THOC7	80145	broad.mit.edu	37	chr3	63825403	63825403	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattaattctccgatcatcTccagcaccatctccatcaat	12	12	3	14	1	5	1	2	0	3	1	8	2	5	1	4	0	1	1	4	0	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:63825403T>G	uc003dlt.3	-	2	197	c.66A>C	c.(64-66)GGA>GGC	p.G22G	C3orf49_uc003dls.3_Intron|THOC7_uc003dlu.3_Intron	NM_025075	NP_079351	Q6I9Y2	THOC7_HUMAN	Ngg1 interacting factor 3 like 1 binding protein	22					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	cytoplasm|THO complex part of transcription export complex	protein binding|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(55;0.000439)|Kidney(15;0.00194)|KIRC - Kidney renal clear cell carcinoma(15;0.00218)		TCCGATCATCTCCAGCACCAT	0.438													21	43					0	0	0.002299	0	0		G	63825403	G	G	63825403	2	3	4	1	0	0	0	0	0	0	0	1	15895	1538	54	5		5	THOC7	3	63825403	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1469418	63825403	134197027	832	2798											
ATXN7	6314	broad.mit.edu	37	chr3	63965619	63965619	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagctcatccagcaagccGcctttggccgttcctcccac	7	9	7	18	2	1	0	1	0	0	0	4	0	4	0	6	1	3	3	6	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:63965619G>A	uc003dlw.3	+	6	1081	c.528G>A	c.(526-528)CCG>CCA	p.P176P	ATXN7_uc003dlv.2_Silent_p.P176P|ATXN7_uc010hnv.2_Silent_p.P176P|ATXN7_uc010hnw.2_Silent_p.P31P|ATXN7_uc011bfn.1_Silent_p.P31P	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	176	Ser-rich.				cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		CCAGCAAGCCGCCTTTGGCCG	0.443													22	73					0	0	0.00278	0	0		A	63965619	A	A	63965619	2	1	4	1	0	0	0	0	0	0	0	1	1216	1074	38	1		1	ATXN7	3	63965619	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	140216	63965619	134056811	833	2799											
ATXN7	6314	broad.mit.edu	37	chr3	63975975	63975975	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggttatccagtgaggagggCgaaggcgatgacaaagaaga	14	5	16	6	3	0	4	0	2	0	2	1	7	1	5	1	4	0	1	1	4	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:63975975C>T	uc003dlw.3	+	10	2038	c.1485C>T	c.(1483-1485)GGC>GGT	p.G495G	ATXN7_uc003dlv.2_Silent_p.G495G|ATXN7_uc010hnv.2_Silent_p.G495G|ATXN7_uc011bfn.1_Silent_p.G350G	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	495					cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		GTGAGGAGGGCGAAGGCGATG	0.552													10	27					0	0	0.000978	0	0		T	63975975	T	T	63975975	2	4	4	1	0	0	0	0	0	0	0	1	1216	755	27	1		1	ATXN7	3	63975975	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10356	63975975	134046455	834	2800											
PRICKLE2	166336	broad.mit.edu	37	chr3	64084813	64084813	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggaagatttggggaggcCgtaggagctgtatttgtgca	8	12	17	4	1	0	1	0	0	0	1	0	4	0	4	1	5	2	4	1	5	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:64084813C>A	uc003dmf.2	-	8	3035	c.2449G>T	c.(2449-2451)GGC>TGC	p.G817C		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	817						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		TTGGGGAGGCCGTAGGAGCTG	0.502													15	58					6.72482e-11	7.24671e-11	0.003163	1	0		A	64084813	A	A	64084813	3	1	4	1	0	0	0	0	1	0	0	0	12509	652	23	5	89	5	PRICKLE2	3	64084813	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	108838	64084813	133937617	835	2801											
PRICKLE2	166336	broad.mit.edu	37	chr3	64084864	64084864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgtgacgtatcgcaggcGcgctggctgggggatgggtt	4	10	19	8	4	0	1	0	1	0	0	1	2	0	2	0	5	0	6	0	5	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:64084864G>A	uc003dmf.2	-	8	2984	c.2398C>T	c.(2398-2400)CGC>TGC	p.R800C		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	800						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		TATCGCAGGCGCGCTGGCTGG	0.557													5	43					0	0	0.000602	0	0		A	64084864	A	A	64084864	3	1	4	1	0	0	0	0	1	0	0	0	12509	1087	38	1	140	1	PRICKLE2	3	64084864	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	51	64084864	133937566	836	2802											
ADAMTS9	56999	broad.mit.edu	37	chr3	64641547	64641547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgggtctttatagatagagGctacctgcaaccgagataaa	13	11	10	7	1	1	3	0	0	1	3	1	4	1	3	2	2	3	2	2	2	7	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:64641547G>A	uc003dmg.2	-	5	1006	c.974C>T	c.(973-975)GCC>GTC	p.A325V	ADAMTS9_uc011bfo.1_Intron|ADAMTS9_uc003dmh.1_Missense_Mutation_p.A154V|ADAMTS9_uc003dmk.1_Missense_Mutation_p.A325V	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	325	Peptidase M12B.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		ATAGATAGAGGCTACCTGCAA	0.318													13	32					0	0	0.003163	0	0		A	64641547	A	A	64641547	3	1	4	1	0	0	0	0	1	0	0	0	273	1203	42	2	4973	2	ADAMTS9	3	64641547	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	556683	64641547	133380883	837	2803											
MAGI1	9223	broad.mit.edu	37	chr3	65415516	65415516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagaactatttgaagccaCgtccgctgggctgcttggcc	8	10	12	11	2	0	2	0	2	0	1	1	3	1	2	3	2	3	3	3	2	3	3	rs151058544	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:65415516C>T	uc003dmn.2	-	12	2372	c.1846G>A	c.(1846-1848)GTG>ATG	p.V616M	MAGI1_uc003dmm.2_Missense_Mutation_p.V616M|MAGI1_uc003dmo.2_Missense_Mutation_p.V616M|MAGI1_uc003dmp.2_Missense_Mutation_p.V616M|MAGI1_uc010hny.2_Missense_Mutation_p.V501M	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	616					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		TTTGAAGCCACGTCCGCTGGG	0.468													7	44					0	0	0.008291	0	0		T	65415516	T	T	65415516	3	4	4	1	0	0	0	0	1	0	0	0	9208	536	19	1	2824	1	MAGI1	3	65415516	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	773969	65415516	132606914	838	2804											
PDZRN3	23024	broad.mit.edu	37	chr3	73453360	73453360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaggacatcttagtgagggCcatgatatgttcaaaggtga	13	10	13	5	0	2	4	1	3	1	1	2	5	2	5	1	3	0	1	1	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:73453360C>T	uc003dpl.1	-	4	1201	c.1105G>A	c.(1105-1107)GCC>ACC	p.A369T	PDZRN3_uc011bgh.1_Missense_Mutation_p.A26T|PDZRN3_uc010hoe.1_Missense_Mutation_p.A67T|PDZRN3_uc011bgf.1_Missense_Mutation_p.A86T|PDZRN3_uc011bgg.1_Missense_Mutation_p.A89T	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	369							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		TTAGTGAGGGCCATGATATGT	0.498													8	67					0	0	0.006214	0	0		T	73453360	T	T	73453360	3	4	4	1	0	0	0	0	1	0	0	0	11728	739	26	2	2123	2	PDZRN3	3	73453360	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	8037844	73453360	124569070	839	2805											
CNTN3	5067	broad.mit.edu	37	chr3	74334502	74334502	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcgctaaaaggcccagcGccggcactgttgtaagcccg	8	6	14	13	4	0	0	0	0	0	0	0	0	0	0	3	3	2	4	3	3	3	3	rs142860919		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:74334502G>A	uc003dpm.1	-	19	2738	c.2658C>T	c.(2656-2658)GGC>GGT	p.G886G		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	886	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		AAGGCCCAGCGCCGGCACTGT	0.468													28	94					0	0	0.009535	0	0		A	74334502	A	A	74334502	2	1	4	1	0	0	0	0	0	0	0	1	3645	1074	38	1		1	CNTN3	3	74334502	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	881142	74334502	123687928	840	2806											
ROBO2	6092	broad.mit.edu	37	chr3	77666778	77666778	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacacctcctgttcgaggCgtggcttcttctcctgctat	5	13	8	15	2	2	0	0	0	2	0	5	1	3	0	4	2	2	3	4	2	2	4	rs143561771	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:77666778C>T	uc003dpy.3	+	22	4051	c.3408C>T	c.(3406-3408)GGC>GGT	p.G1136G	ROBO2_uc003dpz.2_Silent_p.G1140G|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Silent_p.G1140G|ROBO2_uc003dqa.2_Silent_p.G263G	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1136	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CTGTTCGAGGCGTGGCTTCTT	0.532													16	56					0	0	0.00333	0	0		T	77666778	T	T	77666778	2	4	4	1	0	0	0	0	0	0	0	1	13539	755	27	1		1	ROBO2	3	77666778	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3332276	77666778	120355652	841	2807											
ROBO2	6092	broad.mit.edu	37	chr3	77693990	77693990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcaggccaccagcgcaatgCcagcgaccttcttgacatag	11	6	10	14	2	1	1	0	1	1	0	1	2	1	1	4	1	4	2	4	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:77693990C>T	uc003dpy.3	+	25	4713	c.4070C>T	c.(4069-4071)GCC>GTC	p.A1357V	ROBO2_uc003dpz.2_Missense_Mutation_p.A1422V|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.A1361V	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1357	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CAGCGCAATGCCAGCGACCTT	0.488													18	50					0	0	0.010504	0	0		T	77693990	T	T	77693990	3	4	4	1	0	0	0	0	1	0	0	0	13539	739	26	2	4170	2	ROBO2	3	77693990	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	27212	77693990	120328440	842	2808											
CGGBP1	8545	broad.mit.edu	37	chr3	88104713	88104713	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctgacttaggtatggaGcctccattcttcacatggcg	7	13	11	10	1	3	1	1	1	2	0	4	2	4	2	2	4	1	1	2	4	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:88104713G>A	uc003dqs.2	-	4	926	c.414C>T	c.(412-414)GGC>GGT	p.G138G	CGGBP1_uc003dqt.2_Silent_p.G138G|CGGBP1_uc003dqu.2_Silent_p.G138G	NM_001008390	NP_001008391	Q9UFW8	CGBP1_HUMAN	CGG triplet repeat binding protein 1	138					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding				0		Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00359)|Lung(72;0.00677)		TAGGTATGGAGCCTCCATTCT	0.478													18	69					0	0	0.00499	0	0		A	88104713	A	A	88104713	2	1	4	1	0	0	0	0	0	0	0	1	3305	958	34	2		2	CGGBP1	3	88104713	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	10410723	88104713	109917717	843	2809											
EPHA3	2042	broad.mit.edu	37	chr3	89259600	89259600	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtactgcagtacagaaggCgaatggcttgtacccattgg	11	10	12	8	1	0	1	0	0	0	1	0	2	0	1	1	3	4	5	1	3	5	5	rs150099876	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:89259600C>T	uc003dqy.2	+	3	969	c.744C>T	c.(742-744)GGC>GGT	p.G248G	EPHA3_uc003dqx.1_Silent_p.G248G|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	248	Extracellular (Potential).|Cys-rich.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		GTACAGAAGGCGAATGGCTTG	0.478										TSP Lung(6;0.00050)			62	170					0	0	0.00361	0	0		T	89259600	T	T	89259600	2	4	4	1	0	0	0	0	0	0	0	1	5176	755	27	1		1	EPHA3	3	89259600	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1154887	89259600	108762830	844	2810											
NSUN3	63899	broad.mit.edu	37	chr3	93803031	93803031	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttttgaactggaaaaggAtttacatttgaagggctatc	12	14	9	6	0	0	2	0	2	0	0	2	4	1	4	1	3	2	1	1	3	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:93803031A>G	uc003drl.1	+	3	319	c.203A>G	c.(202-204)GAT>GGT	p.D68G		NM_022072	NP_071355	Q9H649	NSUN3_HUMAN	NOL1/NOP2/Sun domain family, member 3	68							methyltransferase activity			skin(1)	1						CTGGAAAAGGATTTACATTTG	0.413													28	61					0	0	0.002836	0	0		G	93803031	G	G	93803031	3	3	4	1	0	0	0	0	1	0	0	0	10698	333	12	3	213	3	NSUN3	3	93803031	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	4543431	93803031	104219399	845	2811											
EPHA6	285220	broad.mit.edu	37	chr3	96706649	96706649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcactgttcgtaacttggCcatgtttcctgataccattc	7	16	6	12	1	1	1	1	1	0	0	4	1	2	1	3	1	2	3	3	1	2	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:96706649C>T	uc010how.1	+	3	969	c.926C>T	c.(925-927)GCC>GTC	p.A309V	EPHA6_uc003drp.1_Missense_Mutation_p.A309V	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	214	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CGTAACTTGGCCATGTTTCCT	0.463													11	187					0	0	0.008291	0	0		T	96706649	T	T	96706649	3	4	4	1	0	0	0	0	1	0	0	0	5179	739	26	2	936	2	EPHA6	3	96706649	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2903618	96706649	101315781	846	2812											
MINA	84864	broad.mit.edu	37	chr3	97666220	97666220	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacagattgatcttgatcCggcagtactgtgaggacaat	11	11	10	9	1	2	4	1	3	1	1	3	5	3	5	1	2	1	2	1	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:97666220C>T	uc003drz.1	-	8	1640	c.1134G>A	c.(1132-1134)CCG>CCA	p.P378P	MINA_uc003dry.1_Silent_p.P49P|MINA_uc003dsa.1_Silent_p.P377P|MINA_uc003dsb.1_Silent_p.P378P|MINA_uc003dsc.1_Silent_p.P377P|MINA_uc010hpa.1_RNA	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	378					ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1						GATCTTGATCCGGCAGTACTG	0.463													7	98					0	0	0.00308	0	0		T	97666220	T	T	97666220	2	4	4	1	0	0	0	0	0	0	0	1	9604	639	23	1		1	MINA	3	97666220	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	959571	97666220	100356210	847	2813											
MINA	84864	broad.mit.edu	37	chr3	97686148	97686148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggcagacattcacatctcttCcatagtacatcccccggctg	9	10	7	15	1	2	1	1	0	1	1	5	1	4	1	3	2	1	3	3	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:97686148C>T	uc003drz.1	-	2	796	c.290G>A	c.(289-291)GGA>GAA	p.G97E	MINA_uc003dsa.1_Missense_Mutation_p.G97E|MINA_uc003dsb.1_Missense_Mutation_p.G97E|MINA_uc003dsc.1_Missense_Mutation_p.G97E|MINA_uc010hpa.1_RNA|MINA_uc010hpb.1_Intron	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	97					ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1						CACATCTCTTCCATAGTACAT	0.453													79	204					0	0	0.00361	0	0		T	97686148	T	T	97686148	3	4	4	1	0	0	0	0	1	0	0	0	9604	855	30	4	1143	4	MINA	3	97686148	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	19928	97686148	100336282	848	2814											
NIT2	56954	broad.mit.edu	37	chr3	100058029	100058029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggcagcaacgcaaggaGccaaaatagtttctttgccg	12	7	13	9	2	1	0	0	0	1	0	1	2	1	2	2	3	4	4	2	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:100058029G>A	uc003dtv.2	+	2	180	c.106G>A	c.(106-108)GCC>ACC	p.A36T	NIT2_uc011bha.1_Missense_Mutation_p.A36T	NM_020202	NP_064587	Q9NQR4	NIT2_HUMAN	nitrilase family, member 2	36	CN hydrolase.				nitrogen compound metabolic process		omega-amidase activity			ovary(1)	1						AACGCAAGGAGCCAAAATAGT	0.507													6	114					0	0	0.001168	0	0		A	100058029	A	A	100058029	3	1	4	1	0	0	0	0	1	0	0	0	10453	971	34	2	112	2	NIT2	3	100058029	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2371881	100058029	97964401	849	2815											
FAM55C	91775	broad.mit.edu	37	chr3	101520245	101520245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgctggctgccttgcaccGgcaggttcctgatgtgggcc	3	11	14	13	1	0	1	0	1	0	0	1	1	1	1	4	4	3	5	4	4	0	3	rs143859535		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:101520245G>A	uc003dvn.2	+	5	897	c.260G>A	c.(259-261)CGG>CAG	p.R87Q	FAM55C_uc010hpn.2_Missense_Mutation_p.R87Q	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	87						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						GCCTTGCACCGGCAGGTTCCT	0.552													21	46					0	0	0.002299	0	0		A	101520245	A	A	101520245	3	1	4	1	0	0	0	0	1	0	0	0	5600	1116	39	1	266	1	FAM55C	3	101520245	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1462216	101520245	96502185	850	2816											
ALCAM	214	broad.mit.edu	37	chr3	105243139	105243139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attttaatttttaggaaaagCccgatggctccccagtattt	11	15	7	8	1	0	0	0	0	0	0	1	2	1	1	3	2	1	2	3	2	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:105243139C>T	uc003dvx.2	+	3	721	c.181C>T	c.(181-183)CCC>TCC	p.P61S	ALCAM_uc003dvv.2_Missense_Mutation_p.P61S|ALCAM_uc003dvw.1_Missense_Mutation_p.P61S|ALCAM_uc003dvy.2_Missense_Mutation_p.P61S|ALCAM_uc011bhh.1_Missense_Mutation_p.P10S	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	61	Extracellular (Potential).|Ig-like V-type 1.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						ttaGGAAAAGCCCGATGGCTC	0.348													10	31					0	0	0.008291	0	0		T	105243139	T	T	105243139	3	4	4	1	0	0	0	0	1	0	0	0	487	739	26	2	191	2	ALCAM	3	105243139	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3722894	105243139	92779291	851	2817											
ALCAM	214	broad.mit.edu	37	chr3	105252485	105252485	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacagttatccagatggCaatatcacatggtacaggaa	16	8	10	7	0	1	2	1	0	0	2	2	4	2	3	1	3	1	3	1	3	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:105252485C>T	uc003dvx.2	+	5	1038	c.498C>T	c.(496-498)GGC>GGT	p.G166G	ALCAM_uc003dvw.1_Silent_p.G166G|ALCAM_uc003dvy.2_Silent_p.G166G|ALCAM_uc011bhh.1_Silent_p.G115G|ALCAM_uc010hpp.2_5'UTR	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	166	Extracellular (Potential).|Ig-like V-type 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						ATCCAGATGGCAATATCACAT	0.453													7	102					0	0	0.004482	0	0		T	105252485	T	T	105252485	2	4	4	1	0	0	0	0	0	0	0	1	487	697	25	2		2	ALCAM	3	105252485	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	9346	105252485	92769945	852	2818											
CBLB	868	broad.mit.edu	37	chr3	105400357	105400357	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagatcataatcagagggCgtcctgttgagtgaagaacc	14	8	12	7	1	2	6	2	2	0	4	3	6	3	6	2	1	1	1	2	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:105400357C>T	uc003dwc.2	-	16	2716	c.2394G>A	c.(2392-2394)ACG>ACA	p.T798T	CBLB_uc003dwa.2_Intron|CBLB_uc011bhi.1_Intron|CBLB_uc003dwd.1_Silent_p.T798T|CBLB_uc003dwe.1_3'UTR	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	798	Pro-rich.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						AATCAGAGGGCGTCCTGTTGA	0.438			Mis S		AML								7	66					0	0	0.001984	0	0		T	105400357	T	T	105400357	2	4	4	1	0	0	0	0	0	0	0	1	2704	755	27	1		1	CBLB	3	105400357	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	147872	105400357	92622073	853	2819											
CBLB	868	broad.mit.edu	37	chr3	105404299	105404299	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaagagaatttgctaacGgaccagtacacctaccaggg	14	7	10	10	1	0	2	0	1	0	1	0	4	0	3	3	2	4	2	3	2	5	4	rs151321164	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:105404299G>T	uc003dwc.2	-	14	2388	c.2066C>A	c.(2065-2067)CCG>CAG	p.P689Q	CBLB_uc011bhi.1_Missense_Mutation_p.P711Q|CBLB_uc003dwd.1_Missense_Mutation_p.P689Q|CBLB_uc003dwe.1_Missense_Mutation_p.P689Q	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	689	Pro-rich.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						ATTTGCTAACGGACCAGTACA	0.388			Mis S		AML								6	43					0.00116845	0.00121571	0.001168	1	0		T	105404299	T	T	105404299	3	4	4	1	0	0	0	0	1	0	0	0	2704	1116	39	5	906	5	CBLB	3	105404299	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3942	105404299	92618131	854	2820											
HHLA2	11148	broad.mit.edu	37	chr3	108076864	108076864	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacaattatcaatgaatccCgattctcatggaacaaagag	17	10	6	8	1	2	2	2	1	1	1	4	4	3	3	1	1	2	0	1	1	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:108076864C>T	uc003dwy.3	+	6	1026	c.859C>T	c.(859-861)CGA>TGA	p.R287*	HHLA2_uc011bhl.1_Nonsense_Mutation_p.R223*|HHLA2_uc010hpu.2_Nonsense_Mutation_p.R287*|HHLA2_uc003dwz.2_Nonsense_Mutation_p.R287*	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	287	Ig-like V-type 2.					integral to membrane				ovary(1)	1						CAATGAATCCCGATTCTCATG	0.378													39	151					0	0	0.00874	0	0		T	108076864	T	T	108076864	4	4	4	1	0	0	0	0	0	1	0	0	7111	644	23	1	873	1	HHLA2	3	108076864	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2672565	108076864	89945566	855	2821											
KIAA1524	57650	broad.mit.edu	37	chr3	108276166	108276166	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatgctcaatatcactctgCgctctttctgattcaacttg	9	15	6	11	1	6	2	3	1	3	1	6	2	6	2	0	0	3	2	0	0	3	4	rs148609942		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:108276166C>T	uc003dxb.3	-	17	2378	c.2109G>A	c.(2107-2109)GCG>GCA	p.A703A		NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	703	Potential.					cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						TATCACTCTGCGCTCTTTCTG	0.408													7	62					0	0	0.001984	0	0		T	108276166	T	T	108276166	2	4	4	1	0	0	0	0	0	0	0	1	8255	755	27	1		1	KIAA1524	3	108276166	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	199302	108276166	89746264	856	2822											
DPPA2	151871	broad.mit.edu	37	chr3	109023460	109023460	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcatgaaactgcaggcgtAcccaaccctttgtgtctgcc	8	10	9	14	1	1	1	0	1	1	0	1	1	1	1	3	1	6	3	3	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:109023460A>G	uc003dxo.2	-	7	963	c.716T>C	c.(715-717)GTA>GCA	p.V239A		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	239						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						CTGCAGGCGTACCCAACCCTT	0.512													25	62					0	0	0.004656	0	0		G	109023460	G	G	109023460	3	3	4	1	0	0	0	0	1	0	0	0	4740	391	14	3	188	3	DPPA2	3	109023460	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	747294	109023460	88998970	857	2823											
PHLDB2	90102	broad.mit.edu	37	chr3	111632332	111632332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgaggaagccctcatgaGccctgacacaagatacaggt	12	8	11	10	0	1	4	1	3	0	1	1	5	1	5	2	2	3	1	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:111632332G>A	uc010hqa.2	+	3	1913	c.1502G>A	c.(1501-1503)AGC>AAC	p.S501N	PHLDB2_uc003dyc.2_Missense_Mutation_p.S528N|PHLDB2_uc003dyd.2_Missense_Mutation_p.S501N|PHLDB2_uc003dyg.2_Missense_Mutation_p.S501N|PHLDB2_uc003dyh.2_Missense_Mutation_p.S501N|PHLDB2_uc003dyi.2_Missense_Mutation_p.S87N|PHLDB2_uc003dyf.3_Missense_Mutation_p.S501N	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	501						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						GCCCTCATGAGCCCTGACACA	0.532													25	92					0	0	0.004656	0	0		A	111632332	A	A	111632332	3	1	4	1	0	0	0	0	1	0	0	0	11871	971	34	2	1593	2	PHLDB2	3	111632332	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2608872	111632332	86390098	858	2824											
TMPRSS7	344805	broad.mit.edu	37	chr3	111799801	111799801	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttgtcgaagaaaaagtgAtggaaaatggattttgactg	15	12	11	3	1	1	3	0	2	1	1	2	6	1	5	0	2	0	0	0	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:111799801A>G	uc010hqb.2	+	16	2194	c.2024A>G	c.(2023-2025)GAT>GGT	p.D675G	TMPRSS7_uc011bhr.1_Missense_Mutation_p.D530G	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	801	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						AGAAAAAGTGATGGAAAATGG	0.413													6	114					0	0	0.001168	0	0		G	111799801	G	G	111799801	3	3	4	1	0	0	0	0	1	0	0	0	16277	333	12	3	2082	3	TMPRSS7	3	111799801	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	167469	111799801	86222629	859	2825											
C3orf52	79669	broad.mit.edu	37	chr3	111828413	111828413	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagatgtgtacagtacatcGccctctctgggtcgttattt	8	14	9	10	2	1	1	0	0	1	1	4	1	1	1	1	1	2	3	1	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:111828413G>A	uc003dyq.3	+	4	493	c.420G>A	c.(418-420)TCG>TCA	p.S140S	C3orf52_uc011bhs.1_Intron|C3orf52_uc011bht.1_Intron|C3orf52_uc003dyr.1_5'Flank	NM_024616	NP_078892	Q5BVD1	TTMP_HUMAN	TPA-induced transmembrane protein	140						endoplasmic reticulum membrane|integral to membrane					0						ACAGTACATCGCCCTCTCTGG	0.408													11	20					0	0	0.003163	0	0		A	111828413	A	A	111828413	2	1	4	1	0	0	0	0	0	0	0	1	2235	1074	38	1		1	C3orf52	3	111828413	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	28612	111828413	86194017	860	2826											
CCDC80	151887	broad.mit.edu	37	chr3	112337891	112337891	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtactctttcctcagctcgCtgatgagacgctggtctacc	6	12	9	14	3	3	2	1	2	2	1	5	3	4	2	2	1	3	4	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:112337891C>A	uc003dzf.2	-	4	2314	c.2096G>T	c.(2095-2097)AGC>ATC	p.S699I	CCDC80_uc011bhv.1_Missense_Mutation_p.S699I|CCDC80_uc003dzg.2_Missense_Mutation_p.S699I|CCDC80_uc003dzh.1_Missense_Mutation_p.S699I	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	699										ovary(2)	2						CCTCAGCTCGCTGATGAGACG	0.423													4	55					0.00024832	0.000259867	0.009096	1	0		A	112337891	A	A	112337891	3	1	4	1	0	0	0	0	1	0	0	0	2857	797	28	5	776	5	CCDC80	3	112337891	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	509478	112337891	85684539	861	2827											
BOC	91653	broad.mit.edu	37	chr3	113005615	113005615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agactggtgtccccagcaccCcgtaggggcctacgtaggac	8	6	13	14	2	0	1	0	0	0	1	1	2	1	2	5	4	2	3	5	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113005615C>T	uc003dzx.2	+	20	3872	c.3251C>T	c.(3250-3252)CCC>CTC	p.P1084L	BOC_uc003dzy.2_Missense_Mutation_p.P1084L|BOC_uc003dzz.2_Missense_Mutation_p.P1085L|BOC_uc003eab.2_Missense_Mutation_p.P785L|BOC_uc003eac.2_Intron	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	1084	Cytoplasmic (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			CCCCAGCACCCCGTAGGGGCC	0.597													13	121					0	0	0.001855	0	0		T	113005615	T	T	113005615	3	4	4	1	0	0	0	0	1	0	0	0	1482	623	22	4	3321	4	BOC	3	113005615	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	667724	113005615	85016815	862	2828											
WDR52	55779	broad.mit.edu	37	chr3	113146042	113146042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aataatacctacctgtagtgCtttgcaaatcaccatactga	14	12	5	10	0	1	1	1	1	0	0	1	1	1	1	3	0	5	3	3	0	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113146042C>T	uc003eae.1	-	3	291	c.245G>A	c.(244-246)AGC>AAC	p.S82N		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	82										central_nervous_system(1)	1						ACCTGTAGTGCTTTGCAAATC	0.353													32	79					0	0	0.003271	0	0		T	113146042	T	T	113146042	3	4	4	1	0	0	0	0	1	0	0	0	17330	797	28	2	5466	2	WDR52	3	113146042	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	140427	113146042	84876388	863	2829											
KIAA2018	205717	broad.mit.edu	37	chr3	113377816	113377816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atctttggattttgctgcggCcattgcaaaatgttcacttg	8	16	9	8	1	2	0	1	0	1	0	2	1	2	1	1	2	3	3	1	2	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113377816C>T	uc003eam.2	-	7	3124	c.2713G>A	c.(2713-2715)GCC>ACC	p.A905T	KIAA2018_uc003eal.2_Missense_Mutation_p.A849T	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	905					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						TTTGCTGCGGCCATTGCAAAA	0.423													9	144					0	0	0.004482	0	0		T	113377816	T	T	113377816	3	4	4	1	0	0	0	0	1	0	0	0	8284	739	26	2	4028	2	KIAA2018	3	113377816	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	231774	113377816	84644614	864	2830											
ATP6V1A	523	broad.mit.edu	37	chr3	113503074	113503074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttagctgctgtttttagctgGtgtgtctgttggagatcctg	4	18	13	6	0	1	1	0	0	1	1	2	2	2	1	1	2	3	5	1	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113503074G>A	uc003eao.2	+	4	281	c.215G>A	c.(214-216)GGT>GAT	p.G72D	ATP6V1A_uc011bik.1_Missense_Mutation_p.G39D	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	72					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						TTTTTAGCTGGTGTGTCTGTT	0.423													11	47					0	0	0.004007	0	0		A	113503074	A	A	113503074	3	1	4	1	0	0	0	0	1	0	0	0	1178	1261	44	4	225	4	ATP6V1A	3	113503074	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	125258	113503074	84519356	865	2831											
ZDHHC23	254887	broad.mit.edu	37	chr3	113673204	113673204	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgcgaccagcccgggcatgGcactgccggatatgtggcat	7	7	15	12	3	0	0	0	0	0	0	0	2	0	1	3	4	3	3	3	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113673204G>A	uc003eau.2	+	3	1118	c.819G>A	c.(817-819)TGG>TGA	p.W273*	ZDHHC23_uc003eav.2_Nonsense_Mutation_p.W267*	NM_173570	NP_775841	Q8IYP9	ZDH23_HUMAN	zinc finger, DHHC domain containing 23	273	DHHC-type.					integral to membrane	acyltransferase activity|zinc ion binding			ovary(2)	2						CCCGGGCATGGCACTGCCGGA	0.522													4	19					0	0	0.000602	0	0		A	113673204	A	A	113673204	4	1	4	1	0	0	0	0	0	1	0	0	17639	1212	42	2	825	2	ZDHHC23	3	113673204	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	170130	113673204	84349226	866	2832											
DRD3	1814	broad.mit.edu	37	chr3	113850099	113850099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctaagctgagcttgggcGctatggtgggactcagggaa	8	10	15	8	1	2	1	1	1	1	0	2	3	2	3	0	4	2	3	0	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113850099G>A	uc003ebd.2	-	7	1295	c.872C>T	c.(871-873)GCG>GTG	p.A291V	DRD3_uc010hqn.1_Missense_Mutation_p.A291V|DRD3_uc003ebb.1_Intron|DRD3_uc003ebc.1_Missense_Mutation_p.A291V	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	291	Cytoplasmic.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	GAGCTTGGGCGCTATGGTGGG	0.542													32	125					0	0	0.00623	0	0		A	113850099	A	A	113850099	3	1	4	1	0	0	0	0	1	0	0	0	4764	1087	38	1	338	1	DRD3	3	113850099	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	176895	113850099	84172331	867	2833											
ZNF80	7634	broad.mit.edu	37	chr3	113955754	113955754	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctgtttttgttaaacacGctcccacattccttgcattt	8	16	6	11	1	0	0	0	0	0	0	2	0	2	0	2	1	2	5	2	1	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113955754G>A	uc010hqo.2	-	1	672	c.168C>T	c.(166-168)AGC>AGT	p.S56S	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	56	C2H2-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)				TGTTAAACACGCTCCCACATT	0.478													4	46					0	0	0.009096	0	0		A	113955754	A	A	113955754	2	1	4	1	0	0	0	0	0	0	0	1	18193	1078	38	1		1	ZNF80	3	113955754	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	105655	113955754	84066676	868	2834											
B4GALT4	8702	broad.mit.edu	37	chr3	118937520	118937520	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctgaggtcatcgtcttcGcctccccatccccagtagtt	6	12	8	15	2	3	1	1	1	2	0	7	1	5	1	5	1	0	2	5	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:118937520G>A	uc003ecg.2	-	6	1415	c.774C>T	c.(772-774)GGC>GGT	p.G258G	B4GALT4_uc003ece.1_Silent_p.G258G|B4GALT4_uc003ecf.2_Intron|B4GALT4_uc003ech.2_Silent_p.G258G|B4GALT4_uc003eci.2_Silent_p.G258G|B4GALT4_uc011biy.1_Intron	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	258	Lumenal (Potential).				membrane lipid metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding|N-acetyllactosamine synthase activity				0				GBM - Glioblastoma multiforme(114;0.222)	N-Acetyl-D-glucosamine(DB00141)	CATCGTCTTCGCCTCCCCATC	0.488													7	98					0	0	0.004482	0	0		A	118937520	A	A	118937520	2	1	4	1	0	0	0	0	0	0	0	1	1274	1074	38	1		1	B4GALT4	3	118937520	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4981766	118937520	79084910	869	2835											
C3orf1	51300	broad.mit.edu	37	chr3	119217590	119217590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagagaaggccatggaggtgCcgccaccggcaccgcggagc	9	2	17	13	4	0	1	0	0	0	1	0	5	0	3	5	5	2	1	5	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:119217590C>T	uc003ecn.2	+	1	223	c.10C>T	c.(10-12)CCG>TCG	p.P4S	C3orf1_uc003eco.2_RNA|C3orf1_uc003ecp.2_5'Flank	NM_016589	NP_057673	Q9NPL8	TIDC1_HUMAN	hypothetical protein LOC51300	4						integral to membrane|mitochondrial inner membrane	protein transporter activity				0				GBM - Glioblastoma multiforme(114;0.186)		CATGGAGGTGCCGCCACCGGC	0.592													5	70					0	0	0.000602	0	0		T	119217590	T	T	119217590	3	4	4	1	0	0	0	0	1	0	0	0	2209	739	26	2	12	2	C3orf1	3	119217590	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	280070	119217590	78804840	870	2836											
POPDC2	64091	broad.mit.edu	37	chr3	119379244	119379244	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaccctgcaagagaagctgGcccactctgctgctgttggc	8	8	12	13	0	1	1	0	0	1	1	1	3	1	1	2	2	5	5	2	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:119379244G>A	uc003ecx.1	-	1	161	c.27C>T	c.(25-27)GGC>GGT	p.G9G	POPDC2_uc010hqw.1_Silent_p.G9G|POPDC2_uc003ecy.1_Intron	NM_022135	NP_071418	Q9HBU9	POPD2_HUMAN	popeye protein 2	9						integral to membrane				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.242)		AGAGAAGCTGGCCCACTCTGC	0.527													4	33					0	0	0.000602	0	0		A	119379244	A	A	119379244	2	1	4	1	0	0	0	0	0	0	0	1	12274	1190	42	2		2	POPDC2	3	119379244	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	161654	119379244	78643186	871	2837											
C3orf15	89876	broad.mit.edu	37	chr3	119434422	119434422	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttagggcagaaccatacActtttcctcctacttctact	9	15	4	13	0	1	1	0	0	1	1	3	1	3	1	3	1	4	1	3	1	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:119434422A>G	uc003ede.3	+	6	591	c.514A>G	c.(514-516)ACT>GCT	p.T172A	C3orf15_uc003edc.2_Missense_Mutation_p.T172A|C3orf15_uc010hqy.1_Missense_Mutation_p.T172A|C3orf15_uc010hqz.2_Missense_Mutation_p.T110A|C3orf15_uc011bjd.1_Missense_Mutation_p.T46A|C3orf15_uc011bje.1_Missense_Mutation_p.T152A|C3orf15_uc010hra.1_5'UTR	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	172						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		AGAACCATACACTTTTCCTCC	0.368													50	131					0	0	0.00361	0	0		G	119434422	G	G	119434422	3	3	4	1	0	0	0	0	1	0	0	0	2212	159	6	3	536	3	C3orf15	3	119434422	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	55178	119434422	78588008	872	2838											
STXBP5L	9515	broad.mit.edu	37	chr3	120957879	120957879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcaccagttacatgcacaGcatactttgcagattgtcct	12	12	6	11	0	1	1	1	0	0	1	2	1	2	1	2	0	5	4	2	0	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:120957879G>A	uc003eec.3	+	13	1386	c.1246G>A	c.(1246-1248)GCA>ACA	p.A416T	STXBP5L_uc011bji.1_Missense_Mutation_p.A416T	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	416	WD 8.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		TACATGCACAGCATACTTTGC	0.318													4	50					0	0	0.009096	0	0		A	120957879	A	A	120957879	3	1	4	1	0	0	0	0	1	0	0	0	15382	971	34	2	1292	2	STXBP5L	3	120957879	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1523457	120957879	77064551	873	2839											
POLQ	10721	broad.mit.edu	37	chr3	121228903	121228903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taccttctgttccatcactgGcttctgtactctggatgaat	7	16	7	11	0	4	1	1	1	3	0	5	2	5	2	2	2	2	3	2	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:121228903G>A	uc003eee.3	-	11	1928	c.1799C>T	c.(1798-1800)GCC>GTC	p.A600V		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	600					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TCCATCACTGGCTTCTGTACT	0.413								DNA_polymerases_(catalytic_subunits)					9	74					0	0	0.004482	0	0		A	121228903	A	A	121228903	3	1	4	1	0	0	0	0	1	0	0	0	12227	1203	42	2	6053	2	POLQ	3	121228903	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	271024	121228903	76793527	874	2840											
GOLGB1	2804	broad.mit.edu	37	chr3	121414107	121414107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacctcttcacttagagagtCtttctcagacattaaagact	13	13	5	10	0	4	3	2	0	3	3	5	4	4	3	1	0	1	0	1	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:121414107C>T	uc003eei.3	-	13	5374	c.5248G>A	c.(5248-5250)GAC>AAC	p.D1750N	GOLGB1_uc010hrc.2_Missense_Mutation_p.D1755N|GOLGB1_uc003eej.3_Missense_Mutation_p.D1716N|GOLGB1_uc011bjm.1_Missense_Mutation_p.D1636N|GOLGB1_uc010hrd.1_Missense_Mutation_p.D1714N	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1750	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CTTAGAGAGTCTTTCTCAGAC	0.378													10	101					0	0	0.008291	0	0		T	121414107	T	T	121414107	3	4	4	1	0	0	0	0	1	0	0	0	6580	913	32	4	4571	4	GOLGB1	3	121414107	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	185204	121414107	76608323	875	2841											
GOLGB1	2804	broad.mit.edu	37	chr3	121417211	121417211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaggttgctaatttccttaGctttctcatctaaatttttc	8	21	4	8	0	2	0	1	0	2	0	5	0	3	0	1	1	2	3	1	1	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:121417211G>A	uc003eei.3	-	13	2270	c.2144C>T	c.(2143-2145)GCT>GTT	p.A715V	GOLGB1_uc010hrc.2_Missense_Mutation_p.A720V|GOLGB1_uc003eej.3_Missense_Mutation_p.A681V|GOLGB1_uc011bjm.1_Missense_Mutation_p.A601V|GOLGB1_uc010hrd.1_Missense_Mutation_p.A679V	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	715	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		AATTTCCTTAGCTTTCTCATC	0.363													18	45					0	0	0.007413	0	0		A	121417211	A	A	121417211	3	1	4	1	0	0	0	0	1	0	0	0	6580	971	34	2	7675	2	GOLGB1	3	121417211	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3104	121417211	76605219	876	2842											
CASR	846	broad.mit.edu	37	chr3	122002869	122002869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctttggcatcagcttcgtgCtctgcatctcatgcatcctg	5	14	8	14	1	3	0	2	0	2	0	6	0	4	0	2	1	4	5	2	1	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:122002869C>T	uc003eev.3	+	7	2440	c.2068C>T	c.(2068-2070)CTC>TTC	p.L690F	CASR_uc003eew.3_Missense_Mutation_p.L700F	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	690	Helical; Name=3; (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	CAGCTTCGTGCTCTGCATCTC	0.617													11	34					0	0	0.001368	0	0		T	122002869	T	T	122002869	3	4	4	1	0	0	0	0	1	0	0	0	2685	797	28	2	2120	2	CASR	3	122002869	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	585658	122002869	76019561	877	2843											
MYLK	4638	broad.mit.edu	37	chr3	123471267	123471267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgtcctcctcatggacaGcatgaatcacaaggctgaaa	12	8	8	13	0	2	2	2	2	0	0	4	3	4	3	3	2	1	2	3	2	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:123471267G>A	uc003ego.2	-	5	566	c.284C>T	c.(283-285)GCT>GTT	p.A95V	MYLK_uc011bjw.1_Missense_Mutation_p.A95V|MYLK_uc003egp.2_Missense_Mutation_p.A95V|MYLK_uc003egq.2_Missense_Mutation_p.A95V|MYLK_uc003egr.2_Missense_Mutation_p.A95V|MYLK_uc003egs.2_Intron|MYLK_uc010hrs.1_Missense_Mutation_p.A95V|MYLK_uc003egu.1_Missense_Mutation_p.A105V	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	95	Ig-like C2-type 1.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CTCATGGACAGCATGAATCAC	0.587													5	50					0	0	0.000602	0	0		A	123471267	A	A	123471267	3	1	4	1	0	0	0	0	1	0	0	0	10074	971	34	2	5580	2	MYLK	3	123471267	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1468398	123471267	74551163	878	2844											
CCDC14	64770	broad.mit.edu	37	chr3	123633803	123633803	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccatcacagacagtattGcctttcacttgaaggctgtt	10	13	7	11	0	2	2	2	1	0	1	2	2	2	2	2	1	2	3	2	1	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:123633803G>A	uc011bjx.1	-	13	2776	c.2685C>T	c.(2683-2685)GGC>GGT	p.G895G	CCDC14_uc003egv.3_Silent_p.G536G|CCDC14_uc003egx.3_Silent_p.G695G|CCDC14_uc010hrt.2_Silent_p.G854G|CCDC14_uc003egy.3_Silent_p.G695G|CCDC14_uc003egz.2_3'UTR	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	895						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		AGACAGTATTGCCTTTCACTT	0.458													7	76					0	0	0.001984	0	0		A	123633803	A	A	123633803	2	1	4	1	0	0	0	0	0	0	0	1	2776	1306	46	2		2	CCDC14	3	123633803	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	162536	123633803	74388627	879	2845											
CCDC37	348807	broad.mit.edu	37	chr3	126153218	126153218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaaaggagaaggagcggcGcatcaggtgagctctaggct	11	5	17	8	2	2	2	1	1	1	1	2	4	2	3	0	6	2	4	0	6	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:126153218G>A	uc003eiu.1	+	15	1721	c.1622G>A	c.(1621-1623)CGC>CAC	p.R541H	CCDC37_uc010hsg.1_Missense_Mutation_p.R542H	NM_182628	NP_872434	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37	541	Potential.									ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.166)		AAGGAGCGGCGCATCAGGTGA	0.622													4	14					0	0	0.000602	0	0		A	126153218	A	A	126153218	3	1	4	1	0	0	0	0	1	0	0	0	2812	1087	38	1	1676	1	CCDC37	3	126153218	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2519415	126153218	71869212	880	2846											
PLXNA1	5361	broad.mit.edu	37	chr3	126708525	126708525	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgcctgttcacgctcagGgccatcaaggagaagattaa	11	9	11	10	1	3	2	3	0	0	2	3	3	3	2	2	2	1	2	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:126708525G>A	uc003ejg.2	+	1	1024	c.1020G>A	c.(1018-1020)AGG>AGA	p.R340R		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	363	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TCACGCTCAGGGCCATCAAGG	0.597													6	71					0	0	0.006214	0	0		A	126708525	A	A	126708525	2	1	4	1	0	0	0	0	0	0	0	1	12138	1223	43	4		4	PLXNA1	3	126708525	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	555307	126708525	71313905	881	2847											
PLXNA1	5361	broad.mit.edu	37	chr3	126733356	126733356	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgaggcagggcggcacGcggctcactatcacaggcga	8	3	16	14	5	2	0	2	0	0	0	2	2	2	0	1	6	0	3	1	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:126733356G>A	uc003ejg.2	+	12	2575	c.2571G>A	c.(2569-2571)ACG>ACA	p.T857T		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	880	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		AGGGCGGCACGCGGCTCACTA	0.692													3	9					0	0	0.000602	0	0		A	126733356	A	A	126733356	2	1	4	1	0	0	0	0	0	0	0	1	12138	1074	38	1		1	PLXNA1	3	126733356	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	24831	126733356	71289074	882	2848											
PLXNA1	5361	broad.mit.edu	37	chr3	126733466	126733466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagagcgagtacatcagtgCggagcagtgagtgcagccct	10	6	16	9	2	1	2	1	1	0	1	1	5	1	3	1	2	6	3	1	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:126733466C>T	uc003ejg.2	+	12	2685	c.2681C>T	c.(2680-2682)GCG>GTG	p.A894V		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	917	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TACATCAGTGCGGAGCAGTGA	0.562													5	23					0	0	0.001984	0	0		T	126733466	T	T	126733466	3	4	4	1	0	0	0	0	1	0	0	0	12138	768	27	1	2796	1	PLXNA1	3	126733466	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	110	126733466	71288964	883	2849											
PLXNA1	5361	broad.mit.edu	37	chr3	126733645	126733645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctcaccacactaccgcGccctgtcacccaagcgcttc	8	7	6	20	3	2	0	2	0	0	0	3	0	2	0	4	0	3	2	4	0	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:126733645G>A	uc003ejg.2	+	13	2783	c.2779G>A	c.(2779-2781)GCC>ACC	p.A927T		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	950	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		ACACTACCGCGCCCTGTCACC	0.642													8	12					0	0	0.000978	0	0		A	126733645	A	A	126733645	3	1	4	1	0	0	0	0	1	0	0	0	12138	1087	38	1	2898	1	PLXNA1	3	126733645	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	179	126733645	71288785	884	2850											
MCM2	4171	broad.mit.edu	37	chr3	127323952	127323952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgcactcacgtcgacaGccacggccacaacgtcttca	9	6	8	18	5	3	0	2	0	1	0	4	1	3	0	3	1	3	1	3	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:127323952G>A	uc003ejp.2	+	4	683	c.626G>A	c.(625-627)AGC>AAC	p.S209N	MCM2_uc011bkm.1_Missense_Mutation_p.S79N|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.S93N	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	209	Interaction with MYST2 (By similarity).				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						CACGTCGACAGCCACGGCCAC	0.627													8	63					0	0	0.00308	0	0		A	127323952	A	A	127323952	3	1	4	1	0	0	0	0	1	0	0	0	9404	971	34	2	640	2	MCM2	3	127323952	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	590307	127323952	70698478	885	2851											
MCM2	4171	broad.mit.edu	37	chr3	127340010	127340010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagcaggtgacatatcagcGcaaccgctttggggcccagc	10	6	13	12	2	1	2	1	1	0	1	1	2	1	2	2	3	4	3	2	3	2	2	rs137990158		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:127340010G>A	uc003ejp.2	+	15	2600	c.2543G>A	c.(2542-2544)CGC>CAC	p.R848H	MCM2_uc011bkm.1_Missense_Mutation_p.R718H|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.R801H	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	848					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						ACATATCAGCGCAACCGCTTT	0.547													19	40					0	0	0.006122	0	0		A	127340010	A	A	127340010	3	1	4	1	0	0	0	0	1	0	0	0	9404	1087	38	1	2601	1	MCM2	3	127340010	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	16058	127340010	70682420	886	2852											
ABTB1	80325	broad.mit.edu	37	chr3	127396374	127396374	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccctgacatctgcttcCgagtggctggctgcagcttc	4	11	12	14	1	1	1	0	1	1	0	3	2	2	1	2	2	4	6	2	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:127396374C>T	uc003ejt.2	+	9	917	c.829C>T	c.(829-831)CGA>TGA	p.R277*	ABTB1_uc003ejr.2_Nonsense_Mutation_p.R135*|ABTB1_uc003ejs.2_Nonsense_Mutation_p.R252*|ABTB1_uc003eju.2_Nonsense_Mutation_p.R135*|ABTB1_uc010hsm.2_Intron	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	277	BTB 2.					cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						CATCTGCTTCCGAGTGGCTGG	0.632													11	27					0	0	0.000978	0	0		T	127396374	T	T	127396374	4	4	4	1	0	0	0	0	0	1	0	0	102	644	23	1	863	1	ABTB1	3	127396374	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	56364	127396374	70626056	887	2853											
KBTBD12	166348	broad.mit.edu	37	chr3	127646815	127646815	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctccccttccactgcaattgGcatgtcatgctgtagtgaca	8	12	8	13	0	1	1	1	1	0	0	3	1	3	1	3	1	2	4	3	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:127646815G>A	uc010hsr.2	+	2	1282	c.1279G>A	c.(1279-1281)GCA>ACA	p.A427T	KBTBD12_uc003ejy.3_Missense_Mutation_p.A34T|KBTBD12_uc010hsq.2_Intron|KBTBD12_uc003eka.3_Intron|KBTBD12_uc003ejz.2_Missense_Mutation_p.A427T	NM_207335	NP_997218	Q3ZCT8	KBTBC_HUMAN	kelch domain containing 6	427	Kelch 1.									ovary(1)	1						ACTGCAATTGGCATGTCATGC	0.383													26	54					0	0	0.004656	0	0		A	127646815	A	A	127646815	3	1	4	1	0	0	0	0	1	0	0	0	8007	1203	42	2	1285	2	KBTBD12	3	127646815	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	250441	127646815	70375615	888	2854											
COPG	22820	broad.mit.edu	37	chr3	128990627	128990627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagagcagttggcagcagtgCcagagttccgcggtcttggg	7	8	16	10	2	1	2	0	0	1	2	2	2	2	2	2	3	3	5	2	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:128990627C>T	uc003els.2	+	19	1961	c.1861C>T	c.(1861-1863)CCA>TCA	p.P621S	COPG_uc010htb.2_Missense_Mutation_p.P527S	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	621	Interaction with ZNF289/ARFGAP2.				COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						GGCAGCAGTGCCAGAGTTCCG	0.547													13	33					0	0	0.001368	0	0		T	128990627	T	T	128990627	3	4	4	1	0	0	0	0	1	0	0	0	3734	739	26	2	1935	2	COPG	3	128990627	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1343812	128990627	69031803	889	2855											
COPG	22820	broad.mit.edu	37	chr3	128991723	128991723	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accactggggagactgatgaCgaaggctatgaggatgagta	13	7	15	6	1	0	5	0	4	0	1	0	8	0	6	1	4	0	2	1	4	3	2	rs146536439		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:128991723C>T	uc003els.2	+	21	2332	c.2232C>T	c.(2230-2232)GAC>GAT	p.D744D	COPG_uc010htb.2_Silent_p.D650D	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	744	Interaction with ZNF289/ARFGAP2.				COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						AGACTGATGACGAAGGCTATG	0.512													5	56					0	0	0.001984	0	0		T	128991723	T	T	128991723	2	4	4	1	0	0	0	0	0	0	0	1	3734	535	19	1		1	COPG	3	128991723	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1096	128991723	69030707	890	2856											
IFT122	55764	broad.mit.edu	37	chr3	129238561	129238561	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acgcctccattaccatgtgcCcctcctgcttccaggtaggt	6	11	8	16	1	0	0	0	0	0	0	3	0	3	0	7	2	3	2	7	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:129238561C>A	uc003emm.2	+	29	3828	c.3622C>A	c.(3622-3624)CCC>ACC	p.P1208T	IFT122_uc003eml.2_Missense_Mutation_p.P1259T|IFT122_uc003emn.2_Missense_Mutation_p.P1149T|IFT122_uc003emo.2_Missense_Mutation_p.P1098T|IFT122_uc003emp.2_Missense_Mutation_p.P1058T|IFT122_uc010htc.2_Missense_Mutation_p.P1201T|IFT122_uc011bky.1_Missense_Mutation_p.P999T|IFT122_uc003emq.2_Missense_Mutation_p.P1048T|IFT122_uc003emr.2_Missense_Mutation_p.P961T|IFT122_uc011bla.1_Missense_Mutation_p.P982T|IFT122_uc010hte.2_Missense_Mutation_p.P534T|IFT122_uc003ems.2_Missense_Mutation_p.P590T	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	1208					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						TACCATGTGCCCCTCCTGCTT	0.617													29	65					1.99505e-19	2.18414e-19	0.002445	1	0		A	129238561	A	A	129238561	3	1	4	1	0	0	0	0	1	0	0	0	7571	623	22	5	3896	5	IFT122	3	129238561	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	246838	129238561	68783869	891	2857											
ATP2C1	27032	broad.mit.edu	37	chr3	130716497	130716497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcattcgtaaacctcctcGcaactggaaagacagcattt	12	11	7	11	2	1	1	1	0	0	1	4	2	2	2	2	1	3	3	2	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:130716497G>A	uc003enl.2	+	25	2513	c.2291G>A	c.(2290-2292)CGC>CAC	p.R764H	ATP2C1_uc011blg.1_Missense_Mutation_p.R798H|ATP2C1_uc011blh.1_Missense_Mutation_p.R759H|ATP2C1_uc011bli.1_Missense_Mutation_p.R798H|ATP2C1_uc003enk.2_Missense_Mutation_p.R748H|ATP2C1_uc003enm.2_Missense_Mutation_p.R764H|ATP2C1_uc003enn.2_Missense_Mutation_p.R748H|ATP2C1_uc003eno.2_Missense_Mutation_p.R764H|ATP2C1_uc003enp.2_Missense_Mutation_p.R764H|ATP2C1_uc003enq.2_Missense_Mutation_p.R764H|ATP2C1_uc003enr.2_Missense_Mutation_p.R764H|ATP2C1_uc003ens.2_Missense_Mutation_p.R764H|ATP2C1_uc003ent.2_Missense_Mutation_p.R764H|ATP2C1_uc003enu.2_Missense_Mutation_p.R442H	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	764	Cytoplasmic (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	AAACCTCCTCGCAACTGGAAA	0.343									Hailey-Hailey_disease				28	82					0	0	0.009535	0	0		A	130716497	A	A	130716497	3	1	4	1	0	0	0	0	1	0	0	0	1144	1087	38	1	2385	1	ATP2C1	3	130716497	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1477936	130716497	67305933	892	2858											
DNAJC13	23317	broad.mit.edu	37	chr3	132207227	132207227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agataacccacagttaccccGcctttatctgagtggagtat	11	11	8	11	1	1	2	0	1	1	1	1	3	1	3	4	1	2	2	4	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:132207227G>A	uc003eor.2	+	30	3418	c.3353G>A	c.(3352-3354)CGC>CAC	p.R1118H		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1118							heat shock protein binding			ovary(1)|breast(1)	2						CAGTTACCCCGCCTTTATCTG	0.373													5	76					0	0	0.001984	0	0		A	132207227	A	A	132207227	3	1	4	1	0	0	0	0	1	0	0	0	4638	1087	38	1	3467	1	DNAJC13	3	132207227	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1490730	132207227	65815203	893	2859											
NPHP3	27031	broad.mit.edu	37	chr3	132403466	132403466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggtgatcaggagctaatgCacgtctccgaatatctaaag	13	9	11	8	2	3	1	1	1	2	0	4	3	3	2	1	2	2	2	1	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:132403466C>T	uc003epe.1	-	24	3579	c.3502G>A	c.(3502-3504)GCA>ACA	p.A1168T	NPHP3_uc003eoz.1_Missense_Mutation_p.A47T|NPHP3_uc003epd.1_Missense_Mutation_p.A410T	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	1168	TPR 8.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						GGAGCTAATGCACGTCTCCGA	0.368													5	53					0	0	0.000602	0	0		T	132403466	T	T	132403466	3	4	4	1	0	0	0	0	1	0	0	0	10599	710	25	2	506	2	NPHP3	3	132403466	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	196239	132403466	65618964	894	2860											
NPHP3	27031	broad.mit.edu	37	chr3	132407734	132407734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctctgcaaaggtactatgGcctggggggaaaaggggtga	11	7	16	7	0	1	1	0	1	1	0	1	2	1	2	2	7	2	2	2	7	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:132407734G>A	uc003epe.1	-	21	2962	c.2885C>T	c.(2884-2886)GCC>GTC	p.A962V	NPHP3_uc003epd.1_Missense_Mutation_p.A204V	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	962	TPR 4.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						AGGTACTATGGCCTGGGGGGA	0.433													9	41					0	0	0.004482	0	0		A	132407734	A	A	132407734	3	1	4	1	0	0	0	0	1	0	0	0	10599	1217	42	2	1135	2	NPHP3	3	132407734	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4268	132407734	65614696	895	2861											
TOPBP1	11073	broad.mit.edu	37	chr3	133347516	133347516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caataacttctgagagtggcGtactcggtttccttttctgt	7	16	9	9	2	2	1	0	1	2	1	4	2	3	1	1	2	2	2	1	2	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:133347516G>A	uc003eps.2	-	15	2714	c.2582C>T	c.(2581-2583)ACG>ATG	p.T861M	TOPBP1_uc003ept.1_5'Flank	NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	861					DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						TGAGAGTGGCGTACTCGGTTT	0.418								Other_conserved_DNA_damage_response_genes					6	17					0	0	0.001168	0	0		A	133347516	A	A	133347516	3	1	4	1	0	0	0	0	1	0	0	0	16395	1145	40	1	2042	1	TOPBP1	3	133347516	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	939782	133347516	64674914	896	2862											
TOPBP1	11073	broad.mit.edu	37	chr3	133375669	133375669	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtctctgtatactcgtccGcccatcatttgtacatattt	8	16	6	11	2	2	0	1	0	1	0	5	0	3	0	2	1	2	2	2	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:133375669G>A	uc003eps.2	-	5	528	c.396C>T	c.(394-396)GGC>GGT	p.G132G		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	132	BRCT 1.				DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						ATACTCGTCCGCCCATCATTT	0.373								Other_conserved_DNA_damage_response_genes					31	255					0	0	0.003755	0	0		A	133375669	A	A	133375669	2	1	4	1	0	0	0	0	0	0	0	1	16395	1074	38	1		1	TOPBP1	3	133375669	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	28153	133375669	64646761	897	2863											
RAB6B	51560	broad.mit.edu	37	chr3	133557073	133557073	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacgctcagttctttggcGcgctgctccccctcctcgat	4	12	9	16	4	2	1	1	1	1	0	5	2	4	1	3	1	1	4	3	1	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:133557073G>A	uc003epy.2	-	6	813	c.432C>T	c.(430-432)CGC>CGT	p.R144R	RAB6B_uc011blu.1_Silent_p.R131R	NM_016577	NP_057661	Q9NRW1	RAB6B_HUMAN	RAB6B, member RAS oncogene family	144					protein transport|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|Golgi membrane	GTP binding|GTPase activity|protein binding			pancreas(1)	1						GTTCTTTGGCGCGCTGCTCCC	0.498													31	95					0	0	0.003271	0	0		A	133557073	A	A	133557073	2	1	4	1	0	0	0	0	0	0	0	1	12977	1074	38	1		1	RAB6B	3	133557073	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	181404	133557073	64465357	898	2864											
AMOTL2	51421	broad.mit.edu	37	chr3	134090186	134090186	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgctggatggctagcagCgtgcgcgtctcagtcaggtt	5	11	15	10	3	2	0	2	0	1	0	3	1	2	1	0	3	5	5	0	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:134090186C>T	uc003eqf.2	-	2	381	c.264G>A	c.(262-264)ACG>ACA	p.T88T	AMOTL2_uc003eqg.1_Silent_p.T30T|AMOTL2_uc003eqh.1_Silent_p.T30T	NM_016201	NP_057285	Q9Y2J4	AMOL2_HUMAN	angiomotin like 2	30										large_intestine(1)	1						TGGCTAGCAGCGTGCGCGTCT	0.657													6	10					0	0	0.00308	0	0		T	134090186	T	T	134090186	2	4	4	1	0	0	0	0	0	0	0	1	584	755	27	1		1	AMOTL2	3	134090186	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	533113	134090186	63932244	899	2865											
STAG1	10274	broad.mit.edu	37	chr3	136287655	136287655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgattaaatccagaagtgCgatgtccctgtcttgtttat	9	16	9	7	1	1	2	0	1	1	1	3	3	3	2	2	0	1	2	2	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:136287655C>T	uc003era.1	-	5	638	c.346G>A	c.(346-348)GCA>ACA	p.A116T	STAG1_uc003erb.1_Missense_Mutation_p.A116T|STAG1_uc003erc.1_5'UTR|STAG1_uc010hua.1_5'UTR|STAG1_uc003erd.2_Missense_Mutation_p.A19T|STAG1_uc003ere.2_Missense_Mutation_p.A116T	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	116					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						TCCAGAAGTGCGATGTCCCTG	0.348													5	41					0	0	0.001168	0	0		T	136287655	T	T	136287655	3	4	4	1	0	0	0	0	1	0	0	0	15267	768	27	1	3550	1	STAG1	3	136287655	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2197469	136287655	61734775	900	2866											
IL20RB	53833	broad.mit.edu	37	chr3	136677037	136677037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgcattgattccatgtttgCtcacaggtaagtatgaatta	12	14	8	7	1	1	2	1	2	0	0	2	2	2	2	1	1	1	5	1	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:136677037C>T	uc003eri.1	+	1	331	c.82C>T	c.(82-84)CTC>TTC	p.L28F	IL20RB_uc003erj.1_RNA	NM_144717	NP_653318	Q6UXL0	I20RB_HUMAN	interleukin 20 receptor beta precursor	28						integral to membrane	receptor activity			ovary(1)	1						TCCATGTTTGCTCACAGGTAA	0.383													5	97					0	0	0.001168	0	0		T	136677037	T	T	136677037	3	4	4	1	0	0	0	0	1	0	0	0	7685	797	28	2	84	2	IL20RB	3	136677037	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	389382	136677037	61345393	901	2867											
MRPS22	56945	broad.mit.edu	37	chr3	139074577	139074577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcacgtgctccatccagatgGccagtcggctcaaggggcca	8	7	12	14	2	2	1	2	0	0	1	5	1	4	1	4	4	1	2	4	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:139074577G>A	uc003etb.2	+	7	940	c.932G>A	c.(931-933)GGC>GAC	p.G311D	MRPS22_uc003etc.2_RNA|MRPS22_uc003etd.2_Missense_Mutation_p.G310D|MRPS22_uc003ete.2_Missense_Mutation_p.G270D	NM_020191	NP_064576	P82650	RT22_HUMAN	mitochondrial ribosomal protein S22	311						mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(2)|skin(1)	3						CATCCAGATGGCCAGTCGGCT	0.418													4	37					0	0	0.001168	0	0		A	139074577	A	A	139074577	3	1	4	1	0	0	0	0	1	0	0	0	9851	1203	42	2	958	2	MRPS22	3	139074577	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2397540	139074577	58947853	902	2868											
COPB2	9276	broad.mit.edu	37	chr3	139080062	139080062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccataatcctgtgcatgatGcaggcactcctgggctaggc	8	9	11	13	0	0	1	0	1	0	0	2	1	2	1	3	3	2	4	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:139080062G>A	uc003etf.3	-	17	2201	c.2071C>T	c.(2071-2073)CAT>TAT	p.H691Y	COPB2_uc011bmv.1_Missense_Mutation_p.H662Y|COPB2_uc010hui.2_Missense_Mutation_p.H662Y	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	691					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						TGTGCATGATGCAGGCACTCC	0.478													7	95					0	0	0.004482	0	0		A	139080062	A	A	139080062	3	1	4	1	0	0	0	0	1	0	0	0	3732	1319	46	2	673	2	COPB2	3	139080062	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5485	139080062	58942368	903	2869											
CLSTN2	64084	broad.mit.edu	37	chr3	140167437	140167437	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatccacctggagacgtgCgatggagccgtgtcttccct	7	9	12	13	3	1	1	0	0	1	1	3	4	3	2	4	2	3	1	4	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:140167437C>T	uc003etn.2	+	6	1054	c.864C>T	c.(862-864)TGC>TGT	p.C288C	CLSTN2_uc003etm.2_Silent_p.C288C	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	288	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						TGGAGACGTGCGATGGAGCCG	0.532										HNSCC(16;0.037)			10	106					0	0	0.008291	0	0		T	140167437	T	T	140167437	2	4	4	1	0	0	0	0	0	0	0	1	3565	776	27	1		1	CLSTN2	3	140167437	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1087375	140167437	57854993	904	2870											
TRIM42	287015	broad.mit.edu	37	chr3	140401502	140401502	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagcacgccgaggtcacCgagaacttcttcatcctcat	11	8	8	14	3	4	2	3	0	1	2	5	4	5	2	3	1	2	1	3	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:140401502C>T	uc003eto.1	+	2	731	c.540C>T	c.(538-540)ACC>ACT	p.T180T		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	180	RING-type.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						CCGAGGTCACCGAGAACTTCT	0.622													16	31					0	0	0.006122	0	0		T	140401502	T	T	140401502	2	4	4	1	0	0	0	0	0	0	0	1	16543	639	23	1		1	TRIM42	3	140401502	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	234065	140401502	57620928	905	2871											
RASA2	5922	broad.mit.edu	37	chr3	141231095	141231095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaccaggaagaagtttatcGtacccaagttgtggaaaaat	15	9	11	6	1	0	1	0	0	0	1	1	4	0	4	2	3	1	3	2	3	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:141231095G>A	uc003etz.1	+	2	224	c.224G>A	c.(223-225)CGT>CAT	p.R75H	RASA2_uc010huq.1_Missense_Mutation_p.R75H|RASA2_uc003eua.1_Missense_Mutation_p.R75H	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	75	C2 1.				intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity	p.R75H(1)		ovary(2)|lung(2)|breast(1)|skin(1)	6						GAAGTTTATCGTACCCAAGTT	0.308													25	70					0	0	0.004656	0	0		A	141231095	A	A	141231095	3	1	4	1	0	0	0	0	1	0	0	0	13086	1145	40	1	230	1	RASA2	3	141231095	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	829593	141231095	56791335	906	2872											
ATR	545	broad.mit.edu	37	chr3	142266699	142266699	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcagcaataattcattatgCaatccttggaaatcttgtct	12	14	6	9	1	3	0	1	0	2	0	4	1	4	1	1	1	2	3	1	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:142266699C>T	uc003eux.3	-	16	3347	c.3225G>A	c.(3223-3225)TTG>TTA	p.L1075L		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1075					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						ATTCATTATGCAATCCTTGGA	0.343								Other_conserved_DNA_damage_response_genes					5	71					0	0	0.001984	0	0		T	142266699	T	T	142266699	2	4	4	1	0	0	0	0	0	0	0	1	1205	709	25	2		2	ATR	3	142266699	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1035604	142266699	55755731	907	2873											
AGTR1	185	broad.mit.edu	37	chr3	148458931	148458931	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgattcctactttatacagtAtcatctttgtggtgggaata	10	17	8	6	0	2	1	1	1	1	0	3	2	3	2	1	2	2	1	1	2	6	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:148458931A>G	uc003ewg.2	+	4	555	c.109A>G	c.(109-111)ATC>GTC	p.I37V	AGTR1_uc003ewh.2_Missense_Mutation_p.I37V|AGTR1_uc003ewi.2_Missense_Mutation_p.I37V|AGTR1_uc003ewj.2_Missense_Mutation_p.I37V|AGTR1_uc003ewk.2_Missense_Mutation_p.I37V	NM_031850	NP_114038	P30556	AGTR1_HUMAN	angiotensin II receptor, type 1	37	Helical; Name=1; (Potential).				calcium-mediated signaling|cell chemotaxis|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|kidney development|low-density lipoprotein particle remodeling|positive regulation of cellular protein metabolic process|positive regulation of cholesterol esterification|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of phospholipase A2 activity|positive regulation of reactive oxygen species metabolic process|regulation of cell growth|regulation of cell proliferation|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|Rho protein signal transduction		acetyltransferase activator activity|angiotensin type I receptor activity|angiotensin type II receptor activity|bradykinin receptor binding|protein heterodimerization activity				0			LUSC - Lung squamous cell carcinoma(72;0.127)|Lung(72;0.152)		Candesartan(DB00796)|Eprosartan(DB00876)|Forasartan(DB01342)|Irbesartan(DB01029)|Losartan(DB00678)|Olmesartan(DB00275)|Saprisartan(DB01347)|Spironolactone(DB00421)|Tasosartan(DB01349)|Telmisartan(DB00966)|Valsartan(DB00177)	TTTATACAGTATCATCTTTGT	0.348													3	75					0	0	0.000602	0	0		G	148458931	G	G	148458931	3	3	4	1	0	0	0	0	1	0	0	0	401	449	16	3	111	3	AGTR1	3	148458931	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	6192232	148458931	49563499	908	2874											
CPB1	1360	broad.mit.edu	37	chr3	148558742	148558742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaaccacatttgagggaCgcgctatttacctcctgaag	10	10	10	11	3	0	2	0	2	0	0	2	4	1	4	3	2	2	1	3	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:148558742C>T	uc003ewl.2	+	5	477	c.454C>T	c.(454-456)CGC>TGC	p.R152C		NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein	152					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding	p.R152C(1)		ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			ATTTGAGGGACGCGCTATTTA	0.428													15	120					0	0	0.004007	0	0		T	148558742	T	T	148558742	3	4	4	1	0	0	0	0	1	0	0	0	3799	536	19	1	472	1	CPB1	3	148558742	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	99811	148558742	49463688	909	2875											
GYG1	2992	broad.mit.edu	37	chr3	148741973	148741973	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatccagagtttctcatcCtgtggtggaacatctttacc	8	14	7	12	0	3	1	2	0	2	1	6	2	5	2	3	2	2	1	3	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:148741973C>A	uc003ewn.2	+	6	795	c.742C>A	c.(742-744)CTG>ATG	p.L248M	GYG1_uc011bnp.1_3'UTR|GYG1_uc003ewo.2_Missense_Mutation_p.L248M|GYG1_uc003ewp.2_Intron	NM_004130	NP_004121	P46976	GLYG_HUMAN	glycogenin 1	248					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	glycogenin glucosyltransferase activity|metal ion binding|protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			GTTTCTCATCCTGTGGTGGAA	0.423													7	120					0.00307968	0.00319789	0.00308	1	0		A	148741973	A	A	148741973	3	1	4	1	0	0	0	0	1	0	0	0	6921	680	24	5	764	5	GYG1	3	148741973	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	183231	148741973	49280457	910	2876											
HLTF	6596	broad.mit.edu	37	chr3	148781227	148781227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatagtttaccttttggggCgggagctagacaattctgac	10	13	11	7	1	1	2	0	1	1	1	1	3	1	3	1	3	2	2	1	3	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:148781227C>T	uc003ewq.1	-	10	1369	c.1151G>A	c.(1150-1152)CGC>CAC	p.R384H	HLTF_uc003ewr.1_Missense_Mutation_p.R384H|HLTF_uc003ews.1_Missense_Mutation_p.R384H|HLTF_uc010hve.1_Missense_Mutation_p.R384H	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	384					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			CCTTTTGGGGCGGGAGCTAGA	0.308													13	70					0	0	0.003163	0	0		T	148781227	T	T	148781227	3	4	4	1	0	0	0	0	1	0	0	0	7231	768	27	1	1942	1	HLTF	3	148781227	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	39254	148781227	49241203	911	2877											
CP	1356	broad.mit.edu	37	chr3	148904520	148904520	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacatgaatccattcatggCtgtaaaagttgggaaataac	16	11	8	6	0	1	1	1	1	0	0	2	2	2	2	1	2	2	3	1	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:148904520C>T	uc003ewy.3	-	11	2118	c.1865_splice	c.e11-1	p.S622_splice	CP_uc011bnr.1_Intron|CP_uc003ewx.3_Splice_Site_p.S403_splice|CP_uc003ewz.2_Splice_Site_p.S622_splice|CP_uc010hvf.1_Intron	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor						cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	CCATTCATGGCTGTAAAAGTT	0.408													3	50					0	0	0.009096	0	0		T	148904520	T	T	148904520	5	4	4	1	0	0	0	0	0	0	1	0	3790	811	28	2	1369	2	CP	3	148904520	Splice_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	123293	148904520	49117910	912	2878											
PFN2	5217	broad.mit.edu	37	chr3	149684317	149684317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtattttgccattgagtatgCcttcttattcaatccgcctc	7	17	6	11	1	2	1	1	1	1	0	4	1	3	1	4	0	2	2	4	0	4	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:149684317C>T	uc003ext.1	-	3	480	c.382G>A	c.(382-384)GCA>ACA	p.A128T	PFN2_uc003exs.1_Intron|PFN2_uc003exu.1_Intron|PFN2_uc011bnu.1_Intron	NM_053024	NP_444252	P35080	PROF2_HUMAN	profilin 2 isoform a	128					actin cytoskeleton organization|regulation of actin polymerization or depolymerization	actin cytoskeleton|cytoplasm	actin binding|phosphatidylinositol-4,5-bisphosphate binding				0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			ATTGAGTATGCCTTCTTATTC	0.388													10	344					0	0	0.006214	0	0		T	149684317	T	T	149684317	3	4	4	1	0	0	0	0	1	0	0	0	11787	739	26	2	146	2	PFN2	3	149684317	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	779797	149684317	48338113	913	2879											
SIAH2	6478	broad.mit.edu	37	chr3	150460413	150460413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatgggcaggagtagggacGgtattcacatatgtcttcat	11	11	12	7	1	3	0	2	0	1	0	3	2	3	2	0	4	0	3	0	4	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:150460413G>A	uc003eyi.2	-	2	1117	c.490C>T	c.(490-492)CGT>TGT	p.R164C		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	164	SIAH-type.|SBD.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GAGTAGGGACGGTATTCACAT	0.532													6	55					0	0	0.00308	0	0		A	150460413	A	A	150460413	3	1	4	1	0	0	0	0	1	0	0	0	14325	1116	39	1	488	1	SIAH2	3	150460413	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	776096	150460413	47562017	914	2880											
MED12L	116931	broad.mit.edu	37	chr3	150877785	150877785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatcggggcccccagccctgGcccccccggccctggcatga	4	5	12	20	2	0	1	0	1	0	0	1	1	0	1	7	5	1	1	7	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:150877785G>A	uc003eyp.2	+	7	1042	c.1004G>A	c.(1003-1005)GGC>GAC	p.G335D	MED12L_uc011bnz.1_Intron|MED12L_uc003eyn.2_Missense_Mutation_p.G335D|MED12L_uc003eyo.2_Missense_Mutation_p.G335D	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	335					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CCCAGCCCTGGCCCCCCCGGC	0.582													5	68					0	0	0.000602	0	0		A	150877785	A	A	150877785	3	1	4	1	0	0	0	0	1	0	0	0	9447	1203	42	2	1030	2	MED12L	3	150877785	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	417372	150877785	47144645	915	2881											
IGSF10	285313	broad.mit.edu	37	chr3	151176330	151176330	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgcgttccacattgggCgggatgctgtctgggatgga	6	12	16	7	2	1	1	0	1	1	0	2	4	2	4	1	4	2	2	1	4	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:151176330C>T	uc011bod.1	-	1	168	c.168G>A	c.(166-168)CCG>CCA	p.P56P		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	56	LRRNT.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CCACATTGGGCGGGATGCTGT	0.537													11	29					0	0	0.001368	0	0		T	151176330	T	T	151176330	2	4	4	1	0	0	0	0	0	0	0	1	7613	755	27	1		1	IGSF10	3	151176330	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	298545	151176330	46846100	916	2882											
SGEF	26084	broad.mit.edu	37	chr3	153840497	153840497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggttttgagtacaaacaGccccgccgccctcaaagtgg	9	8	11	13	3	1	1	1	1	0	0	1	1	1	1	4	2	3	2	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:153840497G>A	uc011bog.1	+	2	927	c.716G>A	c.(715-717)AGC>AAC	p.S239N	uc003ezu.1_5'Flank|SGEF_uc011boh.1_Missense_Mutation_p.S239N	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	239					regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			AGTACAAACAGCCCCGCCGCC	0.512													3	6					0	0	0.000602	0	0		A	153840497	A	A	153840497	3	1	4	1	0	0	0	0	1	0	0	0	14230	971	34	2	718	2	SGEF	3	153840497	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2664167	153840497	44181933	917	2883											
SGEF	26084	broad.mit.edu	37	chr3	153935682	153935682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgactatgcaatgagggcGcccggaagatggaaaggact	12	7	14	8	3	0	2	0	1	0	1	1	6	0	5	1	4	1	1	1	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:153935682G>A	uc011bog.1	+	10	2081	c.1870G>A	c.(1870-1872)GCC>ACC	p.A624T	SGEF_uc011boh.1_Missense_Mutation_p.A624T	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	624					regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			CAATGAGGGCGCCCGGAAGAT	0.438													9	16					0	0	0.006214	0	0		A	153935682	A	A	153935682	3	1	4	1	0	0	0	0	1	0	0	0	14230	1087	38	1	1904	1	SGEF	3	153935682	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	95185	153935682	44086748	918	2884											
DHX36	170506	broad.mit.edu	37	chr3	154022736	154022736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcatggatttcatcaagtaCgatatgactaacactggaca	14	12	7	8	1	3	1	3	1	0	0	3	4	3	3	0	2	2	1	0	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:154022736C>T	uc003ezy.3	-	8	1075	c.994G>A	c.(994-996)GTA>ATA	p.V332I	DHX36_uc010hvq.2_Missense_Mutation_p.V332I|DHX36_uc003ezz.3_Missense_Mutation_p.V332I	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	332	Helicase ATP-binding.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TCATCAAGTACGATATGACTA	0.294													15	52					0	0	0.003163	0	0		T	154022736	T	T	154022736	3	4	4	1	0	0	0	0	1	0	0	0	4515	536	19	1	2104	1	DHX36	3	154022736	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	87054	154022736	43999694	919	2885											
GPR149	344758	broad.mit.edu	37	chr3	154055676	154055676	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaagagggagtatgaggCtgtttcccctaggtcacatg	12	9	12	8	0	1	2	1	1	0	1	2	3	2	3	2	3	0	3	2	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:154055676C>T	uc003faa.2	-	4	2108	c.2008G>A	c.(2008-2010)GCC>ACC	p.A670T		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	670	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			GAGTATGAGGCTGTTTCCCCT	0.438													40	138					0	0	0.006999	0	0		T	154055676	T	T	154055676	3	4	4	1	0	0	0	0	1	0	0	0	6669	797	28	2	191	2	GPR149	3	154055676	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	32940	154055676	43966754	920	2886											
PLCH1	23007	broad.mit.edu	37	chr3	155203197	155203197	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgtttcagatacaggcagCgacaaagctcccagaaggtt	12	8	11	10	1	1	2	1	0	0	2	2	3	2	2	1	2	3	5	1	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:155203197C>T	uc011bok.1	-	22	3223	c.2946G>A	c.(2944-2946)TCG>TCA	p.S982S	PLCH1_uc011boj.1_Silent_p.S982S|PLCH1_uc011bol.1_Silent_p.S944S	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	982					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			ATACAGGCAGCGACAAAGCTC	0.468													6	82					0	0	0.00308	0	0		T	155203197	T	T	155203197	2	4	4	1	0	0	0	0	0	0	0	1	12056	755	27	1		1	PLCH1	3	155203197	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1147521	155203197	42819233	921	2887											
PLCH1	23007	broad.mit.edu	37	chr3	155215148	155215148	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcggccacggagtttgtgtAcacaaccaaatcagagagtt	13	8	11	9	2	1	1	1	0	0	1	1	3	1	2	2	2	3	3	2	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:155215148A>G	uc011bok.1	-	14	2096	c.1819T>C	c.(1819-1821)TAC>CAC	p.Y607H	PLCH1_uc011boj.1_Missense_Mutation_p.Y607H|PLCH1_uc011bol.1_Missense_Mutation_p.Y589H	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	607	PI-PLC Y-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GAGTTTGTGTACACAACCAAA	0.453													6	88					0	0	0.001984	0	0		G	155215148	G	G	155215148	3	3	4	1	0	0	0	0	1	0	0	0	12056	391	14	3	3317	3	PLCH1	3	155215148	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	11951	155215148	42807282	922	2888											
GMPS	8833	broad.mit.edu	37	chr3	155639982	155639982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actcctacctttaggtcctgGcctggcaatcagagtaatat	10	12	8	11	0	1	1	1	0	0	1	3	1	3	1	4	3	1	2	4	3	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:155639982G>A	uc003faq.2	+	11	1660	c.1325G>A	c.(1324-1326)GGC>GAC	p.G442D	GMPS_uc011bom.1_Missense_Mutation_p.G343D	NM_003875	NP_003866	P49915	GUAA_HUMAN	guanine monophosphate synthetase	442					glutamine metabolic process|purine base biosynthetic process	cytosol	ATP binding|GMP synthase (glutamine-hydrolyzing) activity|GMP synthase activity			ovary(2)|lung(1)	3			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TTAGGTCCTGGCCTGGCAATC	0.259			T	MLL	AML								3	15					0	0	0.004672	0	0		A	155639982	A	A	155639982	3	1	4	1	0	0	0	0	1	0	0	0	6513	1203	42	2	1367	2	GMPS	3	155639982	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	424834	155639982	42382448	923	2889											
SSR3	6747	broad.mit.edu	37	chr3	156272757	156272757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcactcacagatggggatgGcagacacgatgaacgcgttt	12	7	13	9	3	1	3	1	1	0	2	1	5	1	4	0	3	2	3	0	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:156272757G>A	uc003fau.2	-	1	179	c.122C>T	c.(121-123)GCC>GTC	p.A41V	SSR3_uc011bop.1_Missense_Mutation_p.A41V	NM_007107	NP_009038	Q9UNL2	SSRG_HUMAN	signal sequence receptor gamma subunit	41	Helical; (Potential).				cotranslational protein targeting to membrane	integral to endoplasmic reticulum membrane|microsome|Sec61 translocon complex	protein binding|signal sequence binding				0			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			GATGGGGATGGCAGACACGAT	0.652													7	16					0	0	0.008291	0	0		A	156272757	A	A	156272757	3	1	4	1	0	0	0	0	1	0	0	0	15217	1203	42	2	455	2	SSR3	3	156272757	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	632775	156272757	41749673	924	2890											
TIPARP	25976	broad.mit.edu	37	chr3	156396186	156396186	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaccagttgcagtaccacActcaccaagagaacggaatt	15	7	8	11	1	1	2	1	1	0	1	1	4	1	3	3	1	4	3	3	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:156396186A>C	uc003fav.2	+	2	948	c.700A>C	c.(700-702)ACT>CCT	p.T234P	LOC100287227_uc011boq.1_5'Flank|TIPARP_uc003faw.2_Missense_Mutation_p.T234P	NM_015508	NP_056323	Q7Z3E1	PARPT_HUMAN	TCDD-inducible poly(ADP-ribose) polymerase	234							NAD+ ADP-ribosyltransferase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|breast(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			GCAGTACCACACTCACCAAGA	0.463													11	125					0	0	0.001368	0	0		C	156396186	C	C	156396186	3	2	4	1	0	0	0	0	1	0	0	0	15949	159	6	5	702	5	TIPARP	3	156396186	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	123429	156396186	41626244	925	2891											
RSRC1	51319	broad.mit.edu	37	chr3	157920883	157920883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtcaagacctcgtctcCgttctcatagtcgtagcagt	8	11	9	13	3	3	1	2	0	2	1	7	1	3	1	3	1	1	3	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:157920883C>T	uc003fbt.2	+	4	454	c.343C>T	c.(343-345)CGT>TGT	p.R115C	RSRC1_uc011bou.1_Intron|RSRC1_uc003fbu.1_Missense_Mutation_p.R115C|RSRC1_uc003fbv.2_Intron	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	115	Arg/Ser-rich.				nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			ACCTCGTCTCCGTTCTCATAG	0.383													4	64					0	0	0.000602	0	0		T	157920883	T	T	157920883	3	4	4	1	0	0	0	0	1	0	0	0	13739	652	23	1	353	1	RSRC1	3	157920883	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1524697	157920883	40101547	926	2892											
SMC4	10051	broad.mit.edu	37	chr3	160138560	160138560	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccattgatgaaaaatacgaCgtggctatatcatcctgttg	12	12	9	8	2	1	2	1	2	0	0	2	3	2	2	2	1	1	2	2	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:160138560C>T	uc003fdh.2	+	13	2003	c.1890C>T	c.(1888-1890)GAC>GAT	p.D630D	IFT80_uc003fda.2_Intron|SMC4_uc010hwc.1_Silent_p.D394D|SMC4_uc003fdi.2_Silent_p.D605D|SMC4_uc003fdj.2_Silent_p.D630D|SMC4_uc010hwd.2_Silent_p.D630D|SMC4_uc003fdl.2_Silent_p.D333D	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	630	Flexible hinge.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			AAAAATACGACGTGGCTATAT	0.378													15	99					0	0	0.006122	0	0		T	160138560	T	T	160138560	2	4	4	1	0	0	0	0	0	0	0	1	14810	535	19	1		1	SMC4	3	160138560	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2217677	160138560	37883870	927	2893											
SI	6476	broad.mit.edu	37	chr3	164709998	164709998	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccaccgagcattggggacGtaggcatttacagtttgaac	12	9	11	9	2	0	1	0	1	0	0	0	3	0	2	2	3	4	4	2	3	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:164709998G>A	uc003fei.2	-	43	5012	c.4950C>T	c.(4948-4950)TAC>TAT	p.Y1650Y		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1650	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	CATTGGGGACGTAGGCATTTA	0.353										HNSCC(35;0.089)			42	126					0	0	0.00361	0	0		A	164709998	A	A	164709998	2	1	4	1	0	0	0	0	0	0	0	1	14322	1140	40	1		1	SI	3	164709998	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4571438	164709998	33312432	928	2894											
SLC7A14	57709	broad.mit.edu	37	chr3	170184883	170184883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actcatcatttgcaatcaggGcctctgagttctgtttgtgt	7	16	9	9	0	5	1	3	1	2	0	5	1	5	1	1	1	1	3	1	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:170184883G>A	uc003fgz.2	-	8	2592	c.2276C>T	c.(2275-2277)GCC>GTC	p.A759V	CLDN11_uc011bpt.1_Intron|uc003fha.1_5'Flank	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	759						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			TGCAATCAGGGCCTCTGAGTT	0.443													13	158					0	0	0.003163	0	0		A	170184883	A	A	170184883	3	1	4	1	0	0	0	0	1	0	0	0	14721	1203	42	2	43	2	SLC7A14	3	170184883	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5474885	170184883	27837547	929	2895											
TNIK	23043	broad.mit.edu	37	chr3	170805172	170805172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaatgggttgagacgcGccccagtccctcagtcgggg	6	7	16	12	3	1	1	1	1	0	1	3	3	2	2	3	4	0	1	3	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:170805172G>A	uc003fhh.2	-	24	3190	c.2845C>T	c.(2845-2847)CGC>TGC	p.R949C	TNIK_uc003fhi.2_Missense_Mutation_p.R894C|TNIK_uc003fhj.2_Missense_Mutation_p.R920C|TNIK_uc003fhk.2_Missense_Mutation_p.R941C|TNIK_uc003fhl.2_Missense_Mutation_p.R865C|TNIK_uc003fhm.2_Missense_Mutation_p.R886C|TNIK_uc003fhn.2_Missense_Mutation_p.R912C|TNIK_uc003fho.2_Missense_Mutation_p.R857C|TNIK_uc003fhg.2_Missense_Mutation_p.R127C	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	949	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			GTTGAGACGCGCCCCAGTCCC	0.577													7	62					0	0	0.001984	0	0		A	170805172	A	A	170805172	3	1	4	1	0	0	0	0	1	0	0	0	16338	1087	38	1	1277	1	TNIK	3	170805172	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	620289	170805172	27217258	930	2896											
GHSR	2693	broad.mit.edu	37	chr3	172166024	172166024	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcatggtgagcaggttGccagcgatgcccaccacgaa	11	5	12	13	2	0	1	0	1	0	0	0	3	0	1	4	2	5	3	4	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:172166024G>A	uc003fib.1	-	1	180	c.180C>T	c.(178-180)GGC>GGT	p.G60G	GHSR_uc011bpv.1_Silent_p.G60G	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	60	Helical; Name=1; (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			TGAGCAGGTTGCCAGCGATGC	0.662													6	28					0	0	0.004482	0	0		A	172166024	A	A	172166024	2	1	4	1	0	0	0	0	0	0	0	1	6390	1306	46	2		2	GHSR	3	172166024	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1360852	172166024	25856406	931	2897											
ZNF639	51193	broad.mit.edu	37	chr3	179051265	179051265	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaaactgatgaagaaccGccagctaaactttgtaaaat	17	8	7	9	1	0	3	0	2	0	1	0	4	0	3	3	0	4	2	3	0	7	3	rs17852358		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:179051265G>A	uc003fjq.1	+	6	856	c.513G>A	c.(511-513)CCG>CCA	p.P171P	ZNF639_uc003fjr.1_Silent_p.P171P	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	171					initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			ATGAAGAACCGCCAGCTAAAC	0.418													18	61					0	0	0.007413	0	0		A	179051265	A	A	179051265	2	1	4	1	0	0	0	0	0	0	0	1	18081	1074	38	1		1	ZNF639	3	179051265	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6885241	179051265	18971165	932	2898											
ZNF639	51193	broad.mit.edu	37	chr3	179052028	179052028	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaagcatttaaattcacatTtatctgaagggatttattta	14	16	6	5	0	2	1	1	1	1	0	2	2	2	2	0	1	1	2	0	1	7	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:179052028T>G	uc003fjq.1	+	6	1619	c.1276T>G	c.(1276-1278)TTA>GTA	p.L426V	ZNF639_uc003fjr.1_Missense_Mutation_p.L426V	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	426	Interaction with CTNNA2.				initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			AAATTCACATTTATCTGAAGG	0.313													4	57					0	0	0.009096	0	0		G	179052028	G	G	179052028	3	3	4	1	0	0	0	0	1	0	0	0	18081	1838	64	5	1290	5	ZNF639	3	179052028	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	763	179052028	18970402	933	2899											
USP13	8975	broad.mit.edu	37	chr3	179437789	179437789	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttggccaagcacttagcGcattttggaattgatatgct	10	14	9	8	1	0	1	0	1	0	0	0	2	0	2	1	2	3	3	1	2	4	6	rs148480598	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:179437789G>A	uc003fkh.2	+	7	948	c.867G>A	c.(865-867)GCG>GCA	p.A289A	USP13_uc003fkf.2_Silent_p.A289A	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	289					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			AGCACTTAGCGCATTTTGGAA	0.433													19	69					0	0	0.010504	0	0		A	179437789	A	A	179437789	2	1	4	1	0	0	0	0	0	0	0	1	17070	1074	38	1		1	USP13	3	179437789	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	385761	179437789	18584641	934	2900											
PEX5L	51555	broad.mit.edu	37	chr3	179519671	179519671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtcaccaagattagccGcctggaagagttctggttgg	9	9	13	10	1	2	2	1	0	1	2	2	3	2	3	4	4	1	2	4	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:179519671G>A	uc003fki.1	-	15	1956	c.1826C>T	c.(1825-1827)GCG>GTG	p.A609V	PEX5L_uc011bqd.1_Missense_Mutation_p.A566V|PEX5L_uc011bqe.1_Missense_Mutation_p.A417V|PEX5L_uc011bqf.1_Missense_Mutation_p.A501V|PEX5L_uc003fkj.1_Missense_Mutation_p.A574V|PEX5L_uc010hxd.1_Missense_Mutation_p.A607V|PEX5L_uc011bqg.1_Missense_Mutation_p.A585V|PEX5L_uc011bqh.1_Missense_Mutation_p.A550V	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	609					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			AAGATTAGCCGCCTGGAAGAG	0.463													8	181					0	0	0.006214	0	0		A	179519671	A	A	179519671	3	1	4	1	0	0	0	0	1	0	0	0	11768	1087	38	1	58	1	PEX5L	3	179519671	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	81882	179519671	18502759	935	2901											
CCDC39	339829	broad.mit.edu	37	chr3	180334111	180334111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagatctagagctctgaCgactgccttttgtgctagct	9	12	11	9	1	2	3	0	1	2	2	2	5	2	3	1	1	4	3	1	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:180334111C>T	uc010hxe.2	-	19	2742	c.2627G>A	c.(2626-2628)CGT>CAT	p.R876H	CCDC39_uc003fkn.2_RNA|TTC14_uc003fkm.2_Intron	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	876	Ser-rich.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AGAGCTCTGACGACTGCCTTT	0.383													12	37					0	0	0.001855	0	0		T	180334111	T	T	180334111	3	4	4	1	0	0	0	0	1	0	0	0	2814	536	19	1	206	1	CCDC39	3	180334111	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	814440	180334111	17688319	936	2902											
FXR1	8087	broad.mit.edu	37	chr3	180688056	180688056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtactaaccgtcgtaggCggtctcgtagacgaaggact	11	8	12	10	5	1	1	0	0	1	1	3	3	1	2	1	3	2	3	1	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:180688056C>T	uc003fkq.2	+	15	1535	c.1513C>T	c.(1513-1515)CGG>TGG	p.R505W	FXR1_uc003fkp.2_Missense_Mutation_p.R420W|FXR1_uc003fkr.2_Missense_Mutation_p.R505W|FXR1_uc011bqj.1_Missense_Mutation_p.R419W|FXR1_uc003fks.2_Missense_Mutation_p.R448W|FXR1_uc011bqk.1_Missense_Mutation_p.R456W|FXR1_uc011bql.1_Missense_Mutation_p.R492W	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	505	Poly-Arg.				apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			CCGTCGTAGGCGGTCTCGTAG	0.443													22	75					0	0	0.004656	0	0		T	180688056	T	T	180688056	3	4	4	1	0	0	0	0	1	0	0	0	6129	759	27	1	1571	1	FXR1	3	180688056	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	353945	180688056	17334374	937	2903											
MCF2L2	23101	broad.mit.edu	37	chr3	182941891	182941891	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttctcaacattaccccaaAgtaggcgcagtcttgacact	11	11	6	13	1	3	1	1	1	3	0	4	1	3	1	2	1	2	2	2	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:182941891A>C	uc003fli.1	-	19	2293	c.2203T>G	c.(2203-2205)TTT>GTT	p.F735V		NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	735	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			ATTACCCCAAAGTAGGCGCAG	0.408													8	218					0	0	0.004482	0	0		C	182941891	C	C	182941891	3	2	4	1	0	0	0	0	1	0	0	0	9398	72	3	5	1189	5	MCF2L2	3	182941891	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	2253835	182941891	15080539	938	2904											
YEATS2	55689	broad.mit.edu	37	chr3	183490118	183490118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggggtaccagttgggtctgCtttaccttcaacagtgaagc	8	11	12	10	1	2	1	1	1	1	0	2	1	2	1	2	3	5	3	2	3	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:183490118C>T	uc003fly.2	+	16	2168	c.1973C>T	c.(1972-1974)GCT>GTT	p.A658V		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	658					histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GTTGGGTCTGCTTTACCTTCA	0.537													13	36					0	0	0.003163	0	0		T	183490118	T	T	183490118	3	4	4	1	0	0	0	0	1	0	0	0	17498	797	28	2	2031	2	YEATS2	3	183490118	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	548227	183490118	14532312	939	2905											
ABCC5	10057	broad.mit.edu	37	chr3	183689508	183689508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaccgcctgatgctcagtgCgctgcagctgcctcaccttc	5	9	10	17	2	2	1	2	1	0	0	3	1	2	1	4	0	5	5	4	0	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:183689508C>T	uc003fmg.2	-	11	1769	c.1604G>A	c.(1603-1605)CGC>CAC	p.R535H	ABCC5_uc011bqt.1_Missense_Mutation_p.R63H|ABCC5_uc010hxl.2_Missense_Mutation_p.R535H	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	535						integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			ATGCTCAGTGCGCTGCAGCTG	0.582													9	22					0	0	0.008291	0	0		T	183689508	T	T	183689508	3	4	4	1	0	0	0	0	1	0	0	0	56	768	27	1	2789	1	ABCC5	3	183689508	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	199390	183689508	14332922	940	2906											
DVL3	1857	broad.mit.edu	37	chr3	183888381	183888381	+	Frame_Shift_Del	DEL	C	-	-																															ggagtgccccctctctacggCccccccatgctgatgatgcc																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:183888381delC	uc003fms.2	+	15	2129	c.1989delC	c.(1987-1989)GGCfs	p.G663fs	DVL3_uc011bqw.1_Frame_Shift_Del_p.G646fs|DVL3_uc003fmt.2_Frame_Shift_Del_p.G334fs|DVL3_uc003fmu.2_Frame_Shift_Del_p.G495fs	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	663					canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			CTCTCTACGGCCCCCCCATGC	0.736													4	9	---	---	---	---						.	-	183888381	-	-	183888381	7	5	4	1	0	1	0	1	0	0	0	0	4843	726	26	0	2047	0	DVL3	3	183888381	Frame_Shift_Del	DEL	C	TCGA-BR-4184-01A-01D-1126-08	198873	183888381	14134049	941	2907											
AP2M1	1173	broad.mit.edu	37	chr3	183900553	183900553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgttcccaggatcaagcGcatggcaggcatgaaggaat	11	8	13	9	1	1	1	1	1	0	0	2	3	2	3	1	4	1	4	1	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:183900553G>A	uc011bqx.1	+	11	1227	c.1070G>A	c.(1069-1071)CGC>CAC	p.R357H	AP2M1_uc003fmw.2_Missense_Mutation_p.R355H|AP2M1_uc003fmx.2_Missense_Mutation_p.R285H|AP2M1_uc003fmy.2_Missense_Mutation_p.R355H|AP2M1_uc011bqy.1_Missense_Mutation_p.R227H|AP2M1_uc011bqz.1_Missense_Mutation_p.R173H	NM_004068	NP_004059	Q96CW1	AP2M1_HUMAN	adaptor-related protein complex 2, mu 1 subunit	357	MHD.				axon guidance|cellular membrane organization|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|clathrin coat of coated pit|cytosol|endocytic vesicle membrane|peroxisomal membrane	lipid binding|protein binding|transporter activity				0	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.92e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGGATCAAGCGCATGGCAGGC	0.542													6	59					0	0	0.00308	0	0		A	183900553	A	A	183900553	3	1	4	1	0	0	0	0	1	0	0	0	742	1087	38	1	1105	1	AP2M1	3	183900553	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12172	183900553	14121877	942	2908											
ABCF3	55324	broad.mit.edu	37	chr3	183910955	183910955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctccggagaactggccatgCgtcctcttgccagcctgtct	5	11	10	15	2	3	1	0	0	3	1	5	2	4	1	5	2	4	0	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:183910955C>T	uc003fmz.2	+	19	1949	c.1816C>T	c.(1816-1818)CGT>TGT	p.R606C	ABCF3_uc003fna.2_Missense_Mutation_p.R600C|ABCF3_uc003fnb.2_Missense_Mutation_p.R287C	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	606	ABC transporter 2.						ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ACTGGCCATGCGTCCTCTTGC	0.607													15	27					0	0	0.00245	0	0		T	183910955	T	T	183910955	3	4	4	1	0	0	0	0	1	0	0	0	67	768	27	1	1890	1	ABCF3	3	183910955	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10402	183910955	14111475	943	2909											
CAMK2N2	94032	broad.mit.edu	37	chr3	183978984	183978984	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaaggagttggtgtcctgCaggcggcagctgaaggagag	11	6	18	6	1	0	3	0	1	0	2	1	5	1	4	1	5	2	4	1	5	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:183978984C>T	uc003fnj.1	-	1	268	c.90G>A	c.(88-90)CTG>CTA	p.L30L	ECE2_uc003fni.3_Intron	NM_033259	NP_150284	Q96S95	CK2N2_HUMAN	CaM-KII inhibitory protein	30						cytosol|nucleus	protein kinase inhibitor activity				0	all_cancers(143;1.09e-10)|Ovarian(172;0.0339)		Epithelial(37;2.51e-33)|OV - Ovarian serous cystadenocarcinoma(80;5.69e-22)			TGGTGTCCTGCAGGCGGCAGC	0.632													4	10					0	0	0.000602	0	0		T	183978984	T	T	183978984	2	4	4	1	0	0	0	0	0	0	0	1	2607	697	25	2		2	CAMK2N2	3	183978984	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	68029	183978984	14043446	944	2910											
ECE2	9718	broad.mit.edu	37	chr3	184002835	184002835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgactctgagcctgtggtgGtgtatgggatggattatttg	6	15	16	4	0	1	2	0	2	1	0	1	4	1	4	1	4	1	1	1	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184002835G>A	uc003fni.3	+	9	1482	c.1444G>A	c.(1444-1446)GTG>ATG	p.V482M	ECE2_uc011brh.1_Missense_Mutation_p.V335M|ECE2_uc003fnl.3_Missense_Mutation_p.V410M|ECE2_uc003fnm.3_Missense_Mutation_p.V364M|ECE2_uc003fnk.3_Missense_Mutation_p.V335M|ECE2_uc011bri.1_Missense_Mutation_p.V397M|ECE2_uc010hxv.2_Missense_Mutation_p.V126M	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	482	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCCTGTGGTGGTGTATGGGAT	0.542											OREG0015945	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	69					0	0	0.00308	0	0		A	184002835	A	A	184002835	3	1	4	1	0	0	0	0	1	0	0	0	4896	1261	44	4	2042	4	ECE2	3	184002835	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	23851	184002835	14019595	945	2911											
ECE2	9718	broad.mit.edu	37	chr3	184008830	184008830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgagttctcctcagggCgcgagtatgacaaagaaggg	12	7	15	7	2	2	3	1	2	1	1	3	4	2	3	1	3	0	2	1	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184008830C>T	uc003fni.3	+	17	2229	c.2191C>T	c.(2191-2193)CGC>TGC	p.R731C	ECE2_uc011brh.1_Missense_Mutation_p.R584C|ECE2_uc003fnl.3_Missense_Mutation_p.R659C|ECE2_uc003fnm.3_Missense_Mutation_p.R613C|ECE2_uc003fnk.3_Missense_Mutation_p.R584C|ECE2_uc011bri.1_Missense_Mutation_p.R646C|ECE2_uc010hxv.2_3'UTR	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	731	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CTCCTCAGGGCGCGAGTATGA	0.607													5	80					0	0	0.001168	0	0		T	184008830	T	T	184008830	3	4	4	1	0	0	0	0	1	0	0	0	4896	768	27	1	2821	1	ECE2	3	184008830	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5995	184008830	14013600	946	2912											
PSMD2	5708	broad.mit.edu	37	chr3	184025435	184025435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtctggctgcaatgctgcGccagttagctcaatatcatg	8	11	10	12	2	3	0	2	0	1	0	3	0	3	0	2	1	4	5	2	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184025435G>A	uc003fnn.1	+	18	2270	c.2237G>A	c.(2236-2238)CGC>CAC	p.R746H	PSMD2_uc011brj.1_Missense_Mutation_p.R587H|PSMD2_uc011brk.1_Missense_Mutation_p.R616H	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	746	PC 7.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	GCAATGCTGCGCCAGTTAGCT	0.483													17	47					0	0	0.007413	0	0		A	184025435	A	A	184025435	3	1	4	1	0	0	0	0	1	0	0	0	12720	1087	38	1	2307	1	PSMD2	3	184025435	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	16605	184025435	13996995	947	2913											
EIF4G1	1981	broad.mit.edu	37	chr3	184039307	184039307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaactggggagccatatcGcctctctccagaacccactc	10	8	8	15	1	1	2	0	1	1	1	5	3	2	3	4	2	3	0	4	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184039307G>A	uc003fnp.2	+	10	1133	c.935G>A	c.(934-936)CGC>CAC	p.R312H	EIF4G1_uc003fno.1_Missense_Mutation_p.R253H|EIF4G1_uc010hxw.1_Missense_Mutation_p.R148H|EIF4G1_uc003fnt.2_Missense_Mutation_p.R23H|EIF4G1_uc003fnq.2_Missense_Mutation_p.R225H|EIF4G1_uc003fnr.2_Missense_Mutation_p.R148H|EIF4G1_uc010hxx.2_Missense_Mutation_p.R319H|EIF4G1_uc003fns.2_Missense_Mutation_p.R272H|EIF4G1_uc010hxy.2_Missense_Mutation_p.R319H|EIF4G1_uc003fnv.3_Missense_Mutation_p.R312H|EIF4G1_uc003fnu.3_Missense_Mutation_p.R312H|EIF4G1_uc003fnw.2_Missense_Mutation_p.R319H|EIF4G1_uc003fnx.2_Missense_Mutation_p.R116H|EIF4G1_uc003fny.3_Missense_Mutation_p.R116H	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	312					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GAGCCATATCGCCTCTCTCCA	0.493													20	40					0	0	0.00333	0	0		A	184039307	A	A	184039307	3	1	4	1	0	0	0	0	1	0	0	0	5044	1087	38	1	965	1	EIF4G1	3	184039307	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	13872	184039307	13983123	948	2914											
EPHB3	2049	broad.mit.edu	37	chr3	184290699	184290699	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccttccaggaccagggCgcctgcatgtcgctcatctc	5	9	11	16	2	2	0	1	0	1	0	5	1	3	1	4	3	1	2	4	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184290699C>T	uc003foz.2	+	3	1028	c.591C>T	c.(589-591)GGC>GGT	p.G197G		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	197	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			AGGACCAGGGCGCCTGCATGT	0.637													16	12					0	0	0.006122	0	0		T	184290699	T	T	184290699	2	4	4	1	0	0	0	0	0	0	0	1	5184	755	27	1		1	EPHB3	3	184290699	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	251392	184290699	13731731	949	2915											
EPHB3	2049	broad.mit.edu	37	chr3	184297350	184297350	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtttgccaaggagatcgaCgtgtcctgcgtcaagatcga	10	9	13	9	4	1	2	1	0	0	2	4	6	2	2	2	1	2	1	2	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184297350C>T	uc003foz.2	+	10	2324	c.1887C>T	c.(1885-1887)GAC>GAT	p.D629D		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	629	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			AGGAGATCGACGTGTCCTGCG	0.547													33	39					0	0	0.003755	0	0		T	184297350	T	T	184297350	2	4	4	1	0	0	0	0	0	0	0	1	5184	535	19	1		1	EPHB3	3	184297350	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6651	184297350	13725080	950	2916											
VPS8	23355	broad.mit.edu	37	chr3	184714256	184714256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcagcagtacaagagacGccaagaaatggctgatgaaa	16	7	11	7	1	0	4	0	2	0	2	0	5	0	4	1	1	3	4	1	1	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184714256G>A	uc003fpb.1	+	43	3968	c.3797G>A	c.(3796-3798)CGC>CAC	p.R1266H	VPS8_uc010hyd.1_Missense_Mutation_p.R1176H|VPS8_uc010hye.1_Missense_Mutation_p.R695H	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	1268	RING-type; atypical.						zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TACAAGAGACGCCAAGAAATG	0.418													19	53					0	0	0.005443	0	0		A	184714256	A	A	184714256	3	1	4	1	0	0	0	0	1	0	0	0	17244	1087	38	1	3969	1	VPS8	3	184714256	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	416906	184714256	13308174	951	2917											
SENP2	59343	broad.mit.edu	37	chr3	185347619	185347619	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgggaaatccttcatcAgcagttgctgtgagaaaact	11	11	12	7	0	2	1	2	1	0	1	3	3	3	2	1	2	3	3	1	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:185347619A>C	uc003fpn.2	+	17	1928	c.1757A>C	c.(1756-1758)CAG>CCG	p.Q586P	SENP2_uc011brv.1_Missense_Mutation_p.Q576P|SENP2_uc011brw.1_Missense_Mutation_p.Q399P	NM_021627	NP_067640	Q9HC62	SENP2_HUMAN	SUMO1/sentrin/SMT3 specific protease 2	586					mRNA transport|protein desumoylation|protein transport|proteolysis|regulation of Wnt receptor signaling pathway|transmembrane transport|Wnt receptor signaling pathway	cytoplasm|nuclear membrane|nuclear pore	protein binding|SUMO-specific protease activity				0	all_cancers(143;1.28e-10)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			ATCCTTCATCAGCAGTTGCTG	0.468													4	49					0	0	0.001168	0	0		C	185347619	C	C	185347619	3	2	4	1	0	0	0	0	1	0	0	0	14072	188	7	5	1823	5	SENP2	3	185347619	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	633363	185347619	12674811	952	2918											
TRA2B	6434	broad.mit.edu	37	chr3	185643269	185643269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccgattcccaacatgacGcctgcgagtagacatgggag	11	7	11	12	3	0	2	0	1	0	1	1	5	1	3	3	1	3	1	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:185643269G>A	uc003fpv.2	-	3	592	c.316C>T	c.(316-318)CGT>TGT	p.R106C	TRA2B_uc003fpt.2_5'Flank|TRA2B_uc003fpu.2_RNA|TRA2B_uc010hym.2_Missense_Mutation_p.R6C|TRA2B_uc003fpw.2_Missense_Mutation_p.R106C	NM_004593	NP_004584	P62995	TRA2B_HUMAN	splicing factor, arginine/serine-rich 10	106	Arg/Ser-rich (RS1 domain).				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)	2						CCAACATGACGCCTGCGAGTA	0.463													6	45					0	0	0.006214	0	0		A	185643269	A	A	185643269	3	1	4	1	0	0	0	0	1	0	0	0	16460	1087	38	1	578	1	TRA2B	3	185643269	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	295650	185643269	12379161	953	2919											
TBCCD1	55171	broad.mit.edu	37	chr3	186281967	186281967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgtagaccagtagaggCgcgggtaagctccttctgtg	8	10	13	10	2	1	2	0	0	1	2	3	2	3	2	3	2	1	4	3	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:186281967C>T	uc003fqg.2	-	2	281	c.152G>A	c.(151-153)CGC>CAC	p.R51H	TBCCD1_uc011bry.1_Missense_Mutation_p.R51H|TBCCD1_uc003fqh.2_Intron	NM_018138	NP_060608	Q9NVR7	TBCC1_HUMAN	TBCC domain containing 1	51					cell morphogenesis|maintenance of centrosome location|maintenance of Golgi location|regulation of cell migration|regulation of cell shape	spindle pole centrosome	binding			large_intestine(1)|ovary(1)	2	all_cancers(143;3.75e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.3e-21)	GBM - Glioblastoma multiforme(93;0.0474)		CCAGTAGAGGCGCGGGTAAGC	0.517													8	49					0	0	0.00308	0	0		T	186281967	T	T	186281967	3	4	4	1	0	0	0	0	1	0	0	0	15657	768	27	1	1545	1	TBCCD1	3	186281967	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	638698	186281967	11740463	954	2920											
HRG	3273	broad.mit.edu	37	chr3	186395126	186395126	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagacattctcataataaTaattccagtgacctccatcc	15	11	3	12	0	1	2	1	1	1	1	5	2	4	2	4	0	0	0	4	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:186395126T>C	uc003fqq.2	+	7	1055	c.1032T>C	c.(1030-1032)AAT>AAC	p.N344N		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	344					fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		CTCATAATAATAATTCCAGTG	0.269													3	45					0	0	0.004672	0	0		C	186395126	C	C	186395126	2	2	4	1	0	0	0	0	0	0	0	1	7370	1403	49	3		3	HRG	3	186395126	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	113159	186395126	11627304	955	2921											
ST6GAL1	6480	broad.mit.edu	37	chr3	186761061	186761061	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctgttgtgtcgtcagcGggatctctgaagtcctccca	5	13	12	11	2	2	1	1	1	1	0	6	2	4	2	2	1	2	2	2	1	1	1	rs141692826		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:186761061G>A	uc003frb.2	+	4	1002	c.570G>A	c.(568-570)GCG>GCA	p.A190A	ST6GAL1_uc003frc.2_Intron|ST6GAL1_uc003frd.2_Silent_p.A190A	NM_173216	NP_775323	P15907	SIAT1_HUMAN	ST6 beta-galactosamide	190	Lumenal (Potential).				humoral immune response|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			central_nervous_system(1)	1	all_cancers(143;2.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;8.53e-19)	GBM - Glioblastoma multiforme(93;0.0939)		TGTCGTCAGCGGGATCTCTGA	0.522													6	107					0	0	0.001168	0	0		A	186761061	A	A	186761061	2	1	4	1	0	0	0	0	0	0	0	1	15246	1103	39	1		1	ST6GAL1	3	186761061	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	365935	186761061	11261369	956	2922											
BCL6	604	broad.mit.edu	37	chr3	187451444	187451444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaacatcactggcatggCgggtgaactggatacagctg	12	7	14	8	1	1	2	1	1	0	1	1	4	1	3	0	4	4	2	0	4	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:187451444C>T	uc003frp.3	-	3	495	c.38G>A	c.(37-39)CGC>CAC	p.R13H	BCL6_uc011bsf.1_Missense_Mutation_p.R13H|BCL6_uc010hza.2_5'UTR|BCL6_uc003frq.1_Missense_Mutation_p.R13H	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	13					negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		ACTGGCATGGCGGGTGAACTG	0.488			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								5	93					0	0	0.001168	0	0		T	187451444	T	T	187451444	3	4	4	1	0	0	0	0	1	0	0	0	1377	768	27	1	2114	1	BCL6	3	187451444	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	690383	187451444	10570986	957	2923											
CLDN1	9076	broad.mit.edu	37	chr3	190030679	190030679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcaagaagaaatatcgCacccccaatgacagccatcc	15	5	6	15	1	0	3	0	1	0	2	2	3	1	3	5	0	2	2	5	0	5	1	rs140846629	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:190030679C>T	uc003fsh.2	-	2	590	c.370G>A	c.(370-372)GCG>ACG	p.A124T		NM_021101	NP_066924	O95832	CLD1_HUMAN	claudin 1	124	Helical; (Potential).				calcium-independent cell-cell adhesion|interspecies interaction between organisms	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity			lung(1)	1	all_cancers(143;2.95e-10)|Ovarian(172;0.0512)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.015)		AGAAATATCGCACCCCCAATG	0.458													38	133					0	0	0.005524	0	0		T	190030679	T	T	190030679	3	4	4	1	0	0	0	0	1	0	0	0	3474	710	25	2	277	2	CLDN1	3	190030679	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2579235	190030679	7991751	958	2924											
CCDC50	152137	broad.mit.edu	37	chr3	191097951	191097951	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttttttttttaaaggaaTgaagccaagagtgatgaaag	14	16	9	2	0	0	4	0	3	0	1	0	5	0	5	1	1	1	0	1	1	6	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:191097951T>C	uc003fsw.2	+	6	1042	c.452T>C	c.(451-453)ATG>ACG	p.M151T	CCDC50_uc003fsv.2_Missense_Mutation_p.M327T	NM_174908	NP_777568	Q8IVM0	CCD50_HUMAN	Ymer protein short isoform	151						cytoplasm	protein binding				0	all_cancers(143;8.88e-09)|Ovarian(172;0.103)|Breast(254;0.221)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000136)		TTTAAAGGAATGAAGCCAAGA	0.343													17	27					0	0	0.006122	0	0		C	191097951	C	C	191097951	3	2	4	1	0	0	0	0	1	0	0	0	2823	1464	51	3	1006	3	CCDC50	3	191097951	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1067272	191097951	6924479	959	2925											
C3orf59	151963	broad.mit.edu	37	chr3	192516776	192516776	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaactgcacctcgctcctgGcaaaggacagccgccattca	10	7	8	16	2	2	0	2	0	0	0	4	1	3	1	4	2	3	3	4	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:192516776G>A	uc011bsp.1	-	2	1196	c.875C>T	c.(874-876)GCC>GTC	p.A292V		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	292											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		CTCGCTCCTGGCAAAGGACAG	0.527													3	17					0	0	0.009096	0	0		A	192516776	A	A	192516776	3	1	4	1	0	0	0	0	1	0	0	0	2240	1203	42	2	604	2	C3orf59	3	192516776	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1418825	192516776	5505654	960	2926											
ATP13A4	84239	broad.mit.edu	37	chr3	193171906	193171906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttacctcgtcaaggtagtagCgtgatggtcattttccagct	8	14	10	9	2	2	1	2	1	0	0	4	1	3	1	2	2	3	3	2	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:193171906C>T	uc003ftd.2	-	17	2119	c.2011G>A	c.(2011-2013)GCT>ACT	p.A671T	ATP13A4_uc003fte.1_Missense_Mutation_p.A671T|ATP13A4_uc011bsr.1_Missense_Mutation_p.A142T|ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	671	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		AAGGTAGTAGCGTGATGGTCA	0.438													11	45					0	0	0.00245	0	0		T	193171906	T	T	193171906	3	4	4	1	0	0	0	0	1	0	0	0	1127	768	27	1	1635	1	ATP13A4	3	193171906	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	655130	193171906	4850524	961	2927											
ATP13A4	84239	broad.mit.edu	37	chr3	193180607	193180607	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccgtcccttgttaaggtGcctgtctaaacagaaacaaa	14	9	8	10	1	1	1	0	0	1	1	2	1	2	1	3	1	4	1	3	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:193180607G>A	uc003ftd.2	-	13	1575	c.1467C>T	c.(1465-1467)GGC>GGT	p.G489G	ATP13A4_uc003fte.1_Silent_p.G489G|ATP13A4_uc011bsr.1_5'UTR|ATP13A4_uc010hzi.2_RNA|ATP13A4_uc003ftf.3_Silent_p.G195G	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	489	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		TTGTTAAGGTGCCTGTCTAAA	0.338													13	38					0	0	0.001368	0	0		A	193180607	A	A	193180607	2	1	4	1	0	0	0	0	0	0	0	1	1127	1306	46	2		2	ATP13A4	3	193180607	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8701	193180607	4841823	962	2928											
LRRC15	131578	broad.mit.edu	37	chr3	194080553	194080553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccccaggtgatcgaagatgCcgaggggcaagttctccagc	9	7	13	12	2	1	2	0	1	1	1	4	4	2	2	4	3	2	2	4	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:194080553C>T	uc003ftu.2	-	2	1306	c.1220G>A	c.(1219-1221)GGC>GAC	p.G407D	LRRC15_uc003ftt.2_Missense_Mutation_p.G413D	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	407	LRR 15.|Extracellular (Potential).					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		ATCGAAGATGCCGAGGGGCAA	0.572													11	25					0	0	0.001855	0	0		T	194080553	T	T	194080553	3	4	4	1	0	0	0	0	1	0	0	0	8988	739	26	2	529	2	LRRC15	3	194080553	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	899946	194080553	3941877	963	2929											
ATP13A3	79572	broad.mit.edu	37	chr3	194158063	194158063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttcaggtttacagagaccgGcaatggcctcgggcgctcct	7	10	12	12	3	1	1	1	0	0	1	3	2	2	1	3	4	1	3	3	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:194158063G>A	uc003fty.3	-	18	2378	c.1976C>T	c.(1975-1977)GCC>GTC	p.A659V	ATP13A3_uc003ftz.1_Missense_Mutation_p.A365V	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	659					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		ACAGAGACCGGCAATGGCCTC	0.438													25	77					0	0	0.005443	0	0		A	194158063	A	A	194158063	3	1	4	1	0	0	0	0	1	0	0	0	1126	1203	42	2	1764	2	ATP13A3	3	194158063	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	77510	194158063	3864367	964	2930											
MUC4	4585	broad.mit.edu	37	chr3	195508234	195508234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tagtgacaggaagaggcatgGtgtcacctgtggatactgag	11	9	15	6	0	1	3	1	2	0	1	1	5	1	5	1	4	1	1	1	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:195508234G>A	uc011bto.1	-	3	10293	c.9833C>T	c.(9832-9834)ACC>ATC	p.T3278I	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_5'Flank|MUC4_uc011btg.1_5'Flank|MUC4_uc011bth.1_5'Flank|MUC4_uc011bti.1_5'Flank|MUC4_uc011btj.1_5'Flank|MUC4_uc011btk.1_5'Flank|MUC4_uc011btl.1_5'Flank|MUC4_uc011btm.1_5'Flank|MUC4_uc011btn.1_5'Flank|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AAGAGGCATGGTGTCACCTGT	0.592													4	20					0	0	0.009096	0	0		A	195508234	A	A	195508234	3	1	4	1	0	0	0	0	1	0	0	0	9996	1261	44	4		4	MUC4	3	195508234	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1350171	195508234	2514196	965	2931											
MUC4	4585	broad.mit.edu	37	chr3	195508379	195508379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacaggaagaggggtggCgtgacctgtggatactgagg	9	7	20	5	1	0	4	0	3	0	1	0	6	0	6	1	7	1	0	1	7	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:195508379C>T	uc011bto.1	-	3	10148	c.9688G>A	c.(9688-9690)GCC>ACC	p.A3230T	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_5'Flank|MUC4_uc011btg.1_5'Flank|MUC4_uc011bth.1_5'Flank|MUC4_uc011bti.1_5'Flank|MUC4_uc011btj.1_5'Flank|MUC4_uc011btk.1_5'Flank|MUC4_uc011btl.1_5'Flank|MUC4_uc011btm.1_5'Flank|MUC4_uc011btn.1_5'Flank|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGAGGGGTGGCGTGACCTGTG	0.602													5	25					0	0	0.000602	0	0		T	195508379	T	T	195508379	3	4	4	1	0	0	0	0	1	0	0	0	9996	768	27	1		1	MUC4	3	195508379	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	145	195508379	2514051	966	2932											
TM4SF19	116211	broad.mit.edu	37	chr3	196054415	196054415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaggctcagtcccaggataCgggagcaagtccgtgagctt	10	7	13	11	2	1	1	1	1	0	0	3	3	3	3	2	3	3	3	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:196054415C>T	uc003fwl.1	-	2	172	c.47G>A	c.(46-48)CGT>CAT	p.R16H	TM4SF19_uc003fwj.2_RNA|TM4SF19_uc010iad.1_Missense_Mutation_p.R16H|TM4SF19_uc011btv.1_Missense_Mutation_p.R16H	NM_138461	NP_612470	Q96DZ7	T4S19_HUMAN	transmembrane 4 L six family member 19	16	Cytoplasmic (Potential).					integral to membrane					0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;4.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		TCCCAGGATACGGGAGCAAGT	0.607													16	47					0	0	0.006122	0	0		T	196054415	T	T	196054415	3	4	4	1	0	0	0	0	1	0	0	0	15993	536	19	1	598	1	TM4SF19	3	196054415	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	546036	196054415	1968015	967	2933											
LRRC33	375387	broad.mit.edu	37	chr3	196388524	196388524	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtggcctgcactgtcatCgtcctcacttttaagaagcc	7	12	9	13	1	2	1	2	0	0	1	4	1	3	1	3	2	2	1	3	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:196388524C>T	uc003fwv.2	+	3	2114	c.2010C>T	c.(2008-2010)ATC>ATT	p.I670I		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	670	Helical; (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		GCACTGTCATCGTCCTCACTT	0.597													26	71					0	0	0.002445	0	0		T	196388524	T	T	196388524	2	4	4	1	0	0	0	0	0	0	0	1	9006	874	31	1		1	LRRC33	3	196388524	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	334109	196388524	1633906	968	2934											
PIGZ	80235	broad.mit.edu	37	chr3	196674848	196674848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgtgcgtgccatgtctcGccaggttttggggattcagg	4	11	16	10	4	2	0	1	0	1	0	3	1	2	1	2	4	2	1	2	4	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:196674848G>A	uc003fxh.2	-	3	1067	c.920C>T	c.(919-921)GCG>GTG	p.A307V		NM_025163	NP_079439	Q86VD9	PIGZ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	307					GPI anchor biosynthetic process	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			ovary(3)	3	all_cancers(143;1.05e-08)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.29e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00603)		GCCATGTCTCGCCAGGTTTTG	0.612													4	59					0	0	0.000602	0	0		A	196674848	A	A	196674848	3	1	4	1	0	0	0	0	1	0	0	0	11924	1087	38	1	823	1	PIGZ	3	196674848	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	286324	196674848	1347582	969	2935											
MFI2	4241	broad.mit.edu	37	chr3	196736624	196736624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctcatccaaggtgaaggCgtgggagctgtcccgtctca	9	8	13	11	2	2	1	2	1	1	0	5	2	4	2	2	3	2	2	2	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:196736624C>T	uc003fxk.3	-	11	1503	c.1390G>A	c.(1390-1392)GCC>ACC	p.A464T		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	464	Transferrin-like 2.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		AAGGTGAAGGCGTGGGAGCTG	0.647													6	17					0	0	0.004482	0	0		T	196736624	T	T	196736624	3	4	4	1	0	0	0	0	1	0	0	0	9540	768	27	1	850	1	MFI2	3	196736624	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	61776	196736624	1285806	970	2936											
KIAA0226	9711	broad.mit.edu	37	chr3	197402018	197402018	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcagccgctcgcagcgCggacagcttccagacttgaa	8	6	12	15	4	0	2	0	1	0	1	2	3	1	3	3	1	4	4	3	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:197402018C>T	uc003fyc.2	-	20	2973	c.2790G>A	c.(2788-2790)CCG>CCA	p.P930P	KIAA0226_uc003fyd.3_Silent_p.P885P|MIR922_hsa-mir-922|MI0005714_5'Flank	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	930	Cys-rich.				autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		GCTCGCAGCGCGGACAGCTTC	0.587													6	35					0	0	0.006214	0	0		T	197402018	T	T	197402018	2	4	4	1	0	0	0	0	0	0	0	1	8178	755	27	1		1	KIAA0226	3	197402018	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	665394	197402018	620412	971	2937											
LRCH3	84859	broad.mit.edu	37	chr3	197559147	197559147	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actacgaagagaaagccagtAccaagagaaccgcggcagtt	16	4	11	10	3	0	2	0	0	0	2	0	5	0	2	3	1	4	3	3	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:197559147A>G	uc011bul.1	+	8	1066	c.1061A>G	c.(1060-1062)TAC>TGC	p.Y354C	LRCH3_uc003fyj.1_Missense_Mutation_p.Y354C|LRCH3_uc011bum.1_Missense_Mutation_p.Y354C|LRCH3_uc011bun.1_Missense_Mutation_p.Y228C|LRCH3_uc003fyk.2_5'UTR	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	354						extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		GAAAGCCAGTACCAAGAGAAC	0.398													8	81					0	0	0.000978	0	0		G	197559147	G	G	197559147	3	3	4	1	0	0	0	0	1	0	0	0	8952	391	14	3	1091	3	LRCH3	3	197559147	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	157129	197559147	463283	972	2938											
IQCG	84223	broad.mit.edu	37	chr3	197618326	197618326	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttctttacctttataacGctctttaattccaagagatc	10	17	5	9	1	2	1	0	0	2	1	4	2	3	1	2	1	2	2	2	1	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:197618326G>A	uc003fyo.2	-	10	1334	c.1188C>T	c.(1186-1188)AGC>AGT	p.S396S	IQCG_uc003fyn.2_Silent_p.S298S|IQCG_uc003fyp.2_Silent_p.S396S|IQCG_uc003fym.2_Silent_p.S97S	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	396	IQ.										0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;7.19e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.149)		CCTTTATAACGCTCTTTAATT	0.378													27	59					0	0	0.00632	0	0		A	197618326	A	A	197618326	2	1	4	1	0	0	0	0	0	0	0	1	7826	1078	38	1		1	IQCG	3	197618326	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	59179	197618326	404104	973	2939											
IQCG	84223	broad.mit.edu	37	chr3	197618384	197618384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctcctctccttttctataCgatcttcaatgatgacctgt	7	17	5	12	1	4	2	1	2	3	0	6	3	5	2	3	0	2	1	3	0	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:197618384C>T	uc003fyo.2	-	10	1276	c.1130G>A	c.(1129-1131)CGT>CAT	p.R377H	IQCG_uc003fyn.2_Missense_Mutation_p.R279H|IQCG_uc003fyp.2_Missense_Mutation_p.R377H|IQCG_uc003fym.2_Missense_Mutation_p.R78H	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	377											0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;7.19e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.149)		CTTTTCTATACGATCTTCAAT	0.398													7	111					0	0	0.00308	0	0		T	197618384	T	T	197618384	3	4	4	1	0	0	0	0	1	0	0	0	7826	536	19	1	209	1	IQCG	3	197618384	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	58	197618384	404046	974	2940											
ZNF595	152687	broad.mit.edu	37	chr4	86474	86474	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcttattatacacaggagCattcattctgaacaaaaact	16	12	5	8	0	3	1	1	1	2	0	3	2	3	2	0	1	4	1	0	1	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:86474C>A	uc003fzv.1	+	6	1236	c.1080C>A	c.(1078-1080)AGC>AGA	p.S360R	ZNF595_uc003fzu.1_Intron|ZNF718_uc003fzt.3_Intron|ZNF595_uc011bus.1_Missense_Mutation_p.S128R|ZNF595_uc011but.1_Missense_Mutation_p.S128R	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	360					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		TACACAGGAGCATTCATTCTG	0.343													35	91					4.14481e-20	4.53955e-20	0.00623	1	0		A	86474	A	A	86474	3	1	4	1	0	0	0	0	1	0	0	0	18050	710	25	5	1093	5	ZNF595	4	86474	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08		86474	191067802	975	2941											
ZNF721	170960	broad.mit.edu	37	chr4	436305	436306	+	Missense_Mutation	DNP	CA	TG	TG																															attcaggtctgttgatggggCaaaggctttgccacactctt																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:436305_436306CA>TG	uc003gag.2	-	3	2641_2642	c.1950_1951TG>CA	c.(1948-1953)TTTGCC>TTCACC	p.A651T	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.A683T|ZNF721_uc010ibe.2_Missense_Mutation_p.A639T	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	651						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GTTGATGGGGCAAAGGCTTTGC	0.436													18	138					0	0	0.004672	0	0		TG	436306	TG	TG	436305	3	4	4	1	0	0	0	0	1	0	0	0	18147	710	25	2	824	2	ZNF721	4	436305	Missense_Mutation	DNP	CA	TCGA-BR-4184-01A-01D-1126-08	349831	436305	190717971	976	2942											
ZNF721	170960	broad.mit.edu	37	chr4	436378	436378	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttctgttgattcaggtcCgtgtaccatacaaagtcttt	8	17	7	9	1	4	1	1	1	3	0	5	1	5	1	2	1	2	2	2	1	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:436378C>T	uc003gag.2	-	3	2569	c.1878G>A	c.(1876-1878)ACG>ACA	p.T626T	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Silent_p.T658T|ZNF721_uc010ibe.2_Silent_p.T614T	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	626						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GATTCAGGTCCGTGTACCATA	0.418													5	221					0	0	0.001984	0	0		T	436378	T	T	436378	2	4	4	1	0	0	0	0	0	0	0	1	18147	639	23	1		1	ZNF721	4	436378	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	73	436378	190717898	977	2943											
PIGG	54872	broad.mit.edu	37	chr4	517475	517475	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcctctgtgtggaacaaggGcatgacggggccacagcagc	9	5	16	11	1	1	1	0	1	1	0	1	2	1	2	2	5	3	2	2	5	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:517475G>A	uc003gak.3	+	9	1978	c.1842G>A	c.(1840-1842)GGG>GGA	p.G614G	PIGG_uc003gaj.3_Silent_p.G606G|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Silent_p.G481G|PIGG_uc003gal.3_Silent_p.G525G	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	614					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						TGGAACAAGGGCATGACGGGG	0.587													18	38					0	0	0.010504	0	0		A	517475	A	A	517475	2	1	4	1	0	0	0	0	0	0	0	1	11907	1190	42	2		2	PIGG	4	517475	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	81097	517475	190636801	978	2944											
GAK	2580	broad.mit.edu	37	chr4	871523	871523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcacgggtgtcatgaccacgGccctcaccaggatgggcttg	7	7	14	13	2	2	1	2	1	0	0	2	2	2	2	3	4	0	2	3	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:871523G>A	uc003gbm.3	-	16	1935	c.1736C>T	c.(1735-1737)GCC>GTC	p.A579V	GAK_uc003gbn.3_Missense_Mutation_p.A500V|GAK_uc010ibk.1_Missense_Mutation_p.A473V|GAK_uc003gbl.3_Missense_Mutation_p.A443V	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	579	C2 tensin-type.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		CATGACCACGGCCCTCACCAG	0.652													13	18					0	0	0.00245	0	0		A	871523	A	A	871523	3	1	4	1	0	0	0	0	1	0	0	0	6210	1203	42	2	2251	2	GAK	4	871523	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	354048	871523	190282753	979	2945											
CTBP1	1487	broad.mit.edu	37	chr4	1209971	1209971	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgaaggccttggcccgcagCgccactgcctgccccacgcg	5	4	12	20	5	0	0	0	0	0	0	0	1	0	0	7	2	3	1	7	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:1209971C>T	uc003gcv.1	-	5	735	c.570G>A	c.(568-570)GCG>GCA	p.A190A	uc003gcs.1_RNA|CTBP1_uc003gct.1_Silent_p.A171A|CTBP1_uc003gcu.1_Silent_p.A179A|CTBP1_uc003gcw.2_5'Flank	NM_001328	NP_001319	Q13363	CTBP1_HUMAN	C-terminal binding protein 1 isoform 1	190					interspecies interaction between organisms|negative regulation of cell proliferation|negative regulation of histone H4 acetylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone deacetylation|protein phosphorylation|regulation of cell cycle|regulation of transcription by chromatin organization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|viral genome replication|white fat cell differentiation	cytoplasm|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein C-terminus binding|protein domain specific binding|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00818)	Colorectal(103;0.2)		TGGCCCGCAGCGCCACTGCCT	0.682													3	8					0	0	0.001168	0	0		T	1209971	T	T	1209971	2	4	4	1	0	0	0	0	0	0	0	1	4000	755	27	1		1	CTBP1	4	1209971	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	338448	1209971	189944305	980	2946											
MAEA	10296	broad.mit.edu	37	chr4	1326598	1326598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccagctggacgaggtgcGccaggccatgggcatgctgg	7	5	18	11	2	0	0	0	0	0	0	0	3	0	1	3	5	4	3	3	5	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:1326598G>A	uc003gda.2	+	6	740	c.710G>A	c.(709-711)CGC>CAC	p.R237H	MAEA_uc003gdb.2_Missense_Mutation_p.R196H|MAEA_uc011bvb.1_Missense_Mutation_p.R169H|MAEA_uc003gdc.2_Silent_p.A170A|MAEA_uc003gdd.2_RNA|MAEA_uc011bvc.1_Missense_Mutation_p.R236H|MAEA_uc011bvd.1_Missense_Mutation_p.R189H|MAEA_uc010ibt.2_Intron|MAEA_uc010ibu.2_RNA	NM_001017405	NP_001017405	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher isoform 1	237					cell adhesion|cell cycle|cell division|erythrocyte maturation|negative regulation of myeloid cell apoptosis|regulation of mitotic cell cycle	actomyosin contractile ring|integral to plasma membrane|membrane fraction|nuclear matrix|spindle	actin binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0201)			GACGAGGTGCGCCAGGCCATG	0.547													5	14					0	0	0.001168	0	0		A	1326598	A	A	1326598	3	1	4	1	0	0	0	0	1	0	0	0	9171	1087	38	1	732	1	MAEA	4	1326598	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	116627	1326598	189827678	981	2947											
KIAA1530	57654	broad.mit.edu	37	chr4	1347064	1347064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctgcaggccaccccagagCgggcggcggggcacagccat	7	3	15	16	3	1	1	0	0	1	1	1	1	1	1	4	5	3	2	4	5	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:1347064C>T	uc003gde.3	+	5	1244	c.797C>T	c.(796-798)GCG>GTG	p.A266V		NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	266											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			CACCCCAGAGCGGGCGGCGGG	0.716													5	6					0	0	0.000602	0	0		T	1347064	T	T	1347064	3	4	4	1	0	0	0	0	1	0	0	0	8257	768	27	1	811	1	KIAA1530	4	1347064	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20466	1347064	189807212	982	2948											
TNIP2	79155	broad.mit.edu	37	chr4	2746482	2746482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggccgtcctggaggccGccagctcctgcttcacttcg	3	8	12	18	4	1	0	1	0	0	0	4	1	3	1	6	3	2	2	6	3	0	2	rs150823075		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:2746482G>A	uc003gfg.2	-	4	935	c.848C>T	c.(847-849)GCG>GTG	p.A283V	TNIP2_uc003gff.2_Missense_Mutation_p.A176V|TNIP2_uc003gfh.2_Intron	NM_024309	NP_077285	Q8NFZ5	TNIP2_HUMAN	A20-binding inhibitor of NF-kappaB activation 2	283	Potential.					cytosol	protein binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CCTGGAGGCCGCCAGCTCCTG	0.607													16	26					0	0	0.004007	0	0		A	2746482	A	A	2746482	3	1	4	1	0	0	0	0	1	0	0	0	16340	1087	38	1	453	1	TNIP2	4	2746482	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1399418	2746482	188407794	983	2949											
MFSD10	10227	broad.mit.edu	37	chr4	2933648	2933648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagactaggcccaggcggCgcaggctgctgagccctggg	7	5	17	12	2	0	2	0	1	0	1	0	2	0	2	2	5	2	4	2	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:2933648C>T	uc003gfw.2	-	7	1132	c.818G>A	c.(817-819)CGC>CAC	p.R273H	MFSD10_uc003gfv.2_5'Flank|MFSD10_uc003gfx.2_Missense_Mutation_p.R97H|MFSD10_uc003gfz.2_Missense_Mutation_p.R273H|MFSD10_uc003gfy.2_RNA|MFSD10_uc003gga.2_Missense_Mutation_p.R273H|MFSD10_uc003ggb.1_Missense_Mutation_p.R273H|MFSD10_uc003ggc.2_Missense_Mutation_p.R273H|C4orf10_uc003ggd.1_5'Flank|C4orf10_uc003gge.1_5'Flank	NM_001120	NP_001111	Q14728	MFS10_HUMAN	major facilitator superfamily domain containing	273					apoptosis	integral to membrane	tetracycline transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		GCCCAGGCGGCGCAGGCTGCT	0.662													3	7					0	0	0.000602	0	0		T	2933648	T	T	2933648	3	4	4	1	0	0	0	0	1	0	0	0	9546	768	27	1	573	1	MFSD10	4	2933648	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	187166	2933648	188220628	984	2950											
MFSD10	10227	broad.mit.edu	37	chr4	2933868	2933868	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcatcacggaaccccagggCgatagagggcgcctgtgggg	8	4	17	12	4	1	1	1	0	0	1	1	3	1	2	3	5	1	1	3	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:2933868C>T	uc003gfw.2	-	6	1020	c.706G>A	c.(706-708)GCC>ACC	p.A236T	MFSD10_uc003gfv.2_5'Flank|MFSD10_uc003gfx.2_Missense_Mutation_p.A60T|MFSD10_uc003gfz.2_Missense_Mutation_p.A236T|MFSD10_uc003gfy.2_RNA|MFSD10_uc003gga.2_Missense_Mutation_p.A236T|MFSD10_uc003ggb.1_Missense_Mutation_p.A236T|MFSD10_uc003ggc.2_Missense_Mutation_p.A236T|C4orf10_uc003ggd.1_5'Flank|C4orf10_uc003gge.1_5'Flank	NM_001120	NP_001111	Q14728	MFS10_HUMAN	major facilitator superfamily domain containing	236					apoptosis	integral to membrane	tetracycline transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		AACCCCAGGGCGATAGAGGGC	0.662													4	4					0	0	0.001168	0	0		T	2933868	T	T	2933868	3	4	4	1	0	0	0	0	1	0	0	0	9546	768	27	1	689	1	MFSD10	4	2933868	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	220	2933868	188220408	985	2951											
MFSD10	10227	broad.mit.edu	37	chr4	2934476	2934476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagactgcatatgaggtggCcacacccatctgcccagggg	9	6	12	14	0	1	2	0	1	1	1	1	2	1	2	4	4	2	1	4	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:2934476C>T	uc003gfw.2	-	4	696	c.382G>A	c.(382-384)GCC>ACC	p.A128T	MFSD10_uc003gfv.2_5'Flank|MFSD10_uc003gfx.2_Intron|MFSD10_uc003gfz.2_Missense_Mutation_p.A128T|MFSD10_uc003gfy.2_RNA|MFSD10_uc003gga.2_Missense_Mutation_p.A128T|MFSD10_uc003ggb.1_Missense_Mutation_p.A128T|MFSD10_uc003ggc.2_Missense_Mutation_p.A128T|C4orf10_uc003ggd.1_5'Flank|C4orf10_uc003gge.1_5'Flank|C4orf10_uc003ggg.1_5'Flank|C4orf10_uc003ggh.2_5'Flank	NM_001120	NP_001111	Q14728	MFS10_HUMAN	major facilitator superfamily domain containing	128	Helical; (Potential).				apoptosis	integral to membrane	tetracycline transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		TATGAGGTGGCCACACCCATC	0.642													5	14					0	0	0.000602	0	0		T	2934476	T	T	2934476	3	4	4	1	0	0	0	0	1	0	0	0	9546	739	26	2	1021	2	MFSD10	4	2934476	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	608	2934476	188219800	986	2952											
RGS12	6002	broad.mit.edu	37	chr4	3318578	3318578	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggatgcaagtattttaaaCgtggcgatgatcgtgggcta	10	13	13	5	3	0	1	0	1	0	0	1	3	0	2	0	3	2	3	0	3	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:3318578C>T	uc003ggw.2	+	2	1585	c.681C>T	c.(679-681)AAC>AAT	p.N227N	RGS12_uc003ggu.2_Silent_p.N227N|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Silent_p.N227N|RGS12_uc003ggx.1_Silent_p.N227N	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	227						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GTATTTTAAACGTGGCGATGA	0.468													12	61					0	0	0.00245	0	0		T	3318578	T	T	3318578	2	4	4	1	0	0	0	0	0	0	0	1	13320	535	19	1		1	RGS12	4	3318578	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	384102	3318578	187835698	987	2953											
LRPAP1	4043	broad.mit.edu	37	chr4	3519827	3519827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggccctggttgatgctgcGcagcttctccttcagctccg	4	11	11	15	2	2	1	1	1	1	0	4	1	3	1	3	2	4	5	3	2	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:3519827G>A	uc003ghi.2	-	5	770	c.685C>T	c.(685-687)CGC>TGC	p.R229C		NM_002337	NP_002328	P30533	AMRP_HUMAN	low density lipoprotein receptor-related protein	229	Potential.				negative regulation of protein binding|negative regulation of very-low-density lipoprotein particle clearance|protein folding|vesicle-mediated transport	cell surface|integral to membrane|plasma membrane	asialoglycoprotein receptor activity|heparin binding|low-density lipoprotein particle receptor binding|receptor antagonist activity|unfolded protein binding|very-low-density lipoprotein particle receptor binding			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.165)		TTGATGCTGCGCAGCTTCTCC	0.627													4	22					0	0	0.009096	0	0		A	3519827	A	A	3519827	3	1	4	1	0	0	0	0	1	0	0	0	8982	1087	38	1	404	1	LRPAP1	4	3519827	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	201249	3519827	187634449	988	2954											
D4S234E	27065	broad.mit.edu	37	chr4	4419079	4419079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccaagcagagcatcacgCgctccgtatcgccctggatg	8	7	12	14	4	1	1	1	0	0	1	3	2	2	2	3	2	2	4	3	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:4419079C>T	uc011bvz.1	+	8	1756	c.475C>T	c.(475-477)CGC>TGC	p.R159C	D4S234E_uc011bwa.1_Missense_Mutation_p.R120C|D4S234E_uc003ghz.2_Missense_Mutation_p.R159C|D4S234E_uc003gia.2_Missense_Mutation_p.R159C|D4S234E_uc003gib.2_Missense_Mutation_p.R159C	NM_014392	NP_055207	P42857	NSG1_HUMAN	brain neuron cytoplasmic protein 1	159	Lumenal (Potential).				dopamine receptor signaling pathway	Golgi membrane|integral to membrane|nucleus	dopamine receptor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.166)		GAGCATCACGCGCTCCGTATC	0.547													41	118					0	0	0.002522	0	0		T	4419079	T	T	4419079	3	4	4	1	0	0	0	0	1	0	0	0	4217	768	27	1	489	1	D4S234E	4	4419079	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	899252	4419079	186735197	989	2955											
STK32B	55351	broad.mit.edu	37	chr4	5458606	5458606	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaaggtggagcgtgtccacTactcctccacgtggtgcaag	8	9	12	12	2	1	0	1	0	0	0	4	1	4	1	3	3	3	1	3	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:5458606T>C	uc003gih.1	+	8	803	c.739T>C	c.(739-741)TAC>CAC	p.Y247H	STK32B_uc010ida.1_Missense_Mutation_p.Y200H	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	247	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						GCGTGTCCACTACTCCTCCAC	0.567													6	11					0	0	0.00308	0	0		C	5458606	C	C	5458606	3	2	4	1	0	0	0	0	1	0	0	0	15323	1522	53	3	769	3	STK32B	4	5458606	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1039527	5458606	185695670	990	2956											
C4orf6	10141	broad.mit.edu	37	chr4	5527158	5527158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttgggaaggaaggaacacGcaaaaatttttaccttcttc	14	12	8	7	1	1	0	0	0	1	0	2	3	1	3	1	3	2	1	1	3	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:5527158G>A	uc003gii.2	+	1	276	c.101G>A	c.(100-102)CGC>CAC	p.R34H		NM_005750	NP_005741	Q99440	CD006_HUMAN	chromosome 4 open reading frame 6	34					nervous system development						0						gaaggaacacgcaaaaatttt	0													17	34					0	0	0.008871	0	0		A	5527158	A	A	5527158	3	1	4	1	0	0	0	0	1	0	0	0	2281	1087	38	1	103	1	C4orf6	4	5527158	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	68552	5527158	185627118	991	2957											
EVC	2121	broad.mit.edu	37	chr4	5803721	5803721	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagagcgtctacgtgaccagCgctggtgtcagccgcctggt	6	8	15	12	4	2	2	1	1	1	1	2	3	2	2	3	2	4	1	3	2	1	1	rs138114051		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:5803721C>T	uc003gil.1	+	16	2533	c.2349C>T	c.(2347-2349)AGC>AGT	p.S783S	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	783					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				ACGTGACCAGCGCTGGTGTCA	0.592													10	14					0	0	0.008291	0	0		T	5803721	T	T	5803721	2	4	4	1	0	0	0	0	0	0	0	1	5293	767	27	1		1	EVC	4	5803721	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	276563	5803721	185350555	992	2958											
CRMP1	1400	broad.mit.edu	37	chr4	5838577	5838577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagttgtccttgcccaccGccttctgggcagtgctgtag	6	12	11	12	1	1	0	0	0	1	0	2	0	2	0	4	1	2	4	4	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:5838577G>A	uc003gip.2	-	11	1126	c.1025C>T	c.(1024-1026)GCG>GTG	p.A342V	CRMP1_uc003gin.1_Missense_Mutation_p.A254V|CRMP1_uc003giq.2_Missense_Mutation_p.A342V|CRMP1_uc003gir.2_Missense_Mutation_p.A337V|CRMP1_uc003gis.2_Missense_Mutation_p.A456V	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	342					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		CTTGCCCACCGCCTTCTGGGC	0.577													11	44					0	0	0.003163	0	0		A	5838577	A	A	5838577	3	1	4	1	0	0	0	0	1	0	0	0	3893	1087	38	1	713	1	CRMP1	4	5838577	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	34856	5838577	185315699	993	2959											
PPP2R2C	5522	broad.mit.edu	37	chr4	6374363	6374363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agttgatgtggtaggtgtggCcattggcaaagatcctccga	9	11	14	7	1	0	2	0	1	0	1	2	3	2	2	3	4	0	3	3	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:6374363C>T	uc003gjc.2	-	5	882	c.512G>A	c.(511-513)GGC>GAC	p.G171D	PPP2R2C_uc003gjb.2_Missense_Mutation_p.G154D|PPP2R2C_uc011bwd.1_Missense_Mutation_p.G164D|PPP2R2C_uc011bwe.1_Missense_Mutation_p.G164D|PPP2R2C_uc003gja.2_Missense_Mutation_p.G171D|PPP2R2C_uc003gjd.1_Missense_Mutation_p.G259D	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	171	WD 3.				signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						GTAGGTGTGGCCATTGGCAAA	0.587													24	68					0	0	0.004656	0	0		T	6374363	T	T	6374363	3	4	4	1	0	0	0	0	1	0	0	0	12408	739	26	2	851	2	PPP2R2C	4	6374363	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	535786	6374363	184779913	994	2960											
MAN2B2	23324	broad.mit.edu	37	chr4	6612965	6612965	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccagaggagcgcactggcGctgcagcacaggcccgtggt	7	4	16	14	4	0	1	0	0	0	1	0	2	0	2	2	4	3	4	2	4	0	0	rs138297924	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:6612965G>A	uc003gjf.1	+	15	2559	c.2523G>A	c.(2521-2523)GCG>GCA	p.A841A	MAN2B2_uc003gje.1_Silent_p.A841A|MAN2B2_uc011bwf.1_Silent_p.A790A	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	841					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						GCGCACTGGCGCTGCAGCACA	0.637													7	28					0	0	0.00308	0	0		A	6612965	A	A	6612965	2	1	4	1	0	0	0	0	0	0	0	1	9235	1074	38	1		1	MAN2B2	4	6612965	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	238602	6612965	184541311	995	2961											
TADA2B	93624	broad.mit.edu	37	chr4	7056185	7056185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcggcggaagaacatcGcccgtgactacaatctggtg	11	6	13	11	4	1	2	0	1	1	1	2	4	1	3	1	3	3	0	1	3	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:7056185G>A	uc003gjw.3	+	2	818	c.667G>A	c.(667-669)GCC>ACC	p.A223T	TADA2B_uc010idi.2_Missense_Mutation_p.A148T	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	223					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0						GAAGAACATCGCCCGTGACTA	0.567													7	70					0	0	0.001984	0	0		A	7056185	A	A	7056185	3	1	4	1	0	0	0	0	1	0	0	0	15536	1087	38	1	673	1	TADA2B	4	7056185	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	443220	7056185	184098091	996	2962											
ABLIM2	84448	broad.mit.edu	37	chr4	8010821	8010821	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcctccccatccgatcGcctggcagctggaagggaaa	9	7	10	15	2	0	0	0	0	0	0	5	3	4	2	6	3	1	2	6	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:8010821G>A	uc003gko.2	-	14	1476	c.1333C>T	c.(1333-1335)CGA>TGA	p.R445*	ABLIM2_uc003gkk.2_Nonsense_Mutation_p.R108*|ABLIM2_uc003gkl.2_Nonsense_Mutation_p.R172*|ABLIM2_uc003gkj.3_Nonsense_Mutation_p.R478*|ABLIM2_uc003gkm.3_Nonsense_Mutation_p.R393*|ABLIM2_uc003gkp.2_Nonsense_Mutation_p.R404*|ABLIM2_uc003gkq.2_Nonsense_Mutation_p.R445*|ABLIM2_uc003gkr.2_Nonsense_Mutation_p.R393*|ABLIM2_uc003gks.3_Nonsense_Mutation_p.R404*	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	445					axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3						CCATCCGATCGCCTGGCAGCT	0.483													7	91					0	0	0.006214	0	0		A	8010821	A	A	8010821	4	1	4	1	0	0	0	0	0	1	0	0	95	1095	38	1	550	1	ABLIM2	4	8010821	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	954636	8010821	183143455	997	2963											
SH3TC1	54436	broad.mit.edu	37	chr4	8230088	8230088	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgagagctactaccgcgcCctgcgggtggctcgggacct	5	7	15	14	4	0	1	0	1	0	1	1	3	0	2	3	3	4	3	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:8230088C>T	uc003gkv.3	+	12	2768	c.2667C>T	c.(2665-2667)GCC>GCT	p.A889A	SH3TC1_uc003gkw.3_Silent_p.A813A|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	889	TPR 5.						binding			large_intestine(2)|pancreas(1)	3						ACTACCGCGCCCTGCGGGTGG	0.697													5	16					0	0	0.00308	0	0		T	8230088	T	T	8230088	2	4	4	1	0	0	0	0	0	0	0	1	14286	610	22	4		4	SH3TC1	4	8230088	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	219267	8230088	182924188	998	2964											
SH3TC1	54436	broad.mit.edu	37	chr4	8233879	8233879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctacctgtccctgggcaccGagcggtgagggctggctctg	4	9	15	13	2	2	1	0	1	2	0	3	2	3	1	3	4	2	3	3	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:8233879G>A	uc003gkv.3	+	13	3228	c.3127G>A	c.(3127-3129)GAG>AAG	p.E1043K	SH3TC1_uc003gkw.3_Missense_Mutation_p.E967K|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_RNA	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	1043	TPR 7.						binding			large_intestine(2)|pancreas(1)	3						CCTGGGCACCGAGCGGTGAGG	0.512													5	9					0	0	0.001168	0	0		A	8233879	A	A	8233879	3	1	4	1	0	0	0	0	1	0	0	0	14286	1059	37	1	3173	1	SH3TC1	4	8233879	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3791	8233879	182920397	999	2965											
ACOX3	8310	broad.mit.edu	37	chr4	8368787	8368787	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctttcctgcaggacagcGccccagaggtttttgtagag	7	12	12	10	1	0	2	0	0	0	2	1	3	1	3	3	2	3	4	3	2	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:8368787G>A	uc010idk.2	-	18	2149	c.2004C>T	c.(2002-2004)GGC>GGT	p.G668G	ACOX3_uc003glc.3_Silent_p.G668G|ACOX3_uc003gld.3_3'UTR	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	668					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						GCAGGACAGCGCCCCAGAGGT	0.478													22	41					0	0	0.00278	0	0		A	8368787	A	A	8368787	2	1	4	1	0	0	0	0	0	0	0	1	160	1074	38	1		1	ACOX3	4	8368787	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	134908	8368787	182785489	1000	2966											
ACOX3	8310	broad.mit.edu	37	chr4	8398744	8398744	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtggctgagaagcgaagagCgatggccacggccagcttta	11	6	15	9	3	0	2	0	1	0	2	0	5	0	2	2	3	3	2	2	3	3	2	rs116281866	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:8398744C>T	uc010idk.2	-	9	1121	c.976G>A	c.(976-978)GCT>ACT	p.A326T	ACOX3_uc003glc.3_Missense_Mutation_p.A326T|ACOX3_uc003gld.3_Missense_Mutation_p.A326T|ACOX3_uc003gle.1_Missense_Mutation_p.A231T	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	326					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						AAGCGAAGAGCGATGGCCACG	0.587													16	46					0	0	0.004007	0	0		T	8398744	T	T	8398744	3	4	4	1	0	0	0	0	1	0	0	0	160	768	27	1	1166	1	ACOX3	4	8398744	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	29957	8398744	182755532	1001	2967											
ACOX3	8310	broad.mit.edu	37	chr4	8416072	8416072	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggccttggtattactgcCgtggcttaattcggtcagag	8	13	12	8	2	1	1	1	0	0	1	2	1	1	1	2	4	2	2	2	4	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:8416072C>T	uc010idk.2	-	5	635	c.490G>A	c.(490-492)GGC>AGC	p.G164S	ACOX3_uc003glc.3_Missense_Mutation_p.G164S|ACOX3_uc003gld.3_Missense_Mutation_p.G164S|ACOX3_uc003gle.1_Missense_Mutation_p.G69S	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	164					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						GTATTACTGCCGTGGCTTAAT	0.463													18	49					0	0	0.00499	0	0		T	8416072	T	T	8416072	3	4	4	1	0	0	0	0	1	0	0	0	160	652	23	1	1668	1	ACOX3	4	8416072	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	17328	8416072	182738204	1002	2968											
DRD5	1816	broad.mit.edu	37	chr4	9784507	9784507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcccgacaccagcctgcGcgcttccatcaagaaggaga	10	4	11	16	5	1	2	1	0	0	2	2	4	2	2	4	1	2	1	4	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:9784507G>A	uc003gmb.3	+	1	1250	c.854G>A	c.(853-855)CGC>CAC	p.R285H		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	285	Cytoplasmic (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	ACCAGCCTGCGCGCTTCCATC	0.627													9	24					0	0	0.00245	0	0		A	9784507	A	A	9784507	3	1	4	1	0	0	0	0	1	0	0	0	4766	1087	38	1	856	1	DRD5	4	9784507	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1368435	9784507	181369769	1003	2969											
HS3ST1	9957	broad.mit.edu	37	chr4	11401090	11401090	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacattgagcctgccatcGcgcaccaggaactcctcgat	9	8	8	16	3	0	1	0	1	0	0	4	3	2	2	5	1	3	1	5	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:11401090G>A	uc003gmq.2	-	2	863	c.540C>T	c.(538-540)CGC>CGT	p.R180R		NM_005114	NP_005105	O14792	HS3S1_HUMAN	heparan sulfate D-glucosaminyl	180						Golgi lumen|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			skin(1)	1						GCCTGCCATCGCGCACCAGGA	0.587													18	31					0	0	0.00278	0	0		A	11401090	A	A	11401090	2	1	4	1	0	0	0	0	0	0	0	1	7379	1074	38	1		1	HS3ST1	4	11401090	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1616583	11401090	179753186	1004	2970											
BOD1L	259282	broad.mit.edu	37	chr4	13603266	13603266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacctgcacctgtaaccatgCgttcctcccggggccctgct	5	9	9	18	2	0	0	0	0	0	0	2	0	2	0	6	2	4	4	6	2	1	2	rs112328769		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:13603266C>T	uc003gmz.1	-	10	5375	c.5258G>A	c.(5257-5259)CGC>CAC	p.R1753H	BOD1L_uc010idr.1_Missense_Mutation_p.R1090H	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1753							DNA binding			ovary(5)|breast(1)	6						TGTAACCATGCGTTCCTCCCG	0.498													51	153					0	0	0.00361	0	0		T	13603266	T	T	13603266	3	4	4	1	0	0	0	0	1	0	0	0	1484	768	27	1	3965	1	BOD1L	4	13603266	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2202176	13603266	177551010	1005	2971											
BOD1L	259282	broad.mit.edu	37	chr4	13603592	13603592	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccttttcctctgtcacaacGctatttacattggcttcgat	7	17	5	12	2	2	0	1	0	1	0	5	1	4	0	2	1	2	2	2	1	3	7	rs144172082	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:13603592G>A	uc003gmz.1	-	10	5049	c.4932C>T	c.(4930-4932)AGC>AGT	p.S1644S	BOD1L_uc010idr.1_Silent_p.S981S	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1644							DNA binding			ovary(5)|breast(1)	6						CTGTCACAACGCTATTTACAT	0.453													44	148					0	0	0.003214	0	0		A	13603592	A	A	13603592	2	1	4	1	0	0	0	0	0	0	0	1	1484	1078	38	1		1	BOD1L	4	13603592	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	326	13603592	177550684	1006	2972											
BOD1L	259282	broad.mit.edu	37	chr4	13616946	13616946	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaaagcaccttgtgtaatAagggaagtgtctggtttctc	11	12	11	7	0	2	0	0	0	2	0	3	1	2	1	1	2	2	4	1	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:13616946A>G	uc003gmz.1	-	3	666	c.549T>C	c.(547-549)CTT>CTC	p.L183L	BOD1L_uc010idr.1_5'UTR|BOD1L_uc010ids.1_RNA	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	183							DNA binding			ovary(5)|breast(1)	6						CTTGTGTAATAAGGGAAGTGT	0.408													5	192					0	0	0.001168	0	0		G	13616946	G	G	13616946	2	3	4	1	0	0	0	0	0	0	0	1	1484	349	13	3		3	BOD1L	4	13616946	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	13354	13616946	177537330	1007	2973											
LAP3	51056	broad.mit.edu	37	chr4	17586688	17586688	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgccagccaatgagatgacGccaaccagatttgctgaaat	14	7	9	11	2	0	4	0	3	0	2	0	5	0	4	4	0	3	1	4	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:17586688G>A	uc003gph.1	+	6	795	c.633G>A	c.(631-633)ACG>ACA	p.T211T	LAP3_uc010ieg.2_3'UTR	NM_015907	NP_056991	P28838	AMPL_HUMAN	leucine aminopeptidase 3	211					proteolysis	nucleus	aminopeptidase activity|magnesium ion binding|manganese ion binding|metalloexopeptidase activity|zinc ion binding				0						ATGAGATGACGCCAACCAGAT	0.453													8	95					0	0	0.006214	0	0		A	17586688	A	A	17586688	2	1	4	1	0	0	0	0	0	0	0	1	8639	1074	38	1		1	LAP3	4	17586688	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3969742	17586688	173567588	1008	2974											
SLIT2	9353	broad.mit.edu	37	chr4	20570602	20570602	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcattaataactacacAtgcctttgcccacctgagta	12	11	7	11	0	0	1	0	1	0	0	0	2	0	1	3	1	4	2	3	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:20570602A>G	uc003gpr.1	+	29	3267	c.3063A>G	c.(3061-3063)ACA>ACG	p.T1021T	SLIT2_uc003gps.1_Silent_p.T1013T	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1021	EGF-like 3; calcium-binding (Potential).				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						ATAACTACACATGCCTTTGCC	0.333													14	60					0	0	0.004007	0	0		G	20570602	G	G	20570602	2	3	4	1	0	0	0	0	0	0	0	1	14765	204	8	3		3	SLIT2	4	20570602	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	2983914	20570602	170583674	1009	2975											
SLIT2	9353	broad.mit.edu	37	chr4	20597356	20597356	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtacgtaggtgaacactgCgacatcgattttgacgactg	10	10	13	8	4	0	2	0	2	0	0	1	5	0	2	0	2	3	2	0	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:20597356C>T	uc003gpr.1	+	31	3423	c.3219C>T	c.(3217-3219)TGC>TGT	p.C1073C	SLIT2_uc003gps.1_Silent_p.C1065C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1073	EGF-like 4.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GTGAACACTGCGACATCGATT	0.463													47	159					0	0	0.00361	0	0		T	20597356	T	T	20597356	2	4	4	1	0	0	0	0	0	0	0	1	14765	776	27	1		1	SLIT2	4	20597356	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	26754	20597356	170556920	1010	2976											
PI4K2B	55300	broad.mit.edu	37	chr4	25270822	25270822	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgtctgtgatgaggggTcaggtaagttacctttttat	9	15	12	5	0	2	3	1	2	1	1	2	3	2	3	1	3	1	2	1	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:25270822T>C	uc003grk.2	+	9	1402	c.1269T>C	c.(1267-1269)GGT>GGC	p.G423G	PI4K2B_uc011bxs.1_Silent_p.G327G	NM_018323	NP_060793	Q8TCG2	P4K2B_HUMAN	phosphatidylinositol 4-kinase type 2 beta	423	PI3K/PI4K.					cytoplasm|membrane	1-phosphatidylinositol 4-kinase activity|ATP binding			ovary(2)|skin(2)	4		Breast(46;0.173)				TGATGAGGGGTCAGGTAAGTT	0.333													7	87					0	0	0.001984	0	0		C	25270822	C	C	25270822	2	2	4	1	0	0	0	0	0	0	0	1	11891	1654	58	3		3	PI4K2B	4	25270822	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	4673466	25270822	165883454	1011	2977											
RBPJ	3516	broad.mit.edu	37	chr4	26407807	26407807	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtttttagggaagctatgCgaaattatttaaaagagcga	14	14	10	3	2	0	1	0	0	0	1	0	4	0	2	0	1	3	2	0	1	7	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:26407807C>T	uc003grx.1	+	4	345	c.109C>T	c.(109-111)CGA>TGA	p.R37*	RBPJ_uc003gry.1_Nonsense_Mutation_p.R22*|RBPJ_uc003grz.1_Nonsense_Mutation_p.R37*|RBPJ_uc011bxt.1_Nonsense_Mutation_p.R37*|RBPJ_uc003gsa.1_Nonsense_Mutation_p.R23*|RBPJ_uc003gsb.1_Nonsense_Mutation_p.R24*|RBPJ_uc003gsc.1_Nonsense_Mutation_p.R23*	NM_005349	NP_005340	Q06330	SUH_HUMAN	recombining binding protein suppressor of	37					DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)				GGAAGCTATGCGAAATTATTT	0.323													14	57					0	0	0.004007	0	0		T	26407807	T	T	26407807	4	4	4	1	0	0	0	0	0	1	0	0	13186	760	27	1	182	1	RBPJ	4	26407807	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1136985	26407807	164746469	1012	2978											
RBPJ	3516	broad.mit.edu	37	chr4	26431567	26431567	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagatgataaatgatggCgcttcctggacaatcattag	15	10	10	6	1	1	3	1	2	0	1	2	5	2	4	1	2	0	1	1	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:26431567C>T	uc003grx.1	+	10	1211	c.975C>T	c.(973-975)GGC>GGT	p.G325G	RBPJ_uc003gry.1_Silent_p.G310G|RBPJ_uc003grz.1_Silent_p.G325G|RBPJ_uc011bxt.1_Silent_p.G325G|RBPJ_uc003gsa.1_Silent_p.G311G|RBPJ_uc003gsb.1_Silent_p.G312G|RBPJ_uc003gsc.1_Silent_p.G311G	NM_005349	NP_005340	Q06330	SUH_HUMAN	recombining binding protein suppressor of	325					DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)				TAAATGATGGCGCTTCCTGGA	0.403													14	52					0	0	0.00245	0	0		T	26431567	T	T	26431567	2	4	4	1	0	0	0	0	0	0	0	1	13186	755	27	1		1	RBPJ	4	26431567	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	23760	26431567	164722709	1013	2979											
STIM2	57620	broad.mit.edu	37	chr4	27019446	27019446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctcagcttgctccacacGccccccacccgtcacaccct	7	6	6	22	2	2	0	2	0	0	0	3	1	3	0	6	0	3	3	6	0	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:27019446G>A	uc003gsh.3	+	12	2104	c.1888G>A	c.(1888-1890)GCC>ACC	p.A630T	STIM2_uc003gsg.3_Missense_Mutation_p.A622T|STIM2_uc010iex.2_Missense_Mutation_p.A622T|STIM2_uc010iey.2_Missense_Mutation_p.A246T	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2	535	Cytoplasmic (Potential).|His/Pro-rich.				activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)				TGCTCCACACGCCCCCCACCC	0.622													36	100					0	0	0.003755	0	0		A	27019446	A	A	27019446	3	1	4	1	0	0	0	0	1	0	0	0	15309	1087	38	1	1673	1	STIM2	4	27019446	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	587879	27019446	164134830	1014	2980											
PCDH7	5099	broad.mit.edu	37	chr4	30723444	30723444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgagggtcaggtcatcgtgCttgacatcaacgacaacacg	11	9	11	10	3	3	2	3	2	0	0	4	3	3	2	0	2	3	1	0	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:30723444C>T	uc003gsk.1	+	1	1408	c.400C>T	c.(400-402)CTT>TTT	p.L134F	PCDH7_uc011bxw.1_Missense_Mutation_p.L134F|PCDH7_uc011bxx.1_Missense_Mutation_p.L134F	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	134	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GGTCATCGTGCTTGACATCAA	0.612													6	8					0	0	0.00308	0	0		T	30723444	T	T	30723444	3	4	4	1	0	0	0	0	1	0	0	0	11535	797	28	2	402	2	PCDH7	4	30723444	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3703998	30723444	160430832	1015	2981											
PCDH7	5099	broad.mit.edu	37	chr4	30724207	30724207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcttcacggtcatggcccGcgaccgcgggcagcccccca	5	4	13	19	6	2	0	2	0	0	0	2	1	2	0	5	3	1	2	5	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:30724207G>A	uc003gsk.1	+	1	2171	c.1163G>A	c.(1162-1164)CGC>CAC	p.R388H	PCDH7_uc011bxw.1_Missense_Mutation_p.R341H|PCDH7_uc011bxx.1_Missense_Mutation_p.R388H	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	388	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GTCATGGCCCGCGACCGCGGG	0.642													8	19					0	0	0.008291	0	0		A	30724207	A	A	30724207	3	1	4	1	0	0	0	0	1	0	0	0	11535	1087	38	1	1165	1	PCDH7	4	30724207	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	763	30724207	160430069	1016	2982											
PCDH7	5099	broad.mit.edu	37	chr4	30724342	30724342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacggggtggccaacgtggCcgaggacgttctggtcgaca	7	6	18	10	5	1	0	0	0	1	0	2	4	1	2	2	7	1	1	2	7	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:30724342C>T	uc003gsk.1	+	1	2306	c.1298C>T	c.(1297-1299)GCC>GTC	p.A433V	PCDH7_uc011bxw.1_Missense_Mutation_p.A386V|PCDH7_uc011bxx.1_Missense_Mutation_p.A433V	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	433	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GCCAACGTGGCCGAGGACGTT	0.622													3	22					0	0	0.009096	0	0		T	30724342	T	T	30724342	3	4	4	1	0	0	0	0	1	0	0	0	11535	739	26	2	1300	2	PCDH7	4	30724342	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	135	30724342	160429934	1017	2983											
PCDH7	5099	broad.mit.edu	37	chr4	30725052	30725052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggatgctgacaaggggCggaatgcagagatgagcctg	11	7	17	6	1	0	4	0	3	0	1	0	7	0	6	1	4	3	2	1	4	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:30725052C>T	uc003gsk.1	+	1	3016	c.2008C>T	c.(2008-2010)CGG>TGG	p.R670W	PCDH7_uc011bxw.1_Missense_Mutation_p.R623W|PCDH7_uc011bxx.1_Missense_Mutation_p.R670W	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	670	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						TGACAAGGGGCGGAATGCAGA	0.463													30	71					0	0	0.007291	0	0		T	30725052	T	T	30725052	3	4	4	1	0	0	0	0	1	0	0	0	11535	759	27	1	2010	1	PCDH7	4	30725052	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	710	30725052	160429224	1018	2984											
PCDH7	5099	broad.mit.edu	37	chr4	30732378	30732378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattttccttctttcagatgCgtctacatccatacattact	9	18	3	11	1	3	1	1	0	2	1	5	1	5	1	2	0	4	0	2	0	4	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:30732378C>T	uc003gsk.1	+	2	4186	c.3178C>T	c.(3178-3180)CGT>TGT	p.R1060C	PCDH7_uc011bxw.1_Intron|PCDH7_uc011bxx.1_Intron	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	1060	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						CTTTCAGATGCGTCTACATCC	0.373													25	61					0	0	0.008361	0	0		T	30732378	T	T	30732378	3	4	4	1	0	0	0	0	1	0	0	0	11535	768	27	1	3229	1	PCDH7	4	30732378	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7326	30732378	160421898	1019	2985											
ARAP2	116984	broad.mit.edu	37	chr4	36085059	36085059	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgagagaaaacatcttgTcatgtttactactctgtaag	14	13	7	7	0	3	2	1	1	2	1	3	3	3	2	0	0	4	2	0	0	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:36085059T>C	uc003gsq.1	-	29	4777	c.4439A>G	c.(4438-4440)GAC>GGC	p.D1480G		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1480	PH 5.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						AAACATCTTGTCATGTTTACT	0.313													6	17					0	0	0.001984	0	0		C	36085059	C	C	36085059	3	2	4	1	0	0	0	0	1	0	0	0	839	1667	58	3	695	3	ARAP2	4	36085059	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	5352681	36085059	155069217	1020	2986											
ARAP2	116984	broad.mit.edu	37	chr4	36179566	36179566	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaacaacagcttgagactgCgaggtaagggattgtgattt	12	11	13	5	1	0	2	0	2	0	1	0	5	0	3	0	2	4	3	0	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:36179566C>T	uc003gsq.1	-	9	2078	c.1740G>A	c.(1738-1740)TCG>TCA	p.S580S	ARAP2_uc003gsr.1_Silent_p.S580S	NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	580					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						CTTGAGACTGCGAGGTAAGGG	0.378													16	73					0	0	0.006122	0	0		T	36179566	T	T	36179566	2	4	4	1	0	0	0	0	0	0	0	1	839	755	27	1		1	ARAP2	4	36179566	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	94507	36179566	154974710	1021	2987											
RELL1	768211	broad.mit.edu	37	chr4	37651073	37651073	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccagtatcgttgctgggCgacggggtcgtctctgttct	3	14	13	11	4	2	0	0	0	2	0	6	1	3	0	1	3	1	4	1	3	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:37651073C>T	uc003gsz.2	-	2	228	c.138G>A	c.(136-138)TCG>TCA	p.S46S	RELL1_uc010ifc.2_Silent_p.S46S	NM_001085399	NP_001078868	Q8IUW5	RELL1_HUMAN	receptor expressed in lymphoid tissues like 1	46	Extracellular (Potential).					cytoplasm|integral to membrane|microtubule cytoskeleton|plasma membrane					0						CGTTGCTGGGCGACGGGGTCG	0.502													17	148					0	0	0.006122	0	0		T	37651073	T	T	37651073	2	4	4	1	0	0	0	0	0	0	0	1	13243	755	27	1		1	RELL1	4	37651073	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1471507	37651073	153503203	1022	2988											
FAM114A1	92689	broad.mit.edu	37	chr4	38907188	38907188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaagcaggagccactctacGgattcatggtgtaaattctg	13	10	10	8	1	3	0	1	0	2	0	3	2	3	2	1	3	3	2	1	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:38907188G>A	uc003gtn.2	+	5	658	c.482G>A	c.(481-483)CGG>CAG	p.R161Q	FAM114A1_uc011byh.1_5'UTR	NM_138389	NP_612398	Q8IWE2	NXP20_HUMAN	hypothetical protein LOC92689	161						cytoplasm				ovary(1)	1						GCCACTCTACGGATTCATGGT	0.443													29	88					0	0	0.006999	0	0		A	38907188	A	A	38907188	3	1	4	1	0	0	0	0	1	0	0	0	5414	1116	39	1	492	1	FAM114A1	4	38907188	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1256115	38907188	152247088	1023	2989											
WDR19	57728	broad.mit.edu	37	chr4	39278679	39278679	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagaagaggccacgactccAtgtccattctgcaaatttct	12	11	7	11	1	2	2	0	0	2	2	4	3	4	2	3	1	1	1	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:39278679A>G	uc003gtv.2	+	34	3910	c.3756A>G	c.(3754-3756)CCA>CCG	p.P1252P	WDR19_uc011byi.1_Silent_p.P1092P	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19	1252					cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1						CCACGACTCCATGTCCATTCT	0.423													21	110					0	0	0.004656	0	0		G	39278679	G	G	39278679	2	3	4	1	0	0	0	0	0	0	0	1	17305	204	8	3		3	WDR19	4	39278679	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	371491	39278679	151875597	1024	2990											
RFC1	5981	broad.mit.edu	37	chr4	39290444	39290444	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttttctggttttgaaggCtttgaagattttgtcttttt	5	24	8	4	0	3	3	0	2	3	1	3	3	3	3	0	2	0	2	0	2	2	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:39290444C>T	uc003gty.1	-	25	3518	c.3384G>A	c.(3382-3384)AAG>AAA	p.K1128K	RFC1_uc003gtx.1_Silent_p.K1127K	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit	1128					DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4						GTTTTGAAGGCTTTGAAGATT	0.328													21	67					0	0	0.001882	0	0		T	39290444	T	T	39290444	2	4	4	1	0	0	0	0	0	0	0	1	13269	796	28	2		2	RFC1	4	39290444	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	11765	39290444	151863832	1025	2991											
PDS5A	23244	broad.mit.edu	37	chr4	39929664	39929664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaacatgctacaaggagacGcacatctttattggggttcc	12	10	9	10	1	1	1	0	0	1	1	2	2	2	1	1	3	3	3	1	3	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:39929664G>A	uc003guv.3	-	3	799	c.259C>T	c.(259-261)CGT>TGT	p.R87C	PDS5A_uc010ifo.2_Missense_Mutation_p.R47C|PDS5A_uc003guw.3_Missense_Mutation_p.R87C	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	87					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						ACAAGGAGACGCACATCTTTA	0.418													14	59					0	0	0.00499	0	0		A	39929664	A	A	39929664	3	1	4	1	0	0	0	0	1	0	0	0	11710	1087	38	1	3911	1	PDS5A	4	39929664	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	639220	39929664	151224612	1026	2992											
N4BP2	55728	broad.mit.edu	37	chr4	40104327	40104327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctcctgtagatttggatGccagtgaacctcaggcttgt	9	12	11	9	0	1	2	1	1	0	1	2	3	2	3	3	2	3	3	3	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:40104327G>A	uc003guy.3	+	4	1200	c.862G>A	c.(862-864)GCC>ACC	p.A288T	N4BP2_uc010ifq.2_Missense_Mutation_p.A208T|N4BP2_uc010ifr.2_Missense_Mutation_p.A208T	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	288						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						AGATTTGGATGCCAGTGAACC	0.453													7	75					0	0	0.006214	0	0		A	40104327	A	A	40104327	3	1	4	1	0	0	0	0	1	0	0	0	10128	1319	46	2	868	2	N4BP2	4	40104327	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	174663	40104327	151049949	1027	2993											
RHOH	399	broad.mit.edu	37	chr4	40245073	40245073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaaacctctctgttggtgCgcttcacctccgagaccttc	7	11	9	14	2	2	1	1	0	1	1	5	3	3	2	4	2	2	2	4	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:40245073C>T	uc003guz.2	+	3	791	c.67C>T	c.(67-69)CGC>TGC	p.R23C		NM_004310	NP_004301	Q15669	RHOH_HUMAN	ras homolog gene family, member H precursor	23					negative regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|T cell differentiation	cytosol|mitochondrion|plasma membrane	GTP binding|GTPase inhibitor activity|kinase inhibitor activity|Rho GTPase binding	p.R23H(1)		ovary(1)|lung(1)	2						TCTGTTGGTGCGCTTCACCTC	0.577													27	49					0	0	0.004656	0	0		T	40245073	T	T	40245073	3	4	4	1	0	0	0	0	1	0	0	0	13365	768	27	1	69	1	RHOH	4	40245073	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	140746	40245073	150909203	1028	2994											
RBM47	54502	broad.mit.edu	37	chr4	40440533	40440533	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgagctcacgcactgcGcgcttggcctcgtgcttgtg	3	13	13	12	4	1	1	1	1	0	0	2	1	1	1	1	1	3	5	1	1	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:40440533G>A	uc003gvc.2	-	4	1088	c.378C>T	c.(376-378)CGC>CGT	p.R126R	RBM47_uc003gvd.2_Silent_p.R126R|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Silent_p.R88R|RBM47_uc003gvg.1_Silent_p.R126R	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	126	RRM 1.					nucleus	nucleotide binding|RNA binding			breast(3)	3						CACGCACTGCGCGCTTGGCCT	0.647													6	20					0	0	0.001168	0	0		A	40440533	A	A	40440533	2	1	4	1	0	0	0	0	0	0	0	1	13166	1074	38	1		1	RBM47	4	40440533	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	195460	40440533	150713743	1029	2995											
UCHL1	7345	broad.mit.edu	37	chr4	41266152	41266152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttccggtgaaccatggcGccagttcagaggacaccctg	8	9	11	13	2	1	2	1	1	0	1	2	3	2	3	4	3	1	1	4	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:41266152G>A	uc003gvo.2	+	8	655	c.559G>A	c.(559-561)GCC>ACC	p.A187T	UCHL1_uc003gvp.2_Missense_Mutation_p.A106T|UCHL1_uc003gvq.2_Missense_Mutation_p.A106T|UCHL1_uc003gvr.2_Missense_Mutation_p.A106T|UCHL1_uc003gvs.2_Missense_Mutation_p.A106T	NM_004181	NP_004172	P09936	UCHL1_HUMAN	ubiquitin carboxyl-terminal esterase L1	187					cell death|negative regulation of MAP kinase activity|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus|plasma membrane	alpha-2A adrenergic receptor binding|cysteine-type endopeptidase activity|ligase activity|omega peptidase activity|ubiquitin binding|ubiquitin thiolesterase activity			central_nervous_system(1)|skin(1)	2						GAACCATGGCGCCAGTTCAGA	0.443													35	82					0	0	0.006999	0	0		A	41266152	A	A	41266152	3	1	4	1	0	0	0	0	1	0	0	0	16946	1087	38	1	589	1	UCHL1	4	41266152	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	825619	41266152	149888124	1030	2996											
LIMCH1	22998	broad.mit.edu	37	chr4	41664914	41664914	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatttccctccagcccccaGctgaagaatgatgtgtcgga	10	9	10	12	1	0	3	0	2	0	1	3	5	2	4	4	1	2	1	4	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:41664914G>A	uc003gvu.3	+	15	2103	c.2049G>A	c.(2047-2049)CAG>CAA	p.Q683Q	LIMCH1_uc003gvv.3_Silent_p.Q683Q|LIMCH1_uc003gvw.3_Silent_p.Q683Q|LIMCH1_uc003gvx.3_Silent_p.Q671Q|LIMCH1_uc003gwe.3_Silent_p.Q683Q|LIMCH1_uc003gvy.3_Silent_p.Q512Q|LIMCH1_uc003gwa.3_Silent_p.Q524Q|LIMCH1_uc003gvz.3_Silent_p.Q1068Q|LIMCH1_uc011byu.1_Silent_p.Q517Q|LIMCH1_uc003gwc.3_Silent_p.Q529Q|LIMCH1_uc003gwd.3_Silent_p.Q517Q|LIMCH1_uc011byv.1_Silent_p.Q434Q|LIMCH1_uc011byw.1_5'UTR	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	683					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						CCAGCCCCCAGCTGAAGAATG	0.473													14	45					0	0	0.00245	0	0		A	41664914	A	A	41664914	2	1	4	1	0	0	0	0	0	0	0	1	8813	962	34	2		2	LIMCH1	4	41664914	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	398762	41664914	149489362	1031	2997											
LIMCH1	22998	broad.mit.edu	37	chr4	41668613	41668613	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccagaacccgaagcaacGctgacatttccatttctgga	11	10	7	13	2	2	2	0	1	2	1	4	4	3	3	3	1	3	2	3	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:41668613G>A	uc003gvu.3	+	16	2226	c.2172G>A	c.(2170-2172)ACG>ACA	p.T724T	LIMCH1_uc003gvv.3_Silent_p.T724T|LIMCH1_uc003gvw.3_Silent_p.T724T|LIMCH1_uc003gvx.3_Silent_p.T712T|LIMCH1_uc003gwe.3_Intron|LIMCH1_uc003gvy.3_Silent_p.T553T|LIMCH1_uc003gwa.3_Silent_p.T565T|LIMCH1_uc003gvz.3_Silent_p.T1109T|LIMCH1_uc011byu.1_Silent_p.T558T|LIMCH1_uc003gwc.3_Silent_p.T570T|LIMCH1_uc003gwd.3_Silent_p.T558T|LIMCH1_uc011byv.1_Silent_p.T475T|LIMCH1_uc011byw.1_Silent_p.T24T	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	724					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						CCGAAGCAACGCTGACATTTC	0.403													17	56					0	0	0.010504	0	0		A	41668613	A	A	41668613	2	1	4	1	0	0	0	0	0	0	0	1	8813	1074	38	1		1	LIMCH1	4	41668613	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3699	41668613	149485663	1032	2998											
DCAF4L1	285429	broad.mit.edu	37	chr4	41984291	41984291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgcagtgctgctcccagCgtcgcggttcttaagtgttc	4	13	12	12	3	1	0	0	0	1	0	4	0	2	0	1	1	4	5	1	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:41984291C>T	uc003gwk.2	+	1	579	c.482C>T	c.(481-483)GCG>GTG	p.A161V		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	161										skin(1)	1						CTGCTCCCAGCGTCGCGGTTC	0.572													29	80					0	0	0.007291	0	0		T	41984291	T	T	41984291	3	4	4	1	0	0	0	0	1	0	0	0	4274	768	27	1	484	1	DCAF4L1	4	41984291	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	315678	41984291	149169985	1033	2999											
GABRA4	2557	broad.mit.edu	37	chr4	46967169	46967169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctatgaaccagtccatggCggtagcataggacactttgg	11	9	12	9	1	0	1	0	1	0	0	1	2	1	2	2	4	3	3	2	4	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:46967169C>T	uc003gxg.2	-	8	1091	c.952G>A	c.(952-954)GCC>ACC	p.A318T		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	318	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CAGTCCATGGCGGTAGCATAG	0.438													45	107					0	0	0.002852	0	0		T	46967169	T	T	46967169	3	4	4	1	0	0	0	0	1	0	0	0	6177	768	27	1	720	1	GABRA4	4	46967169	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4982878	46967169	144187107	1034	3000											
TEC	7006	broad.mit.edu	37	chr4	48230566	48230566	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctttgtagtttaagggCgatgtcttctttttctgctg	4	20	9	8	1	4	0	0	0	4	0	5	1	4	0	0	1	1	3	0	1	2	7	rs143430739	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:48230566C>T	uc003gxz.2	-	2	157	c.66G>A	c.(64-66)TCG>TCA	p.S22S		NM_003215	NP_003206	P42680	TEC_HUMAN	tec protein tyrosine kinase	22	PH.				intracellular protein kinase cascade	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)	9						AGTTTAAGGGCGATGTCTTCT	0.388													6	66					0	0	0.001168	0	0		T	48230566	T	T	48230566	2	4	4	1	0	0	0	0	0	0	0	1	15767	755	27	1		1	TEC	4	48230566	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1263397	48230566	142923710	1035	3001											
FRYL	285527	broad.mit.edu	37	chr4	48591779	48591779	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtaatcatgtcttcaggCtccttattagacatctgcac	10	14	6	11	1	4	1	2	0	2	1	5	1	5	1	1	1	2	3	1	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:48591779C>T	uc003gyh.1	-	18	2228	c.1623G>A	c.(1621-1623)GAG>GAA	p.E541E	FRYL_uc003gyk.2_Silent_p.E541E	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	541					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TGTCTTCAGGCTCCTTATTAG	0.398													34	99					0	0	0.004289	0	0		T	48591779	T	T	48591779	2	4	4	1	0	0	0	0	0	0	0	1	6078	796	28	2		2	FRYL	4	48591779	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	361213	48591779	142562497	1036	3002											
DCUN1D4	23142	broad.mit.edu	37	chr4	52765528	52765528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaacttatttacagatatgCgtttgactttgcacgggtga	11	15	9	6	2	0	3	0	2	0	1	0	3	0	3	0	1	4	2	0	1	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:52765528C>T	uc003gze.2	+	8	732	c.599C>T	c.(598-600)GCG>GTG	p.A200V	DCUN1D4_uc003gzf.2_Missense_Mutation_p.A200V|DCUN1D4_uc011bzn.1_Missense_Mutation_p.A140V|DCUN1D4_uc003gzg.2_RNA|DCUN1D4_uc003gzh.2_RNA|DCUN1D4_uc011bzo.1_Missense_Mutation_p.A244V	NM_001040402	NP_001035492	Q92564	DCNL4_HUMAN	DCN1, defective in cullin neddylation 1, domain	200	DCUN1.									ovary(2)	2			GBM - Glioblastoma multiforme(4;1.93e-11)|LUSC - Lung squamous cell carcinoma(32;0.00654)			TACAGATATGCGTTTGACTTT	0.353													4	19					0	0	0.000602	0	0		T	52765528	T	T	52765528	3	4	4	1	0	0	0	0	1	0	0	0	4319	768	27	1	629	1	DCUN1D4	4	52765528	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4173749	52765528	138388748	1037	3003											
SGCB	6443	broad.mit.edu	37	chr4	52895985	52895985	+	Silent	SNP	G	A	A																															tgaaactccatactatcacaGccatttggtccaatgcgaat																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:52895985G>A	uc003gzj.2	-	3	348	c.288C>T	c.(286-288)GGC>GGT	p.G96G	SGCB_uc011bzp.1_Silent_p.G26G	NM_000232	NP_000223	Q16585	SGCB_HUMAN	sarcoglycan, beta	96	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma					0			GBM - Glioblastoma multiforme(4;7.63e-12)|LUSC - Lung squamous cell carcinoma(32;0.00204)			TACTATCACAGCCATTTGGTC	0.418													8	52					0	0	0.008291	0	0		A	52895985	A	A	52895985	2	1	4	1	0	0	0	0	0	0	0	1	14225	958	34	2		2	SGCB	4	52895985	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	130457	52895985	138258291	1038	3004	5	2									
SGCB	6443	broad.mit.edu	37	chr4	52895995	52895995	+	Missense_Mutation	SNP	C	T	T																															tactatcacagccatttggtCcaatgcgaatcacggcccaa																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:52895995C>T	uc003gzj.2	-	3	338	c.278G>A	c.(277-279)GGA>GAA	p.G93E	SGCB_uc011bzp.1_Missense_Mutation_p.G23E	NM_000232	NP_000223	Q16585	SGCB_HUMAN	sarcoglycan, beta	93	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma					0			GBM - Glioblastoma multiforme(4;7.63e-12)|LUSC - Lung squamous cell carcinoma(32;0.00204)			GCCATTTGGTCCAATGCGAAT	0.403													4	57					0	0	0.001168	0	0		T	52895995	T	T	52895995	3	4	4	1	0	0	0	0	1	0	0	0	14225	855	30	4	694	4	SGCB	4	52895995	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10	52895995	138258281	1039	3005	5	2									
USP46	64854	broad.mit.edu	37	chr4	53494163	53494163	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttctttggtgggatgacGccaaccttcttcttctgtgt	6	16	9	10	1	4	1	0	1	4	0	4	2	4	2	2	2	2	0	2	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:53494163G>A	uc003gzn.2	-	3	470	c.285C>T	c.(283-285)GGC>GGT	p.G95G	USP46_uc003gzm.3_Silent_p.G88G|USP46_uc011bzr.1_Silent_p.G72G|USP46_uc011bzs.1_5'UTR	NM_022832	NP_073743	P62068	UBP46_HUMAN	ubiquitin specific peptidase 46 isoform 1	95					behavior|protein deubiquitination|regulation of synaptic transmission, GABAergic|ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0295)			GTGGGATGACGCCAACCTTCT	0.438													12	25					0	0	0.001368	0	0		A	53494163	A	A	53494163	2	1	4	1	0	0	0	0	0	0	0	1	17103	1074	38	1		1	USP46	4	53494163	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	598168	53494163	137660113	1040	3006											
SCFD2	152579	broad.mit.edu	37	chr4	53773693	53773693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacatgtgttcaatatcaacGgaatctggcctctcgggatg	10	11	11	9	2	4	0	2	0	2	0	5	3	4	2	1	3	1	1	1	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:53773693G>A	uc003gzu.2	-	7	1907	c.1773C>T	c.(1771-1773)TCC>TCT	p.S591S	SCFD2_uc010igm.2_Intron	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2	591					protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			CAATATCAACGGAATCTGGCC	0.403													37	87					0	0	0.00623	0	0		A	53773693	A	A	53773693	2	1	4	1	0	0	0	0	0	0	0	1	13915	1103	39	1		1	SCFD2	4	53773693	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	279530	53773693	137380583	1041	3007											
LNX1	84708	broad.mit.edu	37	chr4	54364904	54364904	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatggaccagtggggtttcGctacctcccaccagcctaat	9	10	9	13	1	0	0	0	0	0	0	2	1	1	1	5	3	2	2	5	3	3	4	rs138813024		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:54364904G>A	uc003hag.3	-	5	1138	c.882C>T	c.(880-882)AGC>AGT	p.S294S	PDGFRA_uc003haa.2_Intron|LNX1_uc003haf.3_Silent_p.S198S|LNX1_uc003hah.3_Intron	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	294	PDZ 1.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			GTGGGGTTTCGCTACCTCCCA	0.488													22	54					0	0	0.001882	0	0		A	54364904	A	A	54364904	2	1	4	1	0	0	0	0	0	0	0	1	8882	1078	38	1		1	LNX1	4	54364904	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	591211	54364904	136789372	1042	3008											
KIAA1211	57482	broad.mit.edu	37	chr4	57180790	57180790	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatgggaagagctggaacaGcaggaggcggaggtgcaggg	11	3	22	5	1	0	1	0	0	0	1	0	6	0	6	0	8	4	3	0	8	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:57180790G>A	uc003hbk.2	+	8	1513	c.1122G>A	c.(1120-1122)CAG>CAA	p.Q374Q	KIAA1211_uc010iha.2_Silent_p.Q367Q|KIAA1211_uc011bzz.1_Silent_p.Q284Q|KIAA1211_uc003hbm.1_Silent_p.Q260Q	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	374	Glu-rich.									ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					agctggaacagcaggaggcgg	0.03													5	3					0	0	0.001168	0	0		A	57180790	A	A	57180790	2	1	4	1	0	0	0	0	0	0	0	1	8231	962	34	2		2	KIAA1211	4	57180790	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2815886	57180790	133973486	1043	3009											
REST	5978	broad.mit.edu	37	chr4	57798266	57798266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacagcaaacacctcaatcGccatttggttaatgtgtact	12	13	6	10	1	1	0	1	0	0	0	2	0	1	0	2	1	4	3	2	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:57798266G>A	uc003hch.2	+	4	3589	c.3242G>A	c.(3241-3243)CGC>CAC	p.R1081H	REST_uc003hci.2_Missense_Mutation_p.R1081H|REST_uc010ihf.2_Missense_Mutation_p.R755H	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	1081	C2H2-type 9.|Interaction with RCOR1.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					CACCTCAATCGCCATTTGGTT	0.393													10	110					0	0	0.001368	0	0		A	57798266	A	A	57798266	3	1	4	1	0	0	0	0	1	0	0	0	13259	1087	38	1	3252	1	REST	4	57798266	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	617476	57798266	133356010	1044	3010											
POLR2B	5431	broad.mit.edu	37	chr4	57889686	57889686	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaactagcgagacgggCattgtggatcaggttatggt	10	10	14	7	2	2	2	2	0	0	2	2	4	2	3	0	4	2	2	0	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:57889686C>T	uc003hcl.1	+	19	2749	c.2706C>T	c.(2704-2706)GGC>GGT	p.G902G	POLR2B_uc011cae.1_Silent_p.G895G|POLR2B_uc011caf.1_Silent_p.G827G|POLR2B_uc003hcm.1_Silent_p.G395G	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	902					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					GCGAGACGGGCATTGTGGATC	0.388													28	94					0	0	0.00632	0	0		T	57889686	T	T	57889686	2	4	4	1	0	0	0	0	0	0	0	1	12234	697	25	2		2	POLR2B	4	57889686	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	91420	57889686	133264590	1045	3011											
CENPC1	1060	broad.mit.edu	37	chr4	68380247	68380247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcagccggggatattgtgCgttgtttcagagaccctgcc	6	12	12	11	2	2	1	2	0	1	1	3	3	2	2	3	2	3	2	3	2	1	4	rs139483291	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:68380247C>T	uc003hdd.1	-	8	1172	c.989G>A	c.(988-990)CGC>CAC	p.R330H	CENPC1_uc010ihj.1_RNA|CENPC1_uc010ihk.1_RNA|CENPC1_uc010ihm.1_Missense_Mutation_p.R330H	NM_001812	NP_001803	Q03188	CENPC_HUMAN	centromere protein C 1	330					mitotic prometaphase	condensed chromosome kinetochore|condensed nuclear chromosome, centromeric region|cytosol	DNA binding			urinary_tract(1)|lung(1)	2						GGATATTGTGCGTTGTTTCAG	0.388													4	26					0	0	0.009096	0	0		T	68380247	T	T	68380247	3	4	4	1	0	0	0	0	1	0	0	0	3232	768	27	1	1890	1	CENPC1	4	68380247	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10490561	68380247	122774029	1046	3012											
YTHDC1	91746	broad.mit.edu	37	chr4	69180004	69180004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgacaacagcttgtgtgCgacgaaggaaatcatccacc	13	7	9	12	2	1	1	1	1	0	0	2	4	2	2	2	1	3	1	2	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:69180004C>T	uc003hdx.2	-	17	2350	c.1997G>A	c.(1996-1998)CGC>CAC	p.R666H	YTHDC1_uc003hdy.2_Missense_Mutation_p.R648H	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	666	Arg-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						AGCTTGTGTGCGACGAAGGAA	0.308													9	31					0	0	0.008291	0	0		T	69180004	T	T	69180004	3	4	4	1	0	0	0	0	1	0	0	0	17522	768	27	1	190	1	YTHDC1	4	69180004	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	799757	69180004	121974272	1047	3013											
UGT2B15	7366	broad.mit.edu	37	chr4	69512908	69512908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgataaatatcacagttgCcacgcaggccagcaggaatg	14	7	11	9	1	1	1	1	1	0	0	1	3	1	2	2	2	2	3	2	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:69512908C>T	uc011cal.1	-	6	1545	c.1507G>A	c.(1507-1509)GCA>ACA	p.A503T		NM_001076	NP_001067	P54855	UDB15_HUMAN	UDP glycosyltransferase 2B15 precursor	503	Helical; (Potential).				steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity				0						ATCACAGTTGCCACGCAGGCC	0.448													41	108					0	0	0.002852	0	0		T	69512908	T	T	69512908	3	4	4	1	0	0	0	0	1	0	0	0	16984	739	26	2	1706	2	UGT2B15	4	69512908	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	332904	69512908	121641368	1048	3014											
UGT2B28	54490	broad.mit.edu	37	chr4	70146222	70146222	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gattgcattgcaccaggatgGctctgaagtggacttcagtt	9	12	12	8	0	2	1	1	1	1	0	2	4	2	3	1	3	2	4	1	3	1	4	rs142644303	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:70146222G>T	uc003hej.2	+	1	6	c.4G>T	c.(4-6)GCT>TCT	p.A2S	UGT2B28_uc010ihr.2_Missense_Mutation_p.A2S	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	2					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	CACCAGGATGGCTCTGAAGTG	0.408													13	219					4.93089e-13	5.34777e-13	0.00245	1	0		T	70146222	T	T	70146222	3	4	4	1	0	0	0	0	1	0	0	0	16986	1203	42	5	6	5	UGT2B28	4	70146222	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	633314	70146222	121008054	1049	3015											
UGT2B4	7363	broad.mit.edu	37	chr4	70351060	70351060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctgcaaacaatggaacGcccaccatagggattccatg	13	8	9	11	1	1	1	0	1	1	0	2	3	2	3	3	2	3	1	3	2	4	2	rs138447267	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:70351060G>A	uc003hek.3	-	5	1223	c.1176C>T	c.(1174-1176)GGC>GGT	p.G392G	UGT2B4_uc011cap.1_Silent_p.G256G|UGT2B4_uc003hel.3_Intron	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	392					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						ACAATGGAACGCCCACCATAG	0.458													48	143					0	0	0.00361	0	0		A	70351060	A	A	70351060	2	1	4	1	0	0	0	0	0	0	0	1	16987	1074	38	1		1	UGT2B4	4	70351060	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	204838	70351060	120803216	1050	3016											
UGT2B4	7363	broad.mit.edu	37	chr4	70360986	70360986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggtcacttagttctgaCataacaacaggcacatagga	14	11	8	8	0	2	1	1	1	1	0	2	2	2	2	0	3	2	2	0	3	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:70360986C>T	uc003hek.3	-	1	641	c.594G>A	c.(592-594)ATG>ATA	p.M198I	UGT2B4_uc011cap.1_Missense_Mutation_p.M62I|UGT2B4_uc003hel.3_Missense_Mutation_p.M198I	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	198					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						TTAGTTCTGACATAACAACAG	0.388													30	92					0	0	0.002836	0	0		T	70360986	T	T	70360986	3	4	4	1	0	0	0	0	1	0	0	0	16987	478	17	4	1016	4	UGT2B4	4	70360986	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	9926	70360986	120793290	1051	3017											
GC	2638	broad.mit.edu	37	chr4	72631188	72631188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctttcctgaacgcctcaCagatttcatcatttgtgggt	8	15	8	10	1	4	2	3	1	1	1	5	3	5	2	2	1	1	0	2	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:72631188C>T	uc003hge.2	-	4	587	c.434G>A	c.(433-435)TGT>TAT	p.C145Y	GC_uc003hgd.2_Missense_Mutation_p.C23Y|GC_uc010iie.2_Missense_Mutation_p.C145Y|GC_uc010iif.2_Missense_Mutation_p.C164Y	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	145	Albumin 1.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	GAACGCCTCACAGATTTCATC	0.413													30	98					0	0	0.002096	0	0		T	72631188	T	T	72631188	3	4	4	1	0	0	0	0	1	0	0	0	6297	478	17	4	1026	4	GC	4	72631188	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2270202	72631188	118523088	1052	3018											
NPFFR2	10886	broad.mit.edu	37	chr4	72994441	72994441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcttcaccagcctcaagtgGcagcaatcttcattatttcc	10	13	5	13	0	5	0	3	0	2	0	6	0	6	0	3	1	2	2	3	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:72994441G>A	uc003hgg.2	+	2	537	c.439G>A	c.(439-441)GCA>ACA	p.A147T	NPFFR2_uc010iig.1_Intron|NPFFR2_uc003hgi.2_Missense_Mutation_p.A48T|NPFFR2_uc003hgh.2_Missense_Mutation_p.A45T	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	147	Extracellular (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			GCCTCAAGTGGCAGCAATCTT	0.373													21	68					0	0	0.00333	0	0		A	72994441	A	A	72994441	3	1	4	1	0	0	0	0	1	0	0	0	10597	1203	42	2	451	2	NPFFR2	4	72994441	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	363253	72994441	118159835	1053	3019											
ANKRD17	26057	broad.mit.edu	37	chr4	73963907	73963907	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctggtgaatgattgtcaCtcttacgactgctgttgctg	7	14	11	9	1	2	2	1	2	1	0	2	3	2	2	0	1	4	4	0	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:73963907C>A	uc003hgp.2	-	26	5021	c.4904G>T	c.(4903-4905)AGT>ATT	p.S1635I	ANKRD17_uc003hgo.2_Missense_Mutation_p.S1522I|ANKRD17_uc003hgq.2_Missense_Mutation_p.S1384I|ANKRD17_uc003hgr.2_Missense_Mutation_p.S1634I	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1635	Ser-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			ATGATTGTCACTCTTACGACT	0.463													4	143					3.59834e-05	3.78692e-05	0.001168	1	0		A	73963907	A	A	73963907	3	1	4	1	0	0	0	0	1	0	0	0	646	565	20	5	2943	5	ANKRD17	4	73963907	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	969466	73963907	117190369	1054	3020											
ANKRD17	26057	broad.mit.edu	37	chr4	74017203	74017203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttttatgctcttgatccgCgcctgcttccaaaagaaatc	9	14	7	11	2	1	2	0	1	1	1	4	2	3	2	3	0	2	3	3	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:74017203C>T	uc003hgp.2	-	7	1390	c.1273G>A	c.(1273-1275)GCG>ACG	p.A425T	ANKRD17_uc003hgo.2_Missense_Mutation_p.A312T|ANKRD17_uc003hgq.2_Missense_Mutation_p.A425T|ANKRD17_uc003hgr.2_Missense_Mutation_p.A425T|ANKRD17_uc011cbd.1_Missense_Mutation_p.A54T	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	425	ANK 6.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCTTGATCCGCGCCTGCTTCC	0.323													7	37					0	0	0.004482	0	0		T	74017203	T	T	74017203	3	4	4	1	0	0	0	0	1	0	0	0	646	768	27	1	6650	1	ANKRD17	4	74017203	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	53296	74017203	117137073	1055	3021											
AFP	174	broad.mit.edu	37	chr4	74313372	74313372	+	Frame_Shift_Del	DEL	A	-	-																															taaccaattttcttcaggggAaaaaaatatcttcttggcaa																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:74313372delA	uc003hgz.1	+	8	1084	c.1037delA	c.(1036-1038)GAAfs	p.E346fs	AFP_uc003hha.1_Frame_Shift_Del_p.E346fs|AFP_uc011cbg.1_Frame_Shift_Del_p.E120fs	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	346	Albumin 2.				transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCTTCAGGGGAAAAAAATATC	0.338									Alpha-Fetoprotein_Hereditary_Persistence_of				18	37	---	---	---	---						.	-	74313372	-	-	74313372	7	5	4	1	0	1	0	1	0	0	0	0	363	246	9	0	1067	0	AFP	4	74313372	Frame_Shift_Del	DEL	A	TCGA-BR-4184-01A-01D-1126-08	296169	74313372	116840904	1056	3022											
AFP	174	broad.mit.edu	37	chr4	74318231	74318231	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaggccatgcttcagcagCttggtggtggatgaaacata	11	9	14	7	0	1	1	1	1	0	0	1	3	1	3	1	5	4	3	1	5	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:74318231C>T	uc003hgz.1	+	12	1589	c.1542C>T	c.(1540-1542)AGC>AGT	p.S514S	AFP_uc003hha.1_Silent_p.S514S|AFP_uc011cbg.1_Silent_p.S288S	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	514	Albumin 3.				transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GCTTCAGCAGCTTGGTGGTGG	0.478									Alpha-Fetoprotein_Hereditary_Persistence_of				15	65					0	0	0.00499	0	0		T	74318231	T	T	74318231	2	4	4	1	0	0	0	0	0	0	0	1	363	796	28	2		2	AFP	4	74318231	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4859	74318231	116836045	1057	3023											
SHROOM3	57619	broad.mit.edu	37	chr4	77659960	77659960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaccatgcttatctaaggCggagccctgaccagtgcagc	10	8	11	12	1	1	2	0	2	1	0	1	3	1	3	3	2	4	2	3	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:77659960C>T	uc011cbx.1	+	5	1587	c.634C>T	c.(634-636)CGG>TGG	p.R212W	SHROOM3_uc011cbz.1_Missense_Mutation_p.R36W|SHROOM3_uc003hkf.1_Missense_Mutation_p.R87W|SHROOM3_uc003hkg.2_5'UTR	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	212					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			TTATCTAAGGCGGAGCCCTGA	0.552													19	56					0	0	0.010504	0	0		T	77659960	T	T	77659960	3	4	4	1	0	0	0	0	1	0	0	0	14320	759	27	1	652	1	SHROOM3	4	77659960	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3341729	77659960	113494316	1058	3024											
CNOT6L	246175	broad.mit.edu	37	chr4	78652648	78652648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccatctgaattagccatcGccacttggttaaattccact	11	13	5	12	1	1	1	0	1	1	0	4	1	3	1	4	1	1	1	4	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:78652648G>A	uc011ccd.1	-	9	1048	c.917C>T	c.(916-918)GCG>GTG	p.A306V	CNOT6L_uc003hks.2_Missense_Mutation_p.A306V|CNOT6L_uc003hkt.1_Missense_Mutation_p.A149V	NM_144571	NP_653172	Q96LI5	CNO6L_HUMAN	CCR4-NOT transcription complex, subunit 6-like	306					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	exonuclease activity|protein binding			large_intestine(1)	1						ATTAGCCATCGCCACTTGGTT	0.368													16	46					0	0	0.008871	0	0		A	78652648	A	A	78652648	3	1	4	1	0	0	0	0	1	0	0	0	3626	1087	38	1	766	1	CNOT6L	4	78652648	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	992688	78652648	112501628	1059	3025											
FRAS1	80144	broad.mit.edu	37	chr4	79188442	79188442	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgctgtgaggaatgtgtGtctcctgccgggagctgctc	6	11	14	10	1	1	1	0	1	1	0	3	3	1	3	2	2	4	3	2	2	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:79188442G>A	uc003hlb.2	+	9	1277	c.837G>A	c.(835-837)GTG>GTA	p.V279V	FRAS1_uc003hkw.2_Silent_p.V279V|FRAS1_uc003hky.1_5'UTR|FRAS1_uc003hkz.2_5'UTR	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	279	VWFC 4.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						AGGAATGTGTGTCTCCTGCCG	0.582													7	22					0	0	0.001984	0	0		A	79188442	A	A	79188442	2	1	4	1	0	0	0	0	0	0	0	1	6056	1364	48	4		4	FRAS1	4	79188442	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	535794	79188442	111965834	1060	3026											
BMP2K	55589	broad.mit.edu	37	chr4	79791958	79791958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcactaagacctggaaatgGccctgaaattttattgggtc	11	11	11	8	0	0	2	0	1	0	1	1	3	0	3	2	4	0	1	2	4	4	4	rs142887199	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:79791958G>A	uc003hlk.2	+	11	1419	c.1253G>A	c.(1252-1254)GGC>GAC	p.G418D	BMP2K_uc010ijl.1_RNA|BMP2K_uc003hlj.2_Missense_Mutation_p.G418D|BMP2K_uc003hll.2_5'Flank	NM_198892	NP_942595	Q9NSY1	BMP2K_HUMAN	BMP-2 inducible kinase isoform a	418						nucleus	ATP binding|protein serine/threonine kinase activity			lung(1)	1						CCTGGAAATGGCCCTGAAATT	0.438													4	33					0	0	0.009096	0	0		A	79791958	A	A	79791958	3	1	4	1	0	0	0	0	1	0	0	0	1461	1203	42	2	1295	2	BMP2K	4	79791958	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	603516	79791958	111362318	1061	3027											
PAQR3	152559	broad.mit.edu	37	chr4	79841732	79841732	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggacaaggcttgctatgTctgtactgcatgacatacac	11	11	9	10	0	2	1	1	1	1	0	2	2	2	2	0	2	4	4	0	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:79841732T>C	uc003hlp.1	-	6	1101	c.897A>G	c.(895-897)AGA>AGG	p.R299R	PAQR3_uc003hlm.2_RNA|PAQR3_uc003hln.2_RNA|PAQR3_uc003hlq.1_Silent_p.R181R	NM_001040202	NP_001035292	Q6TCH7	PAQR3_HUMAN	progestin and adipoQ receptor family member III	299	Lumenal (Potential).|Golgi targeting.					Golgi membrane|integral to membrane	receptor activity				0						GCTTGCTATGTCTGTACTGCA	0.398													26	74					0	0	0.00632	0	0		C	79841732	C	C	79841732	2	2	4	1	0	0	0	0	0	0	0	1	11455	1664	58	3		3	PAQR3	4	79841732	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	49774	79841732	111312544	1062	3028											
ANTXR2	118429	broad.mit.edu	37	chr4	80906003	80906003	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggggcgggtggtggtggAggatccttaataacctgtca	8	9	17	7	1	1	0	1	0	0	0	2	2	2	2	2	7	1	1	2	7	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:80906003A>T	uc003hlz.3	-	13	1819	c.1056T>A	c.(1054-1056)CCT>CCA	p.P352P	ANTXR2_uc003hly.3_Silent_p.P352P|ANTXR2_uc003hlx.1_RNA|ANTXR2_uc010ijn.2_Silent_p.P249P	NM_001145794	NP_001139266	P58335	ANTR2_HUMAN	anthrax toxin receptor 2 isoform 2	352	Poly-Pro.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|extracellular region|integral to membrane|plasma membrane	metal ion binding|protein binding|receptor activity			ovary(1)	1						GTGGTGGTGGAGGATCCTTAA	0.343									Juvenile_Hyaline_Fibromatosis				6	12					0	0	0.001168	0	0		T	80906003	T	T	80906003	2	4	4	1	0	0	0	0	0	0	0	1	712	291	11	5		5	ANTXR2	4	80906003	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1064271	80906003	110248273	1063	3029											
HNRPDL	9987	broad.mit.edu	37	chr4	83350541	83350541	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtccgggtcgcggcagcAgcggcggcggagcgttgtat	5	6	19	11	7	0	0	0	0	0	0	2	1	1	1	1	5	3	5	1	5	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:83350541A>G	uc003hmr.2	-	1	838	c.303T>C	c.(301-303)GCT>GCC	p.A101A	ENOPH1_uc003hmv.2_5'Flank|ENOPH1_uc003hmw.2_5'Flank|ENOPH1_uc003hmx.2_5'Flank|HNRPDL_uc003hmq.2_RNA|HNRPDL_uc003hms.2_RNA|HNRPDL_uc003hmt.2_Silent_p.A101A	NM_031372	NP_112740	O14979	HNRDL_HUMAN	heterogeneous nuclear ribonucleoprotein D-like	101					regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|heterogeneous nuclear ribonucleoprotein complex	double-stranded DNA binding|nucleotide binding|poly(A) RNA binding|protein binding|single-stranded DNA binding			skin(1)	1		Hepatocellular(203;0.114)				TCGCGGCAGCAGCGGCGGCGG	0.637													13	39					0	0	0.001368	0	0		G	83350541	G	G	83350541	2	3	4	1	0	0	0	0	0	0	0	1	7292	175	7	3		3	HNRPDL	4	83350541	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	2444538	83350541	107803735	1064	3030											
ENOPH1	58478	broad.mit.edu	37	chr4	83381193	83381193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtggtgagaccaggcaacGcaggattaacagatgatgag	13	7	15	6	1	0	4	0	3	0	2	0	6	0	5	1	4	2	2	1	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:83381193G>A	uc003hmv.2	+	6	963	c.706G>A	c.(706-708)GCA>ACA	p.A236T	ENOPH1_uc003hmw.2_Missense_Mutation_p.A148T|ENOPH1_uc003hmx.2_Missense_Mutation_p.A90T	NM_021204	NP_067027	Q9UHY7	ENOPH_HUMAN	enolase-phosphatase 1	236					L-methionine salvage from methylthioadenosine	cytoplasm|nucleus	2,3-diketo-5-methylthiopentyl-1-phosphate enolase activity|2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase activity|acireductone synthase activity|magnesium ion binding|phosphoglycolate phosphatase activity				0						ACCAGGCAACGCAGGATTAAC	0.478													7	60					0	0	0.004482	0	0		A	83381193	A	A	83381193	3	1	4	1	0	0	0	0	1	0	0	0	5132	1087	38	1	728	1	ENOPH1	4	83381193	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	30652	83381193	107773083	1065	3031											
SCD5	79966	broad.mit.edu	37	chr4	83719512	83719512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagcaccagggagtacacgGcccccaagtggagcaagctc	11	4	13	13	1	0	1	0	1	0	0	1	3	0	3	3	3	4	4	3	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:83719512G>A	uc003hna.2	-	1	499	c.179C>T	c.(178-180)GCC>GTC	p.A60V	SCD5_uc003hnb.3_Missense_Mutation_p.A60V|SCD5_uc003hnc.2_Missense_Mutation_p.A60V	NM_001037582	NP_001032671	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5 isoform a	60	Helical; (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity			ovary(1)	1		Colorectal(4;0.0323)|Hepatocellular(203;0.115)				GGAGTACACGGCCCCCAAGTG	0.522													10	20					0	0	0.000978	0	0		A	83719512	A	A	83719512	3	1	4	1	0	0	0	0	1	0	0	0	13912	1203	42	2	1039	2	SCD5	4	83719512	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	338319	83719512	107434764	1066	3032											
THAP9	79725	broad.mit.edu	37	chr4	83838899	83838899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggtaccatccattttttaCgtttaattaacaatctgttt	10	20	4	7	1	1	0	0	0	1	0	2	0	2	0	2	1	3	3	2	1	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:83838899C>T	uc003hnt.2	+	5	1653	c.1534C>T	c.(1534-1536)CGT>TGT	p.R512C	THAP9_uc003hns.1_Missense_Mutation_p.R368C|THAP9_uc003hnu.1_RNA|THAP9_uc003hnv.2_Missense_Mutation_p.R229C	NM_024672	NP_078948	Q9H5L6	THAP9_HUMAN	THAP domain containing 9	512							DNA binding|metal ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	5		Hepatocellular(203;0.114)				CCATTTTTTACGTTTAATTAA	0.363													9	165					0	0	0.004482	0	0		T	83838899	T	T	83838899	3	4	4	1	0	0	0	0	1	0	0	0	15876	536	19	1	1552	1	THAP9	4	83838899	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	119387	83838899	107315377	1067	3033											
WDFY3	23001	broad.mit.edu	37	chr4	85701365	85701365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taacccttccacatcagaggCcatggccaccaggcccagga	11	5	9	16	0	1	1	1	0	0	1	2	2	2	2	6	4	1	0	6	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:85701365C>T	uc003hpd.2	-	26	4669	c.4261G>A	c.(4261-4263)GCC>ACC	p.A1421T		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1421						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		ACATCAGAGGCCATGGCCACC	0.493													25	67					0	0	0.003954	0	0		T	85701365	T	T	85701365	3	4	4	1	0	0	0	0	1	0	0	0	17296	739	26	2	6491	2	WDFY3	4	85701365	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1862466	85701365	105452911	1068	3034											
WDFY3	23001	broad.mit.edu	37	chr4	85715780	85715780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcagaagaatttgctcggcGcacaacagtaagaagtctga	14	8	10	9	2	2	4	1	1	1	3	3	4	2	4	0	1	2	3	0	1	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:85715780G>A	uc003hpd.2	-	21	3787	c.3379C>T	c.(3379-3381)CGC>TGC	p.R1127C		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1127						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TTTGCTCGGCGCACAACAGTA	0.448													7	100					0	0	0.00308	0	0		A	85715780	A	A	85715780	3	1	4	1	0	0	0	0	1	0	0	0	17296	1087	38	1	7393	1	WDFY3	4	85715780	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	14415	85715780	105438496	1069	3035											
MAPK10	5602	broad.mit.edu	37	chr4	87022260	87022260	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggggctctgtaataacgtgtCaccacatatggagtcatcat	11	11	10	9	1	4	0	3	0	1	0	4	1	4	1	1	3	1	2	1	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:87022260C>T	uc003hpq.2	-	7	742	c.675G>A	c.(673-675)GTG>GTA	p.V225V	MAPK10_uc010ikg.2_Silent_p.V187V|MAPK10_uc003hpr.2_Silent_p.V187V|MAPK10_uc003hps.2_Silent_p.V225V|MAPK10_uc003hpt.2_Silent_p.V225V|MAPK10_uc003hpu.2_Silent_p.V225V|MAPK10_uc003hpv.2_Silent_p.V80V|MAPK10_uc003hpn.2_5'Flank|MAPK10_uc003hpo.2_Silent_p.V80V|MAPK10_uc011ccw.1_Silent_p.V111V|MAPK10_uc003hpp.2_Silent_p.V80V	NM_138982	NP_620448	P53779	MK10_HUMAN	mitogen-activated protein kinase 10 isoform 2	225	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)		AATAACGTGTCACCACATATG	0.488													22	40					0	0	0.002299	0	0		T	87022260	T	T	87022260	2	4	4	1	0	0	0	0	0	0	0	1	9290	813	29	4		4	MAPK10	4	87022260	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1306480	87022260	104132016	1070	3036											
PTPN13	5783	broad.mit.edu	37	chr4	87622631	87622631	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacccatccctggcattgAtgtgctttctaagaagaaga	14	10	8	9	0	1	4	0	1	1	3	2	4	2	4	2	1	2	2	2	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:87622631A>G	uc003hpz.2	+	7	1352	c.872A>G	c.(871-873)GAT>GGT	p.D291G	PTPN13_uc003hpy.2_Missense_Mutation_p.D291G|PTPN13_uc003hqa.2_Missense_Mutation_p.D291G|PTPN13_uc003hqb.2_Missense_Mutation_p.D291G	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	291						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		CCTGGCATTGATGTGCTTTCT	0.423													3	78					0	0	0.004672	0	0		G	87622631	G	G	87622631	3	3	4	1	0	0	0	0	1	0	0	0	12805	333	12	3	894	3	PTPN13	4	87622631	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	600371	87622631	103531645	1071	3037											
PTPN13	5783	broad.mit.edu	37	chr4	87726516	87726516	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaacagatataaaaatataCttccctgtaagttccagttt	16	13	5	7	0	0	2	0	0	0	2	2	2	2	2	2	0	2	3	2	0	8	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:87726516C>A	uc003hpz.2	+	44	7219	c.6739C>A	c.(6739-6741)CTT>ATT	p.L2247I	PTPN13_uc003hpy.2_Missense_Mutation_p.L2252I|PTPN13_uc003hqa.2_Missense_Mutation_p.L2228I|PTPN13_uc003hqb.2_Missense_Mutation_p.L2056I|PTPN13_uc003hqc.1_Missense_Mutation_p.L613I	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	2247	Tyrosine-protein phosphatase.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		TAAAAATATACTTCCCTGTAA	0.303													4	18					2.56e-06	2.71111e-06	0.009096	1	0		A	87726516	A	A	87726516	3	1	4	1	0	0	0	0	1	0	0	0	12805	565	20	5	6924	5	PTPN13	4	87726516	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	103885	87726516	103427760	1072	3038											
C4orf36	132989	broad.mit.edu	37	chr4	87808929	87808929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgtcatttagatggaagaGgtcttctcaaaccggctggc	10	11	11	9	1	3	2	2	0	2	2	4	3	3	3	1	4	1	1	1	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:87808929G>A	uc003hqe.3	-	4	651	c.338C>T	c.(337-339)CCT>CTT	p.P113L		NM_144645	NP_653246	Q96KX1	CD036_HUMAN	hypothetical protein LOC132989	113											0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00141)		AGATGGAAGAGGTCTTCTCAA	0.423													16	54					0	0	0.007413	0	0		A	87808929	A	A	87808929	3	1	4	1	0	0	0	0	1	0	0	0	2269	1000	35	4	19	4	C4orf36	4	87808929	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	82413	87808929	103345347	1073	3039											
AFF1	4299	broad.mit.edu	37	chr4	88011180	88011180	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgacagcaatacatacGcctagtacagctgagccatc	12	9	7	13	1	0	2	0	2	0	0	1	2	0	2	3	0	6	3	3	0	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:88011180G>A	uc003hqj.3	+	5	1535	c.1128G>A	c.(1126-1128)ACG>ACA	p.T376T	AFF1_uc003hqh.1_Silent_p.T382T|AFF1_uc011ccy.1_Intron|AFF1_uc011ccz.1_Silent_p.T383T|AFF1_uc003hqk.3_Silent_p.T376T|AFF1_uc011cda.1_Silent_p.T14T	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	376						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		CAATACATACGCCTAGTACAG	0.403													14	56					0	0	0.00499	0	0		A	88011180	A	A	88011180	2	1	4	1	0	0	0	0	0	0	0	1	356	1074	38	1		1	AFF1	4	88011180	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	202251	88011180	103143096	1074	3040											
AFF1	4299	broad.mit.edu	37	chr4	88036259	88036259	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaccaagctgctctcaccGctcagggacactcctccccc	8	6	7	20	1	2	0	2	0	1	0	5	2	4	1	5	1	2	3	5	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:88036259G>A	uc003hqj.3	+	11	2660	c.2253G>A	c.(2251-2253)CCG>CCA	p.P751P	AFF1_uc011ccz.1_Silent_p.P758P|AFF1_uc003hqk.3_Silent_p.P751P|AFF1_uc011cda.1_Silent_p.P389P	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	751						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		TGCTCTCACCGCTCAGGGACA	0.617													6	61					0	0	0.004482	0	0		A	88036259	A	A	88036259	2	1	4	1	0	0	0	0	0	0	0	1	356	1074	38	1		1	AFF1	4	88036259	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	25079	88036259	103118017	1075	3041											
PKD2	5311	broad.mit.edu	37	chr4	88986920	88986920	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctctaatttcaggaagggCcatactgatgcagagattga	12	11	10	8	0	2	3	1	2	1	1	3	5	2	4	1	2	2	1	1	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:88986920C>T	uc003hre.2	+	12	2313	c.2247C>T	c.(2245-2247)GGC>GGT	p.G749G	PKD2_uc011cdf.1_Silent_p.G167G|PKD2_uc011cdg.1_Silent_p.G75G|PKD2_uc011cdh.1_5'UTR	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	749	EF-hand domain.|Cytoplasmic (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		TCAGGAAGGGCCATACTGATG	0.433													32	107					0	0	0.005524	0	0		T	88986920	T	T	88986920	2	4	4	1	0	0	0	0	0	0	0	1	11985	726	26	2		2	PKD2	4	88986920	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	950661	88986920	102167356	1076	3042											
ABCG2	9429	broad.mit.edu	37	chr4	89039273	89039273	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccataccagctgattcaaAgtatcccaaggcctcctgag	13	8	7	13	0	1	2	1	2	0	0	3	2	3	2	5	1	3	2	5	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:89039273A>C	uc003hrg.2	-	7	1322	c.829T>G	c.(829-831)TTT>GTT	p.F277V	ABCG2_uc003hrh.2_Missense_Mutation_p.F277V|ABCG2_uc003hrf.2_Missense_Mutation_p.F147V	NM_004827	NP_004818	Q9UNQ0	ABCG2_HUMAN	ATP-binding cassette, sub-family G, member 2	277	ABC transporter.|Cytoplasmic (Potential).				cellular iron ion homeostasis|urate metabolic process	integral to membrane|plasma membrane	ATP binding|heme transporter activity|protein homodimerization activity|xenobiotic-transporting ATPase activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Imatinib(DB00619)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nitrendipine(DB01054)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Topotecan(DB01030)	GCTGATTCAAAGTATCCCAAG	0.458													14	36					0	0	0.004007	0	0		C	89039273	C	C	89039273	3	2	4	1	0	0	0	0	1	0	0	0	69	72	3	5	1178	5	ABCG2	4	89039273	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	52353	89039273	102115003	1077	3043											
HERC6	55008	broad.mit.edu	37	chr4	89358921	89358921	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggatctccatacctgtggAccaaaccaacaagtaagttt	13	10	8	10	0	1	0	0	0	1	0	2	2	1	2	4	2	3	2	4	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:89358921A>G	uc011cdi.1	+	20	2726	c.2543A>G	c.(2542-2544)GAC>GGC	p.D848G	HERC6_uc011cdj.1_Missense_Mutation_p.D812G|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	848	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		ATACCTGTGGACCAAACCAAC	0.303													5	11					0	0	0.001984	0	0		G	89358921	G	G	89358921	3	3	4	1	0	0	0	0	1	0	0	0	7078	275	10	3	2418	3	HERC6	4	89358921	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	319648	89358921	101795355	1078	3044											
GPRIN3	285513	broad.mit.edu	37	chr4	90170134	90170134	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggactcctggggggctagCgtgctgtcagagagctccag	6	8	16	11	1	1	1	1	0	0	1	3	3	3	2	2	4	3	3	2	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:90170134C>T	uc003hsm.1	-	2	1647	c.1128G>A	c.(1126-1128)ACG>ACA	p.T376T		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	376										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		GGGGGGCTAGCGTGCTGTCAG	0.557													11	28					0	0	0.001855	0	0		T	90170134	T	T	90170134	2	4	4	1	0	0	0	0	0	0	0	1	6747	755	27	1		1	GPRIN3	4	90170134	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	811213	90170134	100984142	1079	3045											
PDLIM5	10611	broad.mit.edu	37	chr4	95578591	95578591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaacaggaagtcatcagtgCgttgaaacaaacttggcatg	14	9	11	7	1	2	1	2	1	0	0	2	2	2	2	0	2	4	3	0	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:95578591C>T	uc003hti.2	+	11	1629	c.1478C>T	c.(1477-1479)GCG>GTG	p.A493V	PDLIM5_uc011cdx.1_Missense_Mutation_p.A390V|PDLIM5_uc003hth.2_Missense_Mutation_p.A384V|PDLIM5_uc003htj.2_Missense_Mutation_p.A168V|PDLIM5_uc003htk.2_Missense_Mutation_p.A522V|PDLIM5_uc011cdy.1_Missense_Mutation_p.A371V|PDLIM5_uc003htl.2_Missense_Mutation_p.A168V	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	493	LIM zinc-binding 2.				regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		GTCATCAGTGCGTTGAAACAA	0.373													17	57					0	0	0.010504	0	0		T	95578591	T	T	95578591	3	4	4	1	0	0	0	0	1	0	0	0	11702	768	27	1	1676	1	PDLIM5	4	95578591	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5408457	95578591	95575685	1080	3046											
TSPAN5	10098	broad.mit.edu	37	chr4	99399869	99399869	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagcaggagaatggaacGccacatcgctctcgacttgc	10	7	12	12	3	1	1	0	0	1	1	3	4	1	2	1	2	4	3	1	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:99399869G>A	uc003hub.2	-	5	893	c.543C>T	c.(541-543)GGC>GGT	p.G181G	TSPAN5_uc011cdz.1_Silent_p.G110G	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	181	Extracellular (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)		AGAATGGAACGCCACATCGCT	0.493													31	61					0	0	0.002096	0	0		A	99399869	A	A	99399869	2	1	4	1	0	0	0	0	0	0	0	1	16676	1074	38	1		1	TSPAN5	4	99399869	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3821278	99399869	91754407	1081	3047											
TSPAN5	10098	broad.mit.edu	37	chr4	99407956	99407956	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatcccaaaatgaacatcActcctcccaccacaaggaag	17	5	4	15	0	1	1	1	1	0	0	4	2	4	2	4	1	1	0	4	1	6	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:99407956A>G	uc003hub.2	-	3	562	c.212T>C	c.(211-213)GTG>GCG	p.V71A	TSPAN5_uc011cdz.1_5'UTR	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	71	Helical; (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)		AATGAACATCACTCCTCCCAC	0.483													29	104					0	0	0.007291	0	0		G	99407956	G	G	99407956	3	3	4	1	0	0	0	0	1	0	0	0	16676	159	6	3	618	3	TSPAN5	4	99407956	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	8087	99407956	91746320	1082	3048											
METAP1	23173	broad.mit.edu	37	chr4	99960602	99960602	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaagatatagaagggatgCgacttgtatgtagggtaaga	14	10	14	3	1	0	4	0	1	0	3	0	6	0	5	0	2	1	3	0	2	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:99960602C>T	uc003huf.3	+	5	535	c.418C>T	c.(418-420)CGA>TGA	p.R140*	METAP1_uc003hug.2_RNA	NM_015143	NP_055958	P53582	AMPM1_HUMAN	methionyl aminopeptidase 1	140					N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis|regulation of translation	cytoplasm	aminopeptidase activity|metal ion binding|metalloexopeptidase activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;3.12e-07)		AGAAGGGATGCGACTTGTATG	0.363													23	86					0	0	0.00278	0	0		T	99960602	T	T	99960602	4	4	4	1	0	0	0	0	0	1	0	0	9504	760	27	1	436	1	METAP1	4	99960602	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	552646	99960602	91193674	1083	3049											
ADH1C	126	broad.mit.edu	37	chr4	100261758	100261758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatagctcctttccacgtgCgtccagtcagtagcagcata	11	10	8	12	2	1	0	1	0	0	0	4	0	4	0	3	0	4	4	3	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:100261758C>T	uc003huu.2	-	9	1023	c.938G>A	c.(937-939)CGC>CAC	p.R313H		NM_000669	NP_000660	P00326	ADH1G_HUMAN	class I alcohol dehydrogenase, gamma subunit	313					ethanol oxidation|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(123;1.08e-07)	Fomepizole(DB01213)|NADH(DB00157)	TTTCCACGTGCGTCCAGTCAG	0.443									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				68	189					0	0	0.00361	0	0		T	100261758	T	T	100261758	3	4	4	1	0	0	0	0	1	0	0	0	309	768	27	1	201	1	ADH1C	4	100261758	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	301156	100261758	90892518	1084	3050											
MTTP	4547	broad.mit.edu	37	chr4	100529984	100529984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttcatgaaaagactgtgcGcactgctgcagctgctatca	11	10	10	10	1	2	2	2	1	0	1	2	2	2	2	0	0	5	6	0	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:100529984G>A	uc003hvc.3	+	13	1875	c.1619G>A	c.(1618-1620)CGC>CAC	p.R540H	MTTP_uc011cej.1_Missense_Mutation_p.R567H	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	540	Vitellogenin.		R -> H (in ABL; loss of activity).	R->K: No change of activity.	lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	AAGACTGTGCGCACTGCTGCA	0.393													35	73					0	0	0.005524	0	0		A	100529984	A	A	100529984	3	1	4	1	0	0	0	0	1	0	0	0	9982	1087	38	1	1665	1	MTTP	4	100529984	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	268226	100529984	90624292	1085	3051											
PPP3CA	5530	broad.mit.edu	37	chr4	101947170	101947170	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taattcggtctaagcccttgGcttcctcgaagctagtgatc	8	13	9	11	2	1	1	0	1	1	0	5	2	2	1	2	2	2	2	2	2	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:101947170G>T	uc011cen.1	-	14	2093	c.1418C>A	c.(1417-1419)GCC>GAC	p.A473D	PPP3CA_uc003hvu.2_Missense_Mutation_p.A463D|PPP3CA_uc010ilj.2_Missense_Mutation_p.A421D|PPP3CA_uc003hvt.2_Missense_Mutation_p.A450D|PPP3CA_uc003hvs.2_Missense_Mutation_p.A406D|PPP3CA_uc010ilk.2_Missense_Mutation_p.A241D	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha	473	Inhibitory domain.				protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)		TAAGCCCTTGGCTTCCTCGAA	0.438													38	98					3.05275e-18	3.33928e-18	0.003214	1	0		T	101947170	T	T	101947170	3	4	4	1	0	0	0	0	1	0	0	0	12419	1203	42	5	151	5	PPP3CA	4	101947170	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1417186	101947170	89207106	1086	3052											
SLC39A8	64116	broad.mit.edu	37	chr4	103228683	103228683	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttgggaaataagatttCtttatcagtggagtcaaaat	14	15	8	4	0	4	1	2	0	2	1	4	3	4	3	0	2	0	0	0	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:103228683C>A	uc003hwb.1	-	3	991	c.462G>T	c.(460-462)AAG>AAT	p.K154N	SLC39A8_uc011ceo.1_Missense_Mutation_p.K154N|SLC39A8_uc003hwa.1_Missense_Mutation_p.K87N|SLC39A8_uc003hwc.2_Missense_Mutation_p.K154N	NM_022154	NP_071437	Q9C0K1	S39A8_HUMAN	solute carrier family 39 (zinc transporter),	154	Extracellular (Potential).					integral to membrane|organelle membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(203;0.217)		all cancers(1;9.78e-10)|OV - Ovarian serous cystadenocarcinoma(123;1.52e-09)|GBM - Glioblastoma multiforme(1;0.000142)		AATAAGATTTCTTTATCAGTG	0.398													81	140					2.88734e-31	3.17164e-31	0.00361	1	0		A	103228683	A	A	103228683	3	1	4	1	0	0	0	0	1	0	0	0	14649	912	32	5	1021	5	SLC39A8	4	103228683	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1281513	103228683	87925593	1087	3053											
UBE2D3	7323	broad.mit.edu	37	chr4	103789880	103789880	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagagactcacttttgaaaGgcactttcggttagaaagca	14	10	9	8	1	1	3	1	1	0	2	2	4	1	3	0	2	1	3	0	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:103789880G>T	uc003hwq.2	-	1	124	c.22C>A	c.(22-24)CTT>ATT	p.L8I	CISD2_uc003hwt.3_5'Flank|UBE2D3_uc003hwr.2_5'UTR	NM_181893	NP_871622	P61077	UB2D3_HUMAN	ubiquitin-conjugating enzyme E2D 3 isoform 3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					apoptosis|BMP signaling pathway|DNA repair|negative regulation of type I interferon production|proteasomal ubiquitin-dependent protein catabolic process|protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein monoubiquitination|transforming growth factor beta receptor signaling pathway	endosome membrane|plasma membrane	ATP binding|protein binding|ubiquitin-protein ligase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.13e-08)		acttttgaaaggcactttcgg	0.418													31	112					5.91797e-21	6.48703e-21	0.002445	1	0		T	103789880	T	T	103789880	3	4	4	1	0	0	0	0	1	0	0	0	16876	1000	35	5	536	5	UBE2D3	4	103789880	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	561197	103789880	87364396	1088	3054											
CENPE	1062	broad.mit.edu	37	chr4	104067167	104067167	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttagtagtgctgaatctttgGgtttgaattgctccatctca	8	17	9	7	0	2	2	1	2	2	0	4	2	3	2	1	1	2	4	1	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:104067167G>T	uc003hxb.1	-	30	4322	c.4232C>A	c.(4231-4233)CCC>CAC	p.P1411H	CENPE_uc003hxc.1_Missense_Mutation_p.P1386H	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	1411	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TGAATCTTTGGGTTTGAATTG	0.358													27	81					2.4375e-19	2.66796e-19	0.007291	1	0		T	104067167	T	T	104067167	3	4	4	1	0	0	0	0	1	0	0	0	3233	1232	43	5	3953	5	CENPE	4	104067167	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	277287	104067167	87087109	1089	3055											
TACR3	6870	broad.mit.edu	37	chr4	104640294	104640294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctcctcacctgtccaccGcaatggccgtcatggagtag	7	9	9	16	2	3	0	2	0	1	0	5	1	4	1	6	2	0	2	6	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:104640294G>A	uc003hxe.1	-	1	682	c.539C>T	c.(538-540)GCG>GTG	p.A180V		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	180	Helical; Name=3; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		CCTGTCCACCGCAATGGCCGT	0.498													11	24					0	0	0.008871	0	0		A	104640294	A	A	104640294	3	1	4	1	0	0	0	0	1	0	0	0	15532	1087	38	1	878	1	TACR3	4	104640294	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	573127	104640294	86513982	1090	3056											
TACR3	6870	broad.mit.edu	37	chr4	104640738	104640738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaactgcccccgtggccGccccggcagctagcgaggcg	5	5	13	18	5	1	0	1	0	1	0	2	1	1	0	5	3	4	2	5	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:104640738G>A	uc003hxe.1	-	1	238	c.95C>T	c.(94-96)GCG>GTG	p.A32V		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	32	Extracellular (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		CCCCGTGGCCGCCCCGGCAGC	0.682													5	12					0	0	0.001984	0	0		A	104640738	A	A	104640738	3	1	4	1	0	0	0	0	1	0	0	0	15532	1087	38	1	1322	1	TACR3	4	104640738	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	444	104640738	86513538	1091	3057											
GSTCD	79807	broad.mit.edu	37	chr4	106639056	106639056	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttgcctgcagtagtagaaCgatcagacaatttttgtaga	12	13	10	6	1	1	3	1	0	0	3	1	4	1	3	1	0	3	5	1	0	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:106639056C>T	uc003hxz.3	+	2	358	c.286C>T	c.(286-288)CGA>TGA	p.R96*	GSTCD_uc003hxx.2_Nonsense_Mutation_p.R96*|GSTCD_uc003hxy.3_Intron|GSTCD_uc011cfb.1_Intron|GSTCD_uc010ils.1_Nonsense_Mutation_p.R96*	NM_001031720	NP_001026890	Q8NEC7	GSTCD_HUMAN	glutathione S-transferase, C-terminal domain	96						cytoplasm	rRNA methyltransferase activity			breast(1)|central_nervous_system(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.15e-07)|READ - Rectum adenocarcinoma(30;0.139)		AGTAGTAGAACGATCAGACAA	0.408													9	121					0	0	0.008291	0	0		T	106639056	T	T	106639056	4	4	4	1	0	0	0	0	0	1	0	0	6851	528	19	1	288	1	GSTCD	4	106639056	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1998318	106639056	84515220	1092	3058											
TBCK	93627	broad.mit.edu	37	chr4	107154146	107154146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccaggcttttaatacacGcctaaattttgcatgacctt	11	14	5	11	1	0	1	0	1	0	0	0	1	0	1	3	1	3	2	3	1	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:107154146G>A	uc010ilv.2	-	17	1953	c.1588C>T	c.(1588-1590)CGT>TGT	p.R530C	TBCK_uc003hyb.2_Missense_Mutation_p.R273C|TBCK_uc003hye.2_Missense_Mutation_p.R491C|TBCK_uc003hyc.2_Missense_Mutation_p.R467C|TBCK_uc003hyd.2_Missense_Mutation_p.R358C|TBCK_uc003hyf.2_Missense_Mutation_p.R530C	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like	530	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						TTTAATACACGCCTAAATTTT	0.368													37	98					0	0	0.004878	0	0		A	107154146	A	A	107154146	3	1	4	1	0	0	0	0	1	0	0	0	15661	1087	38	1	1133	1	TBCK	4	107154146	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	515090	107154146	84000130	1093	3059											
CYP2U1	113612	broad.mit.edu	37	chr4	108871478	108871478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagcctaatgcagagtttcGcatttgctttacctgaggat	9	14	10	8	1	0	3	0	2	0	1	1	4	0	4	2	1	4	4	2	1	2	5	rs150818323		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:108871478G>A	uc003hyp.2	+	5	1617	c.1534G>A	c.(1534-1536)GCA>ACA	p.A512T	CYP2U1_uc011cfi.1_Missense_Mutation_p.A303T	NM_183075	NP_898898	Q7Z449	CP2U1_HUMAN	cytochrome P450, family 2, subfamily U,	512	Helical; (Potential).				xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000128)		GCAGAGTTTCGCATTTGCTTT	0.398													5	79					0	0	0.000602	0	0		A	108871478	A	A	108871478	3	1	4	1	0	0	0	0	1	0	0	0	4178	1087	38	1	1552	1	CYP2U1	4	108871478	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1717332	108871478	82282798	1094	3060											
AGXT2L1	64850	broad.mit.edu	37	chr4	109663750	109663750	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtccctaagcagttctaTgtgggcttctttcagcatct	6	15	9	11	0	4	0	1	0	3	0	5	0	5	0	1	1	2	5	1	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:109663750T>C	uc003hzc.2	-	13	1571	c.1390A>G	c.(1390-1392)ATA>GTA	p.I464V	AGXT2L1_uc010imc.2_Missense_Mutation_p.I458V|AGXT2L1_uc011cfm.1_Missense_Mutation_p.I424V|AGXT2L1_uc011cfn.1_Missense_Mutation_p.I391V|AGXT2L1_uc011cfo.1_Missense_Mutation_p.I406V	NM_031279	NP_112569	Q8TBG4	AT2L1_HUMAN	alanine-glyoxylate aminotransferase 2-like 1	464					cellular amino acid metabolic process	mitochondrion	alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000281)		AGCAGTTCTATGTGGGCTTCT	0.493													20	70					0	0	0.001882	0	0		C	109663750	C	C	109663750	3	2	4	1	0	0	0	0	1	0	0	0	406	1464	51	3	113	3	AGXT2L1	4	109663750	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	792272	109663750	81490526	1095	3061											
AGXT2L1	64850	broad.mit.edu	37	chr4	109681385	109681385	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtccaagtactgttcaccgTtctcatcaaacatgtactgc	11	12	6	12	1	3	0	3	0	1	0	5	0	4	0	2	0	4	4	2	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:109681385T>C	uc003hzc.2	-	2	315	c.134A>G	c.(133-135)AAC>AGC	p.N45S	AGXT2L1_uc010imc.2_Missense_Mutation_p.N45S|AGXT2L1_uc011cfm.1_Missense_Mutation_p.N5S|AGXT2L1_uc011cfn.1_Intron|AGXT2L1_uc011cfo.1_Intron	NM_031279	NP_112569	Q8TBG4	AT2L1_HUMAN	alanine-glyoxylate aminotransferase 2-like 1	45					cellular amino acid metabolic process	mitochondrion	alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000281)		CTGTTCACCGTTCTCATCAAA	0.438													31	85					0	0	0.002445	0	0		C	109681385	C	C	109681385	3	2	4	1	0	0	0	0	1	0	0	0	406	1725	60	3	1413	3	AGXT2L1	4	109681385	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	17635	109681385	81472891	1096	3062											
COL25A1	84570	broad.mit.edu	37	chr4	109858963	109858963	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagataaactgagatacttgCcatcaagccttgttctcctg	12	12	7	10	0	2	2	1	1	1	2	3	3	2	2	3	0	4	1	3	0	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:109858963C>T	uc003hze.1	-	10	1239	c.708_splice	c.e10+1	p.M236_splice	COL25A1_uc003hzg.2_Splice_Site_p.M236_splice|COL25A1_uc003hzd.2_Intron|COL25A1_uc003hzf.2_Splice_Site_p.M17_splice	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1							collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		GAGATACTTGCCATCAAGCCT	0.333													16	62					0	0	0.010504	0	0		T	109858963	T	T	109858963	5	4	4	1	0	0	0	0	0	0	1	0	3687	753	26	2	1451	2	COL25A1	4	109858963	Splice_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	177578	109858963	81295313	1097	3063											
SEC24B	10427	broad.mit.edu	37	chr4	110442692	110442692	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttaatgtctccaacaggtggCcgtgtgtctgtatttcagac	8	14	10	9	1	3	1	1	0	2	1	4	1	3	1	2	2	1	1	2	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:110442692C>T	uc003hzk.2	+	14	2473	c.2418C>T	c.(2416-2418)GGC>GGT	p.G806G	SEC24B_uc003hzl.2_Silent_p.G771G|SEC24B_uc011cfp.1_Silent_p.G836G|SEC24B_uc011cfq.1_Silent_p.G805G|SEC24B_uc011cfr.1_Silent_p.G770G	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	806					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		CAACAGGTGGCCGTGTGTCTG	0.433													16	33					0	0	0.00499	0	0		T	110442692	T	T	110442692	2	4	4	1	0	0	0	0	0	0	0	1	14020	726	26	2		2	SEC24B	4	110442692	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	583729	110442692	80711584	1098	3064											
CFI	3426	broad.mit.edu	37	chr4	110662253	110662253	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttacaggcatcgatggaAccatcatatgtacctaagaa	14	10	7	10	1	1	1	1	0	0	1	2	3	1	2	3	2	3	2	3	2	6	5	rs145296508		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:110662253A>C	uc003hzr.3	-	13	1756	c.1548T>G	c.(1546-1548)GGT>GGG	p.G516G	CFI_uc003hzq.2_Silent_p.G313G|CFI_uc011cft.1_Silent_p.G524G|CFI_uc003hzs.3_Silent_p.G509G	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	516	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		CATCGATGGAACCATCATATG	0.443													5	169					0	0	0.001168	0	0		C	110662253	C	C	110662253	2	2	4	1	0	0	0	0	0	0	0	1	3292	30	2	5		5	CFI	4	110662253	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	219561	110662253	80492023	1099	3065											
RRH	10692	broad.mit.edu	37	chr4	110756589	110756589	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacggtcgtggctgtggAccgatacctgaccatctgcc	7	9	11	14	3	2	1	1	1	1	0	3	3	2	2	4	3	2	1	4	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:110756589A>G	uc003hzv.2	+	3	399	c.365A>G	c.(364-366)GAC>GGC	p.D122G		NM_006583	NP_006574	O14718	OPSX_HUMAN	peropsin	122	Cytoplasmic.				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00109)		GTGGCTGTGGACCGATACCTG	0.388													16	52					0	0	0.003954	0	0		G	110756589	G	G	110756589	3	3	4	1	0	0	0	0	1	0	0	0	13705	275	10	3	375	3	RRH	4	110756589	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	94336	110756589	80397687	1100	3066											
ENPEP	2028	broad.mit.edu	37	chr4	111397641	111397641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatgtggccattctctgtgCggtggtggtgggtgtaggat	5	13	17	6	1	1	0	0	0	1	0	2	1	1	1	1	6	1	1	1	6	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:111397641C>T	uc003iab.3	+	1	413	c.71C>T	c.(70-72)GCG>GTG	p.A24V		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	24	Helical; Signal-anchor for type II membrane protein; (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	ATTCTCTGTGCGGTGGTGGTG	0.537													29	73					0	0	0.002836	0	0		T	111397641	T	T	111397641	3	4	4	1	0	0	0	0	1	0	0	0	5136	768	27	1	73	1	ENPEP	4	111397641	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	641052	111397641	79756635	1101	3067											
ENPEP	2028	broad.mit.edu	37	chr4	111434596	111434596	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaatgttacttgaagatgTattacctgttcaagaggatg	13	13	9	6	0	1	3	1	1	0	2	1	4	1	4	2	1	2	3	2	1	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:111434596T>C	uc003iab.3	+	7	1676	c.1334T>C	c.(1333-1335)GTA>GCA	p.V445A		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	445	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	CTTGAAGATGTATTACCTGTT	0.323													7	126					0	0	0.00308	0	0		C	111434596	C	C	111434596	3	2	4	1	0	0	0	0	1	0	0	0	5136	1638	57	3	1360	3	ENPEP	4	111434596	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	36955	111434596	79719680	1102	3068											
ENPEP	2028	broad.mit.edu	37	chr4	111470515	111470515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atttcaggaatacttccaagGtcaagtgaagcctattgcag	13	11	9	8	0	2	1	2	1	0	0	3	2	3	2	2	2	3	1	2	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:111470515G>A	uc003iab.3	+	15	2507	c.2165G>A	c.(2164-2166)GGT>GAT	p.G722D		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	722	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	TACTTCCAAGGTCAAGTGAAG	0.328													6	58					0	0	0.004482	0	0		A	111470515	A	A	111470515	3	1	4	1	0	0	0	0	1	0	0	0	5136	1261	44	4	2223	4	ENPEP	4	111470515	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	35919	111470515	79683761	1103	3069											
AP1AR	55435	broad.mit.edu	37	chr4	113174397	113174397	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaacatgctcaagaggtgaGcacttaacaatagaggtaag	17	7	11	6	0	1	4	1	1	0	3	1	4	1	4	0	2	4	3	0	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:113174397G>A	uc003iaj.3	+	2	470	c.117G>A	c.(115-117)GAG>GAA	p.E39E	AP1AR_uc010imm.1_Silent_p.E39E|AP1AR_uc003iak.3_Silent_p.E39E	NM_018569	NP_061039	Q63HQ0	AP1AR_HUMAN	adaptor-related protein complex 1 associated	39					protein transport	early endosome|Golgi apparatus|late endosome|transport vesicle					0						CAAGAGGTGAGCACTTAACAA	0.333													5	55					0	0	0.000602	0	0		A	113174397	A	A	113174397	2	1	4	1	0	0	0	0	0	0	0	1	730	962	34	2		2	AP1AR	4	113174397	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1703882	113174397	77979879	1104	3070											
ANK2	287	broad.mit.edu	37	chr4	114278694	114278694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgttgaagacgttgtagtgGcaagctcctctagtggaact	9	12	12	8	1	1	2	0	1	1	1	2	3	2	3	1	2	2	5	1	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:114278694G>A	uc003ibe.3	+	38	9020	c.8920G>A	c.(8920-8922)GCA>ACA	p.A2974T	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.A276T|ANK2_uc011cgb.1_Missense_Mutation_p.A2989T	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2941					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CGTTGTAGTGGCAAGCTCCTC	0.413													16	179					0	0	0.00499	0	0		A	114278694	A	A	114278694	3	1	4	1	0	0	0	0	1	0	0	0	621	1203	42	2	9135	2	ANK2	4	114278694	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1104297	114278694	76875582	1105	3071											
ANK2	287	broad.mit.edu	37	chr4	114278954	114278954	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctttgaggctcgtgtgaaAgaggaagaacaaaagatatt	15	9	12	5	1	0	5	0	2	0	3	1	6	0	6	1	2	1	1	1	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:114278954A>C	uc003ibe.3	+	38	9280	c.9180A>C	c.(9178-9180)AAA>AAC	p.K3060N	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.K362N|ANK2_uc011cgb.1_Missense_Mutation_p.K3075N	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3027					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CTCGTGTGAAAGAGGAAGAAC	0.458													27	56					0	0	0.008361	0	0		C	114278954	C	C	114278954	3	2	4	1	0	0	0	0	1	0	0	0	621	69	3	5	9395	5	ANK2	4	114278954	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	260	114278954	76875322	1106	3072											
UGT8	7368	broad.mit.edu	37	chr4	115544223	115544223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgaaggcagagacatcGccccatctaatcattacagc	12	9	7	13	1	3	2	1	1	2	1	5	3	3	2	2	1	2	1	2	1	3	2	rs114818124		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:115544223G>A	uc003ibs.2	+	2	709	c.187G>A	c.(187-189)GCC>ACC	p.A63T	UGT8_uc003ibt.2_Missense_Mutation_p.A63T|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	63					central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		CAGAGACATCGCCCCATCTAA	0.483													17	48					0	0	0.004007	0	0		A	115544223	A	A	115544223	3	1	4	1	0	0	0	0	1	0	0	0	16991	1087	38	1	189	1	UGT8	4	115544223	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1265269	115544223	75610053	1107	3073											
NDST4	64579	broad.mit.edu	37	chr4	115997904	115997904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggctggactccaaaatagCtatgatatcttgaccgagtt	11	12	9	9	2	1	2	0	2	1	0	3	4	2	3	2	2	1	3	2	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:115997904C>T	uc003ibu.2	-	2	968	c.289G>A	c.(289-291)GCT>ACT	p.A97T	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	97	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TCCAAAATAGCTATGATATCT	0.433													17	50					0	0	0.007413	0	0		T	115997904	T	T	115997904	3	4	4	1	0	0	0	0	1	0	0	0	10277	797	28	2	2381	2	NDST4	4	115997904	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	453681	115997904	75156372	1108	3074											
C4orf31	79625	broad.mit.edu	37	chr4	121958554	121958554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttccaggccaaagtgaccGtggtgcgccccagtgaggtc	7	8	14	12	2	0	2	0	2	0	0	2	2	1	2	5	3	1	1	5	3	1	1	rs139699205	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:121958554G>A	uc003idq.1	-	4	1099	c.572C>T	c.(571-573)ACG>ATG	p.T191M		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	191											0						CAAAGTGACCGTGGTGCGCCC	0.483													8	105					0	0	0.00308	0	0		A	121958554	A	A	121958554	3	1	4	1	0	0	0	0	1	0	0	0	2264	1145	40	1	1138	1	C4orf31	4	121958554	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5960650	121958554	69195722	1109	3075											
TNIP3	79931	broad.mit.edu	37	chr4	122075764	122075764	+	Frame_Shift_Del	DEL	T	-	-																															tttccttgttcgcaagagtaTtttttccctttaaaagttta																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:122075764delT	uc010ing.2	-	5	630	c.434delA	c.(433-435)AATfs	p.N145fs	TNIP3_uc010inh.2_Frame_Shift_Del_p.N145fs|TNIP3_uc011cgj.1_Frame_Shift_Del_p.N203fs|TNIP3_uc010ini.2_Frame_Shift_Del_p.N145fs	NM_024873	NP_079149	Q96KP6	TNIP3_HUMAN	TNFAIP3 interacting protein 3	145	Potential.									ovary(1)	1						CGCAAGAGTATTTTTTCCCTT	0.333													19	35	---	---	---	---						.	-	122075764	-	-	122075764	7	5	4	1	0	1	0	1	0	0	0	0	16341	1493	52	0	571	0	TNIP3	4	122075764	Frame_Shift_Del	DEL	T	TCGA-BR-4184-01A-01D-1126-08	117210	122075764	69078512	1110	3076											
QRFPR	84109	broad.mit.edu	37	chr4	122257980	122257980	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acctcaagttgttgcacgtgCcacatgggtgatcctacgat	9	11	10	11	2	1	1	1	1	0	0	2	2	2	1	3	1	3	3	3	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:122257980C>T	uc010inj.1	-	3	922	c.543G>A	c.(541-543)TGG>TGA	p.W181*	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Nonsense_Mutation_p.W181*	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	181	Helical; Name=4; (Potential).					plasma membrane	neuropeptide Y receptor activity				0						GTTGCACGTGCCACATGGGTG	0.418													18	259					0	0	0.010504	0	0		T	122257980	T	T	122257980	4	4	4	1	0	0	0	0	0	1	0	0	12903	740	26	2	768	2	QRFPR	4	122257980	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	182216	122257980	68896296	1111	3077											
QRFPR	84109	broad.mit.edu	37	chr4	122301573	122301573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaagatgttggtgacggtgCgcatggccttgctgcgggtc	6	11	16	8	3	0	2	0	1	0	1	1	2	0	2	1	4	3	3	1	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:122301573C>T	uc010inj.1	-	1	609	c.230G>A	c.(229-231)CGC>CAC	p.R77H	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Missense_Mutation_p.R77H|QRFPR_uc010inl.1_Missense_Mutation_p.R77H	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	77	Cytoplasmic (Potential).					plasma membrane	neuropeptide Y receptor activity				0						GGTGACGGTGCGCATGGCCTT	0.582													19	37					0	0	0.010504	0	0		T	122301573	T	T	122301573	3	4	4	1	0	0	0	0	1	0	0	0	12903	768	27	1	1089	1	QRFPR	4	122301573	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	43593	122301573	68852703	1112	3078											
TRPC3	7222	broad.mit.edu	37	chr4	122846219	122846219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttgacacgacttaatgaaGctttgtgcctgtgtacctcc	8	14	9	10	1	0	2	0	2	0	0	1	3	1	2	3	0	3	3	3	0	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:122846219G>A	uc003ieg.2	-	3	1204	c.1130C>T	c.(1129-1131)GCT>GTT	p.A377V	TRPC3_uc010inr.2_Missense_Mutation_p.A304V|TRPC3_uc003ief.2_Missense_Mutation_p.A304V|TRPC3_uc011cgl.1_Missense_Mutation_p.A41V	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	292	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						ACTTAATGAAGCTTTGTGCCT	0.443													6	118					0	0	0.004482	0	0		A	122846219	A	A	122846219	3	1	4	1	0	0	0	0	1	0	0	0	16605	971	34	2	1675	2	TRPC3	4	122846219	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	544646	122846219	68308057	1113	3079											
TRPC3	7222	broad.mit.edu	37	chr4	122853627	122853627	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacttgcagaaatagtcgtgCggccgctcgatcctggcacc	8	8	11	14	4	0	1	0	0	0	1	3	2	1	1	3	2	2	3	3	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:122853627C>T	uc003ieg.2	-	2	860	c.786G>A	c.(784-786)CCG>CCA	p.P262P	TRPC3_uc010inr.2_Silent_p.P189P|TRPC3_uc003ief.2_Silent_p.P189P|TRPC3_uc011cgl.1_5'UTR	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	177	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						AATAGTCGTGCGGCCGCTCGA	0.602													6	23					0	0	0.001168	0	0		T	122853627	T	T	122853627	2	4	4	1	0	0	0	0	0	0	0	1	16605	755	27	1		1	TRPC3	4	122853627	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7408	122853627	68300649	1114	3080											
KIAA1109	84162	broad.mit.edu	37	chr4	123140711	123140711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgtacaaagttcatgggCgtcttcctgttgtaagtgtt	8	17	10	6	1	2	0	1	0	1	0	3	0	3	0	1	1	1	5	1	1	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:123140711C>T	uc003ieh.2	+	19	2509	c.2464C>T	c.(2464-2466)CGT>TGT	p.R822C	KIAA1109_uc003iei.1_Missense_Mutation_p.R576C|KIAA1109_uc010ins.1_Missense_Mutation_p.R166C|KIAA1109_uc003iej.1_Missense_Mutation_p.R207C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	822					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGTTCATGGGCGTCTTCCTGT	0.373													21	50					0	0	0.00278	0	0		T	123140711	T	T	123140711	3	4	4	1	0	0	0	0	1	0	0	0	8224	768	27	1	2538	1	KIAA1109	4	123140711	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	287084	123140711	68013565	1115	3081											
KIAA1109	84162	broad.mit.edu	37	chr4	123161120	123161120	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaacccagcagattgactAcagtaggggttccatatatc	13	9	9	10	0	0	2	0	1	0	1	2	2	1	2	2	2	3	4	2	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:123161120A>G	uc003ieh.2	+	27	4328	c.4283A>G	c.(4282-4284)TAC>TGC	p.Y1428C	KIAA1109_uc003iei.1_Missense_Mutation_p.Y1181C|KIAA1109_uc010ins.1_Missense_Mutation_p.Y771C|KIAA1109_uc003iek.2_Missense_Mutation_p.Y47C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1428					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CAGATTGACTACAGTAGGGGT	0.443													4	69					0	0	0.001984	0	0		G	123161120	G	G	123161120	3	3	4	1	0	0	0	0	1	0	0	0	8224	391	14	3	4389	3	KIAA1109	4	123161120	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	20409	123161120	67993156	1116	3082											
KIAA1109	84162	broad.mit.edu	37	chr4	123258064	123258064	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaagatgaagatatgggAcattttgaaataccagatcc	16	10	8	7	0	1	5	1	2	0	3	2	6	2	6	2	1	1	0	2	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:123258064A>G	uc003ieh.2	+	69	12084	c.12039A>G	c.(12037-12039)GGA>GGG	p.G4013G	KIAA1109_uc003iem.2_Silent_p.G369G|KIAA1109_uc003ien.2_5'Flank	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4013					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAGATATGGGACATTTTGAAA	0.333													5	69					0	0	0.001168	0	0		G	123258064	G	G	123258064	2	3	4	1	0	0	0	0	0	0	0	1	8224	262	10	3		3	KIAA1109	4	123258064	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	96944	123258064	67896212	1117	3083											
FAT4	79633	broad.mit.edu	37	chr4	126237960	126237960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggacctcaatgacaacGcccccgttttcccggacccc	7	7	9	18	4	1	1	1	1	0	0	2	3	2	3	6	2	2	1	6	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126237960G>A	uc003ifj.3	+	1	394	c.394G>A	c.(394-396)GCC>ACC	p.A132T		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	132	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAATGACAACGCCCCCGTTTT	0.617											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	10					0	0	0.001168	0	0		A	126237960	A	A	126237960	3	1	4	1	0	0	0	0	1	0	0	0	5706	1087	38	1	396	1	FAT4	4	126237960	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2979896	126237960	64916316	1118	3084											
FAT4	79633	broad.mit.edu	37	chr4	126238572	126238572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgccttccctcactgggCgcgccgaggcgctgattcag	4	8	14	15	5	2	1	2	1	0	0	3	2	3	1	3	2	1	1	3	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126238572C>T	uc003ifj.3	+	1	1006	c.1006C>T	c.(1006-1008)CGC>TGC	p.R336C		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	336	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CCTCACTGGGCGCGCCGAGGC	0.627											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	25					0	0	0.000978	0	0		T	126238572	T	T	126238572	3	4	4	1	0	0	0	0	1	0	0	0	5706	768	27	1	1008	1	FAT4	4	126238572	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	612	126238572	64915704	1119	3085											
FAT4	79633	broad.mit.edu	37	chr4	126240523	126240523	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatcttaacagtttatgTccatgatgtaaatgacaatt	13	16	6	6	0	2	2	1	2	1	0	3	2	3	2	1	0	1	2	1	0	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126240523T>C	uc003ifj.3	+	1	2957	c.2957T>C	c.(2956-2958)GTC>GCC	p.V986A		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	986	Cadherin 9.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACAGTTTATGTCCATGATGTA	0.438													7	65					0	0	0.004482	0	0		C	126240523	C	C	126240523	3	2	4	1	0	0	0	0	1	0	0	0	5706	1667	58	3	2959	3	FAT4	4	126240523	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1951	126240523	64913753	1120	3086											
FAT4	79633	broad.mit.edu	37	chr4	126242112	126242112	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatgctttgaagaacgtgAccattttggttacagacctc	10	13	10	8	1	0	4	0	2	0	2	1	4	0	4	2	2	3	3	2	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126242112A>G	uc003ifj.3	+	1	4546	c.4546A>G	c.(4546-4548)ACC>GCC	p.T1516A		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1516	Cadherin 14.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAAGAACGTGACCATTTTGGT	0.418													10	158					0	0	0.001368	0	0		G	126242112	G	G	126242112	3	3	4	1	0	0	0	0	1	0	0	0	5706	275	10	3	4548	3	FAT4	4	126242112	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1589	126242112	64912164	1121	3087											
FAT4	79633	broad.mit.edu	37	chr4	126242602	126242602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaaaaaactgttggacGcctctttactattggacgac	13	11	9	8	2	1	2	0	1	1	1	1	5	1	4	1	2	2	1	1	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126242602G>A	uc003ifj.3	+	1	5036	c.5036G>A	c.(5035-5037)CGC>CAC	p.R1679H		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1679	Cadherin 16.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACTGTTGGACGCCTCTTTACT	0.453													30	76					0	0	0.002096	0	0		A	126242602	A	A	126242602	3	1	4	1	0	0	0	0	1	0	0	0	5706	1087	38	1	5038	1	FAT4	4	126242602	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	490	126242602	64911674	1122	3088											
FAT4	79633	broad.mit.edu	37	chr4	126369981	126369981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacctatgtcatattatatcGcaagtgggaatcttggcaat	13	13	8	7	1	2	0	1	0	1	0	3	1	2	1	1	2	1	2	1	2	8	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126369981G>A	uc003ifj.3	+	9	7810	c.7810G>A	c.(7810-7812)GCA>ACA	p.A2604T	FAT4_uc011cgp.1_Missense_Mutation_p.A902T|FAT4_uc003ifi.1_Missense_Mutation_p.A82T	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2604	Extracellular (Potential).|Cadherin 25.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ATATTATATCGCAAGTGGGAa	0.234													6	25					0	0	0.001168	0	0		A	126369981	A	A	126369981	3	1	4	1	0	0	0	0	1	0	0	0	5706	1087	38	1	7844	1	FAT4	4	126369981	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	127379	126369981	64784295	1123	3089											
FAT4	79633	broad.mit.edu	37	chr4	126411605	126411605	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaaagaggagaagaaacCgaaggagaagaagaaaaagg	22	1	13	5	1	0	6	0	0	0	6	1	9	1	6	2	3	1	0	2	3	8	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126411605C>A	uc003ifj.3	+	17	13628	c.13628C>A	c.(13627-13629)CCG>CAG	p.P4543Q	FAT4_uc011cgp.1_Missense_Mutation_p.P2784Q|FAT4_uc003ifi.1_Missense_Mutation_p.P2020Q	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4543	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAGAAGAAACCGAAGGAGAAG	0.517													12	111					5.50884e-06	5.81984e-06	0.001368	1	0		A	126411605	A	A	126411605	3	1	4	1	0	0	0	0	1	0	0	0	5706	652	23	5	13694	5	FAT4	4	126411605	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	41624	126411605	64742671	1124	3090											
FAT4	79633	broad.mit.edu	37	chr4	126412402	126412402	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaagtatctgcagtgcaGaccatgggaggtcttcttca	10	10	10	11	0	4	1	1	0	3	1	4	2	4	2	2	2	2	3	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126412402G>T	uc003ifj.3	+	17	14425	c.14425G>T	c.(14425-14427)GAC>TAC	p.D4809Y	FAT4_uc011cgp.1_Missense_Mutation_p.D3050Y|FAT4_uc003ifi.1_Missense_Mutation_p.D2286Y	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4809	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTGCAGTGCAGACCATGGGAG	0.512													6	57					2.74318e-10	2.94998e-10	0.006214	1	0		T	126412402	T	T	126412402	3	4	4	1	0	0	0	0	1	0	0	0	5706	942	33	5	14491	5	FAT4	4	126412402	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	797	126412402	64741874	1125	3091											
SCLT1	132320	broad.mit.edu	37	chr4	129880822	129880822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctcttacaatagcctcaTatctctcattttctaattca	10	17	3	11	0	6	0	3	0	3	0	7	0	6	0	1	1	2	1	1	1	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:129880822T>C	uc003igp.2	-	12	1486	c.980A>G	c.(979-981)TAT>TGT	p.Y327C	SCLT1_uc003ign.2_Translation_Start_Site|SCLT1_uc003igo.2_Translation_Start_Site|SCLT1_uc003igq.2_Intron|SCLT1_uc010iob.1_Intron	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	327	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						AATAGCCTCATATCTCTCATT	0.348													12	46					0	0	0.000978	0	0		C	129880822	C	C	129880822	3	2	4	1	0	0	0	0	1	0	0	0	13931	1406	49	3	1126	3	SCLT1	4	129880822	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	3468420	129880822	61273454	1126	3092											
PCDH10	57575	broad.mit.edu	37	chr4	134072314	134072314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggccccaacgccgtgcctgCgcactgcaaggtgctagtgc	6	6	14	15	3	0	0	0	0	0	0	0	0	0	0	4	2	6	3	4	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:134072314C>T	uc003iha.2	+	1	1845	c.1019C>T	c.(1018-1020)GCG>GTG	p.A340V	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.A340V	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	340	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GCCGTGCCTGCGCACTGCAAG	0.607													21	65					0	0	0.003954	0	0		T	134072314	T	T	134072314	3	4	4	1	0	0	0	0	1	0	0	0	11526	768	27	1	1021	1	PCDH10	4	134072314	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4191492	134072314	57081962	1127	3093											
PCDH10	57575	broad.mit.edu	37	chr4	134073044	134073044	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctctaccagggcgcaacggGactccagcgcgtgaggtgct	7	6	14	14	4	1	1	0	1	1	0	2	2	2	2	3	3	4	2	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:134073044G>T	uc003iha.2	+	1	2575	c.1749G>T	c.(1747-1749)GGG>GGT	p.G583G	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.G583G	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	583	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GGCGCAACGGGACTCCAGCGC	0.687													5	16					0.000602214	0.000627828	0.000602	1	0		T	134073044	T	T	134073044	2	4	4	1	0	0	0	0	0	0	0	1	11526	1161	41	5		5	PCDH10	4	134073044	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	730	134073044	57081232	1128	3094											
PCDH10	57575	broad.mit.edu	37	chr4	134073220	134073220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggagctgcgcacagcacGccgagtcccggccaagcgcg	7	2	16	16	7	0	0	0	0	0	0	1	2	1	1	3	3	4	3	3	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:134073220G>A	uc003iha.2	+	1	2751	c.1925G>A	c.(1924-1926)CGC>CAC	p.R642H	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.R642H	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	642	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CGCACAGCACGCCGAGTCCCG	0.672													5	17					0	0	0.000602	0	0		A	134073220	A	A	134073220	3	1	4	1	0	0	0	0	1	0	0	0	11526	1087	38	1	1927	1	PCDH10	4	134073220	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	176	134073220	57081056	1129	3095											
PCDH10	57575	broad.mit.edu	37	chr4	134073864	134073864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacccctgcggggccatcGtcaccggttacaccgaccag	9	5	10	17	4	1	0	1	0	0	0	2	1	1	0	6	3	3	1	6	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:134073864G>A	uc003iha.2	+	1	3395	c.2569G>A	c.(2569-2571)GTC>ATC	p.V857I	PCDH10_uc003igz.2_Missense_Mutation_p.V857I	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	857	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CGGGGCCATCGTCACCGGTTA	0.572													8	22					0	0	0.001368	0	0		A	134073864	A	A	134073864	3	1	4	1	0	0	0	0	1	0	0	0	11526	1145	40	1	2571	1	PCDH10	4	134073864	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	644	134073864	57080412	1130	3096											
PCDH18	54510	broad.mit.edu	37	chr4	138452423	138452423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttcccattagcgccctcatCtggatccgtggcattcagat	7	13	8	13	2	3	1	2	0	1	1	5	2	5	2	3	2	1	1	3	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:138452423C>T	uc003ihe.3	-	1	1207	c.820G>A	c.(820-822)GAT>AAT	p.D274N	PCDH18_uc003ihf.3_Missense_Mutation_p.D267N|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.D54N|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	274	Cadherin 3.|Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					GCGCCCTCATCTGGATCCGTG	0.408													6	65					0	0	0.00308	0	0		T	138452423	T	T	138452423	3	4	4	1	0	0	0	0	1	0	0	0	11532	913	32	4	2603	4	PCDH18	4	138452423	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4378559	138452423	52701853	1131	3097											
NAA15	80155	broad.mit.edu	37	chr4	140262203	140262203	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttactacagattcaaatgCgagatcttgagggttacagg	12	11	10	8	1	2	3	1	1	1	2	2	4	2	3	1	2	4	1	1	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:140262203C>T	uc003ihu.1	+	4	638	c.382C>T	c.(382-384)CGA>TGA	p.R128*		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	128					angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2						GATTCAAATGCGAGATCTTGA	0.318													8	91					0	0	0.008291	0	0		T	140262203	T	T	140262203	4	4	4	1	0	0	0	0	0	1	0	0	10136	760	27	1	396	1	NAA15	4	140262203	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1809780	140262203	50892073	1132	3098											
NAA15	80155	broad.mit.edu	37	chr4	140264015	140264015	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacttcagcttcgacctgcGcagagagcatcatggattgg	9	11	11	10	2	2	1	2	0	0	1	3	4	2	2	1	2	4	3	1	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:140264015G>A	uc003ihu.1	+	5	694	c.438G>A	c.(436-438)GCG>GCA	p.A146A		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	146					angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2						TTCGACCTGCGCAGAGAGCAT	0.348													7	123					0	0	0.00308	0	0		A	140264015	A	A	140264015	2	1	4	1	0	0	0	0	0	0	0	1	10136	1074	38	1		1	NAA15	4	140264015	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1812	140264015	50890261	1133	3099											
MAML3	55534	broad.mit.edu	37	chr4	140640939	140640939	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgaagagggtagctggcGccattgttgaatggtcccaa	9	10	14	8	1	0	3	0	2	0	1	1	3	1	3	2	3	1	4	2	3	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:140640939G>A	uc003ihz.1	-	7	3692	c.2940C>T	c.(2938-2940)GGC>GGT	p.G980G	MGST2_uc010ioi.1_Intron|MAML3_uc011chd.1_Silent_p.G448G	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	981					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					GGTAGCTGGCGCCATTGTTGA	0.567													4	26					0	0	0.009096	0	0		A	140640939	A	A	140640939	2	1	4	1	0	0	0	0	0	0	0	1	9225	1074	38	1		1	MAML3	4	140640939	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	376924	140640939	50513337	1134	3100											
RNF150	57484	broad.mit.edu	37	chr4	141888992	141888992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tactatctccttcccttttgGctcaggaatcattatggcca	8	15	6	12	0	3	0	2	0	1	0	5	1	4	1	3	3	1	1	3	3	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:141888992G>A	uc003iio.1	-	2	1174	c.520C>T	c.(520-522)CCA>TCA	p.P174S	RNF150_uc010iok.1_Missense_Mutation_p.P174S|RNF150_uc003iip.1_Missense_Mutation_p.P174S	NM_020724	NP_065775	Q9ULK6	RN150_HUMAN	ring finger protein 150 precursor	174	Extracellular (Potential).|PA.					integral to membrane	zinc ion binding			ovary(1)	1	all_hematologic(180;0.162)					TTCCCTTTTGGCTCAGGAATC	0.488													6	97					0	0	0.001168	0	0		A	141888992	A	A	141888992	3	1	4	1	0	0	0	0	1	0	0	0	13476	1203	42	2	820	2	RNF150	4	141888992	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1248053	141888992	49265284	1135	3101											
GAB1	2549	broad.mit.edu	37	chr4	144359168	144359168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagaacgcatgctgattctGcaaaatccacctcttctgaa	12	12	6	11	1	3	3	0	2	3	1	4	3	4	3	2	0	3	3	2	0	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:144359168G>A	uc003ije.2	+	4	969	c.610G>A	c.(610-612)GCA>ACA	p.A204T	GAB1_uc003ijd.2_Missense_Mutation_p.A204T|GAB1_uc011chq.1_Missense_Mutation_p.A101T	NM_002039	NP_002030	Q13480	GAB1_HUMAN	GRB2-associated binding protein 1 isoform b	204				A -> G (in Ref. 1; AAC50380).	cell proliferation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			breast(2)|lung(1)|skin(1)	4	all_hematologic(180;0.158)					TGCTGATTCTGCAAAATCCAC	0.353													18	50					0	0	0.008871	0	0		A	144359168	A	A	144359168	3	1	4	1	0	0	0	0	1	0	0	0	6162	1319	46	2	624	2	GAB1	4	144359168	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2470176	144359168	46795108	1136	3102											
GYPE	2996	broad.mit.edu	37	chr4	144826671	144826671	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatacatcctgagatcaCgagctggctcctgaagttag	10	11	9	11	1	1	2	1	2	0	1	4	4	4	2	3	1	2	3	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:144826671C>T	uc003ijj.2	-	1	46	c.-10G>A	c.(-12--8)TCGTG>TCATG		GYPE_uc010ion.2_RNA|GYPE_uc003ijk.3_Translation_Start_Site	NM_198682	NP_941391	P15421	GLPE_HUMAN	glycophorin E precursor							integral to plasma membrane					0	all_hematologic(180;0.158)					CCTGAGATCACGAGCTGGCTC	0.398													5	83					0	0	0.000602	0	0		T	144826671	T	T	144826671	1	4	4	1	0	0	0	0	0	0	0	0	6927	551	19	1		1	GYPE	4	144826671	Translation_Start_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	467503	144826671	46327605	1137	3103											
HHIP	64399	broad.mit.edu	37	chr4	145659003	145659003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatatcttggtcctcaatGtgaacaagtggacagaaaca	15	9	10	7	0	2	2	1	1	1	1	3	4	3	4	1	3	2	0	1	3	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:145659003G>A	uc003ijs.1	+	13	2652	c.1997G>A	c.(1996-1998)TGT>TAT	p.C666Y		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	666	EGF-like 2.					cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		GGTCCTCAATGTGAACAAGTG	0.438													7	84					0	0	0.004482	0	0		A	145659003	A	A	145659003	3	1	4	1	0	0	0	0	1	0	0	0	7108	1377	48	4	2047	4	HHIP	4	145659003	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	832332	145659003	45495273	1138	3104											
OTUD4	54726	broad.mit.edu	37	chr4	146071750	146071750	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgaagaatgactagagaAcgcatgttgtcttactcctg	11	11	9	10	1	1	4	0	2	1	2	2	5	2	4	2	0	2	2	2	0	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:146071750A>G	uc003ika.3	-	13	1117	c.979T>C	c.(979-981)TTC>CTC	p.F327L	OTUD4_uc003ijz.3_Missense_Mutation_p.F326L	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	391							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					TGACTAGAGAACGCATGTTGT	0.458													4	87					0	0	0.000602	0	0		G	146071750	G	G	146071750	3	3	4	1	0	0	0	0	1	0	0	0	11333	43	2	3	2206	3	OTUD4	4	146071750	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	412747	146071750	45082526	1139	3105											
SMAD1	4086	broad.mit.edu	37	chr4	146461063	146461063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctcacatgccactcaacGccacttttccagattctttc	9	12	4	16	1	3	1	2	0	1	1	5	1	4	1	4	0	3	0	4	0	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:146461063G>A	uc003ikc.2	+	3	924	c.508G>A	c.(508-510)GCC>ACC	p.A170T	SMAD1_uc003ikd.2_Missense_Mutation_p.A170T|SMAD1_uc010iov.2_Missense_Mutation_p.A170T|SMAD1_uc011cic.1_Missense_Mutation_p.A170T|SMAD1_uc003ikf.2_RNA	NM_005900	NP_005891	Q15797	SMAD1_HUMAN	Sma- and Mad-related protein 1	170					BMP signaling pathway|embryonic pattern specification|primary miRNA processing|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|nuclear inner membrane	co-SMAD binding|I-SMAD binding|identical protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity			ovary(1)	1	all_hematologic(180;0.151)					GCCACTCAACGCCACTTTTCC	0.507													15	47					0	0	0.00245	0	0		A	146461063	A	A	146461063	3	1	4	1	0	0	0	0	1	0	0	0	14782	1087	38	1	514	1	SMAD1	4	146461063	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	389313	146461063	44693213	1140	3106											
POU4F2	5458	broad.mit.edu	37	chr4	147561859	147561859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctctgaaaagatcgccGccatcgcggagaagctggac	10	6	11	14	4	1	3	0	1	1	2	4	5	2	4	4	2	1	1	4	2	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:147561859G>A	uc003ikv.2	+	2	1377	c.1129G>A	c.(1129-1131)GCC>ACC	p.A377T		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	377	Homeobox.				estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					AAAGATCGCCGCCATCGCGGA	0.557													5	43					0	0	0.001984	0	0		A	147561859	A	A	147561859	3	1	4	1	0	0	0	0	1	0	0	0	12298	1087	38	1	1135	1	POU4F2	4	147561859	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1100796	147561859	43592417	1141	3107											
NR3C2	4306	broad.mit.edu	37	chr4	149075716	149075716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctacctggaagtacctttGcccacttcacgacttggatc	8	12	7	14	1	1	0	1	0	0	0	3	3	2	2	4	2	3	1	4	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:149075716G>A	uc003ilj.3	-	5	2685	c.2351C>T	c.(2350-2352)GCA>GTA	p.A784V	NR3C2_uc003ilk.3_Intron|NR3C2_uc010iph.2_Intron	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	784	Important for coactivator binding.|Steroid-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	AAGTACCTTTGCCCACTTCAC	0.507													39	103					0	0	0.007835	0	0		A	149075716	A	A	149075716	3	1	4	1	0	0	0	0	1	0	0	0	10650	1319	46	2	623	2	NR3C2	4	149075716	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1513857	149075716	42078560	1142	3108											
LRBA	987	broad.mit.edu	37	chr4	151336636	151336636	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggttttggcccaaggaGgaagttcgacatcagacact	11	9	12	9	1	1	2	1	1	0	1	2	5	1	4	1	4	0	2	1	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:151336636G>A	uc010ipj.2	-	48	7655	c.7181C>T	c.(7180-7182)CCT>CTT	p.P2394L	LRBA_uc010ipi.2_Intron|LRBA_uc003ils.3_Missense_Mutation_p.P284L|LRBA_uc003ilt.3_Missense_Mutation_p.P1042L|LRBA_uc003ilu.3_Missense_Mutation_p.P2383L	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2394	BEACH.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					GGCCCAAGGAGGAAGTTCGAC	0.373													6	52					0	0	0.001984	0	0		A	151336636	A	A	151336636	3	1	4	1	0	0	0	0	1	0	0	0	8949	1000	35	4	1454	4	LRBA	4	151336636	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2260920	151336636	39817640	1143	3109											
MAB21L2	10586	broad.mit.edu	37	chr4	151504900	151504900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcggggaggcggagaaccGcctgctgatgggcggctgcc	5	6	19	11	4	0	2	0	1	0	1	1	4	0	3	3	6	3	3	3	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:151504900G>A	uc003ilw.2	+	1	1824	c.719G>A	c.(718-720)CGC>CAC	p.R240H	LRBA_uc003ils.3_5'Flank|LRBA_uc003ilt.3_Intron|LRBA_uc003ilu.3_Intron|LRBA_uc010ipj.2_Intron	NM_006439	NP_006430	Q9Y586	MB212_HUMAN	mab-21-like protein 2	240					nervous system development	nucleus				ovary(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.159)		GCGGAGAACCGCCTGCTGATG	0.637													6	12					0	0	0.001984	0	0		A	151504900	A	A	151504900	3	1	4	1	0	0	0	0	1	0	0	0	9160	1087	38	1	721	1	MAB21L2	4	151504900	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	168264	151504900	39649376	1144	3110											
PET112L	5188	broad.mit.edu	37	chr4	152679946	152679946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaaagttccaggtagagatGcatcaaaaaaagaaaccaaa	21	5	8	7	0	1	2	1	0	0	2	2	3	2	2	2	1	2	4	2	1	7	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:152679946G>A	uc003iml.2	-	2	317	c.305C>T	c.(304-306)GCA>GTA	p.A102V	PET112L_uc003imm.3_Missense_Mutation_p.A102V	NM_004564	NP_004555	O75879	GATB_HUMAN	PET112-like precursor	102						mitochondrion	ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor|translation factor activity, nucleic acid binding				0	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)			L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	AGGTAGAGATGCATCAAAAAA	0.323													61	153					0	0	0.00361	0	0		A	152679946	A	A	152679946	3	1	4	1	0	0	0	0	1	0	0	0	11753	1319	46	2	1416	2	PET112L	4	152679946	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1175046	152679946	38474330	1145	3111											
PET112L	5188	broad.mit.edu	37	chr4	152682034	152682034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccctaatctggttggatgtgGacccagtcggagcccctctt	6	11	11	13	1	2	0	0	0	2	0	3	3	2	3	4	4	1	1	4	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:152682034G>A	uc003iml.2	-	1	113	c.101C>T	c.(100-102)TCC>TTC	p.S34F	PET112L_uc003imm.3_Missense_Mutation_p.S34F	NM_004564	NP_004555	O75879	GATB_HUMAN	PET112-like precursor	34						mitochondrion	ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor|translation factor activity, nucleic acid binding				0	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)			L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GTTGGATGTGGACCCAGTCGG	0.612													9	24					0	0	0.008291	0	0		A	152682034	A	A	152682034	3	1	4	1	0	0	0	0	1	0	0	0	11753	1174	41	4	1624	4	PET112L	4	152682034	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2088	152682034	38472242	1146	3112											
TRIM2	23321	broad.mit.edu	37	chr4	154215584	154215584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagaagactttaaatgtgCgcaagagtgtgctgcttatg	11	12	11	7	1	0	3	0	0	0	3	1	3	1	3	1	0	3	3	1	0	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:154215584C>T	uc003ing.2	+	5	853	c.652C>T	c.(652-654)CGC>TGC	p.R218C	TRIM2_uc003inh.2_Missense_Mutation_p.R245C	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	218						cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		TTTAAATGTGCGCAAGAGTGT	0.423													6	86					0	0	0.001984	0	0		T	154215584	T	T	154215584	3	4	4	1	0	0	0	0	1	0	0	0	16520	768	27	1	751	1	TRIM2	4	154215584	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1533550	154215584	36938692	1147	3113											
PLRG1	5356	broad.mit.edu	37	chr4	155460278	155460278	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttggatgtaaaaccacaGccctaactgattttttgtga	11	14	8	8	0	1	2	0	2	1	0	1	3	1	3	2	1	3	1	2	1	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:155460278G>T	uc003iny.2	-	12	1193	c.1130C>A	c.(1129-1131)GCT>GAT	p.A377D	PLRG1_uc003inz.2_Missense_Mutation_p.A368D	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	377	WD 5.					catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				TAAAACCACAGCCCTAACTGA	0.363													14	73					9.31168e-06	9.82941e-06	0.001855	1	0		T	155460278	T	T	155460278	3	4	4	1	0	0	0	0	1	0	0	0	12125	971	34	5	430	5	PLRG1	4	155460278	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1244694	155460278	35693998	1148	3114											
LRAT	9227	broad.mit.edu	37	chr4	155665742	155665742	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagacgacatggggcgcacGcagaaggtggtctccaacaa	13	4	13	11	3	1	2	0	0	1	2	2	3	1	2	1	4	1	2	1	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:155665742G>A	uc003iom.1	+	1	591	c.264G>A	c.(262-264)ACG>ACA	p.T88T	uc003iol.2_Intron|LRAT_uc003ion.1_Silent_p.T88T	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	88	Cytoplasmic (By similarity).				response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)	TGGGGCGCACGCAGAAGGTGG	0.582													7	13					0	0	0.001984	0	0		A	155665742	A	A	155665742	2	1	4	1	0	0	0	0	0	0	0	1	8948	1074	38	1		1	LRAT	4	155665742	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	205464	155665742	35488534	1149	3115											
GUCY1A3	2982	broad.mit.edu	37	chr4	156618218	156618218	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaagaaaaaccagtcggAgccgagtctatcttcacact	14	8	7	12	2	4	1	2	0	2	1	5	3	4	2	2	1	2	0	2	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:156618218A>C	uc003iov.2	+	4	735	c.199A>C	c.(199-201)AGC>CGC	p.S67R	GUCY1A3_uc003iou.2_Missense_Mutation_p.S67R|GUCY1A3_uc010iqc.2_Missense_Mutation_p.S67R|GUCY1A3_uc003iow.2_Missense_Mutation_p.S67R|GUCY1A3_uc010iqd.2_Missense_Mutation_p.S67R|GUCY1A3_uc003iox.2_Missense_Mutation_p.S67R|GUCY1A3_uc003ioz.2_5'UTR|GUCY1A3_uc003ioy.2_Missense_Mutation_p.S67R|GUCY1A3_uc010iqe.2_5'UTR|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.S67R	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	67					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		AACCAGTCGGAGCCGAGTCTA	0.428													8	90					0	0	0.00308	0	0		C	156618218	C	C	156618218	3	2	4	1	0	0	0	0	1	0	0	0	6910	304	11	5	201	5	GUCY1A3	4	156618218	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	952476	156618218	34536058	1150	3116											
GRIA2	2891	broad.mit.edu	37	chr4	158254497	158254497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggagctcaaaactaatgggCcccggaaggtaaatccttag	13	8	11	9	1	1	0	1	0	0	0	2	2	2	2	3	4	2	2	3	4	7	3	rs143357227		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:158254497C>T	uc003ipm.3	+	8	1606	c.1147C>T	c.(1147-1149)CCC>TCC	p.P383S	GRIA2_uc011cit.1_Missense_Mutation_p.P336S|GRIA2_uc003ipl.3_Missense_Mutation_p.P383S|GRIA2_uc003ipk.3_Missense_Mutation_p.P336S|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	383	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	AACTAATGGGCCCCGGAAGGT	0.398													8	23					0	0	0.004482	0	0		T	158254497	T	T	158254497	3	4	4	1	0	0	0	0	1	0	0	0	6784	739	26	2	1177	2	GRIA2	4	158254497	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1636279	158254497	32899779	1151	3117											
FNIP2	57600	broad.mit.edu	37	chr4	159789517	159789517	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacggtgaggaacgagcccGctcttgtaccccccatccta	8	9	9	15	3	1	1	0	1	1	0	2	3	2	2	5	2	4	2	5	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:159789517G>A	uc003iqe.3	+	13	1912	c.1729G>A	c.(1729-1731)GCT>ACT	p.A577T		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	577	Interaction with PRKAA1.				DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		GAACGAGCCCGCTCTTGTACC	0.542													13	59					0	0	0.00499	0	0		A	159789517	A	A	159789517	3	1	4	1	0	0	0	0	1	0	0	0	5990	1087	38	1	1779	1	FNIP2	4	159789517	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1535020	159789517	31364759	1152	3118											
FNIP2	57600	broad.mit.edu	37	chr4	159789546	159789546	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccccatcctaccaccaacAgcagcagagagacacaaccc	14	2	5	20	0	0	2	0	0	0	2	1	3	1	2	7	0	5	2	7	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:159789546A>G	uc003iqe.3	+	13	1941	c.1758A>G	c.(1756-1758)ACA>ACG	p.T586T		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	586	Interaction with PRKAA1.				DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		TACCACCAACAGCAGCAGAGA	0.542													23	39					0	0	0.004656	0	0		G	159789546	G	G	159789546	2	3	4	1	0	0	0	0	0	0	0	1	5990	175	7	3		3	FNIP2	4	159789546	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	29	159789546	31364730	1153	3119											
RAPGEF2	9693	broad.mit.edu	37	chr4	160265202	160265202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttacaggaagaagaaatggcGgagtttggggtaagtggtgg	12	9	18	2	1	0	2	0	0	0	2	0	4	0	4	0	7	1	2	0	7	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:160265202G>A	uc003iqg.3	+	17	3096	c.2786G>A	c.(2785-2787)CGG>CAG	p.R929Q		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	929	Ras-GEF.				cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity	p.R917P(1)		lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		AAGAAATGGCGGAGTTTGGGG	0.433													29	68					0	0	0.009535	0	0		A	160265202	A	A	160265202	3	1	4	1	0	0	0	0	1	0	0	0	13069	1116	39	1	2852	1	RAPGEF2	4	160265202	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	475656	160265202	30889074	1154	3120											
RAPGEF2	9693	broad.mit.edu	37	chr4	160275010	160275010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtcccgagcaagctgggCgtcttccacaggttactggg	7	8	13	13	2	1	0	0	0	1	0	3	1	3	0	3	3	3	3	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:160275010C>T	uc003iqg.3	+	22	4290	c.3980C>T	c.(3979-3981)GCG>GTG	p.A1327V		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1327					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GCAAGCTGGGCGTCTTCCACA	0.473													6	66					0	0	0.001168	0	0		T	160275010	T	T	160275010	3	4	4	1	0	0	0	0	1	0	0	0	13069	768	27	1	4066	1	RAPGEF2	4	160275010	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	9808	160275010	30879266	1155	3121											
FSTL5	56884	broad.mit.edu	37	chr4	163032431	163032431	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattgactgtaccttatgtcGcaatctcattagaggctgat	10	15	8	8	1	1	3	1	2	1	1	3	3	1	3	1	1	1	3	1	1	5	5	rs141917472	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:163032431G>A	uc003iqh.2	-	2	554	c.118C>T	c.(118-120)CGA>TGA	p.R40*	FSTL5_uc003iqi.2_Nonsense_Mutation_p.R40*|FSTL5_uc010iqv.2_Nonsense_Mutation_p.R40*	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	40						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		ACCTTATGTCGCAATCTCATT	0.393													28	87					0	0	0.002096	0	0		A	163032431	A	A	163032431	4	1	4	1	0	0	0	0	0	1	0	0	6094	1095	38	1	2485	1	FSTL5	4	163032431	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2757421	163032431	28121845	1156	3122											
TKTL2	84076	broad.mit.edu	37	chr4	164393491	164393491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacattcccttggtattggCggctagataaatagcatgct	10	12	10	9	1	0	1	0	0	0	1	1	1	1	1	1	3	2	5	1	3	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:164393491C>T	uc003iqp.3	-	1	1557	c.1396G>A	c.(1396-1398)GCC>ACC	p.A466T		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	466						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TTGGTATTGGCGGCTAGATAA	0.463													7	85					0	0	0.001368	0	0		T	164393491	T	T	164393491	3	4	4	1	0	0	0	0	1	0	0	0	15961	768	27	1	488	1	TKTL2	4	164393491	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1361060	164393491	26760785	1157	3123											
TKTL2	84076	broad.mit.edu	37	chr4	164393888	164393888	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ataactctttcatttgcacgGcccagtttagccagagccaa	11	11	7	12	1	2	1	1	0	1	1	2	1	2	1	3	1	4	2	3	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:164393888G>A	uc003iqp.3	-	1	1160	c.999C>T	c.(997-999)GGC>GGT	p.G333G		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	333						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				catttgcacggcccagtttag	0.194													24	103					0	0	0.00333	0	0		A	164393888	A	A	164393888	2	1	4	1	0	0	0	0	0	0	0	1	15961	1190	42	2		2	TKTL2	4	164393888	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	397	164393888	26760388	1158	3124											
TKTL2	84076	broad.mit.edu	37	chr4	164394215	164394215	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccaaaatgcttggcacaaGgcctccacatcatggccatc	11	8	8	14	0	1	0	1	0	0	0	3	0	2	0	4	3	2	2	4	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:164394215G>T	uc003iqp.3	-	1	833	c.672C>A	c.(670-672)GCC>GCA	p.A224A		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	224						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				CTTGGCACAAGGCCTCCACAT	0.488													14	55					2.23348e-06	2.36628e-06	0.004007	1	0		T	164394215	T	T	164394215	2	4	4	1	0	0	0	0	0	0	0	1	15961	987	35	5		5	TKTL2	4	164394215	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	327	164394215	26760061	1159	3125											
C4orf43	55319	broad.mit.edu	37	chr4	164435266	164435266	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaatcatcttgatccccaAaaaaagagatattcaaagaa	21	8	4	8	0	3	3	2	1	1	2	4	4	4	3	2	0	0	0	2	0	8	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:164435266A>C	uc003iqq.3	+	4	476	c.195A>C	c.(193-195)CAA>CAC	p.Q65H		NM_018352	NP_060822	Q96EY4	CD043_HUMAN	hypothetical protein LOC55319	65											0						TTGATCCCCAAAAAAAGAGAT	0.363													5	83					0	0	0.001168	0	0		C	164435266	C	C	164435266	3	2	4	1	0	0	0	0	1	0	0	0	2274	11	1	5	209	5	C4orf43	4	164435266	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	41051	164435266	26719010	1160	3126											
ANP32C	23520	broad.mit.edu	37	chr4	165118464	165118464	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatgtgagttgcaggagaaGcttgaacacgttttctccgt	10	13	11	7	2	1	3	0	2	1	1	2	4	1	3	1	1	3	4	1	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:165118464G>T	uc011cjk.1	-	1	400	c.400C>A	c.(400-402)CTT>ATT	p.L134I	MARCH1_uc003iqs.1_Intron	NM_012403	NP_036535	O43423	AN32C_HUMAN	acidic nuclear phosphoprotein 32C	134	LRR 4.										0	all_hematologic(180;0.203)	Prostate(90;0.0138)|Melanoma(52;0.18)|all_neural(102;0.223)		KIRC - Kidney renal clear cell carcinoma(143;0.242)		TGCAGGAGAAGCTTGAACACG	0.488													30	84					8.16721e-17	8.91698e-17	0.002096	1	0		T	165118464	T	T	165118464	3	4	4	1	0	0	0	0	1	0	0	0	707	971	34	5	307	5	ANP32C	4	165118464	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	683198	165118464	26035812	1161	3127											
TRIM60	166655	broad.mit.edu	37	chr4	165962417	165962417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgaagagtggttatgttgCgtcaggtcctaagacaaccc	11	10	11	9	1	1	3	1	1	0	2	2	3	2	3	2	2	2	2	2	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:165962417C>T	uc003iqy.1	+	3	1363	c.1193C>T	c.(1192-1194)GCG>GTG	p.A398V	TRIM60_uc010iqx.1_Missense_Mutation_p.A398V	NM_152620	NP_689833	Q495X7	TRI60_HUMAN	ring finger protein 129	398	B30.2/SPRY.					intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0844)		GGTTATGTTGCGTCAGGTCCT	0.443													7	102					0	0	0.004482	0	0		T	165962417	T	T	165962417	3	4	4	1	0	0	0	0	1	0	0	0	16561	768	27	1	1195	1	TRIM60	4	165962417	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	843953	165962417	25191859	1162	3128											
PALLD	23022	broad.mit.edu	37	chr4	169433100	169433100	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtggtgcaaaaactcccAgcacaaacgtaaagcccaaa	17	4	8	12	2	0	0	0	0	0	0	1	0	1	0	2	1	6	3	2	1	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:169433100A>G	uc011cjx.1	+	2	656	c.445A>G	c.(445-447)AGC>GGC	p.S149G	PALLD_uc003iru.2_Missense_Mutation_p.S149G	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2	149					cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)		AAAAACTCCCAGCACAAACGT	0.522									Pancreatic_Cancer_Familial_Clustering_of				19	46					0	0	0.007413	0	0		G	169433100	G	G	169433100	3	3	4	1	0	0	0	0	1	0	0	0	11426	188	7	3	447	3	PALLD	4	169433100	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	3470683	169433100	21721176	1163	3129											
MFAP3L	9848	broad.mit.edu	37	chr4	170913308	170913308	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacacgaccatgtagtagaCacccatgtctccagaagtga	13	7	9	12	1	1	3	0	1	1	2	2	4	1	3	3	0	0	3	3	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:170913308C>T	uc003isp.3	-	3	629	c.451G>A	c.(451-453)GTC>ATC	p.V151I	MFAP3L_uc003isn.3_Missense_Mutation_p.V48I	NM_021647	NP_067679	O75121	MFA3L_HUMAN	microfibrillar-associated protein 3-like isoform	151	Helical; (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0201)|LUSC - Lung squamous cell carcinoma(193;0.116)		ATGTAGTAGACACCCATGTCT	0.517													17	67					0	0	0.00499	0	0		T	170913308	T	T	170913308	3	4	4	1	0	0	0	0	1	0	0	0	9534	478	17	4	782	4	MFAP3L	4	170913308	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1480208	170913308	20240968	1164	3130											
MORF4	10934	broad.mit.edu	37	chr4	174537473	174537473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttcttgtaatttgcatagtCctcaagaatggaatccacat	12	15	6	8	0	2	1	1	0	1	1	4	2	4	2	2	1	1	2	2	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:174537473C>T	uc011cke.1	-	1	322	c.322G>A	c.(322-324)GAC>AAC	p.D108N		NM_006792	NP_006783			mortality factor 4												0		Prostate(90;0.00201)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0765)|all_hematologic(60;0.107)		all cancers(43;1.88e-18)|Epithelial(43;1.19e-16)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		TTTGCATAGTCCTCAAGAATG	0.383													61	156					0	0	0.00361	0	0		T	174537473	T	T	174537473	3	4	4	1	0	0	0	0	1	0	0	0	9723	855	30	4	388	4	MORF4	4	174537473	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3624165	174537473	16616803	1165	3131											
WDR17	116966	broad.mit.edu	37	chr4	177041100	177041100	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agaggcccactgttcatttgGaccatctcaggaccagatag	11	9	10	11	0	2	2	2	0	1	2	3	4	2	4	3	3	0	1	3	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:177041100G>A	uc003iuj.2	+	5	618	c.462G>A	c.(460-462)TGG>TGA	p.W154*	WDR17_uc003iuk.2_Nonsense_Mutation_p.W130*|WDR17_uc003ium.3_Nonsense_Mutation_p.W130*|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	154	WD 2.									ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TGTTCATTTGGACCATCTCAG	0.453													26	110					0	0	0.007291	0	0		A	177041100	A	A	177041100	4	1	4	1	0	0	0	0	0	1	0	0	17303	1183	41	4	476	4	WDR17	4	177041100	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2503627	177041100	14113176	1166	3132											
ASB5	140458	broad.mit.edu	37	chr4	177136833	177136833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttggttttcctatgtagCttcggatacagagtcggcaa	9	14	10	8	2	1	1	0	0	1	1	4	2	2	2	1	3	2	4	1	3	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:177136833C>T	uc003iuq.1	-	7	924	c.908G>A	c.(907-909)AGC>AAC	p.S303N	ASB5_uc003iup.1_Missense_Mutation_p.S250N	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	303	SOCS box.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		TCCTATGTAGCTTCGGATACA	0.353													13	42					0	0	0.007413	0	0		T	177136833	T	T	177136833	3	4	4	1	0	0	0	0	1	0	0	0	1027	797	28	2	85	2	ASB5	4	177136833	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	95733	177136833	14017443	1167	3133											
NEIL3	55247	broad.mit.edu	37	chr4	178283618	178283618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggaataaaaattattcctgGatgctaatatctgtagattc	15	14	7	5	0	1	1	0	0	1	1	3	3	2	3	1	2	1	2	1	2	8	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:178283618G>A	uc003iut.2	+	10	1928	c.1811G>A	c.(1810-1812)GGA>GAA	p.G604E		NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	604					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		ATTATTCCTGGATGCTAATAT	0.348								BER_DNA_glycosylases					4	40					0	0	0.009096	0	0		A	178283618	A	A	178283618	3	1	4	1	0	0	0	0	1	0	0	0	10339	1174	41	4	1849	4	NEIL3	4	178283618	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1146785	178283618	12870658	1168	3134											
ODZ3	55714	broad.mit.edu	37	chr4	183245190	183245190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtatggatgtgaaagaacGcaggccttactgctccctga	12	9	11	9	1	0	3	0	2	0	1	1	4	1	4	2	2	3	3	2	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:183245190G>A	uc003ivd.1	+	1	54	c.17G>A	c.(16-18)CGC>CAC	p.R6H	ODZ3_uc010irv.1_Missense_Mutation_p.R6H	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	6	Cytoplasmic (Potential).|Teneurin N-terminal.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GTGAAAGAACGCAGGCCTTAC	0.522													9	22					0	0	0.006214	0	0		A	183245190	A	A	183245190	3	1	4	1	0	0	0	0	1	0	0	0	10855	1087	38	1	19	1	ODZ3	4	183245190	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4961572	183245190	7909086	1169	3135											
ODZ3	55714	broad.mit.edu	37	chr4	183603050	183603050	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaggatggggaggtagcAattgtgaaatactgaagacc	13	8	14	6	0	0	3	0	2	0	1	1	5	1	5	2	4	2	2	2	4	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:183603050A>G	uc003ivd.1	+	10	1955	c.1918A>G	c.(1918-1920)AAT>GAT	p.N640D	ODZ3_uc003ive.1_Missense_Mutation_p.N46D	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	640	EGF-like 4.|Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GGGAGGTAGCAATTGTGAAAT	0.507													6	38					0	0	0.001168	0	0		G	183603050	G	G	183603050	3	3	4	1	0	0	0	0	1	0	0	0	10855	130	5	3	1956	3	ODZ3	4	183603050	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	357860	183603050	7551226	1170	3136											
RWDD4A	201965	broad.mit.edu	37	chr4	184567670	184567670	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	atcaacccagttccagcctcGaggaagttctcctttgtgat	9	12	8	12	1	2	1	1	1	1	0	5	3	3	2	4	1	2	2	4	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:184567670G>C	uc003ivt.1	-	6	728	c.502C>G	c.(502-504)CGA>GGA	p.R168G	RWDD4A_uc003ivu.1_RNA|RWDD4A_uc003ivv.1_Missense_Mutation_p.R105G|RWDD4A_uc011ckl.1_RNA	NM_152682	NP_689895	Q6NW29	RWDD4_HUMAN	RWD domain containing 4A	168											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;7.35e-27)|Epithelial(43;1.49e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.76e-10)|GBM - Glioblastoma multiforme(59;5.54e-06)|Colorectal(24;7.92e-06)|STAD - Stomach adenocarcinoma(60;2.35e-05)|COAD - Colon adenocarcinoma(29;6.26e-05)|LUSC - Lung squamous cell carcinoma(40;0.00935)|READ - Rectum adenocarcinoma(43;0.166)		TTCCAGCCTCGAGGAAGTTCT	0.279													12	118					0	0	0.004007	0	0		C	184567670	C	C	184567670	3	2	4	1	0	0	0	0	1	0	0	0	13783	1066	37	5	72	5	RWDD4A	4	184567670	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	964620	184567670	6586606	1171	3137											
ENPP6	133121	broad.mit.edu	37	chr4	185039015	185039015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggccttccacgtcaatgCgctcatggtatatggctgcc	6	11	12	12	2	2	0	2	0	0	0	3	0	3	0	3	4	2	3	3	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:185039015C>T	uc003iwc.2	-	4	714	c.572G>A	c.(571-573)CGC>CAC	p.R191H		NM_153343	NP_699174	Q6UWR7	ENPP6_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	191	Extracellular (Potential).				lipid catabolic process	extracellular region|integral to membrane|plasma membrane				central_nervous_system(1)	1		all_lung(41;7.99e-12)|Lung NSC(41;1.46e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;4.98e-27)|Epithelial(43;3.15e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.09e-12)|Colorectal(24;3.78e-05)|STAD - Stomach adenocarcinoma(60;4.5e-05)|COAD - Colon adenocarcinoma(29;0.000154)|GBM - Glioblastoma multiforme(59;0.000167)|BRCA - Breast invasive adenocarcinoma(30;0.000378)|LUSC - Lung squamous cell carcinoma(40;0.0151)		CACGTCAATGCGCTCATGGTA	0.597													7	29					0	0	0.00308	0	0		T	185039015	T	T	185039015	3	4	4	1	0	0	0	0	1	0	0	0	5142	768	27	1	770	1	ENPP6	4	185039015	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	471345	185039015	6115261	1172	3138											
IRF2	3660	broad.mit.edu	37	chr4	185339814	185339814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggcgcatctgaaattcGccttccatgttttgggatca	8	14	9	10	2	3	1	2	1	1	0	5	2	4	2	2	2	0	2	2	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:185339814G>A	uc003iwf.3	-	4	436	c.236C>T	c.(235-237)GCG>GTG	p.A79V		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	79	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		TCTGAAATTCGCCTTCCATGT	0.383													16	29					0	0	0.00499	0	0		A	185339814	A	A	185339814	3	1	4	1	0	0	0	0	1	0	0	0	7844	1087	38	1	837	1	IRF2	4	185339814	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	300799	185339814	5814462	1173	3139											
LRP2BP	55805	broad.mit.edu	37	chr4	186288347	186288347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggtctaaattctttgaCgaataagtaaggagtgaagt	13	14	11	3	1	2	2	0	2	2	0	2	4	2	3	0	2	0	1	0	2	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:186288347C>T	uc003ixj.1	-	8	1843	c.1031G>A	c.(1030-1032)CGT>CAT	p.R344H	SNX25_uc003ixi.2_Intron|LRP2BP_uc003ixk.1_Missense_Mutation_p.R318H|LRP2BP_uc011ckr.1_Missense_Mutation_p.R344H	NM_018409	NP_060879	Q9P2M1	LR2BP_HUMAN	LRP2 binding protein	344						cytoplasm	protein binding				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;2.14e-25)|Epithelial(43;1.55e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-11)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000766)|Colorectal(24;0.00116)|LUSC - Lung squamous cell carcinoma(40;0.00904)|COAD - Colon adenocarcinoma(29;0.0101)|READ - Rectum adenocarcinoma(43;0.161)		AATTCTTTGACGAATAAGTAA	0.343													42	128					0	0	0.00874	0	0		T	186288347	T	T	186288347	3	4	4	1	0	0	0	0	1	0	0	0	8975	536	19	1	16	1	LRP2BP	4	186288347	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	948533	186288347	4865929	1174	3140											
PDLIM3	27295	broad.mit.edu	37	chr4	186446177	186446177	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattagttaagaagcacctgTcaattttgagacacagctgg	13	11	9	8	0	1	2	1	1	0	2	1	3	1	2	1	1	2	3	1	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:186446177T>C	uc003ixw.3	-	2	366	c.242A>G	c.(241-243)GAC>GGC	p.D81G	PDLIM3_uc003ixx.3_Missense_Mutation_p.D81G|PDLIM3_uc010isi.2_RNA|PDLIM3_uc003ixy.2_Missense_Mutation_p.D81G|PDLIM3_uc003ixz.2_Missense_Mutation_p.D81G	NM_014476	NP_055291	Q53GG5	PDLI3_HUMAN	PDZ and LIM domain protein 3 isoform a	81	PDZ.					sarcomere	zinc ion binding			ovary(2)	2		all_lung(41;1.03e-13)|Lung NSC(41;2.49e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.00996)|Colorectal(36;0.0161)|all_hematologic(60;0.0592)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.4e-10)|BRCA - Breast invasive adenocarcinoma(30;8.64e-05)|GBM - Glioblastoma multiforme(59;0.000167)|STAD - Stomach adenocarcinoma(60;0.000828)|LUSC - Lung squamous cell carcinoma(40;0.00984)|COAD - Colon adenocarcinoma(29;0.0115)|READ - Rectum adenocarcinoma(43;0.171)		GAAGCACCTGTCAATTTTGAG	0.473													6	115					0	0	0.00308	0	0		C	186446177	C	C	186446177	3	2	4	1	0	0	0	0	1	0	0	0	11700	1667	58	3	1072	3	PDLIM3	4	186446177	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	157830	186446177	4708099	1175	3141											
FAM149A	25854	broad.mit.edu	37	chr4	187086544	187086544	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccactggttcaaacgtcaCggagcaggttccccccgcta	8	7	9	17	3	2	0	2	0	0	0	3	1	3	1	5	3	2	4	5	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:187086544C>T	uc003iyt.3	+	11	1669	c.1090C>T	c.(1090-1092)CGG>TGG	p.R364W	FAM149A_uc011cla.1_Missense_Mutation_p.R364W|FAM149A_uc003iyu.3_Missense_Mutation_p.R364W|FAM149A_uc010isl.2_Missense_Mutation_p.R364W|FAM149A_uc011clb.1_Missense_Mutation_p.R364W	NM_015398	NP_056213	A5PLN7	F149A_HUMAN	hypothetical protein LOC25854	655										breast(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.19e-10)|BRCA - Breast invasive adenocarcinoma(30;1.22e-05)|GBM - Glioblastoma multiforme(59;0.000122)|STAD - Stomach adenocarcinoma(60;0.000288)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.166)		TCAAACGTCACGGAGCAGGTT	0.537													13	42					0	0	0.003163	0	0		T	187086544	T	T	187086544	3	4	4	1	0	0	0	0	1	0	0	0	5466	527	19	1	1120	1	FAM149A	4	187086544	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	640367	187086544	4067732	1176	3142											
CYP4V2	285440	broad.mit.edu	37	chr4	187120119	187120119	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatttatagaatgagtgAgatgatatttcgaagaataa	16	13	8	4	1	0	5	0	3	0	3	2	7	1	5	1	0	0	0	1	0	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:187120119A>G	uc003iyw.3	+	6	987	c.683A>G	c.(682-684)GAG>GGG	p.E228G		NM_207352	NP_997235	Q6ZWL3	CP4V2_HUMAN	cytochrome P450, family 4, subfamily v,	228					response to stimulus|visual perception	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.33e-10)|BRCA - Breast invasive adenocarcinoma(30;3.84e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000293)|LUSC - Lung squamous cell carcinoma(40;0.00242)|READ - Rectum adenocarcinoma(43;0.17)		AGAATGAGTGAGATGATATTT	0.383													22	66					0	0	0.003954	0	0		G	187120119	G	G	187120119	3	3	4	1	0	0	0	0	1	0	0	0	4195	304	11	3	705	3	CYP4V2	4	187120119	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	33575	187120119	4034157	1177	3143											
KLKB1	3818	broad.mit.edu	37	chr4	187172953	187172953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggttctccaactaggattgCgtatgggacacaagggagct	10	10	13	8	1	1	0	0	0	1	0	2	3	1	3	1	4	3	3	1	4	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:187172953C>T	uc003iyy.2	+	10	1153	c.1082C>T	c.(1081-1083)GCG>GTG	p.A361V	KLKB1_uc011clc.1_Missense_Mutation_p.A159V|KLKB1_uc011cld.1_Missense_Mutation_p.A323V	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	361	Apple 4.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		ACTAGGATTGCGTATGGGACA	0.443													23	96					0	0	0.00278	0	0		T	187172953	T	T	187172953	3	4	4	1	0	0	0	0	1	0	0	0	8428	768	27	1	1116	1	KLKB1	4	187172953	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	52834	187172953	3981323	1178	3144											
FAT1	2195	broad.mit.edu	37	chr4	187540638	187540638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacatcactgctcagcgtggGcataccaccatcaactgccc	10	7	7	17	1	3	0	3	0	0	0	3	0	3	0	3	1	5	2	3	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:187540638G>A	uc003izf.2	-	10	7290	c.7102C>T	c.(7102-7104)CCC>TCC	p.P2368S		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2368	Extracellular (Potential).|Cadherin 21.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTCAGCGTGGGCATACCACCA	0.498										HNSCC(5;0.00058)			30	73					0	0	0.008361	0	0		A	187540638	A	A	187540638	3	1	4	1	0	0	0	0	1	0	0	0	5703	1203	42	2	6736	2	FAT1	4	187540638	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	367685	187540638	3613638	1179	3145											
FAT1	2195	broad.mit.edu	37	chr4	187540995	187540995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgtatgctcagcttatatgCcgggtgggcctcaaagtcca	8	10	12	11	2	2	0	2	0	0	0	3	0	3	0	3	2	3	3	3	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:187540995C>T	uc003izf.2	-	10	6933	c.6745G>A	c.(6745-6747)GCA>ACA	p.A2249T		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2249	Extracellular (Potential).|Cadherin 20.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AGCTTATATGCCGGGTGGGCC	0.478										HNSCC(5;0.00058)			11	133					0	0	0.001855	0	0		T	187540995	T	T	187540995	3	4	4	1	0	0	0	0	1	0	0	0	5703	739	26	2	7093	2	FAT1	4	187540995	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	357	187540995	3613281	1180	3146											
FAT1	2195	broad.mit.edu	37	chr4	187630114	187630114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccacgatgcttaaagatgCtatgtcaccattggcaccct	10	11	8	12	1	1	1	1	0	0	1	1	2	1	1	3	1	3	3	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:187630114C>T	uc003izf.2	-	2	1056	c.868G>A	c.(868-870)GCA>ACA	p.A290T	FAT1_uc010iso.1_Missense_Mutation_p.A290T	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	290	Extracellular (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTTAAAGATGCTATGTCACCA	0.488										HNSCC(5;0.00058)			20	309					0	0	0.00632	0	0		T	187630114	T	T	187630114	3	4	4	1	0	0	0	0	1	0	0	0	5703	797	28	2	13002	2	FAT1	4	187630114	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	89119	187630114	3524162	1181	3147											
TUBB4Q	56604	broad.mit.edu	37	chr4	190903703	190903703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcctcctccctcggccgtgGcatcctgatattgctgatat	5	13	8	15	2	0	2	0	2	0	0	5	2	4	2	5	2	1	2	5	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:190903703G>A	uc011clg.1	-	4	1280	c.1277C>T	c.(1276-1278)GCC>GTC	p.A426V		NM_020040	NP_064424	Q99867	TBB4Q_HUMAN	tubulin, beta polypeptide 4, member Q	427					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;4.1e-31)|Epithelial(3;1.44e-30)|OV - Ovarian serous cystadenocarcinoma(60;2.03e-15)|BRCA - Breast invasive adenocarcinoma(30;8.54e-06)|Lung(3;3.23e-05)|STAD - Stomach adenocarcinoma(60;8.24e-05)|LUSC - Lung squamous cell carcinoma(40;0.000184)|GBM - Glioblastoma multiforme(59;0.00839)|READ - Rectum adenocarcinoma(43;0.155)		CTCGGCCGTGGCATCCTGATA	0.537													14	147					0	0	0.003163	0	0		A	190903703	A	A	190903703	3	1	4	1	0	0	0	0	1	0	0	0	16785	1203	42	2	27	2	TUBB4Q	4	190903703	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3273589	190903703	250573	1182	3148											
PLEKHG4B	153478	broad.mit.edu	37	chr5	162053	162053	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccgctcgtccgagttgtgCgagacggtaagagacccagt	9	7	13	12	5	0	2	0	0	0	2	2	5	1	2	3	1	1	3	3	1	1	2	rs145013757	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:162053C>T	uc003jak.2	+	10	1625	c.1575C>T	c.(1573-1575)TGC>TGT	p.C525C		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	525					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		CCGAGTTGTGCGAGACGGTAA	0.637													8	4					0	0	0.004482	0	0		T	162053	T	T	162053	2	4	4	1	0	0	0	0	0	0	0	1	12091	776	27	1		1	PLEKHG4B	5	162053	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08		162053	180753207	1183	3149											
LRRC14B	389257	broad.mit.edu	37	chr5	194842	194842	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccctacagaccccgctgCgagtactggacctggccaac	8	5	10	18	2	0	1	0	0	0	1	0	3	0	2	6	2	4	2	6	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:194842C>T	uc003jal.1	+	2	947	c.919C>T	c.(919-921)CGA>TGA	p.R307*		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	307	LRR 2.									skin(1)	1						GACCCCGCTGCGAGTACTGGA	0.647													5	19					0	0	0.001168	0	0		T	194842	T	T	194842	4	4	4	1	0	0	0	0	0	1	0	0	8987	760	27	1	925	1	LRRC14B	5	194842	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	32789	194842	180720418	1184	3150											
CCDC127	133957	broad.mit.edu	37	chr5	205673	205673	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgaggaagaaacagactGcagtagatattctgtctttc	12	11	10	8	1	2	3	0	0	2	3	3	5	2	4	0	1	3	2	0	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:205673G>A	uc003jam.1	-	3	622	c.522C>T	c.(520-522)TGC>TGT	p.C174C		NM_145265	NP_660308	Q96BQ5	CC127_HUMAN	coiled-coil domain containing 127	174											0			all cancers(22;0.0236)|Lung(60;0.113)			GAAACAGACTGCAGTAGATAT	0.522													11	48					0	0	0.001368	0	0		A	205673	A	A	205673	2	1	4	1	0	0	0	0	0	0	0	1	2766	1311	46	2		2	CCDC127	5	205673	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	10831	205673	180709587	1185	3151											
SDHA	6389	broad.mit.edu	37	chr5	226056	226056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggaagatttatcagcgtgCatttggtggacagagcctca	10	11	13	7	1	2	2	2	0	0	2	2	4	2	4	1	3	3	1	1	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:226056C>T	uc003jao.3	+	5	630	c.515C>T	c.(514-516)GCA>GTA	p.A172V	SDHA_uc003jan.2_Missense_Mutation_p.A172V|SDHA_uc011clv.1_Missense_Mutation_p.A172V|SDHA_uc011clw.1_Missense_Mutation_p.A124V|SDHA_uc003jap.3_Missense_Mutation_p.A172V|SDHA_uc003jaq.3_5'Flank	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	172					nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	TATCAGCGTGCATTTGGTGGA	0.463									Familial_Paragangliomas				8	118					0	0	0.001368	0	0		T	226056	T	T	226056	3	4	4	1	0	0	0	0	1	0	0	0	13988	710	25	2	533	2	SDHA	5	226056	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20383	226056	180689204	1186	3152											
EXOC3	11336	broad.mit.edu	37	chr5	453727	453727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggtcactggtcactgtcCgccgtgaccccaccttgctg	6	9	11	15	2	2	2	2	1	0	1	3	2	3	2	5	2	1	1	5	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:453727C>T	uc003jba.2	+	4	735	c.607C>T	c.(607-609)CGC>TGC	p.R203C		NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein	214					exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			GGTCACTGTCCGCCGTGACCC	0.537													5	82					0	0	0.001168	0	0		T	453727	T	T	453727	3	4	4	1	0	0	0	0	1	0	0	0	5311	652	23	1	617	1	EXOC3	5	453727	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	227671	453727	180461533	1187	3153											
EXOC3	11336	broad.mit.edu	37	chr5	453949	453949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacaagatgtggcttgtcCgccacctggaaattataagg	11	10	11	9	1	0	2	0	1	0	1	1	3	1	3	3	3	0	1	3	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:453949C>T	uc003jba.2	+	4	957	c.829C>T	c.(829-831)CGC>TGC	p.R277C		NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein	288					exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			GTGGCTTGTCCGCCACCTGGA	0.473													10	46					0	0	0.008291	0	0		T	453949	T	T	453949	3	4	4	1	0	0	0	0	1	0	0	0	5311	652	23	1	839	1	EXOC3	5	453949	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	222	453949	180461311	1188	3154											
SLC9A3	6550	broad.mit.edu	37	chr5	492080	492080	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcgtcagtgtgaaggaCgcgatgtggtcggccgccca	6	7	18	10	5	1	1	1	1	0	0	2	3	1	2	2	4	0	0	2	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:492080C>T	uc003jbe.2	-	2	430	c.318G>A	c.(316-318)GCG>GCA	p.A106A	SLC9A3_uc011clx.1_Silent_p.A106A	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	106	Extracellular (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			GTGTGAAGGACGCGATGTGGT	0.652													5	11					0	0	0.001168	0	0		T	492080	T	T	492080	2	4	4	1	0	0	0	0	0	0	0	1	14738	523	19	1		1	SLC9A3	5	492080	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	38131	492080	180423180	1189	3155											
TERT	7015	broad.mit.edu	37	chr5	1264611	1264611	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggcatctgaacaaaagcCgtgccacccagggcctcgtc	9	5	11	16	3	1	1	0	1	1	0	3	1	1	1	5	2	3	1	5	2	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:1264611C>T	uc003jcb.1	-	11	2809	c.2751G>A	c.(2749-2751)ACG>ACA	p.T917T	TERT_uc003jbz.1_Silent_p.T113T|TERT_uc003jca.1_Silent_p.T905T|TERT_uc003jcc.1_Intron|TERT_uc003jcd.1_Intron|TERT_uc003jce.1_Intron	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	917	Required for oligomerization.|Reverse transcriptase.				anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GAACAAAAGCCGTGCCACCCA	0.622									TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				13	35					0	0	0.001855	0	0		T	1264611	T	T	1264611	2	4	4	1	0	0	0	0	0	0	0	1	15789	639	23	1		1	TERT	5	1264611	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	772531	1264611	179650649	1190	3156											
SLC6A3	6531	broad.mit.edu	37	chr5	1409199	1409199	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagaggatggacgtgccGgctgcaaaatggtccaggag	12	5	15	9	2	0	1	0	0	0	1	1	4	1	4	3	5	2	2	3	5	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:1409199G>A	uc003jck.2	-	11	1561	c.1440C>T	c.(1438-1440)GCC>GCT	p.A480A		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	480					cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	TGGACGTGCCGGCTGCAAAAT	0.592													10	14					0	0	0.001368	0	0		A	1409199	A	A	1409199	2	1	4	1	0	0	0	0	0	0	0	1	14710	1103	39	1		1	SLC6A3	5	1409199	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	144588	1409199	179506061	1191	3157											
IRX4	50805	broad.mit.edu	37	chr5	1879729	1879729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcgcacttgttccgcggcgGccacgtcatcttgttctcct	3	13	10	15	5	3	0	1	0	2	0	5	0	4	0	3	2	1	3	3	2	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:1879729G>A	uc003jcz.2	-	4	744	c.625C>T	c.(625-627)CCG>TCG	p.P209S	IRX4_uc011cmf.1_Missense_Mutation_p.P70S	NM_016358	NP_057442	P78413	IRX4_HUMAN	iroquois homeobox 4	209					heart development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(108;0.242)		TTCCGCGGCGGCCACGTCATC	0.483													14	19					0	0	0.001855	0	0		A	1879729	A	A	1879729	3	1	4	1	0	0	0	0	1	0	0	0	7862	1203	42	2	942	2	IRX4	5	1879729	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	470530	1879729	179035531	1192	3158											
KIAA0947	23379	broad.mit.edu	37	chr5	5461451	5461451	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagtattctctactgaaccGcatcattcagaacataaatt	16	12	4	9	1	3	2	2	1	1	1	4	2	3	2	1	0	3	2	1	0	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:5461451G>A	uc003jdm.3	+	13	2226	c.2004G>A	c.(2002-2004)CCG>CCA	p.P668P		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	668										ovary(1)|central_nervous_system(1)	2						CTACTGAACCGCATCATTCAG	0.393													7	56					0	0	0.001984	0	0		A	5461451	A	A	5461451	2	1	4	1	0	0	0	0	0	0	0	1	8218	1074	38	1		1	KIAA0947	5	5461451	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3581722	5461451	175453809	1193	3159											
KIAA0947	23379	broad.mit.edu	37	chr5	5464600	5464600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctcctctgcagttctgtgCggccacgccgaagcacgcac	6	8	11	16	4	3	0	0	0	3	0	4	1	3	0	3	1	3	4	3	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:5464600C>T	uc003jdm.3	+	13	5375	c.5153C>T	c.(5152-5154)GCG>GTG	p.A1718V		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1718	Pro-rich.									ovary(1)|central_nervous_system(1)	2						CAGTTCTGTGCGGCCACGCCG	0.612													8	49					0	0	0.001855	0	0		T	5464600	T	T	5464600	3	4	4	1	0	0	0	0	1	0	0	0	8218	768	27	1	5203	1	KIAA0947	5	5464600	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3149	5464600	175450660	1194	3160											
KIAA0947	23379	broad.mit.edu	37	chr5	5489418	5489418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgcctagaggaagtcagtgCcctgagcacagaggagcttg	10	7	14	10	0	1	3	1	1	0	2	1	5	1	5	2	2	4	2	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:5489418C>T	uc003jdm.3	+	19	6998	c.6776C>T	c.(6775-6777)GCC>GTC	p.A2259V		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	2259										ovary(1)|central_nervous_system(1)	2						GAAGTCAGTGCCCTGAGCACA	0.502													3	22					0	0	0.009096	0	0		T	5489418	T	T	5489418	3	4	4	1	0	0	0	0	1	0	0	0	8218	739	26	2	6850	2	KIAA0947	5	5489418	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24818	5489418	175425842	1195	3161											
NSUN2	54888	broad.mit.edu	37	chr5	6607320	6607320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacttttcttacccacacaCgccatctttcttactgccat	8	14	2	17	1	3	0	0	0	3	0	3	0	3	0	4	0	3	0	4	0	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:6607320C>T	uc003jdu.2	-	13	1566	c.1501G>A	c.(1501-1503)GTG>ATG	p.V501M	NSUN2_uc003jds.2_5'Flank|NSUN2_uc003jdt.2_Missense_Mutation_p.V265M|NSUN2_uc011cmk.1_Missense_Mutation_p.V466M|NSUN2_uc003jdv.2_Missense_Mutation_p.V265M	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	501						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						TACCCACACACGCCATCTTTC	0.443													7	224					0	0	0.004482	0	0		T	6607320	T	T	6607320	3	4	4	1	0	0	0	0	1	0	0	0	10697	536	19	1	830	1	NSUN2	5	6607320	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1117902	6607320	174307940	1196	3162											
DNAH5	1767	broad.mit.edu	37	chr5	13811916	13811916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctgcttcttgaggtgagCgtttcttaagaaaaccctgt	8	16	9	8	1	3	3	0	2	3	1	3	3	3	3	1	1	3	2	1	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:13811916C>T	uc003jfd.2	-	44	7289	c.7247G>A	c.(7246-7248)CGC>CAC	p.R2416H		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2416	AAA 2 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTGAGGTGAGCGTTTCTTAAG	0.393									Kartagener_syndrome				9	60					0	0	0.004482	0	0		T	13811916	T	T	13811916	3	4	4	1	0	0	0	0	1	0	0	0	4610	768	27	1	6771	1	DNAH5	5	13811916	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7204596	13811916	167103344	1197	3163											
DNAH5	1767	broad.mit.edu	37	chr5	13891148	13891148	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggaagctgacaaagaggCgtgctgctcatttcttctag	9	11	13	8	1	3	2	1	1	2	1	3	3	3	3	0	3	3	3	0	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:13891148C>T	uc003jfd.2	-	17	2556	c.2514G>A	c.(2512-2514)ACG>ACA	p.T838T		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	838	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GACAAAGAGGCGTGCTGCTCA	0.408									Kartagener_syndrome				39	81					0	0	0.004878	0	0		T	13891148	T	T	13891148	2	4	4	1	0	0	0	0	0	0	0	1	4610	755	27	1		1	DNAH5	5	13891148	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	79232	13891148	167024112	1198	3164											
TRIO	7204	broad.mit.edu	37	chr5	14367023	14367023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatgccggacttatcacaGccagctcgttacaagaggca	13	8	9	11	2	1	1	1	0	0	1	2	2	1	2	2	2	4	3	2	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:14367023G>A	uc003jff.2	+	16	2815	c.2809G>A	c.(2809-2811)GCC>ACC	p.A937T	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.A888T|TRIO_uc003jfh.1_Missense_Mutation_p.A586T	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	937	Spectrin 3.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					ACTTATCACAGCCAGCTCGTT	0.547													20	80					0	0	0.001882	0	0		A	14367023	A	A	14367023	3	1	4	1	0	0	0	0	1	0	0	0	16578	971	34	2	2871	2	TRIO	5	14367023	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	475875	14367023	166548237	1199	3165											
TRIO	7204	broad.mit.edu	37	chr5	14401091	14401091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcagagttgggtgtcaCagaacatgttgaaggagacc	12	8	13	8	0	2	4	2	1	0	3	2	6	2	4	2	2	1	2	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:14401091C>T	uc003jff.2	+	31	4640	c.4634C>T	c.(4633-4635)ACA>ATA	p.T1545I	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Missense_Mutation_p.T1194I	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1545	PH 1.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					TTGGGTGTCACAGAACATGTT	0.393													8	37					0	0	0.006214	0	0		T	14401091	T	T	14401091	3	4	4	1	0	0	0	0	1	0	0	0	16578	478	17	4	4756	4	TRIO	5	14401091	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	34068	14401091	166514169	1200	3166											
FBXL7	23194	broad.mit.edu	37	chr5	15936704	15936704	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctgcacaccatcgcggcGcactgcacgcagctcaccca	8	4	10	19	4	1	0	1	0	0	0	2	0	1	0	3	2	3	5	3	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:15936704G>A	uc003jfn.1	+	4	1366	c.885G>A	c.(883-885)GCG>GCA	p.A295A		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	295	LRR 5.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						CCATCGCGGCGCACTGCACGC	0.612													5	23					0	0	0.000602	0	0		A	15936704	A	A	15936704	2	1	4	1	0	0	0	0	0	0	0	1	5738	1074	38	1		1	FBXL7	5	15936704	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1535613	15936704	164978556	1201	3167											
MYO10	4651	broad.mit.edu	37	chr5	16673839	16673839	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatcttgcaggagccgccGccatggcaatagaccgtgga	9	7	14	11	3	1	2	0	1	1	1	1	4	1	4	4	3	2	2	4	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:16673839G>A	uc003jft.3	-	36	5592	c.5124C>T	c.(5122-5124)GGC>GGT	p.G1708G	MYO10_uc011cnb.1_Silent_p.G337G|MYO10_uc011cnc.1_Silent_p.G587G|MYO10_uc011cnd.1_Silent_p.G1065G|MYO10_uc011cne.1_Silent_p.G1065G|MYO10_uc010itx.2_Silent_p.G1330G	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1708	FERM.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						AGGAGCCGCCGCCATGGCAAT	0.527													17	34					0	0	0.00499	0	0		A	16673839	A	A	16673839	2	1	4	1	0	0	0	0	0	0	0	1	10080	1074	38	1		1	MYO10	5	16673839	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	737135	16673839	164241421	1202	3168											
MYO10	4651	broad.mit.edu	37	chr5	16818205	16818205	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacgccatgtcatccacGccctcctcgttcgtggggtg	6	9	12	14	4	1	0	1	0	0	0	5	1	3	1	4	3	0	1	4	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:16818205G>A	uc003jft.3	-	3	660	c.192C>T	c.(190-192)GGC>GGT	p.G64G	MYO10_uc003jfu.2_Silent_p.G31G|MYO10_uc003jfv.2_Silent_p.G64G	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	64	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						TGTCATCCACGCCCTCCTCGT	0.463													4	22					0	0	0.000602	0	0		A	16818205	A	A	16818205	2	1	4	1	0	0	0	0	0	0	0	1	10080	1074	38	1		1	MYO10	5	16818205	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	144366	16818205	164097055	1203	3169											
CDH12	1010	broad.mit.edu	37	chr5	21752162	21752162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtctggttttatatccctgCgaattttgttctcctcaatc	7	18	6	10	1	3	0	1	0	2	0	6	1	4	0	2	1	1	2	2	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:21752162C>T	uc010iuc.2	-	12	2527	c.2069G>A	c.(2068-2070)CGC>CAC	p.R690H	CDH12_uc011cno.1_Missense_Mutation_p.R650H|CDH12_uc003jgk.2_Missense_Mutation_p.R690H|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	690	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TATATCCCTGCGAATTTTGTT	0.458										HNSCC(59;0.17)			13	73					0	0	0.00245	0	0		T	21752162	T	T	21752162	3	4	4	1	0	0	0	0	1	0	0	0	3101	768	27	1	319	1	CDH12	5	21752162	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4933957	21752162	159163098	1204	3170											
PRDM9	56979	broad.mit.edu	37	chr5	23509190	23509190	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcccagaagaagacacagaGagaacagagcggaagcccat	18	1	12	10	1	0	6	0	0	0	6	0	8	0	7	2	1	4	0	2	1	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:23509190G>A	uc003jgo.2	+	2	230	c.48G>A	c.(46-48)GAG>GAA	p.E16E		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	16					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AAGACACAGAGAGAACAGAGC	0.567										HNSCC(3;0.000094)			12	35					0	0	0.001855	0	0		A	23509190	A	A	23509190	2	1	4	1	0	0	0	0	0	0	0	1	12485	933	33	4		4	PRDM9	5	23509190	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1757028	23509190	157406070	1205	3171											
CDH10	1008	broad.mit.edu	37	chr5	24492981	24492981	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagctaaactgaaaaaaaaTttctgtccacctaaagggtc	16	9	7	9	0	1	1	0	1	1	0	3	1	2	1	2	1	2	2	2	1	8	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:24492981T>A	uc003jgr.1	-	10	1901	c.1569A>T	c.(1567-1569)AAA>AAT	p.K523N	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	523	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TGAAAAAAAATTTCTGTCCAC	0.318										HNSCC(23;0.051)			52	146					0	0	0.00361	0	0		A	24492981	A	A	24492981	3	1	4	1	0	0	0	0	1	0	0	0	3099	1490	52	5	809	5	CDH10	5	24492981	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	983791	24492981	156422279	1206	3172											
CDH10	1008	broad.mit.edu	37	chr5	24498629	24498629	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtctctttgggattgtCtggaaaaggggaagaaaaat	12	13	13	3	0	2	1	0	0	2	1	3	4	2	4	0	4	0	1	0	4	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:24498629C>A	uc003jgr.1	-	9	1726	c.1394_splice	c.e9-1	p.N465_splice	CDH10_uc011cnu.1_Splice_Site	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TTGGGATTGTCTGGAAAAGGG	0.363										HNSCC(23;0.051)			16	62					3.62473e-10	3.89718e-10	0.001882	1	0		A	24498629	A	A	24498629	5	1	4	1	0	0	0	0	0	0	1	0	3099	927	32	5	989	5	CDH10	5	24498629	Splice_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5648	24498629	156416631	1207	3173											
CDH10	1008	broad.mit.edu	37	chr5	24505247	24505247	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcagcaataacagtaagaTtatgccactgagatagttca	16	9	8	8	0	1	2	1	1	0	2	1	3	1	2	1	0	4	4	1	0	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:24505247T>A	uc003jgr.1	-	8	1699	c.1367A>T	c.(1366-1368)AAT>ATT	p.N456I	CDH10_uc011cnu.1_Intron	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	456	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AACAGTAAGATTATGCCACTG	0.308										HNSCC(23;0.051)			27	45					0	0	0.009535	0	0		A	24505247	A	A	24505247	3	1	4	1	0	0	0	0	1	0	0	0	3099	1493	52	5	1019	5	CDH10	5	24505247	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	6618	24505247	156410013	1208	3174											
CDH10	1008	broad.mit.edu	37	chr5	24535840	24535840	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccacagagaaatagggCtgcccttgaagtatgctgta	11	9	12	9	0	0	2	0	1	0	1	1	3	1	2	2	2	2	5	2	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:24535840C>A	uc003jgr.1	-	4	950	c.618G>T	c.(616-618)CAG>CAT	p.Q206H	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	206	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AGAAATAGGGCTGCCCTTGAA	0.443										HNSCC(23;0.051)			19	53					1.96292e-10	2.11133e-10	0.010504	1	0		A	24535840	A	A	24535840	3	1	4	1	0	0	0	0	1	0	0	0	3099	796	28	5	1784	5	CDH10	5	24535840	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	30593	24535840	156379420	1209	3175											
CDH9	1007	broad.mit.edu	37	chr5	26885767	26885767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcgcaacgagagctcccGtgctcaggccggctgaaagg	10	5	14	12	4	1	2	1	1	0	1	3	4	2	2	2	3	3	4	2	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:26885767G>A	uc003jgs.1	-	11	2007	c.1838C>T	c.(1837-1839)ACG>ATG	p.T613M	CDH9_uc011cnv.1_Missense_Mutation_p.T206M	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	613	Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						GAGAGCTCCCGTGCTCAGGCC	0.507													6	34					0	0	0.001984	0	0		A	26885767	A	A	26885767	3	1	4	1	0	0	0	0	1	0	0	0	3120	1145	40	1	539	1	CDH9	5	26885767	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2349927	26885767	154029493	1210	3176											
C5orf22	55322	broad.mit.edu	37	chr5	31541102	31541102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtaccaatttaagaaacctgGcaccaacctaacagaggtat	16	8	7	10	0	0	2	0	0	0	2	0	2	0	2	4	2	4	3	4	2	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:31541102G>A	uc003jhj.3	+	5	981	c.854G>A	c.(853-855)GGC>GAC	p.G285D	C5orf22_uc011cnw.1_Intron|C5orf22_uc003jhk.3_Missense_Mutation_p.G20D	NM_018356	NP_060826	Q49AR2	CE022_HUMAN	hypothetical protein LOC55322	285										ovary(2)	2						AAGAAACCTGGCACCAACCTA	0.308													19	80					0	0	0.003954	0	0		A	31541102	A	A	31541102	3	1	4	1	0	0	0	0	1	0	0	0	2288	1203	42	2	872	2	C5orf22	5	31541102	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4655335	31541102	149374158	1211	3177											
PDZD2	23037	broad.mit.edu	37	chr5	31799525	31799525	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtggatgagagtacggTcccacctgatcacagccccc	8	8	11	14	1	1	2	1	2	0	1	2	4	2	3	4	2	3	2	4	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:31799525T>C	uc003jhl.2	+	2	558	c.170T>C	c.(169-171)GTC>GCC	p.V57A	PDZD2_uc003jhm.2_Missense_Mutation_p.V57A	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	57					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GAGAGTACGGTCCCACCTGAT	0.592													27	92					0	0	0.002445	0	0		C	31799525	C	C	31799525	3	2	4	1	0	0	0	0	1	0	0	0	11720	1667	58	3	172	3	PDZD2	5	31799525	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	258423	31799525	149115735	1212	3178											
ZFR	51663	broad.mit.edu	37	chr5	32380215	32380215	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggcgtagagcagccagaGcgtcaaggcatttttgcctg	8	9	14	10	3	1	2	1	0	0	2	1	2	1	2	2	2	4	3	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:32380215G>A	uc003jhr.1	-	16	2785	c.2705C>T	c.(2704-2706)GCT>GTT	p.A902V	ZFR_uc010ium.1_Missense_Mutation_p.A33V|ZFR_uc011cny.1_Intron	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	902	DZF.				multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		AGCAGCCAGAGCGTCAAGGCA	0.443													5	60					0	0	0.000602	0	0		A	32380215	A	A	32380215	3	1	4	1	0	0	0	0	1	0	0	0	17684	971	34	2	539	2	ZFR	5	32380215	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	580690	32380215	148535045	1213	3179											
NPR3	4883	broad.mit.edu	37	chr5	32712628	32712628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatctggaagacatcgtgcGcaatatccaggccagtgaga	12	7	13	9	2	1	2	0	1	1	2	3	5	2	4	2	3	1	1	2	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:32712628G>A	uc003jhv.2	+	1	964	c.746G>A	c.(745-747)CGC>CAC	p.R249H	NPR3_uc010iuo.2_Intron|NPR3_uc011cnz.1_Intron|NPR3_uc003jhu.2_Missense_Mutation_p.R249H	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	249	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	GACATCGTGCGCAATATCCAG	0.627													20	104					0	0	0.002299	0	0		A	32712628	A	A	32712628	3	1	4	1	0	0	0	0	1	0	0	0	10615	1087	38	1	748	1	NPR3	5	32712628	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	332413	32712628	148202632	1214	3180											
TARS	6897	broad.mit.edu	37	chr5	33453456	33453456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtgtgggacctggaccGccctctggaagaagattgta	8	11	14	8	1	1	2	0	0	1	2	1	5	1	5	3	3	0	2	3	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:33453456G>A	uc003jhy.2	+	4	687	c.392G>A	c.(391-393)CGC>CAC	p.R131H	TARS_uc011cob.1_Missense_Mutation_p.R119H|TARS_uc010iup.1_Missense_Mutation_p.R72H|TARS_uc011coc.1_Missense_Mutation_p.R152H|TARS_uc003jhz.2_Missense_Mutation_p.R27H|TARS_uc011cod.1_Intron	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	131					threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)	GACCTGGACCGCCCTCTGGAA	0.393													21	105					0	0	0.003954	0	0		A	33453456	A	A	33453456	3	1	4	1	0	0	0	0	1	0	0	0	15584	1087	38	1	406	1	TARS	5	33453456	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	740828	33453456	147461804	1215	3181											
RXFP3	51289	broad.mit.edu	37	chr5	33937066	33937066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggcggggcagagagcgCggacacagaggcccgggtgc	8	1	20	12	5	0	2	0	0	0	2	0	4	0	3	1	6	3	1	1	6	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:33937066C>T	uc003jic.1	+	1	578	c.221C>T	c.(220-222)GCG>GTG	p.A74V		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	74	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						GCAGAGAGCGCGGACACAGAG	0.692													4	8					0	0	0.009096	0	0		T	33937066	T	T	33937066	3	4	4	1	0	0	0	0	1	0	0	0	13786	768	27	1	223	1	RXFP3	5	33937066	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	483610	33937066	146978194	1216	3182											
RXFP3	51289	broad.mit.edu	37	chr5	33938061	33938061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcaagagcctgctgtggCgcatcgcgtctccttcgatc	5	10	11	15	5	2	1	1	0	1	1	6	2	2	1	2	1	2	3	2	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:33938061C>T	uc003jic.1	+	1	1573	c.1216C>T	c.(1216-1218)CGC>TGC	p.R406C		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	406	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CCTGCTGTGGCGCATCGCGTC	0.582													4	33					0	0	0.000602	0	0		T	33938061	T	T	33938061	3	4	4	1	0	0	0	0	1	0	0	0	13786	768	27	1	1218	1	RXFP3	5	33938061	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	995	33938061	146977199	1217	3183											
TTC23L	153657	broad.mit.edu	37	chr5	34850347	34850347	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctttctcggattatttttGgggaccatcactggaaatgt	8	16	9	8	1	2	0	1	0	1	0	4	3	3	3	2	4	0	0	2	4	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:34850347G>T	uc003jiu.2	+	4	416	c.313G>T	c.(313-315)GGG>TGG	p.G105W		NM_144725	NP_653326	Q6PF05	TT23L_HUMAN	tetratricopeptide repeat domain 23-like	105							binding			central_nervous_system(1)	1						GATTATTTTTGGGGACCATCA	0.453													39	161					3.7052e-28	4.06746e-28	0.003214	1	0		T	34850347	T	T	34850347	3	4	4	1	0	0	0	0	1	0	0	0	16717	1348	47	5	323	5	TTC23L	5	34850347	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	912286	34850347	146064913	1218	3184											
SKP2	6502	broad.mit.edu	37	chr5	36168477	36168477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaagtgtccaccctccacgGcatactgtctcagtgttcca	9	10	8	14	1	1	1	1	0	1	1	5	1	4	1	4	1	1	2	4	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:36168477G>A	uc003jkc.1	+	5	781	c.599G>A	c.(598-600)GGC>GAC	p.G200D	SKP2_uc011cou.1_Intron|SKP2_uc003jkd.2_Missense_Mutation_p.G200D	NM_005983	NP_005974	Q13309	SKP2_HUMAN	S-phase kinase-associated protein 2 isoform 1	200	LRR 3.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G1/S transition of mitotic cell cycle|S phase of mitotic cell cycle	nucleoplasm|SCF ubiquitin ligase complex	protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4	all_lung(31;5.63e-05)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ACCCTCCACGGCATACTGTCT	0.507													34	190					0	0	0.002836	0	0		A	36168477	A	A	36168477	3	1	4	1	0	0	0	0	1	0	0	0	14387	1203	42	2	617	2	SKP2	5	36168477	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1318130	36168477	144746783	1219	3185											
NIPBL	25836	broad.mit.edu	37	chr5	37006526	37006526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagagagttacaaaatcagCggatgcttgtcttacaacta	14	10	10	7	1	2	1	1	0	1	1	2	4	2	3	0	2	5	2	0	2	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:37006526C>T	uc003jkl.3	+	17	4422	c.3923C>T	c.(3922-3924)GCG>GTG	p.A1308V	NIPBL_uc003jkk.3_Missense_Mutation_p.A1308V	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1308					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			ACAAAATCAGCGGATGCTTGT	0.338													14	72					0	0	0.001855	0	0		T	37006526	T	T	37006526	3	4	4	1	0	0	0	0	1	0	0	0	10447	768	27	1	3985	1	NIPBL	5	37006526	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	838049	37006526	143908734	1220	3186											
C5orf42	65250	broad.mit.edu	37	chr5	37196023	37196023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctccaggtctaaaaaatgCgatacctcctttacagtaat	13	12	6	10	1	1	0	0	0	1	0	3	1	3	0	3	1	4	2	3	1	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:37196023C>T	uc011cpa.1	-	21	3979	c.3748G>A	c.(3748-3750)GCA>ACA	p.A1250T	C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.A325T|C5orf42_uc011cpb.1_Missense_Mutation_p.A131T	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1250										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			CTAAAAAATGCGATACCTCCT	0.383													12	65					0	0	0.001855	0	0		T	37196023	T	T	37196023	3	4	4	1	0	0	0	0	1	0	0	0	2304	768	27	1	5973	1	C5orf42	5	37196023	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	189497	37196023	143719237	1221	3187											
EGFLAM	133584	broad.mit.edu	37	chr5	38418215	38418215	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacctctctatcttggtggCgctcccagcgcttactggtt	5	13	9	14	2	2	0	0	0	2	0	4	0	3	0	2	3	2	3	2	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:38418215C>T	uc003jlc.1	+	12	1866	c.1542C>T	c.(1540-1542)GGC>GGT	p.G514G	EGFLAM_uc003jlb.1_Silent_p.G514G|EGFLAM_uc003jle.1_Silent_p.G280G|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	514	Laminin G-like 1.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					ATCTTGGTGGCGCTCCCAGCG	0.468													17	70					0	0	0.008871	0	0		T	38418215	T	T	38418215	2	4	4	1	0	0	0	0	0	0	0	1	4972	755	27	1		1	EGFLAM	5	38418215	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1222192	38418215	142497045	1222	3188											
RICTOR	253260	broad.mit.edu	37	chr5	39002706	39002706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagtcttggatgagatatCgaagcgctcgtagccctgct	8	11	13	9	3	1	1	0	1	1	1	3	5	1	3	1	2	3	3	1	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:39002706C>T	uc003jlp.2	-	5	347	c.323G>A	c.(322-324)CGA>CAA	p.R108Q	RICTOR_uc003jlo.2_Missense_Mutation_p.R108Q|RICTOR_uc010ivf.2_5'UTR|RICTOR_uc003jlq.1_Missense_Mutation_p.R92Q|RICTOR_uc011cpk.1_Missense_Mutation_p.R108Q	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	108					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					GATGAGATATCGAAGCGCTCG	0.363													10	161					0	0	0.008291	0	0		T	39002706	T	T	39002706	3	4	4	1	0	0	0	0	1	0	0	0	13383	884	31	1	4939	1	RICTOR	5	39002706	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	584491	39002706	141912554	1223	3189											
C9	735	broad.mit.edu	37	chr5	39341719	39341719	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcacagggctctgtgggCacacactgtcgtctgtctcc	5	11	10	15	1	4	0	1	0	3	0	7	0	5	0	2	2	0	2	2	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:39341719C>T	uc003jlv.3	-	3	356	c.267G>A	c.(265-267)GTG>GTA	p.V89V		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	89	TSP type-1.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			GCTCTGTGGGCACACACTGTC	0.463													14	56					0	0	0.007413	0	0		T	39341719	T	T	39341719	2	4	4	1	0	0	0	0	0	0	0	1	2446	697	25	2		2	C9	5	39341719	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	339013	39341719	141573541	1224	3190											
DAB2	1601	broad.mit.edu	37	chr5	39388941	39388941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtcatctagaatcattaggGcctcactcccattctgaaaa	12	11	7	11	0	5	2	3	1	2	1	6	2	6	2	2	2	0	0	2	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:39388941G>A	uc003jlx.2	-	8	1115	c.584C>T	c.(583-585)GCC>GTC	p.A195V	DAB2_uc003jlw.2_Missense_Mutation_p.A195V	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	195	PID.				cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			AATCATTAGGGCCTCACTCCC	0.348													12	98					0	0	0.00245	0	0		A	39388941	A	A	39388941	3	1	4	1	0	0	0	0	1	0	0	0	4221	1203	42	2	1756	2	DAB2	5	39388941	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	47222	39388941	141526319	1225	3191											
C7	730	broad.mit.edu	37	chr5	40959677	40959677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagatcctgcgttggagaaaCgacagaaagcacacaatgcg	15	5	12	9	3	0	3	0	0	0	3	1	6	1	3	1	1	4	2	1	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:40959677C>T	uc003jmh.2	+	12	1730	c.1616C>T	c.(1615-1617)ACG>ATG	p.T539M	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	539	TSP type-1 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				GTTGGAGAAACGACAGAAAGC	0.542													4	31					0	0	0.009096	0	0		T	40959677	T	T	40959677	3	4	4	1	0	0	0	0	1	0	0	0	2378	536	19	1	1662	1	C7	5	40959677	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1570736	40959677	139955583	1226	3192											
FBXO4	26272	broad.mit.edu	37	chr5	41927346	41927346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgcattttttgactacatgGcagtgtaagtatctagtttt	9	18	9	5	0	1	1	0	1	1	0	1	1	1	1	0	1	2	5	0	1	4	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:41927346G>A	uc003jmq.2	+	2	477	c.421G>A	c.(421-423)GCA>ACA	p.A141T	FBXO4_uc003jmp.2_Missense_Mutation_p.A141T|FBXO4_uc003jmr.2_Missense_Mutation_p.A141T	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	141					positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)				TGACTACATGGCAGTGTAAGT	0.269													9	75					0	0	0.004482	0	0		A	41927346	A	A	41927346	3	1	4	1	0	0	0	0	1	0	0	0	5762	1203	42	2	427	2	FBXO4	5	41927346	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	967669	41927346	138987914	1227	3193											
CCL28	56477	broad.mit.edu	37	chr5	43388544	43388544	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaaatatgatgtgaaacCtccgtgcaacagctggaggc	12	8	12	9	1	0	2	0	2	0	0	1	4	1	4	2	3	4	2	2	3	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:43388544C>T	uc003jnu.2	-	2	169	c.99G>A	c.(97-99)GAG>GAA	p.E33E	CCL28_uc003jns.2_RNA|CCL28_uc003jnt.2_RNA|CCL28_uc010ivn.2_5'UTR	NM_148672	NP_683513	Q9NRJ3	CCL28_HUMAN	chemokine (C-C motif) ligand 28 precursor	33					chemotaxis|immune response	extracellular space	chemokine activity			ovary(1)|kidney(1)	2						GATGTGAAACCTCCGTGCAAC	0.433													9	69					0	0	0.004482	0	0		T	43388544	T	T	43388544	2	4	4	1	0	0	0	0	0	0	0	1	2903	680	24	4		4	CCL28	5	43388544	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1461198	43388544	137526716	1228	3194											
C5orf34	375444	broad.mit.edu	37	chr5	43494677	43494677	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtctatctggaggaaggttAtttactgagtaagttttctc	9	16	11	5	0	3	1	0	1	3	0	4	3	3	3	0	4	1	3	0	4	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:43494677A>G	uc003jnz.1	-	8	1496	c.1179T>C	c.(1177-1179)AAT>AAC	p.N393N		NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	393										breast(1)	1	Lung NSC(6;2.07e-05)					GAGGAAGGTTATTTACTGAGT	0.323													7	53					0	0	0.004482	0	0		G	43494677	G	G	43494677	2	3	4	1	0	0	0	0	0	0	0	1	2296	446	16	3		3	C5orf34	5	43494677	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	106133	43494677	137420583	1229	3195											
FGF10	2255	broad.mit.edu	37	chr5	44305128	44305128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaccattggaagaaagtgaGcagaggtgtttttccttcgt	10	12	11	8	1	0	3	0	1	0	2	2	4	1	4	3	2	1	2	3	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:44305128G>A	uc003jog.1	-	3	596	c.596C>T	c.(595-597)GCT>GTT	p.A199V		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	199					actin cytoskeleton reorganization|activation of MAPK activity|bud outgrowth involved in lung branching|ERK1 and ERK2 cascade|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|insulin receptor signaling pathway|lacrimal gland development|lung saccule development|mesonephros development|negative regulation of cell cycle arrest|positive regulation of ATPase activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of DNA repair|positive regulation of DNA replication|positive regulation of epithelial cell migration|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of ERK1 and ERK2 cascade|positive regulation of hair follicle cell proliferation|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of lymphocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of urothelial cell proliferation|protein localization at cell surface|radial glial cell differentiation|regulation of saliva secretion|response to protein stimulus|secretion by lung epithelial cell involved in lung growth|tear secretion|thymus development|urothelial cell proliferation	cell surface|extracellular space|nucleus|plasma membrane	chemoattractant activity|growth factor activity|heparin binding|type 2 fibroblast growth factor receptor binding			lung(3)	3	Lung NSC(6;1.12e-06)					AAGAAAGTGAGCAGAGGTGTT	0.433													34	113					0	0	0.004289	0	0		A	44305128	A	A	44305128	3	1	4	1	0	0	0	0	1	0	0	0	5853	971	34	2	34	2	FGF10	5	44305128	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	810451	44305128	136610132	1230	3196											
MRPS30	10884	broad.mit.edu	37	chr5	44811197	44811197	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggtcgaattgatgacttgCgataccagatagatgataaa	15	10	11	5	2	0	5	0	3	0	2	1	8	0	5	1	1	2	0	1	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:44811197C>T	uc003joh.2	+	2	726	c.688C>T	c.(688-690)CGA>TGA	p.R230*	MRPS30_uc003joi.1_RNA	NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	230					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)					TGATGACTTGCGATACCAGAT	0.383													23	91					0	0	0.004656	0	0		T	44811197	T	T	44811197	4	4	4	1	0	0	0	0	0	1	0	0	9858	760	27	1	694	1	MRPS30	5	44811197	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	506069	44811197	136104063	1231	3197											
HCN1	348980	broad.mit.edu	37	chr5	45267276	45267276	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacctcgttgaaattgtcCacggaaagtgagtaaagacg	14	8	12	7	3	0	3	0	2	0	1	2	5	1	5	2	2	0	2	2	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:45267276C>T	uc003jok.2	-	7	1723	c.1698G>A	c.(1696-1698)GTG>GTA	p.V566V		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	566	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TGAAATTGTCCACGGAAAGTG	0.433													36	92					0	0	0.004878	0	0		T	45267276	T	T	45267276	2	4	4	1	0	0	0	0	0	0	0	1	7012	581	21	4		4	HCN1	5	45267276	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	456079	45267276	135647984	1232	3198											
ISL1	3670	broad.mit.edu	37	chr5	50687126	50687126	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaatatccaggggatgacaGgaactcccatggtggctgcc	11	7	13	10	0	0	2	0	1	0	1	2	4	2	4	3	5	2	1	3	5	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:50687126G>T	uc003jor.2	+	5	1332	c.784G>T	c.(784-786)GGA>TGA	p.G262*		NM_002202	NP_002193	P61371	ISL1_HUMAN	islet-1	262	Gln-rich.				generation of precursor metabolites and energy|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3		Lung NSC(810;0.000845)|Breast(144;0.0411)				GGGGATGACAGGAACTCCCAT	0.512													4	19					0.00116845	0.00121571	0.001168	1	0		T	50687126	T	T	50687126	4	4	4	1	0	0	0	0	0	1	0	0	7872	1001	35	5	802	5	ISL1	5	50687126	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5419850	50687126	130228134	1233	3199											
PELO	53918	broad.mit.edu	37	chr5	52096901	52096901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgactacctgtttcaacaaGcagtgaagaccgacaacaaa	16	6	8	11	2	1	2	1	1	0	1	1	4	1	2	2	0	4	2	2	0	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:52096901G>A	uc003jos.2	+	2	1658	c.673G>A	c.(673-675)GCA>ACA	p.A225T	ITGA1_uc003jov.2_Intron|ITGA1_uc003jou.2_Intron|PELO_uc003jot.1_Intron	NM_015946	NP_057030	Q9BRX2	PELO_HUMAN	pelota homolog	225					cell cycle|cell division|translation	cytoplasm|nucleus	endonuclease activity|metal ion binding|protein binding				0		Lung NSC(810;4.94e-05)|Breast(144;0.0848)				GTTTCAACAAGCAGTGAAGAC	0.478													16	59					0	0	0.003163	0	0		A	52096901	A	A	52096901	3	1	4	1	0	0	0	0	1	0	0	0	11743	971	34	2	675	2	PELO	5	52096901	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1409775	52096901	128818359	1234	3200											
SNX18	112574	broad.mit.edu	37	chr5	53815142	53815142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacggccaacgagttcgcgCgcaagcaggtgaccggcttc	9	5	13	14	6	0	1	0	1	0	0	2	2	0	1	2	3	2	4	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:53815142C>T	uc003jpj.3	+	1	1550	c.1360C>T	c.(1360-1362)CGC>TGC	p.R454C	SNX18_uc011cqg.1_Missense_Mutation_p.R454C|SNX18_uc003jpi.3_Missense_Mutation_p.R454C	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	454	BAR.				cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)				CGAGTTCGCGCGCAAGCAGGT	0.607													5	37					0	0	0.008291	0	0		T	53815142	T	T	53815142	3	4	4	1	0	0	0	0	1	0	0	0	14914	768	27	1	1362	1	SNX18	5	53815142	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1718241	53815142	127100118	1235	3201											
DDX4	54514	broad.mit.edu	37	chr5	55082359	55082359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttcagacttttgaagaagCtaatctctgtcagacactga	12	14	7	8	0	3	5	2	2	1	3	4	5	3	5	0	0	1	1	0	0	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:55082359C>T	uc003jqg.3	+	14	952	c.878C>T	c.(877-879)GCT>GTT	p.A293V	DDX4_uc010ivz.2_Missense_Mutation_p.A273V|DDX4_uc003jqh.3_Missense_Mutation_p.A259V|DDX4_uc003jqj.2_Missense_Mutation_p.A144V	NM_001136034	NP_001129506	Q9NQI0	DDX4_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4 isoform	293	Q motif.				multicellular organismal development|sperm motility	perinuclear region of cytoplasm|pi-body|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|skin(1)	2		Lung NSC(810;6.93e-05)|all_neural(839;0.00409)|Prostate(74;0.0107)|Breast(144;0.0544)|Ovarian(174;0.223)				TTTGAAGAAGCTAATCTCTGT	0.323													4	61					0	0	0.000602	0	0		T	55082359	T	T	55082359	3	4	4	1	0	0	0	0	1	0	0	0	4363	797	28	2	969	2	DDX4	5	55082359	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1267217	55082359	125832901	1236	3202											
MAP3K1	4214	broad.mit.edu	37	chr5	56155650	56155650	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaccagcttccaaaggcCgacgcagtccttctcctggc	7	9	8	17	2	2	0	1	0	1	0	5	1	4	0	5	2	1	2	5	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:56155650C>T	uc003jqw.3	+	3	1243	c.742C>T	c.(742-744)CGA>TGA	p.R248*		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	248					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		TTCCAAAGGCCGACGCAGTCC	0.507													6	25					0	0	0.001984	0	0		T	56155650	T	T	56155650	4	4	4	1	0	0	0	0	0	1	0	0	9261	644	23	1	752	1	MAP3K1	5	56155650	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1073291	56155650	124759610	1237	3203											
C5orf35	133383	broad.mit.edu	37	chr5	56207341	56207341	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggattggtaccaaaaggCgcagtcgtatctatgtatcc	13	10	10	8	2	1	0	0	0	1	0	3	1	2	1	2	3	1	4	2	3	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:56207341C>T	uc003jqx.2	+	2	817	c.444C>T	c.(442-444)GGC>GGT	p.G148G	C5orf35_uc003jqy.2_Intron	NM_153706	NP_714917	Q8NE22	CE035_HUMAN	hypothetical protein LOC133383	148										ovary(1)	1		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.173)		OV - Ovarian serous cystadenocarcinoma(10;2.58e-39)		TACCAAAAGGCGCAGTCGTAT	0.393													7	141					0	0	0.001984	0	0		T	56207341	T	T	56207341	2	4	4	1	0	0	0	0	0	0	0	1	2297	755	27	1		1	C5orf35	5	56207341	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	51691	56207341	124707919	1238	3204											
GPBP1	65056	broad.mit.edu	37	chr5	56542211	56542211	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacttacagctatctggatTcccagtagtaggaaatcttc	12	12	8	9	0	2	1	0	0	2	1	4	3	3	3	1	2	2	3	1	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:56542211T>C	uc003jrh.3	+	7	1837	c.563T>C	c.(562-564)TTC>TCC	p.F188S	GPBP1_uc010iwg.2_Missense_Mutation_p.F208S|GPBP1_uc003jri.3_Missense_Mutation_p.F17S|GPBP1_uc003jrj.3_Missense_Mutation_p.F195S|GPBP1_uc003jrk.3_Missense_Mutation_p.F195S|GPBP1_uc003jrl.3_RNA	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	188					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		CTATCTGGATTCCCAGTAGTA	0.403													9	82					0	0	0.008291	0	0		C	56542211	C	C	56542211	3	2	4	1	0	0	0	0	1	0	0	0	6610	1783	62	3	606	3	GPBP1	5	56542211	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	334870	56542211	124373049	1239	3205											
RAB3C	115827	broad.mit.edu	37	chr5	58120962	58120962	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgggtcatctcaactgagCgaggtcaacatttaggagaa	13	8	12	8	2	3	2	3	1	1	1	4	4	3	2	0	3	4	0	0	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:58120962C>T	uc003jrp.2	+	4	566	c.469C>T	c.(469-471)CGA>TGA	p.R157*		NM_138453	NP_612462	Q96E17	RAB3C_HUMAN	RAB3C, member RAS oncogene family	157					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)|central_nervous_system(1)	2		all_cancers(5;9.93e-10)|all_epithelial(5;1.49e-10)|all_lung(5;8.97e-05)|Lung NSC(5;0.000139)|Prostate(74;0.0664)		OV - Ovarian serous cystadenocarcinoma(10;1.8e-34)		CTCAACTGAGCGAGGTCAACA	0.388													16	42					0	0	0.004007	0	0		T	58120962	T	T	58120962	4	4	4	1	0	0	0	0	0	1	0	0	12958	760	27	1	483	1	RAB3C	5	58120962	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1578751	58120962	122794298	1240	3206											
NLN	57486	broad.mit.edu	37	chr5	65118709	65118709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtgagccaaaccaaaaagCgttcctaatgagtagaggcc	15	6	10	10	2	0	3	0	2	0	1	1	3	1	3	4	1	3	2	4	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:65118709C>T	uc003juf.2	+	13	2197	c.2081C>T	c.(2080-2082)GCG>GTG	p.A694V	NLN_uc003jug.2_Missense_Mutation_p.A523V|NLN_uc010iww.2_Missense_Mutation_p.A371V	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	694					proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)		AACCAAAAAGCGTTCCTAATG	0.493													31	86					0	0	0.003271	0	0		T	65118709	T	T	65118709	3	4	4	1	0	0	0	0	1	0	0	0	10486	768	27	1	2131	1	NLN	5	65118709	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6997747	65118709	115796551	1241	3207											
ERBB2IP	55914	broad.mit.edu	37	chr5	65340041	65340041	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaactgttcaaaccattgTacatagattaaaagatgaag	19	10	6	6	0	1	3	1	1	0	2	1	3	1	3	1	0	3	2	1	0	8	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:65340041T>C	uc003juk.1	+	17	1813	c.1505T>C	c.(1504-1506)GTA>GCA	p.V502A	ERBB2IP_uc003juh.1_Missense_Mutation_p.V502A|ERBB2IP_uc003jui.1_Missense_Mutation_p.V502A|ERBB2IP_uc003juj.1_Missense_Mutation_p.V502A|ERBB2IP_uc011cqx.1_Missense_Mutation_p.V502A|ERBB2IP_uc011cqy.1_Missense_Mutation_p.V502A|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Missense_Mutation_p.V502A|ERBB2IP_uc003jul.1_Missense_Mutation_p.V502A	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	502					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		CAAACCATTGTACATAGATTA	0.323													6	100					0	0	0.001168	0	0		C	65340041	C	C	65340041	3	2	4	1	0	0	0	0	1	0	0	0	5215	1638	57	3	1563	3	ERBB2IP	5	65340041	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	221332	65340041	115575219	1242	3208											
ERBB2IP	55914	broad.mit.edu	37	chr5	65349316	65349316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggaaaagttcaaagctcatGataaaaaagattttaactta	20	11	6	4	0	2	2	2	1	0	1	2	3	2	3	0	1	2	2	0	1	8	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:65349316G>A	uc003juk.1	+	21	2478	c.2170G>A	c.(2170-2172)GAT>AAT	p.D724N	ERBB2IP_uc003jui.1_Missense_Mutation_p.D724N|ERBB2IP_uc003juj.1_Missense_Mutation_p.D724N|ERBB2IP_uc011cqx.1_Missense_Mutation_p.D724N|ERBB2IP_uc011cqy.1_Missense_Mutation_p.D724N|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Missense_Mutation_p.D720N|ERBB2IP_uc003jul.1_Missense_Mutation_p.D720N	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	724					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		CAAAGCTCATGATAAAAAAGA	0.303													27	82					0	0	0.007291	0	0		A	65349316	A	A	65349316	3	1	4	1	0	0	0	0	1	0	0	0	5215	1290	45	4	2244	4	ERBB2IP	5	65349316	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	9275	65349316	115565944	1243	3209											
MAST4	375449	broad.mit.edu	37	chr5	66396393	66396393	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagatgcaggaacacgcCgatgcgcccccgttcccgaa	11	4	11	15	5	0	1	0	0	0	1	1	5	1	2	4	1	4	2	4	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:66396393C>A	uc003jut.1	+	7	544	c.476C>A	c.(475-477)CCG>CAG	p.P159Q	MAST4_uc003jus.2_Missense_Mutation_p.P159Q|MAST4_uc003juu.1_Missense_Mutation_p.P169Q|MAST4_uc011cra.1_Missense_Mutation_p.P142Q|MAST4_uc010ixa.2_RNA|MAST4_uc003juv.2_Missense_Mutation_p.P154Q|MAST4_uc003juw.2_Missense_Mutation_p.P154Q	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	351						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		AGGAACACGCCGATGCGCCCC	0.473													22	56					1.2476e-16	1.36185e-16	0.00632	1	0		A	66396393	A	A	66396393	3	1	4	1	0	0	0	0	1	0	0	0	9345	652	23	5	1203	5	MAST4	5	66396393	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1047077	66396393	114518867	1244	3210											
MAST4	375449	broad.mit.edu	37	chr5	66448493	66448493	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtttcccctctgggaagTccaatgtctccccattccct	5	13	7	16	0	2	0	0	0	2	0	6	1	5	1	6	1	0	2	6	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:66448493T>C	uc003jut.1	+	24	2825	c.2757T>C	c.(2755-2757)AGT>AGC	p.S919S	MAST4_uc003juw.2_Silent_p.S847S	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1111	Ser-rich.					cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		CTCTGGGAAGTCCAATGTCTC	0.537													7	127					0	0	0.00308	0	0		C	66448493	C	C	66448493	2	2	4	1	0	0	0	0	0	0	0	1	9345	1664	58	3		3	MAST4	5	66448493	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	52100	66448493	114466767	1245	3211											
MAST4	375449	broad.mit.edu	37	chr5	66460439	66460439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctggacattgctctcctgtCcggacctcaggcctccaaga	7	10	9	15	1	3	1	1	0	2	1	6	3	5	3	5	3	1	1	5	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:66460439C>T	uc003jut.1	+	28	4933	c.4865C>T	c.(4864-4866)TCC>TTC	p.S1622F	MAST4_uc003juw.2_Missense_Mutation_p.S1550F|MAST4_uc003jux.2_5'Flank	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1814						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		GCTCTCCTGTCCGGACCTCAG	0.602													9	68					0	0	0.000978	0	0		T	66460439	T	T	66460439	3	4	4	1	0	0	0	0	1	0	0	0	9345	855	30	4	5676	4	MAST4	5	66460439	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	11946	66460439	114454821	1246	3212											
BDP1	55814	broad.mit.edu	37	chr5	70805292	70805292	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccccttttttttttatagCgttcaagagaataataaggc	11	15	7	8	1	1	1	1	0	0	1	1	2	1	1	2	1	1	1	2	1	6	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:70805292C>T	uc003kbp.1	+	17	2636	c.2373C>T	c.(2371-2373)AGC>AGT	p.S791S	BDP1_uc003kbn.1_Silent_p.S791S|BDP1_uc003kbo.2_Silent_p.S791S	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	791					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		TTTTTTATAGCGTTCAAGAGA	0.378													8	83					0	0	0.004482	0	0		T	70805292	T	T	70805292	2	4	4	1	0	0	0	0	0	0	0	1	1396	782	27	1		1	BDP1	5	70805292	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4344853	70805292	110109968	1247	3213											
CARTPT	9607	broad.mit.edu	37	chr5	71016372	71016372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcagtgaggaaaggggCaaggatcgggaagctgtgtg	10	7	20	4	1	0	1	0	1	0	0	1	4	0	4	0	5	2	3	0	5	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:71016372C>T	uc003kbv.1	+	3	408	c.281C>T	c.(280-282)GCA>GTA	p.A94V		NM_004291	NP_004282	Q16568	CART_HUMAN	cocaine- and amphetamine-regulated transcript	94					activation of MAPKK activity|adult feeding behavior|cellular glucose homeostasis|cellular response to starvation|circadian regulation of gene expression|negative regulation of appetite|negative regulation of bone resorption|negative regulation of osteoclast differentiation|neuropeptide signaling pathway|positive regulation of blood pressure|positive regulation of epinephrine secretion|positive regulation of transmission of nerve impulse|synaptic transmission	extracellular space				ovary(1)	1		Lung NSC(167;0.00153)|Ovarian(174;0.0175)|Prostate(74;0.11)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;8.4e-56)	Amphetamine(DB00182)	AGGAAAGGGGCAAGGATCGGG	0.532													6	27					0	0	0.001168	0	0		T	71016372	T	T	71016372	3	4	4	1	0	0	0	0	1	0	0	0	2662	710	25	2	291	2	CARTPT	5	71016372	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	211080	71016372	109898888	1248	3214											
MAP1B	4131	broad.mit.edu	37	chr5	71491738	71491738	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggtcgatgtaacaaaGgacatcaagcctcagctgga	15	6	12	8	1	2	1	2	0	0	1	3	5	2	3	1	3	3	2	1	3	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:71491738G>T	uc003kbw.3	+	5	2797	c.2556G>T	c.(2554-2556)AAG>AAT	p.K852N	MAP1B_uc010iyw.1_Missense_Mutation_p.K869N|MAP1B_uc010iyx.1_Missense_Mutation_p.K726N|MAP1B_uc010iyy.1_Missense_Mutation_p.K726N	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	852						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		ATGTAACAAAGGACATCAAGC	0.478													28	226					1.17739e-12	1.27535e-12	0.005443	1	0		T	71491738	T	T	71491738	3	4	4	1	0	0	0	0	1	0	0	0	9246	991	35	5	2574	5	MAP1B	5	71491738	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	475366	71491738	109423522	1249	3215											
ZNF366	167465	broad.mit.edu	37	chr5	71743088	71743088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttgggaatgaaggccccGctccatgactccatgcttga	9	9	10	13	1	0	3	0	3	0	0	2	4	2	4	5	2	1	2	5	2	2	2	rs144490986		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:71743088G>A	uc003kce.1	-	4	1867	c.1681C>T	c.(1681-1683)CGG>TGG	p.R561W		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	561					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		TGAAGGCCCCGCTCCATGACT	0.507													15	46					0	0	0.006122	0	0		A	71743088	A	A	71743088	3	1	4	1	0	0	0	0	1	0	0	0	17895	1086	38	1	561	1	ZNF366	5	71743088	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	251350	71743088	109172172	1250	3216											
TMEM171	134285	broad.mit.edu	37	chr5	72427511	72427511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatgaagaaaaagaaaatgCtgcagctacattcttgcctc	16	10	7	8	0	1	3	0	1	1	2	2	3	1	3	1	0	5	3	1	0	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:72427511C>T	uc003kcm.2	+	4	1133	c.929C>T	c.(928-930)GCT>GTT	p.A310V	TMEM171_uc003kcn.3_Missense_Mutation_p.A309V	NM_173490	NP_775761	Q8WVE6	TM171_HUMAN	transmembrane protein 171 isoform 1	310						integral to membrane					0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.87e-54)|Lung(70;0.115)		AAAGAAAATGCTGCAGCTACA	0.383													28	89					0	0	0.003271	0	0		T	72427511	T	T	72427511	3	4	4	1	0	0	0	0	1	0	0	0	16113	797	28	2	939	2	TMEM171	5	72427511	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	684423	72427511	108487749	1251	3217											
RGNEF	64283	broad.mit.edu	37	chr5	73069726	73069726	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacctggctatgagatggggCctggctaaactttcccagtt	8	11	11	11	0	0	1	0	1	0	1	1	2	1	1	3	4	1	3	3	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:73069726C>T	uc011csq.1	+	4	533	c.522C>T	c.(520-522)GGC>GGT	p.G174G	RGNEF_uc003kcx.2_Silent_p.G174G|RGNEF_uc003kcy.1_Silent_p.G174G|RGNEF_uc010izf.2_Silent_p.G174G	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	174					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		TGAGATGGGGCCTGGCTAAAC	0.458													5	13					0	0	0.000602	0	0		T	73069726	T	T	73069726	2	4	4	1	0	0	0	0	0	0	0	1	13308	726	26	2		2	RGNEF	5	73069726	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	642215	73069726	107845534	1252	3218											
ENC1	8507	broad.mit.edu	37	chr5	73931937	73931937	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttgaaactccagcatgTcaccagcttccaggagcgat	10	10	9	12	1	2	1	1	1	1	0	4	3	4	2	3	1	4	2	3	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:73931937T>C	uc003kdc.3	-	2	1505	c.374A>G	c.(373-375)GAC>GGC	p.D125G	ENC1_uc011css.1_Missense_Mutation_p.D52G	NM_003633	NP_003624	O14682	ENC1_HUMAN	ectodermal-neural cortex (with BTB-like domain)	125				INEENAESLLEAGDMLEFQ -> HQLEGKCRNSLLGSLVTC WSFK (in Ref. 1).	nervous system development	cytoplasm|cytoskeleton|nuclear matrix	actin binding			ovary(1)|pancreas(1)|skin(1)	3		all_lung(232;0.0154)|Lung NSC(167;0.0331)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.45e-59)		CTCCAGCATGTCACCAGCTTC	0.527													24	76					0	0	0.00278	0	0		C	73931937	C	C	73931937	3	2	4	1	0	0	0	0	1	0	0	0	5121	1667	58	3	1399	3	ENC1	5	73931937	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	862211	73931937	106983323	1253	3219											
IQGAP2	10788	broad.mit.edu	37	chr5	75893291	75893291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagtggaccatatcaatgCtgtcattccggaaggtgacc	10	10	11	10	1	2	1	2	1	0	0	3	3	3	3	3	3	2	2	3	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:75893291C>T	uc003kek.2	+	10	1157	c.935C>T	c.(934-936)GCT>GTT	p.A312V		NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	312					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		CATATCAATGCTGTCATTCCG	0.532													6	43					0	0	0.001984	0	0		T	75893291	T	T	75893291	3	4	4	1	0	0	0	0	1	0	0	0	7831	797	28	2	973	2	IQGAP2	5	75893291	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1961354	75893291	105021969	1254	3220											
IQGAP2	10788	broad.mit.edu	37	chr5	75967720	75967720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtggtaaaagagatcatcGacgacaagtcgctgattatc	14	9	10	8	3	1	2	1	1	0	1	4	5	1	2	0	1	0	2	0	1	4	2	rs138211969	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:75967720G>A	uc003kek.2	+	24	3202	c.2980G>A	c.(2980-2982)GAC>AAC	p.D994N	IQGAP2_uc010izv.2_Missense_Mutation_p.D547N|IQGAP2_uc011csv.1_Missense_Mutation_p.D490N|IQGAP2_uc003kel.2_Missense_Mutation_p.D490N|IQGAP2_uc010izw.1_5'Flank	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	994	Ras-GAP.				small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		AGAGATCATCGACGACAAGTC	0.498													14	47					0	0	0.00245	0	0		A	75967720	A	A	75967720	3	1	4	1	0	0	0	0	1	0	0	0	7831	1058	37	1	3074	1	IQGAP2	5	75967720	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	74429	75967720	104947540	1255	3221											
WDR41	55255	broad.mit.edu	37	chr5	76729078	76729078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagatgatcagcggagcacGtcactagtccatgatcttca	11	10	10	10	2	4	3	3	3	1	1	5	5	5	4	1	1	2	1	1	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:76729078G>A	uc003kff.1	-	13	1549	c.1262C>T	c.(1261-1263)ACG>ATG	p.T421M	WDR41_uc011csy.1_Missense_Mutation_p.T363M|WDR41_uc011csz.1_Missense_Mutation_p.T366M	NM_018268	NP_060738	Q9HAD4	WDR41_HUMAN	WD repeat domain 41	421	WD 6.										0		all_lung(232;0.000961)|Lung NSC(167;0.0011)|Ovarian(174;0.0105)|Prostate(461;0.059)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-50)|Epithelial(54;2.04e-44)|all cancers(79;6.84e-40)		AGCGGAGCACGTCACTAGTCC	0.368													14	49					0	0	0.004007	0	0		A	76729078	A	A	76729078	3	1	4	1	0	0	0	0	1	0	0	0	17320	1145	40	1	121	1	WDR41	5	76729078	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	761358	76729078	104186182	1256	3222											
BHMT2	23743	broad.mit.edu	37	chr5	78379533	78379533	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggtcaggtacattggCgggtgctgtggatttgagcc	5	11	18	7	1	1	1	1	1	0	0	1	2	1	2	1	6	3	2	1	6	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:78379533C>T	uc003kft.2	+	7	887	c.864C>T	c.(862-864)GGC>GGT	p.G288G	BHMT2_uc011cth.1_Silent_p.G224G	NM_017614	NP_060084	Q9H2M3	BHMT2_HUMAN	betaine-homocysteine methyltransferase 2	288	Hcy-binding.				methionine biosynthetic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00063)|Lung NSC(167;0.00171)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;2.09e-45)|Epithelial(54;9.3e-41)|all cancers(79;4.09e-36)	L-Methionine(DB00134)	GGTACATTGGCGGGTGCTGTG	0.522													8	28					0	0	0.001855	0	0		T	78379533	T	T	78379533	2	4	4	1	0	0	0	0	0	0	0	1	1427	755	27	1		1	BHMT2	5	78379533	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1650455	78379533	102535727	1257	3223											
BHMT	635	broad.mit.edu	37	chr5	78415085	78415085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcattcactctcccagttcGccagcttcatcgagagttcc	7	12	6	16	2	4	1	3	0	1	1	8	2	5	1	3	0	1	3	3	0	0	4	rs147391267		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:78415085G>A	uc003kfu.3	+	3	275	c.170G>A	c.(169-171)CGC>CAC	p.R57H	BHMT_uc011cti.1_Intron	NM_001713	NP_001704	Q93088	BHMT1_HUMAN	betaine-homocysteine methyltransferase	57	Hcy-binding.				protein methylation|regulation of homocysteine metabolic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)	CTCCCAGTTCGCCAGCTTCAT	0.443													7	69					0	0	0.006214	0	0		A	78415085	A	A	78415085	3	1	4	1	0	0	0	0	1	0	0	0	1426	1087	38	1	180	1	BHMT	5	78415085	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	35552	78415085	102500175	1258	3224											
THBS4	7060	broad.mit.edu	37	chr5	79357547	79357547	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catccctgctacccgggcgtGcactgcataaatttgtctcc	7	11	8	15	2	1	0	0	0	1	0	3	0	2	0	3	1	4	3	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:79357547G>A	uc003kgh.2	+	9	1340	c.1017G>A	c.(1015-1017)GTG>GTA	p.V339V		NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	339	EGF-like 2; calcium-binding (Potential).				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		ACCCGGGCGTGCACTGCATAA	0.488													7	65					0	0	0.00308	0	0		A	79357547	A	A	79357547	2	1	4	1	0	0	0	0	0	0	0	1	15881	1306	46	2		2	THBS4	5	79357547	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	942462	79357547	101557713	1259	3225											
SERINC5	256987	broad.mit.edu	37	chr5	79498704	79498704	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgaacacggacaaacttaCgtgctctttcatcttgtgag	10	12	9	10	2	3	2	1	2	2	0	3	3	3	3	0	1	4	2	0	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:79498704C>T	uc003kgj.2	-	2	324	c.195_splice	c.e2+1	p.H65_splice	SERINC5_uc003kgk.2_Splice_Site_p.H65_splice|SERINC5_uc003kgl.2_Splice_Site|SERINC5_uc003kgm.2_Splice_Site_p.H65_splice|SERINC5_uc011ctj.1_Splice_Site_p.H65_splice	NM_178276	NP_840060	Q86VE9	SERC5_HUMAN	developmentally regulated protein TPO1						phosphatidylserine metabolic process|phospholipid biosynthetic process|positive regulation of transferase activity	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1		Lung NSC(167;0.00328)|all_lung(232;0.00356)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;2.93e-46)|Epithelial(54;5.59e-40)|all cancers(79;1.89e-34)		GACAAACTTACGTGCTCTTTC	0.493													5	55					0	0	0.001168	0	0		T	79498704	T	T	79498704	5	4	4	1	0	0	0	0	0	0	1	0	14108	550	19	1	1271	1	SERINC5	5	79498704	Splice_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	141157	79498704	101416556	1260	3226											
ZFYVE16	9765	broad.mit.edu	37	chr5	79733039	79733039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccctgtgtttcttcaacaGaccatgatagtgatactgtc	9	14	7	11	0	2	3	1	2	1	1	4	3	3	3	2	0	2	1	2	0	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:79733039G>A	uc003kgr.3	+	4	837	c.535G>A	c.(535-537)GAC>AAC	p.D179N	ZFYVE16_uc010jak.1_Missense_Mutation_p.D179N|ZFYVE16_uc003kgp.2_Missense_Mutation_p.D179N|ZFYVE16_uc003kgq.3_Missense_Mutation_p.D179N|ZFYVE16_uc003kgs.3_Missense_Mutation_p.D179N	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	179					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		TTCTTCAACAGACCATGATAG	0.328													9	64					0	0	0.006214	0	0		A	79733039	A	A	79733039	3	1	4	1	0	0	0	0	1	0	0	0	17689	942	33	4	541	4	ZFYVE16	5	79733039	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	234335	79733039	101182221	1261	3227											
CKMT2	1160	broad.mit.edu	37	chr5	80548572	80548572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgagtgcctcacccccGccatttatgccaagcttcgc	6	9	9	17	3	1	0	1	0	0	0	2	1	1	0	6	1	3	1	6	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:80548572G>A	uc003khc.3	+	4	453	c.211G>A	c.(211-213)GCC>ACC	p.A71T	RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Missense_Mutation_p.A71T|CKMT2_uc003khd.3_Missense_Mutation_p.A71T|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816	P17540	KCRS_HUMAN	sarcomeric mitochondrial creatine kinase	71	Phosphagen kinase N-terminal.				creatine metabolic process|muscle contraction	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;2.29e-44)|Epithelial(54;1.05e-38)|all cancers(79;4.15e-34)	Creatine(DB00148)	CCTCACCCCCGCCATTTATGC	0.612													24	40					0	0	0.004656	0	0		A	80548572	A	A	80548572	3	1	4	1	0	0	0	0	1	0	0	0	3454	1087	38	1	217	1	CKMT2	5	80548572	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	815533	80548572	100366688	1262	3228											
XRCC4	7518	broad.mit.edu	37	chr5	82406986	82406986	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttttctaaagagtcttgTtatttcttctttgagaaaaa	13	19	5	4	0	4	2	0	1	4	2	4	3	4	2	0	0	0	1	0	0	6	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:82406986T>C	uc003kib.2	+	3	407	c.279T>C	c.(277-279)TGT>TGC	p.C93C	XRCC4_uc003kia.1_Silent_p.C93C|XRCC4_uc003kid.2_Silent_p.C93C|XRCC4_uc003kic.2_Silent_p.C93C|XRCC4_uc003kie.2_Silent_p.C93C|XRCC4_uc003kif.1_Silent_p.C93C	NM_022406	NP_071801	Q13426	XRCC4_HUMAN	X-ray repair cross complementing protein 4	93					DNA ligation involved in DNA repair|double-strand break repair via nonhomologous end joining|initiation of viral infection|positive regulation of ligase activity|provirus integration|response to X-ray	cytosol|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|nucleoplasm	DNA binding|protein C-terminus binding			skin(3)	3		Lung NSC(167;0.00132)|all_lung(232;0.00154)|Ovarian(174;0.034)		OV - Ovarian serous cystadenocarcinoma(54;1.44e-38)|Epithelial(54;3.72e-33)|all cancers(79;9.22e-28)		AAGAGTCTTGTTATTTCTTCT	0.323								NHEJ					13	36					0	0	0.004007	0	0		C	82406986	C	C	82406986	2	2	4	1	0	0	0	0	0	0	0	1	17481	1731	60	3		3	XRCC4	5	82406986	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1858414	82406986	98508274	1263	3229											
MEF2C	4208	broad.mit.edu	37	chr5	88100421	88100421	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatgctctctcacctccacGatgtctgagtttgtccggct	5	13	9	14	2	3	1	1	1	2	0	6	2	5	1	3	1	1	4	3	1	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:88100421G>A	uc003kjj.2	-	3	925	c.252C>T	c.(250-252)ATC>ATT	p.I84I	MEF2C_uc003kji.2_Silent_p.I84I|MEF2C_uc003kjk.2_Silent_p.I84I|MEF2C_uc003kjm.2_Silent_p.I84I|MEF2C_uc003kjl.2_Silent_p.I84I	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	84	Mef2-type (Potential).				apoptosis|B cell proliferation|innate immune response|learning or memory|muscle cell differentiation|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|neuron development|positive regulation of muscle cell differentiation|positive regulation of survival gene product expression|positive regulation of transcription from RNA polymerase II promoter|regulation of germinal center formation|regulation of megakaryocyte differentiation|regulation of synaptic activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nuclear speck	activating transcription factor binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(3)|breast(2)|ovary(1)|large_intestine(1)	7		all_cancers(142;6.67e-05)|all_epithelial(76;7.77e-07)|Lung NSC(167;0.00566)|all_lung(232;0.00732)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;1.04e-33)|Epithelial(54;1.6e-28)|all cancers(79;2.9e-25)		TCACCTCCACGATGTCTGAGT	0.547										HNSCC(66;0.2)			5	36					0	0	0.001168	0	0		A	88100421	A	A	88100421	2	1	4	1	0	0	0	0	0	0	0	1	9475	1048	37	1		1	MEF2C	5	88100421	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5693435	88100421	92814839	1264	3230											
POLR3G	10622	broad.mit.edu	37	chr5	89781409	89781409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaataaaggaagaggaCgtgctgcttatacctttaat	13	11	11	6	1	0	1	0	0	0	1	0	4	0	4	1	3	3	2	1	3	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:89781409C>T	uc003kjq.2	+	2	225	c.25C>T	c.(25-27)CGT>TGT	p.R9C	POLR3G_uc011cuc.1_Missense_Mutation_p.R9C	NM_006467	NP_006458	O15318	RPC7_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	9					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|regulation of transcription from RNA polymerase III promoter|response to virus	DNA-directed RNA polymerase III complex	DNA-directed RNA polymerase activity				0		all_cancers(142;5.03e-09)|all_epithelial(76;1.23e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;2.74e-31)|Epithelial(54;8.2e-26)|all cancers(79;3.86e-22)		AGGAAGAGGACGTGCTGCTTA	0.393													5	93					0	0	0.001168	0	0		T	89781409	T	T	89781409	3	4	4	1	0	0	0	0	1	0	0	0	12253	536	19	1	27	1	POLR3G	5	89781409	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1680988	89781409	91133851	1265	3231											
MCTP1	79772	broad.mit.edu	37	chr5	94267673	94267673	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	attaccttacttgatcttttCcaactcttcctcattagcat	9	18	2	12	0	3	1	1	1	2	0	5	1	5	1	3	0	4	1	3	0	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:94267673C>T	uc003kkx.2	-	6	1197	c.1197G>A	c.(1195-1197)TGG>TGA	p.W399*	MCTP1_uc003kkv.2_Nonsense_Mutation_p.W178*|MCTP1_uc003kkw.2_Nonsense_Mutation_p.W178*|MCTP1_uc003kkz.2_Nonsense_Mutation_p.W60*|MCTP1_uc003kku.2_5'Flank	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L	399					calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		TTGATCTTTTCCAACTCTTCC	0.358													44	165					0	0	0.00361	0	0		T	94267673	T	T	94267673	4	4	4	1	0	0	0	0	0	1	0	0	9418	856	30	4	1874	4	MCTP1	5	94267673	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4486264	94267673	86647587	1266	3232											
RHOBTB3	22836	broad.mit.edu	37	chr5	95072640	95072640	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgaaatctaattgggggCgctgacatcattgtgatcaa	11	12	10	8	2	4	2	2	2	2	0	5	3	4	2	0	2	0	1	0	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:95072640C>T	uc003klm.2	+	3	813	c.276C>T	c.(274-276)GGC>GGT	p.G92G	RHOBTB3_uc003klk.1_5'UTR	NM_014899	NP_055714	O94955	RHBT3_HUMAN	rho-related BTB domain containing 3	92	Rho-like.				retrograde transport, endosome to Golgi	Golgi apparatus	ATP binding|ATPase activity|Rab GTPase binding			lung(1)|skin(1)	2		all_cancers(142;2.58e-06)|all_epithelial(76;4.19e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0164)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.79e-16)		TAATTGGGGGCGCTGACATCA	0.338													19	64					0	0	0.001882	0	0		T	95072640	T	T	95072640	2	4	4	1	0	0	0	0	0	0	0	1	13360	755	27	1		1	RHOBTB3	5	95072640	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	804967	95072640	85842620	1267	3233											
PCSK1	5122	broad.mit.edu	37	chr5	95728946	95728946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggtgagtttttactgaaaGcactttgcaggagtcgcagc	9	11	13	8	2	0	2	0	2	0	0	1	3	0	3	0	2	4	4	0	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:95728946G>A	uc003kls.1	-	14	2227	c.2021C>T	c.(2020-2022)GCT>GTT	p.A674V	PCSK1_uc010jbi.1_Missense_Mutation_p.A364V	NM_000439	NP_000430	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	674					cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity			ovary(2)	2		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TTTACTGAAAGCACTTTGCAG	0.547													16	51					0	0	0.008871	0	0		A	95728946	A	A	95728946	3	1	4	1	0	0	0	0	1	0	0	0	11619	971	34	2	244	2	PCSK1	5	95728946	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	656306	95728946	85186314	1268	3234											
CHD1	1105	broad.mit.edu	37	chr5	98232112	98232112	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtctgtattgtttttccaaGgcccatttcatcagcgagta	8	15	8	10	2	3	0	2	0	1	0	4	1	4	0	2	1	1	3	2	1	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:98232112G>T	uc003knf.2	-	11	1676	c.1528C>A	c.(1528-1530)CTT>ATT	p.L510I		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	510	Helicase ATP-binding.|ATP (Potential).				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	GTTTTTCCAAGGCCCATTTCA	0.318													13	43					2.61681e-11	2.82339e-11	0.00245	1	0		T	98232112	T	T	98232112	3	4	4	1	0	0	0	0	1	0	0	0	3326	1000	35	5	3704	5	CHD1	5	98232112	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2503166	98232112	82683148	1269	3235											
CHD1	1105	broad.mit.edu	37	chr5	98240797	98240797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgacccagaatcatcatccGactggctataatttgaaaat	14	11	6	10	1	2	3	2	2	0	1	3	4	3	3	2	1	0	1	2	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:98240797G>A	uc003knf.2	-	2	207	c.59C>T	c.(58-60)TCG>TTG	p.S20L		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	20	Ser-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	ATCATCATCCGACTGGCTATA	0.393													22	71					0	0	0.004656	0	0		A	98240797	A	A	98240797	3	1	4	1	0	0	0	0	1	0	0	0	3326	1059	37	1	5209	1	CHD1	5	98240797	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8685	98240797	82674463	1270	3236											
ST8SIA4	7903	broad.mit.edu	37	chr5	100238558	100238558	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatttacccgatgagttgCgtctcctggtgctcctcagt	5	14	10	12	2	2	1	1	1	1	0	4	2	3	1	3	1	4	3	3	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:100238558C>T	uc003knk.2	-	1	430	c.102G>A	c.(100-102)ACG>ACA	p.T34T	ST8SIA4_uc003knl.2_Silent_p.T34T	NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	34	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		CGATGAGTTGCGTCTCCTGGT	0.413													7	21					0	0	0.001984	0	0		T	100238558	T	T	100238558	2	4	4	1	0	0	0	0	0	0	0	1	15259	755	27	1		1	ST8SIA4	5	100238558	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1997761	100238558	80676702	1271	3237											
SLCO4C1	353189	broad.mit.edu	37	chr5	101592920	101592920	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccagatgtgaacagtgcAaacttcattgtgtttttaca	12	14	7	8	0	1	2	1	1	0	1	2	2	2	2	1	0	4	2	1	0	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:101592920A>G	uc003knm.2	-	8	1655	c.1368T>C	c.(1366-1368)TTT>TTC	p.F456F		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	456	Helical; Name=9; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		TGAACAGTGCAAACTTCATTG	0.373													20	60					0	0	0.001882	0	0		G	101592920	G	G	101592920	2	3	4	1	0	0	0	0	0	0	0	1	14755	127	5	3		3	SLCO4C1	5	101592920	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1354362	101592920	79322340	1272	3238											
PAM	5066	broad.mit.edu	37	chr5	102237087	102237087	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catacttctgcatgtctatgCgaataccagtggatgaggaa	12	11	10	8	1	2	1	0	1	2	0	2	4	2	3	1	2	4	1	1	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:102237087C>T	uc003knw.2	+	3	611	c.238C>T	c.(238-240)CGA>TGA	p.R80*	PAM_uc003kns.2_Nonsense_Mutation_p.R80*|PAM_uc003knt.2_Nonsense_Mutation_p.R80*|PAM_uc003knu.2_Nonsense_Mutation_p.R80*|PAM_uc003knv.2_Nonsense_Mutation_p.R80*|PAM_uc011cuz.1_Intron	NM_000919	NP_000910	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	80	Peptidylglycine alpha-hydroxylating monooxygenase (By similarity).|Intragranular (Potential).				peptide metabolic process|protein modification process	extracellular region|integral to membrane|stored secretory granule	L-ascorbic acid binding|peptidylamidoglycolate lyase activity|peptidylglycine monooxygenase activity|protein binding				0		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	CATGTCTATGCGAATACCAGT	0.348													4	17					0	0	0.00308	0	0		T	102237087	T	T	102237087	4	4	4	1	0	0	0	0	0	1	0	0	11431	760	27	1	248	1	PAM	5	102237087	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	644167	102237087	78678173	1273	3239											
PPIP5K2	23262	broad.mit.edu	37	chr5	102474135	102474135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaggtattttacttcctcGttatgctattttgaaccgtg	8	18	8	7	2	0	2	0	2	0	0	2	2	1	2	2	1	3	3	2	1	6	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:102474135G>A	uc003kod.3	+	5	968	c.449G>A	c.(448-450)CGT>CAT	p.R150H	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.R150H|PPIP5K2_uc010jbo.1_Missense_Mutation_p.R72H	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	150					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						TTACTTCCTCGTTATGCTATT	0.363													16	45					0	0	0.004007	0	0		A	102474135	A	A	102474135	3	1	4	1	0	0	0	0	1	0	0	0	12355	1145	40	1	463	1	PPIP5K2	5	102474135	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	237048	102474135	78441125	1274	3240											
NUDT12	83594	broad.mit.edu	37	chr5	102891660	102891660	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtatgaggtattatggacGccattgagactaggacagtc	11	10	14	6	1	0	2	0	2	0	1	1	5	0	4	1	4	0	2	1	4	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:102891660G>A	uc003koi.2	-	4	1029	c.936C>T	c.(934-936)GGC>GGT	p.G312G	NUDT12_uc011cvb.1_Silent_p.G294G	NM_031438	NP_113626	Q9BQG2	NUD12_HUMAN	nudix-type motif 12	312						nucleus|peroxisome	metal ion binding|NAD+ diphosphatase activity				0		all_cancers(142;6.38e-08)|all_epithelial(76;1.99e-10)|Prostate(80;0.0138)|Lung NSC(167;0.0212)|Colorectal(57;0.0247)|all_lung(232;0.0283)|Ovarian(225;0.0423)		Epithelial(69;9.3e-13)|COAD - Colon adenocarcinoma(37;0.0221)		TATTATGGACGCCATTGAGAC	0.378													9	82					0	0	0.006214	0	0		A	102891660	A	A	102891660	2	1	4	1	0	0	0	0	0	0	0	1	10747	1074	38	1		1	NUDT12	5	102891660	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	417525	102891660	78023600	1275	3241											
APC	324	broad.mit.edu	37	chr5	112137021	112137021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggctcacatgatgctgagCggcagaatgaaggtcaagga	12	6	14	9	2	2	4	2	3	0	1	2	5	2	5	1	4	2	3	1	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:112137021C>T	uc010jby.2	+	8	1155	c.775C>T	c.(775-777)CGG>TGG	p.R259W	APC_uc011cvt.1_Missense_Mutation_p.R241W|APC_uc003kpz.3_Missense_Mutation_p.R259W|APC_uc003kpy.3_Missense_Mutation_p.R259W|APC_uc010jbz.2_5'UTR	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	259	Leu-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity			large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGATGCTGAGCGGCAGAATGA	0.363		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			13	36					0	0	0.00499	0	0		T	112137021	T	T	112137021	3	4	4	1	0	0	0	0	1	0	0	0	763	759	27	1	801	1	APC	5	112137021	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	9245361	112137021	68778239	1276	3242											
REEP5	7905	broad.mit.edu	37	chr5	112257795	112257795	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgatgaagctcctgttcacGccggttttggcctcgagctt	5	12	12	12	4	1	1	1	1	0	0	3	3	2	1	3	2	2	4	3	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:112257795G>A	uc003kqe.1	-	1	237	c.93C>T	c.(91-93)GGC>GGT	p.G31G	REEP5_uc011cvw.1_5'Flank|REEP5_uc011cvx.1_RNA|REEP5_uc011cvy.1_Silent_p.G31G|REEP5_uc011cvz.1_RNA	NM_005669	NP_005660	Q00765	REEP5_HUMAN	receptor accessory protein 5	31						integral to membrane	protein binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		Epithelial(69;1.3e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.26e-08)|all cancers(49;3.56e-07)|Colorectal(14;0.00778)|COAD - Colon adenocarcinoma(37;0.013)		TCCTGTTCACGCCGGTTTTGG	0.662													4	13					0	0	0.000602	0	0		A	112257795	A	A	112257795	2	1	4	1	0	0	0	0	0	0	0	1	13233	1074	38	1		1	REEP5	5	112257795	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	120774	112257795	68657465	1277	3243											
AQPEP	206338	broad.mit.edu	37	chr5	115338603	115338603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttagtctggctagatcaaaGcagcagtaagtaacaaattt	15	12	8	6	0	2	1	1	0	1	1	2	1	2	1	0	1	3	5	0	1	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:115338603G>A	uc003kro.2	+	11	2056	c.1892G>A	c.(1891-1893)AGC>AAC	p.S631N	AQPEP_uc003krp.2_RNA|AQPEP_uc003krq.2_RNA|AQPEP_uc003krr.2_RNA|AQPEP_uc003krs.2_RNA	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	631	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						CTAGATCAAAGCAGCAGTAAG	0.294													6	24					0	0	0.001168	0	0		A	115338603	A	A	115338603	3	1	4	1	0	0	0	0	1	0	0	0	834	971	34	2	1934	2	AQPEP	5	115338603	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3080808	115338603	65576657	1278	3244											
SEMA6A	57556	broad.mit.edu	37	chr5	115783256	115783256	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcctccggctttgggtCtttggattgagtgtccccaa	5	13	13	10	1	1	1	0	1	1	0	3	3	3	2	4	4	0	1	4	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:115783256C>A	uc010jck.2	-	19	2855	c.2146G>T	c.(2146-2148)GAC>TAC	p.D716Y	SEMA6A_uc003krx.3_Missense_Mutation_p.D733Y|SEMA6A_uc011cwe.1_Missense_Mutation_p.D95Y|SEMA6A_uc003krv.3_Missense_Mutation_p.D143Y|SEMA6A_uc003krw.3_Missense_Mutation_p.D193Y|SEMA6A_uc010jcj.2_Missense_Mutation_p.D260Y	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	716	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		GGCTTTGGGTCTTTGGATTGA	0.612													21	73					7.45023e-12	8.05501e-12	0.010504	1	0		A	115783256	A	A	115783256	3	1	4	1	0	0	0	0	1	0	0	0	14064	913	32	5	950	5	SEMA6A	5	115783256	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	444653	115783256	65132004	1279	3245											
FTMT	94033	broad.mit.edu	37	chr5	121188112	121188112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaagaagccggaacaggacGactgggaaagcgggctgcat	13	4	15	9	3	1	1	1	0	0	1	1	5	1	4	1	4	4	2	1	4	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:121188112G>A	uc003kss.2	+	1	463	c.454G>A	c.(454-456)GAC>AAC	p.D152N		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	152	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		GGAACAGGACGACTGGGAAAG	0.587													16	57					0	0	0.006122	0	0		A	121188112	A	A	121188112	3	1	4	1	0	0	0	0	1	0	0	0	6099	1058	37	1	456	1	FTMT	5	121188112	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5404856	121188112	59727148	1280	3246											
SNCAIP	9627	broad.mit.edu	37	chr5	121761189	121761189	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agactgcctcaatgagcgcaAcactgagaagttgactccag	13	7	10	11	1	1	4	1	3	0	2	2	5	2	4	2	0	3	2	2	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:121761189A>C	uc003ksw.1	+	5	1351	c.1145A>C	c.(1144-1146)AAC>ACC	p.N382T	SNCAIP_uc011cwl.1_Intron|SNCAIP_uc010jct.2_Missense_Mutation_p.N382T|SNCAIP_uc003ksx.1_Missense_Mutation_p.N429T|SNCAIP_uc003ksy.1_Intron|SNCAIP_uc003ksz.1_Intron|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Intron|SNCAIP_uc003kta.1_Intron|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.N76T|SNCAIP_uc010jcx.1_Intron	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	382					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		AATGAGCGCAACACTGAGAAG	0.483													18	70					0	0	0.010504	0	0		C	121761189	C	C	121761189	3	2	4	1	0	0	0	0	1	0	0	0	14866	43	2	5	1159	5	SNCAIP	5	121761189	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	573077	121761189	59154071	1281	3247											
CSNK1G3	1456	broad.mit.edu	37	chr5	122950080	122950080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaggaaaaccatacagcGccacaaatgactctggacac	18	4	8	11	1	1	1	0	1	1	0	1	4	1	3	2	2	3	0	2	2	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:122950080G>A	uc003ktm.2	+	13	2053	c.1334G>A	c.(1333-1335)CGC>CAC	p.R445H	CSNK1G3_uc003ktl.2_Missense_Mutation_p.R453H|CSNK1G3_uc003ktn.2_Missense_Mutation_p.R421H|CSNK1G3_uc003kto.2_Missense_Mutation_p.R413H|CSNK1G3_uc011cwr.1_Missense_Mutation_p.R346H|CSNK1G3_uc011cws.1_Missense_Mutation_p.R309H|CSNK1G3_uc010jda.2_Missense_Mutation_p.R422H	NM_004384	NP_004375	Q9Y6M4	KC1G3_HUMAN	casein kinase 1, gamma 3 isoform 1	445					Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0		all_cancers(142;0.0156)|Prostate(80;0.0322)|Lung NSC(810;0.245)	KIRC - Kidney renal clear cell carcinoma(527;0.165)|Kidney(363;0.229)	OV - Ovarian serous cystadenocarcinoma(64;0.000121)|Epithelial(69;0.000227)|all cancers(49;0.00176)		ACCATACAGCGCCACAAATGA	0.383													18	70					0	0	0.001882	0	0		A	122950080	A	A	122950080	3	1	4	1	0	0	0	0	1	0	0	0	3959	1087	38	1	1408	1	CSNK1G3	5	122950080	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1188891	122950080	57965180	1282	3248											
ZNF608	57507	broad.mit.edu	37	chr5	123984239	123984239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cataagcagatacacttgtgCttggctcactgcattcaagt	11	12	8	10	0	2	1	2	0	0	1	2	1	2	1	0	1	4	4	0	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:123984239C>T	uc003ktq.1	-	4	1961	c.1838G>A	c.(1837-1839)AGC>AAC	p.S613N	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Missense_Mutation_p.S613N|ZNF608_uc003ktt.1_Missense_Mutation_p.S613N	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	613						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		TACACTTGTGCTTGGCTCACT	0.522													10	53					0	0	0.006214	0	0		T	123984239	T	T	123984239	3	4	4	1	0	0	0	0	1	0	0	0	18059	797	28	2	2724	2	ZNF608	5	123984239	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1034159	123984239	56931021	1283	3249											
C5orf48	389320	broad.mit.edu	37	chr5	125971793	125971793	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgaatcacagtgaaaggCtttgccatggggaagatcgt	11	12	12	6	1	1	3	1	2	0	1	2	4	1	4	1	3	1	1	1	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:125971793C>T	uc003kub.1	+	3	278	c.265C>T	c.(265-267)CTT>TTT	p.L89F		NM_207408	NP_997291	Q6ZNM6	CE048_HUMAN	hypothetical protein LOC389320	89										ovary(1)	1						CAGTGAAAGGCTTTGCCATGG	0.423													7	167					0	0	0.004482	0	0		T	125971793	T	T	125971793	3	4	4	1	0	0	0	0	1	0	0	0	2309	797	28	2	275	2	C5orf48	5	125971793	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1987554	125971793	54943467	1284	3250											
MEGF10	84466	broad.mit.edu	37	chr5	126755870	126755870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgtgtgcacctggatggCgcggggagaaatgcgaactt	9	7	16	9	4	0	1	0	0	0	1	0	4	0	2	1	4	3	2	1	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:126755870C>T	uc003kuh.3	+	13	1923	c.1561C>T	c.(1561-1563)CGC>TGC	p.R521C	MEGF10_uc010jdc.1_Missense_Mutation_p.R521C|MEGF10_uc010jdd.1_Missense_Mutation_p.R521C|MEGF10_uc003kui.3_Missense_Mutation_p.R521C	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	521	Extracellular (Potential).|EGF-like 9.|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		ACCTGGATGGCGCGGGGAGAA	0.557													13	25					0	0	0.003163	0	0		T	126755870	T	T	126755870	3	4	4	1	0	0	0	0	1	0	0	0	9478	768	27	1	1603	1	MEGF10	5	126755870	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	784077	126755870	54159390	1285	3251											
FBN2	2201	broad.mit.edu	37	chr5	127668686	127668686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atattcagacatgaggcatgCatgtcgcagttatgagcacc	12	10	10	9	1	1	3	1	2	0	1	2	3	1	3	1	1	2	5	1	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:127668686C>T	uc003kuu.2	-	32	4579	c.4140G>A	c.(4138-4140)ATG>ATA	p.M1380I	FBN2_uc003kuv.2_Missense_Mutation_p.M1347I	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1380	EGF-like 22; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		ATGAGGCATGCATGTCGCAGT	0.383													11	117					0	0	0.000978	0	0		T	127668686	T	T	127668686	3	4	4	1	0	0	0	0	1	0	0	0	5717	710	25	2	4734	2	FBN2	5	127668686	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	912816	127668686	53246574	1286	3252											
FBN2	2201	broad.mit.edu	37	chr5	127685073	127685073	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagtcccatccaacgtaagGccttcagggcactcgcaatg	10	7	9	15	2	1	0	1	0	0	0	4	0	3	0	4	2	1	3	4	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:127685073G>A	uc003kuu.2	-	23	3394	c.2955C>T	c.(2953-2955)GGC>GGT	p.G985G	FBN2_uc003kuv.2_Silent_p.G952G	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	985	EGF-like 14; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		CCAACGTAAGGCCTTCAGGGC	0.458													14	41					0	0	0.00245	0	0		A	127685073	A	A	127685073	2	1	4	1	0	0	0	0	0	0	0	1	5717	1190	42	2		2	FBN2	5	127685073	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	16387	127685073	53230187	1287	3253											
RAPGEF6	51735	broad.mit.edu	37	chr5	130764881	130764881	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggctccctatacctatcGtccttcttgggtgaggtgac	5	13	12	11	1	1	2	0	2	1	0	4	2	3	2	3	4	1	1	3	4	3	5	rs144023710		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:130764881G>A	uc003kvn.1	-	27	4700	c.4494C>T	c.(4492-4494)GAC>GAT	p.D1498D	RAPGEF6_uc003kvp.1_Silent_p.D1548D|RAPGEF6_uc003kvo.1_Intron|RAPGEF6_uc010jdi.1_Silent_p.D1506D|RAPGEF6_uc010jdj.1_Intron|RAPGEF6_uc003kvm.1_Silent_p.D421D	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	1498					Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		TATACCTATCGTCCTTCTTGG	0.433													11	74					0	0	0.000978	0	0		A	130764881	A	A	130764881	2	1	4	1	0	0	0	0	0	0	0	1	13073	1136	40	1		1	RAPGEF6	5	130764881	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3079808	130764881	50150379	1288	3254											
P4HA2	8974	broad.mit.edu	37	chr5	131534590	131534590	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accctagagaagtcgaagtgCggttcatactgtcctcccac	10	9	9	13	2	1	1	1	0	0	1	4	3	3	1	3	1	2	1	3	1	4	3	rs141851075		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:131534590C>T	uc003kwh.2	-	11	1851	c.1287G>A	c.(1285-1287)CCG>CCA	p.P429P	P4HA2_uc003kwg.2_Silent_p.P429P|P4HA2_uc003kwi.2_Silent_p.P429P|P4HA2_uc003kwk.2_Silent_p.P429P|P4HA2_uc003kwl.2_Silent_p.P429P|P4HA2_uc003kwj.2_Silent_p.P429P	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	429	Fe2OG dioxygenase.					endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	AGTCGAAGTGCGGTTCATACT	0.483													8	36					0	0	0.006214	0	0		T	131534590	T	T	131534590	2	4	4	1	0	0	0	0	0	0	0	1	11376	755	27	1		1	P4HA2	5	131534590	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	769709	131534590	49380670	1289	3255											
SLC22A4	6583	broad.mit.edu	37	chr5	131647916	131647916	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccctgttcttcgtaggCgtgctcctcggctccttcgt	2	14	9	16	4	1	0	0	0	1	0	7	0	4	0	4	2	1	4	4	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:131647916C>T	uc003kwq.2	+	2	621	c.456C>T	c.(454-456)GGC>GGT	p.G152G	SLC22A4_uc010jdq.1_RNA|uc003kwr.3_RNA	NM_003059	NP_003050	Q9H015	S22A4_HUMAN	solute carrier family 22 member 4	152	Helical; Name=2; (Potential).				body fluid secretion|sodium ion transport	apical plasma membrane|integral to plasma membrane|mitochondrion	ATP binding|carnitine transporter activity|cation:cation antiporter activity|PDZ domain binding|secondary active organic cation transmembrane transporter activity|symporter activity				0		all_cancers(142;0.0752)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Carnitine(DB00583)	TCTTCGTAGGCGTGCTCCTCG	0.587													10	114					0	0	0.006214	0	0		T	131647916	T	T	131647916	2	4	4	1	0	0	0	0	0	0	0	1	14481	755	27	1		1	SLC22A4	5	131647916	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	113326	131647916	49267344	1290	3256											
KIF3A	11127	broad.mit.edu	37	chr5	132052617	132052617	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcactgcattctatagtaaTtgtaaagatggcatgggaac	13	13	9	6	0	2	1	1	0	1	1	2	2	2	2	0	2	2	4	0	2	6	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:132052617T>A	uc003kxo.2	-	6	830	c.676A>T	c.(676-678)ATT>TTT	p.I226F	KIF3A_uc003kxn.2_Missense_Mutation_p.I185F|KIF3A_uc011cxf.1_Missense_Mutation_p.I226F|KIF3A_uc003kxp.2_Missense_Mutation_p.I226F	NM_007054	NP_008985	Q9Y496	KIF3A_HUMAN	kinesin family member 3A	226	Kinesin-motor.				blood coagulation|organelle organization|plus-end-directed vesicle transport along microtubule	centrosome|cytosol|kinesin II complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|protein binding			pancreas(1)	1		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCTATAGTAATTGTAAAGATG	0.383													38	97					0	0	0.004878	0	0		A	132052617	A	A	132052617	3	1	4	1	0	0	0	0	1	0	0	0	8316	1493	52	5	1471	5	KIF3A	5	132052617	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	404701	132052617	48862643	1291	3257											
CCNI2	645121	broad.mit.edu	37	chr5	132086668	132086668	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggacctctatattgggacGccgctggacttcttgactat	7	13	11	10	2	2	1	0	1	2	0	2	4	2	4	2	3	0	1	2	3	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:132086668G>A	uc003kxq.1	+	4	804	c.753G>A	c.(751-753)ACG>ACA	p.T251T	CCNI2_uc011cxg.1_Silent_p.T251T|CCNI2_uc011cxh.1_Silent_p.T252T|SEPT8_uc003kxr.2_3'UTR	NM_001039780	NP_001034869	Q6ZMN8	CCNI2_HUMAN	cyclin I family, member 2	251					regulation of cyclin-dependent protein kinase activity		protein kinase binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ATATTGGGACGCCGCTGGACT	0.488													16	88					0	0	0.001882	0	0		A	132086668	A	A	132086668	2	1	4	1	0	0	0	0	0	0	0	1	2930	1074	38	1		1	CCNI2	5	132086668	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	34051	132086668	48828592	1292	3258											
PPP2CA	5515	broad.mit.edu	37	chr5	133537696	133537696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccctcgaagaatggtgatgCgttcacggtaacgaacctaa	12	9	10	10	4	1	2	1	1	0	1	3	4	2	2	2	2	3	2	2	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:133537696C>T	uc003kze.2	-	3	727	c.329G>A	c.(328-330)CGC>CAC	p.R110H		NM_002715	NP_002706	P67775	PP2AA_HUMAN	protein phosphatase 2, catalytic subunit, alpha	110					ceramide metabolic process|inactivation of MAPK activity|induction of apoptosis|meiosis|negative regulation of cell growth|negative regulation of epithelial to mesenchymal transition|negative regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of protein serine/threonine kinase activity|protein dephosphorylation|regulation of cell adhesion|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction|spindle pole	metal ion binding|phosphoprotein phosphatase activity			ovary(2)|lung(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Vitamin E(DB00163)	AATGGTGATGCGTTCACGGTA	0.323													17	63					0	0	0.007413	0	0		T	133537696	T	T	133537696	3	4	4	1	0	0	0	0	1	0	0	0	12402	768	27	1	620	1	PPP2CA	5	133537696	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1451028	133537696	47377564	1293	3259											
C5orf20	140947	broad.mit.edu	37	chr5	134782488	134782488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgggtccctgagggcctcGcagatgcttcactcgaaaga	8	8	12	13	2	1	3	1	1	0	2	4	4	2	3	3	2	1	2	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:134782488G>A	uc003lav.2	-	1	551	c.311C>T	c.(310-312)GCG>GTG	p.A104V		NM_130848	NP_570900	Q8TF63	DCNP1_HUMAN	dendritic cell nuclear protein 1	104						nucleus					0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TGAGGGCCTCGCAGATGCTTC	0.572													27	73					0	0	0.007291	0	0		A	134782488	A	A	134782488	3	1	4	1	0	0	0	0	1	0	0	0	2287	1087	38	1	427	1	C5orf20	5	134782488	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1244792	134782488	46132772	1294	3260											
LOC153328	153328	broad.mit.edu	37	chr5	135188321	135188321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctacaactccgtggtgtttGgggtcttcagtaacacgcag	8	12	11	10	2	3	0	1	0	2	0	4	0	4	0	1	3	3	3	1	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:135188321G>A	uc003laz.1	+	4	404	c.232G>A	c.(232-234)GGG>AGG	p.G78R	LOC153328_uc003lba.2_Missense_Mutation_p.G78R			Q6ZT89	S2548_HUMAN	RecName: Full=Putative mitochondrial carrier protein FLJ44862;	78	Solcar 1.|Helical; Name=2; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CGTGGTGTTTGGGGTCTTCAG	0.607													4	93					0	0	0.000602	0	0		A	135188321	A	A	135188321	3	1	4	1	0	0	0	0	1	0	0	0	8888	1348	47	4	246	4	LOC153328	5	135188321	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	405833	135188321	45726939	1295	3261											
TRPC7	57113	broad.mit.edu	37	chr5	135551934	135551934	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacctgggctttcaggacGtatctttttatgagccgttt	6	16	9	10	2	2	1	1	1	1	0	3	2	3	2	3	2	1	3	3	2	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:135551934G>A	uc003lbn.1	-	10	2373	c.2370C>T	c.(2368-2370)TAC>TAT	p.Y790Y	TRPC7_uc010jef.1_Silent_p.Y727Y|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Silent_p.Y721Y|TRPC7_uc010jei.1_Silent_p.Y666Y|TRPC7_uc010jej.1_Silent_p.Y342Y	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	791	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CTTTCAGGACGTATCTTTTTA	0.468													4	22					0	0	0.009096	0	0		A	135551934	A	A	135551934	2	1	4	1	0	0	0	0	0	0	0	1	16610	1140	40	1		1	TRPC7	5	135551934	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	363613	135551934	45363326	1296	3262											
NME5	8382	broad.mit.edu	37	chr5	137454523	137454523	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaccaaaggatctgctggtTtttgcttacaaagctctgtg	9	15	9	8	0	2	0	0	0	2	0	2	1	2	1	1	2	5	4	1	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:137454523T>G	uc003lce.2	-	5	617	c.539A>C	c.(538-540)AAA>ACA	p.K180T	BRD8_uc003lcc.1_Intron	NM_003551	NP_003542	P56597	NDK5_HUMAN	non-metastatic cells 5, protein expressed in	180					anti-apoptosis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatid development|UTP biosynthetic process		ATP binding|nucleoside diphosphate kinase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			ATCTGCTGGTTTTTGCTTACA	0.269													5	43					0	0	0.001168	0	0		G	137454523	G	G	137454523	3	3	4	1	0	0	0	0	1	0	0	0	10513	1841	64	5	107	5	NME5	5	137454523	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1902589	137454523	43460737	1297	3263											
CDC23	8697	broad.mit.edu	37	chr5	137527970	137527970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggcttaccgaagctggtggGcccgtctataataataaagg	12	9	12	8	2	1	0	0	0	1	0	1	1	1	0	2	4	2	2	2	4	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:137527970G>A	uc003lcl.2	-	11	1305	c.1274C>T	c.(1273-1275)GCC>GTC	p.A425V		NM_004661	NP_004652	Q9UJX2	CDC23_HUMAN	cell division cycle protein 23	425	TPR 7.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1 phase of mitotic cell cycle|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase plate congression|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of exit from mitosis	anaphase-promoting complex|cytosol|nucleoplasm	binding|ubiquitin-protein ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			AAGCTGGTGGGCCCGTCTATA	0.433													20	46					0	0	0.001882	0	0		A	137527970	A	A	137527970	3	1	4	1	0	0	0	0	1	0	0	0	3064	1203	42	2	543	2	CDC23	5	137527970	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	73447	137527970	43387290	1298	3264											
CDC25C	995	broad.mit.edu	37	chr5	137621809	137621809	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagacctgtcctcttcacGcagacagcggcacctttaga	10	8	9	14	2	2	3	1	0	1	3	3	4	3	3	3	1	1	2	3	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:137621809G>A	uc003lcp.1	-	13	1445	c.1174C>T	c.(1174-1176)CGT>TGT	p.R392C	CDC25C_uc003lcq.1_Missense_Mutation_p.R319C|CDC25C_uc003lcr.1_Missense_Mutation_p.R392C|CDC25C_uc011cyp.1_Missense_Mutation_p.R409C|CDC25C_uc003lcs.1_Missense_Mutation_p.R470C	NM_001790	NP_001781	P30307	MPIP3_HUMAN	cell division cycle 25C isoform a	392	Rhodanese.				cell cycle checkpoint|cell division|cell proliferation|DNA replication|G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm	protein tyrosine phosphatase activity|WW domain binding			lung(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			TCCTCTTCACGCAGACAGCGG	0.517													16	74					0	0	0.006122	0	0		A	137621809	A	A	137621809	3	1	4	1	0	0	0	0	1	0	0	0	3067	1087	38	1	255	1	CDC25C	5	137621809	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	93839	137621809	43293451	1299	3265											
REEP2	51308	broad.mit.edu	37	chr5	137776765	137776765	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggccgtgaagacaaaaaaCgtgaaggaatatgtgagtgg	17	6	14	4	2	0	4	0	3	0	1	0	5	0	5	1	3	1	0	1	3	8	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:137776765C>T	uc003lcz.2	+	2	215	c.93C>T	c.(91-93)AAC>AAT	p.N31N	REEP2_uc003lda.2_Silent_p.N31N|REEP2_uc011cyt.1_Translation_Start_Site	NM_016606	NP_057690	Q9BRK0	REEP2_HUMAN	receptor accessory protein 2	31						integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			AGACAAAAAACGTGAAGGAAT	0.547													15	44					0	0	0.006122	0	0		T	137776765	T	T	137776765	2	4	4	1	0	0	0	0	0	0	0	1	13230	535	19	1		1	REEP2	5	137776765	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	154956	137776765	43138495	1300	3266											
ETF1	2107	broad.mit.edu	37	chr5	137848611	137848611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgcttttccattcttaaacGggcaaaacgcaaggctgact	11	11	8	11	3	1	1	0	1	1	0	3	1	2	1	1	2	2	4	1	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:137848611G>A	uc003ldc.3	-	6	739	c.574C>T	c.(574-576)CGT>TGT	p.R192C	ETF1_uc011cyv.1_Missense_Mutation_p.R178C|ETF1_uc010jex.2_RNA|ETF1_uc003ldd.3_Missense_Mutation_p.R159C|ETF1_uc010jey.1_5'UTR	NM_004730	NP_004721	P62495	ERF1_HUMAN	eukaryotic translation termination factor 1	192					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation|regulation of translational termination	cytoplasm	protein binding|ribosome binding|translation release factor activity, codon specific			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ATTCTTAAACGGGCAAAACGC	0.403													23	61					0	0	0.00333	0	0		A	137848611	A	A	137848611	3	1	4	1	0	0	0	0	1	0	0	0	5276	1116	39	1	763	1	ETF1	5	137848611	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	71846	137848611	43066649	1301	3267											
CXXC5	51523	broad.mit.edu	37	chr5	139060723	139060723	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgaagccctcaatggccaGtccgacttcccctacctggg	7	7	10	17	2	1	0	1	0	0	0	3	2	3	0	7	2	2	0	7	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:139060723G>A	uc010jfg.1	+	2	905	c.615G>A	c.(613-615)CAG>CAA	p.Q205Q	CXXC5_uc003let.2_Silent_p.Q205Q	NM_016463	NP_057547	Q7LFL8	CXXC5_HUMAN	CXXC finger 5	205					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|nucleus	DNA binding|signal transducer activity|zinc ion binding			central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAATGGCCAGTCCGACTTCC	0.652													8	22					0	0	0.00308	0	0		A	139060723	A	A	139060723	2	1	4	1	0	0	0	0	0	0	0	1	4102	1020	36	4		4	CXXC5	5	139060723	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1212112	139060723	41854537	1302	3268											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139908009	139908009	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacgttatctacgttccaGcccgctaataaacttaataa	15	11	4	11	3	1	0	0	0	1	0	2	0	2	0	2	0	4	3	2	0	8	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:139908009G>A	uc003lfs.1	+	29	5602	c.5478G>A	c.(5476-5478)CAG>CAA	p.Q1826Q	ANKHD1_uc003lfr.2_Silent_p.Q1826Q|ANKHD1-EIF4EBP3_uc011czh.1_Silent_p.Q565Q|ANKHD1_uc003lfw.2_Silent_p.Q464Q|ANKHD1_uc010jfl.2_Silent_p.Q261Q|ANKHD1-EIF4EBP3_uc003lfx.1_5'UTR	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1826						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTACGTTCCAGCCCGCTAATA	0.438													4	152					0	0	0.000602	0	0		A	139908009	A	A	139908009	2	1	4	1	0	0	0	0	0	0	0	1	629	962	34	2		2	ANKHD1-EIF4EBP3	5	139908009	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	847286	139908009	41007251	1303	3269											
SRA1	10011	broad.mit.edu	37	chr5	139930355	139930355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgcagatttctcttcattgGctgcctcctctgaaaacaga	9	13	7	12	0	3	3	1	1	2	2	5	3	4	3	2	1	3	2	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:139930355G>A	uc003lga.2	-	5	1247	c.641C>T	c.(640-642)GCC>GTC	p.A214V	SRA1_uc003lfz.2_Missense_Mutation_p.A140V|SRA1_uc010jfm.2_Missense_Mutation_p.A140V	NM_001035235	NP_001030312	Q9HD15	SRA1_HUMAN	steroid receptor RNA activator 1	214					apoptosis|cell differentiation|cell proliferation|transcription, DNA-dependent	cytoplasm|ribonucleoprotein complex	receptor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCTTCATTGGCTGCCTCCTC	0.498													8	64					0	0	0.004482	0	0		A	139930355	A	A	139930355	3	1	4	1	0	0	0	0	1	0	0	0	15157	1203	42	2	73	2	SRA1	5	139930355	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	22346	139930355	40984905	1304	3270											
ZMAT2	153527	broad.mit.edu	37	chr5	140085213	140085213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggaggaaaaggccaaaGcgtacaagaaagagaaacag	20	2	12	7	1	0	2	0	0	0	2	1	5	1	4	2	3	3	1	2	3	7	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140085213G>A	uc003lgy.1	+	6	486	c.472G>A	c.(472-474)GCG>ACG	p.A158T		NM_144723	NP_653324	Q96NC0	ZMAT2_HUMAN	zinc finger, matrin type 2	158						nucleus	DNA binding|zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			aaaggccaaagcgtacaagaa	0.244													6	20					0	0	0.00308	0	0		A	140085213	A	A	140085213	3	1	4	1	0	0	0	0	1	0	0	0	17717	971	34	2	494	2	ZMAT2	5	140085213	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	154858	140085213	40830047	1305	3271											
PCDHA1	56147	broad.mit.edu	37	chr5	140166015	140166015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacggcaccttcgttggccGcgttgctcaggacctgggac	6	8	13	14	4	1	0	1	0	0	0	2	2	1	2	3	4	1	4	3	4	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140166015G>A	uc003lhb.2	+	1	140	c.140G>A	c.(139-141)CGC>CAC	p.R47H	PCDHA1_uc003lha.2_Missense_Mutation_p.R47H|PCDHA1_uc003lgz.2_Missense_Mutation_p.R47H	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	47	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCGTTGGCCGCGTTGCTCAG	0.632													4	52					0	0	0.000602	0	0		A	140166015	A	A	140166015	3	1	4	1	0	0	0	0	1	0	0	0	11538	1087	38	1	142	1	PCDHA1	5	140166015	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	80802	140166015	40749245	1306	3272											
PCDHA1	56147	broad.mit.edu	37	chr5	140167729	140167729	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccggcagcaggcggcgcGcgcatcccgttccgcgtggg	4	4	17	16	8	0	0	0	0	0	0	2	0	2	0	3	4	2	4	3	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140167729G>A	uc003lhb.2	+	1	1854	c.1854G>A	c.(1852-1854)GCG>GCA	p.A618A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Silent_p.A618A	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	618	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGCGGCGCGCGCATCCCGT	0.667													21	25					0	0	0.00278	0	0		A	140167729	A	A	140167729	2	1	4	1	0	0	0	0	0	0	0	1	11538	1074	38	1		1	PCDHA1	5	140167729	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1714	140167729	40747531	1307	3273											
PCDHA2	56146	broad.mit.edu	37	chr5	140175845	140175845	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgcacgggacgggggctcGccttcactgtgggccaccac	6	5	14	16	4	1	0	1	0	0	0	2	1	1	1	4	4	0	2	4	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140175845G>A	uc003lhd.2	+	1	1402	c.1296G>A	c.(1294-1296)TCG>TCA	p.S432S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.S432S|PCDHA2_uc011czy.1_Silent_p.S432S	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	432	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGGGGGCTCGCCTTCACTGT	0.627													14	46					0	0	0.001855	0	0		A	140175845	A	A	140175845	2	1	4	1	0	0	0	0	0	0	0	1	11543	1074	38	1		1	PCDHA2	5	140175845	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8116	140175845	40739415	1308	3274											
PCDHA4	56144	broad.mit.edu	37	chr5	140188422	140188422	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctgggcagcaacgtgacGctgcaggtgttcgtgctgga	6	9	15	11	3	1	1	0	1	1	0	2	2	1	2	1	3	4	6	1	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140188422G>A	uc003lhi.2	+	1	1751	c.1650G>A	c.(1648-1650)ACG>ACA	p.T550T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.T550T|PCDHA4_uc011daa.1_Silent_p.T550T	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	550	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAACGTGACGCTGCAGGTGT	0.662													5	47					0	0	0.000602	0	0		A	140188422	A	A	140188422	2	1	4	1	0	0	0	0	0	0	0	1	11545	1074	38	1		1	PCDHA4	5	140188422	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12577	140188422	40726838	1309	3275											
PCDHA5	56143	broad.mit.edu	37	chr5	140201540	140201540	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctggcggagctggtgccGcgcctgttccgggtggcgtc	2	8	19	12	5	0	0	0	0	0	0	2	2	1	1	3	5	3	3	3	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140201540G>A	uc003lhl.2	+	1	180	c.180G>A	c.(178-180)CCG>CCA	p.P60P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.P60P|PCDHA5_uc003lhj.1_Silent_p.P60P	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	60	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding	p.Q49fs*50(1)		ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCTGGTGCCGCGCCTGTTCC	0.632													14	42					0	0	0.008871	0	0		A	140201540	A	A	140201540	2	1	4	1	0	0	0	0	0	0	0	1	11546	1074	38	1		1	PCDHA5	5	140201540	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	13118	140201540	40713720	1310	3276											
PCDHA8	56140	broad.mit.edu	37	chr5	140222549	140222549	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgccgcctctgggcagcaAcgtgacgctgcaggtgttcg	5	8	15	13	5	1	1	0	1	1	0	2	1	1	1	2	2	4	5	2	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140222549A>G	uc003lhs.2	+	1	1643	c.1643A>G	c.(1642-1644)AAC>AGC	p.N548S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.N548S	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	548	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGGCAGCAACGTGACGCTG	0.687													16	53					0	0	0.002299	0	0		G	140222549	G	G	140222549	3	3	4	1	0	0	0	0	1	0	0	0	11549	43	2	3	1645	3	PCDHA8	5	140222549	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	21009	140222549	40692711	1311	3277											
PCDHA10	56139	broad.mit.edu	37	chr5	140237080	140237080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgcgtgggacgcggacGcgcaggagaacgccctggtg	6	6	18	11	6	1	1	0	0	1	1	1	4	1	3	1	4	2	1	1	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140237080G>A	uc003lhx.2	+	1	1447	c.1447G>A	c.(1447-1449)GCG>ACG	p.A483T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Missense_Mutation_p.A483T|PCDHA10_uc011dad.1_Missense_Mutation_p.A483T	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	483	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACGCGGACGCGCAGGAGAA	0.662													19	44					0	0	0.00278	0	0		A	140237080	A	A	140237080	3	1	4	1	0	0	0	0	1	0	0	0	11539	1087	38	1	1449	1	PCDHA10	5	140237080	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	14531	140237080	40678180	1312	3278											
PCDHA10	56139	broad.mit.edu	37	chr5	140237425	140237425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaaggtgcgcgcagtggacGctgactctggatacaacgcg	9	7	14	11	5	1	1	0	1	1	0	1	3	1	3	0	3	3	2	0	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140237425G>A	uc003lhx.2	+	1	1792	c.1792G>A	c.(1792-1794)GCT>ACT	p.A598T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc011dad.1_Missense_Mutation_p.A598T	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	598	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCAGTGGACGCTGACTCTGG	0.662													8	31					0	0	0.000978	0	0		A	140237425	A	A	140237425	3	1	4	1	0	0	0	0	1	0	0	0	11539	1087	38	1	1794	1	PCDHA10	5	140237425	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	345	140237425	40677835	1313	3279											
PCDHA11	56138	broad.mit.edu	37	chr5	140250178	140250178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctactcgctggtggagcggcGgttgggcgaccgcgcgctgt	3	8	18	12	7	0	0	0	0	0	0	1	2	0	1	1	5	2	3	1	5	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140250178G>A	uc003lia.2	+	1	2348	c.1490G>A	c.(1489-1491)CGG>CAG	p.R497Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.R497Q	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	497	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGAGCGGCGGTTGGGCGAC	0.672													21	31					0	0	0.00333	0	0		A	140250178	A	A	140250178	3	1	4	1	0	0	0	0	1	0	0	0	11540	1116	39	1	1492	1	PCDHA11	5	140250178	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12753	140250178	40665082	1314	3280											
PCDHA12	56137	broad.mit.edu	37	chr5	140256328	140256328	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtcggcctatgagctggTggtgactgcgcgggatgggg	4	9	20	8	4	0	2	0	2	0	0	1	3	0	3	1	6	2	1	1	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140256328T>C	uc003lic.2	+	1	1398	c.1271T>C	c.(1270-1272)GTG>GCG	p.V424A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.V424A	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	424	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TATGAGCTGGTGGTGACTGCG	0.632													6	151					0	0	0.00308	0	0		C	140256328	C	C	140256328	3	2	4	1	0	0	0	0	1	0	0	0	11541	1696	59	3	1273	3	PCDHA12	5	140256328	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	6150	140256328	40658932	1315	3281											
PCDHA12	56137	broad.mit.edu	37	chr5	140256730	140256730	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtgttcgtgctggacgAgaacgacaacgcgccggcac	9	5	15	12	6	0	1	0	0	0	1	1	4	0	2	1	3	3	4	1	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140256730A>T	uc003lic.2	+	1	1800	c.1673A>T	c.(1672-1674)GAG>GTG	p.E558V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.E558V	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	558	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCTGGACGAGAACGACAAC	0.701													17	64					0	0	0.010504	0	0		T	140256730	T	T	140256730	3	4	4	1	0	0	0	0	1	0	0	0	11541	304	11	5	1675	5	PCDHA12	5	140256730	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	402	140256730	40658530	1316	3282											
PCDHA13	56136	broad.mit.edu	37	chr5	140261998	140261998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaccttcgtgggccgcatcGctcaggacctggggctggag	5	7	16	13	3	1	0	1	0	0	0	3	2	1	2	3	5	0	4	3	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140261998G>A	uc003lif.2	+	1	145	c.145G>A	c.(145-147)GCT>ACT	p.A49T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.A49T|PCDHA13_uc003lid.2_Missense_Mutation_p.A49T	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	49	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCCGCATCGCTCAGGACCT	0.642													6	40					0	0	0.006214	0	0		A	140261998	A	A	140261998	3	1	4	1	0	0	0	0	1	0	0	0	11542	1087	38	1	147	1	PCDHA13	5	140261998	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5268	140261998	40653262	1317	3283											
PCDHAC1	56135	broad.mit.edu	37	chr5	140307066	140307066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggatcgcgaacagcgcGccacccacctgctggtgctt	7	7	11	16	4	0	0	0	0	0	0	1	2	0	1	3	2	4	2	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140307066G>A	uc003lih.2	+	1	765	c.589G>A	c.(589-591)GCC>ACC	p.A197T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.A197T	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	197	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAACAGCGCGCCACCCACCT	0.607													8	20					0	0	0.00308	0	0		A	140307066	A	A	140307066	3	1	4	1	0	0	0	0	1	0	0	0	11551	1087	38	1	591	1	PCDHAC1	5	140307066	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	45068	140307066	40608194	1318	3284											
PCDHAC1	56135	broad.mit.edu	37	chr5	140307389	140307389	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcactaggtccgcctgaaacGctcttggaggcatacattga	10	10	10	11	2	2	2	1	2	1	0	3	3	3	3	2	3	2	2	2	3	3	4	rs112037348	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140307389G>A	uc003lih.2	+	1	1088	c.912G>A	c.(910-912)ACG>ACA	p.T304T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Silent_p.T304T	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	304	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCCTGAAACGCTCTTGGAGG	0.557													10	97					0	0	0.006214	0	0		A	140307389	A	A	140307389	2	1	4	1	0	0	0	0	0	0	0	1	11551	1074	38	1		1	PCDHAC1	5	140307389	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	323	140307389	40607871	1319	3285											
PCDHAC2	56134	broad.mit.edu	37	chr5	140347212	140347212	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcagacccggatgagggCtccaatggtgagctcaggta	9	7	14	11	1	2	3	2	2	0	1	3	4	3	4	3	4	1	3	3	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140347212C>T	uc003lii.2	+	1	1101	c.861C>T	c.(859-861)GGC>GGT	p.G287G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Silent_p.G287G	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	287	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGATGAGGGCTCCAATGGTG	0.582													9	30					0	0	0.004482	0	0		T	140347212	T	T	140347212	2	4	4	1	0	0	0	0	0	0	0	1	11552	784	28	2		2	PCDHAC2	5	140347212	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	39823	140347212	40568048	1320	3286											
PCDHB2	56133	broad.mit.edu	37	chr5	140475246	140475246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagcatctgaagacattcGcaaaacgtttcgattaagtg	14	10	8	9	3	1	2	0	1	1	1	3	3	1	2	1	0	2	3	1	0	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140475246G>A	uc003lil.2	+	1	1010	c.872G>A	c.(871-873)CGC>CAC	p.R291H	PCDHB2_uc003lim.1_5'UTR	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	291	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAAGACATTCGCAAAACGTTT	0.423													8	94					0	0	0.004482	0	0		A	140475246	A	A	140475246	3	1	4	1	0	0	0	0	1	0	0	0	11561	1087	38	1	874	1	PCDHB2	5	140475246	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	128034	140475246	40440014	1321	3287											
PCDHB3	56132	broad.mit.edu	37	chr5	140481651	140481651	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccctgcacatcggcagtgTcagcgccacagacagagact	10	5	11	15	3	1	2	1	0	0	2	2	3	1	2	2	1	2	2	2	1	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140481651T>C	uc003lio.2	+	1	1418	c.1418T>C	c.(1417-1419)GTC>GCC	p.V473A	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	473	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATCGGCAGTGTCAGCGCCACA	0.637													26	59					0	0	0.002445	0	0		C	140481651	C	C	140481651	3	2	4	1	0	0	0	0	1	0	0	0	11562	1667	58	3	1420	3	PCDHB3	5	140481651	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	6405	140481651	40433609	1322	3288											
PCDHB3	56132	broad.mit.edu	37	chr5	140481683	140481683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagactcaggcaccaacGcccaggtaacctactcgctg	12	5	9	15	2	1	1	1	0	0	1	2	2	1	1	3	2	3	3	3	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140481683G>A	uc003lio.2	+	1	1450	c.1450G>A	c.(1450-1452)GCC>ACC	p.A484T	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	484	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGCACCAACGCCCAGGTAAC	0.632													29	57					0	0	0.002836	0	0		A	140481683	A	A	140481683	3	1	4	1	0	0	0	0	1	0	0	0	11562	1087	38	1	1452	1	PCDHB3	5	140481683	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	32	140481683	40433577	1323	3289											
PCDHB7	56129	broad.mit.edu	37	chr5	140554671	140554671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctaccagtatgaggtgtGcctgactggaggctccggga	8	8	16	9	1	0	2	0	2	0	0	1	5	1	4	3	4	3	3	3	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140554671G>A	uc003lit.2	+	1	2429	c.2255G>A	c.(2254-2256)TGC>TAC	p.C752Y	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	752	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TATGAGGTGTGCCTGACTGGA	0.582													13	127					0	0	0.003163	0	0		A	140554671	A	A	140554671	3	1	4	1	0	0	0	0	1	0	0	0	11566	1319	46	2	2257	2	PCDHB7	5	140554671	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	72988	140554671	40360589	1324	3290											
PCDHB8	56128	broad.mit.edu	37	chr5	140558562	140558562	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcgaaaaatttcagtcctAtgaagtcaatatcgaggcga	14	12	8	7	3	2	1	2	1	0	0	5	4	3	1	1	1	0	0	1	1	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140558562A>G	uc011dai.1	+	1	1133	c.947A>G	c.(946-948)TAT>TGT	p.Y316C	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	316	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTTCAGTCCTATGAAGTCAAT	0.403													4	283					0	0	0.001168	0	0		G	140558562	G	G	140558562	3	3	4	1	0	0	0	0	1	0	0	0	11567	449	16	3	949	3	PCDHB8	5	140558562	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	3891	140558562	40356698	1325	3291											
PCDHB8	56128	broad.mit.edu	37	chr5	140559017	140559017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcgagaacaacagccccGccctgcacatcggcagcgtc	9	4	10	18	5	0	1	0	0	0	1	3	2	1	1	4	1	5	2	4	1	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140559017G>A	uc011dai.1	+	1	1588	c.1402G>A	c.(1402-1404)GCC>ACC	p.A468T	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	468	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAACAGCCCCGCCCTGCACAT	0.637													16	95					0	0	0.004656	0	0		A	140559017	A	A	140559017	3	1	4	1	0	0	0	0	1	0	0	0	11567	1087	38	1	1404	1	PCDHB8	5	140559017	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	455	140559017	40356243	1326	3292											
PCDHB16	57717	broad.mit.edu	37	chr5	140563922	140563922	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcggtggacggcgactcGggccagaatgcctggctgtc	5	7	18	11	4	0	1	0	0	0	1	2	3	0	2	2	6	1	1	2	6	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140563922G>A	uc003liv.2	+	1	2943	c.1788G>A	c.(1786-1788)TCG>TCA	p.S596S	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	596	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACGGCGACTCGGGCCAGAATG	0.716													11	15					0	0	0.001855	0	0		A	140563922	A	A	140563922	2	1	4	1	0	0	0	0	0	0	0	1	11560	1103	39	1		1	PCDHB16	5	140563922	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4905	140563922	40351338	1327	3293											
PCDHB9	56127	broad.mit.edu	37	chr5	140568423	140568423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccatcaacgcggacaatgGccacctgtttgccctcaggt	8	9	9	15	2	2	0	2	0	0	0	3	1	3	1	4	3	2	1	4	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140568423G>A	uc003liw.1	+	3	1532	c.1532G>A	c.(1531-1533)GGC>GAC	p.G511D		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	511	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCGGACAATGGCCACCTGTTT	0.672													13	120					0	0	0.00499	0	0		A	140568423	A	A	140568423	3	1	4	1	0	0	0	0	1	0	0	0	11568	1203	42	2	1533	2	PCDHB9	5	140568423	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4501	140568423	40346837	1328	3294											
PCDHB9	56127	broad.mit.edu	37	chr5	140569104	140569104	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttccagggcatctggtggAcgtgagcggcaccgggaccc	6	8	15	12	3	1	1	0	1	1	0	2	3	2	3	3	5	1	2	3	5	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140569104A>G	uc003liw.1	+	3	2213	c.2213A>G	c.(2212-2214)GAC>GGC	p.D738G	PCDHB10_uc003lix.2_5'Flank	NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	738	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CATCTGGTGGACGTGAGCGGC	0.637													19	77					0	0	0.003954	0	0		G	140569104	G	G	140569104	3	3	4	1	0	0	0	0	1	0	0	0	11568	275	10	3	2214	3	PCDHB9	5	140569104	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	681	140569104	40346156	1329	3295											
PCDHB11	56125	broad.mit.edu	37	chr5	140581476	140581476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggtgctcctgttcgtggCggtgcggctgtgcaggagga	3	10	18	10	4	0	0	0	0	0	0	3	2	1	2	1	6	3	4	1	6	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140581476C>T	uc003liy.2	+	1	2129	c.2129C>T	c.(2128-2130)GCG>GTG	p.A710V	PCDHB11_uc011daj.1_Missense_Mutation_p.A345V	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	710	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGTTCGTGGCGGTGCGGCTG	0.687													12	92					0	0	0.003163	0	0		T	140581476	T	T	140581476	3	4	4	1	0	0	0	0	1	0	0	0	11555	768	27	1	2131	1	PCDHB11	5	140581476	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	12372	140581476	40333784	1330	3296											
PCDHB11	56125	broad.mit.edu	37	chr5	140581505	140581505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgcaggaggagcagggcgGcctcggtgggaagctgctcg	6	6	20	9	3	0	0	0	0	0	0	2	3	0	3	1	6	4	4	1	6	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140581505G>A	uc003liy.2	+	1	2158	c.2158G>A	c.(2158-2160)GCC>ACC	p.A720T	PCDHB11_uc011daj.1_Missense_Mutation_p.A355T	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	720	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGCAGGGCGGCCTCGGTGGG	0.652													10	105					0	0	0.006214	0	0		A	140581505	A	A	140581505	3	1	4	1	0	0	0	0	1	0	0	0	11555	1203	42	2	2160	2	PCDHB11	5	140581505	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	29	140581505	40333755	1331	3297											
PCDHB12	56124	broad.mit.edu	37	chr5	140589821	140589821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccgacgtcaatgacaacGcccccgccttcacccaaact	10	7	5	19	4	3	1	2	1	1	0	4	2	3	1	5	0	2	0	5	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140589821G>A	uc003liz.2	+	1	1531	c.1342G>A	c.(1342-1344)GCC>ACC	p.A448T	PCDHB12_uc011dak.1_Missense_Mutation_p.A111T	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	448	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAATGACAACGCCCCCGCCTT	0.602													7	141					0	0	0.001984	0	0		A	140589821	A	A	140589821	3	1	4	1	0	0	0	0	1	0	0	0	11556	1087	38	1	1344	1	PCDHB12	5	140589821	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8316	140589821	40325439	1332	3298											
PCDHB14	56122	broad.mit.edu	37	chr5	140604673	140604673	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttcgagtttcgcgtgggCgccacagaccgcgggtcccc	5	7	15	14	6	0	1	0	0	0	1	3	3	1	1	4	2	0	2	4	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140604673C>T	uc003ljb.2	+	1	1596	c.1596C>T	c.(1594-1596)GGC>GGT	p.G532G	PCDHB14_uc011dal.1_Silent_p.G379G	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	532	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCGCGTGGGCGCCACAGACC	0.667													9	71					0	0	0.006214	0	0		T	140604673	T	T	140604673	2	4	4	1	0	0	0	0	0	0	0	1	11558	755	27	1		1	PCDHB14	5	140604673	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	14852	140604673	40310587	1333	3299											
PCDHB14	56122	broad.mit.edu	37	chr5	140605138	140605138	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggccgactccctcacCgtctacctggtggtggcatt	5	9	11	16	2	2	0	1	0	1	0	3	1	3	0	5	4	1	1	5	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140605138C>T	uc003ljb.2	+	1	2061	c.2061C>T	c.(2059-2061)ACC>ACT	p.T687T	PCDHB14_uc011dal.1_Silent_p.T534T	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	687	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACTCCCTCACCGTCTACCTGG	0.706													17	58					0	0	0.001882	0	0		T	140605138	T	T	140605138	2	4	4	1	0	0	0	0	0	0	0	1	11558	639	23	1		1	PCDHB14	5	140605138	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	465	140605138	40310122	1334	3300											
TAF7	6879	broad.mit.edu	37	chr5	140699196	140699196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctgacattctttagaGgcagagtaattccgtggttc	8	15	9	9	1	2	3	0	1	2	2	5	3	4	3	2	2	0	3	2	2	2	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140699196G>A	uc003ljg.2	-	1	1156	c.416C>T	c.(415-417)CCT>CTT	p.P139L		NM_005642	NP_005633	Q15545	TAF7_HUMAN	TATA box-binding protein-associated factor 2F	139					negative regulation of histone acetylation|negative regulation of protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|spermine transport|transcription initiation from RNA polymerase II promoter	Golgi apparatus|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	histone acetyltransferase binding|thyroid hormone receptor binding|transcription coactivator activity|transcription regulatory region DNA binding|vitamin D receptor binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTCTTTAGAGGCAGAGTAAT	0.408													31	131					0	0	0.009535	0	0		A	140699196	A	A	140699196	3	1	4	1	0	0	0	0	1	0	0	0	15557	1000	35	4	637	4	TAF7	5	140699196	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	94058	140699196	40216064	1335	3301											
PCDHGA1	56114	broad.mit.edu	37	chr5	140710396	140710396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccttcgtaggcaacatcGccaaggacctagggctgcaa	10	8	11	12	2	0	0	0	0	0	0	3	1	1	1	3	3	2	5	3	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140710396G>A	uc003lji.1	+	1	145	c.145G>A	c.(145-147)GCC>ACC	p.A49T	PCDHGA1_uc011dan.1_Missense_Mutation_p.A49T	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	49	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGCAACATCGCCAAGGACCT	0.557													35	88					0	0	0.005524	0	0		A	140710396	A	A	140710396	3	1	4	1	0	0	0	0	1	0	0	0	11569	1087	38	1	147	1	PCDHGA1	5	140710396	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11200	140710396	40204864	1336	3302											
PCDHGA5	56110	broad.mit.edu	37	chr5	140745824	140745824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcgctcaagcagagcctcGtggtggccgtcgaagaccat	9	6	13	13	5	1	2	1	0	0	2	3	3	1	2	3	2	2	2	3	2	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140745824G>A	uc003lju.1	+	1	1927	c.1927G>A	c.(1927-1929)GTG>ATG	p.V643M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.V643M	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	643	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAGAGCCTCGTGGTGGCCGT	0.662													16	70					0	0	0.003954	0	0		A	140745824	A	A	140745824	3	1	4	1	0	0	0	0	1	0	0	0	11576	1145	40	1	1929	1	PCDHGA5	5	140745824	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	35428	140745824	40169436	1337	3303											
PCDHGA5	56110	broad.mit.edu	37	chr5	140746261	140746261	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagagagctgtgagaaaagCgagcctcttctgatgtctga	12	9	13	7	1	3	4	0	3	3	2	3	8	3	4	1	0	3	1	1	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140746261C>T	uc003lju.1	+	1	2364	c.2364C>T	c.(2362-2364)AGC>AGT	p.S788S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Silent_p.S788S	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	788	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGAGAAAAGCGAGCCTCTTC	0.488													22	117					0	0	0.002299	0	0		T	140746261	T	T	140746261	2	4	4	1	0	0	0	0	0	0	0	1	11576	767	27	1		1	PCDHGA5	5	140746261	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	437	140746261	40168999	1338	3304											
PCDHGA7	56108	broad.mit.edu	37	chr5	140762959	140762959	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatccagatgtgggcacgAactccctccagagttaccag	10	7	12	12	1	0	2	0	0	0	2	3	4	3	3	4	2	2	2	4	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140762959A>G	uc003lka.1	+	1	493	c.493A>G	c.(493-495)AAC>GAC	p.N165D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.N165D	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	165	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTGGGCACGAACTCCCTCCA	0.512													9	37					0	0	0.006214	0	0		G	140762959	G	G	140762959	3	3	4	1	0	0	0	0	1	0	0	0	11578	246	9	3	495	3	PCDHGA7	5	140762959	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	16698	140762959	40152301	1339	3305											
PCDHGA9	56107	broad.mit.edu	37	chr5	140784212	140784212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgccccagaaatcctgtacCctgccctccccactgatggt	8	9	7	17	0	0	2	0	1	0	1	2	2	2	2	7	1	3	1	7	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140784212C>T	uc003lkh.1	+	1	1693	c.1693C>T	c.(1693-1695)CCT>TCT	p.P565S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.P565S	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	565	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATCCTGTACCCTGCCCTCCC	0.562													16	152					0	0	0.006122	0	0		T	140784212	T	T	140784212	3	4	4	1	0	0	0	0	1	0	0	0	11580	623	22	4	1695	4	PCDHGA9	5	140784212	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	21253	140784212	40131048	1340	3306											
PCDHGA9	56107	broad.mit.edu	37	chr5	140784685	140784685	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaggcactggcactcctcGcatctgctgcgggctaccag	6	8	12	15	2	1	1	0	1	1	0	3	1	2	1	2	3	3	5	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140784685G>A	uc003lkh.1	+	1	2166	c.2166G>A	c.(2164-2166)TCG>TCA	p.S722S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Silent_p.S722S	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	722	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCACTCCTCGCATCTGCTGC	0.577													23	53					0	0	0.002299	0	0		A	140784685	A	A	140784685	2	1	4	1	0	0	0	0	0	0	0	1	11580	1074	38	1		1	PCDHGA9	5	140784685	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	473	140784685	40130575	1341	3307											
PCDHGB6	56100	broad.mit.edu	37	chr5	140789114	140789114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgacatcaacgacaacGccccagttttcgaccagacg	11	7	8	15	5	1	2	1	1	0	1	3	4	1	2	3	0	2	2	3	0	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140789114G>A	uc003lkj.1	+	1	1345	c.1345G>A	c.(1345-1347)GCC>ACC	p.A449T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.A449T	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	449	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAACGACAACGCCCCAGTTTT	0.567													10	30					0	0	0.008291	0	0		A	140789114	A	A	140789114	3	1	4	1	0	0	0	0	1	0	0	0	11586	1087	38	1	1347	1	PCDHGB6	5	140789114	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4429	140789114	40126146	1342	3308											
PCDHGA10	56106	broad.mit.edu	37	chr5	140793053	140793053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctctgcgctcagagcgCgcggtgcgtggtgagtttta	5	10	17	9	5	2	2	1	1	1	1	2	3	2	3	0	3	4	3	0	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140793053C>T	uc003lkl.1	+	1	311	c.311C>T	c.(310-312)GCG>GTG	p.A104V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.A104V	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	104	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTCAGAGCGCGCGGTGCGTG	0.517													5	104					0	0	0.000602	0	0		T	140793053	T	T	140793053	3	4	4	1	0	0	0	0	1	0	0	0	11570	768	27	1	313	1	PCDHGA10	5	140793053	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3939	140793053	40122207	1343	3309											
PCDHGA12	26025	broad.mit.edu	37	chr5	140810542	140810542	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcatccccagaggtaggacGcagcttttcgccctgaatcc	9	9	9	14	2	1	2	1	1	0	1	4	3	3	3	4	2	1	3	4	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140810542G>A	uc003lkt.1	+	1	385	c.216G>A	c.(214-216)ACG>ACA	p.T72T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.T72T	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	72	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGGTAGGACGCAGCTTTTCG	0.637													15	74					0	0	0.006122	0	0		A	140810542	A	A	140810542	2	1	4	1	0	0	0	0	0	0	0	1	11572	1074	38	1		1	PCDHGA12	5	140810542	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	17489	140810542	40104718	1344	3310											
PCDHGA12	26025	broad.mit.edu	37	chr5	140812003	140812003	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaccagaacgacaatgcGcccgagatcctgtaccccgc	10	5	10	16	4	0	2	0	0	0	2	1	5	1	3	5	1	3	1	5	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140812003G>A	uc003lkt.1	+	1	1846	c.1677G>A	c.(1675-1677)GCG>GCA	p.A559A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.A559A	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	559	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGACAATGCGCCCGAGATCC	0.657													53	144					0	0	0.00361	0	0		A	140812003	A	A	140812003	2	1	4	1	0	0	0	0	0	0	0	1	11572	1074	38	1		1	PCDHGA12	5	140812003	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1461	140812003	40103257	1345	3311											
PCDHGC3	5098	broad.mit.edu	37	chr5	140857013	140857013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcagcccttacaatagtgCgtgttcaagtgtccgacatc	9	12	8	12	2	2	0	2	0	1	0	5	1	3	0	2	0	3	1	2	0	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140857013C>T	uc003lkv.1	+	1	1445	c.1330C>T	c.(1330-1332)CGT>TGT	p.R444C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Missense_Mutation_p.R444C|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	444	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TACAATAGTGCGTGTTCAAGT	0.522													23	81					0	0	0.003954	0	0		T	140857013	T	T	140857013	3	4	4	1	0	0	0	0	1	0	0	0	11588	768	27	1	1332	1	PCDHGC3	5	140857013	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	45010	140857013	40058247	1346	3312											
HDAC3	8841	broad.mit.edu	37	chr5	141005313	141005313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatgaagtgtgaagtctgggGcaaagtactcgaagtattct	12	11	13	5	1	2	2	0	2	2	0	3	4	2	2	0	2	1	3	0	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:141005313G>A	uc003llf.2	-	13	1064	c.998C>T	c.(997-999)GCC>GTC	p.A333V	HDAC3_uc003lle.1_Missense_Mutation_p.A276V	NM_003883	NP_003874	O15379	HDAC3_HUMAN	histone deacetylase 3	333					anti-apoptosis|cellular lipid metabolic process|negative regulation of cell cycle|negative regulation of JNK cascade|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|spindle assembly|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|spindle microtubule|transcriptional repressor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription corepressor activity|transcription factor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Vorinostat(DB02546)	GAAGTCTGGGGCAAAGTACTC	0.493													14	47					0	0	0.006122	0	0		A	141005313	A	A	141005313	3	1	4	1	0	0	0	0	1	0	0	0	7024	1203	42	2	300	2	HDAC3	5	141005313	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	148300	141005313	39909947	1347	3313											
KCTD16	57528	broad.mit.edu	37	chr5	143853254	143853254	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatggtcaccctcacactgCgattgctgctgcaagaatgg	10	9	11	11	1	2	2	2	0	0	2	2	3	2	2	1	2	4	3	1	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:143853254C>T	uc003lnm.1	+	4	1493	c.864C>T	c.(862-864)TGC>TGT	p.C288C	KCTD16_uc003lnn.1_Silent_p.C288C	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	288						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			CCTCACACTGCGATTGCTGCT	0.522													19	75					0	0	0.001882	0	0		T	143853254	T	T	143853254	2	4	4	1	0	0	0	0	0	0	0	1	8119	776	27	1		1	KCTD16	5	143853254	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2847941	143853254	37062006	1348	3314											
RBM27	54439	broad.mit.edu	37	chr5	145631338	145631338	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacttcagttggggacaccGcctcctctgttggcagctcg	5	10	12	14	3	2	0	1	0	1	0	4	2	3	1	3	3	1	4	3	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:145631338G>A	uc003lnz.3	+	9	1510	c.1344G>A	c.(1342-1344)CCG>CCA	p.P448P	RBM27_uc003lny.2_Intron	NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	448					mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGGGGACACCGCCTCCTCTGT	0.552													46	94					0	0	0.00361	0	0		A	145631338	A	A	145631338	2	1	4	1	0	0	0	0	0	0	0	1	13152	1074	38	1		1	RBM27	5	145631338	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1778084	145631338	35283922	1349	3315											
JAKMIP2	9832	broad.mit.edu	37	chr5	147012252	147012252	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catttccttacttctagctcTaggtttcgaaactccagcag	9	14	6	12	1	2	0	0	0	2	0	5	1	4	0	2	1	4	3	2	1	4	6	rs75918574		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:147012252T>C	uc003loq.1	-	13	2149	c.1767A>G	c.(1765-1767)CTA>CTG	p.L589L	JAKMIP2_uc011dbx.1_Silent_p.L547L|JAKMIP2_uc003lor.1_Silent_p.L568L|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Silent_p.L589L	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	589	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTCTAGCTCTAGGTTTCGAA	0.274													17	160					0	0	0.008871	0	0		C	147012252	C	C	147012252	2	2	4	1	0	0	0	0	0	0	0	1	7957	1509	53	3		3	JAKMIP2	5	147012252	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1380914	147012252	33903008	1350	3316											
HTR4	3360	broad.mit.edu	37	chr5	147889355	147889355	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtcctcatgcgatgagtgCtatgctggtctgccgactga	6	12	12	11	2	2	2	1	2	1	0	3	4	3	2	2	1	4	2	2	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:147889355C>A	uc003lpn.2	-	6	904	c.740G>T	c.(739-741)AGC>ATC	p.S247I	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Missense_Mutation_p.S247I|HTR4_uc003lpj.1_Missense_Mutation_p.S247I|HTR4_uc003lpk.2_Missense_Mutation_p.S247I|HTR4_uc011dby.1_Missense_Mutation_p.S247I|HTR4_uc003lpl.2_Missense_Mutation_p.S261I|HTR4_uc003lpm.2_Missense_Mutation_p.S247I|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Missense_Mutation_p.S247I	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	247	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	GCGATGAGTGCTATGCTGGTC	0.542													10	35					0.000673444	0.000701807	0.008291	1	0		A	147889355	A	A	147889355	3	1	4	1	0	0	0	0	1	0	0	0	7465	797	28	5	730	5	HTR4	5	147889355	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	877103	147889355	33025905	1351	3317											
PCYOX1L	78991	broad.mit.edu	37	chr5	148745609	148745609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgacccagcactctgtggCtgagtccctgctgcaggtgg	6	9	13	13	0	1	2	0	2	1	0	2	2	2	2	2	3	3	4	2	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:148745609C>T	uc003lqk.2	+	4	637	c.575C>T	c.(574-576)GCT>GTT	p.A192V	PCYOX1L_uc003lql.2_Missense_Mutation_p.A175V|PCYOX1L_uc010jgz.2_Intron|PCYOX1L_uc003lqm.2_Missense_Mutation_p.A74V|PCYOX1L_uc003lqn.2_Missense_Mutation_p.A102V	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	192					prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACTCTGTGGCTGAGTCCCTG	0.592													13	20					0	0	0.003163	0	0		T	148745609	T	T	148745609	3	4	4	1	0	0	0	0	1	0	0	0	11628	797	28	2	589	2	PCYOX1L	5	148745609	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	856254	148745609	32169651	1352	3318											
PCYOX1L	78991	broad.mit.edu	37	chr5	148747580	148747580	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagccctgtaccaggtggCgtatgagaatgaggtaggca	12	7	15	7	1	0	2	0	2	0	1	0	4	0	2	2	4	2	4	2	4	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:148747580C>T	uc003lqk.2	+	6	910	c.848C>T	c.(847-849)GCG>GTG	p.A283V	PCYOX1L_uc003lql.2_Missense_Mutation_p.A266V|PCYOX1L_uc010jgz.2_Missense_Mutation_p.A207V|PCYOX1L_uc003lqm.2_Missense_Mutation_p.A165V|PCYOX1L_uc003lqn.2_Missense_Mutation_p.A193V	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	283					prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TACCAGGTGGCGTATGAGAAT	0.522											OREG0016912	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	116					0	0	0.00245	0	0		T	148747580	T	T	148747580	3	4	4	1	0	0	0	0	1	0	0	0	11628	768	27	1	870	1	PCYOX1L	5	148747580	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1971	148747580	32167680	1353	3319											
ARHGEF37	389337	broad.mit.edu	37	chr5	148980761	148980761	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgatctgcaggagacaGcctccaaggaagaggaacaa	15	5	11	10	0	1	3	0	1	1	2	3	6	3	5	3	3	3	1	3	3	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:148980761G>T	uc003lra.1	+	3	341	c.277G>T	c.(277-279)GCC>TCC	p.A93S		NM_001001669	NP_001001669	A1IGU5	ARH37_HUMAN	hypothetical protein LOC389337	93	DH.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0						GCAGGAGACAGCCTCCAAGGA	0.468													6	78					0.00198382	0.00206202	0.001984	1	0		T	148980761	T	T	148980761	3	4	4	1	0	0	0	0	1	0	0	0	906	971	34	5	283	5	ARHGEF37	5	148980761	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	233181	148980761	31934499	1354	3320											
PPARGC1B	133522	broad.mit.edu	37	chr5	149206304	149206304	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgacatccctgaagatgaCgtgggtctggctgccttccc	7	10	12	12	1	1	4	0	3	1	1	3	5	3	4	3	2	1	1	3	2	1	1	rs141027780	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149206304C>T	uc003lrc.2	+	3	363	c.321C>T	c.(319-321)GAC>GAT	p.D107D	PPARGC1B_uc003lrb.1_Silent_p.D107D|PPARGC1B_uc003lrd.2_Silent_p.D107D|PPARGC1B_uc003lrf.2_Silent_p.D86D|PPARGC1B_uc003lre.1_Silent_p.D86D	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	107					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CTGAAGATGACGTGGGTCTGG	0.627													14	64					0	0	0.00245	0	0		T	149206304	T	T	149206304	2	4	4	1	0	0	0	0	0	0	0	1	12320	535	19	1		1	PPARGC1B	5	149206304	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	225543	149206304	31708956	1355	3321											
PDE6A	5145	broad.mit.edu	37	chr5	149242740	149242740	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcaccttcatcttggcatcGtactcatcagcaagcgcctt	8	12	7	14	2	4	0	3	0	1	0	5	0	4	0	2	1	4	4	2	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149242740G>A	uc003lrg.3	-	21	2568	c.2448C>T	c.(2446-2448)TAC>TAT	p.Y816Y		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	816					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TCTTGGCATCGTACTCATCAG	0.527													32	98					0	0	0.002836	0	0		A	149242740	A	A	149242740	2	1	4	1	0	0	0	0	0	0	0	1	11664	1140	40	1		1	PDE6A	5	149242740	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	36436	149242740	31672520	1356	3322											
SLC26A2	1836	broad.mit.edu	37	chr5	149360038	149360038	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actacctggatacatgtcttCagaaacatccataagaccaa	16	9	5	11	0	2	2	1	0	1	2	3	3	3	3	3	1	3	0	3	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149360038C>T	uc003lrh.2	+	3	1150	c.882C>T	c.(880-882)TTC>TTT	p.F294F		NM_000112	NP_000103	P50443	S26A2_HUMAN	solute carrier family 26 member 2	294	Extracellular (Potential).					integral to plasma membrane|membrane fraction	secondary active sulfate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TACATGTCTTCAGAAACATCC	0.433													20	78					0	0	0.001882	0	0		T	149360038	T	T	149360038	2	4	4	1	0	0	0	0	0	0	0	1	14542	825	29	4		4	SLC26A2	5	149360038	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	117298	149360038	31555222	1357	3323											
CSF1R	1436	broad.mit.edu	37	chr5	149439266	149439266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctttgccaggggctacctgCggacatatttcttctcgagg	6	12	11	12	2	2	0	0	0	2	0	3	2	2	1	3	4	3	1	3	4	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149439266C>T	uc003lrl.2	-	14	2324	c.2129G>A	c.(2128-2130)CGC>CAC	p.R710H	CSF1R_uc011dcd.1_Intron|CSF1R_uc010jhc.2_Intron|CSF1R_uc003lrm.2_Missense_Mutation_p.R710H	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	710	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	GGGCTACCTGCGGACATATTT	0.587													8	96					0	0	0.006214	0	0		T	149439266	T	T	149439266	3	4	4	1	0	0	0	0	1	0	0	0	3935	768	27	1	821	1	CSF1R	5	149439266	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	79228	149439266	31475994	1358	3324											
CSF1R	1436	broad.mit.edu	37	chr5	149441338	149441338	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctcgttgtaaggcagctgCgtggggtcgatgaaagtata	9	12	14	6	3	1	1	0	1	1	0	3	2	1	1	0	3	2	5	0	3	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149441338C>T	uc003lrl.2	-	11	1896	c.1701G>A	c.(1699-1701)ACG>ACA	p.T567T	CSF1R_uc011dcd.1_Silent_p.T419T|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Silent_p.T567T	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	567	Cytoplasmic (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	AAGGCAGCTGCGTGGGGTCGA	0.552													13	71					0	0	0.00245	0	0		T	149441338	T	T	149441338	2	4	4	1	0	0	0	0	0	0	0	1	3935	755	27	1		1	CSF1R	5	149441338	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2072	149441338	31473922	1359	3325											
CSF1R	1436	broad.mit.edu	37	chr5	149447825	149447825	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcagcagcagcagcaaggCcatgatggacatgcaggcga	13	3	15	10	1	0	1	0	1	0	0	0	4	0	2	1	3	6	6	1	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149447825C>T	uc003lrl.2	-	10	1774	c.1579G>A	c.(1579-1581)GCC>ACC	p.A527T	CSF1R_uc011dcd.1_Missense_Mutation_p.A379T|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Missense_Mutation_p.A527T	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	527	Helical; (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	agcagcaAGGCCATGATGGAC	0.507													7	29					0	0	0.008291	0	0		T	149447825	T	T	149447825	3	4	4	1	0	0	0	0	1	0	0	0	3935	739	26	2	1387	2	CSF1R	5	149447825	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6487	149447825	31467435	1360	3326											
CSF1R	1436	broad.mit.edu	37	chr5	149459840	149459840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcagacagggcagtagtgCgtcctggtcctcgaacacga	10	6	14	11	3	0	1	0	0	0	1	3	4	2	1	2	2	3	3	2	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149459840C>T	uc003lrl.2	-	3	562	c.367G>A	c.(367-369)GCA>ACA	p.A123T	CSF1R_uc011dcd.1_5'UTR|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Missense_Mutation_p.A123T|CSF1R_uc011dce.1_Missense_Mutation_p.A123T|CSF1R_uc011dcf.1_Missense_Mutation_p.A123T	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	123	Extracellular (Potential).|Ig-like C2-type 2.				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	GGCAGTAGTGCGTCCTGGTCC	0.642													10	16					0	0	0.008291	0	0		T	149459840	T	T	149459840	3	4	4	1	0	0	0	0	1	0	0	0	3935	768	27	1	2627	1	CSF1R	5	149459840	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	12015	149459840	31455420	1361	3327											
PDGFRB	5159	broad.mit.edu	37	chr5	149501454	149501454	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccacccaccagagggaacgTagttatcgtaaggggccatg	11	7	12	11	2	0	1	0	0	0	1	2	2	1	2	4	3	1	3	4	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149501454T>C	uc003lro.2	-	16	2802	c.2333A>G	c.(2332-2334)TAC>TGC	p.Y778C	PDGFRB_uc010jhd.2_Missense_Mutation_p.Y617C	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	778	Cytoplasmic (Potential).|Protein kinase.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	AGAGGGAACGTAGTTATCGTA	0.468			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								13	79					0	0	0.003163	0	0		C	149501454	C	C	149501454	3	2	4	1	0	0	0	0	1	0	0	0	11681	1638	57	3	1019	3	PDGFRB	5	149501454	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	41614	149501454	31413806	1362	3328											
CAMK2A	815	broad.mit.edu	37	chr5	149631348	149631348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgatctgctggtacaggcGgtgctggtcctcatcccaga	6	12	12	11	1	2	2	1	1	1	1	4	2	4	2	2	4	3	3	2	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149631348G>A	uc003lru.2	-	9	873	c.658C>T	c.(658-660)CGC>TGC	p.R220C	CAMK2A_uc003lrt.2_Missense_Mutation_p.R220C|CAMK2A_uc010jhe.2_Missense_Mutation_p.R200C|CAMK2A_uc010jhf.1_Silent_p.T57T	NM_171825	NP_741960	Q9UQM7	KCC2A_HUMAN	calcium/calmodulin-dependent protein kinase II	220	Protein kinase.				interferon-gamma-mediated signaling pathway|positive regulation of NF-kappaB transcription factor activity|synaptic transmission	cell junction|cytosol|endocytic vesicle membrane|nucleoplasm|presynaptic membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)	1		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGGTACAGGCGGTGCTGGTCC	0.597													4	15					0	0	0.009096	0	0		A	149631348	A	A	149631348	3	1	4	1	0	0	0	0	1	0	0	0	2602	1116	39	1	855	1	CAMK2A	5	149631348	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	129894	149631348	31283912	1363	3329											
TCOF1	6949	broad.mit.edu	37	chr5	149775932	149775932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaagcctcaaccctggCgctgcaaagcaacatcaccc	11	4	6	20	1	2	0	2	0	0	0	2	0	2	0	5	1	5	3	5	1	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149775932C>T	uc003lry.2	+	24	3977	c.3869C>T	c.(3868-3870)GCG>GTG	p.A1290V	TCOF1_uc011dch.1_Missense_Mutation_p.A1253V|TCOF1_uc003lrz.2_Missense_Mutation_p.A1252V|TCOF1_uc003lrx.2_Missense_Mutation_p.A1214V|TCOF1_uc003lsa.2_Missense_Mutation_p.A1213V	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	1290					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCAACCCTGGCGCTGCAAAGC	0.612													13	29					0	0	0.003163	0	0		T	149775932	T	T	149775932	3	4	4	1	0	0	0	0	1	0	0	0	15733	768	27	1	3988	1	TCOF1	5	149775932	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	144584	149775932	31139328	1364	3330											
NDST1	3340	broad.mit.edu	37	chr5	149907766	149907766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttcctcacggggaagcGcctctccctgccattggacc	5	8	11	17	2	2	0	1	0	1	0	4	2	3	2	6	4	2	0	6	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149907766G>A	uc003lsk.3	+	3	1416	c.914G>A	c.(913-915)CGC>CAC	p.R305H	NDST1_uc011dcj.1_Missense_Mutation_p.R305H|NDST1_uc003lsl.2_Missense_Mutation_p.R305H	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	305	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACGGGGAAGCGCCTCTCCCTG	0.587													4	22					0	0	0.009096	0	0		A	149907766	A	A	149907766	3	1	4	1	0	0	0	0	1	0	0	0	10274	1087	38	1	920	1	NDST1	5	149907766	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	131834	149907766	31007494	1365	3331											
ANXA6	309	broad.mit.edu	37	chr5	150489327	150489327	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcacctctccggaggtgCggatagctccgggtacacag	7	7	13	14	3	2	0	1	0	1	0	4	2	3	2	4	4	3	2	4	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:150489327C>T	uc003ltl.1	-	22	1823	c.1671G>A	c.(1669-1671)CCG>CCA	p.P557P	ANXA6_uc011dcp.1_Silent_p.P525P|ANXA6_uc003ltm.1_Silent_p.P551P|ANXA6_uc003ltn.1_Silent_p.P344P|ANXA6_uc003lto.1_Silent_p.P144P	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	557	Annexin 7.					melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCCGGAGGTGCGGATAGCTCC	0.562													8	15					0	0	0.004482	0	0		T	150489327	T	T	150489327	2	4	4	1	0	0	0	0	0	0	0	1	722	755	27	1		1	ANXA6	5	150489327	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	581561	150489327	30425933	1366	3332											
ANXA6	309	broad.mit.edu	37	chr5	150509077	150509077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggatcagggtgttgtccCgagtccccaggccctgcaag	6	8	14	13	2	1	0	1	0	0	0	3	2	3	1	4	3	2	2	4	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:150509077C>T	uc003ltl.1	-	12	961	c.809G>A	c.(808-810)CGG>CAG	p.R270Q	ANXA6_uc011dcp.1_Missense_Mutation_p.R238Q|ANXA6_uc003ltm.1_Missense_Mutation_p.R270Q|ANXA6_uc003ltn.1_Intron|ANXA6_uc003lto.1_Intron	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	270	Annexin 4.					melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGTGTTGTCCCGAGTCCCCAG	0.527													9	7					0	0	0.006214	0	0		T	150509077	T	T	150509077	3	4	4	1	0	0	0	0	1	0	0	0	722	652	23	1	1272	1	ANXA6	5	150509077	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	19750	150509077	30406183	1367	3333											
FAT2	2196	broad.mit.edu	37	chr5	150897291	150897291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccgctggggccctgtaccGcacatagctctgaccactga	8	7	11	15	2	1	2	0	2	1	0	1	2	1	2	4	2	3	4	4	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:150897291G>A	uc003lue.3	-	19	11366	c.11353C>T	c.(11353-11355)CGG>TGG	p.R3785W	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.R478W	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3785	Extracellular (Potential).|Laminin G-like.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCCCTGTACCGCACATAGCTC	0.473													13	43					0	0	0.007413	0	0		A	150897291	A	A	150897291	3	1	4	1	0	0	0	0	1	0	0	0	5704	1086	38	1	1716	1	FAT2	5	150897291	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	388214	150897291	30017969	1368	3334											
SPARC	6678	broad.mit.edu	37	chr5	151043671	151043671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcttgatgccgaagcagccgGcccactcatccagggcgatg	8	6	13	14	3	1	1	1	1	0	0	2	3	2	1	4	2	3	2	4	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:151043671G>A	uc003luh.2	-	8	884	c.860C>T	c.(859-861)GCC>GTC	p.A287V	GM2A_uc011dcs.1_Intron|SPARC_uc003lug.2_Missense_Mutation_p.A121V|SPARC_uc003lui.2_Missense_Mutation_p.A287V	NM_003118	NP_003109	P09486	SPRC_HUMAN	secreted protein, acidic, cysteine-rich	287	EF-hand.				ossification|platelet activation|platelet degranulation|signal transduction	basement membrane|extracellular space|platelet alpha granule lumen	calcium ion binding|collagen binding			central_nervous_system(1)	1		Medulloblastoma(196;0.109)|all_hematologic(541;0.122)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)	OV - Ovarian serous cystadenocarcinoma(192;0.00118)	Becaplermin(DB00102)	GAAGCAGCCGGCCCACTCATC	0.582													9	67					0	0	0.00245	0	0		A	151043671	A	A	151043671	3	1	4	1	0	0	0	0	1	0	0	0	15020	1203	42	2	59	2	SPARC	5	151043671	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	146380	151043671	29871589	1369	3335											
HAND1	9421	broad.mit.edu	37	chr5	153857252	153857252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctgttaatgctctcagtgCgtctccgctccttcttgggt	3	15	10	13	3	3	0	1	0	3	0	6	0	4	0	2	1	2	4	2	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:153857252C>T	uc003lvn.2	-	1	573	c.317G>A	c.(316-318)CGC>CAC	p.R106H		NM_004821	NP_004812	O96004	HAND1_HUMAN	basic helix-loop-helix transcription factor	106	Basic motif.				angiogenesis|cardiac left ventricle formation|cardiac right ventricle formation|cardiac septum morphogenesis|heart looping|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|trophectodermal cell differentiation|ventricular cardiac muscle tissue morphogenesis	cytoplasm|nucleolus|nucleoplasm	bHLH transcription factor binding|DNA binding|protein homodimerization activity|transcription coactivator activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			GCTCTCAGTGCGTCTCCGCTC	0.667													6	21					0	0	0.00308	0	0		T	153857252	T	T	153857252	3	4	4	1	0	0	0	0	1	0	0	0	6965	768	27	1	338	1	HAND1	5	153857252	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2813581	153857252	27058008	1370	3336											
KIF4B	285643	broad.mit.edu	37	chr5	154393675	154393675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatataatgcaacggtcctgGcctatgggcagactggctct	9	10	12	10	1	1	1	0	0	1	1	2	2	2	1	2	4	2	3	2	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:154393675G>A	uc010jih.1	+	1	416	c.256G>A	c.(256-258)GCC>ACC	p.A86T		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	86	Kinesin-motor.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			AACGGTCCTGGCCTATGGGCA	0.453													10	100					0	0	0.006214	0	0		A	154393675	A	A	154393675	3	1	4	1	0	0	0	0	1	0	0	0	8320	1203	42	2	258	2	KIF4B	5	154393675	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	536423	154393675	26521585	1371	3337											
SOX30	11063	broad.mit.edu	37	chr5	157053375	157053375	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccctgagcactttttcttcTtcctcctcatcactgtcggt	4	17	5	15	1	4	1	2	1	2	0	8	1	7	1	3	1	1	1	3	1	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:157053375T>C	uc003lxb.1	-	5	2577	c.2235A>G	c.(2233-2235)GAA>GAG	p.E745E	SOX30_uc003lxc.1_3'UTR|SOX30_uc011dds.1_Silent_p.E440E	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	745					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTTTTTCTTCTTCCTCCTCAT	0.383													5	76					0	0	0.000602	0	0		C	157053375	C	C	157053375	2	2	4	1	0	0	0	0	0	0	0	1	14977	1606	56	3		3	SOX30	5	157053375	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2659700	157053375	23861885	1372	3338											
THG1L	54974	broad.mit.edu	37	chr5	157159916	157159916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaaaacccaatgacagcCgtgctctccagctgatgacc	11	8	8	14	1	1	3	0	3	1	0	2	3	1	3	4	0	5	3	4	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:157159916C>T	uc003lxd.2	+	2	358	c.232C>T	c.(232-234)CGT>TGT	p.R78C	THG1L_uc011ddu.1_5'UTR	NM_017872	NP_060342	Q9NWX6	THG1_HUMAN	interphase cytoplasmic foci protein 45	78					protein homotetramerization|tRNA modification	mitochondrion	GTP binding|metal ion binding|tRNA guanylyltransferase activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CAATGACAGCCGTGCTCTCCA	0.468													28	94					0	0	0.005443	0	0		T	157159916	T	T	157159916	3	4	4	1	0	0	0	0	1	0	0	0	15886	652	23	1	238	1	THG1L	5	157159916	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	106541	157159916	23755344	1373	3339											
ADRA1B	147	broad.mit.edu	37	chr5	159344141	159344141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcctgcaaccggcacctgCggacgcccaccaactacttc	8	6	9	18	3	0	0	0	0	0	0	1	1	0	1	5	3	5	2	5	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:159344141C>T	uc003lxt.1	+	1	402	c.229C>T	c.(229-231)CGG>TGG	p.R77W		NM_000679	NP_000670	P35368	ADA1B_HUMAN	alpha-1B-adrenergic receptor	77	Cytoplasmic (By similarity).				cell proliferation|cell-cell signaling|G-protein signaling, coupled to cAMP nucleotide second messenger|intracellular protein kinase cascade	integral to plasma membrane	alpha1-adrenergic receptor activity			lung(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Modafinil(DB00745)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Olanzapine(DB00334)|Phendimetrazine(DB01579)|Phenylephrine(DB00388)|Prazosin(DB00457)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Trazodone(DB00656)	CCGGCACCTGCGGACGCCCAC	0.612													22	65					0	0	0.004656	0	0		T	159344141	T	T	159344141	3	4	4	1	0	0	0	0	1	0	0	0	335	759	27	1	231	1	ADRA1B	5	159344141	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2184225	159344141	21571119	1374	3340											
CCNJL	79616	broad.mit.edu	37	chr5	159680757	159680757	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgggcaccattgccaaGgcctggctcttgacggctac	6	8	13	14	2	1	1	0	1	1	0	1	1	1	1	4	4	3	3	4	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:159680757G>A	uc003lyb.1	-	7	1188	c.936C>T	c.(934-936)GCC>GCT	p.A312A	CCNJL_uc011dee.1_Silent_p.A264A|CCNJL_uc003lyc.1_RNA	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	312						nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCATTGCCAAGGCCTGGCTCT	0.627													3	6					0	0	0.009096	0	0		A	159680757	A	A	159680757	2	1	4	1	0	0	0	0	0	0	0	1	2932	987	35	4		4	CCNJL	5	159680757	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	336616	159680757	21234503	1375	3341											
HMMR	3161	broad.mit.edu	37	chr5	162910329	162910329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagaaattaacaagtggCgtctcctctatgaagaacta	15	10	8	8	1	2	4	0	2	2	2	3	4	2	4	1	1	2	0	1	1	8	3	rs140371330	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:162910329C>T	uc003lzf.2	+	15	1920	c.1738C>T	c.(1738-1740)CGT>TGT	p.R580C	HMMR_uc003lzh.2_Missense_Mutation_p.R581C|HMMR_uc003lzg.2_Missense_Mutation_p.R565C|HMMR_uc011dem.1_Missense_Mutation_p.R494C|uc003lzi.2_Intron	NM_012484	NP_036616	O75330	HMMR_HUMAN	hyaluronan-mediated motility receptor isoform b	580						cell surface|cytoplasm	hyaluronic acid binding				0	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0296)|OV - Ovarian serous cystadenocarcinoma(192;0.0423)|Epithelial(171;0.0848)		TAACAAGTGGCGTCTCCTCTA	0.299													16	102					0	0	0.00499	0	0		T	162910329	T	T	162910329	3	4	4	1	0	0	0	0	1	0	0	0	7258	768	27	1	1799	1	HMMR	5	162910329	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3229572	162910329	18004931	1376	3342											
ODZ2	57451	broad.mit.edu	37	chr5	167645893	167645893	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caccgtgggcaccaatggagGcctcaaagtcgtgtccacac	10	6	11	14	2	1	0	1	0	0	0	3	1	2	1	4	3	0	1	4	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:167645893G>C	uc010jjd.2	+	23	4970	c.4970G>C	c.(4969-4971)GGC>GCC	p.G1657A	ODZ2_uc003lzr.3_Missense_Mutation_p.G1427A|ODZ2_uc003lzt.3_Missense_Mutation_p.G1030A|ODZ2_uc010jje.2_Missense_Mutation_p.G921A	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		ACCAATGGAGGCCTCAAAGTC	0.577													9	143					0	0	0.000978	0	0		C	167645893	C	C	167645893	3	2	4	1	0	0	0	0	1	0	0	0	10854	1203	42	5	5060	5	ODZ2	5	167645893	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4735564	167645893	13269367	1377	3343											
ODZ2	57451	broad.mit.edu	37	chr5	167673925	167673925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacccgcctgaaagcaatgCttcggtcatctttgactaca	11	10	7	13	2	2	2	1	2	1	0	3	2	2	2	2	1	4	2	2	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:167673925C>T	uc010jjd.2	+	27	5954	c.5954C>T	c.(5953-5955)GCT>GTT	p.A1985V	ODZ2_uc003lzr.3_Missense_Mutation_p.A1755V|ODZ2_uc003lzt.3_Missense_Mutation_p.A1358V|ODZ2_uc010jje.2_Missense_Mutation_p.A1249V	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		GAAAGCAATGCTTCGGTCATC	0.547													5	58					0	0	0.001168	0	0		T	167673925	T	T	167673925	3	4	4	1	0	0	0	0	1	0	0	0	10854	797	28	2	6060	2	ODZ2	5	167673925	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	28032	167673925	13241335	1378	3344											
RARS	5917	broad.mit.edu	37	chr5	167944920	167944920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggaatggaaactaggcCggtgcattttacggttccct	11	10	12	8	2	0	1	0	0	0	1	1	3	1	3	2	5	3	2	2	5	5	4	rs147793623		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:167944920C>T	uc003lzx.2	+	14	1767	c.1726C>T	c.(1726-1728)CGG>TGG	p.R576W	RARS_uc011deo.1_Missense_Mutation_p.R370W	NM_002887	NP_002878	P54136	SYRC_HUMAN	arginyl-tRNA synthetase	576					arginyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|skin(1)	3	Renal(175;0.000159)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0208)|all_neural(177;0.0227)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0693)|Epithelial(171;0.131)|OV - Ovarian serous cystadenocarcinoma(192;0.156)		GAAACTAGGCCGGTGCATTTT	0.408													12	83					0	0	0.000978	0	0		T	167944920	T	T	167944920	3	4	4	1	0	0	0	0	1	0	0	0	13083	643	23	1	1780	1	RARS	5	167944920	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	270995	167944920	12970340	1379	3345											
DOCK2	1794	broad.mit.edu	37	chr5	169230209	169230209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtccttagctaccaggatgCggtgagtcctcctgatgatg	8	11	12	10	1	0	3	0	3	0	0	3	4	3	4	4	2	3	1	4	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:169230209C>T	uc003maf.2	+	26	2782	c.2702C>T	c.(2701-2703)GCG>GTG	p.A901V	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.A393V	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	901					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TACCAGGATGCGGTGAGTCCT	0.468													16	52					0	0	0.00499	0	0		T	169230209	T	T	169230209	3	4	4	1	0	0	0	0	1	0	0	0	4693	782	27	1	2804	1	DOCK2	5	169230209	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1285289	169230209	11685051	1380	3346											
DOCK2	1794	broad.mit.edu	37	chr5	169463553	169463553	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacaacagggaggagatgtAcataaggtaagattcatatt	17	10	10	4	0	1	2	1	0	0	2	1	4	1	3	0	3	3	2	0	3	6	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:169463553A>G	uc003maf.2	+	36	3739	c.3659A>G	c.(3658-3660)TAC>TGC	p.Y1220C	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.Y712C	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1220	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAGGAGATGTACATAAGGTAA	0.284													16	59					0	0	0.004007	0	0		G	169463553	G	G	169463553	3	3	4	1	0	0	0	0	1	0	0	0	4693	391	14	3	3801	3	DOCK2	5	169463553	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	233344	169463553	11451707	1381	3347											
FOXI1	2299	broad.mit.edu	37	chr5	169535053	169535053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccctttcacttttgtatcagGcaaagggaattactggaccc	10	12	8	11	0	2	0	2	0	0	0	2	2	2	2	2	3	1	2	2	3	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:169535053G>A	uc003mai.3	+	2	620	c.575G>A	c.(574-576)GGC>GAC	p.G192D	FOXI1_uc003maj.3_Intron	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	192	Fork-head.				epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TTTGTATCAGGCAAAGGGAAT	0.423									Pendred_syndrome				18	35					0	0	0.008871	0	0		A	169535053	A	A	169535053	3	1	4	1	0	0	0	0	1	0	0	0	6023	1217	42	2	581	2	FOXI1	5	169535053	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	71500	169535053	11380207	1382	3348											
SH3PXD2B	285590	broad.mit.edu	37	chr5	171777377	171777377	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcactcactctgcttggcGtcaccgtcgggcaccgggcg	4	9	13	15	5	4	0	3	0	1	0	5	0	4	0	2	3	1	2	2	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:171777377G>A	uc003mbr.2	-	10	1173	c.1002C>T	c.(1000-1002)GAC>GAT	p.D334D		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	334					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TCTGCTTGGCGTCACCGTCGG	0.493													4	15					0	0	0.004482	0	0		A	171777377	A	A	171777377	2	1	4	1	0	0	0	0	0	0	0	1	14282	1136	40	1		1	SH3PXD2B	5	171777377	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2242324	171777377	9137883	1383	3349											
CPEB4	80315	broad.mit.edu	37	chr5	173317732	173317732	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcccctgaactccatctcGcctttgaagaaaaattttgc	11	11	6	13	2	1	3	0	2	1	1	3	3	2	3	4	0	2	0	4	0	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:173317732G>A	uc003mcs.3	+	1	2402	c.996G>A	c.(994-996)TCG>TCA	p.S332S	CPEB4_uc010jju.1_Silent_p.S332S|CPEB4_uc010jjv.2_Silent_p.S332S|CPEB4_uc011dfg.1_Silent_p.S332S|CPEB4_uc003mct.3_5'Flank|CPEB4_uc003mcu.3_5'Flank	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	332							nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			ACTCCATCTCGCCTTTGAAGA	0.537													13	54					0	0	0.001855	0	0		A	173317732	A	A	173317732	2	1	4	1	0	0	0	0	0	0	0	1	3806	1074	38	1		1	CPEB4	5	173317732	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1540355	173317732	7597528	1384	3350											
CPLX2	10814	broad.mit.edu	37	chr5	175306958	175306958	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggccatccctgcgggctgCggggacgaggaggaggagga	9	3	20	9	3	0	0	0	0	0	0	1	6	1	5	2	8	2	1	2	8	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:175306958C>T	uc003mde.1	+	5	661	c.315C>T	c.(313-315)TGC>TGT	p.C105C	CPLX2_uc003mdf.1_Silent_p.C105C	NM_006650	NP_006641	Q6PUV4	CPLX2_HUMAN	complexin 2	105					mast cell degranulation|positive regulation of synaptic plasticity|vesicle docking involved in exocytosis	cytosol		p.C105C(1)		ovary(1)	1	all_cancers(89;0.004)|Renal(175;0.000269)|Lung NSC(126;0.00441)|all_lung(126;0.00747)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CTGCGGGCTGCGGGGACGAGG	0.627													3	8					0	0	0.009096	0	0		T	175306958	T	T	175306958	2	4	4	1	0	0	0	0	0	0	0	1	3808	776	27	1		1	CPLX2	5	175306958	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1989226	175306958	5608302	1385	3351											
FAF2	23197	broad.mit.edu	37	chr5	175919216	175919216	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttgctcttcgttttatacgGcctgaccctcgcagccgggt	4	14	10	13	4	1	1	0	1	1	0	3	1	1	1	3	2	3	3	3	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:175919216G>A	uc003mej.3	+	5	419	c.366G>A	c.(364-366)CGG>CGA	p.R122R		NM_014613	NP_055428	Q96CS3	FAF2_HUMAN	UBX domain containing 8	122					response to unfolded protein	endoplasmic reticulum|lipid particle	protein binding			ovary(1)	1						GTTTTATACGGCCTGACCCTC	0.478													23	69					0	0	0.005443	0	0		A	175919216	A	A	175919216	2	1	4	1	0	0	0	0	0	0	0	1	5381	1190	42	2		2	FAF2	5	175919216	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	612258	175919216	4996044	1386	3352											
CDHR2	54825	broad.mit.edu	37	chr5	176011688	176011688	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaatgtgaaagacgtgaaCgacaatccccccaccctgga	13	6	10	12	2	0	4	0	3	0	1	1	6	1	5	4	1	1	0	4	1	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:176011688C>T	uc003mem.1	+	19	2472	c.2406C>T	c.(2404-2406)AAC>AAT	p.N802N	CDHR2_uc003men.1_Silent_p.N802N	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	802	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						AAGACGTGAACGACAATCCCC	0.592													30	74					0	0	0.002096	0	0		T	176011688	T	T	176011688	2	4	4	1	0	0	0	0	0	0	0	1	3122	535	19	1		1	CDHR2	5	176011688	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	92472	176011688	4903572	1387	3353											
NSD1	64324	broad.mit.edu	37	chr5	176638555	176638555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaagccttaaagaccgagcGcaaaagaaaactgaatcagc	19	5	8	9	2	1	3	1	1	0	2	1	4	1	3	2	0	4	1	2	0	9	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:176638555G>A	uc003mfr.3	+	5	3293	c.3155G>A	c.(3154-3156)CGC>CAC	p.R1052H	NSD1_uc003mft.3_Missense_Mutation_p.R783H|NSD1_uc003mfs.1_Missense_Mutation_p.R949H|NSD1_uc011dfx.1_Missense_Mutation_p.R700H	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1052					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		AAGACCGAGCGCAAAAGAAAA	0.478			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			55	136					0	0	0.00361	0	0		A	176638555	A	A	176638555	3	1	4	1	0	0	0	0	1	0	0	0	10688	1087	38	1	3169	1	NSD1	5	176638555	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	626867	176638555	4276705	1388	3354											
NSD1	64324	broad.mit.edu	37	chr5	176638998	176638998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaccctgtgcaggaggggCgggatgagtttccagagcat	8	8	17	8	1	0	3	0	2	0	1	1	5	1	5	2	4	2	3	2	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:176638998C>T	uc003mfr.3	+	5	3736	c.3598C>T	c.(3598-3600)CGG>TGG	p.R1200W	NSD1_uc003mft.3_Missense_Mutation_p.R931W|NSD1_uc003mfs.1_Missense_Mutation_p.R1097W|NSD1_uc011dfx.1_Missense_Mutation_p.R848W	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1200					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		GCAGGAGGGGCGGGATGAGTT	0.488			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			12	71					0	0	0.00245	0	0		T	176638998	T	T	176638998	3	4	4	1	0	0	0	0	1	0	0	0	10688	759	27	1	3612	1	NSD1	5	176638998	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	443	176638998	4276262	1389	3355											
NSD1	64324	broad.mit.edu	37	chr5	176665366	176665366	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcttgaaagggaggctccGtttttggagggccccttggc	5	12	15	9	1	1	1	0	1	1	0	2	3	2	3	3	5	0	3	3	5	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:176665366G>A	uc003mfr.3	+	7	4188	c.4050G>A	c.(4048-4050)CCG>CCA	p.P1350P	NSD1_uc003mft.3_Silent_p.P1081P|NSD1_uc003mfs.1_Silent_p.P1247P|NSD1_uc011dfx.1_Silent_p.P998P	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1350					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		GGGAGGCTCCGTTTTTGGAGG	0.537			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			5	99					0	0	0.001168	0	0		A	176665366	A	A	176665366	2	1	4	1	0	0	0	0	0	0	0	1	10688	1132	40	1		1	NSD1	5	176665366	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	26368	176665366	4249894	1390	3356											
DDX41	51428	broad.mit.edu	37	chr5	176941755	176941755	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcccccaatgcagagggcGcagcgcaggagtggtgagct	9	5	16	11	2	0	2	0	1	0	1	0	3	0	3	2	3	4	4	2	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:176941755G>A	uc003mho.2	-	9	903	c.882C>T	c.(880-882)TGC>TGT	p.C294C	DDX41_uc003mhm.2_Silent_p.C74C|DDX41_uc003mhn.2_Silent_p.C163C|DDX41_uc003mhp.2_Silent_p.C163C|DDX41_uc003mhq.1_Silent_p.C74C	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	294	Helicase ATP-binding.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			TGCAGAGGGCGCAGCGCAGGA	0.657													19	33					0	0	0.002299	0	0		A	176941755	A	A	176941755	2	1	4	1	0	0	0	0	0	0	0	1	4364	1079	38	1		1	DDX41	5	176941755	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	276389	176941755	3973505	1391	3357											
FAM193B	54540	broad.mit.edu	37	chr5	176965990	176965990	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacccacagaggcatctcGcctaggagattcttgacgag	11	7	11	12	2	2	4	0	1	2	3	3	6	2	4	2	2	0	1	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:176965990G>A	uc003mhs.3	-	3	1619	c.30C>T	c.(28-30)GGC>GGT	p.G10G	FAM193B_uc003mht.2_5'Flank|FAM193B_uc003mhu.2_5'Flank|FAM193B_uc003mhv.2_5'UTR|FAM193B_uc003mhw.2_RNA	NM_019057	NP_061930	E9PET5	E9PET5_HUMAN	hypothetical protein LOC54540	123											0						GAGGCATCTCGCCTAGGAGAT	0.552													24	51					0	0	0.00632	0	0		A	176965990	A	A	176965990	2	1	4	1	0	0	0	0	0	0	0	1	5536	1074	38	1		1	FAM193B	5	176965990	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	24235	176965990	3949270	1392	3358											
B4GALT7	11285	broad.mit.edu	37	chr5	177035954	177035954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgggtacaagacatttcGccacctgcatgacccagcct	11	8	8	14	1	0	2	0	1	0	1	1	2	0	2	4	1	4	2	4	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:177035954G>A	uc003mhy.2	+	5	807	c.767G>A	c.(766-768)CGC>CAC	p.R256H	B4GALT7_uc003mhz.2_Missense_Mutation_p.R142H	NM_007255	NP_009186	Q9UBV7	B4GT7_HUMAN	xylosylprotein beta 1,4-galactosyltransferase 7	256	Lumenal (Potential).				fibril organization|glycosaminoglycan biosynthetic process|negative regulation of fibroblast proliferation|protein modification process|proteoglycan metabolic process	Golgi cisterna membrane|integral to membrane	metal ion binding|xylosylprotein 4-beta-galactosyltransferase activity			pancreas(1)	1	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAGACATTTCGCCACCTGCAT	0.607													6	64					0	0	0.001984	0	0		A	177035954	A	A	177035954	3	1	4	1	0	0	0	0	1	0	0	0	1277	1087	38	1	785	1	B4GALT7	5	177035954	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	69964	177035954	3879306	1393	3359											
CLK4	57396	broad.mit.edu	37	chr5	178032359	178032359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taatattcgttccatcattgCcaggtgctctttactatcat	9	17	5	10	1	3	0	2	0	1	0	5	0	4	0	2	1	3	2	2	1	4	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:178032359C>T	uc003mjf.1	-	11	1267	c.1159G>A	c.(1159-1161)GCA>ACA	p.A387T	CLK4_uc003mjg.1_Missense_Mutation_p.A351T|CLK4_uc010jku.1_Missense_Mutation_p.A207T|CLK4_uc003mjh.1_Missense_Mutation_p.A207T|CLK4_uc010jkv.1_RNA|CLK4_uc011dgg.1_Intron|CLK4_uc011dgh.1_Missense_Mutation_p.A207T	NM_020666	NP_065717	Q9HAZ1	CLK4_HUMAN	CDC-like kinase 4	387	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(1)	1	all_cancers(89;0.000969)|Renal(175;0.000159)|all_epithelial(37;0.000451)|Lung NSC(126;0.00545)|all_lung(126;0.00918)	all_cancers(40;0.0272)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.235)		TCCATCATTGCCAGGTGCTCT	0.323													4	49					0	0	0.009096	0	0		T	178032359	T	T	178032359	3	4	4	1	0	0	0	0	1	0	0	0	3542	739	26	2	298	2	CLK4	5	178032359	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	996405	178032359	2882901	1394	3360											
RUFY1	80230	broad.mit.edu	37	chr5	178987036	178987036	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgccccacagcttctaagtgCcagatgatggaggagcgtgc	9	8	13	11	1	1	2	0	1	1	1	1	4	1	4	3	2	5	1	3	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:178987036C>T	uc003mka.1	+	2	321	c.321C>T	c.(319-321)TGC>TGT	p.C107C	RUFY1_uc003mkb.1_5'UTR|RUFY1_uc003mkc.1_5'UTR	NM_025158	NP_079434	Q96T51	RUFY1_HUMAN	RUN and FYVE domain-containing 1 isoform a	107					endocytosis|protein transport	early endosome membrane	lipid binding|zinc ion binding			ovary(4)|breast(1)	5	all_cancers(89;0.00018)|all_epithelial(37;8.37e-05)|Renal(175;0.000159)|Lung NSC(126;0.00108)|all_lung(126;0.00195)	all_cancers(40;0.0322)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTTCTAAGTGCCAGATGATGG	0.602										HNSCC(44;0.11)			9	28					0	0	0.006214	0	0		T	178987036	T	T	178987036	2	4	4	1	0	0	0	0	0	0	0	1	13763	747	26	2		2	RUFY1	5	178987036	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	954677	178987036	1928224	1395	3361											
SQSTM1	8878	broad.mit.edu	37	chr5	179250014	179250014	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaattgacaatggccatgTcctacgtgaaggatgacatc	13	9	11	8	1	0	3	0	3	0	0	2	5	1	5	2	3	1	0	2	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:179250014T>C	uc003mkw.3	+	2	357	c.262T>C	c.(262-264)TCC>CCC	p.S88P	SQSTM1_uc011dgr.1_Missense_Mutation_p.S4P|SQSTM1_uc011dgs.1_Missense_Mutation_p.S4P|SQSTM1_uc003mkv.3_Missense_Mutation_p.S88P|SQSTM1_uc003mkx.2_Missense_Mutation_p.S4P	NM_003900	NP_003891	Q13501	SQSTM_HUMAN	sequestosome 1 isoform 1	88	OPR.|Interaction with PRKCZ and dimerization (By similarity).				anti-apoptosis|apoptosis|cell differentiation|endosome transport|induction of apoptosis by extracellular signals|intracellular signal transduction|macroautophagy|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein localization|regulation of I-kappaB kinase/NF-kappaB cascade|ubiquitin-dependent protein catabolic process	cytosol|late endosome|nucleoplasm	protein kinase C binding|receptor tyrosine kinase binding|SH2 domain binding|ubiquitin binding|zinc ion binding		SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(89;0.000205)|all_epithelial(37;7.15e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0395)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AATGGCCATGTCCTACGTGAA	0.512									Paget_Disease_of_Bone				11	39					0	0	0.001368	0	0		C	179250014	C	C	179250014	3	2	4	1	0	0	0	0	1	0	0	0	15155	1667	58	3	268	3	SQSTM1	5	179250014	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	262978	179250014	1665246	1396	3362											
MAPK9	5601	broad.mit.edu	37	chr5	179676011	179676011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccaggatgacttcgggcGcccggtagtaccgtgtcacc	7	8	12	14	4	1	1	1	1	0	0	2	2	1	2	4	3	2	2	4	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:179676011G>A	uc003mls.3	-	6	849	c.578C>T	c.(577-579)GCG>GTG	p.A193V	MAPK9_uc003mlt.3_Missense_Mutation_p.A193V|MAPK9_uc010jlc.2_Missense_Mutation_p.A193V|MAPK9_uc003mlv.3_Missense_Mutation_p.A193V|MAPK9_uc011dgx.1_Missense_Mutation_p.A193V	NM_002752	NP_002743	P45984	MK09_HUMAN	mitogen-activated protein kinase 9 isoform JNK2	193	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|protein binding|protein binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)	4	all_cancers(89;6.54e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0236)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GACTTCGGGCGCCCGGTAGTA	0.552													30	215					0	0	0.002445	0	0		A	179676011	A	A	179676011	3	1	4	1	0	0	0	0	1	0	0	0	9305	1087	38	1	846	1	MAPK9	5	179676011	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	425997	179676011	1239249	1397	3363											
GFPT2	9945	broad.mit.edu	37	chr5	179745956	179745956	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggtgtgctctatgatagcGctggggcaagggaaacaggc	9	9	16	7	1	1	1	0	1	1	0	1	2	1	2	0	5	3	3	0	5	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:179745956G>A	uc003mlw.1	-	10	893	c.795C>T	c.(793-795)AGC>AGT	p.S265S		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	265	Glutamine amidotransferase type-2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	CTATGATAGCGCTGGGGCAAG	0.602													5	44					0	0	0.00308	0	0		A	179745956	A	A	179745956	2	1	4	1	0	0	0	0	0	0	0	1	6361	1101	38	1		1	GFPT2	5	179745956	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	69945	179745956	1169304	1398	3364											
EXOC2	55770	broad.mit.edu	37	chr6	549284	549284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttaggactatcaaaaggCgctgttcctaaaagcaaaac	16	9	7	9	1	1	0	1	0	0	0	2	1	2	1	1	2	3	3	1	2	9	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:549284C>T	uc003mtd.2	-	22	2263	c.2129G>A	c.(2128-2130)CGC>CAC	p.R710H	EXOC2_uc003mte.2_Missense_Mutation_p.R710H|EXOC2_uc011dho.1_Missense_Mutation_p.R305H	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	710					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		TATCAAAAGGCGCTGTTCCTA	0.358													16	99					0	0	0.004007	0	0		T	549284	T	T	549284	3	4	4	1	0	0	0	0	1	0	0	0	5310	768	27	1	673	1	EXOC2	6	549284	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08		549284	170565783	1399	3365											
EXOC2	55770	broad.mit.edu	37	chr6	576783	576783	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgaccagactgaaagctgCtgcccctcttcagggacgct	8	8	10	15	2	2	2	1	1	1	1	3	4	2	3	3	1	3	3	3	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:576783C>A	uc003mtd.2	-	12	1426	c.1292G>T	c.(1291-1293)AGC>ATC	p.S431I	EXOC2_uc003mte.2_Missense_Mutation_p.S431I|EXOC2_uc011dho.1_Missense_Mutation_p.S26I	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	431					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		CTGAAAGCTGCTGCCCCTCTT	0.493													13	41					9.31168e-06	9.82941e-06	0.001855	1	0		A	576783	A	A	576783	3	1	4	1	0	0	0	0	1	0	0	0	5310	797	28	5	1550	5	EXOC2	6	576783	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	27499	576783	170538284	1400	3366											
WRNIP1	56897	broad.mit.edu	37	chr6	2785298	2785298	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccaaagtccattgaggtgTacagcgcctacaacaacgtc	12	7	8	14	2	0	1	0	1	0	0	2	1	1	1	4	1	5	1	4	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:2785298T>C	uc003mtz.2	+	7	1971	c.1780T>C	c.(1780-1782)TAC>CAC	p.Y594H	WRNIP1_uc003mua.2_Missense_Mutation_p.Y569H	NM_020135	NP_064520	Q96S55	WRIP1_HUMAN	Werner helicase interacting protein isoform 1	594					DNA replication|DNA synthesis involved in DNA repair|regulation of DNA-dependent DNA replication initiation	mitochondrion|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|DNA binding|metal ion binding|protein binding			ovary(1)|pancreas(1)	2	Ovarian(93;0.0412)	all_hematologic(90;0.0895)				CATTGAGGTGTACAGCGCCTA	0.567													11	50					0	0	0.008291	0	0		C	2785298	C	C	2785298	3	2	4	1	0	0	0	0	1	0	0	0	17429	1638	57	3	1806	3	WRNIP1	6	2785298	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2208515	2785298	168329769	1401	3367											
SERPINB9	5272	broad.mit.edu	37	chr6	2900805	2900805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacagtatctttaaaaggCgtatggcaaaagtaccactt	15	10	8	8	1	1	0	0	0	1	0	1	1	1	0	1	2	1	4	1	2	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:2900805C>T	uc003mug.2	-	2	162	c.41G>A	c.(40-42)CGC>CAC	p.R14H	uc003mue.2_RNA|SERPINB9_uc003muh.2_Missense_Mutation_p.R14H	NM_004155	NP_004146	P50453	SPB9_HUMAN	serpin peptidase inhibitor, clade B, member 9	14					anti-apoptosis|cellular response to estrogen stimulus|immune response|mast cell mediated immunity|regulation of proteolysis	cytosol|extracellular space|nucleus	caspase inhibitor activity|protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.108)				CTTTAAAAGGCGTATGGCAAA	0.468													10	272					0	0	0.006214	0	0		T	2900805	T	T	2900805	3	4	4	1	0	0	0	0	1	0	0	0	14133	768	27	1	1113	1	SERPINB9	6	2900805	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	115507	2900805	168214262	1402	3368											
RIPK1	8737	broad.mit.edu	37	chr6	3083441	3083441	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccctctactacatggcGcccgagcacctgaatgacgt	9	7	10	15	3	1	2	0	2	1	0	1	3	1	2	3	2	3	2	3	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:3083441G>A	uc010jni.2	+	5	814	c.582G>A	c.(580-582)GCG>GCA	p.A194A	RIPK1_uc003muv.3_Silent_p.A31A|RIPK1_uc003muw.3_Silent_p.A129A|RIPK1_uc011dhs.1_Silent_p.A148A|RIPK1_uc003mux.2_Silent_p.A194A	NM_003804	NP_003795	Q13546	RIPK1_HUMAN	receptor (TNFRSF)-interacting serine-threonine	194	Protein kinase.				activation of caspase activity|activation of JUN kinase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|induction of necroptosis by extracellular signals|innate immune response|MyD88-independent toll-like receptor signaling pathway|positive regulation of anti-apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|protein autophosphorylation|regulation of ATP:ADP antiporter activity|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|death-inducing signaling complex|endosome membrane|mitochondrion|receptor complex	ATP binding|death domain binding|death receptor binding|protein serine/threonine kinase activity			large_intestine(3)|lung(1)|skin(1)	5	Ovarian(93;0.0386)	all_hematologic(90;0.0895)				ACTACATGGCGCCCGAGCACC	0.488													7	96					0	0	0.00308	0	0		A	3083441	A	A	3083441	2	1	4	1	0	0	0	0	0	0	0	1	13405	1074	38	1		1	RIPK1	6	3083441	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	182636	3083441	168031626	1403	3369											
FAM50B	26240	broad.mit.edu	37	chr6	3850869	3850869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtgcacgatgacgtgcGcctgctcagcgacgccacca	8	6	12	15	6	1	1	1	1	0	0	1	4	1	1	3	0	4	2	3	0	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:3850869G>A	uc003mvu.2	+	2	936	c.824G>A	c.(823-825)CGC>CAC	p.R275H		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	275						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				GATGACGTGCGCCTGCTCAGC	0.627													6	38					0	0	0.004482	0	0		A	3850869	A	A	3850869	3	1	4	1	0	0	0	0	1	0	0	0	5592	1087	38	1	826	1	FAM50B	6	3850869	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	767428	3850869	167264198	1404	3370											
CDYL	9425	broad.mit.edu	37	chr6	4935874	4935874	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaccagccttttgacaagCgattgcgtttcagcgtgagg	9	10	13	9	3	1	3	1	2	0	1	1	5	1	3	2	1	4	1	2	1	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:4935874C>T	uc003mwi.2	+	5	1110	c.979C>T	c.(979-981)CGA>TGA	p.R327*	CDYL_uc003mwj.2_Nonsense_Mutation_p.R273*|CDYL_uc003mwk.2_Nonsense_Mutation_p.R38*|CDYL_uc011dhx.1_Nonsense_Mutation_p.R141*|CDYL_uc011dhy.1_Nonsense_Mutation_p.R141*	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	327					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		TTTTGACAAGCGATTGCGTTT	0.453													7	167					0	0	0.001984	0	0		T	4935874	T	T	4935874	4	4	4	1	0	0	0	0	0	1	0	0	3188	760	27	1	827	1	CDYL	6	4935874	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1085005	4935874	166179193	1405	3371											
FARS2	10667	broad.mit.edu	37	chr6	5368994	5368994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaccctcaggacgaccacaGcaacctcacccggaaggtcc	11	4	8	18	2	2	0	2	0	0	0	3	3	3	2	5	3	3	1	5	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:5368994G>A	uc010jnv.1	+	2	527	c.191G>A	c.(190-192)AGC>AAC	p.S64N	FARS2_uc003mwr.2_Missense_Mutation_p.S64N|FARS2_uc003mws.1_Missense_Mutation_p.S64N	NM_006567	NP_006558	O95363	SYFM_HUMAN	phenylalanyl-tRNA synthetase 2 precursor	64					phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)	GACGACCACAGCAACCTCACC	0.607													4	46					0	0	0.000602	0	0		A	5368994	A	A	5368994	3	1	4	1	0	0	0	0	1	0	0	0	5692	971	34	2	193	2	FARS2	6	5368994	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	433120	5368994	165746073	1406	3372											
NRN1	51299	broad.mit.edu	37	chr6	6002648	6002648	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtagttggccatgctgtcGcccagcttgagcaaacagtc	8	9	13	11	1	0	1	0	1	0	0	2	1	0	1	2	2	4	5	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:6002648G>A	uc003mwu.2	-	2	789	c.138C>T	c.(136-138)GGC>GGT	p.G46G	NRN1_uc003mwt.2_Silent_p.G72G	NM_016588	NP_057672	Q9NPD7	NRN1_HUMAN	neuritin precursor	46						anchored to membrane|plasma membrane					0	Ovarian(93;0.0816)	all_hematologic(90;0.151)		OV - Ovarian serous cystadenocarcinoma(45;0.00415)		CCATGCTGTCGCCCAGCTTGA	0.607													11	66					0	0	0.001368	0	0		A	6002648	A	A	6002648	2	1	4	1	0	0	0	0	0	0	0	1	10677	1074	38	1		1	NRN1	6	6002648	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	633654	6002648	165112419	1407	3373											
RREB1	6239	broad.mit.edu	37	chr6	7229286	7229286	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcaacaccgttttgtctgCgacacctgtgacaaggcgtt	9	10	11	11	3	1	1	0	1	1	0	1	3	1	1	2	1	3	3	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7229286C>T	uc003mxc.2	+	10	1344	c.954C>T	c.(952-954)TGC>TGT	p.C318C	RREB1_uc003mxb.2_Silent_p.C318C|RREB1_uc010jnx.2_Silent_p.C318C	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	318	C2H2-type 6.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				GTTTTGTCTGCGACACCTGTG	0.567													5	32					0	0	0.001168	0	0		T	7229286	T	T	7229286	2	4	4	1	0	0	0	0	0	0	0	1	13704	776	27	1		1	RREB1	6	7229286	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1226638	7229286	163885781	1408	3374											
RREB1	6239	broad.mit.edu	37	chr6	7229303	7229303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgacacctgtgacaaggCgttccccatgctctgctcac	7	9	9	16	2	2	1	1	1	1	0	3	2	3	1	3	1	3	3	3	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7229303C>T	uc003mxc.2	+	10	1361	c.971C>T	c.(970-972)GCG>GTG	p.A324V	RREB1_uc003mxb.2_Missense_Mutation_p.A324V|RREB1_uc010jnx.2_Missense_Mutation_p.A324V	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	324	C2H2-type 6.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				TGTGACAAGGCGTTCCCCATG	0.592													4	27					0	0	0.009096	0	0		T	7229303	T	T	7229303	3	4	4	1	0	0	0	0	1	0	0	0	13704	768	27	1	997	1	RREB1	6	7229303	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	17	7229303	163885764	1409	3375											
RREB1	6239	broad.mit.edu	37	chr6	7247285	7247285	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccctccgacggggagagCgcggccgagaaaaggtcctc	8	3	16	14	5	0	2	0	0	0	2	3	5	2	2	5	5	1	0	5	5	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7247285C>T	uc003mxc.2	+	11	4827	c.4437C>T	c.(4435-4437)AGC>AGT	p.S1479S	RREB1_uc003mxb.2_Silent_p.S1534S|RREB1_uc010jnx.2_Intron	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1479					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				ACGGGGAGAGCGCGGCCGAGA	0.662													6	25					0	0	0.001984	0	0		T	7247285	T	T	7247285	2	4	4	1	0	0	0	0	0	0	0	1	13704	767	27	1		1	RREB1	6	7247285	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	17982	7247285	163867782	1410	3376											
DSP	1832	broad.mit.edu	37	chr6	7583315	7583315	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgatatcagagggagattgaTaaactcagacagcgcccata	15	7	10	9	2	2	4	2	1	0	3	2	6	2	4	1	1	2	0	1	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7583315T>C	uc003mxp.1	+	24	6099	c.5820T>C	c.(5818-5820)GAT>GAC	p.D1940D	DSP_uc003mxq.1_Silent_p.D1341D	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1940	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GGGAGATTGATAAACTCAGAC	0.517													22	82					0	0	0.002299	0	0		C	7583315	C	C	7583315	2	2	4	1	0	0	0	0	0	0	0	1	4787	1403	49	3		3	DSP	6	7583315	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	336030	7583315	163531752	1411	3377											
DSP	1832	broad.mit.edu	37	chr6	7584793	7584793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcaactaaaagaaagatGcattaaggatgaggaaacag	19	7	10	5	0	1	3	0	1	1	2	1	5	1	5	0	2	4	2	0	2	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7584793G>A	uc003mxp.1	+	24	7577	c.7298G>A	c.(7297-7299)TGC>TAC	p.C2433Y	DSP_uc003mxq.1_Missense_Mutation_p.C1834Y	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2433	Plectin 11.|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		AAAGAAAGATGCATTAAGGAT	0.413													18	142					0	0	0.007413	0	0		A	7584793	A	A	7584793	3	1	4	1	0	0	0	0	1	0	0	0	4787	1319	46	2	7392	2	DSP	6	7584793	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1478	7584793	163530274	1412	3378											
SNRNP48	154007	broad.mit.edu	37	chr6	7606353	7606353	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgacatagaagggataGgagtagaagcccacataaaa	18	6	10	7	1	1	2	1	0	0	2	1	5	1	4	1	2	1	1	1	2	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7606353G>T	uc003mxr.2	+	8	955	c.896G>T	c.(895-897)AGG>ATG	p.R299M	SNRNP48_uc003mxs.2_RNA|SNRNP48_uc003mxt.1_Missense_Mutation_p.R51M	NM_152551	NP_689764	Q6IEG0	SNR48_HUMAN	U11/U12 snRNP 48K	299	Arg-rich.				mRNA processing	cytoplasm|U12-type spliceosomal complex	metal ion binding				0						AGAAGGGATAGGAGTAGAAGC	0.428													15	83					0.00400662	0.00415876	0.004007	1	0		T	7606353	T	T	7606353	3	4	4	1	0	0	0	0	1	0	0	0	14882	1000	35	5	926	5	SNRNP48	6	7606353	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	21560	7606353	163508714	1413	3379											
SLC35B3	51000	broad.mit.edu	37	chr6	8428259	8428259	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggtaaggtaccagccacaGgacttaaaaccctccactga	15	6	8	12	0	0	1	0	1	0	0	1	2	1	2	4	3	3	2	4	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:8428259G>A	uc010joe.2	-	4	496	c.330C>T	c.(328-330)TCC>TCT	p.S110S	SLC35B3_uc003mya.2_Silent_p.S78S|SLC35B3_uc003myc.2_RNA|SLC35B3_uc003myb.2_Silent_p.S110S|SLC35B3_uc011did.1_Silent_p.S110S|SLC35B3_uc003myd.2_RNA	NM_001142541	NP_001136013	Q9H1N7	S35B3_HUMAN	solute carrier family 35, member B3	110					transmembrane transport	Golgi membrane|integral to membrane					0	Ovarian(93;0.0569)					ACCAGCCACAGGACTTAAAAC	0.378													27	143					0	0	0.00623	0	0		A	8428259	A	A	8428259	2	1	4	1	0	0	0	0	0	0	0	1	14602	987	35	4		4	SLC35B3	6	8428259	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	821906	8428259	162686808	1414	3380											
MAK	4117	broad.mit.edu	37	chr6	10809075	10809075	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acataatcagtgtatggtggCtgtgaccttaattctcttgc	9	15	9	8	0	2	1	1	1	1	0	3	1	2	1	1	2	1	2	1	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:10809075C>T	uc003mzl.2	-	5	688	c.459G>A	c.(457-459)CAG>CAA	p.Q153Q	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Silent_p.Q153Q|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	153	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				TGTATGGTGGCTGTGACCTTA	0.423													27	134					0	0	0.007291	0	0		T	10809075	T	T	10809075	2	4	4	1	0	0	0	0	0	0	0	1	9215	796	28	2		2	MAK	6	10809075	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2380816	10809075	160305992	1415	3381											
GCM2	9247	broad.mit.edu	37	chr6	10875058	10875058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctttgggaaggaagggcaagGctgccctggaatagggaagc	11	6	17	7	0	0	0	0	0	0	0	0	4	0	4	1	6	2	2	1	6	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:10875058G>A	uc003mzn.3	-	5	763	c.691C>T	c.(691-693)CCT>TCT	p.P231S	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	231					cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				GAAGGGCAAGGCTGCCCTGGA	0.458													7	93					0	0	0.001984	0	0		A	10875058	A	A	10875058	3	1	4	1	0	0	0	0	1	0	0	0	6313	1203	42	2	833	2	GCM2	6	10875058	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	65983	10875058	160240009	1416	3382											
SYCP2L	221711	broad.mit.edu	37	chr6	10924769	10924769	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatcatttacctgaagaaGcccatgattatcagctacaa	14	13	5	9	0	2	3	2	2	0	1	2	3	2	3	2	0	4	1	2	0	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:10924769G>A	uc003mzo.2	+	15	1409	c.1113G>A	c.(1111-1113)AAG>AAA	p.K371K	SYCP2L_uc011din.1_Silent_p.K212K|SYCP2L_uc010jow.2_5'UTR	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	371						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			ACCTGAAGAAGCCCATGATTA	0.249													9	54					0	0	0.000978	0	0		A	10924769	A	A	10924769	2	1	4	1	0	0	0	0	0	0	0	1	15458	962	34	2		2	SYCP2L	6	10924769	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	49711	10924769	160190298	1417	3383											
SYCP2L	221711	broad.mit.edu	37	chr6	10924823	10924823	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagaaatccattttgatttGcagttcaacatatcacaagt	15	14	5	7	0	2	2	2	1	0	1	3	2	3	2	1	0	2	2	1	0	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:10924823G>A	uc003mzo.2	+	15	1463	c.1167G>A	c.(1165-1167)TTG>TTA	p.L389L	SYCP2L_uc011din.1_Silent_p.L230L|SYCP2L_uc010jow.2_Silent_p.L9L	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	389						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			ATTTTGATTTGCAGTTCAACA	0.214													8	38					0	0	0.008291	0	0		A	10924823	A	A	10924823	2	1	4	1	0	0	0	0	0	0	0	1	15458	1310	46	2		2	SYCP2L	6	10924823	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	54	10924823	160190244	1418	3384											
NEDD9	4739	broad.mit.edu	37	chr6	11190445	11190445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtctgaagagggcctctgCgttggtgttgatggttgtgg	4	13	19	5	1	2	3	0	2	2	1	2	3	2	3	1	5	1	3	1	5	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:11190445C>T	uc003mzv.2	-	5	1824	c.1657G>A	c.(1657-1659)GCA>ACA	p.A553T	NEDD9_uc010joz.2_Missense_Mutation_p.A553T|NEDD9_uc003mzw.3_Missense_Mutation_p.A407T	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	553					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			AGGGCCTCTGCGTTGGTGTTG	0.592													6	99					0	0	0.001984	0	0		T	11190445	T	T	11190445	3	4	4	1	0	0	0	0	1	0	0	0	10332	768	27	1	859	1	NEDD9	6	11190445	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	265622	11190445	159924622	1419	3385											
EDN1	1906	broad.mit.edu	37	chr6	12296243	12296243	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatcttttcatgatcccaaGctgaaaggcaagccctccag	11	10	7	13	0	3	2	2	2	1	0	5	2	5	2	3	1	2	2	3	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:12296243G>T	uc003nae.3	+	5	916	c.582G>T	c.(580-582)AAG>AAT	p.K194N	EDN1_uc003nad.2_3'UTR|EDN1_uc003naf.3_Missense_Mutation_p.K193N	NM_001955	NP_001946	P05305	EDN1_HUMAN	endothelin 1 precursor	194					artery smooth muscle contraction|calcium-mediated signaling|leukocyte activation|negative regulation of blood coagulation|negative regulation of cellular protein metabolic process|negative regulation of nitric-oxide synthase biosynthetic process|negative regulation of transcription from RNA polymerase II promoter|nitric oxide transport|peptide hormone secretion|phosphatidylinositol 3-kinase cascade|positive regulation of cardiac muscle hypertrophy|positive regulation of cell size|positive regulation of endothelial cell migration|positive regulation of heart rate|positive regulation of hormone secretion|positive regulation of JUN kinase activity|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of sarcomere organization|positive regulation of smooth muscle cell proliferation|prostaglandin biosynthetic process|protein kinase C deactivation|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	cytoplasm|extracellular space	cytokine activity|endothelin A receptor binding|endothelin B receptor binding|hormone activity			skin(1)	1	all_cancers(95;0.241)|Breast(50;0.0266)|Ovarian(93;0.12)	all_hematologic(90;0.117)				ATGATCCCAAGCTGAAAGGCA	0.458													28	150					6.05902e-23	6.64722e-23	0.003755	1	0		T	12296243	T	T	12296243	3	4	4	1	0	0	0	0	1	0	0	0	4922	962	34	5	600	5	EDN1	6	12296243	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1105798	12296243	158818824	1420	3386											
RANBP9	10048	broad.mit.edu	37	chr6	13638133	13638133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggtgtttattactatggCaatatgattgatgtgcttta	10	18	9	4	0	0	2	0	2	0	0	0	2	0	2	0	2	2	3	0	2	6	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:13638133C>T	uc003nbb.2	-	10	1639	c.1580G>A	c.(1579-1581)TGC>TAC	p.C527Y	RANBP9_uc003nba.2_Missense_Mutation_p.C186Y	NM_005493	NP_005484	Q96S59	RANB9_HUMAN	RAN binding protein 9	527					axon guidance|microtubule nucleation|protein complex assembly	cytosol|microtubule associated complex|nucleus	Ran GTPase binding			lung(1)|skin(1)	2	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)			ATTACTATGGCAATATGATTG	0.313													14	79					0	0	0.00245	0	0		T	13638133	T	T	13638133	3	4	4	1	0	0	0	0	1	0	0	0	13057	710	25	2	629	2	RANBP9	6	13638133	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1341890	13638133	157476934	1421	3387											
DTNBP1	84062	broad.mit.edu	37	chr6	15627674	15627674	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctttttcttctcccagtgCgcagaaagcatgaccacctc	8	12	7	14	1	3	2	0	1	3	1	5	2	3	2	3	0	2	2	3	0	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:15627674C>T	uc003nbm.2	-	5	426	c.255G>A	c.(253-255)GCG>GCA	p.A85A	DTNBP1_uc003nbl.2_Silent_p.A4A|DTNBP1_uc003nbn.2_RNA|DTNBP1_uc003nbo.2_RNA|DTNBP1_uc003nbp.2_Silent_p.A85A|DTNBP1_uc010jph.2_Silent_p.A72A	NM_032122	NP_115498	Q96EV8	DTBP1_HUMAN	dystrobrevin binding protein 1 isoform a	85					actin cytoskeleton reorganization|cellular membrane organization|neuron projection morphogenesis|post-Golgi vesicle-mediated transport|regulation of dopamine receptor signaling pathway	axon part|BLOC-1 complex|cell junction|dendritic spine|endoplasmic reticulum membrane|endosome membrane|growth cone|melanosome membrane|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|synaptic vesicle membrane|synaptosome	identical protein binding				0	Breast(50;0.0289)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.211)			TCTCCCAGTGCGCAGAAAGCA	0.493									Hermansky-Pudlak_syndrome				5	36					0	0	0.00308	0	0		T	15627674	T	T	15627674	2	4	4	1	0	0	0	0	0	0	0	1	4796	755	27	1		1	DTNBP1	6	15627674	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1989541	15627674	155487393	1422	3388											
MYLIP	29116	broad.mit.edu	37	chr6	16143955	16143955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttatcctgtggtgcagatgGccacccagtcaggaaagaat	11	9	11	10	0	1	2	1	0	0	2	2	3	2	3	3	3	1	1	3	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:16143955G>A	uc003nbq.2	+	5	925	c.688G>A	c.(688-690)GCC>ACC	p.A230T	MYLIP_uc003nbr.2_Missense_Mutation_p.A49T	NM_013262	NP_037394	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting	230	FERM.				cellular component movement|nervous system development	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)			GGTGCAGATGGCCACCCAGTC	0.483													6	93					0	0	0.001984	0	0		A	16143955	A	A	16143955	3	1	4	1	0	0	0	0	1	0	0	0	10073	1203	42	2	706	2	MYLIP	6	16143955	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	516281	16143955	154971112	1423	3389											
CAP2	10486	broad.mit.edu	37	chr6	17421836	17421836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggaacgagctgtcagccGcctggagtcgctgtctgcag	7	8	14	12	3	2	0	1	0	1	0	3	3	2	2	2	2	4	3	2	2	1	0	rs141863829		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:17421836G>A	uc003ncb.2	+	2	293	c.50G>A	c.(49-51)CGC>CAC	p.R17H	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Missense_Mutation_p.R17H|CAP2_uc011djb.1_Missense_Mutation_p.R17H|CAP2_uc011djc.1_Missense_Mutation_p.R17H|CAP2_uc011djd.1_Missense_Mutation_p.R17H	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	17					activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			GCTGTCAGCCGCCTGGAGTCG	0.567													13	79					0	0	0.001368	0	0		A	17421836	A	A	17421836	3	1	4	1	0	0	0	0	1	0	0	0	2623	1087	38	1	52	1	CAP2	6	17421836	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1277881	17421836	153693231	1424	3390											
CAP2	10486	broad.mit.edu	37	chr6	17543142	17543142	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggcttacattttcaaatgCgaaaaatcaactattcagat	15	13	6	7	1	3	1	3	0	0	1	3	2	3	1	0	1	3	1	0	1	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:17543142C>T	uc003ncb.2	+	10	1320	c.1077C>T	c.(1075-1077)TGC>TGT	p.C359C	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Silent_p.C333C|CAP2_uc011djb.1_Silent_p.C295C|CAP2_uc011djc.1_Silent_p.C247C|CAP2_uc011djd.1_Silent_p.C99C	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	359	C-CAP/cofactor C-like.				activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			TTTTCAAATGCGAAAAATCAA	0.333													8	136					0	0	0.006214	0	0		T	17543142	T	T	17543142	2	4	4	1	0	0	0	0	0	0	0	1	2623	776	27	1		1	CAP2	6	17543142	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	121306	17543142	153571925	1425	3391											
NUP153	9972	broad.mit.edu	37	chr6	17637996	17637996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaatctatcttcggcgatgCgaaacctacaatgaacgaag	15	8	9	9	4	2	2	0	1	2	1	3	5	2	2	1	1	4	0	1	1	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:17637996C>T	uc003ncd.1	-	16	2052	c.1852G>A	c.(1852-1854)GCA>ACA	p.A618T	NUP153_uc011dje.1_Missense_Mutation_p.A649T|NUP153_uc010jpl.1_Missense_Mutation_p.A576T	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	618					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			TTCGGCGATGCGAAACCTACA	0.403													23	61					0	0	0.002299	0	0		T	17637996	T	T	17637996	3	4	4	1	0	0	0	0	1	0	0	0	10774	768	27	1	2603	1	NUP153	6	17637996	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	94854	17637996	153477071	1426	3392											
KDM1B	221656	broad.mit.edu	37	chr6	18200736	18200736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgataaatcttttaaaggcGtcacagtgggaagaggagct	14	10	12	5	1	2	2	1	1	1	1	2	4	2	4	0	3	1	1	0	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:18200736G>A	uc003nco.1	+	6	754	c.679G>A	c.(679-681)GTC>ATC	p.V227I	KDM1B_uc003ncn.1_Missense_Mutation_p.V298I	NM_153042	NP_694587	Q8NB78	KDM1B_HUMAN	amine oxidase (flavin containing) domain 1	430	FAD (Potential).				multicellular organismal development|regulation of DNA methylation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-monomethyl-K4 specific)|oxidoreductase activity|zinc ion binding			skin(1)	1						TTTTAAAGGCGTCACAGTGGG	0.428													13	86					0	0	0.003163	0	0		A	18200736	A	A	18200736	3	1	4	1	0	0	0	0	1	0	0	0	8139	1145	40	1	926	1	KDM1B	6	18200736	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	562740	18200736	152914331	1427	3393											
MBOAT1	154141	broad.mit.edu	37	chr6	20118754	20118754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgaacccaaagccagctgCgttattcactgcatcagcta	11	9	8	13	1	2	1	2	1	0	0	2	1	2	1	2	0	6	5	2	0	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:20118754C>T	uc003ncx.1	-	9	1130	c.925G>A	c.(925-927)GCA>ACA	p.A309T	MBOAT1_uc011dji.1_Missense_Mutation_p.A160T	NM_001080480	NP_001073949	Q6ZNC8	MBOA1_HUMAN	membrane bound O-acyltransferase domain	309	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(95;0.244)|Breast(50;0.0379)|Ovarian(93;0.0473)|all_epithelial(95;0.109)		OV - Ovarian serous cystadenocarcinoma(7;0.00392)|all cancers(50;0.0117)|Epithelial(50;0.0454)			AAGCCAGCTGCGTTATTCACT	0.393													17	53					0	0	0.010504	0	0		T	20118754	T	T	20118754	3	4	4	1	0	0	0	0	1	0	0	0	9374	768	27	1	582	1	MBOAT1	6	20118754	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1918018	20118754	150996313	1428	3394											
E2F3	1871	broad.mit.edu	37	chr6	20481611	20481611	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatcaccaacgttctggaagGcatccacctcattaagaaga	14	9	7	11	1	3	2	2	0	1	2	4	3	4	3	3	2	1	2	3	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:20481611G>T	uc003nda.2	+	3	1007	c.680G>T	c.(679-681)GGC>GTC	p.G227V	E2F3_uc003ncz.2_Missense_Mutation_p.G221V	NM_001949	NP_001940	O00716	E2F3_HUMAN	E2F transcription factor 3	227	Potential.|DEF box.				G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(95;0.154)|all_epithelial(95;0.0585)|Breast(50;0.146)|Ovarian(93;0.148)		OV - Ovarian serous cystadenocarcinoma(7;0.0068)|all cancers(50;0.0148)|Epithelial(50;0.0562)			GTTCTGGAAGGCATCCACCTC	0.483													65	239					3.07281e-33	3.3768e-33	0.00361	1	0		T	20481611	T	T	20481611	3	4	4	1	0	0	0	0	1	0	0	0	4874	1203	42	5	690	5	E2F3	6	20481611	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	362857	20481611	150633456	1429	3395											
CDKAL1	54901	broad.mit.edu	37	chr6	20546663	20546663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaaaaccacaagataggCattttgtaagaaaggatgtt	17	11	8	5	0	1	2	1	0	0	2	1	3	1	3	1	2	1	3	1	2	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:20546663C>T	uc003ndc.1	+	3	256	c.82C>T	c.(82-84)CAT>TAT	p.H28Y	CDKAL1_uc003ndd.1_Missense_Mutation_p.H28Y|CDKAL1_uc003nde.1_5'UTR|CDKAL1_uc010jpo.1_Missense_Mutation_p.H28Y|CDKAL1_uc003ndb.1_Missense_Mutation_p.H28Y	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	28					RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			ACAAGATAGGCATTTTGTAAG	0.408													13	104					0	0	0.001855	0	0		T	20546663	T	T	20546663	3	4	4	1	0	0	0	0	1	0	0	0	3155	710	25	2	84	2	CDKAL1	6	20546663	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	65052	20546663	150568404	1430	3396											
PRL	5617	broad.mit.edu	37	chr6	22294697	22294697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgggacaggacgacggcgcGgtcaaacaggtctcgaaggg	10	4	18	9	5	2	0	1	0	1	0	3	4	2	2	0	6	1	0	0	6	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:22294697G>A	uc003ndp.2	-	2	664	c.145C>T	c.(145-147)CGC>TGC	p.R49C	PRL_uc003ndo.2_Missense_Mutation_p.R50C|PRL_uc003ndq.2_Missense_Mutation_p.R49C|PRL_uc003ndr.1_RNA	NM_000948	NP_000939	P01236	PRL_HUMAN	prolactin precursor	49					cell proliferation|cell surface receptor linked signaling pathway|female pregnancy|lactation|positive regulation of JAK-STAT cascade|regulation of multicellular organism growth	cytosol|extracellular region	hormone activity|prolactin receptor binding				0	Ovarian(93;0.163)					ACGACGGCGCGGTCAAACAGG	0.597													4	46					0	0	0.009096	0	0		A	22294697	A	A	22294697	3	1	4	1	0	0	0	0	1	0	0	0	12550	1116	39	1	554	1	PRL	6	22294697	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1748034	22294697	148820370	1431	3397											
KIAA0319	9856	broad.mit.edu	37	chr6	24588855	24588855	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtaggagatatgggtagCtcagatggggtggactcaga	10	9	18	4	0	2	3	2	0	0	3	2	5	2	4	0	6	1	3	0	6	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:24588855C>T	uc011djo.1	-	4	1197	c.960G>A	c.(958-960)GAG>GAA	p.E320E	KIAA0319_uc011djp.1_Silent_p.E275E|KIAA0319_uc003neh.1_Silent_p.E320E|KIAA0319_uc011djq.1_Silent_p.E311E|KIAA0319_uc011djr.1_Silent_p.E320E	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	320	Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						ATATGGGTAGCTCAGATGGGG	0.507													4	83					0	0	0.001984	0	0		T	24588855	T	T	24588855	2	4	4	1	0	0	0	0	0	0	0	1	8184	796	28	2		2	KIAA0319	6	24588855	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2294158	24588855	146526212	1432	3398											
C6orf62	81688	broad.mit.edu	37	chr6	24714622	24714622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgattttttcaatatcattcCgaggccaaagaatgaaatcc	14	12	6	9	2	2	2	2	1	0	1	4	4	4	2	3	1	0	0	3	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:24714622C>T	uc003nel.2	-	3	860	c.353G>A	c.(352-354)CGG>CAG	p.R118Q		NM_030939	NP_112201	Q9GZU0	CF062_HUMAN	hypothetical protein LOC81688	118						intracellular					0						AATATCATTCCGAGGCCAAAG	0.343													26	80					0	0	0.00333	0	0		T	24714622	T	T	24714622	3	4	4	1	0	0	0	0	1	0	0	0	2371	652	23	1	348	1	C6orf62	6	24714622	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	125767	24714622	146400445	1433	3399											
LRRC16A	55604	broad.mit.edu	37	chr6	25594745	25594745	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaccaagaaggtgaccaaaAtggattccaagtgagttcag	15	9	10	7	0	1	3	1	2	0	1	2	4	2	4	3	2	1	1	3	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:25594745A>G	uc011djw.1	+	32	3485	c.3109A>G	c.(3109-3111)ATG>GTG	p.M1037V	LRRC16A_uc010jpx.2_Missense_Mutation_p.M1037V|LRRC16A_uc010jpy.2_Missense_Mutation_p.M1037V	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	1037	Inhibits capping activity of CAPZA2 (By similarity).				actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						GGTGACCAAAATGGATTCCAA	0.343													5	60					0	0	0.001168	0	0		G	25594745	G	G	25594745	3	3	4	1	0	0	0	0	1	0	0	0	8989	101	4	3	3235	3	LRRC16A	6	25594745	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	880123	25594745	145520322	1434	3400											
HIST1H1A	3024	broad.mit.edu	37	chr6	26017792	26017792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccaacgacacaccaccacGctccttagaggaggaagcag	13	4	10	14	2	0	1	0	0	0	1	1	4	1	3	4	2	3	2	4	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26017792G>A	uc003nfo.2	-	1	249	c.169C>T	c.(169-171)CGT>TGT	p.R57C	HIST1H3A_uc003nfp.1_5'Flank	NM_005325	NP_005316	Q02539	H11_HUMAN	histone cluster 1, H1a	57	H15.				nucleosome assembly|spermatogenesis	nucleosome|nucleus	DNA binding			ovary(2)	2						ACACCACCACGCTCCTTAGAG	0.572													4	29					0	0	0.009096	0	0		A	26017792	A	A	26017792	3	1	4	1	0	0	0	0	1	0	0	0	7138	1087	38	1	482	1	HIST1H1A	6	26017792	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	423047	26017792	145097275	1435	3401											
HFE	3077	broad.mit.edu	37	chr6	26093362	26093362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttagagccctcaccgtctgGcaccctagtcattggagtca	8	11	9	13	1	4	1	3	0	1	1	4	2	4	2	3	2	1	1	3	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26093362G>A	uc003nfx.1	+	5	1068	c.908G>A	c.(907-909)GGC>GAC	p.G303D	HFE_uc003nfy.1_Missense_Mutation_p.G280D|HFE_uc010jqe.1_Missense_Mutation_p.G300D|HFE_uc003nfz.1_Missense_Mutation_p.G215D|HFE_uc003ngd.1_Missense_Mutation_p.G201D|HFE_uc003nga.1_Missense_Mutation_p.G289D|HFE_uc003ngb.1_Missense_Mutation_p.G197D|HFE_uc003ngc.1_Missense_Mutation_p.G211D|HFE_uc003nge.1_Missense_Mutation_p.G123D|HFE_uc003ngf.1_Missense_Mutation_p.G31D	NM_000410	NP_000401	Q30201	HFE_HUMAN	hemochromatosis protein isoform 1 precursor	303	Connecting peptide.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|cellular iron ion homeostasis|immune response|iron ion transport|protein complex assembly|receptor-mediated endocytosis	apical part of cell|basal part of cell|cytoplasmic vesicle|early endosome|integral to plasma membrane|MHC class I protein complex|perinuclear region of cytoplasm|recycling endosome	protein binding				0						TCACCGTCTGGCACCCTAGTC	0.448									Hemochromatosis				11	74					0	0	0.008291	0	0		A	26093362	A	A	26093362	3	1	4	1	0	0	0	0	1	0	0	0	7097	1203	42	2	926	2	HFE	6	26093362	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	75570	26093362	145021705	1436	3402											
HIST1H1T	3010	broad.mit.edu	37	chr6	26107824	26107824	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcctttagcctttctcccGctcctaacagttttaggagt	6	15	7	13	1	1	0	0	0	1	0	4	1	3	1	4	1	2	3	4	1	3	6	rs143215132	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26107824G>A	uc003ngj.2	-	1	541	c.498C>T	c.(496-498)AGC>AGT	p.S166S		NM_005323	NP_005314	P22492	H1T_HUMAN	histone cluster 1, H1t	166					cell differentiation|multicellular organismal development|nucleosome assembly|spermatogenesis	nucleosome	DNA binding			ovary(2)	2						CCTTTCTCCCGCTCCTAACAG	0.473													25	77					0	0	0.00632	0	0		A	26107824	A	A	26107824	2	1	4	1	0	0	0	0	0	0	0	1	7143	1078	38	1		1	HIST1H1T	6	26107824	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	14462	26107824	145007243	1437	3403											
HIST1H2AC	8334	broad.mit.edu	37	chr6	26124765	26124765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caaactgctaggccgggtgaCcattgctcagggcggcgtcc	7	7	14	13	3	1	1	1	1	0	0	2	1	2	1	3	4	3	2	3	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26124765C>T	uc003ngm.2	+	1	393	c.305C>T	c.(304-306)ACC>ATC	p.T102I	HIST1H2BC_uc003ngk.3_5'Flank|HIST1H2BC_uc003ngl.2_5'Flank|HIST1H2AC_uc003ngn.2_RNA|HIST1H2AC_uc003ngo.2_RNA|HIST1H2AC_uc003ngp.2_Missense_Mutation_p.T102I	NM_003512	NP_003503	Q93077	H2A1C_HUMAN	histone cluster 1, H2ac	102					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GGCCGGGTGACCATTGCTCAG	0.582													21	92					0	0	0.003954	0	0		T	26124765	T	T	26124765	3	4	4	1	0	0	0	0	1	0	0	0	7146	507	18	4	307	4	HIST1H2AC	6	26124765	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	16941	26124765	144990302	1438	3404											
HIST1H3E	8353	broad.mit.edu	37	chr6	26225715	26225715	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgaggacaccaacctgtgCgctattcatgccaaacgcgt	10	9	9	13	4	1	0	1	0	0	0	2	2	1	1	3	1	4	1	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26225715C>T	uc003nhb.2	+	2	693	c.333C>T	c.(331-333)TGC>TGT	p.C111C	HIST1H3E_uc003nhc.3_Silent_p.C111C	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	111					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.0223)|Acute lymphoblastic leukemia(11;0.0351)				CCAACCTGTGCGCTATTCATG	0.567											OREG0017240	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	84					0	0	0.000978	0	0		T	26225715	T	T	26225715	2	4	4	1	0	0	0	0	0	0	0	1	7175	776	27	1		1	HIST1H3E	6	26225715	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	100950	26225715	144889352	1439	3405											
HIST1H2BH	8345	broad.mit.edu	37	chr6	26252014	26252014	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtatacgtttacaaggtgCtgaagcaagtccaccccgac	11	8	9	13	3	0	1	0	1	0	0	1	2	1	1	4	1	4	4	4	1	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26252014C>T	uc003nhh.2	+	1	136	c.136C>T	c.(136-138)CTG>TTG	p.L46L	HIST1H3F_uc003nhg.1_5'Flank	NM_003524	NP_003515	Q93079	H2B1H_HUMAN	histone cluster 1, H2bh	46					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)	3						TTACAAGGTGCTGAAGCAAGT	0.557													45	154					0	0	0.00361	0	0		T	26252014	T	T	26252014	2	4	4	1	0	0	0	0	0	0	0	1	7163	796	28	2		2	HIST1H2BH	6	26252014	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	26299	26252014	144863053	1440	3406											
BTN2A2	10385	broad.mit.edu	37	chr6	26390250	26390250	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaatcctttatgcccagcGcatctccctggatggtggcc	7	10	10	14	1	1	1	0	0	1	1	3	2	2	2	4	3	2	1	4	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26390250G>A	uc003nhq.2	+	5	828	c.742G>A	c.(742-744)GCA>ACA	p.A248T	BTN2A2_uc011dkf.1_Missense_Mutation_p.A132T|BTN2A2_uc011dkg.1_Missense_Mutation_p.A154T|BTN2A2_uc003nhr.2_Missense_Mutation_p.A132T|BTN2A2_uc011dkh.1_Missense_Mutation_p.A38T|BTN2A2_uc003nhs.2_Missense_Mutation_p.A248T|BTN2A2_uc003nht.2_Missense_Mutation_p.A248T|BTN2A2_uc011dki.1_5'UTR	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	248	Extracellular (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						TATGCCCAGCGCATCTCCCTG	0.493													21	92					0	0	0.00333	0	0		A	26390250	A	A	26390250	3	1	4	1	0	0	0	0	1	0	0	0	1564	1087	38	1	756	1	BTN2A2	6	26390250	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	138236	26390250	144724817	1441	3407											
BTN2A2	10385	broad.mit.edu	37	chr6	26392964	26392964	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtccctttgccgggtgggCgtcttcctggactatgaagc	5	11	14	11	2	1	1	0	1	1	0	3	3	3	2	3	3	2	0	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26392964C>T	uc003nhq.2	+	8	1427	c.1341C>T	c.(1339-1341)GGC>GGT	p.G447G	BTN2A2_uc011dkg.1_3'UTR|BTN2A2_uc003nhr.2_Silent_p.G331G|BTN2A2_uc011dkh.1_Silent_p.G237G|BTN2A2_uc003nhs.2_Intron|BTN2A2_uc003nht.2_Silent_p.G447G|BTN2A2_uc011dki.1_3'UTR	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	447	B30.2/SPRY.|Cytoplasmic (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						GCCGGGTGGGCGTCTTCCTGG	0.537													17	49					0	0	0.010504	0	0		T	26392964	T	T	26392964	2	4	4	1	0	0	0	0	0	0	0	1	1564	755	27	1		1	BTN2A2	6	26392964	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2714	26392964	144722103	1442	3408											
BTN3A3	10384	broad.mit.edu	37	chr6	26452025	26452025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctgagagatttgaatggCgttactgtgtccttggctgt	7	14	12	8	1	0	3	0	2	0	1	1	4	1	3	2	2	1	2	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26452025C>T	uc003nhz.2	+	11	1321	c.1141C>T	c.(1141-1143)CGT>TGT	p.R381C	BTN3A3_uc003nia.2_Missense_Mutation_p.R339C|BTN3A3_uc011dkn.1_Missense_Mutation_p.R332C	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	381	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane					0						ATTTGAATGGCGTTACTGTGT	0.522													20	74					0	0	0.00333	0	0		T	26452025	T	T	26452025	3	4	4	1	0	0	0	0	1	0	0	0	1567	768	27	1	1175	1	BTN3A3	6	26452025	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	59061	26452025	144663042	1443	3409											
ABT1	29777	broad.mit.edu	37	chr6	26597319	26597319	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaatccgaagaagcggccTgtggcagcaagaaacgggta	14	4	15	8	3	0	2	0	0	0	2	1	4	1	3	2	4	3	3	2	4	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26597319T>C	uc003nii.2	+	1	140	c.109T>C	c.(109-111)TGT>CGT	p.C37R		NM_013375	NP_037507	Q9ULW3	ABT1_HUMAN	activator of basal transcription 1	37					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleolus	DNA binding|nucleotide binding|protein binding|RNA binding|transcription coactivator activity			ovary(1)	1						AGAAGCGGCCTGTGGCAGCAA	0.612													4	13					0	0	0.001984	0	0		C	26597319	C	C	26597319	3	2	4	1	0	0	0	0	1	0	0	0	101	1580	55	3	111	3	ABT1	6	26597319	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	145294	26597319	144517748	1444	3410											
HIST1H2BN	8341	broad.mit.edu	37	chr6	27806762	27806762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgctgccaggggagctggCcaagcacgcggtgtcggagg	6	5	19	11	3	0	0	0	0	0	0	1	2	0	2	2	6	4	4	2	6	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:27806762C>T	uc003njv.2	+	1	323	c.323C>T	c.(322-324)GCC>GTC	p.A108V	HIST1H2AK_uc003njs.2_5'Flank|HIST1H2BN_uc003njt.1_RNA|HIST1H2BN_uc003nju.1_Missense_Mutation_p.A108V	NM_003520	NP_003511	Q99877	H2B1N_HUMAN	histone cluster 1, H2bn	108					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GGGGAGCTGGCCAAGCACGCG	0.677													4	67					0	0	0.001168	0	0		T	27806762	T	T	27806762	3	4	4	1	0	0	0	0	1	0	0	0	7169	739	26	2	325	2	HIST1H2BN	6	27806762	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1209443	27806762	143308305	1445	3411											
ZNF193	7746	broad.mit.edu	37	chr6	28200861	28200861	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagaagccacacaggggagCgacctcaccagtgcattgaa	14	4	12	11	1	1	2	1	1	0	1	1	5	1	3	3	2	3	1	3	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:28200861C>T	uc003nkq.1	+	4	1205	c.1090C>T	c.(1090-1092)CGA>TGA	p.R364*	ZNF193_uc003nkr.1_Nonsense_Mutation_p.R364*|ZNF193_uc010jqz.1_Nonsense_Mutation_p.R415*	NM_006299	NP_006290	O15535	ZN193_HUMAN	zinc finger protein 193	364					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CACAGGGGAGCGACCTCACCA	0.498													8	52					0	0	0.004482	0	0		T	28200861	T	T	28200861	4	4	4	1	0	0	0	0	0	1	0	0	17782	760	27	1	1100	1	ZNF193	6	28200861	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	394099	28200861	142914206	1446	3412											
PGBD1	84547	broad.mit.edu	37	chr6	28251950	28251950	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaggcagtgacagtgctggaGaatctagagacaggaagtgg	13	6	17	5	0	1	3	0	1	1	2	1	7	1	4	0	4	1	2	0	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:28251950G>C	uc003nky.2	+	2	730	c.360G>C	c.(358-360)GAG>GAC	p.E120D	PGBD1_uc003nkz.2_Missense_Mutation_p.E120D	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	120	SCAN box.				viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						CAGTGCTGGAGAATCTAGAGA	0.517													16	81					0	0	0.008871	0	0		C	28251950	C	C	28251950	3	2	4	1	0	0	0	0	1	0	0	0	11799	933	33	5	362	5	PGBD1	6	28251950	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	51089	28251950	142863117	1447	3413											
OR14J1	442191	broad.mit.edu	37	chr6	29274617	29274617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccatcattaccgtggacCgtcgtctccattcccccatg	7	11	6	17	3	3	0	2	0	1	0	6	1	4	1	6	1	1	0	6	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29274617C>T	uc011dln.1	+	1	151	c.151C>T	c.(151-153)CGT>TGT	p.R51C		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	51	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TACCGTGGACCGTCGTCTCCA	0.468													36	126					0	0	0.004878	0	0		T	29274617	T	T	29274617	3	4	4	1	0	0	0	0	1	0	0	0	10967	652	23	1	153	1	OR14J1	6	29274617	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1022667	29274617	141840450	1448	3414											
OR5V1	81696	broad.mit.edu	37	chr6	29323210	29323210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtacatatgtaaagatggCgctgccataaaagagaaaga	17	7	10	7	2	0	3	0	0	0	3	0	4	0	3	2	1	2	3	2	1	7	4	rs141436521	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29323210C>T	uc011dlo.1	-	1	845	c.763G>A	c.(763-765)GCC>ACC	p.A255T		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4						GTAAAGATGGCGCTGCCATAA	0.453													6	64					0	0	0.001984	0	0		T	29323210	T	T	29323210	3	4	4	1	0	0	0	0	1	0	0	0	11203	768	27	1	205	1	OR5V1	6	29323210	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	48593	29323210	141791857	1449	3415											
OR10C1	442194	broad.mit.edu	37	chr6	29408113	29408113	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcttcctcttctttggCgccacggagtgctgcctcct	2	16	8	15	2	4	0	0	0	4	0	6	1	6	1	4	2	2	1	4	2	0	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29408113C>T	uc011dlp.1	+	1	321	c.321C>T	c.(319-321)GGC>GGT	p.G107G	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	107	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCTTCTTTGGCGCCACGGAGT	0.612													8	41					0	0	0.001368	0	0		T	29408113	T	T	29408113	2	4	4	1	0	0	0	0	0	0	0	1	10917	755	27	1		1	OR10C1	6	29408113	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	84903	29408113	141706954	1450	3416											
OR2H1	26716	broad.mit.edu	37	chr6	29430238	29430238	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggattaactctgccacagCatggagaaaggcctttggga	12	8	13	8	0	1	1	0	0	1	1	1	5	1	3	2	4	3	1	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29430238C>A	uc003nmi.2	+	3	1135	c.692C>A	c.(691-693)GCA>GAA	p.A231E	OR2H1_uc003nmj.1_Missense_Mutation_p.A231E|OR2H1_uc010jri.1_Missense_Mutation_p.A153E	NM_030883	NP_112145	Q9GZK4	OR2H1_HUMAN	olfactory receptor, family 2, subfamily H,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCTGCCACAGCATGGAGAAAG	0.542													15	139					1.33834e-09	1.43568e-09	0.007413	1	0		A	29430238	A	A	29430238	3	1	4	1	0	0	0	0	1	0	0	0	11020	710	25	5	694	5	OR2H1	6	29430238	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	22125	29430238	141684829	1451	3417											
MAS1L	116511	broad.mit.edu	37	chr6	29455184	29455184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acaccgctctgtgctgatggCcaccaggagacagagacaca	12	5	11	13	1	1	3	0	1	1	2	1	5	1	3	3	2	1	2	3	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29455184C>T	uc011dlq.1	-	1	496	c.496G>A	c.(496-498)GCC>ACC	p.A166T		NM_052967	NP_443199	P35410	MAS1L_HUMAN	MAS1 oncogene-like	166	Helical; Name=3; (Potential).					cytoplasm|integral to membrane|nucleus|plasma membrane	G-protein coupled receptor activity			ovary(7)|lung(2)	9						GTGCTGATGGCCACCAGGAGA	0.507													21	51					0	0	0.00278	0	0		T	29455184	T	T	29455184	3	4	4	1	0	0	0	0	1	0	0	0	9339	739	26	2	642	2	MAS1L	6	29455184	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24946	29455184	141659883	1452	3418											
MOG	4340	broad.mit.edu	37	chr6	29638111	29638111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taaccctgtttgtaattgtgCcggttcttggacccttggtt	5	17	10	9	1	1	0	0	0	1	0	1	1	1	1	3	3	2	4	3	3	2	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29638111C>T	uc003nnf.2	+	6	824	c.646C>T	c.(646-648)CCG>TCG	p.P216S	MOG_uc003nmy.1_Missense_Mutation_p.P216S|MOG_uc003nmz.2_3'UTR|MOG_uc011dlt.1_Missense_Mutation_p.P146S|MOG_uc003nna.2_Missense_Mutation_p.P100S|MOG_uc011dlu.1_Intron|MOG_uc011dlv.1_Intron|MOG_uc003nnd.2_3'UTR|MOG_uc003nne.2_Missense_Mutation_p.P216S|MOG_uc003nng.2_Intron|MOG_uc003nnh.2_Intron|MOG_uc003nni.2_Intron|MOG_uc003nnj.2_Intron|MOG_uc003nnk.2_Intron	NM_206809	NP_996532	Q16653	MOG_HUMAN	myelin oligodendrocyte glycoprotein isoform	216	Helical; (Potential).				cell adhesion|central nervous system development|positive regulation of MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)	1						TGTAATTGTGCCGGTTCTTGG	0.507													5	116					0	0	0.004482	0	0		T	29638111	T	T	29638111	3	4	4	1	0	0	0	0	1	0	0	0	9711	739	26	2	804	2	MOG	6	29638111	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	182927	29638111	141476956	1453	3419											
HLA-F	3134	broad.mit.edu	37	chr6	29692164	29692164	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggacctacctggagggCgagtgcctggagttgctccg	6	9	15	11	2	1	0	1	0	0	0	2	4	2	3	4	4	3	2	4	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29692164C>T	uc010jrl.2	+	3	673	c.549C>T	c.(547-549)GGC>GGT	p.G183G	HLA-F_uc003nnm.3_Silent_p.G183G|HLA-F_uc003nno.3_Silent_p.G183G|HLA-F_uc011dlx.1_Silent_p.G183G|HLA-F_uc011dly.1_RNA	NM_018950	NP_061823	P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	183	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity				0						ACCTGGAGGGCGAGTGCCTGG	0.612													14	39					0	0	0.00499	0	0		T	29692164	T	T	29692164	2	4	4	1	0	0	0	0	0	0	0	1	7227	755	27	1		1	HLA-F	6	29692164	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	54053	29692164	141422903	1454	3420											
TRIM31	11074	broad.mit.edu	37	chr6	30080406	30080406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgattgcgttcttccttacGgaagttttgcagaggggaca	8	13	12	8	2	1	2	0	1	1	1	2	4	2	4	1	3	3	3	1	3	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:30080406G>A	uc003npg.1	-	2	287	c.177C>T	c.(175-177)TCC>TCT	p.S59S	TRIM31_uc003npi.3_RNA	NM_007028	NP_008959	Q9BZY9	TRI31_HUMAN	tripartite motif protein 31	59						mitochondrion	ligase activity|zinc ion binding			lung(1)	1						TCTTCCTTACGGAAGTTTTGC	0.473													6	135					0	0	0.001984	0	0		A	30080406	A	A	30080406	2	1	4	1	0	0	0	0	0	0	0	1	16531	1103	39	1		1	TRIM31	6	30080406	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	388242	30080406	141034661	1455	3421											
PPP1R10	5514	broad.mit.edu	37	chr6	30569937	30569937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccagggccttcgtgggggCgatgtccaccaccggcaccc	5	5	14	17	4	0	0	0	0	0	0	2	1	1	0	6	4	0	1	6	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:30569937C>T	uc003nqn.1	-	19	3041	c.2489G>A	c.(2488-2490)CGC>CAC	p.R830H	PPP1R10_uc010jsc.1_Missense_Mutation_p.R484H	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	830	Gly-rich.				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						TTCGTGGGGGCGATGTCCACC	0.677													14	69					0	0	0.003163	0	0		T	30569937	T	T	30569937	3	4	4	1	0	0	0	0	1	0	0	0	12374	768	27	1	341	1	PPP1R10	6	30569937	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	489531	30569937	140545130	1456	3422											
PPP1R10	5514	broad.mit.edu	37	chr6	30571953	30571953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatcatggctcagacgccgcGctgtctcaaatgcatgtcgg	8	10	11	12	4	3	1	3	0	1	1	5	1	3	1	1	2	1	3	1	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:30571953G>A	uc003nqn.1	-	14	1892	c.1340C>T	c.(1339-1341)GCG>GTG	p.A447V	PPP1R10_uc010jsc.1_Missense_Mutation_p.A101V	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	447	Essential for PPP1CA inhibition (By similarity).|Interaction with WDR82 (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						CAGACGCCGCGCTGTCTCAAA	0.552													8	79					0	0	0.00308	0	0		A	30571953	A	A	30571953	3	1	4	1	0	0	0	0	1	0	0	0	12374	1087	38	1	1510	1	PPP1R10	6	30571953	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2016	30571953	140543114	1457	3423											
DHX16	8449	broad.mit.edu	37	chr6	30624478	30624478	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccaggcggtatacaggCggaagcacttccctgcagcc	9	5	13	14	2	0	0	0	0	0	0	1	1	1	1	3	5	4	3	3	5	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:30624478C>T	uc003nqz.2	-	14	2419	c.2207G>A	c.(2206-2208)CGC>CAC	p.R736H	DHX16_uc003nqy.2_Missense_Mutation_p.R255H|DHX16_uc011dmo.1_Missense_Mutation_p.R676H	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	736	Helicase C-terminal.				mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4						GGTATACAGGCGGAAGCACTT	0.592													8	55					0	0	0.004482	0	0		T	30624478	T	T	30624478	3	4	4	1	0	0	0	0	1	0	0	0	4508	768	27	1	946	1	DHX16	6	30624478	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	52525	30624478	140490589	1458	3424											
DHX16	8449	broad.mit.edu	37	chr6	30633376	30633376	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgcttatatttgagctcctgCcgctcgtgccggctcagctc	4	12	10	15	4	1	1	1	1	0	0	4	1	2	1	3	1	4	5	3	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:30633376C>T	uc003nqz.2	-	5	1013	c.801G>A	c.(799-801)CGG>CGA	p.R267R	DHX16_uc011dmo.1_Silent_p.R207R	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	267					mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4						TGAGCTCCTGCCGCTCGTGCC	0.632													11	41					0	0	0.001855	0	0		T	30633376	T	T	30633376	2	4	4	1	0	0	0	0	0	0	0	1	4508	726	26	2		2	DHX16	6	30633376	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	8898	30633376	140481691	1459	3425											
DPCR1	135656	broad.mit.edu	37	chr6	30918709	30918709	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcatccccagcagagcctaCagaaaatagagaaaggacag	18	4	9	10	0	1	3	1	0	0	3	2	5	2	4	3	1	3	1	3	1	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:30918709C>A	uc003nsg.2	+	2	2468	c.2468C>A	c.(2467-2469)ACA>AAA	p.T823K		NM_080870	NP_543146	Q3MIW9	DPCR1_HUMAN	diffuse panbronchiolitis critical region 1	388	Extracellular (Potential).|Thr-rich.					integral to membrane					0						GCAGAGCCTACAGAAAATAGA	0.488													2	1					0.004672	0.00484555	0.004672	1	0		A	30918709	A	A	30918709	3	1	4	1	0	0	0	0	1	0	0	0	4718	478	17	5	2474	5	DPCR1	6	30918709	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	285333	30918709	140196358	1460	3426											
PSORS1C1	170679	broad.mit.edu	37	chr6	31106442	31106442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttggcccccaggcacacagaCcccagctttacaaggacccc	10	5	8	18	0	0	1	0	0	0	1	0	2	0	2	6	3	2	2	6	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31106442C>T	uc003nsl.1	+	5	327	c.53C>T	c.(52-54)ACC>ATC	p.T18I	PSORS1C1_uc010jsj.1_Intron|PSORS1C1_uc003nsn.1_Intron|PSORS1C2_uc003nso.3_Intron	NM_014068	NP_054787	Q9UIG5	PS1C1_HUMAN	SEEK1 protein	18										ovary(1)	1						GGCACACAGACCCCAGCTTTA	0.577													20	98					0	0	0.010504	0	0		T	31106442	T	T	31106442	3	4	4	1	0	0	0	0	1	0	0	0	12736	507	18	4	63	4	PSORS1C1	6	31106442	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	187733	31106442	140008625	1461	3427											
BAT2	7916	broad.mit.edu	37	chr6	31595695	31595695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcggcgcatgcaagaagagCgccgggcagcctgtgctgag	9	4	17	11	4	0	3	0	1	0	2	0	3	0	3	2	2	5	4	2	2	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31595695C>T	uc003nvb.3	+	12	1693	c.1444C>T	c.(1444-1446)CGC>TGC	p.R482C	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Missense_Mutation_p.R482C	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	482	4 X 57 AA type A repeats.|2 X type B repeats.					cytoplasm|nucleus	protein binding				0						GCAAGAAGAGCGCCGGGCAGC	0.632													5	61					0	0	0.001168	0	0		T	31595695	T	T	31595695	3	4	4	1	0	0	0	0	1	0	0	0	1320	768	27	1	1486	1	BAT2	6	31595695	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	489253	31595695	139519372	1462	3428											
BAT2	7916	broad.mit.edu	37	chr6	31597080	31597080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaccccaaatatcagaagtCgttgcctcctcgtttccagc	9	11	6	15	2	1	1	1	0	0	1	5	1	3	1	5	0	3	2	5	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31597080C>T	uc003nvb.3	+	13	2174	c.1925C>T	c.(1924-1926)TCG>TTG	p.S642L	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.S642L	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	642	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						TATCAGAAGTCGTTGCCTCCT	0.547													27	81					0	0	0.006999	0	0		T	31597080	T	T	31597080	3	4	4	1	0	0	0	0	1	0	0	0	1320	893	31	1	1971	1	BAT2	6	31597080	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1385	31597080	139517987	1463	3429											
LY6G6F	259215	broad.mit.edu	37	chr6	31675769	31675769	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggaagggtcccgtgaggggCcgtgttcagtccttctgggg	4	9	19	9	2	2	1	1	1	1	0	4	2	4	2	3	6	0	1	3	6	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31675769C>T	uc003nwa.1	+	3	504	c.504C>T	c.(502-504)GGC>GGT	p.G168G	BAT5_uc011dnz.1_Intron|LY6G6F_uc003nwb.1_Silent_p.G168G	NM_001003693	NP_001003693	Q5SQ64	LY66F_HUMAN	G6f protein precursor	168	Extracellular (Potential).					integral to membrane|plasma membrane				breast(1)|central_nervous_system(1)	2						CCGTGAGGGGCCGTGTTCAGT	0.622													6	59					0	0	0.001168	0	0		T	31675769	T	T	31675769	2	4	4	1	0	0	0	0	0	0	0	1	9114	726	26	2		2	LY6G6F	6	31675769	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	78689	31675769	139439298	1464	3430											
DDAH2	23564	broad.mit.edu	37	chr6	31695064	31695064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagggagctgagcccggCgccagccttctccagttctg	6	7	14	14	2	2	2	0	1	2	1	3	3	2	3	4	2	3	3	4	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31695064C>T	uc003nwp.2	-	6	1439	c.808G>A	c.(808-810)GCC>ACC	p.A270T	DDAH2_uc003nwq.2_Missense_Mutation_p.A270T	NM_013974	NP_039268	O95865	DDAH2_HUMAN	dimethylarginine dimethylaminohydrolase 2	270					anti-apoptosis|arginine catabolic process|citrulline metabolic process|nitric oxide biosynthetic process|nitric oxide mediated signal transduction	cytoplasm	dimethylargininase activity|protein binding				0					L-Citrulline(DB00155)	CTGAGCCCGGCGCCAGCCTTC	0.617													15	57					0	0	0.004007	0	0		T	31695064	T	T	31695064	3	4	4	1	0	0	0	0	1	0	0	0	4325	768	27	1	53	1	DDAH2	6	31695064	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	19295	31695064	139420003	1465	3431											
MSH5	4439	broad.mit.edu	37	chr6	31713064	31713064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccctcagtgtacaaagtggCcagtggactgaaggaggggc	10	6	15	10	0	1	1	1	1	0	0	1	3	1	3	3	5	1	1	3	5	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31713064C>T	uc003nwv.1	+	9	813	c.734C>T	c.(733-735)GCC>GTC	p.A245V	MSH5_uc003nwt.1_Missense_Mutation_p.A262V|MSH5_uc003nwu.1_Missense_Mutation_p.A245V|MSH5_uc003nww.1_Missense_Mutation_p.A245V|MSH5_uc003nwx.1_Missense_Mutation_p.A262V|MSH5_uc011dof.1_Intron	NM_172166	NP_751898	O43196	MSH5_HUMAN	mutS homolog 5 isoform c	245					chiasma assembly|homologous chromosome segregation|meiotic prophase II|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			ovary(2)|breast(1)	3						TACAAAGTGGCCAGTGGACTG	0.483								Direct_reversal_of_damage|MMR					6	50					0	0	0.001984	0	0		T	31713064	T	T	31713064	3	4	4	1	0	0	0	0	1	0	0	0	9891	739	26	2	815	2	MSH5	6	31713064	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	18000	31713064	139402003	1466	3432											
SLC44A4	80736	broad.mit.edu	37	chr6	31833122	31833122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcgcatgagtagcatgaacGcatttttggctgagacacag	11	11	11	8	2	0	3	0	3	0	1	1	4	0	3	0	1	2	5	0	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31833122G>A	uc010jti.2	-	17	1796	c.1730C>T	c.(1729-1731)GCG>GTG	p.A577V	NEU1_uc003nxq.3_5'Flank|NEU1_uc010jtg.2_5'Flank|NEU1_uc003nxr.3_5'Flank|NEU1_uc010jth.2_5'Flank|NEU1_uc003nxs.3_5'Flank	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	577	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	TAGCATGAACGCATTTTTGGC	0.567													36	118					0	0	0.006999	0	0		A	31833122	A	A	31833122	3	1	4	1	0	0	0	0	1	0	0	0	14663	1087	38	1	422	1	SLC44A4	6	31833122	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	120058	31833122	139281945	1467	3433											
ZBTB12	221527	broad.mit.edu	37	chr6	31868726	31868726	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aactggctgagggcattccgGcatttctccaccacgtgctc	7	10	10	14	2	1	1	0	1	1	0	4	1	2	1	3	3	2	4	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31868726G>A	uc003nyd.1	-	2	533	c.357C>T	c.(355-357)TGC>TGT	p.C119C	C2_uc003nyc.2_Intron|C2_uc011doo.1_Intron|C2_uc011dop.1_5'Flank	NM_181842	NP_862825	Q9Y330	ZBT12_HUMAN	zinc finger and BTB domain containing 12	119					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGGCATTCCGGCATTTCTCCA	0.567													9	59					0	0	0.008291	0	0		A	31868726	A	A	31868726	2	1	4	1	0	0	0	0	0	0	0	1	17550	1195	42	2		2	ZBTB12	6	31868726	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	35604	31868726	139246341	1468	3434											
CFB	629	broad.mit.edu	37	chr6	31915615	31915615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgatgctgaggatgggcacgGcccaggtttgaagacagaga	11	6	16	8	2	0	4	0	2	0	2	0	7	0	5	1	4	1	3	1	4	1	1	rs145082719		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31915615G>A	uc003nyj.3	+	5	1033	c.755G>A	c.(754-756)GGC>GAC	p.G252D	CFB_uc011dor.1_Missense_Mutation_p.G754D|CFB_uc003nyi.2_Missense_Mutation_p.G252D	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	252					complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						GATGGGCACGGCCCAGGTTTG	0.567													8	163					0	0	0.00308	0	0		A	31915615	A	A	31915615	3	1	4	1	0	0	0	0	1	0	0	0	3281	1203	42	2	773	2	CFB	6	31915615	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	46889	31915615	139199452	1469	3435											
DOM3Z	1797	broad.mit.edu	37	chr6	31938887	31938887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttttgtcaggtgcccccGccacgtcactatggcctctg	5	11	10	15	2	3	0	2	0	1	0	3	0	3	0	4	2	1	1	4	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31938887G>A	uc003nyo.1	-	2	928	c.394C>T	c.(394-396)CGG>TGG	p.R132W	DOM3Z_uc003nyp.1_Missense_Mutation_p.R132W|DOM3Z_uc003nyq.1_5'UTR|DOM3Z_uc003nyr.1_Missense_Mutation_p.R132W|DOM3Z_uc003nys.1_Missense_Mutation_p.R132W|DOM3Z_uc010jtl.1_3'UTR|STK19_uc003nyt.2_5'Flank|STK19_uc011dow.1_5'Flank|STK19_uc011dox.1_5'Flank|STK19_uc003nyv.2_5'Flank|STK19_uc003nyw.2_5'Flank|STK19_uc010jtn.1_5'Flank	NM_005510	NP_005501	O77932	DOM3Z_HUMAN	DOM-3 homolog Z	132		GDP (By similarity).					identical protein binding|metal ion binding|nucleotide binding				0						AGGTGCCCCCGCCACGTCACT	0.597													9	16					0	0	0.008291	0	0		A	31938887	A	A	31938887	3	1	4	1	0	0	0	0	1	0	0	0	4711	1086	38	1	816	1	DOM3Z	6	31938887	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	23272	31938887	139176180	1470	3436											
TNXB	7148	broad.mit.edu	37	chr6	32017064	32017064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cacccgtgatgcccacggtgGacactgggcccacgcgctgc	6	5	13	17	4	0	1	0	1	0	0	0	2	0	2	3	3	2	1	3	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32017064G>A	uc003nzl.2	-	28	9936	c.9734C>T	c.(9733-9735)TCC>TTC	p.S3245F	TNXB_uc003nzh.1_5'Flank	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3292	Fibronectin type-III 24.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GCCCACGGTGGACACTGGGCC	0.647													4	13					0	0	0.009096	0	0		A	32017064	A	A	32017064	3	1	4	1	0	0	0	0	1	0	0	0	16371	1174	41	4	5047	4	TNXB	6	32017064	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	78177	32017064	139098003	1471	3437											
TNXB	7148	broad.mit.edu	37	chr6	32020573	32020573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctctcctcgcccctgacacGcaccacctggggccgcccgt	4	6	10	21	4	1	1	0	1	1	0	3	1	1	1	7	2	0	2	7	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32020573G>A	uc003nzl.2	-	26	9185	c.8983C>T	c.(8983-8985)CGT>TGT	p.R2995C		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3042	Fibronectin type-III 22.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CCCCTGACACGCACCACCTGG	0.682													7	13					0	0	0.00308	0	0		A	32020573	A	A	32020573	3	1	4	1	0	0	0	0	1	0	0	0	16371	1087	38	1	5806	1	TNXB	6	32020573	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3509	32020573	139094494	1472	3438											
TNXB	7148	broad.mit.edu	37	chr6	32041456	32041456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacagacagggggcccatgCgttgcccatcatgtagtcca	9	7	11	14	1	1	1	1	0	0	1	2	1	2	1	4	2	2	2	4	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32041456C>T	uc003nzl.2	-	12	4851	c.4649G>A	c.(4648-4650)CGC>CAC	p.R1550H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1637	Fibronectin type-III 8.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GGGGCCCATGCGTTGCCCATC	0.567													5	22					0	0	0.001168	0	0		T	32041456	T	T	32041456	3	4	4	1	0	0	0	0	1	0	0	0	16371	768	27	1	10196	1	TNXB	6	32041456	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20883	32041456	139073611	1473	3439											
TNXB	7148	broad.mit.edu	37	chr6	32052264	32052264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaggacaaatttgtacttgCggccaggatccagggaggtg	11	8	14	8	1	0	0	0	0	0	0	1	3	1	3	2	5	2	1	2	5	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32052264C>T	uc003nzl.2	-	8	3573	c.3371G>A	c.(3370-3372)CGC>CAC	p.R1124H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1211	Fibronectin type-III 4.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TTTGTACTTGCGGCCAGGATC	0.587													5	43					0	0	0.001984	0	0		T	32052264	T	T	32052264	3	4	4	1	0	0	0	0	1	0	0	0	16371	768	27	1	11490	1	TNXB	6	32052264	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10808	32052264	139062803	1474	3440											
TNXB	7148	broad.mit.edu	37	chr6	32063527	32063527	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctctacacacacacactgGcctgcccggcacagttcccg	8	6	7	20	2	1	0	0	0	1	0	2	0	2	0	4	2	2	2	4	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32063527G>A	uc003nzl.2	-	3	2305	c.2103C>T	c.(2101-2103)GGC>GGT	p.G701G		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	701	EGF-like 18.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						ACACACACTGGCCTGCCCGGC	0.682													6	15					0	0	0.00308	0	0		A	32063527	A	A	32063527	2	1	4	1	0	0	0	0	0	0	0	1	16371	1190	42	2		2	TNXB	6	32063527	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11263	32063527	139051540	1475	3441											
NOTCH4	4855	broad.mit.edu	37	chr6	32165126	32165126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcatgaaggggtgtgcGccctgcccggtctggctggt	5	8	17	11	2	1	1	0	1	1	0	1	1	1	1	2	5	4	3	2	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32165126G>A	uc003obb.2	-	27	5141	c.5002C>T	c.(5002-5004)CGC>TGC	p.R1668C	GPSM3_uc003oaz.2_5'Flank|NOTCH4_uc011dpt.1_Missense_Mutation_p.R77C|NOTCH4_uc003oba.2_Missense_Mutation_p.R328C|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc011dpw.1_Missense_Mutation_p.R77C	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1668	Cytoplasmic (Potential).|ANK 2.				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						AGGGGTGTGCGCCCTGCCCGG	0.657													7	27					0	0	0.008291	0	0		A	32165126	A	A	32165126	3	1	4	1	0	0	0	0	1	0	0	0	10570	1087	38	1	1025	1	NOTCH4	6	32165126	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	101599	32165126	138949941	1476	3442											
NOTCH4	4855	broad.mit.edu	37	chr6	32166736	32166736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctcgcctagtgggggcCggcgtcggtggggagctgac	3	8	19	11	4	0	1	0	1	0	0	3	2	1	2	3	6	1	1	3	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32166736C>T	uc003obb.2	-	24	4641	c.4502G>A	c.(4501-4503)CGG>CAG	p.R1501Q	NOTCH4_uc011dpt.1_5'Flank|NOTCH4_uc003oba.2_Missense_Mutation_p.R164Q|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc011dpw.1_5'Flank	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1501	Cytoplasmic (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						TAGTGGGGGCCGGCGTCGGTG	0.602													22	64					0	0	0.008361	0	0		T	32166736	T	T	32166736	3	4	4	1	0	0	0	0	1	0	0	0	10570	652	23	1	1537	1	NOTCH4	6	32166736	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1610	32166736	138948331	1477	3443											
C6orf10	10665	broad.mit.edu	37	chr6	32261736	32261736	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctattctgagaccttgcagtGcctccacattttagaatctg	9	14	7	11	0	2	2	0	1	2	2	3	3	3	2	3	0	2	1	3	0	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32261736G>A	uc011dpy.1	-	12	887	c.714C>T	c.(712-714)GGC>GGT	p.G238G	C6orf10_uc011dpx.1_Silent_p.G20G	NM_006781	NP_006772	Q5SRN2	CF010_HUMAN	chromosome 6 open reading frame 10	238						integral to membrane				skin(1)	1						ACCTTGCAGTGCCTCCACATT	0.368													12	122					0	0	0.000978	0	0		A	32261736	A	A	32261736	2	1	4	1	0	0	0	0	0	0	0	1	2320	1306	46	2		2	C6orf10	6	32261736	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	95000	32261736	138853331	1478	3444											
BRD2	6046	broad.mit.edu	37	chr6	32944496	32944496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgccccatcaagcccccacGcaaagacttgcctgactctc	9	7	6	19	2	2	2	1	1	1	1	4	2	2	2	5	0	2	1	5	0	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32944496G>A	uc003ocn.3	+	7	2684	c.983G>A	c.(982-984)CGC>CAC	p.R328H	BRD2_uc003oco.2_RNA|BRD2_uc003ocq.3_Missense_Mutation_p.R328H|BRD2_uc003ocp.3_Missense_Mutation_p.R208H|BRD2_uc010juh.2_Missense_Mutation_p.R328H	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	328					spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						AAGCCCCCACGCAAAGACTTG	0.522													16	102					0	0	0.00499	0	0		A	32944496	A	A	32944496	3	1	4	1	0	0	0	0	1	0	0	0	1505	1087	38	1	1005	1	BRD2	6	32944496	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	682760	32944496	138170571	1479	3445											
COL11A2	1302	broad.mit.edu	37	chr6	33138611	33138611	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggccaatgggtcctgggggCccattgaatcctcttgttcc	6	11	12	12	0	1	1	0	1	1	0	4	1	4	1	5	4	0	1	5	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33138611C>T	uc003ocx.1	-	46	3678	c.3450G>A	c.(3448-3450)GGG>GGA	p.G1150G	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Silent_p.G1064G|COL11A2_uc003ocz.1_Silent_p.G1043G	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1150	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						GTCCTGGGGGCCCATTGAATC	0.607													6	70					0	0	0.00308	0	0		T	33138611	T	T	33138611	2	4	4	1	0	0	0	0	0	0	0	1	3671	726	26	2		2	COL11A2	6	33138611	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	194115	33138611	137976456	1480	3446											
VPS52	6293	broad.mit.edu	37	chr6	33236902	33236902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgactgttcctgcagtGtccggatctcagagctgatg	6	12	11	12	1	1	3	1	2	1	1	5	4	4	4	3	1	2	3	3	1	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33236902G>A	uc003odm.1	-	6	647	c.437C>T	c.(436-438)ACA>ATA	p.T146I	VPS52_uc003odn.1_Missense_Mutation_p.T21I|VPS52_uc003odo.1_Missense_Mutation_p.T71I|VPS52_uc011dqy.1_Missense_Mutation_p.T21I|VPS52_uc011dqz.1_Missense_Mutation_p.T21I|RPS18_uc003odp.1_5'Flank|RPS18_uc010jum.1_5'Flank	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52	146					protein transport	endosome membrane|Golgi apparatus				ovary(4)|skin(1)	5						TTCCTGCAGTGTCCGGATCTC	0.542													17	163					0	0	0.010504	0	0		A	33236902	A	A	33236902	3	1	4	1	0	0	0	0	1	0	0	0	17240	1377	48	4	1794	4	VPS52	6	33236902	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	98291	33236902	137878165	1481	3447											
TAPBP	6892	broad.mit.edu	37	chr6	33273060	33273060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccggagccagagatgaggCggcctcggaggtggggggca	8	3	20	10	3	0	2	0	1	0	1	1	5	0	4	3	8	1	1	3	8	0	0	rs146216992		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33273060C>T	uc003odx.1	-	4	745	c.574G>A	c.(574-576)GCC>ACC	p.A192T	TAPBP_uc010jus.1_Missense_Mutation_p.A210T|TAPBP_uc003ody.2_Missense_Mutation_p.A192T|TAPBP_uc003odz.2_Missense_Mutation_p.A192T|TAPBP_uc010jut.1_Missense_Mutation_p.A105T|TAPBP_uc011drc.1_Missense_Mutation_p.A192T	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	192	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1						AGAGATGAGGCGGCCTCGGAG	0.632													5	21					0	0	0.001984	0	0		T	33273060	T	T	33273060	3	4	4	1	0	0	0	0	1	0	0	0	15577	768	27	1	972	1	TAPBP	6	33273060	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	36158	33273060	137842007	1482	3448											
DAXX	1616	broad.mit.edu	37	chr6	33287520	33287520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaacgatggtgacactatgCgtcctttgttttgctgctcc	6	15	10	10	2	0	1	0	1	0	0	2	2	2	1	2	1	4	4	2	1	2	5	rs141395832	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33287520C>T	uc003oec.2	-	6	1781	c.1577G>A	c.(1576-1578)CGC>CAC	p.R526H	ZBTB22_uc003oeb.2_5'Flank|ZBTB22_uc010juu.2_5'Flank|DAXX_uc011drd.1_Missense_Mutation_p.R451H|DAXX_uc011dre.1_Missense_Mutation_p.R538H|DAXX_uc003oed.2_Missense_Mutation_p.R526H	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	526	Asp/Glu-rich (acidic).|Interaction with MAP3K5.|Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						TGACACTATGCGTCCTTTGTT	0.517			Mis|F|N		Pancreatic neuroendocrine tumors								14	52					0	0	0.003163	0	0		T	33287520	T	T	33287520	3	4	4	1	0	0	0	0	1	0	0	0	4246	768	27	1	657	1	DAXX	6	33287520	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	14460	33287520	137827547	1483	3449											
DAXX	1616	broad.mit.edu	37	chr6	33288785	33288785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgccacggtaggggatgCgctgctctatgacacggccg	6	7	17	11	4	1	1	0	1	1	0	1	2	1	2	2	5	3	3	2	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33288785C>T	uc003oec.2	-	3	971	c.767G>A	c.(766-768)CGC>CAC	p.R256H	DAXX_uc011drd.1_Missense_Mutation_p.R181H|DAXX_uc011dre.1_Missense_Mutation_p.R268H|DAXX_uc003oed.2_Missense_Mutation_p.R256H|DAXX_uc010juw.2_Missense_Mutation_p.R181H	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	256					activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						GTAGGGGATGCGCTGCTCTAT	0.582			Mis|F|N		Pancreatic neuroendocrine tumors								10	35					0	0	0.001368	0	0		T	33288785	T	T	33288785	3	4	4	1	0	0	0	0	1	0	0	0	4246	768	27	1	1479	1	DAXX	6	33288785	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1265	33288785	137826282	1484	3450											
PHF1	5252	broad.mit.edu	37	chr6	33380151	33380151	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttgggagggtcaagatgtGctggccagatggactgatgg	8	10	17	6	0	1	3	1	1	0	2	1	5	1	5	1	5	1	1	1	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33380151G>A	uc003oeh.2	+	2	347	c.111G>A	c.(109-111)GTG>GTA	p.V37V	PHF1_uc011drh.1_RNA|PHF1_uc003oei.2_Silent_p.V37V|PHF1_uc010jux.2_5'UTR	NM_024165	NP_077084	O43189	PHF1_HUMAN	PHD finger protein 1 isoform b	37					chromatin modification	nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(999;0.0443)				GTCAAGATGTGCTGGCCAGAT	0.567													16	61					0	0	0.006122	0	0		A	33380151	A	A	33380151	2	1	4	1	0	0	0	0	0	0	0	1	11839	1306	46	2		2	PHF1	6	33380151	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	91366	33380151	137734916	1485	3451											
CUTA	51596	broad.mit.edu	37	chr6	33385291	33385291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgaccttctcgttggggCaagtaacaaaggctgcagag	10	8	14	9	2	1	1	0	0	1	1	2	2	1	1	1	4	2	5	1	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33385291C>T	uc003oej.1	-	2	512	c.224G>A	c.(223-225)TGC>TAC	p.C75Y	CUTA_uc003oek.1_Missense_Mutation_p.C52Y|CUTA_uc003oel.1_Missense_Mutation_p.C52Y|CUTA_uc003oem.1_Missense_Mutation_p.C52Y|CUTA_uc003oen.1_Missense_Mutation_p.C94Y|SYNGAP1_uc003oeo.1_5'Flank|SYNGAP1_uc011dri.1_5'Flank|SYNGAP1_uc010juy.2_5'Flank	NM_001014840	NP_001014840	O60888	CUTA_HUMAN	cutA divalent cation tolerance homolog isoform	75					protein localization|response to metal ion	membrane	enzyme binding				0						CTCGTTGGGGCAAGTAACAAA	0.622													26	107					0	0	0.005443	0	0		T	33385291	T	T	33385291	3	4	4	1	0	0	0	0	1	0	0	0	4065	710	25	2	335	2	CUTA	6	33385291	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5140	33385291	137729776	1486	3452											
SYNGAP1	8831	broad.mit.edu	37	chr6	33403339	33403339	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcctgtcggtctgcggcCgaaagagacaaatggattga	10	10	13	8	3	1	2	0	1	1	1	2	5	1	3	2	3	2	0	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33403339C>T	uc011dri.1	+	7	906	c.711C>T	c.(709-711)GCC>GCT	p.A237A	SYNGAP1_uc003oeo.1_Silent_p.A222A|SYNGAP1_uc010juy.2_Silent_p.A222A|SYNGAP1_uc010juz.2_5'Flank	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	237	PH.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						GGTCTGCGGCCGAAAGAGACA	0.512													17	225					0	0	0.001882	0	0		T	33403339	T	T	33403339	2	4	4	1	0	0	0	0	0	0	0	1	15472	639	23	1		1	SYNGAP1	6	33403339	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	18048	33403339	137711728	1487	3453											
ITPR3	3710	broad.mit.edu	37	chr6	33638955	33638955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgcaggtggtcagcctggCgcacaatctcatctacttcg	7	11	10	13	3	3	0	2	0	2	0	6	0	3	0	1	3	2	2	1	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33638955C>T	uc011drk.1	+	21	2819	c.2600C>T	c.(2599-2601)GCG>GTG	p.A867V		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	867	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GTCAGCCTGGCGCACAATCTC	0.682													8	43					0	0	0.00245	0	0		T	33638955	T	T	33638955	3	4	4	1	0	0	0	0	1	0	0	0	7938	768	27	1	2682	1	ITPR3	6	33638955	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	235616	33638955	137476112	1488	3454											
ITPR3	3710	broad.mit.edu	37	chr6	33646527	33646527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctggccacgcacgggCgccatgtgcagtacctggac	7	6	13	15	3	0	0	0	0	0	0	0	1	0	1	4	3	3	4	4	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33646527C>T	uc011drk.1	+	30	4102	c.3883C>T	c.(3883-3885)CGC>TGC	p.R1295C		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1295	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CACGCACGGGCGCCATGTGCA	0.577													4	22					0	0	0.000602	0	0		T	33646527	T	T	33646527	3	4	4	1	0	0	0	0	1	0	0	0	7938	768	27	1	4001	1	ITPR3	6	33646527	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7572	33646527	137468540	1489	3455											
ITPR3	3710	broad.mit.edu	37	chr6	33661334	33661334	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctcaggtctggagagggAcaagtttgataacaagacag	14	7	12	8	0	2	3	1	1	1	2	2	5	2	4	1	3	1	1	1	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33661334A>G	uc011drk.1	+	56	7856	c.7637A>G	c.(7636-7638)GAC>GGC	p.D2546G	ITPR3_uc003oey.2_Missense_Mutation_p.D633G	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	2546	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CTGGAGAGGGACAAGTTTGAT	0.537													9	50					0	0	0.001368	0	0		G	33661334	G	G	33661334	3	3	4	1	0	0	0	0	1	0	0	0	7938	275	10	3	7859	3	ITPR3	6	33661334	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	14807	33661334	137453733	1490	3456											
NUDT3	11165	broad.mit.edu	37	chr6	34309727	34309727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatccatctgtctggatggCgactactgctcacgagtagc	9	10	10	12	2	3	0	1	0	2	0	4	3	4	1	1	2	3	2	1	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:34309727C>T	uc003ojl.2	-	2	424	c.122G>A	c.(121-123)CGC>CAC	p.R41H		NM_006703	NP_006694	O95989	NUDT3_HUMAN	nudix-type motif 3	41	Nudix hydrolase.	Substrate.			cell-cell signaling|diadenosine polyphosphate catabolic process|diphosphoinositol polyphosphate catabolic process	cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|magnesium ion binding				0						GTCTGGATGGCGACTACTGCT	0.507													13	37					0	0	0.00245	0	0		T	34309727	T	T	34309727	3	4	4	1	0	0	0	0	1	0	0	0	10759	768	27	1	412	1	NUDT3	6	34309727	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	648393	34309727	136805340	1491	3457											
ANKS1A	23294	broad.mit.edu	37	chr6	34949512	34949512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtgcagcgcagtatggcCacacagaggtggtgaaggtg	10	8	16	7	1	0	2	0	1	0	1	0	2	0	2	1	4	2	3	1	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:34949512C>T	uc003ojx.3	+	4	623	c.481C>T	c.(481-483)CAC>TAC	p.H161Y	ANKS1A_uc011dss.1_Missense_Mutation_p.H161Y|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR|ANKS1A_uc010jvr.1_RNA	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	161	ANK 3.					cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						GCAGTATGGCCACACAGAGGT	0.547													6	49					0	0	0.006214	0	0		T	34949512	T	T	34949512	3	4	4	1	0	0	0	0	1	0	0	0	688	594	21	4	495	4	ANKS1A	6	34949512	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	639785	34949512	136165555	1492	3458											
ANKS1A	23294	broad.mit.edu	37	chr6	35053698	35053698	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcctaagcctcgggtcggCgtgaggaaatccgcagtacg	8	7	15	11	5	0	1	0	1	0	0	3	2	1	2	3	3	3	2	3	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:35053698C>T	uc003ojx.3	+	22	3430	c.3288C>T	c.(3286-3288)GGC>GGT	p.G1096G	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Silent_p.G637G|ANKS1A_uc010jvp.1_Silent_p.G470G	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	1096						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						CTCGGGTCGGCGTGAGGAAAT	0.622													8	13					0	0	0.004482	0	0		T	35053698	T	T	35053698	2	4	4	1	0	0	0	0	0	0	0	1	688	755	27	1		1	ANKS1A	6	35053698	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	104186	35053698	136061369	1493	3459											
TCP11	6954	broad.mit.edu	37	chr6	35090014	35090014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agagatagaggactttcaggGccccatgttctgcctcctgc	8	10	11	12	0	2	2	1	0	1	2	3	4	3	3	4	2	2	1	4	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:35090014G>A	uc003okd.2	-	5	678	c.497C>T	c.(496-498)GCC>GTC	p.A166V	TCP11_uc003ojz.1_Missense_Mutation_p.A91V|TCP11_uc003oka.2_Missense_Mutation_p.A91V|TCP11_uc003okb.2_Missense_Mutation_p.A90V|TCP11_uc003okc.2_Missense_Mutation_p.A90V|TCP11_uc011dsu.1_Missense_Mutation_p.A148V|TCP11_uc011dsv.1_Missense_Mutation_p.A115V|TCP11_uc011dsw.1_Missense_Mutation_p.A120V	NM_001093728	NP_001087197	Q8WWU5	TCP11_HUMAN	t-complex 11 isoform 1	153					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(3)|skin(2)	5						GACTTTCAGGGCCCCATGTTC	0.473													21	101					0	0	0.010504	0	0		A	35090014	A	A	35090014	3	1	4	1	0	0	0	0	1	0	0	0	15738	1203	42	2	1077	2	TCP11	6	35090014	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	36316	35090014	136025053	1494	3460											
FANCE	2178	broad.mit.edu	37	chr6	35423937	35423937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagggtccccaaaagattacGgtgttgggaagaggaagaag	14	6	16	5	1	0	3	0	0	0	3	1	6	1	5	2	4	1	1	2	4	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:35423937G>A	uc003oko.1	+	2	847	c.662G>A	c.(661-663)CGG>CAG	p.R221Q	FANCE_uc010jvw.1_Missense_Mutation_p.R221Q	NM_021922	NP_068741	Q9HB96	FANCE_HUMAN	Fanconi anemia, complementation group E	221	Interaction with FANCC.				DNA repair	nucleoplasm	protein binding			ovary(1)|lung(1)|skin(1)	3						AAAAGATTACGGTGTTGGGAA	0.532			N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				5	100					0	0	0.001168	0	0		A	35423937	A	A	35423937	3	1	4	1	0	0	0	0	1	0	0	0	5680	1116	39	1	668	1	FANCE	6	35423937	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	333923	35423937	135691130	1495	3461											
C6orf81	221481	broad.mit.edu	37	chr6	35716414	35716414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgagtgagggccggaacGcaccccactaccacgtggtg	8	5	15	13	3	0	2	0	2	0	0	0	3	0	3	4	4	2	2	4	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:35716414G>A	uc003ola.2	+	6	898	c.871G>A	c.(871-873)GCA>ACA	p.A291T	C6orf81_uc003olb.1_Missense_Mutation_p.A254T	NM_145028	NP_659465	Q5T9G4	CF081_HUMAN	hypothetical protein LOC221481	264							binding			ovary(1)	1						GGGCCGGAACGCACCCCACTA	0.557													12	52					0	0	0.000978	0	0		A	35716414	A	A	35716414	3	1	4	1	0	0	0	0	1	0	0	0	2375	1087	38	1	893	1	C6orf81	6	35716414	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	292477	35716414	135398653	1496	3462											
LHFPL5	222662	broad.mit.edu	37	chr6	35773525	35773525	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaactcgcgagccgtgggCgtgatgtggggtaccctcac	6	7	16	12	5	1	1	1	1	0	0	2	3	1	2	2	4	3	1	2	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:35773525C>T	uc003olg.1	+	1	455	c.78C>T	c.(76-78)GGC>GGT	p.G26G		NM_182548	NP_872354	Q8TAF8	TMHS_HUMAN	lipoma HMGIC fusion partner-like 5	26	Helical; (Potential).					integral to membrane				skin(1)	1						GAGCCGTGGGCGTGATGTGGG	0.617													22	88					0	0	0.00278	0	0		T	35773525	T	T	35773525	2	4	4	1	0	0	0	0	0	0	0	1	8784	755	27	1		1	LHFPL5	6	35773525	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	57111	35773525	135341542	1497	3463											
LHFPL5	222662	broad.mit.edu	37	chr6	35773571	35773571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcttctccgtactggtcatgGccctcttcatccagccctac	5	12	7	17	1	4	0	2	0	2	0	6	0	5	0	4	2	3	2	4	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:35773571G>A	uc003olg.1	+	1	501	c.124G>A	c.(124-126)GCC>ACC	p.A42T		NM_182548	NP_872354	Q8TAF8	TMHS_HUMAN	lipoma HMGIC fusion partner-like 5	42	Helical; (Potential).					integral to membrane				skin(1)	1						ACTGGTCATGGCCCTCTTCAT	0.592													27	121					0	0	0.008361	0	0		A	35773571	A	A	35773571	3	1	4	1	0	0	0	0	1	0	0	0	8784	1203	42	2	126	2	LHFPL5	6	35773571	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	46	35773571	135341496	1498	3464											
MAPK14	1432	broad.mit.edu	37	chr6	36020576	36020576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagaacctacagagaactgCggttacttaaacatatgaaa	19	8	7	7	1	0	3	0	1	0	2	0	4	0	3	1	1	6	1	1	1	9	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:36020576C>T	uc003olp.2	+	2	698	c.217C>T	c.(217-219)CGG>TGG	p.R73W	MAPK14_uc011dth.1_Missense_Mutation_p.R73W|MAPK14_uc003olo.2_Missense_Mutation_p.R73W|MAPK14_uc003olq.2_Missense_Mutation_p.R73W|MAPK14_uc003olr.2_Missense_Mutation_p.R73W|MAPK14_uc011dti.1_5'UTR	NM_001315	NP_001306	Q16539	MK14_HUMAN	mitogen-activated protein kinase 14 isoform 1	73	Protein kinase.				activation of MAPK activity|cellular component movement|cellular response to ionizing radiation|chemotaxis|innate immune response|mRNA metabolic process|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of muscle cell differentiation|positive regulation of reactive oxygen species metabolic process|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|signal transduction in response to DNA damage|stress-activated MAPK cascade|stress-induced premature senescence|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|MAP kinase kinase activity|protein binding			ovary(2)|stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	6						CAGAGAACTGCGGTTACTTAA	0.373													18	74					0	0	0.00499	0	0		T	36020576	T	T	36020576	3	4	4	1	0	0	0	0	1	0	0	0	9294	759	27	1	223	1	MAPK14	6	36020576	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	247005	36020576	135094491	1499	3465											
BRPF3	27154	broad.mit.edu	37	chr6	36168834	36168834	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacaccaggagtgctatggCgtcccatacatccctgaggg	9	8	12	12	1	0	1	0	1	0	0	2	2	2	2	3	3	3	2	3	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:36168834C>T	uc003olv.3	+	2	959	c.735C>T	c.(733-735)GGC>GGT	p.G245G	BRPF3_uc010jwb.2_Silent_p.G245G|BRPF3_uc011dtj.1_RNA|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Silent_p.G245G	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	245	PHD-type.				histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						AGTGCTATGGCGTCCCATACA	0.552													8	56					0	0	0.004482	0	0		T	36168834	T	T	36168834	2	4	4	1	0	0	0	0	0	0	0	1	1524	755	27	1		1	BRPF3	6	36168834	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	148258	36168834	134946233	1500	3466											
MTCH1	23787	broad.mit.edu	37	chr6	36938207	36938207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttgttcacagccatgaggtCgccaactagcaggaaggggt	10	8	14	9	1	1	1	1	1	0	0	2	2	1	2	2	4	3	3	2	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:36938207C>T	uc003ond.1	-	10	997	c.997G>A	c.(997-999)GAC>AAC	p.D333N	MTCH1_uc003onc.1_Missense_Mutation_p.D316N|MTCH1_uc010jwo.1_RNA|MTCH1_uc003one.3_Missense_Mutation_p.D333N|MTCH1_uc011dtt.1_Missense_Mutation_p.D148N	NM_014341	NP_055156	Q9NZJ7	MTCH1_HUMAN	mitochondrial carrier homolog 1	333	Helical; (Potential).				activation of caspase activity|neuronal ion channel clustering|positive regulation of apoptosis|regulation of signal transduction|transport	integral to membrane|mitochondrial inner membrane	protein binding				0						GCCATGAGGTCGCCAACTAGC	0.622													14	67					0	0	0.004007	0	0		T	36938207	T	T	36938207	3	4	4	1	0	0	0	0	1	0	0	0	9931	884	31	1	184	1	MTCH1	6	36938207	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	769373	36938207	134176860	1501	3467											
FGD2	221472	broad.mit.edu	37	chr6	36993700	36993700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccaaggaggacaagaggCggggcatcctggaggtgagg	11	3	20	7	1	0	2	0	1	0	1	1	5	1	5	2	9	0	1	2	9	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:36993700C>T	uc010jwp.1	+	14	1762	c.1591C>T	c.(1591-1593)CGG>TGG	p.R531W	FGD2_uc003ong.2_Missense_Mutation_p.R253W|FGD2_uc011dtv.1_Missense_Mutation_p.R159W|FGD2_uc003onj.1_Missense_Mutation_p.R108W	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	531					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3						GGACAAGAGGCGGGGCATCCT	0.607													6	25					0	0	0.001168	0	0		T	36993700	T	T	36993700	3	4	4	1	0	0	0	0	1	0	0	0	5847	759	27	1	1645	1	FGD2	6	36993700	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	55493	36993700	134121367	1502	3468											
FTSJD2	23070	broad.mit.edu	37	chr6	37430612	37430612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatcttctgccaggtatgtgGtgtgcaagggcctgaaggtg	7	12	15	7	0	2	1	0	1	2	0	2	1	2	1	2	4	2	2	2	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:37430612G>A	uc003ons.2	+	13	1586	c.1333G>A	c.(1333-1335)GTG>ATG	p.V445M		NM_015050	NP_055865	Q8N1G2	MTR1_HUMAN	FtsJ methyltransferase domain containing 2	445					mRNA capping	cytoplasm|nucleus	mRNA (nucleoside-2'-O-)-methyltransferase activity|nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CAGGTATGTGGTGTGCAAGGG	0.498													4	69					0	0	0.009096	0	0		A	37430612	A	A	37430612	3	1	4	1	0	0	0	0	1	0	0	0	6105	1261	44	4	1379	4	FTSJD2	6	37430612	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	436912	37430612	133684455	1503	3469											
MDGA1	266727	broad.mit.edu	37	chr6	37622633	37622633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggatgccgcacacgttacGcacagacacctggcaggtgt	9	7	13	12	3	0	1	0	0	0	1	0	2	0	2	2	3	2	4	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:37622633G>A	uc003onu.1	-	5	1834	c.655C>T	c.(655-657)CGT>TGT	p.R219C	MDGA1_uc003onw.3_5'Flank	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	219	Ig-like 2.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						CACACGTTACGCACAGACACC	0.602													21	90					0	0	0.004656	0	0		A	37622633	A	A	37622633	3	1	4	1	0	0	0	0	1	0	0	0	9424	1087	38	1	2264	1	MDGA1	6	37622633	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	192021	37622633	133492434	1504	3470											
ZFAND3	60685	broad.mit.edu	37	chr6	38120051	38120051	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgcctccccgagcagcaCgactgcacattcgaccacat	10	6	7	18	4	0	0	0	0	0	0	3	3	1	0	4	0	3	3	4	0	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:38120051C>T	uc003onx.2	+	6	985	c.570C>T	c.(568-570)CAC>CAT	p.H190H		NM_021943	NP_068762	Q9H8U3	ZFAN3_HUMAN	zinc finger, AN1-type domain 3	190	AN1-type.						DNA binding|zinc ion binding			ovary(1)	1						CCGAGCAGCACGACTGCACAT	0.597													20	71					0	0	0.001882	0	0		T	38120051	T	T	38120051	2	4	4	1	0	0	0	0	0	0	0	1	17654	535	19	1		1	ZFAND3	6	38120051	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	497418	38120051	132995016	1505	3471											
DNAH8	1769	broad.mit.edu	37	chr6	38781840	38781840	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcattgcagcctttatgggCgaaagcagtcagaagatatt	12	11	10	8	1	2	2	2	0	0	2	2	3	2	2	1	1	3	2	1	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:38781840C>T	uc003ooe.1	+	23	3217	c.2617C>T	c.(2617-2619)CGA>TGA	p.R873*		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CCTTTATGGGCGAAAGCAGTC	0.308													22	112					0	0	0.002299	0	0		T	38781840	T	T	38781840	4	4	4	1	0	0	0	0	0	1	0	0	4613	760	27	1	2699	1	DNAH8	6	38781840	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	661789	38781840	132333227	1506	3472											
DNAH8	1769	broad.mit.edu	37	chr6	38840404	38840404	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcacgattctaatgaaggcGcaaacagaatgcggaaggcc	15	6	11	9	3	2	2	1	1	1	1	2	4	2	3	1	3	2	1	1	3	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:38840404G>A	uc003ooe.1	+	48	7032	c.6432G>A	c.(6430-6432)GCG>GCA	p.A2144A		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TAATGAAGGCGCAAACAGAAT	0.463													6	101					0	0	0.001984	0	0		A	38840404	A	A	38840404	2	1	4	1	0	0	0	0	0	0	0	1	4613	1074	38	1		1	DNAH8	6	38840404	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	58564	38840404	132274663	1507	3473											
DNAH8	1769	broad.mit.edu	37	chr6	38840416	38840416	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaaggcgcaaacagaatgCggaaggcctcatagagaaat	17	5	12	7	2	1	3	1	1	0	2	1	5	1	4	1	3	2	1	1	3	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:38840416C>T	uc003ooe.1	+	48	7044	c.6444C>T	c.(6442-6444)TGC>TGT	p.C2148C		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AAACAGAATGCGGAAGGCCTC	0.483													13	99					0	0	0.003163	0	0		T	38840416	T	T	38840416	2	4	4	1	0	0	0	0	0	0	0	1	4613	776	27	1		1	DNAH8	6	38840416	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	12	38840416	132274651	1508	3474											
DAAM2	23500	broad.mit.edu	37	chr6	39847178	39847178	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccctaccccagcagtgaCgtcccactcaggaaaaagcg	12	4	9	16	2	1	1	1	1	0	0	2	3	2	2	5	1	3	1	5	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:39847178C>T	uc003oow.2	+	14	1926	c.1770C>T	c.(1768-1770)GAC>GAT	p.D590D	DAAM2_uc010jxc.2_Silent_p.D590D|DAAM2_uc003oox.2_Silent_p.D590D	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	590	FH1.|Pro-rich.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CCAGCAGTGACGTCCCACTCA	0.597													7	85					0	0	0.004482	0	0		T	39847178	T	T	39847178	2	4	4	1	0	0	0	0	0	0	0	1	4219	535	19	1		1	DAAM2	6	39847178	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1006762	39847178	131267889	1509	3475											
LRFN2	57497	broad.mit.edu	37	chr6	40400194	40400194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaagccgaagcctgggagCgggcaaagatgggatcaggg	12	4	17	8	2	2	1	2	0	0	1	2	4	2	3	2	4	3	1	2	4	3	0	rs140980612		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:40400194C>T	uc003oph.1	-	2	1124	c.659G>A	c.(658-660)CGC>CAC	p.R220H		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	220	Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					AGCCTGGGAGCGGGCAAAGAT	0.587													8	27					0	0	0.00308	0	0		T	40400194	T	T	40400194	3	4	4	1	0	0	0	0	1	0	0	0	8956	768	27	1	1718	1	LRFN2	6	40400194	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	553016	40400194	130714873	1510	3476											
UNC5CL	222643	broad.mit.edu	37	chr6	41002811	41002811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaactctcctgggggcaCattcgcctggttactcaatg	9	11	10	11	1	2	1	1	1	1	0	4	1	2	1	2	3	2	2	2	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41002811C>T	uc003opi.2	-	2	92	c.3G>A	c.(1-3)ATG>ATA	p.M1I	UNC5CL_uc010jxe.1_Missense_Mutation_p.M1I	NM_173561	NP_775832	Q8IV45	UN5CL_HUMAN	unc-5 homolog C-like	1	Extracellular (Potential).				signal transduction	cytoplasm|integral to membrane				ovary(2)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					CCTGGGGGCACATTCGCCTGG	0.602													4	41					0	0	0.000602	0	0		T	41002811	T	T	41002811	3	4	4	1	0	0	0	0	1	0	0	0	17020	478	17	4	1585	4	UNC5CL	6	41002811	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	602617	41002811	130112256	1511	3477											
TFEB	7942	broad.mit.edu	37	chr6	41654874	41654874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcattcccaactccttgatgCggtcattgatgttgaacctt	8	14	8	11	1	1	3	1	3	0	0	3	3	3	3	3	1	3	2	3	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41654874C>T	uc003oqs.1	-	8	1063	c.761G>A	c.(760-762)CGC>CAC	p.R254H	TFEB_uc003oqt.1_Missense_Mutation_p.R254H|TFEB_uc003oqu.1_Missense_Mutation_p.R268H|TFEB_uc003oqv.1_Missense_Mutation_p.R254H|TFEB_uc003oqr.1_Missense_Mutation_p.R169H	NM_007162	NP_009093	P19484	TFEB_HUMAN	transcription factor EB	254	Helix-loop-helix motif.				embryonic placenta development|humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;7.61e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			CTCCTTGATGCGGTCATTGAT	0.537			T	ALPHA	renal (childhood epithelioid)								8	47					0	0	0.008291	0	0		T	41654874	T	T	41654874	3	4	4	1	0	0	0	0	1	0	0	0	15826	768	27	1	681	1	TFEB	6	41654874	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	652063	41654874	129460193	1512	3478											
PGC	5225	broad.mit.edu	37	chr6	41710065	41710065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacggggctggtgagggCgccctcctgcaccatgccct	6	6	15	14	2	0	2	0	1	0	1	1	3	1	2	4	4	2	2	4	4	1	0	rs143935750	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41710065C>T	uc003ora.1	-	5	659	c.610G>A	c.(610-612)GCC>ACC	p.A204T		NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor	204					digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			CTGGTGAGGGCGCCCTCCTGC	0.652													8	24					0	0	0.006214	0	0		T	41710065	T	T	41710065	3	4	4	1	0	0	0	0	1	0	0	0	11804	768	27	1	885	1	PGC	6	41710065	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	55191	41710065	129405002	1513	3479											
PGC	5225	broad.mit.edu	37	chr6	41711128	41711128	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgaagcgggagtgactggCtgcaggggagtcagggcatg	8	7	20	6	1	1	2	1	2	0	0	1	4	1	4	0	5	2	4	0	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41711128C>T	uc003ora.1	-	4	378	c.329_splice	c.e4-1	p.T110_splice		NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor						digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GAGTGACTGGCTGCAGGGGAG	0.662													9	49					0	0	0.008291	0	0		T	41711128	T	T	41711128	5	4	4	1	0	0	0	0	0	0	1	0	11804	811	28	2	1171	2	PGC	6	41711128	Splice_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1063	41711128	129403939	1514	3480											
USP49	25862	broad.mit.edu	37	chr6	41773964	41773964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccaggttgcgcaggcccGtgacgcctggggccatggcc	4	6	16	15	3	0	1	0	1	0	0	0	1	0	1	5	5	2	2	5	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41773964G>A	uc003ori.2	-	4	980	c.758C>T	c.(757-759)ACG>ATG	p.T253M		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	253					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GCGCAGGCCCGTGACGCCTGG	0.542													10	44					0	0	0.000978	0	0		A	41773964	A	A	41773964	3	1	4	1	0	0	0	0	1	0	0	0	17106	1145	40	1	1180	1	USP49	6	41773964	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	62836	41773964	129341103	1515	3481											
MED20	9477	broad.mit.edu	37	chr6	41884626	41884626	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaatttccgggtaaggagCtctacggtttgctgaacact	9	12	10	10	2	1	1	0	1	1	0	3	2	3	2	2	3	4	4	2	3	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41884626C>T	uc003ork.2	-	2	187	c.66G>A	c.(64-66)GAG>GAA	p.E22E	MED20_uc003orj.2_5'UTR|MED20_uc011duh.1_Silent_p.E22E|MED20_uc011dui.1_RNA|MED20_uc011duj.1_Intron	NM_004275	NP_004266	Q9H944	MED20_HUMAN	Trf (TATA binding protein-related	22					regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	mediator complex	DNA-directed RNA polymerase activity|protein binding				0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000367)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GGGTAAGGAGCTCTACGGTTT	0.542													16	71					0	0	0.00499	0	0		T	41884626	T	T	41884626	2	4	4	1	0	0	0	0	0	0	0	1	9456	796	28	2		2	MED20	6	41884626	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	110662	41884626	129230441	1516	3482											
CCND3	896	broad.mit.edu	37	chr6	41904988	41904988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttacctgtagcacagagggCcaaaaaggtctgggcatgct	11	8	12	10	0	1	1	0	0	1	1	1	1	1	1	2	3	3	4	2	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41904988C>T	uc003orn.2	-	3	724	c.559G>A	c.(559-561)GCC>ACC	p.A187T	CCND3_uc003orp.2_Missense_Mutation_p.A106T|CCND3_uc011duk.1_5'UTR|CCND3_uc011dum.1_Missense_Mutation_p.A106T|CCND3_uc003orm.2_Missense_Mutation_p.A137T|CCND3_uc003oro.2_Missense_Mutation_p.A115T|CCND3_uc011dul.1_Missense_Mutation_p.A115T	NM_001760	NP_001751	P30281	CCND3_HUMAN	cyclin D3 isoform 2	187					cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding				0	Colorectal(47;0.121)		Epithelial(12;0.000178)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GCACAGAGGGCCAAAAAGGTC	0.473			T	IGH@	MM								5	59					0	0	0.000602	0	0		T	41904988	T	T	41904988	3	4	4	1	0	0	0	0	1	0	0	0	2921	739	26	2	331	2	CCND3	6	41904988	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20362	41904988	129210079	1517	3483											
TRERF1	55809	broad.mit.edu	37	chr6	42227309	42227309	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctctggtacagggtggcGcccgagtaggaggcagcggg	6	6	20	9	3	1	0	0	0	1	0	1	2	1	1	1	7	2	4	1	7	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:42227309G>A	uc003osd.2	-	9	2600	c.2037C>T	c.(2035-2037)GGC>GGT	p.G679G	TRERF1_uc011duq.1_Silent_p.G596G|TRERF1_uc003osb.2_Silent_p.G435G|TRERF1_uc003osc.2_Silent_p.G435G|TRERF1_uc003ose.2_Silent_p.G699G	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	679	Pro-rich.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			ACAGGGTGGCGCCCGAGTAGG	0.692													5	15					0	0	0.000602	0	0		A	42227309	A	A	42227309	2	1	4	1	0	0	0	0	0	0	0	1	16501	1074	38	1		1	TRERF1	6	42227309	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	322321	42227309	128887758	1518	3484											
KIAA0240	23506	broad.mit.edu	37	chr6	42796383	42796383	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaggaccaacctttcgaCattcttcagaaatccttgca	12	11	6	12	1	2	2	1	1	1	1	4	4	3	3	3	1	2	1	3	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:42796383C>T	uc003osn.1	+	6	463	c.312C>T	c.(310-312)GAC>GAT	p.D104D	KIAA0240_uc003osm.1_Silent_p.D104D|KIAA0240_uc011duw.1_Silent_p.D104D|KIAA0240_uc003oso.1_Silent_p.D104D|KIAA0240_uc003osp.1_Silent_p.D104D	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	104										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			AACCTTTCGACATTCTTCAGA	0.468													27	99					0	0	0.004656	0	0		T	42796383	T	T	42796383	2	4	4	1	0	0	0	0	0	0	0	1	8180	477	17	4		4	KIAA0240	6	42796383	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	569074	42796383	128318684	1519	3485											
KLC4	89953	broad.mit.edu	37	chr6	43034106	43034106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgagatcccagcaaggttgCggacgttgcacaacctggtg	10	8	13	10	2	0	1	0	1	0	1	1	3	1	2	2	3	4	4	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:43034106C>T	uc003otv.1	+	5	711	c.634C>T	c.(634-636)CGG>TGG	p.R212W	KLC4_uc003otr.1_RNA|KLC4_uc011dvd.1_Missense_Mutation_p.R135W|KLC4_uc003otu.2_Missense_Mutation_p.R212W|KLC4_uc003otw.1_Missense_Mutation_p.R230W|KLC4_uc003otx.1_Missense_Mutation_p.R212W|KLC4_uc003oty.1_Missense_Mutation_p.R212W|KLC4_uc003otz.1_Missense_Mutation_p.R212W	NM_201521	NP_958929	Q9NSK0	KLC4_HUMAN	kinesin-like 8 isoform a	212	TPR 2.					cytoplasm|kinesin complex|microtubule	microtubule motor activity|protein binding			skin(3)|ovary(1)	4			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)			AGCAAGGTTGCGGACGTTGCA	0.552													17	97					0	0	0.008871	0	0		T	43034106	T	T	43034106	3	4	4	1	0	0	0	0	1	0	0	0	8352	759	27	1	706	1	KLC4	6	43034106	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	237723	43034106	128080961	1520	3486											
ABCC10	89845	broad.mit.edu	37	chr6	43406513	43406513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggtgctagaagcctgcGccctcaatgatgacctcagt	10	8	12	11	1	2	3	2	2	0	1	2	4	2	4	3	2	3	1	3	2	3	1	rs140043327		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:43406513G>A	uc003ouy.1	+	8	2322	c.2107G>A	c.(2107-2109)GCC>ACC	p.A703T	ABCC10_uc003ouz.1_Missense_Mutation_p.A675T|ABCC10_uc010jyo.1_5'UTR	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	703	ABC transporter 1.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			AGAAGCCTGCGCCCTCAATGA	0.527													18	57					0	0	0.008871	0	0		A	43406513	A	A	43406513	3	1	4	1	0	0	0	0	1	0	0	0	50	1087	38	1	2045	1	ABCC10	6	43406513	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	372407	43406513	127708554	1521	3487											
ABCC10	89845	broad.mit.edu	37	chr6	43414079	43414079	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtttgccaccagtgccAcaatgcagtggctggacatt	9	9	11	12	0	0	0	0	0	0	0	0	1	0	1	4	2	3	3	4	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:43414079A>G	uc003ouy.1	+	16	3654	c.3439A>G	c.(3439-3441)ACA>GCA	p.T1147A	ABCC10_uc003ouz.1_Missense_Mutation_p.T1119A|ABCC10_uc010jyo.1_Missense_Mutation_p.T253A	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	1147	ABC transmembrane type-1 2.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CACCAGTGCCACAATGCAGTG	0.597													7	46					0	0	0.006214	0	0		G	43414079	G	G	43414079	3	3	4	1	0	0	0	0	1	0	0	0	50	159	6	3	3409	3	ABCC10	6	43414079	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	7566	43414079	127700988	1522	3488											
RSPH9	221421	broad.mit.edu	37	chr6	43638573	43638573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaatgccctggtggtgctgCgcagcctgctctggccgggc	3	8	16	14	2	1	0	0	0	1	0	1	0	1	0	3	4	5	4	3	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:43638573C>T	uc003ovw.1	+	5	744	c.718C>T	c.(718-720)CGC>TGC	p.R240C	RSPH9_uc003ovx.1_Missense_Mutation_p.A257V	NM_152732	NP_689945	Q9H1X1	RSPH9_HUMAN	radial spoke head 9 homolog	240					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton				upper_aerodigestive_tract(1)|skin(1)	2						GGTGGTGCTGCGCAGCCTGCT	0.617									Kartagener_syndrome				5	29					0	0	0.001168	0	0		T	43638573	T	T	43638573	3	4	4	1	0	0	0	0	1	0	0	0	13733	768	27	1	736	1	RSPH9	6	43638573	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	224494	43638573	127476494	1523	3489											
TMEM63B	55362	broad.mit.edu	37	chr6	44115223	44115223	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctctgctgctgtgtggtgCgaggctgtgagcaggtatga	6	11	16	8	1	1	2	0	2	1	0	1	3	1	2	1	3	4	5	1	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:44115223C>T	uc003owr.2	+	12	1037	c.973C>T	c.(973-975)CGA>TGA	p.R325*	TMEM63B_uc003owq.1_Nonsense_Mutation_p.R325*|TMEM63B_uc003ows.2_Nonsense_Mutation_p.R228*|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	325						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			CTGTGTGGTGCGAGGCTGTGA	0.622													9	42					0	0	0.008291	0	0		T	44115223	T	T	44115223	4	4	4	1	0	0	0	0	0	1	0	0	16216	760	27	1	1015	1	TMEM63B	6	44115223	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	476650	44115223	126999844	1524	3490											
TCTE1	202500	broad.mit.edu	37	chr6	44248038	44248038	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctggccaatgaggtactcGctttcctgggccacatctga	7	10	11	13	1	1	2	0	2	1	0	3	2	2	2	4	3	1	2	4	3	2	2	rs149052184		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:44248038G>A	uc003oxi.2	-	5	1542	c.1386C>T	c.(1384-1386)AGC>AGT	p.S462S	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_182539	NP_872345	Q5JU00	TCTE1_HUMAN	t-complex-associated testis expressed 1	462										ovary(2)|skin(2)	4	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TGAGGTACTCGCTTTCCTGGG	0.587													8	49					0	0	0.008291	0	0		A	44248038	A	A	44248038	2	1	4	1	0	0	0	0	0	0	0	1	15742	1078	38	1		1	TCTE1	6	44248038	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	132815	44248038	126867029	1525	3491											
CDC5L	988	broad.mit.edu	37	chr6	44364110	44364110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttctgaagccagagccCgcttggctaatactcaggga	9	10	11	11	1	2	2	1	1	1	1	2	3	2	3	2	2	4	3	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:44364110C>T	uc003oxl.2	+	5	731	c.472C>T	c.(472-474)CGC>TGC	p.R158C		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	158	Potential.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			AGCCAGAGCCCGCTTGGCTAA	0.348													41	173					0	0	0.003214	0	0		T	44364110	T	T	44364110	3	4	4	1	0	0	0	0	1	0	0	0	3085	652	23	1	490	1	CDC5L	6	44364110	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	116072	44364110	126750957	1526	3492											
CDC5L	988	broad.mit.edu	37	chr6	44376319	44376319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaatgtcaccaacaacagcGttgctcttagaacaccacga	15	7	6	13	2	2	1	1	0	1	1	2	2	2	1	2	0	5	2	2	0	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:44376319G>A	uc003oxl.2	+	8	1301	c.1042G>A	c.(1042-1044)GTT>ATT	p.V348I		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	348	Interaction with PPP1R8.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CAACAACAGCGTTGCTCTTAG	0.443													24	102					0	0	0.004656	0	0		A	44376319	A	A	44376319	3	1	4	1	0	0	0	0	1	0	0	0	3085	1145	40	1	1072	1	CDC5L	6	44376319	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12209	44376319	126738748	1527	3493											
SUPT3H	8464	broad.mit.edu	37	chr6	44922276	44922276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatgctaagatttccattgCgacaacattgggttttatct	11	16	7	7	1	1	1	0	0	1	1	2	2	2	1	1	1	3	2	1	1	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:44922276C>T	uc003oxo.2	-	10	1000	c.682G>A	c.(682-684)GCA>ACA	p.A228T	SUPT3H_uc003oxn.1_Missense_Mutation_p.A217T|SUPT3H_uc011dvv.1_Missense_Mutation_p.A65T|SUPT3H_uc003oxp.2_Missense_Mutation_p.A217T|SUPT3H_uc011dvw.1_Missense_Mutation_p.A131T	NM_181356	NP_852001	O75486	SUPT3_HUMAN	suppressor of Ty 3 homolog isoform 2	299					histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3						ATTTCCATTGCGACAACATTG	0.398													6	87					0	0	0.00308	0	0		T	44922276	T	T	44922276	3	4	4	1	0	0	0	0	1	0	0	0	15422	768	27	1	320	1	SUPT3H	6	44922276	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	545957	44922276	126192791	1528	3494											
CLIC5	53405	broad.mit.edu	37	chr6	45922936	45922936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagaggatcatgaagaggcGctgagagaaaggacagttgc	14	5	15	7	1	1	5	1	2	0	3	1	8	1	7	1	3	1	2	1	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:45922936G>A	uc003oxv.3	-	2	692	c.586C>T	c.(586-588)CGC>TGC	p.R196C	CLIC5_uc003oxu.3_Missense_Mutation_p.R37C|CLIC5_uc003oxx.2_Missense_Mutation_p.R37C	NM_001114086	NP_001107558	Q9NZA1	CLIC5_HUMAN	chloride intracellular channel 5 isoform a	196	Helical; Note=After insertion into the membrane; (Potential).				female pregnancy	actin cytoskeleton|cell cortex|chloride channel complex|Golgi apparatus|Golgi apparatus|insoluble fraction|microtubule organizing center	protein binding|voltage-gated chloride channel activity			ovary(1)|skin(1)	2						ATGAAGAGGCGCTGAGAGAAA	0.488													23	45					0	0	0.004656	0	0		A	45922936	A	A	45922936	3	1	4	1	0	0	0	0	1	0	0	0	3532	1087	38	1	666	1	CLIC5	6	45922936	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1000660	45922936	125192131	1529	3495											
ENPP4	22875	broad.mit.edu	37	chr6	46111218	46111218	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttagttgaccagtggtgCattaatctcccagaagccat	10	13	9	9	0	1	2	0	1	1	1	2	2	1	2	3	1	2	3	3	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:46111218C>T	uc003oxy.2	+	4	1462	c.1203C>T	c.(1201-1203)TGC>TGT	p.C401C		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	401	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						ACCAGTGGTGCATTAATCTCC	0.413													27	144					0	0	0.002096	0	0		T	46111218	T	T	46111218	2	4	4	1	0	0	0	0	0	0	0	1	5140	718	25	2		2	ENPP4	6	46111218	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	188282	46111218	125003849	1530	3496											
TDRD6	221400	broad.mit.edu	37	chr6	46657655	46657655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcagctaccaatattggCtgtgaagtgcaccctggctg	9	10	12	10	0	0	1	0	1	0	0	0	1	0	1	2	3	3	5	2	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:46657655C>T	uc003oyj.2	+	1	1790	c.1790C>T	c.(1789-1791)GCT>GTT	p.A597V	TDRD6_uc010jze.2_Missense_Mutation_p.A591V	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	597					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			CCAATATTGGCTGTGAAGTGC	0.448													13	54					0	0	0.003163	0	0		T	46657655	T	T	46657655	3	4	4	1	0	0	0	0	1	0	0	0	15759	797	28	2	1792	2	TDRD6	6	46657655	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	546437	46657655	124457412	1531	3497											
GPR116	221395	broad.mit.edu	37	chr6	46828556	46828556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctgatttcatgttccgCtttgtctatgctaatagaaa	11	15	8	7	1	2	3	1	1	1	2	3	3	3	3	1	0	2	4	1	0	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:46828556C>T	uc003oyo.3	-	16	2564	c.2275G>A	c.(2275-2277)GCG>ACG	p.A759T	GPR116_uc011dwj.1_Missense_Mutation_p.A314T|GPR116_uc011dwk.1_Missense_Mutation_p.A188T|GPR116_uc003oyp.3_Missense_Mutation_p.A617T|GPR116_uc003oyq.3_Missense_Mutation_p.A759T|GPR116_uc010jzi.1_Missense_Mutation_p.A431T	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	759	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			TCATGTTCCGCTTTGTCTATG	0.423													7	96					0	0	0.001984	0	0		T	46828556	T	T	46828556	3	4	4	1	0	0	0	0	1	0	0	0	6648	797	28	2	1789	2	GPR116	6	46828556	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	170901	46828556	124286511	1532	3498											
TNFRSF21	27242	broad.mit.edu	37	chr6	47253980	47253980	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaccccaacccacaggacAcaccgtatggggggcacagg	12	2	11	16	1	0	0	0	0	0	0	0	1	0	1	4	5	1	2	4	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:47253980A>G	uc003oyv.2	-	2	881	c.448T>C	c.(448-450)TGT>CGT	p.C150R		NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,	150	Extracellular (Potential).|TNFR-Cys 3.				cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)			CCCACAGGACACACCGTATGG	0.537													30	171					0	0	0.009535	0	0		G	47253980	G	G	47253980	3	3	4	1	0	0	0	0	1	0	0	0	16320	159	6	3	1539	3	TNFRSF21	6	47253980	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	425424	47253980	123861087	1533	3499											
C6orf138	442213	broad.mit.edu	37	chr6	47847321	47847321	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcactgtctggaaccacAcaggtttgcgatccaggtat	10	11	9	11	1	3	0	2	0	1	0	4	2	4	1	2	3	2	2	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:47847321A>G	uc011dwm.1	-	3	1293	c.1208T>C	c.(1207-1209)GTG>GCG	p.V403A	C6orf138_uc011dwn.1_Missense_Mutation_p.V167A	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	420						integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						CTGGAACCACACAGGTTTGCG	0.512													12	54					0	0	0.003163	0	0		G	47847321	G	G	47847321	3	3	4	1	0	0	0	0	1	0	0	0	2335	159	6	3	1285	3	C6orf138	6	47847321	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	593341	47847321	123267746	1534	3500											
TFAP2B	7021	broad.mit.edu	37	chr6	50796340	50796340	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatattcacagtcagttgaAgatgccaataacagcggcat	14	11	8	8	1	2	2	2	1	0	1	2	2	2	2	1	1	3	2	1	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:50796340A>C	uc003pag.2	+	3	715	c.549A>C	c.(547-549)GAA>GAC	p.E183D		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	183					nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					AGTCAGTTGAAGATGCCAATA	0.338													25	79					0	0	0.008361	0	0		C	50796340	C	C	50796340	3	2	4	1	0	0	0	0	1	0	0	0	15813	69	3	5	559	5	TFAP2B	6	50796340	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	2949019	50796340	120318727	1535	3501											
PKHD1	5314	broad.mit.edu	37	chr6	51484273	51484273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactccattcatcaactggTgggggcactggttcaccttg	8	11	10	12	0	3	0	3	0	0	0	4	0	4	0	2	4	1	2	2	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:51484273T>C	uc003pah.1	-	67	12107	c.11831A>G	c.(11830-11832)CAC>CGC	p.H3944R		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3944	Cytoplasmic (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CATCAACTGGTGGGGGCACTG	0.488													17	67					0	0	0.00499	0	0		C	51484273	C	C	51484273	3	2	4	1	0	0	0	0	1	0	0	0	11990	1696	59	3	397	3	PKHD1	6	51484273	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	687933	51484273	119630794	1536	3502											
PKHD1	5314	broad.mit.edu	37	chr6	51732850	51732850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatgaggaaatggaaatGccactaagtttgaagagttt	14	11	11	5	0	0	3	0	2	0	1	0	5	0	5	1	2	2	3	1	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:51732850G>A	uc003pah.1	-	48	7820	c.7544C>T	c.(7543-7545)GCA>GTA	p.A2515V	PKHD1_uc010jzn.1_Missense_Mutation_p.A498V|PKHD1_uc003pai.2_Missense_Mutation_p.A2515V	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2515	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AAATGGAAATGCCACTAAGTT	0.388													13	59					0	0	0.001368	0	0		A	51732850	A	A	51732850	3	1	4	1	0	0	0	0	1	0	0	0	11990	1319	46	2	4799	2	PKHD1	6	51732850	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	248577	51732850	119382217	1537	3503											
PKHD1	5314	broad.mit.edu	37	chr6	51900433	51900433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgcttgaattgcttgtagCgacattgatggcacacgagt	9	13	11	8	2	1	2	0	2	1	0	1	4	1	2	0	1	3	4	0	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:51900433C>T	uc003pah.1	-	28	3460	c.3184G>A	c.(3184-3186)GCT>ACT	p.A1062T	PKHD1_uc003pai.2_Missense_Mutation_p.A1062T	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1062	IPT/TIG 5.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TTGCTTGTAGCGACATTGATG	0.448													24	127					0	0	0.003954	0	0		T	51900433	T	T	51900433	3	4	4	1	0	0	0	0	1	0	0	0	11990	768	27	1	9239	1	PKHD1	6	51900433	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	167583	51900433	119214634	1538	3504											
GSTA4	2941	broad.mit.edu	37	chr6	52849393	52849393	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccagtgtcccctccacgtAcatgtcaatccttaaaacaa	13	10	4	14	1	1	0	1	0	0	0	5	0	5	0	5	0	2	1	5	0	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:52849393A>G	uc003pbc.2	-	4	347	c.283T>C	c.(283-285)TAC>CAC	p.Y95H	GSTA4_uc003pbd.2_Missense_Mutation_p.Y2H|GSTA4_uc003pbe.2_Missense_Mutation_p.Y2H|GSTA4_uc003pbf.2_Missense_Mutation_p.Y95H	NM_001512	NP_001503	O15217	GSTA4_HUMAN	glutathione S-transferase alpha 4	95	GST C-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity|protein homodimerization activity				0	Lung NSC(77;0.103)				Glutathione(DB00143)	CCCTCCACGTACATGTCAATC	0.408													5	94					0	0	0.000602	0	0		G	52849393	G	G	52849393	3	3	4	1	0	0	0	0	1	0	0	0	6849	391	14	3	397	3	GSTA4	6	52849393	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	948960	52849393	118265674	1539	3505											
ICK	22858	broad.mit.edu	37	chr6	52883237	52883237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccatgatgcagcccaccGcccagacgtcaatgggggag	9	5	13	14	2	1	2	1	1	0	1	1	3	1	3	4	2	3	1	4	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:52883237G>A	uc003pbh.2	-	8	1044	c.554C>T	c.(553-555)GCG>GTG	p.A185V	ICK_uc003pbi.2_Missense_Mutation_p.A185V|ICK_uc003pbj.2_Missense_Mutation_p.A185V	NM_016513	NP_057597	Q9UPZ9	ICK_HUMAN	intestinal cell kinase	185	Protein kinase.				intracellular protein kinase cascade|multicellular organismal development	cytosol|nucleus	ATP binding|cyclin-dependent protein kinase activity|magnesium ion binding	p.A185A(1)		ovary(1)|large_intestine(1)|lung(1)|kidney(1)|central_nervous_system(1)	5	Lung NSC(77;0.103)					GCAGCCCACCGCCCAGACGTC	0.512													16	94					0	0	0.004007	0	0		A	52883237	A	A	52883237	3	1	4	1	0	0	0	0	1	0	0	0	7500	1087	38	1	1376	1	ICK	6	52883237	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	33844	52883237	118231830	1540	3506											
GCM1	8521	broad.mit.edu	37	chr6	52996822	52996822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctggaaaaatataaagcGtccgtcgtgcctccagaagt	14	8	9	10	3	0	1	0	0	0	1	3	2	2	2	4	1	3	0	4	1	7	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:52996822G>A	uc003pbp.2	-	4	633	c.424C>T	c.(424-426)CGC>TGC	p.R142C	GCM1_uc010jzr.2_Missense_Mutation_p.R142C	NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	142	GCM.					transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					AATATAAAGCGTCCGTCGTGC	0.502													5	48					0	0	0.001984	0	0		A	52996822	A	A	52996822	3	1	4	1	0	0	0	0	1	0	0	0	6312	1145	40	1	898	1	GCM1	6	52996822	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	113585	52996822	118118245	1541	3507											
KLHL31	401265	broad.mit.edu	37	chr6	53516493	53516493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcaggacacgccgacagtgGcctcgggtagctcgtcgtcc	7	6	14	14	5	0	0	0	0	0	0	4	2	1	1	3	3	2	3	3	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:53516493G>A	uc003pcb.3	-	3	1949	c.1808C>T	c.(1807-1809)GCC>GTC	p.A603V	uc003pcc.1_5'UTR	NM_001003760	NP_001003760	Q9H511	KLH31_HUMAN	kelch repeat and BTB (POZ) domain containing 1	603	Kelch 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent					ovary(1)	1	Lung NSC(77;0.0158)					GCCGACAGTGGCCTCGGGTAG	0.612											OREG0017507	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	33					0	0	0.001984	0	0		A	53516493	A	A	53516493	3	1	4	1	0	0	0	0	1	0	0	0	8401	1203	42	2	100	2	KLHL31	6	53516493	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	519671	53516493	117598574	1542	3508											
GFRAL	389400	broad.mit.edu	37	chr6	55216125	55216125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtctgtaatgcacagttgGcctcttaccttaaagcttgc	8	14	9	10	0	2	0	0	0	2	0	2	0	2	0	2	2	4	4	2	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:55216125G>A	uc003pcm.1	+	5	531	c.445G>A	c.(445-447)GCC>ACC	p.A149T		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	149	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			TGCACAGTTGGCCTCTTACCT	0.453													43	177					0	0	0.002522	0	0		A	55216125	A	A	55216125	3	1	4	1	0	0	0	0	1	0	0	0	6366	1203	42	2	463	2	GFRAL	6	55216125	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1699632	55216125	115898942	1543	3509											
BMP5	653	broad.mit.edu	37	chr6	55623844	55623844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggtggcattcatatgggCgttaagtggaaaagaacatt	12	12	13	4	1	1	1	1	0	0	1	1	2	1	2	0	4	1	3	0	4	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:55623844C>T	uc003pcq.2	-	6	1886	c.1174G>A	c.(1174-1176)GCC>ACC	p.A392T	BMP5_uc011dxf.1_Intron	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	392					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			TTCATATGGGCGTTAAGTGGA	0.333													19	127					0	0	0.001882	0	0		T	55623844	T	T	55623844	3	4	4	1	0	0	0	0	1	0	0	0	1464	768	27	1	198	1	BMP5	6	55623844	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	407719	55623844	115491223	1544	3510											
DST	667	broad.mit.edu	37	chr6	56323854	56323854	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtgatttcctctggggCgtggggatttttgaaggctt	5	14	16	6	1	1	2	0	2	1	0	2	3	2	3	1	6	0	2	1	6	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56323854C>T	uc003pdf.2	-	97	17005	c.16977G>A	c.(16975-16977)ACG>ACA	p.T5659T	DST_uc003pcz.3_Silent_p.T5481T|DST_uc011dxj.1_Silent_p.T5510T|DST_uc011dxk.1_Silent_p.T5521T|DST_uc003pcy.3_Silent_p.T5155T|DST_uc003pcv.3_Silent_p.T277T|DST_uc003pcw.3_Silent_p.T238T|DST_uc003pcx.3_Silent_p.T201T	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	7554					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TCCTCTGGGGCGTGGGGATTT	0.502													13	58					0	0	0.001855	0	0		T	56323854	T	T	56323854	2	4	4	1	0	0	0	0	0	0	0	1	4789	755	27	1		1	DST	6	56323854	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	700010	56323854	114791213	1545	3511											
DST	667	broad.mit.edu	37	chr6	56392496	56392496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctttgtaccttgctttaatgGcttccaatttatcttgaatt	8	20	5	8	0	1	1	0	1	1	0	2	1	2	1	2	1	2	3	2	1	5	10			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56392496G>A	uc003pdf.2	-	62	11388	c.11360C>T	c.(11359-11361)GCC>GTC	p.A3787V	DST_uc003pcz.3_Missense_Mutation_p.A3609V|DST_uc011dxj.1_Missense_Mutation_p.A3638V|DST_uc011dxk.1_Missense_Mutation_p.A3649V|DST_uc003pcy.3_Missense_Mutation_p.A3283V	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5695					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TGCTTTAATGGCTTCCAATTT	0.413													4	39					0	0	0.009096	0	0		A	56392496	A	A	56392496	3	1	4	1	0	0	0	0	1	0	0	0	4789	1203	42	2	5811	2	DST	6	56392496	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	68642	56392496	114722571	1546	3512											
DST	667	broad.mit.edu	37	chr6	56464943	56464943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttggtgaccaattaggCggttttcagtttgggtaaga	8	15	12	6	1	2	2	1	1	1	1	2	2	2	2	1	4	0	3	1	4	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56464943C>T	uc003pdf.2	-	39	5289	c.5261G>A	c.(5260-5262)CGC>CAC	p.R1754H	DST_uc003pcz.3_Missense_Mutation_p.R1576H|DST_uc011dxj.1_Missense_Mutation_p.R1605H|DST_uc011dxk.1_Missense_Mutation_p.R1616H|DST_uc003pcy.3_Missense_Mutation_p.R1250H|DST_uc010kaa.1_5'Flank	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	3662					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			ACCAATTAGGCGGTTTTCAGT	0.403													19	84					0	0	0.010504	0	0		T	56464943	T	T	56464943	3	4	4	1	0	0	0	0	1	0	0	0	4789	768	27	1	12002	1	DST	6	56464943	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	72447	56464943	114650124	1547	3513											
DST	667	broad.mit.edu	37	chr6	56499320	56499320	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgaagcacacagatgggAccatagcctcattcccagta	12	7	10	12	1	1	2	1	1	0	1	2	3	2	3	3	2	2	2	3	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56499320A>G	uc003pdf.2	-	25	3363	c.3335T>C	c.(3334-3336)GTC>GCC	p.V1112A	DST_uc003pcz.3_Missense_Mutation_p.V934A|DST_uc011dxj.1_Missense_Mutation_p.V963A|DST_uc011dxk.1_Missense_Mutation_p.V974A|DST_uc003pcy.3_Missense_Mutation_p.V608A|DST_uc003pdb.2_Missense_Mutation_p.V608A|DST_uc003pdc.3_Missense_Mutation_p.V608A|DST_uc003pdd.3_Missense_Mutation_p.V608A	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	934	SH3.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CACAGATGGGACCATAGCCTC	0.428													22	60					0	0	0.002299	0	0		G	56499320	G	G	56499320	3	3	4	1	0	0	0	0	1	0	0	0	4789	275	10	3	18624	3	DST	6	56499320	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	34377	56499320	114615747	1548	3514											
BEND6	221336	broad.mit.edu	37	chr6	56880071	56880071	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccagattcatttgcctcaAcatgcagtaattctaattct	11	14	5	11	1	4	1	2	0	2	1	4	1	4	1	2	0	3	2	2	0	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56880071A>G	uc010kab.2	+	4	1025	c.439A>G	c.(439-441)ACA>GCA	p.T147A	BEND6_uc003pdi.3_Missense_Mutation_p.T49A	NM_152731	NP_689944	Q5SZJ8	BEND6_HUMAN	BEN domain containing 6	147											0						ATTTGCCTCAACATGCAGTAA	0.478													20	140					0	0	0.002299	0	0		G	56880071	G	G	56880071	3	3	4	1	0	0	0	0	1	0	0	0	1403	43	2	3	449	3	BEND6	6	56880071	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	380751	56880071	114234996	1549	3515											
KIAA1586	57691	broad.mit.edu	37	chr6	56917800	56917800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaggattgttcagcagttcGgcatttgggatcgaaagcag	11	11	13	6	2	1	0	1	0	0	0	3	3	1	2	0	3	2	5	0	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56917800G>A	uc003pdj.2	+	4	673	c.503G>A	c.(502-504)CGG>CAG	p.R168Q	KIAA1586_uc011dxm.1_Missense_Mutation_p.R141Q	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	168							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TCAGCAGTTCGGCATTTGGGA	0.363													17	107					0	0	0.006122	0	0		A	56917800	A	A	56917800	3	1	4	1	0	0	0	0	1	0	0	0	8261	1116	39	1	517	1	KIAA1586	6	56917800	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	37729	56917800	114197267	1550	3516											
KIAA1586	57691	broad.mit.edu	37	chr6	56918150	56918150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtaaattgtttaaatacaCgttacagtgcaacaagaata	18	11	7	5	1	0	1	0	0	0	1	0	1	0	1	0	1	4	4	0	1	10	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56918150C>T	uc003pdj.2	+	4	1023	c.853C>T	c.(853-855)CGT>TGT	p.R285C	KIAA1586_uc011dxm.1_Missense_Mutation_p.R258C	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	285							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TTTAAATACACGTTACAGTGC	0.299													8	39					0	0	0.00308	0	0		T	56918150	T	T	56918150	3	4	4	1	0	0	0	0	1	0	0	0	8261	536	19	1	867	1	KIAA1586	6	56918150	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	350	56918150	114196917	1551	3517											
PTP4A1	7803	broad.mit.edu	37	chr6	64286802	64286802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacatggctcgaatgaaccGcccagctcctgtggaagtca	11	8	10	12	2	1	1	1	1	0	0	3	3	2	2	3	2	3	2	3	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:64286802G>A	uc003pek.2	+	4	1003	c.17G>A	c.(16-18)CGC>CAC	p.R6H	PTP4A1_uc003pel.2_Missense_Mutation_p.R6H	NM_003463	NP_003454	Q93096	TP4A1_HUMAN	protein tyrosine phosphatase type IVA, member 1	6					cell cycle|multicellular organismal development	early endosome|endoplasmic reticulum|internal side of plasma membrane|spindle	protein binding|protein tyrosine phosphatase activity				0	all_cancers(3;0.071)|all_epithelial(2;0.0146)|Lung NSC(77;0.175)		Epithelial(2;0.0365)|LUSC - Lung squamous cell carcinoma(74;0.0644)|all cancers(2;0.112)|Lung(124;0.13)			CGAATGAACCGCCCAGCTCCT	0.328													11	53					0	0	0.003163	0	0		A	64286802	A	A	64286802	3	1	4	1	0	0	0	0	1	0	0	0	12793	1087	38	1	19	1	PTP4A1	6	64286802	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	7368652	64286802	106828265	1552	3518											
EYS	346007	broad.mit.edu	37	chr6	66200576	66200576	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agacatgtggttgacactggCcaattatttctgagcaattc	11	13	9	8	0	1	3	0	2	1	1	2	3	1	3	1	2	1	2	1	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:66200576C>A	uc011dxu.1	-	5	1311	c.773G>T	c.(772-774)GGC>GTC	p.G258V	EYS_uc003peq.2_Missense_Mutation_p.G258V|EYS_uc003per.1_Missense_Mutation_p.G258V|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	258	EGF-like 3.				response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						TTGACACTGGCCAATTATTTC	0.303													12	33					0.00010058	0.000105469	0.001368	1	0		A	66200576	A	A	66200576	3	1	4	1	0	0	0	0	1	0	0	0	5340	739	26	5	8779	5	EYS	6	66200576	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1913774	66200576	104914491	1553	3519											
BAI3	577	broad.mit.edu	37	chr6	69665995	69665995	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggactcagcagagaagccgGcagtgcactgcagctgccca	10	4	14	13	1	1	1	1	0	0	1	1	3	1	2	2	2	6	5	2	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:69665995G>A	uc003pev.3	+	7	1723	c.1275G>A	c.(1273-1275)CGG>CGA	p.R425R	BAI3_uc010kak.2_Silent_p.R425R	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	425	TSP type-1 3.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AGAGAAGCCGGCAGTGCACTG	0.542													7	28					0	0	0.000978	0	0		A	69665995	A	A	69665995	2	1	4	1	0	0	0	0	0	0	0	1	1301	1190	42	2		2	BAI3	6	69665995	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3465419	69665995	101449072	1554	3520											
BAI3	577	broad.mit.edu	37	chr6	69703826	69703826	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacacatttaaaagggcaaGttacatccctgcatctgatg	14	10	8	9	0	1	2	0	1	1	1	2	2	2	2	1	1	2	3	1	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:69703826G>T	uc003pev.3	+	11	2349	c.1901G>T	c.(1900-1902)AGT>ATT	p.S634I	BAI3_uc010kak.2_Missense_Mutation_p.S634I	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	634	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AAAAGGGCAAGTTACATCCCT	0.443													10	103					3.07112e-06	3.25042e-06	0.000978	1	0		T	69703826	T	T	69703826	3	4	4	1	0	0	0	0	1	0	0	0	1301	1029	36	5	1935	5	BAI3	6	69703826	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	37831	69703826	101411241	1555	3521											
BAI3	577	broad.mit.edu	37	chr6	69758103	69758103	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattcagaagcttcctgcaGcctctgttctaacagacatc	10	12	7	12	0	3	2	1	0	2	2	5	2	4	2	2	0	4	4	2	0	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:69758103G>T	uc003pev.3	+	14	2582	c.2134G>T	c.(2134-2136)GCC>TCC	p.A712S	BAI3_uc010kak.2_Missense_Mutation_p.A712S	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	712	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				GCTTCCTGCAGCCTCTGTTCT	0.353													20	39					3.99206e-14	4.33587e-14	0.007413	1	0		T	69758103	T	T	69758103	3	4	4	1	0	0	0	0	1	0	0	0	1301	971	34	5	2180	5	BAI3	6	69758103	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	54277	69758103	101356964	1556	3522											
BAI3	577	broad.mit.edu	37	chr6	70098714	70098714	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctttggaactgaggccAgcagagtgggagaagtgtct	10	9	16	6	0	1	3	0	1	1	2	1	6	1	4	1	3	3	2	1	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:70098714A>G	uc003pev.3	+	32	4948	c.4500A>G	c.(4498-4500)CCA>CCG	p.P1500P	BAI3_uc010kak.2_Silent_p.P1500P|BAI3_uc011dxx.1_Silent_p.P706P	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1500	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AACTGAGGCCAGCAGAGTGGG	0.428													9	67					0	0	0.008291	0	0		G	70098714	G	G	70098714	2	3	4	1	0	0	0	0	0	0	0	1	1301	175	7	3		3	BAI3	6	70098714	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	340611	70098714	101016353	1557	3523											
COL19A1	1310	broad.mit.edu	37	chr6	70639416	70639416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttagaaatcgagaactcCgtcctttgtttgatcgtcag	9	16	8	8	3	1	3	1	1	0	2	5	4	3	3	2	0	1	1	2	0	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:70639416C>T	uc003pfc.1	+	6	607	c.490C>T	c.(490-492)CGT>TGT	p.R164C	COL19A1_uc010kam.1_Missense_Mutation_p.R60C	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	164	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TCGAGAACTCCGTCCTTTGTT	0.393													9	62					0	0	0.006214	0	0		T	70639416	T	T	70639416	3	4	4	1	0	0	0	0	1	0	0	0	3679	652	23	1	508	1	COL19A1	6	70639416	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	540702	70639416	100475651	1558	3524											
COL19A1	1310	broad.mit.edu	37	chr6	70639518	70639518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taattgcgaggaggcagactGatgaaaaggacactgtggat	14	8	14	5	1	0	3	0	2	0	1	0	7	0	6	0	4	1	1	0	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:70639518G>A	uc003pfc.1	+	6	709	c.592G>A	c.(592-594)GAT>AAT	p.D198N	COL19A1_uc010kam.1_Missense_Mutation_p.D94N	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	198	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						GAGGCAGACTGATGAAAAGGA	0.423													9	116					0	0	0.004482	0	0		A	70639518	A	A	70639518	3	1	4	1	0	0	0	0	1	0	0	0	3679	1290	45	4	610	4	COL19A1	6	70639518	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	102	70639518	100475549	1559	3525											
COL9A1	1297	broad.mit.edu	37	chr6	71003937	71003937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccatcaatgtcaattgggCctcttggctttataggtaaa	11	13	9	8	0	3	0	2	0	1	0	3	0	3	0	2	3	1	2	2	3	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:71003937C>T	uc003pfg.3	-	5	788	c.629G>A	c.(628-630)GGC>GAC	p.G210D		NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	210	Nonhelical region (NC4).|TSP N-terminal.				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						GTCAATTGGGCCTCTTGGCTT	0.418													44	131					0	0	0.003214	0	0		T	71003937	T	T	71003937	3	4	4	1	0	0	0	0	1	0	0	0	3710	739	26	2	2348	2	COL9A1	6	71003937	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	364419	71003937	100111130	1560	3526											
SMAP1	60682	broad.mit.edu	37	chr6	71442157	71442157	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcatagaaatcttggggtTcatatatccagggtcaaatc	13	13	8	7	0	4	1	3	0	1	1	6	1	5	1	1	3	0	1	1	3	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:71442157T>C	uc003pfr.2	+	2	443	c.195T>C	c.(193-195)GTT>GTC	p.V65V	SMAP1_uc011dxy.1_RNA|SMAP1_uc003pfs.2_Silent_p.V65V|SMAP1_uc010kao.2_Silent_p.V65V|SMAP1_uc010kap.2_Silent_p.V55V	NM_001044305	NP_001037770	Q8IYB5	SMAP1_HUMAN	stromal membrane-associated GTPase-activating	65	Arf-GAP.				regulation of ARF GTPase activity	plasma membrane	ARF GTPase activator activity|zinc ion binding				0						ATCTTGGGGTTCATATATCCA	0.363													14	53					0	0	0.003163	0	0		C	71442157	C	C	71442157	2	2	4	1	0	0	0	0	0	0	0	1	14791	1770	62	3		3	SMAP1	6	71442157	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	438220	71442157	99672910	1561	3527											
RIMS1	22999	broad.mit.edu	37	chr6	73016981	73016981	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagcttagtagtggaggagCgaacaagacagatgaaaatg	17	6	13	5	1	0	3	0	1	0	2	0	6	0	5	0	2	3	2	0	2	7	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:73016981C>T	uc003pga.2	+	27	3948	c.3871C>T	c.(3871-3873)CGA>TGA	p.R1291*	RIMS1_uc011dyb.1_Nonsense_Mutation_p.R688*|RIMS1_uc003pgc.2_Nonsense_Mutation_p.R740*|RIMS1_uc010kaq.2_Nonsense_Mutation_p.R611*|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Nonsense_Mutation_p.R300*|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Nonsense_Mutation_p.R357*|RIMS1_uc003pge.2_Nonsense_Mutation_p.R331*|RIMS1_uc011dye.1_Nonsense_Mutation_p.R97*|RIMS1_uc011dyf.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1291					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				AGTGGAGGAGCGAACAAGACA	0.383													7	40					0	0	0.004482	0	0		T	73016981	T	T	73016981	4	4	4	1	0	0	0	0	0	1	0	0	13392	760	27	1	4140	1	RIMS1	6	73016981	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1574824	73016981	98098086	1562	3528											
KCNQ5	56479	broad.mit.edu	37	chr6	73787158	73787158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacagatcctccgcatggtgCgcatggaccgaaggggaggc	9	6	15	11	3	0	1	0	0	0	1	2	4	2	3	3	5	2	2	3	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:73787158C>T	uc003pgk.2	+	4	1077	c.730C>T	c.(730-732)CGC>TGC	p.R244C	KCNQ5_uc003pgj.3_Missense_Mutation_p.R244C|KCNQ5_uc011dyh.1_Missense_Mutation_p.R244C|KCNQ5_uc011dyi.1_Missense_Mutation_p.R244C|KCNQ5_uc010kat.2_Missense_Mutation_p.R244C|KCNQ5_uc011dyj.1_Missense_Mutation_p.R244C|KCNQ5_uc011dyk.1_Missense_Mutation_p.R3C	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	244	Helical; Voltage-sensor; Name=Segment S4; (Potential).		R -> C (in a colorectal cancer sample; somatic mutation).		protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity	p.R244C(1)		ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CCGCATGGTGCGCATGGACCG	0.438													13	31					0	0	0.00245	0	0		T	73787158	T	T	73787158	3	4	4	1	0	0	0	0	1	0	0	0	8102	768	27	1	744	1	KCNQ5	6	73787158	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	770177	73787158	97327909	1563	3529											
KCNQ5	56479	broad.mit.edu	37	chr6	73879485	73879485	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgacacagcccttggCactgatgatgtatatgatga	11	10	11	9	0	0	5	0	5	0	0	0	5	0	5	1	1	2	4	1	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:73879485C>T	uc003pgk.2	+	11	1832	c.1485C>T	c.(1483-1485)GGC>GGT	p.G495G	KCNQ5_uc011dyh.1_Silent_p.G514G|KCNQ5_uc011dyi.1_Silent_p.G505G|KCNQ5_uc010kat.2_Silent_p.G486G|KCNQ5_uc011dyj.1_Intron|KCNQ5_uc011dyk.1_Silent_p.G245G	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	495					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CAGCCCTTGGCACTGATGATG	0.438													22	85					0	0	0.002299	0	0		T	73879485	T	T	73879485	2	4	4	1	0	0	0	0	0	0	0	1	8102	697	25	2		2	KCNQ5	6	73879485	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	92327	73879485	97235582	1564	3530											
COL12A1	1303	broad.mit.edu	37	chr6	75839850	75839850	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgggagaatagatgatcCtgtactgctgaactggccca	11	9	12	9	0	0	4	0	2	0	2	1	5	1	4	2	2	3	2	2	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:75839850C>A	uc003phs.2	-	37	6333	c.6167G>T	c.(6166-6168)AGG>ATG	p.R2056M	COL12A1_uc003pht.2_Missense_Mutation_p.R892M	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2056	Fibronectin type-III 16.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						ATAGATGATCCTGTACTGCTG	0.448													14	94					3.27435e-08	3.49742e-08	0.00245	1	0		A	75839850	A	A	75839850	3	1	4	1	0	0	0	0	1	0	0	0	3672	681	24	5	3144	5	COL12A1	6	75839850	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1960365	75839850	95275217	1565	3531											
FILIP1	27145	broad.mit.edu	37	chr6	76023157	76023157	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttgacgtcacaggaacAtccaccattcttcttccatt	10	12	5	14	1	3	1	1	1	2	0	5	2	5	2	4	1	1	1	4	1	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:76023157A>G	uc003pia.2	-	5	2764	c.2391T>C	c.(2389-2391)GAT>GAC	p.D797D	FILIP1_uc003phy.1_Silent_p.D797D|FILIP1_uc003phz.2_Silent_p.D698D|FILIP1_uc010kbe.2_Silent_p.D800D|FILIP1_uc003pib.1_Silent_p.D549D	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	797										skin(3)|ovary(1)	4						TCACAGGAACATCCACCATTC	0.507													33	124					0	0	0.004878	0	0		G	76023157	G	G	76023157	2	3	4	1	0	0	0	0	0	0	0	1	5908	214	8	3		3	FILIP1	6	76023157	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	183307	76023157	95091910	1566	3532											
PHIP	55023	broad.mit.edu	37	chr6	79668246	79668246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcagatttcacaatagggCttccaggctcattaaatgtt	12	13	8	8	0	2	1	2	0	0	1	3	1	3	1	1	2	1	4	1	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:79668246C>T	uc003pir.2	-	32	3954	c.3728G>A	c.(3727-3729)AGC>AAC	p.S1243N	PHIP_uc003piq.2_Missense_Mutation_p.S267N|PHIP_uc011dyp.1_Missense_Mutation_p.S1242N|PHIP_uc003pio.3_Missense_Mutation_p.S129N	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1243	Bromo 1.				insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		CACAATAGGGCTTCCAGGCTC	0.289													16	57					0	0	0.006122	0	0		T	79668246	T	T	79668246	3	4	4	1	0	0	0	0	1	0	0	0	11861	797	28	2	1773	2	PHIP	6	79668246	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3645089	79668246	91446821	1567	3533											
PHIP	55023	broad.mit.edu	37	chr6	79695140	79695140	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgacagcaactacttcGccttcctaagatatgttgaa	12	11	6	12	1	0	3	0	2	0	1	2	3	1	3	3	0	3	2	3	0	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:79695140G>A	uc003pir.2	-	22	2692	c.2466C>T	c.(2464-2466)GGC>GGT	p.G822G	PHIP_uc003piq.2_5'Flank|PHIP_uc011dyp.1_Silent_p.G821G	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	822					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		CAACTACTTCGCCTTCCTAAG	0.323													24	104					0	0	0.00632	0	0		A	79695140	A	A	79695140	2	1	4	1	0	0	0	0	0	0	0	1	11861	1074	38	1		1	PHIP	6	79695140	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	26894	79695140	91419927	1568	3534											
PHIP	55023	broad.mit.edu	37	chr6	79708078	79708078	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagtgggctgatctcctggTttgcttgctgacttaaaact	7	14	10	10	0	1	2	0	2	1	0	2	2	1	2	2	2	3	4	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:79708078T>G	uc003pir.2	-	18	2136	c.1910A>C	c.(1909-1911)AAC>ACC	p.N637T	PHIP_uc011dyp.1_Missense_Mutation_p.N637T	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	637					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		GATCTCCTGGTTTGCTTGCTG	0.398													15	58					0	0	0.003163	0	0		G	79708078	G	G	79708078	3	3	4	1	0	0	0	0	1	0	0	0	11861	1725	60	5	3647	5	PHIP	6	79708078	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	12938	79708078	91406989	1569	3535											
ELOVL4	6785	broad.mit.edu	37	chr6	80635973	80635973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagataatgagcactagacGcatctgaaaaggttctcggt	14	10	10	7	2	2	4	0	2	2	2	3	4	2	4	0	2	1	3	0	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:80635973G>A	uc003pja.3	-	2	545	c.226C>T	c.(226-228)CGT>TGT	p.R76C	ELOVL4_uc011dyt.1_Intron	NM_022726	NP_073563	Q9GZR5	ELOV4_HUMAN	elongation of very long chain fatty acids-like	76					fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	G-protein coupled photoreceptor activity|protein binding|transferase activity, transferring acyl groups other than amino-acyl groups			ovary(1)|skin(1)	2		all_cancers(76;1.83e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.011)		BRCA - Breast invasive adenocarcinoma(397;0.0168)	Alpha-Linolenic Acid(DB00132)	AGCACTAGACGCATCTGAAAA	0.388													13	61					0	0	0.001368	0	0		A	80635973	A	A	80635973	3	1	4	1	0	0	0	0	1	0	0	0	5084	1087	38	1	738	1	ELOVL4	6	80635973	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	927895	80635973	90479094	1570	3536											
IBTK	25998	broad.mit.edu	37	chr6	82933304	82933304	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacctgacgaggagcagttAcacacttttctccattggga	11	10	10	10	1	1	2	0	1	1	1	2	5	1	4	2	2	2	2	2	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:82933304A>G	uc003pjl.1	-	8	1504	c.977T>C	c.(976-978)GTA>GCA	p.V326A	IBTK_uc011dyv.1_Missense_Mutation_p.V326A|IBTK_uc011dyw.1_Missense_Mutation_p.V326A|IBTK_uc010kbi.1_Missense_Mutation_p.V20A|IBTK_uc003pjm.2_Missense_Mutation_p.V326A	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	326					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		AGGAGCAGTTACACACTTTTC	0.388													8	62					0	0	0.008291	0	0		G	82933304	G	G	82933304	3	3	4	1	0	0	0	0	1	0	0	0	7492	391	14	3	3172	3	IBTK	6	82933304	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	2297331	82933304	88181763	1571	3537											
DOPEY1	23033	broad.mit.edu	37	chr6	83835317	83835317	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagacattgcacttatctgaActcacagattctctcagact	12	12	5	12	0	4	4	2	1	2	3	5	4	4	4	0	0	2	1	0	0	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83835317A>T	uc003pjs.1	+	15	1844	c.1584A>T	c.(1582-1584)GAA>GAT	p.E528D	DOPEY1_uc011dyy.1_Missense_Mutation_p.E519D|DOPEY1_uc010kbl.1_Missense_Mutation_p.E519D	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	528					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		ACTTATCTGAACTCACAGATT	0.468													14	79					0	0	0.00499	0	0		T	83835317	T	T	83835317	3	4	4	1	0	0	0	0	1	0	0	0	4713	40	2	5	1634	5	DOPEY1	6	83835317	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	902013	83835317	87279750	1572	3538											
DOPEY1	23033	broad.mit.edu	37	chr6	83845508	83845508	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagggtttcagtacagcgtgTacaagcagaacgttattgga	12	10	13	6	2	1	1	1	0	0	1	1	3	1	2	0	2	5	5	0	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83845508T>C	uc003pjs.1	+	20	3301	c.3041T>C	c.(3040-3042)GTA>GCA	p.V1014A	DOPEY1_uc011dyy.1_Missense_Mutation_p.V1005A|DOPEY1_uc010kbl.1_Missense_Mutation_p.V1005A|DOPEY1_uc003pjt.2_5'Flank	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1014					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		GTACAGCGTGTACAAGCAGAA	0.428													10	145					0	0	0.000978	0	0		C	83845508	C	C	83845508	3	2	4	1	0	0	0	0	1	0	0	0	4713	1638	57	3	3111	3	DOPEY1	6	83845508	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	10191	83845508	87269559	1573	3539											
DOPEY1	23033	broad.mit.edu	37	chr6	83848526	83848526	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttaaggtgcttcagaggCtgattgttctagaacacaga	11	13	10	7	0	3	4	1	1	2	3	3	4	3	4	0	2	2	3	0	2	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83848526C>T	uc003pjs.1	+	21	5025	c.4765C>T	c.(4765-4767)CTG>TTG	p.L1589L	DOPEY1_uc011dyy.1_Silent_p.L1580L|DOPEY1_uc010kbl.1_Silent_p.L1580L|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1589					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		GCTTCAGAGGCTGATTGTTCT	0.408													25	93					0	0	0.004656	0	0		T	83848526	T	T	83848526	2	4	4	1	0	0	0	0	0	0	0	1	4713	796	28	2		2	DOPEY1	6	83848526	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3018	83848526	87266541	1574	3540											
DOPEY1	23033	broad.mit.edu	37	chr6	83863283	83863283	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgatgaaaaggagcgggtTattcctttacttgtaaatat	13	14	10	4	1	0	2	0	2	0	0	1	3	1	3	1	2	2	2	1	2	7	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83863283T>C	uc003pjs.1	+	31	6443	c.6183T>C	c.(6181-6183)GTT>GTC	p.V2061V	DOPEY1_uc011dyy.1_Silent_p.V2052V|DOPEY1_uc010kbl.1_Silent_p.V2052V|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	2061					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		AGGAGCGGGTTATTCCTTTAC	0.303													9	104					0	0	0.008291	0	0		C	83863283	C	C	83863283	2	2	4	1	0	0	0	0	0	0	0	1	4713	1741	61	3		3	DOPEY1	6	83863283	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	14757	83863283	87251784	1575	3541											
DOPEY1	23033	broad.mit.edu	37	chr6	83877659	83877659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctcaccatctgcaccgtgCgcagtatggagcagctcctg	7	9	11	14	2	2	0	1	0	1	0	3	1	3	1	3	1	5	6	3	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83877659C>T	uc003pjs.1	+	39	7431	c.7171C>T	c.(7171-7173)CGC>TGC	p.R2391C	DOPEY1_uc011dyy.1_Missense_Mutation_p.R2402C|DOPEY1_uc010kbl.1_Missense_Mutation_p.R2382C|DOPEY1_uc003pjt.2_RNA|uc003pju.1_5'Flank	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	2391					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		CTGCACCGTGCGCAGTATGGA	0.512													6	43					0	0	0.001168	0	0		T	83877659	T	T	83877659	3	4	4	1	0	0	0	0	1	0	0	0	4713	768	27	1	7317	1	DOPEY1	6	83877659	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	14376	83877659	87237408	1576	3542											
PGM3	5238	broad.mit.edu	37	chr6	83880190	83880190	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgctaataactctcctgTctgcaacctaagtgcaagca	12	11	7	11	0	2	0	0	0	2	0	3	0	2	0	2	0	6	4	2	0	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83880190T>C	uc003pjv.2	-	12	1413	c.1373A>G	c.(1372-1374)GAC>GGC	p.D458G	PGM3_uc003pjw.2_Missense_Mutation_p.D377G|PGM3_uc011dyz.1_Missense_Mutation_p.D486G|DOPEY1_uc003pjt.2_RNA|uc003pju.1_5'Flank	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	458					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		AACTCTCCTGTCTGCAACCTA	0.408													4	96					0	0	0.009096	0	0		C	83880190	C	C	83880190	3	2	4	1	0	0	0	0	1	0	0	0	11819	1667	58	3	263	3	PGM3	6	83880190	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2531	83880190	87234877	1577	3543											
PGM3	5238	broad.mit.edu	37	chr6	83900638	83900638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gacatgatcaagatgttctgCcttcgttcgaaatccagcag	11	11	9	10	2	2	2	1	1	1	1	5	4	3	2	2	0	2	3	2	0	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83900638C>T	uc003pjv.2	-	2	134	c.94G>A	c.(94-96)GCA>ACA	p.A32T	PGM3_uc003pjw.2_Intron|PGM3_uc011dyz.1_Missense_Mutation_p.A60T|RWDD2A_uc003pjx.3_5'Flank|RWDD2A_uc011dza.1_5'Flank	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	32					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		AGATGTTCTGCCTTCGTTCGA	0.438													12	92					0	0	0.003163	0	0		T	83900638	T	T	83900638	3	4	4	1	0	0	0	0	1	0	0	0	11819	739	26	2	1582	2	PGM3	6	83900638	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20448	83900638	87214429	1578	3544											
NT5E	4907	broad.mit.edu	37	chr6	86199295	86199295	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggaggtggtatccggtcGcccattgatgaacgcaacaa	12	8	12	9	3	0	2	0	2	0	0	2	3	1	3	2	4	2	2	2	4	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:86199295G>A	uc003pko.3	+	6	1744	c.1188G>A	c.(1186-1188)TCG>TCA	p.S396S	NT5E_uc010kbr.2_Silent_p.S396S	NM_002526	NP_002517	P21589	5NTD_HUMAN	5' nucleotidase, ecto precursor	396					DNA metabolic process|purine base metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	5'-nucleotidase activity|nucleotide binding			ovary(3)|central_nervous_system(1)	4		all_cancers(76;0.000215)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0427)		BRCA - Breast invasive adenocarcinoma(108;0.0417)	Pentoxifylline(DB00806)	GTATCCGGTCGCCCATTGATG	0.473													11	33					0	0	0.001368	0	0		A	86199295	A	A	86199295	2	1	4	1	0	0	0	0	0	0	0	1	10712	1074	38	1		1	NT5E	6	86199295	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2298657	86199295	84915772	1579	3545											
SYNCRIP	10492	broad.mit.edu	37	chr6	86324613	86324613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttctgattattggtctggCgccgcttggaatctggctgg	5	14	14	8	2	3	1	0	1	3	0	3	2	3	2	1	5	0	3	1	5	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:86324613C>T	uc003pla.2	-	11	2274	c.1733G>A	c.(1732-1734)CGC>CAC	p.R578H	SYNCRIP_uc003pku.2_Intron|SYNCRIP_uc003pkw.2_Intron|SYNCRIP_uc003pky.2_Intron|SYNCRIP_uc003pkv.2_Intron|SYNCRIP_uc003pkx.2_Intron|SYNCRIP_uc003pkz.2_Missense_Mutation_p.R543H	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	578	Bipartite nuclear localization signal (Potential).				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		ATTGGTCTGGCGCCGCTTGGA	0.552													19	103					0	0	0.002299	0	0		T	86324613	T	T	86324613	3	4	4	1	0	0	0	0	1	0	0	0	15469	768	27	1	188	1	SYNCRIP	6	86324613	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	125318	86324613	84790454	1580	3546											
HTR1E	3354	broad.mit.edu	37	chr6	87725357	87725357	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtgtggctgagtgtggAcatgacctgctgcacctgct	6	11	15	9	0	0	3	0	3	0	0	0	4	0	4	2	3	3	4	2	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:87725357A>G	uc003pli.2	+	2	1008	c.305A>G	c.(304-306)GAC>GGC	p.D102G		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	102	Helical; Name=3; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	CTGAGTGTGGACATGACCTGC	0.557													12	60					0	0	0.004007	0	0		G	87725357	G	G	87725357	3	3	4	1	0	0	0	0	1	0	0	0	7455	275	10	3	307	3	HTR1E	6	87725357	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1400744	87725357	83389710	1581	3547											
HTR1E	3354	broad.mit.edu	37	chr6	87725457	87725457	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatacgccaggaagaggacGgccaagagggccgcgctgat	12	3	16	10	4	0	3	0	1	0	2	0	6	0	5	3	4	1	1	3	4	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:87725457G>A	uc003pli.2	+	2	1108	c.405G>A	c.(403-405)ACG>ACA	p.T135T		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	135	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	GGAAGAGGACGGCCAAGAGGG	0.577													9	65					0	0	0.000978	0	0		A	87725457	A	A	87725457	2	1	4	1	0	0	0	0	0	0	0	1	7455	1103	39	1		1	HTR1E	6	87725457	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	100	87725457	83389610	1582	3548											
C6orf162	57150	broad.mit.edu	37	chr6	88049953	88049953	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagctattgatagtgagggGcacagttatatgaggcggaa	13	9	15	4	1	0	3	0	3	0	0	0	5	0	4	0	4	1	3	0	4	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88049953G>A	uc003plp.1	+	4	344	c.255G>A	c.(253-255)GGG>GGA	p.G85G	C6orf164_uc003plr.2_Intron|C6orf162_uc003plq.1_Silent_p.G85G	NM_001042493	NP_001035958	Q96KF7	CF162_HUMAN	hypothetical protein LOC57150	85						integral to membrane					0		all_cancers(76;3.81e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.15e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.3e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0164)		ATAGTGAGGGGCACAGTTATA	0.388													23	82					0	0	0.007291	0	0		A	88049953	A	A	88049953	2	1	4	1	0	0	0	0	0	0	0	1	2343	1190	42	2		2	C6orf162	6	88049953	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	324496	88049953	83065114	1583	3549											
C6orf165	154313	broad.mit.edu	37	chr6	88128088	88128088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatatatgttaaaagaagCgctatataatatacgacaat	18	11	6	6	2	0	1	0	0	0	1	0	2	0	1	1	0	2	2	1	0	11	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88128088C>T	uc003plv.2	+	7	886	c.794C>T	c.(793-795)GCG>GTG	p.A265V	C6orf165_uc003plw.2_Missense_Mutation_p.A77V|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.A265V	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	265										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		TTAAAAGAAGCGCTATATAAT	0.418													20	100					0	0	0.005443	0	0		T	88128088	T	T	88128088	3	4	4	1	0	0	0	0	1	0	0	0	2344	768	27	1	816	1	C6orf165	6	88128088	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	78135	88128088	82986979	1584	3550											
ORC3L	23595	broad.mit.edu	37	chr6	88321908	88321908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagtatcatctctattgtGcatagaactgttccaatctt	10	16	6	9	0	3	1	1	0	2	1	5	1	4	1	1	0	3	4	1	0	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88321908G>A	uc003pmh.2	+	8	859	c.815G>A	c.(814-816)TGC>TAC	p.C272Y	ORC3L_uc011dzl.1_Missense_Mutation_p.C272Y|ORC3L_uc011dzm.1_Missense_Mutation_p.C272Y|ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Missense_Mutation_p.C272Y|ORC3L_uc003pmi.2_Missense_Mutation_p.C272Y|ORC3L_uc011dzo.1_Missense_Mutation_p.C129Y|ORC3L_uc011dzp.1_Missense_Mutation_p.C129Y	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	272					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)		TCTCTATTGTGCATAGAACTG	0.373													14	68					0	0	0.003163	0	0		A	88321908	A	A	88321908	3	1	4	1	0	0	0	0	1	0	0	0	11282	1319	46	2	845	2	ORC3L	6	88321908	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	193820	88321908	82793159	1585	3551											
ORC3L	23595	broad.mit.edu	37	chr6	88372743	88372743	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataccttctgcctcctgagAcacagcctctccatgaggtg	9	10	8	14	0	2	2	0	2	2	1	4	3	3	2	5	1	3	0	5	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88372743A>T	uc003pmh.2	+	17	1758	c.1714A>T	c.(1714-1716)ACA>TCA	p.T572S	ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Missense_Mutation_p.T573S|ORC3L_uc003pmi.2_Missense_Mutation_p.T535S|ORC3L_uc011dzo.1_Missense_Mutation_p.T429S|ORC3L_uc011dzp.1_Missense_Mutation_p.T429S|ORC3L_uc003pmj.1_5'Flank	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	572					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)		GCCTCCTGAGACACAGCCTCT	0.428													5	64					0	0	0.001168	0	0		T	88372743	T	T	88372743	3	4	4	1	0	0	0	0	1	0	0	0	11282	275	10	5	1783	5	ORC3L	6	88372743	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	50835	88372743	82742324	1586	3552											
ORC3L	23595	broad.mit.edu	37	chr6	88372813	88372813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcatttaaatgctgctcCgcgaattgccctccatactg	9	12	8	12	2	0	1	0	1	0	0	2	2	2	1	3	0	5	3	3	0	4	4	rs61747273	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88372813C>T	uc003pmh.2	+	17	1828	c.1784C>T	c.(1783-1785)CCG>CTG	p.P595L	ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Missense_Mutation_p.P596L|ORC3L_uc003pmi.2_Missense_Mutation_p.P558L|ORC3L_uc011dzo.1_Missense_Mutation_p.P452L|ORC3L_uc011dzp.1_Missense_Mutation_p.P452L|ORC3L_uc003pmj.1_5'Flank	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	595					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)		AATGCTGCTCCGCGAATTGCC	0.463													12	77					0	0	0.000978	0	0		T	88372813	T	T	88372813	3	4	4	1	0	0	0	0	1	0	0	0	11282	652	23	1	1853	1	ORC3L	6	88372813	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	70	88372813	82742254	1587	3553											
CNR1	1268	broad.mit.edu	37	chr6	88854116	88854116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagagaatatacatgtacGcatacacgatgaacagaagc	17	7	8	9	2	0	3	0	1	0	2	1	5	1	3	1	0	5	2	1	0	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88854116G>A	uc011dzq.1	-	2	4441	c.878C>T	c.(877-879)GCG>GTG	p.A293V	CNR1_uc010kbz.2_Missense_Mutation_p.A293V|CNR1_uc011dzr.1_Missense_Mutation_p.A293V|CNR1_uc011dzs.1_Missense_Mutation_p.A293V|CNR1_uc003pmq.3_Missense_Mutation_p.A293V|CNR1_uc011dzt.1_Missense_Mutation_p.A293V|CNR1_uc010kca.2_Missense_Mutation_p.A260V	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	293	Helical; Name=5; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	ATACATGTACGCATACACGAT	0.507													8	44					0	0	0.004482	0	0		A	88854116	A	A	88854116	3	1	4	1	0	0	0	0	1	0	0	0	3634	1087	38	1	544	1	CNR1	6	88854116	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	481303	88854116	82260951	1588	3554											
CNR1	1268	broad.mit.edu	37	chr6	88854156	88854156	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtacgctggtgaccccgaTccagaacatcaggtaggttt	10	9	11	11	2	1	2	1	1	0	1	2	3	2	2	3	3	2	4	3	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88854156T>A	uc011dzq.1	-	2	4401	c.838A>T	c.(838-840)ATC>TTC	p.I280F	CNR1_uc010kbz.2_Missense_Mutation_p.I280F|CNR1_uc011dzr.1_Missense_Mutation_p.I280F|CNR1_uc011dzs.1_Missense_Mutation_p.I280F|CNR1_uc003pmq.3_Missense_Mutation_p.I280F|CNR1_uc011dzt.1_Missense_Mutation_p.I280F|CNR1_uc010kca.2_Missense_Mutation_p.I247F	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	280	Helical; Name=5; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	GTGACCCCGATCCAGAACATC	0.527													7	48					0	0	0.004482	0	0		A	88854156	A	A	88854156	3	1	4	1	0	0	0	0	1	0	0	0	3634	1435	50	5	584	5	CNR1	6	88854156	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	40	88854156	82260911	1589	3555											
PM20D2	135293	broad.mit.edu	37	chr6	89868083	89868083	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatgattattacaatgttCttcccaataagagcctatgg	13	13	6	9	0	1	2	0	1	1	1	2	2	2	2	2	1	2	1	2	1	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:89868083C>A	uc003pmz.2	+	5	1047	c.952C>A	c.(952-954)CTT>ATT	p.L318I		NM_001010853	NP_001010853	Q8IYS1	P20D2_HUMAN	aminoacylase 1-like 2	318							hydrolase activity				0		all_cancers(76;9.47e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00813)		TTACAATGTTCTTCCCAATAA	0.313													28	85					3.73148e-12	4.03773e-12	0.007291	1	0		A	89868083	A	A	89868083	3	1	4	1	0	0	0	0	1	0	0	0	12148	913	32	5	970	5	PM20D2	6	89868083	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1013927	89868083	81246984	1590	3556											
MDN1	23195	broad.mit.edu	37	chr6	90363931	90363931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcctctggcttcagctgctCcacgtctgctgctttgaact	4	15	8	14	1	3	1	1	1	2	0	5	1	5	1	2	1	5	5	2	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90363931C>T	uc003pnn.1	-	93	15729	c.15613G>A	c.(15613-15615)GAG>AAG	p.E5205K		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5205					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TTCAGCTGCTCCACGTCTGCT	0.532													24	112					0	0	0.004656	0	0		T	90363931	T	T	90363931	3	4	4	1	0	0	0	0	1	0	0	0	9433	864	30	4	1217	4	MDN1	6	90363931	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	495848	90363931	80751136	1591	3557											
MDN1	23195	broad.mit.edu	37	chr6	90365627	90365627	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcagcctcttgtgcacacGctcattgtgatcacccatgg	7	11	8	15	1	4	1	3	1	1	0	4	1	4	1	3	1	2	2	3	1	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90365627G>A	uc003pnn.1	-	92	15462	c.15346C>T	c.(15346-15348)CGT>TGT	p.R5116C		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5116					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TTGTGCACACGCTCATTGTGA	0.473													9	33					0	0	0.004482	0	0		A	90365627	A	A	90365627	3	1	4	1	0	0	0	0	1	0	0	0	9433	1087	38	1	1488	1	MDN1	6	90365627	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1696	90365627	80749440	1592	3558											
MDN1	23195	broad.mit.edu	37	chr6	90372631	90372631	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcctcaccattgagatcGcccatgtgtttatccaggtc	7	13	8	13	1	1	1	1	1	0	1	5	2	3	1	4	1	0	2	4	1	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90372631G>A	uc003pnn.1	-	86	14408	c.14292C>T	c.(14290-14292)GGC>GGT	p.G4764G		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4764					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CATTGAGATCGCCCATGTGTT	0.403													30	144					0	0	0.003755	0	0		A	90372631	A	A	90372631	2	1	4	1	0	0	0	0	0	0	0	1	9433	1074	38	1		1	MDN1	6	90372631	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	7004	90372631	80742436	1593	3559											
MDN1	23195	broad.mit.edu	37	chr6	90420485	90420485	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattcctgagagatgcagcActggcttccaaatgaatttg	13	11	9	8	0	0	3	0	2	0	1	2	4	2	3	2	1	2	3	2	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90420485A>T	uc003pnn.1	-	50	7796	c.7680T>A	c.(7678-7680)AGT>AGA	p.S2560R		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2560					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GAGATGCAGCACTGGCTTCCA	0.323													18	32					0	0	0.007413	0	0		T	90420485	T	T	90420485	3	4	4	1	0	0	0	0	1	0	0	0	9433	156	6	5	9322	5	MDN1	6	90420485	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	47854	90420485	80694582	1594	3560											
MDN1	23195	broad.mit.edu	37	chr6	90422950	90422950	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgtctaaactcagccctcGctgcaggtactggacaatta	10	11	8	12	1	3	0	1	0	2	0	4	1	3	1	1	2	4	3	1	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90422950G>A	uc003pnn.1	-	47	7251	c.7135C>T	c.(7135-7137)CGA>TGA	p.R2379*		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2379					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CTCAGCCCTCGCTGCAGGTAC	0.413													38	127					0	0	0.003214	0	0		A	90422950	A	A	90422950	4	1	4	1	0	0	0	0	0	1	0	0	9433	1095	38	1	9879	1	MDN1	6	90422950	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2465	90422950	80692117	1595	3561											
MDN1	23195	broad.mit.edu	37	chr6	90433295	90433295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggctggaaacaaagtactgGcaatgaactccatgtcaatt	14	10	9	8	0	1	1	1	1	0	0	2	2	2	2	1	3	3	3	1	3	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90433295G>A	uc003pnn.1	-	39	5830	c.5714C>T	c.(5713-5715)GCC>GTC	p.A1905V		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1905					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CAAAGTACTGGCAATGAACTC	0.333													10	40					0	0	0.000978	0	0		A	90433295	A	A	90433295	3	1	4	1	0	0	0	0	1	0	0	0	9433	1203	42	2	11332	2	MDN1	6	90433295	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	10345	90433295	80681772	1596	3562											
MDN1	23195	broad.mit.edu	37	chr6	90499580	90499580	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtgtcagggtgccaggctgCcacacaaactctccaggaac	10	7	11	13	0	2	0	1	0	1	0	3	1	2	1	3	3	4	1	3	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90499580C>T	uc003pnn.1	-	7	1265	c.1149G>A	c.(1147-1149)TGG>TGA	p.W383*	MDN1_uc003pnp.1_Nonsense_Mutation_p.W383*	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	383					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TGCCAGGCTGCCACACAAACT	0.483													4	28					0	0	0.000602	0	0		T	90499580	T	T	90499580	4	4	4	1	0	0	0	0	0	1	0	0	9433	740	26	2	16025	2	MDN1	6	90499580	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	66285	90499580	80615487	1597	3563											
CASP8AP2	9994	broad.mit.edu	37	chr6	90572093	90572093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacatctgttgagaaacactGcactaatggtgtttggtcac	11	13	9	8	0	2	1	1	1	1	1	2	2	2	1	0	2	3	3	0	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90572093G>A	uc003pnr.2	+	7	861	c.665G>A	c.(664-666)TGC>TAC	p.C222Y	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.C222Y|CASP8AP2_uc011dzz.1_Missense_Mutation_p.C222Y	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	222					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		GAGAAACACTGCACTAATGGT	0.398													39	259					0	0	0.007835	0	0		A	90572093	A	A	90572093	3	1	4	1	0	0	0	0	1	0	0	0	2681	1319	46	2	687	2	CASP8AP2	6	90572093	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	72513	90572093	80542974	1598	3564											
BACH2	60468	broad.mit.edu	37	chr6	90660539	90660539	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggagaagatcacgctcCtccggtccagctctccctcc	7	8	10	16	2	2	2	1	0	1	2	7	4	6	3	5	3	1	2	5	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90660539C>A	uc011eab.1	-	7	2095	c.1286G>T	c.(1285-1287)AGG>ATG	p.R429M	BACH2_uc003pnw.2_Missense_Mutation_p.R429M|BACH2_uc010kch.2_Missense_Mutation_p.R429M	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	429						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		GATCACGCTCCTCCGGTCCAG	0.597													9	30					4.84862e-15	5.27828e-15	0.000978	1	0		A	90660539	A	A	90660539	3	1	4	1	0	0	0	0	1	0	0	0	1285	681	24	5	1251	5	BACH2	6	90660539	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	88446	90660539	80454528	1599	3565											
BACH2	60468	broad.mit.edu	37	chr6	90718450	90718450	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccacgatcaaagtcacGtcacagagaatatccttttt	12	12	5	12	2	4	1	3	0	1	1	6	3	5	1	2	0	0	0	2	0	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90718450G>A	uc011eab.1	-	6	923	c.114C>T	c.(112-114)GAC>GAT	p.D38D	BACH2_uc003pnw.2_Silent_p.D38D|BACH2_uc010kch.2_Silent_p.D38D	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	38	BTB.					nucleus	protein dimerization activity|sequence-specific DNA binding	p.D38N(1)		ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		TCAAAGTCACGTCACAGAGAA	0.537													23	85					0	0	0.004656	0	0		A	90718450	A	A	90718450	2	1	4	1	0	0	0	0	0	0	0	1	1285	1136	40	1		1	BACH2	6	90718450	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	57911	90718450	80396617	1600	3566											
KIAA0776	23376	broad.mit.edu	37	chr6	96984150	96984150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaacttgttaatagcggacGcttacgaggcactgtggttg	9	11	14	7	3	0	0	0	0	0	0	0	3	0	2	0	4	3	4	0	4	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:96984150G>A	uc003por.2	+	8	734	c.686G>A	c.(685-687)CGC>CAC	p.R229H	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	229	Involved in CDK5RAP3-binding.				negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		AATAGCGGACGCTTACGAGGC	0.408													16	124					0	0	0.008871	0	0		A	96984150	A	A	96984150	3	1	4	1	0	0	0	0	1	0	0	0	8209	1087	38	1	716	1	KIAA0776	6	96984150	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6265700	96984150	74130917	1601	3567											
KLHL32	114792	broad.mit.edu	37	chr6	97562260	97562260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggcagaaatgaactgcGccaggttctgcctacagttg	9	9	14	9	1	1	2	0	1	1	1	1	2	1	2	2	3	4	3	2	3	3	3	rs150244885		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:97562260G>A	uc010kcm.1	+	7	1701	c.1229G>A	c.(1228-1230)CGC>CAC	p.R410H	KLHL32_uc003poy.2_Missense_Mutation_p.R410H|KLHL32_uc011ead.1_Missense_Mutation_p.R374H|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Missense_Mutation_p.R341H|KLHL32_uc003ppa.2_Intron	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	410	Kelch 3.									ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		AATGAACTGCGCCAGGTTCTG	0.498													10	45					0	0	0.006214	0	0		A	97562260	A	A	97562260	3	1	4	1	0	0	0	0	1	0	0	0	8402	1087	38	1	1251	1	KLHL32	6	97562260	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	578110	97562260	73552807	1602	3568											
POU3F2	5454	broad.mit.edu	37	chr6	99283807	99283807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagatcgcagcgcaagggcGcaagcggaaaaagcggacct	14	2	14	11	5	0	1	0	0	0	1	1	3	0	3	1	3	3	3	1	3	5	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:99283807G>A	uc003ppe.2	+	1	1228	c.1058G>A	c.(1057-1059)CGC>CAC	p.R353H		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	353					positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)		GCGCAAGGGCGCAAGCGGAAA	0.597													4	54					0	0	0.009096	0	0		A	99283807	A	A	99283807	3	1	4	1	0	0	0	0	1	0	0	0	12294	1087	38	1	1060	1	POU3F2	6	99283807	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1721547	99283807	71831260	1603	3569											
POU3F2	5454	broad.mit.edu	37	chr6	99283841	99283841	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggacctccatcgaggtgagCgtcaagggggctctggagag	8	6	17	10	3	2	2	1	1	1	1	4	5	3	3	2	5	1	1	2	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:99283841C>T	uc003ppe.2	+	1	1262	c.1092C>T	c.(1090-1092)AGC>AGT	p.S364S		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	364	Homeobox.				positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)		TCGAGGTGAGCGTCAAGGGGG	0.632													7	36					0	0	0.001984	0	0		T	99283841	T	T	99283841	2	4	4	1	0	0	0	0	0	0	0	1	12294	767	27	1		1	POU3F2	6	99283841	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	34	99283841	71831226	1604	3570											
SFRS18	25957	broad.mit.edu	37	chr6	99849276	99849276	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actactagttctgctattgcTactggaactaccactactag	11	13	6	11	0	1	0	0	0	1	0	1	1	1	1	1	1	7	3	1	1	8	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:99849276T>C	uc003ppo.3	-	12	1786	c.1558A>G	c.(1558-1560)AGC>GGC	p.S520G	SFRS18_uc003ppl.2_Missense_Mutation_p.S66G|SFRS18_uc003ppp.3_Missense_Mutation_p.S520G|SFRS18_uc011eag.1_Missense_Mutation_p.S520G	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	520	Ser-rich.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		ctgctattgctactggaacta	0.294													4	43					0	0	0.009096	0	0		C	99849276	C	C	99849276	3	2	4	1	0	0	0	0	1	0	0	0	14199	1522	53	3	863	3	SFRS18	6	99849276	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	565435	99849276	71265791	1605	3571											
SFRS18	25957	broad.mit.edu	37	chr6	99855980	99855980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttacttctctgaggtaaacGagggccatcccctccttcag	8	12	8	13	1	2	1	1	1	1	0	5	2	4	1	4	2	2	1	4	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:99855980G>A	uc003ppo.3	-	7	1069	c.841C>T	c.(841-843)CGT>TGT	p.R281C	SFRS18_uc003ppp.3_Missense_Mutation_p.R281C|SFRS18_uc011eag.1_Missense_Mutation_p.R281C|SFRS18_uc003ppr.2_Missense_Mutation_p.R281C	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	281						nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		TGAGGTAAACGAGGGCCATCC	0.373													21	80					0	0	0.002299	0	0		A	99855980	A	A	99855980	3	1	4	1	0	0	0	0	1	0	0	0	14199	1058	37	1	1600	1	SFRS18	6	99855980	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6704	99855980	71259087	1606	3572											
SFRS18	25957	broad.mit.edu	37	chr6	99856111	99856111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattttttcaagaccttcgCgaatccaagcgggaagagtc	11	10	9	11	3	1	2	1	0	0	2	4	4	2	3	3	1	1	0	3	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:99856111C>T	uc003ppo.3	-	7	938	c.710G>A	c.(709-711)CGC>CAC	p.R237H	SFRS18_uc003ppp.3_Missense_Mutation_p.R237H|SFRS18_uc011eag.1_Missense_Mutation_p.R237H|SFRS18_uc003ppr.2_Missense_Mutation_p.R237H	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	237	Potential.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		AAGACCTTCGCGAATCCAAGC	0.383													18	109					0	0	0.008871	0	0		T	99856111	T	T	99856111	3	4	4	1	0	0	0	0	1	0	0	0	14199	768	27	1	1731	1	SFRS18	6	99856111	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	131	99856111	71258956	1607	3573											
PRDM13	59336	broad.mit.edu	37	chr6	100062403	100062403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagggcaatacgccctaccGctgcgagttctgcggcaagg	8	6	14	13	5	1	0	0	0	1	0	1	2	1	0	2	3	4	4	2	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:100062403G>A	uc003pqg.1	+	4	2153	c.1892G>A	c.(1891-1893)CGC>CAC	p.R631H		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	631	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		ACGCCCTACCGCTGCGAGTTC	0.637													5	16					0	0	0.006214	0	0		A	100062403	A	A	100062403	3	1	4	1	0	0	0	0	1	0	0	0	12476	1087	38	1	1906	1	PRDM13	6	100062403	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	206292	100062403	71052664	1608	3574											
MCHR2	84539	broad.mit.edu	37	chr6	100403950	100403950	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacactggcagtttgataaGcaaactctttattccaggat	12	12	7	10	0	1	1	0	1	1	0	2	2	2	2	2	2	2	3	2	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:100403950G>T	uc003pqh.1	-	2	389	c.74C>A	c.(73-75)GCT>GAT	p.A25D	MCHR2_uc003pqi.1_Missense_Mutation_p.A25D	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	25	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		AGTTTGATAAGCAAACTCTTT	0.418													12	123					3.07112e-06	3.25042e-06	0.000978	1	0		T	100403950	T	T	100403950	3	4	4	1	0	0	0	0	1	0	0	0	9401	971	34	5	968	5	MCHR2	6	100403950	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	341547	100403950	70711117	1609	3575											
SIM1	6492	broad.mit.edu	37	chr6	100897563	100897563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattcataaatgctgtttcCggtcagctctacctgtaaag	10	14	8	9	1	3	0	2	0	1	0	4	0	4	0	2	1	3	5	2	1	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:100897563C>T	uc003pqj.3	-	4	568	c.361G>A	c.(361-363)GGA>AGA	p.G121R	SIM1_uc010kcu.2_Missense_Mutation_p.G121R	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	121	PAS 1.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		ATGCTGTTTCCGGTCAGCTCT	0.572													8	24					0	0	0.004482	0	0		T	100897563	T	T	100897563	3	4	4	1	0	0	0	0	1	0	0	0	14348	661	23	1	1971	1	SIM1	6	100897563	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	493613	100897563	70217504	1610	3576											
ASCC3	10973	broad.mit.edu	37	chr6	101109778	101109778	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatggctgagtttatcatgCgttgttataattattccttc	9	19	7	6	1	1	1	1	1	0	0	3	1	2	1	1	1	1	4	1	1	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:101109778C>T	uc003pqk.2	-	16	2936	c.2607G>A	c.(2605-2607)ACG>ACA	p.T869T	ASCC3_uc011eai.1_Silent_p.T771T	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	869	Helicase C-terminal 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		GTTTATCATGCGTTGTTATAA	0.408													24	130					0	0	0.004656	0	0		T	101109778	T	T	101109778	2	4	4	1	0	0	0	0	0	0	0	1	1034	755	27	1		1	ASCC3	6	101109778	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	212215	101109778	70005289	1611	3577											
ASCC3	10973	broad.mit.edu	37	chr6	101165958	101165958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgagtatttaccttatttGcacatttaatccccaaaaat	15	15	3	8	0	0	1	0	1	0	0	1	1	1	1	3	0	2	2	3	0	7	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:101165958G>A	uc003pqk.2	-	12	2401	c.2072C>T	c.(2071-2073)GCA>GTA	p.A691V	ASCC3_uc011eai.1_Missense_Mutation_p.A593V|ASCC3_uc003pql.2_Missense_Mutation_p.A691V	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	691					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		TACCTTATTTGCACATTTAAT	0.318													5	74					0	0	0.000602	0	0		A	101165958	A	A	101165958	3	1	4	1	0	0	0	0	1	0	0	0	1034	1319	46	2	4660	2	ASCC3	6	101165958	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	56180	101165958	69949109	1612	3578											
ASCC3	10973	broad.mit.edu	37	chr6	101215064	101215064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttgttgaaaatgttggCgaatttcatgcaagactgtc	11	13	9	8	1	1	2	1	1	0	1	2	3	1	2	1	1	1	3	1	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:101215064C>T	uc003pqk.2	-	9	1882	c.1553G>A	c.(1552-1554)CGC>CAC	p.R518H	ASCC3_uc011eai.1_Missense_Mutation_p.R420H|ASCC3_uc003pql.2_Missense_Mutation_p.R518H	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	518	Helicase ATP-binding 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		AAAATGTTGGCGAATTTCATG	0.348													13	87					0	0	0.00245	0	0		T	101215064	T	T	101215064	3	4	4	1	0	0	0	0	1	0	0	0	1034	768	27	1	5191	1	ASCC3	6	101215064	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	49106	101215064	69900003	1613	3579											
GRIK2	2898	broad.mit.edu	37	chr6	101847167	101847167	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaccatgaagattatttTcccgattctaagtaatccag	15	12	5	9	1	1	2	0	1	1	1	3	3	3	2	3	0	1	1	3	0	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:101847167T>A	uc003pqp.3	+	1	263	c.14T>A	c.(13-15)TTC>TAC	p.F5Y	GRIK2_uc003pqn.2_Missense_Mutation_p.F5Y|GRIK2_uc003pqo.3_Missense_Mutation_p.F5Y|GRIK2_uc010kcw.2_Missense_Mutation_p.F5Y	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	5					glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	AAGATTATTTTCCCGATTCTA	0.483													10	64					0	0	0.008291	0	0		A	101847167	A	A	101847167	3	1	4	1	0	0	0	0	1	0	0	0	6790	1783	62	5	16	5	GRIK2	6	101847167	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	632103	101847167	69267900	1614	3580											
GRIK2	2898	broad.mit.edu	37	chr6	102074360	102074360	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctctgggagttccccacaTacagacccgctggaagcacc	9	7	10	15	1	1	1	0	0	1	1	2	3	2	3	4	2	3	4	4	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:102074360T>C	uc003pqp.3	+	3	638	c.389T>C	c.(388-390)ATA>ACA	p.I130T	GRIK2_uc003pqn.2_Missense_Mutation_p.I130T|GRIK2_uc003pqo.3_Missense_Mutation_p.I130T|GRIK2_uc010kcw.2_Missense_Mutation_p.I130T	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	130	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	GTTCCCCACATACAGACCCGC	0.532													16	113					0	0	0.00499	0	0		C	102074360	C	C	102074360	3	2	4	1	0	0	0	0	1	0	0	0	6790	1406	49	3	399	3	GRIK2	6	102074360	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	227193	102074360	69040707	1615	3581											
HACE1	57531	broad.mit.edu	37	chr6	105244857	105244857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatctggcagatatttggCtcctcgtaatagtaggatct	9	16	9	7	1	2	1	0	0	2	1	4	2	3	2	1	3	0	4	1	3	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:105244857C>T	uc003pqu.1	-	8	938	c.661G>A	c.(661-663)GCC>ACC	p.A221T	HACE1_uc010kcy.1_5'UTR|HACE1_uc010kcz.1_Missense_Mutation_p.A221T	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	221	ANK 5.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		AGATATTTGGCTCCTCGTAAT	0.338													9	63					0	0	0.000978	0	0		T	105244857	T	T	105244857	3	4	4	1	0	0	0	0	1	0	0	0	6956	797	28	2	2136	2	HACE1	6	105244857	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3170497	105244857	65870210	1616	3582											
POPDC3	64208	broad.mit.edu	37	chr6	105609713	105609713	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgataaatggctccttcggcCtcttgcttccaggttgtgca	6	14	10	11	1	1	1	0	1	1	0	4	1	3	1	3	3	2	4	3	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:105609713C>A	uc003prb.2	-	2	474	c.72G>T	c.(70-72)GAG>GAT	p.E24D	uc003pqz.2_Intron|POPDC3_uc003pra.2_RNA	NM_022361	NP_071756	Q9HBV1	POPD3_HUMAN	popeye protein 3	24						integral to membrane				skin(3)|ovary(2)	5		all_cancers(87;4.87e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0157)|Colorectal(196;0.202)|Lung NSC(302;0.238)				CTCCTTCGGCCTCTTGCTTCC	0.433													30	92					8.58068e-18	9.37822e-18	0.007291	1	0		A	105609713	A	A	105609713	3	1	4	1	0	0	0	0	1	0	0	0	12275	680	24	5	815	5	POPDC3	6	105609713	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	364856	105609713	65505354	1617	3583											
PREP	5550	broad.mit.edu	37	chr6	105730445	105730445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaagcagttttgtttgttgGccaagataccacctacagtg	11	12	9	9	0	0	1	0	0	0	1	0	1	0	1	3	1	3	4	3	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:105730445G>A	uc003prc.2	-	13	1765	c.1562C>T	c.(1561-1563)GCC>GTC	p.A521V		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	521					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)	TTGTTTGTTGGCCAAGATACC	0.378													18	124					0	0	0.010504	0	0		A	105730445	A	A	105730445	3	1	4	1	0	0	0	0	1	0	0	0	12496	1203	42	2	582	2	PREP	6	105730445	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	120732	105730445	65384622	1618	3584											
PREP	5550	broad.mit.edu	37	chr6	105736746	105736746	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaacattggaatcttcgtAccatccttgctagggtagaa	12	12	9	8	1	1	2	0	1	1	1	3	3	2	3	2	2	3	3	2	2	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:105736746A>G	uc003prc.2	-	11	1544	c.1341T>C	c.(1339-1341)GGT>GGC	p.G447G		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	447					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)	GAATCTTCGTACCATCCTTGC	0.353													16	57					0	0	0.004007	0	0		G	105736746	G	G	105736746	2	3	4	1	0	0	0	0	0	0	0	1	12496	378	14	3		3	PREP	6	105736746	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	6301	105736746	65378321	1619	3585											
PRDM1	639	broad.mit.edu	37	chr6	106553770	106553770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatcaagtacgaatgcaacGtttgcgccaagactttcggc	12	9	10	10	4	1	2	1	0	0	2	2	3	1	2	1	1	4	3	1	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:106553770G>A	uc003prd.2	+	5	1969	c.1735G>A	c.(1735-1737)GTT>ATT	p.V579I	PRDM1_uc003pre.2_Missense_Mutation_p.V445I	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	579	C2H2-type 1.				negative regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.?(1)		haematopoietic_and_lymphoid_tissue(54)|ovary(1)|skin(1)	56	Breast(9;0.022)	all_cancers(87;2.2e-31)|all_epithelial(87;2.03e-21)|Acute lymphoblastic leukemia(125;4.99e-11)|all_lung(197;7.55e-09)|all_hematologic(75;5.82e-08)|Lung NSC(302;1.28e-06)|Colorectal(196;0.0112)|Ovarian(999;0.0365)		all cancers(137;1.83e-46)|Epithelial(106;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(136;1.99e-20)|GBM - Glioblastoma multiforme(226;3.72e-11)|BRCA - Breast invasive adenocarcinoma(108;1.38e-05)		CGAATGCAACGTTTGCGCCAA	0.483			D|N|Mis|F|S		DLBCL								7	68					0	0	0.004482	0	0		A	106553770	A	A	106553770	3	1	4	1	0	0	0	0	1	0	0	0	12472	1145	40	1	1766	1	PRDM1	6	106553770	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	817024	106553770	64561297	1620	3586											
SOBP	55084	broad.mit.edu	37	chr6	107956476	107956476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgaaccttaataaccccGcggacgaggaccatgcctat	12	6	8	15	4	0	0	0	0	0	0	0	4	0	2	6	2	3	0	6	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:107956476G>A	uc003prx.2	+	6	2932	c.2428G>A	c.(2428-2430)GCG>ACG	p.A810T		NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	810							metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)		TAATAACCCCGCGGACGAGGA	0.647													20	47					0	0	0.010504	0	0		A	107956476	A	A	107956476	3	1	4	1	0	0	0	0	1	0	0	0	14937	1087	38	1	2450	1	SOBP	6	107956476	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1402706	107956476	63158591	1621	3587											
FIG4	9896	broad.mit.edu	37	chr6	110146311	110146311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacacccatctcggctttctCgcaagataacatctatgaag	13	10	6	12	2	3	2	0	1	3	1	5	2	3	2	1	1	2	2	1	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:110146311C>T	uc003ptt.2	+	23	2782	c.2567C>T	c.(2566-2568)TCG>TTG	p.S856L	FIG4_uc011eau.1_Missense_Mutation_p.S550L	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	856					cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		TCGGCTTTCTCGCAAGATAAC	0.458													8	150					0	0	0.006214	0	0		T	110146311	T	T	110146311	3	4	4	1	0	0	0	0	1	0	0	0	5902	893	31	1	2657	1	FIG4	6	110146311	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2189835	110146311	60968756	1622	3588											
WASF1	8936	broad.mit.edu	37	chr6	110421800	110421800	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacagcaatacggcgagaCaggatggtggcaacatcgtt	13	7	12	9	3	1	1	1	0	0	1	2	3	1	2	0	4	4	3	0	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:110421800C>T	uc003ptv.1	-	11	2442	c.1605G>A	c.(1603-1605)CTG>CTA	p.L535L	WASF1_uc003ptw.1_Silent_p.L535L|WASF1_uc003ptx.1_Silent_p.L535L|WASF1_uc003pty.1_Silent_p.L535L	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	535					actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)		TACGGCGAGACAGGATGGTGG	0.393													14	49					0	0	0.004007	0	0		T	110421800	T	T	110421800	2	4	4	1	0	0	0	0	0	0	0	1	17278	465	17	4		4	WASF1	6	110421800	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	275489	110421800	60693267	1623	3589											
CDC40	51362	broad.mit.edu	37	chr6	110547422	110547422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacccagtatgcactcaatgCctgcagtgactttgtctcca	10	11	7	13	0	2	1	1	1	1	0	3	1	2	1	3	0	4	3	3	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:110547422C>T	uc003pua.2	+	13	1417	c.1393C>T	c.(1393-1395)CCT>TCT	p.P465S		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	465	WD 5.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		GCACTCAATGCCTGCAGTGAC	0.328													5	87					0	0	0.001168	0	0		T	110547422	T	T	110547422	3	4	4	1	0	0	0	0	1	0	0	0	3073	739	26	2	1443	2	CDC40	6	110547422	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	125622	110547422	60567645	1624	3590											
SLC22A16	85413	broad.mit.edu	37	chr6	110746270	110746270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taacactccactcaggagggCcatagtcccaacaaacaact	15	6	6	14	0	1	0	1	0	0	0	3	1	3	1	3	2	4	0	3	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:110746270C>T	uc003puf.2	-	8	1607	c.1540G>A	c.(1540-1542)GCC>ACC	p.A514T	SLC22A16_uc003pue.2_Missense_Mutation_p.A495T	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	514	Helical; (Potential).				acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		CTCAGGAGGGCCATAGTCCCA	0.423													16	70					0	0	0.004007	0	0		T	110746270	T	T	110746270	3	4	4	1	0	0	0	0	1	0	0	0	14472	739	26	2	197	2	SLC22A16	6	110746270	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	198848	110746270	60368797	1625	3591											
REV3L	5980	broad.mit.edu	37	chr6	111694065	111694065	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaaatcttcacaggccacGtctacaagttcaccatcagg	12	10	6	13	1	6	0	3	0	3	0	6	0	6	0	2	2	1	1	2	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:111694065G>A	uc003puy.3	-	13	5816	c.5493C>T	c.(5491-5493)GAC>GAT	p.D1831D	REV3L_uc003pux.3_Silent_p.D1753D|REV3L_uc003puz.3_Silent_p.D1753D	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1831					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		CACAGGCCACGTCTACAAGTT	0.423								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					8	189					0	0	0.004482	0	0		A	111694065	A	A	111694065	2	1	4	1	0	0	0	0	0	0	0	1	13265	1136	40	1		1	REV3L	6	111694065	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	947795	111694065	59421002	1626	3592											
LAMA4	3910	broad.mit.edu	37	chr6	112460964	112460964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtctcttaccgggcacatgGcactgatgtggaggggtcca	7	10	14	10	1	1	1	0	1	1	0	3	2	2	2	2	5	1	2	2	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:112460964G>A	uc003pvu.2	-	23	3409	c.3100C>T	c.(3100-3102)CCA>TCA	p.P1034S	LAMA4_uc003pvv.2_Missense_Mutation_p.P1027S|LAMA4_uc003pvt.2_Missense_Mutation_p.P1027S	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1034	Laminin G-like 1.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CGGGCACATGGCACTGATGTG	0.423													30	126					0	0	0.003271	0	0		A	112460964	A	A	112460964	3	1	4	1	0	0	0	0	1	0	0	0	8624	1203	42	2	2439	2	LAMA4	6	112460964	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	766899	112460964	58654103	1627	3593											
LAMA4	3910	broad.mit.edu	37	chr6	112508790	112508790	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatcagtcaggtcccagacGcacttatcacagcctggagg	10	7	11	13	1	3	1	3	0	0	1	4	2	4	2	2	3	1	2	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:112508790G>A	uc003pvu.2	-	8	1137	c.828C>T	c.(826-828)TGC>TGT	p.C276C	LAMA4_uc003pvv.2_Silent_p.C269C|LAMA4_uc003pvt.2_Silent_p.C269C	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	276	Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		GGTCCCAGACGCACTTATCAC	0.517													4	27					0	0	0.001984	0	0		A	112508790	A	A	112508790	2	1	4	1	0	0	0	0	0	0	0	1	8624	1079	38	1		1	LAMA4	6	112508790	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	47826	112508790	58606277	1628	3594											
HDAC2	3066	broad.mit.edu	37	chr6	114266574	114266574	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggtttgtcatgtttgaaGgactaatatgcagtttgaag	10	16	11	4	0	2	2	1	2	1	0	2	3	2	3	0	2	1	4	0	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:114266574G>T	uc003pwd.1	-	10	1325	c.1325C>A	c.(1324-1326)CCT>CAT	p.P442H	HDAC2_uc003pwc.1_Missense_Mutation_p.P318H|HDAC2_uc003pwe.1_Missense_Mutation_p.P318H	NM_001527	NP_001518	Q92769	HDAC2_HUMAN	histone deacetylase 2	348					blood coagulation|dendrite development|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|maintenance of chromatin silencing|negative regulation of apoptosis|negative regulation of cell cycle|negative regulation of neuron projection development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of proteolysis|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|ESC/E(Z) complex|NuRD complex|Sin3 complex	chromatin binding|enzyme binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|sequence-specific DNA binding|transcription factor binding			skin(2)|ovary(1)|central_nervous_system(1)	4		all_cancers(87;0.000629)|all_epithelial(87;0.00274)|Colorectal(196;0.0317)|all_lung(197;0.24)		all cancers(137;0.00318)|OV - Ovarian serous cystadenocarcinoma(136;0.00569)|Epithelial(106;0.0112)|GBM - Glioblastoma multiforme(226;0.0832)	Vorinostat(DB02546)	CATGTTTGAAGGACTAATATG	0.279													10	145					1.5842e-08	1.6949e-08	0.001855	1	0		T	114266574	T	T	114266574	3	4	4	1	0	0	0	0	1	0	0	0	7023	1000	35	5	443	5	HDAC2	6	114266574	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1757784	114266574	56848493	1629	3595											
HS3ST5	222537	broad.mit.edu	37	chr6	114379185	114379185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcaccccaatgataatggCcttggggagctgctggacca	9	8	11	13	0	1	1	1	1	0	0	1	3	1	3	5	4	2	2	5	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:114379185C>T	uc003pwg.3	-	2	309	c.277G>A	c.(277-279)GCC>ACC	p.A93T	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.A93T	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	93	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		ATGATAATGGCCTTGGGGAGC	0.557													20	61					0	0	0.00278	0	0		T	114379185	T	T	114379185	3	4	4	1	0	0	0	0	1	0	0	0	7384	739	26	2	767	2	HS3ST5	6	114379185	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	112611	114379185	56735882	1630	3596											
HS3ST5	222537	broad.mit.edu	37	chr6	114379236	114379236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgaacctgctccttggaagCgttgcccttccggaactcgt	6	10	11	14	4	0	0	0	0	0	0	3	3	2	2	4	2	5	2	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:114379236C>T	uc003pwg.3	-	2	258	c.226G>A	c.(226-228)GCT>ACT	p.A76T	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.A76T	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	76	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		TCCTTGGAAGCGTTGCCCTTC	0.592													8	38					0	0	0.004482	0	0		T	114379236	T	T	114379236	3	4	4	1	0	0	0	0	1	0	0	0	7384	768	27	1	818	1	HS3ST5	6	114379236	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	51	114379236	56735831	1631	3597											
TSPYL4	23270	broad.mit.edu	37	chr6	116574209	116574209	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtggaaagagacaccacccgGccagaggatctgcgttcata	12	6	12	11	2	2	2	1	0	1	2	2	5	2	4	3	3	1	1	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:116574209G>A	uc003pwn.2	-	1	1053	c.963C>T	c.(961-963)GGC>GGT	p.G321G	DSE_uc011ebf.1_5'Flank|TSPYL4_uc011ebe.1_Silent_p.G149G|uc003pwo.1_5'Flank	NM_021648	NP_067680	Q9UJ04	TSYL4_HUMAN	TSPY-like 4	321					nucleosome assembly	nucleus					0		all_cancers(87;0.0144)|all_epithelial(87;0.021)|Colorectal(196;0.234)		all cancers(137;0.045)|OV - Ovarian serous cystadenocarcinoma(136;0.0666)|GBM - Glioblastoma multiforme(226;0.095)|Epithelial(106;0.125)		ACACCACCCGGCCAGAGGATC	0.537													8	56					0	0	0.004482	0	0		A	116574209	A	A	116574209	2	1	4	1	0	0	0	0	0	0	0	1	16687	1190	42	2		2	TSPYL4	6	116574209	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2194973	116574209	54540858	1632	3598											
DSE	29940	broad.mit.edu	37	chr6	116757490	116757490	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctataaaatgtactggatggAcgatactggctacagcgaga	14	9	11	7	2	0	1	0	0	0	1	0	5	0	3	0	3	4	2	0	3	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:116757490A>G	uc003pws.2	+	6	2053	c.1859A>G	c.(1858-1860)GAC>GGC	p.D620G	DSE_uc011ebg.1_Missense_Mutation_p.D639G|DSE_uc003pwt.2_Missense_Mutation_p.D620G|DSE_uc003pwu.2_Missense_Mutation_p.D287G	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	620					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		TACTGGATGGACGATACTGGC	0.473													13	67					0	0	0.007413	0	0		G	116757490	G	G	116757490	3	3	4	1	0	0	0	0	1	0	0	0	4780	275	10	3	1877	3	DSE	6	116757490	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	183281	116757490	54357577	1633	3599											
RFX6	222546	broad.mit.edu	37	chr6	117246695	117246695	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagggagcatggtttccagCgacgctgtgaagaatgaaag	14	7	14	6	2	0	3	0	2	0	1	1	5	1	4	1	2	2	3	1	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:117246695C>T	uc003pxm.2	+	16	1821	c.1758C>T	c.(1756-1758)AGC>AGT	p.S586S		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	586					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TGGTTTCCAGCGACGCTGTGA	0.512													6	138					0	0	0.001168	0	0		T	117246695	T	T	117246695	2	4	4	1	0	0	0	0	0	0	0	1	13292	767	27	1		1	RFX6	6	117246695	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	489205	117246695	53868372	1634	3600											
SLC35F1	222553	broad.mit.edu	37	chr6	118475668	118475668	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttatttgtggaattggCttgactagcaagtatctgtc	8	16	9	8	0	1	1	0	1	1	0	3	2	2	2	1	2	1	3	1	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:118475668C>A	uc003pxx.3	+	2	435	c.234C>A	c.(232-234)GGC>GGA	p.G78G		NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	78	Helical; (Potential).				transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		GTGGAATTGGCTTGACTAGCA	0.438													36	101					5.59293e-11	6.02822e-11	0.006999	1	0		A	118475668	A	A	118475668	2	1	4	1	0	0	0	0	0	0	0	1	14613	784	28	5		5	SLC35F1	6	118475668	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1228973	118475668	52639399	1635	3601											
SLC35F1	222553	broad.mit.edu	37	chr6	118606424	118606424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcataaagaaaaccagtGccacttcagtcaacctctcc	13	9	5	14	1	4	1	3	0	1	1	6	1	4	1	4	0	3	0	4	0	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:118606424G>A	uc003pxx.3	+	7	1126	c.925G>A	c.(925-927)GCC>ACC	p.A309T	SLC35F1_uc003pxy.1_Missense_Mutation_p.A114T	NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	309					transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		GAAAACCAGTGCCACTTCAGT	0.473											OREG0017635	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	342					0	0	0.008871	0	0		A	118606424	A	A	118606424	3	1	4	1	0	0	0	0	1	0	0	0	14613	1319	46	2	951	2	SLC35F1	6	118606424	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	130756	118606424	52508643	1636	3602											
C6orf204	387119	broad.mit.edu	37	chr6	118790423	118790423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagattggtcaggttcctggCcctgatccaataaagagcat	11	11	10	9	0	1	3	1	1	0	2	3	3	3	3	3	3	1	2	3	3	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:118790423C>T	uc003pxz.1	-	12	2654	c.2066G>A	c.(2065-2067)GGC>GAC	p.G689D		NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	689						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		AGGTTCCTGGCCCTGATCCAA	0.413													22	145					0	0	0.010504	0	0		T	118790423	T	T	118790423	3	4	4	1	0	0	0	0	1	0	0	0	2356	739	26	2	359	2	C6orf204	6	118790423	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	183999	118790423	52324644	1637	3603											
C6orf204	387119	broad.mit.edu	37	chr6	118801652	118801652	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggcggattccatcttcaagGcatctttctactttttgttg	7	17	8	9	1	4	0	1	0	3	0	5	1	5	1	1	3	1	2	1	3	2	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:118801652G>A	uc003pxz.1	-	9	2358	c.1770C>T	c.(1768-1770)TGC>TGT	p.C590C		NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	590	Potential.					centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		CATCTTCAAGGCATCTTTCTA	0.323													15	111					0	0	0.004007	0	0		A	118801652	A	A	118801652	2	1	4	1	0	0	0	0	0	0	0	1	2356	1195	42	2		2	C6orf204	6	118801652	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11229	118801652	52313415	1638	3604											
MCM9	254394	broad.mit.edu	37	chr6	119238739	119238739	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaaacctgcaaagggatcGctcttatagtattcccaaaa	15	9	6	11	1	1	0	0	0	1	0	3	1	2	1	2	1	2	3	2	1	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:119238739G>A	uc003pyh.2	-	5	1154	c.891C>T	c.(889-891)AGC>AGT	p.S297S		NM_153255	NP_694987	Q9NXL9	MCM9_HUMAN	minichromosome maintenance complex component 9	297					DNA replication		ATP binding|DNA binding|nucleoside-triphosphatase activity			ovary(1)	1		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0676)|OV - Ovarian serous cystadenocarcinoma(136;0.194)		CAAAGGGATCGCTCTTATAGT	0.353													19	90					0	0	0.001882	0	0		A	119238739	A	A	119238739	2	1	4	1	0	0	0	0	0	0	0	1	9412	1078	38	1		1	MCM9	6	119238739	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	437087	119238739	51876328	1639	3605											
GJA1	2697	broad.mit.edu	37	chr6	121768421	121768421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtacggtattgaagagcatgGtaaggtgaaaatgcgagggg	13	8	17	3	2	0	3	0	2	0	1	0	4	0	3	0	5	3	4	0	5	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:121768421G>A	uc003pyr.2	+	2	678	c.428G>A	c.(427-429)GGT>GAT	p.G143D	GJA1_uc011ebo.1_Missense_Mutation_p.G44D|GJA1_uc011ebp.1_Intron	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	143	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	GAAGAGCATGGTAAGGTGAAA	0.458													10	135					0	0	0.000978	0	0		A	121768421	A	A	121768421	3	1	4	1	0	0	0	0	1	0	0	0	6415	1261	44	4	430	4	GJA1	6	121768421	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2529682	121768421	49346646	1640	3606											
FABP7	2173	broad.mit.edu	37	chr6	123104893	123104893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgatgtggttgctgttcGccactatgagaaggcataaa	10	12	13	6	1	0	2	0	2	0	1	1	3	0	2	1	3	1	4	1	3	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:123104893G>A	uc003pzf.2	+	4	674	c.380G>A	c.(379-381)CGC>CAC	p.R127H	FABP7_uc003pze.1_3'UTR	NM_001446	NP_001437	O15540	FABP7_HUMAN	fatty acid binding protein 7, brain	127	Fatty acid binding.				negative regulation of cell proliferation	cytoplasm	lipid binding|transporter activity				0				GBM - Glioblastoma multiforme(226;0.226)	Alpha-Linolenic Acid(DB00132)|gamma-Homolinolenic acid(DB00154)|Icosapent(DB00159)	GTTGCTGTTCGCCACTATGAG	0.403													5	77					0	0	0.001168	0	0		A	123104893	A	A	123104893	3	1	4	1	0	0	0	0	1	0	0	0	5373	1087	38	1	394	1	FABP7	6	123104893	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1336472	123104893	48010174	1641	3607											
RNF217	154214	broad.mit.edu	37	chr6	125379190	125379190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaaaggagacaaattgttgCgtcactgggccagcgaaatt	15	8	11	7	2	1	1	1	0	0	1	1	3	1	1	1	2	2	1	1	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:125379190C>T	uc003pzs.2	+	5	681	c.343C>T	c.(343-345)CGT>TGT	p.R115C	RNF217_uc003pzr.2_Missense_Mutation_p.R172C|RNF217_uc003pzt.2_RNA	NM_152553	NP_689766	Q8TC41	RN217_HUMAN	ring finger protein 217	115					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)		CAAATTGTTGCGTCACTGGGC	0.463													11	61					0	0	0.001368	0	0		T	125379190	T	T	125379190	3	4	4	1	0	0	0	0	1	0	0	0	13506	768	27	1	353	1	RNF217	6	125379190	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2274297	125379190	45735877	1642	3608											
TPD52L1	7164	broad.mit.edu	37	chr6	125550412	125550412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacatgcagactaccactgCgtaagtatcatatgaacagt	14	10	8	9	1	1	3	1	2	0	1	1	3	1	3	1	0	4	3	1	0	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:125550412C>T	uc003pzu.1	+	3	503	c.284C>T	c.(283-285)GCC>GTC	p.A95V	TPD52L1_uc003pzv.1_Missense_Mutation_p.A95V|TPD52L1_uc003pzw.1_Missense_Mutation_p.A95V|TPD52L1_uc003pzx.1_Missense_Mutation_p.A66V|TPD52L1_uc003pzy.1_Missense_Mutation_p.A66V|TPD52L1_uc003pzz.1_Missense_Mutation_p.A66V	NM_003287	NP_003278	Q16890	TPD53_HUMAN	tumor protein D52-like 1 isoform 1	95					DNA fragmentation involved in apoptotic nuclear change|G2/M transition of mitotic cell cycle|induction of apoptosis|positive regulation of JNK cascade|positive regulation of MAP kinase activity	perinuclear region of cytoplasm	caspase activator activity|protein heterodimerization activity|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0265)		ACTACCACTGCGTAAGTATCA	0.388													9	81					0	0	0.008291	0	0		T	125550412	T	T	125550412	3	4	4	1	0	0	0	0	1	0	0	0	16424	782	27	1	294	1	TPD52L1	6	125550412	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	171222	125550412	45564655	1643	3609											
HEY2	23493	broad.mit.edu	37	chr6	126080924	126080924	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aataaaccttaccgaccctgGgggacagaagttggagcttt	12	9	11	9	1	0	1	0	0	0	1	0	4	0	3	3	3	3	2	3	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:126080924G>T	uc003qad.2	+	5	1181	c.990G>T	c.(988-990)TGG>TGT	p.W330C	HEY2_uc011ebr.1_Missense_Mutation_p.W284C	NM_012259	NP_036391	Q9UBP5	HEY2_HUMAN	hairy/enhancer-of-split related with YRPW motif	330	YRPW motif.				negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription initiation from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|Notch signaling pathway|smooth muscle cell differentiation|transcription, DNA-dependent	transcriptional repressor complex	histone deacetylase binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0608)|GBM - Glioblastoma multiforme(226;0.0361)|all cancers(137;0.193)		ACCGACCCTGGGGGACAGAAG	0.493													30	47					2.61193e-14	2.83925e-14	0.009535	1	0		T	126080924	T	T	126080924	3	4	4	1	0	0	0	0	1	0	0	0	7095	1241	43	5	1008	5	HEY2	6	126080924	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	530512	126080924	45034143	1644	3610											
C6orf174	387104	broad.mit.edu	37	chr6	127796499	127796499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacttgggcacctcgaggCggtcgatgaaggtctgcagc	8	7	15	11	3	1	2	0	1	1	1	3	4	1	2	1	4	2	2	1	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:127796499C>T	uc003qbd.2	-	6	3537	c.2672G>A	c.(2671-2673)CGC>CAC	p.R891H	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	891						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CACCTCGAGGCGGTCGATGAA	0.652													8	25					0	0	0.00308	0	0		T	127796499	T	T	127796499	3	4	4	1	0	0	0	0	1	0	0	0	2348	768	27	1	179	1	C6orf174	6	127796499	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1715575	127796499	43318568	1645	3611											
C6orf174	387104	broad.mit.edu	37	chr6	127796980	127796980	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtagcgctgcatgttggAcataagcacgcggttctcgt	7	11	13	10	5	1	0	0	0	1	0	3	1	1	1	0	2	3	6	0	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:127796980A>G	uc003qbd.2	-	6	3056	c.2191T>C	c.(2191-2193)TCC>CCC	p.S731P	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	731						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		TGCATGTTGGACATAAGCACG	0.672													9	43					0	0	0.008291	0	0		G	127796980	G	G	127796980	3	3	4	1	0	0	0	0	1	0	0	0	2348	275	10	3	660	3	C6orf174	6	127796980	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	481	127796980	43318087	1646	3612											
C6orf174	387104	broad.mit.edu	37	chr6	127797299	127797299	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgagccgttgaagtcatcGcccctaaggtcgtccagttc	7	9	11	14	4	1	1	1	1	0	0	5	2	2	1	5	1	1	2	5	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:127797299G>A	uc003qbd.2	-	6	2737	c.1872C>T	c.(1870-1872)GGC>GGT	p.G624G	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	624	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		TGAAGTCATCGCCCCTAAGGT	0.607													31	77					0	0	0.002852	0	0		A	127797299	A	A	127797299	2	1	4	1	0	0	0	0	0	0	0	1	2348	1074	38	1		1	C6orf174	6	127797299	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	319	127797299	43317768	1647	3613											
C6orf58	352999	broad.mit.edu	37	chr6	127911356	127911356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ataagttccagaagggcatgCcaccacgaattcttcttaat	13	11	7	10	1	2	1	0	0	2	1	3	2	3	1	3	1	1	2	3	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:127911356C>T	uc003qbh.2	+	5	811	c.799C>T	c.(799-801)CCA>TCA	p.P267S		NM_001010905	NP_001010905	Q6P5S2	CF058_HUMAN	hypothetical protein LOC352999 precursor	267						extracellular region					0				GBM - Glioblastoma multiforme(226;0.0405)|all cancers(137;0.156)		GAAGGGCATGCCACCACGAAT	0.413													44	147					0	0	0.009718	0	0		T	127911356	T	T	127911356	3	4	4	1	0	0	0	0	1	0	0	0	2370	739	26	2	817	2	C6orf58	6	127911356	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	114057	127911356	43203711	1648	3614											
THEMIS	387357	broad.mit.edu	37	chr6	128134766	128134766	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggtcgccgcttgaacttGcctttatagctagtggggat	6	13	12	10	3	0	1	0	1	0	0	2	2	0	2	2	3	3	2	2	3	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:128134766G>A	uc003qbi.2	-	5	1339	c.1020C>T	c.(1018-1020)GGC>GGT	p.G340G	THEMIS_uc010kfa.2_Silent_p.G243G|THEMIS_uc011ebt.1_Silent_p.G340G|THEMIS_uc010kfb.2_Silent_p.G305G	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	340	CABIT 2.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						GCTTGAACTTGCCTTTATAGC	0.463													14	94					0	0	0.001855	0	0		A	128134766	A	A	128134766	2	1	4	1	0	0	0	0	0	0	0	1	15885	1306	46	2		2	THEMIS	6	128134766	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	223410	128134766	42980301	1649	3615											
PTPRK	5796	broad.mit.edu	37	chr6	128505866	128505866	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagcaatgggtcttggCggttctaggagagatgagtg	9	9	19	4	1	2	2	0	1	2	1	2	6	2	5	0	6	1	2	0	6	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:128505866C>T	uc003qbk.2	-	7	1240	c.873G>A	c.(871-873)CCG>CCA	p.P291P	PTPRK_uc003qbj.2_Silent_p.P291P|PTPRK_uc010kfc.2_Silent_p.P291P|PTPRK_uc011ebu.1_Silent_p.P291P|PTPRK_uc003qbl.1_Silent_p.P161P|PTPRK_uc011ebv.1_Silent_p.P291P	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	291	Fibronectin type-III 1.|Extracellular (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		TGGGTCTTGGCGGTTCTAGGA	0.398													6	71					0	0	0.001984	0	0		T	128505866	T	T	128505866	2	4	4	1	0	0	0	0	0	0	0	1	12830	755	27	1		1	PTPRK	6	128505866	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	371100	128505866	42609201	1650	3616											
LAMA2	3908	broad.mit.edu	37	chr6	129775324	129775324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actttctggctatagaaatgCgtaaaggcaaagtcagcttc	13	11	9	8	1	2	1	1	0	1	1	3	1	2	1	0	2	2	4	0	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:129775324C>T	uc003qbn.2	+	46	6703	c.6598C>T	c.(6598-6600)CGT>TGT	p.R2200C	LAMA2_uc003qbo.2_Missense_Mutation_p.R2200C	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2200	Laminin G-like 1.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TATAGAAATGCGTAAAGGCAA	0.398													5	100					0	0	0.001168	0	0		T	129775324	T	T	129775324	3	4	4	1	0	0	0	0	1	0	0	0	8622	768	27	1	6784	1	LAMA2	6	129775324	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1269458	129775324	41339743	1651	3617											
L3MBTL3	84456	broad.mit.edu	37	chr6	130372535	130372535	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctattgcagccagaattgtgCtcggcacatcaaagataagt	13	10	9	9	1	1	2	1	0	0	2	2	2	1	2	1	1	3	3	1	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:130372535C>A	uc003qbt.2	+	6	601	c.431C>A	c.(430-432)GCT>GAT	p.A144D	L3MBTL3_uc003qbu.2_Missense_Mutation_p.A119D	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	144					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		CAGAATTGTGCTCGGCACATC	0.408													6	125					8.12818e-05	8.5301e-05	0.001984	1	0		A	130372535	A	A	130372535	3	1	4	1	0	0	0	0	1	0	0	0	8609	797	28	5	445	5	L3MBTL3	6	130372535	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	597211	130372535	40742532	1652	3618											
SAMD3	154075	broad.mit.edu	37	chr6	130465849	130465849	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggctgtaacacagtcgTccacctttgtgagcctctcc	8	10	8	15	1	1	1	0	1	1	0	4	1	2	1	5	1	2	2	5	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:130465849T>C	uc003qbv.2	-	13	1705	c.1379A>G	c.(1378-1380)GAC>GGC	p.D460G	SAMD3_uc003qbx.2_Missense_Mutation_p.D460G|SAMD3_uc003qbw.2_Missense_Mutation_p.D460G	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	460										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		AACACAGTCGTCCACCTTTGT	0.443													17	66					0	0	0.001882	0	0		C	130465849	C	C	130465849	3	2	4	1	0	0	0	0	1	0	0	0	13845	1667	58	3	187	3	SAMD3	6	130465849	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	93314	130465849	40649218	1653	3619											
TAAR6	319100	broad.mit.edu	37	chr6	132891588	132891588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagtgtttggctttggggCtgtgctggctgtgtttggaa	4	16	16	5	0	0	0	0	0	0	0	0	1	0	1	0	5	1	6	0	5	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:132891588C>T	uc011eck.1	+	1	128	c.128C>T	c.(127-129)GCT>GTT	p.A43V		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	43	Helical; Name=1; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		GGCTTTGGGGCTGTGCTGGCT	0.537													18	62					0	0	0.007413	0	0		T	132891588	T	T	132891588	3	4	4	1	0	0	0	0	1	0	0	0	15517	797	28	2	130	2	TAAR6	6	132891588	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2425739	132891588	38223479	1654	3620											
TAAR5	9038	broad.mit.edu	37	chr6	132910431	132910431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcacagatggcacagtggCggtcaatggaaatgaaacag	14	6	14	7	1	2	2	2	1	0	1	2	3	2	3	0	5	1	1	0	5	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:132910431C>T	uc003qdk.2	-	1	447	c.395G>A	c.(394-396)CGC>CAC	p.R132H		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	132	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		GGCACAGTGGCGGTCAATGGA	0.582													16	44					0	0	0.006122	0	0		T	132910431	T	T	132910431	3	4	4	1	0	0	0	0	1	0	0	0	15516	768	27	1	622	1	TAAR5	6	132910431	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	18843	132910431	38204636	1655	3621											
TAAR5	9038	broad.mit.edu	37	chr6	132910625	132910625	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcaggaagttggtgggCgtgtgaagcgctttgaagta	10	9	17	5	2	0	2	0	2	0	0	0	3	0	3	0	3	3	5	0	3	4	3	rs145737701		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:132910625C>T	uc003qdk.2	-	1	253	c.201G>A	c.(199-201)ACG>ACA	p.T67T		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	67	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		AGTTGGTGGGCGTGTGAAGCG	0.557													26	94					0	0	0.007291	0	0		T	132910625	T	T	132910625	2	4	4	1	0	0	0	0	0	0	0	1	15516	755	27	1		1	TAAR5	6	132910625	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	194	132910625	38204442	1656	3622											
EYA4	2070	broad.mit.edu	37	chr6	133789774	133789774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcagcatcaacgtatggagCgtatatgacatcgaataaca	15	10	8	8	3	2	1	2	1	0	0	3	3	2	2	0	1	4	3	0	1	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:133789774C>T	uc003qec.3	+	11	1333	c.875C>T	c.(874-876)GCG>GTG	p.A292V	EYA4_uc011ecq.1_Missense_Mutation_p.A238V|EYA4_uc011ecr.1_Missense_Mutation_p.A238V|EYA4_uc003qed.3_Missense_Mutation_p.A292V|EYA4_uc003qee.3_Missense_Mutation_p.A269V|EYA4_uc011ecs.1_Missense_Mutation_p.A292V|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	292					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		ACGTATGGAGCGTATATGACA	0.433													21	87					0	0	0.00278	0	0		T	133789774	T	T	133789774	3	4	4	1	0	0	0	0	1	0	0	0	5339	768	27	1	913	1	EYA4	6	133789774	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	879149	133789774	37325293	1657	3623											
SLC2A12	154091	broad.mit.edu	37	chr6	134350436	134350436	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagaaagaatgccgatgAcaatcatcagctcattcagt	15	8	9	9	1	4	3	4	1	0	2	4	4	4	3	1	1	2	2	1	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:134350436A>G	uc003qem.1	-	2	698	c.527T>C	c.(526-528)GTC>GCC	p.V176A		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	176	Helical; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		AATGCCGATGACAATCATCAG	0.438													12	87					0	0	0.001855	0	0		G	134350436	G	G	134350436	3	3	4	1	0	0	0	0	1	0	0	0	14566	275	10	3	1342	3	SLC2A12	6	134350436	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	560662	134350436	36764631	1658	3624											
ALDH8A1	64577	broad.mit.edu	37	chr6	135271176	135271176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttttccagcatcaaaagtgCgtttgttccagccatagcaa	11	12	8	10	1	1	0	1	0	0	0	3	0	3	0	3	0	4	5	3	0	4	5	rs150345681	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:135271176C>T	uc003qew.2	-	1	69	c.16G>A	c.(16-18)GCA>ACA	p.A6T	ALDH8A1_uc003qex.2_Missense_Mutation_p.A6T|ALDH8A1_uc010kgh.2_5'UTR|ALDH8A1_uc011ecx.1_Missense_Mutation_p.A6T	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	6					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		ATCAAAAGTGCGTTTGTTCCA	0.448													10	56					0	0	0.006214	0	0		T	135271176	T	T	135271176	3	4	4	1	0	0	0	0	1	0	0	0	505	768	27	1	1475	1	ALDH8A1	6	135271176	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	920740	135271176	35843891	1659	3625											
BCLAF1	9774	broad.mit.edu	37	chr6	136597397	136597397	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggtgagatgcagtagcaaaActtttaccctgatctgcgag	11	10	11	9	2	1	2	0	2	1	1	1	4	1	2	1	1	5	3	1	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:136597397A>T	uc003qgx.1	-	5	1519	c.1266T>A	c.(1264-1266)AGT>AGA	p.S422R	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Missense_Mutation_p.S420R|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.S420R	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	422					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CAGTAGCAAAACTTTTACCCT	0.423													34	256					0	0	0.003271	0	0		T	136597397	T	T	136597397	3	4	4	1	0	0	0	0	1	0	0	0	1384	40	2	5	1532	5	BCLAF1	6	136597397	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1326221	136597397	34517670	1660	3626											
PEX7	5191	broad.mit.edu	37	chr6	137187847	137187847	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcaggcagaaatcttgagTtgtgactggtgtaaatacaa	14	11	10	6	0	2	3	1	2	1	1	2	3	2	3	0	2	1	3	0	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:137187847T>C	uc003qhd.2	+	6	711	c.609T>C	c.(607-609)AGT>AGC	p.S203S	PEX7_uc010kgx.2_RNA	NM_000288	NP_000279	O00628	PEX7_HUMAN	peroxisomal biogenesis factor 7	203	WD 4.				ether lipid biosynthetic process|protein import into peroxisome matrix	peroxisome	peroxisome matrix targeting signal-2 binding				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000257)|OV - Ovarian serous cystadenocarcinoma(155;0.00492)		AAATCTTGAGTTGTGACTGGT	0.388													4	52					0	0	0.000602	0	0		C	137187847	C	C	137187847	2	2	4	1	0	0	0	0	0	0	0	1	11770	1722	60	3		3	PEX7	6	137187847	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	590450	137187847	33927220	1661	3627											
IL20RA	53832	broad.mit.edu	37	chr6	137322948	137322948	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgatggctcttcctccggcCcctcctccgagtctgtgtgc	2	12	10	17	3	2	0	0	0	2	0	7	2	6	0	6	2	1	1	6	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:137322948C>A	uc003qhj.2	-	7	1842	c.1409G>T	c.(1408-1410)GGG>GTG	p.G470V	IL20RA_uc011edl.1_Missense_Mutation_p.G421V|IL20RA_uc003qhk.2_Missense_Mutation_p.G359V|IL20RA_uc003qhi.2_Missense_Mutation_p.G202V	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	470	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)		TTCCTCCGGCCCCTCCTCCGA	0.607													18	55					1.96292e-10	2.11133e-10	0.010504	1	0		A	137322948	A	A	137322948	3	1	4	1	0	0	0	0	1	0	0	0	7684	623	22	5	256	5	IL20RA	6	137322948	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	135101	137322948	33792119	1662	3628											
KIAA1244	57221	broad.mit.edu	37	chr6	138655785	138655785	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcctcccatcttcaagggCgacccgttcttcatcctgcc	6	10	8	17	2	4	0	2	0	2	0	6	2	6	0	5	1	2	1	5	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:138655785C>T	uc003qhu.2	+	33	5802	c.5802C>T	c.(5800-5802)GGC>GGT	p.G1934G		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1934					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		TCTTCAAGGGCGACCCGTTCT	0.562													7	48					0	0	0.00308	0	0		T	138655785	T	T	138655785	2	4	4	1	0	0	0	0	0	0	0	1	8233	755	27	1		1	KIAA1244	6	138655785	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1332837	138655785	32459282	1663	3629											
REPS1	85021	broad.mit.edu	37	chr6	139234053	139234053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtgagttatgaggccatcgGcatccactgggcgatgcaca	9	9	13	10	2	0	2	0	2	0	0	2	3	1	2	2	3	1	3	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:139234053G>A	uc003qii.2	-	16	2399	c.1820C>T	c.(1819-1821)GCC>GTC	p.A607V	REPS1_uc003qig.3_Missense_Mutation_p.A580V|REPS1_uc011edr.1_Missense_Mutation_p.A606V|REPS1_uc003qij.2_Missense_Mutation_p.A516V|REPS1_uc003qik.2_Missense_Mutation_p.A213V	NM_031922	NP_114128	Q96D71	REPS1_HUMAN	RALBP1 associated Eps domain containing 1	607						coated pit|plasma membrane	calcium ion binding|SH3 domain binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(68;0.000434)|OV - Ovarian serous cystadenocarcinoma(155;0.000548)		GAGGCCATCGGCATCCACTGG	0.468													8	25					0	0	0.004482	0	0		A	139234053	A	A	139234053	3	1	4	1	0	0	0	0	1	0	0	0	13253	1203	42	2	590	2	REPS1	6	139234053	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	578268	139234053	31881014	1664	3630											
HECA	51696	broad.mit.edu	37	chr6	139495646	139495646	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggcactatgtacacctaCgacatcctggctgcctctcc	7	10	8	16	1	1	0	0	0	1	0	3	1	2	0	4	2	3	3	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:139495646C>T	uc003qin.2	+	3	1722	c.1437C>T	c.(1435-1437)TAC>TAT	p.Y479Y		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	479					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		TGTACACCTACGACATCCTGG	0.537													12	49					0	0	0.001855	0	0		T	139495646	T	T	139495646	2	4	4	1	0	0	0	0	0	0	0	1	7054	547	19	1		1	HECA	6	139495646	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	261593	139495646	31619421	1665	3631											
TXLNB	167838	broad.mit.edu	37	chr6	139563913	139563913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctctggcttccaggacGcctgatcagcctgtgctcca	5	10	10	16	1	2	1	1	1	1	0	4	2	4	2	5	2	3	2	5	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:139563913G>A	uc011eds.1	-	10	1970	c.1805C>T	c.(1804-1806)GCG>GTG	p.A602V		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	602						cytoplasm		p.A602A(1)		large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		CTTCCAGGACGCCTGATCAGC	0.612													11	57					0	0	0.001368	0	0		A	139563913	A	A	139563913	3	1	4	1	0	0	0	0	1	0	0	0	16814	1087	38	1	253	1	TXLNB	6	139563913	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	68267	139563913	31551154	1666	3632											
TXLNB	167838	broad.mit.edu	37	chr6	139564109	139564109	+	Missense_Mutation	SNP	C	T	T																															ttgctctggctccttgagagCggcgtcagcactctcctgag																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:139564109C>T	uc011eds.1	-	10	1774	c.1609G>A	c.(1609-1611)GCT>ACT	p.A537T		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	537						cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		TCCTTGAGAGCGGCGTCAGCA	0.567													5	83					0	0	0.001168	0	0		T	139564109	T	T	139564109	3	4	4	1	0	0	0	0	1	0	0	0	16814	768	27	1	449	1	TXLNB	6	139564109	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	196	139564109	31550958	1667	3633	6	2									
TXLNB	167838	broad.mit.edu	37	chr6	139564112	139564112	+	Missense_Mutation	SNP	C	T	T																															ctctggctccttgagagcggCgtcagcactctcctgagaac																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:139564112C>T	uc011eds.1	-	10	1771	c.1606G>A	c.(1606-1608)GCC>ACC	p.A536T		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	536						cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		TTGAGAGCGGCGTCAGCACTC	0.567													7	92					0	0	0.00308	0	0		T	139564112	T	T	139564112	3	4	4	1	0	0	0	0	1	0	0	0	16814	768	27	1	452	1	TXLNB	6	139564112	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3	139564112	31550955	1668	3634	6	2									
VTA1	51534	broad.mit.edu	37	chr6	142539701	142539701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcaaatatgctggcagtgCtttgcagtatgaagatgtaa	12	12	11	6	0	0	2	0	1	0	1	0	2	0	2	0	1	4	7	0	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:142539701C>T	uc003qiw.2	+	8	860	c.845C>T	c.(844-846)GCT>GTT	p.A282V	VTA1_uc011edt.1_RNA|VTA1_uc011edu.1_Missense_Mutation_p.A197V	NM_016485	NP_057569	Q9NP79	VTA1_HUMAN	Vps20-associated 1 homolog	282	Interaction with VPS4B (By similarity).				cellular membrane organization|endosome transport|protein transport	cytosol|endosome membrane	protein binding				0	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;1.34e-05)|GBM - Glioblastoma multiforme(68;0.00182)		GCTGGCAGTGCTTTGCAGTAT	0.428													5	100					0	0	0.000602	0	0		T	142539701	T	T	142539701	3	4	4	1	0	0	0	0	1	0	0	0	17259	797	28	2	875	2	VTA1	6	142539701	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2975589	142539701	28575366	1669	3635											
VTA1	51534	broad.mit.edu	37	chr6	142539749	142539749	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccagaatctacaaaaggCtctcaagttactgacgacag	14	9	8	10	1	2	2	1	1	2	1	4	3	3	2	1	1	2	2	1	1	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:142539749C>T	uc003qiw.2	+	8	908	c.893C>T	c.(892-894)GCT>GTT	p.A298V	VTA1_uc011edt.1_RNA|VTA1_uc011edu.1_Missense_Mutation_p.A213V	NM_016485	NP_057569	Q9NP79	VTA1_HUMAN	Vps20-associated 1 homolog	298	Interaction with VPS4B (By similarity).				cellular membrane organization|endosome transport|protein transport	cytosol|endosome membrane	protein binding				0	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;1.34e-05)|GBM - Glioblastoma multiforme(68;0.00182)		CTACAAAAGGCTCTCAAGTTA	0.443													6	86					0	0	0.00308	0	0		T	142539749	T	T	142539749	3	4	4	1	0	0	0	0	1	0	0	0	17259	797	28	2	923	2	VTA1	6	142539749	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	48	142539749	28575318	1670	3636											
GPR126	57211	broad.mit.edu	37	chr6	142758632	142758632	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcagaaacagtggcggcaGcatctctgctgtggtagatt	9	11	13	8	1	2	2	1	0	1	2	3	2	2	2	0	3	3	5	0	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:142758632G>A	uc010khc.2	+	23	3792	c.3381G>A	c.(3379-3381)CGG>CGA	p.R1127R	GPR126_uc010khd.2_Silent_p.R1099R|GPR126_uc010khe.2_Silent_p.R1127R|GPR126_uc010khf.2_Silent_p.R1099R|GPR126_uc011edv.1_Silent_p.Q187Q	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	1127	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		AGTGGCGGCAGCATCTCTGCT	0.363													5	60					0	0	0.000602	0	0		A	142758632	A	A	142758632	2	1	4	1	0	0	0	0	0	0	0	1	6655	962	34	2		2	GPR126	6	142758632	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	218883	142758632	28356435	1671	3637											
HIVEP2	3097	broad.mit.edu	37	chr6	143092794	143092794	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctctgatgagcagcgtcGcatctctttctggtggtgat	5	14	12	10	2	3	3	0	3	3	0	5	3	3	3	0	2	3	3	0	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:143092794G>A	uc003qjd.2	-	5	3825	c.3082C>T	c.(3082-3084)CGA>TGA	p.R1028*		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1028					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GAGCAGCGTCGCATCTCTTTC	0.507													8	78					0	0	0.004482	0	0		A	143092794	A	A	143092794	4	1	4	1	0	0	0	0	0	1	0	0	7203	1095	38	1	4282	1	HIVEP2	6	143092794	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	334162	143092794	28022273	1672	3638											
HIVEP2	3097	broad.mit.edu	37	chr6	143093770	143093770	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtcctcttcatcccctacGctcttctctttccggcgttt	2	17	6	16	3	4	0	1	0	3	0	8	0	7	0	4	1	1	2	4	1	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:143093770G>A	uc003qjd.2	-	5	2849	c.2106C>T	c.(2104-2106)AGC>AGT	p.S702S		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	702					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CATCCCCTACGCTCTTCTCTT	0.512													7	177					0	0	0.006214	0	0		A	143093770	A	A	143093770	2	1	4	1	0	0	0	0	0	0	0	1	7203	1078	38	1		1	HIVEP2	6	143093770	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	976	143093770	28021297	1673	3639											
AIG1	51390	broad.mit.edu	37	chr6	143382137	143382137	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctatcctgtgtaactacaaGgccatcgaaatgccctcaca	12	10	6	13	1	2	0	1	0	1	0	4	1	3	0	3	1	3	1	3	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:143382137G>T	uc003qjh.2	+	1	115	c.75G>T	c.(73-75)AAG>AAT	p.K25N	AIG1_uc003qjf.2_Missense_Mutation_p.K15N|AIG1_uc003qji.2_Missense_Mutation_p.K15N|AIG1_uc011edw.1_Missense_Mutation_p.K25N|AIG1_uc003qjg.2_Missense_Mutation_p.K25N	NM_016108	NP_057192	Q9NVV5	AIG1_HUMAN	androgen-induced 1	25						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(155;2.34e-05)|GBM - Glioblastoma multiforme(68;0.0246)		GTAACTACAAGGCCATCGAAA	0.602													19	63					7.92952e-12	8.56966e-12	0.003954	1	0		T	143382137	T	T	143382137	3	4	4	1	0	0	0	0	1	0	0	0	429	991	35	5	77	5	AIG1	6	143382137	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	288367	143382137	27732930	1674	3640											
UTRN	7402	broad.mit.edu	37	chr6	144613000	144613000	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatgaagccagtcctgaCaatgggcagaacgaattcag	15	6	11	9	1	1	3	1	2	0	1	2	5	2	3	2	1	3	1	2	1	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:144613000C>T	uc003qkt.2	+	1	128	c.36C>T	c.(34-36)GAC>GAT	p.D12D	UTRN_uc010khq.1_Silent_p.D12D	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	12	Actin-binding.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		CCAGTCCTGACAATGGGCAGA	0.388													8	67					0	0	0.00308	0	0		T	144613000	T	T	144613000	2	4	4	1	0	0	0	0	0	0	0	1	17129	477	17	4		4	UTRN	6	144613000	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1230863	144613000	26502067	1675	3641											
EPM2A	7957	broad.mit.edu	37	chr6	145948764	145948764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgttgcagtgcacgtacaCgatgtgtcccttctccagca	8	10	10	13	3	1	0	0	0	1	0	3	1	2	0	2	0	5	5	2	0	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:145948764C>T	uc003qkw.2	-	4	1141	c.784G>A	c.(784-786)GTG>ATG	p.V262M	EPM2A_uc003qkv.2_Missense_Mutation_p.V262M|EPM2A_uc010khr.2_Missense_Mutation_p.R181H|EPM2A_uc003qkx.2_Missense_Mutation_p.V124M|EPM2A_uc003qku.2_Missense_Mutation_p.V108M	NM_005670	NP_005661	O95278	EPM2A_HUMAN	laforin isoform a	262	Tyrosine-protein phosphatase.				glycogen metabolic process	cytosol|endoplasmic reticulum|nucleus|plasma membrane|polysome	carbohydrate binding|identical protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1		Ovarian(120;0.162)		OV - Ovarian serous cystadenocarcinoma(155;3.38e-07)|GBM - Glioblastoma multiforme(68;0.0203)		TGCACGTACACGATGTGTCCC	0.607													6	23					0	0	0.001168	0	0		T	145948764	T	T	145948764	3	4	4	1	0	0	0	0	1	0	0	0	5191	536	19	1	249	1	EPM2A	6	145948764	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1335764	145948764	25166303	1676	3642											
GRM1	2911	broad.mit.edu	37	chr6	146720226	146720226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaaaccaatcgtattgcacGcatcctggctggcagcaaga	13	8	9	11	2	0	1	0	0	0	1	2	1	1	1	2	2	3	6	2	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:146720226G>A	uc010khw.1	+	8	2521	c.2051G>A	c.(2050-2052)CGC>CAC	p.R684H	GRM1_uc010khv.1_Missense_Mutation_p.R684H|GRM1_uc003qll.2_Missense_Mutation_p.R684H|GRM1_uc011edz.1_Missense_Mutation_p.R684H|GRM1_uc011eea.1_Missense_Mutation_p.R684H	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	684	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity	p.R684C(1)		lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CGTATTGCACGCATCCTGGCT	0.522													32	136					0	0	0.003755	0	0		A	146720226	A	A	146720226	3	1	4	1	0	0	0	0	1	0	0	0	6812	1087	38	1	2077	1	GRM1	6	146720226	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	771462	146720226	24394841	1677	3643											
GRM1	2911	broad.mit.edu	37	chr6	146720492	146720492	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtacctactatgccttcAagacccgcaacgtgcccgcc	8	8	8	17	3	1	1	1	0	0	1	1	1	1	1	5	0	5	3	5	0	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:146720492A>G	uc010khw.1	+	8	2787	c.2317A>G	c.(2317-2319)AAG>GAG	p.K773E	GRM1_uc010khv.1_Missense_Mutation_p.K773E|GRM1_uc003qll.2_Missense_Mutation_p.K773E|GRM1_uc011edz.1_Missense_Mutation_p.K773E|GRM1_uc011eea.1_Missense_Mutation_p.K773E	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	773	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CTATGCCTTCAAGACCCGCAA	0.502													20	78					0	0	0.008871	0	0		G	146720492	G	G	146720492	3	3	4	1	0	0	0	0	1	0	0	0	6812	131	5	3	2343	3	GRM1	6	146720492	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	266	146720492	24394575	1678	3644											
SASH1	23328	broad.mit.edu	37	chr6	148808836	148808836	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttacccaacgtttgatggCtcatcaaactgcaatgtgag	11	12	8	10	1	3	2	2	2	1	0	3	2	3	2	1	1	4	3	1	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:148808836C>T	uc003qme.1	+	8	1189	c.714C>T	c.(712-714)GGC>GGT	p.G238G		NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	238							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CGTTTGATGGCTCATCAAACT	0.478													15	45					0	0	0.00245	0	0		T	148808836	T	T	148808836	2	4	4	1	0	0	0	0	0	0	0	1	13873	784	28	2		2	SASH1	6	148808836	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2088344	148808836	22306231	1679	3645											
SASH1	23328	broad.mit.edu	37	chr6	148869651	148869651	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cataagaaagctcctatctgCagccagactcttcaaactgc	13	9	6	13	0	3	2	1	0	2	2	4	2	4	2	2	0	5	2	2	0	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:148869651C>T	uc003qme.1	+	20	4176	c.3701C>T	c.(3700-3702)GCA>GTA	p.A1234V	SASH1_uc003qmf.1_Missense_Mutation_p.A644V	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	1234	SAM 2.						protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CTCCTATCTGCAGCCAGACTC	0.572													9	57					0	0	0.006214	0	0		T	148869651	T	T	148869651	3	4	4	1	0	0	0	0	1	0	0	0	13873	710	25	2	3779	2	SASH1	6	148869651	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	60815	148869651	22245416	1680	3646											
PCMT1	5110	broad.mit.edu	37	chr6	150111190	150111190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttactgcatgttttgcacGtatggtaagagttttatttc	8	18	8	7	1	0	1	0	0	0	1	1	1	0	1	1	1	3	6	1	1	4	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:150111190G>A	uc003qne.2	+	4	500	c.467G>A	c.(466-468)CGT>CAT	p.R156H	PCMT1_uc003qna.2_Missense_Mutation_p.R156H|PCMT1_uc003qnb.2_Missense_Mutation_p.R156H|PCMT1_uc011eeg.1_Missense_Mutation_p.R121H|PCMT1_uc003qnc.2_Missense_Mutation_p.R35H|PCMT1_uc003qnd.2_Intron|PCMT1_uc003qnf.2_Intron	NM_005389	NP_005380			protein-L-isoaspartate (D-aspartate)											ovary(1)	1		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.221)	OV - Ovarian serous cystadenocarcinoma(155;5.63e-13)|GBM - Glioblastoma multiforme(68;0.207)		TGTTTTGCACGTATGGTAAGA	0.363													9	87					0	0	0.006214	0	0		A	150111190	A	A	150111190	3	1	4	1	0	0	0	0	1	0	0	0	11604	1145	40	1	481	1	PCMT1	6	150111190	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1241539	150111190	21003877	1681	3647											
LRP11	84918	broad.mit.edu	37	chr6	150174287	150174287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccttgctaagtggaggcGcatccttttctgagaaagaa	11	10	11	9	1	1	2	0	1	1	2	2	4	2	3	2	2	2	2	2	2	3	4	rs150922217	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:150174287G>A	uc003qng.2	-	2	947	c.623C>T	c.(622-624)GCG>GTG	p.A208V	LRP11_uc003qnh.1_Missense_Mutation_p.A208V	NM_032832	NP_116221	Q86VZ4	LRP11_HUMAN	low density lipoprotein receptor-related protein	208	Extracellular (Potential).					integral to membrane	receptor activity				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;4.56e-12)|GBM - Glioblastoma multiforme(68;0.225)		AAGTGGAGGCGCATCCTTTTC	0.438													6	39					0	0	0.00308	0	0		A	150174287	A	A	150174287	3	1	4	1	0	0	0	0	1	0	0	0	8971	1087	38	1	903	1	LRP11	6	150174287	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	63097	150174287	20940780	1682	3648											
RAET1L	154064	broad.mit.edu	37	chr6	150342136	150342136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agatgtaatggaaggacatgGccacatccttgtcattctcc	11	11	9	10	0	2	1	1	0	1	1	4	3	3	3	3	3	0	1	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:150342136G>A	uc011eei.1	-	3	597	c.536C>T	c.(535-537)GCC>GTC	p.A179V		NM_130900	NP_570970	Q5VY80	RET1L_HUMAN	retinoic acid early transcript 1L precursor	179	MHC class I alpha-2 like (By similarity).				antigen processing and presentation|immune response	anchored to membrane|MHC class I protein complex					0		Ovarian(120;0.028)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.4e-12)		GAAGGACATGGCCACATCCTT	0.493													28	147					0	0	0.009535	0	0		A	150342136	A	A	150342136	3	1	4	1	0	0	0	0	1	0	0	0	13026	1203	42	2	211	2	RAET1L	6	150342136	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	167849	150342136	20772931	1683	3649											
PLEKHG1	57480	broad.mit.edu	37	chr6	151054969	151054969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggataaggaggtaggggCcataaaactggagctgattc	13	7	14	7	0	0	1	0	1	0	0	1	4	0	4	2	6	2	2	2	6	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:151054969C>T	uc003qny.1	+	3	464	c.152C>T	c.(151-153)GCC>GTC	p.A51V	PLEKHG1_uc011eel.1_Missense_Mutation_p.A91V|PLEKHG1_uc011eem.1_Missense_Mutation_p.A110V|PLEKHG1_uc003qnz.2_Missense_Mutation_p.A51V	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	51					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		GAGGTAGGGGCCATAAAACTG	0.572													5	50					0	0	0.001984	0	0		T	151054969	T	T	151054969	3	4	4	1	0	0	0	0	1	0	0	0	12087	739	26	2	154	2	PLEKHG1	6	151054969	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	712833	151054969	20060098	1684	3650											
PLEKHG1	57480	broad.mit.edu	37	chr6	151130348	151130348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagccaagaatgagcggacGctcttcctcttcgacaagct	10	8	10	13	4	2	2	0	1	2	1	4	5	3	3	2	1	3	2	2	1	3	2	rs147935723	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:151130348G>A	uc003qny.1	+	9	1332	c.1020G>A	c.(1018-1020)ACG>ACA	p.T340T	PLEKHG1_uc011eel.1_Silent_p.T380T|PLEKHG1_uc011eem.1_Silent_p.T399T|PLEKHG1_uc003qnz.2_Silent_p.T340T	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	340	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		ATGAGCGGACGCTCTTCCTCT	0.552													18	53					0	0	0.010504	0	0		A	151130348	A	A	151130348	2	1	4	1	0	0	0	0	0	0	0	1	12087	1074	38	1		1	PLEKHG1	6	151130348	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	75379	151130348	19984719	1685	3651											
PLEKHG1	57480	broad.mit.edu	37	chr6	151152440	151152440	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggcatccagccaaagcacGcatgaactccaagcggttga	13	5	11	12	2	0	2	0	2	0	0	2	3	2	2	3	2	4	4	3	2	3	1	rs149258837		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:151152440G>A	uc003qny.1	+	16	2505	c.2193G>A	c.(2191-2193)ACG>ACA	p.T731T	PLEKHG1_uc011eel.1_Silent_p.T771T|PLEKHG1_uc011eem.1_Silent_p.T790T|PLEKHG1_uc003qnz.2_Silent_p.T731T	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	731					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		GCCAAAGCACGCATGAACTCC	0.537													5	47					0	0	0.000602	0	0		A	151152440	A	A	151152440	2	1	4	1	0	0	0	0	0	0	0	1	12087	1074	38	1		1	PLEKHG1	6	151152440	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	22092	151152440	19962627	1686	3652											
AKAP12	9590	broad.mit.edu	37	chr6	151671215	151671215	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaggaggagcaaaagggCgagagctctgcctcatcccc	11	4	13	13	1	2	1	1	0	1	1	3	4	3	3	4	3	4	2	4	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:151671215C>T	uc011eep.1	+	4	1929	c.1689C>T	c.(1687-1689)GGC>GGT	p.G563G	AKAP12_uc003qoe.2_Silent_p.G563G|AKAP12_uc003qof.2_Silent_p.G465G|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Silent_p.G458G	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	563					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		AGCAAAAGGGCGAGAGCTCTG	0.572													10	27					0	0	0.00245	0	0		T	151671215	T	T	151671215	2	4	4	1	0	0	0	0	0	0	0	1	448	755	27	1		1	AKAP12	6	151671215	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	518775	151671215	19443852	1687	3653											
AKAP12	9590	broad.mit.edu	37	chr6	151671867	151671867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagctggaagagaaaagcGaagactccatagctgggtct	14	6	12	9	1	1	2	0	0	1	2	2	5	2	3	2	2	3	2	2	2	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:151671867G>A	uc011eep.1	+	4	2581	c.2341G>A	c.(2341-2343)GAA>AAA	p.E781K	AKAP12_uc003qoe.2_Missense_Mutation_p.E781K|AKAP12_uc003qof.2_Missense_Mutation_p.E683K|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.E676K	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	781	AKAP 2.				G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		AGAGAAAAGCGAAGACTCCAT	0.478													5	101					0	0	0.001984	0	0		A	151671867	A	A	151671867	3	1	4	1	0	0	0	0	1	0	0	0	448	1059	37	1	2380	1	AKAP12	6	151671867	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	652	151671867	19443200	1688	3654											
ZBTB2	57621	broad.mit.edu	37	chr6	151687601	151687601	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaagttctggagacagcgaGgtctgcagggggtctgaggg	9	7	18	7	1	3	2	0	1	3	1	3	4	3	2	0	5	2	2	0	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:151687601G>A	uc003qoh.2	-	3	735	c.600C>T	c.(598-600)ACC>ACT	p.T200T		NM_020861	NP_065912	Q8N680	ZBTB2_HUMAN	zinc finger and BTB domain containing 2	200					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.63e-11)		GAGACAGCGAGGTCTGCAGGG	0.597													4	51					0	0	0.000602	0	0		A	151687601	A	A	151687601	2	1	4	1	0	0	0	0	0	0	0	1	17553	987	35	4		4	ZBTB2	6	151687601	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	15734	151687601	19427466	1689	3655											
ESR1	2099	broad.mit.edu	37	chr6	152201884	152201884	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccggctccgtaaatgctaCgaagtgggaatgatgaaagg	12	8	14	7	3	0	2	0	2	0	0	1	4	1	3	2	3	3	3	2	3	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152201884C>T	uc003qom.3	+	5	1108	c.738C>T	c.(736-738)TAC>TAT	p.Y246Y	ESR1_uc010kin.2_Silent_p.Y246Y|ESR1_uc010kio.2_Silent_p.Y248Y|ESR1_uc010kip.2_Silent_p.Y246Y|ESR1_uc003qon.3_Silent_p.Y246Y|ESR1_uc003qoo.3_Silent_p.Y246Y|ESR1_uc010kiq.2_Nonsense_Mutation_p.R3*|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_RNA|ESR1_uc011eev.1_Intron|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Silent_p.Y27Y|ESR1_uc011eex.1_Silent_p.Y27Y	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	246	Nuclear receptor.|Mediates interaction with DNTTIP2.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	GTAAATGCTACGAAGTGGGAA	0.537													4	32					0	0	0.00308	0	0		T	152201884	T	T	152201884	2	4	4	1	0	0	0	0	0	0	0	1	5264	547	19	1		1	ESR1	6	152201884	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	514283	152201884	18913183	1690	3656											
SYNE1	23345	broad.mit.edu	37	chr6	152631593	152631593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctggagaagtcagtgttgCctgggcttgctccaaggcag	7	11	14	9	0	2	1	1	0	1	1	3	2	3	1	2	3	2	4	2	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152631593C>T	uc010kiw.2	-	89	17559	c.16957G>A	c.(16957-16959)GCA>ACA	p.A5653T	SYNE1_uc010kiv.2_Missense_Mutation_p.A177T|SYNE1_uc003qos.3_Missense_Mutation_p.A177T|SYNE1_uc003qot.3_Missense_Mutation_p.A5582T|SYNE1_uc003qou.3_Missense_Mutation_p.A5653T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5653	Spectrin 18.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GTCAGTGTTGCCTGGGCTTGC	0.433										HNSCC(10;0.0054)			6	73					0	0	0.001168	0	0		T	152631593	T	T	152631593	3	4	4	1	0	0	0	0	1	0	0	0	15470	739	26	2	9741	2	SYNE1	6	152631593	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	429709	152631593	18483474	1691	3657											
SYNE1	23345	broad.mit.edu	37	chr6	152631641	152631641	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttttcaactctgcttcaaAttttttcatatcctagagag	10	18	4	9	0	4	1	3	0	1	1	5	2	5	1	1	0	2	1	1	0	4	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152631641A>T	uc010kiw.2	-	89	17511	c.16909T>A	c.(16909-16911)TTT>ATT	p.F5637I	SYNE1_uc010kiv.2_Missense_Mutation_p.F161I|SYNE1_uc003qos.3_Missense_Mutation_p.F161I|SYNE1_uc003qot.3_Missense_Mutation_p.F5566I|SYNE1_uc003qou.3_Missense_Mutation_p.F5637I	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5637	Spectrin 18.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCTGCTTCAAATTTTTTCATA	0.428										HNSCC(10;0.0054)			13	50					0	0	0.001855	0	0		T	152631641	T	T	152631641	3	4	4	1	0	0	0	0	1	0	0	0	15470	101	4	5	9789	5	SYNE1	6	152631641	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	48	152631641	18483426	1692	3658											
SYNE1	23345	broad.mit.edu	37	chr6	152631934	152631934	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attttttctgtacagtacacGctagtgaggtactgtaattt	10	17	8	6	1	1	1	0	1	1	0	1	1	1	1	0	1	3	5	0	1	5	9	rs142010074		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152631934G>A	uc010kiw.2	-	88	17387	c.16785C>T	c.(16783-16785)AGC>AGT	p.S5595S	SYNE1_uc010kiv.2_Silent_p.S119S|SYNE1_uc003qos.3_Silent_p.S119S|SYNE1_uc003qot.3_Silent_p.S5524S|SYNE1_uc003qou.3_Silent_p.S5595S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5595	Spectrin 17.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TACAGTACACGCTAGTGAGGT	0.433										HNSCC(10;0.0054)			7	31					0	0	0.004482	0	0		A	152631934	A	A	152631934	2	1	4	1	0	0	0	0	0	0	0	1	15470	1078	38	1		1	SYNE1	6	152631934	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	293	152631934	18483133	1693	3659											
SYNE1	23345	broad.mit.edu	37	chr6	152652833	152652833	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attttccttttaatgaggtcCtcaagctgaaaccaacgttg	11	14	7	9	1	1	2	1	2	0	0	3	2	3	2	3	1	3	2	3	1	4	5	rs140361556	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152652833C>T	uc010kiw.2	-	78	13589	c.12987G>A	c.(12985-12987)GAG>GAA	p.E4329E	SYNE1_uc003qot.3_Silent_p.E4258E|SYNE1_uc003qou.3_Silent_p.E4329E|SYNE1_uc010kiz.2_Silent_p.E84E	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4329	Cytoplasmic (Potential).|Spectrin 12.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TAATGAGGTCCTCAAGCTGAA	0.418										HNSCC(10;0.0054)			6	131					0	0	0.001168	0	0		T	152652833	T	T	152652833	2	4	4	1	0	0	0	0	0	0	0	1	15470	680	24	4		4	SYNE1	6	152652833	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20899	152652833	18462234	1694	3660											
SYNE1	23345	broad.mit.edu	37	chr6	152746516	152746516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttatcttttagaaccaacCttttgttaatgatctgtggt	10	19	6	6	0	2	2	0	1	2	1	2	2	2	2	2	1	2	1	2	1	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152746516C>T	uc010kiw.2	-	39	5869	c.5267G>A	c.(5266-5268)AGG>AAG	p.R1756K	SYNE1_uc003qot.3_Missense_Mutation_p.R1763K|SYNE1_uc003qou.3_Missense_Mutation_p.R1756K|SYNE1_uc010kjb.1_Missense_Mutation_p.R1739K	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1756	Spectrin 2.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TAGAACCAACCTTTTGTTAAT	0.299										HNSCC(10;0.0054)			7	107					0	0	0.006214	0	0		T	152746516	T	T	152746516	3	4	4	1	0	0	0	0	1	0	0	0	15470	695	24	4	21631	4	SYNE1	6	152746516	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	93683	152746516	18368551	1695	3661											
SYNE1	23345	broad.mit.edu	37	chr6	152841620	152841620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccttcgaggaacttgagtgCcgtgccaatgttagccacag	9	10	11	11	2	0	1	0	1	0	0	2	3	1	2	4	1	4	1	4	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152841620C>T	uc010kiw.2	-	6	885	c.283G>A	c.(283-285)GCA>ACA	p.A95T	SYNE1_uc003qot.3_Missense_Mutation_p.A95T|SYNE1_uc003qou.3_Missense_Mutation_p.A95T|SYNE1_uc010kjb.1_Missense_Mutation_p.A95T|SYNE1_uc003qpa.1_Missense_Mutation_p.A95T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	95	Actin-binding.|Cytoplasmic (Potential).|CH 1.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AACTTGAGTGCCGTGCCAATG	0.443										HNSCC(10;0.0054)			42	194					0	0	0.00361	0	0		T	152841620	T	T	152841620	3	4	4	1	0	0	0	0	1	0	0	0	15470	739	26	2	26772	2	SYNE1	6	152841620	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	95104	152841620	18273447	1696	3662											
FBXO5	26271	broad.mit.edu	37	chr6	153296153	153296153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attctaggcccatttttctgCcaattatattctgcagtcta	9	17	5	10	0	4	0	0	0	4	0	4	0	4	0	2	1	2	1	2	1	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:153296153C>T	uc003qpg.2	-	2	816	c.707G>A	c.(706-708)GGC>GAC	p.G236D	FBXO5_uc003qph.2_Missense_Mutation_p.G190D	NM_012177	NP_036309	Q9UKT4	FBX5_HUMAN	F-box only protein 5 isoform a	236	Interaction with EVI5.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm|spindle	metal ion binding|protein binding				0		Ovarian(120;0.125)		OV - Ovarian serous cystadenocarcinoma(155;4.38e-10)|BRCA - Breast invasive adenocarcinoma(81;0.0893)		CATTTTTCTGCCAATTATATT	0.378													5	106					0	0	0.001168	0	0		T	153296153	T	T	153296153	3	4	4	1	0	0	0	0	1	0	0	0	5772	739	26	2	652	2	FBXO5	6	153296153	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	454533	153296153	17818914	1697	3663											
IPCEF1	26034	broad.mit.edu	37	chr6	154481030	154481030	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggggggtgtcatcagtgTcatcaggggcaggcgaagcc	7	7	17	10	1	4	0	4	0	0	0	4	1	4	0	2	6	1	1	2	6	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:154481030T>C	uc003qpx.2	-	12	1403	c.1247A>G	c.(1246-1248)GAC>GGC	p.D416G	OPRM1_uc003qpt.1_Intron|IPCEF1_uc003qpv.2_Missense_Mutation_p.D287G|IPCEF1_uc003qpw.2_Missense_Mutation_p.D417G|IPCEF1_uc010kjh.2_Missense_Mutation_p.D417G	NM_015553	NP_056368	Q8WWN9	ICEF1_HUMAN	phosphoinositide-binding protein PIP3-E isoform	416					response to oxidative stress	cytoplasm|plasma membrane	oxygen transporter activity|peroxidase activity				0						GTCATCAGTGTCATCAGGGGC	0.483													6	14					0	0	0.008291	0	0		C	154481030	C	C	154481030	3	2	4	1	0	0	0	0	1	0	0	0	7807	1667	58	3	70	3	IPCEF1	6	154481030	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1184877	154481030	16634037	1698	3664											
IPCEF1	26034	broad.mit.edu	37	chr6	154481146	154481146	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcgggtcatccagcaactgGttaatcatggccagatcatg	10	11	10	10	1	3	1	3	0	0	1	5	1	4	1	2	3	2	2	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:154481146G>A	uc003qpx.2	-	12	1287	c.1131C>T	c.(1129-1131)AAC>AAT	p.N377N	OPRM1_uc003qpt.1_Intron|IPCEF1_uc003qpv.2_Silent_p.N248N|IPCEF1_uc003qpw.2_Silent_p.N378N|IPCEF1_uc010kjh.2_Silent_p.N378N	NM_015553	NP_056368	Q8WWN9	ICEF1_HUMAN	phosphoinositide-binding protein PIP3-E isoform	377					response to oxidative stress	cytoplasm|plasma membrane	oxygen transporter activity|peroxidase activity				0						CCAGCAACTGGTTAATCATGG	0.453													12	35					0	0	0.00245	0	0		A	154481146	A	A	154481146	2	1	4	1	0	0	0	0	0	0	0	1	7807	1252	44	4		4	IPCEF1	6	154481146	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	116	154481146	16633921	1699	3665											
TIAM2	26230	broad.mit.edu	37	chr6	155469392	155469392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagaagatagacatggacaGcaagatgaagaagatggcag	18	5	13	5	0	1	7	1	1	0	6	1	8	1	8	0	2	1	2	0	2	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155469392G>A	uc003qqb.2	+	9	3225	c.1952G>A	c.(1951-1953)AGC>AAC	p.S651N	TIAM2_uc003qqe.2_Missense_Mutation_p.S651N|TIAM2_uc010kjj.2_Missense_Mutation_p.S184N|TIAM2_uc003qqf.2_Missense_Mutation_p.S3N|TIAM2_uc011efl.1_5'Flank|TIAM2_uc003qqg.2_5'Flank	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	651	Potential.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		GACATGGACAGCAAGATGAAG	0.498													16	68					0	0	0.006122	0	0		A	155469392	A	A	155469392	3	1	4	1	0	0	0	0	1	0	0	0	15916	971	34	2	1966	2	TIAM2	6	155469392	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	988246	155469392	15645675	1700	3666											
TIAM2	26230	broad.mit.edu	37	chr6	155532392	155532392	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaaaaggagtcagacagatgGcactctggatcaggtttccc	12	8	12	9	0	3	2	2	0	1	2	4	5	4	4	1	4	0	2	1	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155532392G>T	uc003qqb.2	+	17	4392	c.3119G>T	c.(3118-3120)GGC>GTC	p.G1040V	TIAM2_uc003qqe.2_Missense_Mutation_p.G1040V|TIAM2_uc010kjj.2_Missense_Mutation_p.G573V|TIAM2_uc003qqf.2_Missense_Mutation_p.G416V|TIAM2_uc011efl.1_Missense_Mutation_p.G376V|TIAM2_uc003qqg.2_Missense_Mutation_p.G352V	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1040					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CAGACAGATGGCACTCTGGAT	0.453													7	55					7.48243e-07	7.94666e-07	0.006214	1	0		T	155532392	T	T	155532392	3	4	4	1	0	0	0	0	1	0	0	0	15916	1203	42	5	3165	5	TIAM2	6	155532392	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	63000	155532392	15582675	1701	3667											
TIAM2	26230	broad.mit.edu	37	chr6	155561791	155561791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgtctgatgcagaccGcctccgcaaagtcatccagg	9	7	9	16	2	2	2	1	1	1	1	4	2	4	2	6	1	1	2	6	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155561791G>A	uc003qqb.2	+	18	4569	c.3296G>A	c.(3295-3297)CGC>CAC	p.R1099H	TIAM2_uc003qqe.2_Missense_Mutation_p.R1099H|TIAM2_uc010kjj.2_Missense_Mutation_p.R632H|TIAM2_uc003qqf.2_Missense_Mutation_p.R475H|TIAM2_uc011efl.1_Missense_Mutation_p.R435H|TIAM2_uc003qqg.2_Missense_Mutation_p.R411H|TIAM2_uc003qqh.2_Missense_Mutation_p.R24H	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1099	DH.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		GATGCAGACCGCCTCCGCAAA	0.557													9	44					0	0	0.008291	0	0		A	155561791	A	A	155561791	3	1	4	1	0	0	0	0	1	0	0	0	15916	1087	38	1	3346	1	TIAM2	6	155561791	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	29399	155561791	15553276	1702	3668											
TIAM2	26230	broad.mit.edu	37	chr6	155577914	155577914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagccctactaaagacatcGaaattcagttccagagactg	14	8	8	11	1	1	2	1	0	0	2	3	4	2	2	2	0	2	2	2	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155577914G>A	uc003qqb.2	+	29	6038	c.4765G>A	c.(4765-4767)GAA>AAA	p.E1589K	TIAM2_uc003qqe.2_Missense_Mutation_p.E1589K|TIAM2_uc010kjj.2_Missense_Mutation_p.E1151K|TIAM2_uc003qqf.2_Missense_Mutation_p.E965K|TIAM2_uc011efl.1_Missense_Mutation_p.E933K|TIAM2_uc003qqg.2_Missense_Mutation_p.E901K|TIAM2_uc003qqh.2_Missense_Mutation_p.E514K|uc003qqi.1_5'Flank	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1589					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		TAAAGACATCGAAATTCAGTT	0.542													5	58					0	0	0.001168	0	0		A	155577914	A	A	155577914	3	1	4	1	0	0	0	0	1	0	0	0	15916	1059	37	1	4859	1	TIAM2	6	155577914	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	16123	155577914	15537153	1703	3669											
CLDN20	49861	broad.mit.edu	37	chr6	155596935	155596935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctcacagccactctgctgCccaactggaaggtgaatgtg	9	9	11	12	0	2	1	1	1	1	0	2	2	2	2	2	2	5	2	2	2	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155596935C>T	uc003qql.1	+	2	462	c.82C>T	c.(82-84)CCC>TCC	p.P28S	TFB1M_uc003qqj.3_Intron|TFB1M_uc003qqk.2_Intron	NM_001001346	NP_001001346	P56880	CLD20_HUMAN	claudin 20	28	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0				OV - Ovarian serous cystadenocarcinoma(155;7.82e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0114)		CACTCTGCTGCCCAACTGGAA	0.532													14	59					0	0	0.003954	0	0		T	155596935	T	T	155596935	3	4	4	1	0	0	0	0	1	0	0	0	3485	739	26	2	84	2	CLDN20	6	155596935	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	19021	155596935	15518132	1704	3670											
NOX3	50508	broad.mit.edu	37	chr6	155743924	155743924	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actccgatccccgcggcaacGcacacacacactgggtagtg	10	5	10	16	4	0	0	0	0	0	0	2	1	2	0	3	2	1	3	3	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155743924G>A	uc003qqm.2	-	10	1315	c.1212C>T	c.(1210-1212)TGC>TGT	p.C404C		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	404	Helical; (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		CCGCGGCAACGCACACACACA	0.532													25	117					0	0	0.008361	0	0		A	155743924	A	A	155743924	2	1	4	1	0	0	0	0	0	0	0	1	10576	1079	38	1		1	NOX3	6	155743924	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	146989	155743924	15371143	1705	3671											
NOX3	50508	broad.mit.edu	37	chr6	155761236	155761236	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcaccagaccggtgacGcctgctattgtccttagcaa	10	9	10	12	2	1	3	1	1	0	2	2	4	2	3	4	1	2	2	4	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155761236G>A	uc003qqm.2	-	6	625	c.522C>T	c.(520-522)GGC>GGT	p.G174G		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	174	Ferric oxidoreductase.|Helical; (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		GACCGGTGACGCCTGCTATTG	0.368													16	69					0	0	0.006122	0	0		A	155761236	A	A	155761236	2	1	4	1	0	0	0	0	0	0	0	1	10576	1074	38	1		1	NOX3	6	155761236	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	17312	155761236	15353831	1706	3672											
ARID1B	57492	broad.mit.edu	37	chr6	157488293	157488293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgccgccctacagcatggCgcccgccatggtgaacagct	7	5	13	16	4	0	1	0	1	0	0	0	1	0	1	4	3	4	2	4	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:157488293C>T	uc003qqn.2	+	9	2938	c.2786C>T	c.(2785-2787)GCG>GTG	p.A929V	ARID1B_uc003qqo.2_Missense_Mutation_p.A942V|ARID1B_uc003qqp.2_Missense_Mutation_p.A929V|ARID1B_uc010kjl.2_Missense_Mutation_p.A127V	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	987					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TACAGCATGGCGCCCGCCATG	0.597													13	28					0	0	0.00499	0	0		T	157488293	T	T	157488293	3	4	4	1	0	0	0	0	1	0	0	0	914	768	27	1	3037	1	ARID1B	6	157488293	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1727057	157488293	13626774	1707	3673											
SNX9	51429	broad.mit.edu	37	chr6	158330785	158330785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaaggctccaaaatgtatgGtctaaagagctacatcgaat	16	9	9	7	1	1	1	0	0	1	1	3	3	2	1	1	2	2	3	1	2	8	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:158330785G>A	uc003qqv.1	+	8	967	c.794G>A	c.(793-795)GGT>GAT	p.G265D		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	265	PX.				cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)		AAAATGTATGGTCTAAAGAGC	0.413													6	120					0	0	0.001168	0	0		A	158330785	A	A	158330785	3	1	4	1	0	0	0	0	1	0	0	0	14934	1261	44	4	824	4	SNX9	6	158330785	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	842492	158330785	12784282	1708	3674											
SYNJ2	8871	broad.mit.edu	37	chr6	158517270	158517270	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagacccagtgtcagctggCgcttcagctgccaaggcaga	10	7	12	12	1	2	2	2	0	0	2	2	2	2	2	2	2	3	4	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:158517270C>T	uc003qqx.1	+	27	4440	c.4365C>T	c.(4363-4365)GGC>GGT	p.G1455G	SYNJ2_uc003qqy.1_Silent_p.G1168G|SYNJ2_uc003qqz.1_Silent_p.G1072G|SYNJ2_uc003qra.1_Silent_p.G798G|SYNJ2_uc010kjp.1_Silent_p.G338G	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	1455	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		TGTCAGCTGGCGCTTCAGCTG	0.507													8	39					0	0	0.006214	0	0		T	158517270	T	T	158517270	2	4	4	1	0	0	0	0	0	0	0	1	15478	755	27	1		1	SYNJ2	6	158517270	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	186485	158517270	12597797	1709	3675											
TULP4	56995	broad.mit.edu	37	chr6	158923299	158923299	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtgtgcttgaagaagggCgacttctccctctaccccac	8	10	10	13	1	2	2	0	1	2	1	3	4	2	2	3	1	2	1	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:158923299C>T	uc003qrf.2	+	13	3961	c.2604C>T	c.(2602-2604)GGC>GGT	p.G868G	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	868					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		TGAAGAAGGGCGACTTCTCCC	0.662													13	33					0	0	0.001855	0	0		T	158923299	T	T	158923299	2	4	4	1	0	0	0	0	0	0	0	1	16802	755	27	1		1	TULP4	6	158923299	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	406029	158923299	12191768	1710	3676											
IGF2R	3482	broad.mit.edu	37	chr6	160468277	160468277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaactacagaggcggcaCaccctataacaatgaaagac	17	5	8	11	1	0	4	0	2	0	2	0	4	0	4	1	2	3	1	1	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:160468277C>T	uc003qta.2	+	16	2286	c.2138C>T	c.(2137-2139)ACA>ATA	p.T713I		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	713	5.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		AGAGGCGGCACACCCTATAAC	0.463													10	92					0	0	0.008291	0	0		T	160468277	T	T	160468277	3	4	4	1	0	0	0	0	1	0	0	0	7592	478	17	4	2200	4	IGF2R	6	160468277	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1544978	160468277	10646790	1711	3677											
IGF2R	3482	broad.mit.edu	37	chr6	160497000	160497000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactacacctcgctcatcgCgtttcactgtaagagaggtg	10	10	9	12	3	2	1	2	0	0	1	4	2	2	1	1	1	2	3	1	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:160497000C>T	uc003qta.2	+	36	5436	c.5288C>T	c.(5287-5289)GCG>GTG	p.A1763V		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1763	Lumenal (Potential).|12.				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		TCGCTCATCGCGTTTCACTGT	0.458													18	129					0	0	0.006122	0	0		T	160497000	T	T	160497000	3	4	4	1	0	0	0	0	1	0	0	0	7592	768	27	1	5430	1	IGF2R	6	160497000	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	28723	160497000	10618067	1712	3678											
IGF2R	3482	broad.mit.edu	37	chr6	160523629	160523629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacggagccaggcagtcggCgcggtgctcagcctgctgct	6	6	16	13	4	1	0	1	0	0	0	2	2	1	1	2	4	6	4	2	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:160523629C>T	uc003qta.2	+	46	7069	c.6921C>T	c.(6919-6921)GGC>GGT	p.G2307G		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	2307	Helical; (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		AGGCAGTCGGCGCGGTGCTCA	0.647													4	15					0	0	0.000602	0	0		T	160523629	T	T	160523629	2	4	4	1	0	0	0	0	0	0	0	1	7592	755	27	1		1	IGF2R	6	160523629	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	26629	160523629	10591438	1713	3679											
LPA	4018	broad.mit.edu	37	chr6	160977182	160977182	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctggccattaccatggtaGcactgccggaccacaggggt	8	8	12	13	1	1	0	0	0	1	0	1	1	1	1	4	5	3	2	4	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:160977182G>T	uc003qtl.2	-	31	4968	c.4848C>A	c.(4846-4848)TGC>TGA	p.C1616*		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4124	Kringle 37.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	TACCATGGTAGCACTGCCGGA	0.468													16	103					9.16793e-09	9.81258e-09	0.00499	1	0		T	160977182	T	T	160977182	4	4	4	1	0	0	0	0	0	1	0	0	8921	963	34	5	1314	5	LPA	6	160977182	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	453553	160977182	10137885	1714	3680											
LPA	4018	broad.mit.edu	37	chr6	161006078	161006078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctaacatgatagacatacGcatttggatagtataatggg	14	11	11	5	1	0	2	0	1	0	1	0	3	0	3	0	3	2	3	0	3	6	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161006078G>A	uc003qtl.2	-	27	4409	c.4289C>T	c.(4288-4290)GCT>GTT	p.A1430V		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3938	Kringle 35.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	ATAGACATACGCATTTGGATA	0.433													21	156					0	0	0.005443	0	0		A	161006078	A	A	161006078	3	1	4	1	0	0	0	0	1	0	0	0	8921	1101	38	1	1889	1	LPA	6	161006078	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	28896	161006078	10108989	1715	3681											
LPA	4018	broad.mit.edu	37	chr6	161020532	161020532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtaaagaacaaagacgtacGcatttgggtagttttctggg	12	11	13	5	2	1	2	0	0	1	2	1	2	1	2	0	3	2	5	0	3	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161020532G>A	uc003qtl.2	-	21	3407	c.3287C>T	c.(3286-3288)GCT>GTT	p.A1096V		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3604	Kringle 32.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	AAAGACGTACGCATTTGGGTA	0.488													28	405					0	0	0.002836	0	0		A	161020532	A	A	161020532	3	1	4	1	0	0	0	0	1	0	0	0	8921	1101	38	1	2915	1	LPA	6	161020532	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	14454	161020532	10094535	1716	3682											
LPA	4018	broad.mit.edu	37	chr6	161026078	161026078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtaaagaaaatagacatacGcatttgggtagtatgctggg	14	10	13	4	1	0	2	0	0	0	2	0	2	0	2	0	3	2	5	0	3	8	6	rs139937718	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161026078G>A	uc003qtl.2	-	19	3065	c.2945C>T	c.(2944-2946)GCT>GTT	p.A982V		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3490	Kringle 31.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	ATAGACATACGCATTTGGGTA	0.448													106	317					0	0	0.00361	0	0		A	161026078	A	A	161026078	3	1	4	1	0	0	0	0	1	0	0	0	8921	1101	38	1	3265	1	LPA	6	161026078	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5546	161026078	10088989	1717	3683											
PLG	5340	broad.mit.edu	37	chr6	161152221	161152221	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagtgttgtagcacctccGcctgttgtcctgcttccaga	5	12	11	13	2	0	1	0	0	0	1	3	2	3	1	5	0	2	5	5	0	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161152221G>A	uc003qtm.3	+	11	1458	c.1395G>A	c.(1393-1395)CCG>CCA	p.P465P		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	465					extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	TAGCACCTCCGCCTGTTGTCC	0.512													27	80					0	0	0.005443	0	0		A	161152221	A	A	161152221	2	1	4	1	0	0	0	0	0	0	0	1	12105	1074	38	1		1	PLG	6	161152221	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	126143	161152221	9962846	1718	3684											
MAP3K4	4216	broad.mit.edu	37	chr6	161508846	161508846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcaaaagattcagatgacGtactcatcgatgcctatctg	12	12	8	9	2	4	3	3	1	1	2	5	4	4	3	1	0	2	2	1	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161508846G>A	uc003qtn.2	+	10	2825	c.2683G>A	c.(2683-2685)GTA>ATA	p.V895I	MAP3K4_uc010kkc.1_Missense_Mutation_p.V895I|MAP3K4_uc003qto.2_Missense_Mutation_p.V895I|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.V348I	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	895					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		TTCAGATGACGTACTCATCGA	0.493													22	70					0	0	0.003954	0	0		A	161508846	A	A	161508846	3	1	4	1	0	0	0	0	1	0	0	0	9270	1145	40	1	2721	1	MAP3K4	6	161508846	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	356625	161508846	9606221	1719	3685											
MAP3K4	4216	broad.mit.edu	37	chr6	161533750	161533750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaggagagggccatgggCgtgcggccgacatctggagt	9	5	17	10	3	1	1	0	0	1	1	1	4	1	2	3	5	1	0	3	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161533750C>T	uc003qtn.2	+	25	4712	c.4570C>T	c.(4570-4572)CGT>TGT	p.R1524C	MAP3K4_uc003qto.2_Missense_Mutation_p.R1474C|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.R977C|MAP3K4_uc003qtp.2_Missense_Mutation_p.R460C|MAP3K4_uc003qtq.2_Missense_Mutation_p.R213C	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	1524	Protein kinase.				activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		GGGCCATGGGCGTGCGGCCGA	0.522													12	67					0	0	0.001855	0	0		T	161533750	T	T	161533750	3	4	4	1	0	0	0	0	1	0	0	0	9270	768	27	1	4668	1	MAP3K4	6	161533750	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24904	161533750	9581317	1720	3686											
AGPAT4	56895	broad.mit.edu	37	chr6	161574408	161574408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctcctcacggtgatggCgaagcccttggttcgtggca	7	9	13	12	3	1	1	1	1	0	0	3	2	2	1	2	4	2	3	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161574408C>T	uc003qtr.1	-	5	861	c.634G>A	c.(634-636)GCC>ACC	p.A212T	AGPAT4_uc003qts.1_Missense_Mutation_p.A72T|AGPAT4_uc011egb.1_Intron|AGPAT4_uc003qtt.1_RNA|AGPAT4_uc011egc.1_3'UTR|AGPAT4_uc011egd.1_3'UTR|AGPAT4_uc011ege.1_3'UTR	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	212					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		ACGGTGATGGCGAAGCCCTTG	0.622											OREG0017775	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	10					0	0	0.001168	0	0		T	161574408	T	T	161574408	3	4	4	1	0	0	0	0	1	0	0	0	389	768	27	1	522	1	AGPAT4	6	161574408	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	40658	161574408	9540659	1721	3687											
QKI	9444	broad.mit.edu	37	chr6	163984542	163984542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcccaccagctgccctgcGtactcctacgccagctggcc	5	8	8	20	2	1	0	0	0	1	0	3	0	2	0	6	1	6	3	6	1	2	2	rs142647102		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:163984542G>A	uc003qui.2	+	6	1276	c.725G>A	c.(724-726)CGT>CAT	p.R242H	QKI_uc003que.2_Missense_Mutation_p.R242H|QKI_uc003quf.2_Missense_Mutation_p.R242H|QKI_uc003qug.2_Missense_Mutation_p.R242H|QKI_uc003quh.2_Missense_Mutation_p.R234H|QKI_uc003quj.2_Missense_Mutation_p.R234H	NM_006775	NP_006766	Q96PU8	QKI_HUMAN	quaking homolog, KH domain RNA binding isoform	242					mRNA processing|mRNA transport|regulation of translation|RNA splicing	cytoplasm|nucleus|plasma membrane	RNA binding|SH3 domain binding			large_intestine(1)|ovary(1)	2		Breast(66;5e-05)|Prostate(117;0.0235)|all_neural(5;0.0416)|Ovarian(120;0.0448)|Glioma(2;0.203)		all cancers(1;4.4e-46)|OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|GBM - Glioblastoma multiforme(1;2.94e-19)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|Kidney(3;0.000199)|KIRC - Kidney renal clear cell carcinoma(3;0.000234)		GCTGCCCTGCGTACTCCTACG	0.552													12	54					0	0	0.000978	0	0		A	163984542	A	A	163984542	3	1	4	1	0	0	0	0	1	0	0	0	12898	1145	40	1	747	1	QKI	6	163984542	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2410134	163984542	7130525	1722	3688											
C6orf118	168090	broad.mit.edu	37	chr6	165715311	165715311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctgcgccatccaggagggCcccgtccaggagggcctcct	5	6	13	17	2	0	0	0	0	0	0	4	2	4	2	8	4	1	0	8	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:165715311C>T	uc003qum.3	-	2	536	c.500G>A	c.(499-501)GGC>GAC	p.G167D	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	167											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		TCCAGGAGGGCCCCGTCCAGG	0.632													5	28					0	0	0.001168	0	0		T	165715311	T	T	165715311	3	4	4	1	0	0	0	0	1	0	0	0	2326	739	26	2	941	2	C6orf118	6	165715311	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1730769	165715311	5399756	1723	3689											
FGFR1OP	11116	broad.mit.edu	37	chr6	167436102	167436102	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgatgatcccattcctaAgccagagaaaacttacggtt	12	12	7	10	1	0	3	0	2	0	1	2	4	2	3	3	1	3	1	3	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:167436102A>G	uc003qvj.2	+	8	870	c.785A>G	c.(784-786)AAG>AGG	p.K262R	CCR6_uc003qvl.2_5'UTR|FGFR1OP_uc011egp.1_Missense_Mutation_p.K215R|FGFR1OP_uc003qvk.2_Missense_Mutation_p.K242R	NM_007045	NP_008976	O95684	FR1OP_HUMAN	FGFR1 oncogene partner isoform a	262					G2/M transition of mitotic cell cycle|microtubule anchoring|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell proliferation	centrosome|cytosol|nucleus|perinuclear region of cytoplasm	protein homodimerization activity|protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(1)	1		Breast(66;1.48e-05)|Ovarian(120;0.0607)		OV - Ovarian serous cystadenocarcinoma(33;1.73e-19)|BRCA - Breast invasive adenocarcinoma(81;5.1e-06)|GBM - Glioblastoma multiforme(31;0.00231)		CCCATTCCTAAGCCAGAGAAA	0.333			T	FGFR1	MPD|NHL								18	65					0	0	0.008871	0	0		G	167436102	G	G	167436102	3	3	4	1	0	0	0	0	1	0	0	0	5878	72	3	3	815	3	FGFR1OP	6	167436102	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1720791	167436102	3678965	1724	3690											
UNC93A	54346	broad.mit.edu	37	chr6	167728837	167728837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagcctgaccatggtggCgtatgggcttgtggagtgcg	5	10	17	9	2	0	2	0	2	0	0	0	3	0	3	3	4	2	2	3	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:167728837C>T	uc003qvq.2	+	8	1446	c.1271C>T	c.(1270-1272)GCG>GTG	p.A424V	UNC93A_uc003qvr.2_Missense_Mutation_p.A382V	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	424						integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		ACCATGGTGGCGTATGGGCTT	0.552													38	250					0	0	0.00361	0	0		T	167728837	T	T	167728837	3	4	4	1	0	0	0	0	1	0	0	0	17022	768	27	1	1301	1	UNC93A	6	167728837	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	292735	167728837	3386230	1725	3691											
MLLT4	4301	broad.mit.edu	37	chr6	168281118	168281118	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgtctactacagatcCtgcagactttgctgtggctg	6	13	10	12	0	1	2	0	0	1	2	2	2	2	2	2	1	5	4	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:168281118C>A	uc003qwd.2	+	6	957	c.815C>A	c.(814-816)CCT>CAT	p.P272H	MLLT4_uc003qwb.1_Missense_Mutation_p.P272H|MLLT4_uc003qwc.1_Missense_Mutation_p.P273H|MLLT4_uc003qwf.2_Translation_Start_Site	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	273	Ras-associating 2.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		ACTACAGATCCTGCAGACTTT	0.388			T	MLL	AL								58	176					1.17253e-29	1.28771e-29	0.00361	1	0		A	168281118	A	A	168281118	3	1	4	1	0	0	0	0	1	0	0	0	9647	681	24	5	840	5	MLLT4	6	168281118	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	552281	168281118	2833949	1726	3692											
MLLT4	4301	broad.mit.edu	37	chr6	168312071	168312071	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcatgccggtatgtattgTccaaccagtacagacctgac	10	10	10	11	1	0	2	0	1	0	1	1	2	1	2	4	2	3	4	4	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:168312071T>C	uc003qwd.2	+	15	2078	c.1936T>C	c.(1936-1938)TCC>CCC	p.S646P	MLLT4_uc003qwb.1_Missense_Mutation_p.S631P|MLLT4_uc003qwc.1_Missense_Mutation_p.S647P|MLLT4_uc003qwf.2_Missense_Mutation_p.S332P|MLLT4_uc003qwg.1_5'Flank	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	647					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		GTATGTATTGTCCAACCAGTA	0.418			T	MLL	AL								24	93					0	0	0.00333	0	0		C	168312071	C	C	168312071	3	2	4	1	0	0	0	0	1	0	0	0	9647	1667	58	3	1997	3	MLLT4	6	168312071	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	30953	168312071	2802996	1727	3693											
MLLT4	4301	broad.mit.edu	37	chr6	168344088	168344088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggatttgcctaggatggaCgtctagctgcaggtgatcag	8	11	15	7	1	2	1	1	1	1	0	2	4	2	4	1	4	3	2	1	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:168344088C>T	uc003qwd.2	+	24	3290	c.3148C>T	c.(3148-3150)CGT>TGT	p.R1050C	MLLT4_uc003qwb.1_Missense_Mutation_p.R1035C|MLLT4_uc003qwc.1_Missense_Mutation_p.R1051C|MLLT4_uc003qwg.1_Missense_Mutation_p.R360C	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1051	PDZ.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		CTAGGATGGACGTCTAGCTGC	0.453			T	MLL	AL								8	157					0	0	0.006214	0	0		T	168344088	T	T	168344088	3	4	4	1	0	0	0	0	1	0	0	0	9647	536	19	1	3245	1	MLLT4	6	168344088	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	32017	168344088	2770979	1728	3694											
MLLT4	4301	broad.mit.edu	37	chr6	168352728	168352728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaggagagcgaccggctgcGcaagctcatgctggagtggc	8	5	17	11	4	1	1	1	0	0	1	1	5	1	2	1	4	4	4	1	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:168352728G>A	uc003qwd.2	+	29	4812	c.4670G>A	c.(4669-4671)CGC>CAC	p.R1557H	MLLT4_uc003qwb.1_Missense_Mutation_p.R1542H|MLLT4_uc003qwc.1_Missense_Mutation_p.R1558H|MLLT4_uc003qwg.1_Missense_Mutation_p.R867H	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1558	Potential.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		GACCGGCTGCGCAAGCTCATG	0.443			T	MLL	AL								7	17					0	0	0.006214	0	0		A	168352728	A	A	168352728	3	1	4	1	0	0	0	0	1	0	0	0	9647	1087	38	1	4787	1	MLLT4	6	168352728	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8640	168352728	2762339	1729	3695											
DLL1	28514	broad.mit.edu	37	chr6	170592454	170592454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacgaggttatagtccaccGctgggtagcgggccttgaag	8	8	15	10	3	0	1	0	1	0	0	1	2	1	1	3	3	1	4	3	3	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:170592454G>A	uc003qxm.2	-	9	2383	c.1913C>T	c.(1912-1914)GCG>GTG	p.A638V		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	638	Cytoplasmic (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		ATAGTCCACCGCTGGGTAGCG	0.622													9	49					0	0	0.00245	0	0		A	170592454	A	A	170592454	3	1	4	1	0	0	0	0	1	0	0	0	4572	1087	38	1	270	1	DLL1	6	170592454	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2239726	170592454	522613	1730	3696											
FAM120B	84498	broad.mit.edu	37	chr6	170627136	170627136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agagtctgggcctctgtgtgGccgaccttcctcttctggcc	3	12	12	14	1	4	1	0	0	4	1	5	2	5	1	5	3	0	0	5	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:170627136G>A	uc003qxp.2	+	2	766	c.658G>A	c.(658-660)GCC>ACC	p.A220T	FAM120B_uc003qxo.1_Missense_Mutation_p.A220T|FAM120B_uc011ehd.1_Intron	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	220					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		CCTCTGTGTGGCCGACCTTCC	0.522													25	56					0	0	0.00278	0	0		A	170627136	A	A	170627136	3	1	4	1	0	0	0	0	1	0	0	0	5428	1203	42	2	660	2	FAM120B	6	170627136	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	34682	170627136	487931	1731	3697											
HEATR2	54919	broad.mit.edu	37	chr7	796464	796464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggacgtttgtcagccctgagGtgtttctgaagctgatctta	7	14	12	8	1	3	3	1	3	2	0	3	4	3	4	1	2	2	3	1	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:796464G>A	uc010krz.1	+	6	1323	c.1303G>A	c.(1303-1305)GTG>ATG	p.V435M	HEATR2_uc003siz.2_Missense_Mutation_p.V303M	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	435							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		CAGCCCTGAGGTGTTTCTGAA	0.602													23	89					0	0	0.001882	0	0		A	796464	A	A	796464	3	1	4	1	0	0	0	0	1	0	0	0	7044	1261	44	4	1325	4	HEATR2	7	796464	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08		796464	158342199	1732	3698											
HEATR2	54919	broad.mit.edu	37	chr7	803547	803547	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggagcgggtgaccgcgtcGcaccttgactggaccgcaca	7	6	14	14	5	0	2	0	2	0	0	1	4	0	4	3	3	1	2	3	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:803547G>A	uc010krz.1	+	8	1739	c.1719G>A	c.(1717-1719)TCG>TCA	p.S573S	HEATR2_uc003siz.2_Silent_p.S441S|HEATR2_uc003sja.2_Silent_p.S31S	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	573							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		TGACCGCGTCGCACCTTGACT	0.652													8	60					0	0	0.00308	0	0		A	803547	A	A	803547	2	1	4	1	0	0	0	0	0	0	0	1	7044	1074	38	1		1	HEATR2	7	803547	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	7083	803547	158335116	1733	3699											
HEATR2	54919	broad.mit.edu	37	chr7	825235	825235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catccacaagcaccgctcggCcacctactgcgagcagctcc	9	5	8	19	3	0	0	0	0	0	0	3	1	2	0	5	1	5	4	5	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:825235C>T	uc010krz.1	+	13	2533	c.2513C>T	c.(2512-2514)GCC>GTC	p.A838V	HEATR2_uc003siz.2_Missense_Mutation_p.A706V|HEATR2_uc003sjb.2_Missense_Mutation_p.A218V|HEATR2_uc003sjc.2_Missense_Mutation_p.A263V	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	838							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		CACCGCTCGGCCACCTACTGC	0.617													6	17					0	0	0.004482	0	0		T	825235	T	T	825235	3	4	4	1	0	0	0	0	1	0	0	0	7044	739	26	2	2563	2	HEATR2	7	825235	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	21688	825235	158313428	1734	3700											
INTS1	26173	broad.mit.edu	37	chr7	1538054	1538054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccctgggcctaccttgggCgccagctctgagctgtgctg	4	9	14	14	1	1	1	0	1	1	0	1	2	1	1	4	2	4	3	4	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:1538054C>T	uc003skn.2	-	10	1520	c.1419G>A	c.(1417-1419)GCG>GCA	p.A473A	INTS1_uc003skq.2_Silent_p.A473A	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	473					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CTACCTTGGGCGCCAGCTCTG	0.642													4	18					0	0	0.000602	0	0		T	1538054	T	T	1538054	2	4	4	1	0	0	0	0	0	0	0	1	7791	755	27	1		1	INTS1	7	1538054	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	712819	1538054	157600609	1735	3701											
MAD1L1	8379	broad.mit.edu	37	chr7	1997289	1997289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctcgccgctccagctgtGcctccagcatcctcttttcc	4	11	8	18	2	1	0	0	0	1	0	6	1	5	0	6	0	4	4	6	0	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:1997289G>A	uc003slh.1	-	16	1837	c.1571C>T	c.(1570-1572)GCA>GTA	p.A524V	MAD1L1_uc003sle.1_Missense_Mutation_p.A253V|MAD1L1_uc003slf.1_Missense_Mutation_p.A524V|MAD1L1_uc003slg.1_Missense_Mutation_p.A524V|MAD1L1_uc010ksh.1_Missense_Mutation_p.A524V|MAD1L1_uc003sli.1_Missense_Mutation_p.A432V|MAD1L1_uc010ksi.1_Missense_Mutation_p.A477V|MAD1L1_uc010ksj.2_Missense_Mutation_p.A524V	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	524	Necessary for interaction with NEK2.|Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		CTCCAGCTGTGCCTCCAGCAT	0.637													9	25					0	0	0.004482	0	0		A	1997289	A	A	1997289	3	1	4	1	0	0	0	0	1	0	0	0	9165	1319	46	2	601	2	MAD1L1	7	1997289	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	459235	1997289	157141374	1736	3702											
TTYH3	80727	broad.mit.edu	37	chr7	2698584	2698584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgcctcaggagccagaacGctaatttccagaacccccgc	11	6	8	16	2	1	2	1	0	0	2	2	3	2	3	5	1	4	1	5	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:2698584G>A	uc003smp.2	+	13	1622	c.1435G>A	c.(1435-1437)GCT>ACT	p.A479T	TTYH3_uc010ksn.2_Missense_Mutation_p.A199T|TTYH3_uc003smq.2_Missense_Mutation_p.A308T	NM_025250	NP_079526	Q9C0H2	TTYH3_HUMAN	tweety 3	479	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.04e-14)		GAGCCAGAACGCTAATTTCCA	0.662													29	70					0	0	0.004289	0	0		A	2698584	A	A	2698584	3	1	4	1	0	0	0	0	1	0	0	0	16767	1087	38	1	1485	1	TTYH3	7	2698584	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	701295	2698584	156440079	1737	3703											
AMZ1	155185	broad.mit.edu	37	chr7	2740354	2740354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagcaccggaagccccGcctggctcggaagcacatct	8	5	11	17	3	1	0	0	0	1	0	2	2	1	2	5	3	4	4	5	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:2740354G>A	uc003smr.1	+	2	630	c.269G>A	c.(268-270)CGC>CAC	p.R90H	AMZ1_uc003sms.1_Missense_Mutation_p.R90H|AMZ1_uc011jwa.1_5'Flank	NM_133463	NP_597720	Q400G9	AMZ1_HUMAN	archaelysin family metallopeptidase 1	90							metallopeptidase activity|zinc ion binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;5.03e-14)		CGGAAGCCCCGCCTGGCTCGG	0.647													6	12					0	0	0.004482	0	0		A	2740354	A	A	2740354	3	1	4	1	0	0	0	0	1	0	0	0	596	1087	38	1	271	1	AMZ1	7	2740354	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	41770	2740354	156398309	1738	3704											
CARD11	84433	broad.mit.edu	37	chr7	2963993	2963993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaggagtagcgttcgtgaCtgtcatctgcagagggacga	10	8	15	8	4	2	2	1	1	1	1	3	6	2	4	0	2	2	3	0	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:2963993C>T	uc003smv.2	-	15	2218	c.1814G>A	c.(1813-1815)AGT>AAT	p.S605N		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	605					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GCGTTCGTGACTGTCATCTGC	0.657			Mis		DLBCL								5	23					0	0	0.001984	0	0		T	2963993	T	T	2963993	3	4	4	1	0	0	0	0	1	0	0	0	2648	565	20	4	1694	4	CARD11	7	2963993	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	223639	2963993	156174670	1739	3705											
SDK1	221935	broad.mit.edu	37	chr7	3991379	3991379	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcctgtggaggacctgaGtgtgacctggaagaggaatg	10	7	17	7	0	0	3	0	2	0	1	0	7	0	7	3	5	0	0	3	5	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:3991379G>T	uc003smx.2	+	7	1116	c.977G>T	c.(976-978)AGT>ATT	p.S326I		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	326	Ig-like C2-type 3.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GAGGACCTGAGTGTGACCTGG	0.587													8	36					1.26484e-09	1.35768e-09	0.00308	1	0		T	3991379	T	T	3991379	3	4	4	1	0	0	0	0	1	0	0	0	13993	1029	36	5	1003	5	SDK1	7	3991379	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1027386	3991379	155147284	1740	3706											
FOXK1	221937	broad.mit.edu	37	chr7	4796712	4796712	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaaggggtccttttggCgaatagaccctgcctctgaa	8	10	13	10	1	1	2	0	1	1	1	2	4	2	3	3	4	1	0	3	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:4796712C>T	uc003snc.1	+	5	1148	c.1138C>T	c.(1138-1140)CGA>TGA	p.R380*	FOXK1_uc003sna.1_Nonsense_Mutation_p.R217*	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	forkhead box K1	380	Fork-head.				cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		GTCCTTTTGGCGAATAGACCC	0.572													6	83					0	0	0.001168	0	0		T	4796712	T	T	4796712	4	4	4	1	0	0	0	0	0	1	0	0	6028	760	27	1	1156	1	FOXK1	7	4796712	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	805333	4796712	154341951	1741	3707											
RADIL	55698	broad.mit.edu	37	chr7	4871777	4871777	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgggtcatactcacagttgCgcctgcttctctgctagttc	5	13	9	14	2	3	0	2	0	1	0	5	0	3	0	2	1	4	4	2	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:4871777C>T	uc003snj.1	-	5	1622	c.1449G>A	c.(1447-1449)GCG>GCA	p.A483A	RADIL_uc003sng.1_RNA|RADIL_uc003sni.1_5'UTR|RADIL_uc011jwc.1_Silent_p.A243A|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	483					cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		CTCACAGTTGCGCCTGCTTCT	0.557													4	11					0	0	0.009096	0	0		T	4871777	T	T	4871777	2	4	4	1	0	0	0	0	0	0	0	1	13022	755	27	1		1	RADIL	7	4871777	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	75065	4871777	154266886	1742	3708											
RBAK	57786	broad.mit.edu	37	chr7	5097398	5097398	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggaggtgaatttccatgtCaacatagtccaggtaagtta	12	12	11	6	0	1	1	1	1	0	0	3	2	3	2	2	3	1	2	2	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:5097398C>T	uc010kss.1	+	5	550	c.226C>T	c.(226-228)CAA>TAA	p.Q76*	LOC389458_uc003snr.2_Nonsense_Mutation_p.Q76*|RBAK_uc003sns.1_Nonsense_Mutation_p.Q76*	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	76	KRAB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		ATTTCCATGTCAACATAGTCC	0.418													25	80					0	0	0.00632	0	0		T	5097398	T	T	5097398	4	4	4	1	0	0	0	0	0	1	0	0	13125	827	29	4	236	4	RBAK	7	5097398	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	225621	5097398	154041265	1743	3709											
SLC29A4	222962	broad.mit.edu	37	chr7	5331433	5331433	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctggccgctgtgggcacCgtggccttcggctgcacagg	5	7	15	14	3	0	0	0	0	0	0	1	0	0	0	4	5	2	4	4	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:5331433C>T	uc003sod.2	+	5	686	c.525C>T	c.(523-525)ACC>ACT	p.T175T	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Silent_p.T175T|SLC29A4_uc003soe.2_Missense_Mutation_p.P163L	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	175	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		CTGTGGGCACCGTGGCCTTCG	0.652													15	20					0	0	0.006122	0	0		T	5331433	T	T	5331433	2	4	4	1	0	0	0	0	0	0	0	1	14562	639	23	1		1	SLC29A4	7	5331433	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	234035	5331433	153807230	1744	3710											
FBXL18	80028	broad.mit.edu	37	chr7	5541130	5541130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtggaggttctgaggagtgCggtcgctaagcacagccagg	8	7	17	9	3	1	1	0	1	1	0	2	3	1	3	1	5	3	3	1	5	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:5541130C>T	uc003soo.2	-	3	864	c.770G>A	c.(769-771)CGC>CAC	p.R257H	FBXL18_uc003son.3_Missense_Mutation_p.R257H	NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	257										central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)		CTGAGGAGTGCGGTCGCTAAG	0.647													8	14					0	0	0.00308	0	0		T	5541130	T	T	5541130	3	4	4	1	0	0	0	0	1	0	0	0	5728	768	27	1	1398	1	FBXL18	7	5541130	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	209697	5541130	153597533	1745	3711											
ACTB	60	broad.mit.edu	37	chr7	5568056	5568056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgctcgaagtccagggCgacgtagcacagcttctcct	7	10	10	14	3	2	0	0	0	2	0	5	2	3	0	2	1	3	4	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:5568056C>T	uc003sos.3	-	3	694	c.658G>A	c.(658-660)GCC>ACC	p.A220T	ACTB_uc003sor.3_Missense_Mutation_p.A98T|ACTB_uc003sot.3_Missense_Mutation_p.A220T|ACTB_uc003soq.3_Missense_Mutation_p.A98T|ACTB_uc010ksy.2_Missense_Mutation_p.A98T	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	220					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		AAGTCCAGGGCGACGTAGCAC	0.587													25	67					0	0	0.002445	0	0		T	5568056	T	T	5568056	3	4	4	1	0	0	0	0	1	0	0	0	193	768	27	1	481	1	ACTB	7	5568056	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	26926	5568056	153570607	1746	3712											
ACTB	60	broad.mit.edu	37	chr7	5568123	5568123	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtggtggtgaagctgtaGccgcgctcggtgaggatctt	5	10	17	9	4	1	2	0	2	1	0	2	3	1	3	2	4	2	3	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:5568123G>T	uc003sos.3	-	3	627	c.591C>A	c.(589-591)GGC>GGA	p.G197G	ACTB_uc003sor.3_Silent_p.G75G|ACTB_uc003sot.3_Silent_p.G197G|ACTB_uc003soq.3_Silent_p.G75G|ACTB_uc010ksy.2_Silent_p.G75G	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	197					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		TGAAGCTGTAGCCGCGCTCGG	0.617													17	57					1.9806e-07	2.11035e-07	0.002299	1	0		T	5568123	T	T	5568123	2	4	4	1	0	0	0	0	0	0	0	1	193	958	34	5		5	ACTB	7	5568123	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	67	5568123	153570540	1747	3713											
RNF216	54476	broad.mit.edu	37	chr7	5792588	5792588	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagtcagatatggtgatgggCccatctcggagattgatcca	10	10	13	8	1	2	4	1	2	1	2	4	6	3	4	2	3	0	0	2	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:5792588C>T	uc003soy.1	-	3	280	c.90G>A	c.(88-90)GGG>GGA	p.G30G	RNF216_uc010ksz.1_5'UTR|RNF216_uc010kta.1_5'UTR|RNF216_uc011jwj.1_Intron|RNF216_uc003sox.1_Silent_p.G30G	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	30					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		TGGTGATGGGCCCATCTCGGA	0.493													11	45					0	0	0.000978	0	0		T	5792588	T	T	5792588	2	4	4	1	0	0	0	0	0	0	0	1	13505	726	26	2		2	RNF216	7	5792588	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	224465	5792588	153346075	1748	3714											
RSPH10B2	728194	broad.mit.edu	37	chr7	6836263	6836263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtgggtcaataatacgtaCgtcttctttgtgaacacgct	10	13	9	9	4	3	1	1	1	2	0	3	1	3	1	0	1	3	2	0	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:6836263C>T	uc011jxc.1	+	11	1434	c.1163C>T	c.(1162-1164)ACG>ATG	p.T388M	RSPH10B2_uc003sqw.1_Silent_p.Y766Y|RSPH10B2_uc010ktk.1_Silent_p.Y766Y|RSPH10B2_uc010ktl.1_RNA			B2RC85	R10B2_HUMAN	SubName: Full=cDNA FLJ54347;	Error:Variant_position_missing_in_B2RC85_after_alignment										ovary(1)|pancreas(1)|skin(1)	3						ATAATACGTACGTCTTCTTTG	0.438													21	294					0	0	0.008871	0	0		T	6836263	T	T	6836263	3	4	4	1	0	0	0	0	1	0	0	0	13729	547	19	1	5057	1	RSPH10B2	7	6836263	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1043675	6836263	152302400	1749	3715											
MIOS	54468	broad.mit.edu	37	chr7	7636049	7636049	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaccacttcctcgatgtgcGctttgtctcattaatatggg	9	14	8	10	2	1	0	1	0	1	0	4	1	2	0	2	1	2	1	2	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:7636049G>A	uc003srf.2	+	11	2666	c.2358G>A	c.(2356-2358)GCG>GCA	p.A786A	MIOS_uc003srg.2_Silent_p.A321A|MIOS_uc010ktq.2_Silent_p.A181A	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	786											0						CTCGATGTGCGCTTTGTCTCA	0.393													10	146					0	0	0.000978	0	0		A	7636049	A	A	7636049	2	1	4	1	0	0	0	0	0	0	0	1	9607	1074	38	1		1	MIOS	7	7636049	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	799786	7636049	151502614	1750	3716											
THSD7A	221981	broad.mit.edu	37	chr7	11464343	11464343	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacttttcgggtttgcacGccctctccacagttctcccg	4	13	7	17	3	3	0	1	0	2	0	6	0	3	0	3	1	1	3	3	1	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:11464343G>A	uc003ssf.3	-	15	3615	c.3363C>T	c.(3361-3363)GGC>GGT	p.G1121G		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1121	TSP type-1 11.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		GGGTTTGCACGCCCTCTCCAC	0.483										HNSCC(18;0.044)			42	208					0	0	0.002852	0	0		A	11464343	A	A	11464343	2	1	4	1	0	0	0	0	0	0	0	1	15904	1074	38	1		1	THSD7A	7	11464343	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3828294	11464343	147674320	1751	3717											
TMEM106B	54664	broad.mit.edu	37	chr7	12263863	12263863	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttttcagaaagctgtatgTgatggcttctgtgtttgtct	6	18	10	7	0	3	2	1	1	2	1	3	2	3	2	1	1	1	4	1	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:12263863T>C	uc011jxk.1	+	5	693	c.293T>C	c.(292-294)GTG>GCG	p.V98A	TMEM106B_uc003ssh.2_Missense_Mutation_p.V98A	NM_018374	NP_060844	Q9NUM4	T106B_HUMAN	transmembrane protein 106B	98	Helical; (Potential).					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (126;0.185)		AAGCTGTATGTGATGGCTTCT	0.383													12	212					0	0	0.00499	0	0		C	12263863	C	C	12263863	3	2	4	1	0	0	0	0	1	0	0	0	16046	1696	59	3	303	3	TMEM106B	7	12263863	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	799520	12263863	146874800	1752	3718											
ARL4A	10124	broad.mit.edu	37	chr7	12727924	12727924	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctatcctgtccaacctGccttcatttcagtctttcca	7	16	3	15	0	4	0	2	0	2	0	7	0	7	0	5	0	2	0	5	0	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:12727924G>A	uc003ssp.2	+	2	322	c.45G>A	c.(43-45)CTG>CTA	p.L15L	ARL4A_uc003ssq.2_Silent_p.L15L|ARL4A_uc003ssr.2_Silent_p.L15L|ARL4A_uc003sss.2_Silent_p.L15L	NM_001037164	NP_001032241	P40617	ARL4A_HUMAN	ADP-ribosylation factor-like 4A	15					small GTPase mediated signal transduction	cytoplasm|nucleolus|plasma membrane	GTP binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.176)		TGTCCAACCTGCCTTCATTTC	0.413													51	86					0	0	0.00361	0	0		A	12727924	A	A	12727924	2	1	4	1	0	0	0	0	0	0	0	1	937	1306	46	2		2	ARL4A	7	12727924	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	464061	12727924	146410739	1753	3719											
ARL4A	10124	broad.mit.edu	37	chr7	12728427	12728427	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggacttgagaaactacAtgatatgatcattaaaagaa	19	9	9	4	0	1	4	1	3	0	2	1	7	1	6	0	2	2	0	0	2	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:12728427A>G	uc003ssp.2	+	2	825	c.548A>G	c.(547-549)CAT>CGT	p.H183R	ARL4A_uc003ssq.2_Missense_Mutation_p.H183R|ARL4A_uc003ssr.2_Missense_Mutation_p.H183R|ARL4A_uc003sss.2_Missense_Mutation_p.H183R	NM_001037164	NP_001032241	P40617	ARL4A_HUMAN	ADP-ribosylation factor-like 4A	183					small GTPase mediated signal transduction	cytoplasm|nucleolus|plasma membrane	GTP binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.176)		GAGAAACTACATGATATGATC	0.388													31	85					0	0	0.002445	0	0		G	12728427	G	G	12728427	3	3	4	1	0	0	0	0	1	0	0	0	937	217	8	3	550	3	ARL4A	7	12728427	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	503	12728427	146410236	1754	3720											
ETV1	2115	broad.mit.edu	37	chr7	13971341	13971341	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgtcggcaaaggaggaaaGgagttacagggttcagaaag	15	6	15	5	2	1	1	1	0	0	1	3	4	1	4	0	5	1	3	0	5	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:13971341G>T	uc011jxq.1	-	9	1327	c.588C>A	c.(586-588)TCC>TCA	p.S196S	ETV1_uc011jxn.1_Silent_p.S156S|ETV1_uc011jxo.1_Silent_p.S93S|ETV1_uc011jxp.1_Silent_p.S138S|ETV1_uc003ssw.3_Silent_p.S196S|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Silent_p.S178S|ETV1_uc011jxs.1_Silent_p.S178S|ETV1_uc010ktv.2_Silent_p.S65S	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	196					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						AAGGAGGAAAGGAGTTACAGG	0.483			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								6	50					2.0095e-06	2.12941e-06	0.001984	1	0		T	13971341	T	T	13971341	2	4	4	1	0	0	0	0	0	0	0	1	5285	987	35	5		5	ETV1	7	13971341	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1242914	13971341	145167322	1755	3721											
DGKB	1607	broad.mit.edu	37	chr7	14653016	14653016	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaaaaactaaaagtgggTgagtaccaggcacaggagtg	16	6	12	7	0	1	1	1	1	0	0	1	2	1	2	1	3	2	2	1	3	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:14653016T>A	uc003ssz.2	-	15	1497	c.1310A>T	c.(1309-1311)CAC>CTC	p.H437L	DGKB_uc011jxt.1_Missense_Mutation_p.H418L|DGKB_uc003sta.2_Missense_Mutation_p.H437L|DGKB_uc011jxu.1_Missense_Mutation_p.H436L	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	437	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	TAAAAGTGGGTGAGTACCAGG	0.323													3	12					0	0	0.004672	0	0		A	14653016	A	A	14653016	3	1	4	1	0	0	0	0	1	0	0	0	4472	1696	59	5	1163	5	DGKB	7	14653016	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	681675	14653016	144485647	1756	3722											
DGKB	1607	broad.mit.edu	37	chr7	14758253	14758253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggattacttctggggaacacGtatttgcaggagaagtagtc	11	11	13	6	1	1	1	0	0	1	1	2	4	1	3	0	4	3	3	0	4	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:14758253G>A	uc003ssz.2	-	5	567	c.380C>T	c.(379-381)ACG>ATG	p.T127M	DGKB_uc011jxt.1_Missense_Mutation_p.T120M|DGKB_uc003sta.2_Missense_Mutation_p.T127M|DGKB_uc011jxu.1_Missense_Mutation_p.T127M|DGKB_uc011jxv.1_Missense_Mutation_p.T127M	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	127					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	TGGGGAACACGTATTTGCAGG	0.403													22	48					0	0	0.005443	0	0		A	14758253	A	A	14758253	3	1	4	1	0	0	0	0	1	0	0	0	4472	1145	40	1	2133	1	DGKB	7	14758253	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	105237	14758253	144380410	1757	3723											
TMEM195	392636	broad.mit.edu	37	chr7	15240962	15240962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcttctaactccccagaaaGcaatgcaaatggaaaaaaca	18	7	6	10	0	1	1	0	0	1	1	2	2	2	2	2	1	5	3	2	1	7	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:15240962G>A	uc003stb.1	-	13	1456	c.1286C>T	c.(1285-1287)GCT>GTT	p.A429V		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	429	Helical; (Potential).				ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						TCCCCAGAAAGCAATGCAAAT	0.318													17	47					0	0	0.006122	0	0		A	15240962	A	A	15240962	3	1	4	1	0	0	0	0	1	0	0	0	16142	971	34	2	55	2	TMEM195	7	15240962	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	482709	15240962	143897701	1758	3724											
FERD3L	222894	broad.mit.edu	37	chr7	19184742	19184742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagggagacacctcttccgcGctcctcttcctcctcctctt	4	13	6	18	2	3	1	0	0	3	1	8	2	8	1	6	1	0	1	6	1	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:19184742G>A	uc003suo.1	-	1	303	c.244C>T	c.(244-246)CGC>TGC	p.R82C	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	82					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						cctcttccgcgctcctcttcc	0.358													8	18					0	0	0.006214	0	0		A	19184742	A	A	19184742	3	1	4	1	0	0	0	0	1	0	0	0	5830	1087	38	1	260	1	FERD3L	7	19184742	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3943780	19184742	139953921	1759	3725											
MACC1	346389	broad.mit.edu	37	chr7	20199427	20199427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggagcgggccagctggCgttgacttaaccaagccatt	9	7	14	11	2	0	1	0	1	0	0	0	2	0	2	3	4	4	3	3	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:20199427C>T	uc003sus.3	-	5	866	c.557G>A	c.(556-558)CGC>CAC	p.R186H	MACC1_uc010kug.2_Missense_Mutation_p.R186H	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	186					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						GGCCAGCTGGCGTTGACTTAA	0.478													6	31					0	0	0.001168	0	0		T	20199427	T	T	20199427	3	4	4	1	0	0	0	0	1	0	0	0	9161	768	27	1	2013	1	MACC1	7	20199427	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1014685	20199427	138939236	1760	3726											
DNAH11	8701	broad.mit.edu	37	chr7	21627789	21627789	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatacagagctggatgtgtgTaagcaactgtataatgaaca	16	10	10	5	0	0	2	0	1	0	1	0	3	0	3	0	1	5	4	0	1	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:21627789T>C	uc003svc.2	+	10	1849	c.1818T>C	c.(1816-1818)TGT>TGC	p.C606C		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	606	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TGGATGTGTGTAAGCAACTGT	0.373									Kartagener_syndrome				14	62					0	0	0.004007	0	0		C	21627789	C	C	21627789	2	2	4	1	0	0	0	0	0	0	0	1	4605	1644	57	3		3	DNAH11	7	21627789	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1428362	21627789	137510874	1761	3727											
DNAH11	8701	broad.mit.edu	37	chr7	21631027	21631027	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgagcgcacacagaaaaaCgtgaaggtgatccagcagac	15	5	12	9	2	0	5	0	3	0	2	1	5	1	5	1	1	3	3	1	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:21631027C>T	uc003svc.2	+	14	2530	c.2499C>T	c.(2497-2499)AAC>AAT	p.N833N		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	833	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CACAGAAAAACGTGAAGGTGA	0.602									Kartagener_syndrome				5	34					0	0	0.000602	0	0		T	21631027	T	T	21631027	2	4	4	1	0	0	0	0	0	0	0	1	4605	535	19	1		1	DNAH11	7	21631027	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3238	21631027	137507636	1762	3728											
CDCA7L	55536	broad.mit.edu	37	chr7	21943869	21943869	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtcgacactgatggcaCgtgttaccctacagggggaa	9	11	12	9	2	0	1	0	1	0	0	1	3	0	2	1	3	2	2	1	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:21943869C>T	uc010kuk.2	-	8	1176	c.1056G>A	c.(1054-1056)ACG>ACA	p.T352T	CDCA7L_uc003sve.3_Silent_p.T318T|CDCA7L_uc010kul.2_Silent_p.T306T|CDCA7L_uc003svf.3_Silent_p.T351T	NM_018719	NP_061189	Q96GN5	CDA7L_HUMAN	cell division cycle associated 7-like isoform 1	352					positive regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus					0						ACTGATGGCACGTGTTACCCT	0.537													12	31					0	0	0.001368	0	0		T	21943869	T	T	21943869	2	4	4	1	0	0	0	0	0	0	0	1	3094	523	19	1		1	CDCA7L	7	21943869	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	312842	21943869	137194794	1763	3729											
C7orf46	340277	broad.mit.edu	37	chr7	23731194	23731194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctggcggaaggctacatgCggttagatgacagtgggatt	9	9	16	7	3	0	2	0	1	0	1	0	4	0	4	0	5	2	3	0	5	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:23731194C>T	uc003swo.3	+	4	705	c.616C>T	c.(616-618)CGG>TGG	p.R206W	C7orf46_uc003swq.3_Missense_Mutation_p.R206W|C7orf46_uc003swr.3_Missense_Mutation_p.R148W|C7orf46_uc003swp.3_RNA|C7orf46_uc010kup.2_RNA	NM_199136	NP_954587	A4D161	CG046_HUMAN	hypothetical protein LOC340277 isoform 1	206											0						AGGCTACATGCGGTTAGATGA	0.428													9	90					0	0	0.000978	0	0		T	23731194	T	T	23731194	3	4	4	1	0	0	0	0	1	0	0	0	2399	759	27	1	630	1	C7orf46	7	23731194	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1787325	23731194	135407469	1764	3730											
DFNA5	1687	broad.mit.edu	37	chr7	24789387	24789387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattcctggttgctttggCaaacattttgaaagctccag	12	13	8	8	0	0	1	0	1	0	0	2	1	2	1	2	2	3	4	2	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:24789387C>T	uc010kus.1	-	2	95	c.7G>A	c.(7-9)GCC>ACC	p.A3T	DFNA5_uc003swz.2_Intron|DFNA5_uc003sxa.1_Missense_Mutation_p.A3T|DFNA5_uc010kut.1_Intron|DFNA5_uc003sxb.2_Missense_Mutation_p.A3T|DFNA5_uc003sxc.2_Missense_Mutation_p.A3T	NM_001127453	NP_001120925	O60443	DFNA5_HUMAN	deafness, autosomal dominant 5 protein isoform	3					sensory perception of sound					ovary(1)	1						GTTGCTTTGGCAAACATTTTG	0.328													8	105					0	0	0.00308	0	0		T	24789387	T	T	24789387	3	4	4	1	0	0	0	0	1	0	0	0	4460	710	25	2	1519	2	DFNA5	7	24789387	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1058193	24789387	134349276	1765	3731											
OSBPL3	26031	broad.mit.edu	37	chr7	24839866	24839866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctaagttccaaataggtgCcgttgctcacccaagagtca	11	11	8	11	1	3	1	2	0	1	1	4	1	4	1	3	1	2	3	3	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:24839866C>T	uc003sxf.2	-	23	3005	c.2600G>A	c.(2599-2601)GGC>GAC	p.G867D	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Missense_Mutation_p.G831D|OSBPL3_uc003sxh.2_Missense_Mutation_p.G836D|OSBPL3_uc003sxi.2_Missense_Mutation_p.G800D	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	867					lipid transport		lipid binding|protein binding			skin(1)	1						CAAATAGGTGCCGTTGCTCAC	0.388													7	27					0	0	0.00308	0	0		T	24839866	T	T	24839866	3	4	4	1	0	0	0	0	1	0	0	0	11298	739	26	2	67	2	OSBPL3	7	24839866	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	50479	24839866	134298797	1766	3732											
HOXA1	3198	broad.mit.edu	37	chr7	27134298	27134298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgatctccaccctgcgggCgcgcgtcaggtacttgttga	6	9	13	13	5	2	1	1	1	1	0	3	2	2	1	2	2	3	2	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:27134298C>T	uc003sye.2	-	2	863	c.769G>A	c.(769-771)GCC>ACC	p.A257T	HOXA1_uc003syd.2_3'UTR|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	257	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3						ACCCTGCGGGCGCGCGTCAGG	0.567													17	71					0	0	0.007413	0	0		T	27134298	T	T	27134298	3	4	4	1	0	0	0	0	1	0	0	0	7304	768	27	1	242	1	HOXA1	7	27134298	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2294432	27134298	132004365	1767	3733											
HOXA1	3198	broad.mit.edu	37	chr7	27135154	27135154	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagagtaaacagcgggagcGcactgggggtacccaccact	11	4	13	13	2	0	1	0	0	0	1	0	2	0	2	3	3	4	3	3	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:27135154G>A	uc003sye.2	-	1	472	c.378C>T	c.(376-378)TGC>TGT	p.C126C	HOXA1_uc003syd.2_Intron|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	126						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3						CAGCGGGAGCGCACTGGGGGT	0.567													17	52					0	0	0.010504	0	0		A	27135154	A	A	27135154	2	1	4	1	0	0	0	0	0	0	0	1	7304	1079	38	1		1	HOXA1	7	27135154	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	856	27135154	132003509	1768	3734											
HOXA6	3203	broad.mit.edu	37	chr7	27185359	27185359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcctttttccacttcatgCggcggttctggaaccagatc	6	15	8	12	2	2	1	1	0	1	1	5	2	4	2	3	3	2	1	3	3	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:27185359C>T	uc003syo.1	-	2	620	c.620G>A	c.(619-621)CGC>CAC	p.R207H	HOXA5_uc003syn.1_5'Flank|uc003syp.1_5'Flank	NM_024014	NP_076919	P31267	HXA6_HUMAN	homeobox A6	207	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CCACTTCATGCGGCGGTTCTG	0.602													22	58					0	0	0.004289	0	0		T	27185359	T	T	27185359	3	4	4	1	0	0	0	0	1	0	0	0	7312	768	27	1	85	1	HOXA6	7	27185359	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	50205	27185359	131953304	1769	3735											
NEUROD6	63974	broad.mit.edu	37	chr7	31378581	31378581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcctgttcctctcgcgcGcgttcgcttcctgtctcctg	1	14	9	17	5	2	0	0	0	2	0	8	0	5	0	4	0	0	4	4	0	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:31378581G>A	uc003tch.2	-	2	655	c.302C>T	c.(301-303)GCG>GTG	p.A101V		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	101	Basic motif.				cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						CCTCTCGCGCGCGTTCGCTTC	0.463													34	114					0	0	0.004878	0	0		A	31378581	A	A	31378581	3	1	4	1	0	0	0	0	1	0	0	0	10370	1087	38	1	715	1	NEUROD6	7	31378581	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4193222	31378581	127760082	1770	3736											
CCDC129	223075	broad.mit.edu	37	chr7	31592727	31592727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaagtgcaccaaaagcgCgtgggctccgctggatgagt	9	7	14	11	3	0	2	0	2	0	0	1	3	1	3	3	2	2	3	3	2	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:31592727C>T	uc003tcj.1	+	2	1082	c.89C>T	c.(88-90)GCG>GTG	p.A30V	CCDC129_uc011kad.1_Missense_Mutation_p.A40V|CCDC129_uc003tci.1_Missense_Mutation_p.A29V|CCDC129_uc011kae.1_Missense_Mutation_p.A56V|CCDC129_uc003tck.1_5'Flank	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	30											0						ACCAAAAGCGCGTGGGCTCCG	0.537													6	15					0	0	0.004482	0	0		T	31592727	T	T	31592727	3	4	4	1	0	0	0	0	1	0	0	0	2767	768	27	1	91	1	CCDC129	7	31592727	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	214146	31592727	127545936	1771	3737											
BMPER	168667	broad.mit.edu	37	chr7	33945297	33945297	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgcctgggattacgtgctgCgtcttgctgctactcaattg	5	14	11	11	3	2	0	1	0	1	0	3	1	2	1	1	1	6	3	1	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:33945297C>T	uc011kap.1	+	1	186	c.72C>T	c.(70-72)TGC>TGT	p.C24C		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	24					blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						TTACGTGCTGCGTCTTGCTGC	0.662													4	25					0	0	0.001168	0	0		T	33945297	T	T	33945297	2	4	4	1	0	0	0	0	0	0	0	1	1469	776	27	1		1	BMPER	7	33945297	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2352570	33945297	125193366	1772	3738											
BMPER	168667	broad.mit.edu	37	chr7	34118628	34118628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacgacgcccgccggacacGctccttctcgtggaccaagt	8	6	11	16	6	1	0	0	0	1	0	3	4	2	2	4	2	1	1	4	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:34118628G>A	uc011kap.1	+	12	1352	c.1238G>A	c.(1237-1239)CGC>CAC	p.R413H		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	413	VWFD.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						CGCCGGACACGCTCCTTCTCG	0.627													5	62					0	0	0.001984	0	0		A	34118628	A	A	34118628	3	1	4	1	0	0	0	0	1	0	0	0	1469	1087	38	1	1284	1	BMPER	7	34118628	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	173331	34118628	125020035	1773	3739											
ANLN	54443	broad.mit.edu	37	chr7	36447449	36447449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctattagtcctctgaaaaCgggggtatcgaaaccaattg	12	11	9	9	2	1	1	0	1	1	0	4	2	3	1	3	2	2	1	3	2	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:36447449C>T	uc003tff.2	+	5	1184	c.980C>T	c.(979-981)ACG>ATG	p.T327M	ANLN_uc011kaz.1_Missense_Mutation_p.T239M|ANLN_uc003tfg.2_Missense_Mutation_p.T327M|ANLN_uc010kxe.2_Missense_Mutation_p.T327M	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	327	Interaction with F-actin.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						CCTCTGAAAACGGGGGTATCG	0.393													5	84					0	0	0.000602	0	0		T	36447449	T	T	36447449	3	4	4	1	0	0	0	0	1	0	0	0	694	536	19	1	998	1	ANLN	7	36447449	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2328821	36447449	122691214	1774	3740											
ELMO1	9844	broad.mit.edu	37	chr7	37253022	37253022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagaacatacagctggtgcGccatctcattgttgatggcc	9	11	11	10	1	1	2	1	1	1	1	2	2	1	2	2	2	4	3	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:37253022G>A	uc003tfk.1	-	12	1179	c.872C>T	c.(871-873)GCG>GTG	p.A291V	ELMO1_uc011kbc.1_Missense_Mutation_p.A195V|ELMO1_uc010kxg.1_Missense_Mutation_p.A291V	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	291					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						CAGCTGGTGCGCCATCTCATT	0.458													9	33					0	0	0.004482	0	0		A	37253022	A	A	37253022	3	1	4	1	0	0	0	0	1	0	0	0	5073	1087	38	1	1355	1	ELMO1	7	37253022	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	805573	37253022	121885641	1775	3741											
ELMO1	9844	broad.mit.edu	37	chr7	37264526	37264526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgatggtgatctcctgcGccactttctggtagaggtca	6	11	13	11	2	3	2	1	1	2	1	4	3	3	2	3	4	1	1	3	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:37264526G>A	uc003tfk.1	-	9	966	c.659C>T	c.(658-660)GCG>GTG	p.A220V	ELMO1_uc011kbc.1_Missense_Mutation_p.A124V|ELMO1_uc010kxg.1_Missense_Mutation_p.A220V	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	220					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						GATCTCCTGCGCCACTTTCTG	0.527													17	49					0	0	0.007413	0	0		A	37264526	A	A	37264526	3	1	4	1	0	0	0	0	1	0	0	0	5073	1087	38	1	1580	1	ELMO1	7	37264526	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11504	37264526	121874137	1776	3742											
GPR141	353345	broad.mit.edu	37	chr7	37780303	37780303	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccacatgtacctcacgtTcctattctatgtggtgatcc	8	14	6	13	1	2	1	1	1	1	0	5	1	5	1	4	1	1	2	4	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:37780303T>C	uc003tfm.1	+	1	308	c.308T>C	c.(307-309)TTC>TCC	p.F103S	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	103	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						TACCTCACGTTCCTATTCTAT	0.468													15	83					0	0	0.004007	0	0		C	37780303	C	C	37780303	3	2	4	1	0	0	0	0	1	0	0	0	6664	1783	62	3	310	3	GPR141	7	37780303	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	515777	37780303	121358360	1777	3743											
SFRP4	6424	broad.mit.edu	37	chr7	37947223	37947223	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggctgttttcttcttgTcctgaactgttctccgctgt	2	17	9	13	2	3	1	0	1	3	0	5	1	4	1	3	1	1	4	3	1	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:37947223T>C	uc003tfo.3	-	6	1285	c.899A>G	c.(898-900)GAC>GGC	p.D300G		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	300	NTR.				brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1						TTTCTTCTTGTCCTGAACTGT	0.488													13	46					0	0	0.00245	0	0		C	37947223	C	C	37947223	3	2	4	1	0	0	0	0	1	0	0	0	14188	1667	58	3	145	3	SFRP4	7	37947223	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	166920	37947223	121191440	1778	3744											
INHBA	3624	broad.mit.edu	37	chr7	41729601	41729601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcacactccaagccccGccgacgccggcgatgagggt	8	4	12	17	5	1	1	1	1	0	0	2	3	2	1	6	2	1	0	6	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:41729601G>A	uc003thq.2	-	2	1163	c.928C>T	c.(928-930)CGG>TGG	p.R310W	INHBA_uc003thr.2_Missense_Mutation_p.R310W	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	310					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						TCCAAGCCCCGCCGACGCCGG	0.463										TSP Lung(11;0.080)			24	35					0	0	0.008361	0	0		A	41729601	A	A	41729601	3	1	4	1	0	0	0	0	1	0	0	0	7757	1086	38	1	356	1	INHBA	7	41729601	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3782378	41729601	117409062	1779	3745											
GLI3	2737	broad.mit.edu	37	chr7	42085021	42085021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccatgtggatggcccccGtgccggcggtggcagctgag	5	8	16	12	3	0	1	0	1	0	0	1	2	1	2	4	5	2	2	4	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:42085021G>A	uc011kbh.1	-	6	879	c.788C>T	c.(787-789)ACG>ATG	p.T263M	GLI3_uc011kbg.1_Missense_Mutation_p.T204M	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	263					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GATGGCCCCCGTGCCGGCGGT	0.527									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				30	80					0	0	0.005524	0	0		A	42085021	A	A	42085021	3	1	4	1	0	0	0	0	1	0	0	0	6454	1145	40	1	3994	1	GLI3	7	42085021	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	355420	42085021	117053642	1780	3746											
C7orf25	79020	broad.mit.edu	37	chr7	42949911	42949911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcagggtgatctaacagagCgttgactgctactatgtctc	9	13	10	9	1	3	3	1	2	2	1	4	3	3	3	0	1	4	2	0	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:42949911C>T	uc003thw.2	-	2	1053	c.589G>A	c.(589-591)GCT>ACT	p.A197T	C7orf25_uc010kxq.2_Missense_Mutation_p.A197T|C7orf25_uc003thx.3_Missense_Mutation_p.A255T|C7orf25_uc010kxr.2_Missense_Mutation_p.A255T	NM_024054	NP_076959	Q9BPX7	CG025_HUMAN	hypothetical protein LOC79020 b	197										skin(1)	1						TCTAACAGAGCGTTGACTGCT	0.458													5	69					0	0	0.000602	0	0		T	42949911	T	T	42949911	3	4	4	1	0	0	0	0	1	0	0	0	2383	768	27	1	680	1	C7orf25	7	42949911	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	864890	42949911	116188752	1781	3747											
PSMA2	5683	broad.mit.edu	37	chr7	42967003	42967003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaattcccacggacggggCtcctccagctacagcagcca	9	8	9	15	2	0	0	0	0	0	0	3	1	3	1	4	3	4	3	4	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:42967003C>T	uc003thy.2	-	2	145	c.97G>A	c.(97-99)GCC>ACC	p.A33T	C7orf25_uc010kxr.2_5'UTR|PSMA2_uc010kxt.2_5'UTR|PSMA2_uc003thz.1_Intron	NM_002787	NP_002778	P25787	PSA2_HUMAN	proteasome subunit alpha type 2	33					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|response to virus|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	protein binding|threonine-type endopeptidase activity			large_intestine(2)|ovary(1)	3						ACGGACGGGGCTCCTCCAGCT	0.358													22	30					0	0	0.010504	0	0		T	42967003	T	T	42967003	3	4	4	1	0	0	0	0	1	0	0	0	12689	797	28	2	635	2	PSMA2	7	42967003	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	17092	42967003	116171660	1782	3748											
HECW1	23072	broad.mit.edu	37	chr7	43546741	43546741	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttctctctgcaggtttaCagagagccagtgcaagagcc	9	10	11	11	0	2	2	0	0	2	2	3	3	2	2	2	1	6	4	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:43546741C>T	uc003tid.1	+	22	4242	c.3637C>T	c.(3637-3639)CAG>TAG	p.Q1213*	HECW1_uc011kbi.1_Nonsense_Mutation_p.Q1179*	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1213					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						TGCAGGTTTACAGAGAGCCAG	0.363													5	74					0	0	0.001168	0	0		T	43546741	T	T	43546741	4	4	4	1	0	0	0	0	0	1	0	0	7058	479	17	4	3715	4	HECW1	7	43546741	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	579738	43546741	115591922	1783	3749											
HECW1	23072	broad.mit.edu	37	chr7	43580834	43580834	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttgacgctttcttcacgagGcccttctacaaggcactcct	7	12	7	15	2	3	1	1	1	2	0	4	2	4	1	2	2	1	2	2	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:43580834G>T	uc003tid.1	+	25	4697	c.4092G>T	c.(4090-4092)AGG>AGT	p.R1364S	HECW1_uc011kbi.1_Missense_Mutation_p.R1330S	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1364	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						TCTTCACGAGGCCCTTCTACA	0.552													17	70					0.00498961	0.00517393	0.00499	1	0		T	43580834	T	T	43580834	3	4	4	1	0	0	0	0	1	0	0	0	7058	1194	42	5	4182	5	HECW1	7	43580834	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	34093	43580834	115557829	1784	3750											
HECW1	23072	broad.mit.edu	37	chr7	43594297	43594297	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgtcacgggaacatccagCgtgccctacgaaggcttcgc	8	9	11	13	4	1	0	1	0	0	0	3	2	2	1	2	2	4	1	2	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:43594297C>T	uc003tid.1	+	29	5222	c.4617C>T	c.(4615-4617)AGC>AGT	p.S1539S	HECW1_uc011kbi.1_Silent_p.S1505S	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1539	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity	p.S1518R(1)		ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GAACATCCAGCGTGCCCTACG	0.557													4	14					0	0	0.009096	0	0		T	43594297	T	T	43594297	2	4	4	1	0	0	0	0	0	0	0	1	7058	767	27	1		1	HECW1	7	43594297	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	13463	43594297	115544366	1785	3751											
AEBP1	165	broad.mit.edu	37	chr7	44147270	44147270	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccacactggactacaatgAccagatcgagagggaggact	14	5	11	11	1	0	3	0	1	0	2	1	7	0	6	2	3	1	0	2	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:44147270A>G	uc003tkb.2	+	4	1015	c.710A>G	c.(709-711)GAC>GGC	p.D237G		NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	237	Pro-rich.				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GACTACAATGACCAGATCGAG	0.637													3	36					0	0	0.000602	0	0		G	44147270	G	G	44147270	3	3	4	1	0	0	0	0	1	0	0	0	349	275	10	3	724	3	AEBP1	7	44147270	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	552973	44147270	114991393	1786	3752											
NUDCD3	23386	broad.mit.edu	37	chr7	44432048	44432048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttctccctccaggatggCgttccaccaatactcgccca	7	10	6	18	2	2	0	0	0	2	0	6	1	4	1	5	2	1	1	5	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:44432048C>T	uc003tkz.2	-	5	1009	c.823G>A	c.(823-825)GCC>ACC	p.A275T	NUDCD3_uc010kye.2_RNA	NM_015332	NP_056147	Q8IVD9	NUDC3_HUMAN	NudC domain containing 3	275	CS.										0						TCCAGGATGGCGTTCCACCAA	0.587													7	110					0	0	0.004482	0	0		T	44432048	T	T	44432048	3	4	4	1	0	0	0	0	1	0	0	0	10743	768	27	1	270	1	NUDCD3	7	44432048	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	284778	44432048	114706615	1787	3753											
DDX56	54606	broad.mit.edu	37	chr7	44611252	44611252	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatacagcaggaggaatttGtcttcctcagtctcacagac	11	10	9	11	0	3	1	2	0	2	1	5	3	4	3	1	2	2	2	1	2	2	3	rs150750277		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:44611252G>A	uc003tlg.2	-	6	1372	c.729C>T	c.(727-729)GAC>GAT	p.D243D	DDX56_uc003tle.2_RNA|DDX56_uc003tlf.2_Silent_p.D179D|DDX56_uc003tlh.2_RNA|DDX56_uc010kyg.2_Silent_p.D243D|DDX56_uc010kyh.1_RNA	NM_019082	NP_061955	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	243	Helicase C-terminal.				rRNA processing	nucleolus	ATP binding|ATP-dependent RNA helicase activity|identical protein binding|RNA binding			upper_aerodigestive_tract(1)	1						GGAGGAATTTGTCTTCCTCAG	0.527													18	57					0	0	0.002299	0	0		A	44611252	A	A	44611252	2	1	4	1	0	0	0	0	0	0	0	1	4377	1368	48	4		4	DDX56	7	44611252	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	179204	44611252	114527411	1788	3754											
OGDH	4967	broad.mit.edu	37	chr7	44714124	44714124	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaagtctagtgagaatggCgtggactacgtgatcatggg	11	9	15	6	2	2	2	1	2	1	1	2	5	2	3	0	3	1	0	0	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:44714124C>T	uc003tln.2	+	7	1012	c.903C>T	c.(901-903)GGC>GGT	p.G301G	OGDH_uc003tlm.2_Silent_p.G301G|OGDH_uc011kbx.1_Silent_p.G297G|OGDH_uc011kby.1_Silent_p.G151G|OGDH_uc003tlp.2_Silent_p.G312G|OGDH_uc011kbz.1_Silent_p.G96G|OGDH_uc003tlo.1_Silent_p.G134G	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	301					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	GTGAGAATGGCGTGGACTACG	0.562													5	63					0	0	0.001168	0	0		T	44714124	T	T	44714124	2	4	4	1	0	0	0	0	0	0	0	1	10858	755	27	1		1	OGDH	7	44714124	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	102872	44714124	114424539	1789	3755											
ZMIZ2	83637	broad.mit.edu	37	chr7	44796067	44796067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgccttggcaacaaagcGccactcagccggctggatcg	8	7	12	14	3	1	0	1	0	0	0	2	1	1	1	3	3	4	2	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:44796067G>A	uc003tlr.2	+	3	217	c.94G>A	c.(94-96)GCC>ACC	p.A32T	ZMIZ2_uc003tlq.2_Missense_Mutation_p.A32T|ZMIZ2_uc003tls.2_Missense_Mutation_p.A32T	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	32					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						GCAACAAAGCGCCACTCAGCC	0.597													16	31					0	0	0.008871	0	0		A	44796067	A	A	44796067	3	1	4	1	0	0	0	0	1	0	0	0	17722	1087	38	1	100	1	ZMIZ2	7	44796067	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	81943	44796067	114342596	1790	3756											
MYO1G	64005	broad.mit.edu	37	chr7	45010231	45010231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagccatagatgtccagcaCgccaatgactgtgtccttgc	10	9	10	12	1	0	2	0	1	0	1	2	3	2	2	4	0	3	1	4	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:45010231C>T	uc003tmh.2	-	9	1321	c.1177G>A	c.(1177-1179)GTG>ATG	p.V393M	MYO1G_uc003tmf.2_5'Flank|MYO1G_uc003tmg.2_Missense_Mutation_p.V155M|MYO1G_uc010kym.2_Missense_Mutation_p.V278M|MYO1G_uc003tmi.1_Missense_Mutation_p.V305M|MYO1G_uc003tmj.2_Missense_Mutation_p.V155M	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	393	Myosin head-like.					myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						ATGTCCAGCACGCCAATGACT	0.587													20	37					0	0	0.00333	0	0		T	45010231	T	T	45010231	3	4	4	1	0	0	0	0	1	0	0	0	10092	536	19	1	1935	1	MYO1G	7	45010231	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	214164	45010231	114128432	1791	3757											
RAMP3	10268	broad.mit.edu	37	chr7	45222982	45222982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctggcctggtggtgtggCgcagcaaacgcaccgacacg	7	6	16	12	4	0	0	0	0	0	0	0	1	0	0	2	5	2	4	2	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:45222982C>T	uc003tnb.2	+	3	479	c.418C>T	c.(418-420)CGC>TGC	p.R140C	RAMP3_uc003tnc.2_Missense_Mutation_p.R108C	NM_005856	NP_005847	O60896	RAMP3_HUMAN	receptor activity modifying protein 3 precursor	140	Cytoplasmic (Potential).				intracellular protein transport|receptor-mediated endocytosis|regulation of G-protein coupled receptor protein signaling pathway	integral to plasma membrane|lysosome	protein transporter activity				0					Pramlintide(DB01278)	GGTGGTGTGGCGCAGCAAACG	0.627													12	59					0	0	0.001855	0	0		T	45222982	T	T	45222982	3	4	4	1	0	0	0	0	1	0	0	0	13048	768	27	1	428	1	RAMP3	7	45222982	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	212751	45222982	113915681	1792	3758											
ADCY1	107	broad.mit.edu	37	chr7	45662269	45662269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggtttcacgggcttggCatcccagtgcacagcccagg	6	8	14	13	2	1	0	1	0	0	0	2	0	2	0	2	4	2	4	2	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:45662269C>T	uc003tne.3	+	4	965	c.947C>T	c.(946-948)GCA>GTA	p.A316V	ADCY1_uc003tnd.2_Missense_Mutation_p.A91V	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	316	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	ACGGGCTTGGCATCCCAGTGC	0.502													11	26					0	0	0.000978	0	0		T	45662269	T	T	45662269	3	4	4	1	0	0	0	0	1	0	0	0	292	710	25	2	961	2	ADCY1	7	45662269	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	439287	45662269	113476394	1793	3759											
ADCY1	107	broad.mit.edu	37	chr7	45717589	45717589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccgcctcttagaagcccGccagacagagctggagatgg	10	5	13	13	2	1	4	0	0	1	4	1	5	1	4	4	2	3	1	4	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:45717589G>A	uc003tne.3	+	9	1745	c.1727G>A	c.(1726-1728)CGC>CAC	p.R576H		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	576	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TTAGAAGCCCGCCAGACAGAG	0.517													9	66					0	0	0.001368	0	0		A	45717589	A	A	45717589	3	1	4	1	0	0	0	0	1	0	0	0	292	1087	38	1	1761	1	ADCY1	7	45717589	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	55320	45717589	113421074	1794	3760											
TNS3	64759	broad.mit.edu	37	chr7	47409180	47409180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttcttcctcaccttcgCgtaaaggctgccatcgacag	7	12	8	14	3	2	0	1	0	1	0	5	1	3	0	3	1	1	3	3	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:47409180C>T	uc003tnv.2	-	17	1430	c.1063G>A	c.(1063-1065)GCG>ACG	p.A355T	TNS3_uc003tnw.2_Missense_Mutation_p.A355T	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	355						focal adhesion	protein binding			ovary(4)	4						CTCACCTTCGCGTAAAGGCTG	0.607													13	22					0	0	0.003163	0	0		T	47409180	T	T	47409180	3	4	4	1	0	0	0	0	1	0	0	0	16369	768	27	1	3334	1	TNS3	7	47409180	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1691591	47409180	111729483	1795	3761											
PKD1L1	168507	broad.mit.edu	37	chr7	47842892	47842892	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaatgccaggaagatagacGcattttaatgtgaagaggaa	16	9	12	4	1	0	5	0	2	0	3	0	7	0	7	1	2	1	1	1	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:47842892G>A	uc003tny.1	-	53	7878	c.7878C>T	c.(7876-7878)TGC>TGT	p.C2626C	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2626	Helical; (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GAAGATAGACGCATTTTAATG	0.502													13	49					0	0	0.001855	0	0		A	47842892	A	A	47842892	2	1	4	1	0	0	0	0	0	0	0	1	11983	1079	38	1		1	PKD1L1	7	47842892	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	433712	47842892	111295771	1796	3762											
PKD1L1	168507	broad.mit.edu	37	chr7	47971625	47971625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accactgctccaggcccttgCgattataatgaaaggtttgt	10	12	9	10	1	0	1	0	1	0	0	1	2	1	1	3	2	2	2	3	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:47971625C>T	uc003tny.1	-	5	427	c.427G>A	c.(427-429)GCA>ACA	p.A143T		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	143	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CAGGCCCTTGCGATTATAATG	0.498													5	115					0	0	0.000602	0	0		T	47971625	T	T	47971625	3	4	4	1	0	0	0	0	1	0	0	0	11983	768	27	1	8334	1	PKD1L1	7	47971625	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	128733	47971625	111167038	1797	3763											
ABCA13	154664	broad.mit.edu	37	chr7	48280633	48280633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgacagcttgtcagcagatgGcccaaaagataatcatacat	15	9	8	9	0	2	3	2	1	0	2	2	3	2	3	1	1	3	2	1	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:48280633G>A	uc003toq.2	+	10	1257	c.1232G>A	c.(1231-1233)GGC>GAC	p.G411D	ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	411					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TCAGCAGATGGCCCAAAAGAT	0.443													30	109					0	0	0.004289	0	0		A	48280633	A	A	48280633	3	1	4	1	0	0	0	0	1	0	0	0	31	1203	42	2	1099	2	ABCA13	7	48280633	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	309008	48280633	110858030	1798	3764											
ABCA13	154664	broad.mit.edu	37	chr7	48314637	48314637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatcaccaaggaagacttcGcaattgtgataaaaattctt	16	12	6	7	1	2	2	1	1	1	1	3	3	2	3	1	1	0	1	1	1	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:48314637G>A	uc003toq.2	+	17	5399	c.5374G>A	c.(5374-5376)GCA>ACA	p.A1792T	ABCA13_uc010kyr.2_Missense_Mutation_p.A1295T	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1792					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GGAAGACTTCGCAATTGTGAT	0.388													4	41					0	0	0.000602	0	0		A	48314637	A	A	48314637	3	1	4	1	0	0	0	0	1	0	0	0	31	1087	38	1	5269	1	ABCA13	7	48314637	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	34004	48314637	110824026	1799	3765											
ABCA13	154664	broad.mit.edu	37	chr7	48318199	48318199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattccctctaagaaacagaGcaacattagaaattactaag	18	9	5	9	0	1	3	0	0	1	3	2	3	2	3	1	0	4	1	1	0	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:48318199G>A	uc003toq.2	+	18	7433	c.7408G>A	c.(7408-7410)GCA>ACA	p.A2470T	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2470					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AAGAAACAGAGCAACATTAGA	0.373													46	140					0	0	0.00361	0	0		A	48318199	A	A	48318199	3	1	4	1	0	0	0	0	1	0	0	0	31	971	34	2	7307	2	ABCA13	7	48318199	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3562	48318199	110820464	1800	3766											
ABCA13	154664	broad.mit.edu	37	chr7	48413962	48413962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgccttctttcgacaaccGcctttggacaaggggtattt	8	13	10	10	2	1	0	0	0	1	0	2	2	1	1	3	3	2	1	3	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:48413962G>A	uc003toq.2	+	34	11177	c.11152G>A	c.(11152-11154)GCC>ACC	p.A3718T	ABCA13_uc010kys.1_Missense_Mutation_p.A792T|ABCA13_uc003tos.1_Missense_Mutation_p.A544T|ABCA13_uc010kyt.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3718	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TTCGACAACCGCCTTTGGACA	0.418													8	13					0	0	0.004482	0	0		A	48413962	A	A	48413962	3	1	4	1	0	0	0	0	1	0	0	0	31	1087	38	1	11115	1	ABCA13	7	48413962	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	95763	48413962	110724701	1801	3767											
ABCA13	154664	broad.mit.edu	37	chr7	48450180	48450180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcgctgagtgaccgcgtggCcgtcctccagcatgggaggc	6	6	16	13	4	0	2	0	2	0	0	2	3	2	3	4	3	2	2	4	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:48450180C>T	uc003toq.2	+	40	12159	c.12134C>T	c.(12133-12135)GCC>GTC	p.A4045V	ABCA13_uc010kys.1_Missense_Mutation_p.A1119V|ABCA13_uc010kyt.1_RNA	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4045	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GACCGCGTGGCCGTCCTCCAG	0.622													9	84					0	0	0.001368	0	0		T	48450180	T	T	48450180	3	4	4	1	0	0	0	0	1	0	0	0	31	739	26	2	12121	2	ABCA13	7	48450180	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	36218	48450180	110688483	1802	3768											
FIGNL1	63979	broad.mit.edu	37	chr7	50514928	50514928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatatgccagatgtaattgCgaagtaattcttctgccatt	12	14	7	8	1	2	1	0	0	2	1	2	2	2	1	2	0	3	2	2	0	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:50514928C>T	uc003tpc.2	-	4	435	c.58G>A	c.(58-60)GCA>ACA	p.A20T	FIGNL1_uc003tpb.2_5'UTR|FIGNL1_uc003tpd.2_Missense_Mutation_p.A20T|FIGNL1_uc003tpe.2_Missense_Mutation_p.A20T|FIGNL1_uc010kyy.2_Missense_Mutation_p.A20T	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	20					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)				GATGTAATTGCGAAGTAATTC	0.423													5	36					0	0	0.000602	0	0		T	50514928	T	T	50514928	3	4	4	1	0	0	0	0	1	0	0	0	5906	768	27	1	1970	1	FIGNL1	7	50514928	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2064748	50514928	108623735	1803	3769											
DDC	1644	broad.mit.edu	37	chr7	50611704	50611704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtcagggtagacctggCgtccctcaatgccttccatg	7	9	10	15	2	2	1	2	0	0	1	4	1	4	1	5	2	1	1	5	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:50611704C>T	uc003tpf.3	-	2	166	c.80G>A	c.(79-81)CGC>CAC	p.R27H	DDC_uc010kza.2_Missense_Mutation_p.R27H|DDC_uc003tpg.3_Missense_Mutation_p.R27H	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	27					cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	GTAGACCTGGCGTCCCTCAAT	0.582													30	87					0	0	0.009535	0	0		T	50611704	T	T	50611704	3	4	4	1	0	0	0	0	1	0	0	0	4328	768	27	1	1414	1	DDC	7	50611704	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	96776	50611704	108526959	1804	3770											
GRB10	2887	broad.mit.edu	37	chr7	50771543	50771543	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattcgcaagtcggtcagaCtgtgcggggagtcctggtcc	6	10	15	10	3	1	2	1	1	0	1	5	3	3	3	2	4	1	1	2	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:50771543C>T	uc003tpi.2	-	2	145	c.114G>A	c.(112-114)CAG>CAA	p.Q38Q	GRB10_uc003tph.3_5'UTR|GRB10_uc003tpj.2_Silent_p.Q38Q|GRB10_uc003tpk.2_Silent_p.Q38Q|GRB10_uc010kzb.2_5'UTR|GRB10_uc003tpl.2_Silent_p.Q32Q|GRB10_uc003tpm.2_5'UTR|GRB10_uc003tpn.2_5'UTR	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	38					insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					GTCGGTCAGACTGTGCGGGGA	0.512									Russell-Silver_syndrome				6	59					0	0	0.001984	0	0		T	50771543	T	T	50771543	2	4	4	1	0	0	0	0	0	0	0	1	6772	564	20	4		4	GRB10	7	50771543	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	159839	50771543	108367120	1805	3771											
EGFR	1956	broad.mit.edu	37	chr7	55214312	55214312	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcagaaatcctgcatggCgccgtgcggttcagcaacaa	10	6	11	14	4	1	1	1	0	0	1	2	1	2	1	3	2	4	4	3	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:55214312C>T	uc003tqk.2	+	4	684	c.438C>T	c.(436-438)GGC>GGT	p.G146G	EGFR_uc003tqh.2_Silent_p.G146G|EGFR_uc003tqi.2_Silent_p.G146G|EGFR_uc003tqj.2_Silent_p.G146G|EGFR_uc010kzg.1_Intron|EGFR_uc011kco.1_Silent_p.G93G	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	146	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	TCCTGCATGGCGCCGTGCGGT	0.527		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			4	47					0	0	0.009096	0	0		T	55214312	T	T	55214312	2	4	4	1	0	0	0	0	0	0	0	1	4973	755	27	1		1	EGFR	7	55214312	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4442769	55214312	103924351	1806	3772											
EGFR	1956	broad.mit.edu	37	chr7	55220348	55220348	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcacaggcccccgggagagCgactgcctggtaagatgccc	8	5	14	14	2	0	2	0	0	0	2	0	4	0	2	4	3	4	2	4	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:55220348C>T	uc003tqk.2	+	6	984	c.738C>T	c.(736-738)AGC>AGT	p.S246S	EGFR_uc003tqh.2_Silent_p.S246S|EGFR_uc003tqi.2_Silent_p.S246S|EGFR_uc003tqj.2_Silent_p.S246S|EGFR_uc010kzg.1_Silent_p.S201S|EGFR_uc011kco.1_Silent_p.S193S|EGFR_uc003tql.1_RNA	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	246	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	CCCGGGAGAGCGACTGCCTGG	0.677		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			11	36					0	0	0.00245	0	0		T	55220348	T	T	55220348	2	4	4	1	0	0	0	0	0	0	0	1	4973	767	27	1		1	EGFR	7	55220348	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6036	55220348	103918315	1807	3773											
EGFR	1956	broad.mit.edu	37	chr7	55221829	55221829	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacagctttggtgccacctgCgtgaagaagtgtccccgtga	8	10	12	11	2	0	3	0	2	0	1	1	3	1	3	4	1	4	1	4	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:55221829C>T	uc003tqk.2	+	7	1119	c.873C>T	c.(871-873)TGC>TGT	p.C291C	EGFR_uc003tqh.2_Silent_p.C291C|EGFR_uc003tqi.2_Silent_p.C291C|EGFR_uc003tqj.2_Silent_p.C291C|EGFR_uc010kzg.1_Silent_p.C246C|EGFR_uc011kco.1_Silent_p.C238C|EGFR_uc011kcp.1_5'Flank|EGFR_uc011kcq.1_5'Flank	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	291	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	GTGCCACCTGCGTGAAGAAGT	0.592		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			6	61					0	0	0.001168	0	0		T	55221829	T	T	55221829	2	4	4	1	0	0	0	0	0	0	0	1	4973	776	27	1		1	EGFR	7	55221829	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1481	55221829	103916834	1808	3774											
EGFR	1956	broad.mit.edu	37	chr7	55242511	55242511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagccaacaaggaaatcctcGatgtgagtttctgctttgct	11	12	9	9	1	1	1	0	1	1	0	3	3	2	2	2	1	4	3	2	1	4	2	rs121913418		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:55242511G>A	uc003tqk.2	+	19	2527	c.2281G>A	c.(2281-2283)GAT>AAT	p.D761N	EGFR_uc010kzg.1_Missense_Mutation_p.D716N|EGFR_uc011kco.1_Missense_Mutation_p.D708N	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	761	Cytoplasmic (Potential).|Protein kinase.				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.D761Y(5)|p.D761_E762insEAFQ(3)|p.D761G(2)|p.S752_V769del(1)|p.D761N(1)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	GGAAATCCTCGATGTGAGTTT	0.498		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			4	61					0	0	0.000602	0	0		A	55242511	A	A	55242511	3	1	4	1	0	0	0	0	1	0	0	0	4973	1058	37	1	2619	1	EGFR	7	55242511	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	20682	55242511	103896152	1809	3775											
LANCL2	55915	broad.mit.edu	37	chr7	55479775	55479775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccacatgctcatgcaggCgtacaaggtcagtgcttccg	9	9	10	13	2	2	0	2	0	0	0	4	0	4	0	2	2	4	4	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:55479775C>T	uc003tqp.2	+	6	1579	c.1001C>T	c.(1000-1002)GCG>GTG	p.A334V		NM_018697	NP_061167	Q9NS86	LANC2_HUMAN	LanC lantibiotic synthetase component C-like 2	334					negative regulation of transcription, DNA-dependent|positive regulation of abscisic acid mediated signaling pathway	cortical actin cytoskeleton|cytosol|nucleus|plasma membrane	ATP binding|catalytic activity|GTP binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding			ovary(1)|skin(1)	2	Breast(14;0.0379)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00128)|Epithelial(13;0.0706)			CTCATGCAGGCGTACAAGGTC	0.577													13	30					0	0	0.00245	0	0		T	55479775	T	T	55479775	3	4	4	1	0	0	0	0	1	0	0	0	8637	768	27	1	1023	1	LANCL2	7	55479775	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	237264	55479775	103658888	1810	3776											
CCT6A	908	broad.mit.edu	37	chr7	56122107	56122107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatagcaaaggtagcaacaGcccaggatgatataactggt	16	8	10	7	0	0	1	0	1	0	0	0	2	0	2	1	3	5	3	1	3	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:56122107G>A	uc003trl.1	+	3	411	c.247G>A	c.(247-249)GCC>ACC	p.A83T	PSPH_uc003trh.2_5'Flank|PSPH_uc003tri.2_5'Flank|PSPH_uc003trj.2_Intron|PSPH_uc003trk.1_5'Flank|CCT6A_uc003trm.1_Intron|CCT6A_uc011kcu.1_Missense_Mutation_p.A52T	NM_001762	NP_001753	P40227	TCPZ_HUMAN	chaperonin containing TCP1, subunit 6A isoform	83					'de novo' posttranslational protein folding	cytosol	ATP binding|unfolded protein binding			upper_aerodigestive_tract(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			GGTAGCAACAGCCCAGGATGA	0.383													26	92					0	0	0.00632	0	0		A	56122107	A	A	56122107	3	1	4	1	0	0	0	0	1	0	0	0	2960	971	34	2	257	2	CCT6A	7	56122107	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	642332	56122107	103016556	1811	3777											
GUSB	2990	broad.mit.edu	37	chr7	65439577	65439577	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccatagcggtcacacatctGcatcacttcctctgcatagg	9	10	7	15	1	4	0	2	0	2	0	5	0	5	0	2	2	3	2	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:65439577G>A	uc003tun.2	-	7	1256	c.1180C>T	c.(1180-1182)CAG>TAG	p.Q394*	GUSB_uc011kdt.1_Nonsense_Mutation_p.Q248*	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	394					glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0						TCACACATCTGCATCACTTCC	0.612													11	40					0	0	0.000978	0	0		A	65439577	A	A	65439577	4	1	4	1	0	0	0	0	0	1	0	0	6918	1328	46	2	799	2	GUSB	7	65439577	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	9317470	65439577	93699086	1812	3778											
AUTS2	26053	broad.mit.edu	37	chr7	70229815	70229816	+	Frame_Shift_Ins	INS	-	C	C																															cacccctctgcctccccgttINSccccctctccctgcccaacc																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:70229815_70229816insC	uc003tvw.3	+	8	2035_2036	c.1292_1293insC	c.(1291-1293)TTCfs	p.F431fs	AUTS2_uc003tvx.3_Frame_Shift_Ins_p.F431fs|AUTS2_uc011keg.1_5'Flank	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	431										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		gcctccccgttccccctctccc	0.163													7	8	---	---	---	---						.	C	70229816	C	C	70229815	7	5	4	1	0	1	1	0	0	0	0	0	1226	1783	62	0	1467	0	AUTS2	7	70229815	Frame_Shift_Ins	INS	-	TCGA-BR-4184-01A-01D-1126-08	4790238	70229815	88908848	1813	3779											
AUTS2	26053	broad.mit.edu	37	chr7	70255333	70255333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagcctggacaggactcGcatgatgacccccttcatgg	9	7	11	14	1	1	2	1	2	0	0	2	4	1	4	3	3	2	2	3	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:70255333G>A	uc003tvw.3	+	19	3874	c.3131G>A	c.(3130-3132)CGC>CAC	p.R1044H	AUTS2_uc003tvx.3_Missense_Mutation_p.R1020H|AUTS2_uc011keg.1_Missense_Mutation_p.R496H	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	1044										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		GACAGGACTCGCATGATGACC	0.662													10	15					0	0	0.006214	0	0		A	70255333	A	A	70255333	3	1	4	1	0	0	0	0	1	0	0	0	1226	1087	38	1	3350	1	AUTS2	7	70255333	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	25518	70255333	88883330	1814	3780											
WBSCR17	64409	broad.mit.edu	37	chr7	71142200	71142200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtctattcttgcagcttcGcaacaacaaggcaaaagacg	13	10	8	10	2	2	1	0	0	2	1	3	1	2	1	0	1	4	4	0	1	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:71142200G>A	uc003tvy.2	+	9	1409	c.1409G>A	c.(1408-1410)CGC>CAC	p.R470H	WBSCR17_uc003tvz.2_Missense_Mutation_p.R169H	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	470	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TTGCAGCTTCGCAACAACAAG	0.532													11	194					0	0	0.001368	0	0		A	71142200	A	A	71142200	3	1	4	1	0	0	0	0	1	0	0	0	17290	1087	38	1	1443	1	WBSCR17	7	71142200	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	886867	71142200	87996463	1815	3781											
POM121	9883	broad.mit.edu	37	chr7	72413634	72413634	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctatctttggcggtgccacGcactcggcgtttgggttgaa	5	12	13	11	4	1	1	0	1	1	0	2	1	1	1	2	4	1	3	2	4	2	4	rs139238552	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:72413634G>A	uc003twk.2	+	11	3102	c.3102G>A	c.(3100-3102)ACG>ACA	p.T1034T	POM121_uc003twj.2_Silent_p.T769T|POM121_uc010lam.1_Silent_p.T769T	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	1034	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				GCGGTGCCACGCACTCGGCGT	0.652													14	37					0	0	0.004007	0	0		A	72413634	A	A	72413634	2	1	4	1	0	0	0	0	0	0	0	1	12258	1074	38	1		1	POM121	7	72413634	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1271434	72413634	86725029	1816	3782											
NSUN5	55695	broad.mit.edu	37	chr7	72722781	72722781	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcagctgcagcatacaGccccatgttcccgcgcgcct	6	7	10	18	3	0	0	0	0	0	0	1	0	1	0	5	0	6	5	5	0	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:72722781G>A	uc003txw.2	-	1	43	c.7C>T	c.(7-9)CTG>TTG	p.L3L	FKBP6_uc003twz.2_Intron|NSUN5_uc003txv.2_Silent_p.L3L|NSUN5_uc003txx.2_Silent_p.L3L|NSUN5_uc011kev.1_Silent_p.L3L	NM_018044	NP_060514	Q96P11	NSUN5_HUMAN	NOL1/NOP2/Sun domain family, member 5 isoform 2	3							methyltransferase activity				0		Lung NSC(55;0.163)				GCAGCATACAGCCCCATGTTC	0.662													4	15					0	0	0.001168	0	0		A	72722781	A	A	72722781	2	1	4	1	0	0	0	0	0	0	0	1	10700	962	34	2		2	NSUN5	7	72722781	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	309147	72722781	86415882	1817	3783											
BAZ1B	9031	broad.mit.edu	37	chr7	72884801	72884801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgttcttcttcagcttggCgttccagtttcactgttaaa	6	18	7	10	2	4	0	2	0	2	0	6	0	5	0	1	1	1	5	1	1	2	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:72884801C>T	uc003tyc.2	-	8	2951	c.2606G>A	c.(2605-2607)CGC>CAC	p.R869H		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	869	Potential.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				TTCAGCTTGGCGTTCCAGTTT	0.398													6	89					0	0	0.004482	0	0		T	72884801	T	T	72884801	3	4	4	1	0	0	0	0	1	0	0	0	1331	768	27	1	1893	1	BAZ1B	7	72884801	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	162020	72884801	86253862	1818	3784											
BAZ1B	9031	broad.mit.edu	37	chr7	72891452	72891452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccttcaacacagcaagcCgttccttccacaactctgca	10	10	4	17	1	2	0	1	0	1	0	5	0	5	0	4	0	5	3	4	0	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:72891452C>T	uc003tyc.2	-	7	2684	c.2339G>A	c.(2338-2340)CGG>CAG	p.R780Q		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	780	Potential.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				CACAGCAAGCCGTTCCTTCCA	0.308													13	55					0	0	0.001855	0	0		T	72891452	T	T	72891452	3	4	4	1	0	0	0	0	1	0	0	0	1331	652	23	1	2164	1	BAZ1B	7	72891452	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6651	72891452	86247211	1819	3785											
TBL2	26608	broad.mit.edu	37	chr7	72987764	72987764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttggtcatcttgaagacacGgagggtgtccccgttggcca	7	10	13	11	2	2	2	1	1	1	1	3	3	3	3	3	4	0	1	3	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:72987764G>A	uc003tyh.2	-	4	618	c.484C>T	c.(484-486)CGT>TGT	p.R162C	TBL2_uc011kex.1_Missense_Mutation_p.R126C|TBL2_uc010lbg.2_Missense_Mutation_p.R67C|TBL2_uc003tyi.2_5'UTR|TBL2_uc011key.1_Missense_Mutation_p.R33C|TBL2_uc010lbh.2_Missense_Mutation_p.R67C	NM_012453	NP_036585	Q9Y4P3	TBL2_HUMAN	transducin (beta)-like 2	162	WD 2.										0		Lung NSC(55;0.0659)|all_lung(88;0.152)				TTGAAGACACGGAGGGTGTCC	0.577													4	45					0	0	0.000602	0	0		A	72987764	A	A	72987764	3	1	4	1	0	0	0	0	1	0	0	0	15667	1116	39	1	875	1	TBL2	7	72987764	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	96312	72987764	86150899	1820	3786											
ELN	2006	broad.mit.edu	37	chr7	73474271	73474271	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtggctcctggtgtcggTgtggctcctggagttggctt	1	13	18	9	2	0	0	0	0	0	0	3	1	2	1	2	7	0	4	2	7	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:73474271T>C	uc003tzw.2	+	23	1579	c.1488T>C	c.(1486-1488)GGT>GGC	p.G496G	RFC2_uc011kfa.1_Intron|ELN_uc003tzn.2_Silent_p.G490G|ELN_uc003tzz.2_Silent_p.G409G|ELN_uc003tzo.2_Silent_p.G457G|ELN_uc003tzp.2_Silent_p.G401G|ELN_uc003tzq.2_Silent_p.G354G|ELN_uc003tzr.2_Intron|ELN_uc003tzs.2_Silent_p.G471G|ELN_uc003tzt.2_Silent_p.G495G|ELN_uc003tzu.2_Silent_p.G476G|ELN_uc003tzv.2_Silent_p.G461G|ELN_uc003tzx.2_Silent_p.G480G|ELN_uc011kff.1_Silent_p.G490G|ELN_uc003tzy.2_Silent_p.G466G	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	519	Ala-rich.				blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	CTGGTGTCGGTGTGGCTCCTG	0.587			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						29	63					0	0	0.002096	0	0		C	73474271	C	C	73474271	2	2	4	1	0	0	0	0	0	0	0	1	5079	1683	59	3		3	ELN	7	73474271	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	486507	73474271	85664392	1821	3787											
LAT2	7462	broad.mit.edu	37	chr7	73636001	73636001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtattacaactgggggCggttctcgaagcccccagaa	10	8	13	10	2	1	1	0	0	1	1	2	3	1	2	2	4	3	2	2	4	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:73636001C>T	uc003uag.2	+	10	917	c.367C>T	c.(367-369)CGG>TGG	p.R123W	RFC2_uc011kfa.1_Intron|LAT2_uc003uah.2_Missense_Mutation_p.R123W|LAT2_uc003uai.2_Missense_Mutation_p.R123W|LAT2_uc010lbo.2_Intron	NM_032464	NP_115853	Q9GZY6	NTAL_HUMAN	linker for activation of T cells family member	123	Cytoplasmic (Potential).				B cell activation|B cell receptor signaling pathway|calcium-mediated signaling|mast cell degranulation	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding				0						CAACTGGGGGCGGTTCTCGAA	0.577													15	93					0	0	0.010504	0	0		T	73636001	T	T	73636001	3	4	4	1	0	0	0	0	1	0	0	0	8661	759	27	1	397	1	LAT2	7	73636001	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	161730	73636001	85502662	1822	3788											
GTF2IRD1	9569	broad.mit.edu	37	chr7	73944220	73944220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcggatcctggaggagcGccatagtatccacttcatca	11	8	11	11	2	2	0	2	0	0	0	4	4	4	3	3	3	2	1	3	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:73944220G>A	uc003uaq.2	+	9	1640	c.1247G>A	c.(1246-1248)CGC>CAC	p.R416H	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.R448H|GTF2IRD1_uc003uap.2_Missense_Mutation_p.R416H|GTF2IRD1_uc003uar.1_Missense_Mutation_p.R416H	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	416	GTF2I-like 2.					nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CTGGAGGAGCGCCATAGTATC	0.408													5	12					0	0	0.00308	0	0		A	73944220	A	A	73944220	3	1	4	1	0	0	0	0	1	0	0	0	6884	1087	38	1	1277	1	GTF2IRD1	7	73944220	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	308219	73944220	85194443	1823	3789											
POM121C	100101267	broad.mit.edu	37	chr7	75068501	75068501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgccactgctatcatggcGcctgcgacaaatcaaaaaag	14	7	8	12	2	2	0	2	0	0	0	2	1	2	0	2	1	3	1	2	1	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:75068501G>A	uc010lde.1	-	4	955	c.955C>T	c.(955-957)CGC>TGC	p.R319C	POM121C_uc003udk.3_Missense_Mutation_p.R77C			A8CG34	P121C_HUMAN	Homo sapiens POM121-2 mRNA for nuclear pore membrane protein 121-2, partial cds.	319	Required for targeting to the nucleus and nuclear pore complex.|Pore side (Potential).				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						CTATCATGGCGCCTGCGACAA	0.458													39	126					0	0	0.00361	0	0		A	75068501	A	A	75068501	3	1	4	1	0	0	0	0	1	0	0	0	12259	1101	38	1	2774	1	POM121C	7	75068501	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1124281	75068501	84070162	1824	3790											
SPDYE5	442590	broad.mit.edu	37	chr7	75130895	75130895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaggccgttccatgaaccCgagggccaggaagaaccgct	10	6	13	12	3	0	2	0	1	0	1	1	4	1	3	5	3	2	3	5	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:75130895C>T	uc011kfy.1	+	6	906	c.770C>T	c.(769-771)CCG>CTG	p.P257L		NM_001099435	NP_001092905	A6NIY4	SPDE5_HUMAN	speedy homolog E5	257	Arg-rich.										0						TCCATGAACCCGAGGGCCAGG	0.592													5	277					0	0	0.000602	0	0		T	75130895	T	T	75130895	3	4	4	1	0	0	0	0	1	0	0	0	15057	652	23	1	792	1	SPDYE5	7	75130895	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	62394	75130895	84007768	1825	3791											
RHBDD2	57414	broad.mit.edu	37	chr7	75517323	75517323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attccagactgaacccggtgCctggctcctaccccacacag	9	7	8	17	1	0	2	0	1	0	1	2	2	2	2	6	2	3	1	6	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:75517323C>T	uc003udw.1	+	4	835	c.751C>T	c.(751-753)CCT>TCT	p.P251S	RHBDD2_uc003udv.1_Missense_Mutation_p.P110S	NM_001040456	NP_001035546	Q6NTF9	RHBD2_HUMAN	rhomboid domain containing 2 isoform a	251						integral to membrane	serine-type endopeptidase activity				0						GAACCCGGTGCCTGGCTCCTA	0.597													5	116					0	0	0.001168	0	0		T	75517323	T	T	75517323	3	4	4	1	0	0	0	0	1	0	0	0	13342	739	26	2	765	2	RHBDD2	7	75517323	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	386428	75517323	83621340	1826	3792											
POR	5447	broad.mit.edu	37	chr7	75608862	75608862	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgcccaccgctacgggatgCgaggcatgtcagcggaccct	8	5	13	15	5	1	0	1	0	0	0	1	3	1	2	3	3	3	2	3	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:75608862C>T	uc003udy.2	+	4	413	c.331C>T	c.(331-333)CGA>TGA	p.R111*	POR_uc011kgb.1_RNA|POR_uc011kgc.1_5'Flank|POR_uc011kgd.1_5'Flank|POR_uc011kge.1_5'Flank	NM_000941	NP_000932	P16435	NCPR_HUMAN	cytochrome P450 reductase	108	Flavodoxin-like.				cellular organofluorine metabolic process|positive regulation of monooxygenase activity	endoplasmic reticulum membrane	iron ion binding|NADPH-hemoprotein reductase activity			central_nervous_system(1)	1					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Lipoic Acid(DB00166)|Menadione(DB00170)|Methoxyflurane(DB01028)|Mitomycin(DB00305)|Nilutamide(DB00665)	CTACGGGATGCGAGGCATGTC	0.622													7	33					0	0	0.004482	0	0		T	75608862	T	T	75608862	4	4	4	1	0	0	0	0	0	1	0	0	12276	760	27	1	341	1	POR	7	75608862	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	91539	75608862	83529801	1827	3793											
RSBN1L	222194	broad.mit.edu	37	chr7	77407902	77407902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgaggagggaaggcattcGctatgccaggattcagctat	11	9	13	8	1	1	1	1	1	0	0	2	4	1	4	1	4	2	3	1	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:77407902G>A	uc010ldt.1	+	8	2002	c.1958G>A	c.(1957-1959)CGC>CAC	p.R653H	RSBN1L_uc003ugm.2_Missense_Mutation_p.R435H	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	653						nucleus				ovary(1)	1						GAAGGCATTCGCTATGCCAGG	0.348													37	101					0	0	0.005524	0	0		A	77407902	A	A	77407902	3	1	4	1	0	0	0	0	1	0	0	0	13722	1087	38	1	1988	1	RSBN1L	7	77407902	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1799040	77407902	81730761	1828	3794											
MAGI2	9863	broad.mit.edu	37	chr7	77824371	77824371	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgccttgattctcccatcGgtccattatctgaaaagtga	10	13	7	11	1	2	3	0	3	2	0	5	3	3	3	3	1	1	0	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:77824371G>A	uc003ugx.2	-	12	2343	c.2089C>T	c.(2089-2091)CGA>TGA	p.R697*	MAGI2_uc003ugy.2_Nonsense_Mutation_p.R697*|MAGI2_uc010ldx.1_Nonsense_Mutation_p.R306*|MAGI2_uc010ldy.1_Nonsense_Mutation_p.R306*	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	697						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TTCTCCCATCGGTCCATTATC	0.478													3	27					0	0	0.009096	0	0		A	77824371	A	A	77824371	4	1	4	1	0	0	0	0	0	1	0	0	9209	1124	39	1	2322	1	MAGI2	7	77824371	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	416469	77824371	81314292	1829	3795											
GNAT3	346562	broad.mit.edu	37	chr7	80088124	80088124	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcttctttttttaaattcaGgtctagaaactggttcttga	10	19	6	6	0	5	2	1	1	4	1	5	2	5	2	0	2	1	1	0	2	4	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:80088124G>C	uc011kgu.1	-	8	928	c.928C>G	c.(928-930)CTG>GTG	p.L310V	CD36_uc003uhc.2_Intron	NM_001102386	NP_001095856	A8MTJ3	GNAT3_HUMAN	guanine nucleotide binding protein, alpha	310					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction|sensory perception of sweet taste|sensory perception of umami taste	cytoplasm|heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						TTTAAATTCAGGTCTAGAAAC	0.323													10	14					0	0	0.006214	0	0		C	80088124	C	C	80088124	3	2	4	1	0	0	0	0	1	0	0	0	6528	991	35	5	138	5	GNAT3	7	80088124	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2263753	80088124	79050539	1830	3796											
CACNA2D1	781	broad.mit.edu	37	chr7	81588645	81588645	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcggtatctgggttgcttAaccatgtcacaaggatttgg	8	15	11	7	1	2	0	1	0	1	0	3	1	2	1	1	4	2	3	1	4	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:81588645A>G	uc003uhr.1	-	38	3361	c.3105T>C	c.(3103-3105)GTT>GTC	p.V1035V	CACNA2D1_uc011kgy.1_Silent_p.V247V	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	1047	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	TGGGTTGCTTAACCATGTCAC	0.343													4	59					0	0	0.001168	0	0		G	81588645	G	G	81588645	2	3	4	1	0	0	0	0	0	0	0	1	2551	349	13	3		3	CACNA2D1	7	81588645	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1500521	81588645	77550018	1831	3797											
PCLO	27445	broad.mit.edu	37	chr7	82545507	82545507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtgtgaaggacattgttGccacagcttggaatgttggc	9	11	15	6	0	0	1	0	1	0	0	0	4	0	3	1	4	2	3	1	4	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:82545507G>A	uc003uhx.2	-	7	12084	c.11795C>T	c.(11794-11796)GCA>GTA	p.A3932V	PCLO_uc003uhv.2_Missense_Mutation_p.A3932V|PCLO_uc010lec.2_Missense_Mutation_p.A897V	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3863	Gln-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GGACATTGTTGCCACAGCTTG	0.458													15	411					0	0	0.003163	0	0		A	82545507	A	A	82545507	3	1	4	1	0	0	0	0	1	0	0	0	11602	1319	46	2	3726	2	PCLO	7	82545507	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	956862	82545507	76593156	1832	3798											
PCLO	27445	broad.mit.edu	37	chr7	82581328	82581328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatccctctataaccatatgGccctgatcgatcatactgat	12	12	5	12	1	2	2	1	2	1	0	4	3	3	2	3	1	2	0	3	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:82581328G>A	uc003uhx.2	-	5	9230	c.8941C>T	c.(8941-8943)CCA>TCA	p.P2981S	PCLO_uc003uhv.2_Missense_Mutation_p.P2981S|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2912					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TAACCATATGGCCCTGATCGA	0.433													19	252					0	0	0.003954	0	0		A	82581328	A	A	82581328	3	1	4	1	0	0	0	0	1	0	0	0	11602	1203	42	2	6588	2	PCLO	7	82581328	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	35821	82581328	76557335	1833	3799											
SEMA3A	10371	broad.mit.edu	37	chr7	83590759	83590759	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttattttcttgtaagtgCttccatttgttactgttccc	5	22	5	9	0	2	0	0	0	2	0	4	0	4	0	2	0	2	4	2	0	3	10			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:83590759C>A	uc003uhz.2	-	17	2559	c.2244G>T	c.(2242-2244)AAG>AAT	p.K748N		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	748	Arg/Lys-rich (basic).				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						CTTGTAAGTGCTTCCATTTGT	0.458													17	150					2.5808e-16	2.8136e-16	0.006122	1	0		A	83590759	A	A	83590759	3	1	4	1	0	0	0	0	1	0	0	0	14049	796	28	5	75	5	SEMA3A	7	83590759	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1009431	83590759	75547904	1834	3800											
GRM3	2913	broad.mit.edu	37	chr7	86415724	86415724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagccatggctgagatcttgCgcttcttcaactggacctac	9	11	9	12	1	3	1	1	1	2	1	3	3	3	2	2	2	4	2	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:86415724C>T	uc003uid.2	+	3	1715	c.616C>T	c.(616-618)CGC>TGC	p.R206C	GRM3_uc010lef.2_Missense_Mutation_p.R204C|GRM3_uc010leg.2_Missense_Mutation_p.R78C|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	206	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TGAGATCTTGCGCTTCTTCAA	0.577													5	55					0	0	0.000602	0	0		T	86415724	T	T	86415724	3	4	4	1	0	0	0	0	1	0	0	0	6814	768	27	1	622	1	GRM3	7	86415724	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2824965	86415724	72722939	1835	3801											
KIAA1324L	222223	broad.mit.edu	37	chr7	86542475	86542475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcaactgcattagtggCtgtgatagaataaatcttca	13	12	7	9	0	3	2	2	1	1	1	3	2	3	2	1	1	2	2	1	1	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:86542475C>T	uc011kha.1	-	14	1962	c.1777G>A	c.(1777-1779)GCC>ACC	p.A593T	KIAA1324L_uc003uif.1_Missense_Mutation_p.A353T|KIAA1324L_uc011kgz.1_Missense_Mutation_p.A479T|KIAA1324L_uc003uie.2_Missense_Mutation_p.A426T	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	593	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					GCATTAGTGGCTGTGATAGAA	0.488													15	24					0	0	0.00245	0	0		T	86542475	T	T	86542475	3	4	4	1	0	0	0	0	1	0	0	0	8240	797	28	2	1348	2	KIAA1324L	7	86542475	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	126751	86542475	72596188	1836	3802											
CROT	54677	broad.mit.edu	37	chr7	87006753	87006753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttttctaatggagtatttgGctgtaattgtgatgtaagta	10	18	10	3	0	1	1	0	1	1	0	1	2	1	2	0	2	0	5	0	2	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:87006753G>A	uc003uit.2	+	10	1210	c.965G>A	c.(964-966)GGC>GAC	p.G322D	CROT_uc003uiu.2_Missense_Mutation_p.G350D	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	322					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	GGAGTATTTGGCTGTAATTGT	0.323													7	37					0	0	0.001984	0	0		A	87006753	A	A	87006753	3	1	4	1	0	0	0	0	1	0	0	0	3897	1203	42	2	1083	2	CROT	7	87006753	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	464278	87006753	72131910	1837	3803											
ABCB1	5243	broad.mit.edu	37	chr7	87160729	87160729	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagagtaacagtgttagttGccaaccatagatgaaggata	16	10	10	5	0	0	3	0	1	0	2	0	4	0	4	2	1	3	3	2	1	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:87160729G>A	uc003uiz.1	-	22	2984	c.2566C>T	c.(2566-2568)CAA>TAA	p.Q856*	ABCB1_uc011khc.1_Nonsense_Mutation_p.Q792*	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	856	ABC transmembrane type-1 2.|Helical; (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	AGTGTTAGTTGCCAACCATAG	0.373													8	86					0	0	0.00308	0	0		A	87160729	A	A	87160729	4	1	4	1	0	0	0	0	0	1	0	0	40	1328	46	2	1308	2	ABCB1	7	87160729	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	153976	87160729	71977934	1838	3804											
DBF4	10926	broad.mit.edu	37	chr7	87533646	87533646	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagaaactttgcacagagtAaccagtatcaagttgttgat	15	11	8	7	0	1	3	1	1	0	2	1	3	1	3	1	0	3	5	1	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:87533646A>G	uc003ujf.1	+	11	1468	c.964A>G	c.(964-966)AAC>GAC	p.N322D	DBF4_uc003ujh.1_Missense_Mutation_p.N62D|DBF4_uc003ujg.1_Missense_Mutation_p.N98D|DBF4_uc011khf.1_Missense_Mutation_p.N89D	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	322	DBF4-type.				cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				TGCACAGAGTAACCAGTATCA	0.289													14	53					0	0	0.003163	0	0		G	87533646	G	G	87533646	3	3	4	1	0	0	0	0	1	0	0	0	4251	362	13	3	1006	3	DBF4	7	87533646	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	372917	87533646	71605017	1839	3805											
CDK14	5218	broad.mit.edu	37	chr7	90747451	90747451	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcatgcgggcctttgggAaaaacaatagttatggcaaa	16	8	11	6	1	0	0	0	0	0	0	0	1	0	1	1	3	3	3	1	3	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:90747451A>G	uc003uky.2	+	14	1588	c.1366A>G	c.(1366-1368)AAA>GAA	p.K456E	CDK14_uc003ukz.1_Missense_Mutation_p.K438E|CDK14_uc010les.1_Missense_Mutation_p.K410E|CDK14_uc011khl.1_Missense_Mutation_p.K327E	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	456					cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						GGCCTTTGGGAAAAACAATAG	0.418													26	73					0	0	0.007291	0	0		G	90747451	G	G	90747451	3	3	4	1	0	0	0	0	1	0	0	0	3133	247	9	3	1362	3	CDK14	7	90747451	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	3213805	90747451	68391212	1840	3806											
MTERF	7978	broad.mit.edu	37	chr7	91503707	91503707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgaaagattctcgggagtaCgtgttattgctcgtggatat	9	15	12	5	3	1	2	0	1	1	1	3	4	1	4	0	2	2	3	0	2	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:91503707C>T	uc003ulb.1	-	2	445	c.401G>A	c.(400-402)CGT>CAT	p.R134H	MTERF_uc010let.1_Intron|MTERF_uc003ulc.1_Missense_Mutation_p.R134H|MTERF_uc011khm.1_Missense_Mutation_p.R114H|MTERF_uc010leu.1_Missense_Mutation_p.R114H	NM_006980	NP_008911	Q99551	MTERF_HUMAN	mitochondrial transcription termination factor	134					DNA geometric change|regulation of transcription, DNA-dependent|termination of mitochondrial transcription	mitochondrial nucleoid	double-stranded DNA binding				0	all_cancers(62;2.28e-09)|all_epithelial(64;1.07e-07)|Breast(17;0.00371)|all_hematologic(106;0.091)|all_lung(186;0.178)|Lung NSC(181;0.235)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.0993)|Kidney(17;0.118)|Epithelial(20;0.136)|LUSC - Lung squamous cell carcinoma(200;0.176)			CTCGGGAGTACGTGTTATTGC	0.408													39	145					0	0	0.003214	0	0		T	91503707	T	T	91503707	3	4	4	1	0	0	0	0	1	0	0	0	9936	536	19	1	802	1	MTERF	7	91503707	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	756256	91503707	67634956	1841	3807											
AKAP9	10142	broad.mit.edu	37	chr7	91652318	91652318	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagtgagtccacggttccGccaaggtattcatctgctta	8	13	10	10	2	2	1	1	1	1	0	4	1	4	1	3	2	1	4	3	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:91652318G>A	uc003ulg.2	+	14	4368	c.4143G>A	c.(4141-4143)CCG>CCA	p.P1381P	AKAP9_uc003ule.2_Silent_p.P1393P|AKAP9_uc003ulf.2_Silent_p.P1381P|AKAP9_uc003uli.2_Silent_p.P1006P	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1393					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CCACGGTTCCGCCAAGGTATT	0.378			T	BRAF	papillary thyroid								23	83					0	0	0.001882	0	0		A	91652318	A	A	91652318	2	1	4	1	0	0	0	0	0	0	0	1	459	1074	38	1		1	AKAP9	7	91652318	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	148611	91652318	67486345	1842	3808											
AKAP9	10142	broad.mit.edu	37	chr7	91718798	91718798	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcacaaatgaatggtaggAaaattactctgaaaagagaa	20	8	9	4	0	1	3	0	2	1	1	1	5	1	4	0	2	2	2	0	2	9	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:91718798A>G	uc003ulg.2	+	38	9538	c.9313A>G	c.(9313-9315)AAA>GAA	p.K3105E	AKAP9_uc003ulf.2_Missense_Mutation_p.K3097E|AKAP9_uc003uli.2_Missense_Mutation_p.K2728E|AKAP9_uc003ulj.2_Missense_Mutation_p.K875E|AKAP9_uc003ulk.2_Missense_Mutation_p.K380E|AKAP9_uc003ull.2_5'Flank	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3109					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GAATGGTAGGAAAATTACTCT	0.393			T	BRAF	papillary thyroid								6	90					0	0	0.00308	0	0		G	91718798	G	G	91718798	3	3	4	1	0	0	0	0	1	0	0	0	459	247	9	3	9463	3	AKAP9	7	91718798	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	66480	91718798	67419865	1843	3809											
AKAP9	10142	broad.mit.edu	37	chr7	91737871	91737871	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttctcagcttcagaattaCgatcctgacagagccctaac	11	11	7	12	1	2	3	2	1	1	2	4	4	3	3	2	0	4	2	2	0	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:91737871C>T	uc003ulg.2	+	49	11835	c.11610C>T	c.(11608-11610)TAC>TAT	p.Y3870Y	AKAP9_uc003ulf.2_Silent_p.Y3862Y|AKAP9_uc003uli.2_Silent_p.Y3493Y|AKAP9_uc003ulj.2_Silent_p.Y1640Y|AKAP9_uc003ull.2_Silent_p.Y766Y	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3874					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTCAGAATTACGATCCTGACA	0.418			T	BRAF	papillary thyroid								5	71					0	0	0.000602	0	0		T	91737871	T	T	91737871	2	4	4	1	0	0	0	0	0	0	0	1	459	547	19	1		1	AKAP9	7	91737871	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	19073	91737871	67400792	1844	3810											
SAMD9	54809	broad.mit.edu	37	chr7	92732197	92732197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaccgatggatactttcaaGcaatacagcttcaactgctt	13	11	7	10	1	2	0	2	0	0	0	2	3	2	1	1	1	7	3	1	1	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:92732197G>A	uc003umf.2	-	3	3470	c.3214C>T	c.(3214-3216)CTT>TTT	p.L1072F	SAMD9_uc003umg.2_Missense_Mutation_p.L1072F	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1072						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			ATACTTTCAAGCAATACAGCT	0.388													11	72					0	0	0.000978	0	0		A	92732197	A	A	92732197	3	1	4	1	0	0	0	0	1	0	0	0	13851	971	34	2	1559	2	SAMD9	7	92732197	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	994326	92732197	66406466	1845	3811											
HEPACAM2	253012	broad.mit.edu	37	chr7	92848701	92848701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtggacgggtaggtagaggGcctgacctctgacgccatgg	8	7	17	9	2	1	3	0	2	1	1	1	4	1	4	3	5	0	2	3	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:92848701G>A	uc003umm.2	-	2	166	c.143C>T	c.(142-144)GCC>GTC	p.A48V	HEPACAM2_uc003uml.2_Missense_Mutation_p.A36V|HEPACAM2_uc010lff.2_Missense_Mutation_p.A36V|HEPACAM2_uc011khy.1_Missense_Mutation_p.A71V	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	48	Extracellular (Potential).					integral to membrane				ovary(3)|breast(1)|kidney(1)	5						TAGGTAGAGGGCCTGACCTCT	0.517													22	72					0	0	0.004656	0	0		A	92848701	A	A	92848701	3	1	4	1	0	0	0	0	1	0	0	0	7069	1203	42	2	1281	2	HEPACAM2	7	92848701	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	116504	92848701	66289962	1846	3812											
TFPI2	7980	broad.mit.edu	37	chr7	93519977	93519977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcgacagccccagggggCgagcggggtccatggtgcag	8	4	18	11	3	0	0	0	0	0	0	2	3	1	0	3	5	3	1	3	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:93519977C>T	uc003umy.1	-	1	89	c.14G>A	c.(13-15)CGC>CAC	p.R5H	GNGT1_uc003umx.1_Intron|TFPI2_uc003umz.1_Missense_Mutation_p.R5H|TFPI2_uc003una.1_Missense_Mutation_p.R5H|TFPI2_uc003unb.1_Missense_Mutation_p.R5H|TFPI2_uc010lfg.1_Missense_Mutation_p.R5H	NM_006528	NP_006519	P48307	TFPI2_HUMAN	tissue factor pathway inhibitor 2 precursor	5					blood coagulation	proteinaceous extracellular matrix	extracellular matrix structural constituent|serine-type endopeptidase inhibitor activity			pancreas(1)	1	all_cancers(62;4.45e-10)|all_epithelial(64;2.92e-09)|Lung NSC(181;0.218)		STAD - Stomach adenocarcinoma(171;0.000967)			CCCCAGGGGGCGAGCGGGGTC	0.692													6	9					0	0	0.001984	0	0		T	93519977	T	T	93519977	3	4	4	1	0	0	0	0	1	0	0	0	15834	768	27	1	713	1	TFPI2	7	93519977	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	671276	93519977	65618686	1847	3813											
COL1A2	1278	broad.mit.edu	37	chr7	94057646	94057646	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accaaggatgcactatggatGctatcaaagtatactgtgat	14	11	9	7	0	1	1	1	1	0	0	1	3	1	3	1	2	3	3	1	2	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:94057646G>A	uc003ung.1	+	50	4039	c.3568G>A	c.(3568-3570)GCT>ACT	p.A1190T	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1190	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CACTATGGATGCTATCAAAGT	0.418										HNSCC(75;0.22)			35	123					0	0	0.002852	0	0		A	94057646	A	A	94057646	3	1	4	1	0	0	0	0	1	0	0	0	3681	1319	46	2	3766	2	COL1A2	7	94057646	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	537669	94057646	65081017	1848	3814											
ASB4	51666	broad.mit.edu	37	chr7	95157128	95157128	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatttccctttataggggCgaatgtgaacatgaagacca	13	11	9	8	1	1	3	1	2	0	1	2	4	2	3	2	2	1	0	2	2	6	4	rs138454369		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:95157128C>T	uc011kij.1	+	3	491	c.491C>T	c.(490-492)GCG>GTG	p.A164V	ASB4_uc003unx.2_Missense_Mutation_p.A164V	NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	164	ANK 3.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			TTTATAGGGGCGAATGTGAAC	0.438											OREG0018172	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	27					0	0	0.004482	0	0		T	95157128	T	T	95157128	3	4	4	1	0	0	0	0	1	0	0	0	1026	768	27	1	501	1	ASB4	7	95157128	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1099482	95157128	63981535	1849	3815											
ASB4	51666	broad.mit.edu	37	chr7	95157168	95157168	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaccaagatgaggagacGcccttgcacacggctgccca	13	4	10	14	2	0	3	0	1	0	2	0	4	0	3	3	2	4	2	3	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:95157168G>A	uc011kij.1	+	3	531	c.531G>A	c.(529-531)ACG>ACA	p.T177T	ASB4_uc003unx.2_Silent_p.T177T	NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	177	ANK 4.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			ATGAGGAGACGCCCTTGCACA	0.498											OREG0018172	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	26					0	0	0.001168	0	0		A	95157168	A	A	95157168	2	1	4	1	0	0	0	0	0	0	0	1	1026	1074	38	1		1	ASB4	7	95157168	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	40	95157168	63981495	1850	3816											
TECPR1	25851	broad.mit.edu	37	chr7	97850998	97850998	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccagggcatacaccgaCgtctgccccgcggacacctg	8	6	10	17	4	2	0	1	0	1	0	3	2	3	1	5	2	2	1	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:97850998C>T	uc003upg.2	-	23	3337	c.3132G>A	c.(3130-3132)ACG>ACA	p.T1044T		NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	1044	TECPR 8.					integral to membrane	protein binding			pancreas(1)	1						CATACACCGACGTCTGCCCCG	0.438													10	24					0	0	0.001855	0	0		T	97850998	T	T	97850998	2	4	4	1	0	0	0	0	0	0	0	1	15768	523	19	1		1	TECPR1	7	97850998	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2693830	97850998	61287665	1851	3817											
NPTX2	4885	broad.mit.edu	37	chr7	98254261	98254261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcctttaagtcaccagatgCgttcaaggtgtccctcccac	8	10	8	15	2	2	1	2	0	0	1	4	1	4	1	4	1	1	1	4	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98254261C>T	uc003upl.2	+	3	848	c.671C>T	c.(670-672)GCG>GTG	p.A224V		NM_002523	NP_002514	P47972	NPTX2_HUMAN	neuronal pentraxin II precursor	224					synaptic transmission	extracellular region	metal ion binding|sugar binding			central_nervous_system(2)|skin(1)	3	all_cancers(62;2.28e-09)|all_epithelial(64;4.86e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0128)|all_lung(186;0.0142)		STAD - Stomach adenocarcinoma(171;0.215)			TCACCAGATGCGTTCAAGGTG	0.602													46	153					0	0	0.00361	0	0		T	98254261	T	T	98254261	3	4	4	1	0	0	0	0	1	0	0	0	10622	768	27	1	681	1	NPTX2	7	98254261	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	403263	98254261	60884402	1852	3818											
TRRAP	8295	broad.mit.edu	37	chr7	98478778	98478778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcccaaaagaaaaatggCgtttgttgcaacacaggggg	14	6	12	9	1	0	1	0	0	0	1	0	1	0	1	2	3	3	3	2	3	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98478778C>T	uc003upp.2	+	2	214	c.5C>T	c.(4-6)GCG>GTG	p.A2V	TRRAP_uc011kis.1_Missense_Mutation_p.A2V	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			AGAAAAATGGCGTTTGTTGCA	0.443													5	62					0	0	0.001984	0	0		T	98478778	T	T	98478778	3	4	4	1	0	0	0	0	1	0	0	0	16627	768	27	1	7	1	TRRAP	7	98478778	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	224517	98478778	60659885	1853	3819											
TRRAP	8295	broad.mit.edu	37	chr7	98519385	98519385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgattttcaggctctgtggCgcaccttacgcaaccctgct	6	12	9	14	2	2	1	1	1	1	0	2	1	2	1	2	2	3	4	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98519385C>T	uc003upp.2	+	21	2841	c.2632C>T	c.(2632-2634)CGC>TGC	p.R878C	TRRAP_uc011kis.1_Missense_Mutation_p.R878C|TRRAP_uc003upr.2_Missense_Mutation_p.R570C	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	878					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GGCTCTGTGGCGCACCTTACG	0.483													6	99					0	0	0.001168	0	0		T	98519385	T	T	98519385	3	4	4	1	0	0	0	0	1	0	0	0	16627	768	27	1	2710	1	TRRAP	7	98519385	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	40607	98519385	60619278	1854	3820											
TRRAP	8295	broad.mit.edu	37	chr7	98522829	98522829	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatcaaatgcttcctggtggCcatgatgagcctggaggaca	10	9	13	9	0	1	2	1	2	0	0	2	5	2	4	3	4	2	1	3	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98522829C>T	uc003upp.2	+	22	3127	c.2918C>T	c.(2917-2919)GCC>GTC	p.A973V	TRRAP_uc011kis.1_Missense_Mutation_p.A973V|TRRAP_uc003upr.2_Missense_Mutation_p.A665V	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	973					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TTCCTGGTGGCCATGATGAGC	0.557													21	84					0	0	0.00333	0	0		T	98522829	T	T	98522829	3	4	4	1	0	0	0	0	1	0	0	0	16627	739	26	2	3000	2	TRRAP	7	98522829	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3444	98522829	60615834	1855	3821											
TRRAP	8295	broad.mit.edu	37	chr7	98528370	98528370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctattaagtttctcatggagCggctgcctctcacttgggtt	6	15	10	10	1	2	0	2	0	2	0	4	1	2	1	1	3	2	3	1	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98528370C>T	uc003upp.2	+	25	3717	c.3508C>T	c.(3508-3510)CGG>TGG	p.R1170W	TRRAP_uc011kis.1_Missense_Mutation_p.R1170W|TRRAP_uc003upr.2_Missense_Mutation_p.R862W	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1170					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TCTCATGGAGCGGCTGCCTCT	0.507													5	37					0	0	0.001984	0	0		T	98528370	T	T	98528370	3	4	4	1	0	0	0	0	1	0	0	0	16627	759	27	1	3602	1	TRRAP	7	98528370	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5541	98528370	60610293	1856	3822											
TRRAP	8295	broad.mit.edu	37	chr7	98586514	98586514	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcggcagctgcacctgggCgtgtctgccatcacctgcta	6	8	13	14	2	2	0	1	0	1	0	2	1	2	0	3	2	5	4	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98586514C>T	uc003upp.2	+	62	9737	c.9528C>T	c.(9526-9528)GGC>GGT	p.G3176G	TRRAP_uc011kis.1_Silent_p.G3147G|TRRAP_uc003upr.2_Silent_p.G2864G	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3176	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TGCACCTGGGCGTGTCTGCCA	0.562													8	17					0	0	0.00308	0	0		T	98586514	T	T	98586514	2	4	4	1	0	0	0	0	0	0	0	1	16627	755	27	1		1	TRRAP	7	98586514	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	58144	98586514	60552149	1857	3823											
SMURF1	57154	broad.mit.edu	37	chr7	98655043	98655043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaagtgtttggttcttacatCcggtatcttttaatctgctg	8	18	8	7	1	3	0	0	0	3	0	4	0	4	0	1	2	2	4	1	2	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98655043C>T	uc003upu.1	-	4	655	c.335G>A	c.(334-336)GGA>GAA	p.G112E	SMURF1_uc003upv.1_Missense_Mutation_p.G112E|SMURF1_uc003upt.2_Missense_Mutation_p.G112E	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	112					BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			GTTCTTACATCCGGTATCTTT	0.453													8	63					0	0	0.004482	0	0		T	98655043	T	T	98655043	3	4	4	1	0	0	0	0	1	0	0	0	14844	855	30	4	2002	4	SMURF1	7	98655043	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	68529	98655043	60483620	1858	3824											
ZSCAN21	7589	broad.mit.edu	37	chr7	99662020	99662020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagagcttcagtcagcatgCgggcctcagctcccaccaga	10	6	11	14	1	3	2	3	0	0	2	4	3	4	2	3	1	4	3	3	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:99662020C>T	uc003uso.2	+	4	1346	c.1202C>T	c.(1201-1203)GCG>GTG	p.A401V	ZSCAN21_uc003usn.1_Missense_Mutation_p.R366W|ZNF3_uc003usp.2_3'UTR	NM_145914	NP_666019	Q9Y5A6	ZSC21_HUMAN	zinc finger protein 38	401	C2H2-type 5.				positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			AGTCAGCATGCGGGCCTCAGC	0.522													9	90					0	0	0.008291	0	0		T	99662020	T	T	99662020	3	4	4	1	0	0	0	0	1	0	0	0	18258	768	27	1	1212	1	ZSCAN21	7	99662020	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1006977	99662020	59476643	1859	3825											
STAG3	10734	broad.mit.edu	37	chr7	99808640	99808640	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catctgcttggcagggcctgCcaagcctaacagagaggacg	10	6	13	12	1	1	1	0	0	1	1	1	3	1	2	3	3	4	2	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:99808640C>T	uc003utx.1	+	30	3400	c.3245C>T	c.(3244-3246)GCC>GTC	p.A1082V	STAG3_uc011kjk.1_Missense_Mutation_p.A1024V|GATS_uc003uty.3_Intron|GATS_uc003utz.3_Intron|GATS_uc003uua.3_Intron|GATS_uc010lgt.2_Intron|STAG3_uc003uub.1_Missense_Mutation_p.A306V	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	1082					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GCAGGGCCTGCCAAGCCTAAC	0.577													14	28					0	0	0.00245	0	0		T	99808640	T	T	99808640	3	4	4	1	0	0	0	0	1	0	0	0	15269	739	26	2	3359	2	STAG3	7	99808640	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	146620	99808640	59330023	1860	3826											
PILRB	29990	broad.mit.edu	37	chr7	99950995	99950995	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcctccttcccccgcgcaGgcacccagccaggcctccca	6	5	8	22	2	0	0	0	0	0	0	4	1	4	0	8	2	1	2	8	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:99950995G>T	uc003uuk.2	+	12	1542	c.-954_splice	c.e12-1		PILRB_uc003uul.2_Splice_Site|PILRB_uc003uum.1_Splice_Site	NM_013440	NP_038468	Q9UKJ0	PILRB_HUMAN	paired immunoglobulin-like type 2 receptor beta						activation of transmembrane receptor protein tyrosine kinase activity	integral to plasma membrane	protein binding|receptor activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CCCCCGCGCAGGCACCCAGCC	0.652													4	29					0.00024832	0.000259867	0.009096	1	0		T	99950995	T	T	99950995	5	4	4	1	0	0	0	0	0	0	1	0	11945	1014	35	5		5	PILRB	7	99950995	Splice_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	142355	99950995	59187668	1861	3827											
GNB2	2783	broad.mit.edu	37	chr7	100275127	100275127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctgctccgcaggtccacGccatcccgctgcgctcctcc	3	7	8	23	4	0	0	0	0	0	0	5	0	5	0	8	1	2	4	8	1	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100275127G>A	uc003uwb.2	+	6	547	c.274G>A	c.(274-276)GCC>ACC	p.A92T	GNB2_uc003uwc.2_Missense_Mutation_p.A48T|GNB2_uc010lhd.2_Missense_Mutation_p.A48T|GNB2_uc010lhe.2_Missense_Mutation_p.A48T|GNB2_uc003uwd.2_5'UTR|GNB2_uc010lhf.2_5'UTR|GNB2_uc003uwe.2_Missense_Mutation_p.A92T|GNB2_uc003uwf.2_5'UTR	NM_005273	NP_005264	P62879	GBB2_HUMAN	guanine nucleotide-binding protein, beta-2	92					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	perinuclear region of cytoplasm|plasma membrane	GTPase activity|GTPase binding|signal transducer activity			ovary(2)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)	Ovarian(593;0.238)				GCAGGTCCACGCCATCCCGCT	0.677													11	29					0	0	0.008291	0	0		A	100275127	A	A	100275127	3	1	4	1	0	0	0	0	1	0	0	0	6532	1087	38	1	292	1	GNB2	7	100275127	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	324132	100275127	58863536	1862	3828											
GNB2	2783	broad.mit.edu	37	chr7	100275393	100275393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggtacctgtcgtgttgccGcttcctggatgacaaccaaa	9	10	11	11	2	0	1	0	1	0	0	2	2	1	2	4	2	3	3	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100275393G>A	uc003uwb.2	+	7	722	c.449G>A	c.(448-450)CGC>CAC	p.R150H	GNB2_uc003uwc.2_Missense_Mutation_p.R106H|GNB2_uc010lhd.2_Missense_Mutation_p.R106H|GNB2_uc010lhe.2_Missense_Mutation_p.R106H|GNB2_uc003uwd.2_Missense_Mutation_p.R50H|GNB2_uc010lhf.2_Missense_Mutation_p.R50H|GNB2_uc003uwe.2_Missense_Mutation_p.R150H|GNB2_uc003uwf.2_Missense_Mutation_p.R50H	NM_005273	NP_005264	P62879	GBB2_HUMAN	guanine nucleotide-binding protein, beta-2	150	WD 3.				cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	perinuclear region of cytoplasm|plasma membrane	GTPase activity|GTPase binding|signal transducer activity			ovary(2)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)	Ovarian(593;0.238)				TCGTGTTGCCGCTTCCTGGAT	0.627													7	32					0	0	0.001984	0	0		A	100275393	A	A	100275393	3	1	4	1	0	0	0	0	1	0	0	0	6532	1087	38	1	471	1	GNB2	7	100275393	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	266	100275393	58863270	1863	3829											
ZAN	7455	broad.mit.edu	37	chr7	100352914	100352914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcgtgcaagagccccaggCctagctgtgggcccctctgt	5	9	12	15	1	1	1	0	0	1	1	2	1	1	1	5	2	3	2	5	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100352914C>T	uc003uwj.2	+	15	3355	c.3190C>T	c.(3190-3192)CCT>TCT	p.P1064S	ZAN_uc003uwk.2_Missense_Mutation_p.P1064S|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1064	TIL 1.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GAGCCCCAGGCCTAGCTGTGG	0.557													7	134					0	0	0.00308	0	0		T	100352914	T	T	100352914	3	4	4	1	0	0	0	0	1	0	0	0	17539	739	26	2	3244	2	ZAN	7	100352914	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	77521	100352914	58785749	1864	3830											
ZAN	7455	broad.mit.edu	37	chr7	100389759	100389759	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagacggtggccccagaGcccttccaagagtgagtcat	10	6	11	14	1	1	4	1	1	0	3	2	4	2	4	5	2	1	0	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100389759G>A	uc003uwj.2	+	42	7866	c.7701G>A	c.(7699-7701)GAG>GAA	p.E2567E	ZAN_uc003uwk.2_Silent_p.E2567E|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.S560N	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2567	Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			TGGCCCCAGAGCCCTTCCAAG	0.667													4	14					0	0	0.001168	0	0		A	100389759	A	A	100389759	2	1	4	1	0	0	0	0	0	0	0	1	17539	962	34	2		2	ZAN	7	100389759	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	36845	100389759	58748904	1865	3831											
EPHB4	2050	broad.mit.edu	37	chr7	100421410	100421410	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgagcatggtgaagcgcagCgtggcgtacacgtggacggc	8	6	17	10	6	0	1	0	1	0	0	1	3	0	2	0	4	4	3	0	4	2	1	rs150582750		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100421410C>T	uc003uwn.1	-	3	758	c.267G>A	c.(265-267)ACG>ACA	p.T89T	EPHB4_uc003uwm.1_5'UTR|EPHB4_uc010lhj.1_Silent_p.T89T|EPHB4_uc011kkf.1_Silent_p.T89T|EPHB4_uc011kkg.1_Silent_p.T89T|EPHB4_uc011kkh.1_Silent_p.T89T	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	89	Extracellular (Potential).				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					TGAAGCGCAGCGTGGCGTACA	0.672													13	14					0	0	0.00245	0	0		T	100421410	T	T	100421410	2	4	4	1	0	0	0	0	0	0	0	1	5185	755	27	1		1	EPHB4	7	100421410	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	31651	100421410	58717253	1866	3832											
SLC12A9	56996	broad.mit.edu	37	chr7	100459098	100459098	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttcctcatcagtcctggCgcggctggtggctccctgct	3	12	12	14	2	2	0	2	0	0	0	5	0	5	0	3	4	1	4	3	4	0	1	rs113249714	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100459098C>T	uc003uwp.2	+	11	1570	c.1428C>T	c.(1426-1428)GGC>GGT	p.G476G	SLC12A9_uc003uwq.2_Silent_p.G387G|SLC12A9_uc011kki.1_Silent_p.G7G|SLC12A9_uc003uwr.2_Silent_p.G212G|SLC12A9_uc003uws.2_Silent_p.G7G|SLC12A9_uc003uwt.2_Silent_p.G212G|SLC12A9_uc003uwv.2_Silent_p.G7G	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	476	Helical; (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					TCAGTCCTGGCGCGGCTGGTG	0.667													22	31					0	0	0.002096	0	0		T	100459098	T	T	100459098	2	4	4	1	0	0	0	0	0	0	0	1	14415	755	27	1		1	SLC12A9	7	100459098	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	37688	100459098	58679565	1867	3833											
SLC12A9	56996	broad.mit.edu	37	chr7	100460410	100460410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaccctctcaccctccgtgCgccagggggctcagcatctg	6	8	10	17	2	3	0	2	0	2	0	5	0	4	0	4	2	3	2	4	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100460410C>T	uc003uwp.2	+	13	1961	c.1819C>T	c.(1819-1821)CGC>TGC	p.R607C	SLC12A9_uc003uwq.2_Missense_Mutation_p.R518C|SLC12A9_uc011kki.1_Missense_Mutation_p.R138C|SLC12A9_uc003uwr.2_Missense_Mutation_p.R343C|SLC12A9_uc003uws.2_Missense_Mutation_p.R138C|SLC12A9_uc003uwt.2_Missense_Mutation_p.R343C|SLC12A9_uc003uwv.2_Missense_Mutation_p.R138C	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	607	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					ACCCTCCGTGCGCCAGGGGGC	0.637													13	64					0	0	0.001368	0	0		T	100460410	T	T	100460410	3	4	4	1	0	0	0	0	1	0	0	0	14415	768	27	1	1865	1	SLC12A9	7	100460410	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1312	100460410	58678253	1868	3834											
SRRT	51593	broad.mit.edu	37	chr7	100485018	100485018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtcactctcagaggaagagGcccagaagatggggcgcaaa	14	4	14	9	1	2	4	2	0	1	4	3	5	2	5	1	4	0	1	1	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100485018G>A	uc003uwy.2	+	17	2321	c.2053G>A	c.(2053-2055)GCC>ACC	p.A685T	SRRT_uc010lhl.1_Missense_Mutation_p.A684T|SRRT_uc003uxa.2_Missense_Mutation_p.A684T|SRRT_uc003uwz.2_Missense_Mutation_p.A685T	NM_015908	NP_056992	Q9BXP5	SRRT_HUMAN	arsenate resistance protein 2 isoform a	685					cell proliferation|primary miRNA processing|response to arsenic-containing substance	cytoplasm|nucleoplasm	protein binding			ovary(2)	2						AGAGGAAGAGGCCCAGAAGAT	0.562													21	58					0	0	0.001882	0	0		A	100485018	A	A	100485018	3	1	4	1	0	0	0	0	1	0	0	0	15197	1203	42	2	2111	2	SRRT	7	100485018	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	24608	100485018	58653645	1869	3835											
ACHE	43	broad.mit.edu	37	chr7	100491577	100491577	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacactctggaaggttgtagCgtctaccacccctgaccaag	10	8	10	13	1	2	1	0	1	2	0	2	3	2	2	4	2	2	2	4	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100491577C>T	uc003uxd.2	-	1	433	c.277G>A	c.(277-279)GCT>ACT	p.A93T	ACHE_uc003uxe.2_Missense_Mutation_p.A93T|ACHE_uc003uxf.2_Missense_Mutation_p.A93T|ACHE_uc003uxg.2_Missense_Mutation_p.A93T|ACHE_uc003uxh.2_Missense_Mutation_p.A93T|ACHE_uc003uxi.2_Missense_Mutation_p.A93T|ACHE_uc003uxj.1_Missense_Mutation_p.A212T	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	93					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	AAGGTTGTAGCGTCTACCACC	0.592													11	28					0	0	0.00245	0	0		T	100491577	T	T	100491577	3	4	4	1	0	0	0	0	1	0	0	0	141	768	27	1	1718	1	ACHE	7	100491577	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6559	100491577	58647086	1870	3836											
MUC17	140453	broad.mit.edu	37	chr7	100675395	100675395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtggccagttcagaggCtatcacccttttgacaactc	10	10	10	11	0	2	2	2	1	0	1	3	3	2	2	2	3	1	2	2	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100675395C>T	uc003uxp.1	+	3	751	c.698C>T	c.(697-699)GCT>GTT	p.A233V	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	233	Extracellular (Potential).|1.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AGTTCAGAGGCTATCACCCTT	0.488													21	195					0	0	0.00278	0	0		T	100675395	T	T	100675395	3	4	4	1	0	0	0	0	1	0	0	0	9992	797	28	2	708	2	MUC17	7	100675395	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	183818	100675395	58463268	1871	3837											
MUC17	140453	broad.mit.edu	37	chr7	100676841	100676841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcaacaactcctgttgacaCcagcacacctgtgaccactt	11	10	5	15	0	1	2	1	2	0	0	2	2	2	2	4	0	3	2	4	0	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100676841C>T	uc003uxp.1	+	3	2197	c.2144C>T	c.(2143-2145)ACC>ATC	p.T715I	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	715	Extracellular (Potential).|9.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CCTGTTGACACCAGCACACCT	0.498													42	381					0	0	0.009718	0	0		T	100676841	T	T	100676841	3	4	4	1	0	0	0	0	1	0	0	0	9992	507	18	4	2154	4	MUC17	7	100676841	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1446	100676841	58461822	1872	3838											
MUC17	140453	broad.mit.edu	37	chr7	100679587	100679587	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaactcctagtgaaggaagTcctctattaacaagtatacc	14	11	6	10	0	2	1	1	1	1	0	4	2	4	2	3	1	3	1	3	1	9	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100679587T>C	uc003uxp.1	+	3	4943	c.4890T>C	c.(4888-4890)AGT>AGC	p.S1630S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1630	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|25.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GTGAAGGAAGTCCTCTATTAA	0.493													5	302					0	0	0.004482	0	0		C	100679587	C	C	100679587	2	2	4	1	0	0	0	0	0	0	0	1	9992	1664	58	3		3	MUC17	7	100679587	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2746	100679587	58459076	1873	3839											
MUC17	140453	broad.mit.edu	37	chr7	100681920	100681921	+	Missense_Mutation	DNP	CG	TT	TT																															tgtgcctgtcagcaccatgcCggtggtcagttctgaggcta																								rs140211048	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100681920_100681921CG>TT	uc003uxp.1	+	3	7276_7277	c.7223_7224CG>TT	c.(7222-7224)CCG>CTT	p.P2408L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2408	Extracellular (Potential).|59 X approximate tandem repeats.|38.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AGCACCATGCCGGTGGTCAGTT	0.515													44	424					0	0	0.004672	0	0		TT	100681921	TT	TT	100681920	3	4	4	1	0	0	0	0	1	0	0	0	9992	652	23	1	7233	1	MUC17	7	100681920	Missense_Mutation	DNP	CG	TCGA-BR-4184-01A-01D-1126-08	2333	100681920	58456743	1874	3840											
MUC17	140453	broad.mit.edu	37	chr7	100684849	100684849	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttatctcctacaactgcTgaaggtaccagcataccaac	13	10	6	12	0	1	1	0	1	1	0	2	1	1	1	3	1	7	4	3	1	7	5	rs35584551		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100684849T>C	uc003uxp.1	+	3	10205	c.10152T>C	c.(10150-10152)GCT>GCC	p.A3384A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3384	Extracellular (Potential).|55.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CTACAACTGCTGAAGGTACCA	0.507													11	403					0	0	0.001855	0	0		C	100684849	C	C	100684849	2	2	4	1	0	0	0	0	0	0	0	1	9992	1567	55	3		3	MUC17	7	100684849	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2929	100684849	58453814	1875	3841											
CUX1	1523	broad.mit.edu	37	chr7	101559425	101559425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgccaccgcaacggtattgGcgaaccggcaggatgaaagt	12	6	13	10	4	0	1	0	1	0	0	0	3	0	2	3	4	3	3	3	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:101559425G>A	uc003uyx.3	+	2	99	c.61G>A	c.(61-63)GCG>ACG	p.A21T	CUX1_uc003uys.3_Missense_Mutation_p.A32T|CUX1_uc003uyt.2_Missense_Mutation_p.A32T|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Missense_Mutation_p.A32T|CUX1_uc003uyv.2_Missense_Mutation_p.A32T|CUX1_uc003uyu.2_Missense_Mutation_p.A32T	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	21	Potential.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						AACGGTATTGGCGAACCGGCA	0.517													44	125					0	0	0.00361	0	0		A	101559425	A	A	101559425	3	1	4	1	0	0	0	0	1	0	0	0	4067	1203	42	2	134	2	CUX1	7	101559425	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	874576	101559425	57579238	1876	3842											
CUX1	1523	broad.mit.edu	37	chr7	101917564	101917564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccagagcccatcaaagaggCcactgccctattctacggta	11	7	8	15	1	2	2	1	0	1	2	2	2	2	2	4	2	3	1	4	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:101917564C>T	uc003uyt.2	+	16	1452	c.1433C>T	c.(1432-1434)GCC>GTC	p.A478V	CUX1_uc011kkn.1_Missense_Mutation_p.A439V|CUX1_uc003uyw.2_Missense_Mutation_p.A432V|CUX1_uc003uyv.2_Missense_Mutation_p.A462V|CUX1_uc003uyu.2_Missense_Mutation_p.A476V|CUX1_uc003uyz.2_RNA	NM_001913	NP_001904	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform b	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						ATCAAAGAGGCCACTGCCCTA	0.602													20	52					0	0	0.010504	0	0		T	101917564	T	T	101917564	3	4	4	1	0	0	0	0	1	0	0	0	4067	739	26	2	4865	2	CUX1	7	101917564	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	358139	101917564	57221099	1877	3843											
LRWD1	222229	broad.mit.edu	37	chr7	102106665	102106665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaggtcaatggcaaggatgCgtcctcaacttactctcagg	11	10	10	10	1	3	0	3	0	1	0	5	1	4	1	1	4	3	1	1	4	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:102106665C>T	uc003uzn.2	+	3	518	c.380C>T	c.(379-381)GCG>GTG	p.A127V	ALKBH4_uc003uzl.2_5'Flank|ALKBH4_uc003uzm.2_5'Flank|LRWD1_uc003uzo.2_5'UTR	NM_152892	NP_690852	Q9UFC0	LRWD1_HUMAN	leucine-rich repeats and WD repeat domain	127					chromatin modification|DNA-dependent DNA replication initiation|establishment of protein localization to chromatin|G1 phase of mitotic cell cycle	centromeric heterochromatin|nuclear origin of replication recognition complex|telomeric heterochromatin	chromatin binding|methyl-CpG binding|methylated histone residue binding			skin(1)	1						GGCAAGGATGCGTCCTCAACT	0.542													22	72					0	0	0.004656	0	0		T	102106665	T	T	102106665	3	4	4	1	0	0	0	0	1	0	0	0	9065	768	27	1	390	1	LRWD1	7	102106665	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	189101	102106665	57031998	1878	3844											
SLC26A5	375611	broad.mit.edu	37	chr7	103030938	103030938	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcagaatcattaatgaggCcaaacaacctgcaagctgaa	17	6	8	10	0	1	3	1	2	0	1	1	3	1	3	2	1	5	3	2	1	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:103030938C>A	uc003vbz.2	-	12	1485	c.1249G>T	c.(1249-1251)GCC>TCC	p.A417S	SLC26A5_uc003vbt.1_Missense_Mutation_p.A417S|SLC26A5_uc003vbu.1_Missense_Mutation_p.A417S|SLC26A5_uc003vbv.1_Intron|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Missense_Mutation_p.A417S|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_Intron	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	417	Helical; Name=10; (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						ATTAATGAGGCCAAACAACCT	0.408													12	117					4.36969e-10	4.6962e-10	0.001855	1	0		A	103030938	A	A	103030938	3	1	4	1	0	0	0	0	1	0	0	0	14545	739	26	5	1062	5	SLC26A5	7	103030938	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	924273	103030938	56107725	1879	3845											
RELN	5649	broad.mit.edu	37	chr7	103629618	103629618	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtagtaggtggggttgccCgcaatatgcagggaaatgag	11	8	16	6	2	0	1	0	1	0	0	0	2	0	2	1	4	2	5	1	4	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:103629618C>T	uc003vca.2	-	1	346	c.186G>A	c.(184-186)GCG>GCA	p.A62A	RELN_uc010liz.2_Silent_p.A62A	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	62	Reelin.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TGGGGTTGCCCGCAATATGCA	0.637													14	40					0	0	0.004007	0	0		T	103629618	T	T	103629618	2	4	4	1	0	0	0	0	0	0	0	1	13245	639	23	1		1	RELN	7	103629618	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	598680	103629618	55509045	1880	3846											
MLL5	55904	broad.mit.edu	37	chr7	104747108	104747108	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggacccatcttttgccacGcctccacggataaaatcaga	12	9	7	13	2	2	1	1	0	1	1	3	3	3	3	4	2	1	0	4	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:104747108G>A	uc003vcm.2	+	20	3270	c.2736G>A	c.(2734-2736)ACG>ACA	p.T912T	MLL5_uc010ljc.2_Silent_p.T912T|MLL5_uc010lje.1_Intron|MLL5_uc010ljf.1_5'Flank|MLL5_uc010ljg.2_5'Flank|MLL5_uc010ljh.1_5'Flank	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	912					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						CTTTTGCCACGCCTCCACGGA	0.443													45	149					0	0	0.00361	0	0		A	104747108	A	A	104747108	2	1	4	1	0	0	0	0	0	0	0	1	9642	1074	38	1		1	MLL5	7	104747108	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1117490	104747108	54391555	1881	3847											
MLL5	55904	broad.mit.edu	37	chr7	104753201	104753201	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgcggtcacccctgggtcGcatattcattctcaaactgc	8	11	8	14	2	3	0	3	0	1	0	5	0	3	0	2	2	3	1	2	2	2	3	rs147477523		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:104753201G>A	uc003vcm.2	+	27	5532	c.4998G>A	c.(4996-4998)TCG>TCA	p.S1666S	MLL5_uc010ljc.2_Silent_p.S1666S|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Silent_p.S400S	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1666	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						CCCCTGGGTCGCATATTCATT	0.582													6	54					0	0	0.001984	0	0		A	104753201	A	A	104753201	2	1	4	1	0	0	0	0	0	0	0	1	9642	1074	38	1		1	MLL5	7	104753201	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6093	104753201	54385462	1882	3848											
SRPK2	6733	broad.mit.edu	37	chr7	104783607	104783607	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacctctgggcagtattcGccatcctggtcattggaagg	7	12	11	11	1	3	0	2	0	1	0	5	1	4	1	3	4	0	2	3	4	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:104783607G>A	uc003vct.2	-	9	1138	c.951C>T	c.(949-951)GGC>GGT	p.G317G	SRPK2_uc003vcu.2_Silent_p.G317G|SRPK2_uc003vcv.2_Silent_p.G328G|SRPK2_uc003vcw.1_Silent_p.G317G	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	317	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.G317D(1)		central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						GGCAGTATTCGCCATCCTGGT	0.502													15	77					0	0	0.004007	0	0		A	104783607	A	A	104783607	2	1	4	1	0	0	0	0	0	0	0	1	15185	1074	38	1		1	SRPK2	7	104783607	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	30406	104783607	54355056	1883	3849											
SRPK2	6733	broad.mit.edu	37	chr7	104807824	104807824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcaggaagtaaaggatacGtatcccattcatgcctgaaa	16	9	8	8	1	2	1	2	1	0	0	3	3	3	3	2	2	2	2	2	2	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:104807824G>A	uc003vct.2	-	5	668	c.481C>T	c.(481-483)CAT>TAT	p.H161Y	SRPK2_uc003vcu.2_Missense_Mutation_p.H161Y|SRPK2_uc003vcv.2_Missense_Mutation_p.H172Y|SRPK2_uc003vcw.1_Missense_Mutation_p.H161Y	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	161	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TAAAGGATACGTATCCCATTC	0.368													6	83					0	0	0.004482	0	0		A	104807824	A	A	104807824	3	1	4	1	0	0	0	0	1	0	0	0	15185	1159	40	1	1629	1	SRPK2	7	104807824	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	24217	104807824	54330839	1884	3850											
CDHR3	222256	broad.mit.edu	37	chr7	105662698	105662698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggttccaatgtcacacGcctgctgcttacatctcgct	6	13	8	14	2	2	0	1	0	1	0	4	0	3	0	2	1	4	5	2	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:105662698G>A	uc003vdl.3	+	14	1988	c.1880G>A	c.(1879-1881)CGC>CAC	p.R627H	CDHR3_uc003vdk.2_Intron|CDHR3_uc003vdm.3_Missense_Mutation_p.R614H|CDHR3_uc011klt.1_Missense_Mutation_p.R539H|CDHR3_uc003vdn.2_Intron	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	627	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						AATGTCACACGCCTGCTGCTT	0.438													7	128					0	0	0.004482	0	0		A	105662698	A	A	105662698	3	1	4	1	0	0	0	0	1	0	0	0	3123	1087	38	1	1934	1	CDHR3	7	105662698	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	854874	105662698	53475965	1885	3851											
HBP1	26959	broad.mit.edu	37	chr7	106827054	106827054	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagggaagcaataaggaatgGcaagatgttgaagattttgc	16	9	13	3	0	0	3	0	1	0	2	0	5	0	5	0	3	2	3	0	3	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:106827054G>A	uc003vdy.2	+	6	879	c.693G>A	c.(691-693)TGG>TGA	p.W231*	HBP1_uc011klv.1_Nonsense_Mutation_p.W241*|HBP1_uc003vdz.2_Nonsense_Mutation_p.W231*|HBP1_uc003vea.2_Nonsense_Mutation_p.W231*|HBP1_uc003veb.1_Nonsense_Mutation_p.W231*	NM_012257	NP_036389	O60381	HBP1_HUMAN	HMG-box transcription factor 1	231	AXH.				cell cycle arrest|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	DNA binding			skin(1)	1						ATAAGGAATGGCAAGATGTTG	0.373													22	87					0	0	0.003954	0	0		A	106827054	A	A	106827054	4	1	4	1	0	0	0	0	0	1	0	0	7001	1212	42	2	711	2	HBP1	7	106827054	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1164356	106827054	52311609	1886	3852											
GPR22	2845	broad.mit.edu	37	chr7	107115658	107115658	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaaagtaaaatgaaaaagCgagttgtttctatagtagaa	19	11	9	2	1	1	3	0	2	1	1	1	4	1	3	0	0	1	4	0	0	10	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:107115658C>T	uc003vef.2	+	3	2499	c.1153C>T	c.(1153-1155)CGA>TGA	p.R385*	COG5_uc003vec.2_Intron|COG5_uc003ved.2_Intron|COG5_uc003vee.2_Intron	NM_005295	NP_005286	Q99680	GPR22_HUMAN	G protein-coupled receptor 22	385	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(2)	2						AATGAAAAAGCGAGTTGTTTC	0.313													24	60					0	0	0.00333	0	0		T	107115658	T	T	107115658	4	4	4	1	0	0	0	0	0	1	0	0	6697	760	27	1	1155	1	GPR22	7	107115658	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	288604	107115658	52023005	1887	3853											
SLC26A4	5172	broad.mit.edu	37	chr7	107323732	107323732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccattgtcgtctgtatggCagttaaggaattaaatgatc	12	13	9	7	1	1	1	0	1	1	0	3	2	1	2	1	2	0	3	1	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:107323732C>T	uc003vep.2	+	7	1075	c.851C>T	c.(850-852)GCA>GTA	p.A284V		NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	284	Helical; (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						GTCTGTATGGCAGTTAAGGAA	0.353									Pendred_syndrome				21	69					0	0	0.00333	0	0		T	107323732	T	T	107323732	3	4	4	1	0	0	0	0	1	0	0	0	14544	710	25	2	873	2	SLC26A4	7	107323732	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	208074	107323732	51814931	1888	3854											
SLC26A4	5172	broad.mit.edu	37	chr7	107334884	107334884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcgattgtgatgatcGccattcttgccctggggaag	6	12	13	10	2	1	2	0	2	1	0	2	4	1	3	2	2	3	1	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:107334884G>A	uc003vep.2	+	11	1524	c.1300G>A	c.(1300-1302)GCC>ACC	p.A434T	SLC26A4_uc011kmb.1_Missense_Mutation_p.A21T|SLC26A4_uc011kmc.1_Intron|SLC26A4_uc011kmd.1_Missense_Mutation_p.A3T	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	434	Helical; (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						TGTGATGATCGCCATTCTTGC	0.498									Pendred_syndrome				9	55					0	0	0.000978	0	0		A	107334884	A	A	107334884	3	1	4	1	0	0	0	0	1	0	0	0	14544	1087	38	1	1338	1	SLC26A4	7	107334884	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11152	107334884	51803779	1889	3855											
LAMB1	3912	broad.mit.edu	37	chr7	107605020	107605020	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaagttggcttcctccgCttcatagaggtagtgatcca	8	11	9	13	1	1	2	1	1	0	1	4	2	4	2	5	2	0	4	5	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:107605020C>A	uc003vew.2	-	14	2010	c.1675G>T	c.(1675-1677)GCG>TCG	p.A559S	LAMB1_uc003vev.2_Missense_Mutation_p.A583S|LAMB1_uc003vex.2_Missense_Mutation_p.A559S|LAMB1_uc010ljn.1_Missense_Mutation_p.A645S	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	559	Laminin IV type B.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCTTCCTCCGCTTCATAGAGG	0.532													6	134					8.12818e-05	8.5301e-05	0.001984	1	0		A	107605020	A	A	107605020	3	1	4	1	0	0	0	0	1	0	0	0	8626	797	28	5	3769	5	LAMB1	7	107605020	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	270136	107605020	51533643	1890	3856											
LAMB4	22798	broad.mit.edu	37	chr7	107671311	107671311	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactttcgcattgacagcGtggtcttgatgcctttgcaa	8	14	10	9	2	1	3	0	3	1	0	2	3	1	3	1	1	4	2	1	1	2	4	rs138458523		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:107671311G>A	uc010ljo.1	-	32	5016	c.4932C>T	c.(4930-4932)CAC>CAT	p.H1644H	LAMB4_uc003vey.2_Silent_p.H1644H|LAMB4_uc010ljp.1_Silent_p.H613H	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	1644	Potential.|Domain I.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						CATTGACAGCGTGGTCTTGAT	0.522													13	127					0	0	0.00245	0	0		A	107671311	A	A	107671311	2	1	4	1	0	0	0	0	0	0	0	1	8629	1136	40	1		1	LAMB4	7	107671311	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	66291	107671311	51467352	1891	3857											
DOCK4	9732	broad.mit.edu	37	chr7	111407090	111407090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcatccaggcaccttacccGcatcttgctcaggtttctgt	6	13	8	14	1	3	0	1	0	2	0	4	0	4	0	3	2	3	5	3	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:111407090G>A	uc003vfx.2	-	37	4155	c.3886C>T	c.(3886-3888)CGG>TGG	p.R1296W	DOCK4_uc011kml.1_Missense_Mutation_p.R177W|DOCK4_uc011kmm.1_Missense_Mutation_p.R203W|DOCK4_uc003vfw.2_Missense_Mutation_p.R746W|DOCK4_uc003vfy.2_Missense_Mutation_p.R1341W	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1296	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				CACCTTACCCGCATCTTGCTC	0.443													41	100					0	0	0.007835	0	0		A	111407090	A	A	111407090	3	1	4	1	0	0	0	0	1	0	0	0	4695	1086	38	1	2078	1	DOCK4	7	111407090	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3735779	111407090	47731573	1892	3858											
DOCK4	9732	broad.mit.edu	37	chr7	111409619	111409619	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttctggatgatggtgaggTgcaggtgctctttgcgctgc	5	13	16	7	1	2	2	0	2	2	0	2	3	2	3	0	4	4	4	0	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:111409619T>C	uc003vfx.2	-	36	4036	c.3767A>G	c.(3766-3768)CAC>CGC	p.H1256R	DOCK4_uc011kml.1_Missense_Mutation_p.H137R|DOCK4_uc011kmm.1_Missense_Mutation_p.H163R|DOCK4_uc003vfw.2_Missense_Mutation_p.H706R|DOCK4_uc003vfy.2_Missense_Mutation_p.H1301R	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1256	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				GATGGTGAGGTGCAGGTGCTC	0.562													5	33					0	0	0.001984	0	0		C	111409619	C	C	111409619	3	2	4	1	0	0	0	0	1	0	0	0	4695	1696	59	3	2201	3	DOCK4	7	111409619	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2529	111409619	47729044	1893	3859											
DOCK4	9732	broad.mit.edu	37	chr7	111617195	111617195	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgtgcaggtacctgattggCcggttctctttactgtcaaa	8	13	10	10	2	2	1	1	1	1	0	3	1	2	1	2	3	3	3	2	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:111617195C>T	uc003vfx.2	-	8	962	c.693G>A	c.(691-693)CGG>CGA	p.R231R	DOCK4_uc003vfy.2_Silent_p.R231R|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Silent_p.R231R|DOCK4_uc003vgb.1_Silent_p.R155R	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	231					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				ACCTGATTGGCCGGTTCTCTT	0.443													7	30					0	0	0.001984	0	0		T	111617195	T	T	111617195	2	4	4	1	0	0	0	0	0	0	0	1	4695	726	26	2		2	DOCK4	7	111617195	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	207576	111617195	47521468	1894	3860											
DOCK4	9732	broad.mit.edu	37	chr7	111629103	111629103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagccgggcagtaatgtggCgcttcacgtccttcatccgg	7	9	12	13	4	2	0	2	0	0	0	4	0	4	0	3	3	1	3	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:111629103C>T	uc003vfx.2	-	6	700	c.431G>A	c.(430-432)CGC>CAC	p.R144H	DOCK4_uc003vfy.2_Missense_Mutation_p.R144H|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Missense_Mutation_p.R144H|DOCK4_uc003vgb.1_Missense_Mutation_p.R68H	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	144					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				AGTAATGTGGCGCTTCACGTC	0.577													4	20					0	0	0.000602	0	0		T	111629103	T	T	111629103	3	4	4	1	0	0	0	0	1	0	0	0	4695	768	27	1	5657	1	DOCK4	7	111629103	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	11908	111629103	47509560	1895	3861											
DOCK4	9732	broad.mit.edu	37	chr7	111629121	111629121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcttcacgtccttcatcCggtcgtgggtgaggtggccc	3	10	15	13	4	2	1	2	1	0	0	5	1	4	1	3	5	0	1	3	5	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:111629121C>T	uc003vfx.2	-	6	682	c.413G>A	c.(412-414)CGG>CAG	p.R138Q	DOCK4_uc003vfy.2_Missense_Mutation_p.R138Q|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Missense_Mutation_p.R138Q|DOCK4_uc003vgb.1_Missense_Mutation_p.R62Q	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	138					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				GTCCTTCATCCGGTCGTGGGT	0.567													11	22					0	0	0.008291	0	0		T	111629121	T	T	111629121	3	4	4	1	0	0	0	0	1	0	0	0	4695	652	23	1	5675	1	DOCK4	7	111629121	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	18	111629121	47509542	1896	3862											
TMEM168	64418	broad.mit.edu	37	chr7	112424684	112424684	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagaccaagaataaaaattAccaaaattaaggaatttgct	22	9	5	5	0	0	2	0	0	0	2	0	3	0	3	2	1	2	1	2	1	11	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:112424684A>G	uc003vgn.2	-	2	589	c.197T>C	c.(196-198)GTA>GCA	p.V66A	TMEM168_uc010lju.2_Missense_Mutation_p.V66A|TMEM168_uc011kmr.1_Intron	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	66	Helical; (Potential).					integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						AATAAAAATTACCAAAATTAA	0.343													4	67					0	0	0.001168	0	0		G	112424684	G	G	112424684	3	3	4	1	0	0	0	0	1	0	0	0	16108	391	14	3	1912	3	TMEM168	7	112424684	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	795563	112424684	46713979	1897	3863											
GPR85	54329	broad.mit.edu	37	chr7	112724294	112724294	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctaatgaatgagtaagtGcccacgtctaaaaccggggg	12	8	11	10	2	1	2	0	2	1	0	2	2	2	2	3	2	2	1	3	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:112724294G>A	uc010ljv.2	-	2	1000	c.483C>T	c.(481-483)GGC>GGT	p.G161G	GPR85_uc003vgp.1_Silent_p.G161G|GPR85_uc003vgq.2_Silent_p.G161G|GPR85_uc010ljw.1_Silent_p.G161G	NM_001146266	NP_001139738	P60893	GPR85_HUMAN	G protein-coupled receptor 85	161	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)	2						ATGAGTAAGTGCCCACGTCTA	0.488													7	83					0	0	0.00308	0	0		A	112724294	A	A	112724294	2	1	4	1	0	0	0	0	0	0	0	1	6730	1306	46	2		2	GPR85	7	112724294	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	299610	112724294	46414369	1898	3864											
PPP1R3A	5506	broad.mit.edu	37	chr7	113558291	113558291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgattttacctttaagcagCcttttatttgtctgttagga	8	20	7	6	0	1	1	0	1	1	0	1	2	1	2	2	1	3	2	2	1	4	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:113558291C>T	uc010ljy.1	-	1	792	c.761G>A	c.(760-762)GGC>GAC	p.G254D		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	254					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						CTTTAAGCAGCCTTTTATTTG	0.294													26	119					0	0	0.00632	0	0		T	113558291	T	T	113558291	3	4	4	1	0	0	0	0	1	0	0	0	12393	739	26	2	2623	2	PPP1R3A	7	113558291	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	833997	113558291	45580372	1899	3865											
PPP1R3A	5506	broad.mit.edu	37	chr7	113558550	113558550	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctaaaatgtcataatgtgTctgccagtcatctaaagaca	14	12	7	8	0	4	1	2	0	2	1	4	1	4	1	1	0	2	1	1	0	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:113558550T>A	uc010ljy.1	-	1	533	c.502A>T	c.(502-504)ACA>TCA	p.T168S		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	168	CBM21.				glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TCATAATGTGTCTGCCAGTCA	0.343													18	53					0	0	0.00499	0	0		A	113558550	A	A	113558550	3	1	4	1	0	0	0	0	1	0	0	0	12393	1667	58	5	2882	5	PPP1R3A	7	113558550	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	259	113558550	45580113	1900	3866											
MET	4233	broad.mit.edu	37	chr7	116340097	116340097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttaatatacttcaggctgCgtatgtcagcaagcctgggg	9	12	12	8	1	2	0	2	0	0	0	2	0	2	0	1	3	4	4	1	3	5	6	rs35776110	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:116340097C>T	uc003vij.2	+	2	1146	c.959C>T	c.(958-960)GCG>GTG	p.A320V	MET_uc010lkh.2_Missense_Mutation_p.A320V|MET_uc011knc.1_Missense_Mutation_p.A320V|MET_uc011knd.1_Missense_Mutation_p.A320V|MET_uc011kne.1_Missense_Mutation_p.A320V|MET_uc011knf.1_Missense_Mutation_p.A320V|MET_uc011kng.1_Missense_Mutation_p.A320V|MET_uc011knh.1_Missense_Mutation_p.A320V|MET_uc011kni.1_Missense_Mutation_p.A320V|MET_uc003vii.1_Missense_Mutation_p.A339V|MET_uc010lkg.2_Missense_Mutation_p.A320V|MET_uc011kmz.1_Missense_Mutation_p.A320V|MET_uc011kna.1_Missense_Mutation_p.A320V|MET_uc011knb.1_Missense_Mutation_p.A320V	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	320	Extracellular (Potential).|Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			CTTCAGGCTGCGTATGTCAGC	0.453			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				10	48					0	0	0.006214	0	0		T	116340097	T	T	116340097	3	4	4	1	0	0	0	0	1	0	0	0	9503	768	27	1	961	1	MET	7	116340097	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2781547	116340097	42798566	1901	3867											
MET	4233	broad.mit.edu	37	chr7	116340317	116340317	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatttttacggacccaaTcatgagcactgctttaatag	12	12	7	10	1	1	1	1	1	0	0	1	2	1	2	1	1	4	3	1	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:116340317T>A	uc003vij.2	+	2	1366	c.1179T>A	c.(1177-1179)AAT>AAA	p.N393K	MET_uc010lkh.2_Missense_Mutation_p.N393K|MET_uc011knc.1_Missense_Mutation_p.N393K|MET_uc011knd.1_Missense_Mutation_p.N393K|MET_uc011kne.1_Missense_Mutation_p.N393K|MET_uc011knf.1_Missense_Mutation_p.N393K|MET_uc011kng.1_Missense_Mutation_p.N393K|MET_uc011knh.1_Missense_Mutation_p.N393K|MET_uc011kni.1_Missense_Mutation_p.N393K|MET_uc003vii.1_Missense_Mutation_p.N412K|MET_uc010lkg.2_Missense_Mutation_p.N393K|MET_uc011kmz.1_Missense_Mutation_p.N393K|MET_uc011kna.1_Missense_Mutation_p.N393K|MET_uc011knb.1_Missense_Mutation_p.N393K	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	393	Extracellular (Potential).|Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			ACGGACCCAATCATGAGCACT	0.378			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				11	115					0	0	0.001368	0	0		A	116340317	A	A	116340317	3	1	4	1	0	0	0	0	1	0	0	0	9503	1432	50	5	1181	5	MET	7	116340317	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	220	116340317	42798346	1902	3868											
MET	4233	broad.mit.edu	37	chr7	116417481	116417481	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatgggactttgttggacAatgatggcaagaaaattcac	14	11	10	6	0	2	2	2	1	0	1	2	4	2	4	0	3	0	2	0	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:116417481A>G	uc003vij.2	+	16	3485	c.3298A>G	c.(3298-3300)AAT>GAT	p.N1100D	MET_uc010lkh.2_Missense_Mutation_p.N1118D|MET_uc011knj.1_Missense_Mutation_p.N670D	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	1100	Protein kinase.|Cytoplasmic (Potential).				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding	p.N1118Y(1)|p.Q1029_G1105del(1)		upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			TTTGTTGGACAATGATGGCAA	0.333			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				28	73					0	0	0.003271	0	0		G	116417481	G	G	116417481	3	3	4	1	0	0	0	0	1	0	0	0	9503	130	5	3	3410	3	MET	7	116417481	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	77164	116417481	42721182	1903	3869											
CTTNBP2	83992	broad.mit.edu	37	chr7	117501313	117501313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagctccccttccatcaCgctgaggagcatccgcagct	7	8	8	18	2	1	1	1	1	0	0	5	2	5	2	5	1	3	5	5	1	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:117501313C>T	uc003vjf.2	-	2	231	c.139G>A	c.(139-141)GTG>ATG	p.V47M		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	47										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		CCTTCCATCACGCTGAGGAGC	0.473													5	16					0	0	0.00308	0	0		T	117501313	T	T	117501313	3	4	4	1	0	0	0	0	1	0	0	0	4048	536	19	1	4940	1	CTTNBP2	7	117501313	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1083832	117501313	41637350	1904	3870											
KCND2	3751	broad.mit.edu	37	chr7	119915461	119915461	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagtcgttaccgttttgtgCgtagtgtcatgagtatcatc	7	16	10	8	3	2	1	2	1	0	0	4	1	2	1	1	0	2	4	1	0	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:119915461C>T	uc003vjj.1	+	1	1740	c.775C>T	c.(775-777)CGT>TGT	p.R259C		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	259	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					CCGTTTTGTGCGTAGTGTCAT	0.527													19	45					0	0	0.007413	0	0		T	119915461	T	T	119915461	3	4	4	1	0	0	0	0	1	0	0	0	8035	768	27	1	777	1	KCND2	7	119915461	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2414148	119915461	39223202	1905	3871											
CADPS2	93664	broad.mit.edu	37	chr7	122261687	122261687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggaagactttccaaattggCcattagcaaattcactgaag	14	11	8	8	0	1	2	1	1	0	1	2	3	2	3	2	2	1	1	2	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:122261687C>T	uc010lkp.2	-	5	1115	c.952G>A	c.(952-954)GCC>ACC	p.A318T	CADPS2_uc003vkg.3_Missense_Mutation_p.A18T|CADPS2_uc010lkq.2_Missense_Mutation_p.A318T	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	318					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						TCCAAATTGGCCATTAGCAAA	0.328													17	54					0	0	0.006122	0	0		T	122261687	T	T	122261687	3	4	4	1	0	0	0	0	1	0	0	0	2574	739	26	2	3086	2	CADPS2	7	122261687	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2346226	122261687	36876976	1906	3872											
IQUB	154865	broad.mit.edu	37	chr7	123109382	123109382	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggctctgatggtgaactgCgtatccatctcaattgtttt	7	16	9	9	1	2	2	1	2	2	0	4	2	3	2	1	2	2	3	1	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:123109382C>T	uc003vkn.2	-	9	2044	c.1467G>A	c.(1465-1467)ACG>ACA	p.T489T	IQUB_uc003vko.2_Silent_p.T489T|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Silent_p.T489T	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	489										ovary(3)|large_intestine(1)	4						TGGTGAACTGCGTATCCATCT	0.343													21	76					0	0	0.004656	0	0		T	123109382	T	T	123109382	2	4	4	1	0	0	0	0	0	0	0	1	7836	755	27	1		1	IQUB	7	123109382	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	847695	123109382	36029281	1907	3873											
ASB15	142685	broad.mit.edu	37	chr7	123269456	123269456	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacaggaagaggtgctgccaGgatggacatcttgtgtaata	12	10	13	6	0	1	1	0	0	1	1	1	4	1	4	1	4	3	2	1	4	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:123269456G>T	uc003vku.1	+	10	1700	c.1408G>T	c.(1408-1410)GGA>TGA	p.G470*	ASB15_uc003vkw.1_Nonsense_Mutation_p.G470*	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	470					intracellular signal transduction					skin(2)|lung(1)	3						GGTGCTGCCAGGATGGACATC	0.383													5	116					1.024e-07	1.09331e-07	0.000602	1	0		T	123269456	T	T	123269456	4	4	4	1	0	0	0	0	0	1	0	0	1020	1001	35	5	1434	5	ASB15	7	123269456	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	160074	123269456	35869207	1908	3874											
SPAM1	6677	broad.mit.edu	37	chr7	123593822	123593822	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttggaaaatttgatgaGccactagatatgagcctctt	11	14	9	7	0	2	4	0	3	2	1	2	5	2	5	2	1	2	0	2	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:123593822G>T	uc003vld.2	+	4	600	c.198G>T	c.(196-198)GAG>GAT	p.E66D	SPAM1_uc003vle.2_Missense_Mutation_p.E66D|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.E66D|SPAM1_uc010lku.2_Missense_Mutation_p.E66D	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	66					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	AATTTGATGAGCCACTAGATA	0.443													18	46					1.96292e-10	2.11133e-10	0.010504	1	0		T	123593822	T	T	123593822	3	4	4	1	0	0	0	0	1	0	0	0	15011	962	34	5	200	5	SPAM1	7	123593822	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	324366	123593822	35544841	1909	3875											
POT1	25913	broad.mit.edu	37	chr7	124482994	124482994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggcacatagtggtgtcctctCcaaatactgatgatctgtaa	11	12	9	9	0	2	2	0	2	2	0	4	2	3	2	2	2	1	2	2	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:124482994C>T	uc003vlm.2	-	13	1631	c.1030G>A	c.(1030-1032)GAG>AAG	p.E344K	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_Missense_Mutation_p.E213K|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	344					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						GGTGTCCTCTCCAAATACTGA	0.348													5	31					0	0	0.000602	0	0		T	124482994	T	T	124482994	3	4	4	1	0	0	0	0	1	0	0	0	12279	864	30	4	902	4	POT1	7	124482994	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	889172	124482994	34655669	1910	3876											
GRM8	2918	broad.mit.edu	37	chr7	126173421	126173421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcaaatattcggtggataCggtttgttttggtcagaagg	9	14	13	5	2	2	1	2	0	0	1	3	2	2	2	0	5	1	3	0	5	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:126173421C>T	uc003vlr.2	-	8	2326	c.2015G>A	c.(2014-2016)CGT>CAT	p.R672H	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.R672H|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	672	Cytoplasmic (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TCGGTGGATACGGTTTGTTTT	0.493										HNSCC(24;0.065)			6	75					0	0	0.006214	0	0		T	126173421	T	T	126173421	3	4	4	1	0	0	0	0	1	0	0	0	6819	536	19	1	773	1	GRM8	7	126173421	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1690427	126173421	32965242	1911	3877											
GRM8	2918	broad.mit.edu	37	chr7	126883250	126883250	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggctgatcgctttccctcGcataccattttctccacagg	7	12	8	14	2	1	1	0	1	1	0	5	2	2	1	3	2	1	3	3	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:126883250G>A	uc003vlr.2	-	1	320	c.9C>T	c.(7-9)TGC>TGT	p.C3C	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.C3C|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	3					negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	GCTTTCCCTCGCATACCATTT	0.498										HNSCC(24;0.065)	OREG0003802	type=REGULATORY REGION|Gene=GRM8|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	10	63					0	0	0.008291	0	0		A	126883250	A	A	126883250	2	1	4	1	0	0	0	0	0	0	0	1	6819	1079	38	1		1	GRM8	7	126883250	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	709829	126883250	32255413	1912	3878											
GCC1	79571	broad.mit.edu	37	chr7	127222255	127222255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagattggctccctccctgCtctggtccctgatgttcttt	3	15	8	15	0	2	2	0	1	2	1	5	2	5	2	4	2	1	3	4	2	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:127222255C>T	uc003vma.2	-	2	2559	c.2141G>A	c.(2140-2142)AGC>AAC	p.S714N		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	714	Potential.|GRIP.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						TCCCTCCCTGCTCTGGTCCCT	0.582													23	65					0	0	0.004656	0	0		T	127222255	T	T	127222255	3	4	4	1	0	0	0	0	1	0	0	0	6300	797	28	2	190	2	GCC1	7	127222255	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	339005	127222255	31916408	1913	3879											
FSCN3	29999	broad.mit.edu	37	chr7	127240362	127240362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caacttactcactgtactggCccccaatggcttctacatgc	9	11	6	15	0	2	0	1	0	1	0	2	0	2	0	2	2	5	2	2	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:127240362C>T	uc003vmd.1	+	6	1625	c.1406C>T	c.(1405-1407)GCC>GTC	p.A469V	FSCN3_uc011koh.1_Silent_p.G333G|FSCN3_uc010llc.1_Silent_p.G467G	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	469						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						ACTGTACTGGCCCCCAATGGC	0.507													9	33					0	0	0.008291	0	0		T	127240362	T	T	127240362	3	4	4	1	0	0	0	0	1	0	0	0	6083	739	26	2	1428	2	FSCN3	7	127240362	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	18107	127240362	31898301	1914	3880											
LRRC4	64101	broad.mit.edu	37	chr7	127669682	127669682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccacctccacgaggtagcGgcctcgcatgtgcatgggag	7	7	14	13	3	0	0	0	0	0	0	3	2	2	1	4	3	2	3	4	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:127669682G>A	uc003vmk.2	-	2	1149	c.1012C>T	c.(1012-1014)CGC>TGC	p.R338C	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	338	Extracellular (Potential).|LRRCT.					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		ACGAGGTAGCGGCCTCGCATG	0.577													8	24					0	0	0.008291	0	0		A	127669682	A	A	127669682	3	1	4	1	0	0	0	0	1	0	0	0	9015	1116	39	1	953	1	LRRC4	7	127669682	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	429320	127669682	31468981	1915	3881											
LRRC4	64101	broad.mit.edu	37	chr7	127670230	127670230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctttcgatggggttgttgCgaagccagagctcccgcagc	6	10	14	11	3	0	1	0	0	0	1	2	3	1	1	2	2	5	5	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:127670230C>T	uc003vmk.2	-	2	601	c.464G>A	c.(463-465)CGC>CAC	p.R155H	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	155	LRR 4.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		GGGGTTGTTGCGAAGCCAGAG	0.587													9	66					0	0	0.008291	0	0		T	127670230	T	T	127670230	3	4	4	1	0	0	0	0	1	0	0	0	9015	768	27	1	1501	1	LRRC4	7	127670230	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	548	127670230	31468433	1916	3882											
RBM28	55131	broad.mit.edu	37	chr7	127964664	127964664	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagtcggcttcttcaccttCgtcgtctgaagctttgcagc	5	13	9	14	3	3	1	1	1	2	0	6	1	3	1	2	1	3	3	2	1	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:127964664C>T	uc003vmp.2	-	12	1402	c.1287G>A	c.(1285-1287)ACG>ACA	p.T429T	RBM28_uc003vmo.2_Silent_p.T46T|RBM28_uc011koj.1_Silent_p.T288T|RBM28_uc011kok.1_Silent_p.T376T	NM_018077	NP_060547	Q9NW13	RBM28_HUMAN	RNA binding motif protein 28	429					mRNA processing|RNA splicing	Golgi apparatus|nucleolus|spliceosomal complex	nucleotide binding|RNA binding			ovary(2)	2						TCTTCACCTTCGTCGTCTGAA	0.562													19	162					0	0	0.007413	0	0		T	127964664	T	T	127964664	2	4	4	1	0	0	0	0	0	0	0	1	13153	871	31	1		1	RBM28	7	127964664	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	294434	127964664	31173999	1917	3883											
FLNC	2318	broad.mit.edu	37	chr7	128482937	128482937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatcatcaagaatgacaacGacaccttcaccgtcaagtac	16	7	5	13	2	4	2	4	1	0	1	4	3	4	2	2	0	2	1	2	0	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:128482937G>A	uc003vnz.3	+	16	2688	c.2479G>A	c.(2479-2481)GAC>AAC	p.D827N	FLNC_uc003voa.3_Missense_Mutation_p.D827N	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	827	Filamin 6.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GAATGACAACGACACCTTCAC	0.587													4	31					0	0	0.009096	0	0		A	128482937	A	A	128482937	3	1	4	1	0	0	0	0	1	0	0	0	5949	1058	37	1	2541	1	FLNC	7	128482937	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	518273	128482937	30655726	1918	3884											
FAM40B	57464	broad.mit.edu	37	chr7	129122851	129122851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccatttaccagaaagtgCgtcaccgcatgaacgatgac	13	7	9	12	3	1	3	1	2	0	1	1	4	1	3	3	0	4	1	3	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:129122851C>T	uc011koy.1	+	20	2258	c.2218C>T	c.(2218-2220)CGT>TGT	p.R740C	FAM40B_uc003vow.2_Missense_Mutation_p.R740C|FAM40B_uc011koz.1_Missense_Mutation_p.R232C	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	740											0						CCAGAAAGTGCGTCACCGCAT	0.448													7	52					0	0	0.00308	0	0		T	129122851	T	T	129122851	3	4	4	1	0	0	0	0	1	0	0	0	5575	768	27	1	2296	1	FAM40B	7	129122851	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	639914	129122851	30015812	1919	3885											
CPA1	1357	broad.mit.edu	37	chr7	130027747	130027747	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcgagctccgggacactggGcgctatggcttcctgctgcc	4	10	13	14	3	0	0	0	0	0	0	3	2	2	1	3	3	3	4	3	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:130027747G>A	uc003vpx.2	+	10	1227	c.1155G>A	c.(1153-1155)GGG>GGA	p.G385G		NM_001868	NP_001859	P15085	CBPA1_HUMAN	carboxypeptidase A1 precursor	385					proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					GGGACACTGGGCGCTATGGCT	0.577													23	220					0	0	0.009535	0	0		A	130027747	A	A	130027747	2	1	4	1	0	0	0	0	0	0	0	1	3792	1190	42	2		2	CPA1	7	130027747	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	904896	130027747	29110916	1920	3886											
MEST	4232	broad.mit.edu	37	chr7	130138010	130138010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actattccatatttgagcagGccagcatcgtggaagcgctt	10	11	10	10	2	0	1	0	1	0	0	2	2	1	2	2	2	3	3	2	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:130138010G>A	uc003vqg.2	+	5	587	c.370G>A	c.(370-372)GCC>ACC	p.A124T	MEST_uc003vqc.2_Missense_Mutation_p.A115T|MEST_uc003vqd.2_Missense_Mutation_p.A115T|MEST_uc003vqf.2_Missense_Mutation_p.A115T|MEST_uc011kph.1_Missense_Mutation_p.A110T|MEST_uc010lmg.2_Missense_Mutation_p.A124T	NM_002402	NP_002393	Q5EB52	MEST_HUMAN	mesoderm specific transcript isoform a	124					mesoderm development	endoplasmic reticulum membrane|integral to membrane	hydrolase activity|protein binding			ovary(2)	2	Melanoma(18;0.0435)					ATTTGAGCAGGCCAGCATCGT	0.512													8	76					0	0	0.006214	0	0		A	130138010	A	A	130138010	3	1	4	1	0	0	0	0	1	0	0	0	9502	1203	42	2	388	2	MEST	7	130138010	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	110263	130138010	29000653	1921	3887											
PLXNA4	91584	broad.mit.edu	37	chr7	131829950	131829950	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctgctcatccaggaagTcaaacatgtacttgatggcc	11	9	9	12	0	2	1	2	1	0	0	3	2	3	2	3	2	4	2	3	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:131829950T>A	uc003vra.3	-	29	5382	c.5153A>T	c.(5152-5154)GAC>GTC	p.D1718V	PLXNA4_uc003vqz.3_Missense_Mutation_p.D3V	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1718	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						ATCCAGGAAGTCAAACATGTA	0.557													12	57					0	0	0.003163	0	0		A	131829950	A	A	131829950	3	1	4	1	0	0	0	0	1	0	0	0	12141	1667	58	5	547	5	PLXNA4	7	131829950	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1691940	131829950	27308713	1922	3888											
PLXNA4	91584	broad.mit.edu	37	chr7	132174113	132174113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggttcttgtagacatatgCgatgacagacgtcatgcggt	9	12	13	7	3	2	3	1	1	1	2	2	4	2	3	0	2	2	2	0	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:132174113C>T	uc003vra.3	-	3	1538	c.1309G>A	c.(1309-1311)GCA>ACA	p.A437T	PLXNA4_uc003vrc.2_Missense_Mutation_p.A437T|PLXNA4_uc003vrb.2_Missense_Mutation_p.A437T	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	437	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TAGACATATGCGATGACAGAC	0.527													4	54					0	0	0.001168	0	0		T	132174113	T	T	132174113	3	4	4	1	0	0	0	0	1	0	0	0	12141	768	27	1	4809	1	PLXNA4	7	132174113	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	344163	132174113	26964550	1923	3889											
PLXNA4	91584	broad.mit.edu	37	chr7	132192896	132192896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcttcccatccactgccgtgGcaatgaacagcttgtcatcc	8	10	8	15	1	1	1	1	1	0	0	4	1	4	1	4	1	3	3	4	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:132192896G>A	uc003vra.3	-	2	786	c.557C>T	c.(556-558)GCC>GTC	p.A186V	PLXNA4_uc003vrc.2_Missense_Mutation_p.A186V|PLXNA4_uc003vrb.2_Missense_Mutation_p.A186V	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	186	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CACTGCCGTGGCAATGAACAG	0.522													23	74					0	0	0.002836	0	0		A	132192896	A	A	132192896	3	1	4	1	0	0	0	0	1	0	0	0	12141	1203	42	2	5565	2	PLXNA4	7	132192896	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	18783	132192896	26945767	1924	3890											
CALD1	800	broad.mit.edu	37	chr7	134632408	134632408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacagaagcagcaggaggCggctttggagctggaggaac	13	4	16	8	1	0	1	0	0	0	1	0	5	0	5	0	6	5	4	0	6	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:134632408C>T	uc003vrz.2	+	8	2141	c.1682C>T	c.(1681-1683)GCG>GTG	p.A561V	CALD1_uc003vry.2_Missense_Mutation_p.A306V|CALD1_uc003vsa.2_Missense_Mutation_p.A332V|CALD1_uc003vsb.2_Missense_Mutation_p.A306V|CALD1_uc010lmm.2_Missense_Mutation_p.A332V|CALD1_uc011kpt.1_Missense_Mutation_p.A80V|CALD1_uc003vsc.2_Missense_Mutation_p.A326V|CALD1_uc003vsd.2_Missense_Mutation_p.A300V|CALD1_uc011kpu.1_Missense_Mutation_p.A311V|CALD1_uc011kpv.1_Missense_Mutation_p.A170V|CALD1_uc003vse.2_Missense_Mutation_p.A425V	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	561					cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						cagcaggaggcggctttggag	0.289													6	10					0	0	0.001984	0	0		T	134632408	T	T	134632408	3	4	4	1	0	0	0	0	1	0	0	0	2584	768	27	1	1761	1	CALD1	7	134632408	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2439512	134632408	24506255	1925	3891											
NUP205	23165	broad.mit.edu	37	chr7	135303205	135303205	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtaggaagaaataaattgCtgcagtgtcttcatgcaaaa	15	11	10	5	0	2	1	1	0	1	1	2	2	2	2	0	2	3	4	0	2	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:135303205C>T	uc003vsw.2	+	28	3848	c.3817C>T	c.(3817-3819)CTG>TTG	p.L1273L	NUP205_uc003vsx.2_5'Flank	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1273					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						AAATAAATTGCTGCAGTGTCT	0.428													27	92					0	0	0.002096	0	0		T	135303205	T	T	135303205	2	4	4	1	0	0	0	0	0	0	0	1	10778	796	28	2		2	NUP205	7	135303205	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	670797	135303205	23835458	1926	3892											
NUP205	23165	broad.mit.edu	37	chr7	135304191	135304191	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atactggatgatgaagctgcGcaagagttaatgcctgtggt	11	11	13	6	1	0	3	0	2	0	1	0	4	0	4	1	2	4	3	1	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:135304191G>A	uc003vsw.2	+	29	4015	c.3984G>A	c.(3982-3984)GCG>GCA	p.A1328A	NUP205_uc003vsx.2_5'Flank	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1328					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						ATGAAGCTGCGCAAGAGTTAA	0.443													23	109					0	0	0.004656	0	0		A	135304191	A	A	135304191	2	1	4	1	0	0	0	0	0	0	0	1	10778	1074	38	1		1	NUP205	7	135304191	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	986	135304191	23834472	1927	3893											
SLC13A4	26266	broad.mit.edu	37	chr7	135390380	135390380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagttccagagaaggttggCtgttctttacatccagacct	9	13	10	9	0	1	3	0	1	1	2	3	4	3	3	3	2	1	4	3	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:135390380C>T	uc003vta.2	-	5	1246	c.557G>A	c.(556-558)AGC>AAC	p.S186N	SLC13A4_uc003vtb.2_Missense_Mutation_p.S186N	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	186						integral to plasma membrane	sodium:sulfate symporter activity				0						AGAAGGTTGGCTGTTCTTTAC	0.507													30	80					0	0	0.003271	0	0		T	135390380	T	T	135390380	3	4	4	1	0	0	0	0	1	0	0	0	14419	797	28	2	1371	2	SLC13A4	7	135390380	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	86189	135390380	23748283	1928	3894											
PTN	5764	broad.mit.edu	37	chr7	136936003	136936003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtttgggcttggtcagtttgCcacagggcttggagatggtg	5	13	17	6	0	1	1	1	0	0	1	1	2	1	1	1	5	1	4	1	5	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:136936003C>T	uc003vtq.2	-	4	788	c.425G>A	c.(424-426)GGC>GAC	p.G142D	PTN_uc010lmx.2_Missense_Mutation_p.G142D|PTN_uc003vtr.1_Missense_Mutation_p.G142D	NM_002825	NP_002816	P21246	PTN_HUMAN	pleiotrophin	142					nervous system development|positive regulation of cell division|positive regulation of cell proliferation|transmembrane receptor protein tyrosine phosphatase signaling pathway	endoplasmic reticulum|extracellular space	growth factor activity|heparin binding|protein phosphatase inhibitor activity			upper_aerodigestive_tract(1)|pancreas(1)	2						GGTCAGTTTGCCACAGGGCTT	0.483													9	175					0	0	0.006214	0	0		T	136936003	T	T	136936003	3	4	4	1	0	0	0	0	1	0	0	0	12791	739	26	2	89	2	PTN	7	136936003	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1545623	136936003	22202660	1929	3895											
TMEM213	155006	broad.mit.edu	37	chr7	138487646	138487646	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcccttccccaccagaCgtggacttctgcccacaagc	7	8	8	18	1	1	1	0	0	1	1	3	2	3	2	5	1	2	1	5	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:138487646C>T	uc010lna.2	+	3	267	c.156C>T	c.(154-156)AAC>AAT	p.N52N	TMEM213_uc010lnb.2_Silent_p.N51N	NM_001085429	NP_001078898	A2RRL7	TM213_HUMAN	transmembrane protein 213	52	Extracellular (Potential).					integral to membrane					0						CCCCACCAGACGTGGACTTCT	0.592													12	24					0	0	0.001368	0	0		T	138487646	T	T	138487646	2	4	4	1	0	0	0	0	0	0	0	1	16161	550	19	1		1	TMEM213	7	138487646	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1551643	138487646	20651017	1930	3896											
KIAA1549	57670	broad.mit.edu	37	chr7	138579249	138579249	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgctctgggattccggagAcggcctcttcaccctgtcga	5	11	12	13	3	3	1	1	0	2	1	5	4	4	2	3	3	1	2	3	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:138579249A>G	uc011kql.1	-	10	3920	c.3871T>C	c.(3871-3873)TCT>CCT	p.S1291P	KIAA1549_uc011kqi.1_Missense_Mutation_p.S75P|KIAA1549_uc003vuk.3_Missense_Mutation_p.S1241P|KIAA1549_uc011kqj.1_Missense_Mutation_p.S1291P|KIAA1549_uc011kqk.1_Missense_Mutation_p.S75P	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1291						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GATTCCGGAGACGGCCTCTTC	0.483			O	BRAF	pilocytic astrocytoma								4	83					0	0	0.000602	0	0		G	138579249	G	G	138579249	3	3	4	1	0	0	0	0	1	0	0	0	8260	275	10	3	2025	3	KIAA1549	7	138579249	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	91603	138579249	20559414	1931	3897											
KIAA1549	57670	broad.mit.edu	37	chr7	138593813	138593813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcattaggcctttctcaatgCgctgggtgaagttgcagaag	9	12	12	8	1	2	2	2	1	1	1	3	2	2	2	1	2	2	3	1	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:138593813C>T	uc011kql.1	-	5	3249	c.3200G>A	c.(3199-3201)CGC>CAC	p.R1067H	KIAA1549_uc003vuk.3_Missense_Mutation_p.R1017H|KIAA1549_uc011kqj.1_Missense_Mutation_p.R1067H	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1067						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TTTCTCAATGCGCTGGGTGAA	0.458			O	BRAF	pilocytic astrocytoma								4	34					0	0	0.009096	0	0		T	138593813	T	T	138593813	3	4	4	1	0	0	0	0	1	0	0	0	8260	768	27	1	2716	1	KIAA1549	7	138593813	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	14564	138593813	20544850	1932	3898											
KIAA1549	57670	broad.mit.edu	37	chr7	138604036	138604036	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaagtagtggcagacggCggggctgtgacatggagagg	11	6	18	6	2	1	3	1	1	0	2	1	4	1	3	0	6	0	3	0	6	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:138604036C>T	uc011kql.1	-	2	385	c.336G>A	c.(334-336)CCG>CCA	p.P112P	KIAA1549_uc003vuk.3_Silent_p.P62P|KIAA1549_uc011kqj.1_Silent_p.P112P	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	112						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TGGCAGACGGCGGGGCTGTGA	0.517			O	BRAF	pilocytic astrocytoma								24	50					0	0	0.00333	0	0		T	138604036	T	T	138604036	2	4	4	1	0	0	0	0	0	0	0	1	8260	755	27	1		1	KIAA1549	7	138604036	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10223	138604036	20534627	1933	3899											
UBN2	254048	broad.mit.edu	37	chr7	138978728	138978728	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttacagcaagcatttcacgGtgagaacgccacctccttca	11	9	7	14	2	2	1	2	1	0	1	3	2	3	1	3	1	4	2	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:138978728G>A	uc011kqr.1	+	17	3994	c.3994_splice	c.e17+1	p.D1332_splice		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2											ovary(1)|skin(1)	2						GCATTTCACGGTGAGAACGCC	0.433													16	26					0	0	0.00499	0	0		A	138978728	A	A	138978728	5	1	4	1	0	0	0	0	0	0	1	0	16919	1275	44	4	4061	4	UBN2	7	138978728	Splice_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	374692	138978728	20159935	1934	3900											
BRAF	673	broad.mit.edu	37	chr7	140434413	140434413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtttcagtggacaggaaacGcaccatatccccctgcctgg	9	9	10	13	1	1	0	1	0	0	0	2	2	2	2	4	3	2	2	4	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:140434413G>A	uc003vwc.3	-	18	2346	c.2285C>T	c.(2284-2286)GCG>GTG	p.A762V		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	762					activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	GACAGGAAACGCACCATATCC	0.403		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				7	336					0	0	0.00308	0	0		A	140434413	A	A	140434413	3	1	4	1	0	0	0	0	1	0	0	0	1499	1087	38	1	19	1	BRAF	7	140434413	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1455685	140434413	18704250	1935	3901											
TAS2R3	50831	broad.mit.edu	37	chr7	141464395	141464395	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatcctgtggtagtaccgCatctctgatcaatgagttta	9	15	8	9	1	2	2	1	2	1	0	4	2	3	2	2	1	1	4	2	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:141464395C>A	uc003vwp.1	+	1	499	c.437C>A	c.(436-438)GCA>GAA	p.A146E		NM_016943	NP_058639	Q9NYW6	TA2R3_HUMAN	taste receptor T2R3	146	Helical; Name=4; (Potential).				sensory perception of taste		taste receptor activity			central_nervous_system(1)	1	Melanoma(164;0.0171)					GGTAGTACCGCATCTCTGATC	0.458													36	71					9.04072e-19	9.89344e-19	0.003271	1	0		A	141464395	A	A	141464395	3	1	4	1	0	0	0	0	1	0	0	0	15597	710	25	5	439	5	TAS2R3	7	141464395	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1029982	141464395	17674268	1936	3902											
MGAM	8972	broad.mit.edu	37	chr7	141796213	141796213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcagccctgtcctggagCgtgtgagtatggaggcctcc	5	10	15	11	1	1	1	1	1	0	0	3	3	3	3	4	4	2	1	4	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:141796213C>T	uc003vwy.2	+	42	5056	c.5002C>T	c.(5002-5004)CGT>TGT	p.R1668C		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1668	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	TGTCCTGGAGCGTGTGAGTAT	0.473													10	40					0	0	0.006214	0	0		T	141796213	T	T	141796213	3	4	4	1	0	0	0	0	1	0	0	0	9559	768	27	1	5164	1	MGAM	7	141796213	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	331818	141796213	17342450	1937	3903											
MGAM	8972	broad.mit.edu	37	chr7	141797431	141797431	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatatttccctagagcccgCtggtatgattactacacggt	9	12	9	11	2	0	2	0	1	0	1	1	2	1	2	2	2	3	3	2	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:141797431C>T	uc003vwy.2	+	43	5097	c.5043C>T	c.(5041-5043)CGC>CGT	p.R1681R		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1681	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	CTAGAGCCCGCTGGTATGATT	0.279													6	33					0	0	0.001984	0	0		T	141797431	T	T	141797431	2	4	4	1	0	0	0	0	0	0	0	1	9559	784	28	2		2	MGAM	7	141797431	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1218	141797431	17341232	1938	3904											
TRPV5	56302	broad.mit.edu	37	chr7	142609695	142609695	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggccaccctccagtgggTgtcgcccatcatggcgatga	6	8	13	14	2	1	1	1	1	0	0	3	2	2	1	4	3	0	0	4	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:142609695T>G	uc003wby.1	-	13	2005	c.1741A>C	c.(1741-1743)ACC>CCC	p.T581P		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	581	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					CTCCAGTGGGTGTCGCCCATC	0.532													7	64					0	0	0.00308	0	0		G	142609695	G	G	142609695	3	3	4	1	0	0	0	0	1	0	0	0	16625	1696	59	5	460	5	TRPV5	7	142609695	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	812264	142609695	16528968	1939	3905											
ZYX	7791	broad.mit.edu	37	chr7	143087068	143087068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acatgaagtgttacaagtgtGaggtcagccatccctctgga	11	10	11	9	0	2	2	1	2	1	0	3	3	3	3	2	2	2	1	2	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:143087068G>A	uc003wcw.2	+	9	1767	c.1612G>A	c.(1612-1614)GAG>AAG	p.E538K	ZYX_uc011ktd.1_Missense_Mutation_p.E381K|ZYX_uc003wcx.2_Missense_Mutation_p.E538K|ZYX_uc011kte.1_Missense_Mutation_p.E507K|ZYX_uc011ktf.1_Missense_Mutation_p.E381K	NM_001010972	NP_001010972	Q15942	ZYX_HUMAN	zyxin	538	LIM zinc-binding 3.				cell adhesion|cell-cell signaling|interspecies interaction between organisms|signal transduction	cell-cell adherens junction|cytoplasm|focal adhesion|integral to plasma membrane|nucleus|stress fiber	protein binding|zinc ion binding				0	Melanoma(164;0.205)					TTACAAGTGTGAGGTCAGCCA	0.572													20	50					0	0	0.010504	0	0		A	143087068	A	A	143087068	3	1	4	1	0	0	0	0	1	0	0	0	18279	1291	45	4	1642	4	ZYX	7	143087068	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	477373	143087068	16051595	1940	3906											
FAM115A	9747	broad.mit.edu	37	chr7	143573264	143573264	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctcctatgagcaagccGccaccacatttcatgaactt	10	11	6	14	1	1	2	1	2	0	0	3	2	3	2	5	0	3	1	5	0	3	3	rs150457102	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:143573264G>A	uc003wdo.1	-	2	571	c.438C>T	c.(436-438)GGC>GGT	p.G146G	FAM115A_uc011ktu.1_Intron|FAM115A_uc003wdp.1_Silent_p.G146G	NM_014719	NP_055534	Q9Y4C2	F115A_HUMAN	hypothetical protein LOC9747	146											0	Melanoma(164;0.0903)					TGAGCAAGCCGCCACCACATT	0.522													6	62					0	0	0.001168	0	0		A	143573264	A	A	143573264	2	1	4	1	0	0	0	0	0	0	0	1	5416	1074	38	1		1	FAM115A	7	143573264	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	486196	143573264	15565399	1941	3907											
OR2F2	135948	broad.mit.edu	37	chr7	143632824	143632824	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgctatcacctttcagctgCccatgtgcactaacaagttt	9	13	6	13	0	2	0	2	0	0	0	2	0	2	0	2	0	5	4	2	0	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:143632824C>A	uc011ktv.1	+	1	499	c.499C>A	c.(499-501)CCC>ACC	p.P167T		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					CTTTCAGCTGCCCATGTGCAC	0.522													23	45					2.48779e-11	2.68585e-11	0.005443	1	0		A	143632824	A	A	143632824	3	1	4	1	0	0	0	0	1	0	0	0	11016	739	26	5	501	5	OR2F2	7	143632824	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	59560	143632824	15505839	1942	3908											
OR2F1	26211	broad.mit.edu	37	chr7	143657808	143657808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcacctcacagtggttGccctgtgctatggtgtggcc	4	12	11	14	0	2	0	2	0	1	0	3	0	2	0	4	3	2	2	4	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:143657808G>A	uc003wds.1	+	1	789	c.745G>A	c.(745-747)GCC>ACC	p.A249T		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					CACAGTGGTTGCCCTGTGCTA	0.478													20	69					0	0	0.005443	0	0		A	143657808	A	A	143657808	3	1	4	1	0	0	0	0	1	0	0	0	11015	1319	46	2	747	2	OR2F1	7	143657808	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	24984	143657808	15480855	1943	3909											
CNTNAP2	26047	broad.mit.edu	37	chr7	147336252	147336252	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatgcagacgcctgtggTcggctacaacccagaaaaat	13	6	11	11	2	0	3	0	0	0	3	1	3	0	3	2	2	3	3	2	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:147336252T>C	uc003weu.1	+	13	2468	c.1952T>C	c.(1951-1953)GTC>GCC	p.V651A		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	651	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ACGCCTGTGGTCGGCTACAAC	0.507										HNSCC(39;0.1)			20	84					0	0	0.001882	0	0		C	147336252	C	C	147336252	3	2	4	1	0	0	0	0	1	0	0	0	3650	1667	58	3	2002	3	CNTNAP2	7	147336252	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	3678444	147336252	11802411	1944	3910											
CUL1	8454	broad.mit.edu	37	chr7	148456729	148456729	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtggagttgtacagtcttaCggtaaataatttccctttag	11	15	9	6	1	1	0	0	0	1	0	2	1	2	1	1	2	2	3	1	2	6	8	rs144866150	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:148456729C>T	uc010lpg.2	+	6	1150	c.624C>T	c.(622-624)TAC>TAT	p.Y208Y	CUL1_uc003wey.2_Silent_p.Y208Y|CUL1_uc003wez.2_Silent_p.Y98Y	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	208					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			TACAGTCTTACGGTAAATAAT	0.289													15	36					0	0	0.003163	0	0		T	148456729	T	T	148456729	2	4	4	1	0	0	0	0	0	0	0	1	4057	550	19	1		1	CUL1	7	148456729	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1120477	148456729	10681934	1945	3911											
CUL1	8454	broad.mit.edu	37	chr7	148485686	148485686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacacctctaaacttcagcGcatgtttcaagacattggcg	11	11	8	11	2	3	1	2	0	1	1	3	1	3	1	1	1	3	3	1	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:148485686G>A	uc010lpg.2	+	14	2043	c.1517G>A	c.(1516-1518)CGC>CAC	p.R506H	CUL1_uc003wey.2_Missense_Mutation_p.R506H|CUL1_uc003wez.2_Missense_Mutation_p.R396H|CUL1_uc003wfa.2_Missense_Mutation_p.R167H	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	506					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			AAACTTCAGCGCATGTTTCAA	0.418													5	107					0	0	0.000602	0	0		A	148485686	A	A	148485686	3	1	4	1	0	0	0	0	1	0	0	0	4057	1087	38	1	1567	1	CUL1	7	148485686	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	28957	148485686	10652977	1946	3912											
CUL1	8454	broad.mit.edu	37	chr7	148496426	148496426	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaccagcagttacttggCgaggtcctcactcagctgtc	10	9	9	13	1	2	0	2	0	0	0	4	1	3	0	2	2	4	3	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:148496426C>T	uc010lpg.2	+	21	2722	c.2196C>T	c.(2194-2196)GGC>GGT	p.G732G	CUL1_uc003wey.2_Silent_p.G732G|CUL1_uc003wez.2_Silent_p.G622G|CUL1_uc003wfa.2_Silent_p.G393G	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	732					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			AGTTACTTGGCGAGGTCCTCA	0.453													5	60					0	0	0.000602	0	0		T	148496426	T	T	148496426	2	4	4	1	0	0	0	0	0	0	0	1	4057	755	27	1		1	CUL1	7	148496426	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10740	148496426	10642237	1947	3913											
EZH2	2146	broad.mit.edu	37	chr7	148544339	148544339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtactctgattttacacGcttccgccaacaaactggtc	10	12	6	13	2	1	1	0	1	1	0	3	1	2	1	2	1	4	2	2	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:148544339G>A	uc003wfd.1	-	2	218	c.52C>T	c.(52-54)CGT>TGT	p.R18C	EZH2_uc011kug.1_Missense_Mutation_p.R18C|EZH2_uc003wfb.1_Missense_Mutation_p.R18C|EZH2_uc003wfc.1_Missense_Mutation_p.R18C|EZH2_uc011kuh.1_Missense_Mutation_p.R18C|EZH2_uc011kui.1_Missense_Mutation_p.R18C|EZH2_uc011kuj.1_RNA	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	18	Interaction with DNMT1, DNMT3A and DNMT3B.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			GATTTTACACGCTTCCGCCAA	0.378			Mis		DLBCL								20	203					0	0	0.00278	0	0		A	148544339	A	A	148544339	3	1	4	1	0	0	0	0	1	0	0	0	5342	1087	38	1	2279	1	EZH2	7	148544339	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	47913	148544339	10594324	1948	3914											
C7orf29	113763	broad.mit.edu	37	chr7	150027622	150027622	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtgtcggggagaggggCgcagccatccagctggctga	8	5	18	10	2	0	3	0	1	0	2	2	4	1	3	2	5	2	3	2	5	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:150027622C>T	uc003wgy.2	+	1	685	c.129C>T	c.(127-129)GGC>GGT	p.G43G	LRRC61_uc003wgv.2_Intron|LRRC61_uc003wgx.2_Intron|LRRC61_uc003wgw.2_Intron	NM_138434	NP_612443	Q96FA7	CG029_HUMAN	hypothetical protein LOC113763	43										ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.011)			GGGAGAGGGGCGCAGCCATCC	0.627													8	33					0	0	0.008291	0	0		T	150027622	T	T	150027622	2	4	4	1	0	0	0	0	0	0	0	1	2388	755	27	1		1	C7orf29	7	150027622	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1483283	150027622	9111041	1949	3915											
REPIN1	29803	broad.mit.edu	37	chr7	150069158	150069158	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaagcgctttaccaataaGccctatctgacttcgcaccg	10	9	9	13	3	1	1	0	1	1	0	2	2	1	2	3	1	3	2	3	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:150069158G>T	uc010lpq.1	+	4	1317	c.828G>T	c.(826-828)AAG>AAT	p.K276N	REPIN1_uc003whd.2_Missense_Mutation_p.K265N|REPIN1_uc010lpr.1_Missense_Mutation_p.K333N|REPIN1_uc003whc.2_Missense_Mutation_p.K276N|REPIN1_uc003whe.2_Missense_Mutation_p.K276N	NM_013400	NP_037532	Q9BWE0	REPI1_HUMAN	replication initiator 1 isoform 1	276	C2H2-type 7.				DNA replication	nuclear origin of replication recognition complex	DNA binding|zinc ion binding			pancreas(1)	1	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)			TTACCAATAAGCCCTATCTGA	0.657													7	16					3.86212e-05	4.06125e-05	0.008291	1	0		T	150069158	T	T	150069158	3	4	4	1	0	0	0	0	1	0	0	0	13252	962	34	5	1005	5	REPIN1	7	150069158	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	41536	150069158	9069505	1950	3916											
AGAP3	116988	broad.mit.edu	37	chr7	150815376	150815376	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagatctgaagcggtgcacCtactatgagacgtgcgcgac	11	7	12	11	4	1	3	0	2	1	2	1	5	1	3	1	1	4	1	1	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:150815376C>T	uc003wjg.1	+	6	789	c.786C>T	c.(784-786)ACC>ACT	p.T262T	AGAP3_uc003wje.1_Silent_p.T34T|AGAP3_uc003wjf.1_Silent_p.T262T|AGAP3_uc010lpy.1_Silent_p.T262T|AGAP3_uc003wjh.1_Silent_p.T442T	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	226	Small GTPase-like.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3						AGCGGTGCACCTACTATGAGA	0.642													5	55					0	0	0.001984	0	0		T	150815376	T	T	150815376	2	4	4	1	0	0	0	0	0	0	0	1	369	668	24	4		4	AGAP3	7	150815376	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	746218	150815376	8323287	1951	3917											
ABCF2	10061	broad.mit.edu	37	chr7	150912693	150912693	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccctcctttactgacctgTtgtttcccagtgagaccgta	7	13	7	14	1	0	2	0	2	0	1	2	3	2	2	5	0	1	3	5	0	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:150912693T>A	uc003wjp.2	-	13	1638	c.1527A>T	c.(1525-1527)CAA>CAT	p.Q509H	ABCF2_uc003wjo.1_Missense_Mutation_p.Q509H	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	509	ABC transporter 2.					ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TACTGACCTGTTGTTTCCCAG	0.522													68	194					0	0	0.00361	0	0		A	150912693	A	A	150912693	3	1	4	1	0	0	0	0	1	0	0	0	66	1722	60	5	397	5	ABCF2	7	150912693	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	97317	150912693	8225970	1952	3918											
CHPF2	54480	broad.mit.edu	37	chr7	150932242	150932242	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggctgtgaaccgtacggtGgcccatcacttccctcggtt	5	11	12	13	3	1	1	1	1	0	0	3	1	2	1	3	4	2	3	3	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:150932242G>A	uc003wjr.1	+	2	1885	c.372G>A	c.(370-372)GTG>GTA	p.V124V	CHPF2_uc003wjq.1_Silent_p.V116V	NM_019015	NP_061888	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	124	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(1)	1						ACCGTACGGTGGCCCATCACT	0.647													6	25					0	0	0.004482	0	0		A	150932242	A	A	150932242	2	1	4	1	0	0	0	0	0	0	0	1	3372	1335	47	4		4	CHPF2	7	150932242	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	19549	150932242	8206421	1953	3919											
MLL3	58508	broad.mit.edu	37	chr7	151836322	151836322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacatggtcgttatccatgCggaacatgtacacaccacgg	11	9	9	12	3	1	0	1	0	0	0	3	1	2	1	2	3	3	2	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:151836322C>T	uc003wla.2	-	57	14702	c.14483G>A	c.(14482-14484)CGC>CAC	p.R4828H	MLL3_uc003wkz.2_Missense_Mutation_p.R3942H|MLL3_uc003wkx.2_Missense_Mutation_p.R986H|MLL3_uc003wky.2_Missense_Mutation_p.R2388H	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4828	SET.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GTTATCCATGCGGAACATGTA	0.552			N		medulloblastoma								5	53					0	0	0.001984	0	0		T	151836322	T	T	151836322	3	4	4	1	0	0	0	0	1	0	0	0	9640	768	27	1	264	1	MLL3	7	151836322	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	904080	151836322	7302341	1954	3920											
MLL3	58508	broad.mit.edu	37	chr7	151845551	151845551	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcattgtgctttaatggcGcaagtgaagtgataaatgtt	12	14	11	4	1	0	2	0	2	0	0	0	2	0	2	0	1	2	4	0	1	5	5	rs138230031		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:151845551G>A	uc003wla.2	-	52	13680	c.13461C>T	c.(13459-13461)TGC>TGT	p.C4487C	MLL3_uc003wkz.2_Silent_p.C3605C|MLL3_uc003wkx.2_Silent_p.C645C|MLL3_uc003wky.2_Silent_p.C2051C	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4487					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CTTTAATGGCGCAAGTGAAGT	0.423			N		medulloblastoma								12	118					0	0	0.001368	0	0		A	151845551	A	A	151845551	2	1	4	1	0	0	0	0	0	0	0	1	9640	1079	38	1		1	MLL3	7	151845551	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	9229	151845551	7293112	1955	3921											
MLL3	58508	broad.mit.edu	37	chr7	151873336	151873336	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcttgcatctgtctttgctGctgctgttcttgcctttctt	1	20	9	11	0	4	0	0	0	4	0	4	0	4	0	1	1	5	6	1	1	0	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:151873336G>A	uc003wla.2	-	38	9421	c.9202C>T	c.(9202-9204)CAG>TAG	p.Q3068*	MLL3_uc003wkz.2_Nonsense_Mutation_p.Q2129*|MLL3_uc003wky.2_Nonsense_Mutation_p.Q577*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3068	Potential.|Gln-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TGTCTTTGCTGCTGCTGTTCT	0.433			N		medulloblastoma								7	129					0	0	0.004482	0	0		A	151873336	A	A	151873336	4	1	4	1	0	0	0	0	0	1	0	0	9640	1328	46	2	5621	2	MLL3	7	151873336	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	27785	151873336	7265327	1956	3922											
MLL3	58508	broad.mit.edu	37	chr7	151878430	151878430	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggctgctgactatatgggTcaacagtagtaggccgggga	9	8	17	7	1	1	1	1	1	0	0	1	2	1	2	1	6	2	4	1	6	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:151878430T>C	uc003wla.2	-	36	6734	c.6515A>G	c.(6514-6516)GAC>GGC	p.D2172G	MLL3_uc003wkz.2_Missense_Mutation_p.D1233G	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2172	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACTATATGGGTCAACAGTAGT	0.463			N		medulloblastoma								13	78					0	0	0.004007	0	0		C	151878430	C	C	151878430	3	2	4	1	0	0	0	0	1	0	0	0	9640	1667	58	3	8316	3	MLL3	7	151878430	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	5094	151878430	7260233	1957	3923											
MLL3	58508	broad.mit.edu	37	chr7	151878749	151878749	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagggtcaacagacaatcGccttgatgcctgtgacactg	12	9	10	10	1	1	3	1	2	0	1	2	3	1	3	2	1	2	0	2	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:151878749G>A	uc003wla.2	-	36	6415	c.6196C>T	c.(6196-6198)CGA>TGA	p.R2066*	MLL3_uc003wkz.2_Nonsense_Mutation_p.R1127*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2066	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACAGACAATCGCCTTGATGCC	0.453			N		medulloblastoma								18	36					0	0	0.008871	0	0		A	151878749	A	A	151878749	4	1	4	1	0	0	0	0	0	1	0	0	9640	1095	38	1	8635	1	MLL3	7	151878749	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	319	151878749	7259914	1958	3924											
MLL3	58508	broad.mit.edu	37	chr7	151962157	151962157	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttgcactcaggacattGccaacctgcacgttttaatg	10	12	7	12	1	1	0	1	0	0	0	1	1	1	1	2	1	4	3	2	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:151962157G>A	uc003wla.2	-	8	1369	c.1150C>T	c.(1150-1152)CAA>TAA	p.Q384*		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	384	PHD-type 1.|RING-type.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TCAGGACATTGCCAACCTGCA	0.428			N		medulloblastoma								13	488					0	0	0.003163	0	0		A	151962157	A	A	151962157	4	1	4	1	0	0	0	0	0	1	0	0	9640	1328	46	2	13793	2	MLL3	7	151962157	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	83408	151962157	7176506	1959	3925											
DPP6	1804	broad.mit.edu	37	chr7	154561150	154561150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agattttgaagacacacatcGcacactggtggtctccggat	11	10	10	10	2	1	3	0	1	1	2	3	4	1	4	1	3	0	1	1	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:154561150G>A	uc003wlk.2	+	9	1036	c.907G>A	c.(907-909)GCA>ACA	p.A303T	DPP6_uc003wli.2_Missense_Mutation_p.A239T|DPP6_uc003wlm.2_Missense_Mutation_p.A241T|DPP6_uc011kvq.1_Missense_Mutation_p.A196T	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	303	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			GACACACATCGCACACTGGTG	0.507													13	38					0	0	0.001855	0	0		A	154561150	A	A	154561150	3	1	4	1	0	0	0	0	1	0	0	0	4736	1087	38	1	1057	1	DPP6	7	154561150	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2598993	154561150	4577513	1960	3926											
PTPRN2	5799	broad.mit.edu	37	chr7	157369425	157369425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcttcagatagaagctcCtcaccaggaagtcctcacac	11	9	8	13	0	4	2	3	0	1	2	6	3	6	3	3	2	1	2	3	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:157369425C>T	uc003wno.2	-	19	2784	c.2663G>A	c.(2662-2664)AGG>AAG	p.R888K	PTPRN2_uc003wnp.2_Missense_Mutation_p.R871K|PTPRN2_uc003wnq.2_Missense_Mutation_p.R859K|PTPRN2_uc003wnr.2_Missense_Mutation_p.R850K|PTPRN2_uc011kwa.1_Missense_Mutation_p.R911K|uc011kwb.1_5'Flank|MIR153-2_hsa-mir-153-2|MI0000464_5'Flank	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	888	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		ATAGAAGCTCCTCACCAGGAA	0.582													4	11					0	0	0.009096	0	0		T	157369425	T	T	157369425	3	4	4	1	0	0	0	0	1	0	0	0	12833	681	24	4	404	4	PTPRN2	7	157369425	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2808275	157369425	1769238	1961	3927											
FBXO25	26260	broad.mit.edu	37	chr8	401417	401417	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgattagaaactattctcgcCtggcaacaacagctacagga	14	8	8	11	2	1	1	0	0	1	1	2	3	1	2	1	2	5	2	1	2	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:401417C>T	uc003wox.2	+	7	890	c.624C>T	c.(622-624)GCC>GCT	p.A208A	FBXO25_uc003woy.2_Silent_p.A208A|FBXO25_uc003woz.2_Silent_p.A141A|FBXO25_uc003wpa.2_5'UTR	NM_183421	NP_904357	Q8TCJ0	FBX25_HUMAN	F-box only protein 25 isoform 1	208						nucleus|SCF ubiquitin ligase complex	actin binding|ubiquitin-protein ligase activity			lung(1)	1		Ovarian(12;0.00965)|Colorectal(14;0.0815)|Myeloproliferative disorder(644;0.116)|all_neural(12;0.122)		Epithelial(5;3.14e-14)|OV - Ovarian serous cystadenocarcinoma(5;1.56e-07)|BRCA - Breast invasive adenocarcinoma(11;1.88e-06)		CTATTCTCGCCTGGCAACAAC	0.368													5	73					0	0	0.001168	0	0		T	401417	T	T	401417	2	4	4	1	0	0	0	0	0	0	0	1	5750	668	24	4		4	FBXO25	8	401417	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08		401417	145962605	1962	3928											
DLGAP2	9228	broad.mit.edu	37	chr8	1497706	1497706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttggcgctgacgcccgacGccaagtacctgaagcgcagc	8	5	14	14	5	0	2	0	2	0	0	0	3	0	2	3	2	3	4	3	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:1497706G>A	uc003wpl.2	+	2	944	c.847G>A	c.(847-849)GCC>ACC	p.A283T	DLGAP2_uc003wpm.2_Missense_Mutation_p.A283T	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	362					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		GACGCCCGACGCCAAGTACCT	0.647													4	22					0	0	0.009096	0	0		A	1497706	A	A	1497706	3	1	4	1	0	0	0	0	1	0	0	0	4566	1087	38	1	849	1	DLGAP2	8	1497706	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1096289	1497706	144866316	1963	3929											
DLGAP2	9228	broad.mit.edu	37	chr8	1649446	1649446	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctggacctgcccgacagAcaacgccaggaagcccggag	10	3	12	16	3	0	1	0	0	0	1	1	5	1	4	5	3	3	0	5	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:1649446A>G	uc003wpl.2	+	12	2899	c.2802A>G	c.(2800-2802)AGA>AGG	p.R934R	DLGAP2_uc003wpm.2_Silent_p.R920R	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	1013					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		TGCCCGACAGACAACGCCAGG	0.592													3	12					0	0	0.000602	0	0		G	1649446	G	G	1649446	2	3	4	1	0	0	0	0	0	0	0	1	4566	272	10	3		3	DLGAP2	8	1649446	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	151740	1649446	144714576	1964	3930											
ARHGEF10	9639	broad.mit.edu	37	chr8	1814720	1814720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtcggtcgagaggacagcGcacttgcccgctgggccgca	8	5	15	13	5	0	1	0	0	0	1	2	3	0	2	2	3	2	3	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:1814720G>A	uc003wpr.2	+	6	752	c.574G>A	c.(574-576)GCA>ACA	p.A192T	ARHGEF10_uc003wpq.1_Missense_Mutation_p.A217T|ARHGEF10_uc003wps.2_Missense_Mutation_p.A193T|ARHGEF10_uc003wpt.2_Missense_Mutation_p.A107T|ARHGEF10_uc010lrd.1_Missense_Mutation_p.A107T|ARHGEF10_uc003wpu.2_Missense_Mutation_p.A106T	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	217					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		AGAGGACAGCGCACTTGCCCG	0.562													4	42					0	0	0.000602	0	0		A	1814720	A	A	1814720	3	1	4	1	0	0	0	0	1	0	0	0	894	1087	38	1	592	1	ARHGEF10	8	1814720	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	165274	1814720	144549302	1965	3931											
ARHGEF10	9639	broad.mit.edu	37	chr8	1817418	1817418	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactcagactctgaaccaggTttgattttgtctggaattga	11	14	9	7	0	3	4	1	3	2	1	3	5	3	5	1	2	2	1	1	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:1817418T>C	uc003wpr.2	+	7	857	c.679_splice	c.e7+2	p.D227_splice	ARHGEF10_uc003wpq.1_Splice_Site_p.D252_splice|ARHGEF10_uc003wps.2_Splice_Site_p.D228_splice|ARHGEF10_uc003wpt.2_Splice_Site_p.D142_splice|ARHGEF10_uc010lrd.1_Silent_p.G142G|ARHGEF10_uc003wpu.2_Silent_p.G141G	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10						centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		CTGAACCAGGTTTGATTTTGT	0.443													10	62					0	0	0.000978	0	0		C	1817418	C	C	1817418	5	2	4	1	0	0	0	0	0	0	1	0	894	1739	60	3	703	3	ARHGEF10	8	1817418	Splice_Site	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2698	1817418	144546604	1966	3932											
CSMD1	64478	broad.mit.edu	37	chr8	3205517	3205517	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaagattctttttaccttTagagtatctccttcaaacag	12	15	6	8	0	3	3	1	0	2	3	4	4	3	3	2	0	2	1	2	0	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:3205517T>C	uc011kwk.1	-	22	3864	c.3474A>G	c.(3472-3474)CTA>CTG	p.L1158L	CSMD1_uc011kwj.1_Silent_p.L550L|CSMD1_uc003wqe.2_Silent_p.L314L	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1158	Extracellular (Potential).|CUB 7.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TTTTTACCTTTAGAGTATCTC	0.303													3	17					0	0	0.009096	0	0		C	3205517	C	C	3205517	2	2	4	1	0	0	0	0	0	0	0	1	3947	1741	61	3		3	CSMD1	8	3205517	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1388099	3205517	143158505	1967	3933											
ANGPT2	285	broad.mit.edu	37	chr8	6360702	6360702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtagtaccatttaatgcCgttgaacttatttgtgttct	9	17	7	8	1	1	1	0	1	1	0	1	1	1	1	3	0	3	4	3	0	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:6360702C>T	uc003wqj.3	-	9	1740	c.1411G>A	c.(1411-1413)GGC>AGC	p.G471S	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.G470S|ANGPT2_uc010lri.2_Missense_Mutation_p.G419S	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	471	Fibrinogen C-terminal.				angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		CATTTAATGCCGTTGAACTTA	0.463													6	101					0	0	0.001984	0	0		T	6360702	T	T	6360702	3	4	4	1	0	0	0	0	1	0	0	0	611	652	23	1	83	1	ANGPT2	8	6360702	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3155185	6360702	140003320	1968	3934											
ANGPT2	285	broad.mit.edu	37	chr8	6371295	6371295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgtattttaagcacatagCgttgctgattagtcagttgc	9	15	11	6	1	1	1	1	1	0	0	1	1	1	1	0	1	4	5	0	1	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:6371295C>T	uc003wqj.3	-	7	1432	c.1103G>A	c.(1102-1104)CGC>CAC	p.R368H	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.R367H|ANGPT2_uc010lri.2_Missense_Mutation_p.R316H|ANGPT2_uc003wql.3_Missense_Mutation_p.R367H	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	368	Fibrinogen C-terminal.				angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		AAGCACATAGCGTTGCTGATT	0.363													6	84					0	0	0.00308	0	0		T	6371295	T	T	6371295	3	4	4	1	0	0	0	0	1	0	0	0	611	768	27	1	399	1	ANGPT2	8	6371295	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10593	6371295	139992727	1969	3935											
ANGPT2	285	broad.mit.edu	37	chr8	6420295	6420295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtaggggctggaggaagagCggcagttgtccatctctggc	7	8	17	9	2	1	1	0	0	1	1	3	3	2	3	1	6	1	4	1	6	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:6420295C>T	uc003wqj.3	-	1	490	c.161G>A	c.(160-162)CGC>CAC	p.R54H	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.R54H|ANGPT2_uc010lri.2_Missense_Mutation_p.R54H|ANGPT2_uc003wql.3_Missense_Mutation_p.R54H	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	54					angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		GGAGGAAGAGCGGCAGTTGTC	0.552													4	36					0	0	0.001168	0	0		T	6420295	T	T	6420295	3	4	4	1	0	0	0	0	1	0	0	0	611	768	27	1	1365	1	ANGPT2	8	6420295	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	49000	6420295	139943727	1970	3936											
ERI1	90459	broad.mit.edu	37	chr8	8869247	8869247	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggttgttttactgaatacGcatactttagaaatagtaag	13	14	8	6	2	0	2	0	1	0	1	0	2	0	2	1	1	3	4	1	1	8	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:8869247G>A	uc011kwu.1	+	3	743	c.483G>A	c.(481-483)ACG>ACA	p.T161T	ERI1_uc003wsk.2_Silent_p.T161T	NM_153332	NP_699163	Q8IV48	ERI1_HUMAN	three prime histone mRNA exonuclease 1	161	Exonuclease.				gene silencing by RNA|rRNA 3'-end processing	cytoplasm|histone pre-mRNA 3'end processing complex|nucleolus	3'-5' exonuclease activity|histone pre-mRNA stem-loop binding|metal ion binding|ribosome binding|rRNA binding				0					Adenosine monophosphate(DB00131)	TACTGAATACGCATACTTTAG	0.328													7	34					0	0	0.001984	0	0		A	8869247	A	A	8869247	2	1	4	1	0	0	0	0	0	0	0	1	5235	1074	38	1		1	ERI1	8	8869247	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2448952	8869247	137494775	1971	3937											
TNKS	8658	broad.mit.edu	37	chr8	9567472	9567472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttactttatagcactgtgCtgtggcctctctgcatccca	6	15	8	12	0	1	0	0	0	1	0	3	0	2	0	2	1	4	4	2	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:9567472C>T	uc003wss.2	+	10	1591	c.1586C>T	c.(1585-1587)GCT>GTT	p.A529V	TNKS_uc011kwv.1_Missense_Mutation_p.A529V|TNKS_uc011kww.1_Missense_Mutation_p.A292V	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	529	ANK 7.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		TAGCACTGTGCTGTGGCCTCT	0.333													16	36					0	0	0.00499	0	0		T	9567472	T	T	9567472	3	4	4	1	0	0	0	0	1	0	0	0	16344	797	28	2	1624	2	TNKS	8	9567472	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	698225	9567472	136796550	1972	3938											
TNKS	8658	broad.mit.edu	37	chr8	9605598	9605598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgcaacagataagtgggCgtttactcccctccatgaag	13	9	9	10	1	0	2	0	1	0	1	2	2	2	2	3	1	3	2	3	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:9605598C>T	uc003wss.2	+	18	2713	c.2708C>T	c.(2707-2709)GCG>GTG	p.A903V	TNKS_uc011kww.1_Missense_Mutation_p.A666V|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	903	ANK 15.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		GATAAGTGGGCGTTTACTCCC	0.468													12	98					0	0	0.00245	0	0		T	9605598	T	T	9605598	3	4	4	1	0	0	0	0	1	0	0	0	16344	768	27	1	2778	1	TNKS	8	9605598	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	38126	9605598	136758424	1973	3939											
TNKS	8658	broad.mit.edu	37	chr8	9605648	9605648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaaggacgcagctgtgcGccctcctcctagcgcatggt	8	7	13	13	3	0	0	0	0	0	0	2	2	2	2	3	3	3	3	3	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:9605648G>A	uc003wss.2	+	18	2763	c.2758G>A	c.(2758-2760)GCC>ACC	p.A920T	TNKS_uc011kww.1_Missense_Mutation_p.A683T|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	920	ANK 15.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding	p.A920T(1)		lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		GCAGCTGTGCGCCCTCCTCCT	0.507													11	51					0	0	0.008291	0	0		A	9605648	A	A	9605648	3	1	4	1	0	0	0	0	1	0	0	0	16344	1087	38	1	2828	1	TNKS	8	9605648	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	50	9605648	136758374	1974	3940											
RP1L1	94137	broad.mit.edu	37	chr8	10464545	10464545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtccttgagcccaaaggggCctcttcttgctcagaagtag	9	10	11	11	0	3	2	1	1	2	1	4	2	4	2	3	2	2	2	3	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:10464545C>T	uc003wtc.2	-	4	7292	c.7063G>A	c.(7063-7065)GCC>ACC	p.A2355T		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	2355					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CCCAAAGGGGCCTCTTCTTGC	0.587													26	83					0	0	0.004656	0	0		T	10464545	T	T	10464545	3	4	4	1	0	0	0	0	1	0	0	0	13558	739	26	2	143	2	RP1L1	8	10464545	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	858897	10464545	135899477	1975	3941											
RP1L1	94137	broad.mit.edu	37	chr8	10480258	10480258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttaatcagcagtatcctccGgggggttttaagactcttcc	8	13	9	11	1	2	1	1	0	1	1	5	1	5	1	3	3	1	3	3	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:10480258G>A	uc003wtc.2	-	2	683	c.454C>T	c.(454-456)CGG>TGG	p.R152W		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	152					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		AGTATCCTCCGGGGGGTTTTA	0.582													16	88					0	0	0.006122	0	0		A	10480258	A	A	10480258	3	1	4	1	0	0	0	0	1	0	0	0	13558	1115	39	1	6760	1	RP1L1	8	10480258	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	15713	10480258	135883764	1976	3942											
RP1L1	94137	broad.mit.edu	37	chr8	10480525	10480525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagctcgtccatgagggCgctgaaggtcttaaaggcgc	9	7	16	9	3	1	3	0	2	1	1	3	4	2	3	1	4	1	2	1	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:10480525C>T	uc003wtc.2	-	2	416	c.187G>A	c.(187-189)GCC>ACC	p.A63T		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	63					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TCCATGAGGGCGCTGAAGGTC	0.652													4	22					0	0	0.009096	0	0		T	10480525	T	T	10480525	3	4	4	1	0	0	0	0	1	0	0	0	13558	768	27	1	7027	1	RP1L1	8	10480525	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	267	10480525	135883497	1977	3943											
XKR6	286046	broad.mit.edu	37	chr8	10755900	10755900	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctgtgggatgcagcacGccatagtataagagcatcat	11	9	12	9	1	1	1	1	0	0	1	2	2	2	2	2	2	3	4	2	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:10755900G>A	uc003wtk.1	-	3	1515	c.1488C>T	c.(1486-1488)GGC>GGT	p.G496G		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	496						integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		GATGCAGCACGCCATAGTATA	0.562													8	29					0	0	0.004482	0	0		A	10755900	A	A	10755900	2	1	4	1	0	0	0	0	0	0	0	1	17461	1074	38	1		1	XKR6	8	10755900	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	275375	10755900	135608122	1978	3944											
MTMR9	66036	broad.mit.edu	37	chr8	11180276	11180276	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaactggaaacagaggaCgggatgcaggagagtccctg	13	4	16	8	1	0	3	0	0	0	3	1	7	1	6	1	4	3	2	1	4	2	0	rs148685240		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:11180276C>T	uc003wtm.2	+	10	2027	c.1629C>T	c.(1627-1629)GAC>GAT	p.D543D	MTMR9_uc010lrx.2_Silent_p.D436D|MTMR9_uc011kxa.1_Silent_p.D458D|uc003wtn.1_5'Flank|uc003wto.1_Intron	NM_015458	NP_056273	Q96QG7	MTMR9_HUMAN	myotubularin related protein 9	543						cytoplasm	phosphatase activity|protein binding				0			STAD - Stomach adenocarcinoma(15;0.215)	COAD - Colon adenocarcinoma(149;0.0678)		AAACAGAGGACGGGATGCAGG	0.463													11	57					0	0	0.001855	0	0		T	11180276	T	T	11180276	2	4	4	1	0	0	0	0	0	0	0	1	9968	535	19	1		1	MTMR9	8	11180276	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	424376	11180276	135183746	1979	3945											
AMAC1L2	83650	broad.mit.edu	37	chr8	11188883	11188883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgccctgctacttaaactgCgtggcgacccccttctggga	6	11	10	14	2	1	0	0	0	1	0	1	2	1	1	3	2	5	1	3	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:11188883C>T	uc003wtp.1	+	1	389	c.268C>T	c.(268-270)CGT>TGT	p.R90C		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	90	DUF6 1.					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		ACTTAAACTGCGTGGCGACCC	0.582													35	144					0	0	0.00623	0	0		T	11188883	T	T	11188883	3	4	4	1	0	0	0	0	1	0	0	0	560	768	27	1	270	1	AMAC1L2	8	11188883	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	8607	11188883	135175139	1980	3946											
FAM167A	83648	broad.mit.edu	37	chr8	11301681	11301681	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcagggggagcaagggCtcctgccccccacgctcccc	5	6	11	19	1	2	0	1	0	1	0	5	1	4	1	6	3	2	3	6	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:11301681C>T	uc010lry.1	-	2	860	c.240G>A	c.(238-240)GAG>GAA	p.E80E	FAM167A_uc003wtw.2_Silent_p.E80E	NM_053279	NP_444509	Q96KS9	F167A_HUMAN	hypothetical protein LOC83648	80											0						GGAGCAAGGGCTCCTGCCCCC	0.687													4	9					0	0	0.000602	0	0		T	11301681	T	T	11301681	2	4	4	1	0	0	0	0	0	0	0	1	5494	796	28	2		2	FAM167A	8	11301681	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	112798	11301681	135062341	1981	3947											
GATA4	2626	broad.mit.edu	37	chr8	11615827	11615827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcagtcagtgcgatgtctgGccatgggccctccatccacc	6	9	10	16	1	3	0	2	0	1	0	5	1	5	0	5	2	1	0	5	2	0	0	rs147093296		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:11615827G>A	uc003wuc.2	+	7	1726	c.1172G>A	c.(1171-1173)GGC>GAC	p.G391D	GATA4_uc003wub.1_Missense_Mutation_p.G185D|GATA4_uc011kxc.1_Missense_Mutation_p.G392D|uc003wud.1_5'Flank	NM_002052	NP_002043	P43694	GATA4_HUMAN	GATA binding protein 4	391					atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)		GCGATGTCTGGCCATGGGCCC	0.612													23	76					0	0	0.007291	0	0		A	11615827	A	A	11615827	3	1	4	1	0	0	0	0	1	0	0	0	6271	1203	42	2	1194	2	GATA4	8	11615827	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	314146	11615827	134748195	1982	3948											
USP17L2	377630	broad.mit.edu	37	chr8	11996191	11996191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggatttcagcaaaagctgCatctggccgagaagatgtga	12	9	12	8	1	2	3	1	1	1	2	2	5	2	4	1	2	3	3	1	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:11996191C>T	uc003wvc.1	-	1	79	c.79G>A	c.(79-81)GCA>ACA	p.A27T	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	27					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3						GCAAAAGCTGCATCTGGCCGA	0.527													9	84					0	0	0.001368	0	0		T	11996191	T	T	11996191	3	4	4	1	0	0	0	0	1	0	0	0	17074	710	25	2	1517	2	USP17L2	8	11996191	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	380364	11996191	134367831	1983	3949											
TUSC3	7991	broad.mit.edu	37	chr8	15508247	15508247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatactggcgaactcctggcGctattcatctgctttttgta	8	15	8	10	2	2	0	1	0	1	0	3	1	3	0	1	2	3	3	1	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:15508247G>A	uc003wwt.2	+	3	560	c.350G>A	c.(349-351)CGC>CAC	p.R117H	TUSC3_uc003wwr.2_Missense_Mutation_p.R117H|TUSC3_uc003wws.2_Missense_Mutation_p.R117H|TUSC3_uc003wwu.2_Missense_Mutation_p.R117H|TUSC3_uc003wwv.2_Missense_Mutation_p.R117H|TUSC3_uc003www.2_Missense_Mutation_p.R117H|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.R117H	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	117					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		AACTCCTGGCGCTATTCATCT	0.398													13	177					0	0	0.00499	0	0		A	15508247	A	A	15508247	3	1	4	1	0	0	0	0	1	0	0	0	16804	1087	38	1	360	1	TUSC3	8	15508247	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3512056	15508247	130855775	1984	3950											
EFHA2	286097	broad.mit.edu	37	chr8	16956025	16956025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctattgggatacactgagacGtaacacaagccaagcactgt	14	8	9	10	1	0	1	0	1	0	1	0	3	0	2	1	1	4	2	1	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:16956025G>A	uc003wxd.2	+	9	989	c.947G>A	c.(946-948)CGT>CAT	p.R316H		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	316						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		ACACTGAGACGTAACACAAGC	0.388													22	256					0	0	0.007291	0	0		A	16956025	A	A	16956025	3	1	4	1	0	0	0	0	1	0	0	0	4950	1145	40	1	981	1	EFHA2	8	16956025	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1447778	16956025	129407997	1985	3951											
CNOT7	29883	broad.mit.edu	37	chr8	17092325	17092325	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagttcttcttcaggcaagTtagagttggttaggattttg	9	16	11	5	0	3	1	1	0	2	1	3	2	3	2	0	3	0	5	0	3	4	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:17092325T>C	uc003wxf.1	-	5	686	c.518A>G	c.(517-519)AAC>AGC	p.N173S	CNOT7_uc003wxg.1_Missense_Mutation_p.N173S|CNOT7_uc003wxh.1_Missense_Mutation_p.N173S	NM_013354	NP_037486	Q9UIV1	CNOT7_HUMAN	CCR4-NOT transcription complex, subunit 7	173					carbohydrate metabolic process|nuclear-transcribed mRNA poly(A) tail shortening	CCR4-NOT complex|cytoplasmic mRNA processing body|cytosol	nucleic acid binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(1)	1				Colorectal(111;0.0523)|COAD - Colon adenocarcinoma(73;0.209)		TTCAGGCAAGTTAGAGTTGGT	0.338													8	85					0	0	0.004482	0	0		C	17092325	C	C	17092325	3	2	4	1	0	0	0	0	1	0	0	0	3627	1725	60	3	357	3	CNOT7	8	17092325	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	136300	17092325	129271697	1986	3952											
PDGFRL	5157	broad.mit.edu	37	chr8	17486241	17486241	+	Frame_Shift_Del	DEL	G	-	-																															tttactgcagggcggaggccGggggcagatctcagatctcc																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:17486241delG	uc003wxr.2	+	4	812	c.751delG	c.(751-753)GGGfs	p.G251fs		NM_006207	NP_006198	Q15198	PGFRL_HUMAN	platelet-derived growth factor receptor-like	251						extracellular region	platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity				0				Colorectal(111;0.0752)		GGCGGAGGCCGGGGGCAGATC	0.552													16	36	---	---	---	---						.	-	17486241	-	-	17486241	7	5	4	1	0	1	0	1	0	0	0	0	11682	1116	39	0	765	0	PDGFRL	8	17486241	Frame_Shift_Del	DEL	G	TCGA-BR-4184-01A-01D-1126-08	393916	17486241	128877781	1987	3953											
PCM1	5108	broad.mit.edu	37	chr8	17824576	17824576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaagaggcagtagtgcatcGcaccctccttctcccagttt	9	10	9	13	1	1	1	0	0	1	1	4	2	2	1	3	1	1	5	3	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:17824576G>A	uc003wyi.3	+	21	3731	c.3309G>A	c.(3307-3309)TCG>TCA	p.S1103S	PCM1_uc011kyh.1_Silent_p.S1103S|PCM1_uc003wyj.3_Silent_p.S1104S	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	1103					centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		GTAGTGCATCGCACCCTCCTT	0.403			T	RET|JAK2	papillary thyroid|CML|MPD								6	21					0	0	0.001984	0	0		A	17824576	A	A	17824576	2	1	4	1	0	0	0	0	0	0	0	1	11603	1074	38	1		1	PCM1	8	17824576	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	338335	17824576	128539446	1988	3954											
PSD3	23362	broad.mit.edu	37	chr8	18725364	18725364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgaccaccttctttaatgCgctgttgtatcattggagtg	8	15	9	9	1	2	1	1	1	1	0	2	2	2	2	2	1	1	3	2	1	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:18725364C>T	uc003wza.2	-	4	1557	c.1454G>A	c.(1453-1455)CGC>CAC	p.R485H		NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	485					regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		TTCTTTAATGCGCTGTTGTAT	0.463													30	147					0	0	0.002836	0	0		T	18725364	T	T	18725364	3	4	4	1	0	0	0	0	1	0	0	0	12670	768	27	1	1777	1	PSD3	8	18725364	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	900788	18725364	127638658	1989	3955											
CSGALNACT1	55790	broad.mit.edu	37	chr8	19263549	19263549	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaggtgcacatcctctccGccccagcctttgatgtccag	8	10	8	15	1	1	1	0	1	1	0	4	1	3	1	6	1	2	1	6	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:19263549G>A	uc011kyn.1	-	10	2405	c.1341C>T	c.(1339-1341)GGC>GGT	p.G447G	CSGALNACT1_uc011kyo.1_Silent_p.G447G|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Silent_p.G446G	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	447	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		CATCCTCTCCGCCCCAGCCTT	0.527													6	99					0	0	0.001984	0	0		A	19263549	A	A	19263549	2	1	4	1	0	0	0	0	0	0	0	1	3941	1074	38	1		1	CSGALNACT1	8	19263549	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	538185	19263549	127100473	1990	3956											
CSGALNACT1	55790	broad.mit.edu	37	chr8	19362852	19362852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcttctcctcggggtggCgggtaaggccagtctccagc	5	8	15	13	2	2	0	0	0	2	0	5	0	2	0	3	6	1	2	3	6	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:19362852C>T	uc011kyn.1	-	4	1558	c.494G>A	c.(493-495)CGC>CAC	p.R165H	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.R165H|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.R164H|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	165	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		CTCGGGGTGGCGGGTAAGGCC	0.557													10	22					0	0	0.008291	0	0		T	19362852	T	T	19362852	3	4	4	1	0	0	0	0	1	0	0	0	3941	768	27	1	1132	1	CSGALNACT1	8	19362852	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	99303	19362852	127001170	1991	3957											
SLC18A1	6570	broad.mit.edu	37	chr8	20008198	20008198	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccatcttgttggccaacAcaccaaagaggttggtgcca	11	8	10	12	0	1	1	0	0	1	1	1	2	1	1	4	3	2	2	4	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:20008198A>G	uc011kyq.1	-	12	1544	c.1073T>C	c.(1072-1074)GTG>GCG	p.V358A	SLC18A1_uc003wzl.2_Missense_Mutation_p.V145A|SLC18A1_uc003wzm.2_Missense_Mutation_p.V358A|SLC18A1_uc011kyr.1_Missense_Mutation_p.V358A|SLC18A1_uc003wzn.2_Missense_Mutation_p.V326A|SLC18A1_uc010ltf.2_RNA|SLC18A1_uc003wzo.2_Missense_Mutation_p.V326A	NM_001135691	NP_001129163	P54219	VMAT1_HUMAN	solute carrier family 18 (vesicular monoamine),	358	Helical; (Potential).				neurotransmitter transport	clathrin sculpted monoamine transport vesicle membrane|integral to membrane|membrane fraction	drug transmembrane transporter activity|monoamine transmembrane transporter activity			ovary(2)	2				Colorectal(74;0.0747)		GTTGGCCAACACACCAAAGAG	0.493													23	109					0	0	0.007291	0	0		G	20008198	G	G	20008198	3	3	4	1	0	0	0	0	1	0	0	0	14450	159	6	3	528	3	SLC18A1	8	20008198	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	645346	20008198	126355824	1992	3958											
LZTS1	11178	broad.mit.edu	37	chr8	20107710	20107710	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccttggtgcgcagggcGccctccaggtcctgggtcct	3	8	15	15	2	0	0	0	0	0	0	3	0	3	0	5	5	1	1	5	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:20107710G>A	uc003wzr.2	-	3	1425	c.1314C>T	c.(1312-1314)GGC>GGT	p.G438G	LZTS1_uc010ltg.1_Silent_p.G438G	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	438					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		TGCGCAGGGCGCCCTCCAGGT	0.647													14	62					0	0	0.00245	0	0		A	20107710	A	A	20107710	2	1	4	1	0	0	0	0	0	0	0	1	9156	1074	38	1		1	LZTS1	8	20107710	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	99512	20107710	126256312	1993	3959											
HR	55806	broad.mit.edu	37	chr8	21986447	21986447	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccccattctgggggccCtcgccctccacaagtgggag	5	8	11	17	1	2	0	0	0	2	0	5	1	3	1	5	3	0	0	5	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:21986447C>A	uc003xas.2	-	2	902	c.237G>T	c.(235-237)GAG>GAT	p.E79D	HR_uc003xat.2_Missense_Mutation_p.E79D|HR_uc010lts.2_Missense_Mutation_p.E79D	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	79							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		TCTGGGGGCCCTCGCCCTCCA	0.657													5	21					0.00448238	0.00465074	0.004482	1	0		A	21986447	A	A	21986447	3	1	4	1	0	0	0	0	1	0	0	0	7363	680	24	5	3404	5	HR	8	21986447	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1878737	21986447	124377575	1994	3960											
BMP1	649	broad.mit.edu	37	chr8	22053019	22053019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgcgggggctgtgagcagCggtgcctcaacaccctgggc	6	5	16	14	3	1	1	1	1	0	0	1	1	1	1	3	4	4	2	3	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:22053019C>T	uc003xbg.2	+	13	1928	c.1684C>T	c.(1684-1686)CGG>TGG	p.R562W	BMP1_uc003xba.2_Missense_Mutation_p.R562W|BMP1_uc003xbb.2_Missense_Mutation_p.R562W|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Missense_Mutation_p.R311W|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Missense_Mutation_p.R311W|BMP1_uc011kzc.1_Missense_Mutation_p.R311W|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	562	EGF-like 1; calcium-binding (Potential).				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		CTGTGAGCAGCGGTGCCTCAA	0.647													6	25					0	0	0.001168	0	0		T	22053019	T	T	22053019	3	4	4	1	0	0	0	0	1	0	0	0	1457	759	27	1	1734	1	BMP1	8	22053019	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	66572	22053019	124311003	1995	3961											
ENTPD4	9583	broad.mit.edu	37	chr8	23294525	23294525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggtgcagtagtagaattcGgagaagccatagaattcact	13	10	11	7	2	1	3	1	0	0	3	3	4	1	3	1	2	2	3	1	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:23294525G>A	uc003xdl.2	-	10	1460	c.1296C>T	c.(1294-1296)TCC>TCT	p.S432S	ENTPD4_uc011kzu.1_Silent_p.S424S|ENTPD4_uc003xdm.2_Silent_p.S424S|ENTPD4_uc011kzv.1_Silent_p.S432S	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	432	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		AGTAGAATTCGGAGAAGCCAT	0.473													8	63					0	0	0.000978	0	0		A	23294525	A	A	23294525	2	1	4	1	0	0	0	0	0	0	0	1	5149	1103	39	1		1	ENTPD4	8	23294525	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1241506	23294525	123069497	1996	3962											
ENTPD4	9583	broad.mit.edu	37	chr8	23299095	23299095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taatgacctgctgtgaggacGcaaagcttacagttttgggg	10	11	13	7	1	0	2	0	2	0	0	0	3	0	3	1	3	3	4	1	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:23299095G>A	uc003xdl.2	-	8	1033	c.869C>T	c.(868-870)GCG>GTG	p.A290V	ENTPD4_uc011kzu.1_Intron|ENTPD4_uc003xdm.2_Intron|ENTPD4_uc011kzv.1_Missense_Mutation_p.A290V	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	290	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		CTGTGAGGACGCAAAGCTTAC	0.463													47	63					0	0	0.00361	0	0		A	23299095	A	A	23299095	3	1	4	1	0	0	0	0	1	0	0	0	5149	1087	38	1	1005	1	ENTPD4	8	23299095	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4570	23299095	123064927	1997	3963											
STC1	6781	broad.mit.edu	37	chr8	23702305	23702305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcactctcatgggatgtgCgtttgatgtgggagggagag	8	11	17	5	1	1	2	1	1	1	1	2	5	1	4	0	3	2	2	0	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:23702305C>T	uc003xdw.1	-	4	1006	c.722G>A	c.(721-723)CGC>CAC	p.R241H		NM_003155	NP_003146	P52823	STC1_HUMAN	stanniocalcin 1 precursor	241					cell surface receptor linked signaling pathway|cell-cell signaling|cellular calcium ion homeostasis		hormone activity			skin(3)|upper_aerodigestive_tract(1)	4		Prostate(55;0.055)|Breast(100;0.116)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		ATGGGATGTGCGTTTGATGTG	0.507													8	45					0	0	0.004482	0	0		T	23702305	T	T	23702305	3	4	4	1	0	0	0	0	1	0	0	0	15300	768	27	1	25	1	STC1	8	23702305	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	403210	23702305	122661717	1998	3964											
ADAM7	8756	broad.mit.edu	37	chr8	24339818	24339818	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggattttgatcatgttgtatTactcaggttggtgattgctc	7	18	11	5	0	2	2	2	2	0	0	3	3	2	3	0	3	2	4	0	3	2	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:24339818T>C	uc003xeb.2	+	9	982	c.869T>C	c.(868-870)TTA>TCA	p.L290S	ADAM7_uc003xec.2_Missense_Mutation_p.L62S	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	290	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		CATGTTGTATTACTCAGGTTG	0.274													4	94					0	0	0.009096	0	0		C	24339818	C	C	24339818	3	2	4	1	0	0	0	0	1	0	0	0	251	1764	61	3	903	3	ADAM7	8	24339818	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	637513	24339818	122024204	1999	3965											
NEFM	4741	broad.mit.edu	37	chr8	24771638	24771638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgcaggggctgaacgaccGctttgccggctacatagaga	9	7	14	11	3	0	2	0	1	0	1	0	4	0	2	2	3	4	5	2	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:24771638G>A	uc003xed.3	+	1	365	c.332G>A	c.(331-333)CGC>CAC	p.R111H	NEFM_uc011lac.1_Missense_Mutation_p.R111H|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	111	Rod.|Coil 1A.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		CTGAACGACCGCTTTGCCGGC	0.642													7	15					0	0	0.000978	0	0		A	24771638	A	A	24771638	3	1	4	1	0	0	0	0	1	0	0	0	10335	1087	38	1	334	1	NEFM	8	24771638	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	431820	24771638	121592384	2000	3966											
NEFM	4741	broad.mit.edu	37	chr8	24771747	24771747	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcgcacgcccagctgggCgacgcgtacgaccaggagat	8	4	14	15	6	0	1	0	0	0	1	1	4	0	1	3	2	2	3	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:24771747C>T	uc003xed.3	+	1	474	c.441C>T	c.(439-441)GGC>GGT	p.G147G	NEFM_uc011lac.1_Silent_p.G147G|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	147	Linker 1.|Rod.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		CCCAGCTGGGCGACGCGTACG	0.632													5	5					0	0	0.000602	0	0		T	24771747	T	T	24771747	2	4	4	1	0	0	0	0	0	0	0	1	10335	755	27	1		1	NEFM	8	24771747	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	109	24771747	121592275	2001	3967											
EBF2	64641	broad.mit.edu	37	chr8	25708132	25708132	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaatccatttccattgccGctggagcaggcaggtgaagg	9	9	13	10	1	0	2	0	2	0	0	2	3	2	3	3	4	2	3	3	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:25708132G>A	uc003xes.1	-	15	1691	c.1674C>T	c.(1672-1674)AGC>AGT	p.S558S	PPP2R2A_uc003xek.2_Intron|EBF2_uc010lug.1_RNA	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	558					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		TTCCATTGCCGCTGGAGCAGG	0.488													17	58					0	0	0.008871	0	0		A	25708132	A	A	25708132	2	1	4	1	0	0	0	0	0	0	0	1	4887	1078	38	1		1	EBF2	8	25708132	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	936385	25708132	120655890	2002	3968											
ADRA1A	148	broad.mit.edu	37	chr8	26722237	26722237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctaggacctcgaagatggCggagaagggcagcaccgtgg	10	4	17	10	3	0	2	0	0	0	2	1	5	0	3	3	5	1	2	3	5	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:26722237C>T	uc003xfh.1	-	1	686	c.250G>A	c.(250-252)GCC>ACC	p.A84T	ADRA1A_uc003xfc.1_Missense_Mutation_p.A84T|ADRA1A_uc010lul.1_Missense_Mutation_p.A84T|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.A84T|ADRA1A_uc010lum.1_Missense_Mutation_p.A84T|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.A84T	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	84	Helical; Name=2; (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	TCGAAGATGGCGGAGAAGGGC	0.627													22	88					0	0	0.00333	0	0		T	26722237	T	T	26722237	3	4	4	1	0	0	0	0	1	0	0	0	334	768	27	1	1449	1	ADRA1A	8	26722237	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1014105	26722237	119641785	2003	3969											
ADRA1A	148	broad.mit.edu	37	chr8	26722276	26722276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggtgagcaggaggtcggCcaccgccaggttgacgatgt	8	6	18	9	3	0	2	0	2	0	0	1	5	0	4	3	6	1	2	3	6	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:26722276C>T	uc003xfh.1	-	1	647	c.211G>A	c.(211-213)GCC>ACC	p.A71T	ADRA1A_uc003xfc.1_Missense_Mutation_p.A71T|ADRA1A_uc010lul.1_Missense_Mutation_p.A71T|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.A71T|ADRA1A_uc010lum.1_Missense_Mutation_p.A71T|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.A71T	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	71	Helical; Name=2; (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	AGGAGGTCGGCCACCGCCAGG	0.607													26	125					0	0	0.009535	0	0		T	26722276	T	T	26722276	3	4	4	1	0	0	0	0	1	0	0	0	334	739	26	2	1488	2	ADRA1A	8	26722276	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	39	26722276	119641746	2004	3970											
C8orf80	389643	broad.mit.edu	37	chr8	27922179	27922179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggccagatgcgcatctcagCggcctctccatcccaatctc	7	8	9	17	2	3	1	1	0	3	1	7	1	4	1	4	2	2	1	4	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:27922179C>T	uc003xgm.3	-	7	924	c.781G>A	c.(781-783)GCT>ACT	p.A261T		NM_001010906	NP_001010906	Q68CJ6	SLIP_HUMAN	speckled-like pattern in the germinal center	261						nucleus	GTP binding|GTPase activity			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.126)|Kidney(114;0.15)|Colorectal(74;0.181)		CGCATCTCAGCGGCCTCTCCA	0.562													5	38					0	0	0.001168	0	0		T	27922179	T	T	27922179	3	4	4	1	0	0	0	0	1	0	0	0	2442	768	27	1	1661	1	C8orf80	8	27922179	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1199903	27922179	118441843	2005	3971											
ZNF395	55893	broad.mit.edu	37	chr8	28214286	28214286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catctcatccatttccactgCgtccgacttcctggattcac	7	13	5	16	2	2	0	2	0	1	0	7	2	6	1	4	1	1	0	4	1	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28214286C>T	uc003xgq.2	-	4	572	c.484G>A	c.(484-486)GCA>ACA	p.A162T	ZNF395_uc003xgt.2_Missense_Mutation_p.A162T|ZNF395_uc003xgr.2_Missense_Mutation_p.A162T|ZNF395_uc003xgs.2_Missense_Mutation_p.A162T	NM_018660	NP_061130	Q9H8N7	ZN395_HUMAN	zinc finger protein 395	162					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.102)|Kidney(114;0.123)|Colorectal(74;0.142)		ATTTCCACTGCGTCCGACTTC	0.572													4	9					0	0	0.000602	0	0		T	28214286	T	T	28214286	3	4	4	1	0	0	0	0	1	0	0	0	17906	768	27	1	1085	1	ZNF395	8	28214286	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	292107	28214286	118149736	2006	3972											
FZD3	7976	broad.mit.edu	37	chr8	28385115	28385115	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcttccacagtgacacaaGgatctcataataaagcctgt	14	9	8	10	0	1	1	1	1	1	0	3	2	2	2	2	2	1	1	2	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28385115G>T	uc003xgx.2	+	5	1316	c.838G>T	c.(838-840)GGA>TGA	p.G280*	FZD3_uc010lvb.2_Nonsense_Mutation_p.G280*	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	280	Extracellular (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		AGTGACACAAGGATCTCATAA	0.383													8	126					3.09899e-07	3.29863e-07	0.004482	1	0		T	28385115	T	T	28385115	4	4	4	1	0	0	0	0	0	1	0	0	6145	1001	35	5	848	5	FZD3	8	28385115	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	170829	28385115	117978907	2007	3973											
FZD3	7976	broad.mit.edu	37	chr8	28385354	28385354	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtgacaatattagtggCgtgtgttttgttggcctcta	8	15	13	5	1	1	1	0	1	1	0	1	2	1	1	1	3	0	2	1	3	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28385354C>T	uc003xgx.2	+	5	1555	c.1077C>T	c.(1075-1077)GGC>GGT	p.G359G	FZD3_uc010lvb.2_Silent_p.G359G	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	359	Extracellular (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		ATATTAGTGGCGTGTGTTTTG	0.453													5	86					0	0	0.001168	0	0		T	28385354	T	T	28385354	2	4	4	1	0	0	0	0	0	0	0	1	6145	755	27	1		1	FZD3	8	28385354	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	239	28385354	117978668	2008	3974											
EXTL3	2137	broad.mit.edu	37	chr8	28575031	28575031	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgaggcggccctggtggtGccaaagcctcgtgttaccga	8	7	14	12	4	0	0	0	0	0	0	1	2	0	0	4	4	4	1	4	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28575031G>A	uc003xgz.1	+	3	2048	c.1455G>A	c.(1453-1455)GTG>GTA	p.V485V		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	485	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		CCCTGGTGGTGCCAAAGCCTC	0.617													6	47					0	0	0.00308	0	0		A	28575031	A	A	28575031	2	1	4	1	0	0	0	0	0	0	0	1	5335	1306	46	2		2	EXTL3	8	28575031	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	189677	28575031	117788991	2009	3975											
EXTL3	2137	broad.mit.edu	37	chr8	28600685	28600685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catcaactgtgaggacattgCcatgaacttccttgtctccc	9	12	7	13	0	2	2	1	2	1	0	4	3	3	3	3	1	3	0	3	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28600685C>T	uc003xgz.1	+	6	3097	c.2504C>T	c.(2503-2505)GCC>GTC	p.A835V		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	835	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		GAGGACATTGCCATGAACTTC	0.507													23	113					0	0	0.002299	0	0		T	28600685	T	T	28600685	3	4	4	1	0	0	0	0	1	0	0	0	5335	739	26	2	2518	2	EXTL3	8	28600685	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	25654	28600685	117763337	2010	3976											
HMBOX1	79618	broad.mit.edu	37	chr8	28876412	28876412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttacctggagaaaggagtGcctggctgttatggaaaggt	11	11	14	5	0	0	1	0	0	0	1	0	4	0	3	2	5	2	2	2	5	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28876412G>A	uc003xhd.3	+	6	1175	c.833G>A	c.(832-834)TGC>TAC	p.C278Y	HMBOX1_uc010lvd.2_Missense_Mutation_p.C278Y|HMBOX1_uc003xhc.3_Missense_Mutation_p.C278Y|HMBOX1_uc010lve.2_RNA|HMBOX1_uc003xhe.2_Missense_Mutation_p.C278Y|HMBOX1_uc011lay.1_Missense_Mutation_p.C278Y|HMBOX1_uc003xhf.2_Missense_Mutation_p.C266Y|HMBOX1_uc003xhg.2_Missense_Mutation_p.C266Y	NM_001135726	NP_001129198	Q6NT76	HMBX1_HUMAN	homeobox containing 1	278	Homeobox.				negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(32;0.0192)		KIRC - Kidney renal clear cell carcinoma(542;0.135)|Kidney(114;0.161)		AGAAAGGAGTGCCTGGCTGTT	0.483													16	64					0	0	0.004007	0	0		A	28876412	A	A	28876412	3	1	4	1	0	0	0	0	1	0	0	0	7234	1319	46	2	851	2	HMBOX1	8	28876412	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	275727	28876412	117487610	2011	3977											
KIF13B	23303	broad.mit.edu	37	chr8	28967445	28967445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggctaacctggcgcagaCgatctaaagtcaggaggttt	10	10	13	8	2	2	1	1	0	1	1	2	3	2	2	1	4	1	4	1	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28967445C>T	uc003xhh.3	-	33	4132	c.4073G>A	c.(4072-4074)CGT>CAT	p.R1358H	uc003xhi.1_5'Flank	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1358					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		CTGGCGCAGACGATCTAAAGT	0.522													4	17					0	0	0.000602	0	0		T	28967445	T	T	28967445	3	4	4	1	0	0	0	0	1	0	0	0	8291	536	19	1	1439	1	KIF13B	8	28967445	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	91033	28967445	117396577	2012	3978											
GSR	2936	broad.mit.edu	37	chr8	30565642	30565642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggctcacataggcatcccGcttttccttaataacactgc	9	11	7	14	2	1	0	1	0	0	0	3	0	3	0	2	2	2	3	2	2	3	5	rs150594097		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:30565642G>A	uc003xih.1	-	4	530	c.439C>T	c.(439-441)CGG>TGG	p.R147W		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	147					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)	TAGGCATCCCGCTTTTCCTTA	0.443													9	88					0	0	0.008291	0	0		A	30565642	A	A	30565642	3	1	4	1	0	0	0	0	1	0	0	0	6844	1086	38	1	1169	1	GSR	8	30565642	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1598197	30565642	115798380	2013	3979											
PPP2CB	5516	broad.mit.edu	37	chr8	30651531	30651531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtgtagccagcaccacGtggtgaaataccccatccac	13	7	8	13	1	0	1	0	1	0	0	1	1	1	1	5	1	3	2	5	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:30651531G>A	uc003xik.2	-	6	875	c.640C>T	c.(640-642)CGT>TGT	p.R214C		NM_004156	NP_004147	P62714	PP2AB_HUMAN	protein phosphatase 2, catalytic subunit, beta	214					protein dephosphorylation	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex|spindle pole	metal ion binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.095)|Kidney(114;0.114)	Vitamin E(DB00163)	CCAGCACCACGTGGTGAAATA	0.448													5	19					0	0	0.001168	0	0		A	30651531	A	A	30651531	3	1	4	1	0	0	0	0	1	0	0	0	12403	1145	40	1	301	1	PPP2CB	8	30651531	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	85889	30651531	115712491	2014	3980											
UNC5D	137970	broad.mit.edu	37	chr8	35544118	35544118	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctgcagtccagagtgtgaAcatttgcggatccgggagtg	8	10	15	8	2	1	2	0	1	1	1	3	4	3	4	2	2	3	1	2	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:35544118A>G	uc003xjr.1	+	7	1303	c.975A>G	c.(973-975)GAA>GAG	p.E325E	UNC5D_uc003xjs.1_Silent_p.E320E|UNC5D_uc003xjt.1_Silent_p.E94E	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	325	Extracellular (Potential).|TSP type-1 2.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CAGAGTGTGAACATTTGCGGA	0.383													8	37					0	0	0.004482	0	0		G	35544118	G	G	35544118	2	3	4	1	0	0	0	0	0	0	0	1	17021	40	2	3		3	UNC5D	8	35544118	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	4892587	35544118	110819904	2015	3981											
KCNU1	157855	broad.mit.edu	37	chr8	36780102	36780102	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcactgccttttctacGggcactgttttttccggcag	5	14	9	13	2	2	0	1	0	1	0	3	0	3	0	2	2	3	4	2	2	1	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:36780102G>A	uc010lvw.2	+	24	2778	c.2691G>A	c.(2689-2691)ACG>ACA	p.T897T	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	897	Segment S10.|Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		CCTTTTCTACGGGCACTGTTT	0.488													8	43					0	0	0.004482	0	0		A	36780102	A	A	36780102	2	1	4	1	0	0	0	0	0	0	0	1	8109	1103	39	1		1	KCNU1	8	36780102	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1235984	36780102	109583920	2016	3982											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37730004	37730004	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcccatgggaagagggggCgccacttcttcagctgcatc	7	8	13	13	1	2	1	1	0	1	1	4	2	3	2	2	3	2	3	2	3	1	2	rs148197928	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:37730004C>T	uc003xkm.1	-	4	2360	c.2316G>A	c.(2314-2316)GCG>GCA	p.A772A	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Silent_p.A101A|RAB11FIP1_uc003xko.1_Silent_p.A101A|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	772					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			GAAGAGGGGGCGCCACTTCTT	0.567													6	57					0	0	0.001168	0	0		T	37730004	T	T	37730004	2	4	4	1	0	0	0	0	0	0	0	1	12918	755	27	1		1	RAB11FIP1	8	37730004	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	949902	37730004	108634018	2017	3983											
EIF4EBP1	1978	broad.mit.edu	37	chr8	37914773	37914773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcccagaagataagcgggCgggcggtgagtgtcggggct	8	6	19	8	4	0	3	0	1	0	2	1	3	0	3	1	5	2	1	1	5	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:37914773C>T	uc003xks.2	+	2	392	c.320C>T	c.(319-321)GCG>GTG	p.A107V		NM_004095	NP_004086	Q13541	4EBP1_HUMAN	eukaryotic translation initiation factor 4E	107					G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|positive regulation of mitotic cell cycle|TOR signaling cascade|translation	cytosol					0	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)				GATAAGCGGGCGGGCGGTGAG	0.622													8	24					0	0	0.006214	0	0		T	37914773	T	T	37914773	3	4	4	1	0	0	0	0	1	0	0	0	5040	768	27	1	326	1	EIF4EBP1	8	37914773	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	184769	37914773	108449249	2018	3984											
FGFR1	2260	broad.mit.edu	37	chr8	38271528	38271528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgcatgccagcagtcccGcatcatcatgtacctgcggc	8	8	9	16	2	2	0	2	0	0	0	3	0	3	0	3	1	5	4	3	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:38271528G>A	uc003xlp.2	-	18	3142	c.2200C>T	c.(2200-2202)CGG>TGG	p.R734W	FGFR1_uc010lwf.2_RNA|FGFR1_uc011lbo.1_Missense_Mutation_p.R732W|FGFR1_uc011lbp.1_Missense_Mutation_p.R645W|FGFR1_uc011lbq.1_Missense_Mutation_p.R643W|FGFR1_uc010lwk.2_Missense_Mutation_p.R724W	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	734	Cytoplasmic (Potential).|Protein kinase.				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	CAGCAGTCCCGCATCATCATG	0.597		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						7	18					0	0	0.006214	0	0		A	38271528	A	A	38271528	3	1	4	1	0	0	0	0	1	0	0	0	5877	1086	38	1	276	1	FGFR1	8	38271528	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	356755	38271528	108092494	2019	3985											
C8orf86	389649	broad.mit.edu	37	chr8	38386081	38386081	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactggctcaggcagtctctAaggctcctgccaactccaag	9	8	10	14	0	2	0	1	0	1	0	5	1	4	0	3	3	2	3	3	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:38386081A>C	uc003xlx.1	-	1	100	c.75T>G	c.(73-75)CTT>CTG	p.L25L		NM_207412	NP_997295	Q6ZUL3	CH086_HUMAN	hypothetical protein LOC389649	25											0						GGCAGTCTCTAAGGCTCCTGC	0.557													9	60					0	0	0.008291	0	0		C	38386081	C	C	38386081	2	2	4	1	0	0	0	0	0	0	0	1	2445	349	13	5		5	C8orf86	8	38386081	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	114553	38386081	107977941	2020	3986											
TACC1	6867	broad.mit.edu	37	chr8	38677330	38677330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccttccagcccgccagacGccctccaggacgaggcgatg	7	5	12	17	4	0	1	0	0	0	1	2	4	2	2	6	2	2	0	6	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:38677330G>A	uc010lwp.2	+	3	947	c.568G>A	c.(568-570)GCC>ACC	p.A190T	TACC1_uc011lby.1_5'UTR|TACC1_uc003xma.2_Intron|TACC1_uc003xlz.2_5'UTR|TACC1_uc003xmc.3_5'UTR|TACC1_uc011lbz.1_Missense_Mutation_p.A206T|TACC1_uc003xmb.3_Missense_Mutation_p.A145T|TACC1_uc003xme.1_Intron|TACC1_uc003xmd.1_Intron|TACC1_uc010lwo.1_Intron|TACC1_uc003xmf.3_Intron|TACC1_uc011lca.1_Missense_Mutation_p.A190T|TACC1_uc011lcb.1_5'UTR|TACC1_uc011lcc.1_5'UTR|TACC1_uc011lcd.1_RNA|TACC1_uc003xmh.3_5'UTR|TACC1_uc010lwq.2_5'UTR	NM_006283	NP_006274	O75410	TACC1_HUMAN	transforming, acidic coiled-coil containing	190	Interaction with TDRD7.				cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)			CCCGCCAGACGCCCTCCAGGA	0.587													12	45					0	0	0.001368	0	0		A	38677330	A	A	38677330	3	1	4	1	0	0	0	0	1	0	0	0	15526	1087	38	1	578	1	TACC1	8	38677330	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	291249	38677330	107686692	2021	3987											
PLEKHA2	59339	broad.mit.edu	37	chr8	38810831	38810831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggaccgagaaccactgcGcaccatatttcttaaggatg	12	8	9	12	2	1	1	0	0	1	1	1	4	1	3	4	2	2	1	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:38810831G>A	uc003xmi.3	+	9	953	c.719G>A	c.(718-720)CGC>CAC	p.R240H	PLEKHA2_uc011lce.1_Missense_Mutation_p.R190H	NM_021623	NP_067636	Q9HB19	PKHA2_HUMAN	pleckstrin homology domain containing, family A	240	PH 2.				positive regulation of cell-matrix adhesion	cytoplasm|nucleus|plasma membrane|protein complex	fibronectin binding|laminin binding				0		all_lung(54;0.0413)|Lung NSC(58;0.115)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;4.68e-08)|COAD - Colon adenocarcinoma(9;0.235)			GAACCACTGCGCACCATATTT	0.463													30	156					0	0	0.004878	0	0		A	38810831	A	A	38810831	3	1	4	1	0	0	0	0	1	0	0	0	12075	1087	38	1	749	1	PLEKHA2	8	38810831	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	133501	38810831	107553191	2022	3988											
HTRA4	203100	broad.mit.edu	37	chr8	38832617	38832617	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtggtggagaaggtggcGccatcggtggttcacgtgca	6	8	19	8	4	1	1	1	0	0	1	2	2	1	1	1	7	1	2	1	7	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:38832617G>A	uc003xmj.2	+	2	649	c.534G>A	c.(532-534)GCG>GCA	p.A178A		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	178					proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			AGAAGGTGGCGCCATCGGTGG	0.577													21	63					0	0	0.010504	0	0		A	38832617	A	A	38832617	2	1	4	1	0	0	0	0	0	0	0	1	7472	1074	38	1		1	HTRA4	8	38832617	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	21786	38832617	107531405	2023	3989											
HTRA4	203100	broad.mit.edu	37	chr8	38839212	38839212	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattcattgagggtgactgAtggaatctcctttgcaattc	10	14	9	8	0	2	3	1	3	1	0	4	4	2	4	1	2	1	1	1	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:38839212A>G	uc003xmj.2	+	6	1155	c.1040A>G	c.(1039-1041)GAT>GGT	p.D347G		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	347	Serine protease.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			AGGGTGACTGATGGAATCTCC	0.438													6	111					0	0	0.001984	0	0		G	38839212	G	G	38839212	3	3	4	1	0	0	0	0	1	0	0	0	7472	333	12	3	1062	3	HTRA4	8	38839212	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	6595	38839212	107524810	2024	3990											
ANK1	286	broad.mit.edu	37	chr8	41553956	41553956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcggccagtgggggcGgcgtgctgagcttctggggc	2	8	18	13	3	1	1	0	1	1	0	3	1	2	1	3	6	2	2	3	6	0	1	rs140978700		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:41553956G>A	uc003xok.2	-	26	2969	c.2885C>T	c.(2884-2886)CCG>CTG	p.P962L	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Missense_Mutation_p.P278L|ANK1_uc003xoi.2_Missense_Mutation_p.P962L|ANK1_uc003xoj.2_Missense_Mutation_p.P962L|ANK1_uc003xol.2_Missense_Mutation_p.P962L|ANK1_uc003xom.2_Missense_Mutation_p.P1003L	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	962	ZU5.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			CAGTGGGGGCGGCGTGCTGAG	0.706													4	23					0	0	0.001168	0	0		A	41553956	A	A	41553956	3	1	4	1	0	0	0	0	1	0	0	0	620	1116	39	1	3154	1	ANK1	8	41553956	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2714744	41553956	104810066	2025	3991											
MYST3	7994	broad.mit.edu	37	chr8	41790423	41790423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcacagcaggagaatggCtataaggcatggcatgaggg	14	6	15	6	0	1	2	1	1	0	1	1	3	1	2	0	5	1	4	0	5	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:41790423C>T	uc010lxb.2	-	18	5859	c.5315G>A	c.(5314-5316)AGC>AAC	p.S1772N	MYST3_uc010lxc.2_Missense_Mutation_p.S1772N|MYST3_uc003xon.3_Missense_Mutation_p.S1772N	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1772					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			AGGAGAATGGCTATAAGGCAT	0.532													15	168					0	0	0.004007	0	0		T	41790423	T	T	41790423	3	4	4	1	0	0	0	0	1	0	0	0	10122	797	28	2	703	2	MYST3	8	41790423	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	236467	41790423	104573599	2026	3992											
MYST3	7994	broad.mit.edu	37	chr8	41791549	41791549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttagtgtgggagtcttcttCgtggtcgtcctcagacccag	5	13	12	11	2	3	1	1	0	2	1	6	2	4	2	2	2	0	0	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:41791549C>T	uc010lxb.2	-	18	4733	c.4189G>A	c.(4189-4191)GAA>AAA	p.E1397K	MYST3_uc010lxc.2_Missense_Mutation_p.E1397K|MYST3_uc003xon.3_Missense_Mutation_p.E1397K	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1397					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			GAGTCTTCTTCGTGGTCGTCC	0.502													8	77					0	0	0.006214	0	0		T	41791549	T	T	41791549	3	4	4	1	0	0	0	0	1	0	0	0	10122	893	31	1	1829	1	MYST3	8	41791549	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1126	41791549	104572473	2027	3993											
PLAT	5327	broad.mit.edu	37	chr8	42038027	42038027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcctggaagcagtgggCggcagagagaatccagcagg	10	5	15	11	1	1	2	0	0	1	2	3	4	2	3	3	4	2	3	3	4	2	0	rs140012141		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:42038027C>T	uc003xos.2	-	10	1275	c.1066G>A	c.(1066-1068)GCC>ACC	p.A356T	PLAT_uc010lxf.1_Missense_Mutation_p.A273T|PLAT_uc010lxg.1_Missense_Mutation_p.A181T|PLAT_uc003xot.2_Missense_Mutation_p.A310T|PLAT_uc011lcm.1_Missense_Mutation_p.A267T|PLAT_uc011lcn.1_Missense_Mutation_p.A230T	NM_000930	NP_000921	P00750	TPA_HUMAN	plasminogen activator, tissue isoform 1	356	Peptidase S1.				blood coagulation|fibrinolysis|negative regulation of proteolysis|protein modification process|proteolysis	cell surface|cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			breast(1)|skin(1)	2	all_cancers(6;3.84e-26)|all_epithelial(6;9.61e-28)|all_lung(13;7.2e-13)|Lung NSC(13;1.18e-11)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000378)|Lung NSC(58;0.00145)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00135)|Colorectal(10;0.00165)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)		Alteplase(DB00009)|Aminocaproic Acid(DB00513)|Anistreplase(DB00029)|Iloprost(DB01088)|Reteplase(DB00015)|Tenecteplase(DB00031)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	AAGCAGTGGGCGGCAGAGAGA	0.592													12	64					0	0	0.004007	0	0		T	42038027	T	T	42038027	3	4	4	1	0	0	0	0	1	0	0	0	12040	768	27	1	642	1	PLAT	8	42038027	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	246478	42038027	104325995	2028	3994											
CHRNB3	1142	broad.mit.edu	37	chr8	42587066	42587066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaatgggaaatactgaacGcaaaggggatgaaggggaac	17	4	16	4	1	0	3	0	2	0	1	0	7	0	6	0	5	3	1	0	5	7	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:42587066G>A	uc003xpi.1	+	5	744	c.616G>A	c.(616-618)GCA>ACA	p.A206T		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	206	Extracellular (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			AATACTGAACGCAAAGGGGAT	0.453													7	96					0	0	0.00308	0	0		A	42587066	A	A	42587066	3	1	4	1	0	0	0	0	1	0	0	0	3395	1087	38	1	634	1	CHRNB3	8	42587066	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	549039	42587066	103776956	2029	3995											
CHRNB3	1142	broad.mit.edu	37	chr8	42587142	42587142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattccttcgtcctgagacGcctgcctttattctataccc	6	15	6	14	2	1	1	0	1	1	1	4	2	3	1	5	0	2	1	5	0	4	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:42587142G>A	uc003xpi.1	+	5	820	c.692G>A	c.(691-693)CGC>CAC	p.R231H		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	231	Extracellular (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GTCCTGAGACGCCTGCCTTTA	0.473													8	49					0	0	0.004482	0	0		A	42587142	A	A	42587142	3	1	4	1	0	0	0	0	1	0	0	0	3395	1087	38	1	710	1	CHRNB3	8	42587142	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	76	42587142	103776880	2030	3996											
SGK196	84197	broad.mit.edu	37	chr8	42958728	42958728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacagcaggagaggcctcGccccccgagaggtgccgcca	10	2	14	15	3	0	3	0	0	0	3	1	5	0	3	6	3	3	1	6	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:42958728G>A	uc003xpw.2	+	4	296	c.37G>A	c.(37-39)GCC>ACC	p.A13T		NM_032237	NP_115613	Q9H5K3	SG196_HUMAN	protein kinase-like protein SgK196	13						integral to membrane	ATP binding|protein kinase activity				0						GAGAGGCCTCGCCCCCCGAGA	0.542													20	50					0	0	0.00333	0	0		A	42958728	A	A	42958728	3	1	4	1	0	0	0	0	1	0	0	0	14233	1087	38	1	39	1	SGK196	8	42958728	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	371586	42958728	103405294	2031	3997											
POTEA	340441	broad.mit.edu	37	chr8	43147674	43147674	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgcctcccctatgaagaAgccctttggcttcaggggca	7	9	12	13	0	1	2	1	1	0	1	2	2	2	2	4	4	2	3	4	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:43147674A>C	uc003xpz.1	+	1	90	c.47A>C	c.(46-48)AAG>ACG	p.K16T	POTEA_uc003xqa.1_Missense_Mutation_p.K16T	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	16										ovary(1)	1						CCTATGAAGAAGCCCTTTGGC	0.562													9	53					0	0	0.000978	0	0		C	43147674	C	C	43147674	3	2	4	1	0	0	0	0	1	0	0	0	12280	72	3	5	49	5	POTEA	8	43147674	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	188946	43147674	103216348	2032	3998											
PRKDC	5591	broad.mit.edu	37	chr8	48772316	48772316	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaagacatataggaaggAccatctgaaatataaaaaag	21	6	10	4	0	1	2	0	1	1	1	1	5	1	5	1	3	0	0	1	3	9	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:48772316A>G	uc003xqi.2	-	47	6120	c.6063T>C	c.(6061-6063)GGT>GGC	p.G2021G	PRKDC_uc003xqj.2_Silent_p.G2021G|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2021		Cleavage; by caspase-3 (Probable).			cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TATAGGAAGGACCATCTGAAA	0.318								NHEJ					12	67					0	0	0.001855	0	0		G	48772316	G	G	48772316	2	3	4	1	0	0	0	0	0	0	0	1	12543	262	10	3		3	PRKDC	8	48772316	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	5624642	48772316	97591706	2033	3999											
EFCAB1	79645	broad.mit.edu	37	chr8	49643974	49643974	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtttcgaaatgcattacgAtccagtccaacaaccagacc	14	9	6	12	2	0	1	0	0	0	1	3	3	2	1	4	0	4	2	4	0	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:49643974A>T	uc003xqo.2	-	2	307	c.147T>A	c.(145-147)GAT>GAA	p.D49E	EFCAB1_uc003xqn.3_Intron|EFCAB1_uc011ldj.1_Intron|EFCAB1_uc010lxx.2_Intron|EFCAB1_uc011ldk.1_Intron	NM_024593	NP_078869	Q9HAE3	EFCB1_HUMAN	EF-hand calcium binding domain 1 isoform a	49							calcium ion binding				0		all_epithelial(80;0.0134)|Lung NSC(129;0.0207)|all_lung(136;0.0464)				ATGCATTACGATCCAGTCCAA	0.368													18	64					0	0	0.007413	0	0		T	49643974	T	T	49643974	3	4	4	1	0	0	0	0	1	0	0	0	4939	330	12	5	508	5	EFCAB1	8	49643974	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	871658	49643974	96720048	2034	4000											
SNAI2	6591	broad.mit.edu	37	chr8	49833817	49833817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcttgaccaggaaggagCgcggcatcttgccagcgggt	7	8	15	11	3	2	1	0	1	2	0	2	3	2	3	2	4	3	2	2	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:49833817C>T	uc003xqp.2	-	1	172	c.8G>A	c.(7-9)CGC>CAC	p.R3H		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	3					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				CAGGAAGGAGCGCGGCATCTT	0.587													5	63					0	0	0.000602	0	0		T	49833817	T	T	49833817	3	4	4	1	0	0	0	0	1	0	0	0	14852	768	27	1	810	1	SNAI2	8	49833817	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	189843	49833817	96530205	2035	4001											
PXDNL	137902	broad.mit.edu	37	chr8	52359707	52359707	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactgtatgctggccttccAcagggagctgccctcctgca	7	9	11	14	0	0	0	0	0	0	0	2	2	2	1	4	2	5	4	4	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:52359707A>G	uc003xqu.3	-	12	1483	c.1382T>C	c.(1381-1383)GTG>GCG	p.V461A		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	461	Ig-like C2-type 3.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CTGGCCTTCCACAGGGAGCTG	0.517													5	115					0	0	0.000602	0	0		G	52359707	G	G	52359707	3	3	4	1	0	0	0	0	1	0	0	0	12873	159	6	3	3057	3	PXDNL	8	52359707	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	2525890	52359707	94004315	2036	4002											
ATP6V1H	51606	broad.mit.edu	37	chr8	54628573	54628573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctcggactggagctgcttgCcaaggtattccctgaaaaaa	11	9	11	10	1	0	1	0	1	0	0	2	3	1	3	2	3	3	4	2	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:54628573C>T	uc003xrl.2	-	14	1555	c.1403G>A	c.(1402-1404)GGC>GAC	p.G468D	ATP6V1H_uc003xrk.2_Missense_Mutation_p.G428D|ATP6V1H_uc003xrm.2_Missense_Mutation_p.G468D|ATP6V1H_uc003xrn.2_Missense_Mutation_p.G450D|ATP6V1H_uc011ldv.1_Missense_Mutation_p.G388D|ATP6V1H_uc010lyd.2_Missense_Mutation_p.G404D	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	468					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)			GAGCTGCTTGCCAAGGTATTC	0.488													6	12					0	0	0.001168	0	0		T	54628573	T	T	54628573	3	4	4	1	0	0	0	0	1	0	0	0	1190	739	26	2	52	2	ATP6V1H	8	54628573	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2268866	54628573	91735449	2037	4003											
RP1	6101	broad.mit.edu	37	chr8	55541823	55541823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttggtaatttggccccagGcccaacgatggatgaactct	9	12	10	10	1	1	1	0	1	1	0	1	3	1	2	3	4	2	1	3	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:55541823G>A	uc003xsd.1	+	4	5529	c.5381G>A	c.(5380-5382)GGC>GAC	p.G1794D	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1794					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TTGGCCCCAGGCCCAACGATG	0.458													6	32					0	0	0.001984	0	0		A	55541823	A	A	55541823	3	1	4	1	0	0	0	0	1	0	0	0	13557	1203	42	2	5391	2	RP1	8	55541823	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	913250	55541823	90822199	2038	4004											
XKR4	114786	broad.mit.edu	37	chr8	56436092	56436092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctggatcgtccactgtgAgacagaattctgtatcacca	10	12	8	11	1	3	2	1	1	2	2	5	4	4	3	2	1	0	1	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:56436092A>G	uc003xsf.2	+	3	1291	c.1259A>G	c.(1258-1260)GAG>GGG	p.E420G		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	420						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			GTCCACTGTGAGACAGAATTC	0.468													35	161					0	0	0.004878	0	0		G	56436092	G	G	56436092	3	3	4	1	0	0	0	0	1	0	0	0	17459	304	11	3	1269	3	XKR4	8	56436092	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	894269	56436092	89927930	2039	4005											
PLAG1	5324	broad.mit.edu	37	chr8	57078977	57078977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgcttcttcctgggaatagCtcattccaaggctccccact	7	12	8	14	0	2	0	1	0	1	0	5	1	5	1	4	2	2	3	4	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:57078977C>T	uc003xsq.3	-	3	1779	c.1328G>A	c.(1327-1329)AGC>AAC	p.S443N	PLAG1_uc003xsr.3_Missense_Mutation_p.S443N|PLAG1_uc010lyi.2_Missense_Mutation_p.S443N|PLAG1_uc010lyj.2_Missense_Mutation_p.S361N	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	443	Activates transcription; Inhibition of nuclear import due to lack of NLS and KPNA2 interaction.|Massively activates transcription.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			CTGGGAATAGCTCATTCCAAG	0.463			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								13	89					0	0	0.00245	0	0		T	57078977	T	T	57078977	3	4	4	1	0	0	0	0	1	0	0	0	12037	797	28	2	178	2	PLAG1	8	57078977	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	642885	57078977	89285045	2040	4006											
PLAG1	5324	broad.mit.edu	37	chr8	57079635	57079635	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagtcaggtgatcctttcGcccaaatctctgtgcacaat	9	12	8	12	2	2	1	1	1	1	0	6	2	3	1	2	1	1	1	2	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:57079635G>A	uc003xsq.3	-	3	1121	c.670C>T	c.(670-672)CGA>TGA	p.R224*	PLAG1_uc003xsr.3_Nonsense_Mutation_p.R224*|PLAG1_uc010lyi.2_Nonsense_Mutation_p.R224*|PLAG1_uc010lyj.2_Nonsense_Mutation_p.R142*	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	224	Decreased nuclear import with localization in the nucleus but also in the cytoplasm.|C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			TGATCCTTTCGCCCAAATCTC	0.478			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								17	91					0	0	0.004007	0	0		A	57079635	A	A	57079635	4	1	4	1	0	0	0	0	0	1	0	0	12037	1095	38	1	836	1	PLAG1	8	57079635	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	658	57079635	89284387	2041	4007											
FAM110B	90362	broad.mit.edu	37	chr8	59058997	59058997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccaggaggtgatcaacGccaagcaggagcccgtgaag	13	3	15	10	2	1	3	1	2	0	1	1	5	1	5	3	3	4	1	3	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:59058997G>A	uc003xtj.1	+	5	1088	c.208G>A	c.(208-210)GCC>ACC	p.A70T		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	70						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				GGTGATCAACGCCAAGCAGGA	0.682													8	19					0	0	0.004482	0	0		A	59058997	A	A	59058997	3	1	4	1	0	0	0	0	1	0	0	0	5408	1087	38	1	210	1	FAM110B	8	59058997	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1979362	59058997	87305025	2042	4008											
CYP7A1	1581	broad.mit.edu	37	chr8	59409213	59409213	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggaatggtgtttgcttgCgatgcccagaggaccacgag	8	9	15	9	2	0	1	0	0	0	1	0	5	0	3	2	3	3	3	2	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:59409213C>T	uc003xtm.3	-	3	921	c.858G>A	c.(856-858)TCG>TCA	p.S286S		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	286					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				TGTTTGCTTGCGATGCCCAGA	0.423									Neonatal_Giant_Cell_Hepatitis				6	142					0	0	0.001168	0	0		T	59409213	T	T	59409213	2	4	4	1	0	0	0	0	0	0	0	1	4199	755	27	1		1	CYP7A1	8	59409213	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	350216	59409213	86954809	2043	4009											
NSMAF	8439	broad.mit.edu	37	chr8	59555553	59555553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttccttacctttcatggtGactgcccttgtgcaaaatgt	7	15	8	11	0	1	1	1	1	0	0	2	1	2	1	3	1	3	2	3	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:59555553G>A	uc003xtt.2	-	2	353	c.139C>T	c.(139-141)CAC>TAC	p.H47Y	NSMAF_uc011lee.1_Missense_Mutation_p.H78Y|NSMAF_uc003xtu.2_Missense_Mutation_p.H47Y	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	47					ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				CTTTCATGGTGACTGCCCTTG	0.388													20	68					0	0	0.010504	0	0		A	59555553	A	A	59555553	3	1	4	1	0	0	0	0	1	0	0	0	10693	1290	45	4	2734	4	NSMAF	8	59555553	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	146340	59555553	86808469	2044	4010											
TOX	9760	broad.mit.edu	37	chr8	59728227	59728227	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatggaacaccgacggcttCgaattgatcagctgaggagg	11	7	13	10	3	1	2	1	2	0	0	2	6	1	4	2	4	2	2	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:59728227C>T	uc003xtw.1	-	7	1283	c.1062G>A	c.(1060-1062)TCG>TCA	p.S354S		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	354						nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				CCGACGGCTTCGAATTGATCA	0.517													10	41					0	0	0.006214	0	0		T	59728227	T	T	59728227	2	4	4	1	0	0	0	0	0	0	0	1	16403	871	31	1		1	TOX	8	59728227	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	172674	59728227	86635795	2045	4011											
CHD7	55636	broad.mit.edu	37	chr8	61743054	61743054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacatttctttccaaaggCggtggtcaagctaacgtacc	10	12	8	11	2	3	0	2	0	1	0	4	0	4	0	2	3	3	2	2	3	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:61743054C>T	uc003xue.2	+	15	4173	c.3696C>T	c.(3694-3696)GGC>GGT	p.G1232G		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1232					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			TTTCCAAAGGCGGTGGTCAAG	0.418													6	126					0	0	0.001168	0	0		T	61743054	T	T	61743054	2	4	4	1	0	0	0	0	0	0	0	1	3333	755	27	1		1	CHD7	8	61743054	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2014827	61743054	84620968	2046	4012											
GGH	8836	broad.mit.edu	37	chr8	63948266	63948266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagtactttacataggacGcagcaatatagtatcttcca	14	11	6	10	1	1	0	0	0	1	0	2	1	2	1	2	1	3	4	2	1	8	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:63948266G>A	uc003xuw.2	-	2	456	c.173C>T	c.(172-174)GCG>GTG	p.A58V		NM_003878	NP_003869	Q92820	GGH_HUMAN	gamma-glutamyl hydrolase precursor	58	Gamma-glutamyl hydrolase.				glutamine metabolic process	extracellular space|lysosome|melanosome	gamma-glutamyl-peptidase activity				0	Breast(64;0.0716)	all_cancers(86;0.189)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.131)			Folic Acid(DB00158)|L-Glutamic Acid(DB00142)	TACATAGGACGCAGCAATATA	0.308													6	137					0	0	0.00308	0	0		A	63948266	A	A	63948266	3	1	4	1	0	0	0	0	1	0	0	0	6372	1087	38	1	815	1	GGH	8	63948266	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2205212	63948266	82415756	2047	4013											
YTHDF3	253943	broad.mit.edu	37	chr8	64099768	64099768	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtgctggaaaagctaaaggCcataaacaactataatccca	17	7	7	10	1	0	0	0	0	0	0	1	1	1	1	2	2	4	2	2	2	9	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:64099768C>A	uc003xuy.2	+	5	1515	c.1199C>A	c.(1198-1200)GCC>GAC	p.A400D	YTHDF3_uc010lys.2_Missense_Mutation_p.A344D|YTHDF3_uc003xuz.2_Missense_Mutation_p.A344D|YTHDF3_uc003xva.2_Missense_Mutation_p.A344D|YTHDF3_uc011len.1_Missense_Mutation_p.A344D	NM_152758	NP_689971	Q7Z739	YTHD3_HUMAN	YTH domain family, member 3	400											0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)			AAGCTAAAGGCCATAAACAAC	0.408													21	40					0.000295444	0.000308873	0.002299	1	0		A	64099768	A	A	64099768	3	1	4	1	0	0	0	0	1	0	0	0	17526	739	26	5	1212	5	YTHDF3	8	64099768	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	151502	64099768	82264254	2048	4014											
TRIM55	84675	broad.mit.edu	37	chr8	67061935	67061935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagtttgattacctgtatgGcattttggaggagaggaaga	12	12	14	3	0	0	3	0	1	0	2	0	7	0	5	1	4	1	3	1	4	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:67061935G>A	uc003xvv.2	+	5	885	c.659G>A	c.(658-660)GGC>GAC	p.G220D	TRIM55_uc003xvu.2_Missense_Mutation_p.G220D|TRIM55_uc003xvw.2_Missense_Mutation_p.G220D|TRIM55_uc003xvx.2_Intron	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	220	Potential.					cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			TACCTGTATGGCATTTTGGAG	0.383													17	79					0	0	0.006122	0	0		A	67061935	A	A	67061935	3	1	4	1	0	0	0	0	1	0	0	0	16555	1203	42	2	677	2	TRIM55	8	67061935	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2962167	67061935	79302087	2049	4015											
SGK3	23678	broad.mit.edu	37	chr8	67734620	67734620	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttagtccagatgtcagaGcattccttcaaatggacagt	11	14	8	8	0	2	2	2	0	0	2	4	3	4	3	2	1	1	1	2	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:67734620G>T	uc003xwr.2	+	6	642	c.343G>T	c.(343-345)GCA>TCA	p.A115S	SGK3_uc003xwp.2_Missense_Mutation_p.A109S|SGK3_uc003xwt.2_Missense_Mutation_p.A115S|SGK3_uc003xwu.2_Missense_Mutation_p.A115S	NM_001033578	NP_001028750	Q96BR1	SGK3_HUMAN	serum/glucocorticoid regulated kinase 3 isoform	115	PX.				cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)			AGATGTCAGAGCATTCCTTCA	0.328													33	197					1.32136e-16	1.44175e-16	0.00874	1	0		T	67734620	T	T	67734620	3	4	4	1	0	0	0	0	1	0	0	0	14237	971	34	5	361	5	SGK3	8	67734620	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	672685	67734620	78629402	2050	4016											
ARFGEF1	10565	broad.mit.edu	37	chr8	68169965	68169965	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgacttaaaagaaaacatAcctgtggactgtgaaggtct	15	10	9	7	0	1	3	0	2	1	1	1	4	1	4	1	2	2	0	1	2	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:68169965A>G	uc003xxo.1	-	17	2916	c.2526_splice	c.e17+1	p.Q842_splice	ARFGEF1_uc003xxl.1_Splice_Site_p.Q296_splice	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine						exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			AAGAAAACATACCTGTGGACT	0.308													20	114					0	0	0.002299	0	0		G	68169965	G	G	68169965	5	3	4	1	0	0	0	0	0	0	1	0	852	405	14	3	3113	3	ARFGEF1	8	68169965	Splice_Site	SNP	A	TCGA-BR-4184-01A-01D-1126-08	435345	68169965	78194057	2051	4017											
PREX2	80243	broad.mit.edu	37	chr8	69021701	69021701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaccatcacaaccatggcgGccccttcaggtctgtctctg	8	9	8	16	1	4	0	2	0	2	0	5	0	4	0	4	3	1	0	4	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:69021701G>A	uc003xxv.1	+	25	3016	c.2989G>A	c.(2989-2991)GCC>ACC	p.A997T	PREX2_uc011lez.1_Missense_Mutation_p.A932T	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	997					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						AACCATGGCGGCCCCTTCAGG	0.458													18	46					0	0	0.007413	0	0		A	69021701	A	A	69021701	3	1	4	1	0	0	0	0	1	0	0	0	12499	1203	42	2	3316	2	PREX2	8	69021701	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	851736	69021701	77342321	2052	4018											
SLCO5A1	81796	broad.mit.edu	37	chr8	70585449	70585449	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccaaaatacacaaaacgAaacgacgtcacgttgtactc	19	6	5	11	4	1	0	1	0	0	0	2	2	1	0	1	0	5	2	1	0	8	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:70585449A>G	uc003xyl.2	-	10	2909	c.2202T>C	c.(2200-2202)TTT>TTC	p.F734F	SLCO5A1_uc010lzb.2_Silent_p.F679F|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_3'UTR	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	734	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			ACACAAAACGAAACGACGTCA	0.468													9	258					0	0	0.001855	0	0		G	70585449	G	G	70585449	2	3	4	1	0	0	0	0	0	0	0	1	14756	243	9	3		3	SLCO5A1	8	70585449	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1563748	70585449	75778573	2053	4019											
TRPA1	8989	broad.mit.edu	37	chr8	72968043	72968043	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgcataatgtagaggagtAcacccatcgttgtcttcatc	11	12	8	10	1	2	1	1	0	1	1	4	2	2	2	1	1	2	4	1	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:72968043A>G	uc003xza.2	-	11	1417	c.1242T>C	c.(1240-1242)TGT>TGC	p.C414C		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	414	ANK 10.|Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GTAGAGGAGTACACCCATCGT	0.363													11	40					0	0	0.000978	0	0		G	72968043	G	G	72968043	2	3	4	1	0	0	0	0	0	0	0	1	16603	389	14	3		3	TRPA1	8	72968043	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	2382594	72968043	73395979	2054	4020											
TRPA1	8989	broad.mit.edu	37	chr8	72987551	72987551	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccttaagcgattccttgaAatcctccgtgtcgtccggca	8	12	8	13	4	0	1	0	1	0	0	5	2	4	1	5	1	2	1	5	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:72987551A>C	uc003xza.2	-	1	269	c.94T>G	c.(94-96)TTC>GTC	p.F32V		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	32	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GATTCCTTGAAATCCTCCGTG	0.632													4	76					0	0	0.009096	0	0		C	72987551	C	C	72987551	3	2	4	1	0	0	0	0	1	0	0	0	16603	14	1	5	3373	5	TRPA1	8	72987551	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	19508	72987551	73376471	2055	4021											
ZFHX4	79776	broad.mit.edu	37	chr8	77763549	77763549	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctatatgcctccttgccCgtgaatggagaactgtgggc	8	10	12	11	1	0	2	0	1	0	1	1	3	1	2	3	2	4	1	3	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:77763549C>T	uc003yav.2	+	10	4644	c.4257C>T	c.(4255-4257)CCC>CCT	p.P1419P	ZFHX4_uc003yau.1_Silent_p.P1464P|ZFHX4_uc003yaw.1_Silent_p.P1419P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1419						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCTCCTTGCCCGTGAATGGAG	0.507										HNSCC(33;0.089)			11	44					0	0	0.001368	0	0		T	77763549	T	T	77763549	2	4	4	1	0	0	0	0	0	0	0	1	17660	639	23	1		1	ZFHX4	8	77763549	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4775998	77763549	68600473	2056	4022											
ZFHX4	79776	broad.mit.edu	37	chr8	77763597	77763597	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaactatgtcccaggatgaCcatggcctagagcaggaaat	14	7	11	9	0	0	2	0	1	0	1	1	5	1	4	3	3	2	1	3	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:77763597C>A	uc003yav.2	+	10	4692	c.4305C>A	c.(4303-4305)GAC>GAA	p.D1435E	ZFHX4_uc003yau.1_Missense_Mutation_p.D1480E|ZFHX4_uc003yaw.1_Missense_Mutation_p.D1435E	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1435						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCCAGGATGACCATGGCCTAG	0.507										HNSCC(33;0.089)			8	61					0.000274275	0.0002868	0.004482	1	0		A	77763597	A	A	77763597	3	1	4	1	0	0	0	0	1	0	0	0	17660	506	18	5	4474	5	ZFHX4	8	77763597	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	48	77763597	68600425	2057	4023											
ZFHX4	79776	broad.mit.edu	37	chr8	77766285	77766285	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggatgcagctaaaaacgcTgctgcccctgcagcaagttc	11	7	10	13	2	0	0	0	0	0	0	1	1	0	1	2	1	7	7	2	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:77766285T>C	uc003yav.2	+	10	7380	c.6993T>C	c.(6991-6993)GCT>GCC	p.A2331A	ZFHX4_uc003yau.1_Silent_p.A2376A|ZFHX4_uc003yaw.1_Silent_p.A2331A	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2331						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTAAAAACGCTGCTGCCCCTG	0.517										HNSCC(33;0.089)			12	137					0	0	0.00245	0	0		C	77766285	C	C	77766285	2	2	4	1	0	0	0	0	0	0	0	1	17660	1567	55	3		3	ZFHX4	8	77766285	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2688	77766285	68597737	2058	4024											
ZFHX4	79776	broad.mit.edu	37	chr8	77766752	77766752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctccgttcttggaaaggcCcatggacatgccctacatga	9	10	9	13	1	2	1	0	1	2	0	3	3	2	3	3	3	2	1	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:77766752C>T	uc003yav.2	+	10	7847	c.7460C>T	c.(7459-7461)CCC>CTC	p.P2487L	ZFHX4_uc003yau.1_Missense_Mutation_p.P2532L|ZFHX4_uc003yaw.1_Missense_Mutation_p.P2487L	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2487						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTGGAAAGGCCCATGGACATG	0.527										HNSCC(33;0.089)			23	168					0	0	0.00333	0	0		T	77766752	T	T	77766752	3	4	4	1	0	0	0	0	1	0	0	0	17660	623	22	4	7629	4	ZFHX4	8	77766752	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	467	77766752	68597270	2059	4025											
PKIA	5569	broad.mit.edu	37	chr8	79514053	79514053	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagcagcaaaatctgaaagCtaacaccccactttgaccct	15	7	6	13	0	1	2	0	2	1	0	1	3	1	2	3	0	4	3	3	0	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:79514053C>T	uc003yba.2	+	4	752	c.228C>T	c.(226-228)AGC>AGT	p.S76S	PKIA_uc003ybb.2_Silent_p.S76S|PKIA_uc010lzo.2_Silent_p.S76S	NM_006823	NP_006814	P61925	IPKA_HUMAN	cAMP-dependent protein kinase inhibitor alpha	76							cAMP-dependent protein kinase inhibitor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AATCTGAAAGCTAACACCCCA	0.428													4	65					0	0	0.009096	0	0		T	79514053	T	T	79514053	2	4	4	1	0	0	0	0	0	0	0	1	11992	796	28	2		2	PKIA	8	79514053	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1747301	79514053	66849969	2060	4026											
ZNF704	619279	broad.mit.edu	37	chr8	81577073	81577073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaagcatggtcagtgtgcaCgaggtagagggtggtgggag	9	8	20	4	1	1	1	1	0	0	1	1	3	1	2	0	5	2	4	0	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:81577073C>T	uc003yby.1	-	6	1136	c.904G>A	c.(904-906)GTG>ATG	p.V302M		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	302						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			TCAGTGTGCACGAGGTAGAGG	0.537													15	63					0	0	0.006122	0	0		T	81577073	T	T	81577073	3	4	4	1	0	0	0	0	1	0	0	0	18132	536	19	1	350	1	ZNF704	8	81577073	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2063020	81577073	64786949	2061	4027											
FABP5	2171	broad.mit.edu	37	chr8	82195629	82195629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagctttgcgaaaaatgggCgcaatggccaagccagattg	13	8	12	8	2	0	1	0	0	0	1	0	2	0	1	2	2	3	2	2	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:82195629C>T	uc003yca.1	+	2	156	c.108C>T	c.(106-108)GGC>GGT	p.G36G		NM_001444	NP_001435	Q01469	FABP5_HUMAN	fatty acid binding protein 5	36					epidermis development	cytoplasm	fatty acid binding|protein binding|transporter activity				0	Lung NSC(7;3.57e-05)|all_lung(9;0.00011)		Epithelial(68;0.102)			GAAAAATGGGCGCAATGGCCA	0.373													5	27					0	0	0.008291	0	0		T	82195629	T	T	82195629	2	4	4	1	0	0	0	0	0	0	0	1	5371	755	27	1		1	FABP5	8	82195629	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	618556	82195629	64168393	2062	4028											
CA3	761	broad.mit.edu	37	chr8	86357402	86357402	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagataggacatgagaatggCgagttccagattttccttga	12	11	11	7	1	0	4	0	2	0	3	2	7	2	5	2	2	0	1	2	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:86357402C>T	uc003ydj.2	+	5	545	c.462C>T	c.(460-462)GGC>GGT	p.G154G	CA3_uc011lfv.1_RNA	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	154					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0						ATGAGAATGGCGAGTTCCAGA	0.343													10	55					0	0	0.000978	0	0		T	86357402	T	T	86357402	2	4	4	1	0	0	0	0	0	0	0	1	2520	755	27	1		1	CA3	8	86357402	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4161773	86357402	60006620	2063	4029											
WWP1	11059	broad.mit.edu	37	chr8	87393781	87393781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttcaagtttggagccatcGcactttaaaagcagatgctt	12	13	8	8	1	1	1	1	0	0	1	2	2	1	2	1	1	3	4	1	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:87393781G>A	uc003ydt.2	+	5	537	c.257G>A	c.(256-258)CGC>CAC	p.R86H	WWP1_uc010mai.2_5'UTR	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	86	C2.				central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						TGGAGCCATCGCACTTTAAAA	0.338													35	59					0	0	0.00623	0	0		A	87393781	A	A	87393781	3	1	4	1	0	0	0	0	1	0	0	0	17441	1087	38	1	267	1	WWP1	8	87393781	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1036379	87393781	58970241	2064	4030											
WWP1	11059	broad.mit.edu	37	chr8	87447904	87447904	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagatcaatgtgtcccggCagacattgtttgaagattcc	12	12	9	8	1	1	4	1	1	0	3	3	4	3	4	2	1	0	2	2	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:87447904C>T	uc003ydt.2	+	16	2000	c.1720C>T	c.(1720-1722)CAG>TAG	p.Q574*	WWP1_uc010mai.2_Nonsense_Mutation_p.Q350*	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	574					central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						TGTGTCCCGGCAGACATTGTT	0.328													11	118					0	0	0.00245	0	0		T	87447904	T	T	87447904	4	4	4	1	0	0	0	0	0	1	0	0	17441	711	25	2	1774	2	WWP1	8	87447904	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	54123	87447904	58916118	2065	4031											
OSGIN2	734	broad.mit.edu	37	chr8	90937134	90937134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctataaacaaaggaaagttgCgtggcaaagtggatccagtg	15	8	12	6	1	0	0	0	0	0	0	1	2	1	2	1	3	2	2	1	3	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:90937134C>T	uc003yeg.2	+	6	1238	c.892C>T	c.(892-894)CGT>TGT	p.R298C	OSGIN2_uc003yeh.2_Missense_Mutation_p.R342C	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	298					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			AGGAAAGTTGCGTGGCAAAGT	0.438													23	140					0	0	0.007291	0	0		T	90937134	T	T	90937134	3	4	4	1	0	0	0	0	1	0	0	0	11309	768	27	1	1046	1	OSGIN2	8	90937134	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3489230	90937134	55426888	2066	4032											
RUNX1T1	862	broad.mit.edu	37	chr8	92998493	92998493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtctgcttcttgacaccGccttagtacggtgagagatc	7	11	11	12	3	2	3	0	2	2	1	3	4	2	3	3	2	2	2	3	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:92998493G>A	uc003yfd.2	-	8	1222	c.1138C>T	c.(1138-1140)CGG>TGG	p.R380W	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R353W|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R343W|RUNX1T1_uc010mao.2_Missense_Mutation_p.R353W|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R391W|RUNX1T1_uc010man.1_5'UTR|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R343W	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	380	Important for oligomerization.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			TCTTGACACCGCCTTAGTACG	0.478													9	121					0	0	0.006214	0	0		A	92998493	A	A	92998493	3	1	4	1	0	0	0	0	1	0	0	0	13772	1086	38	1	692	1	RUNX1T1	8	92998493	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2061359	92998493	53365529	2067	4033											
RUNX1T1	862	broad.mit.edu	37	chr8	93017525	93017525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcagcaggggcaagttggCctgcaagggaatgacaggaa	12	5	16	8	0	0	1	0	1	0	0	0	3	0	3	1	5	3	5	1	5	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:93017525C>T	uc003yfd.2	-	5	643	c.559G>A	c.(559-561)GCC>ACC	p.A187T	RUNX1T1_uc003yfc.1_Missense_Mutation_p.A160T|RUNX1T1_uc003yfe.1_Missense_Mutation_p.A150T|RUNX1T1_uc010mao.2_Missense_Mutation_p.A160T|RUNX1T1_uc011lgi.1_Missense_Mutation_p.A198T|RUNX1T1_uc003yfb.1_Missense_Mutation_p.A150T|RUNX1T1_uc003yff.1_Missense_Mutation_p.A150T	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	187	TAFH.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GGCAAGTTGGCCTGCAAGGGA	0.532													7	24					0	0	0.00308	0	0		T	93017525	T	T	93017525	3	4	4	1	0	0	0	0	1	0	0	0	13772	753	26	2	1283	2	RUNX1T1	8	93017525	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	19032	93017525	53346497	2068	4034											
CDH17	1015	broad.mit.edu	37	chr8	95189851	95189851	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcttgtttccctgtccaaGgctctgttgtaatacagaag	9	14	9	9	0	2	1	0	0	2	1	4	2	4	1	2	1	1	4	2	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:95189851G>T	uc003ygh.2	-	4	374	c.249C>A	c.(247-249)GCC>GCA	p.A83A	CDH17_uc011lgo.1_Silent_p.A83A|CDH17_uc011lgp.1_Silent_p.A83A	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	83	Extracellular (Potential).|Cadherin 1.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			CCCTGTCCAAGGCTCTGTTGT	0.448													7	128					6.5536e-12	7.08706e-12	0.00308	1	0		T	95189851	T	T	95189851	2	4	4	1	0	0	0	0	0	0	0	1	3105	987	35	5		5	CDH17	8	95189851	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2172326	95189851	51174171	2069	4035											
RAD54B	25788	broad.mit.edu	37	chr8	95423510	95423510	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagatttctcttcttgttccTtggacactgctacttcttta	6	19	5	11	0	3	1	0	0	3	1	5	2	4	2	1	1	2	2	1	1	2	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:95423510T>C	uc003ygk.2	-	4	436	c.338A>G	c.(337-339)AAG>AGG	p.K113R	RAD54B_uc010may.1_5'UTR|RAD54B_uc003ygl.1_RNA	NM_012415	NP_036547	O95073	FSBP_HUMAN	RAD54 homolog B	Error:Variant_position_missing_in_O95073_after_alignment					double-strand break repair via homologous recombination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA translocase activity|protein binding			kidney(2)|lung(1)|skin(1)	4	Breast(36;4.5e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00217)			TTCTTGTTCCTTGGACACTGC	0.323								Direct_reversal_of_damage|Homologous_recombination					5	63					0	0	0.000602	0	0		C	95423510	C	C	95423510	3	2	4	1	0	0	0	0	1	0	0	0	13017	1609	56	3	2442	3	RAD54B	8	95423510	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	233659	95423510	50940512	2070	4036											
KIAA1429	25962	broad.mit.edu	37	chr8	95523709	95523709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacaagcgctgaaggaacacGcatgtccttaaactcaaagg	16	6	9	10	2	1	1	1	1	0	0	2	2	2	2	1	2	4	2	1	2	7	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:95523709G>A	uc003ygo.1	-	13	3107	c.3094C>T	c.(3094-3096)CGT>TGT	p.R1032C	KIAA1429_uc003ygp.2_Missense_Mutation_p.R1032C|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1032					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			GAAGGAACACGCATGTCCTTA	0.423													12	49					0	0	0.000978	0	0		A	95523709	A	A	95523709	3	1	4	1	0	0	0	0	1	0	0	0	8247	1087	38	1	2446	1	KIAA1429	8	95523709	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	100199	95523709	50840313	2071	4037											
ESRP1	54845	broad.mit.edu	37	chr8	95680362	95680362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggtaggccaacaggggacGcttttgtcctctttgcctgt	6	13	12	10	1	1	0	0	0	1	0	2	1	2	1	3	4	2	2	3	4	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:95680362G>A	uc003ygq.3	+	10	1300	c.1117G>A	c.(1117-1119)GCT>ACT	p.A373T	ESRP1_uc003ygr.3_Missense_Mutation_p.A373T|ESRP1_uc003ygs.3_Missense_Mutation_p.A373T|ESRP1_uc003ygt.3_Missense_Mutation_p.A373T|ESRP1_uc003ygu.3_Missense_Mutation_p.A373T|ESRP1_uc003ygv.2_Missense_Mutation_p.A213T|ESRP1_uc003ygw.2_Missense_Mutation_p.A213T	NM_017697	NP_060167	Q6NXG1	ESRP1_HUMAN	RNA binding motif protein 35A isoform 1	373	RRM 2.				mRNA processing|regulation of RNA splicing|RNA splicing	nucleus|plasma membrane	mRNA binding|nucleotide binding		ESRP1/RAF1(4)	prostate(4)	4						AACAGGGGACGCTTTTGTCCT	0.483													11	80					0	0	0.008291	0	0		A	95680362	A	A	95680362	3	1	4	1	0	0	0	0	1	0	0	0	5266	1087	38	1	1155	1	ESRP1	8	95680362	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	156653	95680362	50683660	2072	4038											
INTS8	55656	broad.mit.edu	37	chr8	95886789	95886789	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttttgtaggtaataaaaCgaatgataaaatgttgttct	14	16	8	3	1	1	1	0	1	1	0	1	2	1	1	0	1	2	5	0	1	7	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:95886789C>T	uc003yhb.2	+	23	2773	c.2647C>T	c.(2647-2649)CGA>TGA	p.R883*	INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Intron	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	883					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					GGTAATAAAACGAATGATAAA	0.184													7	37					0	0	0.00308	0	0		T	95886789	T	T	95886789	4	4	4	1	0	0	0	0	0	1	0	0	7800	528	19	1	2737	1	INTS8	8	95886789	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	206427	95886789	50477233	2073	4039											
PLEKHF2	79666	broad.mit.edu	37	chr8	96166313	96166313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtgaagcaaatactagacGtataagtatagtggaaaact	18	9	9	5	1	0	2	0	1	0	1	0	3	0	3	0	1	3	3	0	1	10	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:96166313G>A	uc003yhn.1	+	2	288	c.41G>A	c.(40-42)CGT>CAT	p.R14H		NM_024613	NP_078889	Q9H8W4	PKHF2_HUMAN	phafin 2	14						transport vesicle	metal ion binding|protein binding			ovary(2)	2	Breast(36;3.18e-05)					AATACTAGACGTATAAGTATA	0.348													27	84					0	0	0.002096	0	0		A	96166313	A	A	96166313	3	1	4	1	0	0	0	0	1	0	0	0	12086	1145	40	1	43	1	PLEKHF2	8	96166313	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	279524	96166313	50197709	2074	4040											
GDF6	392255	broad.mit.edu	37	chr8	97157065	97157065	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtcgtcccagcccagcTccttgaagttcacgtgcagg	7	9	10	15	2	1	1	1	1	0	0	5	1	4	1	4	1	3	3	4	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:97157065T>C	uc003yhp.2	-	2	1194	c.1094A>G	c.(1093-1095)GAG>GGG	p.E365G		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	365					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					CCAGCCCAGCTCCTTGAAGTT	0.602													3	31					0	0	0.004672	0	0		C	97157065	C	C	97157065	3	2	4	1	0	0	0	0	1	0	0	0	6332	1551	54	3	277	3	GDF6	8	97157065	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	990752	97157065	49206957	2075	4041											
GDF6	392255	broad.mit.edu	37	chr8	97157131	97157131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acttcttgccgtgccgcttgCcatggcgactggcgaaggcc	5	9	13	14	4	1	0	0	0	1	0	1	2	1	0	4	3	3	1	4	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:97157131C>T	uc003yhp.2	-	2	1128	c.1028G>A	c.(1027-1029)GGC>GAC	p.G343D		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	343					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GTGCCGCTTGCCATGGCGACT	0.458													3	12					0	0	0.004672	0	0		T	97157131	T	T	97157131	3	4	4	1	0	0	0	0	1	0	0	0	6332	739	26	2	343	2	GDF6	8	97157131	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	66	97157131	49206891	2076	4042											
LAPTM4B	55353	broad.mit.edu	37	chr8	98827574	98827574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacatgtgcattgccattgCgatttctcttctcatgatcc	8	15	7	11	1	2	2	1	1	2	1	5	3	3	2	2	0	3	1	2	0	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:98827574C>T	uc003yia.2	+	3	659	c.503C>T	c.(502-504)GCG>GTG	p.A168V	LAPTM4B_uc010mbg.2_Intron	NM_018407	NP_060877	Q86VI4	LAP4B_HUMAN	lysosomal associated transmembrane protein 4	221	Helical; (Potential).				transport	endomembrane system|integral to membrane	protein binding			skin(1)	1	Breast(36;1.59e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.149)			ATTGCCATTGCGATTTCTCTT	0.413													9	40					0	0	0.000978	0	0		T	98827574	T	T	98827574	3	4	4	1	0	0	0	0	1	0	0	0	8641	768	27	1	513	1	LAPTM4B	8	98827574	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1670443	98827574	47536448	2077	4043											
POP1	10940	broad.mit.edu	37	chr8	99148735	99148735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttagaggaaataaaagcagCgtgccagtgtgtggaaccca	14	7	12	8	1	0	1	0	0	0	1	0	3	0	3	2	2	4	1	2	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:99148735C>T	uc003yij.3	+	8	1137	c.1037C>T	c.(1036-1038)GCG>GTG	p.A346V	POP1_uc011lgv.1_Missense_Mutation_p.A346V|POP1_uc003yik.2_Missense_Mutation_p.A346V	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	346					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			ATAAAAGCAGCGTGCCAGTGT	0.353													6	169					0	0	0.00308	0	0		T	99148735	T	T	99148735	3	4	4	1	0	0	0	0	1	0	0	0	12270	768	27	1	1063	1	POP1	8	99148735	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	321161	99148735	47215287	2078	4044											
VPS13B	157680	broad.mit.edu	37	chr8	100866085	100866085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttaaatgaaggcaagagcAtcctctgtgatattaatgag	14	11	9	7	0	1	4	0	3	1	1	2	4	2	4	2	1	1	2	2	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:100866085A>G	uc003yiv.2	+	56	10654	c.10543A>G	c.(10543-10545)ATC>GTC	p.I3515V	VPS13B_uc003yiw.2_Missense_Mutation_p.I3490V	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3515					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AGGCAAGAGCATCCTCTGTGA	0.358													33	133					0	0	0.004878	0	0		G	100866085	G	G	100866085	3	3	4	1	0	0	0	0	1	0	0	0	17216	217	8	3	10955	3	VPS13B	8	100866085	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1717350	100866085	45497937	2079	4045											
RGS22	26166	broad.mit.edu	37	chr8	101018332	101018332	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcgagtttcttccaccagCtccacctaaaaaaaataaat	15	11	4	11	1	1	0	0	0	1	0	4	1	3	0	4	0	1	2	4	0	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:101018332C>T	uc003yjb.1	-	16	2562	c.2367G>A	c.(2365-2367)GAG>GAA	p.E789E	RGS22_uc003yja.1_Silent_p.E608E|RGS22_uc003yjc.1_Silent_p.E777E|RGS22_uc011lgz.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	789					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			CTTCCACCAGCTCCACCTAAA	0.373													20	33					0	0	0.008871	0	0		T	101018332	T	T	101018332	2	4	4	1	0	0	0	0	0	0	0	1	13330	796	28	2		2	RGS22	8	101018332	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	152247	101018332	45345690	2080	4046											
FBXO43	286151	broad.mit.edu	37	chr8	101153265	101153265	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgctcttttttcagagTcagggtggacaatctgcttt	6	16	10	9	0	4	1	2	0	2	1	4	2	4	2	0	2	3	3	0	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:101153265T>C	uc003yjd.2	-	2	1930	c.1217A>G	c.(1216-1218)GAC>GGC	p.D406G	FBXO43_uc003yje.2_Missense_Mutation_p.D372G|FBXO43_uc010mbp.1_Missense_Mutation_p.D406G	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	406					meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			TTTTTCAGAGTCAGGGTGGAC	0.468													12	91					0	0	0.000978	0	0		C	101153265	C	C	101153265	3	2	4	1	0	0	0	0	1	0	0	0	5766	1667	58	3	925	3	FBXO43	8	101153265	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	134933	101153265	45210757	2081	4047											
POLR2K	5440	broad.mit.edu	37	chr8	101165527	101165527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaaattaatacagtggtcGtttttgatgctcgatgaatg	11	15	9	6	2	1	2	1	2	0	0	3	3	1	2	0	1	2	2	0	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:101165527G>A	uc003yjf.2	+	4	268	c.160G>A	c.(160-162)GTT>ATT	p.V54I		NM_005034	NP_005025	P53803	RPAB4_HUMAN	DNA directed RNA polymerase II polypeptide K	54					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription elongation from RNA polymerase III promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|zinc ion binding				0	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.59e-09)|all cancers(13;1.74e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			TACAGTGGTCGTTTTTGATGC	0.353													6	117					0	0	0.00308	0	0		A	101165527	A	A	101165527	3	1	4	1	0	0	0	0	1	0	0	0	12245	1145	40	1	170	1	POLR2K	8	101165527	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12262	101165527	45198495	2082	4048											
SPAG1	6674	broad.mit.edu	37	chr8	101232554	101232554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacctcttctgaggcgggCgatggcctatgaaactctag	10	9	12	10	2	3	2	0	2	3	0	3	4	3	2	2	3	2	0	2	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:101232554C>T	uc003yjh.1	+	13	1669	c.1583C>T	c.(1582-1584)GCG>GTG	p.A528V	SPAG1_uc003yji.1_Missense_Mutation_p.A528V	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	528	TPR 6.				single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		CTGAGGCGGGCGATGGCCTAT	0.403													21	90					0	0	0.005443	0	0		T	101232554	T	T	101232554	3	4	4	1	0	0	0	0	1	0	0	0	15000	768	27	1	1629	1	SPAG1	8	101232554	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	67027	101232554	45131468	2083	4049											
RNF19A	25897	broad.mit.edu	37	chr8	101271043	101271043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatgttaacagtagcaaagCgggtgtgataatcactggaa	15	9	12	5	1	1	1	1	1	0	0	1	3	1	2	0	2	3	3	0	2	6	3	rs34606154		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:101271043C>T	uc003yjj.1	-	11	2575	c.2258G>A	c.(2257-2259)CGC>CAC	p.R753H	RNF19A_uc003yjk.1_Missense_Mutation_p.R753H	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	753	Interaction with CASR.				microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)			AGTAGCAAAGCGGGTGTGATA	0.408													6	109					0	0	0.001168	0	0		T	101271043	T	T	101271043	3	4	4	1	0	0	0	0	1	0	0	0	13495	768	27	1	262	1	RNF19A	8	101271043	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	38489	101271043	45092979	2084	4050											
RNF19A	25897	broad.mit.edu	37	chr8	101277003	101277003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaacatccttgccttcatagCgattgtgaatcttgaattaa	13	14	6	8	1	2	2	1	2	1	0	3	3	3	2	2	0	3	0	2	0	5	6	rs138968684	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:101277003C>T	uc003yjj.1	-	7	1519	c.1202G>A	c.(1201-1203)CGC>CAC	p.R401H	RNF19A_uc003yjk.1_Missense_Mutation_p.R401H	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	401					microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)			GCCTTCATAGCGATTGTGAAT	0.373													24	111					0	0	0.005443	0	0		T	101277003	T	T	101277003	3	4	4	1	0	0	0	0	1	0	0	0	13495	768	27	1	1334	1	RNF19A	8	101277003	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5960	101277003	45087019	2085	4051											
NCALD	83988	broad.mit.edu	37	chr8	102731525	102731525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgatatagccatttccGtccaggtcgtacatgctgaa	9	13	9	10	2	0	2	0	2	0	0	3	2	2	2	3	1	4	3	3	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:102731525G>A	uc003yke.2	-	2	702	c.333C>T	c.(331-333)GAC>GAT	p.D111D	NCALD_uc003ykf.2_Silent_p.D111D|NCALD_uc003ykg.2_Silent_p.D111D|NCALD_uc003ykh.2_Silent_p.D111D|NCALD_uc003yki.2_Silent_p.D111D|NCALD_uc003ykj.2_Silent_p.D111D|NCALD_uc003ykk.2_Silent_p.D111D|NCALD_uc003ykl.2_Silent_p.D111D	NM_032041	NP_114430	P61601	NCALD_HUMAN	neurocalcin delta	111	EF-hand 3.|2 (Potential).				synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)			AGCCATTTCCGTCCAGGTCGT	0.463													23	117					0	0	0.00278	0	0		A	102731525	A	A	102731525	2	1	4	1	0	0	0	0	0	0	0	1	10220	1136	40	1		1	NCALD	8	102731525	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1454522	102731525	43632497	2086	4052											
NCALD	83988	broad.mit.edu	37	chr8	102731596	102731596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgaagttacactcaaggCgatgatgaattctctaaagt	13	11	8	9	2	2	2	1	2	1	0	4	4	2	2	1	1	1	1	1	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:102731596C>T	uc003yke.2	-	2	631	c.262G>A	c.(262-264)GCC>ACC	p.A88T	NCALD_uc003ykf.2_Missense_Mutation_p.A88T|NCALD_uc003ykg.2_Missense_Mutation_p.A88T|NCALD_uc003ykh.2_Missense_Mutation_p.A88T|NCALD_uc003yki.2_Missense_Mutation_p.A88T|NCALD_uc003ykj.2_Missense_Mutation_p.A88T|NCALD_uc003ykk.2_Missense_Mutation_p.A88T|NCALD_uc003ykl.2_Missense_Mutation_p.A88T	NM_032041	NP_114430	P61601	NCALD_HUMAN	neurocalcin delta	88	EF-hand 2.				synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)			ACACTCAAGGCGATGATGAAT	0.478													11	193					0	0	0.001368	0	0		T	102731596	T	T	102731596	3	4	4	1	0	0	0	0	1	0	0	0	10220	768	27	1	331	1	NCALD	8	102731596	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	71	102731596	43632426	2087	4053											
FZD6	8323	broad.mit.edu	37	chr8	104312465	104312465	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaacatgacgtttttccctAatctgatgggtcattatgac	11	14	7	9	1	2	3	1	3	1	0	3	3	3	3	1	1	1	1	1	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:104312465A>G	uc003ylh.2	+	2	414	c.130A>G	c.(130-132)AAT>GAT	p.N44D	FZD6_uc003yli.2_Missense_Mutation_p.N44D|FZD6_uc003ylj.2_Missense_Mutation_p.N44D|FZD6_uc011lhn.1_Missense_Mutation_p.N10D|FZD6_uc011lho.1_5'UTR|FZD6_uc011lhp.1_5'UTR	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	44	FZ.|Extracellular (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			GTTTTTCCCTAATCTGATGGG	0.418													6	133					0	0	0.00308	0	0		G	104312465	G	G	104312465	3	3	4	1	0	0	0	0	1	0	0	0	6148	362	13	3	132	3	FZD6	8	104312465	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1580869	104312465	42051557	2088	4054											
FZD6	8323	broad.mit.edu	37	chr8	104340603	104340603	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttggaagcaaaaagacatgCacagaatgggctgggttttt	13	10	13	5	0	0	2	0	0	0	2	0	3	0	3	0	3	2	5	0	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:104340603C>T	uc003ylh.2	+	5	1784	c.1500C>T	c.(1498-1500)TGC>TGT	p.C500C	FZD6_uc003yli.2_Silent_p.C500C|FZD6_uc003ylj.2_Silent_p.C500C|FZD6_uc011lhn.1_Silent_p.C466C|FZD6_uc011lho.1_Silent_p.C195C|FZD6_uc011lhp.1_Silent_p.C445C	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	500	Lys-Thr-X-X-X-Trp motif, mediates interaction with the PDZ domain of Dvl family members (By similarity).|Cytoplasmic (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			AAAAGACATGCACAGAATGGG	0.353													11	66					0	0	0.008291	0	0		T	104340603	T	T	104340603	2	4	4	1	0	0	0	0	0	0	0	1	6148	718	25	2		2	FZD6	8	104340603	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	28138	104340603	42023419	2089	4055											
CTHRC1	115908	broad.mit.edu	37	chr8	104390323	104390323	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagtggctcacttcggctAaaatgcagaaatgcatgctg	11	11	10	9	1	2	1	2	0	0	1	3	1	2	1	0	2	3	5	0	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:104390323A>G	uc003ylk.2	+	3	540	c.441A>G	c.(439-441)CTA>CTG	p.L147L		NM_138455	NP_612464	Q96CG8	CTHR1_HUMAN	collagen triple helix repeat containing 1	147						collagen				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(57;2.79e-06)|STAD - Stomach adenocarcinoma(118;0.197)			CACTTCGGCTAAAATGCAGAA	0.383													19	104					0	0	0.002299	0	0		G	104390323	G	G	104390323	2	3	4	1	0	0	0	0	0	0	0	1	4013	349	13	3		3	CTHRC1	8	104390323	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	49720	104390323	41973699	2090	4056											
LRP12	29967	broad.mit.edu	37	chr8	105509882	105509882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtttaaagtcagtgaagcGtaaaatgactttacggtgat	15	12	10	4	2	1	3	1	3	0	0	1	3	1	3	0	1	2	2	0	1	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:105509882G>A	uc003yma.2	-	5	993	c.898C>T	c.(898-900)CGC>TGC	p.R300C	LRP12_uc003ymb.2_Missense_Mutation_p.R281C|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	300	Extracellular (Potential).|CUB 2.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			TCAGTGAAGCGTAAAATGACT	0.378													11	62					0	0	0.000978	0	0		A	105509882	A	A	105509882	3	1	4	1	0	0	0	0	1	0	0	0	8972	1145	40	1	1693	1	LRP12	8	105509882	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1119559	105509882	40854140	2091	4057											
ANGPT1	284	broad.mit.edu	37	chr8	108264151	108264151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggccctttgaagtagtGccactttatcccattcagtt	8	14	8	11	0	1	1	1	1	0	0	2	1	2	1	3	1	1	2	3	1	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:108264151G>A	uc003ymn.2	-	9	1897	c.1429C>T	c.(1429-1431)CAC>TAC	p.H477Y	ANGPT1_uc011lhv.1_Missense_Mutation_p.H277Y|ANGPT1_uc003ymo.2_Missense_Mutation_p.H476Y	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	477	Fibrinogen C-terminal.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			TTGAAGTAGTGCCACTTTATC	0.418													30	149					0	0	0.002836	0	0		A	108264151	A	A	108264151	3	1	4	1	0	0	0	0	1	0	0	0	610	1319	46	2	71	2	ANGPT1	8	108264151	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2754269	108264151	38099871	2092	4058											
ANGPT1	284	broad.mit.edu	37	chr8	108296925	108296925	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctatagttttgctttTcatttcctatgtggaatctg	7	20	6	8	0	2	0	1	0	1	0	3	1	3	1	2	1	2	2	2	1	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:108296925T>C	uc003ymn.2	-	7	1658	c.1190A>G	c.(1189-1191)GAA>GGA	p.E397G	ANGPT1_uc011lhv.1_Missense_Mutation_p.E197G|ANGPT1_uc003ymo.2_Missense_Mutation_p.E396G|ANGPT1_uc003ymp.3_Missense_Mutation_p.E196G	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	397	Fibrinogen C-terminal.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			GTTTTGCTTTTCATTTCCTAT	0.388													8	67					0	0	0.004482	0	0		C	108296925	C	C	108296925	3	2	4	1	0	0	0	0	1	0	0	0	610	1783	62	3	318	3	ANGPT1	8	108296925	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	32774	108296925	38067097	2093	4059											
CSMD3	114788	broad.mit.edu	37	chr8	113293565	113293565	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attggctgtggttcctgggtTaccacactgcacagctataa	9	12	10	10	0	0	0	0	0	0	0	1	0	1	0	2	3	3	5	2	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:113293565T>A	uc003ynu.2	-	59	9505	c.9346A>T	c.(9346-9348)AAC>TAC	p.N3116Y	CSMD3_uc003yns.2_Missense_Mutation_p.N2318Y|CSMD3_uc003ynt.2_Missense_Mutation_p.N3076Y|CSMD3_uc011lhx.1_Missense_Mutation_p.N2947Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3116	Extracellular (Potential).|Sushi 23.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GTTCCTGGGTTACCACACTGC	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			11	54					0	0	0.001368	0	0		A	113293565	A	A	113293565	3	1	4	1	0	0	0	0	1	0	0	0	3949	1754	61	5	1829	5	CSMD3	8	113293565	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	4996640	113293565	33070457	2094	4060											
CSMD3	114788	broad.mit.edu	37	chr8	113966981	113966981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctctagatttaaaatctatgGcctttttcactagttaagaa	13	16	5	7	0	3	2	1	0	2	2	3	2	3	2	1	1	0	1	1	1	7	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:113966981G>A	uc003ynu.2	-	8	1511	c.1352C>T	c.(1351-1353)GCC>GTC	p.A451V	CSMD3_uc003ynt.2_Missense_Mutation_p.A411V|CSMD3_uc011lhx.1_Missense_Mutation_p.A347V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	451	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AAAATCTATGGCCTTTTTCAC	0.289										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			7	18					0	0	0.001984	0	0		A	113966981	A	A	113966981	3	1	4	1	0	0	0	0	1	0	0	0	3949	1203	42	2	10027	2	CSMD3	8	113966981	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	673416	113966981	32397041	2095	4061											
TRPS1	7227	broad.mit.edu	37	chr8	116632282	116632282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggggggttctttttccggaCcatatctgcaaagataaagg	11	11	12	7	1	2	1	0	0	2	1	3	2	3	2	2	5	1	2	2	5	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:116632282C>T	uc003ynz.2	-	2	463	c.4G>A	c.(4-6)GTC>ATC	p.V2I	TRPS1_uc011lhy.1_Missense_Mutation_p.V6I|TRPS1_uc003yny.2_Missense_Mutation_p.V15I|TRPS1_uc010mcy.2_Missense_Mutation_p.V2I	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	2					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TTTTTCCGGACCATATCTGCA	0.408									Langer-Giedion_syndrome				16	27					0	0	0.007413	0	0		T	116632282	T	T	116632282	3	4	4	1	0	0	0	0	1	0	0	0	16619	507	18	4	3861	4	TRPS1	8	116632282	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2665301	116632282	29731740	2096	4062											
DEPDC6	64798	broad.mit.edu	37	chr8	121013832	121013832	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgaacttccggcggaggCgaagactgatggagctgctc	10	7	15	9	3	0	3	0	2	0	1	2	7	1	5	1	4	3	2	1	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:121013832C>T	uc003yow.3	+	5	860	c.673C>T	c.(673-675)CGA>TGA	p.R225*	DEPDC6_uc011lid.1_Nonsense_Mutation_p.R124*	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	225	Poly-Arg.				intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CCGGCGGAGGCGAAGACTGAT	0.493													11	44					0	0	0.000978	0	0		T	121013832	T	T	121013832	4	4	4	1	0	0	0	0	0	1	0	0	4449	760	27	1	691	1	DEPDC6	8	121013832	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4381550	121013832	25350190	2097	4063											
COL14A1	7373	broad.mit.edu	37	chr8	121228677	121228677	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacccaacttcaagacagaTcaatggttatcgaattgtat	14	11	8	8	1	2	2	2	0	0	2	3	4	2	3	1	2	1	2	1	2	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:121228677T>C	uc003yox.2	+	14	1950	c.1685T>C	c.(1684-1686)ATC>ACC	p.I562T	COL14A1_uc003yoy.2_Missense_Mutation_p.I240T|COL14A1_uc010mde.1_Missense_Mutation_p.I240T	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	562	Fibronectin type-III 4.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			TCAAGACAGATCAATGGTTAT	0.388													7	106					0	0	0.00308	0	0		C	121228677	C	C	121228677	3	2	4	1	0	0	0	0	1	0	0	0	3674	1435	50	3	1735	3	COL14A1	8	121228677	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	214845	121228677	25135345	2098	4064											
COL14A1	7373	broad.mit.edu	37	chr8	121259909	121259909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatggtataaccggttgcGcattacgtgggaccccccat	9	9	12	11	3	0	0	0	0	0	0	0	2	0	2	4	4	3	3	4	4	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:121259909G>A	uc003yox.2	+	21	2802	c.2537G>A	c.(2536-2538)CGC>CAC	p.R846H	COL14A1_uc003yoy.2_Missense_Mutation_p.R524H	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	846	Fibronectin type-III 7.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			AACCGGTTGCGCATTACGTGG	0.458													16	47					0	0	0.006122	0	0		A	121259909	A	A	121259909	3	1	4	1	0	0	0	0	1	0	0	0	3674	1087	38	1	2615	1	COL14A1	8	121259909	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	31232	121259909	25104113	2099	4065											
HAS2	3037	broad.mit.edu	37	chr8	122641065	122641065	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttggacaagaccaattgCgttacgtgttgcgagctttc	8	14	11	8	3	0	1	0	0	0	1	1	3	0	2	1	1	4	4	1	1	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:122641065C>T	uc003yph.2	-	2	1054	c.516G>A	c.(514-516)ACG>ACA	p.T172T		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	172	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			AGACCAATTGCGTTACGTGTT	0.458													53	292					0	0	0.00361	0	0		T	122641065	T	T	122641065	2	4	4	1	0	0	0	0	0	0	0	1	6978	755	27	1		1	HAS2	8	122641065	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1381156	122641065	23722957	2100	4066											
ZHX2	22882	broad.mit.edu	37	chr8	123964440	123964440	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcctctcgagactcggCggggtggagctcctccaaga	8	7	14	12	3	1	3	0	0	1	3	6	6	4	4	3	4	1	1	3	4	1	0	rs142739771		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:123964440C>T	uc003ypk.1	+	3	1257	c.690C>T	c.(688-690)GGC>GGT	p.G230G		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	230	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			CGAGACTCGGCGGGGTGGAGC	0.577													7	85					0	0	0.00308	0	0		T	123964440	T	T	123964440	2	4	4	1	0	0	0	0	0	0	0	1	17701	755	27	1		1	ZHX2	8	123964440	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1323375	123964440	22399582	2101	4067											
WDYHV1	55093	broad.mit.edu	37	chr8	124453601	124453601	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcccaaggtaggatggggCgccgtctacacactatccga	10	7	12	12	3	1	0	0	0	1	0	3	3	3	1	3	4	1	1	3	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:124453601C>T	uc003yqn.1	+	6	689	c.564C>T	c.(562-564)GGC>GGT	p.G188G	WDYHV1_uc011lij.1_Silent_p.G128G|WDYHV1_uc003yqo.1_RNA	NM_018024	NP_060494	Q96HA8	NTAQ1_HUMAN	WDYHV motif containing 1	188					protein modification process	cytosol|nucleus	protein binding|protein N-terminal glutamine amidohydrolase activity			ovary(1)|skin(1)	2						TAGGATGGGGCGCCGTCTACA	0.383													6	19					0	0	0.001984	0	0		T	124453601	T	T	124453601	2	4	4	1	0	0	0	0	0	0	0	1	17369	755	27	1		1	WDYHV1	8	124453601	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	489161	124453601	21910421	2102	4068											
NDUFB9	4715	broad.mit.edu	37	chr8	125555399	125555399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagaatgaaaaggatatggCgaaggccacccagctgctga	15	6	12	8	1	0	3	0	2	0	1	0	5	0	4	2	3	2	2	2	3	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:125555399C>T	uc003yrg.3	+	2	258	c.173C>T	c.(172-174)GCG>GTG	p.A58V	NDUFB9_uc011lim.1_Missense_Mutation_p.A58V	NM_005005	NP_004996	Q9Y6M9	NDUB9_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	58					mitochondrial electron transport, NADH to ubiquinone|sensory perception of sound|transport	mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			ovary(1)|skin(1)	2	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)		NADH(DB00157)	AAGGATATGGCGAAGGCCACC	0.463													10	70					0	0	0.006214	0	0		T	125555399	T	T	125555399	3	4	4	1	0	0	0	0	1	0	0	0	10307	768	27	1	179	1	NDUFB9	8	125555399	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1101798	125555399	20808623	2103	4069											
MTSS1	9788	broad.mit.edu	37	chr8	125565387	125565387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctggcctggggagacagtgGcacttgggggttcccgttcc	4	10	16	11	1	1	1	0	0	1	1	3	2	3	1	3	6	0	3	3	6	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:125565387G>A	uc003yrk.2	-	14	2648	c.2114C>T	c.(2113-2115)GCC>GTC	p.A705V	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_Missense_Mutation_p.A354V|MTSS1_uc011lin.1_Missense_Mutation_p.A479V|MTSS1_uc011lio.1_Missense_Mutation_p.A595V|MTSS1_uc003yri.2_Missense_Mutation_p.A423V|MTSS1_uc003yrj.2_Missense_Mutation_p.A680V|MTSS1_uc003yrl.2_Missense_Mutation_p.A709V	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	705	Pro-rich.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			GGAGACAGTGGCACTTGGGGG	0.582													17	210					0	0	0.004007	0	0		A	125565387	A	A	125565387	3	1	4	1	0	0	0	0	1	0	0	0	9980	1203	42	2	157	2	MTSS1	8	125565387	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	9988	125565387	20798635	2104	4070											
MTSS1	9788	broad.mit.edu	37	chr8	125568594	125568594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctcgcttctctttgcggCgctgcagggtgttcaccaga	4	13	12	12	3	3	1	1	0	2	1	5	1	3	1	1	2	2	5	1	2	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:125568594C>T	uc003yrk.2	-	12	1817	c.1283G>A	c.(1282-1284)CGC>CAC	p.R428H	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_5'UTR|MTSS1_uc011lin.1_Missense_Mutation_p.R202H|MTSS1_uc011lio.1_Missense_Mutation_p.R318H|MTSS1_uc003yri.2_Missense_Mutation_p.R146H|MTSS1_uc003yrj.2_Missense_Mutation_p.R403H|MTSS1_uc003yrl.2_Missense_Mutation_p.R432H	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	428					actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			CTCTTTGCGGCGCTGCAGGGT	0.647													3	10					0	0	0.004672	0	0		T	125568594	T	T	125568594	3	4	4	1	0	0	0	0	1	0	0	0	9980	768	27	1	996	1	MTSS1	8	125568594	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3207	125568594	20795428	2105	4071											
SQLE	6713	broad.mit.edu	37	chr8	126021249	126021249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactgttgttgcagatgggCttttctccaagttcaggaaa	9	14	11	7	0	2	2	1	1	1	1	3	3	2	3	1	2	1	5	1	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:126021249C>T	uc011liq.1	+	5	1785	c.859C>T	c.(859-861)CTT>TTT	p.L287F		NM_003129	NP_003120	Q14534	ERG1_HUMAN	squalene epoxidase	287					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome	flavin adenine dinucleotide binding|squalene monooxygenase activity			ovary(1)|breast(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)		Butenafine(DB01091)|Naftifine(DB00735)|Terbinafine(DB00857)	TGCAGATGGGCTTTTCTCCAA	0.388													5	24					0	0	0.001984	0	0		T	126021249	T	T	126021249	3	4	4	1	0	0	0	0	1	0	0	0	15153	797	28	2	776	2	SQLE	8	126021249	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	452655	126021249	20342773	2106	4072											
KIAA0196	9897	broad.mit.edu	37	chr8	126040911	126040911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatcctccaggaacagaaggGcacccacaacatctgcagga	15	4	9	13	0	1	1	0	0	1	1	3	3	3	3	3	3	3	2	3	3	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:126040911G>A	uc003yrt.2	-	28	3703	c.3374C>T	c.(3373-3375)GCC>GTC	p.A1125V	KIAA0196_uc011lir.1_Missense_Mutation_p.A977V|KIAA0196_uc003yru.1_Missense_Mutation_p.P648S	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	1125					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			GAACAGAAGGGCACCCACAAC	0.398													4	75					0	0	0.001168	0	0		A	126040911	A	A	126040911	3	1	4	1	0	0	0	0	1	0	0	0	8177	1203	42	2	113	2	KIAA0196	8	126040911	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	19662	126040911	20323111	2107	4073											
KIAA0196	9897	broad.mit.edu	37	chr8	126056869	126056869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggatttctgagaagaggCggctgctggtcacttcctga	7	12	13	9	1	3	3	1	2	2	2	4	5	4	4	1	4	1	2	1	4	1	2	rs142078144	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:126056869C>T	uc003yrt.2	-	21	2905	c.2576G>A	c.(2575-2577)CGC>CAC	p.R859H	KIAA0196_uc011lir.1_Missense_Mutation_p.R711H|KIAA0196_uc003yru.1_Missense_Mutation_p.R433H	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	859					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			TGAGAAGAGGCGGCTGCTGGT	0.428													8	161					0	0	0.006214	0	0		T	126056869	T	T	126056869	3	4	4	1	0	0	0	0	1	0	0	0	8177	768	27	1	939	1	KIAA0196	8	126056869	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	15958	126056869	20307153	2108	4074											
ASAP1	50807	broad.mit.edu	37	chr8	131070228	131070228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtcctcttcccctgtgAcgataatcacttctccctcg	5	13	6	17	2	3	1	1	1	2	0	7	2	5	1	5	1	0	0	5	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:131070228A>G	uc003yta.1	-	28	3315	c.3287T>C	c.(3286-3288)GTC>GCC	p.V1096A	ASAP1_uc003ysz.1_Missense_Mutation_p.V907A|ASAP1_uc011liw.1_Missense_Mutation_p.V1089A	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	1096	SH3.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TTCCCCTGTGACGATAATCAC	0.498													7	113					0	0	0.00308	0	0		G	131070228	G	G	131070228	3	3	4	1	0	0	0	0	1	0	0	0	1011	275	10	3	110	3	ASAP1	8	131070228	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	5013359	131070228	15293794	2109	4075											
ASAP1	50807	broad.mit.edu	37	chr8	131092151	131092151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgctgagatggcttacctcGactgctgggatagtccctca	7	10	12	12	2	1	1	1	1	0	1	3	4	2	2	2	2	2	3	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:131092151G>A	uc003yta.1	-	25	2667	c.2639C>T	c.(2638-2640)TCG>TTG	p.S880L	ASAP1_uc003ysz.1_Missense_Mutation_p.S691L|ASAP1_uc011liw.1_Missense_Mutation_p.S873L	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	880	Pro-rich.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						GGCTTACCTCGACTGCTGGGA	0.453													60	222					0	0	0.00361	0	0		A	131092151	A	A	131092151	3	1	4	1	0	0	0	0	1	0	0	0	1011	1059	37	1	770	1	ASAP1	8	131092151	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	21923	131092151	15271871	2110	4076											
ASAP1	50807	broad.mit.edu	37	chr8	131104379	131104379	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agagggagtgttgaaggtggGccagttggacctagaaagga	12	7	18	4	0	0	3	0	1	0	2	0	6	0	6	2	5	0	2	2	5	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:131104379G>A	uc003yta.1	-	24	2440	c.2412C>T	c.(2410-2412)GGC>GGT	p.G804G	ASAP1_uc003ysz.1_Silent_p.G615G|ASAP1_uc011liw.1_Silent_p.G797G	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	804	Pro-rich.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TTGAAGGTGGGCCAGTTGGAC	0.517													18	48					0	0	0.008871	0	0		A	131104379	A	A	131104379	2	1	4	1	0	0	0	0	0	0	0	1	1011	1190	42	2		2	ASAP1	8	131104379	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12228	131104379	15259643	2111	4077											
EFR3A	23167	broad.mit.edu	37	chr8	133014887	133014887	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaacaggaaaaggaaaagagGcgtcttgtgatagagaaatt	18	7	13	3	1	1	3	0	1	1	2	1	7	1	5	0	3	1	0	0	3	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133014887G>A	uc003yte.2	+	21	2445	c.2244G>A	c.(2242-2244)AGG>AGA	p.R748R		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	748						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			AGGAAAAGAGGCGTCTTGTGA	0.378													12	80					0	0	0.00245	0	0		A	133014887	A	A	133014887	2	1	4	1	0	0	0	0	0	0	0	1	4964	1194	42	2		2	EFR3A	8	133014887	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1910508	133014887	13349135	2112	4078											
PHF20L1	51105	broad.mit.edu	37	chr8	133806768	133806768	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgggatagcaatagattgCgaccccttgagagaccagca	13	7	11	10	1	0	3	0	1	0	2	0	6	0	4	3	1	3	2	3	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133806768C>T	uc003ytt.2	+	3	521	c.196C>T	c.(196-198)CGA>TGA	p.R66*	PHF20L1_uc003ytr.2_Nonsense_Mutation_p.R66*|PHF20L1_uc010mdv.2_Nonsense_Mutation_p.R66*|PHF20L1_uc003yts.2_Nonsense_Mutation_p.R66*|PHF20L1_uc011lja.1_Nonsense_Mutation_p.R66*|PHF20L1_uc003ytu.1_RNA|PHF20L1_uc003ytq.2_Nonsense_Mutation_p.R66*	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	66	Tudor 1.						nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			CAATAGATTGCGACCCCTTGA	0.403													9	141					0	0	0.006214	0	0		T	133806768	T	T	133806768	4	4	4	1	0	0	0	0	0	1	0	0	11851	760	27	1	202	1	PHF20L1	8	133806768	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	791881	133806768	12557254	2113	4079											
PHF20L1	51105	broad.mit.edu	37	chr8	133829268	133829268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccctctccagccactgatgGgaaagtattctccatcagtt	9	12	7	13	0	3	1	1	1	2	0	6	2	4	2	4	1	1	2	4	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133829268G>A	uc003ytt.2	+	11	1644	c.1319G>A	c.(1318-1320)GGG>GAG	p.G440E	PHF20L1_uc003yts.2_Missense_Mutation_p.G440E|PHF20L1_uc011lja.1_Missense_Mutation_p.G414E|PHF20L1_uc003ytu.1_Intron	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	440							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			GCCACTGATGGGAAAGTATTC	0.403													4	36					0	0	0.008291	0	0		A	133829268	A	A	133829268	3	1	4	1	0	0	0	0	1	0	0	0	11851	1232	43	4	1363	4	PHF20L1	8	133829268	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	22500	133829268	12534754	2114	4080											
PHF20L1	51105	broad.mit.edu	37	chr8	133848857	133848857	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtggggatgaatacaatcAggactttgattcaaccaatt	14	11	10	6	0	2	2	2	2	0	0	2	5	2	4	1	3	2	0	1	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133848857A>G	uc003ytt.2	+	16	2307	c.1982A>G	c.(1981-1983)CAG>CGG	p.Q661R	PHF20L1_uc011lja.1_Missense_Mutation_p.Q635R	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	661							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			GAATACAATCAGGACTTTGAT	0.373													6	99					0	0	0.00308	0	0		G	133848857	G	G	133848857	3	3	4	1	0	0	0	0	1	0	0	0	11851	188	7	3	2136	3	PHF20L1	8	133848857	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	19589	133848857	12515165	2115	4081											
TG	7038	broad.mit.edu	37	chr8	133898950	133898950	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttctcaaagaagccatcCgagcaatttttccctcccga	11	11	5	14	2	2	1	1	0	2	1	6	3	5	1	4	0	2	1	4	0	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133898950C>T	uc003ytw.2	+	9	1374	c.1333C>T	c.(1333-1335)CGA>TGA	p.R445*		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	445					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AGAAGCCATCCGAGCAATTTT	0.498													20	108					0	0	0.001882	0	0		T	133898950	T	T	133898950	4	4	4	1	0	0	0	0	0	1	0	0	15838	644	23	1	1367	1	TG	8	133898950	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	50093	133898950	12465072	2116	4082											
TG	7038	broad.mit.edu	37	chr8	133931753	133931753	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacgaccatttctgctggagCtttcagccagactcactgta	10	11	8	12	1	3	1	2	0	1	1	3	3	3	2	2	1	4	3	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133931753C>A	uc003ytw.2	+	21	4552	c.4511C>A	c.(4510-4512)GCT>GAT	p.A1504D	TG_uc010mdw.2_Missense_Mutation_p.A263D|TG_uc011ljb.1_5'UTR|TG_uc003ytx.1_RNA	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1504					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCTGCTGGAGCTTTCAGCCAG	0.428													5	97					3.59834e-05	3.78692e-05	0.001168	1	0		A	133931753	A	A	133931753	3	1	4	1	0	0	0	0	1	0	0	0	15838	797	28	5	4593	5	TG	8	133931753	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	32803	133931753	12432269	2117	4083											
TG	7038	broad.mit.edu	37	chr8	133961096	133961096	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactggatggatccctctgAagcctgggctaatgctacat	10	10	11	10	0	1	2	0	1	1	1	2	4	2	4	2	3	3	2	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133961096A>G	uc003ytw.2	+	27	5350	c.5309A>G	c.(5308-5310)GAA>GGA	p.E1770G	TG_uc010mdw.2_Missense_Mutation_p.E529G|TG_uc011ljb.1_Missense_Mutation_p.E139G	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1770	Type IIIB.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GATCCCTCTGAAGCCTGGGCT	0.502													24	100					0	0	0.00333	0	0		G	133961096	G	G	133961096	3	3	4	1	0	0	0	0	1	0	0	0	15838	246	9	3	5415	3	TG	8	133961096	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	29343	133961096	12402926	2118	4084											
WISP1	8840	broad.mit.edu	37	chr8	134232921	134232921	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgcacgtgcatcgacggCgcggtgggctgcacaccact	8	6	13	14	5	0	0	0	0	0	0	1	1	0	0	1	3	4	4	1	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:134232921C>T	uc003yub.2	+	3	523	c.447C>T	c.(445-447)GGC>GGT	p.G149G	WISP1_uc003yuc.2_Intron|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	149	VWFC.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GCATCGACGGCGCGGTGGGCT	0.667													7	24					0	0	0.001984	0	0		T	134232921	T	T	134232921	2	4	4	1	0	0	0	0	0	0	0	1	17398	755	27	1		1	WISP1	8	134232921	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	271825	134232921	12131101	2119	4085											
WISP1	8840	broad.mit.edu	37	chr8	134237815	134237815	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgcgatgtggacatccatAcactcattaaggtgggtcca	11	10	10	10	1	1	0	1	0	0	0	3	2	3	1	2	3	2	0	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:134237815A>G	uc003yub.2	+	4	869	c.793A>G	c.(793-795)ACA>GCA	p.T265A	WISP1_uc003yuc.2_Missense_Mutation_p.T178A|WISP1_uc010meb.2_Missense_Mutation_p.T93A|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	265					cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GGACATCCATACACTCATTAA	0.552													16	28					0	0	0.002299	0	0		G	134237815	G	G	134237815	3	3	4	1	0	0	0	0	1	0	0	0	17398	391	14	3	807	3	WISP1	8	134237815	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	4894	134237815	12126207	2120	4086											
NDRG1	10397	broad.mit.edu	37	chr8	134276800	134276800	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaacttacggttcatgccGatgtcatggtaggtgaggat	10	11	13	7	2	2	2	2	1	0	1	2	4	2	3	1	4	3	2	1	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:134276800G>T	uc003yuh.2	-	4	781	c.195C>A	c.(193-195)ATC>ATA	p.I65I	NDRG1_uc003yug.2_Silent_p.I65I|NDRG1_uc010mee.2_Intron|NDRG1_uc010mef.2_5'UTR|NDRG1_uc011ljh.1_5'UTR|NDRG1_uc011lji.1_Intron	NM_001135242	NP_001128714	Q92597	NDRG1_HUMAN	N-myc downstream regulated 1	65					cellular response to hypoxia|response to metal ion	cytoplasm|microtubule cytoskeleton|nucleus|plasma membrane	protein binding			ovary(4)	4	all_epithelial(106;4.26e-24)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GGTTCATGCCGATGTCATGGT	0.572													11	53					7.03913e-09	7.54027e-09	0.001368	1	0		T	134276800	T	T	134276800	2	4	4	1	0	0	0	0	0	0	0	1	10270	1048	37	5		5	NDRG1	8	134276800	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	38985	134276800	12087222	2121	4087											
ZFAT	57623	broad.mit.edu	37	chr8	135524778	135524778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctgcctgtgtcccttgaaCgtcttcttcggcctctgtga	3	14	10	14	3	3	2	0	2	3	0	5	2	4	2	3	1	2	1	3	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:135524778C>T	uc003yup.2	-	14	3476	c.3301G>A	c.(3301-3303)GTT>ATT	p.V1101I	ZFAT_uc011ljj.1_Missense_Mutation_p.V220I|ZFAT_uc003yun.2_Missense_Mutation_p.V1089I|ZFAT_uc003yuo.2_Missense_Mutation_p.V1089I|ZFAT_uc010meh.2_Intron|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.V1089I|ZFAT_uc010mej.2_Missense_Mutation_p.V1039I	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	1101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			GTCCCTTGAACGTCTTCTTCG	0.532													23	101					0	0	0.002096	0	0		T	135524778	T	T	135524778	3	4	4	1	0	0	0	0	1	0	0	0	17657	536	19	1	442	1	ZFAT	8	135524778	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1247978	135524778	10839244	2122	4088											
ZFAT	57623	broad.mit.edu	37	chr8	135614866	135614866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttgatgaggttcttgaCgtcagagtacttcttcttgc	6	16	11	8	1	4	4	1	3	3	1	4	4	4	4	0	1	3	3	0	1	1	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:135614866C>T	uc003yup.2	-	6	1271	c.1096G>A	c.(1096-1098)GTC>ATC	p.V366I	ZFAT_uc003yun.2_Missense_Mutation_p.V354I|ZFAT_uc003yuo.2_Missense_Mutation_p.V354I|ZFAT_uc010meh.2_Missense_Mutation_p.V354I|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.V354I|ZFAT_uc010mej.2_Missense_Mutation_p.V304I|ZFAT_uc003yur.2_Missense_Mutation_p.V354I	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	366	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			AGGTTCTTGACGTCAGAGTAC	0.557													17	70					0	0	0.008871	0	0		T	135614866	T	T	135614866	3	4	4	1	0	0	0	0	1	0	0	0	17657	536	19	1	2679	1	ZFAT	8	135614866	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	90088	135614866	10749156	2123	4089											
COL22A1	169044	broad.mit.edu	37	chr8	139668154	139668154	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttaccttagccaagagatTtatgtcccctggagacagta	11	13	8	9	0	0	2	0	0	0	2	1	4	1	2	4	1	2	1	4	1	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:139668154T>C	uc003yvd.2	-	45	3766	c.3319A>G	c.(3319-3321)AAT>GAT	p.N1107D	COL22A1_uc011ljo.1_Missense_Mutation_p.N387D	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1107	Pro-rich.|Gly-rich.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GCCAAGAGATTTATGTCCCCT	0.378										HNSCC(7;0.00092)			13	241					0	0	0.001855	0	0		C	139668154	C	C	139668154	3	2	4	1	0	0	0	0	1	0	0	0	3684	1841	64	3	1645	3	COL22A1	8	139668154	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	4053288	139668154	6695868	2124	4090											
COL22A1	169044	broad.mit.edu	37	chr8	139696666	139696666	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttcttggacaagcactcAccttggttcctaggggtcca	7	13	10	11	0	2	0	1	0	1	0	4	1	4	1	3	4	1	3	3	4	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:139696666A>G	uc003yvd.2	-	39	3459	c.3012_splice	c.e39+1	p.K1004_splice	COL22A1_uc011ljo.1_Splice_Site_p.K304_splice	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1						cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			ACAAGCACTCACCTTGGTTCC	0.483										HNSCC(7;0.00092)			30	120					0	0	0.003755	0	0		G	139696666	G	G	139696666	5	3	4	1	0	0	0	0	0	0	1	0	3684	173	6	3	1974	3	COL22A1	8	139696666	Splice_Site	SNP	A	TCGA-BR-4184-01A-01D-1126-08	28512	139696666	6667356	2125	4091											
COL22A1	169044	broad.mit.edu	37	chr8	139833507	139833507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgcagggagacgttctgggCctggatgctcagggccatct	6	9	16	10	1	3	1	1	0	2	1	3	3	3	2	2	4	2	3	2	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:139833507C>T	uc003yvd.2	-	7	1564	c.1117G>A	c.(1117-1119)GCC>ACC	p.A373T		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	373	TSP N-terminal.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			ACGTTCTGGGCCTGGATGCTC	0.562										HNSCC(7;0.00092)			16	58					0	0	0.008871	0	0		T	139833507	T	T	139833507	3	4	4	1	0	0	0	0	1	0	0	0	3684	739	26	2	3999	2	COL22A1	8	139833507	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	136841	139833507	6530515	2126	4092											
TRAPPC9	83696	broad.mit.edu	37	chr8	141321405	141321405	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaggccgccagggagggCgatgggctccatggtcccag	6	5	19	11	2	0	1	0	1	0	0	2	3	2	2	4	6	0	1	4	6	0	0	rs148453804	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:141321405C>T	uc003yvj.2	-	10	1698	c.1564G>A	c.(1564-1566)GCC>ACC	p.A522T	TRAPPC9_uc003yvh.2_Missense_Mutation_p.A620T|TRAPPC9_uc003yvi.1_Missense_Mutation_p.A513T	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	522					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						CCAGGGAGGGCGATGGGCTCC	0.552													13	32					0	0	0.003163	0	0		T	141321405	T	T	141321405	3	4	4	1	0	0	0	0	1	0	0	0	16491	768	27	1	1938	1	TRAPPC9	8	141321405	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1487898	141321405	5042617	2127	4093											
EIF2C2	27161	broad.mit.edu	37	chr8	141570572	141570572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagagggttagagcagccttCggacgcggtgaagaaggagc	12	5	17	7	3	0	4	0	1	0	3	1	6	0	6	1	4	3	2	1	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:141570572C>T	uc003yvn.2	-	5	596	c.556G>A	c.(556-558)GAA>AAA	p.E186K	EIF2C2_uc010men.2_Missense_Mutation_p.E109K|EIF2C2_uc010meo.2_Missense_Mutation_p.E186K	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	186					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			GAGCAGCCTTCGGACGCGGTG	0.597													6	37					0	0	0.000978	0	0		T	141570572	T	T	141570572	3	4	4	1	0	0	0	0	1	0	0	0	5012	893	31	1	2083	1	EIF2C2	8	141570572	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	249167	141570572	4793450	2128	4094											
DENND3	22898	broad.mit.edu	37	chr8	142151331	142151331	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtttctacaatggcaaaacGcaccgggagtgtcctggctg	9	10	12	10	2	1	0	0	0	1	0	2	1	2	1	2	3	2	4	2	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:142151331G>A	uc003yvy.2	+	4	569	c.291G>A	c.(289-291)ACG>ACA	p.T97T	DENND3_uc003yvw.1_Silent_p.T110T|DENND3_uc003yvx.2_Missense_Mutation_p.R176H|DENND3_uc010mep.2_Silent_p.T110T	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	97										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			ATGGCAAAACGCACCGGGAGT	0.532													6	67					0	0	0.00308	0	0		A	142151331	A	A	142151331	2	1	4	1	0	0	0	0	0	0	0	1	4438	1074	38	1		1	DENND3	8	142151331	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	580759	142151331	4212691	2129	4095											
PTP4A3	11156	broad.mit.edu	37	chr8	142432393	142432393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgagctacaaacacatgcGcttcctcatcacccacaacc	12	7	6	16	1	2	1	2	1	0	0	3	1	3	1	3	1	5	2	3	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:142432393G>A	uc003ywg.1	+	1	387	c.53G>A	c.(52-54)CGC>CAC	p.R18H	PTP4A3_uc003ywh.1_Missense_Mutation_p.R18H|PTP4A3_uc010met.1_Missense_Mutation_p.R18H	NM_032611	NP_116000	O75365	TP4A3_HUMAN	protein tyrosine phosphatase type IVA, member 3	18						early endosome|plasma membrane	identical protein binding|prenylated protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0	all_cancers(97;2.55e-15)|all_epithelial(106;1.39e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0474)			AAACACATGCGCTTCCTCATC	0.657													14	81					0	0	0.003163	0	0		A	142432393	A	A	142432393	3	1	4	1	0	0	0	0	1	0	0	0	12795	1087	38	1	55	1	PTP4A3	8	142432393	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	281062	142432393	3931629	2130	4096											
TSNARE1	203062	broad.mit.edu	37	chr8	143396392	143396392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccactccatagcactgaatgGcatctgagagctgggttttc	9	11	10	11	0	1	2	0	2	1	1	3	3	2	2	2	2	2	4	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:143396392G>A	uc003ywk.2	-	8	1164	c.1046C>T	c.(1045-1047)GCC>GTC	p.A349V	TSNARE1_uc011lju.1_Missense_Mutation_p.A348V|TSNARE1_uc003ywj.2_Missense_Mutation_p.A349V|TSNARE1_uc003ywl.3_Missense_Mutation_p.A129V	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	349					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GCACTGAATGGCATCTGAGAG	0.637													4	53					0	0	0.001168	0	0		A	143396392	A	A	143396392	3	1	4	1	0	0	0	0	1	0	0	0	16656	1203	42	2	519	2	TSNARE1	8	143396392	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	963999	143396392	2967630	2131	4097											
GLI4	2738	broad.mit.edu	37	chr8	144358659	144358659	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctacaagtgcggcgagtgCggccaggccttcagccagag	8	5	14	14	3	1	1	1	0	0	1	1	2	1	1	4	3	4	0	4	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:144358659C>T	uc003yxx.2	+	4	901	c.816C>T	c.(814-816)TGC>TGT	p.C272C	ZFP41_uc003yxv.2_RNA	NM_138465	NP_612474	P10075	GLI4_HUMAN	GLI-Kruppel family member GLI4	272	C2H2-type 4.					nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			GCGGCGAGTGCGGCCAGGCCT	0.672													4	32					0	0	0.008291	0	0		T	144358659	T	T	144358659	2	4	4	1	0	0	0	0	0	0	0	1	6455	776	27	1		1	GLI4	8	144358659	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	962267	144358659	2005363	2132	4098											
EEF1D	1936	broad.mit.edu	37	chr8	144663239	144663239	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacctgggtctgtggggcCgtggcccggtggccaggcga	3	8	18	12	3	2	0	1	0	1	0	2	1	2	0	4	7	0	0	4	7	0	1	rs138645618		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:144663239C>T	uc011lki.1	-	5	644	c.375G>A	c.(373-375)ACG>ACA	p.T125T	NAPRT1_uc003yym.3_5'Flank|NAPRT1_uc003yyn.3_5'Flank|NAPRT1_uc011lkh.1_5'Flank|NAPRT1_uc003yyo.3_5'Flank|EEF1D_uc003yyp.1_Silent_p.T467T|EEF1D_uc003yyq.1_Silent_p.T541T|EEF1D_uc011lkj.1_Silent_p.T490T|EEF1D_uc003yyr.2_Silent_p.T491T|EEF1D_uc003yyt.2_Silent_p.T491T|EEF1D_uc011lkk.1_Silent_p.T125T|EEF1D_uc003yys.2_Silent_p.T125T|EEF1D_uc003yyv.2_Silent_p.T101T|EEF1D_uc003yyu.2_Silent_p.T125T|EEF1D_uc011lkl.1_Silent_p.T106T	NM_001130057	NP_001123529	P29692	EF1D_HUMAN	eukaryotic translation elongation factor 1 delta	125					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|signal transducer activity|translation elongation factor activity			ovary(1)|kidney(1)|skin(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			TCTGTGGGGCCGTGGCCCGGT	0.697													4	31					0	0	0.000602	0	0		T	144663239	T	T	144663239	2	4	4	1	0	0	0	0	0	0	0	1	4932	639	23	1		1	EEF1D	8	144663239	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	304580	144663239	1700783	2133	4099											
EPPK1	83481	broad.mit.edu	37	chr8	144945091	144945091	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctccagaagctgcaggtaCgtgaggttctcgtgcgtgtt	6	11	14	10	4	1	2	0	1	1	1	3	2	2	2	1	2	4	6	1	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:144945091C>T	uc003zaa.1	-	1	2344	c.2331G>A	c.(2329-2331)ACG>ACA	p.T777T		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	777	Plectin 15.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCTGCAGGTACGTGAGGTTCT	0.622													6	81					0	0	0.001168	0	0		T	144945091	T	T	144945091	2	4	4	1	0	0	0	0	0	0	0	1	5198	523	19	1		1	EPPK1	8	144945091	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	281852	144945091	1418931	2134	4100											
RECQL4	9401	broad.mit.edu	37	chr8	145739054	145739054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagtaaatgataatggaatCgaggttttgaaaacgtttgc	14	12	11	4	2	0	2	0	2	0	0	1	4	0	3	0	2	2	4	0	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:145739054C>T	uc003zdj.2	-	13	2133	c.2101G>A	c.(2101-2103)GAT>AAT	p.D701N		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	701	Helicase C-terminal.				DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			ATAATGGAATCGAGGTTTTGA	0.453			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				4	5					0	0	0.001168	0	0		T	145739054	T	T	145739054	3	4	4	1	0	0	0	0	1	0	0	0	13227	884	31	1	1562	1	RECQL4	8	145739054	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	793963	145739054	624968	2135	4101											
ARHGAP39	80728	broad.mit.edu	37	chr8	145770858	145770858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggccacctccagggccaCgtgcagtgggtcggccttgg	4	7	17	13	2	0	0	0	0	0	0	2	0	1	0	5	6	1	1	5	6	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:145770858C>T	uc003zdt.1	-	7	2851	c.2296G>A	c.(2296-2298)GTG>ATG	p.V766M	ARHGAP39_uc011llk.1_Missense_Mutation_p.V766M|ARHGAP39_uc003zds.1_Missense_Mutation_p.V766M	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	766	MyTH4.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						TCCAGGGCCACGTGCAGTGGG	0.657													5	25					0	0	0.000602	0	0		T	145770858	T	T	145770858	3	4	4	1	0	0	0	0	1	0	0	0	884	536	19	1	1076	1	ARHGAP39	8	145770858	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	31804	145770858	593164	2136	4102											
DOCK8	81704	broad.mit.edu	37	chr9	418150	418150	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attaaccagaatgtggctctGgccatagcagggaataattt	13	11	10	7	0	1	1	0	0	1	1	1	2	1	2	2	3	2	2	2	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:418150G>T	uc003zgf.2	+	30	3895	c.3783G>T	c.(3781-3783)CTG>CTT	p.L1261L	DOCK8_uc010mgu.2_Silent_p.L563L|DOCK8_uc010mgv.2_Silent_p.L1161L|DOCK8_uc003zgk.2_Silent_p.L719L	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	1261					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		ATGTGGCTCTGGCCATAGCAG	0.443													23	88					1.77063e-15	1.92794e-15	0.005443	1	0		T	418150	T	T	418150	2	4	4	1	0	0	0	0	0	0	0	1	4699	1335	47	5		5	DOCK8	9	418150	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08		418150	140795281	2137	4103											
SMARCA2	6595	broad.mit.edu	37	chr9	2058432	2058432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagaagaaggagacagagCggattgaaaaggagagaatg	19	3	16	3	1	0	6	0	1	0	5	0	10	0	8	0	3	2	1	0	3	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:2058432C>T	uc003zhc.2	+	8	1588	c.1489C>T	c.(1489-1491)CGG>TGG	p.R497W	SMARCA2_uc003zhd.2_Missense_Mutation_p.R497W|SMARCA2_uc010mha.2_Missense_Mutation_p.R488W	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	497	HSA.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		GGAGACAGAGCGGATTGAAAA	0.512													34	97					0	0	0.004878	0	0		T	2058432	T	T	2058432	3	4	4	1	0	0	0	0	1	0	0	0	14794	759	27	1	1515	1	SMARCA2	9	2058432	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1640282	2058432	139154999	2138	4104											
SMARCA2	6595	broad.mit.edu	37	chr9	2115922	2115922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggaggaaaagatcctcgCggccgcaaaatacaagctga	14	5	12	10	4	0	2	0	1	0	1	2	4	1	4	2	3	2	2	2	3	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:2115922C>T	uc003zhc.2	+	25	3656	c.3557C>T	c.(3556-3558)GCG>GTG	p.A1186V	SMARCA2_uc003zhd.2_Missense_Mutation_p.A1186V|SMARCA2_uc010mha.2_Missense_Mutation_p.A1119V	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1186	Helicase C-terminal.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		AAGATCCTCGCGGCCGCAAAA	0.582													12	34					0	0	0.001855	0	0		T	2115922	T	T	2115922	3	4	4	1	0	0	0	0	1	0	0	0	14794	768	27	1	3651	1	SMARCA2	9	2115922	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	57490	2115922	139097509	2139	4105											
KCNV2	169522	broad.mit.edu	37	chr9	2719001	2719001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgctcttcatcgccatggGcatcttcactttctctgcgg	4	14	9	14	2	5	0	2	0	3	0	7	0	5	0	1	2	2	3	1	2	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:2719001G>A	uc003zho.1	+	1	1476	c.1262G>A	c.(1261-1263)GGC>GAC	p.G421D		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	421	Helical; Name=Segment S5; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		ATCGCCATGGGCATCTTCACT	0.632													5	16					0	0	0.00308	0	0		A	2719001	A	A	2719001	3	1	4	1	0	0	0	0	1	0	0	0	8111	1203	42	2	1264	2	KCNV2	9	2719001	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	603079	2719001	138494430	2140	4106											
KIAA0020	9933	broad.mit.edu	37	chr9	2811408	2811408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgttgctgccaagctggCgatggcattcatggtaggct	6	12	13	10	1	1	0	1	0	0	0	2	1	2	0	2	4	3	6	2	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:2811408C>T	uc003zhp.1	-	15	1684	c.1588G>A	c.(1588-1590)GCC>ACC	p.A530T	KIAA0020_uc010mhc.1_Missense_Mutation_p.A529T|KIAA0020_uc003zhq.1_Missense_Mutation_p.A529T	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	530						endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		GCCAAGCTGGCGATGGCATTC	0.527													30	86					0	0	0.007835	0	0		T	2811408	T	T	2811408	3	4	4	1	0	0	0	0	1	0	0	0	8168	768	27	1	374	1	KIAA0020	9	2811408	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	92407	2811408	138402023	2141	4107											
KIAA0020	9933	broad.mit.edu	37	chr9	2824797	2824797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtagaccaccgcttcgcGgatggcttcaatcatttcct	8	11	9	13	3	2	1	2	0	0	1	4	2	3	2	3	3	0	3	3	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:2824797G>A	uc003zhp.1	-	11	1150	c.1054C>T	c.(1054-1056)CGC>TGC	p.R352C	KIAA0020_uc010mhc.1_Missense_Mutation_p.R351C|KIAA0020_uc003zhq.1_Missense_Mutation_p.R351C	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	352	Pumilio 4.|PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		ACCGCTTCGCGGATGGCTTCA	0.527													3	7					0	0	0.004672	0	0		A	2824797	A	A	2824797	3	1	4	1	0	0	0	0	1	0	0	0	8168	1116	39	1	924	1	KIAA0020	9	2824797	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	13389	2824797	138388634	2142	4108											
KIAA0020	9933	broad.mit.edu	37	chr9	2829854	2829854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatggctttgtcattgtatgCgtactccacgatggctgatg	8	14	11	8	2	1	1	1	1	0	0	2	2	2	1	1	2	2	4	1	2	3	4	rs62534389		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:2829854C>T	uc003zhp.1	-	8	868	c.772G>A	c.(772-774)GCA>ACA	p.A258T	KIAA0020_uc010mhc.1_Missense_Mutation_p.A257T|KIAA0020_uc003zhq.1_Missense_Mutation_p.A257T	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	258	Pumilio 3.|PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		TCATTGTATGCGTACTCCACG	0.458													57	115					0	0	0.00361	0	0		T	2829854	T	T	2829854	3	4	4	1	0	0	0	0	1	0	0	0	8168	768	27	1	1218	1	KIAA0020	9	2829854	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5057	2829854	138383577	2143	4109											
C9orf68	55064	broad.mit.edu	37	chr9	4625438	4625438	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtagaatattgagagggCgcccgggcttgcatgccttt	7	11	14	9	2	0	2	0	1	0	2	0	3	0	2	2	3	2	3	2	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:4625438C>T	uc011llz.1	-	5	622	c.384G>A	c.(382-384)GCG>GCA	p.A128A	C9orf68_uc003zik.2_RNA|C9orf68_uc003zil.2_RNA|C9orf68_uc010mhj.2_Silent_p.A186A|C9orf68_uc011lly.1_Silent_p.A63A	NM_001039395	NP_001034484	B4DIY4	B4DIY4_HUMAN	hypothetical protein LOC55064	128											0		Breast(48;0.0456)		GBM - Glioblastoma multiforme(50;0.0222)		ATTGAGAGGGCGCCCGGGCTT	0.423													18	34					0	0	0.007413	0	0		T	4625438	T	T	4625438	2	4	4	1	0	0	0	0	0	0	0	1	2494	755	27	1		1	C9orf68	9	4625438	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1795584	4625438	136587993	2144	4110											
AK3	50808	broad.mit.edu	37	chr9	4718478	4718478	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttagtctcttgataacCgtctctggtttatcatcctc	6	17	6	12	1	3	1	1	1	2	0	7	1	4	1	3	1	1	1	3	1	3	6	rs141049546		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:4718478C>T	uc003ziq.1	-	4	644	c.504G>A	c.(502-504)ACG>ACA	p.T168T	AK3_uc003zip.1_RNA|AK3_uc011lma.1_Silent_p.T128T|AK3_uc003zir.1_Silent_p.T98T	NM_016282	NP_057366	Q9UIJ7	KAD3_HUMAN	adenylate kinase 3	168					blood coagulation	mitochondrial matrix	ATP binding|GTP binding|nucleoside triphosphate adenylate kinase activity			ovary(2)	2	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0302)		TCTTGATAACCGTCTCTGGTT	0.423													20	62					0	0	0.008871	0	0		T	4718478	T	T	4718478	2	4	4	1	0	0	0	0	0	0	0	1	441	639	23	1		1	AK3	9	4718478	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	93040	4718478	136494953	2145	4111											
RCL1	10171	broad.mit.edu	37	chr9	4844593	4844593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcctcagtgctgaactggCctccaacccccagggccagg	7	7	10	17	0	1	1	1	1	0	0	3	1	3	1	6	3	3	1	6	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:4844593C>T	uc003zis.2	+	7	1037	c.779C>T	c.(778-780)GCC>GTC	p.A260V	RCL1_uc003zit.2_Missense_Mutation_p.A102V|RCL1_uc010mhk.1_Missense_Mutation_p.A102V|RCL1_uc010mhl.1_Missense_Mutation_p.A74V	NM_005772	NP_005763	Q9Y2P8	RCL1_HUMAN	RNA terminal phosphate cyclase-like 1	260					ribosome biogenesis|RNA processing	nucleolus	RNA-3'-phosphate cyclase activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0206)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0244)		GCTGAACTGGCCTCCAACCCC	0.582													15	49					0	0	0.00499	0	0		T	4844593	T	T	4844593	3	4	4	1	0	0	0	0	1	0	0	0	13203	739	26	2	805	2	RCL1	9	4844593	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	126115	4844593	136368838	2146	4112											
KIAA2026	158358	broad.mit.edu	37	chr9	5922824	5922824	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catttgtaaaggaccttttgTattggtgtggcaggtcaatg	9	15	12	5	0	1	0	1	0	0	0	1	1	1	1	1	4	0	3	1	4	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:5922824T>C	uc003zjq.3	-	8	3388	c.3172A>G	c.(3172-3174)ACA>GCA	p.T1058A	KIAA2026_uc010mht.2_Missense_Mutation_p.T233A	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	1058										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		GGACCTTTTGTATTGGTGTGG	0.458													4	64					0	0	0.000602	0	0		C	5922824	C	C	5922824	3	2	4	1	0	0	0	0	1	0	0	0	8286	1638	57	3	3143	3	KIAA2026	9	5922824	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1078231	5922824	135290607	2147	4113											
UHRF2	115426	broad.mit.edu	37	chr9	6504628	6504628	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggaacaatcttttatgtgCgtttgctgtcaggagctagt	8	16	11	6	1	2	0	1	0	1	0	2	2	2	2	0	2	4	3	0	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:6504628C>T	uc003zjy.2	+	15	2539	c.2199C>T	c.(2197-2199)TGC>TGT	p.C733C	UHRF2_uc003zjz.2_RNA|UHRF2_uc003zkb.2_RNA	NM_152896	NP_690856	Q96PU4	UHRF2_HUMAN	ubiquitin-like with PHD and ring finger domains	733	RING-type.				cell cycle|cell differentiation|cell proliferation|protein autoubiquitination|regulation of cell cycle|ubiquitin-dependent protein catabolic process	nucleus	DNA binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0392)|Lung(218;0.129)		CTTTTATGTGCGTTTGCTGTC	0.358													7	20					0	0	0.001984	0	0		T	6504628	T	T	6504628	2	4	4	1	0	0	0	0	0	0	0	1	16996	776	27	1		1	UHRF2	9	6504628	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	581804	6504628	134708803	2148	4114											
NFIB	4781	broad.mit.edu	37	chr9	14150263	14150263	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttccctgggttatgggCgctgaggaataagacaaaga	12	8	13	8	1	0	3	0	1	0	2	1	4	1	4	2	3	0	3	2	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:14150263C>T	uc003zle.2	-	5	1122	c.687G>A	c.(685-687)ACG>ACA	p.T229T	NFIB_uc003zld.2_5'UTR|NFIB_uc003zlf.2_Silent_p.T229T|NFIB_uc011lmo.1_Silent_p.T229T	NM_005596	NP_005587	O00712	NFIB_HUMAN	nuclear factor I/B	229					anterior commissure morphogenesis|chondrocyte differentiation|Clara cell differentiation|commissural neuron axon guidance|DNA replication|glial cell differentiation|lung ciliated cell differentiation|negative regulation of DNA binding|negative regulation of epithelial cell proliferation involved in lung morphogenesis|negative regulation of mesenchymal cell proliferation involved in lung development|positive regulation of transcription from RNA polymerase II promoter|principal sensory nucleus of trigeminal nerve development|Type I pneumocyte differentiation|Type II pneumocyte differentiation	cerebellar mossy fiber|nucleolus|nucleus	RNA polymerase II transcription corepressor activity|sequence-specific DNA binding RNA polymerase II transcription factor activity				0				GBM - Glioblastoma multiforme(50;4.4e-08)|LUAD - Lung adenocarcinoma(58;0.119)|Lung(218;0.164)		GGGTTATGGGCGCTGAGGAAT	0.438			T	MYB|HGMA2	adenoid cystic carcinoma|lipoma								17	244					0	0	0.00499	0	0		T	14150263	T	T	14150263	2	4	4	1	0	0	0	0	0	0	0	1	10390	782	27	1		1	NFIB	9	14150263	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7645635	14150263	127063168	2149	4115											
FREM1	158326	broad.mit.edu	37	chr9	14775838	14775838	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctcccattcacaataaaGccttggtttgtcccatctgt	9	14	5	13	0	3	0	1	0	2	0	5	0	4	0	3	1	1	1	3	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:14775838G>A	uc003zlm.2	-	25	5396	c.4806C>T	c.(4804-4806)GGC>GGT	p.G1602G	FREM1_uc010mic.2_Intron|FREM1_uc003zlk.2_5'Flank|FREM1_uc003zll.2_Silent_p.G138G	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1602	CSPG 11.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		TCACAATAAAGCCTTGGTTTG	0.468													4	39					0	0	0.000602	0	0		A	14775838	A	A	14775838	2	1	4	1	0	0	0	0	0	0	0	1	6058	958	34	2		2	FREM1	9	14775838	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	625575	14775838	126437593	2150	4116											
PSIP1	11168	broad.mit.edu	37	chr9	15472661	15472661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttgttcctcttgcttgcGttttcgatctgctgcttctt	2	21	7	11	2	3	0	0	0	3	0	5	1	4	0	1	0	4	5	1	0	0	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:15472661G>A	uc003zlv.3	-	10	1276	c.946C>T	c.(946-948)CGC>TGC	p.R316C	PSIP1_uc003zlw.3_Missense_Mutation_p.R316C|PSIP1_uc003zlz.3_Missense_Mutation_p.R316C|PSIP1_uc003zma.3_Missense_Mutation_p.R307C|PSIP1_uc003zly.2_Missense_Mutation_p.R316C	NM_033222	NP_150091	O75475	PSIP1_HUMAN	PC4 and SFRS1 interacting protein 1 isoform 2	316	Potential.				initiation of viral infection|interspecies interaction between organisms|nuclear mRNA 5'-splice site recognition|provirus integration|regulation of transcription, DNA-dependent|response to heat|response to oxidative stress|transcription, DNA-dependent	cytosol|nuclear heterochromatin|nuclear periphery|nucleoplasm|nucleoplasm|transcriptionally active chromatin	activating transcription factor binding|chromatin binding|DNA secondary structure binding|RNA polymerase II transcription coactivator activity			breast(1)	1				GBM - Glioblastoma multiforme(50;2.38e-06)		TCTTGCTTGCGTTTTCGATCT	0.358													28	65					0	0	0.00632	0	0		A	15472661	A	A	15472661	3	1	4	1	0	0	0	0	1	0	0	0	12685	1145	40	1	703	1	PSIP1	9	15472661	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	696823	15472661	125740770	2151	4117											
C9orf93	203238	broad.mit.edu	37	chr9	15777674	15777674	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaaactcatggataaaatTagtctggtaatggaatgtat	16	12	9	4	0	2	0	1	0	1	0	2	2	2	2	0	3	1	3	0	3	8	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:15777674T>C	uc003zmd.2	+	19	3063	c.2748T>C	c.(2746-2748)ATT>ATC	p.I916I	C9orf93_uc003zme.2_Silent_p.I831I|C9orf93_uc011lmu.1_Silent_p.I924I|C9orf93_uc003zmf.1_Silent_p.I224I	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	916											0				GBM - Glioblastoma multiforme(50;4.84e-07)		TGGATAAAATTAGTCTGGTAA	0.378													22	53					0	0	0.002299	0	0		C	15777674	C	C	15777674	2	2	4	1	0	0	0	0	0	0	0	1	2509	1742	61	3		3	C9orf93	9	15777674	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	305013	15777674	125435757	2152	4118											
C9orf93	203238	broad.mit.edu	37	chr9	15874641	15874641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggaggggctcaagggcgggCcagaggtggtagcatgccag	8	5	20	8	1	1	1	1	0	0	1	1	2	1	2	2	7	2	3	2	7	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:15874641C>T	uc003zmd.2	+	24	3895	c.3580C>T	c.(3580-3582)CCA>TCA	p.P1194S	C9orf93_uc003zme.2_Missense_Mutation_p.P1109S|C9orf93_uc011lmu.1_Missense_Mutation_p.P1202S|C9orf93_uc003zmf.1_Missense_Mutation_p.P502S	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	1194											0				GBM - Glioblastoma multiforme(50;4.84e-07)		CAAGGGCGGGCCAGAGGTGGT	0.478													13	32					0	0	0.001855	0	0		T	15874641	T	T	15874641	3	4	4	1	0	0	0	0	1	0	0	0	2509	739	26	2	3670	2	C9orf93	9	15874641	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	96967	15874641	125338790	2153	4119											
BNC2	54796	broad.mit.edu	37	chr9	16552745	16552745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtggtacaggtgctgcGtgctgagcttatccaaggct	6	11	16	8	1	0	1	0	1	0	0	1	1	1	1	1	5	5	5	1	5	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:16552745G>A	uc003zml.2	-	5	592	c.452C>T	c.(451-453)ACG>ATG	p.T151M	BNC2_uc011lmw.1_Missense_Mutation_p.T56M|BNC2_uc003zmm.2_Missense_Mutation_p.T109M|BNC2_uc003zmq.1_Missense_Mutation_p.T165M|BNC2_uc003zmr.1_Missense_Mutation_p.T188M|BNC2_uc003zmp.1_Missense_Mutation_p.T179M|BNC2_uc010mij.1_Missense_Mutation_p.T73M|BNC2_uc011lmv.1_Translation_Start_Site|BNC2_uc003zmo.1_Missense_Mutation_p.T73M	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		CAGGTGCTGCGTGCTGAGCTT	0.517													15	38					0	0	0.007413	0	0		A	16552745	A	A	16552745	3	1	4	1	0	0	0	0	1	0	0	0	1476	1145	40	1	2859	1	BNC2	9	16552745	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	678104	16552745	124660686	2154	4120											
BNC2	54796	broad.mit.edu	37	chr9	16738415	16738415	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaaatatgctggccagtcTtgctcactaagcctgtcctc	8	13	8	12	0	2	1	1	1	1	0	4	1	3	1	3	1	3	2	3	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:16738415T>G	uc003zml.2	-	2	212	c.72A>C	c.(70-72)CAA>CAC	p.Q24H	BNC2_uc011lmw.1_Intron|BNC2_uc003zmm.2_Intron|BNC2_uc003zmq.1_Missense_Mutation_p.Q38H|BNC2_uc003zmr.1_Missense_Mutation_p.Q24H|BNC2_uc003zmp.1_Missense_Mutation_p.Q24H|BNC2_uc010mij.1_Intron|BNC2_uc003zmu.1_RNA|BNC2_uc010mim.1_Intron|BNC2_uc010min.1_Intron	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	24					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		CTGGCCAGTCTTGCTCACTAA	0.433													11	23					0	0	0.000978	0	0		G	16738415	G	G	16738415	3	3	4	1	0	0	0	0	1	0	0	0	1476	1606	56	5	3251	5	BNC2	9	16738415	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	185670	16738415	124475016	2155	4121											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18681926	18681926	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccacataaaagaggaatgCatcgtacccactccctgcta	13	7	6	15	1	0	1	0	0	0	1	2	2	1	2	4	1	3	3	4	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:18681926C>T	uc003zne.3	+	12	1585	c.1458C>T	c.(1456-1458)TGC>TGT	p.C486C	ADAMTSL1_uc003znc.3_Silent_p.C486C	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	486	TSP type-1 3.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		AAGAGGAATGCATCGTACCCA	0.488													66	224					0	0	0.00361	0	0		T	18681926	T	T	18681926	2	4	4	1	0	0	0	0	0	0	0	1	274	718	25	2		2	ADAMTSL1	9	18681926	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1943511	18681926	122531505	2156	4122											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18706803	18706803	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtgtggggacccaggtgCgaatagtcaggtgccaggtg	7	8	19	7	1	1	0	1	0	0	0	1	2	1	1	2	6	2	0	2	6	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:18706803C>T	uc003zne.3	+	14	1760	c.1633C>T	c.(1633-1635)CGA>TGA	p.R545*		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	545	TSP type-1 4.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		GACCCAGGTGCGAATAGTCAG	0.607													5	10					0	0	0.000602	0	0		T	18706803	T	T	18706803	4	4	4	1	0	0	0	0	0	1	0	0	274	760	27	1	1691	1	ADAMTSL1	9	18706803	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24877	18706803	122506628	2157	4123											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18770654	18770654	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaggttctttgcaagcagCgcatggctgatggcagcttc	7	11	14	9	1	1	2	0	2	1	0	2	2	1	2	0	3	4	7	0	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:18770654C>T	uc003zne.3	+	17	2399	c.2272C>T	c.(2272-2274)CGC>TGC	p.R758C		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	758						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		TTGCAAGCAGCGCATGGCTGA	0.512													6	20					0	0	0.001984	0	0		T	18770654	T	T	18770654	3	4	4	1	0	0	0	0	1	0	0	0	274	768	27	1	2342	1	ADAMTSL1	9	18770654	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	63851	18770654	122442777	2158	4124											
HAUS6	54801	broad.mit.edu	37	chr9	19058813	19058813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttctcttcagtcaaatgaGactggccaaaatctgataca	13	12	6	10	0	4	2	2	2	2	1	5	3	4	2	1	1	1	0	1	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:19058813G>A	uc003znk.2	-	16	2205	c.1952C>T	c.(1951-1953)TCT>TTT	p.S651F	HAUS6_uc011lmz.1_Missense_Mutation_p.S371F|HAUS6_uc003znl.1_Missense_Mutation_p.S515F	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	651					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						AGTCAAATGAGACTGGCCAAA	0.398													6	86					0	0	0.001984	0	0		A	19058813	A	A	19058813	3	1	4	1	0	0	0	0	1	0	0	0	6986	942	33	4	923	4	HAUS6	9	19058813	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	288159	19058813	122154618	2159	4125											
DENND4C	55667	broad.mit.edu	37	chr9	19346603	19346603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttttctccagttattgcacGtaatctggctgatgaaatag	10	15	9	7	1	2	2	0	2	2	0	3	2	2	2	1	1	1	5	1	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:19346603G>A	uc003znq.2	+	18	3014	c.2981G>A	c.(2980-2982)CGT>CAT	p.R994H	DENND4C_uc011lnc.1_Missense_Mutation_p.R324H|DENND4C_uc011lnd.1_Missense_Mutation_p.R282H|DENND4C_uc003znr.2_Missense_Mutation_p.R282H|DENND4C_uc003zns.2_Missense_Mutation_p.R176H|DENND4C_uc003znt.2_Missense_Mutation_p.R176H	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	994						integral to membrane				ovary(1)|skin(1)	2						GTTATTGCACGTAATCTGGCT	0.378													27	61					0	0	0.005443	0	0		A	19346603	A	A	19346603	3	1	4	1	0	0	0	0	1	0	0	0	4441	1145	40	1	3051	1	DENND4C	9	19346603	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	287790	19346603	121866828	2160	4126											
RPS6	6194	broad.mit.edu	37	chr9	19379526	19379526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcagcagcaacttctgtggCcatacgcttctcatagaaag	11	10	9	11	1	3	1	2	0	2	1	4	1	3	1	1	1	4	3	1	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:19379526C>T	uc003znv.1	-	2	139	c.97G>A	c.(97-99)GCC>ACC	p.A33T	RPS6_uc003znu.1_Missense_Mutation_p.A2T|RPS6_uc003znw.1_Missense_Mutation_p.A2T	NM_001010	NP_001001	P62753	RS6_HUMAN	ribosomal protein S6	33					endocrine pancreas development|glucose homeostasis|insulin receptor signaling pathway|positive regulation of apoptosis|rRNA processing|TOR signaling cascade|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding			ovary(1)	1		Colorectal(97;3.46e-05)|Myeloproliferative disorder(762;0.0255)		Lung(42;0.161)|LUSC - Lung squamous cell carcinoma(42;0.234)		ACTTCTGTGGCCATACGCTTC	0.453													5	30					0	0	0.000602	0	0		T	19379526	T	T	19379526	3	4	4	1	0	0	0	0	1	0	0	0	13674	739	26	2	672	2	RPS6	9	19379526	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	32923	19379526	121833905	2161	4127											
MLLT3	4300	broad.mit.edu	37	chr9	20448143	20448143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcctgccttcagcaactttCtcctaaagtcctctgtgggg	6	13	8	14	0	3	0	1	0	2	0	6	0	5	0	4	2	3	1	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:20448143C>T	uc003zoe.2	-	4	657	c.398G>A	c.(397-399)AGA>AAA	p.R133K	MLLT3_uc011lne.1_Missense_Mutation_p.R101K|MLLT3_uc011lnf.1_Missense_Mutation_p.R130K|MLLT3_uc003zof.2_Intron|MLLT3_uc011lng.1_Missense_Mutation_p.R101K	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	133					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		CAGCAACTTTCTCCTAAAGTC	0.403			T	MLL	ALL								6	129					0	0	0.00308	0	0		T	20448143	T	T	20448143	3	4	4	1	0	0	0	0	1	0	0	0	9646	913	32	4	1340	4	MLLT3	9	20448143	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1068617	20448143	120765288	2162	4128											
IFNB1	3456	broad.mit.edu	37	chr9	21077640	21077640	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catctcatagatggtcaatgCggcgtcctccttctggaact	8	12	9	12	2	3	1	2	0	2	1	6	2	5	2	2	3	2	0	2	3	3	2	rs146710785	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:21077640C>T	uc003zok.2	-	1	304	c.229G>A	c.(229-231)GCA>ACA	p.A77T		NM_002176	NP_002167	P01574	IFNB_HUMAN	interferon, beta 1, fibroblast precursor	77					activation of caspase activity|B cell proliferation|blood coagulation|cellular response to exogenous dsRNA|defense response to virus|induction of apoptosis|natural killer cell activation|negative regulation of cell proliferation|negative regulation of T cell differentiation|negative regulation of T-helper 2 cell cytokine production|negative regulation of viral genome replication|negative regulation of viral transcription|negative regulation of virion penetration into host cell|positive regulation of innate immune response|positive regulation of transcription from RNA polymerase II promoter|regulation of MHC class I biosynthetic process|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding|transcription corepressor activity			ovary(1)|breast(1)|kidney(1)	3				GBM - Glioblastoma multiforme(5;7.45e-142)|Lung(24;2.42e-17)|LUSC - Lung squamous cell carcinoma(38;7.17e-11)	Interferon beta-1a(DB00060)|Interferon beta-1b(DB00068)	ATGGTCAATGCGGCGTCCTCC	0.473													8	117					0	0	0.004482	0	0		T	21077640	T	T	21077640	3	4	4	1	0	0	0	0	1	0	0	0	7562	768	27	1	338	1	IFNB1	9	21077640	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	629497	21077640	120135791	2163	4129											
IFNA16	3449	broad.mit.edu	37	chr9	21217077	21217077	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctcatggaaggcagagatGgcttgagccttctggaactg	10	10	13	8	0	2	2	1	1	2	1	3	5	2	4	1	4	2	2	1	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:21217077G>T	uc003zor.1	-	1	234	c.228C>A	c.(226-228)GCC>GCA	p.A76A	IFNA14_uc003zoo.1_Intron	NM_002173	NP_002164	P05015	IFN16_HUMAN	interferon, alpha 16 precursor	76					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			skin(1)	1				Lung(24;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		AGGCAGAGATGGCTTGAGCCT	0.473													40	98					6.5261e-18	7.13566e-18	0.00874	1	0		T	21217077	T	T	21217077	2	4	4	1	0	0	0	0	0	0	0	1	7551	1335	47	5		5	IFNA16	9	21217077	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	139437	21217077	119996354	2164	4130											
KLHL9	55958	broad.mit.edu	37	chr9	21333437	21333437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagtcattggagccttttgCatccatttatctgtatctgg	7	17	9	8	0	3	0	1	0	2	0	4	1	4	1	2	2	2	3	2	2	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:21333437C>T	uc003zoy.2	-	1	1993	c.1422G>A	c.(1420-1422)ATG>ATA	p.M474I	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	474	Kelch 4.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		GAGCCTTTTGCATCCATTTAT	0.413													9	200					0	0	0.008291	0	0		T	21333437	T	T	21333437	3	4	4	1	0	0	0	0	1	0	0	0	8412	710	25	2	435	2	KLHL9	9	21333437	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	116360	21333437	119879994	2165	4131											
LRRC19	64922	broad.mit.edu	37	chr9	26997741	26997741	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctaatgtcacatttgAtgtgttcaaccagttctgca	10	15	6	10	0	3	1	2	1	1	0	3	1	3	1	2	0	3	3	2	0	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:26997741A>T	uc003zqh.2	-	3	691	c.580T>A	c.(580-582)TCA>ACA	p.S194T	IFT74_uc010mja.2_Intron|IFT74_uc010mjb.2_Intron|IFT74_uc003zqf.3_Intron|IFT74_uc003zqg.3_Intron	NM_022901	NP_075052	Q9H756	LRC19_HUMAN	leucine rich repeat containing 19 precursor	194	Extracellular (Potential).|LRRCT.					integral to membrane					0		all_neural(11;1.81e-09)		Lung(218;1.06e-05)|LUSC - Lung squamous cell carcinoma(38;0.0001)		GTCACATTTGATGTGTTCAAC	0.333													4	52					0	0	0.009096	0	0		T	26997741	T	T	26997741	3	4	4	1	0	0	0	0	1	0	0	0	8993	333	12	5	544	5	LRRC19	9	26997741	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	5664304	26997741	114215690	2166	4132											
TOPORS	10210	broad.mit.edu	37	chr9	32544122	32544122	+	Frame_Shift_Del	DEL	T	-	-																															atagtgggcattcagctttgTtttttgaccactcctgtaca																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:32544122delT	uc003zrb.2	-	3	568	c.401delA	c.(400-402)AACfs	p.N134fs	TOPORS_uc003zrc.2_Frame_Shift_Del_p.N67fs	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	134	E3 ubiquitin-protein ligase activity.|Required for DNA-binding.|RING-type.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		TTCAGCTTTGTTTTTTGACCA	0.398													60	81	---	---	---	---						.	-	32544122	-	-	32544122	7	5	4	1	0	1	0	1	0	0	0	0	16396	1725	60	0	2740	0	TOPORS	9	32544122	Frame_Shift_Del	DEL	T	TCGA-BR-4184-01A-01D-1126-08	5546381	32544122	108669309	2167	4133											
UBAP1	51271	broad.mit.edu	37	chr9	34241362	34241362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacagtacagccacaatGccacctcctattaaccccat	13	8	3	17	0	1	0	1	0	0	0	2	0	2	0	6	0	4	1	6	0	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:34241362G>A	uc003ztx.2	+	4	574	c.339G>A	c.(337-339)ATG>ATA	p.M113I	UBAP1_uc010mka.1_Missense_Mutation_p.M149I|UBAP1_uc003zty.2_Missense_Mutation_p.M113I|UBAP1_uc011loi.1_Missense_Mutation_p.M149I|UBAP1_uc011loj.1_Missense_Mutation_p.M177I|KIF24_uc010mkb.2_Intron|UBAP1_uc003ztz.2_Missense_Mutation_p.M113I	NM_016525	NP_057609	Q9NZ09	UBAP1_HUMAN	ubiquitin associated protein 1	113						cytoplasm					0			LUSC - Lung squamous cell carcinoma(29;0.00272)			CAGCCACAATGCCACCTCCTA	0.507													18	62					0	0	0.002299	0	0		A	34241362	A	A	34241362	3	1	4	1	0	0	0	0	1	0	0	0	16862	1319	46	2	586	2	UBAP1	9	34241362	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1697240	34241362	106972069	2168	4134											
DNAI1	27019	broad.mit.edu	37	chr9	34514714	34514714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catactcttctactgtgttcGcagcagtcaccacagatggg	9	11	9	12	1	3	1	1	0	2	1	4	1	3	1	1	1	3	3	1	1	2	4	rs145483542		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:34514714G>A	uc003zum.2	+	18	1988	c.1795G>A	c.(1795-1797)GCA>ACA	p.A599T		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	599	WD 4.				cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)		TACTGTGTTCGCAGCAGTCAC	0.562									Kartagener_syndrome				5	57					0	0	0.001168	0	0		A	34514714	A	A	34514714	3	1	4	1	0	0	0	0	1	0	0	0	4615	1087	38	1	1865	1	DNAI1	9	34514714	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	273352	34514714	106698717	2169	4135											
C9orf131	138724	broad.mit.edu	37	chr9	35045333	35045333	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccaggtcccatcccaagggCcatgtgtacacatggaggct	9	7	12	13	0	0	0	0	0	0	0	2	1	2	1	4	4	1	2	4	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:35045333C>A	uc003zvw.2	+	2	2736	c.2707C>A	c.(2707-2709)CCA>ACA	p.P903T	C9orf131_uc003zvu.2_Missense_Mutation_p.P855T|C9orf131_uc003zvv.2_Missense_Mutation_p.P830T|C9orf131_uc003zvx.2_Missense_Mutation_p.P868T	NM_203299	NP_976044	Q5VYM1	CI131_HUMAN	hypothetical protein LOC138724 isoform A	903											0	all_epithelial(49;0.22)		LUSC - Lung squamous cell carcinoma(32;0.00117)|Lung(28;0.00309)			ATCCCAAGGGCCATGTGTACA	0.557													14	161					0.000422831	0.000441874	0.004007	1	0		A	35045333	A	A	35045333	3	1	4	1	0	0	0	0	1	0	0	0	2460	739	26	5	2729	5	C9orf131	9	35045333	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	530619	35045333	106168098	2170	4136											
KIAA1539	80256	broad.mit.edu	37	chr9	35107927	35107927	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacggtgggagaaatgctgGctggccacacctagtcccag	9	6	13	13	1	0	1	0	0	0	1	1	2	1	1	4	4	1	2	4	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:35107927G>A	uc003zwl.2	-	3	670	c.345C>T	c.(343-345)AGC>AGT	p.S115S	KIAA1539_uc003zwm.2_Silent_p.S115S|KIAA1539_uc003zwn.2_Intron|KIAA1539_uc003zwo.2_Silent_p.S115S|KIAA1539_uc003zwp.1_Silent_p.S115S|KIAA1539_uc010mkk.1_Intron	NM_025182	NP_079458	Q7L5A3	K1539_HUMAN	hypothetical protein LOC80256	115						nucleus				ovary(2)	2	all_epithelial(49;0.217)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			AGAAATGCTGGCTGGCCACAC	0.632													4	26					0	0	0.001168	0	0		A	35107927	A	A	35107927	2	1	4	1	0	0	0	0	0	0	0	1	8258	1194	42	2		2	KIAA1539	9	35107927	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	62594	35107927	106105504	2171	4137											
CREB3	10488	broad.mit.edu	37	chr9	35736398	35736398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctcctcagtgttgtcccGccagcttcgtgccctcccca	3	12	8	18	2	2	0	1	0	1	0	6	0	4	0	6	0	2	2	6	0	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:35736398G>A	uc003zxv.2	+	9	1244	c.791G>A	c.(790-792)CGC>CAC	p.R264H	CREB3_uc010mla.2_Missense_Mutation_p.R183H	NM_006368	NP_006359	O43889	CREB3_HUMAN	cAMP responsive element binding protein 3	288	Lumenal (Potential).				chemotaxis|induction of positive chemotaxis|interspecies interaction between organisms|negative regulation of cell cycle|positive regulation of calcium ion transport|positive regulation of cell migration|positive regulation of transcription, DNA-dependent|reactivation of latent virus|regulation of cell proliferation	cytosol|endoplasmic reticulum|endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|integral to membrane|nucleus|nucleus	cAMP response element binding protein binding|CCR1 chemokine receptor binding|DNA binding|protein dimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity				0	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)	GBM - Glioblastoma multiforme(74;0.0285)		GTGTTGTCCCGCCAGCTTCGT	0.582											OREG0019176	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	48					0	0	0.00308	0	0		A	35736398	A	A	35736398	3	1	4	1	0	0	0	0	1	0	0	0	3858	1087	38	1	825	1	CREB3	9	35736398	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	628471	35736398	105477033	2172	4138											
GLIPR2	152007	broad.mit.edu	37	chr9	36162402	36162402	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaacaccaagaagatgggCgtggggaaggcgtccgcaag	14	3	16	8	3	0	3	0	0	0	3	1	4	1	4	2	4	1	1	2	4	6	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:36162402C>T	uc003zyz.2	+	5	382	c.348C>T	c.(346-348)GGC>GGT	p.G116G	GLIPR2_uc010mlf.1_3'UTR|GLIPR2_uc003zza.2_RNA|GLIPR2_uc003zyy.1_Intron	NM_022343	NP_071738	Q9H4G4	GAPR1_HUMAN	GLI pathogenesis-related 2	116				TGHFTAMVWKNTKKMGVGKASASDGSSFVVARYFPAGNVVN EGFFEENVLPPKK -> IRFFFFNFLLFLSKPLLYFSYF (in Ref. 3; BAC11019).		extracellular region|Golgi membrane				skin(3)|central_nervous_system(1)	4						AGAAGATGGGCGTGGGGAAGG	0.562													5	81					0	0	0.000602	0	0		T	36162402	T	T	36162402	2	4	4	1	0	0	0	0	0	0	0	1	6459	755	27	1		1	GLIPR2	9	36162402	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	426004	36162402	105051029	2173	4139											
MCART1	92014	broad.mit.edu	37	chr9	37888210	37888210	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaaactctggagcactgAcatgcttgtggagaaggcag	11	9	13	8	0	1	2	0	1	1	1	1	4	1	3	0	3	4	4	0	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:37888210A>G	uc004aau.2	-	3	1082	c.338T>C	c.(337-339)GTC>GCC	p.V113A	MCART1_uc004aar.1_Intron|MCART1_uc004aaq.1_Intron|uc004aat.1_5'Flank|MCART1_uc004aav.2_Missense_Mutation_p.V113A	NM_033412	NP_219480	Q9H1U9	MCAR1_HUMAN	mitochondrial carrier triple repeat 1	113					transport	integral to membrane|mitochondrial inner membrane				ovary(2)|breast(1)	3				GBM - Glioblastoma multiforme(29;0.00559)|Lung(182;0.0422)		TGGAGCACTGACATGCTTGTG	0.478													38	85					0	0	0.003214	0	0		G	37888210	G	G	37888210	3	3	4	1	0	0	0	0	1	0	0	0	9387	275	10	3	559	3	MCART1	9	37888210	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1725808	37888210	103325221	2174	4140											
FAM122A	116224	broad.mit.edu	37	chr9	71395646	71395646	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccacccggagaagccagaGccccatcaattgcattagac	13	6	8	14	1	1	3	1	0	0	3	1	4	1	3	5	1	4	1	5	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:71395646G>A	uc004agw.1	+	1	683	c.566G>A	c.(565-567)AGC>AAC	p.S189N	PIP5K1B_uc004agu.2_Intron|PIP5K1B_uc011lrq.1_Intron|PIP5K1B_uc004agv.2_Intron	NM_138333	NP_612206	Q96E09	F122A_HUMAN	hypothetical protein LOC116224	189											0						AGAAGCCAGAGCCCCATCAAT	0.458													6	81					0	0	0.001984	0	0		A	71395646	A	A	71395646	3	1	4	1	0	0	0	0	1	0	0	0	5430	971	34	2	568	2	FAM122A	9	71395646	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	33507436	71395646	69817785	2175	4141											
APBA1	320	broad.mit.edu	37	chr9	72131639	72131639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacgtagcctgagtaggccGcattcatggcttcctcgtgc	7	10	12	12	3	1	2	1	1	0	1	3	2	2	2	3	2	2	4	3	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:72131639G>A	uc004ahh.2	-	2	764	c.488C>T	c.(487-489)GCG>GTG	p.A163V		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	163					axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						TGAGTAGGCCGCATTCATGGC	0.682													3	2					0	0	0.009096	0	0		A	72131639	A	A	72131639	3	1	4	1	0	0	0	0	1	0	0	0	756	1087	38	1	2073	1	APBA1	9	72131639	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	735993	72131639	69081792	2176	4142											
SMC5	23137	broad.mit.edu	37	chr9	72933542	72933542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taacacatctctaaaagtagCgcagtttctcactgtcactg	12	12	6	11	1	3	0	2	0	2	0	5	0	3	0	0	0	2	3	0	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:72933542C>T	uc004ahr.2	+	14	2036	c.1919C>T	c.(1918-1920)GCG>GTG	p.A640V	uc004ahs.1_5'Flank	NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein	640	Flexible hinge.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						CTAAAAGTAGCGCAGTTTCTC	0.333													27	99					0	0	0.008361	0	0		T	72933542	T	T	72933542	3	4	4	1	0	0	0	0	1	0	0	0	14811	768	27	1	1973	1	SMC5	9	72933542	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	801903	72933542	68279889	2177	4143											
TRPM3	80036	broad.mit.edu	37	chr9	73151051	73151051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagctcttcctggtgtgtgCatatggcgcacttggctcct	5	13	12	11	1	1	0	0	0	1	0	3	1	3	0	2	3	2	4	2	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:73151051C>T	uc004aid.2	-	25	5186	c.4942G>A	c.(4942-4944)GCA>ACA	p.A1648T	TRPM3_uc004ahu.2_Missense_Mutation_p.A1490T|TRPM3_uc004ahv.2_Missense_Mutation_p.A1450T|TRPM3_uc004ahw.2_Missense_Mutation_p.A1520T|TRPM3_uc004ahx.2_Missense_Mutation_p.A1507T|TRPM3_uc004ahy.2_Missense_Mutation_p.A1510T|TRPM3_uc004ahz.2_Missense_Mutation_p.A1497T|TRPM3_uc004aia.2_Missense_Mutation_p.A1495T|TRPM3_uc004aib.2_Missense_Mutation_p.A1485T|TRPM3_uc004aic.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1673	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						CTGGTGTGTGCATATGGCGCA	0.547													61	248					0	0	0.00361	0	0		T	73151051	T	T	73151051	3	4	4	1	0	0	0	0	1	0	0	0	16613	710	25	2	185	2	TRPM3	9	73151051	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	217509	73151051	68062380	2178	4144											
RORB	6096	broad.mit.edu	37	chr9	77286710	77286710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttctttcatcagaccgaGcctggcttatagaaccaagg	10	12	8	11	1	4	2	2	0	2	2	4	3	4	2	3	2	2	1	3	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:77286710G>A	uc004aji.2	+	9	1199	c.1150G>A	c.(1150-1152)GCC>ACC	p.A384T	RORB_uc004ajh.2_Missense_Mutation_p.A373T	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	384	Ligand-binding (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						ATCAGACCGAGCCTGGCTTAT	0.408													16	52					0	0	0.008871	0	0		A	77286710	A	A	77286710	3	1	4	1	0	0	0	0	1	0	0	0	13554	971	34	2	1151	2	RORB	9	77286710	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4135659	77286710	63926721	2179	4145											
TRPM6	140803	broad.mit.edu	37	chr9	77415329	77415329	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagttcatacgtcaacagCgtcatggccatgcgctcatt	9	11	9	12	3	4	1	4	1	0	0	4	1	4	1	1	1	4	2	1	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:77415329C>T	uc004ajl.1	-	17	2317	c.2079G>A	c.(2077-2079)ACG>ACA	p.T693T	TRPM6_uc004ajk.1_Silent_p.T688T|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_Silent_p.T71T	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	693	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						ACGTCAACAGCGTCATGGCCA	0.502													5	81					0	0	0.000602	0	0		T	77415329	T	T	77415329	2	4	4	1	0	0	0	0	0	0	0	1	16616	755	27	1		1	TRPM6	9	77415329	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	128619	77415329	63798102	2180	4146											
PCSK5	5125	broad.mit.edu	37	chr9	78686647	78686647	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttctgtgttgaaggagtgCgaatgctggacggagatgtc	8	12	15	6	2	1	2	0	1	1	1	2	6	1	4	0	3	2	2	0	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:78686647C>T	uc004ajz.2	+	7	1265	c.727C>T	c.(727-729)CGA>TGA	p.R243*	PCSK5_uc004ajy.2_Nonsense_Mutation_p.R243*|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	243	Catalytic.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						TGAAGGAGTGCGAATGCTGGA	0.512													20	105					0	0	0.001882	0	0		T	78686647	T	T	78686647	4	4	4	1	0	0	0	0	0	1	0	0	11622	760	27	1	753	1	PCSK5	9	78686647	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1271318	78686647	62526784	2181	4147											
PRUNE2	158471	broad.mit.edu	37	chr9	79325763	79325763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcatgttcctccgccaccGccccttcagggatggggctg	5	9	12	15	2	1	0	1	0	0	0	3	1	3	1	6	3	1	3	6	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:79325763G>A	uc010mpk.2	-	8	1551	c.1427C>T	c.(1426-1428)GCG>GTG	p.A476V		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	476					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CTCCGCCACCGCCCCTTCAGG	0.592													4	34					0	0	0.009096	0	0		A	79325763	A	A	79325763	3	1	4	1	0	0	0	0	1	0	0	0	12663	1087	38	1	7887	1	PRUNE2	9	79325763	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	639116	79325763	61887668	2182	4148											
VPS13A	23230	broad.mit.edu	37	chr9	79910752	79910752	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caataaagctgagtgaaatgCgactatacaggtaagctttt	15	11	9	6	1	0	2	0	2	0	0	0	3	0	2	0	1	4	3	0	1	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:79910752C>T	uc004akr.2	+	33	4062	c.3802C>T	c.(3802-3804)CGA>TGA	p.R1268*	VPS13A_uc004akp.3_Nonsense_Mutation_p.R1268*|VPS13A_uc004akq.3_Nonsense_Mutation_p.R1268*|VPS13A_uc004aks.2_Nonsense_Mutation_p.R1229*|VPS13A_uc010mpo.1_5'UTR	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1268	TPR 4.				Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GAGTGAAATGCGACTATACAG	0.343													18	46					0	0	0.006122	0	0		T	79910752	T	T	79910752	4	4	4	1	0	0	0	0	0	1	0	0	17215	760	27	1	3932	1	VPS13A	9	79910752	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	584989	79910752	61302679	2183	4149											
TLE4	7091	broad.mit.edu	37	chr9	82227576	82227576	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttattttttgcaggcagaGattgtcaagaggctgaatgc	10	13	11	7	0	1	3	1	1	0	2	1	4	1	3	1	2	2	3	1	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:82227576G>T	uc004ald.2	+	5	1086	c.237G>T	c.(235-237)GAG>GAT	p.E79D	TLE4_uc004alc.2_Missense_Mutation_p.E86D|TLE4_uc010mpr.2_5'UTR|TLE4_uc004ale.2_5'UTR|TLE4_uc011lsq.1_Missense_Mutation_p.E79D|TLE4_uc010mps.2_Missense_Mutation_p.E79D|TLE4_uc004alf.2_Missense_Mutation_p.E24D	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						TGCAGGCAGAGATTGTCAAGA	0.388													16	75					3.8784e-16	4.22562e-16	0.001882	1	0		T	82227576	T	T	82227576	3	4	4	1	0	0	0	0	1	0	0	0	15966	933	33	5	276	5	TLE4	9	82227576	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2316824	82227576	58985855	2184	4150											
UBQLN1	29979	broad.mit.edu	37	chr9	86276800	86276800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcttcacggttcaaaaatcCcattgcactgagttgttcca	10	13	7	11	1	2	1	2	1	0	0	4	1	4	1	2	1	2	5	2	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:86276800C>T	uc004amv.2	-	11	2246	c.1672G>A	c.(1672-1674)GGA>AGA	p.G558R	UBQLN1_uc004amw.2_Missense_Mutation_p.G530R	NM_013438	NP_038466	Q9UMX0	UBQL1_HUMAN	ubiquilin 1 isoform 1	558	UBA.				apoptosis|regulation of protein ubiquitination|response to hypoxia	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm|proteasome complex	kinase binding				0						TTCAAAAATCCCATTGCACTG	0.403													7	114					0	0	0.008291	0	0		T	86276800	T	T	86276800	3	4	4	1	0	0	0	0	1	0	0	0	16922	632	22	4	101	4	UBQLN1	9	86276800	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4049224	86276800	54936631	2185	4151											
HNRNPK	3190	broad.mit.edu	37	chr9	86585141	86585141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgtaatggtaatgatccGatcttcggatccttctaaag	10	14	8	9	2	2	1	0	1	2	0	6	3	5	2	3	2	0	2	3	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:86585141G>A	uc004ang.3	-	16	1521	c.1297C>T	c.(1297-1299)CGG>TGG	p.R433W	HNRNPK_uc011lsw.1_Missense_Mutation_p.R193W|HNRNPK_uc004and.3_Missense_Mutation_p.R193W|HNRNPK_uc004ank.3_Missense_Mutation_p.R432W|HNRNPK_uc004anf.3_Missense_Mutation_p.R433W|HNRNPK_uc004anh.3_Missense_Mutation_p.R409W|HNRNPK_uc011lsx.1_Missense_Mutation_p.R409W|HNRNPK_uc004ani.3_Missense_Mutation_p.R432W|HNRNPK_uc004anj.3_Missense_Mutation_p.R432W|HNRNPK_uc004ann.3_Missense_Mutation_p.R408W|HNRNPK_uc004anl.3_Missense_Mutation_p.R433W|HNRNPK_uc004anm.3_Missense_Mutation_p.R433W|uc004ano.1_5'Flank|MIR7-1_hsa-mir-7-1|MI0000263_5'Flank	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	433	KH 3.				interspecies interaction between organisms|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of low-density lipoprotein particle clearance|signal transduction	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nuclear chromatin|nucleoplasm	protein binding|RNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|single-stranded DNA binding			skin(1)	1						GTAATGATCCGATCTTCGGAT	0.413													4	75					0	0	0.000602	0	0		A	86585141	A	A	86585141	3	1	4	1	0	0	0	0	1	0	0	0	7285	1057	37	1	140	1	HNRNPK	9	86585141	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	308341	86585141	54628290	2186	4152											
DAPK1	1612	broad.mit.edu	37	chr9	90255318	90255318	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatacttcagtaataccagTgccctagccaaagatttcat	14	11	6	10	0	2	1	2	0	0	1	2	2	2	1	3	0	4	1	3	0	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:90255318T>C	uc004apc.2	+	8	873	c.735T>C	c.(733-735)AGT>AGC	p.S245S	DAPK1_uc004ape.2_Silent_p.S245S|DAPK1_uc004apd.2_Silent_p.S245S|DAPK1_uc011ltg.1_Silent_p.S245S|DAPK1_uc011lth.1_5'UTR	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	245	Protein kinase.				apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						GTAATACCAGTGCCCTAGCCA	0.483									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				23	54					0	0	0.00632	0	0		C	90255318	C	C	90255318	2	2	4	1	0	0	0	0	0	0	0	1	4238	1693	59	3		3	DAPK1	9	90255318	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	3670177	90255318	50958113	2187	4153											
C9orf79	286234	broad.mit.edu	37	chr9	90502104	90502104	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgggaaaacgtcctcagaAtggtccaggagacaacagaa	15	5	11	10	1	1	3	1	0	0	3	3	5	3	4	3	3	2	0	3	3	5	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:90502104A>T	uc004app.3	+	4	2737	c.2702A>T	c.(2701-2703)AAT>ATT	p.N901I	C9orf79_uc004apo.1_Missense_Mutation_p.N713I	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	901				N -> S (in Ref. 1; BAC86315).		integral to membrane				ovary(3)	3						CGTCCTCAGAATGGTCCAGGA	0.602													13	25					0	0	0.001368	0	0		T	90502104	T	T	90502104	3	4	4	1	0	0	0	0	1	0	0	0	2500	101	4	5	2716	5	C9orf79	9	90502104	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	246786	90502104	50711327	2188	4154											
FAM75C1	441452	broad.mit.edu	37	chr9	90534188	90534188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgtcatcttgtctcccagCgtcatcttgtctcccagtgt	5	14	8	14	2	6	0	2	0	4	0	8	0	6	0	2	0	2	0	2	0	0	2	rs138369848		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:90534188C>T	uc010mqi.2	+	2	237	c.208C>T	c.(208-210)CGT>TGT	p.R70C	FAM75C1_uc004apq.3_Missense_Mutation_p.R53C	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						TGTCTCCCAGCGTCATCTTGT	0.612													18	57					0	0	0.008871	0	0		T	90534188	T	T	90534188	3	4	4	1	0	0	0	0	1	0	0	0	5637	768	27	1	214	1	FAM75C1	9	90534188	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	32084	90534188	50679243	2189	4155											
CDK20	23552	broad.mit.edu	37	chr9	90585726	90585726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgtagaggcggctgccGtctggggaaaagactcgagc	8	8	17	8	3	1	2	0	0	1	2	2	4	1	3	1	4	2	2	1	4	3	1	rs150818250	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:90585726G>A	uc004apr.2	-	4	771	c.465C>T	c.(463-465)GAC>GAT	p.D155D	CDK20_uc004aps.2_Silent_p.D155D|CDK20_uc004apt.2_Silent_p.D168D|CDK20_uc004apu.2_Silent_p.D155D	NM_001039803	NP_001034892	Q8IZL9	CDK20_HUMAN	cell cycle related kinase isoform 3	155	Protein kinase.				cell division|multicellular organismal development	cilium|mitochondrion|nucleus	ATP binding|cyclin-dependent protein kinase activity			skin(1)	1						GGCGGCTGCCGTCTGGGGAAA	0.592													5	11					0	0	0.000602	0	0		A	90585726	A	A	90585726	2	1	4	1	0	0	0	0	0	0	0	1	3140	1136	40	1		1	CDK20	9	90585726	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	51538	90585726	50627705	2190	4156											
SHC3	53358	broad.mit.edu	37	chr9	91628425	91628425	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgcagagacaatgggcagGctgctttctaggtggtggtt	7	11	15	8	0	1	1	0	0	1	1	1	2	1	1	1	5	2	5	1	5	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:91628425G>A	uc004aqg.2	-	12	2029	c.1722C>T	c.(1720-1722)AGC>AGT	p.S574S		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	574	SH2.				central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						CAATGGGCAGGCTGCTTTCTA	0.542													14	35					0	0	0.00499	0	0		A	91628425	A	A	91628425	2	1	4	1	0	0	0	0	0	0	0	1	14297	1194	42	2		2	SHC3	9	91628425	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1042699	91628425	49585006	2191	4157											
SEMA4D	10507	broad.mit.edu	37	chr9	91994281	91994281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaccttcacttccaggaCgtgcttggcgaccacttgga	9	9	9	14	2	1	0	1	0	0	0	2	3	2	2	4	3	2	1	4	3	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:91994281C>T	uc004aqo.1	-	18	2499	c.1927G>A	c.(1927-1929)GTC>ATC	p.V643I	SEMA4D_uc011ltm.1_Intron|SEMA4D_uc011ltn.1_Intron|SEMA4D_uc011lto.1_Intron|SEMA4D_uc004aqp.1_Missense_Mutation_p.V641I	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	643	Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						ACTTCCAGGACGTGCTTGGCG	0.527													6	224					0	0	0.001984	0	0		T	91994281	T	T	91994281	3	4	4	1	0	0	0	0	1	0	0	0	14059	536	19	1	1235	1	SEMA4D	9	91994281	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	365856	91994281	49219150	2192	4158											
AUH	549	broad.mit.edu	37	chr9	93983211	93983211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttgccatcgaggactcgcGcagagaatatgagctccttg	9	10	11	11	3	0	2	0	1	0	1	3	5	1	3	2	1	2	2	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:93983211G>A	uc004arf.3	-	7	754	c.719C>T	c.(718-720)GCG>GTG	p.A240V	AUH_uc004arg.3_Missense_Mutation_p.A211V	NM_001698	NP_001689	Q13825	AUHM_HUMAN	AU RNA binding protein/enoyl-Coenzyme A	240			A -> V (in MGA1).		branched chain family amino acid catabolic process|mRNA catabolic process	mitochondrial matrix	enoyl-CoA hydratase activity|methylglutaconyl-CoA hydratase activity|mRNA 3'-UTR binding				0						GAGGACTCGCGCAGAGAATAT	0.557													24	49					0	0	0.003954	0	0		A	93983211	A	A	93983211	3	1	4	1	0	0	0	0	1	0	0	0	1220	1087	38	1	316	1	AUH	9	93983211	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1988930	93983211	47230220	2193	4159											
ROR2	4920	broad.mit.edu	37	chr9	94487389	94487389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgatctctttgagtttggCctgtcaagaagaaaagcccc	10	11	10	10	0	2	4	1	2	1	2	3	4	2	4	3	1	1	2	3	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:94487389C>T	uc004arj.1	-	9	1586	c.1387G>A	c.(1387-1389)GCC>ACC	p.A463T	ROR2_uc004ari.1_Missense_Mutation_p.A323T	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	463	Cytoplasmic (Potential).				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						TTGAGTTTGGCCTGTCAAGAA	0.587													9	206					0	0	0.006214	0	0		T	94487389	T	T	94487389	3	4	4	1	0	0	0	0	1	0	0	0	13552	753	26	2	1448	2	ROR2	9	94487389	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	504178	94487389	46726042	2194	4160											
CENPP	401541	broad.mit.edu	37	chr9	95142122	95142122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggtttgaatatcgtaagcGcacgtttaaacatctcaagg	12	12	10	7	3	1	1	1	1	1	0	3	1	1	1	0	2	2	4	0	2	6	5	rs112987350		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:95142122G>A	uc004arz.2	+	5	1085	c.545G>A	c.(544-546)CGC>CAC	p.R182H	CENPP_uc010mqx.2_Missense_Mutation_p.R70H|CENPP_uc004ary.1_Missense_Mutation_p.R182H	NM_001012267	NP_001012267	Q6IPU0	CENPP_HUMAN	centromere protein P	182					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	chromosome, centromeric region|cytosol|nucleoplasm				ovary(2)	2						TATCGTAAGCGCACGTTTAAA	0.343													5	73					0	0	0.001168	0	0		A	95142122	A	A	95142122	3	1	4	1	0	0	0	0	1	0	0	0	3243	1087	38	1	563	1	CENPP	9	95142122	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	654733	95142122	46071309	2195	4161											
BICD2	23299	broad.mit.edu	37	chr9	95481525	95481525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcggcccttctcctcggCgtgctgggcctcacgagcct	4	9	12	16	4	2	0	1	0	1	0	4	1	2	0	4	3	3	1	4	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:95481525C>T	uc004aso.1	-	5	1459	c.1402G>A	c.(1402-1404)GCC>ACC	p.A468T	BICD2_uc004asp.1_Missense_Mutation_p.A468T	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	468	Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						TTCTCCTCGGCGTGCTGGGCC	0.682													10	24					0	0	0.006214	0	0		T	95481525	T	T	95481525	3	4	4	1	0	0	0	0	1	0	0	0	1430	768	27	1	1187	1	BICD2	9	95481525	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	339403	95481525	45731906	2196	4162											
ZNF484	83744	broad.mit.edu	37	chr9	95610226	95610226	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagactgcctcacattcatgGcattcatgctgcttttcttc	8	15	6	12	0	4	1	3	0	1	1	5	1	4	1	1	1	3	3	1	1	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:95610226G>A	uc004asu.1	-	5	992	c.843C>T	c.(841-843)TGC>TGT	p.C281C	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Silent_p.C283C|ZNF484_uc010mrb.1_Silent_p.C245C|ZNF484_uc004asv.1_Silent_p.C245C	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	281	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACATTCATGGCATTCATGCT	0.433													6	82					0	0	0.001168	0	0		A	95610226	A	A	95610226	2	1	4	1	0	0	0	0	0	0	0	1	17962	1195	42	2		2	ZNF484	9	95610226	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	128701	95610226	45603205	2197	4163											
WNK2	65268	broad.mit.edu	37	chr9	96009888	96009888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagtccatccgtgaccgcGtggccttgatccagtggcgg	6	8	13	14	4	0	2	0	2	0	0	3	2	3	2	6	3	0	0	6	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:96009888G>A	uc004ati.1	+	7	1606	c.1606G>A	c.(1606-1608)GTG>ATG	p.V536M	WNK2_uc011lud.1_Missense_Mutation_p.V536M|WNK2_uc004atj.2_Missense_Mutation_p.V536M|WNK2_uc004atk.2_Missense_Mutation_p.V173M|WNK2_uc010mrc.1_Missense_Mutation_p.V536M|WNK2_uc010mrd.1_Missense_Mutation_p.V173M	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	536					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						CCGTGACCGCGTGGCCTTGAT	0.622													4	7					0	0	0.001984	0	0		A	96009888	A	A	96009888	3	1	4	1	0	0	0	0	1	0	0	0	17404	1145	40	1	1632	1	WNK2	9	96009888	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	399662	96009888	45203543	2198	4164											
WNK2	65268	broad.mit.edu	37	chr9	96021599	96021599	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagatggcgcctactgaCgtccctccttccccccatca	7	8	6	20	2	1	2	1	1	0	1	4	2	4	2	7	1	1	0	7	1	1	2	rs147646744	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:96021599C>T	uc004ati.1	+	11	2769	c.2769C>T	c.(2767-2769)GAC>GAT	p.D923D	WNK2_uc011lud.1_Silent_p.D923D|WNK2_uc004atj.2_Silent_p.D923D|WNK2_uc004atk.2_Silent_p.D560D|WNK2_uc010mrc.1_Silent_p.D871D	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	923					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						CGCCTACTGACGTCCCTCCTT	0.667													6	12					0	0	0.001168	0	0		T	96021599	T	T	96021599	2	4	4	1	0	0	0	0	0	0	0	1	17404	535	19	1		1	WNK2	9	96021599	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	11711	96021599	45191832	2199	4165											
C9orf129	445577	broad.mit.edu	37	chr9	96081439	96081439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggtggtcagtggcacggaatCcccaatagattgtatatctg	10	11	12	8	1	2	1	1	0	1	1	3	2	3	2	2	4	0	2	2	4	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:96081439C>T	uc010mre.2	-	4	747	c.383G>A	c.(382-384)GGA>GAA	p.G128E	WNK2_uc011lud.1_3'UTR|WNK2_uc004atj.2_Intron|WNK2_uc004atk.2_3'UTR	NM_001098808	NP_001092278	Q5T035	CI129_HUMAN	hypothetical protein LOC445577	128										ovary(1)	1						GGCACGGAATCCCCAATAGAT	0.463													17	52					0	0	0.007413	0	0		T	96081439	T	T	96081439	3	4	4	1	0	0	0	0	1	0	0	0	2459	855	30	4	215	4	C9orf129	9	96081439	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	59840	96081439	45131992	2200	4166											
FAM120A	23196	broad.mit.edu	37	chr9	96324555	96324555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagaggtggaaggtactatgGcagaggttacaaaaaccagg	16	6	14	5	0	0	2	0	0	0	2	0	3	0	3	1	6	3	3	1	6	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:96324555G>A	uc004atw.2	+	17	3039	c.3014G>A	c.(3013-3015)GGC>GAC	p.G1005D	FAM120A_uc004aty.2_Missense_Mutation_p.G786D|FAM120A_uc004atz.2_Missense_Mutation_p.G653D|FAM120A_uc010mrg.2_Missense_Mutation_p.G272D|FAM120A_uc004aua.1_5'Flank	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	1005	RNA binding.					cytoplasm|plasma membrane	RNA binding				0						AGGTACTATGGCAGAGGTTAC	0.438													15	35					0	0	0.006122	0	0		A	96324555	A	A	96324555	3	1	4	1	0	0	0	0	1	0	0	0	5426	1203	42	2	3080	2	FAM120A	9	96324555	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	243116	96324555	44888876	2201	4167											
PHF2	5253	broad.mit.edu	37	chr9	96415473	96415473	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccctagaatgtccagcttCgtggagccacctgacattgt	9	10	9	13	1	0	2	0	1	0	1	2	3	1	3	5	1	2	1	5	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:96415473C>T	uc004aub.2	+	6	762	c.615C>T	c.(613-615)TTC>TTT	p.F205F	PHF2_uc011lug.1_Silent_p.F88F	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	205	JmjC.				liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		TGTCCAGCTTCGTGGAGCCAC	0.502													10	40					0	0	0.003163	0	0		T	96415473	T	T	96415473	2	4	4	1	0	0	0	0	0	0	0	1	11849	883	31	1		1	PHF2	9	96415473	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	90918	96415473	44797958	2202	4168											
ZNF510	22869	broad.mit.edu	37	chr9	99522503	99522503	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaattctcacatacattaccGcaacctattttctttgttga	11	16	4	10	1	2	1	1	1	2	0	3	2	2	1	2	0	3	2	2	0	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:99522503G>A	uc004awn.1	-	6	798	c.609C>T	c.(607-609)TGC>TGT	p.C203C	ZNF510_uc004awo.1_Silent_p.C203C	NM_014930	NP_055745	Q9Y2H8	ZN510_HUMAN	zinc finger protein 510	203					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				ATACATTACCGCAACCTATTT	0.294													6	57					0	0	0.001984	0	0		A	99522503	A	A	99522503	2	1	4	1	0	0	0	0	0	0	0	1	17979	1079	38	1		1	ZNF510	9	99522503	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3107030	99522503	41690928	2203	4169											
ZNF322B	387328	broad.mit.edu	37	chr9	99961412	99961412	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgccacaaatgtcacatgTatagaattttttacctgcat	12	15	5	9	0	1	1	1	0	0	1	1	1	1	1	2	0	3	2	2	0	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:99961412T>C	uc004axd.1	-	1	499	c.382A>G	c.(382-384)ACA>GCA	p.T128A	uc004axb.2_5'Flank|ZNF322B_uc004axc.1_5'Flank|uc010msl.1_Intron	NM_199005	NP_945356			zinc finger protein 322B												0		Acute lymphoblastic leukemia(62;0.158)				ATGTCACATGTATAGAATTTT	0.403													6	118					0	0	0.00308	0	0		C	99961412	C	C	99961412	3	2	4	1	0	0	0	0	1	0	0	0	17867	1638	57	3	830	3	ZNF322B	9	99961412	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	438909	99961412	41252019	2204	4170											
TDRD7	23424	broad.mit.edu	37	chr9	100245401	100245401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatggtggaccatacgagcGctttctccacagaggaactg	10	8	11	12	2	1	1	0	0	1	1	2	4	1	3	3	3	3	1	3	3	2	2	rs142868591		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:100245401G>A	uc004axj.2	+	15	2908	c.2683G>A	c.(2683-2685)GCT>ACT	p.A895T	TDRD7_uc011lux.1_Missense_Mutation_p.A821T|TDRD7_uc010msp.1_Missense_Mutation_p.A147T|TDRD7_uc011luy.1_Missense_Mutation_p.A215T	NM_014290	NP_055105	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	895	Interacts with CDK17 (By similarity).|Interacts with CABLES1 (By similarity).				lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)				CCATACGAGCGCTTTCTCCAC	0.507													11	28					0	0	0.001368	0	0		A	100245401	A	A	100245401	3	1	4	1	0	0	0	0	1	0	0	0	15760	1087	38	1	2737	1	TDRD7	9	100245401	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	283989	100245401	40968030	2205	4171											
TSTD2	158427	broad.mit.edu	37	chr9	100365028	100365028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagtttatactggtcccagCgggctccacagtatgaacac	11	9	10	11	1	0	2	0	1	0	1	2	2	2	2	2	2	3	3	2	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:100365028C>T	uc004axn.2	-	10	1762	c.1274G>A	c.(1273-1275)CGC>CAC	p.R425H	TSTD2_uc004axo.2_Missense_Mutation_p.R199H	NM_139246	NP_640339	Q5T7W7	TSTD2_HUMAN	thiosulfate sulfurtransferase (rhodanese)-like	425										ovary(2)	2						CTGGTCCCAGCGGGCTCCACA	0.517													5	45					0	0	0.000602	0	0		T	100365028	T	T	100365028	3	4	4	1	0	0	0	0	1	0	0	0	16701	768	27	1	280	1	TSTD2	9	100365028	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	119627	100365028	40848403	2206	4172											
NCBP1	4686	broad.mit.edu	37	chr9	100420938	100420938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaggttgtcttaccatcagCgtatattagatattgttcct	9	17	8	7	1	2	1	1	0	1	1	3	1	3	1	2	1	2	4	2	1	6	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:100420938C>T	uc004axq.2	+	15	1849	c.1390C>T	c.(1390-1392)CGT>TGT	p.R464C		NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa	464					gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)				TTACCATCAGCGTATATTAGA	0.393													12	43					0	0	0.001855	0	0		T	100420938	T	T	100420938	3	4	4	1	0	0	0	0	1	0	0	0	10230	768	27	1	1448	1	NCBP1	9	100420938	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	55910	100420938	40792493	2207	4173											
NCBP1	4686	broad.mit.edu	37	chr9	100431913	100431913	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgagcacctagtacgatgCgaaactgatgggaccagtgt	12	7	12	10	3	0	1	0	1	0	0	0	5	0	2	3	1	4	2	3	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:100431913C>T	uc004axq.2	+	22	2643	c.2184C>T	c.(2182-2184)TGC>TGT	p.C728C		NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa	728					gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)				TAGTACGATGCGAAACTGATG	0.418													19	52					0	0	0.001882	0	0		T	100431913	T	T	100431913	2	4	4	1	0	0	0	0	0	0	0	1	10230	776	27	1		1	NCBP1	9	100431913	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10975	100431913	40781518	2208	4174											
C9orf156	51531	broad.mit.edu	37	chr9	100672390	100672390	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagtgaggggccatgggCtgtgtctctgccctgcttcc	3	10	16	12	0	1	1	0	1	1	0	3	1	2	1	3	4	2	3	3	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:100672390C>T	uc004axv.1	-	4	995	c.918G>A	c.(916-918)CAG>CAA	p.Q306Q	C9orf156_uc004axw.1_Silent_p.Q203Q|C9orf156_uc004axx.1_Silent_p.Q160Q|C9orf156_uc010msq.1_Silent_p.Q203Q	NM_016481	NP_057565	Q9BU70	NAP1_HUMAN	Nef associated protein 1	306					interspecies interaction between organisms		hydrolase activity				0		Acute lymphoblastic leukemia(62;0.158)				GGGCCATGGGCTGTGTCTCTG	0.567													7	29					0	0	0.004482	0	0		T	100672390	T	T	100672390	2	4	4	1	0	0	0	0	0	0	0	1	2468	796	28	2		2	C9orf156	9	100672390	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	240477	100672390	40541041	2209	4175											
GABBR2	9568	broad.mit.edu	37	chr9	101340263	101340263	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgcaatgatggatgtgAcggatggacagacgcctcca	11	8	12	10	2	1	3	0	2	1	1	2	6	2	6	2	3	1	1	2	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:101340263A>G	uc004ays.2	-	2	569	c.413T>C	c.(412-414)GTC>GCC	p.V138A		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	138	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	GATGGATGTGACGGATGGACA	0.517													5	68					0	0	0.000602	0	0		G	101340263	G	G	101340263	3	3	4	1	0	0	0	0	1	0	0	0	6170	275	10	3	2484	3	GABBR2	9	101340263	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	667873	101340263	39873168	2210	4176											
INVS	27130	broad.mit.edu	37	chr9	103054969	103054969	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctccggctggttctagccgCcctggcagtgcccgggggga	3	8	16	14	3	2	0	0	0	2	0	3	1	2	1	4	6	2	3	4	6	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:103054969C>T	uc004bap.1	+	14	2642	c.2430C>T	c.(2428-2430)CGC>CGT	p.R810R	INVS_uc011lve.1_Silent_p.R714R|INVS_uc004bao.1_Intron|INVS_uc004baq.1_Intron|INVS_uc004bar.1_Silent_p.R714R|INVS_uc010mtb.1_Silent_p.R484R	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	810					negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				GTTCTAGCCGCCCTGGCAGTG	0.617													8	25					0	0	0.00308	0	0		T	103054969	T	T	103054969	2	4	4	1	0	0	0	0	0	0	0	1	7803	726	26	2		2	INVS	9	103054969	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1714706	103054969	38158462	2211	4177											
TEX10	54881	broad.mit.edu	37	chr9	103082626	103082626	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaagctgtgtctggatgAcatgaggaactcctcgaagg	11	8	15	7	1	1	2	0	2	1	0	3	6	2	5	1	4	2	1	1	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:103082626A>G	uc004bas.2	-	11	2338	c.2123T>C	c.(2122-2124)GTC>GCC	p.V708A	TEX10_uc011lvf.1_Missense_Mutation_p.V547A|TEX10_uc011lvg.1_Missense_Mutation_p.V711A	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	708						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		TGTCTGGATGACATGAGGAAC	0.383													4	44					0	0	0.009096	0	0		G	103082626	G	G	103082626	3	3	4	1	0	0	0	0	1	0	0	0	15797	275	10	3	686	3	TEX10	9	103082626	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	27657	103082626	38130805	2212	4178											
LPPR1	54886	broad.mit.edu	37	chr9	104079735	104079735	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggagtacccctaatggCtttcccaaggatagaaagcc	11	8	10	12	1	0	1	0	0	0	1	1	3	1	3	5	3	2	2	5	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:104079735C>A	uc004bbb.2	+	7	1301	c.902C>A	c.(901-903)GCT>GAT	p.A301D	LPPR1_uc011lvi.1_Missense_Mutation_p.A277D|LPPR1_uc004bbc.2_Missense_Mutation_p.A301D|LPPR1_uc010mtc.2_Missense_Mutation_p.A285D	NM_207299	NP_997182	Q8TBJ4	LPPR1_HUMAN	plasticity related gene 3	301						integral to membrane	catalytic activity				0						CCCCTAATGGCTTTCCCAAGG	0.488													35	100					3.76114e-14	4.08591e-14	0.004289	1	0		A	104079735	A	A	104079735	3	1	4	1	0	0	0	0	1	0	0	0	8942	797	28	5	924	5	LPPR1	9	104079735	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	997109	104079735	37133696	2213	4179											
BAAT	570	broad.mit.edu	37	chr9	104125184	104125184	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtggaatgccaaaaggaaaGttggtcccattaataagtac	15	10	10	6	0	0	0	0	0	0	0	1	2	1	2	2	3	2	2	2	3	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:104125184G>A	uc010mtd.2	-	4	892	c.783C>T	c.(781-783)AAC>AAT	p.N261N	BAAT_uc004bbd.3_Silent_p.N261N	NM_001127610	NP_001121082	Q14032	BAAT_HUMAN	bile acid Coenzyme A: amino acid	261					acyl-CoA metabolic process|bile acid and bile salt transport|bile acid biosynthetic process|digestion|fatty acid metabolic process|glycine metabolic process	cytosol|peroxisomal matrix	carboxylesterase activity|glycine N-choloyltransferase activity|N-acyltransferase activity|palmitoyl-CoA hydrolase activity			ovary(1)|lung(1)|skin(1)	3		Acute lymphoblastic leukemia(62;0.0559)			Glycine(DB00145)	CAAAAGGAAAGTTGGTCCCAT	0.453													9	130					0	0	0.006214	0	0		A	104125184	A	A	104125184	2	1	4	1	0	0	0	0	0	0	0	1	1281	1020	36	4		4	BAAT	9	104125184	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	45449	104125184	37088247	2214	4180											
RNF20	56254	broad.mit.edu	37	chr9	104302555	104302555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatgttggatcagcggcaggCcattgaagatgaacttcgtg	11	10	13	7	2	1	3	1	2	0	1	2	4	1	4	1	3	2	2	1	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:104302555C>T	uc004bbn.2	+	3	290	c.200C>T	c.(199-201)GCC>GTC	p.A67V		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	67	Potential.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		CAGCGGCAGGCCATTGAAGAT	0.463													16	44					0	0	0.00499	0	0		T	104302555	T	T	104302555	3	4	4	1	0	0	0	0	1	0	0	0	13498	739	26	2	206	2	RNF20	9	104302555	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	177371	104302555	36910876	2215	4181											
TMEM38B	55151	broad.mit.edu	37	chr9	108457045	108457045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagtgatggcggtgaaacGtcagccgggtgagtgcgggg	7	7	20	7	4	2	3	2	3	0	0	2	3	2	3	1	5	3	0	1	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:108457045G>A	uc004bcu.1	+	1	221	c.104G>A	c.(103-105)CGT>CAT	p.R35H	TMEM38B_uc010mtn.1_Missense_Mutation_p.R35H	NM_018112	NP_060582	Q9NVV0	TM38B_HUMAN	transmembrane protein 38B	35	Lumenal (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			ovary(1)|skin(1)	2						GCGGTGAAACGTCAGCCGGGT	0.532													5	28					0	0	0.001984	0	0		A	108457045	A	A	108457045	3	1	4	1	0	0	0	0	1	0	0	0	16185	1145	40	1	106	1	TMEM38B	9	108457045	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4154490	108457045	32756386	2216	4182											
ZNF462	58499	broad.mit.edu	37	chr9	109691644	109691644	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcagatgagcatgagaaGcccacactgatggaagaaga	16	6	12	7	0	0	6	0	3	0	4	0	8	0	7	1	1	3	2	1	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:109691644G>A	uc004bcz.2	+	3	5740	c.5451G>A	c.(5449-5451)AAG>AAA	p.K1817K	ZNF462_uc010mto.2_Silent_p.K1665K|ZNF462_uc004bda.2_Silent_p.K1665K	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1817					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						AGCATGAGAAGCCCACACTGA	0.547													6	83					0	0	0.001984	0	0		A	109691644	A	A	109691644	2	1	4	1	0	0	0	0	0	0	0	1	17951	962	34	2		2	ZNF462	9	109691644	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1234599	109691644	31521787	2217	4183											
IKBKAP	8518	broad.mit.edu	37	chr9	111659242	111659242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggatctctaccttgaagctCgtgtactttttgcagtacaa	9	14	8	10	2	1	1	0	1	1	0	3	2	1	2	1	1	5	4	1	1	5	6	rs137983175		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:111659242C>T	uc004bdm.3	-	24	3098	c.2578G>A	c.(2578-2580)GAG>AAG	p.E860K	IKBKAP_uc004bdl.2_Missense_Mutation_p.E511K|IKBKAP_uc011lwc.1_Missense_Mutation_p.E746K|IKBKAP_uc010mtq.2_Missense_Mutation_p.E511K	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	860					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						CCTTGAAGCTCGTGTACTTTT	0.448													30	72					0	0	0.009535	0	0		T	111659242	T	T	111659242	3	4	4	1	0	0	0	0	1	0	0	0	7626	893	31	1	1476	1	IKBKAP	9	111659242	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1967598	111659242	29554189	2218	4184											
EPB41L4B	54566	broad.mit.edu	37	chr9	112042125	112042125	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagagtcgaggaactggAggccaaagtaatctgtttcc	11	8	14	8	1	1	1	0	0	1	1	3	4	2	3	2	4	1	3	2	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:112042125A>C	uc004bdz.1	-	2	678	c.383T>G	c.(382-384)CTC>CGC	p.L128R	EPB41L4B_uc004bea.2_Missense_Mutation_p.L128R	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	128	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						GAGGAACTGGAGGCCAAAGTA	0.443													16	52					0	0	0.003954	0	0		C	112042125	C	C	112042125	3	2	4	1	0	0	0	0	1	0	0	0	5164	304	11	5	2571	5	EPB41L4B	9	112042125	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	382883	112042125	29171306	2219	4185											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112899061	112899061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaggccaagtttgagctgCgtgccttccatgaggacaag	10	8	14	9	1	0	2	0	2	0	0	1	4	1	4	3	3	3	2	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:112899061C>T	uc004bei.2	+	9	2125	c.1933C>T	c.(1933-1935)CGT>TGT	p.R645C	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.R413C|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.R413C|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.R223C|AKAP2_uc011lwi.1_Missense_Mutation_p.R271C|AKAP2_uc004bem.2_Missense_Mutation_p.R271C|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.R231C|AKAP2_uc011lwj.1_Missense_Mutation_p.R182C|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.R182C	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	182							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						GTTTGAGCTGCGTGCCTTCCA	0.517													19	51					0	0	0.007413	0	0		T	112899061	T	T	112899061	3	4	4	1	0	0	0	0	1	0	0	0	11429	768	27	1	1267	1	PALM2-AKAP2	9	112899061	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	856936	112899061	28314370	2220	4186											
SVEP1	79987	broad.mit.edu	37	chr9	113168502	113168502	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccactgcattggcgacagaCggtggggacccacaggacaa	11	4	14	12	2	0	1	0	0	0	1	0	4	0	3	2	5	1	1	2	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:113168502C>T	uc010mtz.2	-	38	9715	c.9378G>A	c.(9376-9378)CCG>CCA	p.P3126P	SVEP1_uc010mty.2_Silent_p.P1052P	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	3126	Sushi 29.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TGGCGACAGACGGTGGGGACC	0.527													6	93					0	0	0.006214	0	0		T	113168502	T	T	113168502	2	4	4	1	0	0	0	0	0	0	0	1	15445	523	19	1		1	SVEP1	9	113168502	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	269441	113168502	28044929	2221	4187											
SVEP1	79987	broad.mit.edu	37	chr9	113241982	113241982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatctgtgtcatcacaacgaGctgctttgtagaacatctca	11	12	8	10	1	4	1	3	0	2	1	5	3	4	1	0	0	4	3	0	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:113241982G>A	uc010mtz.2	-	13	2757	c.2420C>T	c.(2419-2421)GCT>GTT	p.A807V	SVEP1_uc010mua.1_Missense_Mutation_p.A807V|SVEP1_uc004beu.2_Missense_Mutation_p.A807V	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	807					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding	p.A807G(1)		ovary(7)	7						ATCACAACGAGCTGCTTTGTA	0.383													6	219					0	0	0.001984	0	0		A	113241982	A	A	113241982	3	1	4	1	0	0	0	0	1	0	0	0	15445	971	34	2	8439	2	SVEP1	9	113241982	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	73480	113241982	27971449	2222	4188											
LPAR1	1902	broad.mit.edu	37	chr9	113637839	113637839	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggatctgcctaaaggtggcGctcatttctttgtcgcggta	7	13	12	9	3	3	0	1	0	2	0	4	1	3	1	1	4	1	2	1	4	3	4	rs61753623	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:113637839G>A	uc004bfa.2	-	5	1212	c.957C>T	c.(955-957)AGC>AGT	p.S319S	LPAR1_uc011lwm.1_Silent_p.S320S|LPAR1_uc004bfb.2_Silent_p.S319S|LPAR1_uc004bfc.2_Silent_p.S319S|LPAR1_uc011lwn.1_Silent_p.S301S|LPAR1_uc011lwo.1_Silent_p.S320S|LPAR1_uc010mub.2_Silent_p.S319S	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	319	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						TAAAGGTGGCGCTCATTTCTT	0.552													23	54					0	0	0.007291	0	0		A	113637839	A	A	113637839	2	1	4	1	0	0	0	0	0	0	0	1	8922	1078	38	1		1	LPAR1	9	113637839	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	395857	113637839	27575592	2223	4189											
LPAR1	1902	broad.mit.edu	37	chr9	113704425	113704425	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggactcgttgtagaagcaCtgtggttcattcatggctgt	8	14	12	7	1	2	1	2	0	0	1	3	2	2	2	0	3	1	5	0	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:113704425C>A	uc004bfa.2	-	4	324	c.69G>T	c.(67-69)CAG>CAT	p.Q23H	LPAR1_uc011lwm.1_Missense_Mutation_p.Q24H|LPAR1_uc004bfb.2_Missense_Mutation_p.Q23H|LPAR1_uc004bfc.2_Missense_Mutation_p.Q23H|LPAR1_uc011lwn.1_Missense_Mutation_p.Q5H|LPAR1_uc011lwo.1_Missense_Mutation_p.Q24H|LPAR1_uc010mub.2_Missense_Mutation_p.Q23H	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	23	Extracellular (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						TGTAGAAGCACTGTGGTTCAT	0.403													24	74					1.10513e-12	1.19757e-12	0.002299	1	0		A	113704425	A	A	113704425	3	1	4	1	0	0	0	0	1	0	0	0	8922	564	20	5	1033	5	LPAR1	9	113704425	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	66586	113704425	27509006	2224	4190											
KIAA1958	158405	broad.mit.edu	37	chr9	115336875	115336875	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggcctcaaagcattgctcGcaaaagacctggggtagtcc	12	7	11	11	1	1	1	1	0	0	1	3	1	2	1	3	3	2	4	3	3	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:115336875G>A	uc004bgf.1	+	2	690	c.515G>A	c.(514-516)CGC>CAC	p.R172H	KIAA1958_uc011lwx.1_Missense_Mutation_p.R172H	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	172										skin(1)	1						AGCATTGCTCGCAAAAGACCT	0.458													11	104					0	0	0.008291	0	0		A	115336875	A	A	115336875	3	1	4	1	0	0	0	0	1	0	0	0	8280	1087	38	1	517	1	KIAA1958	9	115336875	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1632450	115336875	25876556	2225	4191											
FKBP15	23307	broad.mit.edu	37	chr9	115959248	115959248	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaacaccaggatcgagtcCgttgcttgagtccagcctat	9	10	10	12	3	0	1	0	1	0	0	4	4	2	2	4	1	3	2	4	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:115959248C>T	uc004bgs.2	-	9	946	c.828G>A	c.(826-828)ACG>ACA	p.T276T	FKBP15_uc010muu.1_Silent_p.T340T|FKBP15_uc011lxd.1_Silent_p.T208T|FKBP15_uc010mut.1_Silent_p.T144T|FKBP15_uc004bgt.2_Silent_p.T276T	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	276	PPIase FKBP-type.				endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						GGATCGAGTCCGTTGCTTGAG	0.498													4	78					0	0	0.001168	0	0		T	115959248	T	T	115959248	2	4	4	1	0	0	0	0	0	0	0	1	5919	639	23	1		1	FKBP15	9	115959248	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	622373	115959248	25254183	2226	4192											
PRPF4	9128	broad.mit.edu	37	chr9	116053015	116053015	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtcgagtttgggacctacGcacaggacgttgtatcatgt	8	12	13	8	3	1	0	1	0	0	0	2	3	1	2	1	3	1	4	1	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:116053015G>T	uc004bgx.2	+	12	1234	c.1184G>T	c.(1183-1185)CGC>CTC	p.R395L	PRPF4_uc004bgy.2_Missense_Mutation_p.R394L	NM_004697	NP_004688	O43172	PRP4_HUMAN	PRP4 pre-mRNA processing factor 4 homolog	395	WD 4.					Cajal body|nuclear speck|spliceosomal complex|U4/U6 snRNP	protein binding			ovary(2)|pancreas(1)	3						TGGGACCTACGCACAGGACGT	0.423													17	65					1.55795e-14	1.69424e-14	0.001882	1	0		T	116053015	T	T	116053015	3	4	4	1	0	0	0	0	1	0	0	0	12592	1087	38	5	1230	5	PRPF4	9	116053015	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	93767	116053015	25160416	2227	4193											
WDR31	114987	broad.mit.edu	37	chr9	116080824	116080824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcaattaaaggcatcaaggCcaatgctcttggtagaaaga	16	8	10	7	0	2	2	1	0	1	2	2	2	2	2	1	3	2	4	1	3	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:116080824C>T	uc004bhe.2	-	10	1126	c.874G>A	c.(874-876)GCC>ACC	p.A292T	uc004bhb.2_5'Flank|WDR31_uc004bhc.2_Missense_Mutation_p.A291T|WDR31_uc004bhd.2_Missense_Mutation_p.A167T|WDR31_uc004bhf.2_RNA	NM_001012361	NP_001012361	Q8NA23	WDR31_HUMAN	WD repeat domain 31 isoform 1	292	WD 5.										0						GGCATCAAGGCCAATGCTCTT	0.448													26	100					0	0	0.005443	0	0		T	116080824	T	T	116080824	3	4	4	1	0	0	0	0	1	0	0	0	17312	739	26	2	237	2	WDR31	9	116080824	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	27809	116080824	25132607	2228	4194											
BSPRY	54836	broad.mit.edu	37	chr9	116130628	116130628	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggagcccactactgacccAactctgggcaacggcggttc	8	7	11	15	3	1	1	0	1	1	0	3	2	1	2	2	4	4	2	2	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:116130628A>G	uc004bhg.3	+	5	695	c.647A>G	c.(646-648)CAA>CGA	p.Q216R	BSPRY_uc010muw.2_Intron	NM_017688	NP_060158	Q5W0U4	BSPRY_HUMAN	B-box and SPRY domain containing	216	B30.2/SPRY.				calcium ion transport	cytoplasm|membrane	zinc ion binding			breast(1)	1						CTACTGACCCAACTCTGGGCA	0.527													20	62					0	0	0.004656	0	0		G	116130628	G	G	116130628	3	3	4	1	0	0	0	0	1	0	0	0	1535	130	5	3	665	3	BSPRY	9	116130628	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	49804	116130628	25082803	2229	4195											
ZNF618	114991	broad.mit.edu	37	chr9	116812207	116812207	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaggcaaaaatgaagtgtaCgattacctgcaggagcccct	13	8	10	10	1	0	1	0	1	0	0	0	3	0	2	3	2	4	3	3	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:116812207C>T	uc004bid.2	+	15	2724	c.2625C>T	c.(2623-2625)TAC>TAT	p.Y875Y	ZNF618_uc004bic.2_Silent_p.Y782Y|ZNF618_uc011lxi.1_Silent_p.Y842Y|ZNF618_uc011lxj.1_Silent_p.Y843Y|ZNF618_uc010mvb.2_Silent_p.Y465Y	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	875					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGAAGTGTACGATTACCTGC	0.577													5	60					0	0	0.000602	0	0		T	116812207	T	T	116812207	2	4	4	1	0	0	0	0	0	0	0	1	18067	547	19	1		1	ZNF618	9	116812207	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	681579	116812207	24401224	2230	4196											
COL27A1	85301	broad.mit.edu	37	chr9	116930298	116930298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcgacatgcacgacgggCgctggcaccacctggccctc	7	5	11	18	4	0	0	0	0	0	0	2	2	0	0	4	3	1	3	4	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:116930298C>T	uc011lxl.1	+	3	463	c.463C>T	c.(463-465)CGC>TGC	p.R155C	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Missense_Mutation_p.R5C	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	155	Laminin G-like.|TSP N-terminal.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GCACGACGGGCGCTGGCACCA	0.697													3	9					0	0	0.004672	0	0		T	116930298	T	T	116930298	3	4	4	1	0	0	0	0	1	0	0	0	3688	768	27	1	473	1	COL27A1	9	116930298	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	118091	116930298	24283133	2231	4197											
COL27A1	85301	broad.mit.edu	37	chr9	117070050	117070050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtgtctcaagcccatcacgGcctccaaggtacccatcagc	9	7	8	17	2	3	0	3	0	1	0	5	0	4	0	4	2	3	1	4	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:117070050G>A	uc011lxl.1	+	59	5209	c.5209G>A	c.(5209-5211)GCC>ACC	p.A1737T	COL27A1_uc004bii.2_RNA|COL27A1_uc011lxn.1_Missense_Mutation_p.A52T	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1737	Fibrillar collagen NC1.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GCCCATCACGGCCTCCAAGGT	0.532													19	32					0	0	0.008871	0	0		A	117070050	A	A	117070050	3	1	4	1	0	0	0	0	1	0	0	0	3688	1203	42	2	5443	2	COL27A1	9	117070050	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	139752	117070050	24143381	2232	4198											
DFNB31	25861	broad.mit.edu	37	chr9	117188608	117188608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgtcaggatgaggtgcCgagatgacttaagcagcctg	10	9	13	9	1	2	3	2	2	0	1	2	5	2	4	2	2	3	1	2	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:117188608C>T	uc004biz.3	-	4	1698	c.1049G>A	c.(1048-1050)CGG>CAG	p.R350Q	DFNB31_uc004bix.2_5'Flank|DFNB31_uc004biy.3_5'UTR|DFNB31_uc004bja.3_Missense_Mutation_p.R350Q	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	350	PDZ 2.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						GATGAGGTGCCGAGATGACTT	0.587													4	35					0	0	0.000602	0	0		T	117188608	T	T	117188608	3	4	4	1	0	0	0	0	1	0	0	0	4461	652	23	1	1710	1	DFNB31	9	117188608	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	118558	117188608	24024823	2233	4199											
TNC	3371	broad.mit.edu	37	chr9	117804613	117804613	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgacttcctttggggaGcccatggctgtcaagaagaa	13	9	11	8	0	1	3	1	1	0	2	2	4	2	4	2	3	1	1	2	3	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:117804613G>A	uc004bjj.3	-	18	5495	c.5133C>T	c.(5131-5133)GGC>GGT	p.G1711G	TNC_uc010mvf.2_Silent_p.G1438G	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1711	Fibronectin type-III 13.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CCTTTGGGGAGCCCATGGCTG	0.463													15	44					0	0	0.00499	0	0		A	117804613	A	A	117804613	2	1	4	1	0	0	0	0	0	0	0	1	16295	958	34	2		2	TNC	9	117804613	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	616005	117804613	23408818	2234	4200											
PAPPA	5069	broad.mit.edu	37	chr9	119124887	119124887	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggacttgggagcaatgTcattcattgccggaaagatg	11	10	13	7	1	3	1	3	0	0	1	3	4	3	4	1	3	2	1	1	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:119124887T>C	uc004bjn.2	+	18	4745	c.4364T>C	c.(4363-4365)GTC>GCC	p.V1455A	PAPPA_uc011lxq.1_Missense_Mutation_p.V830A	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1455	Sushi 4.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GGGAGCAATGTCATTCATTGC	0.488													23	65					0	0	0.00333	0	0		C	119124887	C	C	119124887	3	2	4	1	0	0	0	0	1	0	0	0	11451	1667	58	3	4434	3	PAPPA	9	119124887	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1320274	119124887	22088544	2235	4201											
ASTN2	23245	broad.mit.edu	37	chr9	119488134	119488134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagctctgagccatagagggCctctgcgatgtagtgggagc	8	8	16	9	1	2	2	0	1	2	1	2	5	2	3	2	2	4	2	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:119488134C>T	uc004bjs.1	-	16	2823	c.2722G>A	c.(2722-2724)GCC>ACC	p.A908T	ASTN2_uc004bjr.1_Missense_Mutation_p.A904T|ASTN2_uc004bjt.1_Missense_Mutation_p.A857T	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	908	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CCATAGAGGGCCTCTGCGATG	0.557													5	109					0	0	0.001168	0	0		T	119488134	T	T	119488134	3	4	4	1	0	0	0	0	1	0	0	0	1066	739	26	2	1561	2	ASTN2	9	119488134	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	363247	119488134	21725297	2236	4202											
ASTN2	23245	broad.mit.edu	37	chr9	119976705	119976705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagtgtgggtcacctggCtgccaaactcgtcctcgcgg	6	8	13	14	3	1	1	1	0	0	1	4	1	2	1	4	3	2	1	4	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:119976705C>T	uc004bjs.1	-	3	1048	c.947G>A	c.(946-948)AGC>AAC	p.S316N	ASTN2_uc004bjr.1_Missense_Mutation_p.S316N|ASTN2_uc004bjt.1_Missense_Mutation_p.S316N	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	316	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GGTCACCTGGCTGCCAAACTC	0.577													23	66					0	0	0.00278	0	0		T	119976705	T	T	119976705	3	4	4	1	0	0	0	0	1	0	0	0	1066	797	28	2	3231	2	ASTN2	9	119976705	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	488571	119976705	21236726	2237	4203											
TLR4	7099	broad.mit.edu	37	chr9	120476537	120476537	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctgccttcactacagaGactttattcccggtgtggcc	7	12	9	13	1	2	1	1	0	1	1	3	2	3	1	3	2	3	1	3	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:120476537G>T	uc004bjz.2	+	3	2422	c.2131G>T	c.(2131-2133)GAC>TAC	p.D711Y	TLR4_uc004bka.2_Missense_Mutation_p.D671Y|TLR4_uc004bkb.2_Missense_Mutation_p.D511Y	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	711	Cytoplasmic (Potential).|TIR.			D->K: Abolishes LPS-response.	activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TCACTACAGAGACTTTATTCC	0.468													19	49					7.41877e-09	7.94206e-09	0.001882	1	0		T	120476537	T	T	120476537	3	4	4	1	0	0	0	0	1	0	0	0	15978	942	33	5	2141	5	TLR4	9	120476537	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	499832	120476537	20736894	2238	4204											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123220813	123220813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttctaggcagccaggtgCgtgggccccatcacaatctg	7	10	11	13	1	4	0	1	0	3	0	4	0	4	0	3	3	2	1	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:123220813C>T	uc004bkf.2	-	20	2471	c.2290G>A	c.(2290-2292)GCA>ACA	p.A764T	CDK5RAP2_uc004bke.2_Missense_Mutation_p.A49T|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.A764T|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.A29T|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.A29T|CDK5RAP2_uc011lya.1_Missense_Mutation_p.A29T|CDK5RAP2_uc004bkh.1_Intron|CDK5RAP2_uc004bki.2_Missense_Mutation_p.A531T	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	764					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						CAGCCAGGTGCGTGGGCCCCA	0.458													21	60					0	0	0.010504	0	0		T	123220813	T	T	123220813	3	4	4	1	0	0	0	0	1	0	0	0	3149	768	27	1	3467	1	CDK5RAP2	9	123220813	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2744276	123220813	17992618	2239	4205											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123308012	123308012	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggctttgatgagcagctgCtctctctcctggagttcccg	5	12	12	12	1	2	2	0	2	2	0	5	4	3	3	2	2	3	5	2	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:123308012C>A	uc004bkf.2	-	5	544	c.363G>T	c.(361-363)GAG>GAT	p.E121D	CDK5RAP2_uc004bkg.2_Missense_Mutation_p.E121D|CDK5RAP2_uc011lxw.1_5'UTR|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_5'UTR|CDK5RAP2_uc011lya.1_5'UTR|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.E121D	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	121					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						TGAGCAGCTGCTCTCTCTCCT	0.433													38	83					1.8453e-21	2.02316e-21	0.002522	1	0		A	123308012	A	A	123308012	3	1	4	1	0	0	0	0	1	0	0	0	3149	796	28	5	5454	5	CDK5RAP2	9	123308012	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	87199	123308012	17905419	2240	4206											
PSMD5	5711	broad.mit.edu	37	chr9	123594201	123594201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaatctcagtaacagcatcaGaattttcaacaattcttcca	15	12	4	10	0	4	1	3	0	2	1	6	2	5	1	1	0	3	2	1	0	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:123594201G>A	uc004bko.2	-	3	360	c.341C>T	c.(340-342)TCT>TTT	p.S114F	PSMD5_uc011lye.1_Missense_Mutation_p.S114F	NM_005047	NP_005038	Q16401	PSMD5_HUMAN	proteasome 26S non-ATPase subunit 5	114					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|proteasome regulatory particle assembly|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding				0						AACAGCATCAGAATTTTCAAC	0.348													4	85					0	0	0.000602	0	0		A	123594201	A	A	123594201	3	1	4	1	0	0	0	0	1	0	0	0	12723	942	33	4	1205	4	PSMD5	9	123594201	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	286189	123594201	17619230	2241	4207											
C5	727	broad.mit.edu	37	chr9	123769199	123769199	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccagtgtttgaaatgccaAcgccttgaatttcccaggtg	10	12	9	10	1	0	2	0	2	0	0	1	2	1	2	4	1	3	1	4	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:123769199A>C	uc004bkv.2	-	19	2435	c.2405T>G	c.(2404-2406)GTT>GGT	p.V802G	C5_uc010mvm.1_Missense_Mutation_p.V802G	NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	802					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	TGAAATGCCAACGCCTTGAAT	0.328													17	48					0	0	0.002299	0	0		C	123769199	C	C	123769199	3	2	4	1	0	0	0	0	1	0	0	0	2283	43	2	5	2717	5	C5	9	123769199	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	174998	123769199	17444232	2242	4208											
RAB14	51552	broad.mit.edu	37	chr9	123952946	123952946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgcagttttattttttggCcactaacttcgattattctt	7	21	5	8	1	2	0	0	0	2	0	3	1	2	0	1	1	2	2	1	1	3	10			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:123952946C>T	uc004blc.2	-	4	626	c.170G>A	c.(169-171)GGC>GAC	p.G57D		NM_016322	NP_057406	P61106	RAB14_HUMAN	GTPase Rab14	57					embryo development|fibroblast growth factor receptor signaling pathway|Golgi to endosome transport|neurotransmitter secretion|protein transport|small GTPase mediated signal transduction	cytosol|early endosome membrane|Golgi membrane|Golgi stack|late endosome|lysosome|membrane fraction|nuclear outer membrane-endoplasmic reticulum membrane network|perinuclear region of cytoplasm|rough endoplasmic reticulum|trans-Golgi network transport vesicle	GDP binding|GTP binding|GTPase activity				0						TATTTTTTGGCCACTAACTTC	0.428													5	70					0	0	0.001168	0	0		T	123952946	T	T	123952946	3	4	4	1	0	0	0	0	1	0	0	0	12925	739	26	2	497	2	RAB14	9	123952946	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	183747	123952946	17260485	2243	4209											
GSN	2934	broad.mit.edu	37	chr9	124064372	124064372	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggagacttcttcacgggCgacgcctacgtcatcctgaa	9	10	10	12	4	3	2	2	1	1	1	4	4	4	2	2	2	1	0	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:124064372C>T	uc004blf.1	+	2	337	c.276C>T	c.(274-276)GGC>GGT	p.G92G	GSN_uc004bld.1_Silent_p.G41G|GSN_uc010mvq.1_Silent_p.G52G|GSN_uc010mvr.1_Silent_p.G52G|GSN_uc010mvu.1_Silent_p.G41G|GSN_uc010mvt.1_Silent_p.G41G|GSN_uc010mvs.1_Silent_p.G41G|GSN_uc004ble.1_Silent_p.G41G|GSN_uc010mvv.1_Silent_p.G41G|GSN_uc011lyh.1_Silent_p.G58G|GSN_uc011lyi.1_Silent_p.G41G|GSN_uc011lyj.1_Silent_p.G65G	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	92	Actin-severing (Potential).|Gelsolin-like 1.				actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						TCTTCACGGGCGACGCCTACG	0.602													6	72					0	0	0.00308	0	0		T	124064372	T	T	124064372	2	4	4	1	0	0	0	0	0	0	0	1	6841	755	27	1		1	GSN	9	124064372	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	111426	124064372	17149059	2244	4210											
DAB2IP	153090	broad.mit.edu	37	chr9	124522353	124522353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccacaacttgccgcctctgCgcacggtcactgtccacctg	6	9	8	18	3	2	0	1	0	1	0	4	0	4	0	5	1	3	1	5	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:124522353C>T	uc004bln.2	+	6	790	c.721C>T	c.(721-723)CGC>TGC	p.R241C	DAB2IP_uc004blo.2_Missense_Mutation_p.R145C	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	269	C2.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						GCCGCCTCTGCGCACGGTCAC	0.602													16	41					0	0	0.002299	0	0		T	124522353	T	T	124522353	3	4	4	1	0	0	0	0	1	0	0	0	4222	768	27	1	743	1	DAB2IP	9	124522353	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	457981	124522353	16691078	2245	4211											
DAB2IP	153090	broad.mit.edu	37	chr9	124528868	124528868	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtgagcggctcatcagcgCctccctcttcctgcgcttcc	4	10	9	18	3	3	1	2	1	1	0	6	1	6	1	4	1	3	2	4	1	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:124528868C>T	uc004bln.2	+	9	1541	c.1472C>T	c.(1471-1473)GCC>GTC	p.A491V	DAB2IP_uc004blo.2_Missense_Mutation_p.A395V|DAB2IP_uc004blp.2_5'Flank	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	519	Ras-GAP.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						CTCATCAGCGCCTCCCTCTTC	0.632													6	30					0	0	0.004482	0	0		T	124528868	T	T	124528868	3	4	4	1	0	0	0	0	1	0	0	0	4222	739	26	2	1506	2	DAB2IP	9	124528868	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6515	124528868	16684563	2246	4212											
LHX6	26468	broad.mit.edu	37	chr9	124975917	124975917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcagggtgaccatgcgcGcccgctcggggctgctgaac	5	6	16	14	5	0	2	0	2	0	0	1	2	0	2	2	3	4	4	2	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:124975917G>A	uc010mvw.2	-	7	1044	c.935C>T	c.(934-936)GCG>GTG	p.A312V	LHX6_uc004blx.3_Missense_Mutation_p.A341V|LHX6_uc004bly.3_Missense_Mutation_p.A341V	NM_014368	NP_055183	Q9UPM6	LHX6_HUMAN	LIM homeobox protein 6 isoform 1	312					cell maturation|cerebral cortex GABAergic interneuron migration|cerebral cortex radially oriented cell migration|cerebral cortex tangential migration	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GACCATGCGCGCCCGCTCGGG	0.736													4	12					0	0	0.009096	0	0		A	124975917	A	A	124975917	3	1	4	1	0	0	0	0	1	0	0	0	8791	1087	38	1	227	1	LHX6	9	124975917	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	447049	124975917	16237514	2247	4213											
PTGS1	5742	broad.mit.edu	37	chr9	125140215	125140215	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatccatgccagcaccagggCatctgtgtccgcttcggcct	6	10	10	15	2	1	0	0	0	1	0	4	0	3	0	5	2	2	3	5	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:125140215C>A	uc004bmg.1	+	3	267	c.132C>A	c.(130-132)GGC>GGA	p.G44G	PTGS1_uc011lys.1_Silent_p.G19G|PTGS1_uc010mwb.1_5'UTR|PTGS1_uc004bmf.1_Silent_p.G44G|PTGS1_uc004bmh.1_5'UTR|PTGS1_uc011lyt.1_5'UTR	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	44	EGF-like.				cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	AGCACCAGGGCATCTGTGTCC	0.607													9	47					7.03913e-09	7.54027e-09	0.001368	1	0		A	125140215	A	A	125140215	2	1	4	1	0	0	0	0	0	0	0	1	12778	697	25	5		5	PTGS1	9	125140215	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	164298	125140215	16073216	2248	4214											
PTGS1	5742	broad.mit.edu	37	chr9	125143979	125143979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttatggagacaatctggagCgtcagtatcaactgcggctc	10	11	11	9	2	3	1	2	0	1	1	4	3	3	2	0	3	3	2	0	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:125143979C>T	uc004bmg.1	+	7	850	c.715C>T	c.(715-717)CGT>TGT	p.R239C	PTGS1_uc011lys.1_Missense_Mutation_p.R214C|PTGS1_uc010mwb.1_Missense_Mutation_p.R130C|PTGS1_uc004bmf.1_Missense_Mutation_p.R239C|PTGS1_uc004bmh.1_Missense_Mutation_p.R130C|PTGS1_uc011lyt.1_Missense_Mutation_p.R130C	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	239					cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	CAATCTGGAGCGTCAGTATCA	0.587													14	29					0	0	0.00499	0	0		T	125143979	T	T	125143979	3	4	4	1	0	0	0	0	1	0	0	0	12778	768	27	1	741	1	PTGS1	9	125143979	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3764	125143979	16069452	2249	4215											
OR1L1	26737	broad.mit.edu	37	chr9	125424697	125424697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccttcagctgctggaaagCgtaaagcattttctacctgt	9	14	8	10	1	2	0	1	0	1	0	3	1	3	1	2	1	5	4	2	1	4	6	rs78370954		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:125424697C>T	uc011lza.1	+	1	853	c.853C>T	c.(853-855)CGT>TGT	p.R285C		NM_001005236	NP_001005236	Q8NH94	OR1L1_HUMAN	olfactory receptor, family 1, subfamily L,	285	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						TGCTGGAAAGCGTAAAGCATT	0.428													15	151					0	0	0.003163	0	0		T	125424697	T	T	125424697	3	4	4	1	0	0	0	0	1	0	0	0	10982	768	27	1	705	1	OR1L1	9	125424697	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	280718	125424697	15788734	2250	4216											
ZBTB26	57684	broad.mit.edu	37	chr9	125681251	125681251	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactggaaaggtttaattccGgcatgcacacgcatgtgtcg	10	10	11	10	3	0	0	0	0	0	0	2	1	1	1	1	3	1	4	1	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:125681251G>A	uc004bnj.2	-	2	1175	c.963C>T	c.(961-963)GCC>GCT	p.A321A	ZBTB26_uc004bnk.2_Silent_p.A321A	NM_020924	NP_065975	Q9HCK0	ZBT26_HUMAN	zinc finger and BTB domain containing 26	321					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTTAATTCCGGCATGCACAC	0.428													22	65					0	0	0.00278	0	0		A	125681251	A	A	125681251	2	1	4	1	0	0	0	0	0	0	0	1	17558	1103	39	1		1	ZBTB26	9	125681251	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	256554	125681251	15532180	2251	4217											
STRBP	55342	broad.mit.edu	37	chr9	125898431	125898431	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttcttatttggacctgcGcctctgaatttctgtccatc	6	17	6	12	1	3	1	0	1	3	0	5	2	4	2	3	1	1	0	3	1	2	4	rs141839908		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:125898431G>A	uc004bns.2	-	16	2092	c.1662C>T	c.(1660-1662)GGC>GGT	p.G554G	STRBP_uc004bnt.2_Silent_p.G372G|STRBP_uc004bnu.2_Silent_p.G540G|STRBP_uc004bnv.2_Silent_p.G554G|STRBP_uc004bnr.2_Silent_p.G113G	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	554	DRBM 2.				multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2						TTGGACCTGCGCCTCTGAATT	0.388													24	80					0	0	0.005443	0	0		A	125898431	A	A	125898431	2	1	4	1	0	0	0	0	0	0	0	1	15352	1074	38	1		1	STRBP	9	125898431	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	217180	125898431	15315000	2252	4218											
STRBP	55342	broad.mit.edu	37	chr9	125941475	125941475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtttcaccataacatggCgatcatcattagcaaaagat	16	11	6	8	1	3	1	3	0	0	1	3	2	3	1	1	1	2	2	1	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:125941475C>T	uc004bns.2	-	4	465	c.35G>A	c.(34-36)CGC>CAC	p.R12H	STRBP_uc004bnt.2_5'UTR|STRBP_uc004bnu.2_5'UTR|STRBP_uc004bnv.2_Missense_Mutation_p.R12H	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	12					multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2						CATAACATGGCGATCATCATT	0.358													13	54					0	0	0.003163	0	0		T	125941475	T	T	125941475	3	4	4	1	0	0	0	0	1	0	0	0	15352	768	27	1	2047	1	STRBP	9	125941475	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	43044	125941475	15271956	2253	4219											
CRB2	286204	broad.mit.edu	37	chr9	126132504	126132504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagagacctggggtgggcGcgactgttctgtgcagctca	6	8	15	12	2	2	1	1	0	1	1	2	3	2	1	2	3	2	3	2	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:126132504G>A	uc004bnx.1	+	7	1264	c.1172G>A	c.(1171-1173)CGC>CAC	p.R391H	CRB2_uc004bnw.1_Missense_Mutation_p.R391H	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	391	Extracellular (Potential).|EGF-like 8; calcium-binding (Potential).					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						TGGGGTGGGCGCGACTGTTCT	0.627													5	13					0	0	0.000602	0	0		A	126132504	A	A	126132504	3	1	4	1	0	0	0	0	1	0	0	0	3852	1087	38	1	1198	1	CRB2	9	126132504	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	191029	126132504	15080927	2254	4220											
CRB2	286204	broad.mit.edu	37	chr9	126132729	126132729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtctggcactgaggtttcGcaccacactgcccgctggga	6	8	14	13	2	1	1	0	1	1	0	2	2	1	2	2	4	1	4	2	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:126132729G>A	uc004bnx.1	+	7	1489	c.1397G>A	c.(1396-1398)CGC>CAC	p.R466H	CRB2_uc004bnw.1_Missense_Mutation_p.R466H	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	466	Extracellular (Potential).|Laminin G-like 1.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						CTGAGGTTTCGCACCACACTG	0.612													8	22					0	0	0.00308	0	0		A	126132729	A	A	126132729	3	1	4	1	0	0	0	0	1	0	0	0	3852	1087	38	1	1423	1	CRB2	9	126132729	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	225	126132729	15080702	2255	4221											
CRB2	286204	broad.mit.edu	37	chr9	126133829	126133829	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtcctggaacctcactgCgggctgcgtctccgaggaca	7	7	13	14	3	2	0	1	0	1	0	4	3	3	2	3	3	3	2	3	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:126133829C>T	uc004bnx.1	+	8	2500	c.2408C>T	c.(2407-2409)GCG>GTG	p.A803V	CRB2_uc004bnw.1_Missense_Mutation_p.A803V	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	803	Extracellular (Potential).|Laminin G-like 2.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						AACCTCACTGCGGGCTGCGTC	0.632													5	11					0	0	0.001168	0	0		T	126133829	T	T	126133829	3	4	4	1	0	0	0	0	1	0	0	0	3852	768	27	1	2438	1	CRB2	9	126133829	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1100	126133829	15079602	2256	4222											
LHX2	9355	broad.mit.edu	37	chr9	126777465	126777465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcctcggagatggtgatgCgcgctcgggacttggtttat	5	11	16	9	5	0	2	0	1	0	1	2	4	0	3	1	5	1	2	1	5	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:126777465C>T	uc004boe.1	+	3	1127	c.388C>T	c.(388-390)CGC>TGC	p.R130C	LHX2_uc010mwi.1_Missense_Mutation_p.R138C	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	130	LIM zinc-binding 2.					nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GATGGTGATGCGCGCTCGGGA	0.622													31	85					0	0	0.003755	0	0		T	126777465	T	T	126777465	3	4	4	1	0	0	0	0	1	0	0	0	8787	768	27	1	398	1	LHX2	9	126777465	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	643636	126777465	14435966	2257	4223											
OLFML2A	169611	broad.mit.edu	37	chr9	127572560	127572560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacgcacacgggcaccgacGcacgcccccagctgccgttc	8	3	10	20	6	0	0	0	0	0	0	1	1	0	0	4	1	2	5	4	1	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:127572560G>A	uc004bov.2	+	8	1941	c.1828G>A	c.(1828-1830)GCA>ACA	p.A610T	OLFML2A_uc004bow.2_Missense_Mutation_p.A396T	NM_182487	NP_872293	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A precursor	610	Olfactomedin-like.										0						GGGCACCGACGCACGCCCCCA	0.632													6	23					0	0	0.001168	0	0		A	127572560	A	A	127572560	3	1	4	1	0	0	0	0	1	0	0	0	10876	1087	38	1	1858	1	OLFML2A	9	127572560	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	795095	127572560	13640871	2258	4224											
MAPKAP1	79109	broad.mit.edu	37	chr9	128434766	128434766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacatcatgatcaatgagaaCcatctcacacattcccgtgt	14	10	5	12	1	3	2	3	2	1	1	5	3	4	2	2	0	2	0	2	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:128434766C>T	uc004bpv.2	-	2	421	c.88G>A	c.(88-90)GTT>ATT	p.V30I	MAPKAP1_uc004bpw.2_Intron|MAPKAP1_uc004bpx.2_Intron|MAPKAP1_uc004bpy.2_Missense_Mutation_p.V30I|MAPKAP1_uc004bpz.2_Missense_Mutation_p.V30I|MAPKAP1_uc010mxa.2_RNA|MAPKAP1_uc004bqa.2_Missense_Mutation_p.V30I	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	30	Interaction with MAP3K2.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4						TCAATGAGAACCATCTCACAC	0.468													24	46					0	0	0.003954	0	0		T	128434766	T	T	128434766	3	4	4	1	0	0	0	0	1	0	0	0	9306	507	18	4	1542	4	MAPKAP1	9	128434766	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	862206	128434766	12778665	2259	4225											
STXBP1	6812	broad.mit.edu	37	chr9	130430453	130430453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgcgccacaagcacatcGcagaggtgtcccagtaagag	12	5	11	13	2	0	2	0	0	0	2	2	2	1	2	2	1	2	3	2	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:130430453G>A	uc004brl.2	+	10	1086	c.889G>A	c.(889-891)GCA>ACA	p.A297T	STXBP1_uc004brk.2_Missense_Mutation_p.A297T	NM_001032221	NP_001027392	P61764	STXB1_HUMAN	syntaxin binding protein 1 isoform b	297					axon target recognition|energy reserve metabolic process|glutamate secretion|negative regulation of synaptic transmission, GABAergic|neurotransmitter secretion|platelet aggregation|platelet degranulation|protein transport|regulation of insulin secretion|regulation of synaptic vesicle priming|synaptic vesicle maturation|vesicle docking involved in exocytosis	cytosol|mitochondrion|plasma membrane|platelet alpha granule|protein complex	identical protein binding|syntaxin-1 binding|syntaxin-2 binding			skin(1)	1						CAAGCACATCGCAGAGGTGTC	0.632													6	22					0	0	0.001168	0	0		A	130430453	A	A	130430453	3	1	4	1	0	0	0	0	1	0	0	0	15377	1087	38	1	927	1	STXBP1	9	130430453	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1995687	130430453	10782978	2260	4226											
ODF2	4957	broad.mit.edu	37	chr9	131262457	131262457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcctcaaatcatcatacGccaacgtgtttggggatggt	10	12	10	9	2	3	0	3	0	0	0	4	1	4	1	2	3	2	2	2	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131262457G>A	uc011mbd.1	+	21	2724	c.2413G>A	c.(2413-2415)GCC>ACC	p.A805T	ODF2_uc004bvb.2_Missense_Mutation_p.A781T|ODF2_uc011mbe.1_Missense_Mutation_p.A800T|ODF2_uc004bvc.2_Missense_Mutation_p.A781T|ODF2_uc004bvd.3_Missense_Mutation_p.A805T|ODF2_uc004bvh.2_Missense_Mutation_p.A211T	NM_002540	NP_002531	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2 isoform 1	805					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centriole|cilium|cytosol|microtubule|spindle pole	protein binding|structural molecule activity			ovary(1)	1						ATCATCATACGCCAACGTGTT	0.577													38	97					0	0	0.00623	0	0		A	131262457	A	A	131262457	3	1	4	1	0	0	0	0	1	0	0	0	10846	1087	38	1	2609	1	ODF2	9	131262457	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	832004	131262457	9950974	2261	4227											
PKN3	29941	broad.mit.edu	37	chr9	131475831	131475831	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggcggcagctatgtggCgtggccttcctgagacttga	6	10	15	10	2	0	2	0	2	0	1	1	4	1	2	2	4	1	2	2	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131475831C>T	uc004bvw.2	+	9	1539	c.1146C>T	c.(1144-1146)GGC>GGT	p.G382G	PKN3_uc010myh.2_Silent_p.G382G|PKN3_uc011mbk.1_5'UTR	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	382					signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4						AGCTATGTGGCGTGGCCTTCC	0.622													8	25					0	0	0.004482	0	0		T	131475831	T	T	131475831	2	4	4	1	0	0	0	0	0	0	0	1	12000	755	27	1		1	PKN3	9	131475831	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	213374	131475831	9737600	2262	4228											
PKN3	29941	broad.mit.edu	37	chr9	131476578	131476578	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctccccgagcacaatcaGcccccctaaaggatgccctc	10	5	7	19	1	1	0	1	0	0	0	3	2	2	1	6	1	4	2	6	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131476578G>C	uc004bvw.2	+	11	1808	c.1415G>C	c.(1414-1416)AGC>ACC	p.S472T	PKN3_uc010myh.2_Missense_Mutation_p.S472T|PKN3_uc011mbk.1_Missense_Mutation_p.S22T	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	472	Pro-rich.				signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4						AGCACAATCAGCCCCCCTAAA	0.652													15	57					0	0	0.00499	0	0		C	131476578	C	C	131476578	3	2	4	1	0	0	0	0	1	0	0	0	12000	971	34	5	1457	5	PKN3	9	131476578	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	747	131476578	9736853	2263	4229											
TBC1D13	54662	broad.mit.edu	37	chr9	131568288	131568288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctcctcgtctgctgcGccatgctcatgtgagtgcgg	3	12	11	15	3	2	1	1	1	1	0	6	1	5	1	4	1	4	2	4	1	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131568288G>A	uc010myj.2	+	10	1192	c.1069G>A	c.(1069-1071)GCC>ACC	p.A357T	TBC1D13_uc010myk.2_Missense_Mutation_p.A232T|TBC1D13_uc010myl.2_Missense_Mutation_p.A176T	NM_018201	NP_060671	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	357						intracellular	Rab GTPase activator activity				0						CGTCTGCTGCGCCATGCTCAT	0.622													9	32					0	0	0.000978	0	0		A	131568288	A	A	131568288	3	1	4	1	0	0	0	0	1	0	0	0	15627	1087	38	1	1107	1	TBC1D13	9	131568288	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	91710	131568288	9645143	2264	4230											
LRRC8A	56262	broad.mit.edu	37	chr9	131671260	131671260	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctgtgacctggagcgcaTcccccactccatcttcagcc	6	8	8	19	2	2	1	1	1	1	0	4	2	4	2	6	1	2	2	6	1	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131671260T>A	uc004bwl.3	+	3	2071	c.1817T>A	c.(1816-1818)ATC>AAC	p.I606N	LRRC8A_uc010myp.2_Missense_Mutation_p.I606N|LRRC8A_uc010myq.2_Missense_Mutation_p.I606N	NM_019594	NP_062540	Q8IWT6	LRC8A_HUMAN	leucine rich repeat containing 8 family, member	606	LRR 10.				pre-B cell differentiation	integral to membrane					0						CTGGAGCGCATCCCCCACTCC	0.552													12	40					0	0	0.001855	0	0		A	131671260	A	A	131671260	3	1	4	1	0	0	0	0	1	0	0	0	9039	1435	50	5	1819	5	LRRC8A	9	131671260	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	102972	131671260	9542171	2265	4231											
NUP188	23511	broad.mit.edu	37	chr9	131760467	131760467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgactctgtggtgcgtcGccagctctttcttgacgtgc	4	13	12	12	3	3	2	0	2	3	0	4	3	3	2	1	1	3	1	1	1	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131760467G>A	uc004bws.1	+	31	3411	c.3389G>A	c.(3388-3390)CGC>CAC	p.R1130H	NUP188_uc004bwu.2_Missense_Mutation_p.R473H	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1130					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						GTGGTGCGTCGCCAGCTCTTT	0.438													77	167					0	0	0.00361	0	0		A	131760467	A	A	131760467	3	1	4	1	0	0	0	0	1	0	0	0	10777	1087	38	1	3511	1	NUP188	9	131760467	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	89207	131760467	9452964	2266	4232											
SH3GLB2	56904	broad.mit.edu	37	chr9	131777084	131777084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtccccctccaggaagttgCgcaagggtgtgaggaagctg	9	7	15	10	1	0	1	0	1	0	0	2	3	2	3	3	3	2	3	3	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131777084C>T	uc004bwv.2	-	4	580	c.434G>A	c.(433-435)CGC>CAC	p.R145H	SH3GLB2_uc004bww.2_Missense_Mutation_p.R145H|SH3GLB2_uc004bwx.1_Missense_Mutation_p.R145H|SH3GLB2_uc011mbm.1_Missense_Mutation_p.R145H	NM_020145	NP_064530	Q9NR46	SHLB2_HUMAN	SH3-domain GRB2-like endophilin B2	145	BAR.				filopodium assembly|signal transduction	cytoplasm|nucleus	cytoskeletal adaptor activity|SH3 domain binding				0						CAGGAAGTTGCGCAAGGGTGT	0.572													11	58					0	0	0.000978	0	0		T	131777084	T	T	131777084	3	4	4	1	0	0	0	0	1	0	0	0	14279	768	27	1	785	1	SH3GLB2	9	131777084	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	16617	131777084	9436347	2267	4233											
USP20	10868	broad.mit.edu	37	chr9	132636952	132636952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgaggggctcgacctgcGccccttccttgccaaggagt	5	8	12	16	3	0	0	0	0	0	0	3	3	1	1	6	3	2	1	6	3	1	2	rs142714756	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:132636952G>A	uc004bys.2	+	18	2049	c.1838G>A	c.(1837-1839)CGC>CAC	p.R613H	USP20_uc004byr.2_Missense_Mutation_p.R613H|USP20_uc004byt.1_Missense_Mutation_p.R613H	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	613					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				CTCGACCTGCGCCCCTTCCTT	0.592													7	46					0	0	0.001984	0	0		A	132636952	A	A	132636952	3	1	4	1	0	0	0	0	1	0	0	0	17078	1087	38	1	1900	1	USP20	9	132636952	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	859868	132636952	8576479	2268	4234											
ASS1	445	broad.mit.edu	37	chr9	133339508	133339508	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcattgcaggggaacgatcAggtccggtttgagctcagct	8	10	14	9	2	2	1	2	1	0	0	3	3	3	2	1	4	5	5	1	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:133339508A>G	uc004bzm.2	+	6	730	c.374A>G	c.(373-375)CAG>CGG	p.Q125R	ASS1_uc004bzn.2_Missense_Mutation_p.Q125R|ASS1_uc010mza.2_Missense_Mutation_p.Q201R|ASS1_uc004bzo.2_Intron|ASS1_uc010mzb.2_Missense_Mutation_p.Q163R|ASS1_uc004bzp.2_Missense_Mutation_p.Q125R|ASS1_uc010mzc.2_Missense_Mutation_p.Q125R	NM_000050	NP_000041	P00966	ASSY_HUMAN	argininosuccinate synthetase 1	125					arginine biosynthetic process|urea cycle	cytosol	argininosuccinate synthase activity|ATP binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000514)	Adenosine triphosphate(DB00171)|L-Arginine(DB00125)|L-Aspartic Acid(DB00128)|L-Citrulline(DB00155)	GGGAACGATCAGGTCCGGTTT	0.602													6	23					0	0	0.001168	0	0		G	133339508	G	G	133339508	3	3	4	1	0	0	0	0	1	0	0	0	1062	188	7	3	388	3	ASS1	9	133339508	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	702556	133339508	7873923	2269	4235											
ABL1	25	broad.mit.edu	37	chr9	133738377	133738377	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacggggaggtgtacgagggCgtgtggaagaaatacagcct	11	7	17	6	3	0	1	0	0	0	1	0	4	0	3	1	5	4	1	1	5	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:133738377C>T	uc004bzw.2	+	4	780	c.777C>T	c.(775-777)GGC>GGT	p.G259G	ABL1_uc004bzv.2_Silent_p.G278G|uc004bzx.1_5'Flank	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	259	Protein kinase.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	TGTACGAGGGCGTGTGGAAGA	0.627			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								13	29					0	0	0.00245	0	0		T	133738377	T	T	133738377	2	4	4	1	0	0	0	0	0	0	0	1	92	755	27	1		1	ABL1	9	133738377	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	398869	133738377	7475054	2270	4236											
ABL1	25	broad.mit.edu	37	chr9	133759406	133759406	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattgctccctcgaaaagagCgaggtcccccggagggcggc	8	5	14	14	4	0	1	0	0	0	1	3	4	2	2	3	4	2	1	3	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:133759406C>T	uc004bzw.2	+	11	1732	c.1729C>T	c.(1729-1731)CGA>TGA	p.R577*	ABL1_uc004bzv.2_Nonsense_Mutation_p.R596*	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	577					actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	TCGAAAAGAGCGAGGTCCCCC	0.478			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								27	71					0	0	0.009535	0	0		T	133759406	T	T	133759406	4	4	4	1	0	0	0	0	0	1	0	0	92	760	27	1	1911	1	ABL1	9	133759406	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	21029	133759406	7454025	2271	4237											
ABL1	25	broad.mit.edu	37	chr9	133760767	133760767	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggcgccatcaccaagggCgtggtcctggacagcaccga	9	4	14	14	4	1	0	1	0	0	0	2	2	2	1	4	4	2	1	4	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:133760767C>T	uc004bzw.2	+	11	3093	c.3090C>T	c.(3088-3090)GGC>GGT	p.G1030G	ABL1_uc004bzv.2_Silent_p.G1049G	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	1030	F-actin-binding.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	TCACCAAGGGCGTGGTCCTGG	0.632			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								12	29					0	0	0.00245	0	0		T	133760767	T	T	133760767	2	4	4	1	0	0	0	0	0	0	0	1	92	755	27	1		1	ABL1	9	133760767	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1361	133760767	7452664	2272	4238											
LAMC3	10319	broad.mit.edu	37	chr9	133946996	133946996	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggggggacgtctaccagggCcatcacctgcttccaggtac	8	7	13	13	1	2	0	1	0	1	0	3	1	3	1	4	5	3	2	4	5	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:133946996C>T	uc004caa.1	+	18	3293	c.3195C>T	c.(3193-3195)GGC>GGT	p.G1065G		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	1065	Domain II and I.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		TCTACCAGGGCCATCACCTGC	0.657													9	14					0	0	0.008291	0	0		T	133946996	T	T	133946996	2	4	4	1	0	0	0	0	0	0	0	1	8632	726	26	2		2	LAMC3	9	133946996	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	186229	133946996	7266435	2273	4239											
NUP214	8021	broad.mit.edu	37	chr9	134002952	134002952	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaggtgagaatctttgaCtcccctgaggaattgcccaa	13	9	10	9	0	1	4	0	3	1	2	2	6	2	5	3	2	1	0	3	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:134002952C>A	uc004cag.2	+	2	198	c.87C>A	c.(85-87)GAC>GAA	p.D29E	NUP214_uc004cah.2_Missense_Mutation_p.D29E|NUP214_uc004caf.1_Missense_Mutation_p.D29E	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	29					carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		GAATCTTTGACTCCCCTGAGG	0.418			T	DEK|SET|ABL1	AML|T-ALL								31	101					3.76114e-14	4.08591e-14	0.004289	1	0		A	134002952	A	A	134002952	3	1	4	1	0	0	0	0	1	0	0	0	10781	564	20	5	93	5	NUP214	9	134002952	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	55956	134002952	7210479	2274	4240											
NUP214	8021	broad.mit.edu	37	chr9	134004682	134004682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggctaaacagcaaaaacGcccatttgcctatcataagc	17	7	6	11	1	1	0	1	0	0	0	1	0	1	0	2	1	5	2	2	1	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:134004682G>A	uc004cag.2	+	4	521	c.410G>A	c.(409-411)CGC>CAC	p.R137H	NUP214_uc004cah.2_Missense_Mutation_p.R137H|NUP214_uc004caf.1_Missense_Mutation_p.R137H	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	137					carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		CAGCAAAAACGCCCATTTGCC	0.368			T	DEK|SET|ABL1	AML|T-ALL								22	59					0	0	0.00333	0	0		A	134004682	A	A	134004682	3	1	4	1	0	0	0	0	1	0	0	0	10781	1087	38	1	424	1	NUP214	9	134004682	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1730	134004682	7208749	2275	4241											
NUP214	8021	broad.mit.edu	37	chr9	134019919	134019919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaagcagccccaggccctgGcccatcaaccttctcttttg	8	9	7	17	0	2	0	1	0	1	0	3	0	2	0	5	2	3	1	5	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:134019919G>A	uc004cag.2	+	12	1658	c.1547G>A	c.(1546-1548)GGC>GAC	p.G516D	NUP214_uc004cah.2_Missense_Mutation_p.G516D|NUP214_uc004cai.2_5'UTR|NUP214_uc004caf.1_Missense_Mutation_p.G516D|NUP214_uc010mzf.2_5'UTR	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	516	11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		CCAGGCCCTGGCCCATCAACC	0.562			T	DEK|SET|ABL1	AML|T-ALL								6	85					0	0	0.001168	0	0		A	134019919	A	A	134019919	3	1	4	1	0	0	0	0	1	0	0	0	10781	1203	42	2	1593	2	NUP214	9	134019919	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	15237	134019919	7193512	2276	4242											
BAT2L1	84726	broad.mit.edu	37	chr9	134330540	134330540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaagaagttgtgaaggacGgcaggccaaagtggtaagga	15	5	17	4	1	0	2	0	1	0	1	0	5	0	5	1	6	0	3	1	6	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:134330540G>A	uc004can.3	+	9	1253	c.1198G>A	c.(1198-1200)GGC>AGC	p.G400S	BAT2L1_uc010mzj.1_5'UTR	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	400							protein binding				0						TGTGAAGGACGGCAGGCCAAA	0.507													6	35					0	0	0.00308	0	0		A	134330540	A	A	134330540	3	1	4	1	0	0	0	0	1	0	0	0	1321	1116	39	1	1232	1	BAT2L1	9	134330540	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	310621	134330540	6882891	2277	4243											
BAT2L1	84726	broad.mit.edu	37	chr9	134351424	134351424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcccttcaggagaaggcGccccccacgccaagataagc	10	3	11	17	3	1	2	1	0	0	2	1	3	1	2	6	3	1	0	6	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:134351424G>A	uc004can.3	+	15	3963	c.3908G>A	c.(3907-3909)CGC>CAC	p.R1303H	BAT2L1_uc010mzj.1_Missense_Mutation_p.R886H|BAT2L1_uc004cao.3_Missense_Mutation_p.R661H	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1303							protein binding				0						AGGAGAAGGCGCCCCCCACGC	0.637											OREG0019561	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	29					0	0	0.008361	0	0		A	134351424	A	A	134351424	3	1	4	1	0	0	0	0	1	0	0	0	1321	1087	38	1	3966	1	BAT2L1	9	134351424	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	20884	134351424	6862007	2278	4244											
NTNG2	84628	broad.mit.edu	37	chr9	135114555	135114555	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctgaatgtggtgacctgCgtcagctgcaagcacaacac	10	9	10	12	1	1	2	1	2	0	0	2	2	2	2	2	1	5	3	2	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135114555C>T	uc004cbh.2	+	6	1895	c.1119C>T	c.(1117-1119)TGC>TGT	p.C373C		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	373	Laminin EGF-like 2.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		TGGTGACCTGCGTCAGCTGCA	0.587													12	27					0	0	0.00245	0	0		T	135114555	T	T	135114555	2	4	4	1	0	0	0	0	0	0	0	1	10724	776	27	1		1	NTNG2	9	135114555	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	763131	135114555	6098876	2279	4245											
SETX	23064	broad.mit.edu	37	chr9	135203175	135203175	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgacgaaatttctttggCggcactatagcaggagttgt	10	12	11	8	2	1	1	0	1	1	0	1	3	1	2	0	3	1	3	0	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135203175C>T	uc004cbk.2	-	10	3993	c.3810G>A	c.(3808-3810)CCG>CCA	p.P1270P	SETX_uc004cbj.2_Silent_p.P889P|SETX_uc010mzt.2_Silent_p.P889P	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1270					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		ATTTCTTTGGCGGCACTATAG	0.433													11	183					0	0	0.000978	0	0		T	135203175	T	T	135203175	2	4	4	1	0	0	0	0	0	0	0	1	14166	755	27	1		1	SETX	9	135203175	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	88620	135203175	6010256	2280	4246											
TTF1	7270	broad.mit.edu	37	chr9	135275547	135275547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacggcagaacccaaatccGcatctgaatcatcggcatct	12	8	7	14	3	4	2	2	1	2	1	6	2	5	2	2	2	1	3	2	2	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135275547G>A	uc004cbl.2	-	3	1518	c.1466C>T	c.(1465-1467)GCG>GTG	p.A489V	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_5'UTR	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	489					negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		ACCCAAATCCGCATCTGAATC	0.463													33	126					0	0	0.002836	0	0		A	135275547	A	A	135275547	3	1	4	1	0	0	0	0	1	0	0	0	16744	1087	38	1	1287	1	TTF1	9	135275547	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	72372	135275547	5937884	2281	4247											
DDX31	64794	broad.mit.edu	37	chr9	135487616	135487616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctccctggggtaggtggCgtaggcttggatgaaggact	7	9	17	8	1	0	1	0	1	0	0	1	3	1	3	1	7	1	4	1	7	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135487616C>T	uc004cbq.1	-	19	2319	c.2167G>A	c.(2167-2169)GCC>ACC	p.A723T	DDX31_uc010mzu.1_Missense_Mutation_p.A650T	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	723						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		GGGTAGGTGGCGTAGGCTTGG	0.587													15	55					0	0	0.004007	0	0		T	135487616	T	T	135487616	3	4	4	1	0	0	0	0	1	0	0	0	4359	768	27	1	396	1	DDX31	9	135487616	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	212069	135487616	5725815	2282	4248											
TSC1	7248	broad.mit.edu	37	chr9	135797351	135797351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggacgagatagacttccGccacgtggcctagaaaagga	13	6	13	9	3	0	3	0	0	0	3	1	7	1	5	3	3	0	0	3	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135797351G>A	uc004cca.2	-	7	752	c.518C>T	c.(517-519)GCG>GTG	p.A173V	TSC1_uc004ccb.3_Missense_Mutation_p.A173V|TSC1_uc011mcq.1_Missense_Mutation_p.A122V|TSC1_uc011mcr.1_Missense_Mutation_p.A52V|TSC1_uc011mcs.1_Missense_Mutation_p.A52V|TSC1_uc004ccc.1_Missense_Mutation_p.A173V|TSC1_uc004ccd.2_Missense_Mutation_p.A173V|TSC1_uc004cce.1_Missense_Mutation_p.A173V	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	173					activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding			lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		ATAGACTTCCGCCACGTGGCC	0.488			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				29	106					0	0	0.002836	0	0		A	135797351	A	A	135797351	3	1	4	1	0	0	0	0	1	0	0	0	16631	1087	38	1	3044	1	TSC1	9	135797351	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	309735	135797351	5416080	2283	4249											
GTF3C5	9328	broad.mit.edu	37	chr9	135931464	135931464	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagatgttctaccagttatgCgacttgaatgtggaagagta	12	12	11	6	1	1	3	0	1	1	2	1	5	1	4	1	1	2	3	1	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135931464C>T	uc004cci.3	+	9	1570	c.1233C>T	c.(1231-1233)TGC>TGT	p.C411C	GTF3C5_uc004ccj.3_Silent_p.C418C	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	411						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		ACCAGTTATGCGACTTGAATG	0.572													4	25					0	0	0.009096	0	0		T	135931464	T	T	135931464	2	4	4	1	0	0	0	0	0	0	0	1	6892	776	27	1		1	GTF3C5	9	135931464	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	134113	135931464	5281967	2284	4250											
RALGDS	5900	broad.mit.edu	37	chr9	135982604	135982604	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtggcgcggatggtgggCgccaggtgctccttgccctt	4	9	16	12	3	0	0	0	0	0	0	1	1	1	1	3	5	2	1	3	5	0	2	rs139454388		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135982604C>T	uc004cco.2	-	7	1301	c.1281G>A	c.(1279-1281)GCG>GCA	p.A427A	RALGDS_uc004ccp.2_RNA|RALGDS_uc004ccq.2_Silent_p.A415A|RALGDS_uc004ccr.2_Silent_p.A426A|RALGDS_uc011mcv.1_Silent_p.A398A|RALGDS_uc004ccs.2_Silent_p.A372A|RALGDS_uc011mcw.1_Silent_p.A498A|RALGDS_uc004ccv.1_Silent_p.A196A|RALGDS_uc004ccu.1_Silent_p.A196A	NM_006266	NP_006257	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	427	Ras-GEF.				nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		GGATGGTGGGCGCCAGGTGCT	0.617			T	CIITA	PMBL|Hodgkin Lymphona|								4	15					0	0	0.009096	0	0		T	135982604	T	T	135982604	2	4	4	1	0	0	0	0	0	0	0	1	13041	755	27	1		1	RALGDS	9	135982604	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	51140	135982604	5230827	2285	4251											
C9orf96	169436	broad.mit.edu	37	chr9	136256456	136256456	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacccacctcttggtttcaGgaatctcaaaccctccaaca	13	9	4	15	0	3	0	2	0	2	0	5	1	4	1	4	2	3	1	4	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:136256456G>T	uc004cdk.2	+	7	529	c.468_splice	c.e7-1	p.R156_splice	C9orf96_uc004cdl.2_Intron	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436								ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		CTTGGTTTCAGGAATCTCAAA	0.542													22	258					1.36565e-18	1.49414e-18	0.00278	1	0		T	136256456	T	T	136256456	5	4	4	1	0	0	0	0	0	0	1	0	2511	1014	35	5	493	5	C9orf96	9	136256456	Splice_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	273852	136256456	4956975	2286	4252											
ADAMTS13	11093	broad.mit.edu	37	chr9	136319700	136319700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgtcccctgtctcattGccgactgcacctaccgctgg	5	10	9	17	2	1	0	1	0	1	0	3	1	2	0	6	1	3	2	6	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:136319700G>A	uc004cdv.3	+	24	3652	c.3208G>A	c.(3208-3210)GCC>ACC	p.A1070T	ADAMTS13_uc004cdp.3_Missense_Mutation_p.A297T|ADAMTS13_uc004cdt.1_Missense_Mutation_p.A1070T|ADAMTS13_uc004cdu.1_Missense_Mutation_p.A1039T|ADAMTS13_uc004cdw.3_Missense_Mutation_p.A1070T|ADAMTS13_uc004cdx.3_Missense_Mutation_p.A1039T|ADAMTS13_uc004cdz.3_Missense_Mutation_p.A740T|ADAMTS13_uc004cea.1_5'Flank|ADAMTS13_uc004ceb.3_5'Flank	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1070					cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		CTGTCTCATTGCCGACTGCAC	0.677													3	5					0	0	0.001984	0	0		A	136319700	A	A	136319700	3	1	4	1	0	0	0	0	1	0	0	0	258	1319	46	2	3302	2	ADAMTS13	9	136319700	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	63244	136319700	4893731	2287	4253											
DBH	1621	broad.mit.edu	37	chr9	136508675	136508675	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccgaccgcctcaactactgCcgccacgtgctggccgcctg	5	6	10	20	5	1	0	1	0	0	0	1	1	1	0	7	1	4	1	7	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:136508675C>T	uc004cel.2	+	4	894	c.885C>T	c.(883-885)TGC>TGT	p.C295C		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	295	Intragranular (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	TCAACTACTGCCGCCACGTGC	0.677													3	7					0	0	0.008291	0	0		T	136508675	T	T	136508675	2	4	4	1	0	0	0	0	0	0	0	1	4253	747	26	2		2	DBH	9	136508675	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	188975	136508675	4704756	2288	4254											
VAV2	7410	broad.mit.edu	37	chr9	136643996	136643996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgccatggtaattctgcatgGccaccatcttgggacctgca	8	11	10	12	0	2	0	0	0	2	0	2	1	2	1	4	3	3	3	4	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:136643996G>A	uc004ces.2	-	22	1824	c.1778C>T	c.(1777-1779)GCC>GTC	p.A593V	VAV2_uc004cer.2_Missense_Mutation_p.A583V|VAV2_uc004cet.1_Missense_Mutation_p.A132V	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	593	SH3 1.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		ATTCTGCATGGCCACCATCTT	0.627													16	18					0	0	0.007413	0	0		A	136643996	A	A	136643996	3	1	4	1	0	0	0	0	1	0	0	0	17158	1203	42	2	894	2	VAV2	9	136643996	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	135321	136643996	4569435	2289	4255											
VAV2	7410	broad.mit.edu	37	chr9	136677305	136677305	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctccatcctcacacgggacGcagtcgtagatgtcctcccc	7	8	8	18	3	1	1	1	0	0	1	6	2	5	2	6	1	0	2	6	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:136677305G>A	uc004ces.2	-	5	529	c.483C>T	c.(481-483)TGC>TGT	p.C161C	VAV2_uc004cer.2_Silent_p.C161C	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	161					angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		CACACGGGACGCAGTCGTAGA	0.667													16	54					0	0	0.007413	0	0		A	136677305	A	A	136677305	2	1	4	1	0	0	0	0	0	0	0	1	17158	1079	38	1		1	VAV2	9	136677305	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	33309	136677305	4536126	2290	4256											
BRD3	8019	broad.mit.edu	37	chr9	136913403	136913403	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgtgctggggcacctcGccgtcctccaggtccttctt	2	11	11	17	3	1	0	0	0	1	0	5	0	4	0	6	3	2	2	6	3	0	2	rs141698176	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:136913403G>A	uc004cew.2	-	6	1076	c.888C>T	c.(886-888)GGC>GGT	p.G296G	BRD3_uc004cex.2_Silent_p.G296G	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	296						nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		GGGGCACCTCGCCGTCCTCCA	0.662			T	NUT|C15orf55	lethal midline carcinoma of young people								5	21					0	0	0.001168	0	0		A	136913403	A	A	136913403	2	1	4	1	0	0	0	0	0	0	0	1	1506	1074	38	1		1	BRD3	9	136913403	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	236098	136913403	4300028	2291	4257											
RXRA	6256	broad.mit.edu	37	chr9	137300846	137300846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcttcaagcggacggtgcGcaaggacctgacctacacct	9	8	10	14	3	2	1	1	1	1	0	2	3	2	3	3	3	3	1	3	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:137300846G>A	uc004cfb.2	+	4	653	c.491G>A	c.(490-492)CGC>CAC	p.R164H	RXRA_uc004cfc.1_Missense_Mutation_p.R67H	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	164	Nuclear receptor.				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)	CGGACGGTGCGCAAGGACCTG	0.642													6	62					0	0	0.001984	0	0		A	137300846	A	A	137300846	3	1	4	1	0	0	0	0	1	0	0	0	13788	1087	38	1	505	1	RXRA	9	137300846	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	387443	137300846	3912585	2292	4258											
KIAA0649	9858	broad.mit.edu	37	chr9	138376878	138376878	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcagtagatgtaagccGgaaccggctcacggcagtgc	10	5	16	10	3	1	1	1	0	0	1	1	3	1	3	2	5	3	5	2	5	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:138376878G>A	uc004cfr.1	+	4	1071	c.522G>A	c.(520-522)CCG>CCA	p.P174P		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	174						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		GATGTAAGCCGGAACCGGCTC	0.687													4	7					0	0	0.009096	0	0		A	138376878	A	A	138376878	2	1	4	1	0	0	0	0	0	0	0	1	8203	1103	39	1		1	KIAA0649	9	138376878	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1076032	138376878	2836553	2293	4259											
KIAA0649	9858	broad.mit.edu	37	chr9	138379962	138379962	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccacggaggacagtggCggcagctcagtagtgaaggt	10	6	15	10	2	1	1	1	1	0	0	2	3	2	3	2	5	1	3	2	5	2	1	rs139604299	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:138379962C>T	uc004cfr.1	+	4	4155	c.3606C>T	c.(3604-3606)GGC>GGT	p.G1202G		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	1202						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		AGGACAGTGGCGGCAGCTCAG	0.612													5	13					0	0	0.001984	0	0		T	138379962	T	T	138379962	2	4	4	1	0	0	0	0	0	0	0	1	8203	755	27	1		1	KIAA0649	9	138379962	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3084	138379962	2833469	2294	4260											
LCN9	392399	broad.mit.edu	37	chr9	138557549	138557549	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagatttgaagaaacctgCgaaaagtacggacttggctc	14	8	11	8	2	0	3	0	1	0	2	1	5	0	4	1	2	4	3	1	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:138557549C>T	uc004cgk.1	+	5	426	c.426C>T	c.(424-426)TGC>TGT	p.C142C		NM_001001676	NP_001001676	Q8WX39	LCN9_HUMAN	lipocalin 9	142						extracellular region	pheromone binding|transporter activity			large_intestine(2)	2		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;3.43e-07)|Epithelial(140;1.97e-06)|all cancers(34;6.1e-05)		AAGAAACCTGCGAAAAGTACG	0.572													4	16					0	0	0.000602	0	0		T	138557549	T	T	138557549	2	4	4	1	0	0	0	0	0	0	0	1	8703	776	27	1		1	LCN9	9	138557549	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	177587	138557549	2655882	2295	4261											
CAMSAP1	157922	broad.mit.edu	37	chr9	138714394	138714394	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtcttcatcggccctgcCtacatgaaggaagaagccat	10	9	11	11	1	2	2	1	1	1	1	3	3	2	3	3	3	3	0	3	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:138714394C>G	uc004cgr.3	-	11	2113	c.2113G>C	c.(2113-2115)GGC>CGC	p.G705R	CAMSAP1_uc004cgq.3_Missense_Mutation_p.G595R|CAMSAP1_uc010nbg.2_Missense_Mutation_p.G427R	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	705						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		TCGGCCCTGCCTACATGAAGG	0.567													10	24					0	0	0.006214	0	0		G	138714394	G	G	138714394	3	3	4	1	0	0	0	0	1	0	0	0	2614	681	24	5	2723	5	CAMSAP1	9	138714394	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	156845	138714394	2499037	2296	4262											
QSOX2	169714	broad.mit.edu	37	chr9	139113754	139113754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagtgctcgggtcaccaCgatgctttcatacgggatca	8	10	11	12	3	3	0	3	0	0	0	5	2	4	1	2	2	3	2	2	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139113754C>T	uc010nbi.2	-	6	747	c.709G>A	c.(709-711)GTG>ATG	p.V237M		NM_181701	NP_859052	Q6ZRP7	QSOX2_HUMAN	quiescin Q6 sulfhydryl oxidase 2 precursor	237					cell redox homeostasis	extracellular region|integral to membrane|nuclear membrane|plasma membrane	thiol oxidase activity			ovary(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;7.78e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.55e-07)		CGGGTCACCACGATGCTTTCA	0.517													24	60					0	0	0.003954	0	0		T	139113754	T	T	139113754	3	4	4	1	0	0	0	0	1	0	0	0	12909	536	19	1	1415	1	QSOX2	9	139113754	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	399360	139113754	2099677	2297	4263											
SDCCAG3	10807	broad.mit.edu	37	chr9	139302298	139302298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctttgcataaattctgctggCcggatcctctttcgagaggc	7	13	10	11	2	2	1	0	0	2	1	4	3	3	2	2	3	2	2	2	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139302298C>T	uc004chi.2	-	4	587	c.382G>A	c.(382-384)GCC>ACC	p.A128T	SDCCAG3_uc004chj.2_Missense_Mutation_p.A105T|SDCCAG3_uc004chk.2_Missense_Mutation_p.A55T|PMPCA_uc011mdy.1_5'Flank|PMPCA_uc010nbk.2_5'Flank|PMPCA_uc004chl.2_5'Flank|PMPCA_uc010nbl.2_5'Flank|PMPCA_uc011mdz.1_5'Flank	NM_001039707	NP_001034796	Q96C92	SDCG3_HUMAN	serologically defined colon cancer antigen 3	128						cytoplasm					0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.18e-06)|Epithelial(140;9.31e-06)		ATTCTGCTGGCCGGATCCTCT	0.493													7	77					0	0	0.006214	0	0		T	139302298	T	T	139302298	3	4	4	1	0	0	0	0	1	0	0	0	13983	739	26	2	953	2	SDCCAG3	9	139302298	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	188544	139302298	1911133	2298	4264											
PMPCA	23203	broad.mit.edu	37	chr9	139311661	139311661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtacactggggggattGccaaggtgaagtagcgggaa	11	6	16	8	1	0	1	0	1	0	0	0	3	0	3	2	5	3	2	2	5	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139311661G>A	uc004chl.2	+	7	897	c.892G>A	c.(892-894)GCC>ACC	p.A298T	PMPCA_uc010nbl.2_Missense_Mutation_p.A198T|PMPCA_uc011mdz.1_Missense_Mutation_p.A167T|PMPCA_uc004chm.1_Missense_Mutation_p.A48T|PMPCA_uc004chn.1_5'Flank	NM_015160	NP_055975	Q10713	MPPA_HUMAN	peptidase (mitochondrial processing) alpha	298					proteolysis	mitochondrial inner membrane|mitochondrial matrix	metalloendopeptidase activity|zinc ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;9.3e-06)|Epithelial(140;1.15e-05)		TGGGGGGATTGCCAAGGTGAA	0.612													6	19					0	0	0.004482	0	0		A	139311661	A	A	139311661	3	1	4	1	0	0	0	0	1	0	0	0	12159	1319	46	2	918	2	PMPCA	9	139311661	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	9363	139311661	1901770	2299	4265											
SEC16A	9919	broad.mit.edu	37	chr9	139358156	139358156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggggtcccgggaacgcccGcatctcctcctgctcagacg	6	6	12	17	4	2	1	1	0	1	1	5	2	4	2	4	3	2	2	4	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139358156G>A	uc004chx.2	-	10	4792	c.4483C>T	c.(4483-4485)CGG>TGG	p.R1495W	SEC16A_uc004chv.3_Missense_Mutation_p.R885W|SEC16A_uc004chw.2_Missense_Mutation_p.R1495W|SEC16A_uc010nbn.2_Missense_Mutation_p.R1495W	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1317					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GGGAACGCCCGCATCTCCTCC	0.627													16	36					0	0	0.007413	0	0		A	139358156	A	A	139358156	3	1	4	1	0	0	0	0	1	0	0	0	14011	1086	38	1	2682	1	SEC16A	9	139358156	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	46495	139358156	1855275	2300	4266											
NOTCH1	4851	broad.mit.edu	37	chr9	139391176	139391176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccatgctgcagggagggggCctgtgtgctcagggggcctg	4	7	20	10	0	1	0	1	0	0	0	1	1	1	1	3	5	3	3	3	5	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139391176C>T	uc004chz.2	-	34	7015	c.7015G>A	c.(7015-7017)GCC>ACC	p.A2339T		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2339	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		AGGGAGGGGGCCTGTGTGCTC	0.667			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			5	11					0	0	0.001168	0	0		T	139391176	T	T	139391176	3	4	4	1	0	0	0	0	1	0	0	0	10566	739	26	2	656	2	NOTCH1	9	139391176	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	33020	139391176	1822255	2301	4267											
NOTCH1	4851	broad.mit.edu	37	chr9	139407576	139407576	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactcgttgatgttggtctgGcagttgggacctggagggaa	7	11	16	7	1	1	1	0	1	1	0	2	4	1	4	1	5	0	4	1	5	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139407576G>A	uc004chz.2	-	15	2364	c.2364C>T	c.(2362-2364)TGC>TGT	p.C788C	NOTCH1_uc004cia.1_Silent_p.C18C	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	788	Extracellular (Potential).|EGF-like 20.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		TGTTGGTCTGGCAGTTGGGAC	0.622			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			13	36					0	0	0.004007	0	0		A	139407576	A	A	139407576	2	1	4	1	0	0	0	0	0	0	0	1	10566	1195	42	2		2	NOTCH1	9	139407576	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	16400	139407576	1805855	2302	4268											
NOTCH1	4851	broad.mit.edu	37	chr9	139412321	139412321	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgggggcccgtgtagccctGcagacactggcactcgaagg	7	6	15	13	3	0	1	0	0	0	1	2	2	0	1	2	4	2	3	2	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139412321G>A	uc004chz.2	-	8	1324	c.1324C>T	c.(1324-1326)CAG>TAG	p.Q442*		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	442	Extracellular (Potential).|EGF-like 11; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GTGTAGCCCTGCAGACACTGG	0.652			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			8	15					0	0	0.000978	0	0		A	139412321	A	A	139412321	4	1	4	1	0	0	0	0	0	1	0	0	10566	1328	46	2	6451	2	NOTCH1	9	139412321	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4745	139412321	1801110	2303	4269											
PHPT1	29085	broad.mit.edu	37	chr9	139744537	139744537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagtgtctgggcggcgggcGcatctcccaccagagtcagg	6	7	16	12	3	3	2	1	1	2	1	4	2	3	2	2	4	0	1	2	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139744537G>A	uc004cjp.2	+	3	855	c.233G>A	c.(232-234)CGC>CAC	p.R78H	PHPT1_uc011mei.1_Missense_Mutation_p.R78H|PHPT1_uc004cjq.3_Missense_Mutation_p.R78H|MAMDC4_uc004cjs.2_5'Flank|MAMDC4_uc011mej.1_5'Flank	NM_014172	NP_054891	Q9NRX4	PHP14_HUMAN	phosphohistidine phosphatase 1 isoform 3	78				R->A: Decreased affinity for substrate and reduced catalytic activity.		cytosol	phosphohistidine phosphatase activity|phosphoprotein phosphatase activity				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		GGCGGCGGGCGCATCTCCCAC	0.637													7	28					0	0	0.006214	0	0		A	139744537	A	A	139744537	3	1	4	1	0	0	0	0	1	0	0	0	11879	1087	38	1	239	1	PHPT1	9	139744537	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	332216	139744537	1468894	2304	4270											
ABCA2	20	broad.mit.edu	37	chr9	139912013	139912013	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agccagatgatgaccacgtgGctgtgcataagcacctggcc	10	7	12	12	1	0	3	0	2	0	1	0	3	0	3	4	2	3	3	4	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139912013G>A	uc011mem.1	-	16	2488	c.2340C>T	c.(2338-2340)AGC>AGT	p.S780S	ABCA2_uc011mel.1_Silent_p.S781S|ABCA2_uc004ckl.1_Silent_p.S711S|ABCA2_uc004ckm.1_Silent_p.S811S|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	780					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		TGACCACGTGGCTGTGCATAA	0.612													12	22					0	0	0.00245	0	0		A	139912013	A	A	139912013	2	1	4	1	0	0	0	0	0	0	0	1	32	1194	42	2		2	ABCA2	9	139912013	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	167476	139912013	1301418	2305	4271											
MAN1B1	11253	broad.mit.edu	37	chr9	139996028	139996028	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtactggagttgcccacccGccacggtggacctccgacag	7	6	13	15	3	0	0	0	0	0	0	1	3	1	2	5	4	2	2	5	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139996028G>A	uc004cld.2	+	8	1193	c.1158G>A	c.(1156-1158)CCG>CCA	p.P386P	MAN1B1_uc004clc.2_Silent_p.P287P|MAN1B1_uc011meo.1_Silent_p.P287P|MAN1B1_uc011mep.1_Silent_p.P386P|MAN1B1_uc010ncc.2_RNA|MAN1B1_uc004clf.1_5'Flank	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	386	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		TTGCCCACCCGCCACGGTGGA	0.542													10	16					0	0	0.008291	0	0		A	139996028	A	A	139996028	2	1	4	1	0	0	0	0	0	0	0	1	9230	1074	38	1		1	MAN1B1	9	139996028	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	84015	139996028	1217403	2306	4272											
MAN1B1	11253	broad.mit.edu	37	chr9	140002935	140002935	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcttcttcctgggggagacGctcaagtatctgttcttgct	6	14	11	10	1	4	1	1	0	3	1	5	2	5	1	1	2	2	5	1	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:140002935G>A	uc004cld.2	+	13	2027	c.1992G>A	c.(1990-1992)ACG>ACA	p.T664T	MAN1B1_uc011mep.1_3'UTR|MAN1B1_uc010ncc.2_RNA|MAN1B1_uc004clf.1_Silent_p.T337T|MAN1B1_uc004clg.1_RNA	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	664	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		TGGGGGAGACGCTCAAGTATC	0.562													37	129					0	0	0.009718	0	0		A	140002935	A	A	140002935	2	1	4	1	0	0	0	0	0	0	0	1	9230	1074	38	1		1	MAN1B1	9	140002935	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6907	140002935	1210496	2307	4273											
ZMYND19	116225	broad.mit.edu	37	chr9	140481457	140481457	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcagccttgggccgccaGccccacggcaccagttgcag	6	7	11	17	2	2	0	1	0	1	0	2	0	2	0	6	2	3	3	6	2	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:140481457G>A	uc004cno.1	-	4	543	c.321C>T	c.(319-321)GGC>GGT	p.G107G		NM_138462	NP_612471	Q96E35	ZMY19_HUMAN	zinc finger, MYND domain containing 19	107						Golgi apparatus|plasma membrane	zinc ion binding			skin(1)	1	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000275)|Epithelial(140;0.00047)		TGGGCCGCCAGCCCCACGGCA	0.677													9	18					0	0	0.008291	0	0		A	140481457	A	A	140481457	2	1	4	1	0	0	0	0	0	0	0	1	17735	958	34	2		2	ZMYND19	9	140481457	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	478522	140481457	731974	2308	4274											
EHMT1	79813	broad.mit.edu	37	chr9	140672491	140672491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggagagcgctctcatcGccctcgactcggaaaagtaa	10	8	10	13	4	1	1	1	0	1	1	5	4	1	2	2	2	1	2	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:140672491G>A	uc011mfc.1	+	13	2213	c.2176G>A	c.(2176-2178)GCC>ACC	p.A726T	EHMT1_uc004coa.2_Missense_Mutation_p.A726T|EHMT1_uc004cob.1_Missense_Mutation_p.A695T	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	726					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		CGCTCTCATCGCCCTCGACTC	0.562													22	20					0	0	0.003954	0	0		A	140672491	A	A	140672491	3	1	4	1	0	0	0	0	1	0	0	0	4989	1087	38	1	2226	1	EHMT1	9	140672491	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	191034	140672491	540940	2309	4275											
DIP2C	22982	broad.mit.edu	37	chr10	430000	430000	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccgccactatcagcattcGcagagaggagaggttgatgt	10	9	13	9	2	1	3	1	1	0	2	3	5	2	3	2	2	1	3	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:430000G>A	uc001ifp.2	-	16	1933	c.1843C>T	c.(1843-1845)CGA>TGA	p.R615*	DIP2C_uc009xhj.1_Nonsense_Mutation_p.R311*	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	615						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		ATCAGCATTCGCAGAGAGGAG	0.483													14	41					0	0	0.003163	0	0		A	430000	A	A	430000	4	1	4	1	0	0	0	0	0	1	0	0	4535	1095	38	1	2915	1	DIP2C	10	430000	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08		430000	135104747	2310	4276											
GTPBP4	23560	broad.mit.edu	37	chr10	1043150	1043150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttgaacttttcctagtgCgtcagcatttatcccgtttg	8	17	7	9	2	1	1	1	1	0	0	3	1	3	1	2	0	3	2	2	0	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:1043150C>T	uc001ift.2	+	5	534	c.463C>T	c.(463-465)CGT>TGT	p.R155C	GTPBP4_uc010qac.1_5'UTR|GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Missense_Mutation_p.R39C|GTPBP4_uc010qae.1_Missense_Mutation_p.R108C	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	155					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		TTTCCTAGTGCGTCAGCATTT	0.383													60	172					0	0	0.00361	0	0		T	1043150	T	T	1043150	3	4	4	1	0	0	0	0	1	0	0	0	6898	768	27	1	481	1	GTPBP4	10	1043150	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	613150	1043150	134491597	2311	4277											
PFKP	5214	broad.mit.edu	37	chr10	3124630	3124630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcatgggtatctacgtggggGccaaggtgtacttcatctac	8	11	13	9	1	3	0	1	0	2	0	3	0	3	0	1	4	3	3	1	4	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:3124630G>A	uc001igp.2	+	2	199	c.163G>A	c.(163-165)GCC>ACC	p.A55T	PFKP_uc001igq.2_Missense_Mutation_p.G20D|PFKP_uc009xhr.2_Missense_Mutation_p.A17T	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	55					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		CTACGTGGGGGCCAAGGTGTA	0.488													10	47					0	0	0.008291	0	0		A	3124630	A	A	3124630	3	1	4	1	0	0	0	0	1	0	0	0	11785	1203	42	2	169	2	PFKP	10	3124630	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2081480	3124630	132410117	2312	4278											
PFKP	5214	broad.mit.edu	37	chr10	3154433	3154433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcaggatgtgcagaaggCgatggacgagaggagatttc	12	7	16	6	2	1	3	1	0	0	3	2	9	1	5	0	4	1	1	0	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:3154433C>T	uc001igp.2	+	11	1145	c.1109C>T	c.(1108-1110)GCG>GTG	p.A370V	PFKP_uc001igq.2_Missense_Mutation_p.A362V|PFKP_uc009xhr.2_Missense_Mutation_p.A332V|PFKP_uc009xhs.1_Missense_Mutation_p.A154V|PFKP_uc009xht.2_Missense_Mutation_p.A108V|PFKP_uc009xhu.2_5'Flank	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	370					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		GTGCAGAAGGCGATGGACGAG	0.522													6	83					0	0	0.001168	0	0		T	3154433	T	T	3154433	3	4	4	1	0	0	0	0	1	0	0	0	11785	768	27	1	1151	1	PFKP	10	3154433	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	29803	3154433	132380314	2313	4279											
TUBAL3	79861	broad.mit.edu	37	chr10	5435974	5435974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggctttgtcagcagagaCgatgggggcgaaggctgtca	9	8	17	7	2	2	1	2	0	0	1	2	4	2	1	0	4	1	4	0	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:5435974C>T	uc001ihy.2	-	4	887	c.847G>A	c.(847-849)GTC>ATC	p.V283I	TUBAL3_uc001ihz.2_Missense_Mutation_p.V243I	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	283					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						TCAGCAGAGACGATGGGGGCG	0.517													8	110					0	0	0.00308	0	0		T	5435974	T	T	5435974	3	4	4	1	0	0	0	0	1	0	0	0	16777	536	19	1	497	1	TUBAL3	10	5435974	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2281541	5435974	130098773	2314	4280											
C10orf18	54906	broad.mit.edu	37	chr10	5772453	5772453	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtatatattctaggggTgaaagatttgaaagttgaag	13	14	13	1	0	1	4	0	3	1	1	1	4	1	4	0	2	0	2	0	2	7	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:5772453T>C	uc001iij.2	+	11	1116	c.491T>C	c.(490-492)GTG>GCG	p.V164A	C10orf18_uc001iik.2_5'Flank	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	164										ovary(1)|central_nervous_system(1)	2						ATTCTAGGGGTGAAAGATTTG	0.303													15	65					0	0	0.00499	0	0		C	5772453	C	C	5772453	3	2	4	1	0	0	0	0	1	0	0	0	1599	1696	59	3	521	3	C10orf18	10	5772453	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	336479	5772453	129762294	2315	4281											
C10orf18	54906	broad.mit.edu	37	chr10	5788414	5788414	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatattcttgatgcagcagtGcaaacaaaaacaggtacttt	15	11	8	7	0	1	1	0	1	1	0	1	2	1	1	0	1	6	4	0	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:5788414G>A	uc001iij.2	+	15	3655	c.3030G>A	c.(3028-3030)GTG>GTA	p.V1010V	C10orf18_uc001iik.2_Intron	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	1010										ovary(1)|central_nervous_system(1)	2						ATGCAGCAGTGCAAACAAAAA	0.458													28	49					0	0	0.008361	0	0		A	5788414	A	A	5788414	2	1	4	1	0	0	0	0	0	0	0	1	1599	1306	46	2		2	C10orf18	10	5788414	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	15961	5788414	129746333	2316	4282											
SFMBT2	57713	broad.mit.edu	37	chr10	7247845	7247845	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccactgggaagatgtccAtggattccacatcaacaatg	13	8	9	11	0	1	1	1	0	0	1	3	3	3	3	3	2	2	0	3	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:7247845A>T	uc009xio.1	-	12	1467	c.1376T>A	c.(1375-1377)ATG>AAG	p.M459K	SFMBT2_uc001ijn.1_Missense_Mutation_p.M459K|SFMBT2_uc010qay.1_Intron	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	459	MBT 4.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GAAGATGTCCATGGATTCCAC	0.478													5	56					0	0	0.000602	0	0		T	7247845	T	T	7247845	3	4	4	1	0	0	0	0	1	0	0	0	14183	217	8	5	1348	5	SFMBT2	10	7247845	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1459431	7247845	128286902	2317	4283											
SFMBT2	57713	broad.mit.edu	37	chr10	7409677	7409677	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtgcaaatccgcgatgaCtacgtcacaccagaagtcgg	11	6	13	11	4	1	2	1	1	0	1	3	3	2	2	2	3	2	1	2	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:7409677C>G	uc009xio.1	-	4	461	c.370G>C	c.(370-372)GTC>CTC	p.V124L	SFMBT2_uc001ijn.1_Missense_Mutation_p.V124L|SFMBT2_uc010qay.1_Missense_Mutation_p.V124L|SFMBT2_uc001ijo.1_Missense_Mutation_p.V124L	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	124	MBT 1.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						TCCGCGATGACTACGTCACAC	0.602													10	27					0	0	0.008291	0	0		G	7409677	G	G	7409677	3	3	4	1	0	0	0	0	1	0	0	0	14183	565	20	5	2386	5	SFMBT2	10	7409677	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	161832	7409677	128125070	2318	4284											
ITIH5	80760	broad.mit.edu	37	chr10	7605039	7605039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacttgcatctttaaggctgCcagcttcagagctccctgga	8	11	9	13	0	2	1	1	0	1	1	3	2	3	2	2	2	4	4	2	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:7605039C>T	uc001ijq.2	-	14	2915	c.2836G>A	c.(2836-2838)GCA>ACA	p.A946T	ITIH5_uc001ijp.2_Missense_Mutation_p.A732T	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	Error:Variant_position_missing_in_Q86UX2_after_alignment					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						TTTAAGGCTGCCAGCTTCAGA	0.537													53	177					0	0	0.00361	0	0		T	7605039	T	T	7605039	3	4	4	1	0	0	0	0	1	0	0	0	7923	739	26	2	38	2	ITIH5	10	7605039	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	195362	7605039	127929708	2319	4285											
DHTKD1	55526	broad.mit.edu	37	chr10	12136162	12136162	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggcttttgaataccaacGccagttccgcaaggatgtga	11	10	10	10	2	0	2	0	2	0	0	1	3	1	3	3	2	2	3	3	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:12136162G>A	uc001ild.3	+	7	1349	c.1250G>A	c.(1249-1251)CGC>CAC	p.R417H		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	417					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			GAATACCAACGCCAGTTCCGC	0.517													14	52					0	0	0.00245	0	0		A	12136162	A	A	12136162	3	1	4	1	0	0	0	0	1	0	0	0	4506	1087	38	1	1276	1	DHTKD1	10	12136162	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4531123	12136162	123398585	2320	4286											
CAMK1D	57118	broad.mit.edu	37	chr10	12833171	12833171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagctcctgaagtcctcGcccagaaaccttacagcaaa	12	7	7	15	1	0	2	0	1	0	1	3	2	2	2	4	0	5	3	4	0	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:12833171G>A	uc001ilo.2	+	6	815	c.580G>A	c.(580-582)GCC>ACC	p.A194T	CAMK1D_uc001iln.2_Missense_Mutation_p.A194T	NM_153498	NP_705718	Q8IU85	KCC1D_HUMAN	calcium/calmodulin-dependent protein kinase ID	194	Protein kinase.					calcium- and calmodulin-dependent protein kinase complex|cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|stomach(1)	2				GBM - Glioblastoma multiforme(1;3.16e-05)		TGAAGTCCTCGCCCAGAAACC	0.502													17	67					0	0	0.00499	0	0		A	12833171	A	A	12833171	3	1	4	1	0	0	0	0	1	0	0	0	2600	1087	38	1	602	1	CAMK1D	10	12833171	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	697009	12833171	122701576	2321	4287											
MCM10	55388	broad.mit.edu	37	chr10	13213246	13213246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcccccaggcgagagaaaaCgaatgaagagttgcaaggtg	14	5	14	8	2	0	3	0	1	0	2	0	6	0	3	2	2	3	2	2	2	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:13213246C>T	uc001ima.2	+	3	433	c.332C>T	c.(331-333)ACG>ATG	p.T111M	MCM10_uc001imb.2_Missense_Mutation_p.T111M|MCM10_uc001imc.2_Missense_Mutation_p.T111M	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	111					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						CGAGAGAAAACGAATGAAGAG	0.448													4	38					0	0	0.009096	0	0		T	13213246	T	T	13213246	3	4	4	1	0	0	0	0	1	0	0	0	9403	536	19	1	338	1	MCM10	10	13213246	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	380075	13213246	122321501	2322	4288											
FAM188A	80013	broad.mit.edu	37	chr10	15838155	15838155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttctgaaggagcttcagggGcaactaaagccatatcctga	12	9	11	9	0	2	2	1	2	1	0	3	3	3	3	2	3	3	3	2	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:15838155G>A	uc001iod.1	-	11	1120	c.899C>T	c.(898-900)GCC>GTC	p.A300V	FAM188A_uc001ioe.1_Missense_Mutation_p.A127V|FAM188A_uc001iof.1_Missense_Mutation_p.A300V	NM_024948	NP_079224	Q9H8M7	F188A_HUMAN	chromosome 10 open reading frame 97	300					apoptosis	nucleus	calcium ion binding			ovary(1)	1						AGCTTCAGGGGCAACTAAAGC	0.373													6	129					0	0	0.00308	0	0		A	15838155	A	A	15838155	3	1	4	1	0	0	0	0	1	0	0	0	5525	1203	42	2	458	2	FAM188A	10	15838155	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2624909	15838155	119696592	2323	4289											
CUBN	8029	broad.mit.edu	37	chr10	16970170	16970170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattactcttgtgaaaggatGcattgaagcctgccctggtt	9	13	10	9	0	1	2	0	2	1	0	1	3	1	3	2	2	4	2	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:16970170G>A	uc001ioo.2	-	41	6309	c.6257C>T	c.(6256-6258)GCA>GTA	p.A2086V		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2086	CUB 14.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GTGAAAGGATGCATTGAAGCC	0.363													16	66					0	0	0.007413	0	0		A	16970170	A	A	16970170	3	1	4	1	0	0	0	0	1	0	0	0	4054	1319	46	2	4722	2	CUBN	10	16970170	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1132015	16970170	118564577	2324	4290											
VIM	7431	broad.mit.edu	37	chr10	17277251	17277251	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taccaagacactattggccgCctgcaggatgagattcagaa	13	8	10	10	1	1	3	1	1	0	3	1	5	1	4	3	2	2	1	3	2	4	4	rs116696668	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:17277251C>T	uc001iou.2	+	7	1505	c.1092C>T	c.(1090-1092)CGC>CGT	p.R364R	VIM_uc001iov.1_Silent_p.R364R|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Silent_p.R364R|VIM_uc001ioy.1_Intron|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Silent_p.R322R|VIM_uc001ipc.1_Silent_p.R364R	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	364	Rod.|Coil 2.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						CTATTGGCCGCCTGCAGGATG	0.483													8	78					0	0	0.00308	0	0		T	17277251	T	T	17277251	2	4	4	1	0	0	0	0	0	0	0	1	17192	726	26	2		2	VIM	10	17277251	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	307081	17277251	118257496	2325	4291											
CACNB2	783	broad.mit.edu	37	chr10	18816561	18816561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacatctcgcttgccaaacGctcggtattaaacaatccca	12	10	6	13	3	1	1	0	1	1	0	4	1	2	1	2	1	3	3	2	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:18816561G>A	uc001ipr.2	+	10	1049	c.989G>A	c.(988-990)CGC>CAC	p.R330H	CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Missense_Mutation_p.R306H|CACNB2_uc001ipt.2_Missense_Mutation_p.R292H|CACNB2_uc010qcl.1_RNA|CACNB2_uc001ipu.2_Missense_Mutation_p.R302H|CACNB2_uc001ipv.2_Missense_Mutation_p.R278H|CACNB2_uc009xka.1_Missense_Mutation_p.R264H|CACNB2_uc001ipw.2_Missense_Mutation_p.R237H|CACNB2_uc001ipx.2_Missense_Mutation_p.R275H|CACNB2_uc001ipz.2_Missense_Mutation_p.R252H|CACNB2_uc001ipy.2_Missense_Mutation_p.R276H|CACNB2_uc010qco.1_Missense_Mutation_p.R244H|CACNB2_uc001iqa.2_Missense_Mutation_p.R282H|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	330					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	CTTGCCAAACGCTCGGTATTA	0.423													37	93					0	0	0.002522	0	0		A	18816561	A	A	18816561	3	1	4	1	0	0	0	0	1	0	0	0	2556	1087	38	1	1337	1	CACNB2	10	18816561	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1539310	18816561	116718186	2326	4292											
ARL5B	221079	broad.mit.edu	37	chr10	18957477	18957477	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttaatgaatgaagtggtTcatacttctccaaccatagg	13	12	8	8	0	2	2	1	2	1	0	3	2	2	2	2	2	3	2	2	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:18957477T>C	uc001iqd.1	+	3	380	c.126T>C	c.(124-126)GTT>GTC	p.V42V		NM_178815	NP_848930	Q96KC2	ARL5B_HUMAN	ADP-ribosylation factor-like 8	42					small GTPase mediated signal transduction	intracellular	GTP binding			ovary(1)	1						ATGAAGTGGTTCATACTTCTC	0.358													11	42					0	0	0.00245	0	0		C	18957477	C	C	18957477	2	2	4	1	0	0	0	0	0	0	0	1	941	1770	62	3		3	ARL5B	10	18957477	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	140916	18957477	116577270	2327	4293											
C10orf114	399726	broad.mit.edu	37	chr10	21785730	21785730	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgcgccaccctgagggcTcccgcgattgcatcttcttg	4	10	11	16	4	2	1	0	1	2	0	3	2	3	1	4	1	2	2	4	1	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:21785730T>A	uc001iqn.3	-	1	484	c.14A>T	c.(13-15)GAG>GTG	p.E5V	MIR1915_hsa-mir-1915|MI0008336_5'Flank	NM_001010911	NP_001010911	Q5T4H9	CJ114_HUMAN	hypothetical protein LOC399726	5											0						CCCTGAGGGCTCCCGCGATTG	0.642													4	10					0	0	0.001168	0	0		A	21785730	A	A	21785730	3	1	4	1	0	0	0	0	1	0	0	0	1588	1551	54	5	404	5	C10orf114	10	21785730	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2828253	21785730	113749017	2328	4294											
BMI1	648	broad.mit.edu	37	chr10	22606821	22606821	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttattttagatcatccaGacttgaaacatatcgaccca	15	13	4	9	1	1	3	1	1	0	2	3	4	2	3	2	0	1	0	2	0	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:22606821G>T	uc009xkg.2	+	2	196	c.148G>T	c.(148-150)GAC>TAC	p.D50Y	COMMD3_uc001ire.2_Missense_Mutation_p.D50Y|COMMD3_uc001irf.2_Missense_Mutation_p.D50Y|COMMD3_uc001irg.2_RNA	NM_005180	NP_005171	P35226	BMI1_HUMAN	BMI1 polycomb ring finger oncogene	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					hemopoiesis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fibroblast proliferation|positive regulation of ubiquitin-protein ligase activity|segment specification|transcription, DNA-dependent	cytoplasm|nucleolus|PcG protein complex|ubiquitin ligase complex	RING-like zinc finger domain binding|zinc ion binding			ovary(1)|skin(1)	2						AGATCATCCAGACTTGAAACA	0.363													21	79					2.32416e-17	2.53911e-17	0.002299	1	0		T	22606821	T	T	22606821	3	4	4	1	0	0	0	0	1	0	0	0	1456	942	33	5		5	BMI1	10	22606821	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	821091	22606821	112927926	2329	4295											
PIP4K2A	5305	broad.mit.edu	37	chr10	22898568	22898568	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttgttaaaaaggtgattgtCcacctttatttttgaatagg	11	17	8	5	0	0	2	0	2	0	0	1	2	1	2	2	2	0	1	2	2	6	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:22898568C>T	uc001irl.3	-	2	471	c.223G>A	c.(223-225)GAC>AAC	p.D75N		NM_005028	NP_005019	P48426	PI42A_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	75	PIPK.						1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding			ovary(1)|skin(1)	2						AGGTGATTGTCCACCTTTATT	0.328													20	51					0	0	0.002299	0	0		T	22898568	T	T	22898568	3	4	4	1	0	0	0	0	1	0	0	0	11955	855	30	4	1033	4	PIP4K2A	10	22898568	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	291747	22898568	112636179	2330	4296											
KIAA1217	56243	broad.mit.edu	37	chr10	24669946	24669946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaggcagccggactcgtgCgagccttcctgtggtgaggt	6	8	16	11	3	0	2	0	1	0	1	2	4	1	3	3	4	3	1	3	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:24669946C>T	uc001iru.3	+	3	906	c.503C>T	c.(502-504)GCG>GTG	p.A168V	KIAA1217_uc001irs.2_Missense_Mutation_p.A88V|KIAA1217_uc001irt.3_Missense_Mutation_p.A168V|KIAA1217_uc010qcy.1_Missense_Mutation_p.A168V|KIAA1217_uc010qcz.1_Missense_Mutation_p.A168V|KIAA1217_uc001irv.1_Missense_Mutation_p.A18V|KIAA1217_uc010qda.1_RNA	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	168					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						CGGACTCGTGCGAGCCTTCCT	0.522													11	25					0	0	0.000978	0	0		T	24669946	T	T	24669946	3	4	4	1	0	0	0	0	1	0	0	0	8232	768	27	1	513	1	KIAA1217	10	24669946	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1771378	24669946	110864801	2331	4297											
KIAA1217	56243	broad.mit.edu	37	chr10	24727368	24727368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacaaggatcctgcacatgCgtttaatcacacaccaaaaa	17	7	5	12	1	1	0	1	0	0	0	2	1	2	1	2	1	3	2	2	1	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:24727368C>T	uc001iru.3	+	5	1209	c.806C>T	c.(805-807)GCG>GTG	p.A269V	KIAA1217_uc001irs.2_Missense_Mutation_p.A189V|KIAA1217_uc001irt.3_Missense_Mutation_p.A269V|KIAA1217_uc010qcy.1_Missense_Mutation_p.A269V|KIAA1217_uc010qcz.1_Missense_Mutation_p.A269V|KIAA1217_uc001irv.1_Missense_Mutation_p.A119V|KIAA1217_uc010qda.1_RNA	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	269					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						CCTGCACATGCGTTTAATCAC	0.413													7	157					0	0	0.00308	0	0		T	24727368	T	T	24727368	3	4	4	1	0	0	0	0	1	0	0	0	8232	768	27	1	824	1	KIAA1217	10	24727368	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	57422	24727368	110807379	2332	4298											
KIAA1217	56243	broad.mit.edu	37	chr10	24816953	24816953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctcctagaagaagctcaggCcaatatcatgaagtcaatac	15	8	8	10	0	3	3	3	1	0	2	4	3	4	3	2	1	2	2	2	1	8	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:24816953C>T	uc001iru.3	+	14	3390	c.2987C>T	c.(2986-2988)GCC>GTC	p.A996V	KIAA1217_uc001irs.2_Missense_Mutation_p.A916V|KIAA1217_uc001irt.3_Missense_Mutation_p.A961V|KIAA1217_uc010qcy.1_Missense_Mutation_p.A961V|KIAA1217_uc010qcz.1_Missense_Mutation_p.A961V|KIAA1217_uc010qda.1_RNA|KIAA1217_uc001irw.2_Missense_Mutation_p.A679V|KIAA1217_uc001irz.2_Missense_Mutation_p.A679V|KIAA1217_uc001irx.2_Missense_Mutation_p.A679V|KIAA1217_uc001iry.2_Missense_Mutation_p.A679V	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	996					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						GAAGCTCAGGCCAATATCATG	0.468													40	87					0	0	0.00623	0	0		T	24816953	T	T	24816953	3	4	4	1	0	0	0	0	1	0	0	0	8232	739	26	2	3041	2	KIAA1217	10	24816953	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	89585	24816953	110717794	2333	4299											
GPR158	57512	broad.mit.edu	37	chr10	25887280	25887280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcagtgtcatagcaagcGccaaggagaagactcttgga	12	8	11	10	1	3	2	2	0	2	2	4	4	3	3	1	2	2	1	1	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:25887280G>A	uc001isj.2	+	11	2785	c.2725G>A	c.(2725-2727)GCC>ACC	p.A909T	GPR158_uc001isk.2_Missense_Mutation_p.A284T	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	909	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						CATAGCAAGCGCCAAGGAGAA	0.478													16	232					0	0	0.006122	0	0		A	25887280	A	A	25887280	3	1	4	1	0	0	0	0	1	0	0	0	6678	1087	38	1	2767	1	GPR158	10	25887280	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1070327	25887280	109647467	2334	4300											
GPR158	57512	broad.mit.edu	37	chr10	25888009	25888009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcttctgaggagaatgtgCgtggctcctataactcaagt	9	13	10	9	1	3	2	1	1	2	1	4	3	4	2	1	2	2	1	1	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:25888009C>T	uc001isj.2	+	11	3514	c.3454C>T	c.(3454-3456)CGT>TGT	p.R1152C	GPR158_uc001isk.2_Missense_Mutation_p.R527C	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1152	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GGAGAATGTGCGTGGCTCCTA	0.443													14	63					0	0	0.00499	0	0		T	25888009	T	T	25888009	3	4	4	1	0	0	0	0	1	0	0	0	6678	768	27	1	3496	1	GPR158	10	25888009	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	729	25888009	109646738	2335	4301											
PDSS1	23590	broad.mit.edu	37	chr10	26998655	26998655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcgaccaattattgtggCgctaatggcccgagcatgca	9	11	10	11	3	0	0	0	0	0	0	1	2	0	0	2	2	2	3	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:26998655C>T	uc001isv.2	+	5	471	c.425C>T	c.(424-426)GCG>GTG	p.A142V	PDSS1_uc001isw.2_Missense_Mutation_p.A142V	NM_014317	NP_055132	Q5T2R2	DPS1_HUMAN	prenyl diphosphate synthase, subunit 1	142				A -> V (in Ref. 1; AAD28559).	isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	metal ion binding|protein heterodimerization activity				0						ATTATTGTGGCGCTAATGGCC	0.393													6	129					0	0	0.001168	0	0		T	26998655	T	T	26998655	3	4	4	1	0	0	0	0	1	0	0	0	11712	768	27	1	443	1	PDSS1	10	26998655	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1110646	26998655	108536092	2336	4302											
ANKRD26	22852	broad.mit.edu	37	chr10	27301829	27301829	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accttgctcaagtagttctcCatgctattatttgaagcccg	9	14	7	11	1	2	1	1	1	1	0	3	1	2	1	3	0	3	4	3	0	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:27301829C>T	uc001ith.2	-	32	5104	c.4932G>A	c.(4930-4932)ATG>ATA	p.M1644I	ANKRD26_uc001itg.2_Missense_Mutation_p.M1331I|ANKRD26_uc009xku.1_Missense_Mutation_p.M1645I	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1644						centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						AGTAGTTCTCCATGCTATTAT	0.279													6	93					0	0	0.00308	0	0		T	27301829	T	T	27301829	3	4	4	1	0	0	0	0	1	0	0	0	654	594	21	4	209	4	ANKRD26	10	27301829	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	303174	27301829	108232918	2337	4303											
PTCHD3	374308	broad.mit.edu	37	chr10	27702400	27702400	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggttggggggcacgcagagCgccctgtacctcgcgcacac	6	5	16	14	4	0	1	0	0	0	1	1	1	0	1	2	4	2	5	2	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:27702400C>T	uc001itu.2	-	1	898	c.780G>A	c.(778-780)GCG>GCA	p.A260A		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	260					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GCACGCAGAGCGCCCTGTACC	0.632													7	13					0	0	0.00308	0	0		T	27702400	T	T	27702400	2	4	4	1	0	0	0	0	0	0	0	1	12756	755	27	1		1	PTCHD3	10	27702400	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	400571	27702400	107832347	2338	4304											
PTCHD3	374308	broad.mit.edu	37	chr10	27702950	27702950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtccagcatcgacggcCgggggggtgcatcgtccccc	5	6	14	16	5	0	0	0	0	0	0	5	1	2	0	4	4	2	2	4	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:27702950C>T	uc001itu.2	-	1	348	c.230G>A	c.(229-231)CGG>CAG	p.R77Q		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	77					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CATCGACGGCCGGGGGGGTGC	0.721													4	9					0	0	0.001168	0	0		T	27702950	T	T	27702950	3	4	4	1	0	0	0	0	1	0	0	0	12756	652	23	1	2089	1	PTCHD3	10	27702950	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	550	27702950	107831797	2339	4305											
LYZL1	84569	broad.mit.edu	37	chr10	29580930	29580930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttactggggcttcagccttgGaaactgtgagactctttctt	7	15	10	9	0	3	1	1	1	2	1	3	3	3	2	1	3	3	1	1	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:29580930G>A	uc001iul.2	+	2	329	c.272G>A	c.(271-273)GGA>GAA	p.G91E		NM_032517	NP_115906	Q6UWQ5	LYZL1_HUMAN	lysozyme-like 1	45					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Breast(68;0.203)				TTCAGCCTTGGAAACTGTGAG	0.522													21	66					0	0	0.00278	0	0		A	29580930	A	A	29580930	3	1	4	1	0	0	0	0	1	0	0	0	9149	1174	41	4	278	4	LYZL1	10	29580930	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1877980	29580930	105953817	2340	4306											
MAP3K8	1326	broad.mit.edu	37	chr10	30748327	30748327	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatgaggccctgaacccGcccagagaggatcagccacg	13	3	11	14	2	1	3	1	2	0	1	1	5	1	4	4	2	3	0	4	2	2	0	rs141896473		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:30748327G>A	uc001ivi.1	+	8	1866	c.1170G>A	c.(1168-1170)CCG>CCA	p.P390P	MAP3K8_uc009xlf.1_Silent_p.P390P|MAP3K8_uc001ivj.1_Silent_p.P390P	NM_005204	NP_005195	P41279	M3K8_HUMAN	mitogen-activated protein kinase kinase kinase	390					cell cycle|T cell costimulation	cytosol	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			breast(3)|central_nervous_system(1)	4		Prostate(175;0.151)				CCCTGAACCCGCCCAGAGAGG	0.567													13	36					0	0	0.001368	0	0		A	30748327	A	A	30748327	2	1	4	1	0	0	0	0	0	0	0	1	9274	1074	38	1		1	MAP3K8	10	30748327	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1167397	30748327	104786420	2341	4307											
ZNF438	220929	broad.mit.edu	37	chr10	31137485	31137485	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatgatccctccatgcctcGcacactcatgtctctgttct	7	13	5	16	1	3	1	1	1	2	0	7	1	5	1	3	0	1	2	3	0	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:31137485G>A	uc010qdz.1	-	7	2284	c.1849C>T	c.(1849-1851)CGA>TGA	p.R617*	ZNF438_uc001ivn.2_Nonsense_Mutation_p.R568*|ZNF438_uc010qdy.1_Nonsense_Mutation_p.R607*|ZNF438_uc001ivo.3_Nonsense_Mutation_p.R181*|ZNF438_uc009xlg.2_Nonsense_Mutation_p.R617*|ZNF438_uc001ivp.3_Nonsense_Mutation_p.R607*|ZNF438_uc010qea.1_Nonsense_Mutation_p.R617*|ZNF438_uc010qeb.1_Nonsense_Mutation_p.R617*|ZNF438_uc010qec.1_Nonsense_Mutation_p.R181*	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	617					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				TCCATGCCTCGCACACTCATG	0.498													5	70					0	0	0.000602	0	0		A	31137485	A	A	31137485	4	1	4	1	0	0	0	0	0	1	0	0	17935	1095	38	1	645	1	ZNF438	10	31137485	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	389158	31137485	104397262	2342	4308											
NRP1	8829	broad.mit.edu	37	chr10	33496560	33496560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgccatgagtggctctctCggggtagatcctgatgaatc	7	11	12	11	2	1	4	0	3	1	1	6	4	3	4	3	3	0	2	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:33496560C>T	uc001iwx.3	-	10	2222	c.1699G>A	c.(1699-1701)GAG>AAG	p.E567K	NRP1_uc001iwv.3_Missense_Mutation_p.E567K|NRP1_uc009xlz.2_Missense_Mutation_p.E567K|NRP1_uc001iww.3_Missense_Mutation_p.E386K|NRP1_uc001iwy.3_Missense_Mutation_p.E567K|NRP1_uc001iwz.2_Missense_Mutation_p.E567K|NRP1_uc001ixa.2_Missense_Mutation_p.E567K|NRP1_uc001ixb.1_Missense_Mutation_p.E567K	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	567	Extracellular (Potential).|F5/8 type C 2.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	GTGGCTCTCTCGGGGTAGATC	0.493													38	118					0	0	0.007835	0	0		T	33496560	T	T	33496560	3	4	4	1	0	0	0	0	1	0	0	0	10679	893	31	1	1115	1	NRP1	10	33496560	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2359075	33496560	102038187	2343	4309											
PARD3	56288	broad.mit.edu	37	chr10	34626277	34626277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catctgaaaattgctttgtgCgtttttctgacatactctga	9	17	7	8	1	3	3	0	3	3	0	3	3	3	3	0	0	3	2	0	0	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:34626277C>T	uc010qej.1	-	17	2495	c.2495G>A	c.(2494-2496)CGC>CAC	p.R832H	PARD3_uc010qek.1_Missense_Mutation_p.R829H|PARD3_uc010qel.1_Missense_Mutation_p.R832H|PARD3_uc010qem.1_Missense_Mutation_p.R816H|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Missense_Mutation_p.R772H|PARD3_uc001ixo.1_Missense_Mutation_p.R546H|PARD3_uc001ixp.1_Intron|PARD3_uc001ixq.1_Intron|PARD3_uc001ixr.1_Missense_Mutation_p.R829H|PARD3_uc001ixt.1_Missense_Mutation_p.R650H|PARD3_uc001ixu.1_Missense_Mutation_p.R775H|PARD3_uc001ixs.1_Intron	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	832	Interacts with PRKCZ (By similarity).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				TTGCTTTGTGCGTTTTTCTGA	0.363													13	36					0	0	0.00245	0	0		T	34626277	T	T	34626277	3	4	4	1	0	0	0	0	1	0	0	0	11462	768	27	1	1646	1	PARD3	10	34626277	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1129717	34626277	100908470	2344	4310											
PARD3	56288	broad.mit.edu	37	chr10	34671594	34671594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggttttcccgaggggtgtgCgctatgaggtagtcttgagt	5	14	16	6	2	1	2	0	2	1	0	2	3	2	2	1	4	1	3	1	4	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:34671594C>T	uc010qej.1	-	9	1273	c.1273G>A	c.(1273-1275)GCA>ACA	p.A425T	PARD3_uc010qek.1_Missense_Mutation_p.A425T|PARD3_uc010qel.1_Missense_Mutation_p.A425T|PARD3_uc010qem.1_Missense_Mutation_p.A425T|PARD3_uc010qen.1_Missense_Mutation_p.A425T|PARD3_uc010qeo.1_Missense_Mutation_p.A425T|PARD3_uc010qep.1_Missense_Mutation_p.A381T|PARD3_uc010qeq.1_Missense_Mutation_p.A381T|PARD3_uc001ixo.1_Missense_Mutation_p.A155T|PARD3_uc001ixp.1_Missense_Mutation_p.A290T|PARD3_uc001ixq.1_Missense_Mutation_p.A425T|PARD3_uc001ixr.1_Missense_Mutation_p.A425T|PARD3_uc001ixt.1_Missense_Mutation_p.A246T|PARD3_uc001ixu.1_Missense_Mutation_p.A381T|PARD3_uc001ixs.1_Missense_Mutation_p.A78T	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	425					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				GAGGGGTGTGCGCTATGAGGT	0.527													16	39					0	0	0.003163	0	0		T	34671594	T	T	34671594	3	4	4	1	0	0	0	0	1	0	0	0	11462	768	27	1	2900	1	PARD3	10	34671594	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	45317	34671594	100863153	2345	4311											
CUL2	8453	broad.mit.edu	37	chr10	35317808	35317808	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcctgagtaagaggccacGcaccagcctagaaggaaaaa	16	3	12	10	1	0	3	0	1	0	2	0	5	0	4	4	2	2	2	4	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:35317808G>T	uc001ixv.2	-	16	1757	c.1547C>A	c.(1546-1548)GCG>GAG	p.A516E	CUL2_uc009xma.2_Missense_Mutation_p.A385E|CUL2_uc010qer.1_Missense_Mutation_p.A535E|CUL2_uc001ixw.2_Missense_Mutation_p.A516E|CUL2_uc010qes.1_Missense_Mutation_p.A453E	NM_003591	NP_003582	Q13617	CUL2_HUMAN	cullin 2	516					cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding			ovary(3)	3						AAGAGGCCACGCACCAGCCTA	0.318													7	17					4.68919e-08	5.00762e-08	0.008291	1	0		T	35317808	T	T	35317808	3	4	4	1	0	0	0	0	1	0	0	0	4058	1087	38	5	714	5	CUL2	10	35317808	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	646214	35317808	100216939	2346	4312											
CCNY	219771	broad.mit.edu	37	chr10	35842076	35842076	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctgtatggaatgtggatTactgccagatcctgaaagac	12	10	12	7	0	0	3	0	1	0	2	1	5	1	5	2	3	2	2	2	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:35842076T>C	uc001iyw.3	+	8	889	c.709T>C	c.(709-711)TAC>CAC	p.Y237H	CCNY_uc001iyu.3_Missense_Mutation_p.Y183H|CCNY_uc001iyv.3_Missense_Mutation_p.Y183H|CCNY_uc001iyx.3_Missense_Mutation_p.Y183H|CCNY_uc009xmb.2_Missense_Mutation_p.Y212H|CCNY_uc010qet.1_Missense_Mutation_p.Y104H	NM_145012	NP_659449	Q8ND76	CCNY_HUMAN	cyclin Y isoform 1	237	Cyclin N-terminal.				cell division|G2/M transition of mitotic cell cycle|positive regulation of cyclin-dependent protein kinase activity|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	cyclin-dependent protein kinase regulator activity|protein kinase binding				0						GAATGTGGATTACTGCCAGAT	0.527													3	74					0	0	0.004672	0	0		C	35842076	C	C	35842076	3	2	4	1	0	0	0	0	1	0	0	0	2939	1754	61	3	739	3	CCNY	10	35842076	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	524268	35842076	99692671	2347	4313											
ANKRD30A	91074	broad.mit.edu	37	chr10	37442528	37442528	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagactgtttcacagaaggAtgtgtgtttacccaaggcta	11	12	11	7	0	1	2	1	1	0	2	1	4	1	3	1	2	1	3	1	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:37442528A>G	uc001iza.1	+	13	1667	c.1568A>G	c.(1567-1569)GAT>GGT	p.D523G		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	579						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						TCACAGAAGGATGTGTGTTTA	0.294													5	247					0	0	0.000602	0	0		G	37442528	G	G	37442528	3	3	4	1	0	0	0	0	1	0	0	0	658	333	12	3	1618	3	ANKRD30A	10	37442528	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1600452	37442528	98092219	2348	4314											
RET	5979	broad.mit.edu	37	chr10	43606686	43606686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtggaaaactgccaggCattcagtggcatcaacgtcc	10	9	11	11	1	2	0	2	0	0	0	3	1	3	1	2	3	3	2	2	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:43606686C>T	uc001jal.2	+	7	1485	c.1295C>T	c.(1294-1296)GCA>GTA	p.A432V	RET_uc001jak.1_Missense_Mutation_p.A432V|RET_uc010qez.1_Missense_Mutation_p.A178V	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	432	Extracellular (Potential).		A -> E (in CCHS).		homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	AACTGCCAGGCATTCAGTGGC	0.592		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				27	51					0	0	0.008361	0	0		T	43606686	T	T	43606686	3	4	4	1	0	0	0	0	1	0	0	0	13260	710	25	2	1321	2	RET	10	43606686	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6164158	43606686	91928061	2349	4315											
ZNF485	220992	broad.mit.edu	37	chr10	44111987	44111987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtaaagaatgtgggatcGcctttatgaacagttcatcc	13	12	9	7	1	1	2	1	1	0	1	3	3	2	3	2	1	1	2	2	1	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:44111987G>A	uc010qfc.1	+	5	690	c.496G>A	c.(496-498)GCC>ACC	p.A166T	ZNF485_uc010qfd.1_Missense_Mutation_p.A75T	NM_145312	NP_660355	Q8NCK3	ZN485_HUMAN	zinc finger protein 485	166	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGTGGGATCGCCTTTATGAA	0.398													17	86					0	0	0.006122	0	0		A	44111987	A	A	44111987	3	1	4	1	0	0	0	0	1	0	0	0	17963	1087	38	1	510	1	ZNF485	10	44111987	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	505301	44111987	91422760	2350	4316											
RASSF4	83937	broad.mit.edu	37	chr10	45480314	45480314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgcggaccaagagcgacGccagttgcatgagccagagg	11	5	15	10	3	0	4	0	2	0	2	0	6	0	5	3	2	4	2	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:45480314G>A	uc001jbo.2	+	6	561	c.427G>A	c.(427-429)GCC>ACC	p.A143T	RASSF4_uc001jbp.2_Missense_Mutation_p.A174T|RASSF4_uc009xmn.2_Missense_Mutation_p.A73T|RASSF4_uc001jbq.2_Missense_Mutation_p.A40T|RASSF4_uc001jbt.2_Missense_Mutation_p.A100T	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	143					cell cycle|signal transduction		protein binding			large_intestine(1)	1						CAAGAGCGACGCCAGTTGCAT	0.637													9	42					0	0	0.004482	0	0		A	45480314	A	A	45480314	3	1	4	1	0	0	0	0	1	0	0	0	13113	1087	38	1	445	1	RASSF4	10	45480314	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1368327	45480314	90054433	2351	4317											
RASSF4	83937	broad.mit.edu	37	chr10	45486467	45486467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggccatgtgagaagatcGccaggatcttcctgatggaa	11	9	13	8	1	1	3	0	2	1	2	3	6	2	5	3	3	0	0	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:45486467G>A	uc001jbo.2	+	9	891	c.757G>A	c.(757-759)GCC>ACC	p.A253T	RASSF4_uc001jbp.2_Missense_Mutation_p.A284T|RASSF4_uc009xmn.2_Missense_Mutation_p.A183T|RASSF4_uc001jbq.2_Missense_Mutation_p.A150T|RASSF4_uc001jbt.2_Missense_Mutation_p.A210T	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	253	Ras-associating.				cell cycle|signal transduction		protein binding			large_intestine(1)	1						TGAGAAGATCGCCAGGATCTT	0.522													6	46					0	0	0.001984	0	0		A	45486467	A	A	45486467	3	1	4	1	0	0	0	0	1	0	0	0	13113	1087	38	1	787	1	RASSF4	10	45486467	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6153	45486467	90048280	2352	4318											
FAM21C	253725	broad.mit.edu	37	chr10	46224380	46224380	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaatcaagaaacaagtggAcggactaatccgggaaacca	18	5	10	8	2	1	2	1	1	0	1	2	5	2	5	2	3	2	0	2	3	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:46224380A>G	uc001jcu.2	+	3	296	c.197A>G	c.(196-198)GAC>GGC	p.D66G	FAM21C_uc001jcs.1_Intron|FAM21C_uc001jct.2_Missense_Mutation_p.D66G|FAM21C_uc010qfi.1_Missense_Mutation_p.D66G	NM_015262	NP_056077	A8K5W5	A8K5W5_HUMAN	hypothetical protein LOC253725	66										ovary(1)	1						AAACAAGTGGACGGACTAATC	0.383													20	164					0	0	0.002299	0	0		G	46224380	G	G	46224380	3	3	4	1	0	0	0	0	1	0	0	0	5553	275	10	3	207	3	FAM21C	10	46224380	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	737913	46224380	89310367	2353	4319											
GPRIN2	9721	broad.mit.edu	37	chr10	46999760	46999760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcattcccattgctgtGcccacctttggggtcccgct	3	12	11	15	1	0	0	0	0	0	0	2	0	2	0	4	3	2	3	4	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:46999760G>A	uc001jec.2	+	3	1015	c.880G>A	c.(880-882)GCC>ACC	p.A294T	GPRIN2_uc010qfq.1_Missense_Mutation_p.A57T	NM_014696	NP_055511	O60269	GRIN2_HUMAN	G protein-regulated inducer of neurite outgrowth	294											0						CCATTGCTGTGCCCACCTTTG	0.607													10	82					0	0	0.008291	0	0		A	46999760	A	A	46999760	3	1	4	1	0	0	0	0	1	0	0	0	6746	1319	46	2	882	2	GPRIN2	10	46999760	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	775380	46999760	88534987	2354	4320											
PPYR1	5540	broad.mit.edu	37	chr10	47086901	47086901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgccaggattccgtggacGtgatggtcttcatcgtcact	7	13	11	10	3	3	1	2	1	1	0	5	3	4	3	2	3	1	0	2	3	0	3	rs148605550	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:47086901G>A	uc001jee.2	+	3	537	c.118G>A	c.(118-120)GTG>ATG	p.V40M	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.V40M	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	40	Helical; Name=1; (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						TTCCGTGGACGTGATGGTCTT	0.532													17	124					0	0	0.00499	0	0		A	47086901	A	A	47086901	3	1	4	1	0	0	0	0	1	0	0	0	12438	1145	40	1	120	1	PPYR1	10	47086901	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	87141	47086901	88447846	2355	4321											
PPYR1	5540	broad.mit.edu	37	chr10	47087502	47087502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgcacgcatctaccggcGcctgcagaggcaggggcgcg	7	6	15	13	5	1	1	0	0	1	1	1	1	1	1	2	4	3	4	2	4	2	2	rs139014994		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:47087502G>A	uc001jee.2	+	3	1138	c.719G>A	c.(718-720)CGC>CAC	p.R240H	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.R240H	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	240	Cytoplasmic (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						ATCTACCGGCGCCTGCAGAGG	0.607													8	103					0	0	0.008291	0	0		A	47087502	A	A	47087502	3	1	4	1	0	0	0	0	1	0	0	0	12438	1087	38	1	721	1	PPYR1	10	47087502	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	601	47087502	88447245	2356	4322											
RBP3	5949	broad.mit.edu	37	chr10	48389508	48389508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctggcgcaggacatatgggGccaacacacccaggacggag	11	3	14	13	2	0	0	0	0	0	0	0	3	0	3	3	6	1	1	3	6	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:48389508G>A	uc001jez.2	-	1	1484	c.1370C>T	c.(1369-1371)GCC>GTC	p.A457V		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	457	4 X approximate tandem repeats.|2.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	GACATATGGGGCCAACACACC	0.627													10	15					0	0	0.000978	0	0		A	48389508	A	A	48389508	3	1	4	1	0	0	0	0	1	0	0	0	13182	1203	42	2	2389	2	RBP3	10	48389508	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1302006	48389508	87145239	2357	4323											
GDF2	2658	broad.mit.edu	37	chr10	48414241	48414241	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggacccagcgcttcacggcGctggacacttccaaggtctc	7	7	11	16	4	2	0	1	0	1	0	4	2	3	2	2	4	1	2	2	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:48414241G>A	uc001jfa.1	-	2	790	c.627C>T	c.(625-627)AGC>AGT	p.S209S		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	209					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						GCTTCACGGCGCTGGACACTT	0.572													10	29					0	0	0.000978	0	0		A	48414241	A	A	48414241	2	1	4	1	0	0	0	0	0	0	0	1	6329	1078	38	1		1	GDF2	10	48414241	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	24733	48414241	87120506	2358	4324											
ARHGAP22	58504	broad.mit.edu	37	chr10	49654532	49654532	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	caacagctggttcctcctctCcgcatcctcccgcgcccgtt	4	10	7	20	4	1	0	0	0	1	0	6	0	5	0	6	1	2	4	6	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:49654532C>G	uc001jgt.2	-	10	2296	c.1999G>C	c.(1999-2001)GAG>CAG	p.E667Q	ARHGAP22_uc001jgs.2_Missense_Mutation_p.E577Q|ARHGAP22_uc001jgu.2_Missense_Mutation_p.E683Q|ARHGAP22_uc010qgl.1_Missense_Mutation_p.E624Q|ARHGAP22_uc010qgm.1_Missense_Mutation_p.E673Q|ARHGAP22_uc001jgv.2_Missense_Mutation_p.E365Q|ARHGAP22_uc001jgr.2_Missense_Mutation_p.E384Q	NM_021226	NP_067049	Q7Z5H3	RHG22_HUMAN	Rho GTPase activating protein 2	667	Potential.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol|nucleus	GTPase activator activity	p.E667Q(1)		ovary(1)	1						TTCCTCCTCTCCGCATCCTCC	0.502													5	87					0	0	0.001984	0	0		G	49654532	G	G	49654532	3	3	4	1	0	0	0	0	1	0	0	0	872	864	30	5	101	5	ARHGAP22	10	49654532	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1240291	49654532	85880215	2359	4325											
ERCC6	2074	broad.mit.edu	37	chr10	50701183	50701183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttgtgggtataggaacCggtttcatgtagaattgcca	9	15	11	6	1	1	1	1	0	0	1	1	2	1	2	2	3	2	3	2	3	5	7	rs138758064	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:50701183C>T	uc001jhs.3	-	8	1955	c.1801G>A	c.(1801-1803)GGT>AGT	p.G601S	ERCC6_uc010qgr.1_Intron|ERCC6_uc001jhr.3_5'UTR	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	601	Helicase ATP-binding.				base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						GTATAGGAACCGGTTTCATGT	0.403								Direct_reversal_of_damage|NER					13	36					0	0	0.001855	0	0		T	50701183	T	T	50701183	3	4	4	1	0	0	0	0	1	0	0	0	5225	652	23	1	2736	1	ERCC6	10	50701183	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1046651	50701183	84833564	2360	4326											
PGBD3	267004	broad.mit.edu	37	chr10	50723521	50723521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgatttatgccatcataaCgtgagtcaatgttacgcttc	11	14	7	9	2	2	2	2	2	0	0	3	2	2	2	1	0	3	2	1	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:50723521C>T	uc001jht.2	-	2	1895	c.1640G>A	c.(1639-1641)CGT>CAT	p.R547H	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Missense_Mutation_p.R1015H|PGBD3_uc001jhu.2_Missense_Mutation_p.R1015H	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	547										pancreas(1)|breast(1)|skin(1)	3						GCCATCATAACGTGAGTCAAT	0.438													26	89					0	0	0.005443	0	0		T	50723521	T	T	50723521	3	4	4	1	0	0	0	0	1	0	0	0	11801	536	19	1	145	1	PGBD3	10	50723521	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	22338	50723521	84811226	2361	4327											
SLC18A3	6572	broad.mit.edu	37	chr10	50819068	50819068	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaatgccagcgcctacacGgccaacacctcggcgtcccc	8	4	9	20	4	0	0	0	0	0	0	2	0	1	0	7	2	4	0	7	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:50819068G>A	uc001jhw.2	+	1	722	c.282G>A	c.(280-282)ACG>ACA	p.T94T	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	94	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						GCGCCTACACGGCCAACACCT	0.726													6	12					0	0	0.001984	0	0		A	50819068	A	A	50819068	2	1	4	1	0	0	0	0	0	0	0	1	14452	1103	39	1		1	SLC18A3	10	50819068	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	95547	50819068	84715679	2362	4328											
SLC18A3	6572	broad.mit.edu	37	chr10	50819793	50819793	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctggctgccggccttcgTgcctcatgtgctgggcgtct	1	11	15	14	3	2	0	1	0	1	0	3	0	2	0	4	4	3	2	4	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:50819793T>C	uc001jhw.2	+	1	1447	c.1007T>C	c.(1006-1008)GTG>GCG	p.V336A	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	336	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CCGGCCTTCGTGCCTCATGTG	0.667													5	24					0	0	0.006214	0	0		C	50819793	C	C	50819793	3	2	4	1	0	0	0	0	1	0	0	0	14452	1696	59	3	1009	3	SLC18A3	10	50819793	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	725	50819793	84714954	2363	4329											
PARG	8505	broad.mit.edu	37	chr10	51087787	51087787	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatttcgtcgtggaaatgtGcagaagaaagcattagctaa	14	10	11	6	2	0	2	0	0	0	2	2	3	0	3	0	1	3	4	0	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:51087787G>A	uc001jif.2	-	9	2181	c.1920C>T	c.(1918-1920)TGC>TGT	p.C640C	PARG_uc001jih.2_Silent_p.C640C|PARG_uc001jig.2_Silent_p.C226C|PARG_uc010qgv.1_Intron|PARG_uc009xoi.2_Intron|PARG_uc010qgw.1_Silent_p.C531C|PARG_uc009xoj.2_Silent_p.C191C|PARG_uc010qgx.1_Silent_p.C558C	NM_003631	NP_003622	Q86W56	PARG_HUMAN	poly (ADP-ribose) glycohydrolase	640					carbohydrate metabolic process	nucleus	poly(ADP-ribose) glycohydrolase activity			ovary(2)	2				Epithelial(53;0.213)		GTGGAAATGTGCAGAAGAAAG	0.383													3	14					0	0	0.009096	0	0		A	51087787	A	A	51087787	2	1	4	1	0	0	0	0	0	0	0	1	11467	1311	46	2		2	PARG	10	51087787	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	267994	51087787	84446960	2364	4330											
A1CF	29974	broad.mit.edu	37	chr10	52575861	52575861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgctgcataggtctgggggGcatagaagacaggagctcca	10	8	15	8	0	1	2	0	0	1	2	2	3	2	3	1	5	3	4	1	5	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:52575861G>A	uc001jjj.2	-	9	1234	c.1046C>T	c.(1045-1047)GCC>GTC	p.A349V	A1CF_uc010qhn.1_Missense_Mutation_p.A357V|A1CF_uc001jji.2_Missense_Mutation_p.A349V|A1CF_uc001jjh.2_Missense_Mutation_p.A357V|A1CF_uc010qho.1_Missense_Mutation_p.A357V|A1CF_uc009xov.2_Missense_Mutation_p.A349V	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	349					cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						GGTCTGGGGGGCATAGAAGAC	0.517													5	61					0	0	0.000602	0	0		A	52575861	A	A	52575861	3	1	4	1	0	0	0	0	1	0	0	0	2	1203	42	2	758	2	A1CF	10	52575861	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1488074	52575861	82958886	2365	4331											
PCDH15	65217	broad.mit.edu	37	chr10	55582282	55582282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagagatgtttggtggatggGcaaaattttcaaaaatattt	14	14	11	2	0	1	1	1	0	0	1	1	4	1	2	0	3	0	2	0	3	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:55582282G>A	uc001jju.1	-	33	5599	c.5204C>T	c.(5203-5205)GCC>GTC	p.A1735V	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.A1732V|PCDH15_uc010qhw.1_Missense_Mutation_p.A1695V|PCDH15_uc010qhx.1_Missense_Mutation_p.A1666V|PCDH15_uc010qhy.1_Missense_Mutation_p.A1742V|PCDH15_uc010qhz.1_Missense_Mutation_p.A1737V|PCDH15_uc010qia.1_Missense_Mutation_p.A1715V|PCDH15_uc010qib.1_Missense_Mutation_p.A1712V	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1735	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TGGTGGATGGGCAAAATTTTC	0.254										HNSCC(58;0.16)			8	37					0	0	0.006214	0	0		A	55582282	A	A	55582282	3	1	4	1	0	0	0	0	1	0	0	0	11530	1203	42	2	2273	2	PCDH15	10	55582282	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3006421	55582282	79952465	2366	4332											
ANK3	288	broad.mit.edu	37	chr10	61844960	61844960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacacaatcttttataaacGtcaaaggagttgttcctgtg	13	13	8	7	1	2	1	1	0	1	1	3	2	3	2	1	1	1	2	1	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:61844960G>A	uc001jky.2	-	31	3992	c.3800C>T	c.(3799-3801)ACG>ATG	p.T1267M	ANK3_uc001jkw.2_Missense_Mutation_p.T401M|ANK3_uc009xpa.2_Missense_Mutation_p.T401M|ANK3_uc001jkx.2_Missense_Mutation_p.T445M|ANK3_uc010qih.1_Missense_Mutation_p.T1268M|ANK3_uc001jkz.3_Missense_Mutation_p.T1261M|ANK3_uc001jla.1_Missense_Mutation_p.T333M|ANK3_uc001jlb.1_Missense_Mutation_p.T785M|ANK3_uc001jkv.2_5'Flank	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1267					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTTTATAAACGTCAAAGGAGT	0.403													8	41					0	0	0.004482	0	0		A	61844960	A	A	61844960	3	1	4	1	0	0	0	0	1	0	0	0	622	1145	40	1	9698	1	ANK3	10	61844960	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6262678	61844960	73689787	2367	4333											
ANK3	288	broad.mit.edu	37	chr10	62149329	62149329	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatcctctcaagcacacaCggcttccttgtaaaaggtga	13	9	8	11	1	1	2	1	1	1	1	4	2	3	2	2	2	1	3	2	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:62149329C>T	uc001jky.2	-	1	160	c.-32G>A	c.(-34--30)CCGTG>CCATG		ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jlb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1						establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CAAGCACACACGGCTTCCTTG	0.413													15	22					0	0	0.003163	0	0		T	62149329	T	T	62149329	1	4	4	1	0	0	0	0	0	0	0	0	622	551	19	1		1	ANK3	10	62149329	Translation_Start_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	304369	62149329	73385418	2368	4334											
ZNF365	22891	broad.mit.edu	37	chr10	64136647	64136647	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggaaatgatagctgtacTgaggcaacgcctgacggaat	12	8	13	8	3	0	3	0	3	0	0	0	5	0	5	1	3	3	3	1	3	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:64136647T>C	uc001jmc.2	+	2	1010	c.695T>C	c.(694-696)CTG>CCG	p.L232P	ZNF365_uc001jly.3_Missense_Mutation_p.L247P|ZNF365_uc001jmb.3_Missense_Mutation_p.L232P|ZNF365_uc001jlz.3_Missense_Mutation_p.L232P|ZNF365_uc001jma.3_Intron	NM_199451	NP_955523	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform C	Error:Variant_position_missing_in_Q70YC4_after_alignment										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					ATAGCTGTACTGAGGCAACGC	0.517													10	94					0	0	0.000978	0	0		C	64136647	C	C	64136647	3	2	4	1	0	0	0	0	1	0	0	0	17894	1580	55	3	697	3	ZNF365	10	64136647	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1987318	64136647	71398100	2369	4335											
EGR2	1959	broad.mit.edu	37	chr10	64575694	64575694	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagatggtcaccgacgtggcGgcgaggtcctccaccgggta	8	6	15	12	5	1	1	1	0	0	1	3	3	3	1	4	5	0	1	4	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:64575694G>A	uc010qim.1	-	2	250	c.96C>T	c.(94-96)GCC>GCT	p.A32A	EGR2_uc010qin.1_5'UTR|EGR2_uc001jmi.2_Silent_p.A32A|EGR2_uc010qio.1_Silent_p.A45A|EGR2_uc009xph.2_Silent_p.A32A	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	32					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					CCGACGTGGCGGCGAGGTCCT	0.587													5	52					0	0	0.001168	0	0		A	64575694	A	A	64575694	2	1	4	1	0	0	0	0	0	0	0	1	4978	1103	39	1		1	EGR2	10	64575694	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	439047	64575694	70959053	2370	4336											
JMJD1C	221037	broad.mit.edu	37	chr10	64979728	64979728	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccctgagaactgggtttaGgctgtctatgtcgtcctaga	7	13	12	9	1	1	2	0	1	1	2	4	3	3	2	2	2	1	2	2	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:64979728G>A	uc001jmn.2	-	4	763	c.463C>T	c.(463-465)CTA>TTA	p.L155L	JMJD1C_uc001jml.2_Intron|JMJD1C_uc001jmm.2_5'UTR|JMJD1C_uc010qiq.1_5'UTR|JMJD1C_uc009xpi.2_5'UTR|JMJD1C_uc009xpj.1_Intron|JMJD1C_uc001jmp.1_Intron	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	155					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					ACTGGGTTTAGGCTGTCTATG	0.413													22	85					0	0	0.002299	0	0		A	64979728	A	A	64979728	2	1	4	1	0	0	0	0	0	0	0	1	7966	991	35	4		4	JMJD1C	10	64979728	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	404034	64979728	70555019	2371	4337											
TET1	80312	broad.mit.edu	37	chr10	70446141	70446141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttaactcgagaagataaccGctctttgggtgttattcctc	9	14	8	10	2	1	2	0	0	1	2	4	3	2	2	2	1	2	2	2	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:70446141G>A	uc001jok.3	+	11	5586	c.5081G>A	c.(5080-5082)CGC>CAC	p.R1694H		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1694					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						GAAGATAACCGCTCTTTGGGT	0.438													11	47					0	0	0.001368	0	0		A	70446141	A	A	70446141	3	1	4	1	0	0	0	0	1	0	0	0	15794	1087	38	1	5119	1	TET1	10	70446141	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5466413	70446141	65088606	2372	4338											
STOX1	219736	broad.mit.edu	37	chr10	70644170	70644170	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaaaataagagaatgctGccatcagatgaaagtcgcct	16	7	10	8	1	1	3	1	1	0	2	2	5	1	4	2	1	2	1	2	1	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:70644170G>A	uc001jos.2	+	3	705	c.618G>A	c.(616-618)CTG>CTA	p.L206L	STOX1_uc001jor.2_Silent_p.L206L|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Silent_p.L96L	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	206						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						AGAGAATGCTGCCATCAGATG	0.453													29	81					0	0	0.002096	0	0		A	70644170	A	A	70644170	2	1	4	1	0	0	0	0	0	0	0	1	15344	1306	46	2		2	STOX1	10	70644170	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	198029	70644170	64890577	2373	4339											
STOX1	219736	broad.mit.edu	37	chr10	70644504	70644504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggttttagtctcttatggCgcagcttatctagaaaggag	9	15	11	6	1	2	1	0	0	2	1	3	2	2	2	0	3	1	3	0	3	5	6	rs149218532	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:70644504C>T	uc001jos.2	+	3	1039	c.952C>T	c.(952-954)CGC>TGC	p.R318C	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Missense_Mutation_p.R208C	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	318						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						TCTCTTATGGCGCAGCTTATC	0.453													7	101					0	0	0.001984	0	0		T	70644504	T	T	70644504	3	4	4	1	0	0	0	0	1	0	0	0	15344	768	27	1	962	1	STOX1	10	70644504	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	334	70644504	64890243	2374	4340											
HKDC1	80201	broad.mit.edu	37	chr10	71017128	71017128	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgaatgatacagtggggAccatgatgacctgtggctat	10	11	13	7	1	0	4	0	4	0	0	1	5	0	5	2	3	1	1	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:71017128A>G	uc001jpf.3	+	14	2111	c.1978A>G	c.(1978-1980)ACC>GCC	p.T660A	HKDC1_uc010qje.1_Missense_Mutation_p.T523A|HKDC1_uc009xqb.2_RNA	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	660					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						TACAGTGGGGACCATGATGAC	0.423													10	127					0	0	0.001855	0	0		G	71017128	G	G	71017128	3	3	4	1	0	0	0	0	1	0	0	0	7209	275	10	3	2032	3	HKDC1	10	71017128	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	372624	71017128	64517619	2375	4341											
TSPAN15	23555	broad.mit.edu	37	chr10	71265925	71265925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgcggggctgcaccaacGccgtgatcatctggttcatg	7	9	13	12	4	3	1	2	1	1	0	3	1	3	1	2	3	3	3	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:71265925G>A	uc001jpo.1	+	7	789	c.664G>A	c.(664-666)GCC>ACC	p.A222T		NM_012339	NP_036471	O95858	TSN15_HUMAN	transmembrane 4 superfamily member 15	222	Extracellular (Potential).					integral to plasma membrane|membrane fraction					0						CTGCACCAACGCCGTGATCAT	0.612													21	69					0	0	0.00333	0	0		A	71265925	A	A	71265925	3	1	4	1	0	0	0	0	1	0	0	0	16665	1087	38	1	690	1	TSPAN15	10	71265925	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	248797	71265925	64268822	2376	4342											
NODAL	4838	broad.mit.edu	37	chr10	72195099	72195099	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaggattaggacactcGccctcacagcgataggcgtt	11	7	10	13	3	1	0	1	0	0	0	2	3	1	2	2	3	2	1	2	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:72195099G>A	uc001jrc.2	-	2	876	c.834C>T	c.(832-834)GGC>GGT	p.G278G		NM_018055	NP_060525	Q96S42	NODAL_HUMAN	nodal precursor	278					growth	extracellular space	cytokine activity|growth factor activity			large_intestine(1)|kidney(1)	2						TAGGACACTCGCCCTCACAGC	0.572													7	25					0	0	0.00308	0	0		A	72195099	A	A	72195099	2	1	4	1	0	0	0	0	0	0	0	1	10537	1074	38	1		1	NODAL	10	72195099	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	929174	72195099	63339648	2377	4343											
CCDC109A	90550	broad.mit.edu	37	chr10	74628488	74628488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtcatgaaaatgcagcaaCgctgaatgatgtaaagacat	18	8	9	6	1	1	4	1	3	0	1	1	4	1	4	0	0	3	4	0	0	7	1	rs140182415		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:74628488C>T	uc001jtc.2	+	5	545	c.524C>T	c.(523-525)ACG>ATG	p.T175M	CCDC109A_uc009xqp.1_RNA|CCDC109A_uc009xqq.1_RNA|CCDC109A_uc010qjy.1_RNA|CCDC109A_uc009xqr.2_Intron|CCDC109A_uc001jtd.2_Missense_Mutation_p.T126M	NM_138357	NP_612366	Q8NE86	MCU_HUMAN	coiled-coil domain containing 109A	175	Mitochondrial matrix (Potential).				elevation of mitochondrial calcium ion concentration|mitochondrial calcium ion transport|protein complex oligomerization	integral to membrane|mitochondrial inner membrane	protein binding				0	Prostate(51;0.0198)					AATGCAGCAACGCTGAATGAT	0.383													17	82					0	0	0.006122	0	0		T	74628488	T	T	74628488	3	4	4	1	0	0	0	0	1	0	0	0	2747	536	19	1	542	1	CCDC109A	10	74628488	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2433389	74628488	60906259	2378	4344											
CCDC109A	90550	broad.mit.edu	37	chr10	74631233	74631233	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagtttggcattttggcccgGcttacctggtgggaatattc	6	14	12	9	1	0	0	0	0	0	0	1	1	0	1	2	5	1	3	2	5	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:74631233G>A	uc001jtc.2	+	6	777	c.756G>A	c.(754-756)CGG>CGA	p.R252R	CCDC109A_uc009xqp.1_RNA|CCDC109A_uc009xqq.1_RNA|CCDC109A_uc010qjy.1_RNA|CCDC109A_uc009xqr.2_Silent_p.R231R|CCDC109A_uc001jtd.2_Silent_p.R203R	NM_138357	NP_612366	Q8NE86	MCU_HUMAN	coiled-coil domain containing 109A	252	Helical; (Potential).				elevation of mitochondrial calcium ion concentration|mitochondrial calcium ion transport|protein complex oligomerization	integral to membrane|mitochondrial inner membrane	protein binding				0	Prostate(51;0.0198)					TTTTGGCCCGGCTTACCTGGT	0.468													42	104					0	0	0.00874	0	0		A	74631233	A	A	74631233	2	1	4	1	0	0	0	0	0	0	0	1	2747	1190	42	2		2	CCDC109A	10	74631233	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2745	74631233	60903514	2379	4345											
ECD	11319	broad.mit.edu	37	chr10	74899444	74899444	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtcttctatatcaaatggTattgtctgtaataaggttaa	13	16	8	4	0	4	0	1	0	3	0	4	0	4	0	0	3	0	3	0	3	7	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:74899444T>C	uc001jtn.2	-	10	1422	c.1179A>G	c.(1177-1179)ATA>ATG	p.I393M	ECD_uc009xqx.2_Missense_Mutation_p.I426M|ECD_uc009xqy.2_Missense_Mutation_p.I350M|ECD_uc001jto.2_Missense_Mutation_p.I92M	NM_007265	NP_009196	O95905	SGT1_HUMAN	suppressor of S. cerevisiae gcr2 isoform 1	393					regulation of glycolysis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	transcription coactivator activity			pancreas(1)	1	Prostate(51;0.0119)					TATCAAATGGTATTGTCTGTA	0.343													20	259					0	0	0.010504	0	0		C	74899444	C	C	74899444	3	2	4	1	0	0	0	0	1	0	0	0	4894	1628	57	3	775	3	ECD	10	74899444	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	268211	74899444	60635303	2380	4346											
ECD	11319	broad.mit.edu	37	chr10	74916042	74916042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttttcttaccctctgatgCgcctattcacagcagctcgt	7	15	6	13	2	3	1	1	1	2	0	4	1	3	1	2	0	4	2	2	0	2	5	rs149473721		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:74916042C>T	uc001jtn.2	-	5	824	c.581G>A	c.(580-582)CGC>CAC	p.R194H	ECD_uc009xqx.2_Missense_Mutation_p.R194H|ECD_uc009xqy.2_Missense_Mutation_p.R194H|ECD_uc001jto.2_5'UTR	NM_007265	NP_009196	O95905	SGT1_HUMAN	suppressor of S. cerevisiae gcr2 isoform 1	194					regulation of glycolysis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	transcription coactivator activity			pancreas(1)	1	Prostate(51;0.0119)					CCCTCTGATGCGCCTATTCAC	0.368													5	81					0	0	0.001168	0	0		T	74916042	T	T	74916042	3	4	4	1	0	0	0	0	1	0	0	0	4894	768	27	1	1496	1	ECD	10	74916042	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	16598	74916042	60618705	2381	4347											
TTC18	118491	broad.mit.edu	37	chr10	75071669	75071669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgagattttatactaggtgCctgctgaaagaaaatgaaca	15	11	9	6	0	0	4	0	3	0	2	0	5	0	4	1	1	4	1	1	1	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:75071669C>T	uc009xrc.2	-	12	1418	c.1297G>A	c.(1297-1299)GCA>ACA	p.A433T	TTC18_uc001jty.2_Missense_Mutation_p.A433T|TTC18_uc009xrd.1_Missense_Mutation_p.A241T	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18	433							binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					ATACTAGGTGCCTGCTGAAAG	0.393													8	107					0	0	0.004482	0	0		T	75071669	T	T	75071669	3	4	4	1	0	0	0	0	1	0	0	0	16711	739	26	2	2136	2	TTC18	10	75071669	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	155627	75071669	60463078	2382	4348											
USP54	159195	broad.mit.edu	37	chr10	75290490	75290490	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtatcccgaggcctggggCtcatcgcctttcctcctaac	5	11	10	15	2	1	0	1	0	0	0	5	1	4	0	5	4	1	2	5	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:75290490C>T	uc001juo.2	-	11	1436	c.1419G>A	c.(1417-1419)GAG>GAA	p.E473E	USP54_uc001juk.2_5'UTR|USP54_uc001jul.2_5'UTR|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA|USP54_uc001jup.2_Silent_p.E473E|USP54_uc010qkl.1_Silent_p.E473E	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	473					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					AGGCCTGGGGCTCATCGCCTT	0.498													24	54					0	0	0.005443	0	0		T	75290490	T	T	75290490	2	4	4	1	0	0	0	0	0	0	0	1	17111	796	28	2		2	USP54	10	75290490	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	218821	75290490	60244257	2383	4349											
KCNMA1	3778	broad.mit.edu	37	chr10	78647147	78647147	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttcttgctggaggactgCgacgagtgggaggaatggga	8	9	17	7	2	2	0	0	0	2	0	2	7	2	5	0	5	2	1	0	5	1	2	rs75138661		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:78647147C>T	uc001jxn.2	-	28	3765	c.3588G>A	c.(3586-3588)TCG>TCA	p.S1196S	KCNMA1_uc001jxj.2_Silent_p.S1142S|KCNMA1_uc001jxk.1_Silent_p.S814S|KCNMA1_uc009xrt.1_Silent_p.S987S|KCNMA1_uc001jxl.1_Silent_p.S821S|KCNMA1_uc001jxo.2_Silent_p.S1179S|KCNMA1_uc001jxm.2_Silent_p.S1138S|KCNMA1_uc001jxq.2_Silent_p.S1168S|uc001jxp.2_5'Flank	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1196	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	TGGAGGACTGCGACGAGTGGG	0.582													12	45					0	0	0.004007	0	0		T	78647147	T	T	78647147	2	4	4	1	0	0	0	0	0	0	0	1	8089	755	27	1		1	KCNMA1	10	78647147	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3356657	78647147	56887600	2384	4350											
KCNMA1	3778	broad.mit.edu	37	chr10	78709065	78709065	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagggctgagctgacgtcGccaaagatgcagaccacgac	12	5	12	12	3	1	4	1	2	0	2	2	5	1	4	2	1	2	3	2	1	1	0	rs139475681		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:78709065G>A	uc001jxn.2	-	22	2721	c.2544C>T	c.(2542-2544)GGC>GGT	p.G848G	KCNMA1_uc001jxj.2_Silent_p.G794G|KCNMA1_uc001jxk.1_Silent_p.G466G|KCNMA1_uc009xrt.1_Silent_p.G639G|KCNMA1_uc001jxl.1_Silent_p.G473G|KCNMA1_uc001jxo.2_Silent_p.G831G|KCNMA1_uc001jxm.2_Silent_p.G790G|KCNMA1_uc001jxq.2_Silent_p.G793G	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	848	Segment S9.|Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	AGCTGACGTCGCCAAAGATGC	0.552													7	24					0	0	0.00308	0	0		A	78709065	A	A	78709065	2	1	4	1	0	0	0	0	0	0	0	1	8089	1074	38	1		1	KCNMA1	10	78709065	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	61918	78709065	56825682	2385	4351											
DLG5	9231	broad.mit.edu	37	chr10	79554687	79554687	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagccgctcaatagcgtgCggagcaatgtccaggaggca	10	6	15	10	3	1	0	1	0	0	0	2	3	2	3	2	4	4	3	2	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:79554687C>T	uc001jzk.2	-	30	5536	c.5466G>A	c.(5464-5466)CCG>CCA	p.P1822P	DLG5_uc001jzi.2_Silent_p.P577P|DLG5_uc001jzj.2_Silent_p.P1237P	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1822	Guanylate kinase-like.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			CAATAGCGTGCGGAGCAATGT	0.622													11	19					0	0	0.00245	0	0		T	79554687	T	T	79554687	2	4	4	1	0	0	0	0	0	0	0	1	4564	755	27	1		1	DLG5	10	79554687	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	845622	79554687	55980060	2386	4352											
NRG3	10718	broad.mit.edu	37	chr10	83635649	83635649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcgctccaccacagcaCggaacactgcggcccctgcg	7	3	11	20	5	0	0	0	0	0	0	1	1	1	1	5	2	4	2	5	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:83635649C>T	uc001kco.2	+	1	580	c.553C>T	c.(553-555)CGG>TGG	p.R185W	NRG3_uc010qlz.1_Missense_Mutation_p.R185W|NRG3_uc001kcp.2_5'Flank|NRG3_uc001kcq.2_5'Flank	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	185	Ser/Thr-rich.|Extracellular (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity	p.R185W(1)		lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		CACCACAGCACGGAACACTGC	0.706													7	23					0	0	0.006214	0	0		T	83635649	T	T	83635649	3	4	4	1	0	0	0	0	1	0	0	0	10668	527	19	1	555	1	NRG3	10	83635649	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4080962	83635649	51899098	2387	4353											
NRG3	10718	broad.mit.edu	37	chr10	84745044	84745044	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcctgcaaatgccagggAtttctgaagtcaaaagcatc	12	9	9	11	0	2	1	1	1	1	0	3	2	2	2	3	1	4	2	3	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:84745044A>G	uc001kco.2	+	9	1801	c.1774A>G	c.(1774-1776)ATT>GTT	p.I592V	NRG3_uc010qlz.1_Missense_Mutation_p.I591V|NRG3_uc001kcp.2_Missense_Mutation_p.I395V|NRG3_uc001kcq.2_Missense_Mutation_p.I242V|NRG3_uc001kcr.2_Missense_Mutation_p.I266V	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	616	Cytoplasmic (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		AATGCCAGGGATTTCTGAAGT	0.468													31	82					0	0	0.002096	0	0		G	84745044	G	G	84745044	3	3	4	1	0	0	0	0	1	0	0	0	10668	333	12	3	2052	3	NRG3	10	84745044	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1109395	84745044	50789703	2388	4354											
LRIT1	26103	broad.mit.edu	37	chr10	86001151	86001151	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagccccgggcctgggggggCcacgcaagggccaagagcca	9	1	17	14	2	0	1	0	0	0	1	0	1	0	1	6	5	2	1	6	5	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:86001151C>T	uc001kcz.1	-	1	67	c.45G>A	c.(43-45)TGG>TGA	p.W15*		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	15						integral to endoplasmic reticulum membrane					0						CCTGGGGGGGCCACGCAAGGG	0.672													5	3					0	0	0.000602	0	0		T	86001151	T	T	86001151	4	4	4	1	0	0	0	0	0	1	0	0	8965	740	26	2	1842	2	LRIT1	10	86001151	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1256107	86001151	49533596	2389	4355											
OPN4	94233	broad.mit.edu	37	chr10	88416037	88416037	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggatgctgggcaacctgacGgtcatctataccttctgcag	8	10	12	11	1	3	1	1	1	2	0	3	2	3	2	2	3	4	3	2	3	3	3	rs150600156		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:88416037G>A	uc001kdq.2	+	2	497	c.270G>A	c.(268-270)ACG>ACA	p.T90T	OPN4_uc001kdp.2_Silent_p.T90T|OPN4_uc010qmk.1_Silent_p.T90T	NM_033282	NP_150598	Q9UHM6	OPN4_HUMAN	opsin 4 isoform 1	90	Helical; Name=1; (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|rhythmic process|visual perception	integral to membrane|plasma membrane	11-cis retinal binding|G-protein coupled photoreceptor activity			ovary(1)	1						GCAACCTGACGGTCATCTATA	0.602													4	52					0	0	0.000602	0	0		A	88416037	A	A	88416037	2	1	4	1	0	0	0	0	0	0	0	1	10901	1103	39	1		1	OPN4	10	88416037	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2414886	88416037	47118710	2390	4356											
PTEN	5728	broad.mit.edu	37	chr10	89717713	89717713	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactttgagttccctcagccGttacctgtgtgtggtgatat	6	16	10	9	1	1	2	1	2	0	0	2	2	2	2	3	1	3	2	3	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:89717713G>A	uc001kfb.2	+	8	1769	c.738G>A	c.(736-738)CCG>CCA	p.P246P		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	246	C2 tensin-type.		P -> L (in CD and BZS).		activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.P246L(6)|p.R55fs*1(4)|p.P246fs*10(3)|p.L247fs*10(2)|p.N212fs*1(2)|p.Y27fs*1(2)|p.L247fs*11(1)|p.L247fs*12(1)|p.G165_*404del(1)|p.?(1)|p.F243fs*9(1)|p.L247fs*8(1)|p.P246fs*11(1)|p.P246_L247insGP(1)|p.G165_K342del(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TCCCTCAGCCGTTACCTGTGT	0.413		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			22	60					0	0	0.003954	0	0		A	89717713	A	A	89717713	2	1	4	1	0	0	0	0	0	0	0	1	12760	1132	40	1		1	PTEN	10	89717713	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1301676	89717713	45817034	2391	4357											
LIPJ	142910	broad.mit.edu	37	chr10	90354523	90354523	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgtaggccattcacagggTactactattggtatgccaag	11	12	10	8	0	1	0	1	0	0	0	1	0	1	0	2	3	3	3	2	3	7	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:90354523T>C	uc001kff.2	+	6	743	c.429T>C	c.(427-429)GGT>GGC	p.G143G		NM_001010939	NP_001010939	Q5W064	LIPJ_HUMAN	lipase, family member J	143					lipid catabolic process		hydrolase activity			ovary(1)	1		all_cancers(4;2.79e-10)|Prostate(4;1.68e-15)|all_epithelial(4;1.43e-09)|Colorectal(252;0.0381)|Breast(4;0.141)|Melanoma(5;0.2)|all_hematologic(4;0.222)		Colorectal(12;1.02e-05)|COAD - Colon adenocarcinoma(12;1.54e-05)		ATTCACAGGGTACTACTATTG	0.348													10	51					0	0	0.000978	0	0		C	90354523	C	C	90354523	2	2	4	1	0	0	0	0	0	0	0	1	8843	1625	57	3		3	LIPJ	10	90354523	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	636810	90354523	45180224	2392	4358											
PCGF5	84333	broad.mit.edu	37	chr10	93024260	93024260	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctacatgacaagatggCgactaagaggcgaaaacgta	16	7	10	8	3	2	3	1	1	1	2	2	5	2	3	0	2	2	1	0	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:93024260C>T	uc001khh.2	+	8	893	c.646C>T	c.(646-648)CGA>TGA	p.R216*	PCGF5_uc010qnk.1_Nonsense_Mutation_p.R216*|PCGF5_uc001khi.2_Nonsense_Mutation_p.R216*	NM_032373	NP_115749	Q86SE9	PCGF5_HUMAN	polycomb group ring finger 5	216					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|PcG protein complex	zinc ion binding			lung(1)	1						GACAAGATGGCGACTAAGAGG	0.294													31	79					0	0	0.003271	0	0		T	93024260	T	T	93024260	4	4	4	1	0	0	0	0	0	1	0	0	11596	760	27	1	672	1	PCGF5	10	93024260	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2669737	93024260	42510487	2393	4359											
TNKS2	80351	broad.mit.edu	37	chr10	93600363	93600363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcagagacattgaagggCgtcagtctacaccacttcat	12	9	9	11	1	3	2	2	1	1	1	3	3	3	2	1	1	2	1	1	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:93600363C>T	uc001khp.2	+	14	1870	c.1573C>T	c.(1573-1575)CGT>TGT	p.R525C		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	525	ANK 10.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				CATTGAAGGGCGTCAGTCTAC	0.418													29	101					0	0	0.009535	0	0		T	93600363	T	T	93600363	3	4	4	1	0	0	0	0	1	0	0	0	16346	768	27	1	1627	1	TNKS2	10	93600363	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	576103	93600363	41934384	2394	4360											
BTAF1	9044	broad.mit.edu	37	chr10	93726433	93726433	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttttagttccacgtgtctgGccttttttgcatcacactat	6	18	7	10	1	2	0	1	0	1	0	3	0	3	0	2	1	1	3	2	1	2	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:93726433G>A	uc001khr.2	+	14	1667	c.1569G>A	c.(1567-1569)TGG>TGA	p.W523*	BTAF1_uc001khs.1_Nonsense_Mutation_p.W193*|BTAF1_uc001kht.1_5'UTR	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	523	HEAT 3.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				CACGTGTCTGGCCTTTTTTGC	0.348													23	76					0	0	0.00278	0	0		A	93726433	A	A	93726433	4	1	4	1	0	0	0	0	0	1	0	0	1539	1212	42	2	1623	2	BTAF1	10	93726433	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	126070	93726433	41808314	2395	4361											
MYOF	26509	broad.mit.edu	37	chr10	95119595	95119595	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgcttctcttacccttgCggtgcttgaagcagtctgtg	4	15	10	12	1	2	1	0	1	2	0	3	1	2	1	2	1	5	3	2	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:95119595C>T	uc001kin.2	-	29	3238	c.3115G>A	c.(3115-3117)GCA>ACA	p.A1039T	MYOF_uc001kio.2_Missense_Mutation_p.A1026T|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1039	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						CTTACCCTTGCGGTGCTTGAA	0.498													31	76					0	0	0.009535	0	0		T	95119595	T	T	95119595	3	4	4	1	0	0	0	0	1	0	0	0	10107	768	27	1	3174	1	MYOF	10	95119595	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1393162	95119595	40415152	2396	4362											
PDE6C	5146	broad.mit.edu	37	chr10	95399901	95399901	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttcccccttacagagcaCggattgattaaatgtggaat	12	11	9	9	1	0	2	0	1	0	1	1	5	1	4	2	2	2	1	2	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:95399901C>T	uc001kiu.3	+	12	1695	c.1557C>T	c.(1555-1557)CAC>CAT	p.H519H		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	519					visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				TTACAGAGCACGGATTGATTA	0.408													5	112					0	0	0.001168	0	0		T	95399901	T	T	95399901	2	4	4	1	0	0	0	0	0	0	0	1	11666	535	19	1		1	PDE6C	10	95399901	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	280306	95399901	40134846	2397	4363											
PLCE1	51196	broad.mit.edu	37	chr10	96005833	96005833	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctcatcccttggtacgtgCtgtccatccaagccgatgtg	7	11	10	13	2	1	0	1	0	0	0	4	1	4	0	4	1	4	3	4	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:96005833C>T	uc001kjk.2	+	8	3185	c.2551C>T	c.(2551-2553)CTG>TTG	p.L851L	PLCE1_uc010qnx.1_Silent_p.L851L|PLCE1_uc001kjm.2_Silent_p.L543L	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	851					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				TTGGTACGTGCTGTCCATCCA	0.562													12	21					0	0	0.001368	0	0		T	96005833	T	T	96005833	2	4	4	1	0	0	0	0	0	0	0	1	12053	796	28	2		2	PLCE1	10	96005833	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	605932	96005833	39528914	2398	4364											
CYP2C18	1562	broad.mit.edu	37	chr10	96447543	96447543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttagttctcaaaagtctatgGccctgtgttcactgtgtatt	8	17	8	8	0	3	0	2	0	2	0	4	0	3	0	1	1	0	3	1	1	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:96447543G>A	uc001kjv.3	+	2	511	c.185G>A	c.(184-186)GGC>GAC	p.G62D	CYP2C18_uc001kjw.3_Missense_Mutation_p.G62D|CYP2C19_uc009xus.1_5'Flank|CYP2C19_uc010qny.1_5'Flank	NM_000772	NP_000763	P33260	CP2CI_HUMAN	cytochrome P450 family 2 subfamily C polypeptide	62					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(3)|lung(1)|skin(1)	5		Colorectal(252;0.09)		all cancers(201;2.8e-06)|KIRC - Kidney renal clear cell carcinoma(50;0.0646)|Kidney(138;0.0805)		AAAGTCTATGGCCCTGTGTTC	0.403													27	113					0	0	0.007291	0	0		A	96447543	A	A	96447543	3	1	4	1	0	0	0	0	1	0	0	0	4168	1203	42	2	191	2	CYP2C18	10	96447543	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	441710	96447543	39087204	2399	4365											
CYP2C18	1562	broad.mit.edu	37	chr10	96495057	96495057	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagagggcctggcccgcatGgagctgtttttattcctgac	6	11	14	10	1	0	2	0	1	0	1	1	4	1	3	3	4	1	3	3	4	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:96495057G>T	uc001kjv.3	+	9	1655	c.1329G>T	c.(1327-1329)ATG>ATT	p.M443I	CYP2C18_uc001kjw.3_Missense_Mutation_p.M384I|CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Intron	NM_000772	NP_000763	P33260	CP2CI_HUMAN	cytochrome P450 family 2 subfamily C polypeptide	443					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(3)|lung(1)|skin(1)	5		Colorectal(252;0.09)		all cancers(201;2.8e-06)|KIRC - Kidney renal clear cell carcinoma(50;0.0646)|Kidney(138;0.0805)		TGGCCCGCATGGAGCTGTTTT	0.443													26	79					2.48779e-11	2.68585e-11	0.005443	1	0		T	96495057	T	T	96495057	3	4	4	1	0	0	0	0	1	0	0	0	4168	1348	47	5	1363	5	CYP2C18	10	96495057	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	47514	96495057	39039690	2400	4366											
CYP2C19	1557	broad.mit.edu	37	chr10	96540303	96540303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctgtgctccctgcaatGtgatctgctccattattttc	5	16	9	11	0	1	1	0	1	1	0	4	1	3	1	2	1	3	4	2	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:96540303G>A	uc010qnz.1	+	4	529	c.529G>A	c.(529-531)GTG>ATG	p.V177M	CYP2C19_uc009xus.1_Missense_Mutation_p.V42M|CYP2C19_uc010qny.1_Missense_Mutation_p.V155M	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	177					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	TCCCTGCAATGTGATCTGCTC	0.348													8	127					0	0	0.006214	0	0		A	96540303	A	A	96540303	3	1	4	1	0	0	0	0	1	0	0	0	4169	1377	48	4	543	4	CYP2C19	10	96540303	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	45246	96540303	38994444	2401	4367											
CYP2C19	1557	broad.mit.edu	37	chr10	96602642	96602642	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgttggcagaaaccggagccCctgcatgcaggacaggggcc	9	4	15	13	2	0	1	0	0	0	1	0	3	0	3	4	5	4	4	4	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:96602642C>A	uc010qnz.1	+	7	1010	c.1010C>A	c.(1009-1011)CCC>CAC	p.P337H	CYP2C19_uc010qny.1_Missense_Mutation_p.P315H	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	337					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	AACCGGAGCCCCTGCATGCAG	0.532													27	70					6.00712e-18	6.56958e-18	0.002445	1	0		A	96602642	A	A	96602642	3	1	4	1	0	0	0	0	1	0	0	0	4169	623	22	5	1036	5	CYP2C19	10	96602642	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	62339	96602642	38932105	2402	4368											
ALDH18A1	5832	broad.mit.edu	37	chr10	97371048	97371048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgacatccgtgtgggagctgCcatacttgtggatgtggtca	7	12	14	8	1	1	1	1	1	0	0	2	3	2	3	2	3	3	1	2	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:97371048C>T	uc001kkz.2	-	16	2317	c.2075G>A	c.(2074-2076)GGC>GAC	p.G692D	ALDH18A1_uc001kky.2_Missense_Mutation_p.G690D|ALDH18A1_uc010qog.1_Missense_Mutation_p.G581D|ALDH18A1_uc010qoh.1_Missense_Mutation_p.G480D	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	692	Gamma-glutamyl phosphate reductase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)	GTGGGAGCTGCCATACTTGTG	0.512													10	120					0	0	0.001368	0	0		T	97371048	T	T	97371048	3	4	4	1	0	0	0	0	1	0	0	0	489	739	26	2	324	2	ALDH18A1	10	97371048	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	768406	97371048	38163699	2403	4369											
ENTPD1	953	broad.mit.edu	37	chr10	97605259	97605259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agataatgctctgcaatttcGcctctatggcaaggactaca	12	11	8	10	1	2	1	0	0	2	1	3	2	2	2	1	2	3	3	1	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:97605259G>A	uc001klh.3	+	6	1043	c.719G>A	c.(718-720)CGC>CAC	p.R240H	ENTPD1_uc001kle.1_Missense_Mutation_p.R247H|ENTPD1_uc001kli.3_Missense_Mutation_p.R247H|uc001klg.1_Intron|ENTPD1_uc010qoj.1_Missense_Mutation_p.R252H|ENTPD1_uc010qok.1_Missense_Mutation_p.R132H|ENTPD1_uc010qol.1_Missense_Mutation_p.R132H|ENTPD1_uc010qom.1_Missense_Mutation_p.R240H|ENTPD1_uc010qon.1_Missense_Mutation_p.R102H|ENTPD1_uc009xva.2_Missense_Mutation_p.R102H|ENTPD1_uc009xuz.2_RNA	NM_001776	NP_001767	P49961	ENTP1_HUMAN	ectonucleoside triphosphate diphosphohydrolase 1	240	Extracellular (Potential).				cell adhesion	integral to plasma membrane	ATP binding			ovary(3)	3		Colorectal(252;0.0821)		Epithelial(162;1.31e-07)|all cancers(201;5.33e-06)		CTGCAATTTCGCCTCTATGGC	0.488													10	143					0	0	0.001368	0	0		A	97605259	A	A	97605259	3	1	4	1	0	0	0	0	1	0	0	0	5146	1087	38	1	838	1	ENTPD1	10	97605259	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	234211	97605259	37929488	2404	4370											
CCNJ	54619	broad.mit.edu	37	chr10	97816981	97816981	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactcttgggatttcttagtGcagtgtattgaacgactgtt	8	17	10	6	1	2	1	0	1	2	0	2	3	2	2	0	1	3	3	0	1	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:97816981G>A	uc001klm.2	+	5	1043	c.684G>A	c.(682-684)GTG>GTA	p.V228V	uc001klg.1_Intron|uc001klj.1_Intron|uc009xvb.1_Intron|CCNJ_uc010qoq.1_Silent_p.V239V|CCNJ_uc001kln.2_Silent_p.V227V	NM_019084	NP_061957	Q5T5M9	CCNJ_HUMAN	cyclin J isoform 2	228						nucleus				ovary(1)	1				Epithelial(162;6.1e-08)|all cancers(201;2.32e-06)		ATTTCTTAGTGCAGTGTATTG	0.413													23	91					0	0	0.003954	0	0		A	97816981	A	A	97816981	2	1	4	1	0	0	0	0	0	0	0	1	2931	1306	46	2		2	CCNJ	10	97816981	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	211722	97816981	37717766	2405	4371											
TLL2	7093	broad.mit.edu	37	chr10	98138803	98138803	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagctcccgaaggtgttgacGcactcatgctgacacccgcc	8	8	10	15	3	1	2	1	2	0	0	2	3	2	2	3	1	2	4	3	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:98138803G>A	uc001kml.1	-	17	2467	c.2241C>T	c.(2239-2241)TGC>TGT	p.C747C		NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	747	EGF-like 2; calcium-binding (Potential).				cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		AGGTGTTGACGCACTCATGCT	0.502													13	49					0	0	0.004007	0	0		A	98138803	A	A	98138803	2	1	4	1	0	0	0	0	0	0	0	1	15971	1079	38	1		1	TLL2	10	98138803	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	321822	98138803	37395944	2406	4372											
C10orf12	26148	broad.mit.edu	37	chr10	98742563	98742563	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaggacggtgatgtaaaatgCctgtcagaaaaagacacgta	16	7	12	6	2	1	3	1	1	0	2	1	5	1	4	1	2	1	2	1	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:98742563C>A	uc001kmv.2	+	1	1523	c.1416C>A	c.(1414-1416)TGC>TGA	p.C472*	C10orf12_uc009xvg.1_Nonsense_Mutation_p.C782*	NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	472										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		ATGTAAAATGCCTGTCAGAAA	0.418													46	154					2.24722e-20	2.46176e-20	0.00361	1	0		A	98742563	A	A	98742563	4	1	4	1	0	0	0	0	0	1	0	0	1592	747	26	5	1418	5	C10orf12	10	98742563	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	603760	98742563	36792184	2407	4373											
ARHGAP19	84986	broad.mit.edu	37	chr10	99019239	99019239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcttgtcttgtttctttgCtgtctggtataggagatcaa	6	19	10	6	0	5	1	1	0	4	1	5	2	5	1	0	2	1	4	0	2	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:99019239C>T	uc001knb.2	-	5	789	c.760G>A	c.(760-762)GCA>ACA	p.A254T	ARHGAP19_uc001kmy.2_RNA|ARHGAP19_uc001kna.2_Missense_Mutation_p.A245T|ARHGAP19_uc009xvi.2_RNA|ARHGAP19_uc009xvj.2_Missense_Mutation_p.A254T|ARHGAP19_uc009xvk.2_Missense_Mutation_p.A48T	NM_032900	NP_116289	Q14CB8	RHG19_HUMAN	Rho GTPase activating protein 19	254	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	GTPase activator activity				0		Colorectal(252;0.0854)		Epithelial(162;7.65e-09)|all cancers(201;4.49e-07)		TGTTTCTTTGCTGTCTGGTAT	0.458													8	135					0	0	0.004482	0	0		T	99019239	T	T	99019239	3	4	4	1	0	0	0	0	1	0	0	0	869	797	28	2	756	2	ARHGAP19	10	99019239	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	276676	99019239	36515508	2408	4374											
RRP12	23223	broad.mit.edu	37	chr10	99120319	99120319	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccttggtactgagggggTatctccagctcctcctcctc	5	12	9	15	0	2	1	1	1	1	0	7	1	5	1	5	3	2	3	5	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:99120319T>C	uc001knf.2	-	31	3763	c.3624A>G	c.(3622-3624)ATA>ATG	p.I1208M	RRP12_uc001kne.2_Missense_Mutation_p.I223M|RRP12_uc009xvl.2_Missense_Mutation_p.I325M|RRP12_uc009xvm.2_Missense_Mutation_p.I926M|RRP12_uc010qou.1_Missense_Mutation_p.I1147M|RRP12_uc009xvn.2_Missense_Mutation_p.I1108M	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	1208						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		ACTGAGGGGGTATCTCCAGCT	0.552													4	60					0	0	0.000602	0	0		C	99120319	C	C	99120319	3	2	4	1	0	0	0	0	1	0	0	0	13711	1628	57	3	285	3	RRP12	10	99120319	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	101080	99120319	36414428	2409	4375											
EXOSC1	51013	broad.mit.edu	37	chr10	99200984	99200984	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccccacatacaggatgtgTactttggcaaagcgtgaatt	12	10	10	9	1	0	1	0	1	0	0	0	3	0	2	2	2	3	2	2	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:99200984T>C	uc001kni.2	-	4	281	c.255A>G	c.(253-255)GTA>GTG	p.V85V	EXOSC1_uc009xvp.1_RNA	NM_016046	NP_057130	Q9Y3B2	EXOS1_HUMAN	exosomal core protein CSL4	85	S1 motif.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	protein binding|RNA binding				0		Renal(717;0.000147)|Colorectal(252;0.00205)|Ovarian(717;0.00965)		all cancers(201;8.29e-42)|Epithelial(162;5.7e-33)|BRCA - Breast invasive adenocarcinoma(275;0.000315)|Kidney(138;0.000832)|KIRC - Kidney renal clear cell carcinoma(50;0.00269)|STAD - Stomach adenocarcinoma(243;0.202)		ACAGGATGTGTACTTTGGCAA	0.428													3	77					0	0	0.004672	0	0		C	99200984	C	C	99200984	2	2	4	1	0	0	0	0	0	0	0	1	5321	1625	57	3		3	EXOSC1	10	99200984	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	80665	99200984	36333763	2410	4376											
LOXL4	84171	broad.mit.edu	37	chr10	100021879	100021879	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccctacgtcttctgagtgActgcagtcactgactcccca	8	10	7	16	1	3	3	1	3	2	0	4	3	4	3	4	0	2	1	4	0	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:100021879A>G	uc001kpa.1	-	3	520	c.369T>C	c.(367-369)AGT>AGC	p.S123S		NM_032211	NP_115587	Q96JB6	LOXL4_HUMAN	lysyl oxidase-like 4 precursor	123	SRCR 1.					extracellular space|membrane	copper ion binding|protein binding|scavenger receptor activity			ovary(3)|breast(1)|skin(1)	5		Colorectal(252;0.234)		Epithelial(162;2.14e-11)|all cancers(201;2.49e-09)		CTTCTGAGTGACTGCAGTCAC	0.597													5	16					0	0	0.006214	0	0		G	100021879	G	G	100021879	2	3	4	1	0	0	0	0	0	0	0	1	8920	272	10	3		3	LOXL4	10	100021879	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	820895	100021879	35512868	2411	4377											
PYROXD2	84795	broad.mit.edu	37	chr10	100155209	100155209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgggctcccaggatgcggCctacaagagaagatccacaa	12	5	12	12	1	0	2	0	0	0	2	2	4	2	3	3	3	2	2	3	3	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:100155209C>T	uc001kpc.2	-	7	712	c.626G>A	c.(625-627)GGC>GAC	p.G209D	PYROXD2_uc001kpb.2_RNA|PYROXD2_uc001kpd.2_RNA|PYROXD2_uc010qpe.1_Missense_Mutation_p.G209D|MIR1287_hsa-mir-1287|MI0006349_5'Flank	NM_032709	NP_116098	Q8N2H3	PYRD2_HUMAN	pyridine nucleotide-disulphide oxidoreductase	209							oxidoreductase activity			central_nervous_system(1)	1						CAGGATGCGGCCTACAAGAGA	0.557													18	42					0	0	0.007413	0	0		T	100155209	T	T	100155209	3	4	4	1	0	0	0	0	1	0	0	0	12892	753	26	2	1159	2	PYROXD2	10	100155209	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	133330	100155209	35379538	2412	4378											
GOT1	2805	broad.mit.edu	37	chr10	101157412	101157412	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggcagcaggtagatgtgCttttcattgaccagatactc	9	13	10	9	0	1	3	1	1	0	2	2	3	1	3	1	2	3	4	1	2	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:101157412C>T	uc001kpr.2	-	9	1342	c.1134G>A	c.(1132-1134)AAG>AAA	p.K378K	GOT1_uc009xwh.2_RNA|GOT1_uc001kpq.1_Silent_p.K91K	NM_002079	NP_002070	P17174	AATC_HUMAN	aspartate aminotransferase 1	378					aspartate catabolic process|cellular response to insulin stimulus|gluconeogenesis|response to glucocorticoid stimulus	cytosol	L-aspartate:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding				0		Ovarian(717;0.028)|Colorectal(252;0.234)		Epithelial(162;4.76e-10)|all cancers(201;3.84e-08)	L-Aspartic Acid(DB00128)|L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GGTAGATGTGCTTTTCATTGA	0.458													19	57					0	0	0.008871	0	0		T	101157412	T	T	101157412	2	4	4	1	0	0	0	0	0	0	0	1	6594	796	28	2		2	GOT1	10	101157412	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1002203	101157412	34377335	2413	4379											
ABCC2	1244	broad.mit.edu	37	chr10	101560202	101560202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggattggatatctctgtgCaatcctcttattcactgcgg	7	15	10	9	1	3	0	1	0	2	0	5	2	4	2	1	3	2	1	1	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:101560202C>T	uc001kqf.2	+	9	1230	c.1091C>T	c.(1090-1092)GCA>GTA	p.A364V		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	364	ABC transmembrane type-1 1.|Helical; Name=7; (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TATCTCTGTGCAATCCTCTTA	0.443													13	237					0	0	0.00245	0	0		T	101560202	T	T	101560202	3	4	4	1	0	0	0	0	1	0	0	0	53	710	25	2	1125	2	ABCC2	10	101560202	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	402790	101560202	33974545	2414	4380											
DNMBP	23268	broad.mit.edu	37	chr10	101639731	101639731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttccggtagctcctcggcGtggcagtgggttgctttaca	5	12	14	10	3	0	0	0	0	0	0	3	0	2	0	2	4	3	6	2	4	2	5	rs147752816	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:101639731G>A	uc001kqj.2	-	16	4477	c.4385C>T	c.(4384-4386)ACG>ATG	p.T1462M	DNMBP_uc010qpl.1_Missense_Mutation_p.T398M|DNMBP_uc001kqg.2_Missense_Mutation_p.T750M|DNMBP_uc001kqh.2_Missense_Mutation_p.T1094M	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	1462					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		GCTCCTCGGCGTGGCAGTGGG	0.537													5	60					0	0	0.001984	0	0		A	101639731	A	A	101639731	3	1	4	1	0	0	0	0	1	0	0	0	4680	1145	40	1	356	1	DNMBP	10	101639731	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	79529	101639731	33895016	2415	4381											
PKD2L1	9033	broad.mit.edu	37	chr10	102054822	102054822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggatgtccttggcacagCgggccagcgtggaggagagc	8	5	17	11	2	0	1	0	0	0	1	1	4	1	3	3	5	3	1	3	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:102054822C>T	uc001kqx.1	-	8	1798	c.1415G>A	c.(1414-1416)CGC>CAC	p.R472H	PKD2L1_uc009xwm.1_Missense_Mutation_p.R425H	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	472	Cytoplasmic (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		CTTGGCACAGCGGGCCAGCGT	0.512													21	62					0	0	0.00333	0	0		T	102054822	T	T	102054822	3	4	4	1	0	0	0	0	1	0	0	0	11986	768	27	1	1038	1	PKD2L1	10	102054822	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	415091	102054822	33479925	2416	4382											
TLX1	3195	broad.mit.edu	37	chr10	102896498	102896498	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcagcaagcgaaccgcaTcctcctgcagttgcagcagg	10	5	13	13	2	0	0	0	0	0	0	2	2	2	0	3	2	6	7	3	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:102896498T>C	uc001ksw.2	+	3	1059	c.821T>C	c.(820-822)ATC>ACC	p.I274T		NM_005521	NP_005512	P31314	TLX1_HUMAN	T-cell leukemia homeobox 1	274						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1				Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		GCGAACCGCATCCTCCTGCAG	0.667			T	TRB@|TRD@	T-ALL								6	17					0	0	0.008291	0	0		C	102896498	C	C	102896498	3	2	4	1	0	0	0	0	1	0	0	0	15984	1435	50	3	831	3	TLX1	10	102896498	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	841676	102896498	32638249	2417	4383											
BTRC	8945	broad.mit.edu	37	chr10	103294488	103294488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaagcagttctgcacttgCgtttcaataatggcatgatg	10	13	11	7	1	2	2	1	2	1	0	2	2	2	2	0	1	3	5	0	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:103294488C>T	uc001kta.2	+	10	1281	c.1168C>T	c.(1168-1170)CGT>TGT	p.R390C	BTRC_uc001ktb.2_Missense_Mutation_p.R354C|BTRC_uc001ktc.2_Missense_Mutation_p.R364C	NM_033637	NP_378663	Q9Y297	FBW1A_HUMAN	beta-transducin repeat containing protein	390	WD 3.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|positive regulation of proteolysis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|viral reproduction|Wnt receptor signaling pathway	cytosol|nucleus|SCF ubiquitin ligase complex				ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;1.05e-08)|all cancers(201;6.59e-07)		TCTGCACTTGCGTTTCAATAA	0.458													40	109					0	0	0.002852	0	0		T	103294488	T	T	103294488	3	4	4	1	0	0	0	0	1	0	0	0	1572	768	27	1	1206	1	BTRC	10	103294488	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	397990	103294488	32240259	2418	4384											
PPRC1	23082	broad.mit.edu	37	chr10	103899333	103899333	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaggcagccacagctggCgatgacctggagatcccagt	9	5	15	12	1	0	2	0	1	0	1	1	4	1	2	3	4	2	3	3	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:103899333C>T	uc001kum.2	+	5	1107	c.1068C>T	c.(1066-1068)GGC>GGT	p.G356G	PPRC1_uc001kun.2_Silent_p.G236G|PPRC1_uc010qqj.1_Silent_p.G356G|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	356					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		CCACAGCTGGCGATGACCTGG	0.592													5	60					0	0	0.001168	0	0		T	103899333	T	T	103899333	2	4	4	1	0	0	0	0	0	0	0	1	12432	755	27	1		1	PPRC1	10	103899333	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	604845	103899333	31635414	2419	4385											
GBF1	8729	broad.mit.edu	37	chr10	104119942	104119942	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctggccttccccaggCacagctttggtcccctatgg	4	11	9	17	0	0	0	0	0	0	0	4	0	4	0	7	4	1	2	7	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:104119942C>T	uc001kux.1	+	12	1419	c.1179C>T	c.(1177-1179)GGC>GGT	p.G393G	GBF1_uc001kuw.2_3'UTR|GBF1_uc001kuy.1_Silent_p.G393G|GBF1_uc001kuz.1_Silent_p.G394G	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	393					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CTTCCCCAGGCACAGCTTTGG	0.522													83	241					0	0	0.00361	0	0		T	104119942	T	T	104119942	2	4	4	1	0	0	0	0	0	0	0	1	6286	724	25	2		2	GBF1	10	104119942	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	220609	104119942	31414805	2420	4386											
TAF5	6877	broad.mit.edu	37	chr10	105147784	105147784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcaatggataatacagttcGattatgggatgctatcaaag	14	13	9	5	1	2	0	2	0	0	0	3	3	2	2	0	2	2	2	0	2	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:105147784G>A	uc001kwv.2	+	11	2230	c.2207G>A	c.(2206-2208)CGA>CAA	p.R736Q	TAF5_uc010qqq.1_Missense_Mutation_p.R681Q	NM_006951	NP_008882	Q15542	TAF5_HUMAN	TBP-associated factor 5	736	WD 6.				histone acetylation|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	actin cytoskeleton|transcription factor TFIID complex|transcription factor TFTC complex	protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;1.83e-09)|all cancers(201;1.4e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		AATACAGTTCGATTATGGGAT	0.373													6	98					0	0	0.00308	0	0		A	105147784	A	A	105147784	3	1	4	1	0	0	0	0	1	0	0	0	15553	1058	37	1	2249	1	TAF5	10	105147784	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1027842	105147784	30386963	2421	4387											
CALHM2	51063	broad.mit.edu	37	chr10	105209370	105209370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtgacaggggccacagccGcacgtcccaggatggagctt	9	5	15	12	2	0	1	0	1	0	0	1	3	1	3	3	5	2	2	3	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:105209370G>A	uc001kwz.2	-	2	715	c.329C>T	c.(328-330)GCG>GTG	p.A110V	CALHM2_uc001kxa.2_Missense_Mutation_p.A110V|CALHM2_uc001kxc.2_Missense_Mutation_p.A110V|CALHM2_uc001kxb.2_Missense_Mutation_p.A110V|CALHM2_uc001kxd.1_Missense_Mutation_p.A110V	NM_015916	NP_057000	Q9HA72	CAHM2_HUMAN	calcium homeostasis modulator 2	110	Helical; (Potential).					integral to membrane				skin(1)	1						GGCCACAGCCGCACGTCCCAG	0.627													6	31					0	0	0.00308	0	0		A	105209370	A	A	105209370	3	1	4	1	0	0	0	0	1	0	0	0	2586	1087	38	1	650	1	CALHM2	10	105209370	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	61586	105209370	30325377	2422	4388											
NEURL	9148	broad.mit.edu	37	chr10	105331403	105331403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgggccaaggcgctgcCtgaggagtttgccaatgagg	7	9	15	10	1	1	2	0	2	1	0	1	3	1	3	3	4	2	2	3	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:105331403C>T	uc001kxh.2	+	3	883	c.473C>T	c.(472-474)CCT>CTT	p.P158L		NM_004210	NP_004201	O76050	NEU1A_HUMAN	neuralized-like	158	NHR 1.				nervous system development	perinuclear region of cytoplasm	zinc ion binding				0				Epithelial(162;2.12e-09)|all cancers(201;6.99e-08)|BRCA - Breast invasive adenocarcinoma(275;0.125)		AAGGCGCTGCCTGAGGAGTTT	0.602													4	7					0	0	0.009096	0	0		T	105331403	T	T	105331403	3	4	4	1	0	0	0	0	1	0	0	0	10364	681	24	4	483	4	NEURL	10	105331403	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	122033	105331403	30203344	2423	4389											
C10orf79	80217	broad.mit.edu	37	chr10	105967430	105967430	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagtttcttacccaatggCgattcctcttctatcttatt	8	17	5	11	1	4	0	0	0	4	0	5	2	5	0	2	1	1	1	2	1	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:105967430C>T	uc001kxw.2	-	6	1004	c.888G>A	c.(886-888)TCG>TCA	p.S296S	C10orf79_uc001kxx.3_Silent_p.S296S|C10orf79_uc001kxy.1_Silent_p.S296S|C10orf79_uc001kxz.2_Silent_p.S296S	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	296											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TACCCAATGGCGATTCCTCTT	0.383													8	74					0	0	0.008291	0	0		T	105967430	T	T	105967430	2	4	4	1	0	0	0	0	0	0	0	1	1621	755	27	1		1	C10orf79	10	105967430	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	636027	105967430	29567317	2424	4390											
CCDC147	159686	broad.mit.edu	37	chr10	106130764	106130764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagatcaaaaggcagaagtcGaacagcacaaagaaacccta	21	3	8	9	1	1	3	1	0	0	3	2	4	1	3	1	1	3	2	1	1	8	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:106130764G>A	uc001kyh.2	+	7	1176	c.1042G>A	c.(1042-1044)GAA>AAA	p.E348K		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	348	Potential.									ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		GGCAGAAGTCGAACAGCACAA	0.378													28	78					0	0	0.003755	0	0		A	106130764	A	A	106130764	3	1	4	1	0	0	0	0	1	0	0	0	2784	1059	37	1	1068	1	CCDC147	10	106130764	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	163334	106130764	29403983	2425	4391											
SORCS3	22986	broad.mit.edu	37	chr10	106960891	106960891	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaagggagagccttgtgTcatgggagaaaggaaaatat	14	9	13	5	0	2	2	1	0	1	2	2	5	2	3	1	3	1	0	1	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:106960891T>C	uc001kyi.1	+	16	2368	c.2141T>C	c.(2140-2142)GTC>GCC	p.V714A	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	714	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GAGCCTTGTGTCATGGGAGAA	0.458													5	49					0	0	0.000602	0	0		C	106960891	C	C	106960891	3	2	4	1	0	0	0	0	1	0	0	0	14957	1667	58	3	2203	3	SORCS3	10	106960891	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	830127	106960891	28573856	2426	4392											
SORCS3	22986	broad.mit.edu	37	chr10	107012607	107012607	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcagcagagcttttcatTcttccacccaagaacctgac	11	11	5	14	0	3	3	2	1	1	2	4	3	4	3	3	0	3	2	3	0	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:107012607T>C	uc001kyi.1	+	23	3407	c.3180T>C	c.(3178-3180)ATT>ATC	p.I1060I	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	1060	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		AGCTTTTCATTCTTCCACCCA	0.507													3	59					0	0	0.004672	0	0		C	107012607	C	C	107012607	2	2	4	1	0	0	0	0	0	0	0	1	14957	1771	62	3		3	SORCS3	10	107012607	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	51716	107012607	28522140	2427	4393											
ACSL5	51703	broad.mit.edu	37	chr10	114173039	114173039	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattgtttcccgcggtgcctCgactccttaacaggatctac	7	12	8	14	3	1	0	0	0	1	0	4	2	3	1	3	2	3	1	3	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:114173039C>T	uc001kzs.2	+	12	1198	c.1057C>T	c.(1057-1059)CGA>TGA	p.R353*	ACSL5_uc001kzt.2_Nonsense_Mutation_p.R353*|ACSL5_uc001kzu.2_Nonsense_Mutation_p.R409*|ACSL5_uc009xxz.2_Nonsense_Mutation_p.R353*|ACSL5_uc010qrj.1_Nonsense_Mutation_p.R135*	NM_203379	NP_976313	Q9ULC5	ACSL5_HUMAN	acyl-CoA synthetase long-chain family member 5	353	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(2)|skin(1)	3		Colorectal(252;0.117)|Breast(234;0.222)		Epithelial(162;0.0343)|all cancers(201;0.137)		CGCGGTGCCTCGACTCCTTAA	0.493													11	108					0	0	0.00245	0	0		T	114173039	T	T	114173039	4	4	4	1	0	0	0	0	0	1	0	0	180	876	31	1	1271	1	ACSL5	10	114173039	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7160432	114173039	21361708	2428	4394											
HABP2	3026	broad.mit.edu	37	chr10	115334090	115334090	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacagctacgaggattataAtcaggaagagaacaccagta	17	8	9	7	1	1	1	1	0	0	1	1	5	1	3	1	2	4	2	1	2	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:115334090A>C	uc001lai.3	+	3	252	c.149A>C	c.(148-150)AAT>ACT	p.N50T	HABP2_uc010qrz.1_RNA|HABP2_uc010qry.1_Missense_Mutation_p.I39L	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	50					cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		GAGGATTATAATCAGGAAGAG	0.473													23	88					0	0	0.00333	0	0		C	115334090	C	C	115334090	3	2	4	1	0	0	0	0	1	0	0	0	6954	101	4	5	159	5	HABP2	10	115334090	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1161051	115334090	20200657	2429	4395											
VWA2	340706	broad.mit.edu	37	chr10	116045881	116045881	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagggagctgctggtggCggtgcctgtgggggagtacc	5	7	20	9	1	0	0	0	0	0	0	0	2	0	2	2	6	5	4	2	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:116045881C>T	uc001lbl.1	+	11	1502	c.1181C>T	c.(1180-1182)GCG>GTG	p.A394V	VWA2_uc001lbk.1_Missense_Mutation_p.A394V|VWA2_uc009xyf.1_Missense_Mutation_p.A90V	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	394	VWFA 2.					extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		CTGCTGGTGGCGGTGCCTGTG	0.667													10	24					0	0	0.000978	0	0		T	116045881	T	T	116045881	3	4	4	1	0	0	0	0	1	0	0	0	17265	768	27	1	1219	1	VWA2	10	116045881	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	711791	116045881	19488866	2430	4396											
ATRNL1	26033	broad.mit.edu	37	chr10	117075167	117075167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaatgaagcttattggaatGcaccacagtgagatggttct	12	11	10	8	0	1	2	0	2	1	1	1	4	1	3	2	2	2	3	2	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:117075167G>A	uc001lcg.2	+	18	3344	c.2958G>A	c.(2956-2958)ATG>ATA	p.M986I	ATRNL1_uc010qsm.1_Missense_Mutation_p.M161I|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	986	PSI 5.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		TTATTGGAATGCACCACAGTG	0.433													25	103					0	0	0.008361	0	0		A	117075167	A	A	117075167	3	1	4	1	0	0	0	0	1	0	0	0	1208	1319	46	2	3028	2	ATRNL1	10	117075167	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1029286	117075167	18459580	2431	4397											
PNLIPRP3	119548	broad.mit.edu	37	chr10	118215275	118215275	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctaaagtgcacttgattggCcacagcttgggagcacacct	10	10	10	11	0	1	1	0	1	1	0	1	2	1	2	2	2	3	3	2	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:118215275C>T	uc001lcl.3	+	5	599	c.498C>T	c.(496-498)GGC>GGT	p.G166G		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	166					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		ACTTGATTGGCCACAGCTTGG	0.433													11	30					0	0	0.001855	0	0		T	118215275	T	T	118215275	2	4	4	1	0	0	0	0	0	0	0	1	12171	726	26	2		2	PNLIPRP3	10	118215275	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1140108	118215275	17319472	2432	4398											
PNLIPRP3	119548	broad.mit.edu	37	chr10	118228829	118228829	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccctttccccatttgccCgtaagtatcatagctaagtt	8	14	7	12	1	1	0	1	0	0	0	3	0	3	0	4	1	2	4	4	1	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:118228829C>T	uc001lcl.3	+	9	1161	c.1060C>T	c.(1060-1062)CGT>TGT	p.R354C		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	354					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		CCCATTTGCCCGTAAGTATCA	0.254													3	26					0	0	0.004672	0	0		T	118228829	T	T	118228829	3	4	4	1	0	0	0	0	1	0	0	0	12171	666	23	1	1094	1	PNLIPRP3	10	118228829	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	13554	118228829	17305918	2433	4399											
PDZD8	118987	broad.mit.edu	37	chr10	119043322	119043322	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgccttcgttgtctgaCgtgttgggtgtgtgttttgg	2	18	14	7	2	2	1	1	1	1	0	3	1	2	1	1	2	1	3	1	2	0	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:119043322C>T	uc001lde.1	-	5	3121	c.2922G>A	c.(2920-2922)ACG>ACA	p.T974T		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	974					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		CGTTGTCTGACGTGTTGGGTG	0.463													14	277					0	0	0.003163	0	0		T	119043322	T	T	119043322	2	4	4	1	0	0	0	0	0	0	0	1	11724	523	19	1		1	PDZD8	10	119043322	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	814493	119043322	16491425	2434	4400											
EIF3A	8661	broad.mit.edu	37	chr10	120832428	120832428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaatatcatggtacaggCgctctactctagaattgttt	10	13	10	8	1	3	1	1	0	2	1	3	1	3	1	0	3	2	4	0	3	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:120832428C>T	uc001ldu.2	-	4	661	c.515G>A	c.(514-516)CGC>CAC	p.R172H	EIF3A_uc010qsu.1_Missense_Mutation_p.R138H	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	172					formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		ATGGTACAGGCGCTCTACTCT	0.393													7	143					0	0	0.001984	0	0		T	120832428	T	T	120832428	3	4	4	1	0	0	0	0	1	0	0	0	5018	768	27	1	3709	1	EIF3A	10	120832428	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1789106	120832428	14702319	2435	4401											
RGS10	6001	broad.mit.edu	37	chr10	121275054	121275054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctggaacatcagagggtgCggttcttccaggatcttctc	7	13	11	10	1	5	1	1	0	4	1	7	3	6	3	1	4	2	1	1	4	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:121275054C>T	uc001lee.2	-	3	342	c.342G>A	c.(340-342)CCG>CCA	p.P114P	RGS10_uc001lef.2_Silent_p.P108P|RGS10_uc001leg.2_Silent_p.P122P	NM_002925	NP_002916	O43665	RGS10_HUMAN	regulator of G-protein signaling 10 isoform b	114	RGS.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|protein binding|signal transducer activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00105)|GBM - Glioblastoma multiforme(135;0.195)		TCAGAGGGTGCGGTTCTTCCA	0.512													15	20					0	0	0.003163	0	0		T	121275054	T	T	121275054	2	4	4	1	0	0	0	0	0	0	0	1	13318	755	27	1		1	RGS10	10	121275054	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	442626	121275054	14259693	2436	4402											
RGS10	6001	broad.mit.edu	37	chr10	121286870	121286870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagattctccagggatgccGcccatttggctgtgctcttg	5	12	12	12	1	2	1	0	0	2	1	3	2	2	2	3	2	2	3	3	2	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:121286870G>A	uc001lee.2	-	1	92	c.92C>T	c.(91-93)GCG>GTG	p.A31V	RGS10_uc001lef.2_Missense_Mutation_p.A25V|RGS10_uc001leg.2_Missense_Mutation_p.A39V	NM_002925	NP_002916	O43665	RGS10_HUMAN	regulator of G-protein signaling 10 isoform b	31					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|protein binding|signal transducer activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00105)|GBM - Glioblastoma multiforme(135;0.195)		CAGGGATGCCGCCCATTTGGC	0.512													10	28					0	0	0.001368	0	0		A	121286870	A	A	121286870	3	1	4	1	0	0	0	0	1	0	0	0	13318	1087	38	1	445	1	RGS10	10	121286870	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11816	121286870	14247877	2437	4403											
INPP5F	22876	broad.mit.edu	37	chr10	121551118	121551118	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctactgaagacctttacGcatattaaatccaatgtgtc	12	15	5	9	1	1	2	0	1	1	1	3	2	2	2	2	0	2	1	2	0	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:121551118G>A	uc001leo.2	+	4	571	c.405G>A	c.(403-405)ACG>ACA	p.T135T	INPP5F_uc001len.3_Silent_p.T135T	NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	135							phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		AGACCTTTACGCATATTAAAT	0.318													5	99					0	0	0.000602	0	0		A	121551118	A	A	121551118	2	1	4	1	0	0	0	0	0	0	0	1	7774	1074	38	1		1	INPP5F	10	121551118	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	264248	121551118	13983629	2438	4404											
C10orf119	79892	broad.mit.edu	37	chr10	121591566	121591566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagatcatcagcagtgatgCtctgagggtcgttcttccgc	8	11	12	10	2	4	3	2	2	2	1	6	4	5	3	1	1	2	3	1	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:121591566C>T	uc001ler.2	-	15	2058	c.1760G>A	c.(1759-1761)AGC>AAC	p.S587N	C10orf119_uc001leq.1_Missense_Mutation_p.S412N|C10orf119_uc001les.1_Missense_Mutation_p.S412N	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	587					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)		AGCAGTGATGCTCTGAGGGTC	0.428													6	72					0	0	0.008291	0	0		T	121591566	T	T	121591566	3	4	4	1	0	0	0	0	1	0	0	0	1591	797	28	2	176	2	C10orf119	10	121591566	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	40448	121591566	13943181	2439	4405											
C10orf119	79892	broad.mit.edu	37	chr10	121612620	121612620	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggctgtaggtccatatcGtcatcatcttcataactcct	8	15	7	11	1	4	0	3	0	1	0	7	0	6	0	2	2	1	2	2	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:121612620G>A	uc001ler.2	-	6	814	c.516C>T	c.(514-516)GAC>GAT	p.D172D	C10orf119_uc001leq.1_Translation_Start_Site|C10orf119_uc001les.1_Translation_Start_Site|C10orf119_uc001let.1_Translation_Start_Site	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	172					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)		GGTCCATATCGTCATCATCTT	0.458													10	194					0	0	0.008291	0	0		A	121612620	A	A	121612620	2	1	4	1	0	0	0	0	0	0	0	1	1591	1136	40	1		1	C10orf119	10	121612620	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	21054	121612620	13922127	2440	4406											
TACC2	10579	broad.mit.edu	37	chr10	123846012	123846012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgccatgcctggaccggatgCcacttctggccaagggcaag	8	7	13	13	1	1	0	0	0	1	0	1	2	1	2	5	4	3	1	5	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:123846012C>T	uc001lfv.2	+	4	4357	c.3997C>T	c.(3997-3999)CCA>TCA	p.P1333S	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.P1333S|TACC2_uc010qtv.1_Missense_Mutation_p.P1333S	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1333						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				GGACCGGATGCCACTTCTGGC	0.612													5	31					0	0	0.000602	0	0		T	123846012	T	T	123846012	3	4	4	1	0	0	0	0	1	0	0	0	15527	739	26	2	4007	2	TACC2	10	123846012	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2233392	123846012	11688735	2441	4407											
HTRA1	5654	broad.mit.edu	37	chr10	124268280	124268280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggagtcccatgaccgacagGccaaaggtaggcaaggccca	12	3	13	13	2	0	1	0	1	0	0	1	3	1	2	4	5	0	2	4	5	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:124268280G>A	uc001lgj.2	+	6	1242	c.1114G>A	c.(1114-1116)GCC>ACC	p.A372T		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	372	PDZ.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				TGACCGACAGGCCAAAGGTAG	0.537													22	70					0	0	0.00278	0	0		A	124268280	A	A	124268280	3	1	4	1	0	0	0	0	1	0	0	0	7469	1203	42	2	1136	2	HTRA1	10	124268280	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	422268	124268280	11266467	2442	4408											
ACADSB	36	broad.mit.edu	37	chr10	124800157	124800157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggaacagaagaacaaaaggCcacctatttgcctcagctca	15	7	8	11	0	2	2	2	0	0	2	2	3	2	3	3	2	4	1	3	2	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:124800157C>T	uc001lhb.2	+	4	596	c.479C>T	c.(478-480)GCC>GTC	p.A160V	ACADSB_uc010qub.1_Missense_Mutation_p.A58V	NM_001609	NP_001600	P45954	ACDSB_HUMAN	acyl-Coenzyme A dehydrogenase, short/branched	160					branched chain family amino acid catabolic process|fatty acid metabolic process	mitochondrial matrix	flavin adenine dinucleotide binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.0811)|COAD - Colon adenocarcinoma(40;0.0835)	L-Isoleucine(DB00167)	GAACAAAAGGCCACCTATTTG	0.348													5	91					0	0	0.001984	0	0		T	124800157	T	T	124800157	3	4	4	1	0	0	0	0	1	0	0	0	115	739	26	2	493	2	ACADSB	10	124800157	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	531877	124800157	10734590	2443	4409											
CPXM2	119587	broad.mit.edu	37	chr10	125528124	125528124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccaccaggtggacgatgCgcgcattccgggccaagtac	8	6	12	15	4	0	0	0	0	0	0	2	2	2	1	5	3	2	2	5	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:125528124C>T	uc001lhk.1	-	9	1542	c.1217G>A	c.(1216-1218)CGC>CAC	p.R406H	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	406					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		GTGGACGATGCGCGCATTCCG	0.647													12	43					0	0	0.001855	0	0		T	125528124	T	T	125528124	3	4	4	1	0	0	0	0	1	0	0	0	3841	768	27	1	1077	1	CPXM2	10	125528124	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	727967	125528124	10006623	2444	4410											
CHST15	51363	broad.mit.edu	37	chr10	125780848	125780848	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgcaattttcaaacagcTgcagtgcttctgtcactttc	9	14	7	11	0	3	0	2	0	1	0	4	0	3	0	0	0	5	5	0	0	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:125780848T>C	uc001lhl.2	-	5	1784	c.1271A>G	c.(1270-1272)CAG>CGG	p.Q424R	CHST15_uc001lhm.2_Missense_Mutation_p.Q424R|CHST15_uc001lhn.2_Missense_Mutation_p.Q424R|CHST15_uc010que.1_Missense_Mutation_p.Q424R|CHST15_uc001lho.2_Missense_Mutation_p.Q424R	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	424	Lumenal (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1						TTCAAACAGCTGCAGTGCTTC	0.478													11	16					0	0	0.001368	0	0		C	125780848	C	C	125780848	3	2	4	1	0	0	0	0	1	0	0	0	3406	1580	55	3	426	3	CHST15	10	125780848	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	252724	125780848	9753899	2445	4411											
ZRANB1	54764	broad.mit.edu	37	chr10	126631374	126631374	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccaagagcaatcagatgTacccagtgcttatcccaacg	12	8	9	12	1	1	2	1	0	0	2	2	2	2	2	3	1	4	3	3	1	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:126631374T>C	uc001lic.2	+	1	683	c.312T>C	c.(310-312)TGT>TGC	p.C104C	ZRANB1_uc010qug.1_Silent_p.C130C	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	104	RanBP2-type 2.				positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)		CAATCAGATGTACCCAGTGCT	0.458													13	98					0	0	0.003163	0	0		C	126631374	C	C	126631374	2	2	4	1	0	0	0	0	0	0	0	1	18247	1644	57	3		3	ZRANB1	10	126631374	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	850526	126631374	8903373	2446	4412											
ZRANB1	54764	broad.mit.edu	37	chr10	126671767	126671767	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagcaagcttggagcagacGcacatttttgtactggcaca	11	9	12	9	1	0	1	0	0	0	1	0	3	0	3	0	3	4	6	0	3	2	4	rs75293113	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:126671767G>A	uc001lic.2	+	7	1943	c.1572G>A	c.(1570-1572)ACG>ACA	p.T524T	ZRANB1_uc010qug.1_Silent_p.T550T	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	524	OTU.|TRAF-binding.				positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)		TGGAGCAGACGCACATTTTTG	0.363													8	82					0	0	0.006214	0	0		A	126671767	A	A	126671767	2	1	4	1	0	0	0	0	0	0	0	1	18247	1074	38	1		1	ZRANB1	10	126671767	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	40393	126671767	8862980	2447	4413											
CTBP2	1488	broad.mit.edu	37	chr10	126691653	126691653	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgtggtacatcatggcGcccacggcttcgtttagaac	8	11	12	10	3	1	1	1	0	0	1	2	1	1	1	1	4	2	3	1	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:126691653G>A	uc009yak.2	-	5	521	c.234C>T	c.(232-234)GGC>GGT	p.G78G	CTBP2_uc009yal.2_Silent_p.G78G|CTBP2_uc001lif.3_Silent_p.G78G|CTBP2_uc001lih.3_Silent_p.G78G|CTBP2_uc001lid.3_Silent_p.G146G|CTBP2_uc001lie.3_Silent_p.G618G	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1	78					negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)		ACATCATGGCGCCCACGGCTT	0.632													4	37					0	0	0.001168	0	0		A	126691653	A	A	126691653	2	1	4	1	0	0	0	0	0	0	0	1	4001	1074	38	1		1	CTBP2	10	126691653	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	19886	126691653	8843094	2448	4414											
C10orf137	26098	broad.mit.edu	37	chr10	127414270	127414270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtatcaatggtgatggagccGctcagcctgtctcatccacc	8	10	10	13	1	3	1	3	1	1	0	5	2	4	2	4	2	2	2	4	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:127414270G>A	uc001liq.1	+	6	948	c.655G>A	c.(655-657)GCT>ACT	p.A219T	C10orf137_uc001lin.2_Missense_Mutation_p.A219T|C10orf137_uc001lio.1_Missense_Mutation_p.A219T|C10orf137_uc001lip.1_5'UTR	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	219					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TGATGGAGCCGCTCAGCCTGT	0.458													9	31					0	0	0.006214	0	0		A	127414270	A	A	127414270	3	1	4	1	0	0	0	0	1	0	0	0	1597	1087	38	1	677	1	C10orf137	10	127414270	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	722617	127414270	8120477	2449	4415											
C10orf137	26098	broad.mit.edu	37	chr10	127424342	127424342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgaagaggaggaagagatgCccgacagtgatgaaaatgga	16	5	16	4	1	0	5	0	3	0	2	0	10	0	8	1	3	1	0	1	3	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:127424342C>T	uc001liq.1	+	13	1920	c.1627C>T	c.(1627-1629)CCC>TCC	p.P543S	C10orf137_uc001lin.2_Missense_Mutation_p.P509S|C10orf137_uc001lio.1_Missense_Mutation_p.P509S|C10orf137_uc001lip.1_Missense_Mutation_p.P247S|C10orf137_uc001lir.2_Missense_Mutation_p.P37S	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	543					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GGAAGAGATGCCCGACAGTGA	0.378													15	51					0	0	0.003163	0	0		T	127424342	T	T	127424342	3	4	4	1	0	0	0	0	1	0	0	0	1597	739	26	2	1571	2	C10orf137	10	127424342	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10072	127424342	8110405	2450	4416											
DHX32	55760	broad.mit.edu	37	chr10	127540971	127540971	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttctgctggcttcagtggCgtcatgtctttggaggcaaa	7	14	12	8	1	4	0	2	0	2	0	4	1	4	1	0	4	1	3	0	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:127540971C>T	uc001ljf.1	-	6	1733	c.1242G>A	c.(1240-1242)ACG>ACA	p.T414T	BCCIP_uc001ljd.3_Intron|DHX32_uc001lje.1_Silent_p.T38T|DHX32_uc001ljg.1_Silent_p.T414T|DHX32_uc009yam.1_Silent_p.T169T	NM_018180	NP_060650	Q7L7V1	DHX32_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32	414						mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GCTTCAGTGGCGTCATGTCTT	0.438													13	78					0	0	0.001855	0	0		T	127540971	T	T	127540971	2	4	4	1	0	0	0	0	0	0	0	1	4511	755	27	1		1	DHX32	10	127540971	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	116629	127540971	7993776	2451	4417											
FANK1	92565	broad.mit.edu	37	chr10	127697110	127697110	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacagaaatggaaagacGccccttatggtaggtcctcc	13	7	11	10	1	0	2	0	0	0	2	2	4	2	4	4	4	0	1	4	4	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:127697110G>A	uc001ljh.3	+	8	944	c.840G>A	c.(838-840)ACG>ACA	p.T280T	FANK1_uc009yan.2_Silent_p.T306T|FANK1_uc001lji.2_Silent_p.T274T	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains	280	ANK 6.					cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)				ATGGAAAGACGCCCCTTATGG	0.468													18	56					0	0	0.007413	0	0		A	127697110	A	A	127697110	2	1	4	1	0	0	0	0	0	0	0	1	5686	1074	38	1		1	FANK1	10	127697110	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	156139	127697110	7837637	2452	4418											
FAM196A	642938	broad.mit.edu	37	chr10	128973888	128973888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctggcactgagggcaggtgCgtaaacggtggcaacctccg	8	6	15	12	3	0	1	0	1	0	0	1	1	1	1	3	5	3	4	3	5	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:128973888C>T	uc001lju.1	-	1	813	c.772G>A	c.(772-774)GCA>ACA	p.A258T	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.A258T|FAM196A_uc001ljv.1_Missense_Mutation_p.A258T|FAM196A_uc009yap.1_Missense_Mutation_p.A258T	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	258										ovary(2)	2						AGGGCAGGTGCGTAAACGGTG	0.667													4	12					0	0	0.009096	0	0		T	128973888	T	T	128973888	3	4	4	1	0	0	0	0	1	0	0	0	5539	768	27	1	679	1	FAM196A	10	128973888	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1276778	128973888	6560859	2453	4419											
MKI67	4288	broad.mit.edu	37	chr10	129905990	129905990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggtggagaagattcgcaggGcattttagtagttttgccag	9	13	14	5	1	0	2	0	0	0	2	1	3	0	2	1	3	1	4	1	3	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:129905990G>A	uc001lke.2	-	13	4309	c.4114C>T	c.(4114-4116)CCC>TCC	p.P1372S	MKI67_uc001lkf.2_Missense_Mutation_p.P1012S|MKI67_uc009yav.1_Missense_Mutation_p.P947S|MKI67_uc009yaw.1_Missense_Mutation_p.P522S	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1372	16 X 122 AA approximate repeats.|4.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GATTCGCAGGGCATTTTAGTA	0.522													5	70					0	0	0.000602	0	0		A	129905990	A	A	129905990	3	1	4	1	0	0	0	0	1	0	0	0	9616	1203	42	2	5668	2	MKI67	10	129905990	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	932102	129905990	5628757	2454	4420											
GLRX3	10539	broad.mit.edu	37	chr10	131973264	131973264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgttgtttctttaggttCggcaaggattaaaagcttac	9	16	9	7	1	1	0	0	0	1	0	3	1	2	1	1	3	2	5	1	3	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:131973264C>T	uc001lkm.1	+	10	890	c.868C>T	c.(868-870)CGG>TGG	p.R290W	GLRX3_uc001lkn.1_Missense_Mutation_p.R290W|GLRX3_uc001lko.2_RNA	NM_006541	NP_006532	O76003	GLRX3_HUMAN	glutaredoxin 3	290	Glutaredoxin 2.				cell redox homeostasis|negative regulation of cardiac muscle hypertrophy|regulation of the force of heart contraction	cell cortex	electron carrier activity|iron-sulfur cluster binding|metal ion binding|protein disulfide oxidoreductase activity				0		all_cancers(35;9.59e-07)|all_epithelial(44;1.48e-06)|Lung NSC(174;0.00566)|all_lung(145;0.00949)|Colorectal(57;0.142)|all_neural(114;0.16)|Breast(234;0.173)|Glioma(114;0.222)		OV - Ovarian serous cystadenocarcinoma(35;0.00218)		TCTTTAGGTTCGGCAAGGATT	0.428													20	42					0	0	0.00278	0	0		T	131973264	T	T	131973264	3	4	4	1	0	0	0	0	1	0	0	0	6476	875	31	1	906	1	GLRX3	10	131973264	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2067274	131973264	3561483	2455	4421											
TCERG1L	256536	broad.mit.edu	37	chr10	132944908	132944908	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaaactcggtcatcgccCgtccagaccacacacctgtt	12	7	7	15	3	1	2	1	0	0	2	4	2	2	2	4	1	1	1	4	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:132944908C>T	uc001lkp.2	-	7	1136	c.1050G>A	c.(1048-1050)ACG>ACA	p.T350T	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	350	WW 2.									large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		GGTCATCGCCCGTCCAGACCA	0.502													27	58					0	0	0.002096	0	0		T	132944908	T	T	132944908	2	4	4	1	0	0	0	0	0	0	0	1	15711	639	23	1		1	TCERG1L	10	132944908	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	971644	132944908	2589839	2456	4422											
BNIP3	664	broad.mit.edu	37	chr10	133784260	133784260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttcctcatgctgagggtggCcgtgcgcttcgggtgtttaa	4	13	15	9	3	1	1	1	1	0	0	3	1	2	1	2	3	2	4	2	3	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:133784260C>T	uc001lkv.1	-	5	547	c.421G>A	c.(421-423)GCC>ACC	p.A141T	BNIP3_uc001lku.1_5'Flank|BNIP3_uc010qut.1_Missense_Mutation_p.A141T	NM_004052	NP_004043	Q12983	BNIP3_HUMAN	BCL2/adenovirus E1B 19kD-interacting protein 3	141					cellular response to cobalt ion|cellular response to hypoxia|cellular response to mechanical stimulus|chromatin remodeling|defense response to virus|DNA fragmentation involved in apoptotic nuclear change|induction of apoptosis|interspecies interaction between organisms|mitochondrial fragmentation involved in apoptosis|negative regulation of membrane potential|negative regulation of mitochondrial fusion|negative regulation of survival gene product expression|neuron apoptosis|positive regulation of mitochondrial fission|positive regulation of protein complex disassembly|positive regulation of release of cytochrome c from mitochondria|reactive oxygen species metabolic process|regulation of mitochondrial membrane permeability	dendrite|integral to mitochondrial outer membrane|nuclear envelope|nucleoplasm	GTPase binding|protein heterodimerization activity|protein homodimerization activity			lung(1)|skin(1)	2		all_cancers(35;4e-11)|all_epithelial(44;5.07e-08)|Ovarian(717;2.61e-05)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Breast(234;0.023)|all_neural(114;0.0299)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)		Epithelial(32;1.59e-12)|all cancers(32;3.75e-11)|OV - Ovarian serous cystadenocarcinoma(35;2.57e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		CTGAGGGTGGCCGTGCGCTTC	0.522													4	41					0	0	0.009096	0	0		T	133784260	T	T	133784260	3	4	4	1	0	0	0	0	1	0	0	0	1479	739	26	2	171	2	BNIP3	10	133784260	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	839352	133784260	1750487	2457	4423											
JAKMIP3	282973	broad.mit.edu	37	chr10	133930823	133930823	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtgccctgcgtgatggCggccccgaaaaggtcaagac	9	6	13	13	3	2	2	2	1	0	1	2	3	2	2	3	3	2	0	3	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:133930823C>T	uc001lkx.3	+	2	378	c.378C>T	c.(376-378)GGC>GGT	p.G126G		NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		TGCGTGATGGCGGCCCCGAAA	0.617													12	26					0	0	0.001855	0	0		T	133930823	T	T	133930823	2	4	4	1	0	0	0	0	0	0	0	1	7958	755	27	1		1	JAKMIP3	10	133930823	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	146563	133930823	1603924	2458	4424											
JAKMIP3	282973	broad.mit.edu	37	chr10	133954021	133954021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatccgacggctcctccGtctcttaccaaacagacagg	10	8	9	14	3	1	1	0	0	1	1	5	3	4	2	4	3	2	1	4	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:133954021G>A	uc001lkx.3	+	9	1411	c.1411G>A	c.(1411-1413)GTC>ATC	p.V471I		NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CGGCTCCTCCGTCTCTTACCA	0.587													6	4					0	0	0.00308	0	0		A	133954021	A	A	133954021	3	1	4	1	0	0	0	0	1	0	0	0	7958	1145	40	1	1445	1	JAKMIP3	10	133954021	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	23198	133954021	1580726	2459	4425											
LRRC27	80313	broad.mit.edu	37	chr10	134165170	134165170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtcaccgtaccaaatggCgatccgagcaaaaagactgg	13	7	10	11	3	1	1	1	0	0	1	2	3	2	1	3	2	2	2	3	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:134165170C>T	uc010quw.1	+	7	1181	c.986C>T	c.(985-987)GCG>GTG	p.A329V	LRRC27_uc001llf.2_Nonsense_Mutation_p.R361*|LRRC27_uc010quv.1_Missense_Mutation_p.A329V|LRRC27_uc001llg.2_RNA|LRRC27_uc001lli.2_Missense_Mutation_p.A329V|LRRC27_uc001llj.2_Missense_Mutation_p.A267V|LRRC27_uc001llk.3_Missense_Mutation_p.A202V	NM_030626	NP_085129	Q9C0I9	LRC27_HUMAN	leucine rich repeat containing 27 isoform a	329	Potential.									ovary(1)	1		all_cancers(35;6.28e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;9.12e-05)|Epithelial(32;0.000116)|all cancers(32;0.000145)|BRCA - Breast invasive adenocarcinoma(275;0.218)		TACCAAATGGCGATCCGAGCA	0.522													12	143					0	0	0.004007	0	0		T	134165170	T	T	134165170	3	4	4	1	0	0	0	0	1	0	0	0	8999	769	27	1	1107	1	LRRC27	10	134165170	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	211149	134165170	1369577	2460	4426											
INPP5A	3632	broad.mit.edu	37	chr10	134463965	134463965	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaagaatataacagggctCgagtctacctggatgaaaac	16	8	10	7	1	1	3	0	2	1	1	2	5	1	4	1	2	3	1	1	2	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:134463965C>T	uc001llp.2	+	4	510	c.262C>T	c.(262-264)CGA>TGA	p.R88*	INPP5A_uc001llo.1_Nonsense_Mutation_p.R88*|INPP5A_uc001llq.2_Nonsense_Mutation_p.R40*	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	88					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		TAACAGGGCTCGAGTCTACCT	0.527													19	240					0	0	0.002299	0	0		T	134463965	T	T	134463965	4	4	4	1	0	0	0	0	0	1	0	0	7770	876	31	1	276	1	INPP5A	10	134463965	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	298795	134463965	1070782	2461	4427											
KNDC1	85442	broad.mit.edu	37	chr10	135010567	135010567	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctcctccctccaggtgtgCggcagctacctcctccagcg	4	9	10	18	2	1	0	0	0	1	0	6	0	5	0	6	2	4	2	6	2	1	1	rs142706564	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:135010567C>T	uc001llz.1	+	11	1741	c.1740C>T	c.(1738-1740)TGC>TGT	p.C580C	KNDC1_uc001lma.1_Silent_p.C515C|KNDC1_uc001lmb.1_5'UTR	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	580	KIND 2.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		TCCAGGTGTGCGGCAGCTACC	0.572													7	21					0	0	0.000978	0	0		T	135010567	T	T	135010567	2	4	4	1	0	0	0	0	0	0	0	1	8442	776	27	1		1	KNDC1	10	135010567	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	546602	135010567	524180	2462	4428											
KNDC1	85442	broad.mit.edu	37	chr10	135038246	135038246	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaccccaagctccagtcgtAcctcaagcagaggattgccc	10	6	9	16	2	1	1	1	0	0	1	3	3	2	2	5	1	4	3	5	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:135038246A>G	uc001llz.1	+	30	5103	c.5102A>G	c.(5101-5103)TAC>TGC	p.Y1701C		NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1701	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		CTCCAGTCGTACCTCAAGCAG	0.587													5	22					0	0	0.001984	0	0		G	135038246	G	G	135038246	3	3	4	1	0	0	0	0	1	0	0	0	8442	391	14	3	5220	3	KNDC1	10	135038246	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	27679	135038246	496501	2463	4429											
FRG2B	441581	broad.mit.edu	37	chr10	135439043	135439043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctggatttcactgttgtGcacaggagtggaggatcttg	7	13	13	8	0	2	0	1	0	1	0	3	4	3	4	1	4	1	2	1	4	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:135439043G>A	uc010qvg.1	-	4	450	c.397C>T	c.(397-399)CAC>TAC	p.H133Y		NM_001080998	NP_001074467	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	133						nucleus					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		TCACTGTTGTGCACAGGAGTG	0.527													26	54					0	0	0.004656	0	0		A	135439043	A	A	135439043	3	1	4	1	0	0	0	0	1	0	0	0	6061	1319	46	2	442	2	FRG2B	10	135439043	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	400797	135439043	95704	2464	4430											
EPS8L2	64787	broad.mit.edu	37	chr11	722405	722405	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcactgtgccccagatcgTcaacacctgcagtggcccag	8	7	9	17	1	2	1	2	0	0	1	3	1	2	1	5	1	3	1	5	1	1	0	rs142316225		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:722405T>C	uc001lqt.2	+	13	1311	c.1064T>C	c.(1063-1065)GTC>GCC	p.V355A	EPS8L2_uc001lqu.2_Missense_Mutation_p.V355A|EPS8L2_uc010qwk.1_Missense_Mutation_p.V371A|EPS8L2_uc001lqv.2_Missense_Mutation_p.V310A|EPS8L2_uc001lqw.2_5'UTR|EPS8L2_uc001lqx.2_5'UTR|EPS8L2_uc001lqy.2_5'Flank	NM_022772	NP_073609	Q9H6S3	ES8L2_HUMAN	epidermal growth factor receptor pathway	355						cytoplasm				pancreas(1)	1		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.37e-27)|Epithelial(43;2.81e-26)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-20)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCCCAGATCGTCAACACCTGC	0.662													7	37					0	0	0.001984	0	0		C	722405	C	C	722405	3	2	4	1	0	0	0	0	1	0	0	0	5204	1667	58	3	1110	3	EPS8L2	11	722405	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08		722405	134284111	2465	4431											
TSPAN4	7106	broad.mit.edu	37	chr11	865745	865745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggttcgaggtgtacaacGccacgcgggtacctgactcc	8	8	12	13	4	0	1	0	1	0	0	2	2	1	1	3	3	3	3	3	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:865745G>A	uc001lsd.1	+	7	693	c.484G>A	c.(484-486)GCC>ACC	p.A162T	TSPAN4_uc001lse.1_Missense_Mutation_p.A98T|TSPAN4_uc001lsf.1_Missense_Mutation_p.A162T|TSPAN4_uc001lsg.1_Missense_Mutation_p.A162T|TSPAN4_uc001lsh.1_Missense_Mutation_p.A162T|TSPAN4_uc001lsi.1_Missense_Mutation_p.A162T|TSPAN4_uc001lsj.1_Missense_Mutation_p.A162T	NM_003271	NP_003262	O14817	TSN4_HUMAN	tetraspanin 4 isoform a	162	Extracellular (Potential).				protein complex assembly	integral to plasma membrane				breast(1)	1		all_cancers(49;2.64e-08)|all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)|all_lung(207;0.24)		all cancers(45;4.32e-25)|Epithelial(43;3.29e-24)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGTGTACAACGCCACGCGGGT	0.662													13	13					0	0	0.003163	0	0		A	865745	A	A	865745	3	1	4	1	0	0	0	0	1	0	0	0	16675	1087	38	1	502	1	TSPAN4	11	865745	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	143340	865745	134140771	2466	4432											
MUC6	4588	broad.mit.edu	37	chr11	1016812	1016812	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctgagggtgtgatggggTtggataggtagtggtggtct	5	13	21	2	0	2	2	0	2	2	0	2	3	2	3	0	8	0	2	0	8	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:1016812T>C	uc001lsw.2	-	31	6040	c.5989A>G	c.(5989-5991)ACC>GCC	p.T1997A		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1997	Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGTGATGGGGTTGGATAGGTA	0.542													11	715					0	0	0.006122	0	0		C	1016812	C	C	1016812	3	2	4	1	0	0	0	0	1	0	0	0	9998	1725	60	3	1342	3	MUC6	11	1016812	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	151067	1016812	133989704	2467	4433											
MUC5B	727897	broad.mit.edu	37	chr11	1262591	1262591	+	Frame_Shift_Del	DEL	C	-	-																															ctcaggccccgtgacggtcaCcccctcggccccaggtacca																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:1262591delC	uc009ycr.1	+	47	6686	c.6560delC	c.(6559-6561)ACCfs	p.T2187fs	MUC5B_uc001ltb.2_Frame_Shift_Del_p.T1497fs	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1494	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GTGACGGTCACCCCCTCGGCC	0.637													4	8	---	---	---	---						.	-	1262591	-	-	1262591	7	5	4	1	0	1	0	1	0	0	0	0	9997	507	18	0	4612	0	MUC5B	11	1262591	Frame_Shift_Del	DEL	C	TCGA-BR-4184-01A-01D-1126-08	245779	1262591	133743925	2468	4434											
MUC5B	727897	broad.mit.edu	37	chr11	1281031	1281031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtgctgtggggagtgcGtccagaccgcctgcctcacg	5	7	16	13	3	1	1	1	0	0	1	2	2	2	2	4	3	3	2	4	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:1281031G>A	uc009ycr.1	+	67	17896	c.17770G>A	c.(17770-17772)GTC>ATC	p.V5924I	MUC5B_uc001ltb.2_Missense_Mutation_p.V5590I	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5587	VWFC 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		TGGGGAGTGCGTCCAGACCGC	0.667													7	19					0	0	0.004482	0	0		A	1281031	A	A	1281031	3	1	4	1	0	0	0	0	1	0	0	0	9997	1145	40	1	16946	1	MUC5B	11	1281031	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	18440	1281031	133725485	2469	4435											
KRTAP5-6	440023	broad.mit.edu	37	chr11	1718528	1718528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctccggctgtgggggctgtgGctctggctgtgggggctgtg	0	11	21	9	1	1	0	0	0	1	0	2	0	2	0	1	7	0	5	1	7	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:1718528G>A	uc001lua.2	+	1	104	c.53G>A	c.(52-54)GGC>GAC	p.G18D		NM_001012416	NP_001012416	Q6L8G9	KRA56_HUMAN	keratin associated protein 5-6	18						keratin filament					0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GGGGGCTGTGGCTCTGGCTGT	0.657													6	57					0	0	0.00308	0	0		A	1718528	A	A	1718528	3	1	4	1	0	0	0	0	1	0	0	0	8581	1203	42	2	55	2	KRTAP5-6	11	1718528	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	437497	1718528	133287988	2470	4436											
ART5	116969	broad.mit.edu	37	chr11	3660999	3660999	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggggaatcagcacctcGcgctccttgggaaagacaga	10	6	15	10	2	1	2	1	0	0	2	3	4	2	4	2	4	1	2	2	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:3660999G>A	uc001lyb.1	-	2	1053	c.660C>T	c.(658-660)CGC>CGT	p.R220R	ART5_uc001lyc.1_Silent_p.R220R|ART5_uc001lyd.2_Intron|ART5_uc009yea.2_Intron	NM_053017	NP_443750	Q96L15	NAR5_HUMAN	ADP-ribosyltransferase 5 precursor	220						extracellular region	NAD(P)+-protein-arginine ADP-ribosyltransferase activity			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0336)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCAGCACCTCGCGCTCCTTGG	0.512													6	100					0	0	0.001984	0	0		A	3660999	A	A	3660999	2	1	4	1	0	0	0	0	0	0	0	1	1001	1074	38	1		1	ART5	11	3660999	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1942471	3660999	131345517	2471	4437											
PGAP2	27315	broad.mit.edu	37	chr11	3845179	3845179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccagcgctacgtgtggCgtttctgcatcggcctgcac	4	10	12	15	4	1	0	0	0	1	0	2	0	1	0	3	2	5	4	3	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:3845179C>T	uc001lys.2	+	4	541	c.415C>T	c.(415-417)CGT>TGT	p.R139C	PGAP2_uc001lyl.2_Missense_Mutation_p.R96C|PGAP2_uc010qxw.1_Missense_Mutation_p.R196C|PGAP2_uc010qxx.1_Missense_Mutation_p.A119V|PGAP2_uc001lyp.3_Intron|PGAP2_uc010qxy.1_Missense_Mutation_p.R135C|PGAP2_uc010qxz.1_Missense_Mutation_p.R135C|PGAP2_uc001lyn.3_Missense_Mutation_p.A31V|PGAP2_uc010qya.1_RNA|PGAP2_uc001lyr.2_Missense_Mutation_p.R78C|PGAP2_uc010qyb.1_Missense_Mutation_p.A81V|PGAP2_uc001lyt.2_5'UTR	NM_014489	NP_055304	Q9UHJ9	PGAP2_HUMAN	FGF receptor activating protein 1 isoform 1	139					GPI anchor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein transporter activity				0						CTACGTGTGGCGTTTCTGCAT	0.637													5	46					0	0	0.000602	0	0		T	3845179	T	T	3845179	3	4	4	1	0	0	0	0	1	0	0	0	11797	768	27	1	604	1	PGAP2	11	3845179	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	184180	3845179	131161337	2472	4438											
OR52B4	143496	broad.mit.edu	37	chr11	4389392	4389392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggataatgaagatgagcaggCtgttcccaagaagggcggtg	12	7	16	6	1	0	4	0	2	0	2	1	5	1	5	1	4	1	3	1	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:4389392C>T	uc010qye.1	-	1	134	c.134G>A	c.(133-135)AGC>AAC	p.S45N		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0249)|all_neural(188;0.0577)		Epithelial(150;1.57e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0826)|LUSC - Lung squamous cell carcinoma(625;0.19)		GATGAGCAGGCTGTTCCCAAG	0.527													5	35					0	0	0.001984	0	0		T	4389392	T	T	4389392	3	4	4	1	0	0	0	0	1	0	0	0	11131	797	28	2	814	2	OR52B4	11	4389392	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	544213	4389392	130617124	2473	4439											
OR52I2	143502	broad.mit.edu	37	chr11	4608901	4608901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtactatctacctgggatgGcatccatctatgcggcctgg	7	12	11	11	1	2	0	0	0	2	0	3	1	3	1	3	4	3	2	3	4	4	4	rs150458035	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:4608901G>A	uc010qyh.1	+	1	859	c.859G>A	c.(859-861)GCA>ACA	p.A287T		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	287	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACCTGGGATGGCATCCATCTA	0.522													29	81					0	0	0.009535	0	0		A	4608901	A	A	4608901	3	1	4	1	0	0	0	0	1	0	0	0	11140	1203	42	2	861	2	OR52I2	11	4608901	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	219509	4608901	130397615	2474	4440											
OR51D1	390038	broad.mit.edu	37	chr11	4661818	4661818	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgttctggtcttctatgtAcccctcattgggctctcggt	3	16	10	12	1	5	0	1	0	4	0	6	0	5	0	2	3	1	4	2	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:4661818A>G	uc010qyk.1	+	1	798	c.798A>G	c.(796-798)GTA>GTG	p.V266V		NM_001004751	NP_001004751	Q8NGF3	O51D1_HUMAN	olfactory receptor, family 51, subfamily D,	266	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;2.74e-13)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|GBM - Glioblastoma multiforme(2;0.0841)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCTTCTATGTACCCCTCATTG	0.552													3	63					0	0	0.009096	0	0		G	4661818	G	G	4661818	2	3	4	1	0	0	0	0	0	0	0	1	11112	378	14	3		3	OR51D1	11	4661818	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	52917	4661818	130344698	2475	4441											
OR51E1	143503	broad.mit.edu	37	chr11	4674699	4674699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttccatgtggccacacacGcttcagagccctaggtgtca	8	11	9	13	1	2	1	2	0	0	1	3	1	3	1	3	2	1	1	3	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:4674699G>A	uc001lzi.3	+	2	1087	c.943G>A	c.(943-945)GCT>ACT	p.A315T		NM_152430	NP_689643	Q8TCB6	O51E1_HUMAN	olfactory receptor, family 51, subfamily E,	314	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(3)|pancreas(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;7.37e-14)|GBM - Glioblastoma multiforme(2;2.85e-05)|BRCA - Breast invasive adenocarcinoma(625;0.00222)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGCCACACACGCTTCAGAGCC	0.433													26	53					0	0	0.009535	0	0		A	4674699	A	A	4674699	3	1	4	1	0	0	0	0	1	0	0	0	11113	1087	38	1	945	1	OR51E1	11	4674699	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12881	4674699	130331817	2476	4442											
OR51A4	401666	broad.mit.edu	37	chr11	4967774	4967774	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaacaggccaacttcatgAcatcctggtggagacagtag	13	7	11	10	0	1	3	1	1	0	2	2	4	2	3	2	3	2	1	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:4967774A>G	uc010qys.1	-	1	557	c.557T>C	c.(556-558)GTC>GCC	p.V186A		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		CAACTTCATGACATCCTGGTG	0.408													31	107					0	0	0.00623	0	0		G	4967774	G	G	4967774	3	3	4	1	0	0	0	0	1	0	0	0	11106	275	10	3	386	3	OR51A4	11	4967774	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	293075	4967774	130038742	2477	4443											
OR52A4	390053	broad.mit.edu	37	chr11	5141901	5141901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactaccttatctctaatgtGtttggtctttaacccataga	10	17	5	9	0	2	1	0	0	2	1	3	1	2	1	2	1	3	1	2	1	6	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5141901G>A	uc001lzz.1	-	1	908	c.908C>T	c.(907-909)ACA>ATA	p.T303I		NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		TCTCTAATGTGTTTGGTCTTT	0.353													7	74					0	0	0.00308	0	0		A	5141901	A	A	5141901	3	1	4	1	0	0	0	0	1	0	0	0	11128	1377	48	4	10	4	OR52A4	11	5141901	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	174127	5141901	129864615	2478	4444											
OR52A4	390053	broad.mit.edu	37	chr11	5142071	5142071	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagacatatatatggggaatAcatgtattaaataccttaag	18	12	7	4	0	0	1	0	0	0	1	0	2	0	2	1	2	2	1	1	2	11	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5142071A>G	uc001lzz.1	-	1	738	c.738T>C	c.(736-738)TGT>TGC	p.C246C		NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		TATGGGGAATACATGTATTAA	0.343													6	130					0	0	0.001168	0	0		G	5142071	G	G	5142071	2	3	4	1	0	0	0	0	0	0	0	1	11128	389	14	3		3	OR52A4	11	5142071	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	170	5142071	129864445	2479	4445											
OR51B6	390058	broad.mit.edu	37	chr11	5373588	5373588	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacttccttttcccaccttTtatgaacccatttatctata	9	17	1	14	0	1	1	0	1	1	0	3	1	3	1	5	0	1	0	5	0	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5373588T>C	uc010qzb.1	+	1	851	c.851T>C	c.(850-852)TTT>TCT	p.F284S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTCCCACCTTTTATGAACCCA	0.388													28	79					0	0	0.009535	0	0		C	5373588	C	C	5373588	3	2	4	1	0	0	0	0	1	0	0	0	11111	1841	64	3	853	3	OR51B6	11	5373588	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	231517	5373588	129632928	2480	4446											
OR51Q1	390061	broad.mit.edu	37	chr11	5444163	5444163	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccctcaataactgcctgTcccacattctagctgtcctg	7	12	7	15	0	2	0	1	0	1	0	4	0	4	0	4	0	4	1	4	0	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5444163T>A	uc010qzd.1	+	1	733	c.733T>A	c.(733-735)TCC>ACC	p.S245T	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TAACTGCCTGTCCCACATTCT	0.493													5	72					0	0	0.000602	0	0		A	5444163	A	A	5444163	3	1	4	1	0	0	0	0	1	0	0	0	11123	1667	58	5	735	5	OR51Q1	11	5444163	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	70575	5444163	129562353	2481	4447											
OR52H1	390067	broad.mit.edu	37	chr11	5566215	5566215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtatgtgtggggtatgatgCgtgtcctgcagaaaggcagg	9	10	17	5	1	0	2	0	1	0	1	1	2	1	2	1	4	2	4	1	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5566215C>T	uc010qzh.1	-	1	539	c.539G>A	c.(538-540)CGC>CAC	p.R180H	HBG2_uc001mak.1_Intron	NM_001005289	NP_001005289	Q8NGJ2	O52H1_HUMAN	olfactory receptor, family 52, subfamily H,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;5.33e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGGTATGATGCGTGTCCTGCA	0.488													6	52					0	0	0.001168	0	0		T	5566215	T	T	5566215	3	4	4	1	0	0	0	0	1	0	0	0	11138	768	27	1	426	1	OR52H1	11	5566215	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	122052	5566215	129440301	2482	4448											
TRIM22	10346	broad.mit.edu	37	chr11	5730360	5730360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagacaagtgaaaactgtaCgcacctgcacatttaagaat	17	8	8	8	1	0	3	0	1	0	2	0	4	0	3	1	0	3	3	1	0	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5730360C>T	uc001mbr.2	+	8	1256	c.979C>T	c.(979-981)CGC>TGC	p.R327C	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|TRIM22_uc009yes.2_Missense_Mutation_p.R323C|TRIM22_uc010qzm.1_Missense_Mutation_p.R155C|TRIM22_uc009yeu.2_Missense_Mutation_p.R138C|OR56B1_uc001mbs.1_Intron|OR56B1_uc009yev.1_Intron	NM_006074	NP_006065	Q8IYM9	TRI22_HUMAN	tripartite motif-containing 22	327	B30.2/SPRY.				immune response|interspecies interaction between organisms|protein trimerization|response to virus	Cajal body|Golgi apparatus|nuclear speck	ligase activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)		GAAAACTGTACGCACCTGCAC	0.413													18	85					0	0	0.00499	0	0		T	5730360	T	T	5730360	3	4	4	1	0	0	0	0	1	0	0	0	16522	536	19	1	1005	1	TRIM22	11	5730360	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	164145	5730360	129276156	2483	4449											
OR56A3	390083	broad.mit.edu	37	chr11	5969245	5969245	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatcttcctctcctacacCttcattctgcgagctgtgct	5	16	5	15	1	4	0	1	0	3	0	6	1	5	0	3	0	4	2	3	0	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5969245C>T	uc010qzt.1	+	1	669	c.669C>T	c.(667-669)ACC>ACT	p.T223T		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	223	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCTCCTACACCTTCATTCTGC	0.522													8	148					0	0	0.006214	0	0		T	5969245	T	T	5969245	2	4	4	1	0	0	0	0	0	0	0	1	11153	668	24	4		4	OR56A3	11	5969245	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	238885	5969245	129037271	2484	4450											
OR52W1	120787	broad.mit.edu	37	chr11	6220850	6220850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtgctgcggcaatagggCgtccactgcactaccctgtc	7	9	11	14	3	0	0	0	0	0	0	3	0	1	0	2	2	4	3	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6220850C>T	uc010qzz.1	+	1	397	c.397C>T	c.(397-399)CGT>TGT	p.R133C		NM_001005178	NP_001005178	Q6IF63	O52W1_HUMAN	olfactory receptor, family 52, subfamily W,	133	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;2.13e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGCAATAGGGCGTCCACTGCA	0.547													6	32					0	0	0.001984	0	0		T	6220850	T	T	6220850	3	4	4	1	0	0	0	0	1	0	0	0	11151	768	27	1	399	1	OR52W1	11	6220850	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	251605	6220850	128785666	2485	4451											
CNGA4	1262	broad.mit.edu	37	chr11	6261008	6261008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctactagacatggtggtgCgcttccacacaggtcagtgg	9	9	12	11	1	1	1	1	0	0	1	2	1	2	1	2	4	2	1	2	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6261008C>T	uc001mco.2	+	3	366	c.259C>T	c.(259-261)CGC>TGC	p.R87C	CNGA4_uc010raa.1_Missense_Mutation_p.R47C|CNGA4_uc001mcn.2_Missense_Mutation_p.R47C	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	87	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CATGGTGGTGCGCTTCCACAC	0.537													10	24					0	0	0.006214	0	0		T	6261008	T	T	6261008	3	4	4	1	0	0	0	0	1	0	0	0	3602	768	27	1	269	1	CNGA4	11	6261008	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	40158	6261008	128745508	2486	4452											
CNGA4	1262	broad.mit.edu	37	chr11	6261854	6261854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacatgaacactgcagatgCggctttctacccagatcatg	12	9	8	12	1	2	3	1	1	1	2	2	3	2	3	1	1	5	2	1	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6261854C>T	uc001mco.2	+	4	937	c.830C>T	c.(829-831)GCG>GTG	p.A277V	CNGA4_uc010raa.1_Intron|CNGA4_uc001mcn.2_Missense_Mutation_p.A237V	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	277	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTGCAGATGCGGCTTTCTAC	0.542													5	66					0	0	0.000602	0	0		T	6261854	T	T	6261854	3	4	4	1	0	0	0	0	1	0	0	0	3602	768	27	1	844	1	CNGA4	11	6261854	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	846	6261854	128744662	2487	4453											
CNGA4	1262	broad.mit.edu	37	chr11	6262731	6262731	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagcacttgcctgagcggCtgcgggcagaagtggctgtg	7	8	16	10	2	0	2	0	1	0	1	0	2	0	2	1	3	5	4	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6262731C>T	uc001mco.2	+	5	1095	c.988C>T	c.(988-990)CTG>TTG	p.L330L	CNGA4_uc010raa.1_Silent_p.L99L|CNGA4_uc001mcn.2_Silent_p.L290L	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	330	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCCTGAGCGGCTGCGGGCAGA	0.552													26	59					0	0	0.003271	0	0		T	6262731	T	T	6262731	2	4	4	1	0	0	0	0	0	0	0	1	3602	796	28	2		2	CNGA4	11	6262731	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	877	6262731	128743785	2488	4454											
CCKBR	887	broad.mit.edu	37	chr11	6291549	6291549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgcatcgctggcccagtgCgcgggtccgccagacctggt	4	7	15	15	5	0	1	0	0	0	1	2	1	1	1	4	3	2	2	4	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6291549C>T	uc001mcp.2	+	3	828	c.635C>T	c.(634-636)GCG>GTG	p.A212V	CCKBR_uc001mcq.2_Missense_Mutation_p.A140V|CCKBR_uc001mcr.2_Missense_Mutation_p.A212V|CCKBR_uc001mcs.2_Missense_Mutation_p.A212V|CCKBR_uc001mct.1_5'Flank	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	212	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	TGGCCCAGTGCGCGGGTCCGC	0.582													16	43					0	0	0.004007	0	0		T	6291549	T	T	6291549	3	4	4	1	0	0	0	0	1	0	0	0	2884	768	27	1	645	1	CCKBR	11	6291549	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	28818	6291549	128714967	2489	4455											
SMPD1	6609	broad.mit.edu	37	chr11	6413036	6413036	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtgccggatactggggCgaatacagcaagtgtgacct	10	7	14	10	2	0	1	0	1	0	0	0	3	0	2	3	4	4	1	3	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6413036C>T	uc001mcw.2	+	2	915	c.741C>T	c.(739-741)GGC>GGT	p.G247G	SMPD1_uc001mcv.1_Intron|SMPD1_uc009yex.2_RNA|SMPD1_uc001mcx.2_Silent_p.G247G|SMPD1_uc009yew.2_Silent_p.G246G	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	245			G -> S (in NPDA and NPDB).		cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)	GATACTGGGGCGAATACAGCA	0.652													7	29					0	0	0.001984	0	0		T	6413036	T	T	6413036	2	4	4	1	0	0	0	0	0	0	0	1	14829	755	27	1		1	SMPD1	11	6413036	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	121487	6413036	128593480	2490	4456											
HPX	3263	broad.mit.edu	37	chr11	6452540	6452540	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagcagtacaaattgggAccatggatgaggtacaagcc	13	8	12	8	0	0	1	0	1	0	0	0	3	0	3	2	3	4	4	2	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6452540A>G	uc001mdg.2	-	10	1351	c.1290T>C	c.(1288-1290)GGT>GGC	p.G430G	HPX_uc001mdf.2_Silent_p.G176G|HPX_uc009yfc.2_RNA	NM_000613	NP_000604	P02790	HEMO_HUMAN	hemopexin precursor	430					cellular iron ion homeostasis|interspecies interaction between organisms	extracellular space	heme transporter activity|metal ion binding|protein binding				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;5.46e-08)|BRCA - Breast invasive adenocarcinoma(625;0.19)		ACAAATTGGGACCATGGATGA	0.542													6	79					0	0	0.001984	0	0		G	6452540	G	G	6452540	2	3	4	1	0	0	0	0	0	0	0	1	7362	262	10	3		3	HPX	11	6452540	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	39504	6452540	128553976	2491	4457											
TRIM3	10612	broad.mit.edu	37	chr11	6472626	6472626	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccaggtgagcgtcctcGgaccccaaaacggaacttga	10	6	11	14	3	0	2	0	2	0	0	2	4	1	4	4	3	4	0	4	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6472626G>A	uc001mdh.2	-	9	1963	c.1576C>T	c.(1576-1578)CGA>TGA	p.R526*	TRIM3_uc001mdi.2_Nonsense_Mutation_p.R526*|TRIM3_uc010raj.1_Nonsense_Mutation_p.R407*|TRIM3_uc009yfd.2_Nonsense_Mutation_p.R526*|TRIM3_uc010rak.1_Nonsense_Mutation_p.R526*	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	526	NHL 2.				nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding	p.R526*(1)		central_nervous_system(2)|large_intestine(1)|ovary(1)|skin(1)	5		all_lung(207;9.97e-06)|Lung NSC(207;1.74e-05)|Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;9.34e-10)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.133)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAGCGTCCTCGGACCCCAAAA	0.582													5	38					0	0	0.001984	0	0		A	6472626	A	A	6472626	4	1	4	1	0	0	0	0	0	1	0	0	16530	1124	39	1	678	1	TRIM3	11	6472626	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	20086	6472626	128533890	2492	4458											
DCHS1	8642	broad.mit.edu	37	chr11	6654194	6654194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagctcccggtccagagggCgaagtgtttgcaacagtcct	8	9	13	11	2	0	1	0	0	0	1	3	2	3	1	3	2	3	4	3	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6654194C>T	uc001mem.1	-	6	2959	c.2549G>A	c.(2548-2550)CGC>CAC	p.R850H		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	850	Cadherin 8.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTCCAGAGGGCGAAGTGTTTG	0.612													9	32					0	0	0.008291	0	0		T	6654194	T	T	6654194	3	4	4	1	0	0	0	0	1	0	0	0	4290	768	27	1	7411	1	DCHS1	11	6654194	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	181568	6654194	128352322	2493	4459											
DCHS1	8642	broad.mit.edu	37	chr11	6661150	6661150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcacatcttgcagggccacGctaactgtggcagaggaggc	9	8	13	11	1	2	1	1	0	1	1	2	2	2	2	1	4	2	3	1	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6661150G>A	uc001mem.1	-	2	2105	c.1695C>T	c.(1693-1695)AGC>AGT	p.S565S		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	565	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCAGGGCCACGCTAACTGTGG	0.572													5	35					0	0	0.001168	0	0		A	6661150	A	A	6661150	2	1	4	1	0	0	0	0	0	0	0	1	4290	1078	38	1		1	DCHS1	11	6661150	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6956	6661150	128345366	2494	4460											
OR10A5	144124	broad.mit.edu	37	chr11	6867086	6867086	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaccccatgctacacaGccccatgtacttcttcctca	9	10	5	17	0	2	1	1	1	1	0	3	1	3	1	5	0	5	3	5	0	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6867086G>T	uc001met.1	+	1	173	c.173G>T	c.(172-174)AGC>ATC	p.S58I		NM_178168	NP_835462	Q9H207	O10A5_HUMAN	olfactory receptor, family 10, subfamily A,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		ATGCTACACAGCCCCATGTAC	0.473													35	121					1.32136e-16	1.44175e-16	0.00874	1	0		T	6867086	T	T	6867086	3	4	4	1	0	0	0	0	1	0	0	0	10912	971	34	5	175	5	OR10A5	11	6867086	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	205936	6867086	128139430	2495	4461											
OR2D2	120776	broad.mit.edu	37	chr11	6913396	6913396	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacatcactgcaagaagggcGcactgggtacacccaaaaat	15	5	10	11	1	1	1	1	0	0	1	1	2	1	1	1	2	2	3	1	2	5	1	rs140944764		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6913396G>A	uc010rau.1	-	1	336	c.336C>T	c.(334-336)TGC>TGT	p.C112C		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CAAGAAGGGCGCACTGGGTAC	0.488													10	86					0	0	0.008291	0	0		A	6913396	A	A	6913396	2	1	4	1	0	0	0	0	0	0	0	1	11013	1079	38	1		1	OR2D2	11	6913396	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	46310	6913396	128093120	2496	4462											
OR2D3	120775	broad.mit.edu	37	chr11	6942872	6942872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acacttacagcacagaaatgGccatcttttcaatgggcgtg	12	10	9	10	1	2	1	1	0	1	1	2	1	2	1	1	2	2	1	1	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6942872G>A	uc010rav.1	+	1	640	c.640G>A	c.(640-642)GCC>ACC	p.A214T		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CACAGAAATGGCCATCTTTTC	0.468													12	39					0	0	0.001368	0	0		A	6942872	A	A	6942872	3	1	4	1	0	0	0	0	1	0	0	0	11014	1203	42	2	642	2	OR2D3	11	6942872	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	29476	6942872	128063644	2497	4463											
RBMXL2	27288	broad.mit.edu	37	chr11	7111248	7111248	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccaggacgggggacaccGccatcttacggaggaggagg	9	3	17	12	3	1	0	0	0	1	0	1	5	1	5	4	7	1	0	4	7	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:7111248G>A	uc001mfc.2	+	1	1084	c.897G>A	c.(895-897)CCG>CCA	p.P299P		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	299	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGGGGACACCGCCATCTTACG	0.662													3	5					0	0	0.004672	0	0		A	7111248	A	A	7111248	2	1	4	1	0	0	0	0	0	0	0	1	13179	1074	38	1		1	RBMXL2	11	7111248	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	168376	7111248	127895268	2498	4464											
OLFML1	283298	broad.mit.edu	37	chr11	7509587	7509587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagaggacaagacactggCagaaatgttgctccaagaag	16	6	11	8	0	1	4	1	0	0	4	2	5	2	5	1	2	1	3	1	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:7509587C>T	uc001mfi.2	+	2	711	c.359C>T	c.(358-360)GCA>GTA	p.A120V	uc001mff.1_Intron|OLFML1_uc001mfh.1_Missense_Mutation_p.A120V|OLFML1_uc010raz.1_Intron|OLFML1_uc010rba.1_Missense_Mutation_p.A120V	NM_198474	NP_940876	Q6UWY5	OLFL1_HUMAN	olfactomedin-like 1 precursor	120	Potential.					extracellular region				ovary(2)	2				Epithelial(150;6.96e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		AAGACACTGGCAGAAATGTTG	0.463													5	78					0	0	0.000602	0	0		T	7509587	T	T	7509587	3	4	4	1	0	0	0	0	1	0	0	0	10875	710	25	2	365	2	OLFML1	11	7509587	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	398339	7509587	127496929	2499	4465											
OR5P3	120066	broad.mit.edu	37	chr11	7846790	7846790	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagtgactgcagtgaggtGggaggtgcaggtggagaagg	10	6	21	4	0	0	4	0	2	0	2	0	6	0	5	0	6	2	2	0	6	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:7846790G>T	uc010rbg.1	-	1	730	c.730C>A	c.(730-732)CAC>AAC	p.H244N		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GCAGTGAGGTGGGAGGTGCAG	0.502													11	49					3.45872e-05	3.64439e-05	0.004007	1	0		T	7846790	T	T	7846790	3	4	4	1	0	0	0	0	1	0	0	0	11198	1348	47	5	208	5	OR5P3	11	7846790	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	337203	7846790	127159726	2500	4466											
OR5P3	120066	broad.mit.edu	37	chr11	7847232	7847232	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacagagctgggccacacaAccagcaacagggagagaggt	15	2	14	10	0	0	2	0	0	0	2	0	5	0	3	2	3	5	2	2	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:7847232A>G	uc010rbg.1	-	1	288	c.288T>C	c.(286-288)GGT>GGC	p.G96G		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGGCCACACAACCAGCAACAG	0.537													8	104					0	0	0.006214	0	0		G	7847232	G	G	7847232	2	3	4	1	0	0	0	0	0	0	0	1	11198	30	2	3		3	OR5P3	11	7847232	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	442	7847232	127159284	2501	4467											
NLRP10	338322	broad.mit.edu	37	chr11	7982197	7982197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataggagctgaagtacctcGccctctcctcctcagagaag	11	8	9	13	1	2	2	1	1	1	1	5	4	3	3	4	1	2	2	4	1	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:7982197G>A	uc001mfv.1	-	2	979	c.962C>T	c.(961-963)GCG>GTG	p.A321V		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	321	NACHT.						ATP binding	p.A321A(1)		lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GAAGTACCTCGCCCTCTCCTC	0.512													31	66					0	0	0.005524	0	0		A	7982197	A	A	7982197	3	1	4	1	0	0	0	0	1	0	0	0	10491	1087	38	1	1009	1	NLRP10	11	7982197	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	134965	7982197	127024319	2502	4468											
TUB	7275	broad.mit.edu	37	chr11	8119372	8119372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagctatatcgggaaactgCggtactagcattcccccagg	11	8	10	12	2	0	0	0	0	0	0	2	1	1	1	2	3	5	3	2	3	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:8119372C>T	uc001mga.2	+	8	1146	c.997C>T	c.(997-999)CGG>TGG	p.R333W	TUB_uc010rbk.1_Missense_Mutation_p.R339W|TUB_uc001mfy.2_Missense_Mutation_p.R388W	NM_177972	NP_813977	P50607	TUB_HUMAN	tubby isoform b	333					phagocytosis|positive regulation of phagocytosis|response to stimulus	cytoplasm|extracellular region|nucleus|plasma membrane				ovary(1)	1		all_lung(207;6.91e-20)|Lung NSC(207;3.36e-17)		Epithelial(150;1.69e-62)|BRCA - Breast invasive adenocarcinoma(625;8.54e-06)|LUSC - Lung squamous cell carcinoma(625;0.000184)		CGGGAAACTGCGGTACTAGCA	0.552													30	67					0	0	0.003271	0	0		T	8119372	T	T	8119372	3	4	4	1	0	0	0	0	1	0	0	0	16768	782	27	1	1238	1	TUB	11	8119372	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	137175	8119372	126887144	2503	4469											
LMO1	4004	broad.mit.edu	37	chr11	8248580	8248580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacacgttgtcccgggcccGcatcaccatctcgaaggctg	8	8	10	15	4	2	0	1	0	1	0	4	1	3	0	3	2	1	3	3	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:8248580G>A	uc001mgg.1	-	3	804	c.307C>T	c.(307-309)CGG>TGG	p.R103W	LMO1_uc009yfo.1_RNA|LMO1_uc001mgh.1_Missense_Mutation_p.R102W	NM_002315	NP_002306	P25800	RBTN1_HUMAN	LIM domain only 1	103	LIM zinc-binding 2.				cell proliferation|multicellular organismal development|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;1.59e-07)|BRCA - Breast invasive adenocarcinoma(625;0.203)		TCCCGGGCCCGCATCACCATC	0.632			T|A	TRD@	T-ALL|neuroblastoma	neuroblastoma							9	8					0	0	0.006214	0	0		A	8248580	A	A	8248580	3	1	4	1	0	0	0	0	1	0	0	0	8868	1086	38	1	171	1	LMO1	11	8248580	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	129208	8248580	126757936	2504	4470											
LMO1	4004	broad.mit.edu	37	chr11	8248591	8248591	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggcccgcatcaccatcTcgaaggctgggatcagcttg	7	7	12	15	3	3	0	2	0	1	0	4	2	3	1	3	3	1	3	3	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:8248591T>C	uc001mgg.1	-	3	793	c.296A>G	c.(295-297)GAG>GGG	p.E99G	LMO1_uc009yfo.1_RNA|LMO1_uc001mgh.1_Missense_Mutation_p.E98G	NM_002315	NP_002306	P25800	RBTN1_HUMAN	LIM domain only 1	99	LIM zinc-binding 2.				cell proliferation|multicellular organismal development|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;1.59e-07)|BRCA - Breast invasive adenocarcinoma(625;0.203)		CATCACCATCTCGAAGGCTGG	0.612			T|A	TRD@	T-ALL|neuroblastoma	neuroblastoma							10	11					0	0	0.000978	0	0		C	8248591	C	C	8248591	3	2	4	1	0	0	0	0	1	0	0	0	8868	1551	54	3	182	3	LMO1	11	8248591	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	11	8248591	126757925	2505	4471											
IPO7	10527	broad.mit.edu	37	chr11	9457899	9457899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattctgcagtgcaaagggCgtggcattgaccaggtcagt	9	10	13	9	1	3	1	2	1	1	0	3	1	3	1	1	3	2	3	1	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:9457899C>T	uc001mho.2	+	20	2396	c.2254C>T	c.(2254-2256)CGT>TGT	p.R752C		NM_006391	NP_006382	O95373	IPO7_HUMAN	importin 7	752					interspecies interaction between organisms|signal transduction	Golgi apparatus|nuclear pore|soluble fraction	protein transporter activity|Ran GTPase binding|small GTPase regulator activity			lung(1)|breast(1)	2				all cancers(16;8.29e-09)|Epithelial(150;4.76e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0217)		GTGCAAAGGGCGTGGCATTGA	0.403													11	28					0	0	0.000978	0	0		T	9457899	T	T	9457899	3	4	4	1	0	0	0	0	1	0	0	0	7813	768	27	1	2332	1	IPO7	11	9457899	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1209308	9457899	125548617	2506	4472											
WEE1	7465	broad.mit.edu	37	chr11	9607038	9607038	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccacaagttgaagagggCgatagtcgttttcttgcaaa	12	11	11	7	2	1	2	0	1	1	1	3	3	2	2	1	1	1	3	1	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:9607038C>T	uc001mhs.2	+	8	1687	c.1434C>T	c.(1432-1434)GGC>GGT	p.G478G	WEE1_uc001mht.2_Silent_p.G264G	NM_003390	NP_003381	P30291	WEE1_HUMAN	WEE1 tyrosine kinase isoform 1	478	Protein kinase.				blood coagulation|cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|S phase of mitotic cell cycle	nucleoplasm	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	5				all cancers(16;4.59e-09)|Epithelial(150;3.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0484)		TTGAAGAGGGCGATAGTCGTT	0.368													10	152					0	0	0.001855	0	0		T	9607038	T	T	9607038	2	4	4	1	0	0	0	0	0	0	0	1	17370	755	27	1		1	WEE1	11	9607038	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	149139	9607038	125399478	2507	4473											
SBF2	81846	broad.mit.edu	37	chr11	9806818	9806818	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacctcttctgataggaaggTaggttggtagacacaattcc	11	11	11	8	0	2	2	0	1	2	1	3	4	3	3	2	4	0	3	2	4	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:9806818T>C	uc001mib.2	-	37	5223	c.5085A>G	c.(5083-5085)CTA>CTG	p.L1695L	uc001mhz.1_Intron|SBF2_uc001mid.2_Silent_p.L339L|SBF2_uc001mic.2_5'UTR|uc001mie.3_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1695					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		GATAGGAAGGTAGGTTGGTAG	0.413													5	70					0	0	0.001168	0	0		C	9806818	C	C	9806818	2	2	4	1	0	0	0	0	0	0	0	1	13884	1625	57	3		3	SBF2	11	9806818	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	199780	9806818	125199698	2508	4474											
SBF2	81846	broad.mit.edu	37	chr11	9838554	9838554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatcaagcgagtgctagagcGaagacttgcccacacacctt	12	7	10	12	2	1	2	1	0	0	2	1	5	1	2	2	0	4	1	2	0	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:9838554G>A	uc001mib.2	-	29	3949	c.3811C>T	c.(3811-3813)CGC>TGC	p.R1271C	SBF2_uc001mid.2_5'UTR	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1271	Myotubularin phosphatase.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		GTGCTAGAGCGAAGACTTGCC	0.512													20	63					0	0	0.001882	0	0		A	9838554	A	A	9838554	3	1	4	1	0	0	0	0	1	0	0	0	13884	1058	37	1	1786	1	SBF2	11	9838554	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	31736	9838554	125167962	2509	4475											
AMPD3	272	broad.mit.edu	37	chr11	10524314	10524314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttgctcagatccccattgCcatgtctcctcttagcaaca	8	12	5	16	0	3	1	1	0	2	1	5	1	4	1	5	0	4	2	5	0	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:10524314C>T	uc001mio.1	+	13	2224	c.1889C>T	c.(1888-1890)GCC>GTC	p.A630V	AMPD3_uc010rbz.1_Missense_Mutation_p.A471V|AMPD3_uc001min.1_Missense_Mutation_p.A639V|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.A637V|AMPD3_uc009yfy.2_Missense_Mutation_p.A630V	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	630					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		ATCCCCATTGCCATGTCTCCT	0.428													8	143					0	0	0.00308	0	0		T	10524314	T	T	10524314	3	4	4	1	0	0	0	0	1	0	0	0	587	739	26	2	1986	2	AMPD3	11	10524314	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	685760	10524314	124482202	2510	4476											
AMPD3	272	broad.mit.edu	37	chr11	10527345	10527345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgtggctcagatccggatgGcattccgatatgagacctta	10	11	11	9	2	1	2	1	1	0	2	3	5	3	3	3	3	0	2	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:10527345G>A	uc001mio.1	+	15	2553	c.2218G>A	c.(2218-2220)GCA>ACA	p.A740T	AMPD3_uc010rbz.1_Missense_Mutation_p.A581T|AMPD3_uc001min.1_Missense_Mutation_p.A749T|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.A747T|AMPD3_uc009yfy.2_Missense_Mutation_p.A740T	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	740					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		GATCCGGATGGCATTCCGATA	0.428													35	70					0	0	0.004289	0	0		A	10527345	A	A	10527345	3	1	4	1	0	0	0	0	1	0	0	0	587	1203	42	2	2323	2	AMPD3	11	10527345	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3031	10527345	124479171	2511	4477											
ARNTL	406	broad.mit.edu	37	chr11	13402723	13402723	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggataagagggtcatcGccttctagctgtggctccag	9	9	13	10	1	2	1	1	0	1	1	4	3	3	2	2	3	1	2	2	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:13402723G>A	uc001mkr.2	+	18	1947	c.1539G>A	c.(1537-1539)TCG>TCA	p.S513S	ARNTL_uc001mko.2_Silent_p.S469S|ARNTL_uc001mkp.2_Silent_p.S512S|ARNTL_uc001mkq.2_Silent_p.S512S|ARNTL_uc001mks.2_Silent_p.S470S|ARNTL_uc001mkt.2_Silent_p.S513S|ARNTL_uc001mku.2_RNA|ARNTL_uc001mkw.2_Silent_p.S470S|ARNTL_uc001mkx.2_Silent_p.S511S|ARNTL_uc001mky.2_Silent_p.S51S	NM_001178	NP_001169	O00327	BMAL1_HUMAN	aryl hydrocarbon receptor nuclear	513				SP -> LR (in Ref. 2; AAC51213).	circadian rhythm|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	aryl hydrocarbon receptor binding|DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0				Epithelial(150;0.0243)		GAGGGTCATCGCCTTCTAGCT	0.478													26	64					0	0	0.003271	0	0		A	13402723	A	A	13402723	2	1	4	1	0	0	0	0	0	0	0	1	968	1074	38	1		1	ARNTL	11	13402723	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2875378	13402723	121603793	2512	4478											
SPON1	10418	broad.mit.edu	37	chr11	14276113	14276113	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattttccgtggacagaacGcgccatttaatgtccttcct	9	13	8	11	3	0	1	0	0	0	1	3	3	3	2	4	1	1	0	4	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:14276113G>A	uc001mle.2	+	9	1468	c.930G>A	c.(928-930)ACG>ACA	p.T310T		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	310	Spondin.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		TGGACAGAACGCGCCATTTAA	0.512													7	30					0	0	0.00308	0	0		A	14276113	A	A	14276113	2	1	4	1	0	0	0	0	0	0	0	1	15107	1074	38	1		1	SPON1	11	14276113	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	873390	14276113	120730403	2513	4479											
PLEKHA7	144100	broad.mit.edu	37	chr11	16837748	16837748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttccatgtaaactgggagCgctgacggtgtgggtcatgt	7	13	14	7	2	1	1	1	1	0	0	2	2	2	2	1	3	2	2	1	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:16837748C>T	uc001mmo.2	-	12	1945	c.1930G>A	c.(1930-1932)GCT>ACT	p.A644T	PLEKHA7_uc010rcu.1_Missense_Mutation_p.A644T|PLEKHA7_uc010rcv.1_Missense_Mutation_p.A218T|PLEKHA7_uc001mmn.2_Missense_Mutation_p.A352T	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	644	Interaction with CTNND1.				epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3						AAACTGGGAGCGCTGACGGTG	0.308													14	22					0	0	0.003163	0	0		T	16837748	T	T	16837748	3	4	4	1	0	0	0	0	1	0	0	0	12080	768	27	1	1483	1	PLEKHA7	11	16837748	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2561635	16837748	118168768	2514	4480											
PLEKHA7	144100	broad.mit.edu	37	chr11	16892710	16892710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtcacaggatgcctgaatgCtgtggtctgctggttatggc	6	12	14	9	1	2	1	1	1	1	0	2	2	2	2	1	4	3	3	1	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:16892710C>T	uc001mmo.2	-	4	256	c.241G>A	c.(241-243)GCA>ACA	p.A81T	PLEKHA7_uc010rcu.1_Missense_Mutation_p.A81T	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	81	WW 2.				epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3						TGCCTGAATGCTGTGGTCTGC	0.428													19	38					0	0	0.007413	0	0		T	16892710	T	T	16892710	3	4	4	1	0	0	0	0	1	0	0	0	12080	797	28	2	3204	2	PLEKHA7	11	16892710	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	54962	16892710	118113806	2515	4481											
TPH1	7166	broad.mit.edu	37	chr11	18048170	18048170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggatggaaaaacctgtacGctctgcaaagcaaaggagaa	17	5	11	8	2	1	1	0	0	1	1	1	4	1	3	1	3	4	4	1	3	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:18048170G>A	uc001mnp.2	-	6	696	c.670C>T	c.(670-672)CGT>TGT	p.R224C	TPH1_uc009yhe.2_RNA	NM_004179	NP_004170	P17752	TPH1_HUMAN	tryptophan hydroxylase 1	224					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity				0					L-Tryptophan(DB00150)|Tetrahydrobiopterin(DB00360)	AAACCTGTACGCTCTGCAAAG	0.423													10	49					0	0	0.001855	0	0		A	18048170	A	A	18048170	3	1	4	1	0	0	0	0	1	0	0	0	16427	1087	38	1	684	1	TPH1	11	18048170	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1155460	18048170	116958346	2516	4482											
TMEM86A	144110	broad.mit.edu	37	chr11	18722705	18722705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctctgctgtaggtgacGccttcctcatctggcaggac	5	13	10	13	1	4	1	1	1	3	0	6	2	5	2	2	3	1	3	2	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:18722705G>A	uc001moz.1	+	2	330	c.247G>A	c.(247-249)GCC>ACC	p.A83T		NM_153347	NP_699178	Q8N2M4	TM86A_HUMAN	transmembrane protein 86A	83	Helical; (Potential).					integral to membrane				ovary(1)	1						TGTAGGTGACGCCTTCCTCAT	0.617													20	48					0	0	0.010504	0	0		A	18722705	A	A	18722705	3	1	4	1	0	0	0	0	1	0	0	0	16233	1087	38	1	253	1	TMEM86A	11	18722705	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	674535	18722705	116283811	2517	4483											
NAV2	89797	broad.mit.edu	37	chr11	20077375	20077375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccatgctgaggactcacaGcctctccaatgctgatgggc	9	8	11	13	0	2	2	1	2	1	0	3	4	2	3	3	2	3	2	3	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:20077375G>A	uc010rdm.1	+	20	5133	c.4772G>A	c.(4771-4773)AGC>AAC	p.S1591N	NAV2_uc001mpp.2_Missense_Mutation_p.S1504N|NAV2_uc001mpr.3_Missense_Mutation_p.S1568N|NAV2_uc001mpt.2_Missense_Mutation_p.S617N|NAV2_uc009yhx.2_Missense_Mutation_p.S632N|NAV2_uc009yhy.1_Missense_Mutation_p.S530N|NAV2_uc009yhz.2_Missense_Mutation_p.S213N|NAV2_uc001mpu.2_Missense_Mutation_p.S6N	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1591	Ser-rich.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						AGGACTCACAGCCTCTCCAAT	0.502													9	47					0	0	0.008291	0	0		A	20077375	A	A	20077375	3	1	4	1	0	0	0	0	1	0	0	0	10202	971	34	2	4886	2	NAV2	11	20077375	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1354670	20077375	114929141	2518	4484											
MPPED2	744	broad.mit.edu	37	chr11	30601840	30601840	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctggttgatgttgtagtgCgtgaatgcctgggtggggtt	4	15	17	5	1	1	2	0	2	1	0	1	2	1	2	1	4	2	4	1	4	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:30601840C>T	uc001msr.2	-	1	201	c.81G>A	c.(79-81)ACG>ACA	p.T27T	MPPED2_uc001msq.3_Silent_p.T27T|MPPED2_uc009yji.2_5'UTR	NM_001584	NP_001575	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2	27					nervous system development		hydrolase activity|metal ion binding			skin(1)	1						TGTTGTAGTGCGTGAATGCCT	0.428													15	51					0	0	0.004007	0	0		T	30601840	T	T	30601840	2	4	4	1	0	0	0	0	0	0	0	1	9760	755	27	1		1	MPPED2	11	30601840	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10524465	30601840	104404676	2519	4485											
EIF3M	10480	broad.mit.edu	37	chr11	32615446	32615446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtcatggtggaattgctcGgaagttacacagaggacaat	14	9	12	6	1	1	1	1	0	0	1	2	4	1	4	0	4	2	2	0	4	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:32615446G>A	uc001mtu.2	+	6	611	c.568G>A	c.(568-570)GGA>AGA	p.G190R	EIF3M_uc010ref.1_Missense_Mutation_p.G58R	NM_006360	NP_006351	Q7L2H7	EIF3M_HUMAN	eukaryotic translation initiation factor 3,	190						eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)|breast(1)|skin(1)	3	Breast(20;0.109)					GGAATTGCTCGGAAGTTACAC	0.378													24	67					0	0	0.004656	0	0		A	32615446	A	A	32615446	3	1	4	1	0	0	0	0	1	0	0	0	5031	1117	39	1	590	1	EIF3M	11	32615446	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2013606	32615446	102391070	2520	4486											
QSER1	79832	broad.mit.edu	37	chr11	32975681	32975681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaaggccaatacagagagCgtgatgaatttgtggtaaag	15	8	14	4	1	0	4	0	2	0	2	0	6	0	4	1	2	2	1	1	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:32975681C>T	uc001mty.2	+	5	4336	c.4069C>T	c.(4069-4071)CGT>TGT	p.R1357C	QSER1_uc001mtz.1_Missense_Mutation_p.R1118C|QSER1_uc001mua.2_Missense_Mutation_p.R862C	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	1357										ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					ATACAGAGAGCGTGATGAATT	0.433													20	78					0	0	0.002299	0	0		T	32975681	T	T	32975681	3	4	4	1	0	0	0	0	1	0	0	0	12907	768	27	1	4079	1	QSER1	11	32975681	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	360235	32975681	102030835	2521	4487											
CSTF3	1479	broad.mit.edu	37	chr11	33120306	33120306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaccttttcatacttcatgCgactctaaggtggtacagaa	12	12	8	9	1	3	1	2	0	1	1	3	3	3	1	1	2	4	1	1	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:33120306C>T	uc001muh.2	-	13	1224	c.1058G>A	c.(1057-1059)CGC>CAC	p.R353H	TCP11L1_uc001muf.1_Intron	NM_001326	NP_001317	Q12996	CSTF3_HUMAN	cleavage stimulation factor subunit 3 isoform 1	353					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding				0						ATACTTCATGCGACTCTAAGG	0.398													27	160					0	0	0.009535	0	0		T	33120306	T	T	33120306	3	4	4	1	0	0	0	0	1	0	0	0	3989	768	27	1	1131	1	CSTF3	11	33120306	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	144625	33120306	101886210	2522	4488											
C11orf41	25758	broad.mit.edu	37	chr11	33565790	33565790	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaacatcttgggatatcActctgctgctgaatcttcta	10	13	7	11	0	5	2	1	1	4	1	5	3	5	3	1	1	3	2	1	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:33565790A>G	uc001mup.3	+	1	1914	c.1790A>G	c.(1789-1791)CAC>CGC	p.H597R	C11orf41_uc001mun.1_Missense_Mutation_p.H597R	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	597						integral to membrane				ovary(2)	2						TTGGGATATCACTCTGCTGCT	0.483													6	114					0	0	0.001984	0	0		G	33565790	G	G	33565790	3	3	4	1	0	0	0	0	1	0	0	0	1643	159	6	3	1792	3	C11orf41	11	33565790	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	445484	33565790	101440726	2523	4489											
LMO2	4005	broad.mit.edu	37	chr11	33881013	33881013	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatgcttctgacaggcggcGcatttgaaacattccaggtg	11	10	11	9	2	1	2	0	2	1	0	2	2	2	2	1	3	2	2	1	3	2	3	rs150885335		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:33881013G>A	uc001mve.2	-	3	805	c.366C>T	c.(364-366)TGC>TGT	p.C122C	LMO2_uc001mvc.2_Silent_p.C115C|LMO2_uc001mvd.2_Silent_p.C115C|LMO2_uc010rel.1_Silent_p.C122C|LMO2_uc010rem.1_Silent_p.C191C	NM_001142316	NP_001135788	P25791	RBTN2_HUMAN	LIM domain only 2 isoform 2	122	LIM zinc-binding 2.				multicellular organismal development	nucleus	protein binding|zinc ion binding			lung(1)	1						GACAGGCGGCGCATTTGAAAC	0.488			T	TRD@	T-ALL								25	46					0	0	0.003954	0	0		A	33881013	A	A	33881013	2	1	4	1	0	0	0	0	0	0	0	1	8869	1079	38	1		1	LMO2	11	33881013	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	315223	33881013	101125503	2524	4490											
ABTB2	25841	broad.mit.edu	37	chr11	34218942	34218942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactccatctgtggacaccGcagaaagtagtagagcgtgt	11	8	13	9	2	1	2	0	0	1	2	2	4	2	4	2	2	1	3	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:34218942G>A	uc001mvl.1	-	3	846	c.616C>T	c.(616-618)CGG>TGG	p.R206W		NM_145804	NP_665803	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing	206							DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)				TGTGGACACCGCAGAAAGTAG	0.647													6	29					0	0	0.004482	0	0		A	34218942	A	A	34218942	3	1	4	1	0	0	0	0	1	0	0	0	103	1086	38	1	1963	1	ABTB2	11	34218942	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	337929	34218942	100787574	2525	4491											
ELF5	2001	broad.mit.edu	37	chr11	34515211	34515211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagccactcccacacatggCgcttagtccagtattcaggg	9	8	11	13	1	1	0	1	0	0	0	3	1	3	1	3	3	1	2	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:34515211C>T	uc001mvo.1	-	3	430	c.200G>A	c.(199-201)CGC>CAC	p.R67H	ELF5_uc001mvp.1_Missense_Mutation_p.R57H|ELF5_uc009ykd.1_Intron|ELF5_uc001mvq.1_Missense_Mutation_p.R57H	NM_198381	NP_938195	Q9UKW6	ELF5_HUMAN	E74-like factor 5 ESE-2a	67	PNT.				cell proliferation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.0087)|all_hematologic(20;0.0384)				CCACACATGGCGCTTAGTCCA	0.527											OREG0020879	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	35					0	0	0.006214	0	0		T	34515211	T	T	34515211	3	4	4	1	0	0	0	0	1	0	0	0	5065	768	27	1	617	1	ELF5	11	34515211	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	296269	34515211	100491305	2526	4492											
EHF	26298	broad.mit.edu	37	chr11	34680177	34680177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaagaccgatctgagggCgtcttcaggttcttgaaatc	9	11	13	8	2	4	3	1	2	3	1	5	5	4	4	1	3	0	1	1	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:34680177C>T	uc001mvr.1	+	8	816	c.705C>T	c.(703-705)GGC>GGT	p.G235G	EHF_uc009yke.1_Silent_p.G212G|EHF_uc009ykf.1_Silent_p.G238G	NM_012153	NP_036285	Q9NZC4	EHF_HUMAN	ets homologous factor	235	ETS.				cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)			GATCTGAGGGCGTCTTCAGGT	0.488													14	74					0	0	0.003163	0	0		T	34680177	T	T	34680177	2	4	4	1	0	0	0	0	0	0	0	1	4987	755	27	1		1	EHF	11	34680177	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	164966	34680177	100326339	2527	4493											
PDHX	8050	broad.mit.edu	37	chr11	34988196	34988196	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatttccagggatgctctCaaacttgtccagttgaaaca	11	13	7	10	0	1	1	1	1	1	0	4	2	3	2	2	1	3	2	2	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:34988196C>A	uc001mvt.2	+	6	1177	c.651C>A	c.(649-651)CTC>CTA	p.L217L	PDHX_uc010rep.1_Silent_p.L202L|PDHX_uc010req.1_Intron	NM_003477	NP_003468	O00330	ODPX_HUMAN	pyruvate dehydrogenase complex, component X	217					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	acyltransferase activity			kidney(1)	1	all_epithelial(35;0.115)|Lung NSC(22;0.218)|all_lung(20;0.242)	all_hematologic(20;0.124)	STAD - Stomach adenocarcinoma(6;0.00113)			GGGATGCTCTCAAACTTGTCC	0.468													35	106					1.47244e-24	1.61573e-24	0.00623	1	0		A	34988196	A	A	34988196	2	1	4	1	0	0	0	0	0	0	0	1	11686	813	29	5		5	PDHX	11	34988196	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	308019	34988196	100018320	2528	4494											
PDHX	8050	broad.mit.edu	37	chr11	34988232	34988232	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaaacgggcaagattacCgagtccagaccaactccagc	16	4	8	13	2	0	2	0	0	0	2	2	3	2	2	4	1	5	1	4	1	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:34988232C>T	uc001mvt.2	+	6	1213	c.687C>T	c.(685-687)ACC>ACT	p.T229T	PDHX_uc010rep.1_Silent_p.T214T|PDHX_uc010req.1_Intron	NM_003477	NP_003468	O00330	ODPX_HUMAN	pyruvate dehydrogenase complex, component X	229					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	acyltransferase activity			kidney(1)	1	all_epithelial(35;0.115)|Lung NSC(22;0.218)|all_lung(20;0.242)	all_hematologic(20;0.124)	STAD - Stomach adenocarcinoma(6;0.00113)			GCAAGATTACCGAGTCCAGAC	0.502													23	77					0	0	0.00333	0	0		T	34988232	T	T	34988232	2	4	4	1	0	0	0	0	0	0	0	1	11686	639	23	1		1	PDHX	11	34988232	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	36	34988232	100018284	2529	4495											
LDLRAD3	143458	broad.mit.edu	37	chr11	36250736	36250736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtatgaccttcctccacCgccctactcttctgacacgg	6	11	8	16	2	2	2	0	2	2	0	4	2	4	2	5	2	1	1	5	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:36250736C>T	uc001mwk.1	+	6	864	c.827C>T	c.(826-828)CCG>CTG	p.P276L	LDLRAD3_uc010rey.1_Missense_Mutation_p.P227L|LDLRAD3_uc010rez.1_Missense_Mutation_p.P155L|LDLRAD3_uc010rfa.1_RNA	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	276	Poly-Pro.|Cytoplasmic (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)				CTTCCTCCACCGCCCTACTCT	0.617													20	75					0	0	0.00333	0	0		T	36250736	T	T	36250736	3	4	4	1	0	0	0	0	1	0	0	0	8723	652	23	1	849	1	LDLRAD3	11	36250736	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1262504	36250736	98755780	2530	4496											
LDLRAD3	143458	broad.mit.edu	37	chr11	36250849	36250849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagcagcctcctgagcGtggaagacaccagccacagc	11	3	11	16	1	0	2	0	1	0	1	1	3	1	3	5	1	6	1	5	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:36250849G>A	uc001mwk.1	+	6	977	c.940G>A	c.(940-942)GTG>ATG	p.V314M	LDLRAD3_uc010rey.1_Missense_Mutation_p.V265M|LDLRAD3_uc010rez.1_Missense_Mutation_p.V193M|LDLRAD3_uc010rfa.1_RNA	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	314	Cytoplasmic (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)				CCTCCTGAGCGTGGAAGACAC	0.662													4	24					0	0	0.000602	0	0		A	36250849	A	A	36250849	3	1	4	1	0	0	0	0	1	0	0	0	8723	1145	40	1	962	1	LDLRAD3	11	36250849	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	113	36250849	98755667	2531	4497											
COMMD9	29099	broad.mit.edu	37	chr11	36300147	36300147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccaccagcctagtgaggCggtgcagagcctggagcagc	9	5	15	12	1	0	2	0	1	0	1	0	3	0	3	4	3	6	2	4	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:36300147C>T	uc001mwn.3	-	3	234	c.197G>A	c.(196-198)CGC>CAC	p.R66H	COMMD9_uc009ykj.2_Missense_Mutation_p.R24H|COMMD9_uc010rfb.1_Missense_Mutation_p.R66H	NM_014186	NP_054905	Q9P000	COMD9_HUMAN	COMM domain containing 9 isoform 1	66										ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				CCTAGTGAGGCGGTGCAGAGC	0.567													4	17					0	0	0.000602	0	0		T	36300147	T	T	36300147	3	4	4	1	0	0	0	0	1	0	0	0	3726	768	27	1	415	1	COMMD9	11	36300147	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	49298	36300147	98706369	2532	4498											
RAG1	5896	broad.mit.edu	37	chr11	36595270	36595270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtggatggtaaaaccctagGccttttacgaaagaaggaaa	15	9	11	6	1	0	1	0	0	0	1	0	4	0	3	2	4	2	1	2	4	7	4	rs140648865		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:36595270G>A	uc001mwu.3	+	2	540	c.416G>A	c.(415-417)GGC>GAC	p.G139D	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	139	Interaction with importin alpha-1.				histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				AAAACCCTAGGCCTTTTACGA	0.498									Familial_Hemophagocytic_Lymphohistiocytosis				21	60					0	0	0.002299	0	0		A	36595270	A	A	36595270	3	1	4	1	0	0	0	0	1	0	0	0	13028	1203	42	2	418	2	RAG1	11	36595270	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	295123	36595270	98411246	2533	4499											
LRRC4C	57689	broad.mit.edu	37	chr11	40136706	40136706	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagatacagatgtcagggaTgtggaggcccgacatttcag	12	8	13	8	1	2	2	2	0	0	2	2	5	2	4	1	3	1	0	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:40136706T>C	uc001mxa.1	-	2	3101	c.1137A>G	c.(1135-1137)ACA>ACG	p.T379T	LRRC4C_uc001mxc.1_Silent_p.T375T|LRRC4C_uc001mxd.1_Silent_p.T375T|LRRC4C_uc001mxb.1_Silent_p.T375T	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	379	Ig-like C2-type.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				ATGTCAGGGATGTGGAGGCCC	0.493													18	46					0	0	0.007413	0	0		C	40136706	C	C	40136706	2	2	4	1	0	0	0	0	0	0	0	1	9026	1451	51	3		3	LRRC4C	11	40136706	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	3541436	40136706	94869810	2534	4500											
TTC17	55761	broad.mit.edu	37	chr11	43513699	43513699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacttcactctgggcaatGtctacgtggcaatggtgaga	10	10	11	10	1	3	1	1	1	2	1	3	2	3	1	1	3	1	2	1	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:43513699G>A	uc001mxi.2	+	23	3294	c.3280G>A	c.(3280-3282)GTC>ATC	p.V1094I	TTC17_uc010rfj.1_Missense_Mutation_p.V1094I|TTC17_uc001mxl.2_Missense_Mutation_p.V150I|TTC17_uc001mxm.2_Missense_Mutation_p.V75I	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	1094	TPR 6.						binding			ovary(5)	5						TCTGGGCAATGTCTACGTGGC	0.478													33	90					0	0	0.003271	0	0		A	43513699	A	A	43513699	3	1	4	1	0	0	0	0	1	0	0	0	16710	1377	48	4	3370	4	TTC17	11	43513699	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3376993	43513699	91492817	2535	4501											
ACCS	84680	broad.mit.edu	37	chr11	44099449	44099449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagtggagaagctggagatgGccctgagagaagctcactct	11	7	14	9	0	2	4	1	1	1	3	2	7	2	4	1	3	2	2	1	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:44099449G>A	uc009yks.1	+	8	853	c.709G>A	c.(709-711)GCC>ACC	p.A237T	EXT2_uc010rfo.1_Intron|ACCS_uc010rfm.1_3'UTR|ACCS_uc001mxx.2_Missense_Mutation_p.A237T	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	237							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						GCTGGAGATGGCCCTGAGAGA	0.562													6	27					0	0	0.001168	0	0		A	44099449	A	A	44099449	3	1	4	1	0	0	0	0	1	0	0	0	133	1203	42	2	735	2	ACCS	11	44099449	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	585750	44099449	90907067	2536	4502											
TSPAN18	90139	broad.mit.edu	37	chr11	44931414	44931414	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcggcttcctgggctgctgCggggccgtccgtgagaacaa	5	8	15	13	4	0	1	0	1	0	1	3	2	2	1	3	4	3	3	3	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:44931414C>T	uc001mye.3	+	3	383	c.222C>T	c.(220-222)TGC>TGT	p.C74C	TP53I11_uc001myf.1_Intron|TSPAN18_uc001myg.2_Silent_p.C74C	NM_130783	NP_570139	Q96SJ8	TSN18_HUMAN	tetraspanin 18 isoform 2	74	Cytoplasmic (Potential).					integral to membrane					0						TGGGCTGCTGCGGGGCCGTCC	0.637													4	14					0	0	0.009096	0	0		T	44931414	T	T	44931414	2	4	4	1	0	0	0	0	0	0	0	1	16668	776	27	1		1	TSPAN18	11	44931414	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	831965	44931414	90075102	2537	4503											
MAPK8IP1	9479	broad.mit.edu	37	chr11	45925641	45925641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacgaggcctacaacatgcGcactggtgcccggggtgtct	7	8	14	12	3	1	0	0	0	1	0	1	1	1	0	2	4	5	2	2	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:45925641G>A	uc001nbr.2	+	7	1765	c.1595G>A	c.(1594-1596)CGC>CAC	p.R532H		NM_005456	NP_005447	Q9UQF2	JIP1_HUMAN	mitogen-activated protein kinase 8 interacting	532	SH3.				vesicle-mediated transport	nucleus|perinuclear region of cytoplasm	kinesin binding|MAP-kinase scaffold activity|protein kinase inhibitor activity			ovary(2)|breast(1)|skin(1)	4				GBM - Glioblastoma multiforme(35;0.231)		TACAACATGCGCACTGGTGCC	0.592													5	37					0	0	0.000602	0	0		A	45925641	A	A	45925641	3	1	4	1	0	0	0	0	1	0	0	0	9302	1087	38	1	1621	1	MAPK8IP1	11	45925641	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	994227	45925641	89080875	2538	4504											
PEX16	9409	broad.mit.edu	37	chr11	45931824	45931824	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcagccccaactgtagaagTagattttctgccaggtgggc	9	10	12	10	0	2	2	1	0	1	2	2	2	2	2	3	2	3	2	3	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:45931824T>C	uc001nbu.2	-	11	1304	c.992A>G	c.(991-993)TAC>TGC	p.Y331C	C11orf94_uc001nbs.3_5'Flank|PEX16_uc001nbt.2_Intron	NM_004813	NP_004804	Q9Y5Y5	PEX16_HUMAN	peroxisomal biogenesis factor 16 isoform 1	331	Interaction with PEX19.|Cytoplasmic (Potential).				ER-dependent peroxisome organization|peroxisome membrane biogenesis|protein import into peroxisome matrix|protein import into peroxisome membrane	endoplasmic reticulum membrane|integral to peroxisomal membrane	protein C-terminus binding			ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.223)		ACTGTAGAAGTAGATTTTCTG	0.612													7	31					0	0	0.00308	0	0		C	45931824	C	C	45931824	3	2	4	1	0	0	0	0	1	0	0	0	11762	1638	57	3	115	3	PEX16	11	45931824	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	6183	45931824	89074692	2539	4505											
PHF21A	51317	broad.mit.edu	37	chr11	45959804	45959804	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatacacgggaacatgtgtcGcacatcagtaactggccact	12	9	9	11	2	1	0	1	0	0	0	2	1	1	1	1	2	3	2	1	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:45959804G>A	uc001ncc.3	-	15	2133	c.1509C>T	c.(1507-1509)TGC>TGT	p.C503C	PHF21A_uc001ncb.3_Silent_p.C457C|PHF21A_uc009ykx.2_Silent_p.C457C|PHF21A_uc001nca.1_Silent_p.C239C	NM_001101802	NP_001095272	Q96BD5	PF21A_HUMAN	BRAF35/HDAC2 complex isoform a	503	Required for transcriptional repression.|PHD-type.				blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						AACATGTGTCGCACATCAGTA	0.443													20	65					0	0	0.002299	0	0		A	45959804	A	A	45959804	2	1	4	1	0	0	0	0	0	0	0	1	11852	1079	38	1		1	PHF21A	11	45959804	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	27980	45959804	89046712	2540	4506											
CHRM4	1132	broad.mit.edu	37	chr11	46408103	46408103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cattgacaggtgtgaagttgGccatgttggttgccaggggt	7	12	16	6	0	0	2	0	2	0	0	0	2	0	2	2	5	1	3	2	5	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:46408103G>A	uc001nct.1	-	1	5	c.5C>T	c.(4-6)GCC>GTC	p.A2V		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	2	Extracellular (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	TGTGAAGTTGGCCATGTTGGT	0.557													15	45					0	0	0.007413	0	0		A	46408103	A	A	46408103	3	1	4	1	0	0	0	0	1	0	0	0	3382	1203	42	2	1438	2	CHRM4	11	46408103	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	448299	46408103	88598413	2541	4507											
AMBRA1	55626	broad.mit.edu	37	chr11	46419227	46419227	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtccgggggcttaggcctcGctctgccagttgcccggcct	2	10	14	15	3	1	0	0	0	1	0	3	0	2	0	5	4	2	3	5	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:46419227G>A	uc010rgu.1	-	18	4030	c.3670C>T	c.(3670-3672)CGA>TGA	p.R1224*	AMBRA1_uc010rgt.1_3'UTR|AMBRA1_uc009ylc.1_Nonsense_Mutation_p.R1195*|AMBRA1_uc001ncu.1_Nonsense_Mutation_p.R1134*|AMBRA1_uc001ncv.2_Nonsense_Mutation_p.R1227*|AMBRA1_uc001ncw.2_Nonsense_Mutation_p.R1105*|AMBRA1_uc001ncx.2_Nonsense_Mutation_p.R1164*	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	1224					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		CTTAGGCCTCGCTCTGCCAGT	0.692													8	11					0	0	0.000978	0	0		A	46419227	A	A	46419227	4	1	4	1	0	0	0	0	0	1	0	0	565	1095	38	1	230	1	AMBRA1	11	46419227	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11124	46419227	88587289	2542	4508											
HARBI1	283254	broad.mit.edu	37	chr11	46637365	46637365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacccccatcacccctggCatccctgccaacccatagaa	11	5	4	21	0	1	1	1	0	0	1	2	1	2	1	8	1	2	1	8	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:46637365C>T	uc001ncy.2	-	2	671	c.423G>A	c.(421-423)ATG>ATA	p.M141I	KIAA0652_uc009yld.2_5'Flank|KIAA0652_uc001nda.2_5'Flank|KIAA0652_uc001ndb.2_5'Flank|KIAA0652_uc001ncz.2_5'Flank|KIAA0652_uc001ndc.2_5'Flank|KIAA0652_uc010rgv.1_5'Flank	NM_173811	NP_776172	Q96MB7	HARB1_HUMAN	harbinger transposase derived 1	141						cytoplasm|nucleus	metal ion binding|nuclease activity				0						TCACCCCTGGCATCCCTGCCA	0.507													55	183					0	0	0.00361	0	0		T	46637365	T	T	46637365	3	4	4	1	0	0	0	0	1	0	0	0	6974	710	25	2	634	2	HARBI1	11	46637365	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	218138	46637365	88369151	2543	4509											
CKAP5	9793	broad.mit.edu	37	chr11	46797803	46797803	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgattaatttatgatactaAcctcttgcctcaagaaagga	15	13	6	7	0	2	3	1	2	1	1	2	4	2	4	2	1	3	0	2	1	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:46797803A>G	uc001ndi.1	-	24	3101	c.2991_splice	c.e24+1	p.E997_splice	CKAP5_uc009ylg.1_Splice_Site_p.E883_splice|CKAP5_uc001ndj.1_Splice_Site_p.E997_splice	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein						cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						TATGATACTAACCTCTTGCCT	0.403													5	46					0	0	0.001168	0	0		G	46797803	G	G	46797803	5	3	4	1	0	0	0	0	0	0	1	0	3448	57	2	3	3189	3	CKAP5	11	46797803	Splice_Site	SNP	A	TCGA-BR-4184-01A-01D-1126-08	160438	46797803	88208713	2544	4510											
LRP4	4038	broad.mit.edu	37	chr11	46880599	46880599	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtctggcagagagcctcGtctttctggagtggctgcag	5	11	15	10	2	3	1	0	0	3	1	4	3	3	2	1	3	2	3	1	3	0	1	rs147138337		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:46880599G>A	uc001ndn.3	-	38	5799	c.5653C>T	c.(5653-5655)CGA>TGA	p.R1885*	uc001ndl.2_Intron|LRP4_uc001ndm.3_Nonsense_Mutation_p.R127*	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1885	Cytoplasmic (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		AGAGAGCCTCGTCTTTCTGGA	0.567													8	28					0	0	0.008291	0	0		A	46880599	A	A	46880599	4	1	4	1	0	0	0	0	0	1	0	0	8977	1153	40	1	68	1	LRP4	11	46880599	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	82796	46880599	88125917	2545	4511											
ARFGAP2	84364	broad.mit.edu	37	chr11	47188378	47188378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctcctgcgaatttctgaCgcgcctcactagactcgagg	7	10	11	13	4	2	2	1	1	1	1	4	4	3	2	2	2	1	1	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:47188378C>T	uc001ndt.2	-	13	1280	c.1265G>A	c.(1264-1266)CGT>CAT	p.R422H	ARFGAP2_uc010rha.1_Missense_Mutation_p.R153H|ARFGAP2_uc010rhb.1_Missense_Mutation_p.R394H|ARFGAP2_uc001ndu.2_Missense_Mutation_p.R286H|ARFGAP2_uc010rhc.1_Missense_Mutation_p.R153H	NM_032389	NP_115765	Q8N6H7	ARFG2_HUMAN	ADP-ribosylation factor GTPase activating	422	Required for interaction with coatomer.				protein transport|regulation of ARF GTPase activity|vesicle-mediated transport	Golgi membrane|nucleolus|plasma membrane	ARF GTPase activator activity|zinc ion binding			ovary(1)	1						GAATTTCTGACGCGCCTCACT	0.577													44	120					0	0	0.00361	0	0		T	47188378	T	T	47188378	3	4	4	1	0	0	0	0	1	0	0	0	850	536	19	1	316	1	ARFGAP2	11	47188378	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	307779	47188378	87818138	2546	4512											
NR1H3	10062	broad.mit.edu	37	chr11	47282972	47282972	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagcaacagtgtaaccggcGctccttttctgaccggcttc	7	10	9	15	3	1	1	0	1	1	0	3	1	2	1	4	2	3	4	4	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:47282972G>A	uc009ylm.2	+	5	901	c.680G>A	c.(679-681)CGC>CAC	p.R227H	NR1H3_uc009yll.1_Missense_Mutation_p.R233H|NR1H3_uc010rhk.1_Missense_Mutation_p.R233H|NR1H3_uc001nek.2_Missense_Mutation_p.R182H|NR1H3_uc001nej.2_Missense_Mutation_p.R227H|NR1H3_uc001nel.2_Missense_Mutation_p.R182H|NR1H3_uc001nen.3_Missense_Mutation_p.R227H|NR1H3_uc001nem.2_Missense_Mutation_p.R227H|NR1H3_uc001nep.2_Missense_Mutation_p.R136H	NM_005693	NP_005684	Q13133	NR1H3_HUMAN	nuclear receptor subfamily 1, group H, member 3	227	Ligand-binding (Potential).				apoptotic cell clearance|cellular response to lipopolysaccharide|cholesterol homeostasis|negative regulation of cholesterol storage|negative regulation of inflammatory response|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of macrophage activation|negative regulation of pancreatic juice secretion|negative regulation of pinocytosis|negative regulation of secretion of lysosomal enzymes|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of cholesterol homeostasis|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor biosynthetic process|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of circadian rhythm|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to progesterone stimulus|triglyceride homeostasis	nuclear chromatin|nucleoplasm	cholesterol binding|steroid hormone receptor activity|sterol response element binding|transcription coactivator activity|zinc ion binding			ovary(2)|lung(1)	3						TGTAACCGGCGCTCCTTTTCT	0.617													19	33					0	0	0.003954	0	0		A	47282972	A	A	47282972	3	1	4	1	0	0	0	0	1	0	0	0	10637	1087	38	1	694	1	NR1H3	11	47282972	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	94594	47282972	87723544	2547	4513											
MYBPC3	4607	broad.mit.edu	37	chr11	47367812	47367812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcctctttagcatgccgcGcaggtcagtgacgccgtact	7	9	12	13	4	2	1	1	1	1	0	2	2	2	1	3	1	4	3	3	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:47367812G>A	uc001nfa.3	-	12	1091	c.1036C>T	c.(1036-1038)CGC>TGC	p.R346C		NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	346					cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		AGCATGCCGCGCAGGTCAGTG	0.622													5	19					0	0	0.000602	0	0		A	47367812	A	A	47367812	3	1	4	1	0	0	0	0	1	0	0	0	10031	1087	38	1	2876	1	MYBPC3	11	47367812	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	84840	47367812	87638704	2548	4514											
CELF1	10658	broad.mit.edu	37	chr11	47505972	47505972	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccatcaggtccccgcaatatCcggcattcttcaatctgtcc	8	11	6	16	2	4	0	2	0	2	0	7	0	7	0	5	2	0	2	5	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:47505972C>T	uc001nfl.2	-	4	424	c.414G>A	c.(412-414)CGG>CGA	p.R138R	CELF1_uc001nfm.2_Silent_p.R138R|CELF1_uc001nfn.2_Silent_p.R138R|CELF1_uc001nfo.1_Silent_p.R164R|CELF1_uc010rhm.1_Silent_p.R137R|CELF1_uc001nfp.2_Silent_p.R165R|CELF1_uc001nfq.1_Silent_p.R138R|CELF1_uc001nfr.1_Silent_p.R138R	NM_001025596	NP_001020767	Q92879	CELF1_HUMAN	CUG triplet repeat, RNA-binding protein 1	138	RRM 2.				embryo development|mRNA splice site selection|regulation of RNA splicing|RNA interference	cytoplasm|nucleus|ribonucleoprotein complex	BRE binding|mRNA binding|nucleotide binding|translation repressor activity, nucleic acid binding			central_nervous_system(2)|ovary(1)	3						CCCGCAATATCCGGCATTCTT	0.398													4	99					0	0	0.009096	0	0		T	47505972	T	T	47505972	2	4	4	1	0	0	0	0	0	0	0	1	3218	842	30	4		4	CELF1	11	47505972	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	138160	47505972	87500544	2549	4515											
PTPRJ	5795	broad.mit.edu	37	chr11	48145282	48145282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttgaaagcattggaaGccatgaggagttgactcaag	12	11	11	7	0	3	3	1	3	2	0	3	5	3	5	1	2	2	2	1	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:48145282G>A	uc001ngp.3	+	5	1089	c.734G>A	c.(733-735)AGC>AAC	p.S245N	PTPRJ_uc001ngo.3_Missense_Mutation_p.S245N	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	245	Extracellular (Potential).|Fibronectin type-III 2.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						AGCATTGGAAGCCATGAGGAG	0.512													16	33					0	0	0.002299	0	0		A	48145282	A	A	48145282	3	1	4	1	0	0	0	0	1	0	0	0	12829	971	34	2	752	2	PTPRJ	11	48145282	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	639310	48145282	86861234	2550	4516											
OR4A16	81327	broad.mit.edu	37	chr11	55110982	55110982	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgggtcagctcttcatagaAcacttacttggtggtgcaga	10	12	11	8	0	3	2	2	0	1	2	3	2	3	2	0	3	4	2	0	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55110982A>C	uc010rie.1	+	1	306	c.306A>C	c.(304-306)GAA>GAC	p.E102D		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	102	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						TCTTCATAGAACACTTACTTG	0.438													51	111					0	0	0.00361	0	0		C	55110982	C	C	55110982	3	2	4	1	0	0	0	0	1	0	0	0	11060	40	2	5	308	5	OR4A16	11	55110982	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	6965700	55110982	79895534	2551	4517											
OR4A15	81328	broad.mit.edu	37	chr11	55136066	55136066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatggaggagcgatttgtgCtgtcaccttcttcactatcc	8	14	9	10	1	3	0	2	0	1	0	4	3	4	2	2	2	2	1	2	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55136066C>T	uc010rif.1	+	1	707	c.707C>T	c.(706-708)GCT>GTT	p.A236V		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	236	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCGATTTGTGCTGTCACCTTC	0.428													7	87					0	0	0.00308	0	0		T	55136066	T	T	55136066	3	4	4	1	0	0	0	0	1	0	0	0	11059	797	28	2	709	2	OR4A15	11	55136066	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	25084	55136066	79870450	2552	4518											
OR4C16	219428	broad.mit.edu	37	chr11	55339888	55339888	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actatctccttcagcgagtgCatgatccaagtcttttcatc	9	14	6	12	1	4	1	2	1	2	0	7	2	5	1	2	0	2	1	2	0	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55339888C>T	uc010rih.1	+	1	285	c.285C>T	c.(283-285)TGC>TGT	p.C95C		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	95	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				TCAGCGAGTGCATGATCCAAG	0.468													42	158					0	0	0.002522	0	0		T	55339888	T	T	55339888	2	4	4	1	0	0	0	0	0	0	0	1	11068	718	25	2		2	OR4C16	11	55339888	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	203822	55339888	79666628	2553	4519											
OR5D14	219436	broad.mit.edu	37	chr11	55563305	55563305	+	Frame_Shift_Del	DEL	A	-	-																															agaacttggtaatggcagatAaaagcatcttctactttagc																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55563305delA	uc010rim.1	+	1	274	c.274delA	c.(274-276)AAAfs	p.K92fs		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				AATGGCAGATAAAAGCATCTT	0.443													22	46	---	---	---	---						.	-	55563305	-	-	55563305	7	5	4	1	0	1	0	1	0	0	0	0	11174	363	13	0	276	0	OR5D14	11	55563305	Frame_Shift_Del	DEL	A	TCGA-BR-4184-01A-01D-1126-08	223417	55563305	79443211	2554	4520											
OR10AG1	282770	broad.mit.edu	37	chr11	55735774	55735774	+	Missense_Mutation	SNP	T	G	G																															gatttccaaaagggaaaaatTgctaagaaaaaaatacatgg																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55735774T>G	uc010rit.1	-	1	166	c.166A>C	c.(166-168)AAT>CAT	p.N56H		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					AGGGAAAAATTGCTAAGAAAA	0.343													6	79					0	0	0.001168	0	0		G	55735774	G	G	55735774	3	3	4	1	0	0	0	0	1	0	0	0	10916	1812	63	5	742	5	OR10AG1	11	55735774	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	172469	55735774	79270742	2555	4521	7	2									
OR10AG1	282770	broad.mit.edu	37	chr11	55735781	55735781	+	Silent	SNP	A	G	G																															aaaagggaaaaattgctaagAaaaaaatacatgggagtctg																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55735781A>G	uc010rit.1	-	1	159	c.159T>C	c.(157-159)TTT>TTC	p.F53F		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	53	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					AATTGCTAAGAAAAAAATACA	0.328													6	76					0	0	0.001168	0	0		G	55735781	G	G	55735781	2	3	4	1	0	0	0	0	0	0	0	1	10916	243	9	3		3	OR10AG1	11	55735781	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	7	55735781	79270735	2556	4522	7	2									
OR8H2	390151	broad.mit.edu	37	chr11	55872941	55872941	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attatgtccaaaaggctctgCctcgctctcatcactgggcc	8	11	8	14	1	3	0	2	0	2	0	6	0	4	0	3	2	1	2	3	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55872941C>T	uc010riy.1	+	1	423	c.423C>T	c.(421-423)TGC>TGT	p.C141C		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					AAAGGCTCTGCCTCGCTCTCA	0.458										HNSCC(53;0.14)			47	136					0	0	0.00361	0	0		T	55872941	T	T	55872941	2	4	4	1	0	0	0	0	0	0	0	1	11257	747	26	2		2	OR8H2	11	55872941	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	137160	55872941	79133575	2557	4523											
OR8H3	390152	broad.mit.edu	37	chr11	55889929	55889929	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaagaggtccagatggcTctgtttatgctatttctcct	7	16	9	9	0	3	3	0	1	3	2	5	3	4	3	2	2	1	3	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55889929T>C	uc001nii.1	+	1	81	c.81T>C	c.(79-81)GCT>GCC	p.A27A		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	27	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					TCCAGATGGCTCTGTTTATGC	0.468													35	138					0	0	0.004289	0	0		C	55889929	C	C	55889929	2	2	4	1	0	0	0	0	0	0	0	1	11258	1538	54	3		3	OR8H3	11	55889929	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	16988	55889929	79116587	2558	4524											
OR8K1	390157	broad.mit.edu	37	chr11	56114241	56114241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaaagggaggtacaaaGccttctccacctgtagctct	12	8	10	11	0	2	0	0	0	2	0	3	2	2	2	3	3	3	3	3	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:56114241G>A	uc010rjg.1	+	1	727	c.727G>A	c.(727-729)GCC>ACC	p.A243T		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	243	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					GAGGTACAAAGCCTTCTCCAC	0.413										HNSCC(65;0.19)			10	39					0	0	0.006214	0	0		A	56114241	A	A	56114241	3	1	4	1	0	0	0	0	1	0	0	0	11262	971	34	2	729	2	OR8K1	11	56114241	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	224312	56114241	78892275	2559	4525											
OR5M8	219484	broad.mit.edu	37	chr11	56258342	56258342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgattaatttcattggggcCacagaaggctaggttgtagg	10	12	14	5	0	1	2	1	1	0	1	1	2	1	2	1	5	0	3	1	5	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:56258342C>T	uc001nix.1	-	1	505	c.505G>A	c.(505-507)GGC>AGC	p.G169S		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					TCATTGGGGCCACAGAAGGCT	0.498													27	64					0	0	0.004656	0	0		T	56258342	T	T	56258342	3	4	4	1	0	0	0	0	1	0	0	0	11195	594	21	4	434	4	OR5M8	11	56258342	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	144101	56258342	78748174	2560	4526											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57076125	57076125	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acttggagccccaaagagctCcacattctggggcgccaagt	10	7	11	13	1	1	1	0	0	1	1	2	2	2	2	4	3	2	1	4	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:57076125C>A	uc001njr.2	-	5	4372	c.4060G>T	c.(4060-4062)GAG>TAG	p.E1354*	TNKS1BP1_uc001njs.2_Nonsense_Mutation_p.E1354*|TNKS1BP1_uc009ymd.1_Nonsense_Mutation_p.E805*	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	1354	Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				CCAAAGAGCTCCACATTCTGG	0.647													30	73					9.65021e-13	1.04617e-12	0.002096	1	0		A	57076125	A	A	57076125	4	1	4	1	0	0	0	0	0	1	0	0	16345	864	30	5	1153	5	TNKS1BP1	11	57076125	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	817783	57076125	77930391	2561	4527											
CLP1	10978	broad.mit.edu	37	chr11	57428850	57428850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctgtctccagcccctcGcccactgcctaagaacttcc	6	11	6	18	1	2	1	0	0	2	1	5	1	3	1	6	0	3	1	6	0	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:57428850G>A	uc001nkw.2	+	3	1359	c.1220G>A	c.(1219-1221)CGC>CAC	p.R407H	CLP1_uc010rjw.1_Missense_Mutation_p.R343H|CLP1_uc009yml.2_Missense_Mutation_p.R407H	NM_006831	NP_006822	Q92989	CLP1_HUMAN	ATP/GTP-binding protein isoform 1	407					mRNA 3'-end processing|nuclear mRNA splicing, via spliceosome|siRNA loading onto RISC involved in RNA interference|targeting of mRNA for destruction involved in RNA interference|termination of RNA polymerase II transcription|tRNA splicing, via endonucleolytic cleavage and ligation	nucleoplasm|tRNA-intron endonuclease complex	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity			ovary(1)	1						CCAGCCCCTCGCCCACTGCCT	0.517													6	60					0	0	0.001168	0	0		A	57428850	A	A	57428850	3	1	4	1	0	0	0	0	1	0	0	0	3553	1087	38	1	1226	1	CLP1	11	57428850	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	352725	57428850	77577666	2562	4528											
OR10V1	390201	broad.mit.edu	37	chr11	59480487	59480487	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggagtgataaatgtgtaggCcacagataccacccggccca	12	6	12	11	1	0	2	0	1	0	1	0	3	0	3	4	3	1	1	4	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:59480487C>T	uc001nof.1	-	1	832	c.832G>A	c.(832-834)GCC>ACC	p.A278T		NM_001005324	NP_001005324	Q8NGI7	O10V1_HUMAN	olfactory receptor, family 10, subfamily V,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AATGTGTAGGCCACAGATACC	0.458													26	65					0	0	0.00632	0	0		T	59480487	T	T	59480487	3	4	4	1	0	0	0	0	1	0	0	0	10939	739	26	2	101	2	OR10V1	11	59480487	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2051637	59480487	75526029	2563	4529											
GIF	2694	broad.mit.edu	37	chr11	59611434	59611434	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccggccagattcatggcaatCaggatgctggggtttgggta	8	10	15	8	1	2	1	2	0	0	1	2	2	2	2	2	6	1	4	2	6	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:59611434C>T	uc001noi.2	-	2	222	c.174G>A	c.(172-174)CTG>CTA	p.L58L	GIF_uc010rkz.1_Silent_p.L58L	NM_005142	NP_005133	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	58					cobalamin metabolic process|cobalamin transport|cobalt ion transport	apical plasma membrane|endosome|extracellular space|microvillus	cobalamin binding			ovary(1)|liver(1)	2						TCATGGCAATCAGGATGCTGG	0.542													8	44					0	0	0.00308	0	0		T	59611434	T	T	59611434	2	4	4	1	0	0	0	0	0	0	0	1	6391	813	29	4		4	GIF	11	59611434	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	130947	59611434	75395082	2564	4530											
MS4A4A	51338	broad.mit.edu	37	chr11	60070111	60070111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaacacatttagcttggCgttttattcattccatcacc	11	15	4	11	1	3	0	3	0	0	0	4	0	4	0	2	1	2	2	2	1	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:60070111C>T	uc001noz.2	+	5	477	c.467C>T	c.(466-468)GCG>GTG	p.A156V	MS4A4A_uc001npa.2_Missense_Mutation_p.A137V|MS4A4A_uc001npb.2_Missense_Mutation_p.A137V|MS4A4A_uc001npc.2_Intron	NM_148975	NP_683876	Q96JQ5	M4A4A_HUMAN	membrane-spanning 4-domains, subfamily A, member	156	Helical; (Potential).					integral to membrane	receptor activity				0						TTTAGCTTGGCGTTTTATTCA	0.403													15	49					0	0	0.004007	0	0		T	60070111	T	T	60070111	3	4	4	1	0	0	0	0	1	0	0	0	9880	768	27	1	485	1	MS4A4A	11	60070111	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	458677	60070111	74936405	2565	4531											
MS4A8B	83661	broad.mit.edu	37	chr11	60470903	60470903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcctcggctccatcatggCgacggttctcgtaggggaat	6	9	14	12	5	2	0	1	0	1	0	5	2	3	1	2	6	0	3	2	6	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:60470903C>T	uc001npv.2	+	3	475	c.272C>T	c.(271-273)GCG>GTG	p.A91V	MS4A8B_uc009yne.1_Missense_Mutation_p.A91V	NM_031457	NP_113645	Q9BY19	M4A8B_HUMAN	membrane-spanning 4-domains, subfamily A, member	91	Helical; (Potential).					integral to membrane	receptor activity				0						TCCATCATGGCGACGGTTCTC	0.552													17	43					0	0	0.00499	0	0		T	60470903	T	T	60470903	3	4	4	1	0	0	0	0	1	0	0	0	9885	768	27	1	278	1	MS4A8B	11	60470903	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	400792	60470903	74535613	2566	4532											
PRPF19	27339	broad.mit.edu	37	chr11	60666093	60666093	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtggaactgtgcacaggTgagagctgtggaggagggaa	11	6	20	4	0	0	1	0	1	0	1	0	6	0	5	0	6	3	2	0	6	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:60666093T>C	uc001nqf.2	-	13	1267	c.1060A>G	c.(1060-1062)ACC>GCC	p.T354A		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	354	WD 4.				DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						TGTGCACAGGTGAGAGCTGTG	0.488													12	42					0	0	0.00245	0	0		C	60666093	C	C	60666093	3	2	4	1	0	0	0	0	1	0	0	0	12586	1696	59	3	470	3	PRPF19	11	60666093	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	195190	60666093	74340423	2567	4533											
PRPF19	27339	broad.mit.edu	37	chr11	60670217	60670217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggagaggctgcaccttctCgggcagcagtgacttccttg	6	9	15	11	1	1	2	0	1	1	1	3	3	2	2	2	4	2	4	2	4	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:60670217C>T	uc001nqf.2	-	4	590	c.383G>A	c.(382-384)CGA>CAA	p.R128Q		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	128					DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						TGCACCTTCTCGGGCAGCAGT	0.582													5	8					0	0	0.001984	0	0		T	60670217	T	T	60670217	3	4	4	1	0	0	0	0	1	0	0	0	12586	884	31	1	1183	1	PRPF19	11	60670217	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4124	60670217	74336299	2568	4534											
CD6	923	broad.mit.edu	37	chr11	60785861	60785861	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaggagcagtttggctgTccaggtgccaatatctgggg	7	10	16	8	1	1	0	0	0	1	0	3	2	2	2	2	6	2	3	2	6	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:60785861T>C	uc001nqq.2	+	12	2161	c.1938T>C	c.(1936-1938)TGT>TGC	p.C646C	CD6_uc001nqr.2_Intron|CD6_uc001nqs.2_Intron|CD6_uc001nqt.2_Intron	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule precursor	646	Cytoplasmic (Potential).				cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1						AGTTTGGCTGTCCAGGTGCCA	0.602													3	6					0	0	0.009096	0	0		C	60785861	C	C	60785861	2	2	4	1	0	0	0	0	0	0	0	1	3031	1673	58	3		3	CD6	11	60785861	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	115644	60785861	74220655	2569	4535											
CD5	921	broad.mit.edu	37	chr11	60889151	60889151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaaggcaccgtggaggtgCgccagggggctcagtgggca	7	5	20	9	2	1	1	1	1	0	0	1	2	1	2	2	6	1	3	2	6	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:60889151C>T	uc009ynk.2	+	6	977	c.874C>T	c.(874-876)CGC>TGC	p.R292C		NM_014207	NP_055022	P06127	CD5_HUMAN	CD5 molecule precursor	292	Extracellular (Potential).|SRCR 3.				cell proliferation|cell recognition	integral to plasma membrane	scavenger receptor activity			ovary(1)	1		all_lung(304;5.94e-05)|Lung NSC(402;7.26e-05)		BRCA - Breast invasive adenocarcinoma(625;0.000946)|Lung(977;0.0086)|LUSC - Lung squamous cell carcinoma(625;0.0528)		CGTGGAGGTGCGCCAGGGGGC	0.657													4	10					0	0	0.000602	0	0		T	60889151	T	T	60889151	3	4	4	1	0	0	0	0	1	0	0	0	3024	768	27	1	896	1	CD5	11	60889151	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	103290	60889151	74117365	2570	4536											
TMEM216	51259	broad.mit.edu	37	chr11	61165323	61165323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttcccatctgccatgatgGcctcctattacctgctgctg	5	13	7	16	0	1	1	0	1	1	0	3	1	3	1	6	1	4	2	6	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:61165323G>A	uc010rlj.1	+	4	579	c.286G>A	c.(286-288)GCC>ACC	p.A96T	TMEM216_uc001nrn.1_Missense_Mutation_p.A42T	NM_016499	NP_057583	Q9P0N5	TM216_HUMAN	transmembrane protein 216	96	Helical; (Potential).					integral to membrane					0						TGCCATGATGGCCTCCTATTA	0.527													8	103					0	0	0.00308	0	0		A	61165323	A	A	61165323	3	1	4	1	0	0	0	0	1	0	0	0	16164	1203	42	2	321	2	TMEM216	11	61165323	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	276172	61165323	73841193	2571	4537											
SYT7	9066	broad.mit.edu	37	chr11	61290689	61290689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcctcttcatcgtcaccGtcttcttcttctccacccgc	3	15	5	18	3	7	0	2	0	5	0	10	0	8	0	4	1	0	1	4	1	0	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:61290689G>A	uc001nrv.2	-	8	971	c.965C>T	c.(964-966)ACG>ATG	p.T322M	SYT7_uc009ynr.2_Missense_Mutation_p.T397M	NM_004200	NP_004191	O43581	SYT7_HUMAN	synaptotagmin VII	322	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|pancreas(1)	4						CATCGTCACCGTCTTCTTCTT	0.557													25	57					0	0	0.004656	0	0		A	61290689	A	A	61290689	3	1	4	1	0	0	0	0	1	0	0	0	15504	1145	40	1	254	1	SYT7	11	61290689	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	125366	61290689	73715827	2572	4538											
DAGLA	747	broad.mit.edu	37	chr11	61488161	61488161	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgacaggtttgtgatcCtgtccgtggtgctcttcggc	3	14	13	11	2	1	2	0	2	1	0	4	2	3	2	3	3	1	2	3	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:61488161C>T	uc001nsa.2	+	3	217	c.106C>T	c.(106-108)CTG>TTG	p.L36L		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	36	Helical; (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		GTTTGTGATCCTGTCCGTGGT	0.637													11	23					0	0	0.001368	0	0		T	61488161	T	T	61488161	2	4	4	1	0	0	0	0	0	0	0	1	4229	680	24	4		4	DAGLA	11	61488161	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	197472	61488161	73518355	2573	4539											
FADS1	3992	broad.mit.edu	37	chr11	61572224	61572224	+	Frame_Shift_Del	DEL	G	-	-																															agtagagaggcagcaaggctGggggcccaactggggaggaa																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:61572224delG	uc010rlm.1	-	7	1114	c.986delC	c.(985-987)CCAfs	p.P329fs	FADS1_uc001nsh.2_Frame_Shift_Del_p.P188fs|FADS1_uc010rln.1_Frame_Shift_Del_p.P188fs	NM_013402	NP_037534	O60427	FADS1_HUMAN	fatty acid desaturase 1	272	Helical; (Potential).				cell-cell signaling|cellular response to starvation|electron transport chain|icosanoid biosynthetic process|phospholipid biosynthetic process|regulation of cell differentiation|regulation of transcription, DNA-dependent|transport	endoplasmic reticulum membrane|integral to membrane|microsome	C-5 sterol desaturase activity|heme binding|protein binding			central_nervous_system(1)	1					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CAGCAAGGCTGGGGGCCCAAC	0.527													16	34	---	---	---	---						.	-	61572224	-	-	61572224	7	5	4	1	0	1	0	1	0	0	0	0	5376	1348	47	0	543	0	FADS1	11	61572224	Frame_Shift_Del	DEL	G	TCGA-BR-4184-01A-01D-1126-08	84063	61572224	73434292	2574	4540											
FADS1	3992	broad.mit.edu	37	chr11	61580742	61580742	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgggctcaaagctgggctgCtctggagacagttctccaat	8	10	13	10	0	3	1	1	0	2	1	4	2	3	1	1	3	2	5	1	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:61580742C>G	uc010rlm.1	-	2	587	c.459G>C	c.(457-459)GAG>GAC	p.E153D	FADS2_uc001nsj.2_5'Flank|FADS1_uc001nsh.2_Missense_Mutation_p.E12D|FADS1_uc010rln.1_Missense_Mutation_p.E12D	NM_013402	NP_037534	O60427	FADS1_HUMAN	fatty acid desaturase 1	96	Cytoplasmic (Potential).				cell-cell signaling|cellular response to starvation|electron transport chain|icosanoid biosynthetic process|phospholipid biosynthetic process|regulation of cell differentiation|regulation of transcription, DNA-dependent|transport	endoplasmic reticulum membrane|integral to membrane|microsome	C-5 sterol desaturase activity|heme binding|protein binding			central_nervous_system(1)	1					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	AGCTGGGCTGCTCTGGAGACA	0.517													6	185					0	0	0.00308	0	0		G	61580742	G	G	61580742	3	3	4	1	0	0	0	0	1	0	0	0	5376	796	28	5	1090	5	FADS1	11	61580742	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	8518	61580742	73425774	2575	4541											
FADS2	9415	broad.mit.edu	37	chr11	61615676	61615676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgccacttccagcaccacGccaagcctaacatcttccac	11	7	4	19	2	1	0	0	0	1	0	4	0	3	0	6	0	3	1	6	0	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:61615676G>A	uc001nsl.1	+	5	814	c.664G>A	c.(664-666)GCC>ACC	p.A222T	FADS2_uc001nsj.2_Missense_Mutation_p.A200T|FADS2_uc010rlo.1_Missense_Mutation_p.A191T|FADS2_uc001nsk.2_Missense_Mutation_p.A222T	NM_004265	NP_004256	O95864	FADS2_HUMAN	fatty acid desaturase 2	222	Cytoplasmic (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	heme binding			ovary(1)|pancreas(1)	2					Alpha-Linolenic Acid(DB00132)	CCAGCACCACGCCAAGCCTAA	0.582													17	63					0	0	0.00499	0	0		A	61615676	A	A	61615676	3	1	4	1	0	0	0	0	1	0	0	0	5377	1087	38	1	682	1	FADS2	11	61615676	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	34934	61615676	73390840	2576	4542											
AHNAK	79026	broad.mit.edu	37	chr11	62288822	62288822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttcgatactgacatcagggGcatcaatgtccactttgggg	9	11	11	10	1	2	1	2	1	0	0	4	2	3	1	1	4	1	1	1	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62288822G>A	uc001ntl.2	-	5	13367	c.13067C>T	c.(13066-13068)GCC>GTC	p.A4356V	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4356					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GACATCAGGGGCATCAATGTC	0.488													13	135					0	0	0.001368	0	0		A	62288822	A	A	62288822	3	1	4	1	0	0	0	0	1	0	0	0	414	1203	42	2	4725	2	AHNAK	11	62288822	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	673146	62288822	72717694	2577	4543											
AHNAK	79026	broad.mit.edu	37	chr11	62293096	62293096	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaacatcagggccttcaacGtccactttggggcctgagac	9	10	10	12	1	2	1	2	1	0	1	3	2	3	1	3	3	2	0	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62293096G>A	uc001ntl.2	-	5	9093	c.8793C>T	c.(8791-8793)GAC>GAT	p.D2931D	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2931					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GGCCTTCAACGTCCACTTTGG	0.517													9	198					0	0	0.006214	0	0		A	62293096	A	A	62293096	2	1	4	1	0	0	0	0	0	0	0	1	414	1136	40	1		1	AHNAK	11	62293096	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4274	62293096	72713420	2578	4544											
AHNAK	79026	broad.mit.edu	37	chr11	62294104	62294104	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagagaaacatccacatcGcccttcaccttgggaccttt	10	9	8	14	1	1	1	1	0	0	1	3	3	2	2	4	2	1	1	4	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62294104G>A	uc001ntl.2	-	5	8085	c.7785C>T	c.(7783-7785)GGC>GGT	p.G2595G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2595					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CATCCACATCGCCCTTCACCT	0.502													9	220					0	0	0.008291	0	0		A	62294104	A	A	62294104	2	1	4	1	0	0	0	0	0	0	0	1	414	1074	38	1		1	AHNAK	11	62294104	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1008	62294104	72712412	2579	4545											
AHNAK	79026	broad.mit.edu	37	chr11	62298466	62298466	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatccacttctgggccctcGcctttgaggctgggcatgct	5	11	11	14	1	1	1	0	1	1	0	3	1	2	1	3	3	1	3	3	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62298466G>A	uc001ntl.2	-	5	3723	c.3423C>T	c.(3421-3423)GGC>GGT	p.G1141G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1141					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CTGGGCCCTCGCCTTTGAGGC	0.532													32	95					0	0	0.003755	0	0		A	62298466	A	A	62298466	2	1	4	1	0	0	0	0	0	0	0	1	414	1074	38	1		1	AHNAK	11	62298466	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4362	62298466	72708050	2580	4546											
EEF1G	1937	broad.mit.edu	37	chr11	62338497	62338497	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccaatgtcactcgttcGcccaccagaaaagtcctcgt	10	9	7	15	3	2	1	2	0	0	1	6	1	3	1	4	0	1	1	4	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62338497G>A	uc001ntm.1	-	5	608	c.462C>T	c.(460-462)GGC>GGT	p.G154G	EEF1G_uc010rlw.1_Silent_p.G204G|EEF1G_uc001ntn.1_Silent_p.G34G	NM_001404	NP_001395	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1	154	GST C-terminal.				response to virus	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						TCACTCGTTCGCCCACCAGAA	0.488													25	63					0	0	0.004878	0	0		A	62338497	A	A	62338497	2	1	4	1	0	0	0	0	0	0	0	1	4934	1074	38	1		1	EEF1G	11	62338497	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	40031	62338497	72668019	2581	4547											
GANAB	23193	broad.mit.edu	37	chr11	62400959	62400959	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcaggctgggccccatcGccctcagctgggtcttttga	4	11	11	15	1	3	1	2	1	1	0	5	1	4	1	4	3	1	2	4	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62400959G>A	uc001nub.2	-	6	621	c.588C>T	c.(586-588)GGC>GGT	p.G196G	GANAB_uc001nua.2_Silent_p.G218G|GANAB_uc001nuc.2_Silent_p.G99G|GANAB_uc010rma.1_Silent_p.G104G|GANAB_uc010rmb.1_Silent_p.G82G	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2	196					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5						GGGCCCCATCGCCCTCAGCTG	0.637													10	33					0	0	0.003163	0	0		A	62400959	A	A	62400959	2	1	4	1	0	0	0	0	0	0	0	1	6248	1074	38	1		1	GANAB	11	62400959	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	62462	62400959	72605557	2582	4548											
HNRNPUL2	221092	broad.mit.edu	37	chr11	62483025	62483025	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgttgtactcataatctcGcccgtaaaatcgatcatagt	11	14	6	10	3	4	0	2	0	2	0	6	1	4	0	1	0	1	3	1	0	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62483025G>A	uc001nuw.2	-	13	2303	c.2110C>T	c.(2110-2112)CGA>TGA	p.R704*	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	704	Tyr-rich.				cell killing	nucleus	ATP binding|nucleic acid binding				0						TCATAATCTCGCCCGTAAAAT	0.433													5	89					0	0	0.001984	0	0		A	62483025	A	A	62483025	4	1	4	1	0	0	0	0	0	1	0	0	7291	1095	38	1	141	1	HNRNPUL2	11	62483025	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	82066	62483025	72523491	2583	4549											
WDR74	54663	broad.mit.edu	37	chr11	62601368	62601368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggtggcactgcaacccacGcacactgcctgccagcccct	8	5	10	18	1	0	0	0	0	0	0	0	0	0	0	5	2	5	3	5	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62601368G>A	uc001nvm.1	-	10	985	c.817C>T	c.(817-819)CGT>TGT	p.R273C	STX5_uc001nvh.2_5'Flank|STX5_uc010rmi.1_5'Flank|STX5_uc009yoh.2_5'Flank|STX5_uc001nvi.2_5'Flank|STX5_uc010rmj.1_5'Flank|STX5_uc001nvj.2_5'Flank|WDR74_uc001nvk.1_Missense_Mutation_p.R216C|WDR74_uc001nvl.1_Missense_Mutation_p.R273C|WDR74_uc001nvn.1_Missense_Mutation_p.R325C|WDR74_uc009yoi.1_Missense_Mutation_p.R273C	NM_018093	NP_060563	Q6RFH5	WDR74_HUMAN	WD repeat domain 74	273	WD 6.					nucleolus				ovary(1)	1						TGCAACCCACGCACACTGCCT	0.562													15	36					0	0	0.004007	0	0		A	62601368	A	A	62601368	3	1	4	1	0	0	0	0	1	0	0	0	17350	1087	38	1	352	1	WDR74	11	62601368	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	118343	62601368	72405148	2584	4550											
SLC22A8	9376	broad.mit.edu	37	chr11	62766535	62766535	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgtcgacatgatggcccGcatccgggtaggcacccatt	7	9	12	13	3	0	1	0	1	0	0	2	2	1	1	3	3	1	4	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62766535G>A	uc001nwo.2	-	5	755	c.619C>T	c.(619-621)CGG>TGG	p.R207W	SLC22A8_uc001nwn.1_5'UTR|SLC22A8_uc001nwp.2_Missense_Mutation_p.R207W|SLC22A8_uc009yom.2_Missense_Mutation_p.R84W|SLC22A8_uc010rmm.1_Missense_Mutation_p.R116W|SLC22A8_uc009yon.2_Missense_Mutation_p.R207W	NM_004254	NP_004245	Q8TCC7	S22A8_HUMAN	solute carrier family 22 member 8	207	Cytoplasmic (Potential).				response to toxin	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|organic anion transmembrane transporter activity			skin(2)|ovary(1)	3						ATGATGGCCCGCATCCGGGTA	0.612													4	39					0	0	0.000602	0	0		A	62766535	A	A	62766535	3	1	4	1	0	0	0	0	1	0	0	0	14485	1086	38	1	1037	1	SLC22A8	11	62766535	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	165167	62766535	72239981	2585	4551											
SLC22A10	387775	broad.mit.edu	37	chr11	63057764	63057764	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctagagaactttgctgcaGccattcctggtcatcgttgc	7	13	10	11	1	1	1	1	0	0	1	3	2	2	1	2	1	6	4	2	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:63057764G>T	uc009yor.2	+	1	335	c.127G>T	c.(127-129)GCC>TCC	p.A43S	SLC22A10_uc010rmo.1_Intron|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_5'UTR	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	43	Extracellular (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						CTTTGCTGCAGCCATTCCTGG	0.443													15	49					3.45872e-05	3.64439e-05	0.004007	1	0		T	63057764	T	T	63057764	3	4	4	1	0	0	0	0	1	0	0	0	14466	971	34	5	129	5	SLC22A10	11	63057764	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	291229	63057764	71948752	2586	4552											
RCOR2	283248	broad.mit.edu	37	chr11	63682282	63682282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttatgccacagaagcatgcCcagcgcctggcccggggcaa	9	5	12	15	2	0	1	0	0	0	1	0	1	0	1	4	3	4	2	4	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:63682282C>T	uc001nyc.2	-	5	713	c.325G>A	c.(325-327)GGC>AGC	p.G109S		NM_173587	NP_775858	Q8IZ40	RCOR2_HUMAN	REST corepressor 2	109	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)|skin(1)	2						AGAAGCATGCCCAGCGCCTGG	0.637													29	72					0	0	0.003214	0	0		T	63682282	T	T	63682282	3	4	4	1	0	0	0	0	1	0	0	0	13208	623	22	4	1278	4	RCOR2	11	63682282	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	624518	63682282	71324234	2587	4553											
PLCB3	5331	broad.mit.edu	37	chr11	64023268	64023268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acaagctgtgtctgcggccgGacattgacaagatcctgctg	9	9	12	11	2	1	2	0	1	1	1	2	3	2	3	2	2	3	2	2	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:64023268G>A	uc001nzb.2	+	8	673	c.673G>A	c.(673-675)GAC>AAC	p.D225N	PLCB3_uc009ypg.1_Missense_Mutation_p.D225N|PLCB3_uc009yph.1_Missense_Mutation_p.D158N|PLCB3_uc009ypi.2_Missense_Mutation_p.D225N	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	225					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						TCTGCGGCCGGACATTGACAA	0.557													17	60					0	0	0.002299	0	0		A	64023268	A	A	64023268	3	1	4	1	0	0	0	0	1	0	0	0	12048	1174	41	4	703	4	PLCB3	11	64023268	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	340986	64023268	70983248	2588	4554											
NRXN2	9379	broad.mit.edu	37	chr11	64434955	64434955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccattgggctcggtggtgCggaagtctagggagatggag	7	8	19	7	2	1	1	0	0	1	1	2	4	1	3	1	6	1	1	1	6	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:64434955C>T	uc001oar.2	-	10	2004	c.1565G>A	c.(1564-1566)CGC>CAC	p.R522H	NRXN2_uc001oas.2_Missense_Mutation_p.R491H|NRXN2_uc001oaq.2_Missense_Mutation_p.R189H	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:Variant_position_missing_in_P58401_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CTCGGTGGTGCGGAAGTCTAG	0.677													7	21					0	0	0.004482	0	0		T	64434955	T	T	64434955	3	4	4	1	0	0	0	0	1	0	0	0	10685	768	27	1	3902	1	NRXN2	11	64434955	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	411687	64434955	70571561	2589	4555											
PYGM	5837	broad.mit.edu	37	chr11	64522963	64522963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccttggcagaccagaggCgcatggtgttgacaacattg	10	8	14	9	1	0	3	0	1	0	2	0	4	0	3	2	3	2	3	2	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:64522963C>T	uc001oax.3	-	6	1545	c.728G>A	c.(727-729)CGC>CAC	p.R243H	PYGM_uc001oay.3_Missense_Mutation_p.R155H	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	243					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	AGACCAGAGGCGCATGGTGTT	0.617													12	46					0	0	0.001368	0	0		T	64522963	T	T	64522963	3	4	4	1	0	0	0	0	1	0	0	0	12887	768	27	1	1860	1	PYGM	11	64522963	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	88008	64522963	70483553	2590	4556											
SNX15	29907	broad.mit.edu	37	chr11	64802341	64802341	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtttgaagcctcagtgatCgaggagcggcgaaagggggc	9	6	18	8	4	1	2	1	2	0	0	2	5	1	3	1	5	2	1	1	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:64802341C>T	uc001oci.3	+	7	932	c.279C>T	c.(277-279)ATC>ATT	p.I93I	SNX15_uc009ypy.2_Silent_p.I93I|SNX15_uc001ocj.2_Silent_p.I93I|SNX15_uc001ock.2_Silent_p.I93I	NM_013306	NP_037438	Q9NRS6	SNX15_HUMAN	sorting nexin 15 isoform A	93	PX.				cell communication|intracellular protein transport	cytoplasmic vesicle membrane|cytosol	phosphatidylinositol binding|protein transporter activity			ovary(1)	1						CCTCAGTGATCGAGGAGCGGC	0.617													8	35					0	0	0.000978	0	0		T	64802341	T	T	64802341	2	4	4	1	0	0	0	0	0	0	0	1	14911	874	31	1		1	SNX15	11	64802341	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	279378	64802341	70204175	2591	4557											
C11orf2	738	broad.mit.edu	37	chr11	64876893	64876893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgctcctgctgctctccCgcctctgcctggactacgag	3	10	9	19	2	2	0	0	0	2	0	4	2	3	1	5	1	5	3	5	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:64876893C>T	uc001ocr.1	+	6	1625	c.1585C>T	c.(1585-1587)CGC>TGC	p.R529C	TM7SF2_uc001oct.2_5'Flank|TM7SF2_uc010rny.1_5'Flank|TM7SF2_uc001ocu.2_5'Flank|TM7SF2_uc001ocv.2_5'Flank|C11orf2_uc001ocs.1_Missense_Mutation_p.R405C	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	529					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						GCTGCTCTCCCGCCTCTGCCT	0.617													15	18					0	0	0.010504	0	0		T	64876893	T	T	64876893	3	4	4	1	0	0	0	0	1	0	0	0	1636	652	23	1	1607	1	C11orf2	11	64876893	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	74552	64876893	70129623	2592	4558											
LTBP3	4054	broad.mit.edu	37	chr11	65325188	65325188	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagccctgctgacaactgtcCcgacactggcccttgagaca	9	7	10	15	1	0	2	0	2	0	1	1	5	1	2	3	1	3	1	3	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:65325188C>T	uc001oej.2	-	1	512	c.243G>A	c.(241-243)CGG>CGA	p.R81R	LTBP3_uc010roi.1_5'UTR|LTBP3_uc001oei.2_Silent_p.R81R|LTBP3_uc010roj.1_Silent_p.R67R|LTBP3_uc010rok.1_Intron	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	81	Gly-rich.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						GACAACTGTCCCGACACTGGC	0.582													5	18					0	0	0.001168	0	0		T	65325188	T	T	65325188	2	4	4	1	0	0	0	0	0	0	0	1	9093	610	22	4		4	LTBP3	11	65325188	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	448295	65325188	69681328	2593	4559											
KAT5	10524	broad.mit.edu	37	chr11	65486194	65486194	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggggctgaagtcggagagCggggagaggccacagatcac	11	4	18	8	2	1	4	1	1	0	3	2	6	1	4	1	6	1	1	1	6	1	0	rs114460328	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:65486194C>T	uc001ofi.2	+	12	1549	c.1299C>T	c.(1297-1299)AGC>AGT	p.S433S	KAT5_uc001ofj.2_Silent_p.S381S|KAT5_uc001ofk.2_Silent_p.S466S|KAT5_uc010roo.1_Silent_p.S414S|KAT5_uc001ofl.2_Silent_p.S222S|RNASEH2C_uc001ofm.2_RNA|RNASEH2C_uc001ofn.2_3'UTR	NM_006388	NP_006379	Q92993	KAT5_HUMAN	K(lysine) acetyltransferase 5 isoform 2	433					androgen receptor signaling pathway|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|double-strand break repair|interspecies interaction between organisms|negative regulation of interleukin-2 production|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nucleolus|perinuclear region of cytoplasm|Piccolo NuA4 histone acetyltransferase complex	androgen receptor binding|histone acetyltransferase activity|metal ion binding|repressing transcription factor binding|transcription coactivator activity				0						AGTCGGAGAGCGGGGAGAGGC	0.597													7	72					0	0	0.00308	0	0		T	65486194	T	T	65486194	2	4	4	1	0	0	0	0	0	0	0	1	7999	767	27	1		1	KAT5	11	65486194	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	161006	65486194	69520322	2594	4560											
MUS81	80198	broad.mit.edu	37	chr11	65633355	65633355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcaccattaagtgtgggCgtctacagaggtgagggcaa	11	8	15	7	1	1	3	0	2	1	1	1	3	1	3	1	3	2	2	1	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:65633355C>T	uc001ofv.3	+	15	1932	c.1579C>T	c.(1579-1581)CGT>TGT	p.R527C	MUS81_uc001ofw.3_RNA|MUS81_uc001ofx.3_Missense_Mutation_p.R84C	NM_025128	NP_079404	Q96NY9	MUS81_HUMAN	MUS81 endonuclease homolog	527					DNA recombination|DNA repair	nucleolus	3'-flap endonuclease activity|DNA binding|metal ion binding|protein binding				0				READ - Rectum adenocarcinoma(159;0.166)		TAAGTGTGGGCGTCTACAGAG	0.627								Homologous_recombination					7	56					0	0	0.000978	0	0		T	65633355	T	T	65633355	3	4	4	1	0	0	0	0	1	0	0	0	10006	768	27	1	1637	1	MUS81	11	65633355	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	147161	65633355	69373161	2595	4561											
SART1	9092	broad.mit.edu	37	chr11	65743960	65743960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatcgtgttcaacgccaCgtccgagttctgccgcacct	6	9	10	16	5	2	0	1	0	1	0	4	1	3	0	5	1	2	3	5	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:65743960C>T	uc001ogl.2	+	13	1759	c.1667C>T	c.(1666-1668)ACG>ATG	p.T556M		NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	556					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1						TTCAACGCCACGTCCGAGTTC	0.672													4	14					0	0	0.000602	0	0		T	65743960	T	T	65743960	3	4	4	1	0	0	0	0	1	0	0	0	13871	536	19	1	1717	1	SART1	11	65743960	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	110605	65743960	69262556	2596	4562											
KLC2	64837	broad.mit.edu	37	chr11	66033585	66033585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcagtggctccttgaggCgcagcggttcctttgggaaa	7	10	15	9	2	0	1	0	1	0	0	2	2	2	2	2	5	1	4	2	5	1	3	rs139049979	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66033585C>T	uc010rov.1	+	14	1867	c.1624C>T	c.(1624-1626)CGC>TGC	p.R542C	KLC2_uc010row.1_Missense_Mutation_p.R542C|KLC2_uc009yra.2_Intron|KLC2_uc001ohb.2_Missense_Mutation_p.R542C|KLC2_uc010rox.1_Missense_Mutation_p.R465C|KLC2_uc001ohc.2_Missense_Mutation_p.R542C|KLC2_uc001ohd.2_Missense_Mutation_p.R465C|KLC2_uc001ohe.1_Missense_Mutation_p.R403C|RAB1B_uc001ohf.2_5'Flank	NM_001134775	NP_001128247	Q9H0B6	KLC2_HUMAN	kinesin light chain 2 isoform 1	542					blood coagulation	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0						CTCCTTGAGGCGCAGCGGTTC	0.682													4	14					0	0	0.009096	0	0		T	66033585	T	T	66033585	3	4	4	1	0	0	0	0	1	0	0	0	8350	768	27	1	1674	1	KLC2	11	66033585	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	289625	66033585	68972931	2597	4563											
TMEM151A	256472	broad.mit.edu	37	chr11	66061810	66061810	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcggcccctgaaacaGtccctgggaagctccctgtg	8	6	12	15	1	0	1	0	1	0	0	2	2	2	2	4	2	4	2	4	2	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66061810G>A	uc001ohl.2	+	2	205	c.93G>A	c.(91-93)CAG>CAA	p.Q31Q		NM_153266	NP_694998	Q8N4L1	T151A_HUMAN	transmembrane protein 151A	31						integral to membrane				central_nervous_system(1)	1						CCCTGAAACAGTCCCTGGGAA	0.612													13	28					0	0	0.001855	0	0		A	66061810	A	A	66061810	2	1	4	1	0	0	0	0	0	0	0	1	16095	1020	36	4		4	TMEM151A	11	66061810	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	28225	66061810	68944706	2598	4564											
TMEM151A	256472	broad.mit.edu	37	chr11	66061905	66061905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgtggtggcctggtgtcGcctggccacagtgccgcggc	2	7	18	14	4	0	0	0	0	0	0	1	0	0	0	5	6	1	0	5	6	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66061905G>A	uc001ohl.2	+	2	300	c.188G>A	c.(187-189)CGC>CAC	p.R63H		NM_153266	NP_694998	Q8N4L1	T151A_HUMAN	transmembrane protein 151A	63	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						GCCTGGTGTCGCCTGGCCACA	0.736													4	6					0	0	0.009096	0	0		A	66061905	A	A	66061905	3	1	4	1	0	0	0	0	1	0	0	0	16095	1087	38	1	194	1	TMEM151A	11	66061905	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	95	66061905	68944611	2599	4565											
CD248	57124	broad.mit.edu	37	chr11	66083274	66083274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggaagctcggtctataggCcagggcaaagtcaggcggct	9	7	16	9	2	2	0	1	0	1	0	3	1	2	1	1	6	1	3	1	6	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66083274C>T	uc001ohm.1	-	1	1242	c.1225G>A	c.(1225-1227)GCC>ACC	p.A409T		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	409	Pro-rich.|Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	GGTCTATAGGCCAGGGCAAAG	0.642													4	50					0	0	0.000602	0	0		T	66083274	T	T	66083274	3	4	4	1	0	0	0	0	1	0	0	0	2992	739	26	2	1052	2	CD248	11	66083274	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	21369	66083274	68923242	2600	4566											
PELI3	246330	broad.mit.edu	37	chr11	66235677	66235677	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgggggaacaagggctcttgCgttctctcctctcccggtga	5	10	13	13	3	3	1	0	1	3	0	6	2	4	2	2	4	2	2	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66235677C>T	uc001oic.3	+	2	242	c.78C>T	c.(76-78)TGC>TGT	p.C26C	PELI3_uc001oib.2_Silent_p.C26C|PELI3_uc001oid.3_Silent_p.C26C|PELI3_uc001oie.3_5'UTR	NM_145065	NP_659502	Q8N2H9	PELI3_HUMAN	pellino 3 alpha isoform 1	26						cytosol	protein binding			ovary(1)	1						AGGGCTCTTGCGTTCTCTCCT	0.602													10	26					0	0	0.001368	0	0		T	66235677	T	T	66235677	2	4	4	1	0	0	0	0	0	0	0	1	11742	776	27	1		1	PELI3	11	66235677	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	152403	66235677	68770839	2601	4567											
ACTN3	89	broad.mit.edu	37	chr11	66330622	66330622	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggctggagccctggactaCgtggccttctccagtgccct	4	9	12	16	2	1	0	0	0	1	0	2	2	1	2	5	4	3	1	5	4	1	2	rs79516407	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66330622C>T	uc001oio.1	+	22	2682	c.2664C>T	c.(2662-2664)TAC>TAT	p.Y888Y	ACTN3_uc010rpi.1_RNA	NM_001104	NP_001095	Q08043	ACTN3_HUMAN	actinin, alpha 3	888					focal adhesion assembly|muscle filament sliding|regulation of apoptosis	actin filament|cytosol|focal adhesion|pseudopodium	actin binding|calcium ion binding|integrin binding|protein homodimerization activity|structural constituent of muscle				0						CCCTGGACTACGTGGCCTTCT	0.632													4	27					0	0	0.009096	0	0		T	66330622	T	T	66330622	2	4	4	1	0	0	0	0	0	0	0	1	206	547	19	1		1	ACTN3	11	66330622	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	94945	66330622	68675894	2602	4568											
RBM4	5936	broad.mit.edu	37	chr11	66411175	66411175	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgctcgatgcctactacAagcgctgccgtgctgcccgg	6	7	13	15	5	0	0	0	0	0	0	1	2	0	0	3	1	8	3	3	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66411175A>G	uc009yrj.2	+	3	1155	c.667A>G	c.(667-669)AAG>GAG	p.K223E	RBM4_uc009yrk.2_Missense_Mutation_p.K198E|RBM4_uc001oiw.1_Missense_Mutation_p.K223E|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Missense_Mutation_p.K223E|RBM4_uc001oiz.1_Missense_Mutation_p.K223E	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	223	Interaction with TNPO3.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		TGCCTACTACAAGCGCTGCCG	0.547													7	28					0	0	0.004482	0	0		G	66411175	G	G	66411175	3	3	4	1	0	0	0	0	1	0	0	0	13159	131	5	3	673	3	RBM4	11	66411175	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	80553	66411175	68595341	2603	4569											
SPTBN2	6712	broad.mit.edu	37	chr11	66456223	66456223	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctctcaacttcgtcgacCgtgcaacccagctcagcgct	8	8	9	16	4	2	0	2	0	1	0	5	1	2	0	2	1	5	4	2	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66456223C>T	uc001ojd.2	-	30	6204	c.6132G>A	c.(6130-6132)ACG>ACA	p.T2044T	SPTBN2_uc001ojc.1_5'Flank	NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	2044	Spectrin 17.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CTTCGTCGACCGTGCAACCCA	0.607													6	40					0	0	0.001984	0	0		T	66456223	T	T	66456223	2	4	4	1	0	0	0	0	0	0	0	1	15145	639	23	1		1	SPTBN2	11	66456223	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	45048	66456223	68550293	2604	4570											
SPTBN2	6712	broad.mit.edu	37	chr11	66461764	66461764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgcaccctggtcctcctggGccagtgctttggcctgggcc	2	10	13	16	0	0	0	0	0	0	0	2	0	2	0	6	4	2	2	6	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66461764G>A	uc001ojd.2	-	21	4421	c.4349C>T	c.(4348-4350)GCC>GTC	p.A1450V		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1450	Spectrin 11.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GTCCTCCTGGGCCAGTGCTTT	0.632											OREG0021113	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	19					0	0	0.004482	0	0		A	66461764	A	A	66461764	3	1	4	1	0	0	0	0	1	0	0	0	15145	1203	42	2	2891	2	SPTBN2	11	66461764	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5541	66461764	68544752	2605	4571											
SPTBN2	6712	broad.mit.edu	37	chr11	66475077	66475077	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggagccgctcccgccgggcGgccaccatctgccgcaagaa	8	3	13	17	5	1	1	0	0	1	1	2	2	2	2	6	3	2	2	6	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66475077G>A	uc001ojd.2	-	12	1635	c.1563C>T	c.(1561-1563)GCC>GCT	p.A521A		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	521	Spectrin 2.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCCGCCGGGCGGCCACCATCT	0.637													5	5					0	0	0.001168	0	0		A	66475077	A	A	66475077	2	1	4	1	0	0	0	0	0	0	0	1	15145	1103	39	1		1	SPTBN2	11	66475077	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	13313	66475077	68531439	2606	4572											
SPTBN2	6712	broad.mit.edu	37	chr11	66475138	66475138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgctgccgagcggcgatgCgcttgatgtcgtggtagcgc	4	10	17	10	6	0	1	0	1	0	0	1	3	0	1	1	2	5	3	1	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66475138C>T	uc001ojd.2	-	12	1574	c.1502G>A	c.(1501-1503)CGC>CAC	p.R501H		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	501	Spectrin 2.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						AGCGGCGATGCGCTTGATGTC	0.687													6	13					0	0	0.001168	0	0		T	66475138	T	T	66475138	3	4	4	1	0	0	0	0	1	0	0	0	15145	768	27	1	5774	1	SPTBN2	11	66475138	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	61	66475138	68531378	2607	4573											
LRFN4	78999	broad.mit.edu	37	chr11	66626561	66626561	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaagatgagaccctcatctAccggtgaggatgcgtgcccc	9	7	12	13	3	2	3	1	2	1	2	2	6	2	4	4	2	3	0	4	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66626561A>G	uc001ojr.2	+	1	1686	c.1346A>G	c.(1345-1347)TAC>TGC	p.Y449C	PC_uc001ojo.1_Intron|PC_uc001ojp.1_Intron|PC_uc001ojn.1_Intron|LRFN4_uc001ojs.2_Intron	NM_024036	NP_076941	Q6PJG9	LRFN4_HUMAN	leucine rich repeat and fibronectin type III	449	Extracellular (Potential).|Fibronectin type-III.					integral to membrane					0						ACCCTCATCTACCGGTGAGGA	0.657													10	27					0	0	0.008291	0	0		G	66626561	G	G	66626561	3	3	4	1	0	0	0	0	1	0	0	0	8958	391	14	3	1348	3	LRFN4	11	66626561	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	151423	66626561	68379955	2608	4574											
ADRBK1	156	broad.mit.edu	37	chr11	67047125	67047125	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagtgccactgagcatgTccaaggccacctggggaaga	12	5	14	10	0	0	3	0	1	0	2	1	5	1	4	4	3	2	1	4	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67047125T>C	uc009yrn.1	+	5	661	c.395T>C	c.(394-396)GTC>GCC	p.V132A	ADRBK1_uc009yrm.1_Missense_Mutation_p.V132A	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	132	RGS.|N-terminal.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	ACTGAGCATGTCCAAGGCCAC	0.612													5	45					0	0	0.001168	0	0		C	67047125	C	C	67047125	3	2	4	1	0	0	0	0	1	0	0	0	343	1667	58	3	413	3	ADRBK1	11	67047125	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	420564	67047125	67959391	2609	4575											
ADRBK1	156	broad.mit.edu	37	chr11	67052656	67052656	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaacagttcattttgcagtgCgatgtgagtgggggctgagc	9	11	15	6	1	1	2	1	2	0	0	1	3	1	2	0	2	4	3	0	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67052656C>T	uc009yrn.1	+	20	2168	c.1902C>T	c.(1900-1902)TGC>TGT	p.C634C	ADRBK1_uc009yrm.1_Intron	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	634	PH.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	TTTTGCAGTGCGATGTGAGTG	0.632													8	90					0	0	0.008291	0	0		T	67052656	T	T	67052656	2	4	4	1	0	0	0	0	0	0	0	1	343	776	27	1		1	ADRBK1	11	67052656	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5531	67052656	67953860	2610	4576											
SSH3	54961	broad.mit.edu	37	chr11	67077278	67077278	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtccactgcaagatgggCgtcagccgctcagcggccac	7	6	13	15	3	2	1	2	0	0	1	3	1	3	1	3	3	3	2	3	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67077278C>T	uc001okj.2	+	12	1426	c.1248C>T	c.(1246-1248)GGC>GGT	p.G416G	SSH3_uc001okk.2_RNA|SSH3_uc001okl.2_Silent_p.G270G	NM_017857	NP_060327	Q8TE77	SSH3_HUMAN	slingshot homolog 3	416	Tyrosine-protein phosphatase.				regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton|nucleus	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			GCAAGATGGGCGTCAGCCGCT	0.657													11	27					0	0	0.001855	0	0		T	67077278	T	T	67077278	2	4	4	1	0	0	0	0	0	0	0	1	15211	755	27	1		1	SSH3	11	67077278	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24622	67077278	67929238	2611	4577											
GSTP1	2950	broad.mit.edu	37	chr11	67352167	67352167	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccaacagctatacgggcaGctccccaagttccaggacgg	10	5	10	16	2	0	0	0	0	0	0	2	1	2	1	5	3	4	4	5	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67352167G>A	uc001omf.2	+	4	405	c.156G>A	c.(154-156)CAG>CAA	p.Q52Q	GSTP1_uc001omg.1_Silent_p.Q33Q	NM_000852	NP_000843	P09211	GSTP1_HUMAN	glutathione transferase	52	GST N-terminal.|Glutathione binding.				anti-apoptosis|cellular response to lipopolysaccharide|central nervous system development|common myeloid progenitor cell proliferation|glutathione metabolic process|negative regulation of acute inflammatory response|negative regulation of ERK1 and ERK2 cascade|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 beta production|negative regulation of JUN kinase activity|negative regulation of leukocyte proliferation|negative regulation of monocyte chemotactic protein-1 production|negative regulation of necrotic cell death|negative regulation of nitric-oxide synthase 2 biosynthetic process|negative regulation of stress-activated MAPK cascade|negative regulation of tumor necrosis factor production|nitric oxide storage|positive regulation of superoxide anion generation|response to reactive oxygen species|xenobiotic metabolic process	cytosol|protein complex	dinitrosyl-iron complex binding|glutathione transferase activity|JUN kinase binding|kinase regulator activity|nitric oxide binding|S-nitrosoglutathione binding			ovary(1)	1					Ethacrynic acid(DB00903)|Glutathione(DB00143)	TATACGGGCAGCTCCCCAAGT	0.632													15	82					0	0	0.006122	0	0		A	67352167	A	A	67352167	2	1	4	1	0	0	0	0	0	0	0	1	6860	962	34	2		2	GSTP1	11	67352167	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	274889	67352167	67654349	2612	4578											
ALDH3B2	222	broad.mit.edu	37	chr11	67432886	67432886	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagctctgggggtcgtcGccatagaaacgggtgatggt	7	8	19	7	3	1	2	0	1	1	1	3	3	1	3	1	6	2	1	1	6	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67432886G>A	uc001omr.2	-	7	1015	c.576C>T	c.(574-576)GGC>GGT	p.G192G	ALDH3B2_uc001oms.2_Silent_p.G192G|ALDH3B2_uc009ysa.1_Silent_p.G192G	NM_000695	NP_000686	P48448	AL3B2_HUMAN	aldehyde dehydrogenase 3B2	192					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase			lung(1)|kidney(1)	2					NADH(DB00157)	GGGGGTCGTCGCCATAGAAAC	0.662													4	42					0	0	0.009096	0	0		A	67432886	A	A	67432886	2	1	4	1	0	0	0	0	0	0	0	1	500	1074	38	1		1	ALDH3B2	11	67432886	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	80719	67432886	67573630	2613	4579											
TCIRG1	10312	broad.mit.edu	37	chr11	67816417	67816417	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatgtccgtcatcctgggCgtcgtgcacatggcctttgg	6	11	13	11	3	1	1	1	0	0	1	4	1	3	1	3	3	1	1	3	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67816417C>T	uc001one.2	+	14	1734	c.1626C>T	c.(1624-1626)GGC>GGT	p.G542G	TCIRG1_uc001ong.2_Silent_p.G326G|TCIRG1_uc001onh.2_Silent_p.G244G|TCIRG1_uc001oni.2_Silent_p.G46G|TCIRG1_uc009ysd.2_5'Flank	NM_006019	NP_006010	Q13488	VPP3_HUMAN	T-cell, immune regulator 1 isoform a	542	Helical; (Potential).				ATP hydrolysis coupled proton transport|cellular defense response|cellular iron ion homeostasis|insulin receptor signaling pathway|positive regulation of cell proliferation|transferrin transport	apical plasma membrane|endosome membrane|integral to plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity			ovary(1)	1						TCATCCTGGGCGTCGTGCACA	0.632													27	74					0	0	0.008361	0	0		T	67816417	T	T	67816417	2	4	4	1	0	0	0	0	0	0	0	1	15728	755	27	1		1	TCIRG1	11	67816417	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	383531	67816417	67190099	2614	4580											
SUV420H1	51111	broad.mit.edu	37	chr11	67957392	67957392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtgtacatacatctgttcGacctcctctcgactgcattt	7	15	7	12	2	2	0	0	0	2	0	5	2	3	0	2	0	3	3	2	0	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67957392G>A	uc001onm.1	-	2	408	c.152C>T	c.(151-153)TCG>TTG	p.S51L	SUV420H1_uc009yse.1_5'UTR|SUV420H1_uc001onn.1_5'UTR|SUV420H1_uc009ysf.2_5'UTR|SUV420H1_uc001ono.1_Missense_Mutation_p.S51L|SUV420H1_uc001onp.2_Missense_Mutation_p.S51L|SUV420H1_uc010rqa.1_Missense_Mutation_p.S51L|SUV420H1_uc001onq.2_Missense_Mutation_p.S51L	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	51					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						ACATCTGTTCGACCTCCTCTC	0.413													64	155					0	0	0.00361	0	0		A	67957392	A	A	67957392	3	1	4	1	0	0	0	0	1	0	0	0	15439	1059	37	1	2553	1	SUV420H1	11	67957392	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	140975	67957392	67049124	2615	4581											
C11orf24	53838	broad.mit.edu	37	chr11	68029864	68029864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttgctgttcttggcaacGcgctgctctttggcacttgt	3	15	13	10	2	2	0	0	0	2	0	2	0	2	0	0	3	3	7	0	3	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:68029864G>A	uc001onr.3	-	4	1041	c.599C>T	c.(598-600)GCG>GTG	p.A200V	C11orf24_uc001ons.2_Missense_Mutation_p.A200V	NM_022338	NP_071733	Q96F05	CK024_HUMAN	hypothetical protein LOC53838 precursor	200	Extracellular (Potential).					integral to membrane					0						TCTTGGCAACGCGCTGCTCTT	0.622													8	29					0	0	0.006214	0	0		A	68029864	A	A	68029864	3	1	4	1	0	0	0	0	1	0	0	0	1638	1087	38	1	754	1	C11orf24	11	68029864	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	72472	68029864	66976652	2616	4582											
SAPS3	55291	broad.mit.edu	37	chr11	68377453	68377453	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagactgcagaggcgaagtgCgcggcgcccaggcctcccag	8	3	16	14	4	0	2	0	0	0	2	1	4	1	2	3	3	2	1	3	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:68377453C>T	uc001onw.2	+	23	2799	c.2532C>T	c.(2530-2532)TGC>TGT	p.C844C	SAPS3_uc001onv.2_Silent_p.C850C|SAPS3_uc001ony.3_Silent_p.C815C|SAPS3_uc001onx.2_Silent_p.C838C|SAPS3_uc009ysh.2_Silent_p.C764C|SAPS3_uc001onu.2_Silent_p.C764C|SAPS3_uc010rqc.1_Silent_p.C612C|SAPS3_uc010rqd.1_Silent_p.C527C|SAPS3_uc001onz.2_Silent_p.C172C|SAPS3_uc001ooa.2_Silent_p.C300C	NM_001164161	NP_001157633	Q5H9R7	PP6R3_HUMAN	SAPS domain family, member 3 isoform 6	844					regulation of phosphoprotein phosphatase activity	cytoplasm|nucleus	protein phosphatase binding				0			LUAD - Lung adenocarcinoma(13;0.102)			AGGCGAAGTGCGCGGCGCCCA	0.607													36	20					0	0	0.003271	0	0		T	68377453	T	T	68377453	2	4	4	1	0	0	0	0	0	0	0	1	13863	776	27	1		1	SAPS3	11	68377453	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	347589	68377453	66629063	2617	4583											
PPFIA1	8500	broad.mit.edu	37	chr11	70118424	70118424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctagaagaaagggaccGccttcttgatacactgagag	13	8	11	9	1	1	4	0	2	1	3	1	6	1	5	2	1	2	1	2	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:70118424G>A	uc001opo.2	+	2	344	c.146G>A	c.(145-147)CGC>CAC	p.R49H	PPFIA1_uc001opn.1_Missense_Mutation_p.R49H|PPFIA1_uc001opp.2_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	49	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			GAAAGGGACCGCCTTCTTGAT	0.517													33	67					0	0	0.002445	0	0		A	70118424	A	A	70118424	3	1	4	1	0	0	0	0	1	0	0	0	12328	1087	38	1	148	1	PPFIA1	11	70118424	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1740971	70118424	64888092	2618	4584											
SHANK2	22941	broad.mit.edu	37	chr11	70332069	70332069	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggggactgaggggtgtcGcttttcttctgcttcactaa	7	13	13	8	1	3	1	1	1	2	0	4	3	3	2	0	4	1	2	0	4	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:70332069G>A	uc001oqc.2	-	21	4407	c.4329C>T	c.(4327-4329)AGC>AGT	p.S1443S	SHANK2_uc010rqn.1_Silent_p.S855S|SHANK2_uc001opz.2_Silent_p.S848S|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	1064					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			GAGGGGTGTCGCTTTTCTTCT	0.527													18	62					0	0	0.006122	0	0		A	70332069	A	A	70332069	2	1	4	1	0	0	0	0	0	0	0	1	14290	1078	38	1		1	SHANK2	11	70332069	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	213645	70332069	64674447	2619	4585											
SHANK2	22941	broad.mit.edu	37	chr11	70507852	70507852	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaccgcggccgctcctccGccggggacgttcatcatcat	6	8	10	17	6	4	0	4	0	0	0	6	1	6	1	5	3	0	2	5	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:70507852G>A	uc010rqn.1	-	1	72	c.21C>T	c.(19-21)GGC>GGT	p.G7G	SHANK2_uc001opz.2_Silent_p.G7G|SHANK2_uc001oqc.2_Intron|uc009ysn.1_Missense_Mutation_p.R97H|SHANK2_uc010rqp.1_Silent_p.G7G	NM_133266	NP_573573	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	Error:Variant_position_missing_in_Q9UPX8_after_alignment					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			CCGCTCCTCCGCCGGGGACGT	0.577													22	38					0	0	0.008361	0	0		A	70507852	A	A	70507852	2	1	4	1	0	0	0	0	0	0	0	1	14290	1074	38	1		1	SHANK2	11	70507852	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	175783	70507852	64498664	2620	4586											
DHCR7	1717	broad.mit.edu	37	chr11	71150017	71150017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggttgatgagggtccaggCgacgatcccggggcgcccat	7	6	16	12	4	0	2	0	2	0	0	2	4	2	2	3	5	0	1	3	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:71150017C>T	uc001oqk.2	-	7	989	c.739G>A	c.(739-741)GCC>ACC	p.A247T	DHCR7_uc001oql.2_Missense_Mutation_p.A247T	NM_001163817	NP_001157289	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	247			A -> V (in SLOS).		cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|nuclear outer membrane	7-dehydrocholesterol reductase activity|protein binding			ovary(1)|liver(1)	2					NADH(DB00157)	AGGGTCCAGGCGACGATCCCG	0.552									Smith-Lemli-Opitz_syndrome				13	33					0	0	0.003163	0	0		T	71150017	T	T	71150017	3	4	4	1	0	0	0	0	1	0	0	0	4483	768	27	1	700	1	DHCR7	11	71150017	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	642165	71150017	63856499	2621	4587											
NUMA1	4926	broad.mit.edu	37	chr11	71725378	71725378	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtccttgccttccttttcCgtcagggcatgagccagtgc	4	13	11	13	1	1	1	1	1	0	0	4	1	4	1	5	2	3	1	5	2	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:71725378C>T	uc001orl.1	-	15	3343	c.3171G>A	c.(3169-3171)ACG>ACA	p.T1057T	NUMA1_uc009ysw.1_Silent_p.T620T|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Silent_p.T1057T|NUMA1_uc001orn.2_Silent_p.T620T|NUMA1_uc009ysx.1_Silent_p.T1057T|NUMA1_uc001oro.1_Silent_p.T1057T	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1057	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						CTTCCTTTTCCGTCAGGGCAT	0.587			T	RARA	APL								19	45					0	0	0.003954	0	0		T	71725378	T	T	71725378	2	4	4	1	0	0	0	0	0	0	0	1	10769	639	23	1		1	NUMA1	11	71725378	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	575361	71725378	63281138	2622	4588											
NUMA1	4926	broad.mit.edu	37	chr11	71725779	71725779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgctcacctgccttgcGcaccaaggtctccaagcggg	6	8	11	16	2	2	0	1	0	1	0	3	0	2	0	4	2	5	3	4	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:71725779G>A	uc001orl.1	-	15	2942	c.2770C>T	c.(2770-2772)CGC>TGC	p.R924C	NUMA1_uc009ysw.1_Missense_Mutation_p.R487C|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.R924C|NUMA1_uc001orn.2_Missense_Mutation_p.R487C|NUMA1_uc009ysx.1_Missense_Mutation_p.R924C|NUMA1_uc001oro.1_Missense_Mutation_p.R924C	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	924	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						CCTGCCTTGCGCACCAAGGTC	0.607			T	RARA	APL								10	35					0	0	0.001855	0	0		A	71725779	A	A	71725779	3	1	4	1	0	0	0	0	1	0	0	0	10769	1087	38	1	3629	1	NUMA1	11	71725779	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	401	71725779	63280737	2623	4589											
FOLR3	2352	broad.mit.edu	37	chr11	71850830	71850830	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggccaagttctatgctgcGgccatgaatgctggggcccc	6	9	14	12	1	1	1	0	1	1	0	1	1	1	1	4	4	3	3	4	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:71850830G>A	uc001ory.1	+	5	869	c.819G>A	c.(817-819)GCG>GCA	p.A273A	FOLR3_uc001orx.1_Silent_p.A231A			P41439	FOLR3_HUMAN	SubName: Full=FOLR3 protein; Flags: Fragment;	229					folic acid transport	extracellular region|extrinsic to membrane|membrane fraction	folic acid binding|receptor activity				0					Folic Acid(DB00158)	TCTATGCTGCGGCCATGAATG	0.537													7	24					0	0	0.006214	0	0		A	71850830	A	A	71850830	2	1	4	1	0	0	0	0	0	0	0	1	5997	1103	39	1		1	FOLR3	11	71850830	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	125051	71850830	63155686	2624	4590											
INPPL1	3636	broad.mit.edu	37	chr11	71939260	71939260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcatgtgcacacgtatcGcattctgcctgatggagaag	11	9	12	9	2	1	2	0	1	1	1	2	4	1	2	1	1	3	4	1	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:71939260G>A	uc001osf.2	+	2	356	c.209G>A	c.(208-210)CGC>CAC	p.R70H	INPPL1_uc001osg.2_5'UTR	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	70	SH2.				actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						CACACGTATCGCATTCTGCCT	0.587													23	35					0	0	0.004656	0	0		A	71939260	A	A	71939260	3	1	4	1	0	0	0	0	1	0	0	0	7777	1087	38	1	215	1	INPPL1	11	71939260	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	88430	71939260	63067256	2625	4591											
PDE2A	5138	broad.mit.edu	37	chr11	72295250	72295250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccccgccctcacatgggCgatgctgatgccgcagtaga	9	6	11	15	3	1	2	1	1	0	1	1	3	1	2	4	1	3	3	4	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:72295250C>T	uc010rrc.1	-	19	1888	c.1645G>A	c.(1645-1647)GCC>ACC	p.A549T	PDE2A_uc001oso.2_Missense_Mutation_p.A528T|PDE2A_uc010rra.1_Missense_Mutation_p.A542T|PDE2A_uc001osn.2_Missense_Mutation_p.A293T|PDE2A_uc010rrb.1_Missense_Mutation_p.A540T|PDE2A_uc010rrd.1_Missense_Mutation_p.A434T	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	549					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	CTCACATGGGCGATGCTGATG	0.632													4	14					0	0	0.000602	0	0		T	72295250	T	T	72295250	3	4	4	1	0	0	0	0	1	0	0	0	11655	768	27	1	1232	1	PDE2A	11	72295250	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	355990	72295250	62711266	2626	4592											
ARAP1	116985	broad.mit.edu	37	chr11	72420943	72420943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggtagggcgtggtgaggtCgaagctgcgccggtccactt	5	8	18	10	5	0	1	0	1	0	0	2	2	1	1	2	5	2	2	2	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:72420943C>T	uc001osu.2	-	11	1684	c.1495G>A	c.(1495-1497)GAC>AAC	p.D499N	ARAP1_uc001osv.2_Missense_Mutation_p.D499N|ARAP1_uc001osr.2_Missense_Mutation_p.D259N|ARAP1_uc001oss.2_Missense_Mutation_p.D254N|ARAP1_uc009yth.2_Missense_Mutation_p.D254N|ARAP1_uc010rre.1_Missense_Mutation_p.D254N	NM_001040118	NP_001035207	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	499	PH 2.				actin filament reorganization involved in cell cycle|negative regulation of stress fiber assembly|positive regulation of Cdc42 GTPase activity|positive regulation of filopodium assembly|regulation of ARF GTPase activity|regulation of cell shape|regulation of cellular component movement|small GTPase mediated signal transduction	cytosol|Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|Rho GTPase activator activity|zinc ion binding			skin(1)	1						GTGGTGAGGTCGAAGCTGCGC	0.587													15	40					0	0	0.006122	0	0		T	72420943	T	T	72420943	3	4	4	1	0	0	0	0	1	0	0	0	838	884	31	1	2957	1	ARAP1	11	72420943	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	125693	72420943	62585573	2627	4593											
P2RY2	5029	broad.mit.edu	37	chr11	72945327	72945327	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcctgtgtcctacggCgtggtgtgcgtgcctgggct	1	12	16	12	3	0	0	0	0	0	0	1	0	1	0	3	3	5	2	3	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:72945327C>T	uc001otj.2	+	3	456	c.123C>T	c.(121-123)GGC>GGT	p.G41G	P2RY2_uc001otk.2_Silent_p.G41G|P2RY2_uc001otl.2_Silent_p.G41G	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	41	Helical; Name=1; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(1)|skin(1)	4					Suramin(DB04786)	TGTCCTACGGCGTGGTGTGCG	0.582													19	45					0	0	0.002299	0	0		T	72945327	T	T	72945327	2	4	4	1	0	0	0	0	0	0	0	1	11371	755	27	1		1	P2RY2	11	72945327	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	524384	72945327	62061189	2628	4594											
ARHGEF17	9828	broad.mit.edu	37	chr11	73070963	73070963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccaccctgggccaaatgaGcaagctctctgagagccttg	10	7	10	14	0	1	2	0	2	1	1	2	3	1	2	4	1	3	2	4	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:73070963G>A	uc001otu.2	+	10	4193	c.4172G>A	c.(4171-4173)AGC>AAC	p.S1391N		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1391					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						GGCCAAATGAGCAAGCTCTCT	0.602													13	41					0	0	0.004007	0	0		A	73070963	A	A	73070963	3	1	4	1	0	0	0	0	1	0	0	0	900	971	34	2	4210	2	ARHGEF17	11	73070963	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	125636	73070963	61935553	2629	4595											
RAB6A	5870	broad.mit.edu	37	chr11	73429910	73429910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacggaaacgttcctgacccGcagtatcccacagctgaagc	11	7	9	14	3	0	2	0	2	0	0	2	3	2	3	3	1	4	4	3	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:73429910G>A	uc001oue.2	-	4	730	c.209C>T	c.(208-210)GCG>GTG	p.A70V	RAB6A_uc001ouf.2_Intron|RAB6A_uc009yts.2_Intron	NM_002869	NP_002860	P20340	RAB6A_HUMAN	RAB6A, member RAS oncogene family isoform a	70	GTP.				minus-end-directed organelle transport along microtubule|peptidyl-cysteine methylation|protein targeting to Golgi|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic vesicle|cytosol|Golgi membrane|trans-Golgi network	GTP binding|GTPase activity|protein domain specific binding				0						TTCCTGACCCGCAGTATCCCA	0.343													33	86					0	0	0.004878	0	0		A	73429910	A	A	73429910	3	1	4	1	0	0	0	0	1	0	0	0	12976	1087	38	1	547	1	RAB6A	11	73429910	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	358947	73429910	61576606	2630	4596											
XRRA1	143570	broad.mit.edu	37	chr11	74563096	74563096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcagagagatgggaagagaGctactggtaggacagcatcc	13	5	15	8	1	0	3	0	0	0	3	1	7	1	5	1	3	3	4	1	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:74563096G>A	uc009yub.2	-	13	1510	c.1178C>T	c.(1177-1179)GCT>GTT	p.A393V	XRRA1_uc001ovm.2_RNA|XRRA1_uc001ovn.2_Missense_Mutation_p.A16V|XRRA1_uc001ovo.2_Missense_Mutation_p.A16V|XRRA1_uc001ovq.3_Intron|XRRA1_uc001ovp.3_Missense_Mutation_p.A118V|XRRA1_uc001ovr.2_Missense_Mutation_p.A16V|XRRA1_uc001ovs.1_Intron	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	393					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						TGGGAAGAGAGCTACTGGTAG	0.537													32	68					0	0	0.004289	0	0		A	74563096	A	A	74563096	3	1	4	1	0	0	0	0	1	0	0	0	17487	971	34	2	1228	2	XRRA1	11	74563096	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1133186	74563096	60443420	2631	4597											
UVRAG	7405	broad.mit.edu	37	chr11	75851844	75851844	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggcttctctggggggaTcccttcaccagacaaaggac	9	9	12	11	0	2	1	1	0	1	1	4	3	3	3	2	5	0	2	2	5	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:75851844T>A	uc001oxc.2	+	15	1728	c.1487T>A	c.(1486-1488)ATC>AAC	p.I496N	UVRAG_uc010rrw.1_Missense_Mutation_p.I395N|UVRAG_uc001oxd.2_Missense_Mutation_p.I124N|UVRAG_uc010rrx.1_Missense_Mutation_p.I124N|UVRAG_uc010rry.1_Missense_Mutation_p.I52N	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	496					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						TCTGGGGGGATCCCTTCACCA	0.502													27	76					0	0	0.00632	0	0		A	75851844	A	A	75851844	3	1	4	1	0	0	0	0	1	0	0	0	17134	1435	50	5	1545	5	UVRAG	11	75851844	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1288748	75851844	59154672	2632	4598											
UVRAG	7405	broad.mit.edu	37	chr11	75851877	75851877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caaaggacatcgaaaacgggCcagctctgagaatgagagac	16	4	12	9	2	1	3	0	2	1	2	2	7	1	4	1	2	2	1	1	2	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:75851877C>T	uc001oxc.2	+	15	1761	c.1520C>T	c.(1519-1521)GCC>GTC	p.A507V	UVRAG_uc010rrw.1_Missense_Mutation_p.A406V|UVRAG_uc001oxd.2_Missense_Mutation_p.A135V|UVRAG_uc010rrx.1_Missense_Mutation_p.A135V|UVRAG_uc010rry.1_Missense_Mutation_p.A63V	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	507					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						CGAAAACGGGCCAGCTCTGAG	0.537													28	78					0	0	0.008361	0	0		T	75851877	T	T	75851877	3	4	4	1	0	0	0	0	1	0	0	0	17134	739	26	2	1578	2	UVRAG	11	75851877	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	33	75851877	59154639	2633	4599											
TSKU	25987	broad.mit.edu	37	chr11	76507476	76507476	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcttaactgggcaggagcTgaggtgttttcaggcctgag	9	10	15	7	0	1	2	1	2	0	0	1	3	1	3	1	4	3	4	1	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:76507476T>G	uc001oxt.2	+	2	988	c.816T>G	c.(814-816)GCT>GCG	p.A272A		NM_015516	NP_056331	Q8WUA8	TSK_HUMAN	tsukushin precursor	272	LRR 9.					extracellular region					0	Ovarian(111;0.112)					GGGCAGGAGCTGAGGTGTTTT	0.667													3	23					0	0	0.004672	0	0		G	76507476	G	G	76507476	2	3	4	1	0	0	0	0	0	0	0	1	16653	1567	55	5		5	TSKU	11	76507476	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	655599	76507476	58499040	2634	4600											
NDUFC2	4718	broad.mit.edu	37	chr11	77784094	77784094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatatatccaaacatttcaCggtccctcacagcatacagg	13	10	5	13	1	3	0	3	0	0	0	5	0	5	0	2	2	3	1	2	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:77784094C>T	uc009yuw.2	-	2	735	c.260G>A	c.(259-261)CGT>CAT	p.R87H		NM_004549	NP_004540	O95298	NDUC2_HUMAN	NADH dehydrogenase (ubiquinone) 1, subcomplex	87					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0	all_cancers(14;2.23e-19)|all_epithelial(13;7.49e-22)|Breast(9;6.38e-17)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;2.15e-25)		Carvedilol(DB01136)|NADH(DB00157)	AAACATTTCACGGTCCCTCAC	0.328													11	105					0	0	0.001855	0	0		T	77784094	T	T	77784094	3	4	4	1	0	0	0	0	1	0	0	0	10309	536	19	1	107	1	NDUFC2	11	77784094	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1276618	77784094	57222422	2635	4601											
PCF11	51585	broad.mit.edu	37	chr11	82868586	82868586	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaccttcaatagcaagccGcacatcaatatgctgaccat	13	9	6	13	1	2	2	2	2	0	0	2	2	2	2	3	0	3	3	3	0	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:82868586G>A	uc001ozx.3	+	1	450	c.105G>A	c.(103-105)CCG>CCA	p.P35P	PCF11_uc010rsu.1_Silent_p.P35P|PCF11_uc001ozy.2_Silent_p.P35P	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	35	CID.				mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						ATAGCAAGCCGCACATCAATA	0.592													9	82					0	0	0.006214	0	0		A	82868586	A	A	82868586	2	1	4	1	0	0	0	0	0	0	0	1	11592	1074	38	1		1	PCF11	11	82868586	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5084492	82868586	52137930	2636	4602											
C11orf73	51501	broad.mit.edu	37	chr11	86048431	86048431	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttcttgcaggagaaggaagCcaacatccttttggagccat	11	11	10	9	0	1	1	0	0	1	1	2	4	2	3	3	3	4	1	3	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:86048431C>T	uc001pbu.2	+	3	517	c.279C>T	c.(277-279)AGC>AGT	p.S93S	C11orf73_uc001pbt.2_Silent_p.S93S|C11orf73_uc010rto.1_RNA|C11orf73_uc010rtp.1_5'UTR|C11orf73_uc001pbv.2_RNA	NM_016401	NP_057485	Q53FT3	CK073_HUMAN	lethal, Chr 7, Rinchik 6	93						cytoplasm					0		Acute lymphoblastic leukemia(157;1.17e-07)|all_hematologic(158;0.000556)				GAGAAGGAAGCCAACATCCTT	0.358													14	101					0	0	0.003163	0	0		T	86048431	T	T	86048431	2	4	4	1	0	0	0	0	0	0	0	1	1664	738	26	2		2	C11orf73	11	86048431	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3179845	86048431	48958085	2637	4603											
ME3	10873	broad.mit.edu	37	chr11	86267716	86267716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagaagagcttctcgttccGgtcttggagtgtcatgagaa	9	12	13	7	2	3	3	1	1	2	3	5	5	4	4	1	2	1	3	1	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:86267716G>A	uc001pbz.2	-	3	600	c.346C>T	c.(346-348)CGG>TGG	p.R116W	ME3_uc001pca.2_Missense_Mutation_p.R116W|ME3_uc009yvk.2_Missense_Mutation_p.R116W|ME3_uc010rtr.1_RNA	NM_001014811	NP_001014811	Q16798	MAON_HUMAN	mitochondrial malic enzyme 3 precursor	116					aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)	TTCTCGTTCCGGTCTTGGAGT	0.532													18	40					0	0	0.006122	0	0		A	86267716	A	A	86267716	3	1	4	1	0	0	0	0	1	0	0	0	9437	1115	39	1	1516	1	ME3	11	86267716	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	219285	86267716	48738800	2638	4604											
GRM5	2915	broad.mit.edu	37	chr11	88300351	88300351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgtggtgaaggcgctgcGcacgtttctctctggtttgg	5	13	15	8	3	2	2	0	1	2	1	3	2	2	2	0	4	1	4	0	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:88300351G>A	uc001pcq.2	-	7	2700	c.2500C>T	c.(2500-2502)CGC>TGC	p.R834C	GRM5_uc009yvm.2_Missense_Mutation_p.R834C	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	834	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	AAGGCGCTGCGCACGTTTCTC	0.572													9	36					0	0	0.004482	0	0		A	88300351	A	A	88300351	3	1	4	1	0	0	0	0	1	0	0	0	6816	1087	38	1	1150	1	GRM5	11	88300351	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2032635	88300351	46706165	2639	4605											
CHORDC1	26973	broad.mit.edu	37	chr11	89938663	89938663	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacatgtgtttcccttttgTacagccctcttgggctaaga	7	14	8	12	0	1	1	0	0	1	1	2	1	2	1	3	1	2	3	3	1	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:89938663T>C	uc001pdg.2	-	8	1044	c.634A>G	c.(634-636)ACA>GCA	p.T212A	CHORDC1_uc009yvz.2_Missense_Mutation_p.T193A	NM_012124	NP_036256	Q9UHD1	CHRD1_HUMAN	cysteine and histidine-rich domain-containing	212	Interaction with HSP90AA1 and HSP90AB1 (By similarity).|CHORD 2.				chaperone-mediated protein folding|regulation of response to stress|response to stress		Hsp90 protein binding|identical protein binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.00915)				TTCCCTTTTGTACAGCCCTCT	0.323													16	61					0	0	0.010504	0	0		C	89938663	C	C	89938663	3	2	4	1	0	0	0	0	1	0	0	0	3368	1638	57	3	380	3	CHORDC1	11	89938663	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1638312	89938663	45067853	2640	4606											
FAT3	120114	broad.mit.edu	37	chr11	92507336	92507336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccgatgggacaaatgttgCtgttactcaggtgagatgtt	10	12	12	7	1	1	1	1	1	0	1	1	4	1	2	1	2	2	4	1	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:92507336C>T	uc001pdj.3	+	6	4342	c.4325C>T	c.(4324-4326)GCT>GTT	p.A1442V		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1442	Cadherin 13.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACAAATGTTGCTGTTACTCAG	0.423										TCGA Ovarian(4;0.039)			4	37					0	0	0.009096	0	0		T	92507336	T	T	92507336	3	4	4	1	0	0	0	0	1	0	0	0	5705	797	28	2	4347	2	FAT3	11	92507336	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2568673	92507336	42499180	2641	4607											
MTNR1B	4544	broad.mit.edu	37	chr11	92715429	92715429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgcggaggggctgcagaGcccagctccacccatcattg	8	5	12	16	2	1	1	1	0	0	1	2	2	2	2	4	3	3	3	4	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:92715429G>A	uc001pdk.1	+	2	1143	c.1040G>A	c.(1039-1041)AGC>AAC	p.S347N		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	347	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	GGGCTGCAGAGCCCAGCTCCA	0.572													14	36					0	0	0.006122	0	0		A	92715429	A	A	92715429	3	1	4	1	0	0	0	0	1	0	0	0	9970	971	34	2	1046	2	MTNR1B	11	92715429	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	208093	92715429	42291087	2642	4608											
HEPHL1	341208	broad.mit.edu	37	chr11	93796832	93796832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaccattcgcacatcgacGccccaaaggacatctgctct	10	9	7	15	3	2	0	0	0	2	0	4	2	2	1	3	1	2	3	3	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:93796832G>A	uc001pep.2	+	3	731	c.574G>A	c.(574-576)GCC>ACC	p.A192T		NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	192	Plastocyanin-like 1.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				GCACATCGACGCCCCAAAGGA	0.522													6	92					0	0	0.00308	0	0		A	93796832	A	A	93796832	3	1	4	1	0	0	0	0	1	0	0	0	7071	1087	38	1	584	1	HEPHL1	11	93796832	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1081403	93796832	41209684	2643	4609											
HEPHL1	341208	broad.mit.edu	37	chr11	93826690	93826690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagatatatttatgaaccGcactgaaaattggattggct	13	13	10	5	1	0	3	0	2	0	1	0	5	0	4	1	3	1	2	1	3	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:93826690G>A	uc001pep.2	+	13	2475	c.2318G>A	c.(2317-2319)CGC>CAC	p.R773H	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	773	Plastocyanin-like 5.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				TTTATGAACCGCACTGAAAAT	0.428													42	108					0	0	0.00361	0	0		A	93826690	A	A	93826690	3	1	4	1	0	0	0	0	1	0	0	0	7071	1087	38	1	2368	1	HEPHL1	11	93826690	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	29858	93826690	41179826	2644	4610											
PIWIL4	143689	broad.mit.edu	37	chr11	94326774	94326774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacagtgaggctcagctcGcccacctgatacctgagctc	10	7	9	15	1	1	3	1	3	0	0	3	3	1	3	3	1	4	3	3	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:94326774G>A	uc001pfa.2	+	9	1328	c.1117G>A	c.(1117-1119)GCC>ACC	p.A373T	PIWIL4_uc010rue.1_RNA|PIWIL4_uc009ywk.1_RNA	NM_152431	NP_689644	Q7Z3Z4	PIWL4_HUMAN	piwi-like 4	373	PAZ.				cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|meiosis|multicellular organismal development|piRNA metabolic process|regulation of translation|spermatogenesis	nucleus|piP-body	piRNA binding			skin(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				GGCTCAGCTCGCCCACCTGAT	0.458													22	74					0	0	0.001882	0	0		A	94326774	A	A	94326774	3	1	4	1	0	0	0	0	1	0	0	0	11979	1087	38	1	1151	1	PIWIL4	11	94326774	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	500084	94326774	40679742	2645	4611											
AMOTL1	154810	broad.mit.edu	37	chr11	94599243	94599243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgttccatccatagcagcaGctactgggacacactctcgc	9	8	8	16	2	1	0	0	0	1	0	4	1	3	1	3	1	4	4	3	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:94599243G>A	uc001pfb.2	+	11	2568	c.2398G>A	c.(2398-2400)GCT>ACT	p.A800T	AMOTL1_uc001pfc.2_Missense_Mutation_p.A750T	NM_130847	NP_570899	Q8IY63	AMOL1_HUMAN	angiomotin like 1	800						cytoplasm|tight junction	identical protein binding			ovary(1)|breast(1)	2		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				CATAGCAGCAGCTACTGGGAC	0.567													15	30					0	0	0.00499	0	0		A	94599243	A	A	94599243	3	1	4	1	0	0	0	0	1	0	0	0	583	971	34	2	2440	2	AMOTL1	11	94599243	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	272469	94599243	40407273	2646	4612											
MMP1	4312	broad.mit.edu	37	chr11	102665947	102665947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccccgaatcgtagttataGcatcaaaggttagcttactg	11	12	8	10	2	1	0	1	0	0	0	3	1	2	0	2	1	3	5	2	1	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:102665947G>A	uc001phi.2	-	6	1000	c.857C>T	c.(856-858)GCT>GTT	p.A286V	uc001phh.1_RNA|MMP1_uc010ruv.1_Missense_Mutation_p.A220V	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	286	Hemopexin-like 1.				blood coagulation|collagen catabolic process|interspecies interaction between organisms|leukocyte migration|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)|lung(1)	4	all_epithelial(12;0.0127)	all_neural(303;0.000318)|all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.072)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.233)	OV - Ovarian serous cystadenocarcinoma(223;1.82e-07)|Epithelial(105;1.51e-06)|BRCA - Breast invasive adenocarcinoma(274;0.014)		CGTAGTTATAGCATCAAAGGT	0.408													20	52					0	0	0.001882	0	0		A	102665947	A	A	102665947	3	1	4	1	0	0	0	0	1	0	0	0	9666	971	34	2	572	2	MMP1	11	102665947	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8066704	102665947	32340569	2647	4613											
DYNC2H1	79659	broad.mit.edu	37	chr11	102987424	102987424	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatcctgagtcacgaatgttGcatctcttagacatcatagg	11	13	8	9	1	3	2	2	1	1	1	5	3	4	2	1	1	1	2	1	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:102987424G>A	uc001pho.2	+	5	891	c.747G>A	c.(745-747)TTG>TTA	p.L249L	DYNC2H1_uc001phn.1_Silent_p.L249L|DYNC2H1_uc009yxe.1_Silent_p.L249L	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	249	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CACGAATGTTGCATCTCTTAG	0.343													30	138					0	0	0.004289	0	0		A	102987424	A	A	102987424	2	1	4	1	0	0	0	0	0	0	0	1	4852	1310	46	2		2	DYNC2H1	11	102987424	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	321477	102987424	32019092	2648	4614											
KIAA1826	84437	broad.mit.edu	37	chr11	105880317	105880317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctttctctacctgtaagCgttccttttcaatctgcagc	6	17	6	12	1	4	0	1	0	3	0	6	0	5	0	2	0	4	3	2	0	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:105880317C>T	uc001piy.2	-	3	1156	c.983G>A	c.(982-984)CGC>CAC	p.R328H	KIAA1826_uc001piz.2_Missense_Mutation_p.R328H	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	328	Potential.					nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		TACCTGTAAGCGTTCCTTTTC	0.393													5	100					0	0	0.000602	0	0		T	105880317	T	T	105880317	3	4	4	1	0	0	0	0	1	0	0	0	8276	768	27	1	58	1	KIAA1826	11	105880317	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2892893	105880317	29126199	2649	4615											
GUCY1A2	2977	broad.mit.edu	37	chr11	106558464	106558464	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcggaatgaatgtgaaactTtcttctcgttttaataatct	11	16	7	7	3	3	2	0	2	3	0	4	3	3	3	0	1	1	1	0	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:106558464T>A	uc001pjg.1	-	8	2400	c.2010A>T	c.(2008-2010)GAA>GAT	p.E670D	GUCY1A2_uc010rvo.1_Missense_Mutation_p.E691D|GUCY1A2_uc009yxn.1_Missense_Mutation_p.E701D	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	670					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		ATGTGAAACTTTCTTCTCGTT	0.403													26	72					0	0	0.00632	0	0		A	106558464	A	A	106558464	3	1	4	1	0	0	0	0	1	0	0	0	6909	1838	64	5	192	5	GUCY1A2	11	106558464	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	678147	106558464	28448052	2650	4616											
CUL5	8065	broad.mit.edu	37	chr11	107920682	107920682	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgttgaatggcgaaagttCtttacacaatgtgatatttt	12	17	8	4	1	1	2	0	2	1	0	1	3	1	2	0	1	1	2	0	1	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:107920682C>A	uc001pjv.2	+	4	967	c.300C>A	c.(298-300)TTC>TTA	p.F100L	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	100					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		GGCGAAAGTTCTTTACACAAT	0.338													24	56					3.28513e-13	3.56435e-13	0.003954	1	0		A	107920682	A	A	107920682	3	1	4	1	0	0	0	0	1	0	0	0	4062	912	32	5	314	5	CUL5	11	107920682	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1362218	107920682	27085834	2651	4617											
ACAT1	38	broad.mit.edu	37	chr11	108013239	108013239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcatgacggcagatgcagCgaagaggctcaatgttacac	12	8	11	10	2	2	3	2	1	1	2	3	4	2	3	0	2	3	4	0	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:108013239C>T	uc001pjy.2	+	9	978	c.902C>T	c.(901-903)GCG>GTG	p.A301V	ACAT1_uc001pjx.2_Missense_Mutation_p.A175V	NM_000019	NP_000010	P24752	THIL_HUMAN	acetyl-Coenzyme A acetyltransferase 1 precursor	301			A -> P (in 3KTD; 5% normal activity).		acetoacetic acid biosynthetic process|branched chain family amino acid catabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	acetyl-CoA C-acetyltransferase activity|metal ion binding			ovary(3)	3		all_cancers(61;6.41e-10)|all_epithelial(67;2.83e-06)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;2.96e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.00108)|OV - Ovarian serous cystadenocarcinoma(223;0.192)	Sulfasalazine(DB00795)	GCAGATGCAGCGAAGAGGCTC	0.338													8	26					0	0	0.004482	0	0		T	108013239	T	T	108013239	3	4	4	1	0	0	0	0	1	0	0	0	121	768	27	1	936	1	ACAT1	11	108013239	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	92557	108013239	26993277	2652	4618											
NPAT	4863	broad.mit.edu	37	chr11	108043647	108043647	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggagtgccttctggaggCgtcagtgcaactttctcaca	9	10	11	11	1	3	0	2	0	2	0	4	2	3	2	1	3	3	1	1	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:108043647C>T	uc001pjz.3	-	13	2166	c.2064G>A	c.(2062-2064)ACG>ACA	p.T688T	NPAT_uc010rvv.1_5'Flank|NPAT_uc001pka.2_Silent_p.T483T	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	688					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		CTTCTGGAGGCGTCAGTGCAA	0.433													16	51					0	0	0.004007	0	0		T	108043647	T	T	108043647	2	4	4	1	0	0	0	0	0	0	0	1	10585	755	27	1		1	NPAT	11	108043647	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	30408	108043647	26962869	2653	4619											
EXPH5	23086	broad.mit.edu	37	chr11	108409786	108409786	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggaagctttgaagtctcCtttccagatttcctgaatga	10	14	9	8	0	1	4	0	3	1	1	4	6	3	5	3	1	1	1	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:108409786C>A	uc001pkk.2	-	3	519	c.408G>T	c.(406-408)AAG>AAT	p.K136N	EXPH5_uc010rvy.1_5'Flank|EXPH5_uc010rvz.1_5'Flank|EXPH5_uc010rwa.1_Missense_Mutation_p.K60N	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	136					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		TTGAAGTCTCCTTTCCAGATT	0.438													26	132					1.50538e-07	1.60433e-07	0.00632	1	0		A	108409786	A	A	108409786	3	1	4	1	0	0	0	0	1	0	0	0	5330	680	24	5	5577	5	EXPH5	11	108409786	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	366139	108409786	26596730	2654	4620											
DDX10	1662	broad.mit.edu	37	chr11	108577481	108577481	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaggtacaaagaggatggTgaagctttgctaattttgct	11	15	11	4	0	0	2	0	1	0	1	0	3	0	3	0	3	4	4	0	3	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:108577481T>C	uc001pkm.2	+	10	1304	c.1239T>C	c.(1237-1239)GGT>GGC	p.G413G	DDX10_uc001pkl.1_Silent_p.G413G	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	413	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		AAGAGGATGGTGAAGCTTTGC	0.363			T	NUP98	AML*								38	149					0	0	0.00361	0	0		C	108577481	C	C	108577481	2	2	4	1	0	0	0	0	0	0	0	1	4345	1683	59	3		3	DDX10	11	108577481	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	167695	108577481	26429035	2655	4621											
ZC3H12C	85463	broad.mit.edu	37	chr11	110035523	110035523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaccaaaaatcatggaacGccaatgccttatgaacagta	17	7	7	10	1	1	1	1	1	0	0	1	2	1	2	3	1	4	2	3	1	8	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:110035523G>A	uc009yxw.2	+	6	1764	c.1713G>A	c.(1711-1713)ACG>ACA	p.T571T	ZC3H12C_uc010rwc.1_Silent_p.T572T|ZC3H12C_uc010rwd.1_Silent_p.T572T|ZC3H12C_uc001pkr.3_Silent_p.T540T	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	571							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		ATCATGGAACGCCAATGCCTT	0.438													8	92					0	0	0.008291	0	0		A	110035523	A	A	110035523	2	1	4	1	0	0	0	0	0	0	0	1	17588	1074	38	1		1	ZC3H12C	11	110035523	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1458042	110035523	24970993	2656	4622											
ZC3H12C	85463	broad.mit.edu	37	chr11	110035979	110035979	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggtccagctgtcctggCgactacccctctcctccaag	5	8	9	19	2	1	0	0	0	1	0	5	1	4	0	7	2	2	1	7	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:110035979C>T	uc009yxw.2	+	6	2220	c.2169C>T	c.(2167-2169)GGC>GGT	p.G723G	ZC3H12C_uc010rwc.1_Silent_p.G724G|ZC3H12C_uc010rwd.1_Silent_p.G724G|ZC3H12C_uc001pkr.3_Silent_p.G692G	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	723							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		GCTGTCCTGGCGACTACCCCT	0.587													7	91					0	0	0.00308	0	0		T	110035979	T	T	110035979	2	4	4	1	0	0	0	0	0	0	0	1	17588	755	27	1		1	ZC3H12C	11	110035979	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	456	110035979	24970537	2657	4623											
RDX	5962	broad.mit.edu	37	chr11	110102620	110102620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcttcaaactcatcgatacGctgctttgtattgccttgtc	7	16	7	11	2	2	0	2	0	0	0	4	1	2	0	1	0	5	4	1	0	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:110102620G>A	uc001pku.2	-	14	2036	c.1726C>T	c.(1726-1728)CGT>TGT	p.R576C	RDX_uc009yxx.1_RNA|RDX_uc009yxy.2_Missense_Mutation_p.R576C|RDX_uc009yxz.2_Missense_Mutation_p.R229C|RDX_uc009yya.2_Missense_Mutation_p.R172C|RDX_uc001pks.2_Missense_Mutation_p.R110C|RDX_uc001pkt.2_Missense_Mutation_p.R230C|RDX_uc010rwe.1_Missense_Mutation_p.R440C	NM_002906	NP_002897	P35241	RADI_HUMAN	radixin	576					actin filament capping	cleavage furrow|cytoskeleton|extrinsic to membrane|Golgi apparatus|nucleolus|plasma membrane	actin binding				0		all_cancers(61;7.18e-13)|all_epithelial(67;2.61e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.13e-06)|BRCA - Breast invasive adenocarcinoma(274;9.75e-06)|all cancers(92;5.9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0248)		TCATCGATACGCTGCTTTGTA	0.403													18	225					0	0	0.010504	0	0		A	110102620	A	A	110102620	3	1	4	1	0	0	0	0	1	0	0	0	13223	1087	38	1	29	1	RDX	11	110102620	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	66641	110102620	24903896	2658	4624											
ARHGAP20	57569	broad.mit.edu	37	chr11	110451712	110451712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcttggattcaagaggcCgtttcatttgaacatcttca	9	13	9	10	2	4	2	3	1	1	1	4	3	4	3	2	3	1	2	2	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:110451712C>T	uc001pkz.1	-	16	2243	c.1958G>A	c.(1957-1959)CGG>CAG	p.R653Q	ARHGAP20_uc001pky.1_Missense_Mutation_p.R630Q|ARHGAP20_uc009yyb.1_Missense_Mutation_p.R617Q|ARHGAP20_uc001pla.1_Missense_Mutation_p.R617Q|ARHGAP20_uc001plb.2_Missense_Mutation_p.R196Q	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	653					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		TTCAAGAGGCCGTTTCATTTG	0.502													10	13					0	0	0.008291	0	0		T	110451712	T	T	110451712	3	4	4	1	0	0	0	0	1	0	0	0	870	652	23	1	1621	1	ARHGAP20	11	110451712	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	349092	110451712	24554804	2659	4625											
ARHGAP20	57569	broad.mit.edu	37	chr11	110477373	110477373	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgttccataaggaagggCtcctggaggttgaaaggggt	10	9	16	6	0	0	1	0	1	0	0	2	3	2	3	2	6	1	4	2	6	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:110477373C>A	uc001pkz.1	-	10	1161	c.876G>T	c.(874-876)GAG>GAT	p.E292D	ARHGAP20_uc001pky.1_Missense_Mutation_p.E269D|ARHGAP20_uc009yyb.1_Missense_Mutation_p.E256D|ARHGAP20_uc001pla.1_Missense_Mutation_p.E256D	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	292	Ras-associating.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		TAAGGAAGGGCTCCTGGAGGT	0.542													8	125					6.40141e-05	6.72605e-05	0.000978	1	0		A	110477373	A	A	110477373	3	1	4	1	0	0	0	0	1	0	0	0	870	796	28	5	2727	5	ARHGAP20	11	110477373	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	25661	110477373	24529143	2660	4626											
SIK2	23235	broad.mit.edu	37	chr11	111582989	111582989	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccgaacatgaggctgctgCgatctgccctcctcccccag	7	7	9	18	2	1	1	0	1	1	0	3	3	3	1	5	1	4	2	5	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:111582989C>T	uc001plt.2	+	9	1274	c.1156C>T	c.(1156-1158)CGA>TGA	p.R386*		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	386					intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						GAGGCTGCTGCGATCTGCCCT	0.532													18	46					0	0	0.007413	0	0		T	111582989	T	T	111582989	4	4	4	1	0	0	0	0	0	1	0	0	14343	760	27	1	1190	1	SIK2	11	111582989	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1105616	111582989	23423527	2661	4627											
TIMM8B	26521	broad.mit.edu	37	chr11	111956131	111956131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagtgcgagagtctaggCgattccctggcttctccaca	7	12	10	12	2	3	1	1	0	2	1	5	3	4	1	2	2	1	1	2	2	1	4	rs116405897	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:111956131C>T	uc001pmx.2	-	2	152	c.140G>A	c.(139-141)CGC>CAC	p.R47H	TIMM8B_uc001pmy.2_RNA|SDHD_uc001pmz.2_5'Flank	NM_012459	NP_036591	Q9Y5J9	TIM8B_HUMAN	translocase of inner mitochondrial membrane 8	47	Twin CX3C motif.				protein import into mitochondrial inner membrane|sensory perception of sound|transmembrane transport	mitochondrial inner membrane presequence translocase complex|mitochondrial intermembrane space protein transporter complex	protein binding|zinc ion binding				0		all_cancers(61;1.84e-10)|all_epithelial(67;9.33e-06)|Melanoma(852;4.01e-05)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0512)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)		Epithelial(105;6.01e-07)|BRCA - Breast invasive adenocarcinoma(274;6.17e-07)|all cancers(92;1.03e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0512)		AGAGTCTAGGCGATTCCCTGG	0.463													9	40					0	0	0.008291	0	0		T	111956131	T	T	111956131	3	4	4	1	0	0	0	0	1	0	0	0	15940	768	27	1	115	1	TIMM8B	11	111956131	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	373142	111956131	23050385	2662	4628											
BCO2	83875	broad.mit.edu	37	chr11	112050080	112050080	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtctgccatgtgttgcaccGctgctgaccacagtggaaga	8	9	13	11	1	1	2	0	1	1	1	1	3	1	3	3	2	3	4	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:112050080G>A	uc001pnf.2	+	2	285	c.168G>A	c.(166-168)CCG>CCA	p.P56P	BCO2_uc001pne.1_Intron|BCO2_uc001png.2_Silent_p.P56P|BCO2_uc001pnh.2_Silent_p.P22P|BCO2_uc010rwt.1_Intron|BCO2_uc009yyn.2_Silent_p.P22P|BCO2_uc001pni.2_Silent_p.P22P	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	56					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GTGTTGCACCGCTGCTGACCA	0.517													6	59					0	0	0.001984	0	0		A	112050080	A	A	112050080	2	1	4	1	0	0	0	0	0	0	0	1	1386	1074	38	1		1	BCO2	11	112050080	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	93949	112050080	22956436	2663	4629											
BCO2	83875	broad.mit.edu	37	chr11	112071486	112071486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttcatgtggtggaaaaacGcactggacaggtggagtatt	11	11	14	5	1	1	0	1	0	0	0	1	3	1	3	0	5	1	3	0	5	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:112071486G>A	uc001pnf.2	+	7	1133	c.1016G>A	c.(1015-1017)CGC>CAC	p.R339H	BCO2_uc001pne.1_Missense_Mutation_p.R166H|BCO2_uc001png.2_Missense_Mutation_p.R266H|BCO2_uc001pnh.2_Missense_Mutation_p.R305H|BCO2_uc010rwt.1_Missense_Mutation_p.R234H|BCO2_uc009yyn.2_Missense_Mutation_p.R305H|BCO2_uc001pni.2_Missense_Mutation_p.R305H	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	339					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GTGGAAAAACGCACTGGACAG	0.388													7	121					0	0	0.00308	0	0		A	112071486	A	A	112071486	3	1	4	1	0	0	0	0	1	0	0	0	1386	1087	38	1	1042	1	BCO2	11	112071486	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	21406	112071486	22935030	2664	4630											
CLDN25	644672	broad.mit.edu	37	chr11	113651128	113651128	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgatggctggtcccacagTccccctatcctgtgctccag	5	12	9	15	0	0	1	0	1	0	0	4	1	4	1	5	2	1	2	5	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:113651128T>C	uc009yyw.1	+	1	611	c.611T>C	c.(610-612)GTC>GCC	p.V204A		NM_001101389	NP_001094859	C9JDP6	CLD25_HUMAN	claudin 25	204	Cytoplasmic (Potential).					integral to membrane|tight junction	structural molecule activity				0						GGTCCCACAGTCCCCCTATCC	0.547													20	42					0	0	0.010504	0	0		C	113651128	C	C	113651128	3	2	4	1	0	0	0	0	1	0	0	0	3488	1667	58	3	613	3	CLDN25	11	113651128	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1579642	113651128	21355388	2665	4631											
NNMT	4837	broad.mit.edu	37	chr11	114182863	114182863	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccactgggggccgtcccCttacccccggctgactgcgt	4	7	12	18	3	0	1	0	1	0	0	1	1	1	1	6	3	3	1	6	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:114182863C>T	uc001por.1	+	5	723	c.459C>T	c.(457-459)CCC>CCT	p.P153P	NNMT_uc001pos.1_Silent_p.P153P	NM_006169	NP_006160	P40261	NNMT_HUMAN	nicotinamide N-methyltransferase	153					xenobiotic metabolic process	cytosol	nicotinamide N-methyltransferase activity|pyridine N-methyltransferase activity			ovary(1)	1		all_cancers(61;4.83e-16)|all_epithelial(67;7.28e-09)|all_hematologic(158;0.000135)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.79e-06)|Epithelial(105;1.32e-05)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.128)	Niacin(DB00627)	GGGCCGTCCCCTTACCCCCGG	0.627													4	33					0	0	0.001168	0	0		T	114182863	T	T	114182863	2	4	4	1	0	0	0	0	0	0	0	1	10528	668	24	4		4	NNMT	11	114182863	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	531735	114182863	20823653	2666	4632											
RBM7	10179	broad.mit.edu	37	chr11	114278293	114278293	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagtcttcaagctcccagTggcgccaaggtacaccatca	11	8	8	14	1	4	0	3	0	1	0	5	0	5	0	3	2	2	2	3	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:114278293T>C	uc001pov.2	+	5	575	c.565T>C	c.(565-567)TGG>CGG	p.W189R	RBM7_uc001pow.2_Missense_Mutation_p.W190R|RBM7_uc001pox.2_Missense_Mutation_p.W69R	NM_016090	NP_057174	Q9Y580	RBM7_HUMAN	RNA binding motif protein 7	189					meiosis		nucleotide binding|protein binding|RNA binding			ovary(2)	2		all_cancers(61;5.06e-12)|all_epithelial(67;5.3e-06)|all_hematologic(158;7.68e-05)|Acute lymphoblastic leukemia(157;0.000966)|Melanoma(852;0.00153)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.0818)|Prostate(24;0.104)		BRCA - Breast invasive adenocarcinoma(274;2.56e-06)|Epithelial(105;4.17e-05)|all cancers(92;0.000348)		AAGCTCCCAGTGGCGCCAAGG	0.428													35	61					0	0	0.005524	0	0		C	114278293	C	C	114278293	3	2	4	1	0	0	0	0	1	0	0	0	13170	1696	59	3	583	3	RBM7	11	114278293	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	95430	114278293	20728223	2667	4633											
APOA5	116519	broad.mit.edu	37	chr11	116661211	116661211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtccaggttctgctggatgCgtgcgtgcagggccttggcc	3	10	17	11	2	1	0	0	0	1	0	2	1	2	1	3	5	4	3	3	5	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:116661211C>T	uc001ppr.2	-	3	742	c.734G>A	c.(733-735)CGC>CAC	p.R245H	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Missense_Mutation_p.R245H|APOA5_uc009yzf.2_Missense_Mutation_p.R245H|APOA5_uc009yzg.2_Missense_Mutation_p.R271H	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	245	Potential.				acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		CTGCTGGATGCGTGCGTGCAG	0.697													4	15					0	0	0.000602	0	0		T	116661211	T	T	116661211	3	4	4	1	0	0	0	0	1	0	0	0	784	768	27	1	370	1	APOA5	11	116661211	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2382918	116661211	18345305	2668	4634											
CEP164	22897	broad.mit.edu	37	chr11	117253605	117253605	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcaggaagaggcagaGgatcctgaggagaaggtggc	11	4	19	7	0	0	4	0	1	0	3	1	7	1	6	2	7	0	2	2	7	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:117253605G>T	uc001prc.2	+	14	1818	c.1671G>T	c.(1669-1671)GAG>GAT	p.E557D	CEP164_uc001prb.2_Missense_Mutation_p.E560D|CEP164_uc010rxk.1_Missense_Mutation_p.E531D|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_5'Flank	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	557	Glu-rich.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		AAGAGGCAGAGGATCCTGAGG	0.637													8	20					1.06961e-07	1.14085e-07	0.00308	1	0		T	117253605	T	T	117253605	3	4	4	1	0	0	0	0	1	0	0	0	3252	991	35	5	1717	5	CEP164	11	117253605	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	592394	117253605	17752911	2669	4635											
DSCAML1	57453	broad.mit.edu	37	chr11	117308798	117308798	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgagtactgtagcacgaaGcctgcggagggtaggcctga	10	6	15	10	3	0	1	0	1	0	0	0	4	0	2	3	3	4	4	3	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:117308798G>A	uc001prh.1	-	25	4427	c.4425C>T	c.(4423-4425)GGC>GGT	p.G1475G		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1415	Fibronectin type-III 5.|Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GTAGCACGAAGCCTGCGGAGG	0.632													5	20					0	0	0.001984	0	0		A	117308798	A	A	117308798	2	1	4	1	0	0	0	0	0	0	0	1	4775	985	34	2		2	DSCAML1	11	117308798	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	55193	117308798	17697718	2670	4636											
DSCAML1	57453	broad.mit.edu	37	chr11	117332302	117332302	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggacgttctcagggggCtggctgggcactgcaggggg	4	6	20	11	2	1	0	1	0	1	0	2	1	1	1	1	7	1	5	1	7	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:117332302C>A	uc001prh.1	-	18	3458	c.3456G>T	c.(3454-3456)CAG>CAT	p.Q1152H		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1092	Fibronectin type-III 3.|Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TCTCAGGGGGCTGGCTGGGCA	0.627													13	31					7.93312e-07	8.4236e-07	0.00245	1	0		A	117332302	A	A	117332302	3	1	4	1	0	0	0	0	1	0	0	0	4775	796	28	5	2949	5	DSCAML1	11	117332302	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	23504	117332302	17674214	2671	4637											
TMPRSS13	84000	broad.mit.edu	37	chr11	117787928	117787928	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggcaatgaggaggagcacGcacccgatgagcggtagctg	11	4	17	9	3	0	2	0	2	0	0	0	5	0	4	1	4	3	5	1	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:117787928G>A	uc001prs.1	-	3	606	c.513C>T	c.(511-513)TGC>TGT	p.C171C	TMPRSS13_uc009yzr.1_Intron|TMPRSS13_uc001prt.1_5'UTR|TMPRSS13_uc001pru.1_Silent_p.C171C	NM_001077263	NP_001070731	Q9BYE2	TMPSD_HUMAN	transmembrane protease, serine 13	166	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			pancreas(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.00106)		GGAGGAGCACGCACCCGATGA	0.627													10	20					0	0	0.000978	0	0		A	117787928	A	A	117787928	2	1	4	1	0	0	0	0	0	0	0	1	16270	1079	38	1		1	TMPRSS13	11	117787928	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	455626	117787928	17218588	2672	4638											
MLL	4297	broad.mit.edu	37	chr11	118369241	118369241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcgggatttgatcaaaggcGaagtgagagagctttagttg	12	11	14	4	2	1	3	1	2	0	1	2	6	1	4	0	2	1	2	0	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:118369241G>A	uc001pta.2	+	22	5973	c.5950G>A	c.(5950-5952)GAA>AAA	p.E1984K	MLL_uc001ptb.2_Missense_Mutation_p.E1987K	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1984					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GATCAAAGGCGAAGTGAGAGA	0.264			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								28	140					0	0	0.007291	0	0		A	118369241	A	A	118369241	3	1	4	1	0	0	0	0	1	0	0	0	9638	1059	37	1	6036	1	MLL	11	118369241	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	581313	118369241	16637275	2673	4639											
MLL	4297	broad.mit.edu	37	chr11	118373253	118373253	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactccggataatgtctccaAtgagaactgggaatacttac	14	10	8	9	1	1	1	0	1	1	1	3	4	2	3	2	2	4	0	2	2	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:118373253A>G	uc001pta.2	+	27	6660	c.6637A>G	c.(6637-6639)ATG>GTG	p.M2213V	MLL_uc001ptb.2_Missense_Mutation_p.M2216V	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2213					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		AATGTCTCCAATGAGAACTGG	0.478			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								10	57					0	0	0.001368	0	0		G	118373253	G	G	118373253	3	3	4	1	0	0	0	0	1	0	0	0	9638	101	4	3	6743	3	MLL	11	118373253	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	4012	118373253	16633263	2674	4640											
PHLDB1	23187	broad.mit.edu	37	chr11	118501928	118501928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccatcctccccaggaacGccagcgcctggagaccatcc	8	6	9	18	2	0	1	0	0	0	1	4	3	4	2	8	2	2	0	8	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:118501928G>A	uc001ptr.1	+	8	2185	c.1832G>A	c.(1831-1833)CGC>CAC	p.R611H	PHLDB1_uc001pts.2_Missense_Mutation_p.R611H|PHLDB1_uc001ptt.2_Missense_Mutation_p.R611H|PHLDB1_uc001ptu.1_Intron|PHLDB1_uc001ptv.1_Missense_Mutation_p.R411H|PHLDB1_uc001ptw.1_Missense_Mutation_p.R13H|PHLDB1_uc009zai.1_5'Flank|PHLDB1_uc001ptx.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	611											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CCCCAGGAACGCCAGCGCCTG	0.632													12	166					0	0	0.004007	0	0		A	118501928	A	A	118501928	3	1	4	1	0	0	0	0	1	0	0	0	11870	1087	38	1	1854	1	PHLDB1	11	118501928	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	128675	118501928	16504588	2675	4641											
PHLDB1	23187	broad.mit.edu	37	chr11	118512986	118512986	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccagatggagaagctgctGctccctgctgtagacttaga	9	10	11	11	0	0	4	0	0	0	4	2	5	2	4	2	1	4	5	2	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:118512986G>A	uc001ptr.1	+	14	3104	c.2751G>A	c.(2749-2751)CTG>CTA	p.L917L	PHLDB1_uc001pts.2_Silent_p.L917L|PHLDB1_uc001ptt.2_Intron|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Silent_p.L717L|PHLDB1_uc001ptw.1_Intron|PHLDB1_uc009zai.1_Intron|PHLDB1_uc001ptx.1_Intron|PHLDB1_uc010ryi.1_Silent_p.L60L|PHLDB1_uc010ryj.1_Silent_p.L55L	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	917											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		AGAAGCTGCTGCTCCCTGCTG	0.517													12	42					0	0	0.00499	0	0		A	118512986	A	A	118512986	2	1	4	1	0	0	0	0	0	0	0	1	11870	1306	46	2		2	PHLDB1	11	118512986	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11058	118512986	16493530	2676	4642											
HYOU1	10525	broad.mit.edu	37	chr11	118921765	118921765	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctgtctagactgagcacGccactctcatccaggttgaa	10	9	8	14	1	2	3	1	2	2	1	4	3	3	3	3	1	1	2	3	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:118921765G>A	uc001puu.2	-	14	1840	c.1647C>T	c.(1645-1647)GGC>GGT	p.G549G	HYOU1_uc001put.2_Silent_p.G514G|HYOU1_uc010ryu.1_Silent_p.G569G|HYOU1_uc010ryv.1_Silent_p.G438G|HYOU1_uc001pux.3_Silent_p.G549G|HYOU1_uc010ryw.1_RNA|HYOU1_uc001puw.1_Silent_p.G549G	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	549						endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)		GACTGAGCACGCCACTCTCAT	0.537													9	37					0	0	0.004482	0	0		A	118921765	A	A	118921765	2	1	4	1	0	0	0	0	0	0	0	1	7486	1074	38	1		1	HYOU1	11	118921765	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	408779	118921765	16084751	2677	4643											
VPS11	55823	broad.mit.edu	37	chr11	118949009	118949009	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgacacactccttgagctgCgactgcagaactgggcccac	10	6	10	15	2	0	2	0	1	0	1	1	4	1	2	2	1	4	2	2	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:118949009C>T	uc010ryx.1	+	12	1930	c.1888C>T	c.(1888-1890)CGA>TGA	p.R630*	VPS11_uc010ryy.1_Nonsense_Mutation_p.R476*	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	630					protein transport	endocytic vesicle|HOPS complex|late endosome membrane|lysosomal membrane	nucleotide binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.88e-05)		CCTTGAGCTGCGACTGCAGAA	0.567													35	81					0	0	0.00623	0	0		T	118949009	T	T	118949009	4	4	4	1	0	0	0	0	0	1	0	0	17214	760	27	1	1929	1	VPS11	11	118949009	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	27244	118949009	16057507	2678	4644											
MFRP	83552	broad.mit.edu	37	chr11	119213674	119213674	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacagccagctcatggtgCgaggagacgaggtggggggg	9	4	20	8	2	1	1	1	0	0	1	1	4	1	1	1	6	4	2	1	6	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:119213674C>T	uc001pwj.2	-	10	1324	c.1164G>A	c.(1162-1164)TCG>TCA	p.S388S	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Missense_Mutation_p.R313H	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		GCTCATGGTGCGAGGAGACGA	0.617													7	6					0	0	0.001984	0	0		T	119213674	T	T	119213674	2	4	4	1	0	0	0	0	0	0	0	1	9544	755	27	1		1	MFRP	11	119213674	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	264665	119213674	15792842	2679	4645											
ARHGEF12	23365	broad.mit.edu	37	chr11	120317151	120317151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcctgaggatctgcatcGccactatatccaaactatgc	11	11	6	13	1	1	1	0	1	1	0	4	2	3	2	3	1	3	1	3	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:120317151G>A	uc001pxl.1	+	17	1392	c.1385G>A	c.(1384-1386)CGC>CAC	p.R462H	ARHGEF12_uc009zat.2_Missense_Mutation_p.R443H|ARHGEF12_uc010rzn.1_Missense_Mutation_p.R359H|ARHGEF12_uc009zau.1_Missense_Mutation_p.R359H	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	462	RGSL.				apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		GATCTGCATCGCCACTATATC	0.373			T	MLL	AML								13	59					0	0	0.00245	0	0		A	120317151	A	A	120317151	3	1	4	1	0	0	0	0	1	0	0	0	897	1087	38	1	1451	1	ARHGEF12	11	120317151	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1103477	120317151	14689365	2680	4646											
UBASH3B	84959	broad.mit.edu	37	chr11	122650347	122650347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgtaaaggaagacagtgCggaggtcctcaagaagtttg	12	10	13	6	1	1	2	1	0	0	2	2	4	2	4	1	3	1	2	1	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:122650347C>T	uc001pyi.3	+	4	905	c.545C>T	c.(544-546)GCG>GTG	p.A182V		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	182						cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		GAAGACAGTGCGGAGGTCCTC	0.562													17	63					0	0	0.007413	0	0		T	122650347	T	T	122650347	3	4	4	1	0	0	0	0	1	0	0	0	16866	768	27	1	559	1	UBASH3B	11	122650347	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2333196	122650347	12356169	2681	4647											
ASAM	79827	broad.mit.edu	37	chr11	122955287	122955287	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttaaccttacaggtgtaccgGccctcatcactgggcttcag	8	11	9	13	1	3	0	3	0	0	0	3	0	3	0	3	3	3	2	3	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:122955287G>A	uc001pyt.2	-	3	680	c.321C>T	c.(319-321)GGC>GGT	p.G107G		NM_024769	NP_079045	Q9H6B4	CLMP_HUMAN	adipocyte-specific adhesion molecule precursor	107	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane|tight junction					0		Breast(109;0.0025)|Lung NSC(97;0.0179)|all_lung(97;0.0182)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.73e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)		AGGTGTACCGGCCCTCATCAC	0.498													18	51					0	0	0.006122	0	0		A	122955287	A	A	122955287	2	1	4	1	0	0	0	0	0	0	0	1	1010	1190	42	2		2	ASAM	11	122955287	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	304940	122955287	12051229	2682	4648											
GRAMD1B	57476	broad.mit.edu	37	chr11	123479434	123479434	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgaagtcttcaacttcagCgtggacaagctctatgacct	12	11	8	10	1	4	2	2	2	2	0	4	3	4	3	1	1	3	1	1	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:123479434C>T	uc001pyx.2	+	11	1481	c.1152C>T	c.(1150-1152)AGC>AGT	p.S384S	GRAMD1B_uc001pyw.2_Silent_p.S391S|GRAMD1B_uc010rzw.1_Silent_p.S344S|GRAMD1B_uc010rzx.1_Silent_p.S344S|GRAMD1B_uc009zbe.1_Silent_p.S380S|GRAMD1B_uc001pyy.2_Silent_p.S75S	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	384						integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		TCAACTTCAGCGTGGACAAGC	0.542													5	18					0	0	0.001168	0	0		T	123479434	T	T	123479434	2	4	4	1	0	0	0	0	0	0	0	1	6764	767	27	1		1	GRAMD1B	11	123479434	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	524147	123479434	11527082	2683	4649											
ZNF202	7753	broad.mit.edu	37	chr11	123596942	123596942	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgggtgaagcagcgcccGcactcgctgcagaggtagag	8	6	16	11	3	0	3	0	1	0	2	1	3	0	3	1	2	3	5	1	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:123596942G>A	uc001pzd.1	-	9	2110	c.1710C>T	c.(1708-1710)TGC>TGT	p.C570C	ZNF202_uc001pzc.1_Silent_p.C346C|ZNF202_uc001pze.1_Silent_p.C570C|ZNF202_uc001pzf.1_Silent_p.C570C	NM_003455	NP_003446	O95125	ZN202_HUMAN	zinc finger protein 202	570	C2H2-type 6.				lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.03)		AGCAGCGCCCGCACTCGCTGC	0.607													7	31					0	0	0.00308	0	0		A	123596942	A	A	123596942	2	1	4	1	0	0	0	0	0	0	0	1	17788	1079	38	1		1	ZNF202	11	123596942	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	117508	123596942	11409574	2684	4650											
OR6M1	390261	broad.mit.edu	37	chr11	123676505	123676505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggtgagtatttatacaggCcacctgaagaagaggggcaa	14	7	14	6	0	0	4	0	2	0	2	0	5	0	4	2	4	1	2	2	4	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:123676505C>T	uc010rzz.1	-	1	553	c.553G>A	c.(553-555)GCC>ACC	p.A185T		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		TTTATACAGGCCACCTGAAGA	0.443													10	46					0	0	0.008291	0	0		T	123676505	T	T	123676505	3	4	4	1	0	0	0	0	1	0	0	0	11224	739	26	2	391	2	OR6M1	11	123676505	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	79563	123676505	11330011	2685	4651											
OR10G8	219869	broad.mit.edu	37	chr11	123900389	123900389	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccttccccatgccccagcGctggacgcccccctctttgg	3	8	10	20	2	1	0	0	0	1	0	2	1	2	1	8	3	2	1	8	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:123900389G>A	uc001pzp.1	+	1	60	c.60G>A	c.(58-60)GCG>GCA	p.A20A		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		ATGCCCCAGCGCTGGACGCCC	0.572													26	108					0	0	0.008361	0	0		A	123900389	A	A	123900389	2	1	4	1	0	0	0	0	0	0	0	1	10922	1074	38	1		1	OR10G8	11	123900389	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	223884	123900389	11106127	2686	4652											
OR10G8	219869	broad.mit.edu	37	chr11	123900887	123900887	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgcccatcctgaaactGgcctgtgcagacacctcagc	9	6	9	17	1	1	2	1	1	0	1	2	2	2	2	5	1	3	2	5	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:123900887G>C	uc001pzp.1	+	1	558	c.558G>C	c.(556-558)CTG>CTC	p.L186L		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		TCCTGAAACTGGCCTGTGCAG	0.512													8	128					0	0	0.008291	0	0		C	123900887	C	C	123900887	2	2	4	1	0	0	0	0	0	0	0	1	10922	1335	47	5		5	OR10G8	11	123900887	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	498	123900887	11105629	2687	4653											
OR8B3	390271	broad.mit.edu	37	chr11	124266483	124266483	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttaatatacatgaatgcCgctgacccaaaaaacagaga	18	9	6	8	1	0	3	0	2	0	1	0	4	0	3	2	0	3	1	2	0	8	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124266483C>T	uc010saj.1	-	1	765	c.765G>A	c.(763-765)GCG>GCA	p.A255A	OR8B2_uc001qab.3_Intron	NM_001005467	NP_001005467	Q8NGG8	OR8B3_HUMAN	olfactory receptor, family 8, subfamily B,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		ACATGAATGCCGCTGACCCAA	0.398													36	72					0	0	0.00361	0	0		T	124266483	T	T	124266483	2	4	4	1	0	0	0	0	0	0	0	1	11247	639	23	1		1	OR8B3	11	124266483	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	365596	124266483	10740033	2688	4654											
OR8B8	26493	broad.mit.edu	37	chr11	124310510	124310510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catcatgcacgctgtgtgggCcatggccccagcaaacccca	9	6	10	16	1	1	0	1	0	0	0	1	0	1	0	5	2	3	3	5	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124310510C>T	uc010sal.1	-	1	472	c.472G>A	c.(472-474)GCC>ACC	p.A158T		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GCTGTGTGGGCCATGGCCCCA	0.527													21	54					0	0	0.010504	0	0		T	124310510	T	T	124310510	3	4	4	1	0	0	0	0	1	0	0	0	11249	739	26	2	466	2	OR8B8	11	124310510	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	44027	124310510	10696006	2689	4655											
ESAM	90952	broad.mit.edu	37	chr11	124623849	124623849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcagggtccggggagcaatgGcatcctccctagtcatcaaa	10	7	12	12	1	2	0	2	0	0	0	5	1	5	1	3	4	1	3	3	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124623849G>A	uc001qav.3	-	7	1039	c.866C>T	c.(865-867)GCC>GTC	p.A289V	VSIG2_uc001qas.2_5'Flank|VSIG2_uc001qat.2_5'Flank|ESAM_uc010sao.1_Intron|ESAM_uc001qau.3_Missense_Mutation_p.A216V|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Missense_Mutation_p.P288S	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	289	Cytoplasmic (Potential).				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		GGGAGCAATGGCATCCTCCCT	0.562													4	10					0	0	0.001168	0	0		A	124623849	A	A	124623849	3	1	4	1	0	0	0	0	1	0	0	0	5255	1203	42	2	310	2	ESAM	11	124623849	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	313339	124623849	10382667	2690	4656											
ESAM	90952	broad.mit.edu	37	chr11	124624540	124624540	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttacccctcactgacctgTgctcacttccagcgtcacat	8	11	5	17	1	3	1	3	1	0	0	4	1	4	1	4	0	3	1	4	0	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124624540T>C	uc001qav.3	-	5	900	c.727A>G	c.(727-729)ACA>GCA	p.T243A	VSIG2_uc001qas.2_5'Flank|VSIG2_uc001qat.2_5'Flank|ESAM_uc010sao.1_Missense_Mutation_p.T64A|ESAM_uc001qau.3_Missense_Mutation_p.T170A|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Missense_Mutation_p.T243A	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	243	Extracellular (Potential).				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		CACTGACCTGTGCTCACTTCC	0.557													37	110					0	0	0.00623	0	0		C	124624540	C	C	124624540	3	2	4	1	0	0	0	0	1	0	0	0	5255	1696	59	3	457	3	ESAM	11	124624540	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	691	124624540	10381976	2691	4657											
ROBO3	64221	broad.mit.edu	37	chr11	124735609	124735609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgctcaaccacaccctgctgCctcccggcgatccctctctc	5	8	6	22	3	2	0	1	0	1	0	6	1	4	0	5	1	3	2	5	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124735609C>T	uc001qbc.2	+	1	328	c.136C>T	c.(136-138)CCT>TCT	p.P46S		NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	46	Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		CACCCTGCTGCCTCCCGGCGA	0.632											OREG0021466	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	7					0	0	0.009096	0	0		T	124735609	T	T	124735609	3	4	4	1	0	0	0	0	1	0	0	0	13540	739	26	2	138	2	ROBO3	11	124735609	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	111069	124735609	10270907	2692	4658											
ROBO3	64221	broad.mit.edu	37	chr11	124749437	124749437	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgattccggaagaaacccaaGgctcttccctacaggaggga	12	6	11	12	2	1	1	0	0	1	1	3	5	3	4	3	4	2	1	3	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124749437G>T	uc001qbc.2	+	25	3954	c.3762G>T	c.(3760-3762)AAG>AAT	p.K1254N	ROBO3_uc001qbd.2_Missense_Mutation_p.K179N|ROBO3_uc010sar.1_Missense_Mutation_p.K303N|ROBO3_uc001qbe.2_Missense_Mutation_p.K179N|ROBO3_uc001qbf.1_Missense_Mutation_p.K138N	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	1254	Cytoplasmic (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		AGAAACCCAAGGCTCTTCCCT	0.602													5	16					1.26484e-09	1.35768e-09	0.00308	1	0		T	124749437	T	T	124749437	3	4	4	1	0	0	0	0	1	0	0	0	13540	991	35	5	3860	5	ROBO3	11	124749437	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	13828	124749437	10257079	2693	4659											
SLC37A2	219855	broad.mit.edu	37	chr11	124955002	124955002	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcctggtcaatggcccataCgcgctcatcaccactgctgt	7	9	10	15	2	3	0	3	0	0	0	3	0	3	0	3	3	2	2	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124955002C>T	uc001qbn.2	+	14	1466	c.1215C>T	c.(1213-1215)TAC>TAT	p.Y405Y	SLC37A2_uc010sau.1_Silent_p.Y405Y|SLC37A2_uc010sav.1_Silent_p.Y30Y|SLC37A2_uc001qbp.2_Silent_p.Y30Y	NM_001145290	NP_001138762	Q8TED4	SPX2_HUMAN	solute carrier family 37 (glycerol-3-phosphate	405	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane				ovary(2)	2	all_hematologic(175;0.215)	Breast(109;0.012)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.152)|all_lung(97;0.159)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0384)		ATGGCCCATACGCGCTCATCA	0.627													11	26					0	0	0.001368	0	0		T	124955002	T	T	124955002	2	4	4	1	0	0	0	0	0	0	0	1	14623	547	19	1		1	SLC37A2	11	124955002	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	205565	124955002	10051514	2694	4660											
PKNOX2	63876	broad.mit.edu	37	chr11	125267792	125267792	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaggcaatccaggtccTgagaatccacctgctggagc	10	7	13	11	0	0	2	0	2	0	1	3	4	3	3	4	4	2	2	4	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:125267792T>C	uc001qbu.2	+	7	736	c.422T>C	c.(421-423)CTG>CCG	p.L141P	PKNOX2_uc010saz.1_Missense_Mutation_p.L112P|PKNOX2_uc010sba.1_Missense_Mutation_p.L112P|PKNOX2_uc010sbb.1_Missense_Mutation_p.L77P	NM_022062	NP_071345	Q96KN3	PKNX2_HUMAN	PBX/knotted 1 homeobox 2	141						nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(109;0.00234)|all_lung(97;0.0191)|Lung NSC(97;0.0196)|Medulloblastoma(222;0.0447)|all_neural(223;0.116)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.117)		ATCCAGGTCCTGAGAATCCAC	0.547													5	103					0	0	0.000602	0	0		C	125267792	C	C	125267792	3	2	4	1	0	0	0	0	1	0	0	0	12002	1580	55	3	436	3	PKNOX2	11	125267792	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	312790	125267792	9738724	2695	4661											
CDON	50937	broad.mit.edu	37	chr11	125853941	125853941	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccaaagaatttggaggggTactcaagtctttgacaggat	12	11	11	7	0	2	2	1	1	1	1	3	4	3	4	1	4	1	1	1	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:125853941T>C	uc009zbw.2	-	16	2949	c.2821A>G	c.(2821-2823)ACC>GCC	p.T941A	CDON_uc001qdb.3_Missense_Mutation_p.T318A|CDON_uc001qdc.3_Missense_Mutation_p.T941A	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	941	Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		TTTGGAGGGGTACTCAAGTCT	0.458													17	32					0	0	0.008871	0	0		C	125853941	C	C	125853941	3	2	4	1	0	0	0	0	1	0	0	0	3173	1638	57	3	993	3	CDON	11	125853941	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	586149	125853941	9152575	2696	4662											
FOXRED1	55572	broad.mit.edu	37	chr11	126144908	126144908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagagggagtggctttggCgtcttatggtgaggcttgct	6	12	16	7	1	1	2	0	1	1	1	1	3	1	3	0	5	1	3	0	5	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:126144908C>T	uc001qdi.2	+	5	670	c.623C>T	c.(622-624)GCG>GTG	p.A208V	FOXRED1_uc010sbn.1_Missense_Mutation_p.A38V|FOXRED1_uc010sbo.1_Intron|FOXRED1_uc010sbp.1_Missense_Mutation_p.A21V|FOXRED1_uc010sbq.1_Missense_Mutation_p.A75V|FOXRED1_uc001qdj.2_Intron|FOXRED1_uc010sbr.1_Missense_Mutation_p.A194V|FOXRED1_uc001qdk.2_Intron	NM_017547	NP_060017	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing	208						integral to membrane|mitochondrion	oxidoreductase activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)		GTGGCTTTGGCGTCTTATGGT	0.517													9	33					0	0	0.008291	0	0		T	126144908	T	T	126144908	3	4	4	1	0	0	0	0	1	0	0	0	6047	768	27	1	641	1	FOXRED1	11	126144908	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	290967	126144908	8861608	2697	4663											
ETS1	2113	broad.mit.edu	37	chr11	128350146	128350146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccttattgaggtcagcacGgtcccgcacatagtccttga	8	11	10	12	2	1	2	1	2	0	0	4	2	4	2	3	2	1	2	3	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:128350146G>A	uc010sbs.1	-	6	1247	c.931C>T	c.(931-933)CGT>TGT	p.R311C	ETS1_uc001qej.2_Missense_Mutation_p.R355C|ETS1_uc009zch.2_Missense_Mutation_p.R95C|ETS1_uc009zcg.2_Intron	NM_005238	NP_005229	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	311					cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)		AGGTCAGCACGGTCCCGCACA	0.597													8	17					0	0	0.004482	0	0		A	128350146	A	A	128350146	3	1	4	1	0	0	0	0	1	0	0	0	5283	1116	39	1	406	1	ETS1	11	128350146	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2205238	128350146	6656370	2698	4664											
C11orf45	219833	broad.mit.edu	37	chr11	128773396	128773396	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaccctcactcctgacagaGgcagacctgccttagatgaa	11	9	8	13	0	1	5	1	2	0	3	2	5	2	5	4	1	2	1	4	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:128773396G>T	uc001qeu.2	-	3	341	c.147C>A	c.(145-147)GCC>GCA	p.A49A	KCNJ5_uc001qet.2_Intron|KCNJ5_uc009zck.2_Intron|C11orf45_uc009zcl.2_Silent_p.A49A|C11orf45_uc001qev.2_Silent_p.A49A	NM_145013	NP_659450	Q8TAV5	CK045_HUMAN	hypothetical protein LOC219833 precursor	49						extracellular region					0	all_hematologic(175;0.0641)	Lung NSC(97;0.00521)|Breast(109;0.00715)|all_lung(97;0.0111)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.00531)|LUSC - Lung squamous cell carcinoma(976;0.0193)|Lung(977;0.0195)		TCCTGACAGAGGCAGACCTGC	0.512													6	24					5.18039e-06	5.47617e-06	0.00308	1	0		T	128773396	T	T	128773396	2	4	4	1	0	0	0	0	0	0	0	1	1645	987	35	5		5	C11orf45	11	128773396	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	423250	128773396	6233120	2699	4665											
ARHGAP32	9743	broad.mit.edu	37	chr11	128993351	128993351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcagtatacctgtatgctgCcgaactcaacattctcataa	12	13	5	11	1	3	0	3	0	1	0	4	1	3	0	2	0	5	3	2	0	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:128993351C>T	uc009zcp.2	-	4	392	c.392G>A	c.(391-393)GGC>GAC	p.G131D	ARHGAP32_uc009zcq.1_Missense_Mutation_p.G91D	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	131	PX; atypical.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						CTGTATGCTGCCGAACTCAAC	0.323													10	31					0	0	0.001368	0	0		T	128993351	T	T	128993351	3	4	4	1	0	0	0	0	1	0	0	0	881	739	26	2	5947	2	ARHGAP32	11	128993351	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	219955	128993351	6013165	2700	4666											
TMEM45B	120224	broad.mit.edu	37	chr11	129722528	129722528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctcgagatcgtcgaagccGcaattaggactttgttttcc	8	13	10	10	4	1	1	0	0	1	1	5	4	2	2	2	1	1	2	2	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:129722528G>A	uc001qfe.1	+	2	212	c.151G>A	c.(151-153)GCA>ACA	p.A51T	TMEM45B_uc001qff.1_Missense_Mutation_p.A51T	NM_138788	NP_620143	Q96B21	TM45B_HUMAN	transmembrane protein 45B	51	Helical; (Potential).					integral to membrane					0	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.012)|Lung(977;0.179)|LUSC - Lung squamous cell carcinoma(976;0.189)		CGTCGAAGCCGCAATTAGGAC	0.488													17	48					0	0	0.001882	0	0		A	129722528	A	A	129722528	3	1	4	1	0	0	0	0	1	0	0	0	16195	1087	38	1	153	1	TMEM45B	11	129722528	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	729177	129722528	5283988	2701	4667											
NFRKB	4798	broad.mit.edu	37	chr11	129740016	129740016	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggagtgattcgcagaacCgtctggcccttggcatctgt	6	11	12	12	3	2	2	0	1	2	1	4	3	3	3	3	3	1	2	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:129740016C>T	uc001qfi.2	-	24	3105	c.2904G>A	c.(2902-2904)ACG>ACA	p.T968T	NFRKB_uc001qfg.2_Silent_p.T993T|NFRKB_uc001qfh.2_Silent_p.T991T|NFRKB_uc010sbw.1_Silent_p.T978T|NFRKB_uc009zcr.2_Silent_p.T254T	NM_001143835	NP_001137307	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein	968					DNA recombination|DNA repair|inflammatory response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Ino80 complex	DNA binding|protease binding			ovary(3)	3	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0167)|Lung(977;0.171)|LUSC - Lung squamous cell carcinoma(976;0.184)		TTCGCAGAACCGTCTGGCCCT	0.552													7	88					0	0	0.006214	0	0		T	129740016	T	T	129740016	2	4	4	1	0	0	0	0	0	0	0	1	10403	639	23	1		1	NFRKB	11	129740016	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	17488	129740016	5266500	2702	4668											
PRDM10	56980	broad.mit.edu	37	chr11	129817095	129817095	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcccagtcatccagatcCgtgtcctcaccgtcttcttc	5	12	7	17	2	4	1	2	0	2	1	9	1	8	1	5	1	0	1	5	1	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:129817095C>T	uc001qfm.2	-	5	697	c.465G>A	c.(463-465)ACG>ACA	p.T155T	PRDM10_uc001qfj.2_Silent_p.T69T|PRDM10_uc001qfk.2_Silent_p.T69T|PRDM10_uc001qfl.2_Silent_p.T69T|PRDM10_uc010sbx.1_Silent_p.T69T|PRDM10_uc001qfn.2_Silent_p.T155T|PRDM10_uc009zct.1_Silent_p.T187T	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		CATCCAGATCCGTGTCCTCAC	0.597													5	38					0	0	0.001168	0	0		T	129817095	T	T	129817095	2	4	4	1	0	0	0	0	0	0	0	1	12473	639	23	1		1	PRDM10	11	129817095	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	77079	129817095	5189421	2703	4669											
ZBTB44	29068	broad.mit.edu	37	chr11	130108387	130108387	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctgaatacgggtgaatcGcaccccgcaggttggacact	9	9	12	11	3	1	2	0	2	1	0	2	3	1	3	2	3	1	4	2	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:130108387G>A	uc001qga.2	-	4	1613	c.1219C>T	c.(1219-1221)CGA>TGA	p.R407*	ZBTB44_uc001qgb.3_Nonsense_Mutation_p.R407*|ZBTB44_uc001qfx.2_RNA|ZBTB44_uc001qfz.2_Nonsense_Mutation_p.R407*	NM_014155	NP_054874	Q8NCP5	ZBT44_HUMAN	zinc finger and BTB domain containing 44	407	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0192)|Lung(977;0.235)		CGGGTGAATCGCACCCCGCAG	0.493													5	13					0	0	0.000602	0	0		A	130108387	A	A	130108387	4	1	4	1	0	0	0	0	0	1	0	0	17570	1095	38	1	154	1	ZBTB44	11	130108387	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	291292	130108387	4898129	2704	4670											
ADAMTS15	170689	broad.mit.edu	37	chr11	130341117	130341117	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcaggtggtggacggcacGctgtgctctcctgactccac	5	9	13	14	2	1	1	0	1	1	0	3	2	2	2	2	4	2	4	2	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:130341117G>A	uc010scd.1	+	7	1917	c.1917G>A	c.(1915-1917)ACG>ACA	p.T639T		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	639	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		TGGACGGCACGCTGTGCTCTC	0.577													11	33					0	0	0.001368	0	0		A	130341117	A	A	130341117	2	1	4	1	0	0	0	0	0	0	0	1	260	1074	38	1		1	ADAMTS15	11	130341117	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	232730	130341117	4665399	2705	4671											
IGSF9B	22997	broad.mit.edu	37	chr11	133791085	133791085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgatgagctcgatgggCgtggtggcctctgcctcggc	3	10	16	12	3	1	2	0	2	1	0	3	3	1	2	2	4	3	2	2	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:133791085C>T	uc001qgx.3	-	18	2766	c.2535G>A	c.(2533-2535)ACG>ACA	p.T845T		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	845	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		GCTCGATGGGCGTGGTGGCCT	0.642													4	22					0	0	0.001168	0	0		T	133791085	T	T	133791085	2	4	4	1	0	0	0	0	0	0	0	1	7622	755	27	1		1	IGSF9B	11	133791085	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3449968	133791085	1215431	2706	4672											
IGSF9B	22997	broad.mit.edu	37	chr11	133794728	133794728	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatacctgtgctggagacGccggcgatgttgctgggctc	8	9	14	10	3	0	1	0	0	0	1	1	3	0	1	2	3	3	4	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:133794728G>A	uc001qgx.3	-	15	2337	c.2106C>T	c.(2104-2106)GGC>GGT	p.G702G	IGSF9B_uc001qgy.1_Silent_p.G544G	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	702	Fibronectin type-III 2.|Extracellular (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		TGCTGGAGACGCCGGCGATGT	0.562													10	65					0	0	0.00499	0	0		A	133794728	A	A	133794728	2	1	4	1	0	0	0	0	0	0	0	1	7622	1074	38	1		1	IGSF9B	11	133794728	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3643	133794728	1211788	2707	4673											
GLB1L2	89944	broad.mit.edu	37	chr11	134240273	134240273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacctgtctctgtgggacGccctcaagtacctgggggag	6	10	14	11	1	2	0	1	0	1	0	3	2	2	2	3	3	2	2	3	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:134240273G>A	uc001qhp.2	+	12	1383	c.1195G>A	c.(1195-1197)GCC>ACC	p.A399T	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	399					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		TCTGTGGGACGCCCTCAAGTA	0.612													23	67					0	0	0.005443	0	0		A	134240273	A	A	134240273	3	1	4	1	0	0	0	0	1	0	0	0	6444	1087	38	1	1241	1	GLB1L2	11	134240273	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	445545	134240273	766243	2708	4674											
GLB1L2	89944	broad.mit.edu	37	chr11	134244527	134244527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggggttgtattcatcaatgGccagaaccttggacgttact	9	12	12	8	1	2	1	2	0	0	1	2	2	2	2	2	4	2	3	2	4	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:134244527G>A	uc001qhp.2	+	18	1927	c.1739G>A	c.(1738-1740)GGC>GAC	p.G580D	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	580					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		TTCATCAATGGCCAGAACCTT	0.547													6	117					0	0	0.004482	0	0		A	134244527	A	A	134244527	3	1	4	1	0	0	0	0	1	0	0	0	6444	1203	42	2	1809	2	GLB1L2	11	134244527	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4254	134244527	761989	2709	4675											
GLB1L2	89944	broad.mit.edu	37	chr11	134244570	134244570	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacattggaccccagaagacGctttacctcccaggtccctg	10	8	8	15	1	0	2	0	0	0	2	2	3	2	3	5	2	2	1	5	2	3	3	rs145307661		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:134244570G>A	uc001qhp.2	+	18	1970	c.1782G>A	c.(1780-1782)ACG>ACA	p.T594T	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	594					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		CCCAGAAGACGCTTTACCTCC	0.582													22	95					0	0	0.001882	0	0		A	134244570	A	A	134244570	2	1	4	1	0	0	0	0	0	0	0	1	6444	1074	38	1		1	GLB1L2	11	134244570	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	43	134244570	761946	2710	4676											
IQSEC3	440073	broad.mit.edu	37	chr12	266244	266244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagctggacgaggccctgcGcaagttccaggcacacatcc	9	5	13	14	2	0	0	0	0	0	0	2	3	2	2	3	4	2	4	3	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:266244G>A	uc001qhw.1	+	3	1304	c.1298G>A	c.(1297-1299)CGC>CAC	p.R433H	IQSEC3_uc001qhu.1_Missense_Mutation_p.R433H	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	736	SEC7.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		GAGGCCCTGCGCAAGTTCCAG	0.637													4	7					0	0	0.009096	0	0		A	266244	A	A	266244	3	1	4	1	0	0	0	0	1	0	0	0	7835	1087	38	1	2229	1	IQSEC3	12	266244	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08		266244	133585651	2711	4677											
KDM5A	5927	broad.mit.edu	37	chr12	416652	416652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attggcagctgctttttggaGttctgcactgatgatctttt	6	18	10	7	0	2	2	0	2	2	0	2	3	2	3	0	2	3	5	0	2	0	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:416652G>A	uc001qif.1	-	23	4261	c.3898C>T	c.(3898-3900)CTC>TTC	p.L1300F	KDM5A_uc001qie.1_Missense_Mutation_p.L1300F	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	1300					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						GCTTTTTGGAGTTCTGCACTG	0.413			T 	NUP98	AML								12	30					0	0	0.000978	0	0		A	416652	A	A	416652	3	1	4	1	0	0	0	0	1	0	0	0	8149	1029	36	4	1198	4	KDM5A	12	416652	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	150408	416652	133435243	2712	4678											
B4GALNT3	283358	broad.mit.edu	37	chr12	654106	654106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggaccaactatggcctccGcatctttggctacctgcacc	8	10	8	15	1	1	0	0	0	1	0	2	1	2	1	5	3	3	3	5	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:654106G>A	uc001qii.1	+	5	506	c.506G>A	c.(505-507)CGC>CAC	p.R169H	B4GALNT3_uc001qij.1_Missense_Mutation_p.R71H	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	169	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			TATGGCCTCCGCATCTTTGGC	0.527													27	38					0	0	0.009535	0	0		A	654106	A	A	654106	3	1	4	1	0	0	0	0	1	0	0	0	1269	1087	38	1	524	1	B4GALNT3	12	654106	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	237454	654106	133197789	2713	4679											
B4GALNT3	283358	broad.mit.edu	37	chr12	657408	657408	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttccagtggcgacggaaCgaccctggagccaagttcac	9	7	11	14	3	2	0	1	0	1	0	3	4	3	2	3	3	2	1	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:657408C>T	uc001qii.1	+	9	798	c.798C>T	c.(796-798)AAC>AAT	p.N266N	B4GALNT3_uc001qij.1_Silent_p.N168N	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	266	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			GGCGACGGAACGACCCTGGAG	0.592													15	53					0	0	0.00499	0	0		T	657408	T	T	657408	2	4	4	1	0	0	0	0	0	0	0	1	1269	535	19	1		1	B4GALNT3	12	657408	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3302	657408	133194487	2714	4680											
WNK1	65125	broad.mit.edu	37	chr12	966394	966394	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaattattgaaggatgcaTacgacaaaacaaagatgaaa	21	7	9	4	1	0	3	0	2	0	1	0	6	0	5	0	2	3	1	0	2	8	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:966394T>C	uc001qio.3	+	5	1886	c.1379T>C	c.(1378-1380)ATA>ACA	p.I460T	WNK1_uc001qip.3_Missense_Mutation_p.I460T	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	460	Protein kinase.				intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GAAGGATGCATACGACAAAAC	0.353													21	53					0	0	0.00278	0	0		C	966394	C	C	966394	3	2	4	1	0	0	0	0	1	0	0	0	17403	1406	49	3	1397	3	WNK1	12	966394	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	308986	966394	132885501	2715	4681											
ERC1	23085	broad.mit.edu	37	chr12	1137114	1137114	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggaaggtggagccgagcagCcagagccctgggcgttcacc	8	4	17	12	2	1	1	1	0	0	1	1	4	1	3	4	4	4	2	4	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:1137114C>T	uc001qjb.2	+	2	286	c.45C>T	c.(43-45)AGC>AGT	p.S15S	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Silent_p.S15S|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Silent_p.S15S	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	15					I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			AGCCGAGCAGCCAGAGCCCTG	0.557													29	51					0	0	0.002836	0	0		T	1137114	T	T	1137114	2	4	4	1	0	0	0	0	0	0	0	1	5218	738	26	2		2	ERC1	12	1137114	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	170720	1137114	132714781	2716	4682											
ERC1	23085	broad.mit.edu	37	chr12	1137664	1137664	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagctgaagaaggaacgaGccctgagaaaagatgaagct	17	4	13	7	1	0	6	0	3	0	4	0	9	0	7	1	1	4	2	1	1	6	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:1137664G>T	uc001qjb.2	+	2	836	c.595G>T	c.(595-597)GCC>TCC	p.A199S	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.A199S|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.A199S	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	199	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			GAAGGAACGAGCCCTGAGAAA	0.433													16	48					4.14922e-12	4.48789e-12	0.004007	1	0		T	1137664	T	T	1137664	3	4	4	1	0	0	0	0	1	0	0	0	5218	971	34	5	597	5	ERC1	12	1137664	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	550	1137664	132714231	2717	4683											
ERC1	23085	broad.mit.edu	37	chr12	1299205	1299205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgacaaagataagaagataGctgagttggaaaggtaagaa	20	7	12	2	0	0	6	0	2	0	4	0	7	0	7	0	2	1	3	0	2	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:1299205G>A	uc001qjb.2	+	12	2579	c.2338G>A	c.(2338-2340)GCT>ACT	p.A780T	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.A752T|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.A780T|ERC1_uc010sdv.1_Missense_Mutation_p.A528T|ERC1_uc009zdp.2_Missense_Mutation_p.A420T|ERC1_uc001qje.2_RNA	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	780	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			TAAGAAGATAGCTGAGTTGGA	0.383													6	84					0	0	0.00308	0	0		A	1299205	A	A	1299205	3	1	4	1	0	0	0	0	1	0	0	0	5218	971	34	2	2380	2	ERC1	12	1299205	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	161541	1299205	132552690	2718	4684											
CACNA2D4	93589	broad.mit.edu	37	chr12	2024074	2024074	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgttatacaggtccccGccgaaggtgtcagcccatag	10	8	11	12	2	1	0	1	0	0	0	2	1	2	0	4	2	2	1	4	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:2024074G>A	uc001qjp.2	-	2	486	c.255C>T	c.(253-255)GGC>GGT	p.G85G	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Silent_p.G85G	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	85	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		ACAGGTCCCCGCCGAAGGTGT	0.418													7	55					0	0	0.008291	0	0		A	2024074	A	A	2024074	2	1	4	1	0	0	0	0	0	0	0	1	2554	1074	38	1		1	CACNA2D4	12	2024074	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	724869	2024074	131827821	2719	4685											
CACNA1C	775	broad.mit.edu	37	chr12	2788716	2788716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctgcacatcaacaaggCgggcagcagccagggcgaca	11	2	13	15	3	1	0	1	0	0	0	1	1	1	0	2	3	4	4	2	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:2788716C>T	uc009zdu.1	+	44	5655	c.5342C>T	c.(5341-5343)GCG>GTG	p.A1781V	CACNA1C_uc009zdv.1_Missense_Mutation_p.A1730V|CACNA1C_uc001qkb.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkc.2_Missense_Mutation_p.A1752V|CACNA1C_uc001qke.2_Missense_Mutation_p.A1722V|CACNA1C_uc001qkf.2_Missense_Mutation_p.A1741V|CACNA1C_uc001qjz.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkd.2_Missense_Mutation_p.A1752V|CACNA1C_uc001qkg.2_Missense_Mutation_p.A1739V|CACNA1C_uc009zdw.1_Missense_Mutation_p.A1774V|CACNA1C_uc001qkh.2_Missense_Mutation_p.A1741V|CACNA1C_uc001qkl.2_Missense_Mutation_p.A1781V|CACNA1C_uc001qkn.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qko.2_Missense_Mutation_p.A1753V|CACNA1C_uc001qkp.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkr.2_Missense_Mutation_p.A1750V|CACNA1C_uc001qku.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkq.2_Missense_Mutation_p.A1761V|CACNA1C_uc001qks.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkt.2_Missense_Mutation_p.A1752V|CACNA1C_uc001qki.1_Missense_Mutation_p.A1469V|CACNA1C_uc001qkj.1_Missense_Mutation_p.A1469V|CACNA1C_uc001qkk.1_Missense_Mutation_p.A1469V|CACNA1C_uc001qkm.1_Missense_Mutation_p.A1458V|CACNA1C_uc010sea.1_Missense_Mutation_p.A424V|uc001qkx.1_Intron|CACNA1C_uc001qky.1_Missense_Mutation_p.A51V	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1781	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	ATCAACAAGGCGGGCAGCAGC	0.652													3	8					0	0	0.009096	0	0		T	2788716	T	T	2788716	3	4	4	1	0	0	0	0	1	0	0	0	2543	768	27	1	5747	1	CACNA1C	12	2788716	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	764642	2788716	131063179	2720	4686											
FKBP4	2288	broad.mit.edu	37	chr12	2907922	2907922	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacggaagaggaagatggCggaatcattcgcagaataca	15	6	13	7	3	1	4	1	1	0	3	2	7	1	7	0	4	1	1	0	4	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:2907922C>T	uc001qkz.2	+	4	642	c.444C>T	c.(442-444)GGC>GGT	p.G148G		NM_002014	NP_002005	Q02790	FKBP4_HUMAN	FK506 binding protein 52	148					negative regulation of microtubule polymerization or depolymerization|negative regulation of neuron projection development|protein folding	axonal growth cone|cytosol|membrane|microtubule|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity|protein binding, bridging				0			OV - Ovarian serous cystadenocarcinoma(31;0.00105)		Dimethyl sulfoxide(DB01093)	AGGAAGATGGCGGAATCATTC	0.433													27	95					0	0	0.00632	0	0		T	2907922	T	T	2907922	2	4	4	1	0	0	0	0	0	0	0	1	5924	755	27	1		1	FKBP4	12	2907922	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	119206	2907922	130943973	2721	4687											
GALNT8	26290	broad.mit.edu	37	chr12	4835984	4835984	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcgcaccatccccgacacGcgagactacaggtgggatga	12	5	11	13	4	0	2	0	1	0	1	2	5	1	3	3	2	1	1	3	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:4835984G>A	uc001qne.1	+	2	590	c.498G>A	c.(496-498)ACG>ACA	p.T166T		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	166	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						TCCCCGACACGCGAGACTACA	0.572													11	49					0	0	0.004007	0	0		A	4835984	A	A	4835984	2	1	4	1	0	0	0	0	0	0	0	1	6234	1074	38	1		1	GALNT8	12	4835984	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1928062	4835984	129015911	2722	4688											
KCNA6	3742	broad.mit.edu	37	chr12	4919925	4919925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	catttcatcatggcatcaccCctggggaaatggggaccggg	9	8	13	11	1	3	0	3	0	0	0	3	2	3	2	3	6	0	1	3	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:4919925C>T	uc001qng.2	+	1	1584	c.718C>T	c.(718-720)CCT>TCT	p.P240S		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	240						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						TGGCATCACCCCTGGGGAAAT	0.547										HNSCC(72;0.22)			5	64					0	0	0.001984	0	0		T	4919925	T	T	4919925	3	4	4	1	0	0	0	0	1	0	0	0	8023	623	22	4	720	4	KCNA6	12	4919925	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	83941	4919925	128931970	2723	4689											
KCNA6	3742	broad.mit.edu	37	chr12	4920535	4920535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatcgtgggctcgctgtgtgCcatcgctggggtcctcacca	4	10	14	13	3	1	0	1	0	0	0	5	1	2	0	3	3	1	3	3	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:4920535C>T	uc001qng.2	+	1	2194	c.1328C>T	c.(1327-1329)GCC>GTC	p.A443V		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	443	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						TCGCTGTGTGCCATCGCTGGG	0.602										HNSCC(72;0.22)			17	46					0	0	0.006122	0	0		T	4920535	T	T	4920535	3	4	4	1	0	0	0	0	1	0	0	0	8023	739	26	2	1330	2	KCNA6	12	4920535	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	610	4920535	128931360	2724	4690											
KCNA5	3741	broad.mit.edu	37	chr12	5154014	5154014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccgcaacgagttccagcGccaggtgtggcttatcttcg	6	9	12	14	4	1	0	0	0	1	0	3	1	2	0	4	2	2	3	4	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:5154014G>A	uc001qni.2	+	1	930	c.701G>A	c.(700-702)CGC>CAC	p.R234H		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	234						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GAGTTCCAGCGCCAGGTGTGG	0.602													5	47					0	0	0.001984	0	0		A	5154014	A	A	5154014	3	1	4	1	0	0	0	0	1	0	0	0	8022	1087	38	1	703	1	KCNA5	12	5154014	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	233479	5154014	128697881	2725	4691											
VWF	7450	broad.mit.edu	37	chr12	6127784	6127784	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgtagaccaggttgggCgcctgctcccggtcaccctg	6	8	12	15	2	1	1	1	0	0	1	2	1	2	1	5	3	1	3	5	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:6127784C>T	uc001qnn.1	-	28	5050	c.4800G>A	c.(4798-4800)GCG>GCA	p.A1600A	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1600	VWFA 2.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CCAGGTTGGGCGCCTGCTCCC	0.463													10	28					0	0	0.006214	0	0		T	6127784	T	T	6127784	2	4	4	1	0	0	0	0	0	0	0	1	17272	755	27	1		1	VWF	12	6127784	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	973770	6127784	127724111	2726	4692											
CHD4	1108	broad.mit.edu	37	chr12	6711240	6711240	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttgccaggagtatagtcGctgccctcactgtctgagcg	6	12	11	12	2	3	1	1	1	2	0	4	2	3	2	2	1	3	2	2	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:6711240G>A	uc001qpo.2	-	4	488	c.324C>T	c.(322-324)AGC>AGT	p.S108S	CHD4_uc001qpn.2_Silent_p.S101S|CHD4_uc001qpp.2_Silent_p.S105S	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	108					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						GAGTATAGTCGCTGCCCTCAC	0.488													13	29					0	0	0.00499	0	0		A	6711240	A	A	6711240	2	1	4	1	0	0	0	0	0	0	0	1	3330	1078	38	1		1	CHD4	12	6711240	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	583456	6711240	127140655	2727	4693											
ENO2	2026	broad.mit.edu	37	chr12	7025874	7025874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatcaactccaccatcgCgccagccctcatcagctcag	10	6	5	20	2	4	0	4	0	0	0	6	0	5	0	5	0	3	1	5	0	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:7025874C>T	uc001qru.1	+	4	443	c.221C>T	c.(220-222)GCG>GTG	p.A74V	ENO2_uc009zfi.1_Missense_Mutation_p.A74V|ENO2_uc010sfq.1_Intron|ENO2_uc001qrv.1_Missense_Mutation_p.A74V	NM_001975	NP_001966	P09104	ENOG_HUMAN	enolase 2	74					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex|plasma membrane	magnesium ion binding|phosphopyruvate hydratase activity				0						TCCACCATCGCGCCAGCCCTC	0.612													7	65					0	0	0.006214	0	0		T	7025874	T	T	7025874	3	4	4	1	0	0	0	0	1	0	0	0	5130	768	27	1	231	1	ENO2	12	7025874	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	314634	7025874	126826021	2728	4694											
RBP5	83758	broad.mit.edu	37	chr12	7280857	7280857	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcattttcgtccgtccacGctcctgaggtcctcctcaaa	6	12	8	15	3	1	1	1	1	0	0	7	1	6	1	5	2	0	2	5	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:7280857G>A	uc001qsq.2	-	2	326	c.231C>T	c.(229-231)AGC>AGT	p.S77S	CLSTN3_uc001qsr.2_5'Flank	NM_031491	NP_113679	P82980	RET5_HUMAN	retinol binding protein 5, cellular	77						cytoplasm	retinal binding|retinol binding|transporter activity			ovary(1)	1					Vitamin A(DB00162)	GTCCGTCCACGCTCCTGAGGT	0.557													15	36					0	0	0.004007	0	0		A	7280857	A	A	7280857	2	1	4	1	0	0	0	0	0	0	0	1	13184	1078	38	1		1	RBP5	12	7280857	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	254983	7280857	126571038	2729	4695											
CLSTN3	9746	broad.mit.edu	37	chr12	7288865	7288865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttgttccctggtatccGcctggagacctgtgatgaac	6	12	12	11	1	0	3	0	2	0	1	2	4	2	3	4	3	1	3	4	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:7288865G>A	uc001qsr.2	+	6	1084	c.806G>A	c.(805-807)CGC>CAC	p.R269H	CLSTN3_uc001qss.2_Missense_Mutation_p.R281H	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	269	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						CCTGGTATCCGCCTGGAGACC	0.557													7	60					0	0	0.00308	0	0		A	7288865	A	A	7288865	3	1	4	1	0	0	0	0	1	0	0	0	3566	1087	38	1	828	1	CLSTN3	12	7288865	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8008	7288865	126563030	2730	4696											
CD163L1	283316	broad.mit.edu	37	chr12	7528533	7528533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagaatcacagacagagcGccatgtgtctgcatgtttca	12	10	9	10	1	4	3	3	0	1	3	4	3	4	3	1	0	2	2	1	0	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:7528533G>A	uc001qsy.2	-	10	2475	c.2449C>T	c.(2449-2451)CGC>TGC	p.R817C	CD163L1_uc010sge.1_Missense_Mutation_p.R827C	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	817	SRCR 8.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						CAGACAGAGCGCCATGTGTCT	0.463													27	79					0	0	0.002096	0	0		A	7528533	A	A	7528533	3	1	4	1	0	0	0	0	1	0	0	0	2971	1087	38	1	1952	1	CD163L1	12	7528533	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	239668	7528533	126323362	2731	4697											
NANOG	79923	broad.mit.edu	37	chr12	7945545	7945545	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttttatttgttcccaacaGtctctcctcttccttcctcc	4	18	2	17	0	2	0	0	0	2	0	8	0	7	0	6	0	1	1	6	0	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:7945545G>T	uc009zfy.1	+	2	368	c.152_splice	c.e2-1	p.V51_splice		NM_024865	NP_079141	Q9H9S0	NANOG_HUMAN	Nanog homeobox						cell proliferation|embryo development|somatic stem cell maintenance	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				Kidney(36;0.0872)		GTTCCCAACAGTCTCTCCTCT	0.368													5	135					0.000602214	0.000627828	0.000602	1	0		T	7945545	T	T	7945545	5	4	4	1	0	0	0	0	0	0	1	0	10168	1043	36	5	157	5	NANOG	12	7945545	Splice_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	417012	7945545	125906350	2732	4698											
AICDA	57379	broad.mit.edu	37	chr12	8759609	8759609	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccggttcatcaagaggCtgtgggtgagaggagggaga	9	8	17	7	1	2	3	2	1	0	3	4	6	4	4	2	5	0	2	2	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:8759609C>T	uc001qur.2	-	2	88	c.9_splice	c.e2-1	p.S3_splice	AICDA_uc001qup.1_Splice_Site|AICDA_uc001quq.1_Splice_Site|AICDA_uc009zgd.1_Splice_Site	NM_020661	NP_065712	Q9GZX7	AICDA_HUMAN	activation-induced cytidine deaminase						B cell differentiation|DNA demethylation|mRNA processing|negative regulation of methylation-dependent chromatin silencing	cytoplasm	cytidine deaminase activity|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung SC(5;0.184)					CATCAAGAGGCTGTGGGTGAG	0.463									Immune_Deficiency_with_Hyper-IgM				5	19					0	0	0.000602	0	0		T	8759609	T	T	8759609	5	4	4	1	0	0	0	0	0	0	1	0	422	811	28	2	604	2	AICDA	12	8759609	Splice_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	814064	8759609	125092286	2733	4699											
RIMKLB	57494	broad.mit.edu	37	chr12	8866509	8866509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggtttttgacagatcgtcGcatcagggaagactatcctc	9	12	11	9	2	1	3	1	1	0	2	5	4	2	4	1	2	0	2	1	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:8866509G>A	uc001quu.2	+	2	298	c.47G>A	c.(46-48)CGC>CAC	p.R16H	RIMKLB_uc009zgf.1_RNA|RIMKLB_uc001qux.2_Missense_Mutation_p.R16H|RIMKLB_uc010sgl.1_Missense_Mutation_p.R16H|RIMKLB_uc001quw.2_Missense_Mutation_p.R16H	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	16					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						ACAGATCGTCGCATCAGGGAA	0.458													7	53					0	0	0.001984	0	0		A	8866509	A	A	8866509	3	1	4	1	0	0	0	0	1	0	0	0	13391	1087	38	1	49	1	RIMKLB	12	8866509	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	106900	8866509	124985386	2734	4700											
A2ML1	144568	broad.mit.edu	37	chr12	9000230	9000230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctcccggatccctgtgtgCgctccgggcggtggatgaga	5	8	16	12	4	0	1	0	1	0	1	3	4	3	3	3	4	2	2	3	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:9000230C>T	uc001quz.3	+	15	1867	c.1769C>T	c.(1768-1770)GCG>GTG	p.A590V	A2ML1_uc001qva.1_Missense_Mutation_p.A170V|A2ML1_uc010sgm.1_Missense_Mutation_p.A90V	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	434						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TCCCTGTGTGCGCTCCGGGCG	0.607													21	56					0	0	0.00278	0	0		T	9000230	T	T	9000230	3	4	4	1	0	0	0	0	1	0	0	0	5	768	27	1	1827	1	A2ML1	12	9000230	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	133721	9000230	124851665	2735	4701											
A2M	2	broad.mit.edu	37	chr12	9229462	9229462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttggtatatacatggctgCcatggtccccttcttgtgct	5	16	9	11	0	1	0	0	0	1	0	2	0	2	0	3	3	3	3	3	3	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:9229462C>T	uc001qvk.1	-	28	3535	c.3422G>A	c.(3421-3423)GGC>GAC	p.G1141D	A2M_uc001qvj.1_Missense_Mutation_p.G183D|A2M_uc009zgk.1_Missense_Mutation_p.G991D	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1141					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	TACATGGCTGCCATGGTCCCC	0.512													17	78					0	0	0.010504	0	0		T	9229462	T	T	9229462	3	4	4	1	0	0	0	0	1	0	0	0	4	739	26	2	1038	2	A2M	12	9229462	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	229232	9229462	124622433	2736	4702											
A2M	2	broad.mit.edu	37	chr12	9268379	9268379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggttttccagagactgaggCgtctgtgggcaggaggacca	8	8	16	9	2	1	2	0	1	1	1	2	5	2	4	2	5	0	2	2	5	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:9268379C>T	uc001qvk.1	-	1	180	c.67G>A	c.(67-69)GCC>ACC	p.A23T	A2M_uc009zgk.1_5'UTR	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	23					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GAGACTGAGGCGTCTGTGGGC	0.458													16	38					0	0	0.008871	0	0		T	9268379	T	T	9268379	3	4	4	1	0	0	0	0	1	0	0	0	4	768	27	1	4501	1	A2M	12	9268379	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	38917	9268379	124583516	2737	4703											
CLEC1B	51266	broad.mit.edu	37	chr12	10147759	10147759	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattttctgagataaccgaGccatcctcccacttccagac	11	11	5	14	1	1	2	0	1	1	2	4	4	4	2	5	0	2	0	5	0	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:10147759G>A	uc001qwu.2	-	5	725	c.525C>T	c.(523-525)GGC>GGT	p.G175G	CLEC1B_uc009zhd.2_Silent_p.G142G	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform	175	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0						AGATAACCGAGCCATCCTCCC	0.433													60	159					0	0	0.00361	0	0		A	10147759	A	A	10147759	2	1	4	1	0	0	0	0	0	0	0	1	3509	958	34	2		2	CLEC1B	12	10147759	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	879380	10147759	123704136	2738	4704											
CLEC12B	387837	broad.mit.edu	37	chr12	10167889	10167889	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcctaagatgtggcaatggTaccaaaatagttgctactat	13	12	9	7	0	0	1	0	0	0	1	1	1	1	1	2	2	3	4	2	2	8	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:10167889T>C	uc001qwz.2	+	4	576	c.448T>C	c.(448-450)TAC>CAC	p.Y150H	CLEC12B_uc001qwx.1_Missense_Mutation_p.Y150H|CLEC12B_uc001qwy.1_Missense_Mutation_p.Y47H|CLEC12B_uc009zhe.2_RNA	NM_001129998	NP_001123470	Q2HXU8	CL12B_HUMAN	C-type lectin domain family 12, member B isoform	150	Extracellular (Potential).|C-type lectin.					integral to membrane|plasma membrane	receptor activity|sugar binding				0						GTGGCAATGGTACCAAAATAG	0.388													7	149					0	0	0.001984	0	0		C	10167889	C	C	10167889	3	2	4	1	0	0	0	0	1	0	0	0	3501	1638	57	3	462	3	CLEC12B	12	10167889	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	20130	10167889	123684006	2739	4705											
CLEC9A	283420	broad.mit.edu	37	chr12	10206943	10206943	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcatccattttcttgggCgtcaagtgtaagtactaaaa	13	12	8	8	1	2	0	1	0	1	0	3	0	3	0	1	1	2	3	1	1	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:10206943C>T	uc001qxa.2	+	5	778	c.165C>T	c.(163-165)GGC>GGT	p.G55G		NM_207345	NP_997228	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	55	Helical; Signal-anchor for type II membrane protein; (Potential).				positive regulation of cytokine secretion|receptor-mediated endocytosis	cell surface|integral to membrane	receptor activity|sugar binding			ovary(1)	1						TTTTCTTGGGCGTCAAGTGTA	0.303													5	33					0	0	0.000602	0	0		T	10206943	T	T	10206943	2	4	4	1	0	0	0	0	0	0	0	1	3525	755	27	1		1	CLEC9A	12	10206943	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	39054	10206943	123644952	2740	4706											
GABARAPL1	23710	broad.mit.edu	37	chr12	10370695	10370695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggctccaaaagccagggtgCctgatctggacaagaggaag	13	5	14	9	0	1	2	0	1	1	1	2	4	2	4	3	4	2	1	3	4	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:10370695C>T	uc001qxs.2	+	2	364	c.124C>T	c.(124-126)CCT>TCT	p.P42S	GABARAPL1_uc010shb.1_Missense_Mutation_p.P42S|GABARAPL1_uc001qxt.2_RNA|GABARAPL1_uc001qxu.2_RNA	NM_031412	NP_113600	Q9H0R8	GBRL1_HUMAN	GABA(A) receptor-associated protein like 1	42	Interaction with GABRG2 (By similarity).					autophagic vacuole|endoplasmic reticulum|Golgi apparatus|membrane|microtubule	beta-tubulin binding|GABA receptor binding				0						AGCCAGGGTGCCTGATCTGGA	0.473													14	35					0	0	0.006122	0	0		T	10370695	T	T	10370695	3	4	4	1	0	0	0	0	1	0	0	0	6167	739	26	2	130	2	GABARAPL1	12	10370695	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	163752	10370695	123481200	2741	4707											
CSDA	8531	broad.mit.edu	37	chr12	10862618	10862618	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgatactgggggcggcgCagctgattccgggccccaga	6	5	18	12	4	0	2	0	1	0	1	1	3	1	2	3	5	2	2	3	5	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:10862618C>T	uc001qyt.2	-	6	912	c.669G>A	c.(667-669)CTG>CTA	p.L223L	CSDA_uc001qyu.2_Intron	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	223					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					GGGGGCGGCGCAGCTGATTCC	0.647													4	16					0	0	0.009096	0	0		T	10862618	T	T	10862618	2	4	4	1	0	0	0	0	0	0	0	1	3930	697	25	2		2	CSDA	12	10862618	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	491923	10862618	122989277	2742	4708											
CSDA	8531	broad.mit.edu	37	chr12	10862684	10862684	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaatccttcactgctgccGctcccttcctcctcctcctc	4	13	3	21	1	2	0	2	0	0	0	9	0	8	0	7	0	2	2	7	0	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:10862684G>A	uc001qyt.2	-	6	846	c.603C>T	c.(601-603)AGC>AGT	p.S201S	CSDA_uc001qyu.2_Intron	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	201					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					CACTGCTGCCGCTCCCTTCCT	0.557													5	13					0	0	0.004482	0	0		A	10862684	A	A	10862684	2	1	4	1	0	0	0	0	0	0	0	1	3930	1078	38	1		1	CSDA	12	10862684	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	66	10862684	122989211	2743	4709											
TAS2R30	259293	broad.mit.edu	37	chr12	11286180	11286180	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagcttttatgtggacctTggtgctgggatcttgagatc	8	14	12	7	0	1	1	0	1	1	1	2	4	1	3	1	3	2	2	1	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:11286180T>C	uc009zhs.1	-	1	664	c.664A>G	c.(664-666)AAG>GAG	p.K222E	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_001097643	NP_001091112			type 2 taste receptor member 30												0						ATGTGGACCTTGGTGCTGGGA	0.418													10	295					0	0	0.000978	0	0		C	11286180	C	C	11286180	3	2	4	1	0	0	0	0	1	0	0	0	15598	1821	63	3	299	3	TAS2R30	12	11286180	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	423496	11286180	122565715	2744	4710											
LRP6	4040	broad.mit.edu	37	chr12	12334196	12334196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccatctataaatgaacggCgtatggccctcacttcatca	12	11	6	12	2	4	1	3	1	1	0	5	1	5	1	2	2	1	1	2	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:12334196C>T	uc001rah.3	-	6	1296	c.1154G>A	c.(1153-1155)CGC>CAC	p.R385H	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.R385H	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	385	LDL-receptor class B 6.|Extracellular (Potential).|Beta-propeller 2.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				AAATGAACGGCGTATGGCCCT	0.458													8	110					0	0	0.008291	0	0		T	12334196	T	T	12334196	3	4	4	1	0	0	0	0	1	0	0	0	8980	768	27	1	3759	1	LRP6	12	12334196	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1048016	12334196	121517699	2745	4711											
DUSP16	80824	broad.mit.edu	37	chr12	12630760	12630760	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagggtggactgaggggCgtctcgcttttctgtccacc	5	10	14	12	2	2	1	0	1	2	0	4	2	3	2	2	4	0	2	2	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:12630760C>T	uc001rao.1	-	7	1637	c.1005G>A	c.(1003-1005)ACG>ACA	p.T335T	DUSP16_uc001ram.1_5'Flank|DUSP16_uc001ran.1_Silent_p.T187T	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	335					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		GACTGAGGGGCGTCTCGCTTT	0.517													20	40					0	0	0.002299	0	0		T	12630760	T	T	12630760	2	4	4	1	0	0	0	0	0	0	0	1	4822	755	27	1		1	DUSP16	12	12630760	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	296564	12630760	121221135	2746	4712											
GSG1	83445	broad.mit.edu	37	chr12	13243486	13243486	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccacatgccactccggaaGctccggaaggagaaccggtc	11	4	12	14	3	0	1	0	0	0	1	3	4	2	3	5	4	4	1	5	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:13243486G>T	uc001rbn.2	-	2	488	c.315C>A	c.(313-315)AGC>AGA	p.S105R	GSG1_uc001rbj.2_Missense_Mutation_p.S92R|GSG1_uc001rbk.2_Missense_Mutation_p.S92R|GSG1_uc001rbl.2_Missense_Mutation_p.S92R|GSG1_uc001rbm.2_Missense_Mutation_p.S92R|GSG1_uc001rbo.2_Missense_Mutation_p.S105R|GSG1_uc001rbp.2_Missense_Mutation_p.S105R|GSG1_uc001rbq.1_Missense_Mutation_p.S105R	NM_001080555	NP_001074024	Q2KHT4	GSG1_HUMAN	germ cell associated 1 isoform 4	92						endoplasmic reticulum membrane|integral to membrane					0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		CACTCCGGAAGCTCCGGAAGG	0.552													22	45					2.21704e-12	2.40049e-12	0.00278	1	0		T	13243486	T	T	13243486	3	4	4	1	0	0	0	0	1	0	0	0	6836	962	34	5	921	5	GSG1	12	13243486	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	612726	13243486	120608409	2747	4713											
GRIN2B	2904	broad.mit.edu	37	chr12	13717182	13717182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agagcccatcgatggagctgGcactgccaatactatggggc	10	7	13	11	1	0	1	0	0	0	1	1	3	0	2	2	4	4	2	2	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:13717182G>A	uc001rbt.2	-	13	3169	c.2990C>T	c.(2989-2991)GCC>GTC	p.A997V		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	997	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GATGGAGCTGGCACTGCCAAT	0.582													10	25					0	0	0.001855	0	0		A	13717182	A	A	13717182	3	1	4	1	0	0	0	0	1	0	0	0	6796	1203	42	2	1468	2	GRIN2B	12	13717182	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	473696	13717182	120134713	2748	4714											
C12orf60	144608	broad.mit.edu	37	chr12	14976105	14976105	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagtggatgcaagacatgAcaaaattcaaaaggagtctt	16	10	10	5	0	2	2	1	1	1	1	2	4	2	4	0	2	1	2	0	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:14976105A>G	uc001rcj.3	+	2	440	c.236A>G	c.(235-237)GAC>GGC	p.D79G		NM_175874	NP_787070	Q5U649	CL060_HUMAN	hypothetical protein LOC144608	79										ovary(1)|central_nervous_system(1)	2						GCAAGACATGACAAAATTCAA	0.373													28	90					0	0	0.007291	0	0		G	14976105	G	G	14976105	3	3	4	1	0	0	0	0	1	0	0	0	1706	275	10	3	238	3	C12orf60	12	14976105	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1258923	14976105	118875790	2749	4715											
C12orf60	144608	broad.mit.edu	37	chr12	14976279	14976279	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacatccttgggagtctggAatcttctctttcacacttga	9	15	7	10	0	4	1	1	1	3	0	6	3	5	3	1	2	1	0	1	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:14976279A>G	uc001rcj.3	+	2	614	c.410A>G	c.(409-411)GAA>GGA	p.E137G		NM_175874	NP_787070	Q5U649	CL060_HUMAN	hypothetical protein LOC144608	137										ovary(1)|central_nervous_system(1)	2						GGGAGTCTGGAATCTTCTCTT	0.413													6	96					0	0	0.001168	0	0		G	14976279	G	G	14976279	3	3	4	1	0	0	0	0	1	0	0	0	1706	246	9	3	412	3	C12orf60	12	14976279	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	174	14976279	118875616	2750	4716											
EPS8	2059	broad.mit.edu	37	chr12	15819381	15819381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgcttttacctcagggCgtcgggccgcctcttctgtt	4	14	10	13	3	4	0	2	0	2	0	5	0	4	0	3	2	2	2	3	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:15819381C>T	uc009zif.2	-	7	686	c.592G>A	c.(592-594)GCC>ACC	p.A198T	EPS8_uc001rdb.2_Missense_Mutation_p.A198T|EPS8_uc009zig.2_5'UTR	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	198					cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		TACCTCAGGGCGTCGGGCCGC	0.393													7	39					0	0	0.001984	0	0		T	15819381	T	T	15819381	3	4	4	1	0	0	0	0	1	0	0	0	5202	768	27	1	1936	1	EPS8	12	15819381	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	843102	15819381	118032514	2751	4717											
LMO3	55885	broad.mit.edu	37	chr12	16704207	16704207	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attaaaccttcctcgtagtcCgtctggcaaaggatcatgtt	10	13	8	10	2	2	0	1	0	1	0	5	1	4	1	3	2	1	3	3	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:16704207C>T	uc001rdk.1	-	4	827	c.387G>A	c.(385-387)ACG>ACA	p.T129T	LMO3_uc001rdj.1_Silent_p.T140T|LMO3_uc010shy.1_Silent_p.T147T|LMO3_uc001rdl.1_Silent_p.T129T|LMO3_uc009zii.1_RNA|LMO3_uc010shz.1_Silent_p.T151T|LMO3_uc001rdm.1_Silent_p.T129T|LMO3_uc001rdo.1_RNA|LMO3_uc001rdp.1_RNA|LMO3_uc001rdn.1_Silent_p.T129T|LMO3_uc009zij.1_RNA|LMO3_uc009zik.1_RNA	NM_018640	NP_061110	Q8TAP4	LMO3_HUMAN	LIM domain only 3	129	LIM zinc-binding 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent		zinc ion binding				0		Hepatocellular(102;0.244)				CCTCGTAGTCCGTCTGGCAAA	0.348													8	84					0	0	0.004482	0	0		T	16704207	T	T	16704207	2	4	4	1	0	0	0	0	0	0	0	1	8870	639	23	1		1	LMO3	12	16704207	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	884826	16704207	117147688	2752	4718											
PIK3C2G	5288	broad.mit.edu	37	chr12	18491429	18491429	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagggtgtgtggaaaccaaaCaaattacagatgcagtaaat	17	9	10	5	0	0	1	0	0	0	1	0	2	0	2	1	2	4	2	1	2	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:18491429C>T	uc001rdt.2	+	9	1458	c.1342C>T	c.(1342-1344)CAA>TAA	p.Q448*	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Nonsense_Mutation_p.Q448*|PIK3C2G_uc010sic.1_Nonsense_Mutation_p.Q226*	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	448					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				GGAAACCAAACAAATTACAGA	0.308													31	83					0	0	0.004878	0	0		T	18491429	T	T	18491429	4	4	4	1	0	0	0	0	0	1	0	0	11930	479	17	4	1372	4	PIK3C2G	12	18491429	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1787222	18491429	115360466	2753	4719											
PLEKHA5	54477	broad.mit.edu	37	chr12	19427794	19427794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcttagaggtggaaatcGccccaatacagggcccttat	12	9	10	10	1	1	2	0	0	1	2	2	3	1	3	3	3	1	0	3	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:19427794G>A	uc001reb.2	+	10	1258	c.1172G>A	c.(1171-1173)CGC>CAC	p.R391H	PLEKHA5_uc010sie.1_Missense_Mutation_p.R397H|PLEKHA5_uc001rea.2_Missense_Mutation_p.R391H|PLEKHA5_uc009zin.2_Missense_Mutation_p.R149H|PLEKHA5_uc010sif.1_Missense_Mutation_p.R283H|PLEKHA5_uc010sig.1_Missense_Mutation_p.R283H|PLEKHA5_uc010sih.1_Missense_Mutation_p.R283H|PLEKHA5_uc001rec.1_Missense_Mutation_p.R79H	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	391							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					GGTGGAAATCGCCCCAATACA	0.473													6	65					0	0	0.001168	0	0		A	19427794	A	A	19427794	3	1	4	1	0	0	0	0	1	0	0	0	12078	1087	38	1	1210	1	PLEKHA5	12	19427794	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	936365	19427794	114424101	2754	4720											
IAPP	3375	broad.mit.edu	37	chr12	21531352	21531352	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagagccactgaattacttgCccctttagaggacaatgtaa	13	10	9	9	0	0	3	0	1	0	2	0	5	0	4	3	1	3	1	3	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:21531352C>A	uc001rev.2	+	3	414	c.262C>A	c.(262-264)CCC>ACC	p.P88T	SLCO1A2_uc001res.2_Intron|SLCO1A2_uc010siq.1_Intron	NM_000415	NP_000406	P10997	IAPP_HUMAN	islet amyloid polypeptide precursor	88					apoptosis|cell-cell signaling|endocrine pancreas development|signal transduction	extracellular region|soluble fraction	hormone activity				0					Perindopril(DB00790)	GAATTACTTGCCCCTTTAGAG	0.383													22	51					3.5997e-14	3.91216e-14	0.002299	1	0		A	21531352	A	A	21531352	3	1	4	1	0	0	0	0	1	0	0	0	7488	739	26	5	268	5	IAPP	12	21531352	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2103558	21531352	112320543	2755	4721											
PYROXD1	79912	broad.mit.edu	37	chr12	21614991	21614991	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgaaaagatatatggctgCgatttcattgtcagtgctac	13	13	9	6	1	2	2	2	1	0	1	2	3	2	2	0	1	3	2	0	1	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:21614991C>T	uc001rew.2	+	9	1057	c.930C>T	c.(928-930)TGC>TGT	p.C310C	PYROXD1_uc009ziq.2_Silent_p.C51C|PYROXD1_uc009zir.2_Silent_p.C16C	NM_024854	NP_079130	Q8WU10	PYRD1_HUMAN	pyridine nucleotide-disulphide oxidoreductase	310							oxidoreductase activity			ovary(1)	1						TATATGGCTGCGATTTCATTG	0.343													8	46					0	0	0.004482	0	0		T	21614991	T	T	21614991	2	4	4	1	0	0	0	0	0	0	0	1	12891	776	27	1		1	PYROXD1	12	21614991	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	83639	21614991	112236904	2756	4722											
RECQL	5965	broad.mit.edu	37	chr12	21630862	21630862	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcagcccaattagtgatgCgttagggaactgccgcttta	10	11	11	9	2	1	1	1	1	0	0	1	2	1	2	2	1	4	2	2	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:21630862C>T	uc001rex.2	-	8	1090	c.742G>A	c.(742-744)GCA>ACA	p.A248T	RECQL_uc001rey.2_Missense_Mutation_p.A248T	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	248	Helicase ATP-binding.				DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						ATTAGTGATGCGTTAGGGAAC	0.358								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					5	85					0	0	0.001168	0	0		T	21630862	T	T	21630862	3	4	4	1	0	0	0	0	1	0	0	0	13226	768	27	1	1243	1	RECQL	12	21630862	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	15871	21630862	112221033	2757	4723											
ABCC9	10060	broad.mit.edu	37	chr12	22063104	22063104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctacctgaacaggcataGcccatagattaggacacagg	14	7	9	11	0	0	2	0	1	0	1	0	3	0	3	3	3	4	1	3	3	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:22063104G>A	uc001rfi.1	-	8	1327	c.1307C>T	c.(1306-1308)GCT>GTT	p.A436V	ABCC9_uc001rfh.2_Missense_Mutation_p.A436V|ABCC9_uc001rfj.1_Missense_Mutation_p.A436V	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	436	ABC transmembrane type-1 1.|Helical; Name=8; (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AACAGGCATAGCCCATAGATT	0.378													4	103					0	0	0.009096	0	0		A	22063104	A	A	22063104	3	1	4	1	0	0	0	0	1	0	0	0	59	971	34	2	3608	2	ABCC9	12	22063104	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	432242	22063104	111788791	2758	4724											
SOX5	6660	broad.mit.edu	37	chr12	23687401	23687401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggcatcccagccatggCgatggctccagggtacacaa	10	5	14	12	1	0	0	0	0	0	0	2	2	2	1	3	5	2	3	3	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:23687401C>T	uc001rfw.2	-	15	2146	c.2044G>A	c.(2044-2046)GCC>ACC	p.A682T	SOX5_uc001rfx.2_Missense_Mutation_p.A669T|SOX5_uc001rfy.2_Missense_Mutation_p.A561T|SOX5_uc001rfv.2_Missense_Mutation_p.A296T|SOX5_uc010siv.1_Missense_Mutation_p.A669T	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	682					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						CCAGCCATGGCGATGGCTCCA	0.552													5	15					0	0	0.001984	0	0		T	23687401	T	T	23687401	3	4	4	1	0	0	0	0	1	0	0	0	14979	768	27	1	251	1	SOX5	12	23687401	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1624297	23687401	110164494	2759	4725											
SOX5	6660	broad.mit.edu	37	chr12	23689453	23689453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgccttgtattcaccaatgCgcagctttttgccatccacc	7	14	6	14	1	1	0	1	0	0	0	2	0	2	0	5	0	4	3	5	0	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:23689453C>T	uc001rfw.2	-	14	2024	c.1922G>A	c.(1921-1923)CGC>CAC	p.R641H	SOX5_uc001rfx.2_Missense_Mutation_p.R628H|SOX5_uc001rfy.2_Missense_Mutation_p.R520H|SOX5_uc001rfv.2_Missense_Mutation_p.R255H|SOX5_uc010siv.1_Missense_Mutation_p.R628H|SOX5_uc010siw.1_RNA	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	641					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TTCACCAATGCGCAGCTTTTT	0.517													8	52					0	0	0.004482	0	0		T	23689453	T	T	23689453	3	4	4	1	0	0	0	0	1	0	0	0	14979	768	27	1	377	1	SOX5	12	23689453	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2052	23689453	110162442	2760	4726											
CASC1	55259	broad.mit.edu	37	chr12	25267782	25267782	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaggatacattgctgatGccatcagttctccaatgttt	9	16	8	8	0	2	1	1	1	1	0	3	2	2	2	2	1	3	4	2	1	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:25267782G>A	uc001rgl.2	-	12	1483	c.1401C>T	c.(1399-1401)GGC>GGT	p.G467G	CASC1_uc001rgk.2_Silent_p.G473G|CASC1_uc001rgm.3_Silent_p.G531G|CASC1_uc001rgj.2_Silent_p.G427G|CASC1_uc010sje.1_Silent_p.G408G|CASC1_uc010sjf.1_Silent_p.G355G|CASC1_uc010sjg.1_3'UTR	NM_001082973	NP_001076442	Q6TDU7	CASC1_HUMAN	cancer susceptibility candidate 1 isoform b	467										ovary(2)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Melanoma(3;0.0301)|Colorectal(261;0.11)		OV - Ovarian serous cystadenocarcinoma(3;7.42e-20)|Epithelial(3;7.58e-16)|all cancers(3;1.07e-13)			CATTGCTGATGCCATCAGTTC	0.343													7	32					0	0	0.004482	0	0		A	25267782	A	A	25267782	2	1	4	1	0	0	0	0	0	0	0	1	2663	1306	46	2		2	CASC1	12	25267782	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1578329	25267782	108584113	2761	4727											
KRAS	3845	broad.mit.edu	37	chr12	25398284	25398284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcactcttgcctacgccaCcagctccaactaccacaagt	11	7	6	17	1	1	0	0	0	1	0	2	0	2	0	5	1	5	2	5	1	4	3	rs121913529		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:25398284C>T	uc001rgp.1	-	2	216	c.35G>A	c.(34-36)GGT>GAT	p.G12D	KRAS_uc001rgq.1_Missense_Mutation_p.G12D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12N(6)|p.G12G(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			GCCTACGCCACCAGCTCCAAC	0.348	G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			5	17					0	0	0.001168	0	0		T	25398284	T	T	25398284	3	4	4	1	0	0	0	0	1	0	0	0	8454	507	18	4	671	4	KRAS	12	25398284	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	130502	25398284	108453611	2762	4728											
IPO8	10526	broad.mit.edu	37	chr12	30837276	30837276	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attattccttccacaatgttAtcacgtatttgctggcgatc	9	16	6	10	2	1	0	1	0	0	0	4	1	3	0	2	1	1	3	2	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:30837276A>G	uc001rjd.2	-	3	452	c.282T>C	c.(280-282)GAT>GAC	p.D94D		NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	94	Importin N-terminal.				intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					CCACAATGTTATCACGTATTT	0.408													32	113					0	0	0.002445	0	0		G	30837276	G	G	30837276	2	3	4	1	0	0	0	0	0	0	0	1	7814	446	16	3		3	IPO8	12	30837276	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	5438992	30837276	103014619	2763	4729											
TSPAN11	441631	broad.mit.edu	37	chr12	31116918	31116918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggcttcctgggcttcggtgCcatcctctgggagcggaagg	4	9	16	12	3	1	0	0	0	1	0	4	2	3	2	3	6	2	2	3	6	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:31116918C>T	uc010sju.1	+	3	622	c.242C>T	c.(241-243)GCC>GTC	p.A81V	TSPAN11_uc001rjp.2_Missense_Mutation_p.A81V|TSPAN11_uc010sjv.1_Missense_Mutation_p.A71V	NM_001080509	NP_001073978	A1L157	TSN11_HUMAN	tetraspanin 11	81	Helical; (Potential).					integral to membrane					0	all_lung(12;3.11e-10)|Lung NSC(12;5.24e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					GGCTTCGGTGCCATCCTCTGG	0.642													7	54					0	0	0.00308	0	0		T	31116918	T	T	31116918	3	4	4	1	0	0	0	0	1	0	0	0	16661	739	26	2	248	2	TSPAN11	12	31116918	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	279642	31116918	102734977	2764	4730											
YARS2	51067	broad.mit.edu	37	chr12	32902887	32902887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttaccctcggggaccatctgGaatggcatttgctttgcggc	6	12	12	11	2	1	0	0	0	1	0	2	2	1	2	2	5	3	2	2	5	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:32902887G>A	uc001rli.2	-	4	1324	c.1258C>T	c.(1258-1260)CCA>TCA	p.P420S		NM_001040436	NP_001035526	Q9Y2Z4	SYYM_HUMAN	tyrosyl-tRNA synthetase 2, mitochondrial	420					tyrosyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|RNA binding|tyrosine-tRNA ligase activity				0	Lung NSC(5;2.43e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)				L-Tyrosine(DB00135)	GGACCATCTGGAATGGCATTT	0.318													4	103					0	0	0.001168	0	0		A	32902887	A	A	32902887	3	1	4	1	0	0	0	0	1	0	0	0	17494	1174	41	4	183	4	YARS2	12	32902887	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1785969	32902887	100949008	2765	4731											
KIF21A	55605	broad.mit.edu	37	chr12	39716590	39716590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcaacaggtgtgagagggCcaggcaaggaggcatctcct	10	6	15	10	0	1	1	0	1	1	1	2	3	1	2	2	5	2	3	2	5	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:39716590C>T	uc001rly.2	-	27	3697	c.3551G>A	c.(3550-3552)GGC>GAC	p.G1184D	KIF21A_uc001rlv.2_Missense_Mutation_p.G189D|KIF21A_uc001rlw.2_Missense_Mutation_p.G501D|KIF21A_uc001rlx.2_Missense_Mutation_p.G1171D|KIF21A_uc001rlz.2_Missense_Mutation_p.G1148D|KIF21A_uc010skl.1_Missense_Mutation_p.G1164D	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	1184					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TGTGAGAGGGCCAGGCAAGGA	0.507													39	107					0	0	0.006999	0	0		T	39716590	T	T	39716590	3	4	4	1	0	0	0	0	1	0	0	0	8304	739	26	2	1521	2	KIF21A	12	39716590	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6813703	39716590	94135305	2766	4732											
KIF21A	55605	broad.mit.edu	37	chr12	39726490	39726490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaggagctgccacttcatgCgagctgtcttggaaataaac	12	9	10	10	1	2	0	1	0	1	0	2	3	2	2	1	2	5	2	1	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:39726490C>T	uc001rly.2	-	20	2905	c.2759G>A	c.(2758-2760)CGC>CAC	p.R920H	KIF21A_uc001rlv.2_5'Flank|KIF21A_uc001rlw.2_Missense_Mutation_p.R237H|KIF21A_uc001rlx.2_Missense_Mutation_p.R907H|KIF21A_uc001rlz.2_Missense_Mutation_p.R884H|KIF21A_uc010skl.1_Missense_Mutation_p.R907H	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	920					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				CCACTTCATGCGAGCTGTCTT	0.423													8	43					0	0	0.003163	0	0		T	39726490	T	T	39726490	3	4	4	1	0	0	0	0	1	0	0	0	8304	768	27	1	2341	1	KIF21A	12	39726490	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	9900	39726490	94125405	2767	4733											
CNTN1	1272	broad.mit.edu	37	chr12	41410609	41410609	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggccgatatgtccataaAgatgaaaccatgagcccttc	13	9	8	11	1	0	3	0	2	0	1	2	4	1	3	4	1	2	0	4	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:41410609A>G	uc001rmm.1	+	19	2423	c.2310A>G	c.(2308-2310)AAA>AAG	p.K770K	CNTN1_uc001rmn.1_Silent_p.K759K	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	770	Fibronectin type-III 2.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				ATGTCCATAAAGATGAAACCA	0.398													4	107					0	0	0.009096	0	0		G	41410609	G	G	41410609	2	3	4	1	0	0	0	0	0	0	0	1	3643	69	3	3		3	CNTN1	12	41410609	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1684119	41410609	92441286	2768	4734											
PDZRN4	29951	broad.mit.edu	37	chr12	41966851	41966851	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtagaccgttcccctgAcagttcccttccaagggtga	8	10	9	14	1	0	3	0	2	0	1	3	3	3	3	5	1	0	3	5	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:41966851A>G	uc010skn.1	+	10	1741	c.1673A>G	c.(1672-1674)GAC>GGC	p.D558G	PDZRN4_uc001rmq.3_Missense_Mutation_p.D499G|PDZRN4_uc009zjz.2_Missense_Mutation_p.D497G|PDZRN4_uc001rmr.2_Missense_Mutation_p.D384G	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	757							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				CGTTCCCCTGACAGTTCCCTT	0.502													39	120					0	0	0.00623	0	0		G	41966851	G	G	41966851	3	3	4	1	0	0	0	0	1	0	0	0	11729	275	10	3	2381	3	PDZRN4	12	41966851	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	556242	41966851	91885044	2769	4735											
PDZRN4	29951	broad.mit.edu	37	chr12	41967300	41967300	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatcacaaagagacccgtgCgagaccgaatcctgaaggaa	16	4	10	11	3	1	3	1	1	0	2	2	7	2	4	3	1	1	0	3	1	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:41967300C>T	uc010skn.1	+	10	2190	c.2122C>T	c.(2122-2124)CGA>TGA	p.R708*	PDZRN4_uc001rmq.3_Nonsense_Mutation_p.R649*|PDZRN4_uc009zjz.2_Nonsense_Mutation_p.R647*|PDZRN4_uc001rmr.2_Nonsense_Mutation_p.R534*	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	907							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				GAGACCCGTGCGAGACCGAAT	0.517													9	125					0	0	0.006214	0	0		T	41967300	T	T	41967300	4	4	4	1	0	0	0	0	0	1	0	0	11729	760	27	1	2830	1	PDZRN4	12	41967300	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	449	41967300	91884595	2770	4736											
PRICKLE1	144165	broad.mit.edu	37	chr12	42858589	42858589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacttgaggaggagctgcGtcatataatcttcatgatca	13	11	9	8	1	4	2	3	2	1	0	4	4	4	4	0	2	3	1	0	2	3	4	rs151332996	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:42858589G>A	uc010skv.1	-	7	1534	c.1247C>T	c.(1246-1248)ACG>ATG	p.T416M	PRICKLE1_uc001rnl.2_Missense_Mutation_p.T416M|PRICKLE1_uc010skw.1_Missense_Mutation_p.T416M|PRICKLE1_uc001rnm.2_Missense_Mutation_p.T416M	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	416					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		GAGGAGCTGCGTCATATAATC	0.448													12	41					0	0	0.001368	0	0		A	42858589	A	A	42858589	3	1	4	1	0	0	0	0	1	0	0	0	12508	1145	40	1	1256	1	PRICKLE1	12	42858589	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	891289	42858589	90993306	2771	4737											
PRICKLE1	144165	broad.mit.edu	37	chr12	42858777	42858777	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttgtagttcagagcaggCgataagaggagagactgtct	13	9	13	6	1	2	3	1	0	1	3	2	6	2	4	0	2	2	3	0	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:42858777C>T	uc010skv.1	-	7	1346	c.1059G>A	c.(1057-1059)TCG>TCA	p.S353S	PRICKLE1_uc001rnl.2_Silent_p.S353S|PRICKLE1_uc010skw.1_Silent_p.S353S|PRICKLE1_uc001rnm.2_Silent_p.S353S	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	353					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		TCAGAGCAGGCGATAAGAGGA	0.498													42	78					0	0	0.00361	0	0		T	42858777	T	T	42858777	2	4	4	1	0	0	0	0	0	0	0	1	12508	755	27	1		1	PRICKLE1	12	42858777	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	188	42858777	90993118	2772	4738											
PRICKLE1	144165	broad.mit.edu	37	chr12	42860064	42860064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagccacagcagaaggggCggccgtccttcatgatatac	12	6	11	12	2	1	2	1	1	0	1	2	2	2	2	3	3	4	1	3	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:42860064C>T	uc010skv.1	-	6	994	c.707G>A	c.(706-708)CGC>CAC	p.R236H	PRICKLE1_uc001rnl.2_Missense_Mutation_p.R236H|PRICKLE1_uc010skw.1_Missense_Mutation_p.R236H|PRICKLE1_uc001rnm.2_Missense_Mutation_p.R236H	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	236	LIM zinc-binding 2.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		GCAGAAGGGGCGGCCGTCCTT	0.542													8	24					0	0	0.001855	0	0		T	42860064	T	T	42860064	3	4	4	1	0	0	0	0	1	0	0	0	12508	768	27	1	1800	1	PRICKLE1	12	42860064	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1287	42860064	90991831	2773	4739											
ADAMTS20	80070	broad.mit.edu	37	chr12	43826209	43826209	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcattgtcagcaagacgatgGccaaagttattcatacaata	15	11	7	8	1	3	1	3	0	0	1	3	2	3	1	1	1	2	2	1	1	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:43826209G>A	uc010skx.1	-	21	2994	c.2994C>T	c.(2992-2994)GGC>GGT	p.G998G	ADAMTS20_uc001rno.1_Silent_p.G152G|ADAMTS20_uc001rnp.1_Silent_p.G152G	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	998	TSP type-1 4.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CAAGACGATGGCCAAAGTTAT	0.423													33	70					0	0	0.00623	0	0		A	43826209	A	A	43826209	2	1	4	1	0	0	0	0	0	0	0	1	266	1190	42	2		2	ADAMTS20	12	43826209	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	966145	43826209	90025686	2774	4740											
ADAMTS20	80070	broad.mit.edu	37	chr12	43944883	43944883	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagaaaggatgcatcggcGgtcaggttcagctggaagag	11	6	16	8	2	2	2	2	0	0	2	3	4	2	4	1	5	2	3	1	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:43944883G>A	uc010skx.1	-	2	282	c.282C>T	c.(280-282)ACC>ACT	p.T94T		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	94						proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		ATGCATCGGCGGTCAGGTTCA	0.677													3	15					0	0	0.004672	0	0		A	43944883	A	A	43944883	2	1	4	1	0	0	0	0	0	0	0	1	266	1103	39	1		1	ADAMTS20	12	43944883	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	118674	43944883	89907012	2775	4741											
PUS7L	83448	broad.mit.edu	37	chr12	44130389	44130389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcctcggtcatgccaaagCggtgcaatgcctccaacaat	10	9	8	14	2	1	0	1	0	0	0	4	0	3	0	4	2	5	1	4	2	4	1	rs143825055		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:44130389C>T	uc001rnq.3	-	7	2009	c.1520G>A	c.(1519-1521)CGC>CAC	p.R507H	PUS7L_uc001rnr.3_Missense_Mutation_p.R507H|PUS7L_uc001rns.3_Missense_Mutation_p.R507H|PUS7L_uc009zkb.2_Missense_Mutation_p.R194H	NM_001098615	NP_001092085	Q9H0K6	PUS7L_HUMAN	pseudouridylate synthase 7 homolog (S.	507	TRUD.				pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)		CATGCCAAAGCGGTGCAATGC	0.443													8	141					0	0	0.00308	0	0		T	44130389	T	T	44130389	3	4	4	1	0	0	0	0	1	0	0	0	12859	768	27	1	597	1	PUS7L	12	44130389	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	185506	44130389	89721506	2776	4742											
NELL2	4753	broad.mit.edu	37	chr12	44926433	44926433	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctctgcactcacagtggtAccatccaggcaggttaatgc	10	10	9	12	0	2	0	1	0	1	0	4	0	3	0	2	3	3	4	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:44926433A>G	uc001rog.2	-	16	2330	c.1735T>C	c.(1735-1737)TAC>CAC	p.Y579H	NELL2_uc001rof.3_Missense_Mutation_p.Y578H|NELL2_uc001roh.2_Missense_Mutation_p.Y579H|NELL2_uc009zkd.2_Intron|NELL2_uc010skz.1_Missense_Mutation_p.Y629H|NELL2_uc010sla.1_Missense_Mutation_p.Y602H|NELL2_uc001roi.1_Missense_Mutation_p.Y579H|NELL2_uc010slb.1_Missense_Mutation_p.Y578H	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	579	EGF-like 5; calcium-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		TCACAGTGGTACCATCCAGGC	0.413													7	108					0	0	0.00308	0	0		G	44926433	G	G	44926433	3	3	4	1	0	0	0	0	1	0	0	0	10353	391	14	3	735	3	NELL2	12	44926433	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	796044	44926433	88925462	2777	4743											
ANO6	196527	broad.mit.edu	37	chr12	45822925	45822925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaatttttcatttcatatgCaattcccgatgtatcaaaac	14	15	4	8	1	3	0	3	0	0	0	4	2	4	0	1	0	2	2	1	0	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:45822925C>T	uc001roo.2	+	20	2899	c.2564C>T	c.(2563-2565)GCA>GTA	p.A855V	ANO6_uc010sld.1_Intron|ANO6_uc010sle.1_Intron|ANO6_uc010slf.1_Missense_Mutation_p.A876V|ANO6_uc010slg.1_Missense_Mutation_p.A837V	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	855	Cytoplasmic (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						ATTTCATATGCAATTCCCGAT	0.388													6	69					0	0	0.00308	0	0		T	45822925	T	T	45822925	3	4	4	1	0	0	0	0	1	0	0	0	701	710	25	2	2662	2	ANO6	12	45822925	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	896492	45822925	88028970	2778	4744											
ARID2	196528	broad.mit.edu	37	chr12	46246417	46246417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccctatcatctgacgttcGgtctacaaatggcacagcag	10	10	9	12	2	3	1	1	1	2	0	4	1	3	1	1	2	3	3	1	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:46246417G>A	uc001ros.1	+	15	4511	c.4511G>A	c.(4510-4512)CGG>CAG	p.R1504Q	ARID2_uc001ror.2_Missense_Mutation_p.R1504Q|ARID2_uc009zkg.1_Missense_Mutation_p.R960Q|ARID2_uc009zkh.1_Missense_Mutation_p.R1131Q|ARID2_uc001rou.1_Missense_Mutation_p.R838Q	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1504					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TCTGACGTTCGGTCTACAAAT	0.443													8	99					0	0	0.004482	0	0		A	46246417	A	A	46246417	3	1	4	1	0	0	0	0	1	0	0	0	915	1116	39	1	4569	1	ARID2	12	46246417	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	423492	46246417	87605478	2779	4745											
SLC38A1	81539	broad.mit.edu	37	chr12	46598370	46598370	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccactagtatagccaagaTaccctttaaaaaaaagtaaa	20	9	4	8	0	0	1	0	0	0	1	1	1	1	1	3	0	2	2	3	0	11	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:46598370T>C	uc001rpa.2	-	10	908	c.650A>G	c.(649-651)TAT>TGT	p.Y217C	SLC38A1_uc001rpb.2_Missense_Mutation_p.Y217C|SLC38A1_uc001rpc.2_Missense_Mutation_p.Y217C|SLC38A1_uc001rpd.2_Missense_Mutation_p.Y217C|SLC38A1_uc001rpe.2_Missense_Mutation_p.Y217C|SLC38A1_uc010slh.1_Missense_Mutation_p.Y190C|SLC38A1_uc009zkj.1_Missense_Mutation_p.Y217C	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	217	Helical; (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)			ATAGCCAAGATACCCtttaaa	0.264													4	101					0	0	0.009096	0	0		C	46598370	C	C	46598370	3	2	4	1	0	0	0	0	1	0	0	0	14626	1406	49	3	845	3	SLC38A1	12	46598370	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	351953	46598370	87253525	2780	4746											
SLC38A1	81539	broad.mit.edu	37	chr12	46602891	46602891	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatatatagacagcaatgTcactgaagtcaaaagtaccc	17	9	7	8	0	2	3	2	2	0	1	2	3	2	3	1	0	2	2	1	0	9	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:46602891T>C	uc001rpa.2	-	6	592	c.334A>G	c.(334-336)ACA>GCA	p.T112A	SLC38A1_uc001rpb.2_Missense_Mutation_p.T112A|SLC38A1_uc001rpc.2_Missense_Mutation_p.T112A|SLC38A1_uc001rpd.2_Missense_Mutation_p.T112A|SLC38A1_uc001rpe.2_Missense_Mutation_p.T112A|SLC38A1_uc010slh.1_Missense_Mutation_p.T85A|SLC38A1_uc009zkj.1_Missense_Mutation_p.T112A	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	112	Extracellular (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)			GACAGCAATGTCACTGAAGTC	0.318													4	48					0	0	0.001984	0	0		C	46602891	C	C	46602891	3	2	4	1	0	0	0	0	1	0	0	0	14626	1667	58	3	1177	3	SLC38A1	12	46602891	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	4521	46602891	87249004	2781	4747											
RPAP3	79657	broad.mit.edu	37	chr12	48073291	48073291	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttacagttgatccaggatgCggtggattatcaatgggttt	9	14	12	6	1	1	1	1	1	0	0	2	3	2	3	1	4	2	2	1	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48073291C>T	uc001rpr.2	-	12	1388	c.1272G>A	c.(1270-1272)CCG>CCA	p.P424P	RPAP3_uc010slk.1_Silent_p.P265P|RPAP3_uc001rps.2_Intron	NM_024604	NP_078880	Q9H6T3	RPAP3_HUMAN	RNA polymerase II associated protein 3 isoform	424							binding			ovary(1)	1	Lung SC(27;0.192)					ATCCAGGATGCGGTGGATTAT	0.323													9	29					0	0	0.000978	0	0		T	48073291	T	T	48073291	2	4	4	1	0	0	0	0	0	0	0	1	13568	755	27	1		1	RPAP3	12	48073291	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1470400	48073291	85778604	2782	4748											
HDAC7	51564	broad.mit.edu	37	chr12	48188645	48188645	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacctggcccggtcccccGccatctgtctccaggtcttc	4	9	8	20	2	3	0	0	0	3	0	6	0	4	0	7	3	0	0	7	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48188645G>A	uc010slo.1	-	12	1551	c.1356C>T	c.(1354-1356)GGC>GGT	p.G452G	HDAC7_uc009zku.2_5'Flank|HDAC7_uc001rqe.2_5'Flank|HDAC7_uc001rqj.3_Silent_p.G415G|HDAC7_uc001rqk.3_Silent_p.G435G	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	413	Transcription repression 2 (By similarity).				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		CCGGTCCCCCGCCATCTGTCT	0.687													8	19					0	0	0.008291	0	0		A	48188645	A	A	48188645	2	1	4	1	0	0	0	0	0	0	0	1	7028	1074	38	1		1	HDAC7	12	48188645	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	115354	48188645	85663250	2783	4749											
VDR	7421	broad.mit.edu	37	chr12	48240547	48240547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaacatgatgacctcaatgGcacttgacttcagcagtacg	12	9	9	11	1	2	3	2	3	0	0	2	3	2	3	1	1	3	4	1	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48240547G>A	uc001rqm.2	-	9	1082	c.800C>T	c.(799-801)GCC>GTC	p.A267V	VDR_uc001rql.2_Missense_Mutation_p.A317V|VDR_uc001rqn.2_Missense_Mutation_p.A267V|VDR_uc010slq.1_Missense_Mutation_p.A235V	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	267	Ligand-binding.				decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	GACCTCAATGGCACTTGACTT	0.547													25	52					0	0	0.002836	0	0		A	48240547	A	A	48240547	3	1	4	1	0	0	0	0	1	0	0	0	17175	1203	42	2	495	2	VDR	12	48240547	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	51902	48240547	85611348	2784	4750											
TMEM106C	79022	broad.mit.edu	37	chr12	48361942	48361942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtgaagatttcatacattgGcctcatgacccagagctcct	11	11	8	11	0	2	4	2	2	0	2	3	4	3	4	3	1	2	1	3	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48361942G>A	uc001rqp.2	+	8	798	c.683G>A	c.(682-684)GGC>GAC	p.G228D	TMEM106C_uc001rqo.2_Missense_Mutation_p.G209D|TMEM106C_uc001rqr.2_Missense_Mutation_p.G228D|TMEM106C_uc001rqq.2_Missense_Mutation_p.G209D	NM_024056	NP_076961	Q9BVX2	T106C_HUMAN	transmembrane protein 106C isoform a	228						endoplasmic reticulum membrane|integral to membrane					0		Acute lymphoblastic leukemia(13;0.11)		GBM - Glioblastoma multiforme(48;0.241)		TCATACATTGGCCTCATGACC	0.413													5	55					0	0	0.001168	0	0		A	48361942	A	A	48361942	3	1	4	1	0	0	0	0	1	0	0	0	16047	1203	42	2	709	2	TMEM106C	12	48361942	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	121395	48361942	85489953	2785	4751											
COL2A1	1280	broad.mit.edu	37	chr12	48369182	48369182	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagccctcggggctgcggatGctctcaatctggttgttgag	5	11	15	10	2	2	1	1	1	2	0	4	3	2	2	1	4	3	4	1	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48369182G>A	uc001rqu.2	-	51	3985	c.3804C>T	c.(3802-3804)AGC>AGT	p.S1268S	COL2A1_uc001rqt.2_Silent_p.S49S|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Silent_p.S1199S	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1268	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	GGCTGCGGATGCTCTCAATCT	0.617													11	24					0	0	0.003163	0	0		A	48369182	A	A	48369182	2	1	4	1	0	0	0	0	0	0	0	1	3690	1310	46	2		2	COL2A1	12	48369182	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	7240	48369182	85482713	2786	4752											
SENP1	29843	broad.mit.edu	37	chr12	48477397	48477397	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgctgtactaacatgtcGcctctgagttttcttggggc	5	16	10	10	1	3	1	0	1	3	0	4	1	3	1	1	2	3	3	1	2	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48477397G>A	uc001rqx.2	-	6	975	c.529C>T	c.(529-531)CGA>TGA	p.R177*	SENP1_uc001rqw.2_Nonsense_Mutation_p.R177*|SENP1_uc001rqy.2_5'UTR|SENP1_uc001rqz.2_5'UTR|SENP1_uc009zkx.2_Nonsense_Mutation_p.R177*	NM_014554	NP_055369	Q9P0U3	SENP1_HUMAN	sentrin/SUMO-specific protease 1	177	Nuclear localization signal (Probable).				activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)				CTAACATGTCGCCTCTGAGTT	0.398													12	52					0	0	0.001855	0	0		A	48477397	A	A	48477397	4	1	4	1	0	0	0	0	0	1	0	0	14071	1095	38	1	1454	1	SENP1	12	48477397	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	108215	48477397	85374498	2787	4753											
PFKM	5213	broad.mit.edu	37	chr12	48534513	48534513	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcctgtatagagtggttcGcacacagtggctgtgatgaa	9	11	12	9	1	0	3	0	2	0	1	2	3	1	3	2	2	0	4	2	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48534513G>A	uc001rrc.2	+	14	1370	c.1200G>A	c.(1198-1200)TCG>TCA	p.S400S	PFKM_uc001rra.1_Silent_p.S85S|PFKM_uc001rrb.1_Silent_p.S471S|PFKM_uc001rrd.2_Silent_p.S85S|PFKM_uc001rre.1_Silent_p.S400S|PFKM_uc001rrg.1_Silent_p.S369S	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	400					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						AGAGTGGTTCGCACACAGTGG	0.567													11	28					0	0	0.008871	0	0		A	48534513	A	A	48534513	2	1	4	1	0	0	0	0	0	0	0	1	11784	1074	38	1		1	PFKM	12	48534513	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	57116	48534513	85317382	2788	4754											
ASB8	140461	broad.mit.edu	37	chr12	48543596	48543596	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggcattgacagaggccccGctctctaggagagcccgcac	9	5	13	14	2	1	3	0	1	1	2	2	4	1	3	3	3	1	3	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48543596G>A	uc001rrh.2	-	4	589	c.420C>T	c.(418-420)AGC>AGT	p.S140S	ASB8_uc010slr.1_Silent_p.S136S	NM_024095	NP_077000	Q9H765	ASB8_HUMAN	ankyrin repeat and SOCS box-containing 8	140	ANK 3.				intracellular signal transduction	cytoplasm|nucleus				kidney(1)	1						CAGAGGCCCCGCTCTCTAGGA	0.517													13	48					0	0	0.001368	0	0		A	48543596	A	A	48543596	2	1	4	1	0	0	0	0	0	0	0	1	1030	1078	38	1		1	ASB8	12	48543596	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	9083	48543596	85308299	2789	4755											
ANP32D	23519	broad.mit.edu	37	chr12	48866816	48866816	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcttagaccttttcacttgCgaggtaaccaacctgaacaa	13	10	7	11	1	1	2	1	1	0	1	1	3	1	2	3	1	5	2	3	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48866816C>T	uc010slt.1	+	1	369	c.369C>T	c.(367-369)TGC>TGT	p.C123C		NM_012404	NP_036536	O95626	AN32D_HUMAN	acidic nuclear phosphoprotein 32D	123	LRR 5.									ovary(1)|central_nervous_system(1)	2						TTTTCACTTGCGAGGTAACCA	0.438													5	88					0	0	0.000602	0	0		T	48866816	T	T	48866816	2	4	4	1	0	0	0	0	0	0	0	1	708	776	27	1		1	ANP32D	12	48866816	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	323220	48866816	84985079	2790	4756											
DDX23	9416	broad.mit.edu	37	chr12	49227064	49227064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaagcagccttacttggCggtacttatgttttcccgac	8	12	11	10	2	0	0	0	0	0	0	1	2	1	1	2	3	4	3	2	3	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49227064C>T	uc001rsm.2	-	13	1890	c.1799G>A	c.(1798-1800)CGC>CAC	p.R600H		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	600	Helicase ATP-binding.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6						CCTTACTTGGCGGTACTTATG	0.383													5	74					0	0	0.001168	0	0		T	49227064	T	T	49227064	3	4	4	1	0	0	0	0	1	0	0	0	4353	768	27	1	683	1	DDX23	12	49227064	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	360248	49227064	84624831	2791	4757											
PRKAG1	5571	broad.mit.edu	37	chr12	49397360	49397360	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgataacatcaaacttggagTagatgtccaccacacgccct	13	8	7	13	2	1	1	1	0	0	1	2	3	2	2	3	1	2	1	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49397360T>C	uc001rsy.2	-	10	791	c.722A>G	c.(721-723)TAC>TGC	p.Y241C	uc001rsw.2_Intron|PRKAG1_uc010smd.1_Missense_Mutation_p.Y209C|PRKAG1_uc001rsx.2_Missense_Mutation_p.Y157C|PRKAG1_uc001rsz.2_Missense_Mutation_p.Y250C|PRKAG1_uc009zlb.2_Missense_Mutation_p.Y53C	NM_002733	NP_002724	P54619	AAKG1_HUMAN	AMP-activated protein kinase, noncatalytic	241	CBS 3.				cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|positive regulation of protein kinase activity|regulation of fatty acid oxidation|regulation of glycolysis|spermatogenesis	cytosol	cAMP-dependent protein kinase activity|cAMP-dependent protein kinase regulator activity|protein kinase binding			kidney(1)	1						AAACTTGGAGTAGATGTCCAC	0.547													8	49					0	0	0.008291	0	0		C	49397360	C	C	49397360	3	2	4	1	0	0	0	0	1	0	0	0	12522	1638	57	3	285	3	PRKAG1	12	49397360	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	170296	49397360	84454535	2792	4758											
TUBA1C	84790	broad.mit.edu	37	chr12	49666675	49666675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgccaccatcaaaaccaagCgtaccatccagtttgtggat	12	10	7	12	1	1	0	1	0	0	0	2	1	2	1	5	1	4	2	5	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49666675C>T	uc001rtt.1	+	4	1115	c.1015C>T	c.(1015-1017)CGT>TGT	p.R339C	TUBA1C_uc001rts.2_Missense_Mutation_p.R304C|TUBA1C_uc010smh.1_Missense_Mutation_p.R409C|uc010smi.1_5'UTR	NM_032704	NP_116093	Q9BQE3	TBA1C_HUMAN	tubulin alpha 6	339					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0						CAAAACCAAGCGTACCATCCA	0.532													17	42					0	0	0.010504	0	0		T	49666675	T	T	49666675	3	4	4	1	0	0	0	0	1	0	0	0	16771	768	27	1	1029	1	TUBA1C	12	49666675	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	269315	49666675	84185220	2793	4759											
TROAP	10024	broad.mit.edu	37	chr12	49719532	49719532	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgttggtgtcccagggTgttcgggcctctgcatattt	3	15	12	11	1	2	0	0	0	2	0	4	0	3	0	3	3	1	3	3	3	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49719532T>C	uc001rtx.3	+	5	665	c.498T>C	c.(496-498)GGT>GGC	p.G166G	TROAP_uc009zlh.2_Silent_p.G166G|TROAP_uc001rty.2_5'Flank	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	166					cell adhesion	cytoplasm				ovary(1)	1						TGTCCCAGGGTGTTCGGGCCT	0.627													9	18					0	0	0.008291	0	0		C	49719532	C	C	49719532	2	2	4	1	0	0	0	0	0	0	0	1	16601	1683	59	3		3	TROAP	12	49719532	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	52857	49719532	84132363	2794	4760											
TROAP	10024	broad.mit.edu	37	chr12	49722962	49722962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacctcatattcagtgttgCggcgtctcaccgttcaacct	8	12	8	13	3	4	1	4	0	1	1	5	1	4	1	3	1	2	2	3	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49722962C>T	uc001rtx.3	+	10	1206	c.1039C>T	c.(1039-1041)CGG>TGG	p.R347W	TROAP_uc009zlh.2_Missense_Mutation_p.R347W|TROAP_uc001rty.2_Missense_Mutation_p.R55W	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	347					cell adhesion	cytoplasm				ovary(1)	1						TTCAGTGTTGCGGCGTCTCAC	0.567													12	185					0	0	0.004007	0	0		T	49722962	T	T	49722962	3	4	4	1	0	0	0	0	1	0	0	0	16601	759	27	1	1175	1	TROAP	12	49722962	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3430	49722962	84128933	2795	4761											
MCRS1	10445	broad.mit.edu	37	chr12	49952676	49952676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttggagccacagagcaccgGccgtccatcgatgtagatgg	9	8	13	11	3	0	2	0	0	0	2	2	4	1	3	4	3	2	2	4	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49952676G>A	uc001ruk.1	-	14	1443	c.1252C>T	c.(1252-1254)CCG>TCG	p.P418S	MCRS1_uc001rui.1_Missense_Mutation_p.P431S|MCRS1_uc001ruj.1_Missense_Mutation_p.P405S|MCRS1_uc001rul.1_Missense_Mutation_p.P418S|MCRS1_uc009zlj.1_Missense_Mutation_p.P227S|MCRS1_uc001rum.1_Missense_Mutation_p.P405S	NM_006337	NP_006328	Q96EZ8	MCRS1_HUMAN	microspherule protein 1 isoform 1	418	FHA.				DNA recombination|DNA repair|protein modification process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|MLL1 complex|nucleolus	protein binding			large_intestine(1)	1						CAGAGCACCGGCCGTCCATCG	0.557													15	28					0	0	0.006122	0	0		A	49952676	A	A	49952676	3	1	4	1	0	0	0	0	1	0	0	0	9417	1203	42	2	144	2	MCRS1	12	49952676	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	229714	49952676	83899219	2796	4762											
FAM186B	84070	broad.mit.edu	37	chr12	49994713	49994713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaggttctccaccacagtgGccatgtacctgatggccctg	7	10	11	13	0	1	2	0	2	1	0	2	2	1	2	5	3	1	2	5	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49994713G>A	uc001ruo.2	-	4	883	c.710C>T	c.(709-711)GCC>GTC	p.A237V	FAM186B_uc010smk.1_Missense_Mutation_p.A147V	NM_032130	NP_115506	Q8IYM0	F186B_HUMAN	hypothetical protein LOC84070	237						protein complex				ovary(1)	1						CACCACAGTGGCCATGTACCT	0.562													18	41					0	0	0.007413	0	0		A	49994713	A	A	49994713	3	1	4	1	0	0	0	0	1	0	0	0	5523	1203	42	2	1987	2	FAM186B	12	49994713	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	42037	49994713	83857182	2797	4763											
FMNL3	91010	broad.mit.edu	37	chr12	50043299	50043299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacttgacggaagcggacGccgcaatgatggcattgagt	12	7	14	8	4	0	4	0	3	0	1	0	6	0	6	1	3	1	2	1	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:50043299G>A	uc001ruv.1	-	19	2492	c.2258C>T	c.(2257-2259)GCG>GTG	p.A753V	FMNL3_uc001ruw.1_Missense_Mutation_p.A702V|FMNL3_uc001rut.1_Missense_Mutation_p.A319V|FMNL3_uc001ruu.1_Missense_Mutation_p.A603V	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1	753	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						GGAAGCGGACGCCGCAATGAT	0.542													15	45					0	0	0.006122	0	0		A	50043299	A	A	50043299	3	1	4	1	0	0	0	0	1	0	0	0	5967	1087	38	1	857	1	FMNL3	12	50043299	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	48586	50043299	83808596	2798	4764											
AQP6	363	broad.mit.edu	37	chr12	50367132	50367132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccctccgtgctacagattgCcatcaccttcaacctggtca	8	11	6	16	1	3	1	3	0	0	1	5	1	5	1	5	1	4	1	5	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:50367132C>T	uc001rvr.1	+	1	513	c.176C>T	c.(175-177)GCC>GTC	p.A59V	AQP6_uc001rvp.1_Intron|AQP6_uc001rvq.1_RNA	NM_001652	NP_001643	Q13520	AQP6_HUMAN	aquaporin 6	59	Helical; (Potential).				excretion|odontogenesis	integral to plasma membrane|transport vesicle membrane	anion channel activity|water channel activity				0						CTACAGATTGCCATCACCTTC	0.642													14	66					0	0	0.006122	0	0		T	50367132	T	T	50367132	3	4	4	1	0	0	0	0	1	0	0	0	830	739	26	2	178	2	AQP6	12	50367132	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	323833	50367132	83484763	2799	4765											
LIMA1	51474	broad.mit.edu	37	chr12	50594644	50594644	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttatgaattttgatttcGccaccactggctttcagctc	8	17	6	10	1	1	2	1	2	0	0	3	2	1	2	2	1	1	2	2	1	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:50594644G>A	uc001rwj.3	-	7	1062	c.888C>T	c.(886-888)GGC>GGT	p.G296G	LIMA1_uc001rwg.3_5'UTR|LIMA1_uc001rwh.3_Silent_p.G136G|LIMA1_uc001rwi.3_Silent_p.G136G|LIMA1_uc001rwk.3_Silent_p.G296G|LIMA1_uc010smr.1_RNA|LIMA1_uc010sms.1_RNA	NM_016357	NP_057441	Q9UHB6	LIMA1_HUMAN	LIM domain and actin binding 1 isoform b	296					actin filament bundle assembly|negative regulation of actin filament depolymerization|ruffle organization	cytoplasm|focal adhesion|stress fiber	actin filament binding|actin monomer binding|zinc ion binding			ovary(1)	1						TTTTGATTTCGCCACCACTGG	0.383													11	153					0	0	0.001368	0	0		A	50594644	A	A	50594644	2	1	4	1	0	0	0	0	0	0	0	1	8812	1074	38	1		1	LIMA1	12	50594644	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	227512	50594644	83257251	2800	4766											
LARP4	113251	broad.mit.edu	37	chr12	50856385	50856385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagaactctcttcagaggtcGaagacgacgagaagatgaca	15	6	12	8	3	2	6	1	1	1	5	4	10	2	6	0	1	1	0	0	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:50856385G>A	uc001rwp.1	+	12	1499	c.1355G>A	c.(1354-1356)CGA>CAA	p.R452Q	LARP4_uc001rwo.1_Missense_Mutation_p.R458Q|LARP4_uc001rwq.1_Missense_Mutation_p.R381Q|LARP4_uc001rwr.1_Missense_Mutation_p.R381Q|LARP4_uc001rws.1_Missense_Mutation_p.R451Q|LARP4_uc009zlr.1_Missense_Mutation_p.R271Q|LARP4_uc001rwt.1_Missense_Mutation_p.R43Q	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a	452							nucleotide binding|RNA binding			ovary(1)	1						TTCAGAGGTCGAAGACGACGA	0.383													24	52					0	0	0.003954	0	0		A	50856385	A	A	50856385	3	1	4	1	0	0	0	0	1	0	0	0	8646	1058	37	1	1405	1	LARP4	12	50856385	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	261741	50856385	82995510	2801	4767											
DIP2B	57609	broad.mit.edu	37	chr12	51128878	51128878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtctcgtggaacgtggcGcccctcagagtttgcttctc	4	13	11	13	4	3	1	1	0	2	1	6	2	3	2	2	2	2	2	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:51128878G>A	uc001rwv.2	+	34	4222	c.4066G>A	c.(4066-4068)GCC>ACC	p.A1356T	DIP2B_uc009zlt.2_Missense_Mutation_p.A786T	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1356						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						GGAACGTGGCGCCCCTCAGAG	0.493											OREG0021816	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	57					0	0	0.001168	0	0		A	51128878	A	A	51128878	3	1	4	1	0	0	0	0	1	0	0	0	4534	1087	38	1	4200	1	DIP2B	12	51128878	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	272493	51128878	82723017	2802	4768											
DIP2B	57609	broad.mit.edu	37	chr12	51138606	51138606	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttagaccccatctacgTggcttataacatgtaaccag	12	10	7	12	1	1	1	0	0	1	1	1	1	1	1	4	1	3	3	4	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:51138606T>C	uc001rwv.2	+	38	4871	c.4715T>C	c.(4714-4716)GTG>GCG	p.V1572A	DIP2B_uc009zlt.2_Missense_Mutation_p.V1002A	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1572						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						CCCATCTACGTGGCTTATAAC	0.522													4	63					0	0	0.009096	0	0		C	51138606	C	C	51138606	3	2	4	1	0	0	0	0	1	0	0	0	4534	1696	59	3	4865	3	DIP2B	12	51138606	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	9728	51138606	82713289	2803	4769											
DAZAP2	9802	broad.mit.edu	37	chr12	51636174	51636174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcatgcagggagccaacGtcctcgtaactcagcggaag	11	6	12	12	3	2	0	2	0	0	0	4	2	3	2	2	2	5	2	2	2	3	1	rs144235964		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:51636174G>A	uc010snd.1	+	4	546	c.362G>A	c.(361-363)CGT>CAT	p.R121H	DAZAP2_uc001ryb.2_Missense_Mutation_p.V125I|DAZAP2_uc010snc.1_Missense_Mutation_p.V65I|DAZAP2_uc010sne.1_Missense_Mutation_p.V115I|DAZAP2_uc010snf.1_Intron	NM_001136266	NP_001129738	Q15038	DAZP2_HUMAN	DAZ associated protein 2 isoform c	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							WW domain binding				0						GGGAGCCAACGTCCTCGTAAC	0.562													67	202					0	0	0.00361	0	0		A	51636174	A	A	51636174	3	1	4	1	0	0	0	0	1	0	0	0	4248	1145	40	1	453	1	DAZAP2	12	51636174	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	497568	51636174	82215721	2804	4770											
BIN2	51411	broad.mit.edu	37	chr12	51693445	51693445	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttctgcactgcctccaggtgGtgtcgggcactgtcatagtc	5	12	12	12	1	2	0	1	0	1	0	5	0	3	0	2	3	2	2	2	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:51693445G>A	uc001ryg.2	-	6	514	c.462C>T	c.(460-462)CAC>CAT	p.H154H	BIN2_uc009zlz.2_Silent_p.H122H|BIN2_uc001ryh.2_Silent_p.H30H|BIN2_uc010sng.1_Silent_p.H128H	NM_016293	NP_057377	Q9UBW5	BIN2_HUMAN	bridging integrator 2	154	BAR.					cytoplasm	protein binding			ovary(1)	1						CCTCCAGGTGGTGTCGGGCAC	0.488													38	94					0	0	0.00874	0	0		A	51693445	A	A	51693445	2	1	4	1	0	0	0	0	0	0	0	1	1434	1252	44	4		4	BIN2	12	51693445	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	57271	51693445	82158450	2805	4771											
GALNT6	11226	broad.mit.edu	37	chr12	51757930	51757930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtaggtttcatccttgcGcctctgcttctcatgtggag	4	14	13	10	1	3	0	2	0	2	0	5	1	4	1	2	4	2	3	2	4	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:51757930G>A	uc001ryk.2	-	5	1249	c.1024C>T	c.(1024-1026)CGC>TGC	p.R342C	GALNT6_uc009zma.1_RNA|GALNT6_uc001ryl.1_Missense_Mutation_p.R342C	NM_007210	NP_009141	Q8NCL4	GALT6_HUMAN	polypeptide N-acetylgalactosaminyltransferase 6	342	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|perinuclear region of cytoplasm	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						TCATCCTTGCGCCTCTGCTTC	0.597													24	70					0	0	0.004656	0	0		A	51757930	A	A	51757930	3	1	4	1	0	0	0	0	1	0	0	0	6232	1087	38	1	872	1	GALNT6	12	51757930	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	64485	51757930	82093965	2806	4772											
SLC4A8	9498	broad.mit.edu	37	chr12	51856118	51856118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcatgacgtagcatataagGcaaaagagcgagatgatctc	15	9	10	7	2	2	4	1	2	1	2	3	5	2	4	0	1	2	3	0	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:51856118G>A	uc001rys.1	+	10	1304	c.1126G>A	c.(1126-1128)GCA>ACA	p.A376T	SLC4A8_uc010sni.1_Missense_Mutation_p.A323T|SLC4A8_uc001rym.2_Missense_Mutation_p.A323T|SLC4A8_uc001ryn.2_Missense_Mutation_p.A323T|SLC4A8_uc001ryo.2_Missense_Mutation_p.A323T|SLC4A8_uc001ryp.1_3'UTR|SLC4A8_uc010snj.1_Missense_Mutation_p.A403T|SLC4A8_uc001ryq.3_Missense_Mutation_p.A376T|SLC4A8_uc001ryr.2_Missense_Mutation_p.A376T|SLC4A8_uc010snk.1_Missense_Mutation_p.A323T	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	376	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		AGCATATAAGGCAAAAGAGCG	0.443													8	147					0	0	0.00308	0	0		A	51856118	A	A	51856118	3	1	4	1	0	0	0	0	1	0	0	0	14684	1203	42	2	1164	2	SLC4A8	12	51856118	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	98188	51856118	81995777	2807	4773											
SCN8A	6334	broad.mit.edu	37	chr12	52082586	52082586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcaatgtttcagctctacGcactttcagggtactgaggg	9	11	12	9	1	3	1	2	1	1	0	3	1	3	1	0	3	3	5	0	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:52082586G>A	uc001ryw.2	+	6	837	c.659G>A	c.(658-660)CGC>CAC	p.R220H	SCN8A_uc010snl.1_Missense_Mutation_p.R85H|SCN8A_uc001ryx.1_Missense_Mutation_p.R85H|SCN8A_uc001ryz.1_Intron|SCN8A_uc001ryy.2_Intron	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	220	Helical; Voltage-sensor; Name=S4 of repeat I; (Potential).|I.				axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	TCAGCTCTACGCACTTTCAGG	0.468													7	154					0	0	0.00308	0	0		A	52082586	A	A	52082586	3	1	4	1	0	0	0	0	1	0	0	0	13949	1087	38	1	677	1	SCN8A	12	52082586	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	226468	52082586	81769309	2808	4774											
ACVR1B	91	broad.mit.edu	37	chr12	52385715	52385715	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccttccattgaggaaatgCgaaaggttgtatgtgatcag	12	11	11	7	1	1	2	1	2	0	0	2	4	2	3	2	2	1	2	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:52385715C>T	uc001rzn.2	+	8	1372	c.1330C>T	c.(1330-1332)CGA>TGA	p.R444*	ACVR1B_uc001rzm.2_Nonsense_Mutation_p.R444*|ACVR1B_uc010snn.1_Nonsense_Mutation_p.R485*	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	444	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding	p.R485*(1)		pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	TGAGGAAATGCGAAAGGTTGT	0.488													31	120					0	0	0.003755	0	0		T	52385715	T	T	52385715	4	4	4	1	0	0	0	0	0	1	0	0	221	760	27	1	1487	1	ACVR1B	12	52385715	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	303129	52385715	81466180	2809	4775											
KRT86	3892	broad.mit.edu	37	chr12	52695732	52695732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcttactgtggtggccgcgCcttcagctgcatctcggcct	4	12	11	14	3	3	0	1	0	2	0	4	0	3	0	3	3	3	2	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:52695732C>T	uc010snq.1	+	2	165	c.32C>T	c.(31-33)GCC>GTC	p.A11V	KRT86_uc009zmg.2_Missense_Mutation_p.A11V|KRT81_uc001sac.2_Intron|KRT86_uc001sad.2_Missense_Mutation_p.A11V	NM_002284	NP_002275	O43790	KRT86_HUMAN	keratin 86	11	Head.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(357;0.189)		GGTGGCCGCGCCTTCAGCTGC	0.667													6	24					0	0	0.000978	0	0		T	52695732	T	T	52695732	3	4	4	1	0	0	0	0	1	0	0	0	8516	739	26	2	34	2	KRT86	12	52695732	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	310017	52695732	81156163	2810	4776											
KRT75	9119	broad.mit.edu	37	chr12	52822241	52822241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgctctgcatcagcaatgGccgtttgcaagctggaacac	9	9	11	12	1	2	0	1	0	1	0	2	1	2	1	1	2	6	7	1	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:52822241G>A	uc001saj.2	-	7	1203	c.1181C>T	c.(1180-1182)GCC>GTC	p.A394V		NM_004693	NP_004684	O95678	K2C75_HUMAN	keratin 75	394	Coil 2.|Rod.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.192)		ATCAGCAATGGCCGTTTGCAA	0.572													4	14					0	0	0.001168	0	0		A	52822241	A	A	52822241	3	1	4	1	0	0	0	0	1	0	0	0	8504	1203	42	2	486	2	KRT75	12	52822241	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	126509	52822241	81029654	2811	4777											
KRT6C	286887	broad.mit.edu	37	chr12	52864995	52864995	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccttgacctcagcgatgAtgctgtccaggtccaggttg	6	10	14	11	1	1	2	1	2	0	0	3	3	3	2	4	3	2	2	4	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:52864995A>T	uc001sal.3	-	5	1046	c.998T>A	c.(997-999)ATC>AAC	p.I333N		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C	333	Rod.|Linker 12.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)		CTCAGCGATGATGCTGTCCAG	0.582													57	148					0	0	0.00361	0	0		T	52864995	T	T	52864995	3	4	4	1	0	0	0	0	1	0	0	0	8498	333	12	5	716	5	KRT6C	12	52864995	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	42754	52864995	80986900	2812	4778											
KRT71	112802	broad.mit.edu	37	chr12	52940272	52940272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcagcatcagcgatggCtgtctccaggttggaagcct	7	10	12	12	1	3	0	2	0	1	0	4	2	3	1	2	3	4	4	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:52940272C>T	uc001sao.2	-	7	1193	c.1123G>A	c.(1123-1125)GCC>ACC	p.A375T		NM_033448	NP_258259	Q3SY84	K2C71_HUMAN	keratin 71	375	Coil 2.|Rod.						structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.194)		TCAGCGATGGCTGTCTCCAGG	0.587													5	20					0	0	0.001168	0	0		T	52940272	T	T	52940272	3	4	4	1	0	0	0	0	1	0	0	0	8500	797	28	2	460	2	KRT71	12	52940272	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	75277	52940272	80911623	2813	4779											
KRT8	3856	broad.mit.edu	37	chr12	53292668	53292668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcggcatctgcaatggcggCctccagggaagccctctgtg	6	8	13	14	2	2	0	0	0	2	0	4	1	3	1	3	4	2	2	3	4	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:53292668C>T	uc001sbd.2	-	6	1100	c.997G>A	c.(997-999)GCC>ACC	p.A333T	KRT8_uc009zmj.2_Intron|KRT8_uc009zmk.1_Missense_Mutation_p.A361T|KRT8_uc009zml.1_Missense_Mutation_p.A333T|KRT8_uc009zmm.1_Missense_Mutation_p.A333T	NM_002273	NP_002264	P05787	K2C8_HUMAN	keratin 8	333	Necessary for interaction with PNN.|Rod.|Coil 2.				cytoskeleton organization|interspecies interaction between organisms	cytoplasm|keratin filament|nuclear matrix|nucleoplasm	protein binding|structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.108)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCAATGGCGGCCTCCAGGGAA	0.642													8	28					0	0	0.006214	0	0		T	53292668	T	T	53292668	3	4	4	1	0	0	0	0	1	0	0	0	8509	739	26	2	466	2	KRT8	12	53292668	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	352396	53292668	80559227	2814	4780											
EIF4B	1975	broad.mit.edu	37	chr12	53428437	53428437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaactcaggaacgggaacGgtcgaggacaggaagtgagt	15	4	16	6	3	1	2	1	1	0	1	2	7	1	6	0	5	3	0	0	5	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:53428437G>A	uc001sbh.3	+	10	1456	c.1250G>A	c.(1249-1251)CGG>CAG	p.R417Q	EIF4B_uc010snu.1_Missense_Mutation_p.R417Q|EIF4B_uc010snv.1_Missense_Mutation_p.R378Q|EIF4B_uc001sbi.2_Missense_Mutation_p.R169Q	NM_001417	NP_001408	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	417					insulin receptor signaling pathway|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	nucleotide binding|translation initiation factor activity			breast(1)|kidney(1)	2						GAACGGGAACGGTCGAGGACA	0.498													5	184					0	0	0.000602	0	0		A	53428437	A	A	53428437	3	1	4	1	0	0	0	0	1	0	0	0	5035	1116	39	1	1288	1	EIF4B	12	53428437	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	135769	53428437	80423458	2815	4781											
TENC1	23371	broad.mit.edu	37	chr12	53446255	53446255	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctagtctgcaaggtggcgacGcacagaaaatgtgaagcaaa	15	6	12	8	2	1	2	0	1	1	1	1	3	1	2	0	2	2	3	0	2	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:53446255G>A	uc001sbp.2	+	3	336	c.201G>A	c.(199-201)ACG>ACA	p.T67T	uc001sbk.1_Intron|TENC1_uc001sbl.2_5'UTR|TENC1_uc001sbm.2_Silent_p.T77T|TENC1_uc001sbn.2_Silent_p.T77T|TENC1_uc001sbo.1_Silent_p.T67T	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	67	Phorbol-ester/DAG-type.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						AGGTGGCGACGCACAGAAAAT	0.567													39	131					0	0	0.00361	0	0		A	53446255	A	A	53446255	2	1	4	1	0	0	0	0	0	0	0	1	15783	1074	38	1		1	TENC1	12	53446255	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	17818	53446255	80405640	2816	4782											
SP7	121340	broad.mit.edu	37	chr12	53723085	53723085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtcactgcccacagagtaCggcttctttgtgcctgcttt	6	13	10	12	1	2	1	1	0	1	1	2	1	2	1	2	2	4	3	2	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:53723085C>T	uc001sct.2	-	2	248	c.141G>A	c.(139-141)CCG>CCA	p.P47P	SP7_uc001scu.2_Silent_p.P29P|SP7_uc001scv.2_Silent_p.P47P	NM_152860	NP_690599	Q8TDD2	SP7_HUMAN	osterix	47					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCACAGAGTACGGCTTCTTTG	0.572													31	107					0	0	0.004878	0	0		T	53723085	T	T	53723085	2	4	4	1	0	0	0	0	0	0	0	1	14994	523	19	1		1	SP7	12	53723085	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	276830	53723085	80128810	2817	4783											
SP1	6667	broad.mit.edu	37	chr12	53776267	53776267	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcaagtaatcccacagtTccagaccgttgatgggcaac	12	9	9	11	1	1	2	1	1	0	1	3	2	3	2	3	1	1	5	3	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:53776267T>C	uc001scw.2	+	3	633	c.536T>C	c.(535-537)TTC>TCC	p.F179S	SP1_uc010sog.1_Missense_Mutation_p.F172S	NM_138473	NP_612482	P08047	SP1_HUMAN	Sp1 transcription factor isoform a	179	Transactivation domain A (Gln-rich).				positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)		ATCCCACAGTTCCAGACCGTT	0.502													36	57					0	0	0.003755	0	0		C	53776267	C	C	53776267	3	2	4	1	0	0	0	0	1	0	0	0	14984	1783	62	3	546	3	SP1	12	53776267	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	53182	53776267	80075628	2818	4784											
HOXC10	3226	broad.mit.edu	37	chr12	54379097	54379097	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgcggagcccttggctgcGcccggcggaggagagcgcta	6	5	17	13	6	0	1	0	0	0	1	0	4	0	3	2	5	4	2	2	5	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:54379097G>A	uc001sen.2	+	1	152	c.54G>A	c.(52-54)GCG>GCA	p.A18A		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	18					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						CCTTGGCTGCGCCCGGCGGAG	0.592													28	59					0	0	0.002096	0	0		A	54379097	A	A	54379097	2	1	4	1	0	0	0	0	0	0	0	1	7325	1074	38	1		1	HOXC10	12	54379097	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	602830	54379097	79472798	2819	4785											
HOXC10	3226	broad.mit.edu	37	chr12	54379557	54379557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggccaacgacttcgaaGcccctttcgagcagcgggcc	7	6	13	15	4	0	0	0	0	0	0	2	3	0	0	4	3	4	1	4	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:54379557G>A	uc001sen.2	+	1	612	c.514G>A	c.(514-516)GCC>ACC	p.A172T		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	172					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						CGACTTCGAAGCCCCTTTCGA	0.652													6	22					0	0	0.006214	0	0		A	54379557	A	A	54379557	3	1	4	1	0	0	0	0	1	0	0	0	7325	971	34	2	516	2	HOXC10	12	54379557	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	460	54379557	79472338	2820	4786											
HOXC9	3225	broad.mit.edu	37	chr12	54396240	54396240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggccaactggattcacGcccgctccacgaggaagaag	10	5	12	14	4	1	1	1	0	0	1	2	4	2	3	4	3	1	1	4	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:54396240G>A	uc001sep.2	+	3	663	c.565G>A	c.(565-567)GCC>ACC	p.A189T	HOXC9_uc001seq.2_Missense_Mutation_p.A189T	NM_006897	NP_008828	P31274	HXC9_HUMAN	homeobox C9	189					multicellular organismal development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)|skin(1)	3						CTGGATTCACGCCCGCTCCAC	0.572													19	60					0	0	0.001882	0	0		A	54396240	A	A	54396240	3	1	4	1	0	0	0	0	1	0	0	0	7333	1087	38	1	571	1	HOXC9	12	54396240	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	16683	54396240	79455655	2821	4787											
HOXC6	3223	broad.mit.edu	37	chr12	54423569	54423569	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcatcgagatcgccaacgcGctttgcctgaccgagcgaca	9	6	11	15	7	0	2	0	1	0	1	2	5	0	2	3	0	3	2	3	0	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:54423569G>A	uc001sev.2	+	2	643	c.531G>A	c.(529-531)GCG>GCA	p.A177A	HOXC6_uc001ses.2_Silent_p.A95A|HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron	NM_004503	NP_004494	P09630	HXC6_HUMAN	homeobox C6 isoform 1	177	Homeobox.				regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|upper_aerodigestive_tract(1)	3						TCGCCAACGCGCTTTGCCTGA	0.567													19	63					0	0	0.00278	0	0		A	54423569	A	A	54423569	2	1	4	1	0	0	0	0	0	0	0	1	7331	1074	38	1		1	HOXC6	12	54423569	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	27329	54423569	79428326	2822	4788											
HOXC5	3222	broad.mit.edu	37	chr12	54428168	54428168	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgccgcaggcgcatagaGatcgccaacaacttgtgtct	10	8	10	13	4	1	1	0	0	1	1	3	2	1	1	2	1	2	2	2	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:54428168G>T	uc001sew.2	+	2	636	c.561G>T	c.(559-561)GAG>GAT	p.E187D	HOXC5_uc001set.2_RNA|HOXC4_uc001seu.2_Intron	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	187	Homeobox.				regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGCGCATAGAGATCGCCAACA	0.498													27	88					3.86903e-22	4.24374e-22	0.002836	1	0		T	54428168	T	T	54428168	3	4	4	1	0	0	0	0	1	0	0	0	7330	933	33	5	567	5	HOXC5	12	54428168	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4599	54428168	79423727	2823	4789											
ITGA5	3678	broad.mit.edu	37	chr12	54799107	54799107	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacctcctgaggccgcccGtcaggggtccgatccatgag	6	6	12	17	3	1	2	1	2	0	0	4	3	4	2	7	3	0	0	7	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:54799107G>A	uc001sga.2	-	12	1136	c.1068C>T	c.(1066-1068)GAC>GAT	p.D356D	ITGA5_uc010sow.1_RNA|ITGA5_uc009znp.1_RNA	NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	356	Extracellular (Potential).|FG-GAP 5.				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						GAGGCCGCCCGTCAGGGGTCC	0.642													6	3					0	0	0.001168	0	0		A	54799107	A	A	54799107	2	1	4	1	0	0	0	0	0	0	0	1	7895	1136	40	1		1	ITGA5	12	54799107	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	370939	54799107	79052788	2824	4790											
NEUROD4	58158	broad.mit.edu	37	chr12	55420335	55420335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaaggaggaagagagcagaCcaggtacttatgggatgctc	13	7	15	6	0	0	3	0	1	0	2	1	7	0	6	1	4	3	3	1	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:55420335C>T	uc001sgp.3	+	2	490	c.112C>T	c.(112-114)CCA>TCA	p.P38S		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	38					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						AGAGAGCAGACCAGGTACTTA	0.413													5	49					0	0	0.001168	0	0		T	55420335	T	T	55420335	3	4	4	1	0	0	0	0	1	0	0	0	10369	507	18	4	114	4	NEUROD4	12	55420335	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	621228	55420335	78431560	2825	4791											
NEUROD4	58158	broad.mit.edu	37	chr12	55420539	55420539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgcatggcctgaatgacGccctggataacctgaggcga	10	7	14	10	2	0	3	0	3	0	0	0	6	0	5	3	4	2	1	3	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:55420539G>A	uc001sgp.3	+	2	694	c.316G>A	c.(316-318)GCC>ACC	p.A106T		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	106	Helix-loop-helix motif.				amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						CCTGAATGACGCCCTGGATAA	0.483													8	78					0	0	0.006214	0	0		A	55420539	A	A	55420539	3	1	4	1	0	0	0	0	1	0	0	0	10369	1087	38	1	318	1	NEUROD4	12	55420539	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	204	55420539	78431356	2826	4792											
OR6C3	254786	broad.mit.edu	37	chr12	55726283	55726283	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcaaaagaaaaggcatcaTtgacaaaaggaatagctatt	19	8	8	6	0	1	2	1	1	0	1	1	3	1	3	0	2	2	3	0	2	9	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:55726283T>C	uc010spj.1	+	1	799	c.799T>C	c.(799-801)TTG>CTG	p.L267L		NM_054104	NP_473445	Q9NZP0	OR6C3_HUMAN	olfactory receptor, family 6, subfamily C,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AAAGGCATCATTGACAAAAGG	0.383													13	44					0	0	0.001368	0	0		C	55726283	C	C	55726283	2	2	4	1	0	0	0	0	0	0	0	1	11211	1490	52	3		3	OR6C3	12	55726283	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	305744	55726283	78125612	2827	4793											
OR6C65	403282	broad.mit.edu	37	chr12	55794672	55794672	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcatgtcttatgatcgCtatgtggctatctgcaaacc	8	14	9	10	1	3	1	1	1	2	0	4	1	3	1	1	1	2	4	1	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:55794672C>T	uc010spl.1	+	1	360	c.360C>T	c.(358-360)CGC>CGT	p.R120R		NM_001005518	NP_001005518	A6NJZ3	O6C65_HUMAN	olfactory receptor, family 6, subfamily C,	120	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTATGATCGCTATGTGGCTA	0.378													32	88					0	0	0.003271	0	0		T	55794672	T	T	55794672	2	4	4	1	0	0	0	0	0	0	0	1	11214	784	28	2		2	OR6C65	12	55794672	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	68389	55794672	78057223	2828	4794											
GDF11	10220	broad.mit.edu	37	chr12	56143477	56143477	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactactgctccggccagtgCgagtacatgttcatgcaaaa	12	9	9	11	2	1	0	1	0	0	0	2	1	2	0	2	1	6	4	2	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:56143477C>T	uc001shq.2	+	3	1072	c.1035C>T	c.(1033-1035)TGC>TGT	p.C345C	GDF11_uc010spv.1_Silent_p.C345C	NM_005811	NP_005802	O95390	GDF11_HUMAN	growth differentiation factor 11 precursor	345					growth|mesoderm development|skeletal system development	extracellular space	cytokine activity|growth factor activity			kidney(1)	1						CCGGCCAGTGCGAGTACATGT	0.562													7	124					0	0	0.004482	0	0		T	56143477	T	T	56143477	2	4	4	1	0	0	0	0	0	0	0	1	6327	776	27	1		1	GDF11	12	56143477	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	348805	56143477	77708418	2829	4795											
DGKA	1606	broad.mit.edu	37	chr12	56346910	56346910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagctcaagaatgctggaCgtcggctggccaagtgctct	9	8	12	12	2	2	1	1	0	1	1	3	2	2	2	2	3	3	4	2	3	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:56346910C>T	uc001sij.2	+	22	2293	c.2029C>T	c.(2029-2031)CGT>TGT	p.R677C	DGKA_uc001sik.2_Missense_Mutation_p.R677C|DGKA_uc001sil.2_Missense_Mutation_p.R677C|DGKA_uc001sim.2_Missense_Mutation_p.R677C|DGKA_uc001sin.2_Missense_Mutation_p.R677C|DGKA_uc009zof.2_Missense_Mutation_p.R323C|DGKA_uc001sio.2_Missense_Mutation_p.R419C	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	677					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	GAATGCTGGACGTCGGCTGGC	0.562													16	55					0	0	0.007413	0	0		T	56346910	T	T	56346910	3	4	4	1	0	0	0	0	1	0	0	0	4471	536	19	1	2111	1	DGKA	12	56346910	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	203433	56346910	77504985	2830	4796											
ERBB3	2065	broad.mit.edu	37	chr12	56478854	56478854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccattgcccaacctccgcGtggtgcgagggacccaggtc	7	7	12	15	3	0	0	0	0	0	0	2	2	1	1	5	3	4	0	5	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:56478854G>A	uc001sjh.2	+	3	503	c.310G>A	c.(310-312)GTG>ATG	p.V104M	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.V45M|ERBB3_uc001sjg.2_Missense_Mutation_p.V104M	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	104	Extracellular (Potential).		V -> M (in an ovarian mucinous carcinoma sample; somatic mutation).		cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity	p.V104M(1)		lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CAACCTCCGCGTGGTGCGAGG	0.517													10	117					0	0	0.006214	0	0		A	56478854	A	A	56478854	3	1	4	1	0	0	0	0	1	0	0	0	5216	1145	40	1	320	1	ERBB3	12	56478854	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	131944	56478854	77373041	2831	4797											
PAN2	9924	broad.mit.edu	37	chr12	56716264	56716264	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccactgctggtgagtaacGccctatggaaatacaaagaa	15	8	9	9	1	0	2	0	1	0	1	0	3	0	3	2	2	4	2	2	2	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:56716264G>A	uc001skx.2	-	19	3025	c.2652C>T	c.(2650-2652)GGC>GGT	p.G884G	PAN2_uc001skw.2_Silent_p.G32G|PAN2_uc001skz.2_Silent_p.G883G|PAN2_uc001sky.2_Silent_p.G880G	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	884					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						GGTGAGTAACGCCCTATGGAA	0.433													19	66					0	0	0.008871	0	0		A	56716264	A	A	56716264	2	1	4	1	0	0	0	0	0	0	0	1	11433	1074	38	1		1	PAN2	12	56716264	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	237410	56716264	77135631	2832	4798											
TIMELESS	8914	broad.mit.edu	37	chr12	56811784	56811784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcggctctttaccaacagCgtcttcctctgcaatgacca	9	10	7	15	2	3	1	0	1	3	0	4	1	4	1	3	1	5	2	3	1	3	3	rs150055938	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:56811784C>T	uc001slf.2	-	28	3631	c.3463G>A	c.(3463-3465)GCT>ACT	p.A1155T		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	1155					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						TTACCAACAGCGTCTTCCTCT	0.502													30	95					0	0	0.002445	0	0		T	56811784	T	T	56811784	3	4	4	1	0	0	0	0	1	0	0	0	15929	768	27	1	171	1	TIMELESS	12	56811784	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	95520	56811784	77040111	2833	4799											
BAZ2A	11176	broad.mit.edu	37	chr12	56992460	56992460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggctctcgaagaagcggCgcatgatgtgcccagccttg	8	7	14	12	4	1	2	0	1	1	1	2	3	1	2	2	2	4	2	2	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:56992460C>T	uc001slq.1	-	29	5854	c.5660G>A	c.(5659-5661)CGC>CAC	p.R1887H	BAZ2A_uc001slp.1_Missense_Mutation_p.R1885H|BAZ2A_uc001slo.1_Missense_Mutation_p.R693H|BAZ2A_uc009zov.1_Missense_Mutation_p.R853H|BAZ2A_uc009zow.1_Missense_Mutation_p.R1855H	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1887					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						GAAGAAGCGGCGCATGATGTG	0.562													8	37					0	0	0.004482	0	0		T	56992460	T	T	56992460	3	4	4	1	0	0	0	0	1	0	0	0	1332	768	27	1	61	1	BAZ2A	12	56992460	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	180676	56992460	76859435	2834	4800											
ZBTB39	9880	broad.mit.edu	37	chr12	57397343	57397343	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatactttcccacaggcagcGcatttcagctctggggaggc	9	9	11	12	1	2	0	1	0	1	0	3	1	3	1	1	4	3	3	1	4	2	3	rs150115700		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:57397343G>A	uc001sml.1	-	2	1445	c.1359C>T	c.(1357-1359)TGC>TGT	p.C453C	RDH16_uc010sqx.1_5'Flank	NM_014830	NP_055645	O15060	ZBT39_HUMAN	zinc finger and BTB domain containing 39	453					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						CACAGGCAGCGCATTTCAGCT	0.552													12	33					0	0	0.003163	0	0		A	57397343	A	A	57397343	2	1	4	1	0	0	0	0	0	0	0	1	17565	1079	38	1		1	ZBTB39	12	57397343	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	404883	57397343	76454552	2835	4801											
LRP1	4035	broad.mit.edu	37	chr12	57548147	57548147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggcattgccctggaccctgCcatggggtgagagtggcagg	6	7	18	10	0	0	1	0	1	0	1	0	3	0	2	3	6	2	2	3	6	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:57548147C>T	uc001snd.2	+	7	1464	c.998C>T	c.(997-999)GCC>GTC	p.A333V	LRP1_uc001snc.1_Missense_Mutation_p.A333V	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	333	Extracellular (Potential).|LDL-receptor class B 1.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CTGGACCCTGCCATGGGGTGA	0.552													4	28					0	0	0.009096	0	0		T	57548147	T	T	57548147	3	4	4	1	0	0	0	0	1	0	0	0	8969	739	26	2	1024	2	LRP1	12	57548147	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	150804	57548147	76303748	2836	4802											
LRP1	4035	broad.mit.edu	37	chr12	57595585	57595585	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgacctgtggtgtggaCgagttccgctgcaaggattc	8	10	14	9	2	0	2	0	1	0	1	2	5	1	4	2	3	1	3	2	3	1	2	rs138672668		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:57595585C>T	uc001snd.2	+	67	10957	c.10491C>T	c.(10489-10491)GAC>GAT	p.D3497D		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3497	Extracellular (Potential).|LDL-receptor class A 25.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GTGGTGTGGACGAGTTCCGCT	0.627													15	56					0	0	0.00499	0	0		T	57595585	T	T	57595585	2	4	4	1	0	0	0	0	0	0	0	1	8969	535	19	1		1	LRP1	12	57595585	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	47438	57595585	76256310	2837	4803											
LRP1	4035	broad.mit.edu	37	chr12	57605717	57605717	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttccctccagatatagcCtccatcctaatccctctgct	7	13	3	18	0	2	1	0	0	2	1	7	1	7	1	6	0	2	1	6	0	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:57605717C>A	uc001snd.2	+	87	13732	c.13266C>A	c.(13264-13266)GCC>GCA	p.A4422A		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	4422	Helical; (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CAGATATAGCCTCCATCCTAA	0.602													7	34					0.000442599	0.000462162	0.006214	1	0		A	57605717	A	A	57605717	2	1	4	1	0	0	0	0	0	0	0	1	8969	668	24	5		5	LRP1	12	57605717	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10132	57605717	76246178	2838	4804											
NXPH4	11247	broad.mit.edu	37	chr12	57619402	57619402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacacgcagagccaggccGcctggctctgtgccaagccc	8	4	12	17	2	1	1	0	0	1	1	1	1	1	1	5	2	4	3	5	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:57619402G>A	uc010srf.1	+	2	974	c.799G>A	c.(799-801)GCC>ACC	p.A267T	NXPH4_uc009zpj.2_Missense_Mutation_p.A73T	NM_007224	NP_009155	O95158	NXPH4_HUMAN	neurexophilin 4 precursor	267	V (Cys-rich).				neuropeptide signaling pathway	extracellular region					0						GAGCCAGGCCGCCTGGCTCTG	0.567													10	16					0	0	0.006214	0	0		A	57619402	A	A	57619402	3	1	4	1	0	0	0	0	1	0	0	0	10812	1087	38	1	805	1	NXPH4	12	57619402	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	13685	57619402	76232493	2839	4805											
GEFT	115557	broad.mit.edu	37	chr12	58009072	58009072	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgcaacgatatgatgaCgctggggagattgcggggat	9	8	17	7	4	0	3	0	2	0	1	0	6	0	4	0	4	3	3	0	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:58009072C>T	uc001spb.2	+	11	1473	c.1013C>T	c.(1012-1014)ACG>ATG	p.T338M	GEFT_uc009zpy.2_Missense_Mutation_p.T377M|GEFT_uc001soz.1_Intron|GEFT_uc001spa.2_Missense_Mutation_p.T232M|uc001spc.2_RNA|GEFT_uc001spd.2_Missense_Mutation_p.T43M	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	338					regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					GATATGATGACGCTGGGGAGA	0.562													10	26					0	0	0.000978	0	0		T	58009072	T	T	58009072	3	4	4	1	0	0	0	0	1	0	0	0	6343	536	19	1	1277	1	GEFT	12	58009072	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	389670	58009072	75842823	2840	4806											
OS9	10956	broad.mit.edu	37	chr12	58090083	58090083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagcagcatcgtcttaaacGctaccacagccagacctatg	13	7	7	14	2	1	1	0	0	1	1	2	1	1	1	3	0	5	3	3	0	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:58090083G>A	uc001spj.2	+	5	565	c.506G>A	c.(505-507)CGC>CAC	p.R169H	OS9_uc010srx.1_Intron|OS9_uc001spk.2_Missense_Mutation_p.R169H|OS9_uc001spl.2_Missense_Mutation_p.R169H|OS9_uc001spm.2_Missense_Mutation_p.R169H|OS9_uc001spn.2_Missense_Mutation_p.R169H|OS9_uc010sry.1_Intron|OS9_uc010srz.1_Missense_Mutation_p.R110H	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	169	PRKCSH.				ER-associated protein catabolic process|protein retention in ER lumen|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to endoplasmic reticulum stress	endoplasmic reticulum lumen|Hrd1p ubiquitin ligase complex	glycoprotein binding|protein binding|sugar binding			ovary(1)	1	all_neural(12;0.00548)|Glioma(12;0.0126)|Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			CGTCTTAAACGCTACCACAGC	0.557													18	33					0	0	0.00278	0	0		A	58090083	A	A	58090083	3	1	4	1	0	0	0	0	1	0	0	0	11291	1087	38	1	524	1	OS9	12	58090083	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	81011	58090083	75761812	2841	4807											
AGAP2	116986	broad.mit.edu	37	chr12	58120958	58120958	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccgaggtgctcagcggCgccaggaacagtagctgctc	7	7	13	14	3	1	0	1	0	0	0	4	2	3	1	3	3	5	4	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:58120958C>T	uc001spq.2	-	18	3135	c.3135G>A	c.(3133-3135)GCG>GCA	p.A1045A	AGAP2_uc001spo.1_5'Flank|AGAP2_uc001spp.2_Silent_p.A1044A|AGAP2_uc001spr.2_Silent_p.A689A|LOC100130776_uc001sps.3_Silent_p.G61G	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	1045	Arf-GAP.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						TGCTCAGCGGCGCCAGGAACA	0.672											OREG0021951	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	5					0	0	0.009096	0	0		T	58120958	T	T	58120958	2	4	4	1	0	0	0	0	0	0	0	1	368	755	27	1		1	AGAP2	12	58120958	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	30875	58120958	75730937	2842	4808											
AVIL	10677	broad.mit.edu	37	chr12	58197057	58197057	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtatctaggagcatcacGtcagtagggttcaggtcatc	10	10	12	9	1	5	0	4	0	1	0	6	1	5	1	0	4	1	4	0	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:58197057G>A	uc001sqj.1	-	15	1964	c.1935C>T	c.(1933-1935)GAC>GAT	p.D645D	AVIL_uc009zqe.1_Silent_p.D638D|AVIL_uc001sqk.1_Silent_p.D223D	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	645	Gelsolin-like 6.|Core (By similarity).				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					GGAGCATCACGTCAGTAGGGT	0.478											OREG0021955	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	123					0	0	0.00874	0	0		A	58197057	A	A	58197057	2	1	4	1	0	0	0	0	0	0	0	1	1228	1136	40	1		1	AVIL	12	58197057	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	76099	58197057	75654838	2843	4809											
CTDSP2	10106	broad.mit.edu	37	chr12	58223300	58223300	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacttgactggccaacatgCtgggcgcgaaaacagcagaa	14	5	12	10	2	0	2	0	1	0	1	0	4	0	2	1	2	5	2	1	2	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:58223300C>T	uc001sqm.2	-	2	673	c.144G>A	c.(142-144)CAG>CAA	p.Q48Q	CTDSP2_uc009zqf.2_5'UTR|CTDSP2_uc009zqg.2_Intron	NM_005730	NP_005721	O14595	CTDS2_HUMAN	nuclear LIM interactor-interacting factor 2	48					protein dephosphorylation	nucleus|soluble fraction	CTD phosphatase activity|metal ion binding			central_nervous_system(1)	1	all_neural(12;0.00559)|Glioma(12;0.0143)|Melanoma(17;0.122)					GGCCAACATGCTGGGCGCGAA	0.537													9	155					0	0	0.004482	0	0		T	58223300	T	T	58223300	2	4	4	1	0	0	0	0	0	0	0	1	4007	796	28	2		2	CTDSP2	12	58223300	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	26243	58223300	75628595	2844	4810											
SLC16A7	9194	broad.mit.edu	37	chr12	60168512	60168512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctataggaagcgacccatgGcaaatggattggccatggca	12	8	12	9	1	1	0	0	0	1	0	1	3	1	2	2	5	1	2	2	5	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:60168512G>A	uc001sqs.2	+	5	735	c.436G>A	c.(436-438)GCA>ACA	p.A146T	SLC16A7_uc001sqt.2_Missense_Mutation_p.A146T|SLC16A7_uc001squ.2_Missense_Mutation_p.A146T|SLC16A7_uc009zqi.2_Missense_Mutation_p.A47T|SLC16A7_uc010ssi.1_Missense_Mutation_p.A47T	NM_004731	NP_004722	O60669	MOT2_HUMAN	solute carrier family 16, member 7	146	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	pyruvate secondary active transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(3;0.0303)	Pyruvic acid(DB00119)	GCGACCCATGGCAAATGGATT	0.418													7	52					0	0	0.00308	0	0		A	60168512	A	A	60168512	3	1	4	1	0	0	0	0	1	0	0	0	14438	1203	42	2	446	2	SLC16A7	12	60168512	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1945212	60168512	73683383	2845	4811											
MON2	23041	broad.mit.edu	37	chr12	62946678	62946678	+	Frame_Shift_Del	DEL	T	-	-																															tagtggaatatttcagattaTtttttccaaagaggggaaac																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:62946678delT	uc001sre.2	+	24	3325	c.2934delT	c.(2932-2934)TATfs	p.Y978fs	MON2_uc009zqj.2_Frame_Shift_Del_p.Y978fs|MON2_uc010ssl.1_Frame_Shift_Del_p.Y906fs|MON2_uc010ssm.1_Frame_Shift_Del_p.Y955fs|MON2_uc010ssn.1_Frame_Shift_Del_p.Y978fs|MON2_uc001srf.2_Frame_Shift_Del_p.Y741fs	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	979					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		TTTCAGATTATTTTTTCCAAA	0.333													37	76	---	---	---	---						.	-	62946678	-	-	62946678	7	5	4	1	0	1	0	1	0	0	0	0	9718	1500	52	0	3028	0	MON2	12	62946678	Frame_Shift_Del	DEL	T	TCGA-BR-4184-01A-01D-1126-08	2778166	62946678	70905217	2846	4812											
PPM1H	57460	broad.mit.edu	37	chr12	63182064	63182064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaggcaaatcacaatgagggCcgtgcagccaccagatatat	15	6	10	10	1	1	2	1	1	0	1	1	2	1	2	3	2	2	2	3	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:63182064C>T	uc001srk.3	-	4	960	c.811G>A	c.(811-813)GCC>ACC	p.A271T		NM_020700	NP_065751	Q9ULR3	PPM1H_HUMAN	protein phosphatase 1H (PP2C domain containing)	271	PP2C-like.						phosphoprotein phosphatase activity			lung(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;0.000443)|BRCA - Breast invasive adenocarcinoma(9;0.209)	GBM - Glioblastoma multiforme(28;0.0126)		ACAATGAGGGCCGTGCAGCCA	0.443													4	19					0	0	0.009096	0	0		T	63182064	T	T	63182064	3	4	4	1	0	0	0	0	1	0	0	0	12363	739	26	2	761	2	PPM1H	12	63182064	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	235386	63182064	70669831	2847	4813											
AVPR1A	552	broad.mit.edu	37	chr12	63543935	63543935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtacccaagatgaccacggGcgccacaaagatgccgcccg	11	3	12	15	4	0	3	0	1	0	2	0	3	0	3	5	2	2	1	5	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:63543935G>A	uc001sro.1	-	1	2656	c.682C>T	c.(682-684)CCC>TCC	p.P228S		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	228	Helical; Name=5; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	ATGACCACGGGCGCCACAAAG	0.622													14	31					0	0	0.00499	0	0		A	63543935	A	A	63543935	3	1	4	1	0	0	0	0	1	0	0	0	1232	1203	42	2	582	2	AVPR1A	12	63543935	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	361871	63543935	70307960	2848	4814											
AVPR1A	552	broad.mit.edu	37	chr12	63544099	63544099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgaagctcagcacccaggcgGccgcgatcatgaggcgcgag	9	3	15	14	6	2	1	2	1	0	0	2	4	2	1	2	3	2	2	2	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:63544099G>A	uc001sro.1	-	1	2492	c.518C>T	c.(517-519)GCC>GTC	p.A173V		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	173	Helical; Name=4; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	CACCCAGGCGGCCGCGATCAT	0.637													10	18					0	0	0.001855	0	0		A	63544099	A	A	63544099	3	1	4	1	0	0	0	0	1	0	0	0	1232	1203	42	2	746	2	AVPR1A	12	63544099	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	164	63544099	70307796	2849	4815											
SRGAP1	57522	broad.mit.edu	37	chr12	64377886	64377886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagcagaaaggttcatggCaaaaacaagaagcactaagg	18	6	11	6	0	1	2	1	0	0	2	1	2	1	2	0	3	3	5	0	3	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:64377886C>T	uc010ssp.1	+	2	283	c.227C>T	c.(226-228)GCA>GTA	p.A76V	SRGAP1_uc001srt.2_Missense_Mutation_p.A76V|SRGAP1_uc001srv.2_Missense_Mutation_p.A36V	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	76	FCH.				axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		AGGTTCATGGCAAAAACAAGA	0.398													39	121					0	0	0.009718	0	0		T	64377886	T	T	64377886	3	4	4	1	0	0	0	0	1	0	0	0	15170	710	25	2	233	2	SRGAP1	12	64377886	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	833787	64377886	69474009	2850	4816											
SRGAP1	57522	broad.mit.edu	37	chr12	64505708	64505708	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgagactattttcccaGatgctaaagagctggatggc	12	10	10	9	0	0	3	0	1	0	3	1	5	1	4	2	2	2	2	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:64505708G>T	uc010ssp.1	+	17	2142	c.2086G>T	c.(2086-2088)GAT>TAT	p.D696Y	SRGAP1_uc001srv.2_Missense_Mutation_p.D633Y	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	696					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		TATTTTCCCAGATGCTAAAGA	0.413													18	66					4.63292e-17	5.06035e-17	0.008871	1	0		T	64505708	T	T	64505708	3	4	4	1	0	0	0	0	1	0	0	0	15170	942	33	5	2152	5	SRGAP1	12	64505708	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	127822	64505708	69346187	2851	4817											
HELB	92797	broad.mit.edu	37	chr12	66703905	66703905	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacctgagaattcaagcgaTgatgcattgaatgagagcaa	17	8	10	6	1	1	4	1	4	0	2	1	7	1	4	1	0	4	2	1	0	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:66703905T>C	uc001sti.2	+	4	1225	c.1197T>C	c.(1195-1197)GAT>GAC	p.D399D	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	399					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		ATTCAAGCGATGATGCATTGA	0.418													52	156					0	0	0.00361	0	0		C	66703905	C	C	66703905	2	2	4	1	0	0	0	0	0	0	0	1	7061	1461	51	3		3	HELB	12	66703905	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2198197	66703905	67147990	2852	4818											
CAND1	55832	broad.mit.edu	37	chr12	67699777	67699777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggatacatggatttgttgCgcatgctgactggtccagtt	8	14	12	7	1	0	1	0	1	0	0	1	3	1	3	1	3	3	4	1	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:67699777C>T	uc001stn.2	+	10	2766	c.2329C>T	c.(2329-2331)CGC>TGC	p.R777C	CAND1_uc001sto.2_Missense_Mutation_p.R287C	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	777	HEAT 18.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		GGATTTGTTGCGCATGCTGAC	0.448													18	89					0	0	0.008871	0	0		T	67699777	T	T	67699777	3	4	4	1	0	0	0	0	1	0	0	0	2618	768	27	1	2367	1	CAND1	12	67699777	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	995872	67699777	66152118	2853	4819											
IFNG	3458	broad.mit.edu	37	chr12	68551823	68551823	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctttaaagtttttaaaaAgtttgaagtaaaaggagaca	18	13	7	3	0	1	2	0	1	1	1	1	3	1	2	0	1	0	3	0	1	8	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:68551823A>G	uc001stw.1	-	3	362	c.236T>C	c.(235-237)CTT>CCT	p.L79P		NM_000619	NP_000610	P01579	IFNG_HUMAN	interferon, gamma precursor	79					cell cycle arrest|interferon-gamma-mediated signaling pathway|negative regulation of interleukin-17 production|negative regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of metanephric nephron tubule epithelial cell differentiation|negative regulation of smooth muscle cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of fructose 1,6-bisphosphate 1-phosphatase activity|positive regulation of fructose 1,6-bisphosphate metabolic process|positive regulation of interleukin-12 production|positive regulation of interleukin-23 production|positive regulation of killing of cells of other organism|positive regulation of membrane protein ectodomain proteolysis|positive regulation of mesenchymal cell proliferation|positive regulation of nitric oxide biosynthetic process|positive regulation of osteoclast differentiation|positive regulation of peptidyl-serine phosphorylation of STAT protein|positive regulation of smooth muscle cell apoptosis|positive regulation of tumor necrosis factor (ligand) superfamily member 11 production|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of vitamin D biosynthetic process|protein import into nucleus, translocation|regulation of insulin secretion|regulation of interferon-gamma-mediated signaling pathway|response to virus	extracellular space	cytokine activity|interferon-gamma receptor binding				0			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000829)	Glucosamine(DB01296)|Interferon gamma-1b(DB00033)|Simvastatin(DB00641)	GTTTTTAAAAAGTTTGAAGTA	0.358													13	42					0	0	0.001368	0	0		G	68551823	G	G	68551823	3	3	4	1	0	0	0	0	1	0	0	0	7564	72	3	3	272	3	IFNG	12	68551823	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	852046	68551823	65300072	2854	4820											
RAP1B	5908	broad.mit.edu	37	chr12	69042508	69042508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgacaagcttgcatcatgCgtgagtataagctagtcgtt	10	14	10	7	2	1	2	1	2	0	0	2	2	1	2	0	0	4	5	0	0	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:69042508C>T	uc001sub.2	+	2	167	c.4C>T	c.(4-6)CGT>TGT	p.R2C	RAP1B_uc010ste.1_Intron|RAP1B_uc001suc.2_Missense_Mutation_p.R2C|RAP1B_uc010stf.1_Missense_Mutation_p.R2C|RAP1B_uc010stg.1_Missense_Mutation_p.R2C|RAP1B_uc010sth.1_Missense_Mutation_p.R2C|RAP1B_uc010sti.1_Missense_Mutation_p.R2C	NM_001089704	NP_001083173	P61224	RAP1B_HUMAN	SubName: Full=Ras-related protein Rap-1A; SubName: Full=cDNA FLJ75985, highly similar to Homo sapiens RAP1A, member of RAS oncogene family (RAP1A), transcript variant 2, mRNA; SubName: Full=RAP1A, member of RAS oncogene family;	2					blood coagulation|energy reserve metabolic process|regulation of establishment of cell polarity|regulation of insulin secretion	cell-cell junction|cytosol	GDP binding|GTP binding|GTPase activity|protein binding				0	Breast(13;1.24e-05)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)	GBM - Glioblastoma multiforme(7;0.000306)		TTGCATCATGCGTGAGTATAA	0.368													8	29					0	0	0.00308	0	0		T	69042508	T	T	69042508	3	4	4	1	0	0	0	0	1	0	0	0	13061	768	27	1	6	1	RAP1B	12	69042508	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	490685	69042508	64809387	2855	4821											
CPSF6	11052	broad.mit.edu	37	chr12	69651601	69651601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacaaggtggtagaggaCggggccgttttccaggggct	7	9	16	9	2	0	1	0	0	0	1	2	2	2	2	3	7	0	3	3	7	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:69651601C>T	uc001sut.3	+	5	720	c.610C>T	c.(610-612)CGG>TGG	p.R204W	CPSF6_uc001suu.3_Missense_Mutation_p.R204W|CPSF6_uc010stk.1_5'Flank	NM_007007	NP_008938	Q16630	CPSF6_HUMAN	cleavage and polyadenylation specific factor 6,	204					mRNA polyadenylation|protein tetramerization	mRNA cleavage factor complex|paraspeckles|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding				0	all_epithelial(5;2.47e-36)|Lung NSC(4;1.1e-32)|all_lung(4;6.26e-31)|Breast(13;1.59e-06)|Esophageal squamous(21;0.187)		Epithelial(6;4.89e-17)|BRCA - Breast invasive adenocarcinoma(5;8.5e-10)|Lung(24;6.04e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|LUSC - Lung squamous cell carcinoma(43;0.171)|Kidney(9;0.241)			TGGTAGAGGACGGGGCCGTTT	0.547													6	85					0	0	0.004482	0	0		T	69651601	T	T	69651601	3	4	4	1	0	0	0	0	1	0	0	0	3832	527	19	1	628	1	CPSF6	12	69651601	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	609093	69651601	64200294	2856	4822											
BEST3	144453	broad.mit.edu	37	chr12	70087555	70087555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgacgtagcgcatcagcGtccttctaagcaggcgcccg	8	8	12	13	5	2	1	1	1	1	0	3	2	3	1	2	1	3	3	2	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:70087555G>A	uc001svg.2	-	4	607	c.380C>T	c.(379-381)ACG>ATG	p.T127M	BEST3_uc001svd.1_Missense_Mutation_p.T127M|BEST3_uc001sve.1_RNA|BEST3_uc010stm.1_Missense_Mutation_p.T21M|BEST3_uc001svh.2_Translation_Start_Site|BEST3_uc001svi.1_RNA	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	127	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			GCGCATCAGCGTCCTTCTAAG	0.532													13	31					0	0	0.004007	0	0		A	70087555	A	A	70087555	3	1	4	1	0	0	0	0	1	0	0	0	1407	1145	40	1	1654	1	BEST3	12	70087555	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	435954	70087555	63764340	2857	4823											
CNOT2	4848	broad.mit.edu	37	chr12	70735907	70735907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatctctaccccaaatttgCgtcaccctgggcatcttcac	10	11	5	15	1	4	0	2	0	2	0	5	0	4	0	3	1	2	1	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:70735907C>T	uc001svv.2	+	12	1778	c.1199C>T	c.(1198-1200)GCG>GTG	p.A400V	CNOT2_uc009zro.2_Missense_Mutation_p.A400V|CNOT2_uc009zrp.2_Missense_Mutation_p.A380V|CNOT2_uc009zrq.2_Missense_Mutation_p.A400V|CNOT2_uc001svw.1_Missense_Mutation_p.A140V	NM_014515	NP_055330	Q9NZN8	CNOT2_HUMAN	CCR4-NOT transcription complex, subunit 2	400					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	protein binding|RNA polymerase II transcription cofactor activity				0	Renal(347;0.236)		GBM - Glioblastoma multiforme(1;4.77e-09)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			CCCAAATTTGCGTCACCCTGG	0.343													12	130					0	0	0.00245	0	0		T	70735907	T	T	70735907	3	4	4	1	0	0	0	0	1	0	0	0	3622	768	27	1	1241	1	CNOT2	12	70735907	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	648352	70735907	63115988	2858	4824											
PTPRB	5787	broad.mit.edu	37	chr12	70964877	70964877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacaagaattttgtattggCggcctggtgttagggaagta	11	12	14	4	1	0	2	0	0	0	2	0	3	0	3	1	4	0	3	1	4	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:70964877C>T	uc001swb.3	-	11	2675	c.2645G>A	c.(2644-2646)CGC>CAC	p.R882H	PTPRB_uc010sto.1_Missense_Mutation_p.R882H|PTPRB_uc010stp.1_Missense_Mutation_p.R792H|PTPRB_uc001swc.3_Missense_Mutation_p.R1100H|PTPRB_uc001swa.3_Missense_Mutation_p.R1012H|PTPRB_uc001swd.3_Missense_Mutation_p.R1099H|PTPRB_uc009zrr.1_Missense_Mutation_p.R979H	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	882	Fibronectin type-III 10.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			TTTGTATTGGCGGCCTGGTGT	0.433													19	40					0	0	0.008871	0	0		T	70964877	T	T	70964877	3	4	4	1	0	0	0	0	1	0	0	0	12821	768	27	1	3436	1	PTPRB	12	70964877	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	228970	70964877	62887018	2859	4825											
TSPAN8	7103	broad.mit.edu	37	chr12	71531970	71531970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcctaggatacctgtcGccacctgcaggagcaggatc	9	7	11	14	1	0	0	0	0	0	0	3	3	1	3	4	3	4	3	4	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:71531970G>A	uc009zrt.1	-	4	464	c.302C>T	c.(301-303)GCG>GTG	p.A101V	TSPAN8_uc001swk.1_Missense_Mutation_p.A101V|TSPAN8_uc001swj.1_Missense_Mutation_p.A101V	NM_004616	NP_004607	P19075	TSN8_HUMAN	transmembrane 4 superfamily member 3	101	Helical; (Potential).				protein glycosylation	integral to membrane|lysosome	signal transducer activity			skin(2)|lung(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(43;0.24)|OV - Ovarian serous cystadenocarcinoma(12;0.244)			GATACCTGTCGCCACCTGCAG	0.398													11	151					0	0	0.008291	0	0		A	71531970	A	A	71531970	3	1	4	1	0	0	0	0	1	0	0	0	16679	1087	38	1	431	1	TSPAN8	12	71531970	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	567093	71531970	62319925	2860	4826											
TPH2	121278	broad.mit.edu	37	chr12	72416230	72416230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaagcaagaagggcaactgCgggcatatggagcaggactc	13	4	15	9	1	0	1	0	0	0	1	1	3	0	3	0	4	4	5	0	4	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:72416230C>T	uc009zrw.1	+	9	1261	c.1120C>T	c.(1120-1122)CGG>TGG	p.R374W	TPH2_uc001swy.2_Missense_Mutation_p.R284W	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	374					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	AGGGCAACTGCGGGCATATGG	0.433													4	55					0	0	0.000602	0	0		T	72416230	T	T	72416230	3	4	4	1	0	0	0	0	1	0	0	0	16428	759	27	1	1154	1	TPH2	12	72416230	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	884260	72416230	61435665	2861	4827											
TRHDE	29953	broad.mit.edu	37	chr12	72863686	72863686	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcattgttcatgagatatgTcaccaggtatgagaaaaaga	15	11	10	5	0	3	3	3	2	0	3	3	5	3	3	1	1	0	2	1	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:72863686T>C	uc001sxa.2	+	4	1359	c.1329T>C	c.(1327-1329)TGT>TGC	p.C443C		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	443	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						ATGAGATATGTCACCAGGTAT	0.338													15	49					0	0	0.00499	0	0		C	72863686	C	C	72863686	2	2	4	1	0	0	0	0	0	0	0	1	16505	1673	58	3		3	TRHDE	12	72863686	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	447456	72863686	60988209	2862	4828											
CAPS2	84698	broad.mit.edu	37	chr12	75676076	75676076	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacagtaacattttcttaTgtttataataggcacactgc	12	15	6	8	0	1	0	0	0	1	0	1	0	1	0	0	1	3	4	0	1	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:75676076T>C	uc001sxk.3	-	17	1821	c.1624A>G	c.(1624-1626)ATA>GTA	p.I542V	CAPS2_uc001sxm.3_Missense_Mutation_p.I310V|CAPS2_uc009zsa.2_Missense_Mutation_p.I132V|CAPS2_uc001sxi.3_Missense_Mutation_p.I278V|CAPS2_uc001sxj.3_Missense_Mutation_p.I453V|CAPS2_uc001sxl.3_Missense_Mutation_p.I523V	NM_032606	NP_115995	Q9BXY5	CAYP2_HUMAN	calcyphosine 2	542	EF-hand 3.						calcium ion binding			ovary(2)	2						CATTTTCTTATGTTTATAATA	0.299													22	75					0	0	0.009535	0	0		C	75676076	C	C	75676076	3	2	4	1	0	0	0	0	1	0	0	0	2641	1464	51	3	57	3	CAPS2	12	75676076	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2812390	75676076	58175819	2863	4829											
BBS10	79738	broad.mit.edu	37	chr12	76740999	76740999	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgttactatcaccattcGcatgtcaccatctgctgggc	7	14	7	13	1	4	0	2	0	2	0	5	0	4	0	2	1	2	3	2	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:76740999G>A	uc001syd.1	-	2	850	c.766C>T	c.(766-768)CGA>TGA	p.R256*		NM_024685	NP_078961	Q8TAM1	BBS10_HUMAN	Bardet-Biedl syndrome 10	256					cellular protein metabolic process|nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	cilium	ATP binding			ovary(1)|skin(1)	2						ATCACCATTCGCATGTCACCA	0.423									Bardet-Biedl_syndrome				5	23					0	0	0.001168	0	0		A	76740999	A	A	76740999	4	1	4	1	0	0	0	0	0	1	0	0	1337	1095	38	1	1409	1	BBS10	12	76740999	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1064923	76740999	57110896	2864	4830											
ZDHHC17	23390	broad.mit.edu	37	chr12	77244672	77244672	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacttctttgaatttcgatgCtgtggcctctttcgtcctgt	4	18	9	10	2	2	1	0	1	2	0	5	3	3	1	2	1	1	1	2	1	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:77244672C>T	uc001syk.1	+	17	1969	c.1806C>T	c.(1804-1806)TGC>TGT	p.C602C		NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	602	Cytoplasmic (Potential).				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						AATTTCGATGCTGTGGCCTCT	0.408													19	107					0	0	0.010504	0	0		T	77244672	T	T	77244672	2	4	4	1	0	0	0	0	0	0	0	1	17632	805	28	2		2	ZDHHC17	12	77244672	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	503673	77244672	56607223	2865	4831											
NAV3	89795	broad.mit.edu	37	chr12	78444840	78444840	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagcaagcagtgacctggAcatgtcttctgaggtcgatg	11	9	13	8	1	2	2	0	2	2	0	3	5	2	3	1	2	2	2	1	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:78444840A>G	uc001syp.2	+	11	2602	c.2429A>G	c.(2428-2430)GAC>GGC	p.D810G	NAV3_uc001syo.2_Missense_Mutation_p.D810G|NAV3_uc010sub.1_Missense_Mutation_p.D310G	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	810						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AGTGACCTGGACATGTCTTCT	0.488										HNSCC(70;0.22)			16	36					0	0	0.004007	0	0		G	78444840	G	G	78444840	3	3	4	1	0	0	0	0	1	0	0	0	10203	275	10	3	2471	3	NAV3	12	78444840	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1200168	78444840	55407055	2866	4832											
PPP1R12A	4659	broad.mit.edu	37	chr12	80211266	80211266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgtactagaagtgttggCattagttacagaagccaggg	11	12	13	5	0	0	2	0	0	0	2	0	2	0	2	1	2	3	4	1	2	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:80211266C>T	uc001syz.2	-	9	1414	c.1147G>A	c.(1147-1149)GCC>ACC	p.A383T	PPP1R12A_uc010suc.1_Missense_Mutation_p.A296T|PPP1R12A_uc001sza.2_Missense_Mutation_p.A383T|PPP1R12A_uc010sud.1_Missense_Mutation_p.A383T|PPP1R12A_uc001szb.2_Missense_Mutation_p.A383T|PPP1R12A_uc001szc.2_Missense_Mutation_p.A383T	NM_002480	NP_002471	O14974	MYPT1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	383						contractile fiber	protein binding|signal transducer activity			ovary(2)|breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	7						GAAGTGTTGGCATTAGTTACA	0.388													4	26					0	0	0.009096	0	0		T	80211266	T	T	80211266	3	4	4	1	0	0	0	0	1	0	0	0	12376	710	25	2	2013	2	PPP1R12A	12	80211266	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1766426	80211266	53640629	2867	4833											
ACSS3	79611	broad.mit.edu	37	chr12	81610701	81610701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactggatctccaattactgCgtcatgtgttggattaggca	9	13	11	8	1	2	0	1	0	1	0	3	3	2	2	1	3	2	2	1	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:81610701C>T	uc001szl.1	+	10	1467	c.1376C>T	c.(1375-1377)GCG>GTG	p.A459V	ACSS3_uc001szm.1_Missense_Mutation_p.A458V|ACSS3_uc001szn.1_Missense_Mutation_p.A141V	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	459						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CCAATTACTGCGTCATGTGTT	0.398													20	69					0	0	0.002299	0	0		T	81610701	T	T	81610701	3	4	4	1	0	0	0	0	1	0	0	0	190	768	27	1	1414	1	ACSS3	12	81610701	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1399435	81610701	52241194	2868	4834											
C12orf26	84190	broad.mit.edu	37	chr12	82870436	82870436	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgaagctgccagaaaaaaTtataatgaactactacgaga	18	9	7	7	1	0	4	0	2	0	2	0	5	0	4	1	0	5	1	1	0	9	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:82870436T>A	uc001szq.2	+	10	1607	c.1586T>A	c.(1585-1587)ATT>AAT	p.I529N		NM_032230	NP_115606	Q8N6Q8	CL026_HUMAN	hypothetical protein LOC84190	529											0						CCAGAAAAAATTATAATGAAC	0.274													20	34					0	0	0.002299	0	0		A	82870436	A	A	82870436	3	1	4	1	0	0	0	0	1	0	0	0	1682	1493	52	5	1624	5	C12orf26	12	82870436	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1259735	82870436	50981459	2869	4835											
TMTC3	160418	broad.mit.edu	37	chr12	88547228	88547228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcaaactttttctggacaAcaagagtagtgtgattgctt	12	14	9	6	0	1	2	0	1	1	1	1	3	1	3	0	1	4	3	0	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:88547228A>G	uc001tau.2	+	3	570	c.350A>G	c.(349-351)AAC>AGC	p.N117S	TMTC3_uc009zsm.2_RNA	NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat	117						integral to membrane	binding			skin(1)	1						TTTCTGGACAACAAGAGTAGT	0.323													11	49					0	0	0.001368	0	0		G	88547228	G	G	88547228	3	3	4	1	0	0	0	0	1	0	0	0	16287	43	2	3	356	3	TMTC3	12	88547228	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	5676792	88547228	45304667	2870	4836											
KITLG	4254	broad.mit.edu	37	chr12	88910187	88910187	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagtccttgaaggcatcAatggatctattaaaaattct	16	12	6	7	0	3	1	1	1	2	0	4	2	4	2	1	2	0	1	1	2	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:88910187A>G	uc001tav.2	-	5	627	c.444T>C	c.(442-444)ATT>ATC	p.I148I	KITLG_uc009zsn.2_Intron|KITLG_uc001taw.2_Silent_p.I148I|KITLG_uc009zso.1_Intron	NM_000899	NP_000890	P21583	SCF_HUMAN	KIT ligand isoform b precursor	148	Extracellular (Potential).				cell adhesion|cell proliferation|hemopoiesis|male gonad development|positive regulation of DNA replication|signal transduction	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	growth factor activity|identical protein binding|stem cell factor receptor binding			ovary(1)	1						TGAAGGCATCAATGGATCTAT	0.358									Testicular_Cancer_Familial_Clustering_of				7	122					0	0	0.001984	0	0		G	88910187	G	G	88910187	2	3	4	1	0	0	0	0	0	0	0	1	8346	126	5	3		3	KITLG	12	88910187	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	362959	88910187	44941708	2871	4837											
ATP2B1	490	broad.mit.edu	37	chr12	89992941	89992941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccacaagatttggccacGccgcaactccctttcagcgt	11	8	7	15	3	1	1	1	0	0	1	2	1	2	1	4	1	3	1	4	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:89992941G>A	uc001tbh.2	-	19	3485	c.3304C>T	c.(3304-3306)CGT>TGT	p.R1102C	ATP2B1_uc001tbg.2_Missense_Mutation_p.R1102C|ATP2B1_uc009zsr.2_RNA|ATP2B1_uc001tbf.2_Missense_Mutation_p.R736C	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	1102	Cytoplasmic (Potential).|Calmodulin-binding subdomain A.				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						ATTTGGCCACGCCGCAACTCC	0.483													28	66					0	0	0.008361	0	0		A	89992941	A	A	89992941	3	1	4	1	0	0	0	0	1	0	0	0	1140	1087	38	1	524	1	ATP2B1	12	89992941	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1082754	89992941	43858954	2872	4838											
LUM	4060	broad.mit.edu	37	chr12	91498015	91498015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagactggtttctgagatgCgattgccatccaaacgcaaa	13	9	10	9	2	1	2	0	1	1	2	2	5	2	2	2	1	3	2	2	1	3	2	rs139919924		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:91498015C>T	uc001tbm.2	-	3	1333	c.944G>A	c.(943-945)CGC>CAC	p.R315H	LUM_uc001tbn.2_RNA	NM_002345	NP_002336	P51884	LUM_HUMAN	lumican precursor	315	LRR 11.				collagen fibril organization|visual perception	extracellular space|fibrillar collagen	collagen binding|extracellular matrix structural constituent			central_nervous_system(2)	2						TTCTGAGATGCGATTGCCATC	0.378													14	52					0	0	0.00245	0	0		T	91498015	T	T	91498015	3	4	4	1	0	0	0	0	1	0	0	0	9103	768	27	1	76	1	LUM	12	91498015	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1505074	91498015	42353880	2873	4839											
CLLU1OS	574016	broad.mit.edu	37	chr12	92814871	92814871	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtcacatttcctttgcccGctctcacatatgcagagatg	8	14	7	12	1	2	1	2	0	1	1	4	2	3	1	2	0	2	2	2	0	1	4	rs147336226		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:92814871G>A	uc001tcb.1	-	3	223	c.221C>T	c.(220-222)GCG>GTG	p.A74V	CLLU1_uc001tcc.2_5'Flank|CLLU1_uc001tcd.2_5'Flank|CLLU1_uc001tce.1_5'Flank|CLLU1_uc001tcf.2_5'Flank	NM_001025232	NP_001020403	Q5K130	CLU1O_HUMAN	chronic lymphocytic leukemia up-regulated 1	74											0						TCCTTTGCCCGCTCTCACATA	0.428													44	166					0	0	0.009718	0	0		A	92814871	A	A	92814871	3	1	4	1	0	0	0	0	1	0	0	0	3544	1087	38	1	88	1	CLLU1OS	12	92814871	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1316856	92814871	41037024	2874	4840											
C12orf74	338809	broad.mit.edu	37	chr12	93100872	93100872	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctcttcggcagcaagaaggCcacttcctgcccagccccac	8	7	8	18	1	1	1	0	0	1	1	4	1	2	1	5	2	3	2	5	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:93100872C>T	uc001tch.1	+	2	695	c.465C>T	c.(463-465)GGC>GGT	p.G155G	C12orf74_uc001tci.2_Silent_p.G155G	NM_001037671	NP_001032760	Q32Q52	CL074_HUMAN	hypothetical protein LOC338809	155											0						AGCAAGAAGGCCACTTCCTGC	0.572													10	18					0	0	0.000978	0	0		T	93100872	T	T	93100872	2	4	4	1	0	0	0	0	0	0	0	1	1717	726	26	2		2	C12orf74	12	93100872	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	286001	93100872	40751023	2875	4841											
EEA1	8411	broad.mit.edu	37	chr12	93236266	93236266	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttgtgttaattcattaActgaacttttcagtttttgt	8	24	5	4	0	2	1	2	1	0	0	2	1	2	1	0	0	2	2	0	0	3	10			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:93236266A>C	uc001tck.2	-	10	1155	c.890T>G	c.(889-891)GTT>GGT	p.V297G		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	297	Potential.				early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						TAATTCATTAACTGAACTTTT	0.294													3	26					0	0	0.009096	0	0		C	93236266	C	C	93236266	3	2	4	1	0	0	0	0	1	0	0	0	4927	43	2	5	3425	5	EEA1	12	93236266	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	135394	93236266	40615629	2876	4842											
TMCC3	57458	broad.mit.edu	37	chr12	94972205	94972205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgctcgtaggcctggtaggCcaccttctcctcaatgctgg	5	10	12	14	2	2	0	1	0	1	0	4	0	2	0	4	4	1	4	4	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:94972205C>T	uc001tdj.2	-	3	1214	c.1096G>A	c.(1096-1098)GCC>ACC	p.A366T	TMCC3_uc001tdi.2_Missense_Mutation_p.A335T	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	366	Potential.					integral to membrane				ovary(1)|skin(1)	2						GCCTGGTAGGCCACCTTCTCC	0.562													9	51					0	0	0.008291	0	0		T	94972205	T	T	94972205	3	4	4	1	0	0	0	0	1	0	0	0	16019	739	26	2	345	2	TMCC3	12	94972205	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1735939	94972205	38879690	2877	4843											
HAL	3034	broad.mit.edu	37	chr12	96380970	96380970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggatgtgatcatctgcGtcccattgatgagtgccagg	8	10	13	10	1	2	3	1	3	1	0	3	4	3	4	3	2	2	0	3	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:96380970G>A	uc001tem.1	-	12	1223	c.926C>T	c.(925-927)ACG>ATG	p.T309M	HAL_uc009zti.1_RNA|HAL_uc010suw.1_Missense_Mutation_p.T101M|HAL_uc010sux.1_Missense_Mutation_p.T309M	NM_002108	NP_002099	P42357	HUTH_HUMAN	histidine ammonia-lyase	309					biosynthetic process|histidine catabolic process	cytosol	histidine ammonia-lyase activity			ovary(2)|skin(1)	3					L-Histidine(DB00117)	GATCATCTGCGTCCCATTGAT	0.527													20	67					0	0	0.00278	0	0		A	96380970	A	A	96380970	3	1	4	1	0	0	0	0	1	0	0	0	6963	1145	40	1	1087	1	HAL	12	96380970	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1408765	96380970	37470925	2878	4844											
LTA4H	4048	broad.mit.edu	37	chr12	96409440	96409440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatcgtccgcaaatgtggCgttccaagtacacagtatgt	12	10	9	10	3	0	0	0	0	0	0	3	0	2	0	2	1	1	4	2	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:96409440C>T	uc001ten.1	-	11	1048	c.980G>A	c.(979-981)CGC>CAC	p.R327H	LTA4H_uc010suy.1_Missense_Mutation_p.R289H|LTA4H_uc010suz.1_Missense_Mutation_p.R289H|LTA4H_uc010sva.1_RNA|LTA4H_uc009ztj.2_5'Flank	NM_000895	NP_000886	P09960	LKHA4_HUMAN	leukotriene A4 hydrolase	327					hormone biosynthetic process|inflammatory response|leukotriene biosynthetic process|peptide catabolic process|prostanoid metabolic process|proteolysis	cytosol|nucleus	aminopeptidase activity|epoxide hydrolase activity|leukotriene-A4 hydrolase activity|metallopeptidase activity|protein binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(1)	1						GCAAATGTGGCGTTCCAAGTA	0.363											OREG0022040	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	82					0	0	0.001168	0	0		T	96409440	T	T	96409440	3	4	4	1	0	0	0	0	1	0	0	0	9087	768	27	1	891	1	LTA4H	12	96409440	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	28470	96409440	37442455	2879	4845											
ELK3	2004	broad.mit.edu	37	chr12	96640801	96640801	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagatggatcctcacgcGgtggagatcagccgggagag	10	6	16	9	3	2	4	2	1	0	3	3	7	3	5	2	4	1	0	2	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:96640801G>A	uc001teo.1	+	3	570	c.291G>A	c.(289-291)GCG>GCA	p.A97A		NM_005230	NP_005221	P41970	ELK3_HUMAN	ELK3 protein	97					negative regulation of transcription, DNA-dependent|signal transduction	mitochondrion	protein binding|purine-rich negative regulatory element binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	all_cancers(2;0.00173)					ATCCTCACGCGGTGGAGATCA	0.562													8	26					0	0	0.006214	0	0		A	96640801	A	A	96640801	2	1	4	1	0	0	0	0	0	0	0	1	5068	1103	39	1		1	ELK3	12	96640801	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	231361	96640801	37211094	2880	4846											
C12orf63	374467	broad.mit.edu	37	chr12	97051724	97051724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaatattaaaaatgacaacgGtggttctagtcttacctttg	13	14	8	6	1	2	1	0	1	2	0	2	2	2	1	1	2	2	1	1	2	8	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:97051724G>A	uc001tet.1	+	4	518	c.440G>A	c.(439-441)GGT>GAT	p.G147D		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	147										skin(6)|ovary(1)	7						AATGACAACGGTGGTTCTAGT	0.343													11	169					0	0	0.000978	0	0		A	97051724	A	A	97051724	3	1	4	1	0	0	0	0	1	0	0	0	1709	1261	44	4	450	4	C12orf63	12	97051724	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	410923	97051724	36800171	2881	4847											
APAF1	317	broad.mit.edu	37	chr12	99053038	99053038	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacacggttggatcaggaTgagagtttttcccagaggct	9	11	13	8	1	1	2	1	1	0	2	2	5	2	4	1	4	1	4	1	4	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:99053038T>C	uc001tfz.2	+	5	1204	c.627T>C	c.(625-627)GAT>GAC	p.D209D	APAF1_uc001tfy.2_Silent_p.D198D|APAF1_uc001tga.2_Silent_p.D198D|APAF1_uc001tgb.2_Silent_p.D209D|APAF1_uc001tgc.2_Silent_p.D209D	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	209	NB-ARC.				activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	TGGATCAGGATGAGAGTTTTT	0.468													5	101					0	0	0.000602	0	0		C	99053038	C	C	99053038	2	2	4	1	0	0	0	0	0	0	0	1	755	1461	51	3		3	APAF1	12	99053038	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2001314	99053038	34798857	2882	4848											
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100482858	100482858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcacttgctgggcagatgCgactactgtagagctctaaa	10	11	10	10	1	2	2	1	0	1	2	2	3	2	2	0	1	4	4	0	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:100482858C>T	uc001tgq.2	-	8	1085	c.856G>A	c.(856-858)GCA>ACA	p.A286T	UHRF1BP1L_uc001tgr.2_Missense_Mutation_p.A286T|UHRF1BP1L_uc001tgp.2_5'UTR	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	286										ovary(2)	2						TGGGCAGATGCGACTACTGTA	0.358													5	79					0	0	0.000602	0	0		T	100482858	T	T	100482858	3	4	4	1	0	0	0	0	1	0	0	0	16995	768	27	1	3618	1	UHRF1BP1L	12	100482858	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1429820	100482858	33369037	2883	4849											
GAS2L3	283431	broad.mit.edu	37	chr12	101018596	101018596	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagatagtggagataaaaaAcctactgcaaagaaaaagga	21	5	10	5	0	0	3	0	0	0	3	0	5	0	4	1	2	3	2	1	2	8	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:101018596A>T	uc001thu.2	+	10	2239	c.2013A>T	c.(2011-2013)AAA>AAT	p.K671N	GAS2L3_uc009zty.2_Missense_Mutation_p.K671N|GAS2L3_uc001thv.2_Missense_Mutation_p.K567N	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	671					cell cycle arrest					skin(1)	1						GAGATAAAAAACCTACTGCAA	0.378													30	60					0	0	0.009535	0	0		T	101018596	T	T	101018596	3	4	4	1	0	0	0	0	1	0	0	0	6263	40	2	5	2043	5	GAS2L3	12	101018596	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	535738	101018596	32833299	2884	4850											
SLC5A8	160728	broad.mit.edu	37	chr12	101588918	101588918	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccccgttgccactaccgcGccccacagatcaaatcctgt	9	7	6	19	3	1	1	1	0	0	1	2	1	2	1	7	0	2	1	7	0	2	2	rs143104107		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:101588918G>A	uc001thz.3	-	4	882	c.492C>T	c.(490-492)GGC>GGT	p.G164G		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	164	Helical; (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						CCACTACCGCGCCCCACAGAT	0.408													8	25					0	0	0.004482	0	0		A	101588918	A	A	101588918	2	1	4	1	0	0	0	0	0	0	0	1	14696	1074	38	1		1	SLC5A8	12	101588918	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	570322	101588918	32262977	2885	4851											
UTP20	27340	broad.mit.edu	37	chr12	101720944	101720944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgcatggccattgtcctgCggttcctggccgggacccaa	5	8	12	16	3	0	0	0	0	0	0	2	1	2	1	6	4	1	2	6	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:101720944C>T	uc001tia.1	+	26	3283	c.3127C>T	c.(3127-3129)CGG>TGG	p.R1043W		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1043					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						CATTGTCCTGCGGTTCCTGGC	0.478													12	108					0	0	0.001855	0	0		T	101720944	T	T	101720944	3	4	4	1	0	0	0	0	1	0	0	0	17125	759	27	1	3229	1	UTP20	12	101720944	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	132026	101720944	32130951	2886	4852											
MYBPC1	4604	broad.mit.edu	37	chr12	102025861	102025861	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgcaggaaattacagatgCgaggtcacctataaggataa	15	10	10	6	1	1	1	1	0	0	1	1	4	1	3	1	3	3	1	1	3	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:102025861C>T	uc001tii.2	+	6	528	c.426C>T	c.(424-426)TGC>TGT	p.C142C	MYBPC1_uc001tif.1_Silent_p.C155C|MYBPC1_uc001tig.2_Silent_p.C167C|MYBPC1_uc010svq.1_Silent_p.C129C|MYBPC1_uc001tih.2_Silent_p.C167C|MYBPC1_uc001tij.2_Silent_p.C142C|MYBPC1_uc010svr.1_Silent_p.C142C|MYBPC1_uc010svs.1_Silent_p.C142C|MYBPC1_uc010svt.1_Silent_p.C130C|MYBPC1_uc010svu.1_Silent_p.C142C|MYBPC1_uc001tik.2_Silent_p.C116C	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	142	Ig-like C2-type 1.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						ATTACAGATGCGAGGTCACCT	0.393													5	100					0	0	0.000602	0	0		T	102025861	T	T	102025861	2	4	4	1	0	0	0	0	0	0	0	1	10029	776	27	1		1	MYBPC1	12	102025861	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	304917	102025861	31826034	2887	4853											
C12orf42	374470	broad.mit.edu	37	chr12	103699756	103699756	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaacatgatacttaccagaAtttttcttgggactgctcaa	13	13	6	9	0	2	2	1	1	1	1	2	3	2	3	1	1	4	1	1	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:103699756A>T	uc001tjt.2	-	5	715	c.627T>A	c.(625-627)AAT>AAA	p.N209K	C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Missense_Mutation_p.N209K|C12orf42_uc001tju.2_Missense_Mutation_p.N114K	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	209										ovary(1)|central_nervous_system(1)	2						ACTTACCAGAATTTTTCTTGG	0.418													54	155					0	0	0.00361	0	0		T	103699756	T	T	103699756	3	4	4	1	0	0	0	0	1	0	0	0	1691	98	4	5	463	5	C12orf42	12	103699756	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1673895	103699756	30152139	2888	4854											
C12orf42	374470	broad.mit.edu	37	chr12	103872137	103872137	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgcattacctgcatcctgTttgcaaaaggtctgatggtt	9	15	9	8	0	1	1	0	1	1	0	2	1	2	1	2	2	4	5	2	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:103872137T>A	uc001tjt.2	-	2	156	c.68A>T	c.(67-69)AAC>ATC	p.N23I	C12orf42_uc001tjs.2_RNA|C12orf42_uc009zuf.1_Missense_Mutation_p.N23I|C12orf42_uc001tju.2_5'UTR	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	23										ovary(1)|central_nervous_system(1)	2						CTGCATCCTGTTTGCAAAAGG	0.333													3	20					0	0	0.004672	0	0		A	103872137	A	A	103872137	3	1	4	1	0	0	0	0	1	0	0	0	1691	1725	60	5	1034	5	C12orf42	12	103872137	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	172381	103872137	29979758	2889	4855											
STAB2	55576	broad.mit.edu	37	chr12	104136204	104136204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgccctggaggaccagatgCcccgtgtaataaccggggtg	8	7	14	12	2	0	1	0	0	0	1	0	3	0	3	5	4	3	1	5	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:104136204C>T	uc001tjw.2	+	56	6089	c.5903C>T	c.(5902-5904)GCC>GTC	p.A1968V	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1968	Extracellular (Potential).|Laminin EGF-like 2.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GGACCAGATGCCCCGTGTAAT	0.557													17	53					0	0	0.007413	0	0		T	104136204	T	T	104136204	3	4	4	1	0	0	0	0	1	0	0	0	15263	739	26	2	6125	2	STAB2	12	104136204	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	264067	104136204	29715691	2890	4856											
HSP90B1	7184	broad.mit.edu	37	chr12	104335416	104335416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtctctttagctctatgtgCgccgtgtattcatcacagac	7	14	9	11	2	4	1	2	0	2	1	5	1	4	1	1	1	2	2	1	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:104335416C>T	uc001tkb.1	+	10	1345	c.1240C>T	c.(1240-1242)CGC>TGC	p.R414C	HSP90B1_uc010swg.1_Missense_Mutation_p.R79C|HSP90B1_uc009zui.1_Intron	NM_003299	NP_003290	P14625	ENPL_HUMAN	heat shock protein 90kDa beta, member 1	414					actin rod assembly|anti-apoptosis|cellular response to ATP|ER-associated protein catabolic process|protein folding|protein transport|regulation of phosphoprotein phosphatase activity|response to hypoxia|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|melanosome|microsome|midbody|perinuclear region of cytoplasm	ATP binding|calcium ion binding|low-density lipoprotein particle receptor binding|protein phosphatase binding|RNA binding|unfolded protein binding|virion binding			ovary(2)|skin(1)	3					Rifabutin(DB00615)	GCTCTATGTGCGCCGTGTATT	0.368													6	59					0	0	0.001168	0	0		T	104335416	T	T	104335416	3	4	4	1	0	0	0	0	1	0	0	0	7419	768	27	1	1278	1	HSP90B1	12	104335416	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	199212	104335416	29516479	2891	4857											
TXNRD1	7296	broad.mit.edu	37	chr12	104682747	104682747	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggaacgctctcggaattgGccgcggaaaccgatctgccc	10	6	12	13	5	2	0	0	0	2	0	3	4	2	3	3	4	3	1	3	4	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:104682747G>T	uc010swk.1	+	4	365	c.343G>T	c.(343-345)GCC>TCC	p.A115S	TXNRD1_uc010swl.1_5'UTR|TXNRD1_uc010swm.1_Missense_Mutation_p.A17S|TXNRD1_uc010swn.1_Intron|TXNRD1_uc010swo.1_Intron|TXNRD1_uc010swp.1_5'UTR|TXNRD1_uc010swq.1_Missense_Mutation_p.A15S|TXNRD1_uc001tku.2_RNA|TXNRD1_uc001tko.1_RNA|TXNRD1_uc001tkp.1_Intron|TXNRD1_uc001tkv.1_5'Flank	NM_001093771	NP_001087240	Q16881	TRXR1_HUMAN	thioredoxin reductase 1 isoform 3	115	Glutaredoxin.				cell redox homeostasis|cellular lipid metabolic process|electron transport chain|nucleobase, nucleoside and nucleotide interconversion|signal transduction|transport	cytosol|nucleolus	electron carrier activity|flavin adenine dinucleotide binding|NADP binding|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity				0						CTCGGAATTGGCCGCGGAAAC	0.547													35	85					5.71845e-15	6.2226e-15	0.005524	1	0		T	104682747	T	T	104682747	3	4	4	1	0	0	0	0	1	0	0	0	16833	1203	42	5	371	5	TXNRD1	12	104682747	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	347331	104682747	29169148	2892	4858											
KIAA1033	23325	broad.mit.edu	37	chr12	105531765	105531765	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacctcagttaaggcattGtgcaggcttgttgaacttct	11	13	9	8	0	2	1	1	1	1	0	2	1	2	1	1	2	3	5	1	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:105531765G>C	uc001tld.2	+	15	1515	c.1428G>C	c.(1426-1428)TTG>TTC	p.L476F	KIAA1033_uc010swr.1_Missense_Mutation_p.L477F|KIAA1033_uc010sws.1_Missense_Mutation_p.L288F	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	476					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						TTAAGGCATTGTGCAGGCTTG	0.358													18	39					0	0	0.007413	0	0		C	105531765	C	C	105531765	3	2	4	1	0	0	0	0	1	0	0	0	8222	1368	48	5	1486	5	KIAA1033	12	105531765	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	849018	105531765	28320130	2893	4859											
ASCL4	121549	broad.mit.edu	37	chr12	108169097	108169097	+	Frame_Shift_Del	DEL	C	-	-																															cccggactcccgcggagggaCcccctcagggtcgccctgcg																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:108169097delC	uc001tmr.2	+	1	936	c.105delC	c.(103-105)GACfs	p.D35fs		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	34					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						CGCGGAGGGACCCCCTCAGGG	0.741													11	12	---	---	---	---						.	-	108169097	-	-	108169097	7	5	4	1	0	1	0	1	0	0	0	0	1037	506	18	0	107	0	ASCL4	12	108169097	Frame_Shift_Del	DEL	C	TCGA-BR-4184-01A-01D-1126-08	2637332	108169097	25682798	2894	4860											
WSCD2	9671	broad.mit.edu	37	chr12	108634152	108634152	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcgggaccactggcgcagCggacggaccatctgcatcaa	10	4	14	13	4	2	0	1	0	1	0	2	4	2	3	2	4	3	2	2	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:108634152C>T	uc001tms.2	+	8	1920	c.1176C>T	c.(1174-1176)AGC>AGT	p.S392S	WSCD2_uc001tmt.2_Silent_p.S392S|WSCD2_uc001tmu.2_Silent_p.S140S	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	392						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						ACTGGCGCAGCGGACGGACCA	0.607													5	104					0	0	0.000602	0	0		T	108634152	T	T	108634152	2	4	4	1	0	0	0	0	0	0	0	1	17433	767	27	1		1	WSCD2	12	108634152	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	465055	108634152	25217743	2895	4861											
FICD	11153	broad.mit.edu	37	chr12	108912521	108912521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaggggaactcagctctgCgcagggtcatggaggagacc	10	5	15	11	1	3	1	2	0	1	1	3	4	3	3	2	5	3	2	2	5	2	0	rs151147125		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:108912521C>T	uc001tmx.1	+	3	792	c.646C>T	c.(646-648)CGC>TGC	p.R216C		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	216					negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0						CTCAGCTCTGCGCAGGGTCAT	0.542													9	49					0	0	0.006214	0	0		T	108912521	T	T	108912521	3	4	4	1	0	0	0	0	1	0	0	0	5901	768	27	1	652	1	FICD	12	108912521	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	278369	108912521	24939374	2896	4862											
FICD	11153	broad.mit.edu	37	chr12	108913112	108913112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaacgagggcgacgtgaggCctttcattcgcttcatcgcc	7	9	11	14	5	2	1	2	1	0	0	4	3	2	1	3	2	1	1	3	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:108913112C>T	uc001tmx.1	+	3	1383	c.1237C>T	c.(1237-1239)CCT>TCT	p.P413S		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	413	Fido.				negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0						CGACGTGAGGCCTTTCATTCG	0.592													16	31					0	0	0.00499	0	0		T	108913112	T	T	108913112	3	4	4	1	0	0	0	0	1	0	0	0	5901	739	26	2	1243	2	FICD	12	108913112	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	591	108913112	24938783	2897	4863											
SELPLG	6404	broad.mit.edu	37	chr12	109017688	109017688	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcactggttgagtggtCtgtgcctccgtggctgctgg	2	12	18	9	1	1	1	0	1	1	0	2	1	2	1	2	5	2	4	2	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109017688C>A	uc001tni.2	-	2	556	c.396G>T	c.(394-396)CAG>CAT	p.Q132H	SELPLG_uc001tnh.2_Intron|SELPLG_uc010sxe.1_Missense_Mutation_p.Q148H	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	132	2.|Extracellular (Potential).|12 X 10 AA tandem repeats.				blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0						GTTGAGTGGTCTGTGCCTCCG	0.607													4	47					5.9392e-07	6.31025e-07	0.001168	1	0		A	109017688	A	A	109017688	3	1	4	1	0	0	0	0	1	0	0	0	14045	928	32	5		5	SELPLG	12	109017688	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	104576	109017688	24834207	2898	4864											
SELPLG	6404	broad.mit.edu	37	chr12	109017769	109017769	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttccccatgttggccagCtccgtggtcagctctgtgac	5	11	12	13	1	2	1	1	1	1	0	4	1	4	1	4	3	2	4	4	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109017769C>A	uc001tni.2	-	2	475	c.315G>T	c.(313-315)GAG>GAT	p.E105D	SELPLG_uc001tnh.2_Missense_Mutation_p.E105D|SELPLG_uc010sxe.1_Missense_Mutation_p.E121D	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	105	Extracellular (Potential).				blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0						TGTTGGCCAGCTCCGTGGTCA	0.602													11	35					0.00010058	0.000105469	0.001368	1	0		A	109017769	A	A	109017769	3	1	4	1	0	0	0	0	1	0	0	0	14045	796	28	5	901	5	SELPLG	12	109017769	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	81	109017769	24834126	2899	4865											
ACACB	32	broad.mit.edu	37	chr12	109577464	109577464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccacaaaggccccaaagatgCcggtcggcggagaaactccc	12	3	11	15	3	0	2	0	0	0	2	2	3	1	2	5	4	2	0	5	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109577464C>T	uc001tob.2	+	2	373	c.254C>T	c.(253-255)GCC>GTC	p.A85V	ACACB_uc001toc.2_Missense_Mutation_p.A85V	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	85					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CCCAAAGATGCCGGTCGGCGG	0.622													19	39					0	0	0.004656	0	0		T	109577464	T	T	109577464	3	4	4	1	0	0	0	0	1	0	0	0	107	739	26	2	256	2	ACACB	12	109577464	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	559695	109577464	24274431	2900	4866											
ACACB	32	broad.mit.edu	37	chr12	109639432	109639432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgggtgaagtacatcaagCgtccaggtgccgtgctggaa	9	7	15	10	3	1	1	1	1	0	0	2	2	2	2	3	3	4	2	3	3	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109639432C>T	uc001tob.2	+	19	2958	c.2839C>T	c.(2839-2841)CGT>TGT	p.R947C	ACACB_uc001toc.2_Missense_Mutation_p.R947C	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	947	Biotinyl-binding.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GTACATCAAGCGTCCAGGTGC	0.552													23	50					0	0	0.004656	0	0		T	109639432	T	T	109639432	3	4	4	1	0	0	0	0	1	0	0	0	107	768	27	1	2909	1	ACACB	12	109639432	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	61968	109639432	24212463	2901	4867											
ACACB	32	broad.mit.edu	37	chr12	109687849	109687849	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtggagaatctgaggggCtcaggcatgattgctgggga	8	8	19	6	1	2	3	1	2	1	1	2	5	2	4	0	7	1	3	0	7	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109687849C>T	uc001tob.2	+	41	5849	c.5730C>T	c.(5728-5730)GGC>GGT	p.G1910G	ACACB_uc001toc.2_Silent_p.G1910G|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Silent_p.G576G	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1910	Carboxyltransferase.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	ATCTGAGGGGCTCAGGCATGA	0.483													18	55					0	0	0.007413	0	0		T	109687849	T	T	109687849	2	4	4	1	0	0	0	0	0	0	0	1	107	784	28	2		2	ACACB	12	109687849	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	48417	109687849	24164046	2902	4868											
KCTD10	83892	broad.mit.edu	37	chr12	109898545	109898545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctctcgggtaaaggcaccgCcccgtctcgaaggtagttga	8	8	13	12	4	2	1	0	1	2	0	4	2	2	1	3	3	0	5	3	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109898545C>T	uc001toi.1	-	3	371	c.283G>A	c.(283-285)GCG>ACG	p.A95T	KCTD10_uc001toh.1_5'Flank|KCTD10_uc009zvi.1_Missense_Mutation_p.A92T|KCTD10_uc001toj.1_Missense_Mutation_p.A103T|KCTD10_uc001tok.1_Intron	NM_031954	NP_114160	Q9H3F6	BACD3_HUMAN	potassium channel tetramerisation domain	95	BTB.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0						AAAGGCACCGCCCCGTCTCGA	0.607													11	25					0	0	0.000978	0	0		T	109898545	T	T	109898545	3	4	4	1	0	0	0	0	1	0	0	0	8113	739	26	2	678	2	KCTD10	12	109898545	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	210696	109898545	23953350	2903	4869											
UBE3B	89910	broad.mit.edu	37	chr12	109962256	109962256	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattagcgctatgatggggAcatcactgacctgggcctga	10	9	12	10	1	1	3	1	3	0	0	1	4	1	4	2	3	1	1	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109962256A>G	uc001top.2	+	23	3119	c.2516A>G	c.(2515-2517)GAC>GGC	p.D839G	UBE3B_uc001toq.2_Missense_Mutation_p.D839G|UBE3B_uc001tos.2_Missense_Mutation_p.D266G|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.D839G	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	839	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						TATGATGGGGACATCACTGAC	0.562													4	50					0	0	0.000602	0	0		G	109962256	G	G	109962256	3	3	4	1	0	0	0	0	1	0	0	0	16906	275	10	3	2598	3	UBE3B	12	109962256	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	63711	109962256	23889639	2904	4870											
MVK	4598	broad.mit.edu	37	chr12	110019211	110019211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtttcagggccctgccgaGcctggatatcgtagtgtggt	5	12	15	9	2	1	0	1	0	0	0	2	2	1	1	3	3	2	2	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:110019211G>A	uc001toy.3	+	5	567	c.383G>A	c.(382-384)AGC>AAC	p.S128N	MVK_uc009zvk.2_Missense_Mutation_p.S128N|MVK_uc010sxr.1_Intron|MVK_uc001toz.3_Intron|MVK_uc001tpc.3_RNA	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase	128					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0						GCCCTGCCGAGCCTGGATATC	0.682													14	35					0	0	0.007413	0	0		A	110019211	A	A	110019211	3	1	4	1	0	0	0	0	1	0	0	0	10013	971	34	2	397	2	MVK	12	110019211	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	56955	110019211	23832684	2905	4871											
TRPV4	59341	broad.mit.edu	37	chr12	110240894	110240894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagggatggtgtcgttgcggCcattgctcaggttcagcaag	7	10	15	9	2	2	0	2	0	0	0	3	1	2	1	1	4	3	4	1	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:110240894C>T	uc001tpj.1	-	3	709	c.614G>A	c.(613-615)GGC>GAC	p.G205D	TRPV4_uc001tpg.1_Missense_Mutation_p.G171D|TRPV4_uc001tph.1_Missense_Mutation_p.G205D|TRPV4_uc001tpi.1_Missense_Mutation_p.G205D|TRPV4_uc001tpk.1_Missense_Mutation_p.G205D|TRPV4_uc001tpl.1_Missense_Mutation_p.G205D	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	205	Cytoplasmic (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						GTCGTTGCGGCCATTGCTCAG	0.577													8	31					0	0	0.00308	0	0		T	110240894	T	T	110240894	3	4	4	1	0	0	0	0	1	0	0	0	16624	739	26	2	2053	2	TRPV4	12	110240894	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	221683	110240894	23611001	2906	4872											
TCHP	84260	broad.mit.edu	37	chr12	110350854	110350854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgggcccgagagcgcagcGcacgggacagactgatgagc	10	3	17	11	4	0	4	0	2	0	2	0	6	0	5	1	2	3	2	1	2	0	0	rs147052884	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:110350854G>A	uc001tpn.2	+	10	1264	c.1111G>A	c.(1111-1113)GCA>ACA	p.A371T	TCHP_uc001tpo.1_RNA|TCHP_uc001tpp.2_Missense_Mutation_p.A371T	NM_001143852	NP_001137324	Q9BT92	TCHP_HUMAN	trichoplein	371	Trichohyalin/plectin homology domain.|Glu-rich.|Interaction with keratin proteins.				apoptosis|negative regulation of cell growth	apical cortex|centrosome|keratin filament|mitochondrion|plasma membrane	protein binding			skin(1)	1						AGAGCGCAGCGCACGGGACAG	0.622													4	26					0	0	0.001168	0	0		A	110350854	A	A	110350854	3	1	4	1	0	0	0	0	1	0	0	0	15727	1087	38	1	1145	1	TCHP	12	110350854	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	109960	110350854	23501041	2907	4873											
GPN3	51184	broad.mit.edu	37	chr12	110906005	110906005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaccagctgcgcataccgagGcatgttggctcccggagccg	7	6	14	14	4	0	0	0	0	0	0	1	3	1	1	4	3	4	5	4	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:110906005G>A	uc001tqr.2	-	1	60	c.4C>T	c.(4-6)CCT>TCT	p.P2S	GPN3_uc001tqs.2_Missense_Mutation_p.P2S|C12orf24_uc010sxz.1_5'Flank|C12orf24_uc009zvo.2_5'Flank|C12orf24_uc001tqt.2_5'Flank|C12orf24_uc001tqu.3_5'Flank|C12orf24_uc001tqv.3_5'Flank	NM_016301	NP_057385	Q9UHW5	GPN3_HUMAN	GPN-loop GTPase 3 isoform 1	2						protein complex	GTP binding				0						GCATACCGAGGCATGTTGGCT	0.627													11	18					0	0	0.000978	0	0		A	110906005	A	A	110906005	3	1	4	1	0	0	0	0	1	0	0	0	6634	1203	42	2	912	2	GPN3	12	110906005	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	555151	110906005	22945890	2908	4874											
PPP1CC	5501	broad.mit.edu	37	chr12	111169698	111169698	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacattcttaccaggcttggAccctctcactgcaagagaaa	12	9	8	12	0	2	1	1	0	2	1	3	4	2	2	2	2	2	2	2	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:111169698A>G	uc001tru.2	-	2	309	c.64T>C	c.(64-66)TCC>CCC	p.S22P		NM_002710	NP_002701	P36873	PP1G_HUMAN	protein phosphatase 1, catalytic subunit, gamma	22					cell division|glycogen metabolic process|mitotic prometaphase|triglyceride catabolic process	cleavage furrow|condensed chromosome kinetochore|cytosol|midbody|MLL5-L complex|nuclear speck|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|protein binding|protein kinase binding|protein serine/threonine phosphatase activity			lung(2)|central_nervous_system(1)	3						CCAGGCTTGGACCCTCTCACT	0.393													7	100					0	0	0.001984	0	0		G	111169698	G	G	111169698	3	3	4	1	0	0	0	0	1	0	0	0	12373	275	10	3	931	3	PPP1CC	12	111169698	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	263693	111169698	22682197	2909	4875											
ATXN2	6311	broad.mit.edu	37	chr12	111895132	111895132	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagggtagcgttagggtgCgcatactgctgagcaaggga	9	8	17	7	2	0	1	0	1	0	0	0	2	0	2	0	3	6	6	0	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:111895132C>T	uc001tsj.2	-	22	3564	c.3402G>A	c.(3400-3402)GCG>GCA	p.A1134A	ATXN2_uc001tsh.2_Silent_p.A869A|ATXN2_uc001tsi.2_Silent_p.A827A|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Silent_p.A322A|ATXN2_uc001tsl.1_Silent_p.A135A	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	1134					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						CGTTAGGGTGCGCATACTGCT	0.537													7	68					0	0	0.00308	0	0		T	111895132	T	T	111895132	2	4	4	1	0	0	0	0	0	0	0	1	1212	755	27	1		1	ATXN2	12	111895132	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	725434	111895132	21956763	2910	4876											
NAA25	80018	broad.mit.edu	37	chr12	112513574	112513574	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttattttcccgactctgAatctcacttgtcaacttctc	8	17	3	13	1	4	1	2	1	3	0	7	2	5	1	1	0	1	0	1	0	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:112513574A>T	uc001ttm.2	-	8	704	c.684T>A	c.(682-684)ATT>ATA	p.I228I	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Silent_p.I200I|NAA25_uc009zwa.1_Silent_p.I228I	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	228						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						CCCGACTCTGAATCTCACTTG	0.413													14	36					0	0	0.00499	0	0		T	112513574	T	T	112513574	2	4	4	1	0	0	0	0	0	0	0	1	10139	242	9	5		5	NAA25	12	112513574	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	618442	112513574	21338321	2911	4877											
TRAFD1	10906	broad.mit.edu	37	chr12	112589844	112589844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccagaatggggccataGcccctgggcacgtttcagtg	9	7	13	12	1	1	1	1	0	0	1	1	1	1	1	4	3	2	2	4	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:112589844G>A	uc001ttp.2	+	10	1605	c.1519G>A	c.(1519-1521)GCC>ACC	p.A507T	TRAFD1_uc001tto.2_Missense_Mutation_p.A507T	NM_006700	NP_006691	O14545	TRAD1_HUMAN	TRAF-type zinc finger domain containing 1	507					negative regulation of innate immune response	intracellular	protein binding|zinc ion binding				0						TGGGGCCATAGCCCCTGGGCA	0.582													43	108					0	0	0.00361	0	0		A	112589844	A	A	112589844	3	1	4	1	0	0	0	0	1	0	0	0	16473	971	34	2	1553	2	TRAFD1	12	112589844	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	76270	112589844	21262051	2912	4878											
C12orf51	283450	broad.mit.edu	37	chr12	112632704	112632704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttacctgggagaggaggtgCgaggagctgattggacagca	10	8	17	6	1	0	2	0	1	0	1	0	7	0	5	1	5	4	2	1	5	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:112632704C>T	uc009zwc.2	-	49	7486	c.7468G>A	c.(7468-7470)GCA>ACA	p.A2490T		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						AGAGGAGGTGCGAGGAGCTGA	0.582													7	15					0	0	0.001984	0	0		T	112632704	T	T	112632704	3	4	4	1	0	0	0	0	1	0	0	0	1699	768	27	1	4606	1	C12orf51	12	112632704	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	42860	112632704	21219191	2913	4879											
C12orf51	283450	broad.mit.edu	37	chr12	112657288	112657288	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctccacaactgcaagtcGctctcctgtagagggcacat	10	9	8	14	1	1	1	0	0	1	1	4	1	2	1	3	1	3	4	3	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:112657288G>A	uc009zwc.2	-	38	5728	c.5710C>T	c.(5710-5712)CGA>TGA	p.R1904*	C12orf51_uc001ttr.1_Nonsense_Mutation_p.R79*	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						ACTGCAAGTCGCTCTCCTGTA	0.532													7	12					0	0	0.004482	0	0		A	112657288	A	A	112657288	4	1	4	1	0	0	0	0	0	1	0	0	1699	1095	38	1	6408	1	C12orf51	12	112657288	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	24584	112657288	21194607	2914	4880											
C12orf51	283450	broad.mit.edu	37	chr12	112721041	112721041	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatgcttttggcagattcGccctcttttctcattagaat	8	18	6	9	1	2	2	1	0	2	2	4	2	2	2	1	1	1	2	1	1	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:112721041G>A	uc009zwc.2	-	2	237	c.219C>T	c.(217-219)GGC>GGT	p.G73G		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TGGCAGATTCGCCCTCTTTTC	0.428													5	45					0	0	0.000602	0	0		A	112721041	A	A	112721041	2	1	4	1	0	0	0	0	0	0	0	1	1699	1074	38	1		1	C12orf51	12	112721041	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	63753	112721041	21130854	2915	4881											
DTX1	1840	broad.mit.edu	37	chr12	113515327	113515327	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgacggcggcgcatggacgGcctacgatatggacatctgc	9	6	14	12	6	1	0	0	0	1	0	1	4	1	2	1	5	2	1	1	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:113515327G>T	uc001tuk.1	+	2	694	c.358G>T	c.(358-360)GCC>TCC	p.A120S		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	120	WWE 2.				negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						CGCATGGACGGCCTACGATAT	0.627													8	12					0.00448238	0.00465074	0.004482	1	0		T	113515327	T	T	113515327	3	4	4	1	0	0	0	0	1	0	0	0	4799	1203	42	5	364	5	DTX1	12	113515327	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	794286	113515327	20336568	2916	4882											
RASAL1	8437	broad.mit.edu	37	chr12	113545988	113545988	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatggcaggtgcgaagaatcGcaagaagagaaatccactga	16	5	13	7	2	0	4	0	1	0	3	2	7	1	4	1	2	1	2	1	2	5	0	rs145374624		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:113545988G>A	uc001tum.1	-	15	1707	c.1414C>T	c.(1414-1416)CGA>TGA	p.R472*	RASAL1_uc010syp.1_Nonsense_Mutation_p.R472*|RASAL1_uc001tul.2_Nonsense_Mutation_p.R472*|RASAL1_uc001tun.1_Nonsense_Mutation_p.R473*|RASAL1_uc010syq.1_Nonsense_Mutation_p.R472*|RASAL1_uc001tuo.3_Nonsense_Mutation_p.R472*|RASAL1_uc010syr.1_Nonsense_Mutation_p.R472*	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	472	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						GCGAAGAATCGCAAGAAGAGA	0.557													7	19					0	0	0.001984	0	0		A	113545988	A	A	113545988	4	1	4	1	0	0	0	0	0	1	0	0	13088	1095	38	1	1032	1	RASAL1	12	113545988	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	30661	113545988	20305907	2917	4883											
DDX54	79039	broad.mit.edu	37	chr12	113612541	113612541	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggtggagcagcacggcAgccttggtgtcctcccgcac	7	6	14	14	2	0	0	0	0	0	0	2	1	2	1	3	4	4	5	3	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:113612541A>T	uc001tup.2	-	10	1000	c.972T>A	c.(970-972)GCT>GCA	p.A324A	DDX54_uc001tuq.3_Silent_p.A324A	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	324					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						GCAGCACGGCAGCCTTGGTGT	0.657											OREG0022139	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	17					0	0	0.00308	0	0		T	113612541	T	T	113612541	2	4	4	1	0	0	0	0	0	0	0	1	4375	175	7	5		5	DDX54	12	113612541	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	66553	113612541	20239354	2918	4884											
PLBD2	196463	broad.mit.edu	37	chr12	113822727	113822727	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagccccgggagccgggTgcttaccatcctggagcaga	7	5	14	15	2	0	1	0	0	0	1	1	3	1	3	6	3	5	2	6	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:113822727T>C	uc001tve.2	+	8	1225	c.1190T>C	c.(1189-1191)GTG>GCG	p.V397A	PLBD2_uc001tvf.2_Intron	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	397					lipid catabolic process	lysosomal lumen	hydrolase activity				0						GGGAGCCGGGTGCTTACCATC	0.672													4	9					0	0	0.00308	0	0		C	113822727	C	C	113822727	3	2	4	1	0	0	0	0	1	0	0	0	12045	1696	59	3	1220	3	PLBD2	12	113822727	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	210186	113822727	20029168	2919	4885											
SDS	10993	broad.mit.edu	37	chr12	113830802	113830802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgagcgcccgcagctgggCcaggctgatgttgctgcccc	4	8	14	15	2	0	2	0	2	0	0	0	2	0	2	4	2	4	5	4	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:113830802C>T	uc001tvg.2	-	8	1053	c.931G>A	c.(931-933)GCC>ACC	p.A311T		NM_006843	NP_006834	P20132	SDHL_HUMAN	serine dehydratase	311					gluconeogenesis|L-serine catabolic process|pyruvate biosynthetic process	cytoplasm	L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|protein homodimerization activity|pyridoxal phosphate binding			pancreas(1)	1					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	CGCAGCTGGGCCAGGCTGATG	0.607													32	65					0	0	0.00874	0	0		T	113830802	T	T	113830802	3	4	4	1	0	0	0	0	1	0	0	0	14000	739	26	2	59	2	SDS	12	113830802	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	8075	113830802	20021093	2920	4886											
FBXO21	23014	broad.mit.edu	37	chr12	117604880	117604880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaaagatgtccagggtcGccctatccaaagagccaaat	14	7	9	11	1	1	2	1	0	0	2	4	2	3	2	4	1	1	0	4	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:117604880G>A	uc001twk.2	-	8	1055	c.1016C>T	c.(1015-1017)GCG>GTG	p.A339V	FBXO21_uc001twj.2_Missense_Mutation_p.A339V|FBXO21_uc009zwq.2_Intron|FBXO21_uc001twl.1_5'UTR	NM_033624	NP_296373	O94952	FBX21_HUMAN	F-box only protein 21 isoform 1	339					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			kidney(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		GTCCAGGGTCGCCCTATCCAA	0.448													16	20					0	0	0.004007	0	0		A	117604880	A	A	117604880	3	1	4	1	0	0	0	0	1	0	0	0	5747	1087	38	1	890	1	FBXO21	12	117604880	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3774078	117604880	16247015	2921	4887											
NOS1	4842	broad.mit.edu	37	chr12	117672544	117672544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcccgttggtgtggagacGcacgaagatagttgaccgac	9	8	14	10	4	0	3	0	1	0	2	1	6	1	3	2	2	0	4	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:117672544G>A	uc001twm.1	-	21	3747	c.3061C>T	c.(3061-3063)CGT>TGT	p.R1021C		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1021	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GTGTGGAGACGCACGAAGATA	0.522													4	15					0	0	0.000602	0	0		A	117672544	A	A	117672544	3	1	4	1	0	0	0	0	1	0	0	0	10560	1087	38	1	1279	1	NOS1	12	117672544	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	67664	117672544	16179351	2922	4888											
NOS1	4842	broad.mit.edu	37	chr12	117705930	117705930	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgtcttcctcatgtctaagTtcatcttcttggccacttcc	6	16	5	14	1	6	0	2	0	4	0	8	0	8	0	3	1	0	1	3	1	1	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:117705930T>C	uc001twm.1	-	11	2545	c.1859A>G	c.(1858-1860)AAC>AGC	p.N620S		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	620					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CATGTCTAAGTTCATCTTCTT	0.522													17	49					0	0	0.00499	0	0		C	117705930	C	C	117705930	3	2	4	1	0	0	0	0	1	0	0	0	10560	1725	60	3	2521	3	NOS1	12	117705930	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	33386	117705930	16145965	2923	4889											
KSR2	283455	broad.mit.edu	37	chr12	118105353	118105353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgtcccacaaagaaggagCggagggagcgctcggacagc	11	3	16	11	4	0	1	0	0	0	1	2	5	1	5	1	4	3	1	1	4	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:118105353C>T	uc001two.2	-	5	1065	c.1010G>A	c.(1009-1011)CGC>CAC	p.R337H		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	366					intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AAAGAAGGAGCGGAGGGAGCG	0.602													8	20					0	0	0.006214	0	0		T	118105353	T	T	118105353	3	4	4	1	0	0	0	0	1	0	0	0	8598	768	27	1	1819	1	KSR2	12	118105353	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	399423	118105353	15746542	2924	4890											
KSR2	283455	broad.mit.edu	37	chr12	118199014	118199014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgacgatgttgggggtgCgcggcggggtgcggaccgcg	3	7	23	8	7	0	1	0	1	0	0	0	3	0	2	1	7	2	1	1	7	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:118199014C>T	uc001two.2	-	4	756	c.701G>A	c.(700-702)CGC>CAC	p.R234H		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	263	Pro-rich.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GTTGGGGGTGCGCGGCGGGGT	0.751													5	19					0	0	0.001168	0	0		T	118199014	T	T	118199014	3	4	4	1	0	0	0	0	1	0	0	0	8598	768	27	1	2132	1	KSR2	12	118199014	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	93661	118199014	15652881	2925	4891											
VSIG10	54621	broad.mit.edu	37	chr12	118506296	118506296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaactcctctctctcacGtgctccctcctgttccccta	4	13	5	19	1	2	0	1	0	2	0	8	0	6	0	5	1	2	3	5	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:118506296G>A	uc001tws.2	-	8	1787	c.1453C>T	c.(1453-1455)CGT>TGT	p.R485C		NM_019086	NP_061959	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	485	Cytoplasmic (Potential).|Glu-rich.					integral to membrane					0						TCTCTCTCACGTGCTCCCTCC	0.383													12	50					0	0	0.001855	0	0		A	118506296	A	A	118506296	3	1	4	1	0	0	0	0	1	0	0	0	17249	1145	40	1	177	1	VSIG10	12	118506296	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	307282	118506296	15345599	2926	4892											
VSIG10	54621	broad.mit.edu	37	chr12	118517172	118517172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctgcaccatgcagctggCgcccgactctggcccaacta	8	7	10	16	2	2	0	0	0	2	0	2	2	2	0	3	2	4	3	3	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:118517172C>T	uc001tws.2	-	4	1238	c.904G>A	c.(904-906)GCC>ACC	p.A302T		NM_019086	NP_061959	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	302	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane					0						ATGCAGCTGGCGCCCGACTCT	0.522													27	40					0	0	0.009535	0	0		T	118517172	T	T	118517172	3	4	4	1	0	0	0	0	1	0	0	0	17249	768	27	1	742	1	VSIG10	12	118517172	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10876	118517172	15334723	2927	4893											
TAOK3	51347	broad.mit.edu	37	chr12	118627718	118627718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggcctgggatcgccgtggCccgcctcatcccttatgaat	6	9	11	15	3	1	1	1	1	0	0	3	2	2	2	5	3	0	0	5	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:118627718C>T	uc001twx.2	-	14	1518	c.1223G>A	c.(1222-1224)GGC>GAC	p.G408D	TAOK3_uc001twv.2_5'UTR|TAOK3_uc001tww.2_Missense_Mutation_p.G238D|TAOK3_uc001twy.3_Missense_Mutation_p.G408D	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	408					MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ATCGCCGTGGCCCGCCTCATC	0.572													25	48					0	0	0.00333	0	0		T	118627718	T	T	118627718	3	4	4	1	0	0	0	0	1	0	0	0	15574	739	26	2	1505	2	TAOK3	12	118627718	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	110546	118627718	15224177	2928	4894											
SUDS3	64426	broad.mit.edu	37	chr12	118828947	118828947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagactgaacaagtggaacGaaattacattaaagaaaaga	21	7	8	5	1	1	4	1	1	0	3	1	6	1	5	0	1	3	0	0	1	9	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:118828947G>A	uc001twz.2	+	6	516	c.377G>A	c.(376-378)CGA>CAA	p.R126Q		NM_022491	NP_071936	Q9H7L9	SDS3_HUMAN	suppressor of defective silencing 3	126	Potential.				chromatin modification|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	Sin3 complex	histone deacetylase binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CAAGTGGAACGAAATTACATT	0.453													27	86					0	0	0.005443	0	0		A	118828947	A	A	118828947	3	1	4	1	0	0	0	0	1	0	0	0	15392	1058	37	1	399	1	SUDS3	12	118828947	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	201229	118828947	15022948	2929	4895											
SRRM4	84530	broad.mit.edu	37	chr12	119583293	119583293	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggaaatgacacgtcctcGccaccctccacgcaaaccag	12	5	7	17	3	1	1	1	1	0	0	4	2	3	2	5	1	1	1	5	1	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:119583293G>A	uc001txa.1	+	9	1171	c.879G>A	c.(877-879)TCG>TCA	p.S293S		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	293	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						ACACGTCCTCGCCACCCTCCA	0.632													4	13					0	0	0.009096	0	0		A	119583293	A	A	119583293	2	1	4	1	0	0	0	0	0	0	0	1	15196	1074	38	1		1	SRRM4	12	119583293	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	754346	119583293	14268602	2930	4896											
SRRM4	84530	broad.mit.edu	37	chr12	119588980	119588980	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatccccaaatcccagggCttcccccaggtacacccaaa	11	5	6	19	1	0	0	0	0	0	0	3	1	3	0	7	2	1	2	7	2	3	2	rs56390632		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:119588980C>A	uc001txa.1	+	10	1527	c.1235C>A	c.(1234-1236)GCT>GAT	p.A412D		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	412	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						AATCCCAGGGCTTCCCCCAGG	0.552													28	55					2.12542e-12	2.30176e-12	0.00632	1	0		A	119588980	A	A	119588980	3	1	4	1	0	0	0	0	1	0	0	0	15196	797	28	5	1273	5	SRRM4	12	119588980	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5687	119588980	14262915	2931	4897											
CIT	11113	broad.mit.edu	37	chr12	120142248	120142248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggctgcacagatgcagaGcccgttctcaatctgaaaag	12	8	10	11	1	2	3	1	1	2	2	3	3	2	3	1	1	3	4	1	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:120142248G>A	uc001txi.1	-	40	5151	c.5098C>T	c.(5098-5100)CTC>TTC	p.L1700F	CIT_uc001txh.1_Missense_Mutation_p.L1219F|CIT_uc001txj.1_Missense_Mutation_p.L1742F	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1700	CNH.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		CAGATGCAGAGCCCGTTCTCA	0.458													17	29					0	0	0.004007	0	0		A	120142248	A	A	120142248	3	1	4	1	0	0	0	0	1	0	0	0	3441	971	34	2	1017	2	CIT	12	120142248	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	553268	120142248	13709647	2932	4898											
ACADS	35	broad.mit.edu	37	chr12	121175675	121175675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagctgcgtccaccaccGcccgggccgagggcgactca	7	3	14	17	5	1	0	1	0	0	0	2	3	2	1	5	3	2	1	5	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:121175675G>A	uc001tza.3	+	5	626	c.508G>A	c.(508-510)GCC>ACC	p.A170T	ACADS_uc010szl.1_Intron|ACADS_uc001tzb.3_Missense_Mutation_p.A97T	NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	170						mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)	GTCCACCACCGCCCGGGCCGA	0.652													9	22					0	0	0.006214	0	0		A	121175675	A	A	121175675	3	1	4	1	0	0	0	0	1	0	0	0	114	1087	38	1	526	1	ACADS	12	121175675	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1033427	121175675	12676220	2933	4899											
ACADS	35	broad.mit.edu	37	chr12	121177116	121177116	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccatccagatcctgggCggcatgggctacgtgacaga	9	6	14	12	2	0	3	0	1	0	2	2	3	2	3	3	4	1	2	3	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:121177116C>T	uc001tza.3	+	10	1222	c.1104C>T	c.(1102-1104)GGC>GGT	p.G368G	ACADS_uc001tzb.3_Silent_p.G249G	NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	368	FAD; shared with dimeric partner.					mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)	AGATCCTGGGCGGCATGGGCT	0.642													5	20					0	0	0.001984	0	0		T	121177116	T	T	121177116	2	4	4	1	0	0	0	0	0	0	0	1	114	755	27	1		1	ACADS	12	121177116	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1441	121177116	12674779	2934	4900											
SPPL3	121665	broad.mit.edu	37	chr12	121205248	121205248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggagaccttctgcatgcGcccggagatgttggcaggtc	7	9	15	10	2	1	2	0	0	1	2	2	4	1	2	2	4	2	4	2	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:121205248G>A	uc001tzd.2	-	9	1403	c.922C>T	c.(922-924)CGC>TGC	p.R308C	SPPL3_uc009zwz.2_Missense_Mutation_p.R301C|SPPL3_uc001tzc.2_Missense_Mutation_p.R138C	NM_139015	NP_620584	Q8TCT6	PSL4_HUMAN	signal peptide peptidase 3	309						integral to membrane	aspartic-type endopeptidase activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TTCTGCATGCGCCCGGAGATG	0.547													14	37					0	0	0.00245	0	0		A	121205248	A	A	121205248	3	1	4	1	0	0	0	0	1	0	0	0	15115	1087	38	1	244	1	SPPL3	12	121205248	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	28132	121205248	12646647	2935	4901											
WDR66	144406	broad.mit.edu	37	chr12	122359496	122359496	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttcaggaatacaggaagaAaccacagtagagccccaaga	17	4	10	10	0	1	3	1	0	0	3	1	5	1	5	3	2	3	2	3	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:122359496A>C	uc009zxk.2	+	2	427	c.285A>C	c.(283-285)GAA>GAC	p.E95D		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	95	Glu-rich.						calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		TACAGGAAGAAACCACAGTAG	0.398													8	98					0	0	0.00308	0	0		C	122359496	C	C	122359496	3	2	4	1	0	0	0	0	1	0	0	0	17343	11	1	5	287	5	WDR66	12	122359496	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1154248	122359496	11492399	2936	4902											
WDR66	144406	broad.mit.edu	37	chr12	122372182	122372182	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatattatctcctgcctctgCgtcagtgaagacaggcggtg	9	11	11	10	2	3	2	1	1	2	1	4	2	3	2	2	2	2	0	2	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:122372182C>T	uc009zxk.2	+	5	1060	c.918C>T	c.(916-918)TGC>TGT	p.C306C		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	306	WD 1.						calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		CCTGCCTCTGCGTCAGTGAAG	0.532													5	17					0	0	0.004482	0	0		T	122372182	T	T	122372182	2	4	4	1	0	0	0	0	0	0	0	1	17343	776	27	1		1	WDR66	12	122372182	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	12686	122372182	11479713	2937	4903											
WDR66	144406	broad.mit.edu	37	chr12	122396992	122396992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccatgactcccagtatatgGcaactgctgtaagtattttc	10	13	7	11	0	0	1	0	1	0	0	2	1	1	1	2	1	2	5	2	1	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:122396992G>A	uc009zxk.2	+	13	2267	c.2125G>A	c.(2125-2127)GCA>ACA	p.A709T		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	709	WD 8.						calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		CCAGTATATGGCAACTGCTGT	0.323													42	106					0	0	0.009718	0	0		A	122396992	A	A	122396992	3	1	4	1	0	0	0	0	1	0	0	0	17343	1203	42	2	2171	2	WDR66	12	122396992	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	24810	122396992	11454903	2938	4904											
B3GNT4	79369	broad.mit.edu	37	chr12	122691165	122691165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggataccttcttgctcctgGccatcaagtcacagcctggt	8	11	9	13	0	3	0	2	0	1	0	4	1	4	1	4	3	3	1	4	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:122691165G>A	uc001ubx.2	+	3	585	c.367G>A	c.(367-369)GCC>ACC	p.A123T	B3GNT4_uc001uby.2_Missense_Mutation_p.A98T	NM_030765	NP_110392	Q9C0J1	B3GN4_HUMAN	UDP-GlcNAc:betaGal	123	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000297)|Epithelial(86;0.000497)|BRCA - Breast invasive adenocarcinoma(302;0.222)		CTTGCTCCTGGCCATCAAGTC	0.602													7	152					0	0	0.008291	0	0		A	122691165	A	A	122691165	3	1	4	1	0	0	0	0	1	0	0	0	1260	1203	42	2	373	2	B3GNT4	12	122691165	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	294173	122691165	11160730	2939	4905											
VPS33A	65082	broad.mit.edu	37	chr12	122716928	122716928	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatttcagcgaaggttacGcccccaaggaaaaatatcag	15	7	9	10	2	2	0	2	0	0	0	2	2	2	1	2	2	2	2	2	2	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:122716928G>A	uc001ucd.2	-	13	1769	c.1656C>T	c.(1654-1656)GGC>GGT	p.G552G	VPS33A_uc001ucc.2_RNA	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	552					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		CGAAGGTTACGCCCCCAAGGA	0.393													5	65					0	0	0.001168	0	0		A	122716928	A	A	122716928	2	1	4	1	0	0	0	0	0	0	0	1	17227	1074	38	1		1	VPS33A	12	122716928	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	25763	122716928	11134967	2940	4906											
GPR81	27198	broad.mit.edu	37	chr12	123214781	123214781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagaaaccacacagggCgaccccattgcctagtgcgc	12	4	11	14	2	0	1	0	0	0	1	0	3	0	1	4	1	4	1	4	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:123214781C>T	uc001ucz.2	-	1	349	c.106G>A	c.(106-108)GCC>ACC	p.A36T	GPR81_uc001ucw.1_RNA	NM_032554	NP_115943	Q9BXC0	HCAR1_HUMAN	G protein-coupled receptor 81	36	Helical; Name=1; (Potential).				response to estradiol stimulus	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.14e-05)|Epithelial(86;3.25e-05)|BRCA - Breast invasive adenocarcinoma(302;0.197)		CCACACAGGGCGACCCCATTG	0.582													4	30					0	0	0.009096	0	0		T	123214781	T	T	123214781	3	4	4	1	0	0	0	0	1	0	0	0	6726	768	27	1	938	1	GPR81	12	123214781	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	497853	123214781	10637114	2941	4907											
CCDC62	84660	broad.mit.edu	37	chr12	123273396	123273396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacgtgatgccaagatggCggagacttgtattgtgaaag	11	10	13	7	2	0	4	0	2	0	2	0	5	0	4	2	2	2	1	2	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:123273396C>T	uc001udc.2	+	5	735	c.590C>T	c.(589-591)GCG>GTG	p.A197V	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Missense_Mutation_p.A197V|CCDC62_uc001ude.2_Intron	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	197						cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		GCCAAGATGGCGGAGACTTGT	0.368													6	58					0	0	0.001168	0	0		T	123273396	T	T	123273396	3	4	4	1	0	0	0	0	1	0	0	0	2836	768	27	1	608	1	CCDC62	12	123273396	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	58615	123273396	10578499	2942	4908											
MPHOSPH9	10198	broad.mit.edu	37	chr12	123648504	123648504	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctaactcttacttggagtActtgatttacgatttgaagg	11	16	8	6	1	2	2	0	2	2	0	2	4	2	3	0	2	4	1	0	2	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:123648504A>G	uc001uel.2	-	15	2552	c.2445T>C	c.(2443-2445)AGT>AGC	p.S815S	MPHOSPH9_uc010tal.1_Silent_p.S269S|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Silent_p.S269S	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	815					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		TACTTGGAGTACTTGATTTAC	0.383													8	123					0	0	0.004482	0	0		G	123648504	G	G	123648504	2	3	4	1	0	0	0	0	0	0	0	1	9746	388	14	3		3	MPHOSPH9	12	123648504	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	375108	123648504	10203391	2943	4909											
MPHOSPH9	10198	broad.mit.edu	37	chr12	123687564	123687564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catcaagggcattcggaaggCcgtgaggttgaatccctgaa	11	8	13	9	2	1	3	1	3	0	0	3	4	2	4	2	4	0	2	2	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:123687564C>T	uc001uel.2	-	6	1039	c.932G>A	c.(931-933)GGC>GAC	p.G311D	MPHOSPH9_uc010tal.1_Intron|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Intron	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	311					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		ATTCGGAAGGCCGTGAGGTTG	0.473													45	124					0	0	0.00361	0	0		T	123687564	T	T	123687564	3	4	4	1	0	0	0	0	1	0	0	0	9746	739	26	2	2223	2	MPHOSPH9	12	123687564	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	39060	123687564	10164331	2944	4910											
RILPL2	196383	broad.mit.edu	37	chr12	123915117	123915117	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttgagtttgttgcgttcCtgcagcacatcccttagctc	6	14	9	12	1	0	1	0	1	0	0	3	2	2	1	2	0	4	6	2	0	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:123915117C>T	uc001uey.1	-	2	726	c.429G>A	c.(427-429)CAG>CAA	p.Q143Q		NM_145058	NP_659495	Q969X0	RIPL2_HUMAN	Rab interacting lysosomal protein-like 2	143	Potential.|RILP-like.					cytosol|plasma membrane	identical protein binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000546)|Epithelial(86;0.00179)|all cancers(50;0.0168)		TGTTGCGTTCCTGCAGCACAT	0.572													4	88					0	0	0.001984	0	0		T	123915117	T	T	123915117	2	4	4	1	0	0	0	0	0	0	0	1	13387	680	24	4		4	RILPL2	12	123915117	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	227553	123915117	9936778	2945	4911											
RILPL1	353116	broad.mit.edu	37	chr12	123957201	123957201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctgtgtgttggccaggcGcttcttatctcgggagaaga	6	13	13	9	2	3	2	0	0	3	2	5	3	3	2	1	3	0	2	1	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:123957201G>A	uc001ufe.2	-	7	1332	c.1096C>T	c.(1096-1098)CGC>TGC	p.R366C	RILPL1_uc001ufd.2_Missense_Mutation_p.R215C|RILPL1_uc010tas.1_3'UTR	NM_178314	NP_847884	Q5EBL4	RIPL1_HUMAN	Rab interacting lysosomal protein-like 1	366					neuroprotection	cytosol					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.00067)|all cancers(50;0.00836)|BRCA - Breast invasive adenocarcinoma(302;0.197)		TTGGCCAGGCGCTTCTTATCT	0.512													4	8					0	0	0.009096	0	0		A	123957201	A	A	123957201	3	1	4	1	0	0	0	0	1	0	0	0	13386	1087	38	1	119	1	RILPL1	12	123957201	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	42084	123957201	9894694	2946	4912											
GTF2H3	2967	broad.mit.edu	37	chr12	124144112	124144112	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtgcctcagatgccttCtcttctgcagtatttgctgg	6	14	11	10	0	3	1	1	0	2	1	4	2	3	1	2	2	4	3	2	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:124144112C>A	uc001ufo.1	+	10	691	c.665C>A	c.(664-666)TCT>TAT	p.S222Y	GTF2H3_uc010tau.1_Missense_Mutation_p.S181Y	NM_001516	NP_001507	Q13889	TF2H3_HUMAN	general transcription factor IIH, polypeptide 3,	222					mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	core TFIIH complex|holo TFIIH complex	damaged DNA binding|metal ion binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|translation factor activity, nucleic acid binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.1e-05)|Epithelial(86;0.000388)|all cancers(50;0.00362)		CAGATGCCTTCTCTTCTGCAG	0.552								NER					13	29					4.3838e-07	4.66527e-07	0.001855	1	0		A	124144112	A	A	124144112	3	1	4	1	0	0	0	0	1	0	0	0	6880	913	32	5	703	5	GTF2H3	12	124144112	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	186911	124144112	9707783	2947	4913											
DNAH10	196385	broad.mit.edu	37	chr12	124337847	124337847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggactcagagccctgaaatCggtgctggtcatggctggtg	7	10	15	9	1	2	2	2	1	0	1	3	3	2	3	1	5	2	2	1	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:124337847C>T	uc001uft.3	+	35	6057	c.6032C>T	c.(6031-6033)TCG>TTG	p.S2011L		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2011	AAA 1 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GCCCTGAAATCGGTGCTGGTC	0.527													3	11					0	0	0.009096	0	0		T	124337847	T	T	124337847	3	4	4	1	0	0	0	0	1	0	0	0	4604	893	31	1	6170	1	DNAH10	12	124337847	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	193735	124337847	9514048	2948	4914											
CCDC92	80212	broad.mit.edu	37	chr12	124422003	124422003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgcggcggcgaggcgtttCgggtagcttgtctttggggg	3	11	19	8	5	1	0	0	0	1	0	2	1	1	0	0	6	2	3	0	6	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:124422003C>T	uc001ufw.1	-	5	745	c.598G>A	c.(598-600)GAA>AAA	p.E200K	CCDC92_uc001ufv.1_Missense_Mutation_p.E183K|CCDC92_uc001ufx.1_Missense_Mutation_p.E200K|CCDC92_uc001ufy.1_Missense_Mutation_p.E183K	NM_025140	NP_079416	Q53HC0	CCD92_HUMAN	coiled-coil domain containing 92	200											0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.0002)|OV - Ovarian serous cystadenocarcinoma(86;0.000222)|all cancers(50;0.00129)|BRCA - Breast invasive adenocarcinoma(302;0.242)		CGAGGCGTTTCGGGTAGCTTG	0.602													4	19					0	0	0.001168	0	0		T	124422003	T	T	124422003	3	4	4	1	0	0	0	0	1	0	0	0	2874	893	31	1	401	1	CCDC92	12	124422003	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	84156	124422003	9429892	2949	4915											
FAM101A	144347	broad.mit.edu	37	chr12	124798908	124798908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccacgcccgcgcgccctgcGcttccgcagcaccaccatca	6	4	9	22	6	1	0	1	0	0	0	2	0	2	0	6	0	2	3	6	0	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:124798908G>A	uc001ugd.1	+	3	488	c.245G>A	c.(244-246)CGC>CAC	p.R82H	FAM101A_uc001uge.1_Missense_Mutation_p.R82H	NM_181709	NP_859060	Q6ZTI6	F101A_HUMAN	hypothetical protein LOC144347	163											0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;2.38e-05)|OV - Ovarian serous cystadenocarcinoma(86;6.95e-05)|all cancers(50;0.000361)|BRCA - Breast invasive adenocarcinoma(302;0.059)		CGCGCCCTGCGCTTCCGCAGC	0.687													4	39					0	0	0.001168	0	0		A	124798908	A	A	124798908	3	1	4	1	0	0	0	0	1	0	0	0	5391	1087	38	1	251	1	FAM101A	12	124798908	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	376905	124798908	9052987	2950	4916											
NCOR2	9612	broad.mit.edu	37	chr12	124824566	124824566	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacctcaggaccgtgggCgtgctgggctccacagcggt	5	6	15	15	3	1	0	1	0	0	0	2	1	2	1	4	4	2	2	4	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:124824566C>T	uc010tay.1	-	39	5859	c.5703G>A	c.(5701-5703)ACG>ACA	p.T1901T	NCOR2_uc010taz.1_Silent_p.T1885T|NCOR2_uc010tax.1_Silent_p.T12T	NM_006312	NP_006303	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 1	1902				T -> K (in Ref. 2; AAD20946, 3; AAD22973, 4; AAX77219 and 8; AAC50236).	cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GGACCGTGGGCGTGCTGGGCT	0.418													4	17					0	0	0.001168	0	0		T	124824566	T	T	124824566	2	4	4	1	0	0	0	0	0	0	0	1	10255	755	27	1		1	NCOR2	12	124824566	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	25658	124824566	9027329	2951	4917											
NCOR2	9612	broad.mit.edu	37	chr12	124857100	124857100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctgccctgtgtccttggCggcctcagtgtgaggagagg	5	11	15	10	1	2	2	1	1	1	1	3	3	3	2	3	4	1	0	3	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:124857100C>T	uc010tba.1	-	20	2392	c.2275G>A	c.(2275-2277)GCC>ACC	p.A759T	NCOR2_uc010tay.1_Missense_Mutation_p.A759T|NCOR2_uc010taz.1_Missense_Mutation_p.A742T|NCOR2_uc010tbb.1_Missense_Mutation_p.A759T|NCOR2_uc010tbc.1_Missense_Mutation_p.A741T|NCOR2_uc001ugj.1_Missense_Mutation_p.A759T	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	759					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GTGTCCTTGGCGGCCTCAGTG	0.687													13	13					0	0	0.008871	0	0		T	124857100	T	T	124857100	3	4	4	1	0	0	0	0	1	0	0	0	10255	768	27	1	5405	1	NCOR2	12	124857100	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	32534	124857100	8994795	2952	4918											
DHX37	57647	broad.mit.edu	37	chr12	125448952	125448952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgacccacctgtagcagtggCcgggctccgtccgtcctgct	4	9	12	16	3	0	1	0	1	0	0	3	1	3	1	6	2	2	4	6	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:125448952C>T	uc001ugy.2	-	15	2132	c.2033G>A	c.(2032-2034)GGC>GAC	p.G678D		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	678	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		GTAGCAGTGGCCGGGCTCCGT	0.642													9	15					0	0	0.000978	0	0		T	125448952	T	T	125448952	3	4	4	1	0	0	0	0	1	0	0	0	4516	739	26	2	1492	2	DHX37	12	125448952	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	591852	125448952	8402943	2953	4919											
TMEM132B	114795	broad.mit.edu	37	chr12	125900205	125900205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacctgcatgggccatcGcccggacacgcagagcaggt	8	5	12	16	3	1	1	1	0	0	1	2	2	1	2	4	3	2	3	4	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:125900205G>A	uc001uhe.1	+	3	1081	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	358	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		ATGGGCCATCGCCCGGACACG	0.592													10	41					0	0	0.000978	0	0		A	125900205	A	A	125900205	3	1	4	1	0	0	0	0	1	0	0	0	16071	1087	38	1	1083	1	TMEM132B	12	125900205	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	451253	125900205	7951690	2954	4920											
TMEM132B	114795	broad.mit.edu	37	chr12	126138478	126138478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagtaattccatagagcGcgaaggaaaccaggagagag	15	5	12	9	2	1	2	1	0	0	2	2	6	2	4	3	2	2	1	3	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:126138478G>A	uc001uhe.1	+	9	2467	c.2459G>A	c.(2458-2460)CGC>CAC	p.R820H	TMEM132B_uc001uhf.1_Missense_Mutation_p.R332H	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	820	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		TCCATAGAGCGCGAAGGAAAC	0.498													26	60					0	0	0.003954	0	0		A	126138478	A	A	126138478	3	1	4	1	0	0	0	0	1	0	0	0	16071	1087	38	1	2493	1	TMEM132B	12	126138478	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	238273	126138478	7713417	2955	4921											
FZD10	11211	broad.mit.edu	37	chr12	130647640	130647640	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcggctacaacatgactcgTatgcccaacctgatgggcca	11	8	9	13	2	0	2	0	2	0	0	2	2	0	2	3	2	4	2	3	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:130647640T>C	uc001uii.2	+	1	609	c.153T>C	c.(151-153)CGT>CGC	p.R51R	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	51	FZ.|Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		ACATGACTCGTATGCCCAACC	0.647													4	5					0	0	0.000602	0	0		C	130647640	C	C	130647640	2	2	4	1	0	0	0	0	0	0	0	1	6143	1625	57	3		3	FZD10	12	130647640	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	4509162	130647640	3204255	2956	4922											
PIWIL1	9271	broad.mit.edu	37	chr12	130842068	130842068	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagcctacttaagagtcttAcagcaaaaggtcacagcaga	16	7	9	9	0	2	2	1	0	1	2	2	3	2	2	1	1	5	2	1	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:130842068A>G	uc001uik.2	+	14	1725	c.1635A>G	c.(1633-1635)TTA>TTG	p.L545L	PIWIL1_uc001uij.1_Silent_p.L545L	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	545	RNA-binding (By similarity).				gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		TAAGAGTCTTACAGCAAAAGG	0.418													22	64					0	0	0.00278	0	0		G	130842068	G	G	130842068	2	3	4	1	0	0	0	0	0	0	0	1	11976	388	14	3		3	PIWIL1	12	130842068	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	194428	130842068	3009827	2957	4923											
RIMBP2	23504	broad.mit.edu	37	chr12	130919323	130919323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaagtcgtccaccgaggCgcccctcctcttgaagtctg	7	8	11	15	3	2	1	0	1	2	0	5	3	4	2	5	2	0	0	5	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:130919323C>T	uc001uil.2	-	11	2322	c.2158G>A	c.(2158-2160)GCC>ACC	p.A720T	RIMBP2_uc001uim.2_Missense_Mutation_p.A628T|RIMBP2_uc001uin.1_Missense_Mutation_p.A379T	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	720						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		TCCACCGAGGCGCCCCTCCTC	0.647													11	35					0	0	0.003163	0	0		T	130919323	T	T	130919323	3	4	4	1	0	0	0	0	1	0	0	0	13388	768	27	1	1036	1	RIMBP2	12	130919323	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	77255	130919323	2932572	2958	4924											
SFRS8	6433	broad.mit.edu	37	chr12	132237801	132237801	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcgtgaccgtgtctaactcCcctggagtgacgaccaccgc	7	7	12	15	4	1	2	0	2	1	0	2	4	2	3	5	2	1	0	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:132237801C>T	uc001uja.1	+	8	1355	c.1215C>T	c.(1213-1215)TCC>TCT	p.S405S	SFRS8_uc010tbn.1_Silent_p.S405S|SFRS8_uc001ujb.1_Silent_p.S198S|SFRS8_uc001uiz.1_Silent_p.S279S	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	405					mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		TGTCTAACTCCCCTGGAGTGA	0.647													20	42					0	0	0.001882	0	0		T	132237801	T	T	132237801	2	4	4	1	0	0	0	0	0	0	0	1	14208	610	22	4		4	SFRS8	12	132237801	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1318478	132237801	1614094	2959	4925											
SFRS8	6433	broad.mit.edu	37	chr12	132239022	132239022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctgaagttcgagaccagtGttcgtgccaagaatgatcaa	12	9	11	9	2	1	4	1	2	0	2	3	5	1	4	3	0	1	2	3	0	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:132239022G>A	uc001uja.1	+	9	1572	c.1432G>A	c.(1432-1434)GTT>ATT	p.V478I	SFRS8_uc010tbn.1_Missense_Mutation_p.V478I|SFRS8_uc001ujb.1_Missense_Mutation_p.V271I|SFRS8_uc001uiz.1_Missense_Mutation_p.V352I	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	478	SURP motif 2.				mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		CGAGACCAGTGTTCGTGCCAA	0.502													4	60					0	0	0.000602	0	0		A	132239022	A	A	132239022	3	1	4	1	0	0	0	0	1	0	0	0	14208	1377	48	4	1466	4	SFRS8	12	132239022	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1221	132239022	1612873	2960	4926											
ULK1	8408	broad.mit.edu	37	chr12	132399917	132399917	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccaggctggagcgggacGccctccccacagggagctga	7	3	16	15	3	0	1	0	1	0	0	1	4	1	4	4	5	2	2	4	5	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:132399917G>A	uc001uje.2	+	18	1828	c.1560G>A	c.(1558-1560)ACG>ACA	p.T520T		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	520					autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		GGAGCGGGACGCCCTCCCCAC	0.672													4	16					0	0	0.009096	0	0		A	132399917	A	A	132399917	2	1	4	1	0	0	0	0	0	0	0	1	17001	1074	38	1		1	ULK1	12	132399917	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	160895	132399917	1451978	2961	4927											
EP400	57634	broad.mit.edu	37	chr12	132514593	132514593	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatctgaaggacgtcgggtgCtgattttatcacagatgatt	11	13	11	6	2	2	4	1	3	1	1	3	5	2	5	0	2	1	1	0	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:132514593C>A	uc001ujn.2	+	28	5679	c.5644C>A	c.(5644-5646)CTG>ATG	p.L1882M	EP400_uc001ujl.2_Missense_Mutation_p.L1881M|EP400_uc001ujm.2_Missense_Mutation_p.L1801M|SNORA49_uc001ujo.2_5'Flank	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1918	Helicase C-terminal.				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		ACGTCGGGTGCTGATTTTATC	0.418													8	128					5.18039e-06	5.47617e-06	0.00308	1	0		A	132514593	A	A	132514593	3	1	4	1	0	0	0	0	1	0	0	0	5157	796	28	5	5751	5	EP400	12	132514593	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	114676	132514593	1337302	2962	4928											
EP400	57634	broad.mit.edu	37	chr12	132529374	132529374	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccaccccgccgcaggaCgacagcgacatctacctcga	10	3	8	20	5	1	0	0	0	1	0	2	4	1	1	6	1	2	1	6	1	1	1	rs147763834	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:132529374C>T	uc001ujn.2	+	36	6695	c.6660C>T	c.(6658-6660)GAC>GAT	p.D2220D	EP400_uc001ujl.2_Silent_p.D2219D|EP400_uc001ujm.2_Silent_p.D2139D	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2256					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CGCCGCAGGACGACAGCGACA	0.592													9	31					0	0	0.001368	0	0		T	132529374	T	T	132529374	2	4	4	1	0	0	0	0	0	0	0	1	5157	535	19	1		1	EP400	12	132529374	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	14781	132529374	1322521	2963	4929											
POLE	5426	broad.mit.edu	37	chr12	133256788	133256788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtcgcaatgtagaaataCggtttatagggcaaagccac	13	9	11	8	2	0	1	0	0	0	1	1	1	0	1	1	3	2	4	1	3	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:133256788C>T	uc001uks.1	-	4	350	c.306G>A	c.(304-306)CCG>CCA	p.P102P	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Silent_p.P75P	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	102					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		TGTAGAAATACGGTTTATAGG	0.468								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					6	107					0	0	0.001168	0	0		T	133256788	T	T	133256788	2	4	4	1	0	0	0	0	0	0	0	1	12215	523	19	1		1	POLE	12	133256788	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	727414	133256788	595107	2964	4930											
ANKLE2	23141	broad.mit.edu	37	chr12	133303972	133303972	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccggactgtagctgtgaggGccactgagatctggcagctg	7	8	15	11	1	1	2	0	2	1	1	1	4	1	3	2	3	2	4	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:133303972G>A	uc001ukx.2	-	13	2740	c.2673C>T	c.(2671-2673)GGC>GGT	p.G891G	ANKLE2_uc009zyw.1_Silent_p.G246G	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	891						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		AGCTGTGAGGGCCACTGAGAT	0.627													4	5					0	0	0.001168	0	0		A	133303972	A	A	133303972	2	1	4	1	0	0	0	0	0	0	0	1	633	1190	42	2		2	ANKLE2	12	133303972	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	47184	133303972	547923	2965	4931											
GOLGA3	2802	broad.mit.edu	37	chr12	133381403	133381403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagtcgttgttggacgacGccaggctggcattttttgcc	6	12	13	10	3	0	0	0	0	0	0	1	2	0	1	2	3	1	5	2	3	1	5	rs138594544	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:133381403G>A	uc001ukz.1	-	7	2055	c.1496C>T	c.(1495-1497)GCG>GTG	p.A499V	GOLGA3_uc001ula.1_Missense_Mutation_p.A499V|GOLGA3_uc001ulb.2_Missense_Mutation_p.A499V	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	499	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GTTGGACGACGCCAGGCTGGC	0.582													25	50					0	0	0.008361	0	0		A	133381403	A	A	133381403	3	1	4	1	0	0	0	0	1	0	0	0	6569	1087	38	1	3210	1	GOLGA3	12	133381403	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	77431	133381403	470492	2966	4932											
GOLGA3	2802	broad.mit.edu	37	chr12	133385136	133385136	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggttgcaggttgactggaCtgagaagaaaacaaaagtac	15	9	12	5	0	0	3	0	2	0	2	0	5	0	4	0	3	3	4	0	3	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:133385136C>T	uc001ukz.1	-	5	1079	c.520_splice	c.e5-1	p.S174_splice	GOLGA3_uc001ula.1_Splice_Site_p.S174_splice|GOLGA3_uc001ulb.2_Splice_Site_p.S174_splice	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3						intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GTTGACTGGACTGAGAAGAAA	0.433													16	190					0	0	0.003163	0	0		T	133385136	T	T	133385136	5	4	4	1	0	0	0	0	0	0	1	0	6569	579	20	4	4195	4	GOLGA3	12	133385136	Splice_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3733	133385136	466759	2967	4933											
ZNF140	7699	broad.mit.edu	37	chr12	133683228	133683228	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccactcattccttactgaAcaccagtgaatttacactgc	12	12	4	13	0	1	2	1	2	0	0	2	2	2	2	3	0	5	0	3	0	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:133683228A>C	uc001ulo.2	+	5	2035	c.1365A>C	c.(1363-1365)GAA>GAC	p.E455D	ZNF140_uc001ulp.2_Missense_Mutation_p.E352D|ZNF140_uc010tbu.1_Missense_Mutation_p.E352D	NM_003440	NP_003431	P52738	ZN140_HUMAN	zinc finger protein 140	455						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;1.28e-06)|all_epithelial(31;0.0051)|Lung NSC(355;0.114)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		TCCTTACTGAACACCAGTGAA	0.353													15	61					0	0	0.003163	0	0		C	133683228	C	C	133683228	3	2	4	1	0	0	0	0	1	0	0	0	17754	40	2	5	1379	5	ZNF140	12	133683228	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	298092	133683228	168667	2968	4934											
TPTE2	93492	broad.mit.edu	37	chr13	20056655	20056655	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaacattttcagcatctTcaacttcaaacttggaaagt	15	12	5	9	0	4	0	3	0	1	0	4	1	4	1	0	1	5	2	0	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:20056655T>C	uc001umd.2	-	5	363	c.152A>G	c.(151-153)GAA>GGA	p.E51G	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Missense_Mutation_p.E51G|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	51						endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		TTCAGCATCTTCAACTTCAAA	0.348													4	45					0	0	0.000602	0	0		C	20056655	C	C	20056655	3	2	4	1	0	0	0	0	1	0	0	0	16457	1783	62	3	1484	3	TPTE2	13	20056655	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08		20056655	95113223	2969	4935											
TPTE2	93492	broad.mit.edu	37	chr13	20056687	20056687	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggaaagtcgttctaacatActttagccaccaaaaaaaaa	18	10	5	8	1	1	0	0	0	1	0	2	1	1	1	2	1	3	1	2	1	8	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:20056687A>T	uc001umd.2	-	5	331	c.120T>A	c.(118-120)AGT>AGA	p.S40R	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Missense_Mutation_p.S40R|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	40						endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		GTTCTAACATACTTTAGCCAC	0.313													5	43					0	0	0.008291	0	0		T	20056687	T	T	20056687	3	4	4	1	0	0	0	0	1	0	0	0	16457	405	14	5	1516	5	TPTE2	13	20056687	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	32	20056687	95113191	2970	4936											
PSPC1	55269	broad.mit.edu	37	chr13	20279899	20279899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggtgggccaggtatagttGctctgttgttcatattcata	7	17	11	6	0	3	0	2	0	1	0	3	0	3	0	1	3	1	5	1	3	4	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:20279899G>A	uc001uml.2	-	8	1475	c.1289C>T	c.(1288-1290)GCA>GTA	p.A430V	PSPC1_uc001umj.1_Intron|PSPC1_uc001umk.1_Intron	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	430	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		AGGTATAGTTGCTCTGTTGTT	0.488													10	56					0	0	0.003163	0	0		A	20279899	A	A	20279899	3	1	4	1	0	0	0	0	1	0	0	0	12738	1319	46	2	290	2	PSPC1	13	20279899	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	223212	20279899	94889979	2971	4937											
ZMYM2	7750	broad.mit.edu	37	chr13	20641083	20641083	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttcaaatatacgtatggCgtaaatgcatggaaacactg	14	11	8	8	2	1	0	1	0	0	0	1	1	1	1	1	2	3	3	1	2	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:20641083C>T	uc001umr.2	+	21	3523	c.3225C>T	c.(3223-3225)GGC>GGT	p.G1075G	ZMYM2_uc001ums.2_Silent_p.G1075G|ZMYM2_uc001umt.2_Silent_p.G1075G|ZMYM2_uc001umv.2_Silent_p.G455G|ZMYM2_uc001umw.2_Silent_p.G528G	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	1075					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		ATACGTATGGCGTAAATGCAT	0.368													7	72					0	0	0.00308	0	0		T	20641083	T	T	20641083	2	4	4	1	0	0	0	0	0	0	0	1	17725	755	27	1		1	ZMYM2	13	20641083	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	361184	20641083	94528795	2972	4938											
IFT88	8100	broad.mit.edu	37	chr13	21189979	21189979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacatctgcaaaactcattgCtcctgtaattgaaacatctt	13	13	5	10	0	3	1	1	1	2	0	4	2	4	1	1	0	4	3	1	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:21189979C>T	uc001unh.2	+	16	1583	c.1187C>T	c.(1186-1188)GCT>GTT	p.A396V	IFT88_uc001uni.2_Missense_Mutation_p.A387V|IFT88_uc001unj.2_Missense_Mutation_p.A386V|IFT88_uc010tcq.1_Missense_Mutation_p.A367V|IFT88_uc001unk.2_Missense_Mutation_p.A142V|IFT88_uc001unl.1_Missense_Mutation_p.A14V	NM_175605	NP_783195	Q13099	IFT88_HUMAN	intraflagellar transport 88 homolog isoform 1	396					cilium morphogenesis	centriole|intraflagellar transport particle B|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(29;5.79e-25)|all_epithelial(30;2.57e-20)|all_lung(29;3.13e-16)|Lung SC(185;0.0262)|Ovarian(182;0.0825)|Hepatocellular(188;0.244)		all cancers(112;0.000667)|Epithelial(112;0.00119)|OV - Ovarian serous cystadenocarcinoma(117;0.0141)|Lung(94;0.0183)|LUSC - Lung squamous cell carcinoma(192;0.0528)		AAACTCATTGCTCCTGTAATT	0.274													5	80					0	0	0.000602	0	0		T	21189979	T	T	21189979	3	4	4	1	0	0	0	0	1	0	0	0	7582	797	28	2	1241	2	IFT88	13	21189979	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	548896	21189979	93979899	2973	4939											
LATS2	26524	broad.mit.edu	37	chr13	21555688	21555688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctctggtgctgcttccgcGccctctgctctagggtcttc	2	13	10	16	2	4	0	0	0	4	0	6	0	5	0	3	2	3	3	3	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:21555688G>A	uc009zzs.2	-	6	2947	c.2582C>T	c.(2581-2583)GCG>GTG	p.A861V	LATS2_uc001unr.3_Missense_Mutation_p.A861V	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	861	Protein kinase.				cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		CTGCTTCCGCGCCCTCTGCTC	0.612													7	35					0	0	0.001984	0	0		A	21555688	A	A	21555688	3	1	4	1	0	0	0	0	1	0	0	0	8663	1087	38	1	696	1	LATS2	13	21555688	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	365709	21555688	93614190	2974	4940											
FGF9	2254	broad.mit.edu	37	chr13	22246290	22246290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttagaaatcttccccaatgGtactatccagggaaccagga	13	9	8	11	0	1	1	0	0	1	1	3	3	3	3	4	3	2	1	4	3	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:22246290G>A	uc001uog.2	+	1	1076	c.239G>A	c.(238-240)GGT>GAT	p.G80D		NM_002010	NP_002001	P31371	FGF9_HUMAN	fibroblast growth factor 9 precursor	80					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|male gonad development|positive regulation of cell division	extracellular space	growth factor activity|heparin binding				0		all_cancers(29;1.23e-20)|all_epithelial(30;9.83e-19)|all_lung(29;9.64e-17)|Lung SC(185;0.0262)|Breast(139;0.106)		all cancers(112;3.92e-05)|Epithelial(112;0.000166)|OV - Ovarian serous cystadenocarcinoma(117;0.00314)|Lung(94;0.163)		TTCCCCAATGGTACTATCCAG	0.463													17	42					0	0	0.008871	0	0		A	22246290	A	A	22246290	3	1	4	1	0	0	0	0	1	0	0	0	5873	1261	44	4	241	4	FGF9	13	22246290	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	690602	22246290	92923588	2975	4941											
SACS	26278	broad.mit.edu	37	chr13	23906034	23906034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccttgaagagaacacaacGctccaaactgacaaactttg	15	9	6	11	1	0	3	0	2	0	1	2	4	2	3	2	0	4	1	2	0	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:23906034G>A	uc001uon.2	-	10	12570	c.11981C>T	c.(11980-11982)GCG>GTG	p.A3994V	SACS_uc001uoo.2_Missense_Mutation_p.A3847V|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3994					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AGAACACAACGCTCCAAACTG	0.353													9	98					0	0	0.006214	0	0		A	23906034	A	A	23906034	3	1	4	1	0	0	0	0	1	0	0	0	13829	1087	38	1	1762	1	SACS	13	23906034	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1659744	23906034	91263844	2976	4942											
SACS	26278	broad.mit.edu	37	chr13	23908271	23908271	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acagattcactaataaaatgCcatgcattcttaagccaaga	17	10	5	9	0	2	2	1	0	1	2	2	2	2	2	2	0	3	1	2	0	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:23908271C>T	uc001uon.2	-	10	10333	c.9744G>A	c.(9742-9744)TGG>TGA	p.W3248*	SACS_uc001uoo.2_Nonsense_Mutation_p.W3101*|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3248			W -> R (in SACS).		cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TAATAAAATGCCATGCATTCT	0.368													11	67					0	0	0.003163	0	0		T	23908271	T	T	23908271	4	4	4	1	0	0	0	0	0	1	0	0	13829	740	26	2	3999	2	SACS	13	23908271	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2237	23908271	91261607	2977	4943											
SACS	26278	broad.mit.edu	37	chr13	23909914	23909914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	catttctgcattacgaagagGaaatctgaacattgtgcaat	14	12	8	7	1	2	2	0	1	2	1	2	4	2	3	0	1	4	2	0	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:23909914G>A	uc001uon.2	-	10	8690	c.8101C>T	c.(8101-8103)CCT>TCT	p.P2701S	SACS_uc001uoo.2_Missense_Mutation_p.P2554S|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2701					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TTACGAAGAGGAAATCTGAAC	0.403													20	63					0	0	0.008871	0	0		A	23909914	A	A	23909914	3	1	4	1	0	0	0	0	1	0	0	0	13829	1174	41	4	5642	4	SACS	13	23909914	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1643	23909914	91259964	2978	4944											
SACS	26278	broad.mit.edu	37	chr13	23942607	23942607	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaatcaacaagtggtggCgttgtctgaccaaatcgacc	14	8	10	9	2	2	2	1	1	1	1	3	3	2	2	2	2	1	1	2	2	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:23942607C>T	uc001uon.2	-	5	868	c.279G>A	c.(277-279)ACG>ACA	p.T93T	SACS_uc001uoo.2_5'UTR|SACS_uc001uoq.1_5'UTR	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	93					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CAAGTGGTGGCGTTGTCTGAC	0.393													12	22					0	0	0.001855	0	0		T	23942607	T	T	23942607	2	4	4	1	0	0	0	0	0	0	0	1	13829	755	27	1		1	SACS	13	23942607	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	32693	23942607	91227271	2979	4945											
TNFRSF19	55504	broad.mit.edu	37	chr13	24190110	24190110	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaagccctgtctggactgCgcagtggtgaaccgctttca	7	10	12	12	2	2	1	1	1	1	0	2	2	2	2	2	2	4	3	2	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:24190110C>T	uc001uov.1	+	4	349	c.285C>T	c.(283-285)TGC>TGT	p.C95C	TNFRSF19_uc001uot.2_Silent_p.C95C|TNFRSF19_uc010tcu.1_5'UTR|TNFRSF19_uc001uow.2_Silent_p.C95C	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	95	TNFR-Cys 2.|Extracellular (Potential).				apoptosis|induction of apoptosis|JNK cascade	integral to membrane|mitochondrion	tumor necrosis factor receptor activity			kidney(1)|skin(1)	2		all_cancers(29;3.4e-22)|all_epithelial(30;8.75e-19)|all_lung(29;5.09e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00193)|Epithelial(112;0.0137)|OV - Ovarian serous cystadenocarcinoma(117;0.0465)|GBM - Glioblastoma multiforme(144;0.184)|Lung(94;0.19)		GTCTGGACTGCGCAGTGGTGA	0.572													17	48					0	0	0.00499	0	0		T	24190110	T	T	24190110	2	4	4	1	0	0	0	0	0	0	0	1	16317	776	27	1		1	TNFRSF19	13	24190110	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	247503	24190110	90979768	2980	4946											
SPATA13	221178	broad.mit.edu	37	chr13	24860366	24860366	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagctgatcagtgatggCaacgtggtctgcgcagaagc	9	10	13	9	2	3	3	2	2	1	1	3	3	3	3	0	2	4	3	0	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:24860366C>T	uc001upg.1	+	5	848	c.441C>T	c.(439-441)GGC>GGT	p.G147G	SPATA13_uc001upd.1_Silent_p.G772G|C1QTNF9_uc001upe.2_RNA|SPATA13_uc010tcy.1_Silent_p.G93G|SPATA13_uc010tcz.1_Silent_p.G93G|SPATA13_uc010tda.1_Silent_p.G91G|SPATA13_uc001uph.2_Silent_p.G69G|SPATA13_uc010tdb.1_Silent_p.G69G|SPATA13_uc009zzz.1_5'Flank	NM_153023	NP_694568	Q96N96	SPT13_HUMAN	spermatogenesis associated 13	147	SH3.|ABR (APC-binding region) domain.				cell migration|filopodium assembly|lamellipodium assembly|regulation of cell migration|regulation of Rho protein signal transduction	cytoplasm|filopodium|lamellipodium|ruffle membrane	protein binding|Rac guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		all_cancers(29;4.05e-15)|all_lung(29;2.77e-14)|all_epithelial(30;7.77e-13)|Lung SC(185;0.0279)		all cancers(112;0.00616)|Epithelial(112;0.0195)|OV - Ovarian serous cystadenocarcinoma(117;0.0705)|Lung(94;0.231)		TCAGTGATGGCAACGTGGTCT	0.592													16	117					0	0	0.006122	0	0		T	24860366	T	T	24860366	2	4	4	1	0	0	0	0	0	0	0	1	15025	697	25	2		2	SPATA13	13	24860366	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	670256	24860366	90309512	2981	4947											
PARP4	143	broad.mit.edu	37	chr13	25008533	25008533	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagaaataagacacatacCtctgtctgtagactgaggag	15	8	11	7	0	2	4	0	1	2	3	2	6	2	5	1	2	1	1	1	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:25008533C>A	uc001upl.2	-	31	4852	c.4746G>T	c.(4744-4746)GAG>GAT	p.E1582D		NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	1582	Interaction with the major vault protein.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		AGACACATACCTCTGTCTGTA	0.423													7	68					3.09899e-07	3.29863e-07	0.004482	1	0		A	25008533	A	A	25008533	3	1	4	1	0	0	0	0	1	0	0	0	11482	695	24	5	444	5	PARP4	13	25008533	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	148167	25008533	90161345	2982	4948											
PARP4	143	broad.mit.edu	37	chr13	25075838	25075838	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttataaggatcataattcttTacatccaagagtctcttttc	12	17	4	8	0	3	1	1	0	2	1	6	2	4	2	1	1	1	0	1	1	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:25075838T>C	uc001upl.2	-	3	373	c.267A>G	c.(265-267)GTA>GTG	p.V89V	PARP4_uc010tdc.1_Silent_p.V89V	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	89	BRCT.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		CATAATTCTTTACATCCAAGA	0.398													5	113					0	0	0.001168	0	0		C	25075838	C	C	25075838	2	2	4	1	0	0	0	0	0	0	0	1	11482	1741	61	3		3	PARP4	13	25075838	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	67305	25075838	90094040	2983	4949											
CENPJ	55835	broad.mit.edu	37	chr13	25480954	25480954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttaaacagcggctggtcctCggaagtgctctggttagtca	8	12	12	9	2	2	0	1	0	1	0	4	1	3	1	1	4	3	3	1	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:25480954C>T	uc001upt.3	-	7	1475	c.1222G>A	c.(1222-1224)GAG>AAG	p.E408K	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA|CENPJ_uc001upu.2_5'Flank	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	408					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		GGCTGGTCCTCGGAAGTGCTC	0.393													12	37					0	0	0.00245	0	0		T	25480954	T	T	25480954	3	4	4	1	0	0	0	0	1	0	0	0	3237	893	31	1	2838	1	CENPJ	13	25480954	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	405116	25480954	89688924	2984	4950											
PABPC3	5042	broad.mit.edu	37	chr13	25670410	25670410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccccgacgtgactgaggCgatgctctacgagaagttca	10	7	11	13	4	2	3	1	2	1	1	2	6	2	3	3	1	2	2	3	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:25670410C>T	uc001upy.2	+	1	135	c.74C>T	c.(73-75)GCG>GTG	p.A25V		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	25	RRM 1.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		GTGACTGAGGCGATGCTCTAC	0.642													12	36					0	0	0.001855	0	0		T	25670410	T	T	25670410	3	4	4	1	0	0	0	0	1	0	0	0	11384	768	27	1	76	1	PABPC3	13	25670410	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	189456	25670410	89499468	2985	4951											
PABPC3	5042	broad.mit.edu	37	chr13	25671495	25671495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acgagtatatgcagagaatgGcaagtgtacgagctgtgccc	12	8	13	8	2	0	1	0	0	0	1	0	4	0	1	1	1	4	5	1	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:25671495G>A	uc001upy.2	+	1	1220	c.1159G>A	c.(1159-1161)GCA>ACA	p.A387T		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	387					mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		GCAGAGAATGGCAAGTGTACG	0.502													22	96					0	0	0.001882	0	0		A	25671495	A	A	25671495	3	1	4	1	0	0	0	0	1	0	0	0	11384	1203	42	2	1161	2	PABPC3	13	25671495	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1085	25671495	89498383	2986	4952											
ATP8A2	51761	broad.mit.edu	37	chr13	26144987	26144987	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaggatggagataacaTcatctaccaggcctcttccc	12	9	9	11	0	3	2	1	1	2	2	4	5	4	3	3	3	2	0	3	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:26144987T>A	uc001uqk.2	+	17	1698	c.1556T>A	c.(1555-1557)ATC>AAC	p.I519N	ATP8A2_uc010tdi.1_Missense_Mutation_p.I479N|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.I29N|ATP8A2_uc001uql.1_Missense_Mutation_p.I479N	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	479	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		GGAGATAACATCATCTACCAG	0.592													4	36					0	0	0.009096	0	0		A	26144987	A	A	26144987	3	1	4	1	0	0	0	0	1	0	0	0	1194	1435	50	5	1622	5	ATP8A2	13	26144987	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	473492	26144987	89024891	2987	4953											
RNF6	6049	broad.mit.edu	37	chr13	26792703	26792703	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctagttgttccttgacGccatctaaccgctgttgcag	7	13	10	11	2	1	1	0	1	1	0	2	2	2	1	3	0	3	6	3	0	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:26792703G>A	uc001uqo.2	-	4	525	c.234C>T	c.(232-234)GGC>GGT	p.G78G	RNF6_uc001uqn.1_Silent_p.G78G|RNF6_uc010aak.2_Silent_p.G78G|RNF6_uc001uqp.2_Silent_p.G78G|RNF6_uc001uqq.2_Silent_p.G78G|RNF6_uc010tdk.1_5'UTR	NM_183044	NP_898865	Q9Y252	RNF6_HUMAN	ring finger protein 6	78					negative regulation of axon extension|positive regulation of transcription, DNA-dependent|protein K27-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|regulation of androgen receptor signaling pathway|ubiquitin-dependent protein catabolic process	axon|cytoplasm|PML body	androgen receptor binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.00893)|Epithelial(112;0.0481)|OV - Ovarian serous cystadenocarcinoma(117;0.148)|GBM - Glioblastoma multiforme(144;0.23)|Lung(94;0.245)		GTTCCTTGACGCCATCTAACC	0.403													8	137					0	0	0.008291	0	0		A	26792703	A	A	26792703	2	1	4	1	0	0	0	0	0	0	0	1	13523	1074	38	1		1	RNF6	13	26792703	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	647716	26792703	88377175	2988	4954											
GPR12	2835	broad.mit.edu	37	chr13	27333601	27333601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagaggcagagaaagaggCgacaatgaggccgatcgtga	15	3	16	7	3	0	5	0	2	0	3	1	9	0	5	1	3	0	1	1	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:27333601C>T	uc010aal.2	-	2	586	c.364G>A	c.(364-366)GCC>ACC	p.A122T	GPR12_uc010tdl.1_Intron	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	122	Helical; Name=3; (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		GAGAAAGAGGCGACAATGAGG	0.542													5	69					0	0	0.001168	0	0		T	27333601	T	T	27333601	3	4	4	1	0	0	0	0	1	0	0	0	6650	768	27	1	644	1	GPR12	13	27333601	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	540898	27333601	87836277	2989	4955											
FLT3	2322	broad.mit.edu	37	chr13	28592704	28592704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggtgacaagcacgttcctgGcggccaggtctctgtgaaca	8	8	14	11	2	1	2	0	2	1	0	3	2	2	2	2	4	2	2	2	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:28592704G>A	uc001urw.2	-	20	2523	c.2441C>T	c.(2440-2442)GCC>GTC	p.A814V	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Intron	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	814	Protein kinase.|Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	CACGTTCCTGGCGGCCAGGTC	0.453			Mis|O		AML|ALL								4	48					0	0	0.009096	0	0		A	28592704	A	A	28592704	3	1	4	1	0	0	0	0	1	0	0	0	5956	1203	42	2	560	2	FLT3	13	28592704	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1259103	28592704	86577174	2990	4956											
FLT1	2321	broad.mit.edu	37	chr13	29002038	29002038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcgagcagatttctcagtcGcaggtaacccatcttttaac	11	11	8	11	2	2	1	1	0	2	1	4	2	2	1	1	1	4	3	1	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:29002038G>A	uc001usb.3	-	9	1412	c.1127C>T	c.(1126-1128)GCG>GTG	p.A376V	FLT1_uc010aar.1_Missense_Mutation_p.A376V|FLT1_uc001usc.3_Missense_Mutation_p.A376V|FLT1_uc010tdp.1_Missense_Mutation_p.A376V	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	376	Ig-like C2-type 4.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	TTTCTCAGTCGCAGGTAACCC	0.398													5	71					0	0	0.000602	0	0		A	29002038	A	A	29002038	3	1	4	1	0	0	0	0	1	0	0	0	5955	1087	38	1	3240	1	FLT1	13	29002038	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	409334	29002038	86167840	2991	4957											
RXFP2	122042	broad.mit.edu	37	chr13	32355867	32355867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacgtttctgtcgtgcgattCgctcacagtgctgtaagtat	7	15	10	9	4	2	0	1	0	1	0	4	1	2	0	0	0	3	5	0	0	3	5	rs144275111		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32355867C>T	uc001utt.2	+	10	916	c.845C>T	c.(844-846)TCG>TTG	p.S282L	RXFP2_uc010aba.2_Missense_Mutation_p.S265L	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	282	LRR 7.|Extracellular (Potential).					integral to membrane|plasma membrane					0		Lung SC(185;0.0262)		all cancers(112;0.000559)|Epithelial(112;0.0017)|OV - Ovarian serous cystadenocarcinoma(117;0.0145)|BRCA - Breast invasive adenocarcinoma(63;0.0535)		TCGTGCGATTCGCTCACAGTG	0.323													12	39					0	0	0.004007	0	0		T	32355867	T	T	32355867	3	4	4	1	0	0	0	0	1	0	0	0	13785	893	31	1	883	1	RXFP2	13	32355867	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3353829	32355867	82814011	2992	4958											
FRY	10129	broad.mit.edu	37	chr13	32747622	32747622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtttccaggtggccacacGcaaactgtccgttttaatac	10	11	8	12	2	0	0	0	0	0	0	2	0	2	0	3	2	2	3	3	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32747622G>A	uc001utx.2	+	19	2766	c.2270G>A	c.(2269-2271)CGC>CAC	p.R757H	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	757					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		GTGGCCACACGCAAACTGTCC	0.468													31	72					0	0	0.002445	0	0		A	32747622	A	A	32747622	3	1	4	1	0	0	0	0	1	0	0	0	6077	1087	38	1	2344	1	FRY	13	32747622	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	391755	32747622	82422256	2993	4959											
FRY	10129	broad.mit.edu	37	chr13	32821627	32821627	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaaccctggacttccacttCgatatttcggaggtacttag	11	12	8	10	2	0	0	0	0	0	0	3	3	1	2	2	3	2	1	2	3	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32821627C>T	uc001utx.2	+	48	7492	c.6996C>T	c.(6994-6996)TTC>TTT	p.F2332F	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2332					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		ACTTCCACTTCGATATTTCGG	0.393													8	73					0	0	0.00308	0	0		T	32821627	T	T	32821627	2	4	4	1	0	0	0	0	0	0	0	1	6077	883	31	1		1	FRY	13	32821627	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	74005	32821627	82348251	2994	4960											
BRCA2	675	broad.mit.edu	37	chr13	32906931	32906931	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacaaaagaaagaaagattTtcttacttcagagaattctt	18	12	6	5	0	3	4	1	0	2	4	3	6	3	4	0	0	2	0	0	0	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32906931T>G	uc001uub.1	+	10	1543	c.1316T>G	c.(1315-1317)TTT>TGT	p.F439C	BRCA2_uc001uua.1_Missense_Mutation_p.F316C	NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	439					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AAGAAAGATTTTCTTACTTCA	0.358			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			6	161					0	0	0.001168	0	0		G	32906931	G	G	32906931	3	3	4	1	0	0	0	0	1	0	0	0	1502	1841	64	5	1350	5	BRCA2	13	32906931	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	85304	32906931	82262947	2995	4961											
BRCA2	675	broad.mit.edu	37	chr13	32912807	32912807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggaaaaatattagtgtcGccaaagagtcatttaataaa	17	11	9	4	1	1	1	1	0	0	1	2	2	1	2	1	1	0	0	1	1	8	5	rs80358666		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32912807G>A	uc001uub.1	+	11	4542	c.4315G>A	c.(4315-4317)GCC>ACC	p.A1439T		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1439	BRCA2 3.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TATTAGTGTCGCCAAAGAGTC	0.289			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			24	76					0	0	0.004656	0	0		A	32912807	A	A	32912807	3	1	4	1	0	0	0	0	1	0	0	0	1502	1087	38	1	4353	1	BRCA2	13	32912807	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5876	32912807	82257071	2996	4962											
BRCA2	675	broad.mit.edu	37	chr13	32930634	32930634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagaagaaacaaaggcaacGcgtctttccacagccaggca	16	5	9	11	2	1	2	0	0	1	2	2	2	2	2	2	2	3	2	2	2	5	2	rs56070345		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32930634G>A	uc001uub.1	+	15	7732	c.7505G>A	c.(7504-7506)CGC>CAC	p.R2502H		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2502	Interaction with FANCD2.		R -> H (in ovarian cancer; could be a polymorphism).|R -> C (in BC; unknown pathological significance).		cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		CAAAGGCAACGCGTCTTTCCA	0.408			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			7	160					0	0	0.004482	0	0		A	32930634	A	A	32930634	3	1	4	1	0	0	0	0	1	0	0	0	1502	1087	38	1	7559	1	BRCA2	13	32930634	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	17827	32930634	82239244	2997	4963											
BRCA2	675	broad.mit.edu	37	chr13	32944628	32944628	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcctctgcccttatcatcGcttttcagtgatggaggaaa	8	15	8	10	1	3	1	2	1	1	0	5	3	4	3	2	2	1	1	2	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32944628G>A	uc001uub.1	+	19	8648	c.8421G>A	c.(8419-8421)TCG>TCA	p.S2807S		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2807					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		CCTTATCATCGCTTTTCAGTG	0.398			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			20	46					0	0	0.003954	0	0		A	32944628	A	A	32944628	2	1	4	1	0	0	0	0	0	0	0	1	1502	1074	38	1		1	BRCA2	13	32944628	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	13994	32944628	82225250	2998	4964											
BRCA2	675	broad.mit.edu	37	chr13	32953551	32953551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagttggaaattaggaaggCcatggaatctgctgaacaaa	15	8	11	7	0	1	1	0	1	1	0	1	4	1	4	2	4	2	2	2	4	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32953551C>T	uc001uub.1	+	22	9079	c.8852C>T	c.(8851-8853)GCC>GTC	p.A2951V		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2951			A -> T.		cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		ATTAGGAAGGCCATGGAATCT	0.383			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			32	72					0	0	0.002836	0	0		T	32953551	T	T	32953551	3	4	4	1	0	0	0	0	1	0	0	0	1502	739	26	2	8934	2	BRCA2	13	32953551	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	8923	32953551	82216327	2999	4965											
PDS5B	23047	broad.mit.edu	37	chr13	33344393	33344393	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcgaagtcggaaaagaggCcatacggcttcagaatctga	14	6	12	9	3	2	3	1	1	1	2	3	5	2	4	1	3	2	1	1	3	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:33344393C>T	uc010abf.2	+	32	3917	c.3759C>T	c.(3757-3759)GGC>GGT	p.G1253G	PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1253	A.T hook 1.				cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		GGAAAAGAGGCCATACGGCTT	0.443													26	88					0	0	0.002445	0	0		T	33344393	T	T	33344393	2	4	4	1	0	0	0	0	0	0	0	1	11711	726	26	2		2	PDS5B	13	33344393	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	390842	33344393	81825485	3000	4966											
STARD13	90627	broad.mit.edu	37	chr13	33686932	33686932	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacactgccaggttcatgggCgtcatctgattctcttccac	7	12	8	14	1	4	1	2	1	2	0	6	1	5	1	2	2	1	1	2	2	0	3	rs145394840		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:33686932C>T	uc001uuw.2	-	9	2544	c.2418G>A	c.(2416-2418)ACG>ACA	p.T806T	STARD13_uc001uuu.2_Silent_p.T798T|STARD13_uc001uuv.2_Silent_p.T688T|STARD13_uc001uux.2_Silent_p.T771T|STARD13_uc010tec.1_RNA	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	806	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		GGTTCATGGGCGTCATCTGAT	0.498													19	64					0	0	0.007413	0	0		T	33686932	T	T	33686932	2	4	4	1	0	0	0	0	0	0	0	1	15281	755	27	1		1	STARD13	13	33686932	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	342539	33686932	81482946	3001	4967											
SOHLH2	54937	broad.mit.edu	37	chr13	36767810	36767810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacattactcattttttcCattgtcagtggttcagttaa	10	17	5	9	0	3	0	3	0	0	0	4	0	4	0	2	1	1	2	2	1	2	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:36767810C>T	uc001uvj.2	-	4	467	c.378G>A	c.(376-378)ATG>ATA	p.M126I	SOHLH2_uc010tei.1_Missense_Mutation_p.M203I	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	126					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;4.63e-08)|Epithelial(112;2.67e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|BRCA - Breast invasive adenocarcinoma(63;0.00685)|GBM - Glioblastoma multiforme(144;0.0273)		TCATTTTTTCCATTGTCAGTG	0.303													22	59					0	0	0.003954	0	0		T	36767810	T	T	36767810	3	4	4	1	0	0	0	0	1	0	0	0	14949	594	21	4	931	4	SOHLH2	13	36767810	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3080878	36767810	78402068	3002	4968											
SPG20	23111	broad.mit.edu	37	chr13	36878523	36878523	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catttatctttcttctttgcCtcctttacttccttcgtctg	3	22	3	13	1	4	0	0	0	4	0	7	0	6	0	3	0	2	0	3	0	2	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:36878523C>T	uc001uvn.2	-	10	2250	c.1980G>A	c.(1978-1980)GAG>GAA	p.E660E	SPG20_uc010ten.1_Silent_p.E650E|SPG20_uc001uvm.2_Silent_p.E660E|SPG20_uc001uvo.2_Silent_p.E660E|SPG20_uc001uvq.2_Silent_p.E660E	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	660					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		TCTTCTTTGCCTCCTTTACTT	0.388													42	118					0	0	0.002522	0	0		T	36878523	T	T	36878523	2	4	4	1	0	0	0	0	0	0	0	1	15067	680	24	4		4	SPG20	13	36878523	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	110713	36878523	78291355	3003	4969											
CCNA1	8900	broad.mit.edu	37	chr13	37014191	37014191	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatacatacacaaaacgacaActgttaaaaatggaacactt	20	8	5	8	1	0	0	0	0	0	0	0	3	0	1	0	1	5	1	0	1	9	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:37014191A>G	uc001uvr.3	+	6	1319	c.969A>G	c.(967-969)CAA>CAG	p.Q323Q	CCNA1_uc010teo.1_Silent_p.Q279Q|CCNA1_uc010abq.2_Silent_p.Q279Q|CCNA1_uc010abp.2_Silent_p.Q279Q|CCNA1_uc001uvs.3_Silent_p.Q322Q|CCNA1_uc010abr.2_RNA	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	323					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		CAAAACGACAACTGTTAAAAA	0.403													18	65					0	0	0.006122	0	0		G	37014191	G	G	37014191	2	3	4	1	0	0	0	0	0	0	0	1	2912	40	2	3		3	CCNA1	13	37014191	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	135668	37014191	78155687	3004	4970											
FREM2	341640	broad.mit.edu	37	chr13	39262274	39262274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttccaggaactaggcgtgCgctatcgccacacagccgcc	8	7	10	16	4	0	0	0	0	0	0	2	1	1	1	4	2	3	1	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:39262274C>T	uc001uwv.2	+	1	1102	c.793C>T	c.(793-795)CGC>TGC	p.R265C		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	265	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		ACTAGGCGTGCGCTATCGCCA	0.627													5	36					0	0	0.001168	0	0		T	39262274	T	T	39262274	3	4	4	1	0	0	0	0	1	0	0	0	6059	768	27	1	795	1	FREM2	13	39262274	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2248083	39262274	75907604	3005	4971											
LHFP	10186	broad.mit.edu	37	chr13	40175124	40175124	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccattctgcgctggggAtgccctggaaggaggcatag	7	9	14	11	1	1	0	0	0	1	0	3	3	3	3	3	5	2	2	3	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:40175124A>G	uc001uxf.2	-	2	741	c.230T>C	c.(229-231)ATC>ACC	p.I77T		NM_005780	NP_005771	Q9Y693	LHFP_HUMAN	lipoma HMGIC fusion partner precursor	77						integral to membrane	DNA binding		HMGA2/LHFP(2)	soft_tissue(2)|lung(1)|breast(1)	4		Lung NSC(96;3.55e-06)|Breast(139;0.00408)|Ovarian(182;0.0107)|Prostate(109;0.0118)|Lung SC(185;0.0719)|Hepatocellular(188;0.114)		OV - Ovarian serous cystadenocarcinoma(117;6.48e-46)|Epithelial(112;8.43e-42)|all cancers(112;1.42e-36)|GBM - Glioblastoma multiforme(144;0.00187)|BRCA - Breast invasive adenocarcinoma(63;0.00886)|KIRC - Kidney renal clear cell carcinoma(186;0.048)|Kidney(163;0.0601)|LUSC - Lung squamous cell carcinoma(192;0.105)		TGCGCTGGGGATGCCCTGGAA	0.592			T	HMGA2	lipoma								6	148					0	0	0.001168	0	0		G	40175124	G	G	40175124	3	3	4	1	0	0	0	0	1	0	0	0	8779	333	12	3	384	3	LHFP	13	40175124	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	912850	40175124	74994754	3006	4972											
FOXO1	2308	broad.mit.edu	37	chr13	41134254	41134254	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactccttcaagagtccaggCgcacagttatactgactcat	12	10	7	12	1	2	2	2	1	0	1	4	2	4	2	2	1	2	2	2	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:41134254C>T	uc001uxl.3	-	2	1759	c.1374G>A	c.(1372-1374)GCG>GCA	p.A458A	FOXO1_uc010acc.1_Silent_p.A273A	NM_002015	NP_002006	Q12778	FOXO1_HUMAN	forkhead box O1	458					anti-apoptosis|blood vessel development|embryo development|endocrine pancreas development|insulin receptor signaling pathway|negative regulation of stress-activated MAPK cascade|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|response to DNA damage stimulus|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding		PAX3/FOXO1(749)|PAX7/FOXO1(197)	soft_tissue(946)|lung(1)|central_nervous_system(1)	948		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)		AGAGTCCAGGCGCACAGTTAT	0.502													10	40					0	0	0.006214	0	0		T	41134254	T	T	41134254	2	4	4	1	0	0	0	0	0	0	0	1	6037	755	27	1		1	FOXO1	13	41134254	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	959130	41134254	74035624	3007	4973											
KBTBD6	89890	broad.mit.edu	37	chr13	41705170	41705170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggatcataacagaacatgCgcttactgttgagagcatag	14	10	10	7	1	1	2	1	1	0	2	1	4	1	3	0	1	5	3	0	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:41705170C>T	uc001uxu.1	-	1	1767	c.1478G>A	c.(1477-1479)CGC>CAC	p.R493H	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.R427H|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	493	Kelch 3.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		ACAGAACATGCGCTTACTGTT	0.448													6	60					0	0	0.001168	0	0		T	41705170	T	T	41705170	3	4	4	1	0	0	0	0	1	0	0	0	8013	768	27	1	550	1	KBTBD6	13	41705170	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	570916	41705170	73464708	3008	4974											
KBTBD6	89890	broad.mit.edu	37	chr13	41705357	41705357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatatagccattgagatatgCcacatccatgccctcacgac	12	9	7	13	1	1	1	1	1	0	1	2	4	2	1	4	0	3	0	4	0	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:41705357C>T	uc001uxu.1	-	1	1580	c.1291G>A	c.(1291-1293)GCA>ACA	p.A431T	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.A365T|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	431	Kelch 1.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		TTGAGATATGCCACATCCATG	0.483													27	91					0	0	0.002096	0	0		T	41705357	T	T	41705357	3	4	4	1	0	0	0	0	1	0	0	0	8013	739	26	2	737	2	KBTBD6	13	41705357	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	187	41705357	73464521	3009	4975											
MTRF1	9617	broad.mit.edu	37	chr13	41834827	41834827	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catatatttctgtagtgcttTatgcttccagagcatcttgg	8	17	8	8	0	2	1	0	0	2	1	3	1	3	1	1	1	3	4	1	1	4	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:41834827T>C	uc001uxx.2	-	4	687	c.217A>G	c.(217-219)AAA>GAA	p.K73E	MTRF1_uc001uxy.2_Missense_Mutation_p.K73E|MTRF1_uc001uxz.2_Translation_Start_Site|MTRF1_uc010tff.1_Missense_Mutation_p.K86E|MTRF1_uc001uyc.1_Missense_Mutation_p.K73E	NM_004294	NP_004285	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	73					regulation of translational termination	mitochondrion	translation release factor activity, codon specific				0		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)		TGTAGTGCTTTATGCTTCCAG	0.408													14	164					0	0	0.001855	0	0		C	41834827	C	C	41834827	3	2	4	1	0	0	0	0	1	0	0	0	9977	1763	61	3	1156	3	MTRF1	13	41834827	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	129470	41834827	73335051	3010	4976											
KIAA0564	23078	broad.mit.edu	37	chr13	42465597	42465597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcagacatcaggaagcGtccatcttcaagctgcatct	11	9	8	13	1	5	1	3	0	2	1	6	2	6	2	1	1	4	3	1	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:42465597G>A	uc001uyj.2	-	5	680	c.610C>T	c.(610-612)CGC>TGC	p.R204C	KIAA0564_uc001uyk.2_Missense_Mutation_p.R204C	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	204						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		ATCAGGAAGCGTCCATCTTCA	0.438													43	95					0	0	0.00361	0	0		A	42465597	A	A	42465597	3	1	4	1	0	0	0	0	1	0	0	0	8201	1145	40	1	5275	1	KIAA0564	13	42465597	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	630770	42465597	72704281	3011	4977											
DGKH	160851	broad.mit.edu	37	chr13	42793448	42793448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaaactgacagagattcCttggctttattatatcttac	13	14	6	8	0	1	3	0	1	1	2	2	4	2	3	1	1	2	1	1	1	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:42793448C>T	uc001uyl.1	+	27	3317	c.3296C>T	c.(3295-3297)CCT>CTT	p.P1099L	DGKH_uc010tfh.1_Missense_Mutation_p.P1099L|DGKH_uc001uym.1_Missense_Mutation_p.P1099L|DGKH_uc010tfi.1_Missense_Mutation_p.P854L|DGKH_uc010tfj.1_Missense_Mutation_p.P954L|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Missense_Mutation_p.P954L|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	1099					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		ACAGAGATTCCTTGGCTTTAT	0.393													14	156					0	0	0.003163	0	0		T	42793448	T	T	42793448	3	4	4	1	0	0	0	0	1	0	0	0	4476	681	24	4	3402	4	DGKH	13	42793448	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	327851	42793448	72376430	3012	4978											
AKAP11	11215	broad.mit.edu	37	chr13	42875031	42875031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacctttacaacaaaggcaGcagttagtgtctctacggat	12	11	9	9	1	1	1	0	1	1	0	2	2	1	2	1	2	4	3	1	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:42875031G>A	uc001uys.1	+	8	2324	c.2149G>A	c.(2149-2151)GCA>ACA	p.A717T		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	717					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		AACAAAGGCAGCAGTTAGTGT	0.403													42	79					0	0	0.002522	0	0		A	42875031	A	A	42875031	3	1	4	1	0	0	0	0	1	0	0	0	447	971	34	2	2171	2	AKAP11	13	42875031	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	81583	42875031	72294847	3013	4979											
AKAP11	11215	broad.mit.edu	37	chr13	42876608	42876608	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtcaaagaagtgtgtcGcctacttttttaaacccctc	12	12	6	11	1	1	1	1	0	0	1	3	1	1	1	3	0	2	0	3	0	6	4	rs149090364	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:42876608G>A	uc001uys.1	+	8	3901	c.3726G>A	c.(3724-3726)TCG>TCA	p.S1242S		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	1242					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		GAAGTGTGTCGCCTACTTTTT	0.373													26	76					0	0	0.005443	0	0		A	42876608	A	A	42876608	2	1	4	1	0	0	0	0	0	0	0	1	447	1074	38	1		1	AKAP11	13	42876608	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1577	42876608	72293270	3014	4980											
SLC25A30	253512	broad.mit.edu	37	chr13	45983111	45983111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgcctatcctcactaatgCgtgcaacattcctcggtatc	8	13	6	14	2	2	0	1	0	1	0	6	0	4	0	3	1	4	2	3	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:45983111C>T	uc001vag.2	-	3	300	c.163G>A	c.(163-165)GCA>ACA	p.A55T	SLC25A30_uc010tfs.1_Intron|SLC25A30_uc001vah.2_Intron|SLC25A30_uc010tft.1_Missense_Mutation_p.A4T	NM_001010875	NP_001010875	Q5SVS4	KMCP1_HUMAN	solute carrier family 25, member 30	55	Solcar 1.				mitochondrial transport	integral to membrane|mitochondrial inner membrane	binding			breast(1)	1		Lung NSC(96;0.00227)|Prostate(109;0.00578)|Breast(56;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.95e-05)		CTCACTAATGCGTGCAACATT	0.448													22	80					0	0	0.00632	0	0		T	45983111	T	T	45983111	3	4	4	1	0	0	0	0	1	0	0	0	14519	768	27	1	744	1	SLC25A30	13	45983111	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3106503	45983111	69186767	3015	4981											
LCP1	3936	broad.mit.edu	37	chr13	46716466	46716466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaggccagtgtgagagtgCggtttccttcattgagatct	8	13	12	8	1	3	2	2	2	1	2	4	4	4	2	2	2	1	1	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:46716466C>T	uc001vaz.3	-	13	1589	c.1463G>A	c.(1462-1464)CGC>CAC	p.R488H	LCP1_uc010ack.2_Missense_Mutation_p.R57H|LCP1_uc001vay.3_Missense_Mutation_p.R85H|LCP1_uc001vba.3_Missense_Mutation_p.R488H	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	488	Actin-binding 2.|CH 3.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		TGTGAGAGTGCGGTTTCCTTC	0.413			T	BCL6	NHL 								5	112					0	0	0.001984	0	0		T	46716466	T	T	46716466	3	4	4	1	0	0	0	0	1	0	0	0	8707	768	27	1	436	1	LCP1	13	46716466	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	733355	46716466	68453412	3016	4982											
FNDC3A	22862	broad.mit.edu	37	chr13	49688825	49688825	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaatgatgtccccaaatggTtctgtgcctcctatctatgt	8	14	7	12	0	2	1	0	1	2	0	4	1	4	1	5	1	1	1	5	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:49688825T>C	uc001vcm.2	+	4	515	c.210T>C	c.(208-210)GGT>GGC	p.G70G	FNDC3A_uc001vcl.1_Silent_p.G70G|FNDC3A_uc001vcn.2_Silent_p.G70G|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcp.1_Silent_p.G14G|FNDC3A_uc001vcq.2_Silent_p.G14G	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	70	Pro-rich.					Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		CCCCAAATGGTTCTGTGCCTC	0.373													7	194					0	0	0.006214	0	0		C	49688825	C	C	49688825	2	2	4	1	0	0	0	0	0	0	0	1	5983	1712	60	3		3	FNDC3A	13	49688825	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2972359	49688825	65481053	3017	4983											
ARL11	115761	broad.mit.edu	37	chr13	50204926	50204926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaccccaacatggctggcGtccccttcttggtgctggcc	5	9	11	16	2	1	0	0	0	1	0	2	1	2	0	5	4	2	2	5	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:50204926G>A	uc001vdf.1	+	2	489	c.343G>A	c.(343-345)GTC>ATC	p.V115I		NM_138450	NP_612459	Q969Q4	ARL11_HUMAN	ADP-ribosylation factor-like 11	115					small GTPase mediated signal transduction	intracellular	GTP binding|protein binding				0		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.119)|Kidney(9;0.169)	GBM - Glioblastoma multiforme(99;1.67e-09)		CATGGCTGGCGTCCCCTTCTT	0.567													27	39					0	0	0.009535	0	0		A	50204926	A	A	50204926	3	1	4	1	0	0	0	0	1	0	0	0	927	1145	40	1	345	1	ARL11	13	50204926	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	516101	50204926	64964952	3018	4984											
C13orf1	57213	broad.mit.edu	37	chr13	50505205	50505205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgttttgatgtaaaggtgCgctggctaaacaacctcctg	9	14	10	8	1	0	1	0	1	0	0	1	1	1	1	2	2	3	4	2	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:50505205C>T	uc001vdl.2	-	2	434	c.172G>A	c.(172-174)GCA>ACA	p.A58T	C13orf1_uc001vdm.2_Intron|C13orf1_uc010tgm.1_Intron|C13orf1_uc010adj.2_Missense_Mutation_p.A58T	NM_020456	NP_065189	Q5W111	SPRY7_HUMAN	chromosome 13 open reading frame 1 isoform 1	58	B30.2/SPRY.										0		Lung NSC(96;7.5e-06)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Acute lymphoblastic leukemia(7;0.117)		GBM - Glioblastoma multiforme(99;1.72e-10)|COAD - Colon adenocarcinoma(199;0.208)		TGTAAAGGTGCGCTGGCTAAA	0.323													12	44					0	0	0.000978	0	0		T	50505205	T	T	50505205	3	4	4	1	0	0	0	0	1	0	0	0	1720	768	27	1	434	1	C13orf1	13	50505205	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	300279	50505205	64664673	3019	4985											
FAM124A	220108	broad.mit.edu	37	chr13	51855296	51855296	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctccccacagctcccatgCgatacccccaaagtcaagca	11	6	5	19	1	1	0	1	0	0	0	4	1	4	0	6	0	4	2	6	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:51855296C>T	uc001vfg.1	+	4	1676	c.1545C>T	c.(1543-1545)TGC>TGT	p.C515C	FAM124A_uc001vff.1_Silent_p.C551C	NM_145019	NP_659456	Q86V42	F124A_HUMAN	hypothetical protein LOC220108	515										central_nervous_system(1)	1		Acute lymphoblastic leukemia(7;0.000334)|Breast(56;0.00156)|Prostate(109;0.00538)|Lung NSC(96;0.0216)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;4.25e-07)		AGCTCCCATGCGATACCCCCA	0.597													5	43					0	0	0.001168	0	0		T	51855296	T	T	51855296	2	4	4	1	0	0	0	0	0	0	0	1	5436	776	27	1		1	FAM124A	13	51855296	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1350091	51855296	63314582	3020	4986											
INTS6	26512	broad.mit.edu	37	chr13	51953678	51953678	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctgctattaggttaggtgCtcccatcatcctaacagctt	8	14	8	11	0	2	0	1	0	1	0	4	0	4	0	2	2	4	4	2	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:51953678C>T	uc001vfk.2	-	11	1920	c.1306G>A	c.(1306-1308)GCA>ACA	p.A436T	INTS6_uc001vfi.2_Missense_Mutation_p.A120T|INTS6_uc001vfj.2_Missense_Mutation_p.A423T|INTS6_uc001vfl.2_Missense_Mutation_p.A258T	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	436					snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)		AGGTTAGGTGCTCCCATCATC	0.338													19	67					0	0	0.002299	0	0		T	51953678	T	T	51953678	3	4	4	1	0	0	0	0	1	0	0	0	7798	797	28	2	1389	2	INTS6	13	51953678	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	98382	51953678	63216200	3021	4987											
CCDC70	83446	broad.mit.edu	37	chr13	52439935	52439935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctggaaagaggacaatGccttatgggaaagagaccgg	13	7	13	8	1	1	2	0	0	1	2	1	6	1	5	3	4	1	0	3	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:52439935G>A	uc001vfu.3	+	2	717	c.421G>A	c.(421-423)GCC>ACC	p.A141T	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	141	Potential.					extracellular region|plasma membrane					0		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)		AGAGGACAATGCCTTATGGGA	0.507													9	186					0	0	0.006214	0	0		A	52439935	A	A	52439935	3	1	4	1	0	0	0	0	1	0	0	0	2846	1319	46	2	423	2	CCDC70	13	52439935	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	486257	52439935	62729943	3022	4988											
UTP14C	9724	broad.mit.edu	37	chr13	52603935	52603935	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggccaagaacaaagaacTgacacagaaactccaggtag	17	5	10	9	0	0	4	0	1	0	3	1	4	1	4	2	2	3	2	2	2	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:52603935T>C	uc001vgb.2	+	2	1530	c.995T>C	c.(994-996)CTG>CCG	p.L332P	UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	332	Potential.				cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)		AACAAAGAACTGACACAGAAA	0.498													19	89					0	0	0.00278	0	0		C	52603935	C	C	52603935	3	2	4	1	0	0	0	0	1	0	0	0	17122	1580	55	3	997	3	UTP14C	13	52603935	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	164000	52603935	62565943	3023	4989											
THSD1	55901	broad.mit.edu	37	chr13	52960256	52960256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgagacacactcggcgacGctctctgacaccatccccac	10	6	8	17	3	1	2	0	2	1	1	4	4	2	2	3	1	0	1	3	1	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:52960256G>A	uc001vgo.2	-	4	1632	c.1087C>T	c.(1087-1089)CGT>TGT	p.R363C	THSD1_uc001vgp.2_Intron|THSD1_uc010tgz.1_5'UTR|THSD1_uc010aea.2_Intron	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	363	Extracellular (Potential).|TSP type-1.					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		ACTCGGCGACGCTCTCTGACA	0.542													22	63					0	0	0.008361	0	0		A	52960256	A	A	52960256	3	1	4	1	0	0	0	0	1	0	0	0	15902	1087	38	1	1479	1	THSD1	13	52960256	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	356321	52960256	62209622	3024	4990											
LECT1	11061	broad.mit.edu	37	chr13	53282677	53282677	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaccggaacgcacatgataAggattatcaggattgaaggc	14	7	12	8	2	1	2	1	2	0	0	1	5	1	5	1	4	1	2	1	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:53282677A>C	uc001vhf.2	-	6	894	c.783T>G	c.(781-783)CCT>CCG	p.P261P	LECT1_uc001vhg.2_Silent_p.P261P|LECT1_uc001vhh.2_Silent_p.P250P	NM_007015	NP_008946	O75829	LECT1_HUMAN	leukocyte cell derived chemotaxin 1 isoform 1	261					cartilage development|proteoglycan metabolic process	endomembrane system|extracellular region|integral to membrane				ovary(2)	2		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.38e-08)		GCACATGATAAGGATTATCAG	0.368													16	26					0	0	0.006122	0	0		C	53282677	C	C	53282677	2	2	4	1	0	0	0	0	0	0	0	1	8728	59	3	5		5	LECT1	13	53282677	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	322421	53282677	61887201	3025	4991											
PCDH8	5100	broad.mit.edu	37	chr13	53418988	53418988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggtgaggcgatggatgtgCgttgggcccgctgcaggatg	5	9	20	7	3	0	1	0	1	0	0	0	4	0	3	1	5	2	3	1	5	0	1	rs141509995		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:53418988C>T	uc001vhi.2	-	3	3123	c.2920G>A	c.(2920-2922)GCA>ACA	p.A974T	PCDH8_uc001vhj.2_Missense_Mutation_p.A877T	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	974	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GATGGATGTGCGTTGGGCCCG	0.597													17	24					0	0	0.00333	0	0		T	53418988	T	T	53418988	3	4	4	1	0	0	0	0	1	0	0	0	11536	768	27	1	296	1	PCDH8	13	53418988	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	136311	53418988	61750890	3026	4992											
OLFM4	10562	broad.mit.edu	37	chr13	53624246	53624246	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggactgtattgggtggcGccattgaatacagatgggag	12	9	15	5	1	0	2	0	1	0	1	0	4	0	4	1	4	1	1	1	4	4	4	rs147184057		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:53624246G>A	uc001vhl.2	+	5	873	c.873G>A	c.(871-873)GCG>GCA	p.A291A	OLFM4_uc001vhk.1_Intron	NM_006418	NP_006409	Q6UX06	OLFM4_HUMAN	olfactomedin 4 precursor	291	Olfactomedin-like.				cell adhesion	extracellular space				skin(1)	1		Breast(56;0.000776)|Lung NSC(96;0.000814)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.13e-08)		ATTGGGTGGCGCCATTGAATA	0.448													5	62					0	0	0.000602	0	0		A	53624246	A	A	53624246	2	1	4	1	0	0	0	0	0	0	0	1	10874	1074	38	1		1	OLFM4	13	53624246	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	205258	53624246	61545632	3027	4993											
PCDH17	27253	broad.mit.edu	37	chr13	58208511	58208511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctatctggtgagcactgtgCgcgccctagacagcgacttc	7	9	12	13	3	1	2	0	1	1	1	2	3	1	2	1	1	3	2	1	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:58208511C>T	uc001vhq.1	+	1	2723	c.1831C>T	c.(1831-1833)CGC>TGC	p.R611C	PCDH17_uc010aec.1_Missense_Mutation_p.R611C	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	611	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GAGCACTGTGCGCGCCCTAGA	0.657													5	18					0	0	0.001168	0	0		T	58208511	T	T	58208511	3	4	4	1	0	0	0	0	1	0	0	0	11531	768	27	1	1833	1	PCDH17	13	58208511	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4584265	58208511	56961367	3028	4994											
PCDH20	64881	broad.mit.edu	37	chr13	61986229	61986229	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacccatccatttcgtccaGcgtcagcatctgttacacta	9	11	6	15	3	2	0	1	0	1	0	5	1	4	0	3	0	3	2	3	0	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:61986229G>T	uc001vid.3	-	2	2367	c.2003C>A	c.(2002-2004)GCT>GAT	p.A668D	PCDH20_uc010thj.1_Missense_Mutation_p.A668D	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	641	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		ATTTCGTCCAGCGTCAGCATC	0.448													15	63					1.67942e-08	1.7964e-08	0.006122	1	0		T	61986229	T	T	61986229	3	4	4	1	0	0	0	0	1	0	0	0	11534	971	34	5	856	5	PCDH20	13	61986229	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3777718	61986229	53183649	3029	4995											
DACH1	1602	broad.mit.edu	37	chr13	72049901	72049901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctgttctgcttgttcacGccgtttcgtctcaaactcaa	6	15	7	13	4	5	0	3	0	3	0	7	0	5	0	1	0	2	4	1	0	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:72049901G>A	uc010thn.1	-	10	2374	c.1951C>T	c.(1951-1953)CGT>TGT	p.R651C	DACH1_uc010tho.1_Missense_Mutation_p.R503C|DACH1_uc010thp.1_Missense_Mutation_p.R449C	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	703	Potential.|Interaction with SIN3A (By similarity).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		GCTTGTTCACGCCGTTTCGTC	0.403													11	167					0	0	0.008291	0	0		A	72049901	A	A	72049901	3	1	4	1	0	0	0	0	1	0	0	0	4223	1087	38	1	181	1	DACH1	13	72049901	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	10063672	72049901	43119977	3030	4996											
C13orf34	79866	broad.mit.edu	37	chr13	73321194	73321194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattgaaaactctcatatgtGcatgtcacctcttgctgaaa	12	14	6	9	0	3	2	2	2	2	0	4	2	3	2	1	0	3	2	1	0	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:73321194G>A	uc001viv.1	+	10	1546	c.1427G>A	c.(1426-1428)TGC>TAC	p.C476Y	C13orf34_uc010thq.1_Missense_Mutation_p.C251Y|C13orf34_uc010aen.1_Missense_Mutation_p.C551Y|C13orf34_uc010thr.1_Missense_Mutation_p.C406Y|C13orf34_uc001viw.1_Missense_Mutation_p.C425Y	NM_024808	NP_079084	Q6PGQ7	BORA_HUMAN	aurora borealis	476					cell division|mitosis|regulation of mitosis|regulation of mitotic spindle organization|regulation of protein localization		protein kinase binding				0		Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.000227)		TCTCATATGTGCATGTCACCT	0.423													37	163					0	0	0.006999	0	0		A	73321194	A	A	73321194	3	1	4	1	0	0	0	0	1	0	0	0	1731	1319	46	2	1461	2	C13orf34	13	73321194	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1271293	73321194	41848684	3031	4997											
LMO7	4008	broad.mit.edu	37	chr13	76379754	76379754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaaggatgatctttatgtgCgcaagctcagtccagtcatg	11	12	10	8	1	3	1	2	1	1	0	4	2	4	2	1	1	2	2	1	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:76379754C>T	uc001vjv.2	+	6	1115	c.355C>T	c.(355-357)CGC>TGC	p.R119C	LMO7_uc010thv.1_Intron|LMO7_uc001vjt.1_Intron|LMO7_uc010thw.1_Intron|LMO7_uc001vjw.1_Intron	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	404						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		TCTTTATGTGCGCAAGCTCAG	0.413													74	283					0	0	0.00361	0	0		T	76379754	T	T	76379754	3	4	4	1	0	0	0	0	1	0	0	0	8872	768	27	1	1248	1	LMO7	13	76379754	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3058560	76379754	38790124	3032	4998											
LMO7	4008	broad.mit.edu	37	chr13	76391408	76391408	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaagaacaagatcagaaatgGcaggatgtgagtattttggg	16	9	13	3	0	1	4	1	1	0	3	1	5	1	5	0	3	1	2	0	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:76391408G>A	uc001vjv.2	+	9	2119	c.1359G>A	c.(1357-1359)TGG>TGA	p.W453*	LMO7_uc010thv.1_Nonsense_Mutation_p.W404*|LMO7_uc001vjt.1_Nonsense_Mutation_p.W352*|LMO7_uc010thw.1_Nonsense_Mutation_p.W303*|LMO7_uc001vjw.1_Nonsense_Mutation_p.W359*	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	738						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		ATCAGAAATGGCAGGATGTGA	0.393													28	75					0	0	0.002445	0	0		A	76391408	A	A	76391408	4	1	4	1	0	0	0	0	0	1	0	0	8872	1212	42	2	2264	2	LMO7	13	76391408	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11654	76391408	38778470	3033	4999											
LMO7	4008	broad.mit.edu	37	chr13	76408509	76408509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctagtgatggatgtgaggcGctatggaaaggctggtgagt	9	10	17	5	1	0	3	0	3	0	0	0	5	0	5	1	5	0	2	1	5	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:76408509G>A	uc001vjv.2	+	14	3273	c.2513G>A	c.(2512-2514)CGC>CAC	p.R838H	LMO7_uc010thv.1_Missense_Mutation_p.R789H|LMO7_uc001vjt.1_Missense_Mutation_p.R737H|LMO7_uc010thw.1_Missense_Mutation_p.R688H|LMO7_uc001vjw.1_Missense_Mutation_p.R744H	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	1123	PDZ.					cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		GATGTGAGGCGCTATGGAAAG	0.448													8	86					0	0	0.004482	0	0		A	76408509	A	A	76408509	3	1	4	1	0	0	0	0	1	0	0	0	8872	1087	38	1	3438	1	LMO7	13	76408509	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	17101	76408509	38761369	3034	5000											
FBXL3	26224	broad.mit.edu	37	chr13	77592810	77592810	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagagcaattcacaagttgCgatagtatatcacaagctgc	16	9	8	8	1	2	1	2	0	0	1	2	2	2	1	0	0	4	4	0	0	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:77592810C>T	uc001vkd.2	-	3	767	c.396G>A	c.(394-396)TCG>TCA	p.S132S		NM_012158	NP_036290	Q9UKT7	FBXL3_HUMAN	F-box and leucine-rich repeat protein 3	132	LRR 1.				regulation of circadian rhythm|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.218)		GBM - Glioblastoma multiforme(99;0.0521)		TCACAAGTTGCGATAGTATAT	0.333													8	64					0	0	0.00308	0	0		T	77592810	T	T	77592810	2	4	4	1	0	0	0	0	0	0	0	1	5734	755	27	1		1	FBXL3	13	77592810	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1184301	77592810	37577068	3035	5001											
MYCBP2	23077	broad.mit.edu	37	chr13	77642784	77642784	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttgagccagatattgccgGccaacgttagagccactcag	10	9	11	11	2	1	3	1	1	0	2	1	3	1	3	4	1	4	2	4	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:77642784G>A	uc001vkf.2	-	71	12064	c.11973C>T	c.(11971-11973)GGC>GGT	p.G3991G	MYCBP2_uc010aev.2_Silent_p.G3395G|MYCBP2_uc001vke.2_Silent_p.G608G	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3991					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GATATTGCCGGCCAACGTTAG	0.493													8	39					0	0	0.004482	0	0		A	77642784	A	A	77642784	2	1	4	1	0	0	0	0	0	0	0	1	10036	1190	42	2		2	MYCBP2	13	77642784	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	49974	77642784	37527094	3036	5002											
MYCBP2	23077	broad.mit.edu	37	chr13	77807298	77807298	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagaccaaatacctttgtgCttgtcccgtttatgctttag	9	15	8	9	1	0	1	0	0	0	1	1	2	1	1	3	0	3	3	3	0	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:77807298C>T	uc001vkf.2	-	19	2707	c.2616G>A	c.(2614-2616)AAG>AAA	p.K872K	MYCBP2_uc010aev.2_Silent_p.K276K	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	872	RCC1 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TACCTTTGTGCTTGTCCCGTT	0.438													14	178					0	0	0.004007	0	0		T	77807298	T	T	77807298	2	4	4	1	0	0	0	0	0	0	0	1	10036	796	28	2		2	MYCBP2	13	77807298	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	164514	77807298	37362580	3037	5003											
SCEL	8796	broad.mit.edu	37	chr13	78130752	78130752	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatgaagagcaccactcaggGaaccacacggaagcagcagg	15	2	13	11	1	1	2	1	1	0	1	1	5	1	4	2	3	4	3	2	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:78130752G>T	uc001vki.2	+	3	235	c.65G>T	c.(64-66)GGA>GTA	p.G22V	SCEL_uc001vkj.2_Missense_Mutation_p.G22V|SCEL_uc010thx.1_Missense_Mutation_p.G22V	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	22					embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		ACCACTCAGGGAACCACACGG	0.423													19	272					9.95505e-16	1.08417e-15	0.002299	1	0		T	78130752	T	T	78130752	3	4	4	1	0	0	0	0	1	0	0	0	13913	1174	41	5	71	5	SCEL	13	78130752	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	323454	78130752	37039126	3038	5004											
SCEL	8796	broad.mit.edu	37	chr13	78188060	78188060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgatgaacatattaatgTcagccccaaagctgtcaaaa	15	11	6	9	0	3	2	2	2	1	0	3	2	3	2	2	0	3	1	2	0	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:78188060T>C	uc001vki.2	+	24	1591	c.1421T>C	c.(1420-1422)GTC>GCC	p.V474A	SCEL_uc001vkj.2_Missense_Mutation_p.V454A|SCEL_uc010thx.1_Missense_Mutation_p.V432A	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	474	16 X approximate tandem repeats.|12.				embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		CATATTAATGTCAGCCCCAAA	0.338													6	110					0	0	0.00308	0	0		C	78188060	C	C	78188060	3	2	4	1	0	0	0	0	1	0	0	0	13913	1667	58	3	1511	3	SCEL	13	78188060	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	57308	78188060	36981818	3039	5005											
EDNRB	1910	broad.mit.edu	37	chr13	78492681	78492681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagcgcaaccagggcgcGtccgcacagacttggaggcg	10	3	14	14	5	0	1	0	0	0	1	1	2	1	2	3	3	3	2	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:78492681G>A	uc001vko.2	-	1	286	c.28C>T	c.(28-30)CGC>TGC	p.R10C	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.R10C|EDNRB_uc010aez.1_Missense_Mutation_p.R10C|EDNRB_uc001vkp.1_Missense_Mutation_p.R93C|EDNRB_uc010afa.1_Missense_Mutation_p.R10C	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	10				R -> P (in Ref. 3; AAB19411).	activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	ACCAGGGCGCGTCCGCACAGA	0.647											OREG0022452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	12					0	0	0.004482	0	0		A	78492681	A	A	78492681	3	1	4	1	0	0	0	0	1	0	0	0	4926	1145	40	1	1449	1	EDNRB	13	78492681	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	304621	78492681	36677197	3040	5006											
POU4F1	5457	broad.mit.edu	37	chr13	79175910	79175910	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggctgagtgagcccacGcccgggatcttgaggttggc	5	9	15	12	2	2	3	0	3	2	0	2	4	2	4	2	4	1	2	2	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:79175910G>A	uc001vkv.2	-	2	1134	c.900C>T	c.(898-900)GGC>GGT	p.G300G	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	300	POU-specific.				axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		GTGAGCCCACGCCCGGGATCT	0.662													6	9					0	0	0.001984	0	0		A	79175910	A	A	79175910	2	1	4	1	0	0	0	0	0	0	0	1	12297	1074	38	1		1	POU4F1	13	79175910	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	683229	79175910	35993968	3041	5007											
RBM26	64062	broad.mit.edu	37	chr13	79943029	79943029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagtaggtacagggtagtggCcagatgaaatactaggtacc	14	8	13	6	0	0	2	0	1	0	1	0	2	0	2	2	4	3	4	2	4	8	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:79943029C>T	uc001vkz.2	-	6	745	c.731G>A	c.(730-732)GGC>GAC	p.G244D	RBM26_uc001vky.2_Missense_Mutation_p.G244D|RBM26_uc001vla.2_Missense_Mutation_p.G244D|RBM26_uc001vkx.2_5'UTR|RBM26_uc001vlb.1_RNA	NM_022118	NP_071401	Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26	244					mRNA processing		nucleotide binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)		GBM - Glioblastoma multiforme(99;0.0188)		AGGGTAGTGGCCAGATGAAAT	0.398													7	117					0	0	0.001984	0	0		T	79943029	T	T	79943029	3	4	4	1	0	0	0	0	1	0	0	0	13151	739	26	2	2275	2	RBM26	13	79943029	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	767119	79943029	35226849	3042	5008											
SLITRK6	84189	broad.mit.edu	37	chr13	86369760	86369760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtggtcttagttgacatgCgactatcatttattgaagat	11	15	9	6	2	2	3	1	2	1	1	2	4	2	3	0	1	1	1	0	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:86369760C>T	uc001vll.1	-	2	1343	c.884G>A	c.(883-885)CGC>CAC	p.R295H	SLITRK6_uc010afe.1_Missense_Mutation_p.R60H	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	295	Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		AGTTGACATGCGACTATCATT	0.418													22	90					0	0	0.001882	0	0		T	86369760	T	T	86369760	3	4	4	1	0	0	0	0	1	0	0	0	14772	768	27	1	1645	1	SLITRK6	13	86369760	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6426731	86369760	28800118	3043	5009											
SLITRK5	26050	broad.mit.edu	37	chr13	88329951	88329951	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccatctaccgctcccgagagGgcaactccgtagaggattac	10	7	10	14	3	1	2	0	0	1	2	3	4	3	3	4	2	3	3	4	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:88329951G>T	uc001vln.2	+	2	2527	c.2308G>T	c.(2308-2310)GGC>TGC	p.G770C	SLITRK5_uc010tic.1_Missense_Mutation_p.G529C	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	770	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CTCCCGAGAGGGCAACTCCGT	0.498													5	42					0.00198382	0.00206202	0.001984	1	0		T	88329951	T	T	88329951	3	4	4	1	0	0	0	0	1	0	0	0	14771	1232	43	5	2310	5	SLITRK5	13	88329951	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1960191	88329951	26839927	3044	5010											
GPC5	2262	broad.mit.edu	37	chr13	92345910	92345910	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcactgccaaggcctggcGctcactaagccttgtatggg	7	8	12	14	2	1	0	1	0	0	0	1	0	1	0	4	3	2	3	4	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:92345910G>A	uc010tif.1	+	3	1161	c.795G>A	c.(793-795)GCG>GCA	p.A265A		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	265						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				AAGGCCTGGCGCTCACTAAGC	0.542													11	48					0	0	0.003163	0	0		A	92345910	A	A	92345910	2	1	4	1	0	0	0	0	0	0	0	1	6616	1074	38	1		1	GPC5	13	92345910	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4015959	92345910	22823968	3045	5011											
GPC6	10082	broad.mit.edu	37	chr13	94958286	94958286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagccctcagatctgcccGctcagctcctgaaaatttta	9	11	6	15	1	3	2	2	1	1	1	5	2	5	2	4	0	3	2	4	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:94958286G>A	uc001vlt.2	+	6	1693	c.1061G>A	c.(1060-1062)CGC>CAC	p.R354H	GPC6_uc010tig.1_Missense_Mutation_p.R354H	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	354						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				AGATCTGCCCGCTCAGCTCCT	0.478													11	138					0	0	0.000978	0	0		A	94958286	A	A	94958286	3	1	4	1	0	0	0	0	1	0	0	0	6617	1087	38	1	1083	1	GPC6	13	94958286	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2612376	94958286	20211592	3046	5012											
DZIP1	22873	broad.mit.edu	37	chr13	96239899	96239899	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccttgttttgtggtggCggcacaggaagtgggcctgg	4	11	17	9	1	0	0	0	0	0	0	0	1	0	1	2	6	1	2	2	6	1	3	rs111764824		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:96239899C>T	uc001vmk.2	-	20	2964	c.2112G>A	c.(2110-2112)CCG>CCA	p.P704P	DZIP1_uc001vmi.2_5'UTR|DZIP1_uc001vmj.2_Silent_p.P180P|DZIP1_uc001vml.2_Silent_p.P685P	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	704					germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			TTTGTGGTGGCGGCACAGGAA	0.567													5	35					0	0	0.001168	0	0		T	96239899	T	T	96239899	2	4	4	1	0	0	0	0	0	0	0	1	4869	755	27	1		1	DZIP1	13	96239899	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1281613	96239899	18929979	3047	5013											
HS6ST3	266722	broad.mit.edu	37	chr13	97485082	97485082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaacaacctgaagaacatggCcttctttgggctcactgagt	11	10	10	10	0	2	3	1	2	1	1	2	4	2	3	2	2	3	1	2	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:97485082C>T	uc001vmw.2	+	2	1070	c.1046C>T	c.(1045-1047)GCC>GTC	p.A349V		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	349	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					AAGAACATGGCCTTCTTTGGG	0.468													5	90					0	0	0.001168	0	0		T	97485082	T	T	97485082	3	4	4	1	0	0	0	0	1	0	0	0	7388	739	26	2	1052	2	HS6ST3	13	97485082	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1245183	97485082	17684796	3048	5014											
OXGR1	27199	broad.mit.edu	37	chr13	97639229	97639229	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgagattcgatccgaatgAccctcaagatatggaagggt	12	8	13	8	3	1	3	1	1	0	2	3	7	2	4	2	3	0	0	2	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:97639229A>C	uc001vmx.1	-	4	1029	c.785T>G	c.(784-786)GTC>GGC	p.V262G	OXGR1_uc010afr.1_Missense_Mutation_p.V262G	NM_080818	NP_543008	Q96P68	OXGR1_HUMAN	oxoglutarate (alpha-ketoglutarate) receptor 1	262	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.186)			GATCCGAATGACCCTCAAGAT	0.438													5	73					0	0	0.001168	0	0		C	97639229	C	C	97639229	3	2	4	1	0	0	0	0	1	0	0	0	11351	275	10	5	232	5	OXGR1	13	97639229	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	154147	97639229	17530649	3049	5015											
MBNL2	10150	broad.mit.edu	37	chr13	98009823	98009823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcggtctttaaccccagcGtcttgcactaccagcaggct	7	9	10	15	3	2	0	0	0	2	0	2	0	2	0	3	2	5	3	3	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:98009823G>A	uc010aft.2	+	6	1708	c.892G>A	c.(892-894)GTC>ATC	p.V298I	MBNL2_uc001vmz.2_Missense_Mutation_p.V298I|MBNL2_uc001vna.2_Missense_Mutation_p.V298I|MBNL2_uc001vnb.2_RNA|MBNL2_uc010tij.1_Missense_Mutation_p.V143I|MBNL2_uc001vnc.2_Missense_Mutation_p.V31I	NM_144778	NP_659002	Q5VZF2	MBNL2_HUMAN	muscleblind-like 2 isoform 1	298					mRNA processing|regulation of RNA splicing|RNA splicing	cytoplasm|nucleus	RNA binding|zinc ion binding				0	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.218)			TAACCCCAGCGTCTTGCACTA	0.532													45	98					0	0	0.00361	0	0		A	98009823	A	A	98009823	3	1	4	1	0	0	0	0	1	0	0	0	9372	1145	40	1	910	1	MBNL2	13	98009823	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	370594	98009823	17160055	3050	5016											
RNF113B	140432	broad.mit.edu	37	chr13	98829385	98829385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcggggtcgcaggccgggcGctttctgaggcctgcagccc	3	7	16	15	4	1	1	0	1	1	0	3	1	1	1	3	5	2	3	3	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:98829385G>A	uc001vnk.2	-	1	137	c.106C>T	c.(106-108)CGC>TGC	p.R36C	FARP1_uc001vnh.2_Intron|FARP1_uc001vni.2_Intron|FARP1_uc001vnj.2_Intron	NM_178861	NP_849192	Q8IZP6	R113B_HUMAN	ring finger protein 113B	36							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.13)			CAGGCCGGGCGCTTTCTGAGG	0.687													7	9					0	0	0.00308	0	0		A	98829385	A	A	98829385	3	1	4	1	0	0	0	0	1	0	0	0	13453	1087	38	1	870	1	RNF113B	13	98829385	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	819562	98829385	16340493	3051	5017											
FARP1	10160	broad.mit.edu	37	chr13	99042215	99042215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattttccctttttagagtgCgtaccaggataccttggaat	9	16	8	8	1	0	1	0	0	0	1	1	3	1	3	3	2	3	1	3	2	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:99042215C>T	uc001vnj.2	+	10	1196	c.860C>T	c.(859-861)GCG>GTG	p.A287V	FARP1_uc001vnh.2_Missense_Mutation_p.A287V	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	287	FERM.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			TTTTAGAGTGCGTACCAGGAT	0.413													6	80					0	0	0.004482	0	0		T	99042215	T	T	99042215	3	4	4	1	0	0	0	0	1	0	0	0	5690	768	27	1	1117	1	FARP1	13	99042215	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	212830	99042215	16127663	3052	5018											
TM9SF2	9375	broad.mit.edu	37	chr13	100172322	100172322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagcatcagaaggaaagcGcccatctgaaaatcttggtc	14	7	9	11	1	3	2	1	1	2	1	4	3	3	3	2	2	2	1	2	2	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:100172322G>A	uc001voj.1	+	3	405	c.272G>A	c.(271-273)CGC>CAC	p.R91H	TM9SF2_uc010afz.1_Missense_Mutation_p.R91H	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor	91	Lumenal (Potential).				transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)					GAAGGAAAGCGCCCATCTGAA	0.343													11	51					0	0	0.003163	0	0		A	100172322	A	A	100172322	3	1	4	1	0	0	0	0	1	0	0	0	16003	1087	38	1	282	1	TM9SF2	13	100172322	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1130107	100172322	14997556	3053	5019											
TM9SF2	9375	broad.mit.edu	37	chr13	100204534	100204534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggccctttggttctgcatatCtgtgcctctgacgtttattg	4	17	10	10	1	3	1	0	1	3	0	3	1	3	1	2	2	2	3	2	2	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:100204534C>T	uc001voj.1	+	13	1575	c.1442C>T	c.(1441-1443)TCT>TTT	p.S481F	TM9SF2_uc010afz.1_Missense_Mutation_p.S316F	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor	481	Helical; (Potential).				transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)					TTCTGCATATCTGTGCCTCTG	0.393													44	94					0	0	0.00361	0	0		T	100204534	T	T	100204534	3	4	4	1	0	0	0	0	1	0	0	0	16003	913	32	4	1492	4	TM9SF2	13	100204534	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	32212	100204534	14965344	3054	5020											
PCCA	5095	broad.mit.edu	37	chr13	100909900	100909900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtggtgggaaaggcatgcGcattgcttgggatgatgaag	9	10	18	4	1	0	2	0	2	0	0	0	4	0	4	0	5	2	3	0	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:100909900G>A	uc001voo.2	+	9	727	c.689G>A	c.(688-690)CGC>CAC	p.R230H	PCCA_uc010aga.2_Missense_Mutation_p.R204H|PCCA_uc010tiz.1_Missense_Mutation_p.R230H	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	230	ATP-grasp.|Biotin carboxylation.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	AAAGGCATGCGCATTGCTTGG	0.443													4	18					0	0	0.004482	0	0		A	100909900	A	A	100909900	3	1	4	1	0	0	0	0	1	0	0	0	11523	1087	38	1	723	1	PCCA	13	100909900	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	705366	100909900	14259978	3055	5021											
NALCN	259232	broad.mit.edu	37	chr13	101720344	101720344	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtaacttaaaagctggtcctCctcagtggaataaaacaagg	15	9	9	8	0	1	0	1	0	0	0	3	1	3	1	2	3	3	2	2	3	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:101720344C>T	uc001vox.1	-	39	4561	c.4372G>A	c.(4372-4374)GAG>AAG	p.E1458K		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1458	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGCTGGTCCTCCTCAGTGGAA	0.343													17	32					0	0	0.007413	0	0		T	101720344	T	T	101720344	3	4	4	1	0	0	0	0	1	0	0	0	10166	864	30	4	868	4	NALCN	13	101720344	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	810444	101720344	13449534	3056	5022											
NALCN	259232	broad.mit.edu	37	chr13	102029307	102029307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtccttggcagttcaaatCggaaataaatccggaatgct	12	11	10	8	2	1	0	1	0	0	0	4	2	3	2	2	4	1	3	2	4	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:102029307C>T	uc001vox.1	-	5	665	c.476G>A	c.(475-477)CGA>CAA	p.R159Q	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Missense_Mutation_p.R159Q|NALCN_uc001vpa.2_Missense_Mutation_p.R159Q	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	159	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CAGTTCAAATCGGAAATAAAT	0.373													17	46					0	0	0.004007	0	0		T	102029307	T	T	102029307	3	4	4	1	0	0	0	0	1	0	0	0	10166	884	31	1	4900	1	NALCN	13	102029307	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	308963	102029307	13140571	3057	5023											
ITGBL1	9358	broad.mit.edu	37	chr13	102359114	102359114	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcttcacaggccacggcAcatgttcctgtggtcgctgt	5	12	12	12	2	1	0	1	0	0	0	3	0	2	0	2	3	1	5	2	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:102359114A>G	uc001vpb.2	+	9	1360	c.1141A>G	c.(1141-1143)ACA>GCA	p.T381A	ITGBL1_uc010agb.2_Missense_Mutation_p.T332A|ITGBL1_uc001vpc.3_Missense_Mutation_p.T240A	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	381	VIII.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGGCCACGGCACATGTTCCTG	0.463													8	31					0	0	0.006214	0	0		G	102359114	G	G	102359114	3	3	4	1	0	0	0	0	1	0	0	0	7918	159	6	3	1175	3	ITGBL1	13	102359114	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	329807	102359114	12810764	3058	5024											
FGF14	2259	broad.mit.edu	37	chr13	102568812	102568812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccacagaccttggcgccGcaacctgcgcttcttgaggc	6	7	10	18	3	1	2	0	1	1	1	1	2	1	2	5	2	2	2	5	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:102568812G>A	uc001vpe.2	-	1	184	c.184C>T	c.(184-186)CGG>TGG	p.R62W	FGF14_uc001vpf.2_Intron	NM_004115	NP_004106	Q92915	FGF14_HUMAN	fibroblast growth factor 14 isoform 1A	62					cell death|cell-cell signaling|JNK cascade|nervous system development|signal transduction	nucleus	growth factor activity|heparin binding			ovary(2)|lung(1)|large_intestine(1)	4	all_neural(89;0.0239)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CCTTGGCGCCGCAACCTGCGC	0.652													7	23					0	0	0.00308	0	0		A	102568812	A	A	102568812	3	1	4	1	0	0	0	0	1	0	0	0	5857	1086	38	1	579	1	FGF14	13	102568812	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	209698	102568812	12601066	3059	5025											
TPP2	7174	broad.mit.edu	37	chr13	103286332	103286332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttggtgtgagtatcagtgCgccaggaggagccattgctt	7	11	14	9	1	1	1	1	1	0	0	1	3	1	3	3	3	3	2	3	3	1	4	rs2230855		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:103286332C>T	uc001vpi.3	+	11	1380	c.1277C>T	c.(1276-1278)GCG>GTG	p.A426V		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	426					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGTATCAGTGCGCCAGGAGGA	0.483													15	40					0	0	0.003163	0	0		T	103286332	T	T	103286332	3	4	4	1	0	0	0	0	1	0	0	0	16438	768	27	1	1319	1	TPP2	13	103286332	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	717520	103286332	11883546	3060	5026											
KDELC1	79070	broad.mit.edu	37	chr13	103445716	103445716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tagtcaaagaaagtagtatgGcatccatgaaaattctaaaa	19	10	7	5	0	2	2	1	1	1	1	3	2	3	2	1	1	0	3	1	1	9	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:103445716G>A	uc001vpq.3	-	4	1031	c.647C>T	c.(646-648)GCC>GTC	p.A216V	KDELC1_uc001vpr.3_5'UTR	NM_024089	NP_076994	Q6UW63	KDEL1_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 1 precursor	216						endoplasmic reticulum lumen				ovary(1)	1	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AAGTAGTATGGCATCCATGAA	0.299													16	60					0	0	0.008871	0	0		A	103445716	A	A	103445716	3	1	4	1	0	0	0	0	1	0	0	0	8133	1203	42	2	889	2	KDELC1	13	103445716	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	159384	103445716	11724162	3061	5027											
MYO16	23026	broad.mit.edu	37	chr13	109792683	109792683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctcctcgaaagcccaagCgcagccccaacaccaagctc	11	5	6	19	2	0	0	0	0	0	0	4	1	2	0	6	0	5	2	6	0	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:109792683C>T	uc001vqt.1	+	32	4183	c.4057C>T	c.(4057-4059)CGC>TGC	p.R1353C	MYO16_uc010agk.1_Missense_Mutation_p.R1375C	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1353					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			AAAGCCCAAGCGCAGCCCCAA	0.512													4	19					0	0	0.001168	0	0		T	109792683	T	T	109792683	3	4	4	1	0	0	0	0	1	0	0	0	10082	768	27	1	4179	1	MYO16	13	109792683	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6346967	109792683	5377195	3062	5028											
COL4A1	1282	broad.mit.edu	37	chr13	110827668	110827668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccaggtgaaccttgtgggCcagggatgccaggcacacct	9	6	14	12	0	0	1	0	1	0	0	0	2	0	2	5	4	3	1	5	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:110827668C>T	uc001vqw.3	-	37	3217	c.3095G>A	c.(3094-3096)GGC>GAC	p.G1032D	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1032	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			ACCTTGTGGGCCAGGGATGCC	0.502													11	29					0	0	0.00245	0	0		T	110827668	T	T	110827668	3	4	4	1	0	0	0	0	1	0	0	0	3692	739	26	2	1978	2	COL4A1	13	110827668	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1034985	110827668	4342210	3063	5029											
COL4A1	1282	broad.mit.edu	37	chr13	110839556	110839556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgctctccctgtcatgcCgggctgtcctggaaagcctg	5	9	11	16	2	2	0	1	0	1	0	4	1	3	1	5	2	2	2	5	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:110839556C>T	uc001vqw.3	-	25	1779	c.1657G>A	c.(1657-1659)GGC>AGC	p.G553S	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	553	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CCTGTCATGCCGGGCTGTCCT	0.582													15	34					0	0	0.004007	0	0		T	110839556	T	T	110839556	3	4	4	1	0	0	0	0	1	0	0	0	3692	652	23	1	3464	1	COL4A1	13	110839556	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	11888	110839556	4330322	3064	5030											
COL4A1	1282	broad.mit.edu	37	chr13	110859767	110859767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttttctcccttggtggCgaagtctcctttttcttgaa	5	18	7	11	1	3	1	0	1	3	0	5	2	3	1	3	2	1	0	3	2	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:110859767C>T	uc001vqw.3	-	13	885	c.763G>A	c.(763-765)GCC>ACC	p.A255T	COL4A1_uc010agl.2_Missense_Mutation_p.A255T	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	255	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CCCTTGGTGGCGAAGTCTCCT	0.413													7	61					0	0	0.004482	0	0		T	110859767	T	T	110859767	3	4	4	1	0	0	0	0	1	0	0	0	3692	768	27	1	4406	1	COL4A1	13	110859767	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20211	110859767	4310111	3065	5031											
COL4A2	1284	broad.mit.edu	37	chr13	111130478	111130478	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagctcctggccaagaggggCccttggggctgccaggaatc	7	6	16	12	0	0	1	0	0	0	1	2	3	1	2	4	6	2	2	4	6	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:111130478C>T	uc001vqx.2	+	30	2843	c.2554C>T	c.(2554-2556)CCC>TCC	p.P852S		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	852	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			CCAAGAGGGGCCCTTGGGGCT	0.642													5	16					0	0	0.000602	0	0		T	111130478	T	T	111130478	3	4	4	1	0	0	0	0	1	0	0	0	3693	739	26	2	2668	2	COL4A2	13	111130478	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	270711	111130478	4039400	3066	5032											
CARS2	79587	broad.mit.edu	37	chr13	111319736	111319736	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgcactgatgaaagacttcGcactgtgcaatttcgttttc	9	14	8	10	3	0	3	0	2	0	1	4	3	0	3	0	0	1	4	0	0	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:111319736G>A	uc001vrd.2	-	8	910	c.870C>T	c.(868-870)TGC>TGT	p.C290C	CARS2_uc010tjm.1_RNA	NM_024537	NP_078813	Q9HA77	SYCM_HUMAN	cysteinyl-tRNA synthetase 2, mitochondrial	290					cysteinyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|cysteine-tRNA ligase activity|metal ion binding				0	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.163)		L-Cysteine(DB00151)	GAAAGACTTCGCACTGTGCAA	0.388													7	80					0	0	0.00308	0	0		A	111319736	A	A	111319736	2	1	4	1	0	0	0	0	0	0	0	1	2661	1079	38	1		1	CARS2	13	111319736	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	189258	111319736	3850142	3067	5033											
PROZ	8858	broad.mit.edu	37	chr13	113826043	113826043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccatccagtgcccaggtgCggggctccccgtgtgcaccc	4	6	13	18	2	0	0	0	0	0	0	2	0	2	0	6	3	3	2	6	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:113826043C>T	uc001vta.1	+	8	834	c.827C>T	c.(826-828)GCG>GTG	p.A276V	PROZ_uc010agr.1_Missense_Mutation_p.A298V	NM_003891	NP_003882	P22891	PROZ_HUMAN	protein Z, vitamin K-dependent plasma	276	Peptidase S1.				blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.216)	all cancers(43;0.104)		Menadione(DB00170)	TGCCCAGGTGCGGGGCTCCCC	0.642													8	33					0	0	0.006214	0	0		T	113826043	T	T	113826043	3	4	4	1	0	0	0	0	1	0	0	0	12584	768	27	1	857	1	PROZ	13	113826043	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2506307	113826043	1343835	3068	5034											
PCID2	55795	broad.mit.edu	37	chr13	113850537	113850537	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatgctcgcaagaatgatGtactgtattaaggaagatat	15	11	11	4	1	0	3	0	1	0	2	1	5	0	5	0	2	2	4	0	2	8	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:113850537G>A	uc010tju.1	-	5	349	c.268_splice	c.e5-1	p.S90_splice	PCID2_uc010tjv.1_Splice_Site_p.S90_splice|PCID2_uc010tjw.1_Splice_Site_p.Q89_splice|PCID2_uc001vte.2_5'UTR|PCID2_uc001vtd.2_5'UTR|PCID2_uc001vtf.2_5'UTR	NM_001127203	NP_001120675	Q5JVF3	PCID2_HUMAN	PCI domain containing 2						negative regulation of apoptosis|negative regulation of cysteine-type endopeptidase activity|positive regulation of mitotic cell cycle spindle assembly checkpoint|positive regulation of transcription, DNA-dependent|regulation of mRNA stability|spleen development		protein binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.216)|all_epithelial(44;0.234)	all cancers(43;0.104)			CAAGAATGATGTACTGTATTA	0.338													5	99					0	0	0.000602	0	0		A	113850537	A	A	113850537	5	1	4	1	0	0	0	0	0	0	1	0	11598	1392	48	4		4	PCID2	13	113850537	Splice_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	24494	113850537	1319341	3069	5035											
LAMP1	3916	broad.mit.edu	37	chr13	113975905	113975905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctgccaacggctccctgcGagcgctgcaggccacagtcg	7	5	13	16	4	0	0	0	0	0	0	2	1	1	0	3	2	6	4	3	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:113975905G>A	uc001vtm.1	+	8	1258	c.977G>A	c.(976-978)CGA>CAA	p.R326Q	LAMP1_uc010tka.1_Missense_Mutation_p.R273Q	NM_005561	NP_005552	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	326	Lumenal (Potential).|Second lumenal domain.					endosome membrane|integral to plasma membrane|lysosomal membrane|membrane fraction				central_nervous_system(2)	2	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			GGCTCCCTGCGAGCGCTGCAG	0.493													9	27					0	0	0.008291	0	0		A	113975905	A	A	113975905	3	1	4	1	0	0	0	0	1	0	0	0	8633	1058	37	1	1007	1	LAMP1	13	113975905	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	125368	113975905	1193973	3070	5036											
GAS6	2621	broad.mit.edu	37	chr13	114526405	114526405	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgccacagagagaggcacGgcacggaggtcgggggccca	10	2	18	11	3	0	2	0	0	0	2	1	4	0	3	2	6	1	2	2	6	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:114526405G>A	uc001vud.2	-	13	1749	c.1596C>T	c.(1594-1596)GCC>GCT	p.A532A	GAS6_uc001vug.2_Silent_p.A233A|GAS6_uc001vuf.2_Silent_p.A259A	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	575	Laminin G-like 2.				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				AGAGAGGCACGGCACGGAGGT	0.627													14	28					0	0	0.001855	0	0		A	114526405	A	A	114526405	2	1	4	1	0	0	0	0	0	0	0	1	6264	1103	39	1		1	GAS6	13	114526405	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	550500	114526405	643473	3071	5037											
OR4K5	79317	broad.mit.edu	37	chr14	20388997	20388997	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtcaggcttcttttgctAcccctaaaatgattgcagat	9	16	7	9	0	2	2	1	1	1	1	2	2	2	2	2	1	3	3	2	1	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20388997A>G	uc010tkw.1	+	1	232	c.232A>G	c.(232-234)ACC>GCC	p.T78A		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	78	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TTCTTTTGCTACCCCTAAAAT	0.428													5	444					0	0	0.001168	0	0		G	20388997	G	G	20388997	3	3	4	1	0	0	0	0	1	0	0	0	11092	391	14	3	234	3	OR4K5	14	20388997	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08		20388997	86960543	3072	5038											
OR4K1	79544	broad.mit.edu	37	chr14	20404274	20404274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtgtctatttcctgggCggtgggcgttcttcattctg	2	19	12	8	2	4	0	1	0	3	0	5	0	5	0	1	3	0	1	1	3	1	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20404274C>T	uc001vwj.1	+	1	449	c.449C>T	c.(448-450)GCG>GTG	p.A150V		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		ATTTCCTGGGCGGTGGGCGTT	0.463													12	147					0	0	0.000978	0	0		T	20404274	T	T	20404274	3	4	4	1	0	0	0	0	1	0	0	0	11086	768	27	1	451	1	OR4K1	14	20404274	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	15277	20404274	86945266	3073	5039											
OR4K1	79544	broad.mit.edu	37	chr14	20404350	20404350	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggtcccaatgaggtggaTagcttcttttgtgaccttcc	6	15	11	9	0	1	2	0	2	1	0	3	3	3	3	3	3	1	1	3	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20404350T>C	uc001vwj.1	+	1	525	c.525T>C	c.(523-525)GAT>GAC	p.D175D		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		ATGAGGTGGATAGCTTCTTTT	0.453													27	142					0	0	0.002836	0	0		C	20404350	C	C	20404350	2	2	4	1	0	0	0	0	0	0	0	1	11086	1403	49	3		3	OR4K1	14	20404350	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	76	20404350	86945190	3074	5040											
TTC5	91875	broad.mit.edu	37	chr14	20763639	20763639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggcctagatgggctgggCgcaagcttcccagcatgctc	8	7	14	12	1	0	1	0	0	0	1	2	1	1	1	2	3	3	5	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20763639C>T	uc001vwt.2	-	8	947	c.890G>A	c.(889-891)CGC>CAC	p.R297H	TTC5_uc001vwu.2_Missense_Mutation_p.R154H	NM_138376	NP_612385	Q8N0Z6	TTC5_HUMAN	tetratricopeptide repeat domain 5	297					DNA repair	cytoplasm|nucleus	binding			ovary(1)	1	all_cancers(95;0.00092)		Epithelial(56;1.1e-06)|all cancers(55;8.07e-06)	GBM - Glioblastoma multiforme(265;0.0106)		ATGGGCTGGGCGCAAGCTTCC	0.547													10	21					0	0	0.00245	0	0		T	20763639	T	T	20763639	3	4	4	1	0	0	0	0	1	0	0	0	16737	768	27	1	444	1	TTC5	14	20763639	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	359289	20763639	86585901	3075	5041											
CCNB1IP1	57820	broad.mit.edu	37	chr14	20784573	20784573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcgactaaactcaccactgCcatgctgatcacagaagatg	14	7	8	12	1	2	3	2	1	0	2	2	4	2	3	2	0	4	1	2	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20784573C>T	uc001vwv.2	-	5	759	c.110G>A	c.(109-111)GGC>GAC	p.G37D	CCNB1IP1_uc001vww.2_Missense_Mutation_p.G37D|CCNB1IP1_uc001vwx.2_Missense_Mutation_p.G37D|CCNB1IP1_uc001vwy.2_Missense_Mutation_p.G37D|CCNB1IP1_uc001vwz.2_Missense_Mutation_p.G37D|CCNB1IP1_uc010ahh.1_RNA	NM_182851	NP_878271	Q9NPC3	CIP1_HUMAN	cyclin B1 interacting protein 1 isoform 3	37	RING-type; atypical.					chromosome|nucleus	ligase activity|metal ion binding|protein binding		HMGA2/CCNB1IP1(2)	soft_tissue(2)|ovary(1)	3	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;8.86e-07)|all cancers(55;4.98e-06)	GBM - Glioblastoma multiforme(265;0.0164)		CTCACCACTGCCATGCTGATC	0.483			T	HMGA2	leiomyoma								7	45					0	0	0.00308	0	0		T	20784573	T	T	20784573	3	4	4	1	0	0	0	0	1	0	0	0	2915	739	26	2	735	2	CCNB1IP1	14	20784573	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	20934	20784573	86564967	3076	5042											
TEP1	7011	broad.mit.edu	37	chr14	20836631	20836631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtacacattgccctgcaCgtctcccacggcaagctgca	11	7	8	15	2	1	0	0	0	1	0	2	0	1	0	2	1	5	5	2	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20836631C>T	uc001vxe.2	-	55	7889	c.7849G>A	c.(7849-7851)GTG>ATG	p.V2617M	TEP1_uc010ahj.1_RNA|TEP1_uc010ahk.2_3'UTR|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.V2509M	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	2617	WD 21.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		TTGCCCTGCACGTCTCCCACG	0.547													21	44					0	0	0.002299	0	0		T	20836631	T	T	20836631	3	4	4	1	0	0	0	0	1	0	0	0	15784	536	19	1	38	1	TEP1	14	20836631	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	52058	20836631	86512909	3077	5043											
TEP1	7011	broad.mit.edu	37	chr14	20853143	20853143	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctgcaggcaacagacagtaCctgaggaagctggaatcccg	12	5	12	12	1	0	2	0	1	0	1	1	4	1	4	3	3	4	4	3	3	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20853143C>T	uc001vxe.2	-	21	3147	c.3107_splice	c.e21+1	p.S1036_splice	TEP1_uc010ahk.2_Splice_Site_p.S386_splice|TEP1_uc010tlf.1_Splice_Site|TEP1_uc010tlg.1_Splice_Site_p.S928_splice|TEP1_uc010tlh.1_5'Flank	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1						telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		ACAGACAGTACCTGAGGAAGC	0.552													7	22					0	0	0.00308	0	0		T	20853143	T	T	20853143	5	4	4	1	0	0	0	0	0	0	1	0	15784	521	18	4	4915	4	TEP1	14	20853143	Splice_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	16512	20853143	86496397	3078	5044											
RNASE4	6038	broad.mit.edu	37	chr14	21167643	21167643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtaccagcgattcctgcGgcaacacgtgcaccctgagg	9	7	11	14	3	0	1	0	1	0	0	1	2	1	1	3	2	5	3	3	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:21167643G>A	uc001vxy.3	+	2	676	c.113G>A	c.(112-114)CGG>CAG	p.R38Q	RNASE4_uc001vxx.3_RNA|RNASE4_uc001vya.2_Missense_Mutation_p.R38Q	NM_002937	NP_002928	P34096	RNAS4_HUMAN	ribonuclease, RNase A family, 4 precursor	38		Substrate.			mRNA cleavage	extracellular region	nucleic acid binding|pancreatic ribonuclease activity			central_nervous_system(1)	1	all_cancers(95;0.00304)		Epithelial(56;5.13e-07)|all cancers(55;4.73e-06)	GBM - Glioblastoma multiforme(265;0.0133)		CGATTCCTGCGGCAACACGTG	0.557													5	61					0	0	0.000602	0	0		A	21167643	A	A	21167643	3	1	4	1	0	0	0	0	1	0	0	0	13431	1116	39	1	115	1	RNASE4	14	21167643	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	314500	21167643	86181897	3079	5045											
HNRNPC	3183	broad.mit.edu	37	chr14	21702318	21702318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacacgggagttcatggagCgaggatctgtcttgttggta	9	12	14	6	2	3	0	1	0	2	0	3	4	3	3	0	4	2	3	0	4	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:21702318C>T	uc001vzy.2	-	3	279	c.35G>A	c.(34-36)CGC>CAC	p.R12H	HNRNPC_uc001vzw.2_Missense_Mutation_p.R12H|HNRNPC_uc001wad.2_Missense_Mutation_p.R12H|HNRNPC_uc001vzx.2_RNA|HNRNPC_uc001vzz.2_Missense_Mutation_p.R12H|HNRNPC_uc001waa.2_Missense_Mutation_p.R12H|HNRNPC_uc010ail.2_Missense_Mutation_p.R12H|HNRNPC_uc010tlq.1_RNA|HNRNPC_uc001wab.2_Missense_Mutation_p.R12H|HNRNPC_uc001wac.2_Missense_Mutation_p.R12H|HNRNPC_uc001waf.2_Missense_Mutation_p.R12H|HNRNPC_uc001wae.2_Missense_Mutation_p.R12H	NM_031314	NP_112604	P07910	HNRPC_HUMAN	heterogeneous nuclear ribonucleoprotein C	12						catalytic step 2 spliceosome|nucleoplasm	identical protein binding|nucleotide binding|RNA binding				0	all_cancers(95;0.00176)		Epithelial(56;1.08e-06)|all cancers(55;8.95e-06)	GBM - Glioblastoma multiforme(265;0.00783)		GTTCATGGAGCGAGGATCTGT	0.428													28	58					0	0	0.00632	0	0		T	21702318	T	T	21702318	3	4	4	1	0	0	0	0	1	0	0	0	7278	768	27	1	913	1	HNRNPC	14	21702318	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	534675	21702318	85647222	3080	5046											
CHD8	57680	broad.mit.edu	37	chr14	21873401	21873401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggtggttgcagcacttgcGcaactccatcattgtgttaa	8	13	11	9	1	1	0	1	0	0	0	2	0	2	0	1	2	4	5	1	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:21873401G>A	uc001was.1	-	16	2531	c.2437C>T	c.(2437-2439)CGC>TGC	p.R813C	CHD8_uc001war.1_Missense_Mutation_p.R709C|CHD8_uc001wav.1_Missense_Mutation_p.R255C	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	1092					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		CAGCACTTGCGCAACTCCATC	0.433													10	21					0	0	0.001368	0	0		A	21873401	A	A	21873401	3	1	4	1	0	0	0	0	1	0	0	0	3334	1087	38	1	4563	1	CHD8	14	21873401	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	171083	21873401	85476139	3081	5047											
OR10G3	26533	broad.mit.edu	37	chr14	22038134	22038134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatagtacacggtgaccaCggttacatgggctccacaag	12	7	10	12	2	0	1	0	1	0	0	1	1	1	1	2	3	2	3	2	3	4	3	rs142649226	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:22038134C>T	uc010tmb.1	-	1	742	c.742G>A	c.(742-744)GTG>ATG	p.V248M		NM_001005465	NP_001005465	Q8NGC4	O10G3_HUMAN	olfactory receptor, family 10, subfamily G,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|central_nervous_system(1)	2	all_cancers(95;0.000987)			GBM - Glioblastoma multiforme(265;0.0139)		ACGGTGACCACGGTTACATGG	0.577													28	68					0	0	0.00632	0	0		T	22038134	T	T	22038134	3	4	4	1	0	0	0	0	1	0	0	0	10919	536	19	1	202	1	OR10G3	14	22038134	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	164733	22038134	85311406	3082	5048											
HAUS4	54930	broad.mit.edu	37	chr14	23416833	23416833	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcttaaggatcatagcaccGcacttgacttccaggtactg	11	10	9	11	1	1	1	1	1	0	0	2	2	2	2	2	2	3	4	2	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:23416833G>A	uc001whp.2	-	7	847	c.816C>T	c.(814-816)TGC>TGT	p.C272C	HAUS4_uc001who.2_RNA|HAUS4_uc001whq.2_Silent_p.C146C|HAUS4_uc001whr.2_Silent_p.C272C|HAUS4_uc001whs.2_Silent_p.C227C|HAUS4_uc001wht.2_Silent_p.C272C|HAUS4_uc001whu.2_Silent_p.C227C|HAUS4_uc001whv.2_Silent_p.C148C|HAUS4_uc001whw.2_Silent_p.C272C|HAUS4_uc001whx.2_Silent_p.C227C	NM_017815	NP_060285	Q9H6D7	HAUS4_HUMAN	HAUS augmin-like complex, subunit 4	272					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				ovary(1)	1						TCATAGCACCGCACTTGACTT	0.512													21	63					0	0	0.001882	0	0		A	23416833	A	A	23416833	2	1	4	1	0	0	0	0	0	0	0	1	6984	1079	38	1		1	HAUS4	14	23416833	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1378699	23416833	83932707	3083	5049											
IL25	64806	broad.mit.edu	37	chr14	23845030	23845030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaagggctactgcctggagCgcaggctgtaccgtgtttcc	7	9	13	12	2	0	0	0	0	0	0	1	1	1	1	3	3	4	5	3	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:23845030C>T	uc001wjr.2	+	2	785	c.475C>T	c.(475-477)CGC>TGC	p.R159C	IL25_uc001wjq.2_Missense_Mutation_p.R143C|CMTM5_uc001wjs.2_5'Flank|CMTM5_uc001wjt.2_5'Flank|CMTM5_uc010akm.2_5'Flank|CMTM5_uc010akn.2_5'Flank|CMTM5_uc001wju.2_5'Flank|CMTM5_uc010ako.2_5'Flank	NM_022789	NP_073626	Q9H293	IL25_HUMAN	interleukin 25 isoform 1 precursor	159					inflammatory response	extracellular space|membrane	cytokine activity|interleukin-17E receptor binding			ovary(1)	1	all_cancers(95;2e-05)			GBM - Glioblastoma multiforme(265;0.00665)|READ - Rectum adenocarcinoma(4;0.0276)|Colorectal(4;0.0396)		CTGCCTGGAGCGCAGGCTGTA	0.627													11	33					0	0	0.008291	0	0		T	23845030	T	T	23845030	3	4	4	1	0	0	0	0	1	0	0	0	7694	768	27	1	494	1	IL25	14	23845030	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	428197	23845030	83504510	3084	5050											
MYH6	4624	broad.mit.edu	37	chr14	23862233	23862233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctcgctccaggtccatgcGcaccttcttctcttgctcta	4	14	7	16	2	3	0	0	0	3	0	7	0	5	0	3	1	3	4	3	1	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:23862233G>A	uc001wjv.2	-	24	3206	c.3139C>T	c.(3139-3141)CGC>TGC	p.R1047C		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1047	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		AGGTCCATGCGCACCTTCTTC	0.498													7	66					0	0	0.004482	0	0		A	23862233	A	A	23862233	3	1	4	1	0	0	0	0	1	0	0	0	10056	1087	38	1	2744	1	MYH6	14	23862233	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	17203	23862233	83487307	3085	5051											
MYH7	4625	broad.mit.edu	37	chr14	23886441	23886441	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgttcttgagtttgaagagCtctgtgctgagggagcgagc	7	11	16	7	2	2	4	0	3	2	1	2	6	2	5	0	1	4	4	0	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:23886441C>A	uc001wjx.2	-	32	4546	c.4440G>T	c.(4438-4440)GAG>GAT	p.E1480D		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1480	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		GTTTGAAGAGCTCTGTGCTGA	0.587													6	104					1.06961e-07	1.14085e-07	0.00308	1	0		A	23886441	A	A	23886441	3	1	4	1	0	0	0	0	1	0	0	0	10057	796	28	5	1403	5	MYH7	14	23886441	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24208	23886441	83463099	3086	5052											
DHRS4L2	317749	broad.mit.edu	37	chr14	24470629	24470629	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtcagtaaaacagccttgCtgggcctcaacaataccctg	12	9	8	12	0	2	0	2	0	0	0	2	0	2	0	3	1	5	2	3	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24470629C>T	uc001wli.3	+	6	698	c.568C>T	c.(568-570)CTG>TTG	p.L190L	DHRS4_uc001wlc.3_Intron|DHRS4L2_uc001wld.3_Intron|DHRS4L2_uc001wle.3_Intron|DHRS4L2_uc001wlg.3_Intron|DHRS4L2_uc001wlh.3_Intron|DHRS4L2_uc010tnt.1_Silent_p.L113L|DHRS4L2_uc010alb.2_Silent_p.L64L	NM_198083	NP_932349	D5KJA1	D5KJA1_HUMAN	dehydrogenase/reductase (SDR family) member 4	128							binding|oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00962)		AACAGCCTTGCTGGGCCTCAA	0.473													49	122					0	0	0.00361	0	0		T	24470629	T	T	24470629	2	4	4	1	0	0	0	0	0	0	0	1	4500	796	28	2		2	DHRS4L2	14	24470629	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	584188	24470629	82878911	3087	5053											
PCK2	5106	broad.mit.edu	37	chr14	24572751	24572751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcacgacccatttgccatgCggcccttttttggctacaac	7	12	8	14	2	0	0	0	0	0	0	0	1	0	0	3	2	5	2	3	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24572751C>T	uc001wlt.2	+	10	1633	c.1501C>T	c.(1501-1503)CGG>TGG	p.R501W	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Intron|PCK2_uc010tnw.1_Missense_Mutation_p.R367W|PCK2_uc010tnx.1_Missense_Mutation_p.R367W|PCK2_uc001wlu.3_Missense_Mutation_p.R335W	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	501					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		ATTTGCCATGCGGCCCTTTTT	0.577													20	45					0	0	0.003954	0	0		T	24572751	T	T	24572751	3	4	4	1	0	0	0	0	1	0	0	0	11601	759	27	1	1631	1	PCK2	14	24572751	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	102122	24572751	82776789	3088	5054											
RNF31	55072	broad.mit.edu	37	chr14	24618731	24618731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccatggacacccatccCgtgctcatcacctccgccag	7	9	7	18	2	2	0	2	0	0	0	5	1	5	1	6	1	1	2	6	1	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24618731C>T	uc001wmn.1	+	6	997	c.748C>T	c.(748-750)CGT>TGT	p.R250C	PSME2_uc001wmj.2_5'Flank|PSME2_uc001wmk.2_5'Flank|RNF31_uc001wml.1_Missense_Mutation_p.R99C|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_Missense_Mutation_p.R65C|RNF31_uc001wmo.1_5'Flank|RNF31_uc001wmp.2_5'Flank	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	250	Polyubiquitin-binding.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		ACACCCATCCCGTGCTCATCA	0.607													17	52					0	0	0.002299	0	0		T	24618731	T	T	24618731	3	4	4	1	0	0	0	0	1	0	0	0	13512	652	23	1	770	1	RNF31	14	24618731	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	45980	24618731	82730809	3089	5055											
RNF31	55072	broad.mit.edu	37	chr14	24620776	24620776	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacggaggtgatgtgtcacGggccctgactgagctacagc	8	7	15	11	2	1	3	1	3	0	0	1	4	1	4	1	3	3	2	1	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24620776G>A	uc001wmn.1	+	10	2069	c.1820G>A	c.(1819-1821)CGG>CAG	p.R607Q	RNF31_uc001wml.1_Missense_Mutation_p.R456Q|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_Missense_Mutation_p.R366Q|RNF31_uc001wmo.1_Missense_Mutation_p.R74Q|RNF31_uc001wmp.2_RNA	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	607	Interaction with RBCK1.|UBA.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		GATGTGTCACGGGCCCTGACT	0.642													10	24					0	0	0.006214	0	0		A	24620776	A	A	24620776	3	1	4	1	0	0	0	0	1	0	0	0	13512	1116	39	1	1858	1	RNF31	14	24620776	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2045	24620776	82728764	3090	5056											
REC8	9985	broad.mit.edu	37	chr14	24642219	24642219	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagatcggtgtgatccgCgtctattctcaacaatgcca	9	12	8	12	3	3	2	2	1	2	1	6	2	4	2	2	1	2	0	2	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24642219C>T	uc001wmr.2	+	4	664	c.237C>T	c.(235-237)CGC>CGT	p.R79R	REC8_uc001wms.2_Silent_p.R79R	NM_005132	NP_005123	O95072	REC8_HUMAN	REC8 homolog	79					mitotic metaphase/anaphase transition|mitotic prometaphase|reciprocal meiotic recombination|sister chromatid cohesion	nucleoplasm					0				GBM - Glioblastoma multiforme(265;0.00839)		GTGTGATCCGCGTCTATTCTC	0.602													22	62					0	0	0.003954	0	0		T	24642219	T	T	24642219	2	4	4	1	0	0	0	0	0	0	0	1	13224	755	27	1		1	REC8	14	24642219	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	21443	24642219	82707321	3091	5057											
IPO4	79711	broad.mit.edu	37	chr14	24654160	24654160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagcatgcattccataagctCcggaaggtagggctgcacct	10	8	11	12	1	0	0	0	0	0	0	2	1	2	1	3	3	4	6	3	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24654160C>T	uc001wmv.1	-	15	1566	c.1435G>A	c.(1435-1437)GAG>AAG	p.E479K	IPO4_uc001wmt.1_5'Flank|IPO4_uc001wmu.2_Missense_Mutation_p.E141K|IPO4_uc001wmx.1_Missense_Mutation_p.E343K|IPO4_uc001wmy.1_Missense_Mutation_p.E343K|IPO4_uc010tnz.1_RNA|IPO4_uc001wmw.1_RNA|IPO4_uc001wmz.1_Missense_Mutation_p.E479K	NM_024658	NP_078934	Q8TEX9	IPO4_HUMAN	importin 4	479	HEAT 4.				intracellular protein transport	cytoplasm|nucleus	protein binding|protein transporter activity			kidney(1)	1				GBM - Glioblastoma multiforme(265;0.0087)		TCCATAAGCTCCGGAAGGTAG	0.627													3	21					0	0	0.000602	0	0		T	24654160	T	T	24654160	3	4	4	1	0	0	0	0	1	0	0	0	7811	864	30	4	1874	4	IPO4	14	24654160	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	11941	24654160	82695380	3092	5058											
TM9SF1	10548	broad.mit.edu	37	chr14	24679618	24679618	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagggttcttcttccttGtcgcccacatttaacaactc	8	14	6	13	1	2	1	0	1	2	0	5	1	3	1	2	1	2	1	2	1	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24679618G>A	uc010tob.1	-	5	1258	c.624C>T	c.(622-624)GAC>GAT	p.D208D	CHMP4A_uc001wni.2_Silent_p.D225D|CHMP4A_uc010toc.1_RNA|CHMP4A_uc001wnj.2_Silent_p.D225D	NM_006405	NP_006396	O15321	TM9S1_HUMAN	transmembrane 9 superfamily member 1 isoform a	Error:Variant_position_missing_in_O15321_after_alignment					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0183)		CTTCTTCCTTGTCGCCCACAT	0.507													8	197					0	0	0.004482	0	0		A	24679618	A	A	24679618	2	1	4	1	0	0	0	0	0	0	0	1	16002	1368	48	4		4	TM9SF1	14	24679618	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	25458	24679618	82669922	3093	5059											
ADCY4	196883	broad.mit.edu	37	chr14	24791279	24791279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcaggagtcacctcgttgCgccggttctggccaatgaac	7	9	13	12	3	3	1	2	1	1	0	4	2	3	2	3	4	2	2	3	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24791279C>T	uc001wov.2	-	20	2585	c.2579G>A	c.(2578-2580)CGC>CAC	p.R860H	ADCY4_uc001wow.2_Missense_Mutation_p.R860H|ADCY4_uc010toh.1_Missense_Mutation_p.R546H|ADCY4_uc001wox.2_Missense_Mutation_p.R860H|ADCY4_uc001woy.2_Missense_Mutation_p.R860H	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	860	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		CACCTCGTTGCGCCGGTTCTG	0.582													21	40					0	0	0.004656	0	0		T	24791279	T	T	24791279	3	4	4	1	0	0	0	0	1	0	0	0	296	768	27	1	678	1	ADCY4	14	24791279	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	111661	24791279	82558261	3094	5060											
KHNYN	23351	broad.mit.edu	37	chr14	24900835	24900835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggctcactgatgatcagtgGcctgactgaagcctttgtca	9	11	11	10	0	3	4	3	4	0	0	3	4	3	4	2	2	1	1	2	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24900835G>A	uc001wph.3	+	3	570	c.368G>A	c.(367-369)GGC>GAC	p.G123D	KHNYN_uc010tpc.1_Missense_Mutation_p.G164D|KHNYN_uc010alw.2_Missense_Mutation_p.G123D|CBLN3_uc001wpg.3_5'Flank	NM_015299	NP_056114	O15037	KHNYN_HUMAN	hypothetical protein LOC23351	123										ovary(2)|liver(1)	3						ATGATCAGTGGCCTGACTGAA	0.617											OREG0022627	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	29					0	0	0.004482	0	0		A	24900835	A	A	24900835	3	1	4	1	0	0	0	0	1	0	0	0	8166	1203	42	2	374	2	KHNYN	14	24900835	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	109556	24900835	82448705	3095	5061											
HECTD1	25831	broad.mit.edu	37	chr14	31604296	31604296	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatttaaagctgaattatcAcgacttagtatgtcttctaa	14	15	5	7	1	3	1	1	1	2	0	3	2	3	1	0	0	1	2	0	0	8	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:31604296A>G	uc001wrc.1	-	22	3849	c.3360T>C	c.(3358-3360)CGT>CGC	p.R1120R	HECTD1_uc001wrd.1_Silent_p.R635R	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1120					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		CTGAATTATCACGACTTAGTA	0.408													39	111					0	0	0.006999	0	0		G	31604296	G	G	31604296	2	3	4	1	0	0	0	0	0	0	0	1	7055	146	6	3		3	HECTD1	14	31604296	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	6703461	31604296	75745244	3096	5062											
BAZ1A	11177	broad.mit.edu	37	chr14	35240741	35240741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagctttcagaaaacgccGctcaatgccctgctctattt	9	12	8	12	2	3	1	2	0	1	1	3	2	3	2	2	1	4	3	2	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:35240741G>A	uc001wsk.2	-	21	3845	c.3277C>T	c.(3277-3279)CGG>TGG	p.R1093W	BAZ1A_uc001wsl.2_Missense_Mutation_p.R1061W	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1093					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		AGAAAACGCCGCTCAATGCCC	0.368													20	220					0	0	0.00278	0	0		A	35240741	A	A	35240741	3	1	4	1	0	0	0	0	1	0	0	0	1330	1086	38	1	1421	1	BAZ1A	14	35240741	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3636445	35240741	72108799	3097	5063											
KIAA0391	9692	broad.mit.edu	37	chr14	35739649	35739649	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtatgccacactgcactcCgggaatcactgcaggtttat	9	11	9	12	1	1	0	1	0	0	0	2	1	2	1	2	2	3	4	2	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:35739649C>T	uc001wsy.1	+	7	1827	c.1467C>T	c.(1465-1467)TCC>TCT	p.S489S	KIAA0391_uc010tps.1_Silent_p.S394S|KIAA0391_uc001wsz.1_Silent_p.S473S|KIAA0391_uc001wta.2_RNA|KIAA0391_uc001wtb.1_Silent_p.S473S|KIAA0391_uc001wtc.1_Silent_p.S117S	NM_014672	NP_055487	O15091	MRRP3_HUMAN	mitochondrial RNase P protein 3 precursor	489					tRNA processing	mitochondrion					0	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;2.93e-05)|LUAD - Lung adenocarcinoma(48;3.86e-05)|Epithelial(34;0.0114)|all cancers(34;0.0277)	GBM - Glioblastoma multiforme(112;0.0593)		CACTGCACTCCGGGAATCACT	0.527													30	69					0	0	0.008361	0	0		T	35739649	T	T	35739649	2	4	4	1	0	0	0	0	0	0	0	1	8188	639	23	1		1	KIAA0391	14	35739649	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	498908	35739649	71609891	3098	5064											
RALGAPA1	253959	broad.mit.edu	37	chr14	36133925	36133925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagttcacaatataagttggGaaagcaaaccaaagatccca	18	7	7	9	0	1	1	1	0	0	1	2	2	2	2	2	1	2	3	2	1	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:36133925G>A	uc001wti.2	-	26	4124	c.3733C>T	c.(3733-3735)CCC>TCC	p.P1245S	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Missense_Mutation_p.P1245S|RALGAPA1_uc010tpv.1_Missense_Mutation_p.P1258S|RALGAPA1_uc010tpw.1_Missense_Mutation_p.P1292S	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1245					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						TATAAGTTGGGAAAGCAAACC	0.338													5	50					0	0	0.000602	0	0		A	36133925	A	A	36133925	3	1	4	1	0	0	0	0	1	0	0	0	13038	1174	41	4	2590	4	RALGAPA1	14	36133925	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	394276	36133925	71215615	3099	5065											
SSTR1	6751	broad.mit.edu	37	chr14	38678974	38678974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgccactggcccttcggtgCgctgctctgccgcctcgtgc	1	9	13	18	5	1	0	0	0	1	0	3	0	1	0	4	2	4	2	4	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:38678974C>T	uc001wul.1	+	3	997	c.380C>T	c.(379-381)GCG>GTG	p.A127V	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	127	Extracellular (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	CCCTTCGGTGCGCTGCTCTGC	0.592													27	98					0	0	0.009535	0	0		T	38678974	T	T	38678974	3	4	4	1	0	0	0	0	1	0	0	0	15222	768	27	1	382	1	SSTR1	14	38678974	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2545049	38678974	68670566	3100	5066											
SSTR1	6751	broad.mit.edu	37	chr14	38679346	38679346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcatcattgctaagatgcGcatggtggccctcaaggccg	8	9	12	12	2	3	1	3	0	0	1	3	1	3	1	2	3	2	3	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:38679346G>A	uc001wul.1	+	3	1369	c.752G>A	c.(751-753)CGC>CAC	p.R251H	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	251	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	GCTAAGATGCGCATGGTGGCC	0.582													4	40					0	0	0.009096	0	0		A	38679346	A	A	38679346	3	1	4	1	0	0	0	0	1	0	0	0	15222	1087	38	1	754	1	SSTR1	14	38679346	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	372	38679346	68670194	3101	5067											
CLEC14A	161198	broad.mit.edu	37	chr14	38724733	38724733	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcacaggtagccgttggcGcgcaggtggcatcgcatctc	6	9	14	12	4	1	0	0	0	1	0	3	0	1	0	1	4	2	6	1	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:38724733G>A	uc001wum.1	-	1	842	c.495C>T	c.(493-495)CGC>CGT	p.R165R		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	165	Extracellular (Potential).|C-type lectin.					integral to membrane	sugar binding			ovary(3)|skin(1)	4	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00439)		AGCCGTTGGCGCGCAGGTGGC	0.577													5	18					0	0	0.004482	0	0		A	38724733	A	A	38724733	2	1	4	1	0	0	0	0	0	0	0	1	3502	1074	38	1		1	CLEC14A	14	38724733	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	45387	38724733	68624807	3102	5068											
SIP1	8487	broad.mit.edu	37	chr14	39591696	39591696	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaaagttatgtgctgaCggggctgttggaccagccac	9	9	15	8	1	0	2	0	2	0	0	0	3	0	3	2	4	2	4	2	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:39591696C>T	uc001wuq.2	+	5	490	c.468C>T	c.(466-468)GAC>GAT	p.D156D	SIP1_uc001wur.2_Silent_p.D156D|SIP1_uc001wus.2_Silent_p.D156D|SIP1_uc010amx.2_RNA	NM_003616	NP_003607	O14893	GEMI2_HUMAN	SMN-interacting protein 1 isoform alpha	156					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	Cajal body|cytosol|spliceosomal complex	protein binding				0	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0121)		TATGTGCTGACGGGGCTGTTG	0.368													7	39					0	0	0.001984	0	0		T	39591696	T	T	39591696	2	4	4	1	0	0	0	0	0	0	0	1	14352	535	19	1		1	SIP1	14	39591696	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	866963	39591696	67757844	3103	5069											
KLHL28	54813	broad.mit.edu	37	chr14	45400591	45400591	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgattttgatgaggatcGtatctttcaatgctggacaa	11	14	9	7	1	2	3	1	3	1	0	3	5	2	5	0	2	1	2	0	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:45400591G>A	uc001wvq.2	-	4	1743	c.1497C>T	c.(1495-1497)TAC>TAT	p.Y499Y	KLHL28_uc001wvr.2_Silent_p.Y499Y	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	499	Kelch 5.									ovary(1)	1						GATGAGGATCGTATCTTTCAA	0.378													18	45					0	0	0.006122	0	0		A	45400591	A	A	45400591	2	1	4	1	0	0	0	0	0	0	0	1	8398	1140	40	1		1	KLHL28	14	45400591	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5808895	45400591	61948949	3104	5070											
FAM179B	23116	broad.mit.edu	37	chr14	45473399	45473399	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctgtctcatcacctcgaaCtagtccaaagcatacatctc	11	11	4	15	1	3	0	2	0	2	0	8	1	5	0	3	0	3	1	3	0	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:45473399C>G	uc001wvv.2	+	4	2683	c.2474C>G	c.(2473-2475)ACT>AGT	p.T825S	FAM179B_uc001wvw.2_Missense_Mutation_p.T825S|FAM179B_uc010anc.2_RNA|FAM179B_uc001wvu.2_Missense_Mutation_p.T825S	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	825							binding			skin(2)|upper_aerodigestive_tract(1)	3						TCACCTCGAACTAGTCCAAAG	0.393													23	78					0	0	0.002299	0	0		G	45473399	G	G	45473399	3	3	4	1	0	0	0	0	1	0	0	0	5517	565	20	5	2488	5	FAM179B	14	45473399	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	72808	45473399	61876141	3105	5071											
PRPF39	55015	broad.mit.edu	37	chr14	45579902	45579902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaggatgccattaagaatgCcaaatcaaataatgaatctt	17	11	6	7	0	3	2	2	1	1	1	3	3	3	3	2	1	2	0	2	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:45579902C>T	uc001wvz.3	+	10	1624	c.1454C>T	c.(1453-1455)GCC>GTC	p.A485V	PRPF39_uc001wvy.3_Missense_Mutation_p.A364V|PRPF39_uc010and.2_Missense_Mutation_p.A275V|PRPF39_uc001wwa.1_Missense_Mutation_p.A89V|SNORD127_uc010ane.2_5'Flank	NM_017922	NP_060392	Q86UA1	PRP39_HUMAN	PRP39 pre-mRNA processing factor 39 homolog	485					mRNA processing|RNA splicing	nucleus	binding			ovary(1)|breast(1)	2						ATTAAGAATGCCAAATCAAAT	0.378													4	17					0	0	0.000602	0	0		T	45579902	T	T	45579902	3	4	4	1	0	0	0	0	1	0	0	0	12591	739	26	2	1488	2	PRPF39	14	45579902	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	106503	45579902	61769638	3106	5072											
FANCM	57697	broad.mit.edu	37	chr14	45667954	45667954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcctgccaagaagaaaccGcagatttgctaaaggaactg	14	8	10	9	1	0	3	0	0	0	3	1	4	1	4	3	1	4	3	3	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:45667954G>A	uc001wwd.3	+	22	5923	c.5824G>A	c.(5824-5826)GCA>ACA	p.A1942T	FANCM_uc010anf.2_Missense_Mutation_p.A1916T|FANCM_uc001wwe.3_Missense_Mutation_p.A1478T|FANCM_uc010ang.2_Missense_Mutation_p.A1191T	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1942	Interaction with FAAP24 and EME1.				DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						AGAAGAAACCGCAGATTTGCT	0.408								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				15	63					0	0	0.006122	0	0		A	45667954	A	A	45667954	3	1	4	1	0	0	0	0	1	0	0	0	5685	1087	38	1	5910	1	FANCM	14	45667954	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	88052	45667954	61681586	3107	5073											
NIN	51199	broad.mit.edu	37	chr14	51210171	51210171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagctgtgactttaagctcGcactctgatgttcccaggat	8	12	9	12	1	1	2	0	2	1	0	3	3	2	3	2	1	2	4	2	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:51210171G>A	uc001wym.2	-	24	5455	c.5264C>T	c.(5263-5265)GCG>GTG	p.A1755V	NIN_uc001wyi.2_Missense_Mutation_p.A1755V|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.A1042V|NIN_uc010tqp.1_Missense_Mutation_p.A1761V|NIN_uc001wyo.2_Missense_Mutation_p.A1755V	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1755	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CTTTAAGCTCGCACTCTGATG	0.423			T	PDGFRB	MPD								29	30					0	0	0.009535	0	0		A	51210171	A	A	51210171	3	1	4	1	0	0	0	0	1	0	0	0	10436	1087	38	1	1317	1	NIN	14	51210171	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5542217	51210171	56139369	3108	5074											
NIN	51199	broad.mit.edu	37	chr14	51259463	51259463	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggctgggatgtgtgaaggCcgcgcttcttcatccagtgg	5	10	15	11	3	2	1	1	1	1	0	3	2	3	2	3	4	0	2	3	4	1	2	rs146441468		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:51259463C>T	uc001wym.2	-	5	593	c.402G>A	c.(400-402)CGG>CGA	p.R134R	NIN_uc001wyi.2_Silent_p.R134R|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Silent_p.R134R|NIN_uc010tqp.1_Silent_p.R140R|NIN_uc001wyo.2_Silent_p.R134R|NIN_uc001wyp.1_Silent_p.R96R	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	134					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					TGTGTGAAGGCCGCGCTTCTT	0.572			T	PDGFRB	MPD								5	34					0	0	0.001984	0	0		T	51259463	T	T	51259463	2	4	4	1	0	0	0	0	0	0	0	1	10436	726	26	2		2	NIN	14	51259463	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	49292	51259463	56090077	3109	5075											
TRIM9	114088	broad.mit.edu	37	chr14	51448575	51448575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttattgtccacatacattGcccaagctttgtcgtctttt	7	17	7	10	1	1	0	0	0	1	0	3	0	2	0	2	1	3	2	2	1	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:51448575G>A	uc001wyx.3	-	8	2615	c.1850C>T	c.(1849-1851)GCA>GTA	p.A617V	TRIM9_uc001wyy.2_Missense_Mutation_p.A698V	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	617	B30.2/SPRY.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					CACATACATTGCCCAAGCTTT	0.517													10	121					0	0	0.000978	0	0		A	51448575	A	A	51448575	3	1	4	1	0	0	0	0	1	0	0	0	16575	1319	46	2	294	2	TRIM9	14	51448575	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	189112	51448575	55900965	3110	5076											
TRIM9	114088	broad.mit.edu	37	chr14	51560869	51560869	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacatggcccccagagccttGacttcgtggctggagtgttt	6	11	12	12	1	0	2	0	1	0	1	1	3	0	3	3	3	1	2	3	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:51560869G>A	uc001wyx.3	-	1	1554	c.789C>T	c.(787-789)GTC>GTT	p.V263V	TRIM9_uc001wyy.2_Silent_p.V263V|TRIM9_uc001wyz.3_Silent_p.V263V	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	263	B box-type 2.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					CCAGAGCCTTGACTTCGTGGC	0.552													14	56					0	0	0.006122	0	0		A	51560869	A	A	51560869	2	1	4	1	0	0	0	0	0	0	0	1	16575	1277	45	4		4	TRIM9	14	51560869	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	112294	51560869	55788671	3111	5077											
TRIM9	114088	broad.mit.edu	37	chr14	51561103	51561103	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatcgcagtagaagacatcGcactgttcgcacatgacggt	11	8	12	10	4	0	3	0	1	0	2	3	4	0	4	0	2	0	5	0	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:51561103G>A	uc001wyx.3	-	1	1320	c.555C>T	c.(553-555)TGC>TGT	p.C185C	TRIM9_uc001wyy.2_Silent_p.C185C|TRIM9_uc001wyz.3_Silent_p.C185C	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	185	B box-type 1.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					AGAAGACATCGCACTGTTCGC	0.677													4	9					0	0	0.000602	0	0		A	51561103	A	A	51561103	2	1	4	1	0	0	0	0	0	0	0	1	16575	1079	38	1		1	TRIM9	14	51561103	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	234	51561103	55788437	3112	5078											
FRMD6	122786	broad.mit.edu	37	chr14	52169261	52169261	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgggcctcctatgatcaTccacttccgtgtgcagtact	7	14	8	12	1	1	1	1	1	0	0	4	1	4	1	4	1	2	2	4	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:52169261T>A	uc001wzd.2	+	5	611	c.326T>A	c.(325-327)ATC>AAC	p.I109N	FRMD6_uc001wzb.2_Missense_Mutation_p.I101N|FRMD6_uc001wzc.2_Missense_Mutation_p.I101N|FRMD6_uc001wze.2_Missense_Mutation_p.I32N	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	109	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					CCTATGATCATCCACTTCCGT	0.353													27	124					0	0	0.003271	0	0		A	52169261	A	A	52169261	3	1	4	1	0	0	0	0	1	0	0	0	6068	1435	50	5	316	5	FRMD6	14	52169261	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	608158	52169261	55180279	3113	5079											
NID2	22795	broad.mit.edu	37	chr14	52477679	52477679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagagccatccagcagggCgctctctatcttatccagga	9	9	9	14	1	3	1	1	0	2	1	6	2	5	2	3	2	2	2	3	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:52477679C>T	uc001wzo.2	-	18	3871	c.3637G>A	c.(3637-3639)GCC>ACC	p.A1213T	NID2_uc010tqs.1_Missense_Mutation_p.A1165T|NID2_uc010tqt.1_Missense_Mutation_p.A1213T	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	1213	LDL-receptor class B 2.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					TCCAGCAGGGCGCTCTCTATC	0.542													21	68					0	0	0.00333	0	0		T	52477679	T	T	52477679	3	4	4	1	0	0	0	0	1	0	0	0	10434	768	27	1	510	1	NID2	14	52477679	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	308418	52477679	54871861	3114	5080											
TXNDC16	57544	broad.mit.edu	37	chr14	52981604	52981604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttttatacatacccaataCtttccaaaagggcaatttct	13	15	3	10	0	1	0	0	0	1	0	2	0	2	0	2	1	3	1	2	1	8	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:52981604C>T	uc001wzs.2	-	8	1048	c.599G>A	c.(598-600)AGT>AAT	p.S200N	TXNDC16_uc010tqu.1_Missense_Mutation_p.S195N|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	200					cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					ATACCCAATACTTTCCAAAAG	0.358													42	137					0	0	0.00361	0	0		T	52981604	T	T	52981604	3	4	4	1	0	0	0	0	1	0	0	0	16821	565	20	4	1934	4	TXNDC16	14	52981604	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	503925	52981604	54367936	3115	5081											
DDHD1	80821	broad.mit.edu	37	chr14	53525293	53525293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttcctgggcggatgccacGcaacgccaagaaaactgcta	12	7	10	12	3	0	1	0	0	0	1	1	2	1	2	3	2	4	2	3	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:53525293G>A	uc001xai.2	-	9	2124	c.1894C>T	c.(1894-1896)CGT>TGT	p.R632C	DDHD1_uc001xaj.2_Missense_Mutation_p.R639C|DDHD1_uc001xah.2_Missense_Mutation_p.R632C|DDHD1_uc001xag.2_Missense_Mutation_p.R214C|DDHD1_uc001xak.1_Missense_Mutation_p.R28C	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	632	DDHD.				lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					CGGATGCCACGCAACGCCAAG	0.383													22	55					0	0	0.002299	0	0		A	53525293	A	A	53525293	3	1	4	1	0	0	0	0	1	0	0	0	4329	1087	38	1	828	1	DDHD1	14	53525293	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	543689	53525293	53824247	3116	5082											
SAMD4A	23034	broad.mit.edu	37	chr14	55251329	55251329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcagtatgaccgaacacGccctgggaggtgagtgtgtt	8	9	14	10	2	1	2	1	2	0	0	1	4	1	3	3	2	1	2	3	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:55251329G>A	uc001xbb.2	+	11	2117	c.2116G>A	c.(2116-2118)GCC>ACC	p.A706T	SAMD4A_uc001xbc.2_Missense_Mutation_p.A618T|SAMD4A_uc001xbg.2_Missense_Mutation_p.A334T	NM_015589	NP_056404	Q9UPU9	SMAG1_HUMAN	sterile alpha motif domain containing 4 isoform	707					positive regulation of translation	cell junction|cytoplasm|dendrite|synapse|synaptosome	translation repressor activity				0						GACCGAACACGCCCTGGGAGG	0.557													8	100					0	0	0.00308	0	0		A	55251329	A	A	55251329	3	1	4	1	0	0	0	0	1	0	0	0	13846	1087	38	1	2270	1	SAMD4A	14	55251329	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1726036	55251329	52098211	3117	5083											
KIAA0831	22863	broad.mit.edu	37	chr14	55836529	55836529	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccagtctgtgcccaggtcGgtttcttcatcgctgacgcg	4	12	11	14	4	3	1	1	1	2	0	6	1	4	1	2	2	1	2	2	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:55836529G>A	uc001xbx.1	-	10	1323	c.1287C>T	c.(1285-1287)ACC>ACT	p.T429T	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbw.1_Silent_p.T316T	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	429					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0						TGCCCAGGTCGGTTTCTTCAT	0.557													27	36					0	0	0.004656	0	0		A	55836529	A	A	55836529	2	1	4	1	0	0	0	0	0	0	0	1	8211	1103	39	1		1	KIAA0831	14	55836529	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	585200	55836529	51513011	3118	5084											
KIAA0831	22863	broad.mit.edu	37	chr14	55836547	55836547	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtttcttcatcgctgacGcgctcatctccgctctcatc	4	14	7	16	5	5	1	3	1	3	0	10	1	5	1	1	1	0	4	1	1	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:55836547G>A	uc001xbx.1	-	10	1305	c.1269C>T	c.(1267-1269)CGC>CGT	p.R423R	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbw.1_Silent_p.R310R	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	423					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0						CATCGCTGACGCGCTCATCTC	0.547													24	51					0	0	0.00333	0	0		A	55836547	A	A	55836547	2	1	4	1	0	0	0	0	0	0	0	1	8211	1074	38	1		1	KIAA0831	14	55836547	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	18	55836547	51512993	3119	5085											
TBPL2	387332	broad.mit.edu	37	chr14	55903506	55903506	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aacctactttgtggactttgGctttcagaattttcttcagt	8	18	7	8	0	3	1	2	0	1	1	3	2	3	2	1	2	2	1	1	2	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:55903506G>A	uc001xby.2	-	2	381	c.381C>T	c.(379-381)AGC>AGT	p.S127S		NM_199047	NP_950248	Q6SJ96	TBPL2_HUMAN	TATA box binding protein like 2	127					multicellular organismal development|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding				0						GTGGACTTTGGCTTTCAGAAT	0.463													23	53					0	0	0.005443	0	0		A	55903506	A	A	55903506	2	1	4	1	0	0	0	0	0	0	0	1	15671	1194	42	2		2	TBPL2	14	55903506	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	66959	55903506	51446034	3120	5086											
C14orf101	54916	broad.mit.edu	37	chr14	57085368	57085368	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccgtcctcgctggcattggTttggctgcagttgtgtctga	3	14	14	10	2	1	1	0	1	1	0	3	1	2	1	2	3	1	6	2	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:57085368T>C	uc001xcm.2	+	10	1235	c.1113T>C	c.(1111-1113)GGT>GGC	p.G371G	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xcl.1_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_5'UTR|C14orf101_uc001xco.2_5'UTR	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	371	Helical; (Potential).					integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		CTGGCATTGGTTTGGCTGCAG	0.468													14	40					0	0	0.003163	0	0		C	57085368	C	C	57085368	2	2	4	1	0	0	0	0	0	0	0	1	1737	1712	60	3		3	C14orf101	14	57085368	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1181862	57085368	50264172	3121	5087											
KIAA0586	9786	broad.mit.edu	37	chr14	58934588	58934588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtaaagaaacctaacatagCcattgtagaaatgaagtcag	19	8	8	6	0	1	3	1	1	0	2	1	3	1	3	2	0	3	2	2	0	8	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:58934588C>T	uc001xdv.3	+	15	2435	c.2162C>T	c.(2161-2163)GCC>GTC	p.A721V	KIAA0586_uc010trr.1_Missense_Mutation_p.A838V|KIAA0586_uc001xdt.3_Missense_Mutation_p.A753V|KIAA0586_uc001xdu.3_Missense_Mutation_p.A782V|KIAA0586_uc010trs.1_Missense_Mutation_p.A712V|KIAA0586_uc010trt.1_Missense_Mutation_p.A657V|KIAA0586_uc010tru.1_Missense_Mutation_p.A657V	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	721										ovary(1)	1						CCTAACATAGCCATTGTAGAA	0.398													18	98					0	0	0.001882	0	0		T	58934588	T	T	58934588	3	4	4	1	0	0	0	0	1	0	0	0	8202	739	26	2	2220	2	KIAA0586	14	58934588	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1849220	58934588	48414952	3122	5088											
PPM1A	5494	broad.mit.edu	37	chr14	60749747	60749747	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaggttttctggagattgAtgaacacatgagagttatgt	13	13	11	4	0	1	4	0	3	1	2	1	6	1	4	0	2	2	2	0	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:60749747A>G	uc010apn.2	+	3	728	c.326A>G	c.(325-327)GAT>GGT	p.D109G	PPM1A_uc001xew.3_Missense_Mutation_p.D182G|PPM1A_uc001xex.3_Missense_Mutation_p.D109G|PPM1A_uc001xey.3_Missense_Mutation_p.D109G	NM_021003	NP_066283	P35813	PPM1A_HUMAN	protein phosphatase 1A isoform 1	109					cell cycle arrest|insulin receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein dephosphorylation|Wnt receptor signaling pathway	cytosol|nucleus|protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein serine/threonine phosphatase activity|signal transducer activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.046)		CTGGAGATTGATGAACACATG	0.393													34	92					0	0	0.002836	0	0		G	60749747	G	G	60749747	3	3	4	1	0	0	0	0	1	0	0	0	12357	333	12	3	551	3	PPM1A	14	60749747	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1815159	60749747	46599793	3123	5089											
PPM1A	5494	broad.mit.edu	37	chr14	60756574	60756574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgacttagtccatgtgatgCgcacattagcgagtgagaac	11	9	11	10	3	0	2	0	2	0	1	1	5	1	2	2	0	3	1	2	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:60756574C>T	uc010apn.2	+	5	1405	c.1003C>T	c.(1003-1005)CGC>TGC	p.R335C	PPM1A_uc001xew.3_Missense_Mutation_p.R408C|PPM1A_uc001xey.3_Missense_Mutation_p.R335C	NM_021003	NP_066283	P35813	PPM1A_HUMAN	protein phosphatase 1A isoform 1	335					cell cycle arrest|insulin receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein dephosphorylation|Wnt receptor signaling pathway	cytosol|nucleus|protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein serine/threonine phosphatase activity|signal transducer activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.046)		CCATGTGATGCGCACATTAGC	0.433													11	48					0	0	0.001368	0	0		T	60756574	T	T	60756574	3	4	4	1	0	0	0	0	1	0	0	0	12357	768	27	1	1259	1	PPM1A	14	60756574	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6827	60756574	46592966	3124	5090											
PRKCH	5583	broad.mit.edu	37	chr14	61997194	61997194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtgttgctctatgagatgCtctgtggtcacgcgcctttt	4	15	12	10	3	3	1	1	1	2	1	3	2	3	1	1	1	2	3	1	1	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:61997194C>T	uc001xfn.2	+	12	1947	c.1642C>T	c.(1642-1644)CTC>TTC	p.L548F	PRKCH_uc010tsa.1_Missense_Mutation_p.L387F|PRKCH_uc010tsb.1_Missense_Mutation_p.L116F	NM_006255	NP_006246	P24723	KPCL_HUMAN	protein kinase C, eta	548	Protein kinase.				intracellular signal transduction|platelet activation	cytosol|plasma membrane	ATP binding|enzyme binding|metal ion binding|protein kinase C activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|large_intestine(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(108;0.045)|BRCA - Breast invasive adenocarcinoma(234;0.0906)|KIRC - Kidney renal clear cell carcinoma(182;0.182)		CTATGAGATGCTCTGTGGTCA	0.547													17	158					0	0	0.006122	0	0		T	61997194	T	T	61997194	3	4	4	1	0	0	0	0	1	0	0	0	12535	797	28	2	1688	2	PRKCH	14	61997194	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1240620	61997194	45352346	3125	5091											
PPP2R5E	5529	broad.mit.edu	37	chr14	63856359	63856359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggctagatacacacttggCgatttgtttaaacaaaggtt	12	12	11	6	1	0	1	0	0	0	1	0	2	0	1	0	4	2	3	0	4	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:63856359C>T	uc001xgd.1	-	11	1635	c.1045G>A	c.(1045-1047)GCC>ACC	p.A349T	PPP2R5E_uc010tsf.1_Missense_Mutation_p.A273T|PPP2R5E_uc010tsg.1_Missense_Mutation_p.A273T|PPP2R5E_uc001xge.2_Missense_Mutation_p.A349T|PPP2R5E_uc010tsh.1_Missense_Mutation_p.A349T|PPP2R5E_uc001xgf.1_RNA	NM_006246	NP_006237	Q16537	2A5E_HUMAN	epsilon isoform of regulatory subunit B56,	349					signal transduction	cytoplasm|intracellular membrane-bounded organelle|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00197)|all cancers(60;0.0153)|BRCA - Breast invasive adenocarcinoma(234;0.128)		ACACACTTGGCGATTTGTTTA	0.368													8	57					0	0	0.004482	0	0		T	63856359	T	T	63856359	3	4	4	1	0	0	0	0	1	0	0	0	12418	768	27	1	374	1	PPP2R5E	14	63856359	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1859165	63856359	43493181	3126	5092											
SYNE2	23224	broad.mit.edu	37	chr14	64447796	64447796	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tatataatgtgaagtccactCtacaaaaagtgctggcatgt	14	12	8	7	0	1	1	0	1	1	0	2	1	2	1	1	1	2	2	1	1	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:64447796C>G	uc001xgm.2	+	16	1971	c.1741C>G	c.(1741-1743)CTA>GTA	p.L581V	SYNE2_uc001xgl.2_Missense_Mutation_p.L581V	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	581	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GAAGTCCACTCTACAAAAAGT	0.338													4	237					0	0	0.000602	0	0		G	64447796	G	G	64447796	3	3	4	1	0	0	0	0	1	0	0	0	15471	912	32	5	1799	5	SYNE2	14	64447796	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	591437	64447796	42901744	3127	5093											
SYNE2	23224	broad.mit.edu	37	chr14	64519034	64519034	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccttacaacctatgagggCagtgatttaaataataccct	14	11	7	9	0	0	2	0	2	0	0	0	2	0	2	3	1	4	1	3	1	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:64519034C>T	uc001xgm.2	+	48	8633	c.8403C>T	c.(8401-8403)GGC>GGT	p.G2801G	SYNE2_uc001xgl.2_Silent_p.G2801G	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2801	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CCTATGAGGGCAGTGATTTAA	0.403													24	75					0	0	0.005443	0	0		T	64519034	T	T	64519034	2	4	4	1	0	0	0	0	0	0	0	1	15471	697	25	2		2	SYNE2	14	64519034	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	71238	64519034	42830506	3128	5094											
SYNE2	23224	broad.mit.edu	37	chr14	64542723	64542723	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaatattatggaaaaactgCgaatcaagtattccgaaatg	18	10	8	5	2	1	1	1	0	0	1	2	4	2	2	1	1	2	1	1	1	9	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:64542723C>T	uc001xgm.2	+	54	11157	c.10927C>T	c.(10927-10929)CGA>TGA	p.R3643*	SYNE2_uc001xgl.2_Nonsense_Mutation_p.R3643*|SYNE2_uc010apy.2_Nonsense_Mutation_p.R5*|SYNE2_uc010apw.1_Nonsense_Mutation_p.R349*|SYNE2_uc010apx.1_Nonsense_Mutation_p.R35*	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3643	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GGAAAAACTGCGAATCAAGTA	0.388													20	40					0	0	0.002299	0	0		T	64542723	T	T	64542723	4	4	4	1	0	0	0	0	0	1	0	0	15471	760	27	1	11137	1	SYNE2	14	64542723	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	23689	64542723	42806817	3129	5095											
SYNE2	23224	broad.mit.edu	37	chr14	64676162	64676162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaatcgaggagacgtggCgcctgtggcagaagttttta	10	10	14	7	3	1	3	1	0	0	3	2	5	1	3	1	3	0	2	1	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:64676162C>T	uc001xgm.2	+	102	18636	c.18406C>T	c.(18406-18408)CGC>TGC	p.R6136C	SYNE2_uc001xgl.2_Missense_Mutation_p.R6136C|SYNE2_uc010apy.2_Missense_Mutation_p.R2521C|SYNE2_uc001xgn.2_Missense_Mutation_p.R1098C|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.R106C|SYNE2_uc001xgq.2_Missense_Mutation_p.R501C|SYNE2_uc001xgr.2_5'UTR	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6136	Spectrin 7.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GGAGACGTGGCGCCTGTGGCA	0.527													10	29					0	0	0.000978	0	0		T	64676162	T	T	64676162	3	4	4	1	0	0	0	0	1	0	0	0	15471	768	27	1	18808	1	SYNE2	14	64676162	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	133439	64676162	42673378	3130	5096											
SYNE2	23224	broad.mit.edu	37	chr14	64678805	64678805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgacgccgatgacaagatgCgccaactgaatgtgagggct	11	7	14	9	3	0	5	0	4	0	1	0	6	0	5	2	1	2	1	2	1	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:64678805C>T	uc001xgm.2	+	104	19080	c.18850C>T	c.(18850-18852)CGC>TGC	p.R6284C	SYNE2_uc001xgl.2_Missense_Mutation_p.R6284C|SYNE2_uc010apy.2_Missense_Mutation_p.R2669C|SYNE2_uc001xgn.2_Missense_Mutation_p.R1246C|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.R254C|SYNE2_uc001xgq.2_Missense_Mutation_p.R649C|SYNE2_uc001xgr.2_Missense_Mutation_p.R67C|SYNE2_uc010tsi.1_5'Flank|SYNE2_uc001xgs.2_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6284	Spectrin 8.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TGACAAGATGCGCCAACTGAA	0.542													34	99					0	0	0.005524	0	0		T	64678805	T	T	64678805	3	4	4	1	0	0	0	0	1	0	0	0	15471	768	27	1	19260	1	SYNE2	14	64678805	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2643	64678805	42670735	3131	5097											
HSPA2	3306	broad.mit.edu	37	chr14	65008477	65008477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacgtccatcacgcgcgccCgcttcgaggagctcaatgcc	8	7	10	16	6	2	0	2	0	0	0	4	2	3	1	3	1	3	2	3	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:65008477C>T	uc001xhj.2	+	2	986	c.910C>T	c.(910-912)CGC>TGC	p.R304C	HSPA2_uc001xhk.3_Missense_Mutation_p.R304C	NM_021979	NP_068814	P54652	HSP72_HUMAN	heat shock 70kDa protein 2	304					response to unfolded protein|spermatid development	cell surface	ATP binding|unfolded protein binding			skin(1)	1				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)		CACGCGCGCCCGCTTCGAGGA	0.657													12	11					0	0	0.001855	0	0		T	65008477	T	T	65008477	3	4	4	1	0	0	0	0	1	0	0	0	7427	652	23	1	912	1	HSPA2	14	65008477	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	329672	65008477	42341063	3132	5098											
GPHN	10243	broad.mit.edu	37	chr14	67389441	67389441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cattgaccttttacgtgatgCcattgtaaaagtaaaggagg	13	12	10	6	1	0	2	0	2	0	0	0	3	0	3	2	2	2	2	2	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:67389441C>T	uc001xiy.2	+	7	1636	c.515C>T	c.(514-516)GCC>GTC	p.A172V	GPHN_uc001xiw.2_Missense_Mutation_p.A154V|GPHN_uc001xix.2_Missense_Mutation_p.A172V|GPHN_uc010tss.1_Missense_Mutation_p.A185V|GPHN_uc010tst.1_Missense_Mutation_p.A141V|GPHN_uc010tsu.1_Missense_Mutation_p.A62V	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	172	Interaction with GABARAP (By similarity).				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		TTACGTGATGCCATTGTAAAA	0.433			T	MLL	AL								31	143					0	0	0.004289	0	0		T	67389441	T	T	67389441	3	4	4	1	0	0	0	0	1	0	0	0	6625	739	26	2	541	2	GPHN	14	67389441	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2380964	67389441	39960099	3133	5099											
FAM71D	161142	broad.mit.edu	37	chr14	67671596	67671596	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcagggacagcatagatttCccagaattcacagacatcac	14	8	8	11	0	3	3	3	0	0	3	4	4	4	4	1	1	1	1	1	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:67671596C>T	uc001xja.1	+	5	956	c.702C>T	c.(700-702)TTC>TTT	p.F234F	FAM71D_uc010aqn.1_RNA	NM_173526	NP_775797	Q8N9W8	FA71D_HUMAN	hypothetical protein LOC161142	234										ovary(1)	1		all_hematologic(31;0.0116)		all cancers(60;0.00107)|BRCA - Breast invasive adenocarcinoma(234;0.00993)|OV - Ovarian serous cystadenocarcinoma(108;0.012)		GCATAGATTTCCCAGAATTCA	0.463													6	78					0	0	0.001168	0	0		T	67671596	T	T	67671596	2	4	4	1	0	0	0	0	0	0	0	1	5624	854	30	4		4	FAM71D	14	67671596	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	282155	67671596	39677944	3134	5100											
VTI1B	10490	broad.mit.edu	37	chr14	68123210	68123210	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagccaatctggtcagtctCtgtggcaatccgatgagaac	10	10	11	10	1	3	2	1	2	2	1	5	4	4	2	2	2	2	1	2	2	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:68123210C>A	uc001xjt.2	-	4	859	c.463G>T	c.(463-465)GAG>TAG	p.E155*	VTI1B_uc010aqp.2_Nonsense_Mutation_p.E94*|VTI1B_uc001xju.2_Nonsense_Mutation_p.E114*	NM_006370	NP_006361	Q9UEU0	VTI1B_HUMAN	vesicle transport through interaction with	155	Cytoplasmic (Potential).				cell proliferation|cellular membrane fusion|intracellular protein transport|vesicle docking involved in exocytosis	endomembrane system|integral to membrane					0				all cancers(60;0.000344)|OV - Ovarian serous cystadenocarcinoma(108;0.00212)|BRCA - Breast invasive adenocarcinoma(234;0.00941)		TGGTCAGTCTCTGTGGCAATC	0.502													5	119					0.000602214	0.000627828	0.000602	1	0		A	68123210	A	A	68123210	4	1	4	1	0	0	0	0	0	1	0	0	17262	922	32	5	247	5	VTI1B	14	68123210	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	451614	68123210	39226330	3135	5101											
DCAF5	8816	broad.mit.edu	37	chr14	69521638	69521638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggttgtcttctgtcggcGccgcatggcattccgctgcc	2	12	13	14	5	2	0	0	0	2	0	5	0	3	0	3	3	1	4	3	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:69521638G>A	uc001xkp.2	-	9	1984	c.1765C>T	c.(1765-1767)CGC>TGC	p.R589C	DCAF5_uc001xkq.2_Missense_Mutation_p.R588C	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	589						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						TTCTGTCGGCGCCGCATGGCA	0.542													25	54					0	0	0.005443	0	0		A	69521638	A	A	69521638	3	1	4	1	0	0	0	0	1	0	0	0	4276	1087	38	1	1067	1	DCAF5	14	69521638	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1398428	69521638	37827902	3136	5102											
GALNTL1	57452	broad.mit.edu	37	chr14	69791495	69791495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccgttccaccctgctgcGcacagtgaagaggtaagtcc	8	7	12	14	2	0	2	0	1	0	1	2	2	2	2	4	2	2	4	4	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:69791495G>A	uc010aqu.1	+	3	515	c.422G>A	c.(421-423)CGC>CAC	p.R141H	GALNTL1_uc001xla.1_Missense_Mutation_p.R141H|GALNTL1_uc001xlb.1_Missense_Mutation_p.R141H	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	141	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		ACCCTGCTGCGCACAGTGAAG	0.602													12	24					0	0	0.003163	0	0		A	69791495	A	A	69791495	3	1	4	1	0	0	0	0	1	0	0	0	6236	1087	38	1	432	1	GALNTL1	14	69791495	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	269857	69791495	37558045	3137	5103											
GALNTL1	57452	broad.mit.edu	37	chr14	69795264	69795264	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaacaccgagtggctgccGcccatgctgcagcgggtgaa	8	6	15	12	3	0	2	0	2	0	0	0	3	0	2	3	2	5	3	3	2	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:69795264G>A	uc010aqu.1	+	6	759	c.666G>A	c.(664-666)CCG>CCA	p.P222P	GALNTL1_uc001xla.1_Silent_p.P222P|GALNTL1_uc001xlb.1_Silent_p.P222P	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	222	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		AGTGGCTGCCGCCCATGCTGC	0.642													5	14					0	0	0.001984	0	0		A	69795264	A	A	69795264	2	1	4	1	0	0	0	0	0	0	0	1	6236	1074	38	1		1	GALNTL1	14	69795264	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3769	69795264	37554276	3138	5104											
SLC39A9	55334	broad.mit.edu	37	chr14	69908873	69908873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccatgaacatgagcacaGccacgaccacacacagctgc	13	5	8	15	1	0	2	0	2	0	0	1	3	1	2	3	0	5	2	3	0	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:69908873G>A	uc001xle.2	+	3	973	c.293G>A	c.(292-294)AGC>AAC	p.S98N	SLC39A9_uc010aqx.2_Missense_Mutation_p.S98N|SLC39A9_uc001xlf.3_Missense_Mutation_p.S98N|SLC39A9_uc001xlg.3_RNA	NM_018375	NP_060845	Q9NUM3	S39A9_HUMAN	solute carrier family 39 (zinc transporter),	98					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity				0				all cancers(60;0.00299)|BRCA - Breast invasive adenocarcinoma(234;0.0145)|OV - Ovarian serous cystadenocarcinoma(108;0.0373)		CATGAGCACAGCCACGACCAC	0.458													6	103					0	0	0.001168	0	0		A	69908873	A	A	69908873	3	1	4	1	0	0	0	0	1	0	0	0	14650	971	34	2	303	2	SLC39A9	14	69908873	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	113609	69908873	37440667	3139	5105											
SLC39A9	55334	broad.mit.edu	37	chr14	69925158	69925158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggacatttctttatgttGccacagtacatgtcctccct	7	14	7	13	1	1	0	0	0	1	0	3	1	3	1	4	1	2	2	4	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:69925158G>A	uc001xle.2	+	7	1452	c.772G>A	c.(772-774)GCC>ACC	p.A258T	SLC39A9_uc010aqx.2_Missense_Mutation_p.A235T|SLC39A9_uc001xlf.3_Intron|SLC39A9_uc001xlg.3_RNA	NM_018375	NP_060845	Q9NUM3	S39A9_HUMAN	solute carrier family 39 (zinc transporter),	258	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity				0				all cancers(60;0.00299)|BRCA - Breast invasive adenocarcinoma(234;0.0145)|OV - Ovarian serous cystadenocarcinoma(108;0.0373)		TCTTTATGTTGCCACAGTACA	0.567													6	82					0	0	0.00308	0	0		A	69925158	A	A	69925158	3	1	4	1	0	0	0	0	1	0	0	0	14650	1319	46	2	798	2	SLC39A9	14	69925158	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	16285	69925158	37424382	3140	5106											
KIAA0247	9766	broad.mit.edu	37	chr14	70171413	70171413	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcattctcctcctcgtggtgCtgtttgtgctgctgcagcca	3	15	10	13	1	2	0	1	0	1	0	5	0	3	0	3	1	5	5	3	1	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:70171413C>A	uc001xlk.2	+	4	728	c.412C>A	c.(412-414)CTG>ATG	p.L138M	KIAA0247_uc010aqz.2_Missense_Mutation_p.L113M	NM_014734	NP_055549	Q92537	K0247_HUMAN	hypothetical protein LOC9766 precursor	138	Helical; (Potential).					integral to membrane				ovary(3)	3				all cancers(60;0.00155)|BRCA - Breast invasive adenocarcinoma(234;0.0164)|OV - Ovarian serous cystadenocarcinoma(108;0.0196)		CCTCGTGGTGCTGTTTGTGCT	0.527													12	27					2.27111e-07	2.4189e-07	0.001368	1	0		A	70171413	A	A	70171413	3	1	4	1	0	0	0	0	1	0	0	0	8181	796	28	5	422	5	KIAA0247	14	70171413	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	246255	70171413	37178127	3141	5107											
SMOC1	64093	broad.mit.edu	37	chr14	70496965	70496965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccttctctcagtaggacGcctcgtctaaggagcagaaa	10	10	9	12	2	3	1	1	0	2	1	6	3	4	3	2	2	1	2	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:70496965G>A	uc001xls.1	+	12	1548	c.1295G>A	c.(1294-1296)CGC>CAC	p.R432H	SMOC1_uc001xlt.1_Missense_Mutation_p.R433H	NM_022137	NP_071420	Q9H4F8	SMOC1_HUMAN	secreted modular calcium-binding protein 1	432					cell differentiation|eye development|limb development|regulation of osteoblast differentiation|signal transduction	basement membrane	calcium ion binding			upper_aerodigestive_tract(1)|pancreas(1)	2				all cancers(60;0.00417)|BRCA - Breast invasive adenocarcinoma(234;0.0119)|OV - Ovarian serous cystadenocarcinoma(108;0.028)		TCAGTAGGACGCCTCGTCTAA	0.507													6	55					0	0	0.001984	0	0		A	70496965	A	A	70496965	3	1	4	1	0	0	0	0	1	0	0	0	14826	1087	38	1	1344	1	SMOC1	14	70496965	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	325552	70496965	36852575	3142	5108											
SLC8A3	6547	broad.mit.edu	37	chr14	70634125	70634125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaaagagcatagtaattggCcatctccaccagctgatcta	13	9	9	10	0	2	2	0	1	2	1	3	3	2	3	3	2	2	3	3	2	4	4	rs138512128	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:70634125C>T	uc001xly.2	-	2	1769	c.1015G>A	c.(1015-1017)GCC>ACC	p.A339T	SLC8A3_uc001xlw.2_Missense_Mutation_p.A339T|SLC8A3_uc001xlx.2_Missense_Mutation_p.A339T|SLC8A3_uc001xlz.2_Missense_Mutation_p.A339T|SLC8A3_uc010ara.2_RNA	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	339	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		TAGTAATTGGCCATCTCCACC	0.493													14	64					0	0	0.00499	0	0		T	70634125	T	T	70634125	3	4	4	1	0	0	0	0	1	0	0	0	14733	739	26	2	1907	2	SLC8A3	14	70634125	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	137160	70634125	36715415	3143	5109											
ADAM21	8747	broad.mit.edu	37	chr14	70925992	70925992	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatggtgtcacctgctggggTattgactatcatttaaggat	10	14	11	6	0	2	1	2	1	0	0	2	2	2	2	1	4	1	2	1	4	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:70925992T>C	uc001xmd.2	+	1	1776	c.1776T>C	c.(1774-1776)GGT>GGC	p.G592G		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	592	Cys-rich.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		CCTGCTGGGGTATTGACTATC	0.418													24	61					0	0	0.003954	0	0		C	70925992	C	C	70925992	2	2	4	1	0	0	0	0	0	0	0	1	243	1625	57	3		3	ADAM21	14	70925992	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	291867	70925992	36423548	3144	5110											
MAP3K9	4293	broad.mit.edu	37	chr14	71199485	71199485	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggactcaggggaggggcctcGactgggctgactggcatctc	6	7	17	11	1	2	1	1	1	1	0	4	4	2	3	1	7	0	2	1	7	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:71199485G>A	uc001xmm.2	-	11	2601	c.2601C>T	c.(2599-2601)GTC>GTT	p.V867V	MAP3K9_uc010ttk.1_Silent_p.V595V|MAP3K9_uc001xmk.2_Silent_p.V600V|MAP3K9_uc001xml.2_Silent_p.V881V	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	867	Pro-rich.				activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		GAGGGGCCTCGACTGGGCTGA	0.577													18	20					0	0	0.00499	0	0		A	71199485	A	A	71199485	2	1	4	1	0	0	0	0	0	0	0	1	9275	1045	37	1		1	MAP3K9	14	71199485	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	273493	71199485	36150055	3145	5111											
SIPA1L1	26037	broad.mit.edu	37	chr14	72137841	72137841	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttgtctctcagtgtggCtgttaccaggtccagagatg	7	14	11	9	0	3	1	1	0	2	1	5	2	4	1	2	2	1	2	2	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:72137841C>A	uc001xms.2	+	8	2609	c.2261C>A	c.(2260-2262)GCT>GAT	p.A754D	SIPA1L1_uc001xmt.2_Missense_Mutation_p.A754D|SIPA1L1_uc001xmu.2_Missense_Mutation_p.A754D|SIPA1L1_uc001xmv.2_Missense_Mutation_p.A754D|SIPA1L1_uc010ttm.1_Missense_Mutation_p.A229D	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	754	Rap-GAP.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		CTCAGTGTGGCTGTTACCAGG	0.438													21	259					1.66031e-10	1.78694e-10	0.003954	1	0		A	72137841	A	A	72137841	3	1	4	1	0	0	0	0	1	0	0	0	14354	797	28	5	2287	5	SIPA1L1	14	72137841	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	938356	72137841	35211699	3146	5112											
SIPA1L1	26037	broad.mit.edu	37	chr14	72190523	72190523	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggagtttttaccctcgccaGggcgctactagcaagtacct	9	10	10	12	2	0	0	0	0	0	0	1	1	0	1	3	2	4	4	3	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:72190523G>T	uc001xms.2	+	16	4779	c.4431G>T	c.(4429-4431)CAG>CAT	p.Q1477H	SIPA1L1_uc001xmt.2_Missense_Mutation_p.Q1456H|SIPA1L1_uc001xmu.2_Missense_Mutation_p.Q1456H|SIPA1L1_uc001xmv.2_Missense_Mutation_p.Q1477H|SIPA1L1_uc010ttm.1_Missense_Mutation_p.Q931H|SIPA1L1_uc001xmw.2_Missense_Mutation_p.Q242H	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1477	Ser-rich.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		ACCCTCGCCAGGGCGCTACTA	0.423													23	144					1.64293e-13	1.78369e-13	0.00333	1	0		T	72190523	T	T	72190523	3	4	4	1	0	0	0	0	1	0	0	0	14354	991	35	5	4489	5	SIPA1L1	14	72190523	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	52682	72190523	35159017	3147	5113											
SIPA1L1	26037	broad.mit.edu	37	chr14	72191399	72191399	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtccaggcgtcatcagagCgatggcaatgaaatagccca	12	8	11	10	2	2	2	2	1	0	1	3	3	3	2	2	2	2	1	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:72191399C>T	uc001xms.2	+	17	4872	c.4524C>T	c.(4522-4524)AGC>AGT	p.S1508S	SIPA1L1_uc001xmt.2_Silent_p.S1487S|SIPA1L1_uc001xmu.2_Silent_p.S1487S|SIPA1L1_uc001xmv.2_Silent_p.S1508S|SIPA1L1_uc010ttm.1_Silent_p.S962S|SIPA1L1_uc001xmw.2_Silent_p.S273S	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1508					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		GTCATCAGAGCGATGGCAATG	0.493													20	45					0	0	0.010504	0	0		T	72191399	T	T	72191399	2	4	4	1	0	0	0	0	0	0	0	1	14354	767	27	1		1	SIPA1L1	14	72191399	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	876	72191399	35158141	3148	5114											
DPF3	8110	broad.mit.edu	37	chr14	73140989	73140989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacaccagctcttcaggcCgcccactcttcttgttcatg	7	11	8	15	1	5	0	2	0	3	0	5	1	5	1	3	2	1	2	3	2	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:73140989C>T	uc001xnc.2	-	8	843	c.830G>A	c.(829-831)CGG>CAG	p.R277Q	DPF3_uc001xnd.1_RNA|DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Missense_Mutation_p.R277Q|DPF3_uc010ttq.1_Missense_Mutation_p.R287Q	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	277	PHD-type 1.				chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		CTCTTCAGGCCGCCCACTCTT	0.567													3	13					0	0	0.009096	0	0		T	73140989	T	T	73140989	3	4	4	1	0	0	0	0	1	0	0	0	4724	652	23	1	251	1	DPF3	14	73140989	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	949590	73140989	34208551	3149	5115											
DPF3	8110	broad.mit.edu	37	chr14	73159844	73159844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcctggtcttgagcttcatCcccctcctcgctggccaggt	3	12	9	17	1	2	1	1	1	1	0	6	1	5	1	5	3	1	2	5	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:73159844C>T	uc001xnc.2	-	7	695	c.682G>A	c.(682-684)GAT>AAT	p.D228N	DPF3_uc001xnd.1_RNA|DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Missense_Mutation_p.D228N|DPF3_uc010ttq.1_Missense_Mutation_p.D238N	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	228					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		TGAGCTTCATCCCCCTCCTCG	0.552													27	59					0	0	0.008361	0	0		T	73159844	T	T	73159844	3	4	4	1	0	0	0	0	1	0	0	0	4724	855	30	4	403	4	DPF3	14	73159844	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	18855	73159844	34189696	3150	5116											
HEATR4	399671	broad.mit.edu	37	chr14	73989372	73989372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggatgatggatgagagggCggggtgcttcccggacggtg	7	7	21	6	3	0	2	0	2	0	1	1	6	1	5	1	7	1	1	1	7	0	1	rs142623987		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:73989372C>T	uc010tub.1	-	3	807	c.485G>A	c.(484-486)CGC>CAC	p.R162H	HEATR4_uc010tua.1_Missense_Mutation_p.R115H	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		GATGAGAGGGCGGGGTGCTTC	0.557													13	28					0	0	0.00245	0	0		T	73989372	T	T	73989372	3	4	4	1	0	0	0	0	1	0	0	0	7046	768	27	1	2659	1	HEATR4	14	73989372	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	829528	73989372	33360168	3151	5117											
C14orf43	91748	broad.mit.edu	37	chr14	74186094	74186094	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttcttctctgaaaaaggTagtgcccttcgtgacttccc	7	15	7	12	1	3	2	0	2	3	0	6	2	4	2	2	1	1	1	2	1	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:74186094T>C	uc001xot.2	-	12	3831	c.3048A>G	c.(3046-3048)CTA>CTG	p.L1016L	C14orf43_uc001xos.2_Silent_p.L281L|C14orf43_uc001xou.2_Silent_p.L1016L|C14orf43_uc010tud.1_Silent_p.L1016L|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	1016					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		CTGAAAAAGGTAGTGCCCTTC	0.542													7	18					0	0	0.001984	0	0		C	74186094	C	C	74186094	2	2	4	1	0	0	0	0	0	0	0	1	1777	1625	57	3		3	C14orf43	14	74186094	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	196722	74186094	33163446	3152	5118											
FAM161B	145483	broad.mit.edu	37	chr14	74407705	74407705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagagagggaagcaaggcCgctcagagaacgactccttg	12	4	15	10	2	1	2	1	0	0	2	2	6	2	3	2	3	2	3	2	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:74407705C>T	uc001xpd.1	-	5	1430	c.1324G>A	c.(1324-1326)GGC>AGC	p.G442S		NM_152445	NP_689658			hypothetical protein LOC145483											ovary(1)	1						GAAGCAAGGCCGCTCAGAGAA	0.547													28	66					0	0	0.009535	0	0		T	74407705	T	T	74407705	3	4	4	1	0	0	0	0	1	0	0	0	5484	652	23	1	639	1	FAM161B	14	74407705	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	221611	74407705	32941835	3153	5119											
ABCD4	5826	broad.mit.edu	37	chr14	74763144	74763144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctccacgtcctggctgatgCgctggtccctggagccaatg	5	9	13	14	2	0	1	0	1	0	0	3	2	3	2	4	3	2	3	4	3	1	0	rs150967109		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:74763144C>T	uc001xpr.2	-	5	586	c.434G>A	c.(433-435)CGC>CAC	p.R145H	ABCD4_uc001xps.2_5'UTR|ABCD4_uc001xpt.2_5'UTR|ABCD4_uc010tur.1_Missense_Mutation_p.R58H|ABCD4_uc001xpu.2_5'UTR|ABCD4_uc001xpv.2_RNA	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	145	ABC transmembrane type-1.					ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)		CTGGCTGATGCGCTGGTCCCT	0.567													7	34					0	0	0.00245	0	0		T	74763144	T	T	74763144	3	4	4	1	0	0	0	0	1	0	0	0	63	768	27	1	1446	1	ABCD4	14	74763144	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	355439	74763144	32586396	3154	5120											
C14orf115	55237	broad.mit.edu	37	chr14	74824066	74824066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctactccatctaccccatgCgcaacctcaagatccggccc	9	8	5	19	2	3	1	1	0	2	1	5	1	5	1	6	1	4	1	6	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:74824066C>T	uc001xpw.3	+	2	771	c.580C>T	c.(580-582)CGC>TGC	p.R194C		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	194					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		CTACCCCATGCGCAACCTCAA	0.622													8	36					0	0	0.006214	0	0		T	74824066	T	T	74824066	3	4	4	1	0	0	0	0	1	0	0	0	1743	768	27	1	582	1	C14orf115	14	74824066	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	60922	74824066	32525474	3155	5121											
YLPM1	56252	broad.mit.edu	37	chr14	75265781	75265781	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctcatgatggagataggCgaggcccttggtgggatgat	8	10	17	6	1	1	3	1	2	1	1	2	6	1	4	1	6	0	0	1	6	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:75265781C>T	uc001xqj.3	+	5	3905	c.3781C>T	c.(3781-3783)CGA>TGA	p.R1261*	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1066	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		TGGAGATAGGCGAGGCCCTTG	0.488													12	36					0	0	0.00245	0	0		T	75265781	T	T	75265781	4	4	4	1	0	0	0	0	0	1	0	0	17512	760	27	1	3799	1	YLPM1	14	75265781	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	441715	75265781	32083759	3156	5122											
MLH3	27030	broad.mit.edu	37	chr14	75516018	75516018	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaagttttcattgtcctgTttttcttggacgaaatttcc	9	18	6	8	1	2	0	1	0	1	0	4	2	4	1	2	1	0	2	2	1	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:75516018T>G	uc001xrd.1	-	2	557	c.341A>C	c.(340-342)AAC>ACC	p.N114T	MLH3_uc001xre.1_Missense_Mutation_p.N114T|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	114					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		CATTGTCCTGTTTTTCTTGGA	0.448								MMR					5	105					0	0	0.000602	0	0		G	75516018	G	G	75516018	3	3	4	1	0	0	0	0	1	0	0	0	9636	1725	60	5	4068	5	MLH3	14	75516018	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	250237	75516018	31833522	3157	5123											
BATF	10538	broad.mit.edu	37	chr14	76012964	76012964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccgaggtggtgtacagcGcccacgcattccaccaacct	8	6	9	18	3	0	0	0	0	0	0	1	1	1	0	6	2	3	2	6	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:76012964G>A	uc001xrr.2	+	3	570	c.328G>A	c.(328-330)GCC>ACC	p.A110T		NM_006399	NP_006390	Q16520	BATF_HUMAN	basic leucine zipper transcription factor,	110						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.028)		GGTGTACAGCGCCCACGCATT	0.662													3	6					0	0	0.004672	0	0		A	76012964	A	A	76012964	3	1	4	1	0	0	0	0	1	0	0	0	1326	1087	38	1	338	1	BATF	14	76012964	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	496946	76012964	31336576	3158	5124											
TTLL5	23093	broad.mit.edu	37	chr14	76135826	76135826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttggtattccatgccgacGctattcttacaaaggacaac	11	13	7	10	2	1	0	0	0	1	0	2	2	2	1	2	2	3	2	2	2	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:76135826G>A	uc001xrx.2	+	3	347	c.142G>A	c.(142-144)GCT>ACT	p.A48T	TTLL5_uc001xrw.1_Missense_Mutation_p.A48T|TTLL5_uc010ask.1_Missense_Mutation_p.A48T|TTLL5_uc001xrv.2_Missense_Mutation_p.A48T	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	48					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		CCATGCCGACGCTATTCTTAC	0.453													27	76					0	0	0.009535	0	0		A	76135826	A	A	76135826	3	1	4	1	0	0	0	0	1	0	0	0	16756	1087	38	1	148	1	TTLL5	14	76135826	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	122862	76135826	31213714	3159	5125											
TGFB3	7043	broad.mit.edu	37	chr14	76431997	76431997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccattgggctgaaaggtgtGacatggacagtgaatgctga	11	10	14	6	0	0	4	0	4	0	0	1	5	1	5	1	3	1	2	1	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:76431997G>A	uc001xsc.2	-	4	1544	c.688C>T	c.(688-690)CAC>TAC	p.H230Y	TGFB3_uc001xsd.2_Missense_Mutation_p.H228Y	NM_003239	NP_003230	P10600	TGFB3_HUMAN	transforming growth factor, beta 3 precursor	230					cell growth|cell-cell junction organization|detection of hypoxia|face morphogenesis|in utero embryonic development|induction of apoptosis|lung alveolus development|mammary gland development|menstrual cycle phase|negative regulation of cell proliferation|negative regulation of DNA replication|negative regulation of macrophage cytokine production|negative regulation of neuron apoptosis|odontogenesis|ossification involved in bone remodeling|palate development|platelet activation|platelet degranulation|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of collagen biosynthetic process|positive regulation of DNA replication|positive regulation of epithelial to mesenchymal transition|positive regulation of filopodium assembly|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|positive regulation of transcription from RNA polymerase II promoter|response to progesterone stimulus|salivary gland morphogenesis|transforming growth factor beta receptor signaling pathway	extracellular matrix|platelet alpha granule lumen	growth factor activity|identical protein binding|transforming growth factor beta binding|type I transforming growth factor beta receptor binding|type II transforming growth factor beta receptor binding			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0169)		TGAAAGGTGTGACATGGACAG	0.423													6	172					0	0	0.001984	0	0		A	76431997	A	A	76431997	3	1	4	1	0	0	0	0	1	0	0	0	15844	1290	45	4	566	4	TGFB3	14	76431997	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	296171	76431997	30917543	3160	5126											
ANGEL1	23357	broad.mit.edu	37	chr14	77255579	77255579	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggagccctgtcatggggCggtgacttccatcccgaagc	6	8	14	13	2	1	1	1	1	0	0	3	3	3	2	3	4	2	0	3	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:77255579C>T	uc001xsv.2	-	10	2118	c.2005G>A	c.(2005-2007)GCC>ACC	p.A669T	uc001xsu.1_5'Flank|ANGEL1_uc010tvf.1_Intron	NM_015305	NP_056120	Q9UNK9	ANGE1_HUMAN	angel homolog 1	669										ovary(2)|central_nervous_system(1)|skin(1)	4			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0285)		TGTCATGGGGCGGTGACTTCC	0.537													10	131					0	0	0.000978	0	0		T	77255579	T	T	77255579	3	4	4	1	0	0	0	0	1	0	0	0	608	768	27	1	11	1	ANGEL1	14	77255579	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	823582	77255579	30093961	3161	5127											
POMT2	29954	broad.mit.edu	37	chr14	77745184	77745184	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccgagcaggacctggccGcctcctcgaagcaggacctg	8	4	13	16	3	0	0	0	0	0	0	2	4	1	2	6	3	3	2	6	3	1	0	rs150755807		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:77745184G>A	uc001xti.2	-	19	2121	c.1920C>T	c.(1918-1920)GGC>GGT	p.G640G	POMT2_uc001xth.1_Silent_p.G338G	NM_013382	NP_037514	Q9UKY4	POMT2_HUMAN	protein-O-mannosyltransferase 2	640					protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)		GGACCTGGCCGCCTCCTCGAA	0.468													5	21					0	0	0.001168	0	0		A	77745184	A	A	77745184	2	1	4	1	0	0	0	0	0	0	0	1	12265	1074	38	1		1	POMT2	14	77745184	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	489605	77745184	29604356	3162	5128											
VIPAR	63894	broad.mit.edu	37	chr14	77910662	77910662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagtttgtcctgtaaggagCggaatctctctagtgagcaa	10	12	12	7	1	2	1	0	1	2	0	4	3	3	3	1	2	2	4	1	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:77910662C>T	uc001xtt.1	-	9	865	c.527G>A	c.(526-528)CGC>CAC	p.R176H	VIPAR_uc001xtu.1_Missense_Mutation_p.R176H|VIPAR_uc010tvj.1_Missense_Mutation_p.R127H|VIPAR_uc001xtv.1_Missense_Mutation_p.R176H	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894	176					endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1						CTGTAAGGAGCGGAATCTCTC	0.393													5	47					0	0	0.00308	0	0		T	77910662	T	T	77910662	3	4	4	1	0	0	0	0	1	0	0	0	17194	768	27	1	1006	1	VIPAR	14	77910662	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	165478	77910662	29438878	3163	5129											
ALKBH1	8846	broad.mit.edu	37	chr14	78146264	78146264	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagcctacggtcacccaacGcagtttctccagtaaacttc	10	10	7	14	2	2	0	1	0	1	0	4	0	2	0	3	1	4	4	3	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:78146264G>A	uc001xuc.1	-	4	514	c.505C>T	c.(505-507)CGT>TGT	p.R169C	ALKBH1_uc001xud.1_RNA	NM_006020	NP_006011	Q13686	ALKB1_HUMAN	alkylated DNA repair protein alkB homolog	169					DNA dealkylation involved in DNA repair|DNA demethylation|oxidative demethylation|RNA repair	mitochondrion	DNA-(apurinic or apyrimidinic site) lyase activity|ferrous iron binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(1)|skin(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		GTCACCCAACGCAGTTTCTCC	0.398													8	71					0	0	0.004482	0	0		A	78146264	A	A	78146264	3	1	4	1	0	0	0	0	1	0	0	0	526	1087	38	1	676	1	ALKBH1	14	78146264	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	235602	78146264	29203276	3164	5130											
ADCK1	57143	broad.mit.edu	37	chr14	78397931	78397931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctcaaccacgtgccgcGccagatgctgctcatcttga	7	10	8	16	3	4	2	2	1	2	1	5	2	4	2	4	0	4	2	4	0	1	1	rs112630340		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:78397931G>A	uc001xui.2	+	10	1376	c.1277G>A	c.(1276-1278)CGC>CAC	p.R426H	ADCK1_uc001xuj.2_Missense_Mutation_p.R358H|ADCK1_uc001xul.2_Missense_Mutation_p.R133H	NM_020421	NP_065154	Q86TW2	ADCK1_HUMAN	aarF domain containing kinase 1 isoform a	433	Protein kinase.					extracellular region	ATP binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)	3			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0376)		CACGTGCCGCGCCAGATGCTG	0.592													11	24					0	0	0.00245	0	0		A	78397931	A	A	78397931	3	1	4	1	0	0	0	0	1	0	0	0	288	1087	38	1	1311	1	ADCK1	14	78397931	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	251667	78397931	28951609	3165	5131											
C14orf145	145508	broad.mit.edu	37	chr14	81329141	81329141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtcccagttgatcctggCgtctttccaccagctccctt	5	13	8	15	1	1	2	0	2	1	0	5	2	5	2	5	1	1	2	5	1	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:81329141C>T	uc001xux.2	-	8	893	c.722G>A	c.(721-723)CGC>CAC	p.R241H	C14orf145_uc001xuz.2_Missense_Mutation_p.R241H|C14orf145_uc001xuy.1_Missense_Mutation_p.R99H	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	241	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TTGATCCTGGCGTCTTTCCAC	0.463													23	82					0	0	0.00333	0	0		T	81329141	T	T	81329141	3	4	4	1	0	0	0	0	1	0	0	0	1752	768	27	1	2630	1	C14orf145	14	81329141	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2931210	81329141	26020399	3166	5132											
TSHR	7253	broad.mit.edu	37	chr14	81422084	81422084	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctgcccagggacctgggCggaatggggtgttcgtctcc	5	8	16	12	2	1	0	0	0	1	0	3	3	1	2	4	5	1	1	4	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:81422084C>T	uc001xvd.1	+	1	216	c.60C>T	c.(58-60)GGC>GGT	p.G20G	C14orf145_uc001xva.1_Intron|TSHR_uc001xvb.1_Silent_p.G20G|TSHR_uc001xvc.2_Silent_p.G20G|TSHR_uc010tvs.1_Silent_p.G20G	NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	20					cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	GGGACCTGGGCGGAATGGGGT	0.602			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						5	68					0	0	0.000602	0	0		T	81422084	T	T	81422084	2	4	4	1	0	0	0	0	0	0	0	1	16648	755	27	1		1	TSHR	14	81422084	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	92943	81422084	25927456	3167	5133											
SEL1L	6400	broad.mit.edu	37	chr14	81952724	81952724	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcactgcagcattgtaatcGccatctttatagctgttata	11	15	6	9	1	2	0	1	0	1	0	3	0	2	0	1	0	3	5	1	0	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:81952724G>A	uc010tvv.1	-	17	1824	c.1707C>T	c.(1705-1707)GGC>GGT	p.G569G		NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	569	Lumenal (Potential).|Interaction with ERLEC1, OS9 and SYVN1.				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		CATTGTAATCGCCATCTTTAT	0.438													16	241					0	0	0.006122	0	0		A	81952724	A	A	81952724	2	1	4	1	0	0	0	0	0	0	0	1	14035	1074	38	1		1	SEL1L	14	81952724	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	530640	81952724	25396816	3168	5134											
FLRT2	23768	broad.mit.edu	37	chr14	86089506	86089506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgggcttgatcgggggcGcggtgatatttgtgctggtg	3	12	20	6	4	0	2	0	2	0	0	1	2	0	2	0	6	1	2	0	6	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:86089506G>A	uc001xvr.2	+	2	2415	c.1648G>A	c.(1648-1650)GCG>ACG	p.A550T	FLRT2_uc010atd.2_Missense_Mutation_p.A550T	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	550	Helical; (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GATCGGGGGCGCGGTGATATT	0.587													28	40					0	0	0.008361	0	0		A	86089506	A	A	86089506	3	1	4	1	0	0	0	0	1	0	0	0	5953	1087	38	1	1650	1	FLRT2	14	86089506	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4136782	86089506	21260034	3169	5135											
GALC	2581	broad.mit.edu	37	chr14	88401080	88401080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgccctgttaagtattagCgtgtggcttccacaagaaag	11	11	11	8	1	0	1	0	0	0	1	1	2	1	1	2	1	2	3	2	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:88401080C>T	uc001xvt.2	-	17	2453	c.2054G>A	c.(2053-2055)CGC>CAC	p.R685H	GALC_uc010tvw.1_Intron|GALC_uc010tvx.1_Missense_Mutation_p.R659H|GALC_uc010tvy.1_Missense_Mutation_p.R662H|GALC_uc010tvz.1_Intron	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	685					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0						TAAGTATTAGCGTGTGGCTTC	0.403													11	68					0	0	0.001855	0	0		T	88401080	T	T	88401080	3	4	4	1	0	0	0	0	1	0	0	0	6216	768	27	1	7	1	GALC	14	88401080	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2311574	88401080	18948460	3170	5136											
GALC	2581	broad.mit.edu	37	chr14	88434718	88434718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tataattctgatttaaaatgCgaccccagcagcctgcaccc	12	10	6	13	1	1	1	0	1	1	0	1	2	1	1	4	0	4	2	4	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:88434718C>T	uc001xvt.2	-	8	1268	c.869G>A	c.(868-870)CGC>CAC	p.R290H	GALC_uc010tvw.1_RNA|GALC_uc010tvx.1_Missense_Mutation_p.R264H|GALC_uc010tvy.1_Missense_Mutation_p.R267H|GALC_uc010tvz.1_Missense_Mutation_p.R234H|GALC_uc001xvu.1_Missense_Mutation_p.R290H	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	290					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0						ATTTAAAATGCGACCCCAGCA	0.343													24	101					0	0	0.003954	0	0		T	88434718	T	T	88434718	3	4	4	1	0	0	0	0	1	0	0	0	6216	768	27	1	1291	1	GALC	14	88434718	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	33638	88434718	18914822	3171	5137											
C14orf102	55051	broad.mit.edu	37	chr14	90755095	90755095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcgtgctcataagcctttCgcgctttcaaaatgtgaaca	10	12	9	10	3	2	1	2	1	0	0	3	1	2	1	1	0	4	2	1	0	4	3	rs142600051		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:90755095C>T	uc001xyi.1	-	11	2655	c.2624G>A	c.(2623-2625)CGA>CAA	p.R875Q	C14orf102_uc010atp.1_Missense_Mutation_p.R380Q|C14orf102_uc001xyj.1_Missense_Mutation_p.R644Q|C14orf102_uc001xyk.1_Missense_Mutation_p.R67Q	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	875							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		ATAAGCCTTTCGCGCTTTCAA	0.532													13	56					0	0	0.003163	0	0		T	90755095	T	T	90755095	3	4	4	1	0	0	0	0	1	0	0	0	1738	884	31	1	886	1	C14orf102	14	90755095	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2320377	90755095	16594445	3172	5138											
C14orf102	55051	broad.mit.edu	37	chr14	90769464	90769464	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccaggacttttcatgacCtcgtcctcaacaacaaaaac	14	8	6	13	1	2	1	2	1	0	0	4	2	3	2	3	2	3	0	3	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:90769464C>A	uc001xyi.1	-	6	1042	c.1011G>T	c.(1009-1011)GAG>GAT	p.E337D	C14orf102_uc010atp.1_Intron|C14orf102_uc001xyj.1_Missense_Mutation_p.E106D	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	337	HAT 1.|Potential.						protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		TTTTCATGACCTCGTCCTCAA	0.473													12	44					0.00136819	0.00142269	0.001368	1	0		A	90769464	A	A	90769464	3	1	4	1	0	0	0	0	1	0	0	0	1738	680	24	5	2519	5	C14orf102	14	90769464	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	14369	90769464	16580076	3173	5139											
C14orf102	55051	broad.mit.edu	37	chr14	90784357	90784357	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaaaaactaccttgtcagCggtaacccttcagaaacatg	16	8	6	11	1	2	1	2	0	0	1	2	1	2	1	2	1	6	1	2	1	6	4	rs146955955		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:90784357C>T	uc001xyi.1	-	2	196	c.165G>A	c.(163-165)CCG>CCA	p.P55P	C14orf102_uc001xyj.1_Intron	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	55							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		ACCTTGTCAGCGGTAACCCTT	0.418													10	80					0	0	0.008291	0	0		T	90784357	T	T	90784357	2	4	4	1	0	0	0	0	0	0	0	1	1738	755	27	1		1	C14orf102	14	90784357	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	14893	90784357	16565183	3174	5140											
CATSPERB	79820	broad.mit.edu	37	chr14	92076988	92076988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaagcactcagtagaggCtgaccacataataaatgcca	18	6	7	10	0	1	2	1	1	0	1	1	2	1	2	2	1	3	3	2	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:92076988C>T	uc001xzs.1	-	21	2574	c.2434G>A	c.(2434-2436)GCC>ACC	p.A812T	CATSPERB_uc010aub.1_Missense_Mutation_p.A334T	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	812					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				TCAGTAGAGGCTGACCACATA	0.323													13	44					0	0	0.00245	0	0		T	92076988	T	T	92076988	3	4	4	1	0	0	0	0	1	0	0	0	2694	797	28	2	944	2	CATSPERB	14	92076988	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1292631	92076988	15272552	3175	5141											
RIN3	79890	broad.mit.edu	37	chr14	93125612	93125612	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggatggttcgctgcagcaGctcaaggagaaccagttagt	12	8	13	8	1	1	1	1	0	0	1	2	3	1	2	1	3	4	6	1	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:93125612G>C	uc001yap.2	+	7	2285	c.2133G>C	c.(2131-2133)CAG>CAC	p.Q711H	RIN3_uc010auk.2_Missense_Mutation_p.Q373H|RIN3_uc001yaq.2_Missense_Mutation_p.Q636H|RIN3_uc001yar.1_Missense_Mutation_p.Q373H|RIN3_uc001yas.1_Missense_Mutation_p.Q373H	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	711	Interaction with RAB5B.|VPS9.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				CGCTGCAGCAGCTCAAGGAGA	0.547													14	160					0	0	0.001855	0	0		C	93125612	C	C	93125612	3	2	4	1	0	0	0	0	1	0	0	0	13398	962	34	5	2159	5	RIN3	14	93125612	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1048624	93125612	14223928	3176	5142											
RIN3	79890	broad.mit.edu	37	chr14	93125643	93125643	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagttagtgatcctggccAccaccaccactgacctaggt	10	8	8	15	0	0	2	0	2	0	0	1	2	1	2	7	2	0	1	7	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:93125643A>G	uc001yap.2	+	7	2316	c.2164A>G	c.(2164-2166)ACC>GCC	p.T722A	RIN3_uc010auk.2_Missense_Mutation_p.T384A|RIN3_uc001yaq.2_Missense_Mutation_p.T647A|RIN3_uc001yar.1_Missense_Mutation_p.T384A|RIN3_uc001yas.1_Missense_Mutation_p.T384A	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	722	Interaction with RAB5B.|Poly-Thr.|VPS9.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				GATCCTGGCCACCACCACCAC	0.567													16	76					0	0	0.007291	0	0		G	93125643	G	G	93125643	3	3	4	1	0	0	0	0	1	0	0	0	13398	159	6	3	2190	3	RIN3	14	93125643	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	31	93125643	14223897	3177	5143											
BTBD7	55727	broad.mit.edu	37	chr14	93708973	93708973	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcttttgtctgtgtagatgCccgtcaggggaaagtggata	8	14	13	6	1	3	1	1	0	2	1	3	3	3	3	1	3	1	1	1	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:93708973C>T	uc001ybo.2	-	11	3371	c.3045G>A	c.(3043-3045)GGG>GGA	p.G1015G	BTBD7_uc010aur.2_Silent_p.G540G|BTBD7_uc010two.1_Silent_p.G835G|BTBD7_uc001ybp.2_Silent_p.G664G	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	1015										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		TGTGTAGATGCCCGTCAGGGG	0.498													6	122					0	0	0.001984	0	0		T	93708973	T	T	93708973	2	4	4	1	0	0	0	0	0	0	0	1	1549	726	26	2		2	BTBD7	14	93708973	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	583330	93708973	13640567	3178	5144											
KIAA1409	57578	broad.mit.edu	37	chr14	94088106	94088106	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatatagggaatgcagactcGcttttgtttacattagacga	12	13	10	6	2	0	2	0	0	0	2	1	5	0	3	0	1	2	3	0	1	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94088106G>A	uc001ybv.1	+	28	4145	c.4062G>A	c.(4060-4062)TCG>TCA	p.S1354S	KIAA1409_uc001ybs.1_Silent_p.S1332S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1509						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		ATGCAGACTCGCTTTTGTTTA	0.433													11	94					0	0	0.001368	0	0		A	94088106	A	A	94088106	2	1	4	1	0	0	0	0	0	0	0	1	8246	1074	38	1		1	KIAA1409	14	94088106	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	379133	94088106	13261434	3179	5145											
KIAA1409	57578	broad.mit.edu	37	chr14	94103626	94103626	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaaccctgacctggagggAcagccattgaggatgagagg	12	6	14	9	0	0	3	0	3	0	1	0	7	0	6	3	4	2	0	3	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94103626A>G	uc001ybv.1	+	31	5516	c.5433A>G	c.(5431-5433)GGA>GGG	p.G1811G	KIAA1409_uc001ybs.1_Silent_p.G1789G	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1966						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		acctggagggacagccattga	0													4	51					0	0	0.009096	0	0		G	94103626	G	G	94103626	2	3	4	1	0	0	0	0	0	0	0	1	8246	262	10	3		3	KIAA1409	14	94103626	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	15520	94103626	13245914	3180	5146											
KIAA1409	57578	broad.mit.edu	37	chr14	94120164	94120164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatcagttggcccccaacGgcatcttcccgcagctgttc	6	10	8	17	2	2	0	1	0	1	0	5	0	4	0	4	2	2	5	4	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94120164G>A	uc001ybv.1	+	35	5895	c.5812G>A	c.(5812-5814)GGC>AGC	p.G1938S	KIAA1409_uc001ybs.1_Missense_Mutation_p.G1916S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2093						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GGCCCCCAACGGCATCTTCCC	0.547													36	114					0	0	0.005524	0	0		A	94120164	A	A	94120164	3	1	4	1	0	0	0	0	1	0	0	0	8246	1116	39	1	5880	1	KIAA1409	14	94120164	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	16538	94120164	13229376	3181	5147											
ASB2	51676	broad.mit.edu	37	chr14	94405768	94405768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtcgcggttggggtcggCgccgtgttgcagcagcagct	4	8	18	11	6	0	0	0	0	0	0	2	1	0	0	1	4	4	6	1	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94405768C>T	uc001ycc.1	-	6	1648	c.1159G>A	c.(1159-1161)GCC>ACC	p.A387T	ASB2_uc001ycb.1_Missense_Mutation_p.A81T|ASB2_uc001ycd.2_Missense_Mutation_p.A435T|ASB2_uc001yce.1_Missense_Mutation_p.A333T	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	387	ANK 10.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		TTGGGGTCGGCGCCGTGTTGC	0.677													7	6					0	0	0.001984	0	0		T	94405768	T	T	94405768	3	4	4	1	0	0	0	0	1	0	0	0	1024	768	27	1	616	1	ASB2	14	94405768	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	285604	94405768	12943772	3182	5148											
ASB2	51676	broad.mit.edu	37	chr14	94417565	94417565	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcaccagaatcttcacGgcctccgcgttcttgcgctc	5	11	9	16	4	3	1	1	0	2	1	5	1	4	1	3	1	3	4	3	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94417565G>A	uc001ycc.1	-	4	1005	c.516C>T	c.(514-516)GCC>GCT	p.A172A	ASB2_uc001ycd.2_Silent_p.A220A|ASB2_uc001yce.1_Silent_p.A118A	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	172	ANK 4.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		GAATCTTCACGGCCTCCGCGT	0.592													4	41					0	0	0.000602	0	0		A	94417565	A	A	94417565	2	1	4	1	0	0	0	0	0	0	0	1	1024	1103	39	1		1	ASB2	14	94417565	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11797	94417565	12931975	3183	5149											
DDX24	57062	broad.mit.edu	37	chr14	94528700	94528700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtcaccaaagagcaacGcctggtctgagacagtgcct	11	7	10	13	2	2	2	1	1	1	2	3	3	2	2	3	1	3	1	3	1	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94528700G>A	uc001ycj.2	-	3	1085	c.986C>T	c.(985-987)GCG>GTG	p.A329V	DDX24_uc010twq.1_Missense_Mutation_p.A286V|DDX24_uc010twr.1_Missense_Mutation_p.A79V	NM_020414	NP_065147	Q9GZR7	DDX24_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 24	329	Helicase ATP-binding.				RNA metabolic process	cytoplasm|nucleolus|nucleolus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|skin(1)	4		all_cancers(154;0.12)		Epithelial(152;0.114)|all cancers(159;0.19)|COAD - Colon adenocarcinoma(157;0.207)		AAAGAGCAACGCCTGGTCTGA	0.507													42	94					0	0	0.003214	0	0		A	94528700	A	A	94528700	3	1	4	1	0	0	0	0	1	0	0	0	4354	1087	38	1	1621	1	DDX24	14	94528700	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	111135	94528700	12820840	3184	5150											
SERPINA11	256394	broad.mit.edu	37	chr14	94914995	94914995	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgggggctggctctgagagCtgatgcctggggggttgagg	4	8	22	7	1	1	3	0	3	1	1	1	4	1	3	1	7	2	4	1	7	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94914995C>T	uc001ydd.1	-	2	177	c.117G>A	c.(115-117)CAG>CAA	p.Q39Q		NM_001080451	NP_001073920	Q86U17	SPA11_HUMAN	serpin peptidase inhibitor, clade A (alpha-1	39					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			kidney(1)	1				COAD - Colon adenocarcinoma(157;0.211)		GCTCTGAGAGCTGATGCCTGG	0.562													6	105					0	0	0.001168	0	0		T	94914995	T	T	94914995	2	4	4	1	0	0	0	0	0	0	0	1	14113	796	28	2		2	SERPINA11	14	94914995	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	386295	94914995	12434545	3185	5151											
SERPINA12	145264	broad.mit.edu	37	chr14	94964324	94964324	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcctctggtcaatgaacagCgtgttcccaatgctcagttt	9	12	9	11	1	3	1	2	1	1	0	4	1	4	1	2	1	4	3	2	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94964324C>T	uc001ydj.2	-	3	1207	c.411G>A	c.(409-411)ACG>ACA	p.T137T		NM_173850	NP_776249	Q8IW75	SPA12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	137					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			central_nervous_system(2)|ovary(1)|lung(1)	4				COAD - Colon adenocarcinoma(157;0.235)		CAATGAACAGCGTGTTCCCAA	0.468													13	59					0	0	0.004007	0	0		T	94964324	T	T	94964324	2	4	4	1	0	0	0	0	0	0	0	1	14114	755	27	1		1	SERPINA12	14	94964324	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	49329	94964324	12385216	3186	5152											
CLMN	79789	broad.mit.edu	37	chr14	95682030	95682030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caagaaccaaagaagggttgCcatctgctatttctgctgca	12	10	9	10	0	2	2	0	0	2	2	2	2	2	2	2	1	5	4	2	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:95682030C>T	uc001yef.2	-	5	481	c.365G>A	c.(364-366)GGC>GAC	p.G122D		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	122	Actin-binding.|CH 1.					integral to membrane	actin binding				0				Epithelial(152;0.193)		AGAAGGGTTGCCATCTGCTAT	0.408													5	64					0	0	0.001168	0	0		T	95682030	T	T	95682030	3	4	4	1	0	0	0	0	1	0	0	0	3545	739	26	2	2679	2	CLMN	14	95682030	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	717706	95682030	11667510	3187	5153											
C14orf49	161176	broad.mit.edu	37	chr14	95922035	95922035	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtctccagagactcctcGcccctgggaaaatctttggc	8	9	10	14	2	2	1	0	0	2	1	5	3	3	2	4	2	1	0	4	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:95922035G>A	uc001yei.3	-	5	831	c.816C>T	c.(814-816)GGC>GGT	p.G272G	C14orf49_uc010avi.2_Silent_p.G272G|C14orf49_uc001yej.1_Silent_p.G272G	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	272	Spectrin 1.|Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		GAGACTCCTCGCCCCTGGGAA	0.527													7	68					0	0	0.004482	0	0		A	95922035	A	A	95922035	2	1	4	1	0	0	0	0	0	0	0	1	1779	1074	38	1		1	C14orf49	14	95922035	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	240005	95922035	11427505	3188	5154											
BDKRB2	624	broad.mit.edu	37	chr14	96707401	96707401	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcaccttctgcacgatgCagatcatgcaggtgctgcgg	8	10	11	12	2	4	1	3	0	1	1	4	2	4	1	1	2	5	4	1	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:96707401C>T	uc010avm.1	+	3	932	c.736C>T	c.(736-738)CAG>TAG	p.Q246*	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Nonsense_Mutation_p.Q219*|BDKRB2_uc001yfg.2_Nonsense_Mutation_p.Q246*	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	246	Helical; Name=5; (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		CTGCACGATGCAGATCATGCA	0.547													6	34					0	0	0.001984	0	0		T	96707401	T	T	96707401	4	4	4	1	0	0	0	0	0	1	0	0	1394	711	25	2	742	2	BDKRB2	14	96707401	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	785366	96707401	10642139	3189	5155											
ATG2B	55102	broad.mit.edu	37	chr14	96756089	96756089	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccttttggtcttcttgggCtcgatagaaagggtaccagg	9	12	12	8	1	2	1	0	0	2	1	3	2	2	1	2	4	2	2	2	4	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:96756089C>T	uc001yfi.2	-	41	6275	c.5910G>A	c.(5908-5910)GAG>GAA	p.E1970E		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1970										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		TCTTCTTGGGCTCGATAGAAA	0.473													10	68					0	0	0.000978	0	0		T	96756089	T	T	96756089	2	4	4	1	0	0	0	0	0	0	0	1	1095	796	28	2		2	ATG2B	14	96756089	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	48688	96756089	10593451	3190	5156											
SETD3	84193	broad.mit.edu	37	chr14	99865307	99865307	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctcttcatatttgggaagCggagccttttcctccatctg	6	15	8	12	1	3	0	1	0	2	0	6	2	5	2	3	2	2	0	3	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:99865307C>T	uc001ygc.2	-	13	1664	c.1494G>A	c.(1492-1494)CCG>CCA	p.P498P		NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	498					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				ATTTGGGAAGCGGAGCCTTTT	0.517													7	117					0	0	0.001984	0	0		T	99865307	T	T	99865307	2	4	4	1	0	0	0	0	0	0	0	1	14157	755	27	1		1	SETD3	14	99865307	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3109218	99865307	7484233	3191	5157											
SETD3	84193	broad.mit.edu	37	chr14	99932082	99932082	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaagatttcctttggtgAcacagttgctgtagcaccag	9	13	10	9	0	1	2	1	1	0	1	2	2	2	2	2	1	2	5	2	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:99932082A>G	uc001ygc.2	-	2	231	c.61T>C	c.(61-63)TCA>CCA	p.S21P	SETD3_uc001ygd.2_Missense_Mutation_p.S21P|SETD3_uc001ygf.2_Missense_Mutation_p.S21P	NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	21					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				TCCTTTGGTGACACAGTTGCT	0.448													7	54					0	0	0.004482	0	0		G	99932082	G	G	99932082	3	3	4	1	0	0	0	0	1	0	0	0	14157	275	10	3	1817	3	SETD3	14	99932082	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	66775	99932082	7417458	3192	5158											
EVL	51466	broad.mit.edu	37	chr14	100595920	100595920	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaagacgcatctggaggCtccagtcccagtgggacctc	9	6	12	14	1	1	2	0	0	1	2	4	4	3	4	4	3	0	2	4	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:100595920C>T	uc001ygt.2	+	7	971	c.732C>T	c.(730-732)GGC>GGT	p.G244G	EVL_uc001ygv.2_Silent_p.G250G|EVL_uc001ygu.2_Silent_p.G246G|EVL_uc010avu.2_Silent_p.G103G	NM_016337	NP_057421	Q9UI08	EVL_HUMAN	Enah/Vasp-like	244	EVH2.				actin polymerization or depolymerization|axon guidance|cell surface receptor linked signaling pathway|organ morphogenesis	cytoskeleton|cytosol|focal adhesion|lamellipodium	actin binding|profilin binding|SH3 domain binding			large_intestine(2)|ovary(1)	3		Melanoma(154;0.152)				CATCTGGAGGCTCCAGTCCCA	0.587													4	29					0	0	0.000602	0	0		T	100595920	T	T	100595920	2	4	4	1	0	0	0	0	0	0	0	1	5299	784	28	2		2	EVL	14	100595920	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	663838	100595920	6753620	3193	5159											
DIO3	1735	broad.mit.edu	37	chr14	102028655	102028655	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actattatgtaccagggcggCcgtggccccgacggctacca	8	7	12	14	4	0	0	0	0	0	0	0	1	0	0	5	4	2	2	5	4	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:102028655C>T	uc010txq.1	+	2	968	c.744C>T	c.(742-744)GGC>GGT	p.G248G	DIO3OS_uc001ykd.1_5'Flank|uc001yke.2_5'Flank|uc001ykf.2_5'Flank|uc001ykg.2_5'Flank|uc001ykh.3_5'Flank|MIR1247_hsa-mir-1247|MI0006382_5'Flank	NM_001362	NP_001353	P55073	IOD3_HUMAN	deiodinase, iodothyronine, type III	248	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process	endosome membrane|integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|thyroxine 5-deiodinase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(303;0.185)				ACCAGGGCGGCCGTGGCCCCG	0.607													5	35					0	0	0.001984	0	0		T	102028655	T	T	102028655	2	4	4	1	0	0	0	0	0	0	0	1	4532	726	26	2		2	DIO3	14	102028655	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1432735	102028655	5320885	3194	5160											
PPP2R5C	5527	broad.mit.edu	37	chr14	102349641	102349641	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagagtctccagatttccaAcctaatatagcgaagaaata	16	11	6	8	1	1	3	0	0	1	3	3	4	2	3	3	0	2	0	3	0	8	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:102349641A>G	uc001yko.2	+	4	593	c.453A>G	c.(451-453)CAA>CAG	p.Q151Q	PPP2R5C_uc010txr.1_Silent_p.Q182Q|PPP2R5C_uc001ykk.2_Silent_p.Q206Q|PPP2R5C_uc010txt.1_Silent_p.Q141Q|PPP2R5C_uc001ykn.2_Silent_p.Q151Q|PPP2R5C_uc001ykp.2_Silent_p.Q151Q|PPP2R5C_uc001ykq.2_Silent_p.Q49Q	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	151					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						CAGATTTCCAACCTAATATAG	0.343													19	48					0	0	0.002299	0	0		G	102349641	G	G	102349641	2	3	4	1	0	0	0	0	0	0	0	1	12416	40	2	3		3	PPP2R5C	14	102349641	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	320986	102349641	4999899	3195	5161											
PPP2R5C	5527	broad.mit.edu	37	chr14	102356590	102356590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctaggtttatttatgaaacaGagcatcataatggcatagca	15	12	8	6	0	1	2	1	1	0	1	1	2	1	2	0	2	3	4	0	2	6	7	rs4617782		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:102356590G>A	uc001yko.2	+	6	786	c.646G>A	c.(646-648)GAG>AAG	p.E216K	PPP2R5C_uc010txr.1_Missense_Mutation_p.E247K|PPP2R5C_uc001ykk.2_Missense_Mutation_p.E271K|PPP2R5C_uc010txt.1_Missense_Mutation_p.E206K|PPP2R5C_uc001ykn.2_Missense_Mutation_p.E216K|PPP2R5C_uc001ykp.2_Missense_Mutation_p.E216K|PPP2R5C_uc001ykq.2_Missense_Mutation_p.E114K	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	216					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						TTATGAAACAGAGCATCATAA	0.388													24	37					0	0	0.00632	0	0		A	102356590	A	A	102356590	3	1	4	1	0	0	0	0	1	0	0	0	12416	943	33	4	1037	4	PPP2R5C	14	102356590	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6949	102356590	4992950	3196	5162											
DYNC1H1	1778	broad.mit.edu	37	chr14	102453010	102453010	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggaagtgcaggccctgatCgcagaaggcattgcgttggt	10	8	15	8	2	0	2	0	1	0	1	1	3	0	3	1	4	2	4	1	4	3	2	rs145405293	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:102453010C>T	uc001yks.2	+	8	2612	c.2448C>T	c.(2446-2448)ATC>ATT	p.I816I		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	816	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						AGGCCCTGATCGCAGAAGGCA	0.512													13	61					0	0	0.001855	0	0		T	102453010	T	T	102453010	2	4	4	1	0	0	0	0	0	0	0	1	4847	874	31	1		1	DYNC1H1	14	102453010	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	96420	102453010	4896530	3197	5163											
DYNC1H1	1778	broad.mit.edu	37	chr14	102469005	102469005	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaggcagtgcagatatcaaGcacctgctgccagtggaaac	13	6	11	11	0	1	1	1	0	0	1	1	2	1	2	2	2	5	4	2	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:102469005G>T	uc001yks.2	+	22	4838	c.4674G>T	c.(4672-4674)AAG>AAT	p.K1558N		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1558	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CAGATATCAAGCACCTGCTGC	0.522													13	87					1.15088e-07	1.22702e-07	0.004007	1	0		T	102469005	T	T	102469005	3	4	4	1	0	0	0	0	1	0	0	0	4847	962	34	5	4760	5	DYNC1H1	14	102469005	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	15995	102469005	4880535	3198	5164											
CDC42BPB	9578	broad.mit.edu	37	chr14	103442313	103442313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggctgtgctccaggtcccGctgcacatcctcatctttgg	5	11	10	15	1	2	0	1	0	1	0	5	0	5	0	3	3	2	4	3	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:103442313G>A	uc001ymi.1	-	10	1526	c.1294C>T	c.(1294-1296)CGG>TGG	p.R432W		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	432	Potential.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TCCAGGTCCCGCTGCACATCC	0.517													5	66					0	0	0.000602	0	0		A	103442313	A	A	103442313	3	1	4	1	0	0	0	0	1	0	0	0	3076	1086	38	1	3953	1	CDC42BPB	14	103442313	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	973308	103442313	3907227	3199	5165											
CDC42BPB	9578	broad.mit.edu	37	chr14	103447231	103447231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatttagaccttcaaaaaacGcatgctttttgaaatcctct	14	14	4	9	1	2	2	1	1	1	1	3	2	3	2	2	0	2	2	2	0	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:103447231G>A	uc001ymi.1	-	8	1251	c.1019C>T	c.(1018-1020)GCG>GTG	p.A340V		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	340	Protein kinase.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TTCAAAAAACGCATGCTTTTT	0.453													21	72					0	0	0.00278	0	0		A	103447231	A	A	103447231	3	1	4	1	0	0	0	0	1	0	0	0	3076	1087	38	1	4236	1	CDC42BPB	14	103447231	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4918	103447231	3902309	3200	5166											
MARK3	4140	broad.mit.edu	37	chr14	103941507	103941507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaagtaatcctaataaggCggatattcctgaacgcaaga	15	9	9	8	2	0	2	0	1	0	1	2	3	2	3	2	2	2	3	2	2	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:103941507C>T	uc001ymz.3	+	13	2108	c.1442C>T	c.(1441-1443)GCG>GTG	p.A481V	MARK3_uc001ymx.3_Missense_Mutation_p.A481V|MARK3_uc001ymw.3_Missense_Mutation_p.A481V|MARK3_uc001yna.3_Missense_Mutation_p.A465V|MARK3_uc001ymy.3_Missense_Mutation_p.A402V|MARK3_uc010awp.2_Missense_Mutation_p.A504V|MARK3_uc010tyb.1_Missense_Mutation_p.A276V|MARK3_uc010awq.2_Missense_Mutation_p.A11V	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	481							ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			CCTAATAAGGCGGATATTCCT	0.483													11	56					0	0	0.00245	0	0		T	103941507	T	T	103941507	3	4	4	1	0	0	0	0	1	0	0	0	9332	768	27	1	1492	1	MARK3	14	103941507	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	494276	103941507	3408033	3201	5167											
ZFYVE21	79038	broad.mit.edu	37	chr14	104194182	104194182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccccgtgcggcagtgcGcggagtgcgccctcgtgtcc	3	7	16	15	6	0	0	0	0	0	0	2	2	1	2	4	3	3	1	4	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:104194182G>A	uc001yoc.2	+	3	323	c.289G>A	c.(289-291)GCG>ACG	p.A97T	ZFYVE21_uc001yod.2_Missense_Mutation_p.A97T	NM_024071	NP_076976	Q9BQ24	ZFY21_HUMAN	zinc finger, FYVE domain containing 21	97	FYVE-type.					cytoplasmic membrane-bounded vesicle|focal adhesion	metal ion binding				0		Melanoma(154;0.226)		Epithelial(152;0.245)		GCGGCAGTGCGCGGAGTGCGC	0.662													8	23					0	0	0.00308	0	0		A	104194182	A	A	104194182	3	1	4	1	0	0	0	0	1	0	0	0	17692	1087	38	1	299	1	ZFYVE21	14	104194182	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	252675	104194182	3155358	3202	5168											
ADSSL1	122622	broad.mit.edu	37	chr14	105208225	105208225	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccaactgcaccgtgggCggtgtgtgcacgggcctggg	5	8	16	12	3	1	0	1	0	0	0	2	0	2	0	3	4	3	2	3	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105208225C>T	uc001ypd.2	+	9	908	c.834C>T	c.(832-834)GGC>GGT	p.G278G	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Silent_p.G321G|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	278					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	GCACCGTGGGCGGTGTGTGCA	0.602													29	61					0	0	0.002836	0	0		T	105208225	T	T	105208225	2	4	4	1	0	0	0	0	0	0	0	1	348	755	27	1		1	ADSSL1	14	105208225	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1014043	105208225	2141315	3203	5169											
AHNAK2	113146	broad.mit.edu	37	chr14	105406357	105406357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctccccacaaggctggCtcactgggacatccccgagc	7	6	9	19	1	1	0	1	0	0	0	4	2	4	1	6	3	1	2	6	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105406357C>T	uc010axc.1	-	7	15551	c.15431G>A	c.(15430-15432)AGC>AAC	p.S5144N	AHNAK2_uc001ypx.2_Missense_Mutation_p.S5044N	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5144						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			ACAAGGCTGGCTCACTGGGAC	0.582													20	65					0	0	0.008871	0	0		T	105406357	T	T	105406357	3	4	4	1	0	0	0	0	1	0	0	0	415	797	28	2	1960	2	AHNAK2	14	105406357	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	198132	105406357	1943183	3204	5170											
AHNAK2	113146	broad.mit.edu	37	chr14	105413326	105413326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggccgacaccccgaatgacGgcatcttgaacttgggcatt	9	8	12	12	3	1	2	0	2	1	0	1	4	1	2	3	3	1	2	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105413326G>A	uc010axc.1	-	7	8582	c.8462C>T	c.(8461-8463)CCG>CTG	p.P2821L	AHNAK2_uc001ypx.2_Missense_Mutation_p.P2721L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2821						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCCGAATGACGGCATCTTGAA	0.607													80	231					0	0	0.00361	0	0		A	105413326	A	A	105413326	3	1	4	1	0	0	0	0	1	0	0	0	415	1116	39	1	8929	1	AHNAK2	14	105413326	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6969	105413326	1936214	3205	5171											
AHNAK2	113146	broad.mit.edu	37	chr14	105415885	105415885	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaggtctccctccagccgcGcaccatccagcttagccttc	7	8	7	19	2	1	0	0	0	1	0	5	0	3	0	6	1	3	2	6	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105415885G>A	uc010axc.1	-	7	6023	c.5903C>T	c.(5902-5904)GCG>GTG	p.A1968V	AHNAK2_uc001ypx.2_Missense_Mutation_p.A1868V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1968						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CTCCAGCCGCGCACCATCCAG	0.592													42	138					0	0	0.00361	0	0		A	105415885	A	A	105415885	3	1	4	1	0	0	0	0	1	0	0	0	415	1087	38	1	11488	1	AHNAK2	14	105415885	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2559	105415885	1933655	3206	5172											
CDCA4	55038	broad.mit.edu	37	chr14	105478028	105478028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcctggggtgccactgtgCgccacgtcccatcctgcgtc	4	8	12	17	3	0	0	0	0	0	0	3	0	2	0	5	2	4	0	5	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105478028C>T	uc001yqa.2	-	2	335	c.239G>A	c.(238-240)CGC>CAC	p.R80H	CDCA4_uc001yqb.2_Missense_Mutation_p.R80H	NM_145701	NP_663747	Q9BXL8	CDCA4_HUMAN	cell division cycle associated 4	80						nucleus				ovary(1)	1		all_cancers(154;0.0798)|Melanoma(154;0.155)|all_epithelial(191;0.183)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.142)		TGCCACTGTGCGCCACGTCCC	0.652													4	28					0	0	0.009096	0	0		T	105478028	T	T	105478028	3	4	4	1	0	0	0	0	1	0	0	0	3091	768	27	1	490	1	CDCA4	14	105478028	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	62143	105478028	1871512	3207	5173											
GPR132	29933	broad.mit.edu	37	chr14	105517738	105517738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggaagatgacaaccaccgCgatggccgagtgcttcacct	11	7	11	12	3	1	2	1	1	0	1	1	5	1	3	4	2	2	1	4	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105517738C>T	uc001yqd.2	-	4	1635	c.736G>A	c.(736-738)GCG>ACG	p.A246T	GPR132_uc001yqc.2_Missense_Mutation_p.A58T|GPR132_uc001yqe.2_Missense_Mutation_p.A237T	NM_013345	NP_037477	Q9UNW8	GP132_HUMAN	G protein-coupled receptor 132	246	Cytoplasmic (Potential).				response to stress	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.0953)|Melanoma(154;0.155)|all_epithelial(191;0.219)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.02)|all cancers(159;0.0419)|OV - Ovarian serous cystadenocarcinoma(161;0.0521)		ACAACCACCGCGATGGCCGAG	0.567													22	29					0	0	0.00278	0	0		T	105517738	T	T	105517738	3	4	4	1	0	0	0	0	1	0	0	0	6657	768	27	1	410	1	GPR132	14	105517738	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	39710	105517738	1831802	3208	5174											
JAG2	3714	broad.mit.edu	37	chr14	105618517	105618517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgtcacagagcaggccGccccagttggtctcacagtt	7	10	10	14	1	2	1	2	0	1	1	3	1	2	1	4	2	1	3	4	2	0	3	rs138120492		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105618517G>A	uc001yqg.2	-	6	1304	c.900C>T	c.(898-900)GGC>GGT	p.G300G	JAG2_uc001yqf.2_5'Flank|JAG2_uc001yqh.2_Silent_p.G300G	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	300	Extracellular (Potential).|EGF-like 2; atypical.				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding			lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		AGAGCAGGCCGCCCCAGTTGG	0.642													7	40					0	0	0.000978	0	0		A	105618517	A	A	105618517	2	1	4	1	0	0	0	0	0	0	0	1	7951	1074	38	1		1	JAG2	14	105618517	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	100779	105618517	1731023	3209	5175											
BRF1	2972	broad.mit.edu	37	chr14	105707625	105707625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgcagaggcccgaggggCgccggcctgtgtgcatccag	5	5	16	15	4	0	1	0	0	0	1	2	2	2	1	5	4	1	2	5	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105707625C>T	uc001yqp.2	-	6	1034	c.671G>A	c.(670-672)CGC>CAC	p.R224H	BRF1_uc010tyo.1_Missense_Mutation_p.R109H|BRF1_uc010typ.1_Missense_Mutation_p.R109H|BRF1_uc001yql.2_Missense_Mutation_p.R20H|BRF1_uc001yqo.2_Intron|BRF1_uc010axg.1_Missense_Mutation_p.R197H|BRF1_uc001yqn.2_RNA|BRF1_uc010axh.1_RNA|BRF1_uc010axj.1_Intron	NM_001519	NP_001510	Q92994	TF3B_HUMAN	transcription initiation factor IIIB isoform 1	224	2.			R -> G (in Ref. 1; AAC50170).	positive regulation of transcription, DNA-dependent|rRNA transcription|transcription initiation from RNA polymerase III promoter|tRNA transcription	transcription factor TFIIIB complex	translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		all_cancers(154;0.0231)|all_epithelial(191;0.0694)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00753)|all cancers(16;0.00925)|Epithelial(46;0.0221)	Epithelial(152;0.14)		GCCCGAGGGGCGCCGGCCTGT	0.652													7	5					0	0	0.00308	0	0		T	105707625	T	T	105707625	3	4	4	1	0	0	0	0	1	0	0	0	1513	768	27	1	1414	1	BRF1	14	105707625	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	89108	105707625	1641915	3210	5176											
BTBD6	90135	broad.mit.edu	37	chr14	105716187	105716187	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgctgggaggtcattgaCgcacaggccgagatggccct	7	7	15	12	3	1	2	1	1	0	1	1	4	1	3	2	4	1	3	2	4	0	1	rs147665481	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105716187C>T	uc010tyq.1	+	5	744	c.636C>T	c.(634-636)GAC>GAT	p.D212D	BRF1_uc010tyo.1_Intron|BRF1_uc010typ.1_Intron|BRF1_uc001yql.2_5'Flank|BRF1_uc001yqo.2_5'Flank|BRF1_uc010axg.1_Intron|BRF1_uc001yqp.2_Intron|BRF1_uc001yqn.2_5'Flank|BRF1_uc010axh.1_5'Flank|BRF1_uc010axj.1_5'Flank	NM_033271	NP_150374	Q96KE9	BTBD6_HUMAN	BTB domain protein BDPL	212						cytoplasmic mRNA processing body					0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.0163)|Epithelial(46;0.0391)	Epithelial(152;0.18)		AGGTCATTGACGCACAGGCCG	0.607													7	18					0	0	0.00308	0	0		T	105716187	T	T	105716187	2	4	4	1	0	0	0	0	0	0	0	1	1548	535	19	1		1	BTBD6	14	105716187	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	8562	105716187	1633353	3211	5177											
OR4N4	283694	broad.mit.edu	37	chr15	22383015	22383015	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacaacttcttctgtgatgtCcgacaggtcatcaagctggc	9	11	10	11	1	4	1	2	1	2	0	5	3	5	1	1	2	2	1	1	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:22383015C>A	uc001yuc.1	+	7	1524	c.543C>A	c.(541-543)GTC>GTA	p.V181V	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Silent_p.V181V	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TCTGTGATGTCCGACAGGTCA	0.527													15	97					8.28177e-16	9.02131e-16	0.007413	1	0		A	22383015	A	A	22383015	2	1	4	1	0	0	0	0	0	0	0	1	11097	842	30	5		5	OR4N4	15	22383015	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08		22383015	80148377	3212	5178											
CYFIP1	23191	broad.mit.edu	37	chr15	22945147	22945147	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgttgtcgcagtggagcgcGcacgtgatggaagtggtagg	7	9	18	7	4	0	1	0	1	0	0	1	3	0	3	0	4	1	4	0	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:22945147G>A	uc001yus.2	+	12	1322	c.1218G>A	c.(1216-1218)GCG>GCA	p.A406A	CYFIP1_uc001yut.2_Silent_p.A406A|CYFIP1_uc010aya.1_Silent_p.A434A	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	406					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		AGTGGAGCGCGCACGTGATGG	0.632													7	10					0	0	0.00308	0	0		A	22945147	A	A	22945147	2	1	4	1	0	0	0	0	0	0	0	1	4140	1074	38	1		1	CYFIP1	15	22945147	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	562132	22945147	79586245	3213	5179											
CYFIP1	23191	broad.mit.edu	37	chr15	22997826	22997826	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgtgtgacctgctgcaCgcggctcctttccagaacat	8	10	11	12	2	0	2	0	1	0	1	2	3	2	2	3	1	3	3	3	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:22997826C>T	uc001yus.2	+	27	3176	c.3072C>T	c.(3070-3072)CAC>CAT	p.H1024H	CYFIP1_uc001yut.2_Silent_p.H1024H|CYFIP1_uc001yuu.2_Silent_p.H593H|CYFIP1_uc001yuv.2_Silent_p.H218H	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	1024					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		ACCTGCTGCACGCGGCTCCTT	0.567													14	173					0	0	0.004007	0	0		T	22997826	T	T	22997826	2	4	4	1	0	0	0	0	0	0	0	1	4140	535	19	1		1	CYFIP1	15	22997826	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	52679	22997826	79533566	3214	5180											
NDN	4692	broad.mit.edu	37	chr15	23931741	23931741	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcagcacgttccagacggcGctctctctggcgccgcggcc	4	6	13	18	7	2	1	0	0	2	1	4	1	3	1	3	3	1	4	3	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:23931741G>A	uc001ywk.2	-	1	710	c.624C>T	c.(622-624)AGC>AGT	p.S208S		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	208	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		TCCAGACGGCGCTCTCTCTGG	0.637									Prader-Willi_syndrome				4	15					0	0	0.000602	0	0		A	23931741	A	A	23931741	2	1	4	1	0	0	0	0	0	0	0	1	10266	1078	38	1		1	NDN	15	23931741	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	933915	23931741	78599651	3215	5181											
NDN	4692	broad.mit.edu	37	chr15	23932398	23932398	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagggcagggcctctgcGtccaggagctcttcgagcct	6	7	15	13	2	2	0	0	0	2	0	4	2	3	1	3	4	3	3	3	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:23932398G>A	uc001ywk.2	-	1	53	c.-33C>T	c.(-35--31)GACGC>GATGC			NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin						negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		GGGCCTCTGCGTCCAGGAGCT	0.672									Prader-Willi_syndrome				4	8					0	0	0.009096	0	0		A	23932398	A	A	23932398	1	1	4	1	0	0	0	0	0	0	0	0	10266	1160	40	1		1	NDN	15	23932398	Translation_Start_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	657	23932398	78598994	3216	5182											
C15orf2	23742	broad.mit.edu	37	chr15	24922492	24922492	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcgtaggagcagcgcctcTcacttctgaccccccaacac	9	7	8	17	2	2	1	1	1	2	0	4	2	2	2	4	1	3	2	4	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:24922492T>A	uc001ywo.2	+	1	1952	c.1478T>A	c.(1477-1479)CTC>CAC	p.L493H		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	493	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GCAGCGCCTCTCACTTCTGAC	0.527													65	161					0	0	0.00361	0	0		A	24922492	A	A	24922492	3	1	4	1	0	0	0	0	1	0	0	0	1787	1551	54	5	1480	5	C15orf2	15	24922492	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	990094	24922492	77608900	3217	5183											
ATP10A	57194	broad.mit.edu	37	chr15	25932965	25932965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcggcactgcaaagtcgctgGccatcactgccttcaaaggg	9	8	11	13	2	2	0	2	0	0	0	4	0	2	0	2	3	2	3	2	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:25932965G>A	uc010ayu.2	-	16	3282	c.3176C>T	c.(3175-3177)GCC>GTC	p.A1059V		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1059	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		AAAGTCGCTGGCCATCACTGC	0.517													7	126					0	0	0.006214	0	0		A	25932965	A	A	25932965	3	1	4	1	0	0	0	0	1	0	0	0	1117	1203	42	2	1347	2	ATP10A	15	25932965	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1010473	25932965	76598427	3218	5184											
HERC2	8924	broad.mit.edu	37	chr15	28366571	28366571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactactttccggaaagccGcctcctaaaacacatcaaac	14	8	5	14	2	1	0	1	0	0	0	3	1	3	1	4	1	5	1	4	1	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:28366571G>A	uc001zbj.2	-	86	13299	c.13193C>T	c.(13192-13194)GCG>GTG	p.A4398V		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4398					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CCGGAAAGCCGCCTCCTAAAA	0.433													16	27					0	0	0.006122	0	0		A	28366571	A	A	28366571	3	1	4	1	0	0	0	0	1	0	0	0	7074	1087	38	1	1343	1	HERC2	15	28366571	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2433606	28366571	74164821	3219	5185											
HERC2	8924	broad.mit.edu	37	chr15	28389918	28389918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taactcatcccctgggatgcGcagctcgctggaccagtcgg	7	8	12	14	3	1	0	1	0	0	0	4	2	2	2	3	3	3	3	3	3	1	1	rs143963667		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:28389918G>A	uc001zbj.2	-	72	11147	c.11041C>T	c.(11041-11043)CGC>TGC	p.R3681C		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3681					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CCTGGGATGCGCAGCTCGCTG	0.577													4	26					0	0	0.009096	0	0		A	28389918	A	A	28389918	3	1	4	1	0	0	0	0	1	0	0	0	7074	1087	38	1	3551	1	HERC2	15	28389918	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	23347	28389918	74141474	3220	5186											
HERC2	8924	broad.mit.edu	37	chr15	28501354	28501354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacggtgctcagcacgcccGcactgctggccagggtcacc	6	5	13	17	3	2	0	2	0	0	0	2	0	2	0	3	3	3	5	3	3	0	0	rs149493788		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:28501354G>A	uc001zbj.2	-	18	2733	c.2627C>T	c.(2626-2628)GCG>GTG	p.A876V	HERC2_uc001zbl.1_Missense_Mutation_p.A571V	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	876					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CAGCACGCCCGCACTGCTGGC	0.667													4	13					0	0	0.001984	0	0		A	28501354	A	A	28501354	3	1	4	1	0	0	0	0	1	0	0	0	7074	1087	38	1	12181	1	HERC2	15	28501354	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	111436	28501354	74030038	3221	5187											
APBA2	321	broad.mit.edu	37	chr15	29397673	29397673	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaaccccgaagacttgaGccagaaggaatacagcgaca	16	4	9	12	2	1	3	1	1	0	2	1	6	1	4	3	1	4	0	3	1	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:29397673G>A	uc001zck.2	+	10	1823	c.1616G>A	c.(1615-1617)AGC>AAC	p.S539N	APBA2_uc010azj.2_Missense_Mutation_p.S527N|APBA2_uc010uat.1_Missense_Mutation_p.S527N|APBA2_uc001zcl.2_Missense_Mutation_p.S527N	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	539	PID.				nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		GAAGACTTGAGCCAGAAGGAA	0.562													5	28					0	0	0.001168	0	0		A	29397673	A	A	29397673	3	1	4	1	0	0	0	0	1	0	0	0	757	971	34	2	1646	2	APBA2	15	29397673	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	896319	29397673	73133719	3222	5188											
MTMR10	54893	broad.mit.edu	37	chr15	31253201	31253201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagtggagttttctggctgCtgccaccaccagctccatta	8	11	10	12	0	1	1	0	0	1	1	2	2	2	2	4	2	3	4	4	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:31253201C>T	uc001zfh.1	-	7	739	c.641G>A	c.(640-642)AGC>AAC	p.S214N	MTMR10_uc010azx.1_5'UTR|MTMR10_uc001zfi.1_5'UTR|MTMR10_uc001zfj.2_Missense_Mutation_p.S132N|MTMR10_uc001zfk.2_5'UTR|MTMR10_uc010ubl.1_RNA	NM_017762	NP_060232	Q9NXD2	MTMRA_HUMAN	myotubularin related protein 10	214							phosphatase activity	p.R214Q(1)		ovary(1)	1		all_lung(180;2.81e-11)		all cancers(64;7.26e-15)|Epithelial(43;7.2e-11)|GBM - Glioblastoma multiforme(186;0.000158)|BRCA - Breast invasive adenocarcinoma(123;0.00426)|Lung(196;0.174)		TTTCTGGCTGCTGCCACCACC	0.373													3	6					0	0	0.004672	0	0		T	31253201	T	T	31253201	3	4	4	1	0	0	0	0	1	0	0	0	9957	797	28	2	1732	2	MTMR10	15	31253201	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1855528	31253201	71278191	3223	5189											
TRPM1	4308	broad.mit.edu	37	chr15	31358383	31358383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtcagccaggatgaagtggGtgtgggagttgttgagcaca	9	10	17	5	0	1	2	1	2	0	0	1	4	1	4	1	3	2	3	1	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:31358383G>A	uc001zfm.2	-	6	748	c.620C>T	c.(619-621)ACC>ATC	p.T207I	TRPM1_uc010azy.2_Missense_Mutation_p.T120I|TRPM1_uc001zfl.2_RNA|uc010ubm.1_5'Flank|MIR211_hsa-mir-211|MI0000287_5'Flank	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	207	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		GATGAAGTGGGTGTGGGAGTT	0.532													4	73					0	0	0.009096	0	0		A	31358383	A	A	31358383	3	1	4	1	0	0	0	0	1	0	0	0	16611	1261	44	4	4279	4	TRPM1	15	31358383	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	105182	31358383	71173009	3224	5190											
TRPM1	4308	broad.mit.edu	37	chr15	31362319	31362319	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggtgtgcttggcaacaGaccatttctcaggctgagtc	7	12	12	10	0	2	2	1	1	2	1	4	2	2	2	1	3	2	3	1	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:31362319G>T	uc001zfm.2	-	3	256	c.128C>A	c.(127-129)TCT>TAT	p.S43Y	TRPM1_uc010azy.2_5'Flank|TRPM1_uc001zfl.2_5'Flank|TRPM1_uc001zfn.3_Missense_Mutation_p.S43Y|uc010ubn.1_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	43	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		CTTGGCAACAGACCATTTCTC	0.502													29	408					1.39806e-14	1.52068e-14	0.008361	1	0		T	31362319	T	T	31362319	3	4	4	1	0	0	0	0	1	0	0	0	16611	942	33	5	4783	5	TRPM1	15	31362319	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3936	31362319	71169073	3225	5191											
FMN1	342184	broad.mit.edu	37	chr15	33256409	33256409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaaattcactggggtcccGaatgtcaggttcttctaagg	9	12	10	10	1	5	0	3	0	2	0	6	1	6	0	1	4	0	1	1	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:33256409G>A	uc001zhf.3	-	5	2368	c.2368C>T	c.(2368-2370)CGG>TGG	p.R790W		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	1013	FH2.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		CTGGGGTCCCGAATGTCAGGT	0.373													32	63					0	0	0.002836	0	0		A	33256409	A	A	33256409	3	1	4	1	0	0	0	0	1	0	0	0	5963	1057	37	1	1274	1	FMN1	15	33256409	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1894090	33256409	69274983	3226	5192											
RYR3	6263	broad.mit.edu	37	chr15	34072492	34072492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggagcccacccttaatcGctacaatccactctcggtct	8	10	6	17	2	2	0	0	0	2	0	5	1	3	1	4	2	2	1	4	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:34072492G>A	uc001zhi.2	+	65	9288	c.9218G>A	c.(9217-9219)CGC>CAC	p.R3073H	RYR3_uc010bar.2_Missense_Mutation_p.R3073H	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3073					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		ACCCTTAATCGCTACAATCCA	0.532													7	31					0	0	0.00308	0	0		A	34072492	A	A	34072492	3	1	4	1	0	0	0	0	1	0	0	0	13795	1087	38	1	9476	1	RYR3	15	34072492	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	816083	34072492	68458900	3227	5193											
RYR3	6263	broad.mit.edu	37	chr15	34130165	34130165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacatagggtttaatgtggCtgtgttattgacaaatcttt	10	16	11	4	0	1	1	0	1	1	0	1	2	1	2	0	3	0	3	0	3	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:34130165C>T	uc001zhi.2	+	89	12054	c.11984C>T	c.(11983-11985)GCT>GTT	p.A3995V	RYR3_uc010bar.2_Missense_Mutation_p.A3990V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3995					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTTAATGTGGCTGTGTTATTG	0.448													14	138					0	0	0.003163	0	0		T	34130165	T	T	34130165	3	4	4	1	0	0	0	0	1	0	0	0	13795	797	28	2	12338	2	RYR3	15	34130165	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	57673	34130165	68401227	3228	5194											
RYR3	6263	broad.mit.edu	37	chr15	34134153	34134153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaaaaaagaagaagcggCggtgtggtcagaaggttgag	15	6	16	4	2	1	5	1	2	0	3	1	5	1	5	0	4	1	1	0	4	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:34134153C>T	uc001zhi.2	+	91	13196	c.13126C>T	c.(13126-13128)CGG>TGG	p.R4376W	RYR3_uc010bar.2_Missense_Mutation_p.R4371W	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4376					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GAAGAAGCGGCGGTGTGGTCA	0.458													6	19					0	0	0.001984	0	0		T	34134153	T	T	34134153	3	4	4	1	0	0	0	0	1	0	0	0	13795	759	27	1	13488	1	RYR3	15	34134153	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3988	34134153	68397239	3229	5195											
C15orf24	56851	broad.mit.edu	37	chr15	34393956	34393956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccgatccctcagcagcagCcccgggcacctccgagctct	6	6	9	20	3	2	0	1	0	1	0	5	2	5	0	6	1	4	4	6	1	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:34393956C>T	uc001zhm.2	-	1	98	c.85G>A	c.(85-87)GCT>ACT	p.A29T	C15orf24_uc001zhn.2_5'UTR|PGBD4_uc001zho.2_5'Flank	NM_020154	NP_064539	Q9NPA0	CO024_HUMAN	chromosome 15 open reading frame 24 precursor	29	Extracellular (Potential).					cytoplasm|integral to membrane	carbohydrate binding|carboxypeptidase activity|purine nucleotide binding				0		all_lung(180;1.76e-08)		all cancers(64;2.02e-17)|GBM - Glioblastoma multiforme(113;2.15e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)		TCAGCAGCAGCCCCGGGCACC	0.637													22	46					0	0	0.004656	0	0		T	34393956	T	T	34393956	3	4	4	1	0	0	0	0	1	0	0	0	1789	739	26	2	663	2	C15orf24	15	34393956	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	259803	34393956	68137436	3230	5196											
AQR	9716	broad.mit.edu	37	chr15	35182477	35182477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accaagacgcagtaggtggcGctcatcaatgtctaatgcca	12	8	10	11	2	3	1	2	0	1	1	3	1	3	1	2	2	1	3	2	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:35182477G>A	uc001ziv.2	-	24	2801	c.2620C>T	c.(2620-2622)CGC>TGC	p.R874C		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	874						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		AGTAGGTGGCGCTCATCAATG	0.433													8	158					0	0	0.006214	0	0		A	35182477	A	A	35182477	3	1	4	1	0	0	0	0	1	0	0	0	835	1087	38	1	1885	1	AQR	15	35182477	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	788521	35182477	67348915	3231	5197											
ZNF770	54989	broad.mit.edu	37	chr15	35274899	35274899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcttctttaataaaagaGcccgaaaagccttattccta	13	12	5	11	1	2	1	0	0	2	1	3	2	3	1	4	0	2	0	4	0	7	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:35274899G>A	uc001ziw.2	-	3	1048	c.737C>T	c.(736-738)GCT>GTT	p.A246V		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	246					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		TAATAAAAGAGCCCGAAAAGC	0.368													16	40					0	0	0.00499	0	0		A	35274899	A	A	35274899	3	1	4	1	0	0	0	0	1	0	0	0	18168	971	34	2	1342	2	ZNF770	15	35274899	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	92422	35274899	67256493	3232	5198											
MEIS2	4212	broad.mit.edu	37	chr15	37184485	37184485	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgggtagggggtcctccGtgcatcatcatggctgggtg	4	10	19	8	1	2	0	2	0	0	0	4	0	4	0	2	6	1	3	2	6	1	1	rs139991974		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:37184485G>A	uc001zjr.2	-	12	2360	c.1323C>T	c.(1321-1323)CAC>CAT	p.H441H	MEIS2_uc001zjl.2_3'UTR|MEIS2_uc010ucj.1_Silent_p.H421H|MEIS2_uc001zjm.2_3'UTR|MEIS2_uc001zjn.2_3'UTR|MEIS2_uc001zjo.2_3'UTR|MEIS2_uc001zjp.2_3'UTR|MEIS2_uc001zjs.2_Silent_p.H434H|MEIS2_uc001zju.2_3'UTR|MEIS2_uc001zjt.2_Silent_p.H434H|MEIS2_uc001zjj.2_Silent_p.H137H|MEIS2_uc001zjk.2_Silent_p.H130H	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	441					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		GGGGTCCTCCGTGCATCATCA	0.522													12	206					0	0	0.004007	0	0		A	37184485	A	A	37184485	2	1	4	1	0	0	0	0	0	0	0	1	9486	1136	40	1		1	MEIS2	15	37184485	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1909586	37184485	65346907	3233	5199											
RASGRP1	10125	broad.mit.edu	37	chr15	38800067	38800067	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagatagtcaggcatggCttcatacagggagatgaggt	11	9	13	8	0	2	3	2	1	0	2	3	4	3	3	1	4	1	2	1	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:38800067C>A	uc001zke.3	-	9	1280	c.1102G>T	c.(1102-1104)GCC>TCC	p.A368S	RASGRP1_uc010bbe.2_RNA|RASGRP1_uc010bbf.2_Missense_Mutation_p.A230S|RASGRP1_uc010bbg.2_Missense_Mutation_p.A230S|RASGRP1_uc001zkd.3_Missense_Mutation_p.A368S	NM_005739	NP_005730	O95267	GRP1_HUMAN	RAS guanyl releasing protein 1 isoform a	368	Ras-GEF.				cell differentiation|platelet activation|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|lipid binding|protein binding			large_intestine(1)|ovary(1)	2		all_cancers(109;6.38e-17)|all_epithelial(112;5.51e-15)|Lung NSC(122;2.12e-11)|all_lung(180;5.63e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;1.97e-07)|BRCA - Breast invasive adenocarcinoma(123;0.00248)		TCAGGCATGGCTTCATACAGG	0.517													15	19					2.32078e-09	2.48856e-09	0.003163	1	0		A	38800067	A	A	38800067	3	1	4	1	0	0	0	0	1	0	0	0	13099	797	28	5	1327	5	RASGRP1	15	38800067	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1615582	38800067	63731325	3234	5200											
C15orf53	400359	broad.mit.edu	37	chr15	38990598	38990598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctacctaactgtgccccGccgttcaccacttcctgtct	5	12	5	19	2	2	0	1	0	1	0	4	0	4	0	7	0	3	1	7	0	2	4	rs143270407	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:38990598G>A	uc001zkf.1	+	2	402	c.392G>A	c.(391-393)CGC>CAC	p.R131H		NM_207444	NP_997327	Q8NAA6	CO053_HUMAN	hypothetical protein LOC400359	131											0		all_cancers(109;1.75e-13)|all_epithelial(112;1.02e-11)|Lung NSC(122;1.9e-09)|all_lung(180;4.04e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;8.39e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0321)		ACTGTGCCCCGCCGTTCACCA	0.552													6	12					0	0	0.004482	0	0		A	38990598	A	A	38990598	3	1	4	1	0	0	0	0	1	0	0	0	1804	1087	38	1	398	1	C15orf53	15	38990598	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	190531	38990598	63540794	3235	5201											
THBS1	7057	broad.mit.edu	37	chr15	39885659	39885659	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatcaacaccgaaagggaCgatgactatgctggatttgt	12	11	10	8	2	2	1	2	1	0	0	2	5	2	3	1	2	2	1	1	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:39885659C>T	uc001zkh.2	+	19	3236	c.3057C>T	c.(3055-3057)GAC>GAT	p.D1019D	THBS1_uc010bbi.2_Silent_p.D491D	NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	1019	TSP C-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	CCGAAAGGGACGATGACTATG	0.502													17	167					0	0	0.008871	0	0		T	39885659	T	T	39885659	2	4	4	1	0	0	0	0	0	0	0	1	15878	535	19	1		1	THBS1	15	39885659	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	895061	39885659	62645733	3236	5202											
GPR176	11245	broad.mit.edu	37	chr15	40094085	40094085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatggagagcagggtggCgtgcagctcggcctcccgct	6	6	15	14	3	0	1	0	0	0	1	2	2	1	1	3	4	3	4	3	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:40094085C>T	uc001zkj.1	-	3	1662	c.796G>A	c.(796-798)GCC>ACC	p.A266T	GPR176_uc010uck.1_Missense_Mutation_p.A206T	NM_007223	NP_009154	Q14439	GP176_HUMAN	G protein-coupled receptor 176	266	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		all_cancers(109;4.05e-15)|all_epithelial(112;2.96e-13)|Lung NSC(122;8.53e-11)|all_lung(180;2.71e-09)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;4.4e-06)|BRCA - Breast invasive adenocarcinoma(123;0.123)		AGCAGGGTGGCGTGCAGCTCG	0.582											OREG0023053	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	31					0	0	0.00245	0	0		T	40094085	T	T	40094085	3	4	4	1	0	0	0	0	1	0	0	0	6688	768	27	1	755	1	GPR176	15	40094085	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	208426	40094085	62437307	3237	5203											
PLCB2	5330	broad.mit.edu	37	chr15	40585208	40585208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacagccactctgagggaggCcagctcaggcatcaagatct	11	6	11	13	0	4	2	2	1	2	1	4	3	4	3	2	3	2	2	2	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:40585208C>T	uc001zld.2	-	21	2546	c.2245G>A	c.(2245-2247)GCC>ACC	p.A749T	PLCB2_uc001zlc.2_5'Flank|PLCB2_uc010bbo.2_Missense_Mutation_p.A745T|PLCB2_uc010ucm.1_Missense_Mutation_p.A749T	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	749	C2.				activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		CTGAGGGAGGCCAGCTCAGGC	0.577													12	29					0	0	0.008871	0	0		T	40585208	T	T	40585208	3	4	4	1	0	0	0	0	1	0	0	0	12047	739	26	2	1360	2	PLCB2	15	40585208	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	491123	40585208	61946184	3238	5204											
PLCB2	5330	broad.mit.edu	37	chr15	40591154	40591154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttcgtcatgtagggtttgGccttagcatggcttcaagcc	6	13	11	11	1	2	0	2	0	0	0	3	0	2	0	3	3	2	4	3	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:40591154G>A	uc001zld.2	-	9	996	c.695C>T	c.(694-696)GCC>GTC	p.A232V	PLCB2_uc010bbo.2_Missense_Mutation_p.A232V|PLCB2_uc010ucm.1_Missense_Mutation_p.A232V	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	232					activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		GTAGGGTTTGGCCTTAGCATG	0.572													8	81					0	0	0.00308	0	0		A	40591154	A	A	40591154	3	1	4	1	0	0	0	0	1	0	0	0	12047	1203	42	2	2958	2	PLCB2	15	40591154	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5946	40591154	61940238	3239	5205											
CASC5	57082	broad.mit.edu	37	chr15	40937938	40937938	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcactcaccaaggaaaagtgGctctgtatggcaagctggtg	11	9	12	9	0	3	0	2	0	1	0	3	1	3	1	1	4	1	4	1	4	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:40937938G>A	uc010bbs.1	+	17	6213	c.6052G>A	c.(6052-6054)GCT>ACT	p.A2018T	CASC5_uc010bbt.1_Missense_Mutation_p.A1992T	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	2018	Necessary for kinetochore localization and for interaction with NSL1 and DSN1.|Potential.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		AGGAAAAGTGGCTCTGTATGG	0.353													12	50					0	0	0.001368	0	0		A	40937938	A	A	40937938	3	1	4	1	0	0	0	0	1	0	0	0	2666	1203	42	2	6114	2	CASC5	15	40937938	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	346784	40937938	61593454	3240	5206											
INO80	54617	broad.mit.edu	37	chr15	41276493	41276493	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgagggaacaaatgggaTcaccaggttcacaccctctt	12	7	10	12	1	3	0	2	0	1	0	3	3	3	2	3	3	2	1	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:41276493T>C	uc001zni.2	-	33	4192	c.3979A>G	c.(3979-3981)ATC>GTC	p.I1327V	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	1327	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						ACAAATGGGATCACCAGGTTC	0.478													11	40					0	0	0.001368	0	0		C	41276493	C	C	41276493	3	2	4	1	0	0	0	0	1	0	0	0	7762	1435	50	3	707	3	INO80	15	41276493	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	338555	41276493	61254899	3241	5207											
MGA	23269	broad.mit.edu	37	chr15	41961288	41961288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctaaagggaagatttgcCttccagctgattgtactgtg	11	13	10	7	0	1	2	0	1	1	1	2	3	2	3	2	1	3	2	2	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:41961288C>T	uc001zog.1	+	2	287	c.196C>T	c.(196-198)CTT>TTT	p.L66F	MGA_uc010ucy.1_Missense_Mutation_p.L66F|MGA_uc010ucz.1_Missense_Mutation_p.L66F	NM_001080541	NP_001074010	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 2	66						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		GAAGATTTGCCTTCCAGCTGA	0.408													32	84					0	0	0.002096	0	0		T	41961288	T	T	41961288	3	4	4	1	0	0	0	0	1	0	0	0	9558	681	24	4	198	4	MGA	15	41961288	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	684795	41961288	60570104	3242	5208											
MGA	23269	broad.mit.edu	37	chr15	42035042	42035042	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaactaaagaaactacttaTtcttctggtgccaccactac	14	11	5	11	0	2	1	0	0	2	1	2	2	2	1	2	1	5	0	2	1	7	6	rs111793456		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:42035042T>A	uc010ucy.1	+	15	5065	c.4884T>A	c.(4882-4884)TAT>TAA	p.Y1628*	MGA_uc010ucz.1_Intron|MGA_uc010uda.1_Nonsense_Mutation_p.Y244*	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1628	Thr-rich.					MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		AAACTACTTATTCTTCTGGTG	0.443													4	78					0	0	0.009096	0	0		A	42035042	A	A	42035042	4	1	4	1	0	0	0	0	0	1	0	0	9558	1500	52	5	4938	5	MGA	15	42035042	Nonsense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	73754	42035042	60496350	3243	5209											
MAPKBP1	23005	broad.mit.edu	37	chr15	42105237	42105237	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtaccttctgcatcacgTcctcagggctgctgtgcgag	7	10	11	13	2	3	0	2	0	1	0	4	1	4	0	2	1	4	4	2	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:42105237T>A	uc001zok.3	+	8	1043	c.757T>A	c.(757-759)TCC>ACC	p.S253T	MAPKBP1_uc001zoj.3_Missense_Mutation_p.S253T|MAPKBP1_uc010bcj.2_5'UTR|MAPKBP1_uc010bci.2_Missense_Mutation_p.S253T|MAPKBP1_uc010udb.1_Missense_Mutation_p.S141T|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_5'UTR	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	253										central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		CTGCATCACGTCCTCAGGGCT	0.582													7	117					0	0	0.004482	0	0		A	42105237	A	A	42105237	3	1	4	1	0	0	0	0	1	0	0	0	9310	1667	58	5	783	5	MAPKBP1	15	42105237	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	70195	42105237	60426155	3244	5210											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42132384	42132384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaggacctgcctgctcaCggttcgtgtcctgcaggccc	4	9	12	16	2	1	0	1	0	0	0	4	1	3	1	5	3	3	3	5	3	0	1	rs149781451	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:42132384C>T	uc010bco.2	+	2	139	c.38C>T	c.(37-39)ACG>ATG	p.T13M	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.T244M|JMJD7-PLA2G4B_uc010bcn.2_Missense_Mutation_p.T244M|JMJD7-PLA2G4B_uc001zoq.3_Translation_Start_Site|JMJD7-PLA2G4B_uc001zor.1_5'Flank	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	13	C2.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						TGCCTGCTCACGGTTCGTGTC	0.662													6	21					0	0	0.001984	0	0		T	42132384	T	T	42132384	3	4	4	1	0	0	0	0	1	0	0	0	7971	536	19	1	757	1	JMJD7-PLA2G4B	15	42132384	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	27147	42132384	60399008	3245	5211											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42139574	42139574	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctgccaggagcaggggAtcccgttcccacccatctcg	6	8	12	15	2	2	0	0	0	2	0	5	2	4	2	4	4	2	3	4	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:42139574A>G	uc010bco.2	+	19	2088	c.1987A>G	c.(1987-1989)ATC>GTC	p.I663V	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.I894V|JMJD7-PLA2G4B_uc010bcn.2_Intron|JMJD7-PLA2G4B_uc001zoq.3_Missense_Mutation_p.I364V	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	663	PLA2c.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						GGAGCAGGGGATCCCGTTCCC	0.692													4	48					0	0	0.000602	0	0		G	42139574	G	G	42139574	3	3	4	1	0	0	0	0	1	0	0	0	7971	333	12	3	2774	3	JMJD7-PLA2G4B	15	42139574	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	7190	42139574	60391818	3246	5212											
PLA2G4F	255189	broad.mit.edu	37	chr15	42436328	42436328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgagctggttggggaaggCgtccgggtgtgtgtctgcaa	5	10	20	6	2	1	1	0	1	1	0	2	2	2	2	1	6	2	3	1	6	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:42436328C>T	uc001zoz.2	-	18	2053	c.1990G>A	c.(1990-1992)GCC>ACC	p.A664T	PLA2G4F_uc010bcq.2_Intron|PLA2G4F_uc001zoy.2_Missense_Mutation_p.A296T|PLA2G4F_uc010bcr.2_Missense_Mutation_p.A415T|PLA2G4F_uc001zpa.2_Missense_Mutation_p.A415T|PLA2G4F_uc010bcs.2_Missense_Mutation_p.A451T	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	664	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		TTGGGGAAGGCGTCCGGGTGT	0.572													9	38					0	0	0.008291	0	0		T	42436328	T	T	42436328	3	4	4	1	0	0	0	0	1	0	0	0	12025	768	27	1	571	1	PLA2G4F	15	42436328	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	296754	42436328	60095064	3247	5213											
EPB42	2038	broad.mit.edu	37	chr15	43498659	43498659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcactgtgattaaccagcGtcactgagatctgggcatcc	9	10	10	12	1	3	2	2	2	1	1	4	3	4	2	2	1	2	2	2	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:43498659G>A	uc001zra.3	-	10	1787	c.1487C>T	c.(1486-1488)ACG>ATG	p.T496M	EPB42_uc001zqz.3_Missense_Mutation_p.T163M|EPB42_uc010bde.2_Missense_Mutation_p.T341M|EPB42_uc001zrb.3_Missense_Mutation_p.T526M|EPB42_uc010udm.1_Missense_Mutation_p.T418M	NM_001114134	NP_001107606	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2 isoform 2	496					erythrocyte maturation|peptide cross-linking|regulation of cell shape	cytoplasm|cytoskeleton|plasma membrane	ATP binding|protein binding|protein-glutamine gamma-glutamyltransferase activity|structural constituent of cytoskeleton			ovary(2)	2		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		ATTAACCAGCGTCACTGAGAT	0.582													5	146					0	0	0.000602	0	0		A	43498659	A	A	43498659	3	1	4	1	0	0	0	0	1	0	0	0	5166	1145	40	1	604	1	EPB42	15	43498659	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1062331	43498659	59032733	3248	5214											
TGM5	9333	broad.mit.edu	37	chr15	43552444	43552444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggctggggctgtgatggCgtgccaggctgaacacagcc	7	6	18	10	1	0	2	0	2	0	0	0	2	0	2	2	6	3	3	2	6	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:43552444C>T	uc001zrd.1	-	3	250	c.242G>A	c.(241-243)CGC>CAC	p.R81H	TGM5_uc001zre.1_Intron	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	81					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	GCTGTGATGGCGTGCCAGGCT	0.677													5	20					0	0	0.001168	0	0		T	43552444	T	T	43552444	3	4	4	1	0	0	0	0	1	0	0	0	15858	768	27	1	1964	1	TGM5	15	43552444	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	53785	43552444	58978948	3249	5215											
PPIP5K1	9677	broad.mit.edu	37	chr15	43826900	43826900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcctcagggacctcctggGcctgcagatcaatctcctca	7	10	8	16	0	5	1	3	0	2	1	8	2	6	2	5	2	1	1	5	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:43826900G>A	uc001zrw.2	-	31	4457	c.4274C>T	c.(4273-4275)GCC>GTC	p.A1425V	PPIP5K1_uc001zrx.1_Missense_Mutation_p.A1398V|PPIP5K1_uc001zru.2_Missense_Mutation_p.A1400V|PPIP5K1_uc001zry.3_Missense_Mutation_p.A1400V|PPIP5K1_uc001zrv.2_Missense_Mutation_p.A1186V	NM_001130858	NP_001124330	Q6PFW1	VIP1_HUMAN	histidine acid phosphatase domain containing 2A	1425					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity				0						GACCTCCTGGGCCTGCAGATC	0.522													10	157					0	0	0.006214	0	0		A	43826900	A	A	43826900	3	1	4	1	0	0	0	0	1	0	0	0	12354	1203	42	2	31	2	PPIP5K1	15	43826900	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	274456	43826900	58704492	3250	5216											
CATSPER2	117155	broad.mit.edu	37	chr15	43924939	43924939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agattcagaaaatctggattCagaagaggaagaataggaag	19	7	12	3	0	3	5	2	0	1	5	3	8	3	8	0	3	0	0	0	3	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:43924939C>T	uc001zsh.2	-	11	1587	c.1372G>A	c.(1372-1374)GAA>AAA	p.E458K	STRC_uc010udz.1_5'Flank|CATSPER2_uc010bdm.2_Intron|CATSPER2_uc001zsi.2_Missense_Mutation_p.E456K|CATSPER2_uc001zsj.2_Missense_Mutation_p.E456K	NM_172095	NP_742093	Q96P56	CTSR2_HUMAN	sperm-associated cation channel 2 isoform 2	458	Cytoplasmic (Potential).|Ser-rich.				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|protein binding|voltage-gated ion channel activity			ovary(1)	1		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		AATCTGGATTCAgaagaggaa	0.264													22	51					0	0	0.002299	0	0		T	43924939	T	T	43924939	3	4	4	1	0	0	0	0	1	0	0	0	2691	835	29	4	232	4	CATSPER2	15	43924939	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	98039	43924939	58606453	3251	5217											
WDR76	79968	broad.mit.edu	37	chr15	44120406	44120406	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaaagatgaaaaacacaTcttccaaggcagaatccacg	17	6	6	12	1	1	3	0	1	1	2	4	3	4	3	3	1	1	1	3	1	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:44120406T>A	uc001zti.1	+	2	327	c.304T>A	c.(304-306)TCT>ACT	p.S102T		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	102											0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)		GAAAAACACATCTTCCAAGGC	0.393													39	76					0	0	0.006999	0	0		A	44120406	A	A	44120406	3	1	4	1	0	0	0	0	1	0	0	0	17352	1435	50	5	310	5	WDR76	15	44120406	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	195467	44120406	58410986	3252	5218											
DUOX2	50506	broad.mit.edu	37	chr15	45391910	45391910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcggtggaagtccactgcgGcatcaaaaggcacatagcgg	12	5	14	10	3	1	0	1	0	0	0	2	1	2	1	1	5	3	2	1	5	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:45391910G>A	uc010bea.2	-	25	3568	c.3365C>T	c.(3364-3366)GCC>GTC	p.A1122V	DUOX2_uc001zun.2_Missense_Mutation_p.A1122V	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1122	Interaction with TXNDC11 (By similarity).|Cytoplasmic (Potential).|Ferric oxidoreductase.				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		GTCCACTGCGGCATCAAAAGG	0.547													19	48					0	0	0.002299	0	0		A	45391910	A	A	45391910	3	1	4	1	0	0	0	0	1	0	0	0	4807	1203	42	2	1321	2	DUOX2	15	45391910	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1271504	45391910	57139482	3253	5219											
SLC30A4	7782	broad.mit.edu	37	chr15	45777398	45777398	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaatttgcacaagttctgTccacttcttgcctgtaactc	9	14	6	12	0	2	0	0	0	2	0	4	1	3	0	2	0	3	3	2	0	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:45777398T>C	uc001zvj.2	-	8	1565	c.1253A>G	c.(1252-1254)GAC>GGC	p.D418G		NM_013309	NP_037441	O14863	ZNT4_HUMAN	solute carrier family 30 (zinc transporter),	418	Cytoplasmic (Potential).				regulation of sequestering of zinc ion|response to toxin	endosome membrane|integral to membrane|late endosome	zinc ion transmembrane transporter activity				0		Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.58e-16)|GBM - Glioblastoma multiforme(94;2.15e-06)		ACAAGTTCTGTCCACTTCTTG	0.378													12	30					0	0	0.001855	0	0		C	45777398	C	C	45777398	3	2	4	1	0	0	0	0	1	0	0	0	14582	1667	58	3	40	3	SLC30A4	15	45777398	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	385488	45777398	56753994	3254	5220											
SEMA6D	80031	broad.mit.edu	37	chr15	48052028	48052028	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctttgtgcctacatactGctgctgatggtttcccagtt	5	16	9	11	0	0	1	0	1	0	0	1	1	1	1	2	1	6	5	2	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:48052028G>C	uc010bek.2	+	2	393	c.33G>C	c.(31-33)CTG>CTC	p.L11L	SEMA6D_uc001zvw.2_Silent_p.L11L|SEMA6D_uc001zvx.1_Silent_p.L11L|SEMA6D_uc001zvy.2_Silent_p.L11L|SEMA6D_uc001zvz.2_Silent_p.L11L|SEMA6D_uc001zwa.2_Silent_p.L11L|SEMA6D_uc001zwb.2_Silent_p.L11L|SEMA6D_uc001zwc.2_Silent_p.L11L	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	11					axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		CCTACATACTGCTGCTGATGG	0.502													3	51					0	0	0.000602	0	0		C	48052028	C	C	48052028	2	2	4	1	0	0	0	0	0	0	0	1	14067	1306	46	5		5	SEMA6D	15	48052028	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2274630	48052028	54479364	3255	5221											
SEMA6D	80031	broad.mit.edu	37	chr15	48054484	48054484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtgatggatctgcccttcGcacaataaaatatgattcca	12	11	9	9	1	1	2	0	2	1	0	3	3	2	3	2	2	1	1	2	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:48054484G>A	uc010bek.2	+	8	986	c.626G>A	c.(625-627)CGC>CAC	p.R209H	SEMA6D_uc001zvw.2_Missense_Mutation_p.R209H|SEMA6D_uc001zvx.1_Missense_Mutation_p.R209H|SEMA6D_uc001zvy.2_Missense_Mutation_p.R209H|SEMA6D_uc001zvz.2_Missense_Mutation_p.R209H|SEMA6D_uc001zwa.2_Missense_Mutation_p.R209H|SEMA6D_uc001zwb.2_Missense_Mutation_p.R209H|SEMA6D_uc001zwc.2_Missense_Mutation_p.R209H	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	209	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		TCTGCCCTTCGCACAATAAAA	0.498													5	64					0	0	0.000602	0	0		A	48054484	A	A	48054484	3	1	4	1	0	0	0	0	1	0	0	0	14067	1087	38	1	652	1	SEMA6D	15	48054484	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2456	48054484	54476908	3256	5222											
SLC12A1	6557	broad.mit.edu	37	chr15	48518712	48518712	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttctttccaccatggtaaCttctattactgggttgtcaa	8	17	6	10	0	4	0	1	0	3	0	5	0	5	0	2	2	2	2	2	2	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:48518712C>A	uc001zwn.3	+	5	884	c.668C>A	c.(667-669)ACT>AAT	p.T223N	SLC12A1_uc010uew.1_Missense_Mutation_p.T29N|SLC12A1_uc010bem.2_Intron|SLC12A1_uc010uex.1_Missense_Mutation_p.T223N|SLC12A1_uc001zwq.3_5'UTR|SLC12A1_uc001zwr.3_5'UTR	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	223	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	ACCATGGTAACTTCTATTACT	0.393													17	46					5.35267e-07	5.69518e-07	0.007413	1	0		A	48518712	A	A	48518712	3	1	4	1	0	0	0	0	1	0	0	0	14407	565	20	5	682	5	SLC12A1	15	48518712	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	464228	48518712	54012680	3257	5223											
FBN1	2200	broad.mit.edu	37	chr15	48791196	48791196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttaccactgcctgctgacGtcattcctggcccactgctg	5	11	8	17	1	1	1	1	1	0	0	2	1	2	1	5	1	4	2	5	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:48791196G>A	uc001zwx.1	-	18	2481	c.2153C>T	c.(2152-2154)ACG>ATG	p.T718M		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	718					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GCCTGCTGACGTCATTCCTGG	0.458													11	148					0	0	0.008291	0	0		A	48791196	A	A	48791196	3	1	4	1	0	0	0	0	1	0	0	0	5716	1145	40	1	6658	1	FBN1	15	48791196	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	272484	48791196	53740196	3258	5224											
FBN1	2200	broad.mit.edu	37	chr15	48936939	48936939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcacggtaaatcccagggCgatctccagcagacgccctc	11	5	10	15	3	1	1	0	0	1	1	4	2	2	1	3	2	2	3	3	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:48936939C>T	uc001zwx.1	-	2	356	c.28G>A	c.(28-30)GCC>ACC	p.A10T		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	10					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		AATCCCAGGGCGATCTCCAGC	0.687													9	25					0	0	0.004482	0	0		T	48936939	T	T	48936939	3	4	4	1	0	0	0	0	1	0	0	0	5716	768	27	1	8847	1	FBN1	15	48936939	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	145743	48936939	53594453	3259	5225											
SECISBP2L	9728	broad.mit.edu	37	chr15	49304895	49304895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaatttccttctcttttcCtttttttgctttagaagaag	7	21	5	8	0	1	2	0	0	1	2	4	2	3	2	2	0	2	2	2	0	4	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:49304895C>T	uc001zxe.1	-	12	1815	c.1681G>A	c.(1681-1683)GGA>AGA	p.G561R	SECISBP2L_uc001zxd.1_Missense_Mutation_p.G516R|SECISBP2L_uc010bep.1_Missense_Mutation_p.G323R	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	561										breast(1)|skin(1)	2						TTCTCTTTTCCTTTTTTTGCT	0.333													32	95					0	0	0.004878	0	0		T	49304895	T	T	49304895	3	4	4	1	0	0	0	0	1	0	0	0	14032	690	24	4	1652	4	SECISBP2L	15	49304895	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	367956	49304895	53226497	3260	5226											
C15orf33	196951	broad.mit.edu	37	chr15	49903459	49903459	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgctctttggaggttcttGcattttctaataaagtaata	12	17	7	5	0	3	0	0	0	3	0	3	1	3	1	0	2	2	4	0	2	6	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:49903459G>A	uc001zxl.2	-	3	352	c.58C>T	c.(58-60)CAA>TAA	p.Q20*	C15orf33_uc001zxm.2_Nonsense_Mutation_p.Q20*	NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	20										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)		GGAGGTTCTTGCATTTTCTAA	0.259													13	35					0	0	0.00245	0	0		A	49903459	A	A	49903459	4	1	4	1	0	0	0	0	0	1	0	0	1794	1328	46	2	1524	2	C15orf33	15	49903459	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	598564	49903459	52627933	3261	5227											
DTWD1	56986	broad.mit.edu	37	chr15	49924402	49924402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acatccaaatgaaacagatgGcaaaagtactgctatacatg	18	8	7	8	0	0	2	0	1	0	1	1	2	1	2	1	1	4	3	1	1	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:49924402G>A	uc001zxq.2	+	4	588	c.311G>A	c.(310-312)GGC>GAC	p.G104D	DTWD1_uc001zxs.2_Missense_Mutation_p.G104D|DTWD1_uc001zxr.2_Missense_Mutation_p.G17D|DTWD1_uc001zxo.2_Missense_Mutation_p.G104D	NM_020234	NP_064619	Q8N5C7	DTWD1_HUMAN	DTW domain containing 1	104											0		all_lung(180;0.0384)		all cancers(107;3.27e-08)|GBM - Glioblastoma multiforme(94;7.6e-05)		gaaaCAGATGGCAAAAGTACT	0.194													9	49					0	0	0.006214	0	0		A	49924402	A	A	49924402	3	1	4	1	0	0	0	0	1	0	0	0	4797	1203	42	2	317	2	DTWD1	15	49924402	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	20943	49924402	52606990	3262	5228											
SLC27A2	11001	broad.mit.edu	37	chr15	50494717	50494717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccatgatcactcatcagcGcatatggtatggaactggcc	11	9	10	11	1	3	1	3	1	0	0	3	2	3	2	2	3	3	2	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:50494717G>A	uc001zxw.2	+	3	954	c.722G>A	c.(721-723)CGC>CAC	p.R241H	SLC27A2_uc010bes.2_Intron|SLC27A2_uc001zxx.2_Missense_Mutation_p.R6H	NM_003645	NP_003636	O14975	S27A2_HUMAN	solute carrier family 27 (fatty acid	241	Lumenal (Potential).				bile acid biosynthetic process|fatty acid alpha-oxidation	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity|phytanate-CoA ligase activity|pristanate-CoA ligase activity			ovary(1)|skin(1)	2		all_lung(180;0.00177)		all cancers(107;1.16e-06)|GBM - Glioblastoma multiforme(94;0.000113)		ACTCATCAGCGCATATGGTAT	0.428													27	60					0	0	0.003271	0	0		A	50494717	A	A	50494717	3	1	4	1	0	0	0	0	1	0	0	0	14551	1087	38	1	732	1	SLC27A2	15	50494717	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	570315	50494717	52036675	3263	5229											
SCG3	29106	broad.mit.edu	37	chr15	51975601	51975601	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatcgatgattatgactctActaagagtggattggatcat	12	14	10	5	1	2	4	1	3	1	1	3	7	2	6	0	2	1	0	0	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:51975601A>G	uc002abh.2	+	4	775	c.367A>G	c.(367-369)ACT>GCT	p.T123A	SCG3_uc010ufz.1_5'UTR	NM_013243	NP_037375	Q8WXD2	SCG3_HUMAN	secretogranin III isoform 1 precursor	123					platelet activation|platelet degranulation	extracellular region|stored secretory granule				ovary(1)	1				all cancers(107;0.00488)		TTATGACTCTACTAAGAGTGG	0.328													6	135					0	0	0.001984	0	0		G	51975601	G	G	51975601	3	3	4	1	0	0	0	0	1	0	0	0	13917	391	14	3	381	3	SCG3	15	51975601	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1480884	51975601	50555791	3264	5230											
MAPK6	5597	broad.mit.edu	37	chr15	52356133	52356133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agttttcagagcatgattggCctgtacataacaactttgat	12	14	8	7	0	1	3	1	2	0	1	1	3	1	3	1	1	4	3	1	1	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:52356133C>T	uc002abp.2	+	6	1896	c.1102C>T	c.(1102-1104)CCT>TCT	p.P368S		NM_002748	NP_002739	Q16659	MK06_HUMAN	mitogen-activated protein kinase 6	368					cell cycle		ATP binding|MAP kinase activity			lung(3)|ovary(1)	4				all cancers(107;0.0028)		GCATGATTGGCCTGTACATAA	0.323													7	78					0	0	0.001984	0	0		T	52356133	T	T	52356133	3	4	4	1	0	0	0	0	1	0	0	0	9299	739	26	2	1120	2	MAPK6	15	52356133	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	380532	52356133	50175259	3265	5231											
BCL2L10	10017	broad.mit.edu	37	chr15	52402115	52402115	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaaaagcctggaccagcTgttttctccaaaaagccagt	14	8	8	11	0	1	1	0	0	1	1	2	2	1	2	4	1	3	2	4	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:52402115T>C	uc002abq.2	-	2	594	c.545A>G	c.(544-546)CAG>CGG	p.Q182R		NM_020396	NP_065129	Q9HD36	B2L10_HUMAN	BCL2-like 10 (apoptosis facilitator)	172					activation of caspase activity|anti-apoptosis|female gamete generation|spermatogenesis	cytosol|integral to membrane|membrane fraction|mitochondrion|nuclear membrane	protein binding				0				all cancers(107;0.0148)		CTGGACCAGCTGTTTTCTCCA	0.438													8	131					0	0	0.000978	0	0		C	52402115	C	C	52402115	3	2	4	1	0	0	0	0	1	0	0	0	1369	1580	55	3	73	3	BCL2L10	15	52402115	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	45982	52402115	50129277	3266	5232											
MYO5C	55930	broad.mit.edu	37	chr15	52497304	52497304	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcctgtgggcttcaggccGgaaatgccctgcaggctctc	7	8	13	13	1	2	0	1	0	1	0	3	1	2	1	3	4	3	3	3	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:52497304G>A	uc010bff.2	-	38	4715	c.4578C>T	c.(4576-4578)TCC>TCT	p.S1526S	MYO5C_uc010uga.1_RNA|uc002abv.2_RNA	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	1526	Dilute.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		GCTTCAGGCCGGAAATGCCCT	0.597													12	44					0	0	0.007413	0	0		A	52497304	A	A	52497304	2	1	4	1	0	0	0	0	0	0	0	1	10098	1103	39	1		1	MYO5C	15	52497304	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	95189	52497304	50034088	3267	5233											
MYO5C	55930	broad.mit.edu	37	chr15	52571811	52571811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgaggtcattctcgcccaCgaggatgtcaggattccgaa	9	9	12	11	4	3	1	2	1	1	0	5	5	4	3	2	3	0	0	2	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:52571811C>T	uc010bff.2	-	3	336	c.199G>A	c.(199-201)GTG>ATG	p.V67M	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA|MYO5C_uc010ugc.1_Missense_Mutation_p.V30M|MIR1266_hsa-mir-1266|MI0006403_5'Flank	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	67	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		TTCTCGCCCACGAGGATGTCA	0.468													16	28					0	0	0.008871	0	0		T	52571811	T	T	52571811	3	4	4	1	0	0	0	0	1	0	0	0	10098	536	19	1	5185	1	MYO5C	15	52571811	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	74507	52571811	49959581	3268	5234											
DYX1C1	161582	broad.mit.edu	37	chr15	55724799	55724799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcatcaataattccagtGccttacaaaatatatataat	16	13	5	7	0	1	0	1	0	0	0	2	0	2	0	2	1	2	1	2	1	9	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:55724799G>A	uc002adc.2	-	9	1417	c.1049C>T	c.(1048-1050)GCA>GTA	p.A350V	CCPG1_uc002acy.2_5'UTR|DYX1C1_uc010ugh.1_Intron|DYX1C1_uc010ugi.1_RNA|DYX1C1_uc002adb.2_Intron|DYX1C1_uc002add.2_Intron	NM_130810	NP_570722	Q8WXU2	DYXC1_HUMAN	dyslexia susceptibility 1 candidate 1 isoform a	350	TPR 2.				neuron migration|regulation of estrogen receptor signaling pathway|regulation of proteasomal protein catabolic process	cytoplasm|nucleus	estrogen receptor binding			skin(1)	1				all cancers(107;0.0118)|GBM - Glioblastoma multiforme(80;0.171)		TAATTCCAGTGCCTTACAAAA	0.259													14	37					0	0	0.00245	0	0		A	55724799	A	A	55724799	3	1	4	1	0	0	0	0	1	0	0	0	4868	1333	46	2	324	2	DYX1C1	15	55724799	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3152988	55724799	46806593	3269	5235											
RFX7	64864	broad.mit.edu	37	chr15	56386815	56386815	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacttgagacaatgctggcGtcatgatatgccatactgga	11	11	10	9	1	1	2	1	2	0	1	1	4	1	3	1	2	4	1	1	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:56386815G>A	uc010bfn.2	-	9	3111	c.3111C>T	c.(3109-3111)GAC>GAT	p.D1037D	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Silent_p.D851D	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	940					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						CAATGCTGGCGTCATGATATG	0.483													32	58					0	0	0.002096	0	0		A	56386815	A	A	56386815	2	1	4	1	0	0	0	0	0	0	0	1	13293	1136	40	1		1	RFX7	15	56386815	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	662016	56386815	46144577	3270	5236											
GCOM1	145781	broad.mit.edu	37	chr15	57913876	57913876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagatgagacagaagattcGacagctcacccaggaactat	15	7	10	9	1	1	4	1	2	0	4	2	8	1	5	1	1	2	1	1	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:57913876G>A	uc002aei.2	+	4	508	c.389G>A	c.(388-390)CGA>CAA	p.R130Q	GCOM1_uc002aej.2_Missense_Mutation_p.R130Q|GCOM1_uc002aek.2_Intron|GCOM1_uc002ael.2_Intron|GCOM1_uc002aem.2_Missense_Mutation_p.R130Q|GCOM1_uc002aeq.2_RNA|GCOM1_uc002aen.2_RNA|GCOM1_uc010bfy.2_RNA|GCOM1_uc002aeo.2_Missense_Mutation_p.R130Q|GCOM1_uc002aep.2_RNA|GCOM1_uc010bfx.2_RNA	NM_001018100	NP_001018110	P0CAP1	GCOM1_HUMAN	GRINL1A upstream protein isoform 7	130	Potential.				intracellular signal transduction	extrinsic to internal side of plasma membrane|I band				ovary(1)	1						CAGAAGATTCGACAGCTCACC	0.468													29	88					0	0	0.002445	0	0		A	57913876	A	A	57913876	3	1	4	1	0	0	0	0	1	0	0	0	6319	1058	37	1	403	1	GCOM1	15	57913876	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1527061	57913876	44617516	3271	5237											
GCOM1	145781	broad.mit.edu	37	chr15	57929897	57929897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgtttgttttaggaacGtcatcaactgcaacttcaac	10	16	6	9	1	4	0	3	0	1	0	4	1	4	1	0	1	5	3	0	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:57929897G>A	uc002aei.2	+	9	1057	c.938G>A	c.(937-939)CGT>CAT	p.R313H	GCOM1_uc002aej.2_Missense_Mutation_p.R313H|GCOM1_uc002aek.2_RNA|GCOM1_uc002ael.2_RNA|GCOM1_uc002aem.2_Missense_Mutation_p.R313H|GCOM1_uc002aeq.2_RNA|GCOM1_uc002aen.2_RNA|GCOM1_uc010bfy.2_RNA|GCOM1_uc002aeo.2_Missense_Mutation_p.R313H|GCOM1_uc002aep.2_RNA|GCOM1_uc010bfx.2_RNA	NM_001018100	NP_001018110	P0CAP1	GCOM1_HUMAN	GRINL1A upstream protein isoform 7	313	Potential.				intracellular signal transduction	extrinsic to internal side of plasma membrane|I band				ovary(1)	1						TTTTAGGAACGTCATCAACTG	0.383													5	33					0	0	0.001168	0	0		A	57929897	A	A	57929897	3	1	4	1	0	0	0	0	1	0	0	0	6319	1145	40	1	972	1	GCOM1	15	57929897	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	16021	57929897	44601495	3272	5238											
ALDH1A2	8854	broad.mit.edu	37	chr15	58357819	58357819	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggggtcggccttcacctcGccgggcatctctatcttgct	3	11	12	15	4	3	0	1	0	2	0	6	0	3	0	3	4	1	2	3	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:58357819G>A	uc002aex.2	-	1	88	c.30C>T	c.(28-30)GGC>GGT	p.G10G	ALDH1A2_uc002aey.2_Silent_p.G10G|ALDH1A2_uc010ugv.1_5'UTR|ALDH1A2_uc010ugw.1_Intron	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	10					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	CCTTCACCTCGCCGGGCATCT	0.607													4	4					0	0	0.009096	0	0		A	58357819	A	A	58357819	2	1	4	1	0	0	0	0	0	0	0	1	491	1074	38	1		1	ALDH1A2	15	58357819	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	427922	58357819	44173573	3273	5239											
RNF111	54778	broad.mit.edu	37	chr15	59323599	59323599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactgagacagaatctgtatCgggattgttaatgaaaagac	15	10	11	5	1	1	4	0	2	1	3	2	7	1	5	0	1	0	2	0	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:59323599C>T	uc002afv.2	+	2	857	c.578C>T	c.(577-579)TCG>TTG	p.S193L	RNF111_uc002afs.2_Missense_Mutation_p.S193L|RNF111_uc002aft.2_Missense_Mutation_p.S193L|RNF111_uc002afu.2_Missense_Mutation_p.S193L|RNF111_uc002afw.2_Missense_Mutation_p.S193L	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	193					multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		GAATCTGTATCGGGATTGTTA	0.423													38	95					0	0	0.007835	0	0		T	59323599	T	T	59323599	3	4	4	1	0	0	0	0	1	0	0	0	13450	893	31	1	580	1	RNF111	15	59323599	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	965780	59323599	43207793	3274	5240											
LDHAL6B	92483	broad.mit.edu	37	chr15	59499582	59499582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattatcacagcaggtgcacGccaagaaaagggagaaacgc	16	4	12	9	2	1	2	1	0	0	2	1	4	1	2	1	2	3	2	1	2	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:59499582G>A	uc002agb.2	+	1	541	c.443G>A	c.(442-444)CGC>CAC	p.R148H	MYO1E_uc002aga.2_Intron	NM_033195	NP_149972	Q9BYZ2	LDH6B_HUMAN	lactate dehydrogenase A-like 6B	148		NAD (By similarity).			glycolysis	cytoplasm	L-lactate dehydrogenase activity|protein binding				0					NADH(DB00157)	GCAGGTGCACGCCAAGAAAAG	0.438													38	124					0	0	0.00623	0	0		A	59499582	A	A	59499582	3	1	4	1	0	0	0	0	1	0	0	0	8716	1087	38	1	445	1	LDHAL6B	15	59499582	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	175983	59499582	43031810	3275	5241											
TLN2	83660	broad.mit.edu	37	chr15	63009877	63009877	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcccagcagcagctggtcCagagttgcaaggtgaggttc	8	7	15	11	1	0	2	0	1	0	1	2	2	1	2	2	4	4	6	2	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:63009877C>T	uc002alb.3	+	21	2866	c.2866C>T	c.(2866-2868)CAG>TAG	p.Q956*		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	956	Ala-rich.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GCAGCTGGTCCAGAGTTGCAA	0.577													6	9					0	0	0.001984	0	0		T	63009877	T	T	63009877	4	4	4	1	0	0	0	0	0	1	0	0	15973	595	21	4	2948	4	TLN2	15	63009877	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3510295	63009877	39521515	3276	5242											
TLN2	83660	broad.mit.edu	37	chr15	63019352	63019352	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcctccatggcacagctgCtgacctgtgctgctcaaggc	6	9	11	15	0	1	1	1	1	0	0	3	1	3	1	3	2	4	6	3	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:63019352C>T	uc002alb.3	+	25	3322	c.3322C>T	c.(3322-3324)CTG>TTG	p.L1108L		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1108	Ala-rich.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GGCACAGCTGCTGACCTGTGC	0.562													12	35					0	0	0.001368	0	0		T	63019352	T	T	63019352	2	4	4	1	0	0	0	0	0	0	0	1	15973	796	28	2		2	TLN2	15	63019352	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	9475	63019352	39512040	3277	5243											
TLN2	83660	broad.mit.edu	37	chr15	63092928	63092928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacccggggcaccagggCgcttgaggccacaattgaat	9	5	14	13	2	0	2	0	2	0	0	0	2	0	2	4	5	0	2	4	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:63092928C>T	uc002alb.3	+	47	6437	c.6437C>T	c.(6436-6438)GCG>GTG	p.A2146V	TLN2_uc002alc.3_Missense_Mutation_p.A539V	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	2146					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GGCACCAGGGCGCTTGAGGCC	0.507													4	12					0	0	0.001168	0	0		T	63092928	T	T	63092928	3	4	4	1	0	0	0	0	1	0	0	0	15973	768	27	1	6623	1	TLN2	15	63092928	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	73576	63092928	39438464	3278	5244											
HERC1	8925	broad.mit.edu	37	chr15	63943555	63943555	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggatcactgggtgatccCaggctttcctcagcatcccc	6	11	9	15	0	2	1	2	1	0	0	5	2	5	2	4	3	1	2	4	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:63943555C>T	uc002amp.2	-	53	10591	c.10443G>A	c.(10441-10443)CTG>CTA	p.L3481L		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	3481					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TGGGTGATCCCAGGCTTTCCT	0.408													29	78					0	0	0.002445	0	0		T	63943555	T	T	63943555	2	4	4	1	0	0	0	0	0	0	0	1	7073	581	21	4		4	HERC1	15	63943555	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	850627	63943555	38587837	3279	5245											
TRIP4	9325	broad.mit.edu	37	chr15	64701939	64701939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgagagaacttcgacacGcctctcgactttctaagaag	12	9	9	11	3	2	3	0	1	2	2	4	6	2	3	1	0	2	1	1	0	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:64701939G>A	uc002anm.2	+	7	998	c.955G>A	c.(955-957)GCC>ACC	p.A319T		NM_016213	NP_057297	Q15650	TRIP4_HUMAN	thyroid hormone receptor interactor 4	319					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ligand-dependent nuclear receptor binding|transcription coactivator activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3						ACTTCGACACGCCTCTCGACT	0.463													7	142					0	0	0.00308	0	0		A	64701939	A	A	64701939	3	1	4	1	0	0	0	0	1	0	0	0	16584	1087	38	1	981	1	TRIP4	15	64701939	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	758384	64701939	37829453	3280	5246											
ZNF609	23060	broad.mit.edu	37	chr15	64966631	64966631	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catacagatgatgacagcaaGccggaagcggatggggacag	14	4	15	8	2	0	3	0	2	0	1	0	6	0	6	1	4	4	1	1	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:64966631G>A	uc002ann.2	+	4	1578	c.1578G>A	c.(1576-1578)AAG>AAA	p.K526K		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	526						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						ATGACAGCAAGCCGGAAGCGG	0.493													4	80					0	0	0.009096	0	0		A	64966631	A	A	64966631	2	1	4	1	0	0	0	0	0	0	0	1	18060	962	34	2		2	ZNF609	15	64966631	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	264692	64966631	37564761	3281	5247											
PIF1	80119	broad.mit.edu	37	chr15	65114700	65114700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactcccagtgaagaagatgCtctggcctttcaggacggcc	9	8	11	13	1	2	3	1	1	1	2	3	4	3	4	3	3	1	1	3	3	2	1	rs139868280	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:65114700C>T	uc002ant.2	-	3	734	c.668G>A	c.(667-669)AGC>AAC	p.S223N	PIF1_uc002anr.2_5'Flank|PIF1_uc002ans.2_5'Flank|PIF1_uc010uiq.1_Missense_Mutation_p.S223N|PIF1_uc002anu.2_Missense_Mutation_p.S223N	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	223	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0						GAAGAAGATGCTCTGGCCTTT	0.602													7	29					0	0	0.00308	0	0		T	65114700	T	T	65114700	3	4	4	1	0	0	0	0	1	0	0	0	11902	797	28	2	1301	2	PIF1	15	65114700	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	148069	65114700	37416692	3282	5248											
DPP8	54878	broad.mit.edu	37	chr15	65790263	65790263	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgttagatatccaaatatcGttgctatgtataaaagcaat	16	14	6	5	1	0	1	0	0	0	1	2	1	1	1	1	0	2	5	1	0	9	7	rs147893429		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:65790263G>A	uc002aov.2	-	5	2280	c.702C>T	c.(700-702)AAC>AAT	p.N234N	DPP8_uc002aow.2_Silent_p.N234N|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Silent_p.N218N|DPP8_uc002aoy.2_Silent_p.N234N|DPP8_uc002aoz.2_Silent_p.N218N|DPP8_uc010bhj.2_Silent_p.N234N|DPP8_uc002apa.2_Silent_p.N131N	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	234					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						TCCAAATATCGTTGCTATGTA	0.398													24	69					0	0	0.005443	0	0		A	65790263	A	A	65790263	2	1	4	1	0	0	0	0	0	0	0	1	4738	1136	40	1		1	DPP8	15	65790263	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	675563	65790263	36741129	3283	5249											
C15orf44	81556	broad.mit.edu	37	chr15	65892135	65892135	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaaattcgccatgcacaTgatatataacttagatggga	14	11	7	9	1	0	2	0	1	0	1	2	3	1	3	2	1	2	1	2	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:65892135T>C	uc002apd.2	-	4	799	c.463A>G	c.(463-465)ATG>GTG	p.M155V	C15orf44_uc010uix.1_Missense_Mutation_p.M191V|C15orf44_uc010uiz.1_Missense_Mutation_p.M119V|C15orf44_uc010uja.1_Missense_Mutation_p.M106V|C15orf44_uc010ujb.1_Missense_Mutation_p.M76V|C15orf44_uc002ape.3_Missense_Mutation_p.M155V|C15orf44_uc010uiy.1_Missense_Mutation_p.M76V|C15orf44_uc010ujc.1_Missense_Mutation_p.M155V	NM_030800	NP_110427	Q96SY0	CO044_HUMAN	hypothetical protein LOC81556 isoform 2	155	VWFA.									ovary(1)	1						GCCATGCACATGATATATAAC	0.383													31	63					0	0	0.002445	0	0		C	65892135	C	C	65892135	3	2	4	1	0	0	0	0	1	0	0	0	1801	1464	51	3	1129	3	C15orf44	15	65892135	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	101872	65892135	36639257	3284	5250											
RAB11A	8766	broad.mit.edu	37	chr15	66180171	66180171	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggtgcagtgctgtcagaAcatctaaggcatttctcttc	11	12	9	9	0	3	1	1	0	2	1	5	1	3	1	0	2	3	3	0	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:66180171A>G	uc002apk.2	+	5	772	c.644A>G	c.(643-645)AAC>AGC	p.N215S	RAB11A_uc010ujk.1_3'UTR	NM_004663	NP_004654	P62491	RB11A_HUMAN	Ras-related protein Rab-11A	215					cell cycle|cytokinesis|neuron projection development|plasma membrane to endosome transport|protein localization in plasma membrane|small GTPase mediated signal transduction|vesicle-mediated transport	cleavage furrow|plasma membrane|recycling endosome membrane|trans-Golgi network	GTP binding|GTPase activity|syntaxin binding				0						TGCTGTCAGAACATCTAAGGC	0.413													5	105					0	0	0.001168	0	0		G	66180171	G	G	66180171	3	3	4	1	0	0	0	0	1	0	0	0	12916	43	2	3	662	3	RAB11A	15	66180171	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	288036	66180171	36351221	3285	5251											
MEGF11	84465	broad.mit.edu	37	chr15	66416298	66416298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgtgtgtaatagatctgatCgaaggggtgtgcatacgatt	10	13	13	5	3	1	2	0	1	1	1	3	4	1	2	0	2	2	2	0	2	4	4	rs142845610	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:66416298C>T	uc002apm.2	-	3	280	c.139G>A	c.(139-141)GAT>AAT	p.D47N	MEGF11_uc002apl.2_Silent_p.S5S|MEGF11_uc002apn.1_Missense_Mutation_p.D47N	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	47	EMI.					basolateral plasma membrane|integral to membrane				pancreas(1)	1						TAGATCTGATCGAAGGGGTGT	0.507													19	62					0	0	0.008871	0	0		T	66416298	T	T	66416298	3	4	4	1	0	0	0	0	1	0	0	0	9479	884	31	1	3079	1	MEGF11	15	66416298	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	236127	66416298	36115094	3286	5252											
ZWILCH	55055	broad.mit.edu	37	chr15	66813467	66813467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatcacagcatcacaaactgCgatcgctttggatatttcct	12	12	6	11	2	2	0	2	0	0	0	4	2	3	1	1	1	3	2	1	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:66813467C>T	uc002aqb.2	+	7	917	c.671C>T	c.(670-672)GCG>GTG	p.A224V	RPL4_uc002apx.2_Intron|ZWILCH_uc010bhu.1_Missense_Mutation_p.A110V|ZWILCH_uc002aqa.2_Missense_Mutation_p.A110V|ZWILCH_uc010bhv.2_Missense_Mutation_p.A110V	NM_017975	NP_060445	Q9H900	ZWILC_HUMAN	Zwilch	224					cell division|mitotic cell cycle checkpoint|mitotic prometaphase	condensed chromosome kinetochore|cytosol	protein binding			ovary(1)	1						TCACAAACTGCGATCGCTTTG	0.458													16	367					0	0	0.008871	0	0		T	66813467	T	T	66813467	3	4	4	1	0	0	0	0	1	0	0	0	18273	768	27	1	697	1	ZWILCH	15	66813467	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	397169	66813467	35717925	3287	5253											
LCTL	197021	broad.mit.edu	37	chr15	66844070	66844070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactgaagcctttggatagCgaggcttatttctgtcgtta	9	14	11	7	2	1	1	0	1	1	0	2	4	1	2	1	2	3	2	1	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:66844070C>T	uc002aqc.2	-	11	1586	c.1454G>A	c.(1453-1455)CGC>CAC	p.R485H	LCTL_uc002aqd.3_Missense_Mutation_p.R312H|LCTL_uc010bhw.2_Intron	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	485	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						CTTTGGATAGCGAGGCTTATT	0.373													29	94					0	0	0.008361	0	0		T	66844070	T	T	66844070	3	4	4	1	0	0	0	0	1	0	0	0	8710	768	27	1	261	1	LCTL	15	66844070	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	30603	66844070	35687322	3288	5254											
PIAS1	8554	broad.mit.edu	37	chr15	68438921	68438921	+	Frame_Shift_Del	DEL	A	-	-																															tagggttaccttccacctacAaaaaatggcgtggaaccaaa																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:68438921delA	uc002aqz.2	+	6	807	c.711delA	c.(709-711)ACAfs	p.T237fs	PIAS1_uc010ujx.1_Frame_Shift_Del_p.T237fs	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	237	PINIT.				androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						TTCCACCTACAAAAAATGGCG	0.378													24	53	---	---	---	---						.	-	68438921	-	-	68438921	7	5	4	1	0	1	0	1	0	0	0	0	11894	117	5	0	733	0	PIAS1	15	68438921	Frame_Shift_Del	DEL	A	TCGA-BR-4184-01A-01D-1126-08	1594851	68438921	34092471	3289	5255											
CLN6	54982	broad.mit.edu	37	chr15	68500592	68500592	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagccaggcgacccagagCgccacaagcaagagggtcag	13	1	13	14	2	1	2	1	0	0	2	1	3	1	2	3	2	3	1	3	2	2	0	rs151186473	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:68500592C>T	uc002arf.2	-	7	980	c.822G>A	c.(820-822)GCG>GCA	p.A274A	CALML4_uc002arb.2_5'Flank|CALML4_uc002arc.2_5'Flank|CALML4_uc002ard.2_5'Flank|CALML4_uc002are.2_5'Flank|CALML4_uc010bhz.2_5'Flank|CLN6_uc010ujy.1_Silent_p.A145A|CLN6_uc010ujz.1_Silent_p.A306A	NM_017882	NP_060352	Q9NWW5	CLN6_HUMAN	CLN6 protein	274	Helical; (Potential).				cell death|cholesterol metabolic process|ganglioside metabolic process|glycosaminoglycan metabolic process|lysosomal lumen acidification|positive regulation of proteolysis|protein catabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	protein homodimerization activity				0						CGACCCAGAGCGCCACAAGCA	0.602													19	48					0	0	0.001882	0	0		T	68500592	T	T	68500592	2	4	4	1	0	0	0	0	0	0	0	1	3548	755	27	1		1	CLN6	15	68500592	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	61671	68500592	34030800	3290	5256											
KIF23	9493	broad.mit.edu	37	chr15	69728955	69728955	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttccacctttgccatcatgCgaaattttggatatcaacga	11	14	6	10	2	2	0	2	0	0	0	3	3	3	1	3	1	3	0	3	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:69728955C>T	uc002asb.2	+	14	1566	c.1449C>T	c.(1447-1449)TGC>TGT	p.C483C	KIF23_uc002asc.2_Silent_p.C483C|KIF23_uc010bii.2_Silent_p.C373C|KIF23_uc010ukc.1_Silent_p.C300C	NM_138555	NP_612565	Q02241	KIF23_HUMAN	kinesin family member 23 isoform 1	483					blood coagulation|cytokinesis|microtubule-based movement|mitosis|mitotic spindle elongation	cytosol|kinesin complex|microtubule|midbody|nucleoplasm|spindle	ATP binding|microtubule motor activity|protein binding				0						TGCCATCATGCGAAATTTTGG	0.363													15	51					0	0	0.006122	0	0		T	69728955	T	T	69728955	2	4	4	1	0	0	0	0	0	0	0	1	8307	776	27	1		1	KIF23	15	69728955	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1228363	69728955	32802437	3291	5257											
TLE3	7090	broad.mit.edu	37	chr15	70346947	70346947	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaggtcccagatggtgagCgtgctggcctcgccgcccac	5	6	14	16	3	0	2	0	1	0	1	2	2	1	2	5	3	2	1	5	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:70346947C>T	uc002asm.2	-	16	2784	c.1665G>A	c.(1663-1665)ACG>ACA	p.T555T	TLE3_uc002ask.2_Silent_p.T482T|TLE3_uc002asl.2_Silent_p.T555T|TLE3_uc010ukd.1_Silent_p.T545T|TLE3_uc010bik.1_Silent_p.T136T|TLE3_uc010bil.1_Silent_p.T552T|TLE3_uc002asn.2_Silent_p.T543T|TLE3_uc002asp.2_Silent_p.T547T|TLE3_uc002aso.2_Silent_p.T550T	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	555	WD 2.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						AGATGGTGAGCGTGCTGGCCT	0.667													4	17					0	0	0.000602	0	0		T	70346947	T	T	70346947	2	4	4	1	0	0	0	0	0	0	0	1	15965	755	27	1		1	TLE3	15	70346947	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	617992	70346947	32184445	3292	5258											
LRRC49	54839	broad.mit.edu	37	chr15	71305222	71305222	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttctgagttaccccagtAtcgtctgatttccattctgg	7	16	7	11	1	4	2	0	2	4	0	6	2	5	2	3	1	1	2	3	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:71305222A>G	uc002asw.2	+	14	1920	c.1673A>G	c.(1672-1674)TAT>TGT	p.Y558C	LRRC49_uc002asu.2_Missense_Mutation_p.Y548C|LRRC49_uc002asx.2_Missense_Mutation_p.Y514C|LRRC49_uc010ukf.1_Missense_Mutation_p.Y563C|LRRC49_uc002asy.2_Missense_Mutation_p.Y264C|LRRC49_uc002asz.2_Missense_Mutation_p.Y530C	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	558						cytoplasm|microtubule				ovary(1)	1						TTACCCCAGTATCGTCTGATT	0.363													4	88					0	0	0.000602	0	0		G	71305222	G	G	71305222	3	3	4	1	0	0	0	0	1	0	0	0	9024	449	16	3	1727	3	LRRC49	15	71305222	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	958275	71305222	31226170	3293	5259											
THSD4	79875	broad.mit.edu	37	chr15	71549040	71549040	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccggttttatgagtgggAaccatttgcagaaggtaaga	11	10	15	5	1	0	3	0	1	0	2	0	4	0	4	2	4	2	3	2	4	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:71549040A>G	uc002atb.1	+	5	1080	c.1001A>G	c.(1000-1002)GAA>GGA	p.E334G	THSD4_uc002atd.1_Missense_Mutation_p.E8G	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	334						proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						TATGAGTGGGAACCATTTGCA	0.433													28	80					0	0	0.009535	0	0		G	71549040	G	G	71549040	3	3	4	1	0	0	0	0	1	0	0	0	15903	246	9	3	1019	3	THSD4	15	71549040	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	243818	71549040	30982352	3294	5260											
MYO9A	4649	broad.mit.edu	37	chr15	72119009	72119009	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttctgcggccagacatgActgtcccctctggggtctct	4	14	10	13	1	3	2	0	1	3	1	5	2	4	2	3	3	1	0	3	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:72119009A>G	uc002atl.3	-	42	8032	c.7559T>C	c.(7558-7560)GTC>GCC	p.V2520A	MYO9A_uc002atj.2_Missense_Mutation_p.V451A|MYO9A_uc002atk.2_Missense_Mutation_p.V1315A	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	2520					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						GCCAGACATGACTGTCCCCTC	0.458													5	109					0	0	0.001168	0	0		G	72119009	G	G	72119009	3	3	4	1	0	0	0	0	1	0	0	0	10102	275	10	3	91	3	MYO9A	15	72119009	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	569969	72119009	30412383	3295	5261											
PARP6	56965	broad.mit.edu	37	chr15	72549731	72549731	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagctccagacatgacGcccagtgtgtagaaggagaa	12	7	12	10	1	1	4	0	1	1	3	2	5	2	4	2	1	2	3	2	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:72549731G>A	uc002auc.2	-	12	1416	c.957C>T	c.(955-957)GGC>GGT	p.G319G	PARP6_uc002aua.2_Silent_p.G164G|PARP6_uc002aub.2_RNA|PARP6_uc002aud.3_RNA|PARP6_uc002auf.1_Silent_p.G319G	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	319							NAD+ ADP-ribosyltransferase activity				0						CAGACATGACGCCCAGTGTGT	0.507													7	96					0	0	0.008291	0	0		A	72549731	A	A	72549731	2	1	4	1	0	0	0	0	0	0	0	1	11483	1074	38	1		1	PARP6	15	72549731	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	430722	72549731	29981661	3296	5262											
TMEM202	338949	broad.mit.edu	37	chr15	72691176	72691176	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttctggtgatcaagaatggCcttgagctctacgcaggact	9	12	11	9	1	3	3	1	2	2	1	3	4	3	4	1	3	2	2	1	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:72691176C>T	uc002auq.2	+	2	264	c.264C>T	c.(262-264)GGC>GGT	p.G88G	TMEM202_uc002aur.2_Intron	NM_001080462	NP_001073931	A6NGA9	TM202_HUMAN	transmembrane protein 202	88						integral to membrane				central_nervous_system(1)|skin(1)	2						TCAAGAATGGCCTTGAGCTCT	0.532													20	62					0	0	0.001882	0	0		T	72691176	T	T	72691176	2	4	4	1	0	0	0	0	0	0	0	1	16152	726	26	2		2	TMEM202	15	72691176	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	141445	72691176	29840216	3297	5263											
NEO1	4756	broad.mit.edu	37	chr15	73528822	73528822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaccttacctactctgtgTtctacaccaaggaagggatt	12	11	7	11	0	2	0	0	0	2	0	2	2	2	2	3	2	4	1	3	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:73528822T>C	uc002avm.3	+	8	1568	c.1426T>C	c.(1426-1428)TTC>CTC	p.F476L	NEO1_uc010ukx.1_Missense_Mutation_p.F476L|NEO1_uc010uky.1_Missense_Mutation_p.F476L|NEO1_uc010ukz.1_5'UTR|NEO1_uc002avn.3_Missense_Mutation_p.F141L	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	476	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						CTACTCTGTGTTCTACACCAA	0.557													5	112					0	0	0.000602	0	0		C	73528822	C	C	73528822	3	2	4	1	0	0	0	0	1	0	0	0	10355	1725	60	3	1456	3	NEO1	15	73528822	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	837646	73528822	29002570	3298	5264											
NEO1	4756	broad.mit.edu	37	chr15	73542042	73542042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtttccacaccagatgttgCtgttcgaacattgtcagatg	10	13	9	9	1	1	2	1	0	0	2	3	3	2	2	2	0	2	4	2	0	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:73542042C>T	uc002avm.3	+	11	2016	c.1874C>T	c.(1873-1875)GCT>GTT	p.A625V	NEO1_uc010ukx.1_Missense_Mutation_p.A625V|NEO1_uc010uky.1_Missense_Mutation_p.A625V|NEO1_uc010ukz.1_Missense_Mutation_p.A49V|NEO1_uc002avn.3_Missense_Mutation_p.A290V	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	625	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						CCAGATGTTGCTGTTCGAACA	0.363													37	103					0	0	0.00623	0	0		T	73542042	T	T	73542042	3	4	4	1	0	0	0	0	1	0	0	0	10355	797	28	2	1916	2	NEO1	15	73542042	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	13220	73542042	28989350	3299	5265											
ISLR2	57611	broad.mit.edu	37	chr15	74426148	74426148	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtgccaaggaggcgggCgtctacacttgccgtgcaca	8	7	14	12	3	1	1	0	1	1	0	1	2	1	2	2	3	4	1	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:74426148C>T	uc002axd.2	+	4	1822	c.1053C>T	c.(1051-1053)GGC>GGT	p.G351G	ISLR2_uc002axe.2_Silent_p.G351G|ISLR2_uc010bjg.2_Silent_p.G351G|ISLR2_uc010bjf.2_Silent_p.G351G	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	351	Ig-like.|Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						AGGAGGCGGGCGTCTACACTT	0.687													3	6					0	0	0.004672	0	0		T	74426148	T	T	74426148	2	4	4	1	0	0	0	0	0	0	0	1	7875	755	27	1		1	ISLR2	15	74426148	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	884106	74426148	28105244	3300	5266											
CLK3	1198	broad.mit.edu	37	chr15	74919715	74919715	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcatgagaatcagctgacCcatacagacttgaaaccaga	15	7	8	11	0	1	5	1	3	0	3	1	6	1	5	2	0	4	2	2	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:74919715C>T	uc010uln.1	+	8	1745	c.1284C>T	c.(1282-1284)ACC>ACT	p.T428T	CLK3_uc002ayg.3_Silent_p.T280T|CLK3_uc002ayh.3_Silent_p.T59T|CLK3_uc002ayj.3_Silent_p.T257T|CLK3_uc002ayk.3_Silent_p.T207T|CLK3_uc002ayl.3_Silent_p.T113T	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	428	Protein kinase.					acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						ATCAGCTGACCCATACAGACT	0.507													42	206					0	0	0.00361	0	0		T	74919715	T	T	74919715	2	4	4	1	0	0	0	0	0	0	0	1	3541	610	22	4		4	CLK3	15	74919715	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	493567	74919715	27611677	3301	5267											
SCAMP5	192683	broad.mit.edu	37	chr15	75311250	75311250	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacgcagccatgggggcaGcccagggtgccatgaatcag	11	4	15	11	1	1	2	1	1	0	1	1	2	1	2	3	3	4	2	3	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75311250G>A	uc002azk.1	+	7	796	c.634G>A	c.(634-636)GCC>ACC	p.A212T	SCAMP5_uc002azl.1_Missense_Mutation_p.A212T|SCAMP5_uc002azm.1_Missense_Mutation_p.A212T|SCAMP5_uc002azn.1_Missense_Mutation_p.A220T|SCAMP5_uc010uly.1_Missense_Mutation_p.A141T	NM_138967	NP_620417	Q8TAC9	SCAM5_HUMAN	secretory carrier membrane protein 5	212	Cytoplasmic (Potential).				exocytosis|negative regulation of endocytosis|positive regulation of calcium ion-dependent exocytosis|positive regulation of cytokine secretion|protein transport|response to endoplasmic reticulum stress	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane|trans-Golgi network membrane	protein binding			ovary(1)	1						CATGGGGGCAGCCCAGGGTGC	0.587													15	26					0	0	0.003163	0	0		A	75311250	A	A	75311250	3	1	4	1	0	0	0	0	1	0	0	0	13899	971	34	2	656	2	SCAMP5	15	75311250	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	391535	75311250	27220142	3302	5268											
C15orf39	56905	broad.mit.edu	37	chr15	75499456	75499456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcccagcaccctctccagGcctcaagctggagccgcctc	6	7	8	20	1	3	0	1	0	2	0	6	1	3	1	6	2	3	2	6	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75499456G>A	uc002azp.3	+	2	1387	c.1067G>A	c.(1066-1068)GGC>GAC	p.G356D	C15orf39_uc002azq.3_Missense_Mutation_p.G356D|C15orf39_uc002azr.3_5'Flank	NM_015492	NP_056307	Q6ZRI6	CO039_HUMAN	hypothetical protein LOC56905	356											0						CCCTCTCCAGGCCTCAAGCTG	0.627													9	81					0	0	0.006214	0	0		A	75499456	A	A	75499456	3	1	4	1	0	0	0	0	1	0	0	0	1796	1203	42	2	1069	2	C15orf39	15	75499456	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	188206	75499456	27031936	3303	5269											
SIN3A	25942	broad.mit.edu	37	chr15	75664419	75664419	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtggtggtacagggcaccagGccctccagcccctcacccat	7	6	11	17	0	1	0	1	0	0	0	2	0	2	0	6	4	2	2	6	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75664419G>A	uc002bai.2	-	21	3982	c.3723C>T	c.(3721-3723)GGC>GGT	p.G1241G	SIN3A_uc002baj.2_Silent_p.G1241G|SIN3A_uc010uml.1_Silent_p.G1241G	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	1241					blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						AGGGCACCAGGCCCTCCAGCC	0.527													5	78					0	0	0.000602	0	0		A	75664419	A	A	75664419	2	1	4	1	0	0	0	0	0	0	0	1	14350	1190	42	2		2	SIN3A	15	75664419	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	164963	75664419	26866973	3304	5270											
SIN3A	25942	broad.mit.edu	37	chr15	75692389	75692389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaagcttgtacctcaaagcGttcatcttcacaacgataaa	15	10	5	11	2	4	0	3	0	1	0	4	1	4	0	1	0	4	3	1	0	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75692389G>A	uc002bai.2	-	12	2105	c.1846C>T	c.(1846-1848)CGC>TGC	p.R616C	SIN3A_uc002baj.2_Missense_Mutation_p.R616C|SIN3A_uc010uml.1_Missense_Mutation_p.R616C	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	616	Interactions with SUDS3 and SAP130.|Interaction with NCOR1 (By similarity).				blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						ACCTCAAAGCGTTCATCTTCA	0.433													46	99					0	0	0.002852	0	0		A	75692389	A	A	75692389	3	1	4	1	0	0	0	0	1	0	0	0	14350	1145	40	1	2015	1	SIN3A	15	75692389	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	27970	75692389	26839003	3305	5271											
SNX33	257364	broad.mit.edu	37	chr15	75949483	75949483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgatgcagaactacttgcGccagcagatcctcttctacc	10	10	7	14	1	2	3	0	1	2	2	3	3	3	3	3	0	6	2	3	0	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75949483G>A	uc002bau.2	+	2	1748	c.1652G>A	c.(1651-1653)CGC>CAC	p.R551H	SNX33_uc002bav.2_Missense_Mutation_p.R164H	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	551	BAR.				cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1						AACTACTTGCGCCAGCAGATC	0.627													18	43					0	0	0.002299	0	0		A	75949483	A	A	75949483	3	1	4	1	0	0	0	0	1	0	0	0	14928	1087	38	1	1658	1	SNX33	15	75949483	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	257094	75949483	26581909	3306	5272											
CSPG4	1464	broad.mit.edu	37	chr15	75968093	75968093	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagtcaggacctggacgTcatgcttgcccgtcttgttg	5	12	13	11	2	3	0	2	0	1	0	3	2	3	2	2	3	2	3	2	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75968093T>C	uc002baw.2	-	10	6860	c.6767A>G	c.(6766-6768)GAC>GGC	p.D2256G		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	2256	Cytoplasmic (Potential).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						GACCTGGACGTCATGCTTGCC	0.617													6	28					0	0	0.001984	0	0		C	75968093	C	C	75968093	3	2	4	1	0	0	0	0	1	0	0	0	3963	1667	58	3	205	3	CSPG4	15	75968093	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	18610	75968093	26563299	3307	5273											
CSPG4	1464	broad.mit.edu	37	chr15	75968836	75968836	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaggcaaagaccacctcGccctggtctatctggaattg	10	9	11	11	1	2	2	0	1	2	1	3	3	2	3	3	3	0	1	3	3	4	2	rs150399169		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75968836G>A	uc002baw.2	-	10	6117	c.6024C>T	c.(6022-6024)GGC>GGT	p.G2008G		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	2008	Extracellular (Potential).|CSPG 14.|Cysteine-containing.|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						AGACCACCTCGCCCTGGTCTA	0.597													6	65					0	0	0.001168	0	0		A	75968836	A	A	75968836	2	1	4	1	0	0	0	0	0	0	0	1	3963	1074	38	1		1	CSPG4	15	75968836	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	743	75968836	26562556	3308	5274											
FBXO22	26263	broad.mit.edu	37	chr15	76205620	76205620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tagtctggaagagtgtcgtgGccataagagaggtaaatatc	13	10	13	5	1	1	2	0	0	1	2	3	4	1	3	1	3	0	1	1	3	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:76205620G>A	uc002bbk.2	+	3	461	c.356G>A	c.(355-357)GGC>GAC	p.G119D	FBXO22_uc002bbj.1_Missense_Mutation_p.G119D|FBXO22_uc002bbl.2_Missense_Mutation_p.G15D	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	119					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0						GAGTGTCGTGGCCATAAGAGA	0.353													13	41					0	0	0.00245	0	0		A	76205620	A	A	76205620	3	1	4	1	0	0	0	0	1	0	0	0	5748	1203	42	2	366	2	FBXO22	15	76205620	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	236784	76205620	26325772	3309	5275											
SCAPER	49855	broad.mit.edu	37	chr15	76696913	76696913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattgcatgtaagagtcctGcggcatgctgcagaaatatg	12	10	11	8	1	0	2	0	0	0	2	1	2	1	2	1	1	4	5	1	1	3	3	rs149493455	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:76696913G>A	uc002bby.2	-	26	3478	c.3419C>T	c.(3418-3420)GCA>GTA	p.A1140V	SCAPER_uc010bkr.2_Missense_Mutation_p.A448V|SCAPER_uc002bbx.2_Missense_Mutation_p.A894V|SCAPER_uc002bbz.1_Missense_Mutation_p.A1011V	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	1139						endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						TAAGAGTCCTGCGGCATGCTG	0.478													60	132					0	0	0.00361	0	0		A	76696913	A	A	76696913	3	1	4	1	0	0	0	0	1	0	0	0	13903	1319	46	2	807	2	SCAPER	15	76696913	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	491293	76696913	25834479	3310	5276											
ACSBG1	23205	broad.mit.edu	37	chr15	78466056	78466056	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgatggcctggtacacGgcctcatccttcttctctat	5	15	7	14	2	4	0	1	0	3	0	7	1	5	0	3	3	1	1	3	3	2	5	rs149258367	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:78466056G>A	uc002bdh.2	-	13	2024	c.1968C>T	c.(1966-1968)GCC>GCT	p.A656A	ACSBG1_uc010umw.1_Silent_p.A652A|ACSBG1_uc010umx.1_Silent_p.A414A	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	656					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						CCTGGTACACGGCCTCATCCT	0.567													12	44					0	0	0.000978	0	0		A	78466056	A	A	78466056	2	1	4	1	0	0	0	0	0	0	0	1	173	1103	39	1		1	ACSBG1	15	78466056	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1769143	78466056	24065336	3311	5277											
DNAJA4	55466	broad.mit.edu	37	chr15	78566648	78566648	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtacagcagatccagacCgtgtgcatcgagtgcaaggg	11	7	14	9	2	0	2	0	0	0	2	2	3	1	2	2	2	4	4	2	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:78566648C>T	uc002bdj.1	+	4	645	c.528C>T	c.(526-528)ACC>ACT	p.T176T	DNAJA4_uc002bdi.2_Silent_p.T205T|DNAJA4_uc002bdk.2_Silent_p.T149T|DNAJA4_uc002bdl.2_Silent_p.T91T|DNAJA4_uc002bdm.1_5'Flank	NM_001130182	NP_001123654	Q8WW22	DNJA4_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 4	176	CR-type.				protein folding|response to heat	membrane	ATP binding|heat shock protein binding|metal ion binding|unfolded protein binding			skin(1)	1						AGATCCAGACCGTGTGCATCG	0.622													4	18					0	0	0.000602	0	0		T	78566648	T	T	78566648	2	4	4	1	0	0	0	0	0	0	0	1	4620	639	23	1		1	DNAJA4	15	78566648	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	100592	78566648	23964744	3312	5278											
CRABP1	1381	broad.mit.edu	37	chr15	78635882	78635882	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaacaagatccactgcacGcaaactcttcttgaagggga	14	7	10	10	1	2	3	0	1	2	2	3	5	3	4	1	2	3	2	1	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:78635882G>A	uc002bdp.2	+	3	396	c.291G>A	c.(289-291)ACG>ACA	p.T97T		NM_004378	NP_004369	P29762	RABP1_HUMAN	cellular retinoic acid binding protein 1	97					multicellular organismal development|signal transduction	cytoplasm	retinal binding|retinol binding|transporter activity				0					Alitretinoin(DB00523)|Etretinate(DB00926)	TCCACTGCACGCAAACTCTTC	0.512													6	46					0	0	0.001984	0	0		A	78635882	A	A	78635882	2	1	4	1	0	0	0	0	0	0	0	1	3846	1074	38	1		1	CRABP1	15	78635882	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	69234	78635882	23895510	3313	5279											
CTSH	1512	broad.mit.edu	37	chr15	79229690	79229690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggttcccattgttgtgggCgtttatcttcctccagttgc	3	17	11	10	1	1	0	0	0	1	0	4	0	4	0	3	2	1	4	3	2	1	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:79229690C>T	uc002ben.2	-	4	260	c.163G>A	c.(163-165)GCC>ACC	p.A55T	CTSH_uc010unf.1_RNA|CTSH_uc010bll.1_Intron|CTSH_uc010ung.1_Missense_Mutation_p.A67T	NM_148979	NP_683880	P09668	CATH_HUMAN	cathepsin H isoform b precursor	67					protein destabilization|proteolysis	lysosome	cysteine-type endopeptidase activity			central_nervous_system(2)|large_intestine(1)	3						TTGTTGTGGGCGTTTATCTTC	0.512													11	57					0	0	0.003163	0	0		T	79229690	T	T	79229690	3	4	4	1	0	0	0	0	1	0	0	0	4039	768	27	1	848	1	CTSH	15	79229690	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	593808	79229690	23301702	3314	5280											
RASGRF1	5923	broad.mit.edu	37	chr15	79382811	79382811	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtcccagggacgcgacgtgGccatcattcagccggatccc	8	6	12	15	4	2	0	2	0	0	0	4	3	4	2	4	3	1	0	4	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:79382811G>A	uc002beq.2	-	1	405	c.30C>T	c.(28-30)GGC>GGT	p.G10G	RASGRF1_uc002bep.2_Silent_p.G10G|RASGRF1_uc002ber.3_Silent_p.G10G	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	10					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						ACGCGACGTGGCCATCATTCA	0.642													14	72					0	0	0.007413	0	0		A	79382811	A	A	79382811	2	1	4	1	0	0	0	0	0	0	0	1	13097	1190	42	2		2	RASGRF1	15	79382811	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	153121	79382811	23148581	3315	5281											
KIAA1024	23251	broad.mit.edu	37	chr15	79749839	79749839	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgacctggagaagcatgaAccagtcaaaaagtttaaaga	17	8	10	6	0	1	4	1	2	0	2	1	5	1	4	2	1	2	3	2	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:79749839A>G	uc002bew.1	+	2	1425	c.1350A>G	c.(1348-1350)GAA>GAG	p.E450E	KIAA1024_uc010unk.1_Silent_p.E450E	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	450						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						AGAAGCATGAACCAGTCAAAA	0.493													5	49					0	0	0.001984	0	0		G	79749839	G	G	79749839	2	3	4	1	0	0	0	0	0	0	0	1	8221	40	2	3		3	KIAA1024	15	79749839	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	367028	79749839	22781553	3316	5282											
ZFAND6	54469	broad.mit.edu	37	chr15	80423565	80423565	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccatctgaagagcaaagCaagtctcttgaaaaaccgaa	17	6	8	10	1	2	3	0	2	2	1	3	4	2	3	2	0	4	2	2	0	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:80423565C>T	uc002bfe.1	+	6	719	c.408C>T	c.(406-408)AGC>AGT	p.S136S	ZFAND6_uc002bff.1_Silent_p.S136S|ZFAND6_uc002bfg.1_Silent_p.S124S|ZFAND6_uc002bfh.1_Silent_p.S136S|ZFAND6_uc002bfi.1_Silent_p.S136S	NM_019006	NP_061879	Q6FIF0	ZFAN6_HUMAN	zinc finger, AN1-type domain 6	136							DNA binding|zinc ion binding				0						AAGAGCAAAGCAAGTCTCTTG	0.358													46	121					0	0	0.00361	0	0		T	80423565	T	T	80423565	2	4	4	1	0	0	0	0	0	0	0	1	17656	709	25	2		2	ZFAND6	15	80423565	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	673726	80423565	22107827	3317	5283											
KIAA1199	57214	broad.mit.edu	37	chr15	81172107	81172107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgattgttttgcgaacccggCacatcctgattgacaacgga	10	10	10	11	4	0	2	0	2	0	0	1	5	1	3	2	2	3	2	2	2	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:81172107C>T	uc002bfw.1	+	4	552	c.292C>T	c.(292-294)CAC>TAC	p.H98Y	KIAA1199_uc010unn.1_Missense_Mutation_p.H98Y	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	98	G8.									upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GCGAACCCGGCACATCCTGAT	0.507													15	30					0	0	0.010504	0	0		T	81172107	T	T	81172107	3	4	4	1	0	0	0	0	1	0	0	0	8229	710	25	2	302	2	KIAA1199	15	81172107	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	748542	81172107	21359285	3318	5284											
KIAA1199	57214	broad.mit.edu	37	chr15	81173308	81173308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggggttggtaaaggaggcGctcttgagttgcatggacag	8	11	17	5	1	1	1	0	1	1	0	1	3	1	3	0	6	1	5	0	6	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:81173308G>A	uc002bfw.1	+	5	708	c.448G>A	c.(448-450)GCT>ACT	p.A150T	KIAA1199_uc010unn.1_Missense_Mutation_p.A150T	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	150	G8.									upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						TAAAGGAGGCGCTCTTGAGTT	0.493													29	69					0	0	0.008361	0	0		A	81173308	A	A	81173308	3	1	4	1	0	0	0	0	1	0	0	0	8229	1087	38	1	462	1	KIAA1199	15	81173308	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1201	81173308	21358084	3319	5285											
KIAA1199	57214	broad.mit.edu	37	chr15	81213380	81213380	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctccctgcagtgctgtgTccaccttctggatggccaat	5	11	10	15	0	1	0	0	0	1	0	3	1	3	1	5	2	2	2	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:81213380T>C	uc002bfw.1	+	15	2271	c.2011T>C	c.(2011-2013)TCC>CCC	p.S671P	KIAA1199_uc010unn.1_Missense_Mutation_p.S671P	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	671										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CAGTGCTGTGTCCACCTTCTG	0.542													3	51					0	0	0.009096	0	0		C	81213380	C	C	81213380	3	2	4	1	0	0	0	0	1	0	0	0	8229	1667	58	3	2065	3	KIAA1199	15	81213380	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	40072	81213380	21318012	3320	5286											
IL16	3603	broad.mit.edu	37	chr15	81598350	81598350	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtctctcaaggggaccacGcaccatgatgccttggccat	10	8	10	13	1	2	1	1	1	1	0	3	2	2	2	4	3	1	1	4	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:81598350G>A	uc002bgh.3	+	17	3898	c.3522G>A	c.(3520-3522)ACG>ACA	p.T1174T	IL16_uc010blq.1_Silent_p.T1128T|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Silent_p.T1216T|IL16_uc002bgg.2_Silent_p.T1174T|IL16_uc002bgi.1_Silent_p.T564T|IL16_uc002bgj.2_Silent_p.T668T|IL16_uc002bgk.2_Silent_p.T473T|IL16_uc002bgl.1_Silent_p.T473T|IL16_uc010unq.1_Silent_p.T473T	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	1174	PDZ 3.|Interaction with PPP1R12A, PPP1R12B and PPP1R12C.				immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						AGGGGACCACGCACCATGATG	0.557													35	106					0	0	0.003755	0	0		A	81598350	A	A	81598350	2	1	4	1	0	0	0	0	0	0	0	1	7649	1074	38	1		1	IL16	15	81598350	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	384970	81598350	20933042	3321	5287											
EFTUD1	79631	broad.mit.edu	37	chr15	82520574	82520574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagccactgactgcaaatggCgttgatctgaactttagggt	10	12	11	8	1	1	3	0	3	1	0	1	3	1	3	1	2	3	2	1	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:82520574C>T	uc002bgt.1	-	10	1196	c.1027G>A	c.(1027-1029)GCC>ACC	p.A343T	EFTUD1_uc002bgu.1_Missense_Mutation_p.A292T	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	343					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						CTGCAAATGGCGTTGATCTGA	0.378													5	55					0	0	0.000602	0	0		T	82520574	T	T	82520574	3	4	4	1	0	0	0	0	1	0	0	0	4966	768	27	1	2379	1	EFTUD1	15	82520574	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	922224	82520574	20010818	3322	5288											
FSD2	123722	broad.mit.edu	37	chr15	83455633	83455633	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagcttcttcttcatcCtcttcctcggggatgacata	7	14	7	13	1	5	1	2	1	3	0	8	2	7	2	2	2	2	2	2	2	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:83455633C>A	uc002bjd.2	-	2	677	c.510G>T	c.(508-510)GAG>GAT	p.E170D	FSD2_uc010uol.1_Missense_Mutation_p.E170D|FSD2_uc010uom.1_Missense_Mutation_p.E170D	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	170										central_nervous_system(1)	1						CTTCTTCATCCTCTTCCTCGG	0.502													6	92					0.00116845	0.00121571	0.001168	1	0		A	83455633	A	A	83455633	3	1	4	1	0	0	0	0	1	0	0	0	6085	680	24	5	1787	5	FSD2	15	83455633	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	935059	83455633	19075759	3323	5289											
BTBD1	53339	broad.mit.edu	37	chr15	83698894	83698894	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	aatataacagatacctgattCgatcactcgtcccactgtaa	14	11	5	11	2	1	2	1	1	0	1	4	3	2	2	2	0	2	1	2	0	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:83698894C>G	uc002bjn.2	-	5	1252	c.1049G>C	c.(1048-1050)CGA>CCA	p.R350P	BTBD1_uc002bjo.2_Missense_Mutation_p.R350P	NM_025238	NP_079514	Q9H0C5	BTBD1_HUMAN	BTB (POZ) domain containing 1 isoform 1	350						cytoplasmic mRNA processing body|protein complex	protein binding			ovary(1)|central_nervous_system(1)	2				all cancers(203;0.000186)		ATACCTGATTCGATCACTCGT	0.448													145	278					0	0	0.00361	0	0		G	83698894	G	G	83698894	3	3	4	1	0	0	0	0	1	0	0	0	1540	884	31	5	415	5	BTBD1	15	83698894	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	243261	83698894	18832498	3324	5290											
ALPK3	57538	broad.mit.edu	37	chr15	85400381	85400381	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatgctcccagcacagccGccccatgaggggagtgtgga	8	6	13	14	1	1	1	1	1	0	0	2	3	2	3	4	3	3	2	4	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:85400381G>A	uc002ble.2	+	6	3185	c.3018G>A	c.(3016-3018)CCG>CCA	p.P1006P		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1006					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CAGCACAGCCGCCCCATGAGG	0.627													14	26					0	0	0.003163	0	0		A	85400381	A	A	85400381	2	1	4	1	0	0	0	0	0	0	0	1	546	1074	38	1		1	ALPK3	15	85400381	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1701487	85400381	17131011	3325	5291											
SLC28A1	9154	broad.mit.edu	37	chr15	85478614	85478614	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtgtggcgtgggaggactgCccagtggtagctgagctgct	5	9	19	8	1	0	1	0	1	0	0	0	3	0	3	1	5	4	4	1	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:85478614C>T	uc002blg.2	+	15	1648	c.1446C>T	c.(1444-1446)TGC>TGT	p.C482C	SLC28A1_uc010bnb.2_Silent_p.C482C|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Silent_p.C482C|SLC28A1_uc010upg.1_Silent_p.C482C	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	482					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GGGAGGACTGCCCAGTGGTAG	0.607													7	20					0	0	0.004482	0	0		T	85478614	T	T	85478614	2	4	4	1	0	0	0	0	0	0	0	1	14556	747	26	2		2	SLC28A1	15	85478614	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	78233	85478614	17052778	3326	5292											
AGBL1	123624	broad.mit.edu	37	chr15	87099509	87099509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagggctcacccagtggatgGccttcaggtattggagcagc	9	8	14	10	0	2	0	2	0	0	0	2	2	2	2	2	5	2	3	2	5	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:87099509G>A	uc002blz.1	+	21	2992	c.2912G>A	c.(2911-2913)GGC>GAC	p.G971D		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	971					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						CCAGTGGATGGCCTTCAGGTA	0.458													4	22					0	0	0.009096	0	0		A	87099509	A	A	87099509	3	1	4	1	0	0	0	0	1	0	0	0	375	1203	42	2	2990	2	AGBL1	15	87099509	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1620895	87099509	15431883	3327	5293											
NTRK3	4916	broad.mit.edu	37	chr15	88483952	88483952	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcacccagttctcgcttcaGcacgatgtctctcctcttaa	7	13	5	16	2	5	0	2	0	3	0	8	1	6	0	2	0	1	3	2	0	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:88483952G>T	uc002bme.1	-	14	1780	c.1618C>A	c.(1618-1620)CTG>ATG	p.L540M	NTRK3_uc002bmh.2_Missense_Mutation_p.L532M|NTRK3_uc002bmf.1_Missense_Mutation_p.L540M|NTRK3_uc010upl.1_Missense_Mutation_p.L442M|NTRK3_uc010bnh.1_Missense_Mutation_p.L532M	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	540	Cytoplasmic (Potential).|Protein kinase.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			TCTCGCTTCAGCACGATGTCT	0.537			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			6	135					3.59834e-05	3.78692e-05	0.001168	1	0		T	88483952	T	T	88483952	3	4	4	1	0	0	0	0	1	0	0	0	10727	962	34	5	925	5	NTRK3	15	88483952	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1384443	88483952	14047440	3328	5294											
MRPL46	26589	broad.mit.edu	37	chr15	89002999	89002999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaagaagaacaccttggCtccgaggttactctctgtcc	9	12	9	11	1	1	3	0	1	1	2	4	4	3	3	3	2	2	2	3	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:89002999C>T	uc002bmj.2	-	4	710	c.685G>A	c.(685-687)GCC>ACC	p.A229T	MRPL46_uc002bmi.1_3'UTR|MRPL46_uc002bmk.2_Missense_Mutation_p.A228T	NM_022163	NP_071446	Q9H2W6	RM46_HUMAN	mitochondrial ribosomal protein L46 precursor	229						mitochondrion|ribosome	hydrolase activity			central_nervous_system(1)	1	Lung NSC(78;0.203)		BRCA - Breast invasive adenocarcinoma(143;0.188)			AACACCTTGGCTCCGAGGTTA	0.498													7	42					0	0	0.004482	0	0		T	89002999	T	T	89002999	3	4	4	1	0	0	0	0	1	0	0	0	9828	797	28	2	158	2	MRPL46	15	89002999	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	519047	89002999	13528393	3329	5295											
AEN	64782	broad.mit.edu	37	chr15	89172498	89172498	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggtggtggtggggcacgcGctgcacaacgacttccaggc	8	6	16	11	3	0	0	0	0	0	0	1	1	1	0	1	6	2	3	1	6	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:89172498G>A	uc002bmt.2	+	3	733	c.582G>A	c.(580-582)GCG>GCA	p.A194A	AEN_uc010bnm.1_Silent_p.A194A	NM_022767	NP_073604	Q8WTP8	AEN_HUMAN	interferon stimulated exonuclease gene	194	Exonuclease.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|response to ionizing radiation	nucleolus|nucleoplasm	exonuclease activity|nucleic acid binding				0						TGGGGCACGCGCTGCACAACG	0.607													9	42					0	0	0.001855	0	0		A	89172498	A	A	89172498	2	1	4	1	0	0	0	0	0	0	0	1	351	1074	38	1		1	AEN	15	89172498	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	169499	89172498	13358894	3330	5296											
ACAN	176	broad.mit.edu	37	chr15	89382100	89382100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggtggccactgaagggCgcgtgcgggtcaacagtgcc	6	7	17	11	3	1	1	1	1	0	0	1	1	1	1	2	4	4	1	2	4	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:89382100C>T	uc010upo.1	+	3	651	c.277C>T	c.(277-279)CGC>TGC	p.R93C	ACAN_uc002bmx.2_Missense_Mutation_p.R93C|ACAN_uc010upp.1_Missense_Mutation_p.R93C|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	93					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CACTGAAGGGCGCGTGCGGGT	0.622													19	44					0	0	0.008871	0	0		T	89382100	T	T	89382100	3	4	4	1	0	0	0	0	1	0	0	0	117	768	27	1	283	1	ACAN	15	89382100	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	209602	89382100	13149292	3331	5297											
RHCG	51458	broad.mit.edu	37	chr15	90039664	90039664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctctgaccaccagtgggCgtcggcctcgaagtcgtagc	6	8	12	15	4	1	1	0	1	1	0	5	2	1	1	4	2	1	1	4	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:90039664C>T	uc002bnz.2	-	1	136	c.112G>A	c.(112-114)GCC>ACC	p.A38T	RHCG_uc002boa.2_RNA|RHCG_uc010bnq.1_5'UTR	NM_016321	NP_057405	Q9UBD6	RHCG_HUMAN	Rh family, C glycoprotein	38	Extracellular (Potential).				amine transport|cellular ion homeostasis|epithelial cell differentiation|transepithelial ammonium transport	apical plasma membrane|basolateral plasma membrane|cytoplasmic vesicle|integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			kidney(1)	1	Lung NSC(78;0.0237)|all_lung(78;0.0478)					CACCAGTGGGCGTCGGCCTCG	0.602													20	100					0	0	0.007413	0	0		T	90039664	T	T	90039664	3	4	4	1	0	0	0	0	1	0	0	0	13351	768	27	1	1367	1	RHCG	15	90039664	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	657564	90039664	12491728	3332	5298											
FES	2242	broad.mit.edu	37	chr15	91436365	91436365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaccccaacatcgtgcGtctcattggtgtctgcaccc	7	9	8	17	2	2	0	1	0	2	0	4	0	2	0	4	1	4	1	4	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:91436365G>A	uc002bpv.2	+	15	1958	c.1862G>A	c.(1861-1863)CGT>CAT	p.R621H	FES_uc010uqj.1_Missense_Mutation_p.R493H|FES_uc010uqk.1_Missense_Mutation_p.R603H|FES_uc002bpw.2_RNA|FES_uc010bny.2_Intron|FES_uc002bpx.2_Missense_Mutation_p.R551H|FES_uc002bpy.2_Missense_Mutation_p.R563H	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	621	Protein kinase.				axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			AACATCGTGCGTCTCATTGGT	0.652													5	17					0	0	0.000602	0	0		A	91436365	A	A	91436365	3	1	4	1	0	0	0	0	1	0	0	0	5834	1145	40	1	1916	1	FES	15	91436365	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1396701	91436365	11095027	3333	5299											
MAN2A2	4122	broad.mit.edu	37	chr15	91453478	91453478	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaggctattacacttcccgGcccttctacaagagcttaga	11	10	7	13	1	1	2	0	0	1	2	2	2	2	2	2	2	3	2	2	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:91453478G>T	uc010bnz.2	+	10	1648	c.1533G>T	c.(1531-1533)CGG>CGT	p.R511R	MAN2A2_uc010boa.2_Silent_p.R553R|MAN2A2_uc002bqc.2_Silent_p.R511R|MAN2A2_uc010uql.1_Silent_p.R173R|MAN2A2_uc010uqm.1_Intron|MAN2A2_uc010uqn.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	511	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			ACACTTCCCGGCCCTTCTACA	0.607													17	31					2.4624e-09	2.63987e-09	0.008871	1	0		T	91453478	T	T	91453478	2	4	4	1	0	0	0	0	0	0	0	1	9233	1190	42	5		5	MAN2A2	15	91453478	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	17113	91453478	11077914	3334	5300											
MAN2A2	4122	broad.mit.edu	37	chr15	91461902	91461902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctaccctcggcggagaccGcactcatcttacaccgcaag	9	6	8	18	4	2	1	1	0	1	1	3	2	2	1	4	2	2	2	4	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:91461902G>A	uc010bnz.2	+	22	3332	c.3217G>A	c.(3217-3219)GCA>ACA	p.A1073T	MAN2A2_uc002bqc.2_Missense_Mutation_p.A1073T|MAN2A2_uc010uql.1_Missense_Mutation_p.A735T|MAN2A2_uc010uqm.1_Missense_Mutation_p.A652T|MAN2A2_uc010uqn.1_RNA	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	1073					mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			GGCGGAGACCGCACTCATCTT	0.607													4	26					0	0	0.001984	0	0		A	91461902	A	A	91461902	3	1	4	1	0	0	0	0	1	0	0	0	9233	1087	38	1	3299	1	MAN2A2	15	91461902	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8424	91461902	11069490	3335	5301											
UNC45A	55898	broad.mit.edu	37	chr15	91483621	91483621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggttcagctcttgcaacGtttactggacatgggagaga	9	11	14	7	1	2	1	1	0	1	1	2	4	2	3	0	4	4	4	0	4	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:91483621G>A	uc002bqg.2	+	6	945	c.605G>A	c.(604-606)CGT>CAT	p.R202H	UNC45A_uc002bqd.2_Missense_Mutation_p.R187H|UNC45A_uc010uqo.1_Missense_Mutation_p.R194H|UNC45A_uc010uqp.1_RNA|UNC45A_uc010uqq.1_Missense_Mutation_p.R202H	NM_018671	NP_061141	Q9H3U1	UN45A_HUMAN	smooth muscle cell associated protein-1 isoform	202					cell differentiation|muscle organ development	nucleus|perinuclear region of cytoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			CTCTTGCAACGTTTACTGGAC	0.572													20	49					0	0	0.001882	0	0		A	91483621	A	A	91483621	3	1	4	1	0	0	0	0	1	0	0	0	17014	1145	40	1	627	1	UNC45A	15	91483621	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	21719	91483621	11047771	3336	5302											
PRC1	9055	broad.mit.edu	37	chr15	91517404	91517404	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtattgggagccagtcctcGccgcttgctaggtgttcgag	5	12	14	10	3	0	0	0	0	0	0	3	2	1	1	3	2	2	4	3	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:91517404G>A	uc002bqm.2	-	11	1580	c.1423C>T	c.(1423-1425)CGA>TGA	p.R475*	PRC1_uc002bqn.2_Nonsense_Mutation_p.R475*|PRC1_uc002bqo.2_Nonsense_Mutation_p.R475*|PRC1_uc010uqs.1_Nonsense_Mutation_p.R434*	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	475	Unstructured, Arg/Lys rich.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					GCCAGTCCTCGCCGCTTGCTA	0.512													15	38					0	0	0.007413	0	0		A	91517404	A	A	91517404	4	1	4	1	0	0	0	0	0	1	0	0	12468	1095	38	1	459	1	PRC1	15	91517404	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	33783	91517404	11013988	3337	5303											
SV2B	9899	broad.mit.edu	37	chr15	91769547	91769547	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctatgctcccagtgatggCtattaccgcggcaatgagtc	8	10	12	11	2	0	2	0	2	0	0	2	2	1	2	2	3	2	4	2	3	4	3	rs147933433	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:91769547C>T	uc002bqv.2	+	1	445	c.54C>T	c.(52-54)GGC>GGT	p.G18G	SV2B_uc002bqt.2_Silent_p.G18G|SV2B_uc010uqv.1_Intron|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	18	Cytoplasmic (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			CCAGTGATGGCTATTACCGCG	0.522													5	60					0	0	0.001168	0	0		T	91769547	T	T	91769547	2	4	4	1	0	0	0	0	0	0	0	1	15443	784	28	2		2	SV2B	15	91769547	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	252143	91769547	10761845	3338	5304											
SLCO3A1	28232	broad.mit.edu	37	chr15	92669301	92669301	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccttccagggatgactgcGatcccgtgtgcttgtctggg	4	13	13	11	2	1	1	0	1	1	0	4	3	4	2	3	2	2	1	3	2	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:92669301G>A	uc002bqx.2	+	6	1386	c.1185G>A	c.(1183-1185)GCG>GCA	p.A395A	SLCO3A1_uc002bqy.2_Silent_p.A395A|SLCO3A1_uc010boc.1_RNA|SLCO3A1_uc002bqz.1_Silent_p.A337A	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,	395	Helical; Name=8; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			GGATGACTGCGATCCCGTGTG	0.607													12	33					0	0	0.001855	0	0		A	92669301	A	A	92669301	2	1	4	1	0	0	0	0	0	0	0	1	14753	1045	37	1		1	SLCO3A1	15	92669301	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	899754	92669301	9862091	3339	5305											
C15orf32	145858	broad.mit.edu	37	chr15	93015523	93015523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccccctttctcggcgaggCcatgtgtctggaccctgtgt	3	12	11	15	2	2	0	0	0	2	0	4	2	3	1	4	3	0	0	4	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:93015523C>T	uc002brc.1	+	1	617	c.145C>T	c.(145-147)CCA>TCA	p.P49S	C15orf32_uc010bod.1_RNA	NM_153040	NP_694585	Q32M92	CO032_HUMAN	hypothetical protein LOC145858	49										ovary(1)	1	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0493)|OV - Ovarian serous cystadenocarcinoma(32;0.125)			CTCGGCGAGGCCATGTGTCTG	0.458													17	52					0	0	0.010504	0	0		T	93015523	T	T	93015523	3	4	4	1	0	0	0	0	1	0	0	0	1793	739	26	2	147	2	C15orf32	15	93015523	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	346222	93015523	9515869	3340	5306											
CHD2	1106	broad.mit.edu	37	chr15	93527700	93527700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctagaagaaatttatatGctgcctcgaattcggagttc	12	12	10	7	2	0	2	0	0	0	2	3	5	0	3	1	1	3	3	1	1	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:93527700G>A	uc002bsp.2	+	25	3782	c.3207G>A	c.(3205-3207)ATG>ATA	p.M1069I	CHD2_uc002bso.1_Missense_Mutation_p.M1069I	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1069					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			AAATTTATATGCTGCCTCGAA	0.398													11	24					0	0	0.008291	0	0		A	93527700	A	A	93527700	3	1	4	1	0	0	0	0	1	0	0	0	3328	1319	46	2	3305	2	CHD2	15	93527700	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	512177	93527700	9003692	3341	5307											
CHD2	1106	broad.mit.edu	37	chr15	93540578	93540578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctggggatttatgaacatgGctatggaaactgggagttaa	12	11	14	4	0	0	1	0	1	0	0	0	4	0	4	0	5	2	3	0	5	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:93540578G>A	uc002bsp.2	+	30	4405	c.3830G>A	c.(3829-3831)GGC>GAC	p.G1277D	CHD2_uc002bso.1_Missense_Mutation_p.G1277D	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1277					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			TATGAACATGGCTATGGAAAC	0.408													27	61					0	0	0.007291	0	0		A	93540578	A	A	93540578	3	1	4	1	0	0	0	0	1	0	0	0	3328	1203	42	2	3948	2	CHD2	15	93540578	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12878	93540578	8990814	3342	5308											
NR2F2	7026	broad.mit.edu	37	chr15	96875556	96875556	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcgacaagcagcagcagcaGcaacacatcgagtgcgtggt	13	4	13	11	3	0	0	0	0	0	0	1	2	0	0	0	1	8	5	0	1	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:96875556G>A	uc010uri.1	+	1	1446	c.222G>A	c.(220-222)CAG>CAA	p.Q74Q	NR2F2_uc002btp.2_Intron|NR2F2_uc010urj.1_5'Flank|MIR1469_hsa-mir-1469|MI0007074_5'Flank|NR2F2_uc010urk.1_5'Flank	NM_021005	NP_066285	P24468	COT2_HUMAN	nuclear receptor subfamily 2, group F, member 2	74	Poly-Gln.				lipid metabolic process|negative regulation of cyclin-dependent protein kinase activity|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment	nucleus	ligand-regulated transcription factor activity|protein homodimerization activity|retinoic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(1)	3	Lung NSC(78;0.0186)|Melanoma(26;0.0195)|all_lung(78;0.0297)		OV - Ovarian serous cystadenocarcinoma(32;0.0856)			AGCAGCAGCAGCAACACATCG	0.697													4	9					0	0	0.009096	0	0		A	96875556	A	A	96875556	2	1	4	1	0	0	0	0	0	0	0	1	10647	962	34	2		2	NR2F2	15	96875556	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3334978	96875556	5655836	3343	5309											
IGF1R	3480	broad.mit.edu	37	chr15	99486223	99486223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaagggctgctgcccgtgCgctggatgtctcctgagtcc	5	9	15	12	2	1	1	0	1	1	0	3	3	2	3	3	3	3	3	3	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:99486223C>T	uc002bul.2	+	19	3579	c.3529C>T	c.(3529-3531)CGC>TGC	p.R1177C	IGF1R_uc010bon.2_Missense_Mutation_p.R1176C	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	1177	Protein kinase.|Cytoplasmic (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	GCTGCCCGTGCGCTGGATGTC	0.542													9	101					0	0	0.004482	0	0		T	99486223	T	T	99486223	3	4	4	1	0	0	0	0	1	0	0	0	7587	768	27	1	3603	1	IGF1R	15	99486223	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2610667	99486223	3045169	3344	5310											
IGF1R	3480	broad.mit.edu	37	chr15	99500550	99500550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggacacaaggccgagaacgGccccggccctggggtgctgg	8	3	17	13	3	0	1	0	0	0	1	0	3	0	2	4	7	2	1	4	7	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:99500550G>A	uc002bul.2	+	21	4033	c.3983G>A	c.(3982-3984)GGC>GAC	p.G1328D	IGF1R_uc010bon.2_Missense_Mutation_p.G1327D	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	1328	Cytoplasmic (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	GCCGAGAACGGCCCCGGCCCT	0.687													5	6					0	0	0.001984	0	0		A	99500550	A	A	99500550	3	1	4	1	0	0	0	0	1	0	0	0	7587	1203	42	2	4065	2	IGF1R	15	99500550	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	14327	99500550	3030842	3345	5311											
SYNM	23336	broad.mit.edu	37	chr15	99653893	99653893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcctgcaggtgaagaccgGcctcagtctggaggtggcga	7	7	15	12	2	2	2	1	1	1	1	3	4	3	3	4	5	1	1	4	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:99653893G>A	uc002bup.2	+	4	1028	c.908G>A	c.(907-909)GGC>GAC	p.G303D	SYNM_uc002buo.2_Missense_Mutation_p.G303D|SYNM_uc002buq.2_RNA	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	303	Interaction with DMD and UTRN.|Tail.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						GTGAAGACCGGCCTCAGTCTG	0.567													7	17					0	0	0.001984	0	0		A	99653893	A	A	99653893	3	1	4	1	0	0	0	0	1	0	0	0	15480	1203	42	2	913	2	SYNM	15	99653893	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	153343	99653893	2877499	3346	5312											
SYNM	23336	broad.mit.edu	37	chr15	99671250	99671250	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccttggatgtcccagcGccctctctggagggggacct	6	8	13	14	1	1	0	0	0	1	0	3	3	2	3	4	4	2	0	4	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:99671250G>A	uc002bup.2	+	6	2805	c.2685G>A	c.(2683-2685)GCG>GCA	p.A895A	SYNM_uc002buo.2_Silent_p.A895A|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	895	Tail.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						ATGTCCCAGCGCCCTCTCTGG	0.527													5	14					0	0	0.001168	0	0		A	99671250	A	A	99671250	2	1	4	1	0	0	0	0	0	0	0	1	15480	1074	38	1		1	SYNM	15	99671250	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	17357	99671250	2860142	3347	5313											
LRRK1	79705	broad.mit.edu	37	chr15	101567506	101567506	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaaggtcaggaagggctgCgacagctgattttccacgtc	9	9	14	9	2	1	1	1	1	0	0	3	4	2	3	1	4	2	2	1	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:101567506C>T	uc002bwr.2	+	18	2765	c.2446C>T	c.(2446-2448)CGA>TGA	p.R816*	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	816	Roc.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GGAAGGGCTGCGACAGCTGAT	0.592													19	28					0	0	0.008871	0	0		T	101567506	T	T	101567506	4	4	4	1	0	0	0	0	0	1	0	0	9050	760	27	1	2512	1	LRRK1	15	101567506	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1896256	101567506	963886	3348	5314											
AXIN1	8312	broad.mit.edu	37	chr16	339492	339492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactggcccagggtgacagCgcggcccctcaccagggtgc	7	4	15	15	2	1	1	1	1	0	0	1	2	1	1	4	4	3	0	4	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:339492C>T	uc002cgp.1	-	10	2587	c.2410G>A	c.(2410-2412)GCT>ACT	p.A804T	AXIN1_uc002cgq.1_Missense_Mutation_p.A768T	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	804	DIX.				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				AGGGTGACAGCGCGGCCCCTC	0.657													9	18					0	0	0.008291	0	0		T	339492	T	T	339492	3	4	4	1	0	0	0	0	1	0	0	0	1237	768	27	1	186	1	AXIN1	16	339492	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08		339492	90015261	3349	5315											
RAB11FIP3	9727	broad.mit.edu	37	chr16	511442	511442	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacttggatcccagtgggctCggcgtgatcagctttgaaga	8	11	13	9	2	1	3	1	2	0	1	3	4	2	4	1	3	2	2	1	3	2	3	rs149492456		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:511442C>T	uc002chf.2	+	2	1092	c.753C>T	c.(751-753)CTC>CTT	p.L251L		NM_014700	NP_055515	O75154	RFIP3_HUMAN	rab11-family interacting protein 3 isoform 1	251	EF-hand 2.|2 (Potential).				cell cycle|cytokinesis|endocytic recycling|protein transport	centrosome|cleavage furrow|midbody|recycling endosome membrane	ADP-ribosylation factor binding|calcium ion binding|protein homodimerization activity|Rab GTPase binding				0		Hepatocellular(16;0.0218)				CCAGTGGGCTCGGCGTGATCA	0.468													10	117					0	0	0.001855	0	0		T	511442	T	T	511442	2	4	4	1	0	0	0	0	0	0	0	1	12920	871	31	1		1	RAB11FIP3	16	511442	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	171950	511442	89843311	3350	5316											
WDR90	197335	broad.mit.edu	37	chr16	716352	716352	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgtcacgtgcaaagaggTaaagcagccccaagagctgg	12	6	13	10	1	1	2	1	0	0	2	1	2	1	2	2	2	4	4	2	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:716352T>C	uc002cii.1	+	37	4794	c.4740_splice	c.e37+2	p.E1580_splice	WDR90_uc002cij.1_Intron|WDR90_uc002cil.1_Splice_Site|WDR90_uc002cin.1_Splice_Site_p.E195_splice|WDR90_uc010uul.1_Splice_Site_p.E179_splice|WDR90_uc002cio.1_Splice_Site_p.E179_splice|WDR90_uc010bqx.1_Splice_Site_p.E179_splice|RHOT2_uc010uum.1_5'Flank|RHOT2_uc002cip.2_5'Flank|RHOT2_uc002ciq.2_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90											ovary(1)	1		Hepatocellular(780;0.0218)				TGCAAAGAGGTAAAGCAGCCC	0.637													10	31					0	0	0.000978	0	0		C	716352	C	C	716352	5	2	4	1	0	0	0	0	0	0	1	0	17363	1652	57	3	4888	3	WDR90	16	716352	Splice_Site	SNP	T	TCGA-BR-4184-01A-01D-1126-08	204910	716352	89638401	3351	5317											
RHOT2	89941	broad.mit.edu	37	chr16	721922	721922	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagtgtgttcccagcagcGccctggggccccgagctccc	4	8	12	17	2	1	0	1	0	0	0	3	1	3	0	5	2	3	3	5	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:721922G>A	uc002cip.2	+	13	1084	c.1017G>A	c.(1015-1017)GCG>GCA	p.A339A	RHOT2_uc002ciq.2_Silent_p.A232A|RHOT2_uc010bqy.2_Silent_p.A118A	NM_138769	NP_620124	Q8IXI1	MIRO2_HUMAN	ras homolog gene family, member T2	339	EF-hand 2.|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			pancreas(1)	1		Hepatocellular(780;0.0218)				TCCCAGCAGCGCCCTGGGGCC	0.637													8	25					0	0	0.006214	0	0		A	721922	A	A	721922	2	1	4	1	0	0	0	0	0	0	0	1	13369	1074	38	1		1	RHOT2	16	721922	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5570	721922	89632831	3352	5318											
NARFL	64428	broad.mit.edu	37	chr16	780500	780500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcgacctgcacactccgagtCcgtgccctgcagccagtgtg	6	7	12	16	3	0	0	0	0	0	0	2	2	2	0	5	0	4	2	5	0	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:780500C>T	uc002cjr.2	-	11	1360	c.1348G>A	c.(1348-1350)GAC>AAC	p.D450N	NARFL_uc002cjp.2_Missense_Mutation_p.D348N|NARFL_uc002cjq.2_Missense_Mutation_p.D348N|NARFL_uc002cjs.2_Missense_Mutation_p.D232N	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	450					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				CACTCCGAGTCCGTGCCCTGC	0.667													8	28					0	0	0.000978	0	0		T	780500	T	T	780500	3	4	4	1	0	0	0	0	1	0	0	0	10186	855	30	4	86	4	NARFL	16	780500	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	58578	780500	89574253	3353	5319											
MSLN	10232	broad.mit.edu	37	chr16	815527	815527	+	Frame_Shift_Del	DEL	C	-	-																															tgtgtcccgtgtctgcacagCcccccgtcgacatggtctgt																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:815527delC	uc002cjw.1	+	9	756	c.705delC	c.(703-705)GGCfs	p.G235fs	MSLN_uc002cjt.1_Frame_Shift_Del_p.G235fs|MSLN_uc002cju.1_Frame_Shift_Del_p.G235fs|MSLN_uc010brd.1_Frame_Shift_Del_p.G234fs|MSLN_uc002cjv.1_Frame_Shift_Del_p.G235fs|MSLN_uc002cjx.1_Frame_Shift_Del_p.G235fs|MSLN_uc002cjy.1_5'Flank	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein	235					cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)				GTCTGCACAGCCCCCCGTCGA	0.706													7	13	---	---	---	---						.	-	815527	-	-	815527	7	5	4	1	0	1	0	1	0	0	0	0	9899	753	26	0	735	0	MSLN	16	815527	Frame_Shift_Del	DEL	C	TCGA-BR-4184-01A-01D-1126-08	35027	815527	89539226	3354	5320											
BAIAP3	8938	broad.mit.edu	37	chr16	1394700	1394700	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tacgccagcctcttccacagGtgggcctggcccctcagtgc	5	8	11	17	1	2	0	1	0	1	0	3	0	3	0	6	3	3	0	6	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:1394700G>A	uc002clk.1	+	19	1862	c.1862_splice	c.e19+1	p.S621_splice	BAIAP3_uc002clj.2_Splice_Site_p.S603_splice|BAIAP3_uc010uuz.1_Splice_Site_p.S586_splice|BAIAP3_uc010uva.1_Splice_Site_p.S558_splice|BAIAP3_uc010uvc.1_Splice_Site_p.S550_splice	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3						G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				TCTTCCACAGGTGGGCCTGGC	0.647													11	23					0	0	0.003163	0	0		A	1394700	A	A	1394700	5	1	4	1	0	0	0	0	0	0	1	0	1305	1275	44	4	1937	4	BAIAP3	16	1394700	Splice_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	579173	1394700	88960053	3355	5321											
CLCN7	1186	broad.mit.edu	37	chr16	1510842	1510842	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgatgaccctgtacttgagGccagccaggttttccaccac	8	11	9	13	0	0	3	0	3	0	0	1	3	1	3	5	2	2	2	5	2	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:1510842G>A	uc002clv.2	-	5	569	c.459C>T	c.(457-459)GGC>GGT	p.G153G	CLCN7_uc002clw.2_Silent_p.G129G	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	153	Helical; (By similarity).					integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				TGTACTTGAGGCCAGCCAGGT	0.637													4	32					0	0	0.000602	0	0		A	1510842	A	A	1510842	2	1	4	1	0	0	0	0	0	0	0	1	3471	1190	42	2		2	CLCN7	16	1510842	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	116142	1510842	88843911	3356	5322											
EME2	197342	broad.mit.edu	37	chr16	1825067	1825067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggcccaacccactgggtgcCctggatctcccccgagacca	7	6	10	18	1	1	1	0	0	1	1	2	3	1	2	6	3	2	0	6	3	1	0	rs148313225	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:1825067C>T	uc002cmq.1	+	4	503	c.503C>T	c.(502-504)CCC>CTC	p.P168L	MRPS34_uc002cmn.2_5'Flank|MRPS34_uc002cmo.2_5'Flank|MRPS34_uc002cmp.1_5'Flank|EME2_uc010brw.1_Missense_Mutation_p.P168L	NM_001010865	NP_001010865	A4GXA9	EME2_HUMAN	essential meiotic endonuclease 1 homolog 2	168					DNA recombination|DNA repair	nucleus	DNA binding|endonuclease activity			lung(1)|central_nervous_system(1)|pancreas(1)	3						CACTGGGTGCCCTGGATCTCC	0.647								Direct_reversal_of_damage|Homologous_recombination					7	80					0	0	0.000978	0	0		T	1825067	T	T	1825067	3	4	4	1	0	0	0	0	1	0	0	0	5097	623	22	4	517	4	EME2	16	1825067	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	314225	1825067	88529686	3357	5323											
ZNF598	90850	broad.mit.edu	37	chr16	2048277	2048277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgcagggaggggaagtcgtCgtcccgggcagcatgcagcg	7	6	18	10	4	0	0	0	0	0	0	3	2	1	2	1	4	4	4	1	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2048277C>T	uc002cof.1	-	14	2686	c.2671G>A	c.(2671-2673)GAC>AAC	p.D891N	ZNF598_uc002coe.1_Missense_Mutation_p.D255N	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	891						intracellular	zinc ion binding			lung(1)|breast(1)	2						GGGAAGTCGTCGTCCCGGGCA	0.687													22	21					0	0	0.00632	0	0		T	2048277	T	T	2048277	3	4	4	1	0	0	0	0	1	0	0	0	18053	884	31	1	47	1	ZNF598	16	2048277	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	223210	2048277	88306476	3358	5324											
TSC2	7249	broad.mit.edu	37	chr16	2126084	2126084	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggtttaatcagtacatCgtgtgtctggcccatcacgt	8	13	9	11	2	4	0	3	0	1	0	5	0	4	0	1	2	1	2	1	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2126084C>A	uc002con.2	+	24	2761	c.2655C>A	c.(2653-2655)ATC>ATA	p.I885I	TSC2_uc010bsd.2_Silent_p.I885I|TSC2_uc002coo.2_Silent_p.I885I|TSC2_uc010uvv.1_Silent_p.I848I|TSC2_uc010uvw.1_Silent_p.I836I|TSC2_uc002cop.2_Silent_p.I685I	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	885					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				ATCAGTACATCGTGTGTCTGG	0.557			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				17	23					5.01169e-05	5.26904e-05	0.00499	1	0		A	2126084	A	A	2126084	2	1	4	1	0	0	0	0	0	0	0	1	16632	874	31	5		5	TSC2	16	2126084	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	77807	2126084	88228669	3359	5325											
PKD1	5310	broad.mit.edu	37	chr16	2152614	2152614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagaggttcagatggtaaCtccccgctgggtctctgctc	6	11	13	11	1	2	2	1	0	1	2	5	3	3	2	2	4	2	4	2	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2152614C>T	uc002cos.1	-	25	9178	c.8969G>A	c.(8968-8970)AGT>AAT	p.S2990N	PKD1_uc002cot.1_Missense_Mutation_p.S2990N|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2990	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CAGATGGTAACTCCCCGCTGG	0.647													9	11					0	0	0.004482	0	0		T	2152614	T	T	2152614	3	4	4	1	0	0	0	0	1	0	0	0	11982	565	20	4	4030	4	PKD1	16	2152614	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	26530	2152614	88202139	3360	5326											
PKD1	5310	broad.mit.edu	37	chr16	2162937	2162937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgttgtagttcacggtgaCgttgctcacgtggttggagg	6	13	15	7	4	2	1	2	1	0	0	2	2	2	2	0	4	2	6	0	4	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2162937C>T	uc002cos.1	-	13	3222	c.3013G>A	c.(3013-3015)GTC>ATC	p.V1005I	PKD1_uc002cot.1_Missense_Mutation_p.V1005I	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1005	Extracellular (Potential).|PKD 4.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						TTCACGGTGACGTTGCTCACG	0.642													12	18					0	0	0.00245	0	0		T	2162937	T	T	2162937	3	4	4	1	0	0	0	0	1	0	0	0	11982	536	19	1	10034	1	PKD1	16	2162937	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10323	2162937	88191816	3361	5327											
MLST8	64223	broad.mit.edu	37	chr16	2258304	2258304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctgcccacacgcgctacGccctgcagtgtcgcttcagc	5	8	9	19	4	1	0	1	0	0	0	3	0	2	0	3	0	4	3	3	0	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2258304G>A	uc002coz.2	+	7	786	c.667G>A	c.(667-669)GCC>ACC	p.A223T	MLST8_uc002coy.2_Missense_Mutation_p.A223T|MLST8_uc002cpa.2_Missense_Mutation_p.A39T|MLST8_uc002cpb.2_Missense_Mutation_p.A222T|MLST8_uc010uvx.1_Missense_Mutation_p.A157T|MLST8_uc002cpc.2_Missense_Mutation_p.A223T|MLST8_uc002cpd.2_Missense_Mutation_p.A157T|MLST8_uc002cpe.2_Missense_Mutation_p.A223T|MLST8_uc002cpg.2_Missense_Mutation_p.A242T|MLST8_uc002cph.2_Intron|MLST8_uc002cpf.2_Missense_Mutation_p.A223T	NM_022372	NP_071767	Q9BVC4	LST8_HUMAN	G protein beta subunit-like	223	WD 6.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|T cell costimulation	cytosol	protein binding				0						CACGCGCTACGCCCTGCAGTG	0.667													16	70					0	0	0.008871	0	0		A	2258304	A	A	2258304	3	1	4	1	0	0	0	0	1	0	0	0	9652	1087	38	1	689	1	MLST8	16	2258304	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	95367	2258304	88096449	3362	5328											
E4F1	1877	broad.mit.edu	37	chr16	2284179	2284179	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgtggctgcagggccgagGccgttcgcctgcgcgcagtg	3	8	18	12	5	0	0	0	0	0	0	1	1	0	0	3	3	2	4	3	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2284179G>A	uc002cpm.2	+	10	1431	c.1383G>A	c.(1381-1383)AGG>AGA	p.R461R	E4F1_uc010bsi.2_Silent_p.R461R|E4F1_uc010bsj.2_Intron|DNASE1L2_uc002cpn.2_5'Flank|DNASE1L2_uc002cpo.2_5'Flank|DNASE1L2_uc002cpp.2_5'Flank|DNASE1L2_uc002cpq.2_5'Flank	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	461	Mediates interaction with CDKN2A.|Interaction with BMI1.				cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						CAGGGCCGAGGCCGTTCGCCT	0.701													8	6					0	0	0.004482	0	0		A	2284179	A	A	2284179	2	1	4	1	0	0	0	0	0	0	0	1	4880	1194	42	2		2	E4F1	16	2284179	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	25875	2284179	88070574	3363	5329											
SRRM2	23524	broad.mit.edu	37	chr16	2815022	2815022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactcctaggccgaggagtcGttctccatcatccccagagc	8	8	10	15	2	2	1	1	0	1	1	6	4	4	2	5	2	1	1	5	2	1	2	rs151214324		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2815022G>A	uc002crk.2	+	11	5042	c.4493G>A	c.(4492-4494)CGT>CAT	p.R1498H	SRRM2_uc002crj.1_Missense_Mutation_p.R1402H|SRRM2_uc002crl.1_Missense_Mutation_p.R1498H|SRRM2_uc010bsu.1_Missense_Mutation_p.R1402H	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1498	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCGAGGAGTCGTTCTCCATCA	0.498													7	219					0	0	0.001984	0	0		A	2815022	A	A	2815022	3	1	4	1	0	0	0	0	1	0	0	0	15194	1145	40	1	4531	1	SRRM2	16	2815022	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	530843	2815022	87539731	3364	5330											
SRRM2	23524	broad.mit.edu	37	chr16	2815081	2815081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccccagagagaaagaagcGggtcagaatcatcagttgat	14	6	11	10	1	3	5	3	1	0	4	3	6	3	5	3	1	1	1	3	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2815081G>A	uc002crk.2	+	11	5101	c.4552G>A	c.(4552-4554)GGG>AGG	p.G1518R	SRRM2_uc002crj.1_Missense_Mutation_p.G1422R|SRRM2_uc002crl.1_Missense_Mutation_p.G1518R|SRRM2_uc010bsu.1_Missense_Mutation_p.G1422R	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1518	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						AGAAAGAAGCGGGTCAGAATC	0.527													5	192					0	0	0.001168	0	0		A	2815081	A	A	2815081	3	1	4	1	0	0	0	0	1	0	0	0	15194	1116	39	1	4590	1	SRRM2	16	2815081	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	59	2815081	87539672	3365	5331											
SRRM2	23524	broad.mit.edu	37	chr16	2816576	2816576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctcaccagtgacacgccGccgctctaggtcccggacac	9	5	9	18	4	2	1	1	1	1	0	3	2	3	2	5	2	1	1	5	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2816576G>A	uc002crk.2	+	11	6596	c.6047G>A	c.(6046-6048)CGC>CAC	p.R2016H	SRRM2_uc002crj.1_Missense_Mutation_p.R1920H|SRRM2_uc002crl.1_Missense_Mutation_p.R2016H|SRRM2_uc010bsu.1_Missense_Mutation_p.R1920H	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2016	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GTGACACGCCGCCGCTCTAGG	0.577													23	36					0	0	0.004656	0	0		A	2816576	A	A	2816576	3	1	4	1	0	0	0	0	1	0	0	0	15194	1087	38	1	6085	1	SRRM2	16	2816576	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1495	2816576	87538177	3366	5332											
FLYWCH1	84256	broad.mit.edu	37	chr16	2988353	2988353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccataacccagggccaccGcatcatggtcatgcgcagcc	9	5	10	17	3	2	0	2	0	0	0	2	0	2	0	5	2	3	2	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2988353G>A	uc002csd.2	+	8	2309	c.1946G>A	c.(1945-1947)CGC>CAC	p.R649H	FLYWCH1_uc002csb.2_Missense_Mutation_p.R648H|FLYWCH1_uc002csc.2_Missense_Mutation_p.R648H|FLYWCH1_uc010bsv.2_Missense_Mutation_p.R373H|FLYWCH1_uc002cse.2_Missense_Mutation_p.R104H	NM_032296	NP_115672	Q4VC44	FWCH1_HUMAN	FLYWCH-type zinc finger 1 isoform a	649	FLYWCH-type 5.					nucleus	DNA binding|metal ion binding				0						CAGGGCCACCGCATCATGGTC	0.682													4	1					0	0	0.000602	0	0		A	2988353	A	A	2988353	3	1	4	1	0	0	0	0	1	0	0	0	5961	1087	38	1	1965	1	FLYWCH1	16	2988353	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	171777	2988353	87366400	3367	5333											
ZNF205	7755	broad.mit.edu	37	chr16	3169748	3169748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcatccacacgggcgagaagCcctacacctgccccgcctgc	8	5	9	19	3	1	1	1	0	0	1	2	2	2	1	6	1	4	0	6	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:3169748C>T	uc002cub.2	+	7	1222	c.1087C>T	c.(1087-1089)CCC>TCC	p.P363S	ZNF205_uc002cua.2_Missense_Mutation_p.P363S	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	363					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GGGCGAGAAGCCCTACACCTG	0.657													5	63					0	0	0.000602	0	0		T	3169748	T	T	3169748	3	4	4	1	0	0	0	0	1	0	0	0	17789	739	26	2	1109	2	ZNF205	16	3169748	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	181395	3169748	87185005	3368	5334											
ZNF75A	7627	broad.mit.edu	37	chr16	3367335	3367335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagaaaatcattttgatatGcacagagtgggaaaatggca	18	9	10	4	0	1	3	1	1	0	2	1	4	1	4	0	2	1	2	0	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:3367335G>A	uc002cut.3	+	6	883	c.357G>A	c.(355-357)ATG>ATA	p.M119I	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	119					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						ATTTTGATATGCACAGAGTGG	0.388													27	68					0	0	0.005443	0	0		A	3367335	A	A	3367335	3	1	4	1	0	0	0	0	1	0	0	0	18158	1319	46	2	367	2	ZNF75A	16	3367335	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	197587	3367335	86987418	3369	5335											
OR2C1	4993	broad.mit.edu	37	chr16	3406131	3406131	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccatgtacttcttcctcaGcaacctctcctccttggacc	7	12	4	18	0	3	0	1	0	2	0	6	1	5	1	6	1	3	2	6	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:3406131G>T	uc002cuw.1	+	1	243	c.191G>T	c.(190-192)AGC>ATC	p.S64I		NM_012368	NP_036500	O95371	OR2C1_HUMAN	olfactory receptor, family 2, subfamily C,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTCTTCCTCAGCAACCTCTCC	0.522													10	97					9.70103e-10	1.04238e-09	0.008291	1	0		T	3406131	T	T	3406131	3	4	4	1	0	0	0	0	1	0	0	0	11011	971	34	5	193	5	OR2C1	16	3406131	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	38796	3406131	86948622	3370	5336											
ZNF434	54925	broad.mit.edu	37	chr16	3434741	3434741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggcctctcctcactttgcGgtaactcaactgtaggcttt	7	13	8	13	2	3	0	2	0	1	0	4	0	3	0	2	3	3	3	2	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:3434741G>A	uc002cuz.2	-	5	1118	c.316C>T	c.(316-318)CGC>TGC	p.R106C	ZNF434_uc002cux.3_Missense_Mutation_p.R317C|ZNF434_uc010uwx.1_Missense_Mutation_p.R29C|ZNF434_uc002cuy.3_Missense_Mutation_p.R29C|ZNF434_uc010uwy.1_Missense_Mutation_p.R29C|ZNF434_uc010uwz.1_Missense_Mutation_p.R317C|ZNF434_uc010uxa.1_Missense_Mutation_p.R106C	NM_017810	NP_060280	Q9NX65	ZN434_HUMAN	zinc finger protein 434	106					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTCACTTTGCGGTAACTCAAC	0.542													6	180					0	0	0.001168	0	0		A	3434741	A	A	3434741	3	1	4	1	0	0	0	0	1	0	0	0	17933	1116	39	1	1149	1	ZNF434	16	3434741	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	28610	3434741	86920012	3371	5337											
BTBD12	84464	broad.mit.edu	37	chr16	3640237	3640237	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatttctgagatctggagctCgaatggtcaggatttgactg	9	13	13	6	1	3	2	1	2	2	1	4	7	3	4	0	3	1	1	0	3	1	2	rs149748089		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:3640237C>T	uc002cvp.2	-	12	4029	c.3402G>A	c.(3400-3402)TCG>TCA	p.S1134S		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1134	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						ATCTGGAGCTCGAATGGTCAG	0.478								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				5	69					0	0	0.000602	0	0		T	3640237	T	T	3640237	2	4	4	1	0	0	0	0	0	0	0	1	1543	871	31	1		1	BTBD12	16	3640237	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	205496	3640237	86714516	3372	5338											
CREBBP	1387	broad.mit.edu	37	chr16	3781373	3781373	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagggtgaggaaggcgtcGcgcccatccatgaggtcaca	9	5	16	11	4	1	2	1	2	0	0	3	4	2	3	2	4	0	0	2	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:3781373G>A	uc002cvv.2	-	30	5196	c.4992C>T	c.(4990-4992)CGC>CGT	p.R1664R	CREBBP_uc002cvw.2_Silent_p.R1626R	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1664	Interaction with TRERF1.		R -> H (in RSTS1; abolishes acetyltransferase activity).		cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GGAAGGCGTCGCGCCCATCCA	0.642			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				4	7					0	0	0.009096	0	0		A	3781373	A	A	3781373	2	1	4	1	0	0	0	0	0	0	0	1	3864	1074	38	1		1	CREBBP	16	3781373	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	141136	3781373	86573380	3373	5339											
DNAJA3	9093	broad.mit.edu	37	chr16	4491417	4491417	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaagcagtacgatgcctaCggctctgcaggcttcgatcc	9	8	12	12	3	1	0	0	0	1	0	3	3	2	1	2	3	5	5	2	3	3	3	rs139524293		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:4491417C>T	uc002cwk.2	+	4	496	c.471C>T	c.(469-471)TAC>TAT	p.Y157Y	DNAJA3_uc002cwl.2_Silent_p.Y157Y|DNAJA3_uc010uxk.1_Intron	NM_005147	NP_005138	Q96EY1	DNJA3_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 3	157	J.				activation of caspase activity|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of cell proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|neuromuscular junction development|positive regulation of apoptosis|positive regulation of protein ubiquitination|protein folding|protein folding|protein stabilization|response to heat|response to interferon-gamma	cytosol|mitochondrial matrix|mitochondrial nucleoid|nucleus	ATP binding|heat shock protein binding|interferon-gamma receptor binding|metal ion binding|NF-kappaB binding|protein kinase binding			ovary(2)|breast(2)	4						ACGATGCCTACGGCTCTGCAG	0.577													14	23					0	0	0.003163	0	0		T	4491417	T	T	4491417	2	4	4	1	0	0	0	0	0	0	0	1	4619	547	19	1		1	DNAJA3	16	4491417	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	710044	4491417	85863336	3374	5340											
GLYR1	84656	broad.mit.edu	37	chr16	4873830	4873830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagctccttacctcgcttgCggttggctgccatttaaacg	7	12	10	12	3	0	1	0	0	0	1	2	1	1	1	3	2	5	4	3	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:4873830C>T	uc002cxx.3	-	6	653	c.616G>A	c.(616-618)GCA>ACA	p.A206T	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Missense_Mutation_p.A137T|GLYR1_uc002cya.2_Missense_Mutation_p.A206T|GLYR1_uc010uxv.1_Missense_Mutation_p.A125T	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	206					pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						ACCTCGCTTGCGGTTGGCTGC	0.542													25	105					0	0	0.002836	0	0		T	4873830	T	T	4873830	3	4	4	1	0	0	0	0	1	0	0	0	6498	768	27	1	1089	1	GLYR1	16	4873830	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	382413	4873830	85480923	3375	5341											
PPL	5493	broad.mit.edu	37	chr16	4933784	4933784	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggtctttgtccttggagagCctcttgaggtcatccagttc	6	14	11	10	0	3	2	1	1	2	1	6	3	5	2	3	3	1	1	3	3	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:4933784C>T	uc002cyd.1	-	22	4962	c.4872G>A	c.(4870-4872)AGG>AGA	p.R1624R		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1624	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						CCTTGGAGAGCCTCTTGAGGT	0.627													14	44					0	0	0.001855	0	0		T	4933784	T	T	4933784	2	4	4	1	0	0	0	0	0	0	0	1	12356	738	26	2		2	PPL	16	4933784	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	59954	4933784	85420969	3376	5342											
USP7	7874	broad.mit.edu	37	chr16	8994445	8994445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggctttatcaagagacaCgtcatagtcctgaattctct	12	12	8	9	1	3	2	2	1	1	1	5	3	4	2	1	1	0	1	1	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:8994445C>T	uc002czl.2	-	21	2450	c.2251G>A	c.(2251-2253)GTG>ATG	p.V751M	USP7_uc010uyk.1_Missense_Mutation_p.V652M|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.V652M|USP7_uc002czk.2_Missense_Mutation_p.V735M	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	751	Interaction with ICP0/VMW110.				interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TCAAGAGACACGTCATAGTCC	0.343													27	59					0	0	0.007291	0	0		T	8994445	T	T	8994445	3	4	4	1	0	0	0	0	1	0	0	0	17114	536	19	1	1101	1	USP7	16	8994445	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4060661	8994445	81360308	3377	5343											
ATF7IP2	80063	broad.mit.edu	37	chr16	10524906	10524906	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcactgaacacttctgaaaaCgattctgagcatcagacaaa	16	9	6	10	1	4	4	2	3	2	1	4	5	4	4	0	0	3	1	0	0	4	2	rs114568129	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:10524906C>T	uc002czu.2	+	3	656	c.429C>T	c.(427-429)AAC>AAT	p.N143N	ATF7IP2_uc002czv.2_Silent_p.N143N|ATF7IP2_uc010uyo.1_RNA|ATF7IP2_uc010uyp.1_Intron|ATF7IP2_uc002czw.2_Silent_p.N143N|ATF7IP2_uc010uyq.1_RNA	NM_024997	NP_079273	Q5U623	MCAF2_HUMAN	activating transcription factor 7 interacting	143					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						CTTCTGAAAACGATTCTGAGC	0.438													28	87					0	0	0.007291	0	0		T	10524906	T	T	10524906	2	4	4	1	0	0	0	0	0	0	0	1	1089	535	19	1		1	ATF7IP2	16	10524906	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1530461	10524906	79829847	3378	5344											
CIITA	4261	broad.mit.edu	37	chr16	11001033	11001033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcctgagcaaggccgacGccctatttgagctgtccggc	8	7	13	13	3	0	3	0	2	0	1	1	4	1	3	4	2	3	2	4	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:11001033G>A	uc002dai.3	+	11	1817	c.1684G>A	c.(1684-1686)GCC>ACC	p.A562T	CIITA_uc002daj.3_Missense_Mutation_p.A563T|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Missense_Mutation_p.A562T|CIITA_uc002dah.2_Missense_Mutation_p.A514T|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	562	NACHT.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						CAAGGCCGACGCCCTATTTGA	0.637			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								5	17					0	0	0.000602	0	0		A	11001033	A	A	11001033	3	1	4	1	0	0	0	0	1	0	0	0	3431	1087	38	1	1726	1	CIITA	16	11001033	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	476127	11001033	79353720	3379	5345											
PRM3	58531	broad.mit.edu	37	chr16	11367303	11367303	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcttcctcctcttcctcGcccgctgatgacaaggagaa	7	11	7	16	2	2	3	0	2	2	1	7	4	6	3	5	1	0	1	5	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:11367303G>A	uc002dat.1	-	1	150	c.150C>T	c.(148-150)GGC>GGT	p.G50G	C16orf75_uc002daq.1_Intron	NM_021247	NP_067070	Q9NNZ6	PRM3_HUMAN	protamine 3	50					cell differentiation|chromosome condensation|multicellular organismal development|spermatogenesis	nucleosome|nucleus	DNA binding				0						cctcttcctcGCCCGCTGATG	0.438													3	3					0	0	0.004672	0	0		A	11367303	A	A	11367303	2	1	4	1	0	0	0	0	0	0	0	1	12556	1074	38	1		1	PRM3	16	11367303	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	366270	11367303	78987450	3380	5346											
TXNDC11	51061	broad.mit.edu	37	chr16	11815525	11815525	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaagtacccgagtactccaGgctgcaggaaaaagagcaga	16	4	11	10	1	0	2	0	0	0	2	1	4	1	3	2	2	4	5	2	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:11815525G>T	uc010buu.1	-	5	763	c.701C>A	c.(700-702)CCT>CAT	p.P234H	TXNDC11_uc002dbg.1_Missense_Mutation_p.P234H	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	234					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						GAGTACTCCAGGCTGCAGGAA	0.403													8	24					2.52707e-12	2.7356e-12	0.006214	1	0		T	11815525	T	T	11815525	3	4	4	1	0	0	0	0	1	0	0	0	16818	1014	35	5	2207	5	TXNDC11	16	11815525	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	448222	11815525	78539228	3381	5347											
SNX29	92017	broad.mit.edu	37	chr16	12220513	12220513	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aactgcgccaggccactgtgGccatgatgaacaggaaggat	12	6	13	10	1	0	2	0	2	0	0	0	4	0	4	3	4	3	0	3	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:12220513G>T	uc002dby.3	+	5	327	c.271G>T	c.(271-273)GCC>TCC	p.A91S	SNX29_uc010uyx.1_Missense_Mutation_p.A118S	NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	91	Potential.				cell communication		phosphatidylinositol binding			ovary(1)	1						GGCCACTGTGGCCATGATGAA	0.488													4	43					0.000602214	0.000627828	0.000602	1	0		T	12220513	T	T	12220513	3	4	4	1	0	0	0	0	1	0	0	0	14923	1203	42	5	285	5	SNX29	16	12220513	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	404988	12220513	78134240	3382	5348											
SNX29	92017	broad.mit.edu	37	chr16	12618607	12618607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagctccagaattacctgCgcagcgtcatgaacaaagtc	13	7	9	12	2	1	2	1	1	0	1	3	2	2	2	2	0	6	3	2	0	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:12618607C>T	uc002dby.3	+	13	1128	c.1072C>T	c.(1072-1074)CGC>TGC	p.R358C		NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	358	PX.				cell communication		phosphatidylinositol binding			ovary(1)	1						GAATTACCTGCGCAGCGTCAT	0.522													10	39					0	0	0.006214	0	0		T	12618607	T	T	12618607	3	4	4	1	0	0	0	0	1	0	0	0	14923	768	27	1	1118	1	SNX29	16	12618607	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	398094	12618607	77736146	3383	5349											
PARN	5073	broad.mit.edu	37	chr16	14576504	14576504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagctcttacctattgttgCggtaatagtgattctgcagg	9	14	11	7	1	2	2	0	1	2	1	2	2	2	2	1	2	4	4	1	2	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:14576504C>T	uc010uzd.1	-	22	1803	c.1661G>A	c.(1660-1662)CGC>CAC	p.R554H	PARN_uc010uzc.1_Missense_Mutation_p.R493H|PARN_uc010uze.1_Missense_Mutation_p.R508H|PARN_uc010uzf.1_Missense_Mutation_p.R379H	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation	554					female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2						CCTATTGTTGCGGTAATAGTG	0.428													25	66					0	0	0.002096	0	0		T	14576504	T	T	14576504	3	4	4	1	0	0	0	0	1	0	0	0	11472	768	27	1	270	1	PARN	16	14576504	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1957897	14576504	75778249	3384	5350											
PARN	5073	broad.mit.edu	37	chr16	14687198	14687198	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgatgaactgtgtgcatgAcgtccaagagcatattgtgt	11	12	11	7	1	0	4	0	3	0	1	1	4	1	4	1	0	3	2	1	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:14687198A>G	uc010uzd.1	-	13	1020	c.878T>C	c.(877-879)GTC>GCC	p.V293A	PARN_uc010uzc.1_Missense_Mutation_p.V232A|PARN_uc010uze.1_Missense_Mutation_p.V247A|PARN_uc010uzf.1_Missense_Mutation_p.V118A	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation	293					female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2						TGTGTGCATGACGTCCAAGAG	0.373													4	75					0	0	0.000602	0	0		G	14687198	G	G	14687198	3	3	4	1	0	0	0	0	1	0	0	0	11472	275	10	3	1089	3	PARN	16	14687198	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	110694	14687198	75667555	3385	5351											
KIAA0430	9665	broad.mit.edu	37	chr16	15714321	15714321	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttactttttttcatagaTatctgtaaatttaaacagag	15	17	4	5	0	2	2	1	0	1	2	2	2	2	2	0	0	3	1	0	0	8	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:15714321T>C	uc002ddr.2	-	13	2900	c.2707A>G	c.(2707-2709)ATC>GTC	p.I903V	KIAA0430_uc002ddq.2_Missense_Mutation_p.I737V|KIAA0430_uc010uzv.1_Missense_Mutation_p.I899V|KIAA0430_uc010uzw.1_Missense_Mutation_p.I902V	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	902						peroxisome	nucleotide binding|RNA binding				0						TTTTCATAGATATCTGTAAAT	0.313													16	44					0	0	0.010504	0	0		C	15714321	C	C	15714321	3	2	4	1	0	0	0	0	1	0	0	0	8193	1406	49	3	2581	3	KIAA0430	16	15714321	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1027123	15714321	74640432	3386	5352											
ABCC1	4363	broad.mit.edu	37	chr16	16208889	16208889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggccacgcccatcgccGccatcatcatcccgcccctt	5	8	7	21	4	2	0	2	0	0	0	4	0	3	0	7	1	1	1	7	1	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:16208889G>A	uc010bvi.2	+	23	3521	c.3346G>A	c.(3346-3348)GCC>ACC	p.A1116T	ABCC1_uc010bvj.2_Missense_Mutation_p.A1057T|ABCC1_uc010bvk.2_Missense_Mutation_p.A1060T|ABCC1_uc010bvl.2_Missense_Mutation_p.A1116T|ABCC1_uc010bvm.2_Missense_Mutation_p.A1001T|ABCC1_uc002del.3_Missense_Mutation_p.A1010T	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1116	Helical; Name=15.|ABC transmembrane type-1 2.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GCCCATCGCCGCCATCATCAT	0.547													9	24					0	0	0.006214	0	0		A	16208889	A	A	16208889	3	1	4	1	0	0	0	0	1	0	0	0	49	1087	38	1	3436	1	ABCC1	16	16208889	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	494568	16208889	74145864	3387	5353											
XYLT1	64131	broad.mit.edu	37	chr16	17294440	17294440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaccaccaggacaaaggCgattctgaccgggttggctg	9	7	15	10	2	1	1	0	1	1	0	1	4	1	3	3	5	0	2	3	5	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:17294440C>T	uc002dfa.2	-	4	1070	c.985G>A	c.(985-987)GCC>ACC	p.A329T		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	329	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						AGGACAAAGGCGATTCTGACC	0.552													9	113					0	0	0.006214	0	0		T	17294440	T	T	17294440	3	4	4	1	0	0	0	0	1	0	0	0	17489	768	27	1	1930	1	XYLT1	16	17294440	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1085551	17294440	73060313	3388	5354											
TMC5	79838	broad.mit.edu	37	chr16	19483429	19483429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaacctgtcagagctccGtcaggagaattccaagttga	12	8	12	9	1	2	4	2	1	0	3	4	6	4	4	3	2	2	2	3	2	3	2	rs141710338	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:19483429G>A	uc002dgc.3	+	11	2551	c.1802G>A	c.(1801-1803)CGT>CAT	p.R601H	TMC5_uc010vaq.1_Intron|TMC5_uc002dgb.3_Missense_Mutation_p.R601H|TMC5_uc010var.1_Missense_Mutation_p.R601H|TMC5_uc002dgd.1_Missense_Mutation_p.R355H|TMC5_uc002dge.3_Missense_Mutation_p.R355H|TMC5_uc002dgf.3_Missense_Mutation_p.R284H|TMC5_uc002dgg.3_Missense_Mutation_p.R242H	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	601	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						TCAGAGCTCCGTCAGGAGAAT	0.358													43	89					0	0	0.003214	0	0		A	19483429	A	A	19483429	3	1	4	1	0	0	0	0	1	0	0	0	16013	1145	40	1	2150	1	TMC5	16	19483429	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2188989	19483429	70871324	3389	5355											
GPRC5B	51704	broad.mit.edu	37	chr16	19884011	19884011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacaatgccccagatggCgtccaggtcgcacagggaca	11	4	11	15	2	0	1	0	0	0	1	2	2	1	2	4	3	1	1	4	3	1	0	rs137970804	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:19884011C>T	uc002dgt.2	-	2	265	c.157G>A	c.(157-159)GCC>ACC	p.A53T	GPRC5B_uc010vav.1_Missense_Mutation_p.A79T	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	53	Extracellular (Potential).									lung(1)|breast(1)|skin(1)	3						CCCCAGATGGCGTCCAGGTCG	0.647													7	18					0	0	0.001984	0	0		T	19884011	T	T	19884011	3	4	4	1	0	0	0	0	1	0	0	0	6741	768	27	1	1066	1	GPRC5B	16	19884011	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	400582	19884011	70470742	3390	5356											
PDILT	204474	broad.mit.edu	37	chr16	20410510	20410510	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgcgttcctccaggatgTgcacaggcttggttatgtgg	6	12	14	9	1	0	0	0	0	0	0	2	2	2	1	2	4	2	4	2	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:20410510T>C	uc002dhc.1	-	2	336	c.113A>G	c.(112-114)CAC>CGC	p.H38R		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	38					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						CTCCAGGATGTGCACAGGCTT	0.597													4	92					0	0	0.000978	0	0		C	20410510	C	C	20410510	3	2	4	1	0	0	0	0	1	0	0	0	11693	1696	59	3	1685	3	PDILT	16	20410510	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	526499	20410510	69944243	3391	5357											
DNAH3	55567	broad.mit.edu	37	chr16	21033308	21033308	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaccaagcagagaagagtAcagtctcatcattgagaagg	15	8	10	8	0	2	3	2	1	1	3	3	5	2	3	1	1	3	2	1	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:21033308A>G	uc010vbe.1	-	40	5761	c.5761T>C	c.(5761-5763)TAC>CAC	p.Y1921H		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1921					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		AGAGAAGAGTACAGTCTCATC	0.418													14	40					0	0	0.00245	0	0		G	21033308	G	G	21033308	3	3	4	1	0	0	0	0	1	0	0	0	4609	391	14	3	6680	3	DNAH3	16	21033308	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	622798	21033308	69321445	3392	5358											
EEF2K	29904	broad.mit.edu	37	chr16	22260086	22260086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctgcaggtacaacgccGtcaccggggaatggctggat	8	8	14	11	3	2	0	1	0	1	0	3	2	2	2	2	5	3	3	2	5	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:22260086G>A	uc002dki.2	+	4	843	c.358G>A	c.(358-360)GTC>ATC	p.V120I	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	120	Alpha-type protein kinase.				insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		GTACAACGCCGTCACCGGGGA	0.572													6	37					0	0	0.001168	0	0		A	22260086	A	A	22260086	3	1	4	1	0	0	0	0	1	0	0	0	4936	1145	40	1	368	1	EEF2K	16	22260086	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1226778	22260086	68094667	3393	5359											
USP31	57478	broad.mit.edu	37	chr16	23079707	23079707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttgccaagatccgtcgagCgccgggtttccttctgtctc	4	13	10	14	4	3	1	0	0	3	1	7	2	5	1	4	1	2	1	4	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:23079707C>T	uc002dll.2	-	16	3719	c.3719G>A	c.(3718-3720)CGC>CAC	p.R1240H	USP31_uc002dlk.2_Missense_Mutation_p.R512H|USP31_uc010vca.1_Missense_Mutation_p.R543H|USP31_uc010bxm.2_Missense_Mutation_p.R528H	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	1240					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		ATCCGTCGAGCGCCGGGTTTC	0.537													39	133					0	0	0.00361	0	0		T	23079707	T	T	23079707	3	4	4	1	0	0	0	0	1	0	0	0	17088	768	27	1	343	1	USP31	16	23079707	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	819621	23079707	67275046	3394	5360											
SCNN1G	6340	broad.mit.edu	37	chr16	23197805	23197805	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctcatcctctggcagtgCgccctcctcgtcttctcctt	2	13	7	19	2	4	0	1	0	3	0	8	0	6	0	5	1	1	1	5	1	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:23197805C>T	uc002dlm.1	+	2	352	c.213C>T	c.(211-213)TGC>TGT	p.C71C		NM_001039	NP_001030	P51170	SCNNG_HUMAN	sodium channel, nonvoltage-gated 1, gamma	71	Helical; (By similarity).				excretion|sensory perception of taste	apical plasma membrane|integral to plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(48;0.0366)	Amiloride(DB00594)|Triamterene(DB00384)	TCTGGCAGTGCGCCCTCCTCG	0.597													5	42					0	0	0.000602	0	0		T	23197805	T	T	23197805	2	4	4	1	0	0	0	0	0	0	0	1	13955	776	27	1		1	SCNN1G	16	23197805	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	118098	23197805	67156948	3395	5361											
SCNN1B	6338	broad.mit.edu	37	chr16	23364329	23364329	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggagacaaccacaatggCttaacaagcagctcagcatc	14	8	8	11	0	1	1	1	0	0	1	2	2	1	1	1	2	5	4	1	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:23364329C>T	uc002dln.2	+	3	695	c.519C>T	c.(517-519)GGC>GGT	p.G173G		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	173	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	ACCACAATGGCTTAACAAGCA	0.502													27	104					0	0	0.002445	0	0		T	23364329	T	T	23364329	2	4	4	1	0	0	0	0	0	0	0	1	13953	784	28	2		2	SCNN1B	16	23364329	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	166524	23364329	66990424	3396	5362											
COG7	91949	broad.mit.edu	37	chr16	23421653	23421653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgaagtccccacaatgccGcaaaagctctccacaggtgg	11	6	9	15	2	1	0	0	0	1	0	4	1	2	0	4	2	2	2	4	2	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:23421653G>A	uc002dlo.2	-	11	1626	c.1438C>T	c.(1438-1440)CGG>TGG	p.R480W		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	480					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		CCACAATGCCGCAAAAGCTCT	0.478													4	38					0	0	0.009096	0	0		A	23421653	A	A	23421653	3	1	4	1	0	0	0	0	1	0	0	0	3666	1086	38	1	902	1	COG7	16	23421653	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	57324	23421653	66933100	3397	5363											
PRKCB	5579	broad.mit.edu	37	chr16	23847557	23847557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagagcaccgtgcgcttcGcccgcaaaggcgccctccgg	7	4	14	16	6	0	1	0	0	0	1	2	2	1	1	4	3	2	3	4	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:23847557G>A	uc002dmd.2	+	1	258	c.61G>A	c.(61-63)GCC>ACC	p.A21T	PRKCB_uc002dme.2_Missense_Mutation_p.A21T	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	21					apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	CGTGCGCTTCGCCCGCAAAGG	0.652													13	13					0	0	0.001855	0	0		A	23847557	A	A	23847557	3	1	4	1	0	0	0	0	1	0	0	0	12530	1087	38	1	63	1	PRKCB	16	23847557	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	425904	23847557	66507196	3398	5364											
RBBP6	5930	broad.mit.edu	37	chr16	24567768	24567768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaataccaactatagatgCgtaagtatgcaaattaggta	16	11	8	6	1	0	1	0	0	0	1	0	1	0	1	1	1	5	5	1	1	10	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:24567768C>T	uc002dmh.2	+	7	1714	c.674C>T	c.(673-675)GCA>GTA	p.A225V	RBBP6_uc010vcb.1_Missense_Mutation_p.A92V|RBBP6_uc002dmi.2_Missense_Mutation_p.A225V|RBBP6_uc010bxr.2_Missense_Mutation_p.A225V|RBBP6_uc002dmk.2_Missense_Mutation_p.A92V	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	225					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		ACTATAGATGCGTAAGTATGC	0.398													6	62					0	0	0.001984	0	0		T	24567768	T	T	24567768	3	4	4	1	0	0	0	0	1	0	0	0	13128	782	27	1	754	1	RBBP6	16	24567768	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	720211	24567768	65786985	3399	5365											
RBBP6	5930	broad.mit.edu	37	chr16	24583525	24583525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggaagccagacccgaaGccacagtagcagtgccagct	11	6	11	13	1	1	1	0	0	1	1	1	3	1	2	4	1	5	3	4	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:24583525G>A	uc002dmh.2	+	18	6178	c.5138G>A	c.(5137-5139)AGC>AAC	p.S1713N	RBBP6_uc002dmi.2_Missense_Mutation_p.S1679N|RBBP6_uc010bxr.2_Missense_Mutation_p.S873N|RBBP6_uc002dmk.2_Missense_Mutation_p.S1546N	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1713					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		CAGACCCGAAGCCACAGTAGC	0.358													15	23					0	0	0.007413	0	0		A	24583525	A	A	24583525	3	1	4	1	0	0	0	0	1	0	0	0	13128	971	34	2	5262	2	RBBP6	16	24583525	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	15757	24583525	65771228	3400	5366											
ARHGAP17	55114	broad.mit.edu	37	chr16	24942549	24942549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgagagctgggagggggCggagggctggcctggaggct	5	6	23	7	1	0	1	0	1	0	1	0	5	0	4	1	8	2	4	1	8	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:24942549C>T	uc002dnb.2	-	19	2164	c.2071G>A	c.(2071-2073)GCC>ACC	p.A691T	ARHGAP17_uc002dmx.2_5'UTR|ARHGAP17_uc002dmw.2_5'UTR|ARHGAP17_uc002dmy.2_Missense_Mutation_p.A136T|ARHGAP17_uc002dmz.2_Missense_Mutation_p.A215T|ARHGAP17_uc002dna.2_Missense_Mutation_p.A418T|ARHGAP17_uc002dnc.2_Missense_Mutation_p.A613T|ARHGAP17_uc010vcf.1_Missense_Mutation_p.A434T|ARHGAP17_uc002dne.1_5'UTR	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	691	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		TGGGAGGGGGCGGAGGGCTGG	0.672													5	31					0	0	0.000602	0	0		T	24942549	T	T	24942549	3	4	4	1	0	0	0	0	1	0	0	0	867	768	27	1	582	1	ARHGAP17	16	24942549	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	359024	24942549	65412204	3401	5367											
IL4R	3566	broad.mit.edu	37	chr16	27370284	27370284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaacccagcccgcagccGcctcgtggctataataatcc	9	7	7	18	3	0	0	0	0	0	0	3	0	2	0	6	1	3	2	6	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:27370284G>A	uc002don.2	+	9	1060	c.818G>A	c.(817-819)CGC>CAC	p.R273H	IL4R_uc002dop.3_Missense_Mutation_p.R258H|IL4R_uc010bxy.2_Missense_Mutation_p.R273H|IL4R_uc002doo.2_Missense_Mutation_p.R113H	NM_000418	NP_000409	P24394	IL4RA_HUMAN	interleukin 4 receptor alpha chain isoform a	273	Cytoplasmic (Potential).				immune response|production of molecular mediator involved in inflammatory response	integral to plasma membrane	identical protein binding|interleukin-4 receptor activity|receptor signaling protein activity			ovary(1)|skin(1)	2						GCCCGCAGCCGCCTCGTGGCT	0.483													9	29					0	0	0.001368	0	0		A	27370284	A	A	27370284	3	1	4	1	0	0	0	0	1	0	0	0	7714	1087	38	1	862	1	IL4R	16	27370284	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2427735	27370284	62984469	3402	5368											
GTF3C1	2975	broad.mit.edu	37	chr16	27481652	27481652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccaacttgccggcagcccGcattctgtccaaaaactgga	10	8	9	14	2	1	0	0	0	1	0	3	1	3	1	4	2	4	2	4	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:27481652G>A	uc002dov.1	-	31	4631	c.4591C>T	c.(4591-4593)CGG>TGG	p.R1531W	GTF3C1_uc002dou.2_Missense_Mutation_p.R1531W	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1531						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CCGGCAGCCCGCATTCTGTCC	0.512													17	135					0	0	0.006122	0	0		A	27481652	A	A	27481652	3	1	4	1	0	0	0	0	1	0	0	0	6888	1086	38	1	1766	1	GTF3C1	16	27481652	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	111368	27481652	62873101	3403	5369											
GTF3C1	2975	broad.mit.edu	37	chr16	27509009	27509009	+	Frame_Shift_Del	DEL	T	-	-																															tatgcccattttattatcacTttttttcatccgtccacttt																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:27509009delT	uc002dov.1	-	14	2339	c.2299delA	c.(2299-2301)AGTfs	p.S767fs	GTF3C1_uc002dou.2_Frame_Shift_Del_p.S767fs	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	767						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TTATTATCACTTTTTTTCATC	0.433													37	66	---	---	---	---						.	-	27509009	-	-	27509009	7	5	4	1	0	1	0	1	0	0	0	0	6888	1609	56	0	4126	0	GTF3C1	16	27509009	Frame_Shift_Del	DEL	T	TCGA-BR-4184-01A-01D-1126-08	27357	27509009	62845744	3404	5370											
KIAA0556	23247	broad.mit.edu	37	chr16	27709701	27709701	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaacccgcaaaactctttgCgaggctgagtacccagagga	12	6	11	12	2	1	2	0	1	1	1	1	4	1	3	2	2	4	4	2	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:27709701C>T	uc002dow.2	+	9	1017	c.993C>T	c.(991-993)TGC>TGT	p.C331C	KIAA0556_uc002dox.1_Silent_p.C239C	NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	331										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						AAACTCTTTGCGAGGCTGAGT	0.587													22	78					0	0	0.003954	0	0		T	27709701	T	T	27709701	2	4	4	1	0	0	0	0	0	0	0	1	8199	776	27	1		1	KIAA0556	16	27709701	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	200692	27709701	62645052	3405	5371											
SEZ6L2	26470	broad.mit.edu	37	chr16	29889661	29889661	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggacgtgcacgccccacacGcagtcttggcccgggctata	7	7	12	15	4	1	0	0	0	1	0	1	1	1	1	3	3	1	3	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:29889661G>A	uc002duq.3	-	10	1899	c.1659C>T	c.(1657-1659)TGC>TGT	p.C553C	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Silent_p.C483C|SEZ6L2_uc002dur.3_Silent_p.C483C|SEZ6L2_uc002dus.3_Silent_p.C439C|SEZ6L2_uc010vec.1_Silent_p.C553C|SEZ6L2_uc010ved.1_Silent_p.C509C	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	553	CUB 3.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						CGCCCCACACGCAGTCTTGGC	0.607													16	41					0	0	0.00499	0	0		A	29889661	A	A	29889661	2	1	4	1	0	0	0	0	0	0	0	1	14169	1079	38	1		1	SEZ6L2	16	29889661	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2179960	29889661	60465092	3406	5372											
TBX6	6911	broad.mit.edu	37	chr16	30100018	30100018	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcagggtcactcacctgtGggttctggtaggctgtcacg	7	10	14	10	1	4	0	3	0	1	0	4	0	4	0	1	4	1	4	1	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30100018G>T	uc010veh.1	-	5	824	c.764C>A	c.(763-765)CCA>CAA	p.P255Q	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TBX6_uc002dwk.1_Missense_Mutation_p.P255Q	NM_004608	NP_004599	O95947	TBX6_HUMAN	T-box 6	255	T-box.				anatomical structure morphogenesis|mesoderm development|multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						ACTCACCTGTGGGTTCTGGTA	0.617													6	93					5.9392e-07	6.31025e-07	0.001168	1	0		T	30100018	T	T	30100018	3	4	4	1	0	0	0	0	1	0	0	0	15687	1348	47	5	566	5	TBX6	16	30100018	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	210357	30100018	60254735	3407	5373											
ZNF764	92595	broad.mit.edu	37	chr16	30569345	30569345	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtaggtctcccgcatcacGtcccggtacagggccctctg	5	8	11	17	4	3	0	1	0	2	0	5	0	4	0	4	3	1	3	4	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30569345G>A	uc002dyq.2	-	1	240	c.159C>T	c.(157-159)GAC>GAT	p.D53D	ZNF764_uc002dyr.1_Silent_p.D53D	NM_033410	NP_219363	Q96H86	ZN764_HUMAN	zinc finger protein 764	53	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCCGCATCACGTCCCGGTACA	0.726													5	6					0	0	0.001984	0	0		A	30569345	A	A	30569345	2	1	4	1	0	0	0	0	0	0	0	1	18163	1136	40	1		1	ZNF764	16	30569345	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	469327	30569345	59785408	3408	5374											
SRCAP	10847	broad.mit.edu	37	chr16	30732759	30732759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgactcctgcaccacagcGcctcattctatctcccgata	8	10	5	18	3	3	0	1	0	2	0	6	2	5	0	5	0	2	1	5	0	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30732759G>A	uc002dze.1	+	21	3888	c.3503G>A	c.(3502-3504)CGC>CAC	p.R1168H	SRCAP_uc002dzf.2_Intron|SRCAP_uc002dzg.1_Missense_Mutation_p.R1025H|SRCAP_uc010bzz.1_Missense_Mutation_p.R738H	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1168	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			GCACCACAGCGCCTCATTCTA	0.597													4	52					0	0	0.009096	0	0		A	30732759	A	A	30732759	3	1	4	1	0	0	0	0	1	0	0	0	15160	1087	38	1	3577	1	SRCAP	16	30732759	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	163414	30732759	59621994	3409	5375											
PHKG2	5261	broad.mit.edu	37	chr16	30768236	30768236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttatgcgctgcggtcagtgCggcacctcatcgacaactgt	7	10	11	13	4	2	0	2	0	0	0	3	1	2	0	1	2	4	2	1	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30768236C>T	uc002dzk.1	+	10	1132	c.1039C>T	c.(1039-1041)CGG>TGG	p.R347W	PHKG2_uc002dzi.1_Missense_Mutation_p.R351W|PHKG2_uc002dzj.1_Missense_Mutation_p.R245W	NM_000294	NP_000285	P15735	PHKG2_HUMAN	phosphorylase kinase, gamma 2 (testis)	347	Calmodulin-binding (domain-C) (By similarity).				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			ovary(1)	1			Colorectal(24;0.198)			GCGGTCAGTGCGGCACCTCAT	0.622													5	94					0	0	0.001168	0	0		T	30768236	T	T	30768236	3	4	4	1	0	0	0	0	1	0	0	0	11866	759	27	1	1073	1	PHKG2	16	30768236	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	35477	30768236	59586517	3410	5376											
RNF40	9810	broad.mit.edu	37	chr16	30780692	30780692	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagaaggatgagttgggCgagcaggtccttggcctcaa	10	7	17	7	1	1	2	1	1	0	1	2	6	2	3	2	5	1	2	2	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30780692C>T	uc002dzq.2	+	16	2556	c.2433C>T	c.(2431-2433)GGC>GGT	p.G811G	RNF40_uc010caa.2_Silent_p.G811G|RNF40_uc010cab.2_Silent_p.G711G|RNF40_uc010vfa.1_Silent_p.G143G|RNF40_uc002dzr.2_Silent_p.G811G|RNF40_uc010vfb.1_Silent_p.G503G|RNF40_uc010vfc.1_Silent_p.G143G	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	811	Potential.				histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			ATGAGTTGGGCGAGCAGGTCC	0.582													6	49					0	0	0.001168	0	0		T	30780692	T	T	30780692	2	4	4	1	0	0	0	0	0	0	0	1	13518	755	27	1		1	RNF40	16	30780692	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	12456	30780692	59574061	3411	5377											
ZNF629	23361	broad.mit.edu	37	chr16	30794300	30794300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttctcaccggtgtggatgCgctggtggcggataagggtg	5	10	18	8	3	1	0	1	0	1	0	2	2	1	2	1	6	1	2	1	6	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30794300C>T	uc002dzs.1	-	3	1557	c.1349G>A	c.(1348-1350)CGC>CAC	p.R450H		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	450	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			GGTGTGGATGCGCTGGTGGCG	0.637													7	76					0	0	0.004482	0	0		T	30794300	T	T	30794300	3	4	4	1	0	0	0	0	1	0	0	0	18078	768	27	1	1264	1	ZNF629	16	30794300	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	13608	30794300	59560453	3412	5378											
ZNF629	23361	broad.mit.edu	37	chr16	30794364	30794364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagtcggcgcagatgtaggGccgctcgccgcggtggatgc	5	6	18	12	6	0	1	0	0	0	1	2	2	0	2	2	4	1	4	2	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30794364G>A	uc002dzs.1	-	3	1493	c.1285C>T	c.(1285-1287)CCC>TCC	p.P429S		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	429					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			CAGATGTAGGGCCGCTCGCCG	0.632													8	31					0	0	0.00308	0	0		A	30794364	A	A	30794364	3	1	4	1	0	0	0	0	1	0	0	0	18078	1203	42	2	1328	2	ZNF629	16	30794364	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	64	30794364	59560389	3413	5379											
SETD1A	9739	broad.mit.edu	37	chr16	30976445	30976445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagttcggacttccccccGcccagcctcccctgcccgct	5	7	8	21	3	0	1	0	0	0	1	3	2	2	2	8	1	2	2	8	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30976445G>A	uc002ead.1	+	7	2068	c.1382G>A	c.(1381-1383)CGC>CAC	p.R461H		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	461	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						ACTTCCCCCCGCCCAGCCTCC	0.687													4	12					0	0	0.009096	0	0		A	30976445	A	A	30976445	3	1	4	1	0	0	0	0	1	0	0	0	14155	1087	38	1	1404	1	SETD1A	16	30976445	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	182081	30976445	59378308	3414	5380											
ZNF668	79759	broad.mit.edu	37	chr16	31075337	31075337	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcttggagagcgcgccataGgccttcgggcagtgcgcaca	8	6	15	12	4	0	1	0	0	0	1	1	2	0	1	2	3	3	3	2	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:31075337G>T	uc010caf.2	-	2	801	c.444C>A	c.(442-444)GCC>GCA	p.A148A	ZNF668_uc002eao.2_Silent_p.A148A|ZNF668_uc010cag.1_Silent_p.A148A	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	148	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						GCGCGCCATAGGCCTTCGGGC	0.687													5	2					5.9392e-07	6.31025e-07	0.001168	1	0		T	31075337	T	T	31075337	2	4	4	1	0	0	0	0	0	0	0	1	18100	987	35	5		5	ZNF668	16	31075337	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	98892	31075337	59279416	3415	5381											
ITGAM	3684	broad.mit.edu	37	chr16	31342999	31342999	+	Frame_Shift_Del	DEL	G	-	-																															acaaggacatgatgagtgaaGggggtcccccgggggccgaa																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:31342999delG	uc002ebq.2	+	30	3528	c.3430delG	c.(3430-3432)GGGfs	p.G1144fs	ITGAM_uc002ebr.2_Frame_Shift_Del_p.G1145fs|ITGAM_uc010can.2_Frame_Shift_Del_p.G550fs	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	1144	Cytoplasmic (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						GATGAGTGAAGGGGGTCCCCC	0.672													3	6	---	---	---	---						.	-	31342999	-	-	31342999	7	5	4	1	0	1	0	1	0	0	0	0	7903	1000	35	0	3551	0	ITGAM	16	31342999	Frame_Shift_Del	DEL	G	TCGA-BR-4184-01A-01D-1126-08	267662	31342999	59011754	3416	5382											
VPS35	55737	broad.mit.edu	37	chr16	46712899	46712899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttccaactgactgaggcGcaccaaatttgttcccacta	11	10	6	14	1	0	2	0	2	0	0	2	2	2	2	4	1	1	2	4	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:46712899G>A	uc002eef.3	-	6	775	c.676C>T	c.(676-678)CGC>TGC	p.R226C	VPS35_uc002eed.2_Missense_Mutation_p.R47C|VPS35_uc002eee.2_Missense_Mutation_p.R187C	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	226					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				TGACTGAGGCGCACCAAATTT	0.393													46	125					0	0	0.00361	0	0		A	46712899	A	A	46712899	3	1	4	1	0	0	0	0	1	0	0	0	17229	1087	38	1	1762	1	VPS35	16	46712899	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	15369900	46712899	43641854	3417	5383											
NETO2	81831	broad.mit.edu	37	chr16	47117246	47117246	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgctcagggcactcatgTccctgtttgaaagtgtaact	8	12	10	11	0	2	1	2	1	0	0	3	1	3	1	2	1	2	4	2	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:47117246T>C	uc002eer.1	-	9	1849	c.1464A>G	c.(1462-1464)GGA>GGG	p.G488G	NETO2_uc002eeq.1_Silent_p.G223G|NETO2_uc010vgf.1_Silent_p.G345G	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	488	Cytoplasmic (Potential).					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				GGCACTCATGTCCCTGTTTGA	0.448										HNSCC(25;0.065)			36	101					0	0	0.004878	0	0		C	47117246	C	C	47117246	2	2	4	1	0	0	0	0	0	0	0	1	10359	1654	58	3		3	NETO2	16	47117246	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	404347	47117246	43237507	3418	5384											
ITFG1	81533	broad.mit.edu	37	chr16	47294547	47294547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactttaaacattcgacgcGcctcttcacagcttgcatta	11	12	6	12	3	2	1	1	0	1	1	3	2	2	1	1	0	3	2	1	0	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:47294547G>A	uc002eet.2	-	11	1192	c.1130C>T	c.(1129-1131)GCG>GTG	p.A377V	ITFG1_uc010vgg.1_Missense_Mutation_p.A122V|ITFG1_uc010vgh.1_Missense_Mutation_p.A264V	NM_030790	NP_110417	Q8TB96	TIP_HUMAN	integrin alpha FG-GAP repeat containing 1	377						extracellular region|integral to membrane				ovary(1)|central_nervous_system(1)	2		all_cancers(37;0.0613)|all_lung(18;0.0543)|Lung NSC(13;0.227)				CATTCGACGCGCCTCTTCACA	0.433													15	63					0	0	0.003163	0	0		A	47294547	A	A	47294547	3	1	4	1	0	0	0	0	1	0	0	0	7885	1087	38	1	740	1	ITFG1	16	47294547	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	177301	47294547	43060206	3419	5385											
ABCC12	94160	broad.mit.edu	37	chr16	48134814	48134814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctccttcttgccataggCgtgaatgatgcccaggccct	6	11	10	14	1	2	2	0	2	2	0	3	2	2	2	4	2	2	1	4	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:48134814C>T	uc002efc.1	-	21	3353	c.3007G>A	c.(3007-3009)GCC>ACC	p.A1003T	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1003	ABC transmembrane type-1 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TTGCCATAGGCGTGAATGATG	0.607													14	28					0	0	0.003163	0	0		T	48134814	T	T	48134814	3	4	4	1	0	0	0	0	1	0	0	0	52	768	27	1	1108	1	ABCC12	16	48134814	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	840267	48134814	42219939	3420	5386											
ABCC11	85320	broad.mit.edu	37	chr16	48250120	48250120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcagatgaccagcgatgCgcaggtgatcagtactaggg	10	7	15	9	2	1	3	1	2	0	1	1	4	1	3	1	2	4	4	1	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:48250120C>T	uc002eff.1	-	6	1206	c.856G>A	c.(856-858)GCA>ACA	p.A286T	ABCC11_uc002efg.1_Missense_Mutation_p.A286T|ABCC11_uc002efh.1_Missense_Mutation_p.A286T|ABCC11_uc010vgk.1_5'Flank|ABCC11_uc010vgl.1_Missense_Mutation_p.A286T	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	286	ABC transmembrane type-1 1.|Helical; (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				ACCAGCGATGCGCAGGTGATC	0.473									Cerumen_Type				21	187					0	0	0.002299	0	0		T	48250120	T	T	48250120	3	4	4	1	0	0	0	0	1	0	0	0	51	768	27	1	3388	1	ABCC11	16	48250120	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	115306	48250120	42104633	3421	5387											
LONP2	83752	broad.mit.edu	37	chr16	48381516	48381516	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcgagtcgaatggatggCgagggccagttaactctgac	10	7	16	8	3	1	1	0	1	1	0	2	6	1	2	1	4	1	1	1	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:48381516C>T	uc002efi.1	+	13	2126	c.2037C>T	c.(2035-2037)GGC>GGT	p.G679G	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Silent_p.G635G	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	679					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						GAATGGATGGCGAGGGCCAGT	0.567													6	60					0	0	0.001984	0	0		T	48381516	T	T	48381516	2	4	4	1	0	0	0	0	0	0	0	1	8911	755	27	1		1	LONP2	16	48381516	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	131396	48381516	41973237	3422	5388											
CBLN1	869	broad.mit.edu	37	chr16	49315138	49315138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaagtagatgatcatggtgCgattactcatctcggacggc	10	10	12	9	4	3	2	2	1	1	1	4	5	3	3	0	3	2	1	0	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:49315138C>T	uc002efq.2	-	1	578	c.239G>A	c.(238-240)CGC>CAC	p.R80H		NM_004352	NP_004343	P23435	CBLN1_HUMAN	cerebellin 1 precursor	80	C1q.|Necessary for interaction with CBLN3, and homotrimerization (By similarity).				nervous system development|synaptic transmission	cell junction|extracellular region|synapse					0		all_cancers(37;0.0766)|all_lung(18;0.24)				GATCATGGTGCGATTACTCAT	0.607													7	45					0	0	0.004482	0	0		T	49315138	T	T	49315138	3	4	4	1	0	0	0	0	1	0	0	0	2707	768	27	1	354	1	CBLN1	16	49315138	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	933622	49315138	41039615	3423	5389											
ADCY7	113	broad.mit.edu	37	chr16	50342601	50342601	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgcccagctcgggggacGctctgcactatctctgagag	6	9	13	13	2	2	1	0	1	2	1	4	3	2	2	1	2	4	4	1	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:50342601G>A	uc002egd.1	+	16	2227	c.1959G>A	c.(1957-1959)ACG>ACA	p.T653T	ADCY7_uc002egc.1_Silent_p.T653T	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	653					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	CTCGGGGGACGCTCTGCACTA	0.652													7	22					0	0	0.00308	0	0		A	50342601	A	A	50342601	2	1	4	1	0	0	0	0	0	0	0	1	299	1074	38	1		1	ADCY7	16	50342601	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1027463	50342601	40012152	3424	5390											
BRD7	29117	broad.mit.edu	37	chr16	50388806	50388806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcctcattctccacccGgtctcgatctcgcttctttt	3	17	5	16	3	6	0	1	0	5	0	9	1	6	0	3	1	1	1	3	1	0	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:50388806G>A	uc002egf.1	-	4	353	c.286C>T	c.(286-288)CGG>TGG	p.R96W	BRD7_uc002ege.1_Missense_Mutation_p.R96W	NM_013263	NP_037395	Q9NPI1	BRD7_HUMAN	bromodomain containing 7	96	Nuclear localization signal.			R -> Q (in Ref. 1; AAF19526).	cell cycle|negative regulation of cell proliferation|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of histone acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleus	histone acetyl-lysine binding|p53 binding|transcription coactivator activity|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding				0		all_cancers(37;0.0127)				TTCTCCACCCGGTCTCGATCT	0.398													9	132					0	0	0.004482	0	0		A	50388806	A	A	50388806	3	1	4	1	0	0	0	0	1	0	0	0	1508	1115	39	1	1732	1	BRD7	16	50388806	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	46205	50388806	39965947	3425	5391											
NKD1	85407	broad.mit.edu	37	chr16	50659407	50659407	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatccaggagctccagtgCgacgtgtccatggaggagga	9	7	15	10	2	0	0	0	0	0	0	3	5	3	4	3	4	3	2	3	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:50659407C>T	uc002egg.1	+	6	602	c.378C>T	c.(376-378)TGC>TGT	p.C126C		NM_033119	NP_149110	Q969G9	NKD1_HUMAN	naked cuticle homolog 1	126	Interaction with DVL1, DVL2 and DVL3 (By similarity).				Wnt receptor signaling pathway	cytoplasm|plasma membrane	calcium ion binding|protein binding				0		all_cancers(37;0.229)		GBM - Glioblastoma multiforme(240;0.243)		AGCTCCAGTGCGACGTGTCCA	0.612													9	15					0	0	0.006214	0	0		T	50659407	T	T	50659407	2	4	4	1	0	0	0	0	0	0	0	1	10460	776	27	1		1	NKD1	16	50659407	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	270601	50659407	39695346	3426	5392											
NOD2	64127	broad.mit.edu	37	chr16	50763760	50763760	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actgcatcacctacctagggGcagaagccctcctgcaggcc	9	6	10	16	0	1	1	1	0	0	1	2	1	2	1	5	3	4	3	5	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:50763760G>T	uc002egm.1	+	11	3103	c.2998G>T	c.(2998-3000)GCA>TCA	p.A1000S	NOD2_uc010vgq.1_Missense_Mutation_p.A45S	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	1000	LRR 8.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				CTACCTAGGGGCAGAAGCCCT	0.378													10	56					5.50884e-06	5.81984e-06	0.001368	1	0		T	50763760	T	T	50763760	3	4	4	1	0	0	0	0	1	0	0	0	10536	1203	42	5	3040	5	NOD2	16	50763760	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	104353	50763760	39590993	3427	5393											
CHD9	80205	broad.mit.edu	37	chr16	53331022	53331022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttggaaaaatatttgtacGcattcatgtccatgtgtcgg	10	15	10	6	2	1	0	1	0	0	0	3	1	2	1	1	2	1	3	1	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:53331022G>A	uc002ehb.2	+	29	5829	c.5665G>A	c.(5665-5667)GCA>ACA	p.A1889T	CHD9_uc002egy.2_Missense_Mutation_p.A1889T|CHD9_uc002ehc.2_Missense_Mutation_p.A1889T|CHD9_uc002ehf.2_Missense_Mutation_p.A1003T|CHD9_uc010cbw.2_Missense_Mutation_p.A257T	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	1889					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				ATATTTGTACGCATTCATGTC	0.378													13	115					0	0	0.001368	0	0		A	53331022	A	A	53331022	3	1	4	1	0	0	0	0	1	0	0	0	3335	1087	38	1	5779	1	CHD9	16	53331022	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2567262	53331022	37023731	3428	5394											
CHD9	80205	broad.mit.edu	37	chr16	53358035	53358035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taaaagtggaattgcaaaggCcacagcagcagcagctgctg	14	6	12	9	0	0	0	0	0	0	0	0	1	0	1	1	2	6	6	1	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:53358035C>T	uc002ehb.2	+	38	8086	c.7922C>T	c.(7921-7923)GCC>GTC	p.A2641V	CHD9_uc002egy.2_Missense_Mutation_p.A2625V|CHD9_uc002ehc.2_Missense_Mutation_p.A2626V|CHD9_uc002ehf.2_Missense_Mutation_p.A1739V|CHD9_uc010cbw.2_Missense_Mutation_p.A707V	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	2641	Poly-Ala.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding	p.K2641T(1)		lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				ATTGCAAAGGCCACAGCAGCA	0.512													17	66					0	0	0.00278	0	0		T	53358035	T	T	53358035	3	4	4	1	0	0	0	0	1	0	0	0	3335	739	26	2	8024	2	CHD9	16	53358035	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	27013	53358035	36996718	3429	5395											
RPGRIP1L	23322	broad.mit.edu	37	chr16	53675004	53675004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttatctacaggtgttaaacGttgtcttggtttaggtcttg	7	18	10	6	1	3	0	0	0	3	0	3	0	3	0	0	3	2	3	0	3	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:53675004G>A	uc002ehp.2	-	19	2963	c.2899C>T	c.(2899-2901)CGT>TGT	p.R967C	RPGRIP1L_uc002eho.3_Missense_Mutation_p.R967C|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.R967C|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.R967C|RPGRIP1L_uc010vgz.1_Missense_Mutation_p.R967C	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	967					negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				GGTGTTAAACGTTGTCTTGGT	0.353													7	28					0	0	0.001984	0	0		A	53675004	A	A	53675004	3	1	4	1	0	0	0	0	1	0	0	0	13575	1145	40	1	1084	1	RPGRIP1L	16	53675004	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	316969	53675004	36679749	3430	5396											
LPCAT2	54947	broad.mit.edu	37	chr16	55613142	55613142	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaaatagcccaaggggActcaatttcctatggtgagt	13	9	11	8	0	1	1	1	1	0	0	2	3	2	3	2	4	1	0	2	4	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:55613142A>G	uc002eie.3	+	13	1617	c.1436A>G	c.(1435-1437)GAC>GGC	p.D479G	LPCAT2_uc002eic.2_Missense_Mutation_p.D209G	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	479	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						GCCCAAGGGGACTCAATTTCC	0.473													22	57					0	0	0.002299	0	0		G	55613142	G	G	55613142	3	3	4	1	0	0	0	0	1	0	0	0	8929	275	10	3	1486	3	LPCAT2	16	55613142	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1938138	55613142	34741611	3431	5397											
SLC6A2	6530	broad.mit.edu	37	chr16	55730216	55730216	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctgggctgttgtgtttttCgtcatgctcctggcgctggg	1	17	14	9	2	2	0	1	0	1	0	4	0	3	0	1	3	1	5	1	3	0	4	rs149035289		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:55730216C>T	uc002eif.2	+	9	1338	c.1227C>T	c.(1225-1227)TTC>TTT	p.F409F	SLC6A2_uc010ccd.2_Silent_p.F409F|SLC6A2_uc002eig.2_Silent_p.F409F|SLC6A2_uc002eih.2_Silent_p.F409F|SLC6A2_uc002eii.2_Silent_p.F304F|SLC6A2_uc002eij.2_Silent_p.F123F	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	409	Helical; Name=8; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	TTGTGTTTTTCGTCATGCTCC	0.542													11	103					0	0	0.001855	0	0		T	55730216	T	T	55730216	2	4	4	1	0	0	0	0	0	0	0	1	14708	883	31	1		1	SLC6A2	16	55730216	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	117074	55730216	34624537	3432	5398											
CES1	1066	broad.mit.edu	37	chr16	55855375	55855375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgttgtcctggacccagcGcagggcagccacctggtcca	8	7	12	14	1	0	0	0	0	0	0	2	1	2	1	5	3	2	3	5	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:55855375G>A	uc002eim.2	-	5	703	c.595C>T	c.(595-597)CGC>TGC	p.R199C	CES1_uc002eil.2_Missense_Mutation_p.R200C|CES1_uc002ein.2_Missense_Mutation_p.R199C	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	199					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	TGGACCCAGCGCAGGGCAGCC	0.587													8	23					0	0	0.00308	0	0		A	55855375	A	A	55855375	3	1	4	1	0	0	0	0	1	0	0	0	3272	1087	38	1	1148	1	CES1	16	55855375	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	125159	55855375	34499378	3433	5399											
CES1	1066	broad.mit.edu	37	chr16	55862794	55862794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agggattcccaggaaaatggCcacaggctgtgcaaatcctt	12	8	11	10	0	0	0	0	0	0	0	2	2	2	2	3	4	1	2	3	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:55862794C>T	uc002eim.2	-	2	250	c.142G>A	c.(142-144)GCC>ACC	p.A48T	CES1_uc002eil.2_Missense_Mutation_p.A49T|CES1_uc002ein.2_Missense_Mutation_p.A48T	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	48					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	AGGAAAATGGCCACAGGCTGT	0.567													9	45					0	0	0.004482	0	0		T	55862794	T	T	55862794	3	4	4	1	0	0	0	0	1	0	0	0	3272	739	26	2	1613	2	CES1	16	55862794	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7419	55862794	34491959	3434	5400											
CES7	221223	broad.mit.edu	37	chr16	55883567	55883567	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcccccttcaggaaggcAccaccgaacacaaagcggac	13	4	9	15	2	1	0	1	0	0	0	2	3	2	2	4	3	2	1	4	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:55883567A>G	uc002eip.2	-	11	1541	c.1392T>C	c.(1390-1392)GGT>GGC	p.G464G	CES7_uc002eio.2_Intron|CES7_uc002eiq.2_Silent_p.G225G|CES7_uc002eir.2_Silent_p.G358G	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	464						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		TCAGGAAGGCACCACCGAACA	0.542													8	145					0	0	0.00308	0	0		G	55883567	G	G	55883567	2	3	4	1	0	0	0	0	0	0	0	1	3275	146	6	3		3	CES7	16	55883567	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	20773	55883567	34471186	3435	5401											
CES7	221223	broad.mit.edu	37	chr16	55907786	55907786	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgcaagttatcccagggCgatgcaggctgcgggttcgt	6	10	14	11	4	1	0	0	0	1	0	4	1	2	0	1	3	2	5	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:55907786C>T	uc002eip.2	-	2	386	c.237G>A	c.(235-237)TCG>TCA	p.S79S	CES7_uc002eio.2_Silent_p.S79S|CES7_uc002eiq.2_5'UTR|CES7_uc002eir.2_5'UTR	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	79						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		TATCCCAGGGCGATGCAGGCT	0.597													8	21					0	0	0.004482	0	0		T	55907786	T	T	55907786	2	4	4	1	0	0	0	0	0	0	0	1	3275	755	27	1		1	CES7	16	55907786	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24219	55907786	34446967	3436	5402											
MT1F	4494	broad.mit.edu	37	chr16	56693075	56693075	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagtgcagctgctgcgactGatgccaggacaacctttctc	9	9	11	12	1	1	1	0	1	1	0	2	4	1	2	2	1	6	3	2	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:56693075G>A	uc002ejt.2	+	3	301	c.185G>A	c.(184-186)TGA>TAA	p.*62*		NM_005949	NP_005940	P04733	MT1F_HUMAN	metallothionein 1F	62						cytoplasm	cadmium ion binding|copper ion binding|zinc ion binding				0						TGCTGCGACTGATGCCAGGAC	0.517													17	58					0	0	0.010504	0	0		A	56693075	A	A	56693075	2	1	4	1	0	0	0	0	0	0	0	1	9918	1285	45	4		4	MT1F	16	56693075	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	785289	56693075	33661678	3437	5403											
NLRC5	84166	broad.mit.edu	37	chr16	57060066	57060066	+	Missense_Mutation	SNP	C	T	T																															acgtctccgaagcctgtgtgCggtgcccgcactgtgccaag																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:57060066C>T	uc002ekk.1	+	6	1436	c.1211C>T	c.(1210-1212)GCG>GTG	p.A404V	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.A209V|NLRC5_uc002ekl.2_Missense_Mutation_p.A209V|NLRC5_uc002ekm.2_Missense_Mutation_p.A209V|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	404	NACHT.				defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				AGCCTGTGTGCGGTGCCCGCA	0.617													37	63					0	0	0.002852	0	0		T	57060066	T	T	57060066	3	4	4	1	0	0	0	0	1	0	0	0	10489	768	27	1	1225	1	NLRC5	16	57060066	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	366991	57060066	33294687	3438	5404	8	2									
NLRC5	84166	broad.mit.edu	37	chr16	57060074	57060074	+	Missense_Mutation	SNP	G	A	A																															gaagcctgtgtgcggtgcccGcactgtgccaagtcgcctgt																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:57060074G>A	uc002ekk.1	+	6	1444	c.1219G>A	c.(1219-1221)GCA>ACA	p.A407T	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.A212T|NLRC5_uc002ekl.2_Missense_Mutation_p.A212T|NLRC5_uc002ekm.2_Missense_Mutation_p.A212T|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	407	NACHT.				defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				TGCGGTGCCCGCACTGTGCCA	0.597													6	85					0	0	0.001984	0	0		A	57060074	A	A	57060074	3	1	4	1	0	0	0	0	1	0	0	0	10489	1087	38	1	1233	1	NLRC5	16	57060074	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8	57060074	33294679	3439	5405	8	2									
POLR2C	5432	broad.mit.edu	37	chr16	57503154	57503154	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgcaatgaagaccagacGcgacatgtcacgtctcgaga	12	6	12	11	5	2	4	1	1	1	3	3	6	2	4	1	1	1	1	1	1	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:57503154G>A	uc002elt.1	+	5	422	c.336G>A	c.(334-336)ACG>ACA	p.T112T	POLR2C_uc010vhq.1_Silent_p.T112T	NM_032940	NP_116558	P19387	RPB3_HUMAN	DNA directed RNA polymerase II polypeptide C	112					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|protein dimerization activity				0						AAGACCAGACGCGACATGTCA	0.572													19	56					0	0	0.005443	0	0		A	57503154	A	A	57503154	2	1	4	1	0	0	0	0	0	0	0	1	12235	1074	38	1		1	POLR2C	16	57503154	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	443080	57503154	32851599	3440	5406											
CCDC135	84229	broad.mit.edu	37	chr16	57735853	57735853	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccactgtgaccagccctcGcacctgtactcctcgaccac	7	8	6	20	2	0	1	0	1	0	0	4	2	2	1	6	0	2	2	6	0	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:57735853G>A	uc002emi.2	+	5	599	c.510G>A	c.(508-510)TCG>TCA	p.S170S	CCDC135_uc002emj.2_Silent_p.S170S|CCDC135_uc002emk.2_Intron	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	170						cytoplasm				central_nervous_system(1)	1						ACCAGCCCTCGCACCTGTACT	0.627													8	64					0	0	0.004482	0	0		A	57735853	A	A	57735853	2	1	4	1	0	0	0	0	0	0	0	1	2772	1074	38	1		1	CCDC135	16	57735853	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	232699	57735853	32618900	3441	5407											
KIFC3	3801	broad.mit.edu	37	chr16	57805529	57805529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctcggcctcacagcgccGcatctcctgcctcagtcgct	5	8	9	19	4	3	0	2	0	1	0	6	0	3	0	4	1	3	3	4	1	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:57805529G>A	uc002emp.2	-	5	648	c.451C>T	c.(451-453)CGG>TGG	p.R151W	KIFC3_uc010vhw.1_Missense_Mutation_p.R49W|KIFC3_uc002emn.2_RNA|KIFC3_uc002emm.2_Missense_Mutation_p.R12W|KIFC3_uc010vhx.1_Missense_Mutation_p.R12W|KIFC3_uc010cdf.2_Missense_Mutation_p.R12W|KIFC3_uc002emo.3_Missense_Mutation_p.R12W|KIFC3_uc010vhy.1_Missense_Mutation_p.R93W|KIFC3_uc002emq.2_Missense_Mutation_p.R151W|KIFC3_uc010vhz.1_Missense_Mutation_p.R173W|KIFC3_uc002emr.1_Intron|KIFC3_uc010cdg.1_RNA	NM_005550	NP_005541	Q9BVG8	KIFC3_HUMAN	kinesin family member C3 isoform 1	151	Potential.				epithelial cell-cell adhesion|microtubule-based movement|visual perception|zonula adherens maintenance	centrosome|cytoplasmic vesicle membrane|kinesin complex|microtubule|zonula adherens	ATP binding|microtubule motor activity			central_nervous_system(2)|ovary(1)	3		all_neural(199;0.224)				TCACAGCGCCGCATCTCCTGC	0.657													4	9					0	0	0.000602	0	0		A	57805529	A	A	57805529	3	1	4	1	0	0	0	0	1	0	0	0	8330	1086	38	1	2119	1	KIFC3	16	57805529	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	69676	57805529	32549224	3442	5408											
CNGB1	1258	broad.mit.edu	37	chr16	57957240	57957240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactctgctggtgacaacGccttgagctcttcagcctca	7	10	11	13	1	4	2	2	2	2	0	4	3	4	3	2	2	4	2	2	2	1	2	rs78292723	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:57957240G>A	uc002emt.2	-	18	1645	c.1580C>T	c.(1579-1581)GCG>GTG	p.A527V	CNGB1_uc010cdh.2_Missense_Mutation_p.A521V	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	527	Cytoplasmic (Potential).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						TGGTGACAACGCCTTGAGCTC	0.572													12	46					0	0	0.00245	0	0		A	57957240	A	A	57957240	3	1	4	1	0	0	0	0	1	0	0	0	3603	1087	38	1	2239	1	CNGB1	16	57957240	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	151711	57957240	32397513	3443	5409											
ZNF319	57567	broad.mit.edu	37	chr16	58031051	58031051	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcccttctcacataggccGcatttgaagggctcctcggt	8	10	10	13	2	1	1	1	1	1	0	4	1	2	1	3	3	1	2	3	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:58031051G>A	uc002emx.1	-	2	1742	c.1119C>T	c.(1117-1119)TGC>TGT	p.C373C		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	373	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACATAGGCCGCATTTGAAGG	0.617													16	32					0	0	0.00499	0	0		A	58031051	A	A	58031051	2	1	4	1	0	0	0	0	0	0	0	1	17862	1079	38	1		1	ZNF319	16	58031051	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	73811	58031051	32323702	3444	5410											
ZNF319	57567	broad.mit.edu	37	chr16	58031575	58031575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggcagctgtagggcttgtCggcctgttcagcaggggtga	5	9	19	8	1	1	1	1	1	0	0	2	1	1	1	1	6	2	6	1	6	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:58031575C>T	uc002emx.1	-	2	1218	c.595G>A	c.(595-597)GAC>AAC	p.D199N		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	199					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TAGGGCTTGTCGGCCTGTTCA	0.647													19	44					0	0	0.001882	0	0		T	58031575	T	T	58031575	3	4	4	1	0	0	0	0	1	0	0	0	17862	884	31	1	1157	1	ZNF319	16	58031575	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	524	58031575	32323178	3445	5411											
CNOT1	23019	broad.mit.edu	37	chr16	58620473	58620473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgcagcgtcttaagaaaagCgtctatctgttcttgtccaa	10	12	9	10	3	4	1	0	0	4	1	5	1	5	1	1	0	2	2	1	0	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:58620473C>T	uc002env.2	-	7	906	c.613G>A	c.(613-615)GCT>ACT	p.A205T	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.A205T|CNOT1_uc002enx.2_Missense_Mutation_p.A205T|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	205					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TTAAGAAAAGCGTCTATCTGT	0.473													12	279					0	0	0.001368	0	0		T	58620473	T	T	58620473	3	4	4	1	0	0	0	0	1	0	0	0	3620	768	27	1	6911	1	CNOT1	16	58620473	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	588898	58620473	31734280	3446	5412											
CNOT1	23019	broad.mit.edu	37	chr16	58622736	58622736	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccactgcttttaccatcGccactgaaatccacatgcga	10	11	6	14	2	0	1	0	1	0	0	2	2	1	1	4	0	4	1	4	0	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:58622736G>A	uc002env.2	-	3	470	c.177C>T	c.(175-177)GGC>GGT	p.G59G	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Silent_p.G59G|CNOT1_uc002enx.2_Silent_p.G59G|CNOT1_uc002enz.1_5'UTR	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	59					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TTTTACCATCGCCACTGAAAT	0.408													10	20					0	0	0.00245	0	0		A	58622736	A	A	58622736	2	1	4	1	0	0	0	0	0	0	0	1	3620	1074	38	1		1	CNOT1	16	58622736	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2263	58622736	31732017	3447	5413											
SLC38A7	55238	broad.mit.edu	37	chr16	58712668	58712668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaaggtgtagacagcgatgGccacctcacatagcacacct	13	6	9	13	1	1	1	1	0	0	1	1	2	1	1	3	2	2	2	3	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:58712668G>A	uc002eod.1	-	4	794	c.401C>T	c.(400-402)GCC>GTC	p.A134V	SLC38A7_uc002eob.1_RNA|SLC38A7_uc002eoc.1_Missense_Mutation_p.A134V|SLC38A7_uc010vil.1_Missense_Mutation_p.A45V|SLC38A7_uc002eoe.1_Missense_Mutation_p.A134V	NM_018231	NP_060701	Q9NVC3	S38A7_HUMAN	solute carrier family 38, member 7	134	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane				ovary(1)	1						GACAGCGATGGCCACCTCACA	0.567													13	25					0	0	0.001855	0	0		A	58712668	A	A	58712668	3	1	4	1	0	0	0	0	1	0	0	0	14634	1203	42	2	1023	2	SLC38A7	16	58712668	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	89932	58712668	31642085	3448	5414											
CDH5	1003	broad.mit.edu	37	chr16	66420974	66420974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgcatcggttgttcaatgCgtccgtgcctgagtcgtcgg	5	11	13	12	6	1	1	1	1	0	0	5	1	2	1	2	2	2	3	2	2	1	2	rs150311666		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:66420974C>T	uc002eom.3	+	3	629	c.473C>T	c.(472-474)GCG>GTG	p.A158V	CDH5_uc002eon.1_Missense_Mutation_p.A158V	NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	158	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		TTGTTCAATGCGTCCGTGCCT	0.572													5	28					0	0	0.000602	0	0		T	66420974	T	T	66420974	3	4	4	1	0	0	0	0	1	0	0	0	3116	768	27	1	479	1	CDH5	16	66420974	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7708306	66420974	23933779	3449	5415											
CMTM2	146225	broad.mit.edu	37	chr16	66613521	66613521	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagtcagtcatggcacctaAggcggcaaagggggccaagc	11	4	15	11	2	2	0	2	0	0	0	2	1	2	0	2	5	1	2	2	5	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:66613521A>C	uc002ept.2	+	1	171	c.11A>C	c.(10-12)AAG>ACG	p.K4T	CMTM2_uc010cdu.2_Missense_Mutation_p.K4T	NM_144673	NP_653274	Q8TAZ6	CKLF2_HUMAN	chemokine-like factor superfamily 2	4					chemotaxis	extracellular space|integral to membrane	cytokine activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.068)|Epithelial(162;0.212)		ATGGCACCTAAGGCGGCAAAG	0.597													8	25					0	0	0.001368	0	0		C	66613521	C	C	66613521	3	2	4	1	0	0	0	0	1	0	0	0	3586	72	3	5	13	5	CMTM2	16	66613521	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	192547	66613521	23741232	3450	5416											
NAE1	8883	broad.mit.edu	37	chr16	66852491	66852491	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcagttcaggaaatggCttatctagtcgtagatcctc	9	14	8	10	1	4	1	2	0	2	1	8	2	5	2	1	2	0	3	1	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:66852491C>T	uc002eqf.2	-	8	638	c.561G>A	c.(559-561)AAG>AAA	p.K187K	NAE1_uc002eqe.2_Silent_p.K181K|NAE1_uc002eqg.2_Silent_p.K98K|NAE1_uc010cdv.2_Silent_p.K190K|NAE1_uc010cdw.1_Silent_p.K98K	NM_003905	NP_003896	Q13564	ULA1_HUMAN	NEDD8 activating enzyme E1 subunit 1 isoform a	187					apoptosis|cell cycle|DNA replication|mitotic cell cycle DNA replication checkpoint|protein neddylation|signal transduction	cytoplasm|insoluble fraction|plasma membrane	catalytic activity|protein heterodimerization activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0914)|Epithelial(162;0.214)	Adenosine triphosphate(DB00171)	CAGGAAATGGCTTATCTAGTC	0.313													4	52					0	0	0.000602	0	0		T	66852491	T	T	66852491	2	4	4	1	0	0	0	0	0	0	0	1	10157	796	28	2		2	NAE1	16	66852491	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	238970	66852491	23502262	3451	5417											
CBFB	865	broad.mit.edu	37	chr16	67116168	67116168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggctcggagaaggacacGcgaatttgaagatagagaca	16	5	14	6	3	0	5	0	1	0	4	1	9	0	6	0	3	0	1	0	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67116168G>A	uc002era.2	+	5	713	c.452G>A	c.(451-453)CGC>CAC	p.R151H	CBFB_uc002erb.2_Missense_Mutation_p.R151H|CBFB_uc010vja.1_Intron	NM_001755	NP_001746	Q13951	PEBB_HUMAN	core-binding factor, beta subunit isoform 2	151					transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			breast(2)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00189)|Epithelial(162;0.00755)|all cancers(182;0.066)		AGAAGGACACGCGAATTTGAA	0.423			T	MYH11	AML								13	25					0	0	0.006122	0	0		A	67116168	A	A	67116168	3	1	4	1	0	0	0	0	1	0	0	0	2702	1087	38	1	470	1	CBFB	16	67116168	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	263677	67116168	23238585	3452	5418											
C16orf70	80262	broad.mit.edu	37	chr16	67168349	67168349	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactggacctgcaggtttaCgacttcgcctacttgctgca	8	11	10	12	2	0	0	0	0	0	0	1	3	0	1	2	2	6	4	2	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67168349C>T	uc002erc.2	+	9	724	c.640C>T	c.(640-642)CGA>TGA	p.R214*	C16orf70_uc002erd.2_Nonsense_Mutation_p.R214*|C16orf70_uc002ere.1_3'UTR	NM_025187	NP_079463	Q9BSU1	CP070_HUMAN	lin-10	214										ovary(2)	2		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0017)|Epithelial(162;0.00655)|all cancers(182;0.0579)		TGCAGGTTTACGACTTCGCCT	0.507													43	149					0	0	0.003214	0	0		T	67168349	T	T	67168349	4	4	4	1	0	0	0	0	0	1	0	0	1832	528	19	1	670	1	C16orf70	16	67168349	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	52181	67168349	23186404	3453	5419											
ELMO3	79767	broad.mit.edu	37	chr16	67234673	67234673	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggccagctggtcaagagCgaggtgcccctggataggct	7	7	16	11	1	1	1	1	0	0	1	1	3	1	2	3	5	3	2	3	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67234673C>T	uc002esa.2	+	7	829	c.786C>T	c.(784-786)AGC>AGT	p.S262S	ELMO3_uc002esb.2_Silent_p.S245S|ELMO3_uc002esc.2_Silent_p.S96S	NM_024712	NP_078988	Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3	209					apoptosis|phagocytosis	cytoplasm|cytoskeleton	SH3 domain binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		TGGTCAAGAGCGAGGTGCCCC	0.632													4	9					0	0	0.000602	0	0		T	67234673	T	T	67234673	2	4	4	1	0	0	0	0	0	0	0	1	5075	767	27	1		1	ELMO3	16	67234673	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	66324	67234673	23120080	3454	5420											
TPPP3	51673	broad.mit.edu	37	chr16	67424250	67424250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtcagccggtctacagcacCccctgtttttgctttctgtt	4	15	8	14	2	3	0	1	0	2	0	3	0	3	0	3	1	4	4	3	1	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67424250C>T	uc002esz.2	-	3	1193	c.358G>A	c.(358-360)GGT>AGT	p.G120S	TPPP3_uc002eta.2_Missense_Mutation_p.G120S|TPPP3_uc002etb.2_Missense_Mutation_p.G120S	NM_016140	NP_057224	Q9BW30	TPPP3_HUMAN	tubulin polymerization-promoting protein family	120					microtubule bundle formation	cytoplasm|microtubule	calcium ion binding|tubulin binding			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0336)|Epithelial(162;0.0781)		TCTACAGCACCCCCTGTTTTT	0.617													17	34					0	0	0.004656	0	0		T	67424250	T	T	67424250	3	4	4	1	0	0	0	0	1	0	0	0	16441	623	22	4	176	4	TPPP3	16	67424250	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	189577	67424250	22930503	3455	5421											
ZDHHC1	29800	broad.mit.edu	37	chr16	67432185	67432185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggcctcctgtggtgggCggtgctgcacgatgtactca	4	11	14	12	2	1	0	1	0	0	0	2	1	2	0	3	4	3	3	3	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67432185C>T	uc010vjm.1	-	8	1161	c.857G>A	c.(856-858)CGC>CAC	p.R286H		NM_013304	NP_037436	Q8WTX9	ZDHC1_HUMAN	zinc finger, DHHC-type containing 1	286						integral to membrane	DNA binding|zinc ion binding				0		Ovarian(137;0.223)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0178)|all cancers(182;5.71e-53)|Epithelial(162;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(108;1.53e-29)|Kidney(780;4.37e-05)|BRCA - Breast invasive adenocarcinoma(181;5.8e-05)|GBM - Glioblastoma multiforme(240;0.0022)		CTGTGGTGGGCGGTGCTGCAC	0.617													5	63					0	0	0.001168	0	0		T	67432185	T	T	67432185	3	4	4	1	0	0	0	0	1	0	0	0	17625	768	27	1	616	1	ZDHHC1	16	67432185	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7935	67432185	22922568	3456	5422											
HSD11B2	3291	broad.mit.edu	37	chr16	67470767	67470767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcctgaaggcctgcggcGccgcttcctgcaggccttct	3	9	12	17	3	1	1	0	1	1	0	2	1	2	1	6	3	3	2	6	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67470767G>A	uc002etd.2	+	5	1195	c.1079G>A	c.(1078-1080)CGC>CAC	p.R360H		NM_000196	NP_000187	P80365	DHI2_HUMAN	hydroxysteroid (11-beta) dehydrogenase 2	360					glucocorticoid biosynthetic process	endoplasmic reticulum|microsome					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0401)|Epithelial(162;0.0891)	NADH(DB00157)	GGCCTGCGGCGCCGCTTCCTG	0.667													20	37					0	0	0.002299	0	0		A	67470767	A	A	67470767	3	1	4	1	0	0	0	0	1	0	0	0	7393	1087	38	1	1097	1	HSD11B2	16	67470767	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	38582	67470767	22883986	3457	5423											
RANBP10	57610	broad.mit.edu	37	chr16	67763353	67763353	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtttgctcttggtggaCgcgacgccattgctacagct	5	14	11	11	3	2	0	0	0	2	0	2	2	2	1	1	2	4	4	1	2	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67763353C>T	uc002eud.2	-	10	1298	c.1182G>A	c.(1180-1182)GCG>GCA	p.A394A	RANBP10_uc010ceo.2_Silent_p.A165A|RANBP10_uc010vju.1_Silent_p.A338A|RANBP10_uc010vjv.1_Silent_p.A277A|RANBP10_uc010vjw.1_Silent_p.A55A	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	394	Ser-rich.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		TCTTGGTGGACGCGACGCCAT	0.403													5	27					0	0	0.00308	0	0		T	67763353	T	T	67763353	2	4	4	1	0	0	0	0	0	0	0	1	13051	523	19	1		1	RANBP10	16	67763353	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	292586	67763353	22591400	3458	5424											
CTRL	1506	broad.mit.edu	37	chr16	67964654	67964654	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agacggacagaacctgcaagGgctctgcgtttgatgatcgg	10	8	14	9	3	1	4	0	2	1	2	2	5	1	5	1	3	3	3	1	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67964654G>T	uc002euw.2	-	4	303	c.293C>A	c.(292-294)CCC>CAC	p.P98H		NM_001907	NP_001898	P40313	CTRL_HUMAN	chymotrypsin-like precursor	98	Peptidase S1.				digestion|proteolysis	extracellular space	serine-type endopeptidase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)		AACCTGCAAGGGCTCTGCGTT	0.617													15	36					2.31682e-05	2.44218e-05	0.003163	1	0		T	67964654	T	T	67964654	3	4	4	1	0	0	0	0	1	0	0	0	4031	1232	43	5	517	5	CTRL	16	67964654	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	201301	67964654	22390099	3459	5425											
NFATC3	4775	broad.mit.edu	37	chr16	68160498	68160498	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaaagcatctactgggggAcatcctgttgtgaaggtatg	11	11	13	6	0	1	1	0	1	1	0	2	2	2	2	1	3	2	4	1	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:68160498A>G	uc002evo.1	+	3	1596	c.1386A>G	c.(1384-1386)GGA>GGG	p.G462G	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Silent_p.G462G|NFATC3_uc002evm.1_Silent_p.G462G|NFATC3_uc002evn.1_Silent_p.G462G|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	462	RHD.				inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		CTACTGGGGGACATCCTGTTG	0.428													11	51					0	0	0.001855	0	0		G	68160498	G	G	68160498	2	3	4	1	0	0	0	0	0	0	0	1	10383	262	10	3		3	NFATC3	16	68160498	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	195844	68160498	22194255	3460	5426											
SLC7A6OS	84138	broad.mit.edu	37	chr16	68336334	68336334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcctctgggtactcattgCgccagttattctcactgttc	5	15	7	14	1	3	0	2	0	2	0	6	0	4	0	3	1	2	3	3	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:68336334C>T	uc002evw.1	-	4	768	c.749G>A	c.(748-750)CGC>CAC	p.R250H		NM_032178	NP_115554	Q96CW6	S7A6O_HUMAN	solute carrier family 7, member 6 opposite	250					protein transport	cytoplasm|nucleus				ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.106)		GTACTCATTGCGCCAGTTATT	0.507													12	114					0	0	0.001855	0	0		T	68336334	T	T	68336334	3	4	4	1	0	0	0	0	1	0	0	0	14727	768	27	1	188	1	SLC7A6OS	16	68336334	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	175836	68336334	22018419	3461	5427											
CDH3	1001	broad.mit.edu	37	chr16	68725731	68725731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagctgacggtgatcagggCcactgtgtgcgactgccatg	7	8	15	11	2	1	2	1	2	0	0	1	3	1	2	2	2	3	2	2	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:68725731C>T	uc002ewf.2	+	13	3036	c.1904C>T	c.(1903-1905)GCC>GTC	p.A635V	CDH3_uc010vli.1_Missense_Mutation_p.A580V	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	635	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		GTGATCAGGGCCACTGTGTGC	0.567													12	61					0	0	0.004007	0	0		T	68725731	T	T	68725731	3	4	4	1	0	0	0	0	1	0	0	0	3114	739	26	2	1954	2	CDH3	16	68725731	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	389397	68725731	21629022	3462	5428											
TERF2	7014	broad.mit.edu	37	chr16	69390889	69390889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgggtaatttttagaaatgGcagcccagtttccttcccca	10	13	8	10	0	0	1	0	0	0	1	2	1	2	1	4	2	1	3	4	2	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:69390889G>A	uc002exd.2	-	10	1540	c.1415C>T	c.(1414-1416)GCC>GTC	p.A472V		NM_005652	NP_005643	Q15554	TERF2_HUMAN	telomeric repeat binding factor 2	472	HTH myb-type.|H-T-H motif.				age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)				TTTAGAAATGGCAGCCCAGTT	0.433													23	78					0	0	0.003954	0	0		A	69390889	A	A	69390889	3	1	4	1	0	0	0	0	1	0	0	0	15787	1203	42	2	91	2	TERF2	16	69390889	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	665158	69390889	20963864	3463	5429											
WWP2	11060	broad.mit.edu	37	chr16	69874131	69874131	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgggccaactgttgatcTgggaaatgtgcctaatggca	10	9	14	8	1	1	1	0	1	1	0	1	3	1	3	2	4	2	2	2	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:69874131T>G	uc002exu.1	+	6	532	c.443T>G	c.(442-444)CTG>CGG	p.L148R	WWP2_uc002ext.2_Missense_Mutation_p.L148R|WWP2_uc002exv.1_Missense_Mutation_p.L148R|WWP2_uc010vlm.1_Missense_Mutation_p.L32R	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	148					entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						ACTGTTGATCTGGGAAATGTG	0.612													24	53					0	0	0.005443	0	0		G	69874131	G	G	69874131	3	3	4	1	0	0	0	0	1	0	0	0	17442	1580	55	5	457	5	WWP2	16	69874131	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	483242	69874131	20480622	3464	5430											
WWP2	11060	broad.mit.edu	37	chr16	69942692	69942692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgagagctgcccaacggaCgtgtctattatgttgaccac	10	9	11	11	3	1	2	0	1	1	1	1	4	1	3	2	1	4	2	2	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:69942692C>T	uc002exu.1	+	10	1032	c.943C>T	c.(943-945)CGT>TGT	p.R315C	WWP2_uc002ext.2_Missense_Mutation_p.R315C|WWP2_uc002exv.1_Missense_Mutation_p.R315C|WWP2_uc010vlm.1_Missense_Mutation_p.R199C	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	315	WW 1.				entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						GCCCAACGGACGTGTCTATTA	0.517													33	78					0	0	0.005524	0	0		T	69942692	T	T	69942692	3	4	4	1	0	0	0	0	1	0	0	0	17442	536	19	1	973	1	WWP2	16	69942692	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	68561	69942692	20412061	3465	5431											
HYDIN	54768	broad.mit.edu	37	chr16	70867804	70867804	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttaccttgcacccacatcGcctgtgttcatcatgaggat	8	12	7	14	1	2	1	2	1	0	0	3	2	2	2	4	1	2	2	4	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:70867804G>A	uc002ezr.2	-	79	13790	c.13662C>T	c.(13660-13662)GGC>GGT	p.G4554G	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4555										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CACCCACATCGCCTGTGTTCA	0.577													5	11					0	0	0.001168	0	0		A	70867804	A	A	70867804	2	1	4	1	0	0	0	0	0	0	0	1	7483	1074	38	1		1	HYDIN	16	70867804	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	925112	70867804	19486949	3466	5432											
CHST4	10164	broad.mit.edu	37	chr16	71570901	71570901	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcttcttgtgcgacatgagCgtctttgatgcctacatgga	7	14	11	9	2	3	2	0	2	3	0	3	4	3	3	1	1	4	0	1	1	1	4	rs146763647	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:71570901C>T	uc002fan.2	+	2	502	c.321C>T	c.(319-321)AGC>AGT	p.S107S	CHST4_uc002fao.2_Silent_p.S107S	NM_005769	NP_005760	Q8NCG5	CHST4_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	107	Lumenal (Potential).				cell-cell signaling|immune response|inflammatory response|N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity				0						GCGACATGAGCGTCTTTGATG	0.597													13	39					0	0	0.004007	0	0		T	71570901	T	T	71570901	2	4	4	1	0	0	0	0	0	0	0	1	3409	767	27	1		1	CHST4	16	71570901	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	703097	71570901	18783852	3467	5433											
PHLPP2	23035	broad.mit.edu	37	chr16	71689242	71689242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcgtacactgcagcaggCgcgggagctcctcatttcgg	7	8	12	14	4	1	0	1	0	0	0	4	1	2	1	2	3	4	4	2	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:71689242C>T	uc002fax.2	-	16	2492	c.2486G>A	c.(2485-2487)CGC>CAC	p.R829H	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Missense_Mutation_p.R762H	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	829	PP2C-like.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						CTGCAGCAGGCGCGGGAGCTC	0.498													7	166					0	0	0.00308	0	0		T	71689242	T	T	71689242	3	4	4	1	0	0	0	0	1	0	0	0	11874	768	27	1	1497	1	PHLPP2	16	71689242	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	118341	71689242	18665511	3468	5434											
DHX38	9785	broad.mit.edu	37	chr16	72130190	72130190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaaggctcctgctccccGcccttcattactcggactgg	5	11	8	17	2	2	0	2	0	0	0	5	1	4	1	4	3	2	2	4	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72130190G>A	uc002fcb.2	+	2	489	c.134G>A	c.(133-135)CGC>CAC	p.R45H	TXNL4B_uc010cgl.2_5'Flank|TXNL4B_uc002fca.2_5'Flank|TXNL4B_uc010vmn.1_5'Flank|TXNL4B_uc010vmo.1_5'Flank|DHX38_uc010vmp.1_Missense_Mutation_p.R45H|DHX38_uc010cgn.1_5'Flank	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	45					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				CCTGCTCCCCGCCCTTCATTA	0.552													8	24					0	0	0.006214	0	0		A	72130190	A	A	72130190	3	1	4	1	0	0	0	0	1	0	0	0	4517	1087	38	1	136	1	DHX38	16	72130190	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	440948	72130190	18224563	3469	5435											
DHX38	9785	broad.mit.edu	37	chr16	72130838	72130838	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatggtgtctatgcctcGtccaaagaagaaaaggattg	14	9	11	7	1	1	2	0	0	1	2	3	4	2	3	2	2	2	0	2	2	6	2	rs148616280		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72130838G>A	uc002fcb.2	+	3	796	c.441G>A	c.(439-441)TCG>TCA	p.S147S	TXNL4B_uc010vmo.1_5'Flank|DHX38_uc010vmp.1_Intron|DHX38_uc010cgn.1_RNA	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	147					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				TCTATGCCTCGTCCAAAGAAG	0.547													33	64					0	0	0.002836	0	0		A	72130838	A	A	72130838	2	1	4	1	0	0	0	0	0	0	0	1	4517	1132	40	1		1	DHX38	16	72130838	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	648	72130838	18223915	3470	5436											
DHX38	9785	broad.mit.edu	37	chr16	72138392	72138392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttctctcaggtagtggCtcggcgctcagacctgaagc	6	10	11	14	2	4	2	2	1	2	1	6	2	4	2	2	3	1	3	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72138392C>T	uc002fcb.2	+	15	2373	c.2018C>T	c.(2017-2019)GCT>GTT	p.A673V	DHX38_uc010vmp.1_Intron	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	673	Helicase ATP-binding.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				CAGGTAGTGGCTCGGCGCTCA	0.607													9	11					0	0	0.006214	0	0		T	72138392	T	T	72138392	3	4	4	1	0	0	0	0	1	0	0	0	4517	797	28	2	2072	2	DHX38	16	72138392	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7554	72138392	18216361	3471	5437											
PMFBP1	83449	broad.mit.edu	37	chr16	72162994	72162994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctttttaaattcctgccGcaaagcttcaagttctccct	8	17	4	12	1	3	0	1	0	2	0	5	0	4	0	3	0	2	3	3	0	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72162994G>A	uc002fcc.3	-	13	2108	c.1936C>T	c.(1936-1938)CGG>TGG	p.R646W	PMFBP1_uc002fcd.2_Missense_Mutation_p.R641W|PMFBP1_uc002fce.2_Intron|PMFBP1_uc002fcf.2_Missense_Mutation_p.R496W|PMFBP1_uc010cgo.1_5'Flank	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	646	Potential.									ovary(2)	2		Ovarian(137;0.179)				AATTCCTGCCGCAAAGCTTCA	0.527													42	124					0	0	0.00361	0	0		A	72162994	A	A	72162994	3	1	4	1	0	0	0	0	1	0	0	0	12153	1086	38	1	1198	1	PMFBP1	16	72162994	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	24602	72162994	18191759	3472	5438											
ZFHX3	463	broad.mit.edu	37	chr16	72821829	72821829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggggtcgtagagggagtccGcacttttgctttctgcttct	5	14	13	9	2	2	1	0	0	2	1	4	2	3	2	1	3	2	4	1	3	1	5	rs140437495		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72821829G>A	uc002fck.2	-	10	11019	c.10346C>T	c.(10345-10347)GCG>GTG	p.A3449V	ZFHX3_uc002fcl.2_Missense_Mutation_p.A2535V	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3449					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GAGGGAGTCCGCACTTTTGCT	0.572													28	58					0	0	0.009535	0	0		A	72821829	A	A	72821829	3	1	4	1	0	0	0	0	1	0	0	0	17659	1087	38	1	769	1	ZFHX3	16	72821829	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	658835	72821829	17532924	3473	5439											
ZFHX3	463	broad.mit.edu	37	chr16	72822480	72822480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcactgtctttgtccttgCgttgctgctgctgttgcagt	2	18	10	11	1	2	0	1	0	2	0	4	0	3	0	1	0	5	6	1	0	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72822480C>T	uc002fck.2	-	10	10368	c.9695G>A	c.(9694-9696)CGC>CAC	p.R3232H	ZFHX3_uc002fcl.2_Missense_Mutation_p.R2318H	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3232					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TTTGTCCTTGCGTTGCTGCTG	0.502													32	93					0	0	0.007835	0	0		T	72822480	T	T	72822480	3	4	4	1	0	0	0	0	1	0	0	0	17659	768	27	1	1420	1	ZFHX3	16	72822480	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	651	72822480	17532273	3474	5440											
ZFHX3	463	broad.mit.edu	37	chr16	72991508	72991508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgccgaggcccaggtggCggttgtgttggatctgggtc	3	10	19	9	2	1	0	0	0	1	0	2	2	1	1	2	7	1	3	2	7	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72991508C>T	uc002fck.2	-	2	3210	c.2537G>A	c.(2536-2538)CGC>CAC	p.R846H	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	846				RHLG -> HHRV (in Ref. 1).	muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GCCCAGGTGGCGGTTGTGTTG	0.562													11	27					0	0	0.001368	0	0		T	72991508	T	T	72991508	3	4	4	1	0	0	0	0	1	0	0	0	17659	768	27	1	8610	1	ZFHX3	16	72991508	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	169028	72991508	17363245	3475	5441											
LDHD	197257	broad.mit.edu	37	chr16	75149234	75149234	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accacagcatcaggaggttcGcacctagaaccagaccctca	13	5	8	15	1	2	2	2	0	0	2	3	3	2	3	4	2	2	3	4	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:75149234G>A	uc002fdm.2	-	3	236	c.189C>T	c.(187-189)TGC>TGT	p.C63C	LDHD_uc002fdn.2_Silent_p.C63C	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	63	FAD-binding PCMH-type.						D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						CAGGAGGTTCGCACCTAGAAC	0.627													9	80					0	0	0.006214	0	0		A	75149234	A	A	75149234	2	1	4	1	0	0	0	0	0	0	0	1	8719	1079	38	1		1	LDHD	16	75149234	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2157726	75149234	15205519	3476	5442											
ADAT1	23536	broad.mit.edu	37	chr16	75654554	75654554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accggcttatcaggggtgtcGcaggccttgtcagctggaga	7	9	15	10	2	2	1	2	0	0	1	3	2	2	1	2	5	1	3	2	5	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:75654554G>A	uc002feo.1	-	3	246	c.144C>T	c.(142-144)TGC>TGT	p.C48C	ADAT1_uc002fep.1_5'UTR	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	48					tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						CAGGGGTGTCGCAGGCCTTGT	0.507													6	57					0	0	0.00308	0	0		A	75654554	A	A	75654554	2	1	4	1	0	0	0	0	0	0	0	1	284	1079	38	1		1	ADAT1	16	75654554	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	505320	75654554	14700199	3477	5443											
C16orf46	123775	broad.mit.edu	37	chr16	81095510	81095510	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggtgggaaagcagatgtcGctaattgccctggaagcagt	11	9	14	7	1	0	1	0	0	0	1	1	3	0	3	1	3	3	3	1	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:81095510G>A	uc002fgc.3	-	4	703	c.444C>T	c.(442-444)AGC>AGT	p.S148S	C16orf46_uc010chf.2_Silent_p.S148S|C16orf46_uc010vno.1_5'UTR	NM_152337	NP_689550	Q6P387	CP046_HUMAN	chromosome 16 open reading frame 46 isoform 2	148											0						AGCAGATGTCGCTAATTGCCC	0.557													32	96					0	0	0.004289	0	0		A	81095510	A	A	81095510	2	1	4	1	0	0	0	0	0	0	0	1	1818	1078	38	1		1	C16orf46	16	81095510	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5440956	81095510	9259243	3478	5444											
BCMO1	53630	broad.mit.edu	37	chr16	81279097	81279097	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcaagattccagcatggCtgcagggaaccctgctccgc	9	6	12	14	1	0	1	0	0	0	1	2	2	2	2	3	3	4	5	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:81279097C>T	uc002fgn.1	+	2	300	c.82C>T	c.(82-84)CTG>TTG	p.L28L	BCMO1_uc002fgm.1_Silent_p.L28L|BCMO1_uc010vnp.1_Missense_Mutation_p.A2V	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	28					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						TCCAGCATGGCTGCAGGGAAC	0.512													46	132					0	0	0.00361	0	0		T	81279097	T	T	81279097	2	4	4	1	0	0	0	0	0	0	0	1	1385	796	28	2		2	BCMO1	16	81279097	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	183587	81279097	9075656	3479	5445											
PLCG2	5336	broad.mit.edu	37	chr16	81973507	81973507	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccttccagatgataatggCctcagccctatctgggctcc	7	11	8	15	0	2	2	1	1	1	1	5	2	5	2	5	2	1	1	5	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:81973507C>T	uc002fgt.2	+	30	3476	c.3324C>T	c.(3322-3324)GGC>GGT	p.G1108G		NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	1108	C2.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						atgataatggcctcagcccta	0.328													5	75					0	0	0.001984	0	0		T	81973507	T	T	81973507	2	4	4	1	0	0	0	0	0	0	0	1	12055	726	26	2		2	PLCG2	16	81973507	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	694410	81973507	8381246	3480	5446											
HSD17B2	3294	broad.mit.edu	37	chr16	82131906	82131906	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattacacgccagggaaaggCgcttacttgtggatctgcct	9	11	11	10	2	1	0	0	0	1	0	1	2	1	2	2	3	3	1	2	3	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:82131906C>T	uc002fgv.2	+	5	1201	c.1029C>T	c.(1027-1029)GGC>GGT	p.G343G		NM_002153	NP_002144	P37059	DHB2_HUMAN	hydroxysteroid (17-beta) dehydrogenase 2	343					response to retinoic acid|steroid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity|binding|estradiol 17-beta-dehydrogenase activity|testosterone 17-beta-dehydrogenase (NAD+) activity			ovary(1)|central_nervous_system(1)	2					NADH(DB00157)	CAGGGAAAGGCGCTTACTTGT	0.498													18	140					0	0	0.008871	0	0		T	82131906	T	T	82131906	2	4	4	1	0	0	0	0	0	0	0	1	7400	755	27	1		1	HSD17B2	16	82131906	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	158399	82131906	8222847	3481	5447											
CRISPLD2	83716	broad.mit.edu	37	chr16	84922872	84922872	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagccgtgcacgcgggaGtcatcagcaacgagagtggg	11	4	16	10	4	2	2	2	0	0	2	2	4	2	3	1	2	4	2	1	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:84922872G>T	uc010voh.1	+	14	1569	c.1342G>T	c.(1342-1344)GTC>TTC	p.V448F	CRISPLD2_uc010vog.1_Intron|CRISPLD2_uc002fio.2_Missense_Mutation_p.V447F	NM_031476	NP_113664	Q9H0B8	CRLD2_HUMAN	cysteine-rich secretory protein LCCL domain	448	LCCL 2.					extracellular region|transport vesicle					0						GCACGCGGGAGTCATCAGCAA	0.567													4	145					0.00116845	0.00121571	0.001168	1	0		T	84922872	T	T	84922872	3	4	4	1	0	0	0	0	1	0	0	0	3886	1029	36	5	1392	5	CRISPLD2	16	84922872	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2790966	84922872	5431881	3482	5448											
FOXF1	2294	broad.mit.edu	37	chr16	86544554	86544554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actactggaccatcgacccgGccagcgagttcatgttcgag	9	8	11	13	4	1	0	1	0	0	0	3	4	1	1	3	2	2	2	3	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:86544554G>A	uc002fjl.2	+	1	422	c.379G>A	c.(379-381)GCC>ACC	p.A127T	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	127	Fork-head.				branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						CATCGACCCGGCCAGCGAGTT	0.637													22	49					0	0	0.005443	0	0		A	86544554	A	A	86544554	3	1	4	1	0	0	0	0	1	0	0	0	6019	1203	42	2	381	2	FOXF1	16	86544554	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1621682	86544554	3810199	3483	5449											
MTHFSD	64779	broad.mit.edu	37	chr16	86575334	86575334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattcccattggctttgggCgcttgcagcctgtggcgatg	4	13	14	10	2	0	1	0	1	0	0	1	2	1	1	2	3	2	3	2	3	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:86575334C>T	uc002fjn.2	-	7	701	c.650G>A	c.(649-651)CGC>CAC	p.R217H	MTHFSD_uc010voo.1_Missense_Mutation_p.R197H|MTHFSD_uc002fjo.2_Missense_Mutation_p.R54H|MTHFSD_uc002fjm.2_Missense_Mutation_p.R216H|MTHFSD_uc010vop.1_Missense_Mutation_p.R54H|MTHFSD_uc010voq.1_Missense_Mutation_p.R216H|MTHFSD_uc010vor.1_Missense_Mutation_p.R217H|MTHFSD_uc002fjp.2_Missense_Mutation_p.R197H	NM_001159377	NP_001152849	Q2M296	MTHSD_HUMAN	methenyltetrahydrofolate synthetase domain	217					folic acid-containing compound biosynthetic process		5-formyltetrahydrofolate cyclo-ligase activity|ATP binding|RNA binding				0						TGGCTTTGGGCGCTTGCAGCC	0.562													8	19					0	0	0.00308	0	0		T	86575334	T	T	86575334	3	4	4	1	0	0	0	0	1	0	0	0	9951	768	27	1	509	1	MTHFSD	16	86575334	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	30780	86575334	3779419	3484	5450											
FOXL1	2300	broad.mit.edu	37	chr16	86612374	86612374	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctgccctggccgcctcGcccatgctgtatctgtacgg	3	10	11	17	3	1	0	0	0	1	0	2	0	1	0	5	2	4	3	5	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:86612374G>A	uc002fjr.2	+	1	260	c.45G>A	c.(43-45)TCG>TCA	p.S15S		NM_005250	NP_005241	Q12952	FOXL1_HUMAN	forkhead box L1	15					brain development|camera-type eye development|cartilage development|embryo development|forelimb morphogenesis|heart development|organ morphogenesis|pattern specification process|proteoglycan biosynthetic process|regulation of sequence-specific DNA binding transcription factor activity|regulation of Wnt receptor signaling pathway|visceral mesoderm-endoderm interaction involved in midgut development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1						TGGCCGCCTCGCCCATGCTGT	0.721													12	33					0	0	0.007413	0	0		A	86612374	A	A	86612374	2	1	4	1	0	0	0	0	0	0	0	1	6030	1074	38	1		1	FOXL1	16	86612374	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	37040	86612374	3742379	3485	5451											
ZCCHC14	23174	broad.mit.edu	37	chr16	87445771	87445771	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggccatgttggcaaaggaCgtggaggggtggctgctggg	6	8	21	6	1	0	0	0	0	0	0	0	2	0	2	1	8	1	4	1	8	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:87445771C>T	uc002fjz.1	-	12	2172	c.2145G>A	c.(2143-2145)ACG>ACA	p.T715T	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Silent_p.T491T	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	715	Ser-rich.				cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		TGGCAAAGGACGTGGAGGGGT	0.617													5	11					0	0	0.004482	0	0		T	87445771	T	T	87445771	2	4	4	1	0	0	0	0	0	0	0	1	17608	523	19	1		1	ZCCHC14	16	87445771	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	833397	87445771	2908982	3486	5452											
SNAI3	333929	broad.mit.edu	37	chr16	88744868	88744868	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtgcctctcaggggcccggGcagcagccagactcctcatg	6	6	13	16	2	2	1	2	0	1	1	4	1	3	1	4	3	3	2	4	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:88744868G>A	uc002flj.2	-	3	935	c.867C>T	c.(865-867)TGC>TGT	p.C289C	MGC23284_uc002fli.3_Intron	NM_178310	NP_840101	Q3KNW1	SNAI3_HUMAN	snail homolog 3	289					oxidation-reduction process		copper ion binding|DNA binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.048)		AGGGGCCCGGGCAGCAGCCAG	0.682													6	9					0	0	0.00308	0	0		A	88744868	A	A	88744868	2	1	4	1	0	0	0	0	0	0	0	1	14853	1195	42	2		2	SNAI3	16	88744868	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1299097	88744868	1609885	3487	5453											
CDT1	81620	broad.mit.edu	37	chr16	88872194	88872194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggcctcctaccgcttccGccaggagcgcagtgtcccca	5	6	10	20	4	0	0	0	0	0	0	3	1	3	1	8	2	2	2	8	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:88872194G>A	uc002flu.2	+	5	803	c.749G>A	c.(748-750)CGC>CAC	p.R250H		NM_030928	NP_112190	Q9H211	CDT1_HUMAN	chromatin licensing and DNA replication factor	250					DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|regulation of DNA-dependent DNA replication initiation|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0476)		TACCGCTTCCGCCAGGAGCGC	0.632													5	18					0	0	0.001168	0	0		A	88872194	A	A	88872194	3	1	4	1	0	0	0	0	1	0	0	0	3183	1087	38	1	767	1	CDT1	16	88872194	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	127326	88872194	1482559	3488	5454											
APRT	353	broad.mit.edu	37	chr16	88876190	88876190	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagctccaccaggctcacGcactccaggacctcagcctg	8	6	9	18	1	3	0	3	0	0	0	5	1	5	1	5	2	2	3	5	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:88876190G>A	uc002flv.2	-	5	494	c.459C>T	c.(457-459)TGC>TGT	p.C153C	APRT_uc002flw.2_Intron	NM_000485	NP_000476	P07741	APT_HUMAN	adenine phosphoribosyltransferase isoform a	153			C -> R (in APRTD).		purine ribonucleoside salvage	cytosol|nucleus	adenine phosphoribosyltransferase activity|AMP binding|protein binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0477)	Adenine(DB00173)|Adenosine monophosphate(DB00131)	CCAGGCTCACGCACTCCAGGA	0.637													9	23					0	0	0.006214	0	0		A	88876190	A	A	88876190	2	1	4	1	0	0	0	0	0	0	0	1	819	1079	38	1		1	APRT	16	88876190	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3996	88876190	1478563	3489	5455											
ANKRD11	29123	broad.mit.edu	37	chr16	89348895	89348895	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggatgaagatgaggagTgtctgtgcctctccttctct	6	15	11	9	0	4	3	0	2	4	1	6	5	4	5	2	2	1	0	2	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:89348895T>C	uc002fmx.1	-	9	4516	c.4055A>G	c.(4054-4056)CAC>CGC	p.H1352R	ANKRD11_uc002fmy.1_Missense_Mutation_p.H1352R|ANKRD11_uc002fnc.1_Missense_Mutation_p.H1352R|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Missense_Mutation_p.H1309R	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1352	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		AGATGAGGAGTGTCTGTGCCT	0.572													6	47					0	0	0.001984	0	0		C	89348895	C	C	89348895	3	2	4	1	0	0	0	0	1	0	0	0	639	1696	59	3	3956	3	ANKRD11	16	89348895	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	472705	89348895	1005858	3490	5456											
FANCA	2175	broad.mit.edu	37	chr16	89857839	89857839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtctgcatatgacaggaacGcagaggggccctccagtgct	10	7	13	11	1	1	2	0	1	1	1	2	3	2	3	2	3	3	3	2	3	2	1	rs144234991		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:89857839G>A	uc002fou.1	-	14	1373	c.1331C>T	c.(1330-1332)GCG>GTG	p.A444V	FANCA_uc010vpn.1_Missense_Mutation_p.A444V	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	444					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		TGACAGGAACGCAGAGGGGCC	0.592			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				7	7					0	0	0.001984	0	0		A	89857839	A	A	89857839	3	1	4	1	0	0	0	0	1	0	0	0	5676	1087	38	1	3156	1	FANCA	16	89857839	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	508944	89857839	496914	3491	5457											
TCF25	22980	broad.mit.edu	37	chr16	89967183	89967183	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctcctgatacagcaggcGctcaccatgttccctggagg	7	10	10	14	1	2	1	1	1	1	0	5	2	4	2	3	3	2	3	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:89967183G>A	uc002fpb.2	+	12	1444	c.1362G>A	c.(1360-1362)GCG>GCA	p.A454A	TCF25_uc002fpc.2_Silent_p.A219A	NM_014972	NP_055787	Q9BQ70	TCF25_HUMAN	NULP1	454					heart development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(9;4.71e-08)|Lung NSC(15;0.000192)|all_lung(18;0.000319)|all_neural(9;0.0122)|all_hematologic(23;0.027)		BRCA - Breast invasive adenocarcinoma(80;0.0288)		TACAGCAGGCGCTCACCATGT	0.622													9	22					0	0	0.000978	0	0		A	89967183	A	A	89967183	2	1	4	1	0	0	0	0	0	0	0	1	15718	1074	38	1		1	TCF25	16	89967183	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	109344	89967183	387570	3492	5458											
TUBB3	10381	broad.mit.edu	37	chr16	89986038	89986038	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtcattgacgtgatcacCtgcagctccatgctgtccag	9	11	9	12	1	2	2	2	2	0	0	4	2	4	2	3	0	3	3	3	0	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:89986038C>A	uc002fpf.2	+	1	780	c.372C>A	c.(370-372)ACC>ACA	p.T124T	MC1R_uc002fpe.3_Silent_p.T124T|TUBB3_uc010ciz.1_5'Flank	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	Error:Variant_position_missing_in_Q13509_after_alignment					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		ACGTGATCACCTGCAGCTCCA	0.637													5	28					0.000602214	0.000627828	0.000602	1	0		A	89986038	A	A	89986038	2	1	4	1	0	0	0	0	0	0	0	1	16783	668	24	5		5	TUBB3	16	89986038	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	18855	89986038	368715	3493	5459											
TUBB3	10381	broad.mit.edu	37	chr16	90001913	90001913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccccaacaacgtgaaggtgGccgtgtgtgacatcccgccc	8	7	11	15	3	0	2	0	2	0	0	2	2	2	2	5	2	2	0	5	2	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:90001913G>A	uc002fph.1	+	4	1119	c.1054G>A	c.(1054-1056)GCC>ACC	p.A352T	TUBB3_uc002fpf.2_Missense_Mutation_p.A699T|TUBB3_uc010ciz.1_Missense_Mutation_p.A280T|TUBB3_uc002fpg.1_Missense_Mutation_p.A206T|TUBB3_uc002fpi.1_Missense_Mutation_p.A280T|TUBB3_uc002fpj.1_Missense_Mutation_p.A280T|TUBB3_uc010cjb.1_Missense_Mutation_p.A206T|TUBB3_uc002fpk.1_Missense_Mutation_p.A206T	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	352					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		CGTGAAGGTGGCCGTGTGTGA	0.602													27	95					0	0	0.003755	0	0		A	90001913	A	A	90001913	3	1	4	1	0	0	0	0	1	0	0	0	16783	1203	42	2	1068	2	TUBB3	16	90001913	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	15875	90001913	352840	3494	5460											
GAS8	2622	broad.mit.edu	37	chr16	90099232	90099232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggcacagaaagagcaccGcatacaggagagtgtgctgc	12	5	14	10	1	0	3	0	0	0	3	0	4	0	3	1	2	4	5	1	2	2	1	rs145845004		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:90099232G>A	uc002fqi.1	+	4	517	c.395G>A	c.(394-396)CGC>CAC	p.R132H	GAS8_uc010vps.1_Missense_Mutation_p.R107H|GAS8_uc002fqh.2_Missense_Mutation_p.R49H|GAS8_uc010vpt.1_Missense_Mutation_p.R132H|GAS8_uc010vpu.1_Missense_Mutation_p.R49H|GAS8_uc010vpv.1_Missense_Mutation_p.R103H|GAS8_uc010cjc.1_Missense_Mutation_p.R49H|GAS8_uc010vpw.1_Missense_Mutation_p.R49H|GAS8_uc002fqj.1_5'UTR|C16orf3_uc002fqk.1_5'Flank	NM_001481	NP_001472	O95995	GAS8_HUMAN	growth arrest-specific 8	132	Microtubule-binding.				negative regulation of cell proliferation|sperm motility	cilium|Golgi apparatus|microtubule|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.029)		AAAGAGCACCGCATACAGGAG	0.557													11	48					0	0	0.008291	0	0		A	90099232	A	A	90099232	3	1	4	1	0	0	0	0	1	0	0	0	6266	1087	38	1	409	1	GAS8	16	90099232	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	97319	90099232	255521	3495	5461											
VPS53	55275	broad.mit.edu	37	chr17	526892	526892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatttccttcgctctggtacGcataatcttggcaagttctg	8	15	8	10	2	3	0	0	0	3	0	5	0	4	0	1	2	1	5	1	2	4	6	rs145041715		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:526892G>A	uc002frn.2	-	11	1144	c.997C>T	c.(997-999)CGT>TGT	p.R333C	VPS53_uc002frk.2_5'UTR|VPS53_uc010cjo.1_Missense_Mutation_p.R333C|VPS53_uc002frl.2_RNA|VPS53_uc002frm.2_Missense_Mutation_p.R304C|VPS53_uc002fro.2_Missense_Mutation_p.R135C|VPS53_uc010cjp.1_Intron	NM_018289	NP_060759	Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 isoform 2	333					protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)		GCTCTGGTACGCATAATCTTG	0.393													12	40					0	0	0.00245	0	0		A	526892	A	A	526892	3	1	4	1	0	0	0	0	1	0	0	0	17241	1087	38	1	1564	1	VPS53	17	526892	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08		526892	80668318	3496	5462											
GEMIN4	50628	broad.mit.edu	37	chr17	650203	650203	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtgcggttcaggtagagCgtcgcgttctggctgaagga	6	10	17	8	4	2	2	1	1	1	1	3	3	2	3	0	5	2	4	0	5	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:650203C>T	uc002frs.1	-	2	1199	c.1080G>A	c.(1078-1080)ACG>ACA	p.T360T	GEMIN4_uc010vqa.1_3'UTR	NM_015721	NP_056536	P57678	GEMI4_HUMAN	gemin 4	360					rRNA processing|spliceosomal snRNP assembly	Cajal body|cytosol|nucleolus|small nuclear ribonucleoprotein complex|spliceosomal complex	protein binding			ovary(2)|kidney(1)|skin(1)	4		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		TCAGGTAGAGCGTCGCGTTCT	0.627													14	31					0	0	0.001855	0	0		T	650203	T	T	650203	2	4	4	1	0	0	0	0	0	0	0	1	6345	755	27	1		1	GEMIN4	17	650203	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	123311	650203	80545007	3497	5463											
RNMTL1	55178	broad.mit.edu	37	chr17	694821	694821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctccgggcgggtatgggcGcacatttccggatgcccatt	5	10	14	12	4	0	0	0	0	0	0	2	1	2	1	3	4	2	3	3	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:694821G>A	uc002frw.2	+	4	881	c.775G>A	c.(775-777)GCA>ACA	p.A259T		NM_018146	NP_060616	Q9HC36	RMTL1_HUMAN	RNA methyltransferase like 1	259					RNA processing		protein binding|RNA binding|RNA methyltransferase activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0219)		GGGTATGGGCGCACATTTCCG	0.522													11	36					0	0	0.001368	0	0		A	694821	A	A	694821	3	1	4	1	0	0	0	0	1	0	0	0	13532	1087	38	1	789	1	RNMTL1	17	694821	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	44618	694821	80500389	3498	5464											
TIMM22	29928	broad.mit.edu	37	chr17	902137	902137	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagtgctgaaagacatgggGcagagaggaatgtcctatgc	13	7	15	6	0	0	3	0	1	0	2	1	6	1	4	1	3	2	2	1	3	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:902137G>A	uc002fsc.2	+	2	383	c.357G>A	c.(355-357)GGG>GGA	p.G119G		NM_013337	NP_037469	Q9Y584	TIM22_HUMAN	translocase of inner mitochondrial membrane 22	119					transmembrane transport	integral to membrane|mitochondrial inner membrane	protein transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		AAGACATGGGGCAGAGAGGAA	0.468													7	142					0	0	0.001984	0	0		A	902137	A	A	902137	2	1	4	1	0	0	0	0	0	0	0	1	15935	1190	42	2		2	TIMM22	17	902137	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	207316	902137	80293073	3499	5465											
ABR	29	broad.mit.edu	37	chr17	1028590	1028590	+	Silent	SNP	C	T	T																															tggctgcgggcgctgagctgCggggacatggtgggcgactc																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:1028590C>T	uc002fsd.2	-	2	284	c.174G>A	c.(172-174)CCG>CCA	p.P58P	ABR_uc002fse.2_Silent_p.P12P|ABR_uc010cjq.1_Silent_p.P70P	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	58					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		CGCTGAGCTGCGGGGACATGG	0.667													13	25					0	0	0.00245	0	0		T	1028590	T	T	1028590	2	4	4	1	0	0	0	0	0	0	0	1	99	755	27	1		1	ABR	17	1028590	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	126453	1028590	80166620	3500	5466	9	2									
ABR	29	broad.mit.edu	37	chr17	1028600	1028600	+	Missense_Mutation	SNP	G	A	A																															cgctgagctgcggggacatgGtgggcgactcatcgatgtac																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:1028600G>A	uc002fsd.2	-	2	274	c.164C>T	c.(163-165)ACC>ATC	p.T55I	ABR_uc002fse.2_Missense_Mutation_p.T9I|ABR_uc010cjq.1_Missense_Mutation_p.T67I	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	55					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		CGGGGACATGGTGGGCGACTC	0.667													5	37					0	0	0.000602	0	0		A	1028600	A	A	1028600	3	1	4	1	0	0	0	0	1	0	0	0	99	1261	44	4	2642	4	ABR	17	1028600	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	10	1028600	80166610	3501	5467	9	2									
WDR81	124997	broad.mit.edu	37	chr17	1634494	1634494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcatggacatcctgcccCggatcagccatgaggtcctg	8	8	10	15	1	2	1	2	1	0	0	4	3	4	3	5	3	2	0	5	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:1634494C>T	uc002fti.2	+	4	679	c.418C>T	c.(418-420)CGG>TGG	p.R140W	WDR81_uc002fth.2_Missense_Mutation_p.R316W|WDR81_uc010vqp.1_Missense_Mutation_p.R164W|WDR81_uc002ftj.2_Missense_Mutation_p.R1367W|WDR81_uc010vqq.1_Intron	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	140										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CATCCTGCCCCGGATCAGCCA	0.632													4	24					0	0	0.009096	0	0		T	1634494	T	T	1634494	3	4	4	1	0	0	0	0	1	0	0	0	17356	643	23	1	4175	1	WDR81	17	1634494	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	605894	1634494	79560716	3502	5468											
WDR81	124997	broad.mit.edu	37	chr17	1636038	1636038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgggcagcagcggcccGtggaccccgccctgctggac	5	5	15	16	3	0	1	0	1	0	0	0	3	0	3	4	4	3	3	4	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:1636038G>A	uc002fti.2	+	6	982	c.721G>A	c.(721-723)GTG>ATG	p.V241M	WDR81_uc002fth.2_Missense_Mutation_p.V417M|WDR81_uc010vqp.1_Missense_Mutation_p.V265M|WDR81_uc002ftj.2_Missense_Mutation_p.V1468M|WDR81_uc010vqq.1_Missense_Mutation_p.V99M	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	241										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GCAGCGGCCCGTGGACCCCGC	0.632													9	7					0	0	0.000978	0	0		A	1636038	A	A	1636038	3	1	4	1	0	0	0	0	1	0	0	0	17356	1145	40	1	4486	1	WDR81	17	1636038	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1544	1636038	79559172	3503	5469											
SMYD4	114826	broad.mit.edu	37	chr17	1703996	1703996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ataagccgatggatgatgagGcattggaaagttgttcattc	12	12	12	5	1	1	2	1	2	0	0	2	5	1	4	1	3	1	3	1	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:1703996G>A	uc002ftm.3	-	5	860	c.692C>T	c.(691-693)GCC>GTC	p.A231V	SMYD4_uc002ftn.1_Missense_Mutation_p.A86V	NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	231							zinc ion binding			skin(3)|kidney(2)	5						GGATGATGAGGCATTGGAAAG	0.502													7	143					0	0	0.00308	0	0		A	1703996	A	A	1703996	3	1	4	1	0	0	0	0	1	0	0	0	14849	1203	42	2	1750	2	SMYD4	17	1703996	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	67958	1703996	79491214	3504	5470											
SMG6	23293	broad.mit.edu	37	chr17	1964860	1964860	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttgtgagcgccttcacacGcaggttccggtcatccgtca	6	10	10	15	4	3	1	3	1	0	0	5	1	5	1	4	2	1	2	4	2	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:1964860G>A	uc002fub.1	-	19	4241	c.4186C>T	c.(4186-4188)CGT>TGT	p.R1396C	SMG6_uc010vqv.1_Missense_Mutation_p.R488C	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	1396	PINc.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						GCCTTCACACGCAGGTTCCGG	0.642													3	2					0	0	0.004672	0	0		A	1964860	A	A	1964860	3	1	4	1	0	0	0	0	1	0	0	0	14822	1087	38	1	77	1	SMG6	17	1964860	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	260864	1964860	79230350	3505	5471											
SMG6	23293	broad.mit.edu	37	chr17	2202208	2202208	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accacatcatacctgagttgCgccatcttctccaggccctc	8	10	6	17	1	3	1	1	1	2	0	5	1	3	1	5	1	2	1	5	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:2202208C>T	uc002fub.1	-	2	1894	c.1839G>A	c.(1837-1839)GCG>GCA	p.A613A	SMG6_uc002fud.1_Silent_p.A582A	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	613	Potential.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						ACCTGAGTTGCGCCATCTTCT	0.552													14	166					0	0	0.004007	0	0		T	2202208	T	T	2202208	2	4	4	1	0	0	0	0	0	0	0	1	14822	755	27	1		1	SMG6	17	2202208	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	237348	2202208	78993002	3506	5472											
RAP1GAP2	23108	broad.mit.edu	37	chr17	2898752	2898752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatttaccgacggagacGcccagcaggtaacctggttt	9	9	11	12	3	0	1	0	0	0	1	0	3	0	1	4	3	4	3	4	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:2898752G>A	uc010ckd.2	+	13	1126	c.1036G>A	c.(1036-1038)GCC>ACC	p.A346T	RAP1GAP2_uc010cke.2_Missense_Mutation_p.A331T	NM_015085	NP_055900	Q684P5	RPGP2_HUMAN	RAP1 GTPase activating protein 2 isoform 1	346	Rap-GAP.				regulation of small GTPase mediated signal transduction	centrosome|cytosol|perinuclear region of cytoplasm	GTPase activator activity			ovary(1)	1						CGACGGAGACGCCCAGCAGGT	0.607													15	27					0	0	0.00245	0	0		A	2898752	A	A	2898752	3	1	4	1	0	0	0	0	1	0	0	0	13063	1087	38	1	1086	1	RAP1GAP2	17	2898752	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	696544	2898752	78296458	3507	5473											
OR1G1	8390	broad.mit.edu	37	chr17	3030350	3030350	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggtttgcgcagaaggacaGgctgttcatcagaagtgtgt	10	11	14	6	1	2	2	2	0	0	2	2	3	2	3	0	3	1	4	0	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3030350G>A	uc002fvc.1	-	1	496	c.496C>T	c.(496-498)CTG>TTG	p.L166L		NM_003555	NP_003546	P47890	OR1G1_HUMAN	olfactory receptor, family 1, subfamily G,	166	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CAGAAGGACAGGCTGTTCATC	0.522													41	84					0	0	0.007835	0	0		A	3030350	A	A	3030350	2	1	4	1	0	0	0	0	0	0	0	1	10976	991	35	4		4	OR1G1	17	3030350	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	131598	3030350	78164860	3508	5474											
OR3A2	4995	broad.mit.edu	37	chr17	3181297	3181297	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcctccccaaaaatatttgCcacagagcaccctgaacatc	13	8	4	16	0	0	2	0	1	0	1	3	2	2	2	5	0	3	1	5	0	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3181297C>T	uc002fvg.2	-	1	972	c.933G>A	c.(931-933)TGG>TGA	p.W311*		NM_002551	NP_002542	P47893	OR3A2_HUMAN	olfactory receptor, family 3, subfamily A,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						AAAATATTTGCCACAGAGCAC	0.463													20	54					0	0	0.00278	0	0		T	3181297	T	T	3181297	4	4	4	1	0	0	0	0	0	1	0	0	11057	740	26	2	36	2	OR3A2	17	3181297	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	150947	3181297	78013913	3509	5475											
OR3A3	8392	broad.mit.edu	37	chr17	3324325	3324325	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccagaggatgttggtggCtgcgtcctgggcttgtgcct	4	12	16	9	1	0	1	0	0	0	1	2	2	2	2	3	4	2	3	3	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3324325C>A	uc010vrd.1	+	1	464	c.464C>A	c.(463-465)GCT>GAT	p.A155D		NM_012373	NP_036505	P47888	OR3A3_HUMAN	olfactory receptor, family 3, subfamily A,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGTTGGTGGCTGCGTCCTGG	0.587													28	74					2.05212e-20	2.2485e-20	0.005524	1	0		A	3324325	A	A	3324325	3	1	4	1	0	0	0	0	1	0	0	0	11058	797	28	5	466	5	OR3A3	17	3324325	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	143028	3324325	77870885	3510	5476											
OR1E2	8388	broad.mit.edu	37	chr17	3336709	3336709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcatggggctcatgatggCggtgtagtgcaggaggaagc	9	7	19	6	1	1	1	1	1	0	0	1	4	1	3	0	6	3	4	0	6	2	1	rs112466079		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3336709C>T	uc010vre.1	-	1	427	c.427G>A	c.(427-429)GCC>ACC	p.A143T		NM_003554	NP_003545	P47887	OR1E2_HUMAN	olfactory receptor, family 1, subfamily E,	143	Cytoplasmic (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			large_intestine(1)	1						CTCATGATGGCGGTGTAGTGC	0.572													14	25					0	0	0.00245	0	0		T	3336709	T	T	3336709	3	4	4	1	0	0	0	0	1	0	0	0	10974	768	27	1	547	1	OR1E2	17	3336709	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	12384	3336709	77858501	3511	5477											
TRPV1	7442	broad.mit.edu	37	chr17	3476959	3476959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgttcttgctctcctgtgCgatcttgttgacagtctcac	5	16	9	11	1	4	1	1	1	4	0	6	3	4	1	1	0	2	3	1	0	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3476959C>T	uc010vrr.1	-	12	2598	c.2071G>A	c.(2071-2073)GCA>ACA	p.A691T	TRPV1_uc010vro.1_Missense_Mutation_p.A702T|TRPV1_uc010vrp.1_Missense_Mutation_p.A631T|TRPV1_uc010vrq.1_Missense_Mutation_p.A689T|TRPV1_uc010vrs.1_Missense_Mutation_p.A691T|TRPV1_uc010vrt.1_Missense_Mutation_p.A691T|TRPV1_uc010vru.1_Missense_Mutation_p.A691T	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	691	AD (By similarity).|Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	CTCTCCTGTGCGATCTTGTTG	0.567													5	38					0	0	0.001168	0	0		T	3476959	T	T	3476959	3	4	4	1	0	0	0	0	1	0	0	0	16621	768	27	1		1	TRPV1	17	3476959	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	140250	3476959	77718251	3512	5478											
TRPV1	7442	broad.mit.edu	37	chr17	3489183	3489183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccacttgtcctgcaggagtCggttcagcggctccaccaag	7	8	11	15	2	1	0	1	0	0	0	4	1	3	1	4	3	2	3	4	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3489183C>T	uc010vrr.1	-	7	1789	c.1262G>A	c.(1261-1263)CGA>CAA	p.R421Q	TRPV1_uc010vro.1_Missense_Mutation_p.R432Q|TRPV1_uc010vrp.1_Missense_Mutation_p.R361Q|TRPV1_uc010vrq.1_Missense_Mutation_p.R419Q|TRPV1_uc010vrs.1_Missense_Mutation_p.R421Q|TRPV1_uc010vrt.1_Missense_Mutation_p.R421Q|TRPV1_uc010vru.1_Missense_Mutation_p.R421Q	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	421	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	CTGCAGGAGTCGGTTCAGCGG	0.567													12	21					0	0	0.001855	0	0		T	3489183	T	T	3489183	3	4	4	1	0	0	0	0	1	0	0	0	16621	884	31	1	966	1	TRPV1	17	3489183	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	12224	3489183	77706027	3513	5479											
ITGAE	3682	broad.mit.edu	37	chr17	3665218	3665218	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcactcaccaaaacaccGtggtggctccggacaacggt	10	6	10	15	3	1	0	1	0	0	0	2	1	2	1	4	4	3	2	4	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3665218G>A	uc002fwo.3	-	4	405	c.306C>T	c.(304-306)CAC>CAT	p.H102H		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	102	FG-GAP 2.|Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		CCAAAACACCGTGGTGGCTCC	0.617													8	23					0	0	0.00308	0	0		A	3665218	A	A	3665218	2	1	4	1	0	0	0	0	0	0	0	1	7901	1136	40	1		1	ITGAE	17	3665218	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	176035	3665218	77529992	3514	5480											
CAMKK1	84254	broad.mit.edu	37	chr17	3773157	3773157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	taacatcttcaggatcaggtCcttgagctcctcgctgattt	8	14	8	11	1	3	2	2	2	1	0	6	3	5	3	2	2	2	2	2	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3773157C>T	uc002fwt.2	-	13	1244	c.1150G>A	c.(1150-1152)GAC>AAC	p.D384N	CAMKK1_uc002fwu.2_Missense_Mutation_p.D384N|CAMKK1_uc002fwv.2_Missense_Mutation_p.D422N	NM_172206	NP_757343	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase 1	384	Protein kinase.				synaptic transmission	cytosol|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1				LUAD - Lung adenocarcinoma(2;2.11e-05)|Lung(3;0.0176)		AGGATCAGGTCCTTGAGCTCC	0.587													15	41					0	0	0.008871	0	0		T	3773157	T	T	3773157	3	4	4	1	0	0	0	0	1	0	0	0	2609	855	30	4	387	4	CAMKK1	17	3773157	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	107939	3773157	77422053	3515	5481											
PLD2	5338	broad.mit.edu	37	chr17	4713066	4713066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgagaccaagtttgttatcGctggtccaagaggtacgggc	9	9	13	10	3	0	2	0	0	0	2	2	3	1	2	3	3	1	4	3	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:4713066G>A	uc002fzc.2	+	8	796	c.695G>A	c.(694-696)CGC>CAC	p.R232H	PLD2_uc010vsj.1_Missense_Mutation_p.R89H|PLD2_uc002fzd.2_Missense_Mutation_p.R232H	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	232	PH.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	GTTTGTTATCGCTGGTCCAAG	0.592													21	56					0	0	0.003954	0	0		A	4713066	A	A	4713066	3	1	4	1	0	0	0	0	1	0	0	0	12065	1087	38	1	721	1	PLD2	17	4713066	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	939909	4713066	76482144	3516	5482											
PLD2	5338	broad.mit.edu	37	chr17	4718853	4718853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggctatagcaagagggCgctgatgctgctgcacccca	9	7	13	12	1	0	2	0	1	0	1	0	2	0	2	2	2	4	6	2	2	3	2	rs143765886	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:4718853C>T	uc002fzc.2	+	13	1357	c.1256C>T	c.(1255-1257)GCG>GTG	p.A419V	PLD2_uc010vsj.1_Missense_Mutation_p.A276V|PLD2_uc002fzd.2_Missense_Mutation_p.A419V	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	419					cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	AGCAAGAGGGCGCTGATGCTG	0.577											OREG0024105	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	46	116					0	0	0.00361	0	0		T	4718853	T	T	4718853	3	4	4	1	0	0	0	0	1	0	0	0	12065	768	27	1	1302	1	PLD2	17	4718853	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5787	4718853	76476357	3517	5483											
KIF1C	10749	broad.mit.edu	37	chr17	4917019	4917019	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaccacatcaaagatggCgtcaccaggtagcgtgtacc	11	8	9	13	2	3	1	2	0	1	1	3	1	3	1	3	2	3	2	3	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:4917019C>T	uc002gan.1	+	17	1889	c.1563C>T	c.(1561-1563)GGC>GGT	p.G521G		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	521					microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						TCAAAGATGGCGTCACCAGGT	0.597													5	25					0	0	0.001984	0	0		T	4917019	T	T	4917019	2	4	4	1	0	0	0	0	0	0	0	1	8301	755	27	1		1	KIF1C	17	4917019	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	198166	4917019	76278191	3518	5484											
USP6	9098	broad.mit.edu	37	chr17	5041523	5041523	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcaagcatcttagggccTctacgaagaaactaacaagg	14	8	9	10	1	3	1	1	0	2	1	3	2	3	1	1	2	5	2	1	2	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5041523T>G	uc002gau.1	+	21	3263	c.1033T>G	c.(1033-1035)TCT>GCT	p.S345A	USP6_uc002gav.1_Missense_Mutation_p.S345A|USP6_uc010ckz.1_5'UTR|uc002gbd.2_5'Flank	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	345					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						TCTTAGGGCCTCTACGAAGAA	0.572			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								9	108					0	0	0.006214	0	0		G	5041523	G	G	5041523	3	3	4	1	0	0	0	0	1	0	0	0	17112	1551	54	5	1079	5	USP6	17	5041523	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	124504	5041523	76153687	3519	5485											
RABEP1	9135	broad.mit.edu	37	chr17	5264580	5264580	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatctggagatcctttcagTaaatcggacaatgacatgtt	12	12	8	9	1	2	2	1	1	1	1	4	4	3	3	2	2	0	2	2	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5264580T>C	uc002gbm.3	+	9	1397	c.1173T>C	c.(1171-1173)AGT>AGC	p.S391S	RABEP1_uc010clc.1_Silent_p.S384S|RABEP1_uc010cld.1_Silent_p.S348S|RABEP1_uc010vsw.1_Silent_p.S348S|RABEP1_uc002gbl.3_Silent_p.S391S|NUP88_uc002gbn.2_RNA	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	391					apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						ATCCTTTCAGTAAATCGGACA	0.453													3	60					0	0	0.004672	0	0		C	5264580	C	C	5264580	2	2	4	1	0	0	0	0	0	0	0	1	12986	1635	57	3		3	RABEP1	17	5264580	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	223057	5264580	75930630	3520	5486											
RABEP1	9135	broad.mit.edu	37	chr17	5264866	5264866	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagaacaagaagagacaGcgtccctcctctccagcgtt	12	6	8	15	2	1	3	0	0	1	3	4	4	3	3	4	0	3	1	4	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5264866G>T	uc002gbm.3	+	9	1683	c.1459G>T	c.(1459-1461)GCG>TCG	p.A487S	RABEP1_uc010clc.1_Missense_Mutation_p.A480S|RABEP1_uc010cld.1_Missense_Mutation_p.A444S|RABEP1_uc010vsw.1_Missense_Mutation_p.A444S|RABEP1_uc002gbl.3_Missense_Mutation_p.A487S|NUP88_uc002gbn.2_RNA	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	487					apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						AGAAGAGACAGCGTCCCTCCT	0.483													24	66					3.6726e-16	4.00306e-16	0.003954	1	0		T	5264866	T	T	5264866	3	4	4	1	0	0	0	0	1	0	0	0	12986	971	34	5	1493	5	RABEP1	17	5264866	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	286	5264866	75930344	3521	5487											
RABEP1	9135	broad.mit.edu	37	chr17	5280477	5280477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcggacagcagcagaccacGtagaagaaaagctgaaggct	15	4	13	9	2	0	4	0	1	0	3	0	5	0	5	1	2	4	5	1	2	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5280477G>A	uc002gbm.3	+	14	2316	c.2092G>A	c.(2092-2094)GTA>ATA	p.V698I	RABEP1_uc010clc.1_Missense_Mutation_p.V691I|RABEP1_uc010cld.1_Missense_Mutation_p.V655I|RABEP1_uc010vsw.1_Missense_Mutation_p.V655I|RABEP1_uc002gbl.3_Missense_Mutation_p.V698I|NUP88_uc002gbn.2_Intron	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	698	Potential.				apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						AGCAGACCACGTAGAAGAAAA	0.398													55	118					0	0	0.00361	0	0		A	5280477	A	A	5280477	3	1	4	1	0	0	0	0	1	0	0	0	12986	1145	40	1	2146	1	RABEP1	17	5280477	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	15611	5280477	75914733	3522	5488											
NUP88	4927	broad.mit.edu	37	chr17	5312224	5312224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctagagatgcggtatacGcccttctggaaagagatgta	11	10	11	9	2	1	2	0	0	1	2	2	5	2	3	2	2	2	2	2	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5312224G>A	uc002gbo.1	-	5	712	c.686C>T	c.(685-687)GCG>GTG	p.A229V	NUP88_uc010vsx.1_Missense_Mutation_p.A229V|NUP88_uc010cle.1_Missense_Mutation_p.A228V|NUP88_uc010vsy.1_Missense_Mutation_p.A229V	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	229					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1						TGCGGTATACGCCCTTCTGGA	0.303													13	40					0	0	0.00245	0	0		A	5312224	A	A	5312224	3	1	4	1	0	0	0	0	1	0	0	0	10790	1087	38	1	1591	1	NUP88	17	5312224	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	31747	5312224	75882986	3523	5489											
DHX33	56919	broad.mit.edu	37	chr17	5364373	5364373	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaggtagaggacgggggcGccattgaaatactgagagaa	13	7	15	6	2	1	4	0	2	1	2	1	6	1	5	1	4	1	1	1	4	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5364373G>A	uc002gca.2	-	4	737	c.735C>T	c.(733-735)GGC>GGT	p.G245G	DHX33_uc002gbz.2_Silent_p.G16G|DHX33_uc002gcb.2_Silent_p.G72G|DHX33_uc010clf.2_Intron	NM_020162	NP_064547	Q9H6R0	DHX33_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 33	245	Helicase ATP-binding.					nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|pancreas(1)	2						GGACGGGGGCGCCATTGAAAT	0.517													14	90					0	0	0.004007	0	0		A	5364373	A	A	5364373	2	1	4	1	0	0	0	0	0	0	0	1	4512	1074	38	1		1	DHX33	17	5364373	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	52149	5364373	75830837	3524	5490											
DHX33	56919	broad.mit.edu	37	chr17	5365851	5365851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggtgacatcatcaaagcGcactgtatagccaacctgtg	12	9	10	10	1	2	2	2	2	0	0	2	2	2	2	2	1	3	2	2	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5365851G>A	uc002gca.2	-	3	468	c.466C>T	c.(466-468)CGC>TGC	p.R156C	DHX33_uc002gbz.2_5'Flank|DHX33_uc002gcb.2_5'UTR|DHX33_uc010clf.2_Intron	NM_020162	NP_064547	Q9H6R0	DHX33_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 33	156	Helicase ATP-binding.					nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|pancreas(1)	2						TCATCAAAGCGCACTGTATAG	0.303													7	80					0	0	0.006214	0	0		A	5365851	A	A	5365851	3	1	4	1	0	0	0	0	1	0	0	0	4512	1087	38	1	1697	1	DHX33	17	5365851	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1478	5365851	75829359	3525	5491											
NLRP1	22861	broad.mit.edu	37	chr17	5436264	5436264	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagaggcaggagaaggcacGcacaagagttccaccggtac	13	4	14	10	2	0	3	0	1	0	3	1	5	1	3	2	4	1	5	2	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5436264G>A	uc002gci.2	-	11	3729	c.3174C>T	c.(3172-3174)TGC>TGT	p.C1058C	NLRP1_uc002gcg.1_Silent_p.C1062C|NLRP1_uc002gck.2_Silent_p.C1058C|NLRP1_uc002gcj.2_Silent_p.C1028C|NLRP1_uc002gcl.2_Silent_p.C1028C|NLRP1_uc002gch.3_Silent_p.C1058C|NLRP1_uc010clh.2_Silent_p.C1058C	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1058					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				GAGAAGGCACGCACAAGAGTT	0.607													6	27					0	0	0.001168	0	0		A	5436264	A	A	5436264	2	1	4	1	0	0	0	0	0	0	0	1	10490	1079	38	1		1	NLRP1	17	5436264	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	70413	5436264	75758946	3526	5492											
WSCD1	23302	broad.mit.edu	37	chr17	6023723	6023723	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggctgctggtggtgcactaCgaggagctgcggcgcagcct	5	7	17	12	4	0	0	0	0	0	0	0	2	0	1	1	5	6	5	1	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:6023723C>T	uc010cli.2	+	9	1849	c.1470C>T	c.(1468-1470)TAC>TAT	p.Y490Y	WSCD1_uc002gcn.2_Silent_p.Y490Y|WSCD1_uc002gco.2_Silent_p.Y490Y|WSCD1_uc010clj.2_Silent_p.Y181Y	NM_015253	NP_056068	Q658N2	WSCD1_HUMAN	WSC domain containing 1	490						integral to membrane	sulfotransferase activity				0						TGGTGCACTACGAGGAGCTGC	0.627													20	56					0	0	0.00278	0	0		T	6023723	T	T	6023723	2	4	4	1	0	0	0	0	0	0	0	1	17432	547	19	1		1	WSCD1	17	6023723	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	587459	6023723	75171487	3527	5493											
PITPNM3	83394	broad.mit.edu	37	chr17	6358942	6358942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccagcgcggccaggtgtgCggcgtagccctcgctcagga	5	6	15	15	5	1	0	1	0	0	0	3	1	2	1	3	4	3	2	3	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:6358942C>T	uc002gdd.3	-	20	2792	c.2641G>A	c.(2641-2643)GCA>ACA	p.A881T	PITPNM3_uc010cln.2_Missense_Mutation_p.A845T|PITPNM3_uc010clm.2_Missense_Mutation_p.A364T|PITPNM3_uc002gdc.3_Missense_Mutation_p.A472T	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	881					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		GCCAGGTGTGCGGCGTAGCCC	0.428													7	8					0	0	0.001984	0	0		T	6358942	T	T	6358942	3	4	4	1	0	0	0	0	1	0	0	0	11971	768	27	1	287	1	PITPNM3	17	6358942	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	335219	6358942	74836268	3528	5494											
KIAA0753	9851	broad.mit.edu	37	chr17	6511780	6511780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttttcacctttagccatgCagcactgaaataaatggaaa	15	11	7	8	0	1	1	1	1	0	0	1	2	1	2	2	1	3	3	2	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:6511780C>T	uc002gde.3	-	10	2076	c.1717G>A	c.(1717-1719)GCA>ACA	p.A573T	KIAA0753_uc010vtd.1_Missense_Mutation_p.A29T|KIAA0753_uc010clo.2_Missense_Mutation_p.A274T|KIAA0753_uc010vte.1_Missense_Mutation_p.A274T	NM_014804	NP_055619	Q2KHM9	K0753_HUMAN	hypothetical protein LOC9851	573						centrosome					0				COAD - Colon adenocarcinoma(228;0.157)		TTTAGCCATGCAGCACTGAAA	0.458													30	127					0	0	0.009535	0	0		T	6511780	T	T	6511780	3	4	4	1	0	0	0	0	1	0	0	0	8207	710	25	2	1226	2	KIAA0753	17	6511780	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	152838	6511780	74683430	3529	5495											
TXNDC17	84817	broad.mit.edu	37	chr17	6544532	6544532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggggggaaaagctggtgcCccgactgcgtgcagggtgag	7	5	19	10	3	0	1	0	1	0	0	0	3	0	2	3	5	4	2	3	5	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:6544532C>T	uc002gdf.3	+	1	311	c.130C>T	c.(130-132)CCC>TCC	p.P44S	KIAA0753_uc002gde.3_5'Flank|KIAA0753_uc010vte.1_5'Flank	NM_032731	NP_116120	Q9BRA2	TXD17_HUMAN	thioredoxin-like 5	44	Thioredoxin.	Contributes to redox potential value.			tumor necrosis factor-mediated signaling pathway	cytosol	electron carrier activity|peroxidase activity|protein binding|protein-disulfide reductase activity			ovary(1)	1						AAGCTGGTGCCCCGACTGCGT	0.627													11	22					0	0	0.00245	0	0		T	6544532	T	T	6544532	3	4	4	1	0	0	0	0	1	0	0	0	16822	623	22	4	132	4	TXNDC17	17	6544532	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	32752	6544532	74650678	3530	5496											
BCL6B	255877	broad.mit.edu	37	chr17	6927806	6927806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaccaggtagtcccaggcGctccgaaggacacccagacc	10	4	10	17	2	0	1	0	0	0	1	3	3	3	2	6	3	0	2	6	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:6927806G>A	uc002geg.2	+	4	545	c.488G>A	c.(487-489)CGC>CAC	p.R163H	BCL6B_uc010clt.1_Missense_Mutation_p.R163H	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	163	Pro-rich.					nucleus	zinc ion binding			skin(1)	1						AGTCCCAGGCGCTCCGAAGGA	0.632													15	53					0	0	0.00499	0	0		A	6927806	A	A	6927806	3	1	4	1	0	0	0	0	1	0	0	0	1378	1087	38	1	498	1	BCL6B	17	6927806	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	383274	6927806	74267404	3531	5497											
NEURL4	84461	broad.mit.edu	37	chr17	7226176	7226176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccatagagatcgactaccGcatacacctctggggaggag	11	6	13	11	2	1	1	0	0	1	1	2	5	1	3	3	4	2	1	3	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7226176G>A	uc002gga.1	-	16	2610	c.2603C>T	c.(2602-2604)GCG>GTG	p.A868V	NEURL4_uc002ggb.1_Missense_Mutation_p.A866V|NEURL4_uc002ggc.1_Missense_Mutation_p.A214V	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	868	NHR 4.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						ATCGACTACCGCATACACCTC	0.597													17	56					0	0	0.003954	0	0		A	7226176	A	A	7226176	3	1	4	1	0	0	0	0	1	0	0	0	10366	1087	38	1	2141	1	NEURL4	17	7226176	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	298370	7226176	73969034	3532	5498											
NEURL4	84461	broad.mit.edu	37	chr17	7228773	7228773	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccatacaccactgggggCgtcaagggggttgccactcc	9	6	12	14	1	1	0	1	0	0	0	2	0	2	0	4	4	2	1	4	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7228773C>T	uc002gga.1	-	8	1393	c.1386G>A	c.(1384-1386)ACG>ACA	p.T462T	NEURL4_uc002ggb.1_Silent_p.T462T|NEURL4_uc002ggc.1_5'UTR	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	462	NHR 2.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						CCACTGGGGGCGTCAAGGGGG	0.582													7	21					0	0	0.006214	0	0		T	7228773	T	T	7228773	2	4	4	1	0	0	0	0	0	0	0	1	10366	755	27	1		1	NEURL4	17	7228773	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2597	7228773	73966437	3533	5499											
CHRNB1	1140	broad.mit.edu	37	chr17	7350413	7350413	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attagcgtcgtggtgtcctcCgacggctccgtgcgttggca	4	11	14	12	6	0	0	0	0	0	0	4	1	3	0	3	3	2	3	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7350413C>T	uc002ghb.2	+	5	446	c.405C>T	c.(403-405)TCC>TCT	p.S135S	CHRNB1_uc010vty.1_Silent_p.S63S|CHRNB1_uc010vtz.1_5'UTR	NM_000747	NP_000738	P11230	ACHB_HUMAN	nicotinic acetylcholine receptor beta 1 subunit	135	Extracellular (Potential).				behavioral response to nicotine|muscle contraction|muscle fiber development|neuromuscular synaptic transmission|postsynaptic membrane organization|regulation of membrane potential|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine binding|receptor activity			ovary(2)	2		Prostate(122;0.157)				TGGTGTCCTCCGACGGCTCCG	0.502													11	25					0	0	0.001855	0	0		T	7350413	T	T	7350413	2	4	4	1	0	0	0	0	0	0	0	1	3393	639	23	1		1	CHRNB1	17	7350413	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	121640	7350413	73844797	3534	5500											
POLR2A	5430	broad.mit.edu	37	chr17	7401440	7401440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacagccagtacccaggcGccaagtacatcatccgagac	13	4	10	14	2	1	1	1	0	0	1	2	3	2	2	4	2	4	2	4	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7401440G>A	uc002ghf.3	+	8	1480	c.1246G>A	c.(1246-1248)GCC>ACC	p.A416T	POLR2A_uc002ghe.2_Missense_Mutation_p.A416T	NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	416					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				GTACCCAGGCGCCAAGTACAT	0.532													13	28					0	0	0.004007	0	0		A	7401440	A	A	7401440	3	1	4	1	0	0	0	0	1	0	0	0	12233	1087	38	1	1276	1	POLR2A	17	7401440	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	51027	7401440	73793770	3535	5501											
POLR2A	5430	broad.mit.edu	37	chr17	7406984	7406984	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcccaggaaaatgccacGctgctcttcaacatccacct	11	7	7	16	1	2	0	1	0	1	0	3	1	3	1	4	2	3	2	4	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7406984G>A	uc002ghf.3	+	19	3348	c.3114G>A	c.(3112-3114)ACG>ACA	p.T1038T		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1038					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				AAAATGCCACGCTGCTCTTCA	0.562													4	34					0	0	0.001168	0	0		A	7406984	A	A	7406984	2	1	4	1	0	0	0	0	0	0	0	1	12233	1074	38	1		1	POLR2A	17	7406984	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5544	7406984	73788226	3536	5502											
TP53	7157	broad.mit.edu	37	chr17	7577548	7577548	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgggcctccggttcatgcCgcccatgcaggaactgttac	7	9	12	13	2	1	0	1	0	0	0	2	2	2	1	4	3	4	3	4	3	2	2	rs28934575		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7577548C>G	uc002gim.2	-	7	927	c.733G>C	c.(733-735)GGC>CGC	p.G245R	TP53_uc002gig.1_Missense_Mutation_p.G245R|TP53_uc002gih.2_Missense_Mutation_p.G245R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G113R|TP53_uc010cng.1_Missense_Mutation_p.G113R|TP53_uc002gii.1_Missense_Mutation_p.G113R|TP53_uc010cnh.1_Missense_Mutation_p.G245R|TP53_uc010cni.1_Missense_Mutation_p.G245R|TP53_uc002gij.2_Missense_Mutation_p.G245R|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.G152R|TP53_uc002gio.2_Missense_Mutation_p.G113R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	245	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		G -> N (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> A (in sporadic cancers; somatic mutation).|G -> V (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> R (in sporadic cancers; somatic mutation).|G -> E (in a sporadic cancer; somatic mutation).|G -> D (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> H (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|G -> L (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G245S(274)|p.G245D(93)|p.G245V(50)|p.G245C(47)|p.G245R(10)|p.G245A(8)|p.0?(7)|p.G245G(3)|p.G245fs*2(3)|p.G245N(2)|p.G245H(1)|p.G245L(1)|p.G244fs*17(1)|p.G245F(1)|p.G245E(1)|p.C242_M246>L(1)|p.C238_M246delCNSSCMGGM(1)|p.S241_G245delSCMGG(1)|p.C242fs*98(1)|p.G245fs*22(1)|p.M243fs*18(1)|p.G245del(1)|p.G245fs*14(1)|p.G245fs*17(1)|p.G245fs*16(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CGGTTCATGCCGCCCATGCAG	0.577	G245S(SKLMS1_SOFT_TISSUE)|G245S(LS1034_LARGE_INTESTINE)|G245S(NUGC2_STOMACH)|G245S(PANC0403_PANCREAS)|G245S(SKMEL2_SKIN)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			12	31					0	0	0.001855	0	0		G	7577548	G	G	7577548	3	3	4	1	0	0	0	0	1	0	0	0	16407	652	23	5	557	5	TP53	17	7577548	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	170564	7577548	73617662	3537	5503											
WRAP53	55135	broad.mit.edu	37	chr17	7604990	7604990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggatgagctgacggcaGcccattcgctctgcttctcc	6	9	10	16	2	2	2	0	2	2	0	4	3	2	3	3	2	3	4	3	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7604990G>A	uc010vuh.1	+	7	993	c.838G>A	c.(838-840)GCC>ACC	p.A280T	WRAP53_uc010vui.1_Missense_Mutation_p.A280T|WRAP53_uc002gip.2_Missense_Mutation_p.A280T|WRAP53_uc002gir.2_Missense_Mutation_p.A280T|WRAP53_uc002giq.2_RNA|WRAP53_uc010cnl.2_Missense_Mutation_p.A247T|WRAP53_uc010vuj.1_Missense_Mutation_p.A61T	NM_001143990	NP_001137462	Q9BUR4	WAP53_HUMAN	WD repeat domain 79 isoform 2	280	WD 3.				positive regulation of telomerase activity|telomere formation via telomerase	Cajal body|cytoplasm|telomerase holoenzyme complex	protein binding|RNA binding				0						GCTGACGGCAGCCCATTCGCT	0.617													5	65					0	0	0.001168	0	0		A	7604990	A	A	7604990	3	1	4	1	0	0	0	0	1	0	0	0	17426	971	34	2	860	2	WRAP53	17	7604990	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	27442	7604990	73590220	3538	5504											
DNAH2	146754	broad.mit.edu	37	chr17	7646274	7646274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtgctcatttcctgccccGtattgggactggaaaggaga	8	11	13	9	1	1	1	1	0	0	1	2	4	2	3	3	4	2	2	3	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7646274G>A	uc002giu.1	+	11	1732	c.1718G>A	c.(1717-1719)CGT>CAT	p.R573H	DNAH2_uc002git.2_Missense_Mutation_p.R655H|DNAH2_uc010vuk.1_Missense_Mutation_p.R573H	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	573	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TTCCTGCCCCGTATTGGGACT	0.562													9	31					0	0	0.006214	0	0		A	7646274	A	A	7646274	3	1	4	1	0	0	0	0	1	0	0	0	4608	1145	40	1	1760	1	DNAH2	17	7646274	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	41284	7646274	73548936	3539	5505											
DNAH2	146754	broad.mit.edu	37	chr17	7661926	7661926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcactgggccttgaagggggCcagtgccttcttcatcacgg	6	9	14	12	1	3	1	2	1	1	0	3	1	3	1	3	4	1	1	3	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7661926C>T	uc002giu.1	+	13	2179	c.2165C>T	c.(2164-2166)GCC>GTC	p.A722V		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	722	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TTGAAGGGGGCCAGTGCCTTC	0.542													17	68					0	0	0.006122	0	0		T	7661926	T	T	7661926	3	4	4	1	0	0	0	0	1	0	0	0	4608	739	26	2	2215	2	DNAH2	17	7661926	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	15652	7661926	73533284	3540	5506											
KDM6B	23135	broad.mit.edu	37	chr17	7751760	7751760	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaacaacacgaagcaggCgtggccccccaacccccgct	11	2	9	19	3	0	0	0	0	0	0	0	1	0	0	5	2	5	3	5	2	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7751760C>T	uc002giw.1	+	11	2530	c.2154C>T	c.(2152-2154)GGC>GGT	p.G718G	KDM6B_uc002gix.2_Silent_p.G20G	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	718	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						ACGAAGCAGGCGTGGCCCCCC	0.577													15	53					0	0	0.00245	0	0		T	7751760	T	T	7751760	2	4	4	1	0	0	0	0	0	0	0	1	8154	755	27	1		1	KDM6B	17	7751760	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	89834	7751760	73443450	3541	5507											
CHD3	1107	broad.mit.edu	37	chr17	7812021	7812021	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcattggtagccatggCtatgcacggtggcaggacat	8	11	12	10	1	1	0	1	0	0	0	2	1	2	1	2	5	2	4	2	5	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7812021C>T	uc002gje.2	+	36	5418	c.5268C>T	c.(5266-5268)GGC>GGT	p.G1756G	CHD3_uc002gjd.2_Silent_p.G1815G|CHD3_uc002gjf.2_Silent_p.G1722G|CHD3_uc002gjh.2_Silent_p.G333G|CHD3_uc002gjj.2_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1756	Required for interaction with PCNT.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GTAGCCATGGCTATGCACGGT	0.438													14	171					0	0	0.006122	0	0		T	7812021	T	T	7812021	2	4	4	1	0	0	0	0	0	0	0	1	3329	784	28	2		2	CHD3	17	7812021	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	60261	7812021	73383189	3542	5508											
KCNAB3	9196	broad.mit.edu	37	chr17	7826435	7826435	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagactacttcttggaatgCggcttgtttcccaggagccc	8	11	10	12	1	1	1	0	0	1	1	2	3	2	3	2	3	3	2	2	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7826435C>T	uc002gjm.1	-	14	1200	c.1200G>A	c.(1198-1200)CCG>CCA	p.P400P	KCNAB3_uc010vul.1_RNA	NM_004732	NP_004723	O43448	KCAB3_HUMAN	potassium voltage-gated channel, shaker-related	400						cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(1)	1		Prostate(122;0.157)				TCTTGGAATGCGGCTTGTTTC	0.677													7	20					0	0	0.00245	0	0		T	7826435	T	T	7826435	2	4	4	1	0	0	0	0	0	0	0	1	8027	755	27	1		1	KCNAB3	17	7826435	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	14414	7826435	73368775	3543	5509											
C17orf68	80169	broad.mit.edu	37	chr17	8141902	8141902	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccacgacaggtggctgcaGcatgggagacgctggtgagt	8	7	16	10	2	0	2	0	1	0	1	1	4	1	2	1	4	2	4	1	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:8141902G>A	uc002gkq.3	-	3	302	c.243C>T	c.(241-243)TGC>TGT	p.C81C	C17orf68_uc010cnv.2_RNA	NM_025099	NP_079375	Q2NKJ3	CTC1_HUMAN	alpha accessory factor 132	81					positive regulation of DNA replication|telomere maintenance	Stn1-Ten1 complex	protein binding|single-stranded DNA binding				0						GGTGGCTGCAGCATGGGAGAC	0.577													18	41					0	0	0.003954	0	0		A	8141902	A	A	8141902	2	1	4	1	0	0	0	0	0	0	0	1	1879	963	34	2		2	C17orf68	17	8141902	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	315467	8141902	73053308	3544	5510											
MYH10	4628	broad.mit.edu	37	chr17	8526285	8526285	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcttcattcaagcatgTcaattctgccatatcctcca	11	12	6	12	0	4	0	3	0	1	0	6	1	6	1	3	1	3	2	3	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:8526285T>C	uc002gll.2	-	2	376	c.280A>G	c.(280-282)ACA>GCA	p.T94A	MYH10_uc002glm.2_Missense_Mutation_p.T94A|MYH10_uc010cnx.2_Missense_Mutation_p.T94A	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	94	Myosin head-like.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TTCAAGCATGTCAATTCTGCC	0.383													41	96					0	0	0.00623	0	0		C	8526285	C	C	8526285	3	2	4	1	0	0	0	0	1	0	0	0	10048	1667	58	3	5810	3	MYH10	17	8526285	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	384383	8526285	72668925	3545	5511											
PIK3R5	23533	broad.mit.edu	37	chr17	8789551	8789551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggcagtacccacctgacGccttgatggcacgtgtggca	8	8	12	13	2	1	2	1	2	0	0	1	2	1	2	3	3	1	4	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:8789551G>A	uc002glt.2	-	14	2190	c.2123C>T	c.(2122-2124)GCG>GTG	p.A708V	PIK3R5_uc010vuz.1_Missense_Mutation_p.A708V|PIK3R5_uc002glu.3_Missense_Mutation_p.A322V	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	708	Interaction with G beta gamma proteins (By similarity).				platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						CCCACCTGACGCCTTGATGGC	0.627													9	17					0	0	0.006214	0	0		A	8789551	A	A	8789551	3	1	4	1	0	0	0	0	1	0	0	0	11941	1087	38	1	543	1	PIK3R5	17	8789551	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	263266	8789551	72405659	3546	5512											
PIK3R5	23533	broad.mit.edu	37	chr17	8791611	8791611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggcggcggcgctgggggCgtgaagcaggggccagaagc	7	2	23	9	4	0	2	0	1	0	1	0	2	0	2	1	8	2	2	1	8	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:8791611C>T	uc002glt.2	-	10	1560	c.1493G>A	c.(1492-1494)CGC>CAC	p.R498H	PIK3R5_uc010vuz.1_Missense_Mutation_p.R498H|PIK3R5_uc002glu.3_Missense_Mutation_p.R112H|PIK3R5_uc010coa.1_3'UTR|PIK3R5_uc010cob.1_Missense_Mutation_p.R112H	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	498					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						GCGCTGGGGGCGTGAAGCAGG	0.657													9	15					0	0	0.006214	0	0		T	8791611	T	T	8791611	3	4	4	1	0	0	0	0	1	0	0	0	11941	768	27	1	1189	1	PIK3R5	17	8791611	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2060	8791611	72403599	3547	5513											
NTN1	9423	broad.mit.edu	37	chr17	8926018	8926018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccgcccgccttcctcaccGacctcaacaacccgcacaac	10	4	4	23	4	2	0	2	0	0	0	3	1	3	0	7	0	3	1	7	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:8926018G>A	uc002glw.3	+	2	435	c.328G>A	c.(328-330)GAC>AAC	p.D110N		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	110	Laminin N-terminal.				apoptosis|axon guidance		protein binding				0						CTTCCTCACCGACCTCAACAA	0.652													5	12					0	0	0.001168	0	0		A	8926018	A	A	8926018	3	1	4	1	0	0	0	0	1	0	0	0	10719	1058	37	1	330	1	NTN1	17	8926018	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	134407	8926018	72269192	3548	5514											
USP43	124739	broad.mit.edu	37	chr17	9559771	9559771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcaattcccagcacgacGccctggaattcctgctctgg	9	8	10	14	2	1	0	0	0	1	0	3	2	3	1	3	3	2	3	3	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:9559771G>A	uc010cod.2	+	2	556	c.556G>A	c.(556-558)GCC>ACC	p.A186T	USP43_uc002gma.3_5'UTR|USP43_uc010vva.1_Missense_Mutation_p.A186T|USP43_uc010coe.2_Silent_p.T17T	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	ubiquitin specific protease 43	186					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CCAGCACGACGCCCTGGAATT	0.517													7	16					0	0	0.00308	0	0		A	9559771	A	A	9559771	3	1	4	1	0	0	0	0	1	0	0	0	17100	1087	38	1	562	1	USP43	17	9559771	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	633753	9559771	71635439	3549	5515											
DHRS7C	201140	broad.mit.edu	37	chr17	9674988	9674988	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacctctactgggtgcacGccgtaggtcagcttcctgaa	7	9	11	14	2	2	1	1	1	1	0	3	1	3	1	4	2	3	3	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:9674988G>A	uc010vvb.1	-	6	756	c.756C>T	c.(754-756)GGC>GGT	p.G252G	DHRS7C_uc010cof.2_Silent_p.G251G	NM_001105571	NP_001099041	A6NNS2	DRS7C_HUMAN	dehydrogenase/reductase (SDR family) member 7C	252						extracellular region	binding|oxidoreductase activity				0						CTGGGTGCACGCCGTAGGTCA	0.627													9	7					0	0	0.000978	0	0		A	9674988	A	A	9674988	2	1	4	1	0	0	0	0	0	0	0	1	4503	1074	38	1		1	DHRS7C	17	9674988	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	115217	9674988	71520222	3550	5516											
GLP2R	9340	broad.mit.edu	37	chr17	9739794	9739794	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaccttggtggagtgaaggTaataagtcttatttttacca	11	16	9	5	0	1	1	0	1	1	0	1	2	1	2	2	3	2	1	2	3	6	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:9739794T>C	uc002gmd.1	+	3	382	c.382_splice	c.e3+2	p.E128_splice	GLP2R_uc010cog.1_Splice_Site	NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor						G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	GGAGTGAAGGTAATAAGTCTT	0.438													23	73					0	0	0.002299	0	0		C	9739794	C	C	9739794	5	2	4	1	0	0	0	0	0	0	1	0	6468	1652	57	3	394	3	GLP2R	17	9739794	Splice_Site	SNP	T	TCGA-BR-4184-01A-01D-1126-08	64806	9739794	71455416	3551	5517											
GAS7	8522	broad.mit.edu	37	chr17	9828828	9828828	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccgcgccttcttgatgTcctcctctgtcttgttgctc	1	18	7	15	2	4	1	0	1	4	0	8	1	6	1	4	0	1	2	4	0	0	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:9828828T>C	uc002gmg.1	-	11	1264	c.1103A>G	c.(1102-1104)GAC>GGC	p.D368G	GAS7_uc010vvc.1_Missense_Mutation_p.D182G|GAS7_uc002gmh.1_Missense_Mutation_p.D228G|GAS7_uc010vvd.1_Missense_Mutation_p.D320G|GAS7_uc002gmi.2_Missense_Mutation_p.D304G|GAS7_uc002gmj.1_Missense_Mutation_p.D308G|GAS7_uc010coh.1_Missense_Mutation_p.D308G	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	368	Potential.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						CTTCTTGATGTCCTCCTCTGT	0.612			T	MLL	AML*						OREG0024170	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	90					0	0	0.009096	0	0		C	9828828	C	C	9828828	3	2	4	1	0	0	0	0	1	0	0	0	6265	1667	58	3	343	3	GAS7	17	9828828	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	89034	9828828	71366382	3552	5518											
MYH13	8735	broad.mit.edu	37	chr17	10231321	10231321	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcatggtggccatctcCttctcggcctctgcactctt	3	15	7	16	1	5	0	1	0	4	0	8	0	6	0	4	3	1	1	4	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10231321C>A	uc002gmk.1	-	22	2643	c.2553G>T	c.(2551-2553)AAG>AAT	p.K851N		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	851	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TGGCCATCTCCTTCTCGGCCT	0.537											OREG0024177	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	40					0.00116845	0.00121571	0.001168	1	0		A	10231321	A	A	10231321	3	1	4	1	0	0	0	0	1	0	0	0	10050	680	24	5	3343	5	MYH13	17	10231321	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	402493	10231321	70963889	3553	5519											
MYH4	4622	broad.mit.edu	37	chr17	10353795	10353795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctccagctcctctgtgcGctggatggcgtccgtctcgt	2	12	11	16	4	2	0	0	0	2	0	7	1	6	1	4	2	2	2	4	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10353795G>A	uc002gmn.2	-	30	4267	c.4156C>T	c.(4156-4158)CGC>TGC	p.R1386C	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1386	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TCCTCTGTGCGCTGGATGGCG	0.527													26	96					0	0	0.002836	0	0		A	10353795	A	A	10353795	3	1	4	1	0	0	0	0	1	0	0	0	10055	1087	38	1	1707	1	MYH4	17	10353795	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	122474	10353795	70841415	3554	5520											
MYH4	4622	broad.mit.edu	37	chr17	10364241	10364241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agggggtggtaccttccgtgCcatctggctctgcctgctct	3	12	13	13	1	3	0	0	0	3	0	4	0	4	0	4	4	4	3	4	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10364241C>T	uc002gmn.2	-	12	1250	c.1139G>A	c.(1138-1140)GGC>GAC	p.G380D	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	380	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						ACCTTCCGTGCCATCTGGCTC	0.478													5	92					0	0	0.001168	0	0		T	10364241	T	T	10364241	3	4	4	1	0	0	0	0	1	0	0	0	10055	739	26	2	4796	2	MYH4	17	10364241	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10446	10364241	70830969	3555	5521											
MYH2	4620	broad.mit.edu	37	chr17	10438444	10438444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaatcctttcctacagatgCggatgccttccagcacaccg	10	9	8	14	2	0	1	0	0	0	1	3	3	3	2	5	1	4	1	5	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10438444C>T	uc010coi.2	-	19	2254	c.2126G>A	c.(2125-2127)CGC>CAC	p.R709H	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.R709H|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	709	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle	p.R709C(1)		ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CCTACAGATGCGGATGCCTTC	0.433													20	72					0	0	0.001882	0	0		T	10438444	T	T	10438444	3	4	4	1	0	0	0	0	1	0	0	0	10053	768	27	1	3787	1	MYH2	17	10438444	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	74203	10438444	70756766	3556	5522											
MYH2	4620	broad.mit.edu	37	chr17	10442798	10442798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttggtgacatactcattgCcgaccttgaccctggggtag	7	12	11	11	1	1	2	1	2	0	0	1	3	1	2	3	3	2	1	3	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10442798C>T	uc010coi.2	-	13	1357	c.1229G>A	c.(1228-1230)GGC>GAC	p.G410D	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.G410D|MYH2_uc010coj.2_Missense_Mutation_p.G410D	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	410	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						ATACTCATTGCCGACCTTGAC	0.453													31	139					0	0	0.002096	0	0		T	10442798	T	T	10442798	3	4	4	1	0	0	0	0	1	0	0	0	10053	739	26	2	4708	2	MYH2	17	10442798	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4354	10442798	70752412	3557	5523											
MYH3	4621	broad.mit.edu	37	chr17	10532947	10532947	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagtctcgagtcttagcgcgGagcttgttgacttgagattc	8	13	12	8	3	2	2	0	2	2	1	4	5	2	3	0	1	2	2	0	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10532947G>T	uc002gmq.1	-	39	5840	c.5763C>A	c.(5761-5763)CTC>CTA	p.L1921L		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1921	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TCTTAGCGCGGAGCTTGTTGA	0.517													5	46					1.23904e-05	1.30714e-05	0.000602	1	0		T	10532947	T	T	10532947	2	4	4	1	0	0	0	0	0	0	0	1	10054	1161	41	5		5	MYH3	17	10532947	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	90149	10532947	70662263	3558	5524											
MYH3	4621	broad.mit.edu	37	chr17	10554850	10554850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagcatgaactgataggCgttgtcagagatggagaaga	14	8	14	5	1	2	5	2	2	0	3	2	7	2	5	0	2	2	2	0	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10554850C>T	uc002gmq.1	-	4	561	c.484G>A	c.(484-486)GCC>ACC	p.A162T		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	162	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						AACTGATAGGCGTTGTCAGAG	0.597													16	161					0	0	0.010504	0	0		T	10554850	T	T	10554850	3	4	4	1	0	0	0	0	1	0	0	0	10054	768	27	1	5486	1	MYH3	17	10554850	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	21903	10554850	70640360	3559	5525											
MYOCD	93649	broad.mit.edu	37	chr17	12656117	12656117	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagcagcctgaatgggggCtctgttccttctgagctgga	7	11	14	9	0	2	3	0	3	2	0	3	4	3	4	2	3	3	4	2	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:12656117C>T	uc002gnn.2	+	10	1811	c.1512C>T	c.(1510-1512)GGC>GGT	p.G504G	MYOCD_uc002gno.2_Silent_p.G504G|MYOCD_uc002gnp.1_Silent_p.G408G|MYOCD_uc002gnq.2_Silent_p.G223G	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	504	Ser-rich.				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		TGAATGGGGGCTCTGTTCCTT	0.577													4	23					0	0	0.009096	0	0		T	12656117	T	T	12656117	2	4	4	1	0	0	0	0	0	0	0	1	10105	784	28	2		2	MYOCD	17	12656117	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2101267	12656117	68539093	3560	5526											
MYOCD	93649	broad.mit.edu	37	chr17	12666430	12666430	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggatcactcatgtcttcaAaaagtcccaaagatacccag	15	8	7	11	0	4	1	3	0	1	1	5	3	5	2	2	1	1	0	2	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:12666430A>G	uc002gnn.2	+	13	2585	c.2286A>G	c.(2284-2286)CAA>CAG	p.Q762Q	MYOCD_uc002gno.2_Silent_p.Q810Q|MYOCD_uc002gnq.2_Silent_p.Q486Q	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	762					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CATGTCTTCAAAAAGTCCCAA	0.483													30	79					0	0	0.004289	0	0		G	12666430	G	G	12666430	2	3	4	1	0	0	0	0	0	0	0	1	10105	11	1	3		3	MYOCD	17	12666430	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	10313	12666430	68528780	3561	5527											
TRIM16	10626	broad.mit.edu	37	chr17	15532000	15532000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatctacaatccggatggCgttttccttcttggaaagcc	9	12	9	11	2	2	1	0	0	2	1	4	3	4	3	3	3	2	1	3	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:15532000C>T	uc002gox.2	-	9	2181	c.1624G>A	c.(1624-1626)GCC>ACC	p.A542T	TRIM16_uc002gor.1_Intron|TRIM16_uc002gow.2_Missense_Mutation_p.A326T|TRIM16_uc002goy.2_Missense_Mutation_p.A412T	NM_006470	NP_006461	O95361	TRI16_HUMAN	tripartite motif-containing 16	542	B30.2/SPRY.				histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		ATCCGGATGGCGTTTTCCTTC	0.517													5	31					0	0	0.001984	0	0		T	15532000	T	T	15532000	3	4	4	1	0	0	0	0	1	0	0	0	16517	768	27	1	74	1	TRIM16	17	15532000	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2865570	15532000	65663210	3562	5528											
NCOR1	9611	broad.mit.edu	37	chr17	15961846	15961846	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtttctcctggggtggCgcaggtgagctggcaggact	5	10	17	9	1	1	1	0	1	1	0	2	2	1	2	1	6	2	5	1	6	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:15961846C>T	uc002gpo.2	-	38	6189	c.5949G>A	c.(5947-5949)GCG>GCA	p.A1983A	NCOR1_uc002gpn.2_Silent_p.A1880A|NCOR1_uc002gpl.2_5'Flank|NCOR1_uc002gpm.2_Silent_p.A503A|NCOR1_uc010vwb.1_Silent_p.A567A|NCOR1_uc010coy.2_Silent_p.A891A|NCOR1_uc010vwc.1_Silent_p.A793A	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1983	Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CCTGGGGTGGCGCAGGTGAGC	0.403													32	83					0	0	0.003271	0	0		T	15961846	T	T	15961846	2	4	4	1	0	0	0	0	0	0	0	1	10254	755	27	1		1	NCOR1	17	15961846	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	429846	15961846	65233364	3563	5529											
NCOR1	9611	broad.mit.edu	37	chr17	15968937	15968937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtcttgtgttctccattgCgtaaagctgatactgacttg	7	16	9	9	1	2	2	0	2	2	0	3	2	2	2	1	0	3	3	1	0	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:15968937C>T	uc002gpo.2	-	33	5053	c.4813G>A	c.(4813-4815)GCA>ACA	p.A1605T	NCOR1_uc002gpn.2_Missense_Mutation_p.A1621T|NCOR1_uc002gpm.2_Missense_Mutation_p.A125T|NCOR1_uc010vwb.1_Missense_Mutation_p.A189T|NCOR1_uc010coy.2_Missense_Mutation_p.A513T|NCOR1_uc010vwc.1_Missense_Mutation_p.A415T	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1605	Interaction with ETO.|Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		TTCTCCATTGCGTAAAGCTGA	0.463													9	58					0	0	0.008291	0	0		T	15968937	T	T	15968937	3	4	4	1	0	0	0	0	1	0	0	0	10254	768	27	1	2565	1	NCOR1	17	15968937	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7091	15968937	65226273	3564	5530											
NCOR1	9611	broad.mit.edu	37	chr17	15974755	15974755	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctcaattatcggccgtgTgctctggaccacttctggag	7	11	10	13	2	3	0	1	0	2	0	4	2	3	2	3	3	1	1	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:15974755T>C	uc002gpo.2	-	30	4360	c.4120A>G	c.(4120-4122)ACA>GCA	p.T1374A	NCOR1_uc002gpn.2_Missense_Mutation_p.T1390A|NCOR1_uc002gpp.1_Missense_Mutation_p.T1281A|NCOR1_uc010vwb.1_Intron|NCOR1_uc010coy.2_Missense_Mutation_p.T282A|NCOR1_uc010vwc.1_Missense_Mutation_p.T185A	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1374	Interaction with ETO.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		ATCGGCCGTGTGCTCTGGACC	0.403													30	118					0	0	0.003755	0	0		C	15974755	C	C	15974755	3	2	4	1	0	0	0	0	1	0	0	0	10254	1696	59	3	3270	3	NCOR1	17	15974755	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	5818	15974755	65220455	3565	5531											
ZNF624	57547	broad.mit.edu	37	chr17	16538059	16538059	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatagccacatccttaaaTgtcaccgattcctaaaacaa	15	11	3	12	1	2	0	1	0	1	0	4	1	4	0	4	0	2	0	4	0	7	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:16538059T>C	uc010cpi.1	-	4	248	c.165A>G	c.(163-165)ACA>ACG	p.T55T		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	55	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CATCCTTAAATGTCACCGATT	0.408													4	63					0	0	0.001168	0	0		C	16538059	C	C	16538059	2	2	4	1	0	0	0	0	0	0	0	1	18073	1451	51	3		3	ZNF624	17	16538059	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	563304	16538059	64657151	3566	5532											
MPRIP	23164	broad.mit.edu	37	chr17	17062260	17062260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccccgtccacctgtcttctGaagatgggggtgaccggctc	5	9	12	15	2	2	3	0	2	2	1	4	3	3	3	5	3	0	1	5	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:17062260G>A	uc002gqu.1	+	14	2046	c.1990G>A	c.(1990-1992)GAA>AAA	p.E664K	MPRIP_uc002gqv.1_Missense_Mutation_p.E664K|MPRIP_uc002gqw.1_Missense_Mutation_p.E419K	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	664	Interaction with RHOA.					cytoplasm|cytoskeleton	actin binding				0						CCTGTCTTCTGAAGATGGGGG	0.612													5	18					0	0	0.000602	0	0		A	17062260	A	A	17062260	3	1	4	1	0	0	0	0	1	0	0	0	9761	1291	45	4	2044	4	MPRIP	17	17062260	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	524201	17062260	64132950	3567	5533											
TOM1L2	146691	broad.mit.edu	37	chr17	17766053	17766053	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccacatacgtcttgcgCtgctcagccaaggagtttcc	7	9	10	15	2	2	0	1	0	1	0	3	1	3	1	4	2	4	3	4	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:17766053C>T	uc002grz.3	-	11	1351	c.1194G>A	c.(1192-1194)CAG>CAA	p.Q398Q	TOM1L2_uc002gry.3_Silent_p.Q348Q|TOM1L2_uc010vwy.1_Silent_p.Q345Q|TOM1L2_uc010cpr.2_Silent_p.Q353Q|TOM1L2_uc010vwz.1_Silent_p.Q250Q|TOM1L2_uc010vxa.1_Silent_p.Q300Q|TOM1L2_uc002grv.3_Silent_p.Q131Q	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	398					intracellular protein transport	intracellular					0	all_neural(463;0.228)					ACGTCTTGCGCTGCTCAGCCA	0.527													57	156					0	0	0.00361	0	0		T	17766053	T	T	17766053	2	4	4	1	0	0	0	0	0	0	0	1	16378	796	28	2		2	TOM1L2	17	17766053	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	703793	17766053	63429157	3568	5534											
MYO15A	51168	broad.mit.edu	37	chr17	18023355	18023355	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcctttgtgtacccctgggTaccaccgcccatcccgtcgc	4	9	10	18	3	0	0	0	0	0	0	2	0	1	0	7	2	2	2	7	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18023355T>C	uc010vxh.1	+	2	1579	c.1241T>C	c.(1240-1242)GTA>GCA	p.V414A		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	414	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					TACCCCTGGGTACCACCGCCC	0.662													5	19					0	0	0.000602	0	0		C	18023355	C	C	18023355	3	2	4	1	0	0	0	0	1	0	0	0	10081	1638	57	3	1243	3	MYO15A	17	18023355	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	257302	18023355	63171855	3569	5535											
MYO15A	51168	broad.mit.edu	37	chr17	18039937	18039937	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctcatcaccagggtcaaCgcgctggtgtccccaaggca	8	7	12	14	2	3	0	3	0	0	0	4	0	4	0	3	4	1	3	3	4	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18039937C>T	uc010vxh.1	+	14	5054	c.4716C>T	c.(4714-4716)AAC>AAT	p.N1572N		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1572	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCAGGGTCAACGCGCTGGTGT	0.617													5	23					0	0	0.00308	0	0		T	18039937	T	T	18039937	2	4	4	1	0	0	0	0	0	0	0	1	10081	535	19	1		1	MYO15A	17	18039937	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	16582	18039937	63155273	3570	5536											
MYO15A	51168	broad.mit.edu	37	chr17	18054496	18054496	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaacccgtgctcctgcgtGccactccaaagcccttggcc	7	7	8	19	2	0	0	0	0	0	0	2	0	2	0	7	1	5	1	7	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18054496G>T	uc010vxh.1	+	38	7884	c.7546G>T	c.(7546-7548)GCC>TCC	p.A2516S	MYO15A_uc010vxi.1_5'Flank|MYO15A_uc010vxj.1_5'Flank|MYO15A_uc010vxk.1_5'Flank	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	2516	Tail.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GCTCCTGCGTGCCACTCCAAA	0.652													5	38					0.000602214	0.000627828	0.000602	1	0		T	18054496	T	T	18054496	3	4	4	1	0	0	0	0	1	0	0	0	10081	1319	46	5	7692	5	MYO15A	17	18054496	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	14559	18054496	63140714	3571	5537											
TOP3A	7156	broad.mit.edu	37	chr17	18205934	18205934	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcctcacatccacagcatcGctcaccctctgatcaggctc	8	9	6	18	1	4	1	3	1	1	0	7	1	5	1	3	1	2	3	3	1	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18205934G>A	uc002gsx.1	-	6	832	c.603C>T	c.(601-603)AGC>AGT	p.S201S	TOP3A_uc010vxr.1_5'Flank|TOP3A_uc002gsw.1_5'UTR|TOP3A_uc010vxs.1_Silent_p.S99S|TOP3A_uc010cqa.1_RNA	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	201					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						CCACAGCATCGCTCACCCTCT	0.547													12	36					0	0	0.00245	0	0		A	18205934	A	A	18205934	2	1	4	1	0	0	0	0	0	0	0	1	16393	1078	38	1		1	TOP3A	17	18205934	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	151438	18205934	62989276	3572	5538											
FBXW10	10517	broad.mit.edu	37	chr17	18668087	18668087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaaagtggggtttgcacacGaatcttcggtggtcaccagg	10	9	14	8	2	2	0	1	0	1	0	3	2	2	0	1	5	1	2	1	5	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18668087G>A	uc002guk.2	+	8	1698	c.1466G>A	c.(1465-1467)CGA>CAA	p.R489Q	FBXW10_uc002guj.2_Missense_Mutation_p.R489Q|FBXW10_uc002gul.2_Missense_Mutation_p.R518Q|FBXW10_uc010cqh.1_Missense_Mutation_p.R489Q	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	489	WD 3.									ovary(1)	1						GTTTGCACACGAATCTTCGGT	0.493													22	65					0	0	0.003954	0	0		A	18668087	A	A	18668087	3	1	4	1	0	0	0	0	1	0	0	0	5777	1058	37	1	1496	1	FBXW10	17	18668087	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	462153	18668087	62527123	3573	5539											
PRPSAP2	5636	broad.mit.edu	37	chr17	18770597	18770597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccctttctcttctctaggcGgctaggggtggagatgggca	5	11	14	11	1	2	1	0	0	2	1	4	2	2	1	2	6	0	2	2	6	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18770597G>A	uc002gup.1	+	4	333	c.122G>A	c.(121-123)CGG>CAG	p.R41Q	PRPSAP2_uc002guo.1_Intron|PRPSAP2_uc010vyi.1_Intron|PRPSAP2_uc010vyj.1_Intron|PRPSAP2_uc010vyk.1_Missense_Mutation_p.R29Q	NM_002767	NP_002758	O60256	KPRB_HUMAN	phosphoribosyl pyrophosphate	41					nucleotide biosynthetic process		enzyme inhibitor activity|magnesium ion binding|ribose phosphate diphosphokinase activity			skin(1)	1						TTCTCTAGGCGGCTAGGGGTG	0.418													4	25					0	0	0.000602	0	0		A	18770597	A	A	18770597	3	1	4	1	0	0	0	0	1	0	0	0	12604	1116	39	1	128	1	PRPSAP2	17	18770597	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	102510	18770597	62424613	3574	5540											
PRPSAP2	5636	broad.mit.edu	37	chr17	18781095	18781095	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagcatcattggcgtgatAccctactttccttacagcaa	12	11	7	11	1	1	2	1	1	0	1	2	2	2	2	2	1	5	2	2	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18781095A>G	uc002gup.1	+	6	535	c.324A>G	c.(322-324)ATA>ATG	p.I108M	PRPSAP2_uc002guo.1_Missense_Mutation_p.I22M|PRPSAP2_uc010vyi.1_Missense_Mutation_p.I56M|PRPSAP2_uc010vyj.1_Missense_Mutation_p.I22M|PRPSAP2_uc010vyk.1_Missense_Mutation_p.I96M	NM_002767	NP_002758	O60256	KPRB_HUMAN	phosphoribosyl pyrophosphate	108					nucleotide biosynthetic process		enzyme inhibitor activity|magnesium ion binding|ribose phosphate diphosphokinase activity			skin(1)	1						TTGGCGTGATACCCTACTTTC	0.463													26	87					0	0	0.007291	0	0		G	18781095	G	G	18781095	3	3	4	1	0	0	0	0	1	0	0	0	12604	381	14	3	338	3	PRPSAP2	17	18781095	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	10498	18781095	62414115	3575	5541											
MAPK7	5598	broad.mit.edu	37	chr17	19283208	19283208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaacacgacaacatcatcGccatcaaggacatcctgagg	15	7	7	12	2	2	1	2	1	0	0	4	3	3	2	2	2	2	0	2	2	4	1	rs147142467	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:19283208G>A	uc002gvn.2	+	3	732	c.346G>A	c.(346-348)GCC>ACC	p.A116T	B9D1_uc010cqm.1_5'Flank|B9D1_uc002gvl.3_5'Flank|MAPK7_uc002gvo.2_Intron|MAPK7_uc002gvq.2_Missense_Mutation_p.A116T|MAPK7_uc002gvp.2_Missense_Mutation_p.A116T	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	116	Required for binding to MAP2K5 (By similarity).|Protein kinase.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					CAACATCATCGCCATCAAGGA	0.512													10	86					0	0	0.006214	0	0		A	19283208	A	A	19283208	3	1	4	1	0	0	0	0	1	0	0	0	9300	1087	38	1	352	1	MAPK7	17	19283208	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	502113	19283208	61912002	3576	5542											
MAPK7	5598	broad.mit.edu	37	chr17	19284190	19284190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcatgactgagtatgtggCcacgcgctggtaccgtgcgc	6	10	13	12	4	1	2	1	2	0	0	1	2	1	2	2	2	2	3	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:19284190C>T	uc002gvn.2	+	4	1054	c.668C>T	c.(667-669)GCC>GTC	p.A223V	B9D1_uc010cqm.1_5'Flank|B9D1_uc002gvl.3_5'Flank|MAPK7_uc002gvo.2_Missense_Mutation_p.A84V|MAPK7_uc002gvq.2_Missense_Mutation_p.A223V|MAPK7_uc002gvp.2_Missense_Mutation_p.A223V	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	223	Necessary for oligomerization (By similarity).|Protein kinase.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					GAGTATGTGGCCACGCGCTGG	0.537													10	12					0	0	0.006214	0	0		T	19284190	T	T	19284190	3	4	4	1	0	0	0	0	1	0	0	0	9300	739	26	2	678	2	MAPK7	17	19284190	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	982	19284190	61911020	3577	5543											
MAPK7	5598	broad.mit.edu	37	chr17	19286236	19286236	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagtctttcgacatgggCgtggctgatgggccacagga	9	8	14	10	2	1	1	0	1	1	0	2	3	1	2	2	4	1	1	2	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:19286236C>T	uc002gvn.2	+	6	2660	c.2274C>T	c.(2272-2274)GGC>GGT	p.G758G	MAPK7_uc002gvo.2_Silent_p.G619G|MAPK7_uc002gvq.2_Silent_p.G758G|MAPK7_uc002gvp.2_Silent_p.G758G|uc010vyt.1_5'Flank	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	758	May not be required for kinase activity; required to stimulate MEF2C activity (By similarity).				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					TCGACATGGGCGTGGCTGATG	0.592													12	45					0	0	0.003163	0	0		T	19286236	T	T	19286236	2	4	4	1	0	0	0	0	0	0	0	1	9300	755	27	1		1	MAPK7	17	19286236	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2046	19286236	61908974	3578	5544											
SLC47A2	146802	broad.mit.edu	37	chr17	19584902	19584902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgcccagtggtaggcCgatgatgtaatatgtgatgg	11	10	15	5	1	0	2	0	2	0	0	0	4	0	3	2	4	1	2	2	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:19584902C>T	uc002gwe.3	-	14	1529	c.1354G>A	c.(1354-1356)GGC>AGC	p.G452S	SLC47A2_uc002gwg.3_Missense_Mutation_p.G416S|SLC47A2_uc002gwf.3_Missense_Mutation_p.G430S|SLC47A2_uc002gwh.3_RNA|SLC47A2_uc002gwi.2_RNA|SLC47A2_uc010cqs.1_RNA	NM_152908	NP_690872	Q86VL8	S47A2_HUMAN	solute carrier family 47, member 2 isoform 1	452	Helical; (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.3e-05)|all_epithelial(12;0.0024)|Breast(13;0.245)					AGTGGTAGGCCGATGATGTAA	0.532													21	35					0	0	0.002299	0	0		T	19584902	T	T	19584902	3	4	4	1	0	0	0	0	1	0	0	0	14673	652	23	1	470	1	SLC47A2	17	19584902	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	298666	19584902	61610308	3579	5545											
USP22	23326	broad.mit.edu	37	chr17	20922459	20922459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcagcagttcaagctccCgtttggttggttcccaagtt	6	14	10	11	1	2	0	2	0	0	0	4	0	4	0	2	2	2	8	2	2	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:20922459C>T	uc002gym.3	-	4	662	c.458G>A	c.(457-459)CGG>CAG	p.R153Q	USP22_uc002gyn.3_Missense_Mutation_p.R141Q|USP22_uc002gyl.3_Missense_Mutation_p.R48Q	NM_015276	NP_056091	Q9UPT9	UBP22_HUMAN	ubiquitin thiolesterase 22	153					cell cycle|embryo development|histone deubiquitination|histone H4 acetylation|histone ubiquitination|positive regulation of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1						TTCAAGCTCCCGTTTGGTTGG	0.478													6	121					0	0	0.00308	0	0		T	20922459	T	T	20922459	3	4	4	1	0	0	0	0	1	0	0	0	17080	652	23	1	1159	1	USP22	17	20922459	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1337557	20922459	60272751	3580	5546											
TMEM11	8834	broad.mit.edu	37	chr17	21101798	21101798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcgcgacagtttataggCgtcgtactccacttggtact	8	11	11	11	4	0	0	0	0	0	0	2	1	1	0	1	3	2	3	1	3	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:21101798C>T	uc002gyp.2	-	2	861	c.418G>A	c.(418-420)GCC>ACC	p.A140T	TMEM11_uc002gyq.2_3'UTR	NM_003876	NP_003867	P17152	TMM11_HUMAN	transmembrane protein 11	140					mitochondrion organization	integral to mitochondrial inner membrane|integral to plasma membrane	protein binding				0						AGTTTATAGGCGTCGTACTCC	0.597													4	52					0	0	0.000602	0	0		T	21101798	T	T	21101798	3	4	4	1	0	0	0	0	1	0	0	0	16051	768	27	1	164	1	TMEM11	17	21101798	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	179339	21101798	60093412	3581	5547											
KCNJ12	3768	broad.mit.edu	37	chr17	21319358	21319358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgcgcagctcatcaagcCgcgggtcaccgaggagggcg	7	3	17	14	7	3	0	3	0	0	0	3	2	3	1	2	3	2	2	2	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:21319358C>T	uc002gyv.1	+	3	1409	c.704C>T	c.(703-705)CCG>CTG	p.P235L		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	235	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	CTCATCAAGCCGCGGGTCACC	0.637										Prostate(3;0.18)			4	33					0	0	0.00308	0	0		T	21319358	T	T	21319358	3	4	4	1	0	0	0	0	1	0	0	0	8062	652	23	1	706	1	KCNJ12	17	21319358	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	217560	21319358	59875852	3582	5548											
KSR1	8844	broad.mit.edu	37	chr17	25910117	25910117	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggaaccgcattgatgaCgtctcctcgatgaggtgagt	8	10	14	9	3	1	4	0	4	1	0	3	6	1	5	2	3	1	1	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:25910117C>T	uc010crg.2	+	5	1000	c.555C>T	c.(553-555)GAC>GAT	p.D185D	KSR1_uc002gzj.1_RNA	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	320					Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		GCATTGATGACGTCTCCTCGA	0.542													4	7					0	0	0.001168	0	0		T	25910117	T	T	25910117	2	4	4	1	0	0	0	0	0	0	0	1	8597	535	19	1		1	KSR1	17	25910117	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4590759	25910117	55285093	3583	5549											
KSR1	8844	broad.mit.edu	37	chr17	25934953	25934953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacagcttctgcaaggggCggacgttgcactcgtttgtg	6	11	14	10	4	1	0	0	0	1	0	3	2	1	1	0	3	3	5	0	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:25934953C>T	uc010crg.2	+	16	2108	c.1663C>T	c.(1663-1665)CGG>TGG	p.R555W	KSR1_uc002gzm.2_Missense_Mutation_p.R334W|KSR1_uc002gzn.2_5'Flank	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	690	Protein kinase.				Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		CTGCAAGGGGCGGACGTTGCA	0.617													4	9					0	0	0.001168	0	0		T	25934953	T	T	25934953	3	4	4	1	0	0	0	0	1	0	0	0	8597	759	27	1	1713	1	KSR1	17	25934953	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24836	25934953	55260257	3584	5550											
ERAL1	26284	broad.mit.edu	37	chr17	27187476	27187476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattggtccgaagggccacGtgatctcccagatagcacag	10	8	12	11	2	1	3	0	2	1	1	3	4	2	3	3	2	1	1	3	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:27187476G>A	uc002hcy.1	+	10	1229	c.1219G>A	c.(1219-1221)GTG>ATG	p.V407M	ERAL1_uc002hcz.1_RNA|ERAL1_uc002hda.1_Missense_Mutation_p.V214M|ERAL1_uc002hdb.1_Missense_Mutation_p.V290M	NM_005702	NP_005693	O75616	ERAL1_HUMAN	Era-like 1	407	KH type-2.				ribosomal small subunit assembly	mitochondrial inner membrane|mitochondrial matrix	GTP binding|ribosomal small subunit binding|rRNA binding			skin(1)	1	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;1.12e-05)|all cancers(11;5.32e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.105)			GAAGGGCCACGTGATCTCCCA	0.408													27	51					0	0	0.009535	0	0		A	27187476	A	A	27187476	3	1	4	1	0	0	0	0	1	0	0	0	5210	1145	40	1	1257	1	ERAL1	17	27187476	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1252523	27187476	54007734	3585	5551											
CPD	1362	broad.mit.edu	37	chr17	28754503	28754503	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcagatcacagatcctacGcaaccagaaactattgctgt	13	10	7	11	1	2	3	2	0	0	3	3	3	3	3	2	0	4	3	2	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:28754503G>A	uc002hfb.1	+	7	1959	c.1944G>A	c.(1942-1944)ACG>ACA	p.T648T	CPD_uc010wbo.1_Silent_p.T401T|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	648	Extracellular (Potential).|Carboxypeptidase-like 2.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						CAGATCCTACGCAACCAGAAA	0.398													34	96					0	0	0.002836	0	0		A	28754503	A	A	28754503	2	1	4	1	0	0	0	0	0	0	0	1	3801	1074	38	1		1	CPD	17	28754503	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1567027	28754503	52440707	3586	5552											
LRRC37B	114659	broad.mit.edu	37	chr17	30362634	30362634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacttaagaacattctcaCgatgactgttgaactggaaa	16	10	7	8	1	1	3	1	2	1	1	2	5	1	4	0	1	3	1	0	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:30362634C>T	uc002hgu.2	+	7	2110	c.2099C>T	c.(2098-2100)ACG>ATG	p.T700M	LRRC37B_uc010wbx.1_Missense_Mutation_p.T618M|LRRC37B_uc010csu.2_Missense_Mutation_p.T649M	NM_052888	NP_443120	Q96QE4	LR37B_HUMAN	leucine rich repeat containing 37B precursor	700	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)				AACATTCTCACGATGACTGTT	0.284													7	158					0	0	0.006214	0	0		T	30362634	T	T	30362634	3	4	4	1	0	0	0	0	1	0	0	0	9012	536	19	1	2125	1	LRRC37B	17	30362634	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1608131	30362634	50832576	3587	5553											
MYO1D	4642	broad.mit.edu	37	chr17	31087608	31087608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcaataatatcattgatgCgagtaacgatccaacaaaaa	18	9	5	9	2	2	1	2	1	0	0	3	3	3	1	2	0	3	1	2	0	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:31087608C>T	uc002hho.1	-	9	1085	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H	MYO1D_uc002hhp.1_Missense_Mutation_p.R358H|MYO1D_uc010wcb.1_Missense_Mutation_p.R358H	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	358	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			ATCATTGATGCGAGTAACGAT	0.383													5	84					0	0	0.001984	0	0		T	31087608	T	T	31087608	3	4	4	1	0	0	0	0	1	0	0	0	10089	768	27	1	2003	1	MYO1D	17	31087608	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	724974	31087608	50107602	3588	5554											
MYO1D	4642	broad.mit.edu	37	chr17	31087632	31087632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacgatccaacaaaaaaggCgctcatatattgcctgcaag	16	8	7	10	2	1	0	1	0	0	0	2	1	2	0	2	1	4	2	2	1	8	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:31087632C>T	uc002hho.1	-	9	1061	c.1049G>A	c.(1048-1050)CGC>CAC	p.R350H	MYO1D_uc002hhp.1_Missense_Mutation_p.R350H|MYO1D_uc010wcb.1_Missense_Mutation_p.R350H	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	350	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			ACAAAAAAGGCGCTCATATAT	0.383													22	73					0	0	0.00278	0	0		T	31087632	T	T	31087632	3	4	4	1	0	0	0	0	1	0	0	0	10089	768	27	1	2027	1	MYO1D	17	31087632	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24	31087632	50107578	3589	5555											
CCT6B	10693	broad.mit.edu	37	chr17	33259515	33259515	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaccagctccaggaaccatAcaacctattggagagaaaaa	17	5	8	11	0	0	1	0	0	0	1	1	4	1	3	4	2	4	2	4	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:33259515A>G	uc002hig.2	-	11	1312	c.1218T>C	c.(1216-1218)TGT>TGC	p.C406C	CCT6B_uc010ctg.2_Silent_p.C369C|CCT6B_uc010wcc.1_Silent_p.C361C	NM_006584	NP_006575	Q92526	TCPW_HUMAN	chaperonin containing TCP1, subunit 6B	406					chaperone-mediated protein complex assembly|protein folding|spermatogenesis	cytoplasm	ATP binding|protein transporter activity|unfolded protein binding			pancreas(1)	1		Ovarian(249;0.17)				CAGGAACCATACAACCTATTG	0.388													4	227					0	0	0.000602	0	0		G	33259515	G	G	33259515	2	3	4	1	0	0	0	0	0	0	0	1	2961	389	14	3		3	CCT6B	17	33259515	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	2171883	33259515	47935695	3590	5556											
CCT6B	10693	broad.mit.edu	37	chr17	33266272	33266272	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgacttgtgtgagagtatgCttatttggtcctttaaccaa	9	17	9	6	0	0	2	0	2	0	1	1	3	1	2	2	1	2	2	2	1	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:33266272C>A	uc002hig.2	-	10	1237	c.1143G>T	c.(1141-1143)AAG>AAT	p.K381N	CCT6B_uc010ctg.2_Missense_Mutation_p.K344N|CCT6B_uc010wcc.1_Missense_Mutation_p.K336N	NM_006584	NP_006575	Q92526	TCPW_HUMAN	chaperonin containing TCP1, subunit 6B	381					chaperone-mediated protein complex assembly|protein folding|spermatogenesis	cytoplasm	ATP binding|protein transporter activity|unfolded protein binding			pancreas(1)	1		Ovarian(249;0.17)				TGAGAGTATGCTTATTTGGTC	0.388													24	117					7.92952e-12	8.56966e-12	0.003954	1	0		A	33266272	A	A	33266272	3	1	4	1	0	0	0	0	1	0	0	0	2961	796	28	5	469	5	CCT6B	17	33266272	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6757	33266272	47928938	3591	5557											
LIG3	3980	broad.mit.edu	37	chr17	33326437	33326437	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccacgcttgcccgcctgcAgaatgaactagacatggtga	10	8	11	12	2	0	4	0	2	0	2	0	4	0	4	3	1	4	2	3	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:33326437A>G	uc002hik.1	+	15	2333	c.2225A>G	c.(2224-2226)CAG>CGG	p.Q742R	LIG3_uc002hij.2_Missense_Mutation_p.Q742R	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	742					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	GCCCGCCTGCAGAATGAACTA	0.572								Other_BER_factors					4	27					0	0	0.001984	0	0		G	33326437	G	G	33326437	3	3	4	1	0	0	0	0	1	0	0	0	8798	188	7	3	2279	3	LIG3	17	33326437	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	60165	33326437	47868773	3592	5558											
SLFN5	162394	broad.mit.edu	37	chr17	33586592	33586592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctccgtggatatgtctgtGcaatcaaggtggagaaattc	10	11	11	9	1	2	1	1	0	1	1	4	3	3	2	2	3	1	1	2	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:33586592G>A	uc002hjf.3	+	2	1000	c.883G>A	c.(883-885)GCA>ACA	p.A295T	SLFN5_uc002hje.2_Missense_Mutation_p.A295T|SLFN5_uc010wcg.1_Missense_Mutation_p.A295T	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	295					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		ATATGTCTGTGCAATCAAGGT	0.488													15	123					0	0	0.006122	0	0		A	33586592	A	A	33586592	3	1	4	1	0	0	0	0	1	0	0	0	14762	1319	46	2	885	2	SLFN5	17	33586592	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	260155	33586592	47608618	3593	5559											
SLFN5	162394	broad.mit.edu	37	chr17	33591298	33591298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaataaatacagaaatgcGccctttctctcaaggaatat	15	12	5	9	1	2	1	1	0	1	1	3	2	2	2	1	1	2	0	1	1	8	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:33591298G>A	uc002hjf.3	+	4	1352	c.1235G>A	c.(1234-1236)CGC>CAC	p.R412H	SLFN5_uc010wcg.1_Intron	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	412					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		ACAGAAATGCGCCCTTTCTCT	0.403													21	82					0	0	0.010504	0	0		A	33591298	A	A	33591298	3	1	4	1	0	0	0	0	1	0	0	0	14762	1087	38	1	1245	1	SLFN5	17	33591298	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4706	33591298	47603912	3594	5560											
RASL10B	91608	broad.mit.edu	37	chr17	34068171	34068171	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtacgcaagacctggaagtgCggctacgtggaatgctcggc	9	7	15	10	4	0	1	0	0	0	1	1	3	0	3	1	4	4	4	1	4	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:34068171C>T	uc002hju.2	+	4	825	c.459C>T	c.(457-459)TGC>TGT	p.C153C		NM_033315	NP_201572	Q96S79	RSLAB_HUMAN	RAS-like, family 10, member B precursor	153	Small GTPase-like.				small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			lung(2)|breast(2)	4				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCTGGAAGTGCGGCTACGTGG	0.632													10	18					0	0	0.00245	0	0		T	34068171	T	T	34068171	2	4	4	1	0	0	0	0	0	0	0	1	13105	776	27	1		1	RASL10B	17	34068171	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	476873	34068171	47127039	3595	5561											
MMP28	79148	broad.mit.edu	37	chr17	34097268	34097268	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcggcggctcagggaccagCgctcatcttggtcgaagtgc	6	7	16	12	4	3	0	2	0	1	0	4	2	3	1	1	5	2	2	1	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:34097268C>T	uc002hjy.1	-	7	927	c.668G>A	c.(667-669)CGC>CAC	p.R223H	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	223					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		CAGGGACCAGCGCTCATCTTG	0.746													3	5					0	0	0.004672	0	0		T	34097268	T	T	34097268	3	4	4	1	0	0	0	0	1	0	0	0	9683	768	27	1	910	1	MMP28	17	34097268	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	29097	34097268	47097942	3596	5562											
MMP28	79148	broad.mit.edu	37	chr17	34106032	34106032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctggcgcagggtggcgCggtccaacacgccgctgaca	7	6	14	14	5	2	1	1	1	1	0	3	1	3	1	2	4	1	2	2	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:34106032C>T	uc002hjy.1	-	3	498	c.239G>A	c.(238-240)CGC>CAC	p.R80H	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA|MMP28_uc002hka.2_Missense_Mutation_p.R80H	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	80					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		CAGGGTGGCGCGGTCCAACAC	0.607													13	26					0	0	0.001368	0	0		T	34106032	T	T	34106032	3	4	4	1	0	0	0	0	1	0	0	0	9683	768	27	1	1360	1	MMP28	17	34106032	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	8764	34106032	47089178	3597	5563											
TBC1D3B	414059	broad.mit.edu	37	chr17	34499219	34499219	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccgtaggcttacttggtTccgtatcgatccctgaagaa	8	12	9	12	3	0	2	0	1	0	1	4	3	3	2	3	2	1	4	3	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:34499219T>C	uc002hky.2	-	7	642	c.492A>G	c.(490-492)GGA>GGG	p.G164G	uc002hla.1_5'Flank|uc002hlc.2_5'Flank	NM_001001417	NP_001001417	Q8IZP1	TBC3A_HUMAN	TBC1 domain family, member 3B	164	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0		Breast(25;0.102)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CTTACTTGGTTCCGTATCGAT	0.577													8	303					0	0	0.000978	0	0		C	34499219	C	C	34499219	2	2	4	1	0	0	0	0	0	0	0	1	15645	1770	62	3		3	TBC1D3B	17	34499219	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	393187	34499219	46695991	3598	5564											
ACACA	31	broad.mit.edu	37	chr17	35603887	35603887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttattgccaattgtgatgCgatatctaggagacaagtgg	11	14	11	5	1	1	2	0	1	1	1	1	4	1	2	1	2	2	0	1	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:35603887C>T	uc002hnm.2	-	19	2395	c.2204G>A	c.(2203-2205)CGC>CAC	p.R735H	ACACA_uc002hnk.2_Missense_Mutation_p.R657H|ACACA_uc002hnl.2_Missense_Mutation_p.R677H|ACACA_uc002hnn.2_Missense_Mutation_p.R735H|ACACA_uc002hno.2_Missense_Mutation_p.R772H|ACACA_uc010cuz.2_Missense_Mutation_p.R735H	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	735					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	AATTGTGATGCGATATCTAGG	0.408													10	101					0	0	0.008291	0	0		T	35603887	T	T	35603887	3	4	4	1	0	0	0	0	1	0	0	0	106	768	27	1	4988	1	ACACA	17	35603887	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1104668	35603887	45591323	3599	5565											
HNF1B	6928	broad.mit.edu	37	chr17	36099531	36099531	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgagatgctgggagaggtgCgactggttcaggccggtgac	7	9	18	7	2	1	3	1	2	0	2	1	6	1	3	1	5	2	2	1	5	0	2	rs147218489		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:36099531C>T	uc002hok.3	-	2	665	c.444G>A	c.(442-444)TCG>TCA	p.S148S	HNF1B_uc010wdi.1_Silent_p.S148S	NM_000458	NP_000449	P35680	HNF1B_HUMAN	hepatocyte nuclear factor 1-beta isoform 1	148			S -> W (in RCAD).|S -> L (in RCAD).		endocrine pancreas development|genitalia development|kidney development|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric nephron tubule development|regulation of pronephros size	nucleus	DNA binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			GGGAGAGGTGCGACTGGTTCA	0.567									Hereditary_Prostate_Cancer				5	47					0	0	0.000602	0	0		T	36099531	T	T	36099531	2	4	4	1	0	0	0	0	0	0	0	1	7268	755	27	1		1	HNF1B	17	36099531	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	495644	36099531	45095679	3600	5566											
MED1	5469	broad.mit.edu	37	chr17	37565282	37565282	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcccttaggaatctgaatAgtgattttgggaatgggtgg	9	14	14	4	0	1	2	0	2	1	0	2	4	2	4	1	4	0	1	1	4	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:37565282A>G	uc002hrv.3	-	17	3404	c.3192T>C	c.(3190-3192)ACT>ACC	p.T1064T	MED1_uc010wee.1_Silent_p.T892T|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1064	Interaction with ESR1.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		GAATCTGAATAGTGATTTTGG	0.522										HNSCC(31;0.082)			6	109					0	0	0.004482	0	0		G	37565282	G	G	37565282	2	3	4	1	0	0	0	0	0	0	0	1	9443	407	15	3		3	MED1	17	37565282	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1465751	37565282	43629928	3601	5567											
CDK12	51755	broad.mit.edu	37	chr17	37682159	37682159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaatcaaagtgaattggCagtgttattaaacctgctgc	12	12	10	7	0	1	2	1	2	0	0	1	2	1	2	1	1	3	4	1	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:37682159C>T	uc010cvv.2	+	13	3936	c.3350C>T	c.(3349-3351)GCA>GTA	p.A1117V	CDK12_uc010wef.1_Missense_Mutation_p.A1116V|CDK12_uc002hrw.3_Missense_Mutation_p.A1117V	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	1117					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						AGTGAATTGGCAGTGTTATTA	0.498										TCGA Ovarian(9;0.13)			15	44					0	0	0.00499	0	0		T	37682159	T	T	37682159	3	4	4	1	0	0	0	0	1	0	0	0	3131	710	25	2	3400	2	CDK12	17	37682159	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	116877	37682159	43513051	3602	5568											
IKZF3	22806	broad.mit.edu	37	chr17	37948990	37948990	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggataatccacacacatcGcagttcatctttccactggt	11	11	6	13	1	2	0	1	0	1	0	5	1	4	1	2	2	0	2	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:37948990G>A	uc002hsu.2	-	4	422	c.360C>T	c.(358-360)TGC>TGT	p.C120C	IKZF3_uc002htd.2_Silent_p.C86C|IKZF3_uc010cwd.2_Intron|IKZF3_uc002hsv.2_Silent_p.C86C|IKZF3_uc010cwe.2_Silent_p.C120C|IKZF3_uc010cwf.2_Intron|IKZF3_uc010cwg.2_Intron|IKZF3_uc002hsw.2_Silent_p.C120C|IKZF3_uc002hsx.2_Silent_p.C120C|IKZF3_uc002hsy.2_Silent_p.C120C|IKZF3_uc002hsz.2_Silent_p.C120C|IKZF3_uc002hta.2_Silent_p.C120C|IKZF3_uc002htb.2_RNA|IKZF3_uc010cwh.2_Intron|IKZF3_uc002htc.2_5'UTR	NM_012481	NP_036613	Q9UKT9	IKZF3_HUMAN	aiolos isoform 1	120	C2H2-type 1.				B cell activation|mesoderm development|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)|kidney(2)|skin(2)	6	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CACACACATCGCAGTTCATCT	0.378													29	84					0	0	0.002445	0	0		A	37948990	A	A	37948990	2	1	4	1	0	0	0	0	0	0	0	1	7632	1079	38	1		1	IKZF3	17	37948990	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	266831	37948990	43246220	3603	5569											
ZPBP2	124626	broad.mit.edu	37	chr17	38024850	38024850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taagaagggcttcatttatgGcaagacaggacagccaggta	14	8	12	7	0	1	2	1	0	0	2	1	3	1	3	1	4	1	3	1	4	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:38024850G>A	uc002hte.2	+	2	254	c.101G>A	c.(100-102)GGC>GAC	p.G34D	ZPBP2_uc002htf.2_Intron	NM_199321	NP_955353	Q6X784	ZPBP2_HUMAN	zona pellucida binding protein 2 isoform 2	34					binding of sperm to zona pellucida	extracellular region				ovary(1)	1	Colorectal(19;0.000442)		Lung(15;0.00849)|LUSC - Lung squamous cell carcinoma(15;0.171)			TTCATTTATGGCAAGACAGGA	0.517													5	101					0	0	0.000602	0	0		A	38024850	A	A	38024850	3	1	4	1	0	0	0	0	1	0	0	0	18245	1203	42	2	107	2	ZPBP2	17	38024850	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	75860	38024850	43170360	3604	5570											
CASC3	22794	broad.mit.edu	37	chr17	38319959	38319959	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggtgggcagcatggtggCcggtctggtgagactgttaa	6	10	18	7	1	1	1	0	1	1	1	1	2	1	1	1	6	1	4	1	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:38319959C>A	uc010cwt.1	+	7	1306	c.1011C>A	c.(1009-1011)GGC>GGA	p.G337G	CASC3_uc010cws.1_Silent_p.G337G|CASC3_uc002hue.2_Silent_p.G337G	NM_007359	NP_031385	O15234	CASC3_HUMAN	metastatic lymph node 51	337					mRNA processing|mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|response to stress|RNA splicing	exon-exon junction complex|nuclear speck|perinuclear region of cytoplasm	identical protein binding|RNA binding|ubiquitin protein ligase binding			ovary(1)	1						AGCATGGTGGCCGGTCTGGTG	0.562													6	137					8.12818e-05	8.5301e-05	0.001984	1	0		A	38319959	A	A	38319959	2	1	4	1	0	0	0	0	0	0	0	1	2664	726	26	5		5	CASC3	17	38319959	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	295109	38319959	42875251	3605	5571											
CDC6	990	broad.mit.edu	37	chr17	38450699	38450699	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaagccacagctgttgaacTtcccaccttataccagaaat	13	10	6	12	0	0	2	0	1	0	1	1	2	1	2	4	0	4	3	4	0	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:38450699T>C	uc002huj.1	+	7	1237	c.1027T>C	c.(1027-1029)TTC>CTC	p.F343L		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	343					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						GCTGTTGAACTTCCCACCTTA	0.403													8	69					0	0	0.004482	0	0		C	38450699	C	C	38450699	3	2	4	1	0	0	0	0	1	0	0	0	3086	1609	56	3	1049	3	CDC6	17	38450699	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	130740	38450699	42744511	3606	5572											
TOP2A	7153	broad.mit.edu	37	chr17	38557134	38557134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttctccatccatcaaacGcctgatgttatttacaattt	10	17	3	11	1	3	1	1	1	2	0	5	1	4	1	3	0	2	1	3	0	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:38557134G>A	uc002huq.2	-	21	2758	c.2632C>T	c.(2632-2634)CGT>TGT	p.R878C		NM_001067	NP_001058	P11388	TOP2A_HUMAN	DNA topoisomerase II, alpha isozyme	878					apoptotic chromosome condensation|DNA ligation|DNA repair|DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|phosphatidylinositol-mediated signaling|positive regulation of apoptosis|positive regulation of retroviral genome replication|resolution of meiotic recombination intermediates|sister chromatid segregation	cytoplasm|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|drug binding|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity|ubiquitin binding			ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00183)		Amsacrine(DB00276)|Ciprofloxacin(DB00537)|Dexrazoxane(DB00380)|Doxorubicin(DB00997)|Enoxacin(DB00467)|Epirubicin(DB00445)|Etoposide(DB00773)|Fleroxacin(DB04576)|Gatifloxacin(DB01044)|Idarubicin(DB01177)|Levofloxacin(DB01137)|Lomefloxacin(DB00978)|Lucanthone(DB04967)|Mitoxantrone(DB01204)|Moxifloxacin(DB00218)|Norfloxacin(DB01059)|Ofloxacin(DB01165)|Pefloxacin(DB00487)|Podofilox(DB01179)|Sparfloxacin(DB01208)|Teniposide(DB00444)|Trovafloxacin(DB00685)|Valrubicin(DB00385)	TCCATCAAACGCCTGATGTTA	0.408													65	194					0	0	0.00361	0	0		A	38557134	A	A	38557134	3	1	4	1	0	0	0	0	1	0	0	0	16391	1087	38	1	2023	1	TOP2A	17	38557134	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	106435	38557134	42638076	3607	5573											
KRT222	125113	broad.mit.edu	37	chr17	38818220	38818220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtggtgccactggcgtcggGcctccttgagttctgcttga	3	12	15	11	2	1	2	0	2	1	0	3	2	2	2	3	4	2	2	3	4	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:38818220G>A	uc002hvc.2	-	2	238	c.173C>T	c.(172-174)GCC>GTC	p.A58V	KRT222_uc010wfk.1_RNA|KRT222_uc002hvb.2_Missense_Mutation_p.A18V|KRT222_uc010cxc.2_Missense_Mutation_p.A18V	NM_152349	NP_689562	Q8N1A0	KT222_HUMAN	truncated type I keratin KA21	58	Potential.					intermediate filament	structural molecule activity			central_nervous_system(1)|skin(1)	2						CTGGCGTCGGGCCTCCTTGAG	0.473													11	148					0	0	0.001368	0	0		A	38818220	A	A	38818220	3	1	4	1	0	0	0	0	1	0	0	0	8475	1203	42	2	734	2	KRT222	17	38818220	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	261086	38818220	42376990	3608	5574											
KRT27	342574	broad.mit.edu	37	chr17	38936056	38936056	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtgaggtctaccccgggggCcgcgttcatctccacgttca	5	9	12	15	5	4	1	2	1	2	0	5	1	4	1	4	3	1	2	4	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:38936056C>A	uc002hvg.2	-	4	783	c.742G>T	c.(742-744)GCC>TCC	p.A248S		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	248	Rod.|Linker 12.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				ACCCCGGGGGCCGCGTTCATC	0.527													14	37					2.48551e-13	2.69788e-13	0.00499	1	0		A	38936056	A	A	38936056	3	1	4	1	0	0	0	0	1	0	0	0	8480	739	26	5	657	5	KRT27	17	38936056	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	117836	38936056	42259154	3609	5575											
KRT39	390792	broad.mit.edu	37	chr17	39114941	39114941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttaatctccttggtgatgGtgcaaattttaaccagtatc	10	15	7	9	0	1	1	0	1	1	0	3	1	1	1	3	2	2	2	3	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39114941G>A	uc002hvo.1	-	7	1424	c.1388C>T	c.(1387-1389)ACC>ATC	p.T463I	KRT39_uc010wfm.1_Missense_Mutation_p.T196I	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	463	Tail.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				CTTGGTGATGGTGCAAATTTT	0.517													4	83					0	0	0.009096	0	0		A	39114941	A	A	39114941	3	1	4	1	0	0	0	0	1	0	0	0	8492	1261	44	4	91	4	KRT39	17	39114941	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	178885	39114941	42080269	3610	5576											
KRTAP1-3	81850	broad.mit.edu	37	chr17	39191019	39191019	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagctggagccgcatgTcccactggtggagcagctgg	7	6	16	12	1	0	0	0	0	0	0	1	2	1	2	2	4	5	6	2	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39191019T>C	uc002hvv.2	-	1	89	c.55A>G	c.(55-57)ACA>GCA	p.T19A		NM_030966	NP_112228	Q8IUG1	KRA13_HUMAN	keratin associated protein 1-3	19						extracellular region|keratin filament	structural constituent of epidermis				0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			GAGCCGCATGTCCCACTGGTG	0.582													3	12					0	0	0.000602	0	0		C	39191019	C	C	39191019	3	2	4	1	0	0	0	0	1	0	0	0	8519	1667	58	3	452	3	KRTAP1-3	17	39191019	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	76078	39191019	42004191	3611	5577											
KRTAP4-8	728224	broad.mit.edu	37	chr17	39254140	39254140	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacacacagcagctggggCgacagcaggtgggctggcag	9	4	18	10	1	0	0	0	0	0	0	0	2	0	1	0	6	3	5	0	6	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39254140C>T	uc010wfo.1	-	1	236	c.197G>A	c.(196-198)CGC>CAC	p.R66H		NM_031960	NP_114166	Q9BYQ9	KRA48_HUMAN	keratin associated protein 4.8	66	25 X 5 AA repeats of C-C-[IKRQVHEC]- [SPRT]-[STCVQPR].|9.					keratin filament					0						GCAGCTGGGGCGACAGCAGGT	0.592													9	11					0	0	0.003163	0	0		T	39254140	T	T	39254140	3	4	4	1	0	0	0	0	1	0	0	0	8572	768	27	1	364	1	KRTAP4-8	17	39254140	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	63121	39254140	41941070	3612	5578											
KRT33A	3883	broad.mit.edu	37	chr17	39502732	39502732	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctccagcaggctccggtaCgtgttgatctcacactccag	7	10	9	15	2	2	1	1	1	2	0	6	1	4	1	3	2	2	4	3	2	1	2	rs57495682	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39502732C>T	uc002hwk.1	-	6	1102	c.1065G>A	c.(1063-1065)ACG>ACA	p.T355T		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	355	Coil 2.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				GGCTCCGGTACGTGTTGATCT	0.577													10	71					0	0	0.001855	0	0		T	39502732	T	T	39502732	2	4	4	1	0	0	0	0	0	0	0	1	8485	523	19	1		1	KRT33A	17	39502732	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	248592	39502732	41692478	3613	5579											
KRT36	8689	broad.mit.edu	37	chr17	39645870	39645870	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggagccctcgcagaaccAgcccccgctccccacaaagc	11	2	9	19	2	0	1	0	0	0	1	2	3	1	2	6	1	4	2	6	1	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39645870A>G	uc002hwt.2	-	1	247	c.247T>C	c.(247-249)TGG>CGG	p.W83R		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	83	Head.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)				TCGCAGAACCAGCCCCCGCTC	0.622													4	41					0	0	0.000602	0	0		G	39645870	G	G	39645870	3	3	4	1	0	0	0	0	1	0	0	0	8489	188	7	3	1184	3	KRT36	17	39645870	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	143138	39645870	41549340	3614	5580											
KRT13	3860	broad.mit.edu	37	chr17	39658842	39658842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaccgtgttctccagccccGctttctggtggagcgacaga	6	9	11	15	3	2	1	0	0	2	1	3	3	2	2	5	2	2	2	5	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39658842G>A	uc002hwu.1	-	6	1091	c.1028C>T	c.(1027-1029)GCG>GTG	p.A343V	KRT13_uc002hwv.1_Missense_Mutation_p.A343V|KRT13_uc002hww.2_Missense_Mutation_p.A236V|KRT13_uc010wfr.1_Missense_Mutation_p.A236V|KRT13_uc010cxo.2_Missense_Mutation_p.A343V|KRT13_uc002hwx.1_Missense_Mutation_p.A331V	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	343	Rod.|Coil 2.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				CTCCAGCCCCGCTTTCTGGTG	0.627													23	30					0	0	0.002299	0	0		A	39658842	A	A	39658842	3	1	4	1	0	0	0	0	1	0	0	0	8466	1087	38	1	360	1	KRT13	17	39658842	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12972	39658842	41536368	3615	5581											
KRT13	3860	broad.mit.edu	37	chr17	39661466	39661466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggtaggaagccaggcggtCgttgaggttctgcatggtga	8	9	17	7	2	1	2	0	2	1	0	2	3	1	3	1	6	2	4	1	6	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39661466C>T	uc002hwu.1	-	1	400	c.337G>A	c.(337-339)GAC>AAC	p.D113N	KRT13_uc002hwv.1_Missense_Mutation_p.D113N|KRT13_uc002hww.2_Missense_Mutation_p.D6N|KRT13_uc010wfr.1_Missense_Mutation_p.D6N|KRT13_uc010cxo.2_Missense_Mutation_p.D113N|KRT13_uc002hwx.1_Missense_Mutation_p.D101N	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	113	Coil 1A.|Rod.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				GCCAGGCGGTCGTTGAGGTTC	0.438													17	75					0	0	0.007413	0	0		T	39661466	T	T	39661466	3	4	4	1	0	0	0	0	1	0	0	0	8466	884	31	1	1071	1	KRT13	17	39661466	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2624	39661466	41533744	3616	5582											
DNAJC7	7266	broad.mit.edu	37	chr17	40134398	40134398	+	Frame_Shift_Del	DEL	T	-	-																															tcttcagttccagctgcgcaTtttttaggagctgtttgtgt																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40134398delT	uc002hyo.2	-	11	1343	c.1106delA	c.(1105-1107)AATfs	p.N369fs	DNAJC7_uc010cxu.2_Frame_Shift_Del_p.N313fs|DNAJC7_uc010cxv.2_Intron|DNAJC7_uc010wgb.1_Frame_Shift_Del_p.N313fs|DNAJC7_uc010wgc.1_Frame_Shift_Del_p.N227fs|DNAJC7_uc002hyp.2_Frame_Shift_Del_p.N313fs	NM_003315	NP_003306	Q99615	DNJC7_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 7	369					chaperone cofactor-dependent protein refolding	cytoplasm|cytoskeleton|nucleus	heat shock protein binding|unfolded protein binding			ovary(1)	1		all_cancers(22;0.00273)|Breast(137;0.00104)|all_epithelial(22;0.0305)				CAGCTGCGCATTTTTTAGGAG	0.468													47	88	---	---	---	---						.	-	40134398	-	-	40134398	7	5	4	1	0	1	0	1	0	0	0	0	4660	1493	52	0	394	0	DNAJC7	17	40134398	Frame_Shift_Del	DEL	T	TCGA-BR-4184-01A-01D-1126-08	472932	40134398	41060812	3617	5583											
RAB5C	5878	broad.mit.edu	37	chr17	40280741	40280741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggccaggctgtgataccGctcctgtccagctgtgtccc	4	9	14	14	1	0	1	0	1	0	0	3	1	3	1	5	3	2	3	5	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40280741G>A	uc002hyz.2	-	4	561	c.244C>T	c.(244-246)CGG>TGG	p.R82W	RAB5C_uc002hza.2_Missense_Mutation_p.R82W|RAB5C_uc010cxx.2_Missense_Mutation_p.R115W|RAB5C_uc010cxy.2_5'UTR	NM_201434	NP_958842	P51148	RAB5C_HUMAN	RAB5C, member RAS oncogene family isoform a	82					protein transport|small GTPase mediated signal transduction	early endosome membrane|melanosome|plasma membrane	GTP binding|GTPase activity|protein binding			large_intestine(1)|skin(1)	2		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)		CTGTGATACCGCTCCTGTCCA	0.547													9	36					0	0	0.008291	0	0		A	40280741	A	A	40280741	3	1	4	1	0	0	0	0	1	0	0	0	12975	1086	38	1	422	1	RAB5C	17	40280741	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	146343	40280741	40914469	3618	5584											
GHDC	84514	broad.mit.edu	37	chr17	40344954	40344954	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccccaaggtcctggttTgaggtcgggggcagtggctg	4	9	17	11	1	0	1	0	1	0	0	3	1	2	1	4	6	0	3	4	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40344954T>C	uc002hzd.2	-	3	841	c.357A>G	c.(355-357)TCA>TCG	p.S119S	GHDC_uc002hzg.1_Silent_p.S119S|GHDC_uc010wgg.1_Intron|GHDC_uc002hze.3_Silent_p.S119S|GHDC_uc002hzf.3_Silent_p.S119S|GHDC_uc010cxz.2_RNA	NM_032484	NP_115873	Q8N2G8	GHDC_HUMAN	LGP1 homolog isoform 1	119						endoplasmic reticulum|nuclear envelope					0		all_cancers(22;0.000229)|Breast(137;0.00104)|all_epithelial(22;0.00304)		BRCA - Breast invasive adenocarcinoma(366;0.124)		GGTCCTGGTTTGAGGTCGGGG	0.607													4	51					0	0	0.001168	0	0		C	40344954	C	C	40344954	2	2	4	1	0	0	0	0	0	0	0	1	6384	1799	63	3		3	GHDC	17	40344954	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	64213	40344954	40850256	3619	5585											
STAT3	6774	broad.mit.edu	37	chr17	40476753	40476753	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtttctctgccagtgtagTcagctgctcgatgctcagtc	6	13	11	11	1	3	0	2	0	1	0	6	2	3	0	1	0	4	5	1	0	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40476753T>C	uc002hzl.1	-	17	1816	c.1576A>G	c.(1576-1578)ACT>GCT	p.T526A	STAT3_uc002hzk.1_Missense_Mutation_p.T526A|STAT3_uc002hzm.1_Missense_Mutation_p.T526A|STAT3_uc010wgh.1_Missense_Mutation_p.T428A|STAT3_uc002hzn.1_Missense_Mutation_p.T526A	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	526					cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		GCCAGTGTAGTCAGCTGCTCG	0.587									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				10	17					0	0	0.006214	0	0		C	40476753	C	C	40476753	3	2	4	1	0	0	0	0	1	0	0	0	15291	1667	58	3	768	3	STAT3	17	40476753	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	131799	40476753	40718457	3620	5586											
STAT3	6774	broad.mit.edu	37	chr17	40489528	40489528	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgccgcctcttccagtcaGccagctcctcgtccgtgaga	5	10	10	16	3	2	1	1	1	1	1	6	2	5	1	6	0	3	2	6	0	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40489528G>T	uc002hzl.1	-	8	962	c.722C>A	c.(721-723)GCT>GAT	p.A241D	STAT3_uc002hzk.1_Missense_Mutation_p.A241D|STAT3_uc002hzm.1_Missense_Mutation_p.A241D|STAT3_uc010wgh.1_Missense_Mutation_p.A143D|STAT3_uc002hzn.1_Missense_Mutation_p.A241D	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	241					cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		CTTCCAGTCAGCCAGCTCCTC	0.527									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				18	35					3.17567e-06	3.36039e-06	0.008361	1	0		T	40489528	T	T	40489528	3	4	4	1	0	0	0	0	1	0	0	0	15291	971	34	5	1658	5	STAT3	17	40489528	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12775	40489528	40705682	3621	5587											
CNTNAP1	8506	broad.mit.edu	37	chr17	40845456	40845456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggccactgtgcccaccctcGgctcccctgtttccatggag	5	9	10	17	1	0	0	0	0	0	0	3	1	2	1	6	3	1	2	6	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40845456G>A	uc002iay.2	+	18	3110	c.2894G>A	c.(2893-2895)CGG>CAG	p.R965Q	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	965	EGF-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		GCCCACCCTCGGCTCCCCTGT	0.607													14	32					0	0	0.006122	0	0		A	40845456	A	A	40845456	3	1	4	1	0	0	0	0	1	0	0	0	3649	1116	39	1	2964	1	CNTNAP1	17	40845456	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	355928	40845456	40349754	3622	5588											
WNK4	65266	broad.mit.edu	37	chr17	40947525	40947525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggggaagccaggctggCgcccatctctgaaggtaagg	9	5	15	12	1	1	1	0	1	1	0	2	2	1	2	3	6	1	2	3	6	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40947525C>T	uc002ibj.2	+	15	3029	c.3008C>T	c.(3007-3009)GCG>GTG	p.A1003V	WNK4_uc010wgx.1_Missense_Mutation_p.A667V|CCDC56_uc010wgz.1_3'UTR	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	1003					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		GCCAGGCTGGCGCCCATCTCT	0.587													14	27					0	0	0.003163	0	0		T	40947525	T	T	40947525	3	4	4	1	0	0	0	0	1	0	0	0	17406	768	27	1	3066	1	WNK4	17	40947525	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	102069	40947525	40247685	3623	5589											
CNTD1	124817	broad.mit.edu	37	chr17	40958800	40958800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgagagcctgttgagggCttcaattgagaactccactc	11	11	10	9	0	1	3	1	3	0	2	3	5	2	3	2	1	2	2	2	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40958800C>T	uc002ibm.3	+	5	921	c.689C>T	c.(688-690)GCT>GTT	p.A230V	CNTD1_uc010wha.1_Missense_Mutation_p.A147V	NM_173478	NP_775749	Q8N815	CNTD1_HUMAN	cyclin N-terminal domain containing 1	230										central_nervous_system(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		CTGTTGAGGGCTTCAATTGAG	0.527													9	78					0	0	0.008291	0	0		T	40958800	T	T	40958800	3	4	4	1	0	0	0	0	1	0	0	0	3638	797	28	2	707	2	CNTD1	17	40958800	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	11275	40958800	40236410	3624	5590											
MPP3	4356	broad.mit.edu	37	chr17	41891392	41891392	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttacgtggaacagcgacGccaaagtgctgtgggttctc	8	10	12	11	3	2	0	0	0	2	0	3	2	2	1	1	2	4	2	1	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:41891392G>A	uc002iei.3	-	16	1408	c.1242C>T	c.(1240-1242)GGC>GGT	p.G414G	MPP3_uc002ieh.2_Silent_p.G439G|MPP3_uc002iej.2_RNA	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	414	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		GAACAGCGACGCCAAAGTGCT	0.547													34	73					0	0	0.00874	0	0		A	41891392	A	A	41891392	2	1	4	1	0	0	0	0	0	0	0	1	9753	1074	38	1		1	MPP3	17	41891392	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	932592	41891392	39303818	3625	5591											
C17orf53	78995	broad.mit.edu	37	chr17	42232005	42232005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactcggagcacaatggacGccagtgtggttttcaaggac	10	9	13	9	2	1	1	1	1	0	0	2	4	1	4	1	4	1	2	1	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:42232005G>A	uc002ifi.1	+	6	1719	c.1534G>A	c.(1534-1536)GCC>ACC	p.A512T	C17orf53_uc010czq.1_Missense_Mutation_p.A511T|C17orf53_uc002ifj.1_Missense_Mutation_p.A436T|C17orf53_uc002ifk.1_RNA	NM_024032	NP_076937	Q8N3J3	CQ053_HUMAN	hypothetical protein LOC78995	512											0		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		CACAATGGACGCCAGTGTGGT	0.552													6	51					0	0	0.001984	0	0		A	42232005	A	A	42232005	3	1	4	1	0	0	0	0	1	0	0	0	1865	1087	38	1	1556	1	C17orf53	17	42232005	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	340613	42232005	38963205	3626	5592											
SLC4A1	6521	broad.mit.edu	37	chr17	42335832	42335832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagggctggactgatagcGccttcgaagtagctccctct	7	9	13	12	2	1	1	0	1	1	0	3	3	2	2	2	3	2	4	2	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:42335832G>A	uc002igf.3	-	10	1185	c.1036C>T	c.(1036-1038)CGC>TGC	p.R346C	SLC4A1_uc002igg.3_Missense_Mutation_p.R346C	NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	346	Cytoplasmic.				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		GACTGATAGCGCCTTCGAAGT	0.642													19	59					0	0	0.010504	0	0		A	42335832	A	A	42335832	3	1	4	1	0	0	0	0	1	0	0	0	14675	1087	38	1	1743	1	SLC4A1	17	42335832	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	103827	42335832	38859378	3627	5593											
GPATCH8	23131	broad.mit.edu	37	chr17	42476588	42476588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggccccgggatcttgagcGctctctggtatgactccgag	5	9	14	13	4	2	2	0	2	2	0	4	4	3	3	3	3	1	2	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:42476588G>A	uc002igw.1	-	8	2921	c.2857C>T	c.(2857-2859)CGC>TGC	p.R953C	GPATCH8_uc002igv.1_Missense_Mutation_p.R875C|GPATCH8_uc010wiz.1_Missense_Mutation_p.R875C	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	953	Ser-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		GATCTTGAGCGCTCTCTGGTA	0.567													6	22					0	0	0.000978	0	0		A	42476588	A	A	42476588	3	1	4	1	0	0	0	0	1	0	0	0	6609	1087	38	1	1655	1	GPATCH8	17	42476588	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	140756	42476588	38718622	3628	5594											
GPATCH8	23131	broad.mit.edu	37	chr17	42476724	42476724	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcatctgagtcatgggaGcgcttggagtgccttcgtga	7	11	15	8	2	3	2	2	2	1	0	4	5	3	4	1	2	2	1	1	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:42476724G>A	uc002igw.1	-	8	2785	c.2721C>T	c.(2719-2721)CGC>CGT	p.R907R	GPATCH8_uc002igv.1_Silent_p.R829R|GPATCH8_uc010wiz.1_Silent_p.R829R	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	907	Ser-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		AGTCATGGGAGCGCTTGGAGT	0.488													11	37					0	0	0.000978	0	0		A	42476724	A	A	42476724	2	1	4	1	0	0	0	0	0	0	0	1	6609	958	34	2		2	GPATCH8	17	42476724	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	136	42476724	38718486	3629	5595											
GPATCH8	23131	broad.mit.edu	37	chr17	42580708	42580708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttacctgaaagtctcggtCttcgttgaagcgggagaagc	9	11	13	8	3	2	3	0	2	2	1	4	4	2	3	1	2	3	2	1	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:42580708C>T	uc002igw.1	-	1	95	c.31G>A	c.(31-33)GAC>AAC	p.D11N	GPATCH8_uc010wiz.1_5'UTR	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	11						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		AAGTCTCGGTCTTCGTTGAAG	0.627													7	4					0	0	0.004482	0	0		T	42580708	T	T	42580708	3	4	4	1	0	0	0	0	1	0	0	0	6609	913	32	4	4509	4	GPATCH8	17	42580708	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	103984	42580708	38614502	3630	5596											
EFTUD2	9343	broad.mit.edu	37	chr17	42956967	42956967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaccactccatctgagatgCgcaagccagctgtgacctca	10	7	10	14	1	2	2	1	2	1	1	3	4	3	3	4	1	3	2	4	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:42956967C>T	uc002ihn.2	-	9	920	c.659G>A	c.(658-660)CGC>CAC	p.R220H	EFTUD2_uc010wje.1_Missense_Mutation_p.R185H|EFTUD2_uc010wjf.1_Missense_Mutation_p.R210H	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	220						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				ATCTGAGATGCGCAAGCCAGC	0.478													22	59					0	0	0.00333	0	0		T	42956967	T	T	42956967	3	4	4	1	0	0	0	0	1	0	0	0	4967	768	27	1	2339	1	EFTUD2	17	42956967	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	376259	42956967	38238243	3631	5597											
PLCD3	113026	broad.mit.edu	37	chr17	43195797	43195797	+	Frame_Shift_Del	DEL	C	-	-																															gtgggtgttgtccaaggcagCcccctccggcgacaacaggt																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:43195797delC	uc002iib.2	-	6	1090	c.976delG	c.(976-978)GCTfs	p.A326fs		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	326					intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	TCCAAGGCAGCCCCCTCCGGC	0.572													22	46	---	---	---	---						.	-	43195797	-	-	43195797	7	5	4	1	0	1	0	1	0	0	0	0	12051	739	26	0	1432	0	PLCD3	17	43195797	Frame_Shift_Del	DEL	C	TCGA-BR-4184-01A-01D-1126-08	238830	43195797	37999413	3632	5598											
FMNL1	752	broad.mit.edu	37	chr17	43315992	43315992	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttccggaatgaggacagcaAcatcgacttcatggtgagct	11	10	11	9	2	1	2	1	2	0	0	3	5	2	4	1	3	3	2	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:43315992A>G	uc002iin.2	+	10	1156	c.956A>G	c.(955-957)AAC>AGC	p.N319S	FMNL1_uc002iiq.2_5'Flank	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	319	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						GAGGACAGCAACATCGACTTC	0.597													13	45					0	0	0.00245	0	0		G	43315992	G	G	43315992	3	3	4	1	0	0	0	0	1	0	0	0	5965	43	2	3	994	3	FMNL1	17	43315992	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	120195	43315992	37879218	3633	5599											
MAP3K14	9020	broad.mit.edu	37	chr17	43351908	43351908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagggacaattctgggtgagGtcaatcctgcacatgccatc	11	9	11	10	0	2	1	1	1	1	0	4	2	3	2	2	3	2	1	2	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:43351908G>A	uc002iiw.1	-	8	1452	c.1343C>T	c.(1342-1344)ACC>ATC	p.T448I	MAP3K14_uc002iiu.1_5'Flank|MAP3K14_uc010daj.1_RNA|MAP3K14_uc002iiv.1_Missense_Mutation_p.T32I	NM_003954	NP_003945	Q99558	M3K14_HUMAN	mitogen-activated protein kinase kinase kinase	448	Interaction with ZFP91.|Protein kinase.				cellular response to mechanical stimulus|I-kappaB kinase/NF-kappaB cascade|immune response|positive regulation of I-kappaB kinase/NF-kappaB cascade|T cell costimulation	cytosol	ATP binding|MAP kinase kinase kinase activity|NF-kappaB-inducing kinase activity|protein binding			central_nervous_system(3)|breast(2)|lung(1)|ovary(1)|stomach(1)	8						TCTGGGTGAGGTCAATCCTGC	0.562													4	27					0	0	0.009096	0	0		A	43351908	A	A	43351908	3	1	4	1	0	0	0	0	1	0	0	0	9266	1261	44	4	1540	4	MAP3K14	17	43351908	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	35916	43351908	37843302	3634	5600											
KIAA1267	284058	broad.mit.edu	37	chr17	44115975	44115975	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggaggtggagagctgtcGcaccaagggactgtgtggag	9	7	19	6	1	0	2	0	1	0	1	1	6	0	5	1	5	1	2	1	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:44115975G>A	uc002ikb.2	-	9	2555	c.2470C>T	c.(2470-2472)CGA>TGA	p.R824*	KIAA1267_uc002ikc.2_Nonsense_Mutation_p.R824*|KIAA1267_uc002ikd.2_Nonsense_Mutation_p.R824*|KIAA1267_uc010dav.2_Nonsense_Mutation_p.R824*|KIAA1267_uc010wkb.1_Nonsense_Mutation_p.R155*|KIAA1267_uc010wkc.1_Nonsense_Mutation_p.R92*	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	824						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				GAGAGCTGTCGCACCAAGGGA	0.562													14	24					0	0	0.00245	0	0		A	44115975	A	A	44115975	4	1	4	1	0	0	0	0	0	1	0	0	8235	1095	38	1	871	1	KIAA1267	17	44115975	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	764067	44115975	37079235	3635	5601											
WNT3	7473	broad.mit.edu	37	chr17	44845861	44845861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggtgacattgcaagtcCggtcccttgtgccaaaggaa	10	8	14	9	1	0	1	0	1	0	0	2	3	2	3	3	4	2	1	3	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:44845861C>T	uc002ikv.2	-	4	1012	c.893G>A	c.(892-894)CGG>CAG	p.R298Q		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	298					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			ATTGCAAGTCCGGTCCCTTGT	0.592													25	57					0	0	0.00278	0	0		T	44845861	T	T	44845861	3	4	4	1	0	0	0	0	1	0	0	0	17414	652	23	1	178	1	WNT3	17	44845861	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	729886	44845861	36349349	3636	5602											
WNT3	7473	broad.mit.edu	37	chr17	44846086	44846086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcacggaagtcaggctgcGcccaccagcaggtcttcacc	8	6	12	15	2	3	0	2	0	1	0	3	1	3	1	3	4	2	3	3	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:44846086G>A	uc002ikv.2	-	4	787	c.668C>T	c.(667-669)GCG>GTG	p.A223V		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	223					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			GTCAGGCTGCGCCCACCAGCA	0.602													10	37					0	0	0.001368	0	0		A	44846086	A	A	44846086	3	1	4	1	0	0	0	0	1	0	0	0	17414	1087	38	1	403	1	WNT3	17	44846086	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	225	44846086	36349124	3637	5603											
WNT3	7473	broad.mit.edu	37	chr17	44851186	44851186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgatgtaattgcggcagaagCgcagttgcttggggaccagg	9	8	16	8	3	0	1	0	0	0	1	0	3	0	2	1	4	3	5	1	4	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:44851186C>T	uc002ikv.2	-	2	289	c.170G>A	c.(169-171)CGC>CAC	p.R57H		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	57					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			GCGGCAGAAGCGCAGTTGCTT	0.662													8	9					0	0	0.008291	0	0		T	44851186	T	T	44851186	3	4	4	1	0	0	0	0	1	0	0	0	17414	768	27	1	909	1	WNT3	17	44851186	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5100	44851186	36344024	3638	5604											
ITGB3	3690	broad.mit.edu	37	chr17	45368350	45368350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaaagtagagctggaagtgCgtgacctccctgaagagttg	11	9	13	8	1	0	4	0	2	0	2	1	5	1	5	2	1	2	3	2	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:45368350C>T	uc002ilj.2	+	9	1176	c.1156C>T	c.(1156-1158)CGT>TGT	p.R386C	ITGB3_uc002ili.1_Missense_Mutation_p.R386C|ITGB3_uc010wkr.1_RNA	NM_000212	NP_000203	P05106	ITB3_HUMAN	integrin beta chain, beta 3 precursor	386	Extracellular (Potential).				activation of protein kinase activity|angiogenesis involved in wound healing|axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|platelet activation|platelet degranulation|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|regulation of bone resorption|smooth muscle cell migration|tube development	alphav-beta3 integrin-vitronectin complex|integrin complex|platelet alpha granule membrane	cell adhesion molecule binding|identical protein binding|platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			central_nervous_system(5)|large_intestine(1)	6					Abciximab(DB00054)|Tirofiban(DB00775)	GCTGGAAGTGCGTGACCTCCC	0.473													23	67					0	0	0.004656	0	0		T	45368350	T	T	45368350	3	4	4	1	0	0	0	0	1	0	0	0	7911	768	27	1	1190	1	ITGB3	17	45368350	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	517164	45368350	35826860	3639	5605											
SCRN2	90507	broad.mit.edu	37	chr17	45915225	45915225	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagcttacgcataagcctgGctctccctcttcacgaaggc	9	9	9	14	2	3	0	1	0	2	0	4	2	3	0	2	2	3	3	2	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:45915225G>A	uc002imd.2	-	8	1389	c.1263C>T	c.(1261-1263)AGC>AGT	p.S421S	SCRN2_uc002imc.2_Silent_p.S429S|SCRN2_uc002imf.2_3'UTR|SCRN2_uc002ime.2_RNA	NM_138355	NP_612364	Q96FV2	SCRN2_HUMAN	secernin 2 isoform 1	421					proteolysis		dipeptidase activity			ovary(1)	1						CATAAGCCTGGCTCTCCCTCT	0.657													5	12					0	0	0.000602	0	0		A	45915225	A	A	45915225	2	1	4	1	0	0	0	0	0	0	0	1	13964	1194	42	2		2	SCRN2	17	45915225	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	546875	45915225	35279985	3640	5606											
SCRN2	90507	broad.mit.edu	37	chr17	45915694	45915694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggtagagggtatgccgaCgatctacctgagtctggaat	10	9	13	9	3	2	2	0	1	2	1	2	5	2	3	2	3	2	2	2	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:45915694C>T	uc002imd.2	-	7	1187	c.1061G>A	c.(1060-1062)CGT>CAT	p.R354H	SCRN2_uc002imc.2_Missense_Mutation_p.R362H|SCRN2_uc002imf.2_Missense_Mutation_p.R354H|SCRN2_uc002ime.2_RNA	NM_138355	NP_612364	Q96FV2	SCRN2_HUMAN	secernin 2 isoform 1	354					proteolysis		dipeptidase activity			ovary(1)	1						GGTATGCCGACGATCTACCTG	0.622													25	32					0	0	0.00632	0	0		T	45915694	T	T	45915694	3	4	4	1	0	0	0	0	1	0	0	0	13964	536	19	1	242	1	SCRN2	17	45915694	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	469	45915694	35279516	3641	5607											
HOXB1	3211	broad.mit.edu	37	chr17	46607897	46607897	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctccgtagccatcggAcaagccccctagctgggccc	7	6	10	18	2	0	0	0	0	0	0	2	1	1	1	6	2	4	3	6	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:46607897A>G	uc002ink.1	-	1	376	c.370T>C	c.(370-372)TCC>CCC	p.S124P		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	124						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TAGCCATCGGACAAGCCCCCT	0.627													5	28					0	0	0.001984	0	0		G	46607897	G	G	46607897	3	3	4	1	0	0	0	0	1	0	0	0	7315	275	10	3	543	3	HOXB1	17	46607897	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	692203	46607897	34587313	3642	5608											
HOXB8	3218	broad.mit.edu	37	chr17	46690756	46690756	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgtcagtcccagggcgtgCgatacctcgattcgccgctt	5	11	11	14	5	2	0	1	0	1	0	5	2	3	0	3	1	2	1	3	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:46690756C>T	uc002inw.2	-	2	775	c.540G>A	c.(538-540)TCG>TCA	p.S180S	HOXB7_uc002inv.2_5'Flank	NM_024016	NP_076921	P17481	HXB8_HUMAN	homeobox B8	180	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CCAGGGCGTGCGATACCTCGA	0.532													7	104					0	0	0.001984	0	0		T	46690756	T	T	46690756	2	4	4	1	0	0	0	0	0	0	0	1	7323	755	27	1		1	HOXB8	17	46690756	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	82859	46690756	34504454	3643	5609											
ABI3	51225	broad.mit.edu	37	chr17	47295191	47295191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccggccagaaggtcatcGccccagagaacctaccccct	9	4	8	20	2	1	2	1	0	0	2	2	3	1	2	8	2	2	0	8	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:47295191G>A	uc002iop.1	+	3	874	c.376G>A	c.(376-378)GCC>ACC	p.A126T	ABI3_uc002ioq.1_Missense_Mutation_p.A120T	NM_016428	NP_057512	Q9P2A4	ABI3_HUMAN	NESH protein isoform 1	126					cellular component movement|regulation of cell migration	cytoplasm|lamellipodium	protein binding				0			Epithelial(5;6.37e-06)|all cancers(6;6.36e-05)			GAAGGTCATCGCCCCAGAGAA	0.607										HNSCC(55;0.14)			9	22					0	0	0.008291	0	0		A	47295191	A	A	47295191	3	1	4	1	0	0	0	0	1	0	0	0	90	1087	38	1	386	1	ABI3	17	47295191	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	604435	47295191	33900019	3644	5610											
PHB	5245	broad.mit.edu	37	chr17	47486737	47486737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgatggacggcagcacacGctcatcatagtcctctccga	9	9	10	13	3	3	1	2	1	1	0	5	3	4	2	2	2	1	3	2	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:47486737G>A	uc002iox.1	-	4	422	c.349C>T	c.(349-351)CGT>TGT	p.R117C		NM_002634	NP_002625	P35232	PHB_HUMAN	prohibitin	117					cellular response to interleukin-6|DNA replication|glucocorticoid receptor signaling pathway|histone deacetylation|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|progesterone receptor signaling pathway|regulation of apoptosis	integral to plasma membrane|mitochondrial inner membrane|nucleoplasm	histone deacetylase binding|transcription regulatory region DNA binding				0	all_cancers(4;2.62e-14)|Breast(4;4.21e-29)|all_epithelial(4;6.9e-18)		Epithelial(5;8.1e-06)|all cancers(6;7.71e-05)			GGCAGCACACGCTCATCATAG	0.572													12	18					0	0	0.00245	0	0		A	47486737	A	A	47486737	3	1	4	1	0	0	0	0	1	0	0	0	11833	1087	38	1	485	1	PHB	17	47486737	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	191546	47486737	33708473	3645	5611											
NGFR	4804	broad.mit.edu	37	chr17	47583719	47583719	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaagccgtgcaccgagtgCgtggggctccagagcatgtc	7	7	15	12	3	0	1	0	0	0	1	2	2	1	1	3	2	5	4	3	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:47583719C>T	uc002ioz.3	+	3	392	c.267C>T	c.(265-267)TGC>TGT	p.C89C		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	89	Extracellular (Potential).|TNFR-Cys 2.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					GCACCGAGTGCGTGGGGCTCC	0.672													4	3					0	0	0.001168	0	0		T	47583719	T	T	47583719	2	4	4	1	0	0	0	0	0	0	0	1	10415	776	27	1		1	NGFR	17	47583719	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	96982	47583719	33611491	3646	5612											
MYST2	11143	broad.mit.edu	37	chr17	47898713	47898713	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgcaggccaaatgtgtgtgGaaacacccacctggtgatga	11	9	12	9	0	0	2	0	2	0	0	0	3	0	3	3	3	2	1	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:47898713G>A	uc002ipm.2	+	10	1296	c.1170G>A	c.(1168-1170)TGG>TGA	p.W390*	MYST2_uc002ipl.1_Nonsense_Mutation_p.W360*|MYST2_uc010wma.1_Nonsense_Mutation_p.W251*|MYST2_uc010wmb.1_Nonsense_Mutation_p.W280*|MYST2_uc010wmc.1_Nonsense_Mutation_p.W221*|MYST2_uc010wmd.1_Nonsense_Mutation_p.W234*|MYST2_uc010wme.1_Nonsense_Mutation_p.W204*|MYST2_uc010wmf.1_Nonsense_Mutation_p.W55*|MYST2_uc010wmg.1_5'UTR	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2	390					DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						AATGTGTGTGGAAACACCCAC	0.428													11	38					0	0	0.000978	0	0		A	47898713	A	A	47898713	4	1	4	1	0	0	0	0	0	1	0	0	10121	1183	41	4	1208	4	MYST2	17	47898713	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	314994	47898713	33296497	3647	5613											
ITGA3	3675	broad.mit.edu	37	chr17	48145498	48145498	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgggcaagtgctacgtgCgaggcaatgacctagagctg	9	8	16	8	2	0	2	0	1	0	1	0	3	0	2	1	3	4	4	1	3	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48145498C>T	uc010dbl.2	+	4	957	c.493C>T	c.(493-495)CGA>TGA	p.R165*	ITGA3_uc010dbm.2_Nonsense_Mutation_p.R165*	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	165	FG-GAP 2.|Extracellular (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						GTGCTACGTGCGAGGCAATGA	0.597													8	73					0	0	0.006214	0	0		T	48145498	T	T	48145498	4	4	4	1	0	0	0	0	0	1	0	0	7893	760	27	1	507	1	ITGA3	17	48145498	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	246785	48145498	33049712	3648	5614											
PPP1R9B	84687	broad.mit.edu	37	chr17	48212980	48212980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgactcctccagaacccgacGctgtgcagtctcctttttca	7	11	7	16	3	2	1	1	0	1	1	5	3	4	1	4	0	2	2	4	0	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48212980G>A	uc002iqh.3	-	11	2341	c.2338C>T	c.(2338-2340)CGT>TGT	p.R780C		NM_032595	NP_115984	Q96SB3	NEB2_HUMAN	protein phosphatase 1, regulatory subunit 9B	778	Potential.|Interacts with TGN38 (By similarity).				cell cycle arrest|cell differentiation|cell migration|filopodium assembly|negative regulation of cell growth|nervous system development|regulation of cell growth by extracellular stimulus|regulation of cell proliferation|regulation of exit from mitosis|RNA splicing	adherens junction|cytoskeleton|dendritic spine|filopodium|lamellipodium|nucleoplasm|protein phosphatase type 1 complex|ruffle membrane|synapse	actin binding|protein phosphatase 1 binding|protein phosphatase inhibitor activity				0						AGAACCCGACGCTGTGCAGTC	0.622													3	7					0	0	0.001984	0	0		A	48212980	A	A	48212980	3	1	4	1	0	0	0	0	1	0	0	0	12401	1087	38	1	123	1	PPP1R9B	17	48212980	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	67482	48212980	32982230	3649	5615											
COL1A1	1277	broad.mit.edu	37	chr17	48274561	48274561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaggcccaggaggcccacGctcaccaggacgaccaggtt	9	4	13	15	2	1	1	1	1	0	0	1	4	1	3	4	5	0	2	4	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48274561G>A	uc002iqm.2	-	10	856	c.730C>T	c.(730-732)CGT>TGT	p.R244C		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	244	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding	p.R244H(1)	COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	GGAGGCCCACGCTCACCAGGA	0.607			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						15	29					0	0	0.00499	0	0		A	48274561	A	A	48274561	3	1	4	1	0	0	0	0	1	0	0	0	3680	1087	38	1	3832	1	COL1A1	17	48274561	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	61581	48274561	32920649	3650	5616											
XYLT2	64132	broad.mit.edu	37	chr17	48433538	48433538	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactggaaccgcaagctgggCtgcaagtgccagtacaagca	13	5	12	11	1	0	0	0	0	0	0	0	1	0	1	2	2	7	6	2	2	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48433538C>A	uc002iqo.2	+	7	1507	c.1398C>A	c.(1396-1398)GGC>GGA	p.G466G	XYLT2_uc010dbo.2_RNA	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	466	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)					GCAAGCTGGGCTGCAAGTGCC	0.612													7	41					0.00307968	0.00319789	0.00308	1	0		A	48433538	A	A	48433538	2	1	4	1	0	0	0	0	0	0	0	1	17490	784	28	5		5	XYLT2	17	48433538	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	158977	48433538	32761672	3651	5617											
EME1	146956	broad.mit.edu	37	chr17	48452901	48452901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgacccacaagcaactgaGccctgaggactctagctccc	10	7	8	16	0	2	3	0	3	2	0	3	4	3	4	3	1	4	2	3	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48452901G>A	uc002iqs.1	+	2	405	c.332G>A	c.(331-333)AGC>AAC	p.S111N	MRPL27_uc002iqq.2_5'Flank|MRPL27_uc002iqr.2_5'Flank|EME1_uc010dbp.1_Missense_Mutation_p.S111N	NM_152463	NP_689676	Q96AY2	EME1_HUMAN	essential meiotic endonuclease 1 homolog 1	111					DNA recombination|DNA repair	nucleolus	DNA binding|endonuclease activity|metal ion binding|protein binding				0	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			AAGCAACTGAGCCCTGAGGAC	0.433								Direct_reversal_of_damage|Homologous_recombination					5	106					0	0	0.000602	0	0		A	48452901	A	A	48452901	3	1	4	1	0	0	0	0	1	0	0	0	5096	971	34	2	334	2	EME1	17	48452901	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	19363	48452901	32742309	3652	5618											
EPN3	55040	broad.mit.edu	37	chr17	48614339	48614339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggatgaggagcggctgcGgcaggagcgaacccacgccc	10	2	16	13	4	0	1	0	1	0	0	0	5	0	4	2	5	4	2	2	5	2	0	rs141722620	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48614339G>A	uc002ira.3	+	2	857	c.422G>A	c.(421-423)CGG>CAG	p.R141Q	EPN3_uc010wms.1_Missense_Mutation_p.R196Q|EPN3_uc010wmt.1_RNA|EPN3_uc010wmu.1_Missense_Mutation_p.R141Q	NM_017957	NP_060427	Q9H201	EPN3_HUMAN	epsin 3	141	ENTH.					clathrin-coated vesicle|nucleus|perinuclear region of cytoplasm	lipid binding			ovary(1)	1	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;2.88e-09)			GAGCGGCTGCGGCAGGAGCGA	0.657													3	10					0	0	0.000602	0	0		A	48614339	A	A	48614339	3	1	4	1	0	0	0	0	1	0	0	0	5195	1116	39	1	424	1	EPN3	17	48614339	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	161438	48614339	32580871	3653	5619											
ABCC3	8714	broad.mit.edu	37	chr17	48755223	48755223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcatccgggcctacaaccGcagccgggattttgagatca	9	9	11	12	3	2	1	2	1	0	1	3	3	3	2	4	2	3	1	4	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48755223G>A	uc002isl.2	+	24	3577	c.3497G>A	c.(3496-3498)CGC>CAC	p.R1166H	ABCC3_uc002isn.2_5'Flank	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	1166	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	GCCTACAACCGCAGCCGGGAT	0.557													8	114					0	0	0.006214	0	0		A	48755223	A	A	48755223	3	1	4	1	0	0	0	0	1	0	0	0	54	1087	38	1	3675	1	ABCC3	17	48755223	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	140884	48755223	32439987	3654	5620											
SPAG9	9043	broad.mit.edu	37	chr17	49091605	49091605	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcatacctagtaaatctgCtccttcatccacatctccta	11	14	2	14	0	4	0	2	0	2	0	7	0	6	0	4	0	2	2	4	0	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:49091605C>A	uc002itc.2	-	9	1410	c.1201G>T	c.(1201-1203)GCA>TCA	p.A401S	SPAG9_uc002itb.2_Missense_Mutation_p.A387S|SPAG9_uc002itd.2_Missense_Mutation_p.A387S|SPAG9_uc002itf.2_Missense_Mutation_p.A222S|SPAG9_uc002ita.2_Missense_Mutation_p.A244S|SPAG9_uc002ite.2_Missense_Mutation_p.A231S	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	401					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			AGTAAATCTGCTCCTTCATCC	0.348													6	101					0.00116845	0.00121571	0.001168	1	0		A	49091605	A	A	49091605	3	1	4	1	0	0	0	0	1	0	0	0	15010	797	28	5	2852	5	SPAG9	17	49091605	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	336382	49091605	32103605	3655	5621											
SPAG9	9043	broad.mit.edu	37	chr17	49119004	49119004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattcctaatgatatagggCgttcttttctatttgaagag	12	16	8	5	1	2	3	0	2	2	1	3	3	3	3	1	1	0	1	1	1	6	9	rs139684309		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:49119004C>T	uc002itc.2	-	5	808	c.599G>A	c.(598-600)CGC>CAC	p.R200H	SPAG9_uc002itb.2_Missense_Mutation_p.R200H|SPAG9_uc002itd.2_Missense_Mutation_p.R200H|SPAG9_uc002itf.2_Missense_Mutation_p.R35H|SPAG9_uc002ita.2_Missense_Mutation_p.R57H|SPAG9_uc002ite.2_Missense_Mutation_p.R30H|SPAG9_uc002itg.2_Missense_Mutation_p.R57H	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	200					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			TGATATAGGGCGTTCTTTTCT	0.403													30	86					0	0	0.009535	0	0		T	49119004	T	T	49119004	3	4	4	1	0	0	0	0	1	0	0	0	15010	768	27	1	3470	1	SPAG9	17	49119004	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	27399	49119004	32076206	3656	5622											
KIF2B	84643	broad.mit.edu	37	chr17	51901021	51901021	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctcagtcctggagcccccGcaagaacatcgcatctgcgt	9	8	9	15	3	2	1	1	0	2	1	5	2	3	2	3	1	3	2	3	1	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:51901021G>A	uc002iua.2	+	1	783	c.627G>A	c.(625-627)CCG>CCA	p.P209P	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	209					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TGGAGCCCCCGCAAGAACATC	0.537													12	40					0	0	0.003163	0	0		A	51901021	A	A	51901021	2	1	4	1	0	0	0	0	0	0	0	1	8314	1074	38	1		1	KIF2B	17	51901021	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2782017	51901021	29294189	3657	5623											
TMEM100	55273	broad.mit.edu	37	chr17	53798230	53798230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgcggtgaccacgatgcCggcgatgaagacaaccacag	12	3	12	14	5	0	3	0	2	0	1	0	5	0	3	4	2	2	0	4	2	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:53798230C>T	uc002iuj.3	-	2	513	c.202G>A	c.(202-204)GGC>AGC	p.G68S	TMEM100_uc002iuk.3_Missense_Mutation_p.G68S	NM_018286	NP_060756	Q9NV29	TM100_HUMAN	transmembrane protein 100	68	Helical; (Potential).					integral to membrane					0						ACCACGATGCCGGCGATGAAG	0.527													30	67					0	0	0.003271	0	0		T	53798230	T	T	53798230	3	4	4	1	0	0	0	0	1	0	0	0	16040	652	23	1	206	1	TMEM100	17	53798230	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1897209	53798230	27396980	3658	5624											
DGKE	8526	broad.mit.edu	37	chr17	54925404	54925404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtagggtgggtcctggatgCagttgatgacatgaagatta	10	12	15	4	0	0	4	0	3	0	1	1	5	1	5	1	3	1	3	1	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:54925404C>T	uc002iur.2	+	5	1046	c.866C>T	c.(865-867)GCA>GTA	p.A289V	DGKE_uc002ius.1_Missense_Mutation_p.A289V	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	289	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|phospholipid biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding|protein binding			breast(2)	2	Breast(9;3.59e-07)					GTCCTGGATGCAGTTGATGAC	0.373													4	58					0	0	0.009096	0	0		T	54925404	T	T	54925404	3	4	4	1	0	0	0	0	1	0	0	0	4474	710	25	2	880	2	DGKE	17	54925404	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1127174	54925404	26269806	3659	5625											
TRIM25	7706	broad.mit.edu	37	chr17	54976496	54976496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaccttcttcacagggCgtgtggatttgtgtgtggac	6	13	15	7	1	2	1	1	0	1	1	2	4	2	3	1	4	0	0	1	4	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:54976496C>T	uc002iut.2	-	5	1193	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	TRIM25_uc010dcj.2_Missense_Mutation_p.R170H	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25	378	Interaction with influenza A virus NS1.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)					CTTCACAGGGCGTGTGGATTT	0.602													11	40					0	0	0.001855	0	0		T	54976496	T	T	54976496	3	4	4	1	0	0	0	0	1	0	0	0	16525	768	27	1	779	1	TRIM25	17	54976496	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	51092	54976496	26218714	3660	5626											
AKAP1	8165	broad.mit.edu	37	chr17	55184443	55184443	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccgccactgccagaaagtActgtgcccttcagcaatggg	9	7	10	15	1	1	1	1	0	0	1	1	1	1	1	5	1	4	2	5	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:55184443A>G	uc002iux.2	+	2	1849	c.1618A>G	c.(1618-1620)ACT>GCT	p.T540A	AKAP1_uc010wnl.1_Missense_Mutation_p.T540A|AKAP1_uc002iuy.2_RNA|AKAP1_uc010dcm.2_Missense_Mutation_p.T540A	NM_003488	NP_003479	Q92667	AKAP1_HUMAN	A-kinase anchor protein 1 precursor	540					blood coagulation	cytosol|integral to membrane|mitochondrial outer membrane	protein binding|RNA binding			ovary(1)	1	Breast(9;5.46e-08)					GCCAGAAAGTACTGTGCCCTT	0.567													4	70					0	0	0.009096	0	0		G	55184443	G	G	55184443	3	3	4	1	0	0	0	0	1	0	0	0	445	391	14	3	1620	3	AKAP1	17	55184443	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	207947	55184443	26010767	3661	5627											
LPO	4025	broad.mit.edu	37	chr17	56326511	56326511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgacccgtgcagcccttaccGcaccattacgggagactgca	9	6	10	16	4	0	1	0	0	0	1	0	3	0	1	4	1	5	3	4	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:56326511G>A	uc002ivt.2	+	5	732	c.416G>A	c.(415-417)CGC>CAC	p.R139H	LPO_uc010dco.2_Missense_Mutation_p.R139H|LPO_uc010wnr.1_Missense_Mutation_p.R56H|LPO_uc010wns.1_Missense_Mutation_p.R80H|LPO_uc010dcp.2_Missense_Mutation_p.R56H|LPO_uc010dcq.2_5'UTR	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	139					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						AGCCCTTACCGCACCATTACG	0.627													19	32					0	0	0.006122	0	0		A	56326511	A	A	56326511	3	1	4	1	0	0	0	0	1	0	0	0	8940	1087	38	1	430	1	LPO	17	56326511	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1142068	56326511	24868699	3662	5628											
HSF5	124535	broad.mit.edu	37	chr17	56565340	56565340	+	Frame_Shift_Del	DEL	C	-	-																															cattgcctgccggtttgccgCcccccggcccgcccagcacc																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:56565340delC	uc002iwi.1	-	1	420	c.296delG	c.(295-297)GGCfs	p.G99fs		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	99	By similarity.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CGGTTTGCCGCCCCCCGGCCC	0.637													4	8	---	---	---	---						.	-	56565340	-	-	56565340	7	5	4	1	0	1	0	1	0	0	0	0	7415	739	26	0	1518	0	HSF5	17	56565340	Frame_Shift_Del	DEL	C	TCGA-BR-4184-01A-01D-1126-08	238829	56565340	24629870	3663	5629											
PPM1E	22843	broad.mit.edu	37	chr17	57058136	57058136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctagattgtctcatttacGccaccactactcaaagaagt	12	13	5	11	1	3	2	2	0	2	2	4	2	3	2	2	0	2	0	2	0	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:57058136G>A	uc002iwx.2	+	7	2139	c.2012G>A	c.(2011-2013)CGC>CAC	p.R671H	PPM1E_uc010ddd.2_Missense_Mutation_p.R434H	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	680					protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			TCTCATTTACGCCACCACTAC	0.428													56	171					0	0	0.00361	0	0		A	57058136	A	A	57058136	3	1	4	1	0	0	0	0	1	0	0	0	12360	1087	38	1	2038	1	PPM1E	17	57058136	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	492796	57058136	24137074	3664	5630											
CLTC	1213	broad.mit.edu	37	chr17	57725723	57725723	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaatgcagaagaatcaacGttattttgttttgcagttcg	12	14	10	5	2	1	2	1	0	0	2	2	3	1	3	0	1	3	5	0	1	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:57725723G>A	uc002ixq.1	+	4	1085	c.642G>A	c.(640-642)ACG>ACA	p.T214T	CLTC_uc002ixp.2_Silent_p.T214T|CLTC_uc002ixr.1_Silent_p.T218T	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	214	Globular terminal domain.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					AAGAATCAACGTTATTTTGTT	0.398			T	ALK|TFE3	ALCL|renal 								43	99					0	0	0.00361	0	0		A	57725723	A	A	57725723	2	1	4	1	0	0	0	0	0	0	0	1	3569	1132	40	1		1	CLTC	17	57725723	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	667587	57725723	23469487	3665	5631											
CLTC	1213	broad.mit.edu	37	chr17	57743595	57743595	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatgaaccttatgcatgcGcctcaagtatgtgttttaat	11	14	9	7	1	1	2	1	1	0	1	1	3	1	2	2	0	3	3	2	0	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:57743595G>A	uc002ixq.1	+	11	2219	c.1776G>A	c.(1774-1776)GCG>GCA	p.A592A	CLTC_uc002ixp.2_Silent_p.A592A|CLTC_uc002ixr.1_Silent_p.A596A	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	592	Heavy chain arm.|Distal segment.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TTATGCATGCGCCTCAAGTAT	0.433			T	ALK|TFE3	ALCL|renal 								6	70					0	0	0.001984	0	0		A	57743595	A	A	57743595	2	1	4	1	0	0	0	0	0	0	0	1	3569	1074	38	1		1	CLTC	17	57743595	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	17872	57743595	23451615	3666	5632											
USP32	84669	broad.mit.edu	37	chr17	58365944	58365944	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcactatcatcagtgagggTaacatacacacctccagata	15	9	6	11	0	3	2	3	1	0	1	4	2	4	2	2	1	2	1	2	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:58365944T>C	uc002iyo.1	-	5	797	c.511A>G	c.(511-513)ACC>GCC	p.T171A	USP32_uc010wov.1_Missense_Mutation_p.T171A	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	171					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			TCAGTGAGGGTAACATACACA	0.363													28	87					0	0	0.002096	0	0		C	58365944	C	C	58365944	3	2	4	1	0	0	0	0	1	0	0	0	17089	1638	57	3	4423	3	USP32	17	58365944	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	622349	58365944	22829266	3667	5633											
PPM1D	8493	broad.mit.edu	37	chr17	58740851	58740851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccatgcgacgcagacttaggGgccagaagaaaattggaaat	15	6	12	8	2	0	3	0	0	0	3	0	5	0	4	2	3	1	1	2	3	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:58740851G>A	uc002iyt.1	+	6	1978	c.1756G>A	c.(1756-1758)GGC>AGC	p.G586S	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	586					negative regulation of cell proliferation|protein dephosphorylation|response to radiation	nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein binding|protein serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)			CAGACTTAGGGGCCAGAAGAA	0.438											OREG0031485	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	7	82					0	0	0.001984	0	0		A	58740851	A	A	58740851	3	1	4	1	0	0	0	0	1	0	0	0	12359	1232	43	4	1778	4	PPM1D	17	58740851	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	374907	58740851	22454359	3668	5634											
BCAS3	54828	broad.mit.edu	37	chr17	59155837	59155837	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatggtccgagtgacacGccacagcctcttttggattt	7	13	9	12	2	2	1	1	1	2	0	4	3	3	2	3	2	1	0	3	2	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:59155837G>A	uc002iyv.3	+	22	2428	c.2319G>A	c.(2317-2319)ACG>ACA	p.T773T	BCAS3_uc002iyu.3_Silent_p.T758T|BCAS3_uc002iyw.3_Silent_p.T754T|BCAS3_uc002iyy.3_Silent_p.T529T|BCAS3_uc002iyz.3_Silent_p.T327T|BCAS3_uc002iza.3_Silent_p.T312T	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	773						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			CGAGTGACACGCCACAGCCTC	0.438													6	45					0	0	0.001984	0	0		A	59155837	A	A	59155837	2	1	4	1	0	0	0	0	0	0	0	1	1353	1074	38	1		1	BCAS3	17	59155837	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	414986	59155837	22039373	3669	5635											
INTS2	57508	broad.mit.edu	37	chr17	59971251	59971251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggacccgaactgcatgagCtgtgacaacctaaaagggaa	15	5	12	9	1	0	2	0	2	0	0	0	5	0	4	2	2	4	2	2	2	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:59971251C>T	uc002izn.2	-	13	1673	c.1597G>A	c.(1597-1599)GCT>ACT	p.A533T	INTS2_uc002izm.2_Missense_Mutation_p.A525T	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	533					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						ACTGCATGAGCTGTGACAACC	0.373													5	10					0	0	0.001984	0	0		T	59971251	T	T	59971251	3	4	4	1	0	0	0	0	1	0	0	0	7794	797	28	2	2069	2	INTS2	17	59971251	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	815414	59971251	21223959	3670	5636											
MED13	9969	broad.mit.edu	37	chr17	60087922	60087922	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacatactctgtaactgaTgttacactttcctgtccaaa	13	14	4	10	0	1	1	0	1	1	0	3	1	3	1	2	0	4	2	2	0	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:60087922T>C	uc002izo.2	-	9	2033	c.1956A>G	c.(1954-1956)ACA>ACG	p.T652T	MED13_uc002izp.2_Silent_p.T268T	NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	652					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						CTGTAACTGATGTTACACTTT	0.348													7	31					0	0	0.004482	0	0		C	60087922	C	C	60087922	2	2	4	1	0	0	0	0	0	0	0	1	9448	1451	51	3		3	MED13	17	60087922	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	116671	60087922	21107288	3671	5637											
TLK2	11011	broad.mit.edu	37	chr17	60673966	60673966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatgcatgtagggaataccGgattcataaagagctggatc	13	9	12	7	1	1	1	1	0	0	1	2	4	1	4	1	3	3	4	1	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:60673966G>A	uc010ddp.2	+	18	1815	c.1547G>A	c.(1546-1548)CGG>CAG	p.R516Q	TLK2_uc002izx.3_Missense_Mutation_p.R342Q|TLK2_uc002izz.3_Missense_Mutation_p.R494Q|TLK2_uc002jaa.3_Missense_Mutation_p.R462Q|TLK2_uc010wpd.1_Missense_Mutation_p.R462Q	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	516	Protein kinase.				cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						AGGGAATACCGGATTCATAAA	0.378													28	126					0	0	0.002096	0	0		A	60673966	A	A	60673966	3	1	4	1	0	0	0	0	1	0	0	0	15969	1116	39	1	1543	1	TLK2	17	60673966	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	586044	60673966	20521244	3672	5638											
MARCH10	162333	broad.mit.edu	37	chr17	60879031	60879031	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactcagagtccaccttatgCtgcatgtcccgcagatactg	9	11	8	13	1	1	2	1	0	0	2	3	2	3	2	3	0	4	3	3	0	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:60879031C>T	uc010ddr.2	-	2	304	c.66G>A	c.(64-66)CAG>CAA	p.Q22Q	MARCH10_uc002jag.3_Silent_p.Q22Q|MARCH10_uc010dds.2_Silent_p.Q22Q|MARCH10_uc002jah.2_Silent_p.Q22Q	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	22							ligase activity|zinc ion binding				0						CCACCTTATGCTGCATGTCCC	0.443													23	89					0	0	0.003954	0	0		T	60879031	T	T	60879031	2	4	4	1	0	0	0	0	0	0	0	1	9317	796	28	2		2	MARCH10	17	60879031	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	205065	60879031	20316179	3673	5639											
ACE	1636	broad.mit.edu	37	chr17	61571353	61571353	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccccttcagctacctcgtCgatcagtggcgctggagggt	6	10	12	13	3	2	0	2	0	0	0	5	2	3	1	3	3	2	2	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:61571353C>T	uc002jau.1	+	21	3229	c.3207C>T	c.(3205-3207)GTC>GTT	p.V1069V	ACE_uc002jav.1_Silent_p.V495V|ACE_uc010ddv.1_Silent_p.V296V|ACE_uc010wpj.1_Silent_p.V495V|ACE_uc002jaw.1_RNA|ACE_uc010wpk.1_Silent_p.V315V	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	1069	Extracellular (Potential).|Peptidase M2 2.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	GCTACCTCGTCGATCAGTGGC	0.537													15	40					0	0	0.004007	0	0		T	61571353	T	T	61571353	2	4	4	1	0	0	0	0	0	0	0	1	136	871	31	1		1	ACE	17	61571353	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	692322	61571353	19623857	3674	5640											
KCNH6	81033	broad.mit.edu	37	chr17	61611628	61611628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcattgacatggtggccGccatccctttcgacctcctg	5	12	8	16	2	1	1	1	1	0	0	5	2	4	1	6	2	0	0	6	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:61611628G>A	uc002jay.2	+	5	1137	c.1057G>A	c.(1057-1059)GCC>ACC	p.A353T	KCNH6_uc002jax.1_Missense_Mutation_p.A353T|KCNH6_uc010wpl.1_Missense_Mutation_p.A230T|KCNH6_uc010wpm.1_Missense_Mutation_p.A353T|KCNH6_uc002jaz.1_Missense_Mutation_p.A353T	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	353	Helical; Name=Segment S3; (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	CATGGTGGCCGCCATCCCTTT	0.622													20	39					0	0	0.001882	0	0		A	61611628	A	A	61611628	3	1	4	1	0	0	0	0	1	0	0	0	8052	1087	38	1	1075	1	KCNH6	17	61611628	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	40275	61611628	19583582	3675	5641											
DDX42	11325	broad.mit.edu	37	chr17	61895700	61895700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcaagacagataagacagCtgacggctttgctgtcccag	12	7	11	11	1	0	4	0	1	0	3	1	4	1	4	1	1	3	4	1	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:61895700C>T	uc002jbu.2	+	19	3016	c.2759C>T	c.(2758-2760)GCT>GTT	p.A920V	DDX42_uc002jbv.2_Missense_Mutation_p.A920V|DDX42_uc002jbx.2_Missense_Mutation_p.A656V|DDX42_uc002jby.2_Missense_Mutation_p.A466V|DDX42_uc010wps.1_Missense_Mutation_p.A288V	NM_007372	NP_031398	Q86XP3	DDX42_HUMAN	DEAD box polypeptide 42 protein	920					protein localization|regulation of anti-apoptosis	Cajal body|cytoplasm|nuclear speck	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)|large_intestine(1)	5						GATAAGACAGCTGACGGCTTT	0.473													23	58					0	0	0.004656	0	0		T	61895700	T	T	61895700	3	4	4	1	0	0	0	0	1	0	0	0	4365	797	28	2	2825	2	DDX42	17	61895700	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	284072	61895700	19299510	3676	5642											
SCN4A	6329	broad.mit.edu	37	chr17	62026054	62026054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcttgaagcaggccctgcGcagagtccaccacttcttcc	9	9	8	15	1	2	2	0	1	2	1	4	2	4	2	4	1	2	2	4	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:62026054G>A	uc002jds.1	-	16	3138	c.3061C>T	c.(3061-3063)CGC>TGC	p.R1021C		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1021					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	CAGGCCCTGCGCAGAGTCCAC	0.617													4	18					0	0	0.009096	0	0		A	62026054	A	A	62026054	3	1	4	1	0	0	0	0	1	0	0	0	13945	1087	38	1	2485	1	SCN4A	17	62026054	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	130354	62026054	19169156	3677	5643											
SMURF2	64750	broad.mit.edu	37	chr17	62574630	62574630	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgggcactcttggatcatgCcatgtgctcacaccagtctg	7	11	10	13	0	4	0	2	0	2	0	4	1	4	1	2	2	2	2	2	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:62574630C>T	uc002jep.1	-	9	1225	c.837G>A	c.(835-837)TGG>TGA	p.W279*	SMURF2_uc002jeq.1_Nonsense_Mutation_p.W38*|SMURF2_uc002jer.1_Nonsense_Mutation_p.W38*	NM_022739	NP_073576	Q9HAU4	SMUF2_HUMAN	SMAD specific E3 ubiquitin protein ligase 2	279	WW 2.			Missing: Abolishes interaction with SMAD2 and SMAD7.	BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|membrane raft|nucleus|plasma membrane|ubiquitin ligase complex	identical protein binding|SMAD binding|ubiquitin-protein ligase activity			skin(3)|lung(1)	4	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)			TTGGATCATGCCATGTGCTCA	0.368													5	56					0	0	0.001168	0	0		T	62574630	T	T	62574630	4	4	4	1	0	0	0	0	0	1	0	0	14845	740	26	2	1453	2	SMURF2	17	62574630	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	548576	62574630	18620580	3678	5644											
RGS9	8787	broad.mit.edu	37	chr17	63221135	63221135	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacagccgggccagcacatgGctcccagcccccatctgacc	8	5	9	19	1	1	1	0	1	1	0	2	1	2	1	6	2	4	2	6	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:63221135G>T	uc002jfe.2	+	18	1533	c.1423G>T	c.(1423-1425)GCT>TCT	p.A475S	RGS9_uc010dem.2_Missense_Mutation_p.A472S|RGS9_uc002jfd.2_Missense_Mutation_p.A472S|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Missense_Mutation_p.A246S	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	475					intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						CCAGCACATGGCTCCCAGCCC	0.642													6	71					1.26484e-09	1.35768e-09	0.00308	1	0		T	63221135	T	T	63221135	3	4	4	1	0	0	0	0	1	0	0	0	13338	1203	42	5	1548	5	RGS9	17	63221135	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	646505	63221135	17974075	3679	5645											
APOH	350	broad.mit.edu	37	chr17	64216750	64216750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccaaacatcgcatgttgtgGcaaacattcaaaaactgctg	14	10	7	10	1	1	0	1	0	0	0	3	0	2	0	1	1	4	4	1	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:64216750G>A	uc002jfn.3	-	5	585	c.526C>T	c.(526-528)CCA>TCA	p.P176S		NM_000042	NP_000033	P02749	APOH_HUMAN	apolipoprotein H precursor	176	Sushi 3.				blood coagulation, intrinsic pathway|negative regulation of angiogenesis|negative regulation of blood coagulation|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of myeloid cell apoptosis|negative regulation of smooth muscle cell apoptosis|plasminogen activation|positive regulation of lipoprotein lipase activity|triglyceride metabolic process|triglyceride transport	cell surface|chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	eukaryotic cell surface binding|glycoprotein binding|heparin binding|lipoprotein lipase activator activity|phospholipid binding				0			BRCA - Breast invasive adenocarcinoma(6;9.74e-08)			GCATGTTGTGGCAAACATTCA	0.428													4	90					0	0	0.000602	0	0		A	64216750	A	A	64216750	3	1	4	1	0	0	0	0	1	0	0	0	804	1203	42	2	527	2	APOH	17	64216750	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	995615	64216750	16978460	3680	5646											
HELZ	9931	broad.mit.edu	37	chr17	65184657	65184657	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtagtactatctccggCagatattgcaatgatactaa	12	12	9	8	1	1	2	0	1	1	1	2	2	1	2	1	2	3	4	1	2	7	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:65184657C>T	uc010wqk.1	-	12	1127	c.940G>A	c.(940-942)GCC>ACC	p.A314T	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.A314T	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					CTATCTCCGGCAGATATTGCA	0.393													7	143					0	0	0.00308	0	0		T	65184657	T	T	65184657	3	4	4	1	0	0	0	0	1	0	0	0	7065	710	25	2	4976	2	HELZ	17	65184657	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	967907	65184657	16010553	3681	5647											
BPTF	2186	broad.mit.edu	37	chr17	65850239	65850239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgagattatctccttttcGctttgaggacttttgtgcag	6	19	9	7	1	1	2	0	2	1	1	3	4	1	3	1	1	1	2	1	1	1	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:65850239G>A	uc002jgf.2	+	2	858	c.797G>A	c.(796-798)CGC>CAC	p.R266H	BPTF_uc002jge.2_Missense_Mutation_p.R266H|BPTF_uc010wqm.1_Missense_Mutation_p.R266H	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	266	DDT.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TCTCCTTTTCGCTTTGAGGAC	0.443													29	91					0	0	0.005443	0	0		A	65850239	A	A	65850239	3	1	4	1	0	0	0	0	1	0	0	0	1498	1087	38	1	803	1	BPTF	17	65850239	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	665582	65850239	15344971	3682	5648											
BPTF	2186	broad.mit.edu	37	chr17	65908478	65908478	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgctgagttcttcagatgCtgaaggtaactaccgagata	11	13	10	7	1	2	4	1	2	1	2	2	5	2	4	1	1	4	4	1	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:65908478C>T	uc002jgf.2	+	11	4539	c.4478C>T	c.(4477-4479)GCT>GTT	p.A1493V	BPTF_uc002jge.2_Missense_Mutation_p.A1619V	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1619					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TCTTCAGATGCTGAAGGTAAC	0.433													26	70					0	0	0.003954	0	0		T	65908478	T	T	65908478	3	4	4	1	0	0	0	0	1	0	0	0	1498	797	28	2	4906	2	BPTF	17	65908478	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	58239	65908478	15286732	3683	5649											
BPTF	2186	broad.mit.edu	37	chr17	65916176	65916176	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagaaataattaagaggaGagatgttggtccttatggca	16	10	11	4	0	0	3	0	0	0	3	1	5	1	4	1	3	1	2	1	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:65916176G>T	uc002jgf.2	+	13	5535	c.5474G>T	c.(5473-5475)AGA>ATA	p.R1825I	BPTF_uc002jge.2_Missense_Mutation_p.R1951I	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1951					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			ATTAAGAGGAGAGATGTTGGT	0.328													8	108					0.000274275	0.0002868	0.004482	1	0		T	65916176	T	T	65916176	3	4	4	1	0	0	0	0	1	0	0	0	1498	942	33	5	5910	5	BPTF	17	65916176	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	7698	65916176	15279034	3684	5650											
BPTF	2186	broad.mit.edu	37	chr17	65928049	65928049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcacagggcctcagattcGccctggtatgaccgtgatta	10	10	10	11	2	2	3	2	2	0	1	3	3	2	3	3	2	0	1	3	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:65928049G>A	uc002jgf.2	+	18	6234	c.6173G>A	c.(6172-6174)CGC>CAC	p.R2058H	BPTF_uc002jge.2_Missense_Mutation_p.R2184H	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2184					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			CCTCAGATTCGCCCTGGTATG	0.383													5	72					0	0	0.001984	0	0		A	65928049	A	A	65928049	3	1	4	1	0	0	0	0	1	0	0	0	1498	1087	38	1	6629	1	BPTF	17	65928049	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11873	65928049	15267161	3685	5651											
ARSG	22901	broad.mit.edu	37	chr17	66343311	66343311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttatcaccccaacttccGtggtaagaattcttttgggg	8	14	8	11	1	3	1	1	0	2	1	4	1	4	1	3	3	1	1	3	3	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:66343311G>A	uc002jhc.2	+	4	1248	c.452G>A	c.(451-453)CGT>CAT	p.R151H	ARSG_uc002jhb.1_Translation_Start_Site	NM_014960	NP_055775	Q96EG1	ARSG_HUMAN	Arylsulfatase G precursor	151					sulfur compound metabolic process	endoplasmic reticulum|extracellular space|lysosome	arylsulfatase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;5.34e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			CCCAACTTCCGTGGTAAGAAT	0.463													4	64					0	0	0.001168	0	0		A	66343311	A	A	66343311	3	1	4	1	0	0	0	0	1	0	0	0	993	1145	40	1	462	1	ARSG	17	66343311	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	415262	66343311	14851899	3686	5652											
WIPI1	55062	broad.mit.edu	37	chr17	66431771	66431771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggactcactttttcagacGcacttgctagtttggagcct	7	14	10	10	1	2	1	2	0	0	1	2	3	2	3	1	2	2	3	1	2	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:66431771G>A	uc010dey.2	-	6	702	c.611C>T	c.(610-612)GCG>GTG	p.A204V	WIPI1_uc002jhd.3_RNA|WIPI1_uc010wqo.1_Missense_Mutation_p.A122V|WIPI1_uc002jhe.3_RNA	NM_017983	NP_060453	Q5MNZ9	WIPI1_HUMAN	WD repeat domain, phosphoinositide interacting	204	WD 1.				macroautophagy|vesicle targeting, trans-Golgi to endosome	autophagic vacuole membrane|clathrin-coated vesicle|cytosol|endosome membrane|PAS complex|pre-autophagosomal structure membrane|trans-Golgi network	androgen receptor binding|estrogen receptor binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding				0						TTTTTCAGACGCACTTGCTAG	0.517											OREG0024688	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	104					0	0	0.004482	0	0		A	66431771	A	A	66431771	3	1	4	1	0	0	0	0	1	0	0	0	17396	1087	38	1	761	1	WIPI1	17	66431771	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	88460	66431771	14763439	3687	5653											
PRKAR1A	5573	broad.mit.edu	37	chr17	66511578	66511578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccgccagtgaggaggcacGcagccttcgagaatgtgagc	9	5	15	12	4	0	3	0	2	0	1	1	5	0	4	3	2	2	2	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:66511578G>A	uc002jhg.2	+	2	218	c.38G>A	c.(37-39)CGC>CAC	p.R13H	PRKAR1A_uc002jhh.2_Missense_Mutation_p.R13H|PRKAR1A_uc002jhi.2_Missense_Mutation_p.R13H|PRKAR1A_uc002jhj.2_Missense_Mutation_p.R13H|PRKAR1A_uc002jhk.2_5'UTR|PRKAR1A_uc002jhl.2_Missense_Mutation_p.R13H|PRKAR1A_uc002jhm.2_Missense_Mutation_p.R13H	NM_212471	NP_997636	P10644	KAP0_HUMAN	cAMP-dependent protein kinase, regulatory	13	Dimerization and phosphorylation.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity|protein binding			adrenal_gland(4)|lung(3)|thyroid(2)|soft_tissue(2)|breast(1)	12	Breast(10;1.64e-13)					GAGGAGGCACGCAGCCTTCGA	0.483			T|Mis|N|F|S	RET	papillary thyroid	myxoma|endocrine|papillary thyroid			Carney_Complex|Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial|Cardiac_Myxomas_Familial_Clustering_of				6	29					0	0	0.001168	0	0		A	66511578	A	A	66511578	3	1	4	1	0	0	0	0	1	0	0	0	12525	1087	38	1	40	1	PRKAR1A	17	66511578	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	79807	66511578	14683632	3688	5654											
ABCA8	10351	broad.mit.edu	37	chr17	66864467	66864467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggtagactgtgagaggCtgtactcctctaggtcaaag	10	9	13	9	0	2	2	1	1	1	2	3	3	3	2	2	3	1	3	2	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:66864467C>T	uc002jhp.2	-	37	4801	c.4622G>A	c.(4621-4623)AGC>AAC	p.S1541N	ABCA8_uc002jhq.2_Missense_Mutation_p.S1581N|ABCA8_uc010wqq.1_Missense_Mutation_p.S1576N	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	1541						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					CTGTGAGAGGCTGTACTCCTC	0.418													15	39					0	0	0.004007	0	0		T	66864467	T	T	66864467	3	4	4	1	0	0	0	0	1	0	0	0	38	797	28	2	131	2	ABCA8	17	66864467	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	352889	66864467	14330743	3689	5655											
ABCA9	10350	broad.mit.edu	37	chr17	67016615	67016615	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcctccagagcgccacGccactgattgttttccttgt	5	13	9	14	2	0	2	0	1	0	1	2	2	2	2	5	0	3	2	5	0	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:67016615G>A	uc002jhu.2	-	19	2657	c.2514C>T	c.(2512-2514)GGC>GGT	p.G838G	ABCA9_uc010dez.2_Silent_p.G838G	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	838					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					AGAGCGCCACGCCACTGATTG	0.443													32	79					0	0	0.003755	0	0		A	67016615	A	A	67016615	2	1	4	1	0	0	0	0	0	0	0	1	39	1074	38	1		1	ABCA9	17	67016615	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	152148	67016615	14178595	3690	5656											
ABCA6	23460	broad.mit.edu	37	chr17	67096998	67096998	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgattaaacatttgaagtagCccattgctgataatattcat	14	15	6	6	0	1	3	1	3	0	0	1	3	1	3	1	0	3	2	1	0	6	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:67096998C>T	uc002jhw.1	-	22	3127	c.2952G>A	c.(2950-2952)GGG>GGA	p.G984G		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	984					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					TTTGAAGTAGCCCATTGCTGA	0.303													6	50					0	0	0.001984	0	0		T	67096998	T	T	67096998	2	4	4	1	0	0	0	0	0	0	0	1	36	726	26	2		2	ABCA6	17	67096998	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	80383	67096998	14098212	3691	5657											
ABCA6	23460	broad.mit.edu	37	chr17	67102220	67102220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttaagaaacggagccgtGccatggcaaagacttgcatt	13	9	10	9	2	0	2	0	0	0	2	0	3	0	3	2	2	4	2	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:67102220G>A	uc002jhw.1	-	19	2697	c.2522C>T	c.(2521-2523)GCA>GTA	p.A841V	ABCA6_uc002jhx.1_Missense_Mutation_p.A294V	NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	841					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					ACGGAGCCGTGCCATGGCAAA	0.438													20	53					0	0	0.010504	0	0		A	67102220	A	A	67102220	3	1	4	1	0	0	0	0	1	0	0	0	36	1319	46	2	2415	2	ABCA6	17	67102220	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5222	67102220	14092990	3692	5658											
ABCA10	10349	broad.mit.edu	37	chr17	67212456	67212456	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagagccataaaaatggAcataatgaagatgaagcaaa	21	5	9	6	0	0	4	0	2	0	2	0	6	0	5	2	1	2	1	2	1	7	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:67212456A>G	uc010dfa.1	-	8	1453	c.574T>C	c.(574-576)TCC>CCC	p.S192P	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_5'Flank|ABCA10_uc010dfc.1_Missense_Mutation_p.S84P	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	192	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					ATAAAAATGGACATAATGAAG	0.373													44	117					0	0	0.002852	0	0		G	67212456	G	G	67212456	3	3	4	1	0	0	0	0	1	0	0	0	29	275	10	3	4189	3	ABCA10	17	67212456	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	110236	67212456	13982754	3693	5659											
ABCA5	23461	broad.mit.edu	37	chr17	67252377	67252377	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatcttcatcctcattgTctggtggttctggaagcttc	5	17	8	11	0	6	0	3	0	3	0	8	1	7	1	1	3	1	2	1	3	1	5	rs11544716		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:67252377T>G	uc002jif.2	-	28	4997	c.3779A>C	c.(3778-3780)GAC>GCC	p.D1260A	ABCA5_uc002jib.2_Missense_Mutation_p.D226A|ABCA5_uc002jic.2_Missense_Mutation_p.D483A|ABCA5_uc002jid.2_Missense_Mutation_p.D177A|ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.D1260A	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	1260					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					ATCCTCATTGTCTGGTGGTTC	0.333													39	108					0	0	0.002852	0	0		G	67252377	G	G	67252377	3	3	4	1	0	0	0	0	1	0	0	0	35	1667	58	5	1193	5	ABCA5	17	67252377	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	39921	67252377	13942833	3694	5660											
KCNJ2	3759	broad.mit.edu	37	chr17	68172423	68172423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcacaaccaggcaagtgtaCctctagagcccaggccctta	11	8	8	14	0	2	1	1	0	1	1	2	1	2	1	4	2	3	2	4	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:68172423C>T	uc010dfg.2	+	2	1644	c.1243C>T	c.(1243-1245)CCT>TCT	p.P415S	KCNJ2_uc002jir.2_Missense_Mutation_p.P415S	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	415	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					GGCAAGTGTACCTCTAGAGCC	0.512													6	161					0	0	0.001984	0	0		T	68172423	T	T	68172423	3	4	4	1	0	0	0	0	1	0	0	0	8067	507	18	4	1245	4	KCNJ2	17	68172423	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	920046	68172423	13022787	3695	5661											
COG1	9382	broad.mit.edu	37	chr17	71197469	71197469	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggggtcagtttgccagtagCggcctctccatgaaagcaca	9	8	12	12	2	2	1	1	1	1	0	3	1	2	1	3	3	3	3	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:71197469C>T	uc002jjg.2	+	7	1539	c.1503C>T	c.(1501-1503)AGC>AGT	p.S501S	COG1_uc002jjh.2_Silent_p.S501S|COG1_uc002jjf.1_Silent_p.S501S	NM_018714	NP_061184	Q8WTW3	COG1_HUMAN	component of oligomeric golgi complex 1	501					Golgi organization|intra-Golgi vesicle-mediated transport|protein transport	Golgi membrane|Golgi transport complex	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			TTGCCAGTAGCGGCCTCTCCA	0.532													26	53					0	0	0.004656	0	0		T	71197469	T	T	71197469	2	4	4	1	0	0	0	0	0	0	0	1	3660	767	27	1		1	COG1	17	71197469	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3025046	71197469	9997741	3696	5662											
BTBD17	388419	broad.mit.edu	37	chr17	72352858	72352858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaggtgcaggtgcagggCgttctcaaccaggtactcgg	8	8	16	9	2	1	1	1	1	1	0	3	2	1	1	1	5	4	4	1	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:72352858C>T	uc002jkn.2	-	3	1375	c.1375G>A	c.(1375-1377)GCC>ACC	p.A459T		NM_001080466	NP_001073935	A6NE02	BTBDH_HUMAN	BTB (POZ) domain containing 17 precursor	459						extracellular region					0						AGGTGCAGGGCGTTCTCAACC	0.647													4	21					0	0	0.009096	0	0		T	72352858	T	T	72352858	3	4	4	1	0	0	0	0	1	0	0	0	1545	768	27	1	65	1	BTBD17	17	72352858	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1155389	72352858	8842352	3697	5663											
NT5C	30833	broad.mit.edu	37	chr17	73126663	73126663	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagcagccgtctccttgTcgggggcaggaccaggtgcc	6	6	17	12	2	1	1	0	0	1	1	3	3	1	2	4	5	3	2	4	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:73126663T>C	uc002jmx.2	-	5	601	c.526A>G	c.(526-528)ACA>GCA	p.T176A	NT5C_uc002jmy.2_RNA	NM_014595	NP_055410	Q8TCD5	NT5C_HUMAN	5',3'-nucleotidase, cytosolic	176					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine deoxyribonucleotide catabolic process|pyrimidine nucleoside catabolic process	cytosol|nucleus	5'-nucleotidase activity|metal ion binding|pyrimidine nucleotide binding				0	all_lung(278;0.14)|Lung NSC(278;0.168)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)			CGTCTCCTTGTCGGGGGCAGG	0.632											OREG0024728	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	44					0	0	0.001984	0	0		C	73126663	C	C	73126663	3	2	4	1	0	0	0	0	1	0	0	0	10703	1667	58	3	83	3	NT5C	17	73126663	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	773805	73126663	8068547	3698	5664											
GGA3	23163	broad.mit.edu	37	chr17	73235918	73235918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcatccaggtggtgcagcGcgctgttgcccaacgccaag	7	6	15	13	3	0	0	0	0	0	0	1	0	1	0	3	3	4	4	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:73235918G>A	uc002jni.1	-	13	1544	c.1535C>T	c.(1534-1536)GCG>GTG	p.A512V	GGA3_uc002jnj.1_Missense_Mutation_p.A479V|GGA3_uc010wrw.1_Missense_Mutation_p.A390V|GGA3_uc002jnk.1_Missense_Mutation_p.A440V|GGA3_uc010wrx.1_Missense_Mutation_p.A390V|GGA3_uc010wry.1_Missense_Mutation_p.A440V	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	512	Unstructured hinge.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			GTGGTGCAGCGCGCTGTTGCC	0.602													7	21					0	0	0.00308	0	0		A	73235918	A	A	73235918	3	1	4	1	0	0	0	0	1	0	0	0	6369	1087	38	1	744	1	GGA3	17	73235918	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	109255	73235918	7959292	3699	5665											
GGA3	23163	broad.mit.edu	37	chr17	73236020	73236020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacaaggaggagcccgcaCtgggggcaggaacactggct	13	3	15	10	1	0	0	0	0	0	0	0	3	0	3	1	6	3	3	1	6	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:73236020C>T	uc002jni.1	-	13	1442	c.1433G>A	c.(1432-1434)AGT>AAT	p.S478N	GGA3_uc002jnj.1_Missense_Mutation_p.S445N|GGA3_uc010wrw.1_Missense_Mutation_p.S356N|GGA3_uc002jnk.1_Missense_Mutation_p.S406N|GGA3_uc010wrx.1_Missense_Mutation_p.S356N|GGA3_uc010wry.1_Missense_Mutation_p.S406N	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	478	Unstructured hinge.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			GGAGCCCGCACTGGGGGCAGG	0.657													3	1					0	0	0.009096	0	0		T	73236020	T	T	73236020	3	4	4	1	0	0	0	0	1	0	0	0	6369	565	20	4	846	4	GGA3	17	73236020	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	102	73236020	7959190	3700	5666											
LLGL2	3993	broad.mit.edu	37	chr17	73566553	73566553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgggtgtccagccggaagCggcacccggctggcccccca	5	3	15	18	4	0	0	0	0	0	0	1	1	1	1	7	5	2	2	7	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:73566553C>T	uc002joh.2	+	16	2153	c.1999C>T	c.(1999-2001)CGG>TGG	p.R667W	LLGL2_uc002joi.2_Missense_Mutation_p.R667W|LLGL2_uc010dgg.1_Missense_Mutation_p.R667W|LLGL2_uc002joj.2_Missense_Mutation_p.R656W|LLGL2_uc010wsd.1_Missense_Mutation_p.R294W	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	667					cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			CAGCCGGAAGCGGCACCCGGC	0.706													3	3					0	0	0.004672	0	0		T	73566553	T	T	73566553	3	4	4	1	0	0	0	0	1	0	0	0	8851	759	27	1	2092	1	LLGL2	17	73566553	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	330533	73566553	7628657	3701	5667											
EVPL	2125	broad.mit.edu	37	chr17	74005331	74005331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccgggtccttctcgtggcGcaccacctccttgctcaccg	4	9	9	19	4	2	0	1	0	1	0	5	0	4	0	6	2	1	2	6	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:74005331G>A	uc002jqi.2	-	22	4183	c.3955C>T	c.(3955-3957)CGC>TGC	p.R1319C	EVPL_uc010wss.1_Missense_Mutation_p.R1341C|EVPL_uc010wst.1_Missense_Mutation_p.R789C	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1319	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						TTCTCGTGGCGCACCACCTCC	0.701													11	96					0	0	0.001855	0	0		A	74005331	A	A	74005331	3	1	4	1	0	0	0	0	1	0	0	0	5300	1087	38	1	2150	1	EVPL	17	74005331	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	438778	74005331	7189879	3702	5668											
QRICH2	84074	broad.mit.edu	37	chr17	74287572	74287572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcacctgggccaggtgatGccacatgctgttgatctggg	6	10	14	11	0	2	2	1	2	1	0	2	2	2	2	3	3	2	3	3	3	0	1	rs144710718	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:74287572G>A	uc002jrd.1	-	4	2918	c.2738C>T	c.(2737-2739)GCA>GTA	p.A913V	QRICH2_uc010wsz.1_Missense_Mutation_p.A839V|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	913							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						GCCAGGTGATGCCACATGCTG	0.502													6	87					0	0	0.00308	0	0		A	74287572	A	A	74287572	3	1	4	1	0	0	0	0	1	0	0	0	12905	1319	46	2	2317	2	QRICH2	17	74287572	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	282241	74287572	6907638	3703	5669											
QRICH2	84074	broad.mit.edu	37	chr17	74289360	74289360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccaagtggttccatactgCgttggtctgtgccaggaaat	8	12	12	9	1	1	0	0	0	1	0	2	1	2	1	3	3	4	2	3	3	3	3	rs144671527	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:74289360C>T	uc002jrd.1	-	4	1130	c.950G>A	c.(949-951)CGC>CAC	p.R317H	QRICH2_uc010wsz.1_Missense_Mutation_p.R243H|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	317							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						TTCCATACTGCGTTGGTCTGT	0.493													10	93					0	0	0.006214	0	0		T	74289360	T	T	74289360	3	4	4	1	0	0	0	0	1	0	0	0	12905	768	27	1	4105	1	QRICH2	17	74289360	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1788	74289360	6905850	3704	5670											
CYGB	114757	broad.mit.edu	37	chr17	74527194	74527194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcactggcaaattcctcggCgaccacctccagaatgaccc	10	7	8	16	2	1	2	1	1	0	1	4	3	3	2	5	2	0	1	5	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:74527194C>T	uc002jru.1	-	3	564	c.406G>A	c.(406-408)GCC>ACC	p.A136T	CYGB_uc002jrv.1_Missense_Mutation_p.A71T|PRCD_uc002jrw.1_Intron	NM_134268	NP_599030	Q8WWM9	CYGB_HUMAN	cytoglobin	136	Globin.				response to oxidative stress	cytoplasm	heme binding|oxygen binding|oxygen transporter activity|peroxidase activity				0						AATTCCTCGGCGACCACCTCC	0.647													5	23					0	0	0.001984	0	0		T	74527194	T	T	74527194	3	4	4	1	0	0	0	0	1	0	0	0	4142	768	27	1	174	1	CYGB	17	74527194	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	237834	74527194	6668016	3705	5671											
SOCS3	9021	broad.mit.edu	37	chr17	76354897	76354897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccccctcacactggatgcGcaggttcttggtcccagact	6	9	10	16	1	2	1	1	0	1	1	3	2	3	2	4	3	1	2	4	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:76354897G>A	uc002jvl.2	-	2	696	c.280C>T	c.(280-282)CGC>TGC	p.R94C		NM_003955	NP_003946	O14543	SOCS3_HUMAN	suppressor of cytokine signaling 3	94	SH2.			R->E: Greatly impaired binding to Y429/Y431 phosphorylated EPOR.	anti-apoptosis|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|regulation of growth|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol	protein kinase inhibitor activity	p.R94L(1)		ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.000688)|OV - Ovarian serous cystadenocarcinoma(97;0.0554)			CACTGGATGCGCAGGTTCTTG	0.652													3	10					0	0	0.000602	0	0		A	76354897	A	A	76354897	3	1	4	1	0	0	0	0	1	0	0	0	14940	1087	38	1	401	1	SOCS3	17	76354897	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1827703	76354897	4840313	3706	5672											
ENGASE	64772	broad.mit.edu	37	chr17	77082286	77082286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttttgccacccagtaccGgatagtggacctgctggtgg	6	10	14	11	1	0	0	0	0	0	0	0	2	0	2	4	5	3	3	4	5	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:77082286G>A	uc002jwv.2	+	14	2095	c.2087G>A	c.(2086-2088)CGG>CAG	p.R696Q	ENGASE_uc002jww.2_Missense_Mutation_p.R401Q	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	696						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						ACCCAGTACCGGATAGTGGAC	0.632													6	18					0	0	0.001984	0	0		A	77082286	A	A	77082286	3	1	4	1	0	0	0	0	1	0	0	0	5126	1116	39	1	2141	1	ENGASE	17	77082286	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	727389	77082286	4112924	3707	5673											
CCDC40	55036	broad.mit.edu	37	chr17	78013765	78013765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggaaggggaagaggaggCtgtgtcctatggagatgctg	10	8	19	4	0	0	2	0	0	0	2	1	6	1	5	1	6	1	2	1	6	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:78013765C>T	uc010dht.2	+	3	275	c.248C>T	c.(247-249)GCT>GTT	p.A83V	CCDC40_uc010wub.1_Missense_Mutation_p.A83V	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	83					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			gaagaggaggCTGTGTCCTAT	0.348													15	52					0	0	0.003163	0	0		T	78013765	T	T	78013765	3	4	4	1	0	0	0	0	1	0	0	0	2815	797	28	2	258	2	CCDC40	17	78013765	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	931479	78013765	3181445	3708	5674											
CCDC40	55036	broad.mit.edu	37	chr17	78055728	78055728	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccgccaagccatccagggCgagctggagctcaggaggaa	11	4	14	12	2	1	0	1	0	0	0	3	4	3	3	4	4	3	2	4	4	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:78055728C>T	uc010dht.2	+	12	1887	c.1860C>T	c.(1858-1860)GGC>GGT	p.G620G	CCDC40_uc002jxm.3_Silent_p.G403G|CCDC40_uc002jxn.3_Silent_p.G16G	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	620	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			CCATCCAGGGCGAGCTGGAGC	0.582													11	22					0	0	0.000978	0	0		T	78055728	T	T	78055728	2	4	4	1	0	0	0	0	0	0	0	1	2815	755	27	1		1	CCDC40	17	78055728	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	41963	78055728	3139482	3709	5675											
RNF213	57674	broad.mit.edu	37	chr17	78317021	78317021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaaacaattcgactgatcGaccctcaggtggatgagagc	13	8	11	9	2	1	3	1	3	0	1	3	7	1	4	1	2	2	0	1	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:78317021G>A	uc002jyh.1	+	2	521	c.298G>A	c.(298-300)GAC>AAC	p.D100N		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TCGACTGATCGACCCTCAGGT	0.507													11	53					0	0	0.001855	0	0		A	78317021	A	A	78317021	3	1	4	1	0	0	0	0	1	0	0	0	13502	1058	37	1	6500	1	RNF213	17	78317021	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	261293	78317021	2878189	3710	5676											
RPTOR	57521	broad.mit.edu	37	chr17	78923244	78923244	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctctctccctccccagaCgatggtgccatcagggtctg	5	11	9	16	1	3	1	1	0	2	1	7	2	6	1	5	2	1	0	5	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:78923244C>T	uc002jyt.1	+	28	4072	c.3267C>T	c.(3265-3267)GAC>GAT	p.D1089D	RPTOR_uc010wug.1_Silent_p.D931D|RPTOR_uc002jyu.1_Translation_Start_Site	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	1089	WD 2.				cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						CCTCCCCAGACGATGGTGCCA	0.597													9	110					0	0	0.001855	0	0		T	78923244	T	T	78923244	2	4	4	1	0	0	0	0	0	0	0	1	13690	550	19	1		1	RPTOR	17	78923244	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	606223	78923244	2271966	3711	5677											
SLC25A10	1468	broad.mit.edu	37	chr17	79671731	79671731	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtctggggctgtccctgcTgcagcagcccaggaggtgag	6	8	16	11	0	1	1	0	1	1	0	2	2	2	2	2	4	4	4	2	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:79671731T>A	uc010wut.1	+	3	455	c.330T>A	c.(328-330)GCT>GCA	p.A110A	MRPL12_uc002kbh.1_Silent_p.A110A	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	Error:Variant_position_missing_in_Q9UBX3_after_alignment					gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)	CTGTCCCTGCTGCAGCAGCCC	0.587													17	22					0	0	0.004007	0	0		A	79671731	A	A	79671731	2	1	4	1	0	0	0	0	0	0	0	1	14497	1567	55	5		5	SLC25A10	17	79671731	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	748487	79671731	1523479	3712	5678											
FASN	2194	broad.mit.edu	37	chr17	80037254	80037254	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagaggttgtagtccgcGcccaggtcctcgccgtaggc	5	8	16	12	4	0	1	0	0	0	1	3	2	2	1	4	4	0	3	4	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:80037254G>A	uc002kdu.2	-	42	7494	c.7377C>T	c.(7375-7377)GGC>GGT	p.G2459G	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2459	Thioesterase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	TGTAGTCCGCGCCCAGGTCCT	0.662													6	20					0	0	0.001984	0	0		A	80037254	A	A	80037254	2	1	4	1	0	0	0	0	0	0	0	1	5697	1074	38	1		1	FASN	17	80037254	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	365523	80037254	1157956	3713	5679											
FASN	2194	broad.mit.edu	37	chr17	80038074	80038074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatatggcctccgtctcaGcctcagcctcacagcctggg	7	8	10	16	1	3	0	3	0	1	0	5	0	4	0	5	2	4	1	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:80038074G>A	uc002kdu.2	-	41	7205	c.7088C>T	c.(7087-7089)GCT>GTT	p.A2363V	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2363	Thioesterase (By similarity).			A -> P (in Ref. 9; AAB35516).	energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	CTCCGTCTCAGCCTCAGCCTC	0.627													9	45					0	0	0.001368	0	0		A	80038074	A	A	80038074	3	1	4	1	0	0	0	0	1	0	0	0	5697	971	34	2	459	2	FASN	17	80038074	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	820	80038074	1157136	3714	5680											
FASN	2194	broad.mit.edu	37	chr17	80040218	80040218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtccaggttcagggtgcCgctgtacttgggcttgcaga	5	11	14	11	1	1	1	1	0	0	1	2	1	2	1	3	3	3	5	3	3	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:80040218C>T	uc002kdu.2	-	35	6109	c.5992G>A	c.(5992-5994)GGC>AGC	p.G1998S	FASN_uc002kdv.1_5'Flank	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	1998	Beta-ketoacyl reductase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	TTCAGGGTGCCGCTGTACTTG	0.637													3	22					0	0	0.009096	0	0		T	80040218	T	T	80040218	3	4	4	1	0	0	0	0	1	0	0	0	5697	652	23	1	1579	1	FASN	17	80040218	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2144	80040218	1154992	3715	5681											
NARF	26502	broad.mit.edu	37	chr17	80430461	80430461	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgcactatgtatttgataCgacgatagctgcggatttta	10	14	11	6	3	0	1	0	1	0	0	0	4	0	2	0	2	4	3	0	2	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:80430461C>T	uc002kfg.3	+	5	547	c.407C>T	c.(406-408)ACG>ATG	p.T136M	NARF_uc002kff.3_Missense_Mutation_p.T77M|NARF_uc010wvo.1_Intron|NARF_uc010wvp.1_Intron|NARF_uc010dit.2_Missense_Mutation_p.T136M|NARF_uc002kfj.3_Missense_Mutation_p.T88M|NARF_uc002kfi.3_RNA|NARF_uc002kfh.3_Missense_Mutation_p.T136M|NARF_uc002kfk.2_RNA	NM_012336	NP_036468	Q9UHQ1	NARF_HUMAN	nuclear prelamin A recognition factor isoform a	136						lamin filament	lamin binding			skin(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			GTATTTGATACGACGATAGCT	0.433													5	55					0	0	0.001984	0	0		T	80430461	T	T	80430461	3	4	4	1	0	0	0	0	1	0	0	0	10185	536	19	1	425	1	NARF	17	80430461	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	390243	80430461	764749	3716	5682											
TBCD	6904	broad.mit.edu	37	chr17	80772782	80772782	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagagctgggcaggagaggCctgttgctgccgtctcgact	6	8	16	11	2	1	2	0	0	1	2	2	4	1	2	2	3	3	5	2	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:80772782C>T	uc002kfz.2	+	13	1420	c.1290C>T	c.(1288-1290)GGC>GGT	p.G430G	TBCD_uc002kfx.1_Silent_p.G413G|TBCD_uc002kfy.1_Silent_p.G430G	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	430					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			GCAGGAGAGGCCTGTTGCTGC	0.632													4	15					0	0	0.009096	0	0		T	80772782	T	T	80772782	2	4	4	1	0	0	0	0	0	0	0	1	15658	726	26	2		2	TBCD	17	80772782	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	342321	80772782	422428	3717	5683											
ENOSF1	55556	broad.mit.edu	37	chr18	677835	677835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaactgcagggccttcGcctgtaggagttgcttaaat	9	10	14	8	1	0	0	0	0	0	0	1	3	0	3	2	4	3	4	2	4	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:677835G>A	uc002kku.3	-	13	1031	c.956C>T	c.(955-957)GCG>GTG	p.A319V	ENOSF1_uc002kkt.3_Missense_Mutation_p.A237V|ENOSF1_uc010dke.2_RNA|ENOSF1_uc010dkf.2_Missense_Mutation_p.A326V|ENOSF1_uc002kkv.3_Missense_Mutation_p.A306V|ENOSF1_uc002kkw.3_Missense_Mutation_p.A138V|ENOSF1_uc002kkx.3_Missense_Mutation_p.A243V	NM_017512	NP_059982	Q7L5Y1	ENOF1_HUMAN	enolase superfamily 1 isoform rTS beta	319					cellular amino acid catabolic process	mitochondrion	isomerase activity|metal ion binding			ovary(1)	1						CAGGGCCTTCGCCTGTAGGAG	0.443													38	100					0	0	0.00874	0	0		A	677835	A	A	677835	3	1	4	1	0	0	0	0	1	0	0	0	5133	1087	38	1	391	1	ENOSF1	18	677835	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08		677835	77399413	3718	5684											
METTL4	64863	broad.mit.edu	37	chr18	2544238	2544238	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagtacagggcacgctgAcaattaatttgtggtctgga	12	10	13	6	1	1	2	0	1	1	1	1	4	1	3	0	3	1	3	0	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:2544238A>G	uc002klh.3	-	8	2009	c.1229T>C	c.(1228-1230)GTC>GCC	p.V410A	METTL4_uc010dkj.2_Intron	NM_022840	NP_073751	Q8N3J2	METL4_HUMAN	methyltransferase like 4	410					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		methyltransferase activity|nucleic acid binding			kidney(1)|skin(1)	2						GGGCACGCTGACAATTAATTT	0.323													4	66					0	0	0.000602	0	0		G	2544238	G	G	2544238	3	3	4	1	0	0	0	0	1	0	0	0	9520	275	10	3	197	3	METTL4	18	2544238	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1866403	2544238	75533010	3719	5685											
SMCHD1	23347	broad.mit.edu	37	chr18	2724949	2724949	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggaccaaattgtgtaattCgaggtgttacagccaagggc	13	9	12	7	1	0	0	0	0	0	0	1	2	0	1	2	3	2	2	2	3	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:2724949C>T	uc002klm.3	+	21	2845	c.2656C>T	c.(2656-2658)CGA>TGA	p.R886*	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	886					chromosome organization		ATP binding				0						TTGTGTAATTCGAGGTGTTAC	0.338													5	30					0	0	0.001168	0	0		T	2724949	T	T	2724949	4	4	4	1	0	0	0	0	0	1	0	0	14813	876	31	1	2738	1	SMCHD1	18	2724949	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	180711	2724949	75352299	3720	5686											
LPIN2	9663	broad.mit.edu	37	chr18	2924406	2924406	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagcttacttggttattgTcccatcaatatcagaaatga	12	15	7	7	0	2	3	2	2	0	1	3	3	3	3	1	1	2	2	1	1	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:2924406T>C	uc002klo.2	-	15	2316	c.2077A>G	c.(2077-2079)ACA>GCA	p.T693A		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	693	DXDXT motif.|C-LIP.				fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		TTGGTTATTGTCCCATCAATA	0.517													6	106					0	0	0.001984	0	0		C	2924406	C	C	2924406	3	2	4	1	0	0	0	0	1	0	0	0	8937	1667	58	3	637	3	LPIN2	18	2924406	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	199457	2924406	75152842	3721	5687											
MYL12B	103910	broad.mit.edu	37	chr18	3277382	3277382	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagatgtcatcagaaacGcctttgcttgctttgatgaa	11	13	9	8	1	2	5	2	3	0	2	2	5	2	5	1	0	3	2	1	0	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:3277382G>A	uc010dkl.2	+	3	475	c.316G>A	c.(316-318)GCC>ACC	p.A106T	MYL12B_uc002klt.3_Missense_Mutation_p.A84T|MYL12B_uc010wyv.1_Missense_Mutation_p.A106T	NM_001144944	NP_001138416	O14950	ML12B_HUMAN	myosin regulatory light chain MRCL2 isoform A	106	EF-hand 2.				axon guidance|muscle contraction	cytosol|myosin complex	calcium ion binding				0						CATCAGAAACGCCTTTGCTTG	0.438													49	92					0	0	0.00361	0	0		A	3277382	A	A	3277382	3	1	4	1	0	0	0	0	1	0	0	0	10064	1087	38	1	322	1	MYL12B	18	3277382	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	352976	3277382	74799866	3722	5688											
ZFP161	7541	broad.mit.edu	37	chr18	5292149	5292149	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtgttttcagaaacagagTtttatgatcatcgtcattat	12	17	7	5	1	3	3	3	1	0	2	4	3	3	3	0	0	1	2	0	0	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:5292149T>C	uc002kmq.2	-	4	219	c.58A>G	c.(58-60)ACT>GCT	p.T20A	ZFP161_uc002kmr.2_Missense_Mutation_p.T20A|ZFP161_uc010dkp.2_Missense_Mutation_p.T20A	NM_003409	NP_003400	O43829	ZF161_HUMAN	zinc finger protein 161 homolog	20					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGAAACAGAGTTTTATGATCA	0.308													17	71					0	0	0.00499	0	0		C	5292149	C	C	5292149	3	2	4	1	0	0	0	0	1	0	0	0	17665	1725	60	3	1295	3	ZFP161	18	5292149	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2014767	5292149	72785099	3723	5689											
EPB41L3	23136	broad.mit.edu	37	chr18	5407700	5407700	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttatttttaattttctacCtgtgccttgagctctgcatc	6	21	5	9	0	2	1	0	1	2	0	3	1	2	1	2	0	4	2	2	0	3	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:5407700C>A	uc002kmt.1	-	15	2243	c.2157G>T	c.(2155-2157)CAG>CAT	p.Q719H	EPB41L3_uc010wzh.1_Missense_Mutation_p.Q550H|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Intron|EPB41L3_uc010wzf.1_Intron|EPB41L3_uc010wzg.1_Intron|EPB41L3_uc010dkr.2_Missense_Mutation_p.Q111H	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	719	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						AATTTTCTACCTGTGCCTTGA	0.388													21	92					1.50039e-11	1.62084e-11	0.001882	1	0		A	5407700	A	A	5407700	3	1	4	1	0	0	0	0	1	0	0	0	5162	695	24	5	1138	5	EPB41L3	18	5407700	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	115551	5407700	72669548	3724	5690											
TMEM200C	645369	broad.mit.edu	37	chr18	5892007	5892007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtatctggcttggggggCggagtggatcctgctttctg	3	13	18	7	1	2	0	0	0	2	0	3	2	3	2	1	7	1	3	1	7	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:5892007C>T	uc002kmx.1	-	1	97	c.56G>A	c.(55-57)CGC>CAC	p.R19H		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	19						integral to membrane					0						GCTTGGGGGGCGGAGTGGATC	0.602													9	20					0	0	0.004482	0	0		T	5892007	T	T	5892007	3	4	4	1	0	0	0	0	1	0	0	0	16150	768	27	1	1813	1	TMEM200C	18	5892007	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	484307	5892007	72185241	3725	5691											
LAMA1	284217	broad.mit.edu	37	chr18	6964747	6964747	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgctcccggagtctcGccctgcttggtttctttatt	5	15	10	11	2	2	1	0	0	2	1	4	3	3	2	2	2	2	3	2	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:6964747G>A	uc002knm.2	-	51	7345	c.7251C>T	c.(7249-7251)GGC>GGT	p.G2417G	LAMA1_uc002knl.2_5'UTR|LAMA1_uc010wzj.1_Silent_p.G1893G	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2417	Laminin G-like 2.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCGGAGTCTCGCCCTGCTTGG	0.453													10	81					0	0	0.006214	0	0		A	6964747	A	A	6964747	2	1	4	1	0	0	0	0	0	0	0	1	8621	1074	38	1		1	LAMA1	18	6964747	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1072740	6964747	71112501	3726	5692											
LAMA1	284217	broad.mit.edu	37	chr18	7046313	7046313	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catgggcagctactagcatgGccatagcagatacacatgcc	12	7	10	12	0	0	1	0	0	0	1	0	1	0	1	2	2	6	4	2	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:7046313G>A	uc002knm.2	-	6	916	c.822C>T	c.(820-822)GGC>GGT	p.G274G	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	274	Laminin EGF-like 1.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TACTAGCATGGCCATAGCAGA	0.323													56	76					0	0	0.00361	0	0		A	7046313	A	A	7046313	2	1	4	1	0	0	0	0	0	0	0	1	8621	1190	42	2		2	LAMA1	18	7046313	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	81566	7046313	71030935	3727	5693											
PTPRM	5797	broad.mit.edu	37	chr18	8343455	8343455	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accatctatgacttctggagGatggtgtggcacgaaaacac	12	9	11	9	1	2	1	0	1	2	0	2	4	2	3	1	4	1	1	1	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:8343455G>A	uc002knn.3	+	21	3455	c.2952G>A	c.(2950-2952)AGG>AGA	p.R984R	PTPRM_uc010dkv.2_Silent_p.R997R|PTPRM_uc010wzl.1_Silent_p.R771R	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	984	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				ACTTCTGGAGGATGGTGTGGC	0.458													62	55					0	0	0.00361	0	0		A	8343455	A	A	8343455	2	1	4	1	0	0	0	0	0	0	0	1	12831	1165	41	4		4	PTPRM	18	8343455	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1297142	8343455	69733793	3728	5694											
KIAA0802	23255	broad.mit.edu	37	chr18	8720396	8720396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacggtggaggaaaagcgcGctaaagctgaggatgaaaac	16	4	15	6	3	0	3	0	2	0	1	0	6	0	6	0	4	3	2	0	4	6	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:8720396G>A	uc002knr.2	+	4	401	c.259G>A	c.(259-261)GCT>ACT	p.A87T	KIAA0802_uc002knq.2_Missense_Mutation_p.A87T	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	438	Potential.										0						GGAAAAGCGCGCTAAAGCTGA	0.473													10	108					0	0	0.000978	0	0		A	8720396	A	A	8720396	3	1	4	1	0	0	0	0	1	0	0	0	8210	1087	38	1	265	1	KIAA0802	18	8720396	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	376941	8720396	69356852	3729	5695											
TXNDC2	84203	broad.mit.edu	37	chr18	9886245	9886245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaaaccagaaatgaggctggGcactcaggaagaaacaagtg	18	4	12	7	0	1	3	1	1	0	2	1	4	1	4	1	3	2	2	1	3	6	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:9886245G>A	uc002koi.3	+	1	523	c.74G>A	c.(73-75)GGC>GAC	p.G25D	TXNDC2_uc010wzq.1_Intron|TXNDC2_uc002koh.3_Intron	NM_001098529	NP_001091999	Q86VQ3	TXND2_HUMAN	thioredoxin domain-containing 2 isoform 2	25					cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	cytoplasm	electron carrier activity|nutrient reservoir activity|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity			ovary(1)|pancreas(1)	2						ATGAGGCTGGGCACTCAGGAA	0.478													4	55					0	0	0.009096	0	0		A	9886245	A	A	9886245	3	1	4	1	0	0	0	0	1	0	0	0	16823	1203	42	2	76	2	TXNDC2	18	9886245	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1165849	9886245	68191003	3730	5696											
MPPE1	65258	broad.mit.edu	37	chr18	11884615	11884615	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagggtgtagtctgtgggCgtgatgctaccctggaaagg	8	9	18	6	1	1	2	0	1	1	1	1	4	1	3	1	4	2	2	1	4	3	2	rs146567173		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:11884615C>T	uc002kqf.2	-	11	1661	c.1020G>A	c.(1018-1020)ACG>ACA	p.T340T	MPPE1_uc002kqn.2_Silent_p.T277T|MPPE1_uc002kqg.2_RNA|MPPE1_uc002kqh.2_RNA|MPPE1_uc002kqi.2_RNA|MPPE1_uc002kqj.2_Silent_p.T341T|MPPE1_uc002kqk.2_Silent_p.T318T|MPPE1_uc002kql.2_Silent_p.T341T|MPPE1_uc002kqm.2_Silent_p.T277T	NM_023075	NP_075563	Q53F39	MPPE1_HUMAN	metallophosphoesterase 1 precursor	340					ER to Golgi vesicle-mediated transport|GPI anchor biosynthetic process	cis-Golgi network|endoplasmic reticulum exit site|ER-Golgi intermediate compartment membrane|integral to membrane	GPI anchor binding|manganese ion binding|phosphoric diester hydrolase activity				0						AGTCTGTGGGCGTGATGCTAC	0.532													6	76					0	0	0.001984	0	0		T	11884615	T	T	11884615	2	4	4	1	0	0	0	0	0	0	0	1	9758	755	27	1		1	MPPE1	18	11884615	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1998370	11884615	66192633	3731	5697											
SPIRE1	56907	broad.mit.edu	37	chr18	12506556	12506556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtgagctgatattcaatggGcaaagggttgtactgccgct	9	11	14	7	1	1	2	1	2	0	0	1	2	1	2	1	3	3	5	1	3	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:12506556G>A	uc002kre.2	-	6	939	c.892C>T	c.(892-894)CCC>TCC	p.P298S	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Missense_Mutation_p.P178S|SPIRE1_uc010wzx.1_Missense_Mutation_p.P101S|SPIRE1_uc010wzy.1_Missense_Mutation_p.P298S	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	298						cytoskeleton|perinuclear region of cytoplasm	actin binding				0						TATTCAATGGGCAAAGGGTTG	0.448													6	258					0	0	0.00308	0	0		A	12506556	A	A	12506556	3	1	4	1	0	0	0	0	1	0	0	0	15096	1203	42	2	1426	2	SPIRE1	18	12506556	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	621941	12506556	65570692	3732	5698											
PTPN2	5771	broad.mit.edu	37	chr18	12817195	12817195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagagagaaggtgccagagCgcccaatgcctgcactacag	12	4	12	13	1	0	3	0	0	0	3	0	4	0	3	4	1	5	1	4	1	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:12817195C>T	uc002krp.2	-	6	859	c.665G>A	c.(664-666)CGC>CAC	p.R222H	PTPN2_uc002krl.2_Missense_Mutation_p.R222H|PTPN2_uc002krn.2_Missense_Mutation_p.R245H|PTPN2_uc002kro.2_Missense_Mutation_p.R222H|PTPN2_uc002krm.2_Missense_Mutation_p.R222H	NM_002828	NP_002819	P17706	PTN2_HUMAN	protein tyrosine phosphatase, non-receptor type	222	Tyrosine-protein phosphatase.|Substrate binding (By similarity).				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway	endoplasmic reticulum|nucleoplasm	protein binding			skin(2)	2		Lung NSC(161;8.94e-06)				GGTGCCAGAGCGCCCAATGCC	0.428													36	117					0	0	0.007835	0	0		T	12817195	T	T	12817195	3	4	4	1	0	0	0	0	1	0	0	0	12808	768	27	1	624	1	PTPN2	18	12817195	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	310639	12817195	65260053	3733	5699											
SEH1L	81929	broad.mit.edu	37	chr18	12955495	12955495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtatggcgtgtgacatggGcccatcctgaatttgggcag	7	11	14	9	1	0	2	0	2	0	0	1	2	1	2	2	3	0	2	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:12955495G>A	uc002krr.2	+	3	334	c.196G>A	c.(196-198)GCC>ACC	p.A66T	SEH1L_uc002krq.2_Missense_Mutation_p.A66T	NM_031216	NP_112493	Q96EE3	SEH1_HUMAN	sec13-like protein isoform 2	66	WD 2.				attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|carbohydrate metabolic process|cell division|glucose transport|mitotic metaphase plate congression|mitotic prometaphase|mRNA transport|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex					0						TGTGACATGGGCCCATCCTGA	0.418													5	117					0	0	0.001168	0	0		A	12955495	A	A	12955495	3	1	4	1	0	0	0	0	1	0	0	0	14034	1203	42	2	206	2	SEH1L	18	12955495	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	138300	12955495	65121753	3734	5700											
MC5R	4161	broad.mit.edu	37	chr18	13826231	13826231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccaccacatcatgacggCgaggcgctcaggggccatca	10	5	11	15	3	3	1	3	1	0	0	3	2	3	1	3	4	1	1	3	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:13826231C>T	uc010xaf.1	+	1	467	c.467C>T	c.(466-468)GCG>GTG	p.A156V		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	156	Helical; Name=4; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6						ATCATGACGGCGAGGCGCTCA	0.577													8	145					0	0	0.00308	0	0		T	13826231	T	T	13826231	3	4	4	1	0	0	0	0	1	0	0	0	9385	768	27	1	469	1	MC5R	18	13826231	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	870736	13826231	64251017	3735	5701											
ZNF519	162655	broad.mit.edu	37	chr18	14105249	14105249	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattctttacatttgaagtgTttctctccagtatggattct	8	19	6	8	0	3	1	0	1	3	0	5	2	4	2	1	1	1	2	1	1	3	7	rs144389001	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:14105249T>A	uc002kst.1	-	3	1443	c.1290A>T	c.(1288-1290)AAA>AAT	p.K430N	ZNF519_uc002ksq.1_Intron|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_Intron	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	430					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATTTGAAGTGTTTCTCTCCAG	0.408													4	102					0	0	0.001984	0	0		A	14105249	A	A	14105249	3	1	4	1	0	0	0	0	1	0	0	0	17989	1722	60	5	336	5	ZNF519	18	14105249	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	279018	14105249	63971999	3736	5702											
ZNF519	162655	broad.mit.edu	37	chr18	14124358	14124358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttattctcacccagggagaCgaggtttctgtagttctcca	8	13	10	10	1	3	1	1	0	3	1	5	3	3	1	2	2	0	4	2	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:14124358C>T	uc002kst.1	-	2	274	c.121G>A	c.(121-123)GTC>ATC	p.V41I	ZNF519_uc002ksq.1_RNA|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_RNA	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	41	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCCAGGGAGACGAGGTTTCTG	0.413													14	90					0	0	0.004007	0	0		T	14124358	T	T	14124358	3	4	4	1	0	0	0	0	1	0	0	0	17989	536	19	1	1509	1	ZNF519	18	14124358	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	19109	14124358	63952890	3737	5703											
ROCK1	6093	broad.mit.edu	37	chr18	18622132	18622132	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcaggaaaggtaagtgaAtttttatggttcataatttt	13	17	8	3	0	3	1	3	1	0	0	3	2	3	2	0	3	0	2	0	3	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:18622132A>T	uc002kte.2	-	8	1826	c.885T>A	c.(883-885)AAT>AAA	p.N295K		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	295	Protein kinase.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					AGGTAAGTGAATTTTTATGGT	0.299													8	85					0	0	0.00308	0	0		T	18622132	T	T	18622132	3	4	4	1	0	0	0	0	1	0	0	0	13542	98	4	5	3283	5	ROCK1	18	18622132	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	4497774	18622132	59455116	3738	5704											
SNRPD1	6632	broad.mit.edu	37	chr18	19209061	19209061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggaagaggaagaggaCgtggccgtggcagaggaaga	15	2	20	4	2	0	5	0	0	0	5	0	10	0	9	1	6	0	1	1	6	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:19209061C>T	uc002ktj.1	+	4	453	c.322C>T	c.(322-324)CGT>TGT	p.R108C		NM_006938	NP_008869	P62314	SMD1_HUMAN	small nuclear ribonucleoprotein D1 polypeptide	108	Arg/Lys-rich (basic).				ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding|RNA binding				0						aggaagaggacgtggccgtgg	0.264													5	105					0	0	0.001168	0	0		T	19209061	T	T	19209061	3	4	4	1	0	0	0	0	1	0	0	0	14889	536	19	1	336	1	SNRPD1	18	19209061	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	586929	19209061	58868187	3739	5705											
NPC1	4864	broad.mit.edu	37	chr18	21140277	21140277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatgatgacatacatggCgtccaagccaaggatcgtcc	12	7	9	13	2	0	2	0	2	0	0	3	3	2	3	4	2	2	0	4	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:21140277C>T	uc002kum.3	-	6	1073	c.799G>A	c.(799-801)GCC>ACC	p.A267T	NPC1_uc010xaz.1_Missense_Mutation_p.A51T|NPC1_uc010xba.1_Missense_Mutation_p.A112T	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	267					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					ACATACATGGCGTCCAAGCCA	0.517													52	45					0	0	0.00361	0	0		T	21140277	T	T	21140277	3	4	4	1	0	0	0	0	1	0	0	0	10589	768	27	1	3117	1	NPC1	18	21140277	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1931216	21140277	56936971	3740	5706											
HRH4	59340	broad.mit.edu	37	chr18	22048786	22048786	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttgtacatccctcacacGctgttcgaatgggattttgg	7	14	9	11	2	1	0	1	0	0	0	3	2	2	1	2	2	1	3	2	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:22048786G>A	uc002kvi.2	+	2	328	c.228G>A	c.(226-228)ACG>ACA	p.T76T	HRH4_uc010xbd.1_Intron|HRH4_uc010dlx.2_Intron	NM_021624	NP_067637	Q9H3N8	HRH4_HUMAN	histamine H4 receptor isoform 1	76	Extracellular (Potential).					integral to membrane|plasma membrane	histamine receptor activity			ovary(2)	2	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Clozapine(DB00363)	TCCCTCACACGCTGTTCGAAT	0.393													9	86					0	0	0.006214	0	0		A	22048786	A	A	22048786	2	1	4	1	0	0	0	0	0	0	0	1	7374	1074	38	1		1	HRH4	18	22048786	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	908509	22048786	56028462	3741	5707											
ZNF521	25925	broad.mit.edu	37	chr18	22932123	22932123	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggaaatcattgtcagcCtgcctgcactcacacacaga	12	8	8	13	0	3	2	3	1	0	1	3	3	3	3	2	1	3	1	2	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:22932123C>A	uc002kvk.2	-	1	92	c.-155G>T	c.(-157--153)CAGGC>CATGC		ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Translation_Start_Site|ZNF521_uc002kvl.2_Translation_Start_Site	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521						cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					CATTGTCAGCCTGCCTGCACT	0.602			T	PAX5	ALL								6	76					1.06961e-07	1.14085e-07	0.00308	1	0		A	22932123	A	A	22932123	1	1	4	1	0	0	0	0	0	0	0	0	17990	696	24	5		5	ZNF521	18	22932123	Translation_Start_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	883337	22932123	55145125	3742	5708											
CHST9	83539	broad.mit.edu	37	chr18	24497286	24497286	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattttcctttttttctcgtAcatcctcaggcatgtgaaac	8	17	6	10	1	2	1	1	1	1	0	5	2	4	1	2	1	2	2	2	1	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:24497286A>G	uc002kwd.2	-	5	467	c.269T>C	c.(268-270)GTA>GCA	p.V90A	C18orf16_uc002kwb.2_Intron|C18orf16_uc010xbm.1_Intron|CHST9_uc002kwc.2_Missense_Mutation_p.V5A|CHST9_uc002kwe.2_Missense_Mutation_p.V90A	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	90	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					TTTTTCTCGTACATCCTCAGG	0.398													13	192					0	0	0.003163	0	0		G	24497286	G	G	24497286	3	3	4	1	0	0	0	0	1	0	0	0	3414	391	14	3	1066	3	CHST9	18	24497286	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	1565163	24497286	53579962	3743	5709											
DSC2	1824	broad.mit.edu	37	chr18	28662238	28662238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaactccttcattggttttgGcatctgttacaattttaaaa	11	17	6	7	0	2	0	1	0	1	0	3	1	3	0	1	2	2	3	1	2	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:28662238G>A	uc002kwl.3	-	9	1683	c.1229C>T	c.(1228-1230)GCC>GTC	p.A410V	DSC2_uc002kwk.3_Missense_Mutation_p.A410V	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	410	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			ATTGGTTTTGGCATCTGTTAC	0.299													6	144					0	0	0.001984	0	0		A	28662238	A	A	28662238	3	1	4	1	0	0	0	0	1	0	0	0	4772	1203	42	2	1548	2	DSC2	18	28662238	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4164952	28662238	49415010	3744	5710											
DSC2	1824	broad.mit.edu	37	chr18	28671070	28671070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcccatcttctcttggcgCgccttagaactttttcttta	6	16	7	12	2	3	1	0	0	3	1	4	2	3	1	2	1	2	0	2	1	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:28671070C>T	uc002kwl.3	-	4	849	c.395G>A	c.(394-396)CGC>CAC	p.R132H	DSC2_uc002kwk.3_Missense_Mutation_p.R132H	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	132					homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			TCTCTTGGCGCGCCTTAGAAC	0.368													8	85					0	0	0.004482	0	0		T	28671070	T	T	28671070	3	4	4	1	0	0	0	0	1	0	0	0	4772	768	27	1	2402	1	DSC2	18	28671070	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	8832	28671070	49406178	3745	5711											
DSC1	1823	broad.mit.edu	37	chr18	28714691	28714691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctttgtcaatttgaggtgCgtgatcgttgtaatcatcca	8	17	9	7	2	3	2	2	2	1	0	5	2	4	2	1	1	1	2	1	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:28714691C>T	uc002kwn.2	-	12	1982	c.1720G>A	c.(1720-1722)GCA>ACA	p.A574T	DSC1_uc002kwm.2_Missense_Mutation_p.A574T	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	574	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			ATTTGAGGTGCGTGATCGTTG	0.368													9	32					0	0	0.008291	0	0		T	28714691	T	T	28714691	3	4	4	1	0	0	0	0	1	0	0	0	4771	768	27	1	1024	1	DSC1	18	28714691	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	43621	28714691	49362557	3746	5712											
DSG3	1830	broad.mit.edu	37	chr18	29049154	29049154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatcggtgtgagatgccacGcagcttgacactggaagtct	10	9	12	10	2	1	2	0	2	1	1	2	4	1	3	1	2	2	2	1	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:29049154G>A	uc002kws.2	+	12	1848	c.1739G>A	c.(1738-1740)CGC>CAC	p.R580H		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	580	Extracellular (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GAGATGCCACGCAGCTTGACA	0.552													42	170					0	0	0.002852	0	0		A	29049154	A	A	29049154	3	1	4	1	0	0	0	0	1	0	0	0	4784	1087	38	1	1785	1	DSG3	18	29049154	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	334463	29049154	49028094	3747	5713											
DSG2	1829	broad.mit.edu	37	chr18	29125953	29125953	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtatgaacacagcttcacaTtcactctgtgagcaaactat	14	11	6	10	0	3	2	2	2	1	0	3	2	3	2	0	0	4	3	0	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:29125953T>C	uc002kwu.3	+	15	2792	c.2604T>C	c.(2602-2604)CAT>CAC	p.H868H	uc002kwv.3_Intron	NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	868	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			CAGCTTCACATTCACTCTGTG	0.403													30	135					0	0	0.003755	0	0		C	29125953	C	C	29125953	2	2	4	1	0	0	0	0	0	0	0	1	4783	1490	52	3		3	DSG2	18	29125953	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	76799	29125953	48951295	3748	5714											
KIAA1012	22878	broad.mit.edu	37	chr18	29412060	29412060	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttaccttgttgttttatGccgaagatcaactatgacat	10	17	6	8	1	2	2	1	1	1	1	2	3	2	2	2	0	3	2	2	0	5	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:29412060G>A	uc002kxc.3	-	28	4424	c.4060C>T	c.(4060-4062)CAT>TAT	p.H1354Y	KIAA1012_uc002kxb.3_Missense_Mutation_p.H1300Y|KIAA1012_uc002kxd.3_RNA	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	1354					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						GTTGTTTTATGCCGAAGATCA	0.303													10	100					0	0	0.008291	0	0		A	29412060	A	A	29412060	3	1	4	1	0	0	0	0	1	0	0	0	8220	1319	46	2	255	2	KIAA1012	18	29412060	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	286107	29412060	48665188	3749	5715											
KLHL14	57565	broad.mit.edu	37	chr18	30321990	30321990	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccctccaaccaataacaGcattttcttgttagagcgaa	13	10	6	12	1	1	1	0	0	1	1	2	2	2	1	3	0	5	2	3	0	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:30321990G>A	uc002kxm.1	-	3	1358	c.970C>T	c.(970-972)CTG>TTG	p.L324L	KLHL14_uc010dmd.1_5'UTR	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	324	Kelch 1.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						ACCAATAACAGCATTTTCTTG	0.428													28	51					0	0	0.009535	0	0		A	30321990	A	A	30321990	2	1	4	1	0	0	0	0	0	0	0	1	8386	962	34	2		2	KLHL14	18	30321990	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	909930	30321990	47755258	3750	5716											
NOL4	8715	broad.mit.edu	37	chr18	31709979	31709979	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttctcatctacccctacGccatcctggaaacaaaacaa	14	8	4	15	1	2	0	1	0	2	0	4	1	3	1	4	1	5	1	4	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:31709979G>A	uc010dmi.2	-	2	499	c.270C>T	c.(268-270)GGC>GGT	p.G90G	NOL4_uc002kxr.3_5'UTR|NOL4_uc010xbt.1_Silent_p.G16G|NOL4_uc010dmh.2_Silent_p.G16G|NOL4_uc010xbu.1_Silent_p.G90G|NOL4_uc002kxt.3_Silent_p.G90G|NOL4_uc010xbw.1_5'UTR	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	90						nucleolus	RNA binding			ovary(3)	3						CTACCCCTACGCCATCCTGGA	0.348													20	37					0	0	0.00278	0	0		A	31709979	A	A	31709979	2	1	4	1	0	0	0	0	0	0	0	1	10543	1074	38	1		1	NOL4	18	31709979	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1387989	31709979	46367269	3751	5717											
GALNT1	2589	broad.mit.edu	37	chr18	33263470	33263470	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattaaaaggagctgctgtGtctaaaggccaagtgatcac	14	9	11	7	0	2	2	1	1	1	1	2	3	2	3	1	2	2	2	1	2	5	2	rs144666262		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:33263470G>A	uc010dmu.2	+	5	650	c.597G>A	c.(595-597)GTG>GTA	p.V199V	GALNT1_uc002kyz.3_Silent_p.V139V|GALNT1_uc002kzb.2_Silent_p.V199V	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	199	Lumenal (Potential).|Catalytic subdomain A.				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						GAGCTGCTGTGTCTAAAGGCC	0.428													36	27					0	0	0.005524	0	0		A	33263470	A	A	33263470	2	1	4	1	0	0	0	0	0	0	0	1	6222	1364	48	4		4	GALNT1	18	33263470	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1553491	33263470	44813778	3752	5718											
MOCOS	55034	broad.mit.edu	37	chr18	33785068	33785068	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaatataaagcagcacacCttcaccttggctcagtatac	14	9	7	11	0	2	1	2	0	0	1	2	2	2	1	2	1	3	4	2	1	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:33785068C>A	uc002kzq.3	+	6	1070	c.1047C>A	c.(1045-1047)ACC>ACA	p.T349T		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	349					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	AGCAGCACACCTTCACCTTGG	0.438													17	64					8.04996e-18	8.80001e-18	0.001882	1	0		A	33785068	A	A	33785068	2	1	4	1	0	0	0	0	0	0	0	1	9707	668	24	5		5	MOCOS	18	33785068	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	521598	33785068	44292180	3753	5719											
MOCOS	55034	broad.mit.edu	37	chr18	33846728	33846728	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggttttggggccttgtcAcagatgccagatgatttgca	8	12	12	9	0	1	3	1	1	0	2	1	3	1	3	3	3	2	2	3	3	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:33846728A>G	uc002kzq.3	+	14	2449	c.2426A>G	c.(2425-2427)CAC>CGC	p.H809R		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	809	MOSC.				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GGGCCTTGTCACAGATGCCAG	0.483													10	37					0	0	0.008291	0	0		G	33846728	G	G	33846728	3	3	4	1	0	0	0	0	1	0	0	0	9707	159	6	3	2480	3	MOCOS	18	33846728	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	61660	33846728	44230520	3754	5720											
FHOD3	80206	broad.mit.edu	37	chr18	34205516	34205516	+	Frame_Shift_Del	DEL	C	-	-																															gcgatgagaccacggagccaCcccccagtgggtgccgggac																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:34205516delC	uc002kzt.1	+	10	1097	c.1000delC	c.(1000-1002)CCCfs	p.P334fs	FHOD3_uc002kzr.1_Frame_Shift_Del_p.P334fs|FHOD3_uc002kzs.1_Frame_Shift_Del_p.P334fs|FHOD3_uc002kzu.1_Frame_Shift_Del_p.P159fs|FHOD3_uc010dmz.1_Frame_Shift_Del_p.P87fs	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	334	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CACGGAGCCACCCCCCAGTGG	0.677													24	35	---	---	---	---						.	-	34205516	-	-	34205516	7	5	4	1	0	1	0	1	0	0	0	0	5897	507	18	0	1038	0	FHOD3	18	34205516	Frame_Shift_Del	DEL	C	TCGA-BR-4184-01A-01D-1126-08	358788	34205516	43871732	3755	5721											
FHOD3	80206	broad.mit.edu	37	chr18	34310720	34310720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaaggacgattaagatcGccattttgaattttgatgag	12	13	9	7	2	0	4	0	3	0	1	2	6	1	5	2	1	0	0	2	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:34310720G>A	uc002kzt.1	+	16	3050	c.2953G>A	c.(2953-2955)GCC>ACC	p.A985T	FHOD3_uc002kzs.1_Missense_Mutation_p.A1002T|FHOD3_uc010dmz.1_Missense_Mutation_p.A717T|FHOD3_uc010dnb.1_5'UTR	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	985	FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				GATTAAGATCGCCATTTTGAA	0.398													7	100					0	0	0.00308	0	0		A	34310720	A	A	34310720	3	1	4	1	0	0	0	0	1	0	0	0	5897	1087	38	1	3070	1	FHOD3	18	34310720	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	105204	34310720	43766528	3756	5722											
FHOD3	80206	broad.mit.edu	37	chr18	34349305	34349305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgatgagatcatggacCgcatcgtcaagtcagccacc	11	7	10	13	2	3	2	3	2	0	1	4	4	3	3	3	1	2	2	3	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:34349305C>T	uc002kzt.1	+	23	4199	c.4102C>T	c.(4102-4104)CGC>TGC	p.R1368C	FHOD3_uc002kzs.1_Missense_Mutation_p.R1385C|FHOD3_uc010dmz.1_Missense_Mutation_p.R1100C|FHOD3_uc010dnb.1_Silent_p.T305T	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	1368	DAD.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				GATCATGGACCGCATCGTCAA	0.522													41	46					0	0	0.002852	0	0		T	34349305	T	T	34349305	3	4	4	1	0	0	0	0	1	0	0	0	5897	652	23	1	4247	1	FHOD3	18	34349305	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	38585	34349305	43727943	3757	5723											
KIAA1328	57536	broad.mit.edu	37	chr18	34752963	34752963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacaggagttagaaaagatgCgtctacatctcctatgccaa	14	9	9	9	1	2	2	0	0	2	2	3	4	2	3	2	1	3	1	2	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:34752963C>T	uc002kzz.2	+	9	1464	c.1442C>T	c.(1441-1443)GCG>GTG	p.A481V	KIAA1328_uc002lab.2_Missense_Mutation_p.A233V|KIAA1328_uc002lac.1_Missense_Mutation_p.A340V|KIAA1328_uc010dnc.1_RNA	NM_020776	NP_065827	Q86T90	K1328_HUMAN	hypothetical protein LOC57536	481										central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)		AGAAAAGATGCGTCTACATCT	0.388													10	165					0	0	0.006214	0	0		T	34752963	T	T	34752963	3	4	4	1	0	0	0	0	1	0	0	0	8241	768	27	1	1476	1	KIAA1328	18	34752963	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	403658	34752963	43324285	3758	5724											
CELF4	56853	broad.mit.edu	37	chr18	34854311	34854311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtaggccccgaaagggatgGccatggggttgaacatgccc	9	6	15	11	2	0	1	0	1	0	0	0	3	0	2	4	5	2	2	4	5	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:34854311G>A	uc002lae.2	-	6	1160	c.764C>T	c.(763-765)GCC>GTC	p.A255V	CELF4_uc010dnd.1_Missense_Mutation_p.A254V|CELF4_uc002lag.2_Missense_Mutation_p.A245V|CELF4_uc002laf.2_Missense_Mutation_p.A250V|CELF4_uc002lai.2_Missense_Mutation_p.A240V|CELF4_uc002lah.1_5'Flank|CELF4_uc002laj.1_Silent_p.G90G	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	255	Sufficient for RNA-binding and MSE- dependent splicing activity.|Necessary for TNNT2 exon 5 inclusion.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						GAAAGGGATGGCCATGGGGTT	0.642													42	29					0	0	0.009718	0	0		A	34854311	A	A	34854311	3	1	4	1	0	0	0	0	1	0	0	0	3221	1203	42	2	724	2	CELF4	18	34854311	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	101348	34854311	43222937	3759	5725											
PIK3C3	5289	broad.mit.edu	37	chr18	39575890	39575890	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaacaccacaagcttgccCggagtttaagaagtggacct	13	7	10	11	1	0	1	0	0	0	1	0	3	0	3	3	2	3	3	3	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:39575890C>T	uc002lap.2	+	8	881	c.823C>T	c.(823-825)CGG>TGG	p.R275W	PIK3C3_uc010xcl.1_Missense_Mutation_p.R212W	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	275					cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						CAAGCTTGCCCGGAGTTTAAG	0.333										TSP Lung(28;0.18)			10	67					0	0	0.001855	0	0		T	39575890	T	T	39575890	3	4	4	1	0	0	0	0	1	0	0	0	11931	643	23	1	853	1	PIK3C3	18	39575890	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4721579	39575890	38501358	3760	5726											
SETBP1	26040	broad.mit.edu	37	chr18	42281686	42281686	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttggagaactatatatgTccacctgagatcaagatcac	15	11	7	8	0	2	3	2	1	0	3	3	5	3	3	2	1	1	0	2	1	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:42281686T>C	uc010dni.2	+	2	671	c.375T>C	c.(373-375)TGT>TGC	p.C125C	SETBP1_uc002lay.2_Silent_p.C125C	NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	125						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		ACTATATATGTCCACCTGAGA	0.468									Schinzel-Giedion_syndrome				6	201					0	0	0.001984	0	0		C	42281686	C	C	42281686	2	2	4	1	0	0	0	0	0	0	0	1	14154	1673	58	3		3	SETBP1	18	42281686	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2705796	42281686	35795562	3761	5727											
SETBP1	26040	broad.mit.edu	37	chr18	42531132	42531132	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggaacttccaccagcccCgtcagtcccatcagccgaga	10	5	10	16	2	2	1	2	0	0	1	4	4	4	2	6	1	3	0	6	1	1	1	rs140403091		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:42531132C>T	uc010dni.2	+	4	2123	c.1827C>T	c.(1825-1827)CCC>CCT	p.P609P		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	609						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		CCACCAGCCCCGTCAGTCCCA	0.532									Schinzel-Giedion_syndrome				26	43					0	0	0.00623	0	0		T	42531132	T	T	42531132	2	4	4	1	0	0	0	0	0	0	0	1	14154	639	23	1		1	SETBP1	18	42531132	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	249446	42531132	35546116	3762	5728											
SLC14A2	8170	broad.mit.edu	37	chr18	43204637	43204637	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacccgaaggaatgtctgAcccccacagcagtcctctcc	9	7	9	16	1	2	2	0	2	2	0	4	4	3	3	5	1	1	1	5	1	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:43204637A>G	uc010dnj.2	+	3	329	c.8A>G	c.(7-9)GAC>GGC	p.D3G	SLC14A2_uc002lbb.2_Missense_Mutation_p.D3G|SLC14A2_uc002lbe.2_Missense_Mutation_p.D3G	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	3						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						GGAATGTCTGACCCCCACAGC	0.577													4	47					0	0	0.009096	0	0		G	43204637	G	G	43204637	3	3	4	1	0	0	0	0	1	0	0	0	14422	275	10	3	10	3	SLC14A2	18	43204637	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	673505	43204637	34872611	3763	5729											
SLC14A1	6563	broad.mit.edu	37	chr18	43310355	43310355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggtgaaaaccaggtttcgCcatgtcaagggagaaggtgc	11	7	16	7	1	1	2	1	1	0	1	2	3	1	2	2	5	2	1	2	5	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:43310355C>T	uc010xcn.1	+	4	389	c.70C>T	c.(70-72)CCA>TCA	p.P24S	SLC14A1_uc010dnk.2_Missense_Mutation_p.P80S|SLC14A1_uc002lbf.3_Missense_Mutation_p.P24S|SLC14A1_uc002lbg.3_RNA|SLC14A1_uc010xco.1_Intron|SLC14A1_uc002lbh.3_Intron|SLC14A1_uc002lbi.3_Intron|SLC14A1_uc002lbj.3_Missense_Mutation_p.P80S|SLC14A1_uc002lbk.3_Missense_Mutation_p.P24S	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	24						integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						CCAGGTTTCGCCATGTCAAGG	0.498													5	77					0	0	0.000602	0	0		T	43310355	T	T	43310355	3	4	4	1	0	0	0	0	1	0	0	0	14421	739	26	2	244	2	SLC14A1	18	43310355	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	105718	43310355	34766893	3764	5730											
KIAA1632	57724	broad.mit.edu	37	chr18	43481010	43481010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcacaccagctgggtggCgtccttctgactcaatagca	8	10	11	12	1	2	1	1	1	1	0	3	1	3	1	2	2	3	3	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:43481010C>T	uc002lbm.2	-	26	4697	c.4597G>A	c.(4597-4599)GCC>ACC	p.A1533T	KIAA1632_uc010xcq.1_Missense_Mutation_p.A87T|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.A408T	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1533					autophagy						0						AGCTGGGTGGCGTCCTTCTGA	0.567													16	63					0	0	0.003163	0	0		T	43481010	T	T	43481010	3	4	4	1	0	0	0	0	1	0	0	0	8265	768	27	1	3218	1	KIAA1632	18	43481010	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	170655	43481010	34596238	3765	5731											
KATNAL2	83473	broad.mit.edu	37	chr18	44579417	44579417	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaaagtcatcagacacaGgtacatgcctattttctaga	15	11	6	9	0	4	2	3	0	1	2	4	2	4	2	1	1	2	1	1	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:44579417G>T	uc002lco.2	+	2	267	c.73G>T	c.(73-75)GCA>TCA	p.A25S	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lcp.3_Intron	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2	97						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						ATCAGACACAGGTACATGCCT	0.348													7	143					2.0095e-06	2.12941e-06	0.001984	1	0		T	44579417	T	T	44579417	3	4	4	1	0	0	0	0	1	0	0	0	8002	1014	35	5	75	5	KATNAL2	18	44579417	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1098407	44579417	33497831	3766	5732											
KIAA0427	9811	broad.mit.edu	37	chr18	46163043	46163043	+	Frame_Shift_Del	DEL	C	-	-																															ttccttctcccgagggcgagCccccccacagcaggtaggga																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:46163043delC	uc002ldc.2	+	3	524	c.239delC	c.(238-240)GCCfs	p.A80fs	KIAA0427_uc002ldd.2_Frame_Shift_Del_p.A80fs	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	80	Interaction with NCBP1/CBP80.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						CGAGGGCGAGCCCCCCCACAG	0.642													8	16	---	---	---	---						.	-	46163043	-	-	46163043	7	5	4	1	0	1	0	1	0	0	0	0	8192	739	26	0	245	0	KIAA0427	18	46163043	Frame_Shift_Del	DEL	C	TCGA-BR-4184-01A-01D-1126-08	1583626	46163043	31914205	3767	5733											
ACAA2	10449	broad.mit.edu	37	chr18	47329200	47329200	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaagctccaaagggcgttcGcttagcagcaactacaaaca	14	7	9	11	2	0	0	0	0	0	0	2	0	1	0	1	1	6	6	1	1	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:47329200G>A	uc002ldw.3	-	2	437	c.40C>T	c.(40-42)CGA>TGA	p.R14*	ACAA2_uc002ldx.3_Nonsense_Mutation_p.R11*	NM_006111	NP_006102	P42765	THIM_HUMAN	acetyl-coenzyme A acyltransferase 2	14					anti-apoptosis|cholesterol biosynthetic process		acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1						AAGGGCGTTCGCTTAGCAGCA	0.453													28	75					0	0	0.009535	0	0		A	47329200	A	A	47329200	4	1	4	1	0	0	0	0	0	1	0	0	105	1095	38	1	1189	1	ACAA2	18	47329200	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1166157	47329200	30748048	3768	5734											
MYO5B	4645	broad.mit.edu	37	chr18	47566549	47566549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggttggactccaggaaacGgaccttcaaattatgcaaaa	15	9	9	8	1	1	0	1	0	0	0	2	3	2	3	2	4	2	2	2	4	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:47566549G>A	uc002leb.2	-	3	562	c.274C>T	c.(274-276)CGT>TGT	p.R92C	MYO5B_uc002lec.1_Missense_Mutation_p.R91C	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	92	Myosin head-like.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		TCCAGGAAACGGACCTTCAAA	0.478													48	255					0	0	0.00361	0	0		A	47566549	A	A	47566549	3	1	4	1	0	0	0	0	1	0	0	0	10097	1116	39	1	5424	1	MYO5B	18	47566549	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	237349	47566549	30510699	3769	5735											
ME2	4200	broad.mit.edu	37	chr18	48458685	48458685	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgaaacttacagatgggCgagtctttacaccaggtcaa	13	9	10	9	1	2	2	1	1	1	1	2	3	2	2	1	2	3	0	1	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:48458685C>T	uc002ley.2	+	13	1628	c.1372C>T	c.(1372-1374)CGA>TGA	p.R458*	ME2_uc010dpd.2_Nonsense_Mutation_p.R458*	NM_002396	NP_002387	P23368	MAOM_HUMAN	malic enzyme 2, NAD(+)-dependent, mitochondrial	458					malate metabolic process	mitochondrial matrix	electron carrier activity|malate dehydrogenase (decarboxylating) activity|malate dehydrogenase (oxaloacetate-decarboxylating) activity|metal ion binding|NAD binding				0		Colorectal(6;0.0273)|all_epithelial(6;0.118)		Colorectal(21;0.0313)|READ - Rectum adenocarcinoma(32;0.105)|STAD - Stomach adenocarcinoma(97;0.184)	NADH(DB00157)	TACAGATGGGCGAGTCTTTAC	0.343													7	101					0	0	0.006214	0	0		T	48458685	T	T	48458685	4	4	4	1	0	0	0	0	0	1	0	0	9436	760	27	1	1418	1	ME2	18	48458685	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	892136	48458685	29618563	3770	5736											
SMAD4	4089	broad.mit.edu	37	chr18	48593465	48593465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtgccttagtgaccacGcggtctttgtacagagttac	8	12	11	10	2	2	2	1	1	1	1	2	2	2	2	2	2	3	2	2	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:48593465G>A	uc010xdp.1	+	10	1754	c.1216G>A	c.(1216-1218)GCG>ACG	p.A406T	SMAD4_uc002lfb.3_Missense_Mutation_p.A251T	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	406	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)|p.A406T(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TAGTGACCACGCGGTCTTTGT	0.433									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				42	53					0	0	0.009718	0	0		A	48593465	A	A	48593465	3	1	4	1	0	0	0	0	1	0	0	0	14785	1087	38	1	1250	1	SMAD4	18	48593465	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	134780	48593465	29483783	3771	5737											
MEX3C	51320	broad.mit.edu	37	chr18	48702779	48702779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaaactggacatgatggcGttctcttttcacagatcttg	9	13	10	9	1	3	2	1	1	2	1	4	3	3	3	0	3	1	2	0	3	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:48702779G>A	uc002lfc.3	-	2	1922	c.1922C>T	c.(1921-1923)ACG>ATG	p.T641M		NM_016626	NP_057710	Q5U5Q3	MEX3C_HUMAN	ring finger and KH domain containing 2	641	RING-type.					cytoplasm|nucleus	RNA binding|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		Colorectal(6;0.003)|all_epithelial(6;0.0473)		Colorectal(16;0.0175)|READ - Rectum adenocarcinoma(32;0.15)		ACATGATGGCGTTCTCTTTTC	0.403													6	184					0	0	0.001984	0	0		A	48702779	A	A	48702779	3	1	4	1	0	0	0	0	1	0	0	0	9529	1145	40	1	61	1	MEX3C	18	48702779	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	109314	48702779	29374469	3772	5738											
DCC	1630	broad.mit.edu	37	chr18	50923715	50923715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctaagttacacagcaacagGcctcaaaccaaacacaatgt	17	7	5	12	0	2	0	1	0	1	0	2	0	2	0	2	1	5	2	2	1	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:50923715G>A	uc002lfe.1	+	18	3313	c.2726G>A	c.(2725-2727)GGC>GAC	p.G909D	DCC_uc010xdr.1_Missense_Mutation_p.G737D|DCC_uc010dpf.1_Missense_Mutation_p.G544D	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	909	Extracellular (Potential).|Fibronectin type-III 5.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		ACAGCAACAGGCCTCAAACCA	0.388													32	140					0	0	0.006999	0	0		A	50923715	A	A	50923715	3	1	4	1	0	0	0	0	1	0	0	0	4285	1203	42	2	2796	2	DCC	18	50923715	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2220936	50923715	27153533	3773	5739											
MBD2	8932	broad.mit.edu	37	chr18	51691025	51691025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcttgtgtgcaaagcactgGcaacagcagataaaagggtc	14	7	12	8	0	0	1	0	0	0	1	1	1	0	1	0	2	5	5	0	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:51691025G>A	uc002lfg.1	-	5	1206	c.977C>T	c.(976-978)GCC>GTC	p.A326V		NM_003927	NP_003918	Q9UBB5	MBD2_HUMAN	methyl-CpG binding domain protein 2 isoform 1	326					transcription, DNA-dependent		C2H2 zinc finger domain binding|methyl-CpG binding|satellite DNA binding				0				Colorectal(16;0.0212)|READ - Rectum adenocarcinoma(32;0.188)	Hexobarbital(DB01355)	CAAAGCACTGGCAACAGCAGA	0.483													6	75					0	0	0.001168	0	0		A	51691025	A	A	51691025	3	1	4	1	0	0	0	0	1	0	0	0	9361	1203	42	2	266	2	MBD2	18	51691025	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	767310	51691025	26386223	3774	5740											
C18orf26	284254	broad.mit.edu	37	chr18	52262274	52262274	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaacttaactggggtctgCgtgaacccaggaatccttgc	9	9	10	13	1	1	1	0	1	1	0	2	2	2	2	3	3	5	0	3	3	4	2	rs139420428	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:52262274C>T	uc002lfq.1	+	2	286	c.240C>T	c.(238-240)TGC>TGT	p.C80C	C18orf26_uc002lfp.1_Intron	NM_173629	NP_775900	Q8N1N2	CR026_HUMAN	hypothetical protein LOC284254	80						integral to membrane					0				Colorectal(16;0.0193)|READ - Rectum adenocarcinoma(59;0.178)		CTGGGGTCTGCGTGAACCCAG	0.448													91	111					0	0	0.00361	0	0		T	52262274	T	T	52262274	2	4	4	1	0	0	0	0	0	0	0	1	1903	776	27	1		1	C18orf26	18	52262274	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	571249	52262274	25814974	3775	5741											
CCDC68	80323	broad.mit.edu	37	chr18	52609944	52609944	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcaataatgtgagcggAcgtagactcatacaaggcag	13	10	10	8	2	3	2	2	1	1	1	3	3	3	3	0	2	2	2	0	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:52609944A>G	uc002lfs.2	-	3	251	c.79T>C	c.(79-81)TCC>CCC	p.S27P	CCDC68_uc002lft.2_Missense_Mutation_p.S27P	NM_001143829	NP_001137301	Q9H2F9	CCD68_HUMAN	coiled-coil domain containing 68	27										skin(1)	1				Colorectal(16;0.0256)|READ - Rectum adenocarcinoma(59;0.21)		ATGTGAGCGGACGTAGACTCA	0.378													18	82					0	0	0.006122	0	0		G	52609944	G	G	52609944	3	3	4	1	0	0	0	0	1	0	0	0	2843	275	10	3	968	3	CCDC68	18	52609944	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	347670	52609944	25467304	3776	5742											
TCF4	6925	broad.mit.edu	37	chr18	52946880	52946880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcagtgcttgctgatggaGcatagacctgaggagaaaga	12	7	15	7	1	0	5	0	2	0	3	0	7	0	6	1	3	3	4	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:52946880G>A	uc002lfz.2	-	9	1169	c.557C>T	c.(556-558)GCT>GTT	p.A186V	TCF4_uc002lfw.3_Missense_Mutation_p.A26V|TCF4_uc010xdu.1_Missense_Mutation_p.A56V|TCF4_uc010xdv.1_Missense_Mutation_p.A56V|TCF4_uc002lfx.2_Missense_Mutation_p.A115V|TCF4_uc010xdw.1_Missense_Mutation_p.A56V|TCF4_uc002lfy.2_Missense_Mutation_p.A144V|TCF4_uc010xdx.1_Missense_Mutation_p.A162V|TCF4_uc010dph.1_Missense_Mutation_p.A186V|TCF4_uc010xdy.1_Missense_Mutation_p.A162V|TCF4_uc002lga.2_Missense_Mutation_p.A288V|TCF4_uc002lgb.1_Missense_Mutation_p.A26V|TCF4_uc010dpi.2_Missense_Mutation_p.A192V|TCF4_uc002lgc.3_Missense_Mutation_p.A107V|TCF4_uc002lfv.2_5'UTR	NM_003199	NP_003190	P15884	ITF2_HUMAN	transcription factor 4 isoform b	186					positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)		TGCTGATGGAGCATAGACCTG	0.483													24	57					0	0	0.00278	0	0		A	52946880	A	A	52946880	3	1	4	1	0	0	0	0	1	0	0	0	15720	971	34	2	1502	2	TCF4	18	52946880	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	336936	52946880	25130368	3777	5743											
ST8SIA3	51046	broad.mit.edu	37	chr18	55020138	55020138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggtcatgctcagcgtcGccctgctgattttatcgctc	4	13	11	13	3	2	1	2	1	0	0	5	1	2	1	1	2	3	4	1	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:55020138G>A	uc002lgn.2	+	1	418	c.61G>A	c.(61-63)GCC>ACC	p.A21T		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	21	Helical; Signal-anchor for type II membrane protein; (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		GCTCAGCGTCGCCCTGCTGAT	0.592													13	21					0	0	0.003163	0	0		A	55020138	A	A	55020138	3	1	4	1	0	0	0	0	1	0	0	0	15258	1087	38	1	63	1	ST8SIA3	18	55020138	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2073258	55020138	23057110	3778	5744											
FECH	2235	broad.mit.edu	37	chr18	55218072	55218072	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtgaatgcaccaagtcggCcagggcctggaagatagaca	12	6	14	9	1	0	3	0	1	0	2	1	4	0	4	3	3	1	1	3	3	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:55218072C>T	uc002lgq.3	-	11	1261	c.1144G>A	c.(1144-1146)GCC>ACC	p.A382T	FECH_uc002lgp.3_Missense_Mutation_p.A388T|FECH_uc002lgr.3_Missense_Mutation_p.A240T	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor	382					generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)				ACCAAGTCGGCCAGGGCCTGG	0.582													8	60					0	0	0.006214	0	0		T	55218072	T	T	55218072	3	4	4	1	0	0	0	0	1	0	0	0	5822	739	26	2	131	2	FECH	18	55218072	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	197934	55218072	22859176	3779	5745											
ALPK2	115701	broad.mit.edu	37	chr18	56205101	56205101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggggaagcaacagagacaGccacaggctccctgaagtca	14	3	12	12	0	1	2	1	1	0	1	2	4	2	3	2	3	3	2	2	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:56205101G>A	uc002lhj.3	-	5	2532	c.2318C>T	c.(2317-2319)GCT>GTT	p.A773V	ALPK2_uc002lhk.1_Missense_Mutation_p.A104V	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	773							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						AACAGAGACAGCCACAGGCTC	0.537													26	66					0	0	0.005443	0	0		A	56205101	A	A	56205101	3	1	4	1	0	0	0	0	1	0	0	0	545	971	34	2	4230	2	ALPK2	18	56205101	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	987029	56205101	21872147	3780	5746											
MALT1	10892	broad.mit.edu	37	chr18	56412961	56412961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagaaactggcagctacttgGtatcaaaggatcttcccaag	14	9	9	9	0	2	1	1	0	1	1	3	2	3	2	1	3	3	3	1	3	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:56412961G>A	uc002lhm.1	+	16	2233	c.1975G>A	c.(1975-1977)GTA>ATA	p.V659I	MALT1_uc002lhn.1_Missense_Mutation_p.V648I	NM_006785	NP_006776	Q9UDY8	MALT1_HUMAN	mucosa associated lymphoid tissue lymphoma	659					activation of NF-kappaB-inducing kinase activity|anti-apoptosis|nuclear export|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of protein ubiquitination|positive regulation of T cell cytokine production|protein oligomerization|proteolysis|T cell receptor signaling pathway	CBM complex|cytosol|nucleus|perinuclear region of cytoplasm	cysteine-type endopeptidase activity|protein self-association|signal transducer activity|ubiquitin-protein ligase activity			ovary(2)|lung(1)|central_nervous_system(1)	4						CAGCTACTTGGTATCAAAGGA	0.348			T	BIRC3	MALT								25	114					0	0	0.005443	0	0		A	56412961	A	A	56412961	3	1	4	1	0	0	0	0	1	0	0	0	9220	1261	44	4	2037	4	MALT1	18	56412961	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	207860	56412961	21664287	3781	5747											
ZNF532	55205	broad.mit.edu	37	chr18	56587202	56587202	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataatcaatgcagcagcctcGcaaccccccaaaaaggtgtc	14	6	7	14	1	1	0	1	0	0	0	3	0	1	0	4	1	4	3	4	1	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:56587202G>A	uc002lho.2	+	4	2230	c.1683G>A	c.(1681-1683)TCG>TCA	p.S561S	ZNF532_uc002lhp.2_Silent_p.S559S|ZNF532_uc010xeg.1_Silent_p.S559S|ZNF532_uc002lhr.2_Silent_p.S559S|ZNF532_uc002lhs.2_Silent_p.S559S	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	561					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						CAGCAGCCTCGCAACCCCCCA	0.532													4	24					0	0	0.009096	0	0		A	56587202	A	A	56587202	2	1	4	1	0	0	0	0	0	0	0	1	17997	1074	38	1		1	ZNF532	18	56587202	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	174241	56587202	21490046	3782	5748											
ZNF532	55205	broad.mit.edu	37	chr18	56587462	56587462	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgaagtaacgtgcaaccAttgtacaaagaacctcgttt	14	10	7	10	3	0	1	0	0	0	1	2	2	0	1	2	0	5	4	2	0	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:56587462A>T	uc002lho.2	+	4	2490	c.1943A>T	c.(1942-1944)CAT>CTT	p.H648L	ZNF532_uc002lhp.2_Missense_Mutation_p.H646L|ZNF532_uc010xeg.1_Missense_Mutation_p.H646L|ZNF532_uc002lhr.2_Missense_Mutation_p.H646L|ZNF532_uc002lhs.2_Missense_Mutation_p.H646L	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	648					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						ACGTGCAACCATTGTACAAAG	0.498													5	115					0	0	0.000602	0	0		T	56587462	T	T	56587462	3	4	4	1	0	0	0	0	1	0	0	0	17997	217	8	5	1945	5	ZNF532	18	56587462	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	260	56587462	21489786	3783	5749											
MC4R	4160	broad.mit.edu	37	chr18	58038852	58038852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaggatggtcaaggtaatcGctcccttcatattggcacct	9	12	9	11	1	3	0	3	0	0	0	5	1	4	1	2	4	0	3	2	4	3	4	rs13447335		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:58038852G>A	uc002lie.1	-	1	1150	c.731C>T	c.(730-732)GCG>GTG	p.A244V		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	244	Cytoplasmic (Potential).				feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)				CAAGGTAATCGCTCCCTTCAT	0.498													42	49					0	0	0.003214	0	0		A	58038852	A	A	58038852	3	1	4	1	0	0	0	0	1	0	0	0	9384	1087	38	1	271	1	MC4R	18	58038852	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1451390	58038852	20038396	3784	5750											
CDH20	28316	broad.mit.edu	37	chr18	59195390	59195390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtgcctgaggatgtggCgattggaacaaccatacaga	12	7	15	7	1	0	2	0	1	0	1	0	6	0	5	2	5	4	0	2	5	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:59195390C>T	uc010dps.1	+	6	1220	c.1208C>T	c.(1207-1209)GCG>GTG	p.A403V	CDH20_uc002lif.2_Missense_Mutation_p.A397V	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	403	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				GAGGATGTGGCGATTGGAACA	0.473													54	211					0	0	0.00361	0	0		T	59195390	T	T	59195390	3	4	4	1	0	0	0	0	1	0	0	0	3109	768	27	1	1230	1	CDH20	18	59195390	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1156538	59195390	18881858	3785	5751											
CDH20	28316	broad.mit.edu	37	chr18	59221532	59221532	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctacgacgacgagggcggCggcgaggaggacaccgaggc	9	1	19	12	8	0	0	0	0	0	0	0	7	0	2	1	6	1	1	1	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:59221532C>T	uc010dps.1	+	11	2022	c.2010C>T	c.(2008-2010)GGC>GGT	p.G670G	CDH20_uc002lif.2_Silent_p.G664G	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	670	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				ACGAGGGCGGCGGCGAGGAGG	0.652													19	64					0	0	0.00278	0	0		T	59221532	T	T	59221532	2	4	4	1	0	0	0	0	0	0	0	1	3109	755	27	1		1	CDH20	18	59221532	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	26142	59221532	18855716	3786	5752											
TNFRSF11A	8792	broad.mit.edu	37	chr18	60036437	60036437	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caaaaagaggtggacagtggCcattgcccgcactgggcagc	11	5	14	11	1	0	1	0	0	0	1	0	2	0	2	2	4	2	2	2	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:60036437C>T	uc002lin.2	+	9	1325	c.1287C>T	c.(1285-1287)GGC>GGT	p.G429G	TNFRSF11A_uc010dpv.2_Intron	NM_003839	NP_003830	Q9Y6Q6	TNR11_HUMAN	tumor necrosis factor receptor superfamily,	429	Cytoplasmic (Potential).				adaptive immune response|cell-cell signaling|circadian temperature homeostasis|monocyte chemotaxis|osteoclast differentiation|positive regulation of cell proliferation|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|response to interleukin-1|response to lipopolysaccharide	external side of plasma membrane|integral to membrane	metal ion binding|tumor necrosis factor receptor activity			breast(2)|lung(1)	3		Colorectal(73;0.188)				TGGACAGTGGCCATTGCCCGC	0.597									Paget_Disease_of_Bone				8	20					0	0	0.004482	0	0		T	60036437	T	T	60036437	2	4	4	1	0	0	0	0	0	0	0	1	16309	726	26	2		2	TNFRSF11A	18	60036437	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	814905	60036437	18040811	3787	5753											
ZCCHC2	54877	broad.mit.edu	37	chr18	60242530	60242530	+	Frame_Shift_Del	DEL	T	-	-																															agcaatggaaaccaacttccTttttttctgcctcagactcc																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:60242530delT	uc002lip.3	+	13	3216	c.3216delT	c.(3214-3216)CCTfs	p.P1072fs	ZCCHC2_uc002lio.2_RNA|ZCCHC2_uc002liq.2_Frame_Shift_Del_p.P542fs	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	1072					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding			lung(1)|prostate(1)	2						ACCAACTTCCTTTTTTTCTGC	0.488													28	38	---	---	---	---						.	-	60242530	-	-	60242530	7	5	4	1	0	1	0	1	0	0	0	0	17612	1596	56	0	3266	0	ZCCHC2	18	60242530	Frame_Shift_Del	DEL	T	TCGA-BR-4184-01A-01D-1126-08	206093	60242530	17834718	3788	5754											
SERPINB2	5055	broad.mit.edu	37	chr18	61569049	61569049	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtgaatgctgtctactTcaaaggaaagtggaaaactc	13	10	10	8	0	2	1	1	1	1	0	3	3	2	3	1	3	3	1	1	3	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:61569049T>G	uc010xeu.1	+	7	944	c.611T>G	c.(610-612)TTC>TGC	p.F204C	SERPINB2_uc002ljo.2_Missense_Mutation_p.F204C|SERPINB2_uc010dqh.2_Missense_Mutation_p.F134C|SERPINB2_uc002ljp.1_Missense_Mutation_p.F9C|SERPINB2_uc002ljq.1_Missense_Mutation_p.F9C	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	204					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	GCTGTCTACTTCAAAGGAAAG	0.383													27	110					0	0	0.009535	0	0		G	61569049	G	G	61569049	3	3	4	1	0	0	0	0	1	0	0	0	14126	1783	62	5	629	5	SERPINB2	18	61569049	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1326519	61569049	16508199	3789	5755											
CDH7	1005	broad.mit.edu	37	chr18	63477140	63477140	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacccgtggagcccgagtcGgagtttgtcatcaaaattca	12	9	10	10	3	3	0	3	0	0	0	4	3	3	2	2	2	2	1	2	2	3	2	rs140174290		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:63477140G>A	uc002ljz.2	+	3	736	c.411G>A	c.(409-411)TCG>TCA	p.S137S	CDH7_uc002lka.2_Silent_p.S137S|CDH7_uc002lkb.2_Silent_p.S137S	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	137	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				AGCCCGAGTCGGAGTTTGTCA	0.522													28	72					0	0	0.00632	0	0		A	63477140	A	A	63477140	2	1	4	1	0	0	0	0	0	0	0	1	3118	1103	39	1		1	CDH7	18	63477140	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1908091	63477140	14600108	3790	5756											
CCDC102B	79839	broad.mit.edu	37	chr18	66513554	66513554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttaaattatttagaatgCgcacagctttggaaaaagaa	16	13	7	5	1	1	2	0	0	1	2	1	3	1	3	0	1	2	2	0	1	8	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:66513554C>T	uc002lkk.2	+	6	1055	c.832C>T	c.(832-834)CGC>TGC	p.R278C	CCDC102B_uc002lki.2_Missense_Mutation_p.R278C|CCDC102B_uc002lkj.1_Missense_Mutation_p.R278C	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	278	Potential.									ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				ATTTAGAATGCGCACAGCTTT	0.318													13	44					0	0	0.00245	0	0		T	66513554	T	T	66513554	3	4	4	1	0	0	0	0	1	0	0	0	2740	768	27	1	842	1	CCDC102B	18	66513554	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3036414	66513554	11563694	3791	5757											
RTTN	25914	broad.mit.edu	37	chr18	67727254	67727254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatgaatcatgaggtggcCgtggtgatgtactttcctgg	8	12	15	6	1	1	4	1	3	0	1	2	5	2	4	2	4	1	1	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:67727254C>T	uc002lkp.2	-	36	4840	c.4772G>A	c.(4771-4773)CGG>CAG	p.R1591Q	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.R679Q|RTTN_uc010dqp.2_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1591							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				ATGAGGTGGCCGTGGTGATGT	0.383													12	58					0	0	0.001368	0	0		T	67727254	T	T	67727254	3	4	4	1	0	0	0	0	1	0	0	0	13762	652	23	1	1964	1	RTTN	18	67727254	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1213700	67727254	10349994	3792	5758											
RTTN	25914	broad.mit.edu	37	chr18	67860572	67860572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catctcctctgggtcgctggCctgtgcgcccaaccacagaa	7	8	10	16	2	2	1	0	0	2	1	4	1	2	1	4	2	2	1	4	2	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:67860572C>T	uc002lkp.2	-	8	1027	c.959G>A	c.(958-960)GGC>GAC	p.G320D	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR|RTTN_uc002lkq.1_Missense_Mutation_p.G320D	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	320							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				GGGTCGCTGGCCTGTGCGCCC	0.542													10	54					0	0	0.008291	0	0		T	67860572	T	T	67860572	3	4	4	1	0	0	0	0	1	0	0	0	13762	739	26	2	5889	2	RTTN	18	67860572	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	133318	67860572	10216676	3793	5759											
TSHZ1	10194	broad.mit.edu	37	chr18	72999217	72999217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttccgccgagcacaacGccctcctgcactccccaggg	6	7	9	19	3	1	0	0	0	1	0	4	1	4	0	6	1	3	2	6	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:72999217G>A	uc002lly.2	+	2	2283	c.1720G>A	c.(1720-1722)GCC>ACC	p.A574T		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	619						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		CGAGCACAACGCCCTCCTGCA	0.672													7	14					0	0	0.00308	0	0		A	72999217	A	A	72999217	3	1	4	1	0	0	0	0	1	0	0	0	16649	1087	38	1	1722	1	TSHZ1	18	72999217	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5138645	72999217	5078031	3794	5760											
TSHZ1	10194	broad.mit.edu	37	chr18	72999371	72999371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctccctggccaaggctgCgtcccccatagcaaaagaga	11	5	11	14	1	0	1	0	0	0	1	2	3	2	1	4	2	3	3	4	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:72999371C>T	uc002lly.2	+	2	2437	c.1874C>T	c.(1873-1875)GCG>GTG	p.A625V		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	670						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GCCAAGGCTGCGTCCCCCATA	0.562													6	63					0	0	0.001168	0	0		T	72999371	T	T	72999371	3	4	4	1	0	0	0	0	1	0	0	0	16649	768	27	1	1876	1	TSHZ1	18	72999371	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	154	72999371	5077877	3795	5761											
TSHZ1	10194	broad.mit.edu	37	chr18	72999579	72999579	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatggaccactcaccggaGccttccttcatcaacccgct	9	9	6	17	2	4	0	4	0	0	0	5	2	5	2	5	2	2	1	5	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:72999579G>A	uc002lly.2	+	2	2645	c.2082G>A	c.(2080-2082)GAG>GAA	p.E694E		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	739						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		ACTCACCGGAGCCTTCCTTCA	0.592													11	44					0	0	0.001368	0	0		A	72999579	A	A	72999579	2	1	4	1	0	0	0	0	0	0	0	1	16649	962	34	2		2	TSHZ1	18	72999579	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	208	72999579	5077669	3796	5762											
TSHZ1	10194	broad.mit.edu	37	chr18	72999867	72999867	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatcacctctgcgggagagCgcactcatggacatctccga	9	7	11	14	3	4	1	2	0	2	1	5	4	4	2	2	2	2	2	2	2	0	0	rs142726083		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:72999867C>T	uc002lly.2	+	2	2933	c.2370C>T	c.(2368-2370)AGC>AGT	p.S790S		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	835						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		TGCGGGAGAGCGCACTCATGG	0.557													6	62					0	0	0.001984	0	0		T	72999867	T	T	72999867	2	4	4	1	0	0	0	0	0	0	0	1	16649	767	27	1		1	TSHZ1	18	72999867	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	288	72999867	5077381	3797	5763											
ZNF516	9658	broad.mit.edu	37	chr18	74154862	74154862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgcttgcgcatgtgctgcGaaagcgagctctggaagggg	7	9	17	8	3	1	0	0	0	1	0	1	3	1	1	0	3	6	4	0	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:74154862G>A	uc010dqx.1	-	2	384	c.149C>T	c.(148-150)TCG>TTG	p.S50L	ZNF516_uc002lme.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	50	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CATGTGCTGCGAAAGCGAGCT	0.642													16	33					0	0	0.006122	0	0		A	74154862	A	A	74154862	3	1	4	1	0	0	0	0	1	0	0	0	17985	1059	37	1	3363	1	ZNF516	18	74154862	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1154995	74154862	3922386	3798	5764											
ZNF236	7776	broad.mit.edu	37	chr18	74593430	74593430	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaactggataaaaaagAaaaaaaaatgataaagaaga	27	4	9	1	0	0	5	0	1	0	4	0	7	0	6	0	2	1	0	0	2	11	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:74593430A>G	uc002lmi.2	+	9	1571	c.1373A>G	c.(1372-1374)GAA>GGA	p.E458G	ZNF236_uc002lmj.2_RNA|ZNF236_uc002lmk.1_Missense_Mutation_p.E458G	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	458					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GATAAAAAAGAAAAAAAAATG	0.383													38	79					0	0	0.009718	0	0		G	74593430	G	G	74593430	3	3	4	1	0	0	0	0	1	0	0	0	17814	246	9	3	1407	3	ZNF236	18	74593430	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	438568	74593430	3483818	3799	5765											
ATP9B	374868	broad.mit.edu	37	chr18	77037168	77037168	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcccagaggaacttgggcgCctggtgtatttattgacaga	10	11	12	8	1	0	3	0	1	0	2	1	4	1	4	2	3	1	1	2	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77037168C>T	uc002lmx.2	+	13	1397	c.1383C>T	c.(1381-1383)CGC>CGT	p.R461R	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Silent_p.R461R|ATP9B_uc002lmy.1_RNA|ATP9B_uc002lmz.1_Silent_p.R155R	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	461	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		AACTTGGGCGCCTGGTGTATT	0.438													5	91					0	0	0.001168	0	0		T	77037168	T	T	77037168	2	4	4	1	0	0	0	0	0	0	0	1	1200	726	26	2		2	ATP9B	18	77037168	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2443738	77037168	1040080	3800	5766											
ATP9B	374868	broad.mit.edu	37	chr18	77090061	77090061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catgaagggcgctgacgtggCcatgtctcctatcgtgcagt	7	10	13	11	3	1	2	0	2	1	0	3	2	1	2	2	2	1	2	2	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77090061C>T	uc002lmx.2	+	17	1999	c.1985C>T	c.(1984-1986)GCC>GTC	p.A662V	ATP9B_uc002lmw.1_Missense_Mutation_p.A662V|ATP9B_uc002lmz.1_Missense_Mutation_p.A356V	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	662	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		GCTGACGTGGCCATGTCTCCT	0.468													14	58					0	0	0.006122	0	0		T	77090061	T	T	77090061	3	4	4	1	0	0	0	0	1	0	0	0	1200	739	26	2	2051	2	ATP9B	18	77090061	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	52893	77090061	987187	3801	5767											
ATP9B	374868	broad.mit.edu	37	chr18	77133950	77133950	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgagtctgagttcgtccaCgtggtggccatctccttcac	5	13	10	13	3	3	1	1	1	2	0	7	2	4	1	3	2	0	1	3	2	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77133950C>T	uc002lmx.2	+	28	3137	c.3123C>T	c.(3121-3123)CAC>CAT	p.H1041H	ATP9B_uc002lmw.1_Silent_p.H1041H|ATP9B_uc002lna.2_Silent_p.H67H|ATP9B_uc002lnb.1_3'UTR|ATP9B_uc010drb.2_RNA	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	1041	Helical; (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		AGTTCGTCCACGTGGTGGCCA	0.602													10	88					0	0	0.008291	0	0		T	77133950	T	T	77133950	2	4	4	1	0	0	0	0	0	0	0	1	1200	535	19	1		1	ATP9B	18	77133950	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	43889	77133950	943298	3802	5768											
NFATC1	4772	broad.mit.edu	37	chr18	77246433	77246433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaagcaccctgatgccaGcggcccctggcgtgagcccc	8	4	13	16	2	0	3	0	2	0	1	0	4	0	3	6	2	4	1	6	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77246433G>A	uc010xfg.1	+	9	2731	c.2278G>A	c.(2278-2280)GCG>ACG	p.A760T	NFATC1_uc002lnd.2_Missense_Mutation_p.A760T|NFATC1_uc002lne.2_Missense_Mutation_p.A288T|NFATC1_uc010xfh.1_Intron|NFATC1_uc010xfj.1_Missense_Mutation_p.A288T|NFATC1_uc002lnf.2_Missense_Mutation_p.A747T|NFATC1_uc002lng.2_Missense_Mutation_p.A747T|NFATC1_uc010xfk.1_Intron	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	760	Trans-activation domain B (TAD-B).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CCTGATGCCAGCGGCCCCTGG	0.687													12	50					0	0	0.001368	0	0		A	77246433	A	A	77246433	3	1	4	1	0	0	0	0	1	0	0	0	10380	971	34	2	2463	2	NFATC1	18	77246433	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	112483	77246433	830815	3803	5769											
CTDP1	9150	broad.mit.edu	37	chr18	77474877	77474877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgaagtcctcctcctccGcctctgatggcgaaagcgag	8	7	11	15	4	1	1	0	1	1	0	5	4	5	1	5	1	1	1	5	1	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77474877G>A	uc002lnh.1	+	8	1564	c.1417G>A	c.(1417-1419)GCC>ACC	p.A473T	CTDP1_uc002lni.1_Missense_Mutation_p.A473T|CTDP1_uc010drd.1_Missense_Mutation_p.A473T	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	473	Ser-rich.				positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		CTCCTCCTCCGCCTCTGATGG	0.677													5	1					0	0	0.000602	0	0		A	77474877	A	A	77474877	3	1	4	1	0	0	0	0	1	0	0	0	4005	1087	38	1	1447	1	CTDP1	18	77474877	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	228444	77474877	602371	3804	5770											
KCNG2	26251	broad.mit.edu	37	chr18	77659090	77659090	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgtgctggagaccgtgtgCgtggcctggttctccttcga	3	13	14	11	4	1	1	0	0	1	1	4	3	1	1	3	3	2	2	3	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77659090C>T	uc010xfl.1	+	2	675	c.675C>T	c.(673-675)TGC>TGT	p.C225C		NM_012283	NP_036415	Q9UJ96	KCNG2_HUMAN	potassium voltage-gated channel, subfamily G,	225	Helical; Name=Segment S2; (Potential).				energy reserve metabolic process|regulation of heart contraction|regulation of insulin secretion	voltage-gated potassium channel complex	delayed rectifier potassium channel activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;6.92e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0244)		AGACCGTGTGCGTGGCCTGGT	0.682													6	17					0	0	0.001984	0	0		T	77659090	T	T	77659090	2	4	4	1	0	0	0	0	0	0	0	1	8044	776	27	1		1	KCNG2	18	77659090	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	184213	77659090	418158	3805	5771											
PQLC1	80148	broad.mit.edu	37	chr18	77703340	77703340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaccaacctgtaaaggagCggcgcctggcgttgagctcg	8	6	14	13	4	0	1	0	1	0	0	1	2	0	2	4	3	3	3	4	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77703340C>T	uc002lnl.2	-	3	498	c.326G>A	c.(325-327)CGC>CAC	p.R109H	PQLC1_uc010dre.2_Missense_Mutation_p.R26H|PQLC1_uc002lnk.2_Missense_Mutation_p.R109H|PQLC1_uc010xfm.1_Missense_Mutation_p.R109H	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	109						integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		TGTAAAGGAGCGGCGCCTGGC	0.582													17	93					0	0	0.002299	0	0		T	77703340	T	T	77703340	3	4	4	1	0	0	0	0	1	0	0	0	12440	768	27	1	505	1	PQLC1	18	77703340	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	44250	77703340	373908	3806	5772											
ADNP2	22850	broad.mit.edu	37	chr18	77894583	77894583	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccctctgtcacccctggggtCctgcaggctgtctcgccagg	3	9	12	17	1	3	0	1	0	2	0	5	0	4	0	5	4	1	2	5	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77894583C>T	uc002lnw.2	+	4	1742	c.1287C>T	c.(1285-1287)GTC>GTT	p.V429V		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	429					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		CCCCTGGGGTCCTGCAGGCTG	0.627													5	57					0	0	0.001168	0	0		T	77894583	T	T	77894583	2	4	4	1	0	0	0	0	0	0	0	1	324	842	30	4		4	ADNP2	18	77894583	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	191243	77894583	182665	3807	5773											
ADNP2	22850	broad.mit.edu	37	chr18	77896106	77896106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcgccgtccatttggtgcGctgcagaagtgctcccaagg	7	9	12	13	3	0	1	0	0	0	1	3	1	2	1	3	2	3	3	3	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77896106G>A	uc002lnw.2	+	4	3265	c.2810G>A	c.(2809-2811)CGC>CAC	p.R937H		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	937					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		CATTTGGTGCGCTGCAGAAGT	0.557													7	70					0	0	0.004482	0	0		A	77896106	A	A	77896106	3	1	4	1	0	0	0	0	1	0	0	0	324	1087	38	1	2820	1	ADNP2	18	77896106	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1523	77896106	181142	3808	5774											
PPAP2C	8612	broad.mit.edu	37	chr19	282274	282274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgtgggtcgcagcagccGtgcccacttccaacagagtc	8	7	12	14	2	0	1	0	0	0	1	3	2	1	1	3	1	4	2	3	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:282274G>A	uc002loi.2	-	5	676	c.577C>T	c.(577-579)CGG>TGG	p.R193W	PPAP2C_uc002loh.2_Missense_Mutation_p.R214W|PPAP2C_uc002loj.2_Missense_Mutation_p.R137W	NM_003712	NP_003703	O43688	LPP2_HUMAN	phosphatidic acid phosphatase type 2C isoform 1	193					sphingolipid metabolic process	integral to membrane|plasma membrane	phosphatidate phosphatase activity|phosphoprotein phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCAGCAGCCGTGCCCACTTC	0.617													7	20					0	0	0.004482	0	0		A	282274	A	A	282274	3	1	4	1	0	0	0	0	1	0	0	0	12311	1144	40	1	297	1	PPAP2C	19	282274	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08		282274	58846709	3809	5775											
MIER2	54531	broad.mit.edu	37	chr19	312230	312230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaccgcagccttcgcagggCctcctccacattgaagttgc	8	8	10	15	2	0	1	0	1	0	0	3	2	2	1	5	1	3	3	5	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:312230C>T	uc002lok.1	-	9	859	c.850G>A	c.(850-852)GCC>ACC	p.A284T		NM_017550	NP_060020	Q8N344	MIER2_HUMAN	mesoderm induction early response 1, family	284	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		all_cancers(10;1.05e-30)|all_epithelial(18;3.04e-19)|Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;2.49e-05)|all_lung(49;4.36e-05)|Breast(49;0.000304)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTCGCAGGGCCTCCTCCACA	0.622													8	21					0	0	0.004482	0	0		T	312230	T	T	312230	3	4	4	1	0	0	0	0	1	0	0	0	9599	739	26	2	811	2	MIER2	19	312230	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	29956	312230	58816753	3810	5776											
C19orf21	126353	broad.mit.edu	37	chr19	757730	757730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagggaagagaacaaggtgCgtgctgtgcccacctgggcc	9	6	15	11	1	1	1	1	0	0	1	1	3	1	2	3	3	4	1	3	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:757730C>T	uc002lpo.2	+	2	867	c.784C>T	c.(784-786)CGT>TGT	p.R262C		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	262										upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAACAAGGTGCGTGCTGTGCC	0.657													7	15					0	0	0.004482	0	0		T	757730	T	T	757730	3	4	4	1	0	0	0	0	1	0	0	0	1916	768	27	1	786	1	C19orf21	19	757730	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	445500	757730	58371253	3811	5777											
LPPR3	79948	broad.mit.edu	37	chr19	814918	814918	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggcgtggatgtcgtggccGgagcagatgtcctgcgtgat	6	10	17	8	4	0	2	0	1	0	1	2	4	1	4	2	4	2	1	2	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:814918G>A	uc002lpx.1	-	5	631	c.567C>T	c.(565-567)TCC>TCT	p.S189S	LPPR3_uc010dru.1_Silent_p.S101S|LPPR3_uc002lpw.1_Silent_p.S189S|LPPR3_uc002lpy.1_5'UTR	NM_024888	NP_079164	Q6T4P5	LPPR3_HUMAN	plasticity-related protein 2	189						integral to membrane	phosphatidate phosphatase activity				0						TGTCGTGGCCGGAGCAGATGT	0.622													3	15					0	0	0.009096	0	0		A	814918	A	A	814918	2	1	4	1	0	0	0	0	0	0	0	1	8944	1103	39	1		1	LPPR3	19	814918	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	57188	814918	58314065	3812	5778											
CFD	1675	broad.mit.edu	37	chr19	860951	860951	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgacgtgctccgcgcagtGccccacccggacagccagcc	7	4	11	19	5	0	0	0	0	0	0	1	2	1	1	6	1	5	2	6	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:860951G>A	uc002lqc.2	+	3	328	c.303G>A	c.(301-303)GTG>GTA	p.V101V	CFD_uc010drv.2_Silent_p.V108V	NM_001928	NP_001919	P00746	CFAD_HUMAN	complement factor D preproprotein	101	Peptidase S1.				complement activation, alternative pathway|platelet activation|platelet degranulation|proteolysis	platelet alpha granule lumen	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCGCGCAGTGCCCCACCCGG	0.721													3	9					0	0	0.004672	0	0		A	860951	A	A	860951	2	1	4	1	0	0	0	0	0	0	0	1	3284	1306	46	2		2	CFD	19	860951	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	46033	860951	58268032	3813	5779											
GRIN3B	116444	broad.mit.edu	37	chr19	1005443	1005443	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccgcctgctcatgaaccTctgggccatcttctgcctgc	4	10	11	16	1	4	1	1	1	3	0	4	1	4	1	5	2	4	1	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:1005443T>A	uc002lqo.1	+	3	1943	c.1943T>A	c.(1942-1944)CTC>CAC	p.L648H		NM_138690	NP_619635	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic,	648	Cytoplasmic (Potential).				ionotropic glutamate receptor signaling pathway|protein insertion into membrane|regulation of calcium ion transport	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|ionotropic glutamate receptor activity|neurotransmitter receptor activity				0		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Glycine(DB00145)|L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	CTCATGAACCTCTGGGCCATC	0.632													12	24					0	0	0.00245	0	0		A	1005443	A	A	1005443	3	1	4	1	0	0	0	0	1	0	0	0	6800	1551	54	5	1953	5	GRIN3B	19	1005443	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	144492	1005443	58123540	3814	5780											
APC2	10297	broad.mit.edu	37	chr19	1460307	1460307	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaacctcacctttggggaCgttgccaacaaggtgcccgg	9	7	11	14	2	1	0	1	0	0	0	1	1	1	1	5	4	4	1	5	4	3	2	rs150932990		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:1460307C>T	uc002lsr.1	+	11	1639	c.1431C>T	c.(1429-1431)GAC>GAT	p.D477D	APC2_uc002lss.1_Silent_p.D59D|APC2_uc002lst.1_Silent_p.D477D|APC2_uc002lsu.1_Silent_p.D476D|uc002lsv.2_5'Flank	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	477					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTTTGGGGACGTTGCCAACA	0.562													19	26					0	0	0.001882	0	0		T	1460307	T	T	1460307	2	4	4	1	0	0	0	0	0	0	0	1	764	535	19	1		1	APC2	19	1460307	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	454864	1460307	57668676	3815	5781											
AP3D1	8943	broad.mit.edu	37	chr19	2114816	2114816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcctcgtcgctgggcagaGcattctgacaggaagagagg	10	7	14	10	2	1	3	0	1	1	2	4	5	2	4	1	3	1	3	1	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:2114816G>A	uc002luz.2	-	21	2577	c.2354C>T	c.(2353-2355)GCT>GTT	p.A785V	AP3D1_uc002luy.2_Missense_Mutation_p.A694V|AP3D1_uc002lva.2_Missense_Mutation_p.A785V	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	785					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTGGGCAGAGCATTCTGACA	0.592													10	51					0	0	0.008291	0	0		A	2114816	A	A	2114816	3	1	4	1	0	0	0	0	1	0	0	0	746	971	34	2	1305	2	AP3D1	19	2114816	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	654509	2114816	57014167	3816	5782											
DOT1L	84444	broad.mit.edu	37	chr19	2211140	2211140	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgttctaccagctacctcCgagcgtgcagcggcactccc	6	7	9	19	4	1	0	0	0	1	0	3	1	3	0	5	1	6	4	5	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:2211140C>T	uc002lvb.3	+	15	1430	c.1394C>T	c.(1393-1395)CCG>CTG	p.P465L	DOT1L_uc002lvc.1_5'UTR	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	465				RSPHSPFYQLPPSV -> TLRTPSGSPRRTKL (in Ref. 3).		nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGCTACCTCCGAGCGTGCAG	0.701													6	43					0	0	0.001984	0	0		T	2211140	T	T	2211140	3	4	4	1	0	0	0	0	1	0	0	0	4715	652	23	1	1452	1	DOT1L	19	2211140	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	96324	2211140	56917843	3817	5783											
ZNF554	115196	broad.mit.edu	37	chr19	2834253	2834253	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccggaggcattctttgagCgaacatcaaagaattcacac	15	8	8	10	2	3	2	2	1	1	1	3	4	3	3	1	2	3	1	1	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:2834253C>T	uc002lwm.2	+	5	1218	c.1020C>T	c.(1018-1020)AGC>AGT	p.S340S	ZNF554_uc002lwl.2_Silent_p.S289S	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	340	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATTCTTTGAGCGAACATCAAA	0.537													20	63					0	0	0.001882	0	0		T	2834253	T	T	2834253	2	4	4	1	0	0	0	0	0	0	0	1	18010	767	27	1		1	ZNF554	19	2834253	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	623113	2834253	56294730	3818	5784											
ZNF555	148254	broad.mit.edu	37	chr19	2852711	2852711	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgtacttcctccctcaaTcggcatgtaaggattcacac	9	11	6	15	2	2	0	2	0	0	0	6	1	4	1	3	2	1	3	3	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:2852711T>A	uc002lwo.2	+	4	737	c.648T>A	c.(646-648)AAT>AAA	p.N216K	ZNF555_uc002lwn.3_Missense_Mutation_p.N215K	NM_152791	NP_690004	Q8NEP9	ZN555_HUMAN	zinc finger protein 555	216	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCCCTCAATCGGCATGTAA	0.433													19	66					0	0	0.008871	0	0		A	2852711	A	A	2852711	3	1	4	1	0	0	0	0	1	0	0	0	18011	1432	50	5	662	5	ZNF555	19	2852711	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	18458	2852711	56276272	3819	5785											
ZNF555	148254	broad.mit.edu	37	chr19	2852932	2852932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atataaatgtaaggaatgtgCggaagcctttagttattcct	13	14	9	5	1	0	0	0	0	0	0	1	2	1	2	2	2	2	2	2	2	8	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:2852932C>T	uc002lwo.2	+	4	958	c.869C>T	c.(868-870)GCG>GTG	p.A290V	ZNF555_uc002lwn.3_Missense_Mutation_p.A289V	NM_152791	NP_690004	Q8NEP9	ZN555_HUMAN	zinc finger protein 555	290	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGGAATGTGCGGAAGCCTTT	0.403													21	50					0	0	0.00278	0	0		T	2852932	T	T	2852932	3	4	4	1	0	0	0	0	1	0	0	0	18011	768	27	1	883	1	ZNF555	19	2852932	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	221	2852932	56276051	3820	5786											
DOHH	83475	broad.mit.edu	37	chr19	3496805	3496805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcatccacctcctgctccGtcaccatcgtgctgtcaatg	6	11	8	16	2	2	0	2	0	0	0	6	0	5	0	5	1	2	3	5	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:3496805G>A	uc002lxs.2	-	2	171	c.8C>T	c.(7-9)ACG>ATG	p.T3M	DOHH_uc010xhl.1_Missense_Mutation_p.T3M	NM_031304	NP_112594	Q9BU89	DOHH_HUMAN	deoxyhypusine hydroxylase/monooxygenase	3					peptidyl-lysine modification to hypusine|post-translational protein modification	cytosol	deoxyhypusine monooxygenase activity|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCTGCTCCGTCACCATCGT	0.652													4	21					0	0	0.000602	0	0		A	3496805	A	A	3496805	3	1	4	1	0	0	0	0	1	0	0	0	4701	1145	40	1	916	1	DOHH	19	3496805	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	643873	3496805	55632178	3821	5787											
FZR1	51343	broad.mit.edu	37	chr19	3523019	3523019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgagcggcgcctgcttcGccagatcgtcatccagaatg	8	9	11	13	4	1	3	1	1	0	2	4	3	2	3	3	1	2	1	3	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:3523019G>A	uc010dtk.2	+	1	66	c.32G>A	c.(31-33)CGC>CAC	p.R11H	FZR1_uc002lxt.2_Missense_Mutation_p.R11H|FZR1_uc002lxv.2_Missense_Mutation_p.R11H	NM_001136198	NP_001129670	Q9UM11	FZR_HUMAN	Fzr1 protein isoform 1	11					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|DNA repair|G2/M transition DNA damage checkpoint|mitosis|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	protein binding			lung(1)|kidney(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCCTGCTTCGCCAGATCGTC	0.687													13	38					0	0	0.006122	0	0		A	3523019	A	A	3523019	3	1	4	1	0	0	0	0	1	0	0	0	6152	1087	38	1	34	1	FZR1	19	3523019	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	26214	3523019	55605964	3822	5788											
C19orf29	58509	broad.mit.edu	37	chr19	3624136	3624136	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcgcatccctgagcgctgCcaccgctcttcctctgaatc	5	11	7	18	3	2	2	0	2	2	0	6	2	4	2	4	0	2	3	4	0	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:3624136C>T	uc002lyh.2	-	2	245	c.192G>A	c.(190-192)TGG>TGA	p.W64*	C19orf29_uc002lyi.3_Nonsense_Mutation_p.W64*|C19orf29_uc010dto.2_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	64						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGAGCGCTGCCACCGCTCTT	0.542													9	36					0	0	0.000978	0	0		T	3624136	T	T	3624136	4	4	4	1	0	0	0	0	0	1	0	0	1921	740	26	2	2120	2	C19orf29	19	3624136	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	101117	3624136	55504847	3823	5789											
ATCAY	85300	broad.mit.edu	37	chr19	3907775	3907775	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaacatgcccggggacagCgcggatctatttggggacgg	10	6	16	9	4	1	1	0	0	1	1	1	4	1	4	1	6	3	0	1	6	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:3907775C>T	uc002lyy.3	+	5	832	c.402C>T	c.(400-402)AGC>AGT	p.S134S	ATCAY_uc010xhz.1_Silent_p.S140S|ATCAY_uc010dts.2_5'Flank	NM_033064	NP_149053	Q86WG3	ATCAY_HUMAN	caytaxin	134					transport		protein binding			breast(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00485)|STAD - Stomach adenocarcinoma(1328;0.183)		CCGGGGACAGCGCGGATCTAT	0.657													6	13					0	0	0.001168	0	0		T	3907775	T	T	3907775	2	4	4	1	0	0	0	0	0	0	0	1	1078	767	27	1		1	ATCAY	19	3907775	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	283639	3907775	55221208	3824	5790											
CHAF1A	10036	broad.mit.edu	37	chr19	4409428	4409428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggagctgcccggagctgaCgagtggcccgagaatgtgcc	8	5	16	12	4	0	2	0	1	0	1	0	6	0	4	3	3	4	2	3	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:4409428C>T	uc002mal.2	+	3	732	c.632C>T	c.(631-633)ACG>ATG	p.T211M		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	211	Binds to CBX1 chromo shadow domain.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGGAGCTGACGAGTGGCCCG	0.597								Chromatin_Structure					9	24					0	0	0.004482	0	0		T	4409428	T	T	4409428	3	4	4	1	0	0	0	0	1	0	0	0	3314	536	19	1	642	1	CHAF1A	19	4409428	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	501653	4409428	54719555	3825	5791											
FEM1A	55527	broad.mit.edu	37	chr19	4792951	4792951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaccgaggagctggaggCgctgatcaccgacccggatg	9	4	14	14	4	1	1	1	1	0	0	1	6	1	4	4	4	1	2	4	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:4792951C>T	uc002mbf.2	+	1	1224	c.1085C>T	c.(1084-1086)GCG>GTG	p.A362V	uc002mbg.1_RNA	NM_018708	NP_061178	Q9BSK4	FEM1A_HUMAN	fem-1 homolog a	362					regulation of ubiquitin-protein ligase activity	cytoplasm	binding|ubiquitin-protein ligase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		GAGCTGGAGGCGCTGATCACC	0.632													11	24					0	0	0.00245	0	0		T	4792951	T	T	4792951	3	4	4	1	0	0	0	0	1	0	0	0	5823	768	27	1	1087	1	FEM1A	19	4792951	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	383523	4792951	54336032	3826	5792											
TICAM1	148022	broad.mit.edu	37	chr19	4816588	4816588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattcgagccccatagggcGccccagtcccaaatgacatg	10	6	10	15	2	0	1	0	1	0	0	2	2	1	1	5	1	1	1	5	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:4816588G>A	uc002mbi.2	-	2	2053	c.1802C>T	c.(1801-1803)GCG>GTG	p.A601V		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	601	Sufficient to induce apoptosis.				apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		CCCATAGGGCGCCCCAGTCCC	0.662													4	30					0	0	0.009096	0	0		A	4816588	A	A	4816588	3	1	4	1	0	0	0	0	1	0	0	0	15917	1087	38	1	340	1	TICAM1	19	4816588	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	23637	4816588	54312395	3827	5793											
TICAM1	148022	broad.mit.edu	37	chr19	4818028	4818028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggagctgagggtgcggacgGcttcctggtaggccacgtcc	5	8	17	11	3	0	1	0	1	0	0	2	3	2	3	3	6	2	3	3	6	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:4818028G>A	uc002mbi.2	-	2	613	c.362C>T	c.(361-363)GCC>GTC	p.A121V		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	121					apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		GGTGCGGACGGCTTCCTGGTA	0.677													6	16					0	0	0.00308	0	0		A	4818028	A	A	4818028	3	1	4	1	0	0	0	0	1	0	0	0	15917	1203	42	2	1780	2	TICAM1	19	4818028	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1440	4818028	54310955	3828	5794											
KDM4B	23030	broad.mit.edu	37	chr19	5041189	5041189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactttgatgaccttgaacGcaaatactggaagaacctca	14	9	9	9	1	1	4	1	3	0	1	1	6	1	6	2	2	3	1	2	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:5041189G>A	uc002mbq.3	+	5	585	c.359G>A	c.(358-360)CGC>CAC	p.R120H	KDM4B_uc010xil.1_Missense_Mutation_p.R120H|KDM4B_uc010xim.1_Missense_Mutation_p.R120H	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	120					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						GACCTTGAACGCAAATACTGG	0.552													7	64					0	0	0.00308	0	0		A	5041189	A	A	5041189	3	1	4	1	0	0	0	0	1	0	0	0	8145	1087	38	1	369	1	KDM4B	19	5041189	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	223161	5041189	54087794	3829	5795											
PTPRS	5802	broad.mit.edu	37	chr19	5206828	5206828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgaggtactccagtgccGcctggtaacagaactggtac	9	9	11	12	2	0	1	0	0	0	1	2	2	2	1	4	3	5	3	4	3	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:5206828G>A	uc002mbv.2	-	38	6038	c.5804C>T	c.(5803-5805)GCG>GTG	p.A1935V	PTPRS_uc002mbu.1_Intron|PTPRS_uc010xin.1_Missense_Mutation_p.A1477V|PTPRS_uc002mbw.2_Missense_Mutation_p.A1897V|PTPRS_uc002mbx.2_Missense_Mutation_p.A1492V|PTPRS_uc002mby.2_Missense_Mutation_p.A1488V	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1935	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		CTCCAGTGCCGCCTGGTAACA	0.622													17	59					0	0	0.002299	0	0		A	5206828	A	A	5206828	3	1	4	1	0	0	0	0	1	0	0	0	12836	1087	38	1	46	1	PTPRS	19	5206828	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	165639	5206828	53922155	3830	5796											
PTPRS	5802	broad.mit.edu	37	chr19	5244179	5244179	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgcgctgagcatccgggCttgcacgttccgcggcgcgc	3	7	16	15	8	0	1	0	1	0	0	3	1	2	1	2	3	2	5	2	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:5244179C>A	uc002mbv.2	-	11	1537	c.1303G>T	c.(1303-1305)GCC>TCC	p.A435S	PTPRS_uc002mbu.1_Missense_Mutation_p.A422S|PTPRS_uc010xin.1_Missense_Mutation_p.A422S|PTPRS_uc002mbw.2_Missense_Mutation_p.A422S|PTPRS_uc002mbx.2_Missense_Mutation_p.A426S|PTPRS_uc002mby.2_Missense_Mutation_p.A422S	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	435	Extracellular (Potential).|Fibronectin type-III 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		AGCATCCGGGCTTGCACGTTC	0.701													9	24					5.50884e-06	5.81984e-06	0.001368	1	0		A	5244179	A	A	5244179	3	1	4	1	0	0	0	0	1	0	0	0	12836	797	28	5	4655	5	PTPRS	19	5244179	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	37351	5244179	53884804	3831	5797											
RFX2	5990	broad.mit.edu	37	chr19	6004294	6004294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttggcaaagttacggatgGcctgtgtcaaggtacctggg	8	11	14	8	1	2	0	1	0	1	0	2	1	2	1	2	5	2	3	2	5	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:6004294G>A	uc002meb.2	-	13	1687	c.1418C>T	c.(1417-1419)GCC>GTC	p.A473V	RFX2_uc002mec.2_Missense_Mutation_p.A448V	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	473					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						GTTACGGATGGCCTGTGTCAA	0.542													5	71					0	0	0.001984	0	0		A	6004294	A	A	6004294	3	1	4	1	0	0	0	0	1	0	0	0	13288	1203	42	2	777	2	RFX2	19	6004294	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	760115	6004294	53124689	3832	5798											
C3	718	broad.mit.edu	37	chr19	6711033	6711033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggatcttggcctcgtgggCgcggtccattcgcaggagga	5	8	17	11	5	1	0	0	0	1	0	4	3	2	3	2	6	0	1	2	6	0	2	rs149692538		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:6711033C>T	uc002mfm.2	-	12	1506	c.1444G>A	c.(1444-1446)GCC>ACC	p.A482T		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	482					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		GCCTCGTGGGCGCGGTCCATT	0.607													26	77					0	0	0.005443	0	0		T	6711033	T	T	6711033	3	4	4	1	0	0	0	0	1	0	0	0	2207	768	27	1	3667	1	C3	19	6711033	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	706739	6711033	52417950	3833	5799											
ZNF557	79230	broad.mit.edu	37	chr19	7076449	7076449	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaggaggagtgggcattgCtggaccctgcccaaaggaca	10	5	14	12	0	0	0	0	0	0	0	0	4	0	4	3	5	2	2	3	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7076449C>T	uc002mgb.2	+	5	642	c.157C>T	c.(157-159)CTG>TTG	p.L53L	ZNF557_uc002mga.2_Silent_p.L60L|ZNF557_uc002mgc.2_Silent_p.L60L	NM_001044388	NP_001037853	Q8N988	ZN557_HUMAN	zinc finger protein 557 isoform b	53	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2				Lung(535;0.179)		GTGGGCATTGCTGGACCCTGC	0.542													10	87					0	0	0.006214	0	0		T	7076449	T	T	7076449	2	4	4	1	0	0	0	0	0	0	0	1	18013	796	28	2		2	ZNF557	19	7076449	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	365416	7076449	52052534	3834	5800											
INSR	3643	broad.mit.edu	37	chr19	7141702	7141702	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttacctcatcaccatatcGccgataactcacttcataca	12	11	2	16	2	4	0	4	0	0	0	5	1	4	0	4	0	3	0	4	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7141702G>A	uc002mgd.1	-	13	2777	c.2668C>T	c.(2668-2670)CGA>TGA	p.R890*	INSR_uc002mge.1_Nonsense_Mutation_p.R878*	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	890	Fibronectin type-III 3.|Extracellular (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TCACCATATCGCCGATAACTC	0.522													9	36					0	0	0.004482	0	0		A	7141702	A	A	7141702	4	1	4	1	0	0	0	0	0	1	0	0	7789	1095	38	1	1520	1	INSR	19	7141702	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	65253	7141702	51987281	3835	5801											
INSR	3643	broad.mit.edu	37	chr19	7170578	7170578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccccattggtcttcagggCaatgtcgtttctctcctggc	4	14	10	13	1	3	0	1	0	2	0	7	0	5	0	3	3	0	2	3	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7170578C>T	uc002mgd.1	-	6	1562	c.1453G>A	c.(1453-1455)GCC>ACC	p.A485T	INSR_uc002mge.1_Missense_Mutation_p.A485T|INSR_uc002mgf.2_Missense_Mutation_p.A485T	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	485					activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GTCTTCAGGGCAATGTCGTTT	0.343													40	89					0	0	0.007835	0	0		T	7170578	T	T	7170578	3	4	4	1	0	0	0	0	1	0	0	0	7789	710	25	2	2763	2	INSR	19	7170578	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	28876	7170578	51958405	3836	5802											
ARHGEF18	23370	broad.mit.edu	37	chr19	7509198	7509198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcaaggccattggccGcctcttcccatgcgctgacg	7	7	11	16	3	1	1	0	1	1	0	2	1	2	1	4	2	3	3	4	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7509198G>A	uc002mgi.2	+	4	1158	c.905G>A	c.(904-906)CGC>CAC	p.R302H	ARHGEF18_uc010xjm.1_Missense_Mutation_p.R144H|ARHGEF18_uc002mgh.2_Missense_Mutation_p.R144H|ARHGEF18_uc002mgj.1_5'Flank	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	302	DH.				actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				GCCATTGGCCGCCTCTTCCCA	0.647													6	17					0	0	0.001984	0	0		A	7509198	A	A	7509198	3	1	4	1	0	0	0	0	1	0	0	0	901	1087	38	1	919	1	ARHGEF18	19	7509198	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	338620	7509198	51619785	3837	5803											
PNPLA6	10908	broad.mit.edu	37	chr19	7614956	7614956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacactgcgagcccaacGcgactgcaccttcctgcgga	8	7	9	17	4	1	0	1	0	0	0	2	3	2	1	3	1	5	1	3	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7614956G>A	uc010xjq.1	+	16	1994	c.1799G>A	c.(1798-1800)CGC>CAC	p.R600H	PNPLA6_uc002mgq.1_Missense_Mutation_p.R552H|PNPLA6_uc010xjp.1_Missense_Mutation_p.R526H|PNPLA6_uc002mgr.1_Missense_Mutation_p.R552H|PNPLA6_uc002mgs.2_Missense_Mutation_p.R591H	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	591	cNMP 2.|Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						CGAGCCCAACGCGACTGCACC	0.632													12	67					0	0	0.001368	0	0		A	7614956	A	A	7614956	3	1	4	1	0	0	0	0	1	0	0	0	12188	1087	38	1	1857	1	PNPLA6	19	7614956	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	105758	7614956	51514027	3838	5804											
XAB2	56949	broad.mit.edu	37	chr19	7687312	7687312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcaggtccaggatgcggtCgtacacggccttggtggact	7	8	15	11	4	0	0	0	0	0	0	2	2	1	2	2	6	2	2	2	6	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7687312C>T	uc002mgx.2	-	12	1548	c.1522G>A	c.(1522-1524)GAC>AAC	p.D508N		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	508	HAT 10.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						AGGATGCGGTCGTACACGGCC	0.607								Direct_reversal_of_damage|NER					25	82					0	0	0.00333	0	0		T	7687312	T	T	7687312	3	4	4	1	0	0	0	0	1	0	0	0	17444	884	31	1	1077	1	XAB2	19	7687312	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	72356	7687312	51441671	3839	5805											
STXBP2	6813	broad.mit.edu	37	chr19	7703933	7703933	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catggatcacccaagcatgcGcatcttgtcttcctgctgca	8	11	8	14	1	3	0	1	0	2	0	4	1	4	1	2	1	4	4	2	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7703933G>A	uc002mha.3	+	3	161	c.116G>A	c.(115-117)CGC>CAC	p.R39H	STXBP2_uc002mhb.3_Missense_Mutation_p.R39H|STXBP2_uc010dvj.2_RNA|STXBP2_uc010xjr.1_Missense_Mutation_p.R39H|STXBP2_uc010dvk.2_Missense_Mutation_p.R7H|STXBP2_uc002mhc.3_5'UTR|STXBP2_uc010dvl.1_5'Flank	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a	39					leukocyte mediated cytotoxicity|neutrophil degranulation|protein transport|regulation of mast cell degranulation|vesicle docking involved in exocytosis	azurophil granule|cytolytic granule|cytosol|specific granule|tertiary granule	syntaxin-3 binding			central_nervous_system(1)	1						CCAAGCATGCGCATCTTGTCT	0.577													5	35					0	0	0.001984	0	0		A	7703933	A	A	7703933	3	1	4	1	0	0	0	0	1	0	0	0	15378	1087	38	1	126	1	STXBP2	19	7703933	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	16621	7703933	51425050	3840	5806											
CLEC4M	10332	broad.mit.edu	37	chr19	7831687	7831687	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtaatcaaaactgctgaGgagcaggtacacgtggtggg	11	8	15	7	2	1	1	1	1	0	0	2	2	1	2	0	4	4	4	0	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7831687G>T	uc002mih.2	+	6	979	c.861G>T	c.(859-861)GAG>GAT	p.E287D	CLEC4M_uc010xjv.1_3'UTR|CLEC4M_uc002mhy.2_3'UTR|CLEC4M_uc010xjw.1_Missense_Mutation_p.E243D|CLEC4M_uc010dvt.2_Missense_Mutation_p.E264D|CLEC4M_uc010dvs.2_Missense_Mutation_p.E286D|CLEC4M_uc010xjx.1_Missense_Mutation_p.E259D|CLEC4M_uc002mhz.2_Missense_Mutation_p.E218D|CLEC4M_uc002mic.2_Missense_Mutation_p.E282D|CLEC4M_uc002mia.2_Missense_Mutation_p.E174D	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	310	Extracellular (Probable).|C-type lectin.				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						AAACTGCTGAGGAGCAGGTAC	0.592													8	36					0.000274275	0.0002868	0.004482	1	0		T	7831687	T	T	7831687	3	4	4	1	0	0	0	0	1	0	0	0	3521	991	35	5	969	5	CLEC4M	19	7831687	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	127754	7831687	51297296	3841	5807											
LRRC8E	80131	broad.mit.edu	37	chr19	7965043	7965043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtccctccggagcaacGccgggaaggtgccagccagt	7	7	14	13	3	0	0	0	0	0	0	2	2	2	2	5	3	4	2	5	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7965043G>A	uc002mir.2	+	3	1737	c.1636G>A	c.(1636-1638)GCC>ACC	p.A546T		NM_025061	NP_079337	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member	546	LRR 2.					integral to membrane				lung(1)|pancreas(1)	2						CCGGAGCAACGCCGGGAAGGT	0.657													4	18					0	0	0.009096	0	0		A	7965043	A	A	7965043	3	1	4	1	0	0	0	0	1	0	0	0	9043	1087	38	1	1642	1	LRRC8E	19	7965043	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	133356	7965043	51163940	3842	5808											
FBN3	84467	broad.mit.edu	37	chr19	8136980	8136980	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccggtcccgaggggagagGccattgatcttgcattcgta	7	9	15	10	3	1	2	0	1	1	1	3	4	2	2	3	5	1	2	3	5	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:8136980G>A	uc002mjf.2	-	62	8061	c.8040C>T	c.(8038-8040)GGC>GGT	p.G2680G	FBN3_uc002mje.2_Silent_p.G476G	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2680						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GAGGGGAGAGGCCATTGATCT	0.647													8	45					0	0	0.004482	0	0		A	8136980	A	A	8136980	2	1	4	1	0	0	0	0	0	0	0	1	5718	1190	42	2		2	FBN3	19	8136980	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	171937	8136980	50992003	3843	5809											
HNRNPM	4670	broad.mit.edu	37	chr19	8551958	8551958	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggacaaattcaacgagtgCggtaagtgttgggaacggct	13	8	14	6	3	1	0	1	0	0	0	1	3	1	2	0	4	3	3	0	4	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:8551958C>T	uc010dwe.2	+	15	2108	c.2028C>T	c.(2026-2028)TGC>TGT	p.C676C	HNRNPM_uc010dwd.2_Silent_p.C637C|HNRNPM_uc002mka.2_Silent_p.C541C|HNRNPM_uc002mkb.1_5'Flank	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	676	RRM 3.				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						TCAACGAGTGCGGTAAGTGTT	0.522													38	94					0	0	0.00874	0	0		T	8551958	T	T	8551958	2	4	4	1	0	0	0	0	0	0	0	1	7287	782	27	1		1	HNRNPM	19	8551958	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	414978	8551958	50577025	3844	5810											
MYO1F	4542	broad.mit.edu	37	chr19	8595407	8595407	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaggccttctggatggtTcgggcaaagccatcgaactt	8	9	12	12	3	1	0	0	0	1	0	3	2	1	1	3	4	2	2	3	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:8595407T>C	uc002mkg.2	-	20	2208	c.2094A>G	c.(2092-2094)CGA>CGG	p.R698R		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	698	IQ.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						TCTGGATGGTTCGGGCAAAGC	0.667													26	58					0	0	0.008361	0	0		C	8595407	C	C	8595407	2	2	4	1	0	0	0	0	0	0	0	1	10091	1770	62	3		3	MYO1F	19	8595407	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	43449	8595407	50533576	3845	5811											
MYO1F	4542	broad.mit.edu	37	chr19	8604860	8604860	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagccggcggtgctggggcGccccttcttgtctccatcca	3	9	14	15	3	2	0	0	0	2	0	4	1	3	1	5	5	2	1	5	5	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:8604860G>A	uc002mkg.2	-	16	1777	c.1663C>T	c.(1663-1665)CGC>TGC	p.R555C		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	555	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						GTGCTGGGGCGCCCCTTCTTG	0.637													10	12					0	0	0.000978	0	0		A	8604860	A	A	8604860	3	1	4	1	0	0	0	0	1	0	0	0	10091	1087	38	1	1685	1	MYO1F	19	8604860	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	9453	8604860	50524123	3846	5812											
MYO1F	4542	broad.mit.edu	37	chr19	8618252	8618252	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggaccttctcgcctccGccagacaccttggagatgta	8	9	9	15	2	1	2	0	0	1	2	3	4	2	3	6	2	0	1	6	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:8618252G>A	uc002mkg.2	-	5	510	c.396C>T	c.(394-396)GGC>GGT	p.G132G	MYO1F_uc002mkh.2_Silent_p.G132G|MYO1F_uc010xkf.1_Silent_p.G132G	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	132	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						TCTCGCCTCCGCCAGACACCT	0.547													6	72					0	0	0.001168	0	0		A	8618252	A	A	8618252	2	1	4	1	0	0	0	0	0	0	0	1	10091	1074	38	1		1	MYO1F	19	8618252	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	13392	8618252	50510731	3847	5813											
ZNF558	148156	broad.mit.edu	37	chr19	8932718	8932718	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcattaaccagctctccGccctgtgtgtgtcctttttg	5	15	8	13	1	2	0	1	0	1	0	4	0	3	0	4	0	3	2	4	0	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:8932718G>A	uc002mkn.1	-	2	311	c.81C>T	c.(79-81)GGC>GGT	p.G27G	ZNF558_uc010xkh.1_5'Flank|ZNF558_uc010dwg.1_Silent_p.G27G	NM_144693	NP_653294	Q96NG5	ZN558_HUMAN	zinc finger protein 558	27					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1						CCAGCTCTCCGCCCTGTGTGT	0.512													26	104					0	0	0.008361	0	0		A	8932718	A	A	8932718	2	1	4	1	0	0	0	0	0	0	0	1	18014	1074	38	1		1	ZNF558	19	8932718	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	314466	8932718	50196265	3848	5814											
MUC16	94025	broad.mit.edu	37	chr19	9047264	9047264	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaggtcagcatctttgatGcaccaggggagacagggaga	11	7	16	7	0	2	4	1	2	1	2	2	6	2	4	1	4	2	2	1	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9047264G>A	uc002mkp.2	-	5	34571	c.34367C>T	c.(34366-34368)GCA>GTA	p.A11456V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11458	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CATCTTTGATGCACCAGGGGA	0.498													28	86					0	0	0.007291	0	0		A	9047264	A	A	9047264	3	1	4	1	0	0	0	0	1	0	0	0	9991	1319	46	2	9476	2	MUC16	19	9047264	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	114546	9047264	50081719	3849	5815											
MUC16	94025	broad.mit.edu	37	chr19	9067419	9067419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtcaacttgtgaaggacaGcacttttctctgtggatacg	9	13	11	8	1	2	1	1	1	1	0	3	3	2	3	0	3	3	1	0	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9067419G>A	uc002mkp.2	-	3	20231	c.20027C>T	c.(20026-20028)GCT>GTT	p.A6676V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6678	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGAAGGACAGCACTTTTCTC	0.507													18	155					0	0	0.002299	0	0		A	9067419	A	A	9067419	3	1	4	1	0	0	0	0	1	0	0	0	9991	971	34	2	23824	2	MUC16	19	9067419	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	20155	9067419	50061564	3850	5816											
MUC16	94025	broad.mit.edu	37	chr19	9070156	9070156	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctcaaagaaggcaggagTtgatgtagaaacacttgtat	15	10	11	5	0	1	3	1	1	1	2	2	4	1	4	0	2	1	4	0	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9070156T>G	uc002mkp.2	-	3	17494	c.17290A>C	c.(17290-17292)ACT>CCT	p.T5764P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5766	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AAGGCAGGAGTTGATGTAGAA	0.458													47	111					0	0	0.00361	0	0		G	9070156	G	G	9070156	3	3	4	1	0	0	0	0	1	0	0	0	9991	1725	60	5	26561	5	MUC16	19	9070156	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2737	9070156	50058827	3851	5817											
MUC16	94025	broad.mit.edu	37	chr19	9070335	9070335	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatggcttctgtgtgcgcaGtgtctttgtaagtggtcagt	5	15	14	7	1	3	0	1	0	2	0	3	0	3	0	0	2	1	4	0	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9070335G>T	uc002mkp.2	-	3	17315	c.17111C>A	c.(17110-17112)ACT>AAT	p.T5704N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5706	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTGTGCGCAGTGTCTTTGTA	0.502													19	54					5.03518e-11	5.43043e-11	0.007413	1	0		T	9070335	T	T	9070335	3	4	4	1	0	0	0	0	1	0	0	0	9991	1029	36	5	26740	5	MUC16	19	9070335	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	179	9070335	50058648	3852	5818											
MUC16	94025	broad.mit.edu	37	chr19	9075638	9075638	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctttgtctgtggtggaCtcagaaggggcaattctctc	6	13	12	10	0	4	1	1	0	3	1	6	2	4	2	1	4	0	1	1	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9075638C>T	uc002mkp.2	-	3	12012	c.11808G>A	c.(11806-11808)GAG>GAA	p.E3936E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGTGGTGGACTCAGAAGGGG	0.478													5	28					0	0	0.000602	0	0		T	9075638	T	T	9075638	2	4	4	1	0	0	0	0	0	0	0	1	9991	564	20	4		4	MUC16	19	9075638	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5303	9075638	50053345	3853	5819											
OR7D2	162998	broad.mit.edu	37	chr19	9297198	9297198	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggtctcacctctccgtCgtttctttattttatgggac	4	18	9	10	2	3	0	1	0	3	0	6	1	3	1	2	2	0	1	2	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9297198C>A	uc002mkz.1	+	1	929	c.741C>A	c.(739-741)GTC>GTA	p.V247V		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	247	Helical; Name=6; (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						ACCTCTCCGTCGTTTCTTTAT	0.473													22	70					1.55469e-16	1.69565e-16	0.00333	1	0		A	9297198	A	A	9297198	2	1	4	1	0	0	0	0	0	0	0	1	11238	871	31	5		5	OR7D2	19	9297198	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	221560	9297198	49831785	3854	5820											
ZNF560	147741	broad.mit.edu	37	chr19	9577561	9577561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgaaaggaatttccacatgCgttacattcagaggtcttct	11	13	8	9	2	3	1	1	0	2	1	5	3	4	2	1	2	2	1	1	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9577561C>T	uc002mlp.1	-	10	2272	c.2062G>A	c.(2062-2064)GCA>ACA	p.A688T	ZNF560_uc010dwr.1_Missense_Mutation_p.A582T	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	688					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						TTTCCACATGCGTTACATTCA	0.373													35	100					0	0	0.004878	0	0		T	9577561	T	T	9577561	3	4	4	1	0	0	0	0	1	0	0	0	18016	768	27	1	314	1	ZNF560	19	9577561	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	280363	9577561	49551422	3855	5821											
FBXL12	54850	broad.mit.edu	37	chr19	9922250	9922250	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagaggcgcttcaggttgggGcacttctggcccagggctct	5	9	15	12	1	3	1	1	0	2	1	3	1	3	1	1	6	0	4	1	6	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9922250G>A	uc002mme.2	-	3	545	c.303C>T	c.(301-303)TGC>TGT	p.C101C	FBXL12_uc002mmd.2_Silent_p.C48C|FBXL12_uc002mmf.2_Silent_p.C48C|FBXL12_uc002mmg.2_Silent_p.C48C|FBXL12_uc002mmh.2_Silent_p.C48C	NM_017703	NP_060173	Q9NXK8	FXL12_HUMAN	F-box and leucine-rich repeat protein 12	101	LRR 2.						protein binding			lung(1)|kidney(1)	2						TCAGGTTGGGGCACTTCTGGC	0.662													15	35					0	0	0.003163	0	0		A	9922250	A	A	9922250	2	1	4	1	0	0	0	0	0	0	0	1	5722	1195	42	2		2	FBXL12	19	9922250	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	344689	9922250	49206733	3856	5822											
COL5A3	50509	broad.mit.edu	37	chr19	10073525	10073525	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacggaatgtgctataccaGcctccaggcttttccttgga	8	11	10	12	2	0	0	0	0	0	0	2	3	2	2	4	3	3	2	4	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10073525G>A	uc002mmq.1	-	65	4907	c.4821C>T	c.(4819-4821)GGC>GGT	p.G1607G		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1607	Fibrillar collagen NC1.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			TGCTATACCAGCCTCCAGGCT	0.547													4	18					0	0	0.009096	0	0		A	10073525	A	A	10073525	2	1	4	1	0	0	0	0	0	0	0	1	3701	958	34	2		2	COL5A3	19	10073525	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	151275	10073525	49055458	3857	5823											
ANGPTL6	83854	broad.mit.edu	37	chr19	10203294	10203294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggggccgaatgagcatggCggccttcctgagagaatatg	10	7	15	9	2	0	3	0	2	0	1	1	5	1	3	3	4	1	1	3	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10203294C>T	uc002mmx.1	-	6	1502	c.1384G>A	c.(1384-1386)GCC>ACC	p.A462T	C19orf66_uc002mmu.3_3'UTR|C19orf66_uc002mmv.3_3'UTR|C19orf66_uc002mmw.3_3'UTR|ANGPTL6_uc002mmy.1_Missense_Mutation_p.A462T	NM_031917	NP_114123	Q8NI99	ANGL6_HUMAN	angiopoietin-like 6 precursor	462	Fibrinogen C-terminal.				angiogenesis|cell differentiation|signal transduction	extracellular space	receptor binding				0			OV - Ovarian serous cystadenocarcinoma(20;3.58e-08)|Epithelial(33;2.5e-05)|all cancers(31;5.96e-05)			ATGAGCATGGCGGCCTTCCTG	0.597													12	61					0	0	0.001368	0	0		T	10203294	T	T	10203294	3	4	4	1	0	0	0	0	1	0	0	0	618	768	27	1	32	1	ANGPTL6	19	10203294	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	129769	10203294	48925689	3858	5824											
DNMT1	1786	broad.mit.edu	37	chr19	10252856	10252856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagagcaggttgatgtctgCgtggtagctcgctggagtgg	6	11	18	6	2	1	2	0	1	1	1	2	3	1	3	0	4	3	6	0	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10252856C>T	uc002mng.2	-	29	3289	c.3109G>A	c.(3109-3111)GCA>ACA	p.A1037T	DNMT1_uc002mne.2_5'Flank|DNMT1_uc002mnf.2_5'UTR|DNMT1_uc010xlc.1_Missense_Mutation_p.A1053T|DNMT1_uc002mnh.2_Missense_Mutation_p.A932T|DNMT1_uc010xld.1_Missense_Mutation_p.A1037T	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	1037	BAH 2.				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	TTGATGTCTGCGTGGTAGCTC	0.602													11	52					0	0	0.001855	0	0		T	10252856	T	T	10252856	3	4	4	1	0	0	0	0	1	0	0	0	4681	768	27	1	1789	1	DNMT1	19	10252856	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	49562	10252856	48876127	3859	5825											
MRPL4	51073	broad.mit.edu	37	chr19	10367487	10367487	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatggcagcatccgctctcCgctctggcgaggaggtaaca	8	7	13	13	3	2	0	0	0	2	0	4	2	3	1	2	4	2	6	2	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10367487C>T	uc002mnm.2	+	6	585	c.431C>T	c.(430-432)CCG>CTG	p.P144L	MRPL4_uc002mnn.2_Missense_Mutation_p.P144L|MRPL4_uc002mno.2_Missense_Mutation_p.P144L	NM_146387	NP_666499	Q9BYD3	RM04_HUMAN	mitochondrial ribosomal protein L4 isoform a	144					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1		Renal(1328;0.0112)	OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;1.99e-06)|all cancers(31;4.81e-06)	Lung(535;0.00705)		ATCCGCTCTCCGCTCTGGCGA	0.687													4	10					0	0	0.001984	0	0		T	10367487	T	T	10367487	3	4	4	1	0	0	0	0	1	0	0	0	9821	652	23	1	449	1	MRPL4	19	10367487	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	114631	10367487	48761496	3860	5826											
MRPL4	51073	broad.mit.edu	37	chr19	10370451	10370451	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccccgacccctaccccacGctacccagggcccagcggcc	6	3	8	24	3	0	0	0	0	0	0	1	1	1	0	9	2	3	1	9	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10370451G>A	uc002mnm.2	+	10	1052	c.898G>A	c.(898-900)GCT>ACT	p.A300T	MRPL4_uc002mnn.2_Missense_Mutation_p.A300T|MRPL4_uc002mno.2_3'UTR	NM_146387	NP_666499	Q9BYD3	RM04_HUMAN	mitochondrial ribosomal protein L4 isoform a	300					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1		Renal(1328;0.0112)	OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;1.99e-06)|all cancers(31;4.81e-06)	Lung(535;0.00705)		CCTACCCCACGCTACCCAGGG	0.662													15	14					0	0	0.004007	0	0		A	10370451	A	A	10370451	3	1	4	1	0	0	0	0	1	0	0	0	9821	1087	38	1	985	1	MRPL4	19	10370451	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2964	10370451	48758532	3861	5827											
RAVER1	125950	broad.mit.edu	37	chr19	10439650	10439651	+	Frame_Shift_Ins	INS	-	G	G																															aactgctgctgtgtgaggctINSggggggcaggttggccacac																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10439650_10439651insG	uc002moa.2	-	3	554_555	c.474_475insC	c.(472-477)CCCAGCfs	p.P158fs		NM_133452	NP_597709	Q8IY67	RAVR1_HUMAN	RAVER1	141_142	RRM 2.					cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.81e-09)|Epithelial(33;3.65e-06)|all cancers(31;8.35e-06)			TGTGTGAGGCTGGGGGGCAGGT	0.649													2	4	---	---	---	---						.	G	10439651	G	G	10439650	7	5	4	1	0	1	1	0	0	0	0	0	13119	1580	55	0	1839	0	RAVER1	19	10439650	Frame_Shift_Ins	INS	-	TCGA-BR-4184-01A-01D-1126-08	69199	10439650	48689333	3862	5828											
TYK2	7297	broad.mit.edu	37	chr19	10476334	10476334	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccactgtcccggatgtagcaGggctccccctcggcctgggc	4	7	13	17	2	0	0	0	0	0	0	3	1	2	1	5	4	1	3	5	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10476334G>T	uc002moc.3	-	7	1248	c.870C>A	c.(868-870)CCC>CCA	p.P290P	TYK2_uc010dxe.2_Silent_p.P105P|TYK2_uc002mod.2_Silent_p.P290P	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	290	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			GGATGTAGCAGGGCTCCCCCT	0.682													3	5					5.9392e-07	6.31025e-07	0.001168	1	0		T	10476334	T	T	10476334	2	4	4	1	0	0	0	0	0	0	0	1	16836	987	35	5		5	TYK2	19	10476334	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	36684	10476334	48652649	3863	5829											
KEAP1	9817	broad.mit.edu	37	chr19	10610610	10610610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccttgcactcagtggaggCgtacatcaccgcgtcccctg	6	8	11	16	4	2	0	2	0	0	0	3	1	3	1	4	2	2	2	4	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10610610C>T	uc002moq.1	-	2	256	c.100G>A	c.(100-102)GCC>ACC	p.A34T	KEAP1_uc002mor.1_Missense_Mutation_p.A34T	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	34					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			TCAGTGGAGGCGTACATCACC	0.647													13	41					0	0	0.003163	0	0		T	10610610	T	T	10610610	3	4	4	1	0	0	0	0	1	0	0	0	8157	768	27	1	1794	1	KEAP1	19	10610610	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	134276	10610610	48518373	3864	5830											
ATG4D	84971	broad.mit.edu	37	chr19	10663693	10663693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggctccctcgcacagggCggctcctcagggccaaacgc	6	5	12	18	4	1	0	1	0	0	0	5	0	4	0	4	4	1	3	4	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10663693C>T	uc002mov.2	+	10	1495	c.1375C>T	c.(1375-1377)CGG>TGG	p.R459W	ATG4D_uc010xlh.1_Missense_Mutation_p.R396W|ATG4D_uc010dxh.2_RNA|ATG4D_uc010dxi.2_RNA|ATG4D_uc010dxj.2_Missense_Mutation_p.R126W	NM_032885	NP_116274	Q86TL0	ATG4D_HUMAN	APG4 autophagy 4 homolog D	459					autophagy|protein transport	cytoplasm	cysteine-type endopeptidase activity				0			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			TCGCACAGGGCGGCTCCTCAG	0.567													5	18					0	0	0.001168	0	0		T	10663693	T	T	10663693	3	4	4	1	0	0	0	0	1	0	0	0	1100	759	27	1	1413	1	ATG4D	19	10663693	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	53083	10663693	48465290	3865	5831											
CDKN2D	1032	broad.mit.edu	37	chr19	10678072	10678072	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagctccagggcgatggCggtgctgccaaacatcatga	10	6	13	12	2	1	1	1	1	0	0	2	2	2	1	2	3	5	3	2	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10678072C>T	uc002mpa.2	-	2	465	c.163G>A	c.(163-165)GCC>ACC	p.A55T	KRI1_uc002mox.1_5'Flank|KRI1_uc002moy.1_5'Flank|CDKN2D_uc002mpb.2_Missense_Mutation_p.A55T	NM_001800	NP_001791	P55273	CDN2D_HUMAN	cyclin-dependent kinase inhibitor 2D	55	ANK 1.				anti-apoptosis|autophagic cell death|cell cycle arrest|DNA synthesis involved in DNA repair|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|negative regulation of caspase activity|negative regulation of cell growth|negative regulation of cell proliferation|regulation of cyclin-dependent protein kinase activity|response to retinoic acid|response to UV|response to vitamin D	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|protein kinase binding				0			Epithelial(33;1.58e-05)|all cancers(31;6.36e-05)			AGGGCGATGGCGGTGCTGCCA	0.587									Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System				30	82					0	0	0.004289	0	0		T	10678072	T	T	10678072	3	4	4	1	0	0	0	0	1	0	0	0	3169	768	27	1	341	1	CDKN2D	19	10678072	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	14379	10678072	48450911	3866	5832											
ILF3	3609	broad.mit.edu	37	chr19	10793873	10793873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagctgaacgagaagaggCgtgggctcaagtacgagctc	11	6	16	8	3	1	3	1	1	0	2	2	6	1	4	0	3	4	4	0	3	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10793873C>T	uc002mpn.2	+	14	1926	c.1609C>T	c.(1609-1611)CGT>TGT	p.R537C	ILF3_uc002mpm.2_Missense_Mutation_p.R541C|ILF3_uc002mpl.2_Missense_Mutation_p.R537C|ILF3_uc002mpk.2_Missense_Mutation_p.R537C|ILF3_uc010xli.1_Missense_Mutation_p.R135C|ILF3_uc002mpo.2_Missense_Mutation_p.R541C|ILF3_uc002mpp.2_Missense_Mutation_p.R362C|ILF3_uc002mpq.2_5'Flank	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	537	DRBM 2.				M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			CGAGAAGAGGCGTGGGCTCAA	0.592													9	55					0	0	0.008291	0	0		T	10793873	T	T	10793873	3	4	4	1	0	0	0	0	1	0	0	0	7728	768	27	1	1671	1	ILF3	19	10793873	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	115801	10793873	48335110	3867	5833											
DNM2	1785	broad.mit.edu	37	chr19	10940929	10940929	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcctccttctcggcGcccccaatcccatcccggcc	5	6	8	22	3	1	0	0	0	1	0	5	0	4	0	7	2	2	2	7	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10940929G>A	uc002mps.1	+	20	2582	c.2418G>A	c.(2416-2418)GCG>GCA	p.A806A	DNM2_uc010dxk.2_Intron|DNM2_uc002mpt.1_Silent_p.A806A|DNM2_uc002mpv.1_Silent_p.A802A|DNM2_uc002mpu.1_Silent_p.A802A|DNM2_uc010dxl.1_Silent_p.A806A|DNM2_uc002mpw.2_Silent_p.A535A|DNM2_uc002mpx.1_Silent_p.A162A	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	806	Pro-rich.				G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			CCTTCTCGGCGCCCCCAATCC	0.697													16	30					0	0	0.008871	0	0		A	10940929	A	A	10940929	2	1	4	1	0	0	0	0	0	0	0	1	4678	1074	38	1		1	DNM2	19	10940929	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	147056	10940929	48188054	3868	5834											
YIPF2	78992	broad.mit.edu	37	chr19	11034602	11034602	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgctcctggacacccttgcgCcaccgcaggaagccccacag	8	4	10	19	3	0	0	0	0	0	0	1	2	1	2	6	2	2	2	6	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:11034602C>T	uc002mqb.2	-	7	682	c.558G>A	c.(556-558)TGG>TGA	p.W186*	YIPF2_uc002mqc.2_Nonsense_Mutation_p.W186*	NM_024029	NP_076934	Q9BWQ6	YIPF2_HUMAN	Yip1 domain family, member 2	186	Cytoplasmic (Potential).					integral to membrane|transport vesicle					0						CACCCTTGCGCCACCGCAGGA	0.632													4	10					0	0	0.000602	0	0		T	11034602	T	T	11034602	4	4	4	1	0	0	0	0	0	1	0	0	17504	740	26	2	404	2	YIPF2	19	11034602	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	93673	11034602	48094381	3869	5835											
RGL3	57139	broad.mit.edu	37	chr19	11505125	11505125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgggtcccctctttccgccGcagcatgaagtctctggggg	4	9	13	15	3	2	1	0	1	2	0	5	1	4	1	5	3	1	2	5	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:11505125G>A	uc002mrp.2	-	19	2150	c.2086C>T	c.(2086-2088)CGG>TGG	p.R696W	RGL3_uc002mrn.2_Intron|RGL3_uc002mrm.2_Intron|RGL3_uc002mro.2_Missense_Mutation_p.R702W	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	696	Interaction with HRAS, MRAS and RIT1 (By similarity).|Ras-associating.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						TCTTTCCGCCGCAGCATGAAG	0.572													14	37					0	0	0.00245	0	0		A	11505125	A	A	11505125	3	1	4	1	0	0	0	0	1	0	0	0	13303	1086	38	1	50	1	RGL3	19	11505125	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	470523	11505125	47623858	3870	5836											
CNN1	1264	broad.mit.edu	37	chr19	11658702	11658702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggaagctaagagaagggCggaacatcattgggctgcag	12	5	17	7	2	1	1	1	0	0	1	1	4	1	3	0	5	3	3	0	5	4	2	rs148076740		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:11658702C>T	uc002msc.1	+	5	645	c.481C>T	c.(481-483)CGG>TGG	p.R161W	CNN1_uc010xmb.1_Missense_Mutation_p.R111W|CNN1_uc010xmc.1_Missense_Mutation_p.R111W	NM_001299	NP_001290	P51911	CNN1_HUMAN	calponin 1, basic, smooth muscle	161					actomyosin structure organization|regulation of smooth muscle contraction	cytoskeleton	actin binding|calmodulin binding				0						AAGAGAAGGGCGGAACATCAT	0.577													12	24					0	0	0.00245	0	0		T	11658702	T	T	11658702	3	4	4	1	0	0	0	0	1	0	0	0	3612	759	27	1	499	1	CNN1	19	11658702	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	153577	11658702	47470281	3871	5837											
ZNF440	126070	broad.mit.edu	37	chr19	11942881	11942881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaagcattcacgtgtccccGttatgttcgtatacatgaaa	13	12	7	9	3	1	1	1	1	0	0	3	1	2	1	2	0	2	4	2	0	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:11942881G>A	uc002msp.1	+	4	1046	c.890G>A	c.(889-891)CGT>CAT	p.R297H		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	297	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACGTGTCCCCGTTATGTTCGT	0.403													18	91					0	0	0.006122	0	0		A	11942881	A	A	11942881	3	1	4	1	0	0	0	0	1	0	0	0	17938	1145	40	1	904	1	ZNF440	19	11942881	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	284179	11942881	47186102	3872	5838											
ZNF439	90594	broad.mit.edu	37	chr19	11978739	11978739	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatagtcccagatcctgTcacagacatgaaaggagtca	13	9	8	11	0	2	3	2	1	0	2	5	4	5	4	3	1	0	0	3	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:11978739T>C	uc002mss.2	+	3	983	c.855T>C	c.(853-855)TGT>TGC	p.C285C	ZNF439_uc002msr.2_Silent_p.C149C	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	285	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CCAGATCCTGTCACAGACATG	0.423													18	76					0	0	0.00278	0	0		C	11978739	C	C	11978739	2	2	4	1	0	0	0	0	0	0	0	1	17936	1673	58	3		3	ZNF439	19	11978739	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	35858	11978739	47150244	3873	5839											
ZNF763	284390	broad.mit.edu	37	chr19	12089891	12089891	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttataagttttcaaacacAcctaagaatgcgctctggag	13	12	7	9	1	3	1	1	0	2	1	3	2	3	2	1	1	2	2	1	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:12089891A>G	uc002msw.2	+	4	1307	c.1152A>G	c.(1150-1152)ACA>ACG	p.T384T	ZNF763_uc010xmf.1_Silent_p.T404T|ZNF763_uc002msv.2_Silent_p.T387T|ZNF763_uc010xmg.1_Silent_p.T262T	NM_001012753	NP_001012771	Q0D2J5	ZN763_HUMAN	zinc finger protein 763	384					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						TTTCAAACACACCTAAGAATG	0.393													10	111					0	0	0.006214	0	0		G	12089891	G	G	12089891	2	3	4	1	0	0	0	0	0	0	0	1	18162	146	6	3		3	ZNF763	19	12089891	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	111152	12089891	47039092	3874	5840											
ZNF791	163049	broad.mit.edu	37	chr19	12739704	12739704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgttcatttttcctagtgCgttacgaacacatgaaagaa	12	13	9	7	2	1	2	1	1	0	1	2	3	2	2	1	1	3	2	1	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:12739704C>T	uc002mua.2	+	4	1523	c.1361C>T	c.(1360-1362)GCG>GTG	p.A454V	ZNF791_uc010xml.1_Missense_Mutation_p.A422V|ZNF791_uc010dyu.1_Missense_Mutation_p.A345V|ZNF791_uc010xmm.1_Missense_Mutation_p.A345V	NM_153358	NP_699189	Q3KP31	ZN791_HUMAN	zinc finger protein 791	454	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TTTCCTAGTGCGTTACGAACA	0.398													7	86					0	0	0.004482	0	0		T	12739704	T	T	12739704	3	4	4	1	0	0	0	0	1	0	0	0	18188	768	27	1	1375	1	ZNF791	19	12739704	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	649813	12739704	46389279	3875	5841											
MAN2B1	4125	broad.mit.edu	37	chr19	12776194	12776194	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggtctcgcacgacttcCtgtgtggcatttgtctgctg	6	13	11	11	2	2	0	0	0	2	0	4	1	3	0	1	2	1	3	1	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:12776194C>A	uc002mub.2	-	3	484	c.408G>T	c.(406-408)CAG>CAT	p.Q136H	MAN2B1_uc010dyv.1_Missense_Mutation_p.Q136H|WDR83_uc002mue.3_5'Flank|WDR83_uc002muc.2_5'Flank	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	136					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						GCACGACTTCCTGTGTGGCAT	0.567													5	124					0.000602214	0.000627828	0.000602	1	0		A	12776194	A	A	12776194	3	1	4	1	0	0	0	0	1	0	0	0	9234	680	24	5	2715	5	MAN2B1	19	12776194	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	36490	12776194	46352789	3876	5842											
TNPO2	30000	broad.mit.edu	37	chr19	12812201	12812201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagcctctccttgagcagcgGcgggaattgctcagagaact	9	8	12	12	2	2	2	1	1	1	1	3	4	2	3	2	2	5	2	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:12812201G>A	uc002muo.2	-	24	2838	c.2653C>T	c.(2653-2655)CCG>TCG	p.P885S	TNPO2_uc002mup.2_Missense_Mutation_p.P967S|TNPO2_uc002muq.2_Missense_Mutation_p.P875S|TNPO2_uc002mur.2_Missense_Mutation_p.P875S	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	885					intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						TTGAGCAGCGGCGGGAATTGC	0.577													19	12					0	0	0.00333	0	0		A	12812201	A	A	12812201	3	1	4	1	0	0	0	0	1	0	0	0	16361	1203	42	2	44	2	TNPO2	19	12812201	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	36007	12812201	46316782	3877	5843											
TNPO2	30000	broad.mit.edu	37	chr19	12826457	12826457	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttgcctacctcacaagtgTtgtaatcctccgagttaagc	9	13	7	12	1	2	0	1	0	1	0	4	1	4	0	4	0	3	3	4	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:12826457T>G	uc002muo.2	-	5	607	c.422A>C	c.(421-423)AAC>ACC	p.N141T	TNPO2_uc002mup.2_Missense_Mutation_p.N233T|TNPO2_uc002muq.2_Missense_Mutation_p.N141T|TNPO2_uc002mur.2_Missense_Mutation_p.N141T	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	141	HEAT 1.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						CTCACAAGTGTTGTAATCCTC	0.597													7	7					0	0	0.001984	0	0		G	12826457	G	G	12826457	3	3	4	1	0	0	0	0	1	0	0	0	16361	1725	60	5	2351	5	TNPO2	19	12826457	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	14256	12826457	46302526	3878	5844											
RNASEH2A	10535	broad.mit.edu	37	chr19	12924174	12924174	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccgagaatcaggagggacTcaggaagatcacatcctact	14	7	10	10	1	3	2	3	0	0	2	5	6	5	5	2	3	1	0	2	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:12924174T>C	uc002mvg.1	+	8	854	c.794T>C	c.(793-795)CTC>CCC	p.L265P	RNASEH2A_uc002mvf.1_Missense_Mutation_p.L183P	NM_006397	NP_006388	O75792	RNH2A_HUMAN	ribonuclease H2, large subunit	265					DNA replication|RNA catabolic process	nucleus|ribonuclease H2 complex	metal ion binding|ribonuclease H activity|RNA binding			breast(2)|central_nervous_system(1)	3						CAGGAGGGACTCAGGAAGATC	0.577													11	35					0	0	0.00245	0	0		C	12924174	C	C	12924174	3	2	4	1	0	0	0	0	1	0	0	0	13437	1551	54	3	824	3	RNASEH2A	19	12924174	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	97717	12924174	46204809	3879	5845											
LPHN1	22859	broad.mit.edu	37	chr19	14266322	14266322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaggaacagcagcgcgatgGcccccagcgcccaggatctg	9	3	14	15	3	1	0	0	0	1	0	1	3	1	2	3	3	4	2	3	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:14266322G>A	uc010xnn.1	-	19	3454	c.3158C>T	c.(3157-3159)GCC>GTC	p.A1053V	LPHN1_uc010xno.1_Missense_Mutation_p.A1048V|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	1053	Helical; Name=6; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						CAGCGCGATGGCCCCCAGCGC	0.652													9	28					0	0	0.008291	0	0		A	14266322	A	A	14266322	3	1	4	1	0	0	0	0	1	0	0	0	8933	1203	42	2	1290	2	LPHN1	19	14266322	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1342148	14266322	44862661	3880	5846											
PKN1	5585	broad.mit.edu	37	chr19	14554393	14554393	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaaggtgaagcagggggCggagaacatgatccagacct	12	5	16	8	1	0	5	0	3	0	2	1	6	1	5	2	4	2	2	2	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:14554393C>T	uc002myp.2	+	3	602	c.434C>T	c.(433-435)GCG>GTG	p.A145V	PKN1_uc002myq.2_Missense_Mutation_p.A151V	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	145	REM 2.				activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						AAGCAGGGGGCGGAGAACATG	0.622													7	19					0	0	0.00308	0	0		T	14554393	T	T	14554393	3	4	4	1	0	0	0	0	1	0	0	0	11998	768	27	1	487	1	PKN1	19	14554393	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	288071	14554393	44574590	3881	5847											
ZNF333	84449	broad.mit.edu	37	chr19	14815942	14815942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accattgactcgagaggaccGgccagctctccaggagccgc	9	5	12	15	3	1	2	0	1	1	1	3	5	1	4	5	3	2	1	5	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:14815942G>A	uc002mzn.2	+	6	517	c.383G>A	c.(382-384)CGG>CAG	p.R128Q	ZNF333_uc010dzq.2_Missense_Mutation_p.R128Q|ZNF333_uc002mzk.3_Missense_Mutation_p.R19Q|ZNF333_uc002mzl.3_Missense_Mutation_p.R128Q|ZNF333_uc002mzm.2_Silent_p.P68P|ZNF333_uc010dzr.1_RNA	NM_032433	NP_115809	Q96JL9	ZN333_HUMAN	zinc finger protein 333	128					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CGAGAGGACCGGCCAGCTCTC	0.617													5	22					0	0	0.00308	0	0		A	14815942	A	A	14815942	3	1	4	1	0	0	0	0	1	0	0	0	17875	1116	39	1	401	1	ZNF333	19	14815942	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	261549	14815942	44313041	3882	5848											
OR7C1	26664	broad.mit.edu	37	chr19	14910601	14910601	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcggtcataggccatcacGgtcaagagtaaattgtccag	13	8	11	9	2	3	1	3	0	0	1	4	1	4	1	2	3	1	1	2	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:14910601G>A	uc010xnz.1	-	1	348	c.348C>T	c.(346-348)ACC>ACT	p.T116T		NM_198944	NP_945182	O76099	OR7C1_HUMAN	olfactory receptor, family 7, subfamily C,	116	Helical; Name=3; (Potential).				sensory perception of smell|spermatogenesis	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						AGGCCATCACGGTCAAGAGTA	0.478													10	44					0	0	0.000978	0	0		A	14910601	A	A	14910601	2	1	4	1	0	0	0	0	0	0	0	1	11236	1103	39	1		1	OR7C1	19	14910601	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	94659	14910601	44218382	3883	5849											
OR7C2	26658	broad.mit.edu	37	chr19	15052847	15052847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actttttttgtgatccttccGaagtcctgaagctggcctgt	6	16	9	10	1	0	2	0	2	0	0	3	3	3	2	4	1	1	1	4	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:15052847G>A	uc010xoc.1	+	1	547	c.547G>A	c.(547-549)GAA>AAA	p.E183K		NM_012377	NP_036509	O60412	OR7C2_HUMAN	olfactory receptor, family 7, subfamily C,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Ovarian(108;0.203)					TGATCCTTCCGAAGTCCTGAA	0.443													5	117					0	0	0.001168	0	0		A	15052847	A	A	15052847	3	1	4	1	0	0	0	0	1	0	0	0	11237	1059	37	1	549	1	OR7C2	19	15052847	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	142246	15052847	44076136	3884	5850											
AKAP8	10270	broad.mit.edu	37	chr19	15472567	15472567	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggatctggttttggttttgCggtttctttctccatcaatt	5	20	9	7	1	4	0	1	0	3	0	5	1	4	1	1	4	1	3	1	4	1	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:15472567C>T	uc002nav.2	-	11	1430	c.1369G>A	c.(1369-1371)GCA>ACA	p.A457T	AKAP8_uc010dzy.2_Missense_Mutation_p.A6T|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Missense_Mutation_p.A271T	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	457					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						TTTGGTTTTGCGGTTTCTTTC	0.438													8	80					0	0	0.008291	0	0		T	15472567	T	T	15472567	3	4	4	1	0	0	0	0	1	0	0	0	457	768	27	1	725	1	AKAP8	19	15472567	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	419720	15472567	43656416	3885	5851											
AKAP8L	26993	broad.mit.edu	37	chr19	15511828	15511828	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggctcatcaggactgccGccctgctttctcttcttctt	3	16	7	15	1	6	0	2	0	4	0	7	1	6	1	2	2	2	2	2	2	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:15511828G>A	uc002naw.1	-	6	942	c.843C>T	c.(841-843)GGC>GGT	p.G281G	AKAP8L_uc002nax.1_RNA|AKAP8L_uc010xoh.1_Silent_p.G220G|AKAP8L_uc002nay.1_Silent_p.G281G|AKAP8L_uc002naz.2_Silent_p.G129G	NM_014371	NP_055186	Q9ULX6	AKP8L_HUMAN	A kinase (PRKA) anchor protein 8-like	281						cytoplasm|nuclear matrix	DEAD/H-box RNA helicase binding|DNA binding|zinc ion binding			ovary(1)	1						CAGGACTGCCGCCCTGCTTTC	0.607													7	23					0	0	0.00308	0	0		A	15511828	A	A	15511828	2	1	4	1	0	0	0	0	0	0	0	1	458	1074	38	1		1	AKAP8L	19	15511828	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	39261	15511828	43617155	3886	5852											
CYP4F12	66002	broad.mit.edu	37	chr19	15807839	15807839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagctggaattgatcatgCgcgccgagggcgggctttgg	7	8	18	8	4	1	1	1	1	0	0	1	4	1	3	1	5	2	2	1	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:15807839C>T	uc002nbl.2	+	13	1580	c.1519C>T	c.(1519-1521)CGC>TGC	p.R507C		NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					ATTGATCATGCGCGCCGAGGG	0.567													4	23					0	0	0.000602	0	0		T	15807839	T	T	15807839	3	4	4	1	0	0	0	0	1	0	0	0	4190	768	27	1	1565	1	CYP4F12	19	15807839	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	296011	15807839	43321144	3887	5853											
TMEM38A	79041	broad.mit.edu	37	chr19	16790841	16790841	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccatcgcgtcctggctgtgCgccatgctgcattgcttcgg	3	11	12	15	4	0	0	0	0	0	0	3	0	1	0	3	2	4	4	3	2	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:16790841C>T	uc002nes.2	+	2	262	c.171C>T	c.(169-171)TGC>TGT	p.C57C		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	57	Helical; (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3						CCTGGCTGTGCGCCATGCTGC	0.612													8	15					0	0	0.008291	0	0		T	16790841	T	T	16790841	2	4	4	1	0	0	0	0	0	0	0	1	16184	776	27	1		1	TMEM38A	19	16790841	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	983002	16790841	42338142	3888	5854											
NWD1	284434	broad.mit.edu	37	chr19	16918398	16918398	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttttcttccctggcaggCgaggaacaagattccctgga	9	11	10	11	1	1	1	0	0	1	1	3	4	3	3	2	4	1	1	2	4	2	4	rs113245603		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:16918398C>T	uc002neu.3	+	18	4160	c.3738C>T	c.(3736-3738)GGC>GGT	p.G1246G	NWD1_uc002net.3_Silent_p.G1111G|NWD1_uc002nev.3_Silent_p.G1040G			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1246	WD 10.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						CCCTGGCAGGCGAGGAACAAG	0.478													30	98					0	0	0.006999	0	0		T	16918398	T	T	16918398	2	4	4	1	0	0	0	0	0	0	0	1	10800	782	27	1		1	NWD1	19	16918398	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	127557	16918398	42210585	3889	5855											
MYO9B	4650	broad.mit.edu	37	chr19	17295741	17295741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcacgaccgcaccaccaagtCcctactgcacctgcacaaga	12	4	7	18	2	0	1	0	0	0	1	1	2	1	1	5	0	3	4	5	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17295741C>T	uc010eak.2	+	17	2593	c.2441C>T	c.(2440-2442)TCC>TTC	p.S814F	MYO9B_uc002nfi.2_Missense_Mutation_p.S814F|MYO9B_uc002nfj.1_Missense_Mutation_p.S814F	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	814	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						ACCACCAAGTCCCTACTGCAC	0.582													23	76					0	0	0.003954	0	0		T	17295741	T	T	17295741	3	4	4	1	0	0	0	0	1	0	0	0	10103	855	30	4	2503	4	MYO9B	19	17295741	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	377343	17295741	41833242	3890	5856											
ANO8	57719	broad.mit.edu	37	chr19	17444229	17444229	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccagggacaggggactcGcctctcatacgtggcggtga	8	6	16	11	3	1	1	1	1	1	0	3	3	1	3	2	6	1	0	2	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17444229G>A	uc002ngf.2	-	3	509	c.350_splice	c.e3+1	p.S117_splice	ANO8_uc010eap.2_Splice_Site|GTPBP3_uc010xpo.1_5'Flank	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8							chloride channel complex	chloride channel activity			ovary(3)	3						CAGGGGACTCGCCTCTCATAC	0.642													13	28					0	0	0.003163	0	0		A	17444229	A	A	17444229	5	1	4	1	0	0	0	0	0	0	1	0	703	1101	38	1	3410	1	ANO8	19	17444229	Splice_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	148488	17444229	41684754	3891	5857											
ANO8	57719	broad.mit.edu	37	chr19	17444267	17444267	+	Missense_Mutation	SNP	C	T	T																															tgacaaagaaggcgtaggcaCgcgtgtggcggtggtggcgg																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17444267C>T	uc002ngf.2	-	3	473	c.314G>A	c.(313-315)CGT>CAT	p.R105H	ANO8_uc010eap.2_RNA|GTPBP3_uc010xpo.1_5'Flank	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	105	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						GGCGTAGGCACGCGTGTGGCG	0.647													8	33					0	0	0.008291	0	0		T	17444267	T	T	17444267	3	4	4	1	0	0	0	0	1	0	0	0	703	536	19	1	3448	1	ANO8	19	17444267	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	38	17444267	41684716	3892	5858	10	2									
ANO8	57719	broad.mit.edu	37	chr19	17444269	17444269	+	Silent	SNP	C	T	T																															acaaagaaggcgtaggcacgCgtgtggcggtggtggcggac																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17444269C>T	uc002ngf.2	-	3	471	c.312G>A	c.(310-312)ACG>ACA	p.T104T	ANO8_uc010eap.2_RNA|GTPBP3_uc010xpo.1_5'Flank	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	104	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						CGTAGGCACGCGTGTGGCGGT	0.642													8	33					0	0	0.008291	0	0		T	17444269	T	T	17444269	2	4	4	1	0	0	0	0	0	0	0	1	703	755	27	1		1	ANO8	19	17444269	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2	17444269	41684714	3893	5859	10	2									
PLVAP	83483	broad.mit.edu	37	chr19	17487766	17487766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcggaagctggcattgatgCggtccaggtcgcggcgagca	7	6	18	10	5	0	1	0	1	0	0	2	3	1	2	1	6	3	3	1	6	1	1	rs144117840		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17487766C>T	uc002ngk.1	-	1	382	c.332G>A	c.(331-333)CGC>CAC	p.R111H		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	111	Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						GGCATTGATGCGGTCCAGGTC	0.488													4	19					0	0	0.000602	0	0		T	17487766	T	T	17487766	3	4	4	1	0	0	0	0	1	0	0	0	12135	768	27	1	1020	1	PLVAP	19	17487766	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	43497	17487766	41641217	3894	5860											
SLC27A1	376497	broad.mit.edu	37	chr19	17615413	17615413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctgctcgggcgccttcGccctctgaagctgttcctct	3	12	10	16	3	3	1	0	1	3	0	6	1	4	1	3	1	2	4	3	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17615413G>A	uc002ngu.1	+	12	1983	c.1933G>A	c.(1933-1935)GCC>ACC	p.A645T	SLC27A1_uc010xpp.1_Missense_Mutation_p.A466T|SLC27A1_uc002ngv.1_Missense_Mutation_p.A247T	NM_198580	NP_940982	Q6PCB7	S27A1_HUMAN	solute carrier family 27, member 1	645	Cytoplasmic (Potential).				cardiolipin biosynthetic process|fatty acid metabolic process|long-chain fatty acid transport|negative regulation of phospholipid biosynthetic process|phosphatidic acid biosynthetic process|phosphatidylcholine biosynthetic process|phosphatidylethanolamine biosynthetic process|phosphatidylinositol biosynthetic process|phosphatidylserine biosynthetic process|transmembrane transport	endomembrane system|integral to membrane	fatty acid transporter activity|nucleotide binding				0						GGGCGCCTTCGCCCTCTGAAG	0.622													8	12					0	0	0.000978	0	0		A	17615413	A	A	17615413	3	1	4	1	0	0	0	0	1	0	0	0	14550	1087	38	1	1979	1	SLC27A1	19	17615413	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	127647	17615413	41513570	3895	5861											
GLT25D1	79709	broad.mit.edu	37	chr19	17678290	17678290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagaacaagacggtggtcGcccccatgctggattcccgg	8	7	13	13	3	0	2	0	1	0	2	2	4	1	3	3	4	2	1	3	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17678290G>A	uc002nhc.1	+	4	577	c.565G>A	c.(565-567)GCC>ACC	p.A189T	GLT25D1_uc010eax.1_5'Flank	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	189					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0						GACGGTGGTCGCCCCCATGCT	0.577													8	29					0	0	0.006214	0	0		A	17678290	A	A	17678290	3	1	4	1	0	0	0	0	1	0	0	0	6481	1087	38	1	579	1	GLT25D1	19	17678290	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	62877	17678290	41450693	3896	5862											
SLC5A5	6528	broad.mit.edu	37	chr19	17983460	17983460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatgcccgtcttctaccGcctgggcctcaccagcacct	5	10	7	19	2	4	0	2	0	2	0	4	0	4	0	6	1	3	1	6	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17983460G>A	uc002nhr.3	+	1	679	c.332G>A	c.(331-333)CGC>CAC	p.R111H		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	111	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						GTCTTCTACCGCCTGGGCCTC	0.667													3	8					0	0	0.004672	0	0		A	17983460	A	A	17983460	3	1	4	1	0	0	0	0	1	0	0	0	14693	1087	38	1	334	1	SLC5A5	19	17983460	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	305170	17983460	41145523	3897	5863											
KCNN1	3780	broad.mit.edu	37	chr19	18092607	18092607	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgctagagctggcagtgtgCgccattcacccggtgcccgg	5	8	14	14	4	1	1	1	0	0	1	2	1	1	1	3	3	3	3	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:18092607C>T	uc002nht.2	+	5	898	c.588C>T	c.(586-588)TGC>TGT	p.C196C	KCNN1_uc010xqa.1_Silent_p.C196C	NM_002248	NP_002239	Q92952	KCNN1_HUMAN	potassium intermediate/small conductance	196	Helical; Name=Segment S3; (Potential).				synaptic transmission	voltage-gated potassium channel complex	calmodulin binding|small conductance calcium-activated potassium channel activity				0						TGGCAGTGTGCGCCATTCACC	0.677													4	9					0	0	0.009096	0	0		T	18092607	T	T	18092607	2	4	4	1	0	0	0	0	0	0	0	1	8094	776	27	1		1	KCNN1	19	18092607	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	109147	18092607	41036376	3898	5864											
UPF1	5976	broad.mit.edu	37	chr19	18974986	18974986	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaaccttcgcagggagcccGcttcatgaccacagccatgt	10	8	9	14	2	1	1	1	1	0	0	2	2	1	2	4	1	3	2	4	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:18974986G>A	uc002nkg.2	+	20	3091	c.2816G>A	c.(2815-2817)CGC>CAC	p.R939H	UPF1_uc002nkf.2_Missense_Mutation_p.R928H|UPF1_uc002nkh.2_Missense_Mutation_p.R183H	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	939					cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CAGGGAGCCCGCTTCATGACC	0.597													23	61					0	0	0.00632	0	0		A	18974986	A	A	18974986	3	1	4	1	0	0	0	0	1	0	0	0	17029	1087	38	1	2861	1	UPF1	19	18974986	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	882379	18974986	40153997	3899	5865											
DDX49	54555	broad.mit.edu	37	chr19	19033426	19033426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccccagggtgagcaccgtgGagcagctggaccagcgctac	8	5	14	14	2	0	1	0	1	0	0	1	3	1	3	4	3	5	4	4	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19033426G>A	uc002nkq.1	+	6	706	c.649G>A	c.(649-651)GAG>AAG	p.E217K	HOMER3_uc002nko.1_Intron|HOMER3_uc002nkp.1_Intron|DDX49_uc002nkr.1_RNA|DDX49_uc002nks.1_Missense_Mutation_p.E110K|DDX49_uc002nkt.1_Missense_Mutation_p.E99K	NM_019070	NP_061943	Q9Y6V7	DDX49_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 49	217							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			Epithelial(12;0.0289)			GAGCACCGTGGAGCAGCTGGA	0.637													8	22					0	0	0.008291	0	0		A	19033426	A	A	19033426	3	1	4	1	0	0	0	0	1	0	0	0	4369	1175	41	4	671	4	DDX49	19	19033426	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	58440	19033426	40095557	3900	5866											
SFRS14	10147	broad.mit.edu	37	chr19	19112441	19112441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctttttggacatgggaCgaccccgaggcctgtcatag	7	11	11	12	2	2	0	1	0	1	0	2	4	2	2	4	3	0	0	4	3	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19112441C>T	uc002nkx.2	-	8	3118	c.2972G>A	c.(2971-2973)CGT>CAT	p.R991H	SFRS14_uc002nkz.1_Missense_Mutation_p.R1005H|SFRS14_uc002nla.1_Missense_Mutation_p.R991H|SFRS14_uc002nlb.2_Missense_Mutation_p.R991H|SFRS14_uc010xqk.1_Missense_Mutation_p.R760H	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	991					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			GGACATGGGACGACCCCGAGG	0.423													17	45					0	0	0.007413	0	0		T	19112441	T	T	19112441	3	4	4	1	0	0	0	0	1	0	0	0	14195	536	19	1	288	1	SFRS14	19	19112441	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	79015	19112441	40016542	3901	5867											
ARMC6	93436	broad.mit.edu	37	chr19	19153682	19153682	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgtggagcagtttgaatcGcaaggtagggtggtgtgact	8	10	17	6	2	0	2	0	2	0	0	1	3	0	3	1	4	1	4	1	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19153682G>A	uc002nld.2	+	3	540	c.192G>A	c.(190-192)TCG>TCA	p.S64S	ARMC6_uc002nlc.2_Silent_p.S39S|ARMC6_uc010xql.1_Intron|ARMC6_uc002nle.2_Silent_p.S39S|ARMC6_uc010xqm.1_Silent_p.S64S	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	64							protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)			AGTTTGAATCGCAAGGTAGGG	0.597													15	33					0	0	0.00499	0	0		A	19153682	A	A	19153682	2	1	4	1	0	0	0	0	0	0	0	1	956	1074	38	1		1	ARMC6	19	19153682	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	41241	19153682	39975301	3902	5868											
NCAN	1463	broad.mit.edu	37	chr19	19337827	19337827	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acagagatgttgggcagtggCcagagccggagcccctgggc	8	5	17	11	1	0	2	0	0	0	2	0	4	0	3	4	4	2	2	4	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19337827C>T	uc002nlz.2	+	7	1704	c.1605C>T	c.(1603-1605)GGC>GGT	p.G535G	NCAN_uc010ecc.1_Silent_p.G99G	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	535					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			TGGGCAGTGGCCAGAGCCGGA	0.647													8	16					0	0	0.008291	0	0		T	19337827	T	T	19337827	2	4	4	1	0	0	0	0	0	0	0	1	10223	726	26	2		2	NCAN	19	19337827	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	184145	19337827	39791156	3903	5869											
HAPLN4	404037	broad.mit.edu	37	chr19	19369400	19369400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatggcgatacccgtagttgCgcaggcccccgttggcatca	7	9	12	13	4	1	0	1	0	0	0	1	1	1	0	3	3	2	5	3	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19369400C>T	uc002nmb.2	-	4	804	c.749G>A	c.(748-750)CGC>CAC	p.R250H	HAPLN4_uc002nmc.2_Missense_Mutation_p.R250H	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	250	Link 1.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			CCCGTAGTTGCGCAGGCCCCC	0.697													5	12					0	0	0.001168	0	0		T	19369400	T	T	19369400	3	4	4	1	0	0	0	0	1	0	0	0	6973	768	27	1	467	1	HAPLN4	19	19369400	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	31573	19369400	39759583	3904	5870											
KIAA0892	23383	broad.mit.edu	37	chr19	19452166	19452166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatccagaaggagtcgctgCgtgtcttcttcctggtgctc	5	12	11	13	2	2	1	0	0	2	1	6	2	4	2	3	2	2	2	3	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19452166C>T	uc002nmk.3	+	7	724	c.685C>T	c.(685-687)CGT>TGT	p.R229C	KIAA0892_uc002nml.3_5'Flank	NM_015329	NP_056144	Q9Y6X3	SCC4_HUMAN	hypothetical protein LOC23383 precursor	229					cell division|maintenance of mitotic sister chromatid cohesion	chromatin|nucleoplasm|SMC loading complex	protein N-terminus binding				0						GGAGTCGCTGCGTGTCTTCTT	0.632													5	16					0	0	0.001168	0	0		T	19452166	T	T	19452166	3	4	4	1	0	0	0	0	1	0	0	0	8212	768	27	1	711	1	KIAA0892	19	19452166	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	82766	19452166	39676817	3905	5871											
ATP13A1	57130	broad.mit.edu	37	chr19	19770544	19770544	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcttcttctccagggcatcGtaggaatacttgatcttctg	7	15	9	10	1	4	1	0	1	4	0	6	2	4	2	1	2	2	3	1	2	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19770544G>A	uc002nnh.3	-	3	571	c.543C>T	c.(541-543)TAC>TAT	p.Y181Y	ATP13A1_uc002nng.2_Silent_p.Y63Y	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	181	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						CCAGGGCATCGTAGGAATACT	0.542													10	35					0	0	0.000978	0	0		A	19770544	A	A	19770544	2	1	4	1	0	0	0	0	0	0	0	1	1124	1140	40	1		1	ATP13A1	19	19770544	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	318378	19770544	39358439	3906	5872											
ZNF253	56242	broad.mit.edu	37	chr19	19989293	19989293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtgtgtgttttccagggaCcattgcaatttagagatgtg	8	15	13	5	0	0	1	0	0	0	1	1	3	1	2	2	1	1	2	2	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19989293C>T	uc002noj.2	+	2	99	c.7C>T	c.(7-9)CCA>TCA	p.P3S	ZNF253_uc002nok.2_Intron|ZNF253_uc002nol.2_Intron	NM_021047	NP_066385	O75346	ZN253_HUMAN	zinc finger protein 253	3					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTCCAGGGACCATTGCAATT	0.398													29	105					0	0	0.002836	0	0		T	19989293	T	T	19989293	3	4	4	1	0	0	0	0	1	0	0	0	17822	507	18	4	13	4	ZNF253	19	19989293	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	218749	19989293	39139690	3907	5873											
ZNF626	199777	broad.mit.edu	37	chr19	20807894	20807894	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatgacataaaggctttGccacatttatcacacttgta	13	12	8	8	0	1	1	1	1	0	0	1	3	1	2	1	2	1	2	1	2	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:20807894G>A	uc002npb.1	-	4	939	c.789C>T	c.(787-789)GGC>GGT	p.G263G	ZNF626_uc002npc.1_Silent_p.G187G	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	263	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TAAAGGCTTTGCCACATTTAT	0.398													11	102					0	0	0.001368	0	0		A	20807894	A	A	20807894	2	1	4	1	0	0	0	0	0	0	0	1	18075	1306	46	2		2	ZNF626	19	20807894	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	818601	20807894	38321089	3908	5874											
CCNE1	898	broad.mit.edu	37	chr19	30313366	30313366	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgcagggtatcagtggtgCgacatagagaactgtgtcaa	12	9	13	7	1	2	1	2	0	0	1	2	3	2	1	0	2	3	2	0	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:30313366C>T	uc002nsn.2	+	11	1149	c.966C>T	c.(964-966)TGC>TGT	p.C322C	CCNE1_uc002nso.2_Silent_p.C307C|CCNE1_uc002nsp.2_Silent_p.C69C	NM_001238	NP_001229	P24864	CCNE1_HUMAN	cyclin E1 isoform 1	322					androgen receptor signaling pathway|cell division|positive regulation of transcription, DNA-dependent|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm	androgen receptor binding|protein kinase binding|transcription coactivator activity			lung(2)	2	all_cancers(1;2.19e-31)|all_epithelial(1;1.49e-30)|all_lung(1;1.37e-11)|Lung NSC(1;2.35e-11)|Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|Epithelial(1;6.85e-98)|all cancers(1;1.38e-94)|OV - Ovarian serous cystadenocarcinoma(1;1.38e-90)|STAD - Stomach adenocarcinoma(5;5.8e-07)|GBM - Glioblastoma multiforme(4;0.0394)|Lung(7;0.092)|LUAD - Lung adenocarcinoma(5;0.115)|BRCA - Breast invasive adenocarcinoma(6;0.183)|COAD - Colon adenocarcinoma(1;0.188)|Colorectal(1;0.202)			ATCAGTGGTGCGACATAGAGA	0.498													20	130					0	0	0.010504	0	0		T	30313366	T	T	30313366	2	4	4	1	0	0	0	0	0	0	0	1	2923	776	27	1		1	CCNE1	19	30313366	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	9505472	30313366	28815617	3909	5875											
CCNE1	898	broad.mit.edu	37	chr19	30313453	30313453	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactgaagcacttcaggggCgtcgctgatgaagatgcaca	13	7	12	9	2	1	4	1	3	0	1	2	4	1	4	0	2	3	3	0	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:30313453C>T	uc002nsn.2	+	11	1236	c.1053C>T	c.(1051-1053)GGC>GGT	p.G351G	CCNE1_uc002nso.2_Silent_p.G336G|CCNE1_uc002nsp.2_Silent_p.G98G	NM_001238	NP_001229	P24864	CCNE1_HUMAN	cyclin E1 isoform 1	351					androgen receptor signaling pathway|cell division|positive regulation of transcription, DNA-dependent|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm	androgen receptor binding|protein kinase binding|transcription coactivator activity			lung(2)	2	all_cancers(1;2.19e-31)|all_epithelial(1;1.49e-30)|all_lung(1;1.37e-11)|Lung NSC(1;2.35e-11)|Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|Epithelial(1;6.85e-98)|all cancers(1;1.38e-94)|OV - Ovarian serous cystadenocarcinoma(1;1.38e-90)|STAD - Stomach adenocarcinoma(5;5.8e-07)|GBM - Glioblastoma multiforme(4;0.0394)|Lung(7;0.092)|LUAD - Lung adenocarcinoma(5;0.115)|BRCA - Breast invasive adenocarcinoma(6;0.183)|COAD - Colon adenocarcinoma(1;0.188)|Colorectal(1;0.202)			ACTTCAGGGGCGTCGCTGATG	0.493													58	165					0	0	0.00361	0	0		T	30313453	T	T	30313453	2	4	4	1	0	0	0	0	0	0	0	1	2923	755	27	1		1	CCNE1	19	30313453	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	87	30313453	28815530	3910	5876											
ZNF536	9745	broad.mit.edu	37	chr19	30935717	30935717	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtgcctgtgcccatgggCggcatgtcccaggaggccca	6	6	16	13	1	0	0	0	0	0	0	1	2	1	1	4	5	2	1	4	5	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:30935717C>T	uc002nsu.1	+	2	1386	c.1248C>T	c.(1246-1248)GGC>GGT	p.G416G	ZNF536_uc010edd.1_Silent_p.G416G	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	416					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TGCCCATGGGCGGCATGTCCC	0.627													10	24					0	0	0.008291	0	0		T	30935717	T	T	30935717	2	4	4	1	0	0	0	0	0	0	0	1	17999	755	27	1		1	ZNF536	19	30935717	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	622264	30935717	28193266	3911	5877											
ANKRD27	84079	broad.mit.edu	37	chr19	33096798	33096798	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaggcgtaaatgaggggCgtgtttccactgaggtcctt	8	10	15	8	2	0	2	0	2	0	0	2	3	2	2	2	4	1	3	2	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:33096798C>T	uc002ntn.1	-	24	2592	c.2436G>A	c.(2434-2436)ACG>ACA	p.T812T		NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	812	ANK 10.				early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					AAATGAGGGGCGTGTTTCCAC	0.522													6	48					0	0	0.00308	0	0		T	33096798	T	T	33096798	2	4	4	1	0	0	0	0	0	0	0	1	655	755	27	1		1	ANKRD27	19	33096798	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2161081	33096798	26032185	3912	5878											
SLC7A9	11136	broad.mit.edu	37	chr19	33355554	33355554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagcgtcgcgaggaccccGcaagccgcccatatgatgag	9	4	12	16	5	0	2	0	2	0	0	1	4	0	3	5	1	2	1	5	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:33355554G>A	uc002ntv.3	-	3	333	c.216C>T	c.(214-216)TGC>TGT	p.C72C	SLC7A9_uc002ntt.3_Intron|SLC7A9_uc002ntu.3_Silent_p.C72C|SLC7A9_uc002ntw.3_Intron	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	72	Helical; (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	CGAGGACCCCGCAAGCCGCCC	0.632													8	31					0	0	0.000978	0	0		A	33355554	A	A	33355554	2	1	4	1	0	0	0	0	0	0	0	1	14730	1079	38	1		1	SLC7A9	19	33355554	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	258756	33355554	25773429	3913	5879											
GPATCH1	55094	broad.mit.edu	37	chr19	33602674	33602674	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcatgacagagtgggagCgaggccgtgagcgggatgag	10	4	19	8	3	0	4	0	3	0	1	0	7	0	6	2	3	3	1	2	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:33602674C>T	uc002nug.1	+	12	1944	c.1630C>T	c.(1630-1632)CGA>TGA	p.R544*	GPATCH1_uc002nuh.1_5'Flank	NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	544						catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					AGAGTGGGAGCGAGGCCGTGA	0.587													19	48					0	0	0.010504	0	0		T	33602674	T	T	33602674	4	4	4	1	0	0	0	0	0	1	0	0	6605	760	27	1	1676	1	GPATCH1	19	33602674	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	247120	33602674	25526309	3914	5880											
PEPD	5184	broad.mit.edu	37	chr19	34002042	34002042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctcagtgacaccgaacGcccagtgaaagaaggactcc	12	5	11	13	2	1	3	1	2	0	1	2	5	2	4	3	2	1	1	3	2	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:34002042G>A	uc002nur.3	-	3	356	c.221C>T	c.(220-222)GCG>GTG	p.A74V	PEPD_uc010xrr.1_Missense_Mutation_p.A74V|PEPD_uc010xrs.1_Intron	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	74					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)					GACACCGAACGCCCAGTGAAA	0.572													7	25					0	0	0.00308	0	0		A	34002042	A	A	34002042	3	1	4	1	0	0	0	0	1	0	0	0	11747	1087	38	1	1312	1	PEPD	19	34002042	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	399368	34002042	25126941	3915	5881											
CHST8	64377	broad.mit.edu	37	chr19	34263263	34263263	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcttcgtggaggaccgccaCcgcgtgctctactgcgaggt	6	9	13	13	5	2	0	0	0	2	0	3	3	2	2	3	3	3	1	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:34263263C>T	uc002nus.3	+	5	1075	c.570C>T	c.(568-570)CAC>CAT	p.H190H	CHST8_uc002nut.3_Silent_p.H190H|CHST8_uc002nuu.2_Silent_p.H190H	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	190	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)					AGGACCGCCACCGCGTGCTCT	0.701													5	12					0	0	0.001984	0	0		T	34263263	T	T	34263263	2	4	4	1	0	0	0	0	0	0	0	1	3413	506	18	4		4	CHST8	19	34263263	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	261221	34263263	24865720	3916	5882											
KIAA0355	9710	broad.mit.edu	37	chr19	34818453	34818453	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaactgaacataaaaatcgAcagtgctttgcaagtaagtt	17	10	8	6	1	0	2	0	1	0	1	1	3	0	2	0	0	4	4	0	0	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:34818453A>G	uc002nvd.3	+	4	1692	c.833A>G	c.(832-834)GAC>GGC	p.D278G		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	278										ovary(1)	1	Esophageal squamous(110;0.162)					ATAAAAATCGACAGTGCTTTG	0.393													5	101					0	0	0.000602	0	0		G	34818453	G	G	34818453	3	3	4	1	0	0	0	0	1	0	0	0	8186	275	10	3	843	3	KIAA0355	19	34818453	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	555190	34818453	24310530	3917	5883											
GPI	2821	broad.mit.edu	37	chr19	34856175	34856175	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taccttctagtcccgccatgGccgctctcacccgggacccc	5	8	8	20	3	2	0	1	0	2	0	4	1	3	1	7	2	1	1	7	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:34856175G>A	uc002nvg.1	+	1	107	c.4G>A	c.(4-6)GCC>ACC	p.A2T	GPI_uc002nvf.2_Missense_Mutation_p.A41T|GPI_uc010xrv.1_Missense_Mutation_p.A41T|GPI_uc010xrw.1_Missense_Mutation_p.A2T|GPI_uc010edl.1_Missense_Mutation_p.A2T|GPI_uc002nvh.1_5'UTR	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	2					angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					TCCCGCCATGGCCGCTCTCAC	0.682													4	8					0	0	0.009096	0	0		A	34856175	A	A	34856175	3	1	4	1	0	0	0	0	1	0	0	0	6626	1203	42	2	127	2	GPI	19	34856175	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	37722	34856175	24272808	3918	5884											
ZNF599	148103	broad.mit.edu	37	chr19	35250659	35250659	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggataaatgtggagcggtgCgtgaaggcctttccacattc	9	11	13	8	2	0	1	0	1	0	0	2	3	1	3	2	4	2	0	2	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:35250659C>T	uc010edn.1	-	4	1435	c.1047G>A	c.(1045-1047)ACG>ACA	p.T349T	ZNF599_uc010edm.1_Silent_p.T312T	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	349	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			TGGAGCGGTGCGTGAAGGCCT	0.423													6	55					0	0	0.001984	0	0		T	35250659	T	T	35250659	2	4	4	1	0	0	0	0	0	0	0	1	18054	755	27	1		1	ZNF599	19	35250659	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	394484	35250659	23878324	3919	5885											
ZNF30	90075	broad.mit.edu	37	chr19	35434572	35434572	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaagaaaccatatgagtgCggggaatgtgggaaagcttt	13	8	16	4	1	0	2	0	1	0	1	0	5	0	5	1	4	3	1	1	4	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:35434572C>T	uc010edp.1	+	5	1080	c.702C>T	c.(700-702)TGC>TGT	p.C234C	ZNF30_uc002nxf.2_Silent_p.C153C|ZNF30_uc010edq.1_Silent_p.C235C|ZNF30_uc010edr.1_Silent_p.C235C	NM_194325	NP_919306	P17039	ZNF30_HUMAN	zinc finger protein 30 isoform b	234	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_lung(56;8.38e-08)|Lung NSC(56;1.31e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)	GBM - Glioblastoma multiforme(1328;0.0265)		CATATGAGTGCGGGGAATGTG	0.433													6	31					0	0	0.001168	0	0		T	35434572	T	T	35434572	2	4	4	1	0	0	0	0	0	0	0	1	17855	776	27	1		1	ZNF30	19	35434572	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	183913	35434572	23694411	3920	5886											
ATP4A	495	broad.mit.edu	37	chr19	36050941	36050941	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgcgcccaatgatggtgcgGtcgcccgtgttcaccaccag	7	8	12	14	4	1	1	1	1	0	0	2	1	1	1	4	2	2	1	4	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36050941G>A	uc002oal.1	-	7	851	c.822C>T	c.(820-822)GAC>GAT	p.D274D	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	274	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	TGATGGTGCGGTCGCCCGTGT	0.647													8	25					0	0	0.00308	0	0		A	36050941	A	A	36050941	2	1	4	1	0	0	0	0	0	0	0	1	1146	1252	44	4		4	ATP4A	19	36050941	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	616369	36050941	23078042	3921	5887											
RBM42	79171	broad.mit.edu	37	chr19	36120532	36120532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgatgcaggtcccagcggCtcctgtgatccgcccaatta	8	8	11	14	3	0	1	0	1	0	0	3	2	3	1	4	2	3	2	4	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36120532C>T	uc002oan.2	+	2	315	c.239C>T	c.(238-240)GCT>GTT	p.A80V	RBM42_uc010xsx.1_Missense_Mutation_p.A80V|RBM42_uc010eef.2_Missense_Mutation_p.A80V|RBM42_uc002oao.2_Missense_Mutation_p.A80V|RBM42_uc002oap.2_Missense_Mutation_p.A80V|RBM42_uc002oaq.2_Missense_Mutation_p.A80V|RBM42_uc010eeg.2_Missense_Mutation_p.A80V	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	80						cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GTCCCAGCGGCTCCTGTGATC	0.582													14	40					0	0	0.004007	0	0		T	36120532	T	T	36120532	3	4	4	1	0	0	0	0	1	0	0	0	13161	797	28	2	245	2	RBM42	19	36120532	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	69591	36120532	23008451	3922	5888											
MLL4	9757	broad.mit.edu	37	chr19	36219029	36219029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgttcggctggttcgacGcccacgaccccaagtactgg	6	8	12	15	5	0	0	0	0	0	0	2	2	0	0	3	3	2	4	3	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36219029G>A	uc010eei.2	+	20	4528	c.4528G>A	c.(4528-4530)GCC>ACC	p.A1510T		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1510					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTGGTTCGACGCCCACGACCC	0.627													5	12					0	0	0.001168	0	0		A	36219029	A	A	36219029	3	1	4	1	0	0	0	0	1	0	0	0	9641	1087	38	1	4602	1	MLL4	19	36219029	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	98497	36219029	22909954	3923	5889											
WDR62	284403	broad.mit.edu	37	chr19	36556874	36556874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccaggaagtctctcagtgCtctggccttctcccctgatg	5	11	9	16	0	4	1	1	1	3	0	6	2	4	2	5	2	1	1	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36556874C>T	uc002odc.2	+	4	438	c.347C>T	c.(346-348)GCT>GTT	p.A116V	WDR62_uc002odd.2_Missense_Mutation_p.A116V|WDR62_uc002odb.2_Missense_Mutation_p.A116V	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	116	WD 1.				cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TCTCTCAGTGCTCTGGCCTTC	0.582													7	185					0	0	0.00308	0	0		T	36556874	T	T	36556874	3	4	4	1	0	0	0	0	1	0	0	0	17339	797	28	2	361	2	WDR62	19	36556874	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	337845	36556874	22572109	3924	5890											
WDR62	284403	broad.mit.edu	37	chr19	36583697	36583697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacacaaatgacaagaagCggagtggccaccccaggtcc	14	3	11	13	1	0	2	0	1	0	1	1	3	1	3	4	3	2	1	4	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36583697C>T	uc002odc.2	+	19	2408	c.2317C>T	c.(2317-2319)CGG>TGG	p.R773W	WDR62_uc002odd.2_Missense_Mutation_p.R773W	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	773					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TGACAAGAAGCGGAGTGGCCA	0.483													5	26					0	0	0.008291	0	0		T	36583697	T	T	36583697	3	4	4	1	0	0	0	0	1	0	0	0	17339	759	27	1	2391	1	WDR62	19	36583697	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	26823	36583697	22545286	3925	5891											
WDR62	284403	broad.mit.edu	37	chr19	36594764	36594764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccacggctctgcctttcGcccaagtctcccagctcctg	4	10	8	19	2	2	0	0	0	2	0	6	0	4	0	5	1	2	3	5	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36594764G>A	uc002odc.2	+	30	4110	c.4019G>A	c.(4018-4020)CGC>CAC	p.R1340H	WDR62_uc002odd.2_Missense_Mutation_p.R1345H	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	1340					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TCTGCCTTTCGCCCAAGTCTC	0.687													6	23					0	0	0.00308	0	0		A	36594764	A	A	36594764	3	1	4	1	0	0	0	0	1	0	0	0	17339	1087	38	1	4152	1	WDR62	19	36594764	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	11067	36594764	22534219	3926	5892											
CAPNS1	826	broad.mit.edu	37	chr19	36634008	36634008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttggcattgacacatgtcGcagcatggtggccgtgatgg	7	12	14	8	2	0	2	0	2	0	0	1	2	0	2	1	4	1	3	1	4	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36634008G>A	uc002odj.2	+	6	591	c.434G>A	c.(433-435)CGC>CAC	p.R145H	CAPNS1_uc002odi.1_Missense_Mutation_p.R145H|CAPNS1_uc002odk.2_Missense_Mutation_p.R145H|CAPNS1_uc002odl.2_Missense_Mutation_p.R145H	NM_001749	NP_001740	P04632	CPNS1_HUMAN	calpain, small subunit 1	145	EF-hand 2.				positive regulation of cell proliferation	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GACACATGTCGCAGCATGGTG	0.522													36	108					0	0	0.005524	0	0		A	36634008	A	A	36634008	3	1	4	1	0	0	0	0	1	0	0	0	2636	1087	38	1	452	1	CAPNS1	19	36634008	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	39244	36634008	22494975	3927	5893											
ZFP82	284406	broad.mit.edu	37	chr19	36884211	36884211	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcgcactctaaaggccttcCcgcattccttacattcatag	9	12	6	14	2	2	0	1	0	1	0	5	0	4	0	3	1	1	2	3	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36884211C>A	uc002ody.1	-	5	1266	c.1031G>T	c.(1030-1032)GGG>GTG	p.G344V		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	344	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						AAAGGCCTTCCCGCATTCCTT	0.433													25	82					3.08376e-08	3.2952e-08	0.00333	1	0		A	36884211	A	A	36884211	3	1	4	1	0	0	0	0	1	0	0	0	17678	623	22	5	571	5	ZFP82	19	36884211	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	250203	36884211	22244772	3928	5894											
ZNF382	84911	broad.mit.edu	37	chr19	37118277	37118277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tacaggagaaaaatccaatgGgtgtcctcagtgtgggaaag	14	8	13	6	0	1	1	1	0	0	1	3	3	3	2	2	3	1	0	2	3	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:37118277G>A	uc002oek.2	+	5	1591	c.1478G>A	c.(1477-1479)GGG>GAG	p.G493E	ZNF382_uc010efa.2_Missense_Mutation_p.G444E|ZNF382_uc010efb.2_Missense_Mutation_p.G492E|ZNF382_uc002oel.2_Missense_Mutation_p.G492E	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	493	Required for transcriptional repression activity; probably mediates sequence- specific DNA-binding (By similarity).|C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AAATCCAATGGGTGTCCTCAG	0.443													20	76					0	0	0.010504	0	0		A	37118277	A	A	37118277	3	1	4	1	0	0	0	0	1	0	0	0	17898	1232	43	4	1488	4	ZNF382	19	37118277	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	234066	37118277	22010706	3929	5895											
ZNF790	388536	broad.mit.edu	37	chr19	37316578	37316578	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttcttggtgaggcagcGtgctgggaaagcagagctag	8	11	15	7	1	2	2	0	1	2	1	2	3	2	3	0	3	4	4	0	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:37316578G>A	uc002oew.2	-	2	63	c.-56C>T	c.(-58--54)CACGC>CATGC		uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GTGAGGCAGCGTGCTGGGAAA	0.463													18	74					0	0	0.007413	0	0		A	37316578	A	A	37316578	1	1	4	1	0	0	0	0	0	0	0	0	18187	1160	40	1		1	ZNF790	19	37316578	Translation_Start_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	198301	37316578	21812405	3930	5896											
ZNF585A	199704	broad.mit.edu	37	chr19	37643373	37643373	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaatgagatttgaccggttGgtgaatgccttcccacattt	9	14	10	8	1	0	3	0	3	0	1	1	4	1	3	3	2	1	2	3	2	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:37643373G>A	uc002ofo.1	-	5	1659	c.1428C>T	c.(1426-1428)ACC>ACT	p.T476T	ZNF585A_uc002ofm.1_Silent_p.T421T|ZNF585A_uc002ofn.1_Silent_p.T421T	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	476	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTGACCGGTTGGTGAATGCCT	0.413													30	101					0	0	0.004878	0	0		A	37643373	A	A	37643373	2	1	4	1	0	0	0	0	0	0	0	1	18042	1335	47	4		4	ZNF585A	19	37643373	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	326795	37643373	21485610	3931	5897											
ZNF570	148268	broad.mit.edu	37	chr19	37966838	37966838	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccaagaggaatgggattGtctggattcttctcaaagac	11	11	10	9	0	3	2	1	0	3	2	5	5	4	5	1	3	0	0	1	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:37966838G>A	uc002ogk.1	+	3	618	c.89G>A	c.(88-90)TGT>TAT	p.C30Y	ZNF570_uc010efl.1_Missense_Mutation_p.C86Y|ZNF570_uc010xtr.1_5'UTR	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	30	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAATGGGATTGTCTGGATTCT	0.368													21	55					0	0	0.001882	0	0		A	37966838	A	A	37966838	3	1	4	1	0	0	0	0	1	0	0	0	18027	1377	48	4	95	4	ZNF570	19	37966838	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	323465	37966838	21162145	3932	5898											
SIPA1L3	23094	broad.mit.edu	37	chr19	38590640	38590640	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcctggaagatgctacGcccacagccaccaagcatgg	11	6	9	15	1	0	1	0	0	0	1	2	2	2	2	5	2	4	2	5	2	3	1	rs142598144		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38590640G>A	uc002ohk.2	+	5	2213	c.1704G>A	c.(1702-1704)ACG>ACA	p.T568T		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	568					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			AAGATGCTACGCCCACAGCCA	0.607													11	33					0	0	0.001855	0	0		A	38590640	A	A	38590640	2	1	4	1	0	0	0	0	0	0	0	1	14356	1074	38	1		1	SIPA1L3	19	38590640	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	623802	38590640	20538343	3933	5899											
SIPA1L3	23094	broad.mit.edu	37	chr19	38600928	38600928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttccaggagcctggcgCgctaccgttcacccccaaga	8	7	9	17	3	2	1	1	0	1	1	3	2	3	2	5	2	2	2	5	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38600928C>T	uc002ohk.2	+	8	2704	c.2195C>T	c.(2194-2196)GCG>GTG	p.A732V		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	732	Rap-GAP.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GAGCCTGGCGCGCTACCGTTC	0.547													24	55					0	0	0.003954	0	0		T	38600928	T	T	38600928	3	4	4	1	0	0	0	0	1	0	0	0	14356	768	27	1	2217	1	SIPA1L3	19	38600928	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10288	38600928	20528055	3934	5900											
YIF1B	90522	broad.mit.edu	37	chr19	38799966	38799966	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgatggggatgaagcggtcGatctggggaggcagagctca	9	7	19	6	2	2	3	1	2	1	1	3	6	2	5	0	6	2	2	0	6	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38799966G>A	uc002ohz.2	-	3	349	c.300C>T	c.(298-300)ATC>ATT	p.I100I	YIF1B_uc002ohw.2_Silent_p.I69I|YIF1B_uc002ohx.2_Silent_p.I85I|YIF1B_uc010xtx.1_Silent_p.I83I|YIF1B_uc010xty.1_Silent_p.I69I|YIF1B_uc002oia.2_Silent_p.I97I|YIF1B_uc002ohy.2_Silent_p.I97I|YIF1B_uc002oib.2_Silent_p.I97I	NM_001039672	NP_001034761	Q5BJH7	YIF1B_HUMAN	Yip1 interacting factor homolog B isoform 5	100	Cytoplasmic (Potential).					integral to membrane					0	all_cancers(60;1.07e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TGAAGCGGTCGATCTGGGGAG	0.587													9	65					0	0	0.008291	0	0		A	38799966	A	A	38799966	2	1	4	1	0	0	0	0	0	0	0	1	17502	1048	37	1		1	YIF1B	19	38799966	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	199038	38799966	20329017	3935	5901											
FAM98C	147965	broad.mit.edu	37	chr19	38895587	38895587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagccacccgcctcctgtGcctccgctctctgctggatc	4	9	8	20	2	1	0	0	0	1	0	5	1	3	1	7	1	3	2	7	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38895587G>A	uc002oin.1	+	4	408	c.389G>A	c.(388-390)TGC>TAC	p.C130Y	FAM98C_uc002oio.1_Missense_Mutation_p.C130Y|FAM98C_uc010xtz.1_Intron	NM_174905	NP_777565	Q17RN3	FA98C_HUMAN	hypothetical protein LOC147965	130										skin(1)	1	all_cancers(60;3.95e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CGCCTCCTGTGCCTCCGCTCT	0.592													10	167					0	0	0.000978	0	0		A	38895587	A	A	38895587	3	1	4	1	0	0	0	0	1	0	0	0	5672	1319	46	2	403	2	FAM98C	19	38895587	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	95621	38895587	20233396	3936	5902											
RYR1	6261	broad.mit.edu	37	chr19	38945909	38945909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctgaattgcatagaccGcctaaatgtctacaccactg	11	10	8	12	1	1	2	0	1	1	1	2	2	2	2	4	1	2	1	4	1	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38945909G>A	uc002oit.2	+	14	1605	c.1475G>A	c.(1474-1476)CGC>CAC	p.R492H	RYR1_uc002oiu.2_Missense_Mutation_p.R492H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	492	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TGCATAGACCGCCTAAATGTC	0.502													15	88					0	0	0.004007	0	0		A	38945909	A	A	38945909	3	1	4	1	0	0	0	0	1	0	0	0	13793	1087	38	1	1529	1	RYR1	19	38945909	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	50322	38945909	20183074	3937	5903											
RYR1	6261	broad.mit.edu	37	chr19	38958369	38958369	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtcaccacaggcgagatgCgcgtgggctgggcgaggccc	7	4	17	13	4	1	1	1	0	0	1	1	3	1	1	2	4	1	1	2	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38958369C>T	uc002oit.2	+	25	3428	c.3298C>T	c.(3298-3300)CGC>TGC	p.R1100C	RYR1_uc002oiu.2_Missense_Mutation_p.R1100C	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1100	6 X approximate repeats.|Cytoplasmic.|B30.2/SPRY 2.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AGGCGAGATGCGCGTGGGCTG	0.622													13	32					0	0	0.004007	0	0		T	38958369	T	T	38958369	3	4	4	1	0	0	0	0	1	0	0	0	13793	768	27	1	3396	1	RYR1	19	38958369	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	12460	38958369	20170614	3938	5904											
RYR1	6261	broad.mit.edu	37	chr19	38976521	38976521	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctcacgcctgagacccgCgccatcacgctcttccctcc	5	7	6	23	4	3	1	2	1	1	1	5	2	5	1	7	0	0	1	7	0	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38976521C>T	uc002oit.2	+	34	5356	c.5226C>T	c.(5224-5226)CGC>CGT	p.R1742R	RYR1_uc002oiu.2_Silent_p.R1742R	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1742	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CTGAGACCCGCGCCATCACGC	0.627													12	47					0	0	0.001855	0	0		T	38976521	T	T	38976521	2	4	4	1	0	0	0	0	0	0	0	1	13793	755	27	1		1	RYR1	19	38976521	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	18152	38976521	20152462	3939	5905											
RYR1	6261	broad.mit.edu	37	chr19	39052042	39052042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcgtcacgccgcatcgagcGcatctacttcgagatctcag	8	8	10	15	7	3	1	2	0	2	1	6	3	3	1	1	0	2	2	1	0	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39052042G>A	uc002oit.2	+	90	12702	c.12572G>A	c.(12571-12573)CGC>CAC	p.R4191H	RYR1_uc002oiu.2_Missense_Mutation_p.R4186H|RYR1_uc002oiv.1_Missense_Mutation_p.R1100H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4191					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CGCATCGAGCGCATCTACTTC	0.657													9	38					0	0	0.000978	0	0		A	39052042	A	A	39052042	3	1	4	1	0	0	0	0	1	0	0	0	13793	1087	38	1	12930	1	RYR1	19	39052042	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	75521	39052042	20076941	3940	5906											
MAP4K1	11184	broad.mit.edu	37	chr19	39104547	39104547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcccaatgaaagagaggCgtctggccagtgtagcccca	10	7	13	11	1	1	2	0	1	1	1	2	3	2	2	4	2	1	1	4	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39104547C>T	uc002oix.1	-	8	614	c.506G>A	c.(505-507)CGC>CAC	p.R169H	MAP4K1_uc002oiy.1_Missense_Mutation_p.R169H|MAP4K1_uc010xug.1_5'UTR	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	169	Protein kinase.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GAAAGAGAGGCGTCTGGCCAG	0.622													5	14					0	0	0.001984	0	0		T	39104547	T	T	39104547	3	4	4	1	0	0	0	0	1	0	0	0	9277	768	27	1	2157	1	MAP4K1	19	39104547	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	52505	39104547	20024436	3941	5907											
CAPN12	147968	broad.mit.edu	37	chr19	39229238	39229238	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgtgcccgtgatggaataCgcgtgtccctttaccaggcc	6	11	12	12	3	0	1	0	1	0	0	1	2	1	2	4	2	3	0	4	2	3	3	rs148191501	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39229238C>T	uc002ojd.1	-	6	1089	c.780G>A	c.(778-780)GCG>GCA	p.A260A	CAPN12_uc002ojc.1_5'Flank	NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	260	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			TGATGGAATACGCGTGTCCCT	0.627													8	43					0	0	0.000978	0	0		T	39229238	T	T	39229238	2	4	4	1	0	0	0	0	0	0	0	1	2628	523	19	1		1	CAPN12	19	39229238	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	124691	39229238	19899745	3942	5908											
NFKBIB	4793	broad.mit.edu	37	chr19	39399417	39399417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcagccgcagccaaacccGgctgcctcccaccccagcct	8	3	8	22	2	0	0	0	0	0	0	1	0	1	0	8	1	6	3	8	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39399417G>A	uc002ojw.2	+	6	1074	c.1016G>A	c.(1015-1017)CGG>CAG	p.R339Q	NFKBIB_uc002ojx.2_3'UTR|NFKBIB_uc002ojy.2_3'UTR	NM_002503	NP_002494	Q15653	IKBB_HUMAN	nuclear factor of kappa light polypeptide gene	339					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription, DNA-dependent	cytosol|nucleus	protein binding|signal transducer activity|transcription coactivator activity			lung(1)|kidney(1)	2	all_cancers(60;4.39e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			AGCCAAACCCGGCTGCCTCCC	0.547													3	17					0	0	0.00308	0	0		A	39399417	A	A	39399417	3	1	4	1	0	0	0	0	1	0	0	0	10397	1116	39	1	1086	1	NFKBIB	19	39399417	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	170179	39399417	19729566	3943	5909											
FBXO27	126433	broad.mit.edu	37	chr19	39516156	39516156	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgttcgaaagacacaaaGcggacgcccatcttgatgtt	11	9	11	10	4	1	2	0	1	1	1	2	4	1	3	1	2	1	2	1	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39516156G>A	uc002okh.2	-	6	829	c.747C>T	c.(745-747)CGC>CGT	p.R249R		NM_178820	NP_849142	Q8NI29	FBX27_HUMAN	F-box protein 27	249	FBA.				protein catabolic process	SCF ubiquitin ligase complex	glycoprotein binding			ovary(1)	1	all_cancers(60;3.79e-07)|all_lung(34;1.26e-07)|Lung NSC(34;1.46e-07)|all_epithelial(25;4.69e-07)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			AAGACACAAAGCGGACGCCCA	0.587													17	39					0	0	0.00499	0	0		A	39516156	A	A	39516156	2	1	4	1	0	0	0	0	0	0	0	1	5751	958	34	2		2	FBXO27	19	39516156	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	116739	39516156	19612827	3944	5910											
PAPL	390928	broad.mit.edu	37	chr19	39590899	39590899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacctggatcaggacaacGcccgtgttggggataggttc	10	8	13	10	2	1	0	1	0	0	0	2	3	1	3	2	5	2	2	2	5	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39590899G>A	uc002oki.2	+	5	812	c.538G>A	c.(538-540)GCC>ACC	p.A180T	PAPL_uc010egl.2_Intron	NM_001004318	NP_001004318	Q6ZNF0	PAPL_HUMAN	iron/zinc purple acid phosphatase-like protein	180						extracellular region	acid phosphatase activity|metal ion binding				0						TCAGGACAACGCCCGTGTTGG	0.577													23	48					0	0	0.00333	0	0		A	39590899	A	A	39590899	3	1	4	1	0	0	0	0	1	0	0	0	11446	1087	38	1	552	1	PAPL	19	39590899	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	74743	39590899	19538084	3945	5911											
SAMD4B	55095	broad.mit.edu	37	chr19	39871413	39871413	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accagccccagccttggaggCcagggccgacaggtaagctg	9	4	14	14	1	0	0	0	0	0	0	0	2	0	1	6	4	3	2	6	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39871413C>T	uc002olb.2	+	13	2871	c.1836C>T	c.(1834-1836)GGC>GGT	p.G612G	SAMD4B_uc002ola.2_Silent_p.G612G	NM_018028	NP_060498	Q5PRF9	SMAG2_HUMAN	sterile alpha motif domain containing 4B	612							protein binding				0	all_cancers(60;2.5e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			GCCTTGGAGGCCAGGGCCGAC	0.677													3	6					0	0	0.004672	0	0		T	39871413	T	T	39871413	2	4	4	1	0	0	0	0	0	0	0	1	13847	726	26	2		2	SAMD4B	19	39871413	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	280514	39871413	19257570	3946	5912											
SUPT5H	6829	broad.mit.edu	37	chr19	39949669	39949669	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgagaagaagaactgggCgagtattacatgaagaaata	18	6	12	5	2	0	5	0	1	0	4	0	7	0	5	0	1	3	1	0	1	8	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39949669C>T	uc002olo.3	+	7	593	c.414C>T	c.(412-414)GGC>GGT	p.G138G	SUPT5H_uc002olp.3_Silent_p.G138G|SUPT5H_uc002olq.3_Silent_p.G134G|SUPT5H_uc002oln.3_Silent_p.G138G|SUPT5H_uc002olr.3_Silent_p.G138G	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	138					cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			AAGAACTGGGCGAGTATTACA	0.567													31	89					0	0	0.003755	0	0		T	39949669	T	T	39949669	2	4	4	1	0	0	0	0	0	0	0	1	15424	755	27	1		1	SUPT5H	19	39949669	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	78256	39949669	19179314	3947	5913											
PSMC4	5704	broad.mit.edu	37	chr19	40486604	40486604	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataagatttcaggagctgatAttaactccatctgtcaggag	13	12	9	7	0	3	2	2	1	1	1	4	4	4	4	1	2	2	1	1	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:40486604A>G	uc002omq.2	+	10	1160	c.1123A>G	c.(1123-1125)ATT>GTT	p.I375V	PSMC4_uc002omr.2_Missense_Mutation_p.I344V	NM_006503	NP_006494	P43686	PRS6B_HUMAN	proteasome 26S ATPase subunit 4 isoform 1	375					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding			ovary(1)	1	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					AGGAGCTGATATTAACTCCAT	0.522													8	79					0	0	0.004482	0	0		G	40486604	G	G	40486604	3	3	4	1	0	0	0	0	1	0	0	0	12711	449	16	3	1161	3	PSMC4	19	40486604	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	536935	40486604	18642379	3948	5914											
ZNF780B	163131	broad.mit.edu	37	chr19	40541185	40541185	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactccttacattcatagggCttctcaccagtgtgaatact	10	13	6	12	0	2	1	2	1	1	0	4	1	3	1	2	1	2	1	2	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:40541185C>T	uc002omu.2	-	5	1646	c.1581G>A	c.(1579-1581)AAG>AAA	p.K527K	ZNF780B_uc002omv.2_Silent_p.K379K	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	527					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					ATTCATAGGGCTTCTCACCAG	0.423													10	92					0	0	0.008291	0	0		T	40541185	T	T	40541185	2	4	4	1	0	0	0	0	0	0	0	1	18178	796	28	2		2	ZNF780B	19	40541185	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	54581	40541185	18587798	3949	5915											
AKT2	208	broad.mit.edu	37	chr19	40747910	40747910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggccagtggccttctcccGcaccaggatgactttgccaa	7	8	11	15	2	1	1	0	1	1	0	2	2	1	2	5	3	1	1	5	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:40747910G>A	uc002onf.2	-	6	770	c.508C>T	c.(508-510)CGG>TGG	p.R170W	AKT2_uc010egs.2_Missense_Mutation_p.R170W|AKT2_uc010egt.2_Missense_Mutation_p.R108W|AKT2_uc010xvj.1_Missense_Mutation_p.R108W|AKT2_uc010egu.1_Missense_Mutation_p.R108W|AKT2_uc010xvk.1_Missense_Mutation_p.R170W|AKT2_uc002one.2_Missense_Mutation_p.R66W	NM_001626	NP_001617	P31751	AKT2_HUMAN	AKT2 kinase	170	Protein kinase.				insulin receptor signaling pathway|negative regulation of plasma membrane long-chain fatty acid transport|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2			Lung(22;0.000499)			GCCTTCTCCCGCACCAGGATG	0.587			A		ovarian|pancreatic 								15	25					0	0	0.00499	0	0		A	40747910	A	A	40747910	3	1	4	1	0	0	0	0	1	0	0	0	480	1086	38	1	973	1	AKT2	19	40747910	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	206725	40747910	18381073	3950	5916											
HIPK4	147746	broad.mit.edu	37	chr19	40889788	40889788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtggtgggccttgcaggCggcgtgcaacaggtgtggct	6	8	19	8	2	0	0	0	0	0	0	0	1	0	0	1	6	3	3	1	6	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:40889788C>T	uc002onp.2	-	2	1009	c.724G>A	c.(724-726)GCC>ACC	p.A242T		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	242	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			GCCTTGCAGGCGGCGTGCAAC	0.647													4	25					0	0	0.001168	0	0		T	40889788	T	T	40889788	3	4	4	1	0	0	0	0	1	0	0	0	7135	768	27	1	1138	1	HIPK4	19	40889788	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	141878	40889788	18239195	3951	5917											
HIPK4	147746	broad.mit.edu	37	chr19	40895719	40895719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatctcgcccgtgctccGccgccagcccttggctacct	4	8	8	21	4	1	0	0	0	1	0	3	0	2	0	7	1	3	2	7	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:40895719G>A	uc002onp.2	-	1	376	c.91C>T	c.(91-93)CGG>TGG	p.R31W		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	31	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			CCCGTGCTCCGCCGCCAGCCC	0.607													11	27					0	0	0.001855	0	0		A	40895719	A	A	40895719	3	1	4	1	0	0	0	0	1	0	0	0	7135	1086	38	1	1775	1	HIPK4	19	40895719	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5931	40895719	18233264	3952	5918											
HNRNPUL1	11100	broad.mit.edu	37	chr19	41810156	41810156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaccgtcagcagctacaGccctccacaggtgagagaat	11	5	9	16	1	1	2	1	1	0	1	2	3	2	2	5	1	4	2	5	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:41810156G>A	uc002oqb.3	+	13	2541	c.2252G>A	c.(2251-2253)AGC>AAC	p.S751N	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Missense_Mutation_p.S651N|HNRNPUL1_uc002oqa.3_Missense_Mutation_p.S651N|HNRNPUL1_uc010ehm.2_Missense_Mutation_p.S751N|HNRNPUL1_uc002oqc.3_Missense_Mutation_p.S637N|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Missense_Mutation_p.S651N|HNRNPUL1_uc010ehn.2_Missense_Mutation_p.S651N|HNRNPUL1_uc010eho.2_Missense_Mutation_p.S651N|HNRNPUL1_uc010xvy.1_Missense_Mutation_p.S651N|HNRNPUL1_uc010ehp.2_Missense_Mutation_p.S607N|HNRNPUL1_uc002oqf.3_Missense_Mutation_p.S275N	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	751	Pro-rich.|Necessary for interaction with TP53.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						AGCAGCTACAGCCCTCCACAG	0.557													21	44					0	0	0.005443	0	0		A	41810156	A	A	41810156	3	1	4	1	0	0	0	0	1	0	0	0	7290	971	34	2	2302	2	HNRNPUL1	19	41810156	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	914437	41810156	17318827	3953	5919											
BCKDHA	593	broad.mit.edu	37	chr19	41884222	41884222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccccaaagccatggacaGccctagtcttcgtgagcttc	8	11	8	14	1	1	1	0	1	1	0	4	2	2	2	4	1	3	1	4	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:41884222G>A	uc002oqm.3	+	2	359	c.8G>A	c.(7-9)AGC>AAC	p.S3N	CYP2F1_uc010xvw.1_Intron|TMEM91_uc002oqi.2_Missense_Mutation_p.S3N|TMEM91_uc010ehq.2_Missense_Mutation_p.S3N|TMEM91_uc002oql.2_Missense_Mutation_p.S3N|TMEM91_uc010ehr.2_Missense_Mutation_p.S3N|TMEM91_uc010ehs.2_Missense_Mutation_p.S3N|TMEM91_uc010eht.2_Missense_Mutation_p.S3N|TMEM91_uc002oqk.3_Missense_Mutation_p.S3N|TMEM91_uc002oqn.2_Missense_Mutation_p.S3N	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	Error:Variant_position_missing_in_P12694_after_alignment					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						GCCATGGACAGCCCTAGTCTT	0.552													11	74					0	0	0.000978	0	0		A	41884222	A	A	41884222	3	1	4	1	0	0	0	0	1	0	0	0	1360	971	34	2		2	BCKDHA	19	41884222	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	74066	41884222	17244761	3954	5920											
BCKDHA	593	broad.mit.edu	37	chr19	41916541	41916541	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctctgctctcttccccaGcacccccccaggcagcagca	6	7	6	22	0	2	0	0	0	2	0	5	0	4	0	6	1	4	5	6	1	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:41916541G>A	uc002oqq.2	+	2	138	c.109_splice	c.e2-1	p.H37_splice	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Splice_Site_p.H71_splice|BCKDHA_uc002oqp.1_Splice_Site|BCKDHA_uc002oqr.2_Splice_Site_p.H37_splice|BCKDHA_uc010xvz.1_Intron	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha						branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						CTCTTCCCCAGCACCCCCCCA	0.557													13	21					0	0	0.001855	0	0		A	41916541	A	A	41916541	5	1	4	1	0	0	0	0	0	0	1	0	1360	985	34	2	114	2	BCKDHA	19	41916541	Splice_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	32319	41916541	17212442	3955	5921											
CD79A	973	broad.mit.edu	37	chr19	42383170	42383170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcagcaacaacgccaacGtcacctggtggcgcgtcctc	10	6	10	15	4	1	0	1	0	0	0	3	0	2	0	3	2	5	2	3	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42383170G>A	uc002orv.2	+	2	375	c.190G>A	c.(190-192)GTC>ATC	p.V64I	CD79A_uc002oru.2_Missense_Mutation_p.V64I	NM_001783	NP_001774	P11912	CD79A_HUMAN	CD79A antigen isoform 1 precursor	64	Ig-like C2-type.|Extracellular (Potential).				B cell differentiation|B cell proliferation|B cell receptor signaling pathway	B cell receptor complex|external side of plasma membrane|integral to membrane|membrane raft|multivesicular body	transmembrane receptor activity			ovary(2)|pancreas(1)	3						CAACGCCAACGTCACCTGGTG	0.602			O|S		DLBCL								4	36					0	0	0.001168	0	0		A	42383170	A	A	42383170	3	1	4	1	0	0	0	0	1	0	0	0	3039	1145	40	1	196	1	CD79A	19	42383170	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	466629	42383170	16745813	3956	5922											
ARHGEF1	9138	broad.mit.edu	37	chr19	42409386	42409386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccctgcccctgcctctcGccctaagccccggcccagcc	4	6	8	23	2	1	0	0	0	1	0	3	0	2	0	9	1	4	0	9	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42409386G>A	uc002orx.2	+	24	2418	c.2309G>A	c.(2308-2310)CGC>CAC	p.R770H	ARHGEF1_uc002ory.2_Missense_Mutation_p.R737H|ARHGEF1_uc002orz.2_Missense_Mutation_p.R608H|ARHGEF1_uc002osa.2_Missense_Mutation_p.R785H|ARHGEF1_uc002osb.2_Missense_Mutation_p.R752H|ARHGEF1_uc002osc.2_Missense_Mutation_p.R524H|ARHGEF1_uc002osd.2_Missense_Mutation_p.R429H|ARHGEF1_uc002ose.2_Missense_Mutation_p.R214H	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	770					cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		CCTGCCTCTCGCCCTAAGCCC	0.667													11	20					0	0	0.007413	0	0		A	42409386	A	A	42409386	3	1	4	1	0	0	0	0	1	0	0	0	893	1087	38	1	2448	1	ARHGEF1	19	42409386	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	26216	42409386	16719597	3957	5923											
ZNF574	64763	broad.mit.edu	37	chr19	42584239	42584239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcatcggctggagcggcGccataaatgcagcatttgtg	8	10	14	9	3	0	0	0	0	0	0	1	1	0	1	1	3	4	4	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42584239G>A	uc002osm.3	+	2	1650	c.1481G>A	c.(1480-1482)CGC>CAC	p.R494H	ZNF574_uc002osk.3_Missense_Mutation_p.R584H	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	494					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				CTGGAGCGGCGCCATAAATGC	0.602													17	51					0	0	0.006122	0	0		A	42584239	A	A	42584239	3	1	4	1	0	0	0	0	1	0	0	0	18031	1087	38	1	1483	1	ZNF574	19	42584239	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	174853	42584239	16544744	3958	5924											
DEDD2	162989	broad.mit.edu	37	chr19	42703764	42703764	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagggcctgcagcagggcGccactcaggtagtcgcccca	7	4	14	16	3	1	0	1	0	0	0	2	0	1	0	4	3	2	4	4	3	1	1	rs17852469	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42703764G>A	uc002osu.1	-	5	875	c.807C>T	c.(805-807)GGC>GGT	p.G269G	DEDD2_uc002osv.1_RNA|DEDD2_uc002osw.1_Silent_p.G264G|DEDD2_uc002osx.1_3'UTR|DEDD2_uc002osy.1_Silent_p.G269G	NM_133328	NP_579874	Q8WXF8	DEDD2_HUMAN	death effector domain-containing  DNA binding	269					activation of pro-apoptotic gene products|apoptotic nuclear change|cellular homeostasis|induction of apoptosis via death domain receptors|intracellular signal transduction|negative regulation of transcription, DNA-dependent|RNA processing|rRNA catabolic process|transcription, DNA-dependent	nucleolus	DNA binding|receptor signaling complex scaffold activity				0		Prostate(69;0.0704)				GCAGCAGGGCGCCACTCAGGT	0.647													7	18					0	0	0.001984	0	0		A	42703764	A	A	42703764	2	1	4	1	0	0	0	0	0	0	0	1	4388	1074	38	1		1	DEDD2	19	42703764	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	119525	42703764	16425219	3959	5925											
ZNF526	116115	broad.mit.edu	37	chr19	42729380	42729380	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggctgggctcagggctgCggggactgtccccagcacca	5	6	16	14	1	1	0	1	0	0	0	2	1	2	1	3	5	2	5	3	5	0	0	rs138082392	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42729380C>T	uc002osz.1	+	3	981	c.825C>T	c.(823-825)TGC>TGT	p.C275C		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	275					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				CTCAGGGCTGCGGGGACTGTC	0.582													7	5					0	0	0.00308	0	0		T	42729380	T	T	42729380	2	4	4	1	0	0	0	0	0	0	0	1	17992	776	27	1		1	ZNF526	19	42729380	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	25616	42729380	16399603	3960	5926											
GSK3A	2931	broad.mit.edu	37	chr19	42737272	42737272	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgccccacctttgtccagGggtgagctttaatctgaggg	6	11	12	12	0	1	2	0	2	1	0	2	2	2	2	5	3	2	1	5	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42737272G>T	uc002otb.1	-	8	1207	c.1088C>A	c.(1087-1089)CCC>CAC	p.P363H	GSK3A_uc002ota.1_Missense_Mutation_p.P281H|GSK3A_uc002otc.2_RNA	NM_019884	NP_063937	P49840	GSK3A_HUMAN	glycogen synthase kinase 3 alpha	363	Protein kinase.				insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of insulin receptor signaling pathway|negative regulation of transferase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein catabolic process	beta-catenin destruction complex|cytosol	ATP binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|tau-protein kinase activity			ovary(2)|lung(2)	4		Prostate(69;0.00682)				CTTTGTCCAGGGGTGAGCTTT	0.557													5	115					3.59834e-05	3.78692e-05	0.001168	1	0		T	42737272	T	T	42737272	3	4	4	1	0	0	0	0	1	0	0	0	6839	1232	43	5	379	5	GSK3A	19	42737272	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	7892	42737272	16391711	3961	5927											
ERF	2077	broad.mit.edu	37	chr19	42753169	42753169	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaagaagaagaggatgaCgaggccgaggaggggaccgg	15	1	20	5	3	0	5	0	1	0	4	0	11	0	8	2	6	0	0	2	6	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42753169C>T	uc002ote.3	-	4	1253	c.1095G>A	c.(1093-1095)TCG>TCA	p.S365S	ERF_uc002otd.3_Silent_p.S96S	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	365	Poly-Ser.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				AAGAGGATGACGAGGCCGAGG	0.687													9	29					0	0	0.004482	0	0		T	42753169	T	T	42753169	2	4	4	1	0	0	0	0	0	0	0	1	5229	523	19	1		1	ERF	19	42753169	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	15897	42753169	16375814	3962	5928											
CIC	23152	broad.mit.edu	37	chr19	42797777	42797777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctcatcttcagactggCgcgtccctgggcagggcctg	5	8	13	15	2	3	1	2	0	1	1	4	1	4	1	3	3	1	2	3	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42797777C>T	uc002otf.1	+	16	3869	c.3829C>T	c.(3829-3831)CGC>TGC	p.R1277C		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1277	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				TTCAGACTGGCGCGTCCCTGG	0.652			T	DUX4	soft tissue sarcoma								6	15					0	0	0.001984	0	0		T	42797777	T	T	42797777	3	4	4	1	0	0	0	0	1	0	0	0	3427	768	27	1	3891	1	CIC	19	42797777	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	44608	42797777	16331206	3963	5929											
PRR19	284338	broad.mit.edu	37	chr19	42814738	42814738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctggggggttggcctccCtcagcccctgcctcagcctt	2	9	12	18	0	2	0	2	0	0	0	3	0	3	0	7	4	3	1	7	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42814738C>T	uc002oti.2	+	3	1295	c.917C>T	c.(916-918)CCT>CTT	p.P306L	PRR19_uc002oth.1_3'UTR|PRR19_uc002otj.2_Missense_Mutation_p.P306L|TMEM145_uc002otk.1_5'Flank	NM_199285	NP_954979	A6NJB7	PRR19_HUMAN	proline rich 19	306	Pro-rich.										0		Prostate(69;0.00682)				GTTGGCCTCCCTCAGCCCCTG	0.652													18	37					0	0	0.002299	0	0		T	42814738	T	T	42814738	3	4	4	1	0	0	0	0	1	0	0	0	12613	681	24	4	923	4	PRR19	19	42814738	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	16961	42814738	16314245	3964	5930											
PSG7	5676	broad.mit.edu	37	chr19	43439709	43439709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttctcatccactgtatgcagGcccatatttaattatttgac	10	16	5	10	0	1	1	1	1	1	0	3	1	2	1	2	1	1	2	2	1	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:43439709G>A	uc002ovl.3	-	2	379	c.277C>T	c.(277-279)CCT>TCT	p.P93S	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Intron	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	93	Ig-like V-type.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				CTGTATGCAGGCCCATATTTA	0.408													11	333					0	0	0.003163	0	0		A	43439709	A	A	43439709	3	1	4	1	0	0	0	0	1	0	0	0	12682	1203	42	2	1002	2	PSG7	19	43439709	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	624971	43439709	15689274	3965	5931											
XRCC1	7515	broad.mit.edu	37	chr19	44056177	44056177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgcaagcctacatgaggtgCgtgctgtcccgggtccagtc	6	8	14	13	3	0	1	0	1	0	0	3	1	2	1	3	2	4	2	3	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:44056177C>T	uc002owt.2	-	9	1194	c.1074G>A	c.(1072-1074)ACG>ACA	p.T358T	XRCC1_uc010xwp.1_Silent_p.T327T	NM_006297	NP_006288	P18887	XRCC1_HUMAN	X-ray repair cross complementing protein 1	358	BRCT 1.				base-excision repair|single strand break repair	nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(2)|large_intestine(1)|prostate(1)|breast(1)	7		Prostate(69;0.0153)				ACATGAGGTGCGTGCTGTCCC	0.627								Other_BER_factors					6	27					0	0	0.001168	0	0		T	44056177	T	T	44056177	2	4	4	1	0	0	0	0	0	0	0	1	17478	755	27	1		1	XRCC1	19	44056177	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	616468	44056177	15072806	3966	5932											
ZNF230	7773	broad.mit.edu	37	chr19	44513032	44513032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaagctgtaccaagacGtgatgcttgagaacttcacg	13	8	12	8	2	1	4	1	2	0	3	1	6	1	5	1	1	4	3	1	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:44513032G>A	uc002oyb.1	+	3	357	c.106G>A	c.(106-108)GTG>ATG	p.V36M		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	36	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				GTACCAAGACGTGATGCTTGA	0.527													50	124					0	0	0.00361	0	0		A	44513032	A	A	44513032	3	1	4	1	0	0	0	0	1	0	0	0	17809	1145	40	1	112	1	ZNF230	19	44513032	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	456855	44513032	14615951	3967	5933											
ZNF234	10780	broad.mit.edu	37	chr19	44661004	44661004	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcccatcttcaggaacatCagagaattcatactggggag	12	10	9	10	0	4	1	3	0	1	1	5	4	5	3	1	3	2	0	1	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:44661004C>T	uc002oym.2	+	6	1142	c.835C>T	c.(835-837)CAG>TAG	p.Q279*	ZNF234_uc002oyl.3_Nonsense_Mutation_p.Q279*	NM_006630	NP_006621	Q14588	ZN234_HUMAN	zinc finger protein 234	279	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				TCAGGAACATCAGAGAATTCA	0.413													18	176					0	0	0.007413	0	0		T	44661004	T	T	44661004	4	4	4	1	0	0	0	0	0	1	0	0	17812	827	29	4	849	4	ZNF234	19	44661004	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	147972	44661004	14467979	3968	5934											
ZNF233	353355	broad.mit.edu	37	chr19	44778756	44778756	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatactggagagaaaccatAcaaatgttttgtgtgtggta	13	12	10	6	0	0	1	0	0	0	1	0	3	0	2	2	2	3	2	2	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:44778756A>G	uc002oyz.1	+	5	2070	c.1943A>G	c.(1942-1944)TAC>TGC	p.Y648C	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF233_uc002oyy.1_Missense_Mutation_p.Y463C	NM_181756	NP_861421	A6NK53	ZN233_HUMAN	zinc finger protein 233	648					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2		Prostate(69;0.0435)|all_neural(266;0.226)				GAGAAACCATACAAATGTTTT	0.418													17	83					0	0	0.006122	0	0		G	44778756	G	G	44778756	3	3	4	1	0	0	0	0	1	0	0	0	17811	391	14	3	1957	3	ZNF233	19	44778756	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	117752	44778756	14350227	3969	5935											
CBLC	23624	broad.mit.edu	37	chr19	45284250	45284250	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaaagtactgtggacacAtgtaccagctcaccaaggcc	12	6	12	11	0	1	0	1	0	0	0	1	2	1	2	3	4	3	3	3	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:45284250A>C	uc002ozs.2	+	2	505	c.442A>C	c.(442-444)ATG>CTG	p.M148L	CBLC_uc010ejt.2_Missense_Mutation_p.M148L	NM_012116	NP_036248	Q9ULV8	CBLC_HUMAN	Cas-Br-M (murine) ecotropic retroviral	148	EF-hand-like.|Cbl-PTB.				cell surface receptor linked signaling pathway|negative regulation of epidermal growth factor receptor activity|negative regulation of MAP kinase activity|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	calcium ion binding|epidermal growth factor receptor binding|phosphotyrosine binding|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|skin(1)	6	Lung NSC(12;0.00136)|all_lung(12;0.00371)	Ovarian(192;0.231)				CTGTGGACACATGTACCAGCT	0.632			M		AML								10	30					0	0	0.008291	0	0		C	45284250	C	C	45284250	3	2	4	1	0	0	0	0	1	0	0	0	2705	217	8	5	448	5	CBLC	19	45284250	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	505494	45284250	13844733	3970	5936											
BCAM	4059	broad.mit.edu	37	chr19	45316510	45316510	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgtgtctgcctcagatcGccacctgcaacagccggaac	8	6	10	17	3	2	1	1	0	1	1	3	2	2	2	5	1	5	1	5	1	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:45316510G>A	uc002ozu.2	+	5	552	c.508G>A	c.(508-510)GCC>ACC	p.A170T	BCAM_uc002ozt.1_Missense_Mutation_p.A170T	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	170	Extracellular (Potential).|Ig-like V-type 2.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				GCCTCAGATCGCCACCTGCAA	0.622													10	24					0	0	0.006214	0	0		A	45316510	A	A	45316510	3	1	4	1	0	0	0	0	1	0	0	0	1345	1087	38	1	526	1	BCAM	19	45316510	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	32260	45316510	13812473	3971	5937											
OPA3	80207	broad.mit.edu	37	chr19	46032371	46032371	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcgggtctcggaggcagagGtgggctcgcacctcctgcag	5	6	18	12	3	1	1	0	0	1	1	4	2	2	2	2	6	1	4	2	6	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:46032371G>A	uc002pcj.3	-	2	586	c.486C>T	c.(484-486)CAC>CAT	p.H162H		NM_001017989	NP_001017989	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform a	162	Potential.				response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)		GGAGGCAGAGGTGGGCTCGCA	0.701													4	12					0	0	0.001168	0	0		A	46032371	A	A	46032371	2	1	4	1	0	0	0	0	0	0	0	1	10891	1252	44	4		4	OPA3	19	46032371	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	715861	46032371	13096612	3972	5938											
STRN4	29888	broad.mit.edu	37	chr19	47225261	47225261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttcctgacatcaggaatgCgccgttggggtccacggcta	8	9	12	12	3	1	1	1	1	0	0	3	2	3	2	3	4	1	2	3	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:47225261C>T	uc002pfl.2	-	16	2107	c.2074G>A	c.(2074-2076)GCA>ACA	p.A692T	STRN4_uc002pfm.2_Missense_Mutation_p.A699T|STRN4_uc010xyf.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	692	WD 6.					cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)		ATCAGGAATGCGCCGTTGGGG	0.627													16	37					0	0	0.004007	0	0		T	47225261	T	T	47225261	3	4	4	1	0	0	0	0	1	0	0	0	15356	768	27	1	195	1	STRN4	19	47225261	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1192890	47225261	11903722	3973	5939											
C5AR1	728	broad.mit.edu	37	chr19	47823356	47823356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggccctttggcggggccGcctgcagcatcctgccctcc	3	8	12	18	2	0	0	0	0	0	0	2	0	2	0	6	4	3	2	6	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:47823356G>A	uc002pgj.1	+	2	371	c.322G>A	c.(322-324)GCC>ACC	p.A108T		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	108	Extracellular (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		TGGCGGGGCCGCCTGCAGCAT	0.607													8	24					0	0	0.008291	0	0		A	47823356	A	A	47823356	3	1	4	1	0	0	0	0	1	0	0	0	2284	1087	38	1	327	1	C5AR1	19	47823356	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	598095	47823356	11305627	3974	5940											
DHX34	9704	broad.mit.edu	37	chr19	47876049	47876049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgctcaccatcgcagccGcacttagcgtccagtcgccc	6	8	9	18	4	1	0	1	0	0	0	4	0	2	0	4	0	3	3	4	0	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:47876049G>A	uc010xyn.1	+	8	2172	c.1831G>A	c.(1831-1833)GCA>ACA	p.A611T	DHX34_uc010elc.1_Missense_Mutation_p.A526T	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	611						intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		CATCGCAGCCGCACTTAGCGT	0.687													4	14					0	0	0.006214	0	0		A	47876049	A	A	47876049	3	1	4	1	0	0	0	0	1	0	0	0	4513	1087	38	1	1857	1	DHX34	19	47876049	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	52693	47876049	11252934	3975	5941											
DHX34	9704	broad.mit.edu	37	chr19	47884536	47884536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgcccctggagcgcatcGcccatgagaacacctgcccc	8	5	9	19	3	1	1	1	1	0	1	2	3	1	2	6	1	3	1	6	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:47884536G>A	uc010xyn.1	+	16	3594	c.3253G>A	c.(3253-3255)GCC>ACC	p.A1085T	DHX34_uc010xyo.1_Missense_Mutation_p.A214T	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	1085						intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		GGAGCGCATCGCCCATGAGAA	0.672													10	21					0	0	0.001368	0	0		A	47884536	A	A	47884536	3	1	4	1	0	0	0	0	1	0	0	0	4513	1087	38	1	3311	1	DHX34	19	47884536	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8487	47884536	11244447	3976	5942											
NAPA	8775	broad.mit.edu	37	chr19	47995277	47995277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggggtgtgctaccttggCgttgagcatgtcgatgcaga	6	11	16	8	3	0	2	0	1	0	1	1	3	0	2	1	3	4	4	1	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:47995277C>T	uc002pha.1	-	8	961	c.661G>A	c.(661-663)GCC>ACC	p.A221T	uc002pgz.1_Intron|NAPA_uc002phb.1_Missense_Mutation_p.A182T|NAPA_uc002phc.1_Missense_Mutation_p.A108T|NAPA_uc002phd.1_Missense_Mutation_p.A221T	NM_003827	NP_003818	P54920	SNAA_HUMAN	N-ethylmaleimide-sensitive factor attachment	221					cellular membrane fusion|intra-Golgi vesicle-mediated transport|post-Golgi vesicle-mediated transport	cytosol					0		all_cancers(25;1.55e-10)|all_epithelial(76;3.4e-08)|all_lung(116;1.73e-07)|Lung NSC(112;3.95e-07)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		OV - Ovarian serous cystadenocarcinoma(262;0.000466)|all cancers(93;0.000739)|Epithelial(262;0.0168)|GBM - Glioblastoma multiforme(486;0.049)		GCTACCTTGGCGTTGAGCATG	0.627													11	47					0	0	0.00245	0	0		T	47995277	T	T	47995277	3	4	4	1	0	0	0	0	1	0	0	0	10179	768	27	1	242	1	NAPA	19	47995277	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	110741	47995277	11133706	3977	5943											
ZNF114	163071	broad.mit.edu	37	chr19	48790081	48790081	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaagactttgcaaagtcGtcaggacttaaaaaacatct	17	9	8	7	1	2	1	1	0	1	1	3	3	2	3	0	2	2	1	0	2	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:48790081G>A	uc002pil.1	+	6	1697	c.1200G>A	c.(1198-1200)TCG>TCA	p.S400S	ZNF114_uc010elv.1_Silent_p.S400S|ZNF114_uc002pim.1_Silent_p.S400S|ZNF114_uc002pin.2_Silent_p.S366S	NM_153608	NP_705836	Q8NC26	ZN114_HUMAN	zinc finger protein 114	400	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_epithelial(76;8.01e-05)|all_lung(116;0.000112)|Lung NSC(112;0.000192)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;7.56e-05)|all cancers(93;0.000113)|Epithelial(262;0.00962)|GBM - Glioblastoma multiforme(486;0.0153)		TTGCAAAGTCGTCAGGACTTA	0.373													36	104					0	0	0.006999	0	0		A	48790081	A	A	48790081	2	1	4	1	0	0	0	0	0	0	0	1	17741	1132	40	1		1	ZNF114	19	48790081	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	794804	48790081	10338902	3978	5944											
KDELR1	10945	broad.mit.edu	37	chr19	48887702	48887702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaacagctgcggcaagatgGccactgactccaggtagatg	11	7	13	10	1	0	4	0	2	0	2	1	4	1	4	2	3	3	3	2	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:48887702G>A	uc002pjb.1	-	4	584	c.389C>T	c.(388-390)GCC>GTC	p.A130V	KDELR1_uc002pja.1_Missense_Mutation_p.A68V	NM_006801	NP_006792	P24390	ERD21_HUMAN	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum	130	Helical; (Potential).				intracellular protein transport|protein retention in ER lumen|vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|integral to membrane|membrane fraction	KDEL sequence binding|protein binding|receptor activity				0		all_epithelial(76;2.48e-06)|all_lung(116;5.76e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Prostate(7;0.122)|Breast(70;0.203)		all cancers(93;0.000114)|OV - Ovarian serous cystadenocarcinoma(262;0.000136)|Epithelial(262;0.01)|GBM - Glioblastoma multiforme(486;0.0145)		CGGCAAGATGGCCACTGACTC	0.597													5	18					0	0	0.001984	0	0		A	48887702	A	A	48887702	3	1	4	1	0	0	0	0	1	0	0	0	8135	1203	42	2	257	2	KDELR1	19	48887702	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	97621	48887702	10241281	3979	5945											
RASIP1	54922	broad.mit.edu	37	chr19	49227759	49227759	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaccattgatagaaaggccgGccttgacctgtgggtgttaa	10	10	13	8	1	0	3	0	2	0	1	0	4	0	3	4	3	0	1	4	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:49227759G>A	uc002pki.2	-	10	2576	c.2379C>T	c.(2377-2379)GGC>GGT	p.G793G	RASIP1_uc002pkh.2_Silent_p.G54G	NM_017805	NP_060275	Q5U651	RAIN_HUMAN	Ras-interacting protein 1	793	Dilute.				signal transduction	Golgi stack|perinuclear region of cytoplasm				pancreas(1)	1		all_lung(116;4.89e-06)|all_epithelial(76;7.04e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;9.98e-05)|all cancers(93;0.000272)|Epithelial(262;0.0155)|GBM - Glioblastoma multiforme(486;0.0222)		AGAAAGGCCGGCCTTGACCTG	0.567													20	41					0	0	0.00333	0	0		A	49227759	A	A	49227759	2	1	4	1	0	0	0	0	0	0	0	1	13103	1190	42	2		2	RASIP1	19	49227759	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	340057	49227759	9901224	3980	5946											
NUCB1	4924	broad.mit.edu	37	chr19	49416353	49416353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaggaacacgagagacggcGttatctggagtcactgggag	12	7	15	7	3	2	1	1	0	1	1	2	6	2	4	0	4	1	1	0	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:49416353G>A	uc002plb.3	+	6	638	c.566G>A	c.(565-567)CGT>CAT	p.R189H	NUCB1_uc002pla.2_Missense_Mutation_p.R189H|NUCB1_uc002plc.2_Missense_Mutation_p.R189H	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	189	Potential.|Potential.					ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		GAGAGACGGCGTTATCTGGAG	0.592													4	56					0	0	0.000602	0	0		A	49416353	A	A	49416353	3	1	4	1	0	0	0	0	1	0	0	0	10737	1145	40	1	584	1	NUCB1	19	49416353	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	188594	49416353	9712630	3981	5947											
DHDH	27294	broad.mit.edu	37	chr19	49442881	49442881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggacatcggcatctactGtgtccagttcacctccatgg	7	11	10	13	1	2	0	1	0	1	0	5	1	4	1	3	3	1	3	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:49442881G>A	uc002ple.1	+	4	582	c.542G>A	c.(541-543)TGT>TAT	p.C181Y		NM_014475	NP_055290	Q9UQ10	DHDH_HUMAN	dimeric dihydrodiol dehydrogenase	181					carbohydrate metabolic process		binding|D-xylose 1-dehydrogenase (NADP+) activity|electron carrier activity|NAD(P)+ transhydrogenase activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000158)|all cancers(93;0.000258)|Epithelial(262;0.0173)|GBM - Glioblastoma multiforme(486;0.0179)		GGCATCTACTGTGTCCAGTTC	0.572													21	50					0	0	0.001882	0	0		A	49442881	A	A	49442881	3	1	4	1	0	0	0	0	1	0	0	0	4485	1377	48	4	556	4	DHDH	19	49442881	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	26528	49442881	9686102	3982	5948											
KCNA7	3743	broad.mit.edu	37	chr19	49575644	49575644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtagtagtagagcacggCgtcgaagctgggccggtgcc	7	7	17	10	4	0	1	0	0	0	1	1	2	0	1	2	4	3	5	2	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:49575644C>T	uc002pmg.2	-	1	555	c.199G>A	c.(199-201)GCC>ACC	p.A67T		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	67						voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)		TAGAGCACGGCGTCGAAGCTG	0.706													3	6					0	0	0.009096	0	0		T	49575644	T	T	49575644	3	4	4	1	0	0	0	0	1	0	0	0	8024	768	27	1	1179	1	KCNA7	19	49575644	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	132763	49575644	9553339	3983	5949											
CD37	951	broad.mit.edu	37	chr19	49842133	49842133	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggcttggacacctggcGcggtccagacacagtgcaga	10	5	14	12	2	0	2	0	0	0	2	1	3	1	3	2	4	2	3	2	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:49842133G>A	uc002pnd.2	+	6	745	c.624G>A	c.(622-624)GCG>GCA	p.A208A	uc002pnb.1_Intron|CD37_uc002pnc.2_RNA|CD37_uc010yam.1_Silent_p.A208A|CD37_uc010yan.1_Silent_p.A140A|CD37_uc002pnf.3_Silent_p.A180A|CD37_uc002pne.2_Silent_p.A140A	NM_001774	NP_001765	P11049	CD37_HUMAN	CD37 antigen isoform A	208	Extracellular (Potential).					integral to membrane					0		all_lung(116;2.81e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00088)|GBM - Glioblastoma multiforme(486;0.0443)		GACACCTGGCGCGGTCCAGAC	0.607													5	50					0	0	0.000602	0	0		A	49842133	A	A	49842133	2	1	4	1	0	0	0	0	0	0	0	1	3011	1074	38	1		1	CD37	19	49842133	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	266489	49842133	9286850	3984	5950											
TEAD2	8463	broad.mit.edu	37	chr19	49846621	49846621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgctgccaccggcccctGcctcctcaccacttgggccc	4	8	9	20	1	1	1	1	1	0	0	2	1	2	1	8	2	3	1	8	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:49846621G>A	uc002pnj.2	-	10	1035	c.944C>T	c.(943-945)GCA>GTA	p.A315V	TEAD2_uc002png.2_Missense_Mutation_p.A318V|TEAD2_uc002pnh.2_Missense_Mutation_p.A319V|TEAD2_uc002pni.2_Missense_Mutation_p.A318V|TEAD2_uc010yao.1_Missense_Mutation_p.A187V|TEAD2_uc010emw.2_Missense_Mutation_p.A318V	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	315	Transcriptional activation (Potential).				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		ACCGGCCCCTGCCTCCTCACC	0.577													6	33					0	0	0.001168	0	0		A	49846621	A	A	49846621	3	1	4	1	0	0	0	0	1	0	0	0	15764	1319	46	2	411	2	TEAD2	19	49846621	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4488	49846621	9282362	3985	5951											
RCN3	57333	broad.mit.edu	37	chr19	50040306	50040306	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtgaagaatttcatgaCgtggaggatgcagagaccta	13	8	13	7	1	1	4	1	2	0	2	1	7	1	6	2	3	1	1	2	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:50040306C>T	uc002poj.2	+	4	909	c.462C>T	c.(460-462)GAC>GAT	p.D154D		NM_020650	NP_065701	Q96D15	RCN3_HUMAN	reticulocalbin 3, EF-hand calcium binding domain	154						endoplasmic reticulum lumen	calcium ion binding|protein binding			ovary(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00295)|GBM - Glioblastoma multiforme(134;0.0159)		AATTTCATGACGTGGAGGATG	0.527													48	139					0	0	0.00361	0	0		T	50040306	T	T	50040306	2	4	4	1	0	0	0	0	0	0	0	1	13206	535	19	1		1	RCN3	19	50040306	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	193685	50040306	9088677	3986	5952											
FUZ	80199	broad.mit.edu	37	chr19	50314650	50314650	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacccctctggaggaatcacGcagtccacacactgggtcag	10	6	11	14	1	3	0	2	0	1	0	4	3	4	2	3	3	0	1	3	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:50314650G>A	uc002ppq.1	-	5	567	c.462C>T	c.(460-462)TGC>TGT	p.C154C	FUZ_uc002ppr.1_Silent_p.C54C|FUZ_uc002pps.1_RNA|FUZ_uc002ppt.1_RNA|FUZ_uc002ppu.1_Silent_p.C118C|FUZ_uc002ppv.1_Silent_p.C104C|FUZ_uc010ybd.1_Silent_p.C154C	NM_025129	NP_079405	Q9BT04	FUZZY_HUMAN	fuzzy homolog	154					cilium assembly|embryonic body morphogenesis|embryonic skeletal system morphogenesis|establishment of planar polarity|hair follicle development|neural tube closure|protein transport|regulation of smoothened signaling pathway	cytoplasm|cytoskeleton					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00793)|GBM - Glioblastoma multiforme(134;0.0116)		GAGGAATCACGCAGTCCACAC	0.572													5	16					0	0	0.000602	0	0		A	50314650	A	A	50314650	2	1	4	1	0	0	0	0	0	0	0	1	6126	1079	38	1		1	FUZ	19	50314650	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	274344	50314650	8814333	3987	5953											
MED25	81857	broad.mit.edu	37	chr19	50334046	50334046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccccaggaccccctggcGcccccaagccaccacctgct	7	4	7	23	1	0	0	0	0	0	0	0	1	0	1	9	2	3	1	9	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:50334046G>A	uc002ppw.1	+	9	1056	c.1003G>A	c.(1003-1005)GCC>ACC	p.A335T	MED25_uc010ybe.1_Missense_Mutation_p.A122T|MED25_uc002ppx.1_Missense_Mutation_p.A116T	NM_030973	NP_112235	Q71SY5	MED25_HUMAN	mediator complex subunit 25	335	Pro-rich.		A -> V (in CMT2B2).		regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm				ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00822)|GBM - Glioblastoma multiforme(134;0.0122)		ACCCCCTGGCGCCCCCAAGCC	0.706													3	6					0	0	0.000602	0	0		A	50334046	A	A	50334046	3	1	4	1	0	0	0	0	1	0	0	0	9461	1087	38	1	1037	1	MED25	19	50334046	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	19396	50334046	8794937	3988	5954											
PNKP	11284	broad.mit.edu	37	chr19	50367620	50367620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggaaagaccttcccagagCgtgtggtgatgagcgtcccg	8	8	15	10	3	0	4	0	2	0	2	2	5	2	5	3	2	2	0	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:50367620C>T	uc002pqh.2	-	4	591	c.539G>A	c.(538-540)CGC>CAC	p.R180H	PNKP_uc002pqg.2_5'UTR|PNKP_uc002pqi.2_Missense_Mutation_p.R141H|PNKP_uc002pqj.2_Missense_Mutation_p.R180H|PNKP_uc010enm.2_Missense_Mutation_p.R180H|PNKP_uc002pqk.2_Missense_Mutation_p.R180H	NM_007254	NP_009185	Q96T60	PNKP_HUMAN	polynucleotide kinase 3' phosphatase	180					DNA damage response, detection of DNA damage|DNA-dependent DNA replication|nucleotide-excision repair, DNA damage removal|response to oxidative stress|response to radiation	nucleolus	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|damaged DNA binding|double-stranded DNA binding|endonuclease activity|nucleotide kinase activity|polynucleotide 3'-phosphatase activity|protein binding			ovary(1)|kidney(1)	2		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0118)|OV - Ovarian serous cystadenocarcinoma(262;0.0134)		CTTCCCAGAGCGTGTGGTGAT	0.577								Other_BER_factors					7	95					0	0	0.004482	0	0		T	50367620	T	T	50367620	3	4	4	1	0	0	0	0	1	0	0	0	12166	768	27	1	1078	1	PNKP	19	50367620	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	33574	50367620	8761363	3989	5955											
IL4I1	259307	broad.mit.edu	37	chr19	50393017	50393017	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcctttgccaggtcatgCgaggggctgctggccacccc	4	10	12	15	1	2	0	1	0	1	0	3	1	3	0	5	4	3	2	5	4	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:50393017C>T	uc002pqt.1	-	8	1692	c.1614G>A	c.(1612-1614)TCG>TCA	p.S538S	IL4I1_uc002pqv.1_Silent_p.S547S|IL4I1_uc010eno.1_Silent_p.S546S|IL4I1_uc002pqw.1_Silent_p.S546S|IL4I1_uc002pqu.1_Silent_p.S560S	NM_152899	NP_690863	Q96RQ9	OXLA_HUMAN	interleukin 4 induced 1 isoform 1 precursor	538						lysosome	L-amino-acid oxidase activity			lung(1)|ovary(1)|prostate(1)	3		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00245)|OV - Ovarian serous cystadenocarcinoma(262;0.0169)		CCAGGTCATGCGAGGGGCTGC	0.617													8	15					0	0	0.006214	0	0		T	50393017	T	T	50393017	2	4	4	1	0	0	0	0	0	0	0	1	7713	755	27	1		1	IL4I1	19	50393017	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	25397	50393017	8735966	3990	5956											
C19orf41	126123	broad.mit.edu	37	chr19	50655902	50655902	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcggttttgtctgtatgtAcaagccctggtcagagagaa	9	14	11	7	1	2	2	1	0	1	2	3	3	2	2	1	2	2	3	1	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:50655902A>G	uc002prp.1	-	7	717	c.630T>C	c.(628-630)TGT>TGC	p.C210C		NM_152358	NP_689571	Q6UXV1	IZUM2_HUMAN	hypothetical protein LOC126123 precursor	210	Cytoplasmic (Potential).					integral to membrane					0		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00364)|OV - Ovarian serous cystadenocarcinoma(262;0.0052)		GTCTGTATGTACAAGCCCTGG	0.408													52	173					0	0	0.00361	0	0		G	50655902	G	G	50655902	2	3	4	1	0	0	0	0	0	0	0	1	1927	389	14	3		3	C19orf41	19	50655902	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	262885	50655902	8473081	3991	5957											
JOSD2	126119	broad.mit.edu	37	chr19	51009492	51009492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcactaccagcagcacctCgcacaggccctgggccagcg	8	4	12	17	2	1	0	1	0	0	0	2	0	1	0	4	3	4	3	4	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:51009492C>T	uc002psn.1	-	5	536	c.505G>A	c.(505-507)GAG>AAG	p.E169K	JOSD2_uc002pso.1_Missense_Mutation_p.E169K|JOSD2_uc002psp.1_Missense_Mutation_p.E169K|JOSD2_uc002psq.1_Missense_Mutation_p.E127K	NM_138334	NP_612207	Q8TAC2	JOS2_HUMAN	Josephin domain containing 2	169	Josephin.				protein deubiquitination		ubiquitin-specific protease activity				0		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0364)		AGCAGCACCTCGCACAGGCCC	0.682													6	16					0	0	0.001168	0	0		T	51009492	T	T	51009492	3	4	4	1	0	0	0	0	1	0	0	0	7975	893	31	1	65	1	JOSD2	19	51009492	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	353590	51009492	8119491	3992	5958											
LRRC4B	94030	broad.mit.edu	37	chr19	51021314	51021314	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgtgatgggcaccgtgaaCgccttctccgtgggccgcga	5	8	14	14	6	1	2	0	2	1	0	3	3	2	2	5	2	1	1	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:51021314C>T	uc002pss.2	-	3	1793	c.1656G>A	c.(1654-1656)GCG>GCA	p.A552A		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	552	Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		GCACCGTGAACGCCTTCTCCG	0.672													7	16					0	0	0.00308	0	0		T	51021314	T	T	51021314	2	4	4	1	0	0	0	0	0	0	0	1	9025	523	19	1		1	LRRC4B	19	51021314	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	11822	51021314	8107669	3993	5959											
SHANK1	50944	broad.mit.edu	37	chr19	51217085	51217085	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcagtgtcgggcgcatgcGgccttatgcagtgcggtcat	6	9	16	10	4	1	0	1	0	0	0	2	0	1	0	1	4	3	3	1	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:51217085G>A	uc002psx.1	-	5	781	c.762C>T	c.(760-762)GCC>GCT	p.A254A		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	254	ANK 2.				cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GGGCGCATGCGGCCTTATGCA	0.637													3	20					0	0	0.004672	0	0		A	51217085	A	A	51217085	2	1	4	1	0	0	0	0	0	0	0	1	14289	1103	39	1		1	SHANK1	19	51217085	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	195771	51217085	7911898	3994	5960											
SIGLEC10	89790	broad.mit.edu	37	chr19	51920664	51920664	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatgcacaggccctccggCaccatcactgactcctgcac	9	6	9	17	1	1	2	1	1	0	1	3	3	3	2	4	2	2	3	4	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:51920664C>T	uc002pwo.2	-	2	709	c.93G>A	c.(91-93)GTG>GTA	p.V31V	SIGLEC10_uc002pwp.2_Silent_p.V31V|SIGLEC10_uc002pwq.2_Silent_p.V31V|SIGLEC10_uc002pwr.2_Silent_p.V31V|SIGLEC10_uc010ycy.1_Silent_p.V31V|SIGLEC10_uc010ycz.1_Silent_p.V31V|SIGLEC10_uc010eow.2_Intron|SIGLEC10_uc002pws.1_Silent_p.V15V	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	31	Extracellular (Potential).|Ig-like V-type.				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GGCCCTCCGGCACCATCACTG	0.592													14	40					0	0	0.001855	0	0		T	51920664	T	T	51920664	2	4	4	1	0	0	0	0	0	0	0	1	14331	697	25	2		2	SIGLEC10	19	51920664	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	703579	51920664	7208319	3995	5961											
ZNF613	79898	broad.mit.edu	37	chr19	52447944	52447944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatgtgacaaagcattcCgctggaaatcacagctcaat	14	9	8	10	1	2	2	2	2	0	0	3	3	3	3	1	1	2	3	1	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52447944C>T	uc002pxz.1	+	6	1231	c.808C>T	c.(808-810)CGC>TGC	p.R270C	ZNF613_uc002pya.1_Missense_Mutation_p.R234C	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	270	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		CAAAGCATTCCGCTGGAAATC	0.453													5	123					0	0	0.000602	0	0		T	52447944	T	T	52447944	3	4	4	1	0	0	0	0	1	0	0	0	18063	652	23	1	822	1	ZNF613	19	52447944	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	527280	52447944	6681039	3996	5962											
ZNF615	284370	broad.mit.edu	37	chr19	52496650	52496650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttctctcctgtatgagtgCgccgatgtacattgagatga	8	14	11	8	2	1	3	0	3	1	1	3	5	2	3	2	0	2	3	2	0	2	4	rs147205148		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52496650C>T	uc002pye.1	-	6	1971	c.1679G>A	c.(1678-1680)CGC>CAC	p.R560H	ZNF615_uc002pyf.1_Missense_Mutation_p.R571H|ZNF615_uc002pyg.1_Missense_Mutation_p.R452H|ZNF615_uc002pyh.1_Missense_Mutation_p.R571H|ZNF615_uc010epi.1_Missense_Mutation_p.R567H|ZNF615_uc010ydg.1_Missense_Mutation_p.R565H	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	560	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TGTATGAGTGCGCCGATGTAC	0.448													10	107					0	0	0.000978	0	0		T	52496650	T	T	52496650	3	4	4	1	0	0	0	0	1	0	0	0	18065	768	27	1	520	1	ZNF615	19	52496650	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	48706	52496650	6632333	3997	5963											
ZNF614	80110	broad.mit.edu	37	chr19	52519532	52519532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgatgtataataagagtgCgctttgtggtgaagccttta	10	14	12	5	1	0	3	0	2	0	1	0	3	0	3	1	1	2	3	1	1	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52519532C>T	uc002pyj.2	-	5	1721	c.1319G>A	c.(1318-1320)CGC>CAC	p.R440H	ZNF614_uc002pyi.3_Intron|ZNF614_uc010epj.2_Missense_Mutation_p.R143H	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	440	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		AATAAGAGTGCGCTTTGTGGT	0.408													52	102					0	0	0.00361	0	0		T	52519532	T	T	52519532	3	4	4	1	0	0	0	0	1	0	0	0	18064	768	27	1	442	1	ZNF614	19	52519532	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	22882	52519532	6609451	3998	5964											
ZNF616	90317	broad.mit.edu	37	chr19	52619372	52619372	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttatatggtttctttcCtgcatggattacctgatgta	9	18	7	7	0	1	1	0	1	1	0	2	2	2	2	2	2	2	3	2	2	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52619372C>A	uc002pym.2	-	4	1328	c.1045G>T	c.(1045-1047)GGA>TGA	p.G349*	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	349					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		GGTTTCTTTCCTGCATGGATT	0.408													63	103					1.44317e-28	1.5846e-28	0.00361	1	0		A	52619372	A	A	52619372	4	1	4	1	0	0	0	0	0	1	0	0	18066	690	24	5	1304	5	ZNF616	19	52619372	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	99840	52619372	6509611	3999	5965											
PPP2R1A	5518	broad.mit.edu	37	chr19	52714620	52714620	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgccctctgacctggaggcGcactttgtgccgctagtgaa	6	10	12	13	3	1	2	0	2	1	0	2	3	1	3	3	2	1	2	3	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52714620G>A	uc002pyp.2	+	4	537	c.378G>A	c.(376-378)GCG>GCA	p.A126A	PPP2R1A_uc010ydk.1_Silent_p.A71A|PPP2R1A_uc010epm.1_Silent_p.A166A|PPP2R1A_uc002pyq.2_5'UTR	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	126	PP2A subunit B binding.|SV40 small T antigen binding.|HEAT 4.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		ACCTGGAGGCGCACTTTGTGC	0.662			Mis		clear cell ovarian carcinoma								9	20					0	0	0.003163	0	0		A	52714620	A	A	52714620	2	1	4	1	0	0	0	0	0	0	0	1	12404	1074	38	1		1	PPP2R1A	19	52714620	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	95248	52714620	6414363	4000	5966											
ZNF480	147657	broad.mit.edu	37	chr19	52825210	52825210	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttacaaatgtaattcatGcggcaaggtctttagtcgca	12	12	8	9	2	2	0	1	0	1	0	3	0	2	0	1	2	2	3	1	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52825210G>A	uc010ydl.1	+	5	777	c.707G>A	c.(706-708)TGC>TAC	p.C236Y	ZNF480_uc002pyv.2_Missense_Mutation_p.C159Y|ZNF480_uc010ydm.1_Missense_Mutation_p.C193Y|ZNF480_uc010epn.2_Missense_Mutation_p.C67Y|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	236	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		TGTAATTCATGCGGCAAGGTC	0.363													16	46					0	0	0.004007	0	0		A	52825210	A	A	52825210	3	1	4	1	0	0	0	0	1	0	0	0	17960	1319	46	2	721	2	ZNF480	19	52825210	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	110590	52825210	6303773	4001	5967											
ZNF480	147657	broad.mit.edu	37	chr19	52825228	52825228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcggcaaggtctttagtcGcaattcacaccttgcagaac	11	10	9	11	2	2	1	1	0	1	1	3	1	2	1	1	2	3	3	1	2	4	4	rs148271899	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52825228G>A	uc010ydl.1	+	5	795	c.725G>A	c.(724-726)CGC>CAC	p.R242H	ZNF480_uc002pyv.2_Missense_Mutation_p.R165H|ZNF480_uc010ydm.1_Missense_Mutation_p.R199H|ZNF480_uc010epn.2_Missense_Mutation_p.R73H|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	242	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		GTCTTTAGTCGCAATTCACAC	0.363													16	40					0	0	0.003163	0	0		A	52825228	A	A	52825228	3	1	4	1	0	0	0	0	1	0	0	0	17960	1087	38	1	739	1	ZNF480	19	52825228	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	18	52825228	6303755	4002	5968											
ZNF528	84436	broad.mit.edu	37	chr19	52919279	52919279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgacaaggtctttgggCgcaagtgtttcctgacctct	8	13	11	9	1	2	2	0	2	2	0	3	2	3	2	2	2	0	2	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52919279C>T	uc002pzh.2	+	7	1600	c.1174C>T	c.(1174-1176)CGC>TGC	p.R392C	ZNF528_uc002pzi.2_Missense_Mutation_p.R159C	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	392	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		GGTCTTTGGGCGCAAGTGTTT	0.423													20	60					0	0	0.002299	0	0		T	52919279	T	T	52919279	3	4	4	1	0	0	0	0	1	0	0	0	17994	768	27	1	1188	1	ZNF528	19	52919279	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	94051	52919279	6209704	4003	5969											
ZNF611	81856	broad.mit.edu	37	chr19	53208665	53208665	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgccagataggaatgacacGcaaaagccttgtcacaaacc	15	7	8	11	1	1	2	1	1	0	1	1	3	1	3	3	1	3	1	3	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:53208665G>A	uc002pzz.2	-	7	1960	c.1643C>T	c.(1642-1644)GCG>GTG	p.A548V	ZNF611_uc010eqc.2_Missense_Mutation_p.A478V|ZNF611_uc010ydo.1_Missense_Mutation_p.A478V|ZNF611_uc010ydr.1_Missense_Mutation_p.A479V|ZNF611_uc010ydp.1_Missense_Mutation_p.A548V|ZNF611_uc010ydq.1_Missense_Mutation_p.A548V|ZNF611_uc002qaa.3_Missense_Mutation_p.A478V	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	548	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		GGAATGACACGCAAAAGCCTT	0.398													26	232					0	0	0.004656	0	0		A	53208665	A	A	53208665	3	1	4	1	0	0	0	0	1	0	0	0	18062	1087	38	1	478	1	ZNF611	19	53208665	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	289386	53208665	5920318	4004	5970											
ZNF845	91664	broad.mit.edu	37	chr19	53848784	53848784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attgacattcagggatgtggCcatagaattctctcaggaag	12	11	11	7	0	3	2	2	1	1	1	4	4	3	4	1	3	0	0	1	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:53848784C>T	uc010ydv.1	+	3	158	c.41C>T	c.(40-42)GCC>GTC	p.A14V	ZNF845_uc010ydw.1_Missense_Mutation_p.A14V	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	14	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGGGATGTGGCCATAGAATTC	0.453													42	141					0	0	0.00874	0	0		T	53848784	T	T	53848784	3	4	4	1	0	0	0	0	1	0	0	0	18216	739	26	2	47	2	ZNF845	19	53848784	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	640119	53848784	5280199	4005	5971											
ZNF845	91664	broad.mit.edu	37	chr19	53855127	53855127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaagtcatcccttacacGccatcgtagacttcatactg	10	11	7	13	3	2	1	2	0	0	1	5	2	3	2	2	1	2	1	2	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:53855127G>A	uc010ydv.1	+	4	1316	c.1199G>A	c.(1198-1200)CGC>CAC	p.R400H	ZNF845_uc010ydw.1_Missense_Mutation_p.R400H	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	400	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCCCTTACACGCCATCGTAGA	0.403													6	116					0	0	0.001168	0	0		A	53855127	A	A	53855127	3	1	4	1	0	0	0	0	1	0	0	0	18216	1087	38	1	1209	1	ZNF845	19	53855127	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	6343	53855127	5273856	4006	5972											
ZNF331	55422	broad.mit.edu	37	chr19	54080668	54080668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttttatttgtggttcaaGcctcattcagcataaaagaa	12	14	8	7	0	3	1	3	0	0	1	3	1	3	1	1	2	2	3	1	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54080668G>A	uc002qbx.1	+	7	2288	c.854G>A	c.(853-855)AGC>AAC	p.S285N	ZNF331_uc002qby.1_Missense_Mutation_p.S285N|ZNF331_uc002qbz.1_Missense_Mutation_p.S285N|ZNF331_uc002qca.1_Missense_Mutation_p.S285N|ZNF331_uc010eqr.1_Missense_Mutation_p.S285N|ZNF331_uc002qcb.1_Missense_Mutation_p.S285N|ZNF331_uc002qcc.1_Missense_Mutation_p.S285N|ZNF331_uc002qcd.1_Missense_Mutation_p.S285N	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	285	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		TGTGGTTCAAGCCTCATTCAG	0.413			T	?	follicular thyroid adenoma								21	58					0	0	0.00278	0	0		A	54080668	A	A	54080668	3	1	4	1	0	0	0	0	1	0	0	0	17874	971	34	2	864	2	ZNF331	19	54080668	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	225541	54080668	5048315	4007	5973											
MYADM	91663	broad.mit.edu	37	chr19	54376938	54376938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctacctgcgtggccttctCgctggtggctagcgtgggcg	2	11	16	12	4	2	0	0	0	2	0	3	0	2	0	2	4	3	2	2	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54376938C>T	uc002qcl.2	+	3	303	c.155C>T	c.(154-156)TCG>TTG	p.S52L	MYADM_uc002qcm.2_Missense_Mutation_p.S52L|MYADM_uc002qcn.2_Missense_Mutation_p.S52L|MYADM_uc002qco.2_Missense_Mutation_p.S52L|MYADM_uc002qcp.2_Missense_Mutation_p.S52L	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	52	MARVEL 1.|Helical; (Potential).					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		GTGGCCTTCTCGCTGGTGGCT	0.657											OREG0003650	type=REGULATORY REGION|Gene=MYADM|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	5	19					0	0	0.006214	0	0		T	54376938	T	T	54376938	3	4	4	1	0	0	0	0	1	0	0	0	10024	893	31	1	157	1	MYADM	19	54376938	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	296270	54376938	4752045	4008	5974											
MYADM	91663	broad.mit.edu	37	chr19	54377441	54377441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcatcctagcggccatcGccatcctgctgaacctgggg	6	9	11	15	2	1	1	1	1	0	0	4	1	3	1	5	3	3	2	5	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54377441G>A	uc002qcl.2	+	3	806	c.658G>A	c.(658-660)GCC>ACC	p.A220T	MYADM_uc002qcm.2_Missense_Mutation_p.A220T|MYADM_uc002qcn.2_Missense_Mutation_p.A220T|MYADM_uc002qco.2_Missense_Mutation_p.A220T|MYADM_uc002qcp.2_Missense_Mutation_p.A220T	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	220	MARVEL 2.|Helical; (Potential).					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		AGCGGCCATCGCCATCCTGCT	0.632													9	58					0	0	0.006214	0	0		A	54377441	A	A	54377441	3	1	4	1	0	0	0	0	1	0	0	0	10024	1087	38	1	660	1	MYADM	19	54377441	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	503	54377441	4751542	4009	5975											
PRKCG	5582	broad.mit.edu	37	chr19	54406360	54406360	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctatgggaagtctgtcGattggtggtcctttggagtt	6	14	14	7	1	1	0	0	0	1	0	3	3	2	2	2	4	1	1	2	4	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54406360G>T	uc002qcq.1	+	15	1891	c.1609G>T	c.(1609-1611)GAT>TAT	p.D537Y	PRKCG_uc010yeg.1_Missense_Mutation_p.D537Y|PRKCG_uc010yeh.1_Missense_Mutation_p.D424Y	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	537	Protein kinase.				activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		GAAGTCTGTCGATTGGTGGTC	0.542													6	281					3.09899e-07	3.29863e-07	0.004482	1	0		T	54406360	T	T	54406360	3	4	4	1	0	0	0	0	1	0	0	0	12534	1058	37	5	1667	5	PRKCG	19	54406360	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	28919	54406360	4722623	4010	5976											
TFPT	29844	broad.mit.edu	37	chr19	54618073	54618073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcctcaaagcccacggctgCcatggtcctgagaggcaggg	8	6	13	14	1	1	1	1	1	0	1	3	2	3	1	4	4	2	2	4	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54618073C>T	uc010yej.1	-	2	437	c.31G>A	c.(31-33)GCA>ACA	p.A11T	TFPT_uc010erd.2_Missense_Mutation_p.A11T|PRPF31_uc002qdh.2_5'Flank|PRPF31_uc010yek.1_5'Flank	NM_013342	NP_037474	P0C1Z6	TFPT_HUMAN	TCF3 (E2A) fusion partner	11					apoptosis|DNA recombination|DNA repair|induction of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex	DNA binding|protein binding				0	all_cancers(19;0.004)|all_epithelial(19;0.00195)|all_lung(19;0.0193)|Lung NSC(19;0.0358)|Breast(117;0.137)|Ovarian(34;0.19)					CCCACGGCTGCCATGGTCCTG	0.413			T	TCF3	pre-B ALL								14	44					0	0	0.004007	0	0		T	54618073	T	T	54618073	3	4	4	1	0	0	0	0	1	0	0	0	15835	739	26	2	750	2	TFPT	19	54618073	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	211713	54618073	4510910	4011	5977											
TMC4	147798	broad.mit.edu	37	chr19	54669181	54669181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtacaagatgatgcgctggCgcagccgcacgtggacgtcc	8	6	14	13	6	0	2	0	1	0	1	1	3	1	3	2	2	3	4	2	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54669181C>T	uc010erf.2	-	6	1067	c.935G>A	c.(934-936)CGC>CAC	p.R312H	TMC4_uc002qdn.2_5'Flank|TMC4_uc002qdo.2_Missense_Mutation_p.R306H	NM_001145303	NP_001138775	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 1	312	Extracellular (Potential).					integral to membrane				pancreas(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GATGCGCTGGCGCAGCCGCAC	0.632													5	9					0	0	0.001984	0	0		T	54669181	T	T	54669181	3	4	4	1	0	0	0	0	1	0	0	0	16012	768	27	1	1243	1	TMC4	19	54669181	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	51108	54669181	4459802	4012	5978											
LILRA4	23547	broad.mit.edu	37	chr19	54848127	54848127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcacctgagaccacgagctCcaggggctcactggggtgag	8	6	14	13	1	2	2	2	2	0	1	3	4	3	2	3	4	1	2	3	4	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54848127C>T	uc002qfj.2	-	6	1297	c.1240G>A	c.(1240-1242)GAG>AAG	p.E414K	LILRA4_uc002qfi.2_Missense_Mutation_p.E348K	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	414	Extracellular (Potential).					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		ACCACGAGCTCCAGGGGCTCA	0.602													6	92					0	0	0.00308	0	0		T	54848127	T	T	54848127	3	4	4	1	0	0	0	0	1	0	0	0	8803	864	30	4	271	4	LILRA4	19	54848127	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	178946	54848127	4280856	4013	5979											
LENG8	114823	broad.mit.edu	37	chr19	54967409	54967409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctccaggtccccgacgcGccacttccgcagaaggtact	7	7	9	18	4	0	1	0	0	0	1	4	2	4	1	6	2	1	2	6	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54967409G>A	uc002qfv.1	+	8	1322	c.1178G>A	c.(1177-1179)CGC>CAC	p.R393H	LENG8_uc002qfw.2_Missense_Mutation_p.R430H			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	393	Ser-rich.						protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		TCCCCGACGCGCCACTTCCGC	0.617													12	48					0	0	0.010504	0	0		A	54967409	A	A	54967409	3	1	4	1	0	0	0	0	1	0	0	0	8740	1087	38	1	1319	1	LENG8	19	54967409	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	119282	54967409	4161574	4014	5980											
LILRB1	10859	broad.mit.edu	37	chr19	55143618	55143618	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaggtggtggtacaggtgCtatgcttatgactcgaactc	8	11	13	9	2	0	1	0	1	0	0	2	2	0	1	0	4	4	4	0	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:55143618C>T	uc002qgj.2	+	6	931	c.591C>T	c.(589-591)TGC>TGT	p.C197C	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Silent_p.C197C|LILRB1_uc002qgk.2_Silent_p.C197C|LILRB1_uc002qgm.2_Silent_p.C197C|LILRB1_uc010erq.2_Silent_p.C197C|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	197	Ig-like C2-type 2.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		GGTACAGGTGCTATGCTTATG	0.592										HNSCC(37;0.09)			6	89					0	0	0.004482	0	0		T	55143618	T	T	55143618	2	4	4	1	0	0	0	0	0	0	0	1	8806	805	28	2		2	LILRB1	19	55143618	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	176209	55143618	3985365	4015	5981											
KIR3DP1	768329	broad.mit.edu	37	chr19	55266480	55266480	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcaccggcagcaccatgtcGctcacggtcgtcagcatggc	7	7	12	15	4	2	0	2	0	0	0	4	0	2	0	2	3	3	5	2	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:55266480G>A	uc010yfi.1	+	1	7	c.6G>A	c.(4-6)TCG>TCA	p.S2S	KIR2DS4_uc010yfj.1_5'UTR|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_Intron	NM_001015070	NP_001015070			killer-cell Ig-like receptor												0				GBM - Glioblastoma multiforme(193;0.0192)		GCACCATGTCGCTCACGGTCG	0.597													5	49					0	0	0.00308	0	0		A	55266480	A	A	55266480	2	1	4	1	0	0	0	0	0	0	0	1	8339	1074	38	1		1	KIR3DP1	19	55266480	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	122862	55266480	3862503	4016	5982											
RDH13	112724	broad.mit.edu	37	chr19	55568079	55568079	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agggaagccaagtccaggtgCcgggcgttgacatggtgatt	9	8	16	8	2	0	2	0	2	0	0	1	3	1	3	3	4	2	1	3	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:55568079C>T	uc002qio.3	-	3	467	c.282G>A	c.(280-282)CGG>CGA	p.R94R	RDH13_uc002qip.2_Silent_p.R23R|RDH13_uc010yfq.1_RNA|RDH13_uc010esr.1_5'Flank	NM_001145971	NP_001139443	Q8NBN7	RDH13_HUMAN	retinol dehydrogenase 13 isoform 1	94							binding|oxidoreductase activity			large_intestine(1)|ovary(1)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(297;0.199)	GBM - Glioblastoma multiforme(193;0.0504)	Vitamin A(DB00162)	AGTCCAGGTGCCGGGCGTTGA	0.517													7	35					0	0	0.006214	0	0		T	55568079	T	T	55568079	2	4	4	1	0	0	0	0	0	0	0	1	13217	726	26	2		2	RDH13	19	55568079	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	301599	55568079	3560904	4017	5983											
TMEM190	147744	broad.mit.edu	37	chr19	55889054	55889054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtctccggtgctgctaccGcaatggggtctgctaccacc	5	9	12	15	3	2	0	0	0	2	0	3	0	2	0	4	3	5	4	4	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:55889054G>A	uc002qkt.1	+	3	206	c.188G>A	c.(187-189)CGC>CAC	p.R63H		NM_139172	NP_631911	Q8WZ59	TM190_HUMAN	transmembrane protein 190 precursor	63	P-type.|Extracellular (Potential).					integral to membrane					0	Breast(117;0.191)		BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		TGCTGCTACCGCAATGGGGTC	0.687													5	10					0	0	0.008291	0	0		A	55889054	A	A	55889054	3	1	4	1	0	0	0	0	1	0	0	0	16139	1087	38	1	198	1	TMEM190	19	55889054	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	320975	55889054	3239929	4018	5984											
ZNF581	51545	broad.mit.edu	37	chr19	56156449	56156449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggtgcactctggggaacGcccgtttcagtgtccacact	6	9	12	14	3	2	0	1	0	1	0	3	1	3	1	3	3	2	2	3	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:56156449G>A	uc002qln.2	+	2	1228	c.512G>A	c.(511-513)CGC>CAC	p.R171H	ZNF581_uc002qlq.2_Missense_Mutation_p.R171H|CCDC106_uc002qlr.2_5'Flank	NM_016535	NP_057619	Q9P0T4	ZN581_HUMAN	zinc finger protein 581	171					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		TCTGGGGAACGCCCGTTTCAG	0.692													11	22					0	0	0.001368	0	0		A	56156449	A	A	56156449	3	1	4	1	0	0	0	0	1	0	0	0	18038	1087	38	1	514	1	ZNF581	19	56156449	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	267395	56156449	2972534	4019	5985											
NLRP4	147945	broad.mit.edu	37	chr19	56369066	56369066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagacctatcaagctcacGcaaagcagaaattcagccgc	16	5	7	13	2	3	2	3	0	0	2	3	2	3	2	2	0	3	3	2	0	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:56369066G>A	uc002qmd.3	+	3	729	c.307G>A	c.(307-309)GCA>ACA	p.A103T	NLRP4_uc002qmf.2_Missense_Mutation_p.A28T|NLRP4_uc010etf.2_5'UTR	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	103							ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		TCAAGCTCACGCAAAGCAGAA	0.428													9	83					0	0	0.004482	0	0		A	56369066	A	A	56369066	3	1	4	1	0	0	0	0	1	0	0	0	10498	1087	38	1	313	1	NLRP4	19	56369066	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	212617	56369066	2759917	4020	5986											
NLRP4	147945	broad.mit.edu	37	chr19	56382267	56382267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcgtaacaagagcgtgcGctatctagacctcagtgcca	10	9	10	12	3	3	2	1	0	2	2	3	2	3	2	2	0	5	2	2	0	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:56382267G>A	uc002qmd.3	+	7	2851	c.2429G>A	c.(2428-2430)CGC>CAC	p.R810H	NLRP4_uc002qmf.2_Missense_Mutation_p.R735H|NLRP4_uc010etf.2_Missense_Mutation_p.R585H	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	810	LRR 5.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		AAGAGCGTGCGCTATCTAGAC	0.517													17	83					0	0	0.010504	0	0		A	56382267	A	A	56382267	3	1	4	1	0	0	0	0	1	0	0	0	10498	1087	38	1	2451	1	NLRP4	19	56382267	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	13201	56382267	2746716	4021	5987											
ZNF787	126208	broad.mit.edu	37	chr19	56600116	56600116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttctcgcccgtgtggatgCgctggtgctgcatgaggttg	3	12	16	10	3	1	1	0	1	1	0	2	2	1	2	1	3	3	5	1	3	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:56600116C>T	uc010eth.1	-	3	544	c.425G>A	c.(424-426)CGC>CAC	p.R142H		NM_001002836	NP_001002836	Q6DD87	ZN787_HUMAN	zinc finger protein 787	142	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0559)		CGTGTGGATGCGCTGGTGCTG	0.677													8	28					0	0	0.008291	0	0		T	56600116	T	T	56600116	3	4	4	1	0	0	0	0	1	0	0	0	18184	768	27	1	730	1	ZNF787	19	56600116	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	217849	56600116	2528867	4022	5988											
ZNF470	388566	broad.mit.edu	37	chr19	57081729	57081729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaattaaactttgtaaaGccatgtccctggtgagttag	12	12	10	7	0	0	1	0	1	0	0	1	2	1	2	2	2	2	2	2	2	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57081729G>A	uc002qnl.3	+	3	725	c.49G>A	c.(49-51)GCC>ACC	p.A17T	uc002qnk.1_5'Flank|ZNF470_uc010etn.2_RNA	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	17					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		ACTTTGTAAAGCCATGTCCCT	0.408													12	44					0	0	0.00245	0	0		A	57081729	A	A	57081729	3	1	4	1	0	0	0	0	1	0	0	0	17954	971	34	2	51	2	ZNF470	19	57081729	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	481613	57081729	2047254	4023	5989											
ZNF71	58491	broad.mit.edu	37	chr19	57132721	57132721	+	Frame_Shift_Del	DEL	G	-	-																															tccgttgttggggaggccacGgggggacccacgaggaatgg																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57132721delG	uc002qnm.3	+	3	304	c.66delG	c.(64-66)ACGfs	p.T22fs		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	22						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		GGGAGGCCACGGGGGGACCCA	0.557													12	24	---	---	---	---						.	-	57132721	-	-	57132721	7	5	4	1	0	1	0	1	0	0	0	0	18139	1103	39	0	68	0	ZNF71	19	57132721	Frame_Shift_Del	DEL	G	TCGA-BR-4184-01A-01D-1126-08	50992	57132721	1996262	4024	5990											
ZNF71	58491	broad.mit.edu	37	chr19	57133474	57133474	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagccgtacgtgtgcccCgagtgcgggcgagccttcag	7	6	16	12	5	1	1	1	0	0	1	1	4	1	1	4	1	5	1	4	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57133474C>T	uc002qnm.3	+	3	1057	c.819C>T	c.(817-819)CCC>CCT	p.P273P		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	273	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		ACGTGTGCCCCGAGTGCGGGC	0.672													14	24					0	0	0.008871	0	0		T	57133474	T	T	57133474	2	4	4	1	0	0	0	0	0	0	0	1	18139	639	23	1		1	ZNF71	19	57133474	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	753	57133474	1995509	4025	5991											
ZNF835	90485	broad.mit.edu	37	chr19	57175802	57175802	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaagcggaaggccttggcGcacgcggagcactcgtaggg	9	4	18	10	5	0	1	0	0	0	1	1	4	0	3	1	5	2	3	1	5	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57175802G>A	uc010ygo.1	-	2	831	c.831C>T	c.(829-831)TGC>TGT	p.C277C	ZNF835_uc010ygn.1_Silent_p.C255C	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						AGGCCTTGGCGCACGCGGAGC	0.682													6	28					0	0	0.008291	0	0		A	57175802	A	A	57175802	2	1	4	1	0	0	0	0	0	0	0	1	18211	1079	38	1		1	ZNF835	19	57175802	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	42328	57175802	1953181	4026	5992											
ZNF835	90485	broad.mit.edu	37	chr19	57176545	57176545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactctgcgccctggagggCgacgctcaagagtccctcca	8	6	11	16	3	2	1	1	0	1	1	4	3	4	2	3	2	2	1	3	2	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57176545C>T	uc010ygo.1	-	2	88	c.88G>A	c.(88-90)GCC>ACC	p.A30T	ZNF835_uc010ygn.1_Missense_Mutation_p.A8T	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						CCCTGGAGGGCGACGCTCAAG	0.517													10	43					0	0	0.001368	0	0		T	57176545	T	T	57176545	3	4	4	1	0	0	0	0	1	0	0	0	18211	768	27	1	1593	1	ZNF835	19	57176545	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	743	57176545	1952438	4027	5993											
PEG3	5178	broad.mit.edu	37	chr19	57327787	57327787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttattgtaagttttctgacGccttttaagggactgaccag	9	15	9	8	1	1	2	0	2	1	0	1	3	1	3	2	1	0	2	2	1	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57327787G>A	uc002qnu.2	-	7	2374	c.2023C>T	c.(2023-2025)CGT>TGT	p.R675C	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.R646C|PEG3_uc002qnv.2_Missense_Mutation_p.R675C|PEG3_uc002qnw.2_Missense_Mutation_p.R551C|PEG3_uc002qnx.2_Missense_Mutation_p.R549C|PEG3_uc010etr.2_Missense_Mutation_p.R675C	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	675					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GTTTTCTGACGCCTTTTAAGG	0.428													38	91					0	0	0.007835	0	0		A	57327787	A	A	57327787	3	1	4	1	0	0	0	0	1	0	0	0	11739	1087	38	1	2747	1	PEG3	19	57327787	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	151242	57327787	1801196	4028	5994											
ZNF547	284306	broad.mit.edu	37	chr19	57889141	57889141	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagggttcacactggaaagaGgccttatggttgcagtgaat	11	10	14	6	0	1	2	1	1	0	1	1	4	1	3	1	4	1	3	1	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57889141G>T	uc002qol.2	+	4	990	c.797G>T	c.(796-798)AGG>ATG	p.R266M	ZNF547_uc002qpm.3_Missense_Mutation_p.R192M|ZNF547_uc010ygx.1_Missense_Mutation_p.R266M	NM_173631	NP_775902	Q8IVP9	ZN547_HUMAN	zinc finger protein 547	266					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ACTGGAAAGAGGCCTTATGGT	0.423													7	105					5.18039e-06	5.47617e-06	0.00308	1	0		T	57889141	T	T	57889141	3	4	4	1	0	0	0	0	1	0	0	0	18004	1000	35	5	807	5	ZNF547	19	57889141	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	561354	57889141	1239842	4029	5995											
ZNF773	374928	broad.mit.edu	37	chr19	58018779	58018779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acatcgaaggattcacactgGagaaatacaatgattgtgag	16	9	10	6	1	1	3	1	2	0	1	2	6	1	4	0	2	1	0	0	2	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58018779G>A	uc002qox.2	+	4	1456	c.1316G>A	c.(1315-1317)GGA>GAA	p.G439E	ZNF547_uc002qpm.3_Intron|ZNF773_uc002qoy.2_Missense_Mutation_p.G438E|ZNF773_uc002qoz.2_Intron	NM_198542	NP_940944	Q6PK81	ZN773_HUMAN	zinc finger protein 773	439					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)		ATTCACACTGGAGAAATACAA	0.413													13	40					0	0	0.00245	0	0		A	58018779	A	A	58018779	3	1	4	1	0	0	0	0	1	0	0	0	18171	1174	41	4	1330	4	ZNF773	19	58018779	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	129638	58018779	1110204	4030	5996											
ZNF550	162972	broad.mit.edu	37	chr19	58059032	58059032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccctgcatgaatcaaggCgtctttccctggttgctgtg	5	14	11	11	1	2	1	1	1	1	0	4	1	4	1	2	2	2	3	2	2	2	2	rs78685508	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58059032C>T	uc002qpe.1	-	2	457	c.457G>A	c.(457-459)GCC>ACC	p.A153T	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF550_uc002qpc.2_RNA|ZNF550_uc010eue.1_RNA|ZNF550_uc002qpd.2_RNA	NM_001039654	NP_001034743	Q7Z398	ZN550_HUMAN	zinc finger protein 550	194					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGAATCAAGGCGTCTTTCCCT	0.488													9	190					0	0	0.004482	0	0		T	58059032	T	T	58059032	3	4	4	1	0	0	0	0	1	0	0	0	18007	768	27	1	692	1	ZNF550	19	58059032	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	40253	58059032	1069951	4031	5997											
ZNF550	162972	broad.mit.edu	37	chr19	58059290	58059290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccagagtcaggcttccccGgagaaaggcccgctcagata	10	7	11	13	2	2	3	2	0	0	3	4	4	4	3	4	3	0	2	4	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58059290G>A	uc002qpe.1	-	2	199	c.199C>T	c.(199-201)CGG>TGG	p.R67W	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF550_uc002qpc.2_RNA|ZNF550_uc010eue.1_RNA|ZNF550_uc002qpd.2_RNA	NM_001039654	NP_001034743	Q7Z398	ZN550_HUMAN	zinc finger protein 550	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AGGCTTCCCCGGAGAAAGGCC	0.517													26	92					0	0	0.002096	0	0		A	58059290	A	A	58059290	3	1	4	1	0	0	0	0	1	0	0	0	18007	1115	39	1	950	1	ZNF550	19	58059290	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	258	58059290	1069693	4032	5998											
ZNF416	55659	broad.mit.edu	37	chr19	58084160	58084160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtgtgagttctctggtgtCgaacaagagtggatttggac	8	13	14	6	1	1	2	0	1	1	1	3	5	1	4	0	3	1	1	0	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58084160C>T	uc002qpf.2	-	4	1283	c.1112G>A	c.(1111-1113)CGA>CAA	p.R371Q	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	371	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		TCTCTGGTGTCGAACAAGAGT	0.428													9	90					0	0	0.004482	0	0		T	58084160	T	T	58084160	3	4	4	1	0	0	0	0	1	0	0	0	17918	884	31	1	676	1	ZNF416	19	58084160	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24870	58084160	1044823	4033	5999											
ZNF551	90233	broad.mit.edu	37	chr19	58199015	58199015	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgggaaatcctttagaCaattctctaacctcattcga	13	13	6	9	1	2	1	1	0	1	1	5	3	3	2	2	1	1	0	2	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58199015C>T	uc002qpw.3	+	3	1547	c.1324C>T	c.(1324-1326)CAA>TAA	p.Q442*	ZNF551_uc002qpv.3_Nonsense_Mutation_p.Q385*|ZNF776_uc002qpx.2_Intron	NM_138347	NP_612356	Q7Z340	ZN551_HUMAN	zinc finger protein 551	458	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		ATCCTTTAGACAATTCTCTAA	0.418													19	93					0	0	0.007413	0	0		T	58199015	T	T	58199015	4	4	4	1	0	0	0	0	0	1	0	0	18008	479	17	4	1334	4	ZNF551	19	58199015	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	114855	58199015	929968	4034	6000											
ZNF329	79673	broad.mit.edu	37	chr19	58639657	58639657	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cactctcgatgaaagtcttgCcacattctttacattcatag	11	14	5	11	1	4	1	1	1	3	0	5	2	4	1	1	0	2	0	1	0	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58639657C>T	uc002qrn.2	-	4	1451	c.1214G>A	c.(1213-1215)GGC>GAC	p.G405D	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	405	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		GAAAGTCTTGCCACATTCTTT	0.463													11	56					0	0	0.001855	0	0		T	58639657	T	T	58639657	3	4	4	1	0	0	0	0	1	0	0	0	17872	739	26	2	415	2	ZNF329	19	58639657	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	440642	58639657	489326	4035	6001											
ZNF329	79673	broad.mit.edu	37	chr19	58640244	58640244	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttccgtttgaagcatttGccacattcagtacatctata	11	14	7	9	1	2	1	1	1	1	0	3	2	3	1	2	0	3	4	2	0	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58640244G>A	uc002qrn.2	-	4	864	c.627C>T	c.(625-627)GGC>GGT	p.G209G	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	209	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		TGAAGCATTTGCCACATTCAG	0.403													5	141					0	0	0.00308	0	0		A	58640244	A	A	58640244	2	1	4	1	0	0	0	0	0	0	0	1	17872	1306	46	2		2	ZNF329	19	58640244	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	587	58640244	488739	4036	6002											
ZNF274	10782	broad.mit.edu	37	chr19	58724308	58724308	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgaggactcacactggCgctaagccctacaagtgtca	11	7	9	14	1	2	1	2	1	0	0	2	2	2	2	2	2	2	1	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58724308C>T	uc002qrq.1	+	10	2220	c.1761C>T	c.(1759-1761)GGC>GGT	p.G587G	ZNF274_uc002qrr.1_Silent_p.G555G|ZNF274_uc002qrs.1_Silent_p.G482G|ZNF274_uc010eum.1_Silent_p.G346G	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	587					viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		CTCACACTGGCGCTAAGCCCT	0.547													7	64					0	0	0.001984	0	0		T	58724308	T	T	58724308	2	4	4	1	0	0	0	0	0	0	0	1	17834	755	27	1		1	ZNF274	19	58724308	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	84064	58724308	404675	4037	6003											
DEFB129	140881	broad.mit.edu	37	chr20	210132	210132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgccaagaattctagtgCtgtgatacaaagaaaacata	17	9	7	8	0	1	3	0	1	1	2	1	3	1	3	2	0	4	1	2	0	8	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:210132C>T	uc002wda.2	+	2	277	c.272C>T	c.(271-273)GCT>GTT	p.A91V		NM_080831	NP_543021	Q9H1M3	DB129_HUMAN	beta defensin 129 precursor	91					defense response to bacterium	extracellular region				ovary(1)	1		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			AATTCTAGTGCTGTGATACAA	0.353													4	101					0	0	0.009096	0	0		T	210132	T	T	210132	3	4	4	1	0	0	0	0	1	0	0	0	4420	797	28	2	278	2	DEFB129	20	210132	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08		210132	62815388	4038	6004											
C20orf96	140680	broad.mit.edu	37	chr20	257710	257710	+	Missense_Mutation	SNP	T	G	G																															ccacagaactcagaatttttTtcttcttcttctgaatcttg																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:257710T>G	uc002wde.1	-	8	939	c.800A>C	c.(799-801)AAA>ACA	p.K267T	C20orf96_uc002wdc.2_Missense_Mutation_p.K214T|C20orf96_uc002wdd.2_Missense_Mutation_p.K232T|C20orf96_uc010zpi.1_Missense_Mutation_p.K214T|C20orf96_uc010zpj.1_Missense_Mutation_p.K232T|C20orf96_uc010zpk.1_Missense_Mutation_p.K205T	NM_153269	NP_695001	Q9NUD7	CT096_HUMAN	hypothetical protein LOC140680	267	Poly-Lys.|Potential.										0		all_cancers(10;0.00959)|Lung NSC(37;0.227)	OV - Ovarian serous cystadenocarcinoma(29;0.149)			CAGAATTTTTTTCTTCTTCTT	0.562													13	246					0	0	0.006122	0	0		G	257710	G	G	257710	3	3	4	1	0	0	0	0	1	0	0	0	2125	1841	64	5	307	5	C20orf96	20	257710	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	47578	257710	62767810	4039	6005	11	2									
C20orf96	140680	broad.mit.edu	37	chr20	257712	257712	+	Silent	SNP	C	T	T																															acagaactcagaatttttttCttcttcttctgaatcttgtc																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:257712C>T	uc002wde.1	-	8	937	c.798G>A	c.(796-798)AAG>AAA	p.K266K	C20orf96_uc002wdc.2_Silent_p.K213K|C20orf96_uc002wdd.2_Silent_p.K231K|C20orf96_uc010zpi.1_Silent_p.K213K|C20orf96_uc010zpj.1_Silent_p.K231K|C20orf96_uc010zpk.1_Silent_p.K204K	NM_153269	NP_695001	Q9NUD7	CT096_HUMAN	hypothetical protein LOC140680	266	Poly-Lys.|Potential.										0		all_cancers(10;0.00959)|Lung NSC(37;0.227)	OV - Ovarian serous cystadenocarcinoma(29;0.149)			GAATTTTTTTCTTCTTCTTCT	0.557													8	252					0	0	0.001855	0	0		T	257712	T	T	257712	2	4	4	1	0	0	0	0	0	0	0	1	2125	912	32	4		4	C20orf96	20	257712	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2	257712	62767808	4040	6006	11	2									
C20orf54	113278	broad.mit.edu	37	chr20	745857	745857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgatgctgggtacctgtgCgatgtcagtctccctcgtgg	4	12	15	10	2	2	1	1	1	1	0	4	2	2	1	2	3	3	2	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:745857C>T	uc002wed.3	-	2	901	c.562G>A	c.(562-564)GCA>ACA	p.A188T	C20orf54_uc002wee.2_Missense_Mutation_p.A188T	NM_033409	NP_212134	Q9NQ40	RFT2_HUMAN	hypothetical protein LOC113278 precursor	188					sensory perception of sound	integral to plasma membrane	riboflavin transporter activity			ovary(2)	2						GGTACCTGTGCGATGTCAGTC	0.433													7	58					0	0	0.001984	0	0		T	745857	T	T	745857	3	4	4	1	0	0	0	0	1	0	0	0	2117	768	27	1	863	1	C20orf54	20	745857	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	488145	745857	62279663	4041	6007											
PSMF1	9491	broad.mit.edu	37	chr20	1145099	1145099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgctttgacccctttggacCcattgggaccagcccacccg	6	9	9	17	2	0	1	0	1	0	0	1	3	0	3	6	2	1	1	6	2	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:1145099C>T	uc002wel.3	+	7	911	c.743C>T	c.(742-744)CCC>CTC	p.P248L	PSMF1_uc010zpo.1_Missense_Mutation_p.P160L|PSMF1_uc002wem.3_Missense_Mutation_p.P248L|PSMF1_uc010zpp.1_Missense_Mutation_p.P186L|PSMF1_uc002wen.3_Missense_Mutation_p.P248L|PSMF1_uc002wep.3_Missense_Mutation_p.P199L	NM_178578	NP_848693	Q92530	PSMF1_HUMAN	proteasome inhibitor subunit 1	248	Pro-rich.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome core complex	endopeptidase inhibitor activity|protein binding				0						CCCTTTGGACCCATTGGGACC	0.483													4	146					0	0	0.001168	0	0		T	1145099	T	T	1145099	3	4	4	1	0	0	0	0	1	0	0	0	12732	623	22	4	765	4	PSMF1	20	1145099	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	399242	1145099	61880421	4042	6008											
SNPH	9751	broad.mit.edu	37	chr20	1277814	1277814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctccacctgtgagcgtgCgggatgcctacggcacctct	5	9	11	16	3	2	1	0	1	2	0	3	2	2	2	5	2	4	1	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:1277814C>T	uc002wes.2	+	4	312	c.76C>T	c.(76-78)CGG>TGG	p.R26W	SNPH_uc002wet.2_Missense_Mutation_p.R70W	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	26					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						TGTGAGCGTGCGGGATGCCTA	0.637													6	24					0	0	0.004482	0	0		T	1277814	T	T	1277814	3	4	4	1	0	0	0	0	1	0	0	0	14875	759	27	1	82	1	SNPH	20	1277814	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	132715	1277814	61747706	4043	6009											
SIRPB2	284759	broad.mit.edu	37	chr20	1459011	1459011	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgcatcctcactggagacGttttgcagaagaatgctgaa	11	10	10	10	1	1	4	1	1	0	3	2	5	2	4	2	1	3	4	2	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:1459011G>A	uc002wfg.2	-	3	921	c.693C>T	c.(691-693)AAC>AAT	p.N231N	SIRPB2_uc002wfh.3_Silent_p.N133N|SIRPB2_uc010zpr.1_Silent_p.N93N	NM_001122962	NP_001116434	Q5JXA9	SIRB2_HUMAN	signal-regulatory protein beta 2 isoform 1	231	Ig-like V-type 2.|Extracellular (Potential).					integral to membrane					0						CACTGGAGACGTTTTGCAGAA	0.522													12	102					0	0	0.004007	0	0		A	1459011	A	A	1459011	2	1	4	1	0	0	0	0	0	0	0	1	14359	1136	40	1		1	SIRPB2	20	1459011	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	181197	1459011	61566509	4044	6010											
SIRPB1	10326	broad.mit.edu	37	chr20	1558987	1558987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccacgctgtactcaccgcGcacagacagctcagtgcctg	8	6	10	17	3	2	1	2	0	0	1	2	1	2	1	3	0	3	4	3	0	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:1558987G>A	uc010gai.2	-	2	529	c.430C>T	c.(430-432)CGC>TGC	p.R144C	SIRPB1_uc002wfk.3_Missense_Mutation_p.R144C	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	144	Extracellular (Potential).				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						TACTCACCGCGCACAGACAGC	0.552													20	110					0	0	0.010504	0	0		A	1558987	A	A	1558987	3	1	4	1	0	0	0	0	1	0	0	0	14358	1087	38	1	782	1	SIRPB1	20	1558987	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	99976	1558987	61466533	4045	6011											
SIRPG	55423	broad.mit.edu	37	chr20	1616842	1616842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggtcctctacctcggatgGcctcagacaagttggcagtc	8	9	12	12	1	2	1	1	0	1	1	5	2	3	2	3	4	1	2	3	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:1616842G>A	uc002wfm.1	-	3	805	c.740C>T	c.(739-741)GCC>GTC	p.A247V	SIRPG_uc002wfn.1_Missense_Mutation_p.A247V|SIRPG_uc002wfo.1_Intron|uc002wfp.1_Intron	NM_018556	NP_061026	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma isoform 1	247	Extracellular (Potential).				blood coagulation|cell adhesion|cell junction assembly|cell-cell signaling|intracellular signal transduction|leukocyte migration|negative regulation of cell proliferation|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to membrane|intracellular|plasma membrane	protein binding			ovary(1)	1						ACCTCGGATGGCCTCAGACAA	0.627													9	60					0	0	0.006214	0	0		A	1616842	A	A	1616842	3	1	4	1	0	0	0	0	1	0	0	0	14361	1203	42	2	435	2	SIRPG	20	1616842	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	57855	1616842	61408678	4046	6012											
STK35	140901	broad.mit.edu	37	chr20	2097969	2097969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgctaacccacaggaccGgcctgatgcctttgaacttg	9	9	10	13	1	0	2	0	2	0	0	0	3	0	3	4	2	5	2	4	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2097969G>A	uc010gak.2	+	3	1550	c.1550G>A	c.(1549-1551)CGG>CAG	p.R517Q	STK35_uc010zpu.1_Intron|STK35_uc002wfw.3_Missense_Mutation_p.R384Q	NM_080836	NP_543026	Q8TDR2	STK35_HUMAN	serine/threonine kinase 35	517	Protein kinase.					cytoplasm|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CCACAGGACCGGCCTGATGCC	0.473													12	146					0	0	0.001368	0	0		A	2097969	A	A	2097969	3	1	4	1	0	0	0	0	1	0	0	0	15326	1116	39	1	1560	1	STK35	20	2097969	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	481127	2097969	60927551	4047	6013											
TGM3	7053	broad.mit.edu	37	chr20	2312868	2312868	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgaagacagtgacagtgaaCatgacagcctggaccatcat	15	6	10	10	1	1	4	1	3	0	1	1	6	1	5	2	1	2	0	2	1	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2312868C>T	uc002wfx.3	+	10	1651	c.1554C>T	c.(1552-1554)AAC>AAT	p.N518N		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	518					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	TGACAGTGAACATGACAGCCT	0.532													5	44					0	0	0.000602	0	0		T	2312868	T	T	2312868	2	4	4	1	0	0	0	0	0	0	0	1	15856	477	17	4		4	TGM3	20	2312868	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	214899	2312868	60712652	4048	6014											
SNRPB	6628	broad.mit.edu	37	chr20	2442418	2442418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtctagggccttggtgggCgcattcccgggggagggggc	4	7	21	9	2	1	0	0	0	1	0	2	2	2	1	2	7	0	1	2	7	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2442418C>T	uc002wfz.1	-	7	870	c.707G>A	c.(706-708)CGC>CAC	p.R236H	SNRPB_uc002wga.1_3'UTR|SNRPB_uc010zpv.1_3'UTR|SNRPB_uc002wgb.2_3'UTR	NM_198216	NP_937859	P14678	RSMB_HUMAN	small nuclear ribonucleoprotein polypeptide B/B'	236	Repeat-rich region.|				histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	protein binding|protein binding|RNA binding			ovary(1)	1						CCTTGGTGGGCGCATTCCCGG	0.542													10	41					0	0	0.000978	0	0		T	2442418	T	T	2442418	3	4	4	1	0	0	0	0	1	0	0	0	14886	768	27	1	19	1	SNRPB	20	2442418	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	129550	2442418	60583102	4049	6015											
TMC2	117532	broad.mit.edu	37	chr20	2621828	2621828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggccatggacaagaaggCgcagggccctgggacctcca	10	3	14	14	1	0	1	0	0	0	1	1	3	1	3	5	5	0	1	5	5	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2621828C>T	uc002wgf.1	+	20	2567	c.2552C>T	c.(2551-2553)GCG>GTG	p.A851V	TMC2_uc002wgg.1_Missense_Mutation_p.A835V	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	851	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						GACAAGAAGGCGCAGGGCCCT	0.567													8	76					0	0	0.006214	0	0		T	2621828	T	T	2621828	3	4	4	1	0	0	0	0	1	0	0	0	16010	768	27	1	2630	1	TMC2	20	2621828	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	179410	2621828	60403692	4050	6016											
C20orf141	128653	broad.mit.edu	37	chr20	2796188	2796188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctctctctccacaggcccGcaggtcacactctgccacag	7	7	7	20	1	4	0	1	0	3	0	6	0	4	0	4	2	1	1	4	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2796188G>A	uc010gat.2	+	3	348	c.265G>A	c.(265-267)GCA>ACA	p.A89T	C20orf141_uc002wgv.1_Intron|C20orf141_uc002wgw.2_Missense_Mutation_p.A89T|uc002wgx.1_5'Flank|uc002wgy.1_5'Flank	NM_080739	NP_542777	Q9NUB4	CT141_HUMAN	hypothetical protein LOC128653	89	Leu-rich.					integral to membrane					0						CCACAGGCCCGCAGGTCACAC	0.632													11	28					0	0	0.001368	0	0		A	2796188	A	A	2796188	3	1	4	1	0	0	0	0	1	0	0	0	2092	1087	38	1	271	1	C20orf141	20	2796188	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	174360	2796188	60229332	4051	6017											
FAM113A	64773	broad.mit.edu	37	chr20	2818955	2818955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcaggtgtgagaggtggCggtgtgcatgctggtcccag	7	8	19	7	1	0	1	0	1	0	1	1	3	1	1	1	5	3	3	1	5	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2818955C>T	uc002wgz.1	-	6	1261	c.764G>A	c.(763-765)CGC>CAC	p.R255H	FAM113A_uc002whb.1_Missense_Mutation_p.R106H|FAM113A_uc002wha.1_Missense_Mutation_p.R106H|FAM113A_uc010zqa.1_Missense_Mutation_p.R102H|FAM113A_uc002whc.1_Missense_Mutation_p.R204H|VPS16_uc002whe.2_5'Flank|VPS16_uc002whf.2_5'Flank|VPS16_uc002whd.2_5'Flank	NM_022760	NP_073597	Q9H1Q7	F113A_HUMAN	hypothetical protein LOC64773	255	His-rich.						hydrolase activity|protein binding			ovary(2)	2						TGAGAGGTGGCGGTGTGCATG	0.617													9	51					0	0	0.001368	0	0		T	2818955	T	T	2818955	3	4	4	1	0	0	0	0	1	0	0	0	5412	768	27	1	612	1	FAM113A	20	2818955	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	22767	2818955	60206565	4052	6018											
VPS16	64601	broad.mit.edu	37	chr20	2840446	2840446	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgctgcaccctatgggggCcccattggtatgttgcccct	4	11	12	14	0	0	0	0	0	0	0	0	0	0	0	5	3	3	5	5	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2840446C>T	uc002whe.2	+	2	183	c.135C>T	c.(133-135)GGC>GGT	p.G45G	VPS16_uc002whf.2_Silent_p.G45G|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	45					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						CCTATGGGGGCCCCATTGGTA	0.572													42	134					0	0	0.003214	0	0		T	2840446	T	T	2840446	2	4	4	1	0	0	0	0	0	0	0	1	17219	726	26	2		2	VPS16	20	2840446	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	21491	2840446	60185074	4053	6019											
VPS16	64601	broad.mit.edu	37	chr20	2844008	2844008	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccttcctgaagtacagggCgtcagcaggatcctggccca	8	7	12	14	2	1	1	1	1	0	0	3	2	3	2	4	3	2	2	4	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2844008C>T	uc002whe.2	+	15	1488	c.1440C>T	c.(1438-1440)GGC>GGT	p.G480G	VPS16_uc002whh.2_RNA|PTPRA_uc002whj.2_5'Flank|VPS16_uc002whf.2_Silent_p.G336G|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_Silent_p.G166G|VPS16_uc002whi.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	480					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						AAGTACAGGGCGTCAGCAGGA	0.582													5	92					0	0	0.000602	0	0		T	2844008	T	T	2844008	2	4	4	1	0	0	0	0	0	0	0	1	17219	755	27	1		1	VPS16	20	2844008	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3562	2844008	60181512	4054	6020											
PTPRA	5786	broad.mit.edu	37	chr20	2945651	2945651	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccaaatataactctgggacCcacctatttaaccactgtca	13	10	4	14	0	2	0	1	0	1	0	2	1	2	1	4	1	2	0	4	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2945651C>T	uc010zqb.1	+	5	611	c.218C>T	c.(217-219)CCC>CTC	p.P73L	PTPRA_uc002whj.2_Missense_Mutation_p.P73L|PTPRA_uc010zqc.1_Intron|PTPRA_uc002whk.2_Missense_Mutation_p.P73L|PTPRA_uc010zqd.1_Missense_Mutation_p.P84L|PTPRA_uc002whl.2_Missense_Mutation_p.P73L|PTPRA_uc002whm.2_5'UTR|PTPRA_uc002whn.2_Missense_Mutation_p.P73L			P18433	PTPRA_HUMAN	SubName: Full=cDNA FLJ60525, highly similar to Receptor-type tyrosine-protein phosphatase alpha (EC 3.1.3.48);	73	Extracellular (Potential).				axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1						ACTCTGGGACCCACCTATTTA	0.418													11	158					0	0	0.001368	0	0		T	2945651	T	T	2945651	3	4	4	1	0	0	0	0	1	0	0	0	12820	623	22	4	224	4	PTPRA	20	2945651	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	101643	2945651	60079869	4055	6021											
AVP	551	broad.mit.edu	37	chr20	3065221	3065221	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctcagctccaggtcggAcatggccctcttgccgcccc	4	9	10	18	2	2	0	1	0	2	0	5	1	3	1	5	3	2	1	5	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3065221A>C	uc002whu.2	-	1	150	c.100T>G	c.(100-102)TCC>GCC	p.S34A		NM_000490	NP_000481	P01185	NEU2_HUMAN	arginine vasopressin-neurophysin II	34					cell-cell signaling|ERK1 and ERK2 cascade|generation of precursor metabolites and energy|negative regulation of apoptosis|negative regulation of release of cytochrome c from mitochondria|positive regulation of gene expression|positive regulation of peptidyl-serine phosphorylation|protein kinase C signaling cascade|sodium-independent organic anion transport|transmembrane transport|vasoconstriction|water transport	cytosol|soluble fraction	caspase inhibitor activity|neurohypophyseal hormone activity|protein kinase activity|signal transducer activity|V1A vasopressin receptor binding				0				COAD - Colon adenocarcinoma(99;0.00643)		TCCAGGTCGGACATGGCCCTC	0.642													7	136					0	0	0.004482	0	0		C	3065221	C	C	3065221	3	2	4	1	0	0	0	0	1	0	0	0	1230	275	10	5	406	5	AVP	20	3065221	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	119570	3065221	59960299	4056	6022											
FASTKD5	60493	broad.mit.edu	37	chr20	3128084	3128084	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctctgctaaataccacaGcaattcagacccctcttgct	10	12	4	15	0	3	1	1	0	2	1	4	1	3	1	3	0	4	3	3	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3128084G>A	uc002whz.2	-	2	1944	c.1633C>T	c.(1633-1635)CTG>TTG	p.L545L	uc002whv.1_Intron|UBOX5_uc002whw.2_Intron|UBOX5_uc002whx.2_Intron|UBOX5_uc002why.1_Intron	NM_021826	NP_068598	Q7L8L6	FAKD5_HUMAN	FAST kinase domains 5	545					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity				0						AAATACCACAGCAATTCAGAC	0.453													8	91					0	0	0.004482	0	0		A	3128084	A	A	3128084	2	1	4	1	0	0	0	0	0	0	0	1	5702	962	34	2		2	FASTKD5	20	3128084	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	62863	3128084	59897436	4057	6023											
SLC4A11	83959	broad.mit.edu	37	chr20	3209061	3209061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctccggatgtagtgtgtcGgggggtacgcagtctgtggg	4	10	18	9	3	1	0	0	0	1	0	3	1	2	1	2	5	1	3	2	5	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3209061G>A	uc002wig.2	-	18	2498	c.2450C>T	c.(2449-2451)CCG>CTG	p.P817L	SLC4A11_uc010zqe.1_Missense_Mutation_p.P844L|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.P801L	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	817	Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						GTAGTGTGTCGGGGGGTACGC	0.672													10	58					0	0	0.008291	0	0		A	3209061	A	A	3209061	3	1	4	1	0	0	0	0	1	0	0	0	14677	1116	39	1	233	1	SLC4A11	20	3209061	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	80977	3209061	59816459	4058	6024											
SLC4A11	83959	broad.mit.edu	37	chr20	3210034	3210034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgatgagggagaaggCgagcaccgcgatgggcaggg	10	3	21	7	3	0	3	0	2	0	1	0	7	0	4	1	5	2	3	1	5	1	0	rs138262189		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3210034C>T	uc002wig.2	-	14	1903	c.1855G>A	c.(1855-1857)GCC>ACC	p.A619T	SLC4A11_uc010zqe.1_Missense_Mutation_p.A646T|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.A603T	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	619	Membrane (bicarbonate transporter).|Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						AGGGAGAAGGCGAGCACCGCG	0.662													4	42					0	0	0.000602	0	0		T	3210034	T	T	3210034	3	4	4	1	0	0	0	0	1	0	0	0	14677	768	27	1	844	1	SLC4A11	20	3210034	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	973	3210034	59815486	4059	6025											
SLC4A11	83959	broad.mit.edu	37	chr20	3212106	3212106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgaattcctcctctgtgCgggtctccaggagcttctgg	4	13	11	13	1	3	1	0	1	3	0	6	2	5	2	4	3	2	1	4	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3212106C>T	uc002wig.2	-	7	914	c.866G>A	c.(865-867)CGC>CAC	p.R289H	SLC4A11_uc010zqe.1_Missense_Mutation_p.R316H|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.R273H	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	289	Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						CTCCTCTGTGCGGGTCTCCAG	0.592													6	79					0	0	0.004482	0	0		T	3212106	T	T	3212106	3	4	4	1	0	0	0	0	1	0	0	0	14677	768	27	1	1861	1	SLC4A11	20	3212106	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2072	3212106	59813414	4060	6026											
SLC4A11	83959	broad.mit.edu	37	chr20	3214613	3214613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcacccctgtcactgtggCggtgaccccttggatggtat	5	10	12	14	2	1	1	1	1	0	0	1	2	1	2	5	4	0	2	5	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3214613C>T	uc002wig.2	-	5	655	c.607G>A	c.(607-609)GCC>ACC	p.A203T	SLC4A11_uc010zqe.1_Missense_Mutation_p.A230T|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.A187T	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	203	Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						GTCACTGTGGCGGTGACCCCT	0.647													8	69					0	0	0.000978	0	0		T	3214613	T	T	3214613	3	4	4	1	0	0	0	0	1	0	0	0	14677	768	27	1	2128	1	SLC4A11	20	3214613	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2507	3214613	59810907	4061	6027											
ATRN	8455	broad.mit.edu	37	chr20	3528132	3528132	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgctcctgcttctcagactgGcagggtaggagcttctttca	6	13	11	11	0	3	1	2	0	2	1	5	2	4	2	1	3	3	5	1	3	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3528132G>A	uc002wim.2	+	5	1029	c.939G>A	c.(937-939)TGG>TGA	p.W313*	ATRN_uc002wil.2_Nonsense_Mutation_p.W313*	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	313	Extracellular (Potential).				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						TCTCAGACTGGCAGGGTAGGA	0.373													12	68					0	0	0.001368	0	0		A	3528132	A	A	3528132	4	1	4	1	0	0	0	0	0	1	0	0	1207	1212	42	2	957	2	ATRN	20	3528132	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	313519	3528132	59497388	4062	6028											
ATRN	8455	broad.mit.edu	37	chr20	3584894	3584894	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatgtcagtaatttcacctgGcccatcaaaattcaggtaag	13	12	7	9	0	4	0	4	0	0	0	4	0	4	0	2	2	0	2	2	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3584894G>A	uc002wim.2	+	24	3876	c.3786G>A	c.(3784-3786)TGG>TGA	p.W1262*	ATRN_uc002wil.2_Nonsense_Mutation_p.W1262*	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	1262	Extracellular (Potential).				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						ATTTCACCTGGCCCATCAAAA	0.363													13	61					0	0	0.00245	0	0		A	3584894	A	A	3584894	4	1	4	1	0	0	0	0	0	1	0	0	1207	1212	42	2	3880	2	ATRN	20	3584894	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	56762	3584894	59440626	4063	6029											
SIGLEC1	6614	broad.mit.edu	37	chr20	3678463	3678463	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctggccattgaaggtggCtgaggtggaggcgttgccca	7	8	16	10	1	0	2	0	2	0	0	0	3	0	3	3	6	1	2	3	6	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3678463C>A	uc002wja.2	-	8	2104	c.2104G>T	c.(2104-2106)GCC>TCC	p.A702S	SIGLEC1_uc002wiz.3_Missense_Mutation_p.A702S	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	702	Ig-like C2-type 6.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						TTGAAGGTGGCTGAGGTGGAG	0.612													9	35					2.17888e-05	2.29724e-05	0.006214	1	0		A	3678463	A	A	3678463	3	1	4	1	0	0	0	0	1	0	0	0	14330	797	28	5	3081	5	SIGLEC1	20	3678463	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	93569	3678463	59347057	4064	6030											
SIGLEC1	6614	broad.mit.edu	37	chr20	3683963	3683963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccggagggtatgggagtggGcatcctccagcaggacatgg	8	6	18	9	1	0	0	0	0	0	0	2	3	2	3	3	6	1	3	3	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3683963G>A	uc002wja.2	-	5	1109	c.1109C>T	c.(1108-1110)GCC>GTC	p.A370V	SIGLEC1_uc002wiz.3_Missense_Mutation_p.A370V|SIGLEC1_uc002wjc.2_Missense_Mutation_p.A281V	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	370	Extracellular (Potential).|Ig-like C2-type 3.				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						ATGGGAGTGGGCATCCTCCAG	0.582													4	57					0	0	0.000602	0	0		A	3683963	A	A	3683963	3	1	4	1	0	0	0	0	1	0	0	0	14330	1203	42	2	4088	2	SIGLEC1	20	3683963	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5500	3683963	59341557	4065	6031											
MAVS	57506	broad.mit.edu	37	chr20	3846580	3846580	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacctttgggatccacgTggctgagaaccccagcatcc	8	7	12	14	1	0	1	0	1	0	1	2	3	2	2	5	3	2	3	5	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3846580T>C	uc002wjw.3	+	7	1578	c.1409T>C	c.(1408-1410)GTG>GCG	p.V470A	MAVS_uc002wjx.3_Missense_Mutation_p.V329A|MAVS_uc002wjy.3_Missense_Mutation_p.V168A	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	470	Cytoplasmic (Probable).				activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0						GGGATCCACGTGGCTGAGAAC	0.647													7	41					0	0	0.00308	0	0		C	3846580	C	C	3846580	3	2	4	1	0	0	0	0	1	0	0	0	9356	1696	59	3	1431	3	MAVS	20	3846580	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	162617	3846580	59178940	4066	6032											
ADRA1D	146	broad.mit.edu	37	chr20	4202178	4202178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctctggggtccttaaatatCggtctcccgtaggttgctgt	5	14	12	10	2	2	0	0	0	2	0	5	0	3	0	2	4	1	4	2	4	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:4202178C>T	uc002wkr.2	-	2	1766	c.1711G>A	c.(1711-1713)GAT>AAT	p.D571N		NM_000678	NP_000669	P25100	ADA1D_HUMAN	alpha-1D-adrenergic receptor	571	Cytoplasmic (By similarity).			KPPSAFREWRLLGPFRRPTTQLRAKVSSLSHKIRAGGAQRA EAACAQRSEVEAVSLGVPHEVAEGATCQAYELADYSNLRET DI -> SHPAPSASGGCWGRSGDPRPSCAPKSPACRTRSPP GARSAQRQRAPSAQRWRLCP (in Ref. 1).	cell proliferation|cell-cell signaling|DNA metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|multicellular organismal development|positive regulation of cell proliferation	integral to plasma membrane	alpha1-adrenergic receptor activity				0					Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Methotrimeprazine(DB01403)|Norepinephrine(DB00368)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)	CCTTAAATATCGGTCTCCCGT	0.637											OREG0025743	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	46					0	0	0.001855	0	0		T	4202178	T	T	4202178	3	4	4	1	0	0	0	0	1	0	0	0	336	884	31	1	11	1	ADRA1D	20	4202178	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	355598	4202178	58823342	4067	6033											
PRNP	5621	broad.mit.edu	37	chr20	4680430	4680430	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcacaatcaagcagcacacGgtcaccacaaccaccaaggg	16	3	7	15	1	3	0	3	0	0	0	3	0	3	0	3	2	3	2	3	2	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:4680430G>A	uc002wku.2	+	2	927	c.564G>A	c.(562-564)ACG>ACA	p.T188T	PRNP_uc002wkv.2_Silent_p.T188T|PRNP_uc002wkw.2_Silent_p.T188T|PRNP_uc002wkx.2_Silent_p.T188T|PRNP_uc002wkt.1_Silent_p.T158T|PRNP_uc002wky.2_Silent_p.T188T|PRNP_uc010gbe.1_Silent_p.T188T	NM_001080122	NP_001073591	P04156	PRIO_HUMAN	prion protein preproprotein	188	Interaction with GRB2, ERI3 and SYN1 (By similarity).		T -> K (in early-onset dementia; dementia associated to prion diseases).|T -> R.		axon guidance|cell cycle arrest|cellular copper ion homeostasis|metabolic process|negative regulation of activated T cell proliferation|negative regulation of calcineurin-NFAT signaling pathway|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-2 production|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell receptor signaling pathway|protein homooligomerization|response to oxidative stress	anchored to membrane|endoplasmic reticulum|extrinsic to membrane|Golgi apparatus|membrane raft|nucleus|plasma membrane	copper ion binding|identical protein binding|microtubule binding			central_nervous_system(1)	1					Tetracycline(DB00759)	AGCAGCACACGGTCACCACAA	0.517													19	92					0	0	0.00278	0	0		A	4680430	A	A	4680430	2	1	4	1	0	0	0	0	0	0	0	1	12566	1103	39	1		1	PRNP	20	4680430	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	478252	4680430	58345090	4068	6034											
SLC23A2	9962	broad.mit.edu	37	chr20	4842713	4842713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaactgcaggttagagaggCcaacagctgtgatcattcct	11	10	11	9	0	1	3	1	2	0	1	2	4	2	3	2	2	4	3	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:4842713C>T	uc002wlg.1	-	15	1880	c.1505G>A	c.(1504-1506)GGC>GAC	p.G502D	SLC23A2_uc010zqr.1_Missense_Mutation_p.G387D|SLC23A2_uc002wlh.1_Missense_Mutation_p.G502D	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	502	Helical; (Potential).				L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						GTTAGAGAGGCCAACAGCTGT	0.507													19	95					0	0	0.010504	0	0		T	4842713	T	T	4842713	3	4	4	1	0	0	0	0	1	0	0	0	14488	739	26	2	459	2	SLC23A2	20	4842713	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	162283	4842713	58182807	4069	6035											
HAO1	54363	broad.mit.edu	37	chr20	7886883	7886883	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccagctgatagatgggtcTattgctttagccacatatgc	9	13	9	10	0	1	2	0	1	1	1	2	2	2	2	2	1	4	2	2	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:7886883T>G	uc002wmw.1	-	4	663	c.639A>C	c.(637-639)ATA>ATC	p.I213I	HAO1_uc010gbu.2_Silent_p.I213I	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	213	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						TAGATGGGTCTATTGCTTTAG	0.383													5	148					0	0	0.000602	0	0		G	7886883	G	G	7886883	2	3	4	1	0	0	0	0	0	0	0	1	6967	1512	53	5		5	HAO1	20	7886883	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	3044170	7886883	55138637	4070	6036											
PLCB1	23236	broad.mit.edu	37	chr20	8626776	8626776	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaatgaggttttcagtttgGcaacaaacctgctggcccaa	12	10	9	10	0	1	1	1	1	0	0	1	1	1	1	2	3	3	4	2	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:8626776G>A	uc002wnb.2	+	5	415	c.412G>A	c.(412-414)GCA>ACA	p.A138T	PLCB1_uc010zrb.1_Missense_Mutation_p.A37T|PLCB1_uc010gbv.1_Missense_Mutation_p.A138T|PLCB1_uc002wmz.1_Missense_Mutation_p.A138T|PLCB1_uc002wna.2_Missense_Mutation_p.A138T|PLCB1_uc002wnc.1_Missense_Mutation_p.A37T	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	138					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TTTCAGTTTGGCAACAAACCT	0.398													4	74					0	0	0.000602	0	0		A	8626776	A	A	8626776	3	1	4	1	0	0	0	0	1	0	0	0	12046	1203	42	2	430	2	PLCB1	20	8626776	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	739893	8626776	54398744	4071	6037											
PLCB1	23236	broad.mit.edu	37	chr20	8703032	8703032	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggaaagtgacgacgacgaTgatgatgatgactgtaaaaa	17	7	12	5	4	0	5	0	5	0	0	0	9	0	6	0	1	0	1	0	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:8703032T>C	uc002wnb.2	+	15	1548	c.1545T>C	c.(1543-1545)GAT>GAC	p.D515D	PLCB1_uc010zrb.1_Silent_p.D414D|PLCB1_uc002wna.2_Silent_p.D515D|PLCB1_uc002wnc.1_Silent_p.D414D|PLCB1_uc002wnd.1_Silent_p.D92D	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	515					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						ACGACGACGATGATGATGATG	0.423													4	148					0	0	0.000602	0	0		C	8703032	C	C	8703032	2	2	4	1	0	0	0	0	0	0	0	1	12046	1461	51	3		3	PLCB1	20	8703032	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	76256	8703032	54322488	4072	6038											
PLCB4	5332	broad.mit.edu	37	chr20	9360803	9360803	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctgatgaagatttgaagAaaaaaggtaataaacatgaa	22	8	8	3	0	0	6	0	4	0	2	0	6	0	6	1	1	2	1	1	1	10	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:9360803A>G	uc002wnf.2	+	12	983	c.847A>G	c.(847-849)AAA>GAA	p.K283E	PLCB4_uc010gbw.1_Missense_Mutation_p.K283E|PLCB4_uc010gbx.2_Missense_Mutation_p.K283E|PLCB4_uc002wne.2_Missense_Mutation_p.K283E|PLCB4_uc002wnh.2_Missense_Mutation_p.K130E	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	283					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						AGATTTGAAGAAAAAAGGTAA	0.299													5	65					0	0	0.001168	0	0		G	9360803	G	G	9360803	3	3	4	1	0	0	0	0	1	0	0	0	12049	247	9	3	885	3	PLCB4	20	9360803	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	657771	9360803	53664717	4073	6039											
PLCB4	5332	broad.mit.edu	37	chr20	9404483	9404483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggatcctcccgcttgatgGcctccaagccggatatcgac	8	8	11	14	3	0	1	0	1	0	0	4	5	3	3	5	3	1	1	5	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:9404483G>A	uc002wnf.2	+	26	2508	c.2372G>A	c.(2371-2373)GGC>GAC	p.G791D	PLCB4_uc010gbw.1_Missense_Mutation_p.G791D|PLCB4_uc010gbx.2_Missense_Mutation_p.G803D|PLCB4_uc002wne.2_Missense_Mutation_p.G791D|PLCB4_uc002wnh.2_Missense_Mutation_p.G638D	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	791					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						CCGCTTGATGGCCTCCAAGCC	0.438													5	53					0	0	0.000602	0	0		A	9404483	A	A	9404483	3	1	4	1	0	0	0	0	1	0	0	0	12049	1203	42	2	2506	2	PLCB4	20	9404483	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	43680	9404483	53621037	4074	6040											
PAK7	57144	broad.mit.edu	37	chr20	9546783	9546783	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggagccccagctgggCggcgggtaggtgctggatga	7	5	21	8	2	0	1	0	1	0	0	0	5	0	4	2	7	3	3	2	7	1	1	rs140739060	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:9546783C>T	uc002wnl.2	-	6	1784	c.1239G>A	c.(1237-1239)CCG>CCA	p.P413P	PAK7_uc002wnk.2_Silent_p.P413P|PAK7_uc002wnj.2_Silent_p.P413P|PAK7_uc010gby.1_Silent_p.P413P	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	413	Linker.						ATP binding|protein binding|protein serine/threonine kinase activity	p.P413L(1)		lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			CCCAGCTGGGCGGCGGGTAGG	0.657													12	45					0	0	0.00245	0	0		T	9546783	T	T	9546783	2	4	4	1	0	0	0	0	0	0	0	1	11424	755	27	1		1	PAK7	20	9546783	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	142300	9546783	53478737	4075	6041											
ANKRD5	63926	broad.mit.edu	37	chr20	10036276	10036276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagaacatcacagagaaaGctcgagcactggaagctgcc	16	4	11	10	1	1	3	1	0	0	3	2	6	1	4	1	1	5	3	1	1	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:10036276G>A	uc002wno.2	+	11	2692	c.2299G>A	c.(2299-2301)GCT>ACT	p.A767T	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Missense_Mutation_p.A767T|ANKRD5_uc010gbz.2_Missense_Mutation_p.A578T	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	767							calcium ion binding			ovary(1)|breast(1)	2						CACAGAGAAAGCTCGAGCACT	0.458													22	124					0	0	0.00278	0	0		A	10036276	A	A	10036276	3	1	4	1	0	0	0	0	1	0	0	0	676	971	34	2	2333	2	ANKRD5	20	10036276	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	489493	10036276	52989244	4076	6042											
MKKS	8195	broad.mit.edu	37	chr20	10393700	10393700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttacttgttaatatactacGcaccaaacaaaggaggatct	15	12	6	8	1	1	0	0	0	1	0	1	2	1	2	1	2	4	2	1	2	7	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:10393700G>A	uc002wnt.1	-	3	1350	c.463C>T	c.(463-465)CGT>TGT	p.R155C	MKKS_uc002wnu.1_Missense_Mutation_p.R155C|MKKS_uc010zrd.1_Intron	NM_018848	NP_061336	Q9NPJ1	MKKS_HUMAN	McKusick-Kaufman syndrome protein	155			R -> L (in BBS6; increases MKKS protein degradation only; localizes properly to the centrosome).		brain morphogenesis|cerebral cortex development|convergent extension involved in gastrulation|detection of mechanical stimulus involved in sensory perception of sound|fat cell differentiation|flagellum assembly|gonad development|heart looping|hippocampus development|intracellular transport|melanosome transport|photoreceptor cell maintenance|pigment granule aggregation in cell center|protein folding|regulation of cilium beat frequency involved in ciliary motility|sensory perception of smell|social behavior|spermatid development|striatum development	cytosol|microtubule organizing center|motile cilium	ATP binding|unfolded protein binding				0						AATATACTACGCACCAAACAA	0.423									Bardet-Biedl_syndrome				18	106					0	0	0.007413	0	0		A	10393700	A	A	10393700	3	1	4	1	0	0	0	0	1	0	0	0	9618	1087	38	1	1265	1	MKKS	20	10393700	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	357424	10393700	52631820	4077	6043											
C20orf94	128710	broad.mit.edu	37	chr20	10603861	10603861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagatttggcaaaaaccaCgtctaaggaagagttgcatg	16	8	10	7	1	1	2	0	0	1	2	1	3	1	3	1	2	2	3	1	2	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:10603861C>T	uc010zre.1	+	8	1241	c.1061C>T	c.(1060-1062)ACG>ATG	p.T354M		NM_001009608	NP_001009608	Q5VYV7	CT094_HUMAN	hypothetical protein LOC128710	354							protein binding				0						GCAAAAACCACGTCTAAGGAA	0.428													24	115					0	0	0.00333	0	0		T	10603861	T	T	10603861	3	4	4	1	0	0	0	0	1	0	0	0	2124	536	19	1	1087	1	C20orf94	20	10603861	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	210161	10603861	52421659	4078	6044											
JAG1	182	broad.mit.edu	37	chr20	10620233	10620233	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccagtttgggtgttttgtCggcgtgccgttggggggctt	1	15	18	7	3	0	0	0	0	0	0	2	0	1	0	2	5	1	4	2	5	0	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:10620233C>T	uc002wnw.2	-	26	4086	c.3570G>A	c.(3568-3570)CCG>CCA	p.P1190P		NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	1190	Cytoplasmic (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						GGTGTTTTGTCGGCGTGCCGT	0.542									Alagille_Syndrome				17	199					0	0	0.006122	0	0		T	10620233	T	T	10620233	2	4	4	1	0	0	0	0	0	0	0	1	7950	871	31	1		1	JAG1	20	10620233	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	16372	10620233	52405287	4079	6045											
TASP1	55617	broad.mit.edu	37	chr20	13604122	13604122	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccagtgctgcagtgactgCgtcagttgcaagagcaccgg	9	7	13	12	2	1	2	1	1	0	1	1	2	1	2	2	1	5	5	2	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:13604122C>T	uc002woi.2	-	4	370	c.253G>A	c.(253-255)GCA>ACA	p.A85T	TASP1_uc010zri.1_RNA|TASP1_uc002woh.2_Intron|TASP1_uc010zrj.1_RNA|TASP1_uc010zrk.1_Missense_Mutation_p.A85T	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	85					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						GCAGTGACTGCGTCAGTTGCA	0.363													10	31					0	0	0.007413	0	0		T	13604122	T	T	13604122	3	4	4	1	0	0	0	0	1	0	0	0	15614	768	27	1	1053	1	TASP1	20	13604122	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2983889	13604122	49421398	4080	6046											
ESF1	51575	broad.mit.edu	37	chr20	13763615	13763615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgctatggctaatggggcGccctcttttatccacggcat	7	12	11	11	2	1	0	0	0	1	0	2	0	2	0	2	4	1	3	2	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:13763615G>A	uc002woj.2	-	2	280	c.172C>T	c.(172-174)CGC>TGC	p.R58C	ESF1_uc002wok.1_Missense_Mutation_p.R58C|C20orf7_uc002wol.1_5'Flank|C20orf7_uc002wom.2_5'Flank|C20orf7_uc002won.2_5'Flank|C20orf7_uc002woo.2_5'Flank	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	58					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						CTAATGGGGCGCCCTCTTTTA	0.413													51	73					0	0	0.00361	0	0		A	13763615	A	A	13763615	3	1	4	1	0	0	0	0	1	0	0	0	5259	1087	38	1	2435	1	ESF1	20	13763615	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	159493	13763615	49261905	4081	6047											
SEL1L2	80343	broad.mit.edu	37	chr20	13839962	13839962	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagattgaacatggcttgCgcgttgtggtatttgttggc	6	14	14	7	2	0	2	0	1	0	1	0	2	0	2	1	3	2	4	1	3	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:13839962C>T	uc010gcf.2	-	18	1846	c.1764G>A	c.(1762-1764)GCG>GCA	p.A588A	SEL1L2_uc002woq.3_Silent_p.A449A|SEL1L2_uc010zrl.1_Intron|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	588	Extracellular (Potential).|Sel1-like 11.					integral to membrane	binding			ovary(2)	2						ACATGGCTTGCGCGTTGTGGT	0.403													10	31					0	0	0.000978	0	0		T	13839962	T	T	13839962	2	4	4	1	0	0	0	0	0	0	0	1	14036	755	27	1		1	SEL1L2	20	13839962	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	76347	13839962	49185558	4082	6048											
MACROD2	140733	broad.mit.edu	37	chr20	14665514	14665514	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtattcatagagcagcCggcccctgtttgctagctga	7	11	12	11	1	1	2	1	1	0	1	1	2	1	2	3	2	4	6	3	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:14665514C>T	uc002wou.2	+	5	591	c.327C>T	c.(325-327)GCC>GCT	p.A109A	MACROD2_uc002wot.2_Silent_p.A109A|MACROD2_uc002wox.2_RNA	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	109	Macro.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				ATAGAGCAGCCGGCCCCTGTT	0.418													24	87					0	0	0.003954	0	0		T	14665514	T	T	14665514	2	4	4	1	0	0	0	0	0	0	0	1	9164	639	23	1		1	MACROD2	20	14665514	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	825552	14665514	48360006	4083	6049											
MACROD2	140733	broad.mit.edu	37	chr20	16030511	16030511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcgaaggaacaaagaaatgGaactaaatgacaatcctcag	20	5	9	7	1	1	2	1	1	0	1	2	5	2	4	1	2	3	0	1	2	8	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:16030511G>A	uc002wou.2	+	18	1601	c.1337G>A	c.(1336-1338)GGA>GAA	p.G446E	MACROD2_uc002wot.2_Missense_Mutation_p.G423E|MACROD2_uc002woz.2_Missense_Mutation_p.G211E|MACROD2_uc002wpb.2_Missense_Mutation_p.G188E|MACROD2_uc002wpd.2_Missense_Mutation_p.G96E	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	446											0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				CAAAGAAATGGAACTAAATGA	0.512													6	79					0	0	0.001984	0	0		A	16030511	A	A	16030511	3	1	4	1	0	0	0	0	1	0	0	0	9164	1174	41	4	1407	4	MACROD2	20	16030511	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1364997	16030511	46995009	4084	6050											
KIF16B	55614	broad.mit.edu	37	chr20	16360543	16360543	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttcttggacgcggagaaAggtctcttcttcttgtctct	5	17	9	10	2	6	1	0	0	6	1	8	3	6	2	0	3	0	0	0	3	1	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:16360543A>G	uc002wpg.1	-	19	2262	c.2104T>C	c.(2104-2106)TTT>CTT	p.F702L	KIF16B_uc002wpe.1_Missense_Mutation_p.F84L|KIF16B_uc002wpf.1_Missense_Mutation_p.F84L|KIF16B_uc010gch.1_Missense_Mutation_p.F702L|KIF16B_uc010gci.1_Missense_Mutation_p.F702L|KIF16B_uc010gcj.1_Missense_Mutation_p.F713L	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	702	Glu-rich.|Potential.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						ACGCGGAGAAAGGTCTCTTCT	0.448													5	179					0	0	0.000602	0	0		G	16360543	G	G	16360543	3	3	4	1	0	0	0	0	1	0	0	0	8294	72	3	3	1881	3	KIF16B	20	16360543	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	330032	16360543	46664977	4085	6051											
CSRP2BP	57325	broad.mit.edu	37	chr20	18163860	18163860	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcactggacgccggagccCgacgcacctctcgattactg	7	7	10	17	5	2	0	1	0	1	0	3	4	2	2	4	2	2	1	4	2	1	1	rs149106213		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:18163860C>T	uc002wqj.2	+	9	2524	c.1902C>T	c.(1900-1902)CCC>CCT	p.P634P	CSRP2BP_uc002wqk.2_Silent_p.P506P|CSRP2BP_uc010zru.1_Silent_p.P505P	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	634					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						CGCCGGAGCCCGACGCACCTC	0.547													18	106					0	0	0.008871	0	0		T	18163860	T	T	18163860	2	4	4	1	0	0	0	0	0	0	0	1	3971	639	23	1		1	CSRP2BP	20	18163860	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1803317	18163860	44861660	4086	6052											
ZNF133	7692	broad.mit.edu	37	chr20	18296267	18296267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcctaaagaagagcctcGccagacaccagaaggcacac	15	3	9	14	1	1	4	1	0	0	4	2	4	1	4	4	1	2	1	4	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:18296267G>A	uc010gcq.2	+	5	1077	c.772G>A	c.(772-774)GCC>ACC	p.A258T	ZNF133_uc010zrv.1_Missense_Mutation_p.A261T|ZNF133_uc010zrw.1_Missense_Mutation_p.A195T|ZNF133_uc010gcr.2_Missense_Mutation_p.A258T|ZNF133_uc010zrx.1_Missense_Mutation_p.A163T|ZNF133_uc002wql.3_Missense_Mutation_p.A257T|ZNF133_uc010gcs.2_Missense_Mutation_p.A257T|ZNF133_uc010zry.1_Missense_Mutation_p.A163T|ZNF133_uc002wqm.2_Missense_Mutation_p.A258T	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	258	C2H2-type 2.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2						GAAGAGCCTCGCCAGACACCA	0.547													8	58					0	0	0.004482	0	0		A	18296267	A	A	18296267	3	1	4	1	0	0	0	0	1	0	0	0	17748	1087	38	1	779	1	ZNF133	20	18296267	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	132407	18296267	44729253	4087	6053											
ZNF133	7692	broad.mit.edu	37	chr20	18296956	18296956	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcatcagacaccagaggacGcactcaggcgagaagcccat	13	4	10	14	2	3	3	3	0	0	3	3	5	3	4	2	2	1	1	2	2	1	0	rs139392054	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:18296956G>A	uc010gcq.2	+	5	1766	c.1461G>A	c.(1459-1461)ACG>ACA	p.T487T	ZNF133_uc010zrv.1_Silent_p.T490T|ZNF133_uc010zrw.1_Silent_p.T424T|ZNF133_uc010gcr.2_Silent_p.T487T|ZNF133_uc010zrx.1_Silent_p.T392T|ZNF133_uc002wql.3_Silent_p.T486T|ZNF133_uc010gcs.2_Silent_p.T486T|ZNF133_uc010zry.1_Silent_p.T392T|ZNF133_uc002wqm.2_Silent_p.T487T	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	487	C2H2-type 10.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2						ACCAGAGGACGCACTCAGGCG	0.587													7	52					0	0	0.00308	0	0		A	18296956	A	A	18296956	2	1	4	1	0	0	0	0	0	0	0	1	17748	1074	38	1		1	ZNF133	20	18296956	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	689	18296956	44728564	4088	6054											
SEC23B	10483	broad.mit.edu	37	chr20	18535003	18535003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcacgcttcccgatgccacGttacatcaacacggagcatg	11	7	9	14	4	1	0	1	0	0	0	2	2	2	1	2	1	5	4	2	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:18535003G>A	uc002wqz.1	+	18	2560	c.2117G>A	c.(2116-2118)CGT>CAT	p.R706H	SEC23B_uc002wra.1_Missense_Mutation_p.R706H|SEC23B_uc002wrb.1_Missense_Mutation_p.R706H|SEC23B_uc010zsb.1_Missense_Mutation_p.R688H|SEC23B_uc002wrc.1_Missense_Mutation_p.R706H	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	706					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						CCGATGCCACGTTACATCAAC	0.473													36	135					0	0	0.002522	0	0		A	18535003	A	A	18535003	3	1	4	1	0	0	0	0	1	0	0	0	14017	1145	40	1	2183	1	SEC23B	20	18535003	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	238047	18535003	44490517	4089	6055											
SLC24A3	57419	broad.mit.edu	37	chr20	19674014	19674014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaatggttcatggtgaCgtttgcttcctccacgctgt	7	13	12	9	2	1	2	1	1	0	1	3	3	3	2	2	3	1	4	2	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:19674014C>T	uc002wrl.2	+	13	1633	c.1436C>T	c.(1435-1437)ACG>ATG	p.T479M		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	479	Cytoplasmic (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						TTCATGGTGACGTTTGCTTCC	0.517													17	73					0	0	0.007413	0	0		T	19674014	T	T	19674014	3	4	4	1	0	0	0	0	1	0	0	0	14492	536	19	1	1486	1	SLC24A3	20	19674014	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1139011	19674014	43351506	4090	6056											
C20orf26	26074	broad.mit.edu	37	chr20	20269550	20269550	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctaatcttgaccggctcAtccccatgtacaagggagcc	10	8	9	14	1	2	1	1	1	1	0	3	2	3	2	4	2	3	3	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:20269550A>G	uc002wru.2	+	23	3170	c.3094A>G	c.(3094-3096)ATC>GTC	p.I1032V	C20orf26_uc002wrw.2_Intron	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	1032										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TGACCGGCTCATCCCCATGTA	0.507													3	32					0	0	0.009096	0	0		G	20269550	G	G	20269550	3	3	4	1	0	0	0	0	1	0	0	0	2109	217	8	3	3212	3	C20orf26	20	20269550	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	595536	20269550	42755970	4091	6057											
RALGAPA2	57186	broad.mit.edu	37	chr20	20493786	20493786	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agctcggagccttccacatgGgcattgtcatggttctcgct	6	12	11	12	2	2	0	1	0	1	0	5	1	3	1	2	3	2	4	2	3	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:20493786G>A	uc002wrz.2	-	32	4370	c.4227C>T	c.(4225-4227)GCC>GCT	p.A1409A	RALGAPA2_uc010gcx.2_Silent_p.A1113A|RALGAPA2_uc010zsg.1_Silent_p.A857A|RALGAPA2_uc002wsa.1_Silent_p.A181A	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1409					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CTTCCACATGGGCATTGTCAT	0.547													8	50					0	0	0.001368	0	0		A	20493786	A	A	20493786	2	1	4	1	0	0	0	0	0	0	0	1	13039	1219	43	4		4	RALGAPA2	20	20493786	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	224236	20493786	42531734	4092	6058											
RALGAPA2	57186	broad.mit.edu	37	chr20	20552181	20552181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttggcagaacgtcctggCgtctggtcatcatggcacag	8	10	13	10	2	3	1	2	0	1	1	4	1	4	1	1	4	1	3	1	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:20552181C>T	uc002wrz.2	-	23	3220	c.3077G>A	c.(3076-3078)CGC>CAC	p.R1026H	RALGAPA2_uc010gcx.2_Missense_Mutation_p.R730H|RALGAPA2_uc010zsg.1_Missense_Mutation_p.R474H	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1026					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						AACGTCCTGGCGTCTGGTCAT	0.483													8	44					0	0	0.00308	0	0		T	20552181	T	T	20552181	3	4	4	1	0	0	0	0	1	0	0	0	13039	768	27	1	2612	1	RALGAPA2	20	20552181	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	58395	20552181	42473339	4093	6059											
RALGAPA2	57186	broad.mit.edu	37	chr20	20571843	20571843	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagaagaatctgagcacagCggctcggggatgtcggaggt	10	7	17	7	3	1	3	0	2	1	2	3	6	1	5	0	5	2	2	0	5	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:20571843C>T	uc002wrz.2	-	17	2462	c.2319G>A	c.(2317-2319)CCG>CCA	p.P773P	RALGAPA2_uc010gcx.2_Silent_p.P477P|RALGAPA2_uc010zsg.1_Silent_p.P221P	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	773					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CTGAGCACAGCGGCTCGGGGA	0.498													12	63					0	0	0.00499	0	0		T	20571843	T	T	20571843	2	4	4	1	0	0	0	0	0	0	0	1	13039	755	27	1		1	RALGAPA2	20	20571843	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	19662	20571843	42453677	4094	6060											
XRN2	22803	broad.mit.edu	37	chr20	21309294	21309294	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagcgagtcagggaagAaatattggcaaaaggtaaag	18	5	14	4	1	1	1	1	0	0	1	1	4	1	2	0	3	2	3	0	3	8	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:21309294A>G	uc002wsf.1	+	4	508	c.413A>G	c.(412-414)GAA>GGA	p.E138G	XRN2_uc002wsg.1_Missense_Mutation_p.E62G|XRN2_uc010zsk.1_Missense_Mutation_p.E84G	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	138					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						GTCAGGGAAGAAATATTGGCA	0.443													8	53					0	0	0.004482	0	0		G	21309294	G	G	21309294	3	3	4	1	0	0	0	0	1	0	0	0	17486	246	9	3	427	3	XRN2	20	21309294	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	737451	21309294	41716226	4095	6061											
XRN2	22803	broad.mit.edu	37	chr20	21311291	21311291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatcttgctaaatgccttcGctattacatagctgatcgtt	10	15	6	10	2	1	1	0	1	1	0	3	1	1	1	1	0	4	4	1	0	6	7	rs6137317		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:21311291G>A	uc002wsf.1	+	6	619	c.524G>A	c.(523-525)CGC>CAC	p.R175H	XRN2_uc002wsg.1_Missense_Mutation_p.R99H|XRN2_uc010zsk.1_Missense_Mutation_p.R121H	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	175					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						AAATGCCTTCGCTATTACATA	0.328													5	76					0	0	0.001984	0	0		A	21311291	A	A	21311291	3	1	4	1	0	0	0	0	1	0	0	0	17486	1087	38	1	546	1	XRN2	20	21311291	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1997	21311291	41714229	4096	6062											
FOXA2	3170	broad.mit.edu	37	chr20	22563405	22563405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcgtgcgtgtagctgcGcctgtaggtcttggggtcgc	2	13	16	10	4	1	0	0	0	1	0	2	0	1	0	1	3	4	3	1	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:22563405G>A	uc002wsn.2	-	3	647	c.457C>T	c.(457-459)CGC>TGC	p.R153C	FOXA2_uc002wsm.2_Missense_Mutation_p.R159C	NM_153675	NP_710141	Q9Y261	FOXA2_HUMAN	forkhead box A2 isoform 2	153					cell differentiation in hindbrain|central nervous system myelin formation|chromatin modification|dorsal/ventral neural tube patterning|ectoderm formation|endocrine pancreas development|endoderm development|epithelial tube branching involved in lung morphogenesis|in utero embryonic development|lung epithelial cell differentiation|negative regulation of neuron differentiation|neuron fate specification|oligodendrocyte cell fate commitment|positive regulation of embryonic development|positive regulation of gastrulation|positive regulation of neuron differentiation|primitive streak formation|regulation of blood coagulation|regulation of sequence-specific DNA binding transcription factor activity|response to interleukin-6	cytoplasm|transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|kidney(1)|central_nervous_system(1)	4	Lung NSC(19;0.188)					GTGTAGCTGCGCCTGTAGGTC	0.647													5	59					0	0	0.000602	0	0		A	22563405	A	A	22563405	3	1	4	1	0	0	0	0	1	0	0	0	6004	1087	38	1	920	1	FOXA2	20	22563405	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1252114	22563405	40462115	4097	6063											
SSTR4	6754	broad.mit.edu	37	chr20	23016316	23016316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggggctggtgggcaacGccctggtcatcttcgtgatc	4	11	16	10	2	2	1	1	1	1	0	4	1	2	1	1	6	1	2	1	6	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:23016316G>A	uc002wsr.2	+	1	260	c.196G>A	c.(196-198)GCC>ACC	p.A66T		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	66	Helical; Name=1; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GGTGGGCAACGCCCTGGTCAT	0.507													17	49					0	0	0.00499	0	0		A	23016316	A	A	23016316	3	1	4	1	0	0	0	0	1	0	0	0	15225	1087	38	1	198	1	SSTR4	20	23016316	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	452911	23016316	40009204	4098	6064											
CD93	22918	broad.mit.edu	37	chr20	23065010	23065010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctcttcgctctccgcttgCgatagaccagtagccccaga	7	9	8	17	3	2	2	0	0	2	2	4	3	2	2	5	0	2	3	5	0	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:23065010C>T	uc002wsv.2	-	1	1968	c.1820G>A	c.(1819-1821)CGC>CAC	p.R607H		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	607	Cytoplasmic (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					TCTCCGCTTGCGATAGACCAG	0.582													18	114					0	0	0.007413	0	0		T	23065010	T	T	23065010	3	4	4	1	0	0	0	0	1	0	0	0	3050	768	27	1	146	1	CD93	20	23065010	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	48694	23065010	39960510	4099	6065											
GZF1	64412	broad.mit.edu	37	chr20	23345592	23345592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggagagagagccagcaatgGcatgtcttcagatttgccac	12	8	12	9	0	2	3	1	0	1	3	2	5	2	3	2	2	3	2	2	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:23345592G>A	uc010gdb.2	+	3	746	c.572G>A	c.(571-573)GGC>GAC	p.G191D	GZF1_uc002wsy.2_Missense_Mutation_p.G191D|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Missense_Mutation_p.G191D	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	191					transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					GCCAGCAATGGCATGTCTTCA	0.537													15	85					0	0	0.004007	0	0		A	23345592	A	A	23345592	3	1	4	1	0	0	0	0	1	0	0	0	6930	1203	42	2	574	2	GZF1	20	23345592	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	280582	23345592	39679928	4100	6066											
GZF1	64412	broad.mit.edu	37	chr20	23346300	23346300	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcgctgcggctgcacgagcGcacacacacgggagaccggc	9	2	15	15	6	0	1	0	0	0	1	0	3	0	1	1	3	4	4	1	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:23346300G>A	uc010gdb.2	+	3	1454	c.1280G>A	c.(1279-1281)CGC>CAC	p.R427H	GZF1_uc002wsy.2_Missense_Mutation_p.R427H|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Missense_Mutation_p.R427H	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	427	C2H2-type 4.				transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					CTGCACGAGCGCACACACACG	0.716													4	21					0	0	0.000602	0	0		A	23346300	A	A	23346300	3	1	4	1	0	0	0	0	1	0	0	0	6930	1087	38	1	1282	1	GZF1	20	23346300	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	708	23346300	39679220	4101	6067											
CST11	140880	broad.mit.edu	37	chr20	23432462	23432462	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttacccaataccttgtgaagCtccctttcctgggggacaca	9	11	8	13	0	0	1	0	1	0	0	2	2	2	2	4	2	3	1	4	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:23432462C>T	uc002wtf.1	-	2	358	c.324G>A	c.(322-324)GAG>GAA	p.E108E	CST11_uc002wtg.1_Intron	NM_130794	NP_570612	Q9H112	CST11_HUMAN	cystatin 11 isoform 1 precursor	108					defense response to bacterium	cytoplasm|nucleus	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					CCTTGTGAAGCTCCCTTTCCT	0.468													13	48					0	0	0.003163	0	0		T	23432462	T	T	23432462	2	4	4	1	0	0	0	0	0	0	0	1	3974	796	28	2		2	CST11	20	23432462	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	86162	23432462	39593058	4102	6068											
TMEM90B	79953	broad.mit.edu	37	chr20	24646036	24646036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccagcaccagctcccggCgggccctattcctggcagtg	6	6	13	16	2	0	0	0	0	0	0	2	0	2	0	5	4	2	3	5	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:24646036C>T	uc002wtw.1	+	4	1306	c.673C>T	c.(673-675)CGG>TGG	p.R225W		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	225	Extracellular (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						CAGCTCCCGGCGGGCCCTATT	0.587													8	89					0	0	0.006214	0	0		T	24646036	T	T	24646036	3	4	4	1	0	0	0	0	1	0	0	0	16244	759	27	1	683	1	TMEM90B	20	24646036	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1213574	24646036	38379484	4103	6069											
ENTPD6	955	broad.mit.edu	37	chr20	25187856	25187856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagtggcaccgggccaccGccacccaggccttcttcagc	7	6	10	18	2	3	0	2	0	1	0	3	0	3	0	6	3	1	1	6	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:25187856G>A	uc002wuj.2	+	3	379	c.199G>A	c.(199-201)GCC>ACC	p.A67T	ENTPD6_uc010zsy.1_Missense_Mutation_p.A67T|ENTPD6_uc010gdj.1_Missense_Mutation_p.A39T|ENTPD6_uc010zsz.1_Intron|ENTPD6_uc002wum.2_Missense_Mutation_p.A50T|ENTPD6_uc010zta.1_Missense_Mutation_p.A67T|ENTPD6_uc002wun.2_Missense_Mutation_p.A67T|ENTPD6_uc002wuk.2_Missense_Mutation_p.A66T|ENTPD6_uc002wul.2_Missense_Mutation_p.A66T|ENTPD6_uc010ztb.1_Missense_Mutation_p.A39T|ENTPD6_uc010ztc.1_Missense_Mutation_p.A39T|ENTPD6_uc002wuo.2_Intron|ENTPD6_uc010ztd.1_5'Flank	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	67	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						CCGGGCCACCGCCACCCAGGC	0.687													8	25					0	0	0.004482	0	0		A	25187856	A	A	25187856	3	1	4	1	0	0	0	0	1	0	0	0	5151	1087	38	1	212	1	ENTPD6	20	25187856	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	541820	25187856	37837664	4104	6070											
PYGB	5834	broad.mit.edu	37	chr20	25273229	25273229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcctgcgggtggaggatgtCgaggccttggaccggaaagg	7	6	20	8	3	0	0	0	0	0	0	1	5	0	4	3	8	1	0	3	8	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:25273229C>T	uc002wup.2	+	17	2266	c.2157C>T	c.(2155-2157)GTC>GTT	p.V719V		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	719					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	TGGAGGATGTCGAGGCCTTGG	0.667													5	16					0	0	0.001984	0	0		T	25273229	T	T	25273229	2	4	4	1	0	0	0	0	0	0	0	1	12885	871	31	1		1	PYGB	20	25273229	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	85373	25273229	37752291	4105	6071											
ZNF337	26152	broad.mit.edu	37	chr20	25657197	25657197	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttgaggctgaagcctcGcccacacacactgcacacat	10	6	9	16	1	0	2	0	2	0	0	1	2	0	2	3	2	2	2	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:25657197G>A	uc002wva.2	-	4	1249	c.727C>T	c.(727-729)CGA>TGA	p.R243*	uc002wuz.2_RNA|ZNF337_uc010ztg.1_Nonsense_Mutation_p.R211*|ZNF337_uc002wvb.2_Nonsense_Mutation_p.R243*|ZNF337_uc002wvc.2_Nonsense_Mutation_p.R243*	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	243	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTGAAGCCTCGCCCACACACA	0.532													29	90					0	0	0.007291	0	0		A	25657197	A	A	25657197	4	1	4	1	0	0	0	0	0	1	0	0	17878	1095	38	1	1532	1	ZNF337	20	25657197	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	383968	25657197	37368323	4106	6072											
HM13	81502	broad.mit.edu	37	chr20	30147438	30147438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcattgccttgctgctgcGctttgacatcaggtgagtga	6	14	11	10	1	2	3	2	3	0	0	2	3	2	3	1	1	4	3	1	1	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:30147438G>A	uc002wwe.2	+	9	947	c.833G>A	c.(832-834)CGC>CAC	p.R278H	HM13_uc002wwc.2_Missense_Mutation_p.R278H|HM13_uc002wwd.2_Missense_Mutation_p.R278H|HM13_uc002wwf.2_Missense_Mutation_p.R154H|HM13_uc010gdu.2_Missense_Mutation_p.R154H	NM_030789	NP_110416	Q8TCT9	HM13_HUMAN	minor histocompatibility antigen 13 isoform 1	278	Cytoplasmic (Potential).				membrane protein proteolysis	cell surface|endoplasmic reticulum membrane|integral to membrane|plasma membrane	aspartic-type endopeptidase activity|protein binding			breast(1)	1	all_cancers(5;3.44e-05)|Lung NSC(7;4.38e-06)|all_lung(7;7.65e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		all cancers(5;0.000479)|Colorectal(19;0.00202)|COAD - Colon adenocarcinoma(19;0.0264)			TTGCTGCTGCGCTTTGACATC	0.582											OREG0025850	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	87	447					0	0	0.00361	0	0		A	30147438	A	A	30147438	3	1	4	1	0	0	0	0	1	0	0	0	7233	1087	38	1	934	1	HM13	20	30147438	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4490241	30147438	32878082	4107	6073											
TM9SF4	9777	broad.mit.edu	37	chr20	30745754	30745754	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatccccgagcagcggtggtAcatgaaccgatttgtggggt	8	9	15	9	3	0	1	0	1	0	0	1	4	1	1	3	4	4	2	3	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:30745754A>G	uc002wxj.2	+	14	1722	c.1487A>G	c.(1486-1488)TAC>TGC	p.Y496C	TM9SF4_uc010zts.1_Missense_Mutation_p.Y403C|TM9SF4_uc002wxk.2_Missense_Mutation_p.Y479C|TM9SF4_uc010gdz.2_Missense_Mutation_p.Y375C	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	496						integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CAGCGGTGGTACATGAACCGA	0.607													9	74					0	0	0.008291	0	0		G	30745754	G	G	30745754	3	3	4	1	0	0	0	0	1	0	0	0	16005	391	14	3	1541	3	TM9SF4	20	30745754	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	598316	30745754	32279766	4108	6074											
POFUT1	23509	broad.mit.edu	37	chr20	30803242	30803242	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagcccagataagaagacGtgccccatgaaggtgggtcc	12	5	13	11	2	0	4	0	1	0	3	1	5	1	4	4	2	2	0	4	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:30803242G>A	uc002wxp.2	+	3	466	c.417G>A	c.(415-417)ACG>ACA	p.T139T	POFUT1_uc002wxo.2_Silent_p.T139T|POFUT1_uc010ztt.1_Silent_p.T31T|POFUT1_uc010ztu.1_Intron	NM_015352	NP_056167	Q9H488	OFUT1_HUMAN	protein O-fucosyltransferase 1 isoform 1	139					fucose metabolic process|Notch signaling pathway|O-glycan processing|regulation of transcription, DNA-dependent	endoplasmic reticulum|membrane	peptide-O-fucosyltransferase activity			breast(1)	1			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			ATAAGAAGACGTGCCCCATGA	0.557													14	72					0	0	0.00499	0	0		A	30803242	A	A	30803242	2	1	4	1	0	0	0	0	0	0	0	1	12202	1132	40	1		1	POFUT1	20	30803242	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	57488	30803242	32222278	4109	6075											
C20orf112	140688	broad.mit.edu	37	chr20	31041289	31041289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctcgtccacaaagagacGcacaaacatctgtggagaca	14	7	9	11	2	2	2	0	0	2	2	4	4	3	2	1	1	1	2	1	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31041289G>A	uc002wxu.3	-	5	740	c.583C>T	c.(583-585)CGT>TGT	p.R195C	C20orf112_uc010gec.2_Missense_Mutation_p.R20C	NM_080616	NP_542183	Q96MY1	CT112_HUMAN	hypothetical protein LOC140688	195											0						ACAAAGAGACGCACAAACATC	0.627													13	59					0	0	0.001855	0	0		A	31041289	A	A	31041289	3	1	4	1	0	0	0	0	1	0	0	0	2084	1087	38	1	743	1	C20orf112	20	31041289	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	238047	31041289	31984231	4110	6076											
C20orf112	140688	broad.mit.edu	37	chr20	31044021	31044021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccaagtgccgtggccggcGggagcttgtcacacaggttg	6	8	16	11	3	1	0	1	0	0	0	1	1	1	1	3	4	3	2	3	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31044021G>A	uc002wxu.3	-	3	444	c.287C>T	c.(286-288)CCG>CTG	p.P96L	C20orf112_uc010gec.2_5'UTR	NM_080616	NP_542183	Q96MY1	CT112_HUMAN	hypothetical protein LOC140688	96											0						CGTGGCCGGCGGGAGCTTGTC	0.682													5	18					0	0	0.001984	0	0		A	31044021	A	A	31044021	3	1	4	1	0	0	0	0	1	0	0	0	2084	1116	39	1	1047	1	C20orf112	20	31044021	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2732	31044021	31981499	4111	6077											
DNMT3B	1789	broad.mit.edu	37	chr20	31383281	31383281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactgccccgcacccaagcGcctcaagacaaattgctata	12	7	6	16	2	1	1	1	0	0	1	1	1	1	1	4	0	4	2	4	0	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31383281G>A	uc002wyc.2	+	11	1514	c.1193G>A	c.(1192-1194)CGC>CAC	p.R398H	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Missense_Mutation_p.R378H|DNMT3B_uc002wye.2_Missense_Mutation_p.R378H|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.R336H|DNMT3B_uc010zua.1_Missense_Mutation_p.R302H|DNMT3B_uc002wyf.2_Missense_Mutation_p.R390H|DNMT3B_uc002wyg.2_Missense_Mutation_p.R97H	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	398					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						GCACCCAAGCGCCTCAAGACA	0.537													8	73					0	0	0.000978	0	0		A	31383281	A	A	31383281	3	1	4	1	0	0	0	0	1	0	0	0	4683	1087	38	1	1271	1	DNMT3B	20	31383281	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	339260	31383281	31642239	4112	6078											
DNMT3B	1789	broad.mit.edu	37	chr20	31386409	31386409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggaaggactggaacgtgcGcctgcaggccttcttcacca	8	7	12	14	3	2	0	1	0	1	0	2	3	2	3	4	4	3	1	4	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31386409G>A	uc002wyc.2	+	15	1955	c.1634G>A	c.(1633-1635)CGC>CAC	p.R545H	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Missense_Mutation_p.R525H|DNMT3B_uc002wye.2_Missense_Mutation_p.R525H|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.R483H|DNMT3B_uc010zua.1_Missense_Mutation_p.R449H|DNMT3B_uc002wyf.2_Missense_Mutation_p.R537H|DNMT3B_uc002wyg.2_Missense_Mutation_p.R244H|DNMT3B_uc010geg.2_5'Flank|DNMT3B_uc010geh.2_5'Flank	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	545	ADD.				negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						TGGAACGTGCGCCTGCAGGCC	0.627													4	32					0	0	0.009096	0	0		A	31386409	A	A	31386409	3	1	4	1	0	0	0	0	1	0	0	0	4683	1087	38	1	1728	1	DNMT3B	20	31386409	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3128	31386409	31639111	4113	6079											
DNMT3B	1789	broad.mit.edu	37	chr20	31388002	31388002	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcataaaggtaggaaagtaCgtcgcttctgaagtgtgtga	12	10	14	5	2	1	2	0	2	1	0	2	3	1	3	0	3	1	4	0	3	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31388002C>T	uc002wyc.2	+	17	2124	c.1803C>T	c.(1801-1803)TAC>TAT	p.Y601Y	DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Silent_p.Y581Y|DNMT3B_uc002wye.2_Silent_p.Y581Y|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Silent_p.Y539Y|DNMT3B_uc010zua.1_Silent_p.Y505Y|DNMT3B_uc002wyf.2_Silent_p.Y593Y|DNMT3B_uc002wyg.2_Silent_p.Y300Y|DNMT3B_uc010geg.2_5'Flank|DNMT3B_uc010geh.2_5'Flank	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	601					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						TAGGAAAGTACGTCGCTTCTG	0.483													7	199					0	0	0.001984	0	0		T	31388002	T	T	31388002	2	4	4	1	0	0	0	0	0	0	0	1	4683	547	19	1		1	DNMT3B	20	31388002	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1593	31388002	31637518	4114	6080											
C20orf185	359710	broad.mit.edu	37	chr20	31657706	31657706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatgcaggtcatgactgtgCgtgcccagctggctccctcg	5	9	12	15	2	1	1	1	1	0	0	3	1	2	1	3	2	4	3	3	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31657706C>T	uc002wym.1	+	11	1162	c.1162C>T	c.(1162-1164)CGT>TGT	p.R388C		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	388					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						CATGACTGTGCGTGCCCAGCT	0.537													50	242					0	0	0.00361	0	0		T	31657706	T	T	31657706	3	4	4	1	0	0	0	0	1	0	0	0	2100	768	27	1	1204	1	C20orf185	20	31657706	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	269704	31657706	31367814	4115	6081											
C20orf114	92747	broad.mit.edu	37	chr20	31890858	31890858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctccagtgaagccctccGccctttgttcaccctgggca	5	10	8	18	1	1	1	1	1	0	0	4	1	4	1	6	1	1	2	6	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31890858G>A	uc002wyw.1	+	11	1279	c.1118G>A	c.(1117-1119)CGC>CAC	p.R373H	C20orf114_uc002wyx.1_RNA	NM_033197	NP_149974	Q8TDL5	LPLC1_HUMAN	LPLUNC1 protein precursor	373						extracellular space	lipid binding			central_nervous_system(2)|skin(2)	4						GAAGCCCTCCGCCCTTTGTTC	0.532													12	112					0	0	0.00245	0	0		A	31890858	A	A	31890858	3	1	4	1	0	0	0	0	1	0	0	0	2085	1087	38	1	1156	1	C20orf114	20	31890858	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	233152	31890858	31134662	4116	6082											
CDK5RAP1	51654	broad.mit.edu	37	chr20	31954730	31954730	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttttgttgcttcttctcGgaagatagtgatgagttcct	6	17	11	7	1	2	3	0	2	2	1	4	4	3	4	1	2	1	4	1	2	2	7	rs148992921		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31954730G>T	uc010gek.2	-	13	1643	c.1519C>A	c.(1519-1521)CGA>AGA	p.R507R	CDK5RAP1_uc002wyy.2_Silent_p.R403R|CDK5RAP1_uc002wyz.2_Silent_p.R493R|CDK5RAP1_uc002wza.2_Silent_p.R492R|CDK5RAP1_uc010gel.2_Silent_p.R402R|CDK5RAP1_uc010gem.2_Silent_p.R416R|CDK5RAP1_uc002wzc.1_Silent_p.R493R|CDK5RAP1_uc002wzb.1_Silent_p.R128R	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	507	CDK5R1-binding.				brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5						GCTTCTTCTCGGAAGATAGTG	0.433													36	156					4.65686e-17	5.08544e-17	0.003755	1	0		T	31954730	T	T	31954730	2	4	4	1	0	0	0	0	0	0	0	1	3148	1124	39	5		5	CDK5RAP1	20	31954730	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	63872	31954730	31070790	4117	6083											
CBFA2T2	9139	broad.mit.edu	37	chr20	32199012	32199012	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgcactcacaaatcagcaAttgccagccacttgtggtgc	10	10	8	13	0	3	0	2	0	1	0	3	0	3	0	2	1	5	2	2	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:32199012A>G	uc002wzg.1	+	4	855	c.318A>G	c.(316-318)CAA>CAG	p.Q106Q	CBFA2T2_uc010zug.1_Intron|CBFA2T2_uc002wze.1_Silent_p.Q97Q|CBFA2T2_uc002wzf.1_RNA|CBFA2T2_uc002wzh.1_Silent_p.Q77Q|CBFA2T2_uc002wzi.1_RNA|CBFA2T2_uc002wzj.1_RNA	NM_005093	NP_005084	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit	106						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2						CAAATCAGCAATTGCCAGCCA	0.512													11	157					0	0	0.00245	0	0		G	32199012	G	G	32199012	2	3	4	1	0	0	0	0	0	0	0	1	2700	98	4	3		3	CBFA2T2	20	32199012	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	244282	32199012	30826508	4118	6084											
RALY	22913	broad.mit.edu	37	chr20	32661432	32661432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctaaagagagcagcatctgCcatatacaggtggggctgtc	11	8	13	9	0	1	1	0	0	1	1	2	2	1	1	1	3	4	4	1	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:32661432C>T	uc002xab.2	+	4	618	c.320C>T	c.(319-321)GCC>GTC	p.A107V	RALY_uc010zui.1_Missense_Mutation_p.A107V|RALY_uc002xac.2_Missense_Mutation_p.A107V|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Missense_Mutation_p.A107V	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	107						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1						GCAGCATCTGCCATATACAGG	0.517													10	54					0	0	0.001368	0	0		T	32661432	T	T	32661432	3	4	4	1	0	0	0	0	1	0	0	0	13044	739	26	2	326	2	RALY	20	32661432	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	462420	32661432	30364088	4119	6085											
EIF2S2	8894	broad.mit.edu	37	chr20	32677651	32677651	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcactgtaggaaatagagtCgtgtgtccttctgcaggatt	9	12	12	8	2	1	1	0	0	1	1	3	3	2	3	1	2	1	3	1	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:32677651C>T	uc002xaf.2	-	9	1056	c.887G>A	c.(886-888)CGA>CAA	p.R296Q	EIF2S2_uc002xag.2_Missense_Mutation_p.R293Q|EIF2S2_uc010ges.2_Missense_Mutation_p.R236Q	NM_003908	NP_003899	P20042	IF2B_HUMAN	eukaryotic translation initiation factor 2 beta	296	C4-type (Potential).					cytosol|eukaryotic translation initiation factor 2 complex	metal ion binding|protein binding|translation initiation factor activity			large_intestine(1)	1						GAAATAGAGTCGTGTGTCCTT	0.493													7	154					0	0	0.001984	0	0		T	32677651	T	T	32677651	3	4	4	1	0	0	0	0	1	0	0	0	5016	884	31	1	118	1	EIF2S2	20	32677651	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	16219	32677651	30347869	4120	6086											
MAP1LC3A	84557	broad.mit.edu	37	chr20	33147564	33147564	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcctgcagctgaaccccacGcaggccttcttcctgctggt	5	9	10	17	2	1	1	0	1	1	0	2	1	2	1	5	2	4	4	5	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:33147564G>A	uc002xaq.1	+	4	382	c.228G>A	c.(226-228)ACG>ACA	p.T76T	MAP1LC3A_uc002xap.1_Silent_p.T80T	NM_032514	NP_115903	Q9H492	MLP3A_HUMAN	microtubule-associated protein 1 light chain 3	76					autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|cytosol|endomembrane system|microtubule	phosphatidylethanolamine binding|protein binding				0						TGAACCCCACGCAGGCCTTCT	0.632													6	40					0	0	0.00308	0	0		A	33147564	A	A	33147564	2	1	4	1	0	0	0	0	0	0	0	1	9248	1074	38	1		1	MAP1LC3A	20	33147564	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	469913	33147564	29877956	4121	6087											
MYH7B	57644	broad.mit.edu	37	chr20	33568472	33568472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcttacaagggaaagcGccgctcagattccccgcccc	8	6	11	16	3	1	1	1	0	0	1	2	2	2	2	5	2	3	3	5	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:33568472G>A	uc010gfa.1	+	5	555	c.434G>A	c.(433-435)CGC>CAC	p.R145H	MYH7B_uc002xbi.1_Missense_Mutation_p.R187H			A7E2Y1	MYH7B_HUMAN	RecName: Full=Myosin-7B; AltName: Full=Myosin heavy chain 7B, cardiac muscle beta isoform; AltName: Full=Myosin cardiac muscle beta chain; AltName: Full=Antigen MLAA-21; AltName: Full=Slow A MYH14;	145	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			AAGGGAAAGCGCCGCTCAGAT	0.582													11	104					0	0	0.001368	0	0		A	33568472	A	A	33568472	3	1	4	1	0	0	0	0	1	0	0	0	10058	1087	38	1	582	1	MYH7B	20	33568472	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	420908	33568472	29457048	4122	6088											
PROCR	10544	broad.mit.edu	37	chr20	33764049	33764049	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtcttcttcgaagtggCtgtgaatgggagctcctttg	6	14	12	9	1	2	1	0	1	2	0	4	3	3	2	2	2	1	2	2	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:33764049C>A	uc002xbt.2	+	3	585	c.401C>A	c.(400-402)GCT>GAT	p.A134D	EDEM2_uc010zuv.1_Intron|PROCR_uc010zuw.1_Missense_Mutation_p.A171D	NM_006404	NP_006395	Q9UNN8	EPCR_HUMAN	endothelial protein C receptor precursor	134	Extracellular (Potential).				antigen processing and presentation|blood coagulation|immune response	integral to plasma membrane|MHC class I protein complex	receptor activity				0			BRCA - Breast invasive adenocarcinoma(18;0.0152)		Drotrecogin alfa(DB00055)	TTCGAAGTGGCTGTGAATGGG	0.602													21	60					7.87624e-14	8.5528e-14	0.00278	1	0		A	33764049	A	A	33764049	3	1	4	1	0	0	0	0	1	0	0	0	12569	797	28	5	411	5	PROCR	20	33764049	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	195577	33764049	29261471	4123	6089											
CEP250	11190	broad.mit.edu	37	chr20	34060620	34060620	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaggctcttactctggtGcgttcagtgctgactcggag	7	11	13	10	2	3	1	1	1	2	0	4	3	3	2	0	3	3	3	0	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:34060620G>A	uc002xcm.2	+	13	1844	c.1173G>A	c.(1171-1173)GTG>GTA	p.V391V	CEP250_uc010zve.1_5'UTR|CEP250_uc010zvd.1_RNA	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	391					centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			TTACTCTGGTGCGTTCAGTGC	0.507													9	169					0	0	0.008291	0	0		A	34060620	A	A	34060620	2	1	4	1	0	0	0	0	0	0	0	1	3255	1306	46	2		2	CEP250	20	34060620	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	296571	34060620	28964900	4124	6090											
CEP250	11190	broad.mit.edu	37	chr20	34091280	34091280	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaagctgtccttgagagagCgaggccgggagctgaccact	9	7	14	11	2	1	3	1	2	0	1	2	6	2	4	3	2	3	2	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:34091280C>T	uc002xcm.2	+	31	5754	c.5083C>T	c.(5083-5085)CGA>TGA	p.R1695*	CEP250_uc010zve.1_Nonsense_Mutation_p.R1063*	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	1695	Gln/Glu-rich.|Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			CTTGAGAGAGCGAGGCCGGGA	0.592													13	115					0	0	0.00245	0	0		T	34091280	T	T	34091280	4	4	4	1	0	0	0	0	0	1	0	0	3255	760	27	1	5189	1	CEP250	20	34091280	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	30660	34091280	28934240	4125	6091											
NFS1	9054	broad.mit.edu	37	chr20	34262504	34262504	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcattatattctgtatcagCcgctctgacaactttgagat	10	16	6	9	1	4	2	2	2	2	1	4	3	4	2	1	0	2	2	1	0	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:34262504C>A	uc002xdw.1	-	9	1048	c.984G>T	c.(982-984)CGG>CGT	p.R328R	CPNE1_uc002xdn.1_5'Flank|CPNE1_uc002xdo.1_5'Flank|CPNE1_uc002xdp.1_RNA|NFS1_uc002xdt.1_Silent_p.R268R|NFS1_uc002xdu.1_Silent_p.R268R|NFS1_uc002xdv.1_RNA|NFS1_uc010zvk.1_Silent_p.R126R|NFS1_uc010zvl.1_Silent_p.R277R	NM_021100	NP_066923	Q9Y697	NFS1_HUMAN	NFS1 nitrogen fixation 1 precursor	328					cysteine metabolic process|iron incorporation into metallo-sulfur cluster|Mo-molybdopterin cofactor biosynthetic process|protein complex assembly|water-soluble vitamin metabolic process	cytosol|mitochondrial matrix|nucleus	cysteine desulfurase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.0886)		L-Alanine(DB00160)|L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	TCTGTATCAGCCGCTCTGACA	0.448													7	72					1.58986e-06	1.6861e-06	0.008291	1	0		A	34262504	A	A	34262504	2	1	4	1	0	0	0	0	0	0	0	1	10404	726	26	5		5	NFS1	20	34262504	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	171224	34262504	28763016	4126	6092											
ROMO1	140823	broad.mit.edu	37	chr20	34288780	34288780	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaccatgatgcagagtggCggcacctttggcacattcat	12	9	10	10	1	1	2	1	1	0	1	1	2	1	2	2	3	2	3	2	3	2	2	rs149152641		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:34288780C>T	uc002xdy.2	+	3	339	c.192C>T	c.(190-192)GGC>GGT	p.G64G	NFS1_uc002xdt.1_5'Flank|NFS1_uc002xdu.1_5'Flank|NFS1_uc002xdv.1_5'Flank|NFS1_uc010zvk.1_5'Flank|NFS1_uc010zvl.1_5'Flank|NFS1_uc002xdw.1_5'Flank|NFS1_uc002xdx.2_5'Flank|ROMO1_uc010gfm.2_Silent_p.G64G	NM_080748	NP_542786	P60602	ROMO1_HUMAN	reactive oxygen species modulator 1	64					cellular response to reactive oxygen species|positive regulation of cell proliferation|positive regulation of reactive oxygen species metabolic process|replicative cell aging	integral to membrane|mitochondrial membrane					0						TGCAGAGTGGCGGCACCTTTG	0.522													9	48					0	0	0.004482	0	0		T	34288780	T	T	34288780	2	4	4	1	0	0	0	0	0	0	0	1	13547	755	27	1		1	ROMO1	20	34288780	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	26276	34288780	28736740	4127	6093											
PHF20	51230	broad.mit.edu	37	chr20	34526851	34526851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcattgctaccagaagcccCgcgcctattaccctgccgtg	8	8	9	16	3	0	1	0	0	0	1	0	1	0	1	6	0	6	2	6	0	4	4	rs144252568		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:34526851C>T	uc002xek.1	+	16	2644	c.2533C>T	c.(2533-2535)CGC>TGC	p.R845C		NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	845					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					CCAGAAGCCCCGCGCCTATTA	0.622													6	33					0	0	0.001984	0	0		T	34526851	T	T	34526851	3	4	4	1	0	0	0	0	1	0	0	0	11850	652	23	1	2591	1	PHF20	20	34526851	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	238071	34526851	28498669	4128	6094											
EPB41L1	2036	broad.mit.edu	37	chr20	34773105	34773105	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccatgctcctttgtcacGcatgccctactgggctccta	5	12	8	16	1	1	0	1	0	0	0	3	0	3	0	4	1	4	3	4	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:34773105G>A	uc002xfb.2	+	7	804	c.633G>A	c.(631-633)ACG>ACA	p.T211T	EPB41L1_uc002xeu.2_Silent_p.T149T|EPB41L1_uc010zvo.1_Silent_p.T211T|EPB41L1_uc002xev.2_Silent_p.T211T|EPB41L1_uc002xew.2_Silent_p.T114T|EPB41L1_uc002xex.2_Silent_p.T180T|EPB41L1_uc002xey.2_Intron|EPB41L1_uc002xez.2_Silent_p.T149T	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	211	FERM.				cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					CCTTTGTCACGCATGCCCTAC	0.612													9	30					0	0	0.006214	0	0		A	34773105	A	A	34773105	2	1	4	1	0	0	0	0	0	0	0	1	5160	1074	38	1		1	EPB41L1	20	34773105	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	246254	34773105	28252415	4129	6095											
C20orf132	140699	broad.mit.edu	37	chr20	35788560	35788560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactggacagagaatgcgggCgttcctcttgtaccagtacc	10	9	11	11	2	1	1	0	0	1	1	2	3	2	2	3	2	4	3	3	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:35788560C>T	uc010zvu.1	-	8	789	c.698G>A	c.(697-699)CGC>CAC	p.R233H	C20orf132_uc002xgk.2_5'Flank|C20orf132_uc002xgm.2_Missense_Mutation_p.R233H|C20orf132_uc002xgn.2_Missense_Mutation_p.R233H	NM_152503	NP_689716	Q9H579	CT132_HUMAN	hypothetical protein LOC140699 isoform 1	143											0		Myeloproliferative disorder(115;0.00878)				AGAATGCGGGCGTTCCTCTTG	0.542													4	19					0	0	0.000602	0	0		T	35788560	T	T	35788560	3	4	4	1	0	0	0	0	1	0	0	0	2089	768	27	1	2548	1	C20orf132	20	35788560	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1015455	35788560	27236960	4130	6096											
CTNNBL1	56259	broad.mit.edu	37	chr20	36500377	36500377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccggagttccgggagaacGagcaaaagcgcatcctgggc	10	4	15	12	4	0	1	0	0	0	1	2	4	2	2	3	3	3	3	3	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:36500377G>A	uc010zvw.1	+	17	1745	c.1654G>A	c.(1654-1656)GAG>AAG	p.E552K	CTNNBL1_uc002xhh.2_Missense_Mutation_p.E365K|CTNNBL1_uc002xhi.2_RNA|CTNNBL1_uc002xhj.2_Missense_Mutation_p.E300K	NM_030877	NP_110517	Q8WYA6	CTBL1_HUMAN	beta catenin-like 1	552					apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)				CCGGGAGAACGAGCAAAAGCG	0.577													4	52					0	0	0.001168	0	0		A	36500377	A	A	36500377	3	1	4	1	0	0	0	0	1	0	0	0	4021	1059	37	1	1716	1	CTNNBL1	20	36500377	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	711817	36500377	26525143	4131	6097											
TGM2	7052	broad.mit.edu	37	chr20	36779458	36779458	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtccaggtacacagcatcCgctgcaggcaggaagaaagg	13	4	14	10	1	0	1	0	0	0	1	2	3	2	2	2	4	3	5	2	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:36779458C>T	uc002xhr.2	-	4	535	c.435G>A	c.(433-435)GCG>GCA	p.A145A	TGM2_uc010zvx.1_Silent_p.A64A|TGM2_uc010zvy.1_Silent_p.A85A|TGM2_uc002xhs.1_Silent_p.A121A|TGM2_uc002xht.2_Silent_p.A145A|TGM2_uc002xhu.3_Silent_p.A145A	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	145					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)	ACACAGCATCCGCTGCAGGCA	0.587													10	72					0	0	0.00245	0	0		T	36779458	T	T	36779458	2	4	4	1	0	0	0	0	0	0	0	1	15855	666	23	1		1	TGM2	20	36779458	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	279081	36779458	26246062	4132	6098											
KIAA1755	85449	broad.mit.edu	37	chr20	36869866	36869866	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggaagcacctggttgtctgGggagctggcctggtgcaact	7	9	16	9	0	1	0	0	0	1	0	1	2	1	2	2	6	4	4	2	6	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:36869866G>T	uc002xhy.1	-	3	939	c.667C>A	c.(667-669)CCA>ACA	p.P223T	KIAA1755_uc002xhz.1_Missense_Mutation_p.P223T	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	223										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				TGGTTGTCTGGGGAGCTGGCC	0.587													25	50					2.48779e-11	2.68585e-11	0.005443	1	0		T	36869866	T	T	36869866	3	4	4	1	0	0	0	0	1	0	0	0	8273	1232	43	5	2983	5	KIAA1755	20	36869866	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	90408	36869866	26155654	4133	6099											
RALGAPB	57148	broad.mit.edu	37	chr20	37168459	37168459	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagaccggaagcgagccaTcagttctgtgtgcacctaca	11	7	12	11	2	2	1	1	0	1	1	2	4	2	2	3	2	4	2	3	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37168459T>A	uc002xiw.2	+	17	2677	c.2420T>A	c.(2419-2421)ATC>AAC	p.I807N	RALGAPB_uc002xix.2_Missense_Mutation_p.I803N|RALGAPB_uc002xiy.1_Missense_Mutation_p.I807N|RALGAPB_uc002xiz.2_Missense_Mutation_p.I585N|RALGAPB_uc002xja.1_Missense_Mutation_p.I534N	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	807					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						AAGCGAGCCATCAGTTCTGTG	0.453													5	94					0	0	0.001984	0	0		A	37168459	A	A	37168459	3	1	4	1	0	0	0	0	1	0	0	0	13040	1435	50	5	2482	5	RALGAPB	20	37168459	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	298593	37168459	25857061	4134	6100											
RALGAPB	57148	broad.mit.edu	37	chr20	37194098	37194098	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacagaaattgcttttgtggTtccttctcctgtggagtcct	6	17	9	9	0	1	1	0	0	1	1	4	2	3	2	3	2	2	2	3	2	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37194098T>C	uc002xiw.2	+	25	4051	c.3794T>C	c.(3793-3795)GTT>GCT	p.V1265A	RALGAPB_uc002xix.2_Missense_Mutation_p.V1262A|RALGAPB_uc002xiy.1_Intron|RALGAPB_uc002xiz.2_Missense_Mutation_p.V1044A	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	1265	Rap-GAP.				activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						GCTTTTGTGGTTCCTTCTCCT	0.383													19	198					0	0	0.002299	0	0		C	37194098	C	C	37194098	3	2	4	1	0	0	0	0	1	0	0	0	13040	1725	60	3	3888	3	RALGAPB	20	37194098	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	25639	37194098	25831422	4135	6101											
SLC32A1	140679	broad.mit.edu	37	chr20	37353656	37353656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctcctctgccgccctccGgctccaaggaccaggtggga	6	6	13	16	2	1	0	0	0	1	0	4	3	4	2	6	4	2	2	6	4	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37353656G>A	uc002xjc.2	+	1	552	c.289G>A	c.(289-291)GGC>AGC	p.G97S		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	97	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	GCCGCCCTCCGGCTCCAAGGA	0.667													4	45					0	0	0.000602	0	0		A	37353656	A	A	37353656	3	1	4	1	0	0	0	0	1	0	0	0	14590	1116	39	1	291	1	SLC32A1	20	37353656	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	159558	37353656	25671864	4136	6102											
SLC32A1	140679	broad.mit.edu	37	chr20	37356122	37356122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgctgggcctaccctacGccatcctgcacggcggctac	5	8	11	17	4	0	0	0	0	0	0	2	0	1	0	4	3	5	3	4	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37356122G>A	uc002xjc.2	+	2	681	c.418G>A	c.(418-420)GCC>ACC	p.A140T		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	140	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CCTACCCTACGCCATCCTGCA	0.647													13	44					0	0	0.004007	0	0		A	37356122	A	A	37356122	3	1	4	1	0	0	0	0	1	0	0	0	14590	1087	38	1	424	1	SLC32A1	20	37356122	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2466	37356122	25669398	4137	6103											
SLC32A1	140679	broad.mit.edu	37	chr20	37356232	37356232	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtacgaggagaatgaagaCggcgaggtggtgcgcgtgcg	9	6	19	7	6	0	3	0	1	0	2	0	6	0	3	0	4	3	1	0	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37356232C>T	uc002xjc.2	+	2	791	c.528C>T	c.(526-528)GAC>GAT	p.D176D		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	176	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	AGAATGAAGACGGCGAGGTGG	0.647													6	43					0	0	0.001168	0	0		T	37356232	T	T	37356232	2	4	4	1	0	0	0	0	0	0	0	1	14590	535	19	1		1	SLC32A1	20	37356232	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	110	37356232	25669288	4138	6104											
SLC32A1	140679	broad.mit.edu	37	chr20	37357187	37357187	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagtcttcttcgacgtcGccatcttcgtcatcggcggc	6	11	9	15	6	4	0	1	0	3	0	8	1	4	0	2	2	0	0	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37357187G>A	uc002xjc.2	+	2	1746	c.1483G>A	c.(1483-1485)GCC>ACC	p.A495T		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	495	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CTTCGACGTCGCCATCTTCGT	0.647													4	24					0	0	0.001168	0	0		A	37357187	A	A	37357187	3	1	4	1	0	0	0	0	1	0	0	0	14590	1087	38	1	1489	1	SLC32A1	20	37357187	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	955	37357187	25668333	4139	6105											
ACTR5	79913	broad.mit.edu	37	chr20	37380797	37380797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgctaaaaactgcaagcGcatcaatcttggaggaagcc	15	7	10	9	1	2	1	1	0	1	1	2	3	2	3	1	2	5	3	1	2	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37380797G>A	uc002xjd.2	+	3	654	c.629G>A	c.(628-630)CGC>CAC	p.R210H		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	210					DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)				AACTGCAAGCGCATCAATCTT	0.493													7	61					0	0	0.00308	0	0		A	37380797	A	A	37380797	3	1	4	1	0	0	0	0	1	0	0	0	215	1087	38	1	639	1	ACTR5	20	37380797	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	23610	37380797	25644723	4140	6106											
PPP1R16B	26051	broad.mit.edu	37	chr20	37531340	37531340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagagaaaatcaacgagatgCgggtggctcctgagcagcag	14	5	14	8	2	1	3	1	1	0	2	2	5	2	3	1	2	4	3	1	2	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37531340C>T	uc002xje.2	+	6	790	c.601C>T	c.(601-603)CGG>TGG	p.R201W	PPP1R16B_uc010ggc.2_Missense_Mutation_p.R201W	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	201					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CAACGAGATGCGGGTGGCTCC	0.582													10	124					0	0	0.000978	0	0		T	37531340	T	T	37531340	3	4	4	1	0	0	0	0	1	0	0	0	12388	759	27	1	619	1	PPP1R16B	20	37531340	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	150543	37531340	25494180	4141	6107											
DHX35	60625	broad.mit.edu	37	chr20	37634988	37634988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctcgggaaaatgttatcGcctttatacaggttagtgtg	9	14	11	7	3	0	0	0	0	0	0	3	1	0	1	1	2	1	3	1	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37634988G>A	uc002xjh.2	+	12	1222	c.1211G>A	c.(1210-1212)CGC>CAC	p.R404H	DHX35_uc010zwa.1_Missense_Mutation_p.R249H|DHX35_uc010zwb.1_Missense_Mutation_p.R249H|DHX35_uc010zwc.1_Missense_Mutation_p.R373H	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	404	Helicase C-terminal.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AAATGTTATCGCCTTTATACA	0.478													25	121					0	0	0.00278	0	0		A	37634988	A	A	37634988	3	1	4	1	0	0	0	0	1	0	0	0	4514	1087	38	1	1257	1	DHX35	20	37634988	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	103648	37634988	25390532	4142	6108											
DHX35	60625	broad.mit.edu	37	chr20	37653971	37653971	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattgaaaaagcttcttgtCaagtttcaagtgcccaggaa	14	11	8	8	0	3	1	2	1	1	0	3	2	3	2	1	1	2	2	1	1	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37653971C>A	uc002xjh.2	+	18	1781	c.1770C>A	c.(1768-1770)GTC>GTA	p.V590V	DHX35_uc010zwa.1_Silent_p.V435V|DHX35_uc010zwb.1_Silent_p.V435V|DHX35_uc010zwc.1_Silent_p.V559V	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	590						catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AGCTTCTTGTCAAGTTTCAAG	0.438													198	195					1.69577e-87	1.86471e-87	0.00361	1	0		A	37653971	A	A	37653971	2	1	4	1	0	0	0	0	0	0	0	1	4514	813	29	5		5	DHX35	20	37653971	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	18983	37653971	25371549	4143	6109											
PLCG1	5335	broad.mit.edu	37	chr20	39798904	39798904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggcccagacagcagacGccagggtgagattctgctgg	10	6	15	10	1	1	3	0	1	1	3	1	4	1	3	2	3	2	2	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:39798904G>A	uc002xjp.1	+	24	2924	c.2803G>A	c.(2803-2805)GCC>ACC	p.A935T	PLCG1_uc002xjo.1_Missense_Mutation_p.A935T|PLCG1_uc010zwe.1_Missense_Mutation_p.A561T|PLCG1_uc010ggf.2_Missense_Mutation_p.A259T	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	935					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				GACAGCAGACGCCAGGGTGAG	0.647													11	32					0	0	0.00499	0	0		A	39798904	A	A	39798904	3	1	4	1	0	0	0	0	1	0	0	0	12054	1087	38	1	2897	1	PLCG1	20	39798904	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2144933	39798904	23226616	4144	6110											
ZHX3	23051	broad.mit.edu	37	chr20	39831218	39831218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtctggacaaagagctgcCgcagcaagtgccgctgctgg	8	7	15	11	2	1	1	0	0	1	1	1	2	1	2	2	2	5	5	2	2	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:39831218C>T	uc002xjs.1	-	3	2717	c.2339G>A	c.(2338-2340)CGG>CAG	p.R780Q	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Missense_Mutation_p.R780Q|ZHX3_uc002xjt.1_Missense_Mutation_p.R780Q|ZHX3_uc002xju.1_Missense_Mutation_p.R780Q|ZHX3_uc002xjv.1_Missense_Mutation_p.R780Q|ZHX3_uc002xjw.1_Missense_Mutation_p.R780Q|ZHX3_uc010ggg.1_Missense_Mutation_p.R780Q	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	780	Homeobox 4.				negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				AAAGAGCTGCCGCAGCAAGTG	0.587													21	37					0	0	0.009535	0	0		T	39831218	T	T	39831218	3	4	4	1	0	0	0	0	1	0	0	0	17702	652	23	1	539	1	ZHX3	20	39831218	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	32314	39831218	23194302	4145	6111											
ZHX3	23051	broad.mit.edu	37	chr20	39831460	39831460	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttcaccagagacccttagCtcactggccaaatcctcttc	9	12	5	15	0	3	1	2	0	1	1	5	2	4	1	4	1	1	1	4	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:39831460C>T	uc002xjs.1	-	3	2475	c.2097G>A	c.(2095-2097)GAG>GAA	p.E699E	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Silent_p.E699E|ZHX3_uc002xjt.1_Silent_p.E699E|ZHX3_uc002xju.1_Silent_p.E699E|ZHX3_uc002xjv.1_Silent_p.E699E|ZHX3_uc002xjw.1_Silent_p.E699E|ZHX3_uc010ggg.1_Silent_p.E699E	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	699					negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				AGACCCTTAGCTCACTGGCCA	0.517													6	108					0	0	0.001168	0	0		T	39831460	T	T	39831460	2	4	4	1	0	0	0	0	0	0	0	1	17702	796	28	2		2	ZHX3	20	39831460	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	242	39831460	23194060	4146	6112											
EMILIN3	90187	broad.mit.edu	37	chr20	39993728	39993728	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgccggtattcagccttTacgtagctctccgctccctc	5	12	7	17	3	2	0	1	0	1	0	5	0	3	0	4	1	4	4	4	1	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:39993728T>A	uc002xjy.1	-	2	461	c.237A>T	c.(235-237)GTA>GTT	p.V79V		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	79	EMI.					proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				ATTCAGCCTTTACGTAGCTCT	0.572													4	63					0	0	0.009096	0	0		A	39993728	A	A	39993728	2	1	4	1	0	0	0	0	0	0	0	1	5103	1741	61	5		5	EMILIN3	20	39993728	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	162268	39993728	23031792	4147	6113											
CHD6	84181	broad.mit.edu	37	chr20	40050618	40050618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcagctgagggcacttgaGcacttgctctcggactttcc	7	11	11	12	1	1	2	0	2	1	0	3	3	2	3	1	2	4	5	1	2	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:40050618G>A	uc002xka.1	-	31	4835	c.4657C>T	c.(4657-4659)CTC>TTC	p.L1553F		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1553					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				GGGCACTTGAGCACTTGCTCT	0.557													18	49					0	0	0.006122	0	0		A	40050618	A	A	40050618	3	1	4	1	0	0	0	0	1	0	0	0	3332	971	34	2	3518	2	CHD6	20	40050618	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	56890	40050618	22974902	4148	6114											
CHD6	84181	broad.mit.edu	37	chr20	40111989	40111989	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctaggatgtcgaggcagcGcaccatctgggagaagatga	11	8	14	8	2	2	3	0	1	2	2	3	6	2	4	1	3	1	2	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:40111989G>A	uc002xka.1	-	16	2606	c.2428C>T	c.(2428-2430)CGC>TGC	p.R810C	CHD6_uc002xkd.2_Missense_Mutation_p.R788C	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	810	Helicase C-terminal.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TCGAGGCAGCGCACCATCTGG	0.463													20	75					0	0	0.00333	0	0		A	40111989	A	A	40111989	3	1	4	1	0	0	0	0	1	0	0	0	3332	1087	38	1	5807	1	CHD6	20	40111989	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	61371	40111989	22913531	4149	6115											
CHD6	84181	broad.mit.edu	37	chr20	40120415	40120415	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttactgttcttatactcGcgagacttctcaagtttctg	7	17	8	9	2	3	1	1	0	3	1	5	2	3	1	0	1	2	3	0	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:40120415G>A	uc002xka.1	-	11	1537	c.1359C>T	c.(1357-1359)CGC>CGT	p.R453R	CHD6_uc002xkd.2_Silent_p.R431R	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	453					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TCTTATACTCGCGAGACTTCT	0.468													10	78					0	0	0.006214	0	0		A	40120415	A	A	40120415	2	1	4	1	0	0	0	0	0	0	0	1	3332	1074	38	1		1	CHD6	20	40120415	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8426	40120415	22905105	4150	6116											
PTPRT	11122	broad.mit.edu	37	chr20	40714491	40714491	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggccagtactgcatacaGaactgagataaggaaagagg	16	6	12	7	0	1	3	1	1	0	3	1	5	1	4	1	3	4	2	1	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:40714491G>T	uc002xkg.2	-	28	4033	c.3849C>A	c.(3847-3849)TTC>TTA	p.F1283L	PTPRT_uc010ggj.2_Missense_Mutation_p.F1302L|PTPRT_uc010ggi.2_Missense_Mutation_p.F486L	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1283	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				ACTGCATACAGAACTGAGATA	0.463													8	71					1.58986e-06	1.6861e-06	0.008291	1	0		T	40714491	T	T	40714491	3	4	4	1	0	0	0	0	1	0	0	0	12837	933	33	5	492	5	PTPRT	20	40714491	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	594076	40714491	22311029	4151	6117											
PTPRT	11122	broad.mit.edu	37	chr20	41400120	41400120	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccacttcccaccagcaatGcactgaaatgtggcattctg	11	9	8	13	0	1	1	0	1	1	0	2	2	2	1	3	1	2	3	3	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:41400120G>A	uc002xkg.2	-	5	823	c.639C>T	c.(637-639)TGC>TGT	p.C213C	PTPRT_uc010ggj.2_Silent_p.C213C	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	213	Extracellular (Potential).|Ig-like C2-type.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CACCAGCAATGCACTGAAATG	0.468													53	309					0	0	0.00361	0	0		A	41400120	A	A	41400120	2	1	4	1	0	0	0	0	0	0	0	1	12837	1311	46	2		2	PTPRT	20	41400120	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	685629	41400120	21625400	4152	6118											
SFRS6	6431	broad.mit.edu	37	chr20	42088823	42088823	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatggcagaaatattaggCttattgaagataagccacgc	16	10	9	6	1	0	3	0	1	0	2	0	3	0	3	1	2	1	2	1	2	8	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:42088823C>A	uc010zwg.1	+	4	702	c.532C>A	c.(532-534)CTT>ATT	p.L178I	SFRS6_uc002xki.2_Missense_Mutation_p.L49I|SFRS6_uc002xkk.2_Missense_Mutation_p.L178I	NM_006275	NP_006266	Q13247	SRSF6_HUMAN	arginine/serine-rich splicing factor 6	178	RRM 2.				mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AAATATTAGGCTTATTGAAGA	0.433													12	44					0.000978159	0.00101915	0.000978	1	0		A	42088823	A	A	42088823	3	1	4	1	0	0	0	0	1	0	0	0	14206	797	28	5	546	5	SFRS6	20	42088823	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	688703	42088823	20936697	4153	6119											
MYBL2	4605	broad.mit.edu	37	chr20	42311438	42311438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgttcttttcccagaaccGcactgaccagcaatgccagt	9	11	7	14	1	2	2	0	1	2	1	3	2	3	2	4	0	3	3	4	0	2	3	rs149840592		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:42311438G>A	uc002xlb.1	+	4	406	c.191G>A	c.(190-192)CGC>CAC	p.R64H	MYBL2_uc010zwj.1_Missense_Mutation_p.R40H|MYBL2_uc002xla.1_Missense_Mutation_p.R64H	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	64	H-T-H motif (By similarity).|HTH myb-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TCCCAGAACCGCACTGACCAG	0.527													45	336					0	0	0.00361	0	0		A	42311438	A	A	42311438	3	1	4	1	0	0	0	0	1	0	0	0	10028	1087	38	1	205	1	MYBL2	20	42311438	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	222615	42311438	20714082	4154	6120											
MYBL2	4605	broad.mit.edu	37	chr20	42338670	42338670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaaccccgttcaagaacGccctggagaagtacggaccc	11	4	10	16	4	1	2	1	0	0	2	1	4	1	3	5	2	3	2	5	2	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:42338670G>A	uc002xlb.1	+	10	1788	c.1573G>A	c.(1573-1575)GCC>ACC	p.A525T	MYBL2_uc010zwj.1_Missense_Mutation_p.A501T	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	525						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			GTTCAAGAACGCCCTGGAGAA	0.582													37	247					0	0	0.006999	0	0		A	42338670	A	A	42338670	3	1	4	1	0	0	0	0	1	0	0	0	10028	1087	38	1	1611	1	MYBL2	20	42338670	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	27232	42338670	20686850	4155	6121											
JPH2	57158	broad.mit.edu	37	chr20	42815111	42815111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcccttgtagagccagcGccccttggtctctatgccca	5	10	9	17	2	1	1	0	0	1	1	3	1	1	1	5	1	3	1	5	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:42815111G>A	uc002xli.1	-	1	1108	c.235C>T	c.(235-237)CGC>TGC	p.R79C	JPH2_uc002xlj.2_Missense_Mutation_p.R79C	NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	79	Gly-rich.|MORN 3.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			TAGAGCCAGCGCCCCTTGGTC	0.597													9	59					0	0	0.00245	0	0		A	42815111	A	A	42815111	3	1	4	1	0	0	0	0	1	0	0	0	7977	1087	38	1	1890	1	JPH2	20	42815111	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	476441	42815111	20210409	4156	6122											
PABPC1L	80336	broad.mit.edu	37	chr20	43559194	43559194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgacagagatgaacgggCgcatcgtgggcaccaagcca	11	4	14	12	4	0	3	0	2	0	1	1	4	0	3	3	2	2	2	3	2	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:43559194C>T	uc010ggv.1	+	8	1148	c.1066C>T	c.(1066-1068)CGC>TGC	p.R356C	PABPC1L_uc010zwq.1_RNA|PABPC1L_uc002xmv.2_RNA|PABPC1L_uc002xmw.2_5'Flank|PABPC1L_uc002xmx.2_5'Flank	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	356	RRM 4.						nucleotide binding|RNA binding			ovary(1)	1						GATGAACGGGCGCATCGTGGG	0.577													9	141					0	0	0.004482	0	0		T	43559194	T	T	43559194	3	4	4	1	0	0	0	0	1	0	0	0	11383	768	27	1	1096	1	PABPC1L	20	43559194	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	744083	43559194	19466326	4157	6123											
STK4	6789	broad.mit.edu	37	chr20	43607098	43607098	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtataggtcctatggcagcgTatacaaagctattcataaag	14	11	9	7	1	1	0	1	0	0	0	2	0	2	0	1	2	3	4	1	2	9	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:43607098T>C	uc002xnb.2	+	3	221	c.131T>C	c.(130-132)GTA>GCA	p.V44A	STK4_uc010ggx.2_Missense_Mutation_p.V44A|STK4_uc010ggy.2_Missense_Mutation_p.V44A|STK4_uc010ggw.1_Missense_Mutation_p.V44A	NM_006282	NP_006273	Q13043	STK4_HUMAN	serine/threonine kinase 4	44	ATP (By similarity).|Protein kinase.				apoptosis|cell morphogenesis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of apoptosis|protein autophosphorylation	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein homodimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity|transcription factor binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				TATGGCAGCGTATACAAAGCT	0.378													7	70					0	0	0.006214	0	0		C	43607098	C	C	43607098	3	2	4	1	0	0	0	0	1	0	0	0	15331	1638	57	3	141	3	STK4	20	43607098	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	47904	43607098	19418422	4158	6124											
RBPJL	11317	broad.mit.edu	37	chr20	43940918	43940918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagacaagaggaagcactttCggctggtgctgcggctggtg	8	8	16	9	2	0	2	0	0	0	2	1	3	0	3	0	5	3	4	0	5	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:43940918C>T	uc002xns.2	+	6	574	c.502C>T	c.(502-504)CGG>TGG	p.R168W	RBPJL_uc002xnt.2_Missense_Mutation_p.R168W	NM_014276	NP_055091	Q9UBG7	RBPJL_HUMAN	recombining binding protein L	168					signal transduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GAAGCACTTTcggctggtgct	0.517													4	21					0	0	0.001984	0	0		T	43940918	T	T	43940918	3	4	4	1	0	0	0	0	1	0	0	0	13187	875	31	1	524	1	RBPJL	20	43940918	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	333820	43940918	19084602	4159	6125											
ZNF335	63925	broad.mit.edu	37	chr20	44592274	44592274	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcaaaagtggtttgggCgacttgtaatagtacctgca	10	11	12	8	1	1	0	1	0	0	0	1	1	1	0	2	3	2	4	2	3	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44592274C>T	uc002xqw.2	-	9	1494	c.1371G>A	c.(1369-1371)TCG>TCA	p.S457S	ZNF335_uc010zxk.1_Silent_p.S302S	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	457					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				GTGGTTTGGGCGACTTGTAAT	0.577													13	173					0	0	0.00499	0	0		T	44592274	T	T	44592274	2	4	4	1	0	0	0	0	0	0	0	1	17877	755	27	1		1	ZNF335	20	44592274	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	651356	44592274	18433246	4160	6126											
SLC12A5	57468	broad.mit.edu	37	chr20	44678261	44678261	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgactctgcacactcttcagGccacagctgctggtgctggt	6	11	11	13	0	3	1	1	1	2	0	3	1	3	1	1	3	4	4	1	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44678261G>A	uc010zxl.1	+	17	2158	c.2082G>A	c.(2080-2082)AGG>AGA	p.R694R	SLC12A5_uc010zxm.1_RNA|SLC12A5_uc002xrb.2_Silent_p.R671R	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	694					potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	CACTCTTCAGGCCACAGCTGC	0.552													3	19					0	0	0.004672	0	0		A	44678261	A	A	44678261	2	1	4	1	0	0	0	0	0	0	0	1	14411	1217	42	2		2	SLC12A5	20	44678261	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	85987	44678261	18347259	4161	6127											
SLC12A5	57468	broad.mit.edu	37	chr20	44680471	44680471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctggccccgcaactggcGccagaaggaagatcatcaga	11	5	13	12	2	2	3	2	0	0	3	2	4	2	4	3	4	1	2	3	4	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44680471G>A	uc010zxl.1	+	18	2484	c.2408G>A	c.(2407-2409)CGC>CAC	p.R803H	SLC12A5_uc002xrb.2_Missense_Mutation_p.R780H	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	803					potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	CGCAACTGGCGCCAGAAGGAA	0.617													7	37					0	0	0.000978	0	0		A	44680471	A	A	44680471	3	1	4	1	0	0	0	0	1	0	0	0	14411	1087	38	1	2534	1	SLC12A5	20	44680471	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2210	44680471	18345049	4162	6128											
SLC12A5	57468	broad.mit.edu	37	chr20	44685882	44685882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgaagaaatcccgggacGccaagcttgttttgctcaac	10	10	10	11	3	1	2	1	1	0	1	3	3	2	3	2	1	3	3	2	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44685882G>A	uc010zxl.1	+	25	3344	c.3268G>A	c.(3268-3270)GCC>ACC	p.A1090T	SLC12A5_uc002xrb.2_Missense_Mutation_p.A1067T	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	1090	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	ATCCCGGGACGCCAAGCTTGT	0.577													16	120					0	0	0.00499	0	0		A	44685882	A	A	44685882	3	1	4	1	0	0	0	0	1	0	0	0	14411	1087	38	1	3422	1	SLC12A5	20	44685882	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5411	44685882	18339638	4163	6129											
NCOA5	57727	broad.mit.edu	37	chr20	44695817	44695817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgttcctcacgtttcaaaCgctctgcaaaacaccaccag	11	8	6	16	3	3	0	2	0	1	0	4	0	4	0	4	0	3	4	4	0	3	2	rs138863222	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44695817C>T	uc002xrd.2	-	4	1034	c.506G>A	c.(505-507)CGT>CAT	p.R169H	NCOA5_uc002xrc.2_Missense_Mutation_p.R57H|NCOA5_uc002xre.2_Missense_Mutation_p.R169H	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	169					regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				ACGTTTCAAACGCTCTGCAAA	0.433													7	150					0	0	0.001984	0	0		T	44695817	T	T	44695817	3	4	4	1	0	0	0	0	1	0	0	0	10251	536	19	1	1249	1	NCOA5	20	44695817	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	9935	44695817	18329703	4164	6130											
NCOA5	57727	broad.mit.edu	37	chr20	44698981	44698981	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgtcccgaacgtcgcgcAcactcctgctgtctctgtga	6	10	9	16	5	2	1	1	1	1	0	6	2	4	1	2	0	2	2	2	0	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44698981A>G	uc002xrd.2	-	2	761	c.233T>C	c.(232-234)GTG>GCG	p.V78A	NCOA5_uc002xrc.2_5'UTR|NCOA5_uc002xre.2_Missense_Mutation_p.V78A	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	78	Arg/Asp-rich (mixed charge).|Transcription repression.				regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				AACGTCGCGCACACTCCTGCT	0.552													18	174					0	0	0.010504	0	0		G	44698981	G	G	44698981	3	3	4	1	0	0	0	0	1	0	0	0	10251	159	6	3	1530	3	NCOA5	20	44698981	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	3164	44698981	18326539	4165	6131											
CDH22	64405	broad.mit.edu	37	chr20	44845612	44845612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctctcgcggtcaaggtcagGcacagccgtccggattacgc	7	7	13	14	5	3	0	2	0	1	0	5	1	4	1	2	4	2	2	2	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44845612G>A	uc002xrm.2	-	4	1092	c.691C>T	c.(691-693)CCT>TCT	p.P231S	CDH22_uc010ghk.1_Missense_Mutation_p.P231S|CDH22_uc002xrn.1_5'UTR	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	231	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				TCAAGGTCAGGCACAGCCGTC	0.657													5	55					0	0	0.001168	0	0		A	44845612	A	A	44845612	3	1	4	1	0	0	0	0	1	0	0	0	3110	1203	42	2	1827	2	CDH22	20	44845612	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	146631	44845612	18179908	4166	6132											
ELMO2	63916	broad.mit.edu	37	chr20	45003964	45003964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgctaggatcagactctgCgtcaaatgcaatcctcctca	11	11	7	12	1	4	1	3	0	1	1	6	2	6	2	2	1	3	2	2	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:45003964C>T	uc002xrt.1	-	13	1186	c.976G>A	c.(976-978)GCA>ACA	p.A326T	ELMO2_uc010zxq.1_Missense_Mutation_p.A58T|ELMO2_uc002xrs.1_Missense_Mutation_p.A73T|ELMO2_uc002xru.1_Missense_Mutation_p.A326T|ELMO2_uc010zxr.1_Missense_Mutation_p.A338T|ELMO2_uc010zxs.1_Missense_Mutation_p.A143T|ELMO2_uc002xrv.1_Missense_Mutation_p.A45T|ELMO2_uc002xrw.2_Missense_Mutation_p.A143T|ELMO2_uc002xrx.1_Missense_Mutation_p.A326T	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2	326	ELMO.				apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				TCAGACTCTGCGTCAAATGCA	0.493													16	76					0	0	0.00499	0	0		T	45003964	T	T	45003964	3	4	4	1	0	0	0	0	1	0	0	0	5074	768	27	1	1226	1	ELMO2	20	45003964	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	158352	45003964	18021556	4167	6133											
SLC13A3	64849	broad.mit.edu	37	chr20	45212284	45212284	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatggtgacaatagccacGccggtgacagcatcagaaag	15	5	12	9	2	1	4	1	2	0	2	1	4	1	4	2	2	2	1	2	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:45212284G>A	uc002xsf.1	-	9	1184	c.1146C>T	c.(1144-1146)GGC>GGT	p.G382G	SLC13A3_uc010ghn.1_Silent_p.G351G|SLC13A3_uc010zxw.1_Silent_p.G332G|SLC13A3_uc002xsg.1_Silent_p.G335G|SLC13A3_uc010gho.1_Silent_p.G300G|SLC13A3_uc010zxx.1_Silent_p.G284G|SLC13A3_uc010zxv.1_Missense_Mutation_p.A5V	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	382	Helical; (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	CAATAGCCACGCCGGTGACAG	0.532													27	86					0	0	0.002836	0	0		A	45212284	A	A	45212284	2	1	4	1	0	0	0	0	0	0	0	1	14418	1074	38	1		1	SLC13A3	20	45212284	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	208320	45212284	17813236	4168	6134											
EYA2	2139	broad.mit.edu	37	chr20	45702898	45702898	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcagcatctgcccttcGcccctctccacgtccaccta	6	8	6	21	2	2	0	0	0	2	0	5	0	3	0	7	0	3	2	7	0	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:45702898G>A	uc002xsm.2	+	7	959	c.585G>A	c.(583-585)TCG>TCA	p.S195S	EYA2_uc010ghp.2_Silent_p.S195S|EYA2_uc002xsn.2_Silent_p.S200S|EYA2_uc002xso.2_Silent_p.S195S|EYA2_uc002xsp.2_Silent_p.S195S|EYA2_uc002xsq.2_Silent_p.S195S	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a	195					DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)				TCTGCCCTTCGCCCCTCTCCA	0.617													7	91					0	0	0.006214	0	0		A	45702898	A	A	45702898	2	1	4	1	0	0	0	0	0	0	0	1	5337	1074	38	1		1	EYA2	20	45702898	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	490614	45702898	17322622	4169	6135											
ZMYND8	23613	broad.mit.edu	37	chr20	45910870	45910870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catgttgtccaaagaatcggGcatcgacctgcccgtcttta	9	11	9	12	3	1	1	0	0	1	1	4	2	2	1	3	1	1	2	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:45910870G>A	uc002xta.1	-	10	1168	c.914C>T	c.(913-915)GCC>GTC	p.A305V	ZMYND8_uc010ghr.1_Missense_Mutation_p.A280V|ZMYND8_uc002xst.1_Missense_Mutation_p.A280V|ZMYND8_uc002xsu.1_Missense_Mutation_p.A305V|ZMYND8_uc002xsv.1_Missense_Mutation_p.A280V|ZMYND8_uc002xsw.1_Missense_Mutation_p.A57V|ZMYND8_uc002xsx.1_Missense_Mutation_p.A57V|ZMYND8_uc002xsy.1_Missense_Mutation_p.A280V|ZMYND8_uc002xsz.1_Missense_Mutation_p.A242V|ZMYND8_uc010zxy.1_Missense_Mutation_p.A332V|ZMYND8_uc002xtb.1_Missense_Mutation_p.A325V|ZMYND8_uc002xss.2_Missense_Mutation_p.A305V|ZMYND8_uc010zxz.1_Missense_Mutation_p.A300V|ZMYND8_uc002xtc.1_Missense_Mutation_p.A325V|ZMYND8_uc002xtd.1_Missense_Mutation_p.A300V|ZMYND8_uc002xte.1_Missense_Mutation_p.A305V|ZMYND8_uc010zya.1_Missense_Mutation_p.A305V|ZMYND8_uc002xtf.1_Missense_Mutation_p.A325V|ZMYND8_uc002xtg.2_Missense_Mutation_p.A299V|ZMYND8_uc010ghs.1_Missense_Mutation_p.A299V	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	305	PWWP.						protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			AAAGAATCGGGCATCGACCTG	0.448													6	135					0	0	0.004482	0	0		A	45910870	A	A	45910870	3	1	4	1	0	0	0	0	1	0	0	0	17736	1203	42	2	2648	2	ZMYND8	20	45910870	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	207972	45910870	17114650	4170	6136											
NCOA3	8202	broad.mit.edu	37	chr20	46264165	46264165	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggcggcatgagtatgtcGccaaaccaaggcttacagat	12	8	12	9	2	0	2	0	1	0	1	1	2	0	2	2	3	2	4	2	3	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:46264165G>A	uc002xtk.2	+	11	1417	c.1212G>A	c.(1210-1212)TCG>TCA	p.S404S	NCOA3_uc010ght.1_Silent_p.S414S|NCOA3_uc002xtl.2_Silent_p.S404S|NCOA3_uc002xtm.2_Silent_p.S404S|NCOA3_uc002xtn.2_Silent_p.S404S|NCOA3_uc010zyc.1_Silent_p.S199S	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	404					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						TGAGTATGTCGCCAAACCAAG	0.532													8	63					0	0	0.004482	0	0		A	46264165	A	A	46264165	2	1	4	1	0	0	0	0	0	0	0	1	10249	1074	38	1		1	NCOA3	20	46264165	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	353295	46264165	16761355	4171	6137											
PREX1	57580	broad.mit.edu	37	chr20	47247280	47247280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acatacctggtctatctttaCcgccgtggtgctggcatccg	6	12	10	13	3	2	0	0	0	2	0	3	0	3	0	4	3	3	2	4	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:47247280C>T	uc002xtw.1	-	36	4602	c.4579G>A	c.(4579-4581)GTA>ATA	p.V1527I	PREX1_uc002xtv.1_Missense_Mutation_p.V824I	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1527					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			TCTATCTTTACCGCCGTGGTG	0.627													6	59					0	0	0.001984	0	0		T	47247280	T	T	47247280	3	4	4	1	0	0	0	0	1	0	0	0	12498	507	18	4	420	4	PREX1	20	47247280	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	983115	47247280	15778240	4172	6138											
PREX1	57580	broad.mit.edu	37	chr20	47364404	47364404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggccacgttctgccggatgCgatgcaggaatgcctggagg	7	7	16	11	4	1	0	0	0	1	0	1	4	1	3	3	5	4	2	3	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:47364404C>T	uc002xtw.1	-	2	256	c.233G>A	c.(232-234)CGC>CAC	p.R78H		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	78	DH.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			CTGCCGGATGCGATGCAGGAA	0.592													4	34					0	0	0.009096	0	0		T	47364404	T	T	47364404	3	4	4	1	0	0	0	0	1	0	0	0	12498	768	27	1	4902	1	PREX1	20	47364404	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	117124	47364404	15661116	4173	6139											
ARFGEF2	10564	broad.mit.edu	37	chr20	47614883	47614883	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggcctgtagttgactttgtCcgctggctgtgtgctgtgtc	2	16	14	9	1	0	1	0	1	0	0	2	1	1	1	2	2	1	5	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:47614883C>T	uc002xtx.3	+	25	3425	c.3273C>T	c.(3271-3273)GTC>GTT	p.V1091V	ARFGEF2_uc010zyf.1_Silent_p.V384V	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1091					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			TTGACTTTGTCCGCTGGCTGT	0.507													12	79					0	0	0.00245	0	0		T	47614883	T	T	47614883	2	4	4	1	0	0	0	0	0	0	0	1	853	842	30	4		4	ARFGEF2	20	47614883	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	250479	47614883	15410637	4174	6140											
ARFGEF2	10564	broad.mit.edu	37	chr20	47639702	47639702	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaaggaggatgcagagcAcatggttgccgcccaggtaa	14	5	13	9	1	0	1	0	0	0	1	0	3	0	3	2	4	3	4	2	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:47639702A>G	uc002xtx.3	+	35	4891	c.4739A>G	c.(4738-4740)CAC>CGC	p.H1580R	ARFGEF2_uc010zyf.1_Missense_Mutation_p.H873R	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1580					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			GATGCAGAGCACATGGTTGCC	0.453													14	49					0	0	0.00499	0	0		G	47639702	G	G	47639702	3	3	4	1	0	0	0	0	1	0	0	0	853	159	6	3	4877	3	ARFGEF2	20	47639702	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	24819	47639702	15385818	4175	6141											
STAU1	6780	broad.mit.edu	37	chr20	47734608	47734608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgatgacttagataaggCatcctgaactcatcctcttt	10	14	7	10	0	2	4	1	3	1	1	4	4	4	4	2	1	2	2	2	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:47734608C>T	uc002xud.2	-	11	1626	c.1215G>A	c.(1213-1215)ATG>ATA	p.M405I	STAU1_uc002xua.2_Missense_Mutation_p.M324I|STAU1_uc002xub.2_Missense_Mutation_p.M330I|STAU1_uc002xuc.2_Missense_Mutation_p.M324I|STAU1_uc002xue.2_Missense_Mutation_p.M324I|STAU1_uc002xuf.2_Missense_Mutation_p.M330I|STAU1_uc002xug.2_Missense_Mutation_p.M405I	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	405						microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			TTAGATAAGGCATCCTGAACT	0.498													10	107					0	0	0.001855	0	0		T	47734608	T	T	47734608	3	4	4	1	0	0	0	0	1	0	0	0	15297	710	25	2	534	2	STAU1	20	47734608	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	94906	47734608	15290912	4176	6142											
ZNFX1	57169	broad.mit.edu	37	chr20	47887009	47887009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaaagacccatagagcaatCgtttggaattctgccagcga	13	8	9	11	2	1	2	0	0	1	2	2	4	1	3	3	1	3	2	3	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:47887009C>T	uc002xui.2	-	3	1587	c.1340G>A	c.(1339-1341)CGA>CAA	p.R447Q		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	447							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			ATAGAGCAATCGTTTGGAATT	0.463													10	237					0	0	0.001368	0	0		T	47887009	T	T	47887009	3	4	4	1	0	0	0	0	1	0	0	0	18230	884	31	1	4464	1	ZNFX1	20	47887009	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	152401	47887009	15138511	4177	6143											
SLC9A8	23315	broad.mit.edu	37	chr20	48503391	48503391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcttcgtgtggctggacGccaagtacctgaaccccttc	7	9	12	13	2	0	1	0	1	0	0	2	2	0	2	4	3	2	3	4	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:48503391G>A	uc002xuv.1	+	15	1804	c.1594G>A	c.(1594-1596)GCC>ACC	p.A532T	SLC9A8_uc010zym.1_Missense_Mutation_p.A232T|SLC9A8_uc010gid.2_Missense_Mutation_p.A156T	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	532						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			GTGGCTGGACGCCAAGTACCT	0.622													5	54					0	0	0.00308	0	0		A	48503391	A	A	48503391	3	1	4	1	0	0	0	0	1	0	0	0	14745	1087	38	1	1652	1	SLC9A8	20	48503391	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	616382	48503391	14522129	4178	6144											
TMEM189	387521	broad.mit.edu	37	chr20	48741643	48741643	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctgcccgaggcttctcGcccgtcaggccctggatgag	5	9	12	15	3	4	1	2	1	2	0	5	3	4	2	3	3	1	1	3	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:48741643G>A	uc002xvg.2	-	6	926	c.765C>T	c.(763-765)GGC>GGT	p.G255G	TMEM189-UBE2V1_uc002xvf.2_Intron|TMEM189_uc010zyq.1_RNA|TMEM189_uc010gif.2_Silent_p.G252G|TMEM189_uc010zyp.1_Silent_p.G180G	NM_199129	NP_954580	A5PLL7	TM189_HUMAN	transmembrane protein 189 isoform 1	255						endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(9;3.02e-07)			GAGGCTTCTCGCCCGTCAGGC	0.572													14	48					0	0	0.004007	0	0		A	48741643	A	A	48741643	2	1	4	1	0	0	0	0	0	0	0	1	16136	1074	38	1		1	TMEM189	20	48741643	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	238252	48741643	14283877	4179	6145											
PARD6B	84612	broad.mit.edu	37	chr20	49366779	49366779	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagccagaggatgaagacagCgaagaagatgacattatcat	17	6	12	6	1	1	6	1	2	0	4	1	9	1	7	1	1	2	0	1	1	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:49366779C>T	uc002xvo.2	+	3	1116	c.873C>T	c.(871-873)AGC>AGT	p.S291S		NM_032521	NP_115910	Q9BYG5	PAR6B_HUMAN	PAR-6 beta	291					axonogenesis|cell cycle|cell division|establishment or maintenance of cell polarity|protein complex assembly|regulation of cell migration|tight junction assembly	cytosol|tight junction	protein binding			kidney(1)	1						ATGAAGACAGCGAAGAAGATG	0.468													16	197					0	0	0.006122	0	0		T	49366779	T	T	49366779	2	4	4	1	0	0	0	0	0	0	0	1	11465	767	27	1		1	PARD6B	20	49366779	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	625136	49366779	13658741	4180	6146											
BCAS4	55653	broad.mit.edu	37	chr20	49446904	49446904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtggcatctatgccaaagTggaccggctagaggtacgtc	9	8	14	10	3	1	1	0	0	1	1	2	2	1	2	2	4	2	3	2	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:49446904T>C	uc002xvq.2	+	3	405	c.341T>C	c.(340-342)GTG>GCG	p.V114A	BCAS4_uc002xvp.1_Missense_Mutation_p.V114A|BCAS4_uc002xvr.2_Missense_Mutation_p.V114A|BCAS4_uc002xvs.2_Missense_Mutation_p.V114A	NM_017843	NP_060313	Q8TDM0	BCAS4_HUMAN	breast carcinoma amplified sequence 4 isoform a	114						cytoplasm					0						TATGCCAAAGTGGACCGGCTA	0.502													15	90					0	0	0.00499	0	0		C	49446904	C	C	49446904	3	2	4	1	0	0	0	0	1	0	0	0	1354	1696	59	3	351	3	BCAS4	20	49446904	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	80125	49446904	13578616	4181	6147											
ATP9A	10079	broad.mit.edu	37	chr20	50305609	50305609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaacggcgcctcacctgatgCgaccacagtgccagcccaca	11	4	9	17	3	1	1	1	1	0	0	1	2	1	1	5	1	4	0	5	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:50305609C>T	uc002xwg.1	-	9	793	c.793G>A	c.(793-795)GCA>ACA	p.A265T	ATP9A_uc010gih.1_Intron|ATP9A_uc002xwf.1_5'UTR	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	265	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						TCACCTGATGCGACCACAGTG	0.483													8	167					0	0	0.008291	0	0		T	50305609	T	T	50305609	3	4	4	1	0	0	0	0	1	0	0	0	1199	768	27	1	2430	1	ATP9A	20	50305609	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	858705	50305609	12719911	4182	6148											
SALL4	57167	broad.mit.edu	37	chr20	50407173	50407173	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttaatggatgtgttggttcGgtgaaccccaaggtgtgtct	7	14	13	7	1	1	1	0	1	1	0	2	2	1	2	2	4	1	2	2	4	3	3	rs74315427		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:50407173G>T	uc002xwh.3	-	2	1950	c.1849C>A	c.(1849-1851)CGA>AGA	p.R617R	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	617					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GTGTTGGTTCGGTGAACCCCA	0.522													12	62					1.3612e-06	1.44477e-06	0.003163	1	0		T	50407173	T	T	50407173	2	4	4	1	0	0	0	0	0	0	0	1	13838	1124	39	5		5	SALL4	20	50407173	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	101564	50407173	12618347	4183	6149											
SALL4	57167	broad.mit.edu	37	chr20	50408447	50408447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgctccgctgattcaccGccaccttggtgccccgtagt	4	9	10	18	5	1	1	1	1	0	0	2	1	2	1	7	1	1	3	7	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:50408447G>A	uc002xwh.3	-	2	676	c.575C>T	c.(574-576)GCG>GTG	p.A192V	SALL4_uc010gii.2_Missense_Mutation_p.A192V|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	192					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTGATTCACCGCCACCTTGGT	0.612													29	103					0	0	0.009535	0	0		A	50408447	A	A	50408447	3	1	4	1	0	0	0	0	1	0	0	0	13838	1087	38	1	2598	1	SALL4	20	50408447	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1274	50408447	12617073	4184	6150											
SALL4	57167	broad.mit.edu	37	chr20	50408840	50408840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacgaagccgctttactgtgGcttcatcctcactcgccacc	7	10	8	16	3	2	0	2	0	0	0	4	2	3	0	4	1	2	2	4	1	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:50408840G>A	uc002xwh.3	-	2	283	c.182C>T	c.(181-183)GCC>GTC	p.A61V	SALL4_uc010gii.2_Missense_Mutation_p.A61V|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	61					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTTTACTGTGGCTTCATCCTC	0.502													6	55					0	0	0.00308	0	0		A	50408840	A	A	50408840	3	1	4	1	0	0	0	0	1	0	0	0	13838	1203	42	2	2991	2	SALL4	20	50408840	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	393	50408840	12616680	4185	6151											
ZFP64	55734	broad.mit.edu	37	chr20	50701279	50701279	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccctgacgaaggaggcgccGcaggtctcacagcggaaggc	9	4	15	13	4	1	1	1	1	1	0	3	4	2	3	2	5	1	1	2	5	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:50701279G>A	uc002xwk.2	-	9	2104	c.1755C>T	c.(1753-1755)TGC>TGT	p.C585C	ZFP64_uc002xwj.2_Silent_p.C366C	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	430	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						AGGAGGCGCCGCAGGTCTCAC	0.612													8	32					0	0	0.004482	0	0		A	50701279	A	A	50701279	2	1	4	1	0	0	0	0	0	0	0	1	17677	1079	38	1		1	ZFP64	20	50701279	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	292439	50701279	12324241	4186	6152											
ZFP64	55734	broad.mit.edu	37	chr20	50781293	50781293	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataagcagtcttgaattggCaacctaaaaaaaaaaaggaa	21	7	7	6	0	1	1	0	1	1	0	1	2	1	2	1	2	2	2	1	2	10	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:50781293C>G	uc002xwl.2	-	4	801	c.452G>C	c.(451-453)TGC>TCC	p.C151S	ZFP64_uc002xwk.2_Missense_Mutation_p.C151S|ZFP64_uc002xwm.2_Missense_Mutation_p.C149S|ZFP64_uc002xwn.2_Missense_Mutation_p.C97S	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTTGAATTGGCAACCTAAAAA	0.254													6	61					0	0	0.001168	0	0		G	50781293	G	G	50781293	3	3	4	1	0	0	0	0	1	0	0	0	17677	710	25	5	2796	5	ZFP64	20	50781293	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	80014	50781293	12244227	4187	6153											
TSHZ2	128553	broad.mit.edu	37	chr20	51873088	51873088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcacagtttgtaacagacGtggatgaagaatagctctgc	13	11	10	7	1	2	3	1	1	1	2	2	4	2	4	0	1	3	3	0	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:51873088G>A	uc002xwo.2	+	2	4047	c.3091G>A	c.(3091-3093)GTG>ATG	p.V1031M		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	1031					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			TGTAACAGACGTGGATGAAGA	0.493													6	210					0	0	0.001168	0	0		A	51873088	A	A	51873088	3	1	4	1	0	0	0	0	1	0	0	0	16650	1145	40	1	3097	1	TSHZ2	20	51873088	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1091795	51873088	11152432	4188	6154											
ZNF217	7764	broad.mit.edu	37	chr20	52193292	52193292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtatctgcagtcagctgCggtctccgtttgcttctctt	3	16	9	13	2	4	0	1	0	3	0	6	0	4	0	2	1	4	5	2	1	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:52193292C>T	uc002xwq.3	-	3	2282	c.2011G>A	c.(2011-2013)GCA>ACA	p.A671T	ZNF217_uc010gij.1_Missense_Mutation_p.A663T	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	671					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			CAGTCAGCTGCGGTCTCCGTT	0.483													13	240					0	0	0.00245	0	0		T	52193292	T	T	52193292	3	4	4	1	0	0	0	0	1	0	0	0	17797	768	27	1	1143	1	ZNF217	20	52193292	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	320204	52193292	10832228	4189	6155											
ZNF217	7764	broad.mit.edu	37	chr20	52198090	52198090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccattttcatccagaggggCggcgaggtcaggagaacacg	10	7	14	10	3	2	2	2	0	0	2	4	4	4	2	2	5	1	0	2	5	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:52198090C>T	uc002xwq.3	-	1	1547	c.1276G>A	c.(1276-1278)GCC>ACC	p.A426T	ZNF217_uc010gij.1_Missense_Mutation_p.A418T	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	426					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			TCCAGAGGGGCGGCGAGGTCA	0.637													7	39					0	0	0.00308	0	0		T	52198090	T	T	52198090	3	4	4	1	0	0	0	0	1	0	0	0	17797	768	27	1	1886	1	ZNF217	20	52198090	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4798	52198090	10827430	4190	6156											
ZNF217	7764	broad.mit.edu	37	chr20	52198529	52198529	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catctgacaggcttcttcccCgtttcagggtgagattttgg	6	14	11	10	1	3	2	1	2	2	1	4	3	4	2	2	3	0	2	2	3	0	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:52198529C>T	uc002xwq.3	-	1	1108	c.837G>A	c.(835-837)ACG>ACA	p.T279T	ZNF217_uc010gij.1_Silent_p.T271T	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	279					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding	p.T279M(1)		skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			GCTTCTTCCCCGTTTCAGGGT	0.547													9	121					0	0	0.008291	0	0		T	52198529	T	T	52198529	2	4	4	1	0	0	0	0	0	0	0	1	17797	639	23	1		1	ZNF217	20	52198529	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	439	52198529	10826991	4191	6157											
DOK5	55816	broad.mit.edu	37	chr20	53171481	53171481	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttccttccagatttatcagCgatgctggttagtattcaag	9	16	8	8	1	2	1	2	0	0	1	4	2	4	1	2	1	2	3	2	1	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:53171481C>T	uc002xwy.2	+	2	296	c.76C>T	c.(76-78)CGA>TGA	p.R26*	DOK5_uc010gin.2_5'UTR|DOK5_uc002xwz.2_5'UTR	NM_018431	NP_060901	Q9P104	DOK5_HUMAN	docking protein 5	26	PH.						insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)			GATTTATCAGCGATGCTGGTT	0.373													7	65					0	0	0.001984	0	0		T	53171481	T	T	53171481	4	4	4	1	0	0	0	0	0	1	0	0	4706	760	27	1	82	1	DOK5	20	53171481	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	972952	53171481	9854039	4192	6158											
AURKA	6790	broad.mit.edu	37	chr20	54959346	54959346	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttttgattcttcatttttCtgttttgatgccagttcctc	4	24	5	8	0	3	2	1	2	2	0	5	2	4	2	2	0	1	2	2	0	0	10			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:54959346C>T	uc002xxd.1	-	6	920	c.354G>A	c.(352-354)CAG>CAA	p.Q118Q	AURKA_uc002xxe.1_Silent_p.Q118Q|AURKA_uc002xxf.1_Silent_p.Q118Q|AURKA_uc002xxg.1_Silent_p.Q118Q|AURKA_uc002xxh.1_Silent_p.Q118Q|AURKA_uc002xxi.1_Silent_p.Q118Q|AURKA_uc002xxj.1_Silent_p.Q118Q|AURKA_uc002xxk.1_Silent_p.Q118Q|AURKA_uc010zzd.1_RNA	NM_198433	NP_940835	O14965	AURKA_HUMAN	serine/threonine protein kinase 6	118					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|phosphatidylinositol-mediated signaling|regulation of protein stability|spindle organization	cytosol|nucleus|perinuclear region of cytoplasm|spindle microtubule|spindle pole centrosome	ATP binding|protein kinase binding|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(1)|large_intestine(1)|skin(1)	8			Colorectal(105;0.202)			CTTCATTTTTCTGTTTTGATG	0.299													5	74					0	0	0.001168	0	0		T	54959346	T	T	54959346	2	4	4	1	0	0	0	0	0	0	0	1	1222	912	32	4		4	AURKA	20	54959346	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1787865	54959346	8066174	4193	6159											
BMP7	655	broad.mit.edu	37	chr20	55777649	55777649	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctccgaggcccagagggtAcggctgtcgagcaggaagag	9	5	16	11	3	0	2	0	0	0	2	3	5	2	3	3	4	2	3	3	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:55777649A>G	uc010gip.1	-	3	1171	c.642T>C	c.(640-642)CGT>CGC	p.R214R	BMP7_uc010giq.1_Silent_p.R214R|BMP7_uc002xyc.2_Silent_p.R214R	NM_001719	NP_001710	P18075	BMP7_HUMAN	bone morphogenetic protein 7 precursor	214					BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)			CCCAGAGGGTACGGCTGTCGA	0.622													4	29					0	0	0.001168	0	0		G	55777649	G	G	55777649	2	3	4	1	0	0	0	0	0	0	0	1	1466	378	14	3		3	BMP7	20	55777649	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	818303	55777649	7247871	4194	6160											
PCK1	5105	broad.mit.edu	37	chr20	56138777	56138777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcctggatgaagtttgacGcacaaggtgactcttttaga	10	13	11	7	1	1	4	0	3	1	1	1	5	1	5	1	2	1	2	1	2	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:56138777G>A	uc002xyn.3	+	6	1118	c.955G>A	c.(955-957)GCA>ACA	p.A319T	PCK1_uc010zzm.1_Intron	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	319					gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			GAAGTTTGACGCACAAGGTGA	0.542													22	124					0	0	0.00278	0	0		A	56138777	A	A	56138777	3	1	4	1	0	0	0	0	1	0	0	0	11600	1087	38	1	973	1	PCK1	20	56138777	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	361128	56138777	6886743	4195	6161											
NPEPL1	79716	broad.mit.edu	37	chr20	57276144	57276144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagccacaccccagatggagCcacgcagaccatcgcctggg	10	3	11	17	2	0	2	0	0	0	2	1	3	0	3	6	2	2	1	6	2	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:57276144C>T	uc010zzs.1	+	6	847	c.752C>T	c.(751-753)GCC>GTC	p.A251V	NPEPL1_uc010zzr.1_Missense_Mutation_p.A203V|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Missense_Mutation_p.A223V|NPEPL1_uc002xzp.2_Missense_Mutation_p.A139V	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	251					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			CCAGATGGAGCCACGCAGACC	0.627													3	9					0	0	0.004672	0	0		T	57276144	T	T	57276144	3	4	4	1	0	0	0	0	1	0	0	0	10593	739	26	2	620	2	NPEPL1	20	57276144	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1137367	57276144	5749376	4196	6162											
GNAS	2778	broad.mit.edu	37	chr20	57415849	57415849	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccacccgccgtgacgcgTccccggagtccccttccaaa	7	5	9	20	5	0	1	0	1	0	0	3	2	3	2	8	1	1	0	8	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:57415849T>A	uc002xzt.2	+	1	1055	c.688T>A	c.(688-690)TCC>ACC	p.S230T	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CCGTGACGCGTCCCCGGAGTC	0.592			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			4	13					0	0	0.001984	0	0		A	57415849	A	A	57415849	3	1	4	1	0	0	0	0	1	0	0	0	6525	1667	58	5	690	5	GNAS	20	57415849	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	139705	57415849	5609671	4197	6163											
GNAS	2778	broad.mit.edu	37	chr20	57485765	57485765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgccagtggagatgggCgtcactactgctaccctcat	8	9	11	13	1	2	1	2	0	0	1	2	2	2	1	2	2	4	2	2	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:57485765C>T	uc002xzw.2	+	13	3280	c.2995C>T	c.(2995-2997)CGT>TGT	p.R999C	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Missense_Mutation_p.R297C|GNAS_uc002xzx.2_Missense_Mutation_p.R297C|GNAS_uc010gjr.2_Missense_Mutation_p.R247C|GNAS_uc002xzy.2_Missense_Mutation_p.R282C|GNAS_uc002yaa.2_Missense_Mutation_p.R342C|GNAS_uc010zzt.1_Missense_Mutation_p.R357C|GNAS_uc002yab.2_RNA|GNAS_uc002yad.2_Missense_Mutation_p.R247C|GNAS_uc002yae.2_Missense_Mutation_p.R281C	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	356					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			TGGAGATGGGCGTCACTACTG	0.577			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			15	62					0	0	0.004007	0	0		T	57485765	T	T	57485765	3	4	4	1	0	0	0	0	1	0	0	0	6525	768	27	1	3933	1	GNAS	20	57485765	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	69916	57485765	5539755	4198	6164											
TH1L	51497	broad.mit.edu	37	chr20	57568154	57568154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatacccctgtccacctggCgttgctggatgaggtaagag	8	9	12	12	1	0	2	0	1	0	1	1	3	1	3	5	3	2	3	5	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:57568154C>T	uc002yag.2	+	11	1385	c.1358C>T	c.(1357-1359)GCG>GTG	p.A453V	TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Missense_Mutation_p.A453V	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	453					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			GTCCACCTGGCGTTGCTGGAT	0.502													8	73					0	0	0.00308	0	0		T	57568154	T	T	57568154	3	4	4	1	0	0	0	0	1	0	0	0	15864	768	27	1	1400	1	TH1L	20	57568154	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	82389	57568154	5457366	4199	6165											
TUBB1	81027	broad.mit.edu	37	chr20	57599575	57599575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggggctgagcatggccGccaccttcattggcaacaac	8	6	12	15	2	1	1	1	1	0	0	1	1	1	1	4	4	3	3	4	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:57599575G>A	uc002yak.2	+	4	1362	c.1093G>A	c.(1093-1095)GCC>ACC	p.A365T		NM_030773	NP_110400	Q9H4B7	TBB1_HUMAN	beta tubulin 1, class VI	365					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity			ovary(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)		Colchicine(DB01394)|Docetaxel(DB01248)|Paclitaxel(DB01229)|Vindesine(DB00309)	GAGCATGGCCGCCACCTTCAT	0.542													4	31					0	0	0.001984	0	0		A	57599575	A	A	57599575	3	1	4	1	0	0	0	0	1	0	0	0	16779	1087	38	1	1107	1	TUBB1	20	57599575	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	31421	57599575	5425945	4200	6166											
ZNF831	128611	broad.mit.edu	37	chr20	57768478	57768478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcaggagacctgcctgtggGcccagactgtcctgagatgg	7	9	14	11	0	1	3	1	1	0	3	2	5	2	3	4	3	1	0	4	3	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:57768478G>A	uc002yan.2	+	1	2404	c.2404G>A	c.(2404-2406)GCC>ACC	p.A802T		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	802						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CTGCCTGTGGGCCCAGACTGT	0.627													4	22					0	0	0.001168	0	0		A	57768478	A	A	57768478	3	1	4	1	0	0	0	0	1	0	0	0	18210	1203	42	2	2406	2	ZNF831	20	57768478	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	168903	57768478	5257042	4201	6167											
PHACTR3	116154	broad.mit.edu	37	chr20	58349436	58349436	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggagaacaagcgaactgcCgctaaggaatctgaggagaa	15	6	13	7	2	1	3	0	1	1	2	1	7	1	4	1	3	4	1	1	3	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:58349436C>T	uc002yau.2	+	7	1532	c.1065C>T	c.(1063-1065)GCC>GCT	p.A355A	PHACTR3_uc002yat.2_Silent_p.A352A|PHACTR3_uc010zzw.1_Silent_p.A314A|PHACTR3_uc002yav.2_Silent_p.A314A|PHACTR3_uc002yaw.2_Silent_p.A314A|PHACTR3_uc002yax.2_Silent_p.A244A	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	355	Potential.					nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			AGCGAACTGCCGCTAAGGAAT	0.542													21	85					0	0	0.010504	0	0		T	58349436	T	T	58349436	2	4	4	1	0	0	0	0	0	0	0	1	11830	639	23	1		1	PHACTR3	20	58349436	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	580958	58349436	4676084	4202	6168											
SYCP2	10388	broad.mit.edu	37	chr20	58467173	58467173	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagtattcacatcttttgAcaatatgtatttcttcctat	11	18	4	8	0	3	1	1	1	2	0	4	1	4	1	1	0	1	3	1	0	5	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:58467173A>G	uc002yaz.2	-	23	2375	c.2236T>C	c.(2236-2238)TCA>CCA	p.S746P		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	746					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			ACATCTTTTGACAATATGTAT	0.343													16	85					0	0	0.00499	0	0		G	58467173	G	G	58467173	3	3	4	1	0	0	0	0	1	0	0	0	15457	275	10	3	2444	3	SYCP2	20	58467173	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	117737	58467173	4558347	4203	6169											
CDH26	60437	broad.mit.edu	37	chr20	58562546	58562546	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggccgagccagccagggCgtgttgcgtctcctggttca	6	8	15	12	3	2	0	1	0	1	0	3	2	2	0	4	3	3	2	4	3	1	2	rs146755298		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:58562546C>T	uc002ybe.2	+	8	1176	c.876C>T	c.(874-876)GGC>GGT	p.G292G	CDH26_uc002ybf.1_5'Flank|CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	292	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			CCAGCCAGGGCGTGTTGCGTC	0.433													13	59					0	0	0.001855	0	0		T	58562546	T	T	58562546	2	4	4	1	0	0	0	0	0	0	0	1	3113	755	27	1		1	CDH26	20	58562546	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	95373	58562546	4462974	4204	6170											
CDH26	60437	broad.mit.edu	37	chr20	58564055	58564055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agagaggaaagcttcagccgCcaaggaaggcagcagccagc	14	2	14	11	1	1	1	1	0	0	1	1	4	1	3	3	3	5	3	3	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:58564055C>T	uc002ybe.2	+	9	1420	c.1120C>T	c.(1120-1122)CCA>TCA	p.P374S	CDH26_uc002ybf.1_5'UTR|CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	374	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			GCTTCAGCCGCCAAGGAAGGC	0.557													8	52					0	0	0.00308	0	0		T	58564055	T	T	58564055	3	4	4	1	0	0	0	0	1	0	0	0	3113	739	26	2	1154	2	CDH26	20	58564055	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1509	58564055	4461465	4205	6171											
CDH4	1002	broad.mit.edu	37	chr20	60504690	60504690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actatgcccaactcagcttgCgcatcctgtacctggaggcc	8	9	9	15	1	1	0	1	0	0	0	2	1	2	1	4	2	5	3	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:60504690C>T	uc002ybn.1	+	13	2043	c.2029C>T	c.(2029-2031)CGC>TGC	p.R677C	CDH4_uc002ybp.1_Missense_Mutation_p.R603C	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	677	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			ACTCAGCTTGCGCATCCTGTA	0.532													5	67					0	0	0.001168	0	0		T	60504690	T	T	60504690	3	4	4	1	0	0	0	0	1	0	0	0	3115	768	27	1	2079	1	CDH4	20	60504690	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1940635	60504690	2520830	4206	6172											
LSM14B	149986	broad.mit.edu	37	chr20	60699742	60699742	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagaggagatttatgagtAcatcattttccgaggaagtg	13	11	12	5	1	1	3	1	1	0	2	2	7	2	4	1	2	1	1	1	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:60699742A>G	uc010gjy.1	+	2	403	c.197A>G	c.(196-198)TAC>TGC	p.Y66C	LSM14B_uc002ybt.2_Missense_Mutation_p.Y66C|LSM14B_uc010gjx.1_Missense_Mutation_p.Y66C|LSM14B_uc002ybv.2_Missense_Mutation_p.Y66C|LSM14B_uc010gjz.1_5'UTR|LSM14B_uc010zzz.1_5'UTR	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	66				Y -> N (in Ref. 4; BX354437).	multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			ATTTATGAGTACATCATTTTC	0.502													16	52					0	0	0.00499	0	0		G	60699742	G	G	60699742	3	3	4	1	0	0	0	0	1	0	0	0	9073	391	14	3	203	3	LSM14B	20	60699742	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	195052	60699742	2325778	4207	6173											
LSM14B	149986	broad.mit.edu	37	chr20	60704997	60704997	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggcccagccgagcagcaAgacggccagcggtacttgaa	11	4	13	13	3	1	2	1	1	0	1	1	3	1	2	3	3	5	3	3	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:60704997A>G	uc010gjy.1	+	4	790	c.584A>G	c.(583-585)AAG>AGG	p.K195R	LSM14B_uc010gjx.1_Missense_Mutation_p.K221R|LSM14B_uc002ybv.2_Missense_Mutation_p.K195R|LSM14B_uc010gjz.1_Missense_Mutation_p.K151R|LSM14B_uc010zzz.1_Missense_Mutation_p.K115R	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	195					multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			CCGAGCAGCAAGACGGCCAGC	0.478													7	23					0	0	0.00308	0	0		G	60704997	G	G	60704997	3	3	4	1	0	0	0	0	1	0	0	0	9073	72	3	3	598	3	LSM14B	20	60704997	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	5255	60704997	2320523	4208	6174											
PSMA7	5688	broad.mit.edu	37	chr20	60714232	60714232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagatgccaaacggcctgcGcccattgctctgcgtataac	10	8	10	13	3	1	1	0	0	1	1	1	2	1	1	3	1	6	2	3	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:60714232G>A	uc002ybx.1	-	4	485	c.370C>T	c.(370-372)CGC>TGC	p.R124C	PSMA7_uc002yby.1_RNA	NM_002792	NP_002783	O14818	PSA7_HUMAN	proteasome alpha 7 subunit	124					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			AACGGCCTGCGCCCATTGCTC	0.502													16	81					0	0	0.00499	0	0		A	60714232	A	A	60714232	3	1	4	1	0	0	0	0	1	0	0	0	12694	1087	38	1	392	1	PSMA7	20	60714232	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	9235	60714232	2311288	4209	6175											
CABLES2	81928	broad.mit.edu	37	chr20	60966415	60966415	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtttgctgagcttgccctGcaggaccagcttctcaaagt	7	12	10	12	0	1	1	1	1	1	0	2	2	1	2	2	1	5	5	2	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:60966415G>A	uc002ycv.2	-	9	1193	c.1186C>T	c.(1186-1188)CAG>TAG	p.Q396*		NM_031215	NP_112492	Q9BTV7	CABL2_HUMAN	Cdk5 and Abl enzyme substrate 2	396					cell cycle|cell division|regulation of cell cycle|regulation of cell division		cyclin-dependent protein kinase regulator activity			pancreas(1)	1	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			AGCTTGCCCTGCAGGACCAGC	0.632													20	86					0	0	0.002299	0	0		A	60966415	A	A	60966415	4	1	4	1	0	0	0	0	0	1	0	0	2533	1328	46	2	258	2	CABLES2	20	60966415	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	252183	60966415	2059105	4210	6176											
SLCO4A1	28231	broad.mit.edu	37	chr20	61297900	61297900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccccagtgtgcccatggCgggcgtcacagccagctacg	6	6	13	16	3	1	0	1	0	0	0	1	0	1	0	4	2	5	1	4	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:61297900C>T	uc002ydb.1	+	7	1650	c.1445C>T	c.(1444-1446)GCG>GTG	p.A482V	SLCO4A1_uc002ydc.1_RNA|LOC100127888_uc002ydd.2_RNA|SLCO4A1_uc002yde.1_5'Flank	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	482	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)			GTGCCCATGGCGGGCGTCACA	0.677													12	77					0	0	0.003163	0	0		T	61297900	T	T	61297900	3	4	4	1	0	0	0	0	1	0	0	0	14754	768	27	1	1467	1	SLCO4A1	20	61297900	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	331485	61297900	1727620	4211	6177											
SLC17A9	63910	broad.mit.edu	37	chr20	61593988	61593988	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcaggacgctgctgacCggggcggtgggctccctgct	3	9	16	13	3	0	1	0	1	0	0	1	2	1	2	2	5	3	5	2	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:61593988C>T	uc002yea.3	+	5	694	c.510C>T	c.(508-510)ACC>ACT	p.T170T	SLC17A9_uc002ydz.3_Silent_p.T164T|SLC17A9_uc011aap.1_Silent_p.T190T	NM_022082	NP_071365	Q9BYT1	S17A9_HUMAN	vesicular nucleotide transporter SLC17A9	170	Helical; (Potential).				exocytosis|transmembrane transport	integral to membrane	transporter activity			ovary(1)|skin(1)	2						CGCTGCTGACCGGGGCGGTGG	0.652													8	40					0	0	0.001855	0	0		T	61593988	T	T	61593988	2	4	4	1	0	0	0	0	0	0	0	1	14449	639	23	1		1	SLC17A9	20	61593988	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	296088	61593988	1431532	4212	6178											
YTHDF1	54915	broad.mit.edu	37	chr20	61833667	61833667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctcctcctcctcctggCgcttctcgtagtgagcaaag	6	10	8	17	2	1	1	0	1	1	0	6	1	5	1	6	1	1	3	6	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:61833667C>T	uc002yeh.2	-	4	1919	c.1625G>A	c.(1624-1626)CGC>CAC	p.R542H	YTHDF1_uc011aaq.1_Missense_Mutation_p.R492H	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	542										ovary(2)	2						CTCCTCCTGGCGCTTCTCGTA	0.552													13	80					0	0	0.008871	0	0		T	61833667	T	T	61833667	3	4	4	1	0	0	0	0	1	0	0	0	17524	768	27	1	62	1	YTHDF1	20	61833667	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	239679	61833667	1191853	4213	6179											
CHRNA4	1137	broad.mit.edu	37	chr20	61981756	61981756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgggcatggtgtgcgtgCgtggcgagcggtggtgcacg	4	8	22	7	5	0	0	0	0	0	0	0	1	0	0	0	6	4	2	0	6	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:61981756C>T	uc002yes.2	-	5	1185	c.1007G>A	c.(1006-1008)CGC>CAC	p.R336H	CHRNA4_uc002yet.1_Missense_Mutation_p.R160H|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.R265H|CHRNA4_uc002yev.1_Missense_Mutation_p.R160H|CHRNA4_uc010gkf.1_Missense_Mutation_p.R160H	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	336	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	GGTGTGCGTGCGTGGCGAGCG	0.612													16	80					0	0	0.00499	0	0		T	61981756	T	T	61981756	3	4	4	1	0	0	0	0	1	0	0	0	3388	768	27	1	884	1	CHRNA4	20	61981756	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	148089	61981756	1043764	4214	6180											
PTK6	5753	broad.mit.edu	37	chr20	62162144	62162144	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccccaactttgcagagggtGttttccccgacgaggatgtt	7	12	11	11	2	0	1	0	0	0	1	2	4	2	2	4	2	2	3	4	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62162144G>A	uc002yfg.2	-	6	1009	c.969C>T	c.(967-969)AAC>AAT	p.N323N	PTK6_uc011aay.1_Silent_p.N222N|PTK6_uc011aaz.1_Silent_p.N85N	NM_005975	NP_005966	Q13882	PTK6_HUMAN	PTK6 protein tyrosine kinase 6	323	Protein kinase.					cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|kidney(1)	2	all_cancers(38;2.51e-11)		Epithelial(9;1.5e-08)|all cancers(9;8.67e-08)|BRCA - Breast invasive adenocarcinoma(10;6.43e-06)			TGCAGAGGGTGTTTTCCCCGA	0.488													11	48					0	0	0.001368	0	0		A	62162144	A	A	62162144	2	1	4	1	0	0	0	0	0	0	0	1	12787	1368	48	4		4	PTK6	20	62162144	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	180388	62162144	863376	4215	6181											
SRMS	6725	broad.mit.edu	37	chr20	62174716	62174716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctggatcagcttccagttgGccttgtagtaggtgagcagc	7	12	13	9	0	2	1	1	1	1	0	3	2	3	2	2	3	3	5	2	3	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62174716G>A	uc002yfi.1	-	3	637	c.596C>T	c.(595-597)GCC>GTC	p.A199V		NM_080823	NP_543013	Q9H3Y6	SRMS_HUMAN	src-related kinase lacking C-terminal regulatory	199	SH2.						ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|lung(1)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;9.69e-09)|all cancers(9;5.84e-08)|BRCA - Breast invasive adenocarcinoma(10;3.63e-06)			CTTCCAGTTGGCCTTGTAGTA	0.652													10	52					0	0	0.008291	0	0		A	62174716	A	A	62174716	3	1	4	1	0	0	0	0	1	0	0	0	15177	1203	42	2	894	2	SRMS	20	62174716	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12572	62174716	850804	4216	6182											
PRIC285	85441	broad.mit.edu	37	chr20	62198324	62198324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagattcagccaggacGccatggacatgtcccggtct	9	7	11	14	2	2	1	1	0	1	1	3	3	3	3	4	3	2	0	4	3	0	1	rs79249043	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62198324G>A	uc002yfm.2	-	7	3279	c.2387C>T	c.(2386-2388)GCG>GTG	p.A796V	PRIC285_uc002yfl.1_Missense_Mutation_p.A227V	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	796					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CAGCCAGGACGCCATGGACAT	0.677													7	51					0	0	0.00308	0	0		A	62198324	A	A	62198324	3	1	4	1	0	0	0	0	1	0	0	0	12507	1087	38	1	5618	1	PRIC285	20	62198324	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	23608	62198324	827196	4217	6183											
RTEL1	51750	broad.mit.edu	37	chr20	62319289	62319289	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccctctggccacgctcaGccctttcccagtctgcctgg	3	10	9	19	1	3	0	1	0	2	0	5	0	5	0	5	2	2	2	5	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62319289G>A	uc002yfu.1	+	18	1825	c.1482_splice	c.e18-1	p.I494_splice	RTEL1_uc011abc.1_Splice_Site|RTEL1_uc002yft.1_Splice_Site_p.I494_splice|RTEL1_uc011abd.1_Splice_Site_p.I518_splice|RTEL1_uc011abe.1_Splice_Site_p.I271_splice|RTEL1_uc002yfw.2_Splice_Site|RTEL1_uc002yfx.1_5'Flank	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1						DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)			GCCACGCTCAGCCCTTTCCCA	0.662													4	27					0	0	0.001984	0	0		A	62319289	A	A	62319289	5	1	4	1	0	0	0	0	0	0	1	0	13745	985	34	2	1547	2	RTEL1	20	62319289	Splice_Site	SNP	G	TCGA-BR-4184-01A-01D-1126-08	120965	62319289	706231	4218	6184											
ZGPAT	84619	broad.mit.edu	37	chr20	62366007	62366007	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcttgcagtggtggggtcGgacgccgtggactctgcaca	5	10	15	11	3	2	0	0	0	2	0	4	2	2	2	1	5	2	2	1	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62366007G>A	uc002ygk.2	+	5	1060	c.882G>A	c.(880-882)TCG>TCA	p.S294S	ZGPAT_uc002ygi.2_Intron|ZGPAT_uc002ygj.2_Intron|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Intron|ZGPAT_uc002ygm.2_Intron|ZGPAT_uc002ygn.3_Intron|LIME1_uc011abi.1_5'Flank|LIME1_uc002ygp.3_5'Flank	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	294					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					TGGTGGGGTCGGACGCCGTGG	0.617													10	87					0	0	0.006214	0	0		A	62366007	A	A	62366007	2	1	4	1	0	0	0	0	0	0	0	1	17699	1103	39	1		1	ZGPAT	20	62366007	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	46718	62366007	659513	4219	6185											
DNAJC5	80331	broad.mit.edu	37	chr20	62560765	62560765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacgccatcctcacggacGccacaaaaaggaacatctac	14	4	7	16	4	2	0	1	0	1	0	3	2	3	2	3	2	2	1	3	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62560765G>A	uc002yhf.2	+	3	378	c.208G>A	c.(208-210)GCC>ACC	p.A70T	DNAJC5_uc002yhg.1_Missense_Mutation_p.A70T|DNAJC5_uc002yhh.2_RNA	NM_025219	NP_079495	Q9H3Z4	DNJC5_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	70	J.				neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CCTCACGGACGCCACAAAAAG	0.557													14	52					0	0	0.001882	0	0		A	62560765	A	A	62560765	3	1	4	1	0	0	0	0	1	0	0	0	4656	1087	38	1	214	1	DNAJC5	20	62560765	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	194758	62560765	464755	4220	6186											
DNAJC5	80331	broad.mit.edu	37	chr20	62560817	62560817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgctgggtctctacgtggCcgagcagtttggggaagaga	7	9	16	9	3	1	1	0	0	1	1	3	4	1	2	1	4	2	3	1	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62560817C>T	uc002yhf.2	+	3	430	c.260C>T	c.(259-261)GCC>GTC	p.A87V	DNAJC5_uc002yhg.1_Missense_Mutation_p.A87V|DNAJC5_uc002yhh.2_RNA	NM_025219	NP_079495	Q9H3Z4	DNJC5_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	87					neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CTCTACGTGGCCGAGCAGTTT	0.597													15	63					0	0	0.003163	0	0		T	62560817	T	T	62560817	3	4	4	1	0	0	0	0	1	0	0	0	4656	739	26	2	266	2	DNAJC5	20	62560817	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	52	62560817	464703	4221	6187											
PRPF6	24148	broad.mit.edu	37	chr20	62657327	62657327	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagatctggctggcagcCgtgaagctggagtccgagaa	10	6	17	8	2	1	3	0	1	1	2	2	7	2	4	2	4	2	3	2	4	2	0	rs151332876	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62657327C>T	uc002yho.2	+	15	2112	c.1944C>T	c.(1942-1944)GCC>GCT	p.A648A	PRPF6_uc002yhp.2_Intron	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	648	HAT 6.				assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					GGCTGGCAGCCGTGAAGCTGG	0.647													36	194					0	0	0.007835	0	0		T	62657327	T	T	62657327	2	4	4	1	0	0	0	0	0	0	0	1	12596	639	23	1		1	PRPF6	20	62657327	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	96510	62657327	368193	4222	6188											
SOX18	54345	broad.mit.edu	37	chr20	62680254	62680254	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgcaagtgctgcacgcgcagCcgttcggcttcctccacgaa	7	7	11	16	6	0	0	0	0	0	0	3	1	2	0	3	1	3	6	3	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62680254C>T	uc002yhs.2	-	2	530	c.420G>A	c.(418-420)CGG>CGA	p.R140R		NM_018419	NP_060889	P35713	SOX18_HUMAN	SRY-box 18	140	HMG box.				angiogenesis|blood vessel endothelial cell migration|endocardial cell differentiation|endocardium formation|establishment of endothelial barrier|heart looping|lymphangiogenesis|lymphatic endothelial cell differentiation|negative regulation of transcription, DNA-dependent|outflow tract morphogenesis|positive regulation of transcription from RNA polymerase II promoter|vasculogenesis	nucleus	transcription regulatory region DNA binding				0	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					GCACGCGCAGCCGTTCGGCTT	0.716													4	3					0	0	0.009096	0	0		T	62680254	T	T	62680254	2	4	4	1	0	0	0	0	0	0	0	1	14973	726	26	2		2	SOX18	20	62680254	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	22927	62680254	345266	4223	6189											
TCEA2	6919	broad.mit.edu	37	chr20	62703233	62703233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgttcacaggtgcagacccGcagctctgatgagcccatga	9	8	11	13	1	2	4	1	3	1	1	2	4	2	4	2	1	3	4	2	1	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62703233G>A	uc011abs.1	+	9	1486	c.830G>A	c.(829-831)CGC>CAC	p.R277H	TCEA2_uc011abr.1_Missense_Mutation_p.R250H|TCEA2_uc010gks.2_Missense_Mutation_p.R278H	NM_003195	NP_003186	Q15560	TCEA2_HUMAN	transcription elongation factor A protein 2	277	TFIIS-type.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation, DNA-dependent	transcription elongation factor complex	DNA binding|protein binding|translation elongation factor activity|zinc ion binding				0	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					GTGCAGACCCGCAGCTCTGAT	0.632													9	30					0	0	0.004482	0	0		A	62703233	A	A	62703233	3	1	4	1	0	0	0	0	1	0	0	0	15693	1087	38	1	864	1	TCEA2	20	62703233	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	22979	62703233	322287	4224	6190											
OPRL1	4987	broad.mit.edu	37	chr20	62729746	62729746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcatctctgtctgctacaGcctcatgatccggcggctcc	5	11	9	16	3	4	1	2	1	2	0	7	1	6	1	3	2	3	2	3	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62729746G>A	uc002yic.2	+	5	1109	c.707G>A	c.(706-708)AGC>AAC	p.S236N	OPRL1_uc002yid.2_Missense_Mutation_p.S236N|OPRL1_uc002yif.3_Missense_Mutation_p.S231N	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	236	Helical; Name=5; (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					GTCTGCTACAGCCTCATGATC	0.622													6	85					0	0	0.00308	0	0		A	62729746	A	A	62729746	3	1	4	1	0	0	0	0	1	0	0	0	10905	971	34	2	717	2	OPRL1	20	62729746	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	26513	62729746	295774	4225	6191											
MYT1	4661	broad.mit.edu	37	chr20	62839458	62839458	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggaagaggaagaggaGgaggaggaggcagctcctga	15	2	20	4	0	0	4	0	1	0	3	1	11	1	10	1	7	1	2	1	7	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62839458G>A	uc002yii.2	+	7	1273	c.909G>A	c.(907-909)GAG>GAA	p.E303E	MYT1_uc002yih.2_Intron|MYT1_uc002yij.2_5'UTR	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	303	Glu-rich.				cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					aggaagaggaggaggaggagg	0.269													13	48					0	0	0.001855	0	0		A	62839458	A	A	62839458	2	1	4	1	0	0	0	0	0	0	0	1	10124	991	35	4		4	MYT1	20	62839458	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	109712	62839458	186062	4226	6192											
MYT1	4661	broad.mit.edu	37	chr20	62850293	62850293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcgcaggacgccgaggctGcacacatggctgccactgcc	8	5	12	16	3	0	0	0	0	0	0	1	2	0	1	3	3	3	4	3	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62850293G>A	uc002yii.2	+	12	2240	c.1876G>A	c.(1876-1878)GCA>ACA	p.A626T	MYT1_uc002yih.2_Missense_Mutation_p.A328T|MYT1_uc002yij.2_Missense_Mutation_p.A285T	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	626					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					CGCCGAGGCTGCACACATGGC	0.602													8	33					0	0	0.001855	0	0		A	62850293	A	A	62850293	3	1	4	1	0	0	0	0	1	0	0	0	10124	1319	46	2	1914	2	MYT1	20	62850293	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	10835	62850293	175227	4227	6193											
TPTE	7179	broad.mit.edu	37	chr21	10934961	10934961	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagattgtagactcgatagtGgtttcggtgtttcttatcta	8	18	10	5	2	2	2	0	0	2	2	4	3	2	2	0	2	0	3	0	2	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:10934961G>T	uc002yip.1	-	15	1200	c.832C>A	c.(832-834)CAC>AAC	p.H278N	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.H260N|TPTE_uc002yir.1_Missense_Mutation_p.H240N|TPTE_uc010gkv.1_Missense_Mutation_p.H140N	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	278	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ACTCGATAGTGGTTTCGGTGT	0.348													12	133					0.00010058	0.000105469	0.001368	1	0		T	10934961	T	T	10934961	3	4	4	1	0	0	0	0	1	0	0	0	16456	1348	47	5	863	5	TPTE	21	10934961	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08		10934961	37194934	4228	6194											
BAGE2	85319	broad.mit.edu	37	chr21	11049593	11049593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaggtctcccgggctgtcGcacactgcacagtttgcatc	8	9	11	13	2	1	1	0	0	1	1	4	1	1	1	1	2	2	5	1	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:11049593G>A	uc002yit.1	-	4	516	c.308C>T	c.(307-309)GCG>GTG	p.A103V		NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CCGGGCTGTCGCACACTGCAC	0.383													13	210					0	0	0.00499	0	0		A	11049593	A	A	11049593	3	1	4	1	0	0	0	0	1	0	0	0	1293	1087	38	1	25	1	BAGE2	21	11049593	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	114632	11049593	37080302	4229	6195											
POTED	317754	broad.mit.edu	37	chr21	14982927	14982927	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggggagactacgaccacagCgccttcatggagccgaggta	10	6	14	11	3	1	1	1	0	0	1	1	5	1	2	3	4	3	1	3	4	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:14982927C>T	uc002yjb.1	+	1	430	c.378C>T	c.(376-378)AGC>AGT	p.S126S		NM_174981	NP_778146	Q86YR6	POTED_HUMAN	pote protein	126						plasma membrane				ovary(3)|skin(3)	6						ACGACCACAGCGCCTTCATGG	0.597													9	58					0	0	0.004482	0	0		T	14982927	T	T	14982927	2	4	4	1	0	0	0	0	0	0	0	1	12282	767	27	1		1	POTED	21	14982927	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3933334	14982927	33146968	4230	6196											
LIPI	149998	broad.mit.edu	37	chr21	15561632	15561632	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggctcagcacagtttaggTtgttccttgtatacatcatc	8	15	9	9	0	2	0	2	0	0	0	4	0	3	0	1	2	2	6	1	2	3	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:15561632T>C	uc002yjm.2	-	2	228	c.218A>G	c.(217-219)AAC>AGC	p.N73S	LIPI_uc010gkw.1_Missense_Mutation_p.N6S	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	52					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		ACAGTTTAGGTTGTTCCTTGT	0.368													6	52					0	0	0.001168	0	0		C	15561632	C	C	15561632	3	2	4	1	0	0	0	0	1	0	0	0	8842	1725	60	3	1263	3	LIPI	21	15561632	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	578705	15561632	32568263	4231	6197											
TMPRSS15	5651	broad.mit.edu	37	chr21	19713822	19713822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaggctaatgtcatccaacGcaatatcactcaggatcttg	12	12	7	10	1	4	0	3	0	1	0	5	1	5	1	1	2	1	2	1	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:19713822G>A	uc002ykw.2	-	13	1503	c.1472C>T	c.(1471-1473)GCG>GTG	p.A491V		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	491	Extracellular (Potential).|MAM.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						GTCATCCAACGCAATATCACT	0.388													28	48					0	0	0.004656	0	0		A	19713822	A	A	19713822	3	1	4	1	0	0	0	0	1	0	0	0	16271	1087	38	1	1639	1	TMPRSS15	21	19713822	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	4152190	19713822	28416073	4232	6198											
ADAMTS5	11096	broad.mit.edu	37	chr21	28296541	28296541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgtgacccactgcggctgcGaagtgtgtgatcccacttta	7	10	11	13	3	0	2	0	2	0	0	1	3	1	2	3	1	2	1	3	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:28296541G>A	uc002ymg.2	-	8	3353	c.2624C>T	c.(2623-2625)TCG>TTG	p.S875L		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	875	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CTGCGGCTGCGAAGTGTGTGA	0.527													11	19					0	0	0.001855	0	0		A	28296541	A	A	28296541	3	1	4	1	0	0	0	0	1	0	0	0	269	1059	37	1	172	1	ADAMTS5	21	28296541	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8582719	28296541	19833354	4233	6199											
C21orf7	56911	broad.mit.edu	37	chr21	30532270	30532270	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttgtgaagcccctgccGccttgtcatgactccgagga	6	12	11	12	2	1	2	1	2	0	0	2	4	2	3	5	1	2	1	5	1	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:30532270G>A	uc002yne.2	+	7	712	c.441G>A	c.(439-441)CCG>CCA	p.P147P	C21orf7_uc011acr.1_RNA|C21orf7_uc002ynd.2_RNA|C21orf7_uc010gln.2_RNA|C21orf7_uc002ynf.2_Silent_p.P147P|C21orf7_uc010glo.2_5'UTR|C21orf7_uc002yng.2_Silent_p.P47P|C21orf7_uc010glp.2_RNA	NM_020152	NP_064537	P57077	TAK1L_HUMAN	chromosome 21 open reading frame 7	147						cytosol|nucleus	protein binding			ovary(2)	2				Colorectal(56;0.248)		AGCCCCTGCCGCCTTGTCATG	0.433													9	87					0	0	0.004482	0	0		A	30532270	A	A	30532270	2	1	4	1	0	0	0	0	0	0	0	1	2135	1074	38	1		1	C21orf7	21	30532270	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2235729	30532270	17597625	4234	6200											
KRTAP24-1	643803	broad.mit.edu	37	chr21	31654991	31654991	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagaggagtttgacgggTcacaaccagtggtactgcag	11	7	14	9	1	1	2	1	1	0	1	1	3	1	3	1	3	3	4	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:31654991T>C	uc002ynv.2	-	1	286	c.260A>G	c.(259-261)GAC>GGC	p.D87G		NM_001085455	NP_001078924	Q3LI83	KR241_HUMAN	keratin associated protein 24-1	87						keratin filament	structural molecule activity				0						GTTTGACGGGTCACAACCAGT	0.448													3	28					0	0	0.000602	0	0		C	31654991	C	C	31654991	3	2	4	1	0	0	0	0	1	0	0	0	8558	1667	58	3	508	3	KRTAP24-1	21	31654991	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1122721	31654991	16474904	4235	6201											
KRTAP13-1	140258	broad.mit.edu	37	chr21	31768922	31768922	+	Nonstop_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatcaggcttctactattGatcatcttgttaaattgctg	9	17	8	7	0	4	1	2	1	2	0	4	2	4	2	0	2	2	3	0	2	4	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:31768922G>T	uc002yoa.2	+	1	531	c.518G>T	c.(517-519)TGA>TTA	p.*173L		NM_181599	NP_853630	Q8IUC0	KR131_HUMAN	keratin associated protein 13-1	173						intermediate filament				ovary(1)	1						TTCTACTATTGATCATCTTGT	0.433													9	13					6.40141e-05	6.72605e-05	0.000978	1	0		T	31768922	T	T	31768922	4	4	4	1	0	0	0	0	0	0	0	0	8538	1285	45	5	520	5	KRTAP13-1	21	31768922	Nonstop_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	113931	31768922	16360973	4236	6202											
TIAM1	7074	broad.mit.edu	37	chr21	32526578	32526578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacataccttcacgtaggtgCgctccgtctccaggagctcg	8	9	10	14	4	2	0	1	0	1	0	5	1	3	1	3	2	4	3	3	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:32526578C>T	uc002yow.1	-	18	3630	c.3158G>A	c.(3157-3159)CGC>CAC	p.R1053H	TIAM1_uc011adk.1_Missense_Mutation_p.R1053H|TIAM1_uc011adl.1_Missense_Mutation_p.R993H	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1053	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CACGTAGGTGCGCTCCGTCTC	0.547													12	16					0	0	0.001368	0	0		T	32526578	T	T	32526578	3	4	4	1	0	0	0	0	1	0	0	0	15915	768	27	1	1665	1	TIAM1	21	32526578	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	757656	32526578	15603317	4237	6203											
IL10RB	3588	broad.mit.edu	37	chr21	34640721	34640721	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggaatggtaccacctccCgaaaatgtcagaatgaattc	13	10	9	9	1	1	2	1	1	0	1	3	4	2	3	3	2	1	1	3	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:34640721C>T	uc002yrk.1	+	2	171	c.72C>T	c.(70-72)CCC>CCT	p.P24P	IL10RB_uc002yrh.1_Silent_p.P94P|IL10RB_uc002yri.1_Intron|uc002yrj.1_5'Flank|IL10RB_uc002yrl.1_Silent_p.P26P	NM_000628	NP_000619	Q08334	I10R2_HUMAN	interleukin 10 receptor, beta precursor	24	Extracellular (Potential).				immune response|inflammatory response	interleukin-28 receptor complex	protein binding|receptor activity				0						TACCACCTCCCGAAAATGTCA	0.403													11	14					0	0	0.008291	0	0		T	34640721	T	T	34640721	2	4	4	1	0	0	0	0	0	0	0	1	7637	639	23	1		1	IL10RB	21	34640721	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2114143	34640721	13489174	4238	6204											
TTC3	7267	broad.mit.edu	37	chr21	38510956	38510956	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgaacctggccatgattaActatgttttggtcgtctatg	9	16	9	7	1	1	2	0	2	1	0	2	2	1	2	2	2	2	1	2	2	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:38510956A>T	uc002yvz.2	+	19	1706	c.1601A>T	c.(1600-1602)AAC>ATC	p.N534I	TTC3_uc011aee.1_Missense_Mutation_p.N224I|TTC3_uc002ywa.2_Missense_Mutation_p.N534I|TTC3_uc002ywb.2_Missense_Mutation_p.N534I|TTC3_uc010gnf.2_Missense_Mutation_p.N299I|TTC3_uc002ywc.2_Missense_Mutation_p.N224I|TTC3_uc011aed.1_Missense_Mutation_p.N224I|TTC3_uc010gne.1_Missense_Mutation_p.N534I	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	534					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				GCCATGATTAACTATGTTTTG	0.353													8	83					0	0	0.00308	0	0		T	38510956	T	T	38510956	3	4	4	1	0	0	0	0	1	0	0	0	16723	43	2	5	1671	5	TTC3	21	38510956	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	3870235	38510956	9618939	4239	6205											
DYRK1A	1859	broad.mit.edu	37	chr21	38884778	38884778	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggcaaggggctgatagaGaagagtcccccatgacagga	13	5	15	8	0	0	5	0	3	0	2	1	7	1	6	2	4	0	2	2	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:38884778G>T	uc002ywk.2	+	11	2311	c.2236G>T	c.(2236-2238)GAA>TAA	p.E746*	DYRK1A_uc002ywi.2_3'UTR|DYRK1A_uc002ywj.2_Nonsense_Mutation_p.E737*|DYRK1A_uc002ywl.2_3'UTR|DYRK1A_uc002ywm.2_3'UTR|DYRK1A_uc011aei.1_Nonsense_Mutation_p.E507*	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	746					nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						GGCTGATAGAGAAGAGTCCCC	0.438													12	55					6.40141e-05	6.72605e-05	0.000978	1	0		T	38884778	T	T	38884778	4	4	4	1	0	0	0	0	0	1	0	0	4860	943	33	5	2362	5	DYRK1A	21	38884778	Nonsense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	373822	38884778	9245117	4240	6206											
ERG	2078	broad.mit.edu	37	chr21	39755694	39755694	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatcgtagttcatgttgggTttgctcttccgctctcccca	4	17	8	12	2	3	0	1	0	2	0	6	0	4	0	3	1	1	6	3	1	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:39755694T>C	uc010gnw.2	-	12	1387	c.1092A>G	c.(1090-1092)AAA>AAG	p.K364K	ERG_uc002yxa.2_Silent_p.K357K|ERG_uc011aek.1_Silent_p.K265K|ERG_uc010gnv.2_Silent_p.K241K|ERG_uc010gnx.2_Silent_p.K340K|ERG_uc011ael.1_Silent_p.K364K|ERG_uc002yxb.2_Silent_p.K340K	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	364	ETS.				cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				TCATGTTGGGTTTGCTCTTCC	0.577													3	45					0	0	0.000602	0	0		C	39755694	C	C	39755694	2	2	4	1	0	0	0	0	0	0	0	1	5230	1722	60	3		3	ERG	21	39755694	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	870916	39755694	8374201	4241	6207											
CBS	875	broad.mit.edu	37	chr21	44492285	44492285	+	Frame_Shift_Del	DEL	G	-	-																															tgtgggccccacttctgcctGgggggtctcagaaggcatgc																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:44492285delG	uc002zcu.2	-	3	264	c.19delC	c.(19-21)CAGfs	p.Q7fs	CBS_uc002zct.2_Frame_Shift_Del_p.Q7fs|CBS_uc002zcw.3_Frame_Shift_Del_p.Q7fs|CBS_uc002zcv.2_Frame_Shift_Del_p.Q7fs	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	7					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	ACTTCTGCCTGGGGGGTCTCA	0.662													4	2	---	---	---	---						.	-	44492285	-	-	44492285	7	5	4	1	0	1	0	1	0	0	0	0	2714	1357	47	0	1696	0	CBS	21	44492285	Frame_Shift_Del	DEL	G	TCGA-BR-4184-01A-01D-1126-08	4736591	44492285	3637610	4242	6208											
CSTB	1476	broad.mit.edu	37	chr21	45194175	45194175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagggagagattggaacaCtcgcaggtgtacgaagtcct	12	8	14	7	2	0	2	0	1	0	1	2	6	1	4	1	3	2	2	1	3	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45194175C>T	uc002zdr.2	-	3	314	c.205G>A	c.(205-207)GTG>ATG	p.V69M		NM_000100	NP_000091	P04080	CYTB_HUMAN	cystatin B	69						cytoplasm|nucleolus	cysteine-type endopeptidase inhibitor activity|protease binding				0				STAD - Stomach adenocarcinoma(101;0.168)		GATTGGAACACTCGCAGGTGT	0.537													16	23					0	0	0.007413	0	0		T	45194175	T	T	45194175	3	4	4	1	0	0	0	0	1	0	0	0	3985	565	20	4	95	4	CSTB	21	45194175	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	701890	45194175	2935720	4243	6209											
AGPAT3	56894	broad.mit.edu	37	chr21	45401010	45401010	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcagttttgtcttgggCgtctttgccagcggatcacc	4	15	10	12	2	5	0	2	0	3	0	5	1	5	1	2	2	2	1	2	2	0	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45401010C>T	uc002zdv.2	+	9	1206	c.984C>T	c.(982-984)GGC>GGT	p.G328G	AGPAT3_uc002zdw.2_Silent_p.G328G|AGPAT3_uc002zdx.2_Silent_p.G415G|AGPAT3_uc002zdy.2_Silent_p.G266G	NM_020132	NP_064517	Q9NRZ7	PLCC_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 3	328	Helical; (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0				STAD - Stomach adenocarcinoma(101;0.18)|Colorectal(79;0.24)		TTGTCTTGGGCGTCTTTGCCA	0.577													5	28					0	0	0.000602	0	0		T	45401010	T	T	45401010	2	4	4	1	0	0	0	0	0	0	0	1	388	755	27	1		1	AGPAT3	21	45401010	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	206835	45401010	2728885	4244	6210											
TRAPPC10	7109	broad.mit.edu	37	chr21	45479056	45479056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtacgacgaactggacGccctcttctctcagtatgtg	8	11	10	12	3	3	0	1	0	2	0	4	3	3	1	1	1	3	3	1	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45479056G>A	uc002zea.2	+	6	920	c.751G>A	c.(751-753)GCC>ACC	p.A251T	TRAPPC10_uc010gpo.2_5'UTR|TRAPPC10_uc002zdz.2_Missense_Mutation_p.A251T	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	251					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						CGAACTGGACGCCCTCTTCTC	0.507													13	20					0	0	0.001855	0	0		A	45479056	A	A	45479056	3	1	4	1	0	0	0	0	1	0	0	0	16483	1087	38	1	773	1	TRAPPC10	21	45479056	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	78046	45479056	2650839	4245	6211											
PWP2	5822	broad.mit.edu	37	chr21	45534069	45534069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtcctgcagggggcgatgCgctgctggtcagcctggtct	3	9	17	12	3	2	0	1	0	1	0	3	1	3	0	2	4	4	3	2	4	0	0	rs151259638		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45534069C>T	uc002zeb.2	+	4	326	c.236C>T	c.(235-237)GCG>GTG	p.A79V		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	79	WD 2.					cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		GGGGGCGATGCGCTGCTGGTC	0.617											OREG0026247	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	18					0	0	0.00245	0	0		T	45534069	T	T	45534069	3	4	4	1	0	0	0	0	1	0	0	0	12869	768	27	1	250	1	PWP2	21	45534069	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	55013	45534069	2595826	4246	6212											
PFKL	5211	broad.mit.edu	37	chr21	45738404	45738404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgctgctggaagccacgcctGacacgccggcctgcgtggtc	5	6	14	16	5	0	1	0	1	0	0	1	2	0	2	4	3	3	2	4	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45738404G>A	uc002zel.2	+	10	1047	c.988G>A	c.(988-990)GAC>AAC	p.D330N	PFKL_uc002zek.2_Missense_Mutation_p.D377N|PFKL_uc002zem.2_5'Flank|PFKL_uc002zen.2_5'Flank	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	330					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)		AGCCACGCCTGACACGCCGGC	0.662													4	7					0	0	0.009096	0	0		A	45738404	A	A	45738404	3	1	4	1	0	0	0	0	1	0	0	0	11783	1290	45	4	1026	4	PFKL	21	45738404	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	204335	45738404	2391491	4247	6213											
PFKL	5211	broad.mit.edu	37	chr21	45741708	45741708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccggcatctcccatggaCacacagtatacgtggtgcac	10	7	11	13	2	1	0	0	0	1	0	2	2	1	2	2	4	2	3	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45741708C>T	uc002zel.2	+	13	1347	c.1288C>T	c.(1288-1290)CAC>TAC	p.H430Y	PFKL_uc002zek.2_Missense_Mutation_p.H477Y|PFKL_uc002zem.2_Missense_Mutation_p.H17Y|PFKL_uc002zen.2_Missense_Mutation_p.H17Y	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	430					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)		CTCCCATGGACACACAGTATA	0.637													5	14					0	0	0.000978	0	0		T	45741708	T	T	45741708	3	4	4	1	0	0	0	0	1	0	0	0	11783	478	17	4	1338	4	PFKL	21	45741708	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3304	45741708	2388187	4248	6214											
PFKL	5211	broad.mit.edu	37	chr21	45743770	45743770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggcaccgacttcagcctggGctccgacactgctgtaaatg	8	9	11	13	2	1	0	1	0	0	0	2	2	2	0	3	2	2	4	3	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45743770G>A	uc002zel.2	+	16	1678	c.1619G>A	c.(1618-1620)GGC>GAC	p.G540D	PFKL_uc002zek.2_Missense_Mutation_p.G587D|PFKL_uc002zem.2_Missense_Mutation_p.G127D|PFKL_uc002zen.2_Missense_Mutation_p.G127D	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	540					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)		TTCAGCCTGGGCTCCGACACT	0.657													4	12					0	0	0.009096	0	0		A	45743770	A	A	45743770	3	1	4	1	0	0	0	0	1	0	0	0	11783	1203	42	2	1681	2	PFKL	21	45743770	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2062	45743770	2386125	4249	6215											
TRPM2	7226	broad.mit.edu	37	chr21	45786763	45786763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaagaacttcaacatgaagCcgcggctgaagagcattttc	13	8	9	11	2	1	4	1	2	0	2	2	4	1	4	2	1	4	2	2	1	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45786763C>T	uc002zet.1	+	5	763	c.550C>T	c.(550-552)CCG>TCG	p.P184S	TRPM2_uc002zeu.1_Missense_Mutation_p.P184S|TRPM2_uc002zew.1_Missense_Mutation_p.P184S|TRPM2_uc010gpt.1_Missense_Mutation_p.P184S|TRPM2_uc002zex.1_5'Flank	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	184	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CAACATGAAGCCGCGGCTGAA	0.632													3	18					0	0	0.004672	0	0		T	45786763	T	T	45786763	3	4	4	1	0	0	0	0	1	0	0	0	16612	739	26	2	564	2	TRPM2	21	45786763	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	42993	45786763	2343132	4250	6216											
KRTAP10-9	386676	broad.mit.edu	37	chr21	46047615	46047615	+	Frame_Shift_Del	DEL	C	-	-																															gccagcttgctgcacttcctCcccctgccagcagtcctact																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:46047615delC	uc002zfp.3	+	1	576	c.527delC	c.(526-528)TCCfs	p.S176fs	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9	176	16.|25 X 5 AA repeats of C-C-X(3).					keratin filament					0						TGCACTTCCTCCCCCTGCCAG	0.552													92	185	---	---	---	---						.	-	46047615	-	-	46047615	7	5	4	1	0	1	0	1	0	0	0	0	8532	855	30	0	529	0	KRTAP10-9	21	46047615	Frame_Shift_Del	DEL	C	TCGA-BR-4184-01A-01D-1126-08	260852	46047615	2082280	4251	6217											
POFUT2	23275	broad.mit.edu	37	chr21	46687543	46687543	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggtcaataatcgcaacGcctccgtccttgtagagctc	9	10	8	14	3	1	1	1	0	0	1	5	1	3	1	3	1	2	3	3	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:46687543G>A	uc002zhc.2	-	8	1123	c.1098C>T	c.(1096-1098)GGC>GGT	p.G366G	POFUT2_uc002zha.2_RNA|POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Silent_p.G366G	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	366					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)		TAATCGCAACGCCTCCGTCCT	0.552													46	70					0	0	0.00361	0	0		A	46687543	A	A	46687543	2	1	4	1	0	0	0	0	0	0	0	1	12203	1074	38	1		1	POFUT2	21	46687543	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	639928	46687543	1442352	4252	6218											
POFUT2	23275	broad.mit.edu	37	chr21	46705800	46705800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggatatagacatccctgcGcaggttgaagccttccgggg	8	9	13	11	3	0	2	0	1	0	1	3	3	2	3	3	4	2	2	3	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:46705800G>A	uc002zhc.2	-	2	200	c.175C>T	c.(175-177)CGC>TGC	p.R59C	POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Missense_Mutation_p.R59C|POFUT2_uc011afp.1_Missense_Mutation_p.R59C|POFUT2_uc011afq.1_Missense_Mutation_p.R59C|LOC642852_uc002zhf.2_5'Flank	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	59					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)		ACATCCCTGCGCAGGTTGAAG	0.557													7	47					0	0	0.006214	0	0		A	46705800	A	A	46705800	3	1	4	1	0	0	0	0	1	0	0	0	12203	1087	38	1	1285	1	POFUT2	21	46705800	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	18257	46705800	1424095	4253	6219											
COL6A2	1292	broad.mit.edu	37	chr21	47545767	47545767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatccagctggacgacgaaCgtatcgactccctgtcgagc	9	7	10	15	5	0	0	0	0	0	0	4	5	2	1	3	1	3	2	3	1	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47545767C>T	uc002zia.1	+	26	2120	c.2038C>T	c.(2038-2040)CGT>TGT	p.R680C	COL6A2_uc002zhy.1_Missense_Mutation_p.R680C|COL6A2_uc002zhz.1_Missense_Mutation_p.R680C|COL6A2_uc002zib.1_Missense_Mutation_p.R86C|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	680	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GGACGACGAACGTATCGACTC	0.627													7	14					0	0	0.00308	0	0		T	47545767	T	T	47545767	3	4	4	1	0	0	0	0	1	0	0	0	3703	536	19	1	2136	1	COL6A2	21	47545767	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	839967	47545767	584128	4254	6220											
MCM3AP	8888	broad.mit.edu	37	chr21	47665034	47665034	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggccaatcccgtcttcgacGtactgaatgagagtctggca	9	10	11	11	3	2	2	0	2	2	1	4	4	3	2	2	2	1	2	2	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47665034G>A	uc002zir.1	-	23	4761	c.4725C>T	c.(4723-4725)TAC>TAT	p.Y1575Y	MCM3APAS_uc002zim.2_Intron|MCM3APAS_uc002zin.2_Intron|MCM3AP_uc002zio.1_Silent_p.Y70Y|MCM3AP_uc002zip.1_Silent_p.Y316Y|MCM3AP_uc002ziq.1_Silent_p.Y502Y|MCM3APAS_uc002zis.1_Intron	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1575					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					CGTCTTCGACGTACTGAATGA	0.547													4	24					0	0	0.001168	0	0		A	47665034	A	A	47665034	2	1	4	1	0	0	0	0	0	0	0	1	9406	1140	40	1		1	MCM3AP	21	47665034	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	119267	47665034	464861	4255	6221											
MCM3AP	8888	broad.mit.edu	37	chr21	47671503	47671503	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctaagtgagttgaaaagCgaaagcgtctgaatcccacc	13	8	10	10	2	1	3	0	3	1	0	2	4	2	3	2	0	3	2	2	0	5	2	rs149634851	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47671503C>T	uc002zir.1	-	20	4266	c.4230G>A	c.(4228-4230)TCG>TCA	p.S1410S	MCM3APAS_uc002zim.2_RNA|MCM3APAS_uc002zin.2_3'UTR|MCM3AP_uc002zip.1_Silent_p.S151S|MCM3AP_uc002ziq.1_Silent_p.S337S|MCM3APAS_uc002zis.1_RNA	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1410					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					AGTTGAAAAGCGAAAGCGTCT	0.398													5	45					0	0	0.001168	0	0		T	47671503	T	T	47671503	2	4	4	1	0	0	0	0	0	0	0	1	9406	755	27	1		1	MCM3AP	21	47671503	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	6469	47671503	458392	4256	6222											
PCNT	5116	broad.mit.edu	37	chr21	47832880	47832880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttggtgaaaaatgaaatgCgcctgagtctggaggacggc	11	9	14	7	2	2	3	0	3	2	0	2	5	2	5	1	4	1	0	1	4	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47832880C>T	uc002zji.3	+	29	6231	c.6124C>T	c.(6124-6126)CGC>TGC	p.R2042C	PCNT_uc002zjj.2_Missense_Mutation_p.R1924C	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2042					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					AAATGAAATGCGCCTGAGTCT	0.642													9	19					0	0	0.006214	0	0		T	47832880	T	T	47832880	3	4	4	1	0	0	0	0	1	0	0	0	11609	768	27	1	6238	1	PCNT	21	47832880	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	161377	47832880	297015	4257	6223											
DIP2A	23181	broad.mit.edu	37	chr21	47976004	47976004	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggatattagcgggagtgaaGgtaggtcctctgaaatcttg	10	11	15	5	1	2	2	0	2	2	0	3	4	3	4	1	4	1	1	1	4	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47976004G>T	uc002zjo.2	+	29	3681	c.3498G>T	c.(3496-3498)AAG>AAT	p.K1166N	DIP2A_uc011afy.1_Missense_Mutation_p.K1102N|DIP2A_uc011afz.1_Missense_Mutation_p.K1162N|DIP2A_uc002zjr.2_Missense_Mutation_p.K133N	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1166					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		CGGGAGTGAAGGTAGGTCCTC	0.483													26	64					1.38854e-25	1.52398e-25	0.008361	1	0		T	47976004	T	T	47976004	3	4	4	1	0	0	0	0	1	0	0	0	4533	1014	35	5	3694	5	DIP2A	21	47976004	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	143124	47976004	153891	4258	6224											
DIP2A	23181	broad.mit.edu	37	chr21	47978163	47978163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgaacctgtcatgtgtgCgcacgtgcatggtggtcgcc	5	10	16	10	3	1	1	1	1	0	0	2	1	1	1	2	3	3	2	2	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47978163C>T	uc002zjo.2	+	32	4009	c.3826C>T	c.(3826-3828)CGC>TGC	p.R1276C	DIP2A_uc011afz.1_Missense_Mutation_p.R1272C|DIP2A_uc002zjr.2_Missense_Mutation_p.R243C	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1276					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		GTCATGTGTGCGCACGTGCAT	0.662													5	6					0	0	0.001984	0	0		T	47978163	T	T	47978163	3	4	4	1	0	0	0	0	1	0	0	0	4533	768	27	1	4065	1	DIP2A	21	47978163	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2159	47978163	151732	4259	6225											
DIP2A	23181	broad.mit.edu	37	chr21	47986475	47986475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacacactgttcacagggCggcacgatgcactgtatgtg	11	8	11	11	2	1	0	1	0	0	0	1	1	1	0	0	2	2	4	0	2	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47986475C>T	uc002zjo.2	+	37	4525	c.4342C>T	c.(4342-4344)CGG>TGG	p.R1448W	DIP2A_uc011afz.1_Missense_Mutation_p.R1444W|DIP2A_uc002zjs.2_Missense_Mutation_p.R128W|DIP2A_uc002zjt.2_RNA	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1448					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		GTTCACAGGGCGGCACGATGC	0.562													13	24					0	0	0.00245	0	0		T	47986475	T	T	47986475	3	4	4	1	0	0	0	0	1	0	0	0	4533	759	27	1	4601	1	DIP2A	21	47986475	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	8312	47986475	143420	4260	6226											
POTEH	23784	broad.mit.edu	37	chr22	16279297	16279297	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caagtaacagtggtgtgaggCcatgctgtaaaacaatataa	16	9	10	6	0	0	1	0	1	0	0	0	1	0	1	1	2	3	3	1	2	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:16279297C>A	uc010gqp.2	-	4	978	c.926G>T	c.(925-927)GGC>GTC	p.G309V	POTEH_uc002zlg.1_RNA|POTEH_uc002zlh.1_Missense_Mutation_p.G28V|POTEH_uc002zlj.1_Missense_Mutation_p.G144V	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	309	ANK 5.									skin(1)	1						TGGTGTGAGGCCATGCTGTAA	0.323													17	354					7.41877e-09	7.94206e-09	0.001882	1	0		A	16279297	A	A	16279297	3	1	4	1	0	0	0	0	1	0	0	0	12286	739	26	5	739	5	POTEH	22	16279297	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08		16279297	35025269	4261	6227											
GAB4	128954	broad.mit.edu	37	chr22	17472887	17472887	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgatgtcaaacatataGcccttctgaatctccttctt	9	16	5	11	0	5	2	1	2	4	0	6	2	5	2	2	0	2	0	2	0	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:17472887G>A	uc002zlw.2	-	2	462	c.354C>T	c.(352-354)GGC>GGT	p.G118G	GAB4_uc010gqs.1_Silent_p.G118G	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	118	PH.									large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				CAAACATATAGCCCTTCTGAA	0.502													10	243					0	0	0.006214	0	0		A	17472887	A	A	17472887	2	1	4	1	0	0	0	0	0	0	0	1	6165	958	34	2		2	GAB4	22	17472887	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1193590	17472887	33831679	4262	6228											
GAB4	128954	broad.mit.edu	37	chr22	17488874	17488874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggggcgacttcctcagccagCcgctgtacagcacgtggcca	7	6	13	15	3	1	0	1	0	0	0	2	1	2	0	4	3	4	3	4	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:17488874C>T	uc002zlw.2	-	1	239	c.131G>A	c.(130-132)GGC>GAC	p.G44D	GAB4_uc010gqs.1_Missense_Mutation_p.G44D	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	44	PH.									large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				CCTCAGCCAGCCGCTGTACAG	0.677													6	7					0	0	0.001984	0	0		T	17488874	T	T	17488874	3	4	4	1	0	0	0	0	1	0	0	0	6165	739	26	2	1633	2	GAB4	22	17488874	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	15987	17488874	33815692	4263	6229											
IL17RA	23765	broad.mit.edu	37	chr22	17581248	17581248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcccttctcttcagtggCgttttaccttcagccacttt	4	17	5	15	1	3	0	2	0	1	0	6	0	5	0	4	1	2	1	4	1	1	6	rs145378071	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:17581248C>T	uc002zly.2	+	5	560	c.427C>T	c.(427-429)CGT>TGT	p.R143C	IL17RA_uc010gqt.2_Missense_Mutation_p.R143C	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	143	Extracellular (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		TCTTCAGTGGCGTTTTACCTT	0.547													32	98					0	0	0.00623	0	0		T	17581248	T	T	17581248	3	4	4	1	0	0	0	0	1	0	0	0	7655	768	27	1	445	1	IL17RA	22	17581248	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	92374	17581248	33723318	4264	6230											
BID	637	broad.mit.edu	37	chr22	18220811	18220811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaagctcctcacgtaggtgCgtaggttctggttaataaaa	11	12	10	8	2	2	0	1	0	1	0	3	0	3	0	1	3	2	5	1	3	6	6	rs139212717		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:18220811C>T	uc002znd.1	-	5	718	c.548G>A	c.(547-549)CGC>CAC	p.R183H	BID_uc002znc.1_Missense_Mutation_p.R229H|BID_uc002zne.1_Missense_Mutation_p.R87H|BID_uc010gra.1_RNA|BID_uc002znf.1_Missense_Mutation_p.R87H|BID_uc010grb.1_Missense_Mutation_p.R183H|BID_uc010grc.1_Missense_Mutation_p.R87H	NM_001196	NP_001187	P55957	BID_HUMAN	BH3 interacting domain death agonist isoform 2	183					activation of pro-apoptotic gene products|establishment of protein localization in membrane|induction of apoptosis by intracellular signals|induction of apoptosis via death domain receptors|neuron apoptosis|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria|release of cytochrome c from mitochondria	cytosol|membrane fraction|mitochondrial outer membrane	death receptor binding				0		all_epithelial(15;0.198)		Lung(27;0.0419)		CACGTAGGTGCGTAGGTTCTG	0.547													5	70					0	0	0.000602	0	0		T	18220811	T	T	18220811	3	4	4	1	0	0	0	0	1	0	0	0	1431	768	27	1	47	1	BID	22	18220811	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	639563	18220811	33083755	4265	6231											
MICAL3	57553	broad.mit.edu	37	chr22	18368675	18368675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccgatggactgtgcgggcGcattctcttcaaatttggcc	6	12	12	11	3	2	0	1	0	1	0	3	2	2	1	2	3	2	1	2	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:18368675G>A	uc002zng.3	-	16	2563	c.2210C>T	c.(2209-2211)GCG>GTG	p.A737V	MICAL3_uc011agl.1_Missense_Mutation_p.A737V|MICAL3_uc002znh.2_Missense_Mutation_p.A737V|MICAL3_uc002znj.1_Missense_Mutation_p.A437V|MICAL3_uc002znk.1_Missense_Mutation_p.A737V|MICAL3_uc002znl.1_Missense_Mutation_p.A370V|MICAL3_uc002znm.2_Missense_Mutation_p.A238V|MICAL3_uc010grf.2_Missense_Mutation_p.A737V	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	737						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		CTGTGCGGGCGCATTCTCTTC	0.547													21	73					0	0	0.002299	0	0		A	18368675	A	A	18368675	3	1	4	1	0	0	0	0	1	0	0	0	9589	1087	38	1	4603	1	MICAL3	22	18368675	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	147864	18368675	32935891	4266	6232											
TUBA8	51807	broad.mit.edu	37	chr22	18604435	18604435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgggaagcatgtgccccggGccgtcatgatagatctggag	9	8	15	9	2	2	2	1	1	1	1	2	4	2	4	3	3	2	1	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:18604435G>A	uc002znv.1	+	2	266	c.193G>A	c.(193-195)GCC>ACC	p.A65T	TUBA8_uc002znr.2_5'UTR|TUBA8_uc002znw.1_Missense_Mutation_p.A89T|TUBA8_uc002znu.1_Missense_Mutation_p.A65T	NM_018943	NP_061816	Q9NY65	TBA8_HUMAN	tubulin, alpha 8	65					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0						TGTGCCCCGGGCCGTCATGAT	0.547													13	26					0	0	0.00245	0	0		A	18604435	A	A	18604435	3	1	4	1	0	0	0	0	1	0	0	0	16776	1203	42	2	199	2	TUBA8	22	18604435	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	235760	18604435	32700131	4267	6233											
DGCR14	8220	broad.mit.edu	37	chr22	19127471	19127471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggcattgtcctcactcGtgtagcggctcaggaagaca	10	8	13	10	2	2	1	2	0	0	1	4	3	3	3	1	4	1	3	1	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:19127471G>A	uc002zou.2	-	4	504	c.467C>T	c.(466-468)ACG>ATG	p.T156M	DGCR14_uc002zot.2_Missense_Mutation_p.T77M|DGCR14_uc002zov.2_RNA	NM_022719	NP_073210	Q96DF8	DGC14_HUMAN	DiGeorge syndrome critical region protein 14	156					nervous system development	catalytic step 2 spliceosome				ovary(1)	1	Colorectal(54;0.0993)					GTCCTCACTCGTGTAGCGGCT	0.607													26	85					0	0	0.009535	0	0		A	19127471	A	A	19127471	3	1	4	1	0	0	0	0	1	0	0	0	4466	1145	40	1	991	1	DGCR14	22	19127471	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	523036	19127471	32177095	4268	6234											
HIRA	7290	broad.mit.edu	37	chr22	19346867	19346867	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacccttaccagctgccCgcagcagtgaggatccggct	7	6	11	17	2	0	1	0	1	0	0	1	2	1	2	5	2	4	4	5	2	1	1	rs138814028	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:19346867C>T	uc002zpf.1	-	18	2446	c.2226G>A	c.(2224-2226)GCG>GCA	p.A742A	HIRA_uc011agx.1_Silent_p.A608A|HIRA_uc010grn.1_Intron|HIRA_uc010gro.1_Silent_p.A698A|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	742	Interaction with PAX3 (By similarity).|Interaction with histone H2B.|Interaction with histone H4.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					ACCAGCTGCCCGCAGCAGTGA	0.637													9	17					0	0	0.008291	0	0		T	19346867	T	T	19346867	2	4	4	1	0	0	0	0	0	0	0	1	7136	639	23	1		1	HIRA	22	19346867	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	219396	19346867	31957699	4269	6235											
DGCR8	54487	broad.mit.edu	37	chr22	20073913	20073913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtacacaggagcagagcgcGacgtgcgggcggagtgcggt	8	5	19	9	6	0	1	0	0	0	1	0	4	0	3	0	4	5	2	0	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:20073913G>A	uc002zri.2	+	2	777	c.427G>A	c.(427-429)GAC>AAC	p.D143N	DGCR8_uc010grz.2_Missense_Mutation_p.D143N|DGCR8_uc002zrj.2_5'Flank	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	143	Necessary for nuclear localization and retention.|Necessary for interaction with NCL.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)					AGCAGAGCGCGACGTGCGGGC	0.582													4	43					0	0	0.009096	0	0		A	20073913	A	A	20073913	3	1	4	1	0	0	0	0	1	0	0	0	4470	1058	37	1	429	1	DGCR8	22	20073913	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	727046	20073913	31230653	4270	6236											
ZDHHC8	29801	broad.mit.edu	37	chr22	20128442	20128442	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcggtgagtttgaagccGcctttccttaggcctgaact	6	12	11	12	3	0	3	0	3	0	0	2	3	1	3	4	2	2	1	4	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:20128442G>A	uc002zrq.2	+	7	907	c.801G>A	c.(799-801)CCG>CCA	p.P267P	ZDHHC8_uc002zrr.1_Silent_p.P267P|ZDHHC8_uc010gsa.2_Silent_p.P73P	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	267	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					GTTTGAAGCCGCCTTTCCTTA	0.637													11	25					0	0	0.001855	0	0		A	20128442	A	A	20128442	2	1	4	1	0	0	0	0	0	0	0	1	17646	1074	38	1		1	ZDHHC8	22	20128442	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	54529	20128442	31176124	4271	6237											
ZNF74	7625	broad.mit.edu	37	chr22	20759892	20759892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctcttcgcccagcaacGcgttcccgaggggggaccct	5	7	11	18	4	1	0	0	0	1	0	4	2	3	1	5	3	2	2	5	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:20759892G>A	uc010gsm.2	+	6	781	c.569G>A	c.(568-570)CGC>CAC	p.R190H	ZNF74_uc002zsg.2_Missense_Mutation_p.R119H|ZNF74_uc002zsh.2_Missense_Mutation_p.R190H|ZNF74_uc002zsi.2_Missense_Mutation_p.R119H|ZNF74_uc010gsn.2_Missense_Mutation_p.R119H	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	190					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GCCCAGCAACGCGTTCCCGAG	0.667													6	11					0	0	0.004482	0	0		A	20759892	A	A	20759892	3	1	4	1	0	0	0	0	1	0	0	0	18152	1087	38	1	587	1	ZNF74	22	20759892	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	631450	20759892	30544674	4272	6238											
PI4KA	5297	broad.mit.edu	37	chr22	21062348	21062348	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctcctcagtaggggatgTcattctgatagtactggatc	8	12	10	11	0	3	1	2	1	1	0	5	3	4	3	3	3	1	2	3	3	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:21062348T>C	uc002zsz.3	-	55	6353	c.6122A>G	c.(6121-6123)GAC>GGC	p.D2041G	PI4KA_uc010gsp.2_Missense_Mutation_p.D432G|PI4KA_uc002zsy.3_Missense_Mutation_p.D851G	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	2041					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			GTAGGGGATGTCATTCTGATA	0.612													10	98					0	0	0.001368	0	0		C	21062348	C	C	21062348	3	2	4	1	0	0	0	0	1	0	0	0	11892	1667	58	3	16	3	PI4KA	22	21062348	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	302456	21062348	30242218	4273	6239											
SERPIND1	3053	broad.mit.edu	37	chr22	21134082	21134082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccgttggcatttctactgCgatgggtatgatttccttag	7	15	10	9	2	1	1	0	1	1	0	2	2	2	1	2	2	2	3	2	2	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:21134082C>T	uc002ztb.1	+	2	549	c.482C>T	c.(481-483)GCG>GTG	p.A161V	PI4KA_uc002zsz.3_Intron|SERPIND1_uc002ztc.2_Missense_Mutation_p.A189V	NM_000185	NP_000176	P05546	HEP2_HUMAN	heparin cofactor II precursor	161					blood coagulation|chemotaxis|regulation of proteolysis	extracellular region	heparin binding|serine-type endopeptidase inhibitor activity				0	all_cancers(11;6.16e-25)|all_epithelial(7;1.02e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)		Ardeparin(DB00407)	ATTTCTACTGCGATGGGTATG	0.443													28	73					0	0	0.007291	0	0		T	21134082	T	T	21134082	3	4	4	1	0	0	0	0	1	0	0	0	14135	768	27	1	484	1	SERPIND1	22	21134082	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	71734	21134082	30170484	4274	6240											
SLC7A4	6545	broad.mit.edu	37	chr22	21385306	21385306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggccagaggcacagaccGccgtgggttctgggcctcct	6	7	15	13	2	1	2	0	0	1	2	2	3	2	2	5	4	0	2	5	4	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:21385306G>A	uc002zud.2	-	2	864	c.796C>T	c.(796-798)CGG>TGG	p.R266W	SLC7A4_uc002zue.2_Missense_Mutation_p.R266W	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	266					cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	GGCACAGACCGCCGTGGGTTC	0.632													8	13					0	0	0.004482	0	0		A	21385306	A	A	21385306	3	1	4	1	0	0	0	0	1	0	0	0	14724	1086	38	1	1127	1	SLC7A4	22	21385306	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	251224	21385306	29919260	4275	6241											
HIC2	23119	broad.mit.edu	37	chr22	21799218	21799218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgcccacaggtggtgcGcgtgggcagggcgcggggac	4	7	19	11	4	1	0	0	0	1	0	1	1	1	1	1	6	2	1	1	6	0	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:21799218G>A	uc002zur.3	+	3	264	c.34G>A	c.(34-36)GCG>ACG	p.A12T	HIC2_uc002zus.3_Missense_Mutation_p.A12T	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	12					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CAGGTGGTGCGCGTGGGCAGG	0.672													4	28					0	0	0.001168	0	0		A	21799218	A	A	21799218	3	1	4	1	0	0	0	0	1	0	0	0	7118	1087	38	1	40	1	HIC2	22	21799218	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	413912	21799218	29505348	4276	6242											
HIC2	23119	broad.mit.edu	37	chr22	21800560	21800560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagctctgagcagctcaatgCgcacgtggagactcacacgg	10	6	12	13	3	3	2	2	1	1	1	3	3	3	2	0	2	4	4	0	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:21800560C>T	uc002zur.3	+	3	1606	c.1376C>T	c.(1375-1377)GCG>GTG	p.A459V	HIC2_uc002zus.3_Missense_Mutation_p.A459V	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	459	C2H2-type 1.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CAGCTCAATGCGCACGTGGAG	0.612													5	51					0	0	0.000602	0	0		T	21800560	T	T	21800560	3	4	4	1	0	0	0	0	1	0	0	0	7118	768	27	1	1382	1	HIC2	22	21800560	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1342	21800560	29504006	4277	6243											
RAB36	9609	broad.mit.edu	37	chr22	23494702	23494702	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctctacgtggggaagaccagCctcatccacaggtacaaggc	11	6	11	13	1	2	1	1	0	1	1	3	2	3	2	3	4	3	1	3	4	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:23494702C>T	uc002zwv.1	+	4	454	c.414C>T	c.(412-414)AGC>AGT	p.S138S	RAB36_uc010gtw.1_Intron	NM_004914	NP_004905	O95755	RAB36_HUMAN	RAB36, member RAS oncogene family	138					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.155)		GGAAGACCAGCCTCATCCACA	0.567													6	33					0	0	0.001984	0	0		T	23494702	T	T	23494702	2	4	4	1	0	0	0	0	0	0	0	1	12951	738	26	2		2	RAB36	22	23494702	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1694142	23494702	27809864	4278	6244											
IGLL1	3543	broad.mit.edu	37	chr22	23915549	23915549	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggacctccactgctcgggCgtcaggctcaggtagctgct	5	8	14	14	3	2	0	2	0	0	0	4	1	3	1	2	4	3	5	2	4	1	1	rs146592375		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:23915549C>T	uc002zxd.2	-	3	664	c.546G>A	c.(544-546)ACG>ACA	p.T182T	IGLL1_uc002zxe.2_3'UTR	NM_020070	NP_064455	P15814	IGLL1_HUMAN	immunoglobulin lambda-like polypeptide 1 isoform	182	C region (By similarity to lambda light- chain).|Ig-like C1-type.				immune response	extracellular region|membrane					0						ACTGCTCGGGCGTCAGGCTCA	0.612													21	33					0	0	0.002299	0	0		T	23915549	T	T	23915549	2	4	4	1	0	0	0	0	0	0	0	1	7609	755	27	1		1	IGLL1	22	23915549	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	420847	23915549	27389017	4279	6245											
C22orf43	51233	broad.mit.edu	37	chr22	23974150	23974150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcagattcataacagggtgCgtccttccccctgggccagc	8	9	10	14	1	2	1	2	0	0	1	4	1	4	1	4	2	3	0	4	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:23974150C>T	uc002zxf.2	-	1	338	c.61G>A	c.(61-63)GCA>ACA	p.A21T		NM_016449	NP_057533	Q6PGQ1	CV043_HUMAN	hypothetical protein LOC51233	21										skin(1)	1						TAACAGGGTGCGTCCTTCCCC	0.537													10	30					0	0	0.008291	0	0		T	23974150	T	T	23974150	3	4	4	1	0	0	0	0	1	0	0	0	2153	768	27	1	676	1	C22orf43	22	23974150	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	58601	23974150	27330416	4280	6246											
CABIN1	23523	broad.mit.edu	37	chr22	24567727	24567727	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagcaccccaaagacagccGagagaacttctttcctgtga	14	7	8	12	1	1	3	0	1	1	2	2	5	2	3	4	0	3	1	4	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:24567727G>A	uc002zzi.1	+	34	5931	c.5804G>A	c.(5803-5805)CGA>CAA	p.R1935Q	CABIN1_uc002zzj.1_Missense_Mutation_p.R1856Q|CABIN1_uc002zzl.1_Missense_Mutation_p.R1935Q|CABIN1_uc010gul.1_5'UTR	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1935					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						AAAGACAGCCGAGAGAACTTC	0.622													22	54					0	0	0.003954	0	0		A	24567727	A	A	24567727	3	1	4	1	0	0	0	0	1	0	0	0	2531	1058	37	1	5934	1	CABIN1	22	24567727	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	593577	24567727	26736839	4281	6247											
SUSD2	56241	broad.mit.edu	37	chr22	24580172	24580172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacgcgttggcaatactacGgcaccgccaacacctcaggc	11	5	10	15	4	1	1	1	0	0	1	1	1	1	1	3	3	3	3	3	3	4	3	rs114108445	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:24580172G>A	uc002zzn.1	+	4	552	c.508G>A	c.(508-510)GGC>AGC	p.G170S		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	170	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GCAATACTACGGCACCGCCAA	0.597													11	54					0	0	0.003163	0	0		A	24580172	A	A	24580172	3	1	4	1	0	0	0	0	1	0	0	0	15433	1116	39	1	522	1	SUSD2	22	24580172	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	12445	24580172	26724394	4282	6248											
ADRBK2	157	broad.mit.edu	37	chr22	26110386	26110386	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aataatcagctacttgattgCgaccaagaactctacaagaa	17	9	6	9	1	2	3	1	1	1	2	2	4	2	3	1	0	5	1	1	0	8	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26110386C>T	uc003abx.3	+	18	1650	c.1503C>T	c.(1501-1503)TGC>TGT	p.C501C	ADRBK2_uc003abw.2_Silent_p.C388C|ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	501	AGC-kinase C-terminal.						ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	TACTTGATTGCGACCAAGAAC	0.398													17	60					0	0	0.006122	0	0		T	26110386	T	T	26110386	2	4	4	1	0	0	0	0	0	0	0	1	344	776	27	1		1	ADRBK2	22	26110386	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1530214	26110386	25194180	4283	6249											
MYO18B	84700	broad.mit.edu	37	chr22	26157081	26157081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccatctcatcacgcctcGccctgtgggagcagaaggaa	9	7	12	13	2	2	1	2	0	1	1	4	3	2	3	3	3	1	1	3	3	2	0	rs139296373	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26157081G>A	uc003abz.1	+	2	272	c.22G>A	c.(22-24)GCC>ACC	p.A8T	MYO18B_uc003aca.1_5'Flank|MYO18B_uc010guy.1_5'Flank|MYO18B_uc010guz.1_5'Flank|MYO18B_uc011aka.1_5'Flank	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	8						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						ATCACGCCTCGCCCTGTGGGA	0.592													13	58					0	0	0.00245	0	0		A	26157081	A	A	26157081	3	1	4	1	0	0	0	0	1	0	0	0	10084	1087	38	1	24	1	MYO18B	22	26157081	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	46695	26157081	25147485	4284	6250											
MYO18B	84700	broad.mit.edu	37	chr22	26173737	26173737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatggcaggcagtgtggatgGcagggtctcaggtatggtgg	7	9	20	5	0	1	0	1	0	1	0	2	2	1	1	0	8	0	4	0	8	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26173737G>A	uc003abz.1	+	8	2307	c.2057G>A	c.(2056-2058)GGC>GAC	p.G686D	MYO18B_uc003aca.1_Missense_Mutation_p.G567D|MYO18B_uc010guy.1_Missense_Mutation_p.G567D|MYO18B_uc010guz.1_Missense_Mutation_p.G567D|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_Missense_Mutation_p.G199D	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	686	Myosin head-like.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						AGTGTGGATGGCAGGGTCTCA	0.572													8	29					0	0	0.004482	0	0		A	26173737	A	A	26173737	3	1	4	1	0	0	0	0	1	0	0	0	10084	1203	42	2	2083	2	MYO18B	22	26173737	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	16656	26173737	25130829	4285	6251											
MYO18B	84700	broad.mit.edu	37	chr22	26299648	26299648	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggtggagatgctacaGgaccataaacgggagctgct	12	6	14	9	1	0	1	0	0	0	1	0	4	0	3	1	4	6	4	1	4	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26299648G>T	uc003abz.1	+	31	5248	c.4998G>T	c.(4996-4998)CAG>CAT	p.Q1666H	MYO18B_uc003aca.1_Missense_Mutation_p.Q1547H|MYO18B_uc010guy.1_Missense_Mutation_p.Q1548H|MYO18B_uc010guz.1_Missense_Mutation_p.Q1546H|MYO18B_uc011aka.1_Missense_Mutation_p.Q820H|MYO18B_uc011akb.1_Missense_Mutation_p.Q1179H	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1666	Potential.|Tail.|Gln-rich.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						AGATGCTACAGGACCATAAAC	0.552													3	9					0.00024832	0.000259867	0.009096	1	0		T	26299648	T	T	26299648	3	4	4	1	0	0	0	0	1	0	0	0	10084	991	35	5	5116	5	MYO18B	22	26299648	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	125911	26299648	25004918	4286	6252											
SEZ6L	23544	broad.mit.edu	37	chr22	26688919	26688919	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccctatgtggcccacacActcccccagaggccagaacc	10	4	8	19	0	0	2	0	0	0	2	1	2	1	2	6	2	2	0	6	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26688919A>G	uc003acb.2	+	2	798	c.642A>G	c.(640-642)ACA>ACG	p.T214T	SEZ6L_uc003acc.2_Silent_p.T214T|SEZ6L_uc011akc.1_Silent_p.T214T|SEZ6L_uc003acd.2_Silent_p.T214T|SEZ6L_uc011akd.1_Silent_p.T214T|SEZ6L_uc003ace.2_Silent_p.T214T|SEZ6L_uc003acf.1_5'UTR|SEZ6L_uc010gvc.1_5'UTR	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	214	Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						TGGCCCACACACTCCCCCAGA	0.647													25	33					0	0	0.007291	0	0		G	26688919	G	G	26688919	2	3	4	1	0	0	0	0	0	0	0	1	14168	146	6	3		3	SEZ6L	22	26688919	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	389271	26688919	24615647	4287	6253											
ASPHD2	57168	broad.mit.edu	37	chr22	26839084	26839084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcagcagaggatggcccacGggtggttttcatggtggatt	7	12	15	7	1	2	1	2	0	0	1	2	3	2	3	1	6	1	2	1	6	0	4	rs138986249		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26839084G>A	uc003acg.2	+	4	1419	c.1022G>A	c.(1021-1023)CGG>CAG	p.R341Q		NM_020437	NP_065170	Q6ICH7	ASPH2_HUMAN	aspartate beta-hydroxylase domain containing 2	341	Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity			ovary(1)	1						GATGGCCCACGGGTGGTTTTC	0.592													37	125					0	0	0.00361	0	0		A	26839084	A	A	26839084	3	1	4	1	0	0	0	0	1	0	0	0	1056	1116	39	1	1032	1	ASPHD2	22	26839084	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	150165	26839084	24465482	4288	6254											
TFIP11	24144	broad.mit.edu	37	chr22	26890122	26890122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccaacgttggaggacaccGcccggttcatgatatcaagt	11	9	10	11	3	2	1	2	1	0	0	2	3	2	3	3	3	2	2	3	3	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26890122G>A	uc003acr.2	-	13	2515	c.2141C>T	c.(2140-2142)GCG>GTG	p.A714V	TFIP11_uc003acq.2_Missense_Mutation_p.A73V|TFIP11_uc003acs.2_Missense_Mutation_p.A714V|TFIP11_uc003act.2_Missense_Mutation_p.A714V|uc003acu.1_RNA	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	714					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						GGAGGACACCGCCCGGTTCAT	0.453													21	52					0	0	0.00278	0	0		A	26890122	A	A	26890122	3	1	4	1	0	0	0	0	1	0	0	0	15832	1087	38	1	380	1	TFIP11	22	26890122	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	51038	26890122	24414444	4289	6255											
TPST2	8459	broad.mit.edu	37	chr22	26937372	26937372	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgccactgcgaggcacGccacccacgaagatgagcgg	9	4	15	13	4	0	2	0	1	0	1	0	4	0	2	3	3	3	1	3	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26937372G>A	uc003acv.2	-	2	393	c.225C>T	c.(223-225)GGC>GGT	p.G75G	TPST2_uc003acw.2_Silent_p.G75G|TPST2_uc003acx.2_Silent_p.G75G|TPST2_uc011akf.1_Silent_p.G75G	NM_003595	NP_003586	O60704	TPST2_HUMAN	tyrosylprotein sulfotransferase 2	75	Lumenal (Potential).				peptidyl-tyrosine sulfation	endoplasmic reticulum|Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity			central_nervous_system(1)	1						TGCGAGGCACGCCACCCACGA	0.687													8	21					0	0	0.00308	0	0		A	26937372	A	A	26937372	2	1	4	1	0	0	0	0	0	0	0	1	16454	1074	38	1		1	TPST2	22	26937372	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	47250	26937372	24367194	4290	6256											
MN1	4330	broad.mit.edu	37	chr22	28194145	28194145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaatttactggccgaggtgCgctggctgggctggaaatca	8	9	14	10	2	1	0	1	0	0	0	1	2	1	1	2	5	2	3	2	5	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:28194145C>T	uc003adj.2	-	1	3342	c.2387G>A	c.(2386-2388)CGC>CAC	p.R796H		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	796							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						GGCCGAGGTGCGCTGGCTGGG	0.701			T	ETV6	AML|meningioma								3	4					0	0	0.004672	0	0		T	28194145	T	T	28194145	3	4	4	1	0	0	0	0	1	0	0	0	9691	768	27	1	1583	1	MN1	22	28194145	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1256773	28194145	23110421	4291	6257											
MN1	4330	broad.mit.edu	37	chr22	28195159	28195159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctgcccggaaagtcgaagCgcggcctcttggccacgttc	6	7	13	15	6	1	0	0	0	1	0	3	2	1	1	3	3	2	2	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:28195159C>T	uc003adj.2	-	1	2328	c.1373G>A	c.(1372-1374)CGC>CAC	p.R458H		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	458							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						AAAGTCGAAGCGCGGCCTCTT	0.647			T	ETV6	AML|meningioma								3	10					0	0	0.004672	0	0		T	28195159	T	T	28195159	3	4	4	1	0	0	0	0	1	0	0	0	9691	768	27	1	2597	1	MN1	22	28195159	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1014	28195159	23109407	4292	6258											
XBP1	7494	broad.mit.edu	37	chr22	29191491	29191491	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctctctgtctcagagggtAtctctaagactaggggcttg	7	12	13	9	0	3	2	1	0	3	2	6	2	3	2	0	4	0	3	0	4	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:29191491A>C	uc011akl.1	-	6	851	c.803T>G	c.(802-804)ATA>AGA	p.I268R	XBP1_uc003aec.2_Missense_Mutation_p.I89R|XBP1_uc003aed.2_3'UTR|XBP1_uc003aef.2_Missense_Mutation_p.I89R	NM_001079539	NP_001073007	P17861	XBP1_HUMAN	X-box binding protein 1 isoform XBP1(S)	Error:Variant_position_missing_in_P17861_after_alignment					immune response	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						CTCAGAGGGTATCTCTAAGAC	0.468													3	42					0	0	0.004672	0	0		C	29191491	C	C	29191491	3	2	4	1	0	0	0	0	1	0	0	0	17448	449	16	5	331	5	XBP1	22	29191491	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	996332	29191491	22113075	4293	6259											
AP1B1	162	broad.mit.edu	37	chr22	29745285	29745285	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgatccgttccgcgtactcGcccacaatccagatcatggc	8	9	8	16	5	1	1	1	0	0	1	6	2	4	1	4	1	1	2	4	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:29745285G>A	uc003afj.2	-	11	1543	c.1359C>T	c.(1357-1359)GGC>GGT	p.G453G	AP1B1_uc003afi.2_Silent_p.G453G|AP1B1_uc003afk.2_Silent_p.G453G|AP1B1_uc003afl.2_Silent_p.G453G|AP1B1_uc011ako.1_Silent_p.G6G	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	453					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						CCGCGTACTCGCCCACAATCC	0.602													22	49					0	0	0.003954	0	0		A	29745285	A	A	29745285	2	1	4	1	0	0	0	0	0	0	0	1	731	1074	38	1		1	AP1B1	22	29745285	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	553794	29745285	21559281	4294	6260											
CABP7	164633	broad.mit.edu	37	chr22	30125542	30125542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcggccaaccaggtgctgcGcagtggcatgaagtagacgc	9	6	15	11	3	0	2	0	1	0	1	0	2	0	2	2	3	4	4	2	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:30125542G>A	uc003agl.2	+	5	702	c.632G>A	c.(631-633)CGC>CAC	p.R211H		NM_182527	NP_872333	Q86V35	CABP7_HUMAN	calcium binding protein 7	211	Extracellular (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding				0			OV - Ovarian serous cystadenocarcinoma(5;0.00442)|Epithelial(10;0.215)|all cancers(5;0.233)			CAGGTGCTGCGCAGTGGCATG	0.647													7	23					0	0	0.004482	0	0		A	30125542	A	A	30125542	3	1	4	1	0	0	0	0	1	0	0	0	2538	1087	38	1	650	1	CABP7	22	30125542	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	380257	30125542	21179024	4295	6261											
ASCC2	84164	broad.mit.edu	37	chr22	30221725	30221725	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgttgtctttagggggCggtttgtataacacaaaata	12	13	12	4	1	1	0	0	0	1	0	1	1	1	1	0	4	1	3	0	4	7	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:30221725C>T	uc003agr.2	-	3	231	c.126G>A	c.(124-126)CCG>CCA	p.P42P	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Silent_p.P42P|ASCC2_uc011akr.1_Intron	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	42					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			CTTTAGGGGGCGGTTTGTATA	0.557													11	117					0	0	0.001368	0	0		T	30221725	T	T	30221725	2	4	4	1	0	0	0	0	0	0	0	1	1033	755	27	1		1	ASCC2	22	30221725	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	96183	30221725	21082841	4296	6262											
SF3A1	10291	broad.mit.edu	37	chr22	30730631	30730631	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggccaggtggatgactgcGccattggccatgttgtagta	8	10	15	8	1	0	1	0	1	0	0	0	2	0	2	3	4	1	3	3	4	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:30730631G>A	uc003ahl.2	-	16	2466	c.2334C>T	c.(2332-2334)GGC>GGT	p.G778G		NM_005877	NP_005868	Q15459	SF3A1_HUMAN	splicing factor 3a, subunit 1, 120kDa isoform 1	778	Ubiquitin-like.				nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|U2-type spliceosomal complex	protein binding|RNA binding			ovary(3)|large_intestine(1)|pancreas(1)	5						GGATGACTGCGCCATTGGCCA	0.542													15	49					0	0	0.006122	0	0		A	30730631	A	A	30730631	2	1	4	1	0	0	0	0	0	0	0	1	14171	1074	38	1		1	SF3A1	22	30730631	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	508906	30730631	20573935	4297	6263											
SF3A1	10291	broad.mit.edu	37	chr22	30734847	30734847	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtggctgaagatggtggCggtggctgttgagggatttc	5	13	19	4	1	0	3	0	2	0	1	1	4	0	4	0	7	0	3	0	7	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:30734847C>T	uc003ahl.2	-	11	1806	c.1674G>A	c.(1672-1674)CCG>CCA	p.P558P		NM_005877	NP_005868	Q15459	SF3A1_HUMAN	splicing factor 3a, subunit 1, 120kDa isoform 1	558	Poly-Pro.				nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|U2-type spliceosomal complex	protein binding|RNA binding			ovary(3)|large_intestine(1)|pancreas(1)	5						AAGATGGTGGCGGTGGCTGTT	0.557													8	54					0	0	0.004482	0	0		T	30734847	T	T	30734847	2	4	4	1	0	0	0	0	0	0	0	1	14171	755	27	1		1	SF3A1	22	30734847	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4216	30734847	20569719	4298	6264											
SMTN	6525	broad.mit.edu	37	chr22	31484712	31484712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgctggtgagtatgaggagCgcaagctgatccgagctgcc	8	7	16	10	3	0	3	0	3	0	0	1	5	1	4	2	2	4	5	2	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:31484712C>T	uc003ajl.1	+	5	540	c.322C>T	c.(322-324)CGC>TGC	p.R108C	SMTN_uc003ajk.1_Missense_Mutation_p.R108C|SMTN_uc003ajm.1_Missense_Mutation_p.R108C|SMTN_uc011ale.1_Missense_Mutation_p.R162C|SMTN_uc011alf.1_Missense_Mutation_p.R164C|SMTN_uc003ajn.1_Missense_Mutation_p.R100C|SMTN_uc011alg.1_5'Flank	NM_006932	NP_008863	P53814	SMTN_HUMAN	smoothelin isoform c	108					muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3						GTATGAGGAGCGCAAGCTGAT	0.642													6	8					0	0	0.001168	0	0		T	31484712	T	T	31484712	3	4	4	1	0	0	0	0	1	0	0	0	14839	768	27	1	336	1	SMTN	22	31484712	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	749865	31484712	19819854	4299	6265											
PLA2G3	50487	broad.mit.edu	37	chr22	31533804	31533804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgttggctttgctggggcGcttggaccctttctgatgtg	2	15	16	8	1	1	1	0	1	1	0	1	2	1	2	1	5	1	4	1	5	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:31533804G>A	uc003aka.2	-	4	1087	c.958C>T	c.(958-960)CGC>TGC	p.R320C		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	320					cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						TTGCTGGGGCGCTTGGACCCT	0.657													16	60					0	0	0.008871	0	0		A	31533804	A	A	31533804	3	1	4	1	0	0	0	0	1	0	0	0	12019	1087	38	1	587	1	PLA2G3	22	31533804	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	49092	31533804	19770762	4300	6266											
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31854475	31854475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actcaccgaagccaagcatgGcaccttatcaaggttaaaga	15	7	8	11	1	2	1	2	0	0	1	2	2	2	1	3	2	2	3	3	2	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:31854475G>A	uc003akz.1	-	7	1113	c.949C>T	c.(949-951)CCA>TCA	p.P317S	EIF4ENIF1_uc003akx.1_5'Flank|EIF4ENIF1_uc003aky.1_5'Flank|EIF4ENIF1_uc003ala.1_Missense_Mutation_p.P317S|EIF4ENIF1_uc003alb.1_Missense_Mutation_p.P154S	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	317						nucleus	protein binding|protein transporter activity			ovary(1)	1						GCCAAGCATGGCACCTTATCA	0.453													5	55					0	0	0.00308	0	0		A	31854475	A	A	31854475	3	1	4	1	0	0	0	0	1	0	0	0	5043	1203	42	2	2063	2	EIF4ENIF1	22	31854475	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	320671	31854475	19450091	4301	6267											
SLC5A4	6527	broad.mit.edu	37	chr22	32650199	32650199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggttggtcttcagcatcGcctgagcagaagggaagaca	10	8	13	10	2	2	3	1	1	1	2	4	4	2	4	1	3	2	3	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:32650199G>A	uc003ami.2	-	2	139	c.137C>T	c.(136-138)GCG>GTG	p.A46V		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	46	Helical; (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						CTTCAGCATCGCCTGAGCAGA	0.572													16	33					0	0	0.004007	0	0		A	32650199	A	A	32650199	3	1	4	1	0	0	0	0	1	0	0	0	14692	1101	38	1	1898	1	SLC5A4	22	32650199	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	795724	32650199	18654367	4302	6268											
MCM5	4174	broad.mit.edu	37	chr22	35802622	35802622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtccgtgccaaggccacccGcatctctatccagtgccgca	7	7	10	17	3	1	0	0	0	1	0	4	0	3	0	6	2	2	2	6	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:35802622G>A	uc003anu.3	+	5	594	c.500G>A	c.(499-501)CGC>CAC	p.R167H	MCM5_uc010gwr.2_5'UTR|MCM5_uc003anv.3_Missense_Mutation_p.R124H|MCM5_uc010gws.1_5'Flank	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	167					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						AAGGCCACCCGCATCTCTATC	0.607													3	10					0	0	0.009096	0	0		A	35802622	A	A	35802622	3	1	4	1	0	0	0	0	1	0	0	0	9408	1087	38	1	514	1	MCM5	22	35802622	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	3152423	35802622	15501944	4303	6269											
RASD2	23551	broad.mit.edu	37	chr22	35947713	35947713	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaacaagaacgaccacggCgagctgtgccgccaggtgcc	10	3	14	14	4	0	1	0	0	0	1	0	3	0	1	4	3	5	2	4	3	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:35947713C>T	uc003anx.2	+	3	640	c.435C>T	c.(433-435)GGC>GGT	p.G145G	RASD2_uc003any.2_Silent_p.G145G	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	145					locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3						ACGACCACGGCGAGCTGTGCC	0.617													7	18					0	0	0.00308	0	0		T	35947713	T	T	35947713	2	4	4	1	0	0	0	0	0	0	0	1	13092	755	27	1		1	RASD2	22	35947713	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	145091	35947713	15356853	4304	6270											
APOL6	80830	broad.mit.edu	37	chr22	36055294	36055294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcgggaacaacactggCgatgaccaaaaatgctcgcg	12	7	11	11	4	0	1	0	1	0	0	1	3	0	2	1	2	4	1	1	2	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:36055294C>T	uc003aoe.2	+	3	977	c.683C>T	c.(682-684)GCG>GTG	p.A228V	APOL6_uc003aod.2_RNA	NM_030641	NP_085144	Q9BWW8	APOL6_HUMAN	apolipoprotein L6	228					lipoprotein metabolic process	cytoplasm|extracellular region	lipid binding|lipid transporter activity				0						ACAACACTGGCGATGACCAAA	0.572													6	77					0	0	0.001984	0	0		T	36055294	T	T	36055294	3	4	4	1	0	0	0	0	1	0	0	0	810	768	27	1	689	1	APOL6	22	36055294	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	107581	36055294	15249272	4305	6271											
TMPRSS6	164656	broad.mit.edu	37	chr22	37462911	37462911	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtagccggcacacagcatGcgtggcgtcacctggtagcg	7	6	15	13	5	1	0	1	0	0	0	1	0	1	0	2	4	4	4	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:37462911G>A	uc003aqs.1	-	17	2346	c.2232C>T	c.(2230-2232)CGC>CGT	p.R744R	TMPRSS6_uc003aqt.1_Silent_p.R757R	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	744	Peptidase S1.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						CACACAGCATGCGTGGCGTCA	0.612													5	15					0	0	0.001168	0	0		A	37462911	A	A	37462911	2	1	4	1	0	0	0	0	0	0	0	1	16276	1306	46	2		2	TMPRSS6	22	37462911	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1407617	37462911	13841655	4306	6272											
TMPRSS6	164656	broad.mit.edu	37	chr22	37471264	37471264	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgatggtgatcccggccGtggccaccacggggatcctc	6	8	14	13	3	0	2	0	2	0	0	3	3	2	3	5	5	0	1	5	5	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:37471264G>T	uc003aqs.1	-	11	1394	c.1280C>A	c.(1279-1281)ACG>AAG	p.T427K	TMPRSS6_uc003aqt.1_Missense_Mutation_p.T418K	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	427	CUB 2.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						GATCCCGGCCGTGGCCACCAC	0.647													12	27					0.00136819	0.00142269	0.001368	1	0		T	37471264	T	T	37471264	3	4	4	1	0	0	0	0	1	0	0	0	16276	1145	40	5	1187	5	TMPRSS6	22	37471264	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	8353	37471264	13833302	4307	6273											
SSTR3	6753	broad.mit.edu	37	chr22	37603530	37603530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggccagtaggacagggCgttctgggcggccaggaagg	9	4	20	8	2	1	0	0	0	1	0	1	3	1	2	2	7	0	2	2	7	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:37603530C>T	uc003ara.2	-	2	375	c.313G>A	c.(313-315)GCC>ACC	p.A105T	SSTR3_uc003arb.2_Missense_Mutation_p.A105T	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	105	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						TAGGACAGGGCGTTCTGGGCG	0.622													10	31					0	0	0.001855	0	0		T	37603530	T	T	37603530	3	4	4	1	0	0	0	0	1	0	0	0	15224	768	27	1	947	1	SSTR3	22	37603530	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	132266	37603530	13701036	4308	6274											
TRIOBP	11078	broad.mit.edu	37	chr22	38119860	38119860	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaccccagaacatcctgcGcccagcgggacaatcccaga	13	3	8	17	2	0	2	0	0	0	2	2	3	2	3	5	1	4	0	5	1	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:38119860G>A	uc003atr.2	+	7	1568	c.1297G>A	c.(1297-1299)GCC>ACC	p.A433T	TRIOBP_uc003atu.2_Missense_Mutation_p.A261T|TRIOBP_uc003atq.1_Missense_Mutation_p.A433T|TRIOBP_uc003ats.1_Missense_Mutation_p.A261T	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	433					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					AACATCCTGCGCCCAGCGGGA	0.582													27	77					0	0	0.008361	0	0		A	38119860	A	A	38119860	3	1	4	1	0	0	0	0	1	0	0	0	16579	1087	38	1	1315	1	TRIOBP	22	38119860	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	516330	38119860	13184706	4309	6275											
DMC1	11144	broad.mit.edu	37	chr22	38934370	38934370	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgttcggccaactccccacgGccactgaaatccactcgaaa	11	6	7	17	4	0	1	0	1	0	0	4	2	2	1	5	2	1	1	5	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:38934370G>A	uc003avz.1	-	11	880	c.705C>T	c.(703-705)GGC>GGT	p.G235G	DMC1_uc011anv.1_Silent_p.G180G	NM_007068	NP_008999	Q14565	DMC1_HUMAN	DMC1 dosage suppressor of mck1 homolog	235					reciprocal meiotic recombination	condensed nuclear chromosome	ATP binding|DNA binding|DNA-dependent ATPase activity|protein binding			ovary(1)	1	Melanoma(58;0.0286)					ACTCCCCACGGCCACTGAAAT	0.388								Homologous_recombination					12	38					0	0	0.00245	0	0		A	38934370	A	A	38934370	2	1	4	1	0	0	0	0	0	0	0	1	4585	1190	42	2		2	DMC1	22	38934370	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	814510	38934370	12370196	4310	6276											
SUN2	25777	broad.mit.edu	37	chr22	39148607	39148607	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcaccctgggagtagcgCgtgaggcgctggcttcttcg	4	10	15	12	5	2	1	1	1	1	0	4	2	2	2	1	3	1	3	1	3	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:39148607C>T	uc003awh.1	-	3	311	c.27G>A	c.(25-27)ACG>ACA	p.T9T	SUN2_uc011anz.1_Silent_p.T44T|SUN2_uc011aoa.1_Silent_p.T44T|SUN2_uc003awi.1_Silent_p.T9T|SUN2_uc010gxq.1_Silent_p.T9T|SUN2_uc010gxr.1_Silent_p.T9T|SUN2_uc010gxs.1_Silent_p.T9T	NM_015374	NP_056189	Q9UH99	SUN2_HUMAN	unc-84 homolog B	9	Nuclear.|Ser-rich.|LMNA-binding (By similarity).				centrosome localization|cytoskeletal anchoring at nuclear membrane|mitotic spindle organization|nuclear envelope organization|nuclear matrix anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	endosome membrane|integral to membrane|nuclear inner membrane|SUN-KASH complex	lamin binding|microtubule binding			large_intestine(1)|skin(1)	2						GGGAGTAGCGCGTGAGGCGCT	0.592													6	12					0	0	0.00308	0	0		T	39148607	T	T	39148607	2	4	4	1	0	0	0	0	0	0	0	1	15417	755	27	1		1	SUN2	22	39148607	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	214237	39148607	12155959	4311	6277											
APOBEC3D	140564	broad.mit.edu	37	chr22	39418941	39418941	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagtgaaaataaagaggggCcgctcaaatctcctttggga	14	8	12	7	1	2	2	1	1	1	1	3	4	2	3	2	3	0	1	2	3	6	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:39418941C>T	uc011aoe.1	+	2	186	c.132C>T	c.(130-132)GGC>GGT	p.G44G	APOBEC3D_uc011aod.1_Silent_p.G44G|APOBEC3D_uc011aof.1_Silent_p.G44G|APOBEC3D_uc003awu.3_Silent_p.G44G|APOBEC3D_uc003awt.3_Silent_p.G44G|APOBEC3D_uc010gxu.2_5'UTR	NM_152426	NP_689639	Q96AK3	ABC3D_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	44					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0	Melanoma(58;0.04)					TAAAGAGGGGCCGCTCAAATC	0.502													10	54					0	0	0.007413	0	0		T	39418941	T	T	39418941	2	4	4	1	0	0	0	0	0	0	0	1	792	726	26	2		2	APOBEC3D	22	39418941	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	270334	39418941	11885625	4312	6278											
APOBEC3G	60489	broad.mit.edu	37	chr22	39482482	39482482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcctgtgcatcttcactGcccgcatctatgatgatcaa	9	12	8	12	1	4	3	2	3	2	0	4	3	4	3	2	0	3	2	2	0	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:39482482G>A	uc003awx.2	+	6	1276	c.934G>A	c.(934-936)GCC>ACC	p.A312T	APOBEC3G_uc003awy.2_Missense_Mutation_p.A245T	NM_021822	NP_068594	Q9HC16	ABC3G_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	312					base conversion or substitution editing|DNA cytosine deamination|innate immune response|interspecies interaction between organisms|negative regulation of retroviral genome replication|negative regulation of transposition|positive regulation of defense response to virus by host|response to virus|viral reproduction	apolipoprotein B mRNA editing enzyme complex|cytosol|mitochondrion	cytidine deaminase activity|dCTP deaminase activity|protein homodimerization activity|RNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2	Melanoma(58;0.04)					CATCTTCACTGCCCGCATCTA	0.512													26	70					0	0	0.007291	0	0		A	39482482	A	A	39482482	3	1	4	1	0	0	0	0	1	0	0	0	794	1319	46	2	956	2	APOBEC3G	22	39482482	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	63541	39482482	11822084	4313	6279											
TAB1	10454	broad.mit.edu	37	chr22	39811575	39811575	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accgagtgaccaacttcgtgGcccagcggctgtccgcagag	8	6	13	14	4	0	2	0	1	0	1	2	3	1	2	4	2	2	2	4	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:39811575G>T	uc003axt.2	+	3	290	c.241G>T	c.(241-243)GCC>TCC	p.A81S	TAB1_uc003axr.2_Missense_Mutation_p.A157S|TAB1_uc011aok.1_5'UTR|TAB1_uc003axu.1_Missense_Mutation_p.A81S	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	81	PP2C-like.				activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1						CAACTTCGTGGCCCAGCGGCT	0.637													17	35					1.33834e-09	1.43568e-09	0.007413	1	0		T	39811575	T	T	39811575	3	4	4	1	0	0	0	0	1	0	0	0	15520	1203	42	5	251	5	TAB1	22	39811575	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	329093	39811575	11492991	4314	6280											
MGAT3	4248	broad.mit.edu	37	chr22	39883366	39883366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcaggatgaagatgagacGctacaagctctttctcatgt	11	10	10	10	2	2	3	1	2	2	2	3	5	2	4	1	1	2	3	1	1	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:39883366G>A	uc003axv.3	+	2	253	c.14G>A	c.(13-15)CGC>CAC	p.R5H	MGAT3_uc010gxy.2_Missense_Mutation_p.R5H	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	5	Cytoplasmic (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					AAGATGAGACGCTACAAGCTC	0.567													9	100					0	0	0.004482	0	0		A	39883366	A	A	39883366	3	1	4	1	0	0	0	0	1	0	0	0	9562	1087	38	1	16	1	MGAT3	22	39883366	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	71791	39883366	11421200	4315	6281											
CACNA1I	8911	broad.mit.edu	37	chr22	40056386	40056386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactcggacgaggaccagaGctcatccaacatagaagagt	14	6	10	11	2	1	3	1	0	0	3	3	6	2	5	2	2	3	1	2	2	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:40056386G>A	uc003ayc.2	+	15	2642	c.2642G>A	c.(2641-2643)AGC>AAC	p.S881N	CACNA1I_uc003ayd.2_Missense_Mutation_p.S846N|CACNA1I_uc003aye.2_Missense_Mutation_p.S796N|CACNA1I_uc003ayf.2_Missense_Mutation_p.S761N	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	881	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	GAGGACCAGAGCTCATCCAAC	0.577													16	29					0	0	0.006122	0	0		A	40056386	A	A	40056386	3	1	4	1	0	0	0	0	1	0	0	0	2549	971	34	2	2700	2	CACNA1I	22	40056386	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	173020	40056386	11248180	4316	6282											
GRAP2	9402	broad.mit.edu	37	chr22	40365422	40365422	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatgtttctaggaacgccGaggaggcagccttgacataa	11	10	12	8	2	1	1	0	1	1	0	1	4	1	3	2	3	2	3	2	3	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:40365422G>T	uc003ayh.1	+	7	961	c.698G>T	c.(697-699)CGA>CTA	p.R233L	GRAP2_uc003ayi.2_RNA|GRAP2_uc011aom.1_Missense_Mutation_p.R207L|GRAP2_uc011aon.1_Missense_Mutation_p.R167L|GRAP2_uc010gya.1_Missense_Mutation_p.R233L|GRAP2_uc011aoo.1_Missense_Mutation_p.R161L|GRAP2_uc011aop.1_Missense_Mutation_p.R193L|GRAP2_uc011aoq.1_Missense_Mutation_p.R120L|GRAP2_uc003ayj.1_Missense_Mutation_p.R233L	NM_004810	NP_004801	O75791	GRAP2_HUMAN	GRB2-related adaptor protein 2	233					cell-cell signaling|Ras protein signal transduction|T cell costimulation|T cell receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						TAGGAACGCCGAGGAGGCAGC	0.572													9	79					3.86212e-05	4.06125e-05	0.008291	1	0		T	40365422	T	T	40365422	3	4	4	1	0	0	0	0	1	0	0	0	6770	1058	37	5	720	5	GRAP2	22	40365422	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	309036	40365422	10939144	4317	6283											
TNRC6B	23112	broad.mit.edu	37	chr22	40681651	40681651	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttttctgtttacagggCggtagtcatggtttgtttgg	4	18	13	6	1	2	0	1	0	1	0	2	0	2	0	0	4	2	5	0	4	2	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:40681651C>T	uc011aor.1	+	12	3796	c.3585C>T	c.(3583-3585)GGC>GGT	p.G1195G	TNRC6B_uc003aym.2_Silent_p.G391G|TNRC6B_uc003ayn.3_Silent_p.G1085G|TNRC6B_uc003ayo.2_Silent_p.G942G	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1195	Gln-rich.				gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						GTTTACAGGGCGGTAGTCATG	0.463													7	80					0	0	0.001984	0	0		T	40681651	T	T	40681651	2	4	4	1	0	0	0	0	0	0	0	1	16366	755	27	1		1	TNRC6B	22	40681651	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	316229	40681651	10622915	4318	6284											
TNRC6B	23112	broad.mit.edu	37	chr22	40717102	40717102	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attactccttagattgatggGtcaaccttgagaacgatctg	11	13	9	8	1	2	3	1	2	1	2	3	5	3	3	2	1	3	0	2	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:40717102G>A	uc011aor.1	+	22	5194	c.4983G>A	c.(4981-4983)GGG>GGA	p.G1661G	TNRC6B_uc003aym.2_Silent_p.G857G|TNRC6B_uc003ayn.3_Silent_p.G1551G|TNRC6B_uc003ayo.2_Silent_p.G1408G	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1661	RRM.				gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						AGATTGATGGGTCAACCTTGA	0.473													5	67					0	0	0.000602	0	0		A	40717102	A	A	40717102	2	1	4	1	0	0	0	0	0	0	0	1	16366	1248	44	4		4	TNRC6B	22	40717102	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	35451	40717102	10587464	4319	6285											
DNAJB7	150353	broad.mit.edu	37	chr22	41257568	41257568	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatttctcaaaaattggaTattcactggcagtggagaaa	17	11	8	5	0	2	1	2	0	1	1	3	3	2	2	0	3	0	1	0	3	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:41257568T>A	uc003azj.2	-	1	563	c.431A>T	c.(430-432)TAT>TTT	p.Y144F	XPNPEP3_uc011aox.1_Intron|XPNPEP3_uc003azh.2_Intron|XPNPEP3_uc003azi.2_Intron|XPNPEP3_uc011aoy.1_5'Flank|XPNPEP3_uc003azg.1_Intron|XPNPEP3_uc003azf.1_Intron|XPNPEP3_uc010gyh.1_5'Flank	NM_145174	NP_660157	Q7Z6W7	DNJB7_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 7	144					protein folding		heat shock protein binding|unfolded protein binding			ovary(1)	1						AAAAATTGGATATTCACTGGC	0.408													6	107					0	0	0.001168	0	0		A	41257568	A	A	41257568	3	1	4	1	0	0	0	0	1	0	0	0	4631	1406	49	5	502	5	DNAJB7	22	41257568	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	540466	41257568	10046998	4320	6286											
EP300	2033	broad.mit.edu	37	chr22	41489028	41489028	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggccgagaatgtggtggAaccggggccgccttcagcca	9	6	15	11	3	1	1	1	0	0	1	1	3	1	2	5	5	2	0	5	5	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:41489028A>G	uc003azl.3	+	1	415	c.20A>G	c.(19-21)GAA>GGA	p.E7G		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	7	Interaction with ALX1.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						AATGTGGTGGAACCGGGGCCG	0.607			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				6	67					0	0	0.001168	0	0		G	41489028	G	G	41489028	3	3	4	1	0	0	0	0	1	0	0	0	5156	246	9	3	22	3	EP300	22	41489028	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	231460	41489028	9815538	4321	6287											
EP300	2033	broad.mit.edu	37	chr22	41574331	41574331	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggaataggccctggaatgGccaaccataaccagttccag	13	6	10	12	0	0	0	0	0	0	0	1	2	1	2	5	4	2	1	5	4	5	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:41574331G>T	uc003azl.3	+	31	7011	c.6616G>T	c.(6616-6618)GCC>TCC	p.A2206S		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	2206	Interaction with HTLV-1 Tax.|Interaction with NCOA2.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CCCTGGAATGGCCAACCATAA	0.527			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				10	30					1.76689e-08	1.88842e-08	0.006214	1	0		T	41574331	T	T	41574331	3	4	4	1	0	0	0	0	1	0	0	0	5156	1203	42	5	6738	5	EP300	22	41574331	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	85303	41574331	9730235	4322	6288											
RANGAP1	5905	broad.mit.edu	37	chr22	41648913	41648913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagctcttgggccctaggCgcagcagcttctctggagag	6	8	15	12	2	2	1	0	0	2	1	3	3	2	2	1	4	3	4	1	4	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:41648913C>T	uc003azs.2	-	11	2813	c.1343G>A	c.(1342-1344)CGC>CAC	p.R448H	RANGAP1_uc003azt.2_Missense_Mutation_p.R448H|RANGAP1_uc003azu.2_Missense_Mutation_p.R448H|RANGAP1_uc003azr.2_5'UTR|RANGAP1_uc010gyk.2_5'UTR|RANGAP1_uc011aoz.1_Missense_Mutation_p.R393H	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	448					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						GGGCCCTAGGCGCAGCAGCTT	0.607													8	17					0	0	0.004482	0	0		T	41648913	T	T	41648913	3	4	4	1	0	0	0	0	1	0	0	0	13058	768	27	1	440	1	RANGAP1	22	41648913	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	74582	41648913	9655653	4323	6289											
RANGAP1	5905	broad.mit.edu	37	chr22	41676993	41676993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaaactcagctgtcccccgGccacctgagtcttggcaagt	8	9	10	14	1	2	2	1	2	1	0	3	2	3	2	4	2	2	2	4	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:41676993G>A	uc003azs.2	-	1	1526	c.56C>T	c.(55-57)GCC>GTC	p.A19V	RANGAP1_uc003azt.2_Missense_Mutation_p.A19V|RANGAP1_uc003azu.2_Missense_Mutation_p.A19V|RANGAP1_uc011aoz.1_5'Flank	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	19					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						CTGTCCCCCGGCCACCTGAGT	0.557													18	36					0	0	0.00499	0	0		A	41676993	A	A	41676993	3	1	4	1	0	0	0	0	1	0	0	0	13058	1203	42	2	1767	2	RANGAP1	22	41676993	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	28080	41676993	9627573	4324	6290											
PHF5A	84844	broad.mit.edu	37	chr22	41863526	41863526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccacagatcacacagcGcccctggtaagatccatagt	11	8	7	15	1	1	2	1	0	0	2	4	2	4	2	5	1	1	1	5	1	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:41863526G>A	uc003bab.2	-	3	220	c.169C>T	c.(169-171)CGC>TGC	p.R57C	ACO2_uc003bac.2_5'Flank|ACO2_uc003bad.2_5'Flank	NM_032758	NP_116147	Q7RTV0	PHF5A_HUMAN	PHD-finger 5A	57					nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent	nuclear speck|U12-type spliceosomal complex|U2 snRNP	DNA binding|sequence-specific DNA binding transcription factor activity				0						ATCACACAGCGCCCCTGGTAA	0.507													9	51					0	0	0.006214	0	0		A	41863526	A	A	41863526	3	1	4	1	0	0	0	0	1	0	0	0	11856	1087	38	1	171	1	PHF5A	22	41863526	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	186533	41863526	9441040	4325	6291											
TCF20	6942	broad.mit.edu	37	chr22	42609903	42609903	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaagtaacatgtgctggAcagtgttaggaagattggcc	13	9	13	6	0	0	2	0	0	0	2	0	4	0	4	1	3	2	3	1	3	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:42609903A>G	uc003bcj.1	-	1	1543	c.1409T>C	c.(1408-1410)GTC>GCC	p.V470A	TCF20_uc003bck.1_Missense_Mutation_p.V470A|TCF20_uc003bnt.2_Missense_Mutation_p.V470A	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	470					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						CATGTGCTGGACAGTGTTAGG	0.488													29	98					0	0	0.00632	0	0		G	42609903	G	G	42609903	3	3	4	1	0	0	0	0	1	0	0	0	15715	275	10	3	4511	3	TCF20	22	42609903	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	746377	42609903	8694663	4326	6292											
TCF20	6942	broad.mit.edu	37	chr22	42610103	42610103	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtttctggaacccataggCacactgccttgcccacactg	8	10	8	15	0	1	0	0	0	1	0	1	1	1	1	3	2	3	2	3	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:42610103C>T	uc003bcj.1	-	1	1343	c.1209G>A	c.(1207-1209)GTG>GTA	p.V403V	TCF20_uc003bck.1_Silent_p.V403V|TCF20_uc003bnt.2_Silent_p.V403V	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	403					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						AACCCATAGGCACACTGCCTT	0.502													22	74					0	0	0.00333	0	0		T	42610103	T	T	42610103	2	4	4	1	0	0	0	0	0	0	0	1	15715	697	25	2		2	TCF20	22	42610103	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	200	42610103	8694463	4327	6293											
PACSIN2	11252	broad.mit.edu	37	chr22	43267373	43267373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgactcatcactggatcGcctccacataatttgccggg	8	9	8	16	3	2	0	2	0	0	0	4	2	3	1	5	2	1	0	5	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:43267373G>A	uc010gzg.2	-	11	1673	c.1451C>T	c.(1450-1452)GCG>GTG	p.A484V	PACSIN2_uc003bdg.3_Missense_Mutation_p.A484V|PACSIN2_uc003bde.3_Missense_Mutation_p.A484V|PACSIN2_uc003bdf.3_Missense_Mutation_p.A443V	NM_007229	NP_009160	Q9UNF0	PACN2_HUMAN	protein kinase C and casein kinase substrate in	484	SH3.				actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)				TCACTGGATCGCCTCCACATA	0.627													6	27					0	0	0.00308	0	0		A	43267373	A	A	43267373	3	1	4	1	0	0	0	0	1	0	0	0	11394	1087	38	1	13	1	PACSIN2	22	43267373	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	657270	43267373	8037193	4328	6294											
TTLL1	25809	broad.mit.edu	37	chr22	43442572	43442572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggacgtgagagacggggacGcattcacctgtgagatgaaa	12	7	15	7	3	1	4	1	3	0	2	1	8	1	6	1	3	0	1	1	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:43442572G>A	uc003bdi.2	-	10	1227	c.986C>T	c.(985-987)GCG>GTG	p.A329V	TTLL1_uc010gzh.2_Missense_Mutation_p.A300V|TTLL1_uc003bdj.2_Missense_Mutation_p.A215V|TTLL1_uc003bdh.2_Missense_Mutation_p.A291V	NM_012263	NP_036395	O95922	TTLL1_HUMAN	tubulin tyrosine ligase-like family, member 1	329	TTL.				protein polyglutamylation	cytoplasm|microtubule	ATP binding|tubulin-glutamic acid ligase activity|tubulin-tyrosine ligase activity			skin(1)	1		Ovarian(80;0.0694)		BRCA - Breast invasive adenocarcinoma(115;0.00461)		AGACGGGGACGCATTCACCTG	0.507													5	83					0	0	0.000602	0	0		A	43442572	A	A	43442572	3	1	4	1	0	0	0	0	1	0	0	0	16748	1087	38	1	293	1	TTLL1	22	43442572	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	175199	43442572	7861994	4329	6295											
SCUBE1	80274	broad.mit.edu	37	chr22	43634953	43634953	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcctccgttattgactgcGcacgtctctggggagggaaa	8	9	13	11	3	1	1	0	1	1	0	3	3	2	3	2	3	2	2	2	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:43634953G>A	uc003bdt.1	-	7	823	c.735C>T	c.(733-735)TGC>TGT	p.C245C	SCUBE1_uc003bdu.1_Silent_p.C275C	NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	245	EGF-like 5 (Potential).|EGF-like 6 (Potential).				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				TATTGACTGCGCACGTCTCTG	0.512													4	25					0	0	0.000602	0	0		A	43634953	A	A	43634953	2	1	4	1	0	0	0	0	0	0	0	1	13969	1079	38	1		1	SCUBE1	22	43634953	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	192381	43634953	7669613	4330	6296											
PARVB	29780	broad.mit.edu	37	chr22	44543773	44543773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacacgctgttcgaccacGccccggataagctcagcgtg	8	7	11	15	6	1	0	1	0	0	0	3	3	1	1	3	1	2	3	3	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:44543773G>A	uc003ben.2	+	9	797	c.745G>A	c.(745-747)GCC>ACC	p.A249T	PARVB_uc003bem.2_Missense_Mutation_p.A282T|PARVB_uc010gzn.2_Missense_Mutation_p.A197T|PARVB_uc003beo.2_Missense_Mutation_p.A212T	NM_013327	NP_037459	Q9HBI1	PARVB_HUMAN	parvin, beta isoform b	249					cell adhesion|cell junction assembly	cytoskeleton|cytosol|focal adhesion	actin binding				0		Ovarian(80;0.0246)|all_neural(38;0.0423)				GTTCGACCACGCCCCGGATAA	0.582													6	22					0	0	0.004482	0	0		A	44543773	A	A	44543773	3	1	4	1	0	0	0	0	1	0	0	0	11488	1087	38	1	998	1	PARVB	22	44543773	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	908820	44543773	6760793	4331	6297											
PHF21B	112885	broad.mit.edu	37	chr22	45279115	45279115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatcagtctcaggagggcccGcaggcggtccagggatgact	8	7	15	11	2	2	1	2	1	1	0	4	3	3	3	2	5	0	1	2	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:45279115G>A	uc003bfn.2	-	13	1598	c.1447C>T	c.(1447-1449)CGG>TGG	p.R483W	PHF21B_uc003bfm.2_Missense_Mutation_p.R279W|PHF21B_uc011aqk.1_Missense_Mutation_p.R429W|PHF21B_uc011aql.1_Missense_Mutation_p.R441W	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	PHD finger protein 21B isoform 1	483							zinc ion binding			ovary(2)|skin(1)	3		all_neural(38;0.00802)|Glioma(61;0.0353)|Ovarian(80;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0203)		AGGAGGGCCCGCAGGCGGTCC	0.652													6	20					0	0	0.006214	0	0		A	45279115	A	A	45279115	3	1	4	1	0	0	0	0	1	0	0	0	11853	1086	38	1	152	1	PHF21B	22	45279115	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	735342	45279115	6025451	4332	6298											
FAM118A	55007	broad.mit.edu	37	chr22	45726536	45726536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggcgtcctccacattcacgGcctctacacggacccctgcg	6	7	9	19	5	2	0	1	0	1	0	4	1	4	1	5	3	2	0	5	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:45726536G>A	uc003bfz.3	+	6	1191	c.575G>A	c.(574-576)GGC>GAC	p.G192D	FAM118A_uc003bga.3_Missense_Mutation_p.G192D|FAM118A_uc011aqr.1_Missense_Mutation_p.G10D	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	192						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		CACATTCACGGCCTCTACACG	0.527													12	37					0	0	0.00245	0	0		A	45726536	A	A	45726536	3	1	4	1	0	0	0	0	1	0	0	0	5422	1203	42	2	589	2	FAM118A	22	45726536	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	447421	45726536	5578030	4333	6299											
RIBC2	26150	broad.mit.edu	37	chr22	45813802	45813802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaagggaatggaagaacGcccgtgctgaacaaaaatgc	17	4	12	8	2	0	2	0	1	0	1	0	4	0	4	1	2	5	2	1	2	7	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:45813802G>A	uc011aqs.1	+	4	726	c.517G>A	c.(517-519)GCC>ACC	p.A173T		NM_015653	NP_056468	Q9H4K1	RIBC2_HUMAN	RIB43A domain with coiled-coils 2	105											0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		ATGGAAGAACGCCCGTGCTGA	0.413													12	33					0	0	0.003163	0	0		A	45813802	A	A	45813802	3	1	4	1	0	0	0	0	1	0	0	0	13378	1087	38	1	526	1	RIBC2	22	45813802	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	87266	45813802	5490764	4334	6300											
FBLN1	2192	broad.mit.edu	37	chr22	45938087	45938087	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgggaagggacatcgctgCgtgaactctcccggcagttt	7	10	14	10	3	1	1	0	1	1	0	3	3	1	3	1	3	2	3	1	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:45938087C>T	uc003bgj.1	+	10	1266	c.1119C>T	c.(1117-1119)TGC>TGT	p.C373C	FBLN1_uc003bgg.1_Silent_p.C373C|FBLN1_uc003bgh.2_Silent_p.C373C|FBLN1_uc010gzz.2_Silent_p.C411C|FBLN1_uc003bgi.1_Silent_p.C373C	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	373	EGF-like 5; calcium-binding.|Self-association and FN1-binding; calcium is necessary for homotypic binding, but not for heterotypic binding.				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GACATCGCTGCGTGAACTCTC	0.567													25	44					0	0	0.007291	0	0		T	45938087	T	T	45938087	2	4	4	1	0	0	0	0	0	0	0	1	5712	776	27	1		1	FBLN1	22	45938087	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	124285	45938087	5366479	4335	6301											
PKDREJ	10343	broad.mit.edu	37	chr22	46655302	46655302	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacttaaataccagctaggCgatcgaccctcgttgttgtg	9	12	9	11	3	0	0	0	0	0	0	2	2	0	0	2	1	3	3	2	1	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:46655302C>T	uc003bhh.2	-	1	3918	c.3918G>A	c.(3916-3918)TCG>TCA	p.S1306S		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1306	Cytoplasmic (Potential).|PLAT.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		ACCAGCTAGGCGATCGACCCT	0.458													34	76					0	0	0.003271	0	0		T	46655302	T	T	46655302	2	4	4	1	0	0	0	0	0	0	0	1	11989	755	27	1		1	PKDREJ	22	46655302	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	717215	46655302	4649264	4336	6302											
GTSE1	51512	broad.mit.edu	37	chr22	46712231	46712231	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactagaagtatcagacggCgagattcctgtctaaattcc	13	10	9	9	2	2	4	1	0	1	4	4	5	4	4	2	1	0	1	2	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:46712231C>T	uc011aqy.1	+	7	1566	c.1354C>T	c.(1354-1356)CGA>TGA	p.R452*	GTSE1_uc011aqz.1_Nonsense_Mutation_p.R299*|GTSE1_uc003bhl.1_Nonsense_Mutation_p.R77*|GTSE1_uc003bhm.1_Nonsense_Mutation_p.R77*	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	433					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		TATCAGACGGCGAGATTCCTG	0.418													14	176					0	0	0.00245	0	0		T	46712231	T	T	46712231	4	4	4	1	0	0	0	0	0	1	0	0	6901	760	27	1	1376	1	GTSE1	22	46712231	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	56929	46712231	4592335	4337	6303											
GRAMD4	23151	broad.mit.edu	37	chr22	47070572	47070572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgtgcgagaatggctggcGctgctgcctcatcaacaggg	8	8	15	10	2	2	1	2	0	0	1	2	2	2	1	1	3	4	3	1	3	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:47070572G>A	uc003bhx.2	+	15	1442	c.1403G>A	c.(1402-1404)CGC>CAC	p.R468H	GRAMD4_uc010had.2_Missense_Mutation_p.R407H|GRAMD4_uc003bhy.2_5'UTR	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	468	GRAM.				apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		AATGGCTGGCGCTGCTGCCTC	0.617													5	18					0	0	0.001168	0	0		A	47070572	A	A	47070572	3	1	4	1	0	0	0	0	1	0	0	0	6768	1087	38	1	1461	1	GRAMD4	22	47070572	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	358341	47070572	4233994	4338	6304											
GRAMD4	23151	broad.mit.edu	37	chr22	47070595	47070595	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcctcatcaacagggacCggaagatgcccacggactac	11	5	11	14	2	2	1	2	0	0	1	2	4	2	4	3	3	4	1	3	3	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:47070595C>T	uc003bhx.2	+	15	1465	c.1426C>T	c.(1426-1428)CGG>TGG	p.R476W	GRAMD4_uc010had.2_Missense_Mutation_p.R415W|GRAMD4_uc003bhy.2_5'UTR	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	476	GRAM.				apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		CAACAGGGACCGGAAGATGCC	0.627													8	33					0	0	0.006214	0	0		T	47070595	T	T	47070595	3	4	4	1	0	0	0	0	1	0	0	0	6768	643	23	1	1484	1	GRAMD4	22	47070595	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	23	47070595	4233971	4339	6305											
TBC1D22A	25771	broad.mit.edu	37	chr22	47290699	47290699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatccacatagacatccctcGcatgagccctgaagcgttga	11	8	9	13	2	0	4	0	3	0	1	3	5	2	4	3	0	2	2	3	0	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:47290699G>A	uc003bib.2	+	7	992	c.857G>A	c.(856-858)CGC>CAC	p.R286H	TBC1D22A_uc010haf.2_Missense_Mutation_p.R256H|TBC1D22A_uc003bic.2_Missense_Mutation_p.R227H|TBC1D22A_uc003bie.2_Missense_Mutation_p.R208H|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.R239H	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	286	Rab-GAP TBC.					intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		GACATCCCTCGCATGAGCCCT	0.502													8	82					0	0	0.008291	0	0		A	47290699	A	A	47290699	3	1	4	1	0	0	0	0	1	0	0	0	15636	1087	38	1	883	1	TBC1D22A	22	47290699	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	220104	47290699	4013867	4340	6306											
TBC1D22A	25771	broad.mit.edu	37	chr22	47569246	47569246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagtttgcttttgccgacGcccccaatcactacaagaaa	12	10	6	13	2	2	1	2	0	0	1	2	2	2	1	3	0	3	2	3	0	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:47569246G>A	uc003bib.2	+	13	1666	c.1531G>A	c.(1531-1533)GCC>ACC	p.A511T	TBC1D22A_uc010haf.2_Missense_Mutation_p.A481T|TBC1D22A_uc003bic.2_Missense_Mutation_p.A452T|TBC1D22A_uc003bie.2_Missense_Mutation_p.A433T|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.A464T	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	511						intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		TTTTGCCGACGCCCCCAATCA	0.647													14	51					0	0	0.001882	0	0		A	47569246	A	A	47569246	3	1	4	1	0	0	0	0	1	0	0	0	15636	1087	38	1	1581	1	TBC1D22A	22	47569246	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	278547	47569246	3735320	4341	6307											
FAM19A5	25817	broad.mit.edu	37	chr22	49103572	49103572	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtgacatgcttccgtgTctggagggggaaggctgcga	6	10	18	7	2	1	1	0	1	1	0	2	4	2	3	1	5	2	2	1	5	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:49103572T>C	uc003bim.3	+	3	423	c.306T>C	c.(304-306)TGT>TGC	p.C102C	FAM19A5_uc003bio.3_Silent_p.C95C	NM_001082967	NP_001076436	Q7Z5A7	F19A5_HUMAN	family with sequence similarity 19 (chemokine	102						extracellular region|integral to membrane				large_intestine(1)	1		all_cancers(38;2.95e-11)|all_epithelial(38;3.07e-10)|all_lung(38;2.89e-05)|Breast(42;0.000396)|Lung NSC(38;0.000471)|Ovarian(80;0.00934)|Lung SC(80;0.195)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0227)|BRCA - Breast invasive adenocarcinoma(115;0.119)		TGCTTCCGTGTCTGGAGGGGG	0.572													6	25					0	0	0.00308	0	0		C	49103572	C	C	49103572	2	2	4	1	0	0	0	0	0	0	0	1	5546	1673	58	3		3	FAM19A5	22	49103572	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1534326	49103572	2200994	4342	6308											
ZBED4	9889	broad.mit.edu	37	chr22	50277562	50277562	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagtgaggatgactatggCgcgctgttctcccagtacag	9	9	14	9	2	1	3	0	2	1	1	2	5	1	4	1	2	1	3	1	2	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:50277562C>T	uc003bix.2	+	2	722	c.252C>T	c.(250-252)GGC>GGT	p.G84G		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	84						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		ATGACTATGGCGCGCTGTTCT	0.622													18	44					0	0	0.001882	0	0		T	50277562	T	T	50277562	2	4	4	1	0	0	0	0	0	0	0	1	17545	755	27	1		1	ZBED4	22	50277562	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1173990	50277562	1027004	4343	6309											
TTLL8	164714	broad.mit.edu	37	chr22	50470406	50470406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacgctgccccacacggcGccacggccctggcgctgcag	6	4	13	18	5	0	1	0	1	0	0	0	1	0	1	4	3	2	3	4	3	0	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:50470406G>A	uc011ark.1	-	11	1416	c.1416C>T	c.(1414-1416)GGC>GGT	p.G472G		NM_001080447	NP_001073916			tubulin tyrosine ligase-like family, member 8											ovary(2)	2		all_cancers(38;3.44e-07)|all_epithelial(38;2.44e-06)|all_lung(38;0.00141)|Breast(42;0.00519)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		READ - Rectum adenocarcinoma(2;0.000882)|Colorectal(2;0.00311)|BRCA - Breast invasive adenocarcinoma(115;0.226)		CCCACACGGCGCCACGGCCCT	0.637													4	12					0	0	0.009096	0	0		A	50470406	A	A	50470406	2	1	4	1	0	0	0	0	0	0	0	1	16759	1074	38	1		1	TTLL8	22	50470406	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	192844	50470406	834160	4344	6310											
TRABD	80305	broad.mit.edu	37	chr22	50636522	50636522	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgagcccaggaagtgcgTcccctccgtggtcgtgggcg	5	6	16	14	5	0	0	0	0	0	0	3	2	2	1	5	3	3	0	5	3	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:50636522T>C	uc003bjq.1	+	9	949	c.863T>C	c.(862-864)GTC>GCC	p.V288A	TRABD_uc003bjr.1_Missense_Mutation_p.V172A|TRABD_uc003bjs.1_Missense_Mutation_p.V288A|TRABD_uc003bjt.1_Missense_Mutation_p.V288A|TRABD_uc003bju.1_Missense_Mutation_p.V288A|TRABD_uc003bjv.2_Missense_Mutation_p.V288A|TRABD_uc003bjw.1_Missense_Mutation_p.V288A|SELO_uc011arr.1_5'Flank	NM_025204	NP_079480	Q9H4I3	TRABD_HUMAN	TraB domain containing	288											0		all_cancers(38;1.07e-07)|all_epithelial(38;9.6e-07)|all_lung(38;0.00141)|Breast(42;0.00387)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		LUAD - Lung adenocarcinoma(64;0.105)		AGGAAGTGCGTCCCCTCCGTG	0.667													5	6					0	0	0.001168	0	0		C	50636522	C	C	50636522	3	2	4	1	0	0	0	0	1	0	0	0	16461	1667	58	3	893	3	TRABD	22	50636522	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	166116	50636522	668044	4345	6311											
SELO	83642	broad.mit.edu	37	chr22	50647109	50647109	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccaggctgctcatgccagCgacagcgtgcagagaaatgc	11	6	12	12	2	1	1	1	0	0	1	2	3	2	1	2	1	6	3	2	1	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:50647109C>T	uc011arr.1	+	3	961	c.903C>T	c.(901-903)AGC>AGT	p.S301S	SELO_uc010hap.2_Silent_p.S112S|SELO_uc003bjy.2_5'UTR|SELO_uc003bjz.2_5'Flank	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O	301											0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		CTCATGCCAGCGACAGCGTGC	0.632													16	33					0	0	0.008871	0	0		T	50647109	T	T	50647109	2	4	4	1	0	0	0	0	0	0	0	1	14043	767	27	1		1	SELO	22	50647109	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	10587	50647109	657457	4346	6312											
PLXNB2	23654	broad.mit.edu	37	chr22	50728515	50728515	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttgcccacaaacagcaCgcggtcaccaccaggacccg	10	4	9	18	3	1	0	1	0	0	0	1	1	1	1	5	2	3	1	5	2	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:50728515C>T	uc003bkv.3	-	3	605	c.499G>A	c.(499-501)GTG>ATG	p.V167M		NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	167	Extracellular (Potential).|Sema.				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		ACAAACAGCACGCGGTCACCA	0.622													11	24					0	0	0.000978	0	0		T	50728515	T	T	50728515	3	4	4	1	0	0	0	0	1	0	0	0	12143	536	19	1	5157	1	PLXNB2	22	50728515	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	81406	50728515	576051	4347	6313											
CSF2RA	1438	broad.mit.edu	37	chrX	1422885	1422885	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtgggaacccttgtctgtgGcatcgtcctcggcttcctct	3	13	11	14	3	2	0	0	0	2	0	6	1	4	1	3	3	1	2	3	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:1422885G>A	uc010nct.2	+	12	1338	c.1016G>A	c.(1015-1017)GGC>GAC	p.G339D	CSF2RA_uc011mhb.1_Missense_Mutation_p.G339D|CSF2RA_uc004cpq.2_Intron|CSF2RA_uc004cpn.2_Missense_Mutation_p.G339D|CSF2RA_uc004cpo.2_Missense_Mutation_p.G339D|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Missense_Mutation_p.G206D|CSF2RA_uc004cpp.2_Intron|CSF2RA_uc010ncv.2_Missense_Mutation_p.G373D|CSF2RA_uc004cpr.2_Intron	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	339	Helical; (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CTTGTCTGTGGCATCGTCCTC	0.547													11	150					0	0	0.001368	0	0		A	1422885	A	A	1422885	3	1	4	1	0	0	0	0	1	0	0	0	3937	1203	42	2	1156	2	CSF2RA	23	1422885	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08		1422885	153847675	4348	6314											
IL3RA	3563	broad.mit.edu	37	chrX	1471219	1471219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccgcttaccgcagcaggCgtcaacagtacgagtgtctt	9	10	10	12	4	2	0	1	0	1	0	2	1	2	0	2	1	5	4	2	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:1471219C>T	uc004cps.2	+	6	785	c.436C>T	c.(436-438)CGT>TGT	p.R146C	IL3RA_uc011mhd.1_Missense_Mutation_p.R68C	NM_002183	NP_002174	P26951	IL3RA_HUMAN	interleukin 3 receptor, alpha precursor	146	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-3 receptor activity			skin(2)|lung(1)	3		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CCGCAGCAGGCGTCAACAGTA	0.597													54	73					0	0	0.00361	0	0		T	1471219	T	T	1471219	3	4	4	1	0	0	0	0	1	0	0	0	7711	768	27	1	454	1	IL3RA	23	1471219	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	48334	1471219	153799341	4349	6315											
SLC25A6	293	broad.mit.edu	37	chrX	1505554	1505554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggcgccccccatgccccGcaggacgttggaccacgcac	8	3	12	18	4	0	0	0	0	0	0	0	3	0	2	6	3	1	3	6	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:1505554G>A	uc004cpt.2	-	4	934	c.838C>T	c.(838-840)CGG>TGG	p.R280W	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	280	Helical; Name=6; (By similarity).|Solcar 3.				active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	CCCATGCCCCGCAGGACGTTG	0.607													18	42					0	0	0.002299	0	0		A	1505554	A	A	1505554	3	1	4	1	0	0	0	0	1	0	0	0	14538	1086	38	1	62	1	SLC25A6	23	1505554	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	34335	1505554	153765006	4350	6316											
SFRS17A	8227	broad.mit.edu	37	chrX	1712430	1712430	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttacggcttgtacctgaaGcccatcaccaagatgaccat	11	9	8	13	1	1	3	1	2	0	1	1	3	1	3	4	1	3	3	4	1	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:1712430G>A	uc004cqa.2	+	2	271	c.75G>A	c.(73-75)AAG>AAA	p.K25K	SFRS17A_uc010ncx.1_Silent_p.K25K|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'Flank	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	25					B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TGTACCTGAAGCCCATCACCA	0.617													16	24					0	0	0.003163	0	0		A	1712430	A	A	1712430	2	1	4	1	0	0	0	0	0	0	0	1	14198	962	34	2		2	SFRS17A	23	1712430	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	206876	1712430	153558130	4351	6317											
ZBED1	9189	broad.mit.edu	37	chrX	2408097	2408097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggacaggcagttgggggCgcccaggcccaggaagtggg	8	4	19	10	1	0	0	0	0	0	0	0	2	0	2	2	7	0	2	2	7	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:2408097C>T	uc004cqg.2	-	2	865	c.664G>A	c.(664-666)GCC>ACC	p.A222T	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Missense_Mutation_p.A222T	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	222						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CAGTTGGGGGCGCCCAGGCCC	0.647													11	18					0	0	0.000978	0	0		T	2408097	T	T	2408097	3	4	4	1	0	0	0	0	1	0	0	0	17543	768	27	1	1424	1	ZBED1	23	2408097	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	695667	2408097	152862463	4352	6318											
MXRA5	25878	broad.mit.edu	37	chrX	3240185	3240185	+	Frame_Shift_Del	DEL	A	-	-																															tgcttgagttggttgagtagAaaaagtctctgatggggcaa																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:3240185delA	uc004crg.3	-	5	3698	c.3541delT	c.(3541-3543)TCTfs	p.S1181fs		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1181						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GGTTGAGTAGAAAAAGTCTCT	0.488													33	25	---	---	---	---						.	-	3240185	-	-	3240185	7	5	4	1	0	1	0	1	0	0	0	0	10021	246	9	0	4957	0	MXRA5	23	3240185	Frame_Shift_Del	DEL	A	TCGA-BR-4184-01A-01D-1126-08	832088	3240185	152030375	4353	6319											
FAM9A	171482	broad.mit.edu	37	chrX	8763306	8763307	+	In_Frame_Ins	INS	-	CTG	CTG																															gtcttctactactattacttINSctgctgctgctgctgcggct																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:8763306_8763307insCTG	uc004csg.2	-	7	754_755	c.643_644insCAG	c.(643-645)GAA>GCAGAA	p.214_215insA		NM_174951	NP_777611	Q8IZU1	FAM9A_HUMAN	family with sequence similarity 9, member A	214_215	Glu-rich.					nucleolus					0		Hepatocellular(5;0.219)				TACTATTACTTctgctgctgct	0.074													2	4	---	---	---	---						.	CTG	8763307	CTG	CTG	8763306	7	5	4	1	0	1	1	0	0	0	0	0	5673	1783	62	0	366	0	FAM9A	23	8763306	In_Frame_Ins	INS	-	TCGA-BR-4184-01A-01D-1126-08	5523121	8763306	146507254	4354	6320											
TBL1X	6907	broad.mit.edu	37	chrX	9656277	9656277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccatcgaagaacagagaggCcacggtgaatggggaagaga	15	4	15	7	2	0	4	0	1	0	3	2	8	1	5	2	4	1	0	2	4	4	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:9656277C>T	uc010ndq.2	+	7	946	c.578C>T	c.(577-579)GCC>GTC	p.A193V	TBL1X_uc004csq.3_Missense_Mutation_p.A142V|TBL1X_uc010ndr.2_Missense_Mutation_p.A142V|TBL1X_uc004csr.2_Missense_Mutation_p.A193V|TBL1X_uc004css.2_Missense_Mutation_p.A144V	NM_001139466	NP_001132938	O60907	TBL1X_HUMAN	transducin beta-like 1X isoform a	193					canonical Wnt receptor signaling pathway|cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|sensory perception of sound|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein C-terminus binding|protein domain specific binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1		Hepatocellular(5;0.000888)				AACAGAGAGGCCACGGTGAAT	0.433													3	4					0	0	0.009096	0	0		T	9656277	T	T	9656277	3	4	4	1	0	0	0	0	1	0	0	0	15664	739	26	2	592	2	TBL1X	23	9656277	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	892971	9656277	145614283	4355	6321											
WWC3	55841	broad.mit.edu	37	chrX	10085205	10085205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtcctcggggagcagccGcgggtccctagcctccagcc	4	6	15	16	3	0	0	0	0	0	0	4	1	3	1	6	4	4	1	6	4	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:10085205G>A	uc004csx.3	+	11	1304	c.1106G>A	c.(1105-1107)CGC>CAC	p.R369H	WWC3_uc010nds.2_Missense_Mutation_p.R33H|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	369	Ser-rich.									ovary(4)	4						GGGAGCAGCCGCGGGTCCCTA	0.662													11	4					0	0	0.00245	0	0		A	10085205	A	A	10085205	3	1	4	1	0	0	0	0	1	0	0	0	17439	1087	38	1	1144	1	WWC3	23	10085205	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	428928	10085205	145185355	4356	6322											
WWC3	55841	broad.mit.edu	37	chrX	10092342	10092342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcctgcctacggagacacgGccagtaacggagatccccag	11	4	12	14	3	0	2	0	0	0	2	1	4	1	2	5	3	4	1	5	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:10092342G>A	uc004csx.3	+	13	1987	c.1789G>A	c.(1789-1791)GCC>ACC	p.A597T	WWC3_uc010nds.2_Missense_Mutation_p.A261T|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	597										ovary(4)	4						CGGAGACACGGCCAGTAACGG	0.597													8	32					0	0	0.004482	0	0		A	10092342	A	A	10092342	3	1	4	1	0	0	0	0	1	0	0	0	17439	1203	42	2	1835	2	WWC3	23	10092342	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	7137	10092342	145178218	4357	6323											
MID1	4281	broad.mit.edu	37	chrX	10535114	10535114	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attggctcaatcagacgatgGcctgtaaagggcttcttatt	10	13	10	8	1	3	1	2	0	1	1	3	2	3	1	1	3	0	3	1	3	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:10535114G>A	uc004cte.3	-	2	665	c.474C>T	c.(472-474)GGC>GGT	p.G158G	MID1_uc004ctd.3_5'Flank|MID1_uc004ctg.3_Silent_p.G158G|MID1_uc004cth.3_Silent_p.G158G|MID1_uc004ctk.3_Silent_p.G158G|MID1_uc004cti.3_Silent_p.G158G|MID1_uc004ctj.3_Silent_p.G158G|MID1_uc011mie.1_RNA|MID1_uc004ctm.1_Silent_p.G158G|MID1_uc004ctn.1_Silent_p.G158G|MID1_uc004cto.1_Silent_p.G158G|MID1_uc010ndw.1_5'Flank|MID1_uc004cts.1_5'Flank|MID1_uc004ctt.2_Silent_p.G158G|MID1_uc004ctu.2_Silent_p.G158G|MID1_uc004ctv.2_Silent_p.G158G|MID1_uc004ctw.2_Silent_p.G158G|MID1_uc010ndy.1_Silent_p.G158G|uc010ndz.1_5'Flank|MID1_uc004cty.2_Silent_p.G158G|MID1_uc004ctz.1_5'Flank|MID1_uc004cua.1_RNA|MID1_uc004cub.1_Silent_p.G158G|MID1_uc010nea.1_Intron|MID1_uc004cuc.1_Silent_p.G158G|MID1_uc004cud.1_Silent_p.G158G|MID1_uc004cue.1_Silent_p.G158G|MID1_uc004cuf.1_Silent_p.G158G|MID1_uc004cug.1_Silent_p.G158G	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1	158	B box-type 1.				microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3						TCAGACGATGGCCTGTAAAGG	0.522													21	18					0	0	0.001882	0	0		A	10535114	A	A	10535114	2	1	4	1	0	0	0	0	0	0	0	1	9594	1190	42	2		2	MID1	23	10535114	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	442772	10535114	144735446	4358	6324											
FRMPD4	9758	broad.mit.edu	37	chrX	12712493	12712493	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccataagatgagatgtcttTtccgaattagcttcgtccca	10	13	7	11	2	1	2	0	1	1	2	4	4	3	2	3	0	1	1	3	0	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:12712493T>C	uc004cuz.1	+	9	1359	c.853T>C	c.(853-855)TTC>CTC	p.F285L	FRMPD4_uc011mij.1_Missense_Mutation_p.F277L	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	285	FERM.				positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						GAGATGTCTTTTCCGAATTAG	0.438													14	22					0	0	0.001855	0	0		C	12712493	C	C	12712493	3	2	4	1	0	0	0	0	1	0	0	0	6073	1841	64	3	887	3	FRMPD4	23	12712493	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	2177379	12712493	142558067	4359	6325											
FRMPD4	9758	broad.mit.edu	37	chrX	12736508	12736508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaggctgatgagagtgtggCccgcctttgtgactaccact	7	11	13	10	1	0	4	0	4	0	1	0	5	0	4	3	2	1	1	3	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:12736508C>T	uc004cuz.1	+	16	4069	c.3563C>T	c.(3562-3564)GCC>GTC	p.A1188V	FRMPD4_uc011mij.1_Missense_Mutation_p.A1180V	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	1188					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						GAGAGTGTGGCCCGCCTTTGT	0.552													13	78					0	0	0.003163	0	0		T	12736508	T	T	12736508	3	4	4	1	0	0	0	0	1	0	0	0	6073	739	26	2	3625	2	FRMPD4	23	12736508	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	24015	12736508	142534052	4360	6326											
TLR7	51284	broad.mit.edu	37	chrX	12905875	12905875	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaagatgccttccagttgCgatatctggatctcagctca	10	12	8	11	1	3	1	2	0	2	1	5	3	4	2	2	1	4	2	2	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:12905875C>T	uc004cvc.2	+	3	2387	c.2248C>T	c.(2248-2250)CGA>TGA	p.R750*		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	750	Extracellular (Potential).|LRR 26.				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	CTTCCAGTTGCGATATCTGGA	0.383													27	27					0	0	0.004656	0	0		T	12905875	T	T	12905875	4	4	4	1	0	0	0	0	0	1	0	0	15981	760	27	1	2254	1	TLR7	23	12905875	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	169367	12905875	142364685	4361	6327											
OFD1	8481	broad.mit.edu	37	chrX	13786260	13786260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgagtaatcaagaaataaaaGacaaatctgctcacagtgaa	20	8	7	6	0	3	4	2	2	1	2	3	4	3	4	0	0	1	2	0	0	7	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:13786260G>A	uc004cvp.3	+	21	3204	c.2845G>A	c.(2845-2847)GAC>AAC	p.D949N	OFD1_uc004cvr.3_Missense_Mutation_p.D479N|OFD1_uc011mil.1_Missense_Mutation_p.D516N|OFD1_uc004cvq.3_Missense_Mutation_p.D772N|OFD1_uc010nen.2_Missense_Mutation_p.D947N|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Missense_Mutation_p.D908N|OFD1_uc004cvv.3_Missense_Mutation_p.D907N	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	949	Mediates the interaction with SDCCAG8.|Potential.				cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0						AGAAATAAAAGACAAATCTGC	0.358													18	15					0	0	0.008871	0	0		A	13786260	A	A	13786260	3	1	4	1	0	0	0	0	1	0	0	0	10857	942	33	4	2927	4	OFD1	23	13786260	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	880385	13786260	141484300	4362	6328											
CA5B	11238	broad.mit.edu	37	chrX	15790676	15790676	+	Frame_Shift_Del	DEL	G	-	-																															gaagcagttccattttcactGgggggccatcgatgcctggg																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:15790676delG	uc004cxe.2	+	4	515	c.398delG	c.(397-399)TGGfs	p.W133fs		NM_007220	NP_009151	Q9Y2D0	CAH5B_HUMAN	carbonic anhydrase VB, mitochondrial precursor	133					one-carbon metabolic process	mitochondrion	carbonate dehydratase activity|zinc ion binding				0	Hepatocellular(33;0.183)					CATTTTCACTGGGGGGCCATC	0.498													55	77	---	---	---	---						.	-	15790676	-	-	15790676	7	5	4	1	0	1	0	1	0	0	0	0	2523	1357	47	0	408	0	CA5B	23	15790676	Frame_Shift_Del	DEL	G	TCGA-BR-4184-01A-01D-1126-08	2004416	15790676	139479884	4363	6329											
TXLNG	55787	broad.mit.edu	37	chrX	16838287	16838287	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttttcttgttaaccatcagGaaaagaagttttattactga	13	16	6	6	0	2	2	1	1	1	1	2	3	2	3	1	1	2	2	1	1	6	7			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:16838287G>T	uc004cxq.1	+	3	458	c.407G>T	c.(406-408)GGA>GTA	p.G136V	TXLNG_uc010ney.1_Intron	NM_018360	NP_060830	Q9NUQ3	TXLNG_HUMAN	gamma-taxilin	136					cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1						TAACCATCAGGAAAAGAAGTT	0.388													6	133					5.9392e-07	6.31025e-07	0.001168	1	0		T	16838287	T	T	16838287	3	4	4	1	0	0	0	0	1	0	0	0	16815	1188	41	5	417	5	TXLNG	23	16838287	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1047611	16838287	138432273	4364	6330											
NHS	4810	broad.mit.edu	37	chrX	17746817	17746817	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcaccacttagtgaagactCccaagctgaagcagagggtg	12	8	11	10	0	1	4	1	2	0	2	2	4	2	4	2	1	2	2	2	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:17746817C>A	uc004cxx.2	+	7	4546	c.4208C>A	c.(4207-4209)TCC>TAC	p.S1403Y	NHS_uc011mix.1_Missense_Mutation_p.S1424Y|NHS_uc004cxy.2_Missense_Mutation_p.S1247Y|NHS_uc004cxz.2_Missense_Mutation_p.S1226Y|NHS_uc004cya.2_Missense_Mutation_p.S1126Y	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1403						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					AGTGAAGACTCCCAAGCTGAA	0.433													27	39					1.12875e-08	1.20787e-08	0.00632	1	0		A	17746817	A	A	17746817	3	1	4	1	0	0	0	0	1	0	0	0	10430	855	30	5	4339	5	NHS	23	17746817	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	908530	17746817	137523743	4365	6331											
SCML2	10389	broad.mit.edu	37	chrX	18278348	18278348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctttatataacatgccacGgtctctggtcagcgatttta	10	15	7	9	2	3	0	1	0	2	0	4	1	3	0	1	2	3	0	1	2	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:18278348G>A	uc004cyl.2	-	9	1169	c.1012C>T	c.(1012-1014)CGT>TGT	p.R338C	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_Missense_Mutation_p.R338C|SCML2_uc011miz.1_Missense_Mutation_p.R272C|SCML2_uc010nfc.2_Missense_Mutation_p.R74C	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	338					anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					AACATGCCACGGTCTCTGGTC	0.338													4	25					0	0	0.001168	0	0		A	18278348	A	A	18278348	3	1	4	1	0	0	0	0	1	0	0	0	13935	1116	39	1	1118	1	SCML2	23	18278348	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	531531	18278348	136992212	4366	6332											
CDKL5	6792	broad.mit.edu	37	chrX	18668576	18668576	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaagcctcacactccgtgCgtcccaaaccgagcccttca	11	6	7	17	3	2	1	2	0	0	1	4	2	4	1	5	0	4	0	5	0	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:18668576C>T	uc004cym.2	+	20	3097	c.2844C>T	c.(2842-2844)TGC>TGT	p.C948C	CDKL5_uc004cyn.2_Silent_p.C948C|RS1_uc004cyo.2_Intron	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	948					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					ACACTCCGTGCGTCCCAAACC	0.577													4	46					0	0	0.009096	0	0		T	18668576	T	T	18668576	2	4	4	1	0	0	0	0	0	0	0	1	3160	776	27	1		1	CDKL5	23	18668576	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	390228	18668576	136601984	4367	6333											
PPEF1	5475	broad.mit.edu	37	chrX	18824564	18824564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taattattatgaagaaggcaGcaatcgaggagcttacatca	16	10	9	6	1	1	2	1	1	0	1	2	4	1	3	0	2	3	3	0	2	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:18824564G>A	uc004cyq.2	+	15	1776	c.1295G>A	c.(1294-1296)AGC>AAC	p.S432N	PPEF1_uc004cyp.2_Missense_Mutation_p.S404N|PPEF1_uc004cyr.2_Missense_Mutation_p.S370N|PPEF1_uc004cys.2_Missense_Mutation_p.S432N|PPEF1_uc011mja.1_Missense_Mutation_p.S367N|PPEF1_uc011mjb.1_Missense_Mutation_p.S376N	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding	432	Catalytic.				detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)					GAAGAAGGCAGCAATCGAGGA	0.403													11	75					0	0	0.008291	0	0		A	18824564	A	A	18824564	3	1	4	1	0	0	0	0	1	0	0	0	12326	971	34	2	1341	2	PPEF1	23	18824564	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	155988	18824564	136445996	4368	6334											
PHKA2	5256	broad.mit.edu	37	chrX	18927018	18927018	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtccacgtcaccatggTcatctctgggccactgaaag	10	8	9	14	1	3	1	2	1	1	0	5	1	4	1	3	2	0	0	3	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:18927018T>C	uc004cyv.3	-	21	2691	c.2261A>G	c.(2260-2262)GAC>GGC	p.D754G	PHKA2_uc004cyu.3_Missense_Mutation_p.D52G	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	754					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					GTCACCATGGTCATCTCTGGG	0.463													10	138					0	0	0.001368	0	0		C	18927018	C	C	18927018	3	2	4	1	0	0	0	0	1	0	0	0	11863	1667	58	3	1498	3	PHKA2	23	18927018	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	102454	18927018	136343542	4369	6335											
PDHA1	5160	broad.mit.edu	37	chrX	19372612	19372612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttgtccttaatgttaggtgCccctgggcgctgggattgct	4	14	14	9	1	0	0	0	0	0	0	1	1	1	1	3	3	2	4	3	3	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:19372612C>T	uc004czg.3	+	6	659	c.514C>T	c.(514-516)CCC>TCC	p.P172S	PDHA1_uc004czh.3_Missense_Mutation_p.P207S|PDHA1_uc011mjc.1_Missense_Mutation_p.P176S|PDHA1_uc011mjd.1_Intron|PDHA1_uc010nfk.2_Missense_Mutation_p.P169S|PDHA1_uc010nfl.2_5'Flank	NM_000284	NP_000275	P08559	ODPA_HUMAN	pyruvate dehydrogenase E1 alpha 1 precursor	172					glycolysis|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	protein binding|pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)	1	Hepatocellular(33;0.183)				NADH(DB00157)	ATGTTAGGTGCCCCTGGGCGC	0.468													6	42					0	0	0.001168	0	0		T	19372612	T	T	19372612	3	4	4	1	0	0	0	0	1	0	0	0	11683	739	26	2	675	2	PDHA1	23	19372612	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	445594	19372612	135897948	4370	6336											
SH3KBP1	30011	broad.mit.edu	37	chrX	19560086	19560086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgatgctcctcagctcgcGgacctgtgtccttagctcct	5	12	10	14	2	1	1	1	1	0	0	5	3	4	2	4	1	3	3	4	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:19560086G>A	uc004czm.2	-	16	2165	c.1849C>T	c.(1849-1851)CGC>TGC	p.R617C	SH3KBP1_uc011mje.1_Missense_Mutation_p.R356C|SH3KBP1_uc011mjf.1_Missense_Mutation_p.R379C|SH3KBP1_uc004czl.2_Missense_Mutation_p.R580C|SH3KBP1_uc010nfm.2_Missense_Mutation_p.R62C	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	617	Potential.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						CTCAGCTCGCGGACCTGTGTC	0.632													37	10					0	0	0.002852	0	0		A	19560086	A	A	19560086	3	1	4	1	0	0	0	0	1	0	0	0	14280	1116	39	1	160	1	SH3KBP1	23	19560086	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	187474	19560086	135710474	4371	6337											
SH3KBP1	30011	broad.mit.edu	37	chrX	19649997	19649997	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttaccttattgatgagagtGactatatctccttctttgat	9	19	6	7	0	2	4	0	4	2	1	3	5	2	4	2	0	1	0	2	0	4	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:19649997G>A	uc004czm.2	-	8	1198	c.882C>T	c.(880-882)GTC>GTT	p.V294V	SH3KBP1_uc011mje.1_Silent_p.V33V|SH3KBP1_uc011mjf.1_Silent_p.V56V|SH3KBP1_uc004czl.2_Silent_p.V257V	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	294	SH3 3.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						TGATGAGAGTGACTATATCTC	0.378													8	53					0	0	0.00308	0	0		A	19649997	A	A	19649997	2	1	4	1	0	0	0	0	0	0	0	1	14280	1277	45	4		4	SH3KBP1	23	19649997	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	89911	19649997	135620563	4372	6338											
PTCHD1	139411	broad.mit.edu	37	chrX	23397938	23397938	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggcaccagcttgggggCgtcactgtgcacagcaaaga	11	6	14	10	1	1	1	1	0	0	1	1	1	1	1	1	3	3	4	1	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:23397938C>T	uc004dal.3	+	2	590	c.582C>T	c.(580-582)GGC>GGT	p.G194G	PTCHD1_uc010nfu.1_Silent_p.G194G	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	194					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						AGCTTGGGGGCGTCACTGTGC	0.527													45	40					0	0	0.00361	0	0		T	23397938	T	T	23397938	2	4	4	1	0	0	0	0	0	0	0	1	12754	755	27	1		1	PTCHD1	23	23397938	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3747941	23397938	131872622	4373	6339											
PDK3	5165	broad.mit.edu	37	chrX	24552101	24552101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaataagtccgcatggcGccattacaagaccacgcctg	11	10	8	12	3	0	1	0	0	0	1	1	1	1	1	4	1	1	1	4	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:24552101G>A	uc004dbg.2	+	11	1362	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	PDK3_uc004dbh.2_Missense_Mutation_p.R378H	NM_005391	NP_005382	Q15120	PDK3_HUMAN	pyruvate dehydrogenase kinase 3 isoform 2	378					glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|protein binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						TCCGCATGGCGCCATTACAAG	0.428													11	14					0	0	0.001368	0	0		A	24552101	A	A	24552101	3	1	4	1	0	0	0	0	1	0	0	0	11696	1087	38	1	1175	1	PDK3	23	24552101	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1154163	24552101	130718459	4374	6340											
PCYT1B	9468	broad.mit.edu	37	chrX	24608151	24608151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagaagtaccttgtgtttttCcagaaactctggcgtgagtg	9	13	12	7	1	1	3	0	1	1	2	2	4	2	3	2	1	2	2	2	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:24608151C>T	uc004dbi.2	-	4	708	c.475G>A	c.(475-477)GAA>AAA	p.E159K	PCYT1B_uc004dbk.3_Missense_Mutation_p.E159K|PCYT1B_uc004dbj.2_Missense_Mutation_p.E141K	NM_004845	NP_004836	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	159	Catalytic (Potential).					endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)	TTGTGTTTTTCCAGAAACTCT	0.483													4	13					0	0	0.009096	0	0		T	24608151	T	T	24608151	3	4	4	1	0	0	0	0	1	0	0	0	11630	864	30	4	691	4	PCYT1B	23	24608151	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	56050	24608151	130662409	4375	6341											
PCYT1B	9468	broad.mit.edu	37	chrX	24690692	24690692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtattcacattaccttgcGccacaattggggagcgcgat	11	10	10	10	3	1	0	1	0	0	0	1	2	1	1	2	2	3	1	2	2	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:24690692G>A	uc004dbj.2	-	1	288	c.58C>T	c.(58-60)CGC>TGC	p.R20C		NM_001163264	NP_001156736	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	38						endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)	ATTACCTTGCGCCACAATTGG	0.413													6	48					0	0	0.001984	0	0		A	24690692	A	A	24690692	3	1	4	1	0	0	0	0	1	0	0	0	11630	1087	38	1	1187	1	PCYT1B	23	24690692	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	82541	24690692	130579868	4376	6342											
DCAF8L2	347442	broad.mit.edu	37	chrX	27766835	27766835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaatttccagatgaagaatCggatgagtcttccagcactt	12	12	9	8	1	1	5	0	3	1	2	4	6	3	6	2	1	1	1	2	1	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:27766835C>T	uc011mjy.1	+	1	1910	c.1823C>T	c.(1822-1824)TCG>TTG	p.S608L		NM_001136533	NP_001130005			DDB1 and CUL4 associated factor 8-like 2											central_nervous_system(1)|pancreas(1)	2						GATGAAGAATCGGATGAGTCT	0.522													3	8					0	0	0.004672	0	0		T	27766835	T	T	27766835	3	4	4	1	0	0	0	0	1	0	0	0	4281	893	31	1	1825	1	DCAF8L2	23	27766835	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3076143	27766835	127503725	4377	6343											
DCAF8L1	139425	broad.mit.edu	37	chrX	27997832	27997832	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcggttgtcaaacgagtcCgtatagttcaagttgtcttc	9	14	10	8	3	3	0	2	0	1	0	5	1	4	0	1	1	2	4	1	1	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:27997832C>T	uc004dbx.1	-	1	1735	c.1620G>A	c.(1618-1620)ACG>ACA	p.T540T		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	540										ovary(3)|skin(1)	4						CAAACGAGTCCGTATAGTTCA	0.488													7	51					0	0	0.006214	0	0		T	27997832	T	T	27997832	2	4	4	1	0	0	0	0	0	0	0	1	4280	639	23	1		1	DCAF8L1	23	27997832	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	230997	27997832	127272728	4378	6344											
TAB3	257397	broad.mit.edu	37	chrX	30872570	30872570	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggagaacttgaaggtggCgtggtggctgtgtacagtga	10	9	18	4	1	0	3	0	2	0	1	0	5	0	3	0	5	2	2	0	5	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:30872570C>T	uc004dcj.2	-	6	1875	c.1212G>A	c.(1210-1212)ACG>ACA	p.T404T	TAB3_uc004dck.2_Silent_p.T404T|TAB3_uc010ngl.2_Silent_p.T404T	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	404	Pro-rich.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						TTGAAGGTGGCGTGGTGGCTG	0.433													9	81					0	0	0.001368	0	0		T	30872570	T	T	30872570	2	4	4	1	0	0	0	0	0	0	0	1	15522	755	27	1		1	TAB3	23	30872570	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2874738	30872570	124397990	4379	6345											
TAB3	257397	broad.mit.edu	37	chrX	30877628	30877628	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatgcactgagacaccacGccctctggaatttcagggaa	13	7	9	12	1	2	1	1	1	1	1	2	4	2	3	2	2	2	1	2	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:30877628G>A	uc004dcj.2	-	5	741	c.78C>T	c.(76-78)GGC>GGT	p.G26G	TAB3_uc004dck.2_Silent_p.G26G|TAB3_uc010ngl.2_Silent_p.G26G	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	26	CUE.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						GAGACACCACGCCCTCTGGAA	0.448													11	13					0	0	0.000978	0	0		A	30877628	A	A	30877628	2	1	4	1	0	0	0	0	0	0	0	1	15522	1074	38	1		1	TAB3	23	30877628	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	5058	30877628	124392932	4380	6346											
DMD	1756	broad.mit.edu	37	chrX	31227807	31227808	+	Frame_Shift_Del	DEL	AA	-	-																															cacatgcagctgacaggctcAagagatccactgcaaaaaac																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:31227807_31227808delAA	uc004dda.1	-	65	9614_9615	c.9370_9371delTT	c.(9370-9372)TTGfs	p.L3124fs	DMD_uc004dcq.1_Frame_Shift_Del_p.L395fs|DMD_uc004dcr.1_Frame_Shift_Del_p.L664fs|DMD_uc004dcs.1_Frame_Shift_Del_p.L664fs|DMD_uc004dct.1_Frame_Shift_Del_p.L664fs|DMD_uc004dcu.1_Frame_Shift_Del_p.L664fs|DMD_uc004dcv.1_Frame_Shift_Del_p.L664fs|DMD_uc004dcw.2_Frame_Shift_Del_p.L1780fs|DMD_uc004dcx.2_Frame_Shift_Del_p.L1783fs|DMD_uc004dcz.2_Frame_Shift_Del_p.L3001fs|DMD_uc004dcy.1_Frame_Shift_Del_p.L3120fs|DMD_uc004ddb.1_Frame_Shift_Del_p.L3116fs|DMD_uc004dcm.1_Frame_Shift_Del_p.L56fs|DMD_uc004dcn.1_Frame_Shift_Del_p.L56fs|DMD_uc004dco.1_Frame_Shift_Del_p.L56fs|DMD_uc004dcp.1_Frame_Shift_Del_p.L56fs|DMD_uc011mkb.1_Frame_Shift_Del_p.L56fs|DMD_uc010ngm.2_Frame_Shift_Del_p.L56fs	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3124	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGACAGGCTCAAGAGATCCACT	0.416													21	8	---	---	---	---						.	-	31227808	-	-	31227807	7	5	4	1	0	1	0	1	0	0	0	0	4586	131	5	0	1836	0	DMD	23	31227807	Frame_Shift_Del	DEL	AA	TCGA-BR-4184-01A-01D-1126-08	350179	31227807	124042753	4381	6347											
FAM47C	442444	broad.mit.edu	37	chrX	37028325	37028325	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggagcctccagagactcgCgtatctcatctccgcccaga	8	7	9	17	4	2	2	1	0	2	2	6	4	3	3	5	1	1	1	5	1	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:37028325C>T	uc004ddl.1	+	1	1856	c.1842C>T	c.(1840-1842)CGC>CGT	p.R614R		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	614										ovary(3)	3						CAGAGACTCGCGTATCTCATC	0.652													5	22					0	0	0.001168	0	0		T	37028325	T	T	37028325	2	4	4	1	0	0	0	0	0	0	0	1	5585	755	27	1		1	FAM47C	23	37028325	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5800518	37028325	118242235	4382	6348											
FAM47C	442444	broad.mit.edu	37	chrX	37028757	37028757	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagcctcttgagactcgCgtatctcatctccgcccgga	7	9	9	16	4	3	2	1	1	3	2	6	4	3	3	4	1	1	1	4	1	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:37028757C>T	uc004ddl.1	+	1	2288	c.2274C>T	c.(2272-2274)CGC>CGT	p.R758R		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	758										ovary(3)	3						TTGAGACTCGCGTATCTCATC	0.632													24	20					0	0	0.003954	0	0		T	37028757	T	T	37028757	2	4	4	1	0	0	0	0	0	0	0	1	5585	755	27	1		1	FAM47C	23	37028757	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	432	37028757	118241803	4383	6349											
CYBB	1536	broad.mit.edu	37	chrX	37663265	37663265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccttttacactgacatccGcccctgaggaagacttcttt	9	12	6	14	1	1	3	0	2	1	1	2	4	2	4	4	1	1	0	4	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:37663265G>A	uc004ddr.2	+	9	1094	c.1033G>A	c.(1033-1035)GCC>ACC	p.A345T	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Missense_Mutation_p.A313T|CYBB_uc011mkg.1_Missense_Mutation_p.A78T	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	345	Cytoplasmic (Potential).|FAD-binding FR-type.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						ACTGACATCCGCCCCTGAGGA	0.483													24	19					0	0	0.003954	0	0		A	37663265	A	A	37663265	3	1	4	1	0	0	0	0	1	0	0	0	4136	1087	38	1	1067	1	CYBB	23	37663265	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	634508	37663265	117607295	4384	6350											
MID1IP1	58526	broad.mit.edu	37	chrX	38664476	38664476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatgtacagccactacgtgCttctcaagtccatccgcaac	11	9	6	15	2	1	0	1	0	1	0	4	0	3	0	3	0	5	3	3	0	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:38664476C>T	uc004dei.3	+	3	701	c.277C>T	c.(277-279)CTT>TTT	p.L93F	MID1IP1_uc010ngz.2_Missense_Mutation_p.L93F|MID1IP1_uc004dej.3_Missense_Mutation_p.L93F	NM_001098790	NP_001092260	Q9NPA3	M1IP1_HUMAN	MID1 interacting G12-like protein	93					lipid biosynthetic process|negative regulation of microtubule depolymerization|positive regulation of fatty acid biosynthetic process|positive regulation of ligase activity|protein polymerization	cytosol|microtubule|nucleus					0						CCACTACGTGCTTCTCAAGTC	0.657													12	6					0	0	0.006122	0	0		T	38664476	T	T	38664476	3	4	4	1	0	0	0	0	1	0	0	0	9595	797	28	2	279	2	MID1IP1	23	38664476	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1001211	38664476	116606084	4385	6351											
BCOR	54880	broad.mit.edu	37	chrX	39913265	39913265	+	Frame_Shift_Del	DEL	A	-	-																															ctggtcctggggggttggctAaaacatcatagccactttca																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:39913265delA	uc004den.3	-	14	5142	c.4850delT	c.(4849-4851)TTAfs	p.L1617fs	BCOR_uc004dep.3_Frame_Shift_Del_p.L1583fs|BCOR_uc004deo.3_Frame_Shift_Del_p.L1565fs|BCOR_uc010nhb.2_Frame_Shift_Del_p.L325fs|BCOR_uc004dem.3_Frame_Shift_Del_p.L1583fs	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	1617					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						GGGGTTGGCTAAAACATCATA	0.438													17	13	---	---	---	---						.	-	39913265	-	-	39913265	7	5	4	1	0	1	0	1	0	0	0	0	1387	372	13	0	425	0	BCOR	23	39913265	Frame_Shift_Del	DEL	A	TCGA-BR-4184-01A-01D-1126-08	1248789	39913265	115357295	4386	6352											
BCOR	54880	broad.mit.edu	37	chrX	39932705	39932705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagagcttggtggaaggcCgttctcgtttgctttgaaac	8	14	12	7	2	1	2	0	1	1	1	2	3	1	3	1	3	3	4	1	3	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:39932705C>T	uc004den.3	-	4	2186	c.1894G>A	c.(1894-1896)GGC>AGC	p.G632S	BCOR_uc004dep.3_Missense_Mutation_p.G632S|BCOR_uc004deo.3_Missense_Mutation_p.G632S|BCOR_uc004dem.3_Missense_Mutation_p.G632S|BCOR_uc004deq.3_Missense_Mutation_p.G632S	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	632					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						GGTGGAAGGCCGTTCTCGTTT	0.587													15	19					0	0	0.00499	0	0		T	39932705	T	T	39932705	3	4	4	1	0	0	0	0	1	0	0	0	1387	652	23	1	3421	1	BCOR	23	39932705	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	19440	39932705	115337855	4387	6353											
DUSP21	63904	broad.mit.edu	37	chrX	44703683	44703683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgatatgaggcagggccgtaCgctgctgcactgcatggctg	7	8	15	11	3	0	1	0	1	0	0	0	2	0	1	1	3	4	7	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:44703683C>T	uc004dgd.2	+	1	435	c.305C>T	c.(304-306)ACG>ATG	p.T102M		NM_022076	NP_071359	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	102	Tyrosine-protein phosphatase.|Sufficient for mitochondrial localization (By similarity).					cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			large_intestine(1)|lung(1)	2						CAGGGCCGTACGCTGCTGCAC	0.547													6	30					0	0	0.001984	0	0		T	44703683	T	T	44703683	3	4	4	1	0	0	0	0	1	0	0	0	4826	536	19	1	307	1	DUSP21	23	44703683	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4770978	44703683	110566877	4388	6354											
ELK1	2002	broad.mit.edu	37	chrX	47500653	47500653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtcatagtagtaccgcaagGcccggctgagcttgtcgtaa	9	10	12	10	3	1	1	1	1	0	0	2	1	1	1	2	2	2	6	2	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:47500653G>A	uc004dik.3	-	3	510	c.188C>T	c.(187-189)GCC>GTC	p.A63V	ELK1_uc010nhv.2_Missense_Mutation_p.A63V|ELK1_uc010nhw.2_5'UTR|ELK1_uc004dil.3_RNA	NM_001114123	NP_001107595	P19419	ELK1_HUMAN	ELK1 protein	63	ETS.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						GTACCGCAAGGCCCGGCTGAG	0.502													5	21					0	0	0.001168	0	0		A	47500653	A	A	47500653	3	1	4	1	0	0	0	0	1	0	0	0	5067	1203	42	2	1118	2	ELK1	23	47500653	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2796970	47500653	107769907	4389	6355											
ZNF630	57232	broad.mit.edu	37	chrX	47926265	47926265	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaaataacttacctgggActcaatcattttctgtttct	13	15	4	9	0	4	0	2	0	2	0	4	1	4	1	1	1	3	1	1	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:47926265A>G	uc004div.3	-	2	262	c.10T>C	c.(10-12)TCC>CCC	p.S4P	ZNF630_uc010nhz.1_RNA|ZNF630_uc004diw.2_5'UTR	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	4					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2						CTTACCTGGGACTCAATCATT	0.318													5	38					0	0	0.001168	0	0		G	47926265	G	G	47926265	3	3	4	1	0	0	0	0	1	0	0	0	18079	275	10	3	1979	3	ZNF630	23	47926265	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	425612	47926265	107344295	4390	6356											
GRIPAP1	56850	broad.mit.edu	37	chrX	48832466	48832466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtaggtctcaatgatggCgctcttccggcagaggtcct	7	10	13	11	3	2	2	1	1	2	1	5	3	4	2	2	4	0	3	2	4	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:48832466C>T	uc004dly.1	-	24	2277	c.2242G>A	c.(2242-2244)GCC>ACC	p.A748T		NM_020137	NP_064522	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1 isoform 1	748						early endosome				breast(2)|kidney(1)	3						TCAATGATGGCGCTCTTCCGG	0.617													13	11					0	0	0.003163	0	0		T	48832466	T	T	48832466	3	4	4	1	0	0	0	0	1	0	0	0	6805	768	27	1	295	1	GRIPAP1	23	48832466	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	906201	48832466	106438094	4391	6357											
WDR45	11152	broad.mit.edu	37	chrX	48933099	48933101	+	In_Frame_Del	DEL	AGG	-	-																															atcactggaagcgcagaggaAggaggagtcgtggctgaagt																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:48933099_48933101delAGG	uc004dmk.1	-	9	921_923	c.749_751delCCT	c.(748-753)TCCTTC>TTC	p.S250del	PRAF2_uc004dmh.2_5'Flank|PRAF2_uc004dmi.2_5'Flank|PRAF2_uc011mmt.1_In_Frame_Del_p.S148del|WDR45_uc004dmj.1_In_Frame_Del_p.S211del|WDR45_uc004dml.1_In_Frame_Del_p.S251del|WDR45_uc004dmm.1_In_Frame_Del_p.S215del|WDR45_uc010nim.1_Intron|WDR45_uc004dmn.1_In_Frame_Del_p.S141del|WDR45_uc004dmo.1_In_Frame_Del_p.S273del|WDR45_uc004dmp.1_In_Frame_Del_p.S251del	NM_001029896	NP_001025067	Q9Y484	WIPI4_HUMAN	WD repeat domain 45 isoform 2	250	WD 3.				autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1						GCGCAGAGGAAGGAGGAGTCGTG	0.562													4	8	---	---	---	---						.	-	48933101	-	-	48933099	7	5	4	1	0	1	0	1	0	0	0	0	17323	72	3	0	343	0	WDR45	23	48933099	In_Frame_Del	DEL	AGG	TCGA-BR-4184-01A-01D-1126-08	100633	48933099	106337461	4392	6358											
SHROOM4	57477	broad.mit.edu	37	chrX	50339874	50339874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgggagaccatgccaaacaCcaacttctcccggcggtcca	10	5	10	16	3	1	1	0	0	1	1	3	2	2	1	5	3	3	0	5	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:50339874C>T	uc004dpe.2	-	9	4329	c.4303G>A	c.(4303-4305)GTG>ATG	p.V1435M	SHROOM4_uc004dpd.3_RNA	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	1435	Potential.|ASD2.				actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					ATGCCAAACACCAACTTCTCC	0.547													4	16					0	0	0.000602	0	0		T	50339874	T	T	50339874	3	4	4	1	0	0	0	0	1	0	0	0	14321	507	18	4	182	4	SHROOM4	23	50339874	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1406775	50339874	104930686	4393	6359											
BMP15	9210	broad.mit.edu	37	chrX	50659440	50659440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcaattcccccaatcacGccattattcagaaccttatc	11	12	3	15	1	3	1	3	0	1	1	6	1	4	1	4	0	1	0	4	0	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:50659440G>A	uc011mnw.1	+	2	1012	c.1012G>A	c.(1012-1014)GCC>ACC	p.A338T		NM_005448	NP_005439	O95972	BMP15_HUMAN	bone morphogenetic protein 15 precursor	338					female gamete generation|granulosa cell development|ovarian follicle development	extracellular space	cytokine activity|growth factor activity			ovary(2)	2	Ovarian(276;0.236)					CCCCAATCACGCCATTATTCA	0.478													6	51					0	0	0.001168	0	0		A	50659440	A	A	50659440	3	1	4	1	0	0	0	0	1	0	0	0	1459	1087	38	1	1018	1	BMP15	23	50659440	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	319566	50659440	104611120	4394	6360											
GSPT2	23708	broad.mit.edu	37	chrX	51488078	51488078	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgggaaagctggaatcCgggtccatttttaaaggcca	10	10	12	9	1	0	0	0	0	0	0	3	2	3	2	4	4	1	1	4	4	4	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:51488078C>T	uc004dpl.2	+	1	1582	c.1356C>T	c.(1354-1356)TCC>TCT	p.S452S		NM_018094	NP_060564	Q8IYD1	ERF3B_HUMAN	peptide chain release factor 3	452					cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|translational termination	cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1	Ovarian(276;0.236)					AGCTGGAATCCGGGTCCATTT	0.418													16	17					0	0	0.004007	0	0		T	51488078	T	T	51488078	2	4	4	1	0	0	0	0	0	0	0	1	6843	639	23	1		1	GSPT2	23	51488078	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	828638	51488078	103782482	4395	6361											
KDM5C	8242	broad.mit.edu	37	chrX	53247024	53247024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcatagggataaacaatgCgttcgtagtgggagcgtagc	11	11	13	6	3	1	0	1	0	0	0	2	2	1	2	0	2	4	3	0	2	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:53247024C>T	uc004drz.2	-	4	1009	c.476G>A	c.(475-477)CGC>CAC	p.R159H	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.R92H|KDM5C_uc004dsa.2_Missense_Mutation_p.R159H	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	159	ARID.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						ATAAACAATGCGTTCGTAGTG	0.537			N|F|S		clear cell renal carcinoma								11	12					0	0	0.00245	0	0		T	53247024	T	T	53247024	3	4	4	1	0	0	0	0	1	0	0	0	8151	768	27	1	4396	1	KDM5C	23	53247024	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1758946	53247024	102023536	4396	6362											
IQSEC2	23096	broad.mit.edu	37	chrX	53280263	53280263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctgttcctttgactcccGcttctccagctgggctgacc	3	14	9	15	1	1	2	0	2	1	0	4	2	3	2	4	1	2	5	4	1	0	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:53280263G>A	uc004dsd.2	-	5	1696	c.1495C>T	c.(1495-1497)CGG>TGG	p.R499W	IQSEC2_uc004dsc.2_Missense_Mutation_p.R294W	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	489					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						TTTGACTCCCGCTTCTCCAGC	0.572													22	22					0	0	0.003954	0	0		A	53280263	A	A	53280263	3	1	4	1	0	0	0	0	1	0	0	0	7834	1086	38	1	3015	1	IQSEC2	23	53280263	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	33239	53280263	101990297	4397	6363											
HUWE1	10075	broad.mit.edu	37	chrX	53569478	53569478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctccctccggacagacGcctctgactggctagactcc	7	9	8	17	2	1	3	0	1	1	2	5	4	5	4	5	2	0	1	5	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:53569478G>A	uc004dsp.2	-	74	11804	c.11402C>T	c.(11401-11403)GCG>GTG	p.A3801V	HUWE1_uc004dsn.2_Missense_Mutation_p.A2609V|HUWE1_uc004dsq.1_Missense_Mutation_p.A101V	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3801					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CCGGACAGACGCCTCTGACTG	0.517													5	26					0	0	0.006214	0	0		A	53569478	A	A	53569478	3	1	4	1	0	0	0	0	1	0	0	0	7477	1087	38	1	1766	1	HUWE1	23	53569478	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	289215	53569478	101701082	4398	6364											
HUWE1	10075	broad.mit.edu	37	chrX	53641546	53641546	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tagaattaaagctctgcatgGcctgtacttcctcttcctcc	8	14	6	13	0	2	1	0	0	2	1	5	1	5	1	4	1	3	3	4	1	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:53641546G>A	uc004dsp.2	-	23	2612	c.2210C>T	c.(2209-2211)GCC>GTC	p.A737V		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	737					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GCTCTGCATGGCCTGTACTTC	0.423													22	30					0	0	0.001882	0	0		A	53641546	A	A	53641546	3	1	4	1	0	0	0	0	1	0	0	0	7477	1203	42	2	11162	2	HUWE1	23	53641546	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	72068	53641546	101629014	4399	6365											
PHF8	23133	broad.mit.edu	37	chrX	54014219	54014219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtcttattatcagggtcGccttctcctttcccaatctc	5	17	6	13	1	4	0	1	0	3	0	8	0	5	0	3	2	0	0	3	2	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:54014219G>A	uc004dsu.2	-	15	2070	c.1997C>T	c.(1996-1998)GCG>GTG	p.A666V	PHF8_uc004dst.2_Missense_Mutation_p.A630V|PHF8_uc004dsv.2_Missense_Mutation_p.A496V|PHF8_uc004dsw.2_Missense_Mutation_p.A529V|PHF8_uc004dsx.2_Missense_Mutation_p.A394V|PHF8_uc004dsy.2_Missense_Mutation_p.A630V	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	666					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						TATCAGGGTCGCCTTCTCCTT	0.378													5	6					0	0	0.001168	0	0		A	54014219	A	A	54014219	3	1	4	1	0	0	0	0	1	0	0	0	11859	1087	38	1	1387	1	PHF8	23	54014219	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	372673	54014219	101256341	4400	6366											
GNL3L	54552	broad.mit.edu	37	chrX	54584945	54584945	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacgcaatgtggaccaccGccctaagagcaacagtatgg	14	6	10	11	2	0	1	0	0	0	1	0	2	0	2	3	2	3	3	3	2	6	3	rs145061026		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:54584945G>A	uc004dth.1	+	15	1662	c.1523G>A	c.(1522-1524)CGC>CAC	p.R508H	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	508					ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						GTGGACCACCGCCCTAAGAGC	0.552													14	12					0	0	0.003163	0	0		A	54584945	A	A	54584945	3	1	4	1	0	0	0	0	1	0	0	0	6553	1087	38	1	1577	1	GNL3L	23	54584945	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	570726	54584945	100685615	4401	6367											
ITIH5L	347365	broad.mit.edu	37	chrX	54781451	54781451	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagagctccttgctcaccTtttgctaaccccacagaact	10	10	7	14	0	1	2	1	0	0	2	2	3	2	2	4	1	5	3	4	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:54781451T>C	uc004dtj.2	-	9	3231	c.3201A>G	c.(3199-3201)AAA>AAG	p.K1067K		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	1067					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						CTTGCTCACCTTTTGCTAACC	0.488													7	32					0	0	0.00308	0	0		C	54781451	C	C	54781451	2	2	4	1	0	0	0	0	0	0	0	1	7924	1623	56	3		3	ITIH5L	23	54781451	Silent	SNP	T	TCGA-BR-4184-01A-01D-1126-08	196506	54781451	100489109	4402	6368											
TRO	7216	broad.mit.edu	37	chrX	54949812	54949812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctctaaatgtcactgacGcagctaccaggcagattgag	12	8	11	10	1	2	3	1	2	1	1	2	3	2	3	1	2	2	4	1	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:54949812G>A	uc004dtq.2	+	3	954	c.847G>A	c.(847-849)GCA>ACA	p.A283T	TRO_uc011moj.1_Missense_Mutation_p.A226T|TRO_uc004dts.2_Missense_Mutation_p.A283T|TRO_uc004dtr.2_Missense_Mutation_p.A283T|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Intron|TRO_uc004dtw.2_Intron|TRO_uc004dtx.2_5'Flank	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	283					embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						TGTCACTGACGCAGCTACCAG	0.498													9	6					0	0	0.004482	0	0		A	54949812	A	A	54949812	3	1	4	1	0	0	0	0	1	0	0	0	16600	1087	38	1	853	1	TRO	23	54949812	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	168361	54949812	100320748	4403	6369											
USP51	158880	broad.mit.edu	37	chrX	55514472	55514472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcttttgtttctttggCaatctgttctatgtctttgt	3	26	6	6	0	5	0	0	0	5	0	5	0	5	0	0	1	0	3	0	1	2	9			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:55514472C>T	uc004dun.1	-	2	980	c.901G>A	c.(901-903)GCC>ACC	p.A301T	USP51_uc011moo.1_Intron	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	301					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						GTTTCTTTGGCAATCTGTTCT	0.343													23	23					0	0	0.002299	0	0		T	55514472	T	T	55514472	3	4	4	1	0	0	0	0	1	0	0	0	17109	710	25	2	1238	2	USP51	23	55514472	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	564660	55514472	99756088	4404	6370											
FAM123B	139285	broad.mit.edu	37	chrX	63412648	63412648	+	Frame_Shift_Del	DEL	A	-	-																															cggtgacggcggatactgctAaaaaagccttttaggccttt																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:63412648delA	uc004dvo.2	-	2	792	c.519delT	c.(517-519)TTTfs	p.F173fs		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	173					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)|p.F173fs*36(2)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						GGATACTGCTAAAAAAGCCTT	0.562													12	26	---	---	---	---						.	-	63412648	-	-	63412648	7	5	4	1	0	1	0	1	0	0	0	0	5434	359	13	0	2892	0	FAM123B	23	63412648	Frame_Shift_Del	DEL	A	TCGA-BR-4184-01A-01D-1126-08	7898176	63412648	91857912	4405	6371											
AR	367	broad.mit.edu	37	chrX	66942787	66942787	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacatcctgctcaagacgCttctaccagctcaccaagct	10	8	5	18	1	3	1	2	0	1	1	4	1	4	1	4	0	4	4	4	0	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:66942787C>T	uc004dwu.1	+	7	3683	c.2568C>T	c.(2566-2568)CGC>CGT	p.R856R	AR_uc004dwv.1_Silent_p.R324R	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	855	Ligand-binding.|Interaction with MYST2.		R -> C (in AIS).|R -> H (in AIS; strongly reduced transcription activation).		cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	GCTCAAGACGCTTCTACCAGC	0.433									Androgen_Insensitivity_Syndrome				17	16					0	0	0.010504	0	0		T	66942787	T	T	66942787	2	4	4	1	0	0	0	0	0	0	0	1	836	784	28	2		2	AR	23	66942787	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3530139	66942787	88327773	4406	6372											
PJA1	64219	broad.mit.edu	37	chrX	68382185	68382185	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttgccaggccatccgagtgGccctcattgtcattggcggt	5	11	12	13	2	2	0	2	0	0	0	3	1	3	0	4	4	1	0	4	4	0	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:68382185G>A	uc004dxh.2	-	2	1183	c.897C>T	c.(895-897)GGC>GGT	p.G299G	PJA1_uc011mpi.1_Silent_p.G17G|PJA1_uc004dxg.2_Silent_p.G111G|PJA1_uc004dxi.2_Silent_p.G244G	NM_145119	NP_660095	Q8NG27	PJA1_HUMAN	praja 1 isoform a	299							zinc ion binding				0						CATCCGAGTGGCCCTCATTGT	0.502													11	25					0	0	0.001855	0	0		A	68382185	A	A	68382185	2	1	4	1	0	0	0	0	0	0	0	1	11980	1190	42	2		2	PJA1	23	68382185	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1439398	68382185	86888375	4407	6373											
KIF4A	24137	broad.mit.edu	37	chrX	69615826	69615826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattctcccttactgaagtgCgtggtcaagtttcggagtca	8	13	10	10	2	3	1	2	1	1	0	5	2	3	2	1	2	2	1	1	2	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:69615826C>T	uc004dyg.2	+	22	2543	c.2416C>T	c.(2416-2418)CGT>TGT	p.R806C	KIF4A_uc010nkw.2_Missense_Mutation_p.R806C	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	806	Potential.|Interaction with PRC1.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						TACTGAAGTGCGTGGTCAAGT	0.398													18	26					0	0	0.008871	0	0		T	69615826	T	T	69615826	3	4	4	1	0	0	0	0	1	0	0	0	8319	768	27	1	2498	1	KIF4A	23	69615826	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1233641	69615826	85654734	4408	6374											
DLG3	1741	broad.mit.edu	37	chrX	69722114	69722115	+	Frame_Shift_Del	DEL	CT	-	-																															gggtcccatcccctgaaaaaCtctgaagaatcccctccaac																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:69722114_69722115delCT	uc004dyi.1	+	19	2777_2778	c.2449_2450delCT	c.(2449-2451)CTCfs	p.L817fs	DLG3_uc004dyj.1_Frame_Shift_Del_p.L512fs|DLG3_uc011mpn.1_Frame_Shift_Del_p.L365fs	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	817					axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					CCCTGAAAAACTCTGAAGAATC	0.455													13	6	---	---	---	---						.	-	69722115	-	-	69722114	7	5	4	1	0	1	0	1	0	0	0	0	4562	565	20	0	2811	0	DLG3	23	69722114	Frame_Shift_Del	DEL	CT	TCGA-BR-4184-01A-01D-1126-08	106288	69722114	85548446	4409	6375											
SLC7A3	84889	broad.mit.edu	37	chrX	70149776	70149776	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctggcaaggcgagtctcAgccatgcctgactccagtgt	8	9	11	13	1	2	1	1	1	2	0	4	2	3	1	3	2	2	1	3	2	1	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:70149776A>C	uc004dyn.2	-	2	230	c.72T>G	c.(70-72)GCT>GCG	p.A24A	SLC7A3_uc004dyo.2_Silent_p.A24A	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	24	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	GGCGAGTCTCAGCCATGCCTG	0.557													12	15					0	0	0.000978	0	0		C	70149776	C	C	70149776	2	2	4	1	0	0	0	0	0	0	0	1	14723	175	7	5		5	SLC7A3	23	70149776	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	427662	70149776	85120784	4410	6376											
TAF1	6872	broad.mit.edu	37	chrX	70598858	70598858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctagcatgactaggaatgCgatggcttacaatgttcagc	11	12	10	8	1	2	1	1	1	1	0	2	3	2	2	0	2	4	3	0	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:70598858C>T	uc004dzu.3	+	8	1385	c.1334C>T	c.(1333-1335)GCG>GTG	p.A445V	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.A466V	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	445					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				ACTAGGAATGCGATGGCTTAC	0.493													7	59					0	0	0.001984	0	0		T	70598858	T	T	70598858	3	4	4	1	0	0	0	0	1	0	0	0	15538	768	27	1	1427	1	TAF1	23	70598858	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	449082	70598858	84671702	4411	6377											
TAF1	6872	broad.mit.edu	37	chrX	70603863	70603863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggagagatgttttttatgCgcacacctcaggacctcaca	10	11	10	10	1	2	1	2	0	0	1	2	4	2	3	2	2	1	2	2	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:70603863C>T	uc004dzu.3	+	13	2047	c.1996C>T	c.(1996-1998)CGC>TGC	p.R666C	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.R687C	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	666					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				GTTTTTTATGCGCACACCTCA	0.448													14	64					0	0	0.001855	0	0		T	70603863	T	T	70603863	3	4	4	1	0	0	0	0	1	0	0	0	15538	768	27	1	2109	1	TAF1	23	70603863	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	5005	70603863	84666697	4412	6378											
OGT	8473	broad.mit.edu	37	chrX	70779183	70779183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctcagtgatggtcggctgCgtgtaggatatgtgagttcc	7	12	15	7	2	1	2	1	2	0	0	3	3	2	3	1	3	2	4	1	3	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:70779183C>T	uc004eaa.1	+	13	1886	c.1669C>T	c.(1669-1671)CGT>TGT	p.R557C	BCYRN1_uc011mpt.1_Intron|OGT_uc004eab.1_Missense_Mutation_p.R547C|OGT_uc004eac.2_Missense_Mutation_p.R418C|OGT_uc004ead.2_Missense_Mutation_p.R176C	NM_181672	NP_858058	O15294	OGT1_HUMAN	O-linked GlcNAc transferase isoform 1	557					cellular response to retinoic acid|positive regulation of granulocyte differentiation|positive regulation of histone H3-K4 methylation|positive regulation of proteolysis|protein O-linked glycosylation|signal transduction	cytosol|MLL5-L complex	enzyme activator activity|protein binding|protein N-acetylglucosaminyltransferase activity			ovary(3)|kidney(1)|pancreas(1)	5	Renal(35;0.156)					TGGTCGGCTGCGTGTAGGATA	0.398													23	27					0	0	0.002299	0	0		T	70779183	T	T	70779183	3	4	4	1	0	0	0	0	1	0	0	0	10866	768	27	1	1719	1	OGT	23	70779183	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	175320	70779183	84491377	4413	6379											
ERCC6L	54821	broad.mit.edu	37	chrX	71425358	71425358	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagatcttctagagttcaTagacttatttacactactgg	12	14	7	8	0	3	3	1	0	2	3	3	4	3	3	0	1	2	1	0	1	5	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:71425358T>C	uc004eaq.1	-	2	3356	c.3259A>G	c.(3259-3261)ATG>GTG	p.M1087V	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Missense_Mutation_p.M964V	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	1087					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					CTAGAGTTCATAGACTTATTT	0.413													45	27					0	0	0.003214	0	0		C	71425358	C	C	71425358	3	2	4	1	0	0	0	0	1	0	0	0	5226	1406	49	3	497	3	ERCC6L	23	71425358	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	646175	71425358	83845202	4414	6380											
CDX4	1046	broad.mit.edu	37	chrX	72667389	72667389	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacagtgccggtgaacgaCgtgacctctagccccgccgc	7	5	13	16	5	1	2	0	2	1	0	1	3	1	2	5	2	3	1	5	2	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:72667389C>T	uc011mqk.1	+	1	300	c.300C>T	c.(298-300)GAC>GAT	p.D100D		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	100						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(35;0.156)					CGGTGAACGACGTGACCTCTA	0.647													5	4					0	0	0.001168	0	0		T	72667389	T	T	72667389	2	4	4	1	0	0	0	0	0	0	0	1	3187	535	19	1		1	CDX4	23	72667389	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1242031	72667389	82603171	4415	6381											
ATP7A	538	broad.mit.edu	37	chrX	77243895	77243895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccttgtttctgactgttaCggcgtcactgactttgccat	6	15	8	12	2	2	2	1	2	1	0	2	2	2	2	2	1	2	2	2	1	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:77243895C>T	uc004ecx.3	+	3	438	c.278C>T	c.(277-279)ACG>ATG	p.T93M	ATP7A_uc004ecw.2_Missense_Mutation_p.T93M	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	93	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						CTGACTGTTACGGCGTCACTG	0.443													17	207					0	0	0.00499	0	0		T	77243895	T	T	77243895	3	4	4	1	0	0	0	0	1	0	0	0	1191	536	19	1	284	1	ATP7A	23	77243895	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	4576506	77243895	78026665	4416	6382											
HMGN5	79366	broad.mit.edu	37	chrX	80370463	80370463	+	Frame_Shift_Del	DEL	T	-	-																															tttccttttccgtcttcaccTttttttccatcttctttctc																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:80370463delT	uc004eee.1	-	7	863	c.534delA	c.(532-534)AAAfs	p.K178fs		NM_030763	NP_110390	P82970	HMGN5_HUMAN	high-mobility group nucleosome binding domain 5	178					chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin|nucleolus	chromatin binding|DNA binding			lung(1)	1						cgtcttcacctttttttccat	0.005													3	5	---	---	---	---						.	-	80370463	-	-	80370463	7	5	4	1	0	1	0	1	0	0	0	0	7254	1606	56	0	318	0	HMGN5	23	80370463	Frame_Shift_Del	DEL	T	TCGA-BR-4184-01A-01D-1126-08	3126568	80370463	74900097	4417	6383											
HDX	139324	broad.mit.edu	37	chrX	83724399	83724399	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgatgaactggctggactgTatataccagttacaatgaca	13	12	9	7	0	0	3	0	3	0	0	0	4	0	4	1	2	3	3	1	2	6	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:83724399T>C	uc004eek.1	-	3	441	c.332A>G	c.(331-333)TAC>TGC	p.Y111C	HDX_uc011mqv.1_Missense_Mutation_p.Y111C|HDX_uc004eel.1_Missense_Mutation_p.Y53C	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	111						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						GGCTGGACTGTATATACCAGT	0.403													23	34					0	0	0.007291	0	0		C	83724399	C	C	83724399	3	2	4	1	0	0	0	0	1	0	0	0	7042	1638	57	3	1772	3	HDX	23	83724399	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	3353936	83724399	71546161	4418	6384											
ZNF711	7552	broad.mit.edu	37	chrX	84523321	84523321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatgaaagaagagtttcccGaaggtatgaagattgtcaag	16	9	12	4	1	1	6	1	2	0	4	2	7	2	6	1	1	0	2	1	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:84523321G>A	uc004eeo.2	+	7	1285	c.938G>A	c.(937-939)CGA>CAA	p.R313Q	ZNF711_uc004eep.2_Missense_Mutation_p.R313Q|ZNF711_uc004eeq.2_Missense_Mutation_p.R359Q|ZNF711_uc011mqy.1_5'UTR	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	313					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						AGAGTTTCCCGAAGGTATGAA	0.303													14	12					0	0	0.00245	0	0		A	84523321	A	A	84523321	3	1	4	1	0	0	0	0	1	0	0	0	18141	1058	37	1	956	1	ZNF711	23	84523321	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	798922	84523321	70747239	4419	6385											
CHM	1121	broad.mit.edu	37	chrX	85149202	85149202	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actatgcttacaggtgccttTcatgcatgtcatcgttgaag	9	14	9	9	1	2	1	2	1	0	0	3	1	2	1	1	1	4	3	1	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:85149202T>C	uc004eet.2	-	12	1531	c.1501A>G	c.(1501-1503)AAA>GAA	p.K501E	CHM_uc011mqz.1_Missense_Mutation_p.K353E	NM_000390	NP_000381	P24386	RAE1_HUMAN	choroideremia isoform a	501					intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)				CAGGTGCCTTTCATGCATGTC	0.398													3	53					0	0	0.004672	0	0		C	85149202	C	C	85149202	3	2	4	1	0	0	0	0	1	0	0	0	3353	1792	62	3	476	3	CHM	23	85149202	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	625881	85149202	70121358	4420	6386											
NAP1L3	4675	broad.mit.edu	37	chrX	92927519	92927519	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctttaggctgttctttaTcatctgcctttacctggggg	4	18	10	9	0	3	0	1	0	2	0	3	0	3	0	2	3	3	3	2	3	3	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:92927519T>C	uc004efq.2	-	1	1090	c.785A>G	c.(784-786)GAT>GGT	p.D262G	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	262					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						CTGTTCTTTATCATCTGCCTT	0.443													33	32					0	0	0.002836	0	0		C	92927519	C	C	92927519	3	2	4	1	0	0	0	0	1	0	0	0	10176	1435	50	3	739	3	NAP1L3	23	92927519	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	7778317	92927519	62343041	4421	6387											
SYTL4	94121	broad.mit.edu	37	chrX	99942125	99942125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcactccttcacatggaCaaccagactctgggtttgct	9	11	9	12	0	2	1	1	0	1	1	3	2	3	2	2	3	2	3	2	3	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:99942125C>T	uc004egd.3	-	13	1479	c.1123G>A	c.(1123-1125)GTC>ATC	p.V375I	SYTL4_uc010nnb.2_Missense_Mutation_p.V47I|SYTL4_uc010nnc.2_Missense_Mutation_p.V375I|SYTL4_uc004ege.3_Missense_Mutation_p.V375I|SYTL4_uc004egf.3_Missense_Mutation_p.V375I|SYTL4_uc004egg.3_3'UTR	NM_080737	NP_542775	Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	375	C2 1.				exocytosis|intracellular protein transport	extrinsic to membrane|plasma membrane|synaptic vesicle|transport vesicle membrane	neurexin binding|phospholipid binding|Rab GTPase binding|transporter activity|zinc ion binding			ovary(2)	2					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TTCACATGGACAACCAGACTC	0.512													23	34					0	0	0.004656	0	0		T	99942125	T	T	99942125	3	4	4	1	0	0	0	0	1	0	0	0	15510	478	17	4	920	4	SYTL4	23	99942125	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	7014606	99942125	55328435	4422	6388											
NOX1	27035	broad.mit.edu	37	chrX	100105262	100105262	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaggtcaaagtaaaaggatgCcattccaggagagagattga	16	7	13	5	0	1	3	1	1	0	2	2	7	2	4	2	3	1	1	2	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:100105262C>T	uc004egj.2	-	9	1217	c.1011G>A	c.(1009-1011)TGG>TGA	p.W337*	NOX1_uc004egl.3_Nonsense_Mutation_p.W337*|NOX1_uc010nne.2_Nonsense_Mutation_p.W300*	NM_007052	NP_008983	Q9Y5S8	NOX1_HUMAN	NADPH oxidase 1 isoform long	337	FAD-binding FR-type.|Extracellular (Potential).				angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1						TAAAAGGATGCCATTCCAGGA	0.458													4	29					0	0	0.009096	0	0		T	100105262	T	T	100105262	4	4	4	1	0	0	0	0	0	1	0	0	10575	740	26	2	703	2	NOX1	23	100105262	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	163137	100105262	55165298	4423	6389											
TRMT2B	79979	broad.mit.edu	37	chrX	100297067	100297067	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctagtggtccaagatggCttggtttcttctgacttttt	6	18	9	8	0	3	2	0	1	3	1	4	2	4	2	1	3	0	2	1	3	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:100297067C>A	uc004egq.2	-	2	511	c.212G>T	c.(211-213)AGC>ATC	p.S71I	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Missense_Mutation_p.S71I|TRMT2B_uc004egs.2_Missense_Mutation_p.S71I|TRMT2B_uc004egt.2_Missense_Mutation_p.S71I|TRMT2B_uc004egu.2_Intron|TRMT2B_uc004egv.2_Missense_Mutation_p.S71I	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	71							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						TCCAAGATGGCTTGGTTTCTT	0.473													8	46					0.000673444	0.000701807	0.008291	1	0		A	100297067	A	A	100297067	3	1	4	1	0	0	0	0	1	0	0	0	16592	797	28	5	1350	5	TRMT2B	23	100297067	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	191805	100297067	54973493	4424	6390											
DRP2	1821	broad.mit.edu	37	chrX	100505442	100505442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagtggccaactcaggcaGccagtgtgaccagcgccacc	10	4	11	16	1	1	1	1	1	0	0	1	1	1	1	6	2	3	1	6	2	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:100505442G>A	uc004egz.2	+	15	1940	c.1571G>A	c.(1570-1572)AGC>AAC	p.S524N	DRP2_uc011mrh.1_Missense_Mutation_p.S446N	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	524					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						AACTCAGGCAGCCAGTGTGAC	0.612													4	14					0	0	0.001168	0	0		A	100505442	A	A	100505442	3	1	4	1	0	0	0	0	1	0	0	0	4770	971	34	2	1621	2	DRP2	23	100505442	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	208375	100505442	54765118	4425	6391											
ARMCX3	51566	broad.mit.edu	37	chrX	100879869	100879869	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttgaagtggctgaagaCgatcaccctccacaggcttg	9	8	12	12	1	1	3	1	2	0	1	2	4	2	3	3	3	0	2	3	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:100879869C>T	uc004ehz.1	+	5	433	c.-100C>T	c.(-102--98)GACGA>GATGA		ARMCX3_uc004eia.1_Translation_Start_Site|ARMCX3_uc004eib.1_Translation_Start_Site|ARMCX3_uc004eic.1_Translation_Start_Site	NM_016607	NP_057691	Q9UH62	ARMX3_HUMAN	armadillo repeat containing, X-linked 3							integral to membrane	binding			ovary(1)|lung(1)	2						TGGCTGAAGACGATCACCCTC	0.542													8	2					0	0	0.008291	0	0		T	100879869	T	T	100879869	1	4	4	1	0	0	0	0	0	0	0	0	962	551	19	1		1	ARMCX3	23	100879869	Translation_Start_Site	SNP	C	TCGA-BR-4184-01A-01D-1126-08	374427	100879869	54390691	4426	6392											
NXF3	56000	broad.mit.edu	37	chrX	102339721	102339721	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgggatgaagaatgcatgCcaggattgacaggttcagac	13	8	14	6	0	1	4	1	2	0	2	1	7	1	6	1	3	2	2	1	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:102339721C>T	uc004eju.2	-	2	190	c.119G>A	c.(118-120)GGC>GAC	p.G40D	NXF3_uc010noi.1_5'Flank|NXF3_uc011mrw.1_Missense_Mutation_p.G40D|NXF3_uc011mrx.1_Intron	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	40						cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3						AGAATGCATGCCAGGATTGAC	0.433													14	122					0	0	0.003163	0	0		T	102339721	T	T	102339721	3	4	4	1	0	0	0	0	1	0	0	0	10804	739	26	2	1548	2	NXF3	23	102339721	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1459852	102339721	52930839	4427	6393											
NRK	203447	broad.mit.edu	37	chrX	105178303	105178303	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgactcaggtgctgcaccGtcagcacctgatcatgagag	10	9	11	11	1	3	3	3	3	0	1	3	4	3	3	2	1	3	3	2	1	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:105178303G>A	uc004emd.2	+	20	3669	c.3366G>A	c.(3364-3366)CCG>CCA	p.P1122P	NRK_uc010npc.1_Silent_p.P790P	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1122							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						GTGCTGCACCGTCAGCACCTG	0.418										HNSCC(51;0.14)			37	8					0	0	0.007835	0	0		A	105178303	A	A	105178303	2	1	4	1	0	0	0	0	0	0	0	1	10674	1132	40	1		1	NRK	23	105178303	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2838582	105178303	50092257	4428	6394											
MUM1L1	139221	broad.mit.edu	37	chrX	105450135	105450135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttaaagatgaaaagtttgCtccacctttgtcacctttgt	10	16	7	8	0	1	2	1	1	0	1	2	2	2	2	3	0	1	3	3	0	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:105450135C>T	uc004emf.1	+	4	1359	c.710C>T	c.(709-711)GCT>GTT	p.A237V	MUM1L1_uc004emg.1_Missense_Mutation_p.A237V	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	237										ovary(2)|pancreas(1)|skin(1)	4						GAAAAGTTTGCTCCACCTTTG	0.418													5	19					0	0	0.000602	0	0		T	105450135	T	T	105450135	3	4	4	1	0	0	0	0	1	0	0	0	10004	797	28	2	712	2	MUM1L1	23	105450135	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	271832	105450135	49820425	4429	6395											
PSMD10	5716	broad.mit.edu	37	chrX	107331059	107331059	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagcatctggattagccccGccttccagtaacatgacagc	10	10	8	13	1	1	1	0	1	1	0	2	2	2	2	4	1	4	2	4	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:107331059G>A	uc004enp.1	-	4	482	c.384C>T	c.(382-384)GGC>GGT	p.G128G	PSMD10_uc004enq.1_Silent_p.G128G|PSMD10_uc010nph.1_Silent_p.G79G	NM_002814	NP_002805	O75832	PSD10_HUMAN	proteasome 26S non-ATPase subunit 10 isoform 1	128	ANK 4.|Interaction with RELA.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cytoplasmic sequestering of NF-kappaB|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of MAPKKK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of release of cytochrome c from mitochondria|negative regulation of transcription from RNA polymerase II promoter|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|proteasome regulatory particle assembly|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus|proteasome regulatory particle	transcription factor binding			ovary(1)	1						GATTAGCCCCGCCTTCCAGTA	0.433													45	44					0	0	0.00361	0	0		A	107331059	A	A	107331059	2	1	4	1	0	0	0	0	0	0	0	1	12715	1074	38	1		1	PSMD10	23	107331059	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1880924	107331059	47939501	4430	6396											
COL4A6	1288	broad.mit.edu	37	chrX	107422584	107422584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaccaggtaagcctggaCtgccaatcatcccaggcaag	12	6	11	12	0	1	0	1	0	0	0	2	2	2	2	4	4	3	2	4	4	4	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:107422584C>T	uc004enw.3	-	26	2322	c.2219G>A	c.(2218-2220)AGT>AAT	p.S740N	COL4A6_uc004env.3_Missense_Mutation_p.S739N|COL4A6_uc011msn.1_Missense_Mutation_p.S739N|COL4A6_uc010npk.2_Missense_Mutation_p.S739N	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	740	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						TAAGCCTGGACTGCCAATCAT	0.542									Alport_syndrome_with_Diffuse_Leiomyomatosis				14	15					0	0	0.00245	0	0		T	107422584	T	T	107422584	3	4	4	1	0	0	0	0	1	0	0	0	3698	565	20	4	2936	4	COL4A6	23	107422584	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	91525	107422584	47847976	4431	6397											
GUCY2F	2986	broad.mit.edu	37	chrX	108691393	108691393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggattttatttatacgacGcctaaaacaaacatgaaatc	16	12	5	8	2	0	1	0	1	0	0	1	3	0	2	1	1	3	0	1	1	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:108691393G>A	uc004eod.3	-	6	1750	c.1474C>T	c.(1474-1476)CGT>TGT	p.R492C	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	492	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						TTTATACGACGCCTAAAACAA	0.398													16	19					0	0	0.00499	0	0		A	108691393	A	A	108691393	3	1	4	1	0	0	0	0	1	0	0	0	6914	1101	38	1	1908	1	GUCY2F	23	108691393	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1268809	108691393	46579167	4432	6398											
GUCY2F	2986	broad.mit.edu	37	chrX	108719095	108719095	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagatgcaaggccatggTgtcccagcagtttcctgaaa	10	9	12	10	0	0	2	0	1	0	1	2	2	2	2	3	3	2	4	3	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:108719095T>C	uc004eod.3	-	2	347	c.71A>G	c.(70-72)CAC>CGC	p.H24R	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	24					intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						AAGGCCATGGTGTCCCAGCAG	0.562											OREG0019905	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	70					0	0	0.001168	0	0		C	108719095	C	C	108719095	3	2	4	1	0	0	0	0	1	0	0	0	6914	1696	59	3	3327	3	GUCY2F	23	108719095	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	27702	108719095	46551465	4433	6399											
ACSL4	2182	broad.mit.edu	37	chrX	108887403	108887403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttgattggaatttcaaatCgctccaatttcactgaaatt	12	15	5	9	1	2	2	2	2	0	0	4	3	3	3	2	1	0	1	2	1	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:108887403C>T	uc004eoi.2	-	17	2496	c.1991G>A	c.(1990-1992)CGA>CAA	p.R664Q	ACSL4_uc004eoj.2_Missense_Mutation_p.R623Q|ACSL4_uc004eok.2_Missense_Mutation_p.R623Q	NM_022977	NP_075266	O60488	ACSL4_HUMAN	acyl-CoA synthetase long-chain family member 4	664	Cytoplasmic (Potential).				fatty acid metabolic process|learning or memory|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(1)|lung(1)|ovary(1)	3					Icosapent(DB00159)|Troglitazone(DB00197)	AATTTCAAATCGCTCCAATTT	0.274													11	9					0	0	0.001368	0	0		T	108887403	T	T	108887403	3	4	4	1	0	0	0	0	1	0	0	0	179	884	31	1	148	1	ACSL4	23	108887403	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	168308	108887403	46383157	4434	6400											
RGAG1	57529	broad.mit.edu	37	chrX	109695400	109695400	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaccagttacggcaacaGcctctgaaacaatgtccatg	13	7	7	14	1	1	1	0	1	1	0	2	1	2	1	4	1	5	2	4	1	5	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:109695400G>T	uc004eor.1	+	3	1801	c.1555G>T	c.(1555-1557)GCC>TCC	p.A519S	RGAG1_uc011msr.1_Missense_Mutation_p.A519S	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	519										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TACGGCAACAGCCTCTGAAAC	0.512													78	64					3.99893e-49	4.39638e-49	0.00361	1	0		T	109695400	T	T	109695400	3	4	4	1	0	0	0	0	1	0	0	0	13299	971	34	5	1557	5	RGAG1	23	109695400	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	807997	109695400	45575160	4435	6401											
RGAG1	57529	broad.mit.edu	37	chrX	109696693	109696693	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggtctctggagggatgTccaagccattaatgagagcc	10	9	12	10	0	1	1	0	1	1	1	3	4	2	3	4	3	2	0	4	3	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:109696693T>C	uc004eor.1	+	3	3094	c.2848T>C	c.(2848-2850)TCC>CCC	p.S950P	RGAG1_uc011msr.1_Missense_Mutation_p.S950P	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	950										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TGGAGGGATGTCCAAGCCATT	0.512													7	77					0	0	0.001855	0	0		C	109696693	C	C	109696693	3	2	4	1	0	0	0	0	1	0	0	0	13299	1667	58	3	2850	3	RGAG1	23	109696693	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1293	109696693	45573867	4436	6402											
ZCCHC16	340595	broad.mit.edu	37	chrX	111698834	111698834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcacttcacaagagattGccttgccaaacgttctcgag	10	11	9	11	2	3	1	2	0	1	1	4	3	3	1	2	1	3	1	2	1	2	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:111698834G>A	uc004epo.1	+	3	1319	c.878G>A	c.(877-879)TGC>TAC	p.C293Y		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	293	CCHC-type.						nucleic acid binding|zinc ion binding			ovary(1)	1						ACAAGAGATTGCCTTGCCAAA	0.517													6	35					0	0	0.001984	0	0		A	111698834	A	A	111698834	3	1	4	1	0	0	0	0	1	0	0	0	17609	1319	46	2	880	2	ZCCHC16	23	111698834	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	2002141	111698834	43571726	4437	6403											
LUZP4	51213	broad.mit.edu	37	chrX	114536676	114536676	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatcaaaagctcatagacatCgccatcggagaggtaaagta	17	7	9	8	2	2	2	2	0	0	2	4	3	2	2	1	2	1	3	1	2	7	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:114536676C>T	uc004eqa.2	+	2	245	c.211C>T	c.(211-213)CGC>TGC	p.R71C	LUZP4_uc004eqb.2_Silent_p.I28I	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	71						nucleus				ovary(2)	2						TCATAGACATCGCCATCGGAG	0.348													104	94					0	0	0.00361	0	0		T	114536676	T	T	114536676	3	4	4	1	0	0	0	0	1	0	0	0	9106	884	31	1	217	1	LUZP4	23	114536676	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2837842	114536676	40733884	4438	6404											
LUZP4	51213	broad.mit.edu	37	chrX	114537928	114537928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaaaaccatcccaaaaacCttctggattcaagtctggac	16	9	5	11	0	3	0	1	0	2	0	4	2	4	2	3	2	2	0	3	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:114537928C>T	uc004eqa.2	+	3	321	c.287C>T	c.(286-288)CCT>CTT	p.P96L	LUZP4_uc004eqb.2_Intron	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	96						nucleus				ovary(2)	2						TCCCAAAAACCTTCTGGATTC	0.338													4	97					0	0	0.001168	0	0		T	114537928	T	T	114537928	3	4	4	1	0	0	0	0	1	0	0	0	9106	681	24	4	297	4	LUZP4	23	114537928	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1252	114537928	40732632	4439	6405											
LUZP4	51213	broad.mit.edu	37	chrX	114540908	114540908	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaaaatcatcattctgagCgatcccgaaaccacttagag	16	8	7	10	2	3	3	2	1	1	2	4	5	4	3	2	0	2	0	2	0	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:114540908C>T	uc004eqa.2	+	4	515	c.481C>T	c.(481-483)CGA>TGA	p.R161*	LUZP4_uc004eqb.2_Nonsense_Mutation_p.R79*	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	161						nucleus				ovary(2)	2						TCATTCTGAGCGATCCCGAAA	0.463													53	55					0	0	0.00361	0	0		T	114540908	T	T	114540908	4	4	4	1	0	0	0	0	0	1	0	0	9106	760	27	1	495	1	LUZP4	23	114540908	Nonsense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2980	114540908	40729652	4440	6406											
PLS3	5358	broad.mit.edu	37	chrX	114877715	114877715	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacccctgctgatgttgtcAgtggaaaccccaaactcaac	11	10	7	13	0	2	1	2	1	0	0	2	2	2	2	4	1	5	2	4	1	4	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:114877715A>G	uc004eqd.2	+	10	1468	c.1078A>G	c.(1078-1080)AGT>GGT	p.S360G	PLS3_uc010nqg.2_Missense_Mutation_p.S142G|PLS3_uc011mtf.1_Missense_Mutation_p.S347G|PLS3_uc004eqe.2_Missense_Mutation_p.S360G|PLS3_uc011mtg.1_Missense_Mutation_p.S333G|PLS3_uc011mth.1_Missense_Mutation_p.S315G|PLS3_uc011mti.1_Missense_Mutation_p.S36G|PLS3_uc011mtj.1_Intron|PLS3_uc011mtk.1_Missense_Mutation_p.S21G|PLS3_uc011mtl.1_RNA	NM_005032	NP_005023	P13797	PLST_HUMAN	plastin 3	360	CH 2.|Actin-binding 1.					cytoplasm	actin binding|calcium ion binding			lung(1)|breast(1)	2						TGATGTTGTCAGTGGAAACCC	0.413													36	31					0	0	0.005524	0	0		G	114877715	G	G	114877715	3	3	4	1	0	0	0	0	1	0	0	0	12127	188	7	3	1112	3	PLS3	23	114877715	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	336807	114877715	40392845	4441	6407											
AGTR2	186	broad.mit.edu	37	chrX	115303556	115303556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaagggcaactccacccttgCcactactagcaaaaacatta	15	7	6	13	0	0	0	0	0	0	0	1	1	1	0	3	1	5	2	3	1	7	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:115303556C>T	uc004eqh.3	+	3	230	c.23C>T	c.(22-24)GCC>GTC	p.A8V		NM_000686	NP_000677	P50052	AGTR2_HUMAN	angiotensin II receptor, type 2	8	Extracellular (Potential).				behavior|blood vessel remodeling|brain development|G-protein signaling, coupled to cGMP nucleotide second messenger|intracellular protein kinase cascade|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of heart rate|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of nitric-oxide synthase activity|positive regulation of phosphoprotein phosphatase activity|positive regulation of vasodilation|regulation of systemic arterial blood pressure by circulatory renin-angiotensin		angiotensin type II receptor activity|receptor antagonist activity			ovary(2)|lung(1)	3						TCCACCCTTGCCACTACTAGC	0.433													10	40					0	0	0.008291	0	0		T	115303556	T	T	115303556	3	4	4	1	0	0	0	0	1	0	0	0	402	739	26	2	25	2	AGTR2	23	115303556	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	425841	115303556	39967004	4442	6408											
DOCK11	139818	broad.mit.edu	37	chrX	117722426	117722426	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggattcagatgaaagtgaCgctagtgccctaaaggtttg	11	10	13	7	2	1	3	1	2	0	1	1	4	1	4	1	2	1	2	1	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:117722426C>T	uc004eqp.2	+	18	2094	c.2031C>T	c.(2029-2031)GAC>GAT	p.D677D	DOCK11_uc004eqq.2_Silent_p.D443D	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	677	DHR-1.				blood coagulation	cytosol	GTP binding			ovary(3)	3						ATGAAAGTGACGCTAGTGCCC	0.353													48	34					0	0	0.00361	0	0		T	117722426	T	T	117722426	2	4	4	1	0	0	0	0	0	0	0	1	4692	535	19	1		1	DOCK11	23	117722426	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2418870	117722426	37548134	4443	6409											
DOCK11	139818	broad.mit.edu	37	chrX	117773400	117773400	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaaaatttattttagggTgcatgatgcctggctgtcaa	10	16	9	6	0	1	1	1	1	0	0	1	1	1	1	1	2	2	2	1	2	5	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:117773400T>C	uc004eqp.2	+	38	4067	c.4004T>C	c.(4003-4005)GTG>GCG	p.V1335A	DOCK11_uc004eqq.2_Missense_Mutation_p.V1114A	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1335					blood coagulation	cytosol	GTP binding			ovary(3)	3						TATTTTAGGGTGCATGATGCC	0.388													8	41					0	0	0.006214	0	0		C	117773400	C	C	117773400	3	2	4	1	0	0	0	0	1	0	0	0	4692	1696	59	3	4154	3	DOCK11	23	117773400	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	50974	117773400	37497160	4444	6410											
NKRF	55922	broad.mit.edu	37	chrX	118723342	118723342	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttgaggcataacaagctcGtaatggcccacttggccttc	9	10	10	12	1	0	1	0	1	0	0	2	1	0	1	2	3	2	4	2	3	3	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:118723342G>A	uc004erq.2	-	2	2699	c.2046C>T	c.(2044-2046)TAC>TAT	p.Y682Y	NKRF_uc004err.2_Silent_p.Y682Y	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	682					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2						TAACAAGCTCGTAATGGCCCA	0.418													7	43					0	0	0.001984	0	0		A	118723342	A	A	118723342	2	1	4	1	0	0	0	0	0	0	0	1	10466	1140	40	1		1	NKRF	23	118723342	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	949942	118723342	36547218	4445	6411											
FAM70A	55026	broad.mit.edu	37	chrX	119419030	119419030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaggtgttgccccggatgCgaggtgtgcagaattcacgg	8	8	16	9	3	1	1	1	0	0	1	1	3	1	2	2	4	4	3	2	4	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:119419030C>T	uc004eso.3	-	7	763	c.536G>A	c.(535-537)CGC>CAC	p.R179H	FAM70A_uc004esp.3_Missense_Mutation_p.R155H|FAM70A_uc010nqo.2_Intron	NM_017938	NP_060408	Q5JRV8	FA70A_HUMAN	hypothetical protein LOC55026 isoform 1	179						integral to membrane				lung(1)|breast(1)	2						GCCCCGGATGCGAGGTGTGCA	0.532													27	76					0	0	0.005443	0	0		T	119419030	T	T	119419030	3	4	4	1	0	0	0	0	1	0	0	0	5619	768	27	1	529	1	FAM70A	23	119419030	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	695688	119419030	35851530	4446	6412											
ATP1B4	23439	broad.mit.edu	37	chrX	119504981	119504981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttatgatcagacccttcGcccatagccttaacttcaac	11	11	6	13	1	2	2	2	1	0	1	3	3	2	2	3	0	3	1	3	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:119504981G>A	uc004esr.2	+	4	562	c.478G>A	c.(478-480)GCC>ACC	p.A160T	ATP1B4_uc004esq.2_Missense_Mutation_p.A156T|ATP1B4_uc011mtx.1_Missense_Mutation_p.A125T|ATP1B4_uc011mty.1_Missense_Mutation_p.A117T	NM_001142447	NP_001135919	Q9UN42	AT1B4_HUMAN	ATPase, (Na+)/K+ transporting, beta 4	160	Perinuclear space (Potential).				ATP biosynthetic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to plasma membrane|nuclear inner membrane	sodium:potassium-exchanging ATPase activity			ovary(1)|skin(1)	2						CAGACCCTTCGCCCATAGCCT	0.403													10	59					0	0	0.008291	0	0		A	119504981	A	A	119504981	3	1	4	1	0	0	0	0	1	0	0	0	1136	1087	38	1	492	1	ATP1B4	23	119504981	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	85951	119504981	35765579	4447	6413											
C1GALT1C1	29071	broad.mit.edu	37	chrX	119760637	119760637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctatacttatcaaaggCgtatttgtaagcttttctca	10	17	6	8	1	3	0	2	0	2	0	5	0	3	0	0	1	2	3	0	1	6	8			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:119760637C>T	uc004esy.2	-	3	732	c.385G>A	c.(385-387)GCC>ACC	p.A129T	C1GALT1C1_uc004esz.2_Missense_Mutation_p.A129T	NM_152692	NP_689905	Q96EU7	C1GLC_HUMAN	C1GALT1-specific chaperone 1	129	Lumenal (Potential).					integral to membrane					0						TTATCAAAGGCGTATTTGTAA	0.343													7	58					0	0	0.00308	0	0		T	119760637	T	T	119760637	3	4	4	1	0	0	0	0	1	0	0	0	1956	768	27	1	575	1	C1GALT1C1	23	119760637	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	255656	119760637	35509923	4448	6414											
GRIA3	2892	broad.mit.edu	37	chrX	122537363	122537363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcggaccatagtagtgactaCcattctggtaagtgtgaaca	12	11	10	8	1	1	2	0	2	1	0	2	3	1	3	2	2	2	2	2	2	5	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:122537363C>T	uc004etq.3	+	10	1579	c.1286C>T	c.(1285-1287)ACC>ATC	p.T429I	GRIA3_uc004etr.3_Missense_Mutation_p.T429I|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.T413I	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	429	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	GTAGTGACTACCATTCTGGTA	0.438													8	113					0	0	0.00308	0	0		T	122537363	T	T	122537363	3	4	4	1	0	0	0	0	1	0	0	0	6785	507	18	4	1320	4	GRIA3	23	122537363	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	2776726	122537363	32733197	4449	6415											
THOC2	57187	broad.mit.edu	37	chrX	122757719	122757719	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcttctttccaaagcttgaCccagattcaaaacttttggg	10	14	6	11	0	3	2	1	1	2	1	4	2	4	2	2	1	2	1	2	1	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:122757719C>G	uc004etu.2	-	28	3454	c.3422G>C	c.(3421-3423)GGT>GCT	p.G1141A	THOC2_uc010nqt.1_5'Flank|THOC2_uc004etw.1_5'Flank	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1141					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						CAAAGCTTGACCCAGATTCAA	0.368													3	72					0	0	0.009096	0	0		G	122757719	G	G	122757719	3	3	4	1	0	0	0	0	1	0	0	0	15890	507	18	5	1403	5	THOC2	23	122757719	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	220356	122757719	32512841	4450	6416											
STAG2	10735	broad.mit.edu	37	chrX	123185030	123185030	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctttattataacaaagaGcttaattccaaactggaact	15	12	7	7	0	0	1	0	0	0	1	1	2	1	2	1	2	4	2	1	2	7	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:123185030G>A	uc004etz.3	+	11	1416	c.1077G>A	c.(1075-1077)GAG>GAA	p.E359E	STAG2_uc004eua.2_Silent_p.E359E|STAG2_uc004eub.2_Silent_p.E359E|STAG2_uc004euc.2_Silent_p.E359E|STAG2_uc004eud.2_Silent_p.E359E|STAG2_uc004eue.2_Silent_p.E359E	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	359	SCD.				cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						ATAACAAAGAGCTTAATTCCA	0.299													16	16					0	0	0.010504	0	0		A	123185030	A	A	123185030	2	1	4	1	0	0	0	0	0	0	0	1	15268	962	34	2		2	STAG2	23	123185030	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	427311	123185030	32085530	4451	6417											
STAG2	10735	broad.mit.edu	37	chrX	123229279	123229279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctgatttctttgatccaGcttcaattatggatgaatca	11	15	7	8	0	3	3	2	3	1	0	4	4	4	4	2	1	2	1	2	1	3	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:123229279G>A	uc004etz.3	+	32	3991	c.3652G>A	c.(3652-3654)GCT>ACT	p.A1218T	STAG2_uc004eua.2_Missense_Mutation_p.A1255T|STAG2_uc004eub.2_Missense_Mutation_p.A1218T|STAG2_uc004euc.2_Missense_Mutation_p.A1255T|STAG2_uc004eud.2_Missense_Mutation_p.A1218T|STAG2_uc004eue.2_Missense_Mutation_p.A1218T	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	1218					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						CTTTGATCCAGCTTCAATTAT	0.373													25	31					0	0	0.005443	0	0		A	123229279	A	A	123229279	3	1	4	1	0	0	0	0	1	0	0	0	15268	971	34	2	3889	2	STAG2	23	123229279	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	44249	123229279	32041281	4452	6418											
ODZ1	10178	broad.mit.edu	37	chrX	123514894	123514894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtaggttttccaggtaatggGcattattgagaatggcagca	11	12	13	5	0	0	1	0	1	0	1	1	2	1	1	1	4	1	6	1	4	4	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:123514894G>A	uc004euj.2	-	31	7734	c.7670C>T	c.(7669-7671)GCC>GTC	p.A2557V	ODZ1_uc011muj.1_Missense_Mutation_p.A2563V|ODZ1_uc010nqy.2_Missense_Mutation_p.A2564V	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2557	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CAGGTAATGGGCATTATTGAG	0.443													5	44					0	0	0.001168	0	0		A	123514894	A	A	123514894	3	1	4	1	0	0	0	0	1	0	0	0	10853	1203	42	2	511	2	ODZ1	23	123514894	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	285615	123514894	31755666	4453	6419											
ODZ1	10178	broad.mit.edu	37	chrX	123517988	123517988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctaggctggacttactcgCgacacgtcgcccaagcccat	8	7	9	17	4	0	0	0	0	0	0	2	2	0	1	3	2	2	1	3	2	3	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:123517988C>T	uc004euj.2	-	29	6836	c.6772G>A	c.(6772-6774)GCG>ACG	p.A2258T	ODZ1_uc011muj.1_Missense_Mutation_p.A2264T|ODZ1_uc010nqy.2_Missense_Mutation_p.A2265T	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2258	YD 21.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding	p.A2260T(1)		ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GACTTACTCGCGACACGTCGC	0.458													33	45					0	0	0.004878	0	0		T	123517988	T	T	123517988	3	4	4	1	0	0	0	0	1	0	0	0	10853	768	27	1	1417	1	ODZ1	23	123517988	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3094	123517988	31752572	4454	6420											
ODZ1	10178	broad.mit.edu	37	chrX	123539084	123539084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtgacacgcagggaaccatCtggattcacccgataggtac	12	7	11	11	2	2	1	1	1	1	0	2	4	2	3	2	3	2	2	2	3	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:123539084C>T	uc004euj.2	-	26	5231	c.5167G>A	c.(5167-5169)GAT>AAT	p.D1723N	ODZ1_uc011muj.1_Missense_Mutation_p.D1729N|ODZ1_uc010nqy.2_Missense_Mutation_p.D1730N	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1723	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						AGGGAACCATCTGGATTCACC	0.542													7	27					0	0	0.00308	0	0		T	123539084	T	T	123539084	3	4	4	1	0	0	0	0	1	0	0	0	10853	913	32	4	3034	4	ODZ1	23	123539084	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	21096	123539084	31731476	4455	6421											
ODZ1	10178	broad.mit.edu	37	chrX	123556366	123556366	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcacctggcagtgaatgggGcgtcctgcgatgatccgaac	8	7	15	11	3	0	2	0	2	0	0	2	4	2	2	3	4	2	2	3	4	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:123556366G>T	uc004euj.2	-	23	4270	c.4206C>A	c.(4204-4206)CGC>CGA	p.R1402R	ODZ1_uc011muj.1_Silent_p.R1408R|ODZ1_uc010nqy.2_Silent_p.R1409R	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1402	NHL 3.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						AGTGAATGGGGCGTCCTGCGA	0.493													31	26					3.1745e-13	3.44503e-13	0.008361	1	0		T	123556366	T	T	123556366	2	4	4	1	0	0	0	0	0	0	0	1	10853	1190	42	5		5	ODZ1	23	123556366	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	17282	123556366	31714194	4456	6422											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299778	125299778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgcgacgcgtcgccggccGcttctgcttcttgggtagca	3	10	13	15	6	2	0	0	0	2	0	3	1	2	0	3	2	3	4	3	2	1	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:125299778G>A	uc004euk.1	-	1	157	c.130C>T	c.(130-132)CGG>TGG	p.R44W		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	44										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						GTCGCCGGCCGCTTCTGCTTC	0.731													3	5					0	0	0.009096	0	0		A	125299778	A	A	125299778	3	1	4	1	0	0	0	0	1	0	0	0	4268	1086	38	1	1265	1	DCAF12L2	23	125299778	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1743412	125299778	29970782	4457	6423											
DCAF12L1	139170	broad.mit.edu	37	chrX	125686328	125686328	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagctccagttggcgctcCgtcagcagctcgggcagcct	5	7	12	17	3	1	0	1	0	0	0	4	0	3	0	4	2	4	6	4	2	0	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:125686328C>A	uc004eul.2	-	1	515	c.264G>T	c.(262-264)ACG>ACT	p.T88T		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	88										skin(3)|ovary(1)	4						GTTGGCGCTCCGTCAGCAGCT	0.657													11	4					9.31168e-06	9.82941e-06	0.001855	1	0		A	125686328	A	A	125686328	2	1	4	1	0	0	0	0	0	0	0	1	4267	639	23	5		5	DCAF12L1	23	125686328	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	386550	125686328	29584232	4458	6424											
OCRL	4952	broad.mit.edu	37	chrX	128696607	128696607	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggtagctgtgagatttgTatttcacaacaccacctttt	9	15	9	8	0	1	1	1	1	0	1	1	2	1	1	2	2	2	3	2	2	3	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:128696607T>C	uc004euq.2	+	12	1253	c.1088T>C	c.(1087-1089)GTA>GCA	p.V363A	OCRL_uc004eur.2_Missense_Mutation_p.V363A	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	363					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						GTGAGATTTGTATTTCACAAC	0.393													8	81					0	0	0.004482	0	0		C	128696607	C	C	128696607	3	2	4	1	0	0	0	0	1	0	0	0	10842	1638	57	3	1134	3	OCRL	23	128696607	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	3010279	128696607	26573953	4459	6425											
OCRL	4952	broad.mit.edu	37	chrX	128718327	128718327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctccgctctcaggaagaaGacagcttcctagaaaaggta	13	8	10	10	1	1	3	1	0	1	3	4	4	3	4	2	2	2	4	2	2	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:128718327G>A	uc004euq.2	+	19	2287	c.2122G>A	c.(2122-2124)GAC>AAC	p.D708N	OCRL_uc004eur.2_Intron	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	708					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TCAGGAAGAAGACAGCTTCCT	0.393													6	58					0	0	0.001168	0	0		A	128718327	A	A	128718327	3	1	4	1	0	0	0	0	1	0	0	0	10842	942	33	4	2196	4	OCRL	23	128718327	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	21720	128718327	26552233	4460	6426											
RBMX2	51634	broad.mit.edu	37	chrX	129546424	129546424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctcttcgtcacccagaCgcaagacagtaaaggaaaag	15	6	8	12	2	2	2	1	0	1	2	4	3	3	3	2	1	0	2	2	1	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:129546424C>T	uc004evt.2	+	6	635	c.571C>T	c.(571-573)CGC>TGC	p.R191C		NM_016024	NP_057108	Q9Y388	RBMX2_HUMAN	RNA binding motif protein, X-linked 2	191	Lys-rich.						nucleotide binding|RNA binding			breast(3)|ovary(1)	4						GTCACCCAGACGCAAGACAGT	0.448													19	40					0	0	0.002299	0	0		T	129546424	T	T	129546424	3	4	4	1	0	0	0	0	1	0	0	0	13177	536	19	1	593	1	RBMX2	23	129546424	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	828097	129546424	25724136	4461	6427											
RBMX2	51634	broad.mit.edu	37	chrX	129546773	129546773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggcataaaagggcccgacGctcccgggagcgggagtctt	9	6	15	11	4	1	0	0	0	1	0	2	3	2	2	2	4	1	2	2	4	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:129546773G>A	uc004evt.2	+	6	984	c.920G>A	c.(919-921)CGC>CAC	p.R307H		NM_016024	NP_057108	Q9Y388	RBMX2_HUMAN	RNA binding motif protein, X-linked 2	307	Arg-rich.			SSDAHSSWYNGRSEGRSYRSRSRSRDKSHRHKRARRSRERE SSNPSDRWRH -> LQMHILAGIMGVLKGVVIEVEVGAEIN PIGIKGPDAPGRGVLRIPVTVGVTEDFSCTVDLEIIMFFKC SQIQLGGYYFCI (in Ref. 1; AAD34074).			nucleotide binding|RNA binding			breast(3)|ovary(1)	4						AGGGCCCGACGCTCCCGGGAG	0.473													13	14					0	0	0.010504	0	0		A	129546773	A	A	129546773	3	1	4	1	0	0	0	0	1	0	0	0	13177	1087	38	1	942	1	RBMX2	23	129546773	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	349	129546773	25723787	4462	6428											
IGSF1	3547	broad.mit.edu	37	chrX	130415705	130415705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaggatgtgtctctacgCgatagctgcaactgtaggtc	8	13	12	8	2	1	0	0	0	1	0	3	2	1	1	0	2	4	4	0	2	5	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:130415705C>T	uc004ewd.2	-	8	1698	c.1460G>A	c.(1459-1461)CGC>CAC	p.R487H	IGSF1_uc004ewe.3_Missense_Mutation_p.R476H|IGSF1_uc004ewf.2_Missense_Mutation_p.R467H	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	487	Extracellular (Potential).|Ig-like C2-type 5.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						TGTCTCTACGCGATAGCTGCA	0.493													5	48					0	0	0.001984	0	0		T	130415705	T	T	130415705	3	4	4	1	0	0	0	0	1	0	0	0	7612	768	27	1	2617	1	IGSF1	23	130415705	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	868932	130415705	24854855	4463	6429											
ZNF75D	7626	broad.mit.edu	37	chrX	134421741	134421741	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgatgtagaaacagatatAggatgatcatttccagtgtc	13	13	9	6	0	2	4	1	2	1	2	4	5	3	5	1	1	1	1	1	1	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:134421741A>C	uc004eyp.2	-	7	3516	c.861T>G	c.(859-861)CCT>CCG	p.P287P	ZNF75D_uc004eym.2_Intron|ZNF75D_uc004eyn.2_Silent_p.P66P|ZNF75D_uc004eyo.2_Silent_p.P192P	NM_007131	NP_009062	P51815	ZN75D_HUMAN	zinc finger protein 75	287	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AAACAGATATAGGATGATCAT	0.363													11	34					0	0	0.001368	0	0		C	134421741	C	C	134421741	2	2	4	1	0	0	0	0	0	0	0	1	18159	407	15	5		5	ZNF75D	23	134421741	Silent	SNP	A	TCGA-BR-4184-01A-01D-1126-08	4006036	134421741	20848819	4464	6430											
HTATSF1	27336	broad.mit.edu	37	chrX	135593613	135593613	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatttgaagaaaatggtcTcgagaaagatttggacgagg	16	9	13	3	2	1	5	0	1	1	4	2	8	1	6	0	3	0	0	0	3	5	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:135593613T>C	uc004ezw.2	+	10	2131	c.1709T>C	c.(1708-1710)CTC>CCC	p.L570P	HTATSF1_uc004ezx.2_Missense_Mutation_p.L570P	NM_001163280	NP_001156752	O43719	HTSF1_HUMAN	HIV-1 Tat specific factor 1	570	Asp/Glu-rich (acidic).|Mediates interaction with the P-TEFb complex.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|viral genome replication	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GAAAATGGTCTCGAGAAAGAT	0.388													10	82					0	0	0.008291	0	0		C	135593613	C	C	135593613	3	2	4	1	0	0	0	0	1	0	0	0	7449	1551	54	3	1743	3	HTATSF1	23	135593613	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	1171872	135593613	19676947	4465	6431											
F9	2158	broad.mit.edu	37	chrX	138644001	138644001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccacatgtcttcgatctaCaaagttcaccatctataaca	14	11	4	12	1	4	0	1	0	3	0	5	1	4	0	2	0	3	1	2	0	4	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:138644001C>T	uc004fas.1	+	8	1186	c.1157C>T	c.(1156-1158)ACA>ATA	p.T386I	F9_uc004fat.1_Missense_Mutation_p.T348I	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	386	Peptidase S1.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	CTTCGATCTACAAAGTTCACC	0.463													12	62					0	0	0.001855	0	0		T	138644001	T	T	138644001	3	4	4	1	0	0	0	0	1	0	0	0	5362	478	17	4	1187	4	F9	23	138644001	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	3050388	138644001	16626559	4466	6432											
MCF2	4168	broad.mit.edu	37	chrX	138701772	138701773	+	Frame_Shift_Ins	INS	-	T	T																															ttttcatctaagttttccaaINStttttttattttttgtttta																										TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:138701772_138701773insT	uc004fau.2	-	7	1074_1075	c.780_781insA	c.(778-783)AAATTGfs	p.K260fs	MCF2_uc004fav.2_Frame_Shift_Ins_p.K260fs|MCF2_uc011mwl.1_Frame_Shift_Ins_p.K221fs|MCF2_uc010nsh.1_Frame_Shift_Ins_p.K260fs|MCF2_uc011mwm.1_Frame_Shift_Ins_p.K221fs|MCF2_uc011mwn.1_Frame_Shift_Ins_p.K405fs|MCF2_uc004faw.2_Frame_Shift_Ins_p.K320fs|MCF2_uc011mwo.1_Frame_Shift_Ins_p.K320fs	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	260_261	Spectrin.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					AAGTTTTCCAATTTTTTTATTT	0.307													11	12	---	---	---	---						.	T	138701773	T	T	138701772	7	5	4	1	0	1	1	0	0	0	0	0	9396	98	4	0	2152	0	MCF2	23	138701772	Frame_Shift_Ins	INS	-	TCGA-BR-4184-01A-01D-1126-08	57771	138701772	16568788	4467	6433											
ATP11C	286410	broad.mit.edu	37	chrX	138844225	138844225	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactttggaacagaataatcGctattcctagctgcttggcg	11	12	9	9	2	0	1	0	0	0	1	2	2	1	2	1	2	4	3	1	2	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:138844225G>A	uc004faz.2	-	22	2643	c.2544C>T	c.(2542-2544)AGC>AGT	p.S848S	ATP11C_uc004fax.2_Silent_p.S56S|ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Silent_p.S848S	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	848	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					CAGAATAATCGCTATTCCTAG	0.363													51	70					0	0	0.00361	0	0		A	138844225	A	A	138844225	2	1	4	1	0	0	0	0	0	0	0	1	1122	1078	38	1		1	ATP11C	23	138844225	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	142453	138844225	16426335	4468	6434											
IDS	3423	broad.mit.edu	37	chrX	148564576	148564576	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acggggattaccagggaggtAcggatcctcttccaagtcac	10	8	12	11	2	2	0	1	0	1	0	4	3	4	3	3	5	2	1	3	5	3	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:148564576A>G	uc011mxe.1	-	9	1552	c.1354T>C	c.(1354-1356)TAC>CAC	p.Y452H	IDS_uc011mxd.1_Missense_Mutation_p.Y55H|IDS_uc011mxf.1_Missense_Mutation_p.Y362H|IDS_uc011mxg.1_Missense_Mutation_p.Y241H|IDS_uc010nsu.1_Missense_Mutation_p.Y62H|IDS_uc004fcw.3_Missense_Mutation_p.Y241H	NM_000202	NP_000193	P22304	IDS_HUMAN	iduronate-2-sulfatase isoform a precursor	452						lysosome	iduronate-2-sulfatase activity|metal ion binding				0	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CCAGGGAGGTACGGATCCTCT	0.502													4	54					0	0	0.000602	0	0		G	148564576	G	G	148564576	3	3	4	1	0	0	0	0	1	0	0	0	7519	391	14	3	302	3	IDS	23	148564576	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	9720351	148564576	6705984	4469	6435											
MAGEA8	4107	broad.mit.edu	37	chrX	149013852	149013852	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcgcccggcagtgatcCtgtgcgctacgagttcctgt	5	9	13	14	4	0	1	0	1	0	0	2	2	2	1	4	2	2	3	4	2	1	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:149013852C>A	uc004fdw.1	+	3	1021	c.806C>A	c.(805-807)CCT>CAT	p.P269H		NM_005364	NP_005355	P43361	MAGA8_HUMAN	melanoma antigen family A, 8	269	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					GGCAGTGATCCTGTGCGCTAC	0.577													59	57					5.73332e-34	6.30182e-34	0.00361	1	0		A	149013852	A	A	149013852	3	1	4	1	0	0	0	0	1	0	0	0	9189	681	24	5	808	5	MAGEA8	23	149013852	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	449276	149013852	6256708	4470	6436											
MTMR1	8776	broad.mit.edu	37	chrX	149901140	149901140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacaataatggatgctaacGcacagtcacacaagcttatc	17	8	6	10	1	1	0	1	0	0	0	2	1	1	1	0	1	4	3	0	1	6	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:149901140G>A	uc004fei.2	+	9	1129	c.994G>A	c.(994-996)GCA>ACA	p.A332T	MTMR1_uc011mya.1_Missense_Mutation_p.A238T|MTMR1_uc004feg.1_Missense_Mutation_p.A332T|MTMR1_uc004feh.1_Missense_Mutation_p.A340T|MTMR1_uc004fej.2_RNA|MTMR1_uc010ntf.2_RNA	NM_003828	NP_003819	Q13613	MTMR1_HUMAN	myotubularin-related protein 1	332	Myotubularin phosphatase.					plasma membrane	protein tyrosine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					GGATGCTAACGCACAGTCACA	0.423													17	20					0	0	0.007413	0	0		A	149901140	A	A	149901140	3	1	4	1	0	0	0	0	1	0	0	0	9956	1087	38	1	1028	1	MTMR1	23	149901140	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	887288	149901140	5369420	4471	6437											
GABRE	2564	broad.mit.edu	37	chrX	151123859	151123859	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catggcggagtttaggagaaGcatgggcttttgtctggttg	7	13	16	5	1	1	1	0	0	1	1	1	3	1	2	0	5	1	4	0	5	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:151123859G>T	uc004ffi.2	-	8	1172	c.1118C>A	c.(1117-1119)GCT>GAT	p.A373D	GABRE_uc011myd.1_RNA	NM_004961	NP_004952	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor,	373	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TTTAGGAGAAGCATGGGCTTT	0.498													18	58					2.5808e-16	2.8136e-16	0.006122	1	0		T	151123859	T	T	151123859	3	4	4	1	0	0	0	0	1	0	0	0	6184	971	34	5	410	5	GABRE	23	151123859	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	1222719	151123859	4146701	4472	6438											
GABRA3	2556	broad.mit.edu	37	chrX	151358341	151358341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaccagtccatggccgtcGcatatgccactttaggtaag	10	10	10	11	2	0	1	0	1	0	0	2	1	1	1	4	2	2	2	4	2	4	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:151358341G>A	uc010ntk.1	-	9	1244	c.1004C>T	c.(1003-1005)GCG>GTG	p.A335V		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	335					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CATGGCCGTCGCATATGCCAC	0.468													14	35					0	0	0.001855	0	0		A	151358341	A	A	151358341	3	1	4	1	0	0	0	0	1	0	0	0	6176	1087	38	1	482	1	GABRA3	23	151358341	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08	234482	151358341	3912219	4473	6439											
GABRQ	55879	broad.mit.edu	37	chrX	151821085	151821085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggcaagcccggaaagcCtcggttctttgacgtccacc	7	8	10	16	3	1	1	0	1	1	0	3	2	2	2	5	3	2	2	5	3	2	2			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:151821085C>T	uc004ffp.1	+	9	1260	c.1240C>T	c.(1240-1242)CTC>TTC	p.L414F		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	414						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCCGGAAAGCCTCGGTTCTTT	0.627													10	21					0	0	0.008291	0	0		T	151821085	T	T	151821085	3	4	4	1	0	0	0	0	1	0	0	0	6189	681	24	4	1274	4	GABRQ	23	151821085	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	462744	151821085	3449475	4474	6440											
CETN2	1069	broad.mit.edu	37	chrX	151998218	151998218	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagcttcccggatctcctgCttttgctcttcagtaagctc	7	14	7	13	1	3	0	1	0	2	0	6	1	4	1	2	1	4	5	2	1	2	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:151998218C>T	uc004fgq.2	-	2	137	c.90G>A	c.(88-90)AAG>AAA	p.K30K	CETN2_uc004fgr.2_5'UTR|NSDHL_uc004fgt.1_5'Flank|NSDHL_uc004fgs.1_5'Flank	NM_004344	NP_004335	P41208	CETN2_HUMAN	caltractin	30	EF-hand 1.				cell division|centriole replication|G2/M transition of mitotic cell cycle|mitosis|nucleotide-excision repair|regulation of cytokinesis	centriole|cytosol|XPC complex	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					GGATCTCCTGCTTTTGCTCTT	0.453								Direct_reversal_of_damage|NER					9	48					0	0	0.008291	0	0		T	151998218	T	T	151998218	2	4	4	1	0	0	0	0	0	0	0	1	3278	796	28	2		2	CETN2	23	151998218	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	177133	151998218	3272342	4475	6441											
NSDHL	50814	broad.mit.edu	37	chrX	152034374	152034374	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctccaggcagttctgggCgccaacgatcctgagaagaa	10	7	11	13	2	1	2	0	1	1	2	4	4	4	2	4	2	1	2	4	2	3	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:152034374C>T	uc004fgt.1	+	7	816	c.555C>T	c.(553-555)GGC>GGT	p.G185G	NSDHL_uc004fgs.1_Silent_p.G185G	NM_001129765	NP_001123237	Q15738	NSDHL_HUMAN	NAD(P) dependent steroid dehydrogenase-like	185					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity|sterol-4-alpha-carboxylate 3-dehydrogenase (decarboxylating) activity				0	Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	CAGTTCTGGGCGCCAACGATC	0.582													9	54					0	0	0.008291	0	0		T	152034374	T	T	152034374	2	4	4	1	0	0	0	0	0	0	0	1	10689	755	27	1		1	NSDHL	23	152034374	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	36156	152034374	3236186	4476	6442											
IDH3G	3421	broad.mit.edu	37	chrX	153053556	153053556	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgttgtttcgagatttgtgCgacggtggcaggttatggtt	6	16	15	4	3	0	1	0	0	0	1	1	3	0	1	0	4	1	5	0	4	1	5			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:153053556C>T	uc004fip.2	-	6	567	c.381G>A	c.(379-381)TCG>TCA	p.S127S	IDH3G_uc004fio.2_Silent_p.S69S|IDH3G_uc004fiq.2_Silent_p.S127S|IDH3G_uc010num.2_Silent_p.S69S|IDH3G_uc004fir.2_Silent_p.S69S|IDH3G_uc004fit.1_Silent_p.S127S|IDH3G_uc004fis.2_Silent_p.S69S|IDH3G_uc004fiu.2_5'Flank	NM_004135	NP_004126	P51553	IDH3G_HUMAN	isocitrate dehydrogenase 3 (NAD+) gamma isoform	127					carbohydrate metabolic process|isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleolus	ATP binding|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	GAGATTTGTGCGACGGTGGCA	0.592													51	63					0	0	0.00361	0	0		T	153053556	T	T	153053556	2	4	4	1	0	0	0	0	0	0	0	1	7514	755	27	1		1	IDH3G	23	153053556	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	1019182	153053556	2217004	4477	6443											
IRAK1	3654	broad.mit.edu	37	chrX	153282484	153282484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacccagaaggatgtccagtCgctgaggccaggagagaggt	11	6	15	9	1	0	3	0	1	0	2	2	6	1	5	3	4	1	1	3	4	2	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:153282484C>T	uc004fjs.1	-	8	1023	c.944G>A	c.(943-945)CGA>CAA	p.R315Q	IRAK1_uc004fjr.1_Missense_Mutation_p.R315Q|IRAK1_uc004fjt.1_Missense_Mutation_p.R315Q|IRAK1_uc010nur.2_Intron|IRAK1_uc004fju.2_Missense_Mutation_p.R341Q	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	315	Protein kinase.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GATGTCCAGTCGCTGAGGCCA	0.542													20	19					0	0	0.002299	0	0		T	153282484	T	T	153282484	3	4	4	1	0	0	0	0	1	0	0	0	7837	884	31	1	1222	1	IRAK1	23	153282484	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	228928	153282484	1988076	4478	6444											
PLXNA3	55558	broad.mit.edu	37	chrX	153689070	153689070	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacttccccaccttgagcTcccgcaagctcatcagtgat	9	10	7	15	1	2	2	2	2	0	0	4	2	4	2	4	0	3	4	4	0	2	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:153689070T>G	uc004flm.2	+	2	720	c.547T>G	c.(547-549)TCC>GCC	p.S183A		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	183	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CACCTTGAGCTCCCGCAAGCT	0.602													5	58					0	0	0.001168	0	0		G	153689070	G	G	153689070	3	3	4	1	0	0	0	0	1	0	0	0	12140	1551	54	5	549	5	PLXNA3	23	153689070	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	406586	153689070	1581490	4479	6445											
PLXNA3	55558	broad.mit.edu	37	chrX	153697254	153697254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgccatcacgggcgaggCacgatactccctgagcgagg	9	6	14	12	4	1	2	1	2	0	0	2	5	2	2	2	3	3	1	2	3	1	1			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:153697254C>T	uc004flm.2	+	25	4549	c.4376C>T	c.(4375-4377)GCA>GTA	p.A1459V		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1459	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ACGGGCGAGGCACGATACTCC	0.617													17	29					0	0	0.007413	0	0		T	153697254	T	T	153697254	3	4	4	1	0	0	0	0	1	0	0	0	12140	710	25	2	4470	2	PLXNA3	23	153697254	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	8184	153697254	1573306	4480	6446											
H2AFB1	474382	broad.mit.edu	37	chrX	154113536	154113536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaaggtcccggagctggCgggcaacgaggcccagaaca	10	2	16	13	3	0	1	0	0	0	1	1	3	1	2	3	6	3	2	3	6	3	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:154113536C>T	uc004fmu.2	+	1	220	c.212C>T	c.(211-213)GCG>GTG	p.A71V	F8_uc004fmt.2_Intron|F8_uc004fms.2_Intron|F8A1_uc004fmv.2_5'Flank	NM_080720	NP_542451	P0C5Y9	H2AB1_HUMAN	H2A histone family, member B3	71					nucleosome assembly	nucleosome|nucleus	DNA binding				0	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CCGGAGCTGGCGGGCAACGAG	0.627													20	24					0	0	0.007291	0	0		T	154113536	T	T	154113536	3	4	4	1	0	0	0	0	1	0	0	0	6940	768	27	1	214	1	H2AFB1	23	154113536	Missense_Mutation	SNP	C	TCGA-BR-4184-01A-01D-1126-08	416282	154113536	1157024	4481	6447											
F8	2157	broad.mit.edu	37	chrX	154159120	154159120	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactctctgttgacgatacaTtttttccccatgaactttct	8	17	4	12	1	2	2	0	2	2	0	4	3	3	2	2	0	2	1	2	0	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:154159120T>C	uc004fmt.2	-	14	3116	c.2945A>G	c.(2944-2946)AAT>AGT	p.N982S		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	982	B.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TGACGATACATTTTTTCCCCA	0.373													5	66					0	0	0.001168	0	0		C	154159120	C	C	154159120	3	2	4	1	0	0	0	0	1	0	0	0	5358	1493	52	3	4190	3	F8	23	154159120	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	45584	154159120	1111440	4482	6448											
TMLHE	55217	broad.mit.edu	37	chrX	154754277	154754277	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatcaaagcgcatcacggtAttagcatatttcagctctag	13	12	7	9	2	4	0	3	0	1	0	4	0	4	0	0	1	3	4	0	1	6	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:154754277A>T	uc004fnn.2	-	3	364	c.198T>A	c.(196-198)AAT>AAA	p.N66K	TMLHE_uc004fno.2_Missense_Mutation_p.N66K|TMLHE_uc004fnp.3_Missense_Mutation_p.N66K	NM_018196	NP_060666	Q9NVH6	TMLH_HUMAN	trimethyllysine hydroxylase, epsilon	66				N -> D (in Ref. 3; CAG33546).	carnitine biosynthetic process	mitochondrial matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|trimethyllysine dioxygenase activity			ovary(1)	1	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Succinic acid(DB00139)|Vitamin C(DB00126)	GCATCACGGTATTAGCATATT	0.428													14	65					0	0	0.006122	0	0		T	154754277	T	T	154754277	3	4	4	1	0	0	0	0	1	0	0	0	16257	446	16	5	1231	5	TMLHE	23	154754277	Missense_Mutation	SNP	A	TCGA-BR-4184-01A-01D-1126-08	595157	154754277	516283	4483	6449											
SPRY3	10251	broad.mit.edu	37	chrX	155003998	155003998	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatgtgggcgctgcaagtgCgtcccctgcacagcagctcg	7	7	14	13	3	0	0	0	0	0	0	2	1	1	0	2	1	5	5	2	1	2	0			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:155003998C>T	uc004fnq.1	+	2	919	c.465C>T	c.(463-465)TGC>TGT	p.C155C	SPRY3_uc010nvl.1_Intron	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	155	SPR.|Cys-rich.				multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GCTGCAAGTGCGTCCCCTGCA	0.592													8	54					0	0	0.000978	0	0		T	155003998	T	T	155003998	2	4	4	1	0	0	0	0	0	0	0	1	15132	776	27	1		1	SPRY3	23	155003998	Silent	SNP	C	TCGA-BR-4184-01A-01D-1126-08	249721	155003998	266562	4484	6450											
VAMP7	6845	broad.mit.edu	37	chrX	155169438	155169438	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacctcaagctcactattaTcatcatcatcgtatcaattg	13	13	4	11	1	6	0	6	0	0	0	7	1	6	0	1	0	2	2	1	0	6	4			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:155169438T>A	uc004fnr.2	+	7	749	c.575T>A	c.(574-576)ATC>AAC	p.I192N	VAMP7_uc004fnt.2_Missense_Mutation_p.I151N|VAMP7_uc011naa.1_Missense_Mutation_p.I153N|VAMP7_uc011nab.1_Missense_Mutation_p.I91N|VAMP7_uc004fns.2_Nonsense_Mutation_p.Y169*|VAMP7_uc011nac.1_Missense_Mutation_p.I125N	NM_005638	NP_005629	P51809	VAMP7_HUMAN	vesicle-associated membrane protein 7 isoform 1	192	Helical; Anchor for type IV membrane protein; (Potential).				calcium ion-dependent exocytosis|endosome to lysosome transport|eosinophil degranulation|ER to Golgi vesicle-mediated transport|neutrophil degranulation|phagocytosis, engulfment|post-Golgi vesicle-mediated transport|protein transport|vesicle fusion	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|phagocytic vesicle membrane|plasma membrane|SNARE complex|transport vesicle membrane	protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CTCACTATTATCATCATCATC	0.338													5	159					0	0	0.001168	0	0		A	155169438	A	A	155169438	3	1	4	1	0	0	0	0	1	0	0	0	17143	1445	50	5	597	5	VAMP7	23	155169438	Missense_Mutation	SNP	T	TCGA-BR-4184-01A-01D-1126-08	165440	155169438	101122	4485	6451											
ZFY	7544	broad.mit.edu	37	chrY	2847736	2847736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacccatttgttctaagtcGccatattctctcagttcaca	10	14	5	12	1	4	1	2	0	2	1	6	1	4	1	2	0	0	2	2	0	2	6			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrY:2847736G>A	uc004fqj.2	+	8	2429	c.2108G>A	c.(2107-2109)CGC>CAC	p.R703H	ZFY_uc011nan.1_Missense_Mutation_p.R512H|ZFY_uc010nwe.2_Missense_Mutation_p.R626H	NM_003411	NP_003402	P08048	ZFY_HUMAN	zinc finger protein, Y-linked isoform 1	703	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTCTAAGTCGCCATATTCTC	0.373													30	39					0	0	0.003755	0	0		A	2847736	A	A	2847736	3	1	4	1	0	0	0	0	1	0	0	0	17687	1087	38	1	2134	1	ZFY	24	2847736	Missense_Mutation	SNP	G	TCGA-BR-4184-01A-01D-1126-08		2847736	56525830	4486	6452											
NLGN4Y	22829	broad.mit.edu	37	chrY	16952743	16952743	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accattgccgtcggggcgtcGctcctcttcctcaacatctt	5	12	8	16	4	3	0	1	0	2	0	7	0	5	0	4	2	2	1	4	2	1	3			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrY:16952743G>A	uc004ftg.2	+	6	2304	c.2052G>A	c.(2050-2052)TCG>TCA	p.S684S	NLGN4Y_uc004fte.2_Silent_p.S516S|NLGN4Y_uc011nas.1_Silent_p.S704S|NLGN4Y_uc004ftf.2_Silent_p.S377S|NLGN4Y_uc004fth.2_Silent_p.S684S	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	684	Helical; (Potential).				brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0						TCGGGGCGTCGCTCCTCTTCC	0.532													9	14					0	0	0.000978	0	0		A	16952743	A	A	16952743	2	1	4	1	0	0	0	0	0	0	0	1	10484	1074	38	1		1	NLGN4Y	24	16952743	Silent	SNP	G	TCGA-BR-4184-01A-01D-1126-08	14105007	16952743	42420823	4487	6453											
KIF1B	23095	broad.mit.edu	37	chr1	10394612	10394612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcaatctgctgtatcccGtgcccctgatccacagggtg	7	10	11	13	1	1	2	0	2	1	0	3	2	3	2	4	1	3	3	4	1	2	1			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr1:10394612G>A	uc001aqx.3	+	28	3161	c.2959G>A	c.(2959-2961)GTG>ATG	p.V987M	KIF1B_uc001aqw.3_Missense_Mutation_p.V941M|KIF1B_uc001aqy.2_Missense_Mutation_p.V961M|KIF1B_uc001aqz.2_Missense_Mutation_p.V987M|KIF1B_uc001ara.2_Missense_Mutation_p.V947M|KIF1B_uc001arb.2_Missense_Mutation_p.V973M	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	987					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		GCTGTATCCCGTGCCCCTGAT	0.512													11	144					0	0	0.013537	0	0		A	10394612	A	A	10394612	3	1	5	1	0	0	0	0	1	0	0	0	8300	1145	40	1	4408	1	KIF1B	1	10394612	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08		10394612	238856009	1	6454											
EFCAB7	84455	broad.mit.edu	37	chr1	64021086	64021086	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggttaattccttccacaActggctgtaggctgaggaaa	11	11	10	9	0	0	1	0	1	0	0	2	2	2	2	2	4	1	4	2	4	4	4			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr1:64021086A>G	uc001dbf.2	+	9	1408	c.1114A>G	c.(1114-1116)ACT>GCT	p.T372A		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	372							calcium ion binding				0						TCCTTCCACAACTGGCTGTAG	0.358													6	104					0	0	0.00308	0	0		G	64021086	G	G	64021086	3	3	5	1	0	0	0	0	1	0	0	0	4946	43	2	3	1144	3	EFCAB7	1	64021086	Missense_Mutation	SNP	A	TCGA-BR-4187-01A-01D-1126-08	53626474	64021086	185229535	2	6455											
COL11A1	1301	broad.mit.edu	37	chr1	103352525	103352525	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaatcaagaatattatcatCtgcatctgcttgcatgcctt	11	15	6	9	0	4	1	2	0	2	1	4	1	4	1	1	0	4	4	1	0	5	5			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr1:103352525C>A	uc001dul.2	-	63	5014	c.4696G>T	c.(4696-4698)GAT>TAT	p.D1566Y	COL11A1_uc001duk.2_Missense_Mutation_p.D762Y|COL11A1_uc001dum.2_Missense_Mutation_p.D1578Y|COL11A1_uc001dun.2_Missense_Mutation_p.D1527Y|COL11A1_uc009weh.2_Missense_Mutation_p.D1450Y	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1566					collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		ATATTATCATCTGCATCTGCT	0.398													11	129					0.00010058	0.000167117	0.013537	1	0		A	103352525	A	A	103352525	3	1	5	1	0	0	0	0	1	0	0	0	3670	913	32	5	744	5	COL11A1	1	103352525	Missense_Mutation	SNP	C	TCGA-BR-4187-01A-01D-1126-08	39331439	103352525	145898096	3	6456											
AMY2B	280	broad.mit.edu	37	chr1	104120221	104120221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgtgaacatcgatggcGccaaataaggtgagaatatg	13	9	13	6	2	1	2	0	2	1	1	2	4	1	2	1	3	1	0	1	3	5	2			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr1:104120221G>A	uc001duq.2	+	10	1827	c.1211G>A	c.(1210-1212)CGC>CAC	p.R404H	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.R404H|AMY2B_uc001dus.1_RNA	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	404					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		CATCGATGGCGCCAAATAAGG	0.343													18	243					0	0	0.008871	0	0		A	104120221	A	A	104120221	3	1	5	1	0	0	0	0	1	0	0	0	595	1087	38	1	1241	1	AMY2B	1	104120221	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08	767696	104120221	145130400	4	6457											
TNN	63923	broad.mit.edu	37	chr1	175046731	175046731	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccttggttcaggttgaCgctgaccctcagcccctcag	5	11	10	15	1	4	2	3	2	1	0	4	2	4	2	4	2	2	3	4	2	0	3			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr1:175046731C>T	uc001gkl.1	+	2	290	c.177C>T	c.(175-177)GAC>GAT	p.D59D	TNN_uc010pmx.1_Silent_p.D59D	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	59					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		TTCAGGTTGACGCTGACCCTC	0.597													7	40					0	0	0.00308	0	0		T	175046731	T	T	175046731	2	4	5	1	0	0	0	0	0	0	0	1	16348	535	19	1		1	TNN	1	175046731	Silent	SNP	C	TCGA-BR-4187-01A-01D-1126-08	70926510	175046731	74203890	5	6458											
ASTN1	460	broad.mit.edu	37	chr1	176999973	176999973	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgttgatccgctttctctgGctgctggaggtgtgagagag	5	14	15	7	1	1	3	0	2	1	1	3	5	2	4	1	3	1	4	1	3	0	3			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr1:176999973G>A	uc001glc.2	-	4	1193	c.981C>T	c.(979-981)AGC>AGT	p.S327S	ASTN1_uc001glb.1_Silent_p.S327S|ASTN1_uc001gld.1_Silent_p.S327S|ASTN1_uc009wwx.1_Silent_p.S327S|ASTN1_uc001gle.3_RNA|MIR488_hsa-mir-488|MI0003123_5'Flank	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	327					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GCTTTCTCTGGCTGCTGGAGG	0.473													9	42					0	0	0.010729	0	0		A	176999973	A	A	176999973	2	1	5	1	0	0	0	0	0	0	0	1	1065	1194	42	2		2	ASTN1	1	176999973	Silent	SNP	G	TCGA-BR-4187-01A-01D-1126-08	1953242	176999973	72250648	6	6459											
USH2A	7399	broad.mit.edu	37	chr1	216073486	216073486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccattggaggcaaccaaccGaaacatatactctgtgtacg	13	9	8	11	2	1	0	0	0	1	0	2	2	2	1	3	2	5	2	3	2	6	4			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr1:216073486G>A	uc001hku.1	-	40	7912	c.7525C>T	c.(7525-7527)CGG>TGG	p.R2509W		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2509	Extracellular (Potential).|Fibronectin type-III 11.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GCAACCAACCGAAACATATAC	0.423										HNSCC(13;0.011)			9	75					0	0	0.008291	0	0		A	216073486	A	A	216073486	3	1	5	1	0	0	0	0	1	0	0	0	17062	1057	37	1	8215	1	USH2A	1	216073486	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08	39073513	216073486	33177135	7	6460											
CHRM3	1131	broad.mit.edu	37	chr1	239549887	239549887	+	RNA	DEL	G	-	-																															tacaccagctctctcagtccGgggaggaggaggagcaggag																										TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr1:239549887delG	uc001hyo.1	+	1		c.23delG						P20309	ACM3_HUMAN	Homo sapiens clone N10 NTera2D1 teratocarcinoma, m3 muscarinic acetylcholine receptor mRNA, partial cds.						cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	CTCTCAGTCCGGggaggagga	0.493													2	4	---	---	---	---						.	-	239549887	-	-	239549887	6	5	5	0	1	1	0	1	0	0	0	0	3381	1131	39	0		0	CHRM3	1	239549887	RNA	DEL	G	TCGA-BR-4187-01A-01D-1126-08	23476401	239549887	9700734	8	6461											
PLB1	151056	broad.mit.edu	37	chr2	28785965	28785965	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctgggtgactctctcaCggtaagtgaccctgatgcag	8	9	12	12	1	2	3	1	3	1	0	3	3	2	3	2	2	2	2	2	2	1	1			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr2:28785965C>T	uc002rmb.1	+	18	1205	c.1205C>T	c.(1204-1206)ACG>ATG	p.T402M	PLB1_uc010ezj.1_Missense_Mutation_p.T413M|PLB1_uc002rmc.2_Missense_Mutation_p.T90M	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	402	4 X 308-326 AA approximate repeats.|2.|Extracellular (Potential).				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					GACTCTCTCACGGTAAGTGAC	0.502													6	50					0	0	0.001168	0	0		T	28785965	T	T	28785965	3	4	5	1	0	0	0	0	1	0	0	0	12043	550	19	1	1308	1	PLB1	2	28785965	Missense_Mutation	SNP	C	TCGA-BR-4187-01A-01D-1126-08		28785965	214413408	9	6462											
NMI	9111	broad.mit.edu	37	chr2	152128240	152128240	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctttttcaaaatcttgTcagccactaaaagcaaaaca	15	13	3	10	0	4	0	2	0	2	0	4	0	4	0	1	0	3	1	1	0	6	5			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr2:152128240T>C	uc002txi.2	-	7	971	c.641A>G	c.(640-642)GAC>GGC	p.D214G		NM_004688	NP_004679	Q13287	NMI_HUMAN	N-myc and STAT interactor	214					inflammatory response|JAK-STAT cascade|transcription from RNA polymerase II promoter	cytoplasm|nucleus	nucleotide binding|protein binding|transcription cofactor activity				0				BRCA - Breast invasive adenocarcinoma(221;0.0571)		CAAAATCTTGTCAGCCACTAA	0.294													8	41					0	0	0.003163	0	0		C	152128240	C	C	152128240	3	2	5	1	0	0	0	0	1	0	0	0	10516	1667	58	3	290	3	NMI	2	152128240	Missense_Mutation	SNP	T	TCGA-BR-4187-01A-01D-1126-08	123342275	152128240	91071133	10	6463											
MCM2	4171	broad.mit.edu	37	chr3	127340016	127340016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgacatatcagcgcaaccGctttggggcccagcaggaca	10	6	13	12	2	1	1	1	1	0	0	1	2	1	2	2	4	3	3	2	4	2	2			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr3:127340016G>A	uc003ejp.2	+	15	2606	c.2549G>A	c.(2548-2550)CGC>CAC	p.R850H	MCM2_uc011bkm.1_Missense_Mutation_p.R720H|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.R803H	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	850					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						CAGCGCAACCGCTTTGGGGCC	0.542													7	58					0	0	0.00308	0	0		A	127340016	A	A	127340016	3	1	5	1	0	0	0	0	1	0	0	0	9404	1087	38	1	2607	1	MCM2	3	127340016	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08		127340016	70682414	11	6464											
MUC4	4585	broad.mit.edu	37	chr3	195507385	195507385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtggcctgacctgtggatGctgaggaagtgtccgtgaca	7	9	17	8	1	0	3	0	3	0	0	1	5	1	5	3	4	1	1	3	4	1	0			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr3:195507385G>A	uc011bto.1	-	3	11142	c.10682C>T	c.(10681-10683)GCA>GTA	p.A3561V	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_5'Flank|MUC4_uc011btg.1_5'Flank|MUC4_uc011bth.1_5'Flank|MUC4_uc011bti.1_5'Flank|MUC4_uc011btj.1_5'Flank|MUC4_uc011btk.1_5'Flank|MUC4_uc011btl.1_5'Flank|MUC4_uc011btm.1_5'Flank|MUC4_uc011btn.1_5'Flank|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		ACCTGTGGATGCTGAGGAAGT	0.572													3	6					0	0	0.00308	0	0		A	195507385	A	A	195507385	3	1	5	1	0	0	0	0	1	0	0	0	9996	1319	46	2		2	MUC4	3	195507385	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08	68167369	195507385	2515045	12	6465											
MUC4	4585	broad.mit.edu	37	chr3	195513420	195513420	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacaggaagaggggtggcGtgaccggtggatgctgagga	9	6	21	5	2	0	4	0	3	0	1	0	7	0	7	1	7	1	1	1	7	1	0	rs71321842	by1000genomes	TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr3:195513420G>A	uc011bto.1	-	2	5491	c.5031C>T	c.(5029-5031)CAC>CAT	p.H1677H	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	471					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GAGGGGTGGCGTGACCGGTGG	0.612													4	26					0	0	0.001168	0	0		A	195513420	A	A	195513420	2	1	5	1	0	0	0	0	0	0	0	1	9996	1136	40	1		1	MUC4	3	195513420	Silent	SNP	G	TCGA-BR-4187-01A-01D-1126-08	6035	195513420	2509010	13	6466											
SH3TC1	54436	broad.mit.edu	37	chr4	8235216	8235216	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattacatcttgcggcagagCgagctggtggacctctacat	9	11	11	10	2	2	1	0	0	2	1	2	3	2	2	1	3	5	2	1	3	3	4			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr4:8235216C>T	uc003gkv.3	+	14	3359	c.3258C>T	c.(3256-3258)AGC>AGT	p.S1086S	SH3TC1_uc003gkw.3_Silent_p.S1010S|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_RNA	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	1086							binding			large_intestine(2)|pancreas(1)	3						TGCGGCAGAGCGAGCTGGTGG	0.527													4	32					0	0	0.014758	0	0		T	8235216	T	T	8235216	2	4	5	1	0	0	0	0	0	0	0	1	14286	767	27	1		1	SH3TC1	4	8235216	Silent	SNP	C	TCGA-BR-4187-01A-01D-1126-08		8235216	182919060	14	6467											
PCDHA13	56136	broad.mit.edu	37	chr5	140263466	140263466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttccaggtgagcgcgcGcgactctggcgtgccgcctc	4	7	15	15	6	1	1	0	1	1	0	3	2	2	1	3	2	2	2	3	2	0	1			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr5:140263466G>A	uc003lif.2	+	1	1613	c.1613G>A	c.(1612-1614)CGC>CAC	p.R538H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.R538H|PCDHA13_uc003lid.2_Missense_Mutation_p.R538H	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	538	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGAGCGCGCGCGACTCTGGC	0.682													10	59					0	0	0.008291	0	0		A	140263466	A	A	140263466	3	1	5	1	0	0	0	0	1	0	0	0	11542	1087	38	1	1615	1	PCDHA13	5	140263466	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08		140263466	40651794	15	6468											
OR2J3	442186	broad.mit.edu	37	chr6	29079853	29079853	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccatctgcacacaccaatGtacttcttcctttcaaacct	10	13	2	16	0	3	0	1	0	2	0	5	0	5	0	4	0	3	2	4	0	3	4			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr6:29079853G>A	uc011dll.1	+	1	186	c.186G>A	c.(184-186)ATG>ATA	p.M62I		NM_001005216	NP_001005216	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J,	62	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACACACCAATGTACTTCTTCC	0.458													17	194					0	0	0.007413	0	0		A	29079853	A	A	29079853	3	1	5	1	0	0	0	0	1	0	0	0	11023	1377	48	4	188	4	OR2J3	6	29079853	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08		29079853	142035214	16	6469											
PPT2	9374	broad.mit.edu	37	chr6	32123534	32123534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggattctttcatctccctctCctctccacagatgggacagt	7	13	7	14	0	5	1	1	0	4	1	8	3	5	3	3	2	0	0	3	2	0	2			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr6:32123534C>T	uc003nzx.2	+	4	975	c.407C>T	c.(406-408)TCC>TTC	p.S136F	PRRT1_uc003nzu.2_5'Flank|uc003nzv.3_5'Flank|PPT2_uc003nzw.2_Missense_Mutation_p.S142F|PPT2_uc011dpi.1_RNA|PPT2_uc003nzy.1_RNA|PPT2_uc003nzz.2_Missense_Mutation_p.S136F|PPT2_uc003oaa.2_Missense_Mutation_p.S136F|PPT2_uc010jtu.1_Missense_Mutation_p.S136F	NM_005155	NP_005146	Q9UMR5	PPT2_HUMAN	palmitoyl-protein thioesterase 2 isoform a	136					protein modification process	lysosome	palmitoyl-(protein) hydrolase activity				0						ATCTCCCTCTCCTCTCCACAG	0.527													11	81					0	0	0.013537	0	0		T	32123534	T	T	32123534	3	4	5	1	0	0	0	0	1	0	0	0	12434	855	30	4	439	4	PPT2	6	32123534	Missense_Mutation	SNP	C	TCGA-BR-4187-01A-01D-1126-08	3043681	32123534	138991533	17	6470											
RPS6KA2	6196	broad.mit.edu	37	chr6	166844008	166844008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtcactggcttcgcgctccGagaagtatctctgccggagg	6	9	13	13	5	2	1	1	0	1	1	5	3	3	2	2	3	1	3	2	3	2	2	rs145694057		TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr6:166844008G>A	uc003qvb.1	-	16	1733	c.1514C>T	c.(1513-1515)TCG>TTG	p.S505L	RPS6KA2_uc011ego.1_Missense_Mutation_p.S416L|RPS6KA2_uc010kkl.1_Missense_Mutation_p.S416L|RPS6KA2_uc003qvc.1_Missense_Mutation_p.S513L|RPS6KA2_uc003qvd.1_Missense_Mutation_p.S530L	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	505	Protein kinase 2.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		TTCGCGCTCCGAGAAGTATCT	0.597													7	67					0	0	0.00308	0	0		A	166844008	A	A	166844008	3	1	5	1	0	0	0	0	1	0	0	0	13676	1059	37	1	711	1	RPS6KA2	6	166844008	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08	134720474	166844008	4271059	18	6471											
LMTK2	22853	broad.mit.edu	37	chr7	97766742	97766742	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgctgtaaggacccagaAatagactttaaggtgagcac	13	9	10	9	0	0	3	0	1	0	2	1	4	1	4	2	2	2	3	2	2	4	4			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr7:97766742A>C	uc003upd.1	+	2	512	c.219A>C	c.(217-219)GAA>GAC	p.E73D		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	73					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					AGGACCCAGAAATAGACTTTA	0.368													4	67					0	0	0.009096	0	0		C	97766742	C	C	97766742	3	2	5	1	0	0	0	0	1	0	0	0	8876	11	1	5	225	5	LMTK2	7	97766742	Missense_Mutation	SNP	A	TCGA-BR-4187-01A-01D-1126-08		97766742	61371921	19	6472											
NUP205	23165	broad.mit.edu	37	chr7	135307616	135307616	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccattattgaaagttatggCgccgccctcatggaagtggt	9	11	12	9	2	1	1	1	1	0	0	1	2	1	2	3	3	0	1	3	3	4	3	rs144174512		TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr7:135307616C>T	uc003vsw.2	+	31	4453	c.4422C>T	c.(4420-4422)GGC>GGT	p.G1474G	NUP205_uc003vsx.2_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1474					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						AAAGTTATGGCGCCGCCCTCA	0.398													6	66					0	0	0.004482	0	0		T	135307616	T	T	135307616	2	4	5	1	0	0	0	0	0	0	0	1	10778	755	27	1		1	NUP205	7	135307616	Silent	SNP	C	TCGA-BR-4187-01A-01D-1126-08	37540874	135307616	23831047	20	6473											
AMAC1L2	83650	broad.mit.edu	37	chr8	11189042	11189042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcttccaccgtatgctccGctgtcctcaccctctgcctt	3	14	6	18	2	3	0	1	0	2	0	6	0	6	0	6	0	2	4	6	0	1	4	rs142654795	byFrequency	TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr8:11189042G>A	uc003wtp.1	+	1	548	c.427G>A	c.(427-429)GCT>ACT	p.A143T		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	143	DUF6 1.					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		CGTATGCTCCGCTGTCCTCAC	0.582													14	152					0	0	0.003163	0	0		A	11189042	A	A	11189042	3	1	5	1	0	0	0	0	1	0	0	0	560	1087	38	1	429	1	AMAC1L2	8	11189042	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08		11189042	135174980	21	6474											
ZFPM2	23414	broad.mit.edu	37	chr8	106813401	106813401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcactcaagctgccttccGatgtaatcactgccatttcg	8	13	6	14	2	3	0	3	0	1	0	6	1	4	0	3	0	3	2	3	0	2	3			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr8:106813401G>A	uc003ymd.2	+	8	1114	c.1091G>A	c.(1090-1092)CGA>CAA	p.R364Q	ZFPM2_uc011lhs.1_Missense_Mutation_p.R95Q|uc003yme.1_5'Flank	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	364	C2H2-type 3.				blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			GCTGCCTTCCGATGTAATCAC	0.507													13	139					0	0	0.020292	0	0		A	106813401	A	A	106813401	3	1	5	1	0	0	0	0	1	0	0	0	17683	1058	37	1	1121	1	ZFPM2	8	106813401	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08	95624359	106813401	39550621	22	6475											
TAF1L	138474	broad.mit.edu	37	chr9	32630718	32630718	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcatactcagtaattgtctgGtaacagatgttcacaatctc	12	14	6	9	0	5	1	3	0	2	1	6	1	5	1	0	1	2	3	0	1	4	5			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr9:32630718G>A	uc003zrg.1	-	1	4950	c.4860C>T	c.(4858-4860)TAC>TAT	p.Y1620Y	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1620					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TAATTGTCTGGTAACAGATGT	0.393													10	114					0	0	0.006214	0	0		A	32630718	A	A	32630718	2	1	5	1	0	0	0	0	0	0	0	1	15548	1256	44	4		4	TAF1L	9	32630718	Silent	SNP	G	TCGA-BR-4187-01A-01D-1126-08		32630718	108582713	23	6476											
FRMPD1	22844	broad.mit.edu	37	chr9	37711391	37711391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacagttgttcgctgcacgtCggtaaatctctttctatgtc	7	15	8	11	3	2	0	0	0	2	0	6	0	2	0	0	1	1	5	0	1	3	5			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr9:37711391C>T	uc004aag.1	+	5	451	c.407C>T	c.(406-408)TCG>TTG	p.S136L	FRMPD1_uc004aah.1_Missense_Mutation_p.S136L	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	136						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		CGCTGCACGTCGGTAAATCTC	0.438													10	174					0	0	0.010729	0	0		T	37711391	T	T	37711391	3	4	5	1	0	0	0	0	1	0	0	0	6071	898	31	1	421	1	FRMPD1	9	37711391	Missense_Mutation	SNP	C	TCGA-BR-4187-01A-01D-1126-08	5080673	37711391	103502040	24	6477											
TNC	3371	broad.mit.edu	37	chr9	117808747	117808747	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttgcttattccatagagTtcaatttcgtattcagtagc	9	17	6	9	1	2	1	2	0	0	1	4	1	3	1	2	0	2	4	2	0	5	9			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr9:117808747T>G	uc004bjj.3	-	17	5429	c.5067A>C	c.(5065-5067)GAA>GAC	p.E1689D	TNC_uc010mvf.2_Intron	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1689	Fibronectin type-III 12.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TTCCATAGAGTTCAATTTCGT	0.443													5	141					0	0	0.001984	0	0		G	117808747	G	G	117808747	3	3	5	1	0	0	0	0	1	0	0	0	16295	1722	60	5	1586	5	TNC	9	117808747	Missense_Mutation	SNP	T	TCGA-BR-4187-01A-01D-1126-08	80097356	117808747	23404684	25	6478											
MUC2	4583	broad.mit.edu	37	chr11	1093349	1093349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acagaccccaaccccgacacCcatctccaccaccactacgg	12	3	4	22	2	1	1	0	0	1	1	2	2	1	1	8	1	2	0	8	1	2	1			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr11:1093349C>T	uc001lsx.1	+	31	12281	c.12254C>T	c.(12253-12255)CCC>CTC	p.P4085L		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4085						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	accccgacacccatctccacc	0													3	24					0	0	0.004672	0	0		T	1093349	T	T	1093349	3	4	5	1	0	0	0	0	1	0	0	0	9993	623	22	4	5286	4	MUC2	11	1093349	Missense_Mutation	SNP	C	TCGA-BR-4187-01A-01D-1126-08		1093349	133913167	26	6479											
SOX6	55553	broad.mit.edu	37	chr11	15994601	15994601	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtgtggtagttgccatagtGatagcaccaggatacacaac	12	9	12	8	0	0	1	0	1	0	0	0	2	0	2	2	3	4	3	2	3	5	5			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr11:15994601G>A	uc001mme.2	-	16	2313	c.2280C>T	c.(2278-2280)ATC>ATT	p.I760I	SOX6_uc001mmd.2_Silent_p.I723I|SOX6_uc001mmf.2_Silent_p.I720I|SOX6_uc001mmg.2_Silent_p.I727I	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	747					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						TTGCCATAGTGATAGCACCAG	0.502													7	36					0	0	0.004482	0	0		A	15994601	A	A	15994601	2	1	5	1	0	0	0	0	0	0	0	1	14980	1280	45	4		4	SOX6	11	15994601	Silent	SNP	G	TCGA-BR-4187-01A-01D-1126-08	14901252	15994601	119011915	27	6480											
RARG	5916	broad.mit.edu	37	chr12	53607425	53607425	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgggtccggttcagggtcagCccgtcggagaaggtcatggt	6	9	17	9	3	3	1	3	0	0	1	5	2	4	1	2	6	1	1	2	6	1	1			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr12:53607425C>T	uc001sce.2	-	8	1358	c.873G>A	c.(871-873)GGG>GGA	p.G291G	RARG_uc001scd.2_Silent_p.G280G|RARG_uc010sob.1_Silent_p.G269G|RARG_uc001scf.2_Silent_p.G291G|RARG_uc001scg.2_Silent_p.G219G|RARG_uc010soc.1_Silent_p.G170G|RARG_uc010sod.1_Silent_p.G328G	NM_000966	NP_000957	P13631	RARG_HUMAN	retinoic acid receptor, gamma isoform 1	291	Ligand-binding.				canonical Wnt receptor signaling pathway|embryonic eye morphogenesis|embryonic hindlimb morphogenesis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter|regulation of cell size|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid	integral to membrane|transcription factor complex	retinoic acid receptor activity|retinoid X receptor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			breast(2)|ovary(1)|lung(1)	4					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tazarotene(DB00799)|Tretinoin(DB00755)	TCAGGGTCAGCCCGTCGGAGA	0.612											OREG0021862	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	48					0	0	0.014758	0	0		T	53607425	T	T	53607425	2	4	5	1	0	0	0	0	0	0	0	1	13079	726	26	2		2	RARG	12	53607425	Silent	SNP	C	TCGA-BR-4187-01A-01D-1126-08		53607425	80244470	28	6481											
ZFC3H1	196441	broad.mit.edu	37	chr12	72023392	72023392	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatatatgtacttactatGacctttactttcattgatat	11	20	3	7	0	1	2	1	2	0	0	1	2	1	2	1	0	3	1	1	0	8	11			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr12:72023392G>T	uc001swo.2	-	19	4182	c.3823C>A	c.(3823-3825)CAT>AAT	p.H1275N		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	1275					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						TACTTACTATGACCTTTACTT	0.264													5	39					0.000602214	0.000985442	0.014758	1	0		T	72023392	T	T	72023392	3	4	5	1	0	0	0	0	1	0	0	0	17658	1290	45	5	2214	5	ZFC3H1	12	72023392	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08	18415967	72023392	61828503	29	6482											
WSCD2	9671	broad.mit.edu	37	chr12	108589947	108589947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctacggtggagcctggagccGagccctcaaggggagggttg	7	6	18	10	2	1	0	1	0	0	0	1	4	1	3	3	6	4	1	3	6	2	2			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr12:108589947G>A	uc001tms.2	+	2	1082	c.338G>A	c.(337-339)CGA>CAA	p.R113Q	WSCD2_uc001tmt.2_Missense_Mutation_p.R113Q	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	113						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						GCCTGGAGCCGAGCCCTCAAG	0.597													4	39					0	0	0.009096	0	0		A	108589947	A	A	108589947	3	1	5	1	0	0	0	0	1	0	0	0	17433	1058	37	1	340	1	WSCD2	12	108589947	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08	36566555	108589947	25261948	30	6483											
CUL4A	8451	broad.mit.edu	37	chr13	113893752	113893752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactgcacatctcagggctcGaccacttactggatgagaac	11	9	9	12	1	1	1	1	1	1	1	3	4	1	2	1	2	4	2	1	2	3	2			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr13:113893752G>A	uc010tjy.1	+	11	933	c.922G>A	c.(922-924)GAC>AAC	p.D308N	CUL4A_uc010tjx.1_Missense_Mutation_p.D208N|CUL4A_uc010agu.2_Missense_Mutation_p.D169N|CUL4A_uc010tjz.1_5'UTR	NM_001008895	NP_001008895	Q13619	CUL4A_HUMAN	cullin 4A isoform 1	308					cell cycle arrest|DNA repair|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	ubiquitin protein ligase binding			central_nervous_system(2)|skin(1)	3	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.112)			CTCAGGGCTCGACCACTTACT	0.557													4	66					0	0	0.009096	0	0		A	113893752	A	A	113893752	3	1	5	1	0	0	0	0	1	0	0	0	4060	1058	37	1	960	1	CUL4A	13	113893752	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08		113893752	1276126	31	6484											
HDC	3067	broad.mit.edu	37	chr15	50540522	50540522	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagagcgaaaccgtcggcTcagggggatctgccagtgct	10	6	14	11	3	2	1	1	0	1	1	3	3	2	2	2	3	5	2	2	3	2	0			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr15:50540522T>C	uc001zxz.2	-	10	1166	c.1060A>G	c.(1060-1062)AGC>GGC	p.S354G	HDC_uc001zxy.2_Missense_Mutation_p.S97G|HDC_uc010uff.1_Intron	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	354					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	AACCGTCGGCTCAGGGGGATC	0.522													8	53					0	0	0.00308	0	0		C	50540522	C	C	50540522	3	2	5	1	0	0	0	0	1	0	0	0	7031	1551	54	3	940	3	HDC	15	50540522	Missense_Mutation	SNP	T	TCGA-BR-4187-01A-01D-1126-08		50540522	51990870	32	6485											
RGS11	8786	broad.mit.edu	37	chr16	321028	321028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaagtgggcccgccccaCggggtcctccaggagctccc	6	5	13	17	2	0	1	0	1	0	0	3	2	3	2	6	4	1	1	6	4	1	0			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr16:321028C>T	uc002cgj.1	-	13	937	c.934G>A	c.(934-936)GTG>ATG	p.V312M	RGS11_uc002cgi.1_Missense_Mutation_p.V291M|RGS11_uc010bqs.1_Missense_Mutation_p.V301M|RGS11_uc002cgk.1_Missense_Mutation_p.V128M	NM_183337	NP_899180	O94810	RGS11_HUMAN	regulator of G-protein signalling 11 isoform 1	312	RGS.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			lung(1)|pancreas(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				GCCCGCCCCACGGGGTCCTCC	0.682													4	19					0	0	0.014758	0	0		T	321028	T	T	321028	3	4	5	1	0	0	0	0	1	0	0	0	13319	536	19	1	489	1	RGS11	16	321028	Missense_Mutation	SNP	C	TCGA-BR-4187-01A-01D-1126-08		321028	90033725	33	6486											
GRIN2A	2903	broad.mit.edu	37	chr16	9862888	9862888	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctggctgctcatcacctcGttcttctcgttgtggcagat	5	14	10	12	2	4	1	2	0	2	1	6	1	4	1	1	2	2	6	1	2	0	3			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr16:9862888G>A	uc002czo.3	-	12	2963	c.2415C>T	c.(2413-2415)AAC>AAT	p.N805N	GRIN2A_uc010uym.1_Silent_p.N805N|GRIN2A_uc010uyn.1_Silent_p.N648N|GRIN2A_uc002czr.3_Silent_p.N805N	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	805	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TCATCACCTCGTTCTTCTCGT	0.552													6	77					0	0	0.006214	0	0		A	9862888	A	A	9862888	2	1	5	1	0	0	0	0	0	0	0	1	6795	1136	40	1		1	GRIN2A	16	9862888	Silent	SNP	G	TCGA-BR-4187-01A-01D-1126-08	9541860	9862888	80491865	34	6487											
OTOA	146183	broad.mit.edu	37	chr16	21726384	21726384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccttctgcagcatgaaaCgcaaggacatctcgcaggtc	11	7	11	12	2	2	1	0	1	2	0	4	2	2	2	1	3	3	4	1	3	2	1			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr16:21726384C>T	uc002djh.2	+	13	1400	c.1399C>T	c.(1399-1401)CGC>TGC	p.R467C	uc002diq.3_Intron|OTOA_uc010vbj.1_Missense_Mutation_p.R388C|OTOA_uc002dji.2_Missense_Mutation_p.R143C|OTOA_uc010vbk.1_Missense_Mutation_p.R115C	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	481					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		CAGCATGAAACGCAAGGACAT	0.582													11	279					0	0	0.010729	0	0		T	21726384	T	T	21726384	3	4	5	1	0	0	0	0	1	0	0	0	11321	536	19	1	1495	1	OTOA	16	21726384	Missense_Mutation	SNP	C	TCGA-BR-4187-01A-01D-1126-08	11863496	21726384	68628369	35	6488											
SPNS1	83985	broad.mit.edu	37	chr16	28993708	28993708	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactcatcacctgcctgaccGgagtcctgggtgtgggcctg	5	9	14	13	1	2	1	2	1	0	0	3	3	3	2	5	3	1	0	5	3	0	0			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr16:28993708G>A	uc010vdi.1	+	9	1137	c.997G>A	c.(997-999)GGA>AGA	p.G333R	uc010vct.1_Intron|SPNS1_uc002drx.2_Missense_Mutation_p.G260R|SPNS1_uc002dsa.2_Missense_Mutation_p.G333R|SPNS1_uc002drz.2_Missense_Mutation_p.G281R|SPNS1_uc010byp.2_Missense_Mutation_p.G259R|SPNS1_uc010byq.1_Missense_Mutation_p.G265R|LAT_uc010vdj.1_5'Flank|LAT_uc002dsb.2_5'Flank|LAT_uc002dsd.2_5'Flank|LAT_uc002dsc.2_5'Flank|LAT_uc010vdk.1_5'Flank|LAT_uc010vdl.1_5'Flank	NM_001142448	NP_001135920	Q9H2V7	SPNS1_HUMAN	spinster homolog 1 isoform 1	333	Helical; (Potential).				lipid transport|transmembrane transport	integral to membrane|mitochondrial inner membrane	protein binding				0						CTGCCTGACCGGAGTCCTGGG	0.652													5	78					0	0	0.001984	0	0		A	28993708	A	A	28993708	3	1	5	1	0	0	0	0	1	0	0	0	15099	1117	39	1	1027	1	SPNS1	16	28993708	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08	7267324	28993708	61361045	36	6489											
BCKDK	10295	broad.mit.edu	37	chr16	31122413	31122413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcgctcctatccgcagaCgcctgtgtgagcacaagtat	8	9	9	15	3	0	2	0	1	0	1	3	2	2	2	4	0	1	4	4	0	3	2			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr16:31122413C>T	uc002eaw.3	+	9	1034	c.718C>T	c.(718-720)CGC>TGC	p.R240C	BCKDK_uc002eav.3_Missense_Mutation_p.R240C|BCKDK_uc010cah.2_RNA|BCKDK_uc010cai.2_Missense_Mutation_p.R240C	NM_005881	NP_005872	O14874	BCKD_HUMAN	branched chain ketoacid dehydrogenase kinase	240	Histidine kinase.				branched chain family amino acid catabolic process|peptidyl-histidine phosphorylation	mitochondrial alpha-ketoglutarate dehydrogenase complex	[3-methyl-2-oxobutanoate dehydrogenase (acetyl-transferring)] kinase activity|ATP binding|protein binding|protein serine/threonine kinase activity|two-component sensor activity			stomach(1)|breast(1)	2						TATCCGCAGACGCCTGTGTGA	0.433													8	37					0	0	0.008291	0	0		T	31122413	T	T	31122413	3	4	5	1	0	0	0	0	1	0	0	0	1362	550	19	1	748	1	BCKDK	16	31122413	Missense_Mutation	SNP	C	TCGA-BR-4187-01A-01D-1126-08	2128705	31122413	59232340	37	6490											
KRT37	8688	broad.mit.edu	37	chr17	39580071	39580071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caatttgtacaatcagcctgGcattctcagccttgctgcac	9	12	7	13	0	2	0	2	0	1	0	3	0	2	0	2	1	5	4	2	1	3	4			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr17:39580071G>A	uc002hwp.1	-	2	565	c.518C>T	c.(517-519)GCC>GTC	p.A173V	uc002hwo.1_RNA	NM_003770	NP_003761	O76014	KRT37_HUMAN	keratin 37	173	Rod.|Coil 1B.					intermediate filament	structural molecule activity			skin(1)	1		Breast(137;0.000496)				AATCAGCCTGGCATTCTCAGC	0.403													4	88					0	0	0.014758	0	0		A	39580071	A	A	39580071	3	1	5	1	0	0	0	0	1	0	0	0	8490	1203	42	2	855	2	KRT37	17	39580071	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08		39580071	41615139	38	6491											
NLRP5	126206	broad.mit.edu	37	chr19	56539525	56539525	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttgtttggcctcgtgagCgaagacgtaaggaggccact	8	11	13	9	3	1	2	0	1	1	1	2	4	1	3	2	3	1	2	2	3	2	4			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr19:56539525C>T	uc002qmj.2	+	7	1926	c.1926C>T	c.(1924-1926)AGC>AGT	p.S642S	NLRP5_uc002qmi.2_Silent_p.S623S	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	642						mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		GCCTCGTGAGCGAAGACGTAA	0.557													4	61					0	0	0.009096	0	0		T	56539525	T	T	56539525	2	4	5	1	0	0	0	0	0	0	0	1	10499	767	27	1		1	NLRP5	19	56539525	Silent	SNP	C	TCGA-BR-4187-01A-01D-1126-08		56539525	2589458	39	6492											
KRTAP10-10	353333	broad.mit.edu	37	chr21	46057679	46057679	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtaacaagcctgtgtgcttCgtgcctacctgctccgagtc	6	12	10	13	2	0	0	0	0	0	0	3	1	1	0	4	0	6	3	4	0	3	3			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chr21:46057679C>T	uc002zfq.2	+	1	407	c.345C>T	c.(343-345)TTC>TTT	p.F115F	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_181688	NP_859016	P60014	KR10A_HUMAN	keratin associated protein 10-10	115	15 X 5 AA repeats of C-C-X(3).					keratin filament					0						ctgtgtgcttcgtgcctacct	0.343													9	148					0	0	0.004482	0	0		T	46057679	T	T	46057679	2	4	5	1	0	0	0	0	0	0	0	1	8522	883	31	1		1	KRTAP10-10	21	46057679	Silent	SNP	C	TCGA-BR-4187-01A-01D-1126-08		46057679	2072216	40	6493											
RPGR	6103	broad.mit.edu	37	chrX	38145532	38145534	+	In_Frame_Del	DEL	TCC	-	-																															cttctccctccccttctcctTcctcttctccctccccttct																										TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chrX:38145532_38145534delTCC	uc004ded.1	-	15	2886_2888	c.2718_2720delGGA	c.(2716-2721)GAGGAA>GAA	p.906_907EE>E	RPGR_uc004deb.2_Intron|RPGR_uc004dea.2_Intron|RPGR_uc004dec.2_Intron	NM_001034853	NP_001030025	Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator isoform C	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						cccttctccttcctcttctccct	0													3	6	---	---	---	---						.	-	38145534	-	-	38145532	7	5	5	1	0	1	0	1	0	0	0	0	13573	1783	62	0	1301	0	RPGR	23	38145532	In_Frame_Del	DEL	TCC	TCGA-BR-4187-01A-01D-1126-08		38145532	117125028	41	6494											
SLC9A6	10479	broad.mit.edu	37	chrX	135084305	135084305	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacgagcttcaagttgatGttgaactctatgcacttctt	9	15	7	10	1	3	2	1	2	2	0	4	3	4	2	1	0	3	4	1	0	3	6			TCGA-BR-4187-01A-01D-1126-08	TCGA-BR-4187-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b45eb56-8286-4094-8bff-d0cf5c05cda9	30a6f1ff-df78-470a-b645-0e46c00252d8	g.chrX:135084305G>T	uc004ezj.2	+	6	812	c.736G>T	c.(736-738)GTT>TTT	p.V246F	SLC9A6_uc004ezk.2_Missense_Mutation_p.V278F|SLC9A6_uc011mvx.1_Missense_Mutation_p.V226F	NM_006359	NP_006350	Q92581	SL9A6_HUMAN	solute carrier family 9 (sodium/hydrogen	246	Helical; (Potential).				regulation of pH	early endosome membrane|endoplasmic reticulum membrane|integral to membrane|microsome|plasma membrane|recycling endosome membrane	sodium:hydrogen antiporter activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TCAAGTTGATGTTGAACTCTA	0.353													16	72					6.49762e-13	1.09647e-12	0.006122	1	0		T	135084305	T	T	135084305	3	4	5	1	0	0	0	0	1	0	0	0	14743	1377	48	5	854	5	SLC9A6	23	135084305	Missense_Mutation	SNP	G	TCGA-BR-4187-01A-01D-1126-08	96938773	135084305	20186255	42	6495											
FLG2	388698	broad.mit.edu	37	chr1	152325465	152325465	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttgagatccggcttggccGtaagtgtgttctcgtgagtg	5	14	15	7	3	1	2	0	2	1	1	3	3	2	2	2	2	0	4	2	2	1	4			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr1:152325465G>A	uc001ezw.3	-	3	4870	c.4797C>T	c.(4795-4797)TAC>TAT	p.Y1599Y	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1599							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGGCTTGGCCGTAAGTGTGTT	0.512													31	127					0	0	0.012213	0	0		A	152325465	A	A	152325465	2	1	6	1	0	0	0	0	0	0	0	1	5937	1140	40	1		1	FLG2	1	152325465	Silent	SNP	G	TCGA-BR-4188-01A-01D-1126-08		152325465	96925156	1	6496											
RASAL2	9462	broad.mit.edu	37	chr1	178426964	178426964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtagccttcctaatggtcGgagcgtctccctcatggacc	8	10	10	13	2	2	0	1	0	1	0	5	2	3	2	4	3	2	1	4	3	3	3			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr1:178426964G>A	uc001glr.2	+	12	2239	c.2114G>A	c.(2113-2115)CGG>CAG	p.R705Q	RASAL2_uc001glq.2_Missense_Mutation_p.R846Q|RASAL2_uc009wxc.2_Missense_Mutation_p.R219Q	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	705					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						CCTAATGGTCGGAGCGTCTCC	0.493													14	55					0	0	0.00245	0	0		A	178426964	A	A	178426964	3	1	6	1	0	0	0	0	1	0	0	0	13089	1116	39	1	2629	1	RASAL2	1	178426964	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	26101499	178426964	70823657	2	6497											
HMCN1	83872	broad.mit.edu	37	chr1	186092180	186092180	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcctccctccgcctgaCattacatggcataaagatgg	10	9	10	12	1	0	2	0	1	0	1	2	3	2	2	4	3	1	1	4	3	3	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr1:186092180C>T	uc001grq.1	+	81	12556	c.12327C>T	c.(12325-12327)GAC>GAT	p.D4109D		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4109	Ig-like C2-type 40.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CTCCGCCTGACATTACATGGC	0.502													10	28					0	0	0.008291	0	0		T	186092180	T	T	186092180	2	4	6	1	0	0	0	0	0	0	0	1	7236	477	17	4		4	HMCN1	1	186092180	Silent	SNP	C	TCGA-BR-4188-01A-01D-1126-08	7665216	186092180	63158441	3	6498											
CDC42BPA	8476	broad.mit.edu	37	chr1	227335241	227335241	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatataatctggagttcctAcagccactgaggactgaacc	13	9	9	10	0	1	3	0	2	1	1	2	5	2	5	3	2	3	1	3	2	4	4			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr1:227335241A>C	uc001hqr.2	-	7	1656	c.713T>G	c.(712-714)GTA>GGA	p.V238G	CDC42BPA_uc001hqs.2_Missense_Mutation_p.V238G|CDC42BPA_uc009xes.2_Missense_Mutation_p.V238G|CDC42BPA_uc010pvs.1_Missense_Mutation_p.V238G	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	238	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TGGAGTTCCTACAGCCACTGA	0.358													6	17					0	0	0.013537	0	0		C	227335241	C	C	227335241	3	2	6	1	0	0	0	0	1	0	0	0	3075	391	14	5	4566	5	CDC42BPA	1	227335241	Missense_Mutation	SNP	A	TCGA-BR-4188-01A-01D-1126-08	41243061	227335241	21915380	4	6499											
NID1	4811	broad.mit.edu	37	chr1	236205258	236205258	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctatgacctgagggtgctGctggtgaaaagtctccactg	9	11	12	9	0	2	3	0	3	2	0	3	3	2	3	2	2	2	2	2	2	3	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr1:236205258G>T	uc001hxo.2	-	4	1189	c.1087C>A	c.(1087-1089)CAG>AAG	p.Q363K	NID1_uc009xgd.2_Missense_Mutation_p.Q363K	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	363					cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	TGAGGGTGCTGCTGGTGAAAA	0.542													15	46					1.15088e-07	1.9285e-07	0.004007	1	0		T	236205258	T	T	236205258	3	4	6	1	0	0	0	0	1	0	0	0	10433	1328	46	5	2724	5	NID1	1	236205258	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	8870017	236205258	13045363	5	6500											
LTBP1	4052	broad.mit.edu	37	chr2	33572560	33572560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccatgactgggcagtgccGctcccggacctccacaggta	7	6	11	17	2	0	1	0	1	0	0	2	2	2	2	6	3	1	3	6	3	1	1	rs139673362		TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr2:33572560G>A	uc002ros.2	+	26	3986	c.3986G>A	c.(3985-3987)CGC>CAC	p.R1329H	LTBP1_uc002rot.2_Missense_Mutation_p.R1003H|LTBP1_uc002rou.2_Missense_Mutation_p.R1002H|LTBP1_uc002rov.2_Missense_Mutation_p.R949H|LTBP1_uc010ymz.1_Missense_Mutation_p.R960H|LTBP1_uc010yna.1_Missense_Mutation_p.R907H|LTBP1_uc010ynb.1_Missense_Mutation_p.R226H	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1328	EGF-like 14; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				GGGCAGTGCCGCTCCCGGACC	0.567													8	47					0	0	0.004482	0	0		A	33572560	A	A	33572560	3	1	6	1	0	0	0	0	1	0	0	0	9091	1087	38	1	4140	1	LTBP1	2	33572560	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08		33572560	209626813	6	6501											
LHCGR	3973	broad.mit.edu	37	chr2	48915521	48915521	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagcttttggtccaggtgaAtagcataggtgatggtgtgc	8	12	15	6	0	0	2	0	2	0	0	1	2	1	2	1	4	3	3	1	4	3	4			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr2:48915521A>G	uc002rwu.3	-	11	1485	c.1415T>C	c.(1414-1416)ATT>ACT	p.I472T	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	472	Cytoplasmic (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	GTCCAGGTGAATAGCATAGGT	0.463									Familial_Male-Limited_Precocious_Puberty				17	54					0	0	0.007413	0	0		G	48915521	G	G	48915521	3	3	6	1	0	0	0	0	1	0	0	0	8778	101	4	3	688	3	LHCGR	2	48915521	Missense_Mutation	SNP	A	TCGA-BR-4188-01A-01D-1126-08	15342961	48915521	194283852	7	6502											
LRRTM1	347730	broad.mit.edu	37	chr2	80529646	80529646	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaggagaagatgagggcCatggtgcccgtgaccacctt	11	6	15	9	1	0	4	0	2	0	2	0	6	0	5	4	4	1	0	4	4	2	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr2:80529646C>A	uc002sok.1	-	2	1569	c.1299G>T	c.(1297-1299)ATG>ATT	p.M433I	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	433	Helical; (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						AGATGAGGGCCATGGTGCCCG	0.627										HNSCC(69;0.2)			8	21					0.000442599	0.000722136	0.006214	1	0		A	80529646	A	A	80529646	3	1	6	1	0	0	0	0	1	0	0	0	9057	594	21	5	273	5	LRRTM1	2	80529646	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	31614125	80529646	162669727	8	6503											
CTNNA2	1496	broad.mit.edu	37	chr2	80835315	80835315	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatgttttatagtgtcctGattcagcatgtaagcaggat	11	16	9	5	0	1	1	1	1	0	0	2	2	2	2	1	1	2	4	1	1	4	6			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr2:80835315G>T	uc010ysh.1	+	16	2307	c.2302G>T	c.(2302-2304)GAT>TAT	p.D768Y	CTNNA2_uc010yse.1_Missense_Mutation_p.D768Y|CTNNA2_uc010ysf.1_Missense_Mutation_p.D768Y|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysi.1_Missense_Mutation_p.D400Y|CTNNA2_uc010ysj.1_Missense_Mutation_p.D97Y	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	768					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						ATAGTGTCCTGATTCAGCATG	0.368													13	71					0.000308642	0.00050803	0.003163	1	0		T	80835315	T	T	80835315	3	4	6	1	0	0	0	0	1	0	0	0	4016	1290	45	5	2156	5	CTNNA2	2	80835315	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	305669	80835315	162364058	9	6504											
RAPGEF4	11069	broad.mit.edu	37	chr2	173679118	173679118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagagcagtgaactgctcCgcatcgagcagaaggacttc	11	6	14	10	2	0	3	0	1	0	2	3	6	1	4	1	2	4	4	1	2	2	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr2:173679118C>T	uc002uhv.3	+	4	596	c.409C>T	c.(409-411)CGC>TGC	p.R137C	RAPGEF4_uc002uhu.2_Missense_Mutation_p.R137C|RAPGEF4_uc010fqn.2_Missense_Mutation_p.R120C	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	137	cAMP 1.				blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			TGAACTGCTCCGCATCGAGCA	0.522													16	34					0	0	0.006122	0	0		T	173679118	T	T	173679118	3	4	6	1	0	0	0	0	1	0	0	0	13071	652	23	1	423	1	RAPGEF4	2	173679118	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	92843803	173679118	69520255	10	6505											
TTN	7273	broad.mit.edu	37	chr2	179429737	179429737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattctaaactggtactccGtgcctgttttcagtttggtt	8	17	8	8	1	2	0	1	0	1	0	3	0	3	0	2	2	3	4	2	2	4	7			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr2:179429737G>A	uc010zfg.1	-	275	73642	c.73418C>T	c.(73417-73419)ACG>ATG	p.T24473M	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T18168M|TTN_uc010zfi.1_Missense_Mutation_p.T18101M|TTN_uc010zfj.1_Missense_Mutation_p.T17976M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25400							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGGTACTCCGTGCCTGTTTT	0.393													23	63					0	0	0.00333	0	0		A	179429737	A	A	179429737	3	1	6	1	0	0	0	0	1	0	0	0	16761	1145	40	1	27005	1	TTN	2	179429737	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	5750619	179429737	63769636	11	6506											
ANKRD44	91526	broad.mit.edu	37	chr2	197878392	197878392	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgatgtccaggtccaccaaCgactgcagaaggacttccaa	12	7	9	13	1	0	2	0	1	0	1	3	4	3	3	4	2	2	1	4	2	3	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr2:197878392C>T	uc002uua.1	-	18	1769	c.1692G>A	c.(1690-1692)TCG>TCA	p.S564S	ANKRD44_uc002utz.3_Silent_p.S296S	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	589	ANK 17.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GGTCCACCAACGACTGCAGAA	0.532													28	162					0	0	0.003271	0	0		T	197878392	T	T	197878392	2	4	6	1	0	0	0	0	0	0	0	1	672	523	19	1		1	ANKRD44	2	197878392	Silent	SNP	C	TCGA-BR-4188-01A-01D-1126-08	18448655	197878392	45320981	12	6507											
C2orf80	389073	broad.mit.edu	37	chr2	209047703	209047703	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttacagttcctcccactcCagccaagttaagtcttctga	10	12	5	14	0	2	1	0	1	2	0	5	1	5	1	4	0	2	2	4	0	3	4			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr2:209047703C>T	uc002vcr.2	-	4	364	c.192G>A	c.(190-192)CTG>CTA	p.L64L		NM_001099334	NP_001092804	Q0P641	CB080_HUMAN	hypothetical protein LOC389073	64										skin(1)	1						CCTCCCACTCCAGCCAAGTTA	0.453													13	113					0	0	0.001855	0	0		T	209047703	T	T	209047703	2	4	6	1	0	0	0	0	0	0	0	1	2200	581	21	4		4	C2orf80	2	209047703	Silent	SNP	C	TCGA-BR-4188-01A-01D-1126-08	11169311	209047703	34151670	13	6508											
C3orf20	84077	broad.mit.edu	37	chr3	14731512	14731512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcccactccagagtccctcGcaaacatgtccgccattggg	8	8	8	17	2	0	1	0	0	0	1	5	1	4	1	5	1	1	1	5	1	1	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr3:14731512G>A	uc003byy.2	+	5	1038	c.634G>A	c.(634-636)GCA>ACA	p.A212T	C3orf20_uc003byz.2_Missense_Mutation_p.A90T|C3orf20_uc003bza.2_Missense_Mutation_p.A90T|C3orf20_uc003byx.1_Missense_Mutation_p.A212T	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	212						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						AGAGTCCCTCGCAAACATGTC	0.433													10	50					0	0	0.008291	0	0		A	14731512	A	A	14731512	3	1	6	1	0	0	0	0	1	0	0	0	2216	1087	38	1	644	1	C3orf20	3	14731512	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08		14731512	183290918	14	6509											
CTNNB1	1499	broad.mit.edu	37	chr3	41277254	41277254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatagttgaaggttgtaccGgagcccttcacatcctagct	11	11	9	10	1	1	1	1	1	0	0	2	2	2	2	3	2	3	4	3	2	5	6			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr3:41277254G>A	uc010hia.1	+	12	1879	c.1723G>A	c.(1723-1725)GGA>AGA	p.G575R	CTNNB1_uc003ckp.2_Missense_Mutation_p.G575R|CTNNB1_uc003ckq.2_Missense_Mutation_p.G575R|CTNNB1_uc003ckr.2_Missense_Mutation_p.G575R|CTNNB1_uc011azf.1_Missense_Mutation_p.G568R|CTNNB1_uc011azg.1_Missense_Mutation_p.G503R|CTNNB1_uc003cks.2_3'UTR|CTNNB1_uc003ckt.1_Missense_Mutation_p.G10R	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	575					adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	AGGTTGTACCGGAGCCCTTCA	0.433		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				13	76					0	0	0.013537	0	0		A	41277254	A	A	41277254	3	1	6	1	0	0	0	0	1	0	0	0	4019	1117	39	1	1761	1	CTNNB1	3	41277254	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	26545742	41277254	156745176	15	6510											
NBEAL2	23218	broad.mit.edu	37	chr3	47049627	47049627	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcatggggctgcagtgaGctgtgtggccatcagcactg	6	9	17	9	0	1	1	1	1	0	0	1	1	1	1	1	4	3	5	1	4	0	0			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr3:47049627G>A	uc003cqp.2	+	50	7849	c.7670G>A	c.(7669-7671)AGC>AAC	p.S2557N	NBEAL2_uc010hjm.1_Missense_Mutation_p.S1934N|NBEAL2_uc010hjn.1_Missense_Mutation_p.S923N|NBEAL2_uc010hjo.1_Missense_Mutation_p.S117N	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	2557	WD 4.						binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		GCTGCAGTGAGCTGTGTGGCC	0.592													3	18					0	0	0.000602	0	0		A	47049627	A	A	47049627	3	1	6	1	0	0	0	0	1	0	0	0	10207	971	34	2	7868	2	NBEAL2	3	47049627	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	5772373	47049627	150972803	16	6511											
RHOA	387	broad.mit.edu	37	chr3	49412898	49412898	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacctcgatatctgccacaTagttctcaaacactgtgggc	10	10	7	14	1	2	0	1	0	2	0	4	1	2	0	3	1	2	1	3	1	3	3			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr3:49412898T>C	uc003cwu.2	-	2	401	c.125A>G	c.(124-126)TAT>TGT	p.Y42C	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	42	Effector region (Potential).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	ATCTGCCACATAGTTCTCAAA	0.433													32	42					0	0	0.00623	0	0		C	49412898	C	C	49412898	3	2	6	1	0	0	0	0	1	0	0	0	13356	1406	49	3	472	3	RHOA	3	49412898	Missense_Mutation	SNP	T	TCGA-BR-4188-01A-01D-1126-08	2363271	49412898	148609532	17	6512											
LRIG1	26018	broad.mit.edu	37	chr3	66457882	66457882	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcggccaggctctcctcGtccagccgtgtcaggttgtt	4	11	12	14	3	2	0	1	0	1	0	6	0	3	0	4	3	2	4	4	3	0	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr3:66457882G>A	uc003dmx.2	-	8	983	c.969C>T	c.(967-969)GAC>GAT	p.D323D	LRIG1_uc003dmw.2_5'Flank|LRIG1_uc010hnz.2_Silent_p.D63D|LRIG1_uc010hoa.2_Silent_p.D323D	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	323	Extracellular (Potential).|LRR 11.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		GGCTCTCCTCGTCCAGCCGTG	0.612											OREG0015662	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	17					0	0	0.009096	0	0		A	66457882	A	A	66457882	2	1	6	1	0	0	0	0	0	0	0	1	8962	1136	40	1		1	LRIG1	3	66457882	Silent	SNP	G	TCGA-BR-4188-01A-01D-1126-08	17044984	66457882	131564548	18	6513											
KLHL24	54800	broad.mit.edu	37	chr3	183368716	183368716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaaaatgcaaaaattttgCgttacagacttttgaggatg	15	12	8	6	1	0	2	0	1	0	1	0	3	0	3	0	1	3	2	0	1	5	5			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr3:183368716C>T	uc003flv.2	+	3	867	c.572C>T	c.(571-573)GCG>GTG	p.A191V	KLHL24_uc003flw.2_Missense_Mutation_p.A191V|KLHL24_uc003flx.2_Missense_Mutation_p.A191V	NM_017644	NP_060114	Q6TFL4	KLH24_HUMAN	DRE1 protein	191	BACK.					axon|cytoplasm|perikaryon				ovary(1)	1	all_cancers(143;2.88e-10)|Ovarian(172;0.0303)		all cancers(12;1.43e-42)|Epithelial(37;1.73e-36)|OV - Ovarian serous cystadenocarcinoma(80;8.75e-22)			AAAAATTTTGCGTTACAGACT	0.368													15	73					0	0	0.004007	0	0		T	183368716	T	T	183368716	3	4	6	1	0	0	0	0	1	0	0	0	8395	768	27	1	574	1	KLHL24	3	183368716	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	116910834	183368716	14653714	19	6514											
ECE2	9718	broad.mit.edu	37	chr3	184005662	184005662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagacctgcatctccaacaCggatgacgcccttggctttg	8	9	10	14	2	1	2	0	1	1	1	2	3	1	3	3	2	2	3	3	2	1	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr3:184005662C>T	uc003fni.3	+	11	1693	c.1655C>T	c.(1654-1656)ACG>ATG	p.T552M	ECE2_uc011brh.1_Missense_Mutation_p.T405M|ECE2_uc003fnl.3_Missense_Mutation_p.T480M|ECE2_uc003fnm.3_Missense_Mutation_p.T434M|ECE2_uc003fnk.3_Missense_Mutation_p.T405M|ECE2_uc011bri.1_Missense_Mutation_p.T467M|ECE2_uc010hxv.2_Missense_Mutation_p.T196M	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	552	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ATCTCCAACACGGATGACGCC	0.527													10	58					0	0	0.00245	0	0		T	184005662	T	T	184005662	3	4	6	1	0	0	0	0	1	0	0	0	4896	536	19	1	2261	1	ECE2	3	184005662	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	636946	184005662	14016768	20	6515											
PCYT1A	5130	broad.mit.edu	37	chr3	195974306	195974306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccacctcatccacgtagcGgcagtgctggactgcgtcat	8	8	10	15	3	2	0	2	0	0	0	3	1	3	1	3	2	3	3	3	2	1	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr3:195974306G>A	uc003fwg.2	-	6	591	c.418C>T	c.(418-420)CGC>TGC	p.R140C	PCYT1A_uc003fwh.2_Missense_Mutation_p.R140C	NM_005017	NP_005008	P49585	PCY1A_HUMAN	choline phosphate cytidylyltransferase 1 alpha	140	Catalytic (Potential).					cytosol|soluble fraction	choline-phosphate cytidylyltransferase activity				0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.28e-24)|all cancers(36;1.01e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00259)	Choline(DB00122)	TCCACGTAGCGGCAGTGCTGG	0.537													16	47					0	0	0.006122	0	0		A	195974306	A	A	195974306	3	1	6	1	0	0	0	0	1	0	0	0	11629	1116	39	1	705	1	PCYT1A	3	195974306	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	11968644	195974306	2048124	21	6516											
EVC2	132884	broad.mit.edu	37	chr4	5642365	5642365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcaatgccaccatcttcCgatcgtactcctcttgtatt	7	15	5	14	2	3	0	1	0	2	0	6	1	5	0	4	0	2	2	4	0	3	5			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr4:5642365C>T	uc003gij.2	-	10	1400	c.1346G>A	c.(1345-1347)CGG>CAG	p.R449Q	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Missense_Mutation_p.R369Q	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	449						integral to membrane				large_intestine(3)|ovary(2)	5						CACCATCTTCCGATCGTACTC	0.358													30	129					0	0	0.009535	0	0		T	5642365	T	T	5642365	3	4	6	1	0	0	0	0	1	0	0	0	5294	652	23	1	2632	1	EVC2	4	5642365	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08		5642365	185511911	22	6517											
ADAMTS3	9508	broad.mit.edu	37	chr4	73164020	73164020	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacagggtttggaacactgaGaccagctcttcaaagcccac	12	7	9	13	0	2	1	1	1	1	1	2	3	2	2	2	2	3	2	2	2	2	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr4:73164020G>C	uc003hgk.1	-	18	2601	c.2564C>G	c.(2563-2565)TCT>TGT	p.S855C	ADAMTS3_uc003hgl.2_Missense_Mutation_p.S196C	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	855	TSP type-1 2.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GGAACACTGAGACCAGCTCTT	0.363													8	52					0	0	0.008291	0	0		C	73164020	C	C	73164020	3	2	6	1	0	0	0	0	1	0	0	0	267	942	33	5	1073	5	ADAMTS3	4	73164020	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	67521655	73164020	117990256	23	6518											
PRKG2	5593	broad.mit.edu	37	chr4	82125924	82125924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatctggagaggcctgaagcGggcttcctccctgcatatgc	7	10	12	12	1	1	2	0	1	1	1	3	3	3	2	3	3	3	2	3	3	3	3	rs147037183	byFrequency	TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr4:82125924G>A	uc003hmh.2	-	1	292	c.278C>T	c.(277-279)CCG>CTG	p.P93L	PRKG2_uc011cch.1_Missense_Mutation_p.P93L	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	93					platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						GGCCTGAAGCGGGCTTCCTCC	0.557													12	70					0	0	0.001855	0	0		A	82125924	A	A	82125924	3	1	6	1	0	0	0	0	1	0	0	0	12545	1116	39	1	2082	1	PRKG2	4	82125924	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	8961904	82125924	109028352	24	6519											
TACR3	6870	broad.mit.edu	37	chr4	104640553	104640553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgccactgccaccaccaCaccatacgccagggaccaga	13	3	7	18	1	0	1	0	0	0	1	0	2	0	2	7	1	4	0	7	1	2	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr4:104640553C>T	uc003hxe.1	-	1	423	c.280G>A	c.(280-282)GTG>ATG	p.V94M		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	94	Helical; Name=1; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		GCCACCACCACACCATACGCC	0.612													5	19					0	0	0.008291	0	0		T	104640553	T	T	104640553	3	4	6	1	0	0	0	0	1	0	0	0	15532	478	17	4	1137	4	TACR3	4	104640553	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	22514629	104640553	86513723	25	6520											
PCDH10	57575	broad.mit.edu	37	chr4	134072680	134072680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgaacgacaacgcgccgcGtttcagccagccggtctacg	8	7	12	14	7	2	1	1	1	1	0	2	2	2	1	3	1	5	1	3	1	3	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr4:134072680G>A	uc003iha.2	+	1	2211	c.1385G>A	c.(1384-1386)CGT>CAT	p.R462H	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.R462H	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	462	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AACGCGCCGCGTTTCAGCCAG	0.617													7	26					0	0	0.013537	0	0		A	134072680	A	A	134072680	3	1	6	1	0	0	0	0	1	0	0	0	11526	1145	40	1	1387	1	PCDH10	4	134072680	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	29432127	134072680	57081596	26	6521											
DNAH5	1767	broad.mit.edu	37	chr5	13776589	13776589	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccatcggctgaaccagtcaAttgtgcatcctgaaattagg	11	10	10	10	1	1	2	1	2	0	0	3	2	2	2	3	2	2	2	3	2	4	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr5:13776589A>G	uc003jfd.2	-	55	9374	c.9332T>C	c.(9331-9333)ATT>ACT	p.I3111T		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3111	AAA 4 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GAACCAGTCAATTGTGCATCC	0.453									Kartagener_syndrome				24	105					0	0	0.005443	0	0		G	13776589	G	G	13776589	3	3	6	1	0	0	0	0	1	0	0	0	4610	101	4	3	4642	3	DNAH5	5	13776589	Missense_Mutation	SNP	A	TCGA-BR-4188-01A-01D-1126-08		13776589	167138671	27	6522											
DMXL1	1657	broad.mit.edu	37	chr5	118469231	118469231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagtagctttccccacaggtGatgcaaactctctctgtaaa	11	11	7	12	0	2	1	0	1	2	0	4	1	3	1	2	1	3	4	2	1	4	3			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr5:118469231G>A	uc003ksd.2	+	12	1793	c.1612G>A	c.(1612-1614)GAT>AAT	p.D538N	DMXL1_uc010jcl.1_Missense_Mutation_p.D538N|DMXL1_uc003ksc.1_Missense_Mutation_p.D538N	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	538										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		CCCCACAGGTGATGCAAACTC	0.393													17	67					0	0	0.008871	0	0		A	118469231	A	A	118469231	3	1	6	1	0	0	0	0	1	0	0	0	4600	1290	45	4	1658	4	DMXL1	5	118469231	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	104692642	118469231	62446029	28	6523											
PCDHAC1	56135	broad.mit.edu	37	chr5	140307641	140307641	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcccttttcagctgacGgcttcctttgacaactacta	8	12	8	13	1	1	2	1	2	0	0	2	2	2	2	2	2	3	3	2	2	3	6			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr5:140307641G>A	uc003lih.2	+	1	1340	c.1164G>A	c.(1162-1164)ACG>ACA	p.T388T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Silent_p.T388T	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	388	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCAGCTGACGGCTTCCTTTG	0.507													7	23					0	0	0.001984	0	0		A	140307641	A	A	140307641	2	1	6	1	0	0	0	0	0	0	0	1	11551	1103	39	1		1	PCDHAC1	5	140307641	Silent	SNP	G	TCGA-BR-4188-01A-01D-1126-08	21838410	140307641	40607619	29	6524											
PCDHB16	57717	broad.mit.edu	37	chr5	140564164	140564164	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgccgctcccagaggcggCccccggccagacccaggcca	6	2	12	21	3	0	2	0	0	0	2	1	2	1	2	8	4	1	1	8	4	0	0			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr5:140564164C>G	uc003liv.2	+	1	3185	c.2030C>G	c.(2029-2031)GCC>GGC	p.A677G	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	677	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCAGAGGCGGCCCCCGGCCAG	0.682													6	18					0	0	0.001855	0	0		G	140564164	G	G	140564164	3	3	6	1	0	0	0	0	1	0	0	0	11560	739	26	5	2032	5	PCDHB16	5	140564164	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	256523	140564164	40351096	30	6525											
GCM2	9247	broad.mit.edu	37	chr6	10876693	10876693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctacctgaaaaaagatcgcGttgccatcaagccgccaaaa	15	6	7	13	3	1	2	1	1	0	1	2	2	1	2	5	0	3	1	5	0	7	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr6:10876693G>A	uc003mzn.3	-	3	513	c.441C>T	c.(439-441)AAC>AAT	p.N147N	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	147	GCM.				cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				AAAAGATCGCGTTGCCATCAA	0.498													8	51					0	0	0.00308	0	0		A	10876693	A	A	10876693	2	1	6	1	0	0	0	0	0	0	0	1	6313	1136	40	1		1	GCM2	6	10876693	Silent	SNP	G	TCGA-BR-4188-01A-01D-1126-08		10876693	160238374	31	6526											
THEMIS	387357	broad.mit.edu	37	chr6	128134866	128134866	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtactttttgtggatcacaAtggttttcccaggctgtaaa	9	15	10	7	0	1	0	1	0	0	0	2	1	2	1	1	4	1	4	1	4	4	6			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr6:128134866A>G	uc003qbi.2	-	5	1239	c.920T>C	c.(919-921)ATT>ACT	p.I307T	THEMIS_uc010kfa.2_Missense_Mutation_p.I210T|THEMIS_uc011ebt.1_Missense_Mutation_p.I307T|THEMIS_uc010kfb.2_Missense_Mutation_p.I272T	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	307	CABIT 2.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						GTGGATCACAATGGTTTTCCC	0.408													10	54					0	0	0.013537	0	0		G	128134866	G	G	128134866	3	3	6	1	0	0	0	0	1	0	0	0	15885	101	4	3	1138	3	THEMIS	6	128134866	Missense_Mutation	SNP	A	TCGA-BR-4188-01A-01D-1126-08	117258173	128134866	42980201	32	6527											
GRM1	2911	broad.mit.edu	37	chr6	146755675	146755675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagctcctccaggagtacGtgtatgagcacgagcgggaa	11	8	13	9	3	0	1	0	1	0	0	2	4	2	3	2	2	4	4	2	2	4	3			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr6:146755675G>A	uc010khw.1	+	9	3798	c.3328G>A	c.(3328-3330)GTG>ATG	p.V1110M	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	1110	Asp/Glu-rich (acidic).|Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CCAGGAGTACGTGTATGAGCA	0.627													12	54					0	0	0.004007	0	0		A	146755675	A	A	146755675	3	1	6	1	0	0	0	0	1	0	0	0	6812	1145	40	1	3423	1	GRM1	6	146755675	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	18620809	146755675	24359392	33	6528											
ESR1	2099	broad.mit.edu	37	chr6	152265479	152265479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctggccttgtccctgaCggccgaccagatggtcagtg	6	8	13	14	2	1	2	1	1	0	1	2	3	2	2	5	3	1	0	5	3	0	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr6:152265479C>T	uc003qom.3	+	6	1302	c.932C>T	c.(931-933)ACG>ATG	p.T311M	ESR1_uc010kin.2_Missense_Mutation_p.T311M|ESR1_uc010kio.2_Missense_Mutation_p.T313M|ESR1_uc010kip.2_Missense_Mutation_p.T310M|ESR1_uc003qon.3_Missense_Mutation_p.T311M|ESR1_uc003qoo.3_Missense_Mutation_p.T311M|ESR1_uc010kiq.2_Intron|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Intron|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Intron|ESR1_uc011eex.1_Missense_Mutation_p.T92M|ESR1_uc010kit.1_Missense_Mutation_p.T48M|ESR1_uc011eey.1_Missense_Mutation_p.T48M	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	311	Steroid-binding.|Interaction with AKAP13.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	TTGTCCCTGACGGCCGACCAG	0.557													8	44					0	0	0.006214	0	0		T	152265479	T	T	152265479	3	4	6	1	0	0	0	0	1	0	0	0	5264	536	19	1	946	1	ESR1	6	152265479	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	5509804	152265479	18849588	34	6529											
RABL5	64792	broad.mit.edu	37	chr7	100959744	100959744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacatctccatttccttccGgtggcttgggatgtcagcat	6	13	9	13	1	2	0	1	0	1	0	5	1	4	1	4	3	1	2	4	3	0	3	rs140464086	byFrequency	TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr7:100959744G>A	uc003uyl.2	-	4	389	c.286C>T	c.(286-288)CGG>TGG	p.R96W	RABL5_uc011kkk.1_Missense_Mutation_p.R19W|RABL5_uc011kkl.1_Missense_Mutation_p.R19W|RABL5_uc003uym.2_Missense_Mutation_p.R66W|RABL5_uc010lhw.2_RNA|RABL5_uc011kkm.1_Missense_Mutation_p.R96W	NM_022777	NP_073614	Q9H7X7	RABL5_HUMAN	RAB, member RAS oncogene family-like 5 isoform	96							GTP binding				0	Lung NSC(181;0.215)					ATTTCCTTCCGGTGGCTTGGG	0.517													6	61					0	0	0.001855	0	0		A	100959744	A	A	100959744	3	1	6	1	0	0	0	0	1	0	0	0	12998	1115	39	1	279	1	RABL5	7	100959744	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08		100959744	58178919	35	6530											
NEFL	4747	broad.mit.edu	37	chr8	24811294	24811294	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactgagtcgggtctcctcGccttccaagagtttcctggg	7	11	11	12	2	1	2	0	1	1	1	6	2	3	2	4	2	1	1	4	2	2	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr8:24811294G>A	uc003xee.2	-	3	1287	c.1185C>T	c.(1183-1185)GGC>GGT	p.G395G		NM_006158	NP_006149	P07196	NFL_HUMAN	neurofilament, light polypeptide 68kDa	395	Rod.|Coil 2B.				anterograde axon cargo transport|axon transport of mitochondrion|neurofilament bundle assembly|retrograde axon cargo transport|synaptic transmission	cytosol|neurofilament	identical protein binding|protein C-terminus binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.00965)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		GGGTCTCCTCGCCTTCCAAGA	0.527													4	14					0	0	0.009096	0	0		A	24811294	A	A	24811294	2	1	6	1	0	0	0	0	0	0	0	1	10334	1074	38	1		1	NEFL	8	24811294	Silent	SNP	G	TCGA-BR-4188-01A-01D-1126-08		24811294	121552728	36	6531											
YTHDF3	253943	broad.mit.edu	37	chr8	64098993	64098993	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catgggggacaagtggatctCagggacaatcaacacaaagt	15	6	12	8	0	2	0	2	0	1	0	3	3	2	3	0	4	1	0	0	4	4	0			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr8:64098993C>T	uc003xuy.2	+	5	740	c.424C>T	c.(424-426)CAG>TAG	p.Q142*	YTHDF3_uc010lys.2_Nonsense_Mutation_p.Q86*|YTHDF3_uc003xuz.2_Nonsense_Mutation_p.Q86*|YTHDF3_uc003xva.2_Nonsense_Mutation_p.Q86*|YTHDF3_uc011len.1_Nonsense_Mutation_p.Q86*	NM_152758	NP_689971	Q7Z739	YTHD3_HUMAN	YTH domain family, member 3	142											0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)			AAGTGGATCTCAGGGACAATC	0.438													4	49					0	0	0.000602	0	0		T	64098993	T	T	64098993	4	4	6	1	0	0	0	0	0	1	0	0	17526	813	29	4	437	4	YTHDF3	8	64098993	Nonsense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	39287699	64098993	82265029	37	6532											
KCNV1	27012	broad.mit.edu	37	chr8	110986297	110986297	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggacatatcggaacgcctgCgagctgcggtcgaagaagta	12	6	14	9	5	0	1	0	0	0	1	2	5	0	3	1	3	4	2	1	3	5	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr8:110986297C>T	uc003ynr.3	-	1	663	c.321G>A	c.(319-321)TCG>TCA	p.S107S	KCNV1_uc010mcw.2_Silent_p.S107S	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	107	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			GGAACGCCTGCGAGCTGCGGT	0.662													4	7					0	0	0.009096	0	0		T	110986297	T	T	110986297	2	4	6	1	0	0	0	0	0	0	0	1	8110	755	27	1		1	KCNV1	8	110986297	Silent	SNP	C	TCGA-BR-4188-01A-01D-1126-08	46887304	110986297	35377725	38	6533											
CSMD3	114788	broad.mit.edu	37	chr8	113564865	113564865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcaatcatccacatgcaaCgcaggttattgtcatatgga	12	11	7	11	1	3	0	3	0	0	0	4	1	4	1	2	2	2	3	2	2	4	3			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr8:113564865C>T	uc003ynu.2	-	26	4478	c.4319G>A	c.(4318-4320)CGT>CAT	p.R1440H	CSMD3_uc003yns.2_Missense_Mutation_p.R712H|CSMD3_uc003ynt.2_Missense_Mutation_p.R1400H|CSMD3_uc011lhx.1_Missense_Mutation_p.R1336H	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1440	Extracellular (Potential).|CUB 8.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCACATGCAACGCAGGTTATT	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			7	32					0	0	0.001984	0	0		T	113564865	T	T	113564865	3	4	6	1	0	0	0	0	1	0	0	0	3949	536	19	1	6988	1	CSMD3	8	113564865	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	2578568	113564865	32799157	39	6534											
ZHX2	22882	broad.mit.edu	37	chr8	123965143	123965143	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccagagccagttccctGacgatgccgaggtttaccgg	7	10	11	13	3	1	2	0	1	1	1	3	4	2	2	5	2	3	2	5	2	1	4			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr8:123965143G>T	uc003ypk.1	+	3	1960	c.1393G>T	c.(1393-1395)GAC>TAC	p.D465Y		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	465	Required for interaction with NFYA.|Homeobox 2.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			CCAGTTCCCTGACGATGCCGA	0.572													18	32					1.55795e-14	2.65851e-14	0.012319	1	0		T	123965143	T	T	123965143	3	4	6	1	0	0	0	0	1	0	0	0	17701	1290	45	5	1395	5	ZHX2	8	123965143	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	10400278	123965143	22398879	40	6535											
TMEFF1	8577	broad.mit.edu	37	chr9	103279048	103279048	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgatgaagatgcagaaaaTgttgggtgagttggttgagg	11	12	17	1	0	0	6	0	4	0	2	0	6	0	6	0	3	1	4	0	3	3	3			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr9:103279048T>C	uc004baz.1	+	5	665	c.555T>C	c.(553-555)AAT>AAC	p.N185N	TMEFF1_uc004bay.1_Silent_p.N259N	NM_003692	NP_003683	Q8IYR6	TEFF1_HUMAN	transmembrane protein with EGF-like and two	185	Kazal-like 2.|Extracellular (Potential).				multicellular organismal development	integral to membrane|plasma membrane					0		Acute lymphoblastic leukemia(62;0.0452)				ATGCAGAAAATGTTGGGTGAG	0.398													6	41					0	0	0.001168	0	0		C	103279048	C	C	103279048	2	2	6	1	0	0	0	0	0	0	0	1	16038	1461	51	3		3	TMEFF1	9	103279048	Silent	SNP	T	TCGA-BR-4188-01A-01D-1126-08		103279048	37934383	41	6536											
TNC	3371	broad.mit.edu	37	chr9	117849383	117849383	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcctcgcccgtgaagccGtcgtcacagatgcactgccc	7	7	10	17	4	1	2	1	1	0	1	4	2	2	2	4	0	3	1	4	0	1	0	rs138151398		TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr9:117849383G>A	uc004bjj.3	-	3	989	c.627C>T	c.(625-627)GAC>GAT	p.D209D	TNC_uc010mvf.2_Silent_p.D209D	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	209	EGF-like 2.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CCGTGAAGCCGTCGTCACAGA	0.602													6	28					0	0	0.001984	0	0		A	117849383	A	A	117849383	2	1	6	1	0	0	0	0	0	0	0	1	16295	1136	40	1		1	TNC	9	117849383	Silent	SNP	G	TCGA-BR-4188-01A-01D-1126-08	14570335	117849383	23364048	42	6537											
ZNF79	7633	broad.mit.edu	37	chr9	130206310	130206310	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcatttttttttcaggcTggaagattatatctggatca	9	20	7	5	0	4	1	3	0	1	1	4	3	4	3	0	3	0	1	0	3	3	8			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr9:130206310T>C	uc004bqw.3	+	5	745	c.331T>C	c.(331-333)TGG>CGG	p.W111R	ZNF79_uc011maf.1_Missense_Mutation_p.W87R|ZNF79_uc011mag.1_Missense_Mutation_p.W87R	NM_007135	NP_009066	Q15937	ZNF79_HUMAN	zinc finger protein 79	111					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						TTTTTCAGGCTGGAAGATTAT	0.483													15	58					0	0	0.003163	0	0		C	130206310	C	C	130206310	3	2	6	1	0	0	0	0	1	0	0	0	18186	1580	55	3	349	3	ZNF79	9	130206310	Missense_Mutation	SNP	T	TCGA-BR-4188-01A-01D-1126-08	12356927	130206310	11007121	43	6538											
GRID1	2894	broad.mit.edu	37	chr10	88123850	88123850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgcgttctcctcgaagatgGcacctggaggagagaaggga	10	6	15	10	3	1	2	0	0	1	2	3	7	1	5	3	4	0	2	3	4	2	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr10:88123850G>A	uc001kdl.1	-	2	184	c.83C>T	c.(82-84)GCC>GTC	p.A28V	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	28	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CTCGAAGATGGCACCTGGAGG	0.602										Multiple Myeloma(13;0.14)			4	33					0	0	0.000602	0	0		A	88123850	A	A	88123850	3	1	6	1	0	0	0	0	1	0	0	0	6787	1203	42	2	3006	2	GRID1	10	88123850	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08		88123850	47410897	44	6539											
TACC2	10579	broad.mit.edu	37	chr10	123976316	123976316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctgtccacctttgtaaacGagaccaaattcagttcaccc	12	10	5	14	1	2	1	2	0	0	1	3	2	3	1	5	0	1	2	5	0	3	4			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr10:123976316G>A	uc001lfv.2	+	11	7879	c.7519G>A	c.(7519-7521)GAG>AAG	p.E2507K	TACC2_uc001lfw.2_Missense_Mutation_p.E653K|TACC2_uc009xzx.2_Missense_Mutation_p.E2462K|TACC2_uc010qtv.1_Missense_Mutation_p.E2511K|TACC2_uc001lfx.2_Missense_Mutation_p.E211K|TACC2_uc001lfy.2_Missense_Mutation_p.E207K|TACC2_uc001lfz.2_Missense_Mutation_p.E585K|TACC2_uc001lga.2_Missense_Mutation_p.E585K|TACC2_uc009xzy.2_Missense_Mutation_p.E597K|TACC2_uc001lgb.2_Missense_Mutation_p.E542K|TACC2_uc010qtw.1_Missense_Mutation_p.E602K	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	2507						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				CTTTGTAAACGAGACCAAATT	0.582													13	59					0	0	0.00499	0	0		A	123976316	A	A	123976316	3	1	6	1	0	0	0	0	1	0	0	0	15527	1059	37	1	7629	1	TACC2	10	123976316	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	35852466	123976316	11558431	45	6540											
DMBT1	1755	broad.mit.edu	37	chr10	124402642	124402642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgttctcttccagatgcGtgagggatgacacctacgga	9	11	11	10	2	1	3	0	2	1	1	3	5	2	5	2	2	3	1	2	2	2	4			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr10:124402642G>A	uc001lgk.1	+	53	7076	c.6970G>A	c.(6970-6972)GTG>ATG	p.V2324M	DMBT1_uc001lgl.1_Missense_Mutation_p.V2314M|DMBT1_uc001lgm.1_Missense_Mutation_p.V1696M|DMBT1_uc009xzz.1_Missense_Mutation_p.V2323M|DMBT1_uc010qtx.1_Missense_Mutation_p.V1044M|DMBT1_uc009yab.1_Missense_Mutation_p.V1027M|DMBT1_uc009yac.1_Missense_Mutation_p.V618M	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	2324	ZP.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TTCCAGATGCGTGAGGGATGA	0.567													10	54					0	0	0.006214	0	0		A	124402642	A	A	124402642	3	1	6	1	0	0	0	0	1	0	0	0	4583	1145	40	1	7180	1	DMBT1	10	124402642	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	426326	124402642	11132105	46	6541											
OR5L1	219437	broad.mit.edu	37	chr11	55579431	55579431	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgattcatttgtgcttagcTcttaggatccccttctatag	7	17	7	10	0	3	1	1	1	2	0	4	2	4	2	2	1	2	2	2	1	4	7			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr11:55579431T>C	uc001nhw.1	+	1	489	c.489T>C	c.(487-489)GCT>GCC	p.A163A		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	163	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				TGTGCTTAGCTCTTAGGATCC	0.443													33	119					0	0	0.003755	0	0		C	55579431	C	C	55579431	2	2	6	1	0	0	0	0	0	0	0	1	11189	1538	54	3		3	OR5L1	11	55579431	Silent	SNP	T	TCGA-BR-4188-01A-01D-1126-08		55579431	79427085	47	6542											
RSF1	51773	broad.mit.edu	37	chr11	77386245	77386245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgtcatcattagatggcGgatcttcttcactttcatct	8	16	6	11	1	7	1	4	0	3	1	7	2	7	2	0	2	0	0	0	2	1	4	rs149460903	by1000genomes	TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr11:77386245G>A	uc001oyn.2	-	14	3518	c.3398C>T	c.(3397-3399)CCG>CTG	p.P1133L	RSF1_uc001oym.2_Missense_Mutation_p.P881L	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	1133					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			ATTAGATGGCGGATCTTCTTC	0.448													7	28					0	0	0.00308	0	0		A	77386245	A	A	77386245	3	1	6	1	0	0	0	0	1	0	0	0	13724	1116	39	1	939	1	RSF1	11	77386245	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	21806814	77386245	57620271	48	6543											
KCNA1	3736	broad.mit.edu	37	chr12	5021267	5021267	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagctggtggtgcgcttcttCgcctgccccagcaagacgga	6	8	14	13	3	1	1	0	0	1	1	2	3	1	2	3	3	4	3	3	3	1	2	rs147731985		TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr12:5021267C>T	uc001qnh.2	+	2	1828	c.723C>T	c.(721-723)TTC>TTT	p.F241F		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	241	Helical; Name=Segment S2; (Potential).				synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity	p.F241F(1)		ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TGCGCTTCTTCGCCTGCCCCA	0.493													10	36					0	0	0.001855	0	0		T	5021267	T	T	5021267	2	4	6	1	0	0	0	0	0	0	0	1	8017	883	31	1		1	KCNA1	12	5021267	Silent	SNP	C	TCGA-BR-4188-01A-01D-1126-08		5021267	128830628	49	6544											
PEX5	5830	broad.mit.edu	37	chr12	7361645	7361645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcttcctggcagctgtgcGgctggaccctacctccattg	4	11	11	15	1	1	0	0	0	1	0	3	1	3	1	4	3	3	4	4	3	1	3			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr12:7361645G>A	uc009zfu.1	+	15	2019	c.1439G>A	c.(1438-1440)CGG>CAG	p.R480Q	PEX5_uc001qsw.2_Missense_Mutation_p.R480Q|PEX5_uc010sgc.1_Missense_Mutation_p.R495Q|PEX5_uc001qsu.2_Missense_Mutation_p.R443Q|PEX5_uc010sgd.1_Missense_Mutation_p.R501Q|PEX5_uc001qsv.2_Missense_Mutation_p.R472Q	NM_001131026	NP_001124498	P50542	PEX5_HUMAN	peroxisomal biogenesis factor 5 isoform d	480	TPR 4.				protein import into peroxisome matrix, translocation|protein targeting to peroxisome|protein tetramerization|protein transport	cytosol|peroxisomal matrix|peroxisomal membrane	peroxisome matrix targeting signal-1 binding|protein C-terminus binding|protein N-terminus binding			ovary(1)	1						GCAGCTGTGCGGCTGGACCCT	0.502													17	41					0	0	0.010504	0	0		A	7361645	A	A	7361645	3	1	6	1	0	0	0	0	1	0	0	0	11767	1116	39	1	1534	1	PEX5	12	7361645	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	2340378	7361645	126490250	50	6545											
PLXNC1	10154	broad.mit.edu	37	chr12	94654549	94654549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgaaactcatgctgagacGcacggagtccgtcgtcgaaa	11	6	12	12	6	1	1	1	1	0	1	4	5	2	2	2	1	2	2	2	1	2	0			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr12:94654549G>A	uc001tdc.2	+	20	3632	c.3383G>A	c.(3382-3384)CGC>CAC	p.R1128H	PLXNC1_uc010sut.1_Missense_Mutation_p.R175H|PLXNC1_uc009zsv.2_5'Flank	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1128	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						ATGCTGAGACGCACGGAGTCC	0.522													9	37					0	0	0.008291	0	0		A	94654549	A	A	94654549	3	1	6	1	0	0	0	0	1	0	0	0	12145	1087	38	1	3461	1	PLXNC1	12	94654549	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	87292904	94654549	39197346	51	6546											
TPCN1	53373	broad.mit.edu	37	chr12	113730792	113730792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagaagagctggttgccGtcctggagctctaccgggag	9	7	14	11	2	1	2	0	0	1	2	2	4	2	4	4	3	4	3	4	3	3	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr12:113730792G>A	uc001tuw.2	+	26	2464	c.2167G>A	c.(2167-2169)GTC>ATC	p.V723I	TPCN1_uc001tux.2_Missense_Mutation_p.V795I|TPCN1_uc010syu.1_5'Flank	NM_017901	NP_060371	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1 isoform 2	723	Cytoplasmic (Potential).					endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated ion channel activity			skin(2)|ovary(1)	3						GCTGGTTGCCGTCCTGGAGCT	0.627													10	39					0	0	0.010729	0	0		A	113730792	A	A	113730792	3	1	6	1	0	0	0	0	1	0	0	0	16421	1145	40	1	2485	1	TPCN1	12	113730792	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	19076243	113730792	20121103	52	6547											
NBEA	26960	broad.mit.edu	37	chr13	36241608	36241608	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcttgatatctgtctccagCgaaggccactgtatcatata	10	12	8	11	2	3	1	1	1	2	0	4	2	3	1	2	1	1	2	2	1	5	5			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr13:36241608C>T	uc001uvb.2	+	56	8705	c.8499C>T	c.(8497-8499)AGC>AGT	p.S2833S	NBEA_uc010abi.2_Silent_p.S1491S|NBEA_uc010tef.1_Silent_p.S626S|NBEA_uc001uvd.2_Silent_p.S411S	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2833						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CTGTCTCCAGCGAAGGCCACT	0.468													24	119					0	0	0.004656	0	0		T	36241608	T	T	36241608	2	4	6	1	0	0	0	0	0	0	0	1	10205	767	27	1		1	NBEA	13	36241608	Silent	SNP	C	TCGA-BR-4188-01A-01D-1126-08		36241608	78928270	53	6548											
MYCBP2	23077	broad.mit.edu	37	chr13	77780921	77780921	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctggcatcagcaaccacCgcattgtaacaccacagctc	12	6	7	16	1	1	0	1	0	0	0	2	0	1	0	4	1	5	5	4	1	2	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr13:77780921C>T	uc001vkf.2	-	25	3433	c.3342G>A	c.(3340-3342)GCG>GCA	p.A1114A	MYCBP2_uc010aev.2_Silent_p.A518A	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1114					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CAGCAACCACCGCATTGTAAC	0.428													7	28					0	0	0.001984	0	0		T	77780921	T	T	77780921	2	4	6	1	0	0	0	0	0	0	0	1	10036	639	23	1		1	MYCBP2	13	77780921	Silent	SNP	C	TCGA-BR-4188-01A-01D-1126-08	41539313	77780921	37388957	54	6549											
PPP2R5C	5527	broad.mit.edu	37	chr14	102349871	102349871	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcttgagagcttacatcAgaaaacagataaataatata	19	10	7	5	0	1	3	1	1	0	3	1	4	1	3	0	1	3	2	0	1	9	7			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr14:102349871A>G	uc001yko.2	+	5	741	c.601A>G	c.(601-603)AGA>GGA	p.R201G	PPP2R5C_uc010txr.1_Missense_Mutation_p.R232G|PPP2R5C_uc001ykk.2_Missense_Mutation_p.R256G|PPP2R5C_uc010txt.1_Missense_Mutation_p.R191G|PPP2R5C_uc001ykn.2_Missense_Mutation_p.R201G|PPP2R5C_uc001ykp.2_Missense_Mutation_p.R201G|PPP2R5C_uc001ykq.2_Missense_Mutation_p.R99G|uc001ykr.1_5'Flank	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	201					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						AGCTTACATCAGAAAACAGAT	0.433													15	66					0	0	0.003163	0	0		G	102349871	G	G	102349871	3	3	6	1	0	0	0	0	1	0	0	0	12416	180	7	3	988	3	PPP2R5C	14	102349871	Missense_Mutation	SNP	A	TCGA-BR-4188-01A-01D-1126-08		102349871	4999669	55	6550											
UNC45A	55898	broad.mit.edu	37	chr15	91491480	91491480	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagagtttgtggaggatgcGgctgctctgaaagctctgtt	8	12	15	6	1	2	2	0	1	2	1	2	5	2	4	0	3	3	5	0	3	2	2	rs139418696	by1000genomes	TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr15:91491480G>A	uc002bqg.2	+	12	2044	c.1704G>A	c.(1702-1704)GCG>GCA	p.A568A	UNC45A_uc002bqd.2_Silent_p.A553A|UNC45A_uc010uqr.1_5'UTR|UNC45A_uc002bqi.2_5'Flank	NM_018671	NP_061141	Q9H3U1	UN45A_HUMAN	smooth muscle cell associated protein-1 isoform	568					cell differentiation|muscle organ development	nucleus|perinuclear region of cytoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			TGGAGGATGCGGCTGCTCTGA	0.582													11	36					0	0	0.001855	0	0		A	91491480	A	A	91491480	2	1	6	1	0	0	0	0	0	0	0	1	17014	1103	39	1		1	UNC45A	15	91491480	Silent	SNP	G	TCGA-BR-4188-01A-01D-1126-08		91491480	11039912	56	6551											
HS3ST2	9956	broad.mit.edu	37	chr16	22926408	22926408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcggaaccctgtgacccGtgccatctctgattacacgc	7	10	10	14	3	1	2	0	2	1	0	2	3	1	3	3	1	4	0	3	1	2	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr16:22926408G>A	uc002dli.2	+	2	701	c.629G>A	c.(628-630)CGT>CAT	p.R210H	HS3ST2_uc002dlj.2_RNA	NM_006043	NP_006034	Q9Y278	HS3S2_HUMAN	heparan sulfate D-glucosaminyl	210	PAPS and substrate (By similarity).|Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 2 activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(48;0.0299)		CCTGTGACCCGTGCCATCTCT	0.587													14	87					0	0	0.006122	0	0		A	22926408	A	A	22926408	3	1	6	1	0	0	0	0	1	0	0	0	7380	1145	40	1	635	1	HS3ST2	16	22926408	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08		22926408	67428345	57	6552											
SALL1	6299	broad.mit.edu	37	chr16	51174297	51174297	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcagagtggacccttcGgcttcctctgggagcccacc	5	8	14	14	1	1	1	0	0	1	1	3	3	2	3	4	5	1	2	4	5	0	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr16:51174297G>A	uc010vgs.1	-	2	1867	c.1836C>T	c.(1834-1836)GCC>GCT	p.A612A	SALL1_uc010vgr.1_Silent_p.A515A|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	612					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TGGACCCTTCGGCTTCCTCTG	0.622													4	10					0	0	0.000602	0	0		A	51174297	A	A	51174297	2	1	6	1	0	0	0	0	0	0	0	1	13835	1103	39	1		1	SALL1	16	51174297	Silent	SNP	G	TCGA-BR-4188-01A-01D-1126-08	28247889	51174297	39180456	58	6553											
CDH1	999	broad.mit.edu	37	chr16	68842699	68842699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tattattgaaagagaaacagGatggctgaaggtgacagagc	16	8	13	4	0	0	5	0	3	0	2	0	7	0	6	0	3	2	1	0	3	5	3			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr16:68842699G>A	uc002ewg.1	+	5	759	c.635G>A	c.(634-636)GGA>GAA	p.G212E	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.G212E	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	212	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding			breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		AGAGAAACAGGATGGCTGAAG	0.463			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				6	36					0	0	0.004482	0	0		A	68842699	A	A	68842699	3	1	6	1	0	0	0	0	1	0	0	0	3098	1174	41	4	653	4	CDH1	16	68842699	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	17668402	68842699	21512054	59	6554											
CNTNAP4	85445	broad.mit.edu	37	chr16	76556042	76556042	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggcaccatgtgagggtTgaaaggaacatgaaggaggc	13	6	16	6	0	0	3	0	3	0	0	0	5	0	5	1	5	1	2	1	5	3	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr16:76556042T>G	uc002feu.1	+	19	3028	c.2643T>G	c.(2641-2643)GTT>GTG	p.V881V	CNTNAP4_uc002fev.1_Silent_p.V745V|CNTNAP4_uc010chb.1_Silent_p.V808V|CNTNAP4_uc002fex.1_Silent_p.V884V	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	881	Extracellular (Potential).|Laminin G-like 3.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						ATGTGAGGGTTGAAAGGAACA	0.522													17	89					0	0	0.004656	0	0		G	76556042	G	G	76556042	2	3	6	1	0	0	0	0	0	0	0	1	3652	1799	63	5		5	CNTNAP4	16	76556042	Silent	SNP	T	TCGA-BR-4188-01A-01D-1126-08	7713343	76556042	13798711	60	6555											
VAT1L	57687	broad.mit.edu	37	chr16	77918562	77918562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggagaacaaagtcatcGcggggttttcccttttaaat	12	12	10	7	2	1	2	1	1	0	1	3	3	2	2	1	3	1	1	1	3	4	4			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr16:77918562G>A	uc002ffg.1	+	7	1037	c.940G>A	c.(940-942)GCG>ACG	p.A314T		NM_020927	NP_065978	Q9HCJ6	VAT1L_HUMAN	vesicle amine transport protein 1 homolog (T.	314							oxidoreductase activity|zinc ion binding			central_nervous_system(1)	1						CAAAGTCATCGCGGGGTTTTC	0.502													5	10					0	0	0.001168	0	0		A	77918562	A	A	77918562	3	1	6	1	0	0	0	0	1	0	0	0	17156	1087	38	1	966	1	VAT1L	16	77918562	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	1362520	77918562	12436191	61	6556											
DNAH9	1770	broad.mit.edu	37	chr17	11651040	11651040	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagcagtcacaaatgatgaGctctttggcatcatcaatcc	14	10	7	10	0	4	2	3	2	1	0	5	2	5	2	1	1	2	3	1	1	3	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr17:11651040G>A	uc002gne.2	+	32	6635	c.6567G>A	c.(6565-6567)GAG>GAA	p.E2189E	DNAH9_uc010coo.2_Silent_p.E1483E	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2189	AAA 2 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CAAATGATGAGCTCTTTGGCA	0.527													8	31					0	0	0.00308	0	0		A	11651040	A	A	11651040	2	1	6	1	0	0	0	0	0	0	0	1	4614	962	34	2		2	DNAH9	17	11651040	Silent	SNP	G	TCGA-BR-4188-01A-01D-1126-08		11651040	69544170	62	6557											
MYO1D	4642	broad.mit.edu	37	chr17	30932222	30932222	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttcgtatggaacactacaAgttggtcctttccattggag	9	14	9	9	1	0	0	0	0	0	0	3	2	2	2	2	3	2	2	2	3	4	6			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr17:30932222A>G	uc002hho.1	-	21	2759	c.2747T>C	c.(2746-2748)CTT>CCT	p.L916P	MYO1D_uc002hhp.1_Missense_Mutation_p.L916P	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	916						myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			GAACACTACAAGTTGGTCCTT	0.403													11	33					0	0	0.001855	0	0		G	30932222	G	G	30932222	3	3	6	1	0	0	0	0	1	0	0	0	10089	72	3	3	281	3	MYO1D	17	30932222	Missense_Mutation	SNP	A	TCGA-BR-4188-01A-01D-1126-08	19281182	30932222	50262988	63	6558											
KRT16	3868	broad.mit.edu	37	chr17	39767374	39767374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttttctctgccatctgctCgtactggtcacgcatctcat	5	16	7	13	2	4	0	2	0	3	0	7	0	4	0	1	1	3	4	1	1	1	3			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr17:39767374C>T	uc002hxg.3	-	4	1019	c.880G>A	c.(880-882)GAG>AAG	p.E294K	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	294	Rod.|Coil 2.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				GCCATCTGCTCGTACTGGTCA	0.617													16	76					0	0	0.007413	0	0		T	39767374	T	T	39767374	3	4	6	1	0	0	0	0	1	0	0	0	8469	893	31	1	561	1	KRT16	17	39767374	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	8835152	39767374	41427836	64	6559											
OSBPL7	114881	broad.mit.edu	37	chr17	45894030	45894030	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagactccaggtagcgagacAggttgggaacagagccatgg	12	5	16	8	1	0	3	0	0	0	3	1	6	1	4	2	4	3	2	2	4	2	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr17:45894030A>T	uc002ilx.1	-	10	1030	c.827T>A	c.(826-828)CTG>CAG	p.L276Q	OSBPL7_uc002ilw.1_5'UTR	NM_145798	NP_665741	Q9BZF2	OSBL7_HUMAN	oxysterol-binding protein-like protein 7	276					lipid transport		lipid binding				0						GTAGCGAGACAGGTTGGGAAC	0.647													6	13					0	0	0.00308	0	0		T	45894030	T	T	45894030	3	4	6	1	0	0	0	0	1	0	0	0	11301	188	7	5	1757	5	OSBPL7	17	45894030	Missense_Mutation	SNP	A	TCGA-BR-4188-01A-01D-1126-08	6126656	45894030	35301180	65	6560											
TANC2	26115	broad.mit.edu	37	chr17	61498701	61498701	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcgcttctctccatctagCaatagtatctcctccacctc	7	14	3	17	1	3	0	0	0	3	0	9	0	5	0	4	0	1	3	4	0	4	5			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr17:61498701C>G	uc002jal.3	+	25	5381	c.5358C>G	c.(5356-5358)AGC>AGG	p.S1786R	TANC2_uc010wpe.1_3'UTR|TANC2_uc002jao.3_Missense_Mutation_p.S897R	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1786							binding			ovary(2)	2						CTCCATCTAGCAATAGTATCT	0.517													11	47					0	0	0.010729	0	0		G	61498701	G	G	61498701	3	3	6	1	0	0	0	0	1	0	0	0	15570	709	25	5	5456	5	TANC2	17	61498701	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	15604671	61498701	19696509	66	6561											
RGS9	8787	broad.mit.edu	37	chr17	63221358	63221358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgggtccatggccccccGtgggccctctgtcaccgaga	5	6	13	17	3	2	1	1	0	1	1	3	2	3	1	6	3	1	0	6	3	0	0			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr17:63221358G>A	uc002jfe.2	+	18	1756	c.1646G>A	c.(1645-1647)CGT>CAT	p.R549H	RGS9_uc010dem.2_Missense_Mutation_p.R546H|RGS9_uc002jfd.2_Missense_Mutation_p.R546H|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Missense_Mutation_p.R320H	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	549				GSMAPR -> WSGANP (in Ref. 7; AAC25430).	intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						ATGGCCCCCCGTGGGCCCTCT	0.687													8	35					0	0	0.006214	0	0		A	63221358	A	A	63221358	3	1	6	1	0	0	0	0	1	0	0	0	13338	1145	40	1	1771	1	RGS9	17	63221358	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	1722657	63221358	17973852	67	6562											
CD7	924	broad.mit.edu	37	chr17	80274701	80274701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccccggaaccgtctgtccGtagtgggcaccaccccgtcc	5	6	12	18	4	1	0	0	0	1	0	3	1	3	1	8	3	1	2	8	3	2	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr17:80274701G>A	uc002kel.1	-	2	348	c.239C>T	c.(238-240)ACG>ATG	p.T80M	CD7_uc010din.2_Missense_Mutation_p.T80M|CD7_uc002kem.2_Silent_p.Y61Y|CD7_uc010wvk.1_Missense_Mutation_p.T80M	NM_006137	NP_006128	P09564	CD7_HUMAN	CD7 antigen precursor	80	Ig-like.|Extracellular (Probable).				immune response|T cell activation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|membrane fraction|plasma membrane	receptor activity				0	Breast(20;0.000675)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.249)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0667)			CCGTCTGTCCGTAGTGGGCAC	0.637													7	35					0	0	0.001984	0	0		A	80274701	A	A	80274701	3	1	6	1	0	0	0	0	1	0	0	0	3035	1145	40	1	495	1	CD7	17	80274701	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	17053343	80274701	920509	68	6563											
MALT1	10892	broad.mit.edu	37	chr18	56376637	56376637	+	Missense_Mutation	SNP	A	C	C																															tgatggcgtctctgaatccaAgttgcaaatctgtgttgaac																								rs149988025		TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr18:56376637A>C	uc002lhm.1	+	5	935	c.677A>C	c.(676-678)AAG>ACG	p.K226T	MALT1_uc002lhn.1_Missense_Mutation_p.K226T	NM_006785	NP_006776	Q9UDY8	MALT1_HUMAN	mucosa associated lymphoid tissue lymphoma	226	Ig-like C2-type 2.				activation of NF-kappaB-inducing kinase activity|anti-apoptosis|nuclear export|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of protein ubiquitination|positive regulation of T cell cytokine production|protein oligomerization|proteolysis|T cell receptor signaling pathway	CBM complex|cytosol|nucleus|perinuclear region of cytoplasm	cysteine-type endopeptidase activity|protein self-association|signal transducer activity|ubiquitin-protein ligase activity			ovary(2)|lung(1)|central_nervous_system(1)	4						TCTGAATCCAAGTTGCAAATC	0.358			T	BIRC3	MALT								8	49					0	0	0.008291	0	0		C	56376637	C	C	56376637	3	2	6	1	0	0	0	0	1	0	0	0	9220	72	3	5	695	5	MALT1	18	56376637	Missense_Mutation	SNP	A	TCGA-BR-4188-01A-01D-1126-08		56376637	21700611	69	6564	12	2									
MALT1	10892	broad.mit.edu	37	chr18	56376642	56376642	+	Nonsense_Mutation	SNP	C	T	T																															gcgtctctgaatccaagttgCaaatctgtgttgaaccaact																										TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr18:56376642C>T	uc002lhm.1	+	5	940	c.682C>T	c.(682-684)CAA>TAA	p.Q228*	MALT1_uc002lhn.1_Nonsense_Mutation_p.Q228*	NM_006785	NP_006776	Q9UDY8	MALT1_HUMAN	mucosa associated lymphoid tissue lymphoma	228	Ig-like C2-type 2.				activation of NF-kappaB-inducing kinase activity|anti-apoptosis|nuclear export|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of protein ubiquitination|positive regulation of T cell cytokine production|protein oligomerization|proteolysis|T cell receptor signaling pathway	CBM complex|cytosol|nucleus|perinuclear region of cytoplasm	cysteine-type endopeptidase activity|protein self-association|signal transducer activity|ubiquitin-protein ligase activity			ovary(2)|lung(1)|central_nervous_system(1)	4						ATCCAAGTTGCAAATCTGTGT	0.358			T	BIRC3	MALT								10	50					0	0	0.013537	0	0		T	56376642	T	T	56376642	4	4	6	1	0	0	0	0	0	1	0	0	9220	711	25	2	700	2	MALT1	18	56376642	Nonsense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	5	56376642	21700606	70	6565	12	2									
RLN3	117579	broad.mit.edu	37	chr19	14139122	14139122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttacggggtcaggctttgcGgccgagaattcatccgagca	8	9	13	11	4	2	1	2	0	0	1	3	3	3	1	2	4	3	2	2	4	2	3	rs141631429		TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr19:14139122G>A	uc002mxw.1	+	1	106	c.106G>A	c.(106-108)GGC>AGC	p.G36S	RLN3_uc010dzj.1_Missense_Mutation_p.G36S	NM_080864	NP_543140	Q8WXF3	REL3_HUMAN	relaxin 3 preproprotein	36						extracellular region	hormone activity				0						CAGGCTTTGCGGCCGAGAATT	0.662													4	24					0	0	0.001168	0	0		A	14139122	A	A	14139122	3	1	6	1	0	0	0	0	1	0	0	0	13418	1116	39	1	108	1	RLN3	19	14139122	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08		14139122	44989861	71	6566											
ZNF714	148206	broad.mit.edu	37	chr19	21299790	21299790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggttatgaactaaaccagtGtttgacaactacccagagca	15	9	8	9	0	0	3	0	2	0	1	0	3	0	3	2	1	5	3	2	1	6	4			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr19:21299790G>A	uc002npo.3	+	6	683	c.323G>A	c.(322-324)TGT>TAT	p.C108Y	ZNF714_uc002npl.2_5'UTR|ZNF714_uc010ecp.1_Missense_Mutation_p.C59Y|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTAAACCAGTGTTTGACAACT	0.328													7	26					0	0	0.00308	0	0		A	21299790	A	A	21299790	3	1	6	1	0	0	0	0	1	0	0	0	18143	1377	48	4	330	4	ZNF714	19	21299790	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	7160668	21299790	37829193	72	6567											
MLL4	9757	broad.mit.edu	37	chr19	36221615	36221615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccacatgccaggtgctccCgtctgtactggagcacagtg	7	9	11	14	1	1	0	0	0	1	0	3	1	3	1	3	2	4	3	3	2	1	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr19:36221615C>T	uc010eei.2	+	27	5284	c.5284C>T	c.(5284-5286)CGT>TGT	p.R1762C		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1762	FYR N-terminal.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CAGGTGCTCCCGTCTGTACTG	0.612													9	39					0	0	0.013537	0	0		T	36221615	T	T	36221615	3	4	6	1	0	0	0	0	1	0	0	0	9641	652	23	1	5386	1	MLL4	19	36221615	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	14921825	36221615	22907368	73	6568											
PSG8	440533	broad.mit.edu	37	chr19	43262204	43262204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggcactcactgggttcCgtatttcacattcatagggt	7	13	11	10	1	3	0	3	0	0	0	4	0	4	0	1	4	0	4	1	4	2	5	rs139399276	byFrequency	TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr19:43262204C>T	uc002ouo.2	-	3	757	c.659G>A	c.(658-660)CGG>CAG	p.R220Q	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc010eim.2_RNA|PSG8_uc002oui.2_Missense_Mutation_p.R59Q|PSG8_uc002ouh.2_Missense_Mutation_p.R220Q|PSG8_uc010ein.2_Missense_Mutation_p.R98Q|PSG8_uc002ouj.3_Intron|PSG8_uc002ouk.3_Missense_Mutation_p.R59Q|PSG8_uc002oul.3_Missense_Mutation_p.R220Q|PSG8_uc002oum.3_Intron|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Intron	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	220	Ig-like C2-type 1.					extracellular region					0		Prostate(69;0.00899)				CACTGGGTTCCGTATTTCACA	0.507													43	183					0	0	0.01441	0	0		T	43262204	T	T	43262204	3	4	6	1	0	0	0	0	1	0	0	0	12683	652	23	1	654	1	PSG8	19	43262204	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	7040589	43262204	15866779	74	6569											
CRX	1406	broad.mit.edu	37	chr19	48343048	48343048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccctctctggcccctccGtgggaccttccctggcccag	2	8	10	21	1	1	0	0	0	1	0	4	1	3	1	8	3	0	0	8	3	0	1	rs61748459	byFrequency	TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr19:48343048G>A	uc002phq.3	+	4	928	c.724G>A	c.(724-726)GTG>ATG	p.V242M		NM_000554	NP_000545	O43186	CRX_HUMAN	cone-rod homeobox protein	242			V -> M (in CORD2).		organ morphogenesis|response to stimulus|visual perception		leucine zipper domain binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2		all_cancers(25;2.76e-09)|all_epithelial(76;7.01e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000266)|all cancers(93;0.000788)|Epithelial(262;0.0226)|GBM - Glioblastoma multiforme(486;0.0521)		TGGCCCCTCCGTGGGACCTTC	0.652													11	64					0	0	0.010729	0	0		A	48343048	A	A	48343048	3	1	6	1	0	0	0	0	1	0	0	0	3905	1145	40	1	734	1	CRX	19	48343048	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	5080844	48343048	10785935	75	6570											
AURKC	6795	broad.mit.edu	37	chr19	57743416	57743416	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcaggcggcgcctcacagtCgatgactttgaaatcgggcg	8	8	14	11	5	2	2	2	2	0	0	4	3	2	2	1	3	0	0	1	3	1	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr19:57743416C>T	uc002qoe.2	+	3	309	c.120C>T	c.(118-120)GTC>GTT	p.V40V	AURKC_uc002qoc.2_Silent_p.V21V|AURKC_uc002qod.2_Silent_p.V6V|AURKC_uc010etv.2_Silent_p.V37V	NM_001015878	NP_001015878	Q9UQB9	AURKC_HUMAN	aurora kinase C isoform 1	40					cell cycle|cytokinesis	condensed chromosome|cytoplasm|midbody|spindle midzone	ATP binding|protein serine/threonine kinase activity			lung(4)|ovary(2)	6		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0122)		GCCTCACAGTCGATGACTTTG	0.562													8	23					0	0	0.004482	0	0		T	57743416	T	T	57743416	2	4	6	1	0	0	0	0	0	0	0	1	1225	871	31	1		1	AURKC	19	57743416	Silent	SNP	C	TCGA-BR-4188-01A-01D-1126-08	9400368	57743416	1385567	76	6571											
TTLL9	164395	broad.mit.edu	37	chr20	30521649	30521649	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caaaaaacatctcccgactaCcacccaaagaaggtgaggaa	18	4	7	12	1	1	2	0	1	1	1	2	4	1	3	3	2	2	0	3	2	7	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr20:30521649C>T	uc010gdx.1	+	11	1048	c.795C>T	c.(793-795)TAC>TAT	p.Y265Y	TTLL9_uc002wwy.1_RNA|TTLL9_uc002wwz.1_RNA|TTLL9_uc002wxa.1_RNA|TTLL9_uc002wxb.1_RNA|TTLL9_uc010zto.1_RNA|TTLL9_uc002wxc.2_Silent_p.Y167Y|TTLL9_uc010ztp.1_RNA|TTLL9_uc010ztq.1_RNA	NM_001008409	NP_001008409	Q3SXZ7	TTLL9_HUMAN	tubulin tyrosine ligase-like family, member 9	265	TTL.				protein modification process	cilium|microtubule|microtubule basal body	ATP binding|tubulin-tyrosine ligase activity			ovary(2)	2			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			CTCCCGACTACCACCCAAAGA	0.612													5	21					0	0	0.001984	0	0		T	30521649	T	T	30521649	2	4	6	1	0	0	0	0	0	0	0	1	16760	518	18	4		4	TTLL9	20	30521649	Silent	SNP	C	TCGA-BR-4188-01A-01D-1126-08		30521649	32503871	77	6572											
TIAM1	7074	broad.mit.edu	37	chr21	32492758	32492758	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaatgacttcctcgcttgcGctctccaggcctccattgat	7	12	7	15	2	1	2	0	2	1	0	5	2	3	2	4	1	1	2	4	1	1	3			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr21:32492758G>A	uc002yow.1	-	29	5176	c.4704C>T	c.(4702-4704)AGC>AGT	p.S1568S	TIAM1_uc011adk.1_3'UTR|TIAM1_uc011adl.1_Silent_p.S1508S	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1568					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CCTCGCTTGCGCTCTCCAGGC	0.577													7	46					0	0	0.004482	0	0		A	32492758	A	A	32492758	2	1	6	1	0	0	0	0	0	0	0	1	15915	1078	38	1		1	TIAM1	21	32492758	Silent	SNP	G	TCGA-BR-4188-01A-01D-1126-08		32492758	15637137	78	6573											
PDE9A	5152	broad.mit.edu	37	chr21	44151921	44151921	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacaagccgtggccagtctGctgagagaccactgagggac	10	5	13	13	1	1	3	0	2	1	1	1	5	1	4	4	2	2	1	4	2	1	0			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr21:44151921G>T	uc002zbm.2	+	5	367	c.304G>T	c.(304-306)GCT>TCT	p.A102S	PDE9A_uc002zbn.2_Intron|PDE9A_uc002zbo.2_Intron|PDE9A_uc002zbp.2_5'UTR|PDE9A_uc002zbq.2_Intron|PDE9A_uc002zbs.2_Intron|PDE9A_uc002zbr.2_Intron|PDE9A_uc002zbt.2_Intron|PDE9A_uc002zbu.2_Intron|PDE9A_uc002zbv.2_Intron|PDE9A_uc002zbw.2_Intron|PDE9A_uc002zbx.2_Intron|PDE9A_uc002zby.2_Intron|PDE9A_uc002zbz.2_Intron|PDE9A_uc002zca.2_Missense_Mutation_p.A61S|PDE9A_uc002zcb.2_Missense_Mutation_p.A76S|PDE9A_uc002zcc.2_Intron|PDE9A_uc002zcd.2_Intron|PDE9A_uc002zce.2_Missense_Mutation_p.A35S|PDE9A_uc002zcf.2_5'UTR|PDE9A_uc002zcg.2_Intron|PDE9A_uc002zch.2_5'UTR	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a	102					platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						TGGCCAGTCTGCTGAGAGACC	0.567													8	31					0.00010058	0.000167034	0.013537	1	0		T	44151921	T	T	44151921	3	4	6	1	0	0	0	0	1	0	0	0	11674	1319	46	5	402	5	PDE9A	21	44151921	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	11659163	44151921	3977974	79	6574											
AGPAT3	56894	broad.mit.edu	37	chr21	45390580	45390580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacggagaccaagcaccGcgttagcatggaggtggcgg	9	6	15	11	4	1	1	1	0	0	1	1	3	1	2	2	5	2	3	2	5	2	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr21:45390580G>A	uc002zdv.2	+	6	779	c.557G>A	c.(556-558)CGC>CAC	p.R186H	AGPAT3_uc002zdw.2_Missense_Mutation_p.R186H|AGPAT3_uc002zdx.2_Missense_Mutation_p.R273H|AGPAT3_uc002zdy.2_Missense_Mutation_p.R124H	NM_020132	NP_064517	Q9NRZ7	PLCC_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 3	186	Lumenal (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0				STAD - Stomach adenocarcinoma(101;0.18)|Colorectal(79;0.24)		ACCAAGCACCGCGTTAGCATG	0.622													11	25					0	0	0.013537	0	0		A	45390580	A	A	45390580	3	1	6	1	0	0	0	0	1	0	0	0	388	1087	38	1	571	1	AGPAT3	21	45390580	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	1238659	45390580	2739315	80	6575											
HIRA	7290	broad.mit.edu	37	chr22	19349416	19349416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgctctccaggaggtctCggggcctcagctctttcaca	5	11	11	14	1	5	0	2	0	3	0	7	1	5	1	2	4	3	3	2	4	0	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr22:19349416C>T	uc002zpf.1	-	16	2034	c.1814G>A	c.(1813-1815)CGA>CAA	p.R605Q	HIRA_uc011agx.1_Missense_Mutation_p.R471Q|HIRA_uc010grn.1_Intron|HIRA_uc010gro.1_Missense_Mutation_p.R561Q|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	605	Interaction with CCNA1.|Interaction with PAX3 (By similarity).|Interaction with histone H2B.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					CAGGAGGTCTCGGGGCCTCAG	0.378													15	52					0	0	0.00245	0	0		T	19349416	T	T	19349416	3	4	6	1	0	0	0	0	1	0	0	0	7136	884	31	1	1279	1	HIRA	22	19349416	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08		19349416	31955150	81	6576											
PLA2G3	50487	broad.mit.edu	37	chr22	31536082	31536082	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcagtctcatgagcacAgagagcaccgtaggctgcgg	10	5	14	12	2	1	2	1	1	1	1	2	3	1	2	2	3	3	5	2	3	1	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chr22:31536082A>G	uc003aka.2	-	1	388	c.259T>C	c.(259-261)TGT>CGT	p.C87R		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	87					cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						TCATGAGCACAGAGAGCACCG	0.642													4	18					0	0	0.000602	0	0		G	31536082	G	G	31536082	3	3	6	1	0	0	0	0	1	0	0	0	12019	188	7	3	1298	3	PLA2G3	22	31536082	Missense_Mutation	SNP	A	TCGA-BR-4188-01A-01D-1126-08	12186666	31536082	19768484	82	6577											
AKAP4	8852	broad.mit.edu	37	chrX	49958235	49958235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aatcaaatcggacacaatctCcttggtgtgccttagcaaca	13	10	7	11	1	2	0	1	0	1	0	4	1	2	1	2	2	3	1	2	2	5	2			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chrX:49958235C>T	uc004dow.1	-	5	1253	c.1129G>A	c.(1129-1131)GAG>AAG	p.E377K	AKAP4_uc004dov.1_Intron|AKAP4_uc010njp.1_Missense_Mutation_p.E199K|AKAP4_uc004dou.1_Missense_Mutation_p.E368K	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	377					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					GACACAATCTCCTTGGTGTGC	0.463													10	40					0	0	0.006214	0	0		T	49958235	T	T	49958235	3	4	6	1	0	0	0	0	1	0	0	0	453	864	30	4	1443	4	AKAP4	23	49958235	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08		49958235	105312325	83	6578											
TRO	7216	broad.mit.edu	37	chrX	54956240	54956240	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcactcaacaccaatgctgGttatggtggtgctgtcagca	9	11	11	10	0	2	0	2	0	0	0	2	0	2	0	1	3	5	5	1	3	3	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chrX:54956240G>T	uc004dtq.2	+	12	3190	c.3083G>T	c.(3082-3084)GGT>GTT	p.G1028V	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Missense_Mutation_p.G559V|TRO_uc004dtw.2_Missense_Mutation_p.G631V|TRO_uc004dtx.2_Missense_Mutation_p.G411V	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	1028	62 X 10 AA approximate tandem repeats.|22; approximate.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						ACCAATGCTGGTTATGGTGGT	0.547													6	37					0.00116845	0.00188983	0.001168	1	0		T	54956240	T	T	54956240	3	4	6	1	0	0	0	0	1	0	0	0	16600	1261	44	5	3125	5	TRO	23	54956240	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	4998005	54956240	100314320	84	6579											
AMOT	154796	broad.mit.edu	37	chrX	112035098	112035098	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagttccctctccagtcGtgtccggagacggtgctcta	5	12	10	14	3	2	1	0	0	2	1	7	2	5	1	4	2	1	2	4	2	1	3			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chrX:112035098G>A	uc004epr.2	-	6	1888	c.1888C>T	c.(1888-1890)CGA>TGA	p.R630*	AMOT_uc004eps.2_Nonsense_Mutation_p.R221*	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	630	Potential.				actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						CTCTCCAGTCGTGTCCGGAGA	0.483													12	91					0	0	0.001855	0	0		A	112035098	A	A	112035098	4	1	6	1	0	0	0	0	0	1	0	0	582	1153	40	1	1390	1	AMOT	23	112035098	Nonsense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	57078858	112035098	43235462	85	6580											
THOC2	57187	broad.mit.edu	37	chrX	122755146	122755146	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctctggatggctccttctCtctttccctttcttgagttg	2	20	7	12	0	4	1	0	1	4	0	8	2	6	2	2	2	0	2	2	2	0	6			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chrX:122755146C>G	uc004etu.2	-	31	4110	c.4078G>C	c.(4078-4080)GAG>CAG	p.E1360Q	THOC2_uc010nqt.1_RNA|THOC2_uc004etw.1_Missense_Mutation_p.E181Q	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1360	Lys-rich.				intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						GGCTCCTTCTCTCTTTCCCTT	0.368													19	115					0	0	0.014323	0	0		G	122755146	G	G	122755146	3	3	6	1	0	0	0	0	1	0	0	0	15890	922	32	5	735	5	THOC2	23	122755146	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	10720048	122755146	32515414	86	6581											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299117	125299117	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaggccagggcccgtaccTtgcggttgctggggttggtg	4	10	18	9	2	0	1	0	1	0	0	0	1	0	1	3	6	3	4	3	6	2	4			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chrX:125299117T>C	uc004euk.1	-	1	818	c.791A>G	c.(790-792)AAG>AGG	p.K264R		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	264	WD 3.									lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						GGCCCGTACCTTGCGGTTGCT	0.637													10	30					0	0	0.008291	0	0		C	125299117	C	C	125299117	3	2	6	1	0	0	0	0	1	0	0	0	4268	1609	56	3	604	3	DCAF12L2	23	125299117	Missense_Mutation	SNP	T	TCGA-BR-4188-01A-01D-1126-08	2543971	125299117	29971443	87	6582											
GPR101	83550	broad.mit.edu	37	chrX	136113194	136113194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggctgcacagaacaccaCggagtagcaggcaatcatga	13	4	12	12	2	1	2	1	1	0	1	1	3	1	3	2	3	3	5	2	3	3	1			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chrX:136113194C>T	uc011mwh.1	-	1	640	c.640G>A	c.(640-642)GTG>ATG	p.V214M		NM_054021	NP_473362	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	214	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					CAGAACACCACGGAGTAGCAG	0.537													10	45					0	0	0.010729	0	0		T	136113194	T	T	136113194	3	4	6	1	0	0	0	0	1	0	0	0	6637	536	19	1	889	1	GPR101	23	136113194	Missense_Mutation	SNP	C	TCGA-BR-4188-01A-01D-1126-08	10814077	136113194	19157366	88	6583											
PLXNB3	5365	broad.mit.edu	37	chrX	153043007	153043007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctgcagaagtttgtggacGacaccttccaggccattctc	8	10	10	13	2	1	1	0	0	1	1	3	3	2	2	3	2	1	3	3	2	1	3			TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chrX:153043007G>A	uc004fii.2	+	31	5299	c.5125G>A	c.(5125-5127)GAC>AAC	p.D1709N	PLXNB3_uc010nuk.2_Missense_Mutation_p.D1732N|PLXNB3_uc011mzd.1_Missense_Mutation_p.D1348N|SRPK3_uc004fik.2_5'UTR	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1709	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					GTTTGTGGACGACACCTTCCA	0.627													19	47					0	0	0.010504	0	0		A	153043007	A	A	153043007	3	1	6	1	0	0	0	0	1	0	0	0	12144	1058	37	1	5361	1	PLXNB3	23	153043007	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	16929813	153043007	2227553	89	6584											
MECP2	4204	broad.mit.edu	37	chrX	153297980	153297980	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtttgtccttgaggccctGgaggtcctggtcttctgact	3	14	14	10	0	2	2	0	2	2	0	4	3	4	3	3	5	0	1	3	5	0	3	rs61754425		TCGA-BR-4188-01A-01D-1126-08	TCGA-BR-4188-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1006a43-c576-49f4-aa45-1ab5dfc3b0e4	5719f03a-27b7-4219-b949-38b4d2a86977	g.chrX:153297980G>C	uc004fjv.2	-	3	281	c.55C>G	c.(55-57)CAG>GAG	p.Q19E	MECP2_uc004fjw.2_Missense_Mutation_p.Q31E	NM_004992	NP_004983	P51608	MECP2_HUMAN	methyl CpG binding protein 2 isoform 1	19					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	heterochromatin|nucleus	double-stranded methylated DNA binding|protein domain specific binding|protein N-terminus binding|transcription corepressor activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TTGAGGCCCTGGAGGTCCTGG	0.478													17	67					0	0	0.007413	0	0		C	153297980	C	C	153297980	3	2	6	1	0	0	0	0	1	0	0	0	9441	1357	47	5	1413	5	MECP2	23	153297980	Missense_Mutation	SNP	G	TCGA-BR-4188-01A-01D-1126-08	254973	153297980	1972580	90	6585											
LOC440563	440563	broad.mit.edu	37	chr1	13183710	13183710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctccttatcatattgaaCgaaggcaaagcccttatgaa	13	13	6	9	1	2	2	1	2	1	0	3	3	2	2	2	1	2	1	2	1	7	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:13183710C>T	uc010obg.1	-	1	258	c.163G>A	c.(163-165)GTT>ATT	p.V55I		NM_001136561	NP_001130033	B2RXH8	B2RXH8_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	55						ribonucleoprotein complex	nucleic acid binding|nucleotide binding				0						TCATATTGAACGAAGGCAAAG	0.473													5	33					0	0	0.001168	0	0		T	13183710	T	T	13183710	3	4	7	1	0	0	0	0	1	0	0	0	8897	536	19	1	722	1	LOC440563	1	13183710	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08		13183710	236066911	1	6586											
CNR2	1269	broad.mit.edu	37	chr1	24201571	24201571	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcagtgggaaaagctcagaGcagggcctgggacagcaagt	13	5	15	8	0	2	1	2	0	0	1	2	3	2	3	1	3	3	3	1	3	3	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:24201571G>A	uc001bif.2	-	2	664	c.537C>T	c.(535-537)TGC>TGT	p.C179C		NM_001841	NP_001832	P34972	CNR2_HUMAN	cannabinoid receptor 2 (macrophage)	179	Extracellular (Potential).				behavior|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	dendrite|integral to plasma membrane|perikaryon	cannabinoid receptor activity			skin(2)|central_nervous_system(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.00957)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.32e-24)|Colorectal(126;6.09e-08)|COAD - Colon adenocarcinoma(152;3.33e-06)|GBM - Glioblastoma multiforme(114;2.9e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00359)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.146)	Nabilone(DB00486)	AAAGCTCAGAGCAGGGCCTGG	0.572													6	19					0	0	0.001168	0	0		A	24201571	A	A	24201571	2	1	7	1	0	0	0	0	0	0	0	1	3635	963	34	2		2	CNR2	1	24201571	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	11017861	24201571	225049050	2	6587											
SNIP1	79753	broad.mit.edu	37	chr1	38003393	38003393	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcctcctcatcctcgtcatCtttcctgtctatttcagaag	6	16	4	15	1	5	1	3	0	2	1	10	1	9	1	4	0	0	0	4	0	2	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:38003393C>G	uc001cbi.2	-	4	1220	c.1147G>C	c.(1147-1149)GAT>CAT	p.D383H	SNIP1_uc010oid.1_RNA	NM_024700	NP_078976	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein	383					production of miRNAs involved in gene silencing by miRNA	nucleus	protein binding			upper_aerodigestive_tract(1)|lung(1)	2		Myeloproliferative disorder(586;0.0393)				TCCTCGTCATCTTTCCTGTCT	0.418													20	76					0	0	0.010504	0	0		G	38003393	G	G	38003393	3	3	7	1	0	0	0	0	1	0	0	0	14873	913	32	5	47	5	SNIP1	1	38003393	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	13801822	38003393	211247228	3	6588											
MACF1	23499	broad.mit.edu	37	chr1	39749838	39749838	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagataaaacttttccccAaaaccctgttgaactaaagg	15	10	6	10	0	1	2	1	1	0	1	2	2	2	2	3	1	3	1	3	1	7	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:39749838A>C	uc010ois.1	+	11	1236	c.1031A>C	c.(1030-1032)CAA>CCA	p.Q344P	MACF1_uc001cda.1_Missense_Mutation_p.Q252P	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	344					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			ACTTTTCCCCAAAACCCTGTT	0.418													11	57					0	0	0.010729	0	0		C	39749838	C	C	39749838	3	2	7	1	0	0	0	0	1	0	0	0	9162	130	5	5	1065	5	MACF1	1	39749838	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	1746445	39749838	209500783	4	6589											
SH3GLB1	51100	broad.mit.edu	37	chr1	87190089	87190089	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagaaactagaaattcaGtaagtaaatagaaaaatatt	21	10	6	4	0	1	3	1	0	0	3	1	3	1	3	0	0	2	3	0	0	10	7			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:87190089G>C	uc001dlw.2	+	5	896	c.570_splice	c.e5+1	p.S190_splice	SH3GLB1_uc001dlx.2_Splice_Site_p.S190_splice|SH3GLB1_uc001dly.2_Splice_Site_p.S190_splice|SH3GLB1_uc001dlz.2_Splice_Site_p.S90_splice	NM_016009	NP_057093	Q9Y371	SHLB1_HUMAN	SH3-containing protein SH3GLB1						anti-apoptosis|filopodium assembly|signal transduction	Golgi membrane|mitochondrial outer membrane	cytoskeletal adaptor activity|protein homodimerization activity|SH3 domain binding				0		Lung NSC(277;0.209)		all cancers(265;0.0136)|Epithelial(280;0.0414)		TAGAAATTCAGTAAGTAAATA	0.269													5	13					0	0	0.001984	0	0		C	87190089	C	C	87190089	5	2	7	1	0	0	0	0	0	0	1	0	14278	1043	36	5	589	5	SH3GLB1	1	87190089	Splice_Site	SNP	G	TCGA-BR-4191-01A-02D-1126-08	47440251	87190089	162060532	5	6590											
PPIAL4G	644591	broad.mit.edu	37	chr1	143767465	143767465	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgttctttcaccttgccaaaGgccacatgcttgccatccaa	9	11	6	15	1	2	0	1	0	1	0	3	0	3	0	5	1	3	2	5	1	2	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:143767465G>A	uc001ejt.2	-	1	417	c.384C>T	c.(382-384)GCC>GCT	p.A128A		NM_001123068	NP_001116540	A2BFH1	PAL4G_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	128	PPIase cyclophilin-type.				protein folding	cytoplasm	peptidyl-prolyl cis-trans isomerase activity				0						CCTTGCCAAAGGCCACATGCT	0.488													13	220					0	0	0.006122	0	0		A	143767465	A	A	143767465	2	1	7	1	0	0	0	0	0	0	0	1	12340	987	35	4		4	PPIAL4G	1	143767465	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	56577376	143767465	105483156	6	6591											
BCL9	607	broad.mit.edu	37	chr1	147095649	147095649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctttatttttctaggaatggGcattaatacacagaatcctc	12	15	6	8	0	1	1	0	0	1	1	3	2	2	2	1	2	1	1	1	2	6	7			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:147095649G>A	uc001epq.2	+	10	3910	c.3170G>A	c.(3169-3171)GGC>GAC	p.G1057D	BCL9_uc010ozr.1_Intron	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	1057	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					CTAGGAATGGGCATTAATACA	0.378			T	IGH@|IGL@	B-ALL								24	101					0	0	0.00278	0	0		A	147095649	A	A	147095649	3	1	7	1	0	0	0	0	1	0	0	0	1382	1203	42	2	3196	2	BCL9	1	147095649	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	3328184	147095649	102154972	7	6592											
SNX27	81609	broad.mit.edu	37	chr1	151641106	151641106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgctgttacctacttctttCatcaggtaggtgaattgatc	8	17	8	8	0	3	2	2	2	1	0	4	2	3	2	1	2	3	3	1	2	4	7			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:151641106C>T	uc001eyn.1	+	7	1160	c.1144C>T	c.(1144-1146)CAT>TAT	p.H382Y	SNX27_uc001eyo.2_Missense_Mutation_p.H289Y|SNX27_uc001eyp.2_Missense_Mutation_p.H196Y	NM_030918	NP_112180	Q96L92	SNX27_HUMAN	sorting nexin family member 27	382					cell communication|protein transport|signal transduction	cytosol|early endosome	phosphatidylinositol binding|protein binding			ovary(2)|central_nervous_system(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			CTACTTCTTTCATCAGGTAGG	0.308													8	27					0	0	0.004482	0	0		T	151641106	T	T	151641106	3	4	7	1	0	0	0	0	1	0	0	0	14922	826	29	4	1170	4	SNX27	1	151641106	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	4545457	151641106	97609515	8	6593											
TCHH	7062	broad.mit.edu	37	chr1	152081195	152081195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgttcgcggaattttctgtCacgctcttggcggcgcagct	4	13	12	12	5	3	0	1	0	2	0	4	1	3	1	0	3	1	4	0	3	1	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:152081195C>T	uc001ezp.2	-	2	4498	c.4498G>A	c.(4498-4500)GAC>AAC	p.D1500N	TCHH_uc009wne.1_Missense_Mutation_p.D1500N	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1500	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AATTTTCTGTCACGCTCTTGG	0.552													22	65					0	0	0.005443	0	0		T	152081195	T	T	152081195	3	4	7	1	0	0	0	0	1	0	0	0	15725	826	29	4	1337	4	TCHH	1	152081195	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	440089	152081195	97169426	9	6594											
OR10J3	441911	broad.mit.edu	37	chr1	159284018	159284018	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagtgatccagaggccagTtggatacaggccctcttacc	9	8	10	14	0	1	2	0	1	1	1	2	3	2	3	5	3	2	1	5	3	2	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:159284018T>G	uc010piu.1	-	1	432	c.432A>C	c.(430-432)CAA>CAC	p.Q144H		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	144	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					CAGAGGCCAGTTGGATACAGG	0.517													17	33					0	0	0.00278	0	0		G	159284018	G	G	159284018	3	3	7	1	0	0	0	0	1	0	0	0	10930	1722	60	5	559	5	OR10J3	1	159284018	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	7202823	159284018	89966603	10	6595											
IVNS1ABP	10625	broad.mit.edu	37	chr1	185277943	185277943	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactctacctgctttactcGatccatcttcagcttttttg	7	18	4	12	1	3	0	1	0	2	0	5	1	4	0	2	0	5	2	2	0	3	8			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:185277943G>T	uc001grl.2	-	5	969	c.346C>A	c.(346-348)CGA>AGA	p.R116R	IVNS1ABP_uc001grj.2_5'Flank|IVNS1ABP_uc009wyj.2_5'UTR|IVNS1ABP_uc009wyk.2_RNA	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	116					interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						TGCTTTACTCGATCCATCTTC	0.308													24	61					3.57733e-08	4.19947e-08	0.009535	1	0		T	185277943	T	T	185277943	2	4	7	1	0	0	0	0	0	0	0	1	7946	1066	37	5		5	IVNS1ABP	1	185277943	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	25993925	185277943	63972678	11	6596											
IGFN1	91156	broad.mit.edu	37	chr1	201174290	201174290	+	RNA	DEL	T	-	-																															cagtctttgaatgtaccctcTccagcccctgccctagtgca																										TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:201174290delT	uc001gwb.2	+	11		c.1127delT								Homo sapiens eEF1A2 binding protein mRNA, complete cds.											ovary(2)|pancreas(1)	3						ATGTACCCTCTCCAGCCCCTG	0.607													2	4	---	---	---	---						.	-	201174290	-	-	201174290	6	5	7	0	1	1	0	1	0	0	0	0	7606	1551	54	0		0	IGFN1	1	201174290	RNA	DEL	T	TCGA-BR-4191-01A-02D-1126-08	15896347	201174290	48076331	12	6597											
IGFN1	91156	broad.mit.edu	37	chr1	201195075	201195075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcactacgcggtgttcacacGctcctcagcgcacggtccct	6	8	10	17	5	2	0	2	0	0	0	4	0	4	0	2	2	2	4	2	2	1	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:201195075G>A	uc001gwc.2	+	11	2862	c.2090G>A	c.(2089-2091)CGC>CAC	p.R697H	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						GTGTTCACACGCTCCTCAGCG	0.662													3	8					0	0	0.004672	0	0		A	201195075	A	A	201195075	3	1	7	1	0	0	0	0	1	0	0	0	7606	1087	38	1	10692	1	IGFN1	1	201195075	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	20785	201195075	48055546	13	6598											
FMOD	2331	broad.mit.edu	37	chr1	203317347	203317347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agggtcatcttcatactgggCctgggagagggagaagagcc	10	7	16	8	0	3	3	2	0	1	3	3	5	3	3	2	4	2	0	2	4	2	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr1:203317347C>T	uc001gzr.2	-	2	188	c.52G>A	c.(52-54)GCC>ACC	p.A18T	FMOD_uc010pqi.1_RNA	NM_002023	NP_002014	Q06828	FMOD_HUMAN	fibromodulin precursor	18					transforming growth factor beta receptor complex assembly	extracellular space|proteinaceous extracellular matrix				ovary(2)|breast(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.171)			TCATACTGGGCCTGGGAGAGG	0.562													8	29					0	0	0.006214	0	0		T	203317347	T	T	203317347	3	4	7	1	0	0	0	0	1	0	0	0	5973	739	26	2	1086	2	FMOD	1	203317347	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	2122272	203317347	45933274	14	6599											
PXDN	7837	broad.mit.edu	37	chr2	1691444	1691444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcccttaaatgcttgcctgtCaattgactggatctcattct	8	16	6	11	0	3	1	2	1	2	0	5	2	4	2	2	1	2	1	2	1	3	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:1691444C>T	uc002qxa.2	-	4	440	c.376G>A	c.(376-378)GAC>AAC	p.D126N	PXDN_uc002qxb.1_Missense_Mutation_p.D126N|PXDN_uc002qxc.1_Intron	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	126	LRR 2.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GCTTGCCTGTCAATTGACTGG	0.453													7	11					0	0	0.004482	0	0		T	1691444	T	T	1691444	3	4	7	1	0	0	0	0	1	0	0	0	12872	826	29	4	4143	4	PXDN	2	1691444	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08		1691444	241507929	15	6600											
KIDINS220	57498	broad.mit.edu	37	chr2	8891763	8891763	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catccttagttgttggaataTtctttgatattcttcaaata	11	19	5	6	0	3	1	1	1	2	0	4	2	4	2	1	1	0	2	1	1	6	10			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:8891763T>A	uc002qzc.2	-	23	3205	c.3023A>T	c.(3022-3024)AAT>ATT	p.N1008I	KIDINS220_uc010yiv.1_Missense_Mutation_p.N774I|KIDINS220_uc002qzd.2_Missense_Mutation_p.N966I|KIDINS220_uc010yiw.1_Missense_Mutation_p.N1009I|KIDINS220_uc002qzb.2_5'Flank|KIDINS220_uc002qze.2_Missense_Mutation_p.N13I	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1008	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TGTTGGAATATTCTTTGATAT	0.318													10	28					0	0	0.008291	0	0		A	8891763	A	A	8891763	3	1	7	1	0	0	0	0	1	0	0	0	8287	1493	52	5	2324	5	KIDINS220	2	8891763	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	7200319	8891763	234307610	16	6601											
CAD	790	broad.mit.edu	37	chr2	27456582	27456582	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgctatgaatgtggcctAcacggatggagacctggagc	9	9	14	9	1	0	2	0	1	0	1	0	5	0	4	2	4	4	2	2	4	3	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:27456582A>G	uc002rji.2	+	21	3467	c.3305A>G	c.(3304-3306)TAC>TGC	p.Y1102C	CAD_uc010eyw.2_Missense_Mutation_p.Y1039C	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1102	CPSase B.|ATP-grasp 2.|CPSase (Carbamoyl-phosphate synthase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	AATGTGGCCTACACGGATGGA	0.602													9	21					0	0	0.003163	0	0		G	27456582	G	G	27456582	3	3	7	1	0	0	0	0	1	0	0	0	2568	391	14	3	3387	3	CAD	2	27456582	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	18564819	27456582	215742791	17	6602											
PLB1	151056	broad.mit.edu	37	chr2	28718990	28718990	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcattctggcatggggctGcggccaggcattttcctcct	5	11	13	12	1	1	0	0	0	1	0	3	1	3	0	3	5	2	4	3	5	0	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:28718990G>A	uc002rmb.1	+	1	9	c.9G>A	c.(7-9)CTG>CTA	p.L3L	PLB1_uc010ezj.1_Silent_p.L3L	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	3					lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					GCATGGGGCTGCGGCCAGGCA	0.587													8	33					0	0	0.004482	0	0		A	28718990	A	A	28718990	2	1	7	1	0	0	0	0	0	0	0	1	12043	1306	46	2		2	PLB1	2	28718990	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	1262408	28718990	214480383	18	6603											
ATP6V1B1	525	broad.mit.edu	37	chr2	71191631	71191631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtcagccattggggaaGgcatgacaagaaaggaccat	15	6	13	7	0	1	3	1	2	0	1	1	5	1	5	2	4	1	1	2	4	4	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:71191631G>A	uc002shj.2	+	12	1294	c.1207G>A	c.(1207-1209)GGC>AGC	p.G403S	ATP6V1B1_uc010fdv.2_Missense_Mutation_p.G386S|ATP6V1B1_uc010fdw.2_RNA|ATP6V1B1_uc010fdx.2_Missense_Mutation_p.G361S	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	403					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						CATTGGGGAAGGCATGACAAG	0.567											OREG0014686	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	27					0	0	0.004482	0	0		A	71191631	A	A	71191631	3	1	7	1	0	0	0	0	1	0	0	0	1179	1000	35	4	1253	4	ATP6V1B1	2	71191631	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	42472641	71191631	172007742	19	6604											
SMYD5	10322	broad.mit.edu	37	chr2	73453064	73453064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctgggggatgagatgaCtgatgtgtgatgttgccctg	8	11	17	5	0	0	5	0	4	0	2	0	7	0	6	1	2	2	2	1	2	0	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:73453064C>T	uc002siw.2	+	13	1276	c.1247C>T	c.(1246-1248)ACT>ATT	p.T416I	SMYD5_uc010yre.1_Missense_Mutation_p.T300I|SMYD5_uc002six.1_RNA	NM_006062	NP_006053	Q6GMV2	SMYD5_HUMAN	SMYD family member 5	416							metal ion binding				0						GATGAGATGACTGATGTGTGA	0.483													3	24					0	0	0.009096	0	0		T	73453064	T	T	73453064	3	4	7	1	0	0	0	0	1	0	0	0	14850	565	20	4	1297	4	SMYD5	2	73453064	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	2261433	73453064	169746309	20	6605											
TMEM131	23505	broad.mit.edu	37	chr2	98428986	98428986	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagttctattgataaaccGtctcctatgatatgccaact	13	13	5	10	1	2	2	0	2	2	0	3	2	2	2	3	0	3	1	3	0	7	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:98428986G>C	uc002syh.3	-	17	1990	c.1761C>G	c.(1759-1761)GAC>GAG	p.D587E		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	587						integral to membrane				ovary(4)|central_nervous_system(2)	6						TTGATAAACCGTCTCCTATGA	0.308													7	28					0	0	0.004482	0	0		C	98428986	C	C	98428986	3	2	7	1	0	0	0	0	1	0	0	0	16069	1136	40	5	3990	5	TMEM131	2	98428986	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	24975922	98428986	144770387	21	6606											
LONRF2	164832	broad.mit.edu	37	chr2	100906807	100906807	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggaaccgactgatgccaatCgcgtctacaacagaacttcc	12	7	8	14	4	1	2	0	1	1	1	3	4	2	3	3	1	5	0	3	1	5	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:100906807C>T	uc002tal.3	-	10	2473	c.1833G>A	c.(1831-1833)GCG>GCA	p.A611A	LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	611	Lon.				proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						TGATGCCAATCGCGTCTACAA	0.453													15	45					0	0	0.00499	0	0		T	100906807	T	T	100906807	2	4	7	1	0	0	0	0	0	0	0	1	8913	871	31	1		1	LONRF2	2	100906807	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08	2477821	100906807	142292566	22	6607											
LRP2	4036	broad.mit.edu	37	chr2	170038058	170038058	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtggagattatcacagActtgttggttccatccatgc	8	14	10	9	0	1	2	1	0	0	2	3	3	3	2	2	3	1	2	2	3	1	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:170038058A>T	uc002ues.2	-	52	10282	c.10069T>A	c.(10069-10071)TCT>ACT	p.S3357T		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3357	Extracellular (Potential).|LDL-receptor class B 32.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ATTATCACAGACTTGTTGGTT	0.507													13	55					0	0	0.00245	0	0		T	170038058	T	T	170038058	3	4	7	1	0	0	0	0	1	0	0	0	8974	275	10	5	4010	5	LRP2	2	170038058	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	69131251	170038058	73161315	23	6608											
MYO3B	140469	broad.mit.edu	37	chr2	171264299	171264299	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtggttgtggtcctgagAacgtcagaaaacaagcttct	11	11	12	7	1	2	2	1	1	1	2	3	4	3	2	1	2	3	2	1	2	4	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:171264299A>G	uc002ufy.2	+	22	2738	c.2595A>G	c.(2593-2595)AGA>AGG	p.R865R	MYO3B_uc002ufv.2_Silent_p.R852R|MYO3B_uc010fqb.1_Silent_p.R852R|MYO3B_uc002ufz.2_Silent_p.R865R|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	865	Myosin head-like.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						TGGTCCTGAGAACGTCAGAAA	0.448													23	96					0	0	0.010818	0	0		G	171264299	G	G	171264299	2	3	7	1	0	0	0	0	0	0	0	1	10095	243	9	3		3	MYO3B	2	171264299	Silent	SNP	A	TCGA-BR-4191-01A-02D-1126-08	1226241	171264299	71935074	24	6609											
WIPF1	7456	broad.mit.edu	37	chr2	175437055	175437055	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgaggctctgggggacCacttctgtggcctggagaag	6	9	15	11	0	3	2	0	1	3	1	3	4	3	3	3	5	0	1	3	5	1	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:175437055C>A	uc002uiy.2	-	6	810	c.478G>T	c.(478-480)GGT>TGT	p.G160C	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Missense_Mutation_p.G160C|WIPF1_uc010fqt.1_Missense_Mutation_p.G160C|WIPF1_uc002ujc.1_Missense_Mutation_p.G160C|WIPF1_uc002uiz.2_Missense_Mutation_p.G160C|WIPF1_uc002ujb.1_Missense_Mutation_p.G160C|WIPF1_uc010zep.1_Missense_Mutation_p.G160C	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	160					actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						TCTGGGGGACCACTTCTGTGG	0.592													22	28					2.48779e-11	3.01582e-11	0.005443	1	0		A	175437055	A	A	175437055	3	1	7	1	0	0	0	0	1	0	0	0	17393	594	21	5	1049	5	WIPF1	2	175437055	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	4172756	175437055	67762318	25	6610											
DNAH7	56171	broad.mit.edu	37	chr2	196756511	196756511	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaacagttatttgaactttGttttcttccattagcccctt	10	18	4	9	0	1	1	0	1	1	0	2	1	2	1	3	0	3	2	3	0	5	8			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:196756511G>T	uc002utj.3	-	31	5015	c.4914C>A	c.(4912-4914)AAC>AAA	p.N1638K		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1638	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TTTGAACTTTGTTTTCTTCCA	0.274													9	20					0.000442599	0.000474556	0.006214	1	0		T	196756511	T	T	196756511	3	4	7	1	0	0	0	0	1	0	0	0	4612	1368	48	5	7300	5	DNAH7	2	196756511	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	21319456	196756511	46442862	26	6611											
SMARCAL1	50485	broad.mit.edu	37	chr2	217285023	217285023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gattcttcttctttggcagtGaaagcagcccagagcctccc	8	11	9	13	0	3	2	0	1	3	1	4	3	4	2	3	1	3	2	3	1	1	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:217285023G>A	uc002vgc.3	+	5	1194	c.864G>A	c.(862-864)ATG>ATA	p.M288I	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.M288I|SMARCAL1_uc010fvg.2_Missense_Mutation_p.M288I	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	288	HARP 1.				chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		CTTTGGCAGTGAAAGCAGCCC	0.567									Schimke_Immuno-Osseous_Dysplasia				3	16					0	0	0.009096	0	0		A	217285023	A	A	217285023	3	1	7	1	0	0	0	0	1	0	0	0	14798	1304	45	4	874	4	SMARCAL1	2	217285023	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	20528512	217285023	25914350	27	6612											
C2orf62	375307	broad.mit.edu	37	chr2	219231774	219231774	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaagagaatacaggtgggCtccccagggtgctgcatcat	10	7	13	11	0	1	1	1	0	0	1	2	2	2	1	3	3	3	3	3	3	3	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:219231774C>T	uc002vhr.2	+	8	812	c.783C>T	c.(781-783)GGC>GGT	p.G261G	C2orf62_uc002vhs.2_RNA|uc002vht.2_Intron	NM_198559	NP_940961	Q7Z7H3	CB062_HUMAN	hypothetical protein LOC375307	261											0		Renal(207;0.0915)		Epithelial(149;8.08e-07)|all cancers(144;0.000146)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TACAGGTGGGCTCCCCAGGGT	0.547													9	17					0	0	0.008291	0	0		T	219231774	T	T	219231774	2	4	7	1	0	0	0	0	0	0	0	1	2184	784	28	2		2	C2orf62	2	219231774	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08	1946751	219231774	23967599	28	6613											
DNER	92737	broad.mit.edu	37	chr2	230282862	230282862	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacacactcatagccattaAcgaggtccctgcaggtggct	11	8	9	13	1	1	0	1	0	0	0	2	1	2	0	2	3	3	2	2	3	2	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr2:230282862A>T	uc002vpv.2	-	9	1718	c.1571T>A	c.(1570-1572)GTT>GAT	p.V524D		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	524	EGF-like 8; calcium-binding (Potential).|Extracellular (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		ATAGCCATTAACGAGGTCCCT	0.527													6	29					0	0	0.006214	0	0		T	230282862	T	T	230282862	3	4	7	1	0	0	0	0	1	0	0	0	4673	43	2	5	662	5	DNER	2	230282862	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	11051088	230282862	12916511	29	6614											
CHL1	10752	broad.mit.edu	37	chr3	432428	432428	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggggtggacgttataaacAgtacattagttaaagttacc	14	12	10	5	1	0	0	0	0	0	0	0	1	0	1	1	3	3	4	1	3	8	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:432428A>C	uc003bou.2	+	20	2738	c.2467A>C	c.(2467-2469)AGT>CGT	p.S823R	CHL1_uc003bot.2_Missense_Mutation_p.S839R|CHL1_uc003bow.1_Missense_Mutation_p.S823R|CHL1_uc011asi.1_Missense_Mutation_p.S839R	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	823	Fibronectin type-III 3.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		CGTTATAAACAGTACATTAGT	0.383													27	20					0	0	0.013726	0	0		C	432428	C	C	432428	3	2	7	1	0	0	0	0	1	0	0	0	3352	188	7	5	2589	5	CHL1	3	432428	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08		432428	197590002	30	6615											
ITPR1	3708	broad.mit.edu	37	chr3	4810221	4810221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcccacaacacagataacaGaagaggtccgggatcagctc	15	4	10	12	1	1	3	1	0	0	3	3	4	2	4	2	2	4	1	2	2	3	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:4810221G>A	uc003bqa.2	+	43	5956	c.5608G>A	c.(5608-5610)GAA>AAA	p.E1870K	ITPR1_uc010hca.1_Missense_Mutation_p.E1855K|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.E840K	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1918	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		ACAGATAACAGAAGAGGTCCG	0.557													4	16					0	0	0.001168	0	0		A	4810221	A	A	4810221	3	1	7	1	0	0	0	0	1	0	0	0	7936	943	33	4	5926	4	ITPR1	3	4810221	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	4377793	4810221	193212209	31	6616											
TGFBR2	7048	broad.mit.edu	37	chr3	30729923	30729923	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gttccaaggtgcgggagcacCcctgtgtcgaaagcatgaag	10	7	14	10	2	0	1	0	1	0	0	2	3	1	2	3	2	3	3	3	2	3	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:30729923C>A	uc003ceo.2	+	6	1826	c.1444C>A	c.(1444-1446)CCC>ACC	p.P482T	TGFBR2_uc003cen.2_Missense_Mutation_p.P507T	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	482	Protein kinase.|Cytoplasmic (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						GCGGGAGCACCCCTGTGTCGA	0.502													11	30					5.50884e-06	6.12781e-06	0.013537	1	0		A	30729923	A	A	30729923	3	1	7	1	0	0	0	0	1	0	0	0	15847	623	22	5	1545	5	TGFBR2	3	30729923	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	25919702	30729923	167292507	32	6617											
CSRNP1	64651	broad.mit.edu	37	chr3	39186708	39186708	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccatcaaaggctacacggCctgggcgctcccggcgagcc	7	5	12	17	4	1	0	1	0	0	0	3	1	3	0	4	4	2	2	4	4	2	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:39186708C>A	uc003cjg.2	-	3	459	c.245G>T	c.(244-246)GGC>GTC	p.G82V	CSRNP1_uc003cjh.2_Missense_Mutation_p.G82V	NM_033027	NP_149016	Q96S65	CSRN1_HUMAN	AXIN1 up-regulated 1	82					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(4)|skin(1)	5						GGCTACACGGCCTGGGCGCTC	0.592													6	24					0.000157383	0.000169974	0.00308	1	0		A	39186708	A	A	39186708	3	1	7	1	0	0	0	0	1	0	0	0	3966	739	26	5	1536	5	CSRNP1	3	39186708	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	8456785	39186708	158835722	33	6618											
LYZL4	131375	broad.mit.edu	37	chr3	42445586	42445586	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatggtcttggcacatttaAttgtcttctctaaattagga	11	16	7	7	0	3	0	0	0	3	0	4	1	3	1	0	3	0	1	0	3	5	7			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:42445586A>C	uc003cle.2	-	4	572	c.323T>G	c.(322-324)ATT>AGT	p.I108S		NM_144634	NP_653235	Q96KX0	LYZL4_HUMAN	lysozyme-like 4 precursor	108					cell wall macromolecule catabolic process	extracellular region	lysozyme activity			central_nervous_system(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.222)		GGCACATTTAATTGTCTTCTC	0.378													9	30					0	0	0.004482	0	0		C	42445586	C	C	42445586	3	2	7	1	0	0	0	0	1	0	0	0	9151	101	4	5	125	5	LYZL4	3	42445586	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	3258878	42445586	155576844	34	6619											
SETD2	29072	broad.mit.edu	37	chr3	47098523	47098523	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caagacagcaacgctggagtCttggtgtactacaccatcac	12	8	9	12	1	2	1	1	0	1	1	2	2	2	2	1	2	4	3	1	2	4	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:47098523C>G	uc003cqs.2	-	15	6804	c.6751G>C	c.(6751-6753)GAC>CAC	p.D2251H	SETD2_uc003cqv.2_Missense_Mutation_p.D2318H|SETD2_uc003cqt.1_Intron	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	2251	Low charge region.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		ACGCTGGAGTCTTGGTGTACT	0.547			N|F|S|Mis		clear cell renal carcinoma								4	19					0	0	0.001168	0	0		G	47098523	G	G	47098523	3	3	7	1	0	0	0	0	1	0	0	0	14156	913	32	5	971	5	SETD2	3	47098523	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	4652937	47098523	150923907	35	6620											
C3orf54	389119	broad.mit.edu	37	chr3	49842367	49842367	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacgctttgcagctctcAtgagctgtcgtagccgccag	6	11	10	14	3	2	1	2	1	2	0	5	1	2	1	2	0	4	5	2	0	1	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:49842367A>T	uc003cxq.1	+	2	944	c.811A>T	c.(811-813)ATG>TTG	p.M271L		NM_203370	NP_976248	Q96EL1	CC054_HUMAN	hypothetical protein LOC389119	269											0				BRCA - Breast invasive adenocarcinoma(193;3.55e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		TGCAGCTCTCATGAGCTGTCG	0.582													20	52					0	0	0.00278	0	0		T	49842367	T	T	49842367	3	4	7	1	0	0	0	0	1	0	0	0	2236	217	8	5	817	5	C3orf54	3	49842367	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	2743844	49842367	148180063	36	6621											
DOCK3	1795	broad.mit.edu	37	chr3	50971444	50971444	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggttccacttgaagattCtattgtgactgaggttacag	9	15	11	6	0	1	4	0	3	1	1	2	4	2	4	1	2	1	2	1	2	3	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:50971444C>A	uc011bds.1	+	5	274	c.251C>A	c.(250-252)TCT>TAT	p.S84Y		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	84						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		CTTGAAGATTCTATTGTGACT	0.398													5	19					3.59834e-05	3.95817e-05	0.001168	1	0		A	50971444	A	A	50971444	3	1	7	1	0	0	0	0	1	0	0	0	4694	913	32	5	269	5	DOCK3	3	50971444	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	1129077	50971444	147050986	37	6622											
ALAS1	211	broad.mit.edu	37	chr3	52240613	52240613	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagatttactctgattctggGaaccatgcctccatgatcca	10	12	8	11	0	2	3	0	2	2	1	4	5	4	4	4	1	3	0	4	1	2	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:52240613G>A	uc003dcy.1	+	8	1348	c.1011G>A	c.(1009-1011)GGG>GGA	p.G337G	ALAS1_uc003dcz.1_Silent_p.G337G|ALAS1_uc011bec.1_Silent_p.G354G	NM_000688	NP_000679	P13196	HEM1_HUMAN	5-aminolevulinate synthase 1 precursor	337					heme biosynthetic process	mitochondrial matrix	5-aminolevulinate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(2)|upper_aerodigestive_tract(1)	3				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.000583)|KIRC - Kidney renal clear cell carcinoma(197;0.000751)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	CTGATTCTGGGAACCATGCCT	0.433													29	80					0	0	0.010818	0	0		A	52240613	A	A	52240613	2	1	7	1	0	0	0	0	0	0	0	1	484	1161	41	4		4	ALAS1	3	52240613	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	1269169	52240613	145781817	38	6623											
STAB1	23166	broad.mit.edu	37	chr3	52551576	52551576	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggggacaggtctcctgcaGctgccgtgagggttacagcg	6	8	16	11	2	1	1	0	1	1	0	2	2	1	2	2	4	5	3	2	4	1	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:52551576G>C	uc003dej.2	+	44	4648	c.4574G>C	c.(4573-4575)AGC>ACC	p.S1525T	STAB1_uc003dek.1_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1525	EGF-like 12.|Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		GTCTCCTGCAGCTGCCGTGAG	0.652													3	9					0	0	0.006214	0	0		C	52551576	C	C	52551576	3	2	7	1	0	0	0	0	1	0	0	0	15262	971	34	5	4748	5	STAB1	3	52551576	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	310963	52551576	145470854	39	6624											
PTPRG	5793	broad.mit.edu	37	chr3	62253086	62253086	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcttatcttctatagaTgatcacagtagggtgaagtt	10	18	8	5	0	4	3	1	2	3	1	4	3	4	3	0	1	0	2	0	1	5	8			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:62253086T>C	uc003dlb.2	+	18	3377	c.2658T>C	c.(2656-2658)TAT>TAC	p.Y886Y	PTPRG_uc003dlc.2_Silent_p.Y857Y|PTPRG_uc011bfi.1_Silent_p.Y132Y|uc010hno.2_Intron|uc003dld.3_Intron|uc010hnp.2_Intron|uc003dle.3_Intron	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	886	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		CTTCTATAGATGATCACAGTA	0.343													18	36					0	0	0.006122	0	0		C	62253086	C	C	62253086	2	2	7	1	0	0	0	0	0	0	0	1	12827	1478	51	3		3	PTPRG	3	62253086	Silent	SNP	T	TCGA-BR-4191-01A-02D-1126-08	9701510	62253086	135769344	40	6625											
C3orf17	25871	broad.mit.edu	37	chr3	112732835	112732835	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaacaggtcttgaattgaGccctccaaattcatgttttt	11	15	6	9	0	3	2	2	2	1	0	4	2	4	2	2	1	2	1	2	1	3	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:112732835G>T	uc003dzr.2	-	3	367	c.306C>A	c.(304-306)GGC>GGA	p.G102G	GTPBP8_uc011bhy.1_Intron|C3orf17_uc011bhz.1_Intron|C3orf17_uc010hqh.2_5'UTR|C3orf17_uc003dzt.2_Silent_p.G5G|C3orf17_uc003dzs.2_5'UTR|C3orf17_uc010hqg.2_5'UTR|C3orf17_uc011bia.1_5'UTR|C3orf17_uc003dzu.2_Silent_p.G101G|C3orf17_uc011bib.1_Silent_p.G5G|C3orf17_uc011bic.1_Silent_p.G5G|C3orf17_uc011bid.1_RNA	NM_015412	NP_056227	Q6NW34	CC017_HUMAN	hypothetical protein LOC25871	102						integral to membrane					0						CTTGAATTGAGCCCTCCAAAT	0.418													38	131					2.26627e-22	2.84001e-22	0.007835	1	0		T	112732835	T	T	112732835	2	4	7	1	0	0	0	0	0	0	0	1	2213	958	34	5		5	C3orf17	3	112732835	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	50479749	112732835	85289595	41	6626											
H1FX	8971	broad.mit.edu	37	chr3	129034479	129034479	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcgccttgatcgagtacttGaggtaggtgcgcccattctg	7	11	13	10	3	1	2	0	2	1	0	2	3	1	2	2	2	3	2	2	2	2	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:129034479G>A	uc003elx.2	-	1	642	c.267C>T	c.(265-267)CTC>CTT	p.L89L	C3orf47_uc011bkv.1_5'Flank	NM_006026	NP_006017	Q92522	H1X_HUMAN	H1 histone family, member X	89	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding				0						TCGAGTACTTGAGGTAGGTGC	0.602													3	5					0	0	0.004672	0	0		A	129034479	A	A	129034479	2	1	7	1	0	0	0	0	0	0	0	1	6939	1277	45	4		4	H1FX	3	129034479	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	16301644	129034479	68987951	42	6627											
EPHB1	2047	broad.mit.edu	37	chr3	134873004	134873004	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccacagccccctccacCgttcccatcatgcaccaagt	8	8	4	21	1	2	0	1	0	1	0	5	0	4	0	7	0	2	2	7	0	1	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:134873004C>G	uc003eqt.2	+	6	1528	c.1308C>G	c.(1306-1308)ACC>ACG	p.T436T	EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	436	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						CCCCCTCCACCGTTCCCATCA	0.532													7	134					0	0	0.004482	0	0		G	134873004	G	G	134873004	2	3	7	1	0	0	0	0	0	0	0	1	5182	639	23	5		5	EPHB1	3	134873004	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08	5838525	134873004	63149426	43	6628											
SOX14	8403	broad.mit.edu	37	chr3	137483819	137483819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgatgaagccaagcggctaCgcgcccagcacatgaaggag	12	4	13	12	4	0	2	0	2	0	0	1	4	0	3	2	2	4	2	2	2	4	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:137483819C>T	uc003erm.1	+	1	241	c.193C>T	c.(193-195)CGC>TGC	p.R65C		NM_004189	NP_004180	O95416	SOX14_HUMAN	SRY-box 14	65	HMG box.				negative regulation of transcription from RNA polymerase II promoter|nervous system development|transcription, DNA-dependent	nucleus	sequence-specific DNA binding				0						CAAGCGGCTACGCGCCCAGCA	0.567													6	23					0	0	0.001984	0	0		T	137483819	T	T	137483819	3	4	7	1	0	0	0	0	1	0	0	0	14970	536	19	1	195	1	SOX14	3	137483819	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	2610815	137483819	60538611	44	6629											
MECOM	2122	broad.mit.edu	37	chr3	168833682	168833682	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcaatagcctttatagaatCattcacagctcctgacaccg	13	10	6	12	1	2	2	2	1	0	1	3	2	3	2	3	0	3	2	3	0	5	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:168833682C>G	uc003ffi.3	-	7	1683	c.1414G>C	c.(1414-1416)GAT>CAT	p.D472H	MECOM_uc010hwk.1_Missense_Mutation_p.D495H|MECOM_uc003ffj.3_Missense_Mutation_p.D537H|MECOM_uc011bpi.1_Missense_Mutation_p.D473H|MECOM_uc003ffn.3_Missense_Mutation_p.D472H|MECOM_uc003ffk.2_Missense_Mutation_p.D472H|MECOM_uc003ffl.2_Missense_Mutation_p.D632H|MECOM_uc011bpj.1_Missense_Mutation_p.D660H|MECOM_uc011bpk.1_Missense_Mutation_p.D462H|MECOM_uc010hwn.2_Missense_Mutation_p.D660H	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	472					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						TTTATAGAATCATTCACAGCT	0.398													15	101					0	0	0.004007	0	0		G	168833682	G	G	168833682	3	3	7	1	0	0	0	0	1	0	0	0	9440	826	29	5	1781	5	MECOM	3	168833682	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	31349863	168833682	29188748	45	6630											
MYNN	55892	broad.mit.edu	37	chr3	169492270	169492270	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttctgagaacaatgtctttCttgatcagagtcaggtgaag	11	13	10	7	0	5	4	2	3	3	2	5	5	5	4	0	1	1	0	0	1	3	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:169492270C>G	uc003fft.2	+	2	616	c.187C>G	c.(187-189)CTT>GTT	p.L63V	MYNN_uc011bpm.1_Intron|MYNN_uc003ffu.2_Missense_Mutation_p.L63V|MYNN_uc003ffv.2_5'UTR|MYNN_uc010hwo.2_Missense_Mutation_p.L63V	NM_018657	NP_061127	Q9NPC7	MYNN_HUMAN	myoneurin	63	BTB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;2.19e-58)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			CAATGTCTTTCTTGATCAGAG	0.383													45	122					0	0	0.01441	0	0		G	169492270	G	G	169492270	3	3	7	1	0	0	0	0	1	0	0	0	10079	913	32	5	189	5	MYNN	3	169492270	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	658588	169492270	28530160	46	6631											
TTC14	151613	broad.mit.edu	37	chr3	180321029	180321029	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtgattggaagaattagttCtattcgggaattcggttttt	10	17	11	3	2	1	2	0	1	1	1	3	4	1	4	0	3	0	2	0	3	5	8			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:180321029C>G	uc003fkk.2	+	3	536	c.404C>G	c.(403-405)TCT>TGT	p.S135C	TTC14_uc003fkl.2_Missense_Mutation_p.S135C|TTC14_uc003fkm.2_Missense_Mutation_p.S135C	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	135	S1 motif.						RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AGAATTAGTTCTATTCGGGAA	0.383													34	118					0	0	0.004289	0	0		G	180321029	G	G	180321029	3	3	7	1	0	0	0	0	1	0	0	0	16707	913	32	5	414	5	TTC14	3	180321029	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	10828759	180321029	17701401	47	6632			1	1		3	3	1040	C		2.809284e-05
TTC14	151613	broad.mit.edu	37	chr3	180321108	180321108	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatatagcccacttagaaatCacagtaagttatttttgtta	14	15	6	6	0	1	1	1	0	0	1	1	2	1	1	1	0	1	3	1	0	7	8			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:180321108C>T	uc003fkk.2	+	3	615	c.483C>T	c.(481-483)ATC>ATT	p.I161I	TTC14_uc003fkl.2_Silent_p.I161I|TTC14_uc003fkm.2_Silent_p.I161I	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	161	S1 motif.						RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			ACTTAGAAATCACAGTAAGTT	0.358													18	86					0	0	0.008871	0	0		T	180321108	T	T	180321108	2	4	7	1	0	0	0	0	0	0	0	1	16707	816	29	4		4	TTC14	3	180321108	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08	79	180321108	17701322	48	6633			1	1		3	3	1040	C		2.809284e-05
TTC14	151613	broad.mit.edu	37	chr3	180322068	180322068	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taaccatggggatcctttatCatattaccaaactggtgaca	13	12	7	9	0	1	1	1	1	0	0	2	2	2	2	3	3	3	0	3	3	5	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:180322068C>G	uc003fkk.2	+	4	674	c.542C>G	c.(541-543)TCA>TGA	p.S181*	TTC14_uc003fkl.2_Nonsense_Mutation_p.S181*|TTC14_uc003fkm.2_Nonsense_Mutation_p.S181*	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	181	S1 motif.						RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			GATCCTTTATCATATTACCAA	0.303													15	52					0	0	0.004007	0	0		G	180322068	G	G	180322068	4	3	7	1	0	0	0	0	0	1	0	0	16707	838	29	5	556	5	TTC14	3	180322068	Nonsense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	960	180322068	17700362	49	6634			1	1		3	3	1040	C		2.809284e-05
CCDC39	339829	broad.mit.edu	37	chr3	180397081	180397081	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcttcaattgatctcacctGatcttccagtagcttgttct	7	17	6	11	0	4	2	2	2	3	0	6	2	5	2	2	0	2	4	2	0	2	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:180397081G>A	uc010hxe.2	-	1	203	c.88C>T	c.(88-90)CAG>TAG	p.Q30*	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	30	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			GATCTCACCTGATCTTCCAGT	0.542													15	99					0	0	0.006122	0	0		A	180397081	A	A	180397081	4	1	7	1	0	0	0	0	0	1	0	0	2814	1299	45	4	2817	4	CCDC39	3	180397081	Nonsense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	75013	180397081	17625349	50	6635											
DVL3	1857	broad.mit.edu	37	chr3	183884725	183884726	+	Missense_Mutation	DNP	CC	AG	AG																															cctgagcaccatcacctccaCcagctcctccatcaccagtt																										TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:183884725_183884726CC>AG	uc003fms.2	+	11	1300_1301	c.1160_1161CC>AG	c.(1159-1161)ACC>AAG	p.T387K	DVL3_uc011bqw.1_Missense_Mutation_p.T370K|DVL3_uc003fmt.2_Missense_Mutation_p.T58K|DVL3_uc003fmu.2_Missense_Mutation_p.T219K	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	387					canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			ATCACCTCCACCAGCTCCTCCA	0.653													14	69					0	0	0.004672	0	0		AG	183884726	AG	AG	183884725	3	1	7	1	0	0	0	0	1	0	0	0	4843	507	18	5	1202	5	DVL3	3	183884725	Missense_Mutation	DNP	CC	TCGA-BR-4191-01A-02D-1126-08	3487644	183884725	14137705	51	6636											
AP2M1	1173	broad.mit.edu	37	chr3	183898981	183898981	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagattgttattgaaaagcAgggcaaaggcacagctgatg	15	8	12	6	0	0	3	0	2	0	1	0	3	0	3	0	2	2	5	0	2	5	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:183898981A>G	uc011bqx.1	+	7	831	c.674A>G	c.(673-675)CAG>CGG	p.Q225R	AP2M1_uc003fmw.2_Missense_Mutation_p.Q223R|AP2M1_uc003fmx.2_Missense_Mutation_p.Q153R|AP2M1_uc003fmy.2_Missense_Mutation_p.Q223R|AP2M1_uc011bqy.1_Missense_Mutation_p.Q95R|AP2M1_uc011bqz.1_Missense_Mutation_p.Q41R	NM_004068	NP_004059	Q96CW1	AP2M1_HUMAN	adaptor-related protein complex 2, mu 1 subunit	225	MHD.				axon guidance|cellular membrane organization|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|clathrin coat of coated pit|cytosol|endocytic vesicle membrane|peroxisomal membrane	lipid binding|protein binding|transporter activity				0	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.92e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ATTGAAAAGCAGGGCAAAGGC	0.547													31	151					0	0	0.012213	0	0		G	183898981	G	G	183898981	3	3	7	1	0	0	0	0	1	0	0	0	742	188	7	3	693	3	AP2M1	3	183898981	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	14256	183898981	14123449	52	6637											
FGF12	2257	broad.mit.edu	37	chr3	192053245	192053245	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcccacgggaattagatTgaagagagctggggggagaa	13	5	17	6	1	0	4	0	1	0	3	0	7	0	5	1	5	1	1	1	5	4	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:192053245T>G	uc003fsx.2	-	3	1145	c.319A>C	c.(319-321)AAT>CAT	p.N107H	FGF12_uc003fsy.2_Missense_Mutation_p.N45H	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	107					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		GGAATTAGATTGAAGAGAGCT	0.433													14	45					0	0	0.00245	0	0		G	192053245	G	G	192053245	3	3	7	1	0	0	0	0	1	0	0	0	5855	1812	63	5	424	5	FGF12	3	192053245	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	8154264	192053245	5969185	53	6638											
MUC4	4585	broad.mit.edu	37	chr3	195505822	195505822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggaagtgtcggtgacaGgaagaggggtggcgtgacct	9	7	19	6	2	0	4	0	3	0	1	1	6	0	6	1	6	0	0	1	6	2	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr3:195505822G>A	uc011bto.1	-	3	12705	c.12245C>T	c.(12244-12246)CCT>CTT	p.P4082L	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_Intron|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Intron|MUC4_uc011bti.1_Intron|MUC4_uc011btj.1_Intron|MUC4_uc011btk.1_Intron|MUC4_uc011btl.1_Intron|MUC4_uc011btm.1_Intron|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GTCGGTGACAGGAAGAGGGGT	0.592													4	27					0	0	0.00245	0	0		A	195505822	A	A	195505822	3	1	7	1	0	0	0	0	1	0	0	0	9996	1000	35	4		4	MUC4	3	195505822	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	3452577	195505822	2516608	54	6639											
HAUS3	79441	broad.mit.edu	37	chr4	2242050	2242050	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttaatgctgctgtgctttgCtcttcctgacttaggtattt	5	19	9	8	0	1	1	0	1	1	0	2	1	2	1	1	1	4	6	1	1	3	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr4:2242050C>G	uc003ges.1	-	2	854	c.624G>C	c.(622-624)GAG>GAC	p.E208D	POLN_uc011bvi.1_Intron|HAUS3_uc011bvj.1_Missense_Mutation_p.E208D|HAUS3_uc003get.1_Missense_Mutation_p.E208D	NM_024511	NP_078787	Q68CZ6	HAUS3_HUMAN	HAUS augmin-like complex, subunit 3	208					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				large_intestine(2)|breast(2)	4						ctgtgctttgctcttcctgac	0.075													5	4					0	0	0.000602	0	0		G	2242050	G	G	2242050	3	3	7	1	0	0	0	0	1	0	0	0	6983	796	28	5	1203	5	HAUS3	4	2242050	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08		2242050	188912226	55	6640											
OTOP1	133060	broad.mit.edu	37	chr4	4199436	4199436	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcatccagtgacttctcGtctatcctgtaaatccggat	9	13	7	12	2	3	1	1	1	2	0	7	3	6	2	3	1	0	1	3	1	3	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr4:4199436G>A	uc003ghp.1	-	5	1155	c.1125C>T	c.(1123-1125)GAC>GAT	p.D375D		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	375					biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GTGACTTCTCGTCTATCCTGT	0.572													11	25					0	0	0.008291	0	0		A	4199436	A	A	4199436	2	1	7	1	0	0	0	0	0	0	0	1	11324	1136	40	1		1	OTOP1	4	4199436	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	1957386	4199436	186954840	56	6641											
WDFY3	23001	broad.mit.edu	37	chr4	85664946	85664946	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agttcttgtagacctttcagGggaagcctaatcaagaaaat	14	11	9	7	0	3	2	2	0	1	2	3	3	3	3	2	2	1	2	2	2	6	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr4:85664946G>T	uc003hpd.2	-	37	6388	c.5980C>A	c.(5980-5982)CCT>ACT	p.P1994T		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1994						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		GACCTTTCAGGGGAAGCCTAA	0.313													12	22					1.08611e-07	1.25029e-07	0.010729	1	0		T	85664946	T	T	85664946	3	4	7	1	0	0	0	0	1	0	0	0	17296	1232	43	5	4728	5	WDFY3	4	85664946	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	81465510	85664946	105489330	57	6642											
GPRIN3	285513	broad.mit.edu	37	chr4	90170468	90170468	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagtgaggggggttggttgaGgtgtcacagaagttgtgcct	7	12	18	4	0	1	3	1	2	0	1	1	3	1	3	1	5	1	3	1	5	2	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr4:90170468G>T	uc003hsm.1	-	2	1313	c.794C>A	c.(793-795)CCT>CAT	p.P265H		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	265										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		GGTTGGTTGAGGTGTCACAGA	0.557													17	16					3.52763e-06	3.93875e-06	0.00499	1	0		T	90170468	T	T	90170468	3	4	7	1	0	0	0	0	1	0	0	0	6747	1000	35	5	1540	5	GPRIN3	4	90170468	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	4505522	90170468	100983808	58	6643											
TRIM60	166655	broad.mit.edu	37	chr4	165962340	165962340	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtgtcaagactgtcttctTaggaactggcaggatcagcc	9	11	12	9	0	4	1	2	0	2	1	4	3	4	3	1	3	2	1	1	3	3	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr4:165962340T>A	uc003iqy.1	+	3	1286	c.1116T>A	c.(1114-1116)CTT>CTA	p.L372L	TRIM60_uc010iqx.1_Silent_p.L372L	NM_152620	NP_689833	Q495X7	TRI60_HUMAN	ring finger protein 129	372	B30.2/SPRY.					intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0844)		ACTGTCTTCTTAGGAACTGGC	0.483													11	46					0	0	0.007413	0	0		A	165962340	A	A	165962340	2	1	7	1	0	0	0	0	0	0	0	1	16561	1741	61	5		5	TRIM60	4	165962340	Silent	SNP	T	TCGA-BR-4191-01A-02D-1126-08	75791872	165962340	25191936	59	6644											
ADAMTS16	170690	broad.mit.edu	37	chr5	5200343	5200343	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcaatggagtcttctcctGgtcaccctgcagccgccagt	7	9	10	15	2	3	0	1	0	2	0	4	1	3	1	4	2	2	2	4	2	1	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:5200343G>T	uc003jdl.2	+	9	1550	c.1412G>T	c.(1411-1413)TGG>TTG	p.W471L	ADAMTS16_uc003jdk.1_Missense_Mutation_p.W471L|ADAMTS16_uc003jdj.1_Missense_Mutation_p.W471L	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	471	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GTCTTCTCCTGGTCACCCTGC	0.498													9	34					4.68919e-08	5.48303e-08	0.008291	1	0		T	5200343	T	T	5200343	3	4	7	1	0	0	0	0	1	0	0	0	261	1357	47	5	1446	5	ADAMTS16	5	5200343	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08		5200343	175714917	60	6645											
BDP1	55814	broad.mit.edu	37	chr5	70820113	70820113	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggtctcagatctcctgAacctgtttctgctcagattg	6	16	9	10	0	4	3	2	1	3	2	6	3	4	3	2	1	2	3	2	1	1	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:70820113A>C	uc003kbp.1	+	25	5998	c.5735A>C	c.(5734-5736)GAA>GCA	p.E1912A	BDP1_uc003kbo.2_Missense_Mutation_p.E1912A|BDP1_uc003kbq.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1912					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AGATCTCCTGAACCTGTTTCT	0.388													14	60					0	0	0.006122	0	0		C	70820113	C	C	70820113	3	2	7	1	0	0	0	0	1	0	0	0	1396	246	9	5	5833	5	BDP1	5	70820113	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	65619770	70820113	110095147	61	6646											
RASGRF2	5924	broad.mit.edu	37	chr5	80476075	80476075	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagttctgaacgtcctccGtcactgggtctcaaagcacg	8	10	10	13	4	3	1	2	1	2	0	7	2	5	1	2	1	2	2	2	1	2	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:80476075G>T	uc003kha.1	+	18	2768	c.2768G>T	c.(2767-2769)CGT>CTT	p.R923L	RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	923					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		AACGTCCTCCGTCACTGGGTC	0.388													52	72					4.10029e-35	5.16011e-35	0.01441	1	0		T	80476075	T	T	80476075	3	4	7	1	0	0	0	0	1	0	0	0	13098	1145	40	5	2838	5	RASGRF2	5	80476075	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	9655962	80476075	100439185	62	6647											
VCAN	1462	broad.mit.edu	37	chr5	82876166	82876166	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattctatgaaatactttaaAaattcctcatcagcaaagga	17	13	4	7	0	3	1	2	1	1	0	4	2	4	2	1	1	2	1	1	1	8	7			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:82876166A>C	uc003kii.3	+	15	10460	c.10104A>C	c.(10102-10104)AAA>AAC	p.K3368N	VCAN_uc003kij.3_Missense_Mutation_p.K2381N|VCAN_uc010jau.2_Missense_Mutation_p.K1614N|VCAN_uc003kik.3_Missense_Mutation_p.K627N|VCAN_uc003kil.3_Missense_Mutation_p.K2032N	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3368					cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		AATACTTTAAAAATTCCTCAT	0.393													14	50					0	0	0.00245	0	0		C	82876166	C	C	82876166	3	2	7	1	0	0	0	0	1	0	0	0	17164	11	1	5	10158	5	VCAN	5	82876166	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	2400091	82876166	98039094	63	6648											
APC	324	broad.mit.edu	37	chr5	112177228	112177228	+	Frame_Shift_Del	DEL	C	-	-																															agtgacattgaccaagaaaaCaacaataaagaaaatgaacc																										TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:112177228delC	uc010jby.2	+	16	6317	c.5937delC	c.(5935-5937)AACfs	p.N1979fs	APC_uc011cvt.1_Frame_Shift_Del_p.N1961fs|APC_uc003kpz.3_Frame_Shift_Del_p.N1979fs|APC_uc003kpy.3_Frame_Shift_Del_p.N1979fs|APC_uc010jbz.2_Frame_Shift_Del_p.N1696fs|APC_uc010jca.2_Frame_Shift_Del_p.N1279fs	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1979	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		ACCAAGAAAACAACAATAAAG	0.338		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			26	28	---	---	---	---						.	-	112177228	-	-	112177228	7	5	7	1	0	1	0	1	0	0	0	0	763	477	17	0	5995	0	APC	5	112177228	Frame_Shift_Del	DEL	C	TCGA-BR-4191-01A-02D-1126-08	29301062	112177228	68738032	64	6649											
CEP120	153241	broad.mit.edu	37	chr5	122724215	122724215	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatgatgtgatgttgctggTacagcaatcttctgtcctga	10	14	10	7	0	2	3	0	3	2	0	3	3	3	3	1	1	3	4	1	1	3	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:122724215T>A	uc003ktk.2	-	10	1423	c.1341A>T	c.(1339-1341)GTA>GTT	p.V447V	CEP120_uc011cwq.1_Silent_p.V256V|CEP120_uc010jcz.1_Silent_p.V421V	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	447						centrosome				ovary(1)	1						ATGTTGCTGGTACAGCAATCT	0.398													53	79					0	0	0.01441	0	0		A	122724215	A	A	122724215	2	1	7	1	0	0	0	0	0	0	0	1	3249	1625	57	5		5	CEP120	5	122724215	Silent	SNP	T	TCGA-BR-4191-01A-02D-1126-08	10546987	122724215	58191045	65	6650											
FBN2	2201	broad.mit.edu	37	chr5	127648476	127648476	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaacttcaggtagcagttgcCcacacggttgtctgcagagc	10	9	11	11	1	2	1	1	0	1	1	2	1	2	1	1	2	5	5	1	2	2	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:127648476C>A	uc003kuu.2	-	37	5168	c.4729G>T	c.(4729-4731)GGC>TGC	p.G1577C		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1577	TB 6.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		TAGCAGTTGCCCACACGGTTG	0.502													9	204					1.58986e-06	1.7954e-06	0.008291	1	0		A	127648476	A	A	127648476	3	1	7	1	0	0	0	0	1	0	0	0	5717	623	22	5	4125	5	FBN2	5	127648476	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	4924261	127648476	53266784	66	6651											
HARS	3035	broad.mit.edu	37	chr5	140056692	140056692	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggagcagctgttccaccaggGataccccacctggggagaca	10	5	13	13	0	0	1	0	0	0	1	1	4	1	3	5	4	3	3	5	4	1	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:140056692G>C	uc003lgv.2	-	9	915	c.833C>G	c.(832-834)TCC>TGC	p.S278C	HARS_uc003lgu.2_Missense_Mutation_p.S209C|HARS_uc011czm.1_Missense_Mutation_p.S238C|HARS_uc003lgw.2_Missense_Mutation_p.S258C|HARS_uc011czn.1_Missense_Mutation_p.S218C|HARS_uc010jfu.2_Missense_Mutation_p.S278C|HARS_uc011czo.1_Missense_Mutation_p.S204C|HARS_uc011czp.1_Missense_Mutation_p.S164C|HARS_uc011czq.1_Missense_Mutation_p.S168C	NM_002109	NP_002100	P12081	SYHC_HUMAN	histidyl-tRNA synthetase	278					histidyl-tRNA aminoacylation	cytosol	ATP binding|histidine-tRNA ligase activity			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		L-Histidine(DB00117)	TTCCACCAGGGATACCCCACC	0.532													35	114					0	0	0.00623	0	0		C	140056692	C	C	140056692	3	2	7	1	0	0	0	0	1	0	0	0	6975	1174	41	5	716	5	HARS	5	140056692	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	12408216	140056692	40858568	67	6652											
ARAP3	64411	broad.mit.edu	37	chr5	141033869	141033869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcactgtccactcccgtGtggtggagaaggaggtagaa	9	9	14	9	1	1	2	1	0	0	2	3	4	3	3	2	4	0	2	2	4	3	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:141033869G>A	uc003llm.2	-	33	4361	c.4283C>T	c.(4282-4284)ACA>ATA	p.T1428I	ARAP3_uc003lll.2_Missense_Mutation_p.T379I|ARAP3_uc011dbe.1_Missense_Mutation_p.T1077I|ARAP3_uc003lln.2_Missense_Mutation_p.T1259I	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1428			T -> P (in a breast cancer sample; somatic mutation).		cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding	p.T1428P(1)		breast(5)|ovary(1)|large_intestine(1)	7						CCACTCCCGTGTGGTGGAGAA	0.567													19	13					0	0	0.012319	0	0		A	141033869	A	A	141033869	3	1	7	1	0	0	0	0	1	0	0	0	840	1377	48	4	355	4	ARAP3	5	141033869	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	977177	141033869	39881391	68	6653											
KIAA0141	9812	broad.mit.edu	37	chr5	141314074	141314074	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaggcccaagctttcctcGgggtgcttttcaccaaggag	8	9	11	13	1	1	0	1	0	0	0	3	1	2	1	3	4	2	2	3	4	2	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:141314074G>T	uc003lls.2	+	10	1194	c.1072G>T	c.(1072-1074)GGG>TGG	p.G358W	KIAA0141_uc003llt.2_Missense_Mutation_p.G358W|KIAA0141_uc003llu.1_RNA	NM_001142603	NP_001136075	Q14154	DELE_HUMAN	hypothetical protein LOC9812 precursor	358	TPR 5.				apoptosis|regulation of caspase activity	mitochondrion	protein binding			skin(1)	1		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCTTTCCTCGGGGTGCTTTT	0.532													4	83					0.00909568	0.00961358	0.009096	1	0		T	141314074	T	T	141314074	3	4	7	1	0	0	0	0	1	0	0	0	8172	1116	39	5	1110	5	KIAA0141	5	141314074	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	280205	141314074	39601186	69	6654											
SPARC	6678	broad.mit.edu	37	chr5	151043744	151043744	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaagcgggtggtgcaatgctCcatggggatgaggggagcac	10	6	18	7	1	0	1	0	1	0	0	1	3	1	3	1	6	4	3	1	6	2	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:151043744C>T	uc003luh.2	-	8	811	c.787G>A	c.(787-789)GAG>AAG	p.E263K	GM2A_uc011dcs.1_Intron|SPARC_uc003lug.2_Missense_Mutation_p.E97K|SPARC_uc003lui.2_Missense_Mutation_p.E263K	NM_003118	NP_003109	P09486	SPRC_HUMAN	secreted protein, acidic, cysteine-rich	263	EF-hand.			E->A: Loss of collagen binding.	ossification|platelet activation|platelet degranulation|signal transduction	basement membrane|extracellular space|platelet alpha granule lumen	calcium ion binding|collagen binding			central_nervous_system(1)	1		Medulloblastoma(196;0.109)|all_hematologic(541;0.122)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)	OV - Ovarian serous cystadenocarcinoma(192;0.00118)	Becaplermin(DB00102)	GTGCAATGCTCCATGGGGATG	0.607													16	14					0	0	0.004007	0	0		T	151043744	T	T	151043744	3	4	7	1	0	0	0	0	1	0	0	0	15020	864	30	4	132	4	SPARC	5	151043744	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	9729670	151043744	29871516	70	6655											
DOCK2	1794	broad.mit.edu	37	chr5	169141060	169141061	+	Missense_Mutation	DNP	GC	AT	AT																															caagaagatggaggatgccaGcgcatacctgacccttcctt																										TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:169141060_169141061GC>AT	uc003maf.2	+	18	1768_1769	c.1688_1689GC>AT	c.(1687-1689)AGC>AAT	p.S563N	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.S55N|DOCK2_uc010jjl.1_Missense_Mutation_p.S81N	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	563	DHR-1.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAGGATGCCAGCGCATACCTGA	0.579													4	39					0	0	0.004672	0	0		AT	169141061	AT	AT	169141060	3	1	7	1	0	0	0	0	1	0	0	0	4693	971	34	2	1758	2	DOCK2	5	169141060	Missense_Mutation	DNP	GC	TCGA-BR-4191-01A-02D-1126-08	18097316	169141060	11774200	71	6656											
FOXI1	2299	broad.mit.edu	37	chr5	169533040	169533040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatcggccaggagccccccGagatgaacctctactatgag	10	6	11	14	2	1	3	0	2	1	1	2	5	1	4	5	2	3	1	5	2	3	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr5:169533040G>A	uc003mai.3	+	1	124	c.79G>A	c.(79-81)GAG>AAG	p.E27K	FOXI1_uc003maj.3_Missense_Mutation_p.E27K	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	27	Pro-rich.				epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGAGCCCCCCGAGATGAACCT	0.697									Pendred_syndrome				5	4					0	0	0.001168	0	0		A	169533040	A	A	169533040	3	1	7	1	0	0	0	0	1	0	0	0	6023	1059	37	1	81	1	FOXI1	5	169533040	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	391980	169533040	11382220	72	6657											
RREB1	6239	broad.mit.edu	37	chr6	7211167	7211167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcagagagagaagacccaGcaccagctaaaaaggtcctc	16	4	10	11	0	1	3	1	0	0	3	3	5	2	3	3	1	2	2	3	1	4	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr6:7211167G>A	uc003mxc.2	+	7	946	c.556G>A	c.(556-558)GCA>ACA	p.A186T	RREB1_uc010jnw.2_Missense_Mutation_p.A186T|RREB1_uc003mxb.2_Missense_Mutation_p.A186T|RREB1_uc010jnx.2_Missense_Mutation_p.A186T|RREB1_uc003mxd.2_Missense_Mutation_p.A186T	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	186					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				AGAAGACCCAGCACCAGCTAA	0.517													7	111					0	0	0.00308	0	0		A	7211167	A	A	7211167	3	1	7	1	0	0	0	0	1	0	0	0	13704	971	34	2	570	2	RREB1	6	7211167	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08		7211167	163903900	73	6658											
NEDD9	4739	broad.mit.edu	37	chr6	11191199	11191199	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtccgagttgcgggggtggGtgattcggggacaggctctg	4	10	20	7	3	1	1	0	1	1	0	3	3	2	2	1	6	1	2	1	6	0	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr6:11191199G>A	uc003mzv.2	-	5	1070	c.903C>T	c.(901-903)CAC>CAT	p.H301H	NEDD9_uc010joz.2_Silent_p.H301H|NEDD9_uc003mzw.3_Silent_p.H155H	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	301					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			GCGGGGGTGGGTGATTCGGGG	0.567													14	20					0	0	0.003163	0	0		A	11191199	A	A	11191199	2	1	7	1	0	0	0	0	0	0	0	1	10332	1252	44	4		4	NEDD9	6	11191199	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	3980032	11191199	159923868	74	6659											
ATXN1	6310	broad.mit.edu	37	chr6	16327558	16327558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtaccgccggctcttctcCatctcaccgttcaggacctc	5	10	7	19	4	4	0	2	0	3	0	7	1	4	1	6	2	1	3	6	2	1	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr6:16327558C>T	uc003nbt.2	-	8	1955	c.984G>A	c.(982-984)ATG>ATA	p.M328I	ATXN1_uc010jpi.2_Missense_Mutation_p.M328I|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	328					cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				GGCTCTTCTCCATCTCACCGT	0.672													16	12					0	0	0.012319	0	0		T	16327558	T	T	16327558	3	4	7	1	0	0	0	0	1	0	0	0	1210	594	21	4	1471	4	ATXN1	6	16327558	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	5136359	16327558	154787509	75	6660											
FLOT1	10211	broad.mit.edu	37	chr6	30697834	30697834	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtgagtctttccacacTctctggcaggcgagttagaa	8	11	11	11	1	2	2	0	1	2	1	4	3	3	2	2	2	0	2	2	2	2	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr6:30697834T>G	uc003nrm.2	-	12	1383	c.1219A>C	c.(1219-1221)AGT>CGT	p.S407R	FLOT1_uc011dmr.1_Missense_Mutation_p.S359R	NM_005803	NP_005794	O75955	FLOT1_HUMAN	flotillin 1	407						centriolar satellite|endosome|integral to membrane|melanosome|membrane fraction					0						CTTTCCACACTCTCTGGCAGG	0.542													16	47					0	0	0.008871	0	0		G	30697834	G	G	30697834	3	3	7	1	0	0	0	0	1	0	0	0	5950	1551	54	5	72	5	FLOT1	6	30697834	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	14370276	30697834	140417233	76	6661											
TNXB	7148	broad.mit.edu	37	chr6	32032696	32032696	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggctccaggcccgagatgGtgaccccatcctcgtgtccc	5	8	11	17	2	0	2	0	1	0	1	4	3	3	2	6	3	0	1	6	3	0	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr6:32032696G>A	uc003nzl.2	-	19	6945	c.6743C>T	c.(6742-6744)ACC>ATC	p.T2248I		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2320	Fibronectin type-III 15.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GCCCGAGATGGTGACCCCATC	0.612													24	10					0	0	0.009535	0	0		A	32032696	A	A	32032696	3	1	7	1	0	0	0	0	1	0	0	0	16371	1261	44	4	8074	4	TNXB	6	32032696	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	1334862	32032696	139082371	77	6662											
TREML2	79865	broad.mit.edu	37	chr6	41162572	41162572	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcctctcagtttggggagCtgaaagacagaaagggagga	12	8	15	6	0	1	3	1	1	1	2	3	6	2	6	1	4	1	3	1	4	2	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr6:41162572C>T	uc010jxm.1	-	3	556	c.377_splice	c.e3-1	p.A126_splice		NM_024807	NP_079083	Q5T2D2	TRML2_HUMAN	triggering receptor expressed on myeloid						T cell activation	cell surface|integral to membrane|plasma membrane	protein binding|receptor activity			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					GTTTGGGGAGCTGAAAGACAG	0.547													10	16					0	0	0.006214	0	0		T	41162572	T	T	41162572	5	4	7	1	0	0	0	0	0	0	1	0	16499	811	28	2	601	2	TREML2	6	41162572	Splice_Site	SNP	C	TCGA-BR-4191-01A-02D-1126-08	9129876	41162572	129952495	78	6663											
ZNF318	24149	broad.mit.edu	37	chr6	43323884	43323884	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctggaaaaactctcaagCtgcaaagacaaacacaactg	17	6	7	11	0	1	1	1	0	1	1	2	2	1	2	0	1	6	3	0	1	6	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr6:43323884C>G	uc003oux.2	-	4	1267	c.1189_splice	c.e4-1	p.L397_splice	ZNF318_uc003ouw.2_Splice_Site	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318						meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			AACTCTCAAGCTGCAAAGACA	0.423													10	42					0	0	0.008291	0	0		G	43323884	G	G	43323884	5	3	7	1	0	0	0	0	0	0	1	0	17861	811	28	5	5679	5	ZNF318	6	43323884	Splice_Site	SNP	C	TCGA-BR-4191-01A-02D-1126-08	2161312	43323884	127791183	79	6664											
PKHD1	5314	broad.mit.edu	37	chr6	51513896	51513896	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagttacctgctcatccaaaAataccaattgtggctgcact	13	11	6	11	0	1	0	1	0	0	0	2	0	2	0	3	1	4	4	3	1	6	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr6:51513896A>C	uc003pah.1	-	62	11573	c.11297T>G	c.(11296-11298)TTT>TGT	p.F3766C		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3766	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CTCATCCAAAAATACCAATTG	0.418													5	92					0	0	0.001168	0	0		C	51513896	C	C	51513896	3	2	7	1	0	0	0	0	1	0	0	0	11990	14	1	5	951	5	PKHD1	6	51513896	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	8190012	51513896	119601171	80	6665											
SLC35A1	10559	broad.mit.edu	37	chr6	88210354	88210354	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacaacatggctttcctagCtcttagcaatctggatgcag	11	11	9	10	0	2	0	0	0	2	0	3	2	3	1	1	2	5	4	1	2	5	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr6:88210354C>G	uc011dzj.1	+	3	402	c.323C>G	c.(322-324)GCT>GGT	p.A108G	SLC35A1_uc003plx.2_RNA|SLC35A1_uc010kbw.2_5'UTR|SLC35A1_uc003plz.2_Intron|SLC35A1_uc011dzi.1_Intron|SLC35A1_uc003ply.2_RNA|SLC35A1_uc010kbx.2_Missense_Mutation_p.A108G|SLC35A1_uc010kby.2_RNA	NM_006416	NP_006407	P78382	S35A1_HUMAN	solute carrier family 35 (CMP-sialic acid	108	Helical; (Potential).				carbohydrate metabolic process|protein modification process	Golgi membrane|integral to plasma membrane	CMP-N-acetylneuraminate transmembrane transporter activity|sugar:hydrogen symporter activity				0		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		GCTTTCCTAGCTCTTAGCAAT	0.388													11	21					0	0	0.001855	0	0		G	88210354	G	G	88210354	3	3	7	1	0	0	0	0	1	0	0	0	14595	797	28	5	333	5	SLC35A1	6	88210354	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	36696458	88210354	82904713	81	6666											
RTN4IP1	84816	broad.mit.edu	37	chr6	107067186	107067186	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagtatgagtgagtgattTgggtttgtgagagacctaca	10	14	14	3	0	0	6	0	5	0	1	0	7	0	6	1	1	1	2	1	1	2	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr6:107067186T>G	uc003prj.2	-	4	988	c.511A>C	c.(511-513)AAA>CAA	p.K171Q	RTN4IP1_uc010kdd.2_Missense_Mutation_p.K171Q|RTN4IP1_uc003prk.2_Missense_Mutation_p.K71Q	NM_032730	NP_116119	Q8WWV3	RT4I1_HUMAN	reticulon 4 interacting protein 1 precursor	171						mitochondrion	oxidoreductase activity|zinc ion binding				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;9.45e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.0144)	Epithelial(6;0.000873)|all cancers(7;0.00363)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0394)	all cancers(137;0.113)|BRCA - Breast invasive adenocarcinoma(108;0.127)|Epithelial(106;0.144)		GTGAGTGATTTGGGTTTGTGA	0.413													11	26					0	0	0.010729	0	0		G	107067186	G	G	107067186	3	3	7	1	0	0	0	0	1	0	0	0	13754	1821	63	5	703	5	RTN4IP1	6	107067186	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	18856832	107067186	64047881	82	6667											
FIG4	9896	broad.mit.edu	37	chr6	110048374	110048374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctaaaaggaggaagatggcgGatattggaggtcatgcaatc	14	8	14	5	1	1	1	1	0	0	1	2	5	1	5	0	6	1	1	0	6	5	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr6:110048374G>A	uc003ptt.2	+	4	567	c.352G>A	c.(352-354)GAT>AAT	p.D118N	FIG4_uc011eau.1_Intron	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	118					cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		GAAGATGGCGGATATTGGAGG	0.338													22	49					0	0	0.00632	0	0		A	110048374	A	A	110048374	3	1	7	1	0	0	0	0	1	0	0	0	5902	1174	41	4	366	4	FIG4	6	110048374	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	2981188	110048374	61066693	83	6668											
FGL2	10875	broad.mit.edu	37	chr7	76825675	76825675	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaccagggtgtgcctcaCttacaccaggccaggtaccc	9	6	10	16	0	1	0	1	0	0	0	1	0	1	0	6	3	4	1	6	3	2	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr7:76825675C>A	uc003ugb.2	-	2	1281	c.1241G>T	c.(1240-1242)AGT>ATT	p.S414I	CCDC146_uc003ufz.1_Intron|CCDC146_uc003uga.2_Intron	NM_006682	NP_006673	Q14314	FGL2_HUMAN	fibrinogen-like 2 precursor	414	Fibrinogen C-terminal.				signal transduction	fibrinogen complex	receptor binding			skin(2)	2						GTGTGCCTCACTTACACCAGG	0.438													9	38					3.86212e-05	4.23266e-05	0.008291	1	0		A	76825675	A	A	76825675	3	1	7	1	0	0	0	0	1	0	0	0	5887	565	20	5	82	5	FGL2	7	76825675	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08		76825675	82312988	84	6669											
SEMA3E	9723	broad.mit.edu	37	chr7	83021901	83021901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcctgttgggtaatacCgggagcaggatatgccatcc	8	10	14	9	1	0	0	0	0	0	0	1	2	1	2	4	3	4	3	4	3	3	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr7:83021901C>T	uc003uhy.1	-	14	2103	c.1637G>A	c.(1636-1638)CGG>CAG	p.R546Q		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	546					axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				TGGGTAATACCGGGAGCAGGA	0.453													13	57					0	0	0.001855	0	0		T	83021901	T	T	83021901	3	4	7	1	0	0	0	0	1	0	0	0	14053	652	23	1	706	1	SEMA3E	7	83021901	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	6196226	83021901	76116762	85	6670											
OR2AE1	81392	broad.mit.edu	37	chr7	99474447	99474447	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtggagacatgcatcagAtccatgagggagagctggct	11	9	14	7	0	1	4	1	1	0	3	2	6	2	4	1	3	2	3	1	3	0	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr7:99474447A>G	uc003usc.1	-	1	210	c.210T>C	c.(208-210)GAT>GAC	p.D70D		NM_001005276	NP_001005276	Q8NHA4	O2AE1_HUMAN	olfactory receptor, family 2, subfamily AE,	70	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)					CATGCATCAGATCCATGAGGG	0.498													18	63					0	0	0.010504	0	0		G	99474447	G	G	99474447	2	3	7	1	0	0	0	0	0	0	0	1	11002	330	12	3		3	OR2AE1	7	99474447	Silent	SNP	A	TCGA-BR-4191-01A-02D-1126-08	16452546	99474447	59664216	86	6671											
GIGYF1	64599	broad.mit.edu	37	chr7	100283967	100283967	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccgcccctcctcttcacCacaccctcctcgatcccctc	4	9	2	26	2	2	0	1	0	1	0	8	1	6	0	10	0	0	0	10	0	0	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr7:100283967C>G	uc003uwg.1	-	8	1793	c.784G>C	c.(784-786)GGT>CGT	p.G262R		NM_022574	NP_072096	O75420	PERQ1_HUMAN	PERQ amino acid rich, with GYF domain 1	262										large_intestine(1)|central_nervous_system(1)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					TCCTCTTCACCACACCCTCCT	0.642													4	20					0	0	0.00308	0	0		G	100283967	G	G	100283967	3	3	7	1	0	0	0	0	1	0	0	0	6392	594	21	5	2391	5	GIGYF1	7	100283967	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	809520	100283967	58854696	87	6672											
COG5	10466	broad.mit.edu	37	chr7	106871079	106871079	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cctgaatgatctcagcatccGataggactttcctaaatcag	12	11	7	11	1	2	2	2	2	1	0	5	4	4	3	3	1	1	1	3	1	4	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr7:106871079G>C	uc003ved.2	-	18	2704	c.2179C>G	c.(2179-2181)CGG>GGG	p.R727G	COG5_uc003vec.2_Missense_Mutation_p.R748G|COG5_uc003vee.2_Missense_Mutation_p.R748G	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	727					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						CTCAGCATCCGATAGGACTTT	0.343													35	94					0	0	0.00874	0	0		C	106871079	C	C	106871079	3	2	7	1	0	0	0	0	1	0	0	0	3664	1057	37	5	360	5	COG5	7	106871079	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	6587112	106871079	52267584	88	6673											
CAV1	857	broad.mit.edu	37	chr7	116199067	116199067	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacggcatttggaaggccaGcttcaccaccttcactgtga	9	10	10	12	1	2	2	2	2	0	0	2	3	2	3	3	3	1	2	3	3	1	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr7:116199067G>C	uc003vif.1	+	3	541	c.263G>C	c.(262-264)AGC>ACC	p.S88T	CAV1_uc010lkd.1_Missense_Mutation_p.S57T|CAV1_uc010lke.1_Missense_Mutation_p.S57T|CAV1_uc003vig.1_RNA|CAV1_uc003vih.2_Missense_Mutation_p.S57T|CAV1_uc010lkf.1_Missense_Mutation_p.S57T	NM_001753	NP_001744	Q03135	CAV1_HUMAN	caveolin 1	88	Cytoplasmic (Potential).				blood coagulation|calcium ion transport|caveola assembly|cellular response to starvation|cholesterol homeostasis|cytosolic calcium ion homeostasis|inactivation of MAPK activity|interspecies interaction between organisms|leukocyte migration|lipid storage|maintenance of protein location in cell|mammary gland involution|membrane depolarization|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of endothelial cell proliferation|negative regulation of epithelial cell differentiation|negative regulation of nitric oxide biosynthetic process|negative regulation of peptidyl-serine phosphorylation|negative regulation of protein binding|negative regulation of transcription from RNA polymerase II promoter|nitric oxide homeostasis|nitric oxide metabolic process|positive regulation of calcium ion transport into cytosol|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of metalloenzyme activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of vasoconstriction|protein homooligomerization|receptor internalization|regulation of blood coagulation|regulation of fatty acid metabolic process|regulation of nitric-oxide synthase activity|regulation of smooth muscle contraction|response to calcium ion|response to estrogen stimulus|response to hypoxia|response to progesterone stimulus|skeletal muscle tissue development|T cell costimulation|triglyceride metabolic process|vasculogenesis|vesicle organization	apical plasma membrane|basolateral plasma membrane|caveola|caveola|cytosol|endoplasmic reticulum|endosome|Golgi membrane|lipid particle|perinuclear region of cytoplasm	cholesterol binding|nitric-oxide synthase binding|peptidase activator activity|protein binding|protein complex scaffold|receptor binding				0	all_epithelial(6;1.42e-06)|Lung NSC(10;0.0056)|all_lung(10;0.00609)		STAD - Stomach adenocarcinoma(10;0.00878)			TGGAAGGCCAGCTTCACCACC	0.478													6	35					0	0	0.001168	0	0		C	116199067	C	C	116199067	3	2	7	1	0	0	0	0	1	0	0	0	2696	971	34	5	273	5	CAV1	7	116199067	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	9327988	116199067	42939596	89	6674											
PLXNA4	91584	broad.mit.edu	37	chr7	132192842	132192842	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctcagagttcttggtcAgtttccggctggagatggtg	5	12	14	10	2	3	2	2	0	1	2	4	3	4	2	3	4	0	3	3	4	0	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr7:132192842A>C	uc003vra.3	-	2	840	c.611T>G	c.(610-612)CTG>CGG	p.L204R	PLXNA4_uc003vrc.2_Missense_Mutation_p.L204R|PLXNA4_uc003vrb.2_Missense_Mutation_p.L204R	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	204	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GTTCTTGGTCAGTTTCCGGCT	0.532													13	50					0	0	0.003163	0	0		C	132192842	C	C	132192842	3	2	7	1	0	0	0	0	1	0	0	0	12141	188	7	5	5511	5	PLXNA4	7	132192842	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	15993775	132192842	26945821	90	6675											
STRA8	346673	broad.mit.edu	37	chr7	134927608	134927608	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataatttgctgaagctgaaaGgtaatggagcactacttgcc	13	11	10	7	0	0	2	0	2	0	0	0	3	0	3	1	2	5	4	1	2	5	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr7:134927608G>T	uc011kpx.1	+	3	334	c.334G>T	c.(334-336)GCA>TCA	p.A112S		NM_182489	NP_872295	Q7Z7C7	STRA8_HUMAN	STRA8	112	Potential.				DNA replication|regulation of transcription, DNA-dependent	cytoplasm|nucleus					0						GAAGCTGAAAGGTAATGGAGC	0.418													31	48					1.21669e-08	1.43967e-08	0.003271	1	0		T	134927608	T	T	134927608	3	4	7	1	0	0	0	0	1	0	0	0	15348	1014	35	5	344	5	STRA8	7	134927608	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	2734766	134927608	24211055	91	6676											
LUC7L2	51631	broad.mit.edu	37	chr7	139106914	139106914	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attaatatttttcagatcctCaaaagaaagattcagagacc	17	12	5	7	0	3	4	3	0	0	4	4	5	4	4	2	0	0	0	2	0	5	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr7:139106914C>G	uc003vux.2	+	10	1381	c.1007C>G	c.(1006-1008)TCA>TGA	p.S336*	LUC7L2_uc011kqs.1_Nonsense_Mutation_p.S333*|LUC7L2_uc011kqt.1_Nonsense_Mutation_p.S402*|LUC7L2_uc003vuy.2_Nonsense_Mutation_p.S335*|LUC7L2_uc003vva.2_Nonsense_Mutation_p.S283*	NM_016019	NP_057103	Q9Y383	LC7L2_HUMAN	LUC7-like 2	336	Arg/Ser-rich.						enzyme binding|metal ion binding				0	Melanoma(164;0.242)					TTCAGATCCTCAAAAGAAAGA	0.373													18	31					0	0	0.010504	0	0		G	139106914	G	G	139106914	4	3	7	1	0	0	0	0	0	1	0	0	9101	838	29	5	1045	5	LUC7L2	7	139106914	Nonsense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	4179306	139106914	20031749	92	6677											
TAS2R60	338398	broad.mit.edu	37	chr7	143140947	143140947	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtcttcttctggctaaaGcacaagttgtctgggtggct	6	14	11	10	0	4	0	0	0	4	0	4	0	4	0	1	3	1	4	1	3	3	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr7:143140947G>T	uc011ktg.1	+	1	402	c.402G>T	c.(400-402)AAG>AAT	p.K134N	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	134	Helical; Name=4; (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					TCTGGCTAAAGCACAAGTTGT	0.478													21	117					1.55469e-16	1.91595e-16	0.00333	1	0		T	143140947	T	T	143140947	3	4	7	1	0	0	0	0	1	0	0	0	15610	962	34	5	404	5	TAS2R60	7	143140947	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	4034033	143140947	15997716	93	6678											
KCNH2	3757	broad.mit.edu	37	chr7	150645985	150645985	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggctggaccagaagtGgtcggagaactcagggtaca	11	6	14	10	1	1	2	1	0	0	2	3	4	2	3	2	5	2	2	2	5	3	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr7:150645985G>C	uc003wic.2	-	10	2564	c.2551C>G	c.(2551-2553)CAC>GAC	p.H851D	KCNH2_uc003wib.2_Missense_Mutation_p.H511D|KCNH2_uc011kux.1_Missense_Mutation_p.H755D	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	851	Cytoplasmic (Potential).				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	GACCAGAAGTGGTCGGAGAAC	0.577													8	28					0	0	0.004482	0	0		C	150645985	C	C	150645985	3	2	7	1	0	0	0	0	1	0	0	0	8048	1348	47	5	952	5	KCNH2	7	150645985	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	7505038	150645985	8492678	94	6679											
NAT2	10	broad.mit.edu	37	chr8	18258347	18258347	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatttccttggggagaaaTctcgtgcccaaacctggtga	11	10	11	9	1	1	3	0	1	1	2	3	4	2	3	3	3	2	0	3	3	3	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr8:18258347T>C	uc003wyw.1	+	2	941	c.834T>C	c.(832-834)AAT>AAC	p.N278N		NM_000015	NP_000006	P11245	ARY2_HUMAN	N-acetyltransferase 2	278					xenobiotic metabolic process	cytosol	arylamine N-acetyltransferase activity			ovary(1)|skin(1)	2				Colorectal(111;0.0531)|COAD - Colon adenocarcinoma(73;0.21)		TGGGGAGAAATCTCGTGCCCA	0.313									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				9	23					0	0	0.006214	0	0		C	18258347	C	C	18258347	2	2	7	1	0	0	0	0	0	0	0	1	10195	1432	50	3		3	NAT2	8	18258347	Silent	SNP	T	TCGA-BR-4191-01A-02D-1126-08		18258347	128105675	95	6680											
CDH17	1015	broad.mit.edu	37	chr8	95186418	95186418	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaagctggatgacaatctgGtaataaagctggccattggg	12	9	14	6	0	1	1	0	1	1	0	1	3	1	3	1	5	2	3	1	5	5	3	rs139340016		TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr8:95186418G>C	uc003ygh.2	-	6	620	c.495C>G	c.(493-495)TAC>TAG	p.Y165*	CDH17_uc011lgo.1_Intron|CDH17_uc011lgp.1_Nonsense_Mutation_p.Y165*	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	165	Extracellular (Potential).|Cadherin 2.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			TGACAATCTGGTAATAAAGCT	0.458													5	117					0	0	0.000602	0	0		C	95186418	C	C	95186418	4	2	7	1	0	0	0	0	0	1	0	0	3105	1256	44	5	2055	5	CDH17	8	95186418	Nonsense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	76928071	95186418	51177604	96	6681											
PGCP	10404	broad.mit.edu	37	chr8	97797143	97797143	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaatgaaattccttatcttCgcatttttcggtggtgttca	10	17	7	7	2	2	1	1	1	1	0	5	1	3	1	1	2	0	2	1	2	4	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr8:97797143C>T	uc003yhw.2	+	2	184	c.18C>T	c.(16-18)TTC>TTT	p.F6F	PGCP_uc010mbe.2_Silent_p.F6F	NM_016134	NP_057218	Q9Y646	PGCP_HUMAN	plasma glutamate carboxypeptidase precursor	6					peptide metabolic process|proteolysis	cytoplasm|extracellular space	metal ion binding|metallocarboxypeptidase activity			upper_aerodigestive_tract(1)	1	Breast(36;1.86e-05)					TCCTTATCTTCGCATTTTTCG	0.333													18	65					0	0	0.00278	0	0		T	97797143	T	T	97797143	2	4	7	1	0	0	0	0	0	0	0	1	11805	883	31	1		1	PGCP	8	97797143	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08	2610725	97797143	48566879	97	6682											
POP1	10940	broad.mit.edu	37	chr8	99148887	99148887	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaaaatgctaaaccaattAaaaaaattatcggtgatgga	20	9	8	4	1	0	2	0	1	0	1	1	4	0	3	1	2	2	1	1	2	10	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr8:99148887A>T	uc003yij.3	+	8	1289	c.1189A>T	c.(1189-1191)AAA>TAA	p.K397*	POP1_uc011lgv.1_Nonsense_Mutation_p.K397*|POP1_uc003yik.2_Nonsense_Mutation_p.K397*	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	397					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			TAAACCAATTAAAAAAATTAT	0.373													17	75					0	0	0.00499	0	0		T	99148887	T	T	99148887	4	4	7	1	0	0	0	0	0	1	0	0	12270	363	13	5	1215	5	POP1	8	99148887	Nonsense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	1351744	99148887	47215135	98	6683											
RGS22	26166	broad.mit.edu	37	chr8	101105676	101105676	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcataataataaactcactGgaaggcttaggaattcatta	17	12	6	6	0	3	0	3	0	0	0	3	2	3	2	0	3	1	1	0	3	8	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr8:101105676G>T	uc003yjb.1	-	3	311	c.116C>A	c.(115-117)CCA>CAA	p.P39Q	RGS22_uc003yja.1_5'UTR|RGS22_uc003yjc.1_Missense_Mutation_p.P39Q|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	39					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			TAAACTCACTGGAAGGCTTAG	0.279													7	42					2.0095e-06	2.26068e-06	0.001984	1	0		T	101105676	T	T	101105676	3	4	7	1	0	0	0	0	1	0	0	0	13330	1362	47	5	3778	5	RGS22	8	101105676	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	1956789	101105676	45258346	99	6684											
PKHD1L1	93035	broad.mit.edu	37	chr8	110416883	110416883	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atactgaacaacaaacaggaGatgcagtgaatgaagaacaa	21	5	9	6	0	0	5	0	3	0	2	0	6	0	5	0	1	6	1	0	1	8	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr8:110416883G>C	uc003yne.2	+	15	1578	c.1474G>C	c.(1474-1476)GAT>CAT	p.D492H		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	492	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ACAAACAGGAGATGCAGTGAA	0.373										HNSCC(38;0.096)			11	35					0	0	0.010729	0	0		C	110416883	C	C	110416883	3	2	7	1	0	0	0	0	1	0	0	0	11991	942	33	5	1532	5	PKHD1L1	8	110416883	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	9311207	110416883	35947139	100	6685											
CSMD3	114788	broad.mit.edu	37	chr8	113694835	113694835	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gccgtgcattgattggtattCcaggatcagggcattcatta	9	13	11	8	1	2	1	2	1	0	0	3	2	3	2	2	3	1	3	2	3	2	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr8:113694835C>G	uc003ynu.2	-	16	2672	c.2513G>C	c.(2512-2514)GGA>GCA	p.G838A	CSMD3_uc003yns.2_Missense_Mutation_p.G110A|CSMD3_uc003ynt.2_Missense_Mutation_p.G798A|CSMD3_uc011lhx.1_Missense_Mutation_p.G734A	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	838	Sushi 4.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GATTGGTATTCCAGGATCAGG	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			12	70					0	0	0.001855	0	0		G	113694835	G	G	113694835	3	3	7	1	0	0	0	0	1	0	0	0	3949	855	30	5	8834	5	CSMD3	8	113694835	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	3277952	113694835	32669187	101	6686											
TRPS1	7227	broad.mit.edu	37	chr8	116426704	116426704	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggatttggtaggccaggCacgtgactcaagtagtgcgg	10	8	15	8	2	1	1	1	1	0	0	1	2	1	2	1	5	1	3	1	5	4	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr8:116426704C>T	uc003ynz.2	-	6	3852	c.3393G>A	c.(3391-3393)GTG>GTA	p.V1131V	TRPS1_uc011lhy.1_Silent_p.V1135V|TRPS1_uc003yny.2_Silent_p.V1144V|TRPS1_uc010mcy.2_Silent_p.V1131V	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1131	Mediates interaction with RNF4 (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GTAGGCCAGGCACGTGACTCA	0.468									Langer-Giedion_syndrome				16	38					0	0	0.00499	0	0		T	116426704	T	T	116426704	2	4	7	1	0	0	0	0	0	0	0	1	16619	697	25	2		2	TRPS1	8	116426704	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08	2731869	116426704	29937318	102	6687											
ZNF16	7564	broad.mit.edu	37	chr8	146156265	146156265	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accgaacgctgactgaaggcTttcccacactcactgcattt	10	10	7	14	2	1	2	1	2	0	0	2	3	2	2	2	1	2	3	2	1	2	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr8:146156265T>A	uc003zet.2	-	4	2095	c.1908A>T	c.(1906-1908)AAA>AAT	p.K636N	ZNF16_uc003zeu.2_Missense_Mutation_p.K636N	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	636	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		GACTGAAGGCTTTCCCACACT	0.547													20	72					0	0	0.008871	0	0		A	146156265	A	A	146156265	3	1	7	1	0	0	0	0	1	0	0	0	17763	1606	56	5	144	5	ZNF16	8	146156265	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	29729561	146156265	207757	103	6688											
PRKACG	5568	broad.mit.edu	37	chr9	71628351	71628351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctagggcccaccagtccaCggccttgttgtagcctttgc	5	10	10	16	1	0	0	0	0	0	0	1	0	1	0	6	2	2	2	6	2	2	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr9:71628351C>T	uc004agy.2	-	1	689	c.658G>A	c.(658-660)GTG>ATG	p.V220M		NM_002732	NP_002723	P22612	KAPCG_HUMAN	protein kinase, cAMP-dependent, catalytic,	220	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|gluconeogenesis|intracellular protein kinase cascade|male gonad development|nerve growth factor receptor signaling pathway|regulation of insulin secretion|spermatogenesis|transmembrane transport|triglyceride catabolic process|water transport	cytosol|nucleoplasm	ATP binding|cAMP-dependent protein kinase activity			ovary(1)|pancreas(1)|skin(1)	3						CACCAGTCCACGGCCTTGTTG	0.617													6	25					0	0	0.00308	0	0		T	71628351	T	T	71628351	3	4	7	1	0	0	0	0	1	0	0	0	12521	536	19	1	401	1	PRKACG	9	71628351	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08		71628351	69585080	104	6689											
C9orf103	414328	broad.mit.edu	37	chr9	86258577	86258577	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgccccctgaattattgcAgtcccagtttgagactctgg	8	13	9	11	0	1	2	0	2	1	1	2	3	2	2	3	1	2	2	3	1	3	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr9:86258577A>T	uc004amu.1	+	5	460	c.446A>T	c.(445-447)CAG>CTG	p.Q149L	C9orf103_uc004amt.1_Missense_Mutation_p.Q103L|C9orf103_uc010mpv.1_Missense_Mutation_p.Q103L	NM_001001551	NP_001001551	Q5T6J7	GNTK_HUMAN	gluconokinase-like protein	149					carbohydrate metabolic process	cytoplasm	ATP binding|gluconokinase activity|shikimate kinase activity				0						GAATTATTGCAGTCCCAGTTT	0.458													34	60					0	0	0.006999	0	0		T	86258577	T	T	86258577	3	4	7	1	0	0	0	0	1	0	0	0	2449	188	7	5	318	5	C9orf103	9	86258577	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	14630226	86258577	54954854	105	6690											
ZNF169	169841	broad.mit.edu	37	chr9	97062923	97062923	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttttgccagaaggcatcactCctccagcaccagagctcaca	11	8	7	15	0	2	2	2	0	0	2	4	2	4	2	4	1	3	3	4	1	1	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr9:97062923C>T	uc004aum.1	+	5	1188	c.1083C>T	c.(1081-1083)CTC>CTT	p.L361L		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	361	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				AGGCATCACTCCTCCAGCACC	0.582													8	42					0	0	0.006214	0	0		T	97062923	T	T	97062923	2	4	7	1	0	0	0	0	0	0	0	1	17767	842	30	4		4	ZNF169	9	97062923	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08	10804346	97062923	44150508	106	6691											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123330664	123330664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttctgacacatttgggaGcactgtaaaaaggtaaaata	15	12	8	6	0	2	1	0	1	2	0	2	2	2	2	0	2	1	3	0	2	6	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr9:123330664G>A	uc004bkf.2	-	3	311	c.130C>T	c.(130-132)CTC>TTC	p.L44F	CDK5RAP2_uc004bkg.2_Missense_Mutation_p.L44F|CDK5RAP2_uc011lxw.1_5'UTR|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_5'UTR|CDK5RAP2_uc011lya.1_5'UTR|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.L44F	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	44					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						ACATTTGGGAGCACTGTAAAA	0.438													43	73					0	0	0.01441	0	0		A	123330664	A	A	123330664	3	1	7	1	0	0	0	0	1	0	0	0	3149	971	34	2	5695	2	CDK5RAP2	9	123330664	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	26267741	123330664	17882767	107	6692											
ASB6	140459	broad.mit.edu	37	chr9	132400887	132400887	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgaatgttctcagtattgTggatctgcaccccgtcgctg	7	12	11	11	3	2	0	1	0	2	0	4	3	2	1	2	1	1	4	2	1	2	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr9:132400887T>C	uc004byf.1	-	5	729	c.563A>G	c.(562-564)CAC>CGC	p.H188R	ASB6_uc004bye.1_Missense_Mutation_p.H113R|ASB6_uc004byg.1_Missense_Mutation_p.T152A|ASB6_uc011mbt.1_Missense_Mutation_p.H109R|ASB6_uc010myx.1_Intron	NM_017873	NP_060343	Q9NWX5	ASB6_HUMAN	ankyrin repeat and SOCS box-containing 6 isoform	188	ANK 4.				intracellular signal transduction	cytoplasm					0		Ovarian(14;0.00556)				CTCAGTATTGTGGATCTGCAC	0.602													9	15					0	0	0.004482	0	0		C	132400887	C	C	132400887	3	2	7	1	0	0	0	0	1	0	0	0	1028	1696	59	3	710	3	ASB6	9	132400887	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	9070223	132400887	8812544	108	6693											
BRD3	8019	broad.mit.edu	37	chr9	136907050	136907050	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgggctcatctggcatcttGgcaaacctcatctcaaacac	11	9	7	14	1	5	0	3	0	3	0	6	0	5	0	1	3	2	3	1	3	2	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr9:136907050G>C	uc004cew.2	-	8	1427	c.1239C>G	c.(1237-1239)GCC>GCG	p.A413A	BRD3_uc004cex.2_Silent_p.A413A	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	413						nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		CTGGCATCTTGGCAAACCTCA	0.652			T	NUT|C15orf55	lethal midline carcinoma of young people								3	11					0	0	0.004672	0	0		C	136907050	C	C	136907050	2	2	7	1	0	0	0	0	0	0	0	1	1506	1335	47	5		5	BRD3	9	136907050	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	4506163	136907050	4306381	109	6694											
ITIH5	80760	broad.mit.edu	37	chr10	7608346	7608346	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggaggggcgggtgccccaAttaactctccgttcactgtg	6	11	13	11	2	2	0	1	0	1	0	3	1	2	1	3	4	2	1	3	4	2	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr10:7608346A>G	uc001ijq.2	-	13	2253	c.2174T>C	c.(2173-2175)ATT>ACT	p.I725T	ITIH5_uc001ijp.2_Missense_Mutation_p.I511T	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	725					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						GGGTGCCCCAATTAACTCTCC	0.398													5	9					0	0	0.001168	0	0		G	7608346	G	G	7608346	3	3	7	1	0	0	0	0	1	0	0	0	7923	101	4	3	704	3	ITIH5	10	7608346	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08		7608346	127926401	110	6695											
BMI1	648	broad.mit.edu	37	chr10	22617625	22617625	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacatacctaatactttcCaggtatctacttttatattc	11	17	4	9	0	1	0	0	0	1	0	3	1	2	1	2	2	3	1	2	2	7	10			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr10:22617625C>G	uc001irh.2	+	8	1207	c.568C>G	c.(568-570)CAG>GAG	p.Q190E	BMI1_uc009xkg.2_Missense_Mutation_p.Q333E	NM_005180	NP_005171	P35226	BMI1_HUMAN	BMI1 polycomb ring finger oncogene	190	Interaction with E4F1.				hemopoiesis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fibroblast proliferation|positive regulation of ubiquitin-protein ligase activity|segment specification|transcription, DNA-dependent	cytoplasm|nucleolus|PcG protein complex|ubiquitin ligase complex	RING-like zinc finger domain binding|zinc ion binding			ovary(1)|skin(1)	2						TAATACTTTCCAGGTATCTAC	0.299													16	47					0	0	0.007413	0	0		G	22617625	G	G	22617625	3	3	7	1	0	0	0	0	1	0	0	0	1456	595	21	5	594	5	BMI1	10	22617625	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	15009279	22617625	112917122	111	6696											
STOX1	219736	broad.mit.edu	37	chr10	70645583	70645583	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttggattacccagttggCgtgaaccctttaagacaagc	10	12	9	10	1	0	2	0	1	0	1	0	3	0	3	2	2	3	1	2	2	4	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr10:70645583C>A	uc001jos.2	+	3	2118	c.2031C>A	c.(2029-2031)GGC>GGA	p.G677G	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Silent_p.G567G	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	677						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						ACCCAGTTGGCGTGAACCCTT	0.428													28	113					8.58068e-18	1.06186e-17	0.007291	1	0		A	70645583	A	A	70645583	2	1	7	1	0	0	0	0	0	0	0	1	15344	755	27	5		5	STOX1	10	70645583	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08	48027958	70645583	64889164	112	6697											
AIFM2	84883	broad.mit.edu	37	chr10	71876517	71876517	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaggcagctcctccagattGctcacccgctcacctagaag	10	7	9	15	1	2	3	2	0	0	3	4	3	4	3	4	1	2	4	4	1	2	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr10:71876517G>A	uc010qjg.1	-	6	643	c.630C>T	c.(628-630)AGC>AGT	p.S210S	AIFM2_uc001jqp.1_Silent_p.S210S	NM_032797	NP_116186	Q9BRQ8	AIFM2_HUMAN	apoptosis-inducing factor (AIF)-like	210					apoptotic mitochondrial changes|chromosome condensation|induction of apoptosis	cytosol|integral to membrane|mitochondrial outer membrane	DNA binding|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding			central_nervous_system(1)	1						CCTCCAGATTGCTCACCCGCT	0.597											OREG0020234	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	58					0	0	0.013537	0	0		A	71876517	A	A	71876517	2	1	7	1	0	0	0	0	0	0	0	1	427	1310	46	2		2	AIFM2	10	71876517	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	1230934	71876517	63658230	113	6698											
KIAA0913	23053	broad.mit.edu	37	chr10	75549954	75549954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacagcagggccctcagcatCggaccagagtacttggtatc	10	7	11	13	1	1	1	1	0	0	1	3	2	1	2	2	3	3	4	2	3	2	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr10:75549954C>T	uc009xrl.2	+	7	877	c.845C>T	c.(844-846)TCG>TTG	p.S282L	KIAA0913_uc001jve.2_Missense_Mutation_p.S282L|KIAA0913_uc001jvf.2_Missense_Mutation_p.S282L|KIAA0913_uc001jvh.2_5'Flank|KIAA0913_uc001jvi.2_5'Flank|KIAA0913_uc010qkr.1_5'Flank|KIAA0913_uc001jvj.2_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	282							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					CCCTCAGCATCGGACCAGAGT	0.517													11	39					0	0	0.010729	0	0		T	75549954	T	T	75549954	3	4	7	1	0	0	0	0	1	0	0	0	8216	893	31	1	871	1	KIAA0913	10	75549954	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	3673437	75549954	59984793	114	6699											
GRID1	2894	broad.mit.edu	37	chr10	87484277	87484277	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaatgcaggcccacacagCgaaatcaaatggagcaaaga	17	4	10	10	1	1	1	1	0	0	1	1	3	1	2	1	2	4	3	1	2	4	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr10:87484277C>A	uc001kdl.1	-	11	1791	c.1690G>T	c.(1690-1692)GCT>TCT	p.A564S	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.A135S	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	564	Helical; (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	GCCCACACAGCGAAATCAAAT	0.512										Multiple Myeloma(13;0.14)			11	24					1.08611e-07	1.25029e-07	0.010729	1	0		A	87484277	A	A	87484277	3	1	7	1	0	0	0	0	1	0	0	0	6787	768	27	5	1363	5	GRID1	10	87484277	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	11934323	87484277	48050470	115	6700											
IFIT3	3437	broad.mit.edu	37	chr10	91099742	91099742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatgagaaggaactgggcCgcctgctaagggatgcccct	9	8	14	10	1	0	1	0	1	0	1	0	4	0	3	4	3	3	2	4	3	4	2	rs113402097		TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr10:91099742C>T	uc001kgf.2	+	2	1559	c.1330C>T	c.(1330-1332)CGC>TGC	p.R444C	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron|IFIT3_uc001kgg.2_Missense_Mutation_p.R444C	NM_001549	NP_001540	O14879	IFIT3_HUMAN	interferon-induced protein with	444	TPR 7.				type I interferon-mediated signaling pathway		protein binding			central_nervous_system(1)	1						GGAACTGGGCCGCCTGCTAAG	0.483													13	24					0	0	0.00499	0	0		T	91099742	T	T	91099742	3	4	7	1	0	0	0	0	1	0	0	0	7540	652	23	1	1345	1	IFIT3	10	91099742	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	3615465	91099742	44435005	116	6701											
C10orf12	26148	broad.mit.edu	37	chr10	98741419	98741419	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcttcactctctgggaaGaaataaggtgggttaccatt	11	12	9	9	0	3	1	1	0	2	1	4	2	3	2	2	3	1	1	2	3	4	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr10:98741419G>T	uc001kmv.2	+	1	379	c.272G>T	c.(271-273)AGA>ATA	p.R91I	C10orf12_uc009xvg.1_Missense_Mutation_p.R401I	NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	91										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		TCTCTGGGAAGAAATAAGGTG	0.453													15	22					3.45872e-05	3.81873e-05	0.004007	1	0		T	98741419	T	T	98741419	3	4	7	1	0	0	0	0	1	0	0	0	1592	942	33	5	274	5	C10orf12	10	98741419	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	7641677	98741419	36793328	117	6702											
RRP12	23223	broad.mit.edu	37	chr10	99140565	99140565	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccccactcaccttcctcatCacagggtgggcctgtctccc	5	10	7	19	0	4	0	3	0	1	0	7	0	6	0	6	2	0	0	6	2	0	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr10:99140565C>G	uc001knf.2	-	13	1663	c.1524G>C	c.(1522-1524)GTG>GTC	p.V508V	RRP12_uc009xvm.2_Silent_p.V226V|RRP12_uc010qou.1_Silent_p.V447V|RRP12_uc009xvn.2_Silent_p.V408V	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	508						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		CCTTCCTCATCACAGGGTGGG	0.493													13	5					0	0	0.00245	0	0		G	99140565	G	G	99140565	2	3	7	1	0	0	0	0	0	0	0	1	13711	813	29	5		5	RRP12	10	99140565	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08	399146	99140565	36394182	118	6703											
C10orf81	79949	broad.mit.edu	37	chr10	115534093	115534093	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgagccaatggaatcctaGtaagtcaaaatgccgtttca	14	11	8	8	1	2	1	2	1	0	0	3	2	3	2	3	1	2	2	3	1	7	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr10:115534093G>A	uc001lat.1	+	8	1323	c.761_splice	c.e8+1	p.Y254_splice	C10orf81_uc001lar.1_Splice_Site_p.Y260_splice|C10orf81_uc009xyc.1_Splice_Site_p.Y172_splice|C10orf81_uc001las.1_Splice_Site_p.Y172_splice|C10orf81_uc001lau.1_Splice_Site_p.Y74_splice	NM_024889	NP_079165	Q5SXH7	CJ081_HUMAN	hypothetical protein LOC79949											central_nervous_system(1)	1		Colorectal(252;0.175)		Epithelial(162;0.0181)|all cancers(201;0.0204)		TGGAATCCTAGTAAGTCAAAA	0.378													8	35					0	0	0.004482	0	0		A	115534093	A	A	115534093	5	1	7	1	0	0	0	0	0	0	1	0	1622	1043	36	4	810	4	C10orf81	10	115534093	Splice_Site	SNP	G	TCGA-BR-4191-01A-02D-1126-08	16393528	115534093	20000654	119	6704											
OR51B4	79339	broad.mit.edu	37	chr11	5323107	5323107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaggacatagagatccGgtagtgaactgcctctgagc	14	7	12	8	1	1	4	0	2	1	2	2	6	2	5	2	2	3	1	2	2	5	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr11:5323107G>A	uc010qza.1	-	1	70	c.70C>T	c.(70-72)CGG>TGG	p.R24W	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033179	NP_149419	Q9Y5P0	O51B4_HUMAN	olfactory receptor, family 51, subfamily B,	24	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATAGAGATCCGGTAGTGAACT	0.468											OREG0003718	type=REGULATORY REGION|Gene=OR51B4|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	11	23					0	0	0.010729	0	0		A	5323107	A	A	5323107	3	1	7	1	0	0	0	0	1	0	0	0	11109	1115	39	1	865	1	OR51B4	11	5323107	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08		5323107	129683409	120	6705											
OR6A2	8590	broad.mit.edu	37	chr11	6816879	6816879	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tagtacctgtagtggcgcagGagcagggaagcccagcaaca	12	5	14	10	1	0	0	0	0	0	0	0	2	0	2	2	3	5	5	2	3	5	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr11:6816879G>C	uc001mes.1	-	1	261	c.61C>G	c.(61-63)CCT>GCT	p.P21A		NM_003696	NP_003687	O95222	OR6A2_HUMAN	olfactory receptor, family 6, subfamily A,	21	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		AGTGGCGCAGGAGCAGGGAAG	0.493													10	25					0	0	0.008291	0	0		C	6816879	C	C	6816879	3	2	7	1	0	0	0	0	1	0	0	0	11205	1174	41	5	926	5	OR6A2	11	6816879	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	1493772	6816879	128189637	121	6706											
SOX6	55553	broad.mit.edu	37	chr11	16007941	16007941	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taataaggttgcttctcctgGttggacattgatttccagcg	8	15	10	8	1	1	1	0	1	1	0	3	2	2	2	2	3	2	3	2	3	2	7			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr11:16007941G>C	uc001mme.2	-	15	2064	c.2031C>G	c.(2029-2031)AAC>AAG	p.N677K	SOX6_uc001mmd.2_Missense_Mutation_p.N640K|SOX6_uc001mmf.2_Missense_Mutation_p.N637K|SOX6_uc001mmg.2_Missense_Mutation_p.N644K	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	664	HMG box.				muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						GCTTCTCCTGGTTGGACATTG	0.428													16	47					0	0	0.00499	0	0		C	16007941	C	C	16007941	3	2	7	1	0	0	0	0	1	0	0	0	14980	1252	44	5	502	5	SOX6	11	16007941	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	9191062	16007941	118998575	122	6707											
DEPDC7	91614	broad.mit.edu	37	chr11	33053076	33053076	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattggcagatattacagtaGtagggaacctctgttaaatc	13	12	9	7	0	1	1	0	0	1	1	2	2	1	2	1	2	2	4	1	2	7	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr11:33053076G>C	uc001mub.2	+	5	1027	c.935G>C	c.(934-936)AGT>ACT	p.S312T	DEPDC7_uc001muc.2_Missense_Mutation_p.S303T	NM_001077242	NP_001070710	Q96QD5	DEPD7_HUMAN	novel 58.3 KDA protein isoform 1	312					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|skin(1)	2						TATTACAGTAGTAGGGAACCT	0.388													8	42					0	0	0.004482	0	0		C	33053076	C	C	33053076	3	2	7	1	0	0	0	0	1	0	0	0	4450	1029	36	5	1003	5	DEPDC7	11	33053076	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	17045135	33053076	101953440	123	6708											
SPTBN2	6712	broad.mit.edu	37	chr11	66460149	66460149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgctcccgccgctctccaGccagctccttcaggccggca	4	6	11	20	4	2	0	1	0	1	0	5	0	4	0	6	3	2	4	6	3	0	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr11:66460149G>A	uc001ojd.2	-	25	5120	c.5048C>T	c.(5047-5049)GCT>GTT	p.A1683V		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1683	Spectrin 13.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCGCTCTCCAGCCAGCTCCTT	0.652													5	7					0	0	0.001984	0	0		A	66460149	A	A	66460149	3	1	7	1	0	0	0	0	1	0	0	0	15145	971	34	2	2176	2	SPTBN2	11	66460149	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	33407073	66460149	68546367	124	6709											
KCNJ1	3758	broad.mit.edu	37	chr11	128709348	128709348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgctggagaagggtctccGctgccatgtggaagaaaggg	9	7	16	9	1	1	2	0	0	1	2	2	4	1	3	3	4	2	2	3	4	3	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr11:128709348G>A	uc001qeo.1	-	2	899	c.848C>T	c.(847-849)GCG>GTG	p.A283V	KCNJ1_uc001qep.1_Missense_Mutation_p.A264V|KCNJ1_uc001qeq.1_Missense_Mutation_p.A264V|KCNJ1_uc001qer.1_Missense_Mutation_p.A264V|KCNJ1_uc001qes.1_Missense_Mutation_p.A264V	NM_000220	NP_000211	P48048	IRK1_HUMAN	potassium inwardly-rectifying channel J1 isoform	283	Cytoplasmic (By similarity).				excretion	voltage-gated potassium channel complex	ATP binding|inward rectifier potassium channel activity			ovary(3)|breast(1)	4	all_hematologic(175;0.0641)	all_lung(97;4.89e-06)|Lung NSC(97;9.34e-06)|Breast(109;0.00123)|all_hematologic(192;0.00793)|Renal(330;0.0112)|all_neural(223;0.0189)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;4.05e-06)|LUSC - Lung squamous cell carcinoma(976;0.008)|Lung(977;0.00942)	Acetohexamide(DB00414)|Chlorpropamide(DB00672)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Glimepiride(DB00222)|Glipizide(DB01067)|Glycodiazine(DB01382)|Minoxidil(DB00350)|Nateglinide(DB00731)|Repaglinide(DB00912)|Tolazamide(DB00839)|Tolbutamide(DB01124)	AAGGGTCTCCGCTGCCATGTG	0.463													13	22					0	0	0.004007	0	0		A	128709348	A	A	128709348	3	1	7	1	0	0	0	0	1	0	0	0	8059	1087	38	1	331	1	KCNJ1	11	128709348	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	62249199	128709348	6297168	125	6710											
WNK1	65125	broad.mit.edu	37	chr12	922912	922912	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattttatgattcctgggaAtccacagtaaaaggaaagaa	17	10	9	5	0	0	3	0	1	0	2	2	5	2	5	2	2	0	1	2	2	6	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:922912A>T	uc001qio.3	+	2	1371	c.864A>T	c.(862-864)GAA>GAT	p.E288D	WNK1_uc001qin.2_Missense_Mutation_p.E288D|WNK1_uc001qip.3_Missense_Mutation_p.E288D	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	288	Protein kinase.				intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			ATTCCTGGGAATCCACAGTAA	0.353													5	24					0	0	0.000602	0	0		T	922912	T	T	922912	3	4	7	1	0	0	0	0	1	0	0	0	17403	98	4	5	870	5	WNK1	12	922912	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08		922912	132928983	126	6711											
WNK1	65125	broad.mit.edu	37	chr12	989017	989017	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctgctacaacagctgcGatcccgggggtatcaactgt	9	10	10	12	2	3	0	2	0	1	0	4	1	4	0	1	2	6	3	1	2	4	2	rs142528714		TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:989017G>T	uc001qio.3	+	11	3159	c.2652G>T	c.(2650-2652)GCG>GCT	p.A884A	WNK1_uc001qip.3_Intron|WNK1_uc001qir.3_Intron	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	884					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CAACAGCTGCGATCCCGGGGG	0.547													15	42					8.10497e-08	9.43991e-08	0.010504	1	0		T	989017	T	T	989017	2	4	7	1	0	0	0	0	0	0	0	1	17403	1045	37	5		5	WNK1	12	989017	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	66105	989017	132862878	127	6712											
A2M	2	broad.mit.edu	37	chr12	9227252	9227252	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccgaggttggggctggCtgggccgtgagataagcgag	6	8	18	9	3	0	1	0	1	0	1	2	4	2	1	3	5	1	3	3	5	1	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:9227252C>A	uc001qvk.1	-	29	3773	c.3660G>T	c.(3658-3660)CAG>CAT	p.Q1220H	A2M_uc001qvj.1_Missense_Mutation_p.Q262H|A2M_uc009zgk.1_Missense_Mutation_p.Q1070H	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1220					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	TTGGGGCTGGCTGGGCCGTGA	0.582													6	15					0.000157383	0.000169974	0.00308	1	0		A	9227252	A	A	9227252	3	1	7	1	0	0	0	0	1	0	0	0	4	796	28	5	796	5	A2M	12	9227252	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	8238235	9227252	124624643	128	6713											
TAS2R7	50837	broad.mit.edu	37	chr12	10954694	10954694	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcctctttgccttcacaCaaaacctgaaatcagcgttc	10	14	4	13	1	3	1	2	1	1	0	5	1	4	1	3	0	3	1	3	0	3	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:10954694C>A	uc001qyv.2	-	1	533	c.476G>T	c.(475-477)TGT>TTT	p.C159F		NM_023919	NP_076408	Q9NYW3	TA2R7_HUMAN	taste receptor, type 2, member 7	159	Extracellular (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			skin(1)	1						TGCCTTCACACAAAACCTGAA	0.428													8	18					7.48243e-07	8.51449e-07	0.006214	1	0		A	10954694	A	A	10954694	3	1	7	1	0	0	0	0	1	0	0	0	15611	478	17	5	484	5	TAS2R7	12	10954694	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	1727442	10954694	122897201	129	6714											
GUCY2C	2984	broad.mit.edu	37	chr12	14804400	14804400	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcatggtatcaagtttcaCtgtgccgtagaacttggtca	10	13	10	8	1	4	1	4	0	0	1	4	2	4	1	1	2	2	3	1	2	4	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:14804400C>A	uc001rcd.2	-	15	1788	c.1651G>T	c.(1651-1653)GTG>TTG	p.V551L		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	551	Cytoplasmic (Potential).|Protein kinase.				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TCAAGTTTCACTGTGCCGTAG	0.403													8	33					0.000673444	0.000719471	0.008291	1	0		A	14804400	A	A	14804400	3	1	7	1	0	0	0	0	1	0	0	0	6912	565	20	5	1622	5	GUCY2C	12	14804400	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	3849706	14804400	119047495	130	6715											
PLEKHA9	51054	broad.mit.edu	37	chr12	45567963	45567963	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggtagagcagctcagaGgtgaaggctgcatttgcaat	10	10	15	6	0	1	3	1	1	0	2	1	3	1	3	0	3	4	6	0	3	3	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:45567963G>A	uc001rom.1	-	3	723	c.186C>T	c.(184-186)ACC>ACT	p.T62T	PLEKHA9_uc009zke.2_Silent_p.T62T	NM_015899	NP_056983			pleckstrin homology domain containing, family A												0	Lung SC(27;0.192)|Renal(347;0.236)			GBM - Glioblastoma multiforme(48;0.173)		GCAGCTCAGAGGTGAAGGCTG	0.448													27	73					0	0	0.005443	0	0		A	45567963	A	A	45567963	2	1	7	1	0	0	0	0	0	0	0	1	12082	987	35	4		4	PLEKHA9	12	45567963	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	30763563	45567963	88283932	131	6716											
KRT2	3849	broad.mit.edu	37	chr12	53040566	53040566	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgcggtaggtggcgatcTccacatctagggccagcttc	6	11	13	11	2	2	0	0	0	2	0	4	1	2	0	2	4	2	3	2	4	2	4	rs60537449		TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:53040566T>A	uc001sat.2	-	7	1460	c.1427A>T	c.(1426-1428)GAG>GTG	p.E476V		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	476	Coil 2.|Rod.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		GGTGGCGATCTCCACATCTAG	0.627													23	88					0	0	0.003954	0	0		A	53040566	A	A	53040566	3	1	7	1	0	0	0	0	1	0	0	0	8473	1551	54	5	504	5	KRT2	12	53040566	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	7472603	53040566	80811329	132	6717											
KRT79	338785	broad.mit.edu	37	chr12	53225213	53225213	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcttgaagtcctccacaagGtcctgcacgttcctgagctc	7	12	8	14	1	1	2	0	2	1	0	6	2	5	2	4	1	2	3	4	1	2	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:53225213G>T	uc001sbb.2	-	2	708	c.675C>A	c.(673-675)GAC>GAA	p.D225E	KRT79_uc001sba.2_5'Flank	NM_175834	NP_787028	Q5XKE5	K2C79_HUMAN	keratin 6L	225	Rod.|Coil 1B.					keratin filament	structural molecule activity			ovary(2)|skin(2)	4						CCTCCACAAGGTCCTGCACGT	0.627													16	51					3.41278e-10	4.08708e-10	0.00499	1	0		T	53225213	T	T	53225213	3	4	7	1	0	0	0	0	1	0	0	0	8508	1252	44	5	964	5	KRT79	12	53225213	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	184647	53225213	80626682	133	6718											
CALCOCO1	57658	broad.mit.edu	37	chr12	54108990	54108991	+	Frame_Shift_Del	DEL	AG	-	-																															gctggatgcctcaccaggctAgaatccttctcccgggccag																										TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:54108990_54108991delAG	uc001sef.2	-	10	1523_1524	c.1379_1380delCT	c.(1378-1380)TCTfs	p.S460fs	CALCOCO1_uc001see.2_5'Flank|CALCOCO1_uc010som.1_Frame_Shift_Del_p.S375fs|CALCOCO1_uc010son.1_Frame_Shift_Del_p.S337fs|CALCOCO1_uc001seh.2_Frame_Shift_Del_p.S460fs|CALCOCO1_uc009znd.2_Frame_Shift_Del_p.S460fs|CALCOCO1_uc001seg.2_Frame_Shift_Del_p.S285fs|CALCOCO1_uc010soo.1_Frame_Shift_Del_p.S453fs	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	460	Potential.				steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						TCACCAGGCTAGAATCCTTCTC	0.55													8	18	---	---	---	---						.	-	54108991	-	-	54108990	7	5	7	1	0	1	0	1	0	0	0	0	2580	407	15	0	719	0	CALCOCO1	12	54108990	Frame_Shift_Del	DEL	AG	TCGA-BR-4191-01A-02D-1126-08	883777	54108990	79742905	134	6719											
LRIG3	121227	broad.mit.edu	37	chr12	59279648	59279648	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaaaccagtgaaggctttTttagtaatagaacggatccg	13	11	9	8	2	0	2	0	1	0	1	2	3	2	3	3	2	2	2	3	2	6	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:59279648T>C	uc001sqr.2	-	10	1455	c.1209A>G	c.(1207-1209)AAA>AAG	p.K403K	LRIG3_uc009zqh.2_Silent_p.K343K|LRIG3_uc010ssh.1_RNA	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like	403	LRR 14.					integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			TGAAGGCTTTTTTAGTAATAG	0.368													42	148					0	0	0.01441	0	0		C	59279648	C	C	59279648	2	2	7	1	0	0	0	0	0	0	0	1	8964	1838	64	3		3	LRIG3	12	59279648	Silent	SNP	T	TCGA-BR-4191-01A-02D-1126-08	5170658	59279648	74572247	135	6720											
BEST3	144453	broad.mit.edu	37	chr12	70091576	70091576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttactggagtaagtgacagtCatcttggatagttttttcta	10	17	9	5	0	3	1	1	1	2	0	3	3	3	3	0	2	1	2	0	2	4	8			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:70091576C>T	uc001svg.2	-	2	230	c.3G>A	c.(1-3)ATG>ATA	p.M1I	BEST3_uc001svd.1_Missense_Mutation_p.M1I|BEST3_uc001sve.1_Intron|BEST3_uc010stm.1_Intron|BEST3_uc001svh.2_Intron|BEST3_uc001svi.1_Intron	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	1	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			AAGTGACAGTCATCTTGGATA	0.358													22	63					0	0	0.00333	0	0		T	70091576	T	T	70091576	3	4	7	1	0	0	0	0	1	0	0	0	1407	826	29	4	2039	4	BEST3	12	70091576	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	10811928	70091576	63760319	136	6721											
NAV3	89795	broad.mit.edu	37	chr12	78582112	78582112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttagatggtgtaataagaCgtctctttaaggtatgttgt	10	17	10	4	1	2	2	0	0	2	2	3	2	2	2	0	2	0	3	0	2	5	7			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:78582112C>T	uc001syp.2	+	32	6048	c.5875C>T	c.(5875-5877)CGT>TGT	p.R1959C	NAV3_uc001syo.2_Missense_Mutation_p.R1937C|NAV3_uc010sub.1_Missense_Mutation_p.R1416C|NAV3_uc009zsf.2_Missense_Mutation_p.R768C	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1959						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity	p.R1937C(1)		large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TGTAATAAGACGTCTCTTTAA	0.343										HNSCC(70;0.22)			7	43					0	0	0.001984	0	0		T	78582112	T	T	78582112	3	4	7	1	0	0	0	0	1	0	0	0	10203	536	19	1	5931	1	NAV3	12	78582112	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	8490536	78582112	55269783	137	6722											
BTBD11	121551	broad.mit.edu	37	chr12	108004005	108004005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatctcgaaagctggatgCggtggccatcgaagccaagt	10	8	13	10	3	1	0	0	0	1	0	3	3	1	1	2	3	4	2	2	3	3	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:108004005C>T	uc001tmk.1	+	5	2203	c.1682C>T	c.(1681-1683)GCG>GTG	p.A561V	BTBD11_uc009zut.1_Missense_Mutation_p.A561V|BTBD11_uc001tmj.2_Missense_Mutation_p.A561V|BTBD11_uc001tml.1_Missense_Mutation_p.A98V	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	561						integral to membrane	DNA binding			skin(2)|ovary(1)	3						AAGCTGGATGCGGTGGCCATC	0.582											OREG0022090	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	53					0	0	0.008291	0	0		T	108004005	T	T	108004005	3	4	7	1	0	0	0	0	1	0	0	0	1542	768	27	1	1805	1	BTBD11	12	108004005	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	29421893	108004005	25847890	138	6723											
KNTC1	9735	broad.mit.edu	37	chr12	123060182	123060182	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaacagcacctggaaatGgaccatcccaagtaagatga	16	6	10	9	0	0	3	0	2	0	1	1	5	1	5	3	2	2	2	3	2	4	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:123060182G>T	uc001ucv.2	+	28	2638	c.2475G>T	c.(2473-2475)ATG>ATT	p.M825I	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	825					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		ACCTGGAAATGGACCATCCCA	0.418													7	6					8.12818e-05	8.87526e-05	0.001984	1	0		T	123060182	T	T	123060182	3	4	7	1	0	0	0	0	1	0	0	0	8444	1348	47	5	2581	5	KNTC1	12	123060182	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	15056177	123060182	10791713	139	6724											
NCOR2	9612	broad.mit.edu	37	chr12	124862804	124862804	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttcagcctcctccaccatctCctcctcatttccgctcacgc	5	12	3	21	2	4	0	3	0	1	0	9	0	8	0	7	0	1	1	7	0	0	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr12:124862804C>G	uc010tba.1	-	18	2263	c.2146G>C	c.(2146-2148)GAG>CAG	p.E716Q	NCOR2_uc010tay.1_Missense_Mutation_p.E716Q|NCOR2_uc010taz.1_Missense_Mutation_p.E716Q|NCOR2_uc010tbb.1_Missense_Mutation_p.E716Q|NCOR2_uc010tbc.1_Missense_Mutation_p.E715Q|NCOR2_uc001ugj.1_Missense_Mutation_p.E716Q	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	716					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		TCCACCATCTCCTCCTCATTT	0.667													7	36					0	0	0.010729	0	0		G	124862804	G	G	124862804	3	3	7	1	0	0	0	0	1	0	0	0	10255	864	30	5	5542	5	NCOR2	12	124862804	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	1802622	124862804	8989091	140	6725											
RASL11A	387496	broad.mit.edu	37	chr13	27847365	27847365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggggaccttttgcatgccCggcaggtgcagacacaggac	9	6	15	11	1	0	1	0	0	0	1	0	3	0	3	2	5	3	3	2	5	0	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr13:27847365C>T	uc001urd.1	+	4	1081	c.463C>T	c.(463-465)CGG>TGG	p.R155W		NM_206827	NP_996563	Q6T310	RSLBA_HUMAN	RAS-like, family 11, member A	155	Small GTPase-like.				positive regulation of transcription from RNA polymerase I promoter|small GTPase mediated signal transduction|transcription, DNA-dependent	membrane|nucleolus	GTP binding|GTPase activity			breast(1)	1		Lung SC(185;0.0161)	Colorectal(13;0.00042)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.0173)|GBM - Glioblastoma multiforme(144;0.0557)|OV - Ovarian serous cystadenocarcinoma(117;0.152)|Epithelial(112;0.164)		TTTGCATGCCCGGCAGGTGCA	0.532													5	16					0	0	0.001984	0	0		T	27847365	T	T	27847365	3	4	7	1	0	0	0	0	1	0	0	0	13106	643	23	1	477	1	RASL11A	13	27847365	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08		27847365	87322513	141	6726											
B3GALTL	145173	broad.mit.edu	37	chr13	31898019	31898019	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccctgtgacacacagccCtctcttccatcaggtgagga	10	9	8	14	0	2	2	1	2	1	0	5	3	4	3	3	2	1	0	3	2	1	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr13:31898019C>G	uc010aaz.2	+	14	1426	c.1316C>G	c.(1315-1317)CCT>CGT	p.P439R	B3GALTL_uc001utn.3_RNA|B3GALTL_uc001uto.3_Missense_Mutation_p.P44R	NM_194318	NP_919299	Q6Y288	B3GLT_HUMAN	beta 1,3-galactosyltransferase-like	439	Lumenal (Potential).				fucose metabolic process	endoplasmic reticulum membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2		Lung SC(185;0.0257)		all cancers(112;0.00436)|Epithelial(112;0.0285)|OV - Ovarian serous cystadenocarcinoma(117;0.0512)|GBM - Glioblastoma multiforme(144;0.184)		ACACACAGCCCTCTCTTCCAT	0.463													76	81					0	0	0.01441	0	0		G	31898019	G	G	31898019	3	3	7	1	0	0	0	0	1	0	0	0	1253	681	24	5	1370	5	B3GALTL	13	31898019	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	4050654	31898019	83271859	142	6727											
ENOX1	55068	broad.mit.edu	37	chr13	43986166	43986166	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgggtcgtgtctatcgCtatactccccaaaccatcgg	8	10	10	13	3	1	0	0	0	1	0	5	1	2	0	3	2	3	2	3	2	4	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr13:43986166C>G	uc001uza.3	-	5	394	c.94G>C	c.(94-96)GCG>CCG	p.A32P	ENOX1_uc001uzb.3_Missense_Mutation_p.A32P|ENOX1_uc001uzc.3_Missense_Mutation_p.A32P	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	32					electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		GTGTCTATCGCTATACTCCCC	0.483													7	17					0	0	0.006214	0	0		G	43986166	G	G	43986166	3	3	7	1	0	0	0	0	1	0	0	0	5134	797	28	5	1889	5	ENOX1	13	43986166	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	12088147	43986166	71183712	143	6728											
CCDC122	160857	broad.mit.edu	37	chr13	44443470	44443470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taagactgtttcattaccttCtttaggaaatccttgactct	10	17	5	9	0	3	2	1	1	2	1	4	3	4	3	2	1	1	1	2	1	4	7			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr13:44443470C>T	uc010acf.2	-	3	302	c.43G>A	c.(43-45)GAA>AAA	p.E15K	CCDC122_uc010tfn.1_Missense_Mutation_p.E15K	NM_144974	NP_659411	Q5T0U0	CC122_HUMAN	coiled-coil domain containing 122	15											0		Lung NSC(96;7.5e-06)|Breast(139;0.00765)|Hepatocellular(98;0.00826)|Prostate(109;0.0143)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000767)|BRCA - Breast invasive adenocarcinoma(63;0.128)		TCATTACCTTCTTTAGGAAAT	0.313													7	34					0	0	0.00308	0	0		T	44443470	T	T	44443470	3	4	7	1	0	0	0	0	1	0	0	0	2761	922	32	4	798	4	CCDC122	13	44443470	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	457304	44443470	70726408	144	6729											
PIBF1	10464	broad.mit.edu	37	chr13	73547774	73547774	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttactacagacgaagaatcaAatggcattagatttagaaca	18	10	7	6	1	1	4	1	0	0	4	1	5	1	4	0	1	3	1	0	1	8	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr13:73547774A>C	uc001vjc.2	+	16	2315	c.2010A>C	c.(2008-2010)CAA>CAC	p.Q670H	PIBF1_uc001vjb.2_Missense_Mutation_p.Q670H|PIBF1_uc010aep.2_Missense_Mutation_p.Q129H	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	670						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		CGAAGAATCAAATGGCATTAG	0.269													11	45					0	0	0.00499	0	0		C	73547774	C	C	73547774	3	2	7	1	0	0	0	0	1	0	0	0	11898	11	1	5	2068	5	PIBF1	13	73547774	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	29104304	73547774	41622104	145	6730											
EDNRB	1910	broad.mit.edu	37	chr13	78492668	78492668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccgcaggcaagaaccagcGcaaccagggcgcgtccgcac	10	1	14	16	5	0	1	0	0	0	1	1	1	1	1	4	3	3	4	4	3	3	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr13:78492668G>A	uc001vko.2	-	1	299	c.41C>T	c.(40-42)GCG>GTG	p.A14V	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.A14V|EDNRB_uc010aez.1_Missense_Mutation_p.A14V|EDNRB_uc001vkp.1_Missense_Mutation_p.A97V|EDNRB_uc010afa.1_Missense_Mutation_p.A14V	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	14					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	AAGAACCAGCGCAACCAGGGC	0.637											OREG0022452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	12					0	0	0.00308	0	0		A	78492668	A	A	78492668	3	1	7	1	0	0	0	0	1	0	0	0	4926	1087	38	1	1436	1	EDNRB	13	78492668	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	4944894	78492668	36677210	146	6731											
NDFIP2	54602	broad.mit.edu	37	chr13	80117716	80117716	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catttattttcaactggcttGgattttgtttatccttctgt	6	22	6	7	0	2	0	1	0	1	0	3	1	3	1	1	2	1	2	1	2	3	10			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr13:80117716G>T	uc001vlf.2	+	5	819	c.739G>T	c.(739-741)GGA>TGA	p.G247*	NDFIP2_uc010tib.1_Intron|NDFIP2_uc001vlg.2_Intron	NM_019080	NP_061953	Q9NV92	NFIP2_HUMAN	Nedd4 family interacting protein 2 isoform 1	247	Helical; (Potential).				negative regulation of gene expression|negative regulation of protein transport|negative regulation of transporter activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of protein ubiquitination	endoplasmic reticulum|Golgi membrane|integral to membrane|mitochondrion|multivesicular body membrane|perinuclear region of cytoplasm	signal transducer activity|WW domain binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.205)		GBM - Glioblastoma multiforme(99;0.0196)		CAACTGGCTTGGATTTTGTTT	0.343													6	56					0.00621372	0.0066146	0.006214	1	0		T	80117716	T	T	80117716	4	4	7	1	0	0	0	0	0	1	0	0	10265	1349	47	5	757	5	NDFIP2	13	80117716	Nonsense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	1625048	80117716	35052162	147	6732											
EFNB2	1948	broad.mit.edu	37	chr13	107147295	107147295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtaccagcttctagttctgGacgtcttgttggatctttat	6	18	9	8	1	4	0	0	0	4	0	4	2	4	2	1	2	2	4	1	2	3	8			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr13:107147295G>A	uc001vqi.2	-	4	572	c.547C>T	c.(547-549)CCA>TCA	p.P183S		NM_004093	NP_004084	P52799	EFNB2_HUMAN	ephrin B2 precursor	183	Extracellular (Potential).				cell differentiation|cell-cell signaling|interspecies interaction between organisms|nervous system development	integral to plasma membrane	ephrin receptor binding			ovary(1)	1	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					TCTAGTTCTGGACGTCTTGTT	0.398													21	93					0	0	0.00278	0	0		A	107147295	A	A	107147295	3	1	7	1	0	0	0	0	1	0	0	0	4962	1174	41	4	462	4	EFNB2	13	107147295	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	27029579	107147295	8022583	148	6733											
ADPRHL1	113622	broad.mit.edu	37	chr13	114077206	114077206	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcttctccttgtcctccagGtcctggtacaagcctttggg	5	13	10	13	0	1	0	0	0	1	0	5	0	4	0	5	3	3	2	5	3	2	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr13:114077206G>A	uc001vtq.1	-	7	1083	c.996C>T	c.(994-996)GAC>GAT	p.D332D	ADPRHL1_uc001vtp.1_Silent_p.D250D	NM_138430	NP_612439	Q8NDY3	ARHL1_HUMAN	ADP-ribosylhydrolase like 1 isoform 1	332					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0395)|all_epithelial(44;0.011)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.0195)|GBM - Glioblastoma multiforme(44;0.116)			TGTCCTCCAGGTCCTGGTACA	0.607													7	27					0	0	0.00308	0	0		A	114077206	A	A	114077206	2	1	7	1	0	0	0	0	0	0	0	1	332	1252	44	4		4	ADPRHL1	13	114077206	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	6929911	114077206	1092672	149	6734											
OR4N2	390429	broad.mit.edu	37	chr14	20295867	20295867	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttggtggacttcctctCtgcgaagaagataatctcct	9	13	10	9	1	2	2	0	0	2	2	5	5	3	3	2	2	1	1	2	2	3	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr14:20295867C>A	uc010tkv.1	+	1	260	c.260C>A	c.(259-261)TCT>TAT	p.S87Y		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GACTTCCTCTCTGCGAAGAAG	0.522													24	60					4.47668e-21	5.58644e-21	0.003954	1	0		A	20295867	A	A	20295867	3	1	7	1	0	0	0	0	1	0	0	0	11096	913	32	5	262	5	OR4N2	14	20295867	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08		20295867	87053673	150	6735											
MYH7	4625	broad.mit.edu	37	chr14	23884713	23884713	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctggttgatgaggctggtGttctgggttgggggagggtt	3	15	20	3	0	2	2	0	2	2	0	2	3	2	3	0	7	0	5	0	7	0	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr14:23884713G>A	uc001wjx.2	-	36	5266	c.5160C>T	c.(5158-5160)AAC>AAT	p.N1720N		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1720	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TGAGGCTGGTGTTCTGGGTTG	0.557													12	36					0	0	0.013537	0	0		A	23884713	A	A	23884713	2	1	7	1	0	0	0	0	0	0	0	1	10057	1368	48	4		4	MYH7	14	23884713	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	3588846	23884713	83464827	151	6736											
SDR39U1	56948	broad.mit.edu	37	chr14	24911974	24911974	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacccacaagcacacgcAtagcgactaggacctaacgc	13	4	7	17	3	1	0	1	0	0	0	1	2	1	1	3	1	3	2	3	1	4	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr14:24911974A>T	uc001wpm.2	-	1	34	c.2T>A	c.(1-3)ATG>AAG	p.M1K	SDR39U1_uc001wpi.2_5'Flank|SDR39U1_uc001wpj.2_5'Flank|SDR39U1_uc001wpk.2_5'Flank|SDR39U1_uc001wpl.2_5'Flank|SDR39U1_uc001wpn.2_Intron|uc001wpo.1_5'Flank	NM_020195	NP_064580	Q9NRG7	D39U1_HUMAN	short chain dehydrogenase/reductase family 39U,	Error:Variant_position_missing_in_Q9NRG7_after_alignment							binding			pancreas(1)	1						AAGCACACGCATAGCGACTAG	0.587													38	94					0	0	0.01441	0	0		T	24911974	T	T	24911974	3	4	7	1	0	0	0	0	1	0	0	0	13997	217	8	5	903	5	SDR39U1	14	24911974	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	1027261	24911974	82437566	152	6737											
GZMH	2999	broad.mit.edu	37	chr14	25078787	25078787	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccagccccaggggtcagAagaaaggccaacaggaggag	13	2	15	11	0	1	2	1	0	0	2	2	4	2	4	4	5	2	0	4	5	3	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr14:25078787A>C	uc001wpr.1	-	1	78	c.33T>G	c.(31-33)CTT>CTG	p.L11L	GZMH_uc010aly.1_Silent_p.L11L|GZMH_uc010alz.1_Silent_p.L11L	NM_033423	NP_219491	P20718	GRAH_HUMAN	granzyme H precursor	11					apoptosis|cytolysis|proteolysis	cytoplasm	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(265;0.0267)		CAGGGGTCAGAAGAAAGGCCA	0.522													20	51					0	0	0.00278	0	0		C	25078787	C	C	25078787	2	2	7	1	0	0	0	0	0	0	0	1	6933	233	9	5		5	GZMH	14	25078787	Silent	SNP	A	TCGA-BR-4191-01A-02D-1126-08	166813	25078787	82270753	153	6738											
NOVA1	4857	broad.mit.edu	37	chr14	26917367	26917367	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtattccactaatgttttcCctcctttgccaagtattgca	8	16	6	11	0	0	0	0	0	0	0	3	0	3	0	4	1	2	4	4	1	4	8			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr14:26917367C>A	uc001wpy.2	-	5	1640	c.1322G>T	c.(1321-1323)GGG>GTG	p.G441V	NOVA1_uc001wpz.2_Missense_Mutation_p.G417V|NOVA1_uc001wqa.2_Missense_Mutation_p.G319V	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	444	KH 3.				locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		TAATGTTTTCCCTCCTTTGCC	0.433													8	25					1.06961e-07	1.24092e-07	0.00308	1	0		A	26917367	A	A	26917367	3	1	7	1	0	0	0	0	1	0	0	0	10573	623	22	5	205	5	NOVA1	14	26917367	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	1838580	26917367	80432173	154	6739											
RTN1	6252	broad.mit.edu	37	chr14	60069806	60069806	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacaacagcatttatgtgAgtcctcacaagtcccagata	13	9	7	12	0	1	2	1	1	0	1	3	2	3	2	3	0	2	1	3	0	4	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr14:60069806A>C	uc001xen.1	-	8	2474	c.2265T>G	c.(2263-2265)ACT>ACG	p.T755T	RTN1_uc001xem.1_Silent_p.T335T|RTN1_uc001xek.1_Silent_p.T187T|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Silent_p.T172T	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	755	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		CATTTATGTGAGTCCTCACAA	0.373													12	27					0	0	0.00245	0	0		C	60069806	C	C	60069806	2	2	7	1	0	0	0	0	0	0	0	1	13750	291	11	5		5	RTN1	14	60069806	Silent	SNP	A	TCGA-BR-4191-01A-02D-1126-08	33152439	60069806	47279734	155	6740											
SMEK1	55671	broad.mit.edu	37	chr14	91927850	91927850	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtagatgactggctggtgaGgttagtcttcgttccactgg	6	14	14	7	1	1	3	0	2	1	1	3	3	2	3	1	4	0	4	1	4	2	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr14:91927850G>C	uc001xzn.2	-	14	3088	c.2266C>G	c.(2266-2268)CTC>GTC	p.L756V	SMEK1_uc001xzm.2_Missense_Mutation_p.L743V|SMEK1_uc001xzo.2_Missense_Mutation_p.L743V|SMEK1_uc010atz.2_Missense_Mutation_p.L517V	NM_032560	NP_115949	Q6IN85	P4R3A_HUMAN	SMEK homolog 1, suppressor of mek1	756						microtubule organizing center|nucleus	protein binding				0		all_cancers(154;0.0691)|all_epithelial(191;0.219)		COAD - Colon adenocarcinoma(157;0.221)		TGGCTGGTGAGGTTAGTCTTC	0.488													22	75					0	0	0.00333	0	0		C	91927850	C	C	91927850	3	2	7	1	0	0	0	0	1	0	0	0	14818	1000	35	5	243	5	SMEK1	14	91927850	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	31858044	91927850	15421690	156	6741											
SERPINA10	51156	broad.mit.edu	37	chr14	94756557	94756557	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgcaagtggagccctctcTtgatctgggtttcagtcggc	5	12	12	12	1	3	1	1	1	2	0	5	2	3	2	2	3	2	2	2	3	1	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr14:94756557T>A	uc001yct.2	-	2	840	c.374A>T	c.(373-375)AAG>ATG	p.K125M	SERPINA10_uc001ycu.3_Missense_Mutation_p.K125M	NM_016186	NP_057270	Q9UK55	ZPI_HUMAN	serine (or cysteine) proteinase inhibitor, clade	125					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_cancers(154;0.105)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)		GAGCCCTCTCTTGATCTGGGT	0.592													5	25					0	0	0.001984	0	0		A	94756557	A	A	94756557	3	1	7	1	0	0	0	0	1	0	0	0	14112	1609	56	5	976	5	SERPINA10	14	94756557	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	2828707	94756557	12592983	157	6742											
PACS2	23241	broad.mit.edu	37	chr14	105859631	105859631	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcattgagggcatcagccGgctcatctgcactgccaggc	7	8	13	13	1	3	1	2	1	1	0	3	1	3	1	2	3	4	4	2	3	0	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr14:105859631G>C	uc001yqt.2	+	23	2685	c.2510G>C	c.(2509-2511)CGG>CCG	p.R837P	PACS2_uc001yqs.2_Missense_Mutation_p.R762P|PACS2_uc001yqv.2_Missense_Mutation_p.R841P|PACS2_uc001yqu.2_Missense_Mutation_p.R852P	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	837					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		GGCATCAGCCGGCTCATCTGC	0.602													10	11					0	0	0.010729	0	0		C	105859631	C	C	105859631	3	2	7	1	0	0	0	0	1	0	0	0	11392	1116	39	5	2612	5	PACS2	14	105859631	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	11103074	105859631	1489909	158	6743											
ATP10A	57194	broad.mit.edu	37	chr15	25924998	25924998	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcggttcccgagtccttcggGaggcgtccctgagcaaaggt	6	9	14	12	4	0	1	0	1	0	0	5	3	3	2	3	4	1	2	3	4	1	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr15:25924998G>A	uc010ayu.2	-	21	4096	c.3990C>T	c.(3988-3990)CTC>CTT	p.L1330L		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1330	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		AGTCCTTCGGGAGGCGTCCCT	0.607													11	38					0	0	0.013537	0	0		A	25924998	A	A	25924998	2	1	7	1	0	0	0	0	0	0	0	1	1117	1161	41	4		4	ATP10A	15	25924998	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08		25924998	76606394	159	6744											
RASGRP1	10125	broad.mit.edu	37	chr15	38808415	38808415	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgatatcctccggaaagActtgaactcaaggtaggtga	13	9	10	9	2	1	3	1	2	0	1	3	5	3	4	3	3	2	1	3	3	6	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr15:38808415A>T	uc001zke.3	-	6	836	c.658T>A	c.(658-660)TCT>ACT	p.S220T	RASGRP1_uc010bbe.2_RNA|RASGRP1_uc010bbf.2_Missense_Mutation_p.S82T|RASGRP1_uc010bbg.2_Missense_Mutation_p.S82T|RASGRP1_uc001zkd.3_Missense_Mutation_p.S220T	NM_005739	NP_005730	O95267	GRP1_HUMAN	RAS guanyl releasing protein 1 isoform a	220	Ras-GEF.				cell differentiation|platelet activation|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|lipid binding|protein binding			large_intestine(1)|ovary(1)	2		all_cancers(109;6.38e-17)|all_epithelial(112;5.51e-15)|Lung NSC(122;2.12e-11)|all_lung(180;5.63e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;1.97e-07)|BRCA - Breast invasive adenocarcinoma(123;0.00248)		CTCCGGAAAGACTTGAACTCA	0.443													16	50					0	0	0.00499	0	0		T	38808415	T	T	38808415	3	4	7	1	0	0	0	0	1	0	0	0	13099	275	10	5	1783	5	RASGRP1	15	38808415	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	12883417	38808415	63722977	160	6745											
FBN1	2200	broad.mit.edu	37	chr15	48808532	48808532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctcccaggaattaccataGgaacagagcacagcttgttg	12	9	10	10	0	1	1	0	0	1	1	2	3	1	3	2	2	4	3	2	2	4	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr15:48808532G>A	uc001zwx.1	-	11	1503	c.1175C>T	c.(1174-1176)CCT>CTT	p.P392L		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	392					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		AATTACCATAGGAACAGAGCA	0.483													17	32					0	0	0.007413	0	0		A	48808532	A	A	48808532	3	1	7	1	0	0	0	0	1	0	0	0	5716	1000	35	4	7664	4	FBN1	15	48808532	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	10000117	48808532	53722860	161	6746											
DMXL2	23312	broad.mit.edu	37	chr15	51772201	51772201	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctgaacaatagtataaaGtatatcatggatgtgattat	16	14	7	4	0	2	2	1	2	1	0	2	3	2	3	0	1	1	2	0	1	9	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr15:51772201G>C	uc002abf.2	-	25	6925	c.6700C>G	c.(6700-6702)CTT>GTT	p.L2234V	DMXL2_uc002abd.2_Missense_Mutation_p.L304V|DMXL2_uc010ufy.1_Missense_Mutation_p.L2234V|DMXL2_uc010bfa.2_Missense_Mutation_p.L1598V	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	2234						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		ATAGTATAAAGTATATCATGG	0.353													4	52					0	0	0.009096	0	0		C	51772201	C	C	51772201	3	2	7	1	0	0	0	0	1	0	0	0	4601	1029	36	5	2489	5	DMXL2	15	51772201	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	2963669	51772201	50759191	162	6747											
DMXL2	23312	broad.mit.edu	37	chr15	51790812	51790812	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtagccactgtatcagccaAagctacaaggaacatctgct	14	8	8	11	0	2	0	1	0	1	0	2	1	2	1	2	1	6	4	2	1	6	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr15:51790812A>T	uc002abf.2	-	18	4834	c.4609T>A	c.(4609-4611)TTG>ATG	p.L1537M	DMXL2_uc010ufy.1_Missense_Mutation_p.L1537M|DMXL2_uc010bfa.2_Intron	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	1537						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		GTATCAGCCAAAGCTACAAGG	0.413													7	26					0	0	0.004482	0	0		T	51790812	T	T	51790812	3	4	7	1	0	0	0	0	1	0	0	0	4601	11	1	5	4608	5	DMXL2	15	51790812	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	18611	51790812	50740580	163	6748											
RFX7	64864	broad.mit.edu	37	chr15	56388648	56388648	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagatctgagggtaacggtgCcgggcagaacgatccccacc	11	5	13	12	3	1	3	0	1	1	2	2	4	2	3	4	3	3	2	4	3	3	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr15:56388648C>T	uc010bfn.2	-	9	1278	c.1278G>A	c.(1276-1278)CGG>CGA	p.R426R	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Silent_p.R240R	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	329					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						GGTAACGGTGCCGGGCAGAAC	0.527													6	15					0	0	0.001984	0	0		T	56388648	T	T	56388648	2	4	7	1	0	0	0	0	0	0	0	1	13293	726	26	2		2	RFX7	15	56388648	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08	4597836	56388648	46142744	164	6749											
ANP32A	8125	broad.mit.edu	37	chr15	69080154	69080154	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagtttgcgattgaggtgagGcctacgttgattgtacttaa	10	14	12	5	2	0	3	0	3	0	0	0	4	0	3	1	2	3	3	1	2	4	7			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr15:69080154G>A	uc002arl.2	-	2	330	c.159C>T	c.(157-159)GGC>GGT	p.G53G		NM_006305	NP_006296	P39687	AN32A_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32	53	LRR 2.				intracellular signal transduction|mRNA metabolic process|nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleoplasm|perinuclear region of cytoplasm	protein binding				0						TTGAGGTGAGGCCTACGTTGA	0.468													23	89					0	0	0.003954	0	0		A	69080154	A	A	69080154	2	1	7	1	0	0	0	0	0	0	0	1	705	1190	42	2		2	ANP32A	15	69080154	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	12691506	69080154	33451238	165	6750											
CSK	1445	broad.mit.edu	37	chr15	75091016	75091016	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttccacggcactgccgagCaggacctgcccttctgcaaa	9	7	9	16	2	1	0	0	0	1	0	2	2	2	1	4	2	4	3	4	2	1	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr15:75091016C>T	uc010bkb.1	+	4	259	c.76C>T	c.(76-78)CAG>TAG	p.Q26*	CSK_uc010bka.2_Missense_Mutation_p.A96V|CSK_uc002ays.2_Nonsense_Mutation_p.Q26*|CSK_uc010bkc.1_5'Flank	NM_001127190	NP_001120662	P41240	CSK_HUMAN	c-src tyrosine kinase	26	Interaction with PTPN8 (By similarity).|SH3.				blood coagulation|epidermal growth factor receptor signaling pathway|T cell costimulation|T cell receptor signaling pathway	centrosome|cytosol|Golgi apparatus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein C-terminus binding			lung(2)|central_nervous_system(1)	3						CACTGCCGAGCAGGACCTGCC	0.627													8	14					0	0	0.008291	0	0		T	75091016	T	T	75091016	4	4	7	1	0	0	0	0	0	1	0	0	3946	711	25	2	82	2	CSK	15	75091016	Nonsense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	6010862	75091016	27440376	166	6751											
SYNM	23336	broad.mit.edu	37	chr15	99670184	99670184	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagaaacctaagatgggAagaattgacaaagttagata	19	7	12	3	0	0	5	0	1	0	4	0	8	0	7	1	2	1	1	1	2	7	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr15:99670184A>G	uc002bup.2	+	6	1739	c.1619A>G	c.(1618-1620)GAA>GGA	p.E540G	SYNM_uc002buo.2_Missense_Mutation_p.E540G|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	540	Tail.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						CTAAGATGGGAAGAATTGACA	0.458													26	32					0	0	0.003954	0	0		G	99670184	G	G	99670184	3	3	7	1	0	0	0	0	1	0	0	0	15480	246	9	3	1632	3	SYNM	15	99670184	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	24579168	99670184	2861208	167	6752											
OR4F15	390649	broad.mit.edu	37	chr15	102359303	102359303	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggagactgtgcagtcgtcTtgcgcattttacaaagattt	10	13	11	7	2	1	2	0	0	1	2	2	4	1	2	0	1	3	2	0	1	2	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr15:102359303T>C	uc010uts.1	+	1	914	c.914T>C	c.(913-915)CTT>CCT	p.L305P		NM_001001674	NP_001001674	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			TGCAGTCGTCTTGCGCATTTT	0.373													9	13					0	0	0.004482	0	0		C	102359303	C	C	102359303	3	2	7	1	0	0	0	0	1	0	0	0	11080	1609	56	3	916	3	OR4F15	15	102359303	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	2689119	102359303	172089	168	6753											
SRCAP	10847	broad.mit.edu	37	chr16	30747914	30747914	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaggcctcactggaggAggtgagccgagaggagctca	9	5	17	10	1	2	2	2	1	0	1	2	7	2	6	3	6	2	1	3	6	0	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr16:30747914A>G	uc002dze.1	+	33	7362	c.6977A>G	c.(6976-6978)GAG>GGG	p.E2326G	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.E2121G	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2326	Glu-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			TCACTGGAGGAGGTGAGCCGA	0.493													4	17					0	0	0.009096	0	0		G	30747914	G	G	30747914	3	3	7	1	0	0	0	0	1	0	0	0	15160	304	11	3	7099	3	SRCAP	16	30747914	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08		30747914	59606839	169	6754											
CHD9	80205	broad.mit.edu	37	chr16	53272298	53272298	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgggtcttggcaaaactAttcaatcaattacattcctc	14	13	5	9	0	3	0	2	0	1	0	5	0	4	0	1	2	2	1	1	2	7	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr16:53272298A>G	uc002ehb.2	+	11	2841	c.2677A>G	c.(2677-2679)ATT>GTT	p.I893V	CHD9_uc002egy.2_Missense_Mutation_p.I893V|CHD9_uc002eha.1_Missense_Mutation_p.I893V|CHD9_uc002ehc.2_Missense_Mutation_p.I893V|CHD9_uc002ehf.2_Missense_Mutation_p.I7V|CHD9_uc002ehd.2_Missense_Mutation_p.I419V|CHD9_uc002ehe.1_Missense_Mutation_p.I7V	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	893	Helicase ATP-binding.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				TGGCAAAACTATTCAATCAAT	0.348													16	43					0	0	0.003163	0	0		G	53272298	G	G	53272298	3	3	7	1	0	0	0	0	1	0	0	0	3335	449	16	3	2719	3	CHD9	16	53272298	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	22524384	53272298	37082455	170	6755											
ATP6V0D1	9114	broad.mit.edu	37	chr16	67477017	67477017	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaccttgtagagggtgttGcggatgatctcgatgttcat	8	15	12	6	2	2	2	1	1	1	1	3	4	2	3	1	2	2	3	1	2	2	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr16:67477017G>C	uc002ete.1	-	4	646	c.546C>G	c.(544-546)CGC>CGG	p.R182R	ATP6V0D1_uc010vjo.1_Silent_p.R223R|ATP6V0D1_uc010vjn.1_Silent_p.R105R	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit	182					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		AGAGGGTGTTGCGGATGATCT	0.557													14	38					0	0	0.004007	0	0		C	67477017	C	C	67477017	2	2	7	1	0	0	0	0	0	0	0	1	1174	1306	46	5		5	ATP6V0D1	16	67477017	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	14204719	67477017	22877736	171	6756											
ACSF3	197322	broad.mit.edu	37	chr16	89187233	89187233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgtggggaccccactgcctgGagtacaggtgcgcattgtct	6	9	14	12	2	1	0	0	0	1	0	1	2	1	2	3	4	3	2	3	4	1	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr16:89187233G>A	uc002fmp.2	+	7	1491	c.1151G>A	c.(1150-1152)GGA>GAA	p.G384E	ACSF3_uc010cig.1_Missense_Mutation_p.G384E|ACSF3_uc010cih.1_Missense_Mutation_p.G119E|ACSF3_uc002fmq.1_RNA|ACSF3_uc010cii.1_RNA|ACSF3_uc002fmr.1_Missense_Mutation_p.G119E	NM_174917	NP_777577	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3 precursor	384					fatty acid metabolic process	mitochondrion	acid-thiol ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0281)		CCACTGCCTGGAGTACAGGTG	0.587													35	87					0	0	0.006999	0	0		A	89187233	A	A	89187233	3	1	7	1	0	0	0	0	1	0	0	0	176	1174	41	4	1169	4	ACSF3	16	89187233	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	21710216	89187233	1167520	172	6757											
GAS8	2622	broad.mit.edu	37	chr16	90103775	90103775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgagatgcagaaacagctcGcaaactacgagagggacaag	16	3	13	9	3	0	3	0	0	0	3	1	6	0	4	0	1	5	3	0	1	4	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr16:90103775G>A	uc002fqi.1	+	7	1014	c.892G>A	c.(892-894)GCA>ACA	p.A298T	GAS8_uc010vps.1_Missense_Mutation_p.A273T|GAS8_uc002fqh.2_Missense_Mutation_p.A215T|GAS8_uc010vpt.1_3'UTR|GAS8_uc010vpu.1_3'UTR|GAS8_uc010vpv.1_Missense_Mutation_p.A269T|GAS8_uc010cjc.1_Missense_Mutation_p.A215T|GAS8_uc010vpw.1_Missense_Mutation_p.A215T|GAS8_uc002fqj.1_Missense_Mutation_p.A106T	NM_001481	NP_001472	O95995	GAS8_HUMAN	growth arrest-specific 8	298	Potential.				negative regulation of cell proliferation|sperm motility	cilium|Golgi apparatus|microtubule|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.029)		GAAACAGCTCGCAAACTACGA	0.587													10	14					0	0	0.010729	0	0		A	90103775	A	A	90103775	3	1	7	1	0	0	0	0	1	0	0	0	6266	1087	38	1	918	1	GAS8	16	90103775	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	916542	90103775	250978	173	6758											
DNAH2	146754	broad.mit.edu	37	chr17	7674725	7674725	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaccaggtcaacagcaactgGaaagccatcatggacaggat	15	5	11	10	0	2	0	2	0	0	0	2	4	2	3	2	4	4	1	2	4	3	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr17:7674725G>A	uc002giu.1	+	27	4454	c.4440G>A	c.(4438-4440)TGG>TGA	p.W1480*		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1480	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				ACAGCAACTGGAAAGCCATCA	0.547													21	48					0	0	0.014323	0	0		A	7674725	A	A	7674725	4	1	7	1	0	0	0	0	0	1	0	0	4608	1183	41	4	4546	4	DNAH2	17	7674725	Nonsense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08		7674725	73520485	174	6759											
ZNF287	57336	broad.mit.edu	37	chr17	16466545	16466545	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggtctgtacactgtaagTcctgttcaggaggaatataa	11	13	11	6	0	2	0	1	0	1	0	3	2	3	2	1	3	1	4	1	3	5	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr17:16466545T>C	uc002gqi.2	-	5	1083	c.630A>G	c.(628-630)GGA>GGG	p.G210G		NM_020653	NP_065704	Q9HBT7	ZN287_HUMAN	zinc finger protein 287	203	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.083)		ACACTGTAAGTCCTGTTCAGG	0.388													7	19					0	0	0.004482	0	0		C	16466545	C	C	16466545	2	2	7	1	0	0	0	0	0	0	0	1	17850	1681	58	3		3	ZNF287	17	16466545	Silent	SNP	T	TCGA-BR-4191-01A-02D-1126-08	8791820	16466545	64728665	175	6760											
TADA2A	6871	broad.mit.edu	37	chr17	35830563	35830563	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagcgccttaaacgcactAtgctctcagaagttctccag	12	9	8	12	2	2	2	1	0	2	2	4	2	2	2	2	0	3	3	2	0	5	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr17:35830563A>G	uc002hnt.2	+	13	1112	c.955A>G	c.(955-957)ATG>GTG	p.M319V	TADA2A_uc002hnv.2_Missense_Mutation_p.M319V|TADA2A_uc002hnw.2_Missense_Mutation_p.M218V|TADA2A_uc010cvb.2_Missense_Mutation_p.M115V	NM_001488	NP_001479	O75478	TAD2A_HUMAN	transcriptional adaptor 2A isoform a	319					histone H3 acetylation|transcription from RNA polymerase II promoter	chromosome|PCAF complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|zinc ion binding			breast(3)|skin(1)	4						TAAACGCACTATGCTCTCAGA	0.512													15	65					0	0	0.007413	0	0		G	35830563	G	G	35830563	3	3	7	1	0	0	0	0	1	0	0	0	15535	449	16	3	1096	3	TADA2A	17	35830563	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	19364018	35830563	45364647	176	6761											
KRT33A	3883	broad.mit.edu	37	chr17	39505636	39505636	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggccagcttggcattgtcGatctgcaccacaagcctggc	8	8	12	13	1	1	0	0	0	1	0	2	2	1	0	3	3	3	3	3	3	1	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr17:39505636G>A	uc002hwk.1	-	2	430	c.393C>T	c.(391-393)ATC>ATT	p.I131I		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	131	Rod.|Coil 1B.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				TGGCATTGTCGATCTGCACCA	0.488													12	34					0	0	0.00245	0	0		A	39505636	A	A	39505636	2	1	7	1	0	0	0	0	0	0	0	1	8485	1048	37	1		1	KRT33A	17	39505636	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	3675073	39505636	41689574	177	6762											
KRT34	3885	broad.mit.edu	37	chr17	39538224	39538224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcaagggctcctgctgctggGaccgctcctggatgagtttc	5	10	14	12	1	0	1	0	1	0	0	3	3	2	3	3	3	2	6	3	3	1	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr17:39538224G>A	uc002hwm.2	-	1	413	c.401C>T	c.(400-402)TCC>TTC	p.S134F		NM_021013	NP_066293	O76011	KRT34_HUMAN	keratin 34	134	Rod.|Linker 1.				epidermis development	intermediate filament	protein binding|structural molecule activity			central_nervous_system(1)	1		Breast(137;0.000496)				CTGCTGCTGGGACCGCTCCTG	0.617													9	33					0	0	0.006214	0	0		A	39538224	A	A	39538224	3	1	7	1	0	0	0	0	1	0	0	0	8487	1174	41	4	937	4	KRT34	17	39538224	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	32588	39538224	41656986	178	6763											
KRT37	8688	broad.mit.edu	37	chr17	39579089	39579089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagggactcctgctgggcctCcaggtcggccttggccaggg	4	7	16	14	1	0	0	0	0	0	0	3	1	2	1	5	6	1	1	5	6	0	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr17:39579089C>T	uc002hwp.1	-	3	720	c.673G>A	c.(673-675)GAG>AAG	p.E225K	uc002hwo.1_Intron	NM_003770	NP_003761	O76014	KRT37_HUMAN	keratin 37	225	Rod.|Coil 1B.					intermediate filament	structural molecule activity			skin(1)	1		Breast(137;0.000496)				TGCTGGGCCTCCAGGTCGGCC	0.667													7	18					0	0	0.00308	0	0		T	39579089	T	T	39579089	3	4	7	1	0	0	0	0	1	0	0	0	8490	864	30	4	696	4	KRT37	17	39579089	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	40865	39579089	41616121	179	6764											
NFE2L1	4779	broad.mit.edu	37	chr17	46128617	46128617	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgggagatcatcctggggcCcagttctgcctatactcaga	8	9	11	13	1	3	2	2	0	1	2	4	3	4	2	4	3	2	1	4	3	2	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr17:46128617C>G	uc002imz.3	+	2	788	c.137C>G	c.(136-138)CCC>CGC	p.P46R	NFE2L1_uc002ina.3_Missense_Mutation_p.P46R|NFE2L1_uc002inb.3_Missense_Mutation_p.P46R|NFE2L1_uc002inc.1_Missense_Mutation_p.P46R	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	46					anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						ATCCTGGGGCCCAGTTCTGCC	0.527													18	53					0	0	0.012319	0	0		G	46128617	G	G	46128617	3	3	7	1	0	0	0	0	1	0	0	0	10386	623	22	5	139	5	NFE2L1	17	46128617	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	6549528	46128617	35066593	180	6765											
HOXB3	3213	broad.mit.edu	37	chr17	46629484	46629484	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtggagttggtgccgggaCcgcactttgggggaccactt	5	9	18	9	2	0	0	0	0	0	0	0	3	0	3	3	6	1	2	3	6	0	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr17:46629484C>A	uc002inn.2	-	1	753	c.353G>T	c.(352-354)GGT>GTT	p.G118V	HOXB3_uc010wlm.1_Missense_Mutation_p.G45V|HOXB3_uc010dbf.2_Missense_Mutation_p.G118V|HOXB3_uc010dbg.2_Missense_Mutation_p.G118V|HOXB3_uc002ino.2_Missense_Mutation_p.G118V|HOXB3_uc010wlk.1_Intron|HOXB3_uc010wll.1_Missense_Mutation_p.G45V	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	118					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGTGCCGGGACCGCACTTTGG	0.617													23	73					1.96895e-08	2.32055e-08	0.00278	1	0		A	46629484	A	A	46629484	3	1	7	1	0	0	0	0	1	0	0	0	7318	507	18	5	950	5	HOXB3	17	46629484	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	500867	46629484	34565726	181	6766											
B4GALNT2	124872	broad.mit.edu	37	chr17	47219490	47219490	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccagagcgacctcccagcGgtgaaagcgaggagacaggc	11	2	16	12	3	0	3	0	1	0	2	1	6	1	3	3	4	3	0	3	4	1	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr17:47219490G>C	uc002ion.2	+	3	548	c.489G>C	c.(487-489)GCG>GCC	p.A163A	B4GALNT2_uc010wlt.1_Silent_p.A77A|B4GALNT2_uc010wlu.1_Silent_p.A103A	NM_153446	NP_703147	Q8NHY0	B4GN2_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 2	163	Lumenal (Potential).				lipid glycosylation|negative regulation of cell-cell adhesion|UDP-N-acetylgalactosamine metabolic process	integral to Golgi membrane	acetylgalactosaminyltransferase activity			large_intestine(1)|ovary(1)	2			all cancers(6;0.000316)			ACCTCCCAGCGGTGAAAGCGA	0.507													9	44					0	0	0.00245	0	0		C	47219490	C	C	47219490	2	2	7	1	0	0	0	0	0	0	0	1	1268	1103	39	5		5	B4GALNT2	17	47219490	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	590006	47219490	33975720	182	6767											
ABI3	51225	broad.mit.edu	37	chr17	47295217	47295217	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaacctaccccctctcacGccctactgcaggagacccct	9	6	7	19	1	1	2	1	0	1	2	2	4	1	2	6	1	4	1	6	1	3	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr17:47295217G>A	uc002iop.1	+	3	900	c.402G>A	c.(400-402)ACG>ACA	p.T134T	ABI3_uc002ioq.1_Silent_p.T128T	NM_016428	NP_057512	Q9P2A4	ABI3_HUMAN	NESH protein isoform 1	134					cellular component movement|regulation of cell migration	cytoplasm|lamellipodium	protein binding				0			Epithelial(5;6.37e-06)|all cancers(6;6.36e-05)			CCCCTCTCACGCCCTACTGCA	0.632										HNSCC(55;0.14)			10	36					0	0	0.013537	0	0		A	47295217	A	A	47295217	2	1	7	1	0	0	0	0	0	0	0	1	90	1074	38	1		1	ABI3	17	47295217	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	75727	47295217	33899993	183	6768											
DNAH17	8632	broad.mit.edu	37	chr17	76501424	76501424	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaccatgtactcgtcctccTtgctgtacattcccaggccc	8	11	6	16	1	0	0	0	0	0	0	4	0	3	0	5	1	4	3	5	1	3	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr17:76501424T>C	uc010wtu.1	-	5	959	c.782A>G	c.(781-783)AAG>AGG	p.K261R						full-length cDNA clone CS0DJ002YI14 of T cells (Jurkat cell line) Cot 10-normalized of Homo sapiens (human).											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			CTCGTCCTCCTTGCTGTACAT	0.562													6	33					0	0	0.00308	0	0		C	76501424	C	C	76501424	3	2	7	1	0	0	0	0	1	0	0	0	4607	1609	56	3	8685	3	DNAH17	17	76501424	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	29206207	76501424	4693786	184	6769											
TBC1D16	125058	broad.mit.edu	37	chr17	77921612	77921612	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggcagggttgtacacggcGtagttcagcaggatcctcct	8	9	13	11	3	1	0	1	0	0	0	3	1	3	1	2	4	2	6	2	4	2	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr17:77921612G>A	uc002jxj.2	-	9	1676	c.1560C>T	c.(1558-1560)TAC>TAT	p.Y520Y	TBC1D16_uc002jxh.2_Silent_p.Y158Y|TBC1D16_uc002jxi.2_Silent_p.Y145Y|TBC1D16_uc002jxk.1_Silent_p.Y158Y	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	520	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			TGTACACGGCGTAGTTCAGCA	0.647													6	21					0	0	0.001984	0	0		A	77921612	A	A	77921612	2	1	7	1	0	0	0	0	0	0	0	1	15630	1140	40	1		1	TBC1D16	17	77921612	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	1420188	77921612	3273598	185	6770											
MYOM1	8736	broad.mit.edu	37	chr18	3134758	3134758	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctttggactcctcccaCgaaactaccactgaggtgtc	9	10	8	14	1	1	1	0	1	1	0	4	3	3	2	3	2	2	1	3	2	2	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr18:3134758C>T	uc002klp.2	-	16	2608	c.2274G>A	c.(2272-2274)TCG>TCA	p.S758S	MYOM1_uc002klq.2_Silent_p.S758S	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	758	Fibronectin type-III 3.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						ACTCCTCCCACGAAACTACCA	0.517													17	44					0	0	0.00499	0	0		T	3134758	T	T	3134758	2	4	7	1	0	0	0	0	0	0	0	1	10109	523	19	1		1	MYOM1	18	3134758	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08		3134758	74942490	186	6771											
DLGAP1	9229	broad.mit.edu	37	chr18	3879883	3879883	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctgctggccagcgggtcGctgaaggggcccacgcactc	5	6	16	14	3	0	1	0	1	0	0	2	1	0	1	2	4	3	4	2	4	1	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr18:3879883G>A	uc002kmf.2	-	1	253	c.186C>T	c.(184-186)AGC>AGT	p.S62S	DLGAP1_uc010wyz.1_Silent_p.S62S|DLGAP1_uc002kmk.2_Silent_p.S62S|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	62					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				CCAGCGGGTCGCTGAAGGGGC	0.672													5	18					0	0	0.00308	0	0		A	3879883	A	A	3879883	2	1	7	1	0	0	0	0	0	0	0	1	4565	1078	38	1		1	DLGAP1	18	3879883	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	745125	3879883	74197365	187	6772											
FAM38B	63895	broad.mit.edu	37	chr18	10696150	10696150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgacctggaagatgacctttCccagtacagtcttcctgagg	9	11	10	11	0	1	4	0	3	1	1	3	5	3	5	4	2	1	1	4	2	2	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr18:10696150C>T	uc002kor.3	-	5	784	c.644G>A	c.(643-645)GGA>GAA	p.G215E	FAM38B_uc002koq.2_Missense_Mutation_p.G113E	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2258						integral to membrane	ion channel activity			ovary(1)	1						GATGACCTTTCCCAGTACAGT	0.512													17	74					0	0	0.006122	0	0		T	10696150	T	T	10696150	3	4	7	1	0	0	0	0	1	0	0	0	5569	855	30	4	1525	4	FAM38B	18	10696150	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	6816267	10696150	67381098	188	6773											
CEP192	55125	broad.mit.edu	37	chr18	13040842	13040842	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtagccatcatttggctAttttattagatcaccagaga	11	16	7	7	0	2	2	2	0	0	2	2	3	2	2	2	1	1	2	2	1	4	7			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr18:13040842A>G	uc010xac.1	+	14	1903	c.1823A>G	c.(1822-1824)TAT>TGT	p.Y608C	CEP192_uc010dlf.1_Intron|CEP192_uc010xad.1_Missense_Mutation_p.Y133C|CEP192_uc002kru.2_RNA|CEP192_uc002krs.1_Missense_Mutation_p.Y349C	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	608										ovary(4)|pancreas(1)	5						TCATTTGGCTATTTTATTAGA	0.294													11	32					0	0	0.013537	0	0		G	13040842	G	G	13040842	3	3	7	1	0	0	0	0	1	0	0	0	3254	449	16	3	1873	3	CEP192	18	13040842	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	2344692	13040842	65036406	189	6774											
POTEC	388468	broad.mit.edu	37	chr18	14542999	14542999	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttcataaaggagtcgtcGtggtctccagaagtgcccat	10	11	10	10	2	3	1	1	0	2	1	6	2	3	2	2	2	1	0	2	2	3	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr18:14542999G>A	uc010dln.2	-	1	601	c.147C>T	c.(145-147)CAC>CAT	p.H49H	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	49										skin(3)	3						AGGAGTCGTCGTGGTCTCCAG	0.587													36	240					0	0	0.005524	0	0		A	14542999	A	A	14542999	2	1	7	1	0	0	0	0	0	0	0	1	12281	1136	40	1		1	POTEC	18	14542999	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	1502157	14542999	63534249	190	6775											
DSG1	1828	broad.mit.edu	37	chr18	28934840	28934840	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgggtcgaatgttatagTgacagaaagggtaatagcac	15	9	13	4	1	0	3	0	1	0	2	1	4	0	3	0	2	1	3	0	2	6	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr18:28934840T>G	uc002kwp.2	+	15	2893	c.2681T>G	c.(2680-2682)GTG>GGG	p.V894G	DSG1_uc010xbp.1_Missense_Mutation_p.V253G	NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	894	Cytoplasmic (Potential).|Desmoglein repeat 3.				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			AATGTTATAGTGACAGAAAGG	0.468													33	116					0	0	0.013726	0	0		G	28934840	G	G	28934840	3	3	7	1	0	0	0	0	1	0	0	0	4782	1696	59	5	2739	5	DSG1	18	28934840	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	14391841	28934840	49142408	191	6776											
DSG4	147409	broad.mit.edu	37	chr18	28989416	28989416	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcactttcttgggcagtGgctccactcttgctgctcct	3	16	9	13	0	3	0	1	0	2	0	5	0	5	0	2	2	2	4	2	2	0	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr18:28989416G>T	uc002kwq.2	+	13	2070	c.1935G>T	c.(1933-1935)TTG>TTT	p.L645F	DSG4_uc002kwr.2_Missense_Mutation_p.L645F	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	645	Helical; (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			CTTGGGCAGTGGCTCCACTCT	0.502													27	74					1.55811e-20	1.93623e-20	0.008361	1	0		T	28989416	T	T	28989416	3	4	7	1	0	0	0	0	1	0	0	0	4785	1362	47	5	1985	5	DSG4	18	28989416	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	54576	28989416	49087832	192	6777											
MCART2	147407	broad.mit.edu	37	chr18	29340618	29340618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttttcatgagcttctgaatCtatcatgttgcttaagatct	9	18	6	8	0	5	3	2	2	3	1	5	3	5	3	0	0	2	3	0	0	3	6			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr18:29340618C>T	uc002kxa.2	-	1	226	c.7G>A	c.(7-9)GAT>AAT	p.D3N		NM_001034172	NP_001029344	Q3SY17	MCAR2_HUMAN	mitochondrial carrier triple repeat 2	3					transport	integral to membrane|mitochondrial inner membrane				skin(1)	1			OV - Ovarian serous cystadenocarcinoma(10;0.0539)			GCTTCTGAATCTATCATGTTG	0.368													13	72					0	0	0.003163	0	0		T	29340618	T	T	29340618	3	4	7	1	0	0	0	0	1	0	0	0	9388	913	32	4	890	4	MCART2	18	29340618	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	351202	29340618	48736630	193	6778											
KIAA1468	57614	broad.mit.edu	37	chr18	59928806	59928806	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctttctgccttgcagtccttGatcccatctctctttgcatt	4	18	5	14	0	3	1	0	1	3	0	6	1	5	1	3	0	3	2	3	0	0	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr18:59928806G>C	uc002lil.2	+	16	2480	c.2265G>C	c.(2263-2265)TTG>TTC	p.L755F	KIAA1468_uc002lik.1_Missense_Mutation_p.L755F|KIAA1468_uc010xel.1_Missense_Mutation_p.L755F|KIAA1468_uc002lim.2_Missense_Mutation_p.L399F	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	755							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				TGCAGTCCTTGATCCCATCTC	0.423													12	25					0	0	0.003163	0	0		C	59928806	C	C	59928806	3	2	7	1	0	0	0	0	1	0	0	0	8252	1281	45	5	2327	5	KIAA1468	18	59928806	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	30588188	59928806	18148442	194	6779											
MBD3L1	85509	broad.mit.edu	37	chr19	8953560	8953560	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagcaggtctgctggcagaGgagactgcagggactccagg	9	6	16	10	0	2	2	1	0	1	2	3	4	3	3	1	5	3	4	1	5	0	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr19:8953560G>T	uc002mko.2	+	1	292	c.206G>T	c.(205-207)AGG>ATG	p.R69M		NM_145208	NP_660209	Q8WWY6	MB3L1_HUMAN	methyl-CpG binding domain protein 3-like	69	Transcription repressor.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						TGCTGGCAGAGGAGACTGCAG	0.507													14	32					4.3838e-07	5.00765e-07	0.001855	1	0		T	8953560	T	T	8953560	3	4	7	1	0	0	0	0	1	0	0	0	9363	1000	35	5	208	5	MBD3L1	19	8953560	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08		8953560	50175423	195	6780											
MUC16	94025	broad.mit.edu	37	chr19	9084075	9084075	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtttgctccagaggtgggTgtagttggggtctgtggtga	5	13	18	5	0	1	2	0	1	1	1	2	2	2	2	1	5	1	4	1	5	1	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr19:9084075T>G	uc002mkp.2	-	1	7944	c.7740A>C	c.(7738-7740)ACA>ACC	p.T2580T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2580	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGAGGTGGGTGTAGTTGGGG	0.483													13	29					0	0	0.008871	0	0		G	9084075	G	G	9084075	2	3	7	1	0	0	0	0	0	0	0	1	9991	1683	59	5		5	MUC16	19	9084075	Silent	SNP	T	TCGA-BR-4191-01A-02D-1126-08	130515	9084075	50044908	196	6781											
ICAM3	3385	broad.mit.edu	37	chr19	10449619	10449619	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaaggaactcctgcccctGgacaccttcaggaacatgaa	14	6	8	13	0	1	1	1	1	0	0	2	4	2	4	4	3	3	0	4	3	5	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr19:10449619G>A	uc002mob.2	-	2	137	c.82C>T	c.(82-84)CAG>TAG	p.Q28*	ICAM3_uc010dxd.1_5'UTR|ICAM3_uc010xlf.1_Intron	NM_002162	NP_002153	P32942	ICAM3_HUMAN	intercellular adhesion molecule 3 precursor	28					cell-cell adhesion|regulation of immune response	integral to plasma membrane	integrin binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;6.13e-09)|Epithelial(33;9.69e-06)|all cancers(31;2.05e-05)			TCCTGCCCCTGGACACCTTCA	0.547													10	29					0	0	0.010729	0	0		A	10449619	A	A	10449619	4	1	7	1	0	0	0	0	0	1	0	0	7497	1357	47	4	1585	4	ICAM3	19	10449619	Nonsense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	1365544	10449619	48679364	197	6782											
CACNA1A	773	broad.mit.edu	37	chr19	13445285	13445285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcccgccggttctccacccGttccctttctttggcaaact	5	12	7	17	3	2	0	0	0	2	0	4	0	3	0	5	2	2	3	5	2	1	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr19:13445285G>A	uc010dze.2	-	8	1341	c.1105C>T	c.(1105-1107)CGG>TGG	p.R369W	CACNA1A_uc002mwy.3_Missense_Mutation_p.R369W	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	369	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	TTCTCCACCCGTTCCCTTTCT	0.438													8	27					0	0	0.013537	0	0		A	13445285	A	A	13445285	3	1	7	1	0	0	0	0	1	0	0	0	2541	1144	40	1	6689	1	CACNA1A	19	13445285	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	2995666	13445285	45683698	198	6783											
ARRDC2	27106	broad.mit.edu	37	chr19	18119572	18119572	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccatgagttcctgttcagCttccagctgcccccgtaagt	6	11	9	15	2	1	1	1	1	0	0	3	1	3	1	5	0	3	5	5	0	1	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr19:18119572C>T	uc002nhv.2	+	2	470	c.327C>T	c.(325-327)AGC>AGT	p.S109S	ARRDC2_uc002nhu.2_Silent_p.S104S	NM_015683	NP_056498	Q8TBH0	ARRD2_HUMAN	arrestin domain containing 2 isoform 1	109										pancreas(1)	1						TCCTGTTCAGCTTCCAGCTGC	0.612													12	15					0	0	0.013537	0	0		T	18119572	T	T	18119572	2	4	7	1	0	0	0	0	0	0	0	1	984	796	28	2		2	ARRDC2	19	18119572	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08	4674287	18119572	41009411	199	6784											
ARMC6	93436	broad.mit.edu	37	chr19	19162555	19162556	+	Missense_Mutation	DNP	GG	TT	TT																															cttcctcgcggcccagaaggGggcctaccccatcatcttca																										TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr19:19162555_19162556GG>TT	uc002nld.2	+	5	752_753	c.404_405GG>TT	c.(403-405)GGG>GTT	p.G135V	ARMC6_uc002nlc.2_Missense_Mutation_p.G110V|ARMC6_uc010xql.1_Missense_Mutation_p.G42V|ARMC6_uc002nle.2_Missense_Mutation_p.G110V|ARMC6_uc010xqm.1_Missense_Mutation_p.G135V	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	135							protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)			GCCCAGAAGGGGGCCTACCCCA	0.639													4	25					0	0	0.004672	0	0		TT	19162556	TT	TT	19162555	3	4	7	1	0	0	0	0	1	0	0	0	956	1232	43	5	339	5	ARMC6	19	19162555	Missense_Mutation	DNP	GG	TCGA-BR-4191-01A-02D-1126-08	1042983	19162555	39966428	200	6785											
SLC25A42	284439	broad.mit.edu	37	chr19	19217190	19217190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggatggccgtaaccccgaagGaaatgtgagtccttacatcg	11	8	12	10	3	0	1	0	1	0	0	2	4	1	3	4	3	2	1	4	3	4	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr19:19217190G>A	uc002nlf.1	+	6	644	c.493G>A	c.(493-495)GAA>AAA	p.E165K	SLC25A42_uc010xqn.1_Missense_Mutation_p.E217K	NM_178526	NP_848621	Q86VD7	S2542_HUMAN	solute carrier family 25, member 42	165	Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.4e-06)|Epithelial(12;0.000497)			AACCCCGAAGGAAATGTGAGT	0.652													8	20					0	0	0.004482	0	0		A	19217190	A	A	19217190	3	1	7	1	0	0	0	0	1	0	0	0	14532	1175	41	4	511	4	SLC25A42	19	19217190	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	54635	19217190	39911793	201	6786											
DPY19L3	147991	broad.mit.edu	37	chr19	32949027	32949029	+	In_Frame_Del	DEL	GAT	-	-																															aaattcttaacctgaagtcaGatgaacacatatttaaattt																										TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr19:32949027_32949029delGAT	uc002ntg.2	+	11	1287_1289	c.1111_1113delGAT	c.(1111-1113)GATdel	p.D371del	DPY19L3_uc002nth.1_In_Frame_Del_p.D371del|DPY19L3_uc002nti.1_RNA	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	371						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					CCTGAAGTCAGATGAACACATAT	0.34													7	16	---	---	---	---						.	-	32949029	-	-	32949027	7	5	7	1	0	1	0	1	0	0	0	0	4748	942	33	0	1149	0	DPY19L3	19	32949027	In_Frame_Del	DEL	GAT	TCGA-BR-4191-01A-02D-1126-08	13731837	32949027	26179956	202	6787											
CCDC114	93233	broad.mit.edu	37	chr19	48807339	48807339	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgcctccatctcgctctGggcctcctctttctccgcgc	1	12	8	20	4	4	0	0	0	4	0	8	0	6	0	5	1	1	1	5	1	0	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr19:48807339G>T	uc002pir.2	-	7	1296	c.613C>A	c.(613-615)CAG>AAG	p.Q205K	CCDC114_uc002piq.2_Missense_Mutation_p.Q14K|CCDC114_uc002pio.2_Missense_Mutation_p.Q242K|CCDC114_uc002pis.1_5'Flank|CCDC114_uc002pit.1_Missense_Mutation_p.Q242K|CCDC114_uc002piu.1_Missense_Mutation_p.Q242K	NM_144577	NP_653178	Q96M63	CC114_HUMAN	coiled-coil domain containing 114 isoform 2	205	Potential.									ovary(1)	1		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000162)|Epithelial(262;0.0134)|GBM - Glioblastoma multiforme(486;0.0143)		ATCTCGCTCTGGGCCTCCTCT	0.657													6	26					1.12685e-05	1.24879e-05	0.004482	1	0		T	48807339	T	T	48807339	3	4	7	1	0	0	0	0	1	0	0	0	2754	1357	47	5	1431	5	CCDC114	19	48807339	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	15858312	48807339	10321644	203	6788											
GP6	51206	broad.mit.edu	37	chr19	55543747	55543747	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggcagagcctggagggAgggcttggggagcggtcctg	5	6	22	8	1	0	1	0	0	0	1	1	4	1	4	2	7	2	3	2	7	0	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr19:55543747A>T	uc002qik.2	-	3	113	c.85T>A	c.(85-87)TCC>ACC	p.S29T	GP6_uc002qil.2_Missense_Mutation_p.S29T|GP6_uc010esq.2_Missense_Mutation_p.S29T|RDH13_uc010esr.1_Intron	NM_016363	NP_057447	Q9HCN6	GPVI_HUMAN	glycoprotein VI (platelet) isoform 2	29	Ig-like C2-type 1.|Extracellular (Potential).				enzyme linked receptor protein signaling pathway|leukocyte migration|platelet activation	integral to plasma membrane	collagen binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.156)	GBM - Glioblastoma multiforme(193;0.0515)		GCCTGGAGGGAGGGCTTGGGG	0.721													6	7					0	0	0.001168	0	0		T	55543747	T	T	55543747	3	4	7	1	0	0	0	0	1	0	0	0	6599	304	11	5	1801	5	GP6	19	55543747	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	6736408	55543747	3585236	204	6789											
SUV420H2	84787	broad.mit.edu	37	chr19	55855158	55855158	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcagcatcatgtactcaaCccgcaagcggagtgctcagc	10	8	9	14	2	4	0	4	0	0	0	4	1	4	1	1	1	6	4	1	1	3	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr19:55855158C>A	uc002qkj.3	+	5	745	c.497C>A	c.(496-498)ACC>AAC	p.T166N	SUV420H2_uc002qkl.2_Missense_Mutation_p.T51N	NM_032701	NP_116090	Q86Y97	SV422_HUMAN	suppressor of variegation 4-20 homolog 2	166	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding				0	Breast(117;0.191)		BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		ATGTACTCAACCCGCAAGCGG	0.627													5	7					0.000157383	0.000169974	0.00308	1	0		A	55855158	A	A	55855158	3	1	7	1	0	0	0	0	1	0	0	0	15440	507	18	5	511	5	SUV420H2	19	55855158	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	311411	55855158	3273825	205	6790											
CST4	1472	broad.mit.edu	37	chr20	23667771	23667771	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggcacaggtgtccaagttgGgctgggacttggtacatatg	9	10	15	7	0	0	0	0	0	0	0	1	1	1	1	1	5	1	4	1	5	3	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr20:23667771G>T	uc002wto.1	-	2	352	c.296C>A	c.(295-297)CCC>CAC	p.P99H		NM_001899	NP_001890	P01036	CYTS_HUMAN	cystatin S precursor	99						extracellular region	cysteine-type endopeptidase inhibitor activity			breast(1)	1	Lung NSC(19;0.0789)|Colorectal(13;0.0993)|all_lung(19;0.169)					GTCCAAGTTGGGCTGGGACTT	0.567													15	48					2.32078e-09	2.76816e-09	0.003163	1	0		T	23667771	T	T	23667771	3	4	7	1	0	0	0	0	1	0	0	0	3977	1232	43	5	137	5	CST4	20	23667771	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08		23667771	39357749	206	6791											
DLGAP4	22839	broad.mit.edu	37	chr20	35075294	35075294	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctccctgcagtccctctcCccaccgcccagtaccggcag	5	7	8	21	2	2	0	0	0	2	0	5	0	3	0	7	1	2	3	7	1	1	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr20:35075294C>T	uc002xff.2	+	7	2037	c.1602C>T	c.(1600-1602)TCC>TCT	p.S534S	DLGAP4_uc010zvp.1_Silent_p.S534S	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	534					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				AGTCCCTCTCCCCACCGCCCA	0.612													4	14					0	0	0.000602	0	0		T	35075294	T	T	35075294	2	4	7	1	0	0	0	0	0	0	0	1	4568	610	22	4		4	DLGAP4	20	35075294	Silent	SNP	C	TCGA-BR-4191-01A-02D-1126-08	11407523	35075294	27950226	207	6792											
L3MBTL	26013	broad.mit.edu	37	chr20	42162956	42162956	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcttcctggtcaatatgaaGctggaggctgtggaccgcag	9	9	14	9	1	1	1	1	1	0	0	2	3	2	3	2	4	2	4	2	4	3	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr20:42162956G>C	uc010zwh.1	+	15	1612	c.1566G>C	c.(1564-1566)AAG>AAC	p.K522N	L3MBTL_uc002xkl.2_Missense_Mutation_p.K454N|L3MBTL_uc002xkm.2_Missense_Mutation_p.K454N|L3MBTL_uc010ggl.2_Missense_Mutation_p.K454N|L3MBTL_uc002xkn.1_Missense_Mutation_p.K213N|L3MBTL_uc002xko.2_Missense_Mutation_p.K106N	NM_015478	NP_056293	Q9Y468	LMBL1_HUMAN	l(3)mbt-like isoform I	454	MBT 3.				chromatin modification|hemopoiesis|negative regulation of transcription, DNA-dependent|regulation of megakaryocyte differentiation|regulation of mitosis	chromatin|condensed chromosome|nucleoplasm	identical protein binding|methylated histone residue binding|nucleosomal histone binding|SAM domain binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TCAATATGAAGCTGGAGGCTG	0.637													10	29					0	0	0.010729	0	0		C	42162956	C	C	42162956	3	2	7	1	0	0	0	0	1	0	0	0	8607	962	34	5	1408	5	L3MBTL	20	42162956	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	7087662	42162956	20862564	208	6793											
R3HDML	140902	broad.mit.edu	37	chr20	42973984	42973984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctggggcaacacctggcatCgggcggcatacctggtctgc	6	8	14	13	2	2	0	0	0	2	0	3	0	2	0	2	6	3	3	2	6	2	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr20:42973984C>T	uc002xls.1	+	4	767	c.595C>T	c.(595-597)CGG>TGG	p.R199W		NM_178491	NP_848586	Q9H3Y0	CRSPL_HUMAN	R3H domain containing-like precursor	199						extracellular region	peptidase inhibitor activity				0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			CACCTGGCATCGGGCGGCATA	0.577													13	101					0	0	0.004007	0	0		T	42973984	T	T	42973984	3	4	7	1	0	0	0	0	1	0	0	0	12914	875	31	1	609	1	R3HDML	20	42973984	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	811028	42973984	20051536	209	6794											
ELMO2	63916	broad.mit.edu	37	chr20	45003240	45003240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtccaaggccagcattccagGaggagtctgggtaaagtcca	11	7	13	10	0	1	0	0	0	1	0	4	2	4	2	4	4	1	2	4	4	3	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr20:45003240G>A	uc002xrt.1	-	14	1315	c.1105C>T	c.(1105-1107)CCT>TCT	p.P369S	ELMO2_uc010zxq.1_Missense_Mutation_p.P101S|ELMO2_uc002xrs.1_Missense_Mutation_p.P116S|ELMO2_uc002xru.1_Missense_Mutation_p.P369S|ELMO2_uc010zxr.1_Missense_Mutation_p.P381S|ELMO2_uc010zxs.1_Missense_Mutation_p.P186S|ELMO2_uc002xrv.1_Missense_Mutation_p.P88S|ELMO2_uc002xrw.2_Missense_Mutation_p.P186S	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2	369	ELMO.				apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				AGCATTCCAGGAGGAGTCTGG	0.527													7	40					0	0	0.00308	0	0		A	45003240	A	A	45003240	3	1	7	1	0	0	0	0	1	0	0	0	5074	1174	41	4	1093	4	ELMO2	20	45003240	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	2029256	45003240	18022280	210	6795											
ZFP64	55734	broad.mit.edu	37	chr20	50701719	50701720	+	Nonsense_Mutation	DNP	CC	AA	AA																															ctcgcacttgaaaggcttctCccccgagtgcacgatcatgt																										TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr20:50701719_50701720CC>AA	uc002xwk.2	-	9	1663_1664	c.1314_1315GG>TT	c.(1312-1317)GGGGAG>GGTTAG	p.E439*	ZFP64_uc002xwj.2_Nonsense_Mutation_p.E220*	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						AAAGGCTTCTCCCCCGAGTGCA	0.535													7	62					0	0	0.004672	0	0		AA	50701720	AA	AA	50701719	4	1	7	1	0	0	0	0	0	1	0	0	17677	864	30	5	626	5	ZFP64	20	50701719	Nonsense_Mutation	DNP	CC	TCGA-BR-4191-01A-02D-1126-08	5698479	50701719	12323801	211	6796											
LAMA5	3911	broad.mit.edu	37	chr20	60909066	60909066	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccagaaaaggtcaggggaGgtcaggttcagcctggccac	11	5	15	10	0	3	1	3	0	0	1	3	2	3	2	3	6	2	1	3	6	2	1			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr20:60909066G>C	uc002ycq.2	-	23	2836	c.2769C>G	c.(2767-2769)ACC>ACG	p.T923T		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	923	Domain IV 1 (domain IV B).				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGTCAGGGGAGGTCAGGTTCA	0.667													6	16					0	0	0.004482	0	0		C	60909066	C	C	60909066	2	2	7	1	0	0	0	0	0	0	0	1	8625	987	35	5		5	LAMA5	20	60909066	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	10207347	60909066	2116454	212	6797											
PCNT	5116	broad.mit.edu	37	chr21	47801629	47801629	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtgaatttggaagtgaaaaGaaaactgctttgcatgaaaa	17	10	11	3	0	0	4	0	3	0	1	0	5	0	5	0	2	3	2	0	2	8	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr21:47801629G>A	uc002zji.3	+	16	3293	c.3186G>A	c.(3184-3186)AAG>AAA	p.K1062K	PCNT_uc002zjj.2_Silent_p.K944K	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	1062	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					GAAGTGAAAAGAAAACTGCTT	0.403													4	137					0	0	0.000602	0	0		A	47801629	A	A	47801629	2	1	7	1	0	0	0	0	0	0	0	1	11609	933	33	4		4	PCNT	21	47801629	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08		47801629	328266	213	6798											
GSTT2	2953	broad.mit.edu	37	chr22	24323218	24323218	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaggatggtgatttcatcttGaccgaaaggtgccctccttc	9	12	10	10	1	2	2	1	2	1	0	4	4	3	3	3	3	1	0	3	3	2	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr22:24323218G>C	uc002zzb.3	+	2	267	c.192G>C	c.(190-192)TTG>TTC	p.L64F	DDT_uc002zza.3_5'Flank|GSTT2_uc002zzc.3_Missense_Mutation_p.L64F	NM_000854	NP_000845	P0CG30	GSTT2_HUMAN	glutathione S-transferase theta 2	64	GST N-terminal.					cytoplasm	glutathione transferase activity				0						ATTTCATCTTGACCGAAAGGT	0.597													18	63					0	0	0.007413	0	0		C	24323218	C	C	24323218	3	2	7	1	0	0	0	0	1	0	0	0	6862	1281	45	5	953	5	GSTT2	22	24323218	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08		24323218	26981348	214	6799											
PES1	23481	broad.mit.edu	37	chr22	30975222	30975222	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctcctcctcattttctcCctcttcatcaccatcacctt	5	16	0	20	0	6	0	4	0	2	0	10	0	9	0	6	0	0	0	6	0	0	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chr22:30975222C>G	uc003aij.1	-	13	1497	c.1423G>C	c.(1423-1425)GGA>CGA	p.G475R	PES1_uc003aik.1_Missense_Mutation_p.G470R|PES1_uc003ail.1_Missense_Mutation_p.G458R|PES1_uc003aim.1_Missense_Mutation_p.G475R|PES1_uc003ain.1_Missense_Mutation_p.G336R|PES1_uc003aio.1_Missense_Mutation_p.G336R	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain	475	Glu-rich.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						tcattttctccctcttcatca	0.259													10	11					0	0	0.010729	0	0		G	30975222	G	G	30975222	3	3	7	1	0	0	0	0	1	0	0	0	11752	632	22	5	355	5	PES1	22	30975222	Missense_Mutation	SNP	C	TCGA-BR-4191-01A-02D-1126-08	6652004	30975222	20329344	215	6800											
MXRA5	25878	broad.mit.edu	37	chrX	3235405	3235405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggttgcggatgtagagcGtcccgttggggaaaacaaac	11	7	15	8	4	0	1	0	0	0	1	1	4	1	3	1	4	4	3	1	4	4	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chrX:3235405G>A	uc004crg.3	-	6	6474	c.6317C>T	c.(6316-6318)ACG>ATG	p.T2106M		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2106	Ig-like C2-type 5.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GATGTAGAGCGTCCCGTTGGG	0.677													3	4					0	0	0.004672	0	0		A	3235405	A	A	3235405	3	1	7	1	0	0	0	0	1	0	0	0	10021	1145	40	1	2177	1	MXRA5	23	3235405	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08		3235405	152035155	216	6801											
DMD	1756	broad.mit.edu	37	chrX	31947780	31947780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttgctcttctgggcttatgGgagcacttacaagcacgggt	7	12	12	10	1	2	0	0	0	2	0	2	1	2	1	0	3	4	4	0	3	3	4			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chrX:31947780G>A	uc004dda.1	-	47	7089	c.6845C>T	c.(6844-6846)CCC>CTC	p.P2282L	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Missense_Mutation_p.P938L|DMD_uc004dcx.2_Missense_Mutation_p.P941L|DMD_uc004dcz.2_Missense_Mutation_p.P2159L|DMD_uc004dcy.1_Missense_Mutation_p.P2278L|DMD_uc004ddb.1_Missense_Mutation_p.P2274L|DMD_uc010ngn.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2282	Spectrin 16.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGGGCTTATGGGAGCACTTAC	0.438													17	23					0	0	0.006122	0	0		A	31947780	A	A	31947780	3	1	7	1	0	0	0	0	1	0	0	0	4586	1232	43	4	4492	4	DMD	23	31947780	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	28712375	31947780	123322780	217	6802											
DMD	1756	broad.mit.edu	37	chrX	32834625	32834625	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaaagccaggccatcagAccagctggtggtgaagttga	12	8	12	9	0	2	3	2	2	0	1	2	3	2	3	3	3	2	2	3	3	2	2			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chrX:32834625A>G	uc004dda.1	-	6	734	c.490T>C	c.(490-492)TCT>CCT	p.S164P	DMD_uc004dcz.2_Missense_Mutation_p.S41P|DMD_uc004dcy.1_Missense_Mutation_p.S160P|DMD_uc004ddb.1_Missense_Mutation_p.S156P|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.S156P|DMD_uc010ngp.1_Missense_Mutation_p.S41P|DMD_uc010ngq.1_Intron|DMD_uc010ngr.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	164	CH 2.|Actin-binding.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AGGCCATCAGACCAGCTGGTG	0.403													11	17					0	0	0.00245	0	0		G	32834625	G	G	32834625	3	3	7	1	0	0	0	0	1	0	0	0	4586	275	10	3	11106	3	DMD	23	32834625	Missense_Mutation	SNP	A	TCGA-BR-4191-01A-02D-1126-08	886845	32834625	122435935	218	6803											
MTMR8	55613	broad.mit.edu	37	chrX	63568642	63568643	+	Frame_Shift_Del	DEL	AG	-	-																															acacagcgagtgtaaaatccAgagagaggctggctacagcg																										TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chrX:63568642_63568643delAG	uc004dvs.2	-	6	697_698	c.629_630delCT	c.(628-630)TCTfs	p.S210fs	MTMR8_uc011mou.1_Frame_Shift_Del_p.S210fs|MTMR8_uc004dvt.1_Frame_Shift_Del_p.S210fs	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	210	Myotubularin phosphatase.					nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						TGTAAAATCCAGAGAGAGGCTG	0.446													7	14	---	---	---	---						.	-	63568643	-	-	63568642	7	5	7	1	0	1	0	1	0	0	0	0	9967	175	7	0	1520	0	MTMR8	23	63568642	Frame_Shift_Del	DEL	AG	TCGA-BR-4191-01A-02D-1126-08	30734017	63568642	91701918	219	6804											
RGAG4	340526	broad.mit.edu	37	chrX	71350836	71350836	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcagaaaggccacccgctcGgcgcccccggggaaatgaac	11	3	12	15	4	1	2	1	1	0	1	2	3	1	3	4	4	1	1	4	4	3	0			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chrX:71350836G>T	uc010nlh.1	-	1	916	c.555C>A	c.(553-555)GCC>GCA	p.A185A	NHSL2_uc011mqa.1_Intron|RGAG4_uc004eaj.1_RNA|NHSL2_uc004eak.1_5'Flank	NM_001024455	NP_001019626	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	185								p.S185S(1)		ovary(2)|skin(1)	3	Renal(35;0.156)					CCACCCGCTCGGCGCCCCCGG	0.577													10	7					1.58986e-06	1.7954e-06	0.008291	1	0		T	71350836	T	T	71350836	2	4	7	1	0	0	0	0	0	0	0	1	13300	1103	39	5		5	RGAG4	23	71350836	Silent	SNP	G	TCGA-BR-4191-01A-02D-1126-08	7782194	71350836	83919724	220	6805											
GPRASP1	9737	broad.mit.edu	37	chrX	101911869	101911869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtcctggttctgggcaggaGatgaggcccattttgaatca	8	11	14	8	0	2	3	1	2	1	1	3	4	3	3	2	5	0	2	2	5	1	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chrX:101911869G>A	uc004ejj.3	+	5	3829	c.3028G>A	c.(3028-3030)GAT>AAT	p.D1010N	GPRASP1_uc004eji.3_Missense_Mutation_p.D1010N|GPRASP1_uc010nod.2_Missense_Mutation_p.D1010N	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	1010	OPRD1-binding.					cytoplasm	protein binding			ovary(1)|lung(1)	2						CTGGGCAGGAGATGAGGCCCA	0.522													22	20					0	0	0.014323	0	0		A	101911869	A	A	101911869	3	1	7	1	0	0	0	0	1	0	0	0	6738	942	33	4	3030	4	GPRASP1	23	101911869	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	30561033	101911869	53358691	221	6806											
DCAF12L1	139170	broad.mit.edu	37	chrX	125686084	125686084	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatggccaggctgttggggtTttcgccgccggtggccagaa	5	9	17	10	3	0	1	0	0	0	1	1	2	0	1	4	6	0	3	4	6	1	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chrX:125686084T>G	uc004eul.2	-	1	759	c.508A>C	c.(508-510)AAC>CAC	p.N170H		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	170	WD 1.									skin(3)|ovary(1)	4						CTGTTGGGGTTTTCGCCGCCG	0.667													19	5					0	0	0.008361	0	0		G	125686084	G	G	125686084	3	3	7	1	0	0	0	0	1	0	0	0	4267	1841	64	5	887	5	DCAF12L1	23	125686084	Missense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	23774215	125686084	29584476	222	6807											
OCRL	4952	broad.mit.edu	37	chrX	128703265	128703265	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaatgccgggttccagcctgGtgtgaccgaattctttggag	8	11	13	9	2	1	1	0	1	1	0	2	3	2	2	4	3	2	1	4	3	2	3			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chrX:128703265G>C	uc004euq.2	+	15	1656	c.1491G>C	c.(1489-1491)TGG>TGC	p.W497C	OCRL_uc004eur.2_Missense_Mutation_p.W497C	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	497					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TTCCAGCCTGGTGTGACCGAA	0.433													87	42					0	0	0.01441	0	0		C	128703265	C	C	128703265	3	2	7	1	0	0	0	0	1	0	0	0	10842	1270	44	5	1549	5	OCRL	23	128703265	Missense_Mutation	SNP	G	TCGA-BR-4191-01A-02D-1126-08	3017181	128703265	26567295	223	6808											
FRMD7	90167	broad.mit.edu	37	chrX	131220027	131220027	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagtttgtgccagatgctTcctatctgtttcttcatgaa	7	16	8	10	1	3	2	1	1	2	1	4	3	4	2	3	0	2	3	3	0	2	5			TCGA-BR-4191-01A-02D-1126-08	TCGA-BR-4191-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcd5de9b-f68d-4829-9694-9cb4252e4600	84c5691b-e55b-4703-abe7-02ddf32d42f0	g.chrX:131220027T>A	uc004ewn.2	-	6	596	c.418A>T	c.(418-420)AAG>TAG	p.K140*	FRMD7_uc011muy.1_Nonsense_Mutation_p.K125*	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	140	FERM.				regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					GCCAGATGCTTCCTATCTGTT	0.428													103	22					0	0	0.01441	0	0		A	131220027	A	A	131220027	4	1	7	1	0	0	0	0	0	1	0	0	6069	1792	62	5	1754	5	FRMD7	23	131220027	Nonsense_Mutation	SNP	T	TCGA-BR-4191-01A-02D-1126-08	2516762	131220027	24050533	224	6809											
LRRC47	57470	broad.mit.edu	37	chr1	3697831	3697831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagttgtccagagactgcatCggcttcagtatctgagagtg	10	11	12	8	1	2	2	1	1	1	2	4	4	3	2	1	1	1	4	1	1	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:3697831C>T	uc001akx.1	-	7	1601	c.1573G>A	c.(1573-1575)GAT>AAT	p.D525N		NM_020710	NP_065761	Q8N1G4	LRC47_HUMAN	leucine rich repeat containing 47	525					translation		phenylalanine-tRNA ligase activity|RNA binding			large_intestine(1)|ovary(1)	2	all_cancers(77;0.0375)|Ovarian(185;0.0634)|all_lung(157;0.208)|Lung NSC(156;0.21)	all_epithelial(116;1.34e-16)|all_lung(118;2.53e-06)|Lung NSC(185;0.00028)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;5.49e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.43e-22)|GBM - Glioblastoma multiforme(42;3.69e-16)|Colorectal(212;1.21e-05)|COAD - Colon adenocarcinoma(227;5.87e-05)|Kidney(185;0.000367)|BRCA - Breast invasive adenocarcinoma(365;0.000704)|KIRC - Kidney renal clear cell carcinoma(229;0.00567)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		GAGACTGCATCGGCTTCAGTA	0.443													8	39					0	0	0.010729	0	0		T	3697831	T	T	3697831	3	4	8	1	0	0	0	0	1	0	0	0	9022	884	31	1	182	1	LRRC47	1	3697831	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08		3697831	245552790	1	6810											
H6PD	9563	broad.mit.edu	37	chr1	9307041	9307041	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggctgtggcgcagatccTgcctttccgagaccagaacc	9	7	11	14	2	0	3	0	0	0	3	2	4	2	3	5	2	2	2	5	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:9307041T>C	uc001apt.2	+	3	917	c.644T>C	c.(643-645)CTG>CCG	p.L215P		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	215	Glucose 1-dehydrogenase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	GCGCAGATCCTGCCTTTCCGA	0.607													14	48					0	0	0.003163	0	0		C	9307041	C	C	9307041	3	2	8	1	0	0	0	0	1	0	0	0	6952	1580	55	3	650	3	H6PD	1	9307041	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	5609210	9307041	239943580	2	6811											
PIK3CD	5293	broad.mit.edu	37	chr1	9778917	9778917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctgctttgcgctgtacGccgtgatcgagaaagccaag	8	10	12	11	4	1	2	0	1	1	1	3	3	1	2	2	0	4	3	2	0	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:9778917G>A	uc001aqb.3	+	9	1394	c.1186G>A	c.(1186-1188)GCC>ACC	p.A396T	PIK3CD_uc010oaf.1_Missense_Mutation_p.A396T|PIK3CD_uc001aqe.3_Missense_Mutation_p.A361T	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	396					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		TGCGCTGTACGCCGTGATCGA	0.647													7	39					0	0	0.008291	0	0		A	9778917	A	A	9778917	3	1	8	1	0	0	0	0	1	0	0	0	11934	1087	38	1	1212	1	PIK3CD	1	9778917	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	471876	9778917	239471704	3	6812											
CASZ1	54897	broad.mit.edu	37	chr1	10715762	10715762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcagccgtggtagtagaCgctgcagtcgtccagcgggc	6	7	17	11	4	0	1	0	0	0	1	2	1	1	1	2	3	3	5	2	3	2	2	rs150917673	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:10715762C>T	uc001aro.2	-	9	1929	c.1609G>A	c.(1609-1611)GTC>ATC	p.V537I	CASZ1_uc001arp.1_Missense_Mutation_p.V537I|CASZ1_uc009vmx.2_Missense_Mutation_p.V561I	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	537					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		TGGTAGTAGACGCTGCAGTCG	0.622													4	15					0	0	0.000602	0	0		T	10715762	T	T	10715762	3	4	8	1	0	0	0	0	1	0	0	0	2688	536	19	1	3726	1	CASZ1	1	10715762	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	936845	10715762	238534859	4	6813											
C1orf127	148345	broad.mit.edu	37	chr1	11007833	11007833	+	Frame_Shift_Del	DEL	C	-	-																															cagctcctgctggagtgaggCcccccggccagcctggaagg																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:11007833delC	uc010oao.1	-	8	1917	c.1912delG	c.(1912-1914)GCCfs	p.A638fs	C1orf127_uc001arr.1_Frame_Shift_Del_p.A620fs|C1orf127_uc001ars.1_Frame_Shift_Del_p.A612fs	NM_173507	NP_775778	B7ZLG7	B7ZLG7_HUMAN	hypothetical protein LOC148345	638										ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;0.000226)|all_lung(284;0.000302)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.71e-07)|COAD - Colon adenocarcinoma(227;7.79e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000305)|Kidney(185;0.000785)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|READ - Rectum adenocarcinoma(331;0.0509)		TGGAGTGAGGCCCCCCGGCCA	0.627													4	7	---	---	---	---						.	-	11007833	-	-	11007833	7	5	8	1	0	1	0	1	0	0	0	0	1997	739	26	0	116	0	C1orf127	1	11007833	Frame_Shift_Del	DEL	C	TCGA-BR-4201-01A-01D-1126-08	292071	11007833	238242788	5	6814											
EXOSC10	5394	broad.mit.edu	37	chr1	11142746	11142746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagtaagagcaaactgaccGtattctccaatcagccagct	13	9	7	12	1	3	2	2	1	1	1	4	2	3	2	3	0	4	4	3	0	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:11142746G>A	uc001asa.2	-	10	1329	c.1279C>T	c.(1279-1281)CGC>TGC	p.R427C	EXOSC10_uc001asb.2_Missense_Mutation_p.R427C|EXOSC10_uc009vmy.1_Missense_Mutation_p.R427C	NM_001001998	NP_001001998	Q01780	EXOSX_HUMAN	exosome component 10 isoform 1	427					CUT catabolic process|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear polyadenylation-dependent rRNA catabolic process|nuclear retention of unspliced pre-mRNA at the site of transcription|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasm|nuclear exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5' exonuclease activity|exoribonuclease activity|identical protein binding|nucleotide binding|protein serine/threonine kinase activity|RNA binding			upper_aerodigestive_tract(1)	1	Ovarian(185;0.249)	Lung NSC(185;1.74e-05)|all_lung(284;2.05e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.18e-07)|COAD - Colon adenocarcinoma(227;8.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000315)|Kidney(185;0.000832)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|READ - Rectum adenocarcinoma(331;0.0526)|STAD - Stomach adenocarcinoma(313;0.202)		CAAACTGACCGTATTCTCCAA	0.488													24	100					0	0	0.003954	0	0		A	11142746	A	A	11142746	3	1	8	1	0	0	0	0	1	0	0	0	5322	1159	40	1	1442	1	EXOSC10	1	11142746	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	134913	11142746	238107875	6	6815											
PRDM2	7799	broad.mit.edu	37	chr1	14057532	14057532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggccaccgagaccctggCtgaggtacccgaacatgtgc	8	5	14	14	3	0	2	0	1	0	1	0	4	0	2	4	4	3	2	4	4	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:14057532C>T	uc001avi.2	+	3	903	c.47C>T	c.(46-48)GCT>GTT	p.A16V	PRDM2_uc001avg.2_Missense_Mutation_p.A16V|PRDM2_uc001avh.2_Missense_Mutation_p.A16V|PRDM2_uc001avj.2_RNA	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	16						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GAGACCCTGGCTGAGGTACCC	0.512													17	51					0	0	0.006122	0	0		T	14057532	T	T	14057532	3	4	8	1	0	0	0	0	1	0	0	0	12480	797	28	2	53	2	PRDM2	1	14057532	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2914786	14057532	235193089	7	6816											
SPEN	23013	broad.mit.edu	37	chr1	16258453	16258453	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcgccggaatgtaaggagCgtctatgcaaccatgggtga	11	7	15	8	3	1	1	0	1	1	0	1	3	1	3	2	4	3	2	2	4	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:16258453C>T	uc001axk.1	+	11	5922	c.5718C>T	c.(5716-5718)AGC>AGT	p.S1906S	SPEN_uc010obp.1_Silent_p.S1865S	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1906					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		ATGTAAGGAGCGTCTATGCAA	0.507													15	70					0	0	0.007413	0	0		T	16258453	T	T	16258453	2	4	8	1	0	0	0	0	0	0	0	1	15063	767	27	1		1	SPEN	1	16258453	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2200921	16258453	232992168	8	6817											
EPHA2	1969	broad.mit.edu	37	chr1	16464386	16464386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactggcagtacggaagctgCggctggttaccaggcctgag	8	7	15	11	2	0	1	0	1	0	0	0	2	0	2	2	5	4	5	2	5	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:16464386C>T	uc001aya.1	-	5	1411	c.1274G>A	c.(1273-1275)CGC>CAC	p.R425H	EPHA2_uc010oca.1_Missense_Mutation_p.R425H	NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	425	Extracellular (Potential).|Fibronectin type-III 1.				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	ACGGAAGCTGCGGCTGGTTAC	0.632													9	18					0	0	0.008291	0	0		T	16464386	T	T	16464386	3	4	8	1	0	0	0	0	1	0	0	0	5175	768	27	1	1708	1	EPHA2	1	16464386	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	205933	16464386	232786235	9	6818											
NBPF1	55672	broad.mit.edu	37	chr1	16892157	16892157	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagagaaaagccaacatgtTtttcctccaatgcataaaag	17	9	6	9	0	0	1	0	0	0	1	2	2	2	1	3	0	3	2	3	0	7	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:16892157T>C	uc009vos.1	-	28	4148	c.3260A>G	c.(3259-3261)AAA>AGA	p.K1087R	uc001ayw.2_5'Flank	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	1087	NBPF 7.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		GCCAACATGTTTTTCCTCCAA	0.438													18	880					0	0	0.013537	0	0		C	16892157	C	C	16892157	3	2	8	1	0	0	0	0	1	0	0	0	10210	1841	64	3	396	3	NBPF1	1	16892157	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	427771	16892157	232358464	10	6819											
NBPF1	55672	broad.mit.edu	37	chr1	16907396	16907396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatttgaacaagtgatggCacattcctccagtgagtcct	10	12	9	10	0	0	3	0	3	0	0	3	3	3	3	3	1	1	2	3	1	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:16907396C>T	uc009vos.1	-	16	2323	c.1435G>A	c.(1435-1437)GCC>ACC	p.A479T	NBPF1_uc009vot.1_Intron|NBPF1_uc001ayz.1_Intron|NBPF1_uc010oce.1_Missense_Mutation_p.A208T	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	479	NBPF 2.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		CAAGTGATGGCACATTCCTCC	0.493													17	435					0	0	0.010818	0	0		T	16907396	T	T	16907396	3	4	8	1	0	0	0	0	1	0	0	0	10210	710	25	2	2045	2	NBPF1	1	16907396	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	15239	16907396	232343225	11	6820											
NBPF1	55672	broad.mit.edu	37	chr1	16913543	16913543	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacaaggaaaatagaggctAcctgggagaatgtttacagc	16	7	11	7	0	0	2	0	0	0	2	0	4	0	3	1	3	3	2	1	3	7	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:16913543A>G	uc009vos.1	-	11	1666	c.778_splice	c.e11+1	p.V260_splice	NBPF1_uc009vot.1_Intron|NBPF1_uc001ayz.1_Intron|NBPF1_uc010oce.1_Intron	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672							cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		AATAGAGGCTACCTGGGAGAA	0.403													28	355					0	0	0.007291	0	0		G	16913543	G	G	16913543	5	3	8	1	0	0	0	0	0	0	1	0	10210	405	14	3	2720	3	NBPF1	1	16913543	Splice_Site	SNP	A	TCGA-BR-4201-01A-01D-1126-08	6147	16913543	232337078	12	6821											
ATP13A2	23400	broad.mit.edu	37	chr1	17313587	17313587	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccctagctgcacgccggTcaccaggaccatctgcagca	8	5	10	18	2	2	0	1	0	1	0	2	1	2	1	5	2	4	4	5	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:17313587T>C	uc001baa.2	-	26	3227	c.3037A>G	c.(3037-3039)ACC>GCC	p.T1013A	ATP13A2_uc001azz.1_Missense_Mutation_p.T160A|ATP13A2_uc001bab.2_Missense_Mutation_p.T1008A|ATP13A2_uc001bac.2_Missense_Mutation_p.T969A	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	1013	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		TGCACGCCGGTCACCAGGACC	0.711													9	23					0	0	0.006214	0	0		C	17313587	C	C	17313587	3	2	8	1	0	0	0	0	1	0	0	0	1125	1667	58	3	757	3	ATP13A2	1	17313587	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	400044	17313587	231937034	13	6822											
PADI1	29943	broad.mit.edu	37	chr1	17566229	17566229	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggcaaaaagaagcattaAtgagatgctggcagacagac	17	5	11	8	0	0	4	0	1	0	4	0	5	0	4	1	2	2	4	1	2	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:17566229A>T	uc001bah.1	+	14	1675	c.1583A>T	c.(1582-1584)AAT>ATT	p.N528I	PADI1_uc010oco.1_Missense_Mutation_p.N85I|PADI1_uc010ocp.1_Missense_Mutation_p.N85I|PADI1_uc010ocq.1_5'UTR|PADI1_uc009vpb.1_5'UTR	NM_013358	NP_037490	Q9ULC6	PADI1_HUMAN	peptidylarginine deiminase type I	528					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity				0		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00522)|BRCA - Breast invasive adenocarcinoma(304;1.3e-05)|COAD - Colon adenocarcinoma(227;1.31e-05)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(196;0.0069)|READ - Rectum adenocarcinoma(331;0.0681)|Lung(427;0.197)	L-Citrulline(DB00155)	AGAAGCATTAATGAGATGCTG	0.532													4	46					0	0	0.000602	0	0		T	17566229	T	T	17566229	3	4	8	1	0	0	0	0	1	0	0	0	11396	101	4	5	1637	5	PADI1	1	17566229	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	252642	17566229	231684392	14	6823											
CAPZB	832	broad.mit.edu	37	chr1	19671710	19671710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcccgatgttggctatgtGtggggagcagtcactcacag	7	9	15	10	2	2	0	2	0	0	0	2	2	2	1	1	3	1	3	1	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:19671710G>A	uc010ocz.1	-	7	1140	c.712C>T	c.(712-714)CAC>TAC	p.H238Y	CAPZB_uc001bce.2_Missense_Mutation_p.H209Y|CAPZB_uc009vpk.2_Missense_Mutation_p.H235Y|CAPZB_uc001bcd.2_Missense_Mutation_p.H197Y	NM_004930	NP_004921	P47756	CAPZB_HUMAN	F-actin capping protein beta subunit	209					actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement	cytosol|F-actin capping protein complex|WASH complex	actin binding				0		Colorectal(325;3.93e-05)|Renal(390;0.000147)|all_lung(284;0.000169)|Lung NSC(340;0.000202)|Breast(348;0.000496)|Ovarian(437;0.00428)|Myeloproliferative disorder(586;0.0262)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Kidney(64;8.63e-06)|BRCA - Breast invasive adenocarcinoma(304;4.06e-05)|KIRC - Kidney renal clear cell carcinoma(64;0.000175)|GBM - Glioblastoma multiforme(114;0.000525)|STAD - Stomach adenocarcinoma(196;0.00779)|READ - Rectum adenocarcinoma(331;0.103)|Lung(427;0.173)		TTGGCTATGTGTGGGGAGCAG	0.567													4	75					0	0	0.000602	0	0		A	19671710	A	A	19671710	3	1	8	1	0	0	0	0	1	0	0	0	2646	1377	48	4	205	4	CAPZB	1	19671710	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2105481	19671710	229578911	15	6824											
TMCO4	255104	broad.mit.edu	37	chr1	20009604	20009604	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagtgggttggggtccaTgccatggctgcagatggggg	5	8	19	9	0	0	1	0	0	0	1	1	1	1	1	3	6	2	3	3	6	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:20009604T>C	uc001bcn.2	-	16	2076	c.1834A>G	c.(1834-1836)ATG>GTG	p.M612V	TMCO4_uc001bcm.2_Missense_Mutation_p.M443V|TMCO4_uc001bco.1_Intron|TMCO4_uc001bcp.1_Intron	NM_181719	NP_859070	Q5TGY1	TMCO4_HUMAN	transmembrane and coiled-coil domains 4	612						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00708)|COAD - Colon adenocarcinoma(152;2.28e-05)|BRCA - Breast invasive adenocarcinoma(304;5.8e-05)|Kidney(64;0.000367)|GBM - Glioblastoma multiforme(114;0.000377)|KIRC - Kidney renal clear cell carcinoma(64;0.00459)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0862)|Lung(427;0.223)		TTGGGGTCCATGCCATGGCTG	0.682													11	34					0	0	0.00245	0	0		C	20009604	C	C	20009604	3	2	8	1	0	0	0	0	1	0	0	0	16023	1464	51	3	74	3	TMCO4	1	20009604	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	337894	20009604	229241017	16	6825											
PLA2G2D	26279	broad.mit.edu	37	chr1	20442089	20442089	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtggtcatagcagcagTcatgggtctggcagcacctg	8	9	14	10	0	4	0	3	0	1	0	4	0	4	0	1	4	3	4	1	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:20442089T>C	uc001bcz.2	-	3	220	c.203A>G	c.(202-204)GAC>GGC	p.D68G	PLA2G2D_uc009vpo.2_Intron	NM_012400	NP_036532	Q9UNK4	PA2GD_HUMAN	phospholipase A2, group IID precursor	68		Calcium (By similarity).			inflammatory response|lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|phospholipase A2 activity				0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(152;1.15e-05)|BRCA - Breast invasive adenocarcinoma(304;8.01e-05)|Kidney(64;0.000175)|GBM - Glioblastoma multiforme(114;0.000798)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		ATAGCAGCAGTCATGGGTCTG	0.572										Multiple Myeloma(11;0.12)			7	51					0	0	0.004482	0	0		C	20442089	C	C	20442089	3	2	8	1	0	0	0	0	1	0	0	0	12016	1667	58	3	242	3	PLA2G2D	1	20442089	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	432485	20442089	228808532	17	6826											
NBPF3	84224	broad.mit.edu	37	chr1	21795231	21795231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagcatggtggtatctgccGgcccttggtccggtgagaag	6	10	15	10	2	2	1	1	1	1	1	3	2	3	1	3	5	2	2	3	5	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:21795231G>A	uc001ber.2	+	3	534	c.184G>A	c.(184-186)GGC>AGC	p.G62S	NBPF3_uc001bes.2_Missense_Mutation_p.G6S|NBPF3_uc009vqb.2_Missense_Mutation_p.G62S|NBPF3_uc010odm.1_Intron	NM_032264	NP_115640	Q9H094	NBPF3_HUMAN	neuroblastoma breakpoint family, member 3	62						cytoplasm				upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(284;2.16e-05)|Lung NSC(340;2.19e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|OV - Ovarian serous cystadenocarcinoma(117;7.53e-27)|COAD - Colon adenocarcinoma(152;1.18e-05)|GBM - Glioblastoma multiforme(114;3.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000143)|STAD - Stomach adenocarcinoma(196;0.00306)|KIRC - Kidney renal clear cell carcinoma(1967;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GGTATCTGCCGGCCCTTGGTC	0.517											OREG0013205	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	119					0	0	0.005443	0	0		A	21795231	A	A	21795231	3	1	8	1	0	0	0	0	1	0	0	0	10216	1116	39	1	190	1	NBPF3	1	21795231	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1353142	21795231	227455390	18	6827											
ZBTB40	9923	broad.mit.edu	37	chr1	22839533	22839533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaccttcgccttcacaccGgggaccgcccgttcatgtgc	6	8	9	18	4	2	0	2	0	0	0	3	1	2	1	6	2	1	1	6	2	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:22839533G>A	uc001bft.2	+	13	3089	c.2578G>A	c.(2578-2580)GGG>AGG	p.G860R	ZBTB40_uc001bfu.2_Missense_Mutation_p.G860R|ZBTB40_uc009vqi.1_Missense_Mutation_p.G748R	NM_001083621	NP_001077090	Q9NUA8	ZBT40_HUMAN	zinc finger and BTB domain containing 40	860					bone mineralization|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.86e-26)|Colorectal(126;8.55e-08)|COAD - Colon adenocarcinoma(152;4.1e-06)|GBM - Glioblastoma multiforme(114;1.39e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000712)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.216)		CCTTCACACCGGGGACCGCCC	0.577													13	39					0	0	0.013537	0	0		A	22839533	A	A	22839533	3	1	8	1	0	0	0	0	1	0	0	0	17567	1116	39	1	2620	1	ZBTB40	1	22839533	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1044302	22839533	226411088	19	6828											
KDM1A	23028	broad.mit.edu	37	chr1	23409681	23409681	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctaaaatagccgattccaCgactcttctttgcgggagaa	11	10	8	12	3	2	1	0	0	2	1	3	4	3	1	3	1	2	0	3	1	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:23409681C>T	uc001bgi.2	+	19	2532	c.2383C>T	c.(2383-2385)CGA>TGA	p.R795*	KDM1A_uc001bgj.2_Nonsense_Mutation_p.R819*	NM_015013	NP_055828	O60341	KDM1A_HUMAN	lysine-specific histone demethylase 1 isoform b	795	Demethylase activity.				blood coagulation|muscle cell development|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of protein binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin	androgen receptor binding|chromatin binding|enzyme binding|flavin adenine dinucleotide binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-K9 specific)|ligand-dependent nuclear receptor transcription coactivator activity|MyoD binding|oxidoreductase activity|p53 binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2						GCCGATTCCACGACTCTTCTT	0.458													10	43					0	0	0.008291	0	0		T	23409681	T	T	23409681	4	4	8	1	0	0	0	0	0	1	0	0	8138	528	19	1	2537	1	KDM1A	1	23409681	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	570148	23409681	225840940	20	6829											
IL22RA1	58985	broad.mit.edu	37	chr1	24448013	24448013	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggcacgttggagggcTggaggatggagatgtctggc	7	8	21	5	1	1	1	0	0	1	1	1	6	1	4	0	8	0	3	0	8	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:24448013T>C	uc001biq.1	-	7	1046	c.1007A>G	c.(1006-1008)CAG>CGG	p.Q336R	IL22RA1_uc010oeg.1_Missense_Mutation_p.Q268R|IL22RA1_uc009vrb.1_Missense_Mutation_p.Q200R|IL22RA1_uc010oeh.1_Missense_Mutation_p.Q336R	NM_021258	NP_067081	Q8N6P7	I22R1_HUMAN	interleukin 22 receptor, alpha 1 precursor	336	Cytoplasmic (Potential).					integral to membrane	interferon receptor activity			skin(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000992)|all_lung(284;0.00138)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;3.84e-24)|Colorectal(126;6.43e-08)|COAD - Colon adenocarcinoma(152;3.51e-06)|GBM - Glioblastoma multiforme(114;5.06e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00911)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.148)		GTTGGAGGGCTGGAGGATGGA	0.637													11	30					0	0	0.00245	0	0		C	24448013	C	C	24448013	3	2	8	1	0	0	0	0	1	0	0	0	7689	1580	55	3	721	3	IL22RA1	1	24448013	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1038332	24448013	224802608	21	6830											
CD52	1043	broad.mit.edu	37	chr1	26646688	26646688	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actggactctcaggacaaaaCgacaccagccaaaccagcag	16	3	8	14	1	1	0	1	0	1	0	2	3	1	2	3	2	4	1	3	2	3	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:26646688C>T	uc001bmc.2	+	2	179	c.81C>T	c.(79-81)AAC>AAT	p.N27N	UBXN11_uc001bma.2_5'Flank	NM_001803	NP_001794	P31358	CD52_HUMAN	CD52 antigen precursor	27					elevation of cytosolic calcium ion concentration|respiratory burst	anchored to membrane|integral to plasma membrane|membrane fraction					0		all_cancers(24;5.02e-24)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;7.56e-28)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000946)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0137)|READ - Rectum adenocarcinoma(331;0.0649)	Alemtuzumab(DB00087)	CAGGACAAAACGACACCAGCC	0.403													14	42					0	0	0.00245	0	0		T	26646688	T	T	26646688	2	4	8	1	0	0	0	0	0	0	0	1	3025	535	19	1		1	CD52	1	26646688	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2198675	26646688	222603933	22	6831											
AIM1L	55057	broad.mit.edu	37	chr1	26669262	26669262	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacccagacaaccctccttaGggagccgatgccttggggac	9	6	11	15	1	0	1	0	0	0	1	1	4	1	3	5	3	3	0	5	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:26669262G>T	uc001bmd.3	-	4	482	c.52C>A	c.(52-54)CTA>ATA	p.L18I		NM_001039775	NP_001034864	Q8N1P7	AIM1L_HUMAN	absent in melanoma 1-like	18							sugar binding			pancreas(1)	1		all_cancers(24;4.67e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.51e-27)|Colorectal(126;1.61e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000792)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.00858)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.165)|LUSC - Lung squamous cell carcinoma(448;0.239)		ACCCTCCTTAGGGAGCCGATG	0.507													21	104					3.57733e-08	3.90572e-08	0.009535	1	0		T	26669262	T	T	26669262	3	4	8	1	0	0	0	0	1	0	0	0	431	991	35	5	1862	5	AIM1L	1	26669262	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	22574	26669262	222581359	23	6832											
RPS6KA1	6195	broad.mit.edu	37	chr1	26883502	26883502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcagaagctataccgtcGtgagatcaagccacccttca	11	9	9	12	2	2	2	2	1	0	2	3	3	2	2	3	0	4	2	3	0	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:26883502G>A	uc001bmr.1	+	13	1158	c.995G>A	c.(994-996)CGT>CAT	p.R332H	RPS6KA1_uc010ofe.1_Missense_Mutation_p.R240H|RPS6KA1_uc010off.1_Missense_Mutation_p.R316H|RPS6KA1_uc001bms.1_Missense_Mutation_p.R341H|RPS6KA1_uc009vsl.1_Missense_Mutation_p.R175H	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	332	AGC-kinase C-terminal.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		CTATACCGTCGTGAGATCAAG	0.597													6	40					0	0	0.001984	0	0		A	26883502	A	A	26883502	3	1	8	1	0	0	0	0	1	0	0	0	13675	1145	40	1	1184	1	RPS6KA1	1	26883502	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	214240	26883502	222367119	24	6833											
ARID1A	8289	broad.mit.edu	37	chr1	27094434	27094434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcctgctgtgggtaggaaaCctctggacctctatcgcctc	6	11	11	13	1	2	0	0	0	2	0	4	2	2	2	4	3	3	2	4	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:27094434C>T	uc001bmv.1	+	11	3515	c.3142C>T	c.(3142-3144)CCT>TCT	p.P1048S	ARID1A_uc001bmt.1_Missense_Mutation_p.P1048S|ARID1A_uc001bmu.1_Missense_Mutation_p.P1048S|ARID1A_uc001bmw.1_Missense_Mutation_p.P665S	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1048	ARID.				androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		GGGTAGGAAACCTCTGGACCT	0.552			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								17	73					0	0	0.008871	0	0		T	27094434	T	T	27094434	3	4	8	1	0	0	0	0	1	0	0	0	913	507	18	4	3184	4	ARID1A	1	27094434	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	210932	27094434	222156187	25	6834											
SLC9A1	6548	broad.mit.edu	37	chr1	27436202	27436202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgaagaagctcaggaagcCgaggaagatgtccacgatgc	14	4	13	10	3	1	2	1	0	0	2	2	7	2	4	2	2	3	1	2	2	4	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:27436202C>T	uc001bnm.2	-	3	1506	c.880G>A	c.(880-882)GGC>AGC	p.G294S	SLC9A1_uc010ofk.1_5'UTR|SLC9A1_uc001bnn.2_Missense_Mutation_p.G294S	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	294	Extracellular (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	CTCAGGAAGCCGAGGAAGATG	0.612													18	65					0	0	0.006122	0	0		T	27436202	T	T	27436202	3	4	8	1	0	0	0	0	1	0	0	0	14734	652	23	1	1607	1	SLC9A1	1	27436202	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	341768	27436202	221814419	26	6835											
HDAC1	3065	broad.mit.edu	37	chr1	32794717	32794717	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgttaactacccgctcCgagacgggattgatgacgag	10	9	12	10	4	0	3	0	2	0	1	1	6	1	4	2	1	3	3	2	1	2	3	rs145372036		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:32794717C>T	uc001bvb.1	+	7	748	c.685C>T	c.(685-687)CGA>TGA	p.R229*	HDAC1_uc010ohf.1_Nonsense_Mutation_p.R200*|HDAC1_uc001bvc.1_5'Flank	NM_004964	NP_004955	Q13547	HDAC1_HUMAN	histone deacetylase 1	229	Histone deacetylase.				anti-apoptosis|blood coagulation|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|histone H3 deacetylation|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of androgen receptor signaling pathway|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytosol|NuRD complex|Sin3 complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|identical protein binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|RNA polymerase II transcription corepressor activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|breast(1)	3		Breast(348;0.000523)|Lung NSC(340;0.000992)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Lung SC(1967;0.113)		KIRC - Kidney renal clear cell carcinoma(1967;0.138)	Vorinostat(DB02546)	CTACCCGCTCCGAGACGGGAT	0.483													10	97					0	0	0.010729	0	0		T	32794717	T	T	32794717	4	4	8	1	0	0	0	0	0	1	0	0	7020	644	23	1	711	1	HDAC1	1	32794717	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5358515	32794717	216455904	27	6836											
S100PBP	64766	broad.mit.edu	37	chr1	33318764	33318764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatccttcggacctcaccaCgcggtgagtgggtgattaga	8	9	13	11	3	1	3	1	2	0	1	3	4	2	4	3	3	0	1	3	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:33318764C>T	uc001bvz.2	+	6	1386	c.1109C>T	c.(1108-1110)ACG>ATG	p.T370M	S100PBP_uc001bwc.2_Missense_Mutation_p.T370M|S100PBP_uc001bwd.2_RNA	NM_022753	NP_073590	Q96BU1	S1PBP_HUMAN	S100P binding protein isoform a	370						nucleus	calcium-dependent protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				GACCTCACCACGCGGTGAGTG	0.348													8	47					0	0	0.004482	0	0		T	33318764	T	T	33318764	3	4	8	1	0	0	0	0	1	0	0	0	13816	536	19	1	1132	1	S100PBP	1	33318764	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	524047	33318764	215931857	28	6837											
CSMD2	114784	broad.mit.edu	37	chr1	34046380	34046380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggatcttgaagcccttccGattgtaggcgtgatcagatg	8	11	13	9	3	2	3	1	2	1	1	3	5	3	4	2	2	1	1	2	2	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:34046380G>A	uc001bxn.1	-	49	7395	c.7366C>T	c.(7366-7368)CGG>TGG	p.R2456W	CSMD2_uc001bxm.1_Missense_Mutation_p.R2454W	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2456	CUB 14.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AAGCCCTTCCGATTGTAGGCG	0.517													9	40					0	0	0.013537	0	0		A	34046380	A	A	34046380	3	1	8	1	0	0	0	0	1	0	0	0	3948	1057	37	1	3181	1	CSMD2	1	34046380	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	727616	34046380	215204241	29	6838											
CSMD2	114784	broad.mit.edu	37	chr1	34102053	34102053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcaacttcgtagccccCgtggcagtagtaggtgacgg	7	8	13	13	3	1	1	1	1	0	0	2	1	1	1	3	3	2	4	3	3	4	4	rs34594465		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:34102053C>T	uc001bxn.1	-	30	4785	c.4756G>A	c.(4756-4758)GGG>AGG	p.G1586R	CSMD2_uc001bxm.1_Missense_Mutation_p.G1626R|CSMD2_uc001bxo.1_Missense_Mutation_p.G499R	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1586	Extracellular (Potential).|Sushi 9.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TCGTAGCCCCCGTGGCAGTAG	0.622													6	28					0	0	0.00308	0	0		T	34102053	T	T	34102053	3	4	8	1	0	0	0	0	1	0	0	0	3948	652	23	1	5867	1	CSMD2	1	34102053	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	55673	34102053	215148568	30	6839											
C1orf94	84970	broad.mit.edu	37	chr1	34666585	34666585	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaagaacccaagcgggCagccgagacttcgaaacaaa	16	2	9	14	3	0	2	0	0	0	2	1	4	0	2	4	1	4	1	4	1	5	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:34666585C>T	uc001bxs.3	+	3	1051	c.652C>T	c.(652-654)CAG>TAG	p.Q218*	C1orf94_uc001bxt.2_Nonsense_Mutation_p.Q408*	NM_032884	NP_116273	Q6P1W5	CA094_HUMAN	hypothetical protein LOC84970 isoform b	218							protein binding				0		Myeloproliferative disorder(586;0.0393)				CCCAAGCGGGCAGCCGAGACT	0.592													4	10					0	0	0.000602	0	0		T	34666585	T	T	34666585	4	4	8	1	0	0	0	0	0	1	0	0	2074	711	25	2	1232	2	C1orf94	1	34666585	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	564532	34666585	214584036	31	6840											
DLGAP3	58512	broad.mit.edu	37	chr1	35334284	35334284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcttctccacctctgcccGcagcatcttgatgaaccact	8	10	6	17	1	3	2	0	2	3	0	4	2	3	2	4	0	4	3	4	0	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:35334284G>A	uc001byc.2	-	7	2407	c.2407C>T	c.(2407-2409)CGG>TGG	p.R803W		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	803					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				ACCTCTGCCCGCAGCATCTTG	0.642													4	30					0	0	0.001984	0	0		A	35334284	A	A	35334284	3	1	8	1	0	0	0	0	1	0	0	0	4567	1086	38	1	548	1	DLGAP3	1	35334284	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	667699	35334284	213916337	32	6841											
NCDN	23154	broad.mit.edu	37	chr1	36029369	36029369	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccccctttcttttccaggCgtgacgcctgcttcacatct	4	14	6	17	2	3	1	1	1	2	0	5	1	5	1	5	1	1	1	5	1	0	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:36029369C>T	uc001bza.2	+	7	1739	c.1612C>T	c.(1612-1614)CGT>TGT	p.R538C	NCDN_uc001bzb.2_Missense_Mutation_p.R538C|NCDN_uc001bzc.2_Missense_Mutation_p.R521C	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	538					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CTTTTCCAGGCGTGACGCCTG	0.527													26	72					0	0	0.008361	0	0		T	36029369	T	T	36029369	3	4	8	1	0	0	0	0	1	0	0	0	10233	782	27	1	1634	1	NCDN	1	36029369	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	695085	36029369	213221252	33	6842											
C1orf216	127703	broad.mit.edu	37	chr1	36181448	36181448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctcctgctctttgtagcGctcctggacttgtaagtgct	4	16	9	12	1	2	0	0	0	2	0	4	1	3	1	2	1	3	5	2	1	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:36181448G>A	uc001bzh.1	-	2	963	c.475C>T	c.(475-477)CGC>TGC	p.R159C		NM_152374	NP_689587	Q8TAB5	CA216_HUMAN	hypothetical protein LOC127703	159										skin(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.196)				TCTTTGTAGCGCTCCTGGACT	0.627											OREG0013357	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	88					0	0	0.004007	0	0		A	36181448	A	A	36181448	3	1	8	1	0	0	0	0	1	0	0	0	2034	1087	38	1	218	1	C1orf216	1	36181448	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	152079	36181448	213069173	34	6843											
EIF2C1	26523	broad.mit.edu	37	chr1	36380998	36380998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgatactgtgctactgtgcGggtacagcgaccacggcaag	9	7	13	12	4	0	0	0	0	0	0	0	2	0	0	2	2	6	3	2	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:36380998G>A	uc001bzl.2	+	15	2096	c.1883G>A	c.(1882-1884)CGG>CAG	p.R628Q	EIF2C1_uc001bzk.2_Missense_Mutation_p.R553Q|EIF2C1_uc009vuy.2_RNA	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	628	Piwi.				negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GCTACTGTGCGGGTACAGCGA	0.532													4	66					0	0	0.000602	0	0		A	36380998	A	A	36380998	3	1	8	1	0	0	0	0	1	0	0	0	5011	1116	39	1	1941	1	EIF2C1	1	36380998	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	199550	36380998	212869623	35	6844											
ADPRHL2	54936	broad.mit.edu	37	chr1	36558054	36558054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcgtccatactccagcCgcctgaagaagattggagag	12	6	13	10	2	0	4	0	1	0	3	2	6	2	5	4	2	3	0	4	2	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:36558054C>T	uc001bzt.2	+	5	786	c.733C>T	c.(733-735)CGC>TGC	p.R245C	ADPRHL2_uc001bzu.2_Missense_Mutation_p.R91C	NM_017825	NP_060295	Q9NX46	ARHL2_HUMAN	ADP-ribosylhydrolase like 2	245						cytoplasm|nucleus	metal ion binding|poly(ADP-ribose) glycohydrolase activity			pancreas(1)	1		Myeloproliferative disorder(586;0.0393)				ATACTCCAGCCGCCTGAAGAA	0.602													9	31					0	0	0.008291	0	0		T	36558054	T	T	36558054	3	4	8	1	0	0	0	0	1	0	0	0	333	652	23	1	751	1	ADPRHL2	1	36558054	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	177056	36558054	212692567	36	6845											
MACF1	23499	broad.mit.edu	37	chr1	39823511	39823511	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatcagaaattggaaacttAgtaaaggacaagttgaagga	18	8	10	5	0	1	2	1	1	0	1	1	5	1	5	1	3	1	2	1	3	7	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:39823511A>G	uc010oiu.1	+	9	7340	c.7209A>G	c.(7207-7209)TTA>TTG	p.L2403L	MACF1_uc010ois.1_Silent_p.L1901L|MACF1_uc001cda.1_Silent_p.L1809L|MACF1_uc001cdc.1_Silent_p.L988L|MACF1_uc001cdb.1_Silent_p.L988L	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3968					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TTGGAAACTTAGTAAAGGACA	0.428													22	58					0	0	0.014323	0	0		G	39823511	G	G	39823511	2	3	8	1	0	0	0	0	0	0	0	1	9162	417	15	3		3	MACF1	1	39823511	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3265457	39823511	209427110	37	6846											
HPCAL4	51440	broad.mit.edu	37	chr1	40149806	40149806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgcgcgaacttggaggCgtcgccgtaggggaagaact	8	7	17	9	5	0	1	0	0	0	1	1	4	0	3	1	4	4	2	1	4	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:40149806C>T	uc001cdr.2	-	3	301	c.181G>A	c.(181-183)GCC>ACC	p.A61T	HPCAL4_uc010oix.1_Intron	NM_016257	NP_057341	Q9UM19	HPCL4_HUMAN	hippocalcin-like protein 4	61	EF-hand 2.				central nervous system development	intracellular	calcium ion binding			central_nervous_system(1)	1	all_cancers(7;4.65e-13)|Lung NSC(20;2.88e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			AACTTGGAGGCGTCGCCGTAG	0.692													6	23					0	0	0.001984	0	0		T	40149806	T	T	40149806	3	4	8	1	0	0	0	0	1	0	0	0	7347	768	27	1	402	1	HPCAL4	1	40149806	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	326295	40149806	209100815	38	6847											
SCMH1	22955	broad.mit.edu	37	chr1	41503057	41503057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagcatagcctgcgcacaGctgaggcagtgcttggtggg	7	8	17	9	1	0	1	0	1	0	0	0	2	0	2	1	4	5	5	1	4	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:41503057G>A	uc001cgo.2	-	13	1936	c.1625C>T	c.(1624-1626)GCT>GTT	p.A542V	SCMH1_uc010ojr.1_Missense_Mutation_p.A384V|SCMH1_uc001cgp.2_Missense_Mutation_p.A481V|SCMH1_uc001cgr.2_Missense_Mutation_p.A481V|SCMH1_uc001cgs.2_Missense_Mutation_p.A552V|SCMH1_uc001cgt.2_Missense_Mutation_p.A481V|SCMH1_uc001cgq.2_Missense_Mutation_p.A495V|SCMH1_uc010ojs.1_RNA	NM_001031694	NP_001026864	Q96GD3	SCMH1_HUMAN	sex comb on midleg 1 isoform 1	542					anatomical structure morphogenesis|gene silencing|multicellular organismal development|negative regulation of transcription, DNA-dependent		DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)|Breast(333;0.162)	Myeloproliferative disorder(586;0.0393)				CCTGCGCACAGCTGAGGCAGT	0.478													19	44					0	0	0.008871	0	0		A	41503057	A	A	41503057	3	1	8	1	0	0	0	0	1	0	0	0	13933	971	34	2	373	2	SCMH1	1	41503057	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1353251	41503057	207747564	39	6848											
ZMYND12	84217	broad.mit.edu	37	chr1	42901019	42901019	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcctgtgagaggacttgaTagtgattgttcaaatatgca	12	12	12	5	0	1	3	1	3	0	1	1	6	1	4	1	1	2	2	1	1	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:42901019T>C	uc001chj.2	-	6	1025	c.755A>G	c.(754-756)TAT>TGT	p.Y252C	ZMYND12_uc010ojt.1_Missense_Mutation_p.Y142C	NM_032257	NP_115633	Q9H0C1	ZMY12_HUMAN	zinc finger, MYND-type containing 12 isoform 1	252						intracellular	zinc ion binding			ovary(1)	1	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GAGGACTTGATAGTGATTGTT	0.478													30	136					0	0	0.012213	0	0		C	42901019	C	C	42901019	3	2	8	1	0	0	0	0	1	0	0	0	17732	1406	49	3	354	3	ZMYND12	1	42901019	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1397962	42901019	206349602	40	6849											
TMEM125	128218	broad.mit.edu	37	chr1	43738712	43738712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaccatgtggccctgctgCgcagtggtggaggggccgac	5	6	16	14	2	0	0	0	0	0	0	0	2	0	1	4	5	2	2	4	5	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:43738712C>T	uc001cir.2	+	4	889	c.319C>T	c.(319-321)CGC>TGC	p.R107C	EBNA1BP2_uc001cio.2_5'Flank|TMEM125_uc001cis.2_Missense_Mutation_p.R107C	NM_144626	NP_653227	Q96AQ2	TM125_HUMAN	transmembrane protein 125	107			R -> L (in a breast cancer sample; somatic mutation).			integral to membrane		p.R107L(1)		breast(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GGCCCTGCTGCGCAGTGGTGG	0.687													3	13					0	0	0.004672	0	0		T	43738712	T	T	43738712	3	4	8	1	0	0	0	0	1	0	0	0	16062	768	27	1	321	1	TMEM125	1	43738712	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	837693	43738712	205511909	41	6850											
KDM4A	9682	broad.mit.edu	37	chr1	44137442	44137442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaacgggagttctcactGtgcacagttatgccaaaggg	11	8	13	9	1	1	0	1	0	1	0	2	1	1	1	1	3	3	4	1	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:44137442G>A	uc001cjx.2	+	11	1796	c.1630G>A	c.(1630-1632)GTG>ATG	p.V544M	KDM4A_uc010oki.1_Intron	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	544					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1						AGTTCTCACTGTGCACAGTTA	0.562													13	68					0	0	0.001855	0	0		A	44137442	A	A	44137442	3	1	8	1	0	0	0	0	1	0	0	0	8144	1377	48	4	1668	4	KDM4A	1	44137442	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	398730	44137442	205113179	42	6851											
PLK3	1263	broad.mit.edu	37	chr1	45270162	45270162	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcacacatatggccctgtcGgccaacagaaagtaagtgct	12	7	11	11	1	0	1	0	0	0	1	1	1	0	1	2	3	2	3	2	3	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:45270162G>T	uc001cmn.2	+	12	1594	c.1494G>T	c.(1492-1494)TCG>TCT	p.S498S	PLK3_uc001cmo.2_RNA	NM_004073	NP_004064	Q9H4B4	PLK3_HUMAN	polo-like kinase 3	498	POLO box 1.					membrane	ATP binding|protein binding|protein serine/threonine kinase activity				0	Acute lymphoblastic leukemia(166;0.155)					TGGCCCTGTCGGCCAACAGAA	0.567													12	47					2.68362e-12	2.99231e-12	0.013537	1	0		T	45270162	T	T	45270162	2	4	8	1	0	0	0	0	0	0	0	1	12116	1103	39	5		5	PLK3	1	45270162	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1132720	45270162	203980459	43	6852											
MUTYH	4595	broad.mit.edu	37	chr1	45799087	45799087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctcgcctgcctacccGtcttctccatggtaggtccc	3	12	8	18	2	2	0	0	0	2	0	6	0	4	0	6	2	3	2	6	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:45799087G>A	uc001cnm.2	-	3	553	c.337C>T	c.(337-339)CGG>TGG	p.R113W	MUTYH_uc009vxn.2_Intron|MUTYH_uc001cnf.2_Missense_Mutation_p.R88W|MUTYH_uc009vxo.2_Missense_Mutation_p.R88W|MUTYH_uc001cng.2_Missense_Mutation_p.R99W|MUTYH_uc001cnj.2_Translation_Start_Site|MUTYH_uc001cni.2_Missense_Mutation_p.R88W|MUTYH_uc001cnh.2_Missense_Mutation_p.R89W|MUTYH_uc001cno.2_Translation_Start_Site|MUTYH_uc001cnk.2_Translation_Start_Site|MUTYH_uc010oll.1_Intron|MUTYH_uc001cnl.2_Missense_Mutation_p.R102W|MUTYH_uc009vxp.2_Missense_Mutation_p.R116W|MUTYH_uc001cnn.2_Missense_Mutation_p.R103W	NM_012222	NP_036354	Q9UIF7	MUTYH_HUMAN	mutY homolog isoform 1	113					depurination|mismatch repair	nucleoplasm	4 iron, 4 sulfur cluster binding|DNA N-glycosylase activity|endonuclease activity|metal ion binding|MutSalpha complex binding				0	Acute lymphoblastic leukemia(166;0.155)					CTGCCTACCCGTCTTCTCCAT	0.582			Mis			colorectal		BER_DNA_glycosylases	MUTYH-associated_polyposis				12	33					0	0	0.003163	0	0		A	45799087	A	A	45799087	3	1	8	1	0	0	0	0	1	0	0	0	10011	1144	40	1	1359	1	MUTYH	1	45799087	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	528925	45799087	203451534	44	6853											
RAD54L	8438	broad.mit.edu	37	chr1	46736382	46736382	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgccaattttgaagggtcGagacgctgctgctagtgagg	9	11	14	7	2	0	3	0	2	0	1	1	4	0	3	1	2	3	3	1	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:46736382G>A	uc009vye.2	+	11	1208	c.1094G>A	c.(1093-1095)CGA>CAA	p.R365Q	RAD54L_uc001cpl.2_Missense_Mutation_p.R365Q|RAD54L_uc001cpm.1_Missense_Mutation_p.R185Q	NM_001142548	NP_001136020	Q92698	RAD54_HUMAN	RAD54-like protein	365					meiosis	nucleus	ATP binding|DNA binding|helicase activity			ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(166;0.155)	Breast(1374;0.0634)		KIRC - Kidney renal clear cell carcinoma(1967;0.000896)		TTGAAGGGTCGAGACGCTGCT	0.468								Direct_reversal_of_damage|Homologous_recombination					12	57					0	0	0.001855	0	0		A	46736382	A	A	46736382	3	1	8	1	0	0	0	0	1	0	0	0	13018	1058	37	1	1132	1	RAD54L	1	46736382	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	937295	46736382	202514239	45	6854											
RNF11	26994	broad.mit.edu	37	chr1	51736936	51736936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgatgagatccttcacgtGcccctcctgcatggagccag	7	10	11	13	1	1	2	1	2	0	1	3	4	3	3	5	1	3	2	5	1	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:51736936G>A	uc001csi.3	+	3	891	c.407G>A	c.(406-408)TGC>TAC	p.C136Y		NM_014372	NP_055187	Q9Y3C5	RNF11_HUMAN	ring finger protein 11	136	RING-type.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	DNA binding|protein binding|zinc ion binding				0						TCCTTCACGTGCCCCTCCTGC	0.473													11	64					0	0	0.013537	0	0		A	51736936	A	A	51736936	3	1	8	1	0	0	0	0	1	0	0	0	13449	1319	46	2	417	2	RNF11	1	51736936	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	5000554	51736936	197513685	46	6855											
NRD1	4898	broad.mit.edu	37	chr1	52266266	52266266	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgaggatgttaaagtaGgtcttcttcaactgctcagt	10	15	10	6	0	4	2	2	2	2	0	4	3	4	3	0	2	2	3	0	2	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:52266266G>T	uc001ctc.3	-	23	2929	c.2607C>A	c.(2605-2607)ACC>ACA	p.T869T	NRD1_uc009vzb.2_Silent_p.T564T|NRD1_uc001ctd.3_Silent_p.T801T|NRD1_uc001cte.2_Silent_p.T737T|NRD1_uc001ctf.2_Silent_p.T801T|NRD1_uc010ong.1_RNA	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	800					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						TGTTAAAGTAGGTCTTCTTCA	0.398													6	102					5.18039e-06	5.59402e-06	0.00308	1	0		T	52266266	T	T	52266266	2	4	8	1	0	0	0	0	0	0	0	1	10664	987	35	5		5	NRD1	1	52266266	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	529330	52266266	196984355	47	6856											
MRPL37	51253	broad.mit.edu	37	chr1	54666207	54666207	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccctcttcacgagcatccGctgtacaaagaccaggcctg	9	7	8	17	2	2	1	1	0	1	1	3	2	3	1	5	1	2	3	5	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:54666207G>A	uc001cxa.3	+	1	368	c.291G>A	c.(289-291)CCG>CCA	p.P97P	CYB5RL_uc009vzo.2_5'Flank|CYB5RL_uc001cwx.3_5'Flank|CYB5RL_uc001cwy.3_5'Flank|MRPL37_uc009vzp.2_Missense_Mutation_p.R67H|MRPL37_uc001cxb.1_Silent_p.P97P|MRPL37_uc001cxc.3_Intron|MRPL37_uc010oob.1_RNA	NM_016491	NP_057575	Q9BZE1	RM37_HUMAN	mitochondrial ribosomal protein L37 precursor	97					translation	mitochondrial ribosome	structural constituent of ribosome				0						ACGAGCATCCGCTGTACAAAG	0.527													14	41					0	0	0.00499	0	0		A	54666207	A	A	54666207	2	1	8	1	0	0	0	0	0	0	0	1	9818	1074	38	1		1	MRPL37	1	54666207	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2399941	54666207	194584414	48	6857											
DAB1	1600	broad.mit.edu	37	chr1	57610998	57610998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaatcttgacataacttgtCtccccgagctgcggaaactt	10	11	9	11	2	2	1	0	1	2	0	3	4	2	3	2	2	4	1	2	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:57610998C>T	uc001cys.1	-	5	846	c.172G>A	c.(172-174)GAC>AAC	p.D58N	DAB1_uc001cyt.1_Missense_Mutation_p.D58N|DAB1_uc001cyq.1_Missense_Mutation_p.D58N|DAB1_uc001cyr.1_Missense_Mutation_p.D58N|DAB1_uc009vzw.1_Missense_Mutation_p.D58N|DAB1_uc009vzx.1_Missense_Mutation_p.D58N	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	58	PID.				cell differentiation|nervous system development					skin(2)|ovary(1)	3						CATAACTTGTCTCCCCGAGCT	0.408													7	60					0	0	0.00308	0	0		T	57610998	T	T	57610998	3	4	8	1	0	0	0	0	1	0	0	0	4220	913	32	4	1543	4	DAB1	1	57610998	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2944791	57610998	191639623	49	6858											
C1orf87	127795	broad.mit.edu	37	chr1	60499273	60499273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatctccaacagactccTgttcacttctggctgtgagc	10	11	7	13	0	3	2	1	1	2	1	5	2	4	2	2	1	2	2	2	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:60499273T>C	uc001czs.1	-	7	996	c.904A>G	c.(904-906)AGG>GGG	p.R302G		NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	302							calcium ion binding			ovary(1)|breast(1)	2						AACAGACTCCTGTTCACTTCT	0.473													18	66					0	0	0.008871	0	0		C	60499273	C	C	60499273	3	2	8	1	0	0	0	0	1	0	0	0	2067	1579	55	3	760	3	C1orf87	1	60499273	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2888275	60499273	188751348	50	6859											
NFIA	4774	broad.mit.edu	37	chr1	61869831	61869831	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgacatcacccattatccaGcagcctgggccttacttctc	8	10	6	17	1	2	0	1	0	1	0	4	1	3	0	5	1	3	1	5	1	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:61869831G>A	uc001czw.2	+	8	1615	c.1131G>A	c.(1129-1131)CAG>CAA	p.Q377Q	NFIA_uc001czy.2_Silent_p.Q369Q|NFIA_uc010oos.1_Silent_p.Q422Q|NFIA_uc001czv.2_Silent_p.Q377Q|NFIA_uc001czx.2_Silent_p.Q25Q|NFIA_uc009wae.2_5'Flank	NM_001134673	NP_001128145	Q12857	NFIA_HUMAN	nuclear factor I/A isoform 1	377					DNA replication|viral genome replication	cell junction|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)|skin(1)	2						CCATTATCCAGCAGCCTGGGC	0.507													17	96					0	0	0.012319	0	0		A	61869831	A	A	61869831	2	1	8	1	0	0	0	0	0	0	0	1	10389	962	34	2		2	NFIA	1	61869831	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1370558	61869831	187380790	51	6860											
INADL	10207	broad.mit.edu	37	chr1	62594566	62594566	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttggatgggctgtctcaCgcggatgtggttaatctgct	5	14	13	9	2	2	0	1	0	2	0	3	2	2	2	1	4	1	3	1	4	1	2	rs113629200		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:62594566C>T	uc001dab.2	+	41	5334	c.5220C>T	c.(5218-5220)CAC>CAT	p.H1740H	INADL_uc001dac.2_RNA|INADL_uc009wag.2_Silent_p.H524H	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1740	PDZ 10.				intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						GGCTGTCTCACGCGGATGTGG	0.468													10	85					0	0	0.008291	0	0		T	62594566	T	T	62594566	2	4	8	1	0	0	0	0	0	0	0	1	7747	535	19	1		1	INADL	1	62594566	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	724735	62594566	186656055	52	6861											
JAK1	3716	broad.mit.edu	37	chr1	65323363	65323363	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacttctcaaagcaggtgacGgtcatgaggatgttgtcaaa	12	10	12	7	1	3	2	3	2	1	0	4	4	3	3	0	3	1	2	0	3	2	2	rs55788790		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:65323363G>A	uc001dbu.1	-	10	1683	c.1434C>T	c.(1432-1434)ACC>ACT	p.T478T	JAK1_uc009wam.1_Silent_p.T466T	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	478	SH2.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity	p.T478S(1)|p.T478T(1)		haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		AGCAGGTGACGGTCATGAGGA	0.542			Mis		ALL								12	43					0	0	0.001855	0	0		A	65323363	A	A	65323363	2	1	8	1	0	0	0	0	0	0	0	1	7953	1103	39	1		1	JAK1	1	65323363	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2728797	65323363	183927258	53	6862											
SYDE2	84144	broad.mit.edu	37	chr1	85656333	85656333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgcgtttctttgaaacaGtgatgctgttaagtggctta	10	16	10	5	1	1	2	0	2	1	0	1	2	1	2	0	1	3	4	0	1	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:85656333G>A	uc009wcm.2	-	2	897	c.848C>T	c.(847-849)ACT>ATT	p.T283I	SYDE2_uc001dku.3_Missense_Mutation_p.T283I	NM_032184	NP_115560	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2	283					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|central_nervous_system(1)	2				all cancers(265;0.0126)|Epithelial(280;0.0336)		CTTTGAAACAGTGATGCTGTT	0.368													30	137					0	0	0.008361	0	0		A	85656333	A	A	85656333	3	1	8	1	0	0	0	0	1	0	0	0	15461	1029	36	4	2760	4	SYDE2	1	85656333	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	20332970	85656333	163594288	54	6863											
CLCA2	9635	broad.mit.edu	37	chr1	86905964	86905964	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aattcactccattgccctggGttcatctgcagccccaaatc	9	11	6	15	0	3	0	2	0	1	0	5	0	4	0	4	1	3	2	4	1	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:86905964G>T	uc001dlr.3	+	8	1499	c.1337G>T	c.(1336-1338)GGT>GTT	p.G446V		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor	446	VWFA.|Extracellular (Potential).				cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		ATTGCCCTGGGTTCATCTGCA	0.423													14	65					6.72482e-11	7.46362e-11	0.003163	1	0		T	86905964	T	T	86905964	3	4	8	1	0	0	0	0	1	0	0	0	3461	1261	44	5	1367	5	CLCA2	1	86905964	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1249631	86905964	162344657	55	6864											
GBP1	2633	broad.mit.edu	37	chr1	89520420	89520420	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcaactggaccctgtcgTtctccatcttctcagtcagt	7	13	7	14	1	5	0	3	0	3	0	8	1	5	1	2	1	2	2	2	1	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:89520420T>C	uc001dmx.2	-	10	1830	c.1610A>G	c.(1609-1611)AAC>AGC	p.N537S		NM_002053	NP_002044	P32455	GBP1_HUMAN	guanylate binding protein 1,	537					interferon-gamma-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0156)|Epithelial(280;0.0291)		GACCCTGTCGTTCTCCATCTT	0.423													37	295					0	0	0.007835	0	0		C	89520420	C	C	89520420	3	2	8	1	0	0	0	0	1	0	0	0	6288	1725	60	3	176	3	GBP1	1	89520420	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2614456	89520420	159730201	56	6865											
GBP1	2633	broad.mit.edu	37	chr1	89521715	89521715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttacctgtatccccttcctcGgttcctcatagtactttttc	5	18	4	14	1	1	0	1	0	0	0	6	0	4	0	5	1	2	3	5	1	4	8	rs142020556		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:89521715G>A	uc001dmx.2	-	8	1572	c.1352C>T	c.(1351-1353)CCG>CTG	p.P451L		NM_002053	NP_002044	P32455	GBP1_HUMAN	guanylate binding protein 1,	451					interferon-gamma-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0156)|Epithelial(280;0.0291)		CCCCTTCCTCGGTTCCTCATA	0.448													42	201					0	0	0.011902	0	0		A	89521715	A	A	89521715	3	1	8	1	0	0	0	0	1	0	0	0	6288	1116	39	1	442	1	GBP1	1	89521715	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1295	89521715	159728906	57	6866											
FNBP1L	54874	broad.mit.edu	37	chr1	93987691	93987691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccaaagatgaagagccaCggtaaattacatacctgttc	15	9	7	10	1	0	3	0	1	0	2	2	3	1	3	3	1	3	2	3	1	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:93987691C>T	uc001dpw.2	+	3	193	c.193C>T	c.(193-195)CGG>TGG	p.R65W	FNBP1L_uc001dpv.2_Missense_Mutation_p.R65W	NM_001024948	NP_001020119	Q5T0N5	FBP1L_HUMAN	formin binding protein 1-like isoform 1	65	FCH.|Induction of membrane tubulation (By similarity).				endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	lipid binding				0		all_lung(203;0.00206)|Lung NSC(277;0.00902)|Melanoma(281;0.155)		all cancers(265;0.00666)|GBM - Glioblastoma multiforme(16;0.0378)|Epithelial(280;0.111)		TGAAGAGCCACGGTAAATTAC	0.204													6	9					0	0	0.006214	0	0		T	93987691	T	T	93987691	3	4	8	1	0	0	0	0	1	0	0	0	5980	550	19	1	203	1	FNBP1L	1	93987691	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4465976	93987691	155262930	58	6867											
ARHGAP29	9411	broad.mit.edu	37	chr1	94639435	94639435	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgacatccctacacaaatTgtggaatttcaccttcgagg	11	13	7	10	1	1	1	1	1	0	0	3	3	2	2	2	2	1	0	2	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:94639435T>C	uc001dqj.3	-	23	4145	c.3776A>G	c.(3775-3777)CAA>CGA	p.Q1259R	ARHGAP29_uc009wdq.1_Intron	NM_004815	NP_004806	Q52LW3	RHG29_HUMAN	PTPL1-associated RhoGAP 1	1259	Interaction with PTPN13/PTPL1.				Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|upper_aerodigestive_tract(1)|ovary(1)	11		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		CTACACAAATTGTGGAATTTC	0.408													33	138					0	0	0.004289	0	0		C	94639435	C	C	94639435	3	2	8	1	0	0	0	0	1	0	0	0	878	1812	63	3	13	3	ARHGAP29	1	94639435	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	651744	94639435	154611186	59	6868											
ABCD3	5825	broad.mit.edu	37	chr1	94955520	94955520	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagaaatcattattgcagaTaacattataaagtacgtaca	18	11	7	5	1	1	2	1	0	0	2	1	3	1	2	0	1	4	3	0	1	8	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:94955520T>C	uc001dqn.3	+	15	1413	c.1311T>C	c.(1309-1311)GAT>GAC	p.D437D	ABCD3_uc010oto.1_Silent_p.D461D|ABCD3_uc010otp.1_Silent_p.D364D|ABCD3_uc009wdr.2_Silent_p.D327D|ABCD3_uc001dqo.3_Silent_p.D125D	NM_002858	NP_002849	P28288	ABCD3_HUMAN	ATP-binding cassette, sub-family D, member 3	437					peroxisomal long-chain fatty acid import|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(1)	1		all_lung(203;0.000434)|Lung NSC(277;0.0019)		all cancers(265;0.0261)|Epithelial(280;0.165)		TTATTGCAGATAACATTATAA	0.318													19	86					0	0	0.012319	0	0		C	94955520	C	C	94955520	2	2	8	1	0	0	0	0	0	0	0	1	62	1403	49	3		3	ABCD3	1	94955520	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	316085	94955520	154295101	60	6869											
EXTL2	2135	broad.mit.edu	37	chr1	101339853	101339853	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattgaagaatgaggctccaAtcagcaccatagagtactgg	14	9	10	8	0	1	4	1	2	0	2	2	4	2	4	2	2	2	3	2	2	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:101339853A>T	uc001dtk.1	-	5	975	c.638T>A	c.(637-639)ATT>AAT	p.I213N	EXTL2_uc001dtl.1_Missense_Mutation_p.I213N|EXTL2_uc010ouk.1_Missense_Mutation_p.I200N|EXTL2_uc001dtm.1_Missense_Mutation_p.I212N	NM_001439	NP_001430	Q9UBQ6	EXTL2_HUMAN	exostoses-like 2	213	Lumenal (Potential).				N-acetylglucosamine metabolic process|UDP-N-acetylgalactosamine metabolic process	extracellular region|integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,4-N-acetylgalactosaminyltransferase activity|glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding			skin(1)	1		all_epithelial(167;2.48e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0425)|all cancers(265;0.0628)|COAD - Colon adenocarcinoma(174;0.148)|Colorectal(144;0.167)|Lung(183;0.195)		TGAGGCTCCAATCAGCACCAT	0.403													7	41					0	0	0.00308	0	0		T	101339853	T	T	101339853	3	4	8	1	0	0	0	0	1	0	0	0	5334	101	4	5	358	5	EXTL2	1	101339853	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	6384333	101339853	147910768	61	6870											
COL11A1	1301	broad.mit.edu	37	chr1	103345444	103345444	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcatttgcaccatattgatgGaatttccttcaacatctaag	12	15	5	9	0	3	1	2	1	1	0	4	2	4	2	2	1	2	1	2	1	4	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:103345444G>T	uc001dul.2	-	66	5387	c.5069C>A	c.(5068-5070)TCC>TAC	p.S1690Y	COL11A1_uc001duk.2_Missense_Mutation_p.S886Y|COL11A1_uc001dum.2_Missense_Mutation_p.S1702Y|COL11A1_uc001dun.2_Missense_Mutation_p.S1651Y|COL11A1_uc009weh.2_Missense_Mutation_p.S1574Y	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1690	Fibrillar collagen NC1.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CATATTGATGGAATTTCCTTC	0.383													5	55					0.00116845	0.00122775	0.001168	1	0		T	103345444	T	T	103345444	3	4	8	1	0	0	0	0	1	0	0	0	3670	1174	41	5	359	5	COL11A1	1	103345444	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2005591	103345444	145905177	62	6871											
VAV3	10451	broad.mit.edu	37	chr1	108507464	108507464	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttgcaatggatgagccActgcgcgcactgcttccacg	8	8	10	15	3	0	1	0	1	0	0	1	2	1	2	3	1	4	3	3	1	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:108507464A>G	uc001dvk.1	-	1	82	c.28T>C	c.(28-30)TGG>CGG	p.W10R	VAV3_uc010ouw.1_Missense_Mutation_p.W10R|VAV3_uc001dvl.1_5'Flank|VAV3_uc010oux.1_Missense_Mutation_p.W10R	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	10	CH.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		TGGATGAGCCACTGCGCGCAC	0.627													4	23					0	0	0.000602	0	0		G	108507464	G	G	108507464	3	3	8	1	0	0	0	0	1	0	0	0	17159	159	6	3	2648	3	VAV3	1	108507464	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	5162020	108507464	140743157	63	6872											
FNDC7	163479	broad.mit.edu	37	chr1	109276020	109276020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctccaaaggcattttcaCgtgcaccccgagtgctggcc	7	9	11	14	2	1	0	1	0	0	0	2	1	2	0	4	3	2	4	4	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:109276020C>T	uc001dvx.2	+	10	2006	c.2006C>T	c.(2005-2007)ACG>ATG	p.T669M	FNDC7_uc010ova.1_Missense_Mutation_p.T436M	NM_001144937	NP_001138409	Q5VTL7	FNDC7_HUMAN	fibronectin type III domain containing 7	670	Fibronectin type-III 8.					extracellular region				ovary(1)|skin(1)	2		all_lung(203;0.00439)|Lung NSC(277;0.00683)|all_epithelial(167;0.00728)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.173)|all cancers(265;0.244)		GGCATTTTCACGTGCACCCCG	0.517													22	82					0	0	0.014323	0	0		T	109276020	T	T	109276020	3	4	8	1	0	0	0	0	1	0	0	0	5987	536	19	1	2044	1	FNDC7	1	109276020	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	768556	109276020	139974601	64	6873											
RBM15	64783	broad.mit.edu	37	chr1	110884339	110884339	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccccgtcccagaaacaggAtggggggacagcccctgtgg	8	5	15	13	1	0	1	0	0	0	1	2	3	2	3	5	5	2	0	5	5	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:110884339A>G	uc001dzl.1	+	1	2395	c.2312A>G	c.(2311-2313)GAT>GGT	p.D771G	RBM15_uc001dzm.1_Missense_Mutation_p.D771G|uc001dzj.2_5'Flank	NM_022768	NP_073605	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	771					interspecies interaction between organisms	nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		CAGAAACAGGATGGGGGGACA	0.547			T	MKL1	acute megakaryocytic leukemia								11	55					0	0	0.010729	0	0		G	110884339	G	G	110884339	3	3	8	1	0	0	0	0	1	0	0	0	13141	333	12	3	2314	3	RBM15	1	110884339	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1608319	110884339	138366282	65	6874											
MAGI3	260425	broad.mit.edu	37	chr1	114092138	114092138	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttgtctttgctccaggCaaagtcattaataaagattt	11	18	6	6	0	2	1	1	0	1	1	3	1	3	1	1	1	1	2	1	1	4	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:114092138C>T	uc001edk.2	+	2	499	c.318C>T	c.(316-318)GGC>GGT	p.G106G	MAGI3_uc001edh.3_Silent_p.G106G|MAGI3_uc001edi.3_Silent_p.G106G|MAGI3_uc010owm.1_Silent_p.G106G	NM_001142782	NP_001136254	Q5TCQ9	MAGI3_HUMAN	membrane-associated guanylate kinase-related  3	106	PDZ 1.|Interaction with ADRB1 and TGFA (By similarity).				apoptosis|interspecies interaction between organisms|intracellular signal transduction	nucleus|tight junction	ATP binding|guanylate kinase activity|protein binding			lung(3)|ovary(2)|central_nervous_system(1)	6	Lung SC(450;0.184)	all_cancers(81;2.34e-09)|all_epithelial(167;7.41e-09)|all_lung(203;7.13e-06)|Lung NSC(69;1.2e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTGCTCCAGGCAAAGTCATTA	0.318													5	39					0	0	0.001984	0	0		T	114092138	T	T	114092138	2	4	8	1	0	0	0	0	0	0	0	1	9210	724	25	2		2	MAGI3	1	114092138	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3207799	114092138	135158483	66	6875											
DCLRE1B	64858	broad.mit.edu	37	chr1	114454678	114454678	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccctgtcccacagcagcaaGggcacccctcttctagctac	8	7	7	19	0	2	0	0	0	2	0	3	0	3	0	5	1	4	4	5	1	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:114454678G>T	uc001eeg.2	+	4	1635	c.1464G>T	c.(1462-1464)AAG>AAT	p.K488N	DCLRE1B_uc001eeh.2_Intron|DCLRE1B_uc001eei.2_Missense_Mutation_p.K362N	NM_022836	NP_073747	Q9H816	DCR1B_HUMAN	DNA cross-link repair 1B (PSO2 homolog, S.	488					cell cycle checkpoint|DNA repair|protection from non-homologous end joining at telomere|telomeric 3' overhang formation|telomeric loop formation	centrosome|chromosome, telomeric region|nucleus	5'-3' exonuclease activity|protein binding				0	Lung SC(450;0.184)	all_cancers(81;1.46e-05)|all_epithelial(167;2.42e-05)|all_lung(203;0.000353)|Lung NSC(69;0.000518)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACAGCAGCAAGGGCACCCCTC	0.532								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					19	94					6.94344e-10	7.66567e-10	0.006122	1	0		T	114454678	T	T	114454678	3	4	8	1	0	0	0	0	1	0	0	0	4298	991	35	5	1478	5	DCLRE1B	1	114454678	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	362540	114454678	134795943	67	6876											
AMPD1	270	broad.mit.edu	37	chr1	115231320	115231320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttcatctttgacttcagagGcaaacactttttcagcaaag	12	13	6	10	0	4	2	3	1	1	1	4	2	4	2	0	1	2	2	0	1	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:115231320G>A	uc001efe.1	-	3	161	c.77C>T	c.(76-78)GCC>GTC	p.A26V	AMPD1_uc001eff.1_Missense_Mutation_p.A22V	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	26					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	GACTTCAGAGGCAAACACTTT	0.413													25	144					0	0	0.004656	0	0		A	115231320	A	A	115231320	3	1	8	1	0	0	0	0	1	0	0	0	585	1203	42	2	2222	2	AMPD1	1	115231320	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	776642	115231320	134019301	68	6877											
IGSF3	3321	broad.mit.edu	37	chr1	117156651	117156651	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgacctccacgggcttctCgccaactttctgccggagcc	6	9	10	16	3	2	1	0	1	2	0	4	3	3	2	5	2	3	1	5	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:117156651C>T	uc001egr.1	-	4	1273	c.568G>A	c.(568-570)GAG>AAG	p.E190K	IGSF3_uc001egq.1_Missense_Mutation_p.E190K	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	190	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		ACGGGCTTCTCGCCAACTTTC	0.612													10	39					0	0	0.008291	0	0		T	117156651	T	T	117156651	3	4	8	1	0	0	0	0	1	0	0	0	7617	893	31	1	3112	1	IGSF3	1	117156651	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1925331	117156651	132093970	69	6878											
VTCN1	79679	broad.mit.edu	37	chr1	117699263	117699263	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatataacatttgtaggtGccagcatctgtgagttgcac	11	13	10	7	0	1	2	0	2	1	0	1	2	1	2	1	1	4	4	1	1	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:117699263G>A	uc001ehb.2	-	3	450	c.378C>T	c.(376-378)GGC>GGT	p.G126G	VTCN1_uc001ehc.2_Silent_p.G31G|VTCN1_uc009whf.1_Intron	NM_024626	NP_078902	Q7Z7D3	VTCN1_HUMAN	V-set domain containing T cell activation	126	Ig-like V-type 1.|Extracellular (Potential).					integral to membrane|plasma membrane					0	Lung SC(450;0.225)	all_cancers(81;6.05e-06)|all_epithelial(167;5.59e-07)|all_lung(203;2.85e-06)|Lung NSC(69;2e-05)		Lung(183;0.0664)|LUSC - Lung squamous cell carcinoma(189;0.214)|Colorectal(144;0.23)		ATTTGTAGGTGCCAGCATCTG	0.428													16	63					0	0	0.00499	0	0		A	117699263	A	A	117699263	2	1	8	1	0	0	0	0	0	0	0	1	17260	1306	46	2		2	VTCN1	1	117699263	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	542612	117699263	131551358	70	6879											
GDAP2	54834	broad.mit.edu	37	chr1	118455168	118455168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atactttgctagttgaagtaCgtttctgtagcagctataaa	12	15	8	6	1	1	1	0	1	1	0	1	1	1	1	0	0	5	7	0	0	8	9			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:118455168C>T	uc001ehf.2	-	4	753	c.454G>A	c.(454-456)GTA>ATA	p.V152I	GDAP2_uc001ehg.2_Missense_Mutation_p.V152I	NM_017686	NP_060156	Q9NXN4	GDAP2_HUMAN	ganglioside induced differentiation associated	152	Macro.									ovary(2)	2		all_cancers(81;0.0156)|all_lung(203;5.81e-05)|Lung NSC(69;0.000446)|all_epithelial(167;0.00295)		Lung(183;0.0583)|LUSC - Lung squamous cell carcinoma(189;0.194)		AGTTGAAGTACGTTTCTGTAG	0.413													8	66					0	0	0.006214	0	0		T	118455168	T	T	118455168	3	4	8	1	0	0	0	0	1	0	0	0	6324	536	19	1	1128	1	GDAP2	1	118455168	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	755905	118455168	130795453	71	6880											
GDAP2	54834	broad.mit.edu	37	chr1	118461278	118461278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caagcatgaagatactttctGacacaggattcttatctgtg	12	13	8	8	0	3	3	0	2	3	1	3	4	3	4	0	1	2	1	0	1	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:118461278G>A	uc001ehf.2	-	3	556	c.257C>T	c.(256-258)TCA>TTA	p.S86L	GDAP2_uc001ehg.2_Missense_Mutation_p.S86L	NM_017686	NP_060156	Q9NXN4	GDAP2_HUMAN	ganglioside induced differentiation associated	86	Macro.									ovary(2)	2		all_cancers(81;0.0156)|all_lung(203;5.81e-05)|Lung NSC(69;0.000446)|all_epithelial(167;0.00295)		Lung(183;0.0583)|LUSC - Lung squamous cell carcinoma(189;0.194)		GATACTTTCTGACACAGGATT	0.363													12	64					0	0	0.00245	0	0		A	118461278	A	A	118461278	3	1	8	1	0	0	0	0	1	0	0	0	6324	1294	45	4	1329	4	GDAP2	1	118461278	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	6110	118461278	130789343	72	6881											
ADAM30	11085	broad.mit.edu	37	chr1	120438783	120438783	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtaggtaggacacgggactGaccacaccctgcacctctcc	10	6	10	15	1	1	1	0	1	1	0	2	3	1	3	4	3	1	3	4	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:120438783G>A	uc001eij.2	-	1	331	c.177C>T	c.(175-177)GTC>GTT	p.V59V		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	59					proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		ACACGGGACTGACCACACCCT	0.522													13	56					0	0	0.00499	0	0		A	120438783	A	A	120438783	2	1	8	1	0	0	0	0	0	0	0	1	248	1277	45	4		4	ADAM30	1	120438783	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1977505	120438783	128811838	73	6882											
PDE4DIP	9659	broad.mit.edu	37	chr1	144865839	144865839	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgactcagttgagcctgaAgtcttcgattgtcttccctg	7	14	9	11	1	3	3	1	3	2	0	5	4	4	3	2	0	1	1	2	0	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:144865839A>G	uc001elw.3	-	35	6032	c.5741T>C	c.(5740-5742)CTT>CCT	p.L1914P	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.L1808P|PDE4DIP_uc001elv.3_Missense_Mutation_p.L921P|PDE4DIP_uc001ema.2_Missense_Mutation_p.L101P	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1914	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TTGAGCCTGAAGTCTTCGATT	0.483			T	PDGFRB	MPD								31	311					0	0	0.005524	0	0		G	144865839	G	G	144865839	3	3	8	1	0	0	0	0	1	0	0	0	11662	72	3	3	1339	3	PDE4DIP	1	144865839	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	24427056	144865839	104384782	74	6883											
NBPF10	100132406	broad.mit.edu	37	chr1	146399620	146399620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagtactggaatcatctGcccccaggtaacactgaata	15	8	8	10	0	2	2	1	1	1	1	2	3	2	3	2	2	3	2	2	2	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:146399620G>A	uc001emp.3	+	14	2570	c.1372G>A	c.(1372-1374)GCC>ACC	p.A458T	uc010ozk.1_5'UTR	NM_017940	NP_060410	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC55672	187											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		GGAATCATCTGCCCCCAGGTA	0.413													15	229					0	0	0.010504	0	0		A	146399620	A	A	146399620	3	1	8	1	0	0	0	0	1	0	0	0	10211	1334	46	2		2	NBPF10	1	146399620	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1533781	146399620	102851001	75	6884											
BCL9	607	broad.mit.edu	37	chr1	147096003	147096003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatgggtttcccaggagaagGcccccttggccgccccagca	7	6	13	15	1	0	1	0	0	0	1	1	3	1	1	6	4	1	2	6	4	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:147096003G>A	uc001epq.2	+	10	4264	c.3524G>A	c.(3523-3525)GGC>GAC	p.G1175D	BCL9_uc010ozr.1_Missense_Mutation_p.G1089D	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	1175	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					CCAGGAGAAGGCCCCCTTGGC	0.647			T	IGH@|IGL@	B-ALL								7	21					0	0	0.001984	0	0		A	147096003	A	A	147096003	3	1	8	1	0	0	0	0	1	0	0	0	1382	1203	42	2	3550	2	BCL9	1	147096003	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	696383	147096003	102154618	76	6885											
SV2A	9900	broad.mit.edu	37	chr1	149884988	149884988	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtcgttgtgcctccccccgGcccccagggggaccctcccc	2	6	11	22	3	0	0	0	0	0	0	3	1	2	1	9	3	1	1	9	3	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:149884988G>A	uc001etg.2	-	2	896	c.405C>T	c.(403-405)GGC>GGT	p.G135G	SV2A_uc001eth.2_Silent_p.G135G	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	135	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	CCTCCCCCCGGCCCCCAGGGG	0.662													7	24					0	0	0.00308	0	0		A	149884988	A	A	149884988	2	1	8	1	0	0	0	0	0	0	0	1	15442	1190	42	2		2	SV2A	1	149884988	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2788985	149884988	99365633	77	6886											
SF3B4	10262	broad.mit.edu	37	chr1	149898338	149898338	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggtggaggaggtgcatcTgcaaacagctgatgagggcg	10	6	19	6	1	1	2	0	2	1	0	1	5	1	4	0	5	4	3	0	5	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:149898338T>C	uc001etj.1	-	3	687	c.636A>G	c.(634-636)GCA>GCG	p.A212A	SF3B4_uc001eti.1_5'Flank|SF3B4_uc001etk.1_Silent_p.A212A|SF3B4_uc009wll.1_Silent_p.A212A	NM_005850	NP_005841	Q15427	SF3B4_HUMAN	splicing factor 3b, subunit 4	212						nucleoplasm|U12-type spliceosomal complex	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Breast(34;0.0009)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			GAGGTGCATCTGCAAACAGCT	0.547													15	41					0	0	0.003163	0	0		C	149898338	C	C	149898338	2	2	8	1	0	0	0	0	0	0	0	1	14178	1567	55	3		3	SF3B4	1	149898338	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	13350	149898338	99352283	78	6887											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150525383	150525383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctctatataggtgttgtccGgacactctcttcagacacct	8	14	7	12	1	3	1	1	0	2	1	6	2	4	2	2	2	0	1	2	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:150525383G>A	uc001eux.2	+	5	324	c.88G>A	c.(88-90)GGA>AGA	p.G30R	ADAMTSL4_uc001euw.2_Missense_Mutation_p.G30R|ADAMTSL4_uc009wlw.2_Missense_Mutation_p.G30R|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.G30R	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	30					apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			GGTGTTGTCCGGACACTCTCT	0.572													4	41					0	0	0.009096	0	0		A	150525383	A	A	150525383	3	1	8	1	0	0	0	0	1	0	0	0	277	1117	39	1	98	1	ADAMTSL4	1	150525383	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	627045	150525383	98725238	79	6888											
ANXA9	8416	broad.mit.edu	37	chr1	150958865	150958865	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagaccagtggcatcttgCaggacctgctgttggccctg	6	10	13	12	0	1	1	0	1	1	1	1	3	1	2	3	3	2	4	3	3	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:150958865C>T	uc001ewa.2	+	8	996	c.526C>T	c.(526-528)CAG>TAG	p.Q176*		NM_003568	NP_003559	O76027	ANXA9_HUMAN	annexin A9	176	Annexin 2.				cell-cell adhesion	cell surface|cytosol	acetylcholine receptor activity|calcium ion binding|calcium-dependent phospholipid binding|phosphatidylserine binding|protein homodimerization activity				0	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			TGGCATCTTGCAGGACCTGCT	0.572													10	29					0	0	0.013537	0	0		T	150958865	T	T	150958865	4	4	8	1	0	0	0	0	0	1	0	0	725	711	25	2	548	2	ANXA9	1	150958865	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	433482	150958865	98291756	80	6889											
THEM4	117145	broad.mit.edu	37	chr1	151861728	151861728	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taagggcctccttgaaataaGcaaaccatccttttctcaat	13	12	5	11	0	1	1	1	1	1	0	4	1	3	1	4	1	2	1	4	1	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:151861728G>A	uc001ezj.1	-	3	587	c.408C>T	c.(406-408)TGC>TGT	p.C136C	THEM4_uc001ezk.1_RNA	NM_053055	NP_444283	Q5T1C6	THEM4_HUMAN	thioesterase superfamily member 4	136					insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|ruffle membrane					0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			CTTGAAATAAGCAAACCATCC	0.443													5	44					0	0	0.001168	0	0		A	151861728	A	A	151861728	2	1	8	1	0	0	0	0	0	0	0	1	15883	963	34	2		2	THEM4	1	151861728	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	902863	151861728	97388893	81	6890											
TCHH	7062	broad.mit.edu	37	chr1	152081809	152081809	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgctccagctgttcttccTctgggaaatgcctgtcgcgc	4	12	10	15	3	2	0	0	0	2	0	6	1	4	1	3	1	2	3	3	1	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:152081809T>C	uc001ezp.2	-	2	3884	c.3884A>G	c.(3883-3885)GAG>GGG	p.E1295G	TCHH_uc009wne.1_Missense_Mutation_p.E1295G	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1295	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGTTCTTCCTCTGGGAAATG	0.552													19	95					0	0	0.008871	0	0		C	152081809	C	C	152081809	3	2	8	1	0	0	0	0	1	0	0	0	15725	1551	54	3	1951	3	TCHH	1	152081809	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	220081	152081809	97168812	82	6891											
FLG	2312	broad.mit.edu	37	chr1	152283466	152283466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatctcttgactgctccCgagaagatccatgatggttt	9	12	9	11	1	1	4	0	2	1	2	4	5	3	4	3	1	2	2	3	1	1	2	rs150251062	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:152283466C>T	uc001ezu.1	-	3	3932	c.3896G>A	c.(3895-3897)CGG>CAG	p.R1299Q	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1299	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			tgactgctcccgagaagatcc	0.378									Ichthyosis				39	184					0	0	0.00623	0	0		T	152283466	T	T	152283466	3	4	8	1	0	0	0	0	1	0	0	0	5936	652	23	1	8293	1	FLG	1	152283466	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	201657	152283466	96967155	83	6892											
S100A14	57402	broad.mit.edu	37	chr1	153588311	153588311	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaatgagcccacctctgcGttggctgaccgacactgtcc	7	9	11	14	2	1	3	0	3	1	0	2	4	2	3	4	1	2	2	4	1	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:153588311G>A	uc001fce.2	-	2	122	c.24C>T	c.(22-24)AAC>AAT	p.N8N	S100A16_uc001fcd.1_5'Flank	NM_020672	NP_065723	Q9HCY8	S10AE_HUMAN	S100 calcium binding protein A14	8					calcium ion homeostasis|defense response to bacterium|positive regulation of granulocyte chemotaxis|positive regulation of monocyte chemotaxis|response to lipopolysaccharide|toll-like receptor 4 signaling pathway	cell junction|microtubule cytoskeleton|perinuclear region of cytoplasm	calcium ion binding|chemokine receptor binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			CCACCTCTGCGTTGGCTGACC	0.577													5	31					0	0	0.000602	0	0		A	153588311	A	A	153588311	2	1	8	1	0	0	0	0	0	0	0	1	13801	1136	40	1		1	S100A14	1	153588311	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1304845	153588311	95662310	84	6893											
CRTC2	200186	broad.mit.edu	37	chr1	153924897	153924897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagggacttcacaggacCgaggtcgggaagaggatgag	11	6	16	8	2	1	2	1	1	0	1	3	7	2	6	2	5	0	0	2	5	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:153924897C>T	uc010ped.1	-	9	798	c.728G>A	c.(727-729)CGG>CAG	p.R243Q	CRTC2_uc001fde.3_RNA|CRTC2_uc001fdf.3_5'UTR	NM_181715	NP_859066	Q53ET0	CRTC2_HUMAN	CREB regulated transcription coactivator 2	243					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)	2	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TTCACAGGACCGAGGTCGGGA	0.532													20	80					0	0	0.008871	0	0		T	153924897	T	T	153924897	3	4	8	1	0	0	0	0	1	0	0	0	3903	652	23	1	1377	1	CRTC2	1	153924897	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	336586	153924897	95325724	85	6894											
AQP10	89872	broad.mit.edu	37	chr1	154296925	154296925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcagagttggaaactcctgCctcagctcagatgctggagt	9	10	11	11	0	3	2	3	0	0	2	4	4	4	4	2	2	4	3	2	2	1	1	rs141365858	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:154296925C>T	uc001feu.2	+	6	915	c.875C>T	c.(874-876)GCC>GTC	p.A292V	AQP10_uc001fev.2_3'UTR|ATP8B2_uc001few.2_5'Flank	NM_080429	NP_536354	Q96PS8	AQP10_HUMAN	aquaporin 10	292	Extracellular (Potential).				response to toxin|transmembrane transport|water transport	integral to membrane|plasma membrane	transporter activity			central_nervous_system(1)	1	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GAAACTCCTGCCTCAGCTCAG	0.562											OREG0013832	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	51					0	0	0.00245	0	0		T	154296925	T	T	154296925	3	4	8	1	0	0	0	0	1	0	0	0	822	739	26	2	897	2	AQP10	1	154296925	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	372028	154296925	94953696	86	6895											
CHRNB2	1141	broad.mit.edu	37	chr1	154544182	154544182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcccacctccctcgacgtgCcgctcgtcggcaagtacctc	5	8	8	20	5	0	0	0	0	0	0	6	1	2	0	5	1	2	3	5	1	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:154544182C>T	uc001ffg.2	+	5	1147	c.883C>T	c.(883-885)CCG>TCG	p.P295S		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	295					B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	CCTCGACGTGCCGCTCGTCGG	0.607													14	70					0	0	0.001855	0	0		T	154544182	T	T	154544182	3	4	8	1	0	0	0	0	1	0	0	0	3394	739	26	2	901	2	CHRNB2	1	154544182	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	247257	154544182	94706439	87	6896											
ZBTB7B	51043	broad.mit.edu	37	chr1	154988858	154988858	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacctgtgccacaaggctttCgccaaggaggaccacctgca	10	6	10	15	1	0	0	0	0	0	0	1	2	0	2	5	3	2	2	5	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:154988858C>T	uc001fgk.3	+	4	1475	c.1317C>T	c.(1315-1317)TTC>TTT	p.F439F	ZBTB7B_uc009wpa.2_Silent_p.F439F|ZBTB7B_uc001fgj.3_Silent_p.F473F|ZBTB7B_uc010peq.1_Silent_p.F473F|ZBTB7B_uc001fgl.3_Silent_p.F439F	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	439	C2H2-type 4; atypical.				cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			ACAAGGCTTTCGCCAAGGAGG	0.647													5	29					0	0	0.000602	0	0		T	154988858	T	T	154988858	2	4	8	1	0	0	0	0	0	0	0	1	17579	883	31	1		1	ZBTB7B	1	154988858	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	444676	154988858	94261763	88	6897											
CLK2	1196	broad.mit.edu	37	chr1	155239459	155239459	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcgtctgtagctgccacaGtatcgccggtcatacaccct	7	11	9	14	3	2	0	1	0	1	0	3	0	2	0	3	1	4	3	3	1	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:155239459G>A	uc001fjy.2	-	3	509	c.219C>T	c.(217-219)TAC>TAT	p.Y73Y	RAG1AP1_uc010pey.1_Intron|CLK2_uc001fjw.2_Silent_p.Y73Y|CLK2_uc001fjx.2_5'UTR|CLK2_uc009wqm.2_Silent_p.Y73Y	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	73						nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			AGCTGCCACAGTATCGCCGGT	0.488								Other_conserved_DNA_damage_response_genes					8	65					0	0	0.010729	0	0		A	155239459	A	A	155239459	2	1	8	1	0	0	0	0	0	0	0	1	3540	1024	36	4		4	CLK2	1	155239459	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	250601	155239459	94011162	89	6898											
RUSC1	23623	broad.mit.edu	37	chr1	155292496	155292496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaggagccggtgccccaccGgacaatcacgtccttccacg	8	5	11	17	5	1	0	1	0	0	0	3	3	3	2	6	3	2	0	6	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:155292496G>A	uc001fkj.2	+	2	1161	c.932G>A	c.(931-933)CGG>CAG	p.R311Q	RAG1AP1_uc010pey.1_Intron|C1orf104_uc001fkh.1_5'Flank|C1orf104_uc001fki.2_Intron|RUSC1_uc001fkk.2_Missense_Mutation_p.R311Q|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_5'Flank|RUSC1_uc001fkl.2_5'Flank|RUSC1_uc001fkp.2_5'Flank|RUSC1_uc001fkq.2_5'Flank|RUSC1_uc010pgb.1_5'Flank|RUSC1_uc009wqp.1_5'Flank|RUSC1_uc001fkn.2_5'Flank|RUSC1_uc001fko.2_5'Flank|RUSC1_uc001fkr.2_5'Flank|RUSC1_uc001fks.2_5'Flank	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	311						cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			GTGCCCCACCGGACAATCACG	0.567													9	41					0	0	0.010729	0	0		A	155292496	A	A	155292496	3	1	8	1	0	0	0	0	1	0	0	0	13775	1116	39	1	934	1	RUSC1	1	155292496	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	53037	155292496	93958125	90	6899											
GON4L	54856	broad.mit.edu	37	chr1	155722380	155722380	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctccccactgccaatccTgcttaggaggaaaataagga	12	8	10	11	0	0	0	0	0	0	0	2	3	2	3	4	3	3	2	4	3	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:155722380T>C	uc001flz.2	-	30	5941	c.5844A>G	c.(5842-5844)GCA>GCG	p.A1948A	GON4L_uc001flx.1_5'Flank|GON4L_uc009wrg.1_Splice_Site|GON4L_uc001fly.1_Splice_Site_p.G1948_splice|GON4L_uc009wrh.1_Splice_Site_p.G1948_splice|GON4L_uc001fma.1_Silent_p.A1948A	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	1948					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					CTGCCAATCCTGCTTAGGAGG	0.502													4	7					0	0	0.009096	0	0		C	155722380	C	C	155722380	2	2	8	1	0	0	0	0	0	0	0	1	6587	1594	55	3		3	GON4L	1	155722380	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	429884	155722380	93528241	91	6900											
VHLL	391104	broad.mit.edu	37	chr1	156268818	156268818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgattgcagatgatgatccGggagagctcgcgtgagttca	9	10	15	7	3	1	6	1	4	0	2	3	7	2	6	1	1	2	3	1	1	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:156268818G>A	uc001fok.2	-	1	611	c.163C>T	c.(163-165)CGG>TGG	p.R55W		NM_001004319	NP_001004319	Q6RSH7	VHLL_HUMAN	von Hippel-Lindau tumor suppressor-like	55	Beta-domain.				protein ubiquitination	nucleus				ovary(1)	1	Hepatocellular(266;0.158)					ATGATGATCCGGGAGAGCTCG	0.612													11	44					0	0	0.008291	0	0		A	156268818	A	A	156268818	3	1	8	1	0	0	0	0	1	0	0	0	17189	1115	39	1	260	1	VHLL	1	156268818	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	546438	156268818	92981803	92	6901											
NTRK1	4914	broad.mit.edu	37	chr1	156844776	156844776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgctcaacaaatgtggaCggagaaacaagtttgggatc	13	10	12	6	1	1	1	1	0	0	1	2	4	1	3	0	3	3	2	0	3	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:156844776C>T	uc001fqh.1	+	11	1386	c.1330C>T	c.(1330-1332)CGG>TGG	p.R444W	NTRK1_uc001fqf.1_Missense_Mutation_p.R408W|NTRK1_uc009wsi.1_Missense_Mutation_p.R143W|NTRK1_uc001fqi.1_Missense_Mutation_p.R438W|NTRK1_uc009wsk.1_Missense_Mutation_p.R438W	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	444	Cytoplasmic (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	CAAATGTGGACGGAGAAACAA	0.567			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			16	76					0	0	0.006122	0	0		T	156844776	T	T	156844776	3	4	8	1	0	0	0	0	1	0	0	0	10725	527	19	1	1502	1	NTRK1	1	156844776	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	575958	156844776	92405845	93	6902											
ARHGEF11	9826	broad.mit.edu	37	chr1	156925516	156925516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctttgagaagagcttttggGcttcccaatgtatttgagga	9	14	12	6	0	0	3	0	2	0	2	1	5	1	4	1	2	1	4	1	2	3	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:156925516G>A	uc001fqo.2	-	19	2667	c.1627C>T	c.(1627-1629)CCC>TCC	p.P543S	ARHGEF11_uc001fqn.2_Missense_Mutation_p.P583S|ARHGEF11_uc001fqp.1_Missense_Mutation_p.P72S	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	543					actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GAGCTTTTGGGCTTCCCAATG	0.498													24	165					0	0	0.007291	0	0		A	156925516	A	A	156925516	3	1	8	1	0	0	0	0	1	0	0	0	896	1203	42	2	3029	2	ARHGEF11	1	156925516	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	80740	156925516	92325105	94	6903											
FCRL5	83416	broad.mit.edu	37	chr1	157494244	157494244	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgataaaaccagtacaggatTggggaggagcctctcagggc	12	7	14	8	0	1	1	1	1	1	0	2	4	1	4	2	5	3	1	2	5	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:157494244T>C	uc001fqu.2	-	10	2222	c.2064A>G	c.(2062-2064)CCA>CCG	p.P688P	FCRL5_uc009wsm.2_Silent_p.P688P|FCRL5_uc010phv.1_Silent_p.P688P|FCRL5_uc010phw.1_Silent_p.P603P	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	688	Extracellular (Potential).|Ig-like C2-type 7.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				AGTACAGGATTGGGGAGGAGC	0.577													12	50					0	0	0.00245	0	0		C	157494244	C	C	157494244	2	2	8	1	0	0	0	0	0	0	0	1	5812	1799	63	3		3	FCRL5	1	157494244	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	568728	157494244	91756377	95	6904											
FCRL3	115352	broad.mit.edu	37	chr1	157665164	157665164	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgctgggcccccaggcCattgtctgcatcacaggagt	7	9	12	13	0	2	0	1	0	1	0	2	1	2	1	3	3	2	2	3	3	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:157665164C>A	uc001frb.2	-	8	1658	c.1366G>T	c.(1366-1368)GGC>TGC	p.G456C	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.G456C|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Missense_Mutation_p.G182C|FCRL3_uc001frc.1_Missense_Mutation_p.G456C	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	456	Ig-like C2-type 5.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					GCCCCCAGGCCATTGTCTGCA	0.532													22	102					1.96895e-08	2.1553e-08	0.00278	1	0		A	157665164	A	A	157665164	3	1	8	1	0	0	0	0	1	0	0	0	5810	594	21	5	870	5	FCRL3	1	157665164	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	170920	157665164	91585457	96	6905											
FCRL3	115352	broad.mit.edu	37	chr1	157666067	157666067	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catattttctccttcaatcaGctgccctccggtgggccgga	6	12	9	14	2	3	0	2	0	1	0	5	1	4	1	4	3	2	1	4	3	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:157666067G>A	uc001frb.2	-	7	1187	c.895C>T	c.(895-897)CTG>TTG	p.L299L	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Silent_p.L299L|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Silent_p.L25L|FCRL3_uc001frc.1_Silent_p.L299L	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	299	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					CCTTCAATCAGCTGCCCTCCG	0.517													10	117					0	0	0.010729	0	0		A	157666067	A	A	157666067	2	1	8	1	0	0	0	0	0	0	0	1	5810	962	34	2		2	FCRL3	1	157666067	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	903	157666067	91584554	97	6906											
ATP1A2	477	broad.mit.edu	37	chr1	160094924	160094924	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgcactccttcctcctcAggtggataactcatccttaa	9	13	5	14	0	2	0	2	0	0	0	6	1	6	1	4	2	2	1	4	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:160094924A>G	uc001fvc.2	+	7	763	c.631_splice	c.e7-2	p.V211_splice	ATP1A2_uc001fvb.2_Splice_Site_p.V211_splice|ATP1A2_uc010piz.1_Splice_Site_p.V56_splice|ATP1A2_uc001fvd.2_5'Flank	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein						ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CTTCCTCCTCAGGTGGATAAC	0.542													4	27					0	0	0.001168	0	0		G	160094924	G	G	160094924	5	3	8	1	0	0	0	0	0	0	1	0	1130	202	7	3	655	3	ATP1A2	1	160094924	Splice_Site	SNP	A	TCGA-BR-4201-01A-01D-1126-08	2428857	160094924	89155697	98	6907											
ATP1A4	480	broad.mit.edu	37	chr1	160156152	160156152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctcatccgtcagcaccCggatggtgaggctcccctgg	6	8	11	16	2	2	1	2	1	0	0	5	2	5	2	5	4	1	2	5	4	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:160156152C>T	uc001fve.3	+	21	3535	c.3056C>T	c.(3055-3057)CCG>CTG	p.P1019L	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Missense_Mutation_p.P522L|ATP1A4_uc001fvh.2_Missense_Mutation_p.P155L	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	1019	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CGTCAGCACCCGGATGGTGAG	0.562													20	96					0	0	0.008871	0	0		T	160156152	T	T	160156152	3	4	8	1	0	0	0	0	1	0	0	0	1132	652	23	1	3138	1	ATP1A4	1	160156152	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	61228	160156152	89094469	99	6908											
SLAMF6	114836	broad.mit.edu	37	chr1	160465878	160465878	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcagagtgtaactggacaGctttgcagaggtctttgtgg	8	12	13	8	0	2	2	1	0	1	2	2	3	2	3	1	3	3	3	1	3	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:160465878G>T	uc001fwe.1	-	2	415	c.355C>A	c.(355-357)CTG>ATG	p.L119M	SLAMF6_uc001fwd.1_Missense_Mutation_p.L119M|SLAMF6_uc010pjh.1_Missense_Mutation_p.L70M|SLAMF6_uc010pji.1_Intron|SLAMF6_uc010pjj.1_Intron|SLAMF6_uc009wtm.1_Missense_Mutation_p.L70M	NM_052931	NP_443163	Q96DU3	SLAF6_HUMAN	activating NK receptor precursor	119	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	all_cancers(52;1.05e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0923)			TAACTGGACAGCTTTGCAGAG	0.418													14	81					6.94344e-10	7.66567e-10	0.006122	1	0		T	160465878	T	T	160465878	3	4	8	1	0	0	0	0	1	0	0	0	14393	962	34	5	671	5	SLAMF6	1	160465878	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	309726	160465878	88784743	100	6909											
NDUFS2	4720	broad.mit.edu	37	chr1	161183198	161183198	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagtcactgattcatcactTtaagttgtatactgagggct	10	14	10	7	0	3	2	3	2	0	0	3	3	3	3	0	2	1	3	0	2	3	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:161183198T>G	uc001fyv.2	+	12	1593	c.1145T>G	c.(1144-1146)TTT>TGT	p.F382C	NDUFS2_uc001fyw.2_Missense_Mutation_p.F382C|NDUFS2_uc010pkj.1_Missense_Mutation_p.F331C|NDUFS2_uc001fyx.2_Missense_Mutation_p.F356C|FCER1G_uc001fyz.1_5'Flank|FCER1G_uc001fza.1_5'Flank	NM_004550	NP_004541	O75306	NDUS2_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 2	382					mitochondrial electron transport, NADH to ubiquinone|response to oxidative stress|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity|protein binding|quinone binding			skin(1)	1	all_cancers(52;1.16e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		NADH(DB00157)	ATTCATCACTTTAAGTTGTAT	0.483													3	17					0	0	0.004672	0	0		G	161183198	G	G	161183198	3	3	8	1	0	0	0	0	1	0	0	0	10311	1841	64	5	1187	5	NDUFS2	1	161183198	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	717320	161183198	88067423	101	6910											
FMO3	2328	broad.mit.edu	37	chr1	171076863	171076863	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgattttgcaactactggCcagtgggatgttaccactga	9	12	10	10	0	0	2	0	2	0	0	0	3	0	3	3	2	4	2	3	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:171076863C>T	uc001ghi.2	+	4	480	c.369C>T	c.(367-369)GGC>GGT	p.G123G	FMO3_uc001ghh.2_Silent_p.G123G|FMO3_uc010pmb.1_Silent_p.G103G|FMO3_uc010pmc.1_Silent_p.G60G	NM_001002294	NP_001002294	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	123					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CAACTACTGGCCAGTGGGATG	0.393													23	62					0	0	0.00278	0	0		T	171076863	T	T	171076863	2	4	8	1	0	0	0	0	0	0	0	1	5970	726	26	2		2	FMO3	1	171076863	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	9893665	171076863	78173758	102	6911											
RC3H1	149041	broad.mit.edu	37	chr1	173930312	173930312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgggccattatttcctttCgtcggcgatgtagttcatct	5	16	10	10	3	2	0	1	0	1	0	5	1	3	0	2	2	0	3	2	2	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:173930312C>T	uc001gju.3	-	12	2360	c.2273G>A	c.(2272-2274)CGA>CAA	p.R758Q	RC3H1_uc010pms.1_Missense_Mutation_p.R758Q|RC3H1_uc001gjv.2_Missense_Mutation_p.R758Q|RC3H1_uc010pmt.1_Missense_Mutation_p.R758Q	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	758	Pro-rich.				cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TATTTCCTTTCGTCGGCGATG	0.453													22	63					0	0	0.00278	0	0		T	173930312	T	T	173930312	3	4	8	1	0	0	0	0	1	0	0	0	13191	884	31	1	1160	1	RC3H1	1	173930312	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2853449	173930312	75320309	103	6912											
GPR52	9293	broad.mit.edu	37	chr1	174417414	174417414	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgacatttctgatcatTgctgggaatctaacagttat	10	16	8	7	0	3	2	1	2	2	0	3	3	3	3	0	1	3	3	0	1	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:174417414T>C	uc001gka.1	+	1	203	c.165T>C	c.(163-165)ATT>ATC	p.I55I	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	55	Helical; Name=1; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						TTCTGATCATTGCTGGGAATC	0.438													18	90					0	0	0.00499	0	0		C	174417414	C	C	174417414	2	2	8	1	0	0	0	0	0	0	0	1	6713	1800	63	3		3	GPR52	1	174417414	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	487102	174417414	74833207	104	6913											
PAPPA2	60676	broad.mit.edu	37	chr1	176671867	176671867	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtggagatgggaaggtgTcagagtgagtattttgtgtg	9	14	17	1	0	1	3	1	1	0	2	1	5	1	4	0	3	0	1	0	3	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:176671867T>C	uc001gkz.2	+	9	4525	c.3361T>C	c.(3361-3363)TCA>CCA	p.S1121P	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1121					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TGGGAAGGTGTCAGAGTGAGT	0.318													6	40					0	0	0.001984	0	0		C	176671867	C	C	176671867	3	2	8	1	0	0	0	0	1	0	0	0	11452	1667	58	3	3444	3	PAPPA2	1	176671867	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2254453	176671867	72578754	105	6914											
LHX4	89884	broad.mit.edu	37	chr1	180235536	180235536	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctgacaggcgcttcggCacaaaatgcacggcctgcca	9	6	11	15	3	0	1	0	1	0	0	1	1	0	1	3	3	3	3	3	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:180235536C>T	uc001goe.1	+	3	481	c.258C>T	c.(256-258)GGC>GGT	p.G86G		NM_033343	NP_203129	Q969G2	LHX4_HUMAN	LIM homeobox protein 4	86	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GGCGCTTCGGCACAAAATGCA	0.607													5	28					0	0	0.001168	0	0		T	180235536	T	T	180235536	2	4	8	1	0	0	0	0	0	0	0	1	8789	697	25	2		2	LHX4	1	180235536	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3563669	180235536	69015085	106	6915											
CACNA1E	777	broad.mit.edu	37	chr1	181706764	181706764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggcggcagaggaccccGtcctgaccaactcggagcgc	7	4	13	17	4	0	2	0	1	0	1	2	4	1	4	5	4	2	1	5	4	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:181706764G>A	uc001gow.2	+	23	3691	c.3526G>A	c.(3526-3528)GTC>ATC	p.V1176I	CACNA1E_uc009wxs.2_Missense_Mutation_p.V1064I|CACNA1E_uc001gox.1_Missense_Mutation_p.V402I|CACNA1E_uc009wxt.2_Missense_Mutation_p.V402I	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1176	Extracellular (Potential).|III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						AGAGGACCCCGTCCTGACCAA	0.617													18	58					0	0	0.012319	0	0		A	181706764	A	A	181706764	3	1	8	1	0	0	0	0	1	0	0	0	2545	1145	40	1	3616	1	CACNA1E	1	181706764	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1471228	181706764	67543857	107	6916											
CACNA1E	777	broad.mit.edu	37	chr1	181731743	181731743	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacctggaatatctttgacTtcatcaccgtgattggcagt	10	13	8	10	1	3	2	2	2	1	0	3	3	3	3	2	2	0	1	2	2	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:181731743T>C	uc001gow.2	+	33	4804	c.4639T>C	c.(4639-4641)TTC>CTC	p.F1547L	CACNA1E_uc009wxs.2_Missense_Mutation_p.F1435L|CACNA1E_uc001gox.1_Missense_Mutation_p.F773L|CACNA1E_uc009wxt.2_Missense_Mutation_p.F773L	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1547	Helical; Name=S3 of repeat IV.|IV.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TATCTTTGACTTCATCACCGT	0.398													11	39					0	0	0.001855	0	0		C	181731743	C	C	181731743	3	2	8	1	0	0	0	0	1	0	0	0	2545	1609	56	3	4769	3	CACNA1E	1	181731743	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	24979	181731743	67518878	108	6917											
ZNF648	127665	broad.mit.edu	37	chr1	182025786	182025786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcgcgaaggccacgcCgcagtcagcgcacttgaaag	9	4	15	13	5	1	1	1	1	0	0	1	2	1	1	2	2	2	3	2	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:182025786C>T	uc001goz.2	-	2	1568	c.1360G>A	c.(1360-1362)GGC>AGC	p.G454S		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	454	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAGGCCACGCCGCAGTCAGCG	0.677													4	10					0	0	0.009096	0	0		T	182025786	T	T	182025786	3	4	8	1	0	0	0	0	1	0	0	0	18088	652	23	1	350	1	ZNF648	1	182025786	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	294043	182025786	67224835	109	6918											
APOBEC4	403314	broad.mit.edu	37	chr1	183617241	183617241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatggcattgatttcatatgCgttgtgcctgtcagccagtg	7	15	11	8	1	2	1	2	1	0	0	2	1	2	1	2	1	3	2	2	1	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:183617241C>T	uc001gqn.2	-	2	948	c.676G>A	c.(676-678)GCA>ACA	p.A226T	RGL1_uc010pof.1_Intron|RGL1_uc001gqm.2_Intron|RGL1_uc010pog.1_Intron|RGL1_uc010poh.1_Intron	NM_203454	NP_982279	Q8WW27	ABEC4_HUMAN	apolipoprotein B	226					mRNA processing		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0						ATTTCATATGCGTTGTGCCTG	0.433													16	93					0	0	0.00499	0	0		T	183617241	T	T	183617241	3	4	8	1	0	0	0	0	1	0	0	0	796	768	27	1	431	1	APOBEC4	1	183617241	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1591455	183617241	65633380	110	6919											
IVNS1ABP	10625	broad.mit.edu	37	chr1	185270128	185270128	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctatgagtttgccattcaTctctgctgttcccagaccag	8	13	8	12	0	2	2	1	1	1	1	4	2	3	2	3	0	3	4	3	0	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:185270128T>C	uc001grl.2	-	10	1719	c.1096A>G	c.(1096-1098)ATG>GTG	p.M366V	IVNS1ABP_uc001gri.2_Missense_Mutation_p.M26V|IVNS1ABP_uc001grj.2_Missense_Mutation_p.M26V|IVNS1ABP_uc009wyj.2_Missense_Mutation_p.M148V|IVNS1ABP_uc009wyk.2_RNA|IVNS1ABP_uc001grm.2_Missense_Mutation_p.M26V	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	366	Sufficient for AHR interaction and signaling.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						TTGCCATTCATCTCTGCTGTT	0.433													12	58					0	0	0.003163	0	0		C	185270128	C	C	185270128	3	2	8	1	0	0	0	0	1	0	0	0	7946	1435	50	3	856	3	IVNS1ABP	1	185270128	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1652887	185270128	63980493	111	6920											
HMCN1	83872	broad.mit.edu	37	chr1	185931751	185931751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatcccaaaccaaagattGcctggaccgttaacgatatg	13	10	8	10	2	0	1	0	0	0	1	1	3	1	2	4	1	3	2	4	1	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:185931751G>A	uc001grq.1	+	12	2159	c.1930G>A	c.(1930-1932)GCC>ACC	p.A644T	HMCN1_uc001grr.1_5'UTR	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	644	Ig-like C2-type 3.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						ACCAAAGATTGCCTGGACCGT	0.428													21	135					0	0	0.008871	0	0		A	185931751	A	A	185931751	3	1	8	1	0	0	0	0	1	0	0	0	7236	1319	46	2	1976	2	HMCN1	1	185931751	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	661623	185931751	63318870	112	6921											
HMCN1	83872	broad.mit.edu	37	chr1	186092202	186092202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacatggcataaagatgggCgtgcaattgtggaatctatc	12	12	11	6	1	1	1	0	0	1	1	2	2	1	2	0	3	2	2	0	3	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:186092202C>T	uc001grq.1	+	81	12578	c.12349C>T	c.(12349-12351)CGT>TGT	p.R4117C		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4117	Ig-like C2-type 40.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TAAAGATGGGCGTGCAATTGT	0.512													12	31					0	0	0.00245	0	0		T	186092202	T	T	186092202	3	4	8	1	0	0	0	0	1	0	0	0	7236	768	27	1	12671	1	HMCN1	1	186092202	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	160451	186092202	63158419	113	6922											
HMCN1	83872	broad.mit.edu	37	chr1	186113746	186113746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccagacagagaacaagggGctgctccgaccctgtgcccc	9	5	12	15	1	0	2	0	0	0	2	1	4	1	2	5	2	4	2	5	2	2	0	rs149329415		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:186113746G>A	uc001grq.1	+	91	14406	c.14177G>A	c.(14176-14178)GGC>GAC	p.G4726D	HMCN1_uc001grs.1_Missense_Mutation_p.G295D	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4726	TSP type-1 4.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AGAACAAGGGGCTGCTCCGAC	0.542													15	69					0	0	0.003163	0	0		A	186113746	A	A	186113746	3	1	8	1	0	0	0	0	1	0	0	0	7236	1203	42	2	14539	2	HMCN1	1	186113746	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	21544	186113746	63136875	114	6923											
PRG4	10216	broad.mit.edu	37	chr1	186276755	186276755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccgagaagctcgcacccaCcacccctgagaagcccgcac	10	2	8	21	3	0	2	0	1	0	2	1	4	0	2	7	0	2	3	7	0	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:186276755C>T	uc001gru.3	+	7	1955	c.1904C>T	c.(1903-1905)ACC>ATC	p.T635I	PRG4_uc001grt.3_Missense_Mutation_p.T594I|PRG4_uc009wyl.2_Missense_Mutation_p.T542I|PRG4_uc009wym.2_Missense_Mutation_p.T501I|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	635	59 X 8 AA repeats of K-X-P-X-P-T-T-X.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CTCGCACCCACCACCCCTGAG	0.682													6	18					0	0	0.001984	0	0		T	186276755	T	T	186276755	3	4	8	1	0	0	0	0	1	0	0	0	12503	507	18	4	1926	4	PRG4	1	186276755	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	163009	186276755	62973866	115	6924											
TPR	7175	broad.mit.edu	37	chr1	186328983	186328983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctacagctttctgtgcaCgttcatattcctcacgctgg	6	15	8	12	2	3	0	2	0	1	0	4	0	4	0	1	1	4	5	1	1	2	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:186328983C>T	uc001grv.2	-	12	1634	c.1337G>A	c.(1336-1338)CGT>CAT	p.R446H	TPR_uc010pop.1_Missense_Mutation_p.R522H	NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	446	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		TTTCTGTGCACGTTCATATTC	0.368			T	NTRK1	papillary thyroid								16	59					0	0	0.004007	0	0		T	186328983	T	T	186328983	3	4	8	1	0	0	0	0	1	0	0	0	16442	536	19	1	5914	1	TPR	1	186328983	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	52228	186328983	62921638	116	6925											
FAM5C	339479	broad.mit.edu	37	chr1	190129847	190129847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttatgacacctcttgctaaGgctaaaaagcttgtgtacaa	13	13	7	8	0	1	1	0	1	1	0	1	1	1	1	1	1	3	4	1	1	7	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:190129847G>A	uc001gse.1	-	7	1367	c.1135C>T	c.(1135-1137)CTT>TTT	p.L379F	FAM5C_uc010pot.1_Missense_Mutation_p.L277F	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	379						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CTCTTGCTAAGGCTAAAAAGC	0.393													19	63					0	0	0.012319	0	0		A	190129847	A	A	190129847	3	1	8	1	0	0	0	0	1	0	0	0	5608	1000	35	4	1173	4	FAM5C	1	190129847	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3800864	190129847	59120774	117	6926											
FAM5C	339479	broad.mit.edu	37	chr1	190129967	190129967	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaaatgcattatagtagAtgtgttgaggaaataattca	16	12	8	5	0	1	2	1	1	0	1	1	3	1	3	1	1	1	3	1	1	6	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:190129967A>G	uc001gse.1	-	7	1247	c.1015T>C	c.(1015-1017)TCT>CCT	p.S339P	FAM5C_uc010pot.1_Missense_Mutation_p.S237P	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	339						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					ATTATAGTAGATGTGTTGAGG	0.308													20	94					0	0	0.008871	0	0		G	190129967	G	G	190129967	3	3	8	1	0	0	0	0	1	0	0	0	5608	333	12	3	1293	3	FAM5C	1	190129967	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	120	190129967	59120654	118	6927											
ASPM	259266	broad.mit.edu	37	chr1	197098315	197098315	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcatacaatgaaaagcatAccttgaattcggcatcttta	16	11	6	8	1	1	2	0	2	1	0	2	2	1	2	1	1	4	3	1	1	8	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:197098315A>G	uc001gtu.2	-	9	3017	c.2760_splice	c.e9+1	p.K920_splice	ASPM_uc001gtv.2_Splice_Site_p.K920_splice|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly						mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TGAAAAGCATACCTTGAATTC	0.299													11	59					0	0	0.013537	0	0		G	197098315	G	G	197098315	5	3	8	1	0	0	0	0	0	0	1	0	1057	405	14	3	7751	3	ASPM	1	197098315	Splice_Site	SNP	A	TCGA-BR-4201-01A-01D-1126-08	6968348	197098315	52152306	119	6928											
DENND1B	163486	broad.mit.edu	37	chr1	197564380	197564380	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaggatccaaacaaagcAgcctgtgctctaagaaaggc	14	7	10	10	0	1	1	0	0	1	1	2	2	2	2	2	2	4	3	2	2	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:197564380A>C	uc001guf.3	-	14	1343	c.1005T>G	c.(1003-1005)GCT>GCG	p.A335A	DENND1B_uc010ppe.1_Silent_p.A315A|DENND1B_uc010ppf.1_RNA|DENND1B_uc001gue.3_Silent_p.A305A	NM_144977	NP_659414	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 2	335	dDENN.					clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						CAAACAAAGCAGCCTGTGCTC	0.428													35	200					0	0	0.00874	0	0		C	197564380	C	C	197564380	2	2	8	1	0	0	0	0	0	0	0	1	4433	175	7	5		5	DENND1B	1	197564380	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	466065	197564380	51686241	120	6929											
CACNA1S	779	broad.mit.edu	37	chr1	201023674	201023674	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcaatacagtcccccgcTggaggccaggaaagtctgtg	10	6	13	12	1	1	0	0	0	1	0	2	2	2	2	3	4	1	2	3	4	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:201023674T>G	uc001gvv.2	-	29	3852	c.3625A>C	c.(3625-3627)AGC>CGC	p.S1209R		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1209	IV.|Extracellular (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	AGTCCCCCGCTGGAGGCCAGG	0.403													3	15					0	0	0.009096	0	0		G	201023674	G	G	201023674	3	3	8	1	0	0	0	0	1	0	0	0	2550	1580	55	5	2060	5	CACNA1S	1	201023674	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	3459294	201023674	48226947	121	6930											
PPP1R12B	4660	broad.mit.edu	37	chr1	202465946	202465946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctgaagaggtcaaagaaaCgtgggtaagtgacaagccag	15	6	13	7	1	2	4	1	2	1	2	2	4	2	4	1	2	2	1	1	2	5	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:202465946C>T	uc001gya.1	+	18	2630	c.2486C>T	c.(2485-2487)ACG>ATG	p.T829M	PPP1R12B_uc001gxz.1_Missense_Mutation_p.T829M|PPP1R12B_uc001gyb.1_Missense_Mutation_p.T55M|PPP1R12B_uc001gyc.1_Missense_Mutation_p.T55M	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	829					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			GTCAAAGAAACGTGGGTAAGT	0.403													18	66					0	0	0.006122	0	0		T	202465946	T	T	202465946	3	4	8	1	0	0	0	0	1	0	0	0	12377	536	19	1	2646	1	PPP1R12B	1	202465946	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1442272	202465946	46784675	122	6931											
TMEM183A	92703	broad.mit.edu	37	chr1	202985125	202985125	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttccctgcctttgcgtctgCgaccagagtcaatggagaag	8	10	11	12	2	2	2	1	0	1	2	3	4	3	2	3	1	3	0	3	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:202985125C>T	uc001gyu.1	+	5	623	c.565C>T	c.(565-567)CGA>TGA	p.R189*	TMEM183A_uc009xai.1_Nonsense_Mutation_p.R189*|TMEM183A_uc001gyv.1_RNA|TMEM183A_uc001gyw.1_Nonsense_Mutation_p.R188*|TMEM183A_uc001gyx.1_Nonsense_Mutation_p.R188*	NM_001079809	NP_001073277	Q8IXX5	T183A_HUMAN	transmembrane protein 183B	189						integral to membrane					0			BRCA - Breast invasive adenocarcinoma(75;0.18)			TTTGCGTCTGCGACCAGAGTC	0.502													19	83					0	0	0.00632	0	0		T	202985125	T	T	202985125	4	4	8	1	0	0	0	0	0	1	0	0	16127	760	27	1	583	1	TMEM183A	1	202985125	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	519179	202985125	46265496	123	6932											
FMOD	2331	broad.mit.edu	37	chr1	203316449	203316449	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattgccttggaggtagaggTtctccaggttggtgttgact	6	15	14	6	0	1	2	0	1	1	1	2	3	1	3	2	5	1	4	2	5	2	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:203316449T>C	uc001gzr.2	-	2	1086	c.950A>G	c.(949-951)AAC>AGC	p.N317S	FMOD_uc010pqi.1_RNA	NM_002023	NP_002014	Q06828	FMOD_HUMAN	fibromodulin precursor	317	LRR 10.				transforming growth factor beta receptor complex assembly	extracellular space|proteinaceous extracellular matrix				ovary(2)|breast(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.171)			GAGGTAGAGGTTCTCCAGGTT	0.532													6	88					0	0	0.001984	0	0		C	203316449	C	C	203316449	3	2	8	1	0	0	0	0	1	0	0	0	5973	1725	60	3	188	3	FMOD	1	203316449	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	331324	203316449	45934172	124	6933											
PIK3C2B	5287	broad.mit.edu	37	chr1	204400821	204400821	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagtgggaagaagggaagAgcagccgcaacttattgtgt	13	7	15	6	1	0	2	0	0	0	2	0	4	0	4	1	2	3	3	1	2	6	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:204400821A>C	uc001haw.2	-	29	4735	c.4256T>G	c.(4255-4257)CTC>CGC	p.L1419R	PIK3C2B_uc010pqv.1_Missense_Mutation_p.L1391R	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	1419	PX.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			AGAAGGGAAGAGCAGCCGCAA	0.542											OREG0014134	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	70					0	0	0.001855	0	0		C	204400821	C	C	204400821	3	2	8	1	0	0	0	0	1	0	0	0	11929	304	11	5	672	5	PIK3C2B	1	204400821	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1084372	204400821	44849800	125	6934											
PIK3C2B	5287	broad.mit.edu	37	chr1	204418318	204418318	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggctaaagcctcacctgcaGgatgacactgtctggctggt	8	9	13	11	0	2	1	1	1	1	0	2	2	2	2	2	4	2	3	2	4	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:204418318G>T	uc001haw.2	-	15	2820	c.2341C>A	c.(2341-2343)CTG>ATG	p.L781M	PIK3C2B_uc010pqv.1_Missense_Mutation_p.L781M	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	781					cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			CTCACCTGCAGGATGACACTG	0.552													5	9					1.23904e-05	1.33197e-05	0.000602	1	0		T	204418318	T	T	204418318	3	4	8	1	0	0	0	0	1	0	0	0	11929	991	35	5	2643	5	PIK3C2B	1	204418318	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	17497	204418318	44832303	126	6935											
SLC41A1	254428	broad.mit.edu	37	chr1	205766095	205766095	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccatcccagcaaagttgggGtctgagacagtcttgtccaa	10	9	11	11	0	2	1	0	1	2	1	4	2	4	1	3	2	1	2	3	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:205766095G>A	uc001hdh.1	-	8	1901	c.1029C>T	c.(1027-1029)GAC>GAT	p.D343D	SLC41A1_uc001hdg.1_5'Flank|uc001hdi.1_5'Flank	NM_173854	NP_776253	Q8IVJ1	S41A1_HUMAN	solute carrier family 41 member 1	343						integral to membrane|plasma membrane	magnesium ion transmembrane transporter activity			skin(2)	2	Breast(84;0.0799)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			CAAAGTTGGGGTCTGAGACAG	0.522													4	22					0	0	0.000602	0	0		A	205766095	A	A	205766095	2	1	8	1	0	0	0	0	0	0	0	1	14654	1252	44	4		4	SLC41A1	1	205766095	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1347777	205766095	43484526	127	6936											
SRGAP2	23380	broad.mit.edu	37	chr1	206611390	206611390	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtcctgaagctttacttccgGgggctggaacaccctctctt	6	12	10	13	1	1	1	0	1	1	0	4	2	3	2	3	3	3	2	3	3	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:206611390G>T	uc001hdy.2	+	13	1782	c.1449G>T	c.(1447-1449)CGG>CGT	p.R483R	SRGAP2_uc010prt.1_Silent_p.R406R|SRGAP2_uc001hdx.2_Silent_p.R483R|SRGAP2_uc010pru.1_Silent_p.R406R|SRGAP2_uc010prv.1_Silent_p.R407R	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	570	Rho-GAP.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					TTTACTTCCGGGGGCTGGAAC	0.552													10	34					9.70103e-10	1.0696e-09	0.008291	1	0		T	206611390	T	T	206611390	2	4	8	1	0	0	0	0	0	0	0	1	15171	1219	43	5		5	SRGAP2	1	206611390	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	845295	206611390	42639231	128	6937											
CD34	947	broad.mit.edu	37	chr1	208061172	208061172	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgttttcctgagcccctcGgttcacactggcctttccct	3	13	7	18	2	1	1	1	1	0	0	4	1	3	1	6	2	1	2	6	2	0	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:208061172G>A	uc001hgw.1	-	8	1327	c.1069C>T	c.(1069-1071)CGA>TGA	p.R357*	CD34_uc001hgv.1_Nonsense_Mutation_p.R199*|CD34_uc001hgx.1_3'UTR|CD34_uc010psj.1_Nonsense_Mutation_p.R222*	NM_001025109	NP_001020280	P28906	CD34_HUMAN	CD34 antigen isoform a	357	Cytoplasmic (Potential).				cell-cell adhesion|leukocyte migration|regulation of immune response	integral to membrane	carbohydrate binding			ovary(1)	1						TGAGCCCCTCGGTTCACACTG	0.592													4	39					0	0	0.000602	0	0		A	208061172	A	A	208061172	4	1	8	1	0	0	0	0	0	1	0	0	3009	1124	39	1	92	1	CD34	1	208061172	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1449782	208061172	41189449	129	6938											
SERTAD4	56256	broad.mit.edu	37	chr1	210411408	210411408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgggaggctgacagctacGgaggcccaagccccccaggg	9	4	15	13	1	0	1	0	1	0	0	0	3	0	3	4	5	3	2	4	5	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:210411408G>A	uc001hhy.2	+	2	282	c.103G>A	c.(103-105)GGA>AGA	p.G35R	SERTAD4_uc009xcw.2_Missense_Mutation_p.G35R	NM_019605	NP_062551	Q9NUC0	SRTD4_HUMAN	SERTA domain containing 4	35							protein binding			ovary(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0237)|all cancers(67;0.127)		TGACAGCTACGGAGGCCCAAG	0.602													21	80					0	0	0.010504	0	0		A	210411408	A	A	210411408	3	1	8	1	0	0	0	0	1	0	0	0	14148	1117	39	1	105	1	SERTAD4	1	210411408	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2350236	210411408	38839213	130	6939											
TRAF5	7188	broad.mit.edu	37	chr1	211546014	211546014	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgttcttgaaagtggcCgtggacttaactgacctgga	9	12	11	9	1	2	2	0	2	2	0	2	4	2	4	2	3	1	1	2	3	2	3	rs147270768	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:211546014C>T	uc001hih.2	+	11	1704	c.1644C>T	c.(1642-1644)GCC>GCT	p.A548A	TRAF5_uc001hii.2_Silent_p.A548A|TRAF5_uc010psx.1_Silent_p.A559A|TRAF5_uc010psy.1_Silent_p.A442A|TRAF5_uc001hij.2_Silent_p.A548A	NM_004619	NP_004610	O00463	TRAF5_HUMAN	TNF receptor-associated factor 5	548	MATH.				apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis	CD40 receptor complex|centrosome|internal side of plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|breast(2)|ovary(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00946)|all cancers(67;0.0808)|Epithelial(68;0.144)		TGAAAGTGGCCGTGGACTTAA	0.468													12	54					0	0	0.013537	0	0		T	211546014	T	T	211546014	2	4	8	1	0	0	0	0	0	0	0	1	16470	639	23	1		1	TRAF5	1	211546014	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1134606	211546014	37704607	131	6940											
NEK2	4751	broad.mit.edu	37	chr1	211843642	211843642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttaagtttaacatcctcGtaataatttcattcaattca	13	17	2	9	1	3	0	3	0	0	0	5	0	4	0	2	0	1	2	2	0	5	9			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:211843642G>A	uc001hir.1	-	5	892	c.746C>T	c.(745-747)ACG>ATG	p.T249M	NEK2_uc001hiq.1_Missense_Mutation_p.T249M|NEK2_uc001his.3_Missense_Mutation_p.T249M|NEK2_uc001hit.1_RNA	NM_002497	NP_002488	P51955	NEK2_HUMAN	NIMA-related kinase 2	249	Protein kinase.				cell division|centrosome separation|G2/M transition of mitotic cell cycle|meiosis|protein autophosphorylation|regulation of mitosis	centrosome|condensed chromosome kinetochore|cytosol|nucleolus	ATP binding|metal ion binding|protein binding|protein phosphatase binding|protein serine/threonine kinase activity			breast(2)|stomach(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.00203)|all cancers(67;0.0339)|Epithelial(68;0.0546)		TAACATCCTCGTAATAATTTC	0.353													22	114					0	0	0.00333	0	0		A	211843642	A	A	211843642	3	1	8	1	0	0	0	0	1	0	0	0	10343	1145	40	1	607	1	NEK2	1	211843642	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	297628	211843642	37406979	132	6941											
TMEM206	55248	broad.mit.edu	37	chr1	212560431	212560431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgctgctggaggcggactCgctgtccaggcctgacaaca	8	7	14	12	2	0	1	0	1	0	0	2	4	1	3	2	4	3	3	2	4	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:212560431C>T	uc001hjc.3	-	3	313	c.145G>A	c.(145-147)GAG>AAG	p.E49K	TMEM206_uc010pte.1_Missense_Mutation_p.E110K	NM_018252	NP_060722	Q9H813	TM206_HUMAN	transmembrane protein 206	49	Cytoplasmic (Potential).					integral to membrane				breast(1)	1				all cancers(67;0.012)|OV - Ovarian serous cystadenocarcinoma(81;0.0121)|GBM - Glioblastoma multiforme(131;0.0377)|Epithelial(68;0.148)		GAGGCGGACTCGCTGTCCAGG	0.587													15	41					0	0	0.003163	0	0		T	212560431	T	T	212560431	3	4	8	1	0	0	0	0	1	0	0	0	16156	893	31	1	931	1	TMEM206	1	212560431	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	716789	212560431	36690190	133	6942											
CENPF	1063	broad.mit.edu	37	chr1	214792011	214792011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaaaatttttacaactcCactaacaccaagtcaatatt	19	11	1	10	0	1	0	1	0	0	0	2	0	2	0	2	0	3	0	2	0	9	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:214792011C>T	uc001hkm.2	+	4	629	c.455C>T	c.(454-456)CCA>CTA	p.P152L		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	152	Interaction with SNAP25 and required for localization to the cytoplasm (By similarity).|Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TTTACAACTCCACTAACACCA	0.353													12	45					0	0	0.001855	0	0		T	214792011	T	T	214792011	3	4	8	1	0	0	0	0	1	0	0	0	3234	594	21	4	465	4	CENPF	1	214792011	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2231580	214792011	34458610	134	6943											
CENPF	1063	broad.mit.edu	37	chr1	214819293	214819293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcgagaaactgagagttcGcattgaggccgatgaaaaga	15	7	12	7	3	0	5	0	3	0	3	2	8	0	5	1	1	1	2	1	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:214819293G>A	uc001hkm.2	+	13	6554	c.6380G>A	c.(6379-6381)CGC>CAC	p.R2127H		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2223	Potential.|2-1.|2 X 177 AA tandem repeats.|Interaction with NDE1 and NDEL1.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding	p.R2127H(1)		ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		CTGAGAGTTCGCATTGAGGCC	0.498													20	89					0	0	0.012319	0	0		A	214819293	A	A	214819293	3	1	8	1	0	0	0	0	1	0	0	0	3234	1087	38	1	6426	1	CENPF	1	214819293	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	27282	214819293	34431328	135	6944											
SPATA17	128153	broad.mit.edu	37	chr1	217955552	217955552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccgaagtattagaacaaCgctacaggcctttggagcca	13	8	9	11	2	1	1	1	0	0	1	1	3	1	2	3	2	4	2	3	2	6	4	rs145142638	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:217955552C>T	uc001hlh.1	+	8	786	c.760C>T	c.(760-762)CGC>TGC	p.R254C	SPATA17_uc009xdr.1_RNA|SPATA17_uc001hli.2_Missense_Mutation_p.R254C	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	254						cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		ATTAGAACAACGCTACAGGCC	0.458													8	55					0	0	0.008291	0	0		T	217955552	T	T	217955552	3	4	8	1	0	0	0	0	1	0	0	0	15027	536	19	1	790	1	SPATA17	1	217955552	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3136259	217955552	31295069	136	6945											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220324711	220324711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttactagtttagctgttgttGcaattggcacttcagtgttt	7	19	9	6	0	1	0	1	0	0	0	1	0	1	0	0	1	3	7	0	1	4	9			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:220324711G>A	uc010puk.1	-	35	4228	c.4064C>T	c.(4063-4065)GCA>GTA	p.A1355V	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Missense_Mutation_p.A935V|RAB3GAP2_uc001hmh.2_3'UTR	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	1355					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		AGCTGTTGTTGCAATTGGCAC	0.368													22	99					0	0	0.004656	0	0		A	220324711	A	A	220324711	3	1	8	1	0	0	0	0	1	0	0	0	12961	1319	46	2	121	2	RAB3GAP2	1	220324711	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2369159	220324711	28925910	137	6946											
DISP1	84976	broad.mit.edu	37	chr1	223177546	223177546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctacctcttcacactggCttatgaaaagatgcatcagt	12	12	6	11	0	3	2	2	1	1	1	3	2	3	2	2	1	3	2	2	1	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:223177546C>T	uc001hnu.1	+	8	2954	c.2807C>T	c.(2806-2808)GCT>GTT	p.A936V		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	936					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TTCACACTGGCTTATGAAAAG	0.473													6	39					0	0	0.001168	0	0		T	223177546	T	T	223177546	3	4	8	1	0	0	0	0	1	0	0	0	4545	797	28	2	2833	2	DISP1	1	223177546	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2852835	223177546	26073075	138	6947											
CAPN2	824	broad.mit.edu	37	chr1	223943271	223943271	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agagcggctgcaccttcctgGtggggctcattcagaagcac	8	8	13	12	1	2	2	2	0	0	2	3	2	3	2	2	4	3	4	2	4	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:223943271G>A	uc001hob.3	+	10	1449	c.1225G>A	c.(1225-1227)GTG>ATG	p.V409M	CAPN2_uc010puy.1_Missense_Mutation_p.V331M|CAPN2_uc001hoc.2_5'Flank	NM_001748	NP_001739	P17655	CAN2_HUMAN	calpain 2 isoform 1	409	Domain III.				proteolysis	cytoplasm|plasma membrane				lung(3)|breast(1)|skin(1)	5				GBM - Glioblastoma multiforme(131;0.109)		CACCTTCCTGGTGGGGCTCAT	0.493													4	17					0	0	0.000602	0	0		A	223943271	A	A	223943271	3	1	8	1	0	0	0	0	1	0	0	0	2630	1261	44	4	1270	4	CAPN2	1	223943271	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	765725	223943271	25307350	139	6948											
OBSCN	84033	broad.mit.edu	37	chr1	228509533	228509533	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagagagtgaagccgagagCtcctctgggggtgagctgga	9	7	17	8	1	2	4	1	2	1	2	3	7	3	5	2	3	3	2	2	3	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:228509533C>T	uc009xez.1	+	55	15035	c.14991C>T	c.(14989-14991)AGC>AGT	p.S4997S	OBSCN_uc001hsn.2_Silent_p.S4997S	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4997					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AAGCCGAGAGCTCCTCTGGGG	0.617													4	33					0	0	0.000602	0	0		T	228509533	T	T	228509533	2	4	8	1	0	0	0	0	0	0	0	1	10831	796	28	2		2	OBSCN	1	228509533	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4566262	228509533	20741088	140	6949											
COG2	22796	broad.mit.edu	37	chr1	230798937	230798937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcagttgatgaacgaatGtctaaacaagaggacattag	15	8	12	6	2	1	3	0	2	1	1	1	5	1	4	0	2	2	2	0	2	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:230798937G>A	uc001htw.2	+	4	502	c.351G>A	c.(349-351)ATG>ATA	p.M117I	COG2_uc001htx.2_Missense_Mutation_p.M117I|COG2_uc010pwc.1_5'UTR	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	117					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				ATGAACGAATGTCTAAACAAG	0.338													16	61					0	0	0.007413	0	0		A	230798937	A	A	230798937	3	1	8	1	0	0	0	0	1	0	0	0	3661	1377	48	4	365	4	COG2	1	230798937	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2289404	230798937	18451684	141	6950											
SIPA1L2	57568	broad.mit.edu	37	chr1	232626723	232626723	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgacgtattccaaaactTctttgagaggtagtcctcgt	11	13	9	8	2	1	2	0	2	1	1	4	4	3	2	2	1	1	2	2	1	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:232626723T>C	uc001hvg.2	-	3	1861	c.1703A>G	c.(1702-1704)GAA>GGA	p.E568G		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	568					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				TTCCAAAACTTCTTTGAGAGG	0.473													13	73					0	0	0.00245	0	0		C	232626723	C	C	232626723	3	2	8	1	0	0	0	0	1	0	0	0	14355	1783	62	3	3541	3	SIPA1L2	1	232626723	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1827786	232626723	16623898	142	6951											
PCNXL2	80003	broad.mit.edu	37	chr1	233134062	233134062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccttttctgggctgttctGcgctgctctcctggctgcca	1	14	11	15	2	3	0	0	0	3	0	4	0	3	0	3	2	3	5	3	2	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:233134062G>A	uc001hvl.2	-	32	5961	c.5726C>T	c.(5725-5727)GCA>GTA	p.A1909V	PCNXL2_uc001hvk.1_Missense_Mutation_p.A561V|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1909						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GGGCTGTTCTGCGCTGCTCTC	0.622													4	22					0	0	0.009096	0	0		A	233134062	A	A	233134062	3	1	8	1	0	0	0	0	1	0	0	0	11611	1319	46	2	699	2	PCNXL2	1	233134062	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	507339	233134062	16116559	143	6952											
ACTN2	88	broad.mit.edu	37	chr1	236902754	236902754	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaatgccagctggagatCaacttcaacacgctgcagac	14	6	10	11	1	2	3	2	0	0	3	2	5	2	3	1	1	5	3	1	1	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:236902754C>A	uc001hyf.2	+	10	1233	c.1029C>A	c.(1027-1029)ATC>ATA	p.I343I	ACTN2_uc001hyg.2_Silent_p.I135I|ACTN2_uc009xgi.1_Silent_p.I343I|ACTN2_uc010pxu.1_Intron|ACTN2_uc001hyh.2_Silent_p.I31I	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	343	Spectrin 1.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			AGCTGGAGATCAACTTCAACA	0.582													13	64					3.27435e-08	3.57726e-08	0.00245	1	0		A	236902754	A	A	236902754	2	1	8	1	0	0	0	0	0	0	0	1	205	816	29	5		5	ACTN2	1	236902754	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3768692	236902754	12347867	144	6953											
ACTN2	88	broad.mit.edu	37	chr1	236920825	236920825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctgctgacaaccatcGccagaaccatcaatgaggtg	12	7	10	12	1	1	3	1	2	0	1	2	3	1	3	3	1	5	3	3	1	3	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:236920825G>A	uc001hyf.2	+	18	2398	c.2194G>A	c.(2194-2196)GCC>ACC	p.A732T	ACTN2_uc001hyg.2_Missense_Mutation_p.A524T|ACTN2_uc009xgi.1_Missense_Mutation_p.A732T|ACTN2_uc010pxu.1_Missense_Mutation_p.A421T|ACTN2_uc001hyh.2_Missense_Mutation_p.A420T	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	732	Spectrin 4.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GACAACCATCGCCAGAACCAT	0.507													10	79					0	0	0.006214	0	0		A	236920825	A	A	236920825	3	1	8	1	0	0	0	0	1	0	0	0	205	1087	38	1	2264	1	ACTN2	1	236920825	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	18071	236920825	12329796	145	6954											
CHRM3	1131	broad.mit.edu	37	chr1	240072247	240072247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctcagtgcgatcttgcttgCcttcatcatcacttggaccc	6	13	7	15	1	5	0	4	0	1	0	5	2	5	1	3	1	3	1	3	1	0	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:240072247C>T	uc001hyp.2	+	5	2275	c.1496C>T	c.(1495-1497)GCC>GTC	p.A499V		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	499	Helical; Name=6; (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	ATCTTGCTTGCCTTCATCATC	0.498													24	87					0	0	0.00632	0	0		T	240072247	T	T	240072247	3	4	8	1	0	0	0	0	1	0	0	0	3381	739	26	2	1498	2	CHRM3	1	240072247	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3151422	240072247	9178374	146	6955											
SCCPDH	51097	broad.mit.edu	37	chr1	246890298	246890298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacagttgtcctcaattgcGtaggaccagtaagtaatcaa	14	10	8	9	1	2	0	2	0	0	0	3	1	3	1	2	1	2	4	2	1	6	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:246890298G>A	uc001ibr.2	+	2	642	c.295G>A	c.(295-297)GTA>ATA	p.V99I		NM_016002	NP_057086	Q8NBX0	SCPDH_HUMAN	saccharopine dehydrogenase (putative)	99						midbody	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity			ovary(1)	1	all_cancers(71;6.8e-05)|all_epithelial(71;7.93e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0545)|Lung NSC(105;0.0618)	all_cancers(173;0.0343)	OV - Ovarian serous cystadenocarcinoma(106;0.00323)	GBM - Glioblastoma multiforme(49;0.0896)		CCTCAATTGCGTAGGACCAGT	0.398													13	32					0	0	0.013537	0	0		A	246890298	A	A	246890298	3	1	8	1	0	0	0	0	1	0	0	0	13910	1145	40	1	301	1	SCCPDH	1	246890298	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	6818051	246890298	2360323	147	6956											
AHCTF1	25909	broad.mit.edu	37	chr1	247063740	247063740	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatatattcacctgccaggtAaagactgaaacactagtgtc	14	11	7	9	0	1	2	1	1	0	1	2	2	1	2	2	1	2	1	2	1	7	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:247063740A>T	uc001ibu.1	-	8	1156	c.1149T>A	c.(1147-1149)TTT>TTA	p.F383L	AHCTF1_uc001ibv.1_Missense_Mutation_p.F392L|AHCTF1_uc009xgs.1_5'Flank	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	383	Necessary for cytoplasmic localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			CCTGCCAGGTAAAGACTGAAA	0.348													17	43					0	0	0.006122	0	0		T	247063740	T	T	247063740	3	4	8	1	0	0	0	0	1	0	0	0	408	359	13	5	5763	5	AHCTF1	1	247063740	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	173442	247063740	2186881	148	6957											
OR6F1	343169	broad.mit.edu	37	chr1	247875374	247875374	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctccggccactggcagagggGatcctgaggatggtgctgat	7	8	16	10	1	0	3	0	2	0	1	2	5	2	5	3	6	1	2	3	6	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:247875374G>A	uc001idj.1	-	1	684	c.684C>T	c.(682-684)ATC>ATT	p.I228I		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	228	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TGGCAGAGGGGATCCTGAGGA	0.527													9	86					0	0	0.006214	0	0		A	247875374	A	A	247875374	2	1	8	1	0	0	0	0	0	0	0	1	11220	1164	41	4		4	OR6F1	1	247875374	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	811634	247875374	1375247	149	6958											
OR1C1	26188	broad.mit.edu	37	chr1	247920953	247920953	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagacggcgatggctgtgccGtaaaacaacaccaccactga	13	6	10	12	3	0	2	0	1	0	1	0	3	0	2	3	2	3	2	3	2	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:247920953G>A	uc010pza.1	-	1	756	c.756C>T	c.(754-756)TAC>TAT	p.Y252Y		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	252	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TGGCTGTGCCGTAAAACAACA	0.522													9	35					0	0	0.010729	0	0		A	247920953	A	A	247920953	2	1	8	1	0	0	0	0	0	0	0	1	10971	1140	40	1		1	OR1C1	1	247920953	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	45579	247920953	1329668	150	6959											
OR2W3	343171	broad.mit.edu	37	chr1	248059482	248059482	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtggccatcgaaggcacCgtctttgtcctggcggtggg	5	10	15	11	3	1	0	0	0	1	0	3	1	2	0	3	5	0	1	3	5	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr1:248059482C>T	uc001idp.1	+	3	863	c.594C>T	c.(592-594)ACC>ACT	p.T198T	OR2W3_uc010pzb.1_Silent_p.T198T	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	198	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TCGAAGGCACCGTCTTTGTCC	0.587													10	63					0	0	0.006122	0	0		T	248059482	T	T	248059482	2	4	8	1	0	0	0	0	0	0	0	1	11052	639	23	1		1	OR2W3	1	248059482	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	138529	248059482	1191139	151	6960											
CPSF3	51692	broad.mit.edu	37	chr2	9611523	9611523	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggatgactctattcttagCgtcacagtggacgggaaaac	13	9	11	8	2	3	1	1	1	2	0	3	4	3	4	0	3	2	0	0	3	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:9611523C>T	uc002qzo.1	+	17	1943	c.1908C>T	c.(1906-1908)AGC>AGT	p.S636S	CPSF3_uc002qzp.1_Silent_p.S599S|CPSF3_uc002qzq.1_Silent_p.S213S	NM_016207	NP_057291	Q9UKF6	CPSF3_HUMAN	cleavage and polyadenylation specific factor 3,	636					histone mRNA 3'-end processing|mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex|ribonucleoprotein complex	5'-3' exonuclease activity|endoribonuclease activity|metal ion binding|protein binding|RNA binding			breast(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;2.39e-25)|all_epithelial(98;8.75e-19)|Lung NSC(108;2.38e-06)|Ovarian(717;0.0308)		all cancers(51;2.2e-40)|Epithelial(75;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(76;4.35e-21)|STAD - Stomach adenocarcinoma(1183;0.00644)		CTATTCTTAGCGTCACAGTGG	0.418													12	85					0	0	0.003163	0	0		T	9611523	T	T	9611523	2	4	8	1	0	0	0	0	0	0	0	1	3829	767	27	1		1	CPSF3	2	9611523	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08		9611523	233587850	152	6961											
NOL10	79954	broad.mit.edu	37	chr2	10729712	10729712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagtacattactttttcacGaagttcttgttgctctaaga	10	16	8	7	1	3	1	1	0	2	1	3	3	3	2	0	1	3	4	0	1	4	8			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:10729712G>A	uc002raq.2	-	18	1713	c.1588C>T	c.(1588-1590)CGT>TGT	p.R530C	NOL10_uc010yje.1_Missense_Mutation_p.R504C|NOL10_uc010yjf.1_Missense_Mutation_p.R480C|NOL10_uc002rap.2_Missense_Mutation_p.R480C	NM_024894	NP_079170	Q9BSC4	NOL10_HUMAN	nucleolar protein 10	530	Potential.					nucleolus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.207)		ACTTTTTCACGAAGTTCTTGT	0.308													5	22					0	0	0.001168	0	0		A	10729712	A	A	10729712	3	1	8	1	0	0	0	0	1	0	0	0	10539	1058	37	1	494	1	NOL10	2	10729712	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1118189	10729712	232469661	153	6962											
GREB1	9687	broad.mit.edu	37	chr2	11758537	11758537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctggtgagaaacagaggcCccgggcaagtcaggggccac	10	3	15	13	1	1	2	1	1	0	2	1	3	1	2	4	5	1	1	4	5	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:11758537C>T	uc002rbk.1	+	22	3836	c.3536C>T	c.(3535-3537)CCC>CTC	p.P1179L	GREB1_uc002rbp.1_Missense_Mutation_p.P177L	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1179	Ser-rich.					integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		AAACAGAGGCCCCGGGCAAGT	0.721													3	10					0	0	0.004672	0	0		T	11758537	T	T	11758537	3	4	8	1	0	0	0	0	1	0	0	0	6776	623	22	4	3726	4	GREB1	2	11758537	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1028825	11758537	231440836	154	6963											
GREB1	9687	broad.mit.edu	37	chr2	11773069	11773069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccataacctggagctcgagcGgaaccggcaggaggagctgg	10	4	16	11	3	0	0	0	0	0	0	1	5	0	4	3	6	5	3	3	6	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:11773069G>A	uc002rbk.1	+	28	5171	c.4871G>A	c.(4870-4872)CGG>CAG	p.R1624Q	GREB1_uc002rbp.1_Missense_Mutation_p.R622Q	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1624						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GAGCTCGAGCGGAACCGGCAG	0.562													9	18					0	0	0.013537	0	0		A	11773069	A	A	11773069	3	1	8	1	0	0	0	0	1	0	0	0	6776	1116	39	1	5085	1	GREB1	2	11773069	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	14532	11773069	231426304	155	6964											
NBAS	51594	broad.mit.edu	37	chr2	15614225	15614225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcctctggtgtcgtggagCgcaaactcacaaggcggtag	8	9	14	10	3	2	0	1	0	1	0	4	1	3	1	1	4	2	3	1	4	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:15614225C>T	uc002rcc.1	-	15	1591	c.1565G>A	c.(1564-1566)CGC>CAC	p.R522H	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	522										ovary(2)|liver(1)|skin(1)	4						TGTCGTGGAGCGCAAACTCAC	0.433													14	77					0	0	0.00245	0	0		T	15614225	T	T	15614225	3	4	8	1	0	0	0	0	1	0	0	0	10204	768	27	1	5702	1	NBAS	2	15614225	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3841156	15614225	227585148	156	6965											
NBAS	51594	broad.mit.edu	37	chr2	15614424	15614424	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctagtctccaaacgagatcGtttgggggcaagtttaatct	10	13	10	8	2	3	1	0	0	3	1	5	2	3	1	1	2	1	3	1	2	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:15614424G>A	uc002rcc.1	-	15	1392	c.1366C>T	c.(1366-1368)CGA>TGA	p.R456*	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	456										ovary(2)|liver(1)|skin(1)	4						AAACGAGATCGTTTGGGGGCA	0.333													5	20					0	0	0.000602	0	0		A	15614424	A	A	15614424	4	1	8	1	0	0	0	0	0	1	0	0	10204	1153	40	1	5901	1	NBAS	2	15614424	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	199	15614424	227584949	157	6966											
NT5C1B	93034	broad.mit.edu	37	chr2	18765854	18765854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagtaggcagcctcgtagtCgtcctcgtcctcccgctgct	4	10	10	17	4	0	0	0	0	0	0	6	0	3	0	5	1	2	5	5	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:18765854C>T	uc002rcz.2	-	5	933	c.829G>A	c.(829-831)GAC>AAC	p.D277N	NT5C1B_uc002rcy.2_Missense_Mutation_p.D277N|NT5C1B_uc010exr.2_Missense_Mutation_p.D219N|NT5C1B_uc010yju.1_Missense_Mutation_p.D217N|NT5C1B_uc002rda.2_Missense_Mutation_p.D217N|NT5C1B_uc010yjv.1_Missense_Mutation_p.D294N|NT5C1B_uc010yjw.1_Missense_Mutation_p.D260N|NT5C1B_uc010exs.2_Missense_Mutation_p.D279N|NT5C1B_uc002rdb.1_Missense_Mutation_p.D69N	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	277					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				GCCTCGTAGTCGTCCTCGTCC	0.682													4	9					0	0	0.009096	0	0		T	18765854	T	T	18765854	3	4	8	1	0	0	0	0	1	0	0	0	10705	884	31	1	1027	1	NT5C1B	2	18765854	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3151430	18765854	224433519	158	6967											
NCOA1	8648	broad.mit.edu	37	chr2	24927973	24927973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtgatgactcgtggcactgCctccagcccctcctatagat	8	10	9	14	1	0	3	0	2	0	1	3	3	2	3	5	1	2	1	5	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:24927973C>T	uc002rfk.2	+	10	1226	c.968C>T	c.(967-969)GCC>GTC	p.A323V	NCOA1_uc010eye.2_Missense_Mutation_p.A323V|NCOA1_uc002rfi.2_Missense_Mutation_p.A172V|NCOA1_uc002rfj.2_Missense_Mutation_p.A323V|NCOA1_uc002rfl.2_Missense_Mutation_p.A323V	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	323									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGTGGCACTGCCTCCAGCCCC	0.423			T	PAX3	alveolar rhadomyosarcoma								13	57					0	0	0.013537	0	0		T	24927973	T	T	24927973	3	4	8	1	0	0	0	0	1	0	0	0	10247	739	26	2	998	2	NCOA1	2	24927973	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6162119	24927973	218271400	159	6968											
ASXL2	55252	broad.mit.edu	37	chr2	25966041	25966041	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgctttacttagtccttcGtggtattggtgtgtgtcaat	5	19	11	6	1	1	0	1	0	0	0	3	0	2	0	1	2	2	3	1	2	4	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:25966041G>A	uc002rgs.2	-	12	3386	c.3165C>T	c.(3163-3165)CAC>CAT	p.H1055H	ASXL2_uc002rgt.1_Intron	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1055					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTAGTCCTTCGTGGTATTGGT	0.507													7	43					0	0	0.00308	0	0		A	25966041	A	A	25966041	2	1	8	1	0	0	0	0	0	0	0	1	1068	1136	40	1		1	ASXL2	2	25966041	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1038068	25966041	217233332	160	6969											
KIF3C	3797	broad.mit.edu	37	chr2	26203385	26203385	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgccttctcctcctccaGccgctccttctgttcctgca	2	13	7	19	1	2	0	0	0	2	0	7	0	6	0	7	1	3	4	7	1	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:26203385G>A	uc002rgu.2	-	1	2059	c.1402C>T	c.(1402-1404)CTG>TTG	p.L468L	KIF3C_uc010eyj.1_RNA|KIF3C_uc010ykr.1_Silent_p.L468L	NM_002254	NP_002245	O14782	KIF3C_HUMAN	kinesin family member 3C	468	Potential.				blood coagulation|microtubule-based movement	cytosol|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCTCCTCCAGCCGCTCCTTC	0.592													9	44					0	0	0.006214	0	0		A	26203385	A	A	26203385	2	1	8	1	0	0	0	0	0	0	0	1	8318	962	34	2		2	KIF3C	2	26203385	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	237344	26203385	216995988	161	6970											
GTF3C2	2976	broad.mit.edu	37	chr2	27566374	27566374	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accacagtcatgttccccacGgggccggcctcccccagggc	6	5	11	19	2	1	0	1	0	0	0	3	0	3	0	7	4	0	1	7	4	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:27566374G>A	uc002rjv.1	-	3	411	c.48C>T	c.(46-48)CCC>CCT	p.P16P	GTF3C2_uc002rju.1_Silent_p.P27P|GTF3C2_uc002rjw.1_Silent_p.P16P|GTF3C2_uc010eyz.1_Silent_p.P16P	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	16						transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGTTCCCCACGGGGCCGGCCT	0.557													15	89					0	0	0.003163	0	0		A	27566374	A	A	27566374	2	1	8	1	0	0	0	0	0	0	0	1	6889	1103	39	1		1	GTF3C2	2	27566374	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1362989	27566374	215632999	162	6971											
PPM1G	5496	broad.mit.edu	37	chr2	27607889	27607889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgacagttctgcccgtagCgtgtcagcagctcttcaata	8	12	10	11	2	4	1	2	1	2	0	4	1	4	1	1	0	4	4	1	0	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:27607889C>T	uc002rkl.2	-	6	583	c.476G>A	c.(475-477)CGC>CAC	p.R159H	PPM1G_uc002rkm.2_Missense_Mutation_p.R9H	NM_002707	NP_002698	O15355	PPM1G_HUMAN	protein phosphatase 1G	159					cell cycle arrest|protein dephosphorylation	cytoplasm|nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					CTGCCCGTAGCGTGTCAGCAG	0.592													17	77					0	0	0.007413	0	0		T	27607889	T	T	27607889	3	4	8	1	0	0	0	0	1	0	0	0	12362	768	27	1	1188	1	PPM1G	2	27607889	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	41515	27607889	215591484	163	6972											
FAM98A	25940	broad.mit.edu	37	chr2	33810305	33810305	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcggccaccatggtcataGccaccacgtccacctctccc	7	7	6	21	2	2	0	1	0	1	0	5	0	3	0	8	2	1	0	8	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:33810305G>A	uc002rpa.1	-	8	1169	c.1095C>T	c.(1093-1095)GGC>GGT	p.G365G	FAM98A_uc010yne.1_Silent_p.G170G|FAM98A_uc010ynd.1_Silent_p.G196G|FAM98A_uc002roz.1_Silent_p.G203G	NM_015475	NP_056290	Q8NCA5	FA98A_HUMAN	hypothetical protein LOC25940	366	Gly-rich.									ovary(1)	1	all_hematologic(175;0.115)					CATGGTCATAGCCACCACGTC	0.577													13	60					0	0	0.00245	0	0		A	33810305	A	A	33810305	2	1	8	1	0	0	0	0	0	0	0	1	5670	958	34	2		2	FAM98A	2	33810305	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	6202416	33810305	209389068	164	6973											
CRIM1	51232	broad.mit.edu	37	chr2	36749338	36749338	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagtcctggaagcctgaCgtttgtaccagctgcatctg	7	11	12	11	1	1	2	0	2	1	0	2	3	2	3	3	1	4	5	3	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:36749338C>T	uc002rpd.2	+	13	2349	c.2310C>T	c.(2308-2310)GAC>GAT	p.D770D		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	770	Extracellular (Potential).|VWFC 5.				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				GGAAGCCTGACGTTTGTACCA	0.468													28	78					0	0	0.007291	0	0		T	36749338	T	T	36749338	2	4	8	1	0	0	0	0	0	0	0	1	3876	535	19	1		1	CRIM1	2	36749338	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2939033	36749338	206450035	165	6974											
FSHR	2492	broad.mit.edu	37	chr2	49190038	49190038	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagcagccacacttgctcAgcagaatgaagaaatctctg	14	8	8	11	0	2	3	1	1	1	2	3	3	2	3	1	0	4	3	1	0	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:49190038A>G	uc002rww.2	-	10	1996	c.1922T>C	c.(1921-1923)CTG>CCG	p.L641P	FSHR_uc002rwx.2_Missense_Mutation_p.L579P|FSHR_uc010fbn.2_Missense_Mutation_p.L615P	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	641	Cytoplasmic (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	ACACTTGCTCAGCAGAATGAA	0.458									Gonadal_Dysgenesis_46_XX				12	48					0	0	0.013537	0	0		G	49190038	G	G	49190038	3	3	8	1	0	0	0	0	1	0	0	0	6087	188	7	3	169	3	FSHR	2	49190038	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	12440700	49190038	194009335	166	6975											
USP34	9736	broad.mit.edu	37	chr2	61415812	61415812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcatcactgctaacacGccgccttttaatgggagttg	8	12	8	13	2	2	0	2	0	0	0	3	1	3	1	3	1	2	2	3	1	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:61415812G>A	uc002sbe.2	-	80	10088	c.10066C>T	c.(10066-10068)CGT>TGT	p.R3356C	USP34_uc002sbd.2_Missense_Mutation_p.R158C	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	3356					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity	p.R3356P(1)		ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			CTGCTAACACGCCGCCTTTTA	0.478													9	50					0	0	0.004482	0	0		A	61415812	A	A	61415812	3	1	8	1	0	0	0	0	1	0	0	0	17091	1087	38	1	578	1	USP34	2	61415812	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	12225774	61415812	181783561	167	6976											
USP34	9736	broad.mit.edu	37	chr2	61508298	61508298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccaatagcagaaaagaaCgattgattgagtctcctcca	15	8	8	10	1	1	4	0	2	1	2	3	5	2	4	3	0	3	1	3	0	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:61508298C>T	uc002sbe.2	-	38	5100	c.5078G>A	c.(5077-5079)CGT>CAT	p.R1693H	USP34_uc002sbf.2_5'Flank	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	1693					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			CAGAAAAGAACGATTGATTGA	0.408													10	21					0	0	0.010729	0	0		T	61508298	T	T	61508298	3	4	8	1	0	0	0	0	1	0	0	0	17091	536	19	1	5734	1	USP34	2	61508298	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	92486	61508298	181691075	168	6977											
FAM161A	84140	broad.mit.edu	37	chr2	62066719	62066719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcatctgcttcgatgtctgCcaaaattttttctcttttaa	8	20	4	9	1	4	0	1	0	3	0	6	1	4	0	1	0	2	1	1	0	3	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:62066719C>T	uc010ypo.1	-	3	1522	c.1420G>A	c.(1420-1422)GCA>ACA	p.A474T	FAM161A_uc002sbm.3_Missense_Mutation_p.A474T|FAM161A_uc002sbn.3_Missense_Mutation_p.A284T|FAM161A_uc010fcm.1_RNA|FAM161A_uc010fcn.1_Missense_Mutation_p.A365T	NM_032180	NP_115556	Q3B820	F161A_HUMAN	hypothetical protein LOC84140	474					response to stimulus|visual perception	centrosome				large_intestine(2)|ovary(1)	3						TCGATGTCTGCCAAAATTTTT	0.388													13	41					0	0	0.013537	0	0		T	62066719	T	T	62066719	3	4	8	1	0	0	0	0	1	0	0	0	5483	739	26	2	578	2	FAM161A	2	62066719	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	558421	62066719	181132654	169	6978											
CCT4	10575	broad.mit.edu	37	chr2	62099411	62099411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atattcagttaatcgtagggCcaactctatttctggagcac	11	13	8	9	1	3	0	1	0	2	0	4	1	3	1	1	2	2	3	1	2	5	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:62099411C>T	uc002sbo.2	-	12	1446	c.1297G>A	c.(1297-1299)GCC>ACC	p.A433T	CCT4_uc010ypp.1_Missense_Mutation_p.A377T|CCT4_uc010ypq.1_Missense_Mutation_p.A283T|CCT4_uc010ypr.1_Missense_Mutation_p.A377T|CCT4_uc010yps.1_Missense_Mutation_p.A403T	NM_006430	NP_006421	P50991	TCPD_HUMAN	chaperonin containing TCP1, subunit 4 (delta)	433					'de novo' posttranslational protein folding	melanosome|microtubule organizing center|nucleus	ATP binding|unfolded protein binding			ovary(2)	2	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;6.5e-06)|Epithelial(17;0.0647)|all cancers(80;0.221)			AATCGTAGGGCCAACTCTATT	0.373													5	45					0	0	0.001168	0	0		T	62099411	T	T	62099411	3	4	8	1	0	0	0	0	1	0	0	0	2958	739	26	2	334	2	CCT4	2	62099411	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	32692	62099411	181099962	170	6979											
SPRED2	200734	broad.mit.edu	37	chr2	65571870	65571870	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccagtttgtctttctgtcGttcaccatggatgagaaagc	9	14	9	9	1	3	1	1	1	2	1	4	3	3	2	2	1	2	2	2	1	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:65571870G>A	uc002sdr.3	-	2	722	c.187C>T	c.(187-189)CGA>TGA	p.R63*	SPRED2_uc010fcw.2_Nonsense_Mutation_p.R60*|SPRED2_uc010fcx.1_RNA	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	63	WH1.				inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						TCTTTCTGTCGTTCACCATGG	0.478													4	28					0	0	0.009096	0	0		A	65571870	A	A	65571870	4	1	8	1	0	0	0	0	0	1	0	0	15118	1153	40	1	1089	1	SPRED2	2	65571870	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3472459	65571870	177627503	171	6980											
ARHGAP25	9938	broad.mit.edu	37	chr2	69015041	69015041	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctctcaggcggagatggAggagtgggttaaattcctca	10	9	14	8	1	2	1	2	0	1	1	4	4	3	3	1	5	1	2	1	5	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:69015041A>G	uc002seu.2	+	4	783	c.419A>G	c.(418-420)GAG>GGG	p.E140G	ARHGAP25_uc010yqk.1_Missense_Mutation_p.E114G|ARHGAP25_uc010fdg.2_Missense_Mutation_p.E140G|ARHGAP25_uc010yql.1_Intron|ARHGAP25_uc002sev.2_Missense_Mutation_p.E133G|ARHGAP25_uc002sew.2_Missense_Mutation_p.E133G|ARHGAP25_uc002sex.2_Missense_Mutation_p.E133G|ARHGAP25_uc010fdh.1_RNA	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	140	PH.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						GCGGAGATGGAGGAGTGGGTT	0.547													10	53					0	0	0.010729	0	0		G	69015041	G	G	69015041	3	3	8	1	0	0	0	0	1	0	0	0	874	304	11	3	473	3	ARHGAP25	2	69015041	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3443171	69015041	174184332	172	6981											
DYSF	8291	broad.mit.edu	37	chr2	71755438	71755438	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcccagtggacgatgcCgtgatggacaacgtgaaaca	11	8	11	11	3	1	2	0	2	1	0	2	5	2	4	2	2	3	0	2	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:71755438C>T	uc002sie.2	+	13	1567	c.1191C>T	c.(1189-1191)GCC>GCT	p.A397A	DYSF_uc010feg.2_Silent_p.A428A|DYSF_uc010feh.2_Silent_p.A397A|DYSF_uc002sig.3_Silent_p.A397A|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.A397A|DYSF_uc010fef.2_Silent_p.A428A|DYSF_uc010fei.2_Silent_p.A428A|DYSF_uc010fek.2_Silent_p.A429A|DYSF_uc010fej.2_Silent_p.A398A|DYSF_uc010fel.2_Silent_p.A398A|DYSF_uc010feo.2_Silent_p.A429A|DYSF_uc010fem.2_Silent_p.A398A|DYSF_uc010fen.2_Silent_p.A429A|DYSF_uc002sif.2_Silent_p.A398A	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	397	Cytoplasmic (Potential).|C2 3.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						TGGACGATGCCGTGATGGACA	0.542													6	31					0	0	0.001984	0	0		T	71755438	T	T	71755438	2	4	8	1	0	0	0	0	0	0	0	1	4865	639	23	1		1	DYSF	2	71755438	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2740397	71755438	171443935	173	6982											
ALMS1	7840	broad.mit.edu	37	chr2	73717248	73717248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcactttttcatctcaccGacattctaaatgcatttcca	11	15	2	13	1	4	0	3	0	2	0	6	1	5	0	2	0	1	1	2	0	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:73717248G>A	uc002sje.1	+	12	8276	c.8165G>A	c.(8164-8166)CGA>CAA	p.R2722Q	ALMS1_uc002sjf.1_Missense_Mutation_p.R2678Q|ALMS1_uc002sjg.2_Missense_Mutation_p.R2108Q|ALMS1_uc002sjh.1_Missense_Mutation_p.R2108Q	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2720					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TCATCTCACCGACATTCTAAA	0.408													23	106					0	0	0.005443	0	0		A	73717248	A	A	73717248	3	1	8	1	0	0	0	0	1	0	0	0	535	1058	37	1	8197	1	ALMS1	2	73717248	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1961810	73717248	169482125	174	6983											
DNAH6	1768	broad.mit.edu	37	chr2	84745152	84745152	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagacaagaaaacgacagCagcctataaaactagagcct	20	4	8	9	1	0	4	0	0	0	4	0	5	0	4	2	0	5	1	2	0	8	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:84745152C>T	uc010fgb.2	+	2	339	c.202C>T	c.(202-204)CAG>TAG	p.Q68*	DNAH6_uc002soo.2_5'UTR|DNAH6_uc002sop.2_5'UTR	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	68	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1						AAAACGACAGCAGCCTATAAA	0.383													3	12					0	0	0.009096	0	0		T	84745152	T	T	84745152	4	4	8	1	0	0	0	0	0	1	0	0	4611	711	25	2	204	2	DNAH6	2	84745152	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	11027904	84745152	158454221	175	6984											
C2orf89	129293	broad.mit.edu	37	chr2	85097639	85097639	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgagcttgacatactccaGgtggcgcttgaggcggcagt	8	9	14	10	2	0	3	0	3	0	0	1	3	1	3	1	4	2	3	1	4	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:85097639G>T	uc010ysl.1	-	2	468	c.379C>A	c.(379-381)CTG>ATG	p.L127M	C2orf89_uc002sou.3_Missense_Mutation_p.L127M|C2orf89_uc010fgc.1_Missense_Mutation_p.L127M	NM_001080824	NP_001074293	Q86V40	CB089_HUMAN	hypothetical protein LOC129293 precursor	127	Extracellular (Potential).					integral to membrane				ovary(1)	1						ACATACTCCAGGTGGCGCTTG	0.572													12	38					4.14922e-12	4.62034e-12	0.004007	1	0		T	85097639	T	T	85097639	3	4	8	1	0	0	0	0	1	0	0	0	2206	991	35	5	1011	5	C2orf89	2	85097639	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	352487	85097639	158101734	176	6985											
C2orf68	388969	broad.mit.edu	37	chr2	85836566	85836566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaggcgtacctgatagaCgataactgatgtgacctctc	11	9	9	12	2	1	4	0	3	1	1	2	5	1	4	3	1	2	1	3	1	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:85836566C>T	uc002sqc.2	-	3	442	c.370G>A	c.(370-372)GTC>ATC	p.V124I	USP39_uc002sqb.2_Intron|USP39_uc010ysu.1_5'Flank|USP39_uc010ysv.1_5'Flank	NM_001013649	NP_001013671	Q2NKX9	CB068_HUMAN	hypothetical protein LOC388969	124										central_nervous_system(1)	1						ACCTGATAGACGATAACTGAT	0.542													28	233					0	0	0.010818	0	0		T	85836566	T	T	85836566	3	4	8	1	0	0	0	0	1	0	0	0	2190	536	19	1	138	1	C2orf68	2	85836566	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	738927	85836566	157362807	177	6986											
KDM3A	55818	broad.mit.edu	37	chr2	86705121	86705121	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttggagtatgtgtggactgCtaccggatgaagagaaagaa	13	10	14	4	1	0	3	0	1	0	2	0	7	0	6	1	3	2	2	1	3	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:86705121C>T	uc002sri.3	+	13	2388	c.2061C>T	c.(2059-2061)TGC>TGT	p.C687C	KDM3A_uc010ytj.1_Silent_p.C687C|KDM3A_uc010ytk.1_Silent_p.C635C	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	687	C6-type (Potential).				androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						GTGTGGACTGCTACCGGATGA	0.473													24	118					0	0	0.00333	0	0		T	86705121	T	T	86705121	2	4	8	1	0	0	0	0	0	0	0	1	8142	805	28	2		2	KDM3A	2	86705121	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	868555	86705121	156494252	178	6987											
TEKT4	150483	broad.mit.edu	37	chr2	95542378	95542378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagcggagcagtccctgcGcaacctcgaggacatccaca	12	4	11	14	3	0	1	0	0	0	1	3	4	2	3	3	2	4	2	3	2	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:95542378G>A	uc002stw.1	+	6	1265	c.1172G>A	c.(1171-1173)CGC>CAC	p.R391H	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	391	Potential.				cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						CAGTCCCTGCGCAACCTCGAG	0.592													5	20					0	0	0.000602	0	0		A	95542378	A	A	95542378	3	1	8	1	0	0	0	0	1	0	0	0	15780	1087	38	1	1194	1	TEKT4	2	95542378	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	8837257	95542378	147656995	179	6988											
CNNM4	26504	broad.mit.edu	37	chr2	97475139	97475139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccatagacgggtgcaccaCccacatggagaacttggccg	10	6	11	14	2	0	2	0	0	0	2	1	3	1	2	4	3	2	1	4	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:97475139C>T	uc002swx.2	+	7	2311	c.2213C>T	c.(2212-2214)ACC>ATC	p.T738I	CNNM4_uc010yuy.1_Silent_p.H254H	NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	738					biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						GGGTGCACCACCCACATGGAG	0.572													9	21					0	0	0.006214	0	0		T	97475139	T	T	97475139	3	4	8	1	0	0	0	0	1	0	0	0	3618	507	18	4	2239	4	CNNM4	2	97475139	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1932761	97475139	145724234	180	6989											
FAHD2B	151313	broad.mit.edu	37	chr2	97749725	97749725	+	Frame_Shift_Del	DEL	G	-	-																															tcctgaatacaccgacacctGggggggtcccagttaggatg																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:97749725delG	uc002sxm.2	-	7	993	c.842delC	c.(841-843)CCAfs	p.P281fs		NM_199336	NP_955368	Q6P2I3	FAH2B_HUMAN	fumarylacetoacetate hydrolase domain containing	281							hydrolase activity|metal ion binding				0						ACCGACACCTGGGGGGGTCCC	0.552													7	14	---	---	---	---						.	-	97749725	-	-	97749725	7	5	8	1	0	1	0	1	0	0	0	0	5385	1348	47	0	110	0	FAHD2B	2	97749725	Frame_Shift_Del	DEL	G	TCGA-BR-4201-01A-01D-1126-08	274586	97749725	145449648	181	6990											
VWA3B	200403	broad.mit.edu	37	chr2	98928714	98928714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctaggactcagcagccacGccatcattgccacacctcca	10	7	7	17	1	3	0	2	0	1	0	4	1	4	1	5	1	3	1	5	1	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:98928714G>A	uc002syo.2	+	28	4051	c.3787G>A	c.(3787-3789)GCC>ACC	p.A1263T	VWA3B_uc002syr.1_3'UTR|VWA3B_uc002sys.2_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	1263										ovary(3)|large_intestine(2)|skin(1)	6						CAGCAGCCACGCCATCATTGC	0.597													8	29					0	0	0.010729	0	0		A	98928714	A	A	98928714	3	1	8	1	0	0	0	0	1	0	0	0	17267	1087	38	1	3893	1	VWA3B	2	98928714	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1178989	98928714	144270659	182	6991											
CNGA3	1261	broad.mit.edu	37	chr2	98994199	98994199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgctgcagccggggatcGccatggagaccagaggactg	9	5	16	11	2	0	2	0	0	0	2	1	5	0	4	3	4	3	2	3	4	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:98994199G>A	uc002syt.2	+	3	568	c.151G>A	c.(151-153)GCC>ACC	p.A51T	CNGA3_uc002syu.2_Missense_Mutation_p.A51T|CNGA3_uc010fij.2_5'UTR	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	51					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						GCCGGGGATCGCCATGGAGAC	0.587													4	13					0	0	0.000602	0	0		A	98994199	A	A	98994199	3	1	8	1	0	0	0	0	1	0	0	0	3601	1087	38	1	157	1	CNGA3	2	98994199	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	65485	98994199	144205174	183	6992											
FHL2	2274	broad.mit.edu	37	chr2	106002900	106002900	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacaccacgcagtaggggCtctcctcccgcaggatgtac	9	6	11	15	2	1	0	0	0	1	0	3	1	2	1	3	3	2	6	3	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:106002900C>A	uc002tcu.2	-	2	411	c.74G>T	c.(73-75)AGC>ATC	p.S25I	FHL2_uc002tdc.2_5'UTR|FHL2_uc002tdd.2_Missense_Mutation_p.S25I|FHL2_uc002tcv.2_Missense_Mutation_p.S25I|FHL2_uc002tcw.2_Missense_Mutation_p.S25I|FHL2_uc002tcx.2_Missense_Mutation_p.S25I|FHL2_uc010fje.2_5'UTR|FHL2_uc002tcy.2_Missense_Mutation_p.S25I|FHL2_uc002tcz.2_Missense_Mutation_p.S135I|FHL2_uc002tda.2_RNA|FHL2_uc002tdb.2_Missense_Mutation_p.S141I|FHL2_uc002tde.1_Missense_Mutation_p.S118I	NM_201557	NP_963851	Q14192	FHL2_HUMAN	four and a half LIM domains 2	25	C4-type (Potential).				androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription, DNA-dependent|response to hormone stimulus|transcription, DNA-dependent	actin cytoskeleton|focal adhesion|nucleus	androgen receptor binding|identical protein binding|transcription coactivator activity|zinc ion binding			ovary(1)	1						GCAGTAGGGGCTCTCCTCCCG	0.562													17	70					0.000566183	0.000600562	0.00499	1	0		A	106002900	A	A	106002900	3	1	8	1	0	0	0	0	1	0	0	0	5893	797	28	5	785	5	FHL2	2	106002900	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	7008701	106002900	137196473	184	6993											
GCC2	9648	broad.mit.edu	37	chr2	109088540	109088540	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactagaacaaaaagaattaCgagataggagagcagagttg	19	7	11	4	1	0	5	0	0	0	5	0	7	0	5	0	1	4	2	0	1	8	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:109088540C>T	uc002tec.2	+	6	2909	c.2755C>T	c.(2755-2757)CGA>TGA	p.R919*	GCC2_uc002ted.2_Nonsense_Mutation_p.R818*	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	919	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						AAAAGAATTACGAGATAGGAG	0.279													18	80					0	0	0.012319	0	0		T	109088540	T	T	109088540	4	4	8	1	0	0	0	0	0	1	0	0	6301	528	19	1	2777	1	GCC2	2	109088540	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3085640	109088540	134110833	185	6994											
BUB1	699	broad.mit.edu	37	chr2	111430296	111430296	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttttgaattcctctctgaaGgacagcactggcatgctgca	9	12	10	10	0	1	2	0	2	1	0	3	3	2	3	1	2	3	5	1	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:111430296G>T	uc002tgc.2	-	4	476	c.364C>A	c.(364-366)CTT>ATT	p.L122I	BUB1_uc010yxh.1_Missense_Mutation_p.L102I|BUB1_uc010fkb.2_Missense_Mutation_p.L122I|BUB1_uc002tgd.2_Missense_Mutation_p.L122I	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	122	BUB1 N-terminal.|Necessary for interaction with CASC5.|Necessary for kinetochore localization.			L->G: Loss of interaction with CASC5.	apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		CCTCTCTGAAGGACAGCACTG	0.498													14	67					2.61681e-11	2.91008e-11	0.00245	1	0		T	111430296	T	T	111430296	3	4	8	1	0	0	0	0	1	0	0	0	1573	1000	35	5	2981	5	BUB1	2	111430296	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2341756	111430296	131769077	186	6995											
ZC3H6	376940	broad.mit.edu	37	chr2	113080379	113080379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttttctgatcctgaagacGattttcagacagatttctct	9	16	6	10	1	3	5	1	2	2	3	5	6	4	5	2	0	0	0	2	0	1	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:113080379G>A	uc002thq.1	+	9	1634	c.1240G>A	c.(1240-1242)GAT>AAT	p.D414N		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	414	Pro-rich.						nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						TCCTGAAGACGATTTTCAGAC	0.423													26	121					0	0	0.004656	0	0		A	113080379	A	A	113080379	3	1	8	1	0	0	0	0	1	0	0	0	17596	1058	37	1	1274	1	ZC3H6	2	113080379	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1650083	113080379	130118994	187	6996											
SLC20A1	6574	broad.mit.edu	37	chr2	113414767	113414767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggatgtgcagttttctgtGcccttatcgtctggttcttt	3	19	11	8	1	3	0	0	0	3	0	4	1	3	1	1	2	2	3	1	2	1	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:113414767G>A	uc002tib.2	+	6	1173	c.727G>A	c.(727-729)GCC>ACC	p.A243T	SLC20A1_uc002tic.1_Missense_Mutation_p.A55T	NM_005415	NP_005406	Q8WUM9	S20A1_HUMAN	solute carrier family 20 (phosphate	243	Helical; (Potential).				phosphate metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to plasma membrane	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity			ovary(2)	2						AGTTTTCTGTGCCCTTATCGT	0.413													21	79					0	0	0.014323	0	0		A	113414767	A	A	113414767	3	1	8	1	0	0	0	0	1	0	0	0	14463	1319	46	2	745	2	SLC20A1	2	113414767	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	334388	113414767	129784606	188	6997											
DPP10	57628	broad.mit.edu	37	chr2	116525877	116525877	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttctgtattttagaatgAggagcccgtgttttctagag	8	16	10	7	1	3	3	0	1	3	2	3	4	3	4	1	1	1	2	1	1	4	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:116525877A>G	uc002tla.1	+	13	1575	c.1118A>G	c.(1117-1119)GAG>GGG	p.E373G	DPP10_uc002tlb.1_Missense_Mutation_p.E323G|DPP10_uc002tlc.1_Missense_Mutation_p.E369G|DPP10_uc002tle.2_Missense_Mutation_p.E377G|DPP10_uc002tlf.1_Missense_Mutation_p.E366G	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	373	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TTTTAGAATGAGGAGCCCGTG	0.438													8	26					0	0	0.006214	0	0		G	116525877	G	G	116525877	3	3	8	1	0	0	0	0	1	0	0	0	4733	304	11	3	1339	3	DPP10	2	116525877	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3111110	116525877	126673496	189	6998											
GLI2	2736	broad.mit.edu	37	chr2	121747438	121747438	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggagtgccaccacctcaCccagtccagagctacccaca	10	5	8	18	0	1	1	1	0	0	1	2	2	2	2	6	1	3	2	6	1	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:121747438C>T	uc010flp.2	+	13	3978	c.3948C>T	c.(3946-3948)CAC>CAT	p.H1316H	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Silent_p.H988H|GLI2_uc002tmu.3_Silent_p.H971H	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	1316					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				CACCACCTCACCCAGTCCAGA	0.652													3	17					0	0	0.004672	0	0		T	121747438	T	T	121747438	2	4	8	1	0	0	0	0	0	0	0	1	6453	506	18	4		4	GLI2	2	121747438	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5221561	121747438	121451935	190	6999											
CNTNAP5	129684	broad.mit.edu	37	chr2	125405387	125405387	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacagagctgacccgagtGcggggcgctaaccctgagaa	12	5	13	11	3	0	3	0	2	0	2	0	5	0	3	2	2	4	2	2	2	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:125405387G>A	uc002tno.2	+	13	2290	c.1926G>A	c.(1924-1926)GTG>GTA	p.V642V	CNTNAP5_uc010flu.2_Silent_p.V643V	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	642	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TGACCCGAGTGCGGGGCGCTA	0.562													4	21					0	0	0.001168	0	0		A	125405387	A	A	125405387	2	1	8	1	0	0	0	0	0	0	0	1	3653	1306	46	2		2	CNTNAP5	2	125405387	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3657949	125405387	117793986	191	7000											
WDR33	55339	broad.mit.edu	37	chr2	128466300	128466300	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggggcctccatctctctGtgctcagaagtgcctgggcc	4	10	12	15	0	3	1	1	0	2	1	5	1	4	1	5	3	2	1	5	3	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:128466300G>A	uc002tpg.1	-	21	3915	c.3732C>T	c.(3730-3732)CAC>CAT	p.H1244H		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	1244					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		CCATCTCTCTGTGCTCAGAAG	0.607													11	77					0	0	0.013537	0	0		A	128466300	A	A	128466300	2	1	8	1	0	0	0	0	0	0	0	1	17313	1368	48	4		4	WDR33	2	128466300	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3060913	128466300	114733073	192	7001											
LRP1B	53353	broad.mit.edu	37	chr2	141200145	141200145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacagcttggaaatgcaatGcttcgtagtcttacactgga	11	11	9	10	1	1	0	0	0	1	0	2	2	1	2	1	2	4	4	1	2	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:141200145G>A	uc002tvj.1	-	66	11314	c.10342C>T	c.(10342-10344)CAT>TAT	p.H3448Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3448	Extracellular (Potential).|LDL-receptor class A 24.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GAAATGCAATGCTTCGTAGTC	0.433										TSP Lung(27;0.18)			14	102					0	0	0.003163	0	0		A	141200145	A	A	141200145	3	1	8	1	0	0	0	0	1	0	0	0	8973	1319	46	2	3561	2	LRP1B	2	141200145	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	12733845	141200145	101999228	193	7002											
LYPD6B	130576	broad.mit.edu	37	chr2	150069635	150069635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccgagattctgaacataCggtaaggatcgtgtgtgtgt	10	11	13	7	3	1	2	0	1	1	1	2	4	1	3	1	2	3	1	1	2	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:150069635C>T	uc002twv.1	+	6	859	c.458C>T	c.(457-459)ACG>ATG	p.T153M	LYPD6B_uc002tww.1_Missense_Mutation_p.T115M|LYPD6B_uc002twx.1_Missense_Mutation_p.T115M	NM_177964	NP_808879	Q8NI32	LPD6B_HUMAN	LY6/PLAUR domain containing 6B	129	UPAR/Ly6.					anchored to membrane|plasma membrane					0						TCTGAACATACGGTAAGGATC	0.443													16	109					0	0	0.006122	0	0		T	150069635	T	T	150069635	3	4	8	1	0	0	0	0	1	0	0	0	9133	550	19	1	476	1	LYPD6B	2	150069635	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8869490	150069635	93129738	194	7003											
NEB	4703	broad.mit.edu	37	chr2	152501056	152501056	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagatcgtaaccttttcTcttcagctcctcataaccca	11	12	5	13	1	3	1	2	0	1	1	6	2	4	2	3	1	3	2	3	1	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:152501056T>G	uc010fnx.2	-	56	7761	c.7570A>C	c.(7570-7572)AGA>CGA	p.R2524R		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2524					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TAACCTTTTCTCTTCAGCTCC	0.383													19	73					0	0	0.010504	0	0		G	152501056	G	G	152501056	2	3	8	1	0	0	0	0	0	0	0	1	10321	1559	54	5		5	NEB	2	152501056	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2431421	152501056	90698317	195	7004											
KCNJ3	3760	broad.mit.edu	37	chr2	155555583	155555583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggcctggcttttcatggCgtccatgtggtgggtgatcg	3	13	16	9	3	1	1	1	1	0	0	3	1	2	1	2	5	0	1	2	5	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:155555583C>T	uc002tyv.1	+	1	491	c.296C>T	c.(295-297)GCG>GTG	p.A99V	KCNJ3_uc010zce.1_Missense_Mutation_p.A99V	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	99	Helical; Name=M1; (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	CTTTTCATGGCGTCCATGTGG	0.567													10	56					0	0	0.013537	0	0		T	155555583	T	T	155555583	3	4	8	1	0	0	0	0	1	0	0	0	8068	768	27	1	298	1	KCNJ3	2	155555583	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3054527	155555583	87643790	196	7005											
GPD2	2820	broad.mit.edu	37	chr2	157407127	157407127	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacagggcaggaatttgaCgtgagagccaaatgtgttat	12	11	12	6	1	1	2	1	2	0	1	1	4	1	3	1	2	1	2	1	2	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:157407127C>T	uc002tzf.3	+	8	1200	c.840C>T	c.(838-840)GAC>GAT	p.D280D	GPD2_uc010zch.1_Silent_p.D53D|GPD2_uc002tzd.3_Silent_p.D280D|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	280					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						AGGAATTTGACGTGAGAGCCA	0.438													12	69					0	0	0.010729	0	0		T	157407127	T	T	157407127	2	4	8	1	0	0	0	0	0	0	0	1	6621	535	19	1		1	GPD2	2	157407127	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1851544	157407127	85792246	197	7006											
CCDC148	130940	broad.mit.edu	37	chr2	159201729	159201729	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgtcccccagttcttacctGacttcattcagcctctggta	7	14	6	14	0	4	1	2	1	2	0	5	1	5	1	4	1	2	2	4	1	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:159201729G>A	uc002tzq.2	-	3	512	c.249C>T	c.(247-249)GTC>GTT	p.V83V	CCDC148_uc002tzr.2_Intron|CCDC148_uc010foh.2_Intron|CCDC148_uc010foi.1_Silent_p.V30V|CCDC148_uc010foj.1_Intron|CCDC148_uc010fok.1_Intron|CCDC148_uc002tzs.1_Silent_p.V83V	NM_138803	NP_620158	Q8NFR7	CC148_HUMAN	coiled-coil domain containing 148	83										ovary(2)	2						GTTCTTACCTGACTTCATTCA	0.368													6	139					0	0	0.00308	0	0		A	159201729	A	A	159201729	2	1	8	1	0	0	0	0	0	0	0	1	2785	1277	45	4		4	CCDC148	2	159201729	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1794602	159201729	83997644	198	7007											
ITGB6	3694	broad.mit.edu	37	chr2	160993949	160993949	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcaacatagcctacctccGcagagcagccctttgtgtct	8	12	7	14	1	2	1	1	0	1	1	3	1	3	1	4	0	5	2	4	0	3	4	rs139038668		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:160993949G>A	uc002ubh.2	-	10	1672	c.1656C>T	c.(1654-1656)TGC>TGT	p.C552C	ITGB6_uc010fou.2_Silent_p.C552C|ITGB6_uc010zcq.1_Silent_p.C510C|ITGB6_uc010fov.1_Silent_p.C552C	NM_000888	NP_000879	P18564	ITB6_HUMAN	integrin, beta 6 precursor	552	Extracellular (Potential).|III.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|multicellular organismal development	integrin complex	receptor activity			ovary(1)|lung(1)|skin(1)	3						GCCTACCTCCGCAGAGCAGCC	0.413													12	58					0	0	0.013537	0	0		A	160993949	A	A	160993949	2	1	8	1	0	0	0	0	0	0	0	1	7915	1079	38	1		1	ITGB6	2	160993949	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1792220	160993949	82205424	199	7008											
FIGN	55137	broad.mit.edu	37	chr2	164466900	164466900	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtcattccagtccactggaGgtccttgggtgataatctca	8	13	10	10	0	2	1	2	1	1	0	6	2	5	2	3	3	0	0	3	3	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:164466900G>T	uc002uck.1	-	3	1753	c.1442C>A	c.(1441-1443)CCT>CAT	p.P481H		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	481						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						GTCCACTGGAGGTCCTTGGGT	0.512													5	70					0.000602214	0.000636366	0.000602	1	0		T	164466900	T	T	164466900	3	4	8	1	0	0	0	0	1	0	0	0	5905	1000	35	5	841	5	FIGN	2	164466900	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3472951	164466900	78732473	200	7009											
COBLL1	22837	broad.mit.edu	37	chr2	165557205	165557205	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcagcttcaactttaggCacttcactcagttcttcctt	7	18	4	12	0	5	0	4	0	1	0	6	0	6	0	1	1	2	3	1	1	2	9			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:165557205C>T	uc010zcw.1	-	13	1726	c.1602G>A	c.(1600-1602)GTG>GTA	p.V534V	COBLL1_uc002ucp.2_Silent_p.V468V|COBLL1_uc002ucq.2_Silent_p.V429V|COBLL1_uc010zcx.1_Silent_p.V475V|COBLL1_uc002ucs.1_RNA|COBLL1_uc002ucn.2_5'Flank|COBLL1_uc002uco.2_Silent_p.V198V	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	506										ovary(2)|pancreas(1)	3						CAACTTTAGGCACTTCACTCA	0.333													17	113					0	0	0.00499	0	0		T	165557205	T	T	165557205	2	4	8	1	0	0	0	0	0	0	0	1	3657	697	25	2		2	COBLL1	2	165557205	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1090305	165557205	77642168	201	7010											
SCN2A	6326	broad.mit.edu	37	chr2	166223735	166223735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacatattttagactgtgtaCggaagttcaagtgttgtcag	11	14	10	6	1	2	1	2	0	0	1	2	2	2	2	0	1	1	3	0	1	5	6	rs115231482	by1000genomes	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:166223735C>T	uc002udc.2	+	19	3819	c.3529C>T	c.(3529-3531)CGG>TGG	p.R1177W	SCN2A_uc002udd.2_Missense_Mutation_p.R1177W|SCN2A_uc002ude.2_Missense_Mutation_p.R1177W	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1177					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	AGACTGTGTACGGAAGTTCAA	0.348													7	47					0	0	0.006214	0	0		T	166223735	T	T	166223735	3	4	8	1	0	0	0	0	1	0	0	0	13941	527	19	1	3695	1	SCN2A	2	166223735	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	666530	166223735	76975638	202	7011											
UBR3	130507	broad.mit.edu	37	chr2	170806482	170806482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaaagtagaatgaacaaacGcatcattgaagagatatgta	19	8	9	5	1	1	4	1	2	0	2	1	5	1	4	0	0	2	4	0	0	8	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:170806482G>A	uc010zdi.1	+	23	3452	c.3452G>A	c.(3451-3453)CGC>CAC	p.R1151H	UBR3_uc002ufr.3_RNA|UBR3_uc010fqa.2_5'UTR|UBR3_uc002uft.3_Missense_Mutation_p.R4H	NM_172070	NP_742067	Q6ZT12	UBR3_HUMAN	E3 ubiquitin-protein ligase UBR3	1151					sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0						ATGAACAAACGCATCATTGAA	0.373													18	87					0	0	0.012319	0	0		A	170806482	A	A	170806482	3	1	8	1	0	0	0	0	1	0	0	0	16929	1087	38	1	3542	1	UBR3	2	170806482	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4582747	170806482	72392891	203	7012											
MYO3B	140469	broad.mit.edu	37	chr2	171243767	171243767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactggagttgtgatgggggCaagaatctctgaatatctcc	11	11	12	7	0	2	3	0	2	2	1	4	4	2	4	1	3	1	2	1	3	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:171243767C>T	uc002ufy.2	+	14	1669	c.1526C>T	c.(1525-1527)GCA>GTA	p.A509V	MYO3B_uc002ufv.2_Missense_Mutation_p.A496V|MYO3B_uc010fqb.1_Missense_Mutation_p.A496V|MYO3B_uc002ufz.2_Missense_Mutation_p.A509V|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	509	Myosin head-like.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						GTGATGGGGGCAAGAATCTCT	0.433													19	84					0	0	0.010504	0	0		T	171243767	T	T	171243767	3	4	8	1	0	0	0	0	1	0	0	0	10095	710	25	2	1580	2	MYO3B	2	171243767	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	437285	171243767	71955606	204	7013											
TTN	7273	broad.mit.edu	37	chr2	179398768	179398768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctttgacatagaggatggCcactccatcttcgtaggtga	9	12	11	9	1	2	3	0	2	2	1	4	4	3	4	2	3	0	1	2	3	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:179398768C>T	uc010zfg.1	-	307	95094	c.94870G>A	c.(94870-94872)GCC>ACC	p.A31624T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A25319T|TTN_uc010zfi.1_Missense_Mutation_p.A25252T|TTN_uc010zfj.1_Missense_Mutation_p.A25127T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32551							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAGAGGATGGCCACTCCATCT	0.408													7	51					0	0	0.00308	0	0		T	179398768	T	T	179398768	3	4	8	1	0	0	0	0	1	0	0	0	16761	739	26	2	5425	2	TTN	2	179398768	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8155001	179398768	63800605	205	7014											
TTN	7273	broad.mit.edu	37	chr2	179424439	179424439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcaatggtcagtgatgtaCgagagtctgtggtatcaaca	11	13	11	6	1	4	2	3	1	1	1	4	3	4	2	0	2	2	2	0	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:179424439C>T	uc010zfg.1	-	275	78940	c.78716G>A	c.(78715-78717)CGT>CAT	p.R26239H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R19934H|TTN_uc010zfi.1_Missense_Mutation_p.R19867H|TTN_uc010zfj.1_Missense_Mutation_p.R19742H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27166							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGTGATGTACGAGAGTCTGT	0.438													36	122					0	0	0.004289	0	0		T	179424439	T	T	179424439	3	4	8	1	0	0	0	0	1	0	0	0	16761	536	19	1	21707	1	TTN	2	179424439	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	25671	179424439	63774934	206	7015											
TTN	7273	broad.mit.edu	37	chr2	179453540	179453540	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcttactttagtgactTctgggggatcagggcgacca	7	13	12	9	1	2	1	1	1	1	0	2	3	2	2	1	3	2	1	1	3	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:179453540T>C	uc010zfg.1	-	253	55432	c.55208A>G	c.(55207-55209)GAA>GGA	p.E18403G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E12098G|TTN_uc010zfi.1_Missense_Mutation_p.E12031G|TTN_uc010zfj.1_Missense_Mutation_p.E11906G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19330							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTAGTGACTTCTGGGGGATC	0.423													11	47					0	0	0.001855	0	0		C	179453540	C	C	179453540	3	2	8	1	0	0	0	0	1	0	0	0	16761	1783	62	3	45303	3	TTN	2	179453540	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	29101	179453540	63745833	207	7016											
TTN	7273	broad.mit.edu	37	chr2	179454027	179454027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatcttgttaagtctgtagCgtctttgtccttggtccatg	5	18	10	8	1	3	1	0	1	3	0	5	1	5	1	2	1	1	2	2	1	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:179454027C>T	uc010zfg.1	-	253	54945	c.54721G>A	c.(54721-54723)GCT>ACT	p.A18241T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A11936T|TTN_uc010zfi.1_Missense_Mutation_p.A11869T|TTN_uc010zfj.1_Missense_Mutation_p.A11744T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19168							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAGTCTGTAGCGTCTTTGTCC	0.458													33	120					0	0	0.003755	0	0		T	179454027	T	T	179454027	3	4	8	1	0	0	0	0	1	0	0	0	16761	768	27	1	45790	1	TTN	2	179454027	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	487	179454027	63745346	208	7017											
TTN	7273	broad.mit.edu	37	chr2	179587174	179587174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tataccagcacacttggatgGgtgcagagccatttaatcga	12	10	10	9	1	0	1	0	0	0	1	1	3	0	2	2	2	4	2	2	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:179587174G>A	uc010zfg.1	-	74	18832	c.18608C>T	c.(18607-18609)CCC>CTC	p.P6203L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P2864L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7130							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CACTTGGATGGGTGCAGAGCC	0.398													19	86					0	0	0.008871	0	0		A	179587174	A	A	179587174	3	1	8	1	0	0	0	0	1	0	0	0	16761	1232	43	4	82333	4	TTN	2	179587174	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	133147	179587174	63612199	209	7018											
ITGA4	3676	broad.mit.edu	37	chr2	182339944	182339944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgaaaataagctccccaCtggtggttgctatggagtgc	11	10	12	8	0	0	1	0	1	0	0	1	3	1	2	2	3	3	3	2	3	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:182339944C>T	uc002unu.2	+	4	1248	c.485C>T	c.(484-486)ACT>ATT	p.T162I	ITGA4_uc010zfl.1_Missense_Mutation_p.T162I	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	162	FG-GAP 2.|Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	AAGCTCCCCACTGGTGGTTGC	0.368													27	112					0	0	0.005443	0	0		T	182339944	T	T	182339944	3	4	8	1	0	0	0	0	1	0	0	0	7894	565	20	4	499	4	ITGA4	2	182339944	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2752770	182339944	60859429	210	7019											
ITGA4	3676	broad.mit.edu	37	chr2	182399098	182399098	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggatgagaatgttgcgcatGtaagattaccctcttaactg	12	12	10	7	1	1	2	0	1	1	2	1	4	1	3	1	1	3	3	1	1	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:182399098G>A	uc002unu.2	+	26	3646	c.2883_splice	c.e26+1	p.H961_splice	ITGA4_uc002unv.2_Splice_Site_p.H206_splice	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor						blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	TGTTGCGCATGTAAGATTACC	0.368													6	38					0	0	0.00308	0	0		A	182399098	A	A	182399098	5	1	8	1	0	0	0	0	0	0	1	0	7894	1391	48	4	2986	4	ITGA4	2	182399098	Splice_Site	SNP	G	TCGA-BR-4201-01A-01D-1126-08	59154	182399098	60800275	211	7020											
PDE1A	5136	broad.mit.edu	37	chr2	183129093	183129093	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaatattcttctttaagtcGacgacgttaacatcacctct	11	15	4	11	3	5	0	2	0	3	0	6	2	5	0	1	0	1	1	1	0	4	6	rs148985621		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:183129093G>A	uc002uos.2	-	3	234	c.150C>T	c.(148-150)GTC>GTT	p.V50V	PDE1A_uc010zfp.1_5'UTR|PDE1A_uc002uoq.1_Silent_p.V50V|PDE1A_uc010zfq.1_Silent_p.V50V|PDE1A_uc002uor.2_Silent_p.V34V|PDE1A_uc002uov.1_RNA	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	50					activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			TCTTTAAGTCGACGACGTTAA	0.363													11	74					0	0	0.010729	0	0		A	183129093	A	A	183129093	2	1	8	1	0	0	0	0	0	0	0	1	11652	1045	37	1		1	PDE1A	2	183129093	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	729995	183129093	60070280	212	7021											
DNAH7	56171	broad.mit.edu	37	chr2	196636411	196636411	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttttgaatatttacgcaCgaatctcttatggtcttcag	9	17	7	8	2	3	1	1	1	2	0	4	2	3	1	0	1	1	2	0	1	5	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:196636411C>T	uc002utj.3	-	61	11507	c.11406G>A	c.(11404-11406)TCG>TCA	p.S3802S	DNAH7_uc002uti.3_Silent_p.S285S	NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3802					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TATTTACGCACGAATCTCTTA	0.328													21	135					0	0	0.012319	0	0		T	196636411	T	T	196636411	2	4	8	1	0	0	0	0	0	0	0	1	4612	523	19	1		1	DNAH7	2	196636411	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	13507318	196636411	46562962	213	7022											
FZD7	8324	broad.mit.edu	37	chr2	202899989	202899989	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagggggcgtcccgccttcCccttctcatgcccccgtcag	3	8	11	19	3	2	0	2	0	1	0	5	0	4	0	6	2	1	1	6	2	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:202899989C>A	uc002uyw.1	+	1	680	c.619C>A	c.(619-621)CCC>ACC	p.P207T		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	207	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(2)|ovary(1)|breast(1)	4						TCCCGCCTTCCCCTTCTCATG	0.731											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	8					1.23904e-05	1.33197e-05	0.000602	1	0		A	202899989	A	A	202899989	3	1	8	1	0	0	0	0	1	0	0	0	6149	623	22	5	621	5	FZD7	2	202899989	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6263578	202899989	40299384	214	7023											
FZD7	8324	broad.mit.edu	37	chr2	202900525	202900525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtacttccacctggccgcGtgggccgtgcccgccgtcaa	5	7	12	17	5	1	0	1	0	0	0	2	0	2	0	6	2	2	1	6	2	2	2	rs140334850		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:202900525G>A	uc002uyw.1	+	1	1216	c.1155G>A	c.(1153-1155)GCG>GCA	p.A385A		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	385	Helical; Name=4; (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(2)|ovary(1)|breast(1)	4						ACCTGGCCGCGTGGGCCGTGC	0.647											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	30					0	0	0.008291	0	0		A	202900525	A	A	202900525	2	1	8	1	0	0	0	0	0	0	0	1	6149	1132	40	1		1	FZD7	2	202900525	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	536	202900525	40298848	215	7024											
WDR12	55759	broad.mit.edu	37	chr2	203772679	203772679	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggaacatcatctacggcAtatctataaaaaggaaatga	19	8	8	6	1	3	1	1	1	2	0	3	3	3	3	0	3	2	1	0	3	9	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:203772679A>G	uc002uzl.2	-	2	795	c.45T>C	c.(43-45)TAT>TAC	p.Y15Y	WDR12_uc010ftt.2_Silent_p.Y15Y	NM_018256	NP_060726	Q9GZL7	WDR12_HUMAN	WD repeat domain 12 protein	15					cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						CATCTACGGCATATCTATAAA	0.343													10	43					0	0	0.010729	0	0		G	203772679	G	G	203772679	2	3	8	1	0	0	0	0	0	0	0	1	17300	224	8	3		3	WDR12	2	203772679	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	872154	203772679	39426694	216	7025											
RAPH1	65059	broad.mit.edu	37	chr2	204354422	204354422	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgctggaatgggaggaaTtactaatagagtgtacttca	13	12	12	4	0	1	2	1	1	0	1	1	5	1	5	0	3	3	2	0	3	6	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:204354422T>A	uc002vad.2	-	4	842	c.617A>T	c.(616-618)AAT>ATT	p.N206I	RAPH1_uc002vae.2_Missense_Mutation_p.N206I|RAPH1_uc002vaf.2_Missense_Mutation_p.N206I	NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	206					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10						ATGGGAGGAATTACTAATAGA	0.453													18	105					0	0	0.007413	0	0		A	204354422	A	A	204354422	3	1	8	1	0	0	0	0	1	0	0	0	13075	1493	52	5	3350	5	RAPH1	2	204354422	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	581743	204354422	38844951	217	7026											
PARD3B	117583	broad.mit.edu	37	chr2	205978267	205978267	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggaggcccattgggaataCatgtagtgcccttcttttca	10	12	10	9	0	2	0	1	0	1	0	2	2	2	2	2	3	2	1	2	3	4	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:205978267C>G	uc002var.1	+	6	853	c.646C>G	c.(646-648)CAT>GAT	p.H216D	PARD3B_uc010fub.1_Missense_Mutation_p.H216D|PARD3B_uc002vao.1_Missense_Mutation_p.H216D|PARD3B_uc002vap.1_Missense_Mutation_p.H216D|PARD3B_uc002vaq.1_Missense_Mutation_p.H216D	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	216	PDZ 1.				cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		ATTGGGAATACATGTAGTGCC	0.423													10	43					0	0	0.013537	0	0		G	205978267	G	G	205978267	3	3	8	1	0	0	0	0	1	0	0	0	11463	478	17	5	668	5	PARD3B	2	205978267	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1623845	205978267	37221106	218	7027											
PARD3B	117583	broad.mit.edu	37	chr2	205983711	205983711	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcgggagggactatttcaCgaaaatgaatgtattgtaaa	16	10	11	4	2	1	1	1	1	0	0	1	4	1	3	0	2	1	2	0	2	8	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:205983711C>T	uc002var.1	+	7	954	c.747C>T	c.(745-747)CAC>CAT	p.H249H	PARD3B_uc010fub.1_Silent_p.H249H|PARD3B_uc002vao.1_Silent_p.H249H|PARD3B_uc002vap.1_Silent_p.H249H|PARD3B_uc002vaq.1_Silent_p.H249H	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	249	PDZ 1.				cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		GACTATTTCACGAAAATGAAT	0.348													15	68					0	0	0.007413	0	0		T	205983711	T	T	205983711	2	4	8	1	0	0	0	0	0	0	0	1	11463	535	19	1		1	PARD3B	2	205983711	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5444	205983711	37215662	219	7028											
NRP2	8828	broad.mit.edu	37	chr2	206587398	206587398	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagagggggactgcaagtaCgattggctggacatctggga	10	7	18	6	1	1	1	0	0	1	1	1	6	1	4	0	6	2	3	0	6	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:206587398C>T	uc002vaw.2	+	4	1421	c.630C>T	c.(628-630)TAC>TAT	p.Y210Y	NRP2_uc002vat.2_Silent_p.Y210Y|NRP2_uc002vau.2_Silent_p.Y210Y|NRP2_uc002vav.2_Silent_p.Y210Y|NRP2_uc002vax.2_Silent_p.Y210Y|NRP2_uc002vay.2_Silent_p.Y210Y|NRP2_uc010fud.2_Silent_p.Y210Y	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	210	Extracellular (Potential).|CUB 2.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						ACTGCAAGTACGATTGGCTGG	0.502													4	50					0	0	0.000602	0	0		T	206587398	T	T	206587398	2	4	8	1	0	0	0	0	0	0	0	1	10680	547	19	1		1	NRP2	2	206587398	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	603687	206587398	36611975	220	7029											
INO80D	54891	broad.mit.edu	37	chr2	206870106	206870106	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacctgtggagaacaccccTattcctctatctgacaactc	10	11	6	14	0	2	2	0	1	2	1	4	3	3	2	4	1	3	1	4	1	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:206870106T>C	uc002vaz.3	-	11	2475	c.2070A>G	c.(2068-2070)ATA>ATG	p.I690M		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	690					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						AGAACACCCCTATTCCTCTAT	0.527													6	96					0	0	0.001168	0	0		C	206870106	C	C	206870106	3	2	8	1	0	0	0	0	1	0	0	0	7765	1512	53	3	1017	3	INO80D	2	206870106	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	282708	206870106	36329267	221	7030											
CRYGC	1420	broad.mit.edu	37	chr2	208993108	208993108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatctcgctgaggtggaagCggtcctggatgctggggcag	6	8	19	8	2	1	1	0	1	1	0	3	4	2	4	1	7	2	3	1	7	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:208993108C>T	uc002vco.3	-	3	382	c.344G>A	c.(343-345)CGC>CAC	p.R115H		NM_020989	NP_066269	P07315	CRGC_HUMAN	crystallin, gamma C	115	Beta/gamma crystallin 'Greek key' 3.				visual perception	cytoplasm|nucleus	protein binding|structural constituent of eye lens				0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.0858)|Lung(261;0.133)		GAGGTGGAAGCGGTCCTGGAT	0.627													13	46					0	0	0.004007	0	0		T	208993108	T	T	208993108	3	4	8	1	0	0	0	0	1	0	0	0	3919	768	27	1	184	1	CRYGC	2	208993108	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2123002	208993108	34206265	222	7031											
PTH2R	5746	broad.mit.edu	37	chr2	209308074	209308074	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatatttctctccgtagaCgattgcattgcactaggaac	11	13	8	9	2	1	2	0	1	1	1	3	4	2	3	1	1	3	3	1	1	5	6	rs149710383		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:209308074C>T	uc002vdb.2	+	6	724	c.511C>T	c.(511-513)CGA>TGA	p.R171*	PTH2R_uc010zjb.1_Nonsense_Mutation_p.R182*	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	171	Cytoplasmic (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		TCTCCGTAGACGATTGCATTG	0.433													11	55					0	0	0.010729	0	0		T	209308074	T	T	209308074	4	4	8	1	0	0	0	0	0	1	0	0	12783	550	19	1	533	1	PTH2R	2	209308074	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	314966	209308074	33891299	223	7032											
MAP2	4133	broad.mit.edu	37	chr2	210559705	210559705	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgacaaagaagcatccgcGcatatctctggtgacaaatc	13	9	9	10	2	1	3	0	2	1	1	4	3	2	3	1	1	1	3	1	1	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:210559705G>A	uc002vde.1	+	7	3059	c.2811G>A	c.(2809-2811)GCG>GCA	p.A937A	MAP2_uc002vdc.1_Silent_p.A937A|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.A933A	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	937					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	AAGCATCCGCGCATATCTCTG	0.433													12	68					0	0	0.013537	0	0		A	210559705	A	A	210559705	2	1	8	1	0	0	0	0	0	0	0	1	9253	1074	38	1		1	MAP2	2	210559705	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1251631	210559705	32639668	224	7033											
CPS1	1373	broad.mit.edu	37	chr2	211457621	211457621	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggattatgcatgagagcAaacccttcttcgctgtgcag	10	10	12	9	1	1	1	0	1	1	1	2	3	1	2	1	2	4	4	1	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:211457621A>G	uc002vee.3	+	11	1237	c.1105A>G	c.(1105-1107)AAA>GAA	p.K369E	CPS1_uc010fur.2_Missense_Mutation_p.K375E|CPS1_uc010fus.2_5'Flank	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	369	Glutamine amidotransferase type-1.				carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		GCATGAGAGCAAACCCTTCTT	0.418													10	61					0	0	0.013537	0	0		G	211457621	G	G	211457621	3	3	8	1	0	0	0	0	1	0	0	0	3826	131	5	3	1169	3	CPS1	2	211457621	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	897916	211457621	31741752	225	7034											
CPS1	1373	broad.mit.edu	37	chr2	211540487	211540487	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccacatcagactggctcaaCgccaacaatgtccctgccac	11	6	7	17	1	2	1	2	0	0	1	3	1	3	1	4	1	3	1	4	1	3	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:211540487C>T	uc002vee.3	+	36	4329	c.4197C>T	c.(4195-4197)AAC>AAT	p.N1399N	CPS1_uc010fur.2_Silent_p.N1405N|CPS1_uc010fus.2_Silent_p.N948N	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1399					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		ACTGGCTCAACGCCAACAATG	0.438													8	36					0	0	0.008291	0	0		T	211540487	T	T	211540487	2	4	8	1	0	0	0	0	0	0	0	1	3826	535	19	1		1	CPS1	2	211540487	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	82866	211540487	31658886	226	7035											
IKZF2	22807	broad.mit.edu	37	chr2	213921663	213921663	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccggattcctccctcgccTtgaagctcctggactttcct	5	12	8	16	2	0	1	0	1	0	0	5	3	4	3	6	2	2	1	6	2	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:213921663T>G	uc002vem.2	-	4	469	c.300A>C	c.(298-300)CAA>CAC	p.Q100H	IKZF2_uc010fuu.2_Intron|IKZF2_uc002vej.2_Missense_Mutation_p.Q47H|IKZF2_uc002vek.2_RNA|IKZF2_uc010fuv.2_Missense_Mutation_p.Q100H|IKZF2_uc002vel.2_Missense_Mutation_p.Q47H|IKZF2_uc010fuw.2_5'UTR|IKZF2_uc010fux.2_Intron|IKZF2_uc010fuy.2_Missense_Mutation_p.Q100H|IKZF2_uc002ven.2_Missense_Mutation_p.Q100H	NM_016260	NP_057344	Q9UKS7	IKZF2_HUMAN	helios isoform 1	100					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		CTCCCTCGCCTTGAAGCTCCT	0.512													12	73					0	0	0.003163	0	0		G	213921663	G	G	213921663	3	3	8	1	0	0	0	0	1	0	0	0	7631	1606	56	5	1300	5	IKZF2	2	213921663	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2381176	213921663	29277710	227	7036											
SPAG16	79582	broad.mit.edu	37	chr2	215274888	215274888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agttttagctcaggcaagtgGcaatggtgttatccatttgc	9	14	11	7	0	1	0	1	0	0	0	2	0	2	0	1	3	2	5	1	3	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:215274888G>A	uc002veq.2	+	16	1837	c.1745G>A	c.(1744-1746)GGC>GAC	p.G582D	SPAG16_uc002ver.2_Missense_Mutation_p.G528D|SPAG16_uc010zjk.1_Missense_Mutation_p.G488D|VWC2L_uc002vet.2_5'Flank|VWC2L_uc010zjl.1_5'Flank	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	582	WD 6.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		CAGGCAAGTGGCAATGGTGTT	0.438													11	72					0	0	0.010729	0	0		A	215274888	A	A	215274888	3	1	8	1	0	0	0	0	1	0	0	0	15003	1203	42	2	1823	2	SPAG16	2	215274888	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1353225	215274888	27924485	228	7037											
ABCA12	26154	broad.mit.edu	37	chr2	215876354	215876354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccttgtggtgtgttcattCggttgcttctgtacattgcc	4	18	10	9	1	2	0	1	0	1	0	4	0	3	0	2	2	3	4	2	2	1	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:215876354C>T	uc002vew.2	-	17	2361	c.2141G>A	c.(2140-2142)CGA>CAA	p.R714Q	ABCA12_uc002vev.2_Missense_Mutation_p.R396Q|ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	714					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TGTGTTCATTCGGTTGCTTCT	0.403													20	96					0	0	0.012319	0	0		T	215876354	T	T	215876354	3	4	8	1	0	0	0	0	1	0	0	0	30	884	31	1	5794	1	ABCA12	2	215876354	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	601466	215876354	27323019	229	7038											
FN1	2335	broad.mit.edu	37	chr2	216273121	216273121	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggaagcaggtcagggatGttcacagaagtggctgtgct	10	8	15	8	0	2	1	2	0	0	1	2	3	2	3	1	4	2	4	1	4	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:216273121G>A	uc002vfa.2	-	16	2594	c.2328C>T	c.(2326-2328)AAC>AAT	p.N776N	FN1_uc002vfb.2_Silent_p.N776N|FN1_uc002vfc.2_Silent_p.N776N|FN1_uc002vfd.2_Silent_p.N776N|FN1_uc002vfe.2_Silent_p.N776N|FN1_uc002vff.2_Silent_p.N776N|FN1_uc002vfg.2_Silent_p.N776N|FN1_uc002vfh.2_Silent_p.N776N|FN1_uc002vfi.2_Silent_p.N776N|FN1_uc002vfj.2_Silent_p.N776N	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	776	Fibronectin type-III 2.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGTCAGGGATGTTCACAGAAG	0.408													7	33					0	0	0.004482	0	0		A	216273121	A	A	216273121	2	1	8	1	0	0	0	0	0	0	0	1	5976	1368	48	4		4	FN1	2	216273121	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	396767	216273121	26926252	230	7039											
TNS1	7145	broad.mit.edu	37	chr2	218683462	218683462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcactgctctctcccgacGggaaactccccactgaagtg	8	8	10	15	2	2	1	1	1	1	0	5	3	4	2	3	2	2	1	3	2	2	0	rs149785174	by1000genomes	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:218683462G>A	uc002vgt.2	-	24	3679	c.3281C>T	c.(3280-3282)CCG>CTG	p.P1094L	TNS1_uc002vgr.2_Missense_Mutation_p.P1081L|TNS1_uc002vgs.2_Missense_Mutation_p.P1073L|TNS1_uc010zjv.1_Missense_Mutation_p.P1073L	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1094	Ser-rich.					cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		CTCTCCCGACGGGAAACTCCC	0.627													3	21					0	0	0.000602	0	0		A	218683462	A	A	218683462	3	1	8	1	0	0	0	0	1	0	0	0	16368	1116	39	1	1966	1	TNS1	2	218683462	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2410341	218683462	24515911	231	7040											
CYP27A1	1593	broad.mit.edu	37	chr2	219676971	219676971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccactggtaccagctgcGccaggctctgaaccagcggt	9	6	11	15	2	1	1	0	1	1	0	1	1	1	1	4	3	5	3	4	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:219676971G>A	uc002viz.3	+	3	907	c.473G>A	c.(472-474)CGC>CAC	p.R158H		NM_000784	NP_000775	Q02318	CP27A_HUMAN	cytochrome P450, family 27, subfamily A,	158					bile acid biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	cholestanetriol 26-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;9.48e-07)|all cancers(144;0.000171)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00981)	Cholecalciferol(DB00169)	TACCAGCTGCGCCAGGCTCTG	0.537													7	45					0	0	0.001984	0	0		A	219676971	A	A	219676971	3	1	8	1	0	0	0	0	1	0	0	0	4161	1087	38	1	483	1	CYP27A1	2	219676971	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	993509	219676971	23522402	232	7041											
CCDC108	255101	broad.mit.edu	37	chr2	219893035	219893035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccccgggccaggtgtgtgCggtaccaggtgaggtgctga	5	7	19	10	2	0	2	0	2	0	0	0	2	0	2	4	6	3	2	4	6	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:219893035C>T	uc002vjl.1	-	12	1823	c.1739G>A	c.(1738-1740)CGC>CAC	p.R580H	CCDC108_uc010fwa.1_Missense_Mutation_p.R23H|CCDC108_uc010zkp.1_Missense_Mutation_p.R569H|CCDC108_uc010zkq.1_Missense_Mutation_p.R515H	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	580						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAGGTGTGTGCGGTACCAGGT	0.617													20	38					0	0	0.012319	0	0		T	219893035	T	T	219893035	3	4	8	1	0	0	0	0	1	0	0	0	2746	768	27	1	4134	1	CCDC108	2	219893035	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	216064	219893035	23306338	233	7042											
ABCB6	10058	broad.mit.edu	37	chr2	220074986	220074986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcagccatccttgatgaCgaggatctggtcagcattga	10	10	12	9	1	2	3	1	3	1	0	3	6	3	4	2	2	3	2	2	2	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:220074986C>T	uc002vkc.1	-	18	2663	c.2386G>A	c.(2386-2388)GTC>ATC	p.V796I	ABCB6_uc010fwe.1_Missense_Mutation_p.V750I	NM_005689	NP_005680	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B, member 6	796	ABC transporter.				cadmium ion transmembrane transport|cellular iron ion homeostasis|detoxification of cadmium ion|porphyrin biosynthetic process	ATP-binding cassette (ABC) transporter complex|Golgi apparatus|integral to mitochondrial outer membrane|plasma membrane|vacuolar membrane	ATP binding|efflux transmembrane transporter activity|heme binding|heme-transporting ATPase activity			breast(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;1.22e-06)|all cancers(144;0.000201)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCCTTGATGACGAGGATCTGG	0.552													10	49					0	0	0.008291	0	0		T	220074986	T	T	220074986	3	4	8	1	0	0	0	0	1	0	0	0	45	536	19	1	150	1	ABCB6	2	220074986	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	181951	220074986	23124387	234	7043											
INHA	3623	broad.mit.edu	37	chr2	220440169	220440169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgaggcccctacatgtccGcaccacctcggatggaggtt	8	8	11	14	2	0	1	0	1	0	0	2	3	1	3	5	4	1	2	5	4	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:220440169G>A	uc002vmk.1	+	2	1166	c.1022G>A	c.(1021-1023)CGC>CAC	p.R341H		NM_002191	NP_002182	P05111	INHA_HUMAN	inhibin alpha subunit precursor	341					cell cycle arrest|cell surface receptor linked signaling pathway|cell-cell signaling|erythrocyte differentiation|hemoglobin biosynthetic process|induction of apoptosis|negative regulation of B cell differentiation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|regulation of cell proliferation|response to external stimulus|skeletal system development	inhibin A complex|inhibin-betaglycan-ActRII complex	cytokine activity|growth factor activity|hormone activity|signal transducer activity			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;4.58e-07)|all cancers(144;4.31e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		CTACATGTCCGCACCACCTCG	0.612													24	118					0	0	0.00632	0	0		A	220440169	A	A	220440169	3	1	8	1	0	0	0	0	1	0	0	0	7756	1087	38	1	1028	1	INHA	2	220440169	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	365183	220440169	22759204	235	7044											
WDFY1	57590	broad.mit.edu	37	chr2	224758993	224758993	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacactgcaattccgccGtccgaggaacaggagacgag	11	6	11	13	4	0	1	0	0	0	1	3	5	3	2	4	2	2	1	4	2	2	2	rs145535635		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:224758993G>A	uc002vnq.2	-	8	840	c.789C>T	c.(787-789)GAC>GAT	p.D263D		NM_020830	NP_065881	Q8IWB7	WDFY1_HUMAN	WD repeat and FYVE domain containing 1	263	WD 6.					cytosol|early endosome|nucleus	1-phosphatidylinositol binding|zinc ion binding			lung(1)	1		all_lung(227;0.00682)|Lung NSC(271;0.00859)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;5.34e-10)|all cancers(144;1.67e-07)|Lung(261;0.00807)|LUSC - Lung squamous cell carcinoma(224;0.00843)		CAATTCCGCCGTCCGAGGAAC	0.557													10	42					0	0	0.003163	0	0		A	224758993	A	A	224758993	2	1	8	1	0	0	0	0	0	0	0	1	17294	1136	40	1		1	WDFY1	2	224758993	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4318824	224758993	18440380	236	7045											
DOCK10	55619	broad.mit.edu	37	chr2	225637874	225637874	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcaatgcttactcacCttcacgctgacacttccttg	7	12	7	15	1	2	1	2	1	0	0	3	1	3	1	3	1	2	3	3	1	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:225637874C>A	uc010fwz.1	-	53	6443	c.6204G>T	c.(6202-6204)AAG>AAT	p.K2068N	DOCK10_uc002vob.2_Missense_Mutation_p.K2062N|DOCK10_uc002voa.2_Missense_Mutation_p.K724N	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	2068	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		GCTTACTCACCTTCACGCTGA	0.433													8	31					3.09899e-07	3.37248e-07	0.004482	1	0		A	225637874	A	A	225637874	3	1	8	1	0	0	0	0	1	0	0	0	4691	695	24	5	372	5	DOCK10	2	225637874	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	878881	225637874	17561499	237	7046											
SPHKAP	80309	broad.mit.edu	37	chr2	228883406	228883406	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaatatgactcatcttctTgaacgtgaagcatatcacat	14	13	5	9	1	4	3	2	3	2	0	4	3	4	3	0	0	3	1	0	0	6	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:228883406T>C	uc002vpq.2	-	7	2211	c.2164A>G	c.(2164-2166)AAG>GAG	p.K722E	SPHKAP_uc002vpp.2_Missense_Mutation_p.K722E|SPHKAP_uc010zlx.1_Missense_Mutation_p.K722E	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	722						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CTCATCTTCTTGAACGTGAAG	0.438													27	145					0	0	0.007291	0	0		C	228883406	C	C	228883406	3	2	8	1	0	0	0	0	1	0	0	0	15073	1821	63	3	2962	3	SPHKAP	2	228883406	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	3245532	228883406	14315967	238	7047											
SLC16A14	151473	broad.mit.edu	37	chr2	230923861	230923861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgacccaggcggtcaggcCgcggctctggtggaattctt	5	9	15	12	3	3	1	1	1	2	0	3	2	3	2	2	6	0	2	2	6	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:230923861C>T	uc002vqd.1	-	2	571	c.208G>A	c.(208-210)GGC>AGC	p.G70S	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Missense_Mutation_p.G70S|SLC16A14_uc002vqf.2_Missense_Mutation_p.G70S	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	70	Cytoplasmic (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		GCGGTCAGGCCGCGGCTCTGG	0.537													5	25					0	0	0.000602	0	0		T	230923861	T	T	230923861	3	4	8	1	0	0	0	0	1	0	0	0	14432	652	23	1	1340	1	SLC16A14	2	230923861	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2040455	230923861	12275512	239	7048											
ALPI	248	broad.mit.edu	37	chr2	233322294	233322294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgatccttggcggaggccGcaagtacatgtttcccatgg	7	10	14	10	2	0	1	0	1	0	0	2	2	2	2	3	5	1	3	3	5	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:233322294G>A	uc002vst.3	+	6	745	c.668G>A	c.(667-669)CGC>CAC	p.R223H	ALPI_uc002vsu.3_Missense_Mutation_p.R134H	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	223					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GGCGGAGGCCGCAAGTACATG	0.632													7	45					0	0	0.004482	0	0		A	233322294	A	A	233322294	3	1	8	1	0	0	0	0	1	0	0	0	543	1087	38	1	690	1	ALPI	2	233322294	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2398433	233322294	9877079	240	7049											
HJURP	55355	broad.mit.edu	37	chr2	234750556	234750556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctggagttccagttttgCatgatgaacgttttggtgga	7	15	12	7	1	0	2	0	2	0	0	2	4	2	4	2	3	2	4	2	3	1	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:234750556C>T	uc002vvg.2	-	8	936	c.870G>A	c.(868-870)ATG>ATA	p.M290I	HJURP_uc010znd.1_Missense_Mutation_p.M229I|HJURP_uc010zne.1_Missense_Mutation_p.M198I	NM_018410	NP_060880	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	290					cell cycle|CenH3-containing nucleosome assembly at centromere|centromeric core chromatin assembly|chromosome segregation|regulation of DNA binding|regulation of protein complex assembly	condensed chromosome kinetochore|cytoplasm|nucleolus|nucleoplasm	DNA binding|histone binding			ovary(1)	1		Breast(86;0.00204)|all_lung(227;0.00433)|Renal(207;0.00685)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0719)|Lung SC(224;0.128)		Epithelial(121;2.01e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000186)|Lung(119;0.00521)|LUSC - Lung squamous cell carcinoma(224;0.00829)		TCCAGTTTTGCATGATGAACG	0.493													10	76					0	0	0.006214	0	0		T	234750556	T	T	234750556	3	4	8	1	0	0	0	0	1	0	0	0	7205	710	25	2	1384	2	HJURP	2	234750556	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1428262	234750556	8448817	241	7050											
COL6A3	1293	broad.mit.edu	37	chr2	238245163	238245163	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaggacttgaagtaacgttAttcggaacatttctgttaag	12	14	10	5	2	1	1	0	1	1	0	2	3	1	3	0	2	2	4	0	2	6	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:238245163A>G	uc002vwl.2	-	40	8865	c.8580T>C	c.(8578-8580)AAT>AAC	p.N2860N	COL6A3_uc002vwo.2_Silent_p.N2654N|COL6A3_uc010znj.1_Silent_p.N2253N|COL6A3_uc002vwj.2_Silent_p.N241N	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2860	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AAGTAACGTTATTCGGAACAT	0.398													5	120					0	0	0.001168	0	0		G	238245163	G	G	238245163	2	3	8	1	0	0	0	0	0	0	0	1	3704	446	16	3		3	COL6A3	2	238245163	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3494607	238245163	4954210	242	7051											
ILKAP	80895	broad.mit.edu	37	chr2	239090722	239090722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttacctgacgtttcctccagCcttctgtatcctcatccgct	5	15	5	16	2	2	1	1	1	1	0	6	1	6	1	6	0	2	3	6	0	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:239090722C>T	uc002vxv.2	-	9	950	c.820G>A	c.(820-822)GCT>ACT	p.A274T	ILKAP_uc010zns.1_Missense_Mutation_p.A206T|ILKAP_uc002vxw.2_Missense_Mutation_p.A154T|ILKAP_uc010znt.1_Missense_Mutation_p.A154T	NM_030768	NP_110395	Q9H0C8	ILKAP_HUMAN	integrin-linked kinase-associated protein	274	PP2C-like.					cytoplasm|protein serine/threonine phosphatase complex	metal ion binding|protein binding			ovary(3)	3		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_lung(227;0.152)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;5.49e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.93e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.82e-08)|BRCA - Breast invasive adenocarcinoma(100;0.00012)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0163)		TTTCCTCCAGCCTTCTGTATC	0.488													37	157					0	0	0.007835	0	0		T	239090722	T	T	239090722	3	4	8	1	0	0	0	0	1	0	0	0	7730	739	26	2	374	2	ILKAP	2	239090722	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	845559	239090722	4108651	243	7052											
PER2	8864	broad.mit.edu	37	chr2	239161605	239161605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgccaggtttgcagtccGcccctacagctgctgtctct	6	11	10	14	1	1	0	0	0	1	0	3	0	2	0	4	1	5	4	4	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:239161605G>A	uc002vyc.2	-	19	3296	c.3059C>T	c.(3058-3060)GCG>GTG	p.A1020V	PER2_uc010znv.1_Missense_Mutation_p.A1020V	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	1020					circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		TTTGCAGTCCGCCCCTACAGC	0.622													16	54					0	0	0.006122	0	0		A	239161605	A	A	239161605	3	1	8	1	0	0	0	0	1	0	0	0	11749	1087	38	1	728	1	PER2	2	239161605	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	70883	239161605	4037768	244	7053											
PRR21	643905	broad.mit.edu	37	chr2	240981288	240981288	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaagacaggtgttgaaggtgGccctggcagacagcagcaag	12	5	16	8	0	0	3	0	1	0	2	0	4	0	3	1	4	2	4	1	4	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:240981288G>C	uc010zod.1	-	1	1112	c.1112C>G	c.(1111-1113)GCC>GGC	p.A371G		NM_001080835	NP_001074304	Q8WXC7	PRR21_HUMAN	proline rich 21	371										ovary(1)|skin(1)	2						GTTGAAGGTGGCCCTGGCAGA	0.478													18	59					0	0	0.014323	0	0		C	240981288	C	C	240981288	3	2	8	1	0	0	0	0	1	0	0	0	12614	1203	42	5	60	5	PRR21	2	240981288	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1819683	240981288	2218085	245	7054											
ANKMY1	51281	broad.mit.edu	37	chr2	241463615	241463615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggaccccccacactgccCggtgtcctggaagtggccgc	6	7	12	16	2	0	0	0	0	0	0	1	2	1	2	6	4	1	0	6	4	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:241463615C>T	uc002vyz.1	-	7	1481	c.1252G>A	c.(1252-1254)GGG>AGG	p.G418R	ANKMY1_uc002vza.1_Missense_Mutation_p.G277R|ANKMY1_uc010fzd.1_Missense_Mutation_p.G507R|ANKMY1_uc002vzb.1_Intron|ANKMY1_uc002vzc.1_Missense_Mutation_p.G277R|ANKMY1_uc002vzd.1_Missense_Mutation_p.G277R|ANKMY1_uc010fze.1_Missense_Mutation_p.G87R|ANKMY1_uc002vze.2_Missense_Mutation_p.G179R	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	418							zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		CCACACTGCCCGGTGTCCTGG	0.657													4	19					0	0	0.001984	0	0		T	241463615	T	T	241463615	3	4	8	1	0	0	0	0	1	0	0	0	634	652	23	1	1617	1	ANKMY1	2	241463615	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	482327	241463615	1735758	246	7055											
KIF1A	547	broad.mit.edu	37	chr2	241712648	241712648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgatgacagcattgcagcGgatctgcttggcccggtcag	8	10	13	10	2	2	2	1	2	1	0	2	3	2	3	1	3	4	3	1	3	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:241712648G>A	uc002vzy.2	-	13	1209	c.1063C>T	c.(1063-1065)CGC>TGC	p.R355C	KIF1A_uc010fzk.2_Missense_Mutation_p.R355C|KIF1A_uc002vzz.1_Missense_Mutation_p.R355C	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	355	Kinesin-motor.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		GCATTGCAGCGGATCTGCTTG	0.627													6	35					0	0	0.00308	0	0		A	241712648	A	A	241712648	3	1	8	1	0	0	0	0	1	0	0	0	8299	1116	39	1	4149	1	KIF1A	2	241712648	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	249033	241712648	1486725	247	7056											
KIF1A	547	broad.mit.edu	37	chr2	241726674	241726674	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggggagccctacctccacGgagtaggacatgttgtcgtt	7	9	14	11	3	0	0	0	0	0	0	2	3	1	3	3	4	2	3	3	4	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:241726674G>A	uc002vzy.2	-	5	569	c.423C>T	c.(421-423)TCC>TCT	p.S141S	KIF1A_uc010fzk.2_Silent_p.S141S|KIF1A_uc002vzz.1_Silent_p.S141S	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	141	Kinesin-motor.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		CTACCTCCACGGAGTAGGACA	0.632													4	22					0	0	0.001984	0	0		A	241726674	A	A	241726674	2	1	8	1	0	0	0	0	0	0	0	1	8299	1103	39	1		1	KIF1A	2	241726674	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	14026	241726674	1472699	248	7057											
MTERFD2	130916	broad.mit.edu	37	chr2	242039193	242039193	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgacccctccattggaGgctgtagtcagtttgcgcaa	9	11	10	11	1	2	1	2	1	0	0	3	2	3	2	3	2	1	4	3	2	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:242039193G>T	uc002wan.1	-	1	718	c.225C>A	c.(223-225)GCC>GCA	p.A75A	MTERFD2_uc010zoj.1_Intron|MTERFD2_uc010zok.1_Silent_p.A46A	NM_182501	NP_872307	Q7Z6M4	MTER2_HUMAN	MTERF domain containing 2	46										ovary(1)	1		all_cancers(19;4.67e-31)|all_epithelial(40;8.67e-13)|Breast(86;0.000141)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;2.47e-32)|all cancers(36;1.79e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-14)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;2.81e-06)|Lung(119;0.000509)|LUSC - Lung squamous cell carcinoma(224;0.00442)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0886)		CTCCATTGGAGGCTGTAGTCA	0.507													8	60					0.000442599	0.000469772	0.006214	1	0		T	242039193	T	T	242039193	2	4	8	1	0	0	0	0	0	0	0	1	9938	987	35	5		5	MTERFD2	2	242039193	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	312519	242039193	1160180	249	7058											
PASK	23178	broad.mit.edu	37	chr2	242066171	242066171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcccccagggaggtccGtggccaaggcatagcaggct	8	4	15	14	1	0	0	0	0	0	0	1	1	1	1	5	6	1	3	5	6	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:242066171G>A	uc002wao.1	-	10	2251	c.2159C>T	c.(2158-2160)ACG>ATG	p.T720M	PASK_uc010zol.1_Missense_Mutation_p.T534M|PASK_uc010zom.1_Missense_Mutation_p.T685M|PASK_uc010fzl.1_Missense_Mutation_p.T720M|PASK_uc010zon.1_Missense_Mutation_p.T501M|PASK_uc002wap.2_Missense_Mutation_p.T263M|PASK_uc002waq.2_Missense_Mutation_p.T720M	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	720					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		AGGGAGGTCCGTGGCCAAGGC	0.607													7	40					0	0	0.001984	0	0		A	242066171	A	A	242066171	3	1	8	1	0	0	0	0	1	0	0	0	11491	1145	40	1	1848	1	PASK	2	242066171	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	26978	242066171	1133202	250	7059											
PASK	23178	broad.mit.edu	37	chr2	242066359	242066359	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccttaatcaagcaggtctgCagctcttctcggtcgttttc	6	15	8	12	2	4	0	1	0	3	0	8	0	5	0	1	2	3	4	1	2	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:242066359C>T	uc002wao.1	-	10	2063	c.1971G>A	c.(1969-1971)CTG>CTA	p.L657L	PASK_uc010zol.1_Silent_p.L471L|PASK_uc010zom.1_Silent_p.L622L|PASK_uc010fzl.1_Silent_p.L657L|PASK_uc010zon.1_Silent_p.L438L|PASK_uc002wap.2_Silent_p.L200L|PASK_uc002waq.2_Silent_p.L657L	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	657					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		AGCAGGTCTGCAGCTCTTCTC	0.607													16	104					0	0	0.00499	0	0		T	242066359	T	T	242066359	2	4	8	1	0	0	0	0	0	0	0	1	11491	697	25	2		2	PASK	2	242066359	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	188	242066359	1133014	251	7060											
ANO7	50636	broad.mit.edu	37	chr2	242163537	242163537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccactggacacccttcaCggttcccaaggccagccagc	8	6	8	19	1	1	0	1	0	0	0	3	1	3	1	5	3	2	1	5	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:242163537C>T	uc002wax.2	+	25	2874	c.2771C>T	c.(2770-2772)ACG>ATG	p.T924M		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	924	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						ACACCCTTCACGGTTCCCAAG	0.652													4	24					0	0	0.009096	0	0		T	242163537	T	T	242163537	3	4	8	1	0	0	0	0	1	0	0	0	702	536	19	1	2941	1	ANO7	2	242163537	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	97178	242163537	1035836	252	7061											
HDLBP	3069	broad.mit.edu	37	chr2	242174626	242174626	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcgaggcccgtgatggcGatgatgtcagactgcagctc	8	7	15	11	3	1	3	1	2	0	1	2	5	1	3	1	2	3	3	1	2	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr2:242174626G>A	uc002waz.2	-	23	3282	c.3054C>T	c.(3052-3054)ATC>ATT	p.I1018I	HDLBP_uc002wba.2_Silent_p.I1018I|HDLBP_uc002wbb.2_Silent_p.I970I	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	1018	KH 12.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		CCGTGATGGCGATGATGTCAG	0.597													14	74					0	0	0.003163	0	0		A	242174626	A	A	242174626	2	1	8	1	0	0	0	0	0	0	0	1	7041	1048	37	1		1	HDLBP	2	242174626	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	11089	242174626	1024747	253	7062											
ITPR1	3708	broad.mit.edu	37	chr3	4856237	4856237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagatgtactcaggaagccGtccaaagaggtaaattaatc	15	8	11	7	1	1	2	1	0	0	2	3	4	2	3	2	3	2	2	2	3	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:4856237G>A	uc003bqa.2	+	55	7896	c.7548G>A	c.(7546-7548)CCG>CCA	p.P2516P	ITPR1_uc010hca.1_Silent_p.P2501P|ITPR1_uc011asu.1_Silent_p.P527P|ITPR1_uc003bqc.2_Silent_p.P1486P|ITPR1_uc010hcc.1_Silent_p.P284P|ITPR1_uc011asv.1_Silent_p.P240P	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	2564	Lumenal (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		TCAGGAAGCCGTCCAAAGAGG	0.562													14	38					0	0	0.00245	0	0		A	4856237	A	A	4856237	2	1	8	1	0	0	0	0	0	0	0	1	7936	1132	40	1		1	ITPR1	3	4856237	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08		4856237	193166193	254	7063											
GRM7	2917	broad.mit.edu	37	chr3	7620434	7620434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcatggccactttcatccGctacaatgacacgcccattg	9	11	7	14	2	2	1	2	1	0	0	3	1	3	1	3	1	1	1	3	1	2	3	rs150165030	by1000genomes	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:7620434G>A	uc003bqm.2	+	8	2115	c.1841G>A	c.(1840-1842)CGC>CAC	p.R614H	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.R614H|GRM7_uc003bql.2_Missense_Mutation_p.R614H|GRM7_uc003bqn.1_Missense_Mutation_p.R197H|GRM7_uc010hch.1_Missense_Mutation_p.R125H	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	614	Helical; Name=1; (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	ACTTTCATCCGCTACAATGAC	0.502													21	95					0	0	0.012319	0	0		A	7620434	A	A	7620434	3	1	8	1	0	0	0	0	1	0	0	0	6818	1087	38	1	1871	1	GRM7	3	7620434	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2764197	7620434	190401996	255	7064											
C3orf32	51066	broad.mit.edu	37	chr3	8669394	8669394	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcccctaccttcgcctgcCggaccccgcgcacagctgac	6	6	9	20	4	0	1	0	1	0	0	1	2	0	2	7	1	4	2	7	1	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:8669394C>T	uc003bqu.2	-	8	844	c.598G>A	c.(598-600)GGC>AGC	p.G200S	C3orf32_uc003bqz.2_Missense_Mutation_p.G200S|C3orf32_uc003bqt.2_Missense_Mutation_p.G149S|C3orf32_uc011atg.1_Missense_Mutation_p.G222S|C3orf32_uc003bqv.2_Missense_Mutation_p.G149S|C3orf32_uc003bqw.2_RNA|C3orf32_uc003bqx.2_RNA|C3orf32_uc003bqy.2_Missense_Mutation_p.G200S	NM_015931	NP_057015	Q9Y2M2	CC032_HUMAN	hypothetical protein LOC51066	200	Cys-rich.									skin(1)	1						CTTCGCCTGCCGGACCCCGCG	0.592													8	19					0	0	0.006214	0	0		T	8669394	T	T	8669394	3	4	8	1	0	0	0	0	1	0	0	0	2225	652	23	1	483	1	C3orf32	3	8669394	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1048960	8669394	189353036	256	7065											
BRPF1	7862	broad.mit.edu	37	chr3	9784848	9784848	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccgccaggcccggcgccAggcagaaaaaatgggcattg	10	4	14	13	3	0	1	0	0	0	1	1	1	1	1	4	4	0	3	4	4	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:9784848A>G	uc003bse.2	+	7	2603	c.2204A>G	c.(2203-2205)CAG>CGG	p.Q735R	BRPF1_uc003bsf.2_Missense_Mutation_p.Q741R|BRPF1_uc003bsg.2_Missense_Mutation_p.Q735R|BRPF1_uc011ati.1_Missense_Mutation_p.Q735R	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	735	Required for RUNX1 and RUNX2 transcriptional activation.|Interaction with MEAF6 and ING5.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					GCCCGGCGCCAGGCAGAAAAA	0.582													6	33					0	0	0.001168	0	0		G	9784848	G	G	9784848	3	3	8	1	0	0	0	0	1	0	0	0	1523	188	7	3	2244	3	BRPF1	3	9784848	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1115454	9784848	188237582	257	7066											
CRELD1	78987	broad.mit.edu	37	chr3	9986201	9986201	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggctgtggcggccatgActggctactggttgtcagag	5	11	17	8	1	1	2	1	1	0	1	1	2	1	2	1	6	1	3	1	6	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:9986201A>G	uc003bug.2	+	11	1319	c.1201A>G	c.(1201-1203)ACT>GCT	p.T401A	CIDEC_uc003bto.2_Intron|CRELD1_uc003buf.2_3'UTR|CRELD1_uc003buh.2_Missense_Mutation_p.T401A|CRELD1_uc003bui.2_Missense_Mutation_p.T401A|CRELD1_uc003buj.2_RNA	NM_001077415	NP_001070883	Q96HD1	CREL1_HUMAN	cysteine-rich with EGF-like domains 1 isoform 3	401	Helical; (Potential).				cardiac septum development|endocardial cushion development	integral to membrane	calcium ion binding			ovary(1)	1						GGCGGCCATGACTGGCTACTG	0.597													7	38					0	0	0.001984	0	0		G	9986201	G	G	9986201	3	3	8	1	0	0	0	0	1	0	0	0	3869	275	10	3	1437	3	CRELD1	3	9986201	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	201353	9986201	188036229	258	7067											
NUP210	23225	broad.mit.edu	37	chr3	13372050	13372050	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgatcatagaccctgatgcTagaaagcctttctcatcaac	12	10	6	13	1	3	3	3	1	1	2	4	4	3	3	3	0	3	1	3	0	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:13372050T>C	uc003bxv.1	-	30	4103	c.4020A>G	c.(4018-4020)CTA>CTG	p.L1340L		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1340	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					ACCCTGATGCTAGAAAGCCTT	0.502													31	120					0	0	0.009535	0	0		C	13372050	C	C	13372050	2	2	8	1	0	0	0	0	0	0	0	1	10779	1509	53	3		3	NUP210	3	13372050	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	3385849	13372050	184650380	259	7068											
XPC	7508	broad.mit.edu	37	chr3	14199997	14199997	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctctgctttggagggccAggttcggaatcctcatcaga	7	12	11	11	1	3	1	2	0	1	1	6	3	5	3	3	4	1	2	3	4	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:14199997A>G	uc011ave.1	-	9	1490	c.1386T>C	c.(1384-1386)CCT>CCC	p.P462P	XPC_uc011avf.1_Silent_p.P269P|XPC_uc011avg.1_Silent_p.P425P	NM_004628	NP_004619	Q01831	XPC_HUMAN	xeroderma pigmentosum, complementation group C	462					nucleotide-excision repair, DNA damage recognition|nucleotide-excision repair, DNA damage removal	cytoplasm|nucleoplasm|XPC complex	bubble DNA binding|damaged DNA binding|loop DNA binding|protein binding|single-stranded DNA binding			ovary(2)|breast(1)	3						TTGGAGGGCCAGGTTCGGAAT	0.572			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		NER	Xeroderma_Pigmentosum				4	35					0	0	0.009096	0	0		G	14199997	G	G	14199997	2	3	8	1	0	0	0	0	0	0	0	1	17467	175	7	3		3	XPC	3	14199997	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	827947	14199997	183822433	260	7069											
GALNTL2	117248	broad.mit.edu	37	chr3	16254150	16254150	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atctaccaaaatcaggattcCcattcccccctcgaccagga	12	8	5	16	1	2	0	1	0	1	0	5	3	4	2	6	2	1	0	6	2	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:16254150C>A	uc003car.3	+	6	1747	c.1272C>A	c.(1270-1272)TCC>TCA	p.S424S	GALNTL2_uc003caq.3_Silent_p.S157S	NM_054110	NP_473451	Q8N3T1	GLTL2_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	424	Lumenal (Potential).					Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1						ATCAGGATTCCCATTCCCCCC	0.542													8	41					1.26484e-09	1.39274e-09	0.00308	1	0		A	16254150	A	A	16254150	2	1	8	1	0	0	0	0	0	0	0	1	6237	610	22	5		5	GALNTL2	3	16254150	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2054153	16254150	181768280	261	7070											
RFTN1	23180	broad.mit.edu	37	chr3	16358435	16358435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagtgcaaatccccaccaggGccctgctgtggctggcagga	8	6	13	14	0	0	0	0	0	0	0	1	1	1	1	4	4	2	4	4	4	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:16358435G>A	uc003cay.2	-	10	1919	c.1637C>T	c.(1636-1638)GCC>GTC	p.A546V	RFTN1_uc010hes.2_Missense_Mutation_p.A510V|OXNAD1_uc003cax.2_Intron|OXNAD1_uc011awb.1_Intron	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	546						plasma membrane				ovary(3)|central_nervous_system(1)	4						CCCCACCAGGGCCCTGCTGTG	0.602													5	68					0	0	0.000602	0	0		A	16358435	A	A	16358435	3	1	8	1	0	0	0	0	1	0	0	0	13283	1203	42	2	103	2	RFTN1	3	16358435	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	104285	16358435	181663995	262	7071											
PLCL2	23228	broad.mit.edu	37	chr3	17052707	17052707	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactgtctgaactggtcagCatctgcaaatcagttcagtt	11	12	9	9	0	5	1	3	1	2	0	5	2	5	1	0	1	4	4	0	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:17052707C>T	uc011awc.1	+	5	1950	c.1845C>T	c.(1843-1845)AGC>AGT	p.S615S	PLCL2_uc011awd.1_Silent_p.S497S	NM_001144382	NP_001137854	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2 isoform 1	623	PI-PLC Y-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(2)|ovary(1)|lung(1)	4						AACTGGTCAGCATCTGCAAAT	0.433													14	61					0	0	0.00245	0	0		T	17052707	T	T	17052707	2	4	8	1	0	0	0	0	0	0	0	1	12059	709	25	2		2	PLCL2	3	17052707	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	694272	17052707	180969723	263	7072											
TBC1D5	9779	broad.mit.edu	37	chr3	17415970	17415970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctataagatttaccttctgaCcatcatgctcaaaagttgaa	14	13	5	9	0	3	3	2	2	1	1	3	3	3	3	2	0	2	2	2	0	6	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:17415970C>T	uc003cbf.2	-	12	2480	c.815G>A	c.(814-816)GGT>GAT	p.G272D	TBC1D5_uc010hev.2_Missense_Mutation_p.G272D|TBC1D5_uc003cbe.2_Missense_Mutation_p.G272D|TBC1D5_uc010hew.1_Missense_Mutation_p.G224D	NM_014744	NP_055559	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5 isoform b	272	Rab-GAP TBC.					intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						TACCTTCTGACCATCATGCTC	0.318													4	27					0	0	0.009096	0	0		T	17415970	T	T	17415970	3	4	8	1	0	0	0	0	1	0	0	0	15648	507	18	4	1686	4	TBC1D5	3	17415970	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	363263	17415970	180606460	264	7073											
RARB	5915	broad.mit.edu	37	chr3	25622154	25622154	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaacgtctgcctggtttcActggcttgaccatcgcagac	8	11	9	13	2	2	2	1	1	1	1	3	2	2	2	2	2	2	3	2	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:25622154A>G	uc011awl.1	+	5	814	c.748A>G	c.(748-750)ACT>GCT	p.T250A	RARB_uc003cdi.1_Missense_Mutation_p.T131A|RARB_uc003cdh.2_Missense_Mutation_p.T243A	NM_016152	NP_057236	P10826	RARB_HUMAN	retinoic acid receptor, beta isoform 2	250	Ligand-binding.				embryonic digestive tract development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	protein binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|large_intestine(1)|pancreas(1)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tamibarotene(DB04942)|Tazarotene(DB00799)	GCCTGGTTTCACTGGCTTGAC	0.537													10	40					0	0	0.010729	0	0		G	25622154	G	G	25622154	3	3	8	1	0	0	0	0	1	0	0	0	13078	159	6	3	745	3	RARB	3	25622154	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	8206184	25622154	172400276	265	7074											
EOMES	8320	broad.mit.edu	37	chr3	27759084	27759084	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagccaccgctggggagggTtggccacctcttcgctctgt	5	9	13	14	2	2	0	0	0	2	0	3	1	2	1	4	4	1	3	4	4	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:27759084T>C	uc003cdx.2	-	6	1538	c.1538A>G	c.(1537-1539)AAC>AGC	p.N513S	EOMES_uc003cdy.3_Missense_Mutation_p.N532S|EOMES_uc010hfn.2_3'UTR|EOMES_uc011axc.1_Missense_Mutation_p.N237S	NM_005442	NP_005433	O95936	EOMES_HUMAN	eomesodermin	513					CD8-positive, alpha-beta T cell differentiation involved in immune response|cell differentiation involved in embryonic placenta development|endoderm formation|mesoderm formation|mesodermal to mesenchymal transition involved in gastrulation|positive regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|breast(1)	4						CTGGGGAGGGTTGGCCACCTC	0.517													3	70					0	0	0.009096	0	0		C	27759084	C	C	27759084	3	2	8	1	0	0	0	0	1	0	0	0	5155	1725	60	3	526	3	EOMES	3	27759084	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2136930	27759084	170263346	266	7075											
CMTM7	112616	broad.mit.edu	37	chr3	32493946	32493946	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgtcctataagatctcGtgtgtaacccagtccacagg	9	11	10	11	1	1	1	0	0	1	1	4	1	3	1	3	2	1	2	3	2	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:32493946G>A	uc003cey.1	+	4	731	c.495G>A	c.(493-495)TCG>TCA	p.S165S	CMTM7_uc003cez.1_Silent_p.S132S	NM_138410	NP_612419	Q96FZ5	CKLF7_HUMAN	CKLF-like MARVEL transmembrane domain containing	165	MARVEL.				chemotaxis	extracellular space|integral to membrane	cytokine activity				0						ATAAGATCTCGTGTGTAACCC	0.507													16	99					0	0	0.004007	0	0		A	32493946	A	A	32493946	2	1	8	1	0	0	0	0	0	0	0	1	3591	1132	40	1		1	CMTM7	3	32493946	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4734862	32493946	165528484	267	7076											
CCR4	1233	broad.mit.edu	37	chr3	32995805	32995805	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actctggcttttgttcactgCtgccttaatcccatcatcta	7	16	5	13	0	4	0	2	0	2	0	5	0	5	0	2	1	2	3	2	1	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:32995805C>T	uc003cfg.1	+	2	1059	c.891C>T	c.(889-891)TGC>TGT	p.C297C		NM_005508	NP_005499	P51679	CCR4_HUMAN	chemokine (C-C motif) receptor 4	297	Helical; Name=7; (Potential).				chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response	integral to plasma membrane				lung(1)	1						TTGTTCACTGCTGCCTTAATC	0.473													12	59					0	0	0.013537	0	0		T	32995805	T	T	32995805	2	4	8	1	0	0	0	0	0	0	0	1	2946	805	28	2		2	CCR4	3	32995805	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	501859	32995805	165026625	268	7077											
MLH1	4292	broad.mit.edu	37	chr3	37092047	37092047	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattgtctataaagccttgcGctcacacattctgcctccta	9	13	5	14	1	3	0	1	0	2	0	4	0	4	0	3	0	3	1	3	0	4	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:37092047G>A	uc003cgl.2	+	19	2234	c.2174G>A	c.(2173-2175)CGC>CAC	p.R725H	MLH1_uc011aye.1_Intron|MLH1_uc011ayb.1_Missense_Mutation_p.R484H|MLH1_uc010hge.2_Missense_Mutation_p.R656H|MLH1_uc003cgn.3_Missense_Mutation_p.R484H|MLH1_uc011ayc.1_Missense_Mutation_p.R627H|MLH1_uc011ayd.1_Missense_Mutation_p.R484H|MLH1_uc003cgo.2_Missense_Mutation_p.R484H|MLH1_uc010hgk.2_Missense_Mutation_p.R312H|MLH1_uc010hgn.2_Missense_Mutation_p.A222T|MLH1_uc010hgm.2_RNA|MLH1_uc010hgo.2_3'UTR|MLH1_uc010hgp.2_Missense_Mutation_p.R108H|MLH1_uc010hgq.2_RNA	NM_000249	NP_000240	P40692	MLH1_HUMAN	MutL protein homolog 1	725					mismatch repair|somatic hypermutation of immunoglobulin genes	chiasma|MutLalpha complex|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|protein binding	p.0?(1)		large_intestine(40)|haematopoietic_and_lymphoid_tissue(8)|ovary(6)|pancreas(5)|stomach(3)|central_nervous_system(3)|endometrium(3)|breast(3)|prostate(3)|skin(2)|NS(1)	77						AAAGCCTTGCGCTCACACATT	0.433		1	D|Mis|N|F|S		colorectal|endometrial|ovarian|CNS	colorectal|endometrial|ovarian|CNS		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				13	56					0	0	0.001855	0	0		A	37092047	A	A	37092047	3	1	8	1	0	0	0	0	1	0	0	0	9635	1087	38	1	2248	1	MLH1	3	37092047	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4096242	37092047	160930383	269	7078											
MYD88	4615	broad.mit.edu	37	chr3	38182330	38182330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccaaatttgcactcagcCtctctccaggtaagctcaac	12	9	6	14	0	3	1	2	0	1	1	5	1	4	1	3	1	4	3	3	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:38182330C>T	uc003chx.2	+	4	974	c.790C>T	c.(790-792)CTC>TTC	p.L264F	MYD88_uc011ayi.1_Missense_Mutation_p.L256F|MYD88_uc011ayj.1_Silent_p.A195A|MYD88_uc011ayk.1_Silent_p.A150A|MYD88_uc011ayl.1_Missense_Mutation_p.L211F	NM_002468	NP_002459	Q99836	MYD88_HUMAN	myeloid differentiation primary response gene	243	TIR.				3'-UTR-mediated mRNA stabilization|anti-apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-17 production|positive regulation of interleukin-23 production|positive regulation of interleukin-6 production|regulation of inflammatory response|response to interleukin-1|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|intrinsic to membrane|plasma membrane	death receptor binding|TIR domain binding|transmembrane receptor activity			haematopoietic_and_lymphoid_tissue(93)|breast(1)	94				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		TGCACTCAGCCTCTCTCCAGG	0.557			Mis 		ABC-DLBCL								16	50					0	0	0.003163	0	0		T	38182330	T	T	38182330	3	4	8	1	0	0	0	0	1	0	0	0	10041	681	24	4	804	4	MYD88	3	38182330	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1090283	38182330	159840100	270	7079											
EXOG	9941	broad.mit.edu	37	chr3	38565416	38565416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcgaggacaacgtggcaGtcccctcacacctttataag	10	9	10	12	2	1	0	1	0	0	0	2	2	2	1	3	3	1	1	3	3	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:38565416G>A	uc003cih.2	+	6	766	c.670G>A	c.(670-672)GTC>ATC	p.V224I	EXOG_uc010hhg.2_RNA|EXOG_uc011ayq.1_Missense_Mutation_p.V174I|EXOG_uc003cij.2_Missense_Mutation_p.V84I|EXOG_uc010hhd.2_Missense_Mutation_p.V84I|EXOG_uc010hhe.2_Missense_Mutation_p.V84I|EXOG_uc003cik.2_Missense_Mutation_p.V84I|EXOG_uc010hhf.2_Missense_Mutation_p.V84I|EXOG_uc003cii.2_Missense_Mutation_p.V84I	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	224						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						CAACGTGGCAGTCCCCTCACA	0.463													14	47					0	0	0.001855	0	0		A	38565416	A	A	38565416	3	1	8	1	0	0	0	0	1	0	0	0	5320	1029	36	4	692	4	EXOG	3	38565416	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	383086	38565416	159457014	271	7080											
SCN11A	11280	broad.mit.edu	37	chr3	38936340	38936340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaaaacaaaaagcccggCggaatcgatccagtgctaac	16	5	8	12	3	1	0	1	0	0	0	3	2	2	1	2	2	4	1	2	2	6	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:38936340C>T	uc011ays.1	-	15	2718	c.2519G>A	c.(2518-2520)CGC>CAC	p.R840H	SCN11A_uc010hhn.1_5'UTR	NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	840					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	AAAAGCCCGGCGGAATCGATC	0.453													11	56					0	0	0.008291	0	0		T	38936340	T	T	38936340	3	4	8	1	0	0	0	0	1	0	0	0	13938	768	27	1	2904	1	SCN11A	3	38936340	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	370924	38936340	159086090	272	7081											
WDR48	57599	broad.mit.edu	37	chr3	39119656	39119656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggaattcataattttagagCctctggagattatgacaatg	14	13	9	5	0	2	3	1	1	1	2	2	5	2	4	1	2	1	0	1	2	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:39119656C>T	uc003cit.2	+	10	1011	c.1001C>T	c.(1000-1002)GCC>GTC	p.A334V	WDR48_uc011ayt.1_Missense_Mutation_p.A325V|WDR48_uc011ayu.1_Missense_Mutation_p.A252V|WDR48_uc011ayv.1_Intron|WDR48_uc003ciu.2_RNA	NM_020839	NP_065890	Q8TAF3	WDR48_HUMAN	WD repeat domain 48	334	WD 7.				interspecies interaction between organisms|protein deubiquitination	lysosome|nucleus	protein binding			ovary(1)|breast(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		AATTTTAGAGCCTCTGGAGAT	0.353													11	50					0	0	0.013537	0	0		T	39119656	T	T	39119656	3	4	8	1	0	0	0	0	1	0	0	0	17327	739	26	2	1039	2	WDR48	3	39119656	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	183316	39119656	158902774	273	7082											
CX3CR1	1524	broad.mit.edu	37	chr3	39307048	39307048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaatcaacgtggactgagCgcccacacaggacagccagg	14	3	12	12	2	1	2	1	1	0	1	1	4	1	4	2	3	3	0	2	3	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:39307048C>T	uc003cjl.2	-	2	1045	c.953G>A	c.(952-954)CGC>CAC	p.R318H		NM_001337	NP_001328	P49238	CX3C1_HUMAN	chemokine (C-X3-C motif) receptor 1	318	Cytoplasmic (Potential).				cell adhesion|cellular defense response|chemotaxis|interspecies interaction between organisms|response to wounding	integral to plasma membrane	chemokine receptor activity			lung(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.0557)|Kidney(284;0.0699)		GTGGACTGAGCGCCCACACAG	0.478													37	134					0	0	0.004289	0	0		T	39307048	T	T	39307048	3	4	8	1	0	0	0	0	1	0	0	0	4078	768	27	1	118	1	CX3CR1	3	39307048	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	187392	39307048	158715382	274	7083											
ZNF445	353274	broad.mit.edu	37	chr3	44489280	44489280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taaaggttttcctacatttgGtacatttatagggcttctcc	9	17	7	8	0	1	0	0	0	1	0	3	0	2	0	2	3	2	3	2	3	6	10			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:44489280G>A	uc003cnf.2	-	8	2231	c.1883C>T	c.(1882-1884)ACC>ATC	p.T628I	ZNF445_uc011azv.1_Missense_Mutation_p.T616I|ZNF445_uc011azw.1_Missense_Mutation_p.T628I	NM_181489	NP_852466	P59923	ZN445_HUMAN	zinc finger protein 445	628	C2H2-type 5.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		CCTACATTTGGTACATTTATA	0.403													14	76					0	0	0.00245	0	0		A	44489280	A	A	44489280	3	1	8	1	0	0	0	0	1	0	0	0	17943	1261	44	4	1216	4	ZNF445	3	44489280	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	5182232	44489280	153533150	275	7084											
LARS2	23395	broad.mit.edu	37	chr3	45527238	45527238	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccagcaggaggtccctgTcgttattttggccaaagctg	8	11	11	11	1	0	0	0	0	0	0	2	1	1	1	3	3	3	3	3	3	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:45527238T>A	uc003cop.1	+	11	1258	c.1073T>A	c.(1072-1074)GTC>GAC	p.V358D	LARS2_uc010hit.1_Missense_Mutation_p.V315D	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial	358					leucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|leucine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.0122)|KIRC - Kidney renal clear cell carcinoma(197;0.0313)|Kidney(197;0.0372)	L-Leucine(DB00149)	GAGGTCCCTGTCGTTATTTTG	0.433													23	127					0	0	0.00278	0	0		A	45527238	A	A	45527238	3	1	8	1	0	0	0	0	1	0	0	0	8651	1667	58	5	1107	5	LARS2	3	45527238	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1037958	45527238	152495192	276	7085											
ALS2CL	259173	broad.mit.edu	37	chr3	46718370	46718370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtaatcctgagacctacGcagctccctggagctctgca	9	8	10	14	1	1	1	0	1	1	1	3	3	3	2	3	2	4	5	3	2	2	2	rs140829916	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:46718370G>A	uc003cqa.1	-	17	2090	c.1900C>T	c.(1900-1902)CGT>TGT	p.R634C	ALS2CL_uc003cpx.1_5'UTR|ALS2CL_uc003cpy.1_RNA|ALS2CL_uc003cpz.1_Missense_Mutation_p.R149C|ALS2CL_uc003cqb.1_Missense_Mutation_p.R634C|ALS2CL_uc003cqc.1_RNA	NM_147129	NP_667340	Q60I27	AL2CL_HUMAN	ALS2 C-terminal like isoform 1	634					endosome organization|regulation of Rho protein signal transduction		GTPase activator activity|identical protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)|central_nervous_system(2)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000726)|KIRC - Kidney renal clear cell carcinoma(197;0.0171)|Kidney(197;0.0202)		TGAGACCTACGCAGCTCCCTG	0.662													16	56					0	0	0.004007	0	0		A	46718370	A	A	46718370	3	1	8	1	0	0	0	0	1	0	0	0	551	1087	38	1	1001	1	ALS2CL	3	46718370	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1191132	46718370	151304060	277	7086											
PRSS45	377047	broad.mit.edu	37	chr3	46783906	46783906	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcagaggcacagggaccTgagaaggctccattgctcat	11	6	13	11	0	1	2	1	1	0	2	2	4	2	3	2	4	1	4	2	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:46783906T>C	uc010hjl.2	-	4	621	c.621A>G	c.(619-621)TCA>TCG	p.S207S	PRSS45_uc011bam.1_RNA	NM_199183	NP_954652	Q7RTY3	PRS45_HUMAN	testis serine protease 5	239					proteolysis		serine-type endopeptidase activity				0						CACAGGGACCTGAGAAGGCTC	0.567													17	75					0	0	0.006122	0	0		C	46783906	C	C	46783906	2	2	8	1	0	0	0	0	0	0	0	1	12651	1567	55	3		3	PRSS45	3	46783906	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	65536	46783906	151238524	278	7087											
SMARCC1	6599	broad.mit.edu	37	chr3	47719763	47719763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatactcttgggggtttagaCgatacgtgtcaatcataaaa	14	12	9	6	2	3	1	2	0	1	1	3	2	3	1	0	2	2	1	0	2	7	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:47719763C>T	uc003crq.2	-	16	1614	c.1496G>A	c.(1495-1497)CGT>CAT	p.R499H	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Missense_Mutation_p.R390H	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	499	SWIRM.				chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity	p.R499C(1)		skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		GGGGTTTAGACGATACGTGTC	0.383													24	132					0	0	0.004656	0	0		T	47719763	T	T	47719763	3	4	8	1	0	0	0	0	1	0	0	0	14800	536	19	1	1873	1	SMARCC1	3	47719763	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	935857	47719763	150302667	279	7088											
ZNF589	51385	broad.mit.edu	37	chr3	48302376	48302376	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagactgagccttgagcagaGgaacctatacaaagaagtga	16	6	12	7	0	0	6	0	3	0	3	0	8	0	7	2	1	4	1	2	1	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:48302376G>T	uc003csl.3	+	3	236	c.170G>T	c.(169-171)AGG>ATG	p.R57M	ZNF589_uc010hjt.1_Missense_Mutation_p.R55M|ZNF589_uc003csn.2_RNA|ZNF589_uc011bbg.1_Missense_Mutation_p.R57M|ZNF589_uc003csm.2_RNA	NM_016089	NP_057173	Q86UQ0	ZN589_HUMAN	zinc finger protein 589	57	KRAB.				regulation of transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000649)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CTTGAGCAGAGGAACCTATAC	0.388													13	67					1.49906e-05	1.61046e-05	0.00245	1	0		T	48302376	T	T	48302376	3	4	8	1	0	0	0	0	1	0	0	0	18046	1000	35	5	180	5	ZNF589	3	48302376	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	582613	48302376	149720054	280	7089											
NDUFAF3	25915	broad.mit.edu	37	chr3	49059972	49059972	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcggtggtgcagtggaacGtgagtcctggcccgcagtgt	6	9	16	10	3	0	1	0	1	0	0	2	2	1	2	2	4	2	2	2	4	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:49059972G>A	uc003cvq.2	+	2	774	c.270_splice	c.e2+1	p.N90_splice	DALRD3_uc003cvm.1_5'Flank|DALRD3_uc010hko.1_5'Flank|uc011bcb.1_5'Flank|MIR425_hsa-mir-425|MI0001448_5'Flank|NDUFAF3_uc003cvn.2_Splice_Site_p.N33_splice|uc003cvo.1_5'Flank|MIR191_hsa-mir-191|MI0000465_5'Flank|NDUFAF3_uc003cvp.2_Splice_Site_p.N33_splice|NDUFAF3_uc003cvr.2_Splice_Site_p.N33_splice|NDUFAF3_uc003cvs.2_Splice_Site_p.N33_splice	NM_199069	NP_951032	Q9BU61	NDUF3_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha						mitochondrial respiratory chain complex I assembly	mitochondrial inner membrane|nucleus	protein binding				0						GCAGTGGAACGTGAGTCCTGG	0.602													4	21					0	0	0.009096	0	0		A	49059972	A	A	49059972	5	1	8	1	0	0	0	0	0	0	1	0	10295	1159	40	1	277	1	NDUFAF3	3	49059972	Splice_Site	SNP	G	TCGA-BR-4201-01A-01D-1126-08	757596	49059972	148962458	281	7090											
USP19	10869	broad.mit.edu	37	chr3	49149019	49149019	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcagaagaaattccactgGtgctgggcacaggaccccgg	10	7	12	12	1	1	2	1	0	1	2	3	3	2	3	3	4	1	2	3	4	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:49149019G>T	uc003cwd.1	-	20	2983	c.2822C>A	c.(2821-2823)ACC>AAC	p.T941N	USP19_uc003cwa.2_Missense_Mutation_p.T749N|USP19_uc003cvz.3_Missense_Mutation_p.T1044N|USP19_uc011bcg.1_Missense_Mutation_p.T1032N|USP19_uc003cwb.2_Intron|USP19_uc003cwc.1_Missense_Mutation_p.T699N|USP19_uc011bch.1_Missense_Mutation_p.T1042N	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	941	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		AATTCCACTGGTGCTGGGCAC	0.632													3	16					0.00909568	0.00949188	0.009096	1	0		T	49149019	T	T	49149019	3	4	8	1	0	0	0	0	1	0	0	0	17076	1261	44	5	1162	5	USP19	3	49149019	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	89047	49149019	148873411	282	7091											
MST1R	4486	broad.mit.edu	37	chr3	49933705	49933705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggggtgggggtaggaagcGaaagccaggcagtgtaaagc	12	5	19	5	1	0	0	0	0	0	0	0	2	0	1	1	6	3	3	1	6	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:49933705G>A	uc003cxy.3	-	10	2836	c.2572C>T	c.(2572-2574)CGC>TGC	p.R858C	MST1R_uc011bdd.1_Missense_Mutation_p.R859C|MST1R_uc011bdc.1_5'UTR	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	858	IPT/TIG 3.|Extracellular (Potential).				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		GGTAGGAAGCGAAAGCCAGGC	0.582													11	56					0	0	0.010729	0	0		A	49933705	A	A	49933705	3	1	8	1	0	0	0	0	1	0	0	0	9909	1058	37	1	1674	1	MST1R	3	49933705	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	784686	49933705	148088725	283	7092											
NAT6	24142	broad.mit.edu	37	chr3	50334066	50334066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatccagaatatggggcGccccctcacattttgatatt	9	13	7	12	1	1	2	1	1	0	1	3	2	3	2	4	2	0	0	4	2	3	6	rs74426485	by1000genomes	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:50334066G>A	uc003czi.2	-	2	932	c.829C>T	c.(829-831)CGC>TGC	p.R277C	HYAL3_uc003czc.1_Intron|HYAL3_uc003czd.1_Intron|HYAL3_uc003cze.1_Intron|HYAL3_uc003czf.1_Intron|HYAL3_uc003czg.1_Intron|NAT6_uc003czj.2_Missense_Mutation_p.R299C|NAT6_uc003czk.3_Missense_Mutation_p.R277C|NAT6_uc003czl.1_Missense_Mutation_p.R277C	NM_012191	NP_036323	Q93015	NAT6_HUMAN	N-acetyltransferase 6	277						cytoplasm	N-acetyltransferase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		AATATGGGGCGCCCCCTCACA	0.547													4	33					0	0	0.000602	0	0		A	50334066	A	A	50334066	3	1	8	1	0	0	0	0	1	0	0	0	10196	1087	38	1	35	1	NAT6	3	50334066	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	400361	50334066	147688364	284	7093											
RASSF1	11186	broad.mit.edu	37	chr3	50369149	50369149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcaggtaaaaggaagtgcGgcgcctgacacttgtgcccc	9	6	15	11	2	0	1	0	1	0	0	0	2	0	2	3	4	2	2	3	4	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:50369149G>A	uc003dad.1	-	4	744	c.613C>T	c.(613-615)CGC>TGC	p.R205C	RASSF1_uc003daa.1_Missense_Mutation_p.R50C|RASSF1_uc003dab.1_Missense_Mutation_p.R131C|RASSF1_uc003dac.2_Missense_Mutation_p.R50C|RASSF1_uc003dae.1_Missense_Mutation_p.R201C|RASSF1_uc010hlk.1_RNA|RASSF1_uc003daf.1_Missense_Mutation_p.R50C	NM_170714	NP_733832	Q9NS23	RASF1_HUMAN	Ras association domain family 1 isoform D	205	Ras-associating.				cell cycle arrest|negative regulation of cell cycle arrest|positive regulation of protein ubiquitination|protein stabilization|Ras protein signal transduction|response to DNA damage stimulus	microtubule|microtubule cytoskeleton|microtubule organizing center|nucleus|spindle pole	identical protein binding|protein binding|protein N-terminus binding|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000278)|OV - Ovarian serous cystadenocarcinoma(275;0.0015)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		AAGGAAGTGCGGCGCCTGACA	0.617													12	40					0	0	0.004007	0	0		A	50369149	A	A	50369149	3	1	8	1	0	0	0	0	1	0	0	0	13109	1116	39	1	433	1	RASSF1	3	50369149	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	35083	50369149	147653281	285	7094											
GRM2	2912	broad.mit.edu	37	chr3	51746888	51746888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgcttgctgccagccagCgcctcaatgccagcttcacc	7	8	9	17	1	2	0	2	0	0	0	2	0	2	0	5	0	8	4	5	0	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:51746888C>T	uc010hlv.2	+	3	1089	c.850C>T	c.(850-852)CGC>TGC	p.R284C	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	284	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	TGCCAGCCAGCGCCTCAATGC	0.657													4	20					0	0	0.000602	0	0		T	51746888	T	T	51746888	3	4	8	1	0	0	0	0	1	0	0	0	6813	768	27	1	856	1	GRM2	3	51746888	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1377739	51746888	146275542	286	7095											
ABHD14A	25864	broad.mit.edu	37	chr3	52014951	52014951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accactctgtggtgaagctaCgcaatgcaggccatgcctgt	9	9	11	12	1	1	1	0	1	1	0	1	1	1	1	3	2	4	3	3	2	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:52014951C>T	uc003dco.2	+	5	843	c.733C>T	c.(733-735)CGC>TGC	p.R245C	ABHD14B_uc003dcn.2_Intron|ACY1_uc011bea.1_Intron|ACY1_uc011beb.1_5'Flank|ACY1_uc003dcp.2_5'Flank|ACY1_uc003dcq.2_5'Flank	NM_015407	NP_056222	Q9BUJ0	ABHEA_HUMAN	abhydrolase domain containing 14A	245						cytoplasm|integral to membrane	hydrolase activity				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GGTGAAGCTACGCAATGCAGG	0.572													6	49					0	0	0.006214	0	0		T	52014951	T	T	52014951	3	4	8	1	0	0	0	0	1	0	0	0	79	536	19	1	751	1	ABHD14A	3	52014951	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	268063	52014951	146007479	287	7096											
DNAH1	25981	broad.mit.edu	37	chr3	52400871	52400871	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatcacgatgggccagctGtacggggagtttgacctcct	7	10	12	12	2	1	1	1	1	0	0	3	3	3	2	4	3	2	3	4	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:52400871G>A	uc011bef.1	+	36	5994	c.5733G>A	c.(5731-5733)CTG>CTA	p.L1911L		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1911	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TGGGCCAGCTGTACGGGGAGT	0.612													16	70					0	0	0.003163	0	0		A	52400871	A	A	52400871	2	1	8	1	0	0	0	0	0	0	0	1	4603	1364	48	4		4	DNAH1	3	52400871	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	385920	52400871	145621559	288	7097											
BAP1	8314	broad.mit.edu	37	chr3	52437234	52437234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgtccgtggcttccaCgacctccttctccactgggc	3	12	9	17	2	2	0	0	0	2	0	6	1	5	0	5	2	1	2	5	2	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:52437234C>T	uc003ddx.2	-	14	1925	c.1810G>A	c.(1810-1812)GTG>ATG	p.V604M	BAP1_uc003ddw.2_RNA|BAP1_uc010hmg.2_RNA|BAP1_uc010hmh.2_Intron	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	604	Interaction with BRCA1.				monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		GTGGCTTCCACGACCTCCTTC	0.607			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								4	27					0	0	0.001168	0	0		T	52437234	T	T	52437234	3	4	8	1	0	0	0	0	1	0	0	0	1312	536	19	1	395	1	BAP1	3	52437234	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	36363	52437234	145585196	289	7098											
GLT8D1	55830	broad.mit.edu	37	chr3	52729486	52729486	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggttagttatattctgtcGtttccattccgtcaggtttg	5	20	9	7	2	2	0	1	0	1	0	5	0	4	0	2	2	0	4	2	2	3	8			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:52729486G>A	uc003dfi.3	-	8	902	c.763C>T	c.(763-765)CGA>TGA	p.R255*	GLT8D1_uc003dfj.2_Nonsense_Mutation_p.R255*|GLT8D1_uc003dfk.2_Nonsense_Mutation_p.R255*|GLT8D1_uc003dfl.2_Nonsense_Mutation_p.R255*|GLT8D1_uc003dfm.2_Nonsense_Mutation_p.R255*|GLT8D1_uc003dfn.2_Nonsense_Mutation_p.R255*|GLT8D1_uc003dfo.1_Nonsense_Mutation_p.R255*	NM_152932	NP_690909	Q68CQ7	GL8D1_HUMAN	glycosyltransferase 8 domain containing 1	255	Lumenal (Potential).					integral to membrane|mitochondrion	transferase activity, transferring glycosyl groups				0				BRCA - Breast invasive adenocarcinoma(193;6.78e-05)|Kidney(197;0.000618)|KIRC - Kidney renal clear cell carcinoma(197;0.000779)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		ATATTCTGTCGTTTCCATTCC	0.363													20	105					0	0	0.008871	0	0		A	52729486	A	A	52729486	4	1	8	1	0	0	0	0	0	1	0	0	6484	1153	40	1	364	1	GLT8D1	3	52729486	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	292252	52729486	145292944	290	7099											
ITIH4	3700	broad.mit.edu	37	chr3	52858944	52858944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggttaggccctcgggggCaaagtagtgtacaaagtagc	10	9	15	7	1	0	0	0	0	0	0	1	0	0	0	1	4	2	5	1	4	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:52858944C>T	uc003dfz.2	-	7	826	c.790G>A	c.(790-792)GCC>ACC	p.A264T	ITIH4_uc011bel.1_5'UTR|ITIH4_uc003dfy.2_Missense_Mutation_p.A128T|ITIH4_uc011bem.1_Missense_Mutation_p.A264T|ITIH4_uc011ben.1_Missense_Mutation_p.A264T	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	264					acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		CCCTCGGGGGCAAAGTAGTGT	0.542													4	22					0	0	0.001168	0	0		T	52858944	T	T	52858944	3	4	8	1	0	0	0	0	1	0	0	0	7922	710	25	2	2074	2	ITIH4	3	52858944	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	129458	52858944	145163486	291	7100											
IL17RD	54756	broad.mit.edu	37	chr3	57132279	57132279	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataccggggacgtctccctcGcaggaataatcaaagtagac	13	7	10	11	3	2	1	1	0	1	1	4	3	2	3	2	3	1	2	2	3	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:57132279G>T	uc003dil.2	-	12	1541	c.1452C>A	c.(1450-1452)TGC>TGA	p.C484*	IL17RD_uc003dik.2_Nonsense_Mutation_p.C460*|IL17RD_uc010hna.2_Nonsense_Mutation_p.C340*|IL17RD_uc011bex.1_Nonsense_Mutation_p.C340*	NM_017563	NP_060033	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D precursor	484	SEFIR.|Cytoplasmic (Potential).					Golgi membrane|integral to membrane|plasma membrane	receptor activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)		CGTCTCCCTCGCAGGAATAAT	0.572													5	23					0.000602214	0.000636366	0.000602	1	0		T	57132279	T	T	57132279	4	4	8	1	0	0	0	0	0	1	0	0	7658	1079	38	5	775	5	IL17RD	3	57132279	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4273335	57132279	140890151	292	7101											
PTPRG	5793	broad.mit.edu	37	chr3	62253473	62253473	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaatcattgtgatgattacGaaccttgtggaaaaaggaag	15	10	12	4	1	1	2	1	2	0	0	1	6	1	5	1	3	2	0	1	3	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:62253473G>A	uc003dlb.2	+	19	3572	c.2853G>A	c.(2851-2853)ACG>ACA	p.T951T	PTPRG_uc003dlc.2_Silent_p.T922T|PTPRG_uc011bfi.1_Silent_p.T197T|uc010hno.2_Intron|uc003dld.3_Intron|uc010hnp.2_Intron|uc003dle.3_Intron	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	951	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		TGATGATTACGAACCTTGTGG	0.398													10	99					0	0	0.013537	0	0		A	62253473	A	A	62253473	2	1	8	1	0	0	0	0	0	0	0	1	12827	1045	37	1		1	PTPRG	3	62253473	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	5121194	62253473	135768957	293	7102											
FEZF2	55079	broad.mit.edu	37	chr3	62355818	62355818	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagggcccacgctgtcGtggagtttgcgcacatgttt	6	10	14	11	3	0	0	0	0	0	0	1	1	0	1	1	2	2	6	1	2	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:62355818G>A	uc003dlh.2	-	4	1527	c.1320C>T	c.(1318-1320)CAC>CAT	p.H440H	FEZF2_uc003dli.2_Silent_p.H440H	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	440	C2H2-type 6.				transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		CCACGCTGTCGTGGAGTTTGC	0.552													8	43					0	0	0.004482	0	0		A	62355818	A	A	62355818	2	1	8	1	0	0	0	0	0	0	0	1	5840	1136	40	1		1	FEZF2	3	62355818	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	102345	62355818	135666612	294	7103											
SYNPR	132204	broad.mit.edu	37	chr3	63466538	63466538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttgcatttgcaacatgcGgtggctattctggaggcctg	6	14	12	9	1	2	0	0	0	2	0	2	1	2	1	1	4	4	3	1	4	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:63466538G>A	uc003dlq.2	+	2	424	c.55G>A	c.(55-57)GGT>AGT	p.G19S	SYNPR_uc003dlp.2_Missense_Mutation_p.G39S|SYNPR_uc011bfk.1_Intron|SYNPR_uc011bfl.1_RNA|SYNPR_uc010hnt.2_Missense_Mutation_p.G28S|SYNPR_uc011bfm.1_RNA	NM_144642	NP_653243	Q8TBG9	SYNPR_HUMAN	synaptoporin isoform 2	19	MARVEL.|Helical; (Potential).					cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	transporter activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000918)|KIRC - Kidney renal clear cell carcinoma(15;0.0658)|Kidney(15;0.0904)		TGCAACATGCGGTGGCTATTC	0.438													25	120					0	0	0.005443	0	0		A	63466538	A	A	63466538	3	1	8	1	0	0	0	0	1	0	0	0	15484	1116	39	1	153	1	SYNPR	3	63466538	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1110720	63466538	134555892	295	7104											
ADAMTS9	56999	broad.mit.edu	37	chr3	64547403	64547403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccacatgcctctgctgtaCgcctcggccacaggacacag	8	6	10	17	2	1	0	0	0	1	0	2	1	1	1	4	2	3	2	4	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:64547403C>T	uc003dmg.2	-	30	4581	c.4549G>A	c.(4549-4551)GTA>ATA	p.V1517I	ADAMTS9_uc011bfo.1_Missense_Mutation_p.V1489I|ADAMTS9_uc003dmh.1_Missense_Mutation_p.V1346I|ADAMTS9_uc011bfp.1_Missense_Mutation_p.V428I|uc003dmi.1_RNA	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1517	TSP type-1 12.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CTCTGCTGTACGCCTCGGCCA	0.567													20	66					0	0	0.008871	0	0		T	64547403	T	T	64547403	3	4	8	1	0	0	0	0	1	0	0	0	273	536	19	1	1298	1	ADAMTS9	3	64547403	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1080865	64547403	133475027	296	7105											
LMOD3	56203	broad.mit.edu	37	chr3	69167997	69167997	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggttttctcgggtggttcTctggcttccggcatccgaga	3	15	13	10	3	2	1	0	0	2	1	6	2	4	1	2	5	0	4	2	5	0	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:69167997T>C	uc003dns.2	-	2	1718	c.1509A>G	c.(1507-1509)AGA>AGG	p.R503R	LMOD3_uc003dnt.2_Silent_p.R503R	NM_198271	NP_938012	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	503						cytoplasm|cytoskeleton	tropomyosin binding			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		CGGGTGGTTCTCTGGCTTCCG	0.547													5	27					0	0	0.001984	0	0		C	69167997	C	C	69167997	2	2	8	1	0	0	0	0	0	0	0	1	8875	1548	54	3		3	LMOD3	3	69167997	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	4620594	69167997	128854433	297	7106											
OR5H2	79310	broad.mit.edu	37	chr3	98001806	98001806	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacaggacttacatatcaGccagagtggaaaatgcccct	13	8	8	12	0	2	1	2	0	0	1	2	3	2	3	3	2	3	0	3	2	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:98001806G>A	uc003dsj.1	+	1	75	c.75G>A	c.(73-75)CAG>CAA	p.Q25Q		NM_001005482	NP_001005482	Q8NGV7	OR5H2_HUMAN	olfactory receptor, family 5, subfamily H,	25	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3						TTACATATCAGCCAGAGTGGA	0.423													37	192					0	0	0.005524	0	0		A	98001806	A	A	98001806	2	1	8	1	0	0	0	0	0	0	0	1	11181	962	34	2		2	OR5H2	3	98001806	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	28833809	98001806	100020624	298	7107											
CEP97	79598	broad.mit.edu	37	chr3	101451389	101451389	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcgattatgaacaatcctTgtgtgatggcaacaccatcc	11	12	8	10	1	0	2	0	2	0	0	3	3	2	2	3	1	2	1	3	1	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:101451389T>C	uc003dvk.1	+	6	646	c.619T>C	c.(619-621)TGT>CGT	p.C207R	CEP97_uc010hpm.1_Missense_Mutation_p.C173R|CEP97_uc011bhf.1_Missense_Mutation_p.C207R|CEP97_uc003dvl.1_5'UTR|CEP97_uc003dvm.1_Missense_Mutation_p.C45R	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	207						centrosome|nucleus	protein binding			ovary(2)	2						GAACAATCCTTGTGTGATGGC	0.413													5	36					0	0	0.001168	0	0		C	101451389	C	C	101451389	3	2	8	1	0	0	0	0	1	0	0	0	3266	1812	63	3	641	3	CEP97	3	101451389	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	3449583	101451389	96571041	299	7108											
CD96	10225	broad.mit.edu	37	chr3	111319601	111319601	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attactaatgaagagagaaaAggcaaagatggatttttgga	18	10	11	2	0	0	4	0	1	0	3	0	7	0	6	0	3	1	1	0	3	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:111319601A>G	uc003dxw.2	+	8	1145	c.975A>G	c.(973-975)AAA>AAG	p.K325K	CD96_uc003dxv.2_Silent_p.K309K|CD96_uc003dxx.2_Silent_p.K309K|CD96_uc010hpy.1_Silent_p.K309K	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor	325	Extracellular (Potential).|Ig-like C2-type.				cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						AAGAGAGAAAAGGCAAAGATG	0.373									Opitz_Trigonocephaly_syndrome				16	69					0	0	0.00499	0	0		G	111319601	G	G	111319601	2	3	8	1	0	0	0	0	0	0	0	1	3051	69	3	3		3	CD96	3	111319601	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	9868212	111319601	86702829	300	7109											
BOC	91653	broad.mit.edu	37	chr3	112999994	112999994	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacgtgatgatctgtgagAccaaaggtgaagctctttgg	11	10	13	7	1	2	4	0	4	2	1	2	5	2	4	1	2	2	2	1	2	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:112999994A>G	uc003dzx.2	+	15	3046	c.2425A>G	c.(2425-2427)ACC>GCC	p.T809A	BOC_uc003dzy.2_Missense_Mutation_p.T809A|BOC_uc003dzz.2_Missense_Mutation_p.T810A|BOC_uc003eab.2_Missense_Mutation_p.T510A|BOC_uc003eac.2_Missense_Mutation_p.T124A	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	809	Fibronectin type-III 3.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			GATCTGTGAGACCAAAGGTGA	0.547													7	38					0	0	0.001984	0	0		G	112999994	G	G	112999994	3	3	8	1	0	0	0	0	1	0	0	0	1482	275	10	3	2475	3	BOC	3	112999994	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1680393	112999994	85022436	301	7110											
GRAMD1C	54762	broad.mit.edu	37	chr3	113627946	113627946	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctggacaaaagcagcActtcagattctgttgatgaa	12	13	8	8	0	3	3	1	2	2	1	4	4	3	4	0	1	2	3	0	1	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:113627946A>G	uc003eaq.3	+	9	1007	c.931A>G	c.(931-933)ACT>GCT	p.T311A	GRAMD1C_uc011bil.1_RNA|GRAMD1C_uc011bim.1_RNA|GRAMD1C_uc003ear.2_Missense_Mutation_p.T144A|GRAMD1C_uc003eas.2_Missense_Mutation_p.T106A	NM_017577	NP_060047	Q8IYS0	GRM1C_HUMAN	GRAM domain containing 1C	311						integral to membrane				ovary(2)|skin(1)	3						CAAAAGCAGCACTTCAGATTC	0.299													15	50					0	0	0.004007	0	0		G	113627946	G	G	113627946	3	3	8	1	0	0	0	0	1	0	0	0	6765	159	6	3	965	3	GRAMD1C	3	113627946	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	627952	113627946	84394484	302	7111											
ZBTB20	26137	broad.mit.edu	37	chr3	114069597	114069597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgacagtgataacagtgCtgtccatctccacttcattg	9	13	8	11	0	2	2	1	2	1	0	4	2	3	2	2	0	3	2	2	0	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:114069597C>T	uc003ebi.2	-	4	1508	c.1328G>A	c.(1327-1329)AGC>AAC	p.S443N	ZBTB20_uc003ebj.2_Missense_Mutation_p.S370N|ZBTB20_uc010hqp.2_Missense_Mutation_p.S370N|ZBTB20_uc003ebk.2_Missense_Mutation_p.S370N|ZBTB20_uc003ebl.2_Missense_Mutation_p.S370N|ZBTB20_uc003ebm.2_Missense_Mutation_p.S370N|ZBTB20_uc003ebn.2_Missense_Mutation_p.S370N|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	443					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GATAACAGTGCTGTCCATCTC	0.567													5	52					0	0	0.000602	0	0		T	114069597	T	T	114069597	3	4	8	1	0	0	0	0	1	0	0	0	17554	797	28	2	905	2	ZBTB20	3	114069597	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	441651	114069597	83952833	303	7112											
ZBTB20	26137	broad.mit.edu	37	chr3	114070442	114070442	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgcgagacccgtagcacGccgctgtacatgaagtcaat	11	7	11	12	4	1	2	1	1	0	1	1	4	1	2	2	0	3	4	2	0	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:114070442G>A	uc003ebi.2	-	4	663	c.483C>T	c.(481-483)GGC>GGT	p.G161G	ZBTB20_uc003ebj.2_Silent_p.G88G|ZBTB20_uc010hqp.2_Silent_p.G88G|ZBTB20_uc003ebk.2_Silent_p.G88G|ZBTB20_uc003ebl.2_Silent_p.G88G|ZBTB20_uc003ebm.2_Silent_p.G88G|ZBTB20_uc003ebn.2_Silent_p.G88G|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	161	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		CCCGTAGCACGCCGCTGTACA	0.567													11	35					0	0	0.00245	0	0		A	114070442	A	A	114070442	2	1	8	1	0	0	0	0	0	0	0	1	17554	1074	38	1		1	ZBTB20	3	114070442	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	845	114070442	83951988	304	7113											
GAP43	2596	broad.mit.edu	37	chr3	115395025	115395025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaagctgctgaggctgaaGctaataagaaggatgaagcc	14	7	12	8	0	0	4	0	3	0	1	1	5	1	5	2	2	4	4	2	2	6	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:115395025G>A	uc003ebq.2	+	2	582	c.196G>A	c.(196-198)GCT>ACT	p.A66T	GAP43_uc003ebr.2_Missense_Mutation_p.A102T	NM_002045	NP_002036	P17677	NEUM_HUMAN	growth associated protein 43 isoform 2	66					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell differentiation|nervous system development|regulation of filopodium assembly|regulation of growth|response to wounding	cell junction|filopodium membrane|growth cone membrane|synapse	calmodulin binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.164)		TGAGGCTGAAGCTAATAAGAA	0.527													6	98					0	0	0.004482	0	0		A	115395025	A	A	115395025	3	1	8	1	0	0	0	0	1	0	0	0	6250	971	34	2	344	2	GAP43	3	115395025	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1324583	115395025	82627405	305	7114											
IGSF11	152404	broad.mit.edu	37	chr3	118621438	118621438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaattcgttccagtgttgCgtggctgatggtgtaggaat	8	13	13	7	2	0	1	0	1	0	0	2	2	1	2	2	3	1	4	2	3	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:118621438C>T	uc003ebw.2	-	7	1472	c.1225G>A	c.(1225-1227)GCA>ACA	p.A409T	IGSF11_uc011biv.1_Missense_Mutation_p.A381T|IGSF11_uc003ebx.2_Missense_Mutation_p.A385T|IGSF11_uc003eby.2_Missense_Mutation_p.A408T|IGSF11_uc003ebz.2_Missense_Mutation_p.A384T|IGSF11_uc010hqs.2_Missense_Mutation_p.A408T	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	409	Cytoplasmic (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						TCCAGTGTTGCGTGGCTGATG	0.537													13	75					0	0	0.004007	0	0		T	118621438	T	T	118621438	3	4	8	1	0	0	0	0	1	0	0	0	7614	768	27	1	74	1	IGSF11	3	118621438	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3226413	118621438	79400992	306	7115											
B4GALT4	8702	broad.mit.edu	37	chr3	118931514	118931514	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagactcgtgacacttggTgtaagagcttcatcctaaag	11	11	9	10	1	1	3	1	1	0	2	4	3	3	3	2	1	1	2	2	1	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:118931514T>C	uc003ecg.2	-	8	1558	c.917A>G	c.(916-918)CAC>CGC	p.H306R	B4GALT4_uc003ece.1_3'UTR|B4GALT4_uc003ecf.2_RNA|B4GALT4_uc003ech.2_Missense_Mutation_p.H306R|B4GALT4_uc003eci.2_Missense_Mutation_p.H306R	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	306	Lumenal (Potential).				membrane lipid metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding|N-acetyllactosamine synthase activity				0				GBM - Glioblastoma multiforme(114;0.222)	N-Acetyl-D-glucosamine(DB00141)	TGACACTTGGTGTAAGAGCTT	0.363													13	45					0	0	0.00245	0	0		C	118931514	C	C	118931514	3	2	8	1	0	0	0	0	1	0	0	0	1274	1696	59	3	121	3	B4GALT4	3	118931514	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	310076	118931514	79090916	307	7116											
CASR	846	broad.mit.edu	37	chr3	122003470	122003470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcccgggccacgctgcGccgcagcaacgtctcccgca	5	4	13	19	6	1	0	0	0	1	0	2	0	1	0	4	2	4	5	4	2	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:122003470G>A	uc003eev.3	+	7	3041	c.2669G>A	c.(2668-2670)CGC>CAC	p.R890H	CASR_uc003eew.3_Missense_Mutation_p.R900H	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	890	Cytoplasmic (Potential).|Interaction with RNF19A.				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	GCCACGCTGCGCCGCAGCAAC	0.627													6	17					0	0	0.001168	0	0		A	122003470	A	A	122003470	3	1	8	1	0	0	0	0	1	0	0	0	2685	1087	38	1	2721	1	CASR	3	122003470	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3071956	122003470	76018960	308	7117											
SEMA5B	54437	broad.mit.edu	37	chr3	122629836	122629836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacactgctagggtcaggaGcccagagcccaagaagcagg	12	4	14	11	0	1	2	1	0	0	2	1	3	1	3	2	3	5	3	2	3	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:122629836G>A	uc003efz.1	-	22	3452	c.3148C>T	c.(3148-3150)CTC>TTC	p.L1050F	SEMA5B_uc011bju.1_Missense_Mutation_p.L956F|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.L1050F|SEMA5B_uc003efy.1_Missense_Mutation_p.L28F	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	1050	Helical; Signal-anchor for type III membrane protein; (Potential).				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		AGGGTCAGGAGCCCAGAGCCC	0.577													7	23					0	0	0.001984	0	0		A	122629836	A	A	122629836	3	1	8	1	0	0	0	0	1	0	0	0	14063	971	34	2	315	2	SEMA5B	3	122629836	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	626366	122629836	75392594	309	7118											
KALRN	8997	broad.mit.edu	37	chr3	124149556	124149556	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaacgccagcctggtcaaTgccagctctttgtcggaagc	8	9	10	14	2	3	0	2	0	1	0	4	1	3	1	3	2	5	1	3	2	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:124149556T>C	uc003ehg.2	+	16	2884	c.2757T>C	c.(2755-2757)AAT>AAC	p.N919N	KALRN_uc010hrv.1_Silent_p.N919N|KALRN_uc003ehf.1_Silent_p.N919N|KALRN_uc011bjy.1_Silent_p.N919N|KALRN_uc003ehh.1_Silent_p.N265N	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	919	Spectrin 4.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GCCTGGTCAATGCCAGCTCTT	0.567													9	34					0	0	0.004482	0	0		C	124149556	C	C	124149556	2	2	8	1	0	0	0	0	0	0	0	1	7991	1461	51	3		3	KALRN	3	124149556	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1519720	124149556	73872874	310	7119											
KLF15	28999	broad.mit.edu	37	chr3	126070789	126070789	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtacatcttgctgcagccaGggaaagtacatttgtgcatt	10	13	10	8	0	1	0	0	0	1	0	1	1	1	1	1	1	6	5	1	1	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:126070789G>T	uc011bkk.1	-	2	1159	c.977C>A	c.(976-978)CCT>CAT	p.P326H		NM_014079	NP_054798	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	326	C2H2-type 1.					nucleus	DNA binding|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(114;0.147)		GCTGCAGCCAGGGAAAGTACA	0.627													6	16					0.00116845	0.00122775	0.001168	1	0		T	126070789	T	T	126070789	3	4	8	1	0	0	0	0	1	0	0	0	8359	1000	35	5	281	5	KLF15	3	126070789	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1921233	126070789	71951641	311	7120											
SEC61A1	29927	broad.mit.edu	37	chr3	127786377	127786377	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacccggtccatgcagttgtAtacatagtgttcatgctggg	8	12	12	9	1	1	0	1	0	0	0	2	1	2	0	2	2	3	5	2	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:127786377A>T	uc003ekb.2	+	10	1273	c.1089A>T	c.(1087-1089)GTA>GTT	p.V363V	RUVBL1_uc003eke.2_Intron|RUVBL1_uc003ekf.2_Intron|SEC61A1_uc003ekc.2_Silent_p.V310V|SEC61A1_uc003ekd.2_Silent_p.V243V|SEC61A1_uc003ekg.2_Silent_p.V57V	NM_013336	NP_037468	P61619	S61A1_HUMAN	Sec61 alpha 1 subunit	363	Helical; (Potential).				protein targeting to ER	integral to endoplasmic reticulum membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity|protein binding|ribosome binding			ovary(1)	1						ATGCAGTTGTATACATAGTGT	0.493													21	82					0	0	0.003954	0	0		T	127786377	T	T	127786377	2	4	8	1	0	0	0	0	0	0	0	1	14025	436	16	5		5	SEC61A1	3	127786377	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1715588	127786377	70236053	312	7121											
MBD4	8930	broad.mit.edu	37	chr3	129152936	129152936	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatttgctggaaaaatacagGcttgttttccttctttctat	9	19	6	7	0	2	0	0	0	2	0	3	1	3	1	1	2	2	3	1	2	5	9			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:129152936G>A	uc003emh.1	-	4	1421	c.1245C>T	c.(1243-1245)AGC>AGT	p.S415S	MBD4_uc003emi.1_Silent_p.S415S|MBD4_uc003emj.1_Silent_p.S409S|MBD4_uc003emk.1_Silent_p.S97S|MBD4_uc011bkw.1_Silent_p.S415S	NM_003925	NP_003916	O95243	MBD4_HUMAN	methyl-CpG binding domain protein 4	415					depyrimidination	nucleoplasm	DNA N-glycosylase activity|endodeoxyribonuclease activity|protein binding|satellite DNA binding			ovary(1)|lung(1)	2						AAAAATACAGGCTTGTTTTCC	0.348								BER_DNA_glycosylases					6	49					0	0	0.001168	0	0		A	129152936	A	A	129152936	2	1	8	1	0	0	0	0	0	0	0	1	9364	1194	42	2		2	MBD4	3	129152936	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1366559	129152936	68869494	313	7122											
COL6A6	131873	broad.mit.edu	37	chr3	130380888	130380888	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaagtacacccaatctgAgaagaaacaaagtcatattt	17	12	5	7	0	2	2	1	1	1	2	2	3	2	2	1	0	2	1	1	0	7	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:130380888A>G	uc010htl.2	+	34	6269	c.6238A>G	c.(6238-6240)AGA>GGA	p.R2080G	COL6A6_uc003eni.3_Missense_Mutation_p.R179G	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	2080	VWFA 9.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						ACCCAATCTGAGAAGAAACAA	0.408													9	51					0	0	0.008291	0	0		G	130380888	G	G	130380888	3	3	8	1	0	0	0	0	1	0	0	0	3706	296	11	3	6372	3	COL6A6	3	130380888	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1227952	130380888	67641542	314	7123											
PIK3R4	30849	broad.mit.edu	37	chr3	130422673	130422673	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcatcagagactctaattcGattcacagcagatttatgct	12	14	6	9	1	4	2	3	0	1	2	5	4	4	2	0	0	2	2	0	0	2	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:130422673G>A	uc003enj.2	-	13	3573	c.2992C>T	c.(2992-2994)CGA>TGA	p.R998*		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	998	WD 1.				fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						ACTCTAATTCGATTCACAGCA	0.418													24	110					0	0	0.003954	0	0		A	130422673	A	A	130422673	4	1	8	1	0	0	0	0	0	1	0	0	11940	1066	37	1	1116	1	PIK3R4	3	130422673	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	41785	130422673	67599757	315	7124											
CPNE4	131034	broad.mit.edu	37	chr3	131283121	131283121	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcagatactcattgggttGgtaagggtggatgtagtgca	9	14	14	4	0	2	1	2	0	0	1	2	2	2	2	0	4	2	4	0	4	3	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:131283121G>A	uc003eok.2	-	11	1435	c.1000C>T	c.(1000-1002)CAA>TAA	p.Q334*	CPNE4_uc011blq.1_Nonsense_Mutation_p.Q352*|CPNE4_uc003eol.2_Nonsense_Mutation_p.Q352*|CPNE4_uc003eom.2_Nonsense_Mutation_p.Q334*	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	334	VWFA.									upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TCATTGGGTTGGTAAGGGTGG	0.453													9	85					0	0	0.010729	0	0		A	131283121	A	A	131283121	4	1	8	1	0	0	0	0	0	1	0	0	3817	1357	47	4	697	4	CPNE4	3	131283121	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	860448	131283121	66739309	316	7125											
PPP2R3A	5523	broad.mit.edu	37	chr3	135721928	135721928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggagacctctctaagagagCcacttgcgaagggtaaaaac	14	7	11	9	1	1	2	0	0	1	2	2	5	1	2	2	2	3	1	2	2	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:135721928C>T	uc003eqv.1	+	2	2153	c.1588C>T	c.(1588-1590)CCA>TCA	p.P530S	PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	530					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						TCTAAGAGAGCCACTTGCGAA	0.388													9	82					0	0	0.006214	0	0		T	135721928	T	T	135721928	3	4	8	1	0	0	0	0	1	0	0	0	12410	739	26	2	1590	2	PPP2R3A	3	135721928	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4438807	135721928	62300502	317	7126											
STAG1	10274	broad.mit.edu	37	chr3	136059352	136059352	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatcaataaccatggtgTcctcaaattcttcattcata	13	13	4	11	0	5	1	4	0	1	1	6	1	6	1	3	1	1	0	3	1	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:136059352T>C	uc003era.1	-	32	3945	c.3653A>G	c.(3652-3654)GAC>GGC	p.D1218G	STAG1_uc003erb.1_Missense_Mutation_p.D1181G	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	1218					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						AACCATGGTGTCCTCAAATTC	0.373													18	62					0	0	0.006122	0	0		C	136059352	C	C	136059352	3	2	8	1	0	0	0	0	1	0	0	0	15267	1667	58	3	135	3	STAG1	3	136059352	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	337424	136059352	61963078	318	7127											
SOX14	8403	broad.mit.edu	37	chr3	137484306	137484306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccaggcatgaccaagaCtggcatagacccttattcgt	10	10	8	13	1	0	3	0	1	0	2	2	3	1	3	3	2	0	2	3	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:137484306C>T	uc003erm.1	+	1	728	c.680C>T	c.(679-681)ACT>ATT	p.T227I		NM_004189	NP_004180	O95416	SOX14_HUMAN	SRY-box 14	227					negative regulation of transcription from RNA polymerase II promoter|nervous system development|transcription, DNA-dependent	nucleus	sequence-specific DNA binding				0						ATGACCAAGACTGGCATAGAC	0.642													6	34					0	0	0.004482	0	0		T	137484306	T	T	137484306	3	4	8	1	0	0	0	0	1	0	0	0	14970	565	20	4	682	4	SOX14	3	137484306	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1424954	137484306	60538124	319	7128											
COPB2	9276	broad.mit.edu	37	chr3	139080026	139080026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcatttccagaggcagtggCcaaaagcagcaggcccccat	12	5	11	13	0	0	1	0	0	0	1	1	1	1	1	4	3	3	4	4	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:139080026C>T	uc003etf.3	-	17	2237	c.2107G>A	c.(2107-2109)GCC>ACC	p.A703T	COPB2_uc011bmv.1_Missense_Mutation_p.A674T|COPB2_uc010hui.2_Missense_Mutation_p.A674T	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	703					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						GAGGCAGTGGCCAAAAGCAGC	0.483													22	101					0	0	0.014323	0	0		T	139080026	T	T	139080026	3	4	8	1	0	0	0	0	1	0	0	0	3732	739	26	2	637	2	COPB2	3	139080026	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1595720	139080026	58942404	320	7129											
ATR	545	broad.mit.edu	37	chr3	142176461	142176461	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attacctcattaaaggctctCgctgatcacgcatcagcctc	10	11	6	14	2	4	1	3	1	1	0	6	1	4	1	2	1	2	3	2	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:142176461C>T	uc003eux.3	-	45	7762	c.7640G>A	c.(7639-7641)CGA>CAA	p.R2547Q	ATR_uc003euy.1_Missense_Mutation_p.R433Q	NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	2547	PI3K/PI4K.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						TAAAGGCTCTCGCTGATCACG	0.378								Other_conserved_DNA_damage_response_genes					16	62					0	0	0.004007	0	0		T	142176461	T	T	142176461	3	4	8	1	0	0	0	0	1	0	0	0	1205	884	31	1	306	1	ATR	3	142176461	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3096435	142176461	55845969	321	7130											
TRPC1	7220	broad.mit.edu	37	chr3	142521156	142521156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgtgtaggcatcttctGtgaacagcaaagcaatgata	13	10	11	7	0	2	2	0	2	2	0	2	3	2	3	0	2	3	4	0	2	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:142521156G>A	uc003evc.2	+	10	1863	c.1727G>A	c.(1726-1728)TGT>TAT	p.C576Y	TRPC1_uc003evb.2_Missense_Mutation_p.C542Y|TRPC1_uc011bni.1_Missense_Mutation_p.C95Y	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	576	Cytoplasmic (Potential).				axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						GGCATCTTCTGTGAACAGCAA	0.308													6	50					0	0	0.00308	0	0		A	142521156	A	A	142521156	3	1	8	1	0	0	0	0	1	0	0	0	16604	1377	48	4	1659	4	TRPC1	3	142521156	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	344695	142521156	55501274	322	7131											
PAQR9	344838	broad.mit.edu	37	chr3	142681261	142681261	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctggtggctgtggccgatAatgtcgaaaagacccggctg	9	8	15	9	3	0	1	0	0	0	1	1	3	0	1	2	4	1	3	2	4	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:142681261A>G	uc003evg.2	-	1	918	c.918T>C	c.(916-918)ATT>ATC	p.I306I	PAQR9_uc003evf.1_RNA	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	306	Helical; (Potential).					integral to membrane	receptor activity				0						TGTGGCCGATAATGTCGAAAA	0.587													4	31					0	0	0.000602	0	0		G	142681261	G	G	142681261	2	3	8	1	0	0	0	0	0	0	0	1	11461	358	13	3		3	PAQR9	3	142681261	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	160105	142681261	55341169	323	7132											
IGSF10	285313	broad.mit.edu	37	chr3	151164676	151164676	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgtatctatgccgtcgCagaactggagttctatatgg	9	13	11	8	2	2	1	0	0	2	1	3	2	2	2	1	2	3	4	1	2	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:151164676C>T	uc011bod.1	-	4	3093	c.3093G>A	c.(3091-3093)CTG>CTA	p.L1031L		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1031					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TATGCCGTCGCAGAACTGGAG	0.473													9	91					0	0	0.008291	0	0		T	151164676	T	T	151164676	2	4	8	1	0	0	0	0	0	0	0	1	7613	697	25	2		2	IGSF10	3	151164676	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8483415	151164676	46857754	324	7133											
SUCNR1	56670	broad.mit.edu	37	chr3	151598580	151598580	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatgctgataaggagttaTgccaatggaaactggatata	14	10	10	7	0	0	1	0	1	0	0	0	4	0	4	2	3	3	2	2	3	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:151598580T>A	uc003ezf.1	+	3	348	c.249T>A	c.(247-249)TAT>TAA	p.Y83*		NM_033050	NP_149039	Q9BXA5	SUCR1_HUMAN	succinate receptor 1	83	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)		Succinic acid(DB00139)	TAAGGAGTTATGCCAATGGAA	0.423													7	62					0	0	0.001984	0	0		A	151598580	A	A	151598580	4	1	8	1	0	0	0	0	0	1	0	0	15391	1471	51	5	255	5	SUCNR1	3	151598580	Nonsense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	433904	151598580	46423850	325	7134											
P2RY1	5028	broad.mit.edu	37	chr3	152553661	152553661	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgggggaacagcacggtCgcctccactgccgccgtctc	5	7	12	17	4	1	0	0	0	1	0	5	1	3	1	5	3	3	1	5	3	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:152553661C>T	uc003ezq.2	+	1	926	c.90C>T	c.(88-90)GTC>GTT	p.V30V		NM_002563	NP_002554	P47900	P2RY1_HUMAN	purinergic receptor P2Y1	30	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			ACAGCACGGTCGCCTCCACTG	0.617													9	22					0	0	0.006214	0	0		T	152553661	T	T	152553661	2	4	8	1	0	0	0	0	0	0	0	1	11365	871	31	1		1	P2RY1	3	152553661	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	955081	152553661	45468769	326	7135											
MYNN	55892	broad.mit.edu	37	chr3	169497257	169497257	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgagaaggcacatgagaaTacataaaggagtcaaacctt	17	9	9	6	0	1	2	1	2	0	2	1	5	1	3	1	2	2	1	1	2	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:169497257T>A	uc003fft.2	+	3	1397	c.968T>A	c.(967-969)ATA>AAA	p.I323K	MYNN_uc011bpm.1_Missense_Mutation_p.I209K|MYNN_uc003ffu.2_Missense_Mutation_p.I323K|MYNN_uc003ffv.2_Missense_Mutation_p.I50K|MYNN_uc010hwo.2_Missense_Mutation_p.I323K|MYNN_uc003ffw.1_RNA	NM_018657	NP_061127	Q9NPC7	MYNN_HUMAN	myoneurin	323	C2H2-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;2.19e-58)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			CACATGAGAATACATAAAGGA	0.453													6	49					0	0	0.001984	0	0		A	169497257	A	A	169497257	3	1	8	1	0	0	0	0	1	0	0	0	10079	1406	49	5	974	5	MYNN	3	169497257	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	16943596	169497257	28525173	327	7136											
ABCC5	10057	broad.mit.edu	37	chr3	183682976	183682976	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcggaaggcctgtacctcCgtcaggtcgctgctgggaag	6	7	17	11	3	1	0	1	0	0	0	3	2	2	2	3	5	2	3	3	5	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:183682976C>T	uc003fmg.2	-	14	2193	c.2028G>A	c.(2026-2028)ACG>ACA	p.T676T	ABCC5_uc011bqt.1_Silent_p.T204T|ABCC5_uc010hxl.2_Silent_p.T676T	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	676	ABC transporter 1.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			CCTGTACCTCCGTCAGGTCGC	0.592													8	29					0	0	0.004482	0	0		T	183682976	T	T	183682976	2	4	8	1	0	0	0	0	0	0	0	1	56	639	23	1		1	ABCC5	3	183682976	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	14185719	183682976	14339454	328	7137											
EIF4G1	1981	broad.mit.edu	37	chr3	184040373	184040373	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaaaatcagcctcctgcAggcagcaatccaggcccaga	12	5	11	13	0	1	1	1	0	0	1	3	2	3	2	4	3	3	3	4	3	3	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:184040373A>G	uc003fnp.2	+	12	1848	c.1650A>G	c.(1648-1650)GCA>GCG	p.A550A	EIF4G1_uc003fno.1_Silent_p.A491A|EIF4G1_uc010hxw.1_Silent_p.A386A|EIF4G1_uc003fnt.2_Silent_p.A261A|EIF4G1_uc003fnq.2_Silent_p.A463A|EIF4G1_uc003fnr.2_Silent_p.A386A|EIF4G1_uc010hxx.2_Silent_p.A557A|EIF4G1_uc003fns.2_Silent_p.A510A|EIF4G1_uc010hxy.2_Silent_p.A557A|EIF4G1_uc003fnv.3_Silent_p.A550A|EIF4G1_uc003fnu.3_Silent_p.A550A|EIF4G1_uc003fnw.2_Silent_p.A557A|EIF4G1_uc003fnx.2_Silent_p.A354A|EIF4G1_uc003fny.3_Silent_p.A354A	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	550					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGCCTCCTGCAGGCAGCAATC	0.532													8	32					0	0	0.004482	0	0		G	184040373	G	G	184040373	2	3	8	1	0	0	0	0	0	0	0	1	5044	175	7	3		3	EIF4G1	3	184040373	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	357397	184040373	13982057	329	7138											
EPHB3	2049	broad.mit.edu	37	chr3	184299146	184299146	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcggtacaaggagagcttCgtcagtgcggggtttgcatc	7	9	17	8	3	1	1	1	0	0	1	3	2	1	1	0	5	4	4	0	5	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:184299146C>T	uc003foz.2	+	15	3275	c.2838C>T	c.(2836-2838)TTC>TTT	p.F946F		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	946	Cytoplasmic (Potential).|SAM.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			AGGAGAGCTTCGTCAGTGCGG	0.592													11	43					0	0	0.010729	0	0		T	184299146	T	T	184299146	2	4	8	1	0	0	0	0	0	0	0	1	5184	883	31	1		1	EPHB3	3	184299146	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	258773	184299146	13723284	330	7139											
IGF2BP2	10644	broad.mit.edu	37	chr3	185363401	185363401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtacaatttccctgatcttgCgctgtgcagtctgcagcaag	8	12	10	11	1	2	1	0	1	2	0	3	1	3	1	1	0	5	5	1	0	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:185363401C>T	uc003fpo.2	-	16	1797	c.1718G>A	c.(1717-1719)CGC>CAC	p.R573H	IGF2BP2_uc010hyi.2_Missense_Mutation_p.R516H|IGF2BP2_uc010hyj.2_Missense_Mutation_p.R510H|IGF2BP2_uc010hyk.2_Missense_Mutation_p.R437H|IGF2BP2_uc010hyl.2_Missense_Mutation_p.R467H|IGF2BP2_uc003fpp.2_Missense_Mutation_p.R530H|IGF2BP2_uc003fpq.2_Missense_Mutation_p.R578H	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	573	KH 4.				anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			CCTGATCTTGCGCTGTGCAGT	0.577													6	41					0	0	0.001168	0	0		T	185363401	T	T	185363401	3	4	8	1	0	0	0	0	1	0	0	0	7590	768	27	1	85	1	IGF2BP2	3	185363401	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1064255	185363401	12659029	331	7140											
EIF4A2	1974	broad.mit.edu	37	chr3	186504931	186504931	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacaggaatggaagttggatAcactttgtgacttgtacgag	12	12	12	5	1	0	1	0	1	0	0	0	5	0	4	0	3	3	2	0	3	5	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:186504931A>G	uc003fqs.2	+	8	826	c.787A>G	c.(787-789)ACA>GCA	p.T263A	EIF4A2_uc003fqt.2_RNA|EIF4A2_uc003fqu.2_Missense_Mutation_p.T264A|EIF4A2_uc003fqv.2_Missense_Mutation_p.T168A|EIF4A2_uc003fqw.2_Missense_Mutation_p.T168A|EIF4A2_uc011bsb.1_Missense_Mutation_p.T136A|SNORA63_uc010hyw.1_5'Flank|SNORA4_uc010hyx.1_5'Flank	NM_001967	NP_001958	Q14240	IF4A2_HUMAN	eukaryotic translation initiation factor 4A2	263	Helicase C-terminal.				interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|protein binding|translation initiation factor activity			ovary(2)|breast(2)	4	all_cancers(143;2.68e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.07e-20)	GBM - Glioblastoma multiforme(93;0.0704)		GAAGTTGGATACACTTTGTGA	0.363			T	BCL6	NHL								17	101					0	0	0.014323	0	0		G	186504931	G	G	186504931	3	3	8	1	0	0	0	0	1	0	0	0	5033	391	14	3	817	3	EIF4A2	3	186504931	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1141530	186504931	11517499	332	7141											
MUC4	4585	broad.mit.edu	37	chr3	195506181	195506181	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggggtggcgtgaccggtGgatgctgaggaagcatcggt	8	7	20	6	3	0	3	0	2	0	1	1	5	0	5	1	7	2	2	1	7	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:195506181G>T	uc011bto.1	-	3	12346	c.11886C>A	c.(11884-11886)TCC>TCA	p.S3962S	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_5'Flank|MUC4_uc011btg.1_5'Flank|MUC4_uc011bth.1_5'Flank|MUC4_uc011bti.1_5'Flank|MUC4_uc011btj.1_5'Flank|MUC4_uc011btk.1_5'Flank|MUC4_uc011btl.1_5'Flank|MUC4_uc011btm.1_5'Flank|MUC4_uc011btn.1_5'Flank|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	856	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		CGTGACCGGTGGATGCTGAGG	0.582													6	3					5.9392e-07	6.45498e-07	0.001168	1	0		T	195506181	T	T	195506181	2	4	8	1	0	0	0	0	0	0	0	1	9996	1335	47	5		5	MUC4	3	195506181	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	9001250	195506181	2516249	333	7142											
PIGX	54965	broad.mit.edu	37	chr3	196454970	196454970	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggagaagcctcgattgtGgtcaataacccagatttgtt	11	12	11	7	1	1	2	1	0	0	2	2	5	1	2	2	2	2	1	2	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:196454970G>A	uc010iaj.2	+	4	653	c.372G>A	c.(370-372)GTG>GTA	p.V124V	PIGX_uc003fwx.3_Silent_p.V124V|PIGX_uc011btx.1_RNA	NM_017861	NP_060331	Q8TBF5	PIGX_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	165	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane					0	all_cancers(143;1.41e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;1.08e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00322)		CCTCGATTGTGGTCAATAACC	0.468													3	53					0	0	0.009096	0	0		A	196454970	A	A	196454970	2	1	8	1	0	0	0	0	0	0	0	1	11922	1335	47	4		4	PIGX	3	196454970	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	948789	196454970	1567460	334	7143											
PAK2	5062	broad.mit.edu	37	chr3	196509566	196509566	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcctccagcacctcctgtgCgaatgagcagcaccatcttt	9	9	8	15	1	1	1	0	1	1	0	3	2	3	1	5	0	5	3	5	0	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr3:196509566C>T	uc003fwy.3	+	2	371	c.49C>T	c.(49-51)CGA>TGA	p.R17*		NM_002577	NP_002568	Q13177	PAK2_HUMAN	p21-activated kinase 2	17					axon guidance|cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of apoptosis|regulation of defense response to virus by virus|regulation of growth|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|nucleus|perinuclear region of cytoplasm|plasma membrane	ATP binding|identical protein binding|protein kinase binding|protein serine/threonine kinase activity|protein tyrosine kinase activator activity			ovary(1)|lung(1)	2	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00405)		ACCTCCTGTGCGAATGAGCAG	0.438													31	188					0	0	0.013726	0	0		T	196509566	T	T	196509566	4	4	8	1	0	0	0	0	0	1	0	0	11420	760	27	1	51	1	PAK2	3	196509566	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	54596	196509566	1512864	335	7144											
GAK	2580	broad.mit.edu	37	chr4	860918	860918	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggagggggccttgcaggCctgcgggggtacagctggcc	4	6	20	11	1	0	0	0	0	0	0	0	1	0	1	3	7	4	4	3	7	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:860918C>G	uc003gbm.3	-	21	2897	c.2698G>C	c.(2698-2700)GCC>CCC	p.A900P	GAK_uc003gbn.3_Missense_Mutation_p.A821P|GAK_uc010ibk.1_Missense_Mutation_p.A794P|GAK_uc010ibi.2_Missense_Mutation_p.A81P|GAK_uc010ibj.2_RNA|GAK_uc003gbl.3_Missense_Mutation_p.A764P	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	900					cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		GCCTTGCAGGCCTGCGGGGGT	0.716													4	10					0	0	0.009096	0	0		G	860918	G	G	860918	3	3	8	1	0	0	0	0	1	0	0	0	6210	739	26	5	1269	5	GAK	4	860918	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08		860918	190293358	336	7145											
GAK	2580	broad.mit.edu	37	chr4	861151	861151	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacctcactctcgtctctgTcctccatcagggcagactcg	7	10	7	17	2	4	1	2	0	2	1	9	1	6	1	3	1	0	1	3	1	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:861151T>C	uc003gbm.3	-	21	2664	c.2465A>G	c.(2464-2466)GAC>GGC	p.D822G	GAK_uc003gbn.3_Missense_Mutation_p.D743G|GAK_uc010ibk.1_Missense_Mutation_p.D716G|GAK_uc010ibi.2_Missense_Mutation_p.D3G|GAK_uc010ibj.2_RNA|GAK_uc003gbl.3_Missense_Mutation_p.D686G	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	822					cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		CTCGTCTCTGTCCTCCATCAG	0.602													15	61					0	0	0.007413	0	0		C	861151	C	C	861151	3	2	8	1	0	0	0	0	1	0	0	0	6210	1667	58	3	1502	3	GAK	4	861151	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	233	861151	190293125	337	7146											
FAM193A	8603	broad.mit.edu	37	chr4	2673877	2673877	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaaacacttgtgaatgTcatgtttgtaagcaggaagc	12	11	10	8	0	1	1	1	1	0	0	2	2	2	2	1	1	3	4	1	1	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:2673877T>A	uc010icl.2	+	11	1587	c.1236T>A	c.(1234-1236)TGT>TGA	p.C412*	FAM193A_uc010ick.2_Nonsense_Mutation_p.C612*|FAM193A_uc003gfd.2_Nonsense_Mutation_p.C412*|FAM193A_uc011bvm.1_Nonsense_Mutation_p.C434*|FAM193A_uc011bvn.1_Nonsense_Mutation_p.C412*|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Nonsense_Mutation_p.C266*	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	412										ovary(3)	3						CTTGTGAATGTCATGTTTGTA	0.433													16	45					0	0	0.004007	0	0		A	2673877	A	A	2673877	4	1	8	1	0	0	0	0	0	1	0	0	5535	1673	58	5	1270	5	FAM193A	4	2673877	Nonsense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1812726	2673877	188480399	338	7147											
ADD1	118	broad.mit.edu	37	chr4	2906508	2906508	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagggctacagaactggctaCccttatcgataccctgctct	9	11	8	13	1	1	1	0	0	1	1	2	2	1	1	2	2	5	3	2	2	6	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:2906508C>T	uc003gfr.2	+	10	1367	c.1179C>T	c.(1177-1179)TAC>TAT	p.Y393Y	ADD1_uc003gfn.2_Intron|ADD1_uc003gfo.2_Silent_p.Y393Y|ADD1_uc003gfp.2_Silent_p.Y393Y|ADD1_uc003gfq.2_Silent_p.Y393Y|ADD1_uc003gfs.2_Silent_p.Y393Y|ADD1_uc003gft.3_Silent_p.Y393Y	NM_001119	NP_001110	P35611	ADDA_HUMAN	adducin 1 (alpha) isoform a	393					actin filament bundle assembly|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|positive regulation of protein binding	cytosol|F-actin capping protein complex|nucleus|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding|transcription factor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GAACTGGCTACCCTTATCGAT	0.398													8	88					0	0	0.008291	0	0		T	2906508	T	T	2906508	2	4	8	1	0	0	0	0	0	0	0	1	304	518	18	4		4	ADD1	4	2906508	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	232631	2906508	188247768	339	7148											
ADD1	118	broad.mit.edu	37	chr4	2916624	2916624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacagggagagctggtgaCggcctccaaggccatcattg	9	7	13	12	1	1	2	1	1	0	1	3	3	3	2	4	4	1	1	4	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:2916624C>T	uc003gfr.2	+	13	1807	c.1619C>T	c.(1618-1620)ACG>ATG	p.T540M	ADD1_uc003gfn.2_Intron|ADD1_uc003gfo.2_Missense_Mutation_p.T571M|ADD1_uc003gfp.2_Missense_Mutation_p.T540M|ADD1_uc003gfq.2_Missense_Mutation_p.T571M|ADD1_uc003gfs.2_Missense_Mutation_p.T571M	NM_001119	NP_001110	P35611	ADDA_HUMAN	adducin 1 (alpha) isoform a	540					actin filament bundle assembly|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|positive regulation of protein binding	cytosol|F-actin capping protein complex|nucleus|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding|transcription factor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GAGCTGGTGACGGCCTCCAAG	0.642													8	47					0	0	0.006214	0	0		T	2916624	T	T	2916624	3	4	8	1	0	0	0	0	1	0	0	0	304	536	19	1	1758	1	ADD1	4	2916624	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	10116	2916624	188237652	340	7149											
LYAR	55646	broad.mit.edu	37	chr4	4283520	4283520	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacgttacctgaatccacGcctgctgtttgatgtcgcct	7	12	10	12	3	0	3	0	2	0	1	2	4	1	3	4	0	2	3	4	0	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:4283520G>T	uc011bvy.1	-	4	370	c.227C>A	c.(226-228)GCG>GAG	p.A76E	LYAR_uc011bvx.1_5'Flank|LYAR_uc003ght.2_Missense_Mutation_p.A76E	NM_001145725	NP_001139197	Q9NX58	LYAR_HUMAN	Ly1 antibody reactive homolog	76						nucleolus	metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CTGAATCCACGCCTGCTGTTT	0.443													19	115					2.54575e-18	2.86717e-18	0.010504	1	0		T	4283520	T	T	4283520	3	4	8	1	0	0	0	0	1	0	0	0	9121	1087	38	5	940	5	LYAR	4	4283520	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1366896	4283520	186870756	341	7150											
STK32B	55351	broad.mit.edu	37	chr4	5468447	5468447	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagaaagggaggttgaactgCgatcccacatttgagcttga	12	10	12	7	1	0	4	0	3	0	1	1	6	1	5	1	2	3	2	1	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:5468447C>T	uc003gih.1	+	10	991	c.927C>T	c.(925-927)TGC>TGT	p.C309C	STK32B_uc010ida.1_Silent_p.C262C	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	309							ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						GGTTGAACTGCGATCCCACAT	0.418													11	39					0	0	0.013537	0	0		T	5468447	T	T	5468447	2	4	8	1	0	0	0	0	0	0	0	1	15323	776	27	1		1	STK32B	4	5468447	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1184927	5468447	185685829	342	7151											
EVC2	132884	broad.mit.edu	37	chr4	5624508	5624508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggctgagttctgcaggcGccgcagctcgtcggtggcct	4	9	15	13	4	1	1	0	1	1	0	3	1	1	1	2	4	2	5	2	4	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:5624508G>A	uc003gij.2	-	14	2311	c.2257C>T	c.(2257-2259)CGC>TGC	p.R753C	EVC2_uc011bwb.1_Missense_Mutation_p.R193C|EVC2_uc003gik.2_Missense_Mutation_p.R673C	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	753	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						TTCTGCAGGCGCCGCAGCTCG	0.647													4	33					0	0	0.000602	0	0		A	5624508	A	A	5624508	3	1	8	1	0	0	0	0	1	0	0	0	5294	1087	38	1	1705	1	EVC2	4	5624508	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	156061	5624508	185529768	343	7152											
EVC	2121	broad.mit.edu	37	chr4	5754686	5754686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccacggcctggagctgctgGctggtgaggggaagctgtcc	5	7	17	12	1	0	1	0	1	0	0	1	3	1	3	3	6	3	4	3	6	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:5754686G>A	uc003gil.1	+	9	1406	c.1222G>A	c.(1222-1224)GCT>ACT	p.A408T	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	408					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				GGAGCTGCTGGCTGGTGAGGG	0.652													3	9					0	0	0.004672	0	0		A	5754686	A	A	5754686	3	1	8	1	0	0	0	0	1	0	0	0	5293	1203	42	2	1256	2	EVC	4	5754686	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	130178	5754686	185399590	344	7153											
PPP2R2C	5522	broad.mit.edu	37	chr4	6377649	6377649	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtaatcttccataatttgAtagttttatctttaaaaaca	14	17	4	6	1	2	1	0	1	2	0	3	1	3	1	1	1	1	2	1	1	7	9			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:6377649A>G	uc003gjc.2	-	4	714	c.344T>C	c.(343-345)ATC>ACC	p.I115T	PPP2R2C_uc003gjb.2_Missense_Mutation_p.I98T|PPP2R2C_uc011bwd.1_Missense_Mutation_p.I108T|PPP2R2C_uc011bwe.1_Missense_Mutation_p.I108T|PPP2R2C_uc003gja.2_Missense_Mutation_p.I115T|PPP2R2C_uc003gjd.1_Missense_Mutation_p.I203T	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	115	WD 2.				signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						CCATAATTTGATAGTTTTATC	0.413													18	57					0	0	0.008871	0	0		G	6377649	G	G	6377649	3	3	8	1	0	0	0	0	1	0	0	0	12408	333	12	3	1023	3	PPP2R2C	4	6377649	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	622963	6377649	184776627	345	7154											
KIAA0232	9778	broad.mit.edu	37	chr4	6865064	6865064	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaaacagttttgctcctggGcacaggcagttatggaaacc	11	9	12	9	0	0	0	0	0	0	0	1	2	1	2	2	4	3	5	2	4	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:6865064G>A	uc003gjr.3	+	7	3418	c.2955G>A	c.(2953-2955)GGG>GGA	p.G985G	KIAA0232_uc003gjq.3_Silent_p.G985G	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	985							ATP binding			ovary(2)	2						TTGCTCCTGGGCACAGGCAGT	0.438													5	65					0	0	0.000602	0	0		A	6865064	A	A	6865064	2	1	8	1	0	0	0	0	0	0	0	1	8179	1190	42	2		2	KIAA0232	4	6865064	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	487415	6865064	184289212	346	7155											
BOD1L	259282	broad.mit.edu	37	chr4	13597501	13597501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacctattccacttggctttCccccacacagactttctggt	7	13	5	16	0	1	1	0	0	1	1	3	1	3	1	4	2	0	1	4	2	1	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:13597501C>T	uc003gmz.1	-	12	8204	c.8087G>A	c.(8086-8088)GGA>GAA	p.G2696E		NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2696							DNA binding			ovary(5)|breast(1)	6						ACTTGGCTTTCCCCCACACAG	0.378													24	168					0	0	0.004656	0	0		T	13597501	T	T	13597501	3	4	8	1	0	0	0	0	1	0	0	0	1484	855	30	4	1128	4	BOD1L	4	13597501	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6732437	13597501	177556775	347	7156											
PROM1	8842	broad.mit.edu	37	chr4	15982050	15982050	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcccacatacttactcatcGtacacgtcctccgaatccat	11	10	4	16	3	1	0	1	0	0	0	5	1	4	0	4	0	4	1	4	0	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:15982050G>A	uc003goo.2	-	23	2696	c.2484C>T	c.(2482-2484)TAC>TAT	p.Y828Y	PROM1_uc003gor.2_Silent_p.Y828Y|PROM1_uc003gos.2_Silent_p.Y819Y|PROM1_uc003got.2_Silent_p.Y828Y|PROM1_uc003gou.2_Silent_p.Y819Y|PROM1_uc003gop.2_Silent_p.Y819Y|PROM1_uc003goq.3_Silent_p.Y819Y	NM_006017	NP_006008	O43490	PROM1_HUMAN	prominin 1 isoform 1	828	Cytoplasmic (Potential).				camera-type eye photoreceptor cell differentiation|photoreceptor cell maintenance|retina layer formation	apical plasma membrane|cell surface|integral to plasma membrane|microvillus membrane|photoreceptor outer segment membrane|plasma membrane	beta-actinin binding|cadherin binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	7						CTTACTCATCGTACACGTCCT	0.433													5	29					0	0	0.000602	0	0		A	15982050	A	A	15982050	2	1	8	1	0	0	0	0	0	0	0	1	12577	1140	40	1		1	PROM1	4	15982050	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2384549	15982050	175172226	348	7157											
STIM2	57620	broad.mit.edu	37	chr4	27024459	27024459	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcccggtgcctaaacctcgCcacacatcatgttcctcagc	9	9	6	17	2	2	0	2	0	0	0	5	0	4	0	5	1	3	1	5	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:27024459C>T	uc003gsh.3	+	13	2583	c.2367C>T	c.(2365-2367)CGC>CGT	p.R789R	STIM2_uc003gsg.3_Silent_p.R781R|STIM2_uc010iex.2_3'UTR|STIM2_uc010iey.2_3'UTR	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2	694	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)				CTAAACCTCGCCACACATCAT	0.483													15	81					0	0	0.003163	0	0		T	27024459	T	T	27024459	2	4	8	1	0	0	0	0	0	0	0	1	15309	726	26	2		2	STIM2	4	27024459	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	11042409	27024459	164129817	349	7158											
PCDH7	5099	broad.mit.edu	37	chr4	30723234	30723234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgtgaccggatcgggtgagGtgactttcagcctggagtcc	6	10	15	10	3	1	3	1	3	0	0	4	5	2	5	3	4	1	0	3	4	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:30723234G>A	uc003gsk.1	+	1	1198	c.190G>A	c.(190-192)GTG>ATG	p.V64M	PCDH7_uc011bxw.1_Missense_Mutation_p.V64M|PCDH7_uc011bxx.1_Missense_Mutation_p.V64M	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	64	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						ATCGGGTGAGGTGACTTTCAG	0.662													3	19					0	0	0.009096	0	0		A	30723234	A	A	30723234	3	1	8	1	0	0	0	0	1	0	0	0	11535	1261	44	4	192	4	PCDH7	4	30723234	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3698775	30723234	160431042	350	7159											
PCDH7	5099	broad.mit.edu	37	chr4	30724012	30724012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggctgagaacagcgcccCggggacccccatcctgcaac	8	5	11	17	2	0	1	0	1	0	1	1	3	1	2	5	3	4	2	5	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:30724012C>T	uc003gsk.1	+	1	1976	c.968C>T	c.(967-969)CCG>CTG	p.P323L	PCDH7_uc011bxw.1_Missense_Mutation_p.P276L|PCDH7_uc011bxx.1_Missense_Mutation_p.P323L	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	323	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						AACAGCGCCCCGGGGACCCCC	0.662													4	11					0	0	0.009096	0	0		T	30724012	T	T	30724012	3	4	8	1	0	0	0	0	1	0	0	0	11535	652	23	1	970	1	PCDH7	4	30724012	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	778	30724012	160430264	351	7160											
APBB2	323	broad.mit.edu	37	chr4	41016202	41016202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggatccgagaggcccatgGccgcctggatgttagttagt	7	10	14	10	2	0	1	0	0	0	1	1	4	1	3	4	4	0	2	4	4	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:41016202G>A	uc003gvl.2	-	6	863	c.233C>T	c.(232-234)GCC>GTC	p.A78V	APBB2_uc003gvm.2_Missense_Mutation_p.A78V|APBB2_uc003gvn.2_Missense_Mutation_p.A78V|APBB2_uc011byt.1_Missense_Mutation_p.A61V	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	78					cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						GAGGCCCATGGCCGCCTGGAT	0.502													16	55					0	0	0.003163	0	0		A	41016202	A	A	41016202	3	1	8	1	0	0	0	0	1	0	0	0	761	1203	42	2	2098	2	APBB2	4	41016202	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	10292190	41016202	150138074	352	7161											
GABRA4	2557	broad.mit.edu	37	chr4	46976326	46976326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaagctggaagactccttcGgaacttcaactgatttctca	11	12	7	11	1	2	2	2	1	1	1	5	4	3	4	1	2	3	1	1	2	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:46976326G>A	uc003gxg.2	-	6	783	c.644C>T	c.(643-645)CCG>CTG	p.P215L		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	215	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	AGACTCCTTCGGAACTTCAAC	0.393													15	68					0	0	0.004007	0	0		A	46976326	A	A	46976326	3	1	8	1	0	0	0	0	1	0	0	0	6177	1116	39	1	1036	1	GABRA4	4	46976326	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	5960124	46976326	144177950	353	7162											
SCFD2	152579	broad.mit.edu	37	chr4	54231634	54231634	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggagcaacaggggcaagcaAtaacgggacatggaacacct	15	3	14	9	1	0	0	0	0	0	0	0	3	0	3	1	5	5	3	1	5	5	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:54231634A>C	uc003gzu.2	-	1	609	c.475T>G	c.(475-477)TTG>GTG	p.L159V	SCFD2_uc010igm.2_Missense_Mutation_p.L159V	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2	159					protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			GGGGCAAGCAATAACGGGACA	0.572													4	34					0	0	0.009096	0	0		C	54231634	C	C	54231634	3	2	8	1	0	0	0	0	1	0	0	0	13915	98	4	5	1615	5	SCFD2	4	54231634	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	7255308	54231634	136922642	354	7163											
CENPC1	1060	broad.mit.edu	37	chr4	68380266	68380266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgttgtttcagagaccctgCctttcttggtattgtaatcc	6	16	9	10	1	2	1	1	0	1	1	3	2	3	1	3	1	1	4	3	1	2	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:68380266C>T	uc003hdd.1	-	8	1153	c.970G>A	c.(970-972)GCA>ACA	p.A324T	CENPC1_uc010ihj.1_RNA|CENPC1_uc010ihk.1_RNA|CENPC1_uc010ihm.1_Missense_Mutation_p.A324T	NM_001812	NP_001803	Q03188	CENPC_HUMAN	centromere protein C 1	324					mitotic prometaphase	condensed chromosome kinetochore|condensed nuclear chromosome, centromeric region|cytosol	DNA binding			urinary_tract(1)|lung(1)	2						AGAGACCCTGCCTTTCTTGGT	0.413													4	16					0	0	0.009096	0	0		T	68380266	T	T	68380266	3	4	8	1	0	0	0	0	1	0	0	0	3232	739	26	2	1909	2	CENPC1	4	68380266	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	14148632	68380266	122774010	355	7164											
CSN3	1448	broad.mit.edu	37	chr4	71114881	71114881	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacatattatgcaaacccagCtgtagttaggccacatgccc	12	9	7	13	0	0	0	0	0	0	0	0	0	0	0	3	1	4	4	3	1	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:71114881C>T	uc003hfe.3	+	4	312	c.254C>T	c.(253-255)GCT>GTT	p.A85V		NM_005212	NP_005203	P07498	CASK_HUMAN	casein kappa precursor	85						extracellular region	protein binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						GCAAACCCAGCTGTAGTTAGG	0.448													11	50					0	0	0.008291	0	0		T	71114881	T	T	71114881	3	4	8	1	0	0	0	0	1	0	0	0	3952	797	28	2	264	2	CSN3	4	71114881	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2734615	71114881	120039395	356	7165											
PPEF2	5470	broad.mit.edu	37	chr4	76787346	76787346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaccacaccgttacctcgCgactcagttgttccttggcc	7	12	7	15	3	1	0	1	0	0	0	3	1	2	0	5	1	2	3	5	1	2	5	rs138384094	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:76787346C>T	uc003hix.2	-	15	2273	c.1916G>A	c.(1915-1917)CGC>CAC	p.R639H	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_3'UTR	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	639					detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			CGTTACCTCGCGACTCAGTTG	0.478													26	107					0	0	0.010818	0	0		T	76787346	T	T	76787346	3	4	8	1	0	0	0	0	1	0	0	0	12327	768	27	1	357	1	PPEF2	4	76787346	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5672465	76787346	114366930	357	7166											
FRAS1	80144	broad.mit.edu	37	chr4	79437097	79437097	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgaagagctgcgtgtggaCctttgatgcttattatgaca	9	13	11	8	1	0	4	0	3	0	1	0	5	0	5	2	1	3	2	2	1	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:79437097C>A	uc003hlb.2	+	66	10759	c.10319C>A	c.(10318-10320)ACC>AAC	p.T3440N		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	3435	Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TGCGTGTGGACCTTTGATGCT	0.572													10	42					6.40141e-05	6.83769e-05	0.010729	1	0		A	79437097	A	A	79437097	3	1	8	1	0	0	0	0	1	0	0	0	6056	507	18	5	10656	5	FRAS1	4	79437097	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2649751	79437097	111717179	358	7167											
ARHGAP24	83478	broad.mit.edu	37	chr4	86898809	86898809	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttggtcctaatatcctgcGccccaaagtggaagatcctt	9	12	8	12	1	0	1	0	0	0	1	3	2	3	2	5	2	1	0	5	2	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:86898809G>A	uc003hpk.2	+	8	1342	c.893G>A	c.(892-894)CGC>CAC	p.R298H	ARHGAP24_uc003hpl.2_Missense_Mutation_p.R203H|ARHGAP24_uc010ikf.2_Missense_Mutation_p.R213H|ARHGAP24_uc003hpm.2_Missense_Mutation_p.R205H	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1	298	Rho-GAP.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		AATATCCTGCGCCCCAAAGTG	0.403													10	57					0	0	0.006214	0	0		A	86898809	A	A	86898809	3	1	8	1	0	0	0	0	1	0	0	0	873	1087	38	1	1035	1	ARHGAP24	4	86898809	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	7461712	86898809	104255467	359	7168											
SPP1	6696	broad.mit.edu	37	chr4	88903760	88903760	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgccttctgattgggacagCcgtgggaaggacagttatga	9	9	15	8	2	1	2	0	2	1	0	1	5	1	5	2	3	1	1	2	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:88903760C>T	uc003hra.2	+	7	822	c.657C>T	c.(655-657)AGC>AGT	p.S219S	SPP1_uc003hrb.2_Silent_p.S192S|SPP1_uc003hrc.2_Silent_p.S205S|SPP1_uc011cde.1_Silent_p.S232S|SPP1_uc003hrd.2_Silent_p.S178S	NM_001040058	NP_001035147	P10451	OSTP_HUMAN	secreted phosphoprotein 1 isoform a	219					biomineral tissue development|cell adhesion|decidualization|embryo implantation|ossification|response to vitamin D	extracellular space	cytokine activity			ovary(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-05)		ATTGGGACAGCCGTGGGAAGG	0.527													16	101					0	0	0.006122	0	0		T	88903760	T	T	88903760	2	4	8	1	0	0	0	0	0	0	0	1	15111	738	26	2		2	SPP1	4	88903760	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2004951	88903760	102250516	360	7169											
RAP1GDS1	5910	broad.mit.edu	37	chr4	99313170	99313170	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaattactgggcatccaCtgccaaaatgcagctcttac	12	10	8	11	0	1	1	0	1	1	0	2	1	2	1	2	1	5	3	2	1	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:99313170C>T	uc003htx.3	+	6	766	c.576C>T	c.(574-576)CAC>CAT	p.H192H	RAP1GDS1_uc003htu.2_Silent_p.H192H|RAP1GDS1_uc003htw.3_Silent_p.H193H|RAP1GDS1_uc003htv.3_Silent_p.H193H|RAP1GDS1_uc003htz.3_Silent_p.H143H|RAP1GDS1_uc003hty.3_Silent_p.H144H|RAP1GDS1_uc003hua.3_Intron	NM_001100427	NP_001093897	P52306	GDS1_HUMAN	RAP1, GTP-GDP dissociation stimulator 1 isoform	192	ARM 2.						binding|GTPase activator activity			ovary(1)|lung(1)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;2.9e-07)|LUSC - Lung squamous cell carcinoma(1;0.0253)|Lung(1;0.0576)		TGGGCATCCACTGCCAAAATG	0.343			T	NUP98	T-ALL								7	46					0	0	0.001984	0	0		T	99313170	T	T	99313170	2	4	8	1	0	0	0	0	0	0	0	1	13064	564	20	4		4	RAP1GDS1	4	99313170	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	10409410	99313170	91841106	361	7170											
TET2	54790	broad.mit.edu	37	chr4	106157341	106157341	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagcaacagcagcaaaaaTtacaaataaagaataaagag	24	4	6	7	0	0	2	0	0	0	2	0	2	0	2	1	0	5	3	1	0	10	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:106157341T>A	uc003hxk.2	+	3	2628	c.2242T>A	c.(2242-2244)TTA>ATA	p.L748I	TET2_uc011cez.1_Missense_Mutation_p.L769I|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Missense_Mutation_p.L748I|TET2_uc003hxi.1_Missense_Mutation_p.L748I	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	748	Gln-rich.				cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		GCAGCAAAAATTACAAATAAA	0.408			Mis N|F		MDS								18	66					0	0	0.007413	0	0		A	106157341	A	A	106157341	3	1	8	1	0	0	0	0	1	0	0	0	15795	1490	52	5	2244	5	TET2	4	106157341	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	6844171	106157341	84996935	362	7171											
SYNPO2	171024	broad.mit.edu	37	chr4	119952870	119952870	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatccttgtttactttccaAcctccagatgcaaaggatgg	10	12	8	11	0	0	1	0	0	0	1	3	2	3	2	4	2	3	3	4	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:119952870A>G	uc003icm.3	+	4	3136	c.2940A>G	c.(2938-2940)CAA>CAG	p.Q980Q	SYNPO2_uc010ina.2_Silent_p.Q980Q|SYNPO2_uc010inb.2_Silent_p.Q980Q|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Silent_p.Q908Q	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	980						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						TTACTTTCCAACCTCCAGATG	0.498													19	62					0	0	0.008871	0	0		G	119952870	G	G	119952870	2	3	8	1	0	0	0	0	0	0	0	1	15482	40	2	3		3	SYNPO2	4	119952870	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	13795529	119952870	71201406	363	7172											
MAD2L1	4085	broad.mit.edu	37	chr4	120983144	120983144	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttacctgtcatcttttgcAgtcttgtcacactcaatatc	9	17	4	11	0	5	0	3	0	2	0	6	0	5	0	1	0	2	1	1	0	3	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:120983144A>C	uc003idl.2	-	3	451	c.327T>G	c.(325-327)ACT>ACG	p.T109T	MAD2L1_uc003idm.2_Intron	NM_002358	NP_002349	Q13257	MD2L1_HUMAN	MAD2-like 1	109	HORMA.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of apoptosis|negative regulation of mitotic anaphase-promoting complex activity|positive regulation of mitotic cell cycle spindle assembly checkpoint	condensed chromosome kinetochore|cytosol|nucleus|perinuclear region of cytoplasm	protein homodimerization activity				0						CATCTTTTGCAGTCTTGTCAC	0.299													6	37					0	0	0.001984	0	0		C	120983144	C	C	120983144	2	2	8	1	0	0	0	0	0	0	0	1	9166	175	7	5		5	MAD2L1	4	120983144	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1030274	120983144	70171132	364	7173											
BBS7	55212	broad.mit.edu	37	chr4	122770069	122770069	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaccctggatagatgtgacGctttcagacaacatctaaaa	14	9	7	11	1	2	3	1	1	1	2	2	4	2	4	2	1	1	1	2	1	4	3	rs142376157		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:122770069G>A	uc003ied.2	-	9	1038	c.864C>T	c.(862-864)AGC>AGT	p.S288S	BBS7_uc003iee.1_Silent_p.S288S	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	288					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						TAGATGTGACGCTTTCAGACA	0.358									Bardet-Biedl_syndrome				12	78					0	0	0.00245	0	0		A	122770069	A	A	122770069	2	1	8	1	0	0	0	0	0	0	0	1	1342	1078	38	1		1	BBS7	4	122770069	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1786925	122770069	68384207	365	7174											
SPRY1	10252	broad.mit.edu	37	chr4	124323363	124323363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcctgtttggcctgtaaccGgcagtgcctttgctctgctg	4	14	11	12	1	1	0	0	0	1	0	2	0	2	0	4	2	4	5	4	2	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:124323363G>A	uc003ifa.2	+	2	805	c.617G>A	c.(616-618)CGG>CAG	p.R206Q	SPRY1_uc003ifb.2_Missense_Mutation_p.R206Q	NM_199327	NP_955359	O43609	SPY1_HUMAN	sprouty homolog 1, antagonist of FGF signaling	206	Cys-rich.|SPR.				epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|lamellipodium|plasma membrane				skin(2)|ovary(1)	3						GCCTGTAACCGGCAGTGCCTT	0.522													17	74					0	0	0.004007	0	0		A	124323363	A	A	124323363	3	1	8	1	0	0	0	0	1	0	0	0	15130	1116	39	1	619	1	SPRY1	4	124323363	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1553294	124323363	66830913	366	7175											
FAT4	79633	broad.mit.edu	37	chr4	126370353	126370353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactggtgaaattagaagcGttagacctttggacagggaa	13	10	12	6	1	0	3	0	1	0	2	0	5	0	5	1	3	2	1	1	3	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:126370353G>A	uc003ifj.3	+	9	8182	c.8182G>A	c.(8182-8184)GTT>ATT	p.V2728I	FAT4_uc011cgp.1_Missense_Mutation_p.V1026I|FAT4_uc003ifi.1_Missense_Mutation_p.V206I	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2728	Cadherin 26.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AATTAGAAGCGTTAGACCTTT	0.383													18	89					0	0	0.006122	0	0		A	126370353	A	A	126370353	3	1	8	1	0	0	0	0	1	0	0	0	5706	1145	40	1	8216	1	FAT4	4	126370353	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2046990	126370353	64783923	367	7176											
FAT4	79633	broad.mit.edu	37	chr4	126398366	126398366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtatcagatctctagaacCaatccttcagagaagaggac	15	8	9	9	0	3	4	2	0	1	4	5	6	4	5	2	2	1	1	2	2	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:126398366C>T	uc003ifj.3	+	13	12350	c.12350C>T	c.(12349-12351)CCA>CTA	p.P4117L	FAT4_uc011cgp.1_Missense_Mutation_p.P2380L|FAT4_uc003ifi.1_Missense_Mutation_p.P1595L	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4117	Laminin G-like 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TCTCTAGAACCAATCCTTCAG	0.393													25	196					0	0	0.007291	0	0		T	126398366	T	T	126398366	3	4	8	1	0	0	0	0	1	0	0	0	5706	594	21	4	12400	4	FAT4	4	126398366	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	28013	126398366	64755910	368	7177											
FAT4	79633	broad.mit.edu	37	chr4	126411789	126411789	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctcacaactcagaaacCatccccagcgcccctttggc	10	8	5	18	1	2	1	2	0	0	1	4	1	4	1	6	1	3	0	6	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:126411789C>T	uc003ifj.3	+	17	13812	c.13812C>T	c.(13810-13812)ACC>ACT	p.T4604T	FAT4_uc011cgp.1_Silent_p.T2845T|FAT4_uc003ifi.1_Silent_p.T2081T	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4604	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACTCAGAAACCATCCCCAGCG	0.488													9	71					0	0	0.010729	0	0		T	126411789	T	T	126411789	2	4	8	1	0	0	0	0	0	0	0	1	5706	581	21	4		4	FAT4	4	126411789	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	13423	126411789	64742487	369	7178											
PCDH10	57575	broad.mit.edu	37	chr4	134071537	134071537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgaacgagaaaatagaccGcgaacaaatctgcaaacaga	19	4	9	9	4	1	4	0	1	1	3	1	6	1	4	1	0	4	1	1	0	7	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:134071537G>A	uc003iha.2	+	1	1068	c.242G>A	c.(241-243)CGC>CAC	p.R81H	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.R81H	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	81	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AAAATAGACCGCGAACAAATC	0.567													14	113					0	0	0.003163	0	0		A	134071537	A	A	134071537	3	1	8	1	0	0	0	0	1	0	0	0	11526	1087	38	1	244	1	PCDH10	4	134071537	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	7659748	134071537	57082739	370	7179											
PCDH10	57575	broad.mit.edu	37	chr4	134072675	134072675	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggatgtgaacgacaacgcGccgcgtttcagccagccggt	8	7	13	13	7	1	1	1	1	0	0	2	3	1	2	3	2	4	1	3	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:134072675G>A	uc003iha.2	+	1	2206	c.1380G>A	c.(1378-1380)GCG>GCA	p.A460A	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.A460A	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	460	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		ACGACAACGCGCCGCGTTTCA	0.617													7	42					0	0	0.004482	0	0		A	134072675	A	A	134072675	2	1	8	1	0	0	0	0	0	0	0	1	11526	1074	38	1		1	PCDH10	4	134072675	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1138	134072675	57081601	371	7180											
LRBA	987	broad.mit.edu	37	chr4	151773292	151773292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacagtagtttctggtgaCatagctgaagaccctgatgc	12	10	11	8	0	1	4	0	3	1	1	1	5	1	4	1	1	3	3	1	1	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:151773292C>T	uc010ipj.2	-	23	4044	c.3570G>A	c.(3568-3570)ATG>ATA	p.M1190I	LRBA_uc003ilt.3_5'Flank|LRBA_uc003ilu.3_Missense_Mutation_p.M1190I	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1190						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TTTCTGGTGACATAGCTGAAG	0.403													17	74					0	0	0.00499	0	0		T	151773292	T	T	151773292	3	4	8	1	0	0	0	0	1	0	0	0	8949	478	17	4	5165	4	LRBA	4	151773292	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	17700617	151773292	39380984	372	7181											
FBXW7	55294	broad.mit.edu	37	chr4	153271192	153271192	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatcattatatttaatattAccttgtatattctgagactt	13	20	3	5	0	2	1	1	1	1	1	2	2	2	1	1	0	1	1	1	0	8	12			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:153271192A>G	uc003ims.2	-	3	733	c.584_splice	c.e3+1	p.S195_splice	FBXW7_uc011cii.1_Splice_Site_p.S195_splice|FBXW7_uc003imt.2_Splice_Site_p.S195_splice|FBXW7_uc011cih.1_5'Flank|FBXW7_uc003imq.2_Splice_Site_p.S115_splice|FBXW7_uc003imr.2_Splice_Site_p.S77_splice	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform						interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				ATTTAATATTACCTTGTATAT	0.303			Mis|N|D|F		colorectal|endometrial|T-ALL								4	8					0	0	0.009096	0	0		G	153271192	G	G	153271192	5	3	8	1	0	0	0	0	0	0	1	0	5783	405	14	3	1577	3	FBXW7	4	153271192	Splice_Site	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1497900	153271192	37883084	373	7182											
FHDC1	85462	broad.mit.edu	37	chr4	153897150	153897150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcagagaacgagagcatgCgcaaggtcatgcccatcacc	12	5	10	14	2	3	2	3	0	0	2	3	4	3	2	3	1	4	2	3	1	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:153897150C>T	uc003inf.2	+	11	2782	c.2707C>T	c.(2707-2709)CGC>TGC	p.R903C		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	903					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					CGAGAGCATGCGCAAGGTCAT	0.701													7	23					0	0	0.001984	0	0		T	153897150	T	T	153897150	3	4	8	1	0	0	0	0	1	0	0	0	5890	768	27	1	2749	1	FHDC1	4	153897150	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	625958	153897150	37257126	374	7183											
TRIM2	23321	broad.mit.edu	37	chr4	154243896	154243896	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaacaaggcgtgctgcgtgTttatcttccagccaaacggg	10	9	11	11	3	1	0	0	0	1	0	2	0	2	0	2	2	5	2	2	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:154243896T>C	uc003ing.2	+	9	1999	c.1798T>C	c.(1798-1800)TTT>CTT	p.F600L	TRIM2_uc003inh.2_Missense_Mutation_p.F627L	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	600	NHL 3.					cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		GTGCTGCGTGTTTATCTTCCA	0.483													12	50					0	0	0.013537	0	0		C	154243896	C	C	154243896	3	2	8	1	0	0	0	0	1	0	0	0	16520	1725	60	3	1913	3	TRIM2	4	154243896	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	346746	154243896	36910380	375	7184											
DCHS2	54798	broad.mit.edu	37	chr4	155253791	155253791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaacacatcatgcaagaagGtgggggaattgtcattctca	14	9	10	8	0	3	1	3	0	1	1	4	2	3	2	0	3	2	1	0	3	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:155253791G>A	uc003inw.2	-	9	2072	c.2072C>T	c.(2071-2073)ACC>ATC	p.T691I	DCHS2_uc003inx.2_Missense_Mutation_p.T1190I	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	691	Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		ATGCAAGAAGGTGGGGGAATT	0.438													6	129					0	0	0.001168	0	0		A	155253791	A	A	155253791	3	1	8	1	0	0	0	0	1	0	0	0	4291	1261	44	4	6842	4	DCHS2	4	155253791	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1009895	155253791	35900485	376	7185											
MAP9	79884	broad.mit.edu	37	chr4	156289916	156289916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcaacatactccttggcCgaggtgatggtttaaagtga	10	14	10	7	1	1	2	1	2	0	0	2	3	2	2	2	3	2	1	2	3	4	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:156289916C>T	uc003ios.2	-	5	794	c.530G>A	c.(529-531)CGG>CAG	p.R177Q	MAP9_uc011cin.1_Missense_Mutation_p.R176Q|MAP9_uc010iqa.1_RNA|MAP9_uc003iot.1_Missense_Mutation_p.R176Q|MAP9_uc010iqb.1_Missense_Mutation_p.R104Q	NM_001039580	NP_001034669	Q49MG5	MAP9_HUMAN	aster-associated protein	177					cell division|mitosis	cytoplasm|microtubule|spindle				ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.143)		ACTCCTTGGCCGAGGTGATGG	0.378													9	58					0	0	0.010729	0	0		T	156289916	T	T	156289916	3	4	8	1	0	0	0	0	1	0	0	0	9288	652	23	1	1453	1	MAP9	4	156289916	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1036125	156289916	34864360	377	7186											
GLRB	2743	broad.mit.edu	37	chr4	158074033	158074033	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtccaggtgatgctgaacaaCcccaaaagggttgaagctga	13	7	12	9	0	0	4	0	4	0	0	1	4	1	4	3	2	4	3	3	2	5	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:158074033C>G	uc003ipj.2	+	9	1270	c.1068C>G	c.(1066-1068)AAC>AAG	p.N356K		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	356	Cytoplasmic (Probable).				nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	TGCTGAACAACCCCAAAAGGG	0.448													10	65					0	0	0.006214	0	0		G	158074033	G	G	158074033	3	3	8	1	0	0	0	0	1	0	0	0	6473	506	18	5	1098	5	GLRB	4	158074033	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1784117	158074033	33080243	378	7187											
FAM198B	51313	broad.mit.edu	37	chr4	159092395	159092395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaagcccaagtagatggCacacgcagtgcccagcagaa	14	3	12	12	1	0	2	0	0	0	2	0	3	0	3	2	2	3	4	2	2	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:159092395C>T	uc003ipp.3	-	2	585	c.133G>A	c.(133-135)GCC>ACC	p.A45T	uc003ipu.1_5'Flank|FAM198B_uc003ipq.3_Missense_Mutation_p.A45T|FAM198B_uc003ipr.3_Missense_Mutation_p.A45T|FAM198B_uc003ips.2_Missense_Mutation_p.A45T|uc003ipt.1_RNA	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	45	Helical; Signal-anchor for type II membrane protein; (Potential).					Golgi membrane|integral to membrane					0						AAGTAGATGGCACACGCAGTG	0.652													9	21					0	0	0.010729	0	0		T	159092395	T	T	159092395	3	4	8	1	0	0	0	0	1	0	0	0	5540	710	25	2	1547	2	FAM198B	4	159092395	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1018362	159092395	32061881	379	7188											
KLHL2	11275	broad.mit.edu	37	chr4	166215608	166215608	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgacaaacttaccatttcTtcagaagagaaggtaaggat	16	10	9	6	0	2	3	1	1	1	2	2	5	2	4	1	2	2	1	1	2	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:166215608T>G	uc003irb.2	+	6	901	c.642T>G	c.(640-642)TCT>TCG	p.S214S	KLHL2_uc011cjm.1_Silent_p.S218S|KLHL2_uc003irc.2_Silent_p.S126S|KLHL2_uc010ira.2_5'UTR	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	214					intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		TTACCATTTCTTCAGAAGAGA	0.338													7	39					0	0	0.001984	0	0		G	166215608	G	G	166215608	2	3	8	1	0	0	0	0	0	0	0	1	8390	1596	56	5		5	KLHL2	4	166215608	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	7123213	166215608	24938668	380	7189											
DDX60	55601	broad.mit.edu	37	chr4	169194431	169194431	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaattaaaataccctaccTgacagtttaaggcatcatga	16	12	5	8	0	1	2	1	2	0	0	1	2	1	2	2	1	2	2	2	1	6	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:169194431T>C	uc003irp.2	-	18	2865	c.2573A>G	c.(2572-2574)CAG>CGG	p.Q858R		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	858	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		ATACCCTACCTGACAGTTTAA	0.363													8	61					0	0	0.004482	0	0		C	169194431	C	C	169194431	3	2	8	1	0	0	0	0	1	0	0	0	4381	1594	55	3	2649	3	DDX60	4	169194431	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2978823	169194431	21959845	381	7190											
KIAA1712	80817	broad.mit.edu	37	chr4	175231102	175231102	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atagagaaaaggttagactgTttggaacaaaaaatgaaagg	20	8	11	2	0	0	3	0	1	0	2	0	5	0	4	0	3	1	2	0	3	9	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:175231102T>C	uc003itr.2	+	8	1194	c.780T>C	c.(778-780)TGT>TGC	p.C260C	KIAA1712_uc010iro.2_Silent_p.C260C|KIAA1712_uc003its.2_RNA	NM_001040157	NP_001035247	Q9C0F1	CEP44_HUMAN	HBV PreS1-transactivated protein 3 isoform a	260	Potential.					centrosome|midbody|spindle pole					0		Prostate(90;0.00276)|Melanoma(52;0.0179)|Renal(120;0.0376)|Breast(14;0.0991)|all_hematologic(60;0.124)|all_neural(102;0.196)		all cancers(43;4.06e-18)|Epithelial(43;1.18e-15)|OV - Ovarian serous cystadenocarcinoma(60;4.65e-09)|GBM - Glioblastoma multiforme(59;0.00098)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0949)		GGTTAGACTGTTTGGAACAAA	0.348													20	41					0	0	0.012319	0	0		C	175231102	C	C	175231102	2	2	8	1	0	0	0	0	0	0	0	1	8269	1731	60	3		3	KIAA1712	4	175231102	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	6036671	175231102	15923174	382	7191											
GLRA3	8001	broad.mit.edu	37	chr4	175598374	175598374	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatcaggagactgggaatgTacatctggatcagatagtat	14	10	11	6	0	3	2	2	0	1	2	3	5	3	4	0	3	1	2	0	3	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:175598374T>C	uc003ity.1	-	7	1285	c.782A>G	c.(781-783)TAC>TGC	p.Y261C	GLRA3_uc003itz.1_Missense_Mutation_p.Y261C	NM_006529	NP_006520	O75311	GLRA3_HUMAN	glycine receptor, alpha 3 isoform a	261	Helical; (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(3)	3		Prostate(90;0.00601)|Breast(14;0.0091)|Melanoma(52;0.00959)|Renal(120;0.0183)|all_neural(102;0.0891)|all_hematologic(60;0.107)		all cancers(43;4.99e-18)|Epithelial(43;1.18e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.88e-09)|STAD - Stomach adenocarcinoma(60;0.00442)|GBM - Glioblastoma multiforme(59;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0421)	Glycine(DB00145)	ACTGGGAATGTACATCTGGAT	0.443													9	50					0	0	0.006214	0	0		C	175598374	C	C	175598374	3	2	8	1	0	0	0	0	1	0	0	0	6471	1638	57	3	628	3	GLRA3	4	175598374	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	367272	175598374	15555902	383	7192											
ASB5	140458	broad.mit.edu	37	chr4	177142368	177142368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacaagctacatagagaggaGttcccaaatgaggaatttct	15	10	9	7	0	1	2	0	1	1	1	2	5	2	4	1	2	3	2	1	2	6	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:177142368G>A	uc003iuq.1	-	5	624	c.608C>T	c.(607-609)ACT>ATT	p.T203I	ASB5_uc003iup.1_Missense_Mutation_p.T150I	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	203	ANK 5.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		ATAGAGAGGAGTTCCCAAATG	0.408													17	67					0	0	0.00499	0	0		A	177142368	A	A	177142368	3	1	8	1	0	0	0	0	1	0	0	0	1027	1029	36	4	393	4	ASB5	4	177142368	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1543994	177142368	14011908	384	7193											
VEGFC	7424	broad.mit.edu	37	chr4	177648991	177648991	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccctcactattgcagcAacccccacatctgtagacgg	10	7	7	17	1	2	1	1	0	1	1	2	1	2	1	4	1	4	3	4	1	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:177648991A>G	uc003ius.1	-	3	923	c.493T>C	c.(493-495)TGC>CGC	p.C165R		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	165					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		CTATTGCAGCAACCCCCACAT	0.547													12	78					0	0	0.010729	0	0		G	177648991	G	G	177648991	3	3	8	1	0	0	0	0	1	0	0	0	17178	130	5	3	789	3	VEGFC	4	177648991	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	506623	177648991	13505285	385	7194											
CDKN2AIP	55602	broad.mit.edu	37	chr4	184368553	184368553	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtaaacttacctccagcActaaaacatcctcaagaatt	15	10	3	13	0	1	1	1	0	0	1	3	1	3	1	4	0	4	2	4	0	7	4	rs143559678		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:184368553A>G	uc003ivp.1	+	3	1878	c.1716A>G	c.(1714-1716)GCA>GCG	p.A572A	CDKN2AIP_uc003ivq.1_Silent_p.A317A	NM_017632	NP_060102	Q9NXV6	CARF_HUMAN	CDKN2A interacting protein	572					negative regulation of cell growth|positive regulation of signal transduction|regulation of protein stability	granular component|nucleoplasm	double-stranded RNA binding|p53 binding				0		all_lung(41;6.9e-12)|Lung NSC(41;1.28e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;1.15e-26)|Epithelial(43;2.98e-22)|OV - Ovarian serous cystadenocarcinoma(60;7.64e-10)|GBM - Glioblastoma multiforme(59;4.22e-06)|Colorectal(24;5.87e-06)|STAD - Stomach adenocarcinoma(60;2.09e-05)|COAD - Colon adenocarcinoma(29;5.15e-05)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		TACCTCCAGCACTAAAACATC	0.338													35	212					0	0	0.005524	0	0		G	184368553	G	G	184368553	2	3	8	1	0	0	0	0	0	0	0	1	3165	146	6	3		3	CDKN2AIP	4	184368553	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	6719562	184368553	6785723	386	7195											
C4orf41	60684	broad.mit.edu	37	chr4	184585026	184585026	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtgacatcgtaaacatgagCcccacacagtgggacttccc	11	8	9	13	1	0	2	0	2	0	0	2	3	1	3	3	1	2	1	3	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:184585026C>T	uc003ivx.2	+	2	182	c.6C>T	c.(4-6)AGC>AGT	p.S2S	C4orf41_uc003ivw.2_Silent_p.S2S|C4orf41_uc010isc.2_5'UTR	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	2											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		TAAACATGAGCCCCACACAGT	0.348													11	50					0	0	0.013537	0	0		T	184585026	T	T	184585026	2	4	8	1	0	0	0	0	0	0	0	1	2273	738	26	2		2	C4orf41	4	184585026	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	216473	184585026	6569250	387	7196											
CCDC111	201973	broad.mit.edu	37	chr4	185593391	185593391	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagtgaagatgatgatagCgctccagagacaacaggcca	14	5	13	9	1	0	5	0	3	0	2	1	6	1	5	2	2	2	2	2	2	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:185593391C>T	uc003iwk.2	+	7	1054	c.621C>T	c.(619-621)AGC>AGT	p.S207S	CCDC111_uc010isd.1_RNA|CCDC111_uc003iwj.2_Silent_p.S207S|CCDC111_uc003iwl.2_Silent_p.S207S|CCDC111_uc003iwm.2_Silent_p.S78S|CCDC111_uc003iwn.2_Silent_p.S32S	NM_152683	NP_689896	Q96LW4	CC111_HUMAN	coiled-coil domain containing 111	207					DNA replication, synthesis of RNA primer		DNA primase activity			central_nervous_system(1)	1		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.00531)|Hepatocellular(41;0.00932)|Renal(120;0.0246)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|all_neural(102;0.131)		all cancers(43;5.84e-27)|Epithelial(43;2.2e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.28e-11)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.03e-05)|Colorectal(24;7.57e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000249)|COAD - Colon adenocarcinoma(29;0.000502)|LUSC - Lung squamous cell carcinoma(40;0.00995)|READ - Rectum adenocarcinoma(43;0.173)		ATGATGATAGCGCTCCAGAGA	0.398													6	121					0	0	0.001984	0	0		T	185593391	T	T	185593391	2	4	8	1	0	0	0	0	0	0	0	1	2751	767	27	1		1	CCDC111	4	185593391	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1008365	185593391	5560885	388	7197											
CCDC110	256309	broad.mit.edu	37	chr4	186381064	186381064	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgcttgagaaaaggcacaGtaattttggatttatccaga	14	12	9	6	0	0	2	0	1	0	2	1	4	1	3	1	2	1	3	1	2	4	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:186381064G>T	uc003ixu.3	-	6	753	c.677C>A	c.(676-678)ACT>AAT	p.T226N	CCDC110_uc003ixv.3_Missense_Mutation_p.T189N|CCDC110_uc011ckt.1_Missense_Mutation_p.T226N	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	226						nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		AAAAGGCACAGTAATTTTGGA	0.333													5	63					0.000602214	0.000636366	0.000602	1	0		T	186381064	T	T	186381064	3	4	8	1	0	0	0	0	1	0	0	0	2750	1029	36	5	1832	5	CCDC110	4	186381064	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	787673	186381064	4773212	389	7198											
F11	2160	broad.mit.edu	37	chr4	187195296	187195296	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagacatttatgtggacCtagacatgaagggcataaac	17	8	9	7	0	0	3	0	1	0	2	0	4	0	4	1	2	1	1	1	2	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr4:187195296C>A	uc003iza.1	+	5	685	c.352C>A	c.(352-354)CTA>ATA	p.L118I	F11_uc003iyz.2_Missense_Mutation_p.L118I	NM_000128	NP_000119	P03951	FA11_HUMAN	coagulation factor XI precursor	118	Apple 2.				blood coagulation, intrinsic pathway|plasminogen activation|positive regulation of fibrinolysis	extracellular space|plasma membrane	heparin binding|serine-type endopeptidase activity				0		all_cancers(14;6.2e-52)|all_epithelial(14;1.62e-38)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;2.13e-11)|BRCA - Breast invasive adenocarcinoma(30;4.59e-06)|GBM - Glioblastoma multiforme(59;0.000149)|STAD - Stomach adenocarcinoma(60;0.000314)|LUSC - Lung squamous cell carcinoma(40;0.00112)|READ - Rectum adenocarcinoma(43;0.176)	Coagulation Factor IX(DB00100)	TTATGTGGACCTAGACATGAA	0.448													10	84					0.000673444	0.00071074	0.008291	1	0		A	187195296	A	A	187195296	3	1	8	1	0	0	0	0	1	0	0	0	5345	680	24	5	366	5	F11	4	187195296	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	814232	187195296	3958980	390	7199											
FAM173B	134145	broad.mit.edu	37	chr5	10239183	10239183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttagcagaactcacaatgCgtccgtccccactaccgatg	10	10	7	14	3	1	1	1	0	0	1	3	2	3	1	4	0	4	1	4	0	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:10239183C>T	uc003jeo.2	-	2	331	c.302G>A	c.(301-303)CGC>CAC	p.R101H	FAM173B_uc003jep.2_RNA|FAM173B_uc010itr.2_Missense_Mutation_p.R101H	NM_199133	NP_954584	Q6P4H8	F173B_HUMAN	hypothetical protein LOC134145	101						integral to membrane				kidney(1)|central_nervous_system(1)	2						ACTCACAATGCGTCCGTCCCC	0.398													22	75					0	0	0.004656	0	0		T	10239183	T	T	10239183	3	4	8	1	0	0	0	0	1	0	0	0	5505	768	27	1	415	1	FAM173B	5	10239183	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08		10239183	170676077	391	7200											
DNAH5	1767	broad.mit.edu	37	chr5	13845019	13845019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgtatagtgtgggagtccGacgcctgccccagaatctct	7	10	11	13	2	1	1	0	0	1	1	3	3	2	2	5	1	1	1	5	1	3	2	rs146087064		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:13845019G>A	uc003jfd.2	-	32	5240	c.5198C>T	c.(5197-5199)TCG>TTG	p.S1733L		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1733	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GTGGGAGTCCGACGCCTGCCC	0.463									Kartagener_syndrome				11	63					0	0	0.001855	0	0		A	13845019	A	A	13845019	3	1	8	1	0	0	0	0	1	0	0	0	4610	1059	37	1	8868	1	DNAH5	5	13845019	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3605836	13845019	167070241	392	7201											
MYO10	4651	broad.mit.edu	37	chr5	16699619	16699619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctgtacacagagtcacGccggtatgaaagctcatcat	13	8	9	11	2	3	2	3	1	0	1	3	2	3	2	1	1	3	4	1	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:16699619G>A	uc003jft.3	-	26	3964	c.3496C>T	c.(3496-3498)CGT>TGT	p.R1166C	MYO10_uc011cnc.1_Missense_Mutation_p.R45C|MYO10_uc011cnd.1_Missense_Mutation_p.R523C|MYO10_uc011cne.1_Missense_Mutation_p.R523C|MYO10_uc010itx.2_Missense_Mutation_p.R789C	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1166					axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						ACAGAGTCACGCCGGTATGAA	0.493													15	50					0	0	0.004007	0	0		A	16699619	A	A	16699619	3	1	8	1	0	0	0	0	1	0	0	0	10080	1087	38	1	2744	1	MYO10	5	16699619	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2854600	16699619	164215641	393	7202											
MYO10	4651	broad.mit.edu	37	chr5	16764481	16764481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcacgcatacagagccatggCcagggagtccctgctgtcta	9	7	12	13	1	1	1	0	0	1	1	2	2	2	2	3	2	3	3	3	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:16764481C>T	uc003jft.3	-	12	1672	c.1204G>A	c.(1204-1206)GCC>ACC	p.A402T	MYO10_uc010itx.2_Missense_Mutation_p.A25T	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	402	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						AGAGCCATGGCCAGGGAGTCC	0.547													20	67					0	0	0.008871	0	0		T	16764481	T	T	16764481	3	4	8	1	0	0	0	0	1	0	0	0	10080	739	26	2	5092	2	MYO10	5	16764481	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	64862	16764481	164150779	394	7203											
RNASEN	29102	broad.mit.edu	37	chr5	31515179	31515179	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagaagttcttcttcttcCtcctcattcttgtcaggcat	7	18	5	11	0	6	1	2	0	4	1	8	1	8	1	2	1	0	2	2	1	2	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:31515179C>T	uc003jhg.2	-	7	1565	c.1206G>A	c.(1204-1206)GAG>GAA	p.E402E	RNASEN_uc003jhh.2_Silent_p.E365E|RNASEN_uc003jhi.2_Silent_p.E365E|RNASEN_uc010iui.1_Silent_p.E325E	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	402					gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						CTTCTTCTTCCTCCTCATTCT	0.468													29	92					0	0	0.013726	0	0		T	31515179	T	T	31515179	2	4	8	1	0	0	0	0	0	0	0	1	13442	680	24	4		4	RNASEN	5	31515179	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	14750698	31515179	149400081	395	7204											
PDZD2	23037	broad.mit.edu	37	chr5	32069705	32069705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaaatggatgaagtcataGcacgcagcacttatcaggag	15	7	12	7	1	2	1	2	1	0	0	2	4	2	4	0	3	2	3	0	3	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:32069705G>A	uc003jhl.2	+	15	2870	c.2482G>A	c.(2482-2484)GCA>ACA	p.A828T	PDZD2_uc003jhm.2_Missense_Mutation_p.A828T|PDZD2_uc011cnx.1_Missense_Mutation_p.A654T	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	828					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						TGAAGTCATAGCACGCAGCAC	0.388													14	62					0	0	0.00245	0	0		A	32069705	A	A	32069705	3	1	8	1	0	0	0	0	1	0	0	0	11720	971	34	2	2536	2	PDZD2	5	32069705	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	554526	32069705	148845555	396	7205											
PDZD2	23037	broad.mit.edu	37	chr5	32088835	32088835	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccagtctgtcctccttcAgtgtggatgtccctaagaat	7	13	9	12	0	2	1	1	0	1	1	5	2	5	2	4	1	1	0	4	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:32088835A>G	uc003jhl.2	+	20	5669	c.5281A>G	c.(5281-5283)AGT>GGT	p.S1761G	PDZD2_uc003jhm.2_Missense_Mutation_p.S1761G	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1761					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GTCCTCCTTCAGTGTGGATGT	0.448													12	42					0	0	0.003163	0	0		G	32088835	G	G	32088835	3	3	8	1	0	0	0	0	1	0	0	0	11720	188	7	3	5355	3	PDZD2	5	32088835	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	19130	32088835	148826425	397	7206											
ADAMTS12	81792	broad.mit.edu	37	chr5	33576232	33576232	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttgtaattggaggcatttAgcaaaaagccctcagtaatc	13	11	9	8	0	1	0	1	0	0	0	2	1	1	1	1	2	2	5	1	2	5	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:33576232A>G	uc003jia.1	-	19	4062	c.3899T>C	c.(3898-3900)CTA>CCA	p.L1300P	ADAMTS12_uc010iuq.1_Missense_Mutation_p.L1215P	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1300	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GGAGGCATTTAGCAAAAAGCC	0.488										HNSCC(64;0.19)			30	116					0	0	0.009535	0	0		G	33576232	G	G	33576232	3	3	8	1	0	0	0	0	1	0	0	0	257	420	15	3	909	3	ADAMTS12	5	33576232	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1487397	33576232	147339028	398	7207											
NIPBL	25836	broad.mit.edu	37	chr5	36976272	36976272	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgctgctcaatgtttgtcGcagcaagaacaaacagcatt	14	10	8	9	1	1	1	1	0	0	1	2	1	1	1	0	0	6	6	0	0	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:36976272G>A	uc003jkl.3	+	9	1762	c.1263G>A	c.(1261-1263)TCG>TCA	p.S421S	NIPBL_uc003jkk.3_Silent_p.S421S|NIPBL_uc003jkm.1_Silent_p.S300S	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	421	Gln-rich.				brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			AATGTTTGTCGCAGCAAGAAC	0.423													15	79					0	0	0.00245	0	0		A	36976272	A	A	36976272	2	1	8	1	0	0	0	0	0	0	0	1	10447	1074	38	1		1	NIPBL	5	36976272	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3400040	36976272	143938988	399	7208											
NIPBL	25836	broad.mit.edu	37	chr5	37022373	37022373	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaacgaggtgttcatggaCgattgatggataattcgact	11	12	12	6	3	1	1	1	1	0	0	2	6	1	3	0	3	2	2	0	3	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:37022373C>T	uc003jkl.3	+	29	5954	c.5455C>T	c.(5455-5457)CGA>TGA	p.R1819*	NIPBL_uc003jkk.3_Nonsense_Mutation_p.R1819*	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1819					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			TGTTCATGGACGATTGATGGA	0.358													7	35					0	0	0.006214	0	0		T	37022373	T	T	37022373	4	4	8	1	0	0	0	0	0	1	0	0	10447	528	19	1	5565	1	NIPBL	5	37022373	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	46101	37022373	143892887	400	7209											
LIFR	3977	broad.mit.edu	37	chr5	38506042	38506042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taactaaaattgttgattgtGatcgacccagcggattgtga	12	13	10	6	2	0	3	0	3	0	0	1	5	0	4	1	1	2	1	1	1	3	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:38506042G>A	uc010ive.1	-	9	1588	c.1256C>T	c.(1255-1257)TCA>TTA	p.S419L	LIFR_uc003jli.2_Missense_Mutation_p.S419L	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	419	Fibronectin type-III 2.|Extracellular (Potential).				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					TGTTGATTGTGATCGACCCAG	0.284			T	PLAG1	salivary adenoma								14	98					0	0	0.004007	0	0		A	38506042	A	A	38506042	3	1	8	1	0	0	0	0	1	0	0	0	8796	1294	45	4	2085	4	LIFR	5	38506042	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1483669	38506042	142409218	401	7210											
PLCXD3	345557	broad.mit.edu	37	chr5	41382224	41382224	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcctgggcaaaaatcgcTgggcacattttatttccata	11	13	7	10	1	0	0	0	0	0	0	3	0	2	0	2	2	0	3	2	2	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:41382224T>C	uc003jmm.1	-	2	618	c.516A>G	c.(514-516)CCA>CCG	p.P172P		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	172	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						CAAAAATCGCTGGGCACATTT	0.428													22	105					0	0	0.014323	0	0		C	41382224	C	C	41382224	2	2	8	1	0	0	0	0	0	0	0	1	12062	1567	55	3		3	PLCXD3	5	41382224	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2876182	41382224	139533036	402	7211											
ARL15	54622	broad.mit.edu	37	chr5	53409092	53409092	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaatattaaaaagggtaaAgtgcataactgtggatgctg	15	10	11	5	0	0	0	0	0	0	0	0	1	0	1	1	2	3	3	1	2	8	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:53409092A>G	uc003jpg.1	-	4	496	c.402T>C	c.(400-402)ACT>ACC	p.T134T	ARL15_uc010ivs.1_RNA	NM_019087	NP_061960	Q9NXU5	ARL15_HUMAN	ADP-ribosylation factor-like 15	134							GTP binding			ovary(1)	1		Lung NSC(810;0.000779)				AAAAGGGTAAAGTGCATAACT	0.423													11	41					0	0	0.013537	0	0		G	53409092	G	G	53409092	2	3	8	1	0	0	0	0	0	0	0	1	931	59	3	3		3	ARL15	5	53409092	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	12026868	53409092	127506168	403	7212											
MAP3K1	4214	broad.mit.edu	37	chr5	56177584	56177584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccactcacttcaccaggatgCgtcgccgtttgatggctatt	7	12	9	13	3	2	1	2	1	0	0	3	2	2	2	3	2	1	2	3	2	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:56177584C>T	uc003jqw.3	+	14	3058	c.2557C>T	c.(2557-2559)CGT>TGT	p.R853C		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	853					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		CACCAGGATGCGTCGCCGTTT	0.468													15	70					0	0	0.00499	0	0		T	56177584	T	T	56177584	3	4	8	1	0	0	0	0	1	0	0	0	9261	768	27	1	2611	1	MAP3K1	5	56177584	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2768492	56177584	124737676	404	7213											
ADAMTS6	11174	broad.mit.edu	37	chr5	64537967	64537967	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagttataatactttcctcGgaaaggcatattgtcaaagt	13	13	7	8	1	1	0	1	0	0	0	3	1	2	1	2	2	1	2	2	2	6	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:64537967G>A	uc003jtp.2	-	15	2711	c.1897C>T	c.(1897-1899)CGA>TGA	p.R633*	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA|ADAMTS6_uc003jtr.1_Nonsense_Mutation_p.R254*	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	633					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		TACTTTCCTCGGAAAGGCATA	0.368													12	51					0	0	0.00245	0	0		A	64537967	A	A	64537967	4	1	8	1	0	0	0	0	0	1	0	0	270	1124	39	1	1500	1	ADAMTS6	5	64537967	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	8360383	64537967	116377293	405	7214											
ADAMTS6	11174	broad.mit.edu	37	chr5	64556430	64556430	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttggttttacttacatcTgtgttacaggagcgataccg	9	15	10	7	2	1	0	0	0	1	0	1	2	1	1	1	2	5	3	1	2	4	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:64556430T>C	uc003jtp.2	-	14	2641	c.1827A>G	c.(1825-1827)ACA>ACG	p.T609T	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA|ADAMTS6_uc003jtr.1_Silent_p.T230T	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	609	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		TACTTACATCTGTGTTACAGG	0.264													8	33					0	0	0.004482	0	0		C	64556430	C	C	64556430	2	2	8	1	0	0	0	0	0	0	0	1	270	1567	55	3		3	ADAMTS6	5	64556430	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	18463	64556430	116358830	406	7215											
BDP1	55814	broad.mit.edu	37	chr5	70840949	70840949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgagacagggccctgcaCacttggtttggataggggtc	7	10	14	10	0	1	1	0	1	1	1	2	3	1	2	1	5	1	2	1	5	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:70840949C>T	uc003kbp.1	+	32	6910	c.6647C>T	c.(6646-6648)ACA>ATA	p.T2216I	BDP1_uc003kbo.2_Missense_Mutation_p.T2216I|BDP1_uc003kbq.1_RNA|BDP1_uc003kbr.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	2216					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		GGGCCCTGCACACTTGGTTTG	0.473													20	90					0	0	0.010504	0	0		T	70840949	T	T	70840949	3	4	8	1	0	0	0	0	1	0	0	0	1396	478	17	4	6773	4	BDP1	5	70840949	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6284519	70840949	110074311	407	7216											
MAP1B	4131	broad.mit.edu	37	chr5	71495820	71495820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccgcagcccttcgccacGccaccctgatgtgtccatgg	7	7	10	17	3	0	2	0	1	0	1	2	2	1	2	6	1	1	1	6	1	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:71495820G>A	uc003kbw.3	+	5	6879	c.6638G>A	c.(6637-6639)CGC>CAC	p.R2213H	MAP1B_uc010iyw.1_Missense_Mutation_p.R2230H|MAP1B_uc010iyx.1_Missense_Mutation_p.R2087H|MAP1B_uc010iyy.1_Missense_Mutation_p.R2087H	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	2213						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		CCTTCGCCACGCCACCCTGAT	0.537													27	133					0	0	0.009535	0	0		A	71495820	A	A	71495820	3	1	8	1	0	0	0	0	1	0	0	0	9246	1087	38	1	6656	1	MAP1B	5	71495820	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	654871	71495820	109419440	408	7217											
HMGCR	3156	broad.mit.edu	37	chr5	74655088	74655088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcataggaggctacaacGcccatgcagcaaacattgtc	13	6	11	11	1	0	0	0	0	0	0	1	2	0	2	1	3	6	4	1	3	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:74655088G>A	uc003kdp.2	+	17	2407	c.2251G>A	c.(2251-2253)GCC>ACC	p.A751T	HMGCR_uc011cst.1_Missense_Mutation_p.A771T|HMGCR_uc003kdq.2_Missense_Mutation_p.A698T|HMGCR_uc010izo.2_Missense_Mutation_p.A74T|HMGCR_uc010izp.2_Intron	NM_000859	NP_000850	P04035	HMDH_HUMAN	3-hydroxy-3-methylglutaryl-Coenzyme A reductase	751	Catalytic.				cholesterol biosynthetic process|coenzyme A metabolic process|germ cell migration|gonad development|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal membrane	hydroxymethylglutaryl-CoA reductase (NADPH) activity|NADP binding			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;2.24e-54)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Cerivastatin(DB00439)|Fluvastatin(DB01095)|Lovastatin(DB00227)|NADH(DB00157)|Pravastatin(DB00175)|Rosuvastatin(DB01098)|Simvastatin(DB00641)	AGGCTACAACGCCCATGCAGC	0.468													10	49					0	0	0.013537	0	0		A	74655088	A	A	74655088	3	1	8	1	0	0	0	0	1	0	0	0	7247	1087	38	1	2313	1	HMGCR	5	74655088	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3159268	74655088	106260172	409	7218											
SV2C	22987	broad.mit.edu	37	chr5	75596664	75596664	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actatagtgcctactggattTattttgtcaactttctgggg	8	17	9	7	0	2	0	1	0	1	0	2	1	2	1	1	3	3	0	1	3	5	8			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:75596664T>A	uc003kei.1	+	11	1881	c.1747T>A	c.(1747-1749)TAT>AAT	p.Y583N		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	583	Helical; (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		CTACTGGATTTATTTTGTCAA	0.393													20	104					0	0	0.014323	0	0		A	75596664	A	A	75596664	3	1	8	1	0	0	0	0	1	0	0	0	15444	1754	61	5	1785	5	SV2C	5	75596664	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	941576	75596664	105318596	410	7219											
WDR41	55255	broad.mit.edu	37	chr5	76788019	76788019	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccagtccctgcggttctcgGcctcccccgatcagccatcg	4	8	10	19	4	2	0	1	0	1	0	6	1	4	0	6	2	2	1	6	2	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:76788019G>A	uc003kff.1	-	1	314	c.27C>T	c.(25-27)GGC>GGT	p.G9G	WDR41_uc011csy.1_Silent_p.G9G|WDR41_uc011csz.1_Silent_p.G9G|WDR41_uc011cta.1_RNA|WDR41_uc011ctb.1_RNA	NM_018268	NP_060738	Q9HAD4	WDR41_HUMAN	WD repeat domain 41	9											0		all_lung(232;0.000961)|Lung NSC(167;0.0011)|Ovarian(174;0.0105)|Prostate(461;0.059)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-50)|Epithelial(54;2.04e-44)|all cancers(79;6.84e-40)		GCGGTTCTCGGCCTCCCCCGA	0.697													8	29					0	0	0.004482	0	0		A	76788019	A	A	76788019	2	1	8	1	0	0	0	0	0	0	0	1	17320	1190	42	2		2	WDR41	5	76788019	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1191355	76788019	104127241	411	7220											
BHMT2	23743	broad.mit.edu	37	chr5	78379171	78379171	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactgtggcaaagaggggtTtgtggatctcccagaatatc	10	11	13	7	0	1	3	0	1	1	2	3	4	1	4	1	4	0	2	1	4	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:78379171T>C	uc003kft.2	+	6	778	c.755T>C	c.(754-756)TTT>TCT	p.F252S	BHMT2_uc011cth.1_Missense_Mutation_p.F188S	NM_017614	NP_060084	Q9H2M3	BHMT2_HUMAN	betaine-homocysteine methyltransferase 2	252	Hcy-binding.				methionine biosynthetic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00063)|Lung NSC(167;0.00171)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;2.09e-45)|Epithelial(54;9.3e-41)|all cancers(79;4.09e-36)	L-Methionine(DB00134)	AAAGAGGGGTTTGTGGATCTC	0.512													10	35					0	0	0.013537	0	0		C	78379171	C	C	78379171	3	2	8	1	0	0	0	0	1	0	0	0	1427	1841	64	3	777	3	BHMT2	5	78379171	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1591152	78379171	102536089	412	7221											
JMY	133746	broad.mit.edu	37	chr5	78596523	78596523	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagatgaagtggtatactAtgacacttacgaaagcatgg	16	9	11	5	1	0	3	0	2	0	1	0	5	0	3	0	2	3	2	0	2	7	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:78596523A>G	uc003kfx.3	+	6	2238	c.1718A>G	c.(1717-1719)TAT>TGT	p.Y573C	JMY_uc003kfw.1_Missense_Mutation_p.Y219C	NM_152405	NP_689618	Q8N9B5	JMY_HUMAN	junction-mediating and regulatory protein	573					'de novo' actin filament nucleation|actin polymerization-dependent cell motility|Arp2/3 complex-mediated actin nucleation|cell cycle arrest|DNA repair|induction of apoptosis|positive regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter	cell leading edge|cytoplasm|cytoskeleton|nucleus	actin binding|transcription coactivator activity				0		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;4.45e-45)|Epithelial(54;5.85e-40)|all cancers(79;2.89e-35)		GTGGTATACTATGACACTTAC	0.289													10	44					0	0	0.013537	0	0		G	78596523	G	G	78596523	3	3	8	1	0	0	0	0	1	0	0	0	7973	449	16	3	1740	3	JMY	5	78596523	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	217352	78596523	102318737	413	7222											
RPS23	6228	broad.mit.edu	37	chr5	81573573	81573573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagggttggcctttagggCtgtgcccaaatgagctttct	9	12	12	8	0	1	1	0	1	1	0	1	1	1	1	2	3	2	3	2	3	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:81573573C>T	uc003khu.2	-	2	196	c.103G>A	c.(103-105)GCC>ACC	p.A35T	ATP6AP1L_uc003khv.2_5'Flank	NM_001025	NP_001016	P62266	RS23_HUMAN	ribosomal protein S23	35					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein binding|structural constituent of ribosome				0		Lung NSC(167;0.0025)|all_lung(232;0.00278)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;1.94e-42)|Epithelial(54;8.38e-37)|all cancers(79;1.42e-31)		GCCTTTAGGGCTGTGCCCAAA	0.463													23	130					0	0	0.012319	0	0		T	81573573	T	T	81573573	3	4	8	1	0	0	0	0	1	0	0	0	13659	797	28	2	340	2	RPS23	5	81573573	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2977050	81573573	99341687	414	7223											
VCAN	1462	broad.mit.edu	37	chr5	82833950	82833950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaagtttgtaagtgaaacaGacacttctgagtggatttcc	12	12	9	8	0	1	3	0	2	1	1	2	4	2	4	2	1	1	2	2	1	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:82833950G>A	uc003kii.3	+	8	5484	c.5128G>A	c.(5128-5130)GAC>AAC	p.D1710N	VCAN_uc003kij.3_Missense_Mutation_p.D723N|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.D374N	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1710	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		AAGTGAAACAGACACTTCTGA	0.423													14	88					0	0	0.001855	0	0		A	82833950	A	A	82833950	3	1	8	1	0	0	0	0	1	0	0	0	17164	942	33	4	5154	4	VCAN	5	82833950	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1260377	82833950	98081310	415	7224											
EDIL3	10085	broad.mit.edu	37	chr5	83402507	83402507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattttctgcagctgtccacGcatttataagccccttctta	8	15	5	13	1	2	0	0	0	2	0	3	0	3	0	3	0	3	3	3	0	3	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:83402507G>A	uc003kio.1	-	6	1030	c.611C>T	c.(610-612)GCG>GTG	p.A204V	EDIL3_uc003kip.1_Missense_Mutation_p.A194V	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like	204	F5/8 type C 1.				cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)		AGCTGTCCACGCATTTATAAG	0.418													18	125					0	0	0.007413	0	0		A	83402507	A	A	83402507	3	1	8	1	0	0	0	0	1	0	0	0	4921	1087	38	1	855	1	EDIL3	5	83402507	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	568557	83402507	97512753	416	7225											
NR2F1	7025	broad.mit.edu	37	chr5	92923897	92923897	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccggatctgcagatcacCgaccaggtgtccctgctacg	7	9	10	15	3	2	1	1	0	1	1	4	3	4	2	4	2	3	2	4	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:92923897C>T	uc003kkj.2	+	2	2425	c.738C>T	c.(736-738)ACC>ACT	p.T246T		NM_005654	NP_005645	P10589	COT1_HUMAN	nuclear receptor subfamily 2, group F, member 1	246					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			urinary_tract(1)|ovary(1)|lung(1)	3		all_cancers(142;1.62e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0416)|all cancers(79;9.57e-18)		TGCAGATCACCGACCAGGTGT	0.662													7	45					0	0	0.00308	0	0		T	92923897	T	T	92923897	2	4	8	1	0	0	0	0	0	0	0	1	10646	639	23	1		1	NR2F1	5	92923897	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	9521390	92923897	87991363	417	7226											
SPATA9	83890	broad.mit.edu	37	chr5	95011143	95011143	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatataggggttgcctcggCgcattaacttccctcagcag	8	12	10	11	2	1	0	1	0	0	0	3	0	2	0	2	3	3	3	2	3	4	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:95011143C>T	uc003klj.1	-	3	507	c.351G>A	c.(349-351)GCG>GCA	p.A117A	SPATA9_uc010jbh.1_RNA|SPATA9_uc003klh.1_RNA|SPATA9_uc003kli.1_Intron	NM_031952	NP_114158	Q9BWV2	SPAT9_HUMAN	spermatogenesis associated 9	117					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane					0		all_cancers(142;1.28e-06)|all_epithelial(76;1.55e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.00473)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.91e-16)		GTTGCCTCGGCGCATTAACTT	0.408													8	37					0	0	0.008291	0	0		T	95011143	T	T	95011143	2	4	8	1	0	0	0	0	0	0	0	1	15041	755	27	1		1	SPATA9	5	95011143	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2087246	95011143	85904117	418	7227											
ST8SIA4	7903	broad.mit.edu	37	chr5	100222222	100222222	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggcgcctgtcaagcacatAgtgtatgacatcaccaggct	10	8	10	13	2	2	1	2	1	0	0	2	1	2	1	3	2	1	3	3	2	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:100222222A>G	uc003knk.2	-	3	656	c.328T>C	c.(328-330)TAT>CAT	p.Y110H	ST8SIA4_uc003knl.2_Missense_Mutation_p.Y110H	NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	110	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		TCAAGCACATAGTGTATGACA	0.428													15	79					0	0	0.00245	0	0		G	100222222	G	G	100222222	3	3	8	1	0	0	0	0	1	0	0	0	15259	420	15	3	767	3	ST8SIA4	5	100222222	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	5211079	100222222	80693038	419	7228											
NUDT12	83594	broad.mit.edu	37	chr5	102890483	102890483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcaagtaaacatgcctggggGaaatcttttctgcctgccta	10	11	10	10	0	2	0	0	0	2	0	2	1	2	1	3	2	4	2	3	2	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:102890483G>A	uc003koi.2	-	5	1129	c.1036C>T	c.(1036-1038)CCC>TCC	p.P346S	NUDT12_uc011cvb.1_Missense_Mutation_p.P328S	NM_031438	NP_113626	Q9BQG2	NUD12_HUMAN	nudix-type motif 12	346	Nudix hydrolase.					nucleus|peroxisome	metal ion binding|NAD+ diphosphatase activity				0		all_cancers(142;6.38e-08)|all_epithelial(76;1.99e-10)|Prostate(80;0.0138)|Lung NSC(167;0.0212)|Colorectal(57;0.0247)|all_lung(232;0.0283)|Ovarian(225;0.0423)		Epithelial(69;9.3e-13)|COAD - Colon adenocarcinoma(37;0.0221)		ATGCCTGGGGGAAATCTTTTC	0.328													12	62					0	0	0.001855	0	0		A	102890483	A	A	102890483	3	1	8	1	0	0	0	0	1	0	0	0	10747	1174	41	4	364	4	NUDT12	5	102890483	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2668261	102890483	78024777	420	7229											
FAM170A	340069	broad.mit.edu	37	chr5	118965518	118965518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaagagtcccaggaaaccGctgagaagggaggaggtatg	14	5	16	6	1	0	3	0	2	0	2	1	7	1	6	2	4	1	2	2	4	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:118965518G>A	uc003ksm.2	+	1	265	c.55G>A	c.(55-57)GCT>ACT	p.A19T	FAM170A_uc003ksl.2_Missense_Mutation_p.A19T|FAM170A_uc003ksn.2_Missense_Mutation_p.A19T|FAM170A_uc003kso.2_Missense_Mutation_p.A19T	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	19						intracellular	zinc ion binding			skin(1)	1						CCAGGAAACCGCTGAGAAGGG	0.433													25	144					0	0	0.00632	0	0		A	118965518	A	A	118965518	3	1	8	1	0	0	0	0	1	0	0	0	5500	1087	38	1	57	1	FAM170A	5	118965518	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	16075035	118965518	61949742	421	7230											
ZNF608	57507	broad.mit.edu	37	chr5	124036739	124036739	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccacacgatcccttccAaattcacactggtcccaggt	10	9	6	16	1	1	0	1	0	0	0	4	1	4	0	4	2	1	0	4	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:124036739A>G	uc003ktq.1	-	2	1253	c.1130T>C	c.(1129-1131)TTG>TCG	p.L377S	ZNF608_uc003ktr.1_RNA|ZNF608_uc003kts.1_Missense_Mutation_p.L377S|ZNF608_uc003ktt.1_Missense_Mutation_p.L377S	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	377						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		GATCCCTTCCAAATTCACACT	0.448													11	87					0	0	0.010729	0	0		G	124036739	G	G	124036739	3	3	8	1	0	0	0	0	1	0	0	0	18059	131	5	3	3440	3	ZNF608	5	124036739	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	5071221	124036739	56878521	422	7231											
GRAMD3	65983	broad.mit.edu	37	chr5	125824495	125824495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcttttttcttacagacagGcagcaccatctggcctgagg	8	12	9	12	0	3	2	0	1	3	1	3	2	3	2	2	3	2	2	2	3	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:125824495G>A	uc003ktu.2	+	13	1598	c.1168G>A	c.(1168-1170)GCA>ACA	p.A390T	GRAMD3_uc011cwt.1_Missense_Mutation_p.A405T|GRAMD3_uc011cwv.1_Missense_Mutation_p.A398T|GRAMD3_uc011cww.1_Missense_Mutation_p.A286T|GRAMD3_uc011cwx.1_RNA|GRAMD3_uc011cwy.1_Missense_Mutation_p.A281T|GRAMD3_uc011cwz.1_Missense_Mutation_p.A374T	NM_023927	NP_076416	Q96HH9	GRAM3_HUMAN	GRAM domain containing 3 isoform 2	390										central_nervous_system(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0401)|OV - Ovarian serous cystadenocarcinoma(64;0.0604)|all cancers(49;0.108)		TTACAGACAGGCAGCACCATC	0.363													11	25					0	0	0.008291	0	0		A	125824495	A	A	125824495	3	1	8	1	0	0	0	0	1	0	0	0	6767	1203	42	2	1432	2	GRAMD3	5	125824495	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1787756	125824495	55090765	423	7232											
MEGF10	84466	broad.mit.edu	37	chr5	126781226	126781226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgattcctaccagatcGgggccattgcaggcatcatc	8	10	10	13	1	1	2	1	1	0	1	4	2	2	2	3	3	3	3	3	3	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:126781226G>A	uc003kuh.3	+	21	2931	c.2569G>A	c.(2569-2571)GGG>AGG	p.G857R	MEGF10_uc003kui.3_Missense_Mutation_p.G857R	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	857	Extracellular (Potential).|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		CTACCAGATCGGGGCCATTGC	0.433													17	66					0	0	0.004007	0	0		A	126781226	A	A	126781226	3	1	8	1	0	0	0	0	1	0	0	0	9478	1116	39	1	2643	1	MEGF10	5	126781226	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	956731	126781226	54134034	424	7233											
ADAMTS19	171019	broad.mit.edu	37	chr5	128983558	128983558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagccgaacctgcagtgctgGgatcagcagtcgagagcgca	10	6	14	11	3	1	1	1	0	0	1	2	4	1	2	2	1	6	4	2	1	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:128983558G>A	uc003kvb.1	+	12	1955	c.1955G>A	c.(1954-1956)GGG>GAG	p.G652E	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	652	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		TGCAGTGCTGGGATCAGCAGT	0.517													9	116					0	0	0.004482	0	0		A	128983558	A	A	128983558	3	1	8	1	0	0	0	0	1	0	0	0	264	1232	43	4	2001	4	ADAMTS19	5	128983558	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2202332	128983558	51931702	425	7234											
RAPGEF6	51735	broad.mit.edu	37	chr5	130846113	130846113	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcttcatcttcctcttcGtcatcctcagaatcaacagg	9	14	4	14	1	7	1	4	0	3	1	11	1	9	1	2	1	1	0	2	1	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:130846113G>A	uc003kvn.1	-	8	905	c.699C>T	c.(697-699)GAC>GAT	p.D233D	RAPGEF6_uc003kvp.1_Silent_p.D283D|RAPGEF6_uc003kvo.1_Silent_p.D233D|RAPGEF6_uc010jdi.1_Silent_p.D233D|RAPGEF6_uc010jdj.1_Silent_p.D233D|RAPGEF6_uc003kvq.2_5'Flank|RAPGEF6_uc003kvr.2_Silent_p.D233D|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Silent_p.D233D	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	233					Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		CTTCCTCTTCGTCATCCTCAG	0.433													11	60					0	0	0.008291	0	0		A	130846113	A	A	130846113	2	1	8	1	0	0	0	0	0	0	0	1	13073	1136	40	1		1	RAPGEF6	5	130846113	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1862555	130846113	50069147	426	7235											
PPP2CA	5515	broad.mit.edu	37	chr5	133536739	133536739	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtgtatctatagatggCgagagaccaccatgtagaca	13	9	10	9	1	1	3	0	0	1	3	2	5	2	3	3	1	0	2	3	1	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:133536739C>T	uc003kze.2	-	4	911	c.513G>A	c.(511-513)TCG>TCA	p.S171S		NM_002715	NP_002706	P67775	PP2AA_HUMAN	protein phosphatase 2, catalytic subunit, alpha	171					ceramide metabolic process|inactivation of MAPK activity|induction of apoptosis|meiosis|negative regulation of cell growth|negative regulation of epithelial to mesenchymal transition|negative regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of protein serine/threonine kinase activity|protein dephosphorylation|regulation of cell adhesion|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction|spindle pole	metal ion binding|phosphoprotein phosphatase activity			ovary(2)|lung(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Vitamin E(DB00163)	CTATAGATGGCGAGAGACCAC	0.323													11	73					0	0	0.003163	0	0		T	133536739	T	T	133536739	2	4	8	1	0	0	0	0	0	0	0	1	12402	755	27	1		1	PPP2CA	5	133536739	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2690626	133536739	47378521	427	7236											
LECT2	3950	broad.mit.edu	37	chr5	135283098	135283098	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgccaggataaactttctgCaagggcaatagagttccaag	14	9	10	8	0	1	1	0	0	1	1	2	2	2	2	2	2	3	3	2	2	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:135283098C>T	uc003lbe.1	-	4	579	c.378G>A	c.(376-378)TTG>TTA	p.L126L	FBXL21_uc003lbc.2_Intron	NM_002302	NP_002293	O14960	LECT2_HUMAN	leukocyte cell-derived chemotaxin 2 precursor	126					chemotaxis|skeletal system development	cytoplasm|extracellular space				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AAACTTTCTGCAAGGGCAATA	0.383													19	63					0	0	0.008871	0	0		T	135283098	T	T	135283098	2	4	8	1	0	0	0	0	0	0	0	1	8729	709	25	2		2	LECT2	5	135283098	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1746359	135283098	45632162	428	7237											
KLHL3	26249	broad.mit.edu	37	chr5	136964110	136964110	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtggcgtacagctgtccGctaagcactccaacccctga	8	8	9	16	2	0	1	0	1	0	0	2	1	2	1	5	1	4	4	5	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:136964110G>A	uc010jek.2	-	13	1911	c.1467C>T	c.(1465-1467)AGC>AGT	p.S489S	KLHL3_uc011cyc.1_Silent_p.S224S|KLHL3_uc003lbr.3_Silent_p.S407S|KLHL3_uc011cyd.1_RNA	NM_017415	NP_059111	Q9UH77	KLHL3_HUMAN	kelch-like 3	489	Kelch 4.					cytoplasm|cytoskeleton	actin binding|structural molecule activity				0		all_hematologic(541;3.67e-07)|Breast(839;7.61e-05)|Prostate(281;0.000825)|Ovarian(839;0.0481)|all_lung(232;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	GBM - Glioblastoma multiforme(465;0.0223)		ACAGCTGTCCGCTAAGCACTC	0.448													38	105					0	0	0.00874	0	0		A	136964110	A	A	136964110	2	1	8	1	0	0	0	0	0	0	0	1	8399	1078	38	1		1	KLHL3	5	136964110	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1681012	136964110	43951150	429	7238											
SLC23A1	9963	broad.mit.edu	37	chr5	138715412	138715412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaatagccatgatgtcacCacgggcatcggttcgtgcct	8	10	11	12	3	1	1	1	1	0	0	3	1	1	1	3	2	3	3	3	2	2	2	rs151281788	by1000genomes	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:138715412C>T	uc003leh.2	-	8	977	c.880G>A	c.(880-882)GGT>AGT	p.G294S	SLC23A1_uc003leg.2_Missense_Mutation_p.G298S	NM_005847	NP_005838	Q9UHI7	S23A1_HUMAN	solute carrier family 23 (nucleobase	294					brain development|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|response to toxin|transepithelial L-ascorbic acid transport|water-soluble vitamin metabolic process	apical plasma membrane|cytoplasm|integral to plasma membrane|intracellular organelle|membrane fraction	dehydroascorbic acid transporter activity|L-ascorbate:sodium symporter activity|nucleobase transmembrane transporter activity|protein binding|sodium-dependent L-ascorbate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)		Vitamin C(DB00126)	ATGATGTCACCACGGGCATCG	0.592													8	22					0	0	0.00308	0	0		T	138715412	T	T	138715412	3	4	8	1	0	0	0	0	1	0	0	0	14487	594	21	4	944	4	SLC23A1	5	138715412	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1751302	138715412	42199848	430	7239											
PSD2	84249	broad.mit.edu	37	chr5	139193288	139193288	+	Frame_Shift_Del	DEL	G	-	-																															aagatggccctcagggcccaGggggggatgaggatgatgat																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:139193288delG	uc003leu.1	+	3	971	c.766delG	c.(766-768)GGGfs	p.G256fs		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	256					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAGGGCCCAGGGGGGGATGA	0.587													5	11	---	---	---	---						.	-	139193288	-	-	139193288	7	5	8	1	0	1	0	1	0	0	0	0	12669	1000	35	0	772	0	PSD2	5	139193288	Frame_Shift_Del	DEL	G	TCGA-BR-4201-01A-01D-1126-08	477876	139193288	41721972	431	7240											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139887448	139887448	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgcagtaaaattgctgctCgatatgggttcagacattaa	12	12	9	8	1	1	1	1	0	0	1	2	2	1	1	1	1	3	5	1	1	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:139887448C>T	uc003lfs.1	+	20	3754	c.3630C>T	c.(3628-3630)CTC>CTT	p.L1210L	ANKHD1_uc003lfq.1_Silent_p.L1229L|ANKHD1_uc003lfr.2_Silent_p.L1210L|ANKHD1_uc003lft.1_Silent_p.L421L|ANKHD1_uc003lfu.1_Silent_p.L690L|ANKHD1_uc003lfv.1_Silent_p.L287L|ANKHD1-EIF4EBP3_uc011czh.1_5'Flank|ANKHD1_uc003lfw.2_5'Flank	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1210						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATTGCTGCTCGATATGGGTT	0.483													15	60					0	0	0.003163	0	0		T	139887448	T	T	139887448	2	4	8	1	0	0	0	0	0	0	0	1	629	871	31	1		1	ANKHD1-EIF4EBP3	5	139887448	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	694160	139887448	41027812	432	7241											
PCDHA2	56146	broad.mit.edu	37	chr5	140176157	140176157	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctgcagttccaggtgagCgcgcgggatgcgggcgtgcc	4	7	18	12	5	0	1	0	1	0	0	1	2	1	2	2	3	5	3	2	3	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140176157C>T	uc003lhd.2	+	1	1714	c.1608C>T	c.(1606-1608)AGC>AGT	p.S536S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.S536S|PCDHA2_uc011czy.1_Silent_p.S536S	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	536	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCAGGTGAGCGCGCGGGATG	0.672													9	29					0	0	0.008291	0	0		T	140176157	T	T	140176157	2	4	8	1	0	0	0	0	0	0	0	1	11543	767	27	1		1	PCDHA2	5	140176157	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	288709	140176157	40739103	433	7242											
PCDHA3	56145	broad.mit.edu	37	chr5	140181571	140181571	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggtaccctagtggtgacCgttaacgccaccgatttgga	10	10	11	10	3	0	1	0	1	0	0	0	3	0	2	4	3	2	2	4	3	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140181571C>T	uc003lhf.2	+	1	789	c.789C>T	c.(787-789)ACC>ACT	p.T263T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.T263T	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	263	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGTGGTGACCGTTAACGCCA	0.413													11	67					0	0	0.008291	0	0		T	140181571	T	T	140181571	2	4	8	1	0	0	0	0	0	0	0	1	11544	639	23	1		1	PCDHA3	5	140181571	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5414	140181571	40733689	434	7243											
PCDHA3	56145	broad.mit.edu	37	chr5	140182272	140182272	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcctactcgctggtggaacGgcgggtgggggagcgcgcgc	4	6	20	11	6	0	0	0	0	0	0	2	2	1	2	1	6	3	1	1	6	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140182272G>A	uc003lhf.2	+	1	1490	c.1490G>A	c.(1489-1491)CGG>CAG	p.R497Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.R497Q	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	497	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGTGGAACGGCGGGTGGGG	0.682													14	30					0	0	0.00499	0	0		A	140182272	A	A	140182272	3	1	8	1	0	0	0	0	1	0	0	0	11544	1116	39	1	1492	1	PCDHA3	5	140182272	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	701	140182272	40732988	435	7244											
PCDHA4	56144	broad.mit.edu	37	chr5	140186905	140186905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccaaacacggcaccttcGtgggccgcatcgcgcaggac	9	4	13	15	5	0	0	0	0	0	0	2	1	0	1	3	4	1	3	3	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140186905G>A	uc003lhi.2	+	1	234	c.133G>A	c.(133-135)GTG>ATG	p.V45M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.V45M|PCDHA4_uc011daa.1_Missense_Mutation_p.V45M	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	45	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGCACCTTCGTGGGCCGCAT	0.672													5	63					0	0	0.000602	0	0		A	140186905	A	A	140186905	3	1	8	1	0	0	0	0	1	0	0	0	11545	1145	40	1	135	1	PCDHA4	5	140186905	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4633	140186905	40728355	436	7245											
PCDHA4	56144	broad.mit.edu	37	chr5	140188263	140188263	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctactcgctggtagagcgGcgggtaggggagcgcgcgct	5	7	18	11	6	0	1	0	0	0	1	2	2	1	2	1	5	3	4	1	5	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140188263G>A	uc003lhi.2	+	1	1592	c.1491G>A	c.(1489-1491)CGG>CGA	p.R497R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.R497R|PCDHA4_uc011daa.1_Silent_p.R497R	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	497	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTAGAGCGGCGGGTAGGGG	0.662													12	36					0	0	0.013537	0	0		A	140188263	A	A	140188263	2	1	8	1	0	0	0	0	0	0	0	1	11545	1190	42	2		2	PCDHA4	5	140188263	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1358	140188263	40726997	437	7246											
PCDHA5	56143	broad.mit.edu	37	chr5	140203557	140203557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccgaggccgtgtgcacaCggggcaagcccactctgttg	7	6	13	15	3	1	0	0	0	1	0	1	1	1	0	4	3	2	3	4	3	1	1	rs140039635		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140203557C>T	uc003lhl.2	+	1	2197	c.2197C>T	c.(2197-2199)CGG>TGG	p.R733W	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.R733W|PCDHA5_uc003lhj.1_Missense_Mutation_p.R733W	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	733	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGTGCACACGGGGCAAGCC	0.662													8	30					0	0	0.006214	0	0		T	140203557	T	T	140203557	3	4	8	1	0	0	0	0	1	0	0	0	11546	527	19	1	2199	1	PCDHA5	5	140203557	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	15294	140203557	40711703	438	7247											
PCDHA6	56142	broad.mit.edu	37	chr5	140209209	140209209	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagctacatttcggtgcaCgcggagagcggcaaggtgta	9	8	15	9	5	0	1	0	0	0	1	2	3	0	1	0	4	4	4	0	4	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140209209C>T	uc003lho.2	+	1	1560	c.1533C>T	c.(1531-1533)CAC>CAT	p.H511H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.H511H|PCDHA6_uc011dab.1_Silent_p.H511H	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	511	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTCGGTGCACGCGGAGAGCG	0.701													11	55					0	0	0.013537	0	0		T	140209209	T	T	140209209	2	4	8	1	0	0	0	0	0	0	0	1	11547	535	19	1		1	PCDHA6	5	140209209	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5652	140209209	40706051	439	7248											
PCDHA6	56142	broad.mit.edu	37	chr5	140209726	140209726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggcgtcatcacgggcgtcgGtgggcgccgcgggcccagag	5	4	19	13	7	2	1	2	0	0	1	3	1	2	1	2	5	0	0	2	5	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140209726G>A	uc003lho.2	+	1	2077	c.2050G>A	c.(2050-2052)GTG>ATG	p.V684M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Missense_Mutation_p.V684M	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	684	Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGGGCGTCGGTGGGCGCCGC	0.667													7	30					0	0	0.004482	0	0		A	140209726	A	A	140209726	3	1	8	1	0	0	0	0	1	0	0	0	11547	1261	44	4	2052	4	PCDHA6	5	140209726	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	517	140209726	40705534	440	7249											
PCDHA13	56136	broad.mit.edu	37	chr5	140263605	140263605	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcgagctgatgccgcggtcGgtgggtgcaggccacgtggt	5	7	19	10	5	0	1	0	1	0	0	1	2	0	1	2	5	4	2	2	5	0	0	rs61734917	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140263605G>A	uc003lif.2	+	1	1752	c.1752G>A	c.(1750-1752)TCG>TCA	p.S584S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.S584S|PCDHA13_uc003lid.2_Silent_p.S584S	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	584	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCCGCGGTCGGTGGGTGCAG	0.687													9	43					0	0	0.00245	0	0		A	140263605	A	A	140263605	2	1	8	1	0	0	0	0	0	0	0	1	11542	1103	39	1		1	PCDHA13	5	140263605	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	53879	140263605	40651655	441	7250											
PCDHA13	56136	broad.mit.edu	37	chr5	140264042	140264042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcggcaccgcccaccgaggGcgcgtgcgcgccgggcaagc	5	2	16	18	8	0	0	0	0	0	0	1	1	0	0	4	3	2	2	4	3	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140264042G>A	uc003lif.2	+	1	2189	c.2189G>A	c.(2188-2190)GGC>GAC	p.G730D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.G730D|PCDHA13_uc003lid.2_Missense_Mutation_p.G730D	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	730	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCACCGAGGGCGCGTGCGCG	0.657													6	31					0	0	0.010729	0	0		A	140264042	A	A	140264042	3	1	8	1	0	0	0	0	1	0	0	0	11542	1203	42	2	2191	2	PCDHA13	5	140264042	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	437	140264042	40651218	442	7251											
PCDHB11	56125	broad.mit.edu	37	chr5	140579471	140579471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcagaagaaatgcagagcGggagttttgtaggcaatctg	12	9	15	5	1	1	3	0	0	1	3	1	4	1	4	0	3	2	5	0	3	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140579471G>A	uc003liy.2	+	1	124	c.124G>A	c.(124-126)GGG>AGG	p.G42R	PCDHB11_uc011daj.1_Intron	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	42	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AATGCAGAGCGGGAGTTTTGT	0.517													10	53					0	0	0.008291	0	0		A	140579471	A	A	140579471	3	1	8	1	0	0	0	0	1	0	0	0	11555	1116	39	1	126	1	PCDHB11	5	140579471	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	315429	140579471	40335789	443	7252											
PCDHB11	56125	broad.mit.edu	37	chr5	140580614	140580614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacaatatcaccatcaccGtcaccgacttggggataccc	12	8	7	14	2	3	0	3	0	0	0	3	2	3	1	4	2	2	1	4	2	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140580614G>A	uc003liy.2	+	1	1267	c.1267G>A	c.(1267-1269)GTC>ATC	p.V423I	PCDHB11_uc011daj.1_Missense_Mutation_p.V58I	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	423	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACCATCACCGTCACCGACTT	0.502													27	133					0	0	0.007291	0	0		A	140580614	A	A	140580614	3	1	8	1	0	0	0	0	1	0	0	0	11555	1145	40	1	1269	1	PCDHB11	5	140580614	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1143	140580614	40334646	444	7253											
PCDHB11	56125	broad.mit.edu	37	chr5	140581384	140581384	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccctgaggcggcaccggcCcaggcccaggccgactcgct	5	4	13	19	4	0	1	0	1	0	0	2	2	1	1	5	5	0	2	5	5	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140581384C>A	uc003liy.2	+	1	2037	c.2037C>A	c.(2035-2037)GCC>GCA	p.A679A	PCDHB11_uc011daj.1_Silent_p.A314A	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	679	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGGCACCGGCCCAGGCCCAGG	0.692													13	54					1.5739e-10	1.74335e-10	0.004007	1	0		A	140581384	A	A	140581384	2	1	8	1	0	0	0	0	0	0	0	1	11555	610	22	5		5	PCDHB11	5	140581384	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	770	140581384	40333876	445	7254											
TAF7	6879	broad.mit.edu	37	chr5	140698866	140698866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctccagatcttcctccGtgtcaatgatgtttatatct	7	17	6	11	1	4	2	1	1	3	1	8	2	7	2	3	0	0	1	3	0	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140698866G>A	uc003ljg.2	-	1	1486	c.746C>T	c.(745-747)ACG>ATG	p.T249M		NM_005642	NP_005633	Q15545	TAF7_HUMAN	TATA box-binding protein-associated factor 2F	249	Potential.				negative regulation of histone acetylation|negative regulation of protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|spermine transport|transcription initiation from RNA polymerase II promoter	Golgi apparatus|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	histone acetyltransferase binding|thyroid hormone receptor binding|transcription coactivator activity|transcription regulatory region DNA binding|vitamin D receptor binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCTTCCTCCGTGTCAATGAT	0.443													19	118					0	0	0.00278	0	0		A	140698866	A	A	140698866	3	1	8	1	0	0	0	0	1	0	0	0	15557	1145	40	1	307	1	TAF7	5	140698866	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	117482	140698866	40216394	446	7255											
TAF7	6879	broad.mit.edu	37	chr5	140699557	140699557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcatattctggaggcagacGtaagataaactggctctcca	12	9	11	9	1	2	2	0	0	2	2	3	3	2	3	1	4	1	4	1	4	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140699557G>A	uc003ljg.2	-	1	795	c.55C>T	c.(55-57)CGT>TGT	p.R19C		NM_005642	NP_005633	Q15545	TAF7_HUMAN	TATA box-binding protein-associated factor 2F	19					negative regulation of histone acetylation|negative regulation of protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|spermine transport|transcription initiation from RNA polymerase II promoter	Golgi apparatus|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	histone acetyltransferase binding|thyroid hormone receptor binding|transcription coactivator activity|transcription regulatory region DNA binding|vitamin D receptor binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAGGCAGACGTAAGATAAAC	0.443											OREG0016852	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	94					0	0	0.008361	0	0		A	140699557	A	A	140699557	3	1	8	1	0	0	0	0	1	0	0	0	15557	1145	40	1	998	1	TAF7	5	140699557	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	691	140699557	40215703	447	7256											
PCDHGA5	56110	broad.mit.edu	37	chr5	140745350	140745350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accccgacagcggcgacaacGctcgagtcacctactccctg	9	5	9	18	5	1	0	1	0	0	0	3	3	2	0	4	1	3	1	4	1	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140745350G>A	uc003lju.1	+	1	1453	c.1453G>A	c.(1453-1455)GCT>ACT	p.A485T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.A485T	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	485	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGCGACAACGCTCGAGTCAC	0.542													38	124					0	0	0.009718	0	0		A	140745350	A	A	140745350	3	1	8	1	0	0	0	0	1	0	0	0	11576	1087	38	1	1455	1	PCDHGA5	5	140745350	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	45793	140745350	40169910	448	7257											
PCDHGA6	56109	broad.mit.edu	37	chr5	140754322	140754322	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgaccctgtccgctcaagCgtcgcccaaattctggtaac	8	8	10	15	4	2	0	1	0	1	0	4	1	3	0	3	2	2	2	3	2	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:140754322C>T	uc003ljy.1	+	1	672	c.672C>T	c.(670-672)AGC>AGT	p.S224S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.S224S	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	224	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCGCTCAAGCGTCGCCCAAA	0.552													4	20					0	0	0.009096	0	0		T	140754322	T	T	140754322	2	4	8	1	0	0	0	0	0	0	0	1	11577	767	27	1		1	PCDHGA6	5	140754322	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8972	140754322	40160938	449	7258											
GNPDA1	10007	broad.mit.edu	37	chr5	141385882	141385882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtaactctccgggtggtctCgaggaaggcctgtggggccg	5	8	18	10	3	2	0	0	0	2	0	4	2	2	1	3	7	1	1	3	7	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:141385882C>T	uc003lmf.3	-	3	995	c.236G>A	c.(235-237)CGA>CAA	p.R79Q	GNPDA1_uc003lmg.3_Missense_Mutation_p.R79Q|GNPDA1_uc010jgh.2_Missense_Mutation_p.R79Q|GNPDA1_uc003lmh.3_Missense_Mutation_p.R45Q	NM_005471	NP_005462	P46926	GNPI1_HUMAN	glucosamine-6-phosphate deaminase 1	79					generation of precursor metabolites and energy|glucosamine catabolic process|N-acetylglucosamine metabolic process|single fertilization	cytoplasm	glucosamine-6-phosphate deaminase activity|hydrolase activity				0		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGGTGGTCTCGAGGAAGGCC	0.542													13	55					0	0	0.00245	0	0		T	141385882	T	T	141385882	3	4	8	1	0	0	0	0	1	0	0	0	6557	884	31	1	649	1	GNPDA1	5	141385882	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	631560	141385882	39529378	450	7259											
MYOZ3	91977	broad.mit.edu	37	chr5	150056388	150056388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctcagacccagcttcaacaGagtggcccagggctgggtcc	8	7	12	14	0	2	2	2	0	1	2	4	2	3	2	3	3	2	2	3	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:150056388G>A	uc003lss.2	+	7	1294	c.707G>A	c.(706-708)AGA>AAA	p.R236K	MYOZ3_uc003lsr.2_Missense_Mutation_p.R236K	NM_001122853	NP_001116325	Q8TDC0	MYOZ3_HUMAN	myozenin 3	236						sarcomere	protein binding			skin(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGCTTCAACAGAGTGGCCCAG	0.642													9	61					0	0	0.004482	0	0		A	150056388	A	A	150056388	3	1	8	1	0	0	0	0	1	0	0	0	10115	942	33	4	729	4	MYOZ3	5	150056388	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	8670506	150056388	30858872	451	7260											
FAT2	2196	broad.mit.edu	37	chr5	150948214	150948214	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtccttattcttaggaaGcagaagttgcccaccacata	11	13	7	10	0	1	1	0	0	1	1	2	2	2	2	3	1	2	2	3	1	5	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:150948214G>A	uc003lue.3	-	1	292	c.279C>T	c.(277-279)TGC>TGT	p.C93C	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Silent_p.C93C	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	93	Extracellular (Potential).|Cadherin 1.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTCTTAGGAAGCAGAAGTTGC	0.512													6	270					0	0	0.001984	0	0		A	150948214	A	A	150948214	2	1	8	1	0	0	0	0	0	0	0	1	5704	963	34	2		2	FAT2	5	150948214	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	891826	150948214	29967046	452	7261											
G3BP1	10146	broad.mit.edu	37	chr5	151170562	151170562	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtagtccaggtgatggggcTtctctctaacaacaaccagg	10	9	12	10	0	2	1	0	1	2	0	4	1	3	1	2	5	3	2	2	5	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:151170562T>A	uc003lun.2	+	4	461	c.290T>A	c.(289-291)CTT>CAT	p.L97H	G3BP1_uc010jhy.1_Missense_Mutation_p.L97H|G3BP1_uc003lum.2_Missense_Mutation_p.L97H|G3BP1_uc011dcu.1_5'UTR|G3BP1_uc010jhz.2_5'UTR	NM_005754	NP_005745	Q13283	G3BP1_HUMAN	Ras-GTPase-activating protein SH3-domain-binding	97	NTF2.				Ras protein signal transduction|transport	cytosol|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|endonuclease activity|protein binding|RNA binding			skin(3)|ovary(1)	4		all_hematologic(541;0.0338)|Medulloblastoma(196;0.091)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)			GTGATGGGGCTTCTCTCTAAC	0.443													5	107					0	0	0.001984	0	0		A	151170562	A	A	151170562	3	1	8	1	0	0	0	0	1	0	0	0	6155	1609	56	5	300	5	G3BP1	5	151170562	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	222348	151170562	29744698	453	7262											
GRIA1	2890	broad.mit.edu	37	chr5	153190682	153190682	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agccagcagcggcggcagtgGagagaatggtcgggtggtca	9	5	19	8	3	1	1	1	0	0	1	2	3	1	2	1	6	3	2	1	6	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:153190682G>T	uc003lva.3	+	16	2983	c.2618G>T	c.(2617-2619)GGA>GTA	p.G873V	GRIA1_uc003luy.3_Missense_Mutation_p.G873V|GRIA1_uc003luz.3_Missense_Mutation_p.G778V|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.G793V|GRIA1_uc011dcx.1_Missense_Mutation_p.G804V|GRIA1_uc011dcy.1_Missense_Mutation_p.G883V|GRIA1_uc011dcz.1_Missense_Mutation_p.G883V	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	873	Cytoplasmic (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	GGCGGCAGTGGAGAGAATGGT	0.582													4	20					3.59834e-05	3.85339e-05	0.001168	1	0		T	153190682	T	T	153190682	3	4	8	1	0	0	0	0	1	0	0	0	6783	1174	41	5	2799	5	GRIA1	5	153190682	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2020120	153190682	27724578	454	7263											
ADAM19	8728	broad.mit.edu	37	chr5	156920119	156920119	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatagtggtgtcaatgggCaccgcgttggactccagggg	8	9	16	8	2	1	1	1	1	0	0	2	2	2	2	2	5	0	2	2	5	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:156920119C>T	uc003lwz.2	-	16	1834	c.1770G>A	c.(1768-1770)GTG>GTA	p.V590V	ADAM19_uc003lww.1_Silent_p.V323V|ADAM19_uc003lwy.2_Silent_p.V189V|ADAM19_uc011ddr.1_Silent_p.V521V	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	590	Extracellular (Potential).|Cys-rich.				proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TGTCAATGGGCACCGCGTTGG	0.607													10	55					0	0	0.010729	0	0		T	156920119	T	T	156920119	2	4	8	1	0	0	0	0	0	0	0	1	240	697	25	2		2	ADAM19	5	156920119	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3729437	156920119	23995141	455	7264											
ATP10B	23120	broad.mit.edu	37	chr5	160113246	160113246	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggagggcatccagttcaAaatcaccaggaacaggaaat	16	6	10	9	0	2	0	2	0	0	0	3	3	3	3	2	4	1	2	2	4	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:160113246A>G	uc003lym.1	-	6	1157	c.310T>C	c.(310-312)TTG>CTG	p.L104L	ATP10B_uc003lyp.2_Silent_p.L104L|ATP10B_uc011deg.1_Silent_p.L148L|ATP10B_uc003lyo.2_5'Flank	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	104	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATCCAGTTCAAAATCACCAGG	0.458													5	23					0	0	0.000602	0	0		G	160113246	G	G	160113246	2	3	8	1	0	0	0	0	0	0	0	1	1118	11	1	3		3	ATP10B	5	160113246	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3193127	160113246	20802014	456	7265											
GABRB2	2561	broad.mit.edu	37	chr5	160721153	160721153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccactgggaagaatatgcGggaccaccgatctatggcat	13	7	11	10	2	1	1	0	0	1	1	1	4	1	3	3	3	2	1	3	3	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:160721153G>A	uc003lys.1	-	11	1692	c.1474C>T	c.(1474-1476)CGC>TGC	p.R492C	GABRB2_uc011deh.1_Missense_Mutation_p.R293C|GABRB2_uc003lyr.1_Missense_Mutation_p.R454C|GABRB2_uc003lyt.1_Missense_Mutation_p.R454C|GABRB2_uc010jiu.1_Missense_Mutation_p.R391C	NM_021911	NP_068711	P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	492	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|GABA-A receptor activity				0	Renal(175;0.00259)	Medulloblastoma(196;0.021)|all_neural(177;0.0463)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	AAGAATATGCGGGACCACCGA	0.468													14	60					0	0	0.006122	0	0		A	160721153	A	A	160721153	3	1	8	1	0	0	0	0	1	0	0	0	6181	1116	39	1	68	1	GABRB2	5	160721153	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	607907	160721153	20194107	457	7266											
GABRG2	2566	broad.mit.edu	37	chr5	161520894	161520894	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctaacaaaacatgggtCttgactccaaaagttcctga	13	11	7	10	0	2	2	0	2	2	0	4	2	4	2	2	1	2	2	2	1	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:161520894C>A	uc003lyz.3	+	2	526	c.168C>A	c.(166-168)GTC>GTA	p.V56V	GABRG2_uc010jjc.2_Silent_p.V56V|GABRG2_uc003lyy.3_Silent_p.V56V|GABRG2_uc011dej.1_5'UTR	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	56	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		AAACATGGGTCTTGACTCCAA	0.368													10	63					2.80697e-09	3.08473e-09	0.010729	1	0		A	161520894	A	A	161520894	2	1	8	1	0	0	0	0	0	0	0	1	6186	900	32	5		5	GABRG2	5	161520894	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	799741	161520894	19394366	458	7267											
LCP2	3937	broad.mit.edu	37	chr5	169689854	169689854	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacagtcttaccttcccgcTggaatcgagggctgcaagac	10	8	10	13	2	1	1	0	0	1	1	3	3	2	2	2	2	3	3	2	2	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:169689854T>C	uc003man.1	-	12	1017	c.810A>G	c.(808-810)CCA>CCG	p.P270P	LCP2_uc011des.1_Silent_p.P65P|LCP2_uc011det.1_Silent_p.P99P|LCP2_uc010jjo.1_Silent_p.P77P	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	270					immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		ACCTTCCCGCTGGAATCGAGG	0.428													8	95					0	0	0.008291	0	0		C	169689854	C	C	169689854	2	2	8	1	0	0	0	0	0	0	0	1	8708	1567	55	3		3	LCP2	5	169689854	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	8168960	169689854	11225406	459	7268											
NKX2-5	1482	broad.mit.edu	37	chr5	172659583	172659583	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcccttccctaccaggctcGgataccatgcagcgtggaca	8	8	10	15	2	0	0	0	0	0	0	3	2	2	2	4	3	4	2	4	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:172659583G>A	uc003mcm.1	-	2	1140	c.964C>T	c.(964-966)CGA>TGA	p.R322*		NM_004387	NP_004378	P52952	NKX25_HUMAN	NK2 transcription factor related, locus 5	322			R -> Q (in ASD-AVCD; somatic mutation).		adult heart development|atrial cardiac muscle cell development|atrial septum morphogenesis|heart looping|hemopoiesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell apoptosis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|outflow tract septum morphogenesis|pharyngeal system development|positive regulation of calcium ion transport via voltage-gated calcium channel activity|positive regulation of cardioblast differentiation|positive regulation of cell proliferation|positive regulation of heart contraction|positive regulation of neuron differentiation|positive regulation of sodium ion transport|positive regulation of survival gene product expression|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of cardiac muscle contraction|right ventricular cardiac muscle tissue morphogenesis|septum secundum development|spleen development|thyroid gland development|vasculogenesis|ventricular septum morphogenesis		chromatin binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TACCAGGCTCGGATACCATGC	0.627													3	14					0	0	0.004672	0	0		A	172659583	A	A	172659583	4	1	8	1	0	0	0	0	0	1	0	0	10472	1124	39	1	14	1	NKX2-5	5	172659583	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2969729	172659583	8255677	460	7269											
HMP19	51617	broad.mit.edu	37	chr5	173534316	173534316	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgtctctttcttccccaGcacaaacgctgtatcccagc	7	12	5	17	1	3	0	0	0	3	0	6	0	5	0	3	0	3	3	3	0	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:173534316G>A	uc003mcx.2	+	5	470	c.325_splice	c.e5-1	p.H109_splice	HMP19_uc011dfh.1_Splice_Site_p.S12_splice	NM_015980	NP_057064	Q9Y328	NSG2_HUMAN	HMP19 protein						dopamine receptor signaling pathway	cytoplasmic vesicle membrane|Golgi cisterna membrane|integral to membrane|multivesicular body membrane	dopamine receptor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00925)|all_lung(126;0.0148)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TTCTTCCCCAGCACAAACGCT	0.572													11	55					0	0	0.013537	0	0		A	173534316	A	A	173534316	5	1	8	1	0	0	0	0	0	0	1	0	7261	985	34	2	338	2	HMP19	5	173534316	Splice_Site	SNP	G	TCGA-BR-4201-01A-01D-1126-08	874733	173534316	7380944	461	7270											
UNC5A	90249	broad.mit.edu	37	chr5	176297387	176297387	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctagtggacggcagctggagCccgtggagcaagtggtcggc	7	6	18	10	3	0	0	0	0	0	0	1	3	0	3	1	6	3	3	1	6	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:176297387C>T	uc003mey.2	+	6	930	c.738C>T	c.(736-738)AGC>AGT	p.S246S	UNC5A_uc003mex.1_Silent_p.S246S|UNC5A_uc010jkg.1_Silent_p.S206S	NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	246	TSP type-1.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCAGCTGGAGCCCGTGGAGCA	0.687													6	13					0	0	0.001984	0	0		T	176297387	T	T	176297387	2	4	8	1	0	0	0	0	0	0	0	1	17017	738	26	2		2	UNC5A	5	176297387	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2763071	176297387	4617873	462	7271											
HK3	3101	broad.mit.edu	37	chr5	176314232	176314232	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaccctgggccacagtctcGggaatggagtagatctcgct	9	8	13	11	2	2	1	0	0	2	1	4	4	2	3	2	3	1	2	2	3	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:176314232G>A	uc003mfa.2	-	12	1799	c.1707C>T	c.(1705-1707)CCC>CCT	p.P569P	HK3_uc003mez.2_Silent_p.P125P	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	569	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCACAGTCTCGGGAATGGAGT	0.617													4	25					0	0	0.000602	0	0		A	176314232	A	A	176314232	2	1	8	1	0	0	0	0	0	0	0	1	7208	1103	39	1		1	HK3	5	176314232	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	16845	176314232	4601028	463	7272											
NSD1	64324	broad.mit.edu	37	chr5	176678848	176678848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatttatctgcaatgaatgtCgcacaggtaaagtagatatc	15	12	8	6	1	1	2	0	1	1	1	3	2	1	2	0	1	1	4	0	1	8	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:176678848C>T	uc003mfr.3	+	12	4897	c.4759C>T	c.(4759-4761)CGC>TGC	p.R1587C	NSD1_uc003mft.3_Missense_Mutation_p.R1318C|NSD1_uc003mfs.1_Missense_Mutation_p.R1484C|NSD1_uc011dfx.1_Missense_Mutation_p.R1235C	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1587	PHD-type 1.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		CAATGAATGTCGCACAGGTAA	0.423			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			12	74					0	0	0.004007	0	0		T	176678848	T	T	176678848	3	4	8	1	0	0	0	0	1	0	0	0	10688	884	31	1	4801	1	NSD1	5	176678848	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	364616	176678848	4236412	464	7273											
NSD1	64324	broad.mit.edu	37	chr5	176721549	176721549	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgccagacagactgctcAttactagcagtcccaaaccc	11	6	7	17	2	1	2	1	0	0	2	2	2	2	2	4	0	4	2	4	0	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:176721549A>G	uc003mfr.3	+	23	7318	c.7180A>G	c.(7180-7182)ATT>GTT	p.I2394V	NSD1_uc003mft.3_Missense_Mutation_p.I2125V|NSD1_uc011dfx.1_Missense_Mutation_p.I2042V	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	2394	Pro-rich.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		CAGACTGCTCATTACTAGCAG	0.552			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			20	93					0	0	0.00333	0	0		G	176721549	G	G	176721549	3	3	8	1	0	0	0	0	1	0	0	0	10688	217	8	3	7266	3	NSD1	5	176721549	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	42701	176721549	4193711	465	7274											
GRK6	2870	broad.mit.edu	37	chr5	176860178	176860178	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtacctgagcgtggccccTtttgccgactacctcgacag	7	9	11	14	3	0	1	0	1	0	0	1	4	0	1	5	1	4	1	5	1	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:176860178T>C	uc011dfz.1	+	6	631	c.471T>C	c.(469-471)CCT>CCC	p.P157P	GRK6_uc003mgp.2_Silent_p.P157P|GRK6_uc003mgq.2_Silent_p.P157P|GRK6_uc003mgs.1_Silent_p.P127P	NM_002082	NP_002073	P43250	GRK6_HUMAN	G protein-coupled receptor kinase 6 isoform B	157	N-terminal.|RGS.				regulation of G-protein coupled receptor protein signaling pathway	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)|stomach(1)|breast(1)	3	all_cancers(89;1.15e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCGTGGCCCCTTTTGCCGACT	0.627													8	46					0	0	0.006214	0	0		C	176860178	C	C	176860178	2	2	8	1	0	0	0	0	0	0	0	1	6809	1596	56	3		3	GRK6	5	176860178	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	138629	176860178	4055082	466	7275											
BTNL9	153579	broad.mit.edu	37	chr5	180475169	180475169	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcctatggcagcgtggtcCtgcagcttcacagcatcatc	7	10	10	14	2	2	0	2	0	0	0	5	0	3	0	2	2	4	4	2	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr5:180475169C>T	uc003mmt.2	+	3	583	c.352C>T	c.(352-354)CTG>TTG	p.L118L	BTNL9_uc011dhi.1_Silent_p.L49L	NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	118	Extracellular (Potential).|Ig-like V-type.					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAGCGTGGTCCTGCAGCTTCA	0.602													6	23					0	0	0.001984	0	0		T	180475169	T	T	180475169	2	4	8	1	0	0	0	0	0	0	0	1	1571	680	24	4		4	BTNL9	5	180475169	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3614991	180475169	440091	467	7276											
CDYL	9425	broad.mit.edu	37	chr6	4935952	4935952	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggaagcaggatggcttcAcccacatcttgttatccaca	11	10	8	12	0	3	0	2	0	1	0	4	2	4	2	2	3	1	3	2	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:4935952A>G	uc003mwi.2	+	5	1188	c.1057A>G	c.(1057-1059)ACC>GCC	p.T353A	CDYL_uc003mwj.2_Missense_Mutation_p.T299A|CDYL_uc003mwk.2_Missense_Mutation_p.T64A|CDYL_uc011dhx.1_Missense_Mutation_p.T167A|CDYL_uc011dhy.1_Missense_Mutation_p.T167A	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	353					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		GGATGGCTTCACCCACATCTT	0.512													23	83					0	0	0.004656	0	0		G	4935952	G	G	4935952	3	3	8	1	0	0	0	0	1	0	0	0	3188	159	6	3	905	3	CDYL	6	4935952	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08		4935952	166179115	468	7277											
F13A1	2162	broad.mit.edu	37	chr6	6197549	6197549	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccatgcttcattccagcAgtggtagttccttagaaaac	11	12	7	11	0	1	1	1	0	0	1	4	1	4	1	3	1	3	4	3	1	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:6197549A>G	uc003mwv.2	-	9	1246	c.1123T>C	c.(1123-1125)TGC>CGC	p.C375R	F13A1_uc011dib.1_Missense_Mutation_p.C312R	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	375					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	TCATTCCAGCAGTGGTAGTTC	0.443													7	30					0	0	0.00308	0	0		G	6197549	G	G	6197549	3	3	8	1	0	0	0	0	1	0	0	0	5348	188	7	3	1103	3	F13A1	6	6197549	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1261597	6197549	164917518	469	7278											
MYLIP	29116	broad.mit.edu	37	chr6	16143371	16143371	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcattctgtgcgggatagCgaagggcagaaactgctcat	10	9	14	8	2	2	1	1	0	1	1	2	3	2	2	0	3	4	3	0	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:16143371C>T	uc003nbq.2	+	4	822	c.585C>T	c.(583-585)AGC>AGT	p.S195S	MYLIP_uc003nbr.2_Silent_p.S14S	NM_013262	NP_037394	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting	195	FERM.				cellular component movement|nervous system development	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)			TGCGGGATAGCGAAGGGCAGA	0.443													14	81					0	0	0.004007	0	0		T	16143371	T	T	16143371	2	4	8	1	0	0	0	0	0	0	0	1	10073	767	27	1		1	MYLIP	6	16143371	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	9945822	16143371	154971696	470	7279											
KIF13A	63971	broad.mit.edu	37	chr6	17837152	17837152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtttctcgacttcctccCgcagttctcggatcactttt	5	16	6	14	3	4	0	2	0	2	0	8	2	6	1	2	1	0	3	2	1	0	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:17837152C>T	uc003ncg.3	-	11	1217	c.1112G>A	c.(1111-1113)CGG>CAG	p.R371Q	KIF13A_uc003ncf.2_Missense_Mutation_p.R371Q|KIF13A_uc003nch.3_Missense_Mutation_p.R371Q|KIF13A_uc003nci.3_Missense_Mutation_p.R371Q|KIF13A_uc003ncj.2_Missense_Mutation_p.R47Q	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	371	Potential.				cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			GACTTCCTCCCGCAGTTCTCG	0.517													56	211					0	0	0.01441	0	0		T	17837152	T	T	17837152	3	4	8	1	0	0	0	0	1	0	0	0	8290	652	23	1	4446	1	KIF13A	6	17837152	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1693781	17837152	153277915	471	7280											
E2F3	1871	broad.mit.edu	37	chr6	20481645	20481645	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaagaagtctaaaaacaaCgtccaatggatgtgagtagg	18	7	11	5	1	1	3	0	1	1	2	2	4	2	4	1	2	2	1	1	2	9	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:20481645C>T	uc003nda.2	+	3	1041	c.714C>T	c.(712-714)AAC>AAT	p.N238N	E2F3_uc003ncz.2_Silent_p.N232N	NM_001949	NP_001940	O00716	E2F3_HUMAN	E2F transcription factor 3	238	Potential.|DEF box.				G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(95;0.154)|all_epithelial(95;0.0585)|Breast(50;0.146)|Ovarian(93;0.148)		OV - Ovarian serous cystadenocarcinoma(7;0.0068)|all cancers(50;0.0148)|Epithelial(50;0.0562)			CTAAAAACAACGTCCAATGGA	0.478													21	124					0	0	0.014323	0	0		T	20481645	T	T	20481645	2	4	8	1	0	0	0	0	0	0	0	1	4874	535	19	1		1	E2F3	6	20481645	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2644493	20481645	150633422	472	7281											
CDKAL1	54901	broad.mit.edu	37	chr6	20758841	20758841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaggttcagcagatagatCgtgtggtagaagttgtggag	10	11	15	5	1	1	3	1	0	0	3	3	4	2	4	1	3	1	4	1	3	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:20758841C>T	uc003ndc.1	+	7	658	c.484C>T	c.(484-486)CGT>TGT	p.R162C	CDKAL1_uc003ndd.1_Missense_Mutation_p.R162C|CDKAL1_uc003nde.1_Missense_Mutation_p.R92C	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	162	MTTase N-terminal.				RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			GCAGATAGATCGTGTGGTAGA	0.328													5	28					0	0	0.000602	0	0		T	20758841	T	T	20758841	3	4	8	1	0	0	0	0	1	0	0	0	3155	884	31	1	502	1	CDKAL1	6	20758841	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	277196	20758841	150356226	473	7282											
TDP2	51567	broad.mit.edu	37	chr6	24653309	24653309	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttttaactgattcattcGttccgcagcatgccctctgg	7	15	7	12	2	2	1	1	1	1	0	4	1	3	1	2	1	3	3	2	1	1	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:24653309G>A	uc003nej.2	-	6	734	c.709C>T	c.(709-711)CGA>TGA	p.R237*	TDP2_uc003nei.2_Nonsense_Mutation_p.R125*|TDP2_uc010jpu.1_Nonsense_Mutation_p.R237*	NM_016614	NP_057698	O95551	TYDP2_HUMAN	TRAF and TNF receptor-associated protein	237					cell surface receptor linked signaling pathway|double-strand break repair	PML body	5'-tyrosyl-DNA phosphodiesterase activity|magnesium ion binding|nuclease activity|protein binding|transcription corepressor activity			ovary(1)|lung(1)	2						TGATTCATTCGTTCCGCAGCA	0.433								Direct_reversal_of_damage|Editing_and_processing_nucleases					48	210					0	0	0.01441	0	0		A	24653309	A	A	24653309	4	1	8	1	0	0	0	0	0	1	0	0	15754	1153	40	1	387	1	TDP2	6	24653309	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3894468	24653309	146461758	474	7283											
LRRC16A	55604	broad.mit.edu	37	chr6	25600624	25600624	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcgagattctcggaaaagtAgtggctttctcaatttaatc	12	13	9	7	2	2	1	1	0	2	1	5	3	2	2	0	2	1	2	0	2	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:25600624A>G	uc011djw.1	+	33	3578	c.3202A>G	c.(3202-3204)AGT>GGT	p.S1068G	LRRC16A_uc010jpx.2_Missense_Mutation_p.S1068G|LRRC16A_uc010jpy.2_Missense_Mutation_p.S1068G	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	1068	Inhibits capping activity of CAPZA2 (By similarity).				actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						TCGGAAAAGTAGTGGCTTTCT	0.453													16	101					0	0	0.00499	0	0		G	25600624	G	G	25600624	3	3	8	1	0	0	0	0	1	0	0	0	8989	420	15	3	3332	3	LRRC16A	6	25600624	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	947315	25600624	145514443	475	7284											
HIST1H2BL	8340	broad.mit.edu	37	chr6	27775557	27775557	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacctgcttcagcaccttgTacacgtacacggagtagctc	9	9	10	13	2	1	0	1	0	0	0	2	2	1	2	2	2	5	6	2	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:27775557T>C	uc003njl.2	-	1	153	c.128A>G	c.(127-129)TAC>TGC	p.Y43C	HIST1H3H_uc003njm.2_5'Flank	NM_003519	NP_003510	Q99880	H2B1L_HUMAN	histone cluster 1, H2bl	43					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CAGCACCTTGTACACGTACAC	0.582													40	183					0	0	0.01441	0	0		C	27775557	C	C	27775557	3	2	8	1	0	0	0	0	1	0	0	0	7167	1638	57	3	256	3	HIST1H2BL	6	27775557	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2174933	27775557	143339510	476	7285											
HIST1H2BN	8341	broad.mit.edu	37	chr6	27806599	27806599	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaggtccaccccgacaccGgtatctcgtccaaggccatg	9	6	10	16	3	1	0	0	0	1	0	4	1	3	0	6	3	1	2	6	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:27806599G>T	uc003njv.2	+	1	160	c.160G>T	c.(160-162)GGT>TGT	p.G54C	HIST1H2AK_uc003njs.2_5'Flank|HIST1H2BN_uc003njt.1_RNA|HIST1H2BN_uc003nju.1_Missense_Mutation_p.G54C	NM_003520	NP_003511	Q99877	H2B1N_HUMAN	histone cluster 1, H2bn	54					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CCCCGACACCGGTATCTCGTC	0.592													47	214					2.29192e-23	2.5865e-23	0.01441	1	0		T	27806599	T	T	27806599	3	4	8	1	0	0	0	0	1	0	0	0	7169	1116	39	5	162	5	HIST1H2BN	6	27806599	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	31042	27806599	143308468	477	7286											
OR2B6	26212	broad.mit.edu	37	chr6	27925691	27925691	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcttttattgtccgagcaGtattgaggatacagtctgct	9	15	10	7	1	1	1	0	1	1	0	2	3	2	2	1	1	4	4	1	1	3	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:27925691G>C	uc011dkx.1	+	1	673	c.673G>C	c.(673-675)GTA>CTA	p.V225L		NM_012367	NP_036499	P58173	OR2B6_HUMAN	olfactory receptor, family 2, subfamily B,	225	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGTCCGAGCAGTATTGAGGAT	0.423													19	122					0	0	0.006122	0	0		C	27925691	C	C	27925691	3	2	8	1	0	0	0	0	1	0	0	0	11010	1029	36	5	675	5	OR2B6	6	27925691	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	119092	27925691	143189376	478	7287											
TRIM15	89870	broad.mit.edu	37	chr6	30139991	30139991	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgagagtcgccctggactaCgaggcggggcaggtgaccct	7	6	17	11	3	0	2	0	2	0	1	1	5	0	3	2	5	1	1	2	5	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:30139991C>T	uc010jrx.2	+	7	1742	c.1263C>T	c.(1261-1263)TAC>TAT	p.Y421Y		NM_033229	NP_150232	Q9C019	TRI15_HUMAN	tripartite motif protein 15	421	B30.2/SPRY.				mesodermal cell fate determination	intracellular	zinc ion binding				0						CCCTGGACTACGAGGCGGGGC	0.652													3	6					0	0	0.004672	0	0		T	30139991	T	T	30139991	2	4	8	1	0	0	0	0	0	0	0	1	16516	547	19	1		1	TRIM15	6	30139991	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2214300	30139991	140975076	479	7288											
C6orf136	221545	broad.mit.edu	37	chr6	30617500	30617500	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctcagatccaggccctcAgctcagcatgggtggttctc	6	10	10	15	0	4	1	3	0	1	1	7	1	6	1	3	3	2	3	3	3	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:30617500A>G	uc003nqw.3	+	2	431	c.238A>G	c.(238-240)AGC>GGC	p.S80G	C6orf136_uc003nqx.3_Missense_Mutation_p.S261G|C6orf136_uc011dmn.1_Intron	NM_001109938	NP_001103408	Q5SQH8	CF136_HUMAN	hypothetical protein LOC221545 isoform 1	80											0						CCAGGCCCTCAGCTCAGCATG	0.617													13	116					0	0	0.003163	0	0		G	30617500	G	G	30617500	3	3	8	1	0	0	0	0	1	0	0	0	2334	188	7	3	787	3	C6orf136	6	30617500	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	477509	30617500	140497567	480	7289											
LTA	4049	broad.mit.edu	37	chr6	31541102	31541102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgctctggagagcaaacacgGaccgtgccttcctccaggat	9	8	11	13	2	1	1	0	0	1	1	3	4	3	3	4	3	4	2	4	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:31541102G>A	uc011dnu.1	+	4	463	c.250G>A	c.(250-252)GAC>AAC	p.D84N	LTA_uc003nue.1_Missense_Mutation_p.D84N|LTA_uc003nuf.2_Intron|LTA_uc003nuh.2_Missense_Mutation_p.D31N|LTA_uc003nug.2_Missense_Mutation_p.D31N|LTA_uc010jsr.2_Intron|TNF_uc003nui.2_5'Flank	NM_001159740	NP_001153212	P01374	TNFB_HUMAN	lymphotoxin alpha precursor	84					cell-cell signaling|induction of apoptosis|signal transduction	extracellular space|membrane	cytokine activity|tumor necrosis factor receptor binding				0					Etanercept(DB00005)	AGCAAACACGGACCGTGCCTT	0.567													12	37					0	0	0.00245	0	0		A	31541102	A	A	31541102	3	1	8	1	0	0	0	0	1	0	0	0	9086	1174	41	4	260	4	LTA	6	31541102	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	923602	31541102	139573965	481	7290											
BAT2	7916	broad.mit.edu	37	chr6	31593069	31593069	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgaacagtcgtctgggccCggaccaagcctccgccccca	7	4	11	19	4	1	0	0	0	1	0	3	2	2	1	7	2	2	0	7	2	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:31593069C>T	uc003nvb.3	+	6	834	c.585C>T	c.(583-585)CCC>CCT	p.P195P	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Silent_p.P195P|BAT2_uc003nve.2_Silent_p.P58P	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	195	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						CGTCTGGGCCCGGACCAAGCC	0.582													15	36					0	0	0.004007	0	0		T	31593069	T	T	31593069	2	4	8	1	0	0	0	0	0	0	0	1	1320	639	23	1		1	BAT2	6	31593069	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	51967	31593069	139521998	482	7291											
C6orf47	57827	broad.mit.edu	37	chr6	31627518	31627518	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgcttggttcggaagcAgccccagaaaccctcaatgc	9	9	9	14	1	1	1	1	0	0	1	3	2	2	2	4	2	5	3	4	2	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:31627518A>G	uc003nvm.1	-	1	1032	c.207T>C	c.(205-207)GCT>GCC	p.A69A		NM_021184	NP_067007	O95873	CF047_HUMAN	G4 protein	69										ovary(1)	1						GTTCGGAAGCAGCCCCAGAAA	0.542													11	46					0	0	0.010729	0	0		G	31627518	G	G	31627518	2	3	8	1	0	0	0	0	0	0	0	1	2367	175	7	3		3	C6orf47	6	31627518	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	34449	31627518	139487549	483	7292											
VARS	7407	broad.mit.edu	37	chr6	31760564	31760564	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagaggcctggctcctgAgtatagaaccacttctccta	11	9	10	11	0	1	4	0	1	1	3	3	5	2	4	4	2	1	2	4	2	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:31760564A>T	uc003nxe.2	-	4	1054	c.631T>A	c.(631-633)TCA>ACA	p.S211T	VARS_uc011doi.1_RNA	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	211	GST C-terminal.				translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	CTGGCTCCTGAGTATAGAACC	0.567													4	41					0	0	0.001984	0	0		T	31760564	T	T	31760564	3	4	8	1	0	0	0	0	1	0	0	0	17149	304	11	5	3271	5	VARS	6	31760564	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	133046	31760564	139354503	484	7293											
SLC44A4	80736	broad.mit.edu	37	chr6	31838664	31838664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagctgggagatggaggCgcccttgtcccgcagcactc	7	6	13	15	2	0	1	0	0	0	1	2	3	1	2	3	3	2	3	3	3	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:31838664C>T	uc010jti.2	-	10	928	c.862G>A	c.(862-864)GCC>ACC	p.A288T	SLC44A4_uc011dol.1_Missense_Mutation_p.A212T|SLC44A4_uc011dom.1_Missense_Mutation_p.A246T	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	288	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	GAGATGGAGGCGCCCTTGTCC	0.657													5	20					0	0	0.001168	0	0		T	31838664	T	T	31838664	3	4	8	1	0	0	0	0	1	0	0	0	14663	768	27	1	1318	1	SLC44A4	6	31838664	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	78100	31838664	139276403	485	7294											
EHMT2	10919	broad.mit.edu	37	chr6	31852688	31852688	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaccaaacgctcactcaCgttgtcagtgagggtgacgt	10	9	10	12	3	4	2	4	2	0	0	4	2	4	2	1	1	2	2	1	1	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:31852688C>T	uc003nxz.1	-	19	2458	c.2448_splice	c.e19+1	p.N816_splice	EHMT2_uc003nxv.1_5'Flank|EHMT2_uc003nxw.1_5'Flank|EHMT2_uc003nxx.1_Intron|EHMT2_uc003nxy.1_Missense_Mutation_p.V608M|EHMT2_uc011don.1_Splice_Site_p.N839_splice|EHMT2_uc003nya.1_Splice_Site_p.N782_splice	NM_006709	NP_006700	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2						DNA methylation|peptidyl-lysine dimethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			ovary(1)	1						CGCTCACTCACGTTGTCAGTG	0.637													7	18					0	0	0.00308	0	0		T	31852688	T	T	31852688	5	4	8	1	0	0	0	0	0	0	1	0	4990	550	19	1	1223	1	EHMT2	6	31852688	Splice_Site	SNP	C	TCGA-BR-4201-01A-01D-1126-08	14024	31852688	139262379	486	7295											
STK19	8859	broad.mit.edu	37	chr6	31939920	31939920	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctccacgccgccaacgagtCcccgggcgtgcgtgcccttg	4	6	12	19	6	0	0	0	0	0	0	2	1	2	0	7	1	3	0	7	1	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:31939920C>T	uc003nyv.2	+	1	275	c.147C>T	c.(145-147)GTC>GTT	p.V49V	DOM3Z_uc003nyo.1_5'UTR|DOM3Z_uc003nyp.1_5'UTR|DOM3Z_uc003nyq.1_5'UTR|DOM3Z_uc003nyr.1_5'UTR|DOM3Z_uc003nys.1_5'Flank|DOM3Z_uc010jtl.1_5'UTR|STK19_uc003nyt.2_5'UTR|DOM3Z_uc003nyu.1_5'UTR|STK19_uc011dow.1_Silent_p.V49V|STK19_uc011dox.1_5'UTR|STK19_uc003nyw.2_Silent_p.V49V|STK19_uc010jtn.1_5'Flank	NM_032454	NP_115830	P49842	STK19_HUMAN	serine/threonine kinase 19 isoform 2	49						nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			skin(4)	4						GCCAACGAGTCCCCGGGCGTG	0.731													5	21					0	0	0.004482	0	0		T	31939920	T	T	31939920	2	4	8	1	0	0	0	0	0	0	0	1	15317	842	30	4		4	STK19	6	31939920	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	87232	31939920	139175147	487	7296											
TNXB	7148	broad.mit.edu	37	chr6	32039796	32039796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccacagagactgggctgCgtcgtttcccatcctggatc	6	10	10	15	2	0	1	0	0	0	1	5	3	3	2	4	2	1	2	4	2	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:32039796C>T	uc003nzl.2	-	13	5163	c.4961G>A	c.(4960-4962)CGC>CAC	p.R1654H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1736	Fibronectin type-III 9.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GACTGGGCTGCGTCGTTTCCC	0.607													6	25					0	0	0.001984	0	0		T	32039796	T	T	32039796	3	4	8	1	0	0	0	0	1	0	0	0	16371	768	27	1	9880	1	TNXB	6	32039796	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	99876	32039796	139075271	488	7297											
TNXB	7148	broad.mit.edu	37	chr6	32039876	32039876	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggatagtgacctcccgCtgatctgcagccacgggcac	8	7	12	14	2	2	2	1	2	1	0	3	3	3	3	3	2	2	3	3	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:32039876C>A	uc003nzl.2	-	13	5083	c.4881G>T	c.(4879-4881)CAG>CAT	p.Q1627H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1709	Fibronectin type-III 9.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TGACCTCCCGCTGATCTGCAG	0.597													5	14					1.23904e-05	1.33197e-05	0.000602	1	0		A	32039876	A	A	32039876	3	1	8	1	0	0	0	0	1	0	0	0	16371	796	28	5	9960	5	TNXB	6	32039876	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	80	32039876	139075191	489	7298											
TNXB	7148	broad.mit.edu	37	chr6	32065871	32065871	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggagggggccggggggcTggcagtgtcacattggaccg	5	6	22	8	2	1	0	1	0	0	0	1	2	1	2	2	9	0	2	2	9	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:32065871T>C	uc003nzl.2	-	2	307	c.105A>G	c.(103-105)CCA>CCG	p.P35P	TNXB_uc010jts.1_Silent_p.P34P|ATF6B_uc003nzm.1_3'UTR	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	35					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GCCGGGGGGCTGGCAGTGTCA	0.642													4	14					0	0	0.001168	0	0		C	32065871	C	C	32065871	2	2	8	1	0	0	0	0	0	0	0	1	16371	1567	55	3		3	TNXB	6	32065871	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	25995	32065871	139049196	490	7299											
PPT2	9374	broad.mit.edu	37	chr6	32123717	32123717	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctatcggatctgctatagccCctggggccaggaattctcca	8	10	10	13	1	2	0	0	0	2	0	4	2	2	2	4	4	2	1	4	4	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:32123717C>A	uc003nzx.2	+	5	1071	c.503C>A	c.(502-504)CCC>CAC	p.P168H	PRRT1_uc003nzu.2_5'Flank|uc003nzv.3_5'Flank|PPT2_uc003nzw.2_Missense_Mutation_p.P174H|PPT2_uc011dpi.1_RNA|PPT2_uc003nzy.1_RNA|PPT2_uc003nzz.2_Missense_Mutation_p.P168H|PPT2_uc003oaa.2_Missense_Mutation_p.P168H|PPT2_uc010jtu.1_Missense_Mutation_p.P168H	NM_005155	NP_005146	Q9UMR5	PPT2_HUMAN	palmitoyl-protein thioesterase 2 isoform a	168					protein modification process	lysosome	palmitoyl-(protein) hydrolase activity				0						TGCTATAGCCCCTGGGGCCAG	0.547													14	54					1.67942e-08	1.84077e-08	0.006122	1	0		A	32123717	A	A	32123717	3	1	8	1	0	0	0	0	1	0	0	0	12434	623	22	5	539	5	PPT2	6	32123717	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	57846	32123717	138991350	491	7300											
EGFL8	80864	broad.mit.edu	37	chr6	32135028	32135028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgccagcatactcagcGtggccggtgagtgggcagga	8	6	16	11	2	1	1	1	1	0	0	1	2	1	2	3	4	4	2	3	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:32135028G>A	uc003oab.1	+	6	653	c.595G>A	c.(595-597)GTG>ATG	p.V199M	PPT2_uc003nzy.1_RNA|EGFL8_uc003oac.1_Missense_Mutation_p.V199M	NM_030652	NP_085155	Q99944	EGFL8_HUMAN	NG3 protein precursor	199	Potential.					extracellular region|integral to membrane	calcium ion binding				0						CATACTCAGCGTGGCCGGTGA	0.667													5	18					0	0	0.001984	0	0		A	32135028	A	A	32135028	3	1	8	1	0	0	0	0	1	0	0	0	4971	1145	40	1	613	1	EGFL8	6	32135028	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	11311	32135028	138980039	492	7301											
GPSM3	63940	broad.mit.edu	37	chr6	32159535	32159535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctctgtcctcgagaggaCggagtggggcaggggctagg	6	8	19	8	2	1	1	0	0	1	1	4	4	2	3	1	7	0	3	1	7	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:32159535C>T	uc003oay.3	-	3	689	c.296G>A	c.(295-297)CGT>CAT	p.R99H	PBX2_uc003oav.1_5'Flank|PBX2_uc003oaw.2_5'Flank|GPSM3_uc003oax.3_Missense_Mutation_p.R76H|GPSM3_uc003oaz.2_Missense_Mutation_p.R99H	NM_022107	NP_071390	Q9Y4H4	GPSM3_HUMAN	G-protein signaling modulator 3 (AGS3-like, C.	99					signal transduction	cytoplasm	GTPase activator activity|protein binding				0						CTCGAGAGGACGGAGTGGGGC	0.632													9	19					0	0	0.008291	0	0		T	32159535	T	T	32159535	3	4	8	1	0	0	0	0	1	0	0	0	6752	536	19	1	194	1	GPSM3	6	32159535	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	24507	32159535	138955532	493	7302											
NOTCH4	4855	broad.mit.edu	37	chr6	32168997	32168997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctagcttttcttcagcccGggccccaggataggggtaca	7	10	11	13	1	2	0	1	0	1	0	3	1	3	1	4	4	3	2	4	4	3	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:32168997G>A	uc003obb.2	-	22	4175	c.4036C>T	c.(4036-4038)CGG>TGG	p.R1346W	NOTCH4_uc003oba.2_Missense_Mutation_p.R9W|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1346	Extracellular (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						TCTTCAGCCCGGGCCCCAGGA	0.622													11	20					0	0	0.00245	0	0		A	32168997	A	A	32168997	3	1	8	1	0	0	0	0	1	0	0	0	10570	1115	39	1	2011	1	NOTCH4	6	32168997	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	9462	32168997	138946070	494	7303											
PSMB8	5696	broad.mit.edu	37	chr6	32809478	32809478	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatatttcctgagagccgaGtcccatgttcatccacgtag	10	11	8	12	2	1	1	1	1	0	1	4	3	4	1	4	0	1	2	4	0	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:32809478G>T	uc003oce.2	-	5	615	c.572C>A	c.(571-573)ACT>AAT	p.T191N	TAP2_uc011dqf.1_5'Flank|TAP2_uc003ocb.1_5'Flank|TAP2_uc003ocd.2_5'Flank|PSMB8_uc003ocf.2_Missense_Mutation_p.T187N	NM_148919	NP_683720	P28062	PSB8_HUMAN	proteasome beta 8 subunit isoform E2 proprotein	191					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|type I interferon-mediated signaling pathway|viral reproduction	cytoplasm|nucleus|proteasome core complex	protein binding|threonine-type endopeptidase activity			skin(1)	1						TGAGAGCCGAGTCCCATGTTC	0.488													22	120					1.1804e-14	1.32321e-14	0.003954	1	0		T	32809478	T	T	32809478	3	4	8	1	0	0	0	0	1	0	0	0	12705	1029	36	5	266	5	PSMB8	6	32809478	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	640481	32809478	138305589	495	7304											
ITPR3	3710	broad.mit.edu	37	chr6	33638235	33638235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgccctttgacctgcgcGcctccttctgccacctgatg	3	12	9	17	2	1	2	0	2	1	0	2	2	2	2	6	0	4	1	6	0	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:33638235G>A	uc011drk.1	+	19	2542	c.2323G>A	c.(2323-2325)GCC>ACC	p.A775T		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	775	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						TGACCTGCGCGCCTCCTTCTG	0.627													19	71					0	0	0.006122	0	0		A	33638235	A	A	33638235	3	1	8	1	0	0	0	0	1	0	0	0	7938	1087	38	1	2397	1	ITPR3	6	33638235	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	828757	33638235	137476832	496	7305											
UHRF1BP1	54887	broad.mit.edu	37	chr6	34826613	34826613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattccccggcccatgtccGcgtgaggcttgaccactacc	7	8	9	17	3	0	2	0	2	0	0	2	2	2	2	6	2	1	1	6	2	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:34826613G>A	uc003oju.3	+	14	2714	c.2480G>A	c.(2479-2481)CGC>CAC	p.R827H	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	827										ovary(3)	3						GCCCATGTCCGCGTGAGGCTT	0.527													42	167					0	0	0.011902	0	0		A	34826613	A	A	34826613	3	1	8	1	0	0	0	0	1	0	0	0	16994	1087	38	1	2534	1	UHRF1BP1	6	34826613	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1188378	34826613	136288454	497	7306											
SCUBE3	222663	broad.mit.edu	37	chr6	35200656	35200656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgcatgaacaagaaccacGgctgtgcccacatttgccgg	11	8	10	12	2	0	2	0	1	0	1	0	2	0	2	3	2	5	2	3	2	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:35200656G>A	uc003okf.1	+	5	505	c.499G>A	c.(499-501)GGC>AGC	p.G167S	SCUBE3_uc003okg.1_Missense_Mutation_p.G166S|SCUBE3_uc003okh.1_Missense_Mutation_p.G38S	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	167	EGF-like 4.				protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						CAAGAACCACGGCTGTGCCCA	0.493													29	88					0	0	0.010818	0	0		A	35200656	A	A	35200656	3	1	8	1	0	0	0	0	1	0	0	0	13971	1116	39	1	517	1	SCUBE3	6	35200656	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	374043	35200656	135914411	498	7307											
DNAH8	1769	broad.mit.edu	37	chr6	38828371	38828371	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatgaatttctgggatgtActgatcgtcttgttatcact	11	16	8	6	1	3	2	1	2	2	0	4	3	3	3	0	1	1	2	0	1	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:38828371A>G	uc003ooe.1	+	41	6046	c.5446A>G	c.(5446-5448)ACT>GCT	p.T1816A		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TCTGGGATGTACTGATCGTCT	0.294													5	39					0	0	0.000602	0	0		G	38828371	G	G	38828371	3	3	8	1	0	0	0	0	1	0	0	0	4613	391	14	3	5600	3	DNAH8	6	38828371	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3627715	38828371	132286696	499	7308											
TREML1	340205	broad.mit.edu	37	chr6	41121543	41121543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcaaaatctggggccccCtggccccatccaccatgcag	8	7	10	16	0	1	0	0	0	1	0	2	0	2	0	6	3	2	2	6	3	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:41121543C>T	uc011duc.1	-	2	373	c.329G>A	c.(328-330)AGG>AAG	p.R110K	TREML1_uc003opx.2_Missense_Mutation_p.R110K|TREML1_uc011dud.1_Intron	NM_178174	NP_835468	Q86YW5	TRML1_HUMAN	triggering receptor expressed on myeloid	110	Ig-like V-type.|Extracellular (Potential).				calcium-mediated signaling|innate immune response|platelet activation	cell surface|integral to membrane|plasma membrane|platelet alpha granule	protein binding|receptor activity			breast(1)	1	Ovarian(28;0.0418)|Colorectal(47;0.196)					CTGGGGCCCCCTGGCCCCATC	0.602													11	43					0	0	0.001855	0	0		T	41121543	T	T	41121543	3	4	8	1	0	0	0	0	1	0	0	0	16498	681	24	4	624	4	TREML1	6	41121543	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2293172	41121543	129993524	500	7309											
FOXP4	116113	broad.mit.edu	37	chr6	41558999	41558999	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcagctgaccctgaatgAgatctataactggttcacca	12	9	9	11	0	2	3	1	3	1	1	2	4	2	3	2	2	2	3	2	2	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:41558999A>G	uc003oql.2	+	13	1933	c.1475A>G	c.(1474-1476)GAG>GGG	p.E492G	FOXP4_uc003oqm.2_Missense_Mutation_p.E490G|FOXP4_uc003oqn.2_Missense_Mutation_p.E479G	NM_001012426	NP_001012426	Q8IVH2	FOXP4_HUMAN	forkhead box P4 isoform 1	492	Fork-head.				embryonic foregut morphogenesis|heart development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					ACCCTGAATGAGATCTATAAC	0.592													4	10					0	0	0.00308	0	0		G	41558999	G	G	41558999	3	3	8	1	0	0	0	0	1	0	0	0	6043	304	11	3	1521	3	FOXP4	6	41558999	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	437456	41558999	129556068	501	7310											
GUCA1A	2978	broad.mit.edu	37	chr6	42146094	42146094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggtggaacagaagctccGctggtacttcaagctctatg	11	9	12	9	1	2	1	1	0	1	1	3	3	3	2	1	3	4	4	1	3	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:42146094G>A	uc003orx.2	+	4	923	c.278G>A	c.(277-279)CGC>CAC	p.R93H	GUCA1A_uc011duo.1_RNA|GUCA1A_uc010jxt.2_Missense_Mutation_p.R93H	NM_000409	NP_000400	P43080	GUC1A_HUMAN	guanylate cyclase activator 1A (retina)	93	EF-hand 3.				signal transduction|visual perception	membrane	calcium ion binding|calcium sensitive guanylate cyclase activator activity				0	Colorectal(47;0.196)		STAD - Stomach adenocarcinoma(11;5.54e-05)|Epithelial(12;0.000167)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CAGAAGCTCCGCTGGTACTTC	0.617													26	75					0	0	0.007291	0	0		A	42146094	A	A	42146094	3	1	8	1	0	0	0	0	1	0	0	0	6904	1087	38	1	284	1	GUCA1A	6	42146094	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	587095	42146094	128968973	502	7311											
CUL9	23113	broad.mit.edu	37	chr6	43167106	43167106	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggccctagcagtgactcCgaggtaccagaaccctggca	10	6	12	13	1	0	2	0	1	0	1	1	3	1	2	4	3	3	3	4	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:43167106C>T	uc003ouk.2	+	13	3228	c.3153C>T	c.(3151-3153)TCC>TCT	p.S1051S	CUL9_uc003oul.2_Silent_p.S1051S|CUL9_uc010jyk.2_Silent_p.S203S	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1051					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GCAGTGACTCCGAGGTACCAG	0.592													16	80					0	0	0.010504	0	0		T	43167106	T	T	43167106	2	4	8	1	0	0	0	0	0	0	0	1	4064	639	23	1		1	CUL9	6	43167106	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1021012	43167106	127947961	503	7312											
CUL9	23113	broad.mit.edu	37	chr6	43167827	43167827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcttcgggacctggtgaCagagtgtgagaagtacgcac	10	8	15	8	2	0	4	0	3	0	2	1	6	0	5	1	2	2	3	1	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:43167827C>T	uc003ouk.2	+	14	3392	c.3317C>T	c.(3316-3318)ACA>ATA	p.T1106I	CUL9_uc003oul.2_Missense_Mutation_p.T1106I|CUL9_uc010jyk.2_Missense_Mutation_p.T258I	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1106					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GACCTGGTGACAGAGTGTGAG	0.582													9	58					0	0	0.008291	0	0		T	43167827	T	T	43167827	3	4	8	1	0	0	0	0	1	0	0	0	4064	478	17	4	3367	4	CUL9	6	43167827	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	721	43167827	127947240	504	7313											
ZNF318	24149	broad.mit.edu	37	chr6	43322422	43322422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttttgcttctgggaagcacGgttcttctcatcagagatct	7	15	9	10	1	5	1	2	0	4	1	6	3	5	2	0	2	2	3	0	2	1	5	rs146670568		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:43322422G>A	uc003oux.2	-	4	2728	c.2650C>T	c.(2650-2652)CGT>TGT	p.R884C	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	884	Potential.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			TGGGAAGCACGGTTCTTCTCA	0.443													23	70					0	0	0.003954	0	0		A	43322422	A	A	43322422	3	1	8	1	0	0	0	0	1	0	0	0	17861	1116	39	1	4217	1	ZNF318	6	43322422	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	154595	43322422	127792645	505	7314											
CDC5L	988	broad.mit.edu	37	chr6	44376250	44376250	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaattgcacgtcaaactgccGaggaatctggcataacaaat	16	8	8	9	2	2	0	1	0	1	0	2	2	2	1	1	2	4	2	1	2	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:44376250G>A	uc003oxl.2	+	8	1232	c.973G>A	c.(973-975)GAG>AAG	p.E325K		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	325	Interaction with PPP1R8.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TCAAACTGCCGAGGAATCTGG	0.428													17	91					0	0	0.012319	0	0		A	44376250	A	A	44376250	3	1	8	1	0	0	0	0	1	0	0	0	3085	1059	37	1	1003	1	CDC5L	6	44376250	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1053828	44376250	126738817	506	7315											
DST	667	broad.mit.edu	37	chr6	56382029	56382029	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttcctcttcactgcatgcGgtcatgattttatgcccaga	7	16	7	11	1	3	2	2	1	1	1	4	2	4	2	2	1	3	1	2	1	1	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:56382029G>A	uc003pdf.2	-	65	11995	c.11967C>T	c.(11965-11967)ACC>ACT	p.T3989T	DST_uc003pcz.3_Silent_p.T3811T|DST_uc011dxj.1_Silent_p.T3840T|DST_uc011dxk.1_Silent_p.T3851T|DST_uc003pcy.3_Silent_p.T3485T	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5897	Spectrin 10.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CACTGCATGCGGTCATGATTT	0.388													25	143					0	0	0.00632	0	0		A	56382029	A	A	56382029	2	1	8	1	0	0	0	0	0	0	0	1	4789	1103	39	1		1	DST	6	56382029	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	12005779	56382029	114733038	507	7316											
KIAA1586	57691	broad.mit.edu	37	chr6	56917834	56917834	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcagaaaagcatgtccaTgtgtccaaggaatggattgc	15	8	11	7	0	0	1	0	0	0	1	2	3	2	3	2	2	3	2	2	2	5	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:56917834T>C	uc003pdj.2	+	4	707	c.537T>C	c.(535-537)CAT>CAC	p.H179H	KIAA1586_uc011dxm.1_Silent_p.H152H	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	179							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			AGCATGTCCATGTGTCCAAGG	0.368													12	120					0	0	0.013537	0	0		C	56917834	C	C	56917834	2	2	8	1	0	0	0	0	0	0	0	1	8261	1461	51	3		3	KIAA1586	6	56917834	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	535805	56917834	114197233	508	7317											
BAI3	577	broad.mit.edu	37	chr6	70042837	70042837	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatggtgattggcatttTggtatttaataaacttgttt	11	18	8	4	0	0	1	0	1	0	0	0	1	0	1	0	3	2	3	0	3	5	9			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:70042837T>G	uc003pev.3	+	24	3573	c.3125T>G	c.(3124-3126)TTG>TGG	p.L1042W	BAI3_uc010kak.2_Missense_Mutation_p.L1042W|BAI3_uc011dxx.1_Missense_Mutation_p.L248W|BAI3_uc003pex.1_Missense_Mutation_p.L172W	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1042	Helical; Name=5; (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				ATTGGCATTTTGGTATTTAAT	0.373													7	44					0	0	0.006214	0	0		G	70042837	G	G	70042837	3	3	8	1	0	0	0	0	1	0	0	0	1301	1821	63	5	3211	5	BAI3	6	70042837	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	13125003	70042837	101072230	509	7318											
OGFRL1	79627	broad.mit.edu	37	chr6	72011673	72011673	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtgtatctcctgagaataAcgaagaaggtggaaatgata	16	9	12	4	1	1	3	0	2	1	2	2	7	1	4	1	2	1	1	1	2	7	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:72011673A>G	uc003pfx.1	+	7	1440	c.1277A>G	c.(1276-1278)AAC>AGC	p.N426S		NM_024576	NP_078852	Q5TC84	OGRL1_HUMAN	opioid growth factor receptor-like 1	426						membrane	receptor activity				0						CCTGAGAATAACGAAGAAGGT	0.373													32	163					0	0	0.003755	0	0		G	72011673	G	G	72011673	3	3	8	1	0	0	0	0	1	0	0	0	10863	43	2	3	1303	3	OGFRL1	6	72011673	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1968836	72011673	99103394	510	7319											
KCNQ5	56479	broad.mit.edu	37	chr6	73787159	73787159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagatcctccgcatggtgcGcatggaccgaaggggaggca	10	5	15	11	3	0	1	0	0	0	1	2	4	2	3	3	5	1	3	3	5	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:73787159G>A	uc003pgk.2	+	4	1078	c.731G>A	c.(730-732)CGC>CAC	p.R244H	KCNQ5_uc003pgj.3_Missense_Mutation_p.R244H|KCNQ5_uc011dyh.1_Missense_Mutation_p.R244H|KCNQ5_uc011dyi.1_Missense_Mutation_p.R244H|KCNQ5_uc010kat.2_Missense_Mutation_p.R244H|KCNQ5_uc011dyj.1_Missense_Mutation_p.R244H|KCNQ5_uc011dyk.1_Missense_Mutation_p.R3H	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	244	Helical; Voltage-sensor; Name=Segment S4; (Potential).		R -> C (in a colorectal cancer sample; somatic mutation).		protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity	p.R244C(1)		ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CGCATGGTGCGCATGGACCGA	0.438													10	45					0	0	0.010729	0	0		A	73787159	A	A	73787159	3	1	8	1	0	0	0	0	1	0	0	0	8102	1087	38	1	745	1	KCNQ5	6	73787159	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1775486	73787159	97327908	511	7320											
FILIP1	27145	broad.mit.edu	37	chr6	76022149	76022149	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcagatgacgttgtgacCggtgttatggtgatagtgct	8	12	15	6	3	0	4	0	3	0	1	0	5	0	4	1	2	2	4	1	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:76022149C>T	uc003pia.2	-	5	3772	c.3399G>A	c.(3397-3399)CCG>CCA	p.P1133P	FILIP1_uc003phy.1_Silent_p.P1133P|FILIP1_uc003phz.2_Silent_p.P1034P|FILIP1_uc010kbe.2_Silent_p.P1136P|FILIP1_uc003pib.1_Silent_p.P885P	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	1133										skin(3)|ovary(1)	4						ACGTTGTGACCGGTGTTATGG	0.562													23	96					0	0	0.00333	0	0		T	76022149	T	T	76022149	2	4	8	1	0	0	0	0	0	0	0	1	5908	639	23	1		1	FILIP1	6	76022149	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2234990	76022149	95092918	512	7321											
KIAA1009	22832	broad.mit.edu	37	chr6	84872863	84872863	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcagctcagtgttttacCtgtgacataagcaatctgat	10	15	8	8	0	3	2	2	2	1	0	3	2	3	2	1	0	3	4	1	0	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:84872863C>A	uc010kbp.2	-	19	2609	c.2512G>T	c.(2512-2514)GGT>TGT	p.G838C	KIAA1009_uc003pkj.3_Missense_Mutation_p.G762C|KIAA1009_uc003pki.3_Missense_Mutation_p.G224C	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	838	Potential.				cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		AGTGTTTTACCTGTGACATAA	0.338													17	100					6.94344e-10	7.66567e-10	0.006122	1	0		A	84872863	A	A	84872863	3	1	8	1	0	0	0	0	1	0	0	0	8219	695	24	5	1735	5	KIAA1009	6	84872863	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8850714	84872863	86242204	513	7322											
AKIRIN2	55122	broad.mit.edu	37	chr6	88391397	88391397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcatcagaagtacaacacGgatctgtctgttggaaactc	12	10	10	9	1	3	1	1	0	2	1	4	3	3	3	0	2	4	3	0	2	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:88391397G>A	uc003pmk.2	-	2	903	c.320C>T	c.(319-321)CCG>CTG	p.P107L		NM_018064	NP_060534	Q53H80	AKIR2_HUMAN	akirin 2	107					innate immune response|transcription, DNA-dependent	transcriptional repressor complex					0						AGTACAACACGGATCTGTCTG	0.343													10	61					0	0	0.010729	0	0		A	88391397	A	A	88391397	3	1	8	1	0	0	0	0	1	0	0	0	462	1116	39	1	307	1	AKIRIN2	6	88391397	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3518534	88391397	82723670	514	7323											
CNR1	1268	broad.mit.edu	37	chr6	88854349	88854349	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggggcctgtgaatggatatGtacctgtcgatggctgtgag	8	11	16	6	1	0	2	0	2	0	0	1	4	0	3	2	4	1	2	2	4	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:88854349G>A	uc011dzq.1	-	2	4208	c.645C>T	c.(643-645)TAC>TAT	p.Y215Y	CNR1_uc010kbz.2_Silent_p.Y215Y|CNR1_uc011dzr.1_Silent_p.Y215Y|CNR1_uc011dzs.1_Silent_p.Y215Y|CNR1_uc003pmq.3_Silent_p.Y215Y|CNR1_uc011dzt.1_Silent_p.Y215Y|CNR1_uc010kca.2_Silent_p.Y182Y	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	215	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	GAATGGATATGTACCTGTCGA	0.572													10	34					0	0	0.006214	0	0		A	88854349	A	A	88854349	2	1	8	1	0	0	0	0	0	0	0	1	3634	1372	48	4		4	CNR1	6	88854349	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	462952	88854349	82260718	515	7324											
BACH2	60468	broad.mit.edu	37	chr6	90660960	90660960	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagacaggcagagcgtgaTgctctcttcctcattctctt	7	13	8	13	1	3	3	1	1	2	2	7	3	5	3	2	1	2	2	2	1	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:90660960T>C	uc011eab.1	-	7	1674	c.865A>G	c.(865-867)ATC>GTC	p.I289V	BACH2_uc003pnw.2_Missense_Mutation_p.I289V|BACH2_uc010kch.2_Missense_Mutation_p.I289V	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	289						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		CAGAGCGTGATGCTCTCTTCC	0.602													8	56					0	0	0.008291	0	0		C	90660960	C	C	90660960	3	2	8	1	0	0	0	0	1	0	0	0	1285	1464	51	3	1672	3	BACH2	6	90660960	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1806611	90660960	80454107	516	7325											
MAP3K7	6885	broad.mit.edu	37	chr6	91257878	91257878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttactcgtatttgtagaaGcaatgtccatgaatgagcct	11	14	9	7	1	0	3	0	2	0	1	2	3	1	3	2	0	3	4	2	0	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:91257878G>A	uc003pnz.1	-	10	1130	c.968C>T	c.(967-969)GCT>GTT	p.A323V	MAP3K7_uc003poa.1_Missense_Mutation_p.A323V|MAP3K7_uc003pob.1_Missense_Mutation_p.A323V|MAP3K7_uc003poc.1_Missense_Mutation_p.A323V	NM_145331	NP_663304	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	323					activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		ATTTGTAGAAGCAATGTCCAT	0.333													7	74					0	0	0.004482	0	0		A	91257878	A	A	91257878	3	1	8	1	0	0	0	0	1	0	0	0	9273	971	34	2	884	2	MAP3K7	6	91257878	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	596918	91257878	79857189	517	7326											
PRDM13	59336	broad.mit.edu	37	chr6	100062101	100062101	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcacaatcagcagctgtcCgagatggctgccgggaaggg	10	6	15	10	2	1	1	1	0	0	1	2	3	2	2	2	3	4	4	2	3	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:100062101C>T	uc003pqg.1	+	4	1851	c.1590C>T	c.(1588-1590)TCC>TCT	p.S530S		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	530					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		AGCAGCTGTCCGAGATGGCTG	0.527													3	11					0	0	0.009096	0	0		T	100062101	T	T	100062101	2	4	8	1	0	0	0	0	0	0	0	1	12476	639	23	1		1	PRDM13	6	100062101	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8804223	100062101	71052966	518	7327											
SIM1	6492	broad.mit.edu	37	chr6	100897523	100897523	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcaccgccgtcatctcgTcgtggtctgccgggtgaatg	5	10	14	12	5	3	2	1	2	2	0	5	2	3	2	3	2	2	1	3	2	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:100897523T>C	uc003pqj.3	-	4	608	c.401A>G	c.(400-402)GAC>GGC	p.D134G	SIM1_uc010kcu.2_Missense_Mutation_p.D134G	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	134	PAS 1.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		CGTCATCTCGTCGTGGTCTGC	0.592													4	30					0	0	0.000602	0	0		C	100897523	C	C	100897523	3	2	8	1	0	0	0	0	1	0	0	0	14348	1667	58	3	1931	3	SIM1	6	100897523	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	835422	100897523	70217544	519	7328											
ARMC2	84071	broad.mit.edu	37	chr6	109274297	109274297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaaaaataaccaggctcGtgaacaattttccaaagaga	18	7	8	8	1	0	2	0	1	0	1	2	3	1	2	2	2	2	2	2	2	7	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:109274297G>A	uc003pss.3	+	13	1832	c.1658G>A	c.(1657-1659)CGT>CAT	p.R553H	ARMC2_uc011eao.1_Missense_Mutation_p.R388H	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	553	ARM 7.						binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)		AACCAGGCTCGTGAACAATTT	0.458													4	24					0	0	0.000602	0	0		A	109274297	A	A	109274297	3	1	8	1	0	0	0	0	1	0	0	0	952	1145	40	1	1704	1	ARMC2	6	109274297	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	8376774	109274297	61840770	520	7329											
DDO	8528	broad.mit.edu	37	chr6	110736691	110736691	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctctgaaaaagcagtctTggaagccaccaaaatctctg	13	10	8	10	0	3	1	0	1	3	0	5	2	3	2	2	1	2	1	2	1	5	1	rs151067781	by1000genomes	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:110736691T>C	uc003puc.2	-	1	63	c.59A>G	c.(58-60)CAA>CGA	p.Q20R	DDO_uc003pud.2_Missense_Mutation_p.Q20R	NM_003649	NP_003640	Q99489	OXDD_HUMAN	D-aspartate oxidase isoform a	Error:Variant_position_missing_in_Q99489_after_alignment					aspartate catabolic process	peroxisome	binding|D-amino-acid oxidase activity|D-aspartate oxidase activity			ovary(2)|breast(1)	3		all_cancers(87;3.47e-21)|all_epithelial(87;9.03e-20)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_lung(197;2.98e-05)|Lung NSC(302;3.25e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.00327)		all cancers(137;2.54e-48)|Epithelial(106;3.11e-44)|OV - Ovarian serous cystadenocarcinoma(136;2.08e-24)|BRCA - Breast invasive adenocarcinoma(108;0.000141)|GBM - Glioblastoma multiforme(226;0.00046)		AAAGCAGTCTTGGAAGCCACC	0.502													10	54					0	0	0.013537	0	0		C	110736691	C	C	110736691	3	2	8	1	0	0	0	0	1	0	0	0	4337	1812	63	3	1070	3	DDO	6	110736691	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1462394	110736691	60378376	521	7330											
TUBE1	51175	broad.mit.edu	37	chr6	112397615	112397615	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaggttatgacatcatcCtcaccagaaggataaatgga	14	9	11	7	0	2	3	2	2	0	1	3	5	3	5	2	4	0	1	2	4	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:112397615C>A	uc003pvq.2	-	7	660	c.546G>T	c.(544-546)GAG>GAT	p.E182D	TUBE1_uc003pvr.2_Missense_Mutation_p.E107D	NM_016262	NP_057346	Q9UJT0	TBE_HUMAN	tubulin, epsilon 1	182					centrosome cycle|microtubule-based movement|protein polymerization	microtubule|pericentriolar material	GTP binding|GTPase activity|structural constituent of cytoskeleton			ovary(1)	1		all_cancers(87;0.0101)|all_hematologic(75;0.000258)|Colorectal(196;0.0466)|all_epithelial(87;0.1)		all cancers(137;0.0217)|OV - Ovarian serous cystadenocarcinoma(136;0.0613)|Epithelial(106;0.0636)|GBM - Glioblastoma multiforme(226;0.0972)|BRCA - Breast invasive adenocarcinoma(108;0.246)		TGACATCATCCTCACCAGAAG	0.398													10	67					0.00621372	0.00649651	0.006214	1	0		A	112397615	A	A	112397615	3	1	8	1	0	0	0	0	1	0	0	0	16789	680	24	5	905	5	TUBE1	6	112397615	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1660924	112397615	58717452	522	7331											
LAMA4	3910	broad.mit.edu	37	chr6	112430768	112430768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtttgctgggggccaagcGtggtgtcagtagagattctg	6	11	18	6	1	2	1	1	0	1	1	2	2	2	1	1	4	2	3	1	4	2	3	rs145897390	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:112430768G>A	uc003pvu.2	-	39	5653	c.5344C>T	c.(5344-5346)CGC>TGC	p.R1782C	LAMA4_uc003pvv.2_Missense_Mutation_p.R1775C|LAMA4_uc003pvt.2_Missense_Mutation_p.R1775C	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1782	Laminin G-like 5.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		GGGGCCAAGCGTGGTGTCAGT	0.463													10	30					0	0	0.010729	0	0		A	112430768	A	A	112430768	3	1	8	1	0	0	0	0	1	0	0	0	8624	1145	40	1	131	1	LAMA4	6	112430768	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	33153	112430768	58684299	523	7332											
RSPH4A	345895	broad.mit.edu	37	chr6	116938220	116938220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctcatcacacaagccagtCagaaggaaacacctttcaac	15	7	5	14	0	4	1	4	0	0	1	5	2	5	2	3	1	3	0	3	1	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:116938220C>T	uc003pxe.2	+	1	579	c.434C>T	c.(433-435)TCA>TTA	p.S145L	RSPH4A_uc010kee.2_Missense_Mutation_p.S145L	NM_001010892	NP_001010892	Q5TD94	RSH4A_HUMAN	radial spoke head 4 homolog A isoform 1	145					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton|radial spoke					0						ACAAGCCAGTCAGAAGGAAAC	0.463									Kartagener_syndrome				19	77					0	0	0.012319	0	0		T	116938220	T	T	116938220	3	4	8	1	0	0	0	0	1	0	0	0	13731	838	29	4	436	4	RSPH4A	6	116938220	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4507452	116938220	54176847	524	7333											
CLVS2	134829	broad.mit.edu	37	chr6	123369846	123369846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccctgtacaccgtgatccGgcctttcctgaaggagaaaa	10	9	10	12	2	0	3	0	2	0	1	2	4	2	3	5	2	2	1	5	2	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:123369846G>A	uc003pzi.1	+	4	1513	c.644G>A	c.(643-645)CGG>CAG	p.R215Q		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	215	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						ACCGTGATCCGGCCTTTCCTG	0.393													34	77					0	0	0.004878	0	0		A	123369846	A	A	123369846	3	1	8	1	0	0	0	0	1	0	0	0	3575	1116	39	1	654	1	CLVS2	6	123369846	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	6431626	123369846	47745221	525	7334											
PTPRK	5796	broad.mit.edu	37	chr6	128297831	128297831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgcatatcctaaaaatccGgttgatcacatcacagtcca	14	11	5	11	1	2	1	2	1	0	0	5	1	5	1	3	1	1	2	3	1	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:128297831G>A	uc003qbk.2	-	27	4304	c.3937C>T	c.(3937-3939)CGG>TGG	p.R1313W	PTPRK_uc003qbj.2_Missense_Mutation_p.R1314W|PTPRK_uc010kfc.2_Missense_Mutation_p.R1320W|PTPRK_uc011ebu.1_Missense_Mutation_p.R1336W	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	1313	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		CTAAAAATCCGGTTGATCACA	0.428													7	36					0	0	0.00308	0	0		A	128297831	A	A	128297831	3	1	8	1	0	0	0	0	1	0	0	0	12830	1115	39	1	398	1	PTPRK	6	128297831	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4927985	128297831	42817236	526	7335											
TMEM200A	114801	broad.mit.edu	37	chr6	130762848	130762848	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttggatcggaacaacagCaagggatatatgaaactaga	17	7	12	5	1	0	2	0	1	0	1	1	5	0	5	0	4	4	2	0	4	7	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:130762848C>T	uc003qca.2	+	3	2152	c.1281C>T	c.(1279-1281)AGC>AGT	p.S427S	TMEM200A_uc010kfh.2_Silent_p.S427S|TMEM200A_uc010kfi.2_Silent_p.S427S|TMEM200A_uc003qcb.2_Silent_p.S427S	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	427	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		GGAACAACAGCAAGGGATATA	0.468													21	81					0	0	0.012319	0	0		T	130762848	T	T	130762848	2	4	8	1	0	0	0	0	0	0	0	1	16148	709	25	2		2	TMEM200A	6	130762848	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2465017	130762848	40352219	527	7336											
EYA4	2070	broad.mit.edu	37	chr6	133783564	133783564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggatgcagcagccagccGtctacacagcctactcacag	10	5	11	15	2	2	0	1	0	1	0	2	1	2	1	3	2	7	2	3	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:133783564G>A	uc003qec.3	+	8	987	c.529G>A	c.(529-531)GTC>ATC	p.V177I	EYA4_uc011ecq.1_Missense_Mutation_p.V123I|EYA4_uc011ecr.1_Missense_Mutation_p.V123I|EYA4_uc003qed.3_Missense_Mutation_p.V177I|EYA4_uc003qee.3_Missense_Mutation_p.V154I|EYA4_uc011ecs.1_Missense_Mutation_p.V177I|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	177					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		GCAGCCAGCCGTCTACACAGC	0.488													20	52					0	0	0.003954	0	0		A	133783564	A	A	133783564	3	1	8	1	0	0	0	0	1	0	0	0	5339	1145	40	1	555	1	EYA4	6	133783564	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3020716	133783564	37331503	528	7337											
KIAA1244	57221	broad.mit.edu	37	chr6	138645253	138645253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtcctcctccccaagtgccGaggccgagtactggcgcatc	6	7	11	17	4	0	0	0	0	0	0	4	2	3	0	6	2	2	2	6	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:138645253G>A	uc003qhu.2	+	31	4963	c.4963G>A	c.(4963-4965)GAG>AAG	p.E1655K		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1655					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CCCAAGTGCCGAGGCCGAGTA	0.647													4	18					0	0	0.009096	0	0		A	138645253	A	A	138645253	3	1	8	1	0	0	0	0	1	0	0	0	8233	1059	37	1	5085	1	KIAA1244	6	138645253	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4861689	138645253	32469814	529	7338											
HECA	51696	broad.mit.edu	37	chr6	139488112	139488112	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtgttcagaaatgcccaCtttgattacagccctgcggg	9	11	10	11	1	1	2	1	1	0	1	1	2	1	2	2	1	4	1	2	1	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:139488112C>T	uc003qin.2	+	2	1248	c.963C>T	c.(961-963)CAC>CAT	p.H321H		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	321					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		GAAATGCCCACTTTGATTACA	0.597													7	45					0	0	0.001984	0	0		T	139488112	T	T	139488112	2	4	8	1	0	0	0	0	0	0	0	1	7054	564	20	4		4	HECA	6	139488112	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	842859	139488112	31626955	530	7339											
TXLNB	167838	broad.mit.edu	37	chr6	139591652	139591652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actctccaatttgcttcgagCgaggatagctctgctgtgtt	7	14	10	10	2	2	0	0	0	2	0	4	3	2	1	1	1	4	4	1	1	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:139591652C>T	uc011eds.1	-	4	793	c.628G>A	c.(628-630)GCT>ACT	p.A210T		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	210	Potential.					cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		TTGCTTCGAGCGAGGATAGCT	0.438													12	50					0	0	0.004007	0	0		T	139591652	T	T	139591652	3	4	8	1	0	0	0	0	1	0	0	0	16814	768	27	1	1454	1	TXLNB	6	139591652	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	103540	139591652	31523415	531	7340											
HIVEP2	3097	broad.mit.edu	37	chr6	143093401	143093401	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggggctttatcctgtgtGcaagccacaagttcggctga	9	10	13	9	1	0	1	0	1	0	0	2	2	1	1	2	3	2	4	2	3	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:143093401G>A	uc003qjd.2	-	5	3218	c.2475C>T	c.(2473-2475)TGC>TGT	p.C825C		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	825					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		TATCCTGTGTGCAAGCCACAA	0.512													7	40					0	0	0.006214	0	0		A	143093401	A	A	143093401	2	1	8	1	0	0	0	0	0	0	0	1	7203	1311	46	2		2	HIVEP2	6	143093401	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3501749	143093401	28021666	532	7341											
STX11	8676	broad.mit.edu	37	chr6	144507854	144507854	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgagtttgactcgccccaCgaggacatcgtgttcgagac	9	9	12	11	4	0	3	0	2	0	1	3	7	0	4	2	1	0	2	2	1	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:144507854C>T	uc003qks.3	+	2	282	c.90C>T	c.(88-90)CAC>CAT	p.H30H		NM_003764	NP_003755	O75558	STX11_HUMAN	syntaxin 11	30					cellular membrane fusion|intracellular protein transport|vesicle-mediated transport	Golgi apparatus|membrane	SNAP receptor activity			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(155;2.17e-06)|GBM - Glioblastoma multiforme(68;0.0492)		ACTCGCCCCACGAGGACATCG	0.552									Familial_Hemophagocytic_Lymphohistiocytosis				6	44					0	0	0.00308	0	0		T	144507854	T	T	144507854	2	4	8	1	0	0	0	0	0	0	0	1	15362	535	19	1		1	STX11	6	144507854	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1414453	144507854	26607213	533	7342											
FBXO30	84085	broad.mit.edu	37	chr6	146127423	146127423	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctttacaagaatggaaaActgcaccacaaaccaatgga	18	6	7	10	0	0	1	0	0	0	1	0	3	0	3	2	2	5	2	2	2	7	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:146127423A>G	uc003qla.2	-	2	318	c.119T>C	c.(118-120)GTT>GCT	p.V40A	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	40							ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		AGAATGGAAAACTGCACCACA	0.448													16	100					0	0	0.003163	0	0		G	146127423	G	G	146127423	3	3	8	1	0	0	0	0	1	0	0	0	5754	43	2	3	2126	3	FBXO30	6	146127423	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1619569	146127423	24987644	534	7343											
SHPRH	257218	broad.mit.edu	37	chr6	146247425	146247425	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcaagttatgggtagcaTgaagtctctacaaacatatc	14	11	7	9	0	2	1	1	1	1	0	4	1	2	1	1	1	3	3	1	1	7	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:146247425T>C	uc003qlf.2	-	16	3608	c.3209A>G	c.(3208-3210)CAT>CGT	p.H1070R	SHPRH_uc003qld.2_Missense_Mutation_p.H1079R|SHPRH_uc003qle.2_Missense_Mutation_p.H1079R|SHPRH_uc003qlg.1_Missense_Mutation_p.H626R|SHPRH_uc003qlh.2_5'UTR|SHPRH_uc003qli.1_5'UTR	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	1070					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		ATGGGTAGCATGAAGTCTCTA	0.413													12	68					0	0	0.00499	0	0		C	146247425	C	C	146247425	3	2	8	1	0	0	0	0	1	0	0	0	14316	1464	51	3	1919	3	SHPRH	6	146247425	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	120002	146247425	24867642	535	7344											
STXBP5	134957	broad.mit.edu	37	chr6	147704088	147704088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgatctggaagaaagaactgCggccatgttatcaagtgcag	13	8	12	8	2	2	2	1	0	1	2	2	4	2	3	1	2	3	2	1	2	5	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:147704088C>T	uc003qlz.2	+	27	3529	c.3368C>T	c.(3367-3369)GCG>GTG	p.A1123V	STXBP5_uc010khz.1_Missense_Mutation_p.A1087V|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Missense_Mutation_p.A778V	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	1123	v-SNARE coiled-coil homology.				exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		GAAAGAACTGCGGCCATGTTA	0.448													18	85					0	0	0.006122	0	0		T	147704088	T	T	147704088	3	4	8	1	0	0	0	0	1	0	0	0	15381	768	27	1	3474	1	STXBP5	6	147704088	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1456663	147704088	23410979	536	7345											
PLEKHG1	57480	broad.mit.edu	37	chr6	151161754	151161754	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagatgagtcggagttggagCtatctcacaatcgtagaagg	13	9	13	6	2	1	3	1	1	1	2	4	5	1	5	0	3	1	3	0	3	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:151161754C>T	uc003qny.1	+	17	4192	c.3880C>T	c.(3880-3882)CTA>TTA	p.L1294L	PLEKHG1_uc011eem.1_Silent_p.L1353L	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	1294					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		GGAGTTGGAGCTATCTCACAA	0.388													18	84					0	0	0.012319	0	0		T	151161754	T	T	151161754	2	4	8	1	0	0	0	0	0	0	0	1	12087	796	28	2		2	PLEKHG1	6	151161754	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3457666	151161754	19953313	537	7346											
MTHFD1L	25902	broad.mit.edu	37	chr6	151334921	151334921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctccttatttcaggtaacgGctggtgttcctcttaagaaa	9	15	8	9	1	3	1	1	0	2	1	5	1	4	1	2	3	1	3	2	3	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:151334921G>A	uc003qob.2	+	22	2540	c.2272G>A	c.(2272-2274)GCT>ACT	p.A758T	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Missense_Mutation_p.A759T|MTHFD1L_uc003qoc.2_Missense_Mutation_p.A706T	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	758	Formyltetrahydrofolate synthetase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		TCAGGTAACGGCTGGTGTTCC	0.353													9	14					0	0	0.006214	0	0		A	151334921	A	A	151334921	3	1	8	1	0	0	0	0	1	0	0	0	9946	1203	42	2	2358	2	MTHFD1L	6	151334921	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	173167	151334921	19780146	538	7347											
ARID1B	57492	broad.mit.edu	37	chr6	157405929	157405929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgcctttctccccacatgCgtcccctcatctctccagca	5	11	5	20	2	3	0	1	0	2	0	8	0	5	0	6	0	2	1	6	0	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:157405929C>T	uc003qqn.2	+	5	2110	c.1958C>T	c.(1957-1959)GCG>GTG	p.A653V	ARID1B_uc003qqo.2_Missense_Mutation_p.A666V|ARID1B_uc003qqp.2_Missense_Mutation_p.A653V|ARID1B_uc003qqq.1_Missense_Mutation_p.A95V	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	711	Ser-rich.				chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TCCCCACATGCGTCCCCTCAT	0.612													10	54					0	0	0.008291	0	0		T	157405929	T	T	157405929	3	4	8	1	0	0	0	0	1	0	0	0	914	768	27	1	2193	1	ARID1B	6	157405929	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6071008	157405929	13709138	539	7348											
SYNJ2	8871	broad.mit.edu	37	chr6	158490659	158490659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcggcacagctggtgggcGtctgtctttatatctttgta	5	16	11	9	2	3	0	0	0	3	0	4	0	3	0	0	3	1	3	0	3	3	6	rs144180367	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:158490659G>A	uc003qqx.1	+	14	1969	c.1894G>A	c.(1894-1896)GTC>ATC	p.V632I	SYNJ2_uc003qqw.1_Missense_Mutation_p.V632I|SYNJ2_uc003qqy.1_Missense_Mutation_p.V345I|SYNJ2_uc003qqz.1_Missense_Mutation_p.V249I|SYNJ2_uc003qra.1_5'Flank	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	632	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		GCTGGTGGGCGTCTGTCTTTA	0.453													16	49					0	0	0.00499	0	0		A	158490659	A	A	158490659	3	1	8	1	0	0	0	0	1	0	0	0	15478	1145	40	1	1948	1	SYNJ2	6	158490659	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1084730	158490659	12624408	540	7349											
TULP4	56995	broad.mit.edu	37	chr6	158834180	158834180	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atattcgtgtggattcagtaCgagggcaggtggtctgtgga	8	12	16	5	2	2	0	1	0	1	0	3	3	2	2	0	5	1	2	0	5	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:158834180C>T	uc003qrf.2	+	2	1693	c.336C>T	c.(334-336)TAC>TAT	p.Y112Y	TULP4_uc011efo.1_Silent_p.Y112Y|TULP4_uc003qrg.2_Silent_p.Y112Y	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	112	WD 1.				intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		GGATTCAGTACGAGGGCAGGT	0.612													6	30					0	0	0.001984	0	0		T	158834180	T	T	158834180	2	4	8	1	0	0	0	0	0	0	0	1	16802	547	19	1		1	TULP4	6	158834180	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	343521	158834180	12280887	541	7350											
TULP4	56995	broad.mit.edu	37	chr6	158923412	158923412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgccggccccgcacccGgatgctgtgctcccagaaca	6	6	13	16	3	0	1	0	0	0	1	1	2	1	2	5	3	4	3	5	3	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:158923412G>A	uc003qrf.2	+	13	4074	c.2717G>A	c.(2716-2718)CGG>CAG	p.R906Q	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	906					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CCCCGCACCCGGATGCTGTGC	0.652													14	39					0	0	0.003163	0	0		A	158923412	A	A	158923412	3	1	8	1	0	0	0	0	1	0	0	0	16802	1116	39	1	2767	1	TULP4	6	158923412	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	89232	158923412	12191655	542	7351											
PNLDC1	154197	broad.mit.edu	37	chr6	160227084	160227084	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctggagctggccaaggaAggcgactggatgactcttcc	8	8	15	10	1	1	1	0	1	1	0	2	5	2	4	2	6	1	2	2	6	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:160227084A>G	uc003qsx.1	+	7	669	c.498A>G	c.(496-498)GAA>GAG	p.E166E	PNLDC1_uc003qsy.1_Silent_p.E177E	NM_173516	NP_775787	Q8NA58	PNDC1_HUMAN	poly(A)-specific ribonuclease (PARN)-like domain	166	Cytoplasmic (Potential).					integral to membrane|nucleus	nucleic acid binding				0		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;1.55e-18)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		TGGCCAAGGAAGGCGACTGGA	0.562													14	31					0	0	0.001855	0	0		G	160227084	G	G	160227084	2	3	8	1	0	0	0	0	0	0	0	1	12167	69	3	3		3	PNLDC1	6	160227084	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1303672	160227084	10887983	543	7352											
AGPAT4	56895	broad.mit.edu	37	chr6	161560485	161560485	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgaggatgaagctggccagCgtcagggaagacccgctcct	10	5	14	12	3	1	2	1	1	0	1	2	5	2	4	3	3	2	2	3	3	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:161560485C>T	uc003qtr.1	-	8	1238	c.1011G>A	c.(1009-1011)ACG>ACA	p.T337T	AGPAT4_uc003qts.1_Silent_p.T197T|AGPAT4_uc011egb.1_Silent_p.T175T	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	337					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		AGCTGGCCAGCGTCAGGGAAG	0.622													6	58					0	0	0.001168	0	0		T	161560485	T	T	161560485	2	4	8	1	0	0	0	0	0	0	0	1	389	755	27	1		1	AGPAT4	6	161560485	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1333401	161560485	9554582	544	7353											
AGPAT4	56895	broad.mit.edu	37	chr6	161587387	161587387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccatacttgaggtaggCgcgcgggtccgtgaagatgg	7	9	15	10	4	0	3	0	2	0	1	2	3	2	3	2	4	1	1	2	4	3	4	rs115923077	by1000genomes	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:161587387C>T	uc003qtr.1	-	3	468	c.241G>A	c.(241-243)GCC>ACC	p.A81T	AGPAT4_uc003qts.1_Intron|AGPAT4_uc011egb.1_Intron|AGPAT4_uc003qtt.1_RNA|AGPAT4_uc011egc.1_Missense_Mutation_p.A81T|AGPAT4_uc011egd.1_Missense_Mutation_p.A19T|AGPAT4_uc011ege.1_Intron	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	81					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		TTGAGGTAGGCGCGCGGGTCC	0.527													6	31					0	0	0.001168	0	0		T	161587387	T	T	161587387	3	4	8	1	0	0	0	0	1	0	0	0	389	768	27	1	923	1	AGPAT4	6	161587387	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	26902	161587387	9527680	545	7354											
UNC93A	54346	broad.mit.edu	37	chr6	167721271	167721271	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctctgcacccccaggcgcGgtgacccacgtgtcctgcat	5	7	10	19	3	1	1	0	1	1	0	2	1	2	1	5	2	2	2	5	2	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:167721271G>A	uc003qvq.2	+	7	1156	c.981G>A	c.(979-981)GCG>GCA	p.A327A	UNC93A_uc003qvr.2_Silent_p.A285A	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	327	Helical; (Potential).					integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CCCCAGGCGCGGTGACCCACG	0.627													11	43					0	0	0.00499	0	0		A	167721271	A	A	167721271	2	1	8	1	0	0	0	0	0	0	0	1	17022	1103	39	1		1	UNC93A	6	167721271	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	6133884	167721271	3393796	546	7355											
MLLT4	4301	broad.mit.edu	37	chr6	168315892	168315892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccatgtccttgctacgaCgctgcagagtcaatgccgcc	8	8	11	14	3	1	1	1	0	0	1	2	3	2	1	4	0	5	3	4	0	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:168315892C>T	uc003qwd.2	+	18	2462	c.2320C>T	c.(2320-2322)CGC>TGC	p.R774C	MLLT4_uc003qwb.1_Missense_Mutation_p.R759C|MLLT4_uc003qwc.1_Missense_Mutation_p.R775C|MLLT4_uc003qwg.1_Missense_Mutation_p.R84C	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	775	Dilute.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		CTTGCTACGACGCTGCAGAGT	0.527			T	MLL	AL								13	62					0	0	0.003163	0	0		T	168315892	T	T	168315892	3	4	8	1	0	0	0	0	1	0	0	0	9647	536	19	1	2393	1	MLLT4	6	168315892	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	594621	168315892	2799175	547	7356											
THBS2	7058	broad.mit.edu	37	chr6	169648753	169648753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtaggtgagatccagcGtgtccgcggggccgttggag	6	8	17	10	4	0	1	0	1	0	1	3	3	3	2	4	4	1	2	4	4	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr6:169648753G>A	uc003qwt.2	-	4	616	c.368C>T	c.(367-369)ACG>ATG	p.T123M		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	123	TSP N-terminal.|Heparin-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		GAGATCCAGCGTGTCCGCGGG	0.652													4	20					0	0	0.009096	0	0		A	169648753	A	A	169648753	3	1	8	1	0	0	0	0	1	0	0	0	15879	1145	40	1	3230	1	THBS2	6	169648753	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1332861	169648753	1466314	548	7357											
ADAP1	11033	broad.mit.edu	37	chr7	939112	939112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggtgaaccagcgcttccGgaagccttccgtttgctgtg	6	11	12	12	3	0	1	0	1	0	0	2	2	2	2	4	2	4	3	4	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:939112G>A	uc003sjo.3	-	9	987	c.811C>T	c.(811-813)CGG>TGG	p.R271W	ADAP1_uc003sjm.3_Missense_Mutation_p.R97W|ADAP1_uc011jvs.1_Missense_Mutation_p.R176W|ADAP1_uc003sjn.3_Missense_Mutation_p.R199W|ADAP1_uc010ksc.2_Missense_Mutation_p.R199W	NM_006869	NP_006860	O75689	ADAP1_HUMAN	centaurin, alpha 1	271	PH 2.				cell surface receptor linked signaling pathway|regulation of ARF GTPase activity	cytoplasm|nucleus|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|protein binding|zinc ion binding			upper_aerodigestive_tract(1)	1						CAGCGCTTCCGGAAGCCTTCC	0.652													5	13					0	0	0.001984	0	0		A	939112	A	A	939112	3	1	8	1	0	0	0	0	1	0	0	0	279	1115	39	1	325	1	ADAP1	7	939112	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08		939112	158199551	549	7358											
ZDHHC4	55146	broad.mit.edu	37	chr7	6620233	6620233	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttctacctggcttcggTgctgatgggtcttgttctta	3	18	11	9	1	3	1	0	1	3	0	4	1	3	1	1	3	2	4	1	3	2	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:6620233T>C	uc003sqi.2	+	4	399	c.41T>C	c.(40-42)GTG>GCG	p.V14A	ZDHHC4_uc003sqg.2_Missense_Mutation_p.V14A|ZDHHC4_uc003sql.2_Missense_Mutation_p.V14A|ZDHHC4_uc003sqh.2_Missense_Mutation_p.V14A|ZDHHC4_uc003sqj.2_Missense_Mutation_p.V14A|ZDHHC4_uc003sqk.2_Missense_Mutation_p.V14A|ZDHHC4_uc003sqm.2_Missense_Mutation_p.V14A	NM_001134388	NP_001127860	Q9NPG8	ZDHC4_HUMAN	zinc finger, DHHC-type containing 4	14	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			breast(1)|pancreas(1)	2		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.1)		CTGGCTTCGGTGCTGATGGGT	0.498													21	131					0	0	0.010504	0	0		C	6620233	C	C	6620233	3	2	8	1	0	0	0	0	1	0	0	0	17642	1696	59	3	43	3	ZDHHC4	7	6620233	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	5681121	6620233	152518430	550	7359											
ZNF12	7559	broad.mit.edu	37	chr7	6731401	6731401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattaagtgctgacttctgcGagaaggttttcccacagtca	10	12	9	10	1	2	2	1	1	1	1	3	3	3	2	1	1	2	2	1	1	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:6731401G>A	uc003sqt.1	-	5	1726	c.1172C>T	c.(1171-1173)TCG>TTG	p.S391L	ZNF12_uc011jxa.1_Missense_Mutation_p.S229L|ZNF12_uc003sqs.1_Missense_Mutation_p.S353L	NM_016265	NP_057349	P17014	ZNF12_HUMAN	zinc finger protein 12 isoform a	391	C2H2-type 5.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0231)		TGACTTCTGCGAGAAGGTTTT	0.438													13	51					0	0	0.001855	0	0		A	6731401	A	A	6731401	3	1	8	1	0	0	0	0	1	0	0	0	17743	1059	37	1	925	1	ZNF12	7	6731401	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	111168	6731401	152407262	551	7360											
TMEM195	392636	broad.mit.edu	37	chr7	15458233	15458233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgaattgaagatgaacagCatatactgaagggggtatga	16	10	12	3	0	0	6	0	5	0	1	0	6	0	6	0	2	3	2	0	2	7	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:15458233C>T	uc003stb.1	-	5	729	c.559G>A	c.(559-561)GCT>ACT	p.A187T		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	187					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						AGATGAACAGCATATACTGAA	0.313													4	38					0	0	0.009096	0	0		T	15458233	T	T	15458233	3	4	8	1	0	0	0	0	1	0	0	0	16142	710	25	2	814	2	TMEM195	7	15458233	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8726832	15458233	143680430	552	7361											
MPP6	51678	broad.mit.edu	37	chr7	24681374	24681374	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccaaactagaagctgtcAgtgacaataacttggaatta	16	11	7	7	0	1	2	1	1	0	1	2	3	2	3	1	1	3	1	1	1	7	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:24681374A>G	uc003swx.2	+	4	456	c.157A>G	c.(157-159)AGT>GGT	p.S53G	MPP6_uc003swy.2_Missense_Mutation_p.S53G	NM_016447	NP_057531	Q9NZW5	MPP6_HUMAN	membrane protein, palmitoylated 6	53	L27 2.				protein complex assembly		protein binding				0						AGAAGCTGTCAGTGACAATAA	0.343													7	82					0	0	0.001984	0	0		G	24681374	G	G	24681374	3	3	8	1	0	0	0	0	1	0	0	0	9756	188	7	3	163	3	MPP6	7	24681374	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	9223141	24681374	134457289	553	7362											
CCDC129	223075	broad.mit.edu	37	chr7	31592688	31592688	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccttcaggaaggccaggAaaagagcaagagagagatcc	17	3	12	9	0	1	3	1	0	0	3	2	7	2	5	3	3	2	1	3	3	5	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:31592688A>G	uc003tcj.1	+	2	1043	c.50A>G	c.(49-51)GAA>GGA	p.E17G	CCDC129_uc011kad.1_Missense_Mutation_p.E27G|CCDC129_uc003tci.1_Missense_Mutation_p.E16G|CCDC129_uc011kae.1_Missense_Mutation_p.E43G|CCDC129_uc003tck.1_5'Flank	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	17											0						GAAGGCCAGGAAAAGAGCAAG	0.498													8	33					0	0	0.008291	0	0		G	31592688	G	G	31592688	3	3	8	1	0	0	0	0	1	0	0	0	2767	246	9	3	52	3	CCDC129	7	31592688	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	6911314	31592688	127545975	554	7363											
PDE1C	5137	broad.mit.edu	37	chr7	32109997	32109997	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaatctccttggttggCgactccatagctgcaggtag	7	13	10	11	1	3	0	1	0	2	0	5	1	4	0	2	3	2	4	2	3	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:32109997C>T	uc003tcm.1	-	1	478	c.9G>A	c.(7-9)TCG>TCA	p.S3S	PDE1C_uc003tcn.1_Silent_p.S3S|PDE1C_uc003tco.1_Intron|PDE1C_uc003tcr.2_Silent_p.S3S|PDE1C_uc003tcs.2_Silent_p.S3S	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	3					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			CCTTGGTTGGCGACTCCATAG	0.562													21	58					0	0	0.008871	0	0		T	32109997	T	T	32109997	2	4	8	1	0	0	0	0	0	0	0	1	11654	755	27	1		1	PDE1C	7	32109997	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	517309	32109997	127028666	555	7364											
AVL9	23080	broad.mit.edu	37	chr7	33078502	33078502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacatcaagtgtagaagaCgtgttcaaaaatagaaaata	21	8	7	5	1	2	3	2	0	0	3	2	3	2	3	0	0	1	2	0	0	10	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:33078502C>T	uc011kai.1	+	12	1524	c.1378C>T	c.(1378-1380)CGT>TGT	p.R460C	NT5C3_uc003tdi.2_Intron|NT5C3_uc003tdj.2_Intron|NT5C3_uc003tdk.2_Intron|uc003tdl.1_5'Flank	NM_015060	NP_055875	Q8NBF6	AVL9_HUMAN	AVL9 homolog (S. cerevisiase)	Error:Variant_position_missing_in_Q8NBF6_after_alignment						integral to membrane					0						GTGTAGAAGACGTGTTCAAAA	0.358													4	7					0	0	0.000602	0	0		T	33078502	T	T	33078502	3	4	8	1	0	0	0	0	1	0	0	0	1229	551	19	1		1	AVL9	7	33078502	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	968505	33078502	126060161	556	7365											
BBS9	27241	broad.mit.edu	37	chr7	33427709	33427709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcaaagataaaactcctGcccctcttcaacacctggac	13	9	5	14	0	3	1	2	0	1	1	4	3	4	2	4	1	3	0	4	1	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:33427709G>A	uc003tdn.1	+	19	2581	c.2068G>A	c.(2068-2070)GCC>ACC	p.A690T	BBS9_uc003tdo.1_Missense_Mutation_p.A655T|BBS9_uc003tdp.1_Missense_Mutation_p.A685T|BBS9_uc003tdq.1_Missense_Mutation_p.A650T|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Missense_Mutation_p.A214T|BBS9_uc003tds.1_Missense_Mutation_p.A113T|BBS9_uc003tdt.2_RNA	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	690					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			TAAAACTCCTGCCCCTCTTCA	0.393									Bardet-Biedl_syndrome				19	156					0	0	0.012319	0	0		A	33427709	A	A	33427709	3	1	8	1	0	0	0	0	1	0	0	0	1343	1319	46	2	2138	2	BBS9	7	33427709	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	349207	33427709	125710954	557	7366											
ELMO1	9844	broad.mit.edu	37	chr7	37052934	37052934	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcagaagttgccctcatTtccttccatgtcttgttcag	6	17	6	12	0	5	1	3	0	2	1	7	1	7	1	3	0	1	2	3	0	1	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:37052934T>C	uc003tfk.1	-	16	1714	c.1407A>G	c.(1405-1407)GAA>GAG	p.E469E	ELMO1_uc011kbc.1_Silent_p.E373E|ELMO1_uc010kxg.1_Silent_p.E469E	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	469	ELMO.				actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						TTGCCCTCATTTCCTTCCATG	0.517													12	48					0	0	0.010729	0	0		C	37052934	C	C	37052934	2	2	8	1	0	0	0	0	0	0	0	1	5073	1838	64	3		3	ELMO1	7	37052934	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	3625225	37052934	122085729	558	7367											
CDK13	8621	broad.mit.edu	37	chr7	40132832	40132832	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaacctagcactccggtGtcgggtaagtgtgcagatac	10	8	12	11	2	0	2	0	0	0	2	2	2	1	2	3	2	4	3	3	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:40132832G>C	uc003thh.3	+	13	3966	c.3684G>C	c.(3682-3684)GTG>GTC	p.V1228V	CDK13_uc003thi.3_Silent_p.V1168V|CDK13_uc003thj.2_Silent_p.V279V|CDK13_uc003thk.2_Silent_p.V161V	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	1228					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						GCACTCCGGTGTCGGGTAAGT	0.453													11	48					0	0	0.008291	0	0		C	40132832	C	C	40132832	2	2	8	1	0	0	0	0	0	0	0	1	3132	1364	48	5		5	CDK13	7	40132832	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3079898	40132832	119005831	559	7368											
GLI3	2737	broad.mit.edu	37	chr7	42005251	42005251	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgagggcatggaactgctgGccagcgtggctgtctggcag	6	8	17	10	2	1	0	0	0	1	0	2	2	1	1	1	5	3	4	1	5	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:42005251G>T	uc011kbh.1	-	15	3511	c.3420C>A	c.(3418-3420)GGC>GGA	p.G1140G	GLI3_uc011kbg.1_Silent_p.G1081G	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1140					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GGAACTGCTGGCCAGCGTGGC	0.677									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				7	40					0.000274275	0.000291298	0.004482	1	0		T	42005251	T	T	42005251	2	4	8	1	0	0	0	0	0	0	0	1	6454	1190	42	5		5	GLI3	7	42005251	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1872419	42005251	117133412	560	7369											
DDX56	54606	broad.mit.edu	37	chr7	44612618	44612618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtaggaacaagaacaaggCctctcactgcctgttctacc	11	9	9	12	0	2	1	1	0	2	1	3	2	2	2	3	3	4	2	3	3	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:44612618C>T	uc003tlg.2	-	3	897	c.254G>A	c.(253-255)GGC>GAC	p.G85D	DDX56_uc003tle.2_RNA|DDX56_uc003tlf.2_Missense_Mutation_p.G21D|DDX56_uc003tlh.2_RNA|DDX56_uc010kyg.2_Missense_Mutation_p.G85D|DDX56_uc010kyh.1_Intron	NM_019082	NP_061955	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	85	Helicase ATP-binding.				rRNA processing	nucleolus	ATP binding|ATP-dependent RNA helicase activity|identical protein binding|RNA binding			upper_aerodigestive_tract(1)	1						AAGAACAAGGCCTCTCACTGC	0.522													16	104					0	0	0.006122	0	0		T	44612618	T	T	44612618	3	4	8	1	0	0	0	0	1	0	0	0	4377	739	26	2	1437	2	DDX56	7	44612618	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2607367	44612618	114526045	561	7370											
OGDH	4967	broad.mit.edu	37	chr7	44713473	44713473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccggcagaagtttgagaccCctgggatcatgcagttcaca	10	9	11	11	1	2	2	2	1	0	2	3	4	3	3	3	2	1	4	3	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:44713473C>T	uc003tln.2	+	6	830	c.721C>T	c.(721-723)CCT>TCT	p.P241S	OGDH_uc003tlm.2_Missense_Mutation_p.P241S|OGDH_uc011kbx.1_Missense_Mutation_p.P237S|OGDH_uc011kby.1_Intron|OGDH_uc003tlp.2_Missense_Mutation_p.P252S|OGDH_uc011kbz.1_Intron|OGDH_uc003tlo.1_Missense_Mutation_p.P74S	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	241					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	GTTTGAGACCCCTGGGATCAT	0.562													20	83					0	0	0.008871	0	0		T	44713473	T	T	44713473	3	4	8	1	0	0	0	0	1	0	0	0	10858	623	22	4	834	4	OGDH	7	44713473	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	100855	44713473	114425190	562	7371											
IKZF1	10320	broad.mit.edu	37	chr7	50467674	50467674	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagctacgagaaggagaaCgaaatgatgaagtcccacgt	15	5	12	9	3	0	4	0	2	0	2	1	7	1	4	2	1	3	1	2	1	5	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:50467674C>T	uc003tow.3	+	9	1077	c.909C>T	c.(907-909)AAC>AAT	p.N303N	IKZF1_uc003tox.3_Silent_p.N261N|IKZF1_uc003toy.3_Silent_p.N261N|IKZF1_uc011kck.1_Silent_p.N216N|IKZF1_uc003toz.3_Silent_p.N273N|IKZF1_uc010kyx.2_Silent_p.N43N|IKZF1_uc003tpa.3_Silent_p.N45N	NM_006060	NP_006051	Q13422	IKZF1_HUMAN	zinc finger protein, subfamily 1A, 1 (Ikaros)	303					cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding			haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				AGAAGGAGAACGAAATGATGA	0.652			D		ALL								10	27					0	0	0.006214	0	0		T	50467674	T	T	50467674	2	4	8	1	0	0	0	0	0	0	0	1	7630	535	19	1		1	IKZF1	7	50467674	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5754201	50467674	108670989	563	7372											
COBL	23242	broad.mit.edu	37	chr7	51096609	51096609	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcaatcttaatggctccGgtggagagggacacatctct	9	11	11	10	2	3	1	1	0	2	1	6	3	4	2	1	4	0	1	1	4	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:51096609G>A	uc003tpr.3	-	10	2369	c.2184C>T	c.(2182-2184)ACC>ACT	p.T728T	COBL_uc003tps.2_Silent_p.T785T|COBL_uc011kcl.1_Silent_p.T728T|COBL_uc003tpp.3_Silent_p.T514T|COBL_uc003tpq.3_Silent_p.T669T|COBL_uc003tpo.3_Silent_p.T270T	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	728										skin(3)|ovary(2)	5	Glioma(55;0.08)					TAATGGCTCCGGTGGAGAGGG	0.507													7	45					0	0	0.001984	0	0		A	51096609	A	A	51096609	2	1	8	1	0	0	0	0	0	0	0	1	3656	1103	39	1		1	COBL	7	51096609	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	628935	51096609	108042054	564	7373											
ZNF680	340252	broad.mit.edu	37	chr7	63981628	63981628	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtctagtaaggtgtgaggAccggttaaaagctttgccac	11	11	12	7	1	1	1	0	1	1	0	1	2	1	2	2	3	2	3	2	3	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:63981628A>T	uc003tta.2	-	4	1677	c.1504T>A	c.(1504-1506)TCC>ACC	p.S502T	ZNF680_uc010kzr.2_Missense_Mutation_p.S429T	NM_178558	NP_848653	Q8NEM1	ZN680_HUMAN	zinc finger protein 680 isoform 1	502	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.118)|all_lung(88;0.243)				AGGTGTGAGGACCGGTTAAAA	0.348													4	73					0	0	0.009096	0	0		T	63981628	T	T	63981628	3	4	8	1	0	0	0	0	1	0	0	0	18112	275	10	5	92	5	ZNF680	7	63981628	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	12885019	63981628	95157035	565	7374											
VKORC1L1	154807	broad.mit.edu	37	chr7	65419074	65419074	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttacaggcatgacagcaagCgctgtggcggctttgatcct	8	10	12	11	2	0	2	0	2	0	0	1	2	1	2	1	3	3	4	1	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:65419074C>T	uc003tul.2	+	3	420	c.318C>T	c.(316-318)AGC>AGT	p.S106S	VKORC1L1_uc011kds.1_Missense_Mutation_p.R70C|VKORC1L1_uc003tum.1_5'Flank	NM_173517	NP_775788	Q8N0U8	VKORL_HUMAN	vitamin K epoxide reductase complex, subunit	106	Helical; (Potential).					integral to membrane					0		Lung NSC(55;0.197)			Menadione(DB00170)|Warfarin(DB00682)	TGACAGCAAGCGCTGTGGCGG	0.537													5	50					0	0	0.013537	0	0		T	65419074	T	T	65419074	2	4	8	1	0	0	0	0	0	0	0	1	17199	767	27	1		1	VKORC1L1	7	65419074	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1437446	65419074	93719589	566	7375											
TBL2	26608	broad.mit.edu	37	chr7	72988315	72988315	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggcgtggtccagctccacGttggctctcatgctgcggtg	3	11	15	12	3	1	0	1	0	1	0	4	0	3	0	2	4	3	4	2	4	0	1	rs147754612		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:72988315G>A	uc003tyh.2	-	3	533	c.399C>T	c.(397-399)AAC>AAT	p.N133N	TBL2_uc011kex.1_Silent_p.N97N|TBL2_uc010lbg.2_Silent_p.N38N|TBL2_uc003tyi.2_Translation_Start_Site|TBL2_uc011key.1_Silent_p.N4N|TBL2_uc010lbh.2_Silent_p.N38N	NM_012453	NP_036585	Q9Y4P3	TBL2_HUMAN	transducin (beta)-like 2	133											0		Lung NSC(55;0.0659)|all_lung(88;0.152)				CCAGCTCCACGTTGGCTCTCA	0.607													5	39					0	0	0.001168	0	0		A	72988315	A	A	72988315	2	1	8	1	0	0	0	0	0	0	0	1	15667	1136	40	1		1	TBL2	7	72988315	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	7569241	72988315	86150348	567	7376											
CLIP2	7461	broad.mit.edu	37	chr7	73778608	73778608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggaggatctgcagttccGcgtggaggaggagtccatca	8	8	17	8	2	2	0	1	0	1	0	4	5	4	5	2	6	1	2	2	6	0	1	rs140333329		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:73778608G>A	uc003uam.2	+	8	1670	c.1343G>A	c.(1342-1344)CGC>CAC	p.R448H	CLIP2_uc003uan.2_Missense_Mutation_p.R448H	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	448	Potential.					microtubule associated complex				skin(3)	3						CTGCAGTTCCGCGTGGAGGAG	0.607													6	13					0	0	0.001984	0	0		A	73778608	A	A	73778608	3	1	8	1	0	0	0	0	1	0	0	0	3536	1087	38	1	1369	1	CLIP2	7	73778608	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	790293	73778608	85360055	568	7377											
POM121C	100101267	broad.mit.edu	37	chr7	75053846	75053846	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggttgaaccactgtaaTgaagccttcttctctaagtc	9	13	8	11	0	2	2	0	2	2	0	4	2	2	2	3	1	2	2	3	1	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:75053846T>C	uc003udk.3	-	11	1719	c.834A>G	c.(832-834)TCA>TCG	p.S278S		NM_001099415	NP_001092885	A8CG34	P121C_HUMAN	POM121 membrane glycoprotein (rat)-like	520	Pore side (Potential).				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						ACCACTGTAATGAAGCCTTCT	0.478													25	116					0	0	0.00632	0	0		C	75053846	C	C	75053846	2	2	8	1	0	0	0	0	0	0	0	1	12259	1451	51	3		3	POM121C	7	75053846	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1275238	75053846	84084817	569	7378											
YWHAG	7532	broad.mit.edu	37	chr7	75959484	75959484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagcggcgtgcccccacaaCgttcttgtaggccacagaca	10	6	11	14	3	1	2	0	0	1	2	1	2	1	2	3	2	3	2	3	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:75959484C>T	uc011kgj.1	-	2	371	c.154G>A	c.(154-156)GTT>ATT	p.V52I		NM_012479	NP_036611	P61981	1433G_HUMAN	tyrosine 3-monooxygenase/tryptophan	52					G2/M transition of mitotic cell cycle|regulation of neuron differentiation|regulation of signal transduction|regulation of synaptic plasticity	cytosol	insulin-like growth factor receptor binding|protein kinase C binding|protein kinase C inhibitor activity			ovary(1)|lung(1)	2						GCCCCCACAACGTTCTTGTAG	0.517													8	58					0	0	0.00308	0	0		T	75959484	T	T	75959484	3	4	8	1	0	0	0	0	1	0	0	0	17529	536	19	1	593	1	YWHAG	7	75959484	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	905638	75959484	83179179	570	7379											
ZP3	7784	broad.mit.edu	37	chr7	76062907	76062907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtttgtggaccactgcgtggCcacaccgacaccagaccaga	10	6	11	14	2	0	2	0	0	0	2	0	4	0	3	5	2	1	1	5	2	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:76062907C>T	uc003ufd.3	+	4	666	c.656C>T	c.(655-657)GCC>GTC	p.A219V	ZP3_uc003ufc.3_Missense_Mutation_p.A168V|ZP3_uc003ufe.2_Missense_Mutation_p.A127V	NM_001110354	NP_001103824	P21754	ZP3_HUMAN	zona pellucida glycoprotein 3 isoform 1	219	Extracellular (Potential).|ZP.				binding of sperm to zona pellucida|blastocyst formation|egg coat formation|humoral immune response mediated by circulating immunoglobulin|intracellular protein transport|negative regulation of binding of sperm to zona pellucida|negative regulation of transcription, DNA-dependent|oocyte development|phosphatidylinositol-mediated signaling|positive regulation of acrosomal vesicle exocytosis|positive regulation of acrosome reaction|positive regulation of antral ovarian follicle growth|positive regulation of calcium ion import|positive regulation of calcium ion transport via store-operated calcium channel activity|positive regulation of humoral immune response|positive regulation of interferon-gamma production|positive regulation of interleukin-4 production|positive regulation of leukocyte migration|positive regulation of ovarian follicle development|positive regulation of phosphatidylinositol biosynthetic process|positive regulation of protein kinase activity|positive regulation of protein kinase B signaling cascade|positive regulation of T cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of type IV hypersensitivity|protein kinase C signaling cascade	endoplasmic reticulum|extracellular space|Golgi apparatus|integral to membrane|multivesicular body|outer acrosomal membrane|perinuclear region of cytoplasm|plasma membrane|proteinaceous extracellular matrix	acrosin binding|manganese ion transmembrane transporter activity|receptor activity|sugar binding				0						CACTGCGTGGCCACACCGACA	0.592													15	57					0	0	0.003163	0	0		T	76062907	T	T	76062907	3	4	8	1	0	0	0	0	1	0	0	0	18242	739	26	2	670	2	ZP3	7	76062907	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	103423	76062907	83075756	571	7380											
CCDC146	57639	broad.mit.edu	37	chr7	76891552	76891552	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcgaaatttaagaaagatGgaactgctcttgaaagtgtc	14	13	9	5	1	1	3	0	1	1	2	3	5	1	4	0	1	2	1	0	1	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:76891552G>T	uc003uga.2	+	9	1228	c.1101G>T	c.(1099-1101)ATG>ATT	p.M367I	CCDC146_uc010ldp.2_Missense_Mutation_p.M113I	NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	367										ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				TAAGAAAGATGGAACTGCTCT	0.403													11	78					2.80697e-09	3.08473e-09	0.010729	1	0		T	76891552	T	T	76891552	3	4	8	1	0	0	0	0	1	0	0	0	2783	1348	47	5	1131	5	CCDC146	7	76891552	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	828645	76891552	82247111	572	7381											
GNAI1	2770	broad.mit.edu	37	chr7	79818534	79818534	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgaagatagactttggtgActcagcccgggcggtaagtt	9	11	14	7	2	1	4	1	2	0	2	1	4	1	4	1	3	1	3	1	3	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:79818534A>G	uc003uhb.1	+	3	627	c.290A>G	c.(289-291)GAC>GGC	p.D97G	GNAI1_uc011kgt.1_Missense_Mutation_p.D45G	NM_002069	NP_002060	P63096	GNAI1_HUMAN	guanine nucleotide binding protein (G protein),	97					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody|nucleus	G-protein beta/gamma-subunit complex binding|GTP binding|metabotropic serotonin receptor binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						GACTTTGGTGACTCAGCCCGG	0.413													4	51					0	0	0.009096	0	0		G	79818534	G	G	79818534	3	3	8	1	0	0	0	0	1	0	0	0	6519	275	10	3	300	3	GNAI1	7	79818534	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	2926982	79818534	79320129	573	7382											
PCLO	27445	broad.mit.edu	37	chr7	82579728	82579728	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaggtatttctgaaacagtGctcaggataccaggtggggc	11	9	14	7	0	2	2	1	1	1	1	2	3	2	3	1	5	3	2	1	5	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:82579728G>A	uc003uhx.2	-	6	10465	c.10176C>T	c.(10174-10176)AGC>AGT	p.S3392S	PCLO_uc003uhv.2_Silent_p.S3392S|PCLO_uc010lec.2_Silent_p.S357S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3323					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CTGAAACAGTGCTCAGGATAC	0.438													5	58					0	0	0.001984	0	0		A	82579728	A	A	82579728	2	1	8	1	0	0	0	0	0	0	0	1	11602	1310	46	2		2	PCLO	7	82579728	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2761194	82579728	76558935	574	7383											
PCLO	27445	broad.mit.edu	37	chr7	82584025	82584025	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	accaatgggggcctgggttgGgctagatccaggtgttaatt	8	11	15	7	0	0	1	0	0	0	1	1	1	1	1	3	5	0	3	3	5	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:82584025G>T	uc003uhx.2	-	5	6533	c.6244C>A	c.(6244-6246)CCA>ACA	p.P2082T	PCLO_uc003uhv.2_Missense_Mutation_p.P2082T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2013					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GCCTGGGTTGGGCTAGATCCA	0.468													14	71					1.3612e-06	1.47464e-06	0.003163	1	0		T	82584025	T	T	82584025	3	4	8	1	0	0	0	0	1	0	0	0	11602	1232	43	5	9285	5	PCLO	7	82584025	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4297	82584025	76554638	575	7384											
SEMA3A	10371	broad.mit.edu	37	chr7	83764138	83764138	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccttgatattaaccaggTcgaatgaaaatatgtgatcc	15	12	7	7	1	0	3	0	3	0	0	3	4	2	3	3	1	1	0	3	1	7	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:83764138T>A	uc003uhz.2	-	2	557	c.242A>T	c.(241-243)GAC>GTC	p.D81V		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	81	Sema.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						ATTAACCAGGTCGAATGAAAA	0.358													14	67					0	0	0.00245	0	0		A	83764138	A	A	83764138	3	1	8	1	0	0	0	0	1	0	0	0	14049	1667	58	5	2137	5	SEMA3A	7	83764138	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1180113	83764138	75374525	576	7385											
ABCB1	5243	broad.mit.edu	37	chr7	87196110	87196110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaatacttactctgtaagtCgggtgttaagctccccaaca	12	12	7	10	1	1	0	0	0	1	0	3	0	2	0	2	1	4	3	2	1	7	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:87196110C>T	uc003uiz.1	-	7	939	c.521G>A	c.(520-522)CGA>CAA	p.R174Q	ABCB1_uc011khc.1_Intron	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	174	ABC transmembrane type-1 1.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	CTCTGTAAGTCGGGTGTTAAG	0.368													16	31					0	0	0.006122	0	0		T	87196110	T	T	87196110	3	4	8	1	0	0	0	0	1	0	0	0	40	884	31	1	3413	1	ABCB1	7	87196110	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3431972	87196110	71942553	577	7386											
ZNF804B	219578	broad.mit.edu	37	chr7	88964957	88964957	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgatctgggaaaagtcagGcccatgaagtgtaactccgg	11	9	13	8	1	2	2	1	2	1	0	3	3	3	3	2	3	1	1	2	3	4	1	rs138375583	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:88964957G>A	uc011khi.1	+	4	3199	c.2661G>A	c.(2659-2661)AGG>AGA	p.R887R		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	887						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GAAAAGTCAGGCCCATGAAGT	0.433										HNSCC(36;0.09)			11	119					0	0	0.008291	0	0		A	88964957	A	A	88964957	2	1	8	1	0	0	0	0	0	0	0	1	18196	1194	42	2		2	ZNF804B	7	88964957	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1768847	88964957	70173706	578	7387											
STEAP1	26872	broad.mit.edu	37	chr7	89790129	89790129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttgtagcataaggacaCgggagagaccagcatgctaa	13	8	11	9	1	0	1	0	0	0	1	1	4	1	3	2	2	3	4	2	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:89790129C>T	uc003ujx.2	+	3	295	c.95C>T	c.(94-96)ACG>ATG	p.T32M	STEAP1_uc010lem.2_Missense_Mutation_p.T32M	NM_012449	NP_036581	Q9UHE8	STEA1_HUMAN	six transmembrane epithelial antigen of the	32					electron transport chain|ion transport|iron ion homeostasis	cell-cell junction|endosome membrane|integral to plasma membrane	channel activity|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	all_hematologic(106;0.112)					CATAAGGACACGGGAGAGACC	0.388													11	122					0	0	0.008291	0	0		T	89790129	T	T	89790129	3	4	8	1	0	0	0	0	1	0	0	0	15302	536	19	1	101	1	STEAP1	7	89790129	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	825172	89790129	69348534	579	7388											
PEX1	5189	broad.mit.edu	37	chr7	92146932	92146932	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaacagaggttgctgacgcGttatatatactaggaggttg	13	11	12	5	2	0	2	0	1	0	1	0	3	0	3	0	3	3	4	0	3	7	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:92146932G>A	uc003uly.2	-	5	993	c.897C>T	c.(895-897)AAC>AAT	p.N299N	PEX1_uc011khr.1_Silent_p.N91N|PEX1_uc010ley.2_Silent_p.N299N|PEX1_uc011khs.1_Intron|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	299					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			TTGCTGACGCGTTATATATAC	0.368													13	36					0	0	0.001855	0	0		A	92146932	A	A	92146932	2	1	8	1	0	0	0	0	0	0	0	1	11754	1136	40	1		1	PEX1	7	92146932	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2356803	92146932	66991731	580	7389											
C7orf64	84060	broad.mit.edu	37	chr7	92163897	92163897	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttatttctcctcaaaatgTatgtgttcatccgggggacc	8	15	9	9	1	3	0	2	0	1	0	5	1	4	1	3	2	0	3	3	2	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:92163897T>C	uc003ulz.2	+	4	671	c.630T>C	c.(628-630)TGT>TGC	p.C210C	C7orf64_uc011khu.1_3'UTR|C7orf64_uc003uma.2_Silent_p.C210C	NM_032120	NP_115496	Q5RL73	CG064_HUMAN	hypothetical protein LOC84060	210							nucleotide binding			ovary(2)	2						CCTCAAAATGTATGTGTTCAT	0.413													8	68					0	0	0.00308	0	0		C	92163897	C	C	92163897	2	2	8	1	0	0	0	0	0	0	0	1	2413	1644	57	3		3	C7orf64	7	92163897	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	16965	92163897	66974766	581	7390											
HEPACAM2	253012	broad.mit.edu	37	chr7	92848540	92848540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagcagagatgcattgggtgGcatcatggtgaacttgtgtt	10	12	14	5	0	1	2	1	1	0	1	1	3	1	2	0	3	3	4	0	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:92848540G>A	uc003umm.2	-	2	327	c.304C>T	c.(304-306)CCA>TCA	p.P102S	HEPACAM2_uc003uml.2_Missense_Mutation_p.P90S|HEPACAM2_uc010lff.2_Missense_Mutation_p.P90S|HEPACAM2_uc011khy.1_Missense_Mutation_p.P125S	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	102	Extracellular (Potential).					integral to membrane		p.F102L(1)		ovary(3)|breast(1)|kidney(1)	5						GCATTGGGTGGCATCATGGTG	0.463													15	62					0	0	0.00245	0	0		A	92848540	A	A	92848540	3	1	8	1	0	0	0	0	1	0	0	0	7069	1203	42	2	1120	2	HEPACAM2	7	92848540	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	684643	92848540	66290123	582	7391											
CCDC132	55610	broad.mit.edu	37	chr7	92882054	92882054	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacaagtatatttttctgTggattcatttgatattgtta	11	20	7	3	0	2	2	1	2	1	0	2	3	2	3	0	1	1	2	0	1	6	9			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:92882054T>C	uc003umo.2	+	3	319	c.191T>C	c.(190-192)GTG>GCG	p.V64A	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.V34A|CCDC132_uc003umr.2_Intron|CCDC132_uc011khz.1_Intron|CCDC132_uc003umn.2_Missense_Mutation_p.V64A	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	64											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			TATTTTTCTGTGGATTCATTT	0.323													10	55					0	0	0.008291	0	0		C	92882054	C	C	92882054	3	2	8	1	0	0	0	0	1	0	0	0	2770	1696	59	3	201	3	CCDC132	7	92882054	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	33514	92882054	66256609	583	7392											
CASD1	64921	broad.mit.edu	37	chr7	94184921	94184921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctttcatatttgtttgtgtgGcacatgaaatttctcagatc	9	18	7	7	0	2	2	2	1	1	1	4	2	2	2	0	1	0	2	0	1	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:94184921G>A	uc003uni.3	+	18	2472	c.2245G>A	c.(2245-2247)GCA>ACA	p.A749T	CASD1_uc003unj.3_Missense_Mutation_p.A749T	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	749						integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			TGTTTGTGTGGCACATGAAAT	0.393													9	76					0	0	0.006214	0	0		A	94184921	A	A	94184921	3	1	8	1	0	0	0	0	1	0	0	0	2667	1203	42	2	2315	2	CASD1	7	94184921	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1302867	94184921	64953742	584	7393											
SGCE	8910	broad.mit.edu	37	chr7	94252690	94252690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccttgcagtctcaaaggtgCgcctgttgtaggcagttatc	7	12	12	10	1	1	0	1	0	1	0	3	0	1	0	2	2	2	5	2	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:94252690C>T	uc003unl.2	-	4	521	c.410G>A	c.(409-411)CGC>CAC	p.R137H	SGCE_uc003unm.2_Missense_Mutation_p.R137H|SGCE_uc003unn.2_Missense_Mutation_p.R137H|SGCE_uc011kic.1_Missense_Mutation_p.R96H|SGCE_uc011kid.1_Missense_Mutation_p.R173H	NM_003919	NP_003910	O43556	SGCE_HUMAN	sarcoglycan, epsilon isoform 2	137	Extracellular (Potential).				cell-matrix adhesion|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			CTCAAAGGTGCGCCTGTTGTA	0.274													6	28					0	0	0.00308	0	0		T	94252690	T	T	94252690	3	4	8	1	0	0	0	0	1	0	0	0	14227	768	27	1	1087	1	SGCE	7	94252690	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	67769	94252690	64885973	585	7394											
LMTK2	22853	broad.mit.edu	37	chr7	97823050	97823050	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagaagtgacccctgagacGttcacagctggctcccaggg	10	6	12	13	1	1	3	1	2	0	2	2	4	2	3	3	2	1	3	3	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:97823050G>A	uc003upd.1	+	11	3566	c.3273G>A	c.(3271-3273)ACG>ACA	p.T1091T		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	1091					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					CCCCTGAGACGTTCACAGCTG	0.607													8	35					0	0	0.004482	0	0		A	97823050	A	A	97823050	2	1	8	1	0	0	0	0	0	0	0	1	8876	1132	40	1		1	LMTK2	7	97823050	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3570360	97823050	61315613	586	7395											
TECPR1	25851	broad.mit.edu	37	chr7	97872868	97872868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tacagagaggtcgttgaaggGgtcgggcagctccttggggt	7	9	18	7	2	0	2	0	1	0	1	3	3	1	2	1	6	2	3	1	6	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:97872868G>A	uc003upg.2	-	6	773	c.568C>T	c.(568-570)CCC>TCC	p.P190S	TECPR1_uc003uph.1_Missense_Mutation_p.P111S	NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	190						integral to membrane	protein binding			pancreas(1)	1						TCGTTGAAGGGGTCGGGCAGC	0.622													10	26					0	0	0.006214	0	0		A	97872868	A	A	97872868	3	1	8	1	0	0	0	0	1	0	0	0	15768	1232	43	4	3013	4	TECPR1	7	97872868	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	49818	97872868	61265795	587	7396											
AGFG2	3268	broad.mit.edu	37	chr7	100151089	100151089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctgggtgatcctgcacCgtctctctcagttgctgcct	4	14	9	14	1	3	1	1	1	3	0	6	1	4	1	3	1	3	3	3	1	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:100151089C>T	uc003uvf.2	+	4	687	c.551C>T	c.(550-552)CCG>CTG	p.P184L	AGFG2_uc003uvg.1_Intron|AGFG2_uc010lgy.2_Missense_Mutation_p.R46C	NM_006076	NP_006067	O95081	AGFG2_HUMAN	ArfGAP with FG repeats 2	184					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			central_nervous_system(1)	1						GATCCTGCACCGTCTCTCTCA	0.557													9	51					0	0	0.010729	0	0		T	100151089	T	T	100151089	3	4	8	1	0	0	0	0	1	0	0	0	381	652	23	1	565	1	AGFG2	7	100151089	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2278221	100151089	58987574	588	7397											
ACTL6B	51412	broad.mit.edu	37	chr7	100247736	100247736	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcagctctgtcagcttcTcccgcttggcccgtgtgttc	4	13	9	15	2	4	0	2	0	2	0	6	0	4	0	2	1	2	4	2	1	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:100247736T>A	uc003uvy.2	-	5	499	c.392A>T	c.(391-393)GAG>GTG	p.E131V	ACTL6B_uc003uvx.1_5'Flank|ACTL6B_uc003uvz.2_RNA	NM_016188	NP_057272	O94805	ACL6B_HUMAN	actin-like 6B	131					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex|SWI/SNF complex	ATP binding|protein binding|structural constituent of cytoskeleton			ovary(1)	1	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					TGTCAGCTTCTCCCGCTTGGC	0.463													9	31					0	0	0.004482	0	0		A	100247736	A	A	100247736	3	1	8	1	0	0	0	0	1	0	0	0	199	1551	54	5	928	5	ACTL6B	7	100247736	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	96647	100247736	58890927	589	7398											
TRIP6	7205	broad.mit.edu	37	chr7	100469244	100469244	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggggaaggcctaccaccCtggctgcttcacctgcgtgg	6	9	13	13	1	1	0	1	0	0	0	1	1	1	1	4	5	3	2	4	5	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:100469244C>A	uc003uww.2	+	7	1249	c.1079C>A	c.(1078-1080)CCT>CAT	p.P360H		NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6	360	LIM zinc-binding 2.				focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)					GCCTACCACCCTGGCTGCTTC	0.622													9	36					0.000978159	0.00103168	0.010729	1	0		A	100469244	A	A	100469244	3	1	8	1	0	0	0	0	1	0	0	0	16585	681	24	5	1105	5	TRIP6	7	100469244	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	221508	100469244	58669419	590	7399											
SERPINE1	5054	broad.mit.edu	37	chr7	100773872	100773872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggagcacggtcaagcaagtgGacttttcagaggtggagaga	12	7	16	6	1	2	2	2	0	0	2	2	6	2	5	0	5	2	2	0	5	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:100773872G>A	uc003uxt.2	+	3	590	c.442G>A	c.(442-444)GAC>AAC	p.D148N	SERPINE1_uc011kkj.1_Missense_Mutation_p.D133N|SERPINE1_uc003uxu.1_5'Flank	NM_000602	NP_000593	P05121	PAI1_HUMAN	plasminogen activator inhibitor-1 isoform 1	148					angiogenesis|cellular response to chemical stimulus|cellular response to lipopolysaccharide|chronological cell aging|defense response to Gram-negative bacterium|fibrinolysis|negative regulation of apoptosis|negative regulation of cell adhesion mediated by integrin|negative regulation of fibrinolysis|negative regulation of plasminogen activation|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell-matrix adhesion|negative regulation of vascular wound healing|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of interleukin-8 production|positive regulation of leukotriene production involved in inflammatory response|positive regulation of monocyte chemotaxis|positive regulation of receptor-mediated endocytosis|regulation of receptor activity	extracellular matrix|extracellular space|plasma membrane|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Lung NSC(181;0.136)|all_lung(186;0.182)				Atorvastatin(DB01076)|Dimethyl sulfoxide(DB01093)|Drotrecogin alfa(DB00055)|Simvastatin(DB00641)|Tenecteplase(DB00031)|Troglitazone(DB00197)|Urokinase(DB00013)	CAAGCAAGTGGACTTTTCAGA	0.552													8	279					0	0	0.006214	0	0		A	100773872	A	A	100773872	3	1	8	1	0	0	0	0	1	0	0	0	14136	1174	41	4	448	4	SERPINE1	7	100773872	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	304628	100773872	58364791	591	7400											
ORAI2	80228	broad.mit.edu	37	chr7	102086989	102086989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggaggtgcagctggagacGcagtaccagtacccgcggcc	8	5	16	12	3	0	1	0	0	0	1	0	3	0	2	3	4	4	5	3	4	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:102086989G>A	uc010lhz.1	+	4	490	c.255G>A	c.(253-255)ACG>ACA	p.T85T	ORAI2_uc003uzj.2_Silent_p.T85T|ORAI2_uc003uzk.2_Silent_p.T85T|ORAI2_uc011kks.1_Silent_p.T8T	NM_001126340	NP_001119812	Q96SN7	ORAI2_HUMAN	ORAI calcium release-activated calcium modulator	85						integral to membrane	protein binding			ovary(1)|kidney(1)	2						AGCTGGAGACGCAGTACCAGT	0.672													4	9					0	0	0.009096	0	0		A	102086989	A	A	102086989	2	1	8	1	0	0	0	0	0	0	0	1	11277	1074	38	1		1	ORAI2	7	102086989	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1313117	102086989	57051674	592	7401											
PSMC2	5701	broad.mit.edu	37	chr7	103002424	103002424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtacaaagataatcaatgCtgattcggaggacccaaaat	16	9	9	7	1	1	2	1	1	0	1	2	4	1	4	1	2	2	2	1	2	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:103002424C>T	uc003vbs.2	+	5	381	c.311C>T	c.(310-312)GCT>GTT	p.A104V	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011kln.1_Missense_Mutation_p.A104V|PSMC2_uc011klo.1_5'UTR	NM_002803	NP_002794	P35998	PRS7_HUMAN	proteasome 26S ATPase subunit 2	104					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0						ATAATCAATGCTGATTCGGAG	0.388													18	66					0	0	0.006122	0	0		T	103002424	T	T	103002424	3	4	8	1	0	0	0	0	1	0	0	0	12708	797	28	2	329	2	PSMC2	7	103002424	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	915435	103002424	56136239	593	7402											
RELN	5649	broad.mit.edu	37	chr7	103138557	103138557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatccaaatcttgtgtaaccGcttgtctcacagtggatccc	9	12	8	12	1	2	0	1	0	2	0	5	2	4	1	3	1	1	2	3	1	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:103138557G>A	uc003vca.2	-	54	8970	c.8810C>T	c.(8809-8811)GCG>GTG	p.A2937V	RELN_uc010liz.2_Missense_Mutation_p.A2937V	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2937					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TTGTGTAACCGCTTGTCTCAC	0.428													19	108					0	0	0.007413	0	0		A	103138557	A	A	103138557	3	1	8	1	0	0	0	0	1	0	0	0	13245	1087	38	1	1620	1	RELN	7	103138557	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	136133	103138557	56000106	594	7403											
COG5	10466	broad.mit.edu	37	chr7	106851578	106851578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagttcagcgggtgctctcGtgaacaaaaactgaataatg	13	10	10	8	2	3	2	2	2	1	0	4	2	3	2	0	1	4	2	0	1	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:106851578G>A	uc003ved.2	-	19	2816	c.2291C>T	c.(2290-2292)ACG>ATG	p.T764M	COG5_uc003vec.2_Missense_Mutation_p.T785M|COG5_uc003vee.2_Missense_Mutation_p.T785M	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	764					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						GGGTGCTCTCGTGAACAAAAA	0.468													14	55					0	0	0.004007	0	0		A	106851578	A	A	106851578	3	1	8	1	0	0	0	0	1	0	0	0	3664	1145	40	1	244	1	COG5	7	106851578	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3713021	106851578	52287085	595	7404											
CFTR	1080	broad.mit.edu	37	chr7	117232480	117232480	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgatactgcctcgcatcagCgtgatcagcactggccccac	8	7	10	16	3	2	1	2	1	0	0	3	2	2	1	3	1	4	2	3	1	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:117232480C>T	uc003vjd.2	+	14	2391	c.2259C>T	c.(2257-2259)AGC>AGT	p.S753S	CFTR_uc011knq.1_Silent_p.S159S	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	753	Cytoplasmic (Potential).				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	CTCGCATCAGCGTGATCAGCA	0.512									Cystic_Fibrosis				9	32					0	0	0.004482	0	0		T	117232480	T	T	117232480	2	4	8	1	0	0	0	0	0	0	0	1	3297	767	27	1		1	CFTR	7	117232480	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	10380902	117232480	41906183	596	7405											
CTTNBP2	83992	broad.mit.edu	37	chr7	117407207	117407207	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctggctcaagccctccgtgCctacacaagatttctaggca	9	10	8	14	1	3	1	1	0	2	1	4	1	4	1	3	2	3	2	3	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:117407207C>T	uc003vjf.2	-	9	2894	c.2802G>A	c.(2800-2802)AGG>AGA	p.R934R		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	934	ANK 6.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GCCCTCCGTGCCTACACAAGA	0.443													4	87					0	0	0.009096	0	0		T	117407207	T	T	117407207	2	4	8	1	0	0	0	0	0	0	0	1	4048	738	26	2		2	CTTNBP2	7	117407207	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	174727	117407207	41731456	597	7406											
C7orf58	79974	broad.mit.edu	37	chr7	120629693	120629693	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcatggtctgtcgcccagtGttcccttgtcgtcggcgatt	3	14	12	12	4	2	0	1	0	1	0	6	1	3	0	2	2	0	1	2	2	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:120629693G>A	uc003vjq.3	+	2	465	c.18G>A	c.(16-18)GTG>GTA	p.V6V	C7orf58_uc003vjr.1_Silent_p.V6V|C7orf58_uc003vjs.3_Silent_p.V6V	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	6						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					GTCGCCCAGTGTTCCCTTGTC	0.527													10	56					0	0	0.013537	0	0		A	120629693	A	A	120629693	2	1	8	1	0	0	0	0	0	0	0	1	2408	1364	48	4		4	C7orf58	7	120629693	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3222486	120629693	38508970	598	7407											
ASB15	142685	broad.mit.edu	37	chr7	123267253	123267253	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgactgcatttccctcctgCtggaatatggaggaagcgga	9	9	12	11	2	0	0	0	0	0	0	2	5	2	4	3	4	3	2	3	4	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:123267253C>T	uc003vku.1	+	9	1079	c.787C>T	c.(787-789)CTG>TTG	p.L263L	ASB15_uc003vkv.1_Silent_p.L263L|ASB15_uc003vkw.1_Silent_p.L263L	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	263	ANK 5.				intracellular signal transduction					skin(2)|lung(1)	3						TTCCCTCCTGCTGGAATATGG	0.517													10	29					0	0	0.006214	0	0		T	123267253	T	T	123267253	2	4	8	1	0	0	0	0	0	0	0	1	1020	796	28	2		2	ASB15	7	123267253	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2637560	123267253	35871410	599	7408											
FLNC	2318	broad.mit.edu	37	chr7	128484899	128484899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctacctgcccacggagcctgGcgagtacaccatcaacatcc	10	6	8	17	2	1	0	1	0	0	0	2	2	2	1	5	2	5	1	5	2	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:128484899G>A	uc003vnz.3	+	21	3589	c.3380G>A	c.(3379-3381)GGC>GAC	p.G1127D	FLNC_uc003voa.3_Missense_Mutation_p.G1127D	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1127	Filamin 9.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						ACGGAGCCTGGCGAGTACACC	0.627													16	48					0	0	0.008871	0	0		A	128484899	A	A	128484899	3	1	8	1	0	0	0	0	1	0	0	0	5949	1203	42	2	3462	2	FLNC	7	128484899	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	5217646	128484899	30653764	600	7409											
FLNC	2318	broad.mit.edu	37	chr7	128486107	128486107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atccctaacagccacaggcgGcaaccacgtgacggctcgtg	10	5	11	15	4	0	1	0	1	0	0	2	1	1	1	3	3	3	2	3	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:128486107G>A	uc003vnz.3	+	22	4063	c.3854G>A	c.(3853-3855)GGC>GAC	p.G1285D	FLNC_uc003voa.3_Missense_Mutation_p.G1285D	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1285	Filamin 11.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GCCACAGGCGGCAACCACGTG	0.632													7	21					0	0	0.010729	0	0		A	128486107	A	A	128486107	3	1	8	1	0	0	0	0	1	0	0	0	5949	1203	42	2	3940	2	FLNC	7	128486107	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1208	128486107	30652556	601	7410											
AHCYL2	23382	broad.mit.edu	37	chr7	129019487	129019487	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttttcttagcagatccaGtttgctgaccagaagcaaga	11	13	8	9	0	2	4	0	1	2	3	3	4	3	4	2	0	3	4	2	0	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:129019487G>C	uc011kov.1	+	2	426	c.372G>C	c.(370-372)CAG>CAC	p.Q124H	AHCYL2_uc003vot.2_Missense_Mutation_p.Q123H|AHCYL2_uc003vov.2_Missense_Mutation_p.Q21H|AHCYL2_uc011kow.1_Missense_Mutation_p.Q22H|AHCYL2_uc011kox.1_Missense_Mutation_p.Q21H	NM_015328	NP_056143	Q96HN2	SAHH3_HUMAN	S-adenosylhomocysteine hydrolase-like 2 isoform	124					one-carbon metabolic process		adenosylhomocysteinase activity			ovary(2)	2						AGCAGATCCAGTTTGCTGACC	0.408													6	30					0	0	0.001984	0	0		C	129019487	C	C	129019487	3	2	8	1	0	0	0	0	1	0	0	0	411	1020	36	5	500	5	AHCYL2	7	129019487	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	533380	129019487	30119176	602	7411											
FAM40B	57464	broad.mit.edu	37	chr7	129096401	129096401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcatgcgtgctgcctcccCgccctcttacactcttgacc	5	10	8	18	2	2	1	0	1	2	0	3	2	3	1	5	0	5	2	5	0	1	2	rs150058386		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:129096401C>T	uc011koy.1	+	9	996	c.956C>T	c.(955-957)CCG>CTG	p.P319L	FAM40B_uc003vow.2_Missense_Mutation_p.P319L|FAM40B_uc011koz.1_5'Flank	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	319											0						GCTGCCTCCCCGCCCTCTTAC	0.602													14	44					0	0	0.003163	0	0		T	129096401	T	T	129096401	3	4	8	1	0	0	0	0	1	0	0	0	5575	652	23	1	990	1	FAM40B	7	129096401	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	76914	129096401	30042262	603	7412											
TSGA13	114960	broad.mit.edu	37	chr7	130364019	130364019	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgagcagtaactccttggAaaaatattttgatgcactct	12	14	7	8	0	1	2	0	2	1	0	2	3	2	3	1	1	3	3	1	1	4	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:130364019A>G	uc003vqi.2	-	5	818	c.361T>C	c.(361-363)TCC>CCC	p.S121P	TSGA13_uc003vqj.2_Missense_Mutation_p.S121P	NM_052933	NP_443165	Q96PP4	TSG13_HUMAN	testis specific, 13	121										ovary(2)	2	Melanoma(18;0.0435)					AACTCCTTGGAAAAATATTTT	0.443													9	91					0	0	0.004482	0	0		G	130364019	G	G	130364019	3	3	8	1	0	0	0	0	1	0	0	0	16645	246	9	3	482	3	TSGA13	7	130364019	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1267618	130364019	28774644	604	7413											
PLXNA4	91584	broad.mit.edu	37	chr7	131866287	131866287	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatgaagccaaactcctcGggcctctcggtcaggtctga	9	8	12	12	2	3	2	1	2	2	0	6	3	4	3	3	4	2	0	3	4	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:131866287G>A	uc003vra.3	-	18	3574	c.3345C>T	c.(3343-3345)CCC>CCT	p.P1115P		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1115	Extracellular (Potential).|IPT/TIG 3.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CAAACTCCTCGGGCCTCTCGG	0.577													12	43					0	0	0.001855	0	0		A	131866287	A	A	131866287	2	1	8	1	0	0	0	0	0	0	0	1	12141	1103	39	1		1	PLXNA4	7	131866287	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1502268	131866287	27272376	605	7414											
LRGUK	136332	broad.mit.edu	37	chr7	133906546	133906546	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagatgttaagacatcccAcctgaaacctgaagcgcatc	14	7	7	13	1	0	4	0	2	0	2	2	4	1	4	4	0	2	2	4	0	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:133906546A>G	uc003vrm.1	+	16	1875	c.1859A>G	c.(1858-1860)CAC>CGC	p.H620R		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	620							ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						AAGACATCCCACCTGAAACCT	0.313													11	75					0	0	0.013537	0	0		G	133906546	G	G	133906546	3	3	8	1	0	0	0	0	1	0	0	0	8961	159	6	3	1921	3	LRGUK	7	133906546	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	2040259	133906546	25232117	606	7415											
AKR1B1	231	broad.mit.edu	37	chr7	134135578	134135578	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaataaggtagaggtccaggTagtccagcttcaggtcgctg	10	9	14	8	1	1	1	1	0	0	1	4	2	3	1	2	4	1	4	2	4	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:134135578T>C	uc003vrp.1	-	3	385	c.311A>G	c.(310-312)TAC>TGC	p.Y104C	AKR1B1_uc003vrq.1_RNA	NM_001628	NP_001619	P15121	ALDR_HUMAN	aldo-keto reductase family 1, member B1	104					C21-steroid hormone biosynthetic process|carbohydrate metabolic process|response to stress	cytosol|extracellular space|nucleus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding			ovary(3)	3					NADH(DB00157)|Sulindac(DB00605)	GAGGTCCAGGTAGTCCAGCTT	0.572													9	40					0	0	0.004482	0	0		C	134135578	C	C	134135578	3	2	8	1	0	0	0	0	1	0	0	0	466	1638	57	3	671	3	AKR1B1	7	134135578	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	229032	134135578	25003085	607	7416											
DGKI	9162	broad.mit.edu	37	chr7	137172408	137172408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaaatcacagtctccaCgcacaactagaatacccaga	15	7	4	15	1	3	2	1	0	2	2	5	2	3	2	3	0	2	1	3	0	5	2	rs148779791		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:137172408C>T	uc003vtt.2	-	23	2331	c.2330G>A	c.(2329-2331)CGT>CAT	p.R777H	DGKI_uc003vtu.2_Missense_Mutation_p.R477H	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	777					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						ACAGTCTCCACGCACAACTAG	0.368													40	198					0	0	0.011902	0	0		T	137172408	T	T	137172408	3	4	8	1	0	0	0	0	1	0	0	0	4477	536	19	1	915	1	DGKI	7	137172408	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3036830	137172408	21966255	608	7417											
ATP6V0A4	50617	broad.mit.edu	37	chr7	138418958	138418958	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgacatcttcattttataCgagttcagaaatgtgagttt	12	15	7	7	2	3	2	2	1	1	1	3	4	3	2	1	0	1	2	1	0	3	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:138418958C>T	uc003vuf.2	-	15	1852	c.1614G>A	c.(1612-1614)TCG>TCA	p.S538S	ATP6V0A4_uc003vug.2_Silent_p.S538S|ATP6V0A4_uc003vuh.2_Silent_p.S538S	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	538	Cytoplasmic (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						TCATTTTATACGAGTTCAGAA	0.413													15	63					0	0	0.004007	0	0		T	138418958	T	T	138418958	2	4	8	1	0	0	0	0	0	0	0	1	1171	523	19	1		1	ATP6V0A4	7	138418958	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1246550	138418958	20719705	609	7418											
TTC26	79989	broad.mit.edu	37	chr7	138865925	138865925	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcagtctcttacagctcaTtgctaatgactgctacaagg	10	13	7	11	0	3	1	2	1	1	0	4	1	3	1	0	1	5	3	0	1	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:138865925T>A	uc003vus.2	+	16	1514	c.1400T>A	c.(1399-1401)ATT>AAT	p.I467N	TTC26_uc011kqn.1_Missense_Mutation_p.I467N|TTC26_uc011kqo.1_Missense_Mutation_p.I436N|TTC26_uc011kqp.1_Missense_Mutation_p.I362N|TTC26_uc003vut.2_Missense_Mutation_p.I327N|TTC26_uc011kqq.1_Missense_Mutation_p.I336N	NM_024926	NP_079202	A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26 isoform 1	467							binding			ovary(1)	1						TTACAGCTCATTGCTAATGAC	0.393													22	59					0	0	0.00278	0	0		A	138865925	A	A	138865925	3	1	8	1	0	0	0	0	1	0	0	0	16720	1493	52	5	1462	5	TTC26	7	138865925	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	446967	138865925	20272738	610	7419											
BRAF	673	broad.mit.edu	37	chr7	140453128	140453128	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgatgggacccactccatcGagatttcactgtagctagac	10	10	9	12	1	1	3	1	1	0	2	3	5	2	4	2	1	1	2	2	1	2	3	rs104886015		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:140453128G>A	uc003vwc.3	-	15	1868	c.1807C>T	c.(1807-1809)CGA>TGA	p.R603*		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	603	Protein kinase.				activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.R603*(4)|p.T599_R603>I(2)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.V600_W604del(1)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	CCACTCCATCGAGATTTCACT	0.383		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				20	63					0	0	0.012319	0	0		A	140453128	A	A	140453128	4	1	8	1	0	0	0	0	0	1	0	0	1499	1066	37	1	509	1	BRAF	7	140453128	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1587203	140453128	18685535	611	7420											
OR9A2	135924	broad.mit.edu	37	chr7	142723873	142723873	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagccacataacggtccAcagccatcactccaagtaat	15	6	5	15	1	1	0	1	0	0	0	3	0	3	0	4	1	3	1	4	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:142723873A>G	uc003wcc.1	-	1	347	c.347T>C	c.(346-348)GTG>GCG	p.V116A		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	116					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					ATAACGGTCCACAGCCATCAC	0.448													11	57					0	0	0.013537	0	0		G	142723873	G	G	142723873	3	3	8	1	0	0	0	0	1	0	0	0	11267	159	6	3	589	3	OR9A2	7	142723873	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	2270745	142723873	16414790	612	7421											
TPK1	27010	broad.mit.edu	37	chr7	144320278	144320278	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttaagtctttttcttctAtcttcttttggagcatttta	6	23	4	8	0	5	0	0	0	5	0	5	1	5	1	1	1	1	1	1	1	3	11			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:144320278A>G	uc003weq.2	-	6	438	c.335T>C	c.(334-336)ATA>ACA	p.I112T	TPK1_uc003weo.2_Missense_Mutation_p.I107T|TPK1_uc003wep.2_RNA|TPK1_uc003wer.2_Missense_Mutation_p.I112T|TPK1_uc003wes.2_RNA	NM_022445	NP_071890	Q9H3S4	TPK1_HUMAN	thiamin pyrophosphokinase 1 isoform a	112					thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)	TTTTTCTTCTATCTTCTTTTG	0.323													37	141					0	0	0.004878	0	0		G	144320278	G	G	144320278	3	3	8	1	0	0	0	0	1	0	0	0	16430	449	16	3	412	3	TPK1	7	144320278	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1596405	144320278	14818385	613	7422											
ZNF398	57541	broad.mit.edu	37	chr7	148876693	148876693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctactgtggcaggagcttcCgctacaaacagacactcaag	12	7	9	13	1	1	1	1	0	0	1	2	2	2	2	2	2	4	3	2	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:148876693C>T	uc003wfl.2	+	6	2004	c.1729C>T	c.(1729-1731)CGC>TGC	p.R577C	ZNF398_uc011kul.1_Missense_Mutation_p.R406C|ZNF398_uc011kum.1_Missense_Mutation_p.R582C	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	577	C2H2-type 9.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			CAGGAGCTTCCGCTACAAACA	0.602													6	24					0	0	0.00308	0	0		T	148876693	T	T	148876693	3	4	8	1	0	0	0	0	1	0	0	0	17910	652	23	1	1751	1	ZNF398	7	148876693	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4556415	148876693	10261970	614	7423											
ZNF777	27153	broad.mit.edu	37	chr7	149129387	149129387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgtagggccgctcacccGtgtgcgtgatctggtgtttg	4	12	15	10	4	2	1	1	1	1	0	2	1	2	1	2	2	1	3	2	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:149129387G>A	uc003wfv.2	-	6	2139	c.1976C>T	c.(1975-1977)ACG>ATG	p.T659M		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	659					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			CCGCTCACCCGTGTGCGTGAT	0.632													18	70					0	0	0.010504	0	0		A	149129387	A	A	149129387	3	1	8	1	0	0	0	0	1	0	0	0	18175	1145	40	1	523	1	ZNF777	7	149129387	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	252694	149129387	10009276	615	7424											
ZNF777	27153	broad.mit.edu	37	chr7	149133705	149133705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccagcatctgcttcagttCgctgaactcgctggagcctt	7	11	9	14	2	2	1	1	1	1	0	4	2	2	2	2	1	4	5	2	1	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:149133705C>T	uc003wfv.2	-	5	1463	c.1300G>A	c.(1300-1302)GAA>AAA	p.E434K		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	434	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			TGCTTCAGTTCGCTGAACTCG	0.652													4	32					0	0	0.009096	0	0		T	149133705	T	T	149133705	3	4	8	1	0	0	0	0	1	0	0	0	18175	893	31	1	1203	1	ZNF777	7	149133705	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4318	149133705	10004958	616	7425											
SSPO	23145	broad.mit.edu	37	chr7	149485990	149485990	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaccaggacgactgtggCgatggctctgatgaggaggg	10	6	17	8	2	1	2	0	2	1	0	1	7	1	4	1	5	1	1	1	5	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:149485990C>T	uc010lpk.2	+	29	4209	c.4209C>T	c.(4207-4209)GGC>GGT	p.G1403G		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	1403	LDL-receptor class A 1.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			ACGACTGTGGCGATGGCTCTG	0.582													7	12					0	0	0.001984	0	0		T	149485990	T	T	149485990	2	4	8	1	0	0	0	0	0	0	0	1	15214	755	27	1		1	SSPO	7	149485990	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	352285	149485990	9652673	617	7426											
SSPO	23145	broad.mit.edu	37	chr7	149508064	149508064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggggcacctctacccccCgggcagcactgtggttcgtc	5	7	13	16	3	1	0	0	0	1	0	3	1	1	0	4	4	2	4	4	4	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:149508064C>T	uc010lpk.2	+	67	9458	c.9458C>T	c.(9457-9459)CCG>CTG	p.P3153L		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3153					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CTCTACCCCCCGGGCAGCACT	0.602													7	13					0	0	0.00308	0	0		T	149508064	T	T	149508064	3	4	8	1	0	0	0	0	1	0	0	0	15214	652	23	1	9714	1	SSPO	7	149508064	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	22074	149508064	9630599	618	7427											
ZNF862	643641	broad.mit.edu	37	chr7	149547397	149547397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgtacagagacgtgatgCggatgaactacgagctgttg	11	9	14	7	3	0	3	0	2	0	1	0	6	0	4	0	1	6	4	0	1	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:149547397C>T	uc010lpn.2	+	5	1279	c.1087C>T	c.(1087-1089)CGG>TGG	p.R363W	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	363	KRAB 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						AGACGTGATGCGGATGAACTA	0.577													6	13					0	0	0.004482	0	0		T	149547397	T	T	149547397	3	4	8	1	0	0	0	0	1	0	0	0	18220	759	27	1	1105	1	ZNF862	7	149547397	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	39333	149547397	9591266	619	7428											
CHPF2	54480	broad.mit.edu	37	chr7	150935265	150935265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcccgaagtcctcaaccGctgtcgcatgaatgccatct	8	9	10	14	3	2	1	1	1	1	0	4	2	3	1	4	1	2	2	4	1	3	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:150935265G>A	uc003wjr.1	+	4	3330	c.1817G>A	c.(1816-1818)CGC>CAC	p.R606H	CHPF2_uc003wjq.1_Missense_Mutation_p.R598H|MIR671_hsa-mir-671|MI0003760_5'Flank	NM_019015	NP_061888	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	606	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(1)	1						GTCCTCAACCGCTGTCGCATG	0.587													4	44					0	0	0.009096	0	0		A	150935265	A	A	150935265	3	1	8	1	0	0	0	0	1	0	0	0	3372	1087	38	1	1831	1	CHPF2	7	150935265	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1387868	150935265	8203398	620	7429											
HTR5A	3361	broad.mit.edu	37	chr7	154862889	154862889	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggtggccgcgctggtcAtgccgctgagcctggtgcac	3	9	15	14	3	1	1	1	1	0	0	2	1	2	1	4	4	3	3	4	4	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:154862889A>G	uc003wlu.1	+	1	344	c.280A>G	c.(280-282)ATG>GTG	p.M94V	uc011kvt.1_Missense_Mutation_p.M42T|uc003wlt.2_Missense_Mutation_p.M42T	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	94	Helical; Name=2; (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		CGCGCTGGTCATGCCGCTGAG	0.682													3	13					0	0	0.009096	0	0		G	154862889	G	G	154862889	3	3	8	1	0	0	0	0	1	0	0	0	7466	217	8	3	282	3	HTR5A	7	154862889	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3927624	154862889	4275774	621	7430											
PTPRN2	5799	broad.mit.edu	37	chr7	157959878	157959878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagctggccgagggtccGcggcaggaggtcctcgcgga	5	5	19	12	5	0	0	0	0	0	0	3	4	2	3	3	7	1	2	3	7	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:157959878G>A	uc003wno.2	-	6	776	c.655C>T	c.(655-657)CGG>TGG	p.R219W	PTPRN2_uc003wnp.2_Missense_Mutation_p.R202W|PTPRN2_uc003wnq.2_Missense_Mutation_p.R219W|PTPRN2_uc003wnr.2_Missense_Mutation_p.R181W|PTPRN2_uc011kwa.1_Missense_Mutation_p.R242W	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	219	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CCGAGGGTCCGCGGCAGGAGG	0.657													4	21					0	0	0.000602	0	0		A	157959878	A	A	157959878	3	1	8	1	0	0	0	0	1	0	0	0	12833	1086	38	1	2464	1	PTPRN2	7	157959878	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3096989	157959878	1178785	622	7431											
WDR60	55112	broad.mit.edu	37	chr7	158734693	158734693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagtgggacagcagcacGgacagccatgcggtcaccgg	9	4	15	13	3	1	0	1	0	0	0	1	2	1	2	2	4	5	3	2	4	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr7:158734693G>A	uc003woe.3	+	24	3014	c.2856G>A	c.(2854-2856)ACG>ACA	p.T952T	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Silent_p.T584T	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	952	WD 4.									ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		ACAGCAGCACGGACAGCCATG	0.622													5	33					0	0	0.001168	0	0		A	158734693	A	A	158734693	2	1	8	1	0	0	0	0	0	0	0	1	17337	1103	39	1		1	WDR60	7	158734693	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	774815	158734693	403970	623	7432											
CSMD1	64478	broad.mit.edu	37	chr8	3008925	3008925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acattttcacttaccatagcCgatgggtaatgagatcctcc	11	12	7	11	1	1	1	1	1	0	1	3	3	3	1	4	1	2	1	4	1	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:3008925C>T	uc011kwk.1	-	40	6418	c.6028G>A	c.(6028-6030)GGC>AGC	p.G2010S	CSMD1_uc011kwj.1_Missense_Mutation_p.G1402S|CSMD1_uc003wqe.2_Missense_Mutation_p.G1166S|CSMD1_uc010lrg.2_Missense_Mutation_p.G78S	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2010	Extracellular (Potential).|CUB 12.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TTACCATAGCCGATGGGTAAT	0.443													8	41					0	0	0.004482	0	0		T	3008925	T	T	3008925	3	4	8	1	0	0	0	0	1	0	0	0	3947	652	23	1	4793	1	CSMD1	8	3008925	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08		3008925	143355097	624	7433											
MCPH1	79648	broad.mit.edu	37	chr8	6302423	6302423	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcaggtcggaagacaggCtgcagcacgtggcgggacct	8	6	17	10	3	0	1	0	0	0	1	1	3	0	3	1	5	3	4	1	5	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:6302423C>T	uc003wqi.2	+	8	1248	c.1180C>T	c.(1180-1182)CTG>TTG	p.L394L	MCPH1_uc003wqh.2_Silent_p.L394L|MCPH1_uc011kwl.1_Silent_p.L346L	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	394						microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		GGAAGACAGGCTGCAGCACGT	0.512													18	31					0	0	0.008871	0	0		T	6302423	T	T	6302423	2	4	8	1	0	0	0	0	0	0	0	1	9416	796	28	2		2	MCPH1	8	6302423	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3293498	6302423	140061599	625	7434											
RP1L1	94137	broad.mit.edu	37	chr8	10470757	10470757	+	Frame_Shift_Del	DEL	G	-	-																															tgccaggagcagggcccaccGgggggttgctaggaccaggc																								rs74594406	by1000genomes	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:10470757delG	uc003wtc.2	-	4	1080	c.851delC	c.(850-852)CCGfs	p.P284fs		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	284					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		AGGGCCCACCGGGGGGTTGCT	0.662													21	39	---	---	---	---						.	-	10470757	-	-	10470757	7	5	8	1	0	1	0	1	0	0	0	0	13558	1116	39	0	6355	0	RP1L1	8	10470757	Frame_Shift_Del	DEL	G	TCGA-BR-4201-01A-01D-1126-08	4168334	10470757	135893265	626	7435											
SOX7	83595	broad.mit.edu	37	chr8	10692279	10692279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagcccacttctgcttcCgccgacctgtaaatgaaaaa	12	8	6	15	2	1	1	0	1	1	0	2	2	2	1	5	0	2	2	5	0	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:10692279C>T	uc011kwz.1	-	2	59	c.26G>A	c.(25-27)CGG>CAG	p.R9Q	PINX1_uc003wth.2_Missense_Mutation_p.R9Q|PINX1_uc003wti.2_Missense_Mutation_p.R9Q	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	Error:Variant_position_missing_in_Q9BT81_after_alignment					endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		CTTCTGCTTCCGCCGACCTGT	0.448													4	43					0	0	0.009096	0	0		T	10692279	T	T	10692279	3	4	8	1	0	0	0	0	1	0	0	0	14981	652	23	1		1	SOX7	8	10692279	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	221522	10692279	135671743	627	7436											
DLC1	10395	broad.mit.edu	37	chr8	12957788	12957788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaccccagctttgagggCgctttgtgcttgctgtgatg	6	13	12	10	1	1	2	1	2	0	0	1	2	1	2	2	1	4	4	2	1	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:12957788C>T	uc003wwm.2	-	9	2502	c.2058G>A	c.(2056-2058)GCG>GCA	p.A686A	DLC1_uc003wwk.1_Silent_p.A249A|DLC1_uc003wwl.1_Silent_p.A283A|DLC1_uc011kxx.1_Silent_p.A175A	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	686					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GCTTTGAGGGCGCTTTGTGCT	0.557													34	94					0	0	0.004289	0	0		T	12957788	T	T	12957788	2	4	8	1	0	0	0	0	0	0	0	1	4556	755	27	1		1	DLC1	8	12957788	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2265509	12957788	133406234	628	7437											
MTUS1	57509	broad.mit.edu	37	chr8	17611860	17611860	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagcctattggggtattcGttttgattgttgattttcct	5	20	10	6	1	0	2	0	2	0	0	2	2	1	2	2	2	2	4	2	2	2	10			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:17611860G>C	uc003wxv.2	-	2	1931	c.1457C>G	c.(1456-1458)ACG>AGG	p.T486R	MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Missense_Mutation_p.T486R|MTUS1_uc010lsz.2_Missense_Mutation_p.T486R	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	486						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		TGGGGTATTCGTTTTGATTGT	0.393													8	177					0	0	0.00308	0	0		C	17611860	C	C	17611860	3	2	8	1	0	0	0	0	1	0	0	0	9983	1145	40	5	2730	5	MTUS1	8	17611860	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4654072	17611860	128752162	629	7438											
XPO7	23039	broad.mit.edu	37	chr8	21848376	21848376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtccaacctgacagacatgCggtgtcggactaccttctac	10	9	9	13	2	1	2	0	1	1	1	3	3	2	3	3	2	4	0	3	2	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:21848376C>T	uc003xaa.3	+	18	2089	c.1987C>T	c.(1987-1989)CGG>TGG	p.R663W	XPO7_uc010lti.2_Missense_Mutation_p.R672W|XPO7_uc010ltk.2_Missense_Mutation_p.R664W	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	663					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		GACAGACATGCGGTGTCGGAC	0.418													46	234					0	0	0.01441	0	0		T	21848376	T	T	21848376	3	4	8	1	0	0	0	0	1	0	0	0	17475	759	27	1	2109	1	XPO7	8	21848376	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4236516	21848376	124515646	630	7439											
XPO7	23039	broad.mit.edu	37	chr8	21857142	21857142	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcctggaacctcacgtcatCatgtatattctctcttccat	9	14	5	13	1	5	0	3	0	2	0	7	1	6	1	3	1	2	1	3	1	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:21857142C>T	uc003xaa.3	+	24	2841	c.2739C>T	c.(2737-2739)ATC>ATT	p.I913I	XPO7_uc010lti.2_Silent_p.I922I|XPO7_uc010ltk.2_Silent_p.I914I	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	913					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		CTCACGTCATCATGTATATTC	0.448													35	72					0	0	0.003271	0	0		T	21857142	T	T	21857142	2	4	8	1	0	0	0	0	0	0	0	1	17475	816	29	4		4	XPO7	8	21857142	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8766	21857142	124506880	631	7440											
REEP4	80346	broad.mit.edu	37	chr8	21996976	21996976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcggcaatgttgaggccccGcttcccgaagctgagcacgg	7	6	15	13	4	0	2	0	2	0	0	1	3	1	2	3	4	2	5	3	4	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:21996976G>A	uc003xau.1	-	5	823	c.370C>T	c.(370-372)CGG>TGG	p.R124W	REEP4_uc010ltt.1_Missense_Mutation_p.R124W|REEP4_uc011kyz.1_Missense_Mutation_p.R124W	NM_025232	NP_079508	Q9H6H4	REEP4_HUMAN	receptor accessory protein 4	124						integral to membrane				skin(1)	1				Colorectal(74;0.00187)|COAD - Colon adenocarcinoma(73;0.061)|READ - Rectum adenocarcinoma(644;0.0993)		TTGAGGCCCCGCTTCCCGAAG	0.662													4	20					0	0	0.009096	0	0		A	21996976	A	A	21996976	3	1	8	1	0	0	0	0	1	0	0	0	13232	1086	38	1	419	1	REEP4	8	21996976	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	139834	21996976	124367046	632	7441											
PIWIL2	55124	broad.mit.edu	37	chr8	22147407	22147407	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggggagaaacttttatgAccctacaagtgctatggtac	11	12	11	7	0	0	2	0	1	0	1	0	3	0	2	1	3	4	2	1	3	6	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:22147407A>G	uc003xbn.2	+	9	1182	c.1034A>G	c.(1033-1035)GAC>GGC	p.D345G	PIWIL2_uc011kzf.1_Missense_Mutation_p.D345G|PIWIL2_uc010ltv.2_Missense_Mutation_p.D345G	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2	345					DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		AACTTTTATGACCCTACAAGT	0.343													14	51					0	0	0.004007	0	0		G	22147407	G	G	22147407	3	3	8	1	0	0	0	0	1	0	0	0	11977	275	10	3	1064	3	PIWIL2	8	22147407	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	150431	22147407	124216615	633	7442											
PIWIL2	55124	broad.mit.edu	37	chr8	22210726	22210726	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaataacaagctgtgagtgGtaagtgagcaaaatatgtag	17	9	11	4	0	0	2	0	2	0	0	0	2	0	2	0	1	3	4	0	1	8	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:22210726G>A	uc003xbn.2	+	21	2805	c.2657_splice	c.e21+1	p.W886_splice	PIWIL2_uc011kzf.1_Splice_Site_p.W886_splice|PIWIL2_uc010ltv.2_Splice_Site_p.W886_splice|PIWIL2_uc003xbo.2_Splice_Site_p.W40_splice	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2						DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		GCTGTGAGTGGTAAGTGAGCA	0.413													33	76					0	0	0.004289	0	0		A	22210726	A	A	22210726	5	1	8	1	0	0	0	0	0	0	1	0	11977	1275	44	4	2736	4	PIWIL2	8	22210726	Splice_Site	SNP	G	TCGA-BR-4201-01A-01D-1126-08	63319	22210726	124153296	634	7443											
KIAA1967	57805	broad.mit.edu	37	chr8	22463333	22463333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacccgcttccagggggacGcaacttctcaggtgatcact	9	8	10	14	2	2	1	2	1	1	0	4	2	3	2	2	3	2	2	2	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:22463333G>A	uc003xch.2	+	2	184	c.47G>A	c.(46-48)CGC>CAC	p.R16H	KIAA1967_uc003xci.2_Missense_Mutation_p.R16H|KIAA1967_uc003xcj.1_5'Flank	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	16					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		CCAGGGGGACGCAACTTCTCA	0.527													12	65					0	0	0.010729	0	0		A	22463333	A	A	22463333	3	1	8	1	0	0	0	0	1	0	0	0	8281	1087	38	1	49	1	KIAA1967	8	22463333	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	252607	22463333	123900689	635	7444											
RHOBTB2	23221	broad.mit.edu	37	chr8	22864897	22864897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacggaacagggtacctacCgggcaggggtcgtgtgctgt	8	7	16	10	3	0	0	0	0	0	0	1	1	0	1	2	5	5	3	2	5	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:22864897C>T	uc003xcq.2	+	5	1676	c.1139C>T	c.(1138-1140)CCG>CTG	p.P380L	RHOBTB2_uc003xcp.2_Missense_Mutation_p.P402L|RHOBTB2_uc011kzp.1_Missense_Mutation_p.P387L|uc003xcr.2_RNA	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	380	BTB 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		GGGTACCTACCGGGCAGGGGT	0.617													27	59					0	0	0.009535	0	0		T	22864897	T	T	22864897	3	4	8	1	0	0	0	0	1	0	0	0	13359	652	23	1	1238	1	RHOBTB2	8	22864897	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	401564	22864897	123499125	636	7445											
NEFL	4747	broad.mit.edu	37	chr8	24813156	24813156	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggcgtcggtgttcttggCggcgctctcggtcagcacgg	3	9	16	13	7	3	0	1	0	2	0	5	0	3	0	0	6	1	3	0	6	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:24813156C>T	uc003xee.2	-	1	976	c.874G>A	c.(874-876)GCC>ACC	p.A292T		NM_006158	NP_006149	P07196	NFL_HUMAN	neurofilament, light polypeptide 68kDa	292	Rod.|Coil 2B.				anterograde axon cargo transport|axon transport of mitochondrion|neurofilament bundle assembly|retrograde axon cargo transport|synaptic transmission	cytosol|neurofilament	identical protein binding|protein C-terminus binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.00965)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		GTGTTCTTGGCGGCGCTCTCG	0.632													10	18					0	0	0.008291	0	0		T	24813156	T	T	24813156	3	4	8	1	0	0	0	0	1	0	0	0	10334	768	27	1	774	1	NEFL	8	24813156	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1948259	24813156	121550866	637	7446											
DPYSL2	1808	broad.mit.edu	37	chr8	26501484	26501484	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggagacctccaggtcacGggcagtgcccattgcacgtt	8	8	13	12	2	1	1	1	0	0	1	2	2	2	1	3	3	2	3	3	3	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:26501484G>A	uc003xfb.1	+	10	1337	c.987G>A	c.(985-987)ACG>ACA	p.T329T	DPYSL2_uc003xfa.2_Silent_p.T434T|DPYSL2_uc010luk.1_RNA|DPYSL2_uc011lah.1_Silent_p.T293T	NM_001386	NP_001377	Q16555	DPYL2_HUMAN	dihydropyrimidinase-like 2	329					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	dihydropyrimidinase activity|protein binding			large_intestine(1)	1		all_cancers(63;0.121)|Ovarian(32;2.68e-05)|all_epithelial(46;0.116)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;3.33e-10)|Colorectal(74;0.183)		TCCAGGTCACGGGCAGTGCCC	0.542													8	21					0	0	0.006214	0	0		A	26501484	A	A	26501484	2	1	8	1	0	0	0	0	0	0	0	1	4753	1103	39	1		1	DPYSL2	8	26501484	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1688328	26501484	119862538	638	7447											
DPYSL2	1808	broad.mit.edu	37	chr8	26501587	26501587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgaggagcggatgtccGtcatctgggacaaggctgtg	8	8	16	9	2	2	1	1	1	1	0	3	4	3	4	1	4	1	2	1	4	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:26501587G>A	uc003xfb.1	+	10	1440	c.1090G>A	c.(1090-1092)GTC>ATC	p.V364I	DPYSL2_uc003xfa.2_Missense_Mutation_p.V469I|DPYSL2_uc010luk.1_RNA|DPYSL2_uc011lah.1_Missense_Mutation_p.V328I	NM_001386	NP_001377	Q16555	DPYL2_HUMAN	dihydropyrimidinase-like 2	364					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	dihydropyrimidinase activity|protein binding			large_intestine(1)	1		all_cancers(63;0.121)|Ovarian(32;2.68e-05)|all_epithelial(46;0.116)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;3.33e-10)|Colorectal(74;0.183)		GCGGATGTCCGTCATCTGGGA	0.582													8	40					0	0	0.006214	0	0		A	26501587	A	A	26501587	3	1	8	1	0	0	0	0	1	0	0	0	4753	1145	40	1	1128	1	DPYSL2	8	26501587	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	103	26501587	119862435	639	7448											
PTK2B	2185	broad.mit.edu	37	chr8	27303434	27303434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcaaacgccacagcatgCgggtaagagggctctgcatg	10	8	12	11	2	3	1	1	0	2	1	3	1	3	1	1	2	4	4	1	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:27303434C>T	uc003xfn.1	+	29	3146	c.2338C>T	c.(2338-2340)CGG>TGG	p.R780W	PTK2B_uc003xfo.1_Missense_Mutation_p.R780W|PTK2B_uc003xfp.1_Missense_Mutation_p.R780W|PTK2B_uc003xfq.1_Intron	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	780				R -> G (in Ref. 2; AAB47217).	apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		CCACAGCATGCGGGTAAGAGG	0.617													13	64					0	0	0.003163	0	0		T	27303434	T	T	27303434	3	4	8	1	0	0	0	0	1	0	0	0	12786	759	27	1	2428	1	PTK2B	8	27303434	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	801847	27303434	119060588	640	7449											
KIF13B	23303	broad.mit.edu	37	chr8	29005050	29005050	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcatacataagcctctggCgctccagtgcagatcgtttt	8	12	9	12	2	2	1	1	0	1	1	4	1	3	1	2	1	3	4	2	1	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:29005050C>T	uc003xhh.3	-	17	1942	c.1883G>A	c.(1882-1884)CGC>CAC	p.R628H	KIF13B_uc003xhj.2_Missense_Mutation_p.R525H	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	628	Potential.				microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		AAGCCTCTGGCGCTCCAGTGC	0.453													4	38					0	0	0.009096	0	0		T	29005050	T	T	29005050	3	4	8	1	0	0	0	0	1	0	0	0	8291	768	27	1	3693	1	KIF13B	8	29005050	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1701616	29005050	117358972	641	7450											
ADAM32	203102	broad.mit.edu	37	chr8	39068795	39068795	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccgaaaccagtctgtggCaatggcagattggagggaaa	12	8	13	8	1	2	1	0	0	2	1	3	4	2	3	2	4	1	2	2	4	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:39068795C>T	uc003xmt.3	+	12	1430	c.1185C>T	c.(1183-1185)GGC>GGT	p.G395G	ADAM32_uc011lch.1_Intron|ADAM32_uc003xmu.3_Intron	NM_145004	NP_659441	Q8TC27	ADA32_HUMAN	a disintegrin and metalloprotease domain 32	395	Disintegrin.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)			CAGTCTGTGGCAATGGCAGAT	0.338													8	14					0	0	0.006214	0	0		T	39068795	T	T	39068795	2	4	8	1	0	0	0	0	0	0	0	1	249	697	25	2		2	ADAM32	8	39068795	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	10063745	39068795	107295227	642	7451											
ADAM18	8749	broad.mit.edu	37	chr8	39495209	39495209	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctacggccccatgacataGcatacttacttgtgtaagca	11	11	7	12	1	0	1	0	1	0	0	1	1	1	1	3	1	5	3	3	1	5	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:39495209G>T	uc003xni.2	+	9	814	c.814G>T	c.(814-816)GCA>TCA	p.A272S	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.A248S	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	272	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			CCATGACATAGCATACTTACT	0.338													18	58					1.01871e-10	1.12988e-10	0.008871	1	0		T	39495209	T	T	39495209	3	4	8	1	0	0	0	0	1	0	0	0	239	971	34	5	848	5	ADAM18	8	39495209	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	426414	39495209	106868813	643	7452											
ANK1	286	broad.mit.edu	37	chr8	41550195	41550195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctccgggccacctccaCgaagttctcatgctgctcca	6	9	8	18	2	1	0	1	0	1	0	5	1	4	0	6	1	3	4	6	1	1	1	rs148942046	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:41550195C>T	uc003xok.2	-	31	3913	c.3829G>A	c.(3829-3831)GTG>ATG	p.V1277M	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Missense_Mutation_p.V593M|ANK1_uc003xoi.2_Missense_Mutation_p.V1277M|ANK1_uc003xoj.2_Missense_Mutation_p.V1277M|ANK1_uc003xol.2_Missense_Mutation_p.V1277M|ANK1_uc003xom.2_Missense_Mutation_p.V1318M	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1277					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			GCCACCTCCACGAAGTTCTCA	0.577													39	197					0	0	0.013114	0	0		T	41550195	T	T	41550195	3	4	8	1	0	0	0	0	1	0	0	0	620	536	19	1	2190	1	ANK1	8	41550195	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2054986	41550195	104813827	644	7453											
AP3M2	10947	broad.mit.edu	37	chr8	42023047	42023047	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctcctgatggaaacttcCgcctgctgtcttaccatgtc	6	13	7	15	1	1	1	0	1	1	0	5	2	4	2	5	1	3	1	5	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:42023047C>T	uc003xop.2	+	7	1063	c.772C>T	c.(772-774)CGC>TGC	p.R258C	AP3M2_uc003xoo.2_Missense_Mutation_p.R258C|AP3M2_uc010lxe.2_RNA|AP3M2_uc003xoq.1_Missense_Mutation_p.R143C|AP3M2_uc003xor.1_Missense_Mutation_p.R258C	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	258	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			TGGAAACTTCCGCCTGCTGTC	0.453													39	85					0	0	0.00623	0	0		T	42023047	T	T	42023047	3	4	8	1	0	0	0	0	1	0	0	0	748	652	23	1	790	1	AP3M2	8	42023047	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	472852	42023047	104340975	645	7454											
PRKDC	5591	broad.mit.edu	37	chr8	48690324	48690324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggtctgagcggaaggcccGgagtgcgtgtaccatgatgc	8	7	17	9	3	1	2	0	2	1	0	1	4	1	4	2	4	4	1	2	4	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:48690324G>A	uc003xqi.2	-	85	12022	c.11965C>T	c.(11965-11967)CGG>TGG	p.R3989W	PRKDC_uc003xqj.2_Missense_Mutation_p.R3958W|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3989	PI3K/PI4K.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CGGAAGGCCCGGAGTGCGTGT	0.493								NHEJ					26	75					0	0	0.00632	0	0		A	48690324	A	A	48690324	3	1	8	1	0	0	0	0	1	0	0	0	12543	1115	39	1	433	1	PRKDC	8	48690324	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	6667277	48690324	97673698	646	7455											
EFCAB1	79645	broad.mit.edu	37	chr8	49647682	49647682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttttggttaaggtgtccGtcagcttctgcagtttcttg	6	18	10	7	1	3	0	1	0	2	0	4	0	4	0	1	2	2	4	1	2	2	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:49647682G>A	uc003xqo.2	-	1	189	c.29C>T	c.(28-30)ACG>ATG	p.T10M	EFCAB1_uc003xqn.3_RNA|EFCAB1_uc011ldj.1_Missense_Mutation_p.T10M|EFCAB1_uc010lxx.2_RNA|EFCAB1_uc011ldk.1_RNA	NM_024593	NP_078869	Q9HAE3	EFCB1_HUMAN	EF-hand calcium binding domain 1 isoform a	10							calcium ion binding				0		all_epithelial(80;0.0134)|Lung NSC(129;0.0207)|all_lung(136;0.0464)				TAAGGTGTCCGTCAGCTTCTG	0.612													10	87					0	0	0.013537	0	0		A	49647682	A	A	49647682	3	1	8	1	0	0	0	0	1	0	0	0	4939	1145	40	1	630	1	EFCAB1	8	49647682	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	957358	49647682	96716340	647	7456											
PXDNL	137902	broad.mit.edu	37	chr8	52321554	52321554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcatagactgaatccaccGtcgcagagggacggccgctg	9	6	14	12	4	0	3	0	1	0	2	2	4	1	4	3	2	1	3	3	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:52321554G>A	uc003xqu.3	-	17	2731	c.2630C>T	c.(2629-2631)ACG>ATG	p.T877M	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	877					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TGAATCCACCGTCGCAGAGGG	0.662													6	32					0	0	0.004482	0	0		A	52321554	A	A	52321554	3	1	8	1	0	0	0	0	1	0	0	0	12873	1145	40	1	1789	1	PXDNL	8	52321554	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2673872	52321554	94042468	648	7457											
PXDNL	137902	broad.mit.edu	37	chr8	52321594	52321594	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacacgcggggctggagcGcgcgaagagcatgcagggcg	8	2	20	11	6	0	1	0	0	0	1	0	3	0	2	0	5	3	4	0	5	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:52321594G>A	uc003xqu.3	-	17	2691	c.2590C>T	c.(2590-2592)CGC>TGC	p.R864C	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	864					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GGGCTGGAGCGCGCGAAGAGC	0.662													10	21					0	0	0.001855	0	0		A	52321594	A	A	52321594	3	1	8	1	0	0	0	0	1	0	0	0	12873	1087	38	1	1829	1	PXDNL	8	52321594	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	40	52321594	94042428	649	7458											
NPBWR1	2831	broad.mit.edu	37	chr8	53853442	53853442	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccagctgataacttgccgCgcggcagcctgactccccca	7	6	10	18	4	0	2	0	2	0	0	1	2	1	2	5	1	4	2	5	1	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:53853442C>T	uc011ldu.1	+	1	975	c.975C>T	c.(973-975)CGC>CGT	p.R325R		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	325	Cytoplasmic (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				TAACTTGCCGCGCGGCAGCCT	0.692													4	5					0	0	0.006214	0	0		T	53853442	T	T	53853442	2	4	8	1	0	0	0	0	0	0	0	1	10587	755	27	1		1	NPBWR1	8	53853442	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1531848	53853442	92510580	650	7459											
RP1	6101	broad.mit.edu	37	chr8	55533986	55533986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcatgccccgccccccaCggagcctagtggtcttcagg	5	6	12	18	3	2	0	1	0	1	0	2	1	2	1	7	4	2	1	7	4	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:55533986C>T	uc003xsd.1	+	2	608	c.460C>T	c.(460-462)CGG>TGG	p.R154W	RP1_uc011ldy.1_Missense_Mutation_p.R154W	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	154	Doublecortin 2.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CCGCCCCCCACGGAGCCTAGT	0.692													10	47					0	0	0.00245	0	0		T	55533986	T	T	55533986	3	4	8	1	0	0	0	0	1	0	0	0	13557	527	19	1	462	1	RP1	8	55533986	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1680544	55533986	90830036	651	7460											
CHD7	55636	broad.mit.edu	37	chr8	61765392	61765392	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttctgtgttacagaaccGcccgacctctcctccataat	8	11	5	17	2	2	1	0	0	2	1	4	2	3	1	6	0	2	1	6	0	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:61765392G>A	uc003xue.2	+	31	6585	c.6108G>A	c.(6106-6108)CCG>CCA	p.P2036P		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2036					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			TTACAGAACCGCCCGACCTCT	0.473													22	137					0	0	0.014323	0	0		A	61765392	A	A	61765392	2	1	8	1	0	0	0	0	0	0	0	1	3333	1074	38	1		1	CHD7	8	61765392	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	6231406	61765392	84598630	652	7461											
CYP7B1	9420	broad.mit.edu	37	chr8	65528376	65528376	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttataattttctctctaAtagacttgacatttcctaga	12	19	3	7	0	2	3	0	1	2	2	4	3	3	3	1	0	0	0	1	0	5	10			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:65528376A>G	uc003xvj.2	-	3	926	c.722T>C	c.(721-723)ATT>ACT	p.I241T		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	241					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				TTTCTCTCTAATAGACTTGAC	0.328													4	139					0	0	0.000602	0	0		G	65528376	G	G	65528376	3	3	8	1	0	0	0	0	1	0	0	0	4200	101	4	3	814	3	CYP7B1	8	65528376	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3762984	65528376	80835646	653	7462											
CYP7B1	9420	broad.mit.edu	37	chr8	65528706	65528706	+	Frame_Shift_Del	DEL	T	-	-																															gctcatcattcatgtcatgaTttttttgcaactgactgatg																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:65528706delT	uc003xvj.2	-	3	596	c.392delA	c.(391-393)AATfs	p.N131fs		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	131					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				CATGTCATGATTTTTTTGCAA	0.323													29	52	---	---	---	---						.	-	65528706	-	-	65528706	7	5	8	1	0	1	0	1	0	0	0	0	4200	1493	52	0	1144	0	CYP7B1	8	65528706	Frame_Shift_Del	DEL	T	TCGA-BR-4201-01A-01D-1126-08	330	65528706	80835316	654	7463											
ADHFE1	137872	broad.mit.edu	37	chr8	67369347	67369347	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgtccccagcggtgttcActttcacggcccagatgttt	6	12	9	14	3	3	1	3	0	0	1	4	1	4	1	3	2	1	2	3	2	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:67369347A>G	uc003xwb.3	+	12	1142	c.1108A>G	c.(1108-1110)ACT>GCT	p.T370A	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Missense_Mutation_p.T322A|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_RNA|ADHFE1_uc011les.1_Missense_Mutation_p.T300A	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	370					2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			AGCGGTGTTCACTTTCACGGC	0.483													17	177					0	0	0.008871	0	0		G	67369347	G	G	67369347	3	3	8	1	0	0	0	0	1	0	0	0	314	159	6	3	1154	3	ADHFE1	8	67369347	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1840641	67369347	78994675	655	7464											
C8orf45	157777	broad.mit.edu	37	chr8	67789611	67789611	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtgctgaaattaacacatTtacctcccctgccaagttat	12	13	5	11	0	0	1	0	1	0	0	1	1	1	1	4	0	4	2	4	0	6	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:67789611T>G	uc003xwz.3	+	5	484	c.313T>G	c.(313-315)TTA>GTA	p.L105V	C8orf45_uc003xwv.2_Missense_Mutation_p.L105V|C8orf45_uc011lev.1_Missense_Mutation_p.L105V|C8orf45_uc011lew.1_Missense_Mutation_p.L36V|C8orf45_uc011lex.1_Intron|C8orf45_uc003xwy.3_Missense_Mutation_p.L105V	NM_173518	NP_775789	Q4G0Z9	CH045_HUMAN	minichromosome maintenance complex	105					DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)			ATTAACACATTTACCTCCCCT	0.299													4	47					0	0	0.000602	0	0		G	67789611	G	G	67789611	3	3	8	1	0	0	0	0	1	0	0	0	2433	1838	64	5	327	5	C8orf45	8	67789611	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	420264	67789611	78574411	656	7465											
NCOA2	10499	broad.mit.edu	37	chr8	71068296	71068296	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctgtcttactgtccagTctctcaagtttgggggttat	6	16	11	8	0	4	0	1	0	3	0	6	1	5	1	1	3	1	2	1	3	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:71068296T>C	uc003xyn.1	-	11	2466	c.2304A>G	c.(2302-2304)AGA>AGG	p.R768R		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	768					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TACTGTCCAGTCTCTCAAGTT	0.398			T	RUNXBP2	AML								10	60					0	0	0.010729	0	0		C	71068296	C	C	71068296	2	2	8	1	0	0	0	0	0	0	0	1	10248	1664	58	3		3	NCOA2	8	71068296	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	3278685	71068296	75295726	657	7466											
NCOA2	10499	broad.mit.edu	37	chr8	71068364	71068364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctttatctagcaaatagcGaagtagtgcattctctttct	11	16	6	8	1	4	0	0	0	4	0	5	1	4	0	0	0	3	3	0	0	6	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:71068364G>A	uc003xyn.1	-	11	2398	c.2236C>T	c.(2236-2238)CGC>TGC	p.R746C		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	746	LXXLL motif 3.				cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			AGCAAATAGCGAAGTAGTGCA	0.448			T	RUNXBP2	AML								32	98					0	0	0.004878	0	0		A	71068364	A	A	71068364	3	1	8	1	0	0	0	0	1	0	0	0	10248	1058	37	1	2210	1	NCOA2	8	71068364	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	68	71068364	75295658	658	7467											
TRPA1	8989	broad.mit.edu	37	chr8	72946564	72946564	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtagacctcaacaaagtTttcaaaattacctccaacat	16	11	3	11	0	2	1	2	0	0	1	3	1	3	1	3	0	3	2	3	0	7	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:72946564T>C	uc003xza.2	-	22	2779	c.2604A>G	c.(2602-2604)AAA>AAG	p.K868K	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	868	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	TCAACAAAGTTTTCAAAATTA	0.294													6	92					0	0	0.001984	0	0		C	72946564	C	C	72946564	2	2	8	1	0	0	0	0	0	0	0	1	16603	1838	64	3		3	TRPA1	8	72946564	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1878200	72946564	73417458	659	7468											
JPH1	56704	broad.mit.edu	37	chr8	75171672	75171672	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccacagctctcgcgatgtcGcactcctggcgagcggccag	6	6	13	16	5	1	0	0	0	1	0	4	2	2	0	3	2	2	2	3	2	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:75171672G>A	uc003yae.2	-	3	1246	c.1206C>T	c.(1204-1206)TGC>TGT	p.C402C	JPH1_uc003yaf.2_Silent_p.C402C|JPH1_uc003yag.1_Silent_p.C266C	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	402	Ala-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			TCGCGATGTCGCACTCCTGGC	0.617													7	64					0	0	0.00308	0	0		A	75171672	A	A	75171672	2	1	8	1	0	0	0	0	0	0	0	1	7976	1079	38	1		1	JPH1	8	75171672	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2225108	75171672	71192350	660	7469											
ZFHX4	79776	broad.mit.edu	37	chr8	77768354	77768354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcacagcaagaacttgatcGtataaagaaagcttcagacg	16	7	10	8	2	1	4	1	1	0	3	2	4	1	4	0	1	3	4	0	1	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:77768354G>A	uc003yav.2	+	10	9449	c.9062G>A	c.(9061-9063)CGT>CAT	p.R3021H	ZFHX4_uc003yau.1_Missense_Mutation_p.R3066H|ZFHX4_uc003yaw.1_Missense_Mutation_p.R3021H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3021						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GAACTTGATCGTATAAAGAAA	0.552										HNSCC(33;0.089)			49	101					0	0	0.01441	0	0		A	77768354	A	A	77768354	3	1	8	1	0	0	0	0	1	0	0	0	17660	1145	40	1	9231	1	ZFHX4	8	77768354	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2596682	77768354	68595668	661	7470											
PSKH2	85481	broad.mit.edu	37	chr8	87060712	87060712	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaaaagcgcagacagtggCgattctactatccttaagtt	13	11	8	9	2	1	1	0	0	1	1	2	2	2	1	1	1	3	2	1	1	6	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:87060712C>T	uc011lfy.1	-	3	1137	c.1137G>A	c.(1135-1137)TCG>TCA	p.S379S		NM_033126	NP_149117	Q96QS6	KPSH2_HUMAN	protein serine kinase H2	379							ATP binding|protein serine/threonine kinase activity			stomach(2)|lung(2)|ovary(1)	5			STAD - Stomach adenocarcinoma(118;0.129)			CAGACAGTGGCGATTCTACTA	0.428													15	93					0	0	0.00499	0	0		T	87060712	T	T	87060712	2	4	8	1	0	0	0	0	0	0	0	1	12687	755	27	1		1	PSKH2	8	87060712	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	9292358	87060712	59303310	662	7471											
RUNX1T1	862	broad.mit.edu	37	chr8	93026963	93026963	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagccagagaggaggaggaAgaagaggaaggcccattgct	14	5	16	6	0	0	3	0	0	0	3	0	8	0	7	2	5	2	1	2	5	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:93026963A>G	uc003yfd.2	-	3	396	c.312T>C	c.(310-312)TCT>TCC	p.S104S	RUNX1T1_uc003yfc.1_Silent_p.S77S|RUNX1T1_uc003yfe.1_Silent_p.S67S|RUNX1T1_uc010mao.2_Silent_p.S77S|RUNX1T1_uc011lgi.1_Silent_p.S115S|RUNX1T1_uc003yfh.1_Silent_p.S67S|RUNX1T1_uc003yfb.1_Silent_p.S67S|RUNX1T1_uc003yff.1_Silent_p.S67S|RUNX1T1_uc003yfg.1_Silent_p.S67S	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	104	Poly-Ser.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			AGGAGGAGGAAGAAGAGGAAG	0.547													18	46					0	0	0.008871	0	0		G	93026963	G	G	93026963	2	3	8	1	0	0	0	0	0	0	0	1	13772	59	3	3		3	RUNX1T1	8	93026963	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	5966251	93026963	53337059	663	7472											
GEM	2669	broad.mit.edu	37	chr8	95272569	95272569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcagaggaccagcttcggcGgcagtggtcctcaggggtag	7	7	17	10	2	2	1	2	0	0	1	4	2	3	2	2	6	1	3	2	6	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:95272569G>A	uc003ygj.2	-	2	412	c.163C>T	c.(163-165)CGC>TGC	p.R55C	GEM_uc003ygi.2_Missense_Mutation_p.R55C	NM_005261	NP_005252	P55040	GEM_HUMAN	GTP-binding mitogen-induced T-cell protein	55					cell surface receptor linked signaling pathway|immune response|small GTPase mediated signal transduction	internal side of plasma membrane	calmodulin binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding			lung(1)	1	Breast(36;4.65e-06)	Myeloproliferative disorder(644;0.204)	BRCA - Breast invasive adenocarcinoma(8;0.00691)			CAGCTTCGGCGGCAGTGGTCC	0.602													18	17					0	0	0.00278	0	0		A	95272569	A	A	95272569	3	1	8	1	0	0	0	0	1	0	0	0	6344	1116	39	1	743	1	GEM	8	95272569	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2245606	95272569	51091453	664	7473											
CCNE2	9134	broad.mit.edu	37	chr8	95900288	95900288	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtttccctatgaagtgtgTatacttcacatacctagaga	12	14	7	8	0	1	2	1	1	0	1	2	3	2	2	2	0	2	2	2	0	6	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:95900288T>C	uc003yhc.2	-	7	576	c.467A>G	c.(466-468)TAC>TGC	p.Y156C	CCNE2_uc003yhd.2_Missense_Mutation_p.Y156C	NM_057749	NP_477097	O96020	CCNE2_HUMAN	cyclin E2	156					cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	cytosol|nucleoplasm	protein kinase binding				0	Breast(36;8.75e-07)					ATGAAGTGTGTATACTTCACA	0.279													8	78					0	0	0.006214	0	0		C	95900288	C	C	95900288	3	2	8	1	0	0	0	0	1	0	0	0	2924	1638	57	3	771	3	CCNE2	8	95900288	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	627719	95900288	50463734	665	7474											
VPS13B	157680	broad.mit.edu	37	chr8	100568810	100568810	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaccagagaaggaaagtgtCtcaggaggggtggtaacaga	16	5	15	5	0	1	2	1	0	1	2	2	5	1	4	1	5	2	1	1	5	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:100568810C>T	uc003yiv.2	+	31	5064	c.4953C>T	c.(4951-4953)GTC>GTT	p.V1651V	VPS13B_uc003yiw.2_Silent_p.V1626V	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1651					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AGGAAAGTGTCTCAGGAGGGG	0.433													10	62					0	0	0.010729	0	0		T	100568810	T	T	100568810	2	4	8	1	0	0	0	0	0	0	0	1	17216	900	32	4		4	VPS13B	8	100568810	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4668522	100568810	45795212	666	7475											
RNF19A	25897	broad.mit.edu	37	chr8	101300355	101300355	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagggtcagtgtttacacaCagcccttcattatatttaga	12	13	7	9	0	2	1	2	0	0	1	2	1	2	1	1	1	2	1	1	1	4	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:101300355C>T	uc003yjj.1	-	3	365	c.48G>A	c.(46-48)CTG>CTA	p.L16L	RNF19A_uc003yjk.1_Silent_p.L16L|RNF19A_uc003yjl.1_Silent_p.L16L	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	16					microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)			TGTTTACACACAGCCCTTCAT	0.368													22	48					0	0	0.014323	0	0		T	101300355	T	T	101300355	2	4	8	1	0	0	0	0	0	0	0	1	13495	465	17	4		4	RNF19A	8	101300355	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	731545	101300355	45063667	667	7476											
UBR5	51366	broad.mit.edu	37	chr8	103358524	103358524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctccatcttcatcatcccGgctaagtaaattatttacag	12	14	4	11	1	4	0	2	0	2	0	6	0	5	0	2	1	1	2	2	1	5	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:103358524G>A	uc003ykr.1	-	7	709	c.676C>T	c.(676-678)CGG>TGG	p.R226W	UBR5_uc003yks.1_Missense_Mutation_p.R226W	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	226					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TCATCATCCCGGCTAAGTAAA	0.423													8	189					0	0	0.006214	0	0		A	103358524	A	A	103358524	3	1	8	1	0	0	0	0	1	0	0	0	16931	1115	39	1	7935	1	UBR5	8	103358524	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2058169	103358524	43005498	668	7477											
OXR1	55074	broad.mit.edu	37	chr8	107718844	107718844	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagataaatcttctggtgcGtcatcagaatctgtgcaaac	13	11	8	9	1	5	2	2	0	3	2	5	2	5	2	0	1	3	1	0	1	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:107718844G>A	uc011lht.1	+	8	1197	c.1098G>A	c.(1096-1098)GCG>GCA	p.A366A	OXR1_uc003ymf.2_Silent_p.A365A|OXR1_uc011lhu.1_Silent_p.A358A|OXR1_uc010mcg.2_Intron|OXR1_uc010mch.2_Silent_p.A63A|OXR1_uc003ymg.1_Silent_p.A298A|OXR1_uc003ymi.1_Silent_p.A277A	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	366					cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			CTTCTGGTGCGTCATCAGAAT	0.418													20	72					0	0	0.014323	0	0		A	107718844	A	A	107718844	2	1	8	1	0	0	0	0	0	0	0	1	11353	1132	40	1		1	OXR1	8	107718844	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4360320	107718844	38645178	669	7478											
PKHD1L1	93035	broad.mit.edu	37	chr8	110510979	110510979	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgagttacaatgccatcAgtggccttttggacatctca	10	13	8	10	0	3	1	3	1	1	0	4	2	3	2	2	2	2	1	2	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:110510979A>G	uc003yne.2	+	67	10911	c.10807A>G	c.(10807-10809)AGT>GGT	p.S3603G		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3603	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CAATGCCATCAGTGGCCTTTT	0.403										HNSCC(38;0.096)			4	46					0	0	0.009096	0	0		G	110510979	G	G	110510979	3	3	8	1	0	0	0	0	1	0	0	0	11991	188	7	3	11073	3	PKHD1L1	8	110510979	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	2792135	110510979	35853043	670	7479											
CSMD3	114788	broad.mit.edu	37	chr8	113841970	113841970	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccatcgccaattgtcaaggTatcatagccaatctccagat	12	10	6	13	1	3	1	2	0	1	1	5	1	3	1	4	1	1	1	4	1	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:113841970T>C	uc003ynu.2	-	12	1963	c.1804A>G	c.(1804-1806)ACC>GCC	p.T602A	CSMD3_uc003ynt.2_Missense_Mutation_p.T562A|CSMD3_uc011lhx.1_Missense_Mutation_p.T498A	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	602	Extracellular (Potential).|CUB 3.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ATTGTCAAGGTATCATAGCCA	0.403										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			8	69					0	0	0.004482	0	0		C	113841970	C	C	113841970	3	2	8	1	0	0	0	0	1	0	0	0	3949	1638	57	3	9559	3	CSMD3	8	113841970	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	3330991	113841970	32522052	671	7480											
TRPS1	7227	broad.mit.edu	37	chr8	116427198	116427198	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctcattgctgcccctctGctgtttgttgagctgctcag	3	15	9	14	0	3	1	2	1	1	0	4	1	4	1	3	0	5	6	3	0	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:116427198G>A	uc003ynz.2	-	6	3358	c.2899C>T	c.(2899-2901)CAG>TAG	p.Q967*	TRPS1_uc011lhy.1_Nonsense_Mutation_p.Q971*|TRPS1_uc003yny.2_Nonsense_Mutation_p.Q980*|TRPS1_uc010mcy.2_Nonsense_Mutation_p.Q967*	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	967					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			CTGCCCCTCTGCTGTTTGTTG	0.473									Langer-Giedion_syndrome				22	119					0	0	0.00333	0	0		A	116427198	A	A	116427198	4	1	8	1	0	0	0	0	0	1	0	0	16619	1328	46	2	950	2	TRPS1	8	116427198	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2585228	116427198	29936824	672	7481											
TRPS1	7227	broad.mit.edu	37	chr8	116599384	116599384	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataggtcgcgccagatgggcGgcctccacattgggactatc	8	8	13	12	3	0	1	0	0	0	1	3	2	1	2	3	4	0	0	3	4	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:116599384G>A	uc003ynz.2	-	4	2964	c.2505C>T	c.(2503-2505)GCC>GCT	p.A835A	TRPS1_uc011lhy.1_Silent_p.A839A|TRPS1_uc003yny.2_Silent_p.A848A|TRPS1_uc010mcy.2_Silent_p.A835A	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	835					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			CCAGATGGGCGGCCTCCACAT	0.617									Langer-Giedion_syndrome				16	71					0	0	0.00499	0	0		A	116599384	A	A	116599384	2	1	8	1	0	0	0	0	0	0	0	1	16619	1103	39	1		1	TRPS1	8	116599384	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	172186	116599384	29764638	673	7482											
EIF3H	8667	broad.mit.edu	37	chr8	117658816	117658816	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcggctctggcgctgcatAttctcctgctggcgacgctg	3	11	12	15	4	2	0	0	0	2	0	4	1	2	0	2	3	2	5	2	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:117658816A>G	uc003yoa.2	-	7	881	c.855T>C	c.(853-855)AAT>AAC	p.N285N	EIF3H_uc003yob.2_Silent_p.N299N	NM_003756	NP_003747	O15372	EIF3H_HUMAN	eukaryotic translation initiation factor 3,	285					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(3)	3	all_cancers(13;3.98e-22)|Lung NSC(37;0.000183)|Ovarian(258;0.0172)					GGCGCTGCATATTCTCCTGCT	0.522													42	122					0	0	0.010771	0	0		G	117658816	G	G	117658816	2	3	8	1	0	0	0	0	0	0	0	1	5026	446	16	3		3	EIF3H	8	117658816	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1059432	117658816	28705206	674	7483											
SLC30A8	169026	broad.mit.edu	37	chr8	118170036	118170036	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgattaccagatccaggcGactgtgatgatcatcgtttc	9	12	9	11	2	1	4	1	3	0	1	4	5	2	4	3	1	1	1	3	1	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:118170036G>A	uc003yoh.2	+	4	755	c.525G>A	c.(523-525)GCG>GCA	p.A175A	SLC30A8_uc010mcz.2_Silent_p.A126A|SLC30A8_uc011lia.1_Silent_p.A126A|SLC30A8_uc003yog.2_Silent_p.A126A	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	175	Extracellular (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			AGATCCAGGCGACTGTGATGA	0.557													18	88					0	0	0.008871	0	0		A	118170036	A	A	118170036	2	1	8	1	0	0	0	0	0	0	0	1	14586	1045	37	1		1	SLC30A8	8	118170036	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	511220	118170036	28193986	675	7484											
SLC30A8	169026	broad.mit.edu	37	chr8	118184853	118184853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctttacgatgcactcactcaCcattcagatggaatctccag	11	11	6	13	1	4	1	3	0	1	1	5	3	4	2	2	1	2	1	2	1	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:118184853C>T	uc003yoh.2	+	8	1273	c.1043C>T	c.(1042-1044)ACC>ATC	p.T348I	SLC30A8_uc010mcz.2_Missense_Mutation_p.T299I|SLC30A8_uc011lia.1_Missense_Mutation_p.T299I|SLC30A8_uc003yog.2_Missense_Mutation_p.T299I	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	348	Cytoplasmic (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			CACTCACTCACCATTCAGATG	0.502													47	106					0	0	0.01441	0	0		T	118184853	T	T	118184853	3	4	8	1	0	0	0	0	1	0	0	0	14586	507	18	4	1073	4	SLC30A8	8	118184853	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	14817	118184853	28179169	676	7485											
EXT1	2131	broad.mit.edu	37	chr8	118817060	118817060	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttcatgagaatgtcctcAcaattggccaattggtccac	12	11	8	10	0	2	1	2	1	0	1	4	2	4	1	3	2	0	1	3	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:118817060A>G	uc003yok.1	-	10	2729	c.1956T>C	c.(1954-1956)TGT>TGC	p.C652C		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	652	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			GAATGTCCTCACAATTGGCCA	0.443			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				34	76					0	0	0.004289	0	0		G	118817060	G	G	118817060	2	3	8	1	0	0	0	0	0	0	0	1	5331	157	6	3		3	EXT1	8	118817060	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	632207	118817060	27546962	677	7486											
DEPDC6	64798	broad.mit.edu	37	chr8	120886177	120886177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaagggagctggagcgcatgGctgaggtcttggtcaccggg	8	7	18	8	2	2	1	1	1	1	0	2	3	2	3	1	6	2	3	1	6	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:120886177G>A	uc003yow.3	+	1	278	c.91G>A	c.(91-93)GCT>ACT	p.A31T	DEPDC6_uc011lid.1_Missense_Mutation_p.A31T	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	31					intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GGAGCGCATGGCTGAGGTCTT	0.657													4	29					0	0	0.009096	0	0		A	120886177	A	A	120886177	3	1	8	1	0	0	0	0	1	0	0	0	4449	1203	42	2	93	2	DEPDC6	8	120886177	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2069117	120886177	25477845	678	7487											
COL14A1	7373	broad.mit.edu	37	chr8	121256225	121256225	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggatggcgaaggcgtcagCgtctccgctcctggaaaaac	10	6	13	12	5	2	0	1	0	1	0	4	3	3	2	2	4	2	1	2	4	3	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:121256225C>T	uc003yox.2	+	20	2722	c.2457C>T	c.(2455-2457)AGC>AGT	p.S819S	COL14A1_uc003yoy.2_Silent_p.S497S	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	819	Fibronectin type-III 6.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			AAGGCGTCAGCGTCTCCGCTC	0.488													26	116					0	0	0.00333	0	0		T	121256225	T	T	121256225	2	4	8	1	0	0	0	0	0	0	0	1	3674	767	27	1		1	COL14A1	8	121256225	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	370048	121256225	25107797	679	7488											
HAS2	3037	broad.mit.edu	37	chr8	122627011	122627011	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcagtaaggcacttagatcGagctgtgtattttgttgcat	9	16	10	6	1	1	1	1	0	0	1	2	2	1	1	0	1	2	6	0	1	3	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:122627011G>A	uc003yph.2	-	4	1535	c.997C>T	c.(997-999)CGA>TGA	p.R333*		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	333	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			CACTTAGATCGAGCTGTGTAT	0.468													15	128					0	0	0.004007	0	0		A	122627011	A	A	122627011	4	1	8	1	0	0	0	0	0	1	0	0	6978	1066	37	1	665	1	HAS2	8	122627011	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1370786	122627011	23737011	680	7489											
KLHL38	340359	broad.mit.edu	37	chr8	124663889	124663889	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtctttggtctttcacagcGactgcggggtggagcacccc	6	10	13	12	2	3	0	1	0	2	0	3	2	3	1	2	4	3	1	2	4	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:124663889G>A	uc003yqs.1	-	1	1302	c.1278C>T	c.(1276-1278)GTC>GTT	p.V426V		NM_001081675	NP_001075144	Q2WGJ6	KLH38_HUMAN	kelch-like 38	426	Kelch 3.										0						CTTTCACAGCGACTGCGGGGT	0.552													11	77					0	0	0.008291	0	0		A	124663889	A	A	124663889	2	1	8	1	0	0	0	0	0	0	0	1	8406	1045	37	1		1	KLHL38	8	124663889	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2036878	124663889	21700133	681	7490											
FAM91A1	157769	broad.mit.edu	37	chr8	124824810	124824810	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccagtttttcaagtttgCtttcacagtcatcgtgtgct	7	16	8	10	1	3	0	3	0	0	0	4	0	3	0	1	0	3	4	1	0	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:124824810C>A	uc003yqv.2	+	24	2444	c.2383C>A	c.(2383-2385)CTT>ATT	p.L795I	FAM91A1_uc011lil.1_Missense_Mutation_p.L553I	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769	795										ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			TTCAAGTTTGCTTTCACAGTC	0.383													29	102					5.8336e-16	6.55255e-16	0.003271	1	0		A	124824810	A	A	124824810	3	1	8	1	0	0	0	0	1	0	0	0	5665	797	28	5	2477	5	FAM91A1	8	124824810	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	160921	124824810	21539212	682	7491											
FER1L6	654463	broad.mit.edu	37	chr8	125074138	125074138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgccactgagcatctgcGtggtggactggagagctttt	7	10	13	11	2	1	2	0	1	1	1	1	4	1	3	2	3	3	2	2	3	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:125074138G>A	uc003yqw.2	+	25	3399	c.3193G>A	c.(3193-3195)GTG>ATG	p.V1065M	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1065	Cytoplasmic (Potential).|C2 4.					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			GAGCATCTGCGTGGTGGACTG	0.557													8	74					0	0	0.008291	0	0		A	125074138	A	A	125074138	3	1	8	1	0	0	0	0	1	0	0	0	5829	1145	40	1	3287	1	FER1L6	8	125074138	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	249328	125074138	21289884	683	7492											
TG	7038	broad.mit.edu	37	chr8	133899619	133899619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgtgaaaagcaaagggctCgcatgcaaagcctcatgggc	13	6	12	10	1	1	1	1	1	0	0	2	1	1	1	1	2	3	4	1	2	4	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:133899619C>T	uc003ytw.2	+	9	2043	c.2002C>T	c.(2002-2004)CGC>TGC	p.R668C		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	668	Thyroglobulin type-1 6.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GCAAAGGGCTCGCATGCAAAG	0.557													7	47					0	0	0.00308	0	0		T	133899619	T	T	133899619	3	4	8	1	0	0	0	0	1	0	0	0	15838	884	31	1	2036	1	TG	8	133899619	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8825481	133899619	12464403	684	7493											
WISP1	8840	broad.mit.edu	37	chr8	134237718	134237718	+	Frame_Shift_Del	DEL	G	-	-																															tgctccaccagctgcggcctGggggtctccactcggatctc																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:134237718delG	uc003yub.2	+	4	772	c.696delG	c.(694-696)CTGfs	p.L232fs	WISP1_uc003yuc.2_Frame_Shift_Del_p.L145fs|WISP1_uc010meb.2_Frame_Shift_Del_p.L60fs|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	232	TSP type-1.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GCTGCGGCCTGGGGGTCTCCA	0.607													30	44	---	---	---	---						.	-	134237718	-	-	134237718	7	5	8	1	0	1	0	1	0	0	0	0	17398	1335	47	0	710	0	WISP1	8	134237718	Frame_Shift_Del	DEL	G	TCGA-BR-4201-01A-01D-1126-08	338099	134237718	12126304	685	7494											
ZFAT	57623	broad.mit.edu	37	chr8	135649947	135649947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctctcttcctcttcatgaCcaaaaactctacagaggaaa	13	10	5	13	0	4	2	1	1	3	1	6	3	5	3	3	1	2	0	3	1	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:135649947C>T	uc003yup.2	-	3	380	c.205G>A	c.(205-207)GTC>ATC	p.V69I	ZFAT_uc003yun.2_Missense_Mutation_p.V57I|ZFAT_uc003yuo.2_Missense_Mutation_p.V57I|ZFAT_uc010meh.2_Missense_Mutation_p.V57I|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.V57I|ZFAT_uc010mej.2_Missense_Mutation_p.V69I|ZFAT_uc003yur.2_Missense_Mutation_p.V57I	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	69					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			CTCTTCATGACCAAAAACTCT	0.522													24	59					0	0	0.00333	0	0		T	135649947	T	T	135649947	3	4	8	1	0	0	0	0	1	0	0	0	17657	507	18	4	3582	4	ZFAT	8	135649947	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1412229	135649947	10714075	686	7495											
KHDRBS3	10656	broad.mit.edu	37	chr8	136594174	136594174	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgtagtaccacgagggaCgccaactcccagaggagtcc	11	6	12	12	2	0	1	0	0	0	1	2	4	2	3	4	2	2	3	4	2	3	3	rs150971318		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:136594174C>T	uc003yuv.2	+	6	1059	c.665C>T	c.(664-666)ACG>ATG	p.T222M	KHDRBS3_uc003yuw.2_Missense_Mutation_p.T222M|KHDRBS3_uc010mek.2_RNA	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal	222	Interaction with SIAH1.			Missing: Complete loss of SIAH1-mediated degradation.	regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			CCACGAGGGACGCCAACTCCC	0.557													14	54					0	0	0.00245	0	0		T	136594174	T	T	136594174	3	4	8	1	0	0	0	0	1	0	0	0	8164	536	19	1	687	1	KHDRBS3	8	136594174	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	944227	136594174	9769848	687	7496											
EIF2C2	27161	broad.mit.edu	37	chr8	141567204	141567204	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgcctccaggggaaggtagGtgtgtttctgctcctgtccg	4	13	14	10	1	1	0	0	0	1	0	4	1	4	1	4	4	2	3	4	4	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:141567204G>C	uc003yvn.2	-	8	1050	c.1010C>G	c.(1009-1011)ACC>AGC	p.T337S	EIF2C2_uc010men.2_Missense_Mutation_p.T260S|EIF2C2_uc010meo.2_Missense_Mutation_p.T337S	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	337	PAZ.				mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			GGGAAGGTAGGTGTGTTTCTG	0.607													29	82					0	0	0.010818	0	0		C	141567204	C	C	141567204	3	2	8	1	0	0	0	0	1	0	0	0	5012	1261	44	5	1617	5	EIF2C2	8	141567204	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4973030	141567204	4796818	688	7497											
DENND3	22898	broad.mit.edu	37	chr8	142186732	142186732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catttctacttcggagaataCccactttaaaaatcagagtg	14	12	6	9	1	2	2	1	0	1	2	3	3	2	2	1	1	2	0	1	1	6	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:142186732C>T	uc003yvy.2	+	15	2616	c.2338C>T	c.(2338-2340)CCC>TCC	p.P780S	DENND3_uc010mep.2_Missense_Mutation_p.P741S	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	780										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			TCGGAGAATACCCACTTTAAA	0.468													12	55					0	0	0.001855	0	0		T	142186732	T	T	142186732	3	4	8	1	0	0	0	0	1	0	0	0	4438	507	18	4	2392	4	DENND3	8	142186732	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	619528	142186732	4177290	689	7498											
EPPK1	83481	broad.mit.edu	37	chr8	144942358	144942358	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacggggtcgatgatgccGcccgtggcgatctgggcctc	4	8	16	13	5	1	1	0	1	1	0	3	3	1	1	3	4	2	1	3	4	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:144942358G>A	uc003zaa.1	-	1	5077	c.5064C>T	c.(5062-5064)GGC>GGT	p.G1688G		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1688	Plectin 29.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CGATGATGCCGCCCGTGGCGA	0.672													22	28					0	0	0.004656	0	0		A	144942358	A	A	144942358	2	1	8	1	0	0	0	0	0	0	0	1	5198	1074	38	1		1	EPPK1	8	144942358	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2755626	144942358	1421664	690	7499											
LRRC14	9684	broad.mit.edu	37	chr8	145745377	145745377	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcatgcaggctgttatcCtggggctgactgcccggctc	6	9	14	12	1	0	2	0	1	0	1	2	2	1	2	2	4	3	6	2	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:145745377C>A	uc003zdk.1	+	2	414	c.268C>A	c.(268-270)CTG>ATG	p.L90M	RECQL4_uc003zdj.2_5'Flank|LRRC14_uc003zdl.1_Missense_Mutation_p.L90M|LRRC14_uc003zdo.2_5'Flank	NM_014665	NP_055480	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	90											0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			GGCTGTTATCCTGGGGCTGAC	0.647													6	33					0.00116845	0.00122775	0.001168	1	0		A	145745377	A	A	145745377	3	1	8	1	0	0	0	0	1	0	0	0	8986	680	24	5	270	5	LRRC14	8	145745377	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	803019	145745377	618645	691	7500											
ARHGAP39	80728	broad.mit.edu	37	chr8	145771022	145771022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgatggacaccttccgcCggaagaggccctgcgtgtgc	6	7	15	13	4	0	1	0	0	0	1	1	4	1	3	4	4	2	0	4	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr8:145771022C>T	uc003zdt.1	-	7	2687	c.2132G>A	c.(2131-2133)CGG>CAG	p.R711Q	ARHGAP39_uc011llk.1_Missense_Mutation_p.R711Q|ARHGAP39_uc003zds.1_Missense_Mutation_p.R711Q	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	711					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						CACCTTCCGCCGGAAGAGGCC	0.612													5	26					0	0	0.000602	0	0		T	145771022	T	T	145771022	3	4	8	1	0	0	0	0	1	0	0	0	884	652	23	1	1240	1	ARHGAP39	8	145771022	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	25645	145771022	593000	692	7501											
FOXD4	2298	broad.mit.edu	37	chr9	117619	117619	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctgggcggcccggctcGcgggggatcttgacgaagca	5	7	17	12	5	1	1	0	1	1	0	2	3	1	2	2	5	2	2	2	5	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:117619G>A	uc003zfz.2	-	1	799	c.501C>T	c.(499-501)CGC>CGT	p.R167R		NM_207305	NP_997188	Q12950	FOXD4_HUMAN	forkhead box D4	167	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	all_lung(41;0.218)	all_cancers(5;0.0395)|Acute lymphoblastic leukemia(5;1.91e-07)|all_hematologic(5;1.95e-06)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GGCCCGGCTCGCGGGGGATCT	0.632													23	224					0	0	0.003954	0	0		A	117619	A	A	117619	2	1	8	1	0	0	0	0	0	0	0	1	6013	1074	38	1		1	FOXD4	9	117619	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08		117619	141095812	693	7502											
KANK1	23189	broad.mit.edu	37	chr9	711849	711849	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaccgtagaacagagcacGcagaggataaaggagttccg	15	4	14	8	3	0	4	0	0	0	4	1	7	1	6	2	2	2	4	2	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:711849G>A	uc003zgl.1	+	7	1732	c.1083G>A	c.(1081-1083)ACG>ACA	p.T361T	KANK1_uc003zgm.2_Silent_p.T361T|KANK1_uc003zgn.1_Silent_p.T361T|KANK1_uc003zgo.1_Silent_p.T361T|KANK1_uc003zgp.1_Silent_p.T361T|KANK1_uc003zgq.2_Silent_p.T203T|KANK1_uc003zgr.1_Silent_p.T203T|KANK1_uc003zgs.1_Silent_p.T203T	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	361	Potential.				negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		AACAGAGCACGCAGAGGATAA	0.557													5	41					0	0	0.001168	0	0		A	711849	A	A	711849	2	1	8	1	0	0	0	0	0	0	0	1	7992	1074	38	1		1	KANK1	9	711849	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	594230	711849	140501582	694	7503											
DMRT3	58524	broad.mit.edu	37	chr9	990216	990216	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatacgctgtccagaaaaaCggaggcaaccccgagagccg	13	3	13	12	4	0	2	0	0	0	2	1	5	1	4	4	3	4	2	4	3	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:990216C>T	uc003zgw.1	+	2	668	c.630C>T	c.(628-630)AAC>AAT	p.N210N		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	210					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		TCCAGAAAAACGGAGGCAACC	0.597													15	39					0	0	0.003163	0	0		T	990216	T	T	990216	2	4	8	1	0	0	0	0	0	0	0	1	4593	535	19	1		1	DMRT3	9	990216	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	278367	990216	140223215	695	7504											
PTPRD	5789	broad.mit.edu	37	chr9	8518269	8518269	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgacactgtagcgtgtggtCgccaccccatcaatttcttt	7	12	9	13	3	2	0	1	0	1	0	3	1	2	0	3	1	1	1	3	1	2	3	rs137892356		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:8518269C>T	uc003zkk.2	-	20	1833	c.1122G>A	c.(1120-1122)GCG>GCA	p.A374A	PTPRD_uc003zkp.2_Silent_p.A374A|PTPRD_uc003zkq.2_Silent_p.A374A|PTPRD_uc003zkr.2_Silent_p.A368A|PTPRD_uc003zks.2_Silent_p.A364A|PTPRD_uc003zkl.2_Silent_p.A374A|PTPRD_uc003zkm.2_Silent_p.A361A|PTPRD_uc003zkn.2_Silent_p.A374A|PTPRD_uc003zko.2_Silent_p.A371A	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	374	Fibronectin type-III 1.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		AGCGTGTGGTCGCCACCCCAT	0.483										TSP Lung(15;0.13)			20	102					0	0	0.010504	0	0		T	8518269	T	T	8518269	2	4	8	1	0	0	0	0	0	0	0	1	12824	871	31	1		1	PTPRD	9	8518269	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	7528053	8518269	132695162	696	7505											
FREM1	158326	broad.mit.edu	37	chr9	14789027	14789028	+	Frame_Shift_Del	DEL	GT	-	-																															tctgggaatccattgccccgGtgtgtgtgtatctcagcaag																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:14789027_14789028delGT	uc003zlm.2	-	23	4656_4657	c.4066_4067delAC	c.(4066-4068)ACCfs	p.T1356fs	FREM1_uc010mic.2_Intron	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1356	CSPG 9.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		CATTGCCCCGGTGTGTGTGTAT	0.52													16	28	---	---	---	---						.	-	14789028	-	-	14789027	7	5	8	1	0	1	0	1	0	0	0	0	6058	1261	44	0	2582	0	FREM1	9	14789027	Frame_Shift_Del	DEL	GT	TCGA-BR-4201-01A-01D-1126-08	6270758	14789027	126424404	697	7506											
CNTLN	54875	broad.mit.edu	37	chr9	17394855	17394855	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagaaatcacaccagtcAgcagacagagctaaatccga	17	5	9	10	1	2	3	2	0	0	3	3	5	3	3	2	1	2	2	2	1	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:17394855A>G	uc003zmz.2	+	15	2429	c.2403A>G	c.(2401-2403)TCA>TCG	p.S801S	CNTLN_uc003zmy.2_Silent_p.S801S|CNTLN_uc010mio.2_Silent_p.S480S	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	801						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		CACACCAGTCAGCAGACAGAG	0.428													19	82					0	0	0.007413	0	0		G	17394855	G	G	17394855	2	3	8	1	0	0	0	0	0	0	0	1	3642	175	7	3		3	CNTLN	9	17394855	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	2605828	17394855	123818576	698	7507											
ACO1	48	broad.mit.edu	37	chr9	32431791	32431791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgagatccaggcagtggagCgtcagtatgtcatcccgggg	9	7	15	10	3	2	1	2	0	0	1	4	3	4	2	2	4	1	2	2	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:32431791C>T	uc003zqw.3	+	15	1956	c.1801C>T	c.(1801-1803)CGT>TGT	p.R601C	ACO1_uc010mjh.1_Missense_Mutation_p.R435C|ACO1_uc003zqx.3_Missense_Mutation_p.R601C|ACO1_uc003zqy.3_RNA	NM_002197	NP_002188	P21399	ACOC_HUMAN	aconitase 1	601					citrate metabolic process|response to iron(II) ion|tricarboxylic acid cycle	cytosol|endoplasmic reticulum|Golgi apparatus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron-responsive element binding|isocitrate hydro-lyase (cis-aconitate-forming) activity|metal ion binding|protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;3.94e-06)		GGCAGTGGAGCGTCAGTATGT	0.488											OREG0019130	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	81					0	0	0.006122	0	0		T	32431791	T	T	32431791	3	4	8	1	0	0	0	0	1	0	0	0	146	768	27	1	1855	1	ACO1	9	32431791	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	15036936	32431791	108781640	699	7508											
UBAP2	55833	broad.mit.edu	37	chr9	33927811	33927811	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacctgaggtcaccaagggCgcggccctgctactgctgct	7	8	12	14	2	1	1	1	1	0	0	1	1	1	1	3	3	5	3	3	3	3	2	rs144703983	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:33927811C>T	uc003ztq.1	-	20	2468	c.2355G>A	c.(2353-2355)GCG>GCA	p.A785A	UBAP2_uc011loc.1_Silent_p.A694A|UBAP2_uc011lod.1_Silent_p.A518A|UBAP2_uc011loe.1_Silent_p.A540A|UBAP2_uc011lof.1_Silent_p.A710A|UBAP2_uc011log.1_3'UTR|UBAP2_uc003ztn.1_Silent_p.A24A|UBAP2_uc003zto.1_Silent_p.A24A|UBAP2_uc003ztp.1_Silent_p.A24A	NM_018449	NP_060919	Q5T6F2	UBAP2_HUMAN	ubiquitin associated protein 2	785										ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)		TCACCAAGGGCGCGGCCCTGC	0.642													4	27					0	0	0.009096	0	0		T	33927811	T	T	33927811	2	4	8	1	0	0	0	0	0	0	0	1	16863	755	27	1		1	UBAP2	9	33927811	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1496020	33927811	107285620	700	7509											
PIGO	84720	broad.mit.edu	37	chr9	35089116	35089116	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctgggccagaaatagctgCctgaaccaggagctcacagc	11	6	12	12	0	1	2	1	1	0	1	1	3	1	3	3	2	6	3	3	2	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:35089116C>T	uc003zwd.2	-	11	3639	c.3243G>A	c.(3241-3243)AGG>AGA	p.R1081R	PIGO_uc003zwc.1_3'UTR|PIGO_uc003zwe.2_Silent_p.R664R|PIGO_uc003zwf.2_Silent_p.R664R|PIGO_uc003zwg.1_3'UTR	NM_032634	NP_116023	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	1081					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	transferase activity			large_intestine(1)|ovary(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GAAATAGCTGCCTGAACCAGG	0.527													28	99					0	0	0.00632	0	0		T	35089116	T	T	35089116	2	4	8	1	0	0	0	0	0	0	0	1	11913	738	26	2		2	PIGO	9	35089116	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1161305	35089116	106124315	701	7510											
PIGO	84720	broad.mit.edu	37	chr9	35095095	35095095	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattgtcttccactatggcGtggctggcgaagttactacc	8	12	11	10	2	1	1	0	0	1	1	2	2	2	1	2	3	2	2	2	3	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:35095095G>A	uc003zwd.2	-	2	864	c.468C>T	c.(466-468)CAC>CAT	p.H156H	PIGO_uc003zwc.1_Silent_p.H156H|PIGO_uc003zwe.2_Silent_p.H156H|PIGO_uc003zwf.2_Silent_p.H156H|PIGO_uc003zwg.1_Translation_Start_Site	NM_032634	NP_116023	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	156					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	transferase activity			large_intestine(1)|ovary(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			CCACTATGGCGTGGCTGGCGA	0.517													10	45					0	0	0.004007	0	0		A	35095095	A	A	35095095	2	1	8	1	0	0	0	0	0	0	0	1	11913	1136	40	1		1	PIGO	9	35095095	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	5979	35095095	106118336	702	7511											
TMEM8B	51754	broad.mit.edu	37	chr9	35842713	35842713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctggagctccagctcaatgCggtactctttatggagagtg	8	11	12	10	1	2	1	1	0	1	1	3	3	3	2	2	3	4	3	2	3	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:35842713C>T	uc003zym.2	+	7	1293	c.278C>T	c.(277-279)GCG>GTG	p.A93V	TMEM8B_uc003zyk.2_Missense_Mutation_p.A93V|TMEM8B_uc003zyl.2_Missense_Mutation_p.A260V|TMEM8B_uc003zyn.2_Intron|TMEM8B_uc003zyo.2_Missense_Mutation_p.A93V	NM_001042589	NP_001036054	A6NDV4	TMM8B_HUMAN	transmembrane protein 8B isoform a	93	Extracellular (Potential).				cell-matrix adhesion|regulation of growth|regulation of mitotic cell cycle	cell surface|endoplasmic reticulum|integral to membrane|mitochondrion|nucleus|plasma membrane	protein binding			ovary(1)	1						CAGCTCAATGCGGTACTCTTT	0.617													4	13					0	0	0.000602	0	0		T	35842713	T	T	35842713	3	4	8	1	0	0	0	0	1	0	0	0	16240	782	27	1	280	1	TMEM8B	9	35842713	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	747618	35842713	105370718	703	7512											
FBXO10	26267	broad.mit.edu	37	chr9	37537214	37537214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgcctcccttcccgtcccGgaagaggcacttgcggatga	7	7	12	15	4	0	2	0	1	0	1	3	5	3	4	4	3	1	1	4	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:37537214G>A	uc004aab.2	-	3	1361	c.1312C>T	c.(1312-1314)CGG>TGG	p.R438W	FBXO10_uc004aac.2_Missense_Mutation_p.R454W|FBXO10_uc004aad.2_Intron	NM_012166	NP_036298	Q9UK96	FBX10_HUMAN	F-box protein 10	438	PbH1 3.					ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(5)	5				GBM - Glioblastoma multiforme(29;0.0107)		TTCCCGTCCCGGAAGAGGCAC	0.582													8	34					0	0	0.010729	0	0		A	37537214	A	A	37537214	3	1	8	1	0	0	0	0	1	0	0	0	5740	1115	39	1	1594	1	FBXO10	9	37537214	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1694501	37537214	103676217	704	7513											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													6	55					0	0	0.001168	0	0		G	70993145	G	G	70993145	3	3	8	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	33455931	70993145	70220286	705	7514											
TMEM2	23670	broad.mit.edu	37	chr9	74309467	74309467	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgggtttctgctttatcAggtgactggaattgcacagg	7	13	13	8	1	2	1	1	1	1	0	2	2	2	2	0	4	2	4	0	4	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:74309467A>G	uc011lsa.1	-	21	4194	c.3654T>C	c.(3652-3654)CCT>CCC	p.P1218P	TMEM2_uc011lrz.1_Silent_p.P211P|TMEM2_uc010mos.2_Silent_p.P1155P|TMEM2_uc011lsb.1_RNA|TMEM2_uc004aik.2_Silent_p.P52P	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	1218						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		CTGCTTTATCAGGTGACTGGA	0.348													10	38					0	0	0.010729	0	0		G	74309467	G	G	74309467	2	3	8	1	0	0	0	0	0	0	0	1	16146	175	7	3		3	TMEM2	9	74309467	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3316322	74309467	66903964	706	7515											
C9orf79	286234	broad.mit.edu	37	chr9	90502650	90502650	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcagcgtcttcagtctgtgTtgctcaggatccagagcagc	7	11	11	12	1	5	1	3	0	2	1	6	2	6	2	1	1	4	3	1	1	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:90502650T>C	uc004app.3	+	4	3283	c.3248T>C	c.(3247-3249)GTT>GCT	p.V1083A		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	1083						integral to membrane				ovary(3)	3						TCAGTCTGTGTTGCTCAGGAT	0.602													7	47					0	0	0.006214	0	0		C	90502650	C	C	90502650	3	2	8	1	0	0	0	0	1	0	0	0	2500	1725	60	3	3262	3	C9orf79	9	90502650	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	16193183	90502650	50710781	707	7516											
S1PR3	1903	broad.mit.edu	37	chr9	91616512	91616512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagcttactggccatcGccatcgagcggcacttgaca	8	8	10	15	3	0	1	0	1	0	0	2	2	0	1	3	2	4	3	3	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:91616512G>A	uc004aqe.2	+	2	793	c.397G>A	c.(397-399)GCC>ACC	p.A133T		NM_005226	NP_005217	Q99500	S1PR3_HUMAN	sphingosine-1-phosphate receptor 3	133	Helical; Name=3; (By similarity).				anatomical structure morphogenesis|elevation of cytosolic calcium ion concentration|inflammatory response|positive regulation of cell proliferation	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)|central_nervous_system(1)|skin(1)	5						ACTGGCCATCGCCATCGAGCG	0.582											OREG0019291	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	36					0	0	0.012319	0	0		A	91616512	A	A	91616512	3	1	8	1	0	0	0	0	1	0	0	0	13820	1087	38	1	399	1	S1PR3	9	91616512	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1113862	91616512	49596919	708	7517											
C9orf129	445577	broad.mit.edu	37	chr9	96097723	96097723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagagccagggaagtaggCggaatccacgtggttggggc	11	5	18	7	2	0	2	0	0	0	2	1	4	1	4	2	6	1	2	2	6	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:96097723C>T	uc010mre.2	-	3	662	c.298G>A	c.(298-300)GCC>ACC	p.A100T		NM_001098808	NP_001092278	Q5T035	CI129_HUMAN	hypothetical protein LOC445577	100										ovary(1)	1						GGGAAGTAGGCGGAATCCACG	0.617													9	17					0	0	0.013537	0	0		T	96097723	T	T	96097723	3	4	8	1	0	0	0	0	1	0	0	0	2459	768	27	1	304	1	C9orf129	9	96097723	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4481211	96097723	45115708	709	7518											
FANCC	2176	broad.mit.edu	37	chr9	97869413	97869413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcaggaagttgaggagaaGgtgcctgatcagctgttgtg	10	9	17	5	0	1	3	1	2	0	1	1	6	1	4	1	3	3	4	1	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:97869413G>A	uc004avh.2	-	14	1730	c.1468C>T	c.(1468-1470)CTT>TTT	p.L490F		NM_000136	NP_000127	Q00597	FANCC_HUMAN	Fanconi anemia, complementation group C	490					protein complex assembly	cytosol|nucleoplasm	protein binding			kidney(1)	1		Acute lymphoblastic leukemia(62;0.138)				TTGAGGAGAAGGTGCCTGATC	0.592			D|Mis|N|F|S			AML|leukemia		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				6	30					0	0	0.001984	0	0		A	97869413	A	A	97869413	3	1	8	1	0	0	0	0	1	0	0	0	5678	1000	35	4	216	4	FANCC	9	97869413	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1771690	97869413	43344018	710	7519											
ZNF782	158431	broad.mit.edu	37	chr9	99581109	99581109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcactgaaggctttcccgCactcaggacattcatagggt	9	11	9	12	1	3	1	3	1	1	0	5	2	4	2	1	3	0	2	1	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:99581109C>T	uc004awp.1	-	6	1477	c.1196G>A	c.(1195-1197)TGC>TAC	p.C399Y	ZNF782_uc011lup.1_Missense_Mutation_p.C267Y	NM_001001662	NP_001001662	Q6ZMW2	ZN782_HUMAN	zinc finger protein 782	399	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				GGCTTTCCCGCACTCAGGACA	0.428													20	98					0	0	0.007413	0	0		T	99581109	T	T	99581109	3	4	8	1	0	0	0	0	1	0	0	0	18180	710	25	2	907	2	ZNF782	9	99581109	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1711696	99581109	41632322	711	7520											
TRIM14	9830	broad.mit.edu	37	chr9	100854204	100854204	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcttacatttcagcaatagCgatcgctctggtgaggggct	8	12	12	9	2	3	1	1	1	2	0	4	2	3	1	0	3	3	3	0	3	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:100854204C>T	uc004ayd.2	-	5	798	c.780G>A	c.(778-780)TCG>TCA	p.S260S	TRIM14_uc004ayf.1_Silent_p.S167S|TRIM14_uc011luz.1_Silent_p.S38S|TRIM14_uc011lva.1_Silent_p.S41S|TRIM14_uc004ayg.1_Silent_p.S260S|TRIM14_uc004ayh.1_Silent_p.S260S|TRIM14_uc004ayi.1_Intron|TRIM14_uc004ayj.1_Silent_p.S167S	NM_033220	NP_150089	Q14142	TRI14_HUMAN	tripartite motif protein TRIM14 isoform alpha	260	B30.2/SPRY.					cytoplasm|intracellular	zinc ion binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TCAGCAATAGCGATCGCTCTG	0.537													9	63					0	0	0.006214	0	0		T	100854204	T	T	100854204	2	4	8	1	0	0	0	0	0	0	0	1	16515	755	27	1		1	TRIM14	9	100854204	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1273095	100854204	40359227	712	7521											
CORO2A	7464	broad.mit.edu	37	chr9	100887136	100887136	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacctctcgctgggtcaacaGctcccggagccttcggatct	6	9	11	15	3	3	0	1	0	2	0	6	3	4	2	3	3	3	2	3	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:100887136G>A	uc004ayl.2	-	12	1764	c.1498C>T	c.(1498-1500)CTG>TTG	p.L500L	CORO2A_uc004aym.2_Silent_p.L500L|CORO2A_uc004ayk.2_Silent_p.L147L	NM_003389	NP_003380	Q92828	COR2A_HUMAN	coronin, actin binding protein, 2A	500	Potential.				actin cytoskeleton organization|intracellular signal transduction	actin cytoskeleton|transcriptional repressor complex	actin filament binding			skin(2)|ovary(1)|pancreas(1)	4		Acute lymphoblastic leukemia(62;0.0559)				TGGGTCAACAGCTCCCGGAGC	0.567													4	7					0	0	0.000602	0	0		A	100887136	A	A	100887136	2	1	8	1	0	0	0	0	0	0	0	1	3759	962	34	2		2	CORO2A	9	100887136	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	32932	100887136	40326295	713	7522											
INVS	27130	broad.mit.edu	37	chr9	103035322	103035322	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacaggaaaaatctcctcaTgaagcatgaacagttgagaa	18	7	9	7	0	2	4	1	3	1	2	3	6	2	5	1	1	2	2	1	1	5	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:103035322T>C	uc004bap.1	+	12	1960	c.1748T>C	c.(1747-1749)ATG>ACG	p.M583T	INVS_uc010mta.1_Missense_Mutation_p.M487T|INVS_uc011lve.1_Missense_Mutation_p.M487T|INVS_uc004bao.1_Missense_Mutation_p.M583T|INVS_uc004baq.1_Missense_Mutation_p.M487T|INVS_uc004bar.1_Missense_Mutation_p.M487T|INVS_uc010mtb.1_Missense_Mutation_p.M257T	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	583	IQ 1.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				AATCTCCTCATGAAGCATGAA	0.493													18	148					0	0	0.007413	0	0		C	103035322	C	C	103035322	3	2	8	1	0	0	0	0	1	0	0	0	7803	1464	51	3	1790	3	INVS	9	103035322	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2148186	103035322	38178109	714	7523											
RNF20	56254	broad.mit.edu	37	chr9	104312994	104312994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagagcctacagttgaaagCacacttggatgaggctcgga	12	8	13	8	1	0	3	0	3	0	1	1	6	0	5	1	3	3	3	1	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:104312994C>T	uc004bbn.2	+	10	1289	c.1199C>T	c.(1198-1200)GCA>GTA	p.A400V		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	400					histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		CAGTTGAAAGCACACTTGGAT	0.493													30	150					0	0	0.005524	0	0		T	104312994	T	T	104312994	3	4	8	1	0	0	0	0	1	0	0	0	13498	710	25	2	1233	2	RNF20	9	104312994	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1277672	104312994	36900437	715	7524											
CYLC2	1539	broad.mit.edu	37	chr9	105767799	105767799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagagtctaagaaggacGccacgaaagatgccaagaaa	20	3	11	7	2	1	5	0	0	1	5	1	7	1	6	2	1	1	0	2	1	6	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:105767799G>A	uc004bbs.2	+	5	956	c.886G>A	c.(886-888)GCC>ACC	p.A296T		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	296	31 X 3 AA repeats of K-K-X.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				taagaaggacgccacgaaaga	0.174													8	52					0	0	0.00308	0	0		A	105767799	A	A	105767799	3	1	8	1	0	0	0	0	1	0	0	0	4145	1087	38	1	904	1	CYLC2	9	105767799	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1454805	105767799	35445632	716	7525											
ABCA1	19	broad.mit.edu	37	chr9	107645350	107645350	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttgatctgctgtaatgTtctcagaactttgcgcatgt	7	18	8	8	1	3	2	1	1	3	1	4	2	3	2	0	0	3	4	0	0	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:107645350T>A	uc004bcl.2	-	5	704	c.391A>T	c.(391-393)ACA>TCA	p.T131S	ABCA1_uc004bcm.2_Missense_Mutation_p.T71S	NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	131	Extracellular.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TGCTGTAATGTTCTCAGAACT	0.458													15	99					0	0	0.004007	0	0		A	107645350	A	A	107645350	3	1	8	1	0	0	0	0	1	0	0	0	28	1725	60	5	6578	5	ABCA1	9	107645350	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1877551	107645350	33568081	717	7526											
CTNNAL1	8727	broad.mit.edu	37	chr9	111741587	111741587	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatccacacagaaattaactGctgcagttccattctcgcct	12	11	5	13	1	1	1	0	0	1	1	4	1	3	1	3	0	3	3	3	0	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:111741587G>A	uc004bdo.1	-	7	1117	c.1075C>T	c.(1075-1077)CAG>TAG	p.Q359*	CTNNAL1_uc010mts.1_Nonsense_Mutation_p.Q95*|CTNNAL1_uc010mtt.1_Nonsense_Mutation_p.Q359*|CTNNAL1_uc004bdp.1_Nonsense_Mutation_p.Q359*	NM_003798	NP_003789	Q9UBT7	CTNL1_HUMAN	catenin, alpha-like 1	359					cell adhesion|Rho protein signal transduction	actin cytoskeleton|cytosol|plasma membrane	cadherin binding|structural molecule activity			ovary(1)	1				STAD - Stomach adenocarcinoma(157;0.0768)		GAAATTAACTGCTGCAGTTCC	0.398													8	59					0	0	0.006214	0	0		A	111741587	A	A	111741587	4	1	8	1	0	0	0	0	0	1	0	0	4018	1328	46	2	1181	2	CTNNAL1	9	111741587	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4096237	111741587	29471844	718	7527											
WDR31	114987	broad.mit.edu	37	chr9	116079127	116079127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacacaataaggagatggCgtcaccaacagccagagaag	16	4	11	10	1	1	2	1	0	0	2	1	4	1	2	2	2	3	1	2	2	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:116079127C>T	uc004bhe.2	-	11	1258	c.1006G>A	c.(1006-1008)GCC>ACC	p.A336T	uc004bhb.2_5'Flank|WDR31_uc004bhc.2_Missense_Mutation_p.A335T|WDR31_uc004bhd.2_Missense_Mutation_p.A211T|WDR31_uc004bhf.2_RNA	NM_001012361	NP_001012361	Q8NA23	WDR31_HUMAN	WD repeat domain 31 isoform 1	336											0						AAGGAGATGGCGTCACCAACA	0.527													9	47					0	0	0.006214	0	0		T	116079127	T	T	116079127	3	4	8	1	0	0	0	0	1	0	0	0	17312	768	27	1	101	1	WDR31	9	116079127	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4337540	116079127	25134304	719	7528											
RGS3	5998	broad.mit.edu	37	chr9	116241776	116241776	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgctgtttccttaggtcagCtgaggctgtccattgatgcc	5	15	11	10	0	1	2	1	2	0	0	3	2	3	2	3	2	3	4	3	2	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:116241776C>A	uc004bhq.2	+	5	630	c.421C>A	c.(421-423)CTG>ATG	p.L141M	RGS3_uc004bhr.2_Missense_Mutation_p.L29M|RGS3_uc004bhs.2_Translation_Start_Site	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	141	C2.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						CTTAGGTCAGCTGAGGCTGTC	0.537													12	97					4.14922e-12	4.62034e-12	0.004007	1	0		A	116241776	A	A	116241776	3	1	8	1	0	0	0	0	1	0	0	0	13331	796	28	5	518	5	RGS3	9	116241776	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	162649	116241776	24971655	720	7529											
TNC	3371	broad.mit.edu	37	chr9	117848173	117848173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcttctccgctgtagccctCgttgcagatgcagcggcccg	4	10	12	15	4	2	1	0	0	2	1	4	1	2	1	3	1	4	5	3	1	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:117848173C>T	uc004bjj.3	-	3	2199	c.1837G>A	c.(1837-1839)GAG>AAG	p.E613K	TNC_uc010mvf.2_Missense_Mutation_p.E613K	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	613	EGF-like 15.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CTGTAGCCCTCGTTGCAGATG	0.587													6	21					0	0	0.00308	0	0		T	117848173	T	T	117848173	3	4	8	1	0	0	0	0	1	0	0	0	16295	893	31	1	4872	1	TNC	9	117848173	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1606397	117848173	23365258	721	7530											
PTGS1	5742	broad.mit.edu	37	chr9	125140783	125140783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccacttcctgctcactcacGggcgctggttctgggagttt	4	12	11	14	2	3	0	2	0	1	0	4	1	4	1	2	3	1	4	2	3	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:125140783G>A	uc004bmg.1	+	4	418	c.283G>A	c.(283-285)GGG>AGG	p.G95R	PTGS1_uc011lys.1_Missense_Mutation_p.G70R|PTGS1_uc010mwb.1_5'UTR|PTGS1_uc004bmf.1_Missense_Mutation_p.G95R|PTGS1_uc004bmh.1_5'UTR|PTGS1_uc011lyt.1_5'UTR	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	95					cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	GCTCACTCACGGGCGCTGGTT	0.627													9	53					0	0	0.010729	0	0		A	125140783	A	A	125140783	3	1	8	1	0	0	0	0	1	0	0	0	12778	1116	39	1	297	1	PTGS1	9	125140783	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	7292610	125140783	16072648	722	7531											
ZBTB26	57684	broad.mit.edu	37	chr9	125681367	125681367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcgtagttctccaggtgacGaaacaccctggtacactttg	9	10	11	11	2	1	1	0	1	1	0	2	2	1	1	2	3	2	3	2	3	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:125681367G>A	uc004bnj.2	-	2	1059	c.847C>T	c.(847-849)CGT>TGT	p.R283C	ZBTB26_uc004bnk.2_Missense_Mutation_p.R283C	NM_020924	NP_065975	Q9HCK0	ZBT26_HUMAN	zinc finger and BTB domain containing 26	283	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCCAGGTGACGAAACACCCTG	0.463													21	107					0	0	0.004656	0	0		A	125681367	A	A	125681367	3	1	8	1	0	0	0	0	1	0	0	0	17558	1058	37	1	482	1	ZBTB26	9	125681367	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	540584	125681367	15532064	723	7532											
LHX2	9355	broad.mit.edu	37	chr9	126777589	126777589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccgcttgcacttcgaggCgctgctgcagggcgagtacc	5	8	14	14	4	0	0	0	0	0	0	1	2	0	0	2	2	5	6	2	2	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:126777589C>T	uc004boe.1	+	3	1251	c.512C>T	c.(511-513)GCG>GTG	p.A171V	LHX2_uc010mwi.1_Missense_Mutation_p.A179V	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	171						nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CACTTCGAGGCGCTGCTGCAG	0.667													8	33					0	0	0.006214	0	0		T	126777589	T	T	126777589	3	4	8	1	0	0	0	0	1	0	0	0	8787	768	27	1	522	1	LHX2	9	126777589	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1096222	126777589	14435842	724	7533											
ARPC5L	81873	broad.mit.edu	37	chr9	127637424	127637424	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgttactccagtggcaCgaaaaggtatgtgaacgctg	11	9	13	8	2	0	1	0	1	0	0	1	2	1	1	1	2	2	5	1	2	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:127637424C>T	uc004bpa.3	+	3	479	c.393C>T	c.(391-393)CAC>CAT	p.H131H	ARPC5L_uc011lzq.1_Silent_p.H79H	NM_030978	NP_112240	Q9BPX5	ARP5L_HUMAN	actin related protein 2/3 complex, subunit	131					regulation of actin filament polymerization	cytoplasm|cytoskeleton	actin binding				0						TCCAGTGGCACGAAAAGGTAT	0.507													15	64					0	0	0.006122	0	0		T	127637424	T	T	127637424	2	4	8	1	0	0	0	0	0	0	0	1	976	535	19	1		1	ARPC5L	9	127637424	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	859835	127637424	13576007	725	7534											
FAM125B	89853	broad.mit.edu	37	chr9	129154437	129154437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacattcggatcatgggcCggaccaagcaggccccgcct	8	6	13	14	3	1	1	1	1	0	0	2	3	1	3	5	4	1	1	5	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:129154437C>T	uc004bqh.1	+	5	583	c.502C>T	c.(502-504)CGG>TGG	p.R168W	FAM125B_uc004bqg.1_Missense_Mutation_p.R168W|FAM125B_uc011lzy.1_Missense_Mutation_p.R153W|FAM125B_uc010mxd.2_Missense_Mutation_p.R161W|FAM125B_uc011lzz.1_Missense_Mutation_p.R161W	NM_033446	NP_258257	Q9H7P6	F125B_HUMAN	hypothetical protein LOC89853 isoform 1	168	MABP.				protein transport	late endosome membrane					0						GATCATGGGCCGGACCAAGCA	0.507													25	76					0	0	0.003954	0	0		T	129154437	T	T	129154437	3	4	8	1	0	0	0	0	1	0	0	0	5439	643	23	1	520	1	FAM125B	9	129154437	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1517013	129154437	12058994	726	7535											
ZBTB34	403341	broad.mit.edu	37	chr9	129642791	129642791	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgagagggcattggtacccGtacaatgagaggttgatctg	10	9	15	7	2	1	3	0	2	1	2	1	5	1	3	1	3	2	4	1	3	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:129642791G>A	uc004bqm.3	+	2	1198	c.1101G>A	c.(1099-1101)CCG>CCA	p.P367P		NM_001099270	NP_001092740	Q8NCN2	ZBT34_HUMAN	zinc finger and BTB domain containing 34	367					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATTGGTACCCGTACAATGAGA	0.537													15	30					0	0	0.003163	0	0		A	129642791	A	A	129642791	2	1	8	1	0	0	0	0	0	0	0	1	17562	1132	40	1		1	ZBTB34	9	129642791	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	488354	129642791	11570640	727	7536											
FAM129B	64855	broad.mit.edu	37	chr9	130271277	130271277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgcatgtggatctgggctCgctgcttgaacacggacgtg	6	9	14	12	4	1	1	0	1	1	0	2	3	1	3	1	3	2	4	1	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:130271277C>T	uc004brh.2	-	10	1497	c.1295G>A	c.(1294-1296)CGA>CAA	p.R432Q	FAM129B_uc004bri.2_Missense_Mutation_p.R419Q|FAM129B_uc004brj.3_Missense_Mutation_p.R432Q	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	432							protein binding				0						GATCTGGGCTCGCTGCTTGAA	0.637													4	18					0	0	0.009096	0	0		T	130271277	T	T	130271277	3	4	8	1	0	0	0	0	1	0	0	0	5448	884	31	1	965	1	FAM129B	9	130271277	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	628486	130271277	10942154	728	7537											
ODF2	4957	broad.mit.edu	37	chr9	131221920	131221920	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagagcaccttgtggcgcacCcagtgtaactgtgacggtag	9	8	14	10	2	0	2	0	1	0	1	0	3	0	2	2	2	2	4	2	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:131221920C>A	uc011mbd.1	+	3	418	c.107C>A	c.(106-108)CCC>CAC	p.P36H	ODF2_uc011maz.1_Missense_Mutation_p.P36H|ODF2_uc011mba.1_5'UTR|ODF2_uc010myb.2_5'UTR|ODF2_uc011mbb.1_5'UTR|ODF2_uc011mbc.1_5'UTR|ODF2_uc004bva.2_5'UTR|ODF2_uc004bvb.2_5'UTR|ODF2_uc011mbe.1_5'UTR|ODF2_uc004bvc.2_5'UTR|ODF2_uc010myc.2_Missense_Mutation_p.P36H|ODF2_uc011mbf.1_Missense_Mutation_p.P36H|ODF2_uc004bvd.3_Missense_Mutation_p.P36H|ODF2_uc004bve.2_Missense_Mutation_p.P36H	NM_002540	NP_002531	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2 isoform 1	36					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centriole|cilium|cytosol|microtubule|spindle pole	protein binding|structural molecule activity			ovary(1)	1						TGTGGCGCACCCAGTGTAACT	0.517													7	38					2.0095e-06	2.17555e-06	0.001984	1	0		A	131221920	A	A	131221920	3	1	8	1	0	0	0	0	1	0	0	0	10846	623	22	5	113	5	ODF2	9	131221920	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	950643	131221920	9991511	729	7538											
WDR34	89891	broad.mit.edu	37	chr9	131396155	131396155	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagccaagagctgagtctgCtggctgttgaactccagaca	10	8	12	11	0	1	4	0	2	1	2	2	4	2	4	2	1	4	5	2	1	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:131396155C>T	uc004bvq.1	-	9	1603	c.1479G>A	c.(1477-1479)CAG>CAA	p.Q493Q	WDR34_uc004bvs.1_Silent_p.Q484Q|WDR34_uc004bvr.1_Silent_p.Q465Q	NM_052844	NP_443076	Q96EX3	WDR34_HUMAN	WD repeat domain 34	493	WD 5.					cytoplasm				central_nervous_system(2)|skin(1)	3						GCTGAGTCTGCTGGCTGTTGA	0.562													6	36					0	0	0.006214	0	0		T	131396155	T	T	131396155	2	4	8	1	0	0	0	0	0	0	0	1	17314	796	28	2		2	WDR34	9	131396155	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	174235	131396155	9817276	730	7539											
DOLK	22845	broad.mit.edu	37	chr9	131708027	131708027	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattgtctatctgtgtagtgTatgcttccaggagggacaca	9	13	12	7	0	2	0	0	0	2	0	3	3	3	2	1	2	1	3	1	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:131708027T>C	uc004bwr.2	-	1	1986	c.1556A>G	c.(1555-1557)TAC>TGC	p.Y519C	NUP188_uc004bws.1_5'Flank|NUP188_uc004bwq.1_Intron	NM_014908	NP_055723	Q9UPQ8	DOLK_HUMAN	dolichol kinase	519	Cytoplasmic (Potential).				dolichyl diphosphate biosynthetic process|dolichyl monophosphate biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to endoplasmic reticulum membrane|membrane fraction	dolichol kinase activity				0						CTGTGTAGTGTATGCTTCCAG	0.473													19	72					0	0	0.010504	0	0		C	131708027	C	C	131708027	3	2	8	1	0	0	0	0	1	0	0	0	4709	1638	57	3	64	3	DOLK	9	131708027	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	311872	131708027	9505404	731	7540											
SH3GLB2	56904	broad.mit.edu	37	chr9	131771036	131771036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcgccaatgagccagtcaGggtccatgccaggcaggctg	8	7	13	13	1	2	1	1	1	1	0	4	1	3	1	4	3	2	2	4	3	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:131771036G>A	uc004bwv.2	-	11	1261	c.1115C>T	c.(1114-1116)CCT>CTT	p.P372L	SH3GLB2_uc004bww.2_Missense_Mutation_p.P381L|SH3GLB2_uc004bwx.1_Missense_Mutation_p.P372L|SH3GLB2_uc011mbm.1_Missense_Mutation_p.P381L	NM_020145	NP_064530	Q9NR46	SHLB2_HUMAN	SH3-domain GRB2-like endophilin B2	372	SH3.				filopodium assembly|signal transduction	cytoplasm|nucleus	cytoskeletal adaptor activity|SH3 domain binding				0						GAGCCAGTCAGGGTCCATGCC	0.602											OREG0003926	type=REGULATORY REGION|Gene=SH3GLB2|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	3	30					0	0	0.009096	0	0		A	131771036	A	A	131771036	3	1	8	1	0	0	0	0	1	0	0	0	14279	1000	35	4	76	4	SH3GLB2	9	131771036	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	63009	131771036	9442395	732	7541											
SH3GLB2	56904	broad.mit.edu	37	chr9	131777085	131777085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccccctccaggaagttgcGcaagggtgtgaggaagctga	9	7	15	10	1	0	2	0	2	0	0	2	4	2	4	3	3	2	3	3	3	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:131777085G>A	uc004bwv.2	-	4	579	c.433C>T	c.(433-435)CGC>TGC	p.R145C	SH3GLB2_uc004bww.2_Missense_Mutation_p.R145C|SH3GLB2_uc004bwx.1_Missense_Mutation_p.R145C|SH3GLB2_uc011mbm.1_Missense_Mutation_p.R145C	NM_020145	NP_064530	Q9NR46	SHLB2_HUMAN	SH3-domain GRB2-like endophilin B2	145	BAR.				filopodium assembly|signal transduction	cytoplasm|nucleus	cytoskeletal adaptor activity|SH3 domain binding				0						AGGAAGTTGCGCAAGGGTGTG	0.572													14	49					0	0	0.001855	0	0		A	131777085	A	A	131777085	3	1	8	1	0	0	0	0	1	0	0	0	14279	1087	38	1	786	1	SH3GLB2	9	131777085	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	6049	131777085	9436346	733	7542											
USP20	10868	broad.mit.edu	37	chr9	132630629	132630629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaactcggagcaagtggacGaggacgctgatgtggacact	12	6	14	9	3	0	1	0	1	0	0	1	6	0	5	0	4	2	2	0	4	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:132630629G>A	uc004bys.2	+	11	1247	c.1036G>A	c.(1036-1038)GAG>AAG	p.E346K	USP20_uc004byr.2_Missense_Mutation_p.E346K|USP20_uc004byt.1_Missense_Mutation_p.E346K	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	346					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				GCAAGTGGACGAGGACGCTGA	0.667													4	37					0	0	0.001984	0	0		A	132630629	A	A	132630629	3	1	8	1	0	0	0	0	1	0	0	0	17078	1059	37	1	1070	1	USP20	9	132630629	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	853544	132630629	8582802	734	7543											
LAMC3	10319	broad.mit.edu	37	chr9	133951290	133951290	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctccaacaccagctacgcGcttctctggaatctgctgga	8	9	9	15	2	2	0	0	0	2	0	4	2	3	2	3	2	4	3	3	2	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:133951290G>A	uc004caa.1	+	21	3665	c.3567G>A	c.(3565-3567)GCG>GCA	p.A1189A		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	1189	Domain II and I.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		CCAGCTACGCGCTTCTCTGGA	0.617													4	9					0	0	0.000602	0	0		A	133951290	A	A	133951290	2	1	8	1	0	0	0	0	0	0	0	1	8632	1074	38	1		1	LAMC3	9	133951290	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1320661	133951290	7262141	735	7544											
NUP214	8021	broad.mit.edu	37	chr9	134074323	134074323	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagtcctggctttggacaGggaggctctgtctttggtgg	5	12	16	8	0	2	1	0	0	2	1	3	3	3	3	1	6	0	2	1	6	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:134074323G>A	uc004cag.2	+	29	5553	c.5442G>A	c.(5440-5442)CAG>CAA	p.Q1814Q	NUP214_uc004cah.2_Silent_p.Q1804Q|NUP214_uc004cai.2_Silent_p.Q1244Q|NUP214_uc010mzg.2_RNA|NUP214_uc011mcg.1_Silent_p.Q640Q|NUP214_uc011mcf.1_Silent_p.Q591Q|NUP214_uc010mzh.1_Silent_p.Q328Q|NUP214_uc010mzi.1_Silent_p.Q328Q	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	1814	Pro/Ser/Thr-rich.|11 X 3 AA approximate repeats.|11 X 5 AA approximate repeats.|18 X 4 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		GCTTTGGACAGGGAGGCTCTG	0.532			T	DEK|SET|ABL1	AML|T-ALL								11	33					0	0	0.008291	0	0		A	134074323	A	A	134074323	2	1	8	1	0	0	0	0	0	0	0	1	10781	991	35	4		4	NUP214	9	134074323	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	123033	134074323	7139108	736	7545											
RAPGEF1	2889	broad.mit.edu	37	chr9	134459910	134459910	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggccaccattaccttcaTgatcttgatgaacttcaaga	11	13	6	11	0	3	4	2	3	1	1	3	4	3	4	3	1	2	0	3	1	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:134459910T>C	uc004cbc.2	-	20	2879	c.2749A>G	c.(2749-2751)ATG>GTG	p.M917V	RAPGEF1_uc004cbb.2_Missense_Mutation_p.M935V	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	917	Ras-GEF.				activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		ATTACCTTCATGATCTTGATG	0.582													17	54					0	0	0.00499	0	0		C	134459910	C	C	134459910	3	2	8	1	0	0	0	0	1	0	0	0	13068	1464	51	3	504	3	RAPGEF1	9	134459910	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	385587	134459910	6753521	737	7546											
SETX	23064	broad.mit.edu	37	chr9	135201786	135201786	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattgtgaaatctgacaggCacaggtcttgagatggactg	12	11	12	6	0	2	3	0	3	2	1	2	5	2	4	0	3	0	1	0	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:135201786C>T	uc004cbk.2	-	10	5382	c.5199G>A	c.(5197-5199)GTG>GTA	p.V1733V	SETX_uc004cbj.2_Silent_p.V1352V|SETX_uc010mzt.2_Silent_p.V1352V	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1733					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		ATCTGACAGGCACAGGTCTTG	0.358													9	48					0	0	0.006214	0	0		T	135201786	T	T	135201786	2	4	8	1	0	0	0	0	0	0	0	1	14166	697	25	2		2	SETX	9	135201786	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	741876	135201786	6011645	738	7547											
TTF1	7270	broad.mit.edu	37	chr9	135251410	135251410	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcctctccttcactatcGtcttcataataaaagatgtc	11	15	4	11	1	4	1	2	0	2	1	8	1	5	1	2	0	0	0	2	0	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:135251410G>A	uc004cbl.2	-	11	2662	c.2610C>T	c.(2608-2610)GAC>GAT	p.D870D	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Silent_p.D355D	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	870					negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		CTTCACTATCGTCTTCATAAT	0.254													13	57					0	0	0.003163	0	0		A	135251410	A	A	135251410	2	1	8	1	0	0	0	0	0	0	0	1	16744	1136	40	1		1	TTF1	9	135251410	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	49624	135251410	5962021	739	7548											
DDX31	64794	broad.mit.edu	37	chr9	135487481	135487481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcatcttaccttttcaCgtgtgctttcctcttctttc	4	19	4	14	1	5	0	2	0	3	0	7	0	6	0	2	0	3	2	2	0	1	6	rs148432033		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:135487481C>T	uc004cbq.1	-	19	2454	c.2302G>A	c.(2302-2304)GTG>ATG	p.V768M	DDX31_uc010mzu.1_Missense_Mutation_p.V695M	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	768						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		TACCTTTTCACGTGTGCTTTC	0.532													29	109					0	0	0.008361	0	0		T	135487481	T	T	135487481	3	4	8	1	0	0	0	0	1	0	0	0	4359	536	19	1	261	1	DDX31	9	135487481	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	236071	135487481	5725950	740	7549											
C9orf96	169436	broad.mit.edu	37	chr9	136268949	136268949	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttctggctgctgtccctgCtgggtgagctgggtgggcgc	1	12	17	11	1	2	1	0	1	2	0	3	1	3	1	1	4	3	4	1	4	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:136268949C>T	uc004cdk.2	+	15	1661	c.1600C>T	c.(1600-1602)CTG>TTG	p.L534L	C9orf96_uc004cdl.2_RNA	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	534							ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		GCTGTCCCTGCTGGGTGAGCT	0.682													5	18					0	0	0.000602	0	0		T	136268949	T	T	136268949	2	4	8	1	0	0	0	0	0	0	0	1	2511	796	28	2		2	C9orf96	9	136268949	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	781468	136268949	4944482	741	7550											
ADAMTS13	11093	broad.mit.edu	37	chr9	136320407	136320407	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcccctctcttggcagTgctctgtttcctgtggggat	2	15	10	14	0	2	0	0	0	2	0	6	1	5	1	4	3	1	3	4	3	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:136320407T>G	uc004cdv.3	+	25	3694	c.3250T>G	c.(3250-3252)TGC>GGC	p.C1084G	ADAMTS13_uc004cdp.3_Missense_Mutation_p.C311G|ADAMTS13_uc004cdt.1_Missense_Mutation_p.C1084G|ADAMTS13_uc004cdu.1_Missense_Mutation_p.C1053G|ADAMTS13_uc004cdw.3_Missense_Mutation_p.C1084G|ADAMTS13_uc004cdx.3_Missense_Mutation_p.C1053G|ADAMTS13_uc004cdz.3_Missense_Mutation_p.C754G|ADAMTS13_uc004cea.1_5'Flank|ADAMTS13_uc004ceb.3_5'Flank	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1084	TSP type-1 8.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		CTCTTGGCAGTGCTCTGTTTC	0.473													14	79					0	0	0.00245	0	0		G	136320407	G	G	136320407	3	3	8	1	0	0	0	0	1	0	0	0	258	1710	59	5	3348	5	ADAMTS13	9	136320407	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	51458	136320407	4893024	742	7551											
ADAMTSL2	9719	broad.mit.edu	37	chr9	136403509	136403509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgggaacaggacctgcaCgggcacgtccaagcggtacc	9	3	13	16	4	0	0	0	0	0	0	1	2	1	2	5	4	4	3	5	4	3	1	rs139661631		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:136403509C>T	uc011mdl.1	+	4	829	c.272C>T	c.(271-273)ACG>ATG	p.T91M	ADAMTSL2_uc004cei.2_Missense_Mutation_p.T91M	NM_001145320	NP_001138792	Q86TH1	ATL2_HUMAN	ADAMTS-like 2 precursor	91	TSP type-1 1.				negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;9.31e-08)|Epithelial(140;6.62e-07)|all cancers(34;7.74e-06)		AGGACCTGCACGGGCACGTCC	0.652													8	40					0	0	0.006214	0	0		T	136403509	T	T	136403509	3	4	8	1	0	0	0	0	1	0	0	0	275	536	19	1	282	1	ADAMTSL2	9	136403509	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	83102	136403509	4809922	743	7552											
VAV2	7410	broad.mit.edu	37	chr9	136637093	136637093	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcacctaccaggaggctgtcGaatttcttggcctctgtgat	7	13	10	11	1	3	1	1	1	2	0	4	3	3	2	3	3	1	1	3	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:136637093G>A	uc004ces.2	-	26	2257	c.2211C>T	c.(2209-2211)TTC>TTT	p.F737F	VAV2_uc004cer.2_Silent_p.F727F|VAV2_uc004cet.1_Silent_p.F276F	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	737	SH2.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		GGAGGCTGTCGAATTTCTTGG	0.602													11	65					0	0	0.013537	0	0		A	136637093	A	A	136637093	2	1	8	1	0	0	0	0	0	0	0	1	17158	1049	37	1		1	VAV2	9	136637093	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	233584	136637093	4576338	744	7553											
CAMSAP1	157922	broad.mit.edu	37	chr9	138713422	138713422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcagcgtactgatggtttCgttaagcttctcgatggaaa	9	13	11	8	3	1	1	0	1	1	0	3	3	1	2	0	2	4	5	0	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:138713422C>T	uc004cgr.3	-	11	3085	c.3085G>A	c.(3085-3087)GAA>AAA	p.E1029K	CAMSAP1_uc004cgq.3_Missense_Mutation_p.E919K|CAMSAP1_uc010nbg.2_Missense_Mutation_p.E751K	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1029						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		CTGATGGTTTCGTTAAGCTTC	0.527													5	44					0	0	0.001168	0	0		T	138713422	T	T	138713422	3	4	8	1	0	0	0	0	1	0	0	0	2614	893	31	1	1751	1	CAMSAP1	9	138713422	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2076329	138713422	2500009	745	7554											
SNAPC4	6621	broad.mit.edu	37	chr9	139276396	139276396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcctccggtgcagagcgtGtctccagcgccgctgcccac	5	6	13	17	4	1	1	0	0	1	1	3	2	2	1	5	1	5	2	5	1	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:139276396G>A	uc004chh.2	-	17	2206	c.2197C>T	c.(2197-2199)CAC>TAC	p.H733Y		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	733					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		TGCAGAGCGTGTCTCCAGCGC	0.667													3	7					0	0	0.004672	0	0		A	139276396	A	A	139276396	3	1	8	1	0	0	0	0	1	0	0	0	14862	1377	48	4	2236	4	SNAPC4	9	139276396	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	562974	139276396	1937035	746	7555											
NOTCH1	4851	broad.mit.edu	37	chr9	139391870	139391870	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcagcctcacgatgtcGtgatgcatgcgctcctgtgc	6	10	11	14	3	1	1	1	1	0	0	4	2	3	1	3	0	5	3	3	0	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:139391870G>A	uc004chz.2	-	34	6321	c.6321C>T	c.(6319-6321)CAC>CAT	p.H2107H		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2107	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		TCACGATGTCGTGATGCATGC	0.672			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			5	30					0	0	0.001168	0	0		A	139391870	A	A	139391870	2	1	8	1	0	0	0	0	0	0	0	1	10566	1136	40	1		1	NOTCH1	9	139391870	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	115474	139391870	1821561	747	7556											
TRAF2	7186	broad.mit.edu	37	chr9	139820309	139820309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaattcctacgtgcgggacGatgccatcttcatcaaggcc	10	9	10	12	3	3	1	2	0	1	1	4	3	4	2	3	2	3	0	3	2	3	3	rs142412558	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr9:139820309G>A	uc010nbu.2	+	12	1635	c.1462G>A	c.(1462-1464)GAT>AAT	p.D488N	TRAF2_uc004cjv.2_Missense_Mutation_p.D488N|TRAF2_uc011mek.1_Missense_Mutation_p.D477N|TRAF2_uc010nbw.2_Missense_Mutation_p.D463N	NM_021138	NP_066961	Q12933	TRAF2_HUMAN	TNF receptor-associated factor 2	488	MATH.				activation of caspase activity|activation of NF-kappaB-inducing kinase activity|activation of pro-apoptotic gene products|cellular protein complex assembly|induction of apoptosis by extracellular signals|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|protein autoubiquitination|protein homotrimerization|protein K63-linked ubiquitination|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane	CD40 receptor binding|enzyme binding|protein binding|signal transducer activity|sphingolipid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.229)	OV - Ovarian serous cystadenocarcinoma(145;4.48e-06)|Epithelial(140;9.55e-06)		CGTGCGGGACGATGCCATCTT	0.597													9	43					0	0	0.008291	0	0		A	139820309	A	A	139820309	3	1	8	1	0	0	0	0	1	0	0	0	16464	1058	37	1	1500	1	TRAF2	9	139820309	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	428439	139820309	1393122	748	7557											
PFKP	5214	broad.mit.edu	37	chr10	3146003	3146003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggccgtgcagaagtacGcctacctcaacgtggtgggc	9	6	15	11	3	1	1	1	0	0	1	1	2	1	2	3	4	4	2	3	4	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:3146003G>A	uc001igp.2	+	5	523	c.487G>A	c.(487-489)GCC>ACC	p.A163T	PFKP_uc001igq.2_Missense_Mutation_p.A155T|PFKP_uc009xhr.2_Missense_Mutation_p.A125T|PFKP_uc009xhs.1_5'Flank	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	163					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		GCAGAAGTACGCCTACCTCAA	0.622													8	36					0	0	0.008291	0	0		A	3146003	A	A	3146003	3	1	8	1	0	0	0	0	1	0	0	0	11785	1087	38	1	505	1	PFKP	10	3146003	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08		3146003	132388744	749	7558											
KIN	22944	broad.mit.edu	37	chr10	7829837	7829837	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taccagcgtagcttctgcagCcccttggacttgatcctgtt	6	13	9	13	1	1	1	0	1	1	0	2	2	2	2	4	1	5	4	4	1	2	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:7829837C>T	uc001ijt.2	-	1	108	c.60G>A	c.(58-60)GGG>GGA	p.G20G	KIN_uc010qaz.1_RNA|KIN_uc009xip.2_Silent_p.G20G|KIN_uc010qba.1_5'UTR|ATP5C1_uc010qbb.1_5'Flank|ATP5C1_uc009xiq.1_5'Flank|ATP5C1_uc010qbc.1_5'Flank|ATP5C1_uc001iju.2_5'Flank|ATP5C1_uc001ijv.2_5'Flank	NM_012311	NP_036443	O60870	KIN17_HUMAN	HsKin17 protein	20					DNA recombination|DNA repair|DNA replication|interspecies interaction between organisms|mRNA processing	cytoplasm|nuclear matrix	double-stranded DNA binding|RNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						GCTTCTGCAGCCCCTTGGACT	0.612													12	59					0	0	0.003163	0	0		T	7829837	T	T	7829837	2	4	8	1	0	0	0	0	0	0	0	1	8331	726	26	2		2	KIN	10	7829837	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4683834	7829837	127704910	750	7559											
TAF3	83860	broad.mit.edu	37	chr10	8007484	8007484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgttcagccctgccacaGcctccagggtcccagccatg	6	8	9	18	0	1	0	1	0	0	0	3	0	3	0	7	1	4	1	7	1	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:8007484G>A	uc010qbd.1	+	3	2011	c.2011G>A	c.(2011-2013)GCC>ACC	p.A671T		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	671	Lys-rich.				maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						CCCTGCCACAGCCTCCAGGGT	0.423													8	46					0	0	0.013537	0	0		A	8007484	A	A	8007484	3	1	8	1	0	0	0	0	1	0	0	0	15550	971	34	2	2021	2	TAF3	10	8007484	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	177647	8007484	127527263	751	7560											
FAM188A	80013	broad.mit.edu	37	chr10	15885239	15885239	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgccaagaagacttctcCgaagaaaacaggagcttctt	13	8	8	12	2	2	3	0	0	2	3	4	5	3	4	3	1	2	1	3	1	5	3	rs140140984		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:15885239C>T	uc001iod.1	-	3	428	c.207G>A	c.(205-207)TCG>TCA	p.S69S	FAM188A_uc001ioe.1_5'UTR|FAM188A_uc001iof.1_Silent_p.S69S	NM_024948	NP_079224	Q9H8M7	F188A_HUMAN	chromosome 10 open reading frame 97	69					apoptosis	nucleus	calcium ion binding			ovary(1)	1						AAGACTTCTCCGAAGAAAACA	0.323													19	93					0	0	0.014323	0	0		T	15885239	T	T	15885239	2	4	8	1	0	0	0	0	0	0	0	1	5525	639	23	1		1	FAM188A	10	15885239	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	7877755	15885239	119649508	752	7561											
NEBL	10529	broad.mit.edu	37	chr10	21141488	21141488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtacctgactttggaggaCggcattgcctttatggtgca	7	13	13	8	1	0	1	0	1	0	0	0	3	0	3	2	4	3	3	2	4	2	5	rs150518045	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:21141488C>T	uc001iqi.2	-	10	1391	c.994G>A	c.(994-996)GTC>ATC	p.V332I	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	332	Nebulin 9.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						CTTTGGAGGACGGCATTGCCT	0.493													4	33					0	0	0.009096	0	0		T	21141488	T	T	21141488	3	4	8	1	0	0	0	0	1	0	0	0	10322	536	19	1	2126	1	NEBL	10	21141488	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5256249	21141488	114393259	753	7562											
BMI1	648	broad.mit.edu	37	chr10	22618263	22618263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgactctgggagtgacaaggCcaacagcccagcaggaggta	12	5	14	10	0	1	2	0	2	1	0	1	4	1	4	2	4	3	2	2	4	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:22618263C>T	uc001irh.2	+	10	1412	c.773C>T	c.(772-774)GCC>GTC	p.A258V	BMI1_uc009xkg.2_Missense_Mutation_p.A401V	NM_005180	NP_005171	P35226	BMI1_HUMAN	BMI1 polycomb ring finger oncogene	258	Pro/Ser-rich.				hemopoiesis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fibroblast proliferation|positive regulation of ubiquitin-protein ligase activity|segment specification|transcription, DNA-dependent	cytoplasm|nucleolus|PcG protein complex|ubiquitin ligase complex	RING-like zinc finger domain binding|zinc ion binding			ovary(1)|skin(1)	2						AGTGACAAGGCCAACAGCCCA	0.493													16	67					0	0	0.004007	0	0		T	22618263	T	T	22618263	3	4	8	1	0	0	0	0	1	0	0	0	1456	739	26	2	807	2	BMI1	10	22618263	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1476775	22618263	112916484	754	7563											
KIAA1217	56243	broad.mit.edu	37	chr10	24833918	24833918	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccttcccacagggctccagCggggccccacagacgagcag	8	4	12	17	2	0	1	0	0	0	1	3	2	3	1	5	3	2	2	5	3	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:24833918C>T	uc001iru.3	+	20	5623	c.5220C>T	c.(5218-5220)AGC>AGT	p.S1740S	KIAA1217_uc001irs.2_Silent_p.S1061S|KIAA1217_uc001irt.3_Silent_p.S1106S|KIAA1217_uc010qcy.1_Silent_p.S1171S|KIAA1217_uc010qcz.1_Silent_p.S1146S|KIAA1217_uc001irw.2_Silent_p.S890S|KIAA1217_uc001irz.2_Silent_p.S824S|KIAA1217_uc001irx.2_Silent_p.S1423S|KIAA1217_uc001iry.2_Silent_p.S864S	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	1740					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						AGGGCTCCAGCGGGGCCCCAC	0.607													13	51					0	0	0.013537	0	0		T	24833918	T	T	24833918	2	4	8	1	0	0	0	0	0	0	0	1	8232	767	27	1		1	KIAA1217	10	24833918	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2215655	24833918	110700829	755	7564											
MYO3A	53904	broad.mit.edu	37	chr10	26414415	26414415	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggagaaacaattatacgAcccaatactgtagaaaaagc	20	6	8	7	1	0	3	0	0	0	3	0	5	0	3	1	1	4	1	1	1	9	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:26414415A>G	uc001isn.2	+	19	2352	c.1992A>G	c.(1990-1992)CGA>CGG	p.R664R	MYO3A_uc009xko.1_Silent_p.R664R|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	664	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						CAATTATACGACCCAATACTG	0.418													14	93					0	0	0.003163	0	0		G	26414415	G	G	26414415	2	3	8	1	0	0	0	0	0	0	0	1	10094	262	10	3		3	MYO3A	10	26414415	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1580497	26414415	109120332	756	7565											
GAD2	2572	broad.mit.edu	37	chr10	26506539	26506539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcctattcttccttgcagCgcgagcctggtgccaagtgg	5	11	12	13	2	1	0	0	0	1	0	2	1	2	0	4	2	5	1	4	2	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:26506539C>T	uc001isp.2	+	2	580	c.77C>T	c.(76-78)GCG>GTG	p.A26V	GAD2_uc009xkr.2_Missense_Mutation_p.A26V|GAD2_uc001isq.2_Missense_Mutation_p.A26V	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	26					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	TTCCTTGCAGCGCGAGCCTGG	0.592													3	11					0	0	0.009096	0	0		T	26506539	T	T	26506539	3	4	8	1	0	0	0	0	1	0	0	0	6194	782	27	1	83	1	GAD2	10	26506539	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	92124	26506539	109028208	757	7566											
ACBD5	91452	broad.mit.edu	37	chr10	27497331	27497331	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcacctccacttcccacCtgccggcccttggttccttc	4	11	5	21	1	1	0	1	0	0	0	5	0	4	0	8	2	1	1	8	2	0	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:27497331C>T	uc010qdp.1	-	10	1439	c.1248G>A	c.(1246-1248)CAG>CAA	p.Q416Q	ACBD5_uc010qdm.1_Silent_p.Q414Q|ACBD5_uc010qdn.1_Silent_p.Q307Q|ACBD5_uc010qdo.1_Silent_p.Q239Q|ACBD5_uc001ito.2_Silent_p.Q381Q|ACBD5_uc001itp.2_Silent_p.Q307Q|ACBD5_uc001itq.2_Silent_p.Q307Q|ACBD5_uc001itr.1_Silent_p.Q205Q	NM_145698	NP_663736	Q5T8D3	ACBD5_HUMAN	acyl-Coenzyme A binding domain containing 5	425					transport	integral to membrane|peroxisomal membrane	fatty-acyl-CoA binding				0						CACTTCCCACCTGCCGGCCCT	0.512													7	39					0	0	0.004482	0	0		T	27497331	T	T	27497331	2	4	8	1	0	0	0	0	0	0	0	1	125	680	24	4		4	ACBD5	10	27497331	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	990792	27497331	108037416	758	7567											
PTCHD3	374308	broad.mit.edu	37	chr10	27702350	27702350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgctgctcaggttgagcGttttgttcacctgccaggcg	6	12	13	10	2	2	2	2	1	0	1	2	2	2	2	2	2	4	5	2	2	0	4	rs147881350		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:27702350G>A	uc001itu.2	-	1	948	c.830C>T	c.(829-831)ACG>ATG	p.T277M		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	277					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CAGGTTGAGCGTTTTGTTCAC	0.612													7	34					0	0	0.001984	0	0		A	27702350	A	A	27702350	3	1	8	1	0	0	0	0	1	0	0	0	12756	1145	40	1	1489	1	PTCHD3	10	27702350	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	205019	27702350	107832397	759	7568											
MTPAP	55149	broad.mit.edu	37	chr10	30611528	30611528	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatatatataaaggagttcGgaacttgtcaaggcaatcct	14	11	8	8	1	1	0	1	0	0	0	3	2	2	2	2	3	1	2	2	3	8	6	rs139195646	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:30611528G>A	uc001iva.3	-	6	1074	c.1011C>T	c.(1009-1011)TCC>TCT	p.S337S	MTPAP_uc001ivb.3_Silent_p.S467S	NM_018109	NP_060579	Q9NVV4	PAPD1_HUMAN	PAP associated domain containing 1 precursor	337					cell death|histone mRNA catabolic process|mRNA polyadenylation|transcription, DNA-dependent	mitochondrion	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|protein homodimerization activity|RNA binding|UTP binding			ovary(1)	1						AAAGGAGTTCGGAACTTGTCA	0.378													7	30					0	0	0.00308	0	0		A	30611528	A	A	30611528	2	1	8	1	0	0	0	0	0	0	0	1	9974	1103	39	1		1	MTPAP	10	30611528	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2909178	30611528	104923219	760	7569											
ZNF33A	7581	broad.mit.edu	37	chr10	38343774	38343774	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatacacagaagagagagaAcgcagaagagaataactgtg	20	4	11	6	1	0	5	0	0	0	5	0	8	0	5	0	0	3	1	0	0	7	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:38343774A>G	uc001izh.2	+	5	897	c.719A>G	c.(718-720)AAC>AGC	p.N240S	ZNF33A_uc001izg.2_Missense_Mutation_p.N241S|ZNF33A_uc010qev.1_Missense_Mutation_p.N247S|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	240						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						AAGAGAGAGAACGCAGAAGAG	0.383													9	86					0	0	0.006214	0	0		G	38343774	G	G	38343774	3	3	8	1	0	0	0	0	1	0	0	0	17879	43	2	3	736	3	ZNF33A	10	38343774	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	7732246	38343774	97190973	761	7570											
OR13A1	79290	broad.mit.edu	37	chr10	45798942	45798942	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgacctccttgtttctcAaagtatagatgagggggttg	8	15	11	7	0	1	3	1	2	1	1	3	3	2	3	2	2	0	3	2	2	3	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:45798942A>G	uc001jcc.1	-	4	1238	c.929T>C	c.(928-930)TTG>TCG	p.L310S	OR13A1_uc001jcd.1_Missense_Mutation_p.L306S	NM_001004297	NP_001004297	Q8NGR1	O13A1_HUMAN	olfactory receptor, family 13, subfamily A,	310	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTGTTTCTCAAAGTATAGAT	0.483													18	75					0	0	0.007413	0	0		G	45798942	G	G	45798942	3	3	8	1	0	0	0	0	1	0	0	0	10952	131	5	3	61	3	OR13A1	10	45798942	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	7455168	45798942	89735805	762	7571											
MARCH8	220972	broad.mit.edu	37	chr10	45956826	45956826	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagtggcagggggtgatcagGgggctctcatcatctccttc	6	10	14	11	0	4	1	3	1	2	0	7	1	4	1	1	5	0	2	1	5	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:45956826G>T	uc001jci.1	-	5	515	c.276C>A	c.(274-276)CCC>CCA	p.P92P	MARCH8_uc001jch.2_Silent_p.P374P|MARCH8_uc001jcj.1_Silent_p.P92P|MARCH8_uc001jck.1_Silent_p.P92P|MARCH8_uc001jcg.1_5'UTR	NM_001002266	NP_001002266	Q5T0T0	MARH8_HUMAN	cellular modulator of immune recognition isoform	92	RING-CH-type.					cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding				0						GGGTGATCAGGGGGCTCTCAT	0.582													7	23					0.000157383	0.000167469	0.00308	1	0		T	45956826	T	T	45956826	2	4	8	1	0	0	0	0	0	0	0	1	9325	1219	43	5		5	MARCH8	10	45956826	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	157884	45956826	89577921	763	7572											
RBP3	5949	broad.mit.edu	37	chr10	48385926	48385926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcctggagacctgggtgaGcagctcaccgtccccaaaca	10	5	11	15	1	1	2	1	1	0	1	2	3	2	2	5	2	4	2	5	2	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:48385926G>A	uc001jez.2	-	2	3280	c.3166C>T	c.(3166-3168)CTC>TTC	p.L1056F		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	1056	4 X approximate tandem repeats.|4.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	ACCTGGGTGAGCAGCTCACCG	0.512													16	49					0	0	0.003163	0	0		A	48385926	A	A	48385926	3	1	8	1	0	0	0	0	1	0	0	0	13182	971	34	2	589	2	RBP3	10	48385926	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2429100	48385926	87148821	764	7573											
OGDHL	55753	broad.mit.edu	37	chr10	50959917	50959917	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagggtccgcttctcctcGctggagaactgcatcacacc	8	8	10	15	2	2	1	1	0	1	1	5	2	3	1	3	2	3	4	3	2	1	1	rs149339959		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:50959917G>A	uc001jie.2	-	6	847	c.705C>T	c.(703-705)AGC>AGT	p.S235S	OGDHL_uc009xog.2_Silent_p.S262S|OGDHL_uc010qgt.1_Silent_p.S178S|OGDHL_uc010qgu.1_Silent_p.S26S|OGDHL_uc009xoh.2_Silent_p.S26S	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	235					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						GCTTCTCCTCGCTGGAGAACT	0.607													23	91					0	0	0.014323	0	0		A	50959917	A	A	50959917	2	1	8	1	0	0	0	0	0	0	0	1	10859	1078	38	1		1	OGDHL	10	50959917	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2573991	50959917	84574830	765	7574											
CSTF2T	23283	broad.mit.edu	37	chr10	53458059	53458059	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccatggcacgagtctccatCgctcgagaatctctaccacc	9	9	7	16	3	2	1	0	0	2	1	7	3	3	1	4	1	1	2	4	1	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:53458059C>T	uc001jjp.2	-	1	1297	c.1251G>A	c.(1249-1251)GCG>GCA	p.A417A	PRKG1_uc001jjm.2_Intron|PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron	NM_015235	NP_056050	Q9H0L4	CSTFT_HUMAN	cleavage stimulation factor, 3' pre-RNA, subunit	417	Gly-rich.				mRNA processing	nucleus	nucleotide binding|RNA binding			ovary(1)	1				COAD - Colon adenocarcinoma(2;0.00736)|Colorectal(2;0.00898)|all cancers(4;0.0188)|GBM - Glioblastoma multiforme(4;0.0778)|Epithelial(53;0.122)		GAGTCTCCATCGCTCGAGAAT	0.512													16	83					0	0	0.007413	0	0		T	53458059	T	T	53458059	2	4	8	1	0	0	0	0	0	0	0	1	3988	871	31	1		1	CSTF2T	10	53458059	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2498142	53458059	82076688	766	7575											
ANK3	288	broad.mit.edu	37	chr10	61835822	61835822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttaagggcgtagcttccGtgactgctggagctctagcc	6	12	12	11	2	1	1	0	1	1	0	2	2	2	2	2	2	4	4	2	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:61835822G>A	uc001jky.2	-	37	5009	c.4817C>T	c.(4816-4818)ACG>ATG	p.T1606M	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1606	Ser-rich.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CGTAGCTTCCGTGACTGCTGG	0.483													17	98					0	0	0.008871	0	0		A	61835822	A	A	61835822	3	1	8	1	0	0	0	0	1	0	0	0	622	1145	40	1	8657	1	ANK3	10	61835822	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	8377763	61835822	73698925	767	7576											
ARID5B	84159	broad.mit.edu	37	chr10	63759914	63759914	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtactgccggtaccgctcGatgctgaaacgcatccagga	10	7	11	13	4	0	1	0	1	0	0	2	3	1	2	3	2	5	5	3	2	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:63759914G>A	uc001jlt.1	+	4	593	c.567G>A	c.(565-567)TCG>TCA	p.S189S	ARID5B_uc010qil.1_Silent_p.S189S	NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	189					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					GGTACCGCTCGATGCTGAAAC	0.532													14	75					0	0	0.004007	0	0		A	63759914	A	A	63759914	2	1	8	1	0	0	0	0	0	0	0	1	922	1045	37	1		1	ARID5B	10	63759914	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1924092	63759914	71774833	768	7577											
AIFM2	84883	broad.mit.edu	37	chr10	71880941	71880941	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccagtgctgcccgtggcCaggataagatgagagaaggg	10	5	17	9	1	0	3	0	1	0	2	0	5	0	4	3	4	2	1	3	4	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:71880941C>T	uc010qjg.1	-	3	334	c.321G>A	c.(319-321)CTG>CTA	p.L107L	AIFM2_uc001jqp.1_Silent_p.L107L	NM_032797	NP_116186	Q9BRQ8	AIFM2_HUMAN	apoptosis-inducing factor (AIF)-like	107					apoptotic mitochondrial changes|chromosome condensation|induction of apoptosis	cytosol|integral to membrane|mitochondrial outer membrane	DNA binding|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding			central_nervous_system(1)	1						TGCCCGTGGCCAGGATAAGAT	0.443													12	23					0	0	0.013537	0	0		T	71880941	T	T	71880941	2	4	8	1	0	0	0	0	0	0	0	1	427	581	21	4		4	AIFM2	10	71880941	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8121027	71880941	63653806	769	7578											
NPFFR1	64106	broad.mit.edu	37	chr10	72025905	72025905	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcactgacagccaggtTgaggatgaacatgttggtga	11	9	14	7	0	1	4	1	4	0	0	1	5	1	5	1	4	2	2	1	4	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:72025905T>C	uc010qjk.1	-	1	250	c.244A>G	c.(244-246)AAC>GAC	p.N82D		NM_022146	NP_071429	Q9GZQ6	NPFF1_HUMAN	neuropeptide FF receptor 1	84	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	neuropeptide receptor activity				0						ACAGCCAGGTTGAGGATGAAC	0.562													7	49					0	0	0.004482	0	0		C	72025905	C	C	72025905	3	2	8	1	0	0	0	0	1	0	0	0	10596	1812	63	3	1053	3	NPFFR1	10	72025905	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	144964	72025905	63508842	770	7579											
CDH23	64072	broad.mit.edu	37	chr10	73538008	73538008	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacggccgctacaccctgatCgtcactgccacagaccagtg	9	6	9	17	3	1	2	1	1	0	1	2	2	1	2	4	1	2	1	4	1	1	1	rs111033487	by1000genomes	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:73538008C>T	uc001jrx.3	+	38	5507	c.5130C>T	c.(5128-5130)ATC>ATT	p.I1710I		NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1710	Cadherin 16.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						ACACCCTGATCGTCACTGCCA	0.607													10	32					0	0	0.001855	0	0		T	73538008	T	T	73538008	2	4	8	1	0	0	0	0	0	0	0	1	3111	874	31	1		1	CDH23	10	73538008	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1512103	73538008	61996739	771	7580											
ASCC1	51008	broad.mit.edu	37	chr10	73912658	73912658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttcatatggactttggCgtaaagaacatccaccatgc	12	12	7	10	1	2	1	1	0	1	1	3	2	3	2	2	2	2	1	2	2	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:73912658C>T	uc001jst.1	-	8	907	c.799G>A	c.(799-801)GCC>ACC	p.A267T	ASCC1_uc001jsr.1_Missense_Mutation_p.A154T|ASCC1_uc001jss.1_Missense_Mutation_p.A239T|ASCC1_uc001jsu.1_Missense_Mutation_p.A239T|ASCC1_uc010qju.1_Missense_Mutation_p.A260T			Q8N9N2	ASCC1_HUMAN	RecName: Full=Activating signal cointegrator 1 complex subunit 1; AltName: Full=ASC-1 complex subunit p50; AltName: Full=Trip4 complex subunit p50;	267					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	RNA binding				0						TGGACTTTGGCGTAAAGAACA	0.408													10	54					0	0	0.008291	0	0		T	73912658	T	T	73912658	3	4	8	1	0	0	0	0	1	0	0	0	1032	768	27	1	374	1	ASCC1	10	73912658	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	374650	73912658	61622089	772	7581											
CBARA1	10367	broad.mit.edu	37	chr10	74268011	74268011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcatcagcaaatttttctCgttcctgggaaattttctat	9	18	5	9	1	4	0	2	0	2	0	6	1	5	1	1	1	1	2	1	1	3	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:74268011C>T	uc001jtb.1	-	7	693	c.560G>A	c.(559-561)CGA>CAA	p.R187Q	CBARA1_uc010qjw.1_5'UTR|CBARA1_uc010qjx.1_Intron|CBARA1_uc009xqo.1_RNA	NM_006077	NP_006068	Q9BPX6	MICU1_HUMAN	calcium binding atopy-related autoantigen 1	185					calcium ion import|defense response|elevation of mitochondrial calcium ion concentration	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			ovary(1)	1						AAATTTTTCTCGTTCCTGGGA	0.338													4	18					0	0	0.009096	0	0		T	74268011	T	T	74268011	3	4	8	1	0	0	0	0	1	0	0	0	2699	884	31	1	904	1	CBARA1	10	74268011	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	355353	74268011	61266736	773	7582											
PLAU	5328	broad.mit.edu	37	chr10	75674570	75674570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccaaggagggcaggtgtgCgcagccatcccggactatac	9	7	13	12	2	0	0	0	0	0	0	2	2	2	2	3	4	3	2	3	4	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:75674570C>T	uc001jwa.2	+	9	1012	c.866C>T	c.(865-867)GCG>GTG	p.A289V	C10orf55_uc001jvz.1_Intron|PLAU_uc010qkw.1_Missense_Mutation_p.A272V|PLAU_uc010qkx.1_Missense_Mutation_p.A203V|PLAU_uc001jwb.2_RNA|PLAU_uc001jwc.2_Missense_Mutation_p.A289V|PLAU_uc009xrq.1_Missense_Mutation_p.A253V	NM_002658	NP_002649	P00749	UROK_HUMAN	plasminogen activator, urokinase isoform 1	289	Peptidase S1.				blood coagulation|chemotaxis|fibrinolysis|proteolysis|regulation of cell adhesion mediated by integrin|regulation of receptor activity|regulation of smooth muscle cell migration|regulation of smooth muscle cell-matrix adhesion|signal transduction	cell surface|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(2)|kidney(1)	3	Prostate(51;0.0112)				Amiloride(DB00594)|Urokinase(DB00013)	GGCAGGTGTGCGCAGCCATCC	0.552													8	19					0	0	0.00308	0	0		T	75674570	T	T	75674570	3	4	8	1	0	0	0	0	1	0	0	0	12041	768	27	1	934	1	PLAU	10	75674570	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1406559	75674570	59860177	774	7583											
MYST4	23522	broad.mit.edu	37	chr10	76788343	76788343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggccaaaaggaacaaagcGcggtctatctaagtggaggc	13	6	14	8	2	2	0	0	0	2	0	2	2	2	2	1	5	2	0	1	5	6	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:76788343G>A	uc001jwn.1	+	18	4254	c.3761G>A	c.(3760-3762)CGC>CAC	p.R1254H	MYST4_uc001jwo.1_Missense_Mutation_p.R962H|MYST4_uc001jwp.1_Missense_Mutation_p.R1071H	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1254					histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					GGAACAAAGCGCGGTCTATCT	0.438			T	CREBBP	AML								22	83					0	0	0.00278	0	0		A	76788343	A	A	76788343	3	1	8	1	0	0	0	0	1	0	0	0	10123	1087	38	1	3823	1	MYST4	10	76788343	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1113773	76788343	58746404	775	7584											
SFTPD	6441	broad.mit.edu	37	chr10	81701740	81701740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgtttccagggactccacGctcaccagggacacctcgct	7	9	10	15	2	1	0	1	0	0	0	4	2	3	2	4	2	0	3	4	2	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:81701740G>A	uc001kbh.2	-	5	563	c.520C>T	c.(520-522)CGT>TGT	p.R174C	MBL1P_uc001kbf.2_Intron	NM_003019	NP_003010	P35247	SFTPD_HUMAN	pulmonary surfactant-associated protein D	174	Collagen-like.				cell junction assembly|innate immune response|lung alveolus development|macrophage chemotaxis|negative regulation of interleukin-2 biosynthetic process|negative regulation of T cell proliferation|positive regulation of phagocytosis|reactive oxygen species metabolic process|receptor-mediated endocytosis|respiratory gaseous exchange|surfactant homeostasis	collagen|endocytic vesicle|extracellular space|lysosome	bacterial cell surface binding|protein binding|sugar binding			skin(1)	1	Breast(12;0.000615)|Prostate(51;0.0095)|all_epithelial(25;0.027)		Epithelial(14;0.0244)|all cancers(16;0.0558)|Colorectal(32;0.109)			GGGACTCCACGCTCACCAGGG	0.627													10	42					0	0	0.010729	0	0		A	81701740	A	A	81701740	3	1	8	1	0	0	0	0	1	0	0	0	14218	1087	38	1	623	1	SFTPD	10	81701740	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4913397	81701740	53833007	776	7585											
NRG3	10718	broad.mit.edu	37	chr10	84711311	84711311	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggcatgttctgtgcagcaTtctacttcaaaagcaagtaa	12	12	9	8	0	3	0	1	0	2	0	3	0	3	0	0	1	4	6	0	1	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:84711311T>C	uc001kco.2	+	5	1168	c.1141T>C	c.(1141-1143)TTC>CTC	p.F381L	NRG3_uc010qlz.1_Missense_Mutation_p.F380L|NRG3_uc001kcp.2_Missense_Mutation_p.F160L|NRG3_uc001kcq.2_Missense_Mutation_p.F31L|NRG3_uc001kcr.2_Missense_Mutation_p.F31L	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	381	Helical; Note=Internal signal sequence; (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		CTGTGCAGCATTCTACTTCAA	0.378													26	118					0	0	0.005443	0	0		C	84711311	C	C	84711311	3	2	8	1	0	0	0	0	1	0	0	0	10668	1493	52	3	1327	3	NRG3	10	84711311	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	3009571	84711311	50823436	777	7586											
RGR	5995	broad.mit.edu	37	chr10	86014126	86014126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catgtccttcttcaacttcgCcatgcccctcttcatcacga	7	13	4	17	2	5	0	3	0	2	0	7	1	6	0	4	0	2	0	4	0	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:86014126C>T	uc001kdc.1	+	5	595	c.557C>T	c.(556-558)GCC>GTC	p.A186V	RGR_uc001kdd.1_Missense_Mutation_p.A190V|RGR_uc001kde.1_Missense_Mutation_p.A186V	NM_001012720	NP_001012738	P47804	RGR_HUMAN	retinal G-protein coupled receptor isoform 2	186	Helical; Name=5; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity|protein binding			ovary(1)	1						TTCAACTTCGCCATGCCCCTC	0.542													13	63					0	0	0.001855	0	0		T	86014126	T	T	86014126	3	4	8	1	0	0	0	0	1	0	0	0	13316	739	26	2	587	2	RGR	10	86014126	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1302815	86014126	49520621	778	7587											
GRID1	2894	broad.mit.edu	37	chr10	87407104	87407104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcatatacagcagaatccCggacagtgccataagacatt	15	8	7	11	1	1	2	1	0	0	2	2	3	2	3	2	1	3	1	2	1	4	4	rs76097378	by1000genomes	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:87407104C>T	uc001kdl.1	-	13	2149	c.2048G>A	c.(2047-2049)CGG>CAG	p.R683Q	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.R254Q|uc001kdm.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	683	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	AGCAGAATCCCGGACAGTGCC	0.527										Multiple Myeloma(13;0.14)			56	214					0	0	0.01441	0	0		T	87407104	T	T	87407104	3	4	8	1	0	0	0	0	1	0	0	0	6787	652	23	1	997	1	GRID1	10	87407104	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1392978	87407104	48127643	779	7588											
PTEN	5728	broad.mit.edu	37	chr10	89653868	89653868	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atattgatgatgtagtaaggTaagaatgctttgattttcta	13	17	9	2	0	1	4	0	3	1	1	1	4	1	4	0	1	1	4	0	1	6	9			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:89653868T>C	uc001kfb.2	+	3	1195	c.164_splice	c.e3+2	p.R55_splice		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog						activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.Y27fs*1(2)|p.?(2)|p.V54fs*29(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TGTAGTAAGGTAAGAATGCTT	0.299		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			14	61					0	0	0.006122	0	0		C	89653868	C	C	89653868	5	2	8	1	0	0	0	0	0	0	1	0	12760	1652	57	3	172	3	PTEN	10	89653868	Splice_Site	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2246764	89653868	45880879	780	7589											
FAS	355	broad.mit.edu	37	chr10	90774042	90774042	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttcaactgcttcgtaattgGcatcaacttcatggaaagaa	13	12	8	8	1	3	1	3	0	0	1	4	2	3	2	0	2	3	4	0	2	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:90774042G>A	uc001kfr.2	+	9	1189	c.843G>A	c.(841-843)TGG>TGA	p.W281*	FAS_uc010qna.1_RNA|FAS_uc001kfs.2_3'UTR|FAS_uc001kft.2_Nonsense_Mutation_p.W260*|FAS_uc010qnb.1_RNA|FAS_uc010qnc.1_RNA|FAS_uc001kfw.2_3'UTR|FAS_uc010qnd.1_RNA|FAS_uc010qne.1_RNA|FAS_uc009xtp.2_RNA	NM_000043	NP_000034	P25445	TNR6_HUMAN	tumor necrosis factor receptor superfamily,	281	Death.|Interaction with HIPK3 (By similarity).|Cytoplasmic (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|anti-apoptosis|cellular response to mechanical stimulus|positive regulation of necrotic cell death	cytosol|extracellular region|integral to membrane|soluble fraction	identical protein binding|kinase binding			upper_aerodigestive_tract(1)|breast(1)	2		Colorectal(252;0.0161)		Colorectal(12;0.000136)|COAD - Colon adenocarcinoma(12;0.000193)		TTCGTAATTGGCATCAACTTC	0.368									Autoimmune_Lymphoproliferative_syndrome_type_I				22	107					0	0	0.00333	0	0		A	90774042	A	A	90774042	4	1	8	1	0	0	0	0	0	1	0	0	5695	1212	42	2	877	2	FAS	10	90774042	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1120174	90774042	44760705	781	7590											
MYOF	26509	broad.mit.edu	37	chr10	95169361	95169361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcttatttgacagcatcCgccggctgttctttactttg	5	16	10	10	2	1	1	0	1	1	0	2	1	2	1	2	2	2	4	2	2	2	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:95169361C>T	uc001kin.2	-	6	692	c.569G>A	c.(568-570)CGG>CAG	p.R190Q	MYOF_uc001kio.2_Missense_Mutation_p.R190Q|MYOF_uc001kip.3_Missense_Mutation_p.R190Q|MYOF_uc009xuf.2_Missense_Mutation_p.R172Q	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	190	C2 2.|Cytoplasmic (Potential).|Necessary for interaction with EHD2.				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						TGACAGCATCCGCCGGCTGTT	0.542													28	174					0	0	0.013726	0	0		T	95169361	T	T	95169361	3	4	8	1	0	0	0	0	1	0	0	0	10107	652	23	1	5812	1	MYOF	10	95169361	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4395319	95169361	40365386	782	7591											
SORBS1	10580	broad.mit.edu	37	chr10	97194450	97194450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttaacagcagaaatagagCgtgcgcgtaaagggtcggca	13	8	13	7	4	0	2	0	0	0	2	1	2	0	2	0	2	4	3	0	2	5	4	rs139115529		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:97194450C>T	uc001kkp.2	-	3	146	c.101G>A	c.(100-102)CGC>CAC	p.R34H	SORBS1_uc001kkn.2_Intron|SORBS1_uc001kkm.2_Missense_Mutation_p.R22H|SORBS1_uc001kko.2_Missense_Mutation_p.R34H|SORBS1_uc001kkq.2_Missense_Mutation_p.R34H|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_Intron|SORBS1_uc001kku.2_Missense_Mutation_p.R34H|SORBS1_uc001kkv.2_Intron|SORBS1_uc001kkw.2_Missense_Mutation_p.R34H|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Intron|SORBS1_uc001kkx.1_Intron	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	34					focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		AGAAATAGAGCGTGCGCGTAA	0.473													17	61					0	0	0.006122	0	0		T	97194450	T	T	97194450	3	4	8	1	0	0	0	0	1	0	0	0	14952	768	27	1	4090	1	SORBS1	10	97194450	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2025089	97194450	38340297	783	7592											
TLL2	7093	broad.mit.edu	37	chr10	98146799	98146799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcacacagcgatgctcgCacccgccgtgatctggccag	7	8	11	15	4	2	1	1	1	1	0	3	2	2	1	3	1	2	3	3	1	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:98146799C>T	uc001kml.1	-	14	1989	c.1763G>A	c.(1762-1764)TGC>TAC	p.C588Y		NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	588	EGF-like 1; calcium-binding (Potential).			EVDECSWPDHGGCEHRCV -> GKKKKKKKKKKKKKKKKK (in Ref. 5; AAH13871).	cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		GCGATGCTCGCACCCGCCGTG	0.597													6	21					0	0	0.004482	0	0		T	98146799	T	T	98146799	3	4	8	1	0	0	0	0	1	0	0	0	15971	710	25	2	1316	2	TLL2	10	98146799	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	952349	98146799	37387948	784	7593											
SLIT1	6585	broad.mit.edu	37	chr10	98760984	98760984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagccgaaggccctggcagCagccctggcctgggcacgag	7	4	15	15	2	1	0	1	0	0	0	1	2	1	0	4	4	3	3	4	4	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:98760984C>T	uc001kmw.2	-	37	4742	c.4490G>A	c.(4489-4491)TGC>TAC	p.C1497Y		NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	1497	CTCK.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		GCCCTGGCAGCAGCCCTGGCC	0.642													7	34					0	0	0.004482	0	0		T	98760984	T	T	98760984	3	4	8	1	0	0	0	0	1	0	0	0	14764	710	25	2	118	2	SLIT1	10	98760984	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	614185	98760984	36773763	785	7594											
CRTAC1	55118	broad.mit.edu	37	chr10	99655720	99655720	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtccagcatcccgtctccGtcgaagtcggtcaccacacc	8	7	9	17	4	2	0	1	0	1	0	7	1	4	0	5	2	1	1	5	2	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:99655720G>A	uc001kou.1	-	10	1595	c.1239C>T	c.(1237-1239)GAC>GAT	p.D413D	CRTAC1_uc001kov.2_Silent_p.D402D|CRTAC1_uc001kot.1_Silent_p.D203D	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	413	FG-GAP 4; atypical.					proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		TCCCGTCTCCGTCGAAGTCGG	0.582													8	33					0	0	0.004482	0	0		A	99655720	A	A	99655720	2	1	8	1	0	0	0	0	0	0	0	1	3899	1136	40	1		1	CRTAC1	10	99655720	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	894736	99655720	35879027	786	7595											
TLX1	3195	broad.mit.edu	37	chr10	102896641	102896641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgaccaaaatcactagcGtcacgtcggtggcgtcggcc	9	7	11	14	6	2	0	2	0	0	0	5	1	2	0	2	3	1	0	2	3	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:102896641G>A	uc001ksw.2	+	3	1202	c.964G>A	c.(964-966)GTC>ATC	p.V322I		NM_005521	NP_005512	P31314	TLX1_HUMAN	T-cell leukemia homeobox 1	322						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1				Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		AATCACTAGCGTCACGTCGGT	0.647			T	TRB@|TRD@	T-ALL								9	32					0	0	0.010729	0	0		A	102896641	A	A	102896641	3	1	8	1	0	0	0	0	1	0	0	0	15984	1145	40	1	974	1	TLX1	10	102896641	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3240921	102896641	32638106	787	7596											
MGEA5	10724	broad.mit.edu	37	chr10	103563735	103563735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aataatcttagaaacctcttCgatggactctactggaattt	13	14	6	8	1	3	1	0	0	3	1	4	4	3	3	1	2	2	0	1	2	6	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:103563735C>T	uc001ktv.2	-	7	1236	c.793G>A	c.(793-795)GAA>AAA	p.E265K	MGEA5_uc010qqe.1_Missense_Mutation_p.E265K|MGEA5_uc009xws.2_Missense_Mutation_p.E265K|MGEA5_uc001ktw.2_Missense_Mutation_p.E265K|MGEA5_uc009xwt.2_Intron	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	265					glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		GAAACCTCTTCGATGGACTCT	0.353													15	89					0	0	0.003163	0	0		T	103563735	T	T	103563735	3	4	8	1	0	0	0	0	1	0	0	0	9573	893	31	1	1997	1	MGEA5	10	103563735	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	667094	103563735	31971012	788	7597											
NT5C2	22978	broad.mit.edu	37	chr10	104850727	104850727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggaactgatgtctggaCgctcattgctactgctgtca	8	12	12	9	1	3	1	2	1	1	0	3	4	3	4	0	3	4	3	0	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:104850727C>T	uc001kwo.2	-	17	1424	c.1238G>A	c.(1237-1239)CGT>CAT	p.R413H	NT5C2_uc010qqp.1_Missense_Mutation_p.R384H|NT5C2_uc001kwq.2_Missense_Mutation_p.R413H|NT5C2_uc001kwp.2_Missense_Mutation_p.R260H	NM_012229	NP_036361	P49902	5NTC_HUMAN	5'-nucleotidase, cytosolic II	413					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|metal ion binding|nucleotide binding|protein binding				0		all_hematologic(284;0.176)|Colorectal(252;0.178)		Epithelial(162;1.33e-08)|all cancers(201;1.04e-07)|BRCA - Breast invasive adenocarcinoma(275;0.159)	Adenosine triphosphate(DB00171)|Ribavirin(DB00811)	GATGTCTGGACGCTCATTGCT	0.328													12	73					0	0	0.001855	0	0		T	104850727	T	T	104850727	3	4	8	1	0	0	0	0	1	0	0	0	10706	536	19	1	459	1	NT5C2	10	104850727	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1286992	104850727	30684020	789	7598											
INA	9118	broad.mit.edu	37	chr10	105046873	105046873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgggaataccaggacttgCtcaatgtcaaaatggctctt	11	12	9	9	1	3	0	2	0	1	0	4	2	3	2	1	3	2	2	1	3	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:105046873C>T	uc001kws.2	+	2	1196	c.1147C>T	c.(1147-1149)CTC>TTC	p.L383F		NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	383	Coil 2.|Rod.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		CCAGGACTTGCTCAATGTCAA	0.488													7	35					0	0	0.00308	0	0		T	105046873	T	T	105046873	3	4	8	1	0	0	0	0	1	0	0	0	7746	797	28	2	1153	2	INA	10	105046873	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	196146	105046873	30487874	790	7599											
SORCS1	114815	broad.mit.edu	37	chr10	108431115	108431115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctttttgctcccatgataCatgcttccccctgtaagcag	7	14	6	14	0	0	1	0	1	0	0	3	1	3	1	4	0	4	4	4	0	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:108431115C>T	uc001kym.2	-	16	2077	c.2069G>A	c.(2068-2070)TGT>TAT	p.C690Y	SORCS1_uc001kyl.2_Missense_Mutation_p.C690Y|SORCS1_uc009xxs.2_Missense_Mutation_p.C690Y|SORCS1_uc001kyn.1_Missense_Mutation_p.C690Y|SORCS1_uc001kyo.2_Missense_Mutation_p.C690Y	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	690	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TCCCATGATACATGCTTCCCC	0.448													20	112					0	0	0.014323	0	0		T	108431115	T	T	108431115	3	4	8	1	0	0	0	0	1	0	0	0	14955	478	17	4	1715	4	SORCS1	10	108431115	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3384242	108431115	27103632	791	7600											
SORCS1	114815	broad.mit.edu	37	chr10	108439027	108439027	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttacctgtctccaggtgTtccctgcatctgaagagaca	8	13	8	12	0	3	2	0	1	3	1	5	3	4	2	3	1	2	2	3	1	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:108439027T>G	uc001kym.2	-	12	1735	c.1727A>C	c.(1726-1728)AAC>ACC	p.N576T	SORCS1_uc001kyl.2_Missense_Mutation_p.N576T|SORCS1_uc009xxs.2_Missense_Mutation_p.N576T|SORCS1_uc001kyn.1_Missense_Mutation_p.N576T|SORCS1_uc001kyo.2_Missense_Mutation_p.N576T	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	576	Lumenal (Potential).|BNR 4.					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TCTCCAGGTGTTCCCTGCATC	0.398													9	63					0	0	0.010729	0	0		G	108439027	G	G	108439027	3	3	8	1	0	0	0	0	1	0	0	0	14955	1725	60	5	2073	5	SORCS1	10	108439027	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	7912	108439027	27095720	792	7601											
HABP2	3026	broad.mit.edu	37	chr10	115338458	115338458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggacagtcaaccagcatgCgtgcctttactggaactccc	10	9	9	13	1	1	0	1	0	0	0	2	2	2	2	3	2	6	1	3	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:115338458C>T	uc001lai.3	+	7	744	c.641C>T	c.(640-642)GCG>GTG	p.A214V	HABP2_uc010qrz.1_RNA|HABP2_uc010qry.1_3'UTR	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	214	Kringle.				cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		AACCAGCATGCGTGCCTTTAC	0.488													25	71					0	0	0.004656	0	0		T	115338458	T	T	115338458	3	4	8	1	0	0	0	0	1	0	0	0	6954	768	27	1	667	1	HABP2	10	115338458	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6899431	115338458	20196289	793	7602											
VWA2	340706	broad.mit.edu	37	chr10	116021030	116021030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccaacaggaagtgaaggCaagaatcaagaggatggttt	17	6	12	6	0	1	3	1	1	0	2	1	5	1	5	1	4	2	2	1	4	7	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:116021030C>T	uc001lbl.1	+	5	668	c.347C>T	c.(346-348)GCA>GTA	p.A116V	VWA2_uc001lbk.1_Missense_Mutation_p.A116V|VWA2_uc009xyf.1_5'UTR	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	116	VWFA 1.					extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		GAAGTGAAGGCAAGAATCAAG	0.463													10	86					0	0	0.008291	0	0		T	116021030	T	T	116021030	3	4	8	1	0	0	0	0	1	0	0	0	17265	710	25	2	361	2	VWA2	10	116021030	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	682572	116021030	19513717	794	7603											
INPP5F	22876	broad.mit.edu	37	chr10	121583376	121583376	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagatcaccaagcaagccatGggatcggatttacccataat	14	8	8	11	1	1	1	1	0	0	1	2	3	1	3	3	2	3	1	3	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:121583376G>A	uc001leo.2	+	19	2377	c.2211G>A	c.(2209-2211)ATG>ATA	p.M737I	INPP5F_uc001lep.2_Missense_Mutation_p.M127I	NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	737							phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		AGCAAGCCATGGGATCGGATT	0.388													4	48					0	0	0.00308	0	0		A	121583376	A	A	121583376	3	1	8	1	0	0	0	0	1	0	0	0	7774	1348	47	4	2285	4	INPP5F	10	121583376	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	5562346	121583376	13951371	795	7604											
DMBT1	1755	broad.mit.edu	37	chr10	124380630	124380630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtgacaggtgtcgaggccGagtggaggtcctgtatcgag	8	8	18	7	3	0	1	0	1	0	0	3	5	1	2	2	5	0	1	2	5	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:124380630G>A	uc001lgk.1	+	41	5061	c.4955G>A	c.(4954-4956)CGA>CAA	p.R1652Q	DMBT1_uc001lgl.1_Missense_Mutation_p.R1642Q|DMBT1_uc001lgm.1_Missense_Mutation_p.R1024Q|DMBT1_uc009xzz.1_Missense_Mutation_p.R1652Q|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yab.1_Missense_Mutation_p.R355Q|DMBT1_uc009yac.1_5'UTR	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1652	SRCR 13.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TGTCGAGGCCGAGTGGAGGTC	0.557													54	205					0	0	0.01441	0	0		A	124380630	A	A	124380630	3	1	8	1	0	0	0	0	1	0	0	0	4583	1058	37	1	5117	1	DMBT1	10	124380630	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2797254	124380630	11154117	796	7605											
CHST15	51363	broad.mit.edu	37	chr10	125801922	125801922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtccagataatcttccaCgggatagcggtctcgcagcc	9	8	12	12	3	2	1	0	0	2	1	5	3	4	2	3	3	2	1	3	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:125801922C>T	uc001lhl.2	-	3	1441	c.928G>A	c.(928-930)GTG>ATG	p.V310M	CHST15_uc001lhm.2_Missense_Mutation_p.V310M|CHST15_uc001lhn.2_Missense_Mutation_p.V310M|CHST15_uc010que.1_Missense_Mutation_p.V310M|CHST15_uc001lho.2_Missense_Mutation_p.V310M	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	310	Lumenal (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1						TAATCTTCCACGGGATAGCGG	0.522													7	39					0	0	0.00308	0	0		T	125801922	T	T	125801922	3	4	8	1	0	0	0	0	1	0	0	0	3406	536	19	1	777	1	CHST15	10	125801922	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1421292	125801922	9732825	797	7606											
MGMT	4255	broad.mit.edu	37	chr10	131506287	131506287	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccccgtgccggctcttcAccatcccgttttccagcaag	5	11	8	17	3	2	0	1	0	1	0	5	0	5	0	6	1	2	4	6	1	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:131506287A>G	uc001lkh.2	+	3	373	c.347A>G	c.(346-348)CAC>CGC	p.H116R		NM_002412	NP_002403	P16455	MGMT_HUMAN	O-6-methylguanine-DNA methyltransferase	85										ovary(1)|breast(1)	2		all_cancers(35;9.44e-09)|all_epithelial(44;6.98e-08)|Lung NSC(174;0.0157)|all_lung(145;0.0201)|all_neural(114;0.0732)|Colorectal(57;0.0792)|Breast(234;0.167)		OV - Ovarian serous cystadenocarcinoma(35;0.00291)		CCGGCTCTTCACCATCCCGTT	0.537								Direct_reversal_of_damage					14	72					0	0	0.004007	0	0		G	131506287	G	G	131506287	3	3	8	1	0	0	0	0	1	0	0	0	9575	159	6	3	357	3	MGMT	10	131506287	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	5704365	131506287	4028460	798	7607											
EBF3	253738	broad.mit.edu	37	chr10	131639112	131639112	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaacagacacttactgccGtagggagagttagcggagga	15	6	13	7	2	0	2	0	0	0	2	0	5	0	4	1	3	4	2	1	3	5	3	rs147171591		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr10:131639112G>A	uc001lki.1	-	14	1589	c.1530C>T	c.(1528-1530)TAC>TAT	p.Y510Y		NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	519	Pro/Ser/Thr-rich.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		ACTTACTGCCGTAGGGAGAGT	0.507													15	57					0	0	0.003163	0	0		A	131639112	A	A	131639112	2	1	8	1	0	0	0	0	0	0	0	1	4888	1140	40	1		1	EBF3	10	131639112	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	132825	131639112	3895635	799	7608											
NLRP6	171389	broad.mit.edu	37	chr11	281195	281195	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaaaaggagctgccgggCgtgctggagacagaggtcac	12	4	16	9	2	1	2	1	0	0	2	1	4	1	3	1	4	4	3	1	4	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:281195C>T	uc010qvs.1	+	4	1461	c.1461C>T	c.(1459-1461)GGC>GGT	p.G487G	NLRP6_uc010qvt.1_Silent_p.G487G	NM_138329	NP_612202	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	487	NACHT.|LRR 1.					cytoplasm	ATP binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.28e-28)|Epithelial(43;2.47e-27)|OV - Ovarian serous cystadenocarcinoma(40;4.66e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.0485)|LUSC - Lung squamous cell carcinoma(625;0.122)		AGCTGCCGGGCGTGCTGGAGA	0.612													19	76					0	0	0.008871	0	0		T	281195	T	T	281195	2	4	8	1	0	0	0	0	0	0	0	1	10500	755	27	1		1	NLRP6	11	281195	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08		281195	134725321	800	7609											
ANO9	338440	broad.mit.edu	37	chr11	418746	418746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggatgacgaaggccaggcGgatggccaggaggaaccaga	13	2	18	8	2	0	2	0	1	0	1	0	8	0	6	3	7	1	0	3	7	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:418746G>A	uc001lpi.2	-	22	2189	c.2104C>T	c.(2104-2106)CGC>TGC	p.R702C	SIGIRR_uc001lpf.2_5'Flank|SIGIRR_uc001lpe.1_5'Flank|ANO9_uc001lph.2_Missense_Mutation_p.R395C|ANO9_uc010qvv.1_Missense_Mutation_p.R558C	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	702	Extracellular (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						AAGGCCAGGCGGATGGCCAGG	0.607													17	54					0	0	0.004007	0	0		A	418746	A	A	418746	3	1	8	1	0	0	0	0	1	0	0	0	704	1116	39	1	252	1	ANO9	11	418746	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	137551	418746	134587770	801	7610											
PTDSS2	81490	broad.mit.edu	37	chr11	487453	487453	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgttcccgcgcactttCttggctggtacctgaaggta	5	14	11	11	2	1	1	0	1	1	0	2	1	2	1	2	3	1	6	2	3	3	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:487453C>A	uc001lpj.2	+	6	780	c.604C>A	c.(604-606)CTT>ATT	p.L202I		NM_030783	NP_110410	Q9BVG9	PTSS2_HUMAN	phosphatidylserine synthase 2	202	Extracellular (Potential).					integral to membrane					0		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;2.76e-26)|Epithelial(43;2.56e-25)|OV - Ovarian serous cystadenocarcinoma(40;7.54e-20)|BRCA - Breast invasive adenocarcinoma(625;8.76e-05)|Lung(200;0.0407)|LUSC - Lung squamous cell carcinoma(625;0.0735)	Phosphatidylserine(DB00144)	CGCGCACTTTCTTGGCTGGTA	0.637													11	54					3.27435e-08	3.57726e-08	0.00245	1	0		A	487453	A	A	487453	3	1	8	1	0	0	0	0	1	0	0	0	12759	913	32	5	626	5	PTDSS2	11	487453	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	68707	487453	134519063	802	7611											
CDHR5	53841	broad.mit.edu	37	chr11	617603	617603	+	Frame_Shift_Del	DEL	G	-	-																															ccgccagctcgggccgctgcGgggggctcaggggcaccgcc																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:617603delG	uc001lqj.2	-	15	2391	c.2286delC	c.(2284-2286)CCCfs	p.P762fs	IRF7_uc009ycb.2_5'Flank|IRF7_uc010qwf.1_5'Flank|IRF7_uc001lqf.2_5'Flank|IRF7_uc010qwg.1_5'Flank|IRF7_uc001lqg.2_5'Flank|IRF7_uc001lqh.2_5'Flank|IRF7_uc001lqi.2_5'Flank|IRF7_uc010qwh.1_5'Flank|CDHR5_uc001lqk.2_Frame_Shift_Del_p.P568fs|CDHR5_uc009ycc.2_Frame_Shift_Del_p.P596fs|CDHR5_uc009ycd.2_Frame_Shift_Del_p.P756fs|CDHR5_uc001lql.2_Frame_Shift_Del_p.P762fs	NM_021924	NP_068743	Q9HBB8	CDHR5_HUMAN	mucin and cadherin-like isoform 1	762	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						GGGCCGCTGCGGGGGGCTCAG	0.761													6	8	---	---	---	---						.	-	617603	-	-	617603	7	5	8	1	0	1	0	1	0	0	0	0	3125	1103	39	0	255	0	CDHR5	11	617603	Frame_Shift_Del	DEL	G	TCGA-BR-4201-01A-01D-1126-08	130150	617603	134388913	803	7612											
TALDO1	6888	broad.mit.edu	37	chr11	763457	763457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctccccatttgttgggcGcatccttgattggcatgtgg	5	14	11	11	1	1	1	0	1	1	0	3	1	2	1	3	3	0	3	3	3	0	4	rs151052416		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:763457G>A	uc001lqz.2	+	5	625	c.575G>A	c.(574-576)CGC>CAC	p.R192H	TALDO1_uc001lra.2_Missense_Mutation_p.R192H	NM_006755	NP_006746	P37837	TALDO_HUMAN	transaldolase 1	192					energy reserve metabolic process|xylulose biosynthetic process	cytosol	protein binding|sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate glyceronetransferase activity				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;4.66e-26)|Epithelial(43;2.97e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.48e-19)|BRCA - Breast invasive adenocarcinoma(625;4.41e-05)|Lung(200;0.0595)|LUSC - Lung squamous cell carcinoma(625;0.0712)		TTTGTTGGGCGCATCCTTGAT	0.582													24	82					0	0	0.004656	0	0		A	763457	A	A	763457	3	1	8	1	0	0	0	0	1	0	0	0	15568	1087	38	1	593	1	TALDO1	11	763457	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	145854	763457	134243059	804	7613											
LRDD	55367	broad.mit.edu	37	chr11	799897	799897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccagtccagacccagacGcccagccacactcagcaggt	10	4	10	17	1	1	2	1	0	0	2	2	2	2	2	5	2	2	1	5	2	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:799897G>A	uc001lro.1	-	15	2534	c.2392C>T	c.(2392-2394)CGT>TGT	p.R798C	SLC25A22_uc009yci.2_5'Flank|SLC25A22_uc001lrj.2_5'Flank|LRDD_uc009yck.1_RNA|LRDD_uc001lrk.1_Missense_Mutation_p.R781C|LRDD_uc001lrl.1_Missense_Mutation_p.R641C|LRDD_uc001lrm.1_Missense_Mutation_p.R485C|LRDD_uc001lrn.1_Missense_Mutation_p.R641C|LRDD_uc001lrp.1_3'UTR	NM_145886	NP_665893	Q9HB75	PIDD_HUMAN	leucine rich repeat and death domain containing	798	Death.				apoptosis|signal transduction	cytoplasm|nucleus	death receptor binding				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGACCCAGACGCCCAGCCACA	0.692													3	10					0	0	0.009096	0	0		A	799897	A	A	799897	3	1	8	1	0	0	0	0	1	0	0	0	8954	1087	38	1	348	1	LRDD	11	799897	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	36440	799897	134206619	805	7614											
MUC5B	727897	broad.mit.edu	37	chr11	1263879	1263879	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgcgtccactggatccacGgccaccccgacctccaccct	7	6	7	21	3	0	0	0	0	0	0	3	2	3	1	8	2	1	0	8	2	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:1263879G>A	uc009ycr.1	+	47	7974	c.7848G>A	c.(7846-7848)ACG>ACA	p.T2616T	MUC5B_uc001ltb.2_Silent_p.T1926T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1923	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTGGATCCACGGCCACCCCGA	0.647													16	73					0	0	0.008361	0	0		A	1263879	A	A	1263879	2	1	8	1	0	0	0	0	0	0	0	1	9997	1103	39	1		1	MUC5B	11	1263879	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	463982	1263879	133742637	806	7615											
BRSK2	9024	broad.mit.edu	37	chr11	1467040	1467040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaccggcacggcaagcggCggccagaacgcaaatccatg	12	3	13	13	5	0	2	0	1	0	1	1	2	1	2	3	4	3	3	3	4	4	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:1467040C>T	uc001lti.2	+	12	1515	c.1129C>T	c.(1129-1131)CGG>TGG	p.R377W	BRSK2_uc009ycv.1_Missense_Mutation_p.R377W|BRSK2_uc001lth.1_Missense_Mutation_p.R377W|BRSK2_uc001ltj.2_Missense_Mutation_p.R377W|BRSK2_uc001ltk.2_RNA|BRSK2_uc001ltl.2_Missense_Mutation_p.R377W|BRSK2_uc001ltm.2_Missense_Mutation_p.R423W|BRSK2_uc001ltn.2_RNA|BRSK2_uc010qwx.1_RNA	NM_003957	NP_003948	Q8IWQ3	BRSK2_HUMAN	BR serine/threonine kinase 2	377					establishment of cell polarity|neuron differentiation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)		CGGCAAGCGGCGGCCAGAACG	0.697													5	29					0	0	0.001984	0	0		T	1467040	T	T	1467040	3	4	8	1	0	0	0	0	1	0	0	0	1527	759	27	1	1175	1	BRSK2	11	1467040	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	203161	1467040	133539476	807	7616											
OSBPL5	114879	broad.mit.edu	37	chr11	3111807	3111807	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggacaaagtcaccatcCtgctcctcgtctgagagctc	9	8	9	15	1	2	1	1	1	1	1	6	3	4	2	4	1	2	2	4	1	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:3111807C>T	uc001lxk.2	-	20	2537	c.2379G>A	c.(2377-2379)CAG>CAA	p.Q793Q	OSBPL5_uc010qxq.1_Silent_p.Q704Q|OSBPL5_uc009ydw.2_Silent_p.Q725Q|OSBPL5_uc001lxl.2_Silent_p.Q725Q|OSBPL5_uc001lxj.2_Silent_p.Q247Q	NM_020896	NP_065947	Q9H0X9	OSBL5_HUMAN	oxysterol-binding protein-like protein 5 isoform	793					cholesterol metabolic process|cholesterol transport|Golgi to plasma membrane transport	cytosol	oxysterol binding|protein binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		AGTCACCATCCTGCTCCTCGT	0.677													6	14					0	0	0.001168	0	0		T	3111807	T	T	3111807	2	4	8	1	0	0	0	0	0	0	0	1	11299	680	24	4		4	OSBPL5	11	3111807	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1644767	3111807	131894709	808	7617											
ART5	116969	broad.mit.edu	37	chr11	3661166	3661166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcttgggttcaaagcgaaGgctgcccacacctcggaaca	10	7	10	14	2	2	0	1	0	1	0	3	2	2	1	3	3	3	2	3	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:3661166G>A	uc001lyb.1	-	2	886	c.493C>T	c.(493-495)CTT>TTT	p.L165F	ART5_uc001lyc.1_Missense_Mutation_p.L165F|ART5_uc001lyd.2_Missense_Mutation_p.L165F|ART5_uc009yea.2_Missense_Mutation_p.L165F	NM_053017	NP_443750	Q96L15	NAR5_HUMAN	ADP-ribosyltransferase 5 precursor	165						extracellular region	NAD(P)+-protein-arginine ADP-ribosyltransferase activity			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0336)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCAAAGCGAAGGCTGCCCACA	0.632													7	36					0	0	0.00308	0	0		A	3661166	A	A	3661166	3	1	8	1	0	0	0	0	1	0	0	0	1001	1000	35	4	394	4	ART5	11	3661166	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	549359	3661166	131345350	809	7618											
STIM1	6786	broad.mit.edu	37	chr11	4103494	4103494	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagaggcccttcagaagtgGctgcagctgacacatgaggt	10	7	13	11	0	1	4	1	2	0	2	1	4	1	4	2	3	2	3	2	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:4103494G>A	uc001lyv.2	+	8	1618	c.1050G>A	c.(1048-1050)TGG>TGA	p.W350*	STIM1_uc009yef.2_Nonsense_Mutation_p.W350*|STIM1_uc009yeg.2_Nonsense_Mutation_p.W177*	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	350	Cytoplasmic (Potential).|Potential.				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		TTCAGAAGTGGCTGCAGCTGA	0.517													18	41					0	0	0.012319	0	0		A	4103494	A	A	4103494	4	1	8	1	0	0	0	0	0	1	0	0	15308	1212	42	2	1080	2	STIM1	11	4103494	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	442328	4103494	130903022	810	7619											
STIM1	6786	broad.mit.edu	37	chr11	4112533	4112533	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatttgacccattccgattcGgagtcctccctccacatgag	8	11	8	14	2	0	2	0	2	0	0	5	5	4	3	5	1	0	0	5	1	0	3	rs148209416		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:4112533G>A	uc001lyv.2	+	12	2131	c.1563G>A	c.(1561-1563)TCG>TCA	p.S521S	STIM1_uc009yef.2_Missense_Mutation_p.G534R|STIM1_uc009yeg.2_Silent_p.S348S	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	521	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		ATTCCGATTCGGAGTCCTCCC	0.478													12	60					0	0	0.013537	0	0		A	4112533	A	A	4112533	2	1	8	1	0	0	0	0	0	0	0	1	15308	1103	39	1		1	STIM1	11	4112533	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	9039	4112533	130893983	811	7620											
TRIM68	55128	broad.mit.edu	37	chr11	4621714	4621714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacccggcgaggagggaccGgcaaggacaggattgggtac	10	3	17	11	3	0	0	0	0	0	0	0	5	0	4	3	7	1	2	3	7	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:4621714G>A	uc001lzf.1	-	7	1488	c.1250C>T	c.(1249-1251)CCG>CTG	p.P417L	TRIM68_uc001lzg.1_Missense_Mutation_p.P194L|TRIM68_uc010qyj.1_RNA	NM_018073	NP_060543	Q6AZZ1	TRI68_HUMAN	ring finger protein 137	417	B30.2/SPRY.				protein autoubiquitination|regulation of androgen receptor signaling pathway	Golgi apparatus|nucleolus|perinuclear region of cytoplasm	androgen receptor binding|histone acetyltransferase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;9.49e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		AGGAGGGACCGGCAAGGACAG	0.532													13	44					0	0	0.00245	0	0		A	4621714	A	A	4621714	3	1	8	1	0	0	0	0	1	0	0	0	16567	1116	39	1	211	1	TRIM68	11	4621714	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	509181	4621714	130384802	812	7621											
OR51E1	143503	broad.mit.edu	37	chr11	4674693	4674693	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgacttttccatgtggccAcacacgcttcagagccctag	8	11	8	14	2	1	1	1	0	0	1	3	2	2	1	3	1	1	1	3	1	1	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:4674693A>G	uc001lzi.3	+	2	1081	c.937A>G	c.(937-939)ACA>GCA	p.T313A		NM_152430	NP_689643	Q8TCB6	O51E1_HUMAN	olfactory receptor, family 51, subfamily E,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(3)|pancreas(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;7.37e-14)|GBM - Glioblastoma multiforme(2;2.85e-05)|BRCA - Breast invasive adenocarcinoma(625;0.00222)|LUSC - Lung squamous cell carcinoma(625;0.19)		CCATGTGGCCACACACGCTTC	0.433													6	97					0	0	0.001168	0	0		G	4674693	G	G	4674693	3	3	8	1	0	0	0	0	1	0	0	0	11113	159	6	3	939	3	OR51E1	11	4674693	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	52979	4674693	130331823	813	7622											
TRIM5	85363	broad.mit.edu	37	chr11	5699619	5699619	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccaggatgtctctcagttGctcaaaatctgccaagacgt	10	11	9	11	1	4	1	2	0	2	1	6	2	5	2	2	1	2	2	2	1	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:5699619G>A	uc001mbm.1	-	4	816	c.559C>T	c.(559-561)CAA>TAA	p.Q187*	TRIM5_uc001mbq.1_Nonsense_Mutation_p.Q187*|TRIM5_uc001mbl.1_RNA|TRIM5_uc001mbn.2_Nonsense_Mutation_p.Q187*|TRIM5_uc001mbo.2_Nonsense_Mutation_p.Q187*|TRIM5_uc001mbp.2_Nonsense_Mutation_p.Q187*	NM_033034	NP_149023	Q9C035	TRIM5_HUMAN	tripartite motif protein TRIM5 isoform alpha	187	Potential.				interspecies interaction between organisms|protein trimerization|response to virus	cytoplasm|cytoplasmic mRNA processing body	ligase activity|protein binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)|Lung NSC(207;0.138)|all_lung(207;0.221)		Epithelial(150;7.21e-09)|BRCA - Breast invasive adenocarcinoma(625;0.139)		TCTCTCAGTTGCTCAAAATCT	0.463													22	64					0	0	0.00278	0	0		A	5699619	A	A	5699619	4	1	8	1	0	0	0	0	0	1	0	0	16551	1328	46	2	1181	2	TRIM5	11	5699619	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1024926	5699619	129306897	814	7623											
CCKBR	887	broad.mit.edu	37	chr11	6291537	6291537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgctgcagtgcgtgcatcGctggcccagtgcgcgggtcc	3	9	16	13	4	0	0	0	0	0	0	2	0	1	0	2	2	5	4	2	2	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:6291537G>A	uc001mcp.2	+	3	816	c.623G>A	c.(622-624)CGC>CAC	p.R208H	CCKBR_uc001mcq.2_Missense_Mutation_p.R136H|CCKBR_uc001mcr.2_Missense_Mutation_p.R208H|CCKBR_uc001mcs.2_Missense_Mutation_p.R208H|CCKBR_uc001mct.1_5'Flank	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	208	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	TGCGTGCATCGCTGGCCCAGT	0.582													4	36					0	0	0.009096	0	0		A	6291537	A	A	6291537	3	1	8	1	0	0	0	0	1	0	0	0	2884	1087	38	1	633	1	CCKBR	11	6291537	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	591918	6291537	128714979	815	7624											
CCKBR	887	broad.mit.edu	37	chr11	6292725	6292725	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccactccctccattgcttcGctgtccaggcttagctacac	6	11	6	18	1	0	0	0	0	0	0	4	0	3	0	4	1	3	4	4	1	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:6292725G>A	uc001mcp.2	+	5	1489	c.1296G>A	c.(1294-1296)TCG>TCA	p.S432S	CCKBR_uc001mcq.2_Silent_p.S360S|CCKBR_uc001mcr.2_Silent_p.S415S|CCKBR_uc001mcs.2_Silent_p.S501S	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	432	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	CCATTGCTTCGCTGTCCAGGC	0.652													11	39					0	0	0.013537	0	0		A	6292725	A	A	6292725	2	1	8	1	0	0	0	0	0	0	0	1	2884	1074	38	1		1	CCKBR	11	6292725	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1188	6292725	128713791	816	7625											
APBB1	322	broad.mit.edu	37	chr11	6424925	6424925	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgagggggaggcccggccGgggggttcccactgggtggt	3	7	22	9	2	0	1	0	1	0	0	1	2	1	2	3	9	0	1	3	9	0	1	rs139929849		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:6424925G>T	uc001mdb.1	-	3	949	c.849C>A	c.(847-849)CCC>CCA	p.P283P	APBB1_uc001mcz.1_5'Flank|APBB1_uc001mdd.3_Silent_p.P63P|APBB1_uc001mda.2_Intron|APBB1_uc001mdc.1_Silent_p.P283P|APBB1_uc010rab.1_5'Flank|APBB1_uc010rac.1_5'Flank|APBB1_uc010rad.1_5'Flank|APBB1_uc010rae.1_Silent_p.P48P|APBB1_uc010raf.1_Silent_p.P24P|APBB1_uc009yfa.2_Silent_p.P24P|APBB1_uc009yey.2_Silent_p.P24P|APBB1_uc010rag.1_Silent_p.P24P|APBB1_uc009yfb.2_Silent_p.P24P|APBB1_uc001mde.2_Silent_p.P24P|APBB1_uc010rah.1_Silent_p.P24P	NM_001164	NP_001155	O00213	APBB1_HUMAN	amyloid beta A4 precursor protein-binding,	283	WW.				apoptosis|axonogenesis|cell cycle arrest|histone H4 acetylation|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of thymidylate synthase biosynthetic process|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|signal transduction|transcription, DNA-dependent	cytoplasm|growth cone|lamellipodium|nucleus|plasma membrane|synapse	beta-amyloid binding|chromatin binding|histone binding|proline-rich region binding|transcription factor binding			breast(2)	2		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;6.49e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		AGGCCCGGCCGGGGGGTTCCC	0.652													4	34					0.000602214	0.000636366	0.000602	1	0		T	6424925	T	T	6424925	2	4	8	1	0	0	0	0	0	0	0	1	759	1103	39	5		5	APBB1	11	6424925	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	132200	6424925	128581591	817	7626											
DCHS1	8642	broad.mit.edu	37	chr11	6655115	6655115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtcagggtcatgggcaCgcaacctcagcacagctgtg	8	7	13	13	1	3	0	3	0	0	0	3	0	3	0	2	3	3	4	2	3	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:6655115C>T	uc001mem.1	-	4	2533	c.2123G>A	c.(2122-2124)CGT>CAT	p.R708H		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	708	Cadherin 7.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTCATGGGCACGCAACCTCAG	0.557													7	61					0	0	0.001984	0	0		T	6655115	T	T	6655115	3	4	8	1	0	0	0	0	1	0	0	0	4290	536	19	1	7845	1	DCHS1	11	6655115	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	230190	6655115	128351401	818	7627											
DCHS1	8642	broad.mit.edu	37	chr11	6661810	6661810	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgcacagtcacaaaggcCgagcccagctcagggtgagc	12	4	12	13	1	2	1	2	1	0	0	2	2	2	1	2	2	4	2	2	2	1	0	rs143172918	by1000genomes	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:6661810C>T	uc001mem.1	-	2	1445	c.1035G>A	c.(1033-1035)TCG>TCA	p.S345S		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	345	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCACAAAGGCCGAGCCCAGCT	0.597													27	74					0	0	0.00632	0	0		T	6661810	T	T	6661810	2	4	8	1	0	0	0	0	0	0	0	1	4290	639	23	1		1	DCHS1	11	6661810	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6695	6661810	128344706	819	7628											
RBMXL2	27288	broad.mit.edu	37	chr11	7111248	7111248	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccaggacgggggacaccGccatcttacggaggaggagg	9	3	17	12	3	1	0	0	0	1	0	1	5	1	5	4	7	1	0	4	7	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:7111248G>A	uc001mfc.2	+	1	1084	c.897G>A	c.(895-897)CCG>CCA	p.P299P		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	299	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGGGGACACCGCCATCTTACG	0.662													3	11					0	0	0.009096	0	0		A	7111248	A	A	7111248	2	1	8	1	0	0	0	0	0	0	0	1	13179	1074	38	1		1	RBMXL2	11	7111248	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	449438	7111248	127895268	820	7629											
CTR9	9646	broad.mit.edu	37	chr11	10793117	10793117	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcagttatttgagtaaagtgGgagataaaatgagatttgat	15	14	11	1	0	1	4	1	3	0	2	1	6	1	4	0	1	0	2	0	1	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:10793117G>T	uc001mja.2	+	19	2547	c.2398G>T	c.(2398-2400)GGA>TGA	p.G800*		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	800					histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		GAGTAAAGTGGGAGATAAAAT	0.318													12	94					5.16669e-11	5.7381e-11	0.010729	1	0		T	10793117	T	T	10793117	4	4	8	1	0	0	0	0	0	1	0	0	4027	1233	43	5	2472	5	CTR9	11	10793117	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3681869	10793117	124213399	821	7630											
PIK3C2A	5286	broad.mit.edu	37	chr11	17134211	17134211	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagaactgaagaaggaacaCgactgcaaatacaacatgtt	18	8	8	7	1	0	3	0	1	0	2	0	5	0	4	0	1	5	2	0	1	8	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:17134211C>T	uc001mmq.3	-	20	3390	c.3324G>A	c.(3322-3324)TCG>TCA	p.S1108S	PIK3C2A_uc009ygu.1_Translation_Start_Site|PIK3C2A_uc010rcw.1_Silent_p.S728S|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	1108					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	AGAAGGAACACGACTGCAAAT	0.358													20	99					0	0	0.014323	0	0		T	17134211	T	T	17134211	2	4	8	1	0	0	0	0	0	0	0	1	11928	523	19	1		1	PIK3C2A	11	17134211	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6341094	17134211	117872305	822	7631											
ABCC8	6833	broad.mit.edu	37	chr11	17483300	17483300	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagattcacgaagggctgcaGgaagcgtacccccaggtctt	10	7	12	12	2	2	1	1	0	1	1	2	3	2	2	2	3	3	3	2	3	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:17483300G>T	uc001mnc.2	-	5	778	c.652C>A	c.(652-654)CTG>ATG	p.L218M	ABCC8_uc010rcy.1_Missense_Mutation_p.L218M	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	218	Cytoplasmic (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	AAGGGCTGCAGGAAGCGTACC	0.582													9	78					1.12685e-05	1.21448e-05	0.004482	1	0		T	17483300	T	T	17483300	3	4	8	1	0	0	0	0	1	0	0	0	58	991	35	5	4233	5	ABCC8	11	17483300	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	349089	17483300	117523216	823	7632											
MYOD1	4654	broad.mit.edu	37	chr11	17741380	17741380	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagacctgacggcccccgaCggctctctctgctcctttgc	4	10	10	17	3	2	2	0	1	2	1	4	3	3	2	4	2	2	3	4	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:17741380C>T	uc001mni.2	+	1	271	c.51C>T	c.(49-51)GAC>GAT	p.D17D		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	17					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						CGGCCCCCGACGGCTCTCTCT	0.657													8	39					0	0	0.006214	0	0		T	17741380	T	T	17741380	2	4	8	1	0	0	0	0	0	0	0	1	10106	535	19	1		1	MYOD1	11	17741380	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	258080	17741380	117265136	824	7633											
E2F8	79733	broad.mit.edu	37	chr11	19256468	19256468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtacttattctcctcccCgatgctcttcaaggtgccaa	7	12	8	14	2	3	0	1	0	2	0	5	1	4	0	4	2	3	2	4	2	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:19256468C>T	uc001mpm.2	-	5	1111	c.589G>A	c.(589-591)GGG>AGG	p.G197R	E2F8_uc009yhv.2_RNA|E2F8_uc001mpn.3_Missense_Mutation_p.G197R	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	197					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						TTCTCCTCCCCGATGCTCTTC	0.433													6	52					0	0	0.001168	0	0		T	19256468	T	T	19256468	3	4	8	1	0	0	0	0	1	0	0	0	4879	652	23	1	2050	1	E2F8	11	19256468	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1515088	19256468	115750048	825	7634											
KIF18A	81930	broad.mit.edu	37	chr11	28045380	28045380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatttacgtctgcagttaacGaactgtttgatgtagaactt	12	15	8	6	2	1	2	0	1	1	1	1	3	1	2	0	0	5	4	0	0	6	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:28045380G>A	uc001msc.2	-	16	2704	c.2522C>T	c.(2521-2523)TCG>TTG	p.S841L		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	841					blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						TGCAGTTAACGAACTGTTTGA	0.328													10	38					0	0	0.013537	0	0		A	28045380	A	A	28045380	3	1	8	1	0	0	0	0	1	0	0	0	8296	1059	37	1	182	1	KIF18A	11	28045380	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	8788912	28045380	106961136	826	7635											
CCDC73	493860	broad.mit.edu	37	chr11	32636061	32636061	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaagcaatctgaattgtttGaatggctcattttcagaaac	13	13	9	6	0	3	3	2	2	1	1	3	4	3	4	0	2	2	3	0	2	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:32636061G>A	uc001mtv.2	-	16	1847	c.1803C>T	c.(1801-1803)TTC>TTT	p.F601F		NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	601										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					TGAATTGTTTGAATGGCTCAT	0.333													6	51					0	0	0.00308	0	0		A	32636061	A	A	32636061	2	1	8	1	0	0	0	0	0	0	0	1	2849	1281	45	4		4	CCDC73	11	32636061	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4590681	32636061	102370455	827	7636											
C11orf41	25758	broad.mit.edu	37	chr11	33566554	33566554	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtccatacagccttcccAttcacaccaacctacatgta	12	9	4	16	0	1	0	1	0	0	0	3	0	3	0	5	0	4	2	5	0	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:33566554A>G	uc001mup.3	+	2	2266	c.2142A>G	c.(2140-2142)CCA>CCG	p.P714P	C11orf41_uc001mun.1_Silent_p.P714P	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	708						integral to membrane				ovary(2)	2						CAGCCTTCCCATTCACACCAA	0.498													10	62					0	0	0.006214	0	0		G	33566554	G	G	33566554	2	3	8	1	0	0	0	0	0	0	0	1	1643	204	8	3		3	C11orf41	11	33566554	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	930493	33566554	101439962	828	7637											
PDHX	8050	broad.mit.edu	37	chr11	35006241	35006241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatcataaaagatgctgctgCtaaaggtatccaggaaattg	16	10	9	6	0	1	1	1	0	0	1	2	2	2	2	1	2	3	4	1	2	7	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:35006241C>T	uc001mvt.2	+	9	1674	c.1148C>T	c.(1147-1149)GCT>GTT	p.A383V	PDHX_uc010rep.1_Missense_Mutation_p.A368V|PDHX_uc010req.1_Missense_Mutation_p.A156V	NM_003477	NP_003468	O00330	ODPX_HUMAN	pyruvate dehydrogenase complex, component X	383					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	acyltransferase activity			kidney(1)	1	all_epithelial(35;0.115)|Lung NSC(22;0.218)|all_lung(20;0.242)	all_hematologic(20;0.124)	STAD - Stomach adenocarcinoma(6;0.00113)			GATGCTGCTGCTAAAGGTATC	0.388													21	87					0	0	0.012319	0	0		T	35006241	T	T	35006241	3	4	8	1	0	0	0	0	1	0	0	0	11686	797	28	2	1301	2	PDHX	11	35006241	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1439687	35006241	100000275	829	7638											
CD44	960	broad.mit.edu	37	chr11	35211585	35211585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagacagtccctggatcaccGacagcacagacagaatccct	14	5	8	14	1	1	3	1	0	0	3	3	5	3	4	3	1	1	1	3	1	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:35211585G>A	uc001mvu.2	+	5	1074	c.640G>A	c.(640-642)GAC>AAC	p.D214N	CD44_uc001mvv.2_Missense_Mutation_p.D214N|CD44_uc001mvw.2_Missense_Mutation_p.D214N|CD44_uc001mvx.2_Missense_Mutation_p.D214N|CD44_uc001mvy.2_Intron|CD44_uc001mwc.3_Missense_Mutation_p.D214N|CD44_uc010rer.1_Missense_Mutation_p.D214N|CD44_uc009ykh.2_RNA|CD44_uc010res.1_5'UTR|CD44_uc010ret.1_RNA|CD44_uc010reu.1_5'UTR	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	214	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	all_cancers(35;0.212)|all_lung(20;0.0874)|all_epithelial(35;0.112)	all_hematologic(20;0.107)	STAD - Stomach adenocarcinoma(6;0.00731)		Hyaluronidase(DB00070)	CTGGATCACCGACAGCACAGA	0.493													25	60					0	0	0.010818	0	0		A	35211585	A	A	35211585	3	1	8	1	0	0	0	0	1	0	0	0	3020	1058	37	1	658	1	CD44	11	35211585	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	205344	35211585	99794931	830	7639											
ACCS	84680	broad.mit.edu	37	chr11	44105261	44105261	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagggatgcagagggtccaGcaggtgcttgcaggcaaatc	10	6	15	10	0	0	1	0	0	0	1	2	2	1	2	2	4	4	5	2	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:44105261G>A	uc009yks.1	+	15	1569	c.1425G>A	c.(1423-1425)CAG>CAA	p.Q475Q	EXT2_uc010rfo.1_Intron|ACCS_uc001mxx.2_Silent_p.Q475Q	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	475							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						AGAGGGTCCAGCAGGTGCTTG	0.617													3	22					0	0	0.004672	0	0		A	44105261	A	A	44105261	2	1	8	1	0	0	0	0	0	0	0	1	133	962	34	2		2	ACCS	11	44105261	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	8893676	44105261	90901255	831	7640											
EXT2	2132	broad.mit.edu	37	chr11	44135753	44135753	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggccctgttggctggtggCggcttttctacgtggactta	4	13	15	9	2	1	0	0	0	1	0	1	1	1	1	1	6	1	3	1	6	2	5	rs111364140		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:44135753C>T	uc001mxz.2	+	4	979	c.645C>T	c.(643-645)GGC>GGT	p.G215G	EXT2_uc010rfo.1_Silent_p.G243G|EXT2_uc001mxy.2_Silent_p.G228G|EXT2_uc009ykt.2_Silent_p.G215G|EXT2_uc001mya.2_Silent_p.G248G	NM_207122	NP_997005	Q93063	EXT2_HUMAN	exostosin 2 isoform 2	215	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity			lung(2)|breast(2)|skin(1)	5						TGGCTGGTGGCGGCTTTTCTA	0.473			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses				8	37					0	0	0.010729	0	0		T	44135753	T	T	44135753	2	4	8	1	0	0	0	0	0	0	0	1	5332	755	27	1		1	EXT2	11	44135753	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	30492	44135753	90870763	832	7641											
MADD	8567	broad.mit.edu	37	chr11	47298400	47298400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgctgctacccacctgcatgGcatcagcagagcaggtgagt	9	7	12	13	1	1	2	1	1	0	1	1	2	1	2	2	2	5	6	2	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:47298400G>A	uc001ner.1	+	5	1272	c.1081G>A	c.(1081-1083)GCA>ACA	p.A361T	MADD_uc001neq.2_Missense_Mutation_p.A361T|MADD_uc001nev.1_Missense_Mutation_p.A361T|MADD_uc001nes.1_Missense_Mutation_p.A361T|MADD_uc001net.1_Missense_Mutation_p.A361T|MADD_uc009yln.1_Missense_Mutation_p.A361T|MADD_uc001neu.1_Missense_Mutation_p.A361T|MADD_uc001nex.2_Missense_Mutation_p.A361T|MADD_uc001nez.2_Missense_Mutation_p.A361T|MADD_uc001new.2_Missense_Mutation_p.A361T	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	361	DENN.				activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		CACCTGCATGGCATCAGCAGA	0.512													13	50					0	0	0.003163	0	0		A	47298400	A	A	47298400	3	1	8	1	0	0	0	0	1	0	0	0	9170	1203	42	2	1095	2	MADD	11	47298400	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3162647	47298400	87708116	833	7642											
FNBP4	23360	broad.mit.edu	37	chr11	47744543	47744543	+	Frame_Shift_Del	DEL	T	-	-																															tataccttgtctttccttccTttttttgtcttttcaggtgg																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:47744543delT	uc009ylv.2	-	15	2943	c.2790delA	c.(2788-2790)AAAfs	p.K930fs	FNBP4_uc001ngi.2_Frame_Shift_Del_p.K244fs|FNBP4_uc001ngj.2_Frame_Shift_Del_p.K837fs	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	930										ovary(1)	1						CTTTCCTTCCTTTTTTTGTCT	0.184													5	10	---	---	---	---						.	-	47744543	-	-	47744543	7	5	8	1	0	1	0	1	0	0	0	0	5981	1606	56	0	275	0	FNBP4	11	47744543	Frame_Shift_Del	DEL	T	TCGA-BR-4201-01A-01D-1126-08	446143	47744543	87261973	834	7643											
PTPRJ	5795	broad.mit.edu	37	chr11	48134376	48134376	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taacgcagatcagcagtacaGcagaatcctttcataaacag	16	8	7	10	1	2	2	2	0	0	2	3	2	3	2	1	0	5	4	1	0	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:48134376G>A	uc001ngp.3	+	3	548	c.193G>A	c.(193-195)GCA>ACA	p.A65T	PTPRJ_uc001ngo.3_Missense_Mutation_p.A65T	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	65	Extracellular (Potential).				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						CAGCAGTACAGCAGAATCCTT	0.448													11	113					0	0	0.001855	0	0		A	48134376	A	A	48134376	3	1	8	1	0	0	0	0	1	0	0	0	12829	971	34	2	203	2	PTPRJ	11	48134376	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	389833	48134376	86872140	835	7644											
OR4C15	81309	broad.mit.edu	37	chr11	55322311	55322311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggcctatgatcgttatGtggccatttgcaagcccttg	7	13	10	11	1	0	1	0	1	0	0	1	1	0	1	4	2	2	2	4	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:55322311G>A	uc010rig.1	+	1	529	c.529G>A	c.(529-531)GTG>ATG	p.V177M		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	123	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGATCGTTATGTGGCCATTTG	0.507										HNSCC(20;0.049)			8	69					0	0	0.004482	0	0		A	55322311	A	A	55322311	3	1	8	1	0	0	0	0	1	0	0	0	11067	1377	48	4	531	4	OR4C15	11	55322311	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	7187935	55322311	79684205	836	7645											
OR5L1	219437	broad.mit.edu	37	chr11	55579394	55579394	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcttgctgctacttctGtgggacggtgtgttctctga	3	16	13	9	1	3	1	0	1	3	0	4	2	3	2	0	3	3	4	0	3	1	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:55579394G>T	uc001nhw.1	+	1	452	c.452G>T	c.(451-453)TGT>TTT	p.C151F		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	151	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				TGCTACTTCTGTGGGACGGTG	0.468													32	100					2.81731e-10	3.11857e-10	0.010818	1	0		T	55579394	T	T	55579394	3	4	8	1	0	0	0	0	1	0	0	0	11189	1377	48	5	454	5	OR5L1	11	55579394	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	257083	55579394	79427122	837	7646											
OR5D16	390144	broad.mit.edu	37	chr11	55606783	55606783	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctgtgagttatcctccCtgatatcactctcttaccct	6	17	4	14	0	4	2	1	2	3	0	7	2	6	2	3	0	1	1	3	0	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:55606783C>A	uc010rio.1	+	1	556	c.556C>A	c.(556-558)CTG>ATG	p.L186M		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				GTTATCCTCCCTGATATCACT	0.418													14	73					2.61681e-11	2.91008e-11	0.00245	1	0		A	55606783	A	A	55606783	3	1	8	1	0	0	0	0	1	0	0	0	11175	680	24	5	558	5	OR5D16	11	55606783	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	27389	55606783	79399733	838	7647											
OR5M8	219484	broad.mit.edu	37	chr11	56258583	56258583	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggataggaaatgcttttCttctctgaaaggaaaatctc	13	12	9	7	0	3	1	0	1	3	0	5	4	3	4	0	3	1	2	0	3	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:56258583C>A	uc001nix.1	-	1	264	c.264G>T	c.(262-264)AAG>AAT	p.K88N		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					AAATGCTTTTCTTCTCTGAAA	0.458													13	87					0.000219431	0.000233346	0.00245	1	0		A	56258583	A	A	56258583	3	1	8	1	0	0	0	0	1	0	0	0	11195	912	32	5	675	5	OR5M8	11	56258583	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	651800	56258583	78747933	839	7648											
OR5M10	390167	broad.mit.edu	37	chr11	56345140	56345140	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatcttctctagcactgggtCgtctgtcagtcctaagagaa	9	12	10	10	1	4	1	1	0	3	1	7	3	5	1	1	1	1	1	1	1	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:56345140C>T	uc001niz.1	-	1	58	c.58G>A	c.(58-60)GAC>AAC	p.D20N		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGCACTGGGTCGTCTGTCAGT	0.458													24	100					0	0	0.003954	0	0		T	56345140	T	T	56345140	3	4	8	1	0	0	0	0	1	0	0	0	11192	884	31	1	893	1	OR5M10	11	56345140	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	86557	56345140	78661376	840	7649											
OR9I1	219954	broad.mit.edu	37	chr11	57886596	57886596	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagcactctgtgcctgcAcagatggtgaataaaaagaa	17	7	10	7	0	1	4	0	1	1	3	1	4	1	4	1	1	3	2	1	1	6	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:57886596A>G	uc001nml.1	-	1	321	c.321T>C	c.(319-321)TGT>TGC	p.C107C	OR9Q1_uc001nmj.2_Intron	NM_001005211	NP_001005211	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I,	107	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Breast(21;0.0589)				CTGTGCCTGCACAGATGGTGA	0.542													8	38					0	0	0.004482	0	0		G	57886596	G	G	57886596	2	3	8	1	0	0	0	0	0	0	0	1	11272	157	6	3		3	OR9I1	11	57886596	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1541456	57886596	77119920	841	7650											
GLYATL2	219970	broad.mit.edu	37	chr11	58604809	58604809	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggacttcctctaatttgTcaggagctttggtgaagatg	10	13	11	7	0	2	2	1	1	1	1	3	4	3	4	1	3	1	1	1	3	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:58604809T>C	uc001nnd.3	-	4	379	c.248A>G	c.(247-249)GAC>GGC	p.D83G	GLYATL2_uc009ymq.2_Missense_Mutation_p.D83G	NM_145016	NP_659453	Q8WU03	GLYL2_HUMAN	glycine-N-acyltransferase-like 2	83						mitochondrion	glycine N-acyltransferase activity			ovary(1)|skin(1)	2		Breast(21;0.0044)|all_epithelial(135;0.0216)			Glycine(DB00145)	CTCTAATTTGTCAGGAGCTTT	0.378													22	93					0	0	0.00333	0	0		C	58604809	C	C	58604809	3	2	8	1	0	0	0	0	1	0	0	0	6496	1667	58	3	648	3	GLYATL2	11	58604809	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	718213	58604809	76401707	842	7651											
OR10V1	390201	broad.mit.edu	37	chr11	59480554	59480554	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaagtatataaagctggtGcagccatactgcaggaggac	14	7	12	8	0	0	0	0	0	0	0	0	3	0	2	1	3	5	4	1	3	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:59480554G>A	uc001nof.1	-	1	765	c.765C>T	c.(763-765)TGC>TGT	p.C255C		NM_001005324	NP_001005324	Q8NGI7	O10V1_HUMAN	olfactory receptor, family 10, subfamily V,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TAAAGCTGGTGCAGCCATACT	0.522													14	53					0	0	0.003163	0	0		A	59480554	A	A	59480554	2	1	8	1	0	0	0	0	0	0	0	1	10939	1311	46	2		2	OR10V1	11	59480554	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	875745	59480554	75525962	843	7652											
MRPL16	54948	broad.mit.edu	37	chr11	59574080	59574080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcttcaaattcacaacGcccacccatctctacaacaa	14	9	1	17	1	4	0	2	0	2	0	5	0	4	0	2	0	3	0	2	0	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:59574080G>A	uc001noh.2	-	4	710	c.496C>T	c.(496-498)CGT>TGT	p.R166C		NM_017840	NP_060310	Q9NX20	RM16_HUMAN	mitochondrial ribosomal protein L16 precursor	166							rRNA binding			central_nervous_system(1)	1						AATTCACAACGCCCACCCATC	0.552													14	45					0	0	0.00245	0	0		A	59574080	A	A	59574080	3	1	8	1	0	0	0	0	1	0	0	0	9799	1087	38	1	263	1	MRPL16	11	59574080	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	93526	59574080	75432436	844	7653											
TMEM132A	54972	broad.mit.edu	37	chr11	60704376	60704376	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaggatccggggcagctcCtgaccctccacagccacctg	8	5	12	16	1	0	2	0	1	0	1	3	4	3	3	6	3	2	2	6	3	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:60704376C>A	uc001nqj.2	+	11	3262	c.3069C>A	c.(3067-3069)TCC>TCA	p.S1023S	TMEM132A_uc001nqi.2_Silent_p.S1024S|TMEM132A_uc001nqm.2_Silent_p.S233S	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	1023	Cytoplasmic (Potential).|Confers cellular localization similar to full-length form (By similarity).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						GGGGCAGCTCCTGACCCTCCA	0.647													5	15					1.23904e-05	1.33197e-05	0.000602	1	0		A	60704376	A	A	60704376	2	1	8	1	0	0	0	0	0	0	0	1	16070	668	24	5		5	TMEM132A	11	60704376	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1130296	60704376	74302140	845	7654											
SLC15A3	51296	broad.mit.edu	37	chr11	60707056	60707056	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggacctccccaatctgcTgggacacggtctcgttgtgg	7	9	12	13	2	2	0	0	0	2	0	4	2	3	2	3	4	1	2	3	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:60707056T>C	uc001nqn.2	-	6	1565	c.1331A>G	c.(1330-1332)CAG>CGG	p.Q444R	SLC15A3_uc001nqo.2_Missense_Mutation_p.S388G	NM_016582	NP_057666	Q8IY34	S15A3_HUMAN	solute carrier family 15, member 3	444					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0						CCCAATCTGCTGGGACACGGT	0.577													7	34					0	0	0.004482	0	0		C	60707056	C	C	60707056	3	2	8	1	0	0	0	0	1	0	0	0	14425	1580	55	3	426	3	SLC15A3	11	60707056	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2680	60707056	74299460	846	7655											
CD6	923	broad.mit.edu	37	chr11	60783258	60783258	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctcggactcagactatgaGcactatgacttcagcgccca	10	8	10	13	2	2	3	2	2	0	1	3	4	2	4	1	2	2	2	1	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:60783258G>A	uc001nqq.2	+	9	1684	c.1461G>A	c.(1459-1461)GAG>GAA	p.E487E	CD6_uc001nqp.2_Silent_p.E487E|CD6_uc001nqr.2_Silent_p.E455E|CD6_uc001nqs.2_RNA|CD6_uc001nqt.2_Intron	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule precursor	487	Cytoplasmic (Potential).				cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1						CAGACTATGAGCACTATGACT	0.627													10	36					0	0	0.006214	0	0		A	60783258	A	A	60783258	2	1	8	1	0	0	0	0	0	0	0	1	3031	962	34	2		2	CD6	11	60783258	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	76202	60783258	74223258	847	7656											
DAK	26007	broad.mit.edu	37	chr11	61110231	61110231	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgtctacccgcaggctcCtcagttgtgatgatggtcaa	8	12	10	11	1	4	2	3	2	1	0	5	2	5	2	2	2	1	3	2	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:61110231C>A	uc001nre.2	+	10	1037	c.780C>A	c.(778-780)TCC>TCA	p.S260S	DDB1_uc010rlf.1_5'Flank|DAK_uc009ynm.1_Silent_p.S190S	NM_015533	NP_056348	Q3LXA3	DHAK_HUMAN	dihydroxyacetone kinase 2	260	DhaK.				glycerol metabolic process	cytosol	ATP binding|FAD-AMP lyase (cyclizing) activity|glycerone kinase activity|metal ion binding				0						CCGCAGGCTCCTCAGTTGTGA	0.622													7	22					1.26484e-09	1.39274e-09	0.00308	1	0		A	61110231	A	A	61110231	2	1	8	1	0	0	0	0	0	0	0	1	4231	668	24	5		5	DAK	11	61110231	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	326973	61110231	73896285	848	7657											
AHNAK	79026	broad.mit.edu	37	chr11	62292451	62292451	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attttaggcatcttcaggtgCcagtctgggccttgaacatc	8	13	10	10	0	3	1	1	1	2	0	4	1	3	1	2	3	2	1	2	3	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:62292451C>T	uc001ntl.2	-	5	9738	c.9438G>A	c.(9436-9438)TGG>TGA	p.W3146*	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3146					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TCTTCAGGTGCCAGTCTGGGC	0.488													51	251					0	0	0.01441	0	0		T	62292451	T	T	62292451	4	4	8	1	0	0	0	0	0	1	0	0	414	740	26	2	8354	2	AHNAK	11	62292451	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1182220	62292451	72714065	849	7658											
METTL12	751071	broad.mit.edu	37	chr11	62433383	62433383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcgaatgctccacttgcCgagcctgatgatggggacgt	7	9	14	11	4	0	2	0	2	0	0	2	5	1	3	3	2	3	1	3	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:62433383C>T	uc001nug.1	+	2	291	c.32C>T	c.(31-33)CCG>CTG	p.P11L	C11orf48_uc001nue.2_Intron|C11orf48_uc001nuf.2_Intron|METTL12_uc001nuh.2_5'UTR|METTL12_uc010rmc.1_RNA	NM_001043229	NP_001036694	A8MUP2	MTL12_HUMAN	methyltransferase like 12 precursor	11						mitochondrion	methyltransferase activity				0						CTCCACTTGCCGAGCCTGATG	0.632													9	29					0	0	0.010729	0	0		T	62433383	T	T	62433383	3	4	8	1	0	0	0	0	1	0	0	0	9514	652	23	1	34	1	METTL12	11	62433383	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	140932	62433383	72573133	850	7659											
UBXN1	51035	broad.mit.edu	37	chr11	62446025	62446025	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggatatgtccaaggggAgtctctaaaggctcgtccac	10	8	11	12	1	1	0	0	0	1	0	5	2	3	2	3	4	0	1	3	4	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:62446025A>G	uc001nul.1	-	3	294	c.162T>C	c.(160-162)ACT>ACC	p.T54T	UBXN1_uc001nuj.2_Silent_p.T54T|UBXN1_uc001num.1_Silent_p.T54T|UBXN1_uc001nuk.2_Silent_p.T19T|UBXN1_uc010rme.1_Silent_p.T54T|UBXN1_uc010rmf.1_Silent_p.T54T	NM_015853	NP_056937	Q04323	UBXN1_HUMAN	UBX domain protein 1	54	Interaction with BRCA1.				negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process	cytoplasm	ATPase binding|K6-linked polyubiquitin binding				0						GTCCAAGGGGAGTCTCTAAAG	0.612													13	51					0	0	0.008871	0	0		G	62446025	G	G	62446025	2	3	8	1	0	0	0	0	0	0	0	1	16937	291	11	3		3	UBXN1	11	62446025	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	12642	62446025	72560491	851	7660											
PLCB3	5331	broad.mit.edu	37	chr11	64026040	64026040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggacgtgtggaagggacggCcgcctgaggaggaacccttc	8	6	17	10	3	0	1	0	1	0	0	1	6	0	6	3	6	1	0	3	6	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:64026040C>T	uc001nzb.2	+	11	1108	c.1108C>T	c.(1108-1110)CCG>TCG	p.P370S	PLCB3_uc009ypg.1_Missense_Mutation_p.P370S|PLCB3_uc009yph.1_Missense_Mutation_p.P303S|PLCB3_uc009ypi.2_Missense_Mutation_p.P370S	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	370	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						GAAGGGACGGCCGCCTGAGGA	0.652													13	35					0	0	0.004007	0	0		T	64026040	T	T	64026040	3	4	8	1	0	0	0	0	1	0	0	0	12048	739	26	2	1150	2	PLCB3	11	64026040	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1580015	64026040	70980476	852	7661											
GPR137	56834	broad.mit.edu	37	chr11	64054479	64054479	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtcggccggagatgagcCgaggcttgtaagtactcggg	8	7	17	9	5	0	2	0	1	0	1	2	4	0	2	2	4	3	3	2	4	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:64054479C>T	uc001nzg.1	+	3	708	c.400C>T	c.(400-402)CGA>TGA	p.R134*	BAD_uc001nzd.2_5'Flank|BAD_uc001nzc.2_5'Flank|GPR137_uc009ypj.1_Nonsense_Mutation_p.R140*|BAD_uc009ypk.2_5'Flank|GPR137_uc010rni.1_Nonsense_Mutation_p.R192*|GPR137_uc001nze.1_Nonsense_Mutation_p.R134*|GPR137_uc001nzf.2_Nonsense_Mutation_p.R134*|GPR137_uc001nzh.1_Nonsense_Mutation_p.R134*|GPR137_uc001nzi.2_Nonsense_Mutation_p.R134*|GPR137_uc010rnj.1_Nonsense_Mutation_p.R134*	NM_020155	NP_064540	Q96N19	G137A_HUMAN	G protein-coupled receptor 137	134	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(1)	1						GGAGATGAGCCGAGGCTTGTA	0.532													3	10					0	0	0.004672	0	0		T	64054479	T	T	64054479	4	4	8	1	0	0	0	0	0	1	0	0	6660	644	23	1	588	1	GPR137	11	64054479	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	28439	64054479	70952037	853	7662											
SLC22A11	55867	broad.mit.edu	37	chr11	64329603	64329603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggccgcttttgggatggccGgcatctttctgagttcactg	4	14	13	10	2	3	1	1	1	2	0	3	2	3	2	2	4	0	3	2	4	0	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:64329603G>A	uc001oai.2	+	3	999	c.625G>A	c.(625-627)GGC>AGC	p.G209S	SLC22A11_uc001oah.1_Missense_Mutation_p.R174Q|SLC22A11_uc001oaj.2_Missense_Mutation_p.G209S|SLC22A11_uc009ypq.2_Missense_Mutation_p.G209S|SLC22A11_uc001oak.1_Missense_Mutation_p.G38S	NM_018484	NP_060954	Q9NSA0	S22AB_HUMAN	solute carrier family 22 member 11	209	Helical; (Potential).				urate metabolic process	apical plasma membrane|external side of plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium-independent organic anion transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2					Probenecid(DB01032)	TGGGATGGCCGGCATCTTTCT	0.662											OREG0004030	type=REGULATORY REGION|Gene=SLC22A11|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	7	22					0	0	0.00308	0	0		A	64329603	A	A	64329603	3	1	8	1	0	0	0	0	1	0	0	0	14467	1116	39	1	635	1	SLC22A11	11	64329603	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	275124	64329603	70676913	854	7663											
NRXN2	9379	broad.mit.edu	37	chr11	64428294	64428294	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagcggttccagccttctcGacagacgcccccattgcgac	8	7	10	16	4	1	1	0	0	1	1	3	4	2	1	4	1	3	1	4	1	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:64428294G>A	uc001oar.2	-	11	2555	c.2116C>T	c.(2116-2118)CGA>TGA	p.R706*	NRXN2_uc001oas.2_Nonsense_Mutation_p.R675*|NRXN2_uc001oaq.2_Nonsense_Mutation_p.R373*	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:Variant_position_missing_in_P58401_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CAGCCTTCTCGACAGACGCCC	0.632													6	46					0	0	0.001984	0	0		A	64428294	A	A	64428294	4	1	8	1	0	0	0	0	0	1	0	0	10685	1066	37	1	3347	1	NRXN2	11	64428294	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	98691	64428294	70578222	855	7664											
C11orf2	738	broad.mit.edu	37	chr11	64878997	64878997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtggcctctgctgccctgCgctgcccagaccctgtgccc	2	9	12	18	1	1	1	0	0	1	1	1	1	1	1	5	2	5	2	5	2	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:64878997C>T	uc001ocr.1	+	10	2327	c.2287C>T	c.(2287-2289)CGC>TGC	p.R763C	TM7SF2_uc001oct.2_5'Flank|TM7SF2_uc010rny.1_5'Flank|TM7SF2_uc001ocu.2_5'Flank|TM7SF2_uc001ocv.2_5'Flank|C11orf2_uc001ocs.1_Missense_Mutation_p.R639C	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	763					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						TGCTGCCCTGCGCTGCCCAGA	0.642													4	34					0	0	0.009096	0	0		T	64878997	T	T	64878997	3	4	8	1	0	0	0	0	1	0	0	0	1636	768	27	1	2325	1	C11orf2	11	64878997	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	450703	64878997	70127519	856	7665											
PELI3	246330	broad.mit.edu	37	chr11	66241301	66241301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccggcaggcggcttctccGaggactcagccccgggtgtc	5	6	14	16	4	2	0	1	0	1	0	4	2	2	1	4	5	1	2	4	5	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:66241301G>A	uc001oic.3	+	7	909	c.745G>A	c.(745-747)GAG>AAG	p.E249K	PELI3_uc001oib.2_Missense_Mutation_p.E249K|PELI3_uc001oid.3_Missense_Mutation_p.E225K|PELI3_uc001oie.3_Missense_Mutation_p.E100K|PELI3_uc010rpd.1_Missense_Mutation_p.E90K	NM_145065	NP_659502	Q8N2H9	PELI3_HUMAN	pellino 3 alpha isoform 1	249						cytosol	protein binding			ovary(1)	1						CGGCTTCTCCGAGGACTCAGC	0.652													9	25					0	0	0.006214	0	0		A	66241301	A	A	66241301	3	1	8	1	0	0	0	0	1	0	0	0	11742	1059	37	1	767	1	PELI3	11	66241301	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1362304	66241301	68765215	857	7666											
DPP3	10072	broad.mit.edu	37	chr11	66262922	66262922	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagagtgccgggctgagagCgtgggtctctacctctgtct	6	10	15	10	2	3	2	0	1	3	2	4	4	3	2	2	2	3	1	2	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:66262922C>T	uc001oig.1	+	14	1601	c.1539C>T	c.(1537-1539)AGC>AGT	p.S513S	DPP3_uc001oif.1_Silent_p.S513S|DPP3_uc010rpe.1_Silent_p.S502S|DPP3_uc001oih.1_5'Flank	NM_005700	NP_005691	Q9NY33	DPP3_HUMAN	dipeptidyl peptidase III	513					proteolysis	cytoplasm	aminopeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity			ovary(1)|skin(1)	2						GGGCTGAGAGCGTGGGTCTCT	0.642													5	13					0	0	0.001168	0	0		T	66262922	T	T	66262922	2	4	8	1	0	0	0	0	0	0	0	1	4734	767	27	1		1	DPP3	11	66262922	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	21621	66262922	68743594	858	7667											
SPTBN2	6712	broad.mit.edu	37	chr11	66475139	66475139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctgccgagcggcgatgcGcttgatgtcgtggtagcgct	4	10	17	10	6	0	1	0	1	0	0	1	3	0	1	1	2	5	4	1	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:66475139G>A	uc001ojd.2	-	12	1573	c.1501C>T	c.(1501-1503)CGC>TGC	p.R501C		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	501	Spectrin 2.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GCGGCGATGCGCTTGATGTCG	0.687													4	18					0	0	0.000602	0	0		A	66475139	A	A	66475139	3	1	8	1	0	0	0	0	1	0	0	0	15145	1087	38	1	5775	1	SPTBN2	11	66475139	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	212217	66475139	68531377	859	7668											
SSH3	54961	broad.mit.edu	37	chr11	67076941	67076941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcacctaccacaatgtgCgcctctgggatgaggagtcg	8	9	12	12	2	2	1	1	1	1	0	3	3	2	3	3	2	2	1	3	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:67076941C>T	uc001okj.2	+	11	1313	c.1135C>T	c.(1135-1137)CGC>TGC	p.R379C	SSH3_uc001okk.2_RNA|SSH3_uc001okl.2_Missense_Mutation_p.R233C	NM_017857	NP_060327	Q8TE77	SSH3_HUMAN	slingshot homolog 3	379	Tyrosine-protein phosphatase.				regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton|nucleus	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			CCACAATGTGCGCCTCTGGGA	0.617													4	24					0	0	0.001168	0	0		T	67076941	T	T	67076941	3	4	8	1	0	0	0	0	1	0	0	0	15211	768	27	1	1177	1	SSH3	11	67076941	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	601802	67076941	67929575	860	7669											
CARNS1	57571	broad.mit.edu	37	chr11	67191613	67191613	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgctcgatggagtcttcaaCgtggagctcaagctgaccgg	8	10	13	10	3	3	1	2	1	1	0	4	4	3	3	1	3	4	3	1	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:67191613C>T	uc009yrp.2	+	9	2477	c.2025C>T	c.(2023-2025)AAC>AAT	p.N675N	PPP1CA_uc001okx.1_5'Flank|CARNS1_uc001olc.3_Silent_p.N814N	NM_020811	NP_065862	A5YM72	CRNS1_HUMAN	ATP-grasp domain containing 1	675	ATP-grasp.				carnosine biosynthetic process		ATP binding|carnosine synthase activity|metal ion binding				0						GAGTCTTCAACGTGGAGCTCA	0.627													5	20					0	0	0.000602	0	0		T	67191613	T	T	67191613	2	4	8	1	0	0	0	0	0	0	0	1	2659	535	19	1		1	CARNS1	11	67191613	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	114672	67191613	67814903	861	7670											
NUMA1	4926	broad.mit.edu	37	chr11	71725087	71725087	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccgctcagcccgggaggcCcgctcagcctcgaggctgcg	4	5	14	18	5	2	0	2	0	0	0	4	2	3	1	4	3	3	3	4	3	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:71725087C>T	uc001orl.1	-	15	3634	c.3462G>A	c.(3460-3462)CGG>CGA	p.R1154R	NUMA1_uc009ysw.1_Silent_p.R717R|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Silent_p.R1154R|NUMA1_uc001orn.2_Silent_p.R717R|NUMA1_uc009ysx.1_Silent_p.R1154R|NUMA1_uc001oro.1_Silent_p.R1154R	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1154	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						CCCGGGAGGCCCGCTCAGCCT	0.647			T	RARA	APL								4	42					0	0	0.000602	0	0		T	71725087	T	T	71725087	2	4	8	1	0	0	0	0	0	0	0	1	10769	610	22	4		4	NUMA1	11	71725087	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4533474	71725087	63281429	862	7671											
NUMA1	4926	broad.mit.edu	37	chr11	71725245	71725245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgggctcctgagccagatgCgtgctccttttctttcttag	4	16	10	11	1	2	2	0	1	2	1	4	2	4	2	3	1	3	2	3	1	1	5	rs140741340	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:71725245C>T	uc001orl.1	-	15	3476	c.3304G>A	c.(3304-3306)GCA>ACA	p.A1102T	NUMA1_uc009ysw.1_Missense_Mutation_p.A665T|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.A1102T|NUMA1_uc001orn.2_Missense_Mutation_p.A665T|NUMA1_uc009ysx.1_Missense_Mutation_p.A1102T|NUMA1_uc001oro.1_Missense_Mutation_p.A1102T	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1102	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						GAGCCAGATGCGTGCTCCTTT	0.577			T	RARA	APL								20	73					0	0	0.010504	0	0		T	71725245	T	T	71725245	3	4	8	1	0	0	0	0	1	0	0	0	10769	768	27	1	3095	1	NUMA1	11	71725245	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	158	71725245	63281271	863	7672											
C11orf51	25906	broad.mit.edu	37	chr11	71821248	71821248	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcatcatcttcatcatcCtcttcttcctcgtcatcata	7	17	1	16	1	9	0	6	0	3	0	13	0	12	0	3	0	0	0	3	0	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:71821248C>A	uc001orw.2	-	5	426	c.204G>T	c.(202-204)GAG>GAT	p.E68D	LRTOMT_uc010rqv.1_3'UTR|LRTOMT_uc010rqw.1_3'UTR|LRTOMT_uc001ors.3_3'UTR|C11orf51_uc009ytc.1_Missense_Mutation_p.E59D|C11orf51_uc001orv.2_Missense_Mutation_p.E68D	NM_014042	NP_054761	P60006	CK051_HUMAN	hypothetical protein LOC25906	68	Asp-rich.					intracellular					0						cttcatcatcctcttcttcct	0.348													22	145					2.89027e-11	3.21205e-11	0.014323	1	0		A	71821248	A	A	71821248	3	1	8	1	0	0	0	0	1	0	0	0	1649	680	24	5	169	5	C11orf51	11	71821248	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	96003	71821248	63185268	864	7673											
INPPL1	3636	broad.mit.edu	37	chr11	71948748	71948748	+	Frame_Shift_Del	DEL	C	-	-																															caggccccctggagctgcagCccccccggggactgccctcg																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:71948748delC	uc001osf.2	+	26	3607	c.3460delC	c.(3460-3462)CCCfs	p.P1154fs	INPPL1_uc001osg.2_Frame_Shift_Del_p.P912fs	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	1154					actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						GGAGCTGCAGCCCCCCCGGGG	0.697													3	6	---	---	---	---						.	-	71948748	-	-	71948748	7	5	8	1	0	1	0	1	0	0	0	0	7777	739	26	0	3562	0	INPPL1	11	71948748	Frame_Shift_Del	DEL	C	TCGA-BR-4201-01A-01D-1126-08	127500	71948748	63057768	865	7674											
RELT	84957	broad.mit.edu	37	chr11	73106159	73106159	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggctcgaattcctgagcaGcggacaagttcaatggtgtc	9	10	13	9	2	1	1	1	1	0	0	4	3	2	2	1	3	2	3	1	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:73106159G>A	uc001otv.2	+	10	1239	c.1074G>A	c.(1072-1074)CAG>CAA	p.Q358Q	RELT_uc001otw.2_Silent_p.Q358Q|RELT_uc001otx.2_RNA	NM_152222	NP_689408	Q969Z4	TR19L_HUMAN	RELT tumor necrosis factor receptor precursor	358	Cytoplasmic (Potential).					cytoplasm|integral to membrane|plasma membrane	binding|receptor activity			upper_aerodigestive_tract(1)	1						tTCCTGAGCAGCGGACAAGTT	0.348													12	46					0	0	0.001855	0	0		A	73106159	A	A	73106159	2	1	8	1	0	0	0	0	0	0	0	1	13246	962	34	2		2	RELT	11	73106159	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1157411	73106159	61900357	866	7675											
RSF1	51773	broad.mit.edu	37	chr11	77386207	77386207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggtgtcgcctcagtctacGgctacaaaagtcagtgtcac	9	9	12	11	2	4	0	3	0	1	0	5	0	4	0	1	3	2	1	1	3	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:77386207G>A	uc001oyn.2	-	14	3556	c.3436C>T	c.(3436-3438)CGT>TGT	p.R1146C	RSF1_uc001oym.2_Missense_Mutation_p.R894C	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	1146	Arg-rich.				CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			CTCAGTCTACGGCTACAAAAG	0.468													14	50					0	0	0.003163	0	0		A	77386207	A	A	77386207	3	1	8	1	0	0	0	0	1	0	0	0	13724	1116	39	1	901	1	RSF1	11	77386207	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4280048	77386207	57620309	867	7676											
KCTD21	283219	broad.mit.edu	37	chr11	77884897	77884897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagaagaatcgatgcagaagCcatcgctcagagcgattttc	13	8	11	9	3	1	4	1	0	0	4	4	7	1	4	1	0	3	2	1	0	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:77884897C>T	uc001ozb.2	-	2	779	c.704G>A	c.(703-705)GGC>GAC	p.G235D		NM_001029859	NP_001025030	Q4G0X4	KCD21_HUMAN	potassium channel tetramerisation domain	235						voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.46e-24)			GATGCAGAAGCCATCGCTCAG	0.473													32	129					0	0	0.013726	0	0		T	77884897	T	T	77884897	3	4	8	1	0	0	0	0	1	0	0	0	8125	739	26	2	82	2	KCTD21	11	77884897	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	498690	77884897	57121619	868	7677											
PRCP	5547	broad.mit.edu	37	chr11	82560971	82560971	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttaccagtatttgagagtcGattaatggcatcccaggacc	11	11	9	10	1	0	1	0	1	0	1	2	4	1	2	3	2	1	2	3	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:82560971G>A	uc001ozs.2	-	5	849	c.736C>T	c.(736-738)CGA>TGA	p.R246*	PRCP_uc001ozr.2_Nonsense_Mutation_p.R267*	NM_005040	NP_005031	P42785	PCP_HUMAN	prolylcarboxypeptidase isoform 1 preproprotein	246	SKS domain.				blood coagulation, intrinsic pathway|proteolysis	lysosome|plasma membrane	protein binding|serine-type carboxypeptidase activity			skin(1)	1						TTTGAGAGTCGATTAATGGCA	0.353													17	71					0	0	0.008871	0	0		A	82560971	A	A	82560971	4	1	8	1	0	0	0	0	0	1	0	0	12471	1066	37	1	774	1	PRCP	11	82560971	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4676074	82560971	52445545	869	7678											
CCDC83	220047	broad.mit.edu	37	chr11	85622403	85622403	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaatttggtgcttattgAtcaactatccaactgtagac	14	13	7	7	0	1	3	1	1	0	2	2	3	2	3	1	1	3	2	1	1	7	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:85622403A>T	uc001pbh.1	+	8	1264	c.752A>T	c.(751-753)GAT>GTT	p.D251V	CCDC83_uc001pbg.1_Missense_Mutation_p.D251V|CCDC83_uc001pbi.1_RNA|CCDC83_uc001pbj.1_Missense_Mutation_p.D152V	NM_173556	NP_775827	Q8IWF9	CCD83_HUMAN	coiled-coil domain containing 83	251	Potential.									skin(1)	1		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				GTGCTTATTGATCAACTATCC	0.333													12	104					0	0	0.00245	0	0		T	85622403	T	T	85622403	3	4	8	1	0	0	0	0	1	0	0	0	2860	333	12	5	778	5	CCDC83	11	85622403	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3061432	85622403	49384113	870	7679											
CCDC81	60494	broad.mit.edu	37	chr11	86123507	86123507	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaatattcccggagtctcCtgaaacaaatggataacaga	16	8	9	8	1	1	2	0	1	1	1	3	5	2	5	2	3	2	0	2	3	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:86123507C>A	uc001pbx.1	+	11	1725	c.1297C>A	c.(1297-1299)CTG>ATG	p.L433M	CCDC81_uc001pbw.1_Missense_Mutation_p.L343M|CCDC81_uc010rtq.1_Missense_Mutation_p.L216M|CCDC81_uc001pby.1_Missense_Mutation_p.L168M	NM_001156474	NP_001149946	Q6ZN84	CCD81_HUMAN	coiled-coil domain containing 81 isoform 1	433										skin(1)	1		Acute lymphoblastic leukemia(157;5.51e-06)|all_hematologic(158;0.00535)				CCGGAGTCTCCTGAAACAAAT	0.428													13	86					3.27435e-08	3.57726e-08	0.00245	1	0		A	86123507	A	A	86123507	3	1	8	1	0	0	0	0	1	0	0	0	2858	680	24	5	1339	5	CCDC81	11	86123507	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	501104	86123507	48883009	871	7680											
CEP57	9702	broad.mit.edu	37	chr11	95564282	95564282	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagcagcagccgttctggAatcacagggaccacaaataa	16	5	9	11	1	2	0	1	0	1	0	2	2	2	2	2	2	4	3	2	2	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:95564282A>G	uc001pfp.1	+	11	1586	c.1365A>G	c.(1363-1365)GGA>GGG	p.G455G	CEP57_uc010ruh.1_Silent_p.G446G|CEP57_uc010rui.1_Silent_p.G429G|CEP57_uc009ywn.1_Silent_p.G303G|CEP57_uc001pfq.1_Silent_p.G429G|CEP57_uc001pfr.1_Silent_p.G303G	NM_014679	NP_055494	Q86XR8	CEP57_HUMAN	translokin	455	Mediates interaction with microtubules (By similarity).|Potential.				fibroblast growth factor receptor signaling pathway|G2/M transition of mitotic cell cycle|protein import into nucleus, translocation|spermatid development	centrosome|cytosol|Golgi apparatus|microtubule|nucleus	fibroblast growth factor binding|protein homodimerization activity			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GCCGTTCTGGAATCACAGGGA	0.378									Mosaic_Variegated_Aneuploidy_Syndrome				12	59					0	0	0.008871	0	0		G	95564282	G	G	95564282	2	3	8	1	0	0	0	0	0	0	0	1	3259	233	9	3		3	CEP57	11	95564282	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	9440775	95564282	39442234	872	7681											
CNTN5	53942	broad.mit.edu	37	chr11	100211310	100211310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatacgttatatcacttcaCagtgagggcttacaatggag	14	11	9	7	1	2	1	2	1	0	0	2	2	2	2	0	2	2	2	0	2	6	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:100211310C>T	uc001pga.2	+	22	3185	c.2846C>T	c.(2845-2847)ACA>ATA	p.T949I	CNTN5_uc001pgb.2_Missense_Mutation_p.T875I|CNTN5_uc010ruk.1_Missense_Mutation_p.T220I	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	949	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		TATCACTTCACAGTGAGGGCT	0.443													5	52					0	0	0.000602	0	0		T	100211310	T	T	100211310	3	4	8	1	0	0	0	0	1	0	0	0	3647	478	17	4	2924	4	CNTN5	11	100211310	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4647028	100211310	34795206	873	7682											
DYNC2H1	79659	broad.mit.edu	37	chr11	103090682	103090682	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagaacttgaaagactgaaGcacagaatagcagaagaagt	20	5	10	6	0	0	7	0	2	0	5	0	7	0	7	0	0	3	2	0	0	7	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:103090682G>T	uc001pho.2	+	56	9015	c.8871G>T	c.(8869-8871)AAG>AAT	p.K2957N	DYNC2H1_uc001phn.1_Missense_Mutation_p.K2957N|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2957	Potential.|Stalk (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AAAGACTGAAGCACAGAATAG	0.269													5	32					0.000157383	0.000167469	0.00308	1	0		T	103090682	T	T	103090682	3	4	8	1	0	0	0	0	1	0	0	0	4852	962	34	5	9093	5	DYNC2H1	11	103090682	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2879372	103090682	31915834	874	7683											
DYNC2H1	79659	broad.mit.edu	37	chr11	103128425	103128425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaattaataacatgtaccGttttagtttggctgcttttc	11	17	6	7	1	0	0	0	0	0	0	1	0	0	0	1	1	3	5	1	1	6	8			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:103128425G>A	uc001pho.2	+	69	10694	c.10550G>A	c.(10549-10551)CGT>CAT	p.R3517H	DYNC2H1_uc001phn.1_Missense_Mutation_p.R3524H|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3517					cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AACATGTACCGTTTTAGTTTG	0.428													5	14					0	0	0.000602	0	0		A	103128425	A	A	103128425	3	1	8	1	0	0	0	0	1	0	0	0	4852	1145	40	1	10849	1	DYNC2H1	11	103128425	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	37743	103128425	31878091	875	7684											
NPAT	4863	broad.mit.edu	37	chr11	108031665	108031665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagatttttactagaaggaCgagagtttcgctcacgttca	12	13	9	7	3	2	3	2	0	0	3	3	5	2	4	0	1	1	3	0	1	4	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:108031665C>T	uc001pjz.3	-	17	4250	c.4148G>A	c.(4147-4149)CGT>CAT	p.R1383H	NPAT_uc010rvv.1_Missense_Mutation_p.R439H	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	1383					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		ACTAGAAGGACGAGAGTTTCG	0.333													7	37					0	0	0.00308	0	0		T	108031665	T	T	108031665	3	4	8	1	0	0	0	0	1	0	0	0	10585	536	19	1	143	1	NPAT	11	108031665	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4903240	108031665	26974851	876	7685											
DLAT	1737	broad.mit.edu	37	chr11	111922036	111922036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcatgtttaaaagttcccGaagcaaattcttcttggatg	11	14	9	7	1	2	0	0	0	2	0	3	2	3	1	1	2	1	4	1	2	4	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:111922036G>A	uc001pmo.2	+	11	2136	c.1477G>A	c.(1477-1479)GAA>AAA	p.E493K	DLAT_uc009yyk.1_Missense_Mutation_p.E388K|DLAT_uc010rwr.1_Missense_Mutation_p.E366K	NM_001931	NP_001922	P10515	ODP2_HUMAN	dihydrolipoamide S-acetyltransferase precursor	493	Catalytic (By similarity).				glycolysis|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial pyruvate dehydrogenase complex	dihydrolipoyllysine-residue acetyltransferase activity|protein binding				0		all_cancers(61;4.53e-11)|all_epithelial(67;2.76e-06)|Melanoma(852;9.42e-06)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0512)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)		Epithelial(105;4.87e-07)|BRCA - Breast invasive adenocarcinoma(274;6.83e-07)|all cancers(92;9.63e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0557)	NADH(DB00157)	AAAAGTTCCCGAAGCAAATTC	0.348													13	54					0	0	0.00245	0	0		A	111922036	A	A	111922036	3	1	8	1	0	0	0	0	1	0	0	0	4555	1059	37	1	1519	1	DLAT	11	111922036	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3890371	111922036	23084480	877	7686											
DRD2	1813	broad.mit.edu	37	chr11	113286314	113286314	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacgaaggccgggttggcAatgatgcactcgttctggtc	8	9	13	11	3	1	1	0	1	1	0	3	2	1	1	2	4	1	4	2	4	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:113286314A>G	uc001pnz.2	-	4	873	c.552T>C	c.(550-552)ATT>ATC	p.I184I	DRD2_uc010rwv.1_Silent_p.I183I|DRD2_uc001poa.3_Silent_p.I184I|DRD2_uc001pob.3_Silent_p.I184I|DRD2_uc009yyr.1_Silent_p.I184I	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	184	Extracellular (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		all_cancers(61;3.91e-16)|all_epithelial(67;2.95e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000977)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0494)		BRCA - Breast invasive adenocarcinoma(274;5.77e-06)|Epithelial(105;6.66e-05)|all cancers(92;0.000307)|OV - Ovarian serous cystadenocarcinoma(223;0.216)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	CCGGGTTGGCAATGATGCACT	0.582													3	18					0	0	0.004672	0	0		G	113286314	G	G	113286314	2	3	8	1	0	0	0	0	0	0	0	1	4763	126	5	3		3	DRD2	11	113286314	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1364278	113286314	21720202	878	7687											
NNMT	4837	broad.mit.edu	37	chr11	114168792	114168792	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actactcagaccagaacctgCaggagctggagaagtggctg	12	6	13	10	0	1	3	1	0	0	3	1	5	1	4	2	3	4	3	2	3	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:114168792C>T	uc001por.1	+	4	538	c.274C>T	c.(274-276)CAG>TAG	p.Q92*	NNMT_uc001pos.1_Nonsense_Mutation_p.Q92*	NM_006169	NP_006160	P40261	NNMT_HUMAN	nicotinamide N-methyltransferase	92					xenobiotic metabolic process	cytosol	nicotinamide N-methyltransferase activity|pyridine N-methyltransferase activity			ovary(1)	1		all_cancers(61;4.83e-16)|all_epithelial(67;7.28e-09)|all_hematologic(158;0.000135)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.79e-06)|Epithelial(105;1.32e-05)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.128)	Niacin(DB00627)	CCAGAACCTGCAGGAGCTGGA	0.517													9	75					0	0	0.001855	0	0		T	114168792	T	T	114168792	4	4	8	1	0	0	0	0	0	1	0	0	10528	711	25	2	280	2	NNMT	11	114168792	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	882478	114168792	20837724	879	7688											
DSCAML1	57453	broad.mit.edu	37	chr11	117651330	117651330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggggtagagctgcagcGtcccgttggcgtggacgtgc	7	7	18	9	4	0	2	0	0	0	2	1	3	1	3	1	4	4	4	1	4	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:117651330G>A	uc001prh.1	-	2	424	c.422C>T	c.(421-423)ACG>ATG	p.T141M	DSCAML1_uc001pri.1_Translation_Start_Site	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	81	Extracellular (Potential).|Ig-like C2-type 1.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GAGCTGCAGCGTCCCGTTGGC	0.657													12	64					0	0	0.003163	0	0		A	117651330	A	A	117651330	3	1	8	1	0	0	0	0	1	0	0	0	4775	1145	40	1	6047	1	DSCAML1	11	117651330	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3482538	117651330	17355186	880	7689											
TMPRSS4	56649	broad.mit.edu	37	chr11	117985906	117985906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggtcattgacagcacaCggtgcaatgcagacgatgcg	11	7	12	11	3	1	2	1	1	0	1	2	3	2	2	1	2	4	3	1	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:117985906C>T	uc010rxo.1	+	11	1354	c.1063C>T	c.(1063-1065)CGG>TGG	p.R355W	TMPRSS4_uc010rxp.1_Missense_Mutation_p.R350W|TMPRSS4_uc010rxq.1_Missense_Mutation_p.R208W|TMPRSS4_uc010rxr.1_Missense_Mutation_p.R330W|TMPRSS4_uc010rxs.1_Missense_Mutation_p.R315W|TMPRSS4_uc009yzu.2_Intron|TMPRSS4_uc010rxt.1_Missense_Mutation_p.R330W	NM_019894	NP_063947	Q9NRS4	TMPS4_HUMAN	transmembrane protease, serine 4 isoform 1	355	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0431)|all_hematologic(192;0.164)|Breast(348;0.183)|all_neural(223;0.238)		BRCA - Breast invasive adenocarcinoma(274;4.16e-05)|Epithelial(105;0.00204)		TGACAGCACACGGTGCAATGC	0.577													4	13					0	0	0.000602	0	0		T	117985906	T	T	117985906	3	4	8	1	0	0	0	0	1	0	0	0	16274	527	19	1	1105	1	TMPRSS4	11	117985906	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	334576	117985906	17020610	881	7690											
CD3E	916	broad.mit.edu	37	chr11	118183570	118183570	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgaacttttatctctaccTgagggcaagaggtaatccag	11	11	10	9	1	1	2	0	1	1	1	3	3	2	2	2	2	3	2	2	2	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:118183570T>C	uc001psq.3	+	6	597	c.341T>C	c.(340-342)CTG>CCG	p.L114P	CD3E_uc010rya.1_Missense_Mutation_p.L114P	NM_000733	NP_000724	P07766	CD3E_HUMAN	CD3E antigen, epsilon polypeptide precursor	114	Extracellular (Potential).				G-protein coupled receptor protein signaling pathway|signal complex assembly|T cell costimulation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	external side of plasma membrane|integral to plasma membrane	protein heterodimerization activity|protein kinase binding|receptor signaling complex scaffold activity|receptor signaling protein activity|SH3 domain binding|T cell receptor binding|transmembrane receptor activity			ovary(2)	2	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.09e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0251)	Muromonab(DB00075)	TATCTCTACCTGAGGGCAAGA	0.473													11	52					0	0	0.010729	0	0		C	118183570	C	C	118183570	3	2	8	1	0	0	0	0	1	0	0	0	3014	1580	55	3	359	3	CD3E	11	118183570	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	197664	118183570	16822946	882	7691											
OAF	220323	broad.mit.edu	37	chr11	120096485	120096485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagatcatccccagtgaggCcatggccaagctccggcagg	9	6	13	13	1	1	2	1	2	0	1	3	3	3	2	5	4	1	2	5	4	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:120096485C>T	uc001pxb.2	+	2	588	c.347C>T	c.(346-348)GCC>GTC	p.A116V		NM_178507	NP_848602	Q86UD1	OAF_HUMAN	OAF homolog precursor	116											0		Breast(109;0.00663)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)		CCCAGTGAGGCCATGGCCAAG	0.672													20	65					0	0	0.00278	0	0		T	120096485	T	T	120096485	3	4	8	1	0	0	0	0	1	0	0	0	10817	739	26	2	353	2	OAF	11	120096485	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1912915	120096485	14910031	883	7692											
GRIK4	2900	broad.mit.edu	37	chr11	120702613	120702613	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccttatctccaaggacacGctgtccgtccgcatgctgga	7	11	9	14	3	1	0	0	0	1	0	5	2	4	2	4	2	1	3	4	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:120702613G>A	uc001pxn.2	+	7	851	c.564G>A	c.(562-564)ACG>ACA	p.T188T	GRIK4_uc009zav.1_Silent_p.T188T|GRIK4_uc009zaw.1_Silent_p.T188T|GRIK4_uc009zax.1_Silent_p.T188T	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	188	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	CCAAGGACACGCTGTCCGTCC	0.607													5	51					0	0	0.001168	0	0		A	120702613	A	A	120702613	2	1	8	1	0	0	0	0	0	0	0	1	6792	1074	38	1		1	GRIK4	11	120702613	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	606128	120702613	14303903	884	7693											
TBCEL	219899	broad.mit.edu	37	chr11	120925921	120925921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttcactggataccctcGtcctggccaacaatcatttg	8	13	6	14	1	2	0	2	0	0	0	5	1	4	1	4	2	2	0	4	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:120925921G>A	uc009zay.2	+	5	694	c.616G>A	c.(616-618)GTC>ATC	p.V206I	TBCEL_uc001pxo.2_Missense_Mutation_p.V206I|TBCEL_uc001pxp.2_Missense_Mutation_p.V62I|TBCEL_uc001pxq.2_Intron	NM_001130047	NP_001123519	Q5QJ74	TBCEL_HUMAN	tubulin folding cofactor E-like	206	LRR 6.					cytoplasm|cytoskeleton				skin(1)	1		Breast(109;0.00526)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.89e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.121)		GGATACCCTCGTCCTGGCCAA	0.428													6	51					0	0	0.001984	0	0		A	120925921	A	A	120925921	3	1	8	1	0	0	0	0	1	0	0	0	15660	1145	40	1	630	1	TBCEL	11	120925921	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	223308	120925921	14080595	885	7694											
KCNJ1	3758	broad.mit.edu	37	chr11	128709289	128709289	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcaggtagcactggtggActccactgtgccatctaaaa	10	10	11	10	0	1	0	0	0	1	0	2	1	2	1	2	4	2	3	2	4	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:128709289A>G	uc001qeo.1	-	2	958	c.907T>C	c.(907-909)TCC>CCC	p.S303P	KCNJ1_uc001qep.1_Missense_Mutation_p.S284P|KCNJ1_uc001qeq.1_Missense_Mutation_p.S284P|KCNJ1_uc001qer.1_Missense_Mutation_p.S284P|KCNJ1_uc001qes.1_Missense_Mutation_p.S284P	NM_000220	NP_000211	P48048	IRK1_HUMAN	potassium inwardly-rectifying channel J1 isoform	303	Cytoplasmic (By similarity).				excretion	voltage-gated potassium channel complex	ATP binding|inward rectifier potassium channel activity			ovary(3)|breast(1)	4	all_hematologic(175;0.0641)	all_lung(97;4.89e-06)|Lung NSC(97;9.34e-06)|Breast(109;0.00123)|all_hematologic(192;0.00793)|Renal(330;0.0112)|all_neural(223;0.0189)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;4.05e-06)|LUSC - Lung squamous cell carcinoma(976;0.008)|Lung(977;0.00942)	Acetohexamide(DB00414)|Chlorpropamide(DB00672)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Glimepiride(DB00222)|Glipizide(DB01067)|Glycodiazine(DB01382)|Minoxidil(DB00350)|Nateglinide(DB00731)|Repaglinide(DB00912)|Tolazamide(DB00839)|Tolbutamide(DB01124)	GCACTGGTGGACTCCACTGTG	0.512													12	53					0	0	0.013537	0	0		G	128709289	G	G	128709289	3	3	8	1	0	0	0	0	1	0	0	0	8059	275	10	3	272	3	KCNJ1	11	128709289	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	7783368	128709289	6297227	886	7695											
ARHGAP32	9743	broad.mit.edu	37	chr11	128842510	128842510	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagtggtgggttgttcAgccacatcccagctggcttc	6	11	12	12	0	2	0	2	0	0	0	4	0	3	0	2	3	3	5	2	3	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:128842510A>G	uc009zcp.2	-	21	3849	c.3849T>C	c.(3847-3849)GCT>GCC	p.A1283A	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Silent_p.A242A|ARHGAP32_uc001qez.2_Silent_p.A934A	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1283					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TGGGTTGTTCAGCCACATCCC	0.562													8	55					0	0	0.006214	0	0		G	128842510	G	G	128842510	2	3	8	1	0	0	0	0	0	0	0	1	881	175	7	3		3	ARHGAP32	11	128842510	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	133221	128842510	6164006	887	7696											
APLP2	334	broad.mit.edu	37	chr11	129992333	129992333	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaccttcaaaggagatgacTacaatgaggagaatcctact	16	8	8	9	0	1	4	1	2	0	2	2	6	2	4	2	2	2	0	2	2	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr11:129992333T>C	uc010sby.1	+	6	1004	c.847T>C	c.(847-849)TAC>CAC	p.Y283H	APLP2_uc001qfp.2_Missense_Mutation_p.Y283H|APLP2_uc001qfq.2_Missense_Mutation_p.Y283H|APLP2_uc010sbz.1_Missense_Mutation_p.Y127H|APLP2_uc001qfr.2_Missense_Mutation_p.Y105H|APLP2_uc001qfs.2_Intron|APLP2_uc001qfv.2_Missense_Mutation_p.Y230H	NM_001642	NP_001633	Q06481	APLP2_HUMAN	amyloid beta (A4) precursor-like protein 2	283	Extracellular (Potential).				G-protein coupled receptor protein signaling pathway	integral to membrane|nucleus|plasma membrane	DNA binding|identical protein binding|serine-type endopeptidase inhibitor activity			ovary(3)	3	all_hematologic(175;0.0429)	Breast(109;0.00586)|Lung NSC(97;0.00785)|all_lung(97;0.0154)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0197)|Lung(977;0.24)		AGGAGATGACTACAATGAGGA	0.363													13	74					0	0	0.00245	0	0		C	129992333	C	C	129992333	3	2	8	1	0	0	0	0	1	0	0	0	779	1522	53	3	869	3	APLP2	11	129992333	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1149823	129992333	5014183	888	7697											
LRTM2	654429	broad.mit.edu	37	chr12	1943444	1943444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcatgtagggggacgcttgGaccagcttgcctgcaccctg	6	9	14	12	1	0	0	0	0	0	0	0	2	0	2	3	3	4	5	3	3	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:1943444G>A	uc001qjt.2	+	5	1476	c.670G>A	c.(670-672)GAC>AAC	p.D224N	CACNA2D4_uc001qjp.2_Intron|CACNA2D4_uc009zds.1_Intron|CACNA2D4_uc009zdt.1_Intron|CACNA2D4_uc009zdr.1_Intron|LRTM2_uc001qju.2_Missense_Mutation_p.D224N|LRTM2_uc010sdx.1_Missense_Mutation_p.D224N|LRTM2_uc001qjv.2_5'UTR	NM_001039029	NP_001034118	Q8N967	LRTM2_HUMAN	leucine-rich repeats and transmembrane domains 2	224	LRRCT.|Extracellular (Potential).					integral to membrane				large_intestine(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000834)			GGGACGCTTGGACCAGCTTGC	0.592													5	20					0	0	0.000602	0	0		A	1943444	A	A	1943444	3	1	8	1	0	0	0	0	1	0	0	0	9063	1174	41	4	680	4	LRTM2	12	1943444	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08		1943444	131908451	889	7698											
CACNA1C	775	broad.mit.edu	37	chr12	2566787	2566787	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagatggggcaaacgctctCggagggaaaggggccggatt	10	5	18	8	3	1	1	0	0	1	1	2	4	1	4	1	7	1	3	1	7	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:2566787C>T	uc009zdu.1	+	5	985	c.672C>T	c.(670-672)CTC>CTT	p.L224L	CACNA1C_uc009zdv.1_Silent_p.L224L|CACNA1C_uc001qkb.2_Silent_p.L224L|CACNA1C_uc001qkc.2_Silent_p.L224L|CACNA1C_uc001qke.2_Silent_p.L224L|CACNA1C_uc001qkf.2_Silent_p.L224L|CACNA1C_uc001qjz.2_Silent_p.L224L|CACNA1C_uc001qkd.2_Silent_p.L224L|CACNA1C_uc001qkg.2_Silent_p.L224L|CACNA1C_uc009zdw.1_Silent_p.L224L|CACNA1C_uc001qkh.2_Silent_p.L224L|CACNA1C_uc001qkl.2_Silent_p.L224L|CACNA1C_uc001qkn.2_Silent_p.L224L|CACNA1C_uc001qko.2_Silent_p.L224L|CACNA1C_uc001qkp.2_Silent_p.L224L|CACNA1C_uc001qkr.2_Silent_p.L224L|CACNA1C_uc001qku.2_Silent_p.L224L|CACNA1C_uc001qkq.2_Silent_p.L224L|CACNA1C_uc001qks.2_Silent_p.L224L|CACNA1C_uc001qkt.2_Silent_p.L224L|CACNA1C_uc001qka.1_5'UTR|CACNA1C_uc001qki.1_5'UTR|CACNA1C_uc001qkj.1_5'UTR|CACNA1C_uc001qkk.1_5'UTR|CACNA1C_uc001qkm.1_5'UTR	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	224	Extracellular (Potential).|I.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CAAACGCTCTCGGAGGGAAAG	0.552													16	93					0	0	0.006122	0	0		T	2566787	T	T	2566787	2	4	8	1	0	0	0	0	0	0	0	1	2543	871	31	1		1	CACNA1C	12	2566787	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	623343	2566787	131285108	890	7699											
CACNA1C	775	broad.mit.edu	37	chr12	2602496	2602496	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacaactttgccttcgccAtgctcacggtgttccagtgc	6	13	9	13	2	1	1	1	1	0	0	3	1	2	1	3	1	4	2	3	1	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:2602496A>G	uc009zdu.1	+	7	1370	c.1057A>G	c.(1057-1059)ATG>GTG	p.M353V	CACNA1C_uc009zdv.1_Missense_Mutation_p.M350V|CACNA1C_uc001qkb.2_Missense_Mutation_p.M353V|CACNA1C_uc001qkc.2_Missense_Mutation_p.M353V|CACNA1C_uc001qke.2_Missense_Mutation_p.M353V|CACNA1C_uc001qkf.2_Missense_Mutation_p.M353V|CACNA1C_uc001qjz.2_Missense_Mutation_p.M353V|CACNA1C_uc001qkd.2_Missense_Mutation_p.M353V|CACNA1C_uc001qkg.2_Missense_Mutation_p.M353V|CACNA1C_uc009zdw.1_Missense_Mutation_p.M353V|CACNA1C_uc001qkh.2_Missense_Mutation_p.M353V|CACNA1C_uc001qkl.2_Missense_Mutation_p.M353V|CACNA1C_uc001qkn.2_Missense_Mutation_p.M353V|CACNA1C_uc001qko.2_Missense_Mutation_p.M353V|CACNA1C_uc001qkp.2_Missense_Mutation_p.M353V|CACNA1C_uc001qkr.2_Missense_Mutation_p.M353V|CACNA1C_uc001qku.2_Missense_Mutation_p.M353V|CACNA1C_uc001qkq.2_Missense_Mutation_p.M353V|CACNA1C_uc001qks.2_Missense_Mutation_p.M353V|CACNA1C_uc001qkt.2_Missense_Mutation_p.M353V|CACNA1C_uc001qka.1_5'UTR|CACNA1C_uc001qki.1_Missense_Mutation_p.M89V|CACNA1C_uc001qkj.1_Missense_Mutation_p.M89V|CACNA1C_uc001qkk.1_Missense_Mutation_p.M89V|CACNA1C_uc001qkm.1_Missense_Mutation_p.M89V	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	353	I.|Extracellular (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	TGCCTTCGCCATGCTCACGGT	0.627													28	157					0	0	0.003271	0	0		G	2602496	G	G	2602496	3	3	8	1	0	0	0	0	1	0	0	0	2543	217	8	3	1083	3	CACNA1C	12	2602496	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	35709	2602496	131249399	891	7700											
CCND2	894	broad.mit.edu	37	chr12	4385203	4385203	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagaagtgcgaagaagaggtCttccctctggccatgaatta	12	9	11	9	1	2	4	0	1	2	3	3	5	3	4	2	2	1	0	2	2	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:4385203C>T	uc001qmo.2	+	2	533	c.228C>T	c.(226-228)GTC>GTT	p.V76V		NM_001759	NP_001750	P30279	CCND2_HUMAN	cyclin D2	76	Cyclin N-terminal.				cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding			haematopoietic_and_lymphoid_tissue(1)|breast(1)|kidney(1)	3			all cancers(3;4.15e-10)|GBM - Glioblastoma multiforme(3;6.34e-05)|Colorectal(7;0.00245)|OV - Ovarian serous cystadenocarcinoma(31;0.00301)|COAD - Colon adenocarcinoma(12;0.0264)|STAD - Stomach adenocarcinoma(119;0.206)			AAGAAGAGGTCTTCCCTCTGG	0.552			T	IGL@	NHL,CLL								7	63					0	0	0.00308	0	0		T	4385203	T	T	4385203	2	4	8	1	0	0	0	0	0	0	0	1	2920	900	32	4		4	CCND2	12	4385203	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1782707	4385203	129466692	892	7701											
ACRBP	84519	broad.mit.edu	37	chr12	6752705	6752705	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagtatggctggcatacCgacttcccgaaaccaaggat	13	7	10	11	2	0	1	0	0	0	1	1	4	1	2	3	3	2	3	3	3	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:6752705C>T	uc001qpu.1	-	6	1125	c.1077G>A	c.(1075-1077)TCG>TCA	p.S359S	ACRBP_uc010sfg.1_Silent_p.S326S	NM_032489	NP_115878	Q8NEB7	ACRBP_HUMAN	proacrosin binding protein sp32 precursor	359						acrosomal vesicle|extracellular region				central_nervous_system(1)	1						GCTGGCATACCGACTTCCCGA	0.542													6	39					0	0	0.006214	0	0		T	6752705	T	T	6752705	2	4	8	1	0	0	0	0	0	0	0	1	170	666	23	1		1	ACRBP	12	6752705	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2367502	6752705	127099190	893	7702											
MLF2	8079	broad.mit.edu	37	chr12	6861114	6861114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgcatccggcggctggcagGcctggtccctggcatgttgc	3	9	15	14	2	0	0	0	0	0	0	2	0	2	0	3	6	2	5	3	6	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:6861114G>A	uc010sfi.1	-	3	220	c.157C>T	c.(157-159)CCT>TCT	p.P53S	MLF2_uc001qqp.2_Missense_Mutation_p.P53S|MLF2_uc009zey.1_Missense_Mutation_p.P53S	NM_005439	NP_005430	Q15773	MLF2_HUMAN	myeloid leukemia factor 2	53					defense response	cytoplasm|nucleus	protein binding			large_intestine(1)	1						CGGCTGGCAGGCCTGGTCCCT	0.507													8	39					0	0	0.00308	0	0		A	6861114	A	A	6861114	3	1	8	1	0	0	0	0	1	0	0	0	9634	1203	42	2	613	2	MLF2	12	6861114	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	108409	6861114	126990781	894	7703											
TPI1	7167	broad.mit.edu	37	chr12	6978878	6978878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggactggagcaaggtcGtcctggcctatgagcctgtg	8	9	15	9	1	0	2	0	2	0	0	2	4	1	4	3	4	2	1	3	4	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:6978878G>A	uc001qrk.2	+	5	522	c.484G>A	c.(484-486)GTC>ATC	p.V162I	TPI1_uc010sfo.1_Missense_Mutation_p.V80I	NM_000365	NP_000356	P60174	TPIS_HUMAN	triosephosphate isomerase 1 isoform 1	162					fatty acid biosynthetic process|gluconeogenesis|glycolysis|pentose-phosphate shunt	cytosol	triose-phosphate isomerase activity				0						GAGCAAGGTCGTCCTGGCCTA	0.587											OREG0021638	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	75					0	0	0.00333	0	0		A	6978878	A	A	6978878	3	1	8	1	0	0	0	0	1	0	0	0	16429	1145	40	1	613	1	TPI1	12	6978878	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	117764	6978878	126873017	895	7704											
NECAP1	25977	broad.mit.edu	37	chr12	8245544	8245544	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgagcttactcccaccccCgccaggaggcaaagtcacta	10	7	8	16	1	2	1	1	1	1	0	3	2	3	2	4	2	2	2	4	2	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:8245544C>T	uc001qtx.2	+	6	647	c.569C>T	c.(568-570)CCG>CTG	p.P190L	NECAP1_uc001qty.2_Missense_Mutation_p.P48L	NM_015509	NP_056324	Q8NC96	NECP1_HUMAN	NECAP endocytosis associated 1	190					endocytosis|protein transport	clathrin coated vesicle membrane|plasma membrane				ovary(1)	1				Kidney(36;0.0915)		CTCCCACCCCCGCCAGGAGGC	0.512													44	85					0	0	0.013114	0	0		T	8245544	T	T	8245544	3	4	8	1	0	0	0	0	1	0	0	0	10326	652	23	1	591	1	NECAP1	12	8245544	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1266666	8245544	125606351	896	7705											
RIMKLB	57494	broad.mit.edu	37	chr12	8926004	8926004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctggggatggatgtgtgtgGcattgatctgctgatgaaag	8	12	16	5	0	1	3	0	3	1	0	1	5	1	5	1	4	1	2	1	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:8926004G>A	uc001quu.2	+	6	1036	c.785G>A	c.(784-786)GGC>GAC	p.G262D	RIMKLB_uc009zgf.1_RNA|RIMKLB_uc001qux.2_Missense_Mutation_p.G262D|RIMKLB_uc010sgl.1_Missense_Mutation_p.G262D|RIMKLB_uc001quw.2_Missense_Mutation_p.G262D	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	262	ATP-grasp.				protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						GATGTGTGTGGCATTGATCTG	0.468													23	101					0	0	0.014323	0	0		A	8926004	A	A	8926004	3	1	8	1	0	0	0	0	1	0	0	0	13391	1203	42	2	803	2	RIMKLB	12	8926004	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	680460	8926004	124925891	897	7706											
A2M	2	broad.mit.edu	37	chr12	9246138	9246138	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtgaggctcttcaacatgCaccaggcgtgcatggcctct	7	10	12	12	1	3	1	1	1	2	0	3	1	3	1	2	3	3	3	2	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:9246138C>T	uc001qvk.1	-	18	2276	c.2163G>A	c.(2161-2163)GTG>GTA	p.V721V	A2M_uc009zgk.1_Silent_p.V571V	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	721	Bait region.|Inhibitory.				blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	CTTCAACATGCACCAGGCGTG	0.443													9	40					0	0	0.006214	0	0		T	9246138	T	T	9246138	2	4	8	1	0	0	0	0	0	0	0	1	4	697	25	2		2	A2M	12	9246138	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	320134	9246138	124605757	898	7707											
PZP	5858	broad.mit.edu	37	chr12	9305467	9305467	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtgggctttgtgtccatcGcaagtttggggcacagtctg	5	13	15	8	1	1	0	0	0	1	0	3	0	2	0	1	3	0	4	1	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:9305467G>A	uc001qvl.2	-	31	4103	c.4074C>T	c.(4072-4074)TGC>TGT	p.C1358C	PZP_uc009zgl.2_Silent_p.C1144C	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						TGTGTCCATCGCAAGTTTGGG	0.438													12	72					0	0	0.001855	0	0		A	9305467	A	A	9305467	2	1	8	1	0	0	0	0	0	0	0	1	12894	1079	38	1		1	PZP	12	9305467	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	59329	9305467	124546428	899	7708											
GABARAPL1	23710	broad.mit.edu	37	chr12	10374385	10374385	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcttatctcttcccctaGgacaatcatgaggaagacta	11	13	7	10	0	3	2	1	1	2	1	5	4	4	4	2	2	0	0	2	2	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:10374385G>A	uc001qxs.2	+	4	529	c.289_splice	c.e4-1	p.D97_splice	GABARAPL1_uc001qxt.2_Splice_Site|GABARAPL1_uc001qxu.2_Splice_Site	NM_031412	NP_113600	Q9H0R8	GBRL1_HUMAN	GABA(A) receptor-associated protein like 1							autophagic vacuole|endoplasmic reticulum|Golgi apparatus|membrane|microtubule	beta-tubulin binding|GABA receptor binding				0						TCTTCCCCTAGGACAATCATG	0.284													6	28					0	0	0.001984	0	0		A	10374385	A	A	10374385	5	1	8	1	0	0	0	0	0	0	1	0	6167	1014	35	4	302	4	GABARAPL1	12	10374385	Splice_Site	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1068918	10374385	123477510	900	7709											
TAS2R50	259296	broad.mit.edu	37	chr12	11139175	11139175	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggttagcagcaagccacatGctgaaatggttggttacaac	13	9	11	8	0	0	1	0	1	0	0	0	1	0	1	1	3	6	6	1	3	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:11139175G>A	uc001qzl.2	-	1	337	c.285C>T	c.(283-285)AGC>AGT	p.S95S	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176890	NP_795371	P59544	T2R50_HUMAN	taste receptor, type 2, member 50	95	Helical; Name=3; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			ovary(2)	2						CAAGCCACATGCTGAAATGGT	0.338													16	138					0	0	0.006122	0	0		A	11139175	A	A	11139175	2	1	8	1	0	0	0	0	0	0	0	1	15609	1310	46	2		2	TAS2R50	12	11139175	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	764790	11139175	122712720	901	7710											
PRB1	5542	broad.mit.edu	37	chr12	11506766	11506766	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggttttcctggaggagatcGgggacttcgggacttgtccc	5	12	15	9	2	0	1	0	0	0	1	4	5	2	4	2	6	0	1	2	6	0	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:11506766G>A	uc001qzw.1	-	3	308	c.271C>T	c.(271-273)CGA>TGA	p.R91*	PRB1_uc001qzu.1_Nonsense_Mutation_p.R91*|PRB1_uc001qzv.1_Nonsense_Mutation_p.R91*	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	152	5.|15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].		Missing (in clone CP-4).|Missing (in clone CP-5).|Missing (in allele S).|Missing (in allele M).			extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGAGGAGATCGGGGACTTCGG	0.612													50	80					0	0	0.01441	0	0		A	11506766	A	A	11506766	4	1	8	1	0	0	0	0	0	1	0	0	12464	1124	39	1	728	1	PRB1	12	11506766	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	367591	11506766	122345129	902	7711											
MANSC1	54682	broad.mit.edu	37	chr12	12491444	12491444	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaataggtagcagttgggttGtctagctgtttttcgagtgt	8	16	13	4	1	1	0	0	0	1	0	2	1	1	0	0	2	2	6	0	2	4	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:12491444G>A	uc001rai.1	-	3	532	c.274C>T	c.(274-276)CAA>TAA	p.Q92*	MANSC1_uc010shm.1_Nonsense_Mutation_p.Q26*|MANSC1_uc001raj.1_Nonsense_Mutation_p.Q58*|MANSC1_uc009zht.1_Nonsense_Mutation_p.Q11*	NM_018050	NP_060520	Q9H8J5	MANS1_HUMAN	MANSC domain containing 1 precursor	92	MANSC.|Extracellular (Potential).					integral to membrane					0		Prostate(47;0.0865)		BRCA - Breast invasive adenocarcinoma(232;0.185)		CAGTTGGGTTGTCTAGCTGTT	0.393													14	80					0	0	0.004007	0	0		A	12491444	A	A	12491444	4	1	8	1	0	0	0	0	0	1	0	0	9242	1386	48	4	1029	4	MANSC1	12	12491444	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	984678	12491444	121360451	903	7712											
ATF7IP	55729	broad.mit.edu	37	chr12	14650841	14650841	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccctcacaatggaaaaagaTtggggaagtcaaggcacttc	14	7	11	9	0	2	1	2	0	0	1	3	3	2	3	1	4	0	1	1	4	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:14650841T>C	uc001rbw.2	+	15	3805	c.3647T>C	c.(3646-3648)ATT>ACT	p.I1216T	ATF7IP_uc001rbx.2_Missense_Mutation_p.I1215T|ATF7IP_uc001rby.3_Missense_Mutation_p.I1216T|ATF7IP_uc001rca.2_Missense_Mutation_p.I1216T	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1216	Interaction with MBD1.|Fibronectin type-III.				DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						TGGAAAAAGATTGGGGAAGTC	0.483													11	71					0	0	0.010729	0	0		C	14650841	C	C	14650841	3	2	8	1	0	0	0	0	1	0	0	0	1088	1493	52	3	3701	3	ATF7IP	12	14650841	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2159397	14650841	119201054	904	7713											
ABCC9	10060	broad.mit.edu	37	chr12	22005044	22005044	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttaccttttctaattctTgatcttgccgattcataagt	9	18	4	10	1	4	1	1	1	3	0	4	2	4	1	2	0	2	0	2	0	3	9			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:22005044T>C	uc001rfi.1	-	22	2776	c.2756A>G	c.(2755-2757)CAA>CGA	p.Q919R	ABCC9_uc001rfh.2_Missense_Mutation_p.Q919R|ABCC9_uc001rfj.1_Missense_Mutation_p.Q883R	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	919	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TTCTAATTCTTGATCTTGCCG	0.333													7	46					0	0	0.006214	0	0		C	22005044	C	C	22005044	3	2	8	1	0	0	0	0	1	0	0	0	59	1812	63	3	2103	3	ABCC9	12	22005044	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	7354203	22005044	111846851	905	7714											
ABCC9	10060	broad.mit.edu	37	chr12	22015949	22015949	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgtagcatttaatagccaAggcttttgagctgcatatgc	11	13	9	8	0	0	1	0	1	0	0	0	1	0	1	1	1	5	5	1	1	5	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:22015949A>G	uc001rfi.1	-	18	2297	c.2277T>C	c.(2275-2277)CCT>CCC	p.P759P	ABCC9_uc001rfh.2_Silent_p.P759P|ABCC9_uc001rfj.1_Silent_p.P723P	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	759	Cytoplasmic (Potential).|ABC transporter 1.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TTAATAGCCAAGGCTTTTGAG	0.338													4	42					0	0	0.000602	0	0		G	22015949	G	G	22015949	2	3	8	1	0	0	0	0	0	0	0	1	59	59	3	3		3	ABCC9	12	22015949	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	10905	22015949	111835946	906	7715											
SOX5	6660	broad.mit.edu	37	chr12	23893839	23893839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccagctccatttgctgacGctgtttctcaatctgagagg	7	12	11	11	1	2	2	1	2	2	1	4	3	3	2	2	2	2	4	2	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:23893839G>A	uc001rfw.2	-	5	805	c.703C>T	c.(703-705)CGT>TGT	p.R235C	SOX5_uc001rfx.2_Missense_Mutation_p.R222C|SOX5_uc001rfy.2_Missense_Mutation_p.R222C|SOX5_uc010siv.1_Missense_Mutation_p.R222C|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.R187C	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	235	Potential.				transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						ATTTGCTGACGCTGTTTCTCA	0.493													8	35					0	0	0.006214	0	0		A	23893839	A	A	23893839	3	1	8	1	0	0	0	0	1	0	0	0	14979	1087	38	1	1642	1	SOX5	12	23893839	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1877890	23893839	109958056	907	7716											
CASC1	55259	broad.mit.edu	37	chr12	25267796	25267796	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgatgccatcagttctccAatgtttacctttataattga	10	16	6	9	0	2	2	1	2	1	0	3	2	2	2	3	0	2	3	3	0	4	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:25267796A>G	uc001rgl.2	-	12	1469	c.1387T>C	c.(1387-1389)TGG>CGG	p.W463R	CASC1_uc001rgk.2_Missense_Mutation_p.W469R|CASC1_uc001rgm.3_Missense_Mutation_p.W527R|CASC1_uc001rgj.2_Missense_Mutation_p.W423R|CASC1_uc010sje.1_Missense_Mutation_p.W404R|CASC1_uc010sjf.1_Missense_Mutation_p.W351R|CASC1_uc010sjg.1_3'UTR	NM_001082973	NP_001076442	Q6TDU7	CASC1_HUMAN	cancer susceptibility candidate 1 isoform b	463										ovary(2)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Melanoma(3;0.0301)|Colorectal(261;0.11)		OV - Ovarian serous cystadenocarcinoma(3;7.42e-20)|Epithelial(3;7.58e-16)|all cancers(3;1.07e-13)			TCAGTTCTCCAATGTTTACCT	0.343													6	32					0	0	0.001168	0	0		G	25267796	G	G	25267796	3	3	8	1	0	0	0	0	1	0	0	0	2663	130	5	3	779	3	CASC1	12	25267796	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1373957	25267796	108584099	908	7717											
KRAS	3845	broad.mit.edu	37	chr12	25398281	25398281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaggcactcttgcctacgCcaccagctccaactaccaca	11	7	5	18	1	2	0	1	0	1	0	3	0	3	0	5	1	5	2	5	1	4	3	rs112445441		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:25398281C>T	uc001rgp.1	-	2	219	c.38G>A	c.(37-39)GGC>GAC	p.G13D	KRAS_uc001rgq.1_Missense_Mutation_p.G13D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	13	GTP.		G -> R (in pylocytic astrocytoma; somatic mutation; increase activation of the Ras pathway).|G -> D (in a breast carcinoma cell line and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G13D(2647)|p.G13C(182)|p.G13S(58)|p.G13R(41)|p.G13V(27)|p.G13A(24)|p.G13G(11)|p.G13E(4)|p.G12_G13insG(4)|p.G13N(3)|p.G13I(1)|p.G13_V14>DI(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CTTGCCTACGCCACCAGCTCC	0.338	G13D(NCIH647_LUNG)|G13D(MDAMB231_BREAST)|G13D(NCIH747_LARGE_INTESTINE)|G13D(T84_LARGE_INTESTINE)|G13D(LOVO_LARGE_INTESTINE)|G13D(DLD1_LARGE_INTESTINE)|G13D(DV90_LUNG)|G13D(HCT15_LARGE_INTESTINE)|G13D(HCT116_LARGE_INTESTINE)|G13D(TOLEDO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G13D(NOMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			7	24					0	0	0.004482	0	0		T	25398281	T	T	25398281	3	4	8	1	0	0	0	0	1	0	0	0	8454	739	26	2	668	2	KRAS	12	25398281	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	130485	25398281	108453614	909	7718											
IFLTD1	160492	broad.mit.edu	37	chr12	25679780	25679780	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtttgtccattcacattttGctggagaatatgatctccaa	10	15	8	8	0	2	2	1	1	1	1	4	3	3	2	2	2	1	2	2	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:25679780G>T	uc001rgs.2	-	4	688	c.538C>A	c.(538-540)CAA>AAA	p.Q180K	IFLTD1_uc001rgt.1_Missense_Mutation_p.Q83K|IFLTD1_uc010sji.1_Missense_Mutation_p.Q201K|IFLTD1_uc010sjj.1_Missense_Mutation_p.Q117K|IFLTD1_uc009zjc.2_Missense_Mutation_p.Q201K	NM_152590	NP_689803	Q8N9Z9	ILFT1_HUMAN	intermediate filament tail domain containing 1	180						intermediate filament	structural molecule activity			ovary(2)|central_nervous_system(1)	3	all_lung(3;2.75e-22)|Lung NSC(3;1.77e-21)|all_hematologic(7;0.00656)|Colorectal(261;0.0847)					TTCACATTTTGCTGGAGAATA	0.373													12	72					2.80697e-09	3.08473e-09	0.010729	1	0		T	25679780	T	T	25679780	3	4	8	1	0	0	0	0	1	0	0	0	7546	1328	46	5	648	5	IFLTD1	12	25679780	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	281499	25679780	108172115	910	7719											
ARNTL2	56938	broad.mit.edu	37	chr12	27568857	27568857	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacaggtttaatgaaagatActcatactgtaaactgcagg	16	10	8	7	0	1	2	1	1	0	1	1	2	1	2	0	2	5	3	0	2	7	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:27568857A>G	uc001rht.1	+	15	1660	c.1642A>G	c.(1642-1644)ACT>GCT	p.T548A	ARNTL2_uc001rhw.2_Missense_Mutation_p.T511A|ARNTL2_uc010sjp.1_Missense_Mutation_p.T511A|ARNTL2_uc001rhu.1_Missense_Mutation_p.T534A|ARNTL2_uc009zji.1_Missense_Mutation_p.T514A|ARNTL2_uc001rhv.1_Missense_Mutation_p.T500A|uc001rhx.2_Intron	NM_020183	NP_064568	Q8WYA1	BMAL2_HUMAN	aryl hydrocarbon receptor nuclear	548					circadian rhythm|entrainment of circadian clock|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|skin(1)	2	Colorectal(261;0.0847)|Lung SC(9;0.184)					AATGAAAGATACTCATACTGT	0.264													4	48					0	0	0.001168	0	0		G	27568857	G	G	27568857	3	3	8	1	0	0	0	0	1	0	0	0	969	391	14	3	1700	3	ARNTL2	12	27568857	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1889077	27568857	106283038	911	7720											
PKP2	5318	broad.mit.edu	37	chr12	32996207	32996207	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacaggcgtgagccaccgcGcccggccagccattcctact	7	7	10	17	4	0	1	0	1	0	0	1	1	1	1	6	2	4	0	6	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:32996207G>A	uc001rlj.3	-	6	1534	c.1419C>T	c.(1417-1419)GGC>GGT	p.G473G	PKP2_uc001rlk.3_Intron|PKP2_uc010skj.1_Intron	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	473					cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					gagccaccgcgcccggccAGC	0.199													7	41					0	0	0.00308	0	0		A	32996207	A	A	32996207	2	1	8	1	0	0	0	0	0	0	0	1	12004	1074	38	1		1	PKP2	12	32996207	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	5427350	32996207	100855688	912	7721											
ALG10	84920	broad.mit.edu	37	chr12	34179081	34179081	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctacaaaagaaggaagAcagacttccacctattaaag	18	7	8	8	0	0	4	0	1	0	3	1	5	1	5	2	1	2	1	2	1	8	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:34179081A>T	uc001rlm.2	+	3	972	c.653A>T	c.(652-654)GAC>GTC	p.D218V		NM_032834	NP_116223	Q5BKT4	AG10A_HUMAN	asparagine-linked glycosylation 10 homolog	218	Cytoplasmic (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			skin(1)	1	Lung NSC(5;3.82e-05)|Acute lymphoblastic leukemia(23;0.0142)|all_hematologic(23;0.0429)	Lung NSC(34;0.204)|all_lung(34;0.235)				AAGAAGGAAGACAGACTTCCA	0.378													14	145					0	0	0.007413	0	0		T	34179081	T	T	34179081	3	4	8	1	0	0	0	0	1	0	0	0	511	275	10	5	663	5	ALG10	12	34179081	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1182874	34179081	99672814	913	7722											
ADAMTS20	80070	broad.mit.edu	37	chr12	43846079	43846079	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttatagtttacttaccaTacactggccttgaacacaga	14	12	5	10	0	0	2	0	1	0	1	0	2	0	2	2	1	5	1	2	1	7	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:43846079T>G	uc010skx.1	-	14	2077	c.2077A>C	c.(2077-2079)ATG>CTG	p.M693L		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	693	Cys-rich.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TTACTTACCATACACTGGCCT	0.313													12	51					0	0	0.013537	0	0		G	43846079	G	G	43846079	3	3	8	1	0	0	0	0	1	0	0	0	266	1406	49	5	3758	5	ADAMTS20	12	43846079	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	9666998	43846079	90005816	914	7723											
PLEKHA9	51054	broad.mit.edu	37	chr12	45567083	45567083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggtggtcaccttcctttaCggttaacgcggccacaaaat	9	10	9	13	4	1	0	1	0	0	0	2	0	2	0	4	4	2	1	4	4	4	4	rs150051178	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:45567083C>T	uc001rom.1	-	3	1603	c.1066G>A	c.(1066-1068)GTA>ATA	p.V356I	PLEKHA9_uc009zke.2_Missense_Mutation_p.V356I	NM_015899	NP_056983			pleckstrin homology domain containing, family A												0	Lung SC(27;0.192)|Renal(347;0.236)			GBM - Glioblastoma multiforme(48;0.173)		CCTTCCTTTACGGTTAACGCG	0.498													24	84					0	0	0.005443	0	0		T	45567083	T	T	45567083	3	4	8	1	0	0	0	0	1	0	0	0	12082	536	19	1	113	1	PLEKHA9	12	45567083	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1721004	45567083	88284812	915	7724											
PLEKHA9	51054	broad.mit.edu	37	chr12	45567160	45567160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaacccctcgaactacccagCcatggtgttgccgcaatgtt	10	9	8	14	2	0	0	0	0	0	0	1	1	0	0	5	1	5	3	5	1	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:45567160C>T	uc001rom.1	-	3	1526	c.989G>A	c.(988-990)GGC>GAC	p.G330D	PLEKHA9_uc009zke.2_Missense_Mutation_p.G330D	NM_015899	NP_056983			pleckstrin homology domain containing, family A												0	Lung SC(27;0.192)|Renal(347;0.236)			GBM - Glioblastoma multiforme(48;0.173)		AACTACCCAGCCATGGTGTTG	0.443													21	101					0	0	0.012319	0	0		T	45567160	T	T	45567160	3	4	8	1	0	0	0	0	1	0	0	0	12082	739	26	2	190	2	PLEKHA9	12	45567160	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	77	45567160	88284735	916	7725											
ANO6	196527	broad.mit.edu	37	chr12	45803165	45803165	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgaatctaattgggcgaTttcacagagtttctggatca	11	14	9	7	1	5	2	3	1	2	1	5	4	5	3	0	2	0	1	0	2	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:45803165T>C	uc001roo.2	+	16	2241	c.1906T>C	c.(1906-1908)TTT>CTT	p.F636L	ANO6_uc010sld.1_Missense_Mutation_p.F636L|ANO6_uc010sle.1_Missense_Mutation_p.F636L|ANO6_uc010slf.1_Missense_Mutation_p.F657L|ANO6_uc010slg.1_Missense_Mutation_p.F618L	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	636	Extracellular (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						AATTGGGCGATTTCACAGAGT	0.373													31	112					0	0	0.012213	0	0		C	45803165	C	C	45803165	3	2	8	1	0	0	0	0	1	0	0	0	701	1493	52	3	1988	3	ANO6	12	45803165	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	236005	45803165	88048730	917	7726											
SLC38A1	81539	broad.mit.edu	37	chr12	46622973	46622973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtttgccagggcaaaggCgagtcccaaaatcccactgc	11	7	11	12	1	0	0	0	0	0	0	2	1	2	0	3	2	2	2	3	2	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:46622973C>T	uc001rpa.2	-	5	535	c.277G>A	c.(277-279)GCC>ACC	p.A93T	SLC38A1_uc001rpb.2_Missense_Mutation_p.A93T|SLC38A1_uc001rpc.2_Missense_Mutation_p.A93T|SLC38A1_uc001rpd.2_Missense_Mutation_p.A93T|SLC38A1_uc001rpe.2_Missense_Mutation_p.A93T|SLC38A1_uc010slh.1_Missense_Mutation_p.A66T|SLC38A1_uc009zkj.1_Missense_Mutation_p.A93T	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	93	Helical; (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)			AGGGCAAAGGCGAGTCCCAAA	0.408													5	34					0	0	0.001168	0	0		T	46622973	T	T	46622973	3	4	8	1	0	0	0	0	1	0	0	0	14626	768	27	1	1238	1	SLC38A1	12	46622973	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	819808	46622973	87228922	918	7727											
FAM113B	91523	broad.mit.edu	37	chr12	47629502	47629502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacttgcatttccacttccGccacgcgagggagaacctgc	8	8	11	14	3	0	1	0	0	0	1	2	4	2	2	4	2	3	1	4	2	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:47629502G>A	uc001rpn.2	+	4	1387	c.656G>A	c.(655-657)CGC>CAC	p.R219H	FAM113B_uc010slj.1_Missense_Mutation_p.R99H|FAM113B_uc001rpq.2_Missense_Mutation_p.R219H	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	219							hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					TTCCACTTCCGCCACGCGAGG	0.602													4	12					0	0	0.000602	0	0		A	47629502	A	A	47629502	3	1	8	1	0	0	0	0	1	0	0	0	5413	1087	38	1	658	1	FAM113B	12	47629502	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1006529	47629502	86222393	919	7728											
VDR	7421	broad.mit.edu	37	chr12	48238574	48238574	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgagcacaaggggcgttagCttcatgctgcactcaggctg	8	9	13	11	2	2	0	2	0	0	0	3	1	2	0	0	3	4	6	0	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:48238574C>T	uc001rqm.2	-	11	1521	c.1239G>A	c.(1237-1239)AAG>AAA	p.K413K	VDR_uc001rql.2_Silent_p.K463K|VDR_uc001rqn.2_Silent_p.K413K|VDR_uc010slq.1_Silent_p.K381K	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	413	Ligand-binding.				decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	GGGGCGTTAGCTTCATGCTGC	0.602													14	41					0	0	0.001855	0	0		T	48238574	T	T	48238574	2	4	8	1	0	0	0	0	0	0	0	1	17175	796	28	2		2	VDR	12	48238574	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	609072	48238574	85613321	920	7729											
WNT10B	7480	broad.mit.edu	37	chr12	49361733	49361733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgtacacacatacctggCgccccaccctgttgttgtgg	8	10	10	13	1	0	1	0	0	0	1	0	1	0	1	4	2	2	3	4	2	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:49361733C>T	uc001rss.2	-	4	1053	c.707G>A	c.(706-708)CGC>CAC	p.R236H	WNT10B_uc001rst.2_Missense_Mutation_p.A189T	NM_003394	NP_003385	O00744	WN10B_HUMAN	wingless-type MMTV integration site family,	236					axis specification|bone trabecula formation|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|chondrocyte differentiation|female gonad development|hemopoietic stem cell proliferation|midbrain-hindbrain boundary development|myoblast cell differentiation involved in skeletal muscle regeneration|negative regulation of epithelial cell proliferation|negative regulation of fat cell differentiation|neuron differentiation|positive regulation of anagen|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cell proliferation|positive regulation of epithelial cell differentiation|positive regulation of osteoblast differentiation|protein stabilization|regulation of skeletal muscle tissue development|skeletal muscle fiber development|smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			skin(4)|lung(3)	7						ACATACCTGGCGCCCCACCCT	0.512													12	27					0	0	0.013537	0	0		T	49361733	T	T	49361733	3	4	8	1	0	0	0	0	1	0	0	0	17409	768	27	1	470	1	WNT10B	12	49361733	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1123159	49361733	84490162	921	7730											
MLL2	8085	broad.mit.edu	37	chr12	49424718	49424718	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcgctggccctgaccccGtcctccttccgcagcttctt	2	11	8	20	3	1	1	0	1	1	0	5	1	4	1	7	1	1	3	7	1	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:49424718G>A	uc001rta.3	-	40	13629	c.13629C>T	c.(13627-13629)GAC>GAT	p.D4543D		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4543					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CCCTGACCCCGTCCTCCTTCC	0.622			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			5	29					0	0	0.000602	0	0		A	49424718	A	A	49424718	2	1	8	1	0	0	0	0	0	0	0	1	9639	1136	40	1		1	MLL2	12	49424718	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	62985	49424718	84427177	922	7731											
MLL2	8085	broad.mit.edu	37	chr12	49434552	49434552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggctctacctgagatgccCgaggggtcaggggggctttg	5	8	19	9	1	2	1	1	1	1	1	2	3	2	1	2	7	2	2	2	7	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:49434552C>T	uc001rta.3	-	31	7001	c.7001G>A	c.(7000-7002)CGG>CAG	p.R2334Q		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2334	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTGAGATGCCCGAGGGGTCAG	0.637			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			6	14					0	0	0.001984	0	0		T	49434552	T	T	49434552	3	4	8	1	0	0	0	0	1	0	0	0	9639	652	23	1	9708	1	MLL2	12	49434552	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	9834	49434552	84417343	923	7732											
DHH	50846	broad.mit.edu	37	chr12	49484980	49484980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgaagccggcttccactgCgaggcgcgccagcaacccat	8	5	12	16	5	0	0	0	0	0	0	2	2	1	0	4	2	4	2	4	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:49484980C>T	uc001rtf.2	-	2	803	c.496G>A	c.(496-498)GCA>ACA	p.A166T		NM_021044	NP_066382	O43323	DHH_HUMAN	desert hedgehog preproprotein	166					cell-cell signaling|proteolysis	extracellular space|plasma membrane	calcium ion binding|peptidase activity|zinc ion binding			lung(1)|breast(1)	2						GCTTCCACTGCGAGGCGCGCC	0.602													13	78					0	0	0.014323	0	0		T	49484980	T	T	49484980	3	4	8	1	0	0	0	0	1	0	0	0	4489	768	27	1	702	1	DHH	12	49484980	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	50428	49484980	84366915	924	7733											
DNAJC22	79962	broad.mit.edu	37	chr12	49743155	49743155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattacagctcagaggcatcGccgctacaaagctttggtgg	10	9	11	11	2	1	1	1	0	0	1	2	1	1	1	1	3	4	4	1	3	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:49743155G>A	uc001rua.2	+	2	901	c.500G>A	c.(499-501)CGC>CAC	p.R167H	DNAJC22_uc001rub.2_Missense_Mutation_p.R167H	NM_024902	NP_079178	Q8N4W6	DJC22_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 22	167					protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			ovary(1)	1						CAGAGGCATCGCCGCTACAAA	0.567													13	54					0	0	0.00245	0	0		A	49743155	A	A	49743155	3	1	8	1	0	0	0	0	1	0	0	0	4647	1087	38	1	502	1	DNAJC22	12	49743155	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	258175	49743155	84108740	925	7734											
ACCN2	41	broad.mit.edu	37	chr12	50452564	50452564	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggatggaactgaaggcCgaggaggaggaggtgggtgg	12	4	21	4	1	0	1	0	1	0	0	0	7	0	6	1	9	1	0	1	9	3	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:50452564C>T	uc001rvw.2	+	2	244	c.15C>T	c.(13-15)GCC>GCT	p.A5A	ACCN2_uc001rvv.2_Silent_p.A5A|ACCN2_uc009zln.2_5'UTR|ACCN2_uc009zlo.2_Silent_p.A5A	NM_001095	NP_001086	P78348	ACCN2_HUMAN	amiloride-sensitive cation channel 2, neuronal	5	Cytoplasmic (By similarity).				calcium ion transport|response to pH|signal transduction	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(1)	1					Amiloride(DB00594)	AACTGAAGGCCGAGGAGGAGG	0.617													7	31					0	0	0.001984	0	0		T	50452564	T	T	50452564	2	4	8	1	0	0	0	0	0	0	0	1	129	639	23	1		1	ACCN2	12	50452564	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	709409	50452564	83399331	926	7735											
SLC11A2	4891	broad.mit.edu	37	chr12	51393164	51393164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaaatacaaaagtatctgCaatggtgatgagaacgccac	17	7	10	7	1	1	3	0	2	1	2	1	5	1	3	1	1	3	2	1	1	7	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:51393164C>T	uc001rxe.3	-	7	668	c.571G>A	c.(571-573)GCA>ACA	p.A191T	SLC11A2_uc001rxd.3_Missense_Mutation_p.A40T|SLC11A2_uc001rxc.3_Missense_Mutation_p.A191T|SLC11A2_uc001rxf.2_RNA|SLC11A2_uc010smx.1_Missense_Mutation_p.A187T|SLC11A2_uc001rxh.1_Missense_Mutation_p.A191T|SLC11A2_uc001rxj.1_Missense_Mutation_p.A191T|SLC11A2_uc001rxi.2_Missense_Mutation_p.A191T|SLC11A2_uc001rxk.1_Missense_Mutation_p.A220T|SLC11A2_uc010smy.1_Missense_Mutation_p.A154T	NM_000617	NP_000608	P49281	NRAM2_HUMAN	solute carrier family 11 (proton-coupled	191	Helical; (Potential).				activation of caspase activity|cellular iron ion homeostasis|cellular response to oxidative stress|detection of oxygen|ferrous iron import|multicellular organismal iron ion homeostasis|response to hypoxia|response to iron ion	apical plasma membrane|basal part of cell|cell surface|cytoplasmic vesicle|early endosome|late endosome|late endosome membrane|lysosomal membrane|lysosome|nucleus|paraferritin complex|perinuclear region of cytoplasm|perinuclear region of cytoplasm|plasma membrane|recycling endosome|trans-Golgi network	cadmium ion transmembrane transporter activity|cadmium ion transmembrane transporter activity|cobalt ion transmembrane transporter activity|copper ion transmembrane transporter activity|ferrous iron transmembrane transporter activity|ferrous iron transmembrane transporter activity|lead ion transmembrane transporter activity|lead ion transmembrane transporter activity|manganese ion transmembrane transporter activity|manganese ion transmembrane transporter activity|nickel ion transmembrane transporter activity|protein binding|solute:hydrogen symporter activity|vanadium ion transmembrane transporter activity|zinc ion transmembrane transporter activity			large_intestine(1)	1						AAAGTATCTGCAATGGTGATG	0.458													21	94					0	0	0.012319	0	0		T	51393164	T	T	51393164	3	4	8	1	0	0	0	0	1	0	0	0	14406	710	25	2	1236	2	SLC11A2	12	51393164	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	940600	51393164	82458731	927	7736											
SLC11A2	4891	broad.mit.edu	37	chr12	51393180	51393180	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaatggtgatgagaacGccaccccacagaggaattct	12	8	10	11	1	2	3	0	2	2	2	2	5	2	4	3	2	2	1	3	2	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:51393180G>A	uc001rxe.3	-	7	652	c.555C>T	c.(553-555)GGC>GGT	p.G185G	SLC11A2_uc001rxd.3_Silent_p.G34G|SLC11A2_uc001rxc.3_Silent_p.G185G|SLC11A2_uc001rxf.2_RNA|SLC11A2_uc010smx.1_Silent_p.G181G|SLC11A2_uc001rxh.1_Silent_p.G185G|SLC11A2_uc001rxj.1_Silent_p.G185G|SLC11A2_uc001rxi.2_Silent_p.G185G|SLC11A2_uc001rxk.1_Silent_p.G214G|SLC11A2_uc010smy.1_Silent_p.G148G	NM_000617	NP_000608	P49281	NRAM2_HUMAN	solute carrier family 11 (proton-coupled	185	Helical; (Potential).				activation of caspase activity|cellular iron ion homeostasis|cellular response to oxidative stress|detection of oxygen|ferrous iron import|multicellular organismal iron ion homeostasis|response to hypoxia|response to iron ion	apical plasma membrane|basal part of cell|cell surface|cytoplasmic vesicle|early endosome|late endosome|late endosome membrane|lysosomal membrane|lysosome|nucleus|paraferritin complex|perinuclear region of cytoplasm|perinuclear region of cytoplasm|plasma membrane|recycling endosome|trans-Golgi network	cadmium ion transmembrane transporter activity|cadmium ion transmembrane transporter activity|cobalt ion transmembrane transporter activity|copper ion transmembrane transporter activity|ferrous iron transmembrane transporter activity|ferrous iron transmembrane transporter activity|lead ion transmembrane transporter activity|lead ion transmembrane transporter activity|manganese ion transmembrane transporter activity|manganese ion transmembrane transporter activity|nickel ion transmembrane transporter activity|protein binding|solute:hydrogen symporter activity|vanadium ion transmembrane transporter activity|zinc ion transmembrane transporter activity			large_intestine(1)	1						TGATGAGAACGCCACCCCACA	0.458													16	81					0	0	0.007413	0	0		A	51393180	A	A	51393180	2	1	8	1	0	0	0	0	0	0	0	1	14406	1074	38	1		1	SLC11A2	12	51393180	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	16	51393180	82458715	928	7737											
KRT75	9119	broad.mit.edu	37	chr12	52826943	52826943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtataggaatcaaagagggGctctaggttctgcctcacag	11	9	13	8	0	4	1	2	0	2	1	4	2	4	2	1	5	1	3	1	5	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:52826943G>A	uc001saj.2	-	2	614	c.592C>T	c.(592-594)CCC>TCC	p.P198S		NM_004693	NP_004684	O95678	K2C75_HUMAN	keratin 75	198	Linker 1.|Rod.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.192)		TCAAAGAGGGGCTCTAGGTTC	0.582													22	73					0	0	0.003954	0	0		A	52826943	A	A	52826943	3	1	8	1	0	0	0	0	1	0	0	0	8504	1203	42	2	1095	2	KRT75	12	52826943	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1433763	52826943	81024952	929	7738											
KRT74	121391	broad.mit.edu	37	chr12	52962173	52962173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccgtctccaggctggcacGctgaagggcaaagaacagag	11	4	15	11	2	1	3	0	1	1	2	2	3	1	3	2	4	1	4	2	4	3	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:52962173G>A	uc001sap.1	-	7	1183	c.1135C>T	c.(1135-1137)CGT>TGT	p.R379C		NM_175053	NP_778223	Q7RTS7	K2C74_HUMAN	keratin 6 irs4	379	Rod.|Coil 2.					keratin filament	structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.191)		AGGCTGGCACGCTGAAGGGCA	0.552													5	23					0	0	0.00308	0	0		A	52962173	A	A	52962173	3	1	8	1	0	0	0	0	1	0	0	0	8503	1101	38	1	466	1	KRT74	12	52962173	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	135230	52962173	80889722	930	7739											
ESPL1	9700	broad.mit.edu	37	chr12	53680232	53680232	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cactggagggcctgaaccagCcatcaaacgagagcctgcag	12	4	12	13	1	1	2	1	1	0	1	1	4	1	3	4	2	5	1	4	2	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:53680232C>A	uc001sck.2	+	18	3803	c.3712C>A	c.(3712-3714)CCA>ACA	p.P1238T	ESPL1_uc001scj.2_Missense_Mutation_p.P913T|ESPL1_uc010soe.1_Intron	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1238					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CCTGAACCAGCCATCAAACGA	0.542													19	115					9.95505e-16	1.11744e-15	0.014323	1	0		A	53680232	A	A	53680232	3	1	8	1	0	0	0	0	1	0	0	0	5261	739	26	5	3778	5	ESPL1	12	53680232	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	718059	53680232	80171663	931	7740											
ESPL1	9700	broad.mit.edu	37	chr12	53681832	53681832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagaggagcctaagagacGgggcactgcttcccggggcc	8	4	17	12	2	0	2	0	0	0	2	1	4	1	3	3	6	2	3	3	6	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:53681832G>A	uc001sck.2	+	19	4344	c.4253G>A	c.(4252-4254)CGG>CAG	p.R1418Q	ESPL1_uc001scj.2_Missense_Mutation_p.R1093Q|ESPL1_uc010soe.1_3'UTR	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1418					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CCTAAGAGACGGGGCACTGCT	0.617											OREG0021863	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	21					0	0	0.001984	0	0		A	53681832	A	A	53681832	3	1	8	1	0	0	0	0	1	0	0	0	5261	1116	39	1	4323	1	ESPL1	12	53681832	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1600	53681832	80170063	932	7741											
ESPL1	9700	broad.mit.edu	37	chr12	53681905	53681905	+	Silent	SNP	A	T	T																															acggatgccgtggttgccccAggtagtgcccctgggaaccc																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:53681905A>T	uc001sck.2	+	19	4417	c.4326A>T	c.(4324-4326)CCA>CCT	p.P1442P	ESPL1_uc001scj.2_Silent_p.P1117P|ESPL1_uc010soe.1_3'UTR	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1442					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						TGGTTGCCCCAGGTAGTGCCC	0.667											OREG0021863	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	16					0	0	0.009096	0	0		T	53681905	T	T	53681905	2	4	8	1	0	0	0	0	0	0	0	1	5261	175	7	5		5	ESPL1	12	53681905	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	73	53681905	80169990	933	7742	13	2									
ESPL1	9700	broad.mit.edu	37	chr12	53681913	53681913	+	Missense_Mutation	SNP	C	T	T																															cgtggttgccccaggtagtgCccctgggaaccctggcctga																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:53681913C>T	uc001sck.2	+	19	4425	c.4334C>T	c.(4333-4335)GCC>GTC	p.A1445V	ESPL1_uc001scj.2_Missense_Mutation_p.A1120V|ESPL1_uc010soe.1_3'UTR	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1445					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CCAGGTAGTGCCCCTGGGAAC	0.667											OREG0021863	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	14					0	0	0.009096	0	0		T	53681913	T	T	53681913	3	4	8	1	0	0	0	0	1	0	0	0	5261	739	26	2	4404	2	ESPL1	12	53681913	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8	53681913	80169982	934	7743	13	2									
AAAS	8086	broad.mit.edu	37	chr12	53701642	53701642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactcaccacactgagcaggGcccctttgttgaaggaagga	11	7	11	12	0	1	2	1	2	0	0	1	4	1	4	3	3	1	2	3	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:53701642G>A	uc001scr.3	-	15	1566	c.1403C>T	c.(1402-1404)GCC>GTC	p.A468V	AAAS_uc001scs.3_Missense_Mutation_p.A435V	NM_015665	NP_056480	Q9NRG9	AAAS_HUMAN	achalasia, adrenocortical insufficiency,	468					carbohydrate metabolic process|glucose transport|nucleocytoplasmic transport|regulation of glucose transport|regulation of nucleocytoplasmic transport|transmembrane transport|viral reproduction	nuclear pore				ovary(1)	1						ACTGAGCAGGGCCCCTTTGTT	0.602													11	76					0	0	0.013537	0	0		A	53701642	A	A	53701642	3	1	8	1	0	0	0	0	1	0	0	0	8	1203	42	2	245	2	AAAS	12	53701642	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	19729	53701642	80150253	935	7744											
SILV	6490	broad.mit.edu	37	chr12	56348059	56348059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggacaagagcagaagatgCggggtagacgcagccagtga	13	4	17	7	2	0	5	0	1	0	4	0	6	0	6	1	3	3	3	1	3	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:56348059C>T	uc001sip.2	-	11	1956	c.1925G>A	c.(1924-1926)CGC>CAC	p.R642H	SILV_uc001siq.2_Missense_Mutation_p.R649H|SILV_uc010spx.1_Missense_Mutation_p.R556H|SILV_uc001sir.2_Missense_Mutation_p.R642H	NM_006928	NP_008859	P40967	PMEL_HUMAN	silver homolog	642	Cytoplasmic (Potential).				melanin biosynthetic process|melanosome organization	endoplasmic reticulum membrane|extracellular region|Golgi apparatus|integral to membrane|melanosome|multivesicular body membrane|plasma membrane	protein binding				0						GCAGAAGATGCGGGGTAGACG	0.527													8	39					0	0	0.006214	0	0		T	56348059	T	T	56348059	3	4	8	1	0	0	0	0	1	0	0	0	14347	768	27	1	64	1	SILV	12	56348059	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2646417	56348059	77503836	936	7745											
IKZF4	64375	broad.mit.edu	37	chr12	56429093	56429093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attctcttcccacattgtccGgggggagcataaggtgggct	7	11	13	10	1	1	0	0	0	1	0	4	1	3	1	2	5	1	2	2	5	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:56429093G>A	uc001sjb.1	+	9	1895	c.1736G>A	c.(1735-1737)CGG>CAG	p.R579Q	IKZF4_uc010sqa.1_Missense_Mutation_p.R532Q|IKZF4_uc001sjc.1_Missense_Mutation_p.R579Q|IKZF4_uc001sjd.1_Missense_Mutation_p.R477Q|IKZF4_uc009zoi.1_Missense_Mutation_p.R534Q|IKZF4_uc001sje.1_Missense_Mutation_p.R538Q	NM_022465	NP_071910	Q9H2S9	IKZF4_HUMAN	zinc finger protein, subfamily 1A, 4	579	C2H2-type 6.				negative regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (6;0.025)|OV - Ovarian serous cystadenocarcinoma(18;0.123)			CACATTGTCCGGGGGGAGCAT	0.552													24	130					0	0	0.00632	0	0		A	56429093	A	A	56429093	3	1	8	1	0	0	0	0	1	0	0	0	7633	1116	39	1	1766	1	IKZF4	12	56429093	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	81034	56429093	77422802	937	7746											
MIP	4284	broad.mit.edu	37	chr12	56847512	56847512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaagatctccactgtggttgCctggcccacgctcaccgcag	7	8	11	15	2	2	1	1	0	1	1	3	2	2	1	4	2	1	3	4	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:56847512C>T	uc001slh.2	-	2	420	c.388G>A	c.(388-390)GCA>ACA	p.A130T		NM_012064	NP_036196	P30301	MIP_HUMAN	major intrinsic protein of lens fiber	130	Helical; (By similarity).				response to stimulus|visual perception	gap junction|integral to plasma membrane	structural constituent of eye lens			skin(1)	1						ACTGTGGTTGCCTGGCCCACG	0.602													3	15					0	0	0.004672	0	0		T	56847512	T	T	56847512	3	4	8	1	0	0	0	0	1	0	0	0	9609	739	26	2	415	2	MIP	12	56847512	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	418419	56847512	77004383	938	7747											
NAB2	4665	broad.mit.edu	37	chr12	57486328	57486328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgtcccgccaagtagcccGagagagcacctacttgtcct	8	10	9	14	2	0	1	0	0	0	1	2	3	2	1	5	0	3	2	5	0	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:57486328G>A	uc001smz.2	+	3	1433	c.1055G>A	c.(1054-1056)CGA>CAA	p.R352Q		NM_005967	NP_005958	Q15742	NAB2_HUMAN	NGFI-A binding protein 2	352	NCD2.				cell proliferation|negative regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	transcription corepressor activity			upper_aerodigestive_tract(1)|ovary(1)	2						CAAGTAGCCCGAGAGAGCACC	0.552													5	43					0	0	0.000602	0	0		A	57486328	A	A	57486328	3	1	8	1	0	0	0	0	1	0	0	0	10150	1058	37	1	1065	1	NAB2	12	57486328	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	638816	57486328	76365567	939	7748											
LRP1	4035	broad.mit.edu	37	chr12	57574224	57574224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtcatcgatgccatgcGgagccagctgggcaaggcca	9	5	16	11	2	1	0	1	0	0	0	2	3	1	2	3	5	4	2	3	5	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:57574224G>A	uc001snd.2	+	32	5814	c.5348G>A	c.(5347-5349)CGG>CAG	p.R1783Q		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1783	Extracellular (Potential).|LDL-receptor class B 16.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GATGCCATGCGGAGCCAGCTG	0.617													6	73					0	0	0.00308	0	0		A	57574224	A	A	57574224	3	1	8	1	0	0	0	0	1	0	0	0	8969	1116	39	1	5474	1	LRP1	12	57574224	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	87896	57574224	76277671	940	7749											
MBD6	114785	broad.mit.edu	37	chr12	57921419	57921419	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacccccccaactccttagcCctctgctgggtgccagcctg	5	8	9	19	0	1	0	0	0	1	0	2	1	2	0	7	1	5	1	7	1	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:57921419C>A	uc001soj.1	+	8	2436	c.2212C>A	c.(2212-2214)CCT>ACT	p.P738T	MBD6_uc001sok.1_Missense_Mutation_p.P605T|MBD6_uc001sol.1_RNA	NM_052897	NP_443129	Q96DN6	MBD6_HUMAN	methyl-CpG binding domain protein 6	738	Pro-rich.					chromosome|nucleus	chromatin binding|DNA binding			central_nervous_system(3)|ovary(1)	4						ACTCCTTAGCCCTCTGCTGGG	0.582													14	62					2.31682e-05	2.4858e-05	0.003163	1	0		A	57921419	A	A	57921419	3	1	8	1	0	0	0	0	1	0	0	0	9366	623	22	5	2234	5	MBD6	12	57921419	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	347195	57921419	75930476	941	7750											
SLC26A10	65012	broad.mit.edu	37	chr12	58015593	58015593	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgagattccgagaccggCtacccacgccgatcccgggg	8	5	13	15	6	0	2	0	1	0	2	2	5	2	2	5	3	1	1	5	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:58015593C>A	uc001spe.2	+	4	987	c.676C>A	c.(676-678)CTA>ATA	p.L226I	SLC26A10_uc001spf.2_RNA|SLC26A10_uc009zpz.1_5'Flank	NM_133489	NP_597996	Q8NG04	S2610_HUMAN	solute carrier family 26, member 10	226						integral to membrane	antiporter activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(17;0.122)					CCGAGACCGGCTACCCACGCC	0.692											OREG0021948	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	1					0.000602214	0.000636366	0.000602	1	0		A	58015593	A	A	58015593	3	1	8	1	0	0	0	0	1	0	0	0	14540	796	28	5	690	5	SLC26A10	12	58015593	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	94174	58015593	75836302	942	7751											
AGAP2	116986	broad.mit.edu	37	chr12	58121846	58121846	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctgacccgtgctggacacGatcaggaactcaaagttttc	10	10	10	11	2	3	1	2	1	1	0	4	4	3	3	1	2	2	2	1	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:58121846G>A	uc001spq.2	-	15	2640	c.2640C>T	c.(2638-2640)ATC>ATT	p.I880I	AGAP2_uc001spo.1_5'Flank|AGAP2_uc001spp.2_Silent_p.I879I|AGAP2_uc001spr.2_Silent_p.I524I|LOC100130776_uc001sps.3_3'UTR	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	880	PH.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						TGCTGGACACGATCAGGAACT	0.577													16	57					0	0	0.004007	0	0		A	58121846	A	A	58121846	2	1	8	1	0	0	0	0	0	0	0	1	368	1048	37	1		1	AGAP2	12	58121846	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	106253	58121846	75730049	943	7752											
MON2	23041	broad.mit.edu	37	chr12	62979234	62979234	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcccaagatgtactacaTcgctatatagaggatgaaag	15	9	10	7	1	0	3	0	1	0	2	2	4	1	4	1	2	2	2	1	2	7	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:62979234T>C	uc001sre.2	+	33	5251	c.4860T>C	c.(4858-4860)CAT>CAC	p.H1620H	MON2_uc009zqj.2_Silent_p.H1620H|MON2_uc010ssl.1_Silent_p.H1548H|MON2_uc010ssm.1_Silent_p.H1591H|MON2_uc010ssn.1_Silent_p.H1614H|MON2_uc001srf.2_Silent_p.H1383H|MON2_uc001srg.2_Silent_p.H489H	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	1621					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		ATGTACTACATCGCTATATAG	0.348													8	36					0	0	0.004482	0	0		C	62979234	C	C	62979234	2	2	8	1	0	0	0	0	0	0	0	1	9718	1432	50	3		3	MON2	12	62979234	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	4857388	62979234	70872661	944	7753											
NUP107	57122	broad.mit.edu	37	chr12	69109410	69109410	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttttttcttcttacaggacCctgatgctcccataagacag	9	15	6	11	0	2	2	0	1	2	1	3	3	3	3	2	1	2	1	2	1	2	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:69109410C>A	uc001suf.2	+	12	1088	c.973C>A	c.(973-975)CCT>ACT	p.P325T	NUP107_uc001sug.2_Missense_Mutation_p.P172T|NUP107_uc010stj.1_Missense_Mutation_p.P296T	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	325					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			CTTACAGGACCCTGATGCTCC	0.353													24	119					1.68575e-08	1.84651e-08	0.007291	1	0		A	69109410	A	A	69109410	3	1	8	1	0	0	0	0	1	0	0	0	10772	623	22	5	1019	5	NUP107	12	69109410	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6130176	69109410	64742485	945	7754											
CCT2	10576	broad.mit.edu	37	chr12	69980567	69980567	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatcgccattggagactTggtaaagagcaccttgggac	10	9	12	10	1	0	2	0	0	0	2	1	4	0	3	3	3	2	2	3	3	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:69980567T>C	uc001svb.1	+	3	207	c.113T>C	c.(112-114)TTG>TCG	p.L38S	CCT2_uc009zrm.1_RNA|CCT2_uc009zrn.1_Missense_Mutation_p.L38S|CCT2_uc010stl.1_5'UTR	NM_006431	NP_006422	P78371	TCPB_HUMAN	chaperonin containing TCP1, subunit 2	38					'de novo' posttranslational protein folding	nucleus	ATP binding|unfolded protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(2;7.7e-106)|Breast(13;2.15e-06)|Esophageal squamous(21;0.187)		Epithelial(6;2.72e-18)|GBM - Glioblastoma multiforme(2;2.58e-10)|Lung(24;0.000185)|OV - Ovarian serous cystadenocarcinoma(12;0.00126)|STAD - Stomach adenocarcinoma(21;0.00501)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			ATTGGAGACTTGGTAAAGAGC	0.338													19	167					0	0	0.012319	0	0		C	69980567	C	C	69980567	3	2	8	1	0	0	0	0	1	0	0	0	2956	1821	63	3	123	3	CCT2	12	69980567	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	871157	69980567	63871328	946	7755											
TBC1D15	64786	broad.mit.edu	37	chr12	72307610	72307610	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttttctttttaggataTgttcaaggaatgagtgattt	9	21	8	3	0	3	2	1	2	2	0	3	4	3	4	0	2	0	1	0	2	4	9			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:72307610T>C	uc001swu.2	+	13	1431	c.1422T>C	c.(1420-1422)TAT>TAC	p.Y474Y	TBC1D15_uc010stt.1_Silent_p.Y443Y|TBC1D15_uc001swv.2_Silent_p.Y457Y|TBC1D15_uc001sww.2_Silent_p.Y206Y	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	452	Rab-GAP TBC.						protein binding|Rab GTPase activator activity				0						TTTTAGGATATGTTCAAGGAA	0.353													12	34					0	0	0.013537	0	0		C	72307610	C	C	72307610	2	2	8	1	0	0	0	0	0	0	0	1	15629	1471	51	3		3	TBC1D15	12	72307610	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2327043	72307610	61544285	947	7756											
E2F7	144455	broad.mit.edu	37	chr12	77444494	77444494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcctttgcttttcaaattCgtccacagcactgtccccaa	8	13	6	14	1	1	0	1	0	0	0	4	0	3	0	4	1	2	2	4	1	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:77444494C>T	uc001sym.3	-	4	636	c.400G>A	c.(400-402)GAA>AAA	p.E134K	E2F7_uc001syn.2_Missense_Mutation_p.E134K	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	134					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						TTTTCAAATTCGTCCACAGCA	0.458													15	68					0	0	0.003163	0	0		T	77444494	T	T	77444494	3	4	8	1	0	0	0	0	1	0	0	0	4878	893	31	1	2375	1	E2F7	12	77444494	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5136884	77444494	56407401	948	7757											
PPP1R12A	4659	broad.mit.edu	37	chr12	80328667	80328667	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctcggagccgatccagcgTttcagctgctcgttccgctt	4	12	11	14	5	2	0	1	0	1	0	6	2	4	1	3	1	4	5	3	1	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:80328667T>C	uc001syz.2	-	1	312	c.45A>G	c.(43-45)AAA>AAG	p.K15K	PPP1R12A_uc001sza.2_Silent_p.K15K|PPP1R12A_uc010sud.1_Silent_p.K15K|PPP1R12A_uc001szb.2_Silent_p.K15K|PPP1R12A_uc001szc.2_Silent_p.K15K	NM_002480	NP_002471	O14974	MYPT1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	15						contractile fiber	protein binding|signal transducer activity			ovary(2)|breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	7						CGATCCAGCGTTTCAGCTGCT	0.547													4	4					0	0	0.009096	0	0		C	80328667	C	C	80328667	2	2	8	1	0	0	0	0	0	0	0	1	12376	1722	60	3		3	PPP1R12A	12	80328667	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2884173	80328667	53523228	949	7758											
DUSP6	1848	broad.mit.edu	37	chr12	89744647	89744647	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttgcactattggggtctcGgtcaaggtcagactcgatgt	7	13	13	8	2	3	1	2	0	1	1	5	2	3	1	0	4	1	2	0	4	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:89744647G>A	uc001tay.2	-	2	1036	c.556C>T	c.(556-558)CGA>TGA	p.R186*	DUSP6_uc001taz.2_Intron	NM_001946	NP_001937	Q16828	DUS6_HUMAN	dual specificity phosphatase 6 isoform a	186					dorsal/ventral pattern formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|nerve growth factor receptor signaling pathway|positive regulation of apoptosis|regulation of endodermal cell fate specification|regulation of fibroblast growth factor receptor signaling pathway|regulation of heart growth|response to nitrosative stress|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0						TTGGGGTCTCGGTCAAGGTCA	0.617													18	63					0	0	0.007413	0	0		A	89744647	A	A	89744647	4	1	8	1	0	0	0	0	0	1	0	0	4835	1124	39	1	597	1	DUSP6	12	89744647	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	9415980	89744647	44107248	950	7759											
DCN	1634	broad.mit.edu	37	chr12	91552114	91552114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccattgaaagtaacttttCgcactttggtgatctcattc	9	16	7	9	1	1	2	1	2	1	0	5	2	2	2	1	1	1	2	1	1	2	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:91552114C>T	uc001tbs.2	-	3	591	c.497G>A	c.(496-498)CGA>CAA	p.R166Q	DCN_uc001tbo.2_Intron|DCN_uc001tbp.2_Intron|DCN_uc001tbq.2_Intron|DCN_uc001tbr.2_Intron|DCN_uc001tbt.2_Missense_Mutation_p.R166Q|DCN_uc001tbu.2_Missense_Mutation_p.R166Q	NM_133503	NP_598010	P07585	PGS2_HUMAN	decorin isoform a preproprotein	166	LRR 5.				organ morphogenesis	extracellular space				central_nervous_system(2)|ovary(1)|lung(1)	4						AGTAACTTTTCGCACTTTGGT	0.378													18	98					0	0	0.007413	0	0		T	91552114	T	T	91552114	3	4	8	1	0	0	0	0	1	0	0	0	4300	884	31	1	602	1	DCN	12	91552114	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1807467	91552114	42299781	951	7760											
C12orf63	374467	broad.mit.edu	37	chr12	97079013	97079013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcatatcagcaaagatagCacagtgagtgtgaggatgga	15	8	13	5	0	2	3	2	2	0	1	2	5	2	5	0	2	2	2	0	2	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:97079013C>T	uc001tet.1	+	9	1364	c.1286C>T	c.(1285-1287)GCA>GTA	p.A429V		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	429										skin(6)|ovary(1)	7						GCAAAGATAGCACAGTGAGTG	0.507													11	45					0	0	0.00245	0	0		T	97079013	T	T	97079013	3	4	8	1	0	0	0	0	1	0	0	0	1709	710	25	2	1316	2	C12orf63	12	97079013	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5526899	97079013	36772882	952	7761											
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100452815	100452815	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtgatgtatttagagatAcctgattacaagtctgcggc	10	15	10	6	1	1	3	0	2	1	1	1	4	1	3	1	1	3	1	1	1	5	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:100452815A>G	uc001tgq.2	-	14	2469	c.2240T>C	c.(2239-2241)GTA>GCA	p.V747A	UHRF1BP1L_uc001tgp.2_Missense_Mutation_p.V397A	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	747										ovary(2)	2						ATTTAGAGATACCTGATTACA	0.418													19	110					0	0	0.010504	0	0		G	100452815	G	G	100452815	3	3	8	1	0	0	0	0	1	0	0	0	16995	391	14	3	2186	3	UHRF1BP1L	12	100452815	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3373802	100452815	33399080	953	7762											
SLC17A8	246213	broad.mit.edu	37	chr12	100790165	100790165	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgggcaccacctttggagAgaagccgactggccacaacc	11	5	12	13	1	0	1	0	0	0	1	0	4	0	2	5	3	2	1	5	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:100790165A>C	uc010svi.1	+	5	959	c.646A>C	c.(646-648)AGA>CGA	p.R216R	SLC17A8_uc009ztx.2_Silent_p.R216R	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	216	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						ACCTTTGGAGAGAAGCCGACT	0.398													5	22					0	0	0.001168	0	0		C	100790165	C	C	100790165	2	2	8	1	0	0	0	0	0	0	0	1	14448	296	11	5		5	SLC17A8	12	100790165	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	337350	100790165	33061730	954	7763											
TCP11L2	255394	broad.mit.edu	37	chr12	106715425	106715425	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggaaagctgtgtgctccCgtgcgagataatgatatcag	11	10	13	7	2	1	2	1	1	0	1	2	4	2	3	1	1	3	2	1	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:106715425C>T	uc001tln.2	+	5	750	c.576C>T	c.(574-576)CCC>CCT	p.P192P	TCP11L2_uc001tll.2_Silent_p.P192P|TCP11L2_uc001tlm.2_Silent_p.P192P	NM_152772	NP_689985	Q8N4U5	T11L2_HUMAN	t-complex 11 (mouse) like 2	192										ovary(3)	3						TGTGTGCTCCCGTGCGAGATA	0.488													19	92					0	0	0.008871	0	0		T	106715425	T	T	106715425	2	4	8	1	0	0	0	0	0	0	0	1	15740	639	23	1		1	TCP11L2	12	106715425	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5925260	106715425	27136470	955	7764											
BTBD11	121551	broad.mit.edu	37	chr12	108011205	108011205	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagccaggctgcagcccaCggacacaggtaggctaggat	10	6	13	12	1	1	0	1	0	0	0	1	2	1	2	2	5	3	4	2	5	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:108011205C>T	uc001tmk.1	+	9	2744	c.2223C>T	c.(2221-2223)CAC>CAT	p.H741H	BTBD11_uc009zut.1_Intron|BTBD11_uc001tmj.2_Silent_p.H741H|BTBD11_uc001tml.1_Silent_p.H278H	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	741	ANK 4.					integral to membrane	DNA binding			skin(2)|ovary(1)	3						CTGCAGCCCACGGACACAGGT	0.408													5	30					0	0	0.000602	0	0		T	108011205	T	T	108011205	2	4	8	1	0	0	0	0	0	0	0	1	1542	535	19	1		1	BTBD11	12	108011205	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1295780	108011205	25840690	956	7765											
WSCD2	9671	broad.mit.edu	37	chr12	108603945	108603945	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggcgccgagtgctactgcgGccacaagatccaggcgacga	9	4	14	14	6	0	1	0	0	0	1	1	4	1	1	3	3	3	1	3	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:108603945G>A	uc001tms.2	+	4	1289	c.545G>A	c.(544-546)GGC>GAC	p.G182D	WSCD2_uc001tmt.2_Missense_Mutation_p.G182D	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	182	WSC 1.					integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						TGCTACTGCGGCCACAAGATC	0.672													9	11					0	0	0.006214	0	0		A	108603945	A	A	108603945	3	1	8	1	0	0	0	0	1	0	0	0	17433	1203	42	2	555	2	WSCD2	12	108603945	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	592740	108603945	25247950	957	7766											
SART3	9733	broad.mit.edu	37	chr12	108942899	108942899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatttcactcatcttctggCgggccatcctcaccttggta	7	13	8	13	1	5	1	3	0	2	1	6	1	6	1	3	3	0	1	3	3	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:108942899C>T	uc001tmz.1	-	2	639	c.404G>A	c.(403-405)CGC>CAC	p.R135H	SART3_uc009zux.1_5'UTR|SART3_uc010swx.1_Missense_Mutation_p.R135H|SART3_uc010swy.1_Missense_Mutation_p.R3H|SART3_uc010swz.1_Missense_Mutation_p.R135H|SART3_uc001tna.1_RNA	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	135	HAT 1.				RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						CATCTTCTGGCGGGCCATCCT	0.458									Porokeratosis				7	58					0	0	0.00308	0	0		T	108942899	T	T	108942899	3	4	8	1	0	0	0	0	1	0	0	0	13872	768	27	1	2559	1	SART3	12	108942899	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	338954	108942899	24908996	958	7767											
SART3	9733	broad.mit.edu	37	chr12	108954646	108954646	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagtctctcaatctccagCtggtttttctcctcctcttc	4	17	4	16	0	5	0	1	0	4	0	11	0	7	0	4	1	1	2	4	1	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:108954646C>T	uc001tmz.1	-	1	520	c.285G>A	c.(283-285)CAG>CAA	p.Q95Q	SART3_uc009zux.1_5'UTR|SART3_uc010swx.1_Silent_p.Q95Q|SART3_uc010swz.1_Silent_p.Q95Q|SART3_uc001tna.1_RNA|SART3_uc001tnb.2_Silent_p.Q95Q|ISCU_uc010sxa.1_5'Flank|ISCU_uc010sxb.1_5'Flank|ISCU_uc001tnc.3_5'Flank|ISCU_uc010sxc.1_5'Flank|ISCU_uc009zuy.2_5'Flank|ISCU_uc010sxd.1_5'Flank	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	95	Potential.				RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						CAATCTCCAGCTGGTTTTTCT	0.632									Porokeratosis				5	13					0	0	0.001984	0	0		T	108954646	T	T	108954646	2	4	8	1	0	0	0	0	0	0	0	1	13872	796	28	2		2	SART3	12	108954646	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	11747	108954646	24897249	959	7768											
GPN3	51184	broad.mit.edu	37	chr12	110897617	110897617	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctccgttgggaccgaatcGcagagaatcatcctccatta	10	10	8	13	3	1	1	1	0	0	1	6	4	5	2	5	1	0	2	5	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:110897617G>A	uc001tqr.2	-	3	264	c.208C>T	c.(208-210)CGA>TGA	p.R70*	GPN3_uc001tqs.2_Nonsense_Mutation_p.R80*	NM_016301	NP_057385	Q9UHW5	GPN3_HUMAN	GPN-loop GTPase 3 isoform 1	70						protein complex	GTP binding				0						GGACCGAATCGCAGAGAATCA	0.448													23	106					0	0	0.004656	0	0		A	110897617	A	A	110897617	4	1	8	1	0	0	0	0	0	1	0	0	6634	1095	38	1	670	1	GPN3	12	110897617	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1942971	110897617	22954278	960	7769											
TCTN1	79600	broad.mit.edu	37	chr12	111085688	111085688	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctttaacttcttcttcccGtttgtttgacgtaagtgagg	6	17	8	10	2	2	2	0	2	2	0	3	2	3	2	2	1	1	3	2	1	2	8			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:111085688G>A	uc009zvs.2	+	14	1863	c.1755G>A	c.(1753-1755)CCG>CCA	p.P585P	TCTN1_uc001trp.3_Silent_p.P571P|TCTN1_uc001trn.3_Silent_p.P590P|TCTN1_uc001trk.3_RNA|HVCN1_uc001trq.1_Intron	NM_001082537	NP_001076006	Q2MV58	TECT1_HUMAN	tectonic family member 1 isoform 2	585					multicellular organismal development	extracellular region					0						TCTTCTTCCCGTTTGTTTGAC	0.532													14	37					0	0	0.004007	0	0		A	111085688	A	A	111085688	2	1	8	1	0	0	0	0	0	0	0	1	15747	1132	40	1		1	TCTN1	12	111085688	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	188071	111085688	22766207	961	7770											
ACAD10	80724	broad.mit.edu	37	chr12	112171759	112171759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtttcatccagaagagcCagaggtgcttgctgtccttg	7	12	13	9	0	1	3	1	0	0	3	3	3	3	3	3	2	3	3	3	2	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:112171759C>T	uc001tsq.2	+	11	1627	c.1427C>T	c.(1426-1428)CCA>CTA	p.P476L	ACAD10_uc001tsp.2_Missense_Mutation_p.P476L|ACAD10_uc009zvx.2_Missense_Mutation_p.P507L|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	476							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						CCAGAAGAGCCAGAGGTGCTT	0.537													18	58					0	0	0.007413	0	0		T	112171759	T	T	112171759	3	4	8	1	0	0	0	0	1	0	0	0	108	594	21	4	1562	4	ACAD10	12	112171759	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1086071	112171759	21680136	962	7771											
NOS1	4842	broad.mit.edu	37	chr12	117723955	117723955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacagcgcgaggcattcCgccaggcgtgcttggcccca	7	5	12	17	4	0	0	0	0	0	0	1	1	1	0	5	3	2	2	5	3	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:117723955C>T	uc001twm.1	-	6	1930	c.1244G>A	c.(1243-1245)CGG>CAG	p.R415Q		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	415					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CGAGGCATTCCGCCAGGCGTG	0.547													5	64					0	0	0.001168	0	0		T	117723955	T	T	117723955	3	4	8	1	0	0	0	0	1	0	0	0	10560	652	23	1	3156	1	NOS1	12	117723955	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5552196	117723955	16127940	963	7772											
GCN1L1	10985	broad.mit.edu	37	chr12	120589033	120589033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgcttcagcgagaggatgcCcaggcccttcaccaggcccg	7	7	12	15	2	2	1	2	0	0	1	2	3	2	2	4	3	3	1	4	3	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:120589033C>T	uc001txo.2	-	34	4238	c.4225G>A	c.(4225-4227)GGC>AGC	p.G1409S		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	1409					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GAGAGGATGCCCAGGCCCTTC	0.597													7	15					0	0	0.001984	0	0		T	120589033	T	T	120589033	3	4	8	1	0	0	0	0	1	0	0	0	6314	623	22	4	3890	4	GCN1L1	12	120589033	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2865078	120589033	13262862	964	7773											
SIRT4	23409	broad.mit.edu	37	chr12	120750802	120750802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtctgaaactgaattctcGttgtggagagttgctgcctt	7	15	12	7	1	2	3	0	2	2	1	3	4	2	3	1	1	3	3	1	1	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:120750802G>A	uc001tyc.2	+	4	928	c.908G>A	c.(907-909)CGT>CAT	p.R303H		NM_012240	NP_036372	Q9Y6E7	SIRT4_HUMAN	sirtuin 4	303	Deacetylase sirtuin-type.				chromatin silencing|negative regulation of insulin secretion|protein ADP-ribosylation|protein deacetylation	mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|protein binding|zinc ion binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTGAATTCTCGTTGTGGAGAG	0.488													31	70					0	0	0.010818	0	0		A	120750802	A	A	120750802	3	1	8	1	0	0	0	0	1	0	0	0	14365	1145	40	1	918	1	SIRT4	12	120750802	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	161769	120750802	13101093	965	7774											
C12orf43	64897	broad.mit.edu	37	chr12	121448638	121448638	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctttgtttacctgtccaGcagggctcccagcttcttgg	5	13	9	14	0	1	0	0	0	1	0	3	0	3	0	4	2	3	4	4	2	1	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:121448638G>A	uc001tzh.1	-	3	303	c.280C>T	c.(280-282)CTG>TTG	p.L94L	C12orf43_uc009zxa.1_Silent_p.L125L|C12orf43_uc010szo.1_Silent_p.L52L|C12orf43_uc010szp.1_Silent_p.L94L|C12orf43_uc001tzi.1_Silent_p.L94L	NM_022895	NP_075046	Q96C57	CL043_HUMAN	hypothetical protein LOC64897	94											0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TACCTGTCCAGCAGGGCTCCC	0.403													14	59					0	0	0.008871	0	0		A	121448638	A	A	121448638	2	1	8	1	0	0	0	0	0	0	0	1	1692	962	34	2		2	C12orf43	12	121448638	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	697836	121448638	12403257	966	7775											
LRRC43	254050	broad.mit.edu	37	chr12	122677528	122677528	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttgaggctgcgtatagaTccccggctctgcccgtcccc	6	9	11	15	3	1	2	0	1	1	1	3	2	3	2	5	2	2	4	5	2	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:122677528T>A	uc009zxm.2	+	7	1351	c.1326T>A	c.(1324-1326)GAT>GAA	p.D442E	LRRC43_uc001ubw.3_Missense_Mutation_p.D257E|LRRC43_uc009zxn.2_Missense_Mutation_p.D203E	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	442											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		TGCGTATAGATCCCCGGCTCT	0.597													6	19					0	0	0.001168	0	0		A	122677528	A	A	122677528	3	1	8	1	0	0	0	0	1	0	0	0	9019	1432	50	5	1352	5	LRRC43	12	122677528	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1228890	122677528	11174367	967	7776											
KNTC1	9735	broad.mit.edu	37	chr12	123060124	123060124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgctcaagatcatgtatgCggcagtggttccttggagtg	7	12	14	8	2	2	1	2	0	0	1	3	2	3	2	1	3	2	4	1	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:123060124C>T	uc001ucv.2	+	28	2580	c.2417C>T	c.(2416-2418)GCG>GTG	p.A806V	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	806					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		ATCATGTATGCGGCAGTGGTT	0.478													4	19					0	0	0.000602	0	0		T	123060124	T	T	123060124	3	4	8	1	0	0	0	0	1	0	0	0	8444	768	27	1	2523	1	KNTC1	12	123060124	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	382596	123060124	10791771	968	7777											
AACS	65985	broad.mit.edu	37	chr12	125613986	125613986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcaacaagtacaggaaggCgtatttctccaaattcccag	13	8	9	11	2	1	0	0	0	1	0	3	1	2	1	2	3	2	3	2	3	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:125613986C>T	uc001uhc.2	+	14	1735	c.1529C>T	c.(1528-1530)GCG>GTG	p.A510V	AACS_uc001uhd.2_Missense_Mutation_p.A510V|AACS_uc009zyh.2_Intron|AACS_uc009zyi.2_Missense_Mutation_p.A108V	NM_023928	NP_076417	Q86V21	AACS_HUMAN	acetoacetyl-CoA synthetase	510					fatty acid metabolic process	cytosol	acetoacetate-CoA ligase activity|ATP binding			ovary(1)|liver(1)|central_nervous_system(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;9.82e-05)|Epithelial(86;0.000642)|all cancers(50;0.00843)		TACAGGAAGGCGTATTTCTCC	0.567													15	149					0	0	0.00499	0	0		T	125613986	T	T	125613986	3	4	8	1	0	0	0	0	1	0	0	0	9	768	27	1	1583	1	AACS	12	125613986	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2553862	125613986	8237909	969	7778											
TMEM132B	114795	broad.mit.edu	37	chr12	126004054	126004054	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatagcagtgacctggctggGgcccagcagattacctggca	10	7	13	11	0	0	2	0	1	0	1	0	2	0	2	3	4	3	4	3	4	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:126004054G>A	uc001uhe.1	+	4	1169	c.1161G>A	c.(1159-1161)GGG>GGA	p.G387G		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	387	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		ACCTGGCTGGGGCCCAGCAGA	0.493													15	48					0	0	0.003163	0	0		A	126004054	A	A	126004054	2	1	8	1	0	0	0	0	0	0	0	1	16071	1219	43	4		4	TMEM132B	12	126004054	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	390068	126004054	7847841	970	7779											
TMEM132D	121256	broad.mit.edu	37	chr12	130184915	130184915	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggctcaggtagactttGtcccgcaggatgtgggcttt	5	11	15	10	2	1	1	1	0	0	1	2	2	2	2	2	5	0	4	2	5	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:130184915G>A	uc009zyl.1	-	2	736	c.408C>T	c.(406-408)GAC>GAT	p.D136D		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	136	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GGTAGACTTTGTCCCGCAGGA	0.542													13	29					0	0	0.00245	0	0		A	130184915	A	A	130184915	2	1	8	1	0	0	0	0	0	0	0	1	16072	1368	48	4		4	TMEM132D	12	130184915	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4180861	130184915	3666980	971	7780											
SFRS8	6433	broad.mit.edu	37	chr12	132238992	132238992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagctggccgagtatgtcGccaggaacggcctgaagttc	10	7	13	11	3	0	1	0	1	0	0	2	3	0	2	3	3	2	3	3	3	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:132238992G>A	uc001uja.1	+	9	1542	c.1402G>A	c.(1402-1404)GCC>ACC	p.A468T	SFRS8_uc010tbn.1_Missense_Mutation_p.A468T|SFRS8_uc001ujb.1_Missense_Mutation_p.A261T|SFRS8_uc001uiz.1_Missense_Mutation_p.A342T	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	468	SURP motif 2.				mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		CGAGTATGTCGCCAGGAACGG	0.547													13	28					0	0	0.003163	0	0		A	132238992	A	A	132238992	3	1	8	1	0	0	0	0	1	0	0	0	14208	1087	38	1	1436	1	SFRS8	12	132238992	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2054077	132238992	1612903	972	7781											
SFRS8	6433	broad.mit.edu	37	chr12	132281835	132281835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccccggcccgcggcccccGcggcccactcggcgcactca	3	2	12	24	8	1	0	1	0	0	0	2	0	1	0	6	4	0	1	6	4	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:132281835G>A	uc001uja.1	+	16	2787	c.2647G>A	c.(2647-2649)GCG>ACG	p.A883T	SFRS8_uc010tbn.1_Missense_Mutation_p.A935T	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	883	Arg/Ser-rich (RS domain).				mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		cgcggcccccgcggcccACTC	0.557													4	26					0	0	0.000602	0	0		A	132281835	A	A	132281835	3	1	8	1	0	0	0	0	1	0	0	0	14208	1087	38	1	2709	1	SFRS8	12	132281835	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	42843	132281835	1570060	973	7782											
EP400	57634	broad.mit.edu	37	chr12	132514298	132514298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacccccgtccctacgggtgCcgcggccgccacccctgtac	4	5	10	22	5	0	0	0	0	0	0	1	0	1	0	8	2	3	1	8	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr12:132514298C>T	uc001ujn.2	+	27	5469	c.5434C>T	c.(5434-5436)CCG>TCG	p.P1812S	EP400_uc001ujl.2_Missense_Mutation_p.P1811S|EP400_uc001ujm.2_Missense_Mutation_p.P1731S|SNORA49_uc001ujo.2_5'Flank	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1848					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CCTACGGGTGCCGCGGCCGCC	0.637													3	13					0	0	0.000602	0	0		T	132514298	T	T	132514298	3	4	8	1	0	0	0	0	1	0	0	0	5157	739	26	2	5537	2	EP400	12	132514298	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	232463	132514298	1337597	974	7783											
ZMYM5	9205	broad.mit.edu	37	chr13	20399055	20399055	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattcaaaattcggggccaCgtacctggatctgcggaaag	12	9	11	9	3	2	0	1	0	1	0	3	2	2	2	2	4	2	1	2	4	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:20399055C>T	uc010tcn.1	-	8	1837	c.1572G>A	c.(1570-1572)ACG>ACA	p.T524T	ZMYM5_uc001umm.1_Silent_p.T348T	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	524						nucleus	zinc ion binding				0		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		ttcggggccacgtacctggat	0													5	19					0	0	0.000602	0	0		T	20399055	T	T	20399055	2	4	8	1	0	0	0	0	0	0	0	1	17728	523	19	1		1	ZMYM5	13	20399055	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08		20399055	94770823	975	7784											
ZMYM5	9205	broad.mit.edu	37	chr13	20426142	20426142	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatagattcaataaacacaAcatcatcatcatcatcatca	18	11	2	10	0	7	1	7	0	0	1	7	1	7	1	0	0	2	1	0	0	6	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:20426142A>T	uc010tcn.1	-	3	444	c.179T>A	c.(178-180)GTT>GAT	p.V60D	ZMYM5_uc001umm.1_Translation_Start_Site|ZMYM5_uc001umn.2_Missense_Mutation_p.V60D|ZMYM5_uc001umo.2_Missense_Mutation_p.V60D	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	60						nucleus	zinc ion binding				0		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		AATAAACACAAcatcatcatc	0.338													13	92					0	0	0.001855	0	0		T	20426142	T	T	20426142	3	4	8	1	0	0	0	0	1	0	0	0	17728	43	2	5	1965	5	ZMYM5	13	20426142	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	27087	20426142	94743736	976	7785											
ZMYM2	7750	broad.mit.edu	37	chr13	20577064	20577064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggactctttatcaccagtgGcctcacttcctaaacagatt	10	13	6	12	0	3	1	2	0	1	1	4	2	4	2	3	2	1	0	3	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:20577064G>A	uc001umr.2	+	5	1220	c.922G>A	c.(922-924)GCC>ACC	p.A308T	ZMYM2_uc001umq.2_Missense_Mutation_p.A221T|ZMYM2_uc001ums.2_Missense_Mutation_p.A308T|ZMYM2_uc001umt.2_Missense_Mutation_p.A308T|ZMYM2_uc009zzn.1_Missense_Mutation_p.A243T	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	308					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		ATCACCAGTGGCCTCACTTCC	0.433													31	114					0	0	0.010818	0	0		A	20577064	A	A	20577064	3	1	8	1	0	0	0	0	1	0	0	0	17725	1203	42	2	928	2	ZMYM2	13	20577064	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	150922	20577064	94592814	977	7786											
ZMYM2	7750	broad.mit.edu	37	chr13	20625630	20625630	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaagagcgagttcagtggCgtggggaaatgaaacatttc	13	10	13	5	2	1	2	1	1	0	1	2	4	1	3	0	3	2	1	0	3	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:20625630C>T	uc001umr.2	+	14	2648	c.2350C>T	c.(2350-2352)CGT>TGT	p.R784C	ZMYM2_uc001ums.2_Missense_Mutation_p.R784C|ZMYM2_uc001umt.2_Missense_Mutation_p.R784C|ZMYM2_uc010tco.1_RNA|ZMYM2_uc001umv.2_Missense_Mutation_p.R164C|ZMYM2_uc001umw.2_Missense_Mutation_p.R237C	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	784					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		AGTTCAGTGGCGTGGGGAAAT	0.378													18	54					0	0	0.00499	0	0		T	20625630	T	T	20625630	3	4	8	1	0	0	0	0	1	0	0	0	17725	768	27	1	2392	1	ZMYM2	13	20625630	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	48566	20625630	94544248	978	7787											
ZMYM2	7750	broad.mit.edu	37	chr13	20641139	20641139	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttgatgaagatcttctggTattagatgagttaaaatctt	13	16	8	4	0	3	5	0	3	3	2	3	5	3	5	0	1	0	2	0	1	5	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:20641139T>C	uc001umr.2	+	21	3579	c.3281T>C	c.(3280-3282)GTA>GCA	p.V1094A	ZMYM2_uc001ums.2_Missense_Mutation_p.V1094A|ZMYM2_uc001umt.2_Missense_Mutation_p.V1094A|ZMYM2_uc001umv.2_Missense_Mutation_p.V474A|ZMYM2_uc001umw.2_Missense_Mutation_p.V547A	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	1094					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		GATCTTCTGGTATTAGATGAG	0.308													21	74					0	0	0.00278	0	0		C	20641139	C	C	20641139	3	2	8	1	0	0	0	0	1	0	0	0	17725	1638	57	3	3351	3	ZMYM2	13	20641139	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	15509	20641139	94528739	979	7788											
SPATA13	221178	broad.mit.edu	37	chr13	24858406	24858406	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagcagctggccatcaaTgaggtactggaattccacac	11	7	13	10	0	1	1	1	1	0	0	2	3	2	3	2	5	3	3	2	5	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:24858406T>C	uc001upg.1	+	4	830	c.423T>C	c.(421-423)AAT>AAC	p.N141N	SPATA13_uc001upd.1_Silent_p.N766N|C1QTNF9_uc001upe.2_RNA|SPATA13_uc010tcy.1_Silent_p.N87N|SPATA13_uc010tcz.1_Silent_p.N87N|SPATA13_uc010tda.1_Silent_p.N85N|SPATA13_uc001uph.2_Silent_p.N63N|SPATA13_uc010tdb.1_Silent_p.N63N	NM_153023	NP_694568	Q96N96	SPT13_HUMAN	spermatogenesis associated 13	141	ABR (APC-binding region) domain.				cell migration|filopodium assembly|lamellipodium assembly|regulation of cell migration|regulation of Rho protein signal transduction	cytoplasm|filopodium|lamellipodium|ruffle membrane	protein binding|Rac guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		all_cancers(29;4.05e-15)|all_lung(29;2.77e-14)|all_epithelial(30;7.77e-13)|Lung SC(185;0.0279)		all cancers(112;0.00616)|Epithelial(112;0.0195)|OV - Ovarian serous cystadenocarcinoma(117;0.0705)|Lung(94;0.231)		TGGCCATCAATGAGGTACTGG	0.428													5	14					0	0	0.000602	0	0		C	24858406	C	C	24858406	2	2	8	1	0	0	0	0	0	0	0	1	15025	1461	51	3		3	SPATA13	13	24858406	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	4217267	24858406	90311472	980	7789											
SPATA13	221178	broad.mit.edu	37	chr13	24861032	24861032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcggaccaacgtcatcCgggagatcatggacaccgag	12	5	13	11	4	2	2	2	0	0	2	3	6	3	4	3	3	2	0	3	3	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:24861032C>T	uc001upg.1	+	6	1143	c.736C>T	c.(736-738)CGG>TGG	p.R246W	SPATA13_uc001upd.1_Missense_Mutation_p.R871W|C1QTNF9_uc001upe.2_RNA|SPATA13_uc010tcy.1_Missense_Mutation_p.R192W|SPATA13_uc010tcz.1_Intron|SPATA13_uc010tda.1_Missense_Mutation_p.R190W|SPATA13_uc001uph.2_Missense_Mutation_p.R168W|SPATA13_uc010tdb.1_Intron|SPATA13_uc009zzz.1_5'Flank	NM_153023	NP_694568	Q96N96	SPT13_HUMAN	spermatogenesis associated 13	246	DH.				cell migration|filopodium assembly|lamellipodium assembly|regulation of cell migration|regulation of Rho protein signal transduction	cytoplasm|filopodium|lamellipodium|ruffle membrane	protein binding|Rac guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		all_cancers(29;4.05e-15)|all_lung(29;2.77e-14)|all_epithelial(30;7.77e-13)|Lung SC(185;0.0279)		all cancers(112;0.00616)|Epithelial(112;0.0195)|OV - Ovarian serous cystadenocarcinoma(117;0.0705)|Lung(94;0.231)		CAACGTCATCCGGGAGATCAT	0.602													6	38					0	0	0.006214	0	0		T	24861032	T	T	24861032	3	4	8	1	0	0	0	0	1	0	0	0	15025	643	23	1	2633	1	SPATA13	13	24861032	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2626	24861032	90308846	981	7790											
PAN3	255967	broad.mit.edu	37	chr13	28841313	28841313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaatatcgtaactttgcGtgaagtatttaccactaaag	14	13	6	8	2	1	1	1	1	0	0	2	1	1	1	1	0	3	2	1	0	8	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:28841313G>A	uc001urz.2	+	10	1225	c.1217G>A	c.(1216-1218)CGT>CAT	p.R406H	PAN3_uc010tdo.1_Missense_Mutation_p.R552H|PAN3_uc001ury.2_Missense_Mutation_p.R240H|PAN3_uc001urx.2_Missense_Mutation_p.R352H	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	552	Protein kinase.|Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		GTAACTTTGCGTGAAGTATTT	0.378													20	114					0	0	0.014323	0	0		A	28841313	A	A	28841313	3	1	8	1	0	0	0	0	1	0	0	0	11434	1145	40	1	1697	1	PAN3	13	28841313	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3980281	28841313	86328565	982	7791											
SLC7A1	6541	broad.mit.edu	37	chr13	30091734	30091734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctggttgaaatgttcaCaattagcccagagattttgg	11	12	12	6	0	1	2	1	1	0	1	1	4	1	2	1	3	1	3	1	3	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:30091734C>T	uc001uso.2	-	10	1873	c.1486G>A	c.(1486-1488)GTG>ATG	p.V496M		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	496	Helical; (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	GAAATGTTCACAATTAGCCCA	0.493													28	117					0	0	0.012213	0	0		T	30091734	T	T	30091734	3	4	8	1	0	0	0	0	1	0	0	0	14717	478	17	4	419	4	SLC7A1	13	30091734	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1250421	30091734	85078144	983	7792											
USPL1	10208	broad.mit.edu	37	chr13	31205139	31205139	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaattatattgctattgaCggtggaaaagttttgaacag	15	13	10	3	1	0	3	0	2	0	1	0	4	0	4	0	2	2	2	0	2	7	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:31205139C>T	uc001utc.2	+	4	828	c.396C>T	c.(394-396)GAC>GAT	p.D132D	USPL1_uc001utb.2_Translation_Start_Site|USPL1_uc001utd.2_Intron	NM_005800	NP_005791	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	132					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			pancreas(2)|skin(1)	3		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0306)|Epithelial(112;0.131)|OV - Ovarian serous cystadenocarcinoma(117;0.134)		TTGCTATTGACGGTGGAAAAG	0.368													7	59					0	0	0.004482	0	0		T	31205139	T	T	31205139	2	4	8	1	0	0	0	0	0	0	0	1	17118	535	19	1		1	USPL1	13	31205139	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1113405	31205139	83964739	984	7793											
SOHLH2	54937	broad.mit.edu	37	chr13	36776105	36776105	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatatgcaatcatccaaaagCgctgctgcctccttcgtgtc	10	11	7	13	2	1	0	1	0	0	0	5	0	3	0	3	0	4	3	3	0	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:36776105C>T	uc001uvj.2	-	2	263	c.174G>A	c.(172-174)GCG>GCA	p.A58A	SOHLH2_uc010tei.1_Silent_p.A135A	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	58					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;4.63e-08)|Epithelial(112;2.67e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|BRCA - Breast invasive adenocarcinoma(63;0.00685)|GBM - Glioblastoma multiforme(144;0.0273)		CATCCAAAAGCGCTGCTGCCT	0.453													6	97					0	0	0.001984	0	0		T	36776105	T	T	36776105	2	4	8	1	0	0	0	0	0	0	0	1	14949	755	27	1		1	SOHLH2	13	36776105	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5570966	36776105	78393773	985	7794											
SPG20	23111	broad.mit.edu	37	chr13	36888477	36888477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttctggttgaatccgctctCggagtttagaagcacctttc	7	14	9	11	2	2	2	0	1	2	1	5	3	3	3	2	2	1	4	2	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:36888477C>T	uc001uvn.2	-	7	1640	c.1370G>A	c.(1369-1371)CGA>CAA	p.R457Q	SPG20_uc010ten.1_Missense_Mutation_p.R447Q|SPG20_uc001uvm.2_Missense_Mutation_p.R457Q|SPG20_uc001uvo.2_Missense_Mutation_p.R457Q|SPG20_uc001uvq.2_Missense_Mutation_p.R457Q	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	457					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		AATCCGCTCTCGGAGTTTAGA	0.448													16	74					0	0	0.00499	0	0		T	36888477	T	T	36888477	3	4	8	1	0	0	0	0	1	0	0	0	15067	884	31	1	646	1	SPG20	13	36888477	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	112372	36888477	78281401	986	7795											
FAM48A	55578	broad.mit.edu	37	chr13	37598478	37598478	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactaagaaatgtaataccTgaggaactatttcctgagct	16	11	7	7	0	0	3	0	2	0	1	1	4	1	4	2	1	4	2	2	1	7	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:37598478T>C	uc001uwg.2	-	18	1679	c.1431A>G	c.(1429-1431)TCA>TCG	p.S477S	FAM48A_uc010abt.2_Silent_p.S478S|FAM48A_uc001uwh.2_Silent_p.S478S|FAM48A_uc001uwi.2_Silent_p.S477S|FAM48A_uc001uwj.2_Silent_p.S478S|FAM48A_uc001uwk.2_Silent_p.S477S|FAM48A_uc010tes.1_Silent_p.S441S|FAM48A_uc001uwl.1_Silent_p.S477S|FAM48A_uc001uwd.2_5'Flank|FAM48A_uc001uwe.2_5'UTR|FAM48A_uc001uwf.2_Silent_p.S55S	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A	477					autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		ATGTAATACCTGAGGAACTAT	0.363													9	46					0	0	0.004482	0	0		C	37598478	C	C	37598478	2	2	8	1	0	0	0	0	0	0	0	1	5586	1594	55	3		3	FAM48A	13	37598478	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	710001	37598478	77571400	987	7796											
POSTN	10631	broad.mit.edu	37	chr13	38161966	38161966	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgataaaacttaccccattaGgataatggttaatgaaaagc	17	11	7	6	0	0	2	0	2	0	0	0	3	0	3	2	2	3	1	2	2	8	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:38161966G>T	uc001uwo.3	-	5	717	c.599C>A	c.(598-600)CCT>CAT	p.P200H	POSTN_uc001uwp.3_Missense_Mutation_p.P200H|POSTN_uc001uwr.2_Missense_Mutation_p.P200H|POSTN_uc001uwq.2_Missense_Mutation_p.P200H|POSTN_uc010teu.1_Missense_Mutation_p.P200H|POSTN_uc010tev.1_Missense_Mutation_p.P200H|POSTN_uc010tew.1_Missense_Mutation_p.P200H|POSTN_uc010tex.1_Missense_Mutation_p.P115H	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	200	FAS1 1.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		TACCCCATTAGGATAATGGTT	0.269													6	49					0.00116845	0.00122775	0.001168	1	0		T	38161966	T	T	38161966	3	4	8	1	0	0	0	0	1	0	0	0	12278	1000	35	5	1987	5	POSTN	13	38161966	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	563488	38161966	77007912	988	7797											
C13orf23	80209	broad.mit.edu	37	chr13	39588012	39588012	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgttcacaccaagtggaccGgcaacgctgggagtagagcc	10	6	13	12	2	1	1	1	0	0	1	1	3	1	3	3	3	2	4	3	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:39588012G>A	uc001uwy.2	-	11	2250	c.1377C>T	c.(1375-1377)GCC>GCT	p.A459A	C13orf23_uc001uwz.2_Silent_p.A437A	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	459	Ser-rich.									ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		CAAGTGGACCGGCAACGCTGG	0.493													17	64					0	0	0.00499	0	0		A	39588012	A	A	39588012	2	1	8	1	0	0	0	0	0	0	0	1	1724	1103	39	1		1	C13orf23	13	39588012	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1426046	39588012	75581866	989	7798											
COG6	57511	broad.mit.edu	37	chr13	40268797	40268797	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgagcaagtaatagttgcTgaacctggggcagttttatt	11	14	11	5	0	0	2	0	2	0	0	0	2	0	2	1	2	3	6	1	2	5	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:40268797T>C	uc001uxh.2	+	12	1201	c.1101T>C	c.(1099-1101)GCT>GCC	p.A367A	COG6_uc001uxi.2_Silent_p.A315A|COG6_uc010acb.2_Silent_p.A367A	NM_020751	NP_065802	Q9Y2V7	COG6_HUMAN	component of oligomeric golgi complex 6 isoform	367					protein transport	Golgi membrane|Golgi transport complex				kidney(1)|skin(1)	2		Lung NSC(96;0.000124)|Breast(139;0.0199)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.03e-09)|Epithelial(112;7e-07)|OV - Ovarian serous cystadenocarcinoma(117;0.00015)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.0168)		TAATAGTTGCTGAACCTGGGG	0.294													9	58					0	0	0.008291	0	0		C	40268797	C	C	40268797	2	2	8	1	0	0	0	0	0	0	0	1	3665	1567	55	3		3	COG6	13	40268797	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	680785	40268797	74901081	990	7799											
ZC3H13	23091	broad.mit.edu	37	chr13	46549634	46549634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctctctctcttctctttctCgttcccgttctttttccctg	0	22	3	16	2	6	0	0	0	6	0	12	0	8	0	2	0	0	2	2	0	0	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:46549634C>T	uc010tfw.1	-	11	2258	c.2252G>A	c.(2251-2253)CGA>CAA	p.R751Q	ZC3H13_uc001vas.1_Missense_Mutation_p.R751Q|ZC3H13_uc001vat.1_Missense_Mutation_p.R751Q	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	751	Arg/Glu-rich.|Potential.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		ttctctttctcgttcccgttc	0.1													7	8					0	0	0.001984	0	0		T	46549634	T	T	46549634	3	4	8	1	0	0	0	0	1	0	0	0	17590	884	31	1	2466	1	ZC3H13	13	46549634	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6280837	46549634	68620244	991	7800											
SUCLA2	8803	broad.mit.edu	37	chr13	48570982	48570982	+	Frame_Shift_Del	DEL	T	-	-																															tttcttaatttagtacctaaTtttttggcaattgcataagc																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:48570982delT	uc001vbs.2	-	2	324	c.267delA	c.(265-267)AAAfs	p.K89fs	SUCLA2_uc010tgb.1_Frame_Shift_Del_p.K29fs|SUCLA2_uc010tgc.1_5'UTR|SUCLA2_uc010tgd.1_Frame_Shift_Del_p.K29fs|SUCLA2_uc001vbt.1_RNA|SUCLA2_uc001vbu.1_Frame_Shift_Del_p.K89fs	NM_003850	NP_003841	Q9P2R7	SUCB1_HUMAN	succinate-CoA ligase, ADP-forming, beta subunit	89	ATP-grasp.				succinyl-CoA pathway|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			central_nervous_system(1)	1		all_cancers(8;1.13e-24)|all_epithelial(8;1.78e-13)|all_lung(13;2.85e-06)|Breast(56;0.000141)|Lung NSC(96;0.000226)|all_hematologic(8;0.000885)|Prostate(109;0.00132)|Acute lymphoblastic leukemia(8;0.0167)|Myeloproliferative disorder(33;0.039)|Hepatocellular(98;0.0556)|Lung SC(185;0.102)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(144;2.1e-06)	Succinic acid(DB00139)	TAGTACCTAATTTTTTGGCAA	0.353													19	41	---	---	---	---						.	-	48570982	-	-	48570982	7	5	8	1	0	1	0	1	0	0	0	0	15388	1490	52	0	1164	0	SUCLA2	13	48570982	Frame_Shift_Del	DEL	T	TCGA-BR-4201-01A-01D-1126-08	2021348	48570982	66598896	992	7801											
NEK5	341676	broad.mit.edu	37	chr13	52639603	52639603	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcccttcctgacgactgacGctaagcacagactcactgtc	9	10	7	15	2	1	3	1	2	0	1	4	4	3	3	2	0	1	2	2	0	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:52639603G>C	uc001vge.2	-	22	2207	c.2067C>G	c.(2065-2067)AGC>AGG	p.S689R		NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	689							ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		GACGACTGACGCTAAGCACAG	0.552													6	64					0	0	0.001984	0	0		C	52639603	C	C	52639603	3	2	8	1	0	0	0	0	1	0	0	0	10346	1078	38	5	63	5	NEK5	13	52639603	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4068621	52639603	62530275	993	7802											
MYCBP2	23077	broad.mit.edu	37	chr13	77663139	77663139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgagaaagctcaggagacGgatgtctcaaaagggaagaa	16	4	14	7	2	2	3	2	0	1	3	3	7	2	5	1	3	1	1	1	3	5	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:77663139G>A	uc001vkf.2	-	62	10530	c.10439C>T	c.(10438-10440)CCG>CTG	p.P3480L	MYCBP2_uc010aev.2_Missense_Mutation_p.P2884L|MYCBP2_uc001vke.2_Missense_Mutation_p.P100L	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3480					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CTCAGGAGACGGATGTCTCAA	0.333													8	47					0	0	0.006214	0	0		A	77663139	A	A	77663139	3	1	8	1	0	0	0	0	1	0	0	0	10036	1116	39	1	3575	1	MYCBP2	13	77663139	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	25023536	77663139	37506739	994	7803											
UGGT2	55757	broad.mit.edu	37	chr13	96665657	96665657	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgttctagtacccatttcGgcatagagaatcaccactgg	12	11	8	10	1	2	1	1	0	1	1	3	2	2	1	2	2	1	3	2	2	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:96665657G>A	uc001vmt.2	-	5	734	c.564C>T	c.(562-564)GCC>GCT	p.A188A	UGGT2_uc010afo.2_RNA|UGGT2_uc001vmv.2_Silent_p.A188A|UGGT2_uc010afp.2_Silent_p.A188A	NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	188					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						TACCCATTTCGGCATAGAGAA	0.338													7	55					0	0	0.001984	0	0		A	96665657	A	A	96665657	2	1	8	1	0	0	0	0	0	0	0	1	16968	1103	39	1		1	UGGT2	13	96665657	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	19002518	96665657	18504221	995	7804											
OXGR1	27199	broad.mit.edu	37	chr13	97639911	97639911	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccataaataacagggaggtAgtgcatcttgagtgggatgt	12	10	14	5	0	1	1	0	1	1	0	1	3	1	3	1	3	2	2	1	3	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:97639911A>G	uc001vmx.1	-	4	347	c.103T>C	c.(103-105)TAC>CAC	p.Y35H	OXGR1_uc010afr.1_Missense_Mutation_p.Y35H	NM_080818	NP_543008	Q96P68	OXGR1_HUMAN	oxoglutarate (alpha-ketoglutarate) receptor 1	35	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.186)			ACAGGGAGGTAGTGCATCTTG	0.418													5	50					0	0	0.000602	0	0		G	97639911	G	G	97639911	3	3	8	1	0	0	0	0	1	0	0	0	11351	420	15	3	914	3	OXGR1	13	97639911	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	974254	97639911	17529967	996	7805											
NALCN	259232	broad.mit.edu	37	chr13	101910909	101910909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggatgaacatgtggaaaacgGatgaccgcatcattttctga	13	10	11	7	2	2	3	1	3	1	0	2	6	2	6	1	3	2	1	1	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:101910909G>A	uc001vox.1	-	11	1340	c.1151C>T	c.(1150-1152)TCC>TTC	p.S384F	NALCN_uc001voy.2_Missense_Mutation_p.S99F|NALCN_uc001voz.2_Missense_Mutation_p.S384F|NALCN_uc001vpa.2_Missense_Mutation_p.S384F	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	384	Helical; Name=S1 of repeat II; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GTGGAAAACGGATGACCGCAT	0.468													5	51					0	0	0.000602	0	0		A	101910909	A	A	101910909	3	1	8	1	0	0	0	0	1	0	0	0	10166	1174	41	4	4201	4	NALCN	13	101910909	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4270998	101910909	13258969	997	7806											
C13orf27	93081	broad.mit.edu	37	chr13	103418898	103418898	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtggattttatggggagcTtgcattttctgtgccacttt	6	17	11	7	0	1	0	0	0	1	0	1	2	1	2	1	3	3	2	1	3	1	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:103418898T>C	uc001vpo.2	-	6	715	c.537A>G	c.(535-537)CAA>CAG	p.Q179Q	C13orf27_uc001vpn.2_Silent_p.Q138Q|C13orf27_uc001vpp.2_Silent_p.Q138Q	NM_138779	NP_620134	Q5JUR7	CM027_HUMAN	hypothetical protein LOC93081	179											0	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					TATGGGGAGCTTGCATTTTCT	0.373													6	42					0	0	0.00308	0	0		C	103418898	C	C	103418898	2	2	8	1	0	0	0	0	0	0	0	1	1726	1606	56	3		3	C13orf27	13	103418898	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1507989	103418898	11750980	998	7807											
ARHGEF7	8874	broad.mit.edu	37	chr13	111944543	111944543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctagactccctggggcgtcGcagtagcctttctcgtttgg	4	12	12	13	3	1	1	0	0	1	1	4	1	2	1	3	3	1	3	3	3	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:111944543G>A	uc001vrs.2	+	20	2526	c.2276G>A	c.(2275-2277)CGC>CAC	p.R759H	ARHGEF7_uc001vrr.2_Missense_Mutation_p.R738H|ARHGEF7_uc001vrt.2_Missense_Mutation_p.R709H|ARHGEF7_uc001vrv.3_Intron|ARHGEF7_uc001vrw.3_Intron|ARHGEF7_uc001vrx.3_Intron|ARHGEF7_uc010tjo.1_Intron|ARHGEF7_uc010tjp.1_Missense_Mutation_p.R503H|ARHGEF7_uc001vry.1_Missense_Mutation_p.R175H	NM_001113511	NP_001106983	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform c	759					apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			CTGGGGCGTCGCAGTAGCCTT	0.532													9	87					0	0	0.008291	0	0		A	111944543	A	A	111944543	3	1	8	1	0	0	0	0	1	0	0	0	911	1087	38	1	2354	1	ARHGEF7	13	111944543	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	8525645	111944543	3225335	999	7808											
F7	2155	broad.mit.edu	37	chr13	113771857	113771857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatctgggtggtctccgCggcccactgtttcgacaaaa	8	9	10	14	3	2	0	0	0	2	0	4	1	2	0	3	3	0	1	3	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:113771857C>T	uc001vsv.2	+	8	803	c.752C>T	c.(751-753)GCG>GTG	p.A251V	F7_uc001vsw.2_Missense_Mutation_p.A229V|F7_uc010tjt.1_Missense_Mutation_p.A182V	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	251	Peptidase S1.		A -> P (in FA7D).|A -> T (in FA7D).		anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	GTGGTCTCCGCGGCCCACTGT	0.617													16	55					0	0	0.003163	0	0		T	113771857	T	T	113771857	3	4	8	1	0	0	0	0	1	0	0	0	5357	768	27	1	782	1	F7	13	113771857	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1827314	113771857	1398021	1000	7809											
PCID2	55795	broad.mit.edu	37	chr13	113854825	113854825	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctgctgtcgatggcttcGtacacctgaaacatttgaaa	10	13	8	10	2	1	2	0	2	1	0	4	3	1	2	1	1	3	3	1	1	3	3	rs3751414		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:113854825G>A	uc010tju.1	-	2	123	c.42C>T	c.(40-42)TAC>TAT	p.Y14Y	PCID2_uc010tjv.1_Silent_p.Y14Y|PCID2_uc010tjw.1_Silent_p.Y14Y|PCID2_uc001vte.2_Translation_Start_Site|PCID2_uc001vtd.2_Translation_Start_Site|PCID2_uc001vtf.2_Translation_Start_Site|PCID2_uc001vtg.1_RNA	NM_001127203	NP_001120675	Q5JVF3	PCID2_HUMAN	PCI domain containing 2	14					negative regulation of apoptosis|negative regulation of cysteine-type endopeptidase activity|positive regulation of mitotic cell cycle spindle assembly checkpoint|positive regulation of transcription, DNA-dependent|regulation of mRNA stability|spleen development		protein binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.216)|all_epithelial(44;0.234)	all cancers(43;0.104)			CGATGGCTTCGTACACCTGAA	0.408													12	62					0	0	0.001855	0	0		A	113854825	A	A	113854825	2	1	8	1	0	0	0	0	0	0	0	1	11598	1140	40	1		1	PCID2	13	113854825	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	82968	113854825	1315053	1001	7810											
GAS6	2621	broad.mit.edu	37	chr13	114535359	114535359	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgcagctccagccggccGgctctcagggccagcacgat	7	5	13	16	3	1	0	1	0	1	0	3	1	2	0	4	3	5	5	4	3	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr13:114535359G>A	uc001vud.2	-	10	1209	c.1056C>T	c.(1054-1056)GCC>GCT	p.A352A	GAS6_uc001vug.2_Silent_p.A53A|GAS6_uc001vuf.2_Silent_p.A79A	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	395	Laminin G-like 1.				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				CCAGCCGGCCGGCTCTCAGGG	0.647													5	16					0	0	0.001168	0	0		A	114535359	A	A	114535359	2	1	8	1	0	0	0	0	0	0	0	1	6264	1103	39	1		1	GAS6	13	114535359	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	680534	114535359	634519	1002	7811											
TMEM55B	90809	broad.mit.edu	37	chr14	20928912	20928912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcaggtgatcataggggCactcccactgtccgggctag	7	8	14	12	2	1	1	1	1	0	0	4	1	3	1	2	5	0	3	2	5	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:20928912C>T	uc001vxl.2	-	2	388	c.235G>A	c.(235-237)GCC>ACC	p.A79T	TMEM55B_uc001vxk.2_Missense_Mutation_p.A86T	NM_144568	NP_653169	Q86T03	TM55B_HUMAN	transmembrane protein 55B isoform 2	79	Pro-rich.					integral to membrane|late endosome membrane|lysosomal membrane	hydrolase activity				0	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;1.09e-07)|all cancers(55;1.19e-06)	GBM - Glioblastoma multiforme(265;0.0224)|READ - Rectum adenocarcinoma(17;0.193)		ATCATAGGGGCACTCCCACTG	0.572													13	87					0	0	0.001855	0	0		T	20928912	T	T	20928912	3	4	8	1	0	0	0	0	1	0	0	0	16207	710	25	2	622	2	TMEM55B	14	20928912	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08		20928912	86420628	1003	7812											
SLC7A7	9056	broad.mit.edu	37	chr14	23243309	23243309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagaggcagaagacaatcGggaagaaaacgctgagctaa	17	4	13	7	2	0	5	0	1	0	4	1	6	0	6	0	2	3	4	0	2	6	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:23243309G>A	uc001wgr.3	-	9	1400	c.1262C>T	c.(1261-1263)CCG>CTG	p.P421L	SLC7A7_uc001wgs.3_Missense_Mutation_p.P421L|SLC7A7_uc001wgt.3_Missense_Mutation_p.P421L|SLC7A7_uc001wgu.3_Missense_Mutation_p.P421L|SLC7A7_uc001wgv.3_Missense_Mutation_p.P421L	NM_003982	NP_003973	Q9UM01	YLAT1_HUMAN	solute carrier family 7 member 7	421	Helical; (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity			ovary(1)|breast(1)	2	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.00741)		GAAGACAATCGGGAAGAAAAC	0.493													12	55					0	0	0.010729	0	0		A	23243309	A	A	23243309	3	1	8	1	0	0	0	0	1	0	0	0	14728	1116	39	1	281	1	SLC7A7	14	23243309	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2314397	23243309	84106231	1004	7813											
EFS	10278	broad.mit.edu	37	chr14	23829153	23829153	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcctctccagggggctgCggggcaacccgggtcagagg	6	6	16	13	2	3	1	2	0	1	1	5	1	4	1	3	6	2	2	3	6	1	0	rs115947674	by1000genomes	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:23829153C>T	uc001wjo.2	-	4	1142	c.534G>A	c.(532-534)CCG>CCA	p.P178P	EFS_uc001wjp.2_Silent_p.P85P|EFS_uc010tnm.1_Silent_p.P85P	NM_005864	NP_005855	O43281	EFS_HUMAN	embryonal Fyn-associated substrate isoform 1	178	Pro-rich.				cell adhesion|intracellular signal transduction	cytoplasm	SH3 domain binding			large_intestine(1)	1	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00649)		CAGGGGGCTGCGGGGCAACCC	0.662													10	40					0	0	0.001855	0	0		T	23829153	T	T	23829153	2	4	8	1	0	0	0	0	0	0	0	1	4965	755	27	1		1	EFS	14	23829153	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	585844	23829153	83520387	1005	7814											
MYH7	4625	broad.mit.edu	37	chr14	23886745	23886745	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcttcttgtccagggcTgcagcagcagcattggagcg	6	10	13	12	1	2	0	0	0	2	0	3	1	3	1	1	2	6	6	1	2	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:23886745T>C	uc001wjx.2	-	31	4426	c.4320A>G	c.(4318-4320)GCA>GCG	p.A1440A		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1440	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TGTCCAGGGCTGCAGCAGCAG	0.602													10	63					0	0	0.006214	0	0		C	23886745	C	C	23886745	2	2	8	1	0	0	0	0	0	0	0	1	10057	1567	55	3		3	MYH7	14	23886745	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	57592	23886745	83462795	1006	7815											
AP1G2	8906	broad.mit.edu	37	chr14	24032638	24032638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaggcggcgcacagagtagGcatgtagctcctgggccccc	8	5	15	13	2	0	2	0	0	0	2	1	2	1	2	3	4	1	5	3	4	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:24032638G>A	uc001wkl.2	-	14	1698	c.1361C>T	c.(1360-1362)GCC>GTC	p.A454V	AP1G2_uc001wkj.2_Missense_Mutation_p.A73V|AP1G2_uc001wkk.3_Missense_Mutation_p.A382V|AP1G2_uc001wkn.2_Missense_Mutation_p.A73V|uc001wko.1_Intron|AP1G2_uc001wkp.1_RNA|AP1G2_uc010tnp.1_Missense_Mutation_p.A454V	NM_003917	NP_003908	O75843	AP1G2_HUMAN	adaptor-related protein complex 1, gamma 2	454					interspecies interaction between organisms|intracellular protein transport|vesicle-mediated transport	AP-1 adaptor complex|endosome membrane	protein binding|protein transporter activity			ovary(1)	1	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)		CACAGAGTAGGCATGTAGCTC	0.627											OREG0022605	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	7					0	0	0.004672	0	0		A	24032638	A	A	24032638	3	1	8	1	0	0	0	0	1	0	0	0	733	1203	42	2	1032	2	AP1G2	14	24032638	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	145893	24032638	83316902	1007	7816											
CPNE6	9362	broad.mit.edu	37	chr14	24542713	24542713	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccactaccacaggtagaGcgcacagaggtgcttcgctc	11	6	10	14	2	0	2	0	0	0	2	2	2	0	2	2	2	4	4	2	2	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:24542713G>T	uc001wll.2	+	3	273	c.174G>T	c.(172-174)GAG>GAT	p.E58D	CPNE6_uc010tnv.1_Missense_Mutation_p.E113D|CPNE6_uc001wlm.2_5'UTR|CPNE6_uc001wln.2_5'Flank	NM_006032	NP_006023	O95741	CPNE6_HUMAN	copine 6	58	C2 1.				lipid metabolic process|nervous system development|synaptic transmission|vesicle-mediated transport		calcium ion binding|transporter activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0184)		CACAGGTAGAGCGCACAGAGG	0.577													16	83					1.56452e-12	1.74565e-12	0.007413	1	0		T	24542713	T	T	24542713	3	4	8	1	0	0	0	0	1	0	0	0	3819	962	34	5	180	5	CPNE6	14	24542713	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	510075	24542713	82806827	1008	7817											
CPNE6	9362	broad.mit.edu	37	chr14	24542860	24542860	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccgaaatgataccttcctCggctctacggagtgcacctt	8	10	8	15	3	1	1	0	1	1	0	3	3	2	2	5	2	3	2	5	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:24542860C>T	uc001wll.2	+	3	420	c.321C>T	c.(319-321)CTC>CTT	p.L107L	CPNE6_uc010tnv.1_Silent_p.L162L|CPNE6_uc001wlm.2_5'UTR|CPNE6_uc001wln.2_5'Flank	NM_006032	NP_006023	O95741	CPNE6_HUMAN	copine 6	107	C2 1.				lipid metabolic process|nervous system development|synaptic transmission|vesicle-mediated transport		calcium ion binding|transporter activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0184)		ATACCTTCCTCGGCTCTACGG	0.587													8	25					0	0	0.006214	0	0		T	24542860	T	T	24542860	2	4	8	1	0	0	0	0	0	0	0	1	3819	871	31	1		1	CPNE6	14	24542860	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	147	24542860	82806680	1009	7818											
RNF31	55072	broad.mit.edu	37	chr14	24621133	24621133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgaggcacagccaggacCgggccttcctgcgccgcttg	5	7	14	15	3	0	1	0	1	0	0	1	2	1	2	5	3	2	2	5	3	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:24621133C>T	uc001wmn.1	+	11	2311	c.2062C>T	c.(2062-2064)CGG>TGG	p.R688W	RNF31_uc001wml.1_Missense_Mutation_p.R537W|RNF31_uc001wmm.1_RNA|RNF31_uc010alg.1_Missense_Mutation_p.R447W|RNF31_uc001wmo.1_Missense_Mutation_p.R155W|RNF31_uc001wmp.2_RNA	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	688					CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		CAGCCAGGACCGGGCCTTCCT	0.647													10	40					0	0	0.010729	0	0		T	24621133	T	T	24621133	3	4	8	1	0	0	0	0	1	0	0	0	13512	643	23	1	2104	1	RNF31	14	24621133	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	78273	24621133	82728407	1010	7819											
TGM1	7051	broad.mit.edu	37	chr14	24731001	24731001	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcgcactatcagctcgtcGtactcatactcgtctgtgtg	6	12	10	13	5	3	0	2	0	1	0	6	0	3	0	0	1	3	3	0	1	3	3	rs142338588		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:24731001G>A	uc001wod.2	-	3	532	c.408C>T	c.(406-408)TAC>TAT	p.Y136Y	TGM1_uc010tog.1_Intron	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	136					cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	TCAGCTCGTCGTACTCATACT	0.577													4	36					0	0	0.006214	0	0		A	24731001	A	A	24731001	2	1	8	1	0	0	0	0	0	0	0	1	15854	1140	40	1		1	TGM1	14	24731001	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	109868	24731001	82618539	1011	7820											
NFATC4	4776	broad.mit.edu	37	chr14	24838782	24838782	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctatggcgctgcacctatcGgtattccccgacctccaccc	6	9	7	19	3	0	0	0	0	0	0	3	1	2	0	7	2	1	3	7	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:24838782G>A	uc001wpc.2	+	2	499	c.178G>A	c.(178-180)GGT>AGT	p.G60S	NFATC4_uc010tok.1_Missense_Mutation_p.G123S|NFATC4_uc010tol.1_Missense_Mutation_p.G123S|NFATC4_uc010alr.2_Missense_Mutation_p.G123S|NFATC4_uc010als.2_Missense_Mutation_p.G73S|NFATC4_uc010tom.1_Missense_Mutation_p.G73S|NFATC4_uc010ton.1_Missense_Mutation_p.G73S|NFATC4_uc010too.1_Missense_Mutation_p.G73S|NFATC4_uc010alt.2_Missense_Mutation_p.G92S|NFATC4_uc010top.1_Missense_Mutation_p.G92S|NFATC4_uc010toq.1_Missense_Mutation_p.G92S|NFATC4_uc010alu.2_Missense_Mutation_p.G60S|NFATC4_uc010tor.1_Missense_Mutation_p.G60S|NFATC4_uc010tos.1_5'UTR|NFATC4_uc010tot.1_Missense_Mutation_p.G48S|NFATC4_uc010tou.1_5'UTR|NFATC4_uc010tov.1_Missense_Mutation_p.G48S|NFATC4_uc010tow.1_5'UTR|NFATC4_uc010alv.2_Missense_Mutation_p.G48S|NFATC4_uc010tox.1_5'UTR	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	60	Pro-rich.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		TGCACCTATCGGTATTCCCCG	0.667													13	45					0	0	0.00245	0	0		A	24838782	A	A	24838782	3	1	8	1	0	0	0	0	1	0	0	0	10384	1116	39	1	377	1	NFATC4	14	24838782	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	107781	24838782	82510758	1012	7821											
STRN3	29966	broad.mit.edu	37	chr14	31364745	31364745	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttatttcttgcacacatgTcttgctgtctaaattccata	9	18	5	9	0	3	0	0	0	3	0	4	0	4	0	1	0	2	3	1	0	4	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:31364745T>C	uc001wqu.2	-	18	2482	c.2266A>G	c.(2266-2268)ACA>GCA	p.T756A	STRN3_uc001wqv.2_Missense_Mutation_p.T672A|STRN3_uc010tpj.1_RNA	NM_001083893	NP_001077362	Q13033	STRN3_HUMAN	nuclear autoantigen isoform 1	756	WD 5.				negative regulation of estrogen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|response to estradiol stimulus	cytoplasm|dendrite|Golgi apparatus|neuronal cell body|nucleoplasm|nucleus|plasma membrane|protein complex	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.0124)		TGCACACATGTCTTGCTGTCT	0.353													5	34					0	0	0.001168	0	0		C	31364745	C	C	31364745	3	2	8	1	0	0	0	0	1	0	0	0	15355	1667	58	3	131	3	STRN3	14	31364745	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	6525963	31364745	75984795	1013	7822											
HECTD1	25831	broad.mit.edu	37	chr14	31588960	31588960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtctgctggacattagtaCgaccaggtctaggatcaaaa	12	11	10	8	1	3	0	1	0	2	0	3	3	3	2	1	3	2	2	1	3	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:31588960C>T	uc001wrc.1	-	29	5840	c.5351G>A	c.(5350-5352)CGT>CAT	p.R1784H	HECTD1_uc001wra.1_5'UTR|HECTD1_uc001wrb.1_5'UTR|HECTD1_uc001wrd.1_Missense_Mutation_p.R1252H	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1784					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		GACATTAGTACGACCAGGTCT	0.393													14	77					0	0	0.004007	0	0		T	31588960	T	T	31588960	3	4	8	1	0	0	0	0	1	0	0	0	7055	536	19	1	2541	1	HECTD1	14	31588960	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	224215	31588960	75760580	1014	7823											
SSTR1	6751	broad.mit.edu	37	chr14	38679606	38679606	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgctctttccaacgcatcCtatgcctcagctggatggac	8	10	9	14	2	2	0	1	0	1	0	4	2	4	2	3	2	4	3	3	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:38679606C>A	uc001wul.1	+	3	1629	c.1012C>A	c.(1012-1014)CTA>ATA	p.L338I	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	338	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	CCAACGCATCCTATGCCTCAG	0.572													7	72					0.000157383	0.000167469	0.00308	1	0		A	38679606	A	A	38679606	3	1	8	1	0	0	0	0	1	0	0	0	15222	680	24	5	1014	5	SSTR1	14	38679606	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	7090646	38679606	68669934	1015	7824											
SSTR1	6751	broad.mit.edu	37	chr14	38679687	38679687	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagagccgtgcctacagtGtggaagacttccaacctgag	11	8	11	11	1	1	3	1	1	0	2	2	4	2	4	4	1	4	0	4	1	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:38679687G>A	uc001wul.1	+	3	1710	c.1093G>A	c.(1093-1095)GTG>ATG	p.V365M	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	365	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	TGCCTACAGTGTGGAAGACTT	0.632													8	45					0	0	0.010729	0	0		A	38679687	A	A	38679687	3	1	8	1	0	0	0	0	1	0	0	0	15222	1377	48	4	1095	4	SSTR1	14	38679687	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	81	38679687	68669853	1016	7825											
SIP1	8487	broad.mit.edu	37	chr14	39601231	39601231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaggctcattcactgattCggcagcttgcaagaaggtgc	9	10	12	10	1	2	3	2	2	0	1	3	3	2	3	0	3	3	4	0	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:39601231C>T	uc001wuq.2	+	8	725	c.703C>T	c.(703-705)CGG>TGG	p.R235W	SIP1_uc001wur.2_Missense_Mutation_p.R235W|SIP1_uc001wus.2_Missense_Mutation_p.R220W|SIP1_uc010amx.2_RNA	NM_003616	NP_003607	O14893	GEMI2_HUMAN	SMN-interacting protein 1 isoform alpha	235					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	Cajal body|cytosol|spliceosomal complex	protein binding				0	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0121)		TTCACTGATTCGGCAGCTTGC	0.358													13	75					0	0	0.013537	0	0		T	39601231	T	T	39601231	3	4	8	1	0	0	0	0	1	0	0	0	14352	875	31	1	733	1	SIP1	14	39601231	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	921544	39601231	67748309	1017	7826											
FKBP3	2287	broad.mit.edu	37	chr14	45603570	45603570	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgaatctgaaccgtgttcCtgcagaaacttgataatgtc	12	11	8	10	2	1	3	0	2	1	1	3	4	2	3	3	0	3	2	3	0	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:45603570C>A	uc010tqf.1	-	1	163	c.90G>T	c.(88-90)CAG>CAT	p.Q30H	FANCM_uc001wwc.2_5'Flank|FANCM_uc001wwd.3_5'Flank|FANCM_uc010anf.2_5'Flank	NM_002013	NP_002004	Q00688	FKBP3_HUMAN	FK506 binding protein 3, 25kDa	30					protein folding	membrane|nucleus	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|receptor activity				0						AACCGTGTTCCTGCAGAAACT	0.637													12	39					1.3612e-06	1.47464e-06	0.003163	1	0		A	45603570	A	A	45603570	3	1	8	1	0	0	0	0	1	0	0	0	5923	680	24	5	612	5	FKBP3	14	45603570	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6002339	45603570	61745970	1018	7827											
NIN	51199	broad.mit.edu	37	chr14	51208344	51208344	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatgtaaagacatcacttCttgttttaaagcctcctttt	10	18	4	9	0	2	1	1	0	1	1	3	1	3	1	2	0	1	2	2	0	5	8			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:51208344C>A	uc001wym.2	-	25	5595	c.5404G>T	c.(5404-5406)GAA>TAA	p.E1802*	NIN_uc001wyi.2_Nonsense_Mutation_p.E1802*|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Nonsense_Mutation_p.E1089*|NIN_uc010tqp.1_Nonsense_Mutation_p.E1808*|NIN_uc001wyo.2_Nonsense_Mutation_p.E1802*|NIN_uc001wyn.2_5'Flank	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1802	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					GACATCACTTCTTGTTTTAAA	0.328			T	PDGFRB	MPD								38	119					1.32136e-16	1.48619e-16	0.00874	1	0		A	51208344	A	A	51208344	4	1	8	1	0	0	0	0	0	1	0	0	10436	922	32	5	1173	5	NIN	14	51208344	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5604774	51208344	56141196	1019	7828											
PYGL	5836	broad.mit.edu	37	chr14	51375597	51375597	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcaggctgcttgggagAaaaaaagccattgtcaattt	13	10	12	6	0	2	1	2	0	0	1	2	3	2	1	1	3	2	2	1	3	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:51375597A>G	uc001wyu.2	-	18	2381	c.2254T>C	c.(2254-2256)TCT>CCT	p.S752P	PYGL_uc010tqq.1_Missense_Mutation_p.S718P|PYGL_uc001wyv.2_Missense_Mutation_p.S426P|PYGL_uc001wyt.2_5'Flank	NM_002863	NP_002854	P06737	PYGL_HUMAN	liver glycogen phosphorylase isoform 1	752					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding	p.S752F(1)		skin(1)	1	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	TGCTTGGGAGAAAAAAAGCCA	0.443													32	115					0	0	0.009535	0	0		G	51375597	G	G	51375597	3	3	8	1	0	0	0	0	1	0	0	0	12886	246	9	3	301	3	PYGL	14	51375597	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	167253	51375597	55973943	1020	7829											
NID2	22795	broad.mit.edu	37	chr14	52534592	52534592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctctcccgagggcagcGccccgcgcttgacctcctcg	4	8	10	19	5	1	1	0	1	1	0	4	2	2	1	6	1	2	2	6	1	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:52534592G>A	uc001wzo.2	-	2	752	c.518C>T	c.(517-519)GCG>GTG	p.A173V	NID2_uc010tqs.1_Missense_Mutation_p.A173V|NID2_uc010tqt.1_Missense_Mutation_p.A173V|NID2_uc001wzp.2_Missense_Mutation_p.A173V	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	173	NIDO.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CGAGGGCAGCGCCCCGCGCTT	0.637													23	89					0	0	0.00333	0	0		A	52534592	A	A	52534592	3	1	8	1	0	0	0	0	1	0	0	0	10434	1087	38	1	3693	1	NID2	14	52534592	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1158995	52534592	54814948	1021	7830											
NID2	22795	broad.mit.edu	37	chr14	52535601	52535601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccccacgactccccgtgtgGgaagagctcgtctgggtgca	6	7	13	15	3	1	1	0	0	1	1	3	3	2	2	4	2	2	2	4	2	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:52535601G>A	uc001wzo.2	-	1	346	c.112C>T	c.(112-114)CCA>TCA	p.P38S	NID2_uc010tqs.1_Missense_Mutation_p.P38S|NID2_uc010tqt.1_Missense_Mutation_p.P38S|NID2_uc001wzp.2_Missense_Mutation_p.P38S	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	38						basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					TCCCCGTGTGGGAAGAGCTCG	0.672													4	24					0	0	0.009096	0	0		A	52535601	A	A	52535601	3	1	8	1	0	0	0	0	1	0	0	0	10434	1232	43	4	4103	4	NID2	14	52535601	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1009	52535601	54813939	1022	7831											
PTGDR	5729	broad.mit.edu	37	chr14	52735263	52735263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcctgcaccagggactgtgCcgagccgcgcgcggacggga	6	4	16	15	6	0	0	0	0	0	0	1	4	1	3	4	3	3	1	4	3	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:52735263C>T	uc001wzq.2	+	1	833	c.731C>T	c.(730-732)GCC>GTC	p.A244V		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	244	Cytoplasmic (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	AGGGACTGTGCCGAGCCGCGC	0.687													5	21					0	0	0.004482	0	0		T	52735263	T	T	52735263	3	4	8	1	0	0	0	0	1	0	0	0	12763	739	26	2	733	2	PTGDR	14	52735263	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	199662	52735263	54614277	1023	7832											
DDHD1	80821	broad.mit.edu	37	chr14	53619158	53619158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccggaactggaggctgggCccgtgggggagcacacatgg	7	5	18	11	2	0	0	0	0	0	0	1	3	1	3	2	7	2	2	2	7	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:53619158C>T	uc001xai.2	-	1	889	c.659G>A	c.(658-660)GGC>GAC	p.G220D	DDHD1_uc001xaj.2_Missense_Mutation_p.G220D|DDHD1_uc001xah.2_Missense_Mutation_p.G220D	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	220					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					GGAGGCTGGGCCCGTGGGGGA	0.697													4	4					0	0	0.000602	0	0		T	53619158	T	T	53619158	3	4	8	1	0	0	0	0	1	0	0	0	4329	739	26	2	2120	2	DDHD1	14	53619158	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	883895	53619158	53730382	1024	7833											
KIAA0831	22863	broad.mit.edu	37	chr14	55848756	55848756	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccattgttagggaggctaatCcaaggccctgtaatgctaat	11	11	10	9	0	0	0	0	0	0	0	1	1	1	1	3	3	1	4	3	3	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:55848756C>T	uc001xbx.1	-	6	837	c.801G>A	c.(799-801)TGG>TGA	p.W267*	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbw.1_Nonsense_Mutation_p.W154*	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	267					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0						GGAGGCTAATCCAAGGCCCTG	0.527													24	93					0	0	0.00278	0	0		T	55848756	T	T	55848756	4	4	8	1	0	0	0	0	0	1	0	0	8211	856	30	4	697	4	KIAA0831	14	55848756	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2229598	55848756	51500784	1025	7834											
C14orf37	145407	broad.mit.edu	37	chr14	58563560	58563560	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgggatgtgataccagggagGgtaaaacctggcagctcagt	11	8	15	7	0	1	1	1	1	0	0	1	3	1	3	2	4	3	3	2	4	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:58563560G>T	uc001xdc.2	-	5	2082	c.1971C>A	c.(1969-1971)ACC>ACA	p.T657T	C14orf37_uc010tro.1_Silent_p.T695T|C14orf37_uc001xdd.2_Silent_p.T657T	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	657	Extracellular (Potential).					integral to membrane	binding				0						TACCAGGGAGGGTAAAACCTG	0.443													11	56					6.42651e-13	7.18484e-13	0.010729	1	0		T	58563560	T	T	58563560	2	4	8	1	0	0	0	0	0	0	0	1	1774	1219	43	5		5	C14orf37	14	58563560	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2714804	58563560	48785980	1026	7835											
DACT1	51339	broad.mit.edu	37	chr14	59108339	59108339	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgagtgatggggcttcaGgatccctttccaattcctct	7	13	10	11	0	2	2	1	2	1	0	5	3	5	3	3	3	1	2	3	3	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:59108339G>T	uc001xdw.2	+	3	672	c.508G>T	c.(508-510)GGA>TGA	p.G170*	DACT1_uc010trv.1_Translation_Start_Site|DACT1_uc001xdx.2_Nonsense_Mutation_p.G170*|DACT1_uc010trw.1_Translation_Start_Site	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	170					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						TGGGGCTTCAGGATCCCTTTC	0.433													20	109					4.47668e-21	5.04868e-21	0.003954	1	0		T	59108339	T	T	59108339	4	4	8	1	0	0	0	0	0	1	0	0	4225	1001	35	5	518	5	DACT1	14	59108339	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	544779	59108339	48241201	1027	7836											
C14orf50	145376	broad.mit.edu	37	chr14	65053973	65053973	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacgtcaacacttgacagAgattgaagaagaagtaggga	16	6	12	7	2	1	5	1	2	0	3	1	8	1	6	1	1	1	1	1	1	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:65053973A>G	uc001xhl.1	+	10	869	c.773A>G	c.(772-774)GAG>GGG	p.E258G	C14orf50_uc001xhm.1_5'UTR	NM_172365	NP_758953	Q96LQ0	CN050_HUMAN	hypothetical protein LOC145376	258										skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00382)|all cancers(60;0.00427)|BRCA - Breast invasive adenocarcinoma(234;0.0488)		CACTTGACAGAGATTGAAGAA	0.423													14	60					0	0	0.004007	0	0		G	65053973	G	G	65053973	3	3	8	1	0	0	0	0	1	0	0	0	1780	304	11	3	811	3	C14orf50	14	65053973	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	5945634	65053973	42295567	1028	7837											
FUT8	2530	broad.mit.edu	37	chr14	66082939	66082939	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgactacaggtctggggaaGgatcatgaaatcctgaggag	12	9	14	6	0	2	3	1	3	1	0	3	6	3	6	1	5	1	0	1	5	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:66082939G>A	uc001xin.2	+	5	1527	c.330G>A	c.(328-330)AAG>AAA	p.K110K	FUT8_uc001xio.2_Silent_p.K110K|FUT8_uc010tsp.1_5'UTR|FUT8_uc001xir.3_RNA|FUT8_uc001xip.2_Silent_p.K110K|FUT8_uc001xiq.2_5'UTR	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a	110	Lumenal (Potential).				in utero embryonic development|L-fucose catabolic process|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in Golgi|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	glycoprotein 6-alpha-L-fucosyltransferase activity|SH3 domain binding			ovary(1)	1				all cancers(60;0.00109)|OV - Ovarian serous cystadenocarcinoma(108;0.00242)|BRCA - Breast invasive adenocarcinoma(234;0.0114)		GTCTGGGGAAGGATCATGAAA	0.373													10	39					0	0	0.008291	0	0		A	66082939	A	A	66082939	2	1	8	1	0	0	0	0	0	0	0	1	6124	991	35	4		4	FUT8	14	66082939	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1028966	66082939	41266601	1029	7838											
GPHN	10243	broad.mit.edu	37	chr14	67431987	67431987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcactactccttcagaatCgcctcgtgctcaggctacat	9	10	7	15	2	2	1	2	0	0	1	5	1	3	1	2	1	4	3	2	1	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:67431987C>T	uc001xiy.2	+	8	1930	c.809C>T	c.(808-810)TCG>TTG	p.S270L	GPHN_uc001xiw.2_Missense_Mutation_p.S285L|GPHN_uc001xix.2_Missense_Mutation_p.S303L|GPHN_uc010tss.1_Missense_Mutation_p.S283L|GPHN_uc010tst.1_Missense_Mutation_p.S239L|GPHN_uc010tsu.1_Missense_Mutation_p.S193L	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	270	Interaction with GABARAP (By similarity).				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		CCTTCAGAATCGCCTCGTGCT	0.498			T	MLL	AL								11	71					0	0	0.013537	0	0		T	67431987	T	T	67431987	3	4	8	1	0	0	0	0	1	0	0	0	6625	893	31	1	942	1	GPHN	14	67431987	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1349048	67431987	39917553	1030	7839											
GPHN	10243	broad.mit.edu	37	chr14	67576927	67576927	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaataccctgcggtgctgAtgcagtagtacaagtggaag	11	9	12	9	1	0	1	0	1	0	0	1	2	1	2	2	2	5	4	2	2	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:67576927A>G	uc001xiy.2	+	13	2386	c.1265A>G	c.(1264-1266)GAT>GGT	p.D422G	GPHN_uc001xix.2_Missense_Mutation_p.D455G|GPHN_uc010tss.1_Missense_Mutation_p.D468G|GPHN_uc010tst.1_Missense_Mutation_p.D391G|GPHN_uc010tsu.1_Missense_Mutation_p.D345G	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	422	MPT adenylyltransferase.				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		TGCGGTGCTGATGCAGTAGTA	0.443			T	MLL	AL								32	140					0	0	0.003271	0	0		G	67576927	G	G	67576927	3	3	8	1	0	0	0	0	1	0	0	0	6625	333	12	3	1418	3	GPHN	14	67576927	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	144940	67576927	39772613	1031	7840											
MAP3K9	4293	broad.mit.edu	37	chr14	71209080	71209080	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgaccagaagggaggcTgatgcggttgccatccttga	9	8	13	11	1	0	4	0	3	0	1	1	5	1	5	4	3	2	2	4	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:71209080T>C	uc001xmm.2	-	6	1555	c.1555A>G	c.(1555-1557)AGC>GGC	p.S519G	MAP3K9_uc010ttk.1_Missense_Mutation_p.S256G|MAP3K9_uc001xmk.2_Missense_Mutation_p.S213G|MAP3K9_uc001xml.2_Missense_Mutation_p.S519G	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	519				KLKDGNRISLPSDFQHKFTVQASPT -> AQPVLPFPHGHS RCPGGTGSSWGGQ (in Ref. 4).	activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		GAAGGGAGGCTGATGCGGTTG	0.607													14	61					0	0	0.003163	0	0		C	71209080	C	C	71209080	3	2	8	1	0	0	0	0	1	0	0	0	9275	1580	55	3	1833	3	MAP3K9	14	71209080	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	3632153	71209080	36140460	1032	7841											
LTBP2	4053	broad.mit.edu	37	chr14	75022341	75022341	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggtgaagtcggacagtgcGggacaaccccacgtgctgct	8	6	15	12	4	0	1	0	1	0	0	1	3	0	3	2	3	4	2	2	3	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:75022341G>T	uc001xqa.2	-	4	1273	c.886C>A	c.(886-888)CGC>AGC	p.R296S		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	296					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CGGACAGTGCGGGACAACCCC	0.657													10	35					3.07112e-06	3.32061e-06	0.010729	1	0		T	75022341	T	T	75022341	3	4	8	1	0	0	0	0	1	0	0	0	9092	1116	39	5	4711	5	LTBP2	14	75022341	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3813261	75022341	32327199	1033	7842											
TMED8	283578	broad.mit.edu	37	chr14	77802683	77802683	+	RNA	DEL	A	-	-																															ggtccacatacctggggcctAaaaaaatcaggtacatataa																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:77802683delA	uc010ast.1	-	7		c.2185delT				NM_213601		Q6PL24	TMED8_HUMAN	transmembrane emp24 protein transport domain						transport	integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		CCTGGGGCCTAAAAAAATCAG	0.378													2	4	---	---	---	---						.	-	77802683	-	-	77802683	6	5	8	0	1	1	0	1	0	0	0	0	16036	377	13	0		0	TMED8	14	77802683	RNA	DEL	A	TCGA-BR-4201-01A-01D-1126-08	2780342	77802683	29546857	1034	7843											
VIPAR	63894	broad.mit.edu	37	chr14	77895366	77895366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacatcaatgacgacatcatGgcacttgaacttagtggcta	13	10	8	10	1	2	2	2	2	0	0	2	3	2	2	0	2	1	2	0	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:77895366G>A	uc001xtt.1	-	19	1677	c.1339C>T	c.(1339-1341)CAT>TAT	p.H447Y	VIPAR_uc001xtu.1_Missense_Mutation_p.H447Y|VIPAR_uc010tvj.1_Missense_Mutation_p.H398Y|VIPAR_uc001xtv.1_Missense_Mutation_p.H447Y	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894	447					endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1						ACGACATCATGGCACTTGAAC	0.453													15	76					0	0	0.006122	0	0		A	77895366	A	A	77895366	3	1	8	1	0	0	0	0	1	0	0	0	17194	1348	47	4	154	4	VIPAR	14	77895366	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	92683	77895366	29454174	1035	7844											
NRXN3	9369	broad.mit.edu	37	chr14	79933651	79933651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagcacgcggtctgaccGccttgccgtgggcttcagca	5	7	13	16	4	2	1	1	1	1	0	2	1	2	1	4	2	3	3	4	2	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:79933651G>A	uc001xun.2	+	13	2722	c.2231G>A	c.(2230-2232)CGC>CAC	p.R744H	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Missense_Mutation_p.R112H|NRXN3_uc010asw.2_Missense_Mutation_p.R112H|NRXN3_uc001xur.3_Missense_Mutation_p.R112H	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1117	Extracellular (Potential).|Laminin G-like 6.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CGGTCTGACCGCCTTGCCGTG	0.567													4	41					0	0	0.009096	0	0		A	79933651	A	A	79933651	3	1	8	1	0	0	0	0	1	0	0	0	10686	1087	38	1	2524	1	NRXN3	14	79933651	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2038285	79933651	27415889	1036	7845											
SMEK1	55671	broad.mit.edu	37	chr14	91942843	91942843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtagcgtttgggaaaacGcacaaaattcttttaaaaag	15	11	9	6	2	1	0	0	0	1	0	1	1	1	1	0	1	2	4	0	1	8	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:91942843G>A	uc001xzn.2	-	6	1841	c.1019C>T	c.(1018-1020)GCG>GTG	p.A340V	SMEK1_uc001xzm.2_Missense_Mutation_p.A340V|SMEK1_uc001xzo.2_Missense_Mutation_p.A340V|SMEK1_uc010atz.2_Missense_Mutation_p.A101V|SMEK1_uc001xzp.1_RNA|SMEK1_uc001xzq.1_Missense_Mutation_p.A216V	NM_032560	NP_115949	Q6IN85	P4R3A_HUMAN	SMEK homolog 1, suppressor of mek1	340						microtubule organizing center|nucleus	protein binding				0		all_cancers(154;0.0691)|all_epithelial(191;0.219)		COAD - Colon adenocarcinoma(157;0.221)		TTGGGAAAACGCACAAAATTC	0.259													11	49					0	0	0.013537	0	0		A	91942843	A	A	91942843	3	1	8	1	0	0	0	0	1	0	0	0	14818	1087	38	1	1483	1	SMEK1	14	91942843	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	12009192	91942843	15406697	1037	7846											
GOLGA5	9950	broad.mit.edu	37	chr14	93299632	93299632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaacagcagatgaactccGcctctggaagtagtagtaat	13	9	10	9	2	1	2	0	1	1	1	3	4	2	3	2	1	3	4	2	1	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:93299632G>A	uc001yaz.1	+	10	2067	c.1885G>A	c.(1885-1887)GCC>ACC	p.A629T	GOLGA5_uc001yba.1_Missense_Mutation_p.A26T	NM_005113	NP_005104	Q8TBA6	GOGA5_HUMAN	Golgi autoantigen, golgin subfamily a, 5	629	Cytoplasmic (Potential).|Potential.				Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		GATGAACTCCGCCTCTGGAAG	0.428			T	RET	papillary thyroid								37	183					0	0	0.00874	0	0		A	93299632	A	A	93299632	3	1	8	1	0	0	0	0	1	0	0	0	6571	1087	38	1	1919	1	GOLGA5	14	93299632	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1356789	93299632	14049908	1038	7847											
OTUB2	78990	broad.mit.edu	37	chr14	94510971	94510971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtagagaaggatggctcaGtgtccagcctgctgaaggtg	9	9	16	7	0	1	2	1	1	0	1	2	4	2	3	2	4	2	3	2	4	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:94510971G>A	uc001yci.2	+	5	503	c.343G>A	c.(343-345)GTG>ATG	p.V115M		NM_023112	NP_075601	Q96DC9	OTUB2_HUMAN	OTU domain, ubiquitin aldehyde binding 2	115	OTU.				cellular amino acid metabolic process|protein K48-linked deubiquitination|protein K63-linked deubiquitination		omega peptidase activity|protein binding|ubiquitin-specific protease activity				0		all_cancers(154;0.12)		Epithelial(152;0.124)|all cancers(159;0.21)|COAD - Colon adenocarcinoma(157;0.215)		GGATGGCTCAGTGTCCAGCCT	0.612													7	40					0	0	0.001984	0	0		A	94510971	A	A	94510971	3	1	8	1	0	0	0	0	1	0	0	0	11331	1029	36	4	361	4	OTUB2	14	94510971	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1211339	94510971	12838569	1039	7848											
VRK1	7443	broad.mit.edu	37	chr14	97326912	97326912	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgaaattgccaaatacaTggaaacagtgaaattactag	18	9	9	5	0	0	2	0	2	0	0	0	3	0	3	1	2	4	0	1	2	7	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:97326912T>C	uc001yft.2	+	11	1014	c.908T>C	c.(907-909)ATG>ACG	p.M303T		NM_003384	NP_003375	Q99986	VRK1_HUMAN	vaccinia related kinase 1	303	Protein kinase.					cytoplasm|nucleolus	ATP binding|protein binding|protein serine/threonine kinase activity			large_intestine(1)|stomach(1)	2		Melanoma(154;0.155)		COAD - Colon adenocarcinoma(157;0.234)		GCCAAATACATGGAAACAGTG	0.279													8	44					0	0	0.004482	0	0		C	97326912	C	C	97326912	3	2	8	1	0	0	0	0	1	0	0	0	17245	1464	51	3	946	3	VRK1	14	97326912	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2815941	97326912	10022628	1040	7849											
EVL	51466	broad.mit.edu	37	chr14	100551127	100551127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagggattcagccggatcAacatctaccacaacactgcc	13	6	8	14	1	3	0	2	0	1	0	3	2	3	2	3	2	6	1	3	2	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:100551127A>G	uc001ygt.2	+	2	348	c.109A>G	c.(109-111)AAC>GAC	p.N37D	EVL_uc001ygv.2_Missense_Mutation_p.N43D|EVL_uc001ygu.2_Missense_Mutation_p.N39D|EVL_uc010avu.2_5'UTR	NM_016337	NP_057421	Q9UI08	EVL_HUMAN	Enah/Vasp-like	37	WH1.				actin polymerization or depolymerization|axon guidance|cell surface receptor linked signaling pathway|organ morphogenesis	cytoskeleton|cytosol|focal adhesion|lamellipodium	actin binding|profilin binding|SH3 domain binding			large_intestine(2)|ovary(1)	3		Melanoma(154;0.152)				CAGCCGGATCAACATCTACCA	0.517													22	55					0	0	0.00333	0	0		G	100551127	G	G	100551127	3	3	8	1	0	0	0	0	1	0	0	0	5299	130	5	3	121	3	EVL	14	100551127	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3224215	100551127	6798413	1041	7850											
DYNC1H1	1778	broad.mit.edu	37	chr14	102471206	102471206	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccaaactgcttgctgaGtctgttacggaagttgagat	9	12	12	8	1	1	2	0	2	1	1	1	4	1	3	1	2	4	4	1	2	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:102471206G>A	uc001yks.2	+	25	5321	c.5157G>A	c.(5155-5157)GAG>GAA	p.E1719E		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1719	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						TGCTTGCTGAGTCTGTTACGG	0.393													5	37					0	0	0.000602	0	0		A	102471206	A	A	102471206	2	1	8	1	0	0	0	0	0	0	0	1	4847	1020	36	4		4	DYNC1H1	14	102471206	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1920079	102471206	4878334	1042	7851											
DYNC1H1	1778	broad.mit.edu	37	chr14	102494049	102494049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctgatgctggactcgcacGaggagctctacaagtggttc	8	9	13	11	2	1	1	0	1	1	0	3	4	1	3	1	3	3	4	1	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:102494049G>A	uc001yks.2	+	47	9306	c.9142G>A	c.(9142-9144)GAG>AAG	p.E3048K		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3048	AAA 4 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						GGACTCGCACGAGGAGCTCTA	0.577													9	45					0	0	0.006214	0	0		A	102494049	A	A	102494049	3	1	8	1	0	0	0	0	1	0	0	0	4847	1059	37	1	9328	1	DYNC1H1	14	102494049	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	22843	102494049	4855491	1043	7852											
TECPR2	9895	broad.mit.edu	37	chr14	102843129	102843129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatctcctcaatgccattcCgacaaagatccagaagggtt	12	10	7	12	1	2	2	1	0	1	2	5	3	4	2	4	1	1	1	4	1	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:102843129C>T	uc001ylw.1	+	2	219	c.71C>T	c.(70-72)CCG>CTG	p.P24L	TECPR2_uc010txw.1_Missense_Mutation_p.P24L|TECPR2_uc010awl.2_Missense_Mutation_p.P24L|TECPR2_uc010txx.1_Nonsense_Mutation_p.R4*	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	24							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						AATGCCATTCCGACAAAGATC	0.537													11	44					0	0	0.001855	0	0		T	102843129	T	T	102843129	3	4	8	1	0	0	0	0	1	0	0	0	15769	652	23	1	73	1	TECPR2	14	102843129	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	349080	102843129	4506411	1044	7853											
EIF5	1983	broad.mit.edu	37	chr14	103806054	103806054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagcaatgcatcaagctcagCttatctccaagattccacat	13	11	5	12	0	3	1	2	0	1	1	5	1	4	1	2	0	4	4	2	0	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:103806054C>T	uc001ymq.2	+	10	1507	c.985C>T	c.(985-987)CTT>TTT	p.L329F	EIF5_uc001ymr.2_Missense_Mutation_p.L329F|EIF5_uc001yms.2_Missense_Mutation_p.L329F|EIF5_uc001ymt.2_Missense_Mutation_p.L329F|EIF5_uc001ymu.2_Missense_Mutation_p.L329F	NM_001969	NP_001960	P55010	IF5_HUMAN	eukaryotic translation initiation factor 5	329	W2.				regulation of translational initiation|RNA metabolic process	cytosol	GTP binding|GTPase activity|translation initiation factor activity			pancreas(1)|breast(1)|skin(1)	3		Melanoma(154;0.155)	Epithelial(46;0.182)			TCAAGCTCAGCTTATCTCCAA	0.433													7	66					0	0	0.001984	0	0		T	103806054	T	T	103806054	3	4	8	1	0	0	0	0	1	0	0	0	5048	797	28	2	1015	2	EIF5	14	103806054	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	962925	103806054	3543486	1045	7854											
AHNAK2	113146	broad.mit.edu	37	chr14	105409290	105409290	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatggaggggaggctcacGtcggctttcgccttcagctc	5	10	14	12	3	2	0	2	0	0	0	5	2	2	2	1	5	2	4	1	5	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr14:105409290G>A	uc010axc.1	-	7	12618	c.12498C>T	c.(12496-12498)GAC>GAT	p.D4166D	AHNAK2_uc001ypx.2_Silent_p.D4066D	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4166						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GGAGGCTCACGTCGGCTTTCG	0.607													51	141					0	0	0.01441	0	0		A	105409290	A	A	105409290	2	1	8	1	0	0	0	0	0	0	0	1	415	1136	40	1		1	AHNAK2	14	105409290	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1603236	105409290	1940250	1046	7855											
CYFIP1	23191	broad.mit.edu	37	chr15	22955256	22955256	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacataaaagtaccacgccgCgccgtgggaccctccagcac	11	4	10	16	4	0	0	0	0	0	0	1	2	1	1	5	1	2	2	5	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:22955256C>T	uc001yus.2	+	15	1754	c.1650C>T	c.(1648-1650)CGC>CGT	p.R550R	CYFIP1_uc001yut.2_Silent_p.R550R|CYFIP1_uc010aya.1_Silent_p.R578R|CYFIP1_uc001yuu.2_5'Flank	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	550					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		TACCACGCCGCGCCGTGGGAC	0.667													8	17					0	0	0.004482	0	0		T	22955256	T	T	22955256	2	4	8	1	0	0	0	0	0	0	0	1	4140	755	27	1		1	CYFIP1	15	22955256	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08		22955256	79576136	1047	7856											
MKRN3	7681	broad.mit.edu	37	chr15	23811639	23811639	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaggaagcagatggctgTgggcagtgggttgcggtttt	7	11	19	4	1	0	2	0	1	0	2	0	4	0	3	0	5	2	5	0	5	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:23811639T>C	uc001ywh.3	+	1	1186	c.710T>C	c.(709-711)GTG>GCG	p.V237A	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.V237A	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	237						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		CAGATGGCTGTGGGCAGTGGG	0.567													5	28					0	0	0.001168	0	0		C	23811639	C	C	23811639	3	2	8	1	0	0	0	0	1	0	0	0	9626	1696	59	3	712	3	MKRN3	15	23811639	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	856383	23811639	78719753	1048	7857											
MAGEL2	54551	broad.mit.edu	37	chr15	23889460	23889460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagagaccgtttgtctcccGgacatccaaccctaacttga	12	9	7	13	2	1	2	0	1	1	1	3	4	2	3	4	1	2	1	4	1	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:23889460G>A	uc001ywj.3	-	1	1716	c.1621C>T	c.(1621-1623)CGG>TGG	p.R541W		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		TTTGTCTCCCGGACATCCAAC	0.463													10	39					0	0	0.006214	0	0		A	23889460	A	A	23889460	3	1	8	1	0	0	0	0	1	0	0	0	9207	1115	39	1	323	1	MAGEL2	15	23889460	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	77821	23889460	78641932	1049	7858											
SNRPN	6638	broad.mit.edu	37	chr15	25222053	25222053	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgggtaccacttgctggAgctgctggaggccctggggt	4	9	17	11	1	0	0	0	0	0	0	1	2	0	2	2	6	4	5	2	6	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:25222053A>G	uc001ywp.1	+	10	1187	c.297A>G	c.(295-297)GGA>GGG	p.G99G	SNRPN_uc001ywq.1_Silent_p.G99G|SNRPN_uc001ywr.1_Silent_p.G99G|SNRPN_uc001yws.1_Silent_p.G99G|SNRPN_uc001ywt.1_Silent_p.G99G|SNRPN_uc001ywv.1_Silent_p.G102G|SNRPN_uc001yww.1_Silent_p.G99G|SNRPN_uc001ywx.1_Silent_p.G99G|SNRPN_uc001ywz.1_Intron|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	99					RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		CACTTGCTGGAGCTGCTGGAG	0.512									Prader-Willi_syndrome				9	68					0	0	0.001855	0	0		G	25222053	G	G	25222053	2	3	8	1	0	0	0	0	0	0	0	1	14895	291	11	3		3	SNRPN	15	25222053	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1332593	25222053	77309339	1050	7859											
HERC2	8924	broad.mit.edu	37	chr15	28357109	28357109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgcttgcaggaatacctggGcagcttcagcaagaagaaac	13	7	11	10	0	1	2	1	0	0	2	1	3	1	3	1	2	6	5	1	2	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:28357109G>A	uc001zbj.2	-	93	14411	c.14305C>T	c.(14305-14307)CCC>TCC	p.P4769S	HERC2_uc001zbi.2_Missense_Mutation_p.P458S	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4769	HECT.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GAATACCTGGGCAGCTTCAGC	0.498													11	63					0	0	0.013537	0	0		A	28357109	A	A	28357109	3	1	8	1	0	0	0	0	1	0	0	0	7074	1203	42	2	203	2	HERC2	15	28357109	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3135056	28357109	74174283	1051	7860											
HERC2	8924	broad.mit.edu	37	chr15	28366563	28366563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttgcttgtactactttccGgaaagccgcctcctaaaaca	11	11	7	12	2	0	0	0	0	0	0	2	1	2	1	4	1	5	3	4	1	5	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:28366563G>A	uc001zbj.2	-	86	13307	c.13201C>T	c.(13201-13203)CGG>TGG	p.R4401W		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4401					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ACTACTTTCCGGAAAGCCGCC	0.438													6	51					0	0	0.00308	0	0		A	28366563	A	A	28366563	3	1	8	1	0	0	0	0	1	0	0	0	7074	1115	39	1	1335	1	HERC2	15	28366563	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	9454	28366563	74164829	1052	7861											
HERC2	8924	broad.mit.edu	37	chr15	28538035	28538035	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaattcacaagattaccTggttgcttgccccataccca	12	10	5	14	0	1	1	1	0	0	1	1	1	1	1	5	1	4	2	5	1	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:28538035T>C	uc001zbj.2	-	4	427	c.321A>G	c.(319-321)CCA>CCG	p.P107P	HERC2_uc001zbl.1_5'UTR	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	107					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CAAGATTACCTGGTTGCTTGC	0.378													5	34					0	0	0.001168	0	0		C	28538035	C	C	28538035	2	2	8	1	0	0	0	0	0	0	0	1	7074	1594	55	3		3	HERC2	15	28538035	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	171472	28538035	73993357	1053	7862											
FMN1	342184	broad.mit.edu	37	chr15	33192305	33192305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagctaaaatatccttcaCgctcttcacgtgcagcaagt	12	10	8	11	2	3	1	2	0	1	1	4	2	4	1	1	0	3	4	1	0	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:33192305C>T	uc001zhf.3	-	10	2860	c.2860G>A	c.(2860-2862)GTG>ATG	p.V954M		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	1177	FH2.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		ATATCCTTCACGCTCTTCACG	0.433													16	67					0	0	0.00499	0	0		T	33192305	T	T	33192305	3	4	8	1	0	0	0	0	1	0	0	0	5963	536	19	1	762	1	FMN1	15	33192305	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4654270	33192305	69339087	1054	7863											
PGBD4	161779	broad.mit.edu	37	chr15	34396276	34396276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgctccgatgatgtcaCacctcttcgtctgtctggaa	6	14	8	13	2	4	1	1	1	3	0	7	3	6	2	3	1	1	1	3	1	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:34396276C>T	uc001zho.2	+	1	2003	c.1544C>T	c.(1543-1545)ACA>ATA	p.T515I	C15orf24_uc001zhm.2_5'Flank|C15orf24_uc001zhn.2_5'Flank	NM_152595	NP_689808	Q96DM1	PGBD4_HUMAN	piggyBac transposable element derived 4	515											0		all_lung(180;1.76e-08)		all cancers(64;1.22e-17)|GBM - Glioblastoma multiforme(113;1.78e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0242)		GATGATGTCACACCTCTTCGT	0.483													11	62					0	0	0.010729	0	0		T	34396276	T	T	34396276	3	4	8	1	0	0	0	0	1	0	0	0	11802	478	17	4	1546	4	PGBD4	15	34396276	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1203971	34396276	68135116	1055	7864											
SPRED1	161742	broad.mit.edu	37	chr15	38641674	38641674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagcagaagtatggaatacGtacagcggcaaatatccaag	17	6	11	7	2	0	2	0	0	0	2	1	3	1	3	1	2	4	4	1	2	8	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:38641674G>A	uc001zka.3	+	6	969	c.634G>A	c.(634-636)GTA>ATA	p.V212I		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	212					inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		TATGGAATACGTACAGCGGCA	0.328									Legius_syndrome				9	52					0	0	0.010729	0	0		A	38641674	A	A	38641674	3	1	8	1	0	0	0	0	1	0	0	0	15117	1145	40	1	656	1	SPRED1	15	38641674	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4245398	38641674	63889718	1056	7865											
BAHD1	22893	broad.mit.edu	37	chr15	40758302	40758302	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtctatgacttccgccaCgggcgcatccttaagaaccc	9	9	8	15	3	1	2	0	1	1	1	3	2	3	2	4	1	1	1	4	1	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:40758302C>T	uc001zlu.2	+	7	2387	c.2316C>T	c.(2314-2316)CAC>CAT	p.H772H	BAHD1_uc001zlt.2_Silent_p.H771H|BAHD1_uc010bbp.1_Silent_p.H768H|BAHD1_uc001zlv.2_Silent_p.H769H	NM_014952	NP_055767	Q8TBE0	BAHD1_HUMAN	bromo adjacent homology domain containing 1	772	BAH.				heterochromatin formation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin silencing complex|chromosome	chromatin binding|DNA binding|protein binding				0		all_cancers(109;8.28e-19)|all_epithelial(112;2.64e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.46e-06)|BRCA - Breast invasive adenocarcinoma(123;0.08)		ACTTCCGCCACGGGCGCATCC	0.632													5	44					0	0	0.013537	0	0		T	40758302	T	T	40758302	2	4	8	1	0	0	0	0	0	0	0	1	1298	535	19	1		1	BAHD1	15	40758302	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2116628	40758302	61773090	1057	7866											
RAD51	5888	broad.mit.edu	37	chr15	41021004	41021004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctcctttatcaagcatcagCcatgatggtagaatctaggt	11	12	9	9	0	3	2	2	1	1	1	4	2	4	2	2	2	2	3	2	2	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:41021004C>T	uc001zmi.3	+	7	925	c.626C>T	c.(625-627)GCC>GTC	p.A209V	RAD51_uc010bbw.2_Missense_Mutation_p.A209V|RAD51_uc010bbx.2_Missense_Mutation_p.A210V|RAD51_uc001zmk.3_RNA|RAD51_uc001zml.3_Missense_Mutation_p.A210V	NM_002875	NP_002866	Q06609	RAD51_HUMAN	RAD51 homolog protein isoform 1	209	Interaction with PALB2.				DNA recombinase assembly|DNA unwinding involved in replication|mitotic recombination|positive regulation of DNA ligation|protein homooligomerization|reciprocal meiotic recombination	mitochondrial matrix|nucleus|perinuclear region of cytoplasm|PML body	ATP binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|protein C-terminus binding|single-stranded DNA binding|single-stranded DNA-dependent ATPase activity				0		all_cancers(109;1.19e-18)|all_epithelial(112;2.33e-15)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.45e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000421)|COAD - Colon adenocarcinoma(120;0.163)		CAAGCATCAGCCATGATGGTA	0.433								Homologous_recombination					13	158					0	0	0.001855	0	0		T	41021004	T	T	41021004	3	4	8	1	0	0	0	0	1	0	0	0	13010	739	26	2	773	2	RAD51	15	41021004	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	262702	41021004	61510388	1058	7867											
RPAP1	26015	broad.mit.edu	37	chr15	41820101	41820101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagcccgaagagcacggatgGcggttgcaatgaccccatcc	10	5	13	13	3	0	2	0	1	0	1	1	5	1	3	4	3	3	3	4	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:41820101G>A	uc001zod.2	-	11	1509	c.1385C>T	c.(1384-1386)GCC>GTC	p.A462V		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	462						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		AGCACGGATGGCGGTTGCAAT	0.577													10	25					0	0	0.008291	0	0		A	41820101	A	A	41820101	3	1	8	1	0	0	0	0	1	0	0	0	13566	1203	42	2	2856	2	RPAP1	15	41820101	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	799097	41820101	60711291	1059	7868											
ZFP106	64397	broad.mit.edu	37	chr15	42743354	42743354	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttctgagaagggtaaggcgtCcagcgacgaggcttttccct	8	10	13	10	3	1	1	0	1	1	1	3	4	3	1	2	3	1	2	2	3	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:42743354C>T	uc001zpw.2	-	2	1382	c.1047G>A	c.(1045-1047)TGG>TGA	p.W349*	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Nonsense_Mutation_p.W132*|ZFP106_uc001zpy.1_Nonsense_Mutation_p.W372*	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	349						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GGTAAGGCGTCCAGCGACGAG	0.453													20	93					0	0	0.010504	0	0		T	42743354	T	T	42743354	4	4	8	1	0	0	0	0	0	1	0	0	17662	856	30	4	4676	4	ZFP106	15	42743354	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	923253	42743354	59788038	1060	7869											
TGM5	9333	broad.mit.edu	37	chr15	43533132	43533132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatcaggtttccatctgtatCgtggccagagtcgaagttgg	8	12	13	8	2	2	1	1	0	1	1	5	3	3	1	2	3	0	3	2	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:43533132C>T	uc001zrd.1	-	7	927	c.919G>A	c.(919-921)GAT>AAT	p.D307N	TGM5_uc001zrc.1_5'Flank|TGM5_uc001zre.1_Missense_Mutation_p.D225N	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	307					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	CCATCTGTATCGTGGCCAGAG	0.453													15	75					0	0	0.003163	0	0		T	43533132	T	T	43533132	3	4	8	1	0	0	0	0	1	0	0	0	15858	884	31	1	1271	1	TGM5	15	43533132	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	789778	43533132	58998260	1061	7870											
TUBGCP4	27229	broad.mit.edu	37	chr15	43677988	43677988	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtactctttccttgactaGcgcctgattgaggaagagaa	10	12	11	8	1	1	4	0	3	1	1	2	6	2	5	2	1	2	1	2	1	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:43677988G>A	uc001zro.2	+	8	964	c.724_splice	c.e8-1	p.R242_splice	TUBGCP4_uc001zrn.2_Splice_Site_p.R242_splice|TUBGCP4_uc010bdh.2_Splice_Site	NM_014444	NP_055259	Q9UGJ1	GCP4_HUMAN	tubulin, gamma complex associated protein 4						G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	structural constituent of cytoskeleton			ovary(3)	3		all_cancers(109;1.27e-10)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.72e-06)|all_lung(180;1.59e-05)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;3.53e-07)		TCCTTGACTAGCGCCTGATTG	0.428													16	49					0	0	0.004007	0	0		A	43677988	A	A	43677988	5	1	8	1	0	0	0	0	0	0	1	0	16794	985	34	2	753	2	TUBGCP4	15	43677988	Splice_Site	SNP	G	TCGA-BR-4201-01A-01D-1126-08	144856	43677988	58853404	1062	7871											
TP53BP1	7158	broad.mit.edu	37	chr15	43707815	43707815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttttactgtggcagacttgCgacctcgcttggcaggggac	6	11	14	10	2	0	1	0	0	0	1	1	3	0	2	1	4	2	4	1	4	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:43707815C>T	uc001zrs.2	-	23	5199	c.5051G>A	c.(5050-5052)CGC>CAC	p.R1684H	TP53BP1_uc010udp.1_Missense_Mutation_p.R1684H|TP53BP1_uc001zrq.3_Missense_Mutation_p.R1689H|TP53BP1_uc001zrr.3_Missense_Mutation_p.R1689H|TP53BP1_uc010udq.1_Missense_Mutation_p.R1689H|TP53BP1_uc001zrp.2_Missense_Mutation_p.R101H	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	1684					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		GGCAGACTTGCGACCTCGCTT	0.498								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					15	72					0	0	0.004007	0	0		T	43707815	T	T	43707815	3	4	8	1	0	0	0	0	1	0	0	0	16409	768	27	1	891	1	TP53BP1	15	43707815	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	29827	43707815	58823577	1063	7872											
SPG11	80208	broad.mit.edu	37	chr15	44951445	44951445	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgacacatttgttgatgaAcagtaatgatgtgttattgt	12	16	10	3	0	0	4	0	4	0	0	0	5	0	4	0	0	1	3	0	0	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:44951445A>G	uc001ztx.2	-	3	530	c.499T>C	c.(499-501)TTC>CTC	p.F167L	SPG11_uc010ueh.1_Missense_Mutation_p.F167L|SPG11_uc010uei.1_Missense_Mutation_p.F167L|SPG11_uc001zua.1_Missense_Mutation_p.F167L	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	167	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		TTGTTGATGAACAGTAATGAT	0.348													16	52					0	0	0.007413	0	0		G	44951445	G	G	44951445	3	3	8	1	0	0	0	0	1	0	0	0	15066	43	2	3	6984	3	SPG11	15	44951445	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1243630	44951445	57579947	1064	7873											
DUOX2	50506	broad.mit.edu	37	chr15	45387642	45387642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagggatgctcaccttcttaCacagcatttggctgcccaag	9	10	10	12	0	2	0	1	0	1	0	2	2	2	1	2	2	4	3	2	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:45387642C>T	uc010bea.2	-	31	4435	c.4232G>A	c.(4231-4233)TGT>TAT	p.C1411Y	DUOX2_uc001zun.2_Missense_Mutation_p.C1411Y	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1411	Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		CACCTTCTTACACAGCATTTG	0.552													12	70					0	0	0.00245	0	0		T	45387642	T	T	45387642	3	4	8	1	0	0	0	0	1	0	0	0	4807	478	17	4	430	4	DUOX2	15	45387642	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	436197	45387642	57143750	1065	7874											
SLC28A2	9153	broad.mit.edu	37	chr15	45556197	45556197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcatccttatcctctttGcctgctccaaacaccacagc	8	13	4	16	0	2	0	1	0	1	0	5	0	5	0	5	0	4	2	5	0	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:45556197G>A	uc001zva.2	+	6	630	c.565G>A	c.(565-567)GCC>ACC	p.A189T		NM_004212	NP_004203	O43868	S28A2_HUMAN	solute carrier family 28 (sodium-coupled	189	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		TATCCTCTTTGCCTGCTCCAA	0.493													14	64					0	0	0.00245	0	0		A	45556197	A	A	45556197	3	1	8	1	0	0	0	0	1	0	0	0	14557	1319	46	2	583	2	SLC28A2	15	45556197	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	168555	45556197	56975195	1066	7875											
HDC	3067	broad.mit.edu	37	chr15	50534934	50534934	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgacagactgaagggaCgttccacaggcccaggctct	10	6	11	14	1	1	3	0	2	1	1	2	4	2	4	3	3	0	2	3	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:50534934C>T	uc001zxz.2	-	12	1618	c.1512G>A	c.(1510-1512)ACG>ACA	p.T504T	HDC_uc001zxy.2_Silent_p.T247T|HDC_uc010uff.1_Silent_p.T471T	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	504					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	ACTGAAGGGACGTTCCACAGG	0.587													21	36					0	0	0.012319	0	0		T	50534934	T	T	50534934	2	4	8	1	0	0	0	0	0	0	0	1	7031	523	19	1		1	HDC	15	50534934	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4978737	50534934	51996458	1067	7876											
TRPM7	54822	broad.mit.edu	37	chr15	50878623	50878623	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggaatggaagttctgtgAcagtcagtaaatccagcaag	15	8	11	7	0	2	1	1	1	1	0	3	3	3	3	1	2	1	3	1	2	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:50878623A>G	uc001zyt.3	-	28	4716	c.4452T>C	c.(4450-4452)TGT>TGC	p.C1484C	TRPM7_uc010bew.1_Silent_p.C1484C	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	1484	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		AAGTTCTGTGACAGTCAGTAA	0.303													9	38					0	0	0.006214	0	0		G	50878623	G	G	50878623	2	3	8	1	0	0	0	0	0	0	0	1	16617	273	10	3		3	TRPM7	15	50878623	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	343689	50878623	51652769	1068	7877											
VPS13C	54832	broad.mit.edu	37	chr15	62147068	62147068	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatgctctttaaattgtttAcctctgctgtggcggtgtcc	5	16	10	10	1	2	0	0	0	2	0	3	0	3	0	2	2	3	4	2	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:62147068A>G	uc002agz.2	-	84	11234	c.11160_splice	c.e84+1	p.E3720_splice	VPS13C_uc002aha.2_Splice_Site_p.E3677_splice	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A						protein localization					ovary(2)	2						TAAATTGTTTACCTCTGCTGT	0.373													3	20					0	0	0.009096	0	0		G	62147068	G	G	62147068	5	3	8	1	0	0	0	0	0	0	1	0	17217	405	14	3	107	3	VPS13C	15	62147068	Splice_Site	SNP	A	TCGA-BR-4201-01A-01D-1126-08	11268445	62147068	40384324	1069	7878											
TLN2	83660	broad.mit.edu	37	chr15	63063176	63063176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaaggtgacacaactggCaagctattttgagcccttga	12	11	10	8	0	0	4	0	4	0	0	0	4	0	4	1	2	3	2	1	2	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:63063176C>T	uc002alb.3	+	39	5210	c.5210C>T	c.(5209-5211)GCA>GTA	p.A1737V	TLN2_uc002alc.3_Missense_Mutation_p.A130V|TLN2_uc002ald.2_Missense_Mutation_p.A130V	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1737					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						ACACAACTGGCAAGCTATTTT	0.493													14	46					0	0	0.003163	0	0		T	63063176	T	T	63063176	3	4	8	1	0	0	0	0	1	0	0	0	15973	710	25	2	5364	2	TLN2	15	63063176	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	916108	63063176	39468216	1070	7879											
USP3	9960	broad.mit.edu	37	chr15	63824853	63824853	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttctttttattagtgtgccgGtccaacaaaagcccttgggt	8	15	9	9	1	1	0	0	0	1	0	2	0	2	0	3	2	3	0	3	2	5	6	rs148908419		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:63824853G>A	uc002amf.2	+	2	228	c.99G>A	c.(97-99)CGG>CGA	p.R33R	USP3_uc010uii.1_RNA|USP3_uc002amg.2_5'UTR|USP3_uc002amh.2_Silent_p.R11R|USP3_uc010uij.1_Silent_p.R33R|USP3_uc010uik.1_Intron|USP3_uc010bgs.2_Silent_p.R16R	NM_006537	NP_006528	Q9Y6I4	UBP3_HUMAN	ubiquitin thiolesterase 3	33	UBP-type.				DNA repair|histone deubiquitination|mitotic cell cycle|regulation of protein stability|ubiquitin-dependent protein catabolic process	nuclear chromatin	histone binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(80;0.0187)		TAGTGTGCCGGTCCAACAAAA	0.358													10	61					0	0	0.010729	0	0		A	63824853	A	A	63824853	2	1	8	1	0	0	0	0	0	0	0	1	17086	1248	44	4		4	USP3	15	63824853	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	761677	63824853	38706539	1071	7880											
USP3	9960	broad.mit.edu	37	chr15	63881145	63881145	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttccttgttctgtagccTgagaacagtggcccggagag	7	12	12	10	1	2	2	0	1	2	2	3	4	3	2	3	2	2	2	3	2	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:63881145T>C	uc002amf.2	+	14	1461	c.1332T>C	c.(1330-1332)CCT>CCC	p.P444P	USP3_uc002amg.2_Silent_p.P359P|USP3_uc002amh.2_Silent_p.P422P|USP3_uc010uij.1_Silent_p.P400P|USP3_uc010uik.1_Silent_p.P195P|USP3_uc010bgs.2_Silent_p.P427P|USP3_uc002ami.2_Silent_p.P275P|uc002amj.2_RNA|uc002amk.2_RNA|uc002aml.2_RNA	NM_006537	NP_006528	Q9Y6I4	UBP3_HUMAN	ubiquitin thiolesterase 3	444					DNA repair|histone deubiquitination|mitotic cell cycle|regulation of protein stability|ubiquitin-dependent protein catabolic process	nuclear chromatin	histone binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(80;0.0187)		TTCTGTAGCCTGAGAACAGTG	0.527													41	180					0	0	0.011902	0	0		C	63881145	C	C	63881145	2	2	8	1	0	0	0	0	0	0	0	1	17086	1567	55	3		3	USP3	15	63881145	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	56292	63881145	38650247	1072	7881											
HERC1	8925	broad.mit.edu	37	chr15	63904654	63904654	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaagacttccacagagatCtcgggcatcccacacaccat	12	8	6	15	1	2	2	1	0	1	2	5	3	4	2	3	1	0	1	3	1	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:63904654C>A	uc002amp.2	-	77	14344	c.14196G>T	c.(14194-14196)GAG>GAT	p.E4732D	HERC1_uc002amo.2_5'Flank	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	4732	HECT.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						CCACAGAGATCTCGGGCATCC	0.562													10	55					2.27111e-07	2.47315e-07	0.013537	1	0		A	63904654	A	A	63904654	3	1	8	1	0	0	0	0	1	0	0	0	7073	912	32	5	397	5	HERC1	15	63904654	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	23509	63904654	38626738	1073	7882											
HERC1	8925	broad.mit.edu	37	chr15	64067377	64067377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagtgcttgaccgggggCgttcactaacagaatggaca	11	8	12	10	2	2	2	2	1	0	1	2	3	2	3	1	3	2	2	1	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:64067377C>T	uc002amp.2	-	2	594	c.446G>A	c.(445-447)CGC>CAC	p.R149H	HERC1_uc010uil.1_Missense_Mutation_p.R149H|HERC1_uc010bgt.1_Missense_Mutation_p.R149H|HERC1_uc002amq.1_Missense_Mutation_p.R149H	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	149					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TGACCGGGGGCGTTCACTAAC	0.453													30	187					0	0	0.012213	0	0		T	64067377	T	T	64067377	3	4	8	1	0	0	0	0	1	0	0	0	7073	768	27	1	14447	1	HERC1	15	64067377	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	162723	64067377	38464015	1074	7883											
ITGA11	22801	broad.mit.edu	37	chr15	68661610	68661610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattggtttccagtggggcGcccacgaccagcctgggaag	7	7	14	13	2	0	0	0	0	0	0	1	2	1	1	5	4	1	1	5	4	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:68661610G>A	uc002ari.2	-	3	264	c.177C>T	c.(175-177)GGC>GGT	p.G59G	ITGA11_uc010bib.2_Silent_p.G59G	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	59	FG-GAP 1.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	CCAGTGGGGCGCCCACGACCA	0.572													9	34					0	0	0.013537	0	0		A	68661610	A	A	68661610	2	1	8	1	0	0	0	0	0	0	0	1	7890	1074	38	1		1	ITGA11	15	68661610	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4594233	68661610	33869782	1075	7884											
ODF3L1	161753	broad.mit.edu	37	chr15	76019571	76019571	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctggggcccaacacccCtgtcagccgagctgctccct	5	8	10	18	1	1	0	1	0	0	0	2	1	2	0	5	2	5	3	5	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:76019571C>A	uc002bax.1	+	4	737	c.515C>A	c.(514-516)CCT>CAT	p.P172H		NM_175881	NP_787077	Q8IXM7	OD3L1_HUMAN	outer dense fiber of sperm tails 3-like 1	172											0						CCCAACACCCCTGTCAGCCGA	0.617													17	53					2.5808e-16	2.9008e-16	0.006122	1	0		A	76019571	A	A	76019571	3	1	8	1	0	0	0	0	1	0	0	0	10850	681	24	5	529	5	ODF3L1	15	76019571	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	7357961	76019571	26511821	1076	7885											
CIB2	10518	broad.mit.edu	37	chr15	78398176	78398176	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctcctcaatgaccttgtcGcacacaagcaccacctcctc	9	8	5	19	1	1	1	1	1	0	0	5	1	3	1	6	0	1	2	6	0	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:78398176G>A	uc002bdb.1	-	5	768	c.447C>T	c.(445-447)TGC>TGT	p.C149C	CIB2_uc002bdc.1_Silent_p.C106C|CIB2_uc010ums.1_Silent_p.C149C	NM_006383	NP_006374	O75838	CIB2_HUMAN	DNA-dependent protein kinase catalytic	149	EF-hand 3.						calcium ion binding				0						TGACCTTGTCGCACACAAGCA	0.567													16	43					0	0	0.004007	0	0		A	78398176	A	A	78398176	2	1	8	1	0	0	0	0	0	0	0	1	3424	1079	38	1		1	CIB2	15	78398176	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2378605	78398176	24133216	1077	7886											
AGPHD1	123688	broad.mit.edu	37	chr15	78807371	78807371	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttacctcccaggaagaccCatcgctgagcttcccgtcag	9	8	8	16	2	1	2	1	1	0	1	4	3	3	3	4	1	2	2	4	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:78807371C>A	uc010unc.1	+	3	512	c.399C>A	c.(397-399)CCC>CCA	p.P133P	AGPHD1_uc002bdt.2_Silent_p.P133P|AGPHD1_uc010ble.2_Silent_p.P133P	NM_001013619	NP_001013641	A2RU49	AGPD1_HUMAN	aminoglycoside phosphotransferase domain	133						cytoplasm	kinase activity				0						CAGGAAGACCCATCGCTGAGC	0.418													14	38					1.5739e-10	1.74335e-10	0.004007	1	0		A	78807371	A	A	78807371	2	1	8	1	0	0	0	0	0	0	0	1	393	581	21	5		5	AGPHD1	15	78807371	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	409195	78807371	23724021	1078	7887											
ARNT2	9915	broad.mit.edu	37	chr15	80872883	80872883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagtcgtccgccctttcCgggacaggtatgggcatctg	6	9	15	11	3	1	0	0	0	1	0	4	2	3	2	3	4	0	2	3	4	1	2	rs147344883		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:80872883C>T	uc002bfr.2	+	16	1911	c.1745C>T	c.(1744-1746)CCG>CTG	p.P582L	ARNT2_uc010unm.1_Missense_Mutation_p.P571L|ARNT2_uc002bfs.2_Missense_Mutation_p.P571L	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	582					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity	p.P582Q(1)		central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			CCGCCCTTTCCGGGACAGGTA	0.567													5	36					0	0	0.001168	0	0		T	80872883	T	T	80872883	3	4	8	1	0	0	0	0	1	0	0	0	967	652	23	1	1807	1	ARNT2	15	80872883	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2065512	80872883	21658509	1079	7888											
IL16	3603	broad.mit.edu	37	chr15	81575086	81575086	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatccgtggcgcacctggaCggacgtctccggtatgtcct	5	9	14	13	5	1	0	0	0	1	0	4	3	3	3	4	5	0	2	4	5	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:81575086C>T	uc002bgh.3	+	9	1564	c.1188C>T	c.(1186-1188)GAC>GAT	p.D396D	IL16_uc002bgc.2_RNA|IL16_uc010blq.1_Silent_p.D396D|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Silent_p.D438D|IL16_uc002bgg.2_Silent_p.D396D|IL16_uc002bgi.1_Translation_Start_Site	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	396	PDZ 2.|Interaction with GRIN2A.				immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						CGCACCTGGACGGACGTCTCC	0.537													31	105					0	0	0.004289	0	0		T	81575086	T	T	81575086	2	4	8	1	0	0	0	0	0	0	0	1	7649	535	19	1		1	IL16	15	81575086	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	702203	81575086	20956306	1080	7889											
FSD2	123722	broad.mit.edu	37	chr15	83451613	83451613	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccatcagttctttgcaagtAtctaggttttctccacagct	8	16	6	11	0	4	0	1	0	3	0	6	0	5	0	2	1	2	5	2	1	3	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:83451613A>G	uc002bjd.2	-	4	1067	c.900T>C	c.(898-900)GAT>GAC	p.D300D	FSD2_uc010uol.1_Silent_p.D300D|FSD2_uc010uom.1_Silent_p.D300D	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	300	Potential.									central_nervous_system(1)	1						CTTTGCAAGTATCTAGGTTTT	0.373													52	210					0	0	0.01441	0	0		G	83451613	G	G	83451613	2	3	8	1	0	0	0	0	0	0	0	1	6085	446	16	3		3	FSD2	15	83451613	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1876527	83451613	19079779	1081	7890											
ZNF592	9640	broad.mit.edu	37	chr15	85327240	85327240	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcagggagcccccagggggCcaggaaaggggacgagagca	11	2	18	10	1	1	1	1	0	0	1	1	5	1	4	3	6	2	1	3	6	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:85327240C>G	uc002bld.2	+	4	1670	c.1334C>G	c.(1333-1335)GCC>GGC	p.A445G	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	445					cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CCCCAGGGGGCCAGGAAAGGG	0.642													9	33					0	0	0.006214	0	0		G	85327240	G	G	85327240	3	3	8	1	0	0	0	0	1	0	0	0	18047	739	26	5	1336	5	ZNF592	15	85327240	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1875627	85327240	17204152	1082	7891											
ABHD2	11057	broad.mit.edu	37	chr15	89738497	89738497	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtttgtgctgcctctgcatgGgggccacttgggcttctttg	2	15	14	10	0	2	0	0	0	2	0	2	0	2	0	2	3	3	4	2	3	0	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:89738497G>T	uc002bnj.2	+	16	2038	c.1121G>T	c.(1120-1122)GGG>GTG	p.G374V	ABHD2_uc002bnk.2_Missense_Mutation_p.G374V	NM_007011	NP_008942	P08910	ABHD2_HUMAN	alpha/beta hydrolase domain containing protein	374						integral to membrane	carboxylesterase activity			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					CCTCTGCATGGGGGCCACTTG	0.557													6	52					5.4927e-09	6.03226e-09	0.004482	1	0		T	89738497	T	T	89738497	3	4	8	1	0	0	0	0	1	0	0	0	82	1232	43	5	1155	5	ABHD2	15	89738497	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4411257	89738497	12792895	1083	7892											
C15orf42	90381	broad.mit.edu	37	chr15	90167247	90167247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caacttcatcgactgcccagCccaggagagagtgtctcact	10	8	9	14	1	2	1	2	0	1	1	4	4	2	2	2	1	3	0	2	1	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:90167247C>T	uc002boe.2	+	20	3706	c.3706C>T	c.(3706-3708)CCC>TCC	p.P1236S	C15orf42_uc010upv.1_RNA	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1236	Pro-rich.				cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GACTGCCCAGCCCAGGAGAGA	0.567													12	127					0	0	0.001855	0	0		T	90167247	T	T	90167247	3	4	8	1	0	0	0	0	1	0	0	0	1799	739	26	2	3784	2	C15orf42	15	90167247	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	428750	90167247	12364145	1084	7893											
BLM	641	broad.mit.edu	37	chr15	91295078	91295078	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcaactgagaaagttccAtgtattgaatttgatgatga	14	14	8	5	0	1	5	1	5	0	1	2	6	2	5	1	0	1	2	1	0	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:91295078A>G	uc002bpr.2	+	4	958	c.861A>G	c.(859-861)CCA>CCG	p.P287P	BLM_uc010uqh.1_Silent_p.P287P|BLM_uc010uqi.1_5'UTR|BLM_uc010bnx.2_Silent_p.P287P	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	287					double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			AGAAAGTTCCATGTATTGAAT	0.323			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				17	63					0	0	0.00499	0	0		G	91295078	G	G	91295078	2	3	8	1	0	0	0	0	0	0	0	1	1446	204	8	3		3	BLM	15	91295078	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1127831	91295078	11236314	1085	7894											
ADAMTS17	170691	broad.mit.edu	37	chr15	100821558	100821558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagccggatagcgttcctcCgctcccgccagtcccgcgaa	6	7	11	17	6	0	1	0	1	0	0	4	3	4	2	6	1	2	2	6	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:100821558C>T	uc002bvv.1	-	4	744	c.665G>A	c.(664-666)CGG>CAG	p.R222Q	ADAMTS17_uc002bvx.1_5'UTR	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	222					proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		AGCGTTCCTCCGCTCCCGCCA	0.617													3	9					0	0	0.009096	0	0		T	100821558	T	T	100821558	3	4	8	1	0	0	0	0	1	0	0	0	262	652	23	1	2698	1	ADAMTS17	15	100821558	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	9526480	100821558	1709834	1086	7895											
ASB7	140460	broad.mit.edu	37	chr15	101170100	101170100	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttacacttatctgcccttAgggatgatgtgctgtgtgca	7	15	10	9	0	1	1	0	1	1	0	1	2	1	2	1	1	4	2	1	1	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:101170100A>G	uc002bwk.2	+	5	1439	c.670A>G	c.(670-672)AGG>GGG	p.R224G	ASB7_uc002bwj.2_Missense_Mutation_p.R224G	NM_198243	NP_937886	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box-containing protein 7	224	ANK 7.				intracellular signal transduction					skin(1)	1	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			ATCTGCCCTTAGGGATGATGT	0.458													20	76					0	0	0.012319	0	0		G	101170100	G	G	101170100	3	3	8	1	0	0	0	0	1	0	0	0	1029	411	15	3	676	3	ASB7	15	101170100	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	348542	101170100	1361292	1087	7896											
LRRK1	79705	broad.mit.edu	37	chr15	101528988	101528988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgagttccctgtcatcgtgCgcttgcccctgtatgcggcc	4	12	11	14	3	1	1	1	1	0	0	3	1	2	1	4	1	3	3	4	1	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr15:101528988C>T	uc002bwr.2	+	5	902	c.583C>T	c.(583-585)CGC>TGC	p.R195C	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bwq.1_Missense_Mutation_p.R195C	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	195	ANK 4.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGTCATCGTGCGCTTGCCCCT	0.607													5	34					0	0	0.001168	0	0		T	101528988	T	T	101528988	3	4	8	1	0	0	0	0	1	0	0	0	9050	768	27	1	597	1	LRRK1	15	101528988	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	358888	101528988	1002404	1088	7897											
RHBDF1	64285	broad.mit.edu	37	chr16	113713	113713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcttcagcttcccgtagcGctggctgcagtgacggatgc	5	9	15	12	3	1	1	1	1	0	0	2	2	2	2	1	3	4	6	1	3	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:113713G>A	uc002cfl.3	-	7	482	c.334C>T	c.(334-336)CGC>TGC	p.R112C	RHBDF1_uc010uty.1_Missense_Mutation_p.R135C|RHBDF1_uc010utz.1_Missense_Mutation_p.R112C|RHBDF1_uc010bqo.1_RNA	NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	112	Cytoplasmic (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				TTCCCGTAGCGCTGGCTGCAG	0.647													6	8					0	0	0.00308	0	0		A	113713	A	A	113713	3	1	8	1	0	0	0	0	1	0	0	0	13344	1087	38	1	2293	1	RHBDF1	16	113713	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08		113713	90241040	1089	7898											
CACNA1H	8912	broad.mit.edu	37	chr16	1250513	1250513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgctcgggtgactccaaccCccacaacggtgccatcaact	9	6	8	18	3	1	1	1	1	0	0	3	1	2	1	5	2	4	1	5	2	3	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:1250513C>T	uc002cks.2	+	7	1309	c.1061C>T	c.(1060-1062)CCC>CTC	p.P354L	CACNA1H_uc002ckt.2_Missense_Mutation_p.P354L	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	354	Extracellular (Potential).|I.				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	GACTCCAACCCCCACAACGGT	0.647													6	27					0	0	0.004482	0	0		T	1250513	T	T	1250513	3	4	8	1	0	0	0	0	1	0	0	0	2548	623	22	4	1083	4	CACNA1H	16	1250513	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1136800	1250513	89104240	1090	7899											
CACNA1H	8912	broad.mit.edu	37	chr16	1262117	1262117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaggagaagcggctgcggCgcctagagaggaggcgcagg	10	2	21	8	4	0	3	0	0	0	3	0	7	0	4	1	6	2	2	1	6	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:1262117C>T	uc002cks.2	+	25	4986	c.4738C>T	c.(4738-4740)CGC>TGC	p.R1580C	CACNA1H_uc002ckt.2_Missense_Mutation_p.R1580C|CACNA1H_uc002cku.2_Missense_Mutation_p.R286C|CACNA1H_uc010brj.2_Missense_Mutation_p.R286C|CACNA1H_uc002ckv.2_Missense_Mutation_p.R286C	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1580	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	GCGGCTGCGGCGCCTAGAGAG	0.711													5	17					0	0	0.001168	0	0		T	1262117	T	T	1262117	3	4	8	1	0	0	0	0	1	0	0	0	2548	768	27	1	4832	1	CACNA1H	16	1262117	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	11604	1262117	89092636	1091	7900											
E4F1	1877	broad.mit.edu	37	chr16	2282576	2282576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcaccaccggcggcacacGggtgagctggccgcacctcg	6	3	15	17	6	0	1	0	1	0	0	1	1	0	1	4	5	1	4	4	5	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:2282576G>A	uc002cpm.2	+	5	777	c.729G>A	c.(727-729)ACG>ACA	p.T243T	E4F1_uc010bsi.2_Silent_p.T243T|E4F1_uc010bsj.2_Silent_p.T243T	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	243	Mediates dimerization, DNA-binding, transcription repression of CCNA2 and interaction with HMGA2.				cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						GGCGGCACACGGGTGAGCTGG	0.687													3	6					0	0	0.009096	0	0		A	2282576	A	A	2282576	2	1	8	1	0	0	0	0	0	0	0	1	4880	1130	39	1		1	E4F1	16	2282576	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1020459	2282576	88072177	1092	7901											
ABCA3	21	broad.mit.edu	37	chr16	2333210	2333210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccgcctcctccggagggCgcagaggatgcccctgagtc	5	7	14	15	3	0	2	0	1	0	1	4	4	3	4	6	3	1	1	6	3	0	0	rs149871856		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:2333210C>T	uc002cpy.1	-	26	4724	c.4012G>A	c.(4012-4014)GCC>ACC	p.A1338T	ABCA3_uc010bsk.1_Missense_Mutation_p.A1280T	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1338					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				CTCCGGAGGGCGCAGAGGATG	0.657													3	11					0	0	0.000602	0	0		T	2333210	T	T	2333210	3	4	8	1	0	0	0	0	1	0	0	0	33	768	27	1	1134	1	ABCA3	16	2333210	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	50634	2333210	88021543	1093	7902											
PRSS27	83886	broad.mit.edu	37	chr16	2764112	2764112	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacccagcagttcatgccCgtctcaaagatcaccgaggg	10	7	11	13	2	3	2	3	1	1	1	4	3	3	2	3	1	2	2	3	1	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:2764112C>T	uc002crf.2	-	4	853	c.462G>A	c.(460-462)ACG>ACA	p.T154T	PRSS27_uc002cre.2_Silent_p.T118T|PRSS27_uc002crg.2_Silent_p.T52T|PRSS27_uc010bst.1_Silent_p.T52T	NM_031948	NP_114154	Q9BQR3	PRS27_HUMAN	marapsin precursor	154	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1						AGTTCATGCCCGTCTCAAAGA	0.622													11	33					0	0	0.008871	0	0		T	2764112	T	T	2764112	2	4	8	1	0	0	0	0	0	0	0	1	12643	639	23	1		1	PRSS27	16	2764112	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	430902	2764112	87590641	1094	7903											
SRRM2	23524	broad.mit.edu	37	chr16	2812472	2812472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggagaagtggcaggtcacGctctagaaccccagctagac	12	5	12	12	1	2	3	1	0	1	3	2	4	2	3	2	3	2	3	2	3	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:2812472G>A	uc002crk.2	+	11	2492	c.1943G>A	c.(1942-1944)CGC>CAC	p.R648H	SRRM2_uc002crj.1_Missense_Mutation_p.R552H|SRRM2_uc002crl.1_Missense_Mutation_p.R648H|SRRM2_uc010bsu.1_Missense_Mutation_p.R552H	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	648	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GGCAGGTCACGCTCTAGAACC	0.607													12	39					0	0	0.003163	0	0		A	2812472	A	A	2812472	3	1	8	1	0	0	0	0	1	0	0	0	15194	1087	38	1	1981	1	SRRM2	16	2812472	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	48360	2812472	87542281	1095	7904											
C16orf90	646174	broad.mit.edu	37	chr16	3544554	3544554	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggctgtccctgggcaatcGggcttccagaagggctgaac	8	7	14	12	1	0	2	0	1	0	1	3	2	2	2	2	4	1	4	2	4	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:3544554G>A	uc002cvi.2	-	2	370	c.370C>T	c.(370-372)CGA>TGA	p.R124*		NM_001080524	NP_001073993	A8MZG2	CP090_HUMAN	hypothetical protein LOC646174	114											0						CTGGGCAATCGGGCTTCCAGA	0.672													8	10					0	0	0.013537	0	0		A	3544554	A	A	3544554	4	1	8	1	0	0	0	0	0	1	0	0	1846	1124	39	1	186	1	C16orf90	16	3544554	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	732082	3544554	86810199	1096	7905											
BTBD12	84464	broad.mit.edu	37	chr16	3632513	3632513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctctgcctgcagctcccGcagctcaaagggctggtaca	8	7	11	15	1	2	0	1	0	1	0	3	0	3	0	2	2	6	7	2	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:3632513G>A	uc002cvp.2	-	15	5962	c.5335C>T	c.(5335-5337)CGG>TGG	p.R1779W		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1779	Interaction with PLK1 and TERF2-TERF2IP.|Interaction with SLX1.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TGCAGCTCCCGCAGCTCAAAG	0.647								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				9	55					0	0	0.010729	0	0		A	3632513	A	A	3632513	3	1	8	1	0	0	0	0	1	0	0	0	1543	1086	38	1	173	1	BTBD12	16	3632513	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	87959	3632513	86722240	1097	7906											
CREBBP	1387	broad.mit.edu	37	chr16	3900561	3900561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgggtctggttaaagttagCattcatgcagataccaggtc	10	12	12	7	0	2	1	1	0	1	1	3	1	2	1	1	3	3	4	1	3	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:3900561C>T	uc002cvv.2	-	2	739	c.535G>A	c.(535-537)GCT>ACT	p.A179T	CREBBP_uc002cvw.2_Missense_Mutation_p.A179T	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	179					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TTAAAGTTAGCATTCATGCAG	0.532			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				10	40					0	0	0.008291	0	0		T	3900561	T	T	3900561	3	4	8	1	0	0	0	0	1	0	0	0	3864	710	25	2	6913	2	CREBBP	16	3900561	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	268048	3900561	86454192	1098	7907											
ADCY9	115	broad.mit.edu	37	chr16	4016953	4016953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcaccgaactattgcacGggttcctctcggaactggag	8	8	13	12	4	1	0	0	0	1	0	3	3	2	2	2	4	3	3	2	4	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:4016953G>A	uc002cvx.2	-	11	3424	c.2885C>T	c.(2884-2886)CCG>CTG	p.P962L		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	962	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						ACTATTGCACGGGTTCCTCTC	0.597													5	28					0	0	0.000602	0	0		A	4016953	A	A	4016953	3	1	8	1	0	0	0	0	1	0	0	0	301	1116	39	1	1180	1	ADCY9	16	4016953	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	116392	4016953	86337800	1099	7908											
VASN	114990	broad.mit.edu	37	chr16	4432050	4432050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggccactgaggcccccaGcccgccctccactgccccac	5	3	9	24	2	0	1	0	1	0	0	1	1	1	1	9	2	2	0	9	2	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:4432050G>A	uc002cwj.1	+	2	1327	c.1172G>A	c.(1171-1173)AGC>AAC	p.S391N	CORO7_uc002cwe.2_Intron|CORO7_uc002cwf.2_Intron|CORO7_uc002cwg.3_Intron|CORO7_uc002cwh.3_Intron|CORO7_uc010uxh.1_Intron|CORO7_uc010uxi.1_Intron|CORO7_uc002cwi.1_Intron|CORO7_uc010uxj.1_Intron|CORO7_uc010btp.1_Intron	NM_138440	NP_612449	Q6EMK4	VASN_HUMAN	slit-like 2 precursor	391	Extracellular (Potential).					extracellular region|integral to membrane					0						GAGGCCCCCAGCCCGCCCTCC	0.697													5	5					0	0	0.001168	0	0		A	4432050	A	A	4432050	3	1	8	1	0	0	0	0	1	0	0	0	17153	971	34	2	1174	2	VASN	16	4432050	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	415097	4432050	85922703	1100	7909											
GRIN2A	2903	broad.mit.edu	37	chr16	9857426	9857426	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggacactaaacaggctgccGtaaaaatttccctccagaag	14	7	9	11	1	0	1	0	0	0	1	2	2	2	2	3	2	2	2	3	2	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:9857426G>A	uc002czo.3	-	13	4523	c.3975C>T	c.(3973-3975)TAC>TAT	p.Y1325Y	GRIN2A_uc010uym.1_Silent_p.Y1325Y|GRIN2A_uc010uyn.1_Intron|GRIN2A_uc002czr.3_Intron	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1325	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ACAGGCTGCCGTAAAAATTTC	0.527													9	64					0	0	0.013537	0	0		A	9857426	A	A	9857426	2	1	8	1	0	0	0	0	0	0	0	1	6795	1140	40	1		1	GRIN2A	16	9857426	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	5425376	9857426	80497327	1101	7910											
TEKT5	146279	broad.mit.edu	37	chr16	10788514	10788514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcaggatggtgggcggccGcagggtactggtgctctcgt	4	8	20	9	3	1	0	0	0	1	0	2	1	1	1	1	7	2	4	1	7	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:10788514G>A	uc002czz.1	-	1	289	c.217C>T	c.(217-219)CGG>TGG	p.R73W		NM_144674	NP_653275	Q96M29	TEKT5_HUMAN	tektin 5	73					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2						GTGGGCGGCCGCAGGGTACTG	0.637													7	47					0	0	0.001984	0	0		A	10788514	A	A	10788514	3	1	8	1	0	0	0	0	1	0	0	0	15781	1086	38	1	1268	1	TEKT5	16	10788514	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	931088	10788514	79566239	1102	7911											
CIITA	4261	broad.mit.edu	37	chr16	11000846	11000846	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgttctgctcatcctagaCggcttcgaggagctggaagc	7	9	13	12	4	2	1	1	0	1	1	4	4	3	3	1	3	3	4	1	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:11000846C>T	uc002dai.3	+	11	1630	c.1497C>T	c.(1495-1497)GAC>GAT	p.D499D	CIITA_uc002daj.3_Silent_p.D500D|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Silent_p.D499D|CIITA_uc002dah.2_Silent_p.D451D|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	499	NACHT.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						TCATCCTAGACGGCTTCGAGG	0.647			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								10	53					0	0	0.013537	0	0		T	11000846	T	T	11000846	2	4	8	1	0	0	0	0	0	0	0	1	3431	535	19	1		1	CIITA	16	11000846	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	212332	11000846	79353907	1103	7912											
PDXDC1	23042	broad.mit.edu	37	chr16	15112747	15112747	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccacagacaaactccgtgcCctgcctctgtggttatcttt	7	12	7	15	1	2	1	0	0	2	1	3	1	3	1	4	1	3	1	4	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:15112747C>T	uc002dda.3	+	12	1238	c.1014C>T	c.(1012-1014)GCC>GCT	p.A338A	PDXDC1_uc010uzl.1_Silent_p.A323A|PDXDC1_uc010uzm.1_Silent_p.A247A|PDXDC1_uc002dcz.2_Silent_p.A315A|PDXDC1_uc002ddb.3_Silent_p.A311A|PDXDC1_uc010uzn.1_Silent_p.A310A|PDXDC1_uc002ddc.2_Silent_p.A338A	NM_015027	NP_055842	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain	338					carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	AACTCCGTGCCCTGCCTCTGT	0.408													4	103					0	0	0.006214	0	0		T	15112747	T	T	15112747	2	4	8	1	0	0	0	0	0	0	0	1	11715	610	22	4		4	PDXDC1	16	15112747	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4111901	15112747	75242006	1104	7913											
TMC5	79838	broad.mit.edu	37	chr16	19451526	19451526	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccaggagcaatccatacTctgtagcctccagaacacgt	12	7	8	14	1	1	1	0	0	1	1	3	2	3	2	4	1	4	3	4	1	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:19451526T>G	uc002dgc.3	+	3	915	c.166T>G	c.(166-168)TCT>GCT	p.S56A	TMC5_uc010vaq.1_Missense_Mutation_p.S56A|TMC5_uc002dgb.3_Missense_Mutation_p.S56A|TMC5_uc010var.1_Missense_Mutation_p.S56A	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	56	Extracellular (Potential).					integral to membrane				skin(1)	1						CAATCCATACTCTGTAGCCTC	0.488													22	74					0	0	0.004656	0	0		G	19451526	G	G	19451526	3	3	8	1	0	0	0	0	1	0	0	0	16013	1551	54	5	168	5	TMC5	16	19451526	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	4338779	19451526	70903227	1105	7914											
TMC5	79838	broad.mit.edu	37	chr16	19498632	19498632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccggggtcttgtgcaccctgGccatcaccatctggaggtag	6	9	13	13	1	3	0	1	0	2	0	3	1	3	1	4	5	1	2	4	5	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:19498632G>A	uc002dgc.3	+	17	3306	c.2557G>A	c.(2557-2559)GCC>ACC	p.A853T	TMC5_uc010vaq.1_Missense_Mutation_p.A801T|TMC5_uc002dgb.3_Missense_Mutation_p.A853T|TMC5_uc010var.1_Missense_Mutation_p.A853T|TMC5_uc002dgd.1_Missense_Mutation_p.A607T|TMC5_uc002dge.3_Missense_Mutation_p.A607T|TMC5_uc002dgf.3_Missense_Mutation_p.A536T|TMC5_uc002dgg.3_Missense_Mutation_p.A494T	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	853	Helical; (Potential).					integral to membrane				skin(1)	1						GTGCACCCTGGCCATCACCAT	0.468													9	25					0	0	0.006214	0	0		A	19498632	A	A	19498632	3	1	8	1	0	0	0	0	1	0	0	0	16013	1203	42	2	2929	2	TMC5	16	19498632	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	47106	19498632	70856121	1106	7915											
GPR139	124274	broad.mit.edu	37	chr16	20043576	20043576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggatccagatgaggacGtgatgcacagaggtgctgat	11	8	15	7	1	0	5	0	3	0	2	1	7	1	7	1	3	2	2	1	3	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:20043576G>A	uc002dgu.1	-	2	705	c.543C>T	c.(541-543)CAC>CAT	p.H181H	GPR139_uc010vaw.1_Silent_p.H88H	NM_001002911	NP_001002911	Q6DWJ6	GP139_HUMAN	G protein-coupled receptor 139	181	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)	2						AGATGAGGACGTGATGCACAG	0.493													20	49					0	0	0.010504	0	0		A	20043576	A	A	20043576	2	1	8	1	0	0	0	0	0	0	0	1	6663	1136	40	1		1	GPR139	16	20043576	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	544944	20043576	70311177	1107	7916											
OTOA	146183	broad.mit.edu	37	chr16	21739665	21739665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctcccccagggcttgggCgactgctctacacggcctca	6	8	11	16	2	3	0	1	0	2	0	4	2	3	0	3	3	2	2	3	3	1	2	rs145160241		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:21739665C>T	uc002djh.2	+	19	2121	c.2120C>T	c.(2119-2121)GCG>GTG	p.A707V	uc002diq.3_Intron|OTOA_uc010vbj.1_Missense_Mutation_p.A628V|OTOA_uc002dji.2_Missense_Mutation_p.A383V|OTOA_uc010vbk.1_Missense_Mutation_p.A355V	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	721					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		AGGGCTTGGGCGACTGCTCTA	0.597													13	41					0	0	0.013537	0	0		T	21739665	T	T	21739665	3	4	8	1	0	0	0	0	1	0	0	0	11321	768	27	1	2240	1	OTOA	16	21739665	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1696089	21739665	68615088	1108	7917											
VWA3A	146177	broad.mit.edu	37	chr16	22163922	22163922	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacactctccaaaattcaCagcctgctgaccaaaggctt	13	8	6	14	0	2	1	1	1	1	0	3	2	2	1	3	1	2	2	3	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:22163922C>T	uc010vbq.1	+	31	3468	c.3372C>T	c.(3370-3372)CAC>CAT	p.H1124H	VWA3A_uc010bxd.2_RNA|VWA3A_uc002dkg.3_Silent_p.H202H|VWA3A_uc010bxe.1_Silent_p.H226H	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	1124	VWFA 2.					extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		CCAAAATTCACAGCCTGCTGA	0.522													4	19					0	0	0.009096	0	0		T	22163922	T	T	22163922	2	4	8	1	0	0	0	0	0	0	0	1	17266	477	17	4		4	VWA3A	16	22163922	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	424257	22163922	68190831	1109	7918											
SCNN1B	6338	broad.mit.edu	37	chr16	23382745	23382745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagatgagggcatctacGccatgtcggggacagagacg	11	6	15	9	3	2	3	1	1	1	2	3	6	2	4	1	3	1	1	1	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:23382745G>A	uc002dln.2	+	6	1182	c.1006G>A	c.(1006-1008)GCC>ACC	p.A336T		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	336	Extracellular (By similarity).		A -> P.		excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	GGGCATCTACGCCATGTCGGG	0.627													7	15					0	0	0.006214	0	0		A	23382745	A	A	23382745	3	1	8	1	0	0	0	0	1	0	0	0	13953	1087	38	1	1024	1	SCNN1B	16	23382745	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1218823	23382745	66972008	1110	7919											
GGA2	23062	broad.mit.edu	37	chr16	23494294	23494294	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcgccaaccggaacagcgtgGgccgcagcttttcacacctc	8	7	10	16	4	1	0	1	0	0	0	3	1	1	1	4	2	4	2	4	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:23494294G>T	uc002dlq.2	-	9	906	c.830C>A	c.(829-831)CCC>CAC	p.P277H	GGA2_uc010bxo.1_RNA	NM_015044	NP_055859	Q9UJY4	GGA2_HUMAN	ADP-ribosylation factor binding protein 2	277	GAT.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|clathrin-coated vesicle|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.0386)		GAACAGCGTGGGCCGCAGCTT	0.577													8	37					1.06961e-07	1.16628e-07	0.00308	1	0		T	23494294	T	T	23494294	3	4	8	1	0	0	0	0	1	0	0	0	6368	1232	43	5	1047	5	GGA2	16	23494294	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	111549	23494294	66860459	1111	7920											
ARHGAP17	55114	broad.mit.edu	37	chr16	24946893	24946893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggctgattttggccagatgCtatctgactgttgtttctcc	5	16	11	9	0	2	3	0	2	2	1	3	3	2	3	2	2	1	4	2	2	1	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:24946893C>T	uc002dnb.2	-	18	1885	c.1792G>A	c.(1792-1794)GCA>ACA	p.A598T	ARHGAP17_uc002dmy.2_Missense_Mutation_p.A43T|ARHGAP17_uc002dmz.2_Missense_Mutation_p.A122T|ARHGAP17_uc002dna.2_Missense_Mutation_p.A325T|ARHGAP17_uc002dnc.2_Missense_Mutation_p.A520T|ARHGAP17_uc010vcf.1_Missense_Mutation_p.A341T	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	598	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		TGGCCAGATGCTATCTGACTG	0.572													5	33					0	0	0.001984	0	0		T	24946893	T	T	24946893	3	4	8	1	0	0	0	0	1	0	0	0	867	797	28	2	865	2	ARHGAP17	16	24946893	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1452599	24946893	65407860	1112	7921											
GTF3C1	2975	broad.mit.edu	37	chr16	27481632	27481632	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaagagaaacgatcaggctgGtccaacttgccggcagcccg	12	5	12	12	3	1	1	1	0	0	1	2	3	2	1	3	3	4	2	3	3	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:27481632G>A	uc002dov.1	-	31	4651	c.4611C>T	c.(4609-4611)GAC>GAT	p.D1537D	GTF3C1_uc002dou.2_Silent_p.D1537D	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1537						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						GATCAGGCTGGTCCAACTTGC	0.502													29	126					0	0	0.003755	0	0		A	27481632	A	A	27481632	2	1	8	1	0	0	0	0	0	0	0	1	6888	1252	44	4		4	GTF3C1	16	27481632	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2534739	27481632	62873121	1113	7922											
KIAA0556	23247	broad.mit.edu	37	chr16	27585252	27585252	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgaaaggccgagagaagctGgtcctgctcacgagagaaaa	14	4	14	9	3	1	2	1	0	0	2	2	7	2	2	2	2	2	2	2	2	4	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:27585252G>A	uc002dow.2	+	2	62	c.38G>A	c.(37-39)TGG>TAG	p.W13*		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	13										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						GAGAGAAGCTGGTCCTGCTCA	0.488													9	46					0	0	0.006214	0	0		A	27585252	A	A	27585252	4	1	8	1	0	0	0	0	0	1	0	0	8199	1357	47	4	44	4	KIAA0556	16	27585252	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	103620	27585252	62769501	1114	7923											
CORO1A	11151	broad.mit.edu	37	chr16	30199821	30199821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacgtacccccaaagagccGggagctgagggtcaaccggg	10	4	14	13	3	1	2	1	1	0	1	1	3	1	3	4	3	5	2	4	3	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:30199821G>A	uc002dww.2	+	10	1327	c.1205G>A	c.(1204-1206)CGG>CAG	p.R402Q	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|CORO1A_uc010bzq.2_Missense_Mutation_p.R402Q|CORO1A_uc010bzr.2_Intron|CORO1A_uc002dwx.2_Missense_Mutation_p.R296Q|CORO1A_uc002dwy.1_3'UTR|LOC606724_uc002dwz.1_5'Flank	NM_007074	NP_009005	P31146	COR1A_HUMAN	coronin, actin binding protein, 1A	402					cell-substrate adhesion|innate immune response|leukocyte chemotaxis|negative regulation of actin nucleation|phagolysosome assembly|positive chemotaxis|regulation of cell shape|uropod organization	actin filament|cortical actin cytoskeleton|lamellipodium|phagocytic cup|phagocytic vesicle membrane	actin filament binding|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein homodimerization activity				0						CCAAAGAGCCGGGAGCTGAGG	0.701													5	12					0	0	0.000602	0	0		A	30199821	A	A	30199821	3	1	8	1	0	0	0	0	1	0	0	0	3756	1116	39	1	1239	1	CORO1A	16	30199821	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2614569	30199821	60154932	1115	7924											
PRSS36	146547	broad.mit.edu	37	chr16	31154679	31154679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactccagaaagcagctggCaggtgccaagacccagcttt	11	7	10	13	0	1	2	1	0	0	2	2	2	2	2	3	2	4	4	3	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:31154679C>T	uc002ebd.2	-	8	1143	c.1084G>A	c.(1084-1086)GCC>ACC	p.A362T	PRSS36_uc010vff.1_Missense_Mutation_p.A137T|PRSS36_uc010vfg.1_Missense_Mutation_p.A362T|PRSS36_uc010vfh.1_Missense_Mutation_p.A362T	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	362	Peptidase S1 2.				proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						AAGCAGCTGGCAGGTGCCAAG	0.637													4	29					0	0	0.001168	0	0		T	31154679	T	T	31154679	3	4	8	1	0	0	0	0	1	0	0	0	12647	710	25	2	1515	2	PRSS36	16	31154679	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	954858	31154679	59200074	1116	7925											
ITGAX	3687	broad.mit.edu	37	chr16	31371370	31371370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttacatacacggccaccGccatccaaaatgtcgtgtga	11	9	9	12	3	0	1	0	1	0	0	2	1	1	1	4	2	2	1	4	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:31371370G>A	uc002ebu.1	+	7	758	c.691G>A	c.(691-693)GCC>ACC	p.A231T	ITGAX_uc002ebt.2_Missense_Mutation_p.A231T|ITGAX_uc010vfk.1_5'Flank	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	231	VWFA.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CACGGCCACCGCCATCCAAAA	0.517													11	61					0	0	0.001855	0	0		A	31371370	A	A	31371370	3	1	8	1	0	0	0	0	1	0	0	0	7905	1087	38	1	717	1	ITGAX	16	31371370	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	216691	31371370	58983383	1117	7926											
ABCC12	94160	broad.mit.edu	37	chr16	48155695	48155695	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatgaaagatccatgcctgCtgtgaaacgtaggccaaagt	13	8	10	10	1	0	3	0	2	0	1	1	3	1	3	4	1	3	2	4	1	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:48155695C>T	uc002efc.1	-	11	1990	c.1644G>A	c.(1642-1644)CAG>CAA	p.Q548Q	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Silent_p.Q548Q	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	548	ABC transporter 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TCCATGCCTGCTGTGAAACGT	0.448													13	44					0	0	0.001855	0	0		T	48155695	T	T	48155695	2	4	8	1	0	0	0	0	0	0	0	1	52	796	28	2		2	ABCC12	16	48155695	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	16784325	48155695	42199058	1118	7927											
TOX3	27324	broad.mit.edu	37	chr16	52473718	52473718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catggttaagggtttgggagCgattgacctagggagggatt	9	11	17	4	1	0	1	0	1	0	0	0	5	0	4	1	5	1	2	1	5	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:52473718C>T	uc002egw.2	-	7	1321	c.1150G>A	c.(1150-1152)GCT>ACT	p.A384T	TOX3_uc010vgt.1_Missense_Mutation_p.A379T|TOX3_uc010vgu.1_Missense_Mutation_p.A384T	NM_001080430	NP_001073899	O15405	TOX3_HUMAN	TOX high mobility group box family member 3	384					apoptosis|negative regulation of neuron apoptosis|positive regulation of anti-apoptosis|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|estrogen response element binding|phosphoprotein binding|protein homodimerization activity				0						GGTTTGGGAGCGATTGACCTA	0.502													43	163					0	0	0.01441	0	0		T	52473718	T	T	52473718	3	4	8	1	0	0	0	0	1	0	0	0	16405	768	27	1	584	1	TOX3	16	52473718	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4318023	52473718	37881035	1119	7928											
IRX3	79191	broad.mit.edu	37	chr16	54317634	54317634	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgataagaccagggcggcGtccagatggttctggggcct	7	7	16	11	3	1	2	0	0	1	2	2	3	2	2	4	5	0	1	4	5	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:54317634G>A	uc002eht.1	-	4	1886	c.1470C>T	c.(1468-1470)GAC>GAT	p.D490D		NM_024336	NP_077312	P78415	IRX3_HUMAN	iroquois homeobox 3	490					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CCAGGGCGGCGTCCAGATGGT	0.433													4	13					0	0	0.009096	0	0		A	54317634	A	A	54317634	2	1	8	1	0	0	0	0	0	0	0	1	7861	1136	40	1		1	IRX3	16	54317634	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1843916	54317634	36037119	1120	7929											
MMP2	4313	broad.mit.edu	37	chr16	55518003	55518003	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgccttccaagtctggagCgatgtgaccccactgcggtt	6	10	12	13	3	1	1	0	1	1	0	2	3	2	2	4	2	3	1	4	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:55518003C>T	uc002ehz.3	+	3	767	c.456C>T	c.(454-456)AGC>AGT	p.S152S	MMP2_uc010vhd.1_Silent_p.S76S|MMP2_uc010ccc.2_Silent_p.S102S	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	152	Collagenase-like 1.				angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	AAGTCTGGAGCGATGTGACCC	0.532													19	42					0	0	0.007413	0	0		T	55518003	T	T	55518003	2	4	8	1	0	0	0	0	0	0	0	1	9676	767	27	1		1	MMP2	16	55518003	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1200369	55518003	34836750	1121	7930											
CDH11	1009	broad.mit.edu	37	chr16	64984769	64984769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcaggagagcagtgcccCgttcacgtcgcacccgcaga	8	6	13	14	4	1	2	1	0	0	2	2	3	1	2	3	1	3	6	3	1	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:64984769C>T	uc002eoi.2	-	12	2229	c.1795G>A	c.(1795-1797)GGG>AGG	p.G599R	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Missense_Mutation_p.G599R|CDH11_uc010vin.1_Missense_Mutation_p.G473R	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	599	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		AGCAGTGCCCCGTTCACGTCG	0.612			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			10	34					0	0	0.008291	0	0		T	64984769	T	T	64984769	3	4	8	1	0	0	0	0	1	0	0	0	3100	652	23	1	603	1	CDH11	16	64984769	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	9466766	64984769	25369984	1122	7931											
CDH16	1014	broad.mit.edu	37	chr16	66947046	66947046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagctcacctggtggactgaGctcagggatgctgactgtgg	7	10	15	9	0	2	2	2	2	0	0	2	4	2	4	1	4	3	3	1	4	1	1	rs79541908		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:66947046G>A	uc002eql.2	-	9	1115	c.1042C>T	c.(1042-1044)CTC>TTC	p.L348F	CDH16_uc010cdy.2_Missense_Mutation_p.L348F|CDH16_uc002eqm.2_Missense_Mutation_p.L251F	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	348	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		GGTGGACTGAGCTCAGGGATG	0.592													24	116					0	0	0.00632	0	0		A	66947046	A	A	66947046	3	1	8	1	0	0	0	0	1	0	0	0	3104	971	34	2	1487	2	CDH16	16	66947046	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1962277	66947046	23407707	1123	7932											
AGRP	181	broad.mit.edu	37	chr16	67516943	67516943	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacctctgccaaggcctgAgcctcctgcaacagatcctc	8	9	8	16	0	1	2	0	1	1	1	4	2	3	2	6	1	5	2	6	1	3	1	rs77812484		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:67516943A>C	uc002etg.1	-	3	501	c.201T>G	c.(199-201)GCT>GCG	p.A67A	ATP6V0D1_uc002ete.1_5'Flank|ATP6V0D1_uc010vjo.1_5'Flank	NM_001138	NP_001129	O00253	AGRP_HUMAN	agouti related protein homolog isoform 1	67					hormone-mediated signaling pathway|neuropeptide signaling pathway|regulation of feeding behavior	extracellular space|Golgi lumen	neuropeptide hormone activity				0		Acute lymphoblastic leukemia(13;0.00263)|all_hematologic(13;0.0274)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0717)|Epithelial(162;0.16)		CCAAGGCCTGAGCCTCCTGCA	0.607													22	80					0	0	0.004656	0	0		C	67516943	C	C	67516943	2	2	8	1	0	0	0	0	0	0	0	1	398	291	11	5		5	AGRP	16	67516943	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	569897	67516943	22837810	1124	7933											
ACD	65057	broad.mit.edu	37	chr16	67691889	67691889	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcagaggggctatgctcacCcagacagagcagggctcctg	9	6	14	12	0	1	3	1	0	0	3	2	3	2	3	2	3	3	5	2	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:67691889C>A	uc002etq.3	-	10	1801	c.1464G>T	c.(1462-1464)TGG>TGT	p.W488C	ACD_uc002etp.3_Missense_Mutation_p.W485C|ACD_uc002etr.3_Missense_Mutation_p.W485C|ACD_uc010vjt.1_3'UTR|PARD6A_uc002ets.2_5'Flank|PARD6A_uc002ett.2_5'Flank	NM_001082486	NP_001075955	Q96AP0	ACD_HUMAN	adrenocortical dysplasia homolog isoform 1	488					intracellular protein transport|negative regulation of telomere maintenance via telomerase|positive regulation of single-stranded telomeric DNA binding|positive regulation of telomerase activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|telomere assembly	nuclear telomere cap complex|nucleoplasm	DNA binding|DNA polymerase binding			pancreas(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		CTATGCTCACCCAGACAGAGC	0.612													7	32					0.00307968	0.00322789	0.00308	1	0		A	67691889	A	A	67691889	3	1	8	1	0	0	0	0	1	0	0	0	135	637	22	5	182	5	ACD	16	67691889	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	174946	67691889	22662864	1125	7934											
TSNAXIP1	55815	broad.mit.edu	37	chr16	67860079	67860079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggctgggggcccagagcGctggcagatgctggctgagg	5	6	21	9	1	0	3	0	1	0	2	0	3	0	3	1	7	2	5	1	7	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:67860079G>A	uc002euj.2	+	10	1401	c.1007G>A	c.(1006-1008)CGC>CAC	p.R336H	TSNAXIP1_uc010cep.2_3'UTR|TSNAXIP1_uc010vjz.1_Missense_Mutation_p.R213H|TSNAXIP1_uc002euf.3_Missense_Mutation_p.R69H|TSNAXIP1_uc010vka.1_Missense_Mutation_p.R390H|TSNAXIP1_uc010vkb.1_Missense_Mutation_p.R321H|TSNAXIP1_uc002eug.3_Missense_Mutation_p.R44H|TSNAXIP1_uc002euh.3_Missense_Mutation_p.R44H|TSNAXIP1_uc002eui.3_Missense_Mutation_p.R44H|TSNAXIP1_uc002euk.2_Missense_Mutation_p.R69H	NM_018430	NP_060900	Q2TAA8	TXIP1_HUMAN	translin-associated factor X interacting protein	336					cell differentiation|multicellular organismal development|spermatogenesis	perinuclear region of cytoplasm					0		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00432)|Epithelial(162;0.0192)|all cancers(182;0.125)		GGCCCAGAGCGCTGGCAGATG	0.647													4	7					0	0	0.001984	0	0		A	67860079	A	A	67860079	3	1	8	1	0	0	0	0	1	0	0	0	16658	1087	38	1	1037	1	TSNAXIP1	16	67860079	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	168190	67860079	22494674	1126	7935											
DPEP2	64174	broad.mit.edu	37	chr16	68026860	68026860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaattacgcacccgtccaCgagcgggaagtcccgcatca	11	5	10	15	5	1	0	1	0	0	0	3	2	3	1	3	1	3	3	3	1	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:68026860C>T	uc010cey.2	-	1	420	c.256G>A	c.(256-258)GTG>ATG	p.V86M	DPEP2_uc002evd.3_Missense_Mutation_p.V86M|DPEP2_uc002eve.2_Missense_Mutation_p.V86M|DPEP2_uc002evf.2_RNA|DPEP2_uc002evg.2_Missense_Mutation_p.V86M	NM_022355	NP_071750	Q9H4A9	DPEP2_HUMAN	dipeptidase 2 precursor	86					hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|proteolysis	anchored to membrane|plasma membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0489)|all cancers(182;0.239)		CACCCGTCCACGAGCGGGAAG	0.662													4	6					0	0	0.009096	0	0		T	68026860	T	T	68026860	3	4	8	1	0	0	0	0	1	0	0	0	4720	536	19	1	1244	1	DPEP2	16	68026860	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	166781	68026860	22327893	1127	7936											
HAS3	3038	broad.mit.edu	37	chr16	69143549	69143549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgccctccccgcggcGgggctcggtggcactgtgca	4	6	16	15	4	0	0	0	0	0	0	2	1	1	0	3	5	3	4	3	5	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:69143549G>A	uc010cfh.2	+	2	475	c.251G>A	c.(250-252)CGG>CAG	p.R84Q	HAS3_uc002ewk.2_Missense_Mutation_p.R84Q|HAS3_uc010vlk.1_Missense_Mutation_p.R84Q|HAS3_uc002ewl.2_Missense_Mutation_p.R84Q	NM_005329	NP_005320	O00219	HAS3_HUMAN	hyaluronan synthase 3 isoform a	84	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to plasma membrane	hyaluronan synthase activity				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.0694)		TCCCCGCGGCGGGGCTCGGTG	0.662													3	17					0	0	0.009096	0	0		A	69143549	A	A	69143549	3	1	8	1	0	0	0	0	1	0	0	0	6979	1116	39	1	253	1	HAS3	16	69143549	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1116689	69143549	21211204	1128	7937											
WWP2	11060	broad.mit.edu	37	chr16	69964118	69964118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actttgtggaccacaataccCgcaccaccacctttaaggat	12	9	6	14	1	0	0	0	0	0	0	0	2	0	2	5	2	1	1	5	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:69964118C>T	uc002exu.1	+	14	1491	c.1402C>T	c.(1402-1404)CGC>TGC	p.R468C	WWP2_uc002exv.1_Missense_Mutation_p.R468C|WWP2_uc010vlm.1_Missense_Mutation_p.R352C|WWP2_uc010vln.1_Missense_Mutation_p.R86C|WWP2_uc002exw.1_Missense_Mutation_p.R29C|uc002exx.1_5'Flank|MIR140_hsa-mir-140|MI0000456_5'Flank	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	468	WW 4.				entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						CCACAATACCCGCACCACCAC	0.582											OREG0023910	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	32					0	0	0.001855	0	0		T	69964118	T	T	69964118	3	4	8	1	0	0	0	0	1	0	0	0	17442	652	23	1	1452	1	WWP2	16	69964118	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	820569	69964118	20390635	1129	7938											
COG4	25839	broad.mit.edu	37	chr16	70557297	70557297	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcgccgcagagccgttcGtatacagcctccagctcctg	6	9	9	17	4	0	1	0	0	0	1	5	1	3	1	6	0	4	4	6	0	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:70557297G>A	uc002ezc.2	-	1	161	c.150C>T	c.(148-150)TAC>TAT	p.Y50Y	COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Silent_p.Y50Y|COG4_uc002eze.2_Translation_Start_Site|SF3B3_uc002ezf.2_5'Flank	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	46	Interacts with SCFD1.				Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)				AGAGCCGTTCGTATACAGCCT	0.627													5	24					0	0	0.001984	0	0		A	70557297	A	A	70557297	2	1	8	1	0	0	0	0	0	0	0	1	3663	1140	40	1		1	COG4	16	70557297	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	593179	70557297	19797456	1130	7939											
ZFHX3	463	broad.mit.edu	37	chr16	72828552	72828552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtttcttcaagcccacctCgtgtgcaatgtgatccaaca	10	11	7	13	2	2	1	1	1	1	0	4	1	3	1	3	0	3	2	3	0	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:72828552C>T	uc002fck.2	-	9	8702	c.8029G>A	c.(8029-8031)GAG>AAG	p.E2677K	ZFHX3_uc002fcl.2_Missense_Mutation_p.E1763K	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2677	Homeobox 3.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				AAGCCCACCTCGTGTGCAATG	0.502													31	178					0	0	0.004289	0	0		T	72828552	T	T	72828552	3	4	8	1	0	0	0	0	1	0	0	0	17659	893	31	1	3090	1	ZFHX3	16	72828552	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2271255	72828552	17526201	1131	7940											
GLG1	2734	broad.mit.edu	37	chr16	74496466	74496466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggccttagtcaggatacCgtgacagaatttaggaatgt	11	12	11	7	1	1	2	1	1	0	1	1	4	1	4	2	3	1	0	2	3	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:74496466C>T	uc002fcy.3	-	21	2904	c.2854G>A	c.(2854-2856)GGT>AGT	p.G952S	GLG1_uc002fcx.2_Missense_Mutation_p.G952S|GLG1_uc002fcw.3_Missense_Mutation_p.G941S|GLG1_uc002fcz.3_Missense_Mutation_p.G369S	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	952	Cys-rich GLG1 14.|Extracellular (Potential).					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						GTCAGGATACCGTGACAGAAT	0.443													20	58					0	0	0.008871	0	0		T	74496466	T	T	74496466	3	4	8	1	0	0	0	0	1	0	0	0	6451	652	23	1	789	1	GLG1	16	74496466	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1667914	74496466	15858287	1132	7941											
MLKL	197259	broad.mit.edu	37	chr16	74729299	74729299	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgaaacaggcatgcgttgCtcaacctgaagtaacagcga	13	7	12	9	2	1	2	1	2	0	0	1	3	1	2	1	2	6	4	1	2	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:74729299C>T	uc002fdb.2	-	2	798	c.357G>A	c.(355-357)GAG>GAA	p.E119E	MLKL_uc002fdc.2_Silent_p.E119E	NM_152649	NP_689862	Q8NB16	MLKL_HUMAN	mixed lineage kinase domain-like isoform 1	119							ATP binding|protein binding|protein kinase activity			stomach(2)	2						GCATGCGTTGCTCAACCTGAA	0.512													16	80					0	0	0.00499	0	0		T	74729299	T	T	74729299	2	4	8	1	0	0	0	0	0	0	0	1	9637	796	28	2		2	MLKL	16	74729299	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	232833	74729299	15625454	1133	7942											
CNTNAP4	85445	broad.mit.edu	37	chr16	76587778	76587778	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccccttgctaatgcaaTcaaaagtgactctgcagtaa	14	9	8	10	0	2	2	1	1	1	1	2	2	2	2	2	0	4	4	2	0	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:76587778T>C	uc002feu.1	+	25	4092	c.3707T>C	c.(3706-3708)ATC>ACC	p.I1236T	CNTNAP4_uc002fev.1_Missense_Mutation_p.I1100T|CNTNAP4_uc010chb.1_Missense_Mutation_p.I1163T|CNTNAP4_uc002fex.1_Missense_Mutation_p.I1239T	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	1236	Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						GCTAATGCAATCAAAAGTGAC	0.363													8	35					0	0	0.006214	0	0		C	76587778	C	C	76587778	3	2	8	1	0	0	0	0	1	0	0	0	3652	1435	50	3	3810	3	CNTNAP4	16	76587778	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1858479	76587778	13766975	1134	7943											
ADAMTS18	170692	broad.mit.edu	37	chr16	77356319	77356319	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccggacattgcaaaaaaaaAttcaaagttctcagccttgc	15	9	7	10	1	2	0	2	0	1	0	3	1	2	1	2	1	3	2	2	1	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:77356319A>T	uc002ffc.3	-	14	2496	c.2077T>A	c.(2077-2079)TTT>ATT	p.F693I	ADAMTS18_uc010chc.1_Missense_Mutation_p.F281I|ADAMTS18_uc002ffe.1_Missense_Mutation_p.F389I	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	693	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						GCAAAAAAAAATTCAAAGTTC	0.388													15	90					0	0	0.004007	0	0		T	77356319	T	T	77356319	3	4	8	1	0	0	0	0	1	0	0	0	263	101	4	5	1628	5	ADAMTS18	16	77356319	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	768541	77356319	12998434	1135	7944											
BCMO1	53630	broad.mit.edu	37	chr16	81320986	81320986	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacccctgtttgtgcccgcGccaggtgccaaggatgagga	8	7	14	12	2	0	1	0	1	0	0	0	4	0	3	5	3	3	1	5	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:81320986G>A	uc002fgn.1	+	10	1607	c.1389G>A	c.(1387-1389)GCG>GCA	p.A463A	BCMO1_uc010vnp.1_Silent_p.A394A	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	463					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						TTGTGCCCGCGCCAGGTGCCA	0.517													12	36					0	0	0.010729	0	0		A	81320986	A	A	81320986	2	1	8	1	0	0	0	0	0	0	0	1	1385	1074	38	1		1	BCMO1	16	81320986	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3964667	81320986	9033767	1136	7945											
CDH13	1012	broad.mit.edu	37	chr16	83065685	83065685	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccatacttcaaggtgaaCagcgatggcggcttagttgc	10	9	12	10	2	1	1	1	1	0	0	1	2	1	1	1	3	5	2	1	3	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:83065685C>T	uc002fgx.2	+	3	348	c.228C>T	c.(226-228)AAC>AAT	p.N76N	CDH13_uc010chh.2_Silent_p.N76N|CDH13_uc010vns.1_Silent_p.N123N|CDH13_uc010vnt.1_Intron|CDH13_uc010vnu.1_Silent_p.N76N	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	76					adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		TCAAGGTGAACAGCGATGGCG	0.512													8	27					0	0	0.006214	0	0		T	83065685	T	T	83065685	2	4	8	1	0	0	0	0	0	0	0	1	3102	477	17	4		4	CDH13	16	83065685	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1744699	83065685	7289068	1137	7946											
ZC3H18	124245	broad.mit.edu	37	chr16	88694379	88694379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaaagcggaaaagggattCgtccacacaaccacccaaat	17	4	9	11	2	0	0	0	0	0	0	2	3	1	3	3	3	2	0	3	3	6	1	rs139646372	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:88694379C>T	uc002fky.2	+	15	2521	c.2321C>T	c.(2320-2322)TCG>TTG	p.S774L	ZC3H18_uc010voz.1_Missense_Mutation_p.S798L|ZC3H18_uc010chw.2_Intron|ZC3H18_uc002fkz.2_Missense_Mutation_p.S44L	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	774						nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		AAAAGGGATTCGTCCACACAA	0.547													18	64					0	0	0.010504	0	0		T	88694379	T	T	88694379	3	4	8	1	0	0	0	0	1	0	0	0	17593	893	31	1	2375	1	ZC3H18	16	88694379	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5628694	88694379	1660374	1138	7947											
APRT	353	broad.mit.edu	37	chr16	88876887	88876887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcctggcagcttcccccGctttcggatgagcacgcagc	5	7	14	15	3	0	1	0	1	0	0	2	2	1	2	3	4	3	5	3	4	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:88876887G>A	uc002flv.2	-	3	300	c.265C>T	c.(265-267)CGG>TGG	p.R89W	APRT_uc002flw.2_Missense_Mutation_p.R89W	NM_000485	NP_000476	P07741	APT_HUMAN	adenine phosphoribosyltransferase isoform a	89					purine ribonucleoside salvage	cytosol|nucleus	adenine phosphoribosyltransferase activity|AMP binding|protein binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0477)	Adenine(DB00173)|Adenosine monophosphate(DB00131)	AGCTTCCCCCGCTTTCGGATG	0.652													4	14					0	0	0.001168	0	0		A	88876887	A	A	88876887	3	1	8	1	0	0	0	0	1	0	0	0	819	1086	38	1	289	1	APRT	16	88876887	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	182508	88876887	1477866	1139	7948											
SPG7	6687	broad.mit.edu	37	chr16	89614458	89614458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgcgctgcacgcggcgCgggagggacacacttccgtg	6	5	17	13	6	0	0	0	0	0	0	1	2	1	2	1	4	2	3	1	4	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:89614458C>T	uc002fnj.2	+	12	1621	c.1600C>T	c.(1600-1602)CGG>TGG	p.R534W	SPG7_uc002fnk.1_RNA|SPG7_uc002fnl.2_5'Flank	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1	534	Mitochondrial matrix (Potential).				cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		GCACGCGGCGCGGGAGGGACA	0.637													22	54					0	0	0.004656	0	0		T	89614458	T	T	89614458	3	4	8	1	0	0	0	0	1	0	0	0	15069	759	27	1	1796	1	SPG7	16	89614458	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	737571	89614458	740295	1140	7949											
CENPBD1	92806	broad.mit.edu	37	chr16	90038269	90038269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttgaggtcaagggtaatcGctttccgttcccttttggca	7	15	10	9	2	1	1	1	1	0	0	4	1	3	1	2	3	0	4	2	3	2	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr16:90038269G>A	uc002fpr.2	-	1	674	c.62C>T	c.(61-63)GCG>GTG	p.A21V	AFG3L1_uc002fps.1_5'Flank|AFG3L1_uc002fpt.1_5'Flank|AFG3L1_uc002fpu.1_5'Flank|AFG3L1_uc002fpv.1_5'Flank|AFG3L1_uc002fpw.1_5'Flank|AFG3L1_uc002fpx.1_5'Flank	NM_145039	NP_659476	B2RD01	CENP1_HUMAN	CENPB DNA-binding domains containing 1	21	HTH psq-type.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						AAGGGTAATCGCTTTCCGTTC	0.483													9	38					0	0	0.006214	0	0		A	90038269	A	A	90038269	3	1	8	1	0	0	0	0	1	0	0	0	3231	1087	38	1	505	1	CENPBD1	16	90038269	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	423811	90038269	316484	1141	7950											
NXN	64359	broad.mit.edu	37	chr17	725610	725610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgacctgtctgcactaaCgaagatgatctcgaagttct	11	11	9	10	2	3	3	0	2	3	1	4	6	3	3	1	0	2	2	1	0	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:725610C>T	uc002fsa.2	-	4	792	c.700G>A	c.(700-702)GTT>ATT	p.V234I	NXN_uc002fsb.1_Missense_Mutation_p.V121I|NXN_uc010vqd.1_5'UTR|NXN_uc002frz.2_5'UTR|NXN_uc010vqe.1_Missense_Mutation_p.V126I	NM_022463	NP_071908	Q6DKJ4	NXN_HUMAN	nucleoredoxin	234	Thioredoxin.				cell differentiation|cell redox homeostasis|multicellular organismal development|Wnt receptor signaling pathway	cytosol|nucleus	protein-disulfide reductase activity			ovary(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (25;0.0237)		TCTGCACTAACGAAGATGATC	0.473													11	46					0	0	0.001855	0	0		T	725610	T	T	725610	3	4	8	1	0	0	0	0	1	0	0	0	10806	536	19	1	627	1	NXN	17	725610	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08		725610	80469600	1142	7951											
SLC43A2	124935	broad.mit.edu	37	chr17	1520058	1520058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccactgtgccattggtgaCattctctgtgtgaagaggga	8	11	13	9	0	1	3	0	2	1	1	2	4	1	4	2	2	1	0	2	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:1520058C>T	uc002fsv.2	-	3	255	c.166G>A	c.(166-168)GTC>ATC	p.V56I	SLC43A2_uc002fsu.2_Missense_Mutation_p.V56I|SLC43A2_uc002fsw.2_Missense_Mutation_p.V56I|SLC43A2_uc002fsx.2_Missense_Mutation_p.V56I	NM_152346	NP_689559	Q8N370	LAT4_HUMAN	solute carrier family 43, member 2	56					cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0883)		CCATTGGTGACATTCTCTGTG	0.597													8	27					0	0	0.004482	0	0		T	1520058	T	T	1520058	3	4	8	1	0	0	0	0	1	0	0	0	14658	478	17	4	1591	4	SLC43A2	17	1520058	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	794448	1520058	79675152	1143	7952											
WDR81	124997	broad.mit.edu	37	chr17	1640830	1640830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgtccaacaagattggcGtctgctccctgcttgagcca	7	10	10	14	2	1	2	0	1	1	1	3	2	3	2	4	1	4	2	4	1	2	2	rs139156426		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:1640830G>A	uc002fti.2	+	10	2257	c.1996G>A	c.(1996-1998)GTC>ATC	p.V666I	WDR81_uc002fth.2_Missense_Mutation_p.V842I|WDR81_uc010vqp.1_Missense_Mutation_p.V690I|WDR81_uc002ftj.2_Missense_Mutation_p.V1893I|WDR81_uc010vqq.1_Missense_Mutation_p.V524I	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	666										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CAAGATTGGCGTCTGCTCCCT	0.612													8	25					0	0	0.004482	0	0		A	1640830	A	A	1640830	3	1	8	1	0	0	0	0	1	0	0	0	17356	1145	40	1	5777	1	WDR81	17	1640830	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	120772	1640830	79554380	1144	7953											
SERPINF1	5176	broad.mit.edu	37	chr17	1679914	1679914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaccttgatagaggagaGcctcacctccgagttcattc	9	12	9	11	1	2	4	2	2	0	2	4	6	3	4	4	1	1	1	4	1	1	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:1679914G>A	uc002ftl.2	+	7	1032	c.875G>A	c.(874-876)AGC>AAC	p.S292N	SERPINF1_uc010cjw.2_Missense_Mutation_p.S105N	NM_002615	NP_002606	P36955	PEDF_HUMAN	serine (or cysteine) proteinase inhibitor, clade	292					cell proliferation|negative regulation of angiogenesis|positive regulation of neurogenesis|regulation of proteolysis	extracellular space|melanosome	serine-type endopeptidase inhibitor activity			ovary(1)	1						ATAGAGGAGAGCCTCACCTCC	0.522													18	116					0	0	0.008871	0	0		A	1679914	A	A	1679914	3	1	8	1	0	0	0	0	1	0	0	0	14139	971	34	2	897	2	SERPINF1	17	1679914	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	39084	1679914	79515296	1145	7954											
ITGAE	3682	broad.mit.edu	37	chr17	3655092	3655092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgagatcccccatagccGccatggcaaagccaaagcgg	12	4	11	14	2	0	1	0	1	0	1	1	3	1	1	5	2	3	1	5	2	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:3655092G>A	uc002fwo.3	-	15	1844	c.1745C>T	c.(1744-1746)GCG>GTG	p.A582V		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	582	FG-GAP 6.|Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		CCCCATAGCCGCCATGGCAAA	0.572													14	36					0	0	0.003163	0	0		A	3655092	A	A	3655092	3	1	8	1	0	0	0	0	1	0	0	0	7901	1087	38	1	1862	1	ITGAE	17	3655092	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1975178	3655092	77540118	1146	7955											
MYBBP1A	10514	broad.mit.edu	37	chr17	4446359	4446359	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcggtgggggagtcgggcTggcggccagcctgctgcacc	3	5	21	12	3	0	0	0	0	0	0	1	1	0	1	3	7	3	3	3	7	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:4446359T>G	uc002fyb.3	-	20	2803	c.2741A>C	c.(2740-2742)CAG>CCG	p.Q914P	MYBBP1A_uc002fxz.3_Missense_Mutation_p.Q914P|MYBBP1A_uc002fya.3_5'Flank|MYBBP1A_uc010vsa.1_5'UTR	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	914					nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						GGAGTCGGGCTGGCGGCCAGC	0.682													4	21					0	0	0.001168	0	0		G	4446359	G	G	4446359	3	3	8	1	0	0	0	0	1	0	0	0	10026	1580	55	5	1313	5	MYBBP1A	17	4446359	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	791267	4446359	76748851	1147	7956											
MYBBP1A	10514	broad.mit.edu	37	chr17	4448439	4448439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcctcttcactctctgagCttctgttgtcctcaccttcc	3	17	4	17	0	6	1	2	1	4	0	10	1	8	1	4	0	1	2	4	0	0	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:4448439C>T	uc002fyb.3	-	17	2254	c.2192G>A	c.(2191-2193)AGC>AAC	p.S731N	MYBBP1A_uc002fxz.3_Missense_Mutation_p.S731N|MYBBP1A_uc002fya.3_5'Flank|MYBBP1A_uc010vsa.1_5'Flank	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	731	Glu-rich.				nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						actctcTGAGCTTCTGTTGTC	0.453													4	16					0	0	0.009096	0	0		T	4448439	T	T	4448439	3	4	8	1	0	0	0	0	1	0	0	0	10026	797	28	2	1874	2	MYBBP1A	17	4448439	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2080	4448439	76746771	1148	7957											
PELP1	27043	broad.mit.edu	37	chr17	4594694	4594694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttttgatggaactgagaCgtgcattactgagactcacc	11	11	11	8	1	1	3	1	3	0	2	1	7	1	4	1	1	3	2	1	1	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:4594694C>T	uc002fyi.3	-	2	519	c.293G>A	c.(292-294)CGT>CAT	p.R98H	PELP1_uc010vsf.1_5'UTR	NM_014389	NP_055204	Q8IZL8	PELP1_HUMAN	proline, glutamic acid and leucine rich protein	98					transcription, DNA-dependent	cytoplasm|MLL1 complex	protein binding			ovary(1)|central_nervous_system(1)	2						GGAACTGAGACGTGCATTACT	0.453													16	109					0	0	0.00499	0	0		T	4594694	T	T	4594694	3	4	8	1	0	0	0	0	1	0	0	0	11744	536	19	1	3163	1	PELP1	17	4594694	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	146255	4594694	76600516	1149	7958											
TM4SF5	9032	broad.mit.edu	37	chr17	4685809	4685809	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacatccagatgctgcgctcGgtcttctcctcggcgttcgg	4	11	11	15	5	2	1	0	0	2	1	7	1	3	1	2	3	2	3	2	3	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:4685809G>A	uc002fyw.1	+	3	301	c.270G>A	c.(268-270)TCG>TCA	p.S90S		NM_003963	NP_003954	O14894	T4S5_HUMAN	transmembrane 4 superfamily member 5	90	Cytoplasmic (Potential).					integral to plasma membrane				ovary(1)	1						TGCTGCGCTCGGTCTTCTCCT	0.602													15	62					0	0	0.006122	0	0		A	4685809	A	A	4685809	2	1	8	1	0	0	0	0	0	0	0	1	15996	1103	39	1		1	TM4SF5	17	4685809	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	91115	4685809	76509401	1150	7959											
RNF167	26001	broad.mit.edu	37	chr17	4848022	4848022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgcagcctaccacagccGctgcgtggacccctggctca	6	7	10	18	2	2	0	1	0	1	0	2	1	2	1	5	2	5	3	5	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:4848022G>A	uc002fzq.2	+	11	1180	c.764G>A	c.(763-765)CGC>CAC	p.R255H	RNF167_uc002fzr.2_Missense_Mutation_p.R255H|RNF167_uc002fzs.2_Missense_Mutation_p.R255H|RNF167_uc002fzt.2_Missense_Mutation_p.R255H|RNF167_uc002fzu.2_Missense_Mutation_p.R254H|RNF167_uc002fzv.2_Missense_Mutation_p.R220H|RNF167_uc002fzx.2_Missense_Mutation_p.R219H|RNF167_uc002fzy.2_Missense_Mutation_p.R54H	NM_015528	NP_056343	Q9H6Y7	RN167_HUMAN	ring finger protein 167 precursor	255	RING-type; atypical.				negative regulation of cell cycle|protein polyubiquitination	cytoplasm|endomembrane system|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						TACCACAGCCGCTGCGTGGAC	0.622													14	52					0	0	0.006122	0	0		A	4848022	A	A	4848022	3	1	8	1	0	0	0	0	1	0	0	0	13483	1087	38	1	798	1	RNF167	17	4848022	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	162213	4848022	76347188	1151	7960											
BCL6B	255877	broad.mit.edu	37	chr17	6927588	6927588	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctatttgcagatggagcaCgtggtccaggcatgccaccg	9	8	12	12	2	0	1	0	0	0	1	1	2	1	2	4	3	3	3	4	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:6927588C>T	uc002geg.2	+	3	423	c.366C>T	c.(364-366)CAC>CAT	p.H122H	BCL6B_uc010clt.1_Silent_p.H122H	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	122						nucleus	zinc ion binding			skin(1)	1						AGATGGAGCACGTGGTCCAGG	0.602													12	52					0	0	0.013537	0	0		T	6927588	T	T	6927588	2	4	8	1	0	0	0	0	0	0	0	1	1378	535	19	1		1	BCL6B	17	6927588	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2079566	6927588	74267622	1152	7961											
ACAP1	9744	broad.mit.edu	37	chr17	7252342	7252342	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgaggacctgggaagcctGcaccctggggccctactgtt	6	9	13	13	0	1	1	0	1	1	0	1	3	1	3	4	4	3	2	4	4	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:7252342G>A	uc002ggd.2	+	18	1913	c.1707G>A	c.(1705-1707)CTG>CTA	p.L569L	KCTD11_uc002gge.3_5'Flank	NM_014716	NP_055531	Q15027	ACAP1_HUMAN	centaurin beta1	569	Required for interaction with GULP1.				intracellular signal transduction|lipid metabolic process|protein transport|regulation of ARF GTPase activity		ARF GTPase activator activity|phospholipase C activity|protein binding|zinc ion binding			breast(2)|large_intestine(1)	3						TGGGAAGCCTGCACCCTGGGG	0.597													4	37					0	0	0.000602	0	0		A	7252342	A	A	7252342	2	1	8	1	0	0	0	0	0	0	0	1	118	1306	46	2		2	ACAP1	17	7252342	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	324754	7252342	73942868	1153	7962											
C17orf74	201243	broad.mit.edu	37	chr17	7329690	7329690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgctgtgttcgtcgccGccgccgccgccaccgccgtt	1	10	11	19	9	1	0	0	0	1	0	4	0	1	0	7	0	0	3	7	0	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:7329690G>A	uc002ggw.2	+	3	453	c.380G>A	c.(379-381)CGC>CAC	p.R127H	FGF11_uc010vtw.1_Intron	NM_175734	NP_783861	Q0P670	CQ074_HUMAN	hypothetical protein LOC201243	127	Arg-rich.					integral to membrane					0		Prostate(122;0.157)				GTTcgtcgccgccgccgccgc	0.418													4	14					0	0	0.001168	0	0		A	7329690	A	A	7329690	3	1	8	1	0	0	0	0	1	0	0	0	1882	1087	38	1	390	1	C17orf74	17	7329690	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	77348	7329690	73865520	1154	7963											
ZBTB4	57659	broad.mit.edu	37	chr17	7369348	7369348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccccgcgtgctggcccctCgtcggcactgggcctcatgg	3	7	13	18	4	1	0	1	0	0	0	3	0	1	0	5	4	1	2	5	4	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:7369348C>T	uc002ghc.3	-	3	1023	c.773G>A	c.(772-774)CGA>CAA	p.R258Q	ZBTB4_uc002ghd.3_Missense_Mutation_p.R258Q	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	258					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		GCTGGCCCCTCGTCGGCACTG	0.706													4	5					0	0	0.000602	0	0		T	7369348	T	T	7369348	3	4	8	1	0	0	0	0	1	0	0	0	17566	884	31	1	2276	1	ZBTB4	17	7369348	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	39658	7369348	73825862	1155	7964											
KDM6B	23135	broad.mit.edu	37	chr17	7750871	7750871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacacttgcagcccggcgCtgaccattaccaaactcccg	9	8	7	17	3	1	1	0	1	1	0	2	1	2	1	4	1	5	2	4	1	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:7750871C>T	uc002giw.1	+	11	1641	c.1265C>T	c.(1264-1266)GCT>GTT	p.A422V	KDM6B_uc002gix.2_5'UTR	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	422	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						CAGCCCGGCGCTGACCATTAC	0.597													5	21					0	0	0.001984	0	0		T	7750871	T	T	7750871	3	4	8	1	0	0	0	0	1	0	0	0	8154	797	28	2	1295	2	KDM6B	17	7750871	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	381523	7750871	73444339	1156	7965											
ALOXE3	59344	broad.mit.edu	37	chr17	7999976	7999976	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctgttctcaatgaggggaGggtccaggtaggtgtagggc	7	9	18	7	1	1	1	1	1	1	0	3	2	2	2	1	6	0	4	1	6	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:7999976G>T	uc010cnr.2	-	16	2475	c.2105C>A	c.(2104-2106)CCT>CAT	p.P702H	ALOXE3_uc002gka.2_Missense_Mutation_p.P858H|ALOXE3_uc010vuo.1_Missense_Mutation_p.P834H	NM_021628	NP_067641	Q9BYJ1	LOXE3_HUMAN	arachidonate lipoxygenase 3 isoform 2	702	Lipoxygenase.				leukotriene biosynthetic process		iron ion binding|lipoxygenase activity			skin(3)|lung(1)|central_nervous_system(1)	5						AATGAGGGGAGGGTCCAGGTA	0.592													17	73					2.39187e-15	2.68306e-15	0.008871	1	0		T	7999976	T	T	7999976	3	4	8	1	0	0	0	0	1	0	0	0	542	1000	35	5	34	5	ALOXE3	17	7999976	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	249105	7999976	73195234	1157	7966											
PFAS	5198	broad.mit.edu	37	chr17	8158378	8158378	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accccaacatccaccaacatCgtgtcagtgtgccgcgccac	10	6	7	18	3	1	0	1	0	0	0	3	0	2	0	6	0	3	0	6	0	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:8158378C>T	uc002gkr.2	+	4	453	c.312C>T	c.(310-312)ATC>ATT	p.I104I	PFAS_uc010vuv.1_5'UTR	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	104					'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CCACCAACATCGTGTCAGTGT	0.632													6	44					0	0	0.004482	0	0		T	8158378	T	T	8158378	2	4	8	1	0	0	0	0	0	0	0	1	11773	874	31	1		1	PFAS	17	8158378	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	158402	8158378	73036832	1158	7967											
KRBA2	124751	broad.mit.edu	37	chr17	8272949	8272949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacctggtttgtgaactcaaCgccactgtcagagtctaaca	12	10	8	11	1	3	2	2	1	1	1	3	2	3	2	2	1	4	1	2	1	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:8272949C>T	uc002glf.1	-	2	988	c.982G>A	c.(982-984)GTT>ATT	p.V328I	KRBA2_uc002glg.1_Missense_Mutation_p.V245I	NM_213597	NP_998762	Q6ZNG9	KRBA2_HUMAN	KRAB-A domain containing 2	328	Integrase catalytic.				DNA integration|regulation of transcription, DNA-dependent	intracellular	DNA binding				0						GTGAACTCAACGCCACTGTCA	0.478													12	63					0	0	0.013537	0	0		T	8272949	T	T	8272949	3	4	8	1	0	0	0	0	1	0	0	0	8456	536	19	1	500	1	KRBA2	17	8272949	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	114571	8272949	72922261	1159	7968											
MYH10	4628	broad.mit.edu	37	chr17	8396161	8396161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtggtccaggtccaccGtgaggtcgtccagctcctgc	4	9	14	14	2	0	1	0	1	0	0	5	1	4	1	5	4	2	2	5	4	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:8396161G>A	uc002gll.2	-	31	4394	c.4298C>T	c.(4297-4299)ACG>ATG	p.T1433M	MYH10_uc002glm.2_Missense_Mutation_p.T1464M|MYH10_uc010cnx.2_Missense_Mutation_p.T1442M	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1433	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						CAGGTCCACCGTGAGGTCGTC	0.622													9	37					0	0	0.003163	0	0		A	8396161	A	A	8396161	3	1	8	1	0	0	0	0	1	0	0	0	10048	1145	40	1	1676	1	MYH10	17	8396161	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	123212	8396161	72799049	1160	7969											
USP43	124739	broad.mit.edu	37	chr17	9615374	9615374	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcctgctgtcctggagcTctgccccctgcccctccctg	3	9	10	19	0	1	0	0	0	1	0	3	2	3	1	7	1	5	2	7	1	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:9615374T>G	uc010cod.2	+	14	2260	c.2260T>G	c.(2260-2262)TCT>GCT	p.S754A	USP43_uc002gma.3_Missense_Mutation_p.S443A|USP43_uc010vva.1_Missense_Mutation_p.S749A|USP43_uc010coe.2_Missense_Mutation_p.S551A|USP43_uc002gmc.3_Missense_Mutation_p.S266A	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	ubiquitin specific protease 43	754					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GTCCTGGAGCTCTGCCCCCTG	0.587													7	17					0	0	0.001984	0	0		G	9615374	G	G	9615374	3	3	8	1	0	0	0	0	1	0	0	0	17100	1551	54	5	2314	5	USP43	17	9615374	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1219213	9615374	71579836	1161	7970											
DHRS7C	201140	broad.mit.edu	37	chr17	9674812	9674812	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctcctgcagttaccccTcctccgggacattgagcttc	5	11	9	16	1	0	1	0	1	0	0	4	2	3	2	6	2	3	3	6	2	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:9674812T>C	uc010vvb.1	-	6	932	c.932A>G	c.(931-933)GAG>GGG	p.E311G	DHRS7C_uc010cof.2_Missense_Mutation_p.E310G	NM_001105571	NP_001099041	A6NNS2	DRS7C_HUMAN	dehydrogenase/reductase (SDR family) member 7C	311						extracellular region	binding|oxidoreductase activity				0						CAGTTACCCCTCCTCCGGGAC	0.607													3	16					0	0	0.009096	0	0		C	9674812	C	C	9674812	3	2	8	1	0	0	0	0	1	0	0	0	4503	1551	54	3	10	3	DHRS7C	17	9674812	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	59438	9674812	71520398	1162	7971											
MYH13	8735	broad.mit.edu	37	chr17	10231407	10231407	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgacgttcataaaagagcGgatgttgtactggatgcaga	12	11	12	6	2	1	3	1	1	0	2	1	5	1	5	0	2	3	4	0	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:10231407G>T	uc002gmk.1	-	22	2557	c.2467C>A	c.(2467-2469)CGC>AGC	p.R823S		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	823					muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						ATAAAAGAGCGGATGTTGTAC	0.507											OREG0024177	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	62					7.48243e-07	8.1217e-07	0.006214	1	0		T	10231407	T	T	10231407	3	4	8	1	0	0	0	0	1	0	0	0	10050	1116	39	5	3429	5	MYH13	17	10231407	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	556595	10231407	70963803	1163	7972											
DNAH9	1770	broad.mit.edu	37	chr17	11778363	11778363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagggcctcccagccgaccGcatgtccgtggagaatgcca	8	5	13	15	4	0	1	0	0	0	1	2	4	2	1	6	2	2	1	6	2	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:11778363G>A	uc002gne.2	+	53	10408	c.10340G>A	c.(10339-10341)CGC>CAC	p.R3447H	DNAH9_uc010coo.2_Missense_Mutation_p.R2741H	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3447	AAA 5 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CCAGCCGACCGCATGTCCGTG	0.557													16	47					0	0	0.00499	0	0		A	11778363	A	A	11778363	3	1	8	1	0	0	0	0	1	0	0	0	4614	1087	38	1	10550	1	DNAH9	17	11778363	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1546956	11778363	69416847	1164	7973											
DNAH9	1770	broad.mit.edu	37	chr17	11806149	11806149	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaaagagaagctcccacaGgagtggaagaacaagacagc	18	2	13	8	0	0	4	0	0	0	4	1	8	1	6	1	2	3	1	1	2	5	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:11806149G>T	uc002gne.2	+	60	11588	c.11520G>T	c.(11518-11520)CAG>CAT	p.Q3840H	DNAH9_uc010coo.2_Missense_Mutation_p.Q3134H|DNAH9_uc002gnf.2_Missense_Mutation_p.Q152H|DNAH9_uc010vvh.1_Missense_Mutation_p.Q193H	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3840					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AGCTCCCACAGGAGTGGAAGA	0.532													12	56					0.00010058	0.000107298	0.013537	1	0		T	11806149	T	T	11806149	3	4	8	1	0	0	0	0	1	0	0	0	4614	991	35	5	11758	5	DNAH9	17	11806149	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	27786	11806149	69389061	1165	7974											
MYOCD	93649	broad.mit.edu	37	chr17	12661453	12661453	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaaagttttcaattccaTccccaactttttctaagtca	11	14	4	12	0	3	0	2	0	1	0	5	0	5	0	4	1	1	1	4	1	4	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:12661453T>C	uc002gnn.2	+	11	2409	c.2110T>C	c.(2110-2112)TCC>CCC	p.S704P	MYOCD_uc002gno.2_Missense_Mutation_p.S752P|MYOCD_uc002gnp.1_Missense_Mutation_p.S656P|MYOCD_uc002gnq.2_Intron	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	704					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		TTCAATTCCATCCCCAACTTT	0.398													10	68					0	0	0.008291	0	0		C	12661453	C	C	12661453	3	2	8	1	0	0	0	0	1	0	0	0	10105	1435	50	3	2300	3	MYOCD	17	12661453	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	855304	12661453	68533757	1166	7975											
MPRIP	23164	broad.mit.edu	37	chr17	17075070	17075070	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgcagcaatggaagaaacGcaccagaagaagattgaaga	18	6	11	6	1	0	6	0	1	0	5	0	7	0	7	1	1	3	3	1	1	6	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:17075070G>A	uc002gqu.1	+	16	2258	c.2202G>A	c.(2200-2202)ACG>ACA	p.T734T	MPRIP_uc002gqv.1_Silent_p.T734T|MPRIP_uc002gqw.1_Silent_p.T489T|MPRIP_uc002gqx.1_Silent_p.T963T|MPRIP_uc002gqy.1_Silent_p.T963T|MPRIP_uc010cpl.1_5'Flank|MPRIP_uc010cpm.1_5'Flank	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	734	Interaction with RHOA.|Potential.					cytoplasm|cytoskeleton	actin binding				0						TGGAAGAAACGCACCAGAAGA	0.527													18	122					0	0	0.007413	0	0		A	17075070	A	A	17075070	2	1	8	1	0	0	0	0	0	0	0	1	9761	1074	38	1		1	MPRIP	17	17075070	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4413617	17075070	64120140	1167	7976											
RAI1	10743	broad.mit.edu	37	chr17	17698482	17698482	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgccagctcagcggacagCgccaacccctttgcctggcc	6	6	11	18	2	1	0	1	0	0	0	1	1	1	1	6	2	6	2	6	2	1	1	rs149807469		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:17698482C>T	uc002grm.2	+	3	2689	c.2220C>T	c.(2218-2220)AGC>AGT	p.S740S	RAI1_uc002grn.1_Silent_p.S740S	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	740						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CAGCGGACAGCGCCAACCCCT	0.622													12	47					0	0	0.001855	0	0		T	17698482	T	T	17698482	2	4	8	1	0	0	0	0	0	0	0	1	13032	767	27	1		1	RAI1	17	17698482	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	623412	17698482	63496728	1168	7977											
SREBF1	6720	broad.mit.edu	37	chr17	17720322	17720322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcctccagaagtacacggCggggcctgagtggggccgtg	7	6	17	11	3	0	2	0	1	0	1	1	2	1	2	4	5	2	1	4	5	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:17720322C>T	uc002gru.1	-	9	1929	c.1735G>A	c.(1735-1737)GCC>ACC	p.A579T	SREBF1_uc002grp.1_Missense_Mutation_p.A198T|SREBF1_uc002grq.1_Missense_Mutation_p.A98T|SREBF1_uc002grr.1_Missense_Mutation_p.A325T|SREBF1_uc002grs.1_Missense_Mutation_p.A555T|SREBF1_uc002grt.1_Missense_Mutation_p.A609T	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	579	Cytoplasmic (Potential).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						AAGTACACGGCGGGGCCTGAG	0.667													5	24					0	0	0.004482	0	0		T	17720322	T	T	17720322	3	4	8	1	0	0	0	0	1	0	0	0	15166	768	27	1	1752	1	SREBF1	17	17720322	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	21840	17720322	63474888	1169	7978											
TOM1L2	146691	broad.mit.edu	37	chr17	17766046	17766046	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaaggggccccacatacgTcttgcgctgctcagccaagg	10	7	11	13	2	2	0	1	0	1	0	2	0	2	0	3	3	4	2	3	3	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:17766046T>C	uc002grz.3	-	11	1358	c.1201A>G	c.(1201-1203)ACG>GCG	p.T401A	TOM1L2_uc002gry.3_Missense_Mutation_p.T351A|TOM1L2_uc010vwy.1_Missense_Mutation_p.T348A|TOM1L2_uc010cpr.2_Missense_Mutation_p.T356A|TOM1L2_uc010vwz.1_Missense_Mutation_p.T253A|TOM1L2_uc010vxa.1_Missense_Mutation_p.T303A|TOM1L2_uc002grv.3_Missense_Mutation_p.T134A	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	401					intracellular protein transport	intracellular					0	all_neural(463;0.228)					CCCACATACGTCTTGCGCTGC	0.527													48	201					0	0	0.01441	0	0		C	17766046	C	C	17766046	3	2	8	1	0	0	0	0	1	0	0	0	16378	1681	58	3	342	3	TOM1L2	17	17766046	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	45724	17766046	63429164	1170	7979											
SLC5A10	125206	broad.mit.edu	37	chr17	18874437	18874437	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgtacagacgccatgcAcatgtttcgagacccccaca	11	6	8	16	3	0	2	0	0	0	2	1	3	0	2	4	0	2	3	4	0	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:18874437A>T	uc002guu.1	+	8	793	c.752A>T	c.(751-753)CAC>CTC	p.H251L	SLC5A10_uc002gur.1_Missense_Mutation_p.H168L|SLC5A10_uc002gut.1_Missense_Mutation_p.H251L|SLC5A10_uc002guv.1_Missense_Mutation_p.H224L|SLC5A10_uc010vyl.1_Missense_Mutation_p.H251L|FAM83G_uc002guw.2_3'UTR	NM_001042450	NP_001035915	A0PJK1	SC5AA_HUMAN	solute carrier family 5 (sodium/glucose	251	Extracellular (Potential).				sodium ion transport|transmembrane transport	integral to membrane	transporter activity			ovary(1)	1						GACGCCATGCACATGTTTCGA	0.627													8	23					0	0	0.004482	0	0		T	18874437	T	T	18874437	3	4	8	1	0	0	0	0	1	0	0	0	14687	159	6	5	782	5	SLC5A10	17	18874437	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1108391	18874437	62320773	1171	7980											
ALDH3A2	224	broad.mit.edu	37	chr17	19568354	19568354	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaactctttcccatttggaGgagtgggtgagtcttatttt	7	17	10	7	0	3	1	1	1	2	0	4	3	4	3	1	3	1	0	1	3	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:19568354G>T	uc002gwb.1	+	8	1422	c.1201G>T	c.(1201-1203)GGA>TGA	p.G401*	ALDH3A2_uc002gwa.1_Nonsense_Mutation_p.G401*|ALDH3A2_uc010cqr.1_Nonsense_Mutation_p.G208*|ALDH3A2_uc002gwc.1_Nonsense_Mutation_p.G401*|ALDH3A2_uc002gwd.1_Nonsense_Mutation_p.G208*	NM_000382	NP_000373	P51648	AL3A2_HUMAN	aldehyde dehydrogenase 3A2 isoform 2	401	Cytoplasmic.				cellular aldehyde metabolic process|central nervous system development|epidermis development|lipid metabolic process|peripheral nervous system development	endoplasmic reticulum membrane|integral to membrane	3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(2)	2	all_cancers(12;1.39e-05)|all_epithelial(12;0.00158)|Breast(13;0.245)				NADH(DB00157)	CCCATTTGGAGGAGTGGGTGA	0.453													16	56					3.41278e-10	3.77522e-10	0.00499	1	0		T	19568354	T	T	19568354	4	4	8	1	0	0	0	0	0	1	0	0	498	1001	35	5	1231	5	ALDH3A2	17	19568354	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	693917	19568354	61626856	1172	7981											
MAP2K3	5606	broad.mit.edu	37	chr17	21201726	21201726	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttctctccattctaggAaaatccaagaggaagaagga	15	8	8	10	0	2	2	0	0	2	2	5	5	4	5	3	3	0	0	3	3	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:21201726A>G	uc002gys.2	+	2	316	c.51A>G	c.(49-51)GGA>GGG	p.G17G	MAP2K3_uc002gyt.2_5'UTR|MAP2K3_uc002gyu.2_5'UTR	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	17					activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		CCATTCTAGGAAAATCCAAGA	0.577													21	165					0	0	0.012319	0	0		G	21201726	G	G	21201726	2	3	8	1	0	0	0	0	0	0	0	1	9256	260	9	3		3	MAP2K3	17	21201726	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1633372	21201726	59993484	1173	7982											
KIAA0100	9703	broad.mit.edu	37	chr17	26943183	26943183	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttgttcatggcagctcgCtctttcatcttgtcaatgtc	6	16	9	10	1	5	0	3	0	2	0	7	1	5	0	0	1	1	5	0	1	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:26943183C>T	uc002hbu.2	-	37	6420	c.6321G>A	c.(6319-6321)GAG>GAA	p.E2107E	SGK494_uc010waq.1_5'Flank|SGK494_uc010war.1_5'Flank|SGK494_uc002hbr.1_5'Flank|uc002hbs.1_Intron|KIAA0100_uc002hbt.2_Silent_p.E436E	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	2107						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					TGGCAGCTCGCTCTTTCATCT	0.478													4	43					0	0	0.009096	0	0		T	26943183	T	T	26943183	2	4	8	1	0	0	0	0	0	0	0	1	8170	796	28	2		2	KIAA0100	17	26943183	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5741457	26943183	54252027	1174	7983											
RAB34	83871	broad.mit.edu	37	chr17	27042914	27042914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttatcaaaggtgtctttgCagaacctgagagggtaccag	11	11	11	8	0	3	2	1	1	2	2	3	3	3	2	2	2	3	2	2	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:27042914C>T	uc002hce.2	-	4	842	c.218G>A	c.(217-219)TGC>TAC	p.C73Y	RAB34_uc002hcg.2_Missense_Mutation_p.C73Y|RAB34_uc002hcf.2_Missense_Mutation_p.C74Y|RAB34_uc010was.1_Missense_Mutation_p.C130Y|RAB34_uc010wat.1_Missense_Mutation_p.C130Y|RAB34_uc002hch.2_Missense_Mutation_p.C73Y|RAB34_uc010wau.1_Missense_Mutation_p.C51Y|RAB34_uc010wav.1_Missense_Mutation_p.C131Y	NM_031934	NP_114140	Q9BZG1	RAB34_HUMAN	Ras-related protein RAB34 isoform 1	73					protein transport|small GTPase mediated signal transduction	Golgi apparatus	GTP binding				0	Lung NSC(42;0.00431)					GGTGTCTTTGCAGAACCTGAG	0.547													7	76					0	0	0.001984	0	0		T	27042914	T	T	27042914	3	4	8	1	0	0	0	0	1	0	0	0	12949	710	25	2	653	2	RAB34	17	27042914	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	99731	27042914	54152296	1175	7984											
PHF12	57649	broad.mit.edu	37	chr17	27251130	27251130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtgggagtctctgtgctgGcgctggatgtgggtgtgcca	4	11	19	7	1	1	0	0	0	1	0	2	2	1	2	1	5	2	2	1	5	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:27251130G>A	uc002hdg.1	-	4	1042	c.512C>T	c.(511-513)GCC>GTC	p.A171V	PHF12_uc010wbb.1_Missense_Mutation_p.A153V|PHF12_uc002hdi.1_Missense_Mutation_p.A167V|PHF12_uc002hdj.1_Missense_Mutation_p.A171V|PHF12_uc010crw.1_Intron|uc002hdl.2_5'Flank|PHF12_uc002hdh.1_5'UTR	NM_001033561	NP_001028733	Q96QT6	PHF12_HUMAN	PHD finger protein 12 isoform 1	171	Interaction with SIN3A.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	protein binding|zinc ion binding			ovary(1)	1	all_cancers(5;1.95e-14)|all_epithelial(6;5e-18)|Lung NSC(42;0.01)		Epithelial(11;1.64e-05)|all cancers(11;7.47e-05)|BRCA - Breast invasive adenocarcinoma(11;9.79e-05)			CTCTGTGCTGGCGCTGGATGT	0.567													6	20					0	0	0.001168	0	0		A	27251130	A	A	27251130	3	1	8	1	0	0	0	0	1	0	0	0	11842	1203	42	2	2576	2	PHF12	17	27251130	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	208216	27251130	53944080	1176	7985											
SSH2	85464	broad.mit.edu	37	chr17	28003848	28003848	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcatcttaccacattgcctGcacagatacaggtttgaata	12	12	7	10	0	2	2	1	1	1	1	2	2	2	2	2	1	4	2	2	1	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:28003848G>A	uc002heo.1	-	7	523	c.523C>T	c.(523-525)CAG>TAG	p.Q175*	SSH2_uc010wbh.1_Nonsense_Mutation_p.Q202*|SSH2_uc002hep.1_Nonsense_Mutation_p.Q175*|SSH2_uc002heq.2_Nonsense_Mutation_p.Q182*|SSH2_uc002her.2_Nonsense_Mutation_p.Q175*|SSH2_uc010csc.1_Nonsense_Mutation_p.Q175*	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	175					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						CACATTGCCTGCACAGATACA	0.348													17	54					0	0	0.010504	0	0		A	28003848	A	A	28003848	4	1	8	1	0	0	0	0	0	1	0	0	15210	1328	46	2	3784	2	SSH2	17	28003848	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	752718	28003848	53191362	1177	7986											
LRRC37B	114659	broad.mit.edu	37	chr17	30362634	30362634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacttaagaacattctcaCgatgactgttgaactggaaa	16	10	7	8	1	1	3	1	2	1	1	2	5	1	4	0	1	3	1	0	1	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:30362634C>T	uc002hgu.2	+	7	2110	c.2099C>T	c.(2098-2100)ACG>ATG	p.T700M	LRRC37B_uc010wbx.1_Missense_Mutation_p.T618M|LRRC37B_uc010csu.2_Missense_Mutation_p.T649M	NM_052888	NP_443120	Q96QE4	LR37B_HUMAN	leucine rich repeat containing 37B precursor	700	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)				AACATTCTCACGATGACTGTT	0.284													35	146					0	0	0.004878	0	0		T	30362634	T	T	30362634	3	4	8	1	0	0	0	0	1	0	0	0	9012	536	19	1	2125	1	LRRC37B	17	30362634	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2358786	30362634	50832576	1178	7987											
RDM1	201299	broad.mit.edu	37	chr17	34257080	34257080	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattccatatttggacccacCttgactggagatttctgaaa	12	13	7	9	0	1	3	0	2	1	1	2	5	2	4	3	2	0	0	3	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:34257080C>A	uc002hkh.2	-	2	325	c.276G>T	c.(274-276)AAG>AAT	p.K92N	RDM1_uc010cty.2_RNA|RDM1_uc010ctz.2_Missense_Mutation_p.K69N|RDM1_uc010cua.2_Missense_Mutation_p.K69N|RDM1_uc002hkg.3_Missense_Mutation_p.K69N|RDM1_uc010cub.2_RNA|RDM1_uc010cud.2_Missense_Mutation_p.K92N|RDM1_uc010cuf.2_RNA|RDM1_uc010cue.2_Intron|RDM1_uc010cug.2_RNA|RDM1_uc010cuc.2_Missense_Mutation_p.K92N|RDM1_uc010wco.1_Missense_Mutation_p.K69N|RDM1_uc010wcp.1_Missense_Mutation_p.K69N|RDM1_uc002hki.2_Missense_Mutation_p.K92N	NM_145654	NP_663629	Q8NG50	RDM1_HUMAN	RAD52 motif 1 isoform 1	92	RRM.|Necessary for nuclear and nucleolar localization.|Necessary for nuclear localization and for nucleolar accumulation in response to heat shock.				DNA recombination|DNA repair	Cajal body|cytoplasm|nucleolus|PML body	DNA binding|nucleotide binding|RNA binding			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		TTGGACCCACCTTGACTGGAG	0.358								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					30	124					6.53348e-20	7.36333e-20	0.003755	1	0		A	34257080	A	A	34257080	3	1	8	1	0	0	0	0	1	0	0	0	13222	695	24	5	646	5	RDM1	17	34257080	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3894446	34257080	46938130	1179	7988											
GPR179	440435	broad.mit.edu	37	chr17	36483525	36483525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctttaggttggtcagggCgctgtctgtctaggtgagag	6	13	16	6	1	3	1	1	1	2	1	3	2	3	1	0	4	1	3	0	4	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:36483525C>T	uc002hpz.2	-	11	5948	c.5927G>A	c.(5926-5928)CGC>CAC	p.R1976H		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	1976	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				TTGGTCAGGGCGCTGTCTGTC	0.552													6	29					0	0	0.00308	0	0		T	36483525	T	T	36483525	3	4	8	1	0	0	0	0	1	0	0	0	6689	768	27	1	1180	1	GPR179	17	36483525	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2226445	36483525	44711685	1180	7989											
CDK12	51755	broad.mit.edu	37	chr17	37673788	37673788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaagcaatatcgaaggcGtctacgagaagaattctctt	15	9	10	7	3	2	3	0	0	2	3	4	6	2	3	0	1	2	1	0	1	8	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:37673788G>A	uc010cvv.2	+	10	3528	c.2942G>A	c.(2941-2943)CGT>CAT	p.R981H	CDK12_uc010wef.1_Missense_Mutation_p.R980H|CDK12_uc002hrw.3_Missense_Mutation_p.R981H	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	981	Protein kinase.				mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						TATCGAAGGCGTCTACGAGAA	0.473										TCGA Ovarian(9;0.13)			9	48					0	0	0.004482	0	0		A	37673788	A	A	37673788	3	1	8	1	0	0	0	0	1	0	0	0	3131	1145	40	1	2980	1	CDK12	17	37673788	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1190263	37673788	43521422	1181	7990											
ZPBP2	124626	broad.mit.edu	37	chr17	38024801	38024801	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgttttatttcctccgcaGtccaatgcccgcgttttacc	6	15	7	13	3	0	0	0	0	0	0	3	0	3	0	5	0	2	3	5	0	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:38024801G>A	uc002hte.2	+	2	206	c.53_splice	c.e2-1	p.V18_splice	ZPBP2_uc002htf.2_Intron	NM_199321	NP_955353	Q6X784	ZPBP2_HUMAN	zona pellucida binding protein 2 isoform 2						binding of sperm to zona pellucida	extracellular region				ovary(1)	1	Colorectal(19;0.000442)		Lung(15;0.00849)|LUSC - Lung squamous cell carcinoma(15;0.171)			TTCCTCCGCAGTCCAATGCCC	0.547													18	122					0	0	0.014323	0	0		A	38024801	A	A	38024801	5	1	8	1	0	0	0	0	0	0	1	0	18245	1043	36	4	58	4	ZPBP2	17	38024801	Splice_Site	SNP	G	TCGA-BR-4201-01A-01D-1126-08	351013	38024801	43170409	1182	7991											
KRT28	162605	broad.mit.edu	37	chr17	38955915	38955915	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagagaggagtcccccttcGcttccagcaaagccaataca	12	6	8	15	1	0	1	0	0	0	1	3	3	2	2	5	1	3	2	5	1	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:38955915G>A	uc002hvh.1	-	1	297	c.231C>T	c.(229-231)AGC>AGT	p.S77S		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	77	Gly-rich.|Head.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				GTCCCCCTTCGCTTCCAGCAA	0.537													14	78					0	0	0.001855	0	0		A	38955915	A	A	38955915	2	1	8	1	0	0	0	0	0	0	0	1	8481	1078	38	1		1	KRT28	17	38955915	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	931114	38955915	42239295	1183	7992											
KRT38	8687	broad.mit.edu	37	chr17	39593778	39593778	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagggagacgtggagcaCggattgcaggggagtctgca	10	5	19	7	2	1	1	0	0	1	1	1	6	1	5	0	6	3	3	0	6	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:39593778C>T	uc002hwq.1	-	7	1680	c.1257G>A	c.(1255-1257)CCG>CCA	p.P419P		NM_006771	NP_006762	O76015	KRT38_HUMAN	keratin 38	419	Tail.					intermediate filament	structural molecule activity			skin(2)	2		Breast(137;0.000496)				ACGTGGAGCACGGATTGCAGG	0.637													3	8					0	0	0.004672	0	0		T	39593778	T	T	39593778	2	4	8	1	0	0	0	0	0	0	0	1	8491	523	19	1		1	KRT38	17	39593778	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	637863	39593778	41601432	1184	7993											
JUP	3728	broad.mit.edu	37	chr17	39680724	39680724	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggatcttggcgagatcGgtgcccggagcggaatccac	8	7	14	12	4	2	1	1	0	1	1	4	5	3	4	2	5	2	0	2	5	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:39680724G>A	uc010wfs.1	-	7	1226	c.1218C>T	c.(1216-1218)ACC>ACT	p.T406T	KRT15_uc002hxb.1_5'Flank|uc002hxc.1_5'Flank|KRT19_uc002hxd.3_Silent_p.T243T	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	Error:Variant_position_missing_in_P14923_after_alignment					adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		TGGCGAGATCGGTGCCCGGAG	0.572													7	64					0	0	0.006214	0	0		A	39680724	A	A	39680724	2	1	8	1	0	0	0	0	0	0	0	1	7988	1103	39	1		1	JUP	17	39680724	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	86946	39680724	41514486	1185	7994											
PSMC3IP	29893	broad.mit.edu	37	chr17	40729286	40729286	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctctttgatcttgcctTgttgcgccagctgctccagc	3	16	8	14	1	3	1	0	1	3	0	5	1	4	1	3	0	5	3	3	0	0	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:40729286T>C	uc002iai.2	-	3	213	c.170A>G	c.(169-171)CAA>CGA	p.Q57R	PSMC3IP_uc002iaj.2_5'UTR|PSMC3IP_uc002iak.2_Missense_Mutation_p.Q57R|PSMC3IP_uc010wgn.1_5'UTR|PSMC3IP_uc010wgo.1_RNA|PSMC3IP_uc010wgp.1_RNA	NM_016556	NP_057640	Q9P2W1	HOP2_HUMAN	PSMC3 interacting protein isoform 2	57					DNA recombination|meiosis	nucleus	DNA binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(22;0.00426)|Breast(137;0.00116)|all_epithelial(22;0.0395)		BRCA - Breast invasive adenocarcinoma(366;0.13)		GATCTTGCCTTGTTGCGCCAG	0.547													5	42					0	0	0.000602	0	0		C	40729286	C	C	40729286	3	2	8	1	0	0	0	0	1	0	0	0	12710	1812	63	3	507	3	PSMC3IP	17	40729286	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1048562	40729286	40465924	1186	7995											
TUBG2	27175	broad.mit.edu	37	chr17	40818663	40818663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtttgacaagctgcggaagCgggatgccttcctcgagcag	9	8	14	10	3	0	1	0	1	0	0	2	4	1	3	2	2	5	3	2	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:40818663C>T	uc010wgr.1	+	11	1457	c.1201C>T	c.(1201-1203)CGG>TGG	p.R401W	TUBG2_uc002iaq.2_3'UTR|TUBG2_uc002iar.2_Missense_Mutation_p.R248W|TUBG2_uc002ias.2_Missense_Mutation_p.R243W|TUBG2_uc002iap.2_Missense_Mutation_p.R248W	NM_016437	NP_057521	Q9NRH3	TBG2_HUMAN	tubulin, gamma 2	401					G2/M transition of mitotic cell cycle|microtubule-based process|protein polymerization	cytosol	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.141)		GCTGCGGAAGCGGGATGCCTT	0.498													16	55					0	0	0.00499	0	0		T	40818663	T	T	40818663	3	4	8	1	0	0	0	0	1	0	0	0	16791	759	27	1	1243	1	TUBG2	17	40818663	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	89377	40818663	40376547	1187	7996											
DHX8	1659	broad.mit.edu	37	chr17	41570275	41570275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgggacaaatatggagagCggaatctggatagatggcgg	13	6	16	6	3	1	2	0	0	1	2	1	6	1	5	1	6	1	0	1	6	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:41570275C>T	uc002idu.1	+	6	803	c.730C>T	c.(730-732)CGG>TGG	p.R244W	DHX8_uc010wif.1_Missense_Mutation_p.R153W|DHX8_uc010wig.1_Missense_Mutation_p.R244W	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	244						catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		ATATGGAGAGCGGAATCTGGA	0.527													18	101					0	0	0.010504	0	0		T	41570275	T	T	41570275	3	4	8	1	0	0	0	0	1	0	0	0	4521	759	27	1	752	1	DHX8	17	41570275	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	751612	41570275	39624935	1188	7997											
MPP3	4356	broad.mit.edu	37	chr17	41879176	41879176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctccttcaccagcacggCgtctaccaggtgcccgtaat	8	9	8	16	3	2	0	1	0	1	0	4	0	4	0	5	2	3	2	5	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:41879176C>T	uc002iei.3	-	20	1817	c.1651G>A	c.(1651-1653)GCC>ACC	p.A551T	MPP3_uc002ieh.2_Missense_Mutation_p.A576T|MPP3_uc002iej.2_RNA	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	551	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		ACCAGCACGGCGTCTACCAGG	0.562													16	64					0	0	0.008871	0	0		T	41879176	T	T	41879176	3	4	8	1	0	0	0	0	1	0	0	0	9753	768	27	1	110	1	MPP3	17	41879176	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	308901	41879176	39316034	1189	7998											
HDAC5	10014	broad.mit.edu	37	chr17	42156018	42156018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggcgaacttctgcacaCagctccagtgtttgcctgtg	7	10	11	13	2	1	0	0	0	1	0	2	1	2	0	2	1	5	3	2	1	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:42156018C>T	uc002ifd.1	-	26	3390	c.3179G>A	c.(3178-3180)TGT>TAT	p.C1060Y	HDAC5_uc002ife.1_Missense_Mutation_p.C1060Y|HDAC5_uc002iff.1_Missense_Mutation_p.C1061Y|HDAC5_uc010czp.1_Missense_Mutation_p.C975Y	NM_005474	NP_005465	Q9UQL6	HDAC5_HUMAN	histone deacetylase 5 isoform 1	1060					B cell differentiation|cellular response to insulin stimulus|chromatin remodeling|chromatin silencing|inflammatory response|negative regulation of cell migration involved in sprouting angiogenesis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			ovary(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.118)		CTTCTGCACACAGCTCCAGTG	0.642													25	81					0	0	0.00632	0	0		T	42156018	T	T	42156018	3	4	8	1	0	0	0	0	1	0	0	0	7026	478	17	4	197	4	HDAC5	17	42156018	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	276842	42156018	39039192	1190	7999											
RUNDC3A	10900	broad.mit.edu	37	chr17	42390862	42390862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacggctctgcgtgacacccGgaccaccaggtcagacttcc	8	6	10	17	3	2	2	1	1	1	1	3	3	3	3	4	3	1	1	4	3	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:42390862G>A	uc002igl.3	+	4	723	c.449G>A	c.(448-450)CGG>CAG	p.R150Q	RUNDC3A_uc002igi.2_Missense_Mutation_p.R150Q|RUNDC3A_uc002igj.2_Missense_Mutation_p.R145Q|RUNDC3A_uc002igk.2_Missense_Mutation_p.R146Q	NM_001144825	NP_001138297	Q59EK9	RUN3A_HUMAN	RUN domain containing 3A isoform 1	150	Interaction with RAP2A (By similarity).|RUN.				small GTPase mediated signal transduction		small GTPase regulator activity				0		Prostate(33;0.0233)		BRCA - Breast invasive adenocarcinoma(366;0.189)		CGTGACACCCGGACCACCAGG	0.552													7	34					0	0	0.00308	0	0		A	42390862	A	A	42390862	3	1	8	1	0	0	0	0	1	0	0	0	13769	1116	39	1	463	1	RUNDC3A	17	42390862	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	234844	42390862	38804348	1191	8000											
KIAA1267	284058	broad.mit.edu	37	chr17	44116010	44116010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaggatggtgggtggctGccaagtagctcgaactgctc	7	9	17	8	1	0	0	0	0	0	0	2	3	0	2	1	5	4	4	1	5	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:44116010G>A	uc002ikb.2	-	9	2520	c.2435C>T	c.(2434-2436)GCA>GTA	p.A812V	KIAA1267_uc002ikc.2_Missense_Mutation_p.A812V|KIAA1267_uc002ikd.2_Missense_Mutation_p.A812V|KIAA1267_uc010dav.2_Missense_Mutation_p.A812V|KIAA1267_uc010wkb.1_Missense_Mutation_p.A143V|KIAA1267_uc010wkc.1_Missense_Mutation_p.A80V	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	812						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				GTGGGTGGCTGCCAAGTAGCT	0.527													11	53					0	0	0.001855	0	0		A	44116010	A	A	44116010	3	1	8	1	0	0	0	0	1	0	0	0	8235	1319	46	2	906	2	KIAA1267	17	44116010	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1725148	44116010	37079200	1192	8001											
NFE2L1	4779	broad.mit.edu	37	chr17	46136299	46136299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctggatctggaagaggccGagggtgctgtgggctaccag	7	7	17	10	1	1	1	0	0	1	1	1	4	1	3	3	5	2	2	3	5	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:46136299G>A	uc002imz.3	+	6	2266	c.1615G>A	c.(1615-1617)GAG>AAG	p.E539K	NFE2L1_uc002ina.3_Missense_Mutation_p.E509K|NFE2L1_uc002inb.3_Missense_Mutation_p.E509K|NFE2L1_uc010wle.1_Missense_Mutation_p.E351K|NFE2L1_uc010wlf.1_Missense_Mutation_p.E383K	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	539					anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						GGAAGAGGCCGAGGGTGCTGT	0.473													15	25					0	0	0.004007	0	0		A	46136299	A	A	46136299	3	1	8	1	0	0	0	0	1	0	0	0	10386	1059	37	1	1633	1	NFE2L1	17	46136299	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2020289	46136299	35058911	1193	8002											
SCPEP1	59342	broad.mit.edu	37	chr17	55083545	55083545	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttttctaggttccttctgaCcaaggggacatggctctgaa	8	14	10	9	0	3	2	0	2	3	0	4	3	4	3	2	4	0	2	2	4	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:55083545C>T	uc002iuv.3	+	13	1361	c.1308C>T	c.(1306-1308)GAC>GAT	p.D436D	SCPEP1_uc010dcl.2_RNA|SCPEP1_uc010wnk.1_Silent_p.D386D	NM_021626	NP_067639	Q9HB40	RISC_HUMAN	serine carboxypeptidase 1 precursor	436					proteolysis	extracellular region	serine-type carboxypeptidase activity			skin(1)	1	Breast(9;2.86e-08)					TTCCTTCTGACCAAGGGGACA	0.517													10	100					0	0	0.00245	0	0		T	55083545	T	T	55083545	2	4	8	1	0	0	0	0	0	0	0	1	13960	506	18	4		4	SCPEP1	17	55083545	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8947246	55083545	26111665	1194	8003											
RNF43	54894	broad.mit.edu	37	chr17	56437605	56437605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catggaggcaggaaatgaccCgtagctcctggagaaaaaga	15	5	13	8	1	0	3	0	1	0	2	1	6	1	5	2	4	1	3	2	4	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:56437605C>T	uc002iwf.2	-	7	2813	c.857G>A	c.(856-858)CGG>CAG	p.R286Q	RNF43_uc010wnv.1_Missense_Mutation_p.R245Q|RNF43_uc002iwh.3_Missense_Mutation_p.R286Q|RNF43_uc002iwg.3_Missense_Mutation_p.R286Q|RNF43_uc010dcw.2_Missense_Mutation_p.R159Q	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	286	RING-type; atypical.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GGAAATGACCCGTAGCTCCTG	0.532													6	47					0	0	0.001168	0	0		T	56437605	T	T	56437605	3	4	8	1	0	0	0	0	1	0	0	0	13520	652	23	1	1506	1	RNF43	17	56437605	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1354060	56437605	24757605	1195	8004											
CLTC	1213	broad.mit.edu	37	chr17	57744280	57744280	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtggcttctaaatatcaTgaacaactgtcaactcagtc	13	11	7	10	0	4	1	3	1	1	0	5	1	4	1	0	2	3	1	0	2	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:57744280T>C	uc002ixq.1	+	13	2513	c.2070T>C	c.(2068-2070)CAT>CAC	p.H690H	CLTC_uc002ixp.2_Silent_p.H690H|CLTC_uc002ixr.1_Silent_p.H694H	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	690	Heavy chain arm.|Proximal segment.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					CTAAATATCATGAACAACTGT	0.373			T	ALK|TFE3	ALCL|renal 								12	52					0	0	0.001855	0	0		C	57744280	C	C	57744280	2	2	8	1	0	0	0	0	0	0	0	1	3569	1461	51	3		3	CLTC	17	57744280	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1306675	57744280	23450930	1196	8005											
CLTC	1213	broad.mit.edu	37	chr17	57771129	57771129	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcaggacccagtgttgcCgtccctccccaggcaccttt	7	8	9	17	1	0	0	0	0	0	0	2	1	2	1	6	2	2	3	6	2	0	2	rs148633723		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:57771129C>A	uc002ixq.1	+	32	5387	c.4944C>A	c.(4942-4944)GCC>GCA	p.A1648A	CLTC_uc002ixr.1_Silent_p.A1652A	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	1648	Heavy chain arm.|Proximal segment.|Trimerization (By similarity).				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					CCAGTGTTGCCGTCCCTCCCC	0.557			T	ALK|TFE3	ALCL|renal 								14	59					7.93312e-07	8.60533e-07	0.00245	1	0		A	57771129	A	A	57771129	2	1	8	1	0	0	0	0	0	0	0	1	3569	639	23	5		5	CLTC	17	57771129	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	26849	57771129	23424081	1197	8006											
HEATR6	63897	broad.mit.edu	37	chr17	58134524	58134524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgacaatggaaatgcagagtCgaatgagccagcagggctct	13	6	13	9	2	1	2	0	1	1	1	2	5	1	3	1	2	3	3	1	2	3	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:58134524C>T	uc002iyk.1	-	12	1981	c.1964G>A	c.(1963-1965)CGA>CAA	p.R655Q	HEATR6_uc010ddk.1_Missense_Mutation_p.R194Q|HEATR6_uc010wos.1_Missense_Mutation_p.R487Q	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	655							binding			ovary(1)|skin(1)	2	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			AATGCAGAGTCGAATGAGCCA	0.557													30	128					0	0	0.012213	0	0		T	58134524	T	T	58134524	3	4	8	1	0	0	0	0	1	0	0	0	7049	884	31	1	1617	1	HEATR6	17	58134524	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	363395	58134524	23060686	1198	8007											
HEATR6	63897	broad.mit.edu	37	chr17	58147131	58147131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgataggtgttcgcccatCatactgaggaagcggagttg	9	12	13	7	2	1	2	1	2	0	0	2	4	1	4	1	3	2	2	1	3	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:58147131C>T	uc002iyk.1	-	7	897	c.880G>A	c.(880-882)GAT>AAT	p.D294N	HEATR6_uc010wos.1_Missense_Mutation_p.D126N	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	294							binding			ovary(1)|skin(1)	2	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			GTTCGCCCATCATACTGAGGA	0.398													19	101					0	0	0.00278	0	0		T	58147131	T	T	58147131	3	4	8	1	0	0	0	0	1	0	0	0	7049	826	29	4	2721	4	HEATR6	17	58147131	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	12607	58147131	23048079	1199	8008											
TANC2	26115	broad.mit.edu	37	chr17	61497887	61497887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatcagggaggatcttaccGtttcagcccccctcctgtgg	6	11	10	14	1	4	0	3	0	1	0	5	2	5	2	5	3	2	1	5	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:61497887G>A	uc002jal.3	+	25	4567	c.4544G>A	c.(4543-4545)CGT>CAT	p.R1515H	TANC2_uc010wpe.1_3'UTR|TANC2_uc002jao.3_Missense_Mutation_p.R626H	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1515							binding			ovary(2)	2						GGATCTTACCGTTTCAGCCCC	0.597													5	38					0	0	0.001984	0	0		A	61497887	A	A	61497887	3	1	8	1	0	0	0	0	1	0	0	0	15570	1145	40	1	4642	1	TANC2	17	61497887	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3350756	61497887	19697323	1200	8009											
FTSJ3	117246	broad.mit.edu	37	chr17	61898993	61898993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcatcgtcctcgatcccaGcaaagctgccctgtgatagg	8	8	11	14	3	0	1	0	1	0	0	4	2	2	1	3	2	3	3	3	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:61898993G>A	uc002jbz.2	-	15	1685	c.1607C>T	c.(1606-1608)GCT>GTT	p.A536V	FTSJ3_uc002jca.2_Missense_Mutation_p.A536V	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	536					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						CTCGATCCCAGCAAAGCTGCC	0.592													27	124					0	0	0.003271	0	0		A	61898993	A	A	61898993	3	1	8	1	0	0	0	0	1	0	0	0	6103	971	34	2	960	2	FTSJ3	17	61898993	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	401106	61898993	19296217	1201	8010											
SMARCD2	6603	broad.mit.edu	37	chr17	61912092	61912092	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgattgtcaggcccgtaCagctccttgtccagctcaat	8	11	10	12	1	2	1	2	1	0	0	4	1	4	1	3	2	3	3	3	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:61912092C>T	uc010deb.1	-	6	1109	c.792G>A	c.(790-792)CTG>CTA	p.L264L	SMARCD2_uc010wpt.1_Silent_p.L216L|SMARCD2_uc010dea.1_Silent_p.L189L|SMARCD2_uc010dec.1_Silent_p.L243L	NM_001098426	NP_001091896	Q92925	SMRD2_HUMAN	SWI/SNF-related matrix-associated	264					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	SWI/SNF complex	protein binding|transcription coactivator activity				0						CAGGCCCGTACAGCTCCTTGT	0.552											OREG0024642	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	58					0	0	0.013537	0	0		T	61912092	T	T	61912092	2	4	8	1	0	0	0	0	0	0	0	1	14803	465	17	4		4	SMARCD2	17	61912092	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	13099	61912092	19283118	1202	8011											
SCN4A	6329	broad.mit.edu	37	chr17	62020407	62020407	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggatcatgatggtgatgTcgaaggcctgcttcgtcacg	8	11	14	8	3	2	3	2	3	0	0	4	5	2	4	1	3	1	1	1	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:62020407T>C	uc002jds.1	-	23	4144	c.4067A>G	c.(4066-4068)GAC>GGC	p.D1356G		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1356	Helical; Name=S1 of repeat IV; (Potential).|IV.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GATGGTGATGTCGAAGGCCTG	0.552													19	88					0	0	0.008871	0	0		C	62020407	C	C	62020407	3	2	8	1	0	0	0	0	1	0	0	0	13945	1667	58	3	1451	3	SCN4A	17	62020407	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	108315	62020407	19174803	1203	8012											
ARSG	22901	broad.mit.edu	37	chr17	66303763	66303763	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactttgtgattattttggcCgatgacatggggtggggtga	8	14	15	4	1	0	3	0	3	0	0	0	4	0	3	1	5	1	0	1	5	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:66303763C>T	uc002jhc.2	+	2	925	c.129C>T	c.(127-129)GCC>GCT	p.A43A	ARSG_uc002jhb.1_Intron	NM_014960	NP_055775	Q96EG1	ARSG_HUMAN	Arylsulfatase G precursor	43					sulfur compound metabolic process	endoplasmic reticulum|extracellular space|lysosome	arylsulfatase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;5.34e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			TTATTTTGGCCGATGACATGG	0.478													12	49					0	0	0.010729	0	0		T	66303763	T	T	66303763	2	4	8	1	0	0	0	0	0	0	0	1	993	639	23	1		1	ARSG	17	66303763	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	4283356	66303763	14891447	1204	8013											
ABCA8	10351	broad.mit.edu	37	chr17	66937011	66937011	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatgtatctacccgtcccagGtccatggtaagcagtgaaga	12	9	10	10	1	1	2	0	1	1	1	3	2	3	2	3	2	2	3	3	2	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:66937011G>A	uc002jhp.2	-	3	368	c.189C>T	c.(187-189)GAC>GAT	p.D63D	ABCA8_uc002jhq.2_Silent_p.D63D|ABCA8_uc010wqq.1_Silent_p.D63D|ABCA8_uc010wqr.1_Silent_p.D2D|ABCA8_uc002jhr.2_Silent_p.D63D|ABCA8_uc002jhs.2_Silent_p.D63D|ABCA8_uc002jht.2_Silent_p.D63D	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	63						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					CCCGTCCCAGGTCCATGGTAA	0.368													5	58					0	0	0.004482	0	0		A	66937011	A	A	66937011	2	1	8	1	0	0	0	0	0	0	0	1	38	1252	44	4		4	ABCA8	17	66937011	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	633248	66937011	14258199	1205	8014											
ABCA9	10350	broad.mit.edu	37	chr17	66982353	66982353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgagacctttcacggcaGcgtacacctccaggtgctgc	7	9	10	15	2	1	1	1	1	0	1	3	2	3	1	4	2	4	3	4	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:66982353G>A	uc002jhu.2	-	32	4303	c.4160C>T	c.(4159-4161)GCT>GTT	p.A1387V	ABCA9_uc010dez.2_Missense_Mutation_p.A1349V	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1387	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					TTTCACGGCAGCGTACACCTC	0.612													13	74					0	0	0.003163	0	0		A	66982353	A	A	66982353	3	1	8	1	0	0	0	0	1	0	0	0	39	971	34	2	746	2	ABCA9	17	66982353	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	45342	66982353	14212857	1206	8015											
ABCA9	10350	broad.mit.edu	37	chr17	67016664	67016664	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagacaaaacttgttccAgctcaacaaggcttcctata	15	9	7	10	0	1	1	1	0	0	1	3	2	3	2	2	2	3	3	2	2	7	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:67016664A>G	uc002jhu.2	-	19	2608	c.2465T>C	c.(2464-2466)CTG>CCG	p.L822P	ABCA9_uc010dez.2_Missense_Mutation_p.L822P	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	822					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					AACTTGTTCCAGCTCAACAAG	0.408													17	67					0	0	0.00499	0	0		G	67016664	G	G	67016664	3	3	8	1	0	0	0	0	1	0	0	0	39	188	7	3	2493	3	ABCA9	17	67016664	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	34311	67016664	14178546	1207	8016											
ABCA9	10350	broad.mit.edu	37	chr17	67039677	67039677	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgtcatcaatgacgtaatGtattgtctttcttgtgtaac	10	18	7	6	1	4	1	2	1	2	0	4	1	4	1	0	0	1	3	0	0	4	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:67039677G>A	uc002jhu.2	-	6	896	c.753C>T	c.(751-753)TAC>TAT	p.Y251Y	ABCA9_uc010dez.2_Silent_p.Y251Y|ABCA9_uc002jhv.2_Silent_p.Y251Y	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	251					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					ATGACGTAATGTATTGTCTTT	0.323													12	58					0	0	0.013537	0	0		A	67039677	A	A	67039677	2	1	8	1	0	0	0	0	0	0	0	1	39	1372	48	4		4	ABCA9	17	67039677	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	23013	67039677	14155533	1208	8017											
ABCA6	23460	broad.mit.edu	37	chr17	67110969	67110969	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggctgaggttttccttcacGgtgagtatgtcaaattgaac	10	13	11	7	1	2	3	2	3	0	0	3	3	3	3	1	3	1	3	1	3	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:67110969G>A	uc002jhw.1	-	13	1891	c.1716C>T	c.(1714-1716)ACC>ACT	p.T572T	ABCA6_uc002jhx.1_Silent_p.T25T	NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	572	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					TTTCCTTCACGGTGAGTATGT	0.403													13	104					0	0	0.00245	0	0		A	67110969	A	A	67110969	2	1	8	1	0	0	0	0	0	0	0	1	36	1103	39	1		1	ABCA6	17	67110969	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	71292	67110969	14084241	1209	8018											
CDC42EP4	23580	broad.mit.edu	37	chr17	71282053	71282053	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catgcttcagcccgtacgtgGccttgggcacgacaggcaga	8	7	13	13	3	1	1	1	0	0	1	1	2	1	1	2	3	3	4	2	3	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:71282053G>T	uc002jjn.2	-	2	734	c.587C>A	c.(586-588)GCC>GAC	p.A196D	CDC42EP4_uc002jjo.2_Missense_Mutation_p.A196D|CDC42EP4_uc002jjp.1_Missense_Mutation_p.A126D	NM_012121	NP_036253	Q9H3Q1	BORG4_HUMAN	Cdc42 effector protein 4	196					positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|cytoplasm|endomembrane system|membrane|microtubule cytoskeleton	GTP-Rho binding				0			LUSC - Lung squamous cell carcinoma(166;0.0352)|Lung(188;0.0711)			CCCGTACGTGGCCTTGGGCAC	0.632													7	35					0.00198382	0.00208189	0.001984	1	0		T	71282053	T	T	71282053	3	4	8	1	0	0	0	0	1	0	0	0	3081	1203	42	5	487	5	CDC42EP4	17	71282053	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4171084	71282053	9913157	1210	8019											
MRPS7	51081	broad.mit.edu	37	chr17	73259534	73259534	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccatcaagcactgaaaaaCtgtgagcctatgattgggct	12	11	9	9	0	1	3	1	3	0	0	2	3	2	3	2	1	3	2	2	1	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:73259534C>A	uc002jnm.3	+	4	686	c.453C>A	c.(451-453)AAC>AAA	p.N151K	GGA3_uc002jni.1_5'Flank|GGA3_uc002jnj.1_5'Flank|GGA3_uc010wrw.1_5'Flank|GGA3_uc002jnk.1_5'Flank|GGA3_uc010wrx.1_5'Flank|GGA3_uc010wry.1_5'Flank|GGA3_uc010wrz.1_5'Flank|MRPS7_uc002jnl.2_Missense_Mutation_p.N151K|MRPS7_uc002jnn.3_Missense_Mutation_p.N180K	NM_015971	NP_057055	Q9Y2R9	RT07_HUMAN	mitochondrial ribosomal protein S7 precursor	151					translation	cytosolic small ribosomal subunit|mitochondrion	protein binding|RNA binding|structural constituent of ribosome			central_nervous_system(1)	1	all_cancers(13;1.25e-07)|all_epithelial(9;2.63e-08)|Breast(9;1.06e-07)		all cancers(21;3.02e-07)|Epithelial(20;2.92e-06)			CACTGAAAAACTGTGAGCCTA	0.517													69	328					1.34568e-36	1.52171e-36	0.01441	1	0		A	73259534	A	A	73259534	3	1	8	1	0	0	0	0	1	0	0	0	9866	564	20	5	467	5	MRPS7	17	73259534	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1977481	73259534	7935676	1211	8020											
QRICH2	84074	broad.mit.edu	37	chr17	74288203	74288203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaggttgcaccaaaccacGctgatccactccaggttgga	10	8	9	14	1	0	1	0	1	0	0	3	2	3	2	5	3	2	4	5	3	1	2	rs148029652		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:74288203G>A	uc002jrd.1	-	4	2287	c.2107C>T	c.(2107-2109)CGT>TGT	p.R703C	QRICH2_uc010wsz.1_Missense_Mutation_p.R629C|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	703	Gln-rich.						protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						accaaaccacgctgatccact	0													11	49					0	0	0.008291	0	0		A	74288203	A	A	74288203	3	1	8	1	0	0	0	0	1	0	0	0	12905	1087	38	1	2948	1	QRICH2	17	74288203	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1028669	74288203	6907007	1212	8021											
RHBDF2	79651	broad.mit.edu	37	chr17	74470845	74470845	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acccagaagttctcctgctgGatgtacttcacgctctcgta	8	12	8	13	2	3	1	1	0	2	1	5	2	3	2	2	1	2	5	2	1	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:74470845G>T	uc002jrq.1	-	11	1649	c.1356C>A	c.(1354-1356)ATC>ATA	p.I452I	RHBDF2_uc002jrp.1_Silent_p.I423I|RHBDF2_uc002jrr.1_Silent_p.I304I|RHBDF2_uc010wtf.1_Silent_p.I423I	NM_024599	NP_078875	Q6PJF5	RHDF2_HUMAN	rhomboid, veinlet-like 6 isoform 1	452	Lumenal (Potential).				negative regulation of protein secretion|protein transport|proteolysis	endoplasmic reticulum membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity				0						TCTCCTGCTGGATGTACTTCA	0.622													10	48					9.70103e-10	1.0696e-09	0.008291	1	0		T	74470845	T	T	74470845	2	4	8	1	0	0	0	0	0	0	0	1	13345	1164	41	5		5	RHBDF2	17	74470845	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	182642	74470845	6724365	1213	8022											
CYGB	114757	broad.mit.edu	37	chr17	74527577	74527577	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaccttgtgcttgagggCgtgggctttccccacaaggg	5	11	13	12	1	0	1	0	1	0	0	2	1	2	1	4	3	1	2	4	3	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:74527577C>T	uc002jru.1	-	2	498	c.340G>A	c.(340-342)GCC>ACC	p.A114T	CYGB_uc002jrv.1_Missense_Mutation_p.A49T|PRCD_uc002jrw.1_Intron	NM_134268	NP_599030	Q8WWM9	CYGB_HUMAN	cytoglobin	114	Globin.				response to oxidative stress	cytoplasm	heme binding|oxygen binding|oxygen transporter activity|peroxidase activity				0						TGCTTGAGGGCGTGGGCTTTC	0.642													7	21					0	0	0.004482	0	0		T	74527577	T	T	74527577	3	4	8	1	0	0	0	0	1	0	0	0	4142	768	27	1	244	1	CYGB	17	74527577	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	56732	74527577	6667633	1214	8023											
ENGASE	64772	broad.mit.edu	37	chr17	77082376	77082376	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtccccaaggaagggttccGggtacctcaggccgagtggg	7	7	16	11	2	1	0	1	0	0	0	3	2	3	1	5	5	1	2	5	5	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:77082376G>T	uc002jwv.2	+	14	2185	c.2177G>T	c.(2176-2178)CGG>CTG	p.R726L	ENGASE_uc002jww.2_Missense_Mutation_p.R431L	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	726						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						GAAGGGTTCCGGGTACCTCAG	0.647													3	22					0.004672	0.00488768	0.004672	1	0		T	77082376	T	T	77082376	3	4	8	1	0	0	0	0	1	0	0	0	5126	1116	39	5	2231	5	ENGASE	17	77082376	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2554799	77082376	4112834	1215	8024											
CARD14	79092	broad.mit.edu	37	chr17	78176086	78176086	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagggccaaaggggagctgCaggtgcattgcaacgaggtc	10	5	17	9	1	0	0	0	0	0	0	1	2	0	1	1	5	5	5	1	5	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:78176086C>T	uc002jxw.1	+	15	2281	c.2086C>T	c.(2086-2088)CAG>TAG	p.Q696*	CARD14_uc002jxt.1_RNA|CARD14_uc002jxv.2_Nonsense_Mutation_p.Q696*|CARD14_uc010wud.1_RNA	NM_024110	NP_077015	Q9BXL6	CAR14_HUMAN	caspase recruitment domain protein 14 isoform 1	696					activation of NF-kappaB-inducing kinase activity|positive regulation of protein phosphorylation|regulation of apoptosis	aggresome|cytoplasm|plasma membrane	CARD domain binding			ovary(4)|skin(1)	5	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			AGGGGAGCTGCAGGTGCATTG	0.617													7	34					0	0	0.00308	0	0		T	78176086	T	T	78176086	4	4	8	1	0	0	0	0	0	1	0	0	2649	711	25	2	2305	2	CARD14	17	78176086	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1093710	78176086	3019124	1216	8025											
RNF213	57674	broad.mit.edu	37	chr17	78354648	78354648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagacaaggcagacagaaCgcagaccggccacgtgctgg	13	2	14	12	3	0	4	0	0	0	4	0	5	0	4	2	3	2	3	2	3	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:78354648C>T	uc002jyh.1	+	31	8100	c.7877C>T	c.(7876-7878)ACG>ATG	p.T2626M	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.T1008M	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GCAGACAGAACGCAGACCGGC	0.602													25	103					0	0	0.004656	0	0		T	78354648	T	T	78354648	3	4	8	1	0	0	0	0	1	0	0	0	13502	536	19	1	14195	1	RNF213	17	78354648	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	178562	78354648	2840562	1217	8026											
RPTOR	57521	broad.mit.edu	37	chr17	78599546	78599546	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaatgttggtgtggaccctcCcgatgtggtgaagaccacgc	8	9	14	10	2	0	2	0	1	0	1	1	5	1	3	3	3	0	1	3	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:78599546C>A	uc002jyt.1	+	2	1023	c.218C>A	c.(217-219)CCC>CAC	p.P73H	RPTOR_uc002jys.2_Missense_Mutation_p.P73H|RPTOR_uc010wuf.1_5'UTR|RPTOR_uc010wug.1_Missense_Mutation_p.P73H	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	73					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						GTGGACCCTCCCGATGTGGTG	0.498													9	84					3.86212e-05	4.1306e-05	0.008291	1	0		A	78599546	A	A	78599546	3	1	8	1	0	0	0	0	1	0	0	0	13690	623	22	5	224	5	RPTOR	17	78599546	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	244898	78599546	2595664	1218	8027											
GPS1	2873	broad.mit.edu	37	chr17	80011774	80011774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtacgcggccagctacagcGgcctgatgcgcatcgaacgg	9	5	14	13	6	0	1	0	1	0	0	1	2	0	1	2	3	6	3	2	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:80011774G>A	uc002kdl.1	+	3	202	c.157G>A	c.(157-159)GGC>AGC	p.G53S	RFNG_uc002kdj.2_5'Flank|GPS1_uc002kdk.1_Missense_Mutation_p.G93S|GPS1_uc010dij.1_Missense_Mutation_p.G93S|GPS1_uc002kdm.1_Missense_Mutation_p.G37S|GPS1_uc002kdn.1_Missense_Mutation_p.G53S|GPS1_uc002kdo.1_Missense_Mutation_p.G53S|GPS1_uc010wvh.1_Missense_Mutation_p.G45S	NM_004127	NP_004118	Q13098	CSN1_HUMAN	G protein pathway suppressor 1 isoform 2	53					cell cycle|cullin deneddylation|inactivation of MAPK activity|JNK cascade	cytoplasm|signalosome	GTPase inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			CAGCTACAGCGGCCTGATGCG	0.632													5	20					0	0	0.00308	0	0		A	80011774	A	A	80011774	3	1	8	1	0	0	0	0	1	0	0	0	6748	1116	39	1	324	1	GPS1	17	80011774	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1412228	80011774	1183436	1219	8028											
DUS1L	64118	broad.mit.edu	37	chr17	80019841	80019841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccttctgctccttggtgcGtccgtgcaccgtcagcaact	4	11	9	17	3	2	0	1	0	1	0	4	0	4	0	5	1	5	3	5	1	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:80019841G>A	uc002kdq.2	-	5	948	c.529C>T	c.(529-531)CGC>TGC	p.R177C	DUS1L_uc002kdp.2_Missense_Mutation_p.R46C|DUS1L_uc002kdr.2_Missense_Mutation_p.R177C|DUS1L_uc002kds.2_RNA|DUS1L_uc002kdt.2_RNA|DUS1L_uc010wvi.1_Missense_Mutation_p.R160C	NM_022156	NP_071439	Q6P1R4	DUS1L_HUMAN	PP3111 protein	177					tRNA processing		flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity			skin(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			TCCTTGGTGCGTCCGTGCACC	0.448													8	29					0	0	0.006214	0	0		A	80019841	A	A	80019841	3	1	8	1	0	0	0	0	1	0	0	0	4811	1145	40	1	928	1	DUS1L	17	80019841	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	8067	80019841	1175369	1220	8029											
ZNF750	79755	broad.mit.edu	37	chr17	80788993	80788993	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgaggctttgctctggcggGtagagtcttcccagtgcgct	4	12	15	10	2	2	2	0	1	2	1	3	2	3	2	1	3	2	4	1	3	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr17:80788993G>A	uc002kga.2	-	2	1649	c.1338C>T	c.(1336-1338)TAC>TAT	p.Y446Y	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	446						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GCTCTGGCGGGTAGAGTCTTC	0.597													13	38					0	0	0.00245	0	0		A	80788993	A	A	80788993	2	1	8	1	0	0	0	0	0	0	0	1	18157	1256	44	4		4	ZNF750	17	80788993	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	769152	80788993	406217	1221	8030											
C18orf1	753	broad.mit.edu	37	chr18	13621228	13621228	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccacgcggtccttcatcaaCcgcccgaaccagagccggag	9	5	10	17	5	2	1	2	0	0	1	4	3	4	2	6	2	3	0	6	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:13621228C>T	uc002ksa.2	+	5	962	c.294C>T	c.(292-294)AAC>AAT	p.N98N	C18orf1_uc002ksb.2_Silent_p.N98N|C18orf1_uc002kse.2_Silent_p.N61N|C18orf1_uc002ksf.2_Silent_p.N61N|C18orf1_uc002ksg.1_Silent_p.N21N|C18orf1_uc002ksh.1_Silent_p.N40N|C18orf1_uc002ksi.1_Silent_p.N40N	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	98	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		CCTTCATCAACCGCCCGAACC	0.632													7	56					0	0	0.008291	0	0		T	13621228	T	T	13621228	2	4	8	1	0	0	0	0	0	0	0	1	1897	506	18	4		4	C18orf1	18	13621228	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08		13621228	64456020	1222	8031											
POTEC	388468	broad.mit.edu	37	chr18	14542858	14542858	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaccacttgcccatcttGctcctgagcgtcttcataaa	9	11	6	15	1	3	1	1	1	2	0	4	1	4	1	3	0	4	2	3	0	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:14542858G>A	uc010dln.2	-	1	742	c.288C>T	c.(286-288)AGC>AGT	p.S96S	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	96										skin(3)	3						TGCCCATCTTGCTCCTGAGCG	0.612													24	163					0	0	0.00632	0	0		A	14542858	A	A	14542858	2	1	8	1	0	0	0	0	0	0	0	1	12281	1310	46	2		2	POTEC	18	14542858	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	921630	14542858	63534390	1223	8032											
LAMA3	3909	broad.mit.edu	37	chr18	21495282	21495282	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgactaagtttccctccataCaaaggttgtattgaattaga	13	13	7	8	1	0	2	0	1	0	1	2	3	2	2	2	1	1	3	2	1	6	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:21495282C>T	uc002kuq.2	+	59	7760	c.7674C>T	c.(7672-7674)TAC>TAT	p.Y2558Y	LAMA3_uc002kur.2_Silent_p.Y2502Y|LAMA3_uc002kus.3_Silent_p.Y949Y|LAMA3_uc002kut.3_Silent_p.Y893Y	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	2558	Laminin G-like 1.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCCCTCCATACAAAGGTTGTA	0.338													5	48					0	0	0.001168	0	0		T	21495282	T	T	21495282	2	4	8	1	0	0	0	0	0	0	0	1	8623	489	17	4		4	LAMA3	18	21495282	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6952424	21495282	56581966	1224	8033											
DSG3	1830	broad.mit.edu	37	chr18	29038474	29038474	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggagtgggaatcgatcagCcgccttttggaatctttgtt	7	14	12	8	2	2	0	1	0	1	0	3	4	2	3	2	3	1	1	2	3	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:29038474C>T	uc002kws.2	+	4	392	c.283C>T	c.(283-285)CCG>TCG	p.P95S		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	95	Extracellular (Potential).|Cadherin 1.				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			AATCGATCAGCCGCCTTTTGG	0.443													4	75					0	0	0.000602	0	0		T	29038474	T	T	29038474	3	4	8	1	0	0	0	0	1	0	0	0	4784	739	26	2	297	2	DSG3	18	29038474	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	7543192	29038474	49038774	1225	8034											
ASXL3	80816	broad.mit.edu	37	chr18	31323494	31323494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttctgaaaatagcagtgtgCccatgctttttaataaaaat	14	14	6	7	0	1	1	0	1	1	0	1	1	1	1	1	0	3	2	1	0	7	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:31323494C>T	uc010dmg.1	+	12	3737	c.3682C>T	c.(3682-3684)CCC>TCC	p.P1228S	ASXL3_uc002kxq.2_Missense_Mutation_p.P935S	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1228	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TAGCAGTGTGCCCATGCTTTT	0.373													8	67					0	0	0.00308	0	0		T	31323494	T	T	31323494	3	4	8	1	0	0	0	0	1	0	0	0	1069	739	26	2	3728	2	ASXL3	18	31323494	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2285020	31323494	46753754	1226	8035											
ASXL3	80816	broad.mit.edu	37	chr18	31325001	31325001	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgatgccctgaagagagTccctggtgcagggagctcag	9	7	14	11	1	1	2	1	1	0	1	2	5	2	3	3	2	4	2	3	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:31325001T>A	uc010dmg.1	+	12	5244	c.5189T>A	c.(5188-5190)GTC>GAC	p.V1730D	ASXL3_uc002kxq.2_Missense_Mutation_p.V1437D	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1730					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CTGAAGAGAGTCCCTGGTGCA	0.532													8	35					0	0	0.013537	0	0		A	31325001	A	A	31325001	3	1	8	1	0	0	0	0	1	0	0	0	1069	1667	58	5	5235	5	ASXL3	18	31325001	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1507	31325001	46752247	1227	8036											
ASXL3	80816	broad.mit.edu	37	chr18	31326157	31326157	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagaacagttaaaagcattCgcgctaaaaagtgcagattt	18	9	8	6	2	0	2	0	0	0	2	1	2	0	2	0	0	3	4	0	0	7	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:31326157C>T	uc010dmg.1	+	12	6400	c.6345C>T	c.(6343-6345)TTC>TTT	p.F2115F	ASXL3_uc002kxq.2_Silent_p.F1822F	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	2115					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TAAAAGCATTCGCGCTAAAAA	0.413													17	80					0	0	0.004007	0	0		T	31326157	T	T	31326157	2	4	8	1	0	0	0	0	0	0	0	1	1069	883	31	1		1	ASXL3	18	31326157	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1156	31326157	46751091	1228	8037											
FHOD3	80206	broad.mit.edu	37	chr18	34261513	34261513	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggttgcagagaatagagcgGgaagaaagaaacaaattcag	19	5	13	4	1	1	4	1	0	0	4	1	6	1	5	0	2	3	2	0	2	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:34261513G>T	uc002kzt.1	+	12	1522	c.1425G>T	c.(1423-1425)CGG>CGT	p.R475R	FHOD3_uc002kzr.1_Silent_p.R475R|FHOD3_uc002kzs.1_Silent_p.R475R|FHOD3_uc010dmz.1_Silent_p.R190R	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	475	Potential.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				GAATAGAGCGGGAAGAAAGAA	0.403													9	37					1.12685e-05	1.21448e-05	0.004482	1	0		T	34261513	T	T	34261513	2	4	8	1	0	0	0	0	0	0	0	1	5897	1219	43	5		5	FHOD3	18	34261513	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2935356	34261513	43815735	1229	8038											
BCL2	596	broad.mit.edu	37	chr18	60985789	60985789	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggcggcccccgggggcgcGgcgcccacatctcccgcatc	3	3	16	19	6	1	0	0	0	1	0	3	0	1	0	4	6	0	1	4	6	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:60985789G>A	uc002lit.1	-	2	604	c.111C>T	c.(109-111)GCC>GCT	p.A37A	BCL2_uc002liu.1_Silent_p.A37A|BCL2_uc002liv.1_Silent_p.A37A	NM_000633	NP_000624	P10415	BCL2_HUMAN	B-cell lymphoma protein 2 alpha isoform	37					activation of pro-apoptotic gene products|anti-apoptosis|apoptosis in response to endoplasmic reticulum stress|B cell proliferation|B cell receptor signaling pathway|defense response to virus|female pregnancy|humoral immune response|induction of apoptosis by intracellular signals|negative regulation of cellular pH reduction|negative regulation of mitochondrial depolarization|negative regulation of neuron apoptosis|neuron apoptosis|positive regulation of B cell proliferation|positive regulation of cell growth|protein polyubiquitination|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|regulation of transmembrane transporter activity|release of cytochrome c from mitochondria|response to cytokine stimulus|response to DNA damage stimulus|response to drug|response to iron ion|response to nicotine|response to toxin	endoplasmic reticulum membrane|mitochondrial outer membrane|nuclear membrane|pore complex	BH3 domain binding|channel activity|protease binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|ubiquitin protein ligase binding			central_nervous_system(1)	1		all_hematologic(56;1.18e-20)|Prostate(75;0.0872)		Lung(128;0.0234)|READ - Rectum adenocarcinoma(59;0.0935)	Docetaxel(DB01248)|Fludarabine(DB01073)|Melatonin(DB01065)|Paclitaxel(DB01229)|Rasagiline(DB01367)	ccgggggcgcggcgcccACAT	0.527			T	IGH@	NHL|CLL								6	35					0	0	0.001984	0	0		A	60985789	A	A	60985789	2	1	8	1	0	0	0	0	0	0	0	1	1366	1103	39	1		1	BCL2	18	60985789	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	26724276	60985789	17091459	1230	8039											
RTTN	25914	broad.mit.edu	37	chr18	67776813	67776813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgagctccatcccggaaacGcagtgaggttagccatccct	9	8	11	13	2	0	2	0	2	0	0	3	3	3	3	4	2	3	3	4	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:67776813G>A	uc002lkp.2	-	28	3892	c.3824C>T	c.(3823-3825)GCG>GTG	p.A1275V	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.A363V	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1275							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TCCCGGAAACGCAGTGAGGTT	0.507													9	50					0	0	0.004482	0	0		A	67776813	A	A	67776813	3	1	8	1	0	0	0	0	1	0	0	0	13762	1087	38	1	2944	1	RTTN	18	67776813	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	6791024	67776813	10300435	1231	8040											
ZNF407	55628	broad.mit.edu	37	chr18	72343485	72343485	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagaatctcctttccccccGaaagaaattagtgttagttg	12	12	8	9	1	1	2	0	0	1	2	3	4	2	2	4	0	0	2	4	0	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:72343485G>A	uc002llw.2	+	1	567	c.510G>A	c.(508-510)CCG>CCA	p.P170P	ZNF407_uc010xfc.1_Silent_p.P170P|ZNF407_uc010dqu.1_Silent_p.P170P|ZNF407_uc002llu.2_Silent_p.P169P	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	170					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		CTTTCCCCCCGAAAGAAATTA	0.393													12	97					0	0	0.013537	0	0		A	72343485	A	A	72343485	2	1	8	1	0	0	0	0	0	0	0	1	17912	1045	37	1		1	ZNF407	18	72343485	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4566672	72343485	5733763	1232	8041											
ZNF236	7776	broad.mit.edu	37	chr18	74583706	74583706	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcgacagaagtggattcAcgtattcgtgtccgcactgt	10	12	10	9	4	1	1	1	0	0	1	4	3	2	2	1	1	0	2	1	1	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:74583706A>G	uc002lmi.2	+	5	784	c.586A>G	c.(586-588)ACG>GCG	p.T196A	ZNF236_uc002lmj.2_RNA|ZNF236_uc002lmk.1_Missense_Mutation_p.T196A	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	196					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		AAGTGGATTCACGTATTCGTG	0.438													16	77					0	0	0.006122	0	0		G	74583706	G	G	74583706	3	3	8	1	0	0	0	0	1	0	0	0	17814	159	6	3	604	3	ZNF236	18	74583706	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	2240221	74583706	3493542	1233	8042											
GALR1	2587	broad.mit.edu	37	chr18	74980856	74980856	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccaattgtactcatgtgTgataaaagatagagtatcct	15	12	7	7	0	1	3	1	1	0	2	2	3	2	3	2	0	2	2	2	0	7	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr18:74980856T>C	uc002lms.3	+	3	1545	c.1048T>C	c.(1048-1050)TGA>CGA	p.*350R		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	350					digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		TACTCATGTGTGATAAAAGAT	0.388													17	94					0	0	0.006122	0	0		C	74980856	C	C	74980856	4	2	8	1	0	0	0	0	0	0	0	0	6242	1709	59	3	1058	3	GALR1	18	74980856	Nonstop_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	397150	74980856	3096392	1234	8043											
PTBP1	5725	broad.mit.edu	37	chr19	810550	810550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctcccacaggccctcaGtctccgaggaggatctcaag	8	8	9	16	1	4	0	2	0	3	0	8	3	5	2	4	3	0	0	4	3	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:810550G>A	uc002lpr.2	+	13	1499	c.1393G>A	c.(1393-1395)GTC>ATC	p.V465I	PTBP1_uc002lpp.2_Missense_Mutation_p.V491I|PTBP1_uc002lpq.2_Missense_Mutation_p.V484I|PTBP1_uc002lps.2_Missense_Mutation_p.V131I|PTBP1_uc002lpt.2_RNA|PTBP1_uc002lpu.1_Missense_Mutation_p.V461I	NM_031991	NP_114368	P26599	PTBP1_HUMAN	polypyrimidine tract-binding protein 1 isoform	465	RRM 4.				negative regulation of muscle cell differentiation|nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	mRNA binding|nucleotide binding|poly-pyrimidine tract binding|protein binding			kidney(1)|skin(1)	2		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGGCCCTCAGTCTCCGAGGA	0.612													4	32					0	0	0.009096	0	0		A	810550	A	A	810550	3	1	8	1	0	0	0	0	1	0	0	0	12747	1029	36	4	1525	4	PTBP1	19	810550	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08		810550	58318433	1235	8044											
PRTN3	5657	broad.mit.edu	37	chr19	847857	847857	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggaatagactccttcgTgatctggggatgtgccaccc	9	9	11	12	1	1	2	0	1	1	1	3	4	2	4	4	3	1	0	4	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:847857T>C	uc002lqa.1	+	5	683	c.659T>C	c.(658-660)GTG>GCG	p.V220A		NM_002777	NP_002768	P24158	PRTN3_HUMAN	myeloblastin	220	Peptidase S1.				collagen catabolic process|positive regulation of cell proliferation|proteolysis		protein binding|serine-type endopeptidase activity			ovary(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GACTCCTTCGTGATCTGGGGA	0.617													4	7					0	0	0.000602	0	0		C	847857	C	C	847857	3	2	8	1	0	0	0	0	1	0	0	0	12661	1696	59	3	677	3	PRTN3	19	847857	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	37307	847857	58281126	1236	8045											
AP3D1	8943	broad.mit.edu	37	chr19	2102224	2102224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaacaagttgctcagtagcGtggagtcactgcacttcccg	9	10	10	12	2	2	0	2	0	0	0	3	1	3	1	1	1	4	4	1	1	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:2102224G>A	uc002luz.2	-	30	3633	c.3410C>T	c.(3409-3411)ACG>ATG	p.T1137M	AP3D1_uc010dsv.2_Missense_Mutation_p.T227M|AP3D1_uc002luy.2_Missense_Mutation_p.T1096M|AP3D1_uc002lva.2_Missense_Mutation_p.T1199M	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	1137					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTCAGTAGCGTGGAGTCACT	0.507													23	95					0	0	0.004656	0	0		A	2102224	A	A	2102224	3	1	8	1	0	0	0	0	1	0	0	0	746	1145	40	1	55	1	AP3D1	19	2102224	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1254367	2102224	57026759	1237	8046											
AP3D1	8943	broad.mit.edu	37	chr19	2138638	2138638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacgtcagcttgcagaccgCgttcgccttcaccgctatgt	7	11	9	14	5	2	1	2	0	0	1	3	1	2	1	3	0	3	4	3	0	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:2138638C>T	uc002luz.2	-	2	395	c.172G>A	c.(172-174)GCG>ACG	p.A58T	AP3D1_uc002luy.2_Missense_Mutation_p.A58T|AP3D1_uc002lva.2_Missense_Mutation_p.A58T	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	58	HEAT 1.				eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTGCAGACCGCGTTCGCCTTC	0.532													11	84					0	0	0.013537	0	0		T	2138638	T	T	2138638	3	4	8	1	0	0	0	0	1	0	0	0	746	768	27	1	3563	1	AP3D1	19	2138638	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	36414	2138638	56990345	1238	8047											
UBXN6	80700	broad.mit.edu	37	chr19	4453928	4453928	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagggccatatctcaccCtggtttcggatggtgtcctg	6	11	14	10	1	1	0	1	0	1	0	4	3	2	2	3	5	0	1	3	5	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:4453928C>A	uc002man.1	-	2	342	c.246G>T	c.(244-246)CAG>CAT	p.Q82H	UBXN6_uc010dty.1_Missense_Mutation_p.Q29H|UBXN6_uc002mam.1_Missense_Mutation_p.Q29H	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	82						microtubule organizing center|nucleus	protein binding				0						ATATCTCACCCTGGTTTCGGA	0.662													6	32					0.00198382	0.00208189	0.001984	1	0		A	4453928	A	A	4453928	3	1	8	1	0	0	0	0	1	0	0	0	16943	695	24	5	1119	5	UBXN6	19	4453928	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2315290	4453928	54675055	1239	8048											
KDM4B	23030	broad.mit.edu	37	chr19	5047625	5047625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaccttcgcctggcacaccGaggacatggacctgtacagc	9	6	10	16	2	0	0	0	0	0	0	1	3	0	2	5	3	2	2	5	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:5047625G>A	uc002mbq.3	+	6	797	c.571G>A	c.(571-573)GAG>AAG	p.E191K	KDM4B_uc010xil.1_Missense_Mutation_p.E191K|KDM4B_uc010xim.1_Missense_Mutation_p.E191K	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	191	JmjC.	Iron; catalytic (By similarity).			chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						CTGGCACACCGAGGACATGGA	0.632													17	66					0	0	0.006122	0	0		A	5047625	A	A	5047625	3	1	8	1	0	0	0	0	1	0	0	0	8145	1059	37	1	585	1	KDM4B	19	5047625	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	593697	5047625	54081358	1240	8049											
PTPRS	5802	broad.mit.edu	37	chr19	5219994	5219994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcacgaagaggacatagcGgtggccgggctccaggcccc	10	3	15	13	3	0	1	0	0	0	1	1	3	1	2	4	5	2	2	4	5	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:5219994G>A	uc002mbv.2	-	22	3955	c.3721C>T	c.(3721-3723)CGC>TGC	p.R1241C	PTPRS_uc002mbu.1_Missense_Mutation_p.R810C|PTPRS_uc010xin.1_Missense_Mutation_p.R810C|PTPRS_uc002mbw.2_Missense_Mutation_p.R1219C|PTPRS_uc002mbx.2_Missense_Mutation_p.R814C|PTPRS_uc002mby.2_Missense_Mutation_p.R810C	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1241	Extracellular (Potential).				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		AGGACATAGCGGTGGCCGGGC	0.597													8	36					0	0	0.00308	0	0		A	5219994	A	A	5219994	3	1	8	1	0	0	0	0	1	0	0	0	12836	1116	39	1	2193	1	PTPRS	19	5219994	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	172369	5219994	53908989	1241	8050											
PTPRS	5802	broad.mit.edu	37	chr19	5231449	5231449	+	Frame_Shift_Del	DEL	G	-	-																															gcaggatctgagtggtggtcGgggggatgccgttcacctcc																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:5231449delG	uc002mbv.2	-	14	2261	c.2027delC	c.(2026-2028)CCGfs	p.P676fs	PTPRS_uc002mbu.1_Intron|PTPRS_uc010xin.1_Intron|PTPRS_uc002mbw.2_Frame_Shift_Del_p.P663fs|PTPRS_uc002mbx.2_Intron|PTPRS_uc002mby.2_Intron	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	676	Extracellular (Potential).|Fibronectin type-III 4.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		AGTGGTGGTCGGGGGGATGCC	0.667													8	18	---	---	---	---						.	-	5231449	-	-	5231449	7	5	8	1	0	1	0	1	0	0	0	0	12836	1116	39	0	3919	0	PTPRS	19	5231449	Frame_Shift_Del	DEL	G	TCGA-BR-4201-01A-01D-1126-08	11455	5231449	53897534	1242	8051											
ACSBG2	81616	broad.mit.edu	37	chr19	6183243	6183243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggttgagtgagagctcgggaCcccacacgatatccaaccag	11	6	12	12	2	0	2	0	2	0	1	2	5	1	3	4	2	2	2	4	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:6183243C>T	uc002mef.1	+	10	1509	c.1282C>T	c.(1282-1284)CCC>TCC	p.P428S	ACSBG2_uc002mee.1_Missense_Mutation_p.P241S|ACSBG2_uc002meg.1_Missense_Mutation_p.P428S|ACSBG2_uc002meh.1_Missense_Mutation_p.P428S|ACSBG2_uc002mei.1_Missense_Mutation_p.P378S|ACSBG2_uc010xiz.1_Missense_Mutation_p.P428S	NM_030924	NP_112186	Q5FVE4	ACBG2_HUMAN	bubblegum-related acyl-CoA synthetase 2	428					cell differentiation|fatty acid metabolic process|multicellular organismal development|spermatogenesis	membrane|microsome|mitochondrion	acyl-CoA thioesterase activity|ATP binding|long-chain fatty acid-CoA ligase activity			ovary(1)	1						GAGCTCGGGACCCCACACGAT	0.552													10	40					0	0	0.010729	0	0		T	6183243	T	T	6183243	3	4	8	1	0	0	0	0	1	0	0	0	174	507	18	4	1316	4	ACSBG2	19	6183243	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	951794	6183243	52945740	1243	8052											
GPR108	56927	broad.mit.edu	37	chr19	6732509	6732509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcgatgtagtacatgaCggcaaggccttcgatggggt	8	10	16	7	3	0	1	0	1	0	0	1	3	0	1	1	4	2	3	1	4	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:6732509C>T	uc002mfp.2	-	11	1031	c.985G>A	c.(985-987)GTC>ATC	p.V329I	GPR108_uc010duv.2_5'Flank|GPR108_uc002mfn.2_5'UTR|GPR108_uc002mfo.3_Missense_Mutation_p.V87I|GPR108_uc010duw.2_RNA	NM_001080452	NP_001073921	Q9NPR9	GP108_HUMAN	G protein-coupled receptor 108 isoform 1	329						integral to membrane					0						TAGTACATGACGGCAAGGCCT	0.632													5	27					0	0	0.000602	0	0		T	6732509	T	T	6732509	3	4	8	1	0	0	0	0	1	0	0	0	6639	536	19	1	678	1	GPR108	19	6732509	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	549266	6732509	52396474	1244	8053											
VAV1	7409	broad.mit.edu	37	chr19	6821674	6821674	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtcctggaccccgatcgcCcagaacagggggatcatgtg	8	7	13	13	2	1	1	1	0	0	1	3	4	2	3	4	3	1	0	4	3	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:6821674C>A	uc002mfu.1	+	3	460	c.363C>A	c.(361-363)GCC>GCA	p.A121A	VAV1_uc010xjh.1_Silent_p.A121A|VAV1_uc010dva.1_Silent_p.A121A|VAV1_uc002mfv.1_Silent_p.A66A	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	121					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						CCCCGATCGCCCAGAACAGGG	0.637													10	53					3.86212e-05	4.1306e-05	0.008291	1	0		A	6821674	A	A	6821674	2	1	8	1	0	0	0	0	0	0	0	1	17157	610	22	5		5	VAV1	19	6821674	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	89165	6821674	52307309	1245	8054											
MUC16	94025	broad.mit.edu	37	chr19	9011368	9011368	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggtgtaggggcccagctcTttgatgccatgggtcagctg	6	10	16	9	0	2	1	1	1	1	0	2	1	2	1	2	4	3	3	2	4	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:9011368T>G	uc002mkp.2	-	36	39069	c.38865A>C	c.(38863-38865)AAA>AAC	p.K12955N	MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12957	SEA 6.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGCCCAGCTCTTTGATGCCAT	0.547													53	176					0	0	0.01441	0	0		G	9011368	G	G	9011368	3	3	8	1	0	0	0	0	1	0	0	0	9991	1606	56	5	4854	5	MUC16	19	9011368	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2189694	9011368	50117615	1246	8055											
MUC16	94025	broad.mit.edu	37	chr19	9087335	9087335	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaagttcatgagaaggtgTggacataggtggaaaaatag	16	9	14	2	0	1	2	1	2	0	1	1	5	1	4	0	4	0	1	0	4	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:9087335T>C	uc002mkp.2	-	1	4684	c.4480A>G	c.(4480-4482)ACA>GCA	p.T1494A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1494	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGAGAAGGTGTGGACATAGGT	0.428													29	212					0	0	0.012213	0	0		C	9087335	C	C	9087335	3	2	8	1	0	0	0	0	1	0	0	0	9991	1696	59	3	39379	3	MUC16	19	9087335	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	75967	9087335	50041648	1247	8056											
OR7D2	162998	broad.mit.edu	37	chr19	9296531	9296531	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggatccagaactacagcCgttcatatttgggctgttcc	9	12	10	10	1	1	2	1	1	0	1	3	3	3	3	3	2	3	3	3	2	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:9296531C>T	uc002mkz.1	+	1	262	c.74C>T	c.(73-75)CCG>CTG	p.P25L		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	25	Extracellular (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						GAACTACAGCCGTTCATATTT	0.498													14	57					0	0	0.003163	0	0		T	9296531	T	T	9296531	3	4	8	1	0	0	0	0	1	0	0	0	11238	652	23	1	76	1	OR7D2	19	9296531	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	209196	9296531	49832452	1248	8057											
OLFM2	93145	broad.mit.edu	37	chr19	9965414	9965414	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagccgttgtacaccacGtggcccgtgcccgcccacgg	6	5	14	16	5	0	0	0	0	0	0	0	1	0	1	5	3	3	2	5	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:9965414G>A	uc002mmp.2	-	6	841	c.813C>T	c.(811-813)CAC>CAT	p.H271H	OLFM2_uc002mmo.2_Silent_p.H193H	NM_058164	NP_477512	O95897	NOE2_HUMAN	olfactomedin 2 precursor	271	Olfactomedin-like.					extracellular region				large_intestine(1)|skin(1)	2						TGTACACCACGTGGCCCGTGC	0.607													6	8					0	0	0.001984	0	0		A	9965414	A	A	9965414	2	1	8	1	0	0	0	0	0	0	0	1	10872	1136	40	1		1	OLFM2	19	9965414	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	668883	9965414	49163569	1249	8058											
ICAM1	3383	broad.mit.edu	37	chr19	10394931	10394931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggacgagggcacccagcGgctgacgtgtgcagtaatac	11	5	15	10	3	0	2	0	1	0	1	0	4	0	3	1	3	3	4	1	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:10394931G>A	uc002mnq.2	+	4	1179	c.860G>A	c.(859-861)CGG>CAG	p.R287Q	ICAM1_uc010xle.1_Missense_Mutation_p.R65Q|ICAM4_uc002mnr.1_5'Flank|ICAM4_uc002mns.1_5'Flank|ICAM4_uc002mnt.1_5'Flank	NM_000201	NP_000192	P05362	ICAM1_HUMAN	intercellular adhesion molecule 1 precursor	287	Ig-like C2-type 3.|Extracellular (Potential).				adhesion to symbiont|heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking|positive regulation of cellular extravasation|regulation of immune response|regulation of leukocyte mediated cytotoxicity|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell|virion attachment, binding of host cell surface receptor	extracellular space|integral to plasma membrane	integrin binding|transmembrane receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;2.81e-06)|all cancers(31;6.56e-06)		Natalizumab(DB00108)|Simvastatin(DB00641)	GGCACCCAGCGGCTGACGTGT	0.607													7	33					0	0	0.010729	0	0		A	10394931	A	A	10394931	3	1	8	1	0	0	0	0	1	0	0	0	7495	1116	39	1	874	1	ICAM1	19	10394931	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	429517	10394931	48734052	1250	8059											
PDE4A	5141	broad.mit.edu	37	chr19	10568738	10568738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaacaactctaacattccccGatttggggtgaagaccgatc	12	9	9	11	2	1	2	0	1	1	1	3	5	2	2	3	2	3	0	3	2	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:10568738G>A	uc002moj.2	+	8	1169	c.1061G>A	c.(1060-1062)CGA>CAA	p.R354Q	PDE4A_uc002mok.2_Missense_Mutation_p.R328Q|PDE4A_uc002mol.2_Missense_Mutation_p.R293Q|PDE4A_uc002mom.2_Missense_Mutation_p.R115Q|PDE4A_uc002mon.2_Intron|PDE4A_uc002moo.2_5'Flank	NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1	354	Catalytic.				signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)	AACATTCCCCGATTTGGGGTG	0.577													14	49					0	0	0.00499	0	0		A	10568738	A	A	10568738	3	1	8	1	0	0	0	0	1	0	0	0	11658	1058	37	1	1548	1	PDE4A	19	10568738	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	173807	10568738	48560245	1251	8060											
SMARCA4	6597	broad.mit.edu	37	chr19	11143999	11143999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaccgagcccaccgcatcGggcagcagaacgaggtgcgt	10	3	15	13	5	0	1	0	0	0	1	1	4	0	2	3	3	4	3	3	3	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:11143999G>A	uc002mqf.3	+	26	3864	c.3580G>A	c.(3580-3582)GGG>AGG	p.G1194R	SMARCA4_uc010dxp.2_Missense_Mutation_p.G1194R|SMARCA4_uc010dxo.2_Missense_Mutation_p.G1194R|SMARCA4_uc010dxq.2_Missense_Mutation_p.G1194R|SMARCA4_uc010dxr.2_Missense_Mutation_p.G1194R|SMARCA4_uc002mqj.3_Missense_Mutation_p.G1194R|SMARCA4_uc010dxs.2_Missense_Mutation_p.G1194R|SMARCA4_uc010dxt.1_Missense_Mutation_p.G414R|SMARCA4_uc002mqh.3_Missense_Mutation_p.G317R|SMARCA4_uc002mqi.1_Missense_Mutation_p.G397R	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	1194	Helicase C-terminal.				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity			lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				CCACCGCATCGGGCAGCAGAA	0.612			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				11	48					0	0	0.001855	0	0		A	11143999	A	A	11143999	3	1	8	1	0	0	0	0	1	0	0	0	14795	1116	39	1	3678	1	SMARCA4	19	11143999	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	575261	11143999	47984984	1252	8061											
DOCK6	57572	broad.mit.edu	37	chr19	11312679	11312679	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccgtgtgcgcgcccatcCggcgtgaacggcgtgcagaa	6	6	14	15	7	0	2	0	1	0	1	2	2	2	2	4	2	3	1	4	2	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:11312679C>T	uc002mqs.3	-	44	5615	c.5574G>A	c.(5572-5574)CCG>CCA	p.P1858P	DOCK6_uc002mqr.3_Silent_p.P258P|DOCK6_uc010xlq.1_Silent_p.P1197P	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1858	DHR-2.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CGCGCCCATCCGGCGTGAACG	0.592													8	26					0	0	0.004482	0	0		T	11312679	T	T	11312679	2	4	8	1	0	0	0	0	0	0	0	1	4697	639	23	1		1	DOCK6	19	11312679	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	168680	11312679	47816304	1253	8062											
DOCK6	57572	broad.mit.edu	37	chr19	11312758	11312758	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacccggtccttgagctcgTaggtatcaaagtacggttcc	8	11	10	12	3	2	1	2	1	0	0	5	1	4	1	3	3	2	5	3	3	4	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:11312758T>C	uc002mqs.3	-	44	5536	c.5495A>G	c.(5494-5496)TAC>TGC	p.Y1832C	DOCK6_uc002mqr.3_Missense_Mutation_p.Y232C|DOCK6_uc010xlq.1_Missense_Mutation_p.Y1171C	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1832	DHR-2.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CTTGAGCTCGTAGGTATCAAA	0.612													5	38					0	0	0.001168	0	0		C	11312758	C	C	11312758	3	2	8	1	0	0	0	0	1	0	0	0	4697	1638	57	3	668	3	DOCK6	19	11312758	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	79	11312758	47816225	1254	8063											
ZNF799	90576	broad.mit.edu	37	chr19	12501739	12501739	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagtccttctatgttgagaAaggtattggaaacaactgaa	14	12	10	5	0	1	3	0	3	1	1	2	5	2	4	1	2	2	2	1	2	6	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:12501739A>G	uc010dyt.2	-	4	1623	c.1473T>C	c.(1471-1473)CTT>CTC	p.L491L	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	491	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						TATGTTGAGAAAGGTATTGGA	0.363													15	95					0	0	0.004007	0	0		G	12501739	G	G	12501739	2	3	8	1	0	0	0	0	0	0	0	1	18191	1	1	3		3	ZNF799	19	12501739	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1188981	12501739	46627244	1255	8064											
MAST1	22983	broad.mit.edu	37	chr19	12984811	12984811	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagtgcggacaagaagggCgcgctgcgcaaacacagcct	11	5	14	11	4	0	2	0	1	0	1	0	3	0	3	1	2	4	2	1	2	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:12984811C>T	uc002mvm.2	+	26	3968	c.3840C>T	c.(3838-3840)GGC>GGT	p.G1280G		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1280					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						ACAAGAAGGGCGCGCTGCGCA	0.677													3	9					0	0	0.009096	0	0		T	12984811	T	T	12984811	2	4	8	1	0	0	0	0	0	0	0	1	9342	755	27	1		1	MAST1	19	12984811	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	483072	12984811	46144172	1256	8065											
RFX1	5989	broad.mit.edu	37	chr19	14077273	14077273	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgggctggctgaggttgtAcctccagaaggtcttccaca	8	10	12	11	0	1	2	0	1	1	1	3	2	3	2	3	4	1	4	3	4	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:14077273A>G	uc002mxv.2	-	14	2193	c.1921T>C	c.(1921-1923)TAC>CAC	p.Y641H		NM_002918	NP_002909	P22670	RFX1_HUMAN	regulatory factor X1	641					immune response	nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			lung(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			CTGAGGTTGTACCTCCAGAAG	0.647													4	24					0	0	0.000602	0	0		G	14077273	G	G	14077273	3	3	8	1	0	0	0	0	1	0	0	0	13287	391	14	3	1050	3	RFX1	19	14077273	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1092462	14077273	45051710	1257	8066											
CCDC105	126402	broad.mit.edu	37	chr19	15132473	15132473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaggggaactatcctcCggtgtacgaaatataaccaa	14	9	10	8	2	0	2	0	2	0	0	2	4	2	3	3	3	3	1	3	3	7	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:15132473C>T	uc002nae.2	+	5	1186	c.1087C>T	c.(1087-1089)CGG>TGG	p.R363W		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	363					microtubule cytoskeleton organization	microtubule				ovary(1)	1						AACTATCCTCCGGTGTACGAA	0.587													11	49					0	0	0.013537	0	0		T	15132473	T	T	15132473	3	4	8	1	0	0	0	0	1	0	0	0	2743	643	23	1	1105	1	CCDC105	19	15132473	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1055200	15132473	43996510	1258	8067											
EPHX3	79852	broad.mit.edu	37	chr19	15342161	15342161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgcaagtccacagccacaaCatggaagcggctctggaact	12	6	10	13	2	1	0	0	0	1	0	3	2	2	2	2	3	4	2	2	3	4	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:15342161C>T	uc002nap.2	-	3	585	c.376G>A	c.(376-378)GTT>ATT	p.V126I	EPHX3_uc002naq.2_Missense_Mutation_p.V126I	NM_024794	NP_079070	Q9H6B9	EPHX3_HUMAN	abhydrolase domain containing 9 precursor	126						extracellular region	hydrolase activity				0						ACAGCCACAACATGGAAGCGG	0.617													5	24					0	0	0.004482	0	0		T	15342161	T	T	15342161	3	4	8	1	0	0	0	0	1	0	0	0	5189	478	17	4	726	4	EPHX3	19	15342161	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	209688	15342161	43786822	1259	8068											
WIZ	58525	broad.mit.edu	37	chr19	15538021	15538021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagggggctgcccggtggtgGtggcaacttcttggccaagg	5	8	18	10	1	1	0	0	0	1	0	1	0	1	0	2	8	2	2	2	8	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:15538021G>A	uc002nbc.2	-	4	1398	c.1375C>T	c.(1375-1377)CCA>TCA	p.P459S	WIZ_uc002nba.3_Missense_Mutation_p.P326S|WIZ_uc002nbb.3_Missense_Mutation_p.P285S	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	1142	Pro-rich.					nucleus	zinc ion binding				0						CCCGGTGGTGGTGGCAACTTC	0.652													7	23					0	0	0.001984	0	0		A	15538021	A	A	15538021	3	1	8	1	0	0	0	0	1	0	0	0	17401	1261	44	4	1551	4	WIZ	19	15538021	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	195860	15538021	43590962	1260	8069											
C19orf44	84167	broad.mit.edu	37	chr19	16612314	16612314	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaaaacacgaatcaaggCttcagcagcgctaacgtcag	17	5	9	10	3	3	0	3	0	0	0	3	2	3	0	0	1	4	3	0	1	6	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:16612314C>A	uc002neh.1	+	2	784	c.711C>A	c.(709-711)GGC>GGA	p.G237G	MED26_uc002nee.2_Intron|C19orf44_uc002nef.1_Silent_p.G237G|C19orf44_uc002neg.2_Silent_p.G237G|C19orf44_uc010eai.1_RNA	NM_032207	NP_115583	Q9H6X5	CS044_HUMAN	hypothetical protein LOC84167	237											0						CGAATCAAGGCTTCAGCAGCG	0.318													8	91					7.48243e-07	8.1217e-07	0.006214	1	0		A	16612314	A	A	16612314	2	1	8	1	0	0	0	0	0	0	0	1	1930	784	28	5		5	C19orf44	19	16612314	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1074293	16612314	42516669	1261	8070											
SLC35E1	79939	broad.mit.edu	37	chr19	16677452	16677452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccggagatggtggatcCgtgaatctcgcaagacctgg	9	7	15	10	3	1	3	0	1	1	2	3	5	2	4	3	4	1	2	3	4	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:16677452C>T	uc010xph.1	-	4	665	c.647G>A	c.(646-648)CGG>CAG	p.R216Q	MED26_uc002nee.2_RNA|SLC35E1_uc002nem.1_Missense_Mutation_p.R216Q	NM_024881	NP_079157	Q96K37	S35E1_HUMAN	solute carrier family 35, member E1	216					transport	integral to membrane				ovary(1)|central_nervous_system(1)	2						ATGGTGGATCCGTGAATCTCG	0.542													20	51					0	0	0.007413	0	0		T	16677452	T	T	16677452	3	4	8	1	0	0	0	0	1	0	0	0	14609	652	23	1	597	1	SLC35E1	19	16677452	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	65138	16677452	42451531	1262	8071											
JAK3	3718	broad.mit.edu	37	chr19	17943458	17943458	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agctgtttcacggccaccagGgcacctgtattgtcgcctag	7	10	11	13	2	1	0	1	0	0	0	2	0	1	0	4	2	1	4	4	2	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:17943458G>A	uc002nhn.3	-	19	2650	c.2550C>T	c.(2548-2550)GCC>GCT	p.A850A	JAK3_uc010ebh.2_Intron|JAK3_uc002nho.2_Silent_p.A850A	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	850	Protein kinase 2.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						CGGCCACCAGGGCACCTGTAT	0.592		2	Mis		acute megakaryocytic leukemia|								9	48					0	0	0.010729	0	0		A	17943458	A	A	17943458	2	1	8	1	0	0	0	0	0	0	0	1	7955	1219	43	4		4	JAK3	19	17943458	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1266006	17943458	41185525	1263	8072											
KLHL26	55295	broad.mit.edu	37	chr19	18779089	18779089	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtgctgcccttccggcaGcacgagatgcagtctccgcg	6	7	13	15	4	1	1	0	0	1	1	3	2	2	1	3	2	4	4	3	2	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:18779089G>A	uc002njz.1	+	3	909	c.882G>A	c.(880-882)CAG>CAA	p.Q294Q		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	294										ovary(1)	1						CCTTCCGGCAGCACGAGATGC	0.662													5	26					0	0	0.006214	0	0		A	18779089	A	A	18779089	2	1	8	1	0	0	0	0	0	0	0	1	8397	962	34	2		2	KLHL26	19	18779089	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	835631	18779089	40349894	1264	8073											
ARMC6	93436	broad.mit.edu	37	chr19	19165124	19165124	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgagggaccagagcggCgttcaggtatgaagtccccc	10	6	14	11	2	1	4	1	2	0	2	2	5	2	5	3	3	1	2	3	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:19165124C>T	uc002nld.2	+	6	1365	c.1017C>T	c.(1015-1017)GGC>GGT	p.G339G	ARMC6_uc002nlc.2_Silent_p.G314G|ARMC6_uc010xql.1_Silent_p.G246G|ARMC6_uc002nle.2_Silent_p.G314G|ARMC6_uc010xqm.1_Silent_p.G339G	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	339	ARM 3.						protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)			ACCAGAGCGGCGTTCAGGTAT	0.612											OREG0025376	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	26					0	0	0.001168	0	0		T	19165124	T	T	19165124	2	4	8	1	0	0	0	0	0	0	0	1	956	755	27	1		1	ARMC6	19	19165124	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	386035	19165124	39963859	1265	8074											
GMIP	51291	broad.mit.edu	37	chr19	19747568	19747568	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactcgctgccgccacccacGctgtccacatcgctgcccgg	5	6	10	20	5	0	0	0	0	0	0	3	1	1	0	5	1	2	3	5	1	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:19747568G>A	uc002nnd.2	-	13	1392	c.1275C>T	c.(1273-1275)AGC>AGT	p.S425S	GMIP_uc010xrb.1_Silent_p.S425S|GMIP_uc010xrc.1_Silent_p.S422S	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	425					negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						CGCCACCCACGCTGTCCACAT	0.637													4	20					0	0	0.00308	0	0		A	19747568	A	A	19747568	2	1	8	1	0	0	0	0	0	0	0	1	6506	1078	38	1		1	GMIP	19	19747568	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	582444	19747568	39381415	1266	8075											
ZNF536	9745	broad.mit.edu	37	chr19	31039431	31039431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcctcccagaggaagtccGagaaatctcagtatgaaccc	13	7	9	12	1	1	3	1	1	1	2	5	5	4	4	4	1	1	1	4	1	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:31039431G>A	uc002nsu.1	+	4	3043	c.2905G>A	c.(2905-2907)GAG>AAG	p.E969K	ZNF536_uc010edd.1_Missense_Mutation_p.E969K	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	969					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GAGGAAGTCCGAGAAATCTCA	0.592													31	137					0	0	0.012213	0	0		A	31039431	A	A	31039431	3	1	8	1	0	0	0	0	1	0	0	0	17999	1059	37	1	2915	1	ZNF536	19	31039431	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	11291863	31039431	28089552	1267	8076											
TSHZ3	57616	broad.mit.edu	37	chr19	31769889	31769889	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcagcaccttctgggcGtcttccttcccttccatttc	4	15	5	17	1	3	0	1	0	2	0	7	0	6	0	4	1	1	1	4	1	0	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:31769889G>A	uc002nsy.3	-	2	875	c.810C>T	c.(808-810)GAC>GAT	p.D270D		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	270					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CCTTCTGGGCGTCTTCCTTCC	0.512													33	123					0	0	0.003755	0	0		A	31769889	A	A	31769889	2	1	8	1	0	0	0	0	0	0	0	1	16651	1136	40	1		1	TSHZ3	19	31769889	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	730458	31769889	27359094	1268	8077											
GPATCH1	55094	broad.mit.edu	37	chr19	33621034	33621034	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttctgttttcttttccAggctgaaaagtcttccacta	7	19	5	10	0	4	1	0	1	4	0	6	1	6	1	2	1	0	2	2	1	3	8			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:33621034A>C	uc002nug.1	+	20	3080	c.2766_splice	c.e20-2	p.R922_splice	GPATCH1_uc002nuh.1_Splice_Site_p.R299_splice|WDR88_uc002nui.2_5'Flank	NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1							catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					TTTCTTTTCCAGGCTGAAAAG	0.458													12	84					0	0	0.010729	0	0		C	33621034	C	C	33621034	5	2	8	1	0	0	0	0	0	0	1	0	6605	202	7	5	2842	5	GPATCH1	19	33621034	Splice_Site	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1851145	33621034	25507949	1269	8078											
LRP3	4037	broad.mit.edu	37	chr19	33697607	33697607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagggcctcattccacccGtggaggactttcctgtctac	6	10	9	16	1	2	0	1	0	1	0	4	2	4	2	5	3	1	0	5	3	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:33697607G>A	uc010edh.2	+	6	1786	c.1693G>A	c.(1693-1695)GTG>ATG	p.V565M	LRP3_uc010xrp.1_3'UTR|LRP3_uc002nuk.3_Missense_Mutation_p.V439M	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	565	Cytoplasmic (Potential).				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					CATTCCACCCGTGGAGGACTT	0.677													7	38					0	0	0.001984	0	0		A	33697607	A	A	33697607	3	1	8	1	0	0	0	0	1	0	0	0	8976	1145	40	1	1715	1	LRP3	19	33697607	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	76573	33697607	25431376	1270	8079											
GRAMD1A	57655	broad.mit.edu	37	chr19	35514416	35514416	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggtgcacaagtggaggCagatcctgcgggcctccgtg	7	7	17	10	2	0	1	0	0	0	1	2	3	2	3	3	5	2	2	3	5	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:35514416C>T	uc010xse.1	+	19	2184	c.2047C>T	c.(2047-2049)CAG>TAG	p.Q683*	GRAMD1A_uc002nxk.2_Nonsense_Mutation_p.Q672*|GRAMD1A_uc002nxl.2_Nonsense_Mutation_p.Q445*|GRAMD1A_uc010xsf.1_Nonsense_Mutation_p.Q684*|GRAMD1A_uc002nxm.1_RNA|GRAMD1A_uc002nxn.1_Nonsense_Mutation_p.Q294*	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	683						integral to membrane					0	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			CAAGTGGAGGCAGATCCTGCG	0.667													4	14					0	0	0.009096	0	0		T	35514416	T	T	35514416	4	4	8	1	0	0	0	0	0	1	0	0	6763	711	25	2	2121	2	GRAMD1A	19	35514416	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1816809	35514416	23614567	1271	8080											
KRTDAP	388533	broad.mit.edu	37	chr19	35981334	35981334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaccacggcaggaaggaccGggatcttcatggcgtcaagt	10	6	14	11	3	3	0	2	0	1	0	3	3	3	3	2	5	0	2	2	5	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:35981334G>A	uc002nzh.2	-	1	23	c.11C>T	c.(10-12)CCG>CTG	p.P4L		NM_207392	NP_997275	P60985	KTDAP_HUMAN	keratinocyte differentiation-associated protein	4					cell differentiation	extracellular region					0	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			AGGAAGGACCGGGATCTTCAT	0.597													6	70					0	0	0.004482	0	0		A	35981334	A	A	35981334	3	1	8	1	0	0	0	0	1	0	0	0	8596	1116	39	1	312	1	KRTDAP	19	35981334	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	466918	35981334	23147649	1272	8081											
PRODH2	58510	broad.mit.edu	37	chr19	36290978	36290978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcctggcagcagccgccGccacagttcttggctgagca	7	7	12	15	2	1	1	0	1	1	0	2	1	2	1	4	2	3	6	4	2	0	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:36290978G>A	uc002obx.1	-	11	1591	c.1573C>T	c.(1573-1575)CGG>TGG	p.R525W	uc002obw.1_5'Flank	NM_021232	NP_067055	Q9UF12	PROD2_HUMAN	kidney and liver proline oxidase 1	525					glutamate biosynthetic process|proline catabolic process		proline dehydrogenase activity	p.R525W(1)		ovary(2)	2	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGCAGCCGCCGCCACAGTTCT	0.617													4	9					0	0	0.001168	0	0		A	36290978	A	A	36290978	3	1	8	1	0	0	0	0	1	0	0	0	12571	1086	38	1	41	1	PRODH2	19	36290978	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	309644	36290978	22838005	1273	8082											
ZNF527	84503	broad.mit.edu	37	chr19	37879513	37879513	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagaaagttcctaccataCagcaagtacataaatttgat	18	10	5	8	0	0	2	0	1	0	1	1	2	1	2	2	0	5	3	2	0	8	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:37879513C>T	uc010efk.1	+	5	673	c.562C>T	c.(562-564)CAG>TAG	p.Q188*	ZNF527_uc002ogf.3_Nonsense_Mutation_p.Q156*|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	188					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCCTACCATACAGCAAGTACA	0.338													14	79					0	0	0.00245	0	0		T	37879513	T	T	37879513	4	4	8	1	0	0	0	0	0	1	0	0	17993	479	17	4	576	4	ZNF527	19	37879513	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1588535	37879513	21249470	1274	8083											
SIPA1L3	23094	broad.mit.edu	37	chr19	38673271	38673271	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttcagctctccgcctccGtccccaagtccttcttctcc	3	13	4	21	2	4	0	1	0	3	0	9	0	7	0	8	0	1	1	8	0	1	3	rs139858184	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:38673271G>A	uc002ohk.2	+	16	4830	c.4321G>A	c.(4321-4323)GTC>ATC	p.V1441I		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1441					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CTCCGCCTCCGTCCCCAAGTC	0.622													15	52					0	0	0.006122	0	0		A	38673271	A	A	38673271	3	1	8	1	0	0	0	0	1	0	0	0	14356	1145	40	1	4375	1	SIPA1L3	19	38673271	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	793758	38673271	20455712	1275	8084											
RYR1	6261	broad.mit.edu	37	chr19	38959976	38959976	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctgcagcttgggacctggCcaggtgggtcatctgaacct	6	10	14	11	0	3	1	1	1	2	0	3	2	3	2	3	4	3	2	3	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:38959976C>T	uc002oit.2	+	27	3718	c.3588C>T	c.(3586-3588)GGC>GGT	p.G1196G	RYR1_uc002oiu.2_Silent_p.G1196G	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1196	6 X approximate repeats.|Cytoplasmic.|B30.2/SPRY 2.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TGGGACCTGGCCAGGTGGGTC	0.408													13	74					0	0	0.00245	0	0		T	38959976	T	T	38959976	2	4	8	1	0	0	0	0	0	0	0	1	13793	726	26	2		2	RYR1	19	38959976	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	286705	38959976	20169007	1276	8085											
RYR1	6261	broad.mit.edu	37	chr19	38976392	38976392	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcacgccctggaggaCgcgcacctgccaggcccact	6	5	12	18	3	0	0	0	0	0	0	0	2	0	2	4	3	3	3	4	3	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:38976392C>T	uc002oit.2	+	34	5227	c.5097C>T	c.(5095-5097)GAC>GAT	p.D1699D	RYR1_uc002oiu.2_Silent_p.D1699D	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1699	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CCCTGGAGGACGCGCACCTGC	0.657													8	35					0	0	0.00308	0	0		T	38976392	T	T	38976392	2	4	8	1	0	0	0	0	0	0	0	1	13793	535	19	1		1	RYR1	19	38976392	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	16416	38976392	20152591	1277	8086											
RYR1	6261	broad.mit.edu	37	chr19	38993326	38993326	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcgttcgctcaccaaggcGcagcgtgacgtcatcgagga	8	7	14	12	6	2	1	2	1	0	0	5	3	2	2	1	3	1	3	1	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:38993326G>A	uc002oit.2	+	48	7924	c.7794G>A	c.(7792-7794)GCG>GCA	p.A2598A	RYR1_uc002oiu.2_Silent_p.A2598A|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2598	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TCACCAAGGCGCAGCGTGACG	0.512													5	11					0	0	0.00308	0	0		A	38993326	A	A	38993326	2	1	8	1	0	0	0	0	0	0	0	1	13793	1074	38	1		1	RYR1	19	38993326	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	16934	38993326	20135657	1278	8087											
FCGBP	8857	broad.mit.edu	37	chr19	40368650	40368650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtatggagggagccagtgtgCcattagggaagacctggtca	10	8	16	7	0	1	1	1	0	0	1	1	4	1	4	3	4	2	1	3	4	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:40368650C>T	uc002omp.3	-	28	12706	c.12698G>A	c.(12697-12699)GGC>GAC	p.G4233D		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4233	VWFD 10.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			AGCCAGTGTGCCATTAGGGAA	0.642													6	55					0	0	0.004482	0	0		T	40368650	T	T	40368650	3	4	8	1	0	0	0	0	1	0	0	0	5792	739	26	2	3555	2	FCGBP	19	40368650	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1375324	40368650	18760333	1279	8088											
SPTBN4	57731	broad.mit.edu	37	chr19	40996007	40996007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccacgcgcggccgcatgcGgatccactcactggagaacg	8	4	13	16	6	1	1	1	0	0	1	2	3	2	2	3	3	2	1	3	3	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:40996007G>A	uc002ony.2	+	4	433	c.347G>A	c.(346-348)CGG>CAG	p.R116Q	SPTBN4_uc002onx.2_Missense_Mutation_p.R116Q|SPTBN4_uc002onz.2_Missense_Mutation_p.R116Q	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	116	CH 1.|Actin-binding.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GGCCGCATGCGGATCCACTCA	0.662													6	22					0	0	0.001984	0	0		A	40996007	A	A	40996007	3	1	8	1	0	0	0	0	1	0	0	0	15146	1116	39	1	357	1	SPTBN4	19	40996007	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	627357	40996007	18132976	1280	8089											
CEACAM7	1087	broad.mit.edu	37	chr19	42190985	42190985	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttacatatcctataattcGatagttggcatgcacccttt	10	17	5	9	1	0	0	0	0	0	0	2	1	1	0	2	1	2	3	2	1	5	9			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:42190985G>A	uc002ori.1	-	2	234	c.232C>T	c.(232-234)CGA>TGA	p.R78*	CEACAM7_uc010ehx.2_Nonsense_Mutation_p.R78*|CEACAM7_uc010ehy.1_Nonsense_Mutation_p.R78*	NM_006890	NP_008821	Q14002	CEAM7_HUMAN	carcinoembryonic antigen-related cell adhesion	78	Ig-like V-type.					anchored to membrane|integral to membrane|plasma membrane				ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.0027)|all cancers(3;0.00979)|Epithelial(262;0.0366)		CCTATAATTCGATAGTTGGCA	0.458													17	86					0	0	0.004007	0	0		A	42190985	A	A	42190985	4	1	8	1	0	0	0	0	0	1	0	0	3200	1066	37	1	577	1	CEACAM7	19	42190985	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1194978	42190985	16937998	1281	8090											
CIC	23152	broad.mit.edu	37	chr19	42797150	42797150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggcccccaaggcccagcGgcccagcccgaaggcccccc	7	1	12	21	2	0	0	0	0	0	0	0	1	0	0	8	4	2	0	8	4	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:42797150G>A	uc002otf.1	+	15	3552	c.3512G>A	c.(3511-3513)CGG>CAG	p.R1171Q		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1171	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				AAGGCCCAGCGGCCCAGCCCG	0.652			T	DUX4	soft tissue sarcoma								6	29					0	0	0.00308	0	0		A	42797150	A	A	42797150	3	1	8	1	0	0	0	0	1	0	0	0	3427	1116	39	1	3570	1	CIC	19	42797150	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	606165	42797150	16331833	1282	8091											
LIPE	3991	broad.mit.edu	37	chr19	42909697	42909697	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttctggtctgagttggagtgGtcctccgtctttgcacctgc	3	15	12	11	1	3	1	0	1	3	0	5	2	5	2	3	3	2	2	3	3	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:42909697G>A	uc002otr.2	-	8	2659	c.2382C>T	c.(2380-2382)GAC>GAT	p.D794D	uc010eif.1_Intron	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	794					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				AGTTGGAGTGGTCCTCCGTCT	0.587													6	37					0	0	0.001168	0	0		A	42909697	A	A	42909697	2	1	8	1	0	0	0	0	0	0	0	1	8838	1252	44	4		4	LIPE	19	42909697	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	112547	42909697	16219286	1283	8092											
PSG1	5669	broad.mit.edu	37	chr19	43375950	43375950	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggtgactgggtcactgcgGctggcactcactgggttccg	5	9	16	11	2	2	1	2	1	0	0	3	1	3	1	1	5	1	3	1	5	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:43375950G>A	uc002ovb.2	-	3	816	c.678C>T	c.(676-678)AGC>AGT	p.S226S	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Silent_p.S226S|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_RNA|PSG1_uc002our.1_Silent_p.S226S|PSG1_uc010eio.1_Silent_p.S226S|PSG1_uc002oux.1_Silent_p.S155S|PSG1_uc002ouy.1_Silent_p.S226S|PSG1_uc002ouz.1_Silent_p.S226S|PSG1_uc002ova.1_Intron|PSG1_uc002ovc.2_Intron|PSG1_uc002ovd.1_Silent_p.S226S	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	226	Ig-like C2-type 1.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				GGTCACTGCGGCTGGCACTCA	0.537													54	250					0	0	0.01441	0	0		A	43375950	A	A	43375950	2	1	8	1	0	0	0	0	0	0	0	1	12675	1194	42	2		2	PSG1	19	43375950	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	466253	43375950	15753033	1284	8093											
BCAM	4059	broad.mit.edu	37	chr19	45315631	45315631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcactgctgaggccactgCgcggctcaacgtgtttggta	7	9	14	11	3	1	1	1	1	0	0	1	1	1	1	1	4	3	5	1	4	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:45315631C>T	uc002ozu.2	+	3	460	c.416C>T	c.(415-417)GCG>GTG	p.A139V	BCAM_uc002ozt.1_Missense_Mutation_p.A139V	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	139	Extracellular (Potential).|Ig-like V-type 1.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				GAGGCCACTGCGCGGCTCAAC	0.682													3	7					0	0	0.004672	0	0		T	45315631	T	T	45315631	3	4	8	1	0	0	0	0	1	0	0	0	1345	768	27	1	426	1	BCAM	19	45315631	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1939681	45315631	13813352	1285	8094											
BCAM	4059	broad.mit.edu	37	chr19	45321843	45321843	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctctaaacagcagtgcagtCgtgaactgctccgtgcacgg	9	8	11	13	3	1	1	0	1	1	0	3	1	2	1	2	1	6	4	2	1	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:45321843C>T	uc002ozu.2	+	9	1187	c.1143C>T	c.(1141-1143)GTC>GTT	p.V381V	BCAM_uc002ozt.1_Silent_p.V381V	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	381	Extracellular (Potential).|Ig-like C2-type 2.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				GCAGTGCAGTCGTGAACTGCT	0.647													6	26					0	0	0.001984	0	0		T	45321843	T	T	45321843	2	4	8	1	0	0	0	0	0	0	0	1	1345	871	31	1		1	BCAM	19	45321843	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	6212	45321843	13807140	1286	8095											
PNMAL1	55228	broad.mit.edu	37	chr19	46974273	46974273	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaatcctccagaaggttcAtcgccatggtcttggacatt	10	11	8	12	1	2	1	1	0	1	1	5	2	4	2	4	3	0	1	4	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:46974273A>G	uc002peq.3	-	2	326	c.20T>C	c.(19-21)ATG>ACG	p.M7T	PNMAL1_uc002per.3_Missense_Mutation_p.M7T	NM_018215	NP_060685	Q86V59	PNML1_HUMAN	PNMA-like 1 isoform a	7											0		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000166)|all cancers(93;0.0014)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		cagaaggttcatcgccatggt	0													12	55					0	0	0.003163	0	0		G	46974273	G	G	46974273	3	3	8	1	0	0	0	0	1	0	0	0	12176	217	8	3	1329	3	PNMAL1	19	46974273	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1652430	46974273	12154710	1287	8096											
NTN5	126147	broad.mit.edu	37	chr19	49173894	49173894	+	Frame_Shift_Del	DEL	C	-	-																															ggaaggtcaccctttcagggCcccctaaggccccaggccag																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:49173894delC	uc002pkb.2	-	2	446	c.350delG	c.(349-351)GGCfs	p.G117fs	SEC1_uc010xzv.1_Intron|SEC1_uc002pka.2_Intron|SEC1_uc010xzw.1_Intron|SEC1_uc010ema.2_Intron|NTN5_uc002pkc.2_Frame_Shift_Del_p.G117fs	NM_145807	NP_665806	Q8WTR8	NET5_HUMAN	netrin 5 precursor	117						extracellular region				large_intestine(1)|pancreas(1)	2						CCTTTCAGGGCCCCCTAAGGC	0.701													2	4	---	---	---	---						.	-	49173894	-	-	49173894	7	5	8	1	0	1	0	1	0	0	0	0	10722	739	26	0	1143	0	NTN5	19	49173894	Frame_Shift_Del	DEL	C	TCGA-BR-4201-01A-01D-1126-08	2199621	49173894	9955089	1288	8097											
PRR12	57479	broad.mit.edu	37	chr19	50118249	50118249	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcggaaaccctggcatcgGcccccagtgccagtcaggta	8	6	12	15	2	1	0	1	0	0	0	3	1	1	1	4	4	2	3	4	4	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:50118249G>A	uc002poo.3	+	8	5007	c.5007G>A	c.(5005-5007)CGG>CGA	p.R1669R		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	848	Pro-rich.						DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		CCTGGCATCGGCCCCCAGTGC	0.517													5	32					0	0	0.000602	0	0		A	50118249	A	A	50118249	2	1	8	1	0	0	0	0	0	0	0	1	12606	1190	42	2		2	PRR12	19	50118249	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	944355	50118249	9010734	1289	8098											
PRR12	57479	broad.mit.edu	37	chr19	50123625	50123625	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagagcgggcagtacctggGcgtctgctcaaaaccagggc	9	5	15	12	2	2	1	1	0	1	1	2	1	2	1	2	3	4	4	2	3	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:50123625G>A	uc002poo.3	+	10	5514	c.5514G>A	c.(5512-5514)GGG>GGA	p.G1838G		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	1017							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		CAGTACCTGGGCGTCTGCTCA	0.458													6	16					0	0	0.00308	0	0		A	50123625	A	A	50123625	2	1	8	1	0	0	0	0	0	0	0	1	12606	1190	42	2		2	PRR12	19	50123625	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	5376	50123625	9005358	1290	8099											
PRR12	57479	broad.mit.edu	37	chr19	50124783	50124783	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtcctcgtccatcagaCgagctgtacctgccccccat	7	9	7	18	2	1	1	1	0	0	1	4	2	3	1	7	0	3	2	7	0	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:50124783C>T	uc002poo.3	+	11	5625	c.5625C>T	c.(5623-5625)GAC>GAT	p.D1875D		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	1054							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		GTCCATCAGACGAGCTGTACC	0.512													4	13					0	0	0.009096	0	0		T	50124783	T	T	50124783	2	4	8	1	0	0	0	0	0	0	0	1	12606	550	19	1		1	PRR12	19	50124783	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1158	50124783	9004200	1291	8100											
VRK3	51231	broad.mit.edu	37	chr19	50482461	50482461	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcggcttctcctcatacgTgagggccatcaccaccttca	7	9	10	15	2	4	1	3	1	1	0	5	1	4	1	4	3	1	1	4	3	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:50482461T>C	uc002prg.2	-	14	1413	c.1315A>G	c.(1315-1317)ACG>GCG	p.T439A	VRK3_uc002prh.1_Missense_Mutation_p.T439A|VRK3_uc002pri.1_Missense_Mutation_p.T389A|VRK3_uc010ens.2_Missense_Mutation_p.T439A|VRK3_uc010ybl.1_Missense_Mutation_p.T389A|VRK3_uc010ybm.1_Missense_Mutation_p.T208A	NM_016440	NP_057524	Q8IV63	VRK3_HUMAN	vaccinia related kinase 3 isoform 1	439	Protein kinase.					nucleus	ATP binding|protein kinase activity			stomach(1)|skin(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00166)|OV - Ovarian serous cystadenocarcinoma(262;0.00652)		TCCTCATACGTGAGGGCCATC	0.582													6	34					0	0	0.00308	0	0		C	50482461	C	C	50482461	3	2	8	1	0	0	0	0	1	0	0	0	17247	1696	59	3	113	3	VRK3	19	50482461	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	357678	50482461	8646522	1292	8101											
MYH14	79784	broad.mit.edu	37	chr19	50726368	50726368	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagtccattctctgcacGtgagtaatctggaaggactt	10	11	10	10	1	2	1	0	1	2	0	4	4	3	3	2	2	1	2	2	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:50726368G>A	uc002prr.1	+	4	637	c.590_splice	c.e4+1	p.T197_splice	MYH14_uc010enu.1_Splice_Site_p.T197_splice|MYH14_uc002prq.1_Splice_Site_p.T197_splice	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2						axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		TTCTCTGCACGTGAGTAATCT	0.572													5	131					0	0	0.000602	0	0		A	50726368	A	A	50726368	5	1	8	1	0	0	0	0	0	0	1	0	10051	1159	40	1	601	1	MYH14	19	50726368	Splice_Site	SNP	G	TCGA-BR-4201-01A-01D-1126-08	243907	50726368	8402615	1293	8102											
NAPSA	9476	broad.mit.edu	37	chr19	50864954	50864954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcaggattccatctaccCgcccagttccatattgaatg	9	11	7	14	2	2	1	1	1	1	0	4	2	4	2	4	1	1	2	4	1	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:50864954C>T	uc002prx.2	-	4	487	c.434G>A	c.(433-435)CGG>CAG	p.R145Q	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	145					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		TCCATCTACCCGCCCAGTTCC	0.517													13	81					0	0	0.013537	0	0		T	50864954	T	T	50864954	3	4	8	1	0	0	0	0	1	0	0	0	10184	652	23	1	852	1	NAPSA	19	50864954	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	138586	50864954	8264029	1294	8103											
SPIB	6689	broad.mit.edu	37	chr19	50926203	50926203	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctacgaaccccccacctAcagccctgcagggaacctcg	9	5	8	19	2	0	0	0	0	0	0	1	2	0	1	6	1	7	2	6	1	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:50926203A>G	uc002psd.2	+	4	273	c.248A>G	c.(247-249)TAC>TGC	p.Y83C	SPIB_uc002pse.2_Missense_Mutation_p.Y83C|SPIB_uc010ycc.1_Intron	NM_003121	NP_003112	Q01892	SPIB_HUMAN	Spi-B transcription factor (Spi-1/PU.1 related)	83					regulation of transcription from RNA polymerase II promoter	cytoplasm|microtubule cytoskeleton|nucleus	sequence-specific DNA binding			lung(1)|kidney(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		CCCCCCACCTACAGCCCTGCA	0.682													3	15					0	0	0.001168	0	0		G	50926203	G	G	50926203	3	3	8	1	0	0	0	0	1	0	0	0	15075	391	14	3	262	3	SPIB	19	50926203	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	61249	50926203	8202780	1295	8104											
LIM2	3982	broad.mit.edu	37	chr19	51883795	51883795	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcactgccacccagcccaGgatgtaggaccaggaaaagc	13	3	12	13	0	0	0	0	0	0	0	0	4	0	3	4	3	4	2	4	3	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:51883795G>T	uc002pwm.2	-	4	468	c.424C>A	c.(424-426)CTG>ATG	p.L142M	LIM2_uc002pwl.2_Missense_Mutation_p.L184M	NM_001161748	NP_001155220	P55344	LMIP_HUMAN	lens intrinsic membrane protein 2, 19kDa isoform	142	Helical; (Potential).				cell-cell junction assembly	cell junction|integral to membrane	structural constituent of eye lens				0		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000214)|OV - Ovarian serous cystadenocarcinoma(262;0.00985)		ACCCAGCCCAGGATGTAGGAC	0.612													24	117					2.08973e-25	2.36151e-25	0.005443	1	0		T	51883795	T	T	51883795	3	4	8	1	0	0	0	0	1	0	0	0	8811	991	35	5	105	5	LIM2	19	51883795	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	957592	51883795	7245188	1296	8105											
FPR3	2359	broad.mit.edu	37	chr19	52328045	52328045	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttcacctcctgaggagacGgagttacaagcaatgtgagg	11	8	13	9	1	1	3	1	2	0	1	2	5	2	4	2	3	2	3	2	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:52328045G>A	uc002pxt.1	+	2	1228	c.1044G>A	c.(1042-1044)ACG>ACA	p.T348T		NM_002030	NP_002021	P25089	FPR3_HUMAN	formyl peptide receptor-like 2	348	Cytoplasmic (Potential).				cellular component movement|chemotaxis	integral to membrane|plasma membrane	N-formyl peptide receptor activity	p.T348M(1)		lung(4)|breast(1)|skin(1)	6						CTGAGGAGACGGAGTTACAAG	0.458													5	31					0	0	0.001168	0	0		A	52328045	A	A	52328045	2	1	8	1	0	0	0	0	0	0	0	1	6054	1103	39	1		1	FPR3	19	52328045	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	444250	52328045	6800938	1297	8106											
ZNF350	59348	broad.mit.edu	37	chr19	52471832	52471832	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgtgggttctctcaccTgaacaggctccactgtggat	6	13	11	11	0	3	1	1	1	2	0	5	2	4	2	2	3	1	2	2	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:52471832T>C	uc002pyd.2	-	4	465	c.237A>G	c.(235-237)TCA>TCG	p.S79S	uc002pyb.2_Intron|uc002pyc.2_Intron	NM_021632	NP_067645	Q9GZX5	ZN350_HUMAN	zinc finger protein 350	79	KRAB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix|transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			breast(1)	1		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0179)		TTCTCTCACCTGAACAGGCTC	0.478													12	52					0	0	0.00245	0	0		C	52471832	C	C	52471832	2	2	8	1	0	0	0	0	0	0	0	1	17888	1594	55	3		3	ZNF350	19	52471832	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	143787	52471832	6657151	1298	8107											
PPP2R1A	5518	broad.mit.edu	37	chr19	52719049	52719049	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagctccagaaagcagtgggGcctgagatcaccaagacaga	14	4	12	11	0	1	4	1	1	0	4	2	5	2	4	3	2	2	2	3	2	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:52719049G>A	uc002pyp.2	+	7	984	c.825G>A	c.(823-825)GGG>GGA	p.G275G	PPP2R1A_uc010ydk.1_Silent_p.G220G|PPP2R1A_uc010epm.1_Silent_p.G315G|PPP2R1A_uc002pyq.2_Silent_p.G96G	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	275	HEAT 7.|PP2A subunit B binding.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		AAGCAGTGGGGCCTGAGATCA	0.483			Mis		clear cell ovarian carcinoma								6	54					0	0	0.001984	0	0		A	52719049	A	A	52719049	2	1	8	1	0	0	0	0	0	0	0	1	12404	1190	42	2		2	PPP2R1A	19	52719049	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	247217	52719049	6409934	1299	8108											
ZNF331	55422	broad.mit.edu	37	chr19	54080491	54080491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggaaaggcctttcggcGtggtgatgagctcactcagc	7	10	14	10	2	2	2	2	2	0	0	3	3	2	3	1	4	2	1	1	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:54080491G>A	uc002qbx.1	+	7	2111	c.677G>A	c.(676-678)CGT>CAT	p.R226H	ZNF331_uc002qby.1_Missense_Mutation_p.R226H|ZNF331_uc002qbz.1_Missense_Mutation_p.R226H|ZNF331_uc002qca.1_Missense_Mutation_p.R226H|ZNF331_uc010eqr.1_Missense_Mutation_p.R226H|ZNF331_uc002qcb.1_Missense_Mutation_p.R226H|ZNF331_uc002qcc.1_Missense_Mutation_p.R226H|ZNF331_uc002qcd.1_Missense_Mutation_p.R226H	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	226	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		GCCTTTCGGCGTGGTGATGAG	0.463			T	?	follicular thyroid adenoma								23	81					0	0	0.00278	0	0		A	54080491	A	A	54080491	3	1	8	1	0	0	0	0	1	0	0	0	17874	1145	40	1	687	1	ZNF331	19	54080491	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1361442	54080491	5048492	1300	8109											
VSTM1	284415	broad.mit.edu	37	chr19	54567029	54567029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agggagaggaattctgcggtCatagcgtcccttctgccaga	9	9	13	10	2	3	2	1	0	2	2	4	4	4	3	2	3	3	0	2	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:54567029C>T	uc002qcw.3	-	1	179	c.3G>A	c.(1-3)ATG>ATA	p.M1I	VSTM1_uc010erb.2_RNA|VSTM1_uc002qcx.3_Missense_Mutation_p.M1I	NM_198481	NP_940883	Q6UX27	VSTM1_HUMAN	V-set and transmembrane domain containing 1	1						integral to membrane					0	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.165)		ATTCTGCGGTCATAGCGTCCC	0.622													15	84					0	0	0.00499	0	0		T	54567029	T	T	54567029	3	4	8	1	0	0	0	0	1	0	0	0	17254	826	29	4	743	4	VSTM1	19	54567029	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	486538	54567029	4561954	1301	8110											
LILRB4	11006	broad.mit.edu	37	chr19	55177749	55177749	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgagccagagcccaaggaCgggggcctacagaggaggta	11	2	17	11	2	0	2	0	0	0	2	0	5	0	4	4	5	3	1	4	5	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:55177749C>T	uc002qgp.2	+	8	1295	c.933C>T	c.(931-933)GAC>GAT	p.D311D	LILRB4_uc002qgq.2_Silent_p.D311D|LILRB4_uc002qgr.2_Silent_p.D352D|LILRB4_uc010ert.2_Silent_p.D352D|LILRB4_uc010eru.2_Silent_p.D340D	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	311	Cytoplasmic (Potential).					integral to membrane|plasma membrane	antigen binding|receptor activity			ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)		AGCCCAAGGACGGGGGCCTAC	0.602													8	28					0	0	0.008291	0	0		T	55177749	T	T	55177749	2	4	8	1	0	0	0	0	0	0	0	1	8809	535	19	1		1	LILRB4	19	55177749	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	610720	55177749	3951234	1302	8111											
KIR3DP1	768329	broad.mit.edu	37	chr19	55301539	55301539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttaaggcaggagagagcGtgaccttgtcctgcagctcc	8	9	14	10	1	0	2	0	1	0	1	2	4	2	3	3	3	3	4	3	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:55301539G>A	uc010yfi.1	+	5	719	c.718G>A	c.(718-720)GTG>ATG	p.V240M	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL4_uc010yfl.1_Intron	NM_001015070	NP_001015070			killer-cell Ig-like receptor												0				GBM - Glioblastoma multiforme(193;0.0192)		AGGAGAGAGCGTGACCTTGTC	0.562													6	27					0	0	0.00245	0	0		A	55301539	A	A	55301539	3	1	8	1	0	0	0	0	1	0	0	0	8339	1145	40	1	736	1	KIR3DP1	19	55301539	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	123790	55301539	3827444	1303	8112											
NLRP2	55655	broad.mit.edu	37	chr19	55481397	55481397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaagatggtgtcttcggCgcagatgggcttcaacctgc	8	9	14	10	2	2	2	1	0	1	2	3	3	2	3	1	4	2	2	1	4	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:55481397C>T	uc002qij.2	+	2	100	c.14C>T	c.(13-15)GCG>GTG	p.A5V	NLRP2_uc010yfp.1_Missense_Mutation_p.A5V|NLRP2_uc010esn.2_Missense_Mutation_p.A5V|NLRP2_uc010eso.2_Missense_Mutation_p.A5V|NLRP2_uc010esp.2_Missense_Mutation_p.A5V	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	5	DAPIN.				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		GTGTCTTCGGCGCAGATGGGC	0.547													9	51					0	0	0.006214	0	0		T	55481397	T	T	55481397	3	4	8	1	0	0	0	0	1	0	0	0	10496	768	27	1	16	1	NLRP2	19	55481397	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	179858	55481397	3647586	1304	8113											
ZNF835	90485	broad.mit.edu	37	chr19	57176390	57176390	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgatatggttcttgggatTcggctgaattcatcgcgttc	6	15	11	9	4	2	1	1	1	1	0	6	3	2	2	0	3	0	3	0	3	2	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:57176390T>C	uc010ygo.1	-	2	243	c.243A>G	c.(241-243)CGA>CGG	p.R81R	ZNF835_uc010ygn.1_Silent_p.R59R	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						TTCTTGGGATTCGGCTGAATT	0.622													4	16					0	0	0.009096	0	0		C	57176390	C	C	57176390	2	2	8	1	0	0	0	0	0	0	0	1	18211	1770	62	3		3	ZNF835	19	57176390	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1694993	57176390	1952593	1305	8114											
ZIM2	23619	broad.mit.edu	37	chr19	57286130	57286130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaggtatgagggtcggcCgaaacatttcccacatagct	11	9	12	9	2	0	2	0	2	0	0	2	3	1	2	2	3	2	2	2	3	3	3	rs138640675		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:57286130C>T	uc002qnr.2	-	11	1892	c.1510G>A	c.(1510-1512)GGC>AGC	p.G504S	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Missense_Mutation_p.G300S|ZIM2_uc010ygr.1_Missense_Mutation_p.G300S|ZIM2_uc002qnq.2_Missense_Mutation_p.G504S|ZIM2_uc010etp.2_Missense_Mutation_p.G504S|ZIM2_uc010ygs.1_Missense_Mutation_p.G504S	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	504	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		GAGGGTCGGCCGAAACATTTC	0.443													13	68					0	0	0.00245	0	0		T	57286130	T	T	57286130	3	4	8	1	0	0	0	0	1	0	0	0	17709	652	23	1	77	1	ZIM2	19	57286130	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	109740	57286130	1842853	1306	8115											
ZNF805	390980	broad.mit.edu	37	chr19	57765977	57765977	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaaaaactttttgaatgTcaccactgaggaaaatcttt	14	12	9	6	0	2	2	1	2	1	0	2	4	2	4	1	3	1	0	1	3	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:57765977T>C	uc010ygt.1	+	4	1997	c.1790T>C	c.(1789-1791)GTC>GCC	p.V597A	ZNF805_uc010ygu.1_Missense_Mutation_p.V464A	NM_001023563	NP_001018857	Q5CZA5	ZN805_HUMAN	zinc finger protein 805 isoform 1	597					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTTTGAATGTCACCACTGAG	0.408													7	41					0	0	0.001984	0	0		C	57765977	C	C	57765977	3	2	8	1	0	0	0	0	1	0	0	0	18197	1667	58	3	1804	3	ZNF805	19	57765977	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	479847	57765977	1363006	1307	8116											
ZNF543	125919	broad.mit.edu	37	chr19	57839233	57839233	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaaatgcaagaagtccacTtgaaaatagggataggcccc	15	7	10	9	0	0	3	0	2	0	1	1	4	1	4	3	2	1	1	3	2	7	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:57839233T>C	uc002qoi.1	+	4	748	c.403T>C	c.(403-405)TTG>CTG	p.L135L		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		AGAAGTCCACTTGAAAATAGG	0.478													12	51					0	0	0.010729	0	0		C	57839233	C	C	57839233	2	2	8	1	0	0	0	0	0	0	0	1	18001	1606	56	3		3	ZNF543	19	57839233	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	73256	57839233	1289750	1308	8117											
ZNF749	388567	broad.mit.edu	37	chr19	57956447	57956447	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaccttatgagtgtagtgAatgtgggaaattttttagag	13	14	12	2	0	0	4	0	2	0	2	0	5	0	5	1	1	0	1	1	1	6	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:57956447A>G	uc002qoq.2	+	3	2185	c.1931A>G	c.(1930-1932)GAA>GGA	p.E644G	ZNF547_uc002qpm.3_Intron	NM_001023561	NP_001018855	O43361	ZN749_HUMAN	zinc finger protein 749	644	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)|Lung(386;0.177)		GAGTGTAGTGAATGTGGGAAA	0.373													7	70					0	0	0.001984	0	0		G	57956447	G	G	57956447	3	3	8	1	0	0	0	0	1	0	0	0	18156	246	9	3	1941	3	ZNF749	19	57956447	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	117214	57956447	1172536	1309	8118											
ZNF772	400720	broad.mit.edu	37	chr19	57985255	57985255	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttctccagtgtggactCtctggtgttgaacaagtgag	7	13	12	9	0	2	2	0	2	2	0	4	3	2	3	2	2	1	1	2	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:57985255C>A	uc002qot.2	-	5	1118	c.857G>T	c.(856-858)AGA>ATA	p.R286I	ZNF547_uc002qpm.3_Intron|ZNF772_uc010ygy.1_Missense_Mutation_p.R245I|ZNF772_uc010ygz.1_Missense_Mutation_p.R174I|ZNF772_uc010yha.1_Missense_Mutation_p.R232I|ZNF772_uc002qou.2_Missense_Mutation_p.R174I	NM_001024596	NP_001019767	Q68DY9	ZN772_HUMAN	zinc finger protein 772 isoform 1	286	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)|Lung(386;0.174)		AGTGTGGACTCTCTGGTGTTG	0.488													25	84					3.99451e-17	4.49583e-17	0.009535	1	0		A	57985255	A	A	57985255	3	1	8	1	0	0	0	0	1	0	0	0	18170	913	32	5	616	5	ZNF772	19	57985255	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	28808	57985255	1143728	1310	8119											
ZNF552	79818	broad.mit.edu	37	chr19	58319993	58319993	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtttcatgcatcctccacaGctgtaatggctttttccccc	6	15	6	14	0	1	0	1	0	0	0	4	0	4	0	4	1	2	5	4	1	1	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:58319993G>T	uc002qqg.2	-	3	809	c.639C>A	c.(637-639)AGC>AGA	p.S213R	ZNF587_uc002qqb.2_Intron|ZNF552_uc010yhg.1_Missense_Mutation_p.S209R	NM_024762	NP_079038	Q9H707	ZN552_HUMAN	zinc finger protein 552	213	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		ATCCTCCACAGCTGTAATGGC	0.473													15	62					9.16793e-09	1.00619e-08	0.00499	1	0		T	58319993	T	T	58319993	3	4	8	1	0	0	0	0	1	0	0	0	18009	962	34	5	588	5	ZNF552	19	58319993	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	334738	58319993	808990	1311	8120											
ZNF606	80095	broad.mit.edu	37	chr19	58490096	58490096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacatttattgcattcatagGgtttttctccagtatgagtc	9	17	7	8	0	2	1	1	1	1	0	4	1	2	1	1	1	1	3	1	1	3	8			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:58490096G>A	uc002qqw.2	-	7	2570	c.1952C>T	c.(1951-1953)CCC>CTC	p.P651L	ZNF606_uc010yhp.1_Missense_Mutation_p.P561L	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	651					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		GCATTCATAGGGTTTTTCTCC	0.398													10	81					0	0	0.008291	0	0		A	58490096	A	A	58490096	3	1	8	1	0	0	0	0	1	0	0	0	18057	1232	43	4	430	4	ZNF606	19	58490096	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	170103	58490096	638887	1312	8121											
ZSCAN1	284312	broad.mit.edu	37	chr19	58564966	58564966	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaggaacactgaccagagCggccgccaccagccatccct	12	3	9	17	2	0	2	0	1	0	1	1	3	1	3	6	2	4	0	6	2	2	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:58564966C>T	uc002qrc.1	+	6	1021	c.774C>T	c.(772-774)AGC>AGT	p.S258S		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	258					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		CTGACCAGAGCGGCCGCCACC	0.632													5	16					0	0	0.000602	0	0		T	58564966	T	T	58564966	2	4	8	1	0	0	0	0	0	0	0	1	18251	767	27	1		1	ZSCAN1	19	58564966	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	74870	58564966	564017	1313	8122											
ZNF274	10782	broad.mit.edu	37	chr19	58724502	58724502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgaaagaagaaacagcctaCctcatagctctcaagccagt	15	6	8	12	1	2	2	2	0	1	2	3	3	2	2	3	0	5	1	3	0	6	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:58724502C>T	uc002qrq.1	+	10	2414	c.1955C>T	c.(1954-1956)ACC>ATC	p.T652I	ZNF274_uc002qrr.1_Missense_Mutation_p.T620I|ZNF274_uc002qrs.1_Missense_Mutation_p.T547I|ZNF274_uc010eum.1_Missense_Mutation_p.T411I	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	652					viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		AAACAGCCTACCTCATAGCTC	0.463													19	68					0	0	0.00278	0	0		T	58724502	T	T	58724502	3	4	8	1	0	0	0	0	1	0	0	0	17834	507	18	4	1980	4	ZNF274	19	58724502	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	159536	58724502	404481	1314	8123											
ZBTB45	84878	broad.mit.edu	37	chr19	59028801	59028801	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaactctaccagctgtcgCactgtctgcgcgggcaccac	8	7	11	15	3	2	0	0	0	2	0	3	1	2	1	2	2	4	3	2	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr19:59028801C>T	uc002qtd.2	-	2	532	c.240G>A	c.(238-240)GTG>GTA	p.V80V	ZBTB45_uc002qte.2_Silent_p.V80V|ZBTB45_uc002qtf.2_Silent_p.V80V	NM_032792	NP_116181	Q96K62	ZBT45_HUMAN	zinc finger and BTB domain containing 45	80	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0165)|Lung(386;0.18)		CCAGCTGTCGCACTGTCTGCG	0.647											OREG0025700	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	26					0	0	0.004482	0	0		T	59028801	T	T	59028801	2	4	8	1	0	0	0	0	0	0	0	1	17571	697	25	2		2	ZBTB45	19	59028801	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	304299	59028801	100182	1315	8124											
TGM3	7053	broad.mit.edu	37	chr20	2308989	2308989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgctcgcatggacgtcacGgacaagtacaagtacccaga	14	6	10	11	3	1	1	1	0	0	1	2	3	1	3	1	2	3	4	1	2	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:2308989G>A	uc002wfx.3	+	9	1408	c.1311G>A	c.(1309-1311)ACG>ACA	p.T437T		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	437					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	TGGACGTCACGGACAAGTACA	0.567													8	42					0	0	0.004482	0	0		A	2308989	A	A	2308989	2	1	8	1	0	0	0	0	0	0	0	1	15856	1103	39	1		1	TGM3	20	2308989	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08		2308989	60716531	1316	8125											
FAM113A	64773	broad.mit.edu	37	chr20	2820491	2820491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagctgctggacttccgagGcctggaagtggaccatgtcg	7	8	15	11	2	0	0	0	0	0	0	2	4	1	3	3	4	2	3	3	4	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:2820491G>A	uc002wgz.1	-	2	565	c.68C>T	c.(67-69)GCC>GTC	p.A23V	FAM113A_uc002whb.1_5'UTR|FAM113A_uc002wha.1_5'UTR|FAM113A_uc010zqa.1_5'UTR|FAM113A_uc002whc.1_Missense_Mutation_p.A23V|VPS16_uc002whe.2_5'Flank|VPS16_uc002whf.2_5'Flank|VPS16_uc002whd.2_5'Flank	NM_022760	NP_073597	Q9H1Q7	F113A_HUMAN	hypothetical protein LOC64773	23							hydrolase activity|protein binding			ovary(2)	2						GACTTCCGAGGCCTGGAAGTG	0.622													7	76					0	0	0.00308	0	0		A	2820491	A	A	2820491	3	1	8	1	0	0	0	0	1	0	0	0	5412	1203	42	2	1324	2	FAM113A	20	2820491	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	511502	2820491	60205029	1317	8126											
SMOX	54498	broad.mit.edu	37	chr20	4167954	4167954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccggtgaggccacccaccGcaagtactattccaccaccc	9	7	7	18	2	0	1	0	1	0	0	2	1	2	1	7	2	1	2	7	2	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:4167954G>A	uc002wkm.1	+	7	1769	c.1568G>A	c.(1567-1569)CGC>CAC	p.R523H	SMOX_uc002wkk.1_Missense_Mutation_p.R500H|SMOX_uc002wkl.1_Missense_Mutation_p.R470H|SMOX_uc002wkn.1_Missense_Mutation_p.R158H|SMOX_uc002wkp.2_Missense_Mutation_p.R553H|SMOX_uc010zqo.1_Missense_Mutation_p.R447H|SMOX_uc002wko.1_Missense_Mutation_p.R523H	NM_175839	NP_787033	Q9NWM0	SMOX_HUMAN	spermine oxidase isoform 1	523					polyamine biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	polyamine oxidase activity			breast(1)	1					Spermine(DB00127)	GCCACCCACCGCAAGTACTAT	0.647													7	38					0	0	0.001984	0	0		A	4167954	A	A	4167954	3	1	8	1	0	0	0	0	1	0	0	0	14828	1087	38	1	1684	1	SMOX	20	4167954	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1347463	4167954	58857566	1318	8127											
PROKR2	128674	broad.mit.edu	37	chr20	5282888	5282888	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcatggcgatgcactcgAccacgtagaaggcagtgagg	10	7	14	10	3	1	2	1	1	0	1	2	4	1	2	1	3	2	4	1	3	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:5282888A>G	uc010zqw.1	-	2	953	c.953T>C	c.(952-954)GTC>GCC	p.V318A	PROKR2_uc010zqx.1_Missense_Mutation_p.V318A|PROKR2_uc010zqy.1_Missense_Mutation_p.V318A	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	318	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GATGCACTCGACCACGTAGAA	0.517										HNSCC(71;0.22)			13	108					0	0	0.00245	0	0		G	5282888	G	G	5282888	3	3	8	1	0	0	0	0	1	0	0	0	12575	275	10	3	204	3	PROKR2	20	5282888	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	1114934	5282888	57742632	1319	8128											
PLCB4	5332	broad.mit.edu	37	chr20	9404516	9404516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atatcgacacatttcccttcGaaatgagggaaataaaccat	16	10	6	9	2	0	1	0	1	0	0	3	4	1	2	2	1	1	0	2	1	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:9404516G>A	uc002wnf.2	+	26	2541	c.2405G>A	c.(2404-2406)CGA>CAA	p.R802Q	PLCB4_uc010gbw.1_Missense_Mutation_p.R802Q|PLCB4_uc010gbx.2_Missense_Mutation_p.R814Q|PLCB4_uc002wne.2_Missense_Mutation_p.R802Q|PLCB4_uc002wnh.2_Missense_Mutation_p.R649Q	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	802					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						ATTTCCCTTCGAAATGAGGGA	0.408													8	50					0	0	0.006214	0	0		A	9404516	A	A	9404516	3	1	8	1	0	0	0	0	1	0	0	0	12049	1058	37	1	2539	1	PLCB4	20	9404516	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4121628	9404516	53621004	1320	8129											
ZNF133	7692	broad.mit.edu	37	chr20	18295755	18295755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgatcctttctgccctcCgggtttctccagtcagaaat	6	13	7	15	2	3	1	1	0	2	1	7	2	5	1	5	1	1	1	5	1	1	2	rs151186857	byFrequency	TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:18295755C>T	uc010gcq.2	+	5	565	c.260C>T	c.(259-261)CCG>CTG	p.P87L	ZNF133_uc010zrv.1_Missense_Mutation_p.P90L|ZNF133_uc010zrw.1_Missense_Mutation_p.P24L|ZNF133_uc010gcr.2_Missense_Mutation_p.P87L|ZNF133_uc010zrx.1_5'UTR|ZNF133_uc002wql.3_Missense_Mutation_p.P86L|ZNF133_uc010gcs.2_Missense_Mutation_p.P86L|ZNF133_uc010zry.1_5'UTR|ZNF133_uc002wqm.2_Missense_Mutation_p.P87L	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	87						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2						TTCTGCCCTCCGGGTTTCTCC	0.532													13	93					0	0	0.003163	0	0		T	18295755	T	T	18295755	3	4	8	1	0	0	0	0	1	0	0	0	17748	652	23	1	267	1	ZNF133	20	18295755	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	8891239	18295755	44729765	1321	8130											
PAX1	5075	broad.mit.edu	37	chr20	21687619	21687619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccggggtcccgggcacggCgggccacgtcagcatcccgc	4	3	15	19	6	1	0	1	0	0	0	3	0	3	0	5	5	1	2	5	5	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:21687619C>T	uc002wsj.2	+	2	884	c.830C>T	c.(829-831)GCG>GTG	p.A277V	PAX1_uc010zsl.1_Missense_Mutation_p.A277V|PAX1_uc010zsm.1_Missense_Mutation_p.A253V	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	277					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						CCGGGCACGGCGGGCCACGTC	0.667													4	11					0	0	0.000602	0	0		T	21687619	T	T	21687619	3	4	8	1	0	0	0	0	1	0	0	0	11497	768	27	1	836	1	PAX1	20	21687619	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	3391864	21687619	41337901	1322	8131											
GGTLC1	92086	broad.mit.edu	37	chr20	23967095	23967095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggttgatggtgctggtggCggacacagcactgccgtcct	6	9	16	10	2	0	1	0	1	0	0	1	3	1	2	2	5	3	3	2	5	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:23967095C>T	uc002wts.2	-	2	287	c.154G>A	c.(154-156)GCC>ACC	p.A52T	GGTLC1_uc002wtu.2_Missense_Mutation_p.A52T	NM_178312	NP_842564	Q9BX51	GGTL1_HUMAN	gamma-glutamyltransferase light chain 1	52							gamma-glutamyltransferase activity			ovary(1)	1						GTGCTGGTGGCGGACACAGCA	0.627													6	17					0	0	0.001168	0	0		T	23967095	T	T	23967095	3	4	8	1	0	0	0	0	1	0	0	0	6380	768	27	1	543	1	GGTLC1	20	23967095	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2279476	23967095	39058425	1323	8132											
PYGB	5834	broad.mit.edu	37	chr20	25239910	25239910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggaattctacatgggtcGcacgctgcagaacacgatgg	10	8	12	11	3	1	1	0	0	1	1	2	3	1	2	1	3	3	3	1	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:25239910G>A	uc002wup.2	+	2	390	c.281G>A	c.(280-282)CGC>CAC	p.R94H		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	94					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	TACATGGGTCGCACGCTGCAG	0.493													14	48					0	0	0.004007	0	0		A	25239910	A	A	25239910	3	1	8	1	0	0	0	0	1	0	0	0	12885	1087	38	1	287	1	PYGB	20	25239910	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1272815	25239910	37785610	1324	8133											
SUN5	140732	broad.mit.edu	37	chr20	31590444	31590444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagggcttggtcattgttgcGgacaggcaacaggatgttgt	8	12	15	6	1	1	0	1	0	0	0	1	2	1	2	0	5	2	4	0	5	2	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:31590444G>A	uc002wyi.2	-	3	253	c.160C>T	c.(160-162)CGC>TGC	p.R54C		NM_080675	NP_542406	Q8TC36	SUN5_HUMAN	sperm associated antigen 4-like	54					spermatogenesis					skin(1)	1						TCATTGTTGCGGACAGGCAAC	0.438													16	33					0	0	0.00499	0	0		A	31590444	A	A	31590444	3	1	8	1	0	0	0	0	1	0	0	0	15419	1116	39	1	1023	1	SUN5	20	31590444	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	6350534	31590444	31435076	1325	8134											
NCOA6	23054	broad.mit.edu	37	chr20	33356268	33356268	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgagtgggaggtcttaccTggaccacttgccataggaaa	11	10	12	8	0	1	1	0	1	1	0	1	4	1	4	3	4	2	0	3	4	3	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:33356268T>C	uc002xav.2	-	6	3084	c.513A>G	c.(511-513)CCA>CCG	p.P171P	NCOA6_uc002xaw.2_Silent_p.P171P|NCOA6_uc010gew.1_Silent_p.P171P	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	171	TBP/GTF2A-binding region.|NCOA1-binding region.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						AGGTCTTACCTGGACCACTTG	0.458													17	103					0	0	0.00499	0	0		C	33356268	C	C	33356268	2	2	8	1	0	0	0	0	0	0	0	1	10252	1594	55	3		3	NCOA6	20	33356268	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	1765824	33356268	29669252	1326	8135											
RBM39	9584	broad.mit.edu	37	chr20	34295045	34295045	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagtccattacttacgttTgagggttaaacatgttagag	13	14	9	5	1	0	2	0	1	0	1	1	2	1	2	1	1	3	3	1	1	7	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:34295045T>C	uc002xeb.2	-	14	1648	c.1304A>G	c.(1303-1305)CAA>CGA	p.Q435R	RBM39_uc002xdz.2_Missense_Mutation_p.Q411R|RBM39_uc002xea.2_Missense_Mutation_p.Q278R|RBM39_uc010gfn.2_Missense_Mutation_p.Q278R|RBM39_uc010zvm.1_Missense_Mutation_p.Q407R|RBM39_uc002xeg.2_Missense_Mutation_p.Q413R|RBM39_uc002xec.2_Missense_Mutation_p.Q429R|RBM39_uc002xed.2_Missense_Mutation_p.Q153R|RBM39_uc002xee.2_Missense_Mutation_p.Q278R|RBM39_uc002xef.2_Missense_Mutation_p.Q272R|RBM39_uc010zvn.1_Missense_Mutation_p.Q278R	NM_184234	NP_909122	Q14498	RBM39_HUMAN	RNA binding motif protein 39 isoform a	435	Interaction with NCOA6 (By similarity).				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	centrosome|nuclear speck	nucleotide binding|protein binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_epithelial(2;0.00295)|Lung NSC(9;0.00453)|Breast(12;0.00544)|all_lung(11;0.00676)					TACTTACGTTTGAGGGTTAAA	0.294													8	58					0	0	0.006214	0	0		C	34295045	C	C	34295045	3	2	8	1	0	0	0	0	1	0	0	0	13158	1812	63	3	304	3	RBM39	20	34295045	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	938777	34295045	28730475	1327	8136											
SLC32A1	140679	broad.mit.edu	37	chr20	37357184	37357184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccaagtcttcttcgacGtcgccatcttcgtcatcggc	6	11	9	15	5	4	0	1	0	3	0	8	1	4	0	2	2	0	1	2	2	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:37357184G>A	uc002xjc.2	+	2	1743	c.1480G>A	c.(1480-1482)GTC>ATC	p.V494I		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	494	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CTTCTTCGACGTCGCCATCTT	0.647													7	16					0	0	0.008291	0	0		A	37357184	A	A	37357184	3	1	8	1	0	0	0	0	1	0	0	0	14590	1145	40	1	1486	1	SLC32A1	20	37357184	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3062139	37357184	25668336	1328	8137											
CHD6	84181	broad.mit.edu	37	chr20	40081539	40081539	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcaaacgagttgtagtgtTtggtctgctttctcacgcga	7	14	10	10	3	3	0	2	0	2	0	4	2	3	0	1	1	2	4	1	1	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:40081539T>G	uc002xka.1	-	21	3342	c.3164A>C	c.(3163-3165)AAA>ACA	p.K1055T		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1055					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				GTTGTAGTGTTTGGTCTGCTT	0.483													4	68					0	0	0.009096	0	0		G	40081539	G	G	40081539	3	3	8	1	0	0	0	0	1	0	0	0	3332	1841	64	5	5051	5	CHD6	20	40081539	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2724355	40081539	22943981	1329	8138											
SFRS6	6431	broad.mit.edu	37	chr20	42089154	42089154	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcattgtttttctcctaataGgtctcgatctagaagacggt	9	16	8	8	2	4	2	1	0	3	2	6	3	4	2	1	2	0	1	1	2	4	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:42089154G>T	uc010zwg.1	+	5	761	c.591_splice	c.e5-1	p.R197_splice	SFRS6_uc002xki.2_Splice_Site_p.R68_splice|SFRS6_uc002xkk.2_Splice_Site_p.R197_splice	NM_006275	NP_006266	Q13247	SRSF6_HUMAN	arginine/serine-rich splicing factor 6						mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TCTCCTAATAGGTCTCGATCT	0.408													11	76					0.00010058	0.000107298	0.013537	1	0		T	42089154	T	T	42089154	5	4	8	1	0	0	0	0	0	0	1	0	14206	1014	35	5	608	5	SFRS6	20	42089154	Splice_Site	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2007615	42089154	20936366	1330	8139											
MATN4	8785	broad.mit.edu	37	chr20	43933295	43933295	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatactggatcacgccaacGcgcgtggcgttgggacccac	9	6	13	13	5	1	0	1	0	0	0	1	3	1	2	2	3	2	1	2	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:43933295G>A	uc002xnn.2	-	3	403	c.216C>T	c.(214-216)CGC>CGT	p.R72R	MATN4_uc002xno.2_Silent_p.R72R|MATN4_uc002xnp.2_Silent_p.R72R|MATN4_uc010zwr.1_Silent_p.R20R|MATN4_uc002xnr.1_Silent_p.R72R|RBPJL_uc002xns.2_5'Flank|RBPJL_uc002xnt.2_5'Flank	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	72	VWFA 1.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				TCACGCCAACGCGCGTGGCGT	0.652													11	23					0	0	0.010729	0	0		A	43933295	A	A	43933295	2	1	8	1	0	0	0	0	0	0	0	1	9354	1074	38	1		1	MATN4	20	43933295	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1844141	43933295	19092225	1331	8140											
SPINLW1	57119	broad.mit.edu	37	chr20	44166631	44166631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctaaacatttctttccaCggctgaacgggcaacacttc	11	11	7	12	2	2	1	0	1	2	0	4	1	3	1	1	2	3	2	1	2	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:44166631C>T	uc010zxc.1	-	4	526	c.494G>A	c.(493-495)CGT>CAT	p.R165H	WFDC6_uc002xos.1_Missense_Mutation_p.R65H	NM_020398	NP_065131	O95925	EPPI_HUMAN	serine peptidase inhibitor-like, with Kunitz and	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						extracellular region	serine-type endopeptidase inhibitor activity			pancreas(1)	1		Myeloproliferative disorder(115;0.0122)				TTTCTTTCCACGGCTGAACGG	0.473													39	73					0	0	0.00874	0	0		T	44166631	T	T	44166631	3	4	8	1	0	0	0	0	1	0	0	0	15092	536	19	1		1	SPINLW1	20	44166631	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	233336	44166631	18858889	1332	8141											
CTSA	5476	broad.mit.edu	37	chr20	44521441	44521441	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagaacaacaaacttttcctGaccggggagagctatgctgg	13	8	11	9	1	0	3	0	1	0	2	1	4	1	3	2	3	5	2	2	3	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:44521441G>A	uc002xqj.3	+	6	996	c.522G>A	c.(520-522)CTG>CTA	p.L174L	NEURL2_uc002xqg.1_5'Flank|CTSA_uc002xqh.2_Silent_p.L192L|CTSA_uc002xqi.2_RNA|CTSA_uc010zxi.1_Silent_p.L175L|CTSA_uc002xqk.3_Silent_p.L174L	NM_001127695	NP_001121167	P10619	PPGB_HUMAN	cathepsin A isoform b precursor	174					intracellular protein transport|proteolysis	endoplasmic reticulum|lysosome|nucleus	enzyme activator activity|protein binding|serine-type carboxypeptidase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				AACTTTTCCTGACCGGGGAGA	0.562													6	45					0	0	0.001984	0	0		A	44521441	A	A	44521441	2	1	8	1	0	0	0	0	0	0	0	1	4032	1277	45	4		4	CTSA	20	44521441	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	354810	44521441	18504079	1333	8142											
CTCFL	140690	broad.mit.edu	37	chr20	56098737	56098737	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accttgatcagtccagtagtTtcagccaggctcaccgctaa	10	10	8	13	1	3	1	3	1	0	0	4	1	4	1	4	1	1	4	4	1	2	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:56098737T>A	uc010gix.1	-	1	1187	c.525A>T	c.(523-525)GAA>GAT	p.E175D	CTCFL_uc010giw.1_Missense_Mutation_p.E175D|CTCFL_uc002xym.2_Missense_Mutation_p.E175D|CTCFL_uc010giz.1_Intron|CTCFL_uc010giy.1_Intron|CTCFL_uc010gja.1_Missense_Mutation_p.E175D|CTCFL_uc010gjb.1_Missense_Mutation_p.E175D|CTCFL_uc010gjc.1_Missense_Mutation_p.E175D|CTCFL_uc010gjd.1_Missense_Mutation_p.E175D|CTCFL_uc010gje.2_Missense_Mutation_p.E175D|CTCFL_uc010gjf.2_Intron|CTCFL_uc010gjg.2_Intron|CTCFL_uc010gjh.1_Missense_Mutation_p.E175D|CTCFL_uc010gji.1_Intron|CTCFL_uc010gjj.1_Missense_Mutation_p.E175D|CTCFL_uc010gjk.1_Missense_Mutation_p.E175D|CTCFL_uc010gjl.1_Missense_Mutation_p.E175D	NM_080618	NP_542185	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor-like protein	175					cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			GTCCAGTAGTTTCAGCCAGGC	0.443													7	91					0	0	0.001984	0	0		A	56098737	A	A	56098737	3	1	8	1	0	0	0	0	1	0	0	0	4004	1838	64	5	1506	5	CTCFL	20	56098737	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	11577296	56098737	6926783	1334	8143											
GNAS	2778	broad.mit.edu	37	chr20	57415375	57415375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaacgcccaccaccgctccGgcgcccaggtattccctgag	7	7	9	18	4	0	1	0	1	0	0	2	1	2	1	6	2	1	2	6	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:57415375G>A	uc002xzt.2	+	1	581	c.214G>A	c.(214-216)GGC>AGC	p.G72S	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	72				Missing (in Ref. 8; AAH66923).	activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CCACCGCTCCGGCGCCCAGGT	0.677			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			6	35					0	0	0.00308	0	0		A	57415375	A	A	57415375	3	1	8	1	0	0	0	0	1	0	0	0	6525	1116	39	1	216	1	GNAS	20	57415375	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1316638	57415375	5610145	1335	8144											
TH1L	51497	broad.mit.edu	37	chr20	57564992	57564992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcccaggaggagcagggggGctccgctgtgcgcaggatcg	6	4	20	11	3	0	0	0	0	0	0	2	3	1	3	2	7	2	4	2	7	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:57564992G>A	uc002yag.2	+	7	791	c.764G>A	c.(763-765)GGC>GAC	p.G255D	TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Missense_Mutation_p.G255D	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	255					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			GAGCAGGGGGGCTCCGCTGTG	0.622													6	40					0	0	0.006214	0	0		A	57564992	A	A	57564992	3	1	8	1	0	0	0	0	1	0	0	0	15864	1203	42	2	790	2	TH1L	20	57564992	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	149617	57564992	5460528	1336	8145											
C20orf197	284756	broad.mit.edu	37	chr20	58645855	58645855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcttggacagtcacaatGtgcatttgggtattaaaggc	12	12	10	7	0	2	0	1	0	1	0	2	1	2	1	0	3	2	2	0	3	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:58645855G>A	uc002ybj.1	+	4	579	c.273G>A	c.(271-273)ATG>ATA	p.M91I		NM_173644	NP_775915	Q8N268	CT197_HUMAN	hypothetical protein LOC284756	91										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(7;2.33e-09)			cagtcacaatgtgcatttggg	0.219													4	39					0	0	0.009096	0	0		A	58645855	A	A	58645855	3	1	8	1	0	0	0	0	1	0	0	0	2105	1377	48	4	279	4	C20orf197	20	58645855	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1080863	58645855	4379665	1337	8146											
PSMA7	5688	broad.mit.edu	37	chr20	60714901	60714901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggtcctccacagtcagcCggtggctctggcactccacc	5	7	11	18	2	2	0	1	0	1	0	5	0	5	0	6	4	1	2	6	4	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:60714901C>T	uc002ybx.1	-	3	399	c.284G>A	c.(283-285)CGG>CAG	p.R95Q	PSMA7_uc002yby.1_RNA	NM_002792	NP_002783	O14818	PSA7_HUMAN	proteasome alpha 7 subunit	95					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			CACAGTCAGCCGGTGGCTCTG	0.612													7	27					0	0	0.001984	0	0		T	60714901	T	T	60714901	3	4	8	1	0	0	0	0	1	0	0	0	12694	652	23	1	482	1	PSMA7	20	60714901	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2069046	60714901	2310619	1338	8147											
OSBPL2	9885	broad.mit.edu	37	chr20	60854271	60854271	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaccacccccccatcagtGcgttccactcggaaggtctc	7	8	8	18	2	3	0	2	0	1	0	6	1	4	1	5	2	1	1	5	2	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:60854271G>A	uc002yck.1	+	7	752	c.550G>A	c.(550-552)GCG>ACG	p.A184T	OSBPL2_uc002ycl.1_Missense_Mutation_p.A172T|OSBPL2_uc011aah.1_Missense_Mutation_p.A92T|OSBPL2_uc002ycm.1_5'UTR	NM_144498	NP_653081	Q9H1P3	OSBL2_HUMAN	oxysterol-binding protein-like protein 2 isoform	184					lipid transport		lipid binding			ovary(1)|central_nervous_system(1)	2	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;1.33e-06)			CCCCATCAGTGCGTTCCACTC	0.507													24	59					0	0	0.004656	0	0		A	60854271	A	A	60854271	3	1	8	1	0	0	0	0	1	0	0	0	11297	1319	46	2	572	2	OSBPL2	20	60854271	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	139370	60854271	2171249	1339	8148											
DIDO1	11083	broad.mit.edu	37	chr20	61525803	61525803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagatcgaagaggtgtgcgCggtgctgactggtggtgtct	6	11	18	6	3	1	3	0	2	1	2	2	5	1	3	0	4	2	1	0	4	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:61525803C>T	uc002ydr.1	-	11	2798	c.2534G>A	c.(2533-2535)CGC>CAC	p.R845H	DIDO1_uc002yds.1_Missense_Mutation_p.R845H|DIDO1_uc002ydt.1_Missense_Mutation_p.R845H|DIDO1_uc002ydu.1_Missense_Mutation_p.R845H	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	845					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GAGGTGTGCGCGGTGCTGACT	0.507													19	57					0	0	0.008871	0	0		T	61525803	T	T	61525803	3	4	8	1	0	0	0	0	1	0	0	0	4528	768	27	1	4241	1	DIDO1	20	61525803	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	671532	61525803	1499717	1340	8149											
YTHDF1	54915	broad.mit.edu	37	chr20	61835152	61835152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcgctcattgaggggtaaCtgttactctgcaaaagcaaa	12	10	11	8	1	2	1	1	1	1	0	3	1	2	1	0	3	4	5	0	3	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:61835152C>T	uc002yeh.2	-	4	434	c.140G>A	c.(139-141)AGT>AAT	p.S47N	YTHDF1_uc011aaq.1_5'UTR	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	47										ovary(2)	2						TGAGGGGTAACTGTTACTCTG	0.512													8	22					0	0	0.00308	0	0		T	61835152	T	T	61835152	3	4	8	1	0	0	0	0	1	0	0	0	17524	565	20	4	1547	4	YTHDF1	20	61835152	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	309349	61835152	1190368	1341	8150											
PRIC285	85441	broad.mit.edu	37	chr20	62196162	62196162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgaaggtcaagaaggcgCggcagtcctctcggcggccg	8	5	16	12	5	2	2	1	1	1	1	4	2	3	2	2	5	0	1	2	5	3	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:62196162C>T	uc002yfm.2	-	9	4905	c.4013G>A	c.(4012-4014)CGC>CAC	p.R1338H	PRIC285_uc002yfl.1_Missense_Mutation_p.R769H	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1338					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CAAGAAGGCGCGGCAGTCCTC	0.662													5	20					0	0	0.001984	0	0		T	62196162	T	T	62196162	3	4	8	1	0	0	0	0	1	0	0	0	12507	768	27	1	3984	1	PRIC285	20	62196162	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	361010	62196162	829358	1342	8151											
TNFRSF6B	8771	broad.mit.edu	37	chr20	62329757	62329757	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggggtccgacaccaagggcGggccgcgcggccttgcagct	5	5	17	14	5	0	0	0	0	0	0	1	1	1	0	4	5	2	2	4	5	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:62329757G>A	uc002yfy.2	+	7	1178	c.744G>A	c.(742-744)GCG>GCA	p.A248A	RTEL1_uc002yfw.2_RNA|TNFRSF6B_uc002yfz.2_Silent_p.A248A	NM_032945	NP_116563	O95407	TNF6B_HUMAN	tumor necrosis factor receptor superfamily,	248					anti-apoptosis|apoptosis	extracellular region|soluble fraction	protein binding|receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.66e-12)|all_epithelial(29;2.56e-13)|Lung NSC(23;1.06e-08)|all_lung(23;3.34e-08)		Epithelial(9;1.78e-08)|all cancers(9;7.89e-08)|OV - Ovarian serous cystadenocarcinoma(5;0.00504)			CACCAAGGGCGGGCCGCGCGG	0.716													4	4					0	0	0.009096	0	0		A	62329757	A	A	62329757	2	1	8	1	0	0	0	0	0	0	0	1	16323	1103	39	1		1	TNFRSF6B	20	62329757	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	133595	62329757	695763	1343	8152											
TCEA2	6919	broad.mit.edu	37	chr20	62697836	62697836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttctccttccaggagggagCcatggatttgctgcgggagc	6	10	14	11	1	1	0	0	0	1	0	3	4	2	4	3	4	4	1	3	4	0	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:62697836C>T	uc011abs.1	+	2	736	c.80C>T	c.(79-81)GCC>GTC	p.A27V	TCEA2_uc011abr.1_5'UTR|TCEA2_uc010gkq.2_5'UTR|TCEA2_uc010gks.2_Missense_Mutation_p.A27V|TCEA2_uc010gkt.2_5'UTR|TCEA2_uc010gku.1_5'UTR	NM_003195	NP_003186	Q15560	TCEA2_HUMAN	transcription elongation factor A protein 2	27	TFIIS N-terminal.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation, DNA-dependent	transcription elongation factor complex	DNA binding|protein binding|translation elongation factor activity|zinc ion binding				0	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					CAGGAGGGAGCCATGGATTTG	0.567													8	81					0	0	0.00308	0	0		T	62697836	T	T	62697836	3	4	8	1	0	0	0	0	1	0	0	0	15693	739	26	2	86	2	TCEA2	20	62697836	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	368079	62697836	327684	1344	8153											
NPBWR2	2832	broad.mit.edu	37	chr20	62737901	62737901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgacgggcagtaccagcGtgaagagcccgtcggcgacg	8	6	16	11	6	0	3	0	2	0	1	1	4	0	3	2	2	3	3	2	2	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr20:62737901G>A	uc011abt.1	-	1	284	c.284C>T	c.(283-285)ACG>ATG	p.T95M		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	95	Helical; Name=2; (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					CAGTACCAGCGTGAAGAGCCC	0.612													4	27					0	0	0.000602	0	0		A	62737901	A	A	62737901	3	1	8	1	0	0	0	0	1	0	0	0	10588	1145	40	1	720	1	NPBWR2	20	62737901	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	40065	62737901	287619	1345	8154											
NRIP1	8204	broad.mit.edu	37	chr21	16340294	16340294	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagcatgccagacccctGatatgtatgtgtattgagaa	11	11	11	8	0	0	3	0	2	0	2	0	4	0	3	3	0	3	4	3	0	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr21:16340294G>T	uc002yjx.2	-	4	818	c.220C>A	c.(220-222)CAG>AAG	p.Q74K		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	74					androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		CCAGACCCCTGATATGTATGT	0.458													6	33					3.59834e-05	3.85339e-05	0.001168	1	0		T	16340294	T	T	16340294	3	4	8	1	0	0	0	0	1	0	0	0	10671	1299	45	5	3260	5	NRIP1	21	16340294	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08		16340294	31789601	1346	8155											
USP25	29761	broad.mit.edu	37	chr21	17250724	17250724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagttaccttcatattccaCgcatgaactctgtgagcgat	11	12	8	10	2	2	2	1	2	1	0	3	4	3	2	2	0	3	2	2	0	4	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr21:17250724C>T	uc002yjy.1	+	24	3315	c.3098C>T	c.(3097-3099)ACG>ATG	p.T1033M	USP25_uc011aby.1_Missense_Mutation_p.T1103M|USP25_uc002yjz.1_Missense_Mutation_p.T1065M|USP25_uc010gla.1_Missense_Mutation_p.T428M	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	1033					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		TCATATTCCACGCATGAACTC	0.433													9	61					0	0	0.006214	0	0		T	17250724	T	T	17250724	3	4	8	1	0	0	0	0	1	0	0	0	17082	536	19	1	3192	1	USP25	21	17250724	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	910430	17250724	30879171	1347	8156											
ADAMTS1	9510	broad.mit.edu	37	chr21	28212641	28212641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacacacttgccgttgataCaccatttcccttctccacag	9	12	4	16	1	2	1	1	1	1	0	4	1	3	1	4	0	2	1	4	0	1	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr21:28212641C>T	uc002ymf.2	-	5	2074	c.1619G>A	c.(1618-1620)TGT>TAT	p.C540Y		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	540	Disintegrin.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		GCCGTTGATACACCATTTCCC	0.473													7	77					0	0	0.004482	0	0		T	28212641	T	T	28212641	3	4	8	1	0	0	0	0	1	0	0	0	255	478	17	4	1304	4	ADAMTS1	21	28212641	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	10961917	28212641	19917254	1348	8157											
KRTAP27-1	643812	broad.mit.edu	37	chr21	31709741	31709741	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taagtagtttggacaactccGgggaagcagttactttgcac	11	11	11	8	1	0	0	0	0	0	0	1	2	1	2	1	3	4	5	1	3	5	5	rs139729864		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr21:31709741G>T	uc002ynx.1	-	1	272	c.246C>A	c.(244-246)CCC>CCA	p.P82P		NM_001077711	NP_001071179	Q3LI81	KR271_HUMAN	keratin associated protein 27-1	82						intermediate filament				ovary(2)	2						GGACAACTCCGGGGAAGCAGT	0.478													23	111					3.5997e-14	4.03253e-14	0.014323	1	0		T	31709741	T	T	31709741	2	4	8	1	0	0	0	0	0	0	0	1	8560	1103	39	5		5	KRTAP27-1	21	31709741	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3497100	31709741	16420154	1349	8158											
C21orf59	56683	broad.mit.edu	37	chr21	33954519	33954519	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttttggtaccagagtgtgCgattcttgccccgcgtgtgg	4	13	14	10	3	1	1	0	0	1	1	1	2	1	1	3	2	3	2	3	2	1	5	rs145187250		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr21:33954519C>T	uc002ypy.1	-	7	1082	c.969G>A	c.(967-969)TCG>TCA	p.S323S	TCP10L_uc002ypw.3_Silent_p.S117S|C21orf59_uc002ypx.1_Silent_p.S140S|C21orf59_uc002ypz.1_Silent_p.S291S	NM_021254	NP_067077	P57076	CU059_HUMAN	hypothetical protein LOC56683	Error:Variant_position_missing_in_P57076_after_alignment						cytosol|nucleus					0						CCAGAGTGTGCGATTCTTGCC	0.502													19	102					0	0	0.007413	0	0		T	33954519	T	T	33954519	2	4	8	1	0	0	0	0	0	0	0	1	2133	755	27	1		1	C21orf59	21	33954519	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2244778	33954519	14175376	1350	8159											
SON	6651	broad.mit.edu	37	chr21	34923905	34923905	+	Missense_Mutation	SNP	A	T	T																															cccagatgttagcaactagcActatggactcccagatgtta																										TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr21:34923905A>T	uc002yse.1	+	3	2417	c.2368A>T	c.(2368-2370)ACT>TCT	p.T790S	SON_uc002ysb.1_Missense_Mutation_p.T790S|SON_uc002ysc.2_Missense_Mutation_p.T790S|SON_uc002ysd.2_Intron|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	790	17 X 10 AA tandem repeats of L-A-[ST]- [NSG]-[TS]-MDSQM.				anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						AGCAACTAGCACTATGGACTC	0.512													13	215					0	0	0.007413	0	0		T	34923905	T	T	34923905	3	4	8	1	0	0	0	0	1	0	0	0	14951	159	6	5	2378	5	SON	21	34923905	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	969386	34923905	13205990	1351	8160	14	2									
SON	6651	broad.mit.edu	37	chr21	34923907	34923907	+	Silent	SNP	T	C	C																															cagatgttagcaactagcacTatggactcccagatgttagc																								rs146626998		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr21:34923907T>C	uc002yse.1	+	3	2419	c.2370T>C	c.(2368-2370)ACT>ACC	p.T790T	SON_uc002ysb.1_Silent_p.T790T|SON_uc002ysc.2_Silent_p.T790T|SON_uc002ysd.2_Intron|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	790	17 X 10 AA tandem repeats of L-A-[ST]- [NSG]-[TS]-MDSQM.				anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						CAACTAGCACTATGGACTCCC	0.517													13	211					0	0	0.008871	0	0		C	34923907	C	C	34923907	2	2	8	1	0	0	0	0	0	0	0	1	14951	1509	53	3		3	SON	21	34923907	Silent	SNP	T	TCGA-BR-4201-01A-01D-1126-08	2	34923907	13205988	1352	8161	14	2									
KCNJ15	3772	broad.mit.edu	37	chr21	39672159	39672159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaatggaaaatatgtggctGatttcagtcagtttgaacag	15	12	10	4	0	2	2	2	2	0	0	2	3	2	3	0	2	1	2	0	2	6	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr21:39672159G>A	uc002ywv.2	+	4	1278	c.976G>A	c.(976-978)GAT>AAT	p.D326N	KCNJ15_uc002yww.2_Missense_Mutation_p.D326N|KCNJ15_uc002ywx.2_Missense_Mutation_p.D326N	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	326	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						ATATGTGGCTGATTTCAGTCA	0.443													10	34					0	0	0.010729	0	0		A	39672159	A	A	39672159	3	1	8	1	0	0	0	0	1	0	0	0	8065	1290	45	4	978	4	KCNJ15	21	39672159	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4748252	39672159	8457736	1353	8162											
TRAPPC10	7109	broad.mit.edu	37	chr21	45511891	45511891	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagataccggtgatagtacCgacctgcaactagtaccact	12	9	9	11	2	0	2	0	1	0	1	0	3	0	2	4	1	5	4	4	1	7	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr21:45511891C>T	uc002zea.2	+	19	3127	c.2958C>T	c.(2956-2958)ACC>ACT	p.T986T	TRAPPC10_uc010gpo.2_Silent_p.T697T|TRAPPC10_uc011afa.1_Silent_p.T364T|TRAPPC10_uc011afb.1_Silent_p.T91T	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	986					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						GTGATAGTACCGACCTGCAAC	0.418													23	137					0	0	0.014323	0	0		T	45511891	T	T	45511891	2	4	8	1	0	0	0	0	0	0	0	1	16483	639	23	1		1	TRAPPC10	21	45511891	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5839732	45511891	2618004	1354	8163											
ADARB1	104	broad.mit.edu	37	chr21	46640907	46640907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taagcacgcgttgtactgtcGctggatgcgtgtgcacggca	7	10	14	10	5	0	0	0	0	0	0	1	1	0	1	0	2	4	6	0	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr21:46640907G>A	uc002zgy.2	+	11	2459	c.2024G>A	c.(2023-2025)CGC>CAC	p.R675H	ADARB1_uc002zgr.2_Missense_Mutation_p.R675H|ADARB1_uc002zgs.2_RNA|ADARB1_uc002zgw.2_Missense_Mutation_p.R635H|ADARB1_uc002zgv.2_RNA|ADARB1_uc002zgt.2_Missense_Mutation_p.R635H|ADARB1_uc010gpx.2_RNA|ADARB1_uc002zgq.2_RNA|ADARB1_uc002zgu.2_RNA	NM_015833	NP_056648	P78563	RED1_HUMAN	RNA-specific adenosine deaminase B1 isoform 2	675	A to I editase.				adenosine to inosine editing|mRNA modification|mRNA processing|RNA processing	nucleoplasm|nucleus	double-stranded RNA adenosine deaminase activity|double-stranded RNA adenosine deaminase activity|double-stranded RNA binding|double-stranded RNA binding|metal ion binding|mRNA binding|RNA binding			skin(1)	1				Colorectal(79;0.115)		TTGTACTGTCGCTGGATGCGT	0.612													4	22					0	0	0.009096	0	0		A	46640907	A	A	46640907	3	1	8	1	0	0	0	0	1	0	0	0	282	1087	38	1	2058	1	ADARB1	21	46640907	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1129016	46640907	1488988	1355	8164											
PCNT	5116	broad.mit.edu	37	chr21	47808672	47808672	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaggggccctccaggaCgccctgcgcaggctgctggg	5	5	16	15	2	1	1	1	0	0	1	2	2	2	2	3	5	2	3	3	5	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr21:47808672C>T	uc002zji.3	+	18	3587	c.3480C>T	c.(3478-3480)GAC>GAT	p.D1160D	PCNT_uc002zjj.2_Silent_p.D1042D	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	1160					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					CCCTCCAGGACGCCCTGCGCA	0.667													6	29					0	0	0.001168	0	0		T	47808672	T	T	47808672	2	4	8	1	0	0	0	0	0	0	0	1	11609	535	19	1		1	PCNT	21	47808672	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1167765	47808672	321223	1356	8165											
C22orf29	79680	broad.mit.edu	37	chr22	19839076	19839076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagcaggggtggccatggCggctggtaaagacctggggg	8	5	19	9	1	0	1	0	0	0	1	0	1	0	1	2	8	1	3	2	8	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:19839076C>T	uc002zqg.2	-	2	1308	c.709G>A	c.(709-711)GCC>ACC	p.A237T	GNB1L_uc002zqd.1_Intron|GNB1L_uc002zqe.1_Intron|GNB1L_uc002zqf.1_Intron|C22orf29_uc002zqh.2_Missense_Mutation_p.A237T|C22orf29_uc002zqi.2_Missense_Mutation_p.A237T|C22orf29_uc010grt.1_Intron	NM_024627	NP_078903	Q7L3V2	CV029_HUMAN	hypothetical protein LOC79680	237											0	Colorectal(54;0.0993)					GTGGCCATGGCGGCTGGTAAA	0.607													4	43					0	0	0.001168	0	0		T	19839076	T	T	19839076	3	4	8	1	0	0	0	0	1	0	0	0	2144	768	27	1	389	1	C22orf29	22	19839076	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08		19839076	31465490	1357	8166											
C22orf29	79680	broad.mit.edu	37	chr22	19839620	19839620	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggtcgttcgcacacacacGgtgtccccacagcagggccg	8	6	12	15	4	0	0	0	0	0	0	3	0	1	0	3	3	1	3	3	3	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:19839620G>A	uc002zqg.2	-	2	764	c.165C>T	c.(163-165)ACC>ACT	p.T55T	GNB1L_uc002zqd.1_Intron|GNB1L_uc002zqe.1_Intron|GNB1L_uc002zqf.1_Intron|C22orf29_uc002zqh.2_Silent_p.T55T|C22orf29_uc002zqi.2_Silent_p.T55T|C22orf29_uc010grt.1_Intron	NM_024627	NP_078903	Q7L3V2	CV029_HUMAN	hypothetical protein LOC79680	55											0	Colorectal(54;0.0993)					GCACACACACGGTGTCCCCAC	0.612													9	40					0	0	0.008291	0	0		A	19839620	A	A	19839620	2	1	8	1	0	0	0	0	0	0	0	1	2144	1103	39	1		1	C22orf29	22	19839620	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	544	19839620	31464946	1358	8167											
ZDHHC8	29801	broad.mit.edu	37	chr22	20128528	20128528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgaaggctggcctgggccGtagcaaggtgggcgcctggg	5	6	20	10	2	0	1	0	1	0	0	0	1	0	1	3	6	1	4	3	6	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:20128528G>A	uc002zrq.2	+	7	993	c.887G>A	c.(886-888)CGT>CAT	p.R296H	ZDHHC8_uc002zrr.1_Missense_Mutation_p.R296H|ZDHHC8_uc010gsa.2_Missense_Mutation_p.R102H	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	296	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					GGCCTGGGCCGTAGCAAGGTG	0.622													7	31					0	0	0.001984	0	0		A	20128528	A	A	20128528	3	1	8	1	0	0	0	0	1	0	0	0	17646	1145	40	1	913	1	ZDHHC8	22	20128528	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	288908	20128528	31176038	1359	8168											
RTN4R	65078	broad.mit.edu	37	chr22	20229616	20229616	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctggtcttccaggctccAgtactgaggccttgtcagcg	7	10	12	12	1	2	1	1	1	1	0	4	1	4	1	3	3	3	3	3	3	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:20229616A>G	uc002zrv.2	-	2	1241	c.1040T>C	c.(1039-1041)CTG>CCG	p.L347P	RTN4R_uc002zru.2_Missense_Mutation_p.L119P	NM_023004	NP_075380	Q9BZR6	RTN4R_HUMAN	reticulon 4 receptor precursor	347					axonogenesis|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	anchored to membrane|cell surface|endoplasmic reticulum|plasma membrane	protein binding|receptor activity				0	Colorectal(54;0.0993)					TCCAGGCTCCAGTACTGAGGC	0.672													6	23					0	0	0.00308	0	0		G	20229616	G	G	20229616	3	3	8	1	0	0	0	0	1	0	0	0	13755	188	7	3	385	3	RTN4R	22	20229616	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	101088	20229616	31074950	1360	8169											
ZNF74	7625	broad.mit.edu	37	chr22	20760748	20760748	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaagcccttcaagtgcaaCgagtgcggcaaagccttcag	12	6	12	11	2	2	1	2	0	0	1	2	3	2	1	2	1	5	2	2	1	4	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:20760748C>T	uc010gsm.2	+	6	1637	c.1425C>T	c.(1423-1425)AAC>AAT	p.N475N	ZNF74_uc002zsg.2_Silent_p.N404N|ZNF74_uc002zsh.2_Silent_p.N475N|ZNF74_uc002zsi.2_Silent_p.N404N|ZNF74_uc010gsn.2_Silent_p.N404N	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	475	C2H2-type 9.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			TCAAGTGCAACGAGTGCGGCA	0.642													7	46					0	0	0.004482	0	0		T	20760748	T	T	20760748	2	4	8	1	0	0	0	0	0	0	0	1	18152	535	19	1		1	ZNF74	22	20760748	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	531132	20760748	30543818	1361	8170											
KLHL22	84861	broad.mit.edu	37	chr22	20796481	20796481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggctcaaggagcagggagCggggcagggtgagcacacag	10	2	20	9	2	1	1	1	1	0	0	1	3	1	3	0	6	3	4	0	6	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:20796481C>T	uc002zsl.1	-	7	1893	c.1784G>A	c.(1783-1785)CGC>CAC	p.R595H	KLHL22_uc011ahr.1_Missense_Mutation_p.R452H	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	595					cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GAGCAGGGAGCGGGGCAGGGT	0.642													4	13					0	0	0.000602	0	0		T	20796481	T	T	20796481	3	4	8	1	0	0	0	0	1	0	0	0	8393	768	27	1	124	1	KLHL22	22	20796481	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	35733	20796481	30508085	1362	8171											
MED15	51586	broad.mit.edu	37	chr22	20929406	20929406	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgtcctcaaagatgatcAcggaagccttggcccaaggt	10	9	10	12	1	3	2	2	1	1	1	4	3	4	3	3	3	1	0	3	3	3	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:20929406A>G	uc002zsp.2	+	9	1239	c.1159A>G	c.(1159-1161)ACG>GCG	p.T387A	MED15_uc002zsq.2_Intron|MED15_uc010gso.2_Intron|MED15_uc002zsr.2_Intron|MED15_uc011ahs.1_Intron|MED15_uc002zss.2_Intron|MED15_uc011ahu.1_Missense_Mutation_p.T113A|MED15_uc002zst.2_Missense_Mutation_p.T3A	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	387	Pro-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			AAAGATGATCACGGAAGCCTT	0.577													24	152					0	0	0.004656	0	0		G	20929406	G	G	20929406	3	3	8	1	0	0	0	0	1	0	0	0	9451	159	6	3	1193	3	MED15	22	20929406	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	132925	20929406	30375160	1363	8172											
SLC7A4	6545	broad.mit.edu	37	chr22	21385960	21385960	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acccgagcccaccatgccacCcacgcccagaagagtcaggt	11	3	9	18	2	1	2	1	0	0	2	1	3	1	2	6	1	2	0	6	1	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:21385960C>A	uc002zud.2	-	2	210	c.142G>T	c.(142-144)GGT>TGT	p.G48C	SLC7A4_uc002zue.2_Missense_Mutation_p.G48C	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	48	Helical; (Potential).				cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	ACCATGCCACCCACGCCCAGA	0.657													7	17					0.000157383	0.000167469	0.00308	1	0		A	21385960	A	A	21385960	3	1	8	1	0	0	0	0	1	0	0	0	14724	623	22	5	1781	5	SLC7A4	22	21385960	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	456554	21385960	29918606	1364	8173											
TOP3B	8940	broad.mit.edu	37	chr22	22316806	22316806	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcaggcgcacccaccgatgCcatgcttctccatgagcgtg	7	7	12	15	3	1	1	0	1	1	0	2	2	1	1	4	2	3	3	4	2	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:22316806C>A	uc002zvs.2	-	13	1955	c.1520G>T	c.(1519-1521)GGC>GTC	p.G507V	TOP3B_uc010gtm.1_Missense_Mutation_p.G52V|TOP3B_uc002zvr.2_Missense_Mutation_p.G232V|TOP3B_uc010gtl.2_Missense_Mutation_p.G507V|TOP3B_uc002zvt.3_Missense_Mutation_p.G507V	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	507					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		CCCACCGATGCCATGCTTCTC	0.642													7	37					0.000673444	0.00071074	0.008291	1	0		A	22316806	A	A	22316806	3	1	8	1	0	0	0	0	1	0	0	0	16394	739	26	5	1092	5	TOP3B	22	22316806	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	930846	22316806	28987760	1365	8174											
ZNF280A	129025	broad.mit.edu	37	chr22	22869868	22869868	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacatagatcagatctggAtcttcatcatcctcctccct	10	12	4	15	0	5	2	3	0	2	2	8	3	8	3	4	1	1	0	4	1	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:22869868A>T	uc002zwe.2	-	2	340	c.87T>A	c.(85-87)GAT>GAA	p.D29E	LOC96610_uc011aim.1_Intron	NM_080740	NP_542778	P59817	Z280A_HUMAN	zinc finger protein 280A	29					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		TCAGATCTGGATCTTCATCAT	0.368													25	103					0	0	0.005443	0	0		T	22869868	T	T	22869868	3	4	8	1	0	0	0	0	1	0	0	0	17839	330	12	5	1545	5	ZNF280A	22	22869868	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	553062	22869868	28434698	1366	8175											
CABIN1	23523	broad.mit.edu	37	chr22	24573539	24573539	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgcgagtgagactcagccCctgagctctcccccaacagc	8	6	10	17	1	2	2	1	2	1	1	3	4	2	2	4	0	5	2	4	0	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:24573539C>A	uc002zzi.1	+	36	6400	c.6273C>A	c.(6271-6273)CCC>CCA	p.P2091P	CABIN1_uc002zzj.1_Silent_p.P2012P|CABIN1_uc002zzl.1_Silent_p.P2091P|CABIN1_uc010gul.1_Silent_p.P29P	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	2091					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						AGACTCAGCCCCTGAGCTCTC	0.647													5	21					0.000602214	0.000636366	0.000602	1	0		A	24573539	A	A	24573539	2	1	8	1	0	0	0	0	0	0	0	1	2531	610	22	5		5	CABIN1	22	24573539	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	1703671	24573539	26731027	1367	8176											
C22orf13	83606	broad.mit.edu	37	chr22	24939903	24939903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctggtagtcaggagtgcGgcagaagcagtggtggccac	8	6	17	10	1	1	1	1	0	0	1	1	2	1	2	2	5	2	3	2	5	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:24939903G>A	uc003aah.2	-	5	851	c.535C>T	c.(535-537)CGC>TGC	p.R179C	C22orf13_uc003aal.2_Missense_Mutation_p.R235C|C22orf13_uc003aai.3_Missense_Mutation_p.R136C|C22orf13_uc003aaj.3_Missense_Mutation_p.R179C|C22orf13_uc003aak.3_Missense_Mutation_p.R235C	NM_031444	NP_113632	Q96NT3	CV013_HUMAN	chromosome 22 open reading frame 13	179											0						TCAGGAGTGCGGCAGAAGCAG	0.617													4	18					0	0	0.000602	0	0		A	24939903	A	A	24939903	3	1	8	1	0	0	0	0	1	0	0	0	2138	1116	39	1	195	1	C22orf13	22	24939903	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	366364	24939903	26364663	1368	8177											
SGSM1	129049	broad.mit.edu	37	chr22	25246318	25246318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcccaacttgtccccacttgCcatcaagcatctgtggattc	8	11	7	15	0	2	0	1	0	1	0	4	1	3	1	4	1	3	1	4	1	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:25246318C>T	uc003abg.2	+	5	531	c.374C>T	c.(373-375)GCC>GTC	p.A125V	SGSM1_uc003abh.2_Missense_Mutation_p.A125V|SGSM1_uc010guu.1_Missense_Mutation_p.A125V|SGSM1_uc003abj.2_Missense_Mutation_p.A125V|SGSM1_uc003abi.1_Missense_Mutation_p.A100V|SGSM1_uc003abf.2_Missense_Mutation_p.A125V	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	125	RUN.					Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						TCCCCACTTGCCATCAAGCAT	0.448											OREG0026418	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	40					0	0	0.010729	0	0		T	25246318	T	T	25246318	3	4	8	1	0	0	0	0	1	0	0	0	14247	739	26	2	392	2	SGSM1	22	25246318	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	306415	25246318	26058248	1369	8178											
SGSM1	129049	broad.mit.edu	37	chr22	25264717	25264717	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtttcctaaactgcgcaagCgaagccctcagggttctgcc	8	10	10	13	2	2	0	1	0	1	0	3	1	3	0	3	1	5	3	3	1	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:25264717C>T	uc003abg.2	+	12	1343	c.1186C>T	c.(1186-1188)CGA>TGA	p.R396*	SGSM1_uc003abh.2_Nonsense_Mutation_p.R396*|SGSM1_uc010guu.1_Nonsense_Mutation_p.R396*|SGSM1_uc003abj.2_Nonsense_Mutation_p.R396*|SGSM1_uc003abi.1_Nonsense_Mutation_p.R371*	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	396						Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						ACTGCGCAAGCGAAGCCCTCA	0.502													25	98					0	0	0.00632	0	0		T	25264717	T	T	25264717	4	4	8	1	0	0	0	0	0	1	0	0	14247	760	27	1	1232	1	SGSM1	22	25264717	Nonsense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	18399	25264717	26039849	1370	8179											
ADRBK2	157	broad.mit.edu	37	chr22	26091137	26091137	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcctatgacagcagtgcCgactggttctccctgggctg	6	9	13	13	2	1	1	0	1	1	0	2	2	1	1	3	3	2	3	3	3	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:26091137C>T	uc003abx.3	+	13	1263	c.1116C>T	c.(1114-1116)GCC>GCT	p.A372A	ADRBK2_uc010gux.2_Silent_p.A372A|ADRBK2_uc003abw.2_Silent_p.A259A|ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	372	Protein kinase.						ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	ACAGCAGTGCCGACTGGTTCT	0.532													7	40					0	0	0.001984	0	0		T	26091137	T	T	26091137	2	4	8	1	0	0	0	0	0	0	0	1	344	639	23	1		1	ADRBK2	22	26091137	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	826420	26091137	25213429	1371	8180											
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31850237	31850237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagttgtcgattgttggttaCggcactcaaggtctcttcta	7	15	10	9	2	3	0	1	0	2	0	5	1	3	0	0	3	1	4	0	3	3	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:31850237C>T	uc003akz.1	-	10	1569	c.1405G>A	c.(1405-1407)GTA>ATA	p.V469I	EIF4ENIF1_uc003akx.1_Missense_Mutation_p.V148I|EIF4ENIF1_uc003aky.1_Missense_Mutation_p.V148I|EIF4ENIF1_uc003ala.1_Missense_Mutation_p.V469I|EIF4ENIF1_uc003alb.1_Missense_Mutation_p.V306I|EIF4ENIF1_uc003akw.1_5'Flank	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	469						nucleus	protein binding|protein transporter activity			ovary(1)	1						TTGTTGGTTACGGCACTCAAG	0.493													10	61					0	0	0.010729	0	0		T	31850237	T	T	31850237	3	4	8	1	0	0	0	0	1	0	0	0	5043	536	19	1	1595	1	EIF4ENIF1	22	31850237	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5759100	31850237	19454329	1372	8181											
MYH9	4627	broad.mit.edu	37	chr22	36696961	36696961	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcgctcctcctcctccTccaccctggcctctaggtca	4	9	8	20	1	2	0	1	0	1	0	7	0	7	0	7	3	1	2	7	3	1	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:36696961T>A	uc003apg.2	-	22	3005	c.2774A>T	c.(2773-2775)GAG>GTG	p.E925V	MYH9_uc003aph.1_Missense_Mutation_p.E789V	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	925	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CTCCTCCTCCTCCACCCTGGC	0.647			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				6	35					0	0	0.001984	0	0		A	36696961	A	A	36696961	3	1	8	1	0	0	0	0	1	0	0	0	10060	1551	54	5	3188	5	MYH9	22	36696961	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	4846724	36696961	14607605	1373	8182											
GGA1	26088	broad.mit.edu	37	chr22	38026101	38026101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catccctgccagcaagcagcGgtctggacgacctagacctc	9	6	10	16	2	1	1	0	0	1	1	3	3	2	2	4	2	4	2	4	2	2	1	rs150957887		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:38026101G>A	uc003atc.2	+	13	1620	c.1255G>A	c.(1255-1257)GGT>AGT	p.G419S	GGA1_uc003atd.2_Missense_Mutation_p.G332S|GGA1_uc003ate.2_Missense_Mutation_p.G419S|GGA1_uc003atf.2_Missense_Mutation_p.G346S	NM_013365	NP_037497	Q9UJY5	GGA1_HUMAN	golgi associated, gamma adaptin ear containing,	419	Unstructured hinge.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|Golgi apparatus part	protein binding			breast(2)|ovary(1)	3	Melanoma(58;0.0574)					AGCAAGCAGCGGTCTGGACGA	0.672													5	26					0	0	0.001168	0	0		A	38026101	A	A	38026101	3	1	8	1	0	0	0	0	1	0	0	0	6367	1116	39	1	1371	1	GGA1	22	38026101	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1329140	38026101	13278465	1374	8183											
SH3BP1	23616	broad.mit.edu	37	chr22	38039705	38039705	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggcctaggaggcagcccGggtagtcacagccatacgac	11	4	13	13	2	1	0	1	0	0	0	1	2	1	1	3	4	3	2	3	4	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:38039705G>A	uc003ati.2	+	7	639	c.528G>A	c.(526-528)CCG>CCA	p.P176P	SH3BP1_uc003atg.1_RNA|SH3BP1_uc011anl.1_Silent_p.P176P|SH3BP1_uc003ath.1_Silent_p.P176P|SH3BP1_uc003atj.1_Silent_p.P112P|SH3BP1_uc003atk.1_Silent_p.P90P|uc003atl.1_RNA	NM_018957	NP_061830	Q9Y3L3	3BP1_HUMAN	SH3-domain binding protein 1	176	BAR.				signal transduction	cytoplasm	GTPase activator activity|SH3 domain binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GAGGCAGCCCGGGTAGTCACA	0.582											OREG0026546	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	39					0	0	0.008291	0	0		A	38039705	A	A	38039705	2	1	8	1	0	0	0	0	0	0	0	1	14269	1103	39	1		1	SH3BP1	22	38039705	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	13604	38039705	13264861	1375	8184											
SMCR7L	54471	broad.mit.edu	37	chr22	39910152	39910152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtctccggatatgctggccGaccgtttcctgcaggccttg	4	11	13	13	3	1	0	0	0	1	0	3	2	2	1	5	4	2	3	5	4	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:39910152G>A	uc003axx.2	+	6	1714	c.1216G>A	c.(1216-1218)GAC>AAC	p.D406N	SMCR7L_uc003axw.2_Missense_Mutation_p.D406N|SMCR7L_uc010gxz.1_Missense_Mutation_p.D228N|SMCR7L_uc003axy.2_Missense_Mutation_p.D228N	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	406						integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					TATGCTGGCCGACCGTTTCCT	0.592											OREG0026577	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	69					0	0	0.00499	0	0		A	39910152	A	A	39910152	3	1	8	1	0	0	0	0	1	0	0	0	14816	1058	37	1	1230	1	SMCR7L	22	39910152	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	1870447	39910152	11394414	1376	8185											
MKL1	57591	broad.mit.edu	37	chr22	40807697	40807697	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggggctctggcccgtcAtgcccactggtcagcagggg	7	6	16	12	1	3	0	2	0	1	0	3	1	3	0	2	6	2	2	2	6	1	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:40807697A>G	uc003ayv.1	-	12	2700	c.2493T>C	c.(2491-2493)CAT>CAC	p.H831H	MKL1_uc003ayw.1_Silent_p.H831H|MKL1_uc010gye.1_3'UTR|MKL1_uc010gyf.1_Silent_p.H781H	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	831					positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CTGGCCCGTCATGCCCACTGG	0.672			T	RBM15	acute megakaryocytic leukemia								7	32					0	0	0.00308	0	0		G	40807697	G	G	40807697	2	3	8	1	0	0	0	0	0	0	0	1	9619	214	8	3		3	MKL1	22	40807697	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	897545	40807697	10496869	1377	8186											
EP300	2033	broad.mit.edu	37	chr22	41513716	41513716	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggcgacagaatatgcagtAcccaaacccaggcatgggaa	15	4	12	10	1	0	1	0	0	0	1	0	3	0	2	2	3	3	3	2	3	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:41513716A>G	uc003azl.3	+	2	1015	c.620A>G	c.(619-621)TAC>TGC	p.Y207C		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	207					apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						AATATGCAGTACCCAAACCCA	0.537			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				4	36					0	0	0.009096	0	0		G	41513716	G	G	41513716	3	3	8	1	0	0	0	0	1	0	0	0	5156	391	14	3	626	3	EP300	22	41513716	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	706019	41513716	9790850	1378	8187											
EP300	2033	broad.mit.edu	37	chr22	41523693	41523693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcaaccttccccactgtcGcacaatgaagaatgtcctaa	12	9	7	13	1	0	2	0	1	0	1	3	2	2	2	4	0	2	2	4	0	5	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:41523693G>A	uc003azl.3	+	4	1504	c.1109G>A	c.(1108-1110)CGC>CAC	p.R370H		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	370	TAZ-type 1.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CCCCACTGTCGCACAATGAAG	0.517			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				19	71					0	0	0.007413	0	0		A	41523693	A	A	41523693	3	1	8	1	0	0	0	0	1	0	0	0	5156	1087	38	1	1123	1	EP300	22	41523693	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	9977	41523693	9780873	1379	8188											
PARVB	29780	broad.mit.edu	37	chr22	44536011	44536011	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgtttgcaggatgatgAtgggccggttcggtaagtaa	8	14	14	5	2	1	2	0	2	1	0	2	3	1	3	1	4	1	5	1	4	2	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:44536011A>G	uc003ben.2	+	8	752	c.700A>G	c.(700-702)ATG>GTG	p.M234V	PARVB_uc003bem.2_Missense_Mutation_p.M267V|PARVB_uc010gzn.2_Missense_Mutation_p.M182V|PARVB_uc003beo.2_Missense_Mutation_p.M197V	NM_013327	NP_037459	Q9HBI1	PARVB_HUMAN	parvin, beta isoform b	234					cell adhesion|cell junction assembly	cytoskeleton|cytosol|focal adhesion	actin binding				0		Ovarian(80;0.0246)|all_neural(38;0.0423)				CAGGATGATGATGGGCCGGTT	0.542													21	84					0	0	0.012319	0	0		G	44536011	G	G	44536011	3	3	8	1	0	0	0	0	1	0	0	0	11488	333	12	3	949	3	PARVB	22	44536011	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3012318	44536011	6768555	1380	8189											
KIAA1644	85352	broad.mit.edu	37	chr22	44681393	44681393	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgtggggcttgtggcaGcgggcctgggggaggctgcg	2	7	23	9	2	0	0	0	0	0	0	0	1	0	1	2	8	2	3	2	8	0	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:44681393G>A	uc003bet.2	-	4	647	c.514C>T	c.(514-516)CTG>TTG	p.L172L		NM_001099294	NP_001092764	Q3SXP7	K1644_HUMAN	hypothetical protein LOC85352 precursor	172	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1		all_neural(38;0.0762)|Ovarian(80;0.105)|Glioma(61;0.222)				GCTTGTGGCAGCGGGCCTGGG	0.687													5	13					0	0	0.000602	0	0		A	44681393	A	A	44681393	2	1	8	1	0	0	0	0	0	0	0	1	8266	962	34	2		2	KIAA1644	22	44681393	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	145382	44681393	6623173	1381	8190											
BRD1	23774	broad.mit.edu	37	chr22	50217191	50217191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgactgcaggcagtggcGgcagagccactggccctcgg	6	4	16	15	4	0	1	0	0	0	1	1	2	0	1	3	5	2	3	3	5	0	0			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:50217191G>A	uc003biv.2	-	1	1262	c.775C>T	c.(775-777)CGC>TGC	p.R259C	BRD1_uc011arf.1_5'UTR|BRD1_uc011arg.1_Missense_Mutation_p.R259C|BRD1_uc011arh.1_Missense_Mutation_p.R259C|BRD1_uc003biu.3_Missense_Mutation_p.R259C	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	259	PHD-type.				histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		AGGCAGTGGCGGCAGAGCCAC	0.642													4	10					0	0	0.006214	0	0		A	50217191	A	A	50217191	3	1	8	1	0	0	0	0	1	0	0	0	1504	1116	39	1	2449	1	BRD1	22	50217191	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	5535798	50217191	1087375	1382	8191											
ZBED4	9889	broad.mit.edu	37	chr22	50278153	50278153	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccacttccaaagagcacCtctgggtccaggagaaggtc	10	8	10	13	0	1	2	0	0	1	2	5	3	4	2	4	3	1	1	4	3	2	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:50278153C>T	uc003bix.2	+	2	1313	c.843C>T	c.(841-843)ACC>ACT	p.T281T		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	281						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		CAAAGAGCACCTCTGGGTCCA	0.557													4	124					0	0	0.000602	0	0		T	50278153	T	T	50278153	2	4	8	1	0	0	0	0	0	0	0	1	17545	668	24	4		4	ZBED4	22	50278153	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	60962	50278153	1026413	1383	8192											
TTLL8	164714	broad.mit.edu	37	chr22	50487735	50487735	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttcttgattttctttgacTttggcacatgtatcatctgc	7	20	6	8	0	4	2	1	2	3	0	4	2	4	2	0	1	1	2	0	1	1	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:50487735T>G	uc011ark.1	-	3	207	c.207A>C	c.(205-207)AAA>AAC	p.K69N		NM_001080447	NP_001073916			tubulin tyrosine ligase-like family, member 8											ovary(2)	2		all_cancers(38;3.44e-07)|all_epithelial(38;2.44e-06)|all_lung(38;0.00141)|Breast(42;0.00519)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		READ - Rectum adenocarcinoma(2;0.000882)|Colorectal(2;0.00311)|BRCA - Breast invasive adenocarcinoma(115;0.226)		TTTCTTTGACTTTGGCACATG	0.532													22	96					0	0	0.012319	0	0		G	50487735	G	G	50487735	3	3	8	1	0	0	0	0	1	0	0	0	16759	1606	56	5	2344	5	TTLL8	22	50487735	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	209582	50487735	816831	1384	8193											
TUBGCP6	85378	broad.mit.edu	37	chr22	50671772	50671772	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcgaaaacgtggcagacacGaccccaatcaagacgttcag	15	4	10	12	4	2	2	2	0	0	2	2	4	2	2	2	1	2	2	2	1	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chr22:50671772G>A	uc003bkb.1	-	3	1601	c.1089C>T	c.(1087-1089)GTC>GTT	p.V363V	TUBGCP6_uc010har.1_Silent_p.V363V|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	363					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		TGGCAGACACGACCCCAATCA	0.642													5	24					0	0	0.001168	0	0		A	50671772	A	A	50671772	2	1	8	1	0	0	0	0	0	0	0	1	16796	1045	37	1		1	TUBGCP6	22	50671772	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	184037	50671772	632794	1385	8194											
PPP2R3B	28227	broad.mit.edu	37	chrX	306335	306335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaacttgcagtagatgaCgtagaaatgctcgtacgaga	14	8	11	8	3	0	5	0	1	0	4	1	6	0	5	1	0	4	5	1	0	5	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:306335C>T	uc004cpg.2	-	7	1153	c.952G>A	c.(952-954)GTC>ATC	p.V318I	PPP2R3B_uc011mha.1_Missense_Mutation_p.V157I	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	318					cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CAGTAGATGACGTAGAAATGC	0.617													16	41					0	0	0.008871	0	0		T	306335	T	T	306335	3	4	8	1	0	0	0	0	1	0	0	0	12411	536	19	1	803	1	PPP2R3B	23	306335	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08		306335	154964225	1386	8195											
ZBED1	9189	broad.mit.edu	37	chrX	2407303	2407303	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgctgccgctcgaaggcGgagaggaagggcagcctctt	8	6	15	12	3	1	1	0	0	1	1	2	4	1	2	3	4	3	3	3	4	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:2407303G>A	uc004cqg.2	-	2	1659	c.1458C>T	c.(1456-1458)TCC>TCT	p.S486S	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Silent_p.S486S	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	486						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCTCGAAGGCGGAGAGGAAGG	0.622													4	30					0	0	0.001984	0	0		A	2407303	A	A	2407303	2	1	8	1	0	0	0	0	0	0	0	1	17543	1103	39	1		1	ZBED1	23	2407303	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2100968	2407303	152863257	1387	8196											
TLR8	51311	broad.mit.edu	37	chrX	12939516	12939516	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattggagatttccgaagatGgatggatgaacatctgaatg	13	11	12	5	1	1	4	0	2	1	2	2	8	2	6	1	3	1	0	1	3	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:12939516G>T	uc004cve.2	+	2	2425	c.2357G>T	c.(2356-2358)TGG>TTG	p.W786L	TLR8_uc004cvd.2_Missense_Mutation_p.W804L	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	786	Extracellular (Potential).|LRRCT.				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						TTCCGAAGATGGATGGATGAA	0.438													25	80					3.96558e-24	4.4783e-24	0.004656	1	0		T	12939516	T	T	12939516	3	4	8	1	0	0	0	0	1	0	0	0	15982	1357	47	5	2363	5	TLR8	23	12939516	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	10532213	12939516	142331044	1388	8197											
BMX	660	broad.mit.edu	37	chrX	15543416	15543416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctcttttttgcagtagcaGcagcagtgaagatgttgcaa	10	13	11	7	0	1	2	0	1	1	1	2	2	1	2	0	0	5	7	0	0	3	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:15543416G>A	uc004cww.2	+	8	946	c.758G>A	c.(757-759)AGC>AAC	p.S253N	BMX_uc004cwx.3_Missense_Mutation_p.S253N|BMX_uc004cwy.3_Missense_Mutation_p.S253N	NM_203281	NP_975010	P51813	BMX_HUMAN	BMX non-receptor tyrosine kinase	253	Poly-Ser.				cellular component disassembly involved in apoptosis|intracellular signal transduction|mesoderm development	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(3)|ovary(2)	5	Hepatocellular(33;0.183)					TGCAGTAGCAGCAGCAGTGAA	0.294													11	95					0	0	0.008291	0	0		A	15543416	A	A	15543416	3	1	8	1	0	0	0	0	1	0	0	0	1474	971	34	2	784	2	BMX	23	15543416	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	2603900	15543416	139727144	1389	8198											
ACE2	59272	broad.mit.edu	37	chrX	15585915	15585915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagcatatgcaacagatgatCggaacaggtacatttcattg	14	11	9	7	1	1	2	1	1	0	1	2	3	1	3	0	2	5	3	0	2	5	5			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:15585915C>T	uc004cxa.1	-	15	2099	c.1931G>A	c.(1930-1932)CGA>CAA	p.R644Q	ACE2_uc004cxb.2_Missense_Mutation_p.R644Q	NM_021804	NP_068576	Q9BYF1	ACE2_HUMAN	angiotensin I converting enzyme 2 precursor	644	Extracellular (Potential).				angiotensin-mediated drinking behavior|proteolysis|receptor biosynthetic process|regulation of cell proliferation|virion attachment, binding of host cell surface receptor	cell surface|extracellular space|integral to membrane|membrane raft|plasma membrane	carboxypeptidase activity|glycoprotein binding|metallopeptidase activity|peptidyl-dipeptidase activity|viral receptor activity|zinc ion binding			ovary(3)	3	Hepatocellular(33;0.183)				Moexipril(DB00691)	AACAGATGATCGGAACAGGTA	0.373													13	64					0	0	0.013537	0	0		T	15585915	T	T	15585915	3	4	8	1	0	0	0	0	1	0	0	0	137	884	31	1	502	1	ACE2	23	15585915	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	42499	15585915	139684645	1390	8199											
NHS	4810	broad.mit.edu	37	chrX	17705908	17705908	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgagtgtgtactaccgCgccccgtggcaccagcagcg	8	6	13	14	4	0	1	0	1	0	0	0	1	0	1	4	1	5	4	4	1	3	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:17705908C>T	uc004cxx.2	+	2	950	c.612C>T	c.(610-612)CGC>CGT	p.R204R	NHS_uc011mix.1_Silent_p.R204R|NHS_uc004cxy.2_Silent_p.R27R|NHS_uc004cxz.2_Silent_p.R27R|NHS_uc004cya.2_5'UTR	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	204						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					TGTACTACCGCGCCCCGTGGC	0.602													13	41					0	0	0.001855	0	0		T	17705908	T	T	17705908	2	4	8	1	0	0	0	0	0	0	0	1	10430	755	27	1		1	NHS	23	17705908	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	2119993	17705908	137564652	1391	8200											
PHEX	5251	broad.mit.edu	37	chrX	22117151	22117151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggctgggctacatcaagaagGtcattgacaccagactctac	12	8	10	11	0	3	3	2	1	1	2	3	3	3	3	1	3	2	2	1	3	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:22117151G>A	uc004dah.2	+	9	1164	c.961G>A	c.(961-963)GTC>ATC	p.V321I	PHEX_uc011mjr.1_Missense_Mutation_p.V321I|PHEX_uc011mjs.1_Missense_Mutation_p.V224I	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	321	Extracellular (Potential).				biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						CATCAAGAAGGTCATTGACAC	0.473													21	78					0	0	0.003954	0	0		A	22117151	A	A	22117151	3	1	8	1	0	0	0	0	1	0	0	0	11838	1261	44	4	995	4	PHEX	23	22117151	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	4411243	22117151	133153409	1392	8201											
DCAF8L1	139425	broad.mit.edu	37	chrX	27997798	27997798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgtaacaggtgacgcaCgaagaaccgaagcatgcggt	12	7	12	10	4	1	2	0	1	1	1	2	4	1	2	1	2	4	3	1	2	4	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:27997798C>T	uc004dbx.1	-	1	1769	c.1654G>A	c.(1654-1656)GTG>ATG	p.V552M		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	552										ovary(3)|skin(1)	4						AGGTGACGCACGAAGAACCGA	0.478													16	89					0	0	0.006122	0	0		T	27997798	T	T	27997798	3	4	8	1	0	0	0	0	1	0	0	0	4280	536	19	1	152	1	DCAF8L1	23	27997798	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5880647	27997798	127272762	1393	8202											
DMD	1756	broad.mit.edu	37	chrX	31676228	31676228	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcatttgccacatctacatTtgtctgccactggcggaggt	7	13	10	11	1	3	0	1	0	2	0	3	1	3	1	2	3	3	0	2	3	1	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:31676228T>G	uc004dda.1	-	54	8150	c.7906A>C	c.(7906-7908)AAT>CAT	p.N2636H	DMD_uc004dcr.1_Missense_Mutation_p.N176H|DMD_uc004dcs.1_Missense_Mutation_p.N176H|DMD_uc004dct.1_Missense_Mutation_p.N176H|DMD_uc004dcu.1_Missense_Mutation_p.N176H|DMD_uc004dcv.1_Missense_Mutation_p.N176H|DMD_uc004dcw.2_Missense_Mutation_p.N1292H|DMD_uc004dcx.2_Missense_Mutation_p.N1295H|DMD_uc004dcz.2_Missense_Mutation_p.N2513H|DMD_uc004dcy.1_Missense_Mutation_p.N2632H|DMD_uc004ddb.1_Missense_Mutation_p.N2628H	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2636	Spectrin 18.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				ACATCTACATTTGTCTGCCAC	0.403													14	56					0	0	0.007413	0	0		G	31676228	G	G	31676228	3	3	8	1	0	0	0	0	1	0	0	0	4586	1841	64	5	3403	5	DMD	23	31676228	Missense_Mutation	SNP	T	TCGA-BR-4201-01A-01D-1126-08	3678430	31676228	123594332	1394	8203											
DMD	1756	broad.mit.edu	37	chrX	31792185	31792185	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtcggtaagttctgtccaAgcccggttgaaatctgccag	9	10	11	11	2	2	1	0	1	2	0	4	1	3	1	3	2	2	3	3	2	3	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:31792185A>G	uc004dda.1	-	51	7678	c.7434T>C	c.(7432-7434)GCT>GCC	p.A2478A	DMD_uc004dcr.1_Silent_p.A18A|DMD_uc004dcs.1_Silent_p.A18A|DMD_uc004dct.1_Silent_p.A18A|DMD_uc004dcu.1_Silent_p.A18A|DMD_uc004dcv.1_Silent_p.A18A|DMD_uc004dcw.2_Silent_p.A1134A|DMD_uc004dcx.2_Silent_p.A1137A|DMD_uc004dcz.2_Silent_p.A2355A|DMD_uc004dcy.1_Silent_p.A2474A|DMD_uc004ddb.1_Silent_p.A2470A|DMD_uc004ddd.1_Silent_p.A18A	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2478	Spectrin 17.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GTTCTGTCCAAGCCCGGTTGA	0.458													9	88					0	0	0.006214	0	0		G	31792185	G	G	31792185	2	3	8	1	0	0	0	0	0	0	0	1	4586	59	3	3		3	DMD	23	31792185	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	115957	31792185	123478375	1395	8204											
USP11	8237	broad.mit.edu	37	chrX	47098875	47098875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggccagccacccattgaaCgcaaggtataatggatgggg	12	7	13	9	1	0	1	0	1	0	0	0	2	0	2	3	5	2	2	3	5	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:47098875C>T	uc004dhp.2	+	3	541	c.541C>T	c.(541-543)CGC>TGC	p.R181C	USP11_uc004dhq.2_Translation_Start_Site	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	181	DUSP.				protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						ACCCATTGAACGCAAGGTATA	0.557													6	22					0	0	0.00308	0	0		T	47098875	T	T	47098875	3	4	8	1	0	0	0	0	1	0	0	0	17068	536	19	1	551	1	USP11	23	47098875	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	15306690	47098875	108171685	1396	8205											
PAGE1	8712	broad.mit.edu	37	chrX	49459349	49459349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcattggtctacgccgatAgattaatcttcttagaaaac	13	13	7	8	2	4	2	1	0	3	2	4	4	4	2	1	1	2	0	1	1	6	6			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:49459349A>G	uc004dom.2	-	2	158	c.25T>C	c.(25-27)TAT>CAT	p.Y9H		NM_003785	NP_003776	O75459	GAGB1_HUMAN	P antigen family, member 1	9					cellular defense response					skin(1)	1	Ovarian(276;0.236)					CTACGCCGATAGATTAATCTT	0.373													9	32					0	0	0.006214	0	0		G	49459349	G	G	49459349	3	3	8	1	0	0	0	0	1	0	0	0	11408	420	15	3	435	3	PAGE1	23	49459349	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	2360474	49459349	105811211	1397	8206											
KDM5C	8242	broad.mit.edu	37	chrX	53228052	53228052	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcatggcaggaagctcAtccaaggtataccgatacct	12	8	10	11	1	1	0	1	0	0	0	2	2	2	1	3	3	5	5	3	3	5	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:53228052A>G	uc004drz.2	-	16	2795	c.2262T>C	c.(2260-2262)GAT>GAC	p.D754D	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Silent_p.D687D|KDM5C_uc004dsa.2_Silent_p.D753D	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	754					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						CAGGAAGCTCATCCAAGGTAT	0.582			N|F|S		clear cell renal carcinoma								7	56					0	0	0.00308	0	0		G	53228052	G	G	53228052	2	3	8	1	0	0	0	0	0	0	0	1	8151	214	8	3		3	KDM5C	23	53228052	Silent	SNP	A	TCGA-BR-4201-01A-01D-1126-08	3768703	53228052	102042508	1398	8207											
XKRX	402415	broad.mit.edu	37	chrX	100169759	100169759	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcaggaccaccagagtgccGacccggctgaagtttttctc	9	9	10	13	2	2	2	1	1	1	1	3	4	2	3	4	2	1	2	4	2	1	2			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:100169759G>A	uc004egn.2	-	3	1523	c.918C>T	c.(916-918)GTC>GTT	p.V306V	XKRX_uc011mre.1_Silent_p.V102V	NM_212559	NP_997724	Q6PP77	XKR2_HUMAN	XK, Kell blood group complex subunit-related,	306	Helical; (Potential).					integral to membrane|plasma membrane				breast(1)	1						CCAGAGTGCCGACCCGGCTGA	0.498													36	115					0	0	0.003271	0	0		A	100169759	A	A	100169759	2	1	8	1	0	0	0	0	0	0	0	1	17465	1045	37	1		1	XKRX	23	100169759	Silent	SNP	G	TCGA-BR-4201-01A-01D-1126-08	46941707	100169759	55100801	1399	8208											
AMOT	154796	broad.mit.edu	37	chrX	112035060	112035060	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctttaagttctccatacCtgctggattctcagggattc	7	16	7	11	0	2	0	1	0	2	0	6	2	3	2	3	2	2	2	3	2	2	7			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:112035060C>A	uc004epr.2	-	6	1926	c.1926G>T	c.(1924-1926)CAG>CAT	p.Q642H	AMOT_uc004eps.2_Missense_Mutation_p.Q233H	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	642	Potential.				actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						TTCTCCATACCTGCTGGATTC	0.443													20	103					1.22574e-08	1.34438e-08	0.014323	1	0		A	112035060	A	A	112035060	3	1	8	1	0	0	0	0	1	0	0	0	582	695	24	5	1352	5	AMOT	23	112035060	Missense_Mutation	SNP	C	TCGA-BR-4201-01A-01D-1126-08	11865301	112035060	43235500	1400	8209											
DOCK11	139818	broad.mit.edu	37	chrX	117722266	117722266	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgcaattaaaatacgatagCcagaaaacatttgccaaggt	17	9	7	8	1	0	1	0	0	0	1	0	2	0	1	2	1	5	1	2	1	8	4			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:117722266C>T	uc004eqp.2	+	17	2025	c.1962C>T	c.(1960-1962)AGC>AGT	p.S654S	DOCK11_uc004eqq.2_Silent_p.S420S	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	654	DHR-1.				blood coagulation	cytosol	GTP binding			ovary(3)	3						AATACGATAGCCAGAAAACAT	0.294													15	71					0	0	0.00245	0	0		T	117722266	T	T	117722266	2	4	8	1	0	0	0	0	0	0	0	1	4692	738	26	2		2	DOCK11	23	117722266	Silent	SNP	C	TCGA-BR-4201-01A-01D-1126-08	5687206	117722266	37548294	1401	8210											
THOC2	57187	broad.mit.edu	37	chrX	122805587	122805587	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgctgcaactctgtataaaGatgatggtgtctcgccattt	9	14	9	9	1	2	2	0	1	2	1	3	2	2	2	1	1	3	3	1	1	4	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:122805587G>C	uc004etu.2	-	9	826	c.794C>G	c.(793-795)TCT>TGT	p.S265C	THOC2_uc011muh.1_Missense_Mutation_p.S186C|THOC2_uc011mui.1_Missense_Mutation_p.S150C	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	265					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TCTGTATAAAGATGATGGTGT	0.323													22	64					0	0	0.00333	0	0		C	122805587	C	C	122805587	3	2	8	1	0	0	0	0	1	0	0	0	15890	942	33	5	4107	5	THOC2	23	122805587	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	5083321	122805587	32464973	1402	8211											
MAMLD1	10046	broad.mit.edu	37	chrX	149639052	149639052	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgccctggggcccgccAtgccctatgctcctgagaag	6	8	12	15	1	0	1	0	1	0	1	1	2	1	1	5	2	4	2	5	2	2	1			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:149639052A>G	uc004fee.1	+	3	1283	c.1207A>G	c.(1207-1209)ATG>GTG	p.M403V	MAMLD1_uc011mxt.1_Missense_Mutation_p.M365V|MAMLD1_uc011mxu.1_Missense_Mutation_p.M378V|MAMLD1_uc011mxv.1_Missense_Mutation_p.M378V|MAMLD1_uc011mxw.1_Missense_Mutation_p.M330V	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	403					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					GGGGCCCGCCATGCCCTATGC	0.587													20	56					0	0	0.00278	0	0		G	149639052	G	G	149639052	3	3	8	1	0	0	0	0	1	0	0	0	9226	217	8	3	1217	3	MAMLD1	23	149639052	Missense_Mutation	SNP	A	TCGA-BR-4201-01A-01D-1126-08	26833465	149639052	5631508	1403	8212											
SRPK3	26576	broad.mit.edu	37	chrX	153050422	153050422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccactggtgactacctgttcGagccgcattctggagaagac	9	9	11	12	2	1	3	0	1	1	2	2	5	1	3	3	2	2	2	3	2	2	3			TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:153050422G>A	uc004fil.2	+	13	1422	c.1390G>A	c.(1390-1392)GAG>AAG	p.E464K	SRPK3_uc004fik.2_Missense_Mutation_p.E530K|SRPK3_uc010nul.2_Missense_Mutation_p.E388K|SRPK3_uc004fin.2_Missense_Mutation_p.E463K|SRPK3_uc004fim.2_Missense_Mutation_p.E430K	NM_014370	NP_055185	Q9UPE1	SRPK3_HUMAN	serine arginine rich protein-specific kinase 3	464	Protein kinase.				cell differentiation|muscle organ development|muscle tissue development		ATP binding|protein serine/threonine kinase activity			pancreas(2)|lung(1)	3	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CTACCTGTTCGAGCCGCATTC	0.682													3	12					0	0	0.000602	0	0		A	153050422	A	A	153050422	3	1	8	1	0	0	0	0	1	0	0	0	15186	1059	37	1	1440	1	SRPK3	23	153050422	Missense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	3411370	153050422	2220138	1404	8213											
MECP2	4204	broad.mit.edu	37	chrX	153296471	153296471	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccacactccccggctttcGgccccgtttcttgggaatgg	5	10	10	16	3	1	0	0	0	1	0	3	1	2	1	5	4	0	2	5	4	1	3	rs62931162		TCGA-BR-4201-01A-01D-1126-08	TCGA-BR-4201-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cf40f330-fe61-46ba-9b96-ad011d85bb21	7966b3b9-707d-40ce-9895-151824d97ea7	g.chrX:153296471G>A	uc004fjv.2	-	4	1034	c.808C>T	c.(808-810)CGA>TGA	p.R270*	MECP2_uc004fjw.2_Nonsense_Mutation_p.R282*	NM_004992	NP_004983	P51608	MECP2_HUMAN	methyl CpG binding protein 2 isoform 1	270	A.T hook 2.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	heterochromatin|nucleus	double-stranded methylated DNA binding|protein domain specific binding|protein N-terminus binding|transcription corepressor activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCCGGCTTTCGGCCCCGTTTC	0.622													8	30					0	0	0.001855	0	0		A	153296471	A	A	153296471	4	1	8	1	0	0	0	0	0	1	0	0	9441	1124	39	1	656	1	MECP2	23	153296471	Nonsense_Mutation	SNP	G	TCGA-BR-4201-01A-01D-1126-08	246049	153296471	1974089	1405	8214											
NBPF1	55672	broad.mit.edu	37	chr1	16907981	16907981	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttcatcctcatcttcgTcattttctgtaaatacaaaa	12	16	2	11	1	6	0	3	0	3	0	8	0	7	0	1	0	1	1	1	0	5	6			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:16907981T>C	uc009vos.1	-	15	2201	c.1313A>G	c.(1312-1314)GAC>GGC	p.D438G	NBPF1_uc009vot.1_Intron|NBPF1_uc001ayz.1_Intron|NBPF1_uc010oce.1_Missense_Mutation_p.D167G	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	438	NBPF 2.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		CTCATCTTCGTCATTTTCTGT	0.433													14	294					0	0	0.002836	0	0		C	16907981	C	C	16907981	3	2	9	1	0	0	0	0	1	0	0	0	10210	1667	58	3	2171	3	NBPF1	1	16907981	Missense_Mutation	SNP	T	TCGA-BR-4253-01A-01D-1126-08		16907981	232342640	1	8215											
NBPF1	55672	broad.mit.edu	37	chr1	16914286	16914286	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttcatcctcatcttcgTcattttctgtaaatacaaaa	12	16	2	11	1	6	0	3	0	3	0	8	0	7	0	1	0	1	1	1	0	5	6			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:16914286T>C	uc009vos.1	-	10	1388	c.500A>G	c.(499-501)GAC>GGC	p.D167G	NBPF1_uc009vot.1_5'Flank|NBPF1_uc001ayz.1_5'Flank|NBPF1_uc010oce.1_Intron	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	167	NBPF 1.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		CTCATCTTCGTCATTTTCTGT	0.428													48	459					0	0	0.00361	0	0		C	16914286	C	C	16914286	3	2	9	1	0	0	0	0	1	0	0	0	10210	1667	58	3	3004	3	NBPF1	1	16914286	Missense_Mutation	SNP	T	TCGA-BR-4253-01A-01D-1126-08	6305	16914286	232336335	2	8216											
ARID1A	8289	broad.mit.edu	37	chr1	27100312	27100312	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacatgattcctatggcaatCagttctccacccaaggcacc	11	9	7	14	0	2	1	1	1	1	0	4	2	3	1	4	2	0	3	4	2	3	3			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:27100312C>T	uc001bmv.1	+	17	4397	c.4024C>T	c.(4024-4026)CAG>TAG	p.Q1342*	ARID1A_uc001bmt.1_Nonsense_Mutation_p.Q1341*|ARID1A_uc001bmu.1_Nonsense_Mutation_p.Q1342*|ARID1A_uc001bmw.1_Nonsense_Mutation_p.Q959*|ARID1A_uc001bmx.1_Nonsense_Mutation_p.Q188*|ARID1A_uc009vsm.1_5'UTR|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1342	Gln-rich.				androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CTATGGCAATCAGTTCTCCAC	0.542			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								73	114					0	0	0.00361	0	0		T	27100312	T	T	27100312	4	4	9	1	0	0	0	0	0	1	0	0	913	827	29	4	4090	4	ARID1A	1	27100312	Nonsense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	10186026	27100312	222150309	3	8217											
MOV10	4343	broad.mit.edu	37	chr1	113241043	113241043	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggccccctcctccaagaaGggcaaagctcgcctgagccc	8	5	10	18	1	0	2	0	1	0	1	3	2	2	2	6	2	2	2	6	2	3	0			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:113241043G>A	uc001eck.2	+	16	2721	c.2451G>A	c.(2449-2451)AAG>AAA	p.K817K	MOV10_uc001ecl.2_Intron|MOV10_uc001ecn.2_Silent_p.K817K|MOV10_uc001ecm.2_Silent_p.K757K	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	817					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		CCTCCAAGAAGGGCAAAGCTC	0.607													5	31					0	0	0.001168	0	0		A	113241043	A	A	113241043	2	1	9	1	0	0	0	0	0	0	0	1	9736	991	35	4		4	MOV10	1	113241043	Silent	SNP	G	TCGA-BR-4253-01A-01D-1126-08	86140731	113241043	136009578	4	8218											
NGF	4803	broad.mit.edu	37	chr1	115829244	115829244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccacgcgtgcagctatcGccgctgccggggcgctgcgg	3	5	16	17	8	0	0	0	0	0	0	1	0	0	0	4	3	4	4	4	3	1	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:115829244G>A	uc001efu.1	-	3	342	c.173C>T	c.(172-174)GCG>GTG	p.A58V		NM_002506	NP_002497	P01138	NGF_HUMAN	nerve growth factor, beta polypeptide precursor	58					activation of MAPKK activity|activation of phospholipase C activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of cell cycle|nerve growth factor processing|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|Golgi lumen	growth factor activity|nerve growth factor receptor binding			upper_aerodigestive_tract(2)	2	Lung SC(450;0.211)	all_cancers(81;1.07e-06)|all_epithelial(167;4.43e-06)|all_lung(203;2.86e-05)|Lung NSC(69;4.99e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|all cancers(265;0.159)|Epithelial(280;0.179)	Clenbuterol(DB01407)	TGCAGCTATCGCCGCTGCCGG	0.617													4	23					0	0	0.000248	0	0		A	115829244	A	A	115829244	3	1	9	1	0	0	0	0	1	0	0	0	10414	1087	38	1	556	1	NGF	1	115829244	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	2588201	115829244	133421377	5	8219											
CD58	965	broad.mit.edu	37	chr1	117087145	117087145	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttccataggacctcttttAaaggcacattgcttggtaca	10	15	7	9	0	1	0	0	0	1	0	2	1	2	1	2	3	2	3	2	3	4	8			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:117087145A>T	uc001egm.2	-	2	273	c.152T>A	c.(151-153)TTA>TAA	p.L51*	CD58_uc001egn.2_RNA|CD58_uc010owy.1_Nonsense_Mutation_p.L51*|CD58_uc001ego.1_RNA|CD58_uc001egp.3_Nonsense_Mutation_p.L51*	NM_001779	NP_001770	P19256	LFA3_HUMAN	CD58 molecule isoform 1	51	Extracellular (Potential).				blood coagulation|cell-cell adhesion|leukocyte migration	anchored to membrane|integral to plasma membrane	protein binding				0	Lung SC(450;0.225)	all_cancers(81;0.000363)|all_lung(203;0.000118)|all_epithelial(167;0.000149)|Lung NSC(69;0.000577)		Lung(183;0.0086)|LUSC - Lung squamous cell carcinoma(189;0.0528)|Colorectal(144;0.0775)|all cancers(265;0.109)|Epithelial(280;0.118)|COAD - Colon adenocarcinoma(174;0.121)		GACCTCTTTTAAAGGCACATT	0.333													12	40					0	0	0.001368	0	0		T	117087145	T	T	117087145	4	4	9	1	0	0	0	0	0	1	0	0	3028	372	13	5	624	5	CD58	1	117087145	Nonsense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08	1257901	117087145	132163476	6	8220											
SLAMF1	6504	broad.mit.edu	37	chr1	160589609	160589609	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcgtaaggcttttttttTccactgttgtctggtaatgg	7	18	10	6	1	1	1	0	0	1	1	3	1	2	1	1	3	0	4	1	3	2	7			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:160589609T>C	uc001fwl.3	-	5	1167	c.821A>G	c.(820-822)GAA>GGA	p.E274G	SLAMF1_uc010pjk.1_Intron|SLAMF1_uc010pjl.1_Intron|SLAMF1_uc010pjm.1_Intron	NM_003037	NP_003028	Q13291	SLAF1_HUMAN	signaling lymphocytic activation molecule family	274	Cytoplasmic (Potential).|Ig-like V-type.				interspecies interaction between organisms|lymphocyte activation|positive regulation of cell proliferation	integral to membrane	antigen binding|transmembrane receptor activity			ovary(1)|breast(1)	2	all_cancers(52;4.94e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			GCTTTTTTTTTCCACTGTTGT	0.438													36	137					0	0	0.00874	0	0		C	160589609	C	C	160589609	3	2	9	1	0	0	0	0	1	0	0	0	14392	1783	62	3	198	3	SLAMF1	1	160589609	Missense_Mutation	SNP	T	TCGA-BR-4253-01A-01D-1126-08	43502464	160589609	88661012	7	8221											
EDEM3	80267	broad.mit.edu	37	chr1	184663564	184663564	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccactctgattctgagaaTcattttcagaggatggttgt	10	14	9	8	0	4	3	2	2	2	2	4	5	4	4	1	2	0	1	1	2	1	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:184663564T>A	uc010pok.1	-	20	2693	c.2432A>T	c.(2431-2433)GAT>GTT	p.D811V	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.D827V	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	811					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						ATTCTGAGAATCATTTTCAGA	0.358													11	24					0	0	0.000978	0	0		A	184663564	A	A	184663564	3	1	9	1	0	0	0	0	1	0	0	0	4919	1435	50	5	370	5	EDEM3	1	184663564	Missense_Mutation	SNP	T	TCGA-BR-4253-01A-01D-1126-08	24073955	184663564	64587057	8	8222											
RNF2	6045	broad.mit.edu	37	chr1	185068944	185068944	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacataaagacttctggtaaCgccactgttgatcacttatc	12	13	6	10	1	2	2	1	1	1	1	3	2	2	2	1	1	2	2	1	1	5	6			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:185068944C>T	uc001grc.1	+	6	992	c.759C>T	c.(757-759)AAC>AAT	p.N253N	RNF2_uc001grd.1_Silent_p.N181N|RNF2_uc001gre.1_RNA	NM_007212	NP_009143	Q99496	RING2_HUMAN	ring finger protein 2	253					histone H2A monoubiquitination|transcription, DNA-dependent	MLL1 complex|PcG protein complex|ubiquitin ligase complex	RING-like zinc finger domain binding|zinc ion binding			breast(1)	1		Breast(1374;0.000496)		Colorectal(1306;6.9e-08)|KIRC - Kidney renal clear cell carcinoma(1967;8.12e-06)		CTTCTGGTAACGCCACTGTTG	0.338													8	80					0	0	0.00308	0	0		T	185068944	T	T	185068944	2	4	9	1	0	0	0	0	0	0	0	1	13497	535	19	1		1	RNF2	1	185068944	Silent	SNP	C	TCGA-BR-4253-01A-01D-1126-08	405380	185068944	64181677	9	8223											
AIDA	64853	broad.mit.edu	37	chr1	222843513	222843513	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaggtttaatttcatccatCtccatgaaagcaaaacactt	14	12	4	11	0	2	1	1	1	1	0	4	1	3	1	3	1	2	2	3	1	4	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:222843513C>T	uc001hnn.2	-	9	991	c.786G>A	c.(784-786)GAG>GAA	p.E262E	AIDA_uc001hno.2_RNA|AIDA_uc010pus.1_Silent_p.E238E	NM_022831	NP_073742	Q96BJ3	AIDA_HUMAN	axin interactor, dorsalization associated	262					dorsal/ventral pattern formation|negative regulation of JNK cascade|negative regulation of JUN kinase activity|regulation of protein homodimerization activity						0						TTTCATCCATCTCCATGAAAG	0.348													16	62					0	0	0.001523	0	0		T	222843513	T	T	222843513	2	4	9	1	0	0	0	0	0	0	0	1	423	912	32	4		4	AIDA	1	222843513	Silent	SNP	C	TCGA-BR-4253-01A-01D-1126-08	37774569	222843513	26407108	10	8224											
TLR5	7100	broad.mit.edu	37	chr1	223285929	223285929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttttggatagatccaagcGagttaaagcctttaaatttc	13	15	7	6	1	0	1	0	0	0	1	2	3	1	2	2	1	2	1	2	1	6	7			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:223285929G>A	uc001hnv.1	-	4	891	c.445C>T	c.(445-447)CGC>TGC	p.R149C	TLR5_uc001hnw.1_Missense_Mutation_p.R149C	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	149	LRR 3.|Extracellular (Potential).				cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		AGATCCAAGCGAGTTAAAGCC	0.368													22	84					0	0	0.003954	0	0		A	223285929	A	A	223285929	3	1	9	1	0	0	0	0	1	0	0	0	15979	1058	37	1	2135	1	TLR5	1	223285929	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	442416	223285929	25964692	11	8225											
OR2T4	127074	broad.mit.edu	37	chr1	248525601	248525601	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgtgtcctcatgctccTcatccctgtggtgatcattt	4	16	9	12	0	3	1	3	1	0	0	6	1	6	1	3	1	2	2	3	1	0	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:248525601T>G	uc001ieh.1	+	1	719	c.719T>G	c.(718-720)CTC>CGC	p.L240R		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	240	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTCATGCTCCTCATCCCTGTG	0.483													22	102					0	0	0.005443	0	0		G	248525601	G	G	248525601	3	3	9	1	0	0	0	0	1	0	0	0	11046	1551	54	5	721	5	OR2T4	1	248525601	Missense_Mutation	SNP	T	TCGA-BR-4253-01A-01D-1126-08	25239672	248525601	725020	12	8226											
OR2G6	391211	broad.mit.edu	37	chr1	248685218	248685218	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatgaataagaaagacaaaAccatgagctacggtggctgt	16	7	10	8	1	0	4	0	2	0	2	0	4	0	4	2	2	3	2	2	2	6	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr1:248685218A>C	uc001ien.1	+	1	271	c.271A>C	c.(271-273)ACC>CCC	p.T91P		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GAAAGACAAAACCATGAGCTA	0.517													4	68					0	0	0.001984	0	0		C	248685218	C	C	248685218	3	2	9	1	0	0	0	0	1	0	0	0	11019	43	2	5	273	5	OR2G6	1	248685218	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08	159617	248685218	565403	13	8227											
GREB1	9687	broad.mit.edu	37	chr2	11735458	11735458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcaattacgagctggttaCggggaaggtagactcgctgg	10	9	15	7	3	1	1	1	0	0	1	2	3	1	2	0	5	3	4	0	5	5	3			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr2:11735458C>T	uc002rbk.1	+	12	2078	c.1778C>T	c.(1777-1779)ACG>ATG	p.T593M	GREB1_uc002rbo.1_Missense_Mutation_p.T227M	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	593						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GAGCTGGTTACGGGGAAGGTA	0.408													6	33					0	0	0.00308	0	0		T	11735458	T	T	11735458	3	4	9	1	0	0	0	0	1	0	0	0	6776	536	19	1	1928	1	GREB1	2	11735458	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08		11735458	231463915	14	8228											
NCKAP5	344148	broad.mit.edu	37	chr2	133542728	133542728	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgaggcgtctgcacactTgggcacagcttcatctctaa	9	10	9	13	1	3	1	1	1	2	0	4	1	3	1	1	2	2	3	1	2	1	3			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr2:133542728T>G	uc002ttp.2	-	14	2030	c.1656A>C	c.(1654-1656)CCA>CCC	p.P552P	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	552							protein binding				0						TCTGCACACTTGGGCACAGCT	0.552													25	81					0	0	0.007291	0	0		G	133542728	G	G	133542728	2	3	9	1	0	0	0	0	0	0	0	1	10242	1799	63	5		5	NCKAP5	2	133542728	Silent	SNP	T	TCGA-BR-4253-01A-01D-1126-08	121807270	133542728	109656645	15	8229											
ZEB2	9839	broad.mit.edu	37	chr2	145147018	145147018	+	Nonstop_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttaaaatgcagtagtttaTtacatgccatcttccatatt	12	16	5	8	0	1	0	0	0	1	0	2	0	2	0	2	0	3	4	2	0	6	8			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr2:145147018T>G	uc002tvu.2	-	10	4125	c.3645A>C	c.(3643-3645)TAA>TAC	p.*1215Y	ZEB2_uc002tvv.2_Nonstop_Mutation_p.*1209Y|ZEB2_uc010zbm.1_Nonstop_Mutation_p.*1186Y|ZEB2_uc010fnp.2_Intron	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	1215						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		CAGTAGTTTATTACATGCCAT	0.418													6	176					0	0	0.001984	0	0		G	145147018	G	G	145147018	4	3	9	1	0	0	0	0	0	0	0	0	17649	1500	52	5	3	5	ZEB2	2	145147018	Nonstop_Mutation	SNP	T	TCGA-BR-4253-01A-01D-1126-08	11604290	145147018	98052355	16	8230											
ZEB2	9839	broad.mit.edu	37	chr2	145156205	145156205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgagttttcagatgaggaaGaaacactgttatgatctaaa	15	12	9	5	0	2	5	1	3	1	2	2	6	2	6	0	1	1	2	0	1	5	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr2:145156205G>A	uc002tvu.2	-	8	3029	c.2549C>T	c.(2548-2550)TCT>TTT	p.S850F	ZEB2_uc002tvv.2_Missense_Mutation_p.S844F|ZEB2_uc010zbm.1_Missense_Mutation_p.S821F|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.S879F	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	850						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		AGATGAGGAAGAAACACTGTT	0.343													25	83					0	0	0.00278	0	0		A	145156205	A	A	145156205	3	1	9	1	0	0	0	0	1	0	0	0	17649	942	33	4	1107	4	ZEB2	2	145156205	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	9187	145156205	98043168	17	8231											
MYO1B	4430	broad.mit.edu	37	chr2	192227095	192227095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcaaattttagaaccgtgCgggtaagatgtagtactttc	12	12	10	7	2	0	2	0	0	0	2	1	2	0	2	1	1	4	4	1	1	6	6	rs139382265		TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr2:192227095C>T	uc010fsg.2	+	9	1018	c.763C>T	c.(763-765)CGG>TGG	p.R255W	MYO1B_uc002usq.2_Missense_Mutation_p.R255W|MYO1B_uc002usr.2_Missense_Mutation_p.R255W|MYO1B_uc002uss.1_Missense_Mutation_p.R255W	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	255	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			TAGAACCGTGCGGGTAAGATG	0.423													15	32					0	0	0.003163	0	0		T	192227095	T	T	192227095	3	4	9	1	0	0	0	0	1	0	0	0	10087	759	27	1	793	1	MYO1B	2	192227095	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	47070890	192227095	50972278	18	8232											
CASP10	843	broad.mit.edu	37	chr2	202073970	202073970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttggagctgtctactcttCggatgaggccctcattccca	7	13	9	12	1	3	1	1	1	2	0	5	3	4	3	2	3	2	1	2	3	1	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr2:202073970C>T	uc002uxl.1	+	9	1518	c.1100C>T	c.(1099-1101)TCG>TTG	p.S367L	CASP10_uc002uxj.1_Missense_Mutation_p.S367L|CASP10_uc002uxk.1_Missense_Mutation_p.S324L|CASP10_uc010fta.1_Missense_Mutation_p.S300L|CASP10_uc002uxm.1_Missense_Mutation_p.S324L|CASP10_uc010ftb.1_RNA	NM_032974	NP_116756	Q92851	CASPA_HUMAN	caspase 10 isoform b preproprotein	367					apoptosis|induction of apoptosis by extracellular signals|proteolysis	cytosol|plasma membrane	cysteine-type endopeptidase activity|identical protein binding|protein binding			skin(3)|ovary(1)|pancreas(1)|breast(1)	6						GTCTACTCTTCGGATGAGGCC	0.527													17	98					0	0	0.008871	0	0		T	202073970	T	T	202073970	3	4	9	1	0	0	0	0	1	0	0	0	2672	893	31	1	1130	1	CASP10	2	202073970	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	9846875	202073970	41125403	19	8233											
CHRND	1144	broad.mit.edu	37	chr2	233396285	233396285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcatggtgctggtcaccatGgttgtggtgatctgtgtcat	5	14	15	7	0	3	1	2	1	1	0	3	1	3	1	1	5	1	3	1	5	0	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr2:233396285G>A	uc002vsw.2	+	9	970	c.966G>A	c.(964-966)ATG>ATA	p.M322I	CHRND_uc010zmg.1_Missense_Mutation_p.M307I|CHRND_uc010fyc.2_Missense_Mutation_p.M195I|CHRND_uc010zmh.1_Missense_Mutation_p.M128I	NM_000751	NP_000742	Q07001	ACHD_HUMAN	nicotinic acetylcholine receptor delta	322	Helical; (Potential).				muscle contraction|musculoskeletal movement|neuromuscular process|skeletal muscle tissue growth|synaptic transmission	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)|breast(1)|skin(1)	3		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.89e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00078)|Lung(119;0.00579)|LUSC - Lung squamous cell carcinoma(224;0.00754)		TGGTCACCATGGTTGTGGTGA	0.557													16	59					0	0	0.00499	0	0		A	233396285	A	A	233396285	3	1	9	1	0	0	0	0	1	0	0	0	3397	1348	47	4	1000	4	CHRND	2	233396285	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	31322315	233396285	9803088	20	8234											
NEK10	152110	broad.mit.edu	37	chr3	27326407	27326407	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaactgaaatgctctccaAgcggggctccttctatcagc	11	9	9	12	1	3	2	1	1	2	1	5	2	4	2	2	2	4	2	2	2	5	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr3:27326407A>G	uc003cdt.1	-	22	2109	c.1835T>C	c.(1834-1836)CTT>CCT	p.L612P	NEK10_uc003cds.1_Missense_Mutation_p.L9P	NM_199347	NP_955379	Q6ZWH5	NEK10_HUMAN	NIMA-related kinase 10 isoform 3	612	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						ATGCTCTCCAAGCGGGGCTCC	0.328													15	68					0	0	0.00499	0	0		G	27326407	G	G	27326407	3	3	9	1	0	0	0	0	1	0	0	0	10341	72	3	3	319	3	NEK10	3	27326407	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08		27326407	170696023	21	8235											
C3orf67	200844	broad.mit.edu	37	chr3	58849420	58849420	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagtctttccatgaggtgctGatcgtggtcttgatgaaaaa	10	13	12	6	1	2	4	0	4	2	0	4	5	3	4	1	2	1	1	1	2	2	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr3:58849420G>C	uc003dkt.1	-	12	1491	c.1082C>G	c.(1081-1083)TCA>TGA	p.S361*	C3orf67_uc003dks.1_Nonsense_Mutation_p.S176*|uc003dku.1_Intron|C3orf67_uc003dkv.1_Nonsense_Mutation_p.S176*|C3orf67_uc003dkw.2_Nonsense_Mutation_p.S256*	NM_198463	NP_940865	Q6ZVT6	CC067_HUMAN	hypothetical protein LOC200844	361											0		all_cancers(2;0.000156)|all_epithelial(2;0.000493)|Breast(2;0.00446)|all_lung(2;0.074)|Lung NSC(2;0.248)		BRCA - Breast invasive adenocarcinoma(55;5.93e-06)|Kidney(10;0.00155)|KIRC - Kidney renal clear cell carcinoma(10;0.00172)|OV - Ovarian serous cystadenocarcinoma(275;0.23)		ATGAGGTGCTGATCGTGGTCT	0.468													13	76					0	0	0.003163	0	0		C	58849420	C	C	58849420	4	2	9	1	0	0	0	0	0	1	0	0	2244	1294	45	5	629	5	C3orf67	3	58849420	Nonsense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	31523013	58849420	139173010	22	8236											
FBXO40	51725	broad.mit.edu	37	chr3	121345655	121345655	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacattgtagagcacaaaacTgacccgattcttttgactag	14	11	7	9	1	1	3	0	2	1	1	1	4	1	3	1	0	3	2	1	0	5	6			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr3:121345655T>G	uc003eeg.2	+	4	2238	c.2028T>G	c.(2026-2028)ACT>ACG	p.T676T		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	676					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		AGCACAAAACTGACCCGATTC	0.493													19	98					0	0	0.008871	0	0		G	121345655	G	G	121345655	2	3	9	1	0	0	0	0	0	0	0	1	5763	1567	55	5		5	FBXO40	3	121345655	Silent	SNP	T	TCGA-BR-4253-01A-01D-1126-08	62496235	121345655	76676775	23	8237											
ILDR1	286676	broad.mit.edu	37	chr3	121725886	121725886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcagaaggacttgaagcGccatgtcaccaccacgtcct	10	8	9	14	2	1	2	1	1	0	1	2	3	2	3	4	1	2	1	4	1	2	2	rs148962924		TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr3:121725886G>A	uc003ees.2	-	2	287	c.181C>T	c.(181-183)CGC>TGC	p.R61C	ILDR1_uc003eeq.2_Missense_Mutation_p.R73C|ILDR1_uc003eer.2_Missense_Mutation_p.R61C|ILDR1_uc010hrg.2_Missense_Mutation_p.R61C	NM_175924	NP_787120	Q86SU0	ILDR1_HUMAN	immunoglobulin-like domain containing receptor	61	Extracellular (Potential).|Ig-like V-type.					cytosol|integral to membrane|plasma membrane	receptor activity			skin(1)	1				GBM - Glioblastoma multiforme(114;0.156)		GACTTGAAGCGCCATGTCACC	0.547													9	44					0	0	0.008291	0	0		A	121725886	A	A	121725886	3	1	9	1	0	0	0	0	1	0	0	0	7725	1087	38	1	1351	1	ILDR1	3	121725886	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	380231	121725886	76296544	24	8238											
PARP15	165631	broad.mit.edu	37	chr3	122354929	122354929	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggcttacccagaatatctCataactttcacggcttaaaa	14	11	5	11	1	2	1	2	0	1	1	3	1	2	1	1	2	2	2	1	2	6	5			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr3:122354929C>T	uc003efm.2	+	12	2085	c.2019C>T	c.(2017-2019)CTC>CTT	p.L673L	PARP15_uc003efn.2_Silent_p.L478L|PARP15_uc003efo.1_Silent_p.L420L|PARP15_uc003efp.1_Silent_p.L439L|PARP15_uc011bjt.1_Silent_p.L370L	NM_001113523	NP_001106995	Q460N3	PAR15_HUMAN	poly (ADP-ribose) polymerase family, member 15	651	PARP catalytic.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	NAD+ ADP-ribosyltransferase activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)	5				GBM - Glioblastoma multiforme(114;0.0531)		CAGAATATCTCATAACTTTCA	0.358													8	36					0	0	0.004482	0	0		T	122354929	T	T	122354929	2	4	9	1	0	0	0	0	0	0	0	1	11478	813	29	4		4	PARP15	3	122354929	Silent	SNP	C	TCGA-BR-4253-01A-01D-1126-08	629043	122354929	75667501	25	8239											
P2RY12	64805	broad.mit.edu	37	chr3	151056389	151056389	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcccagtttggcatcactaAgaattttgaatggaaaagtc	13	13	8	7	0	1	2	1	1	0	1	3	3	2	3	1	2	0	2	1	2	5	5			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr3:151056389A>C	uc003eyw.1	-	2	461	c.245T>G	c.(244-246)CTT>CGT	p.L82R	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY12_uc011boa.1_Missense_Mutation_p.L82R|P2RY12_uc003eyx.1_Missense_Mutation_p.L82R	NM_176876	NP_795345	Q9H244	P2Y12_HUMAN	purinergic receptor P2Y12	82	Extracellular (Potential).				platelet activation	integral to membrane|plasma membrane	guanyl-nucleotide exchange factor activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)		Clopidogrel(DB00758)|Epoprostenol(DB01240)|Ticlopidine(DB00208)|Treprostinil(DB00374)	GGCATCACTAAGAATTTTGAA	0.328													10	55					0	0	0.001368	0	0		C	151056389	C	C	151056389	3	2	9	1	0	0	0	0	1	0	0	0	11368	72	3	5	787	5	P2RY12	3	151056389	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08	28701460	151056389	46966041	26	8240											
PIK3CA	5290	broad.mit.edu	37	chr3	178921553	178921553	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtgcaacctacgtgaaTgtaaatattcgagacattga	13	13	8	7	2	0	3	0	2	0	1	1	4	0	3	1	0	3	2	1	0	6	6	rs121913284		TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr3:178921553T>A	uc003fjk.2	+	5	1192	c.1035T>A	c.(1033-1035)AAT>AAA	p.N345K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	345					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.N345K(29)|p.N345I(2)|p.N345S(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			CCTACGTGAATGTAAATATTC	0.308		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			12	56					0	0	0.001368	0	0		A	178921553	A	A	178921553	3	1	9	1	0	0	0	0	1	0	0	0	11932	1461	51	5	1049	5	PIK3CA	3	178921553	Missense_Mutation	SNP	T	TCGA-BR-4253-01A-01D-1126-08	27865164	178921553	19100877	27	8241											
ADD1	118	broad.mit.edu	37	chr4	2896375	2896375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctgggagtgaatcaggccGgcttcaccttacactctgca	9	10	10	12	1	4	1	2	1	2	0	4	2	4	2	2	3	2	2	2	3	2	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr4:2896375G>A	uc003gfr.2	+	6	846	c.658G>A	c.(658-660)GGC>AGC	p.G220S	ADD1_uc003gfn.2_Intron|ADD1_uc010ico.1_Missense_Mutation_p.G220S|ADD1_uc003gfo.2_Missense_Mutation_p.G220S|ADD1_uc003gfp.2_Missense_Mutation_p.G220S|ADD1_uc003gfq.2_Missense_Mutation_p.G220S|ADD1_uc003gfs.2_Missense_Mutation_p.G220S|ADD1_uc003gft.3_Missense_Mutation_p.G220S|ADD1_uc003gfu.2_5'UTR	NM_001119	NP_001110	P35611	ADDA_HUMAN	adducin 1 (alpha) isoform a	220					actin filament bundle assembly|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|positive regulation of protein binding	cytosol|F-actin capping protein complex|nucleus|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding|transcription factor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GAATCAGGCCGGCTTCACCTT	0.473													8	34					0	0	0.006214	0	0		A	2896375	A	A	2896375	3	1	9	1	0	0	0	0	1	0	0	0	304	1116	39	1	676	1	ADD1	4	2896375	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08		2896375	188257901	28	8242											
GABRA4	2557	broad.mit.edu	37	chr4	46967137	46967137	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataagggccgaaaatacaaaAgcaaagcagacagctatgaa	21	4	9	7	1	0	2	0	1	0	1	0	3	0	2	1	1	4	3	1	1	9	3			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr4:46967137A>C	uc003gxg.2	-	8	1123	c.984T>G	c.(982-984)GCT>GCG	p.A328A		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	328	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	AAAATACAAAAGCAAAGCAGA	0.458													27	106					0	0	0.001786	0	0		C	46967137	C	C	46967137	2	2	9	1	0	0	0	0	0	0	0	1	6177	59	3	5		5	GABRA4	4	46967137	Silent	SNP	A	TCGA-BR-4253-01A-01D-1126-08	44070762	46967137	144187139	29	8243											
ARHGAP24	83478	broad.mit.edu	37	chr4	86863361	86863361	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtctctttcgactgccaggCcaggctaatcttgttaagga	8	12	11	10	1	2	0	0	0	2	0	4	2	2	1	2	4	1	2	2	4	2	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr4:86863361C>A	uc003hpk.2	+	5	983	c.534C>A	c.(532-534)GGC>GGA	p.G178G	ARHGAP24_uc003hpj.2_Silent_p.G178G|ARHGAP24_uc003hpl.2_Silent_p.G83G|ARHGAP24_uc010ikf.2_Silent_p.G93G|ARHGAP24_uc003hpm.2_Silent_p.G85G	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1	178	Rho-GAP.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		GACTGCCAGGCCAGGCTAATC	0.498													11	63					3.07112e-06	6.63967e-06	0.000978	1	0		A	86863361	A	A	86863361	2	1	9	1	0	0	0	0	0	0	0	1	873	726	26	5		5	ARHGAP24	4	86863361	Silent	SNP	C	TCGA-BR-4253-01A-01D-1126-08	39896224	86863361	104290915	30	8244											
FAT4	79633	broad.mit.edu	37	chr4	126372620	126372620	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctctcagttttggctgtTgattcagggaccccctcagc	7	13	9	12	0	4	1	3	1	1	0	5	2	4	2	2	2	1	3	2	2	1	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr4:126372620T>G	uc003ifj.3	+	9	10449	c.10449T>G	c.(10447-10449)GTT>GTG	p.V3483V	FAT4_uc011cgp.1_Silent_p.V1781V|FAT4_uc003ifi.1_Silent_p.V961V	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3483	Cadherin 33.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TTTTGGCTGTTGATTCAGGGA	0.458													14	75					0	0	0.00499	0	0		G	126372620	G	G	126372620	2	3	9	1	0	0	0	0	0	0	0	1	5706	1799	63	5		5	FAT4	4	126372620	Silent	SNP	T	TCGA-BR-4253-01A-01D-1126-08	39509259	126372620	64781656	31	8245											
PDZD2	23037	broad.mit.edu	37	chr5	32048689	32048689	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagaatataacgagctgAtggtgcggaatggggacccc	12	8	14	7	2	0	3	0	2	0	1	0	6	0	5	2	4	3	1	2	4	5	3			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr5:32048689A>C	uc003jhl.2	+	8	1952	c.1564A>C	c.(1564-1566)ATG>CTG	p.M522L	PDZD2_uc003jhm.2_Missense_Mutation_p.M522L|PDZD2_uc011cnx.1_Missense_Mutation_p.M348L	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	522					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						TAACGAGCTGATGGTGCGGAA	0.527													5	27					0	0	0.001168	0	0		C	32048689	C	C	32048689	3	2	9	1	0	0	0	0	1	0	0	0	11720	333	12	5	1590	5	PDZD2	5	32048689	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08		32048689	148866571	32	8246											
SPEF2	79925	broad.mit.edu	37	chr5	35793298	35793298	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttattaacagtcaactccgAgttcgtggactggcggaagt	10	12	11	8	3	1	0	1	0	0	0	3	3	2	2	1	3	2	1	1	3	4	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr5:35793298A>C	uc003jjo.2	+	32	4703	c.4592A>C	c.(4591-4593)GAG>GCG	p.E1531A	SPEF2_uc003jjp.1_Missense_Mutation_p.E1017A|SPEF2_uc003jjr.2_Missense_Mutation_p.E586A	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1531					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GTCAACTCCGAGTTCGTGGAC	0.433													7	68					0	0	0.006214	0	0		C	35793298	C	C	35793298	3	2	9	1	0	0	0	0	1	0	0	0	15060	304	11	5	4739	5	SPEF2	5	35793298	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08	3744609	35793298	145121962	33	8247											
ELL2	22936	broad.mit.edu	37	chr5	95278735	95278735	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccttggaactggattgaagGtcgaaaaggaattaaattct	14	12	10	5	1	1	1	0	1	1	0	3	5	2	4	1	4	1	0	1	4	7	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr5:95278735G>A	uc003klr.3	-	2	516	c.166C>T	c.(166-168)CCT>TCT	p.P56S		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	56					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		TGGATTGAAGGTCGAAAAGGA	0.318													8	32					0	0	0.006214	0	0		A	95278735	A	A	95278735	3	1	9	1	0	0	0	0	1	0	0	0	5071	1261	44	4	1800	4	ELL2	5	95278735	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	59485437	95278735	85636525	34	8248											
LOX	4015	broad.mit.edu	37	chr5	121405747	121405747	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctaagcaaataacacttaCggtgaaattgtgcagcctga	15	9	9	8	1	0	2	0	2	0	0	0	2	0	2	1	1	6	3	1	1	5	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr5:121405747C>T	uc003ksu.2	-	6	1622	c.1247_splice	c.e6+1	p.P416_splice	LOX_uc010jcp.2_Splice_Site_p.P119_splice|LOX_uc010jcq.2_Splice_Site_p.P119_splice|LOX_uc011cwk.1_Splice_Site_p.P186_splice|LOX_uc010jcr.2_Splice_Site_p.P119_splice	NM_002317	NP_002308	P28300	LYOX_HUMAN	lysyl oxidase preproprotein						protein modification process	extracellular space	copper ion binding|protein-lysine 6-oxidase activity			lung(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)|Ovarian(225;0.0814)|Breast(839;0.143)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;2.14e-11)|OV - Ovarian serous cystadenocarcinoma(64;7.87e-10)|all cancers(49;2.49e-09)|COAD - Colon adenocarcinoma(49;0.02)		ATAACACTTACGGTGAAATTG	0.403													14	62					0	0	0.00245	0	0		T	121405747	T	T	121405747	5	4	9	1	0	0	0	0	0	0	1	0	8916	550	19	1	13	1	LOX	5	121405747	Splice_Site	SNP	C	TCGA-BR-4253-01A-01D-1126-08	26127012	121405747	59509513	35	8249											
SNCAIP	9627	broad.mit.edu	37	chr5	121785553	121785553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccccagacaaacagtagaaCgtgtcacgctgcagaaccaa	15	5	8	13	2	1	3	1	0	0	3	2	3	2	3	3	0	4	3	3	0	5	1	rs143440334		TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr5:121785553C>T	uc003ksw.1	+	9	1812	c.1606C>T	c.(1606-1608)CGT>TGT	p.R536C	SNCAIP_uc011cwl.1_Missense_Mutation_p.R94C|SNCAIP_uc003ksx.1_Missense_Mutation_p.R583C|SNCAIP_uc003ksy.1_Missense_Mutation_p.R170C|SNCAIP_uc003ksz.1_Missense_Mutation_p.R170C|SNCAIP_uc010jcu.2_Missense_Mutation_p.R132C|SNCAIP_uc011cwm.1_Missense_Mutation_p.R170C|SNCAIP_uc003kta.1_Missense_Mutation_p.R168C|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.R230C|SNCAIP_uc010jcx.1_Missense_Mutation_p.R476C|uc003ktb.1_Intron|SNCAIP_uc003ktc.1_Missense_Mutation_p.R52C	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	536	Potential.				cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		AACAGTAGAACGTGTCACGCT	0.413													30	246					0	0	0.003271	0	0		T	121785553	T	T	121785553	3	4	9	1	0	0	0	0	1	0	0	0	14866	536	19	1	1636	1	SNCAIP	5	121785553	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	379806	121785553	59129707	36	8250											
FBN2	2201	broad.mit.edu	37	chr5	127727788	127727788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgagacagttggtatacagCgtccatttaaacaaaggtta	14	12	9	6	1	0	1	0	1	0	1	1	2	1	1	1	2	3	3	1	2	6	7			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr5:127727788C>T	uc003kuu.2	-	11	1965	c.1526G>A	c.(1525-1527)CGC>CAC	p.R509H	FBN2_uc003kuv.2_Missense_Mutation_p.R476H	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	509	EGF-like 6.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		TGGTATACAGCGTCCATTTAA	0.338													15	70					0	0	0.00499	0	0		T	127727788	T	T	127727788	3	4	9	1	0	0	0	0	1	0	0	0	5717	768	27	1	7432	1	FBN2	5	127727788	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	5942235	127727788	53187472	37	8251											
PCDHGA11	56105	broad.mit.edu	37	chr5	140801462	140801462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatggaggcgatcccatccGaaagggcgcagttcccattc	10	7	12	12	3	0	1	0	0	0	1	4	4	3	2	3	3	0	2	3	3	1	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr5:140801462G>A	uc003lkq.1	+	1	926	c.668G>A	c.(667-669)CGA>CAA	p.R223Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.R223Q|PCDHGA11_uc003lkp.1_Missense_Mutation_p.R223Q	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	223	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATCCCATCCGAAAGGGCGCA	0.522													15	45					0	0	0.003163	0	0		A	140801462	A	A	140801462	3	1	9	1	0	0	0	0	1	0	0	0	11571	1058	37	1	670	1	PCDHGA11	5	140801462	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	13073674	140801462	40113798	38	8252											
PPP2R2B	5521	broad.mit.edu	37	chr5	146080690	146080690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtgtggttgaattctaccGtagagataatgtcagctgca	10	12	11	8	2	2	2	1	1	1	1	2	3	2	2	2	1	3	4	2	1	4	5			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr5:146080690G>A	uc003loe.2	-	2	611	c.86C>T	c.(85-87)ACG>ATG	p.T29M	PPP2R2B_uc010jgm.2_Missense_Mutation_p.T18M|PPP2R2B_uc003log.3_Missense_Mutation_p.T29M|PPP2R2B_uc003lof.3_Missense_Mutation_p.T29M|PPP2R2B_uc003loi.3_Missense_Mutation_p.T32M|PPP2R2B_uc003loh.3_Missense_Mutation_p.T29M|PPP2R2B_uc003loj.3_Missense_Mutation_p.T9M|PPP2R2B_uc003lok.3_Missense_Mutation_p.T18M|PPP2R2B_uc011dbu.1_Missense_Mutation_p.T35M|PPP2R2B_uc011dbv.1_Missense_Mutation_p.T87M	NM_004576	NP_004567	Q00005	2ABB_HUMAN	beta isoform of regulatory subunit B55, protein	29	WD 1.				apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAATTCTACCGTAGAGATAAT	0.418													50	226					0	0	0.00361	0	0		A	146080690	A	A	146080690	3	1	9	1	0	0	0	0	1	0	0	0	12407	1145	40	1	1277	1	PPP2R2B	5	146080690	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	5279228	146080690	34834570	39	8253											
KIF6	221458	broad.mit.edu	37	chr6	39507802	39507802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttttcttgtggagcaaactgGatcttttccccaaaatgctg	9	15	8	9	0	2	0	0	0	2	0	3	2	3	2	2	2	3	2	2	2	3	5			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr6:39507802G>A	uc003oot.2	-	13	1717	c.1622C>T	c.(1621-1623)TCC>TTC	p.S541F	KIF6_uc010jwz.1_5'UTR|KIF6_uc010jxa.1_Missense_Mutation_p.S332F|KIF6_uc011dua.1_Missense_Mutation_p.S541F|KIF6_uc010jxb.1_Intron	NM_145027	NP_659464	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	541					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3						GAGCAAACTGGATCTTTTCCC	0.443													46	171					0	0	0.00361	0	0		A	39507802	A	A	39507802	3	1	9	1	0	0	0	0	1	0	0	0	8324	1174	41	4	866	4	KIF6	6	39507802	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08		39507802	131607265	40	8254											
OPN5	221391	broad.mit.edu	37	chr6	47759622	47759622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccgctggtatggatgggCtggatttttctttggctgtg	3	16	15	7	1	1	0	0	0	1	0	1	2	1	2	1	5	1	4	1	5	1	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr6:47759622C>T	uc003ozc.2	+	3	340	c.335C>T	c.(334-336)GCT>GTT	p.A112V	OPN5_uc003ozd.2_5'UTR	NM_181744	NP_859528	Q6U736	OPN5_HUMAN	opsin 5 isoform 1	112	Helical; Name=3; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1						TATGGATGGGCTGGATTTTTC	0.483													4	19					0	0	0.001168	0	0		T	47759622	T	T	47759622	3	4	9	1	0	0	0	0	1	0	0	0	10902	797	28	2	345	2	OPN5	6	47759622	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	8251820	47759622	123355445	41	8255											
SEC63	11231	broad.mit.edu	37	chr6	108204347	108204347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcatcttcctttactgcagCttcctaaaagggaaaggcaa	12	12	7	10	0	2	0	1	0	1	0	4	1	4	1	2	2	3	3	2	2	5	6			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr6:108204347C>T	uc003psc.3	-	17	1947	c.1678G>A	c.(1678-1680)GCT>ACT	p.A560T	SEC63_uc003psb.3_Missense_Mutation_p.A420T	NM_007214	NP_009145	Q9UGP8	SEC63_HUMAN	SEC63-like protein	560	Cytoplasmic (Potential).				protein folding|protein targeting to membrane	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|receptor activity|unfolded protein binding			ovary(1)|skin(1)	2		all_cancers(87;5.35e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0294)		BRCA - Breast invasive adenocarcinoma(108;0.0079)|Epithelial(106;0.0356)|all cancers(137;0.0525)|OV - Ovarian serous cystadenocarcinoma(136;0.054)		TTTACTGCAGCTTCCTAAAAG	0.358													11	45					0	0	0.000978	0	0		T	108204347	T	T	108204347	3	4	9	1	0	0	0	0	1	0	0	0	14030	797	28	2	624	2	SEC63	6	108204347	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	60444725	108204347	62910720	42	8256											
ZNF679	168417	broad.mit.edu	37	chr7	63721262	63721262	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctgtctggagcaaaataaaGagccttggaatataaagaga	17	8	10	6	0	1	2	0	0	1	2	1	5	1	4	2	2	2	1	2	2	8	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr7:63721262G>C	uc003tsx.2	+	4	486	c.217G>C	c.(217-219)GAG>CAG	p.E73Q		NM_153363	NP_699194	Q8IYX0	ZN679_HUMAN	zinc finger protein 679	73	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GCAAAATAAAGAGCCTTGGAA	0.378													7	35					0	0	0.004482	0	0		C	63721262	C	C	63721262	3	2	9	1	0	0	0	0	1	0	0	0	18111	943	33	5	227	5	ZNF679	7	63721262	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08		63721262	95417401	43	8257											
MAGI2	9863	broad.mit.edu	37	chr7	77764359	77764359	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgaggaatgatgcgaaGggtgacactaagacctgcat	12	8	12	9	1	0	4	0	3	0	1	1	6	1	5	2	2	2	1	2	2	3	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr7:77764359G>T	uc003ugx.2	-	17	3264	c.3010C>A	c.(3010-3012)CTT>ATT	p.L1004I	MAGI2_uc003ugy.2_Missense_Mutation_p.L990I|MAGI2_uc010ldx.1_Missense_Mutation_p.L597I	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	1004	PDZ 5.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				ATGATGCGAAGGGTGACACTA	0.572													10	64					1.5842e-08	3.47392e-08	0.001855	1	0		T	77764359	T	T	77764359	3	4	9	1	0	0	0	0	1	0	0	0	9209	1000	35	5	1381	5	MAGI2	7	77764359	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	14043097	77764359	81374304	44	8258											
C7orf64	84060	broad.mit.edu	37	chr7	92164116	92164116	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacaacacaactgcaggaGcgcaaaagaagaagagaaga	21	1	12	7	1	0	4	0	0	0	4	0	7	0	6	0	2	4	2	0	2	7	0			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr7:92164116G>A	uc003ulz.2	+	4	890	c.849G>A	c.(847-849)GAG>GAA	p.E283E	C7orf64_uc003uma.2_Silent_p.E283E	NM_032120	NP_115496	Q5RL73	CG064_HUMAN	hypothetical protein LOC84060	283							nucleotide binding			ovary(2)	2						AACTGCAGGAGCGCAAAAGAA	0.428													10	61					0	0	0.000978	0	0		A	92164116	A	A	92164116	2	1	9	1	0	0	0	0	0	0	0	1	2413	962	34	2		2	C7orf64	7	92164116	Silent	SNP	G	TCGA-BR-4253-01A-01D-1126-08	14399757	92164116	66974547	45	8259											
MUC17	140453	broad.mit.edu	37	chr7	100679310	100679310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacagcctttcaacaactcCtgctgtcaccagcacacctg	11	8	5	17	0	2	0	2	0	0	0	3	0	3	0	4	0	6	2	4	0	3	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr7:100679310C>T	uc003uxp.1	+	3	4666	c.4613C>T	c.(4612-4614)CCT>CTT	p.P1538L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1538	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|23.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TCAACAACTCCTGCTGTCACC	0.473													51	172					0	0	0.00361	0	0		T	100679310	T	T	100679310	3	4	9	1	0	0	0	0	1	0	0	0	9992	681	24	4	4623	4	MUC17	7	100679310	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	8515194	100679310	58459353	46	8260											
RELN	5649	broad.mit.edu	37	chr7	103338452	103338452	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcacctacacgaagattttCctgcttccactgaaattgga	11	13	6	11	1	1	2	1	1	0	1	3	4	3	3	3	1	2	1	3	1	3	6			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr7:103338452C>A	uc003vca.2	-	10	1151	c.991G>T	c.(991-993)GAA>TAA	p.E331*	RELN_uc010liz.2_Nonsense_Mutation_p.E331*	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	331					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity	p.E331K(1)		ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CGAAGATTTTCCTGCTTCCAC	0.448													38	118					3.7052e-28	8.4259e-28	0.003214	1	0		A	103338452	A	A	103338452	4	1	9	1	0	0	0	0	0	1	0	0	13245	864	30	5	9615	5	RELN	7	103338452	Nonsense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	2659142	103338452	55800211	47	8261											
ACCN3	9311	broad.mit.edu	37	chr7	150746116	150746116	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggggatgtgggcagcggcCgtggtcctgtcagtggccac	4	7	19	11	3	1	0	1	0	0	0	2	1	2	1	3	6	1	1	3	6	0	0			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr7:150746116C>T	uc003win.2	+	1	512	c.144C>T	c.(142-144)GCC>GCT	p.A48A	ACCN3_uc003wio.2_Silent_p.A48A|ACCN3_uc003wip.2_Silent_p.A48A|ACCN3_uc003wiq.2_RNA	NM_004769	NP_004760	Q9UHC3	ACCN3_HUMAN	amiloride-sensitive cation channel 3 isoform a	48	Helical; (Potential).				sensory perception|signal transduction	cytoplasm|integral to plasma membrane	ligand-gated sodium channel activity			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGGCAGCGGCCGTGGTCCTGT	0.667													3	10					0	0	0.004482	0	0		T	150746116	T	T	150746116	2	4	9	1	0	0	0	0	0	0	0	1	130	639	23	1		1	ACCN3	7	150746116	Silent	SNP	C	TCGA-BR-4253-01A-01D-1126-08	47407664	150746116	8392547	48	8262											
PRKAG2	51422	broad.mit.edu	37	chr7	151261254	151261254	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatactgtgaacggtgctgAagggcctgggtcaccgtgat	10	9	14	8	2	1	3	1	3	0	0	1	3	1	3	2	3	3	1	2	3	4	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr7:151261254A>C	uc003wkk.2	-	14	2105	c.1494T>G	c.(1492-1494)CTT>CTG	p.L498L	PRKAG2_uc003wki.2_Silent_p.L257L|PRKAG2_uc011kvl.1_Silent_p.L373L|PRKAG2_uc003wkj.2_Silent_p.L454L|PRKAG2_uc003wkl.2_Silent_p.L46L	NM_016203	NP_057287	Q9UGJ0	AAKG2_HUMAN	AMP-activated protein kinase gamma2 subunit	498					ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)		AACGGTGCTGAAGGGCCTGGG	0.418													21	83					0	0	0.001882	0	0		C	151261254	C	C	151261254	2	2	9	1	0	0	0	0	0	0	0	1	12523	233	9	5		5	PRKAG2	7	151261254	Silent	SNP	A	TCGA-BR-4253-01A-01D-1126-08	515138	151261254	7877409	49	8263											
C8orf79	57604	broad.mit.edu	37	chr8	12878836	12878836	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacggtcccacagcgtgggCtatgaacctgctatggcaag	11	7	12	11	2	0	1	0	1	0	0	1	1	1	1	2	3	4	3	2	3	5	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr8:12878836C>A	uc010lsq.2	+	5	1140	c.648C>A	c.(646-648)GGC>GGA	p.G216G	C8orf79_uc011kxw.1_Intron|C8orf79_uc003wwj.3_Silent_p.G129G|C8orf79_uc010lsr.2_Silent_p.G90G	NM_020844	NP_065895	Q9P272	K1456_HUMAN	hypothetical protein LOC57604 isoform 1	216							methyltransferase activity				0						ACAGCGTGGGCTATGAACCTG	0.448													36	66					3.33393e-15	7.52587e-15	0.004878	1	0		A	12878836	A	A	12878836	2	1	9	1	0	0	0	0	0	0	0	1	2441	784	28	5		5	C8orf79	8	12878836	Silent	SNP	C	TCGA-BR-4253-01A-01D-1126-08		12878836	133485186	50	8264											
CHRNA2	1135	broad.mit.edu	37	chr8	27320907	27320907	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggagcggtggtgcacAttgagcacgaagacggtgat	9	7	18	7	3	0	3	0	2	0	1	0	5	0	4	0	5	3	2	0	5	1	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr8:27320907A>G	uc010lur.2	-	6	1662	c.1053T>C	c.(1051-1053)AAT>AAC	p.N351N	CHRNA2_uc011lal.1_Silent_p.N336N|CHRNA2_uc010lus.2_Silent_p.N153N	NM_000742	NP_000733	Q15822	ACHA2_HUMAN	cholinergic receptor, nicotinic, alpha	351	Helical; (Potential).					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)	1		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0208)|Epithelial(17;2.77e-10)|Colorectal(74;0.136)	Atracurium(DB00732)|Biperiden(DB00810)|Carbachol(DB00411)|Cisatracurium Besylate(DB00565)|Decamethonium(DB01245)|Dextromethorphan(DB00514)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Gallamine Triethiodide(DB00483)|Levallorphan(DB00504)|Mecamylamine(DB00657)|Metocurine(DB01336)|Metocurine Iodide(DB00416)|Mivacurium(DB01226)|Nicotine(DB00184)|Pancuronium(DB01337)|Pipecuronium(DB01338)|Rocuronium(DB00728)|Tubocurarine(DB01199)	GGTGGTGCACATTGAGCACGA	0.647													20	34					0	0	0.003954	0	0		G	27320907	G	G	27320907	2	3	9	1	0	0	0	0	0	0	0	1	3386	214	8	3		3	CHRNA2	8	27320907	Silent	SNP	A	TCGA-BR-4253-01A-01D-1126-08	14442071	27320907	119043115	51	8265											
KCNU1	157855	broad.mit.edu	37	chr8	36780063	36780063	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggtggactggaagggtccctCcaagaaacaaatctgcatct	12	8	11	10	0	2	1	0	0	2	1	4	3	4	3	2	4	2	1	2	4	4	0			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr8:36780063C>G	uc010lvw.2	+	24	2739	c.2652C>G	c.(2650-2652)CTC>CTG	p.L884L	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	884	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		AAGGGTCCCTCCAAGAAACAA	0.463													6	58					0	0	0.001984	0	0		G	36780063	G	G	36780063	2	3	9	1	0	0	0	0	0	0	0	1	8109	842	30	5		5	KCNU1	8	36780063	Silent	SNP	C	TCGA-BR-4253-01A-01D-1126-08	9459156	36780063	109583959	52	8266											
CHD7	55636	broad.mit.edu	37	chr8	61655087	61655087	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggactaatgcaccagcagCccatccaccccagtggctca	12	5	8	16	0	1	0	1	0	0	0	2	1	2	1	5	2	3	3	5	2	2	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr8:61655087C>T	uc003xue.2	+	2	1573	c.1096C>T	c.(1096-1098)CCC>TCC	p.P366S		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	366					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GCACCAGCAGCCCATCCACCC	0.483													8	112					0	0	0.00308	0	0		T	61655087	T	T	61655087	3	4	9	1	0	0	0	0	1	0	0	0	3333	739	26	2	1098	2	CHD7	8	61655087	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	24875024	61655087	84708935	53	8267											
EYA1	2138	broad.mit.edu	37	chr8	72123487	72123487	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attctctcaaaacagctttcTtttcctagtgaacaaaaata	15	14	3	9	0	3	1	1	1	2	0	5	1	4	1	1	0	3	1	1	0	7	6			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr8:72123487T>G	uc003xys.3	-	16	1889	c.1602A>C	c.(1600-1602)AAA>AAC	p.K534N	EYA1_uc003xyr.3_Missense_Mutation_p.K499N|EYA1_uc003xyt.3_Missense_Mutation_p.K501N|EYA1_uc010lzf.2_Missense_Mutation_p.K461N|EYA1_uc003xyu.2_Missense_Mutation_p.K534N|EYA1_uc011lfe.1_Missense_Mutation_p.K528N|EYA1_uc003xyv.2_Missense_Mutation_p.K412N	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	534					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			AACAGCTTTCTTTTCCTAGTG	0.328													14	67					0	0	0.00499	0	0		G	72123487	G	G	72123487	3	3	9	1	0	0	0	0	1	0	0	0	5336	1606	56	5	184	5	EYA1	8	72123487	Missense_Mutation	SNP	T	TCGA-BR-4253-01A-01D-1126-08	10468400	72123487	74240535	54	8268											
TSC1	7248	broad.mit.edu	37	chr9	135786402	135786402	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacataccagttgtaccaaaGactttactgtaagggtgtga	13	12	9	7	0	0	2	0	1	0	1	0	2	0	2	2	1	4	3	2	1	6	7			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr9:135786402G>C	uc004cca.2	-	11	1362	c.1128C>G	c.(1126-1128)GTC>GTG	p.V376V	TSC1_uc004ccb.3_Silent_p.V376V|TSC1_uc011mcq.1_Silent_p.V325V|TSC1_uc011mcr.1_Intron|TSC1_uc011mcs.1_Silent_p.V255V|TSC1_uc004ccc.1_Silent_p.V376V|TSC1_uc004ccd.2_3'UTR|TSC1_uc004cce.1_3'UTR	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	376					activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding	p.?(1)		lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		TTGTACCAAAGACTTTACTGT	0.453			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				5	726					0	0	0.001984	0	0		C	135786402	C	C	135786402	2	2	9	1	0	0	0	0	0	0	0	1	16631	929	33	5		5	TSC1	9	135786402	Silent	SNP	G	TCGA-BR-4253-01A-01D-1126-08		135786402	5427029	55	8269											
PITRM1	10531	broad.mit.edu	37	chr10	3197782	3197782	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctcggaaggaagcctctgaCctttctcgtagatctgctgc	7	11	11	12	2	3	2	0	1	3	1	5	4	3	4	2	2	3	3	2	2	3	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr10:3197782C>T	uc010qah.1	-	13	1557	c.1525_splice	c.e13+1	p.G509_splice	PITRM1_uc001igr.1_Splice_Site_p.G541_splice|PITRM1_uc001igt.1_Splice_Site_p.G541_splice|PITRM1_uc009xhv.1_Splice_Site_p.G106_splice|PITRM1_uc001igu.1_Splice_Site_p.G533_splice|PITRM1_uc010qai.1_Splice_Site_p.G512_splice|PITRM1_uc001igw.1_Splice_Site_p.G541_splice			E7ES23	E7ES23_HUMAN	SubName: Full=cDNA FLJ54065, moderately similar to Mus musculus pitrilysin metallepetidase 1 (Pitrm1), mRNA;						proteolysis		metalloendopeptidase activity|zinc ion binding			pancreas(1)	1						AAGCCTCTGACCTTTCTCGTA	0.542													7	52					0	0	0.004007	0	0		T	3197782	T	T	3197782	5	4	9	1	0	0	0	0	0	0	1	0	11972	521	18	4	1547	4	PITRM1	10	3197782	Splice_Site	SNP	C	TCGA-BR-4253-01A-01D-1126-08		3197782	132336965	56	8270											
BMS1	9790	broad.mit.edu	37	chr10	43292386	43292386	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaccgtgtgaatctggagaAgtctttgctgatgaagaaag	12	11	13	5	1	2	6	0	4	2	2	2	7	2	6	1	1	1	1	1	1	4	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr10:43292386A>C	uc001jaj.2	+	10	2052	c.1694A>C	c.(1693-1695)AAG>ACG	p.K565T		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	565					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						AATCTGGAGAAGTCTTTGCTG	0.493													15	61					0	0	0.00245	0	0		C	43292386	C	C	43292386	3	2	9	1	0	0	0	0	1	0	0	0	1473	72	3	5	1728	5	BMS1	10	43292386	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08	40094604	43292386	92242361	57	8271											
BMS1	9790	broad.mit.edu	37	chr10	43292525	43292525	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagactcagaaaatgaagaGgctattagaaaaaagctttc	19	8	9	5	0	1	5	1	1	0	4	2	6	1	5	0	1	1	2	0	1	9	3			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr10:43292525G>C	uc001jaj.2	+	10	2191	c.1833G>C	c.(1831-1833)GAG>GAC	p.E611D		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	611					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						AAAATGAAGAGGCTATTAGAA	0.423													22	100					0	0	0.003954	0	0		C	43292525	C	C	43292525	3	2	9	1	0	0	0	0	1	0	0	0	1473	991	35	5	1867	5	BMS1	10	43292525	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	139	43292525	92242222	58	8272											
ZWINT	11130	broad.mit.edu	37	chr10	58118565	58118565	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcccatgctcccgaacttaCctctgcagcttgtcccgctc	6	10	7	18	2	1	0	0	0	1	0	4	1	3	0	4	0	6	4	4	0	2	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr10:58118565C>T	uc001jjx.1	-	6	660	c.623_splice	c.e6+1	p.R208_splice	ZWINT_uc001jjy.1_Intron|ZWINT_uc001jka.1_Splice_Site_p.R208_splice|ZWINT_uc009xoy.1_Splice_Site	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a						cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0						CCCGAACTTACCTCTGCAGCT	0.522													14	76					0	0	0.003163	0	0		T	58118565	T	T	58118565	5	4	9	1	0	0	0	0	0	0	1	0	18274	521	18	4	221	4	ZWINT	10	58118565	Splice_Site	SNP	C	TCGA-BR-4253-01A-01D-1126-08	14826040	58118565	77416182	59	8273											
PTEN	5728	broad.mit.edu	37	chr10	89720799	89720802	+	Frame_Shift_Del	DEL	TACT	-	-																															taatgacaaggaatatctagTacttactttaacaaaaaatg																										TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr10:89720799_89720802delTACT	uc001kfb.2	+	9	1981_1984	c.950_953delTACT	c.(949-954)GTACTTfs	p.V317fs		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	317_318	C2 tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.L318fs*2(17)|p.V317fs*3(16)|p.R55fs*1(4)|p.?(2)|p.N212fs*1(2)|p.Y27fs*1(2)|p.V317fs*6(2)|p.G165_*404del(1)|p.G165_K342del(1)|p.L316fs*1(1)|p.W274_F341del(1)|p.V317_K322del(1)|p.L318F(1)|p.T318fs*2(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		GAATATCTAGTACTTACTTTAACA	0.333	V317fs*3(SKUT1_SOFT_TISSUE)|V317fs*3(EVSAT_BREAST)|V317fs*3(IGROV1_OVARY)|V317fs*3(ISHIKAWAHERAKLIO02ER_ENDOMETRIUM)	31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			56	83	---	---	---	---						.	-	89720802	-	-	89720799	7	5	9	1	0	1	0	1	0	0	0	0	12760	1638	57	0	980	0	PTEN	10	89720799	Frame_Shift_Del	DEL	TACT	TCGA-BR-4253-01A-01D-1126-08	31602234	89720799	45813948	60	8274											
SORCS1	114815	broad.mit.edu	37	chr10	108459010	108459010	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttgccctcagggcctcTgctgctctggacattctcca	5	12	10	14	0	4	0	1	0	3	0	5	2	4	1	3	2	3	3	3	2	0	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr10:108459010T>C	uc001kym.2	-	9	1383	c.1375A>G	c.(1375-1377)AGA>GGA	p.R459G	SORCS1_uc001kyl.2_Missense_Mutation_p.R459G|SORCS1_uc009xxs.2_Missense_Mutation_p.R459G|SORCS1_uc001kyn.1_Missense_Mutation_p.R459G|SORCS1_uc001kyo.2_Missense_Mutation_p.R459G	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	459	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TCAGGGCCTCTGCTGCTCTGG	0.542													15	77					0	0	0.00499	0	0		C	108459010	C	C	108459010	3	2	9	1	0	0	0	0	1	0	0	0	14955	1588	55	3	2437	3	SORCS1	10	108459010	Missense_Mutation	SNP	T	TCGA-BR-4253-01A-01D-1126-08	18738211	108459010	27075737	61	8275											
TDRD1	56165	broad.mit.edu	37	chr10	115959035	115959035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcttcacctccttaggacCtcctcttcggtccacaactt	6	13	5	17	1	3	0	1	0	2	0	7	1	6	1	5	2	1	1	5	2	2	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr10:115959035C>T	uc001lbg.1	+	4	641	c.488C>T	c.(487-489)CCT>CTT	p.P163L	TDRD1_uc001lbf.2_Missense_Mutation_p.P154L|TDRD1_uc001lbh.1_Missense_Mutation_p.P154L|TDRD1_uc001lbi.1_Missense_Mutation_p.P154L	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	163					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		TCCTTAGGACCTCCTCTTCGG	0.408													21	70					0	0	0.00278	0	0		T	115959035	T	T	115959035	3	4	9	1	0	0	0	0	1	0	0	0	15755	681	24	4	498	4	TDRD1	10	115959035	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	7500025	115959035	19575712	62	8276											
OR52E6	390078	broad.mit.edu	37	chr11	5862742	5862742	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgtaccaaagaggtttgCaaatggcaatgtagcggtca	12	10	13	6	1	1	1	1	0	0	1	1	1	1	1	1	4	3	5	1	4	5	3			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr11:5862742C>A	uc010qzq.1	-	1	386	c.386G>T	c.(385-387)TGC>TTC	p.C129F	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	129	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAGAGGTTTGCAAATGGCAAT	0.478													17	243					3.62473e-10	8.0057e-10	0.001882	1	0		A	5862742	A	A	5862742	3	1	9	1	0	0	0	0	1	0	0	0	11136	710	25	5	557	5	OR52E6	11	5862742	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08		5862742	129143774	63	8277											
OR9G9	504191	broad.mit.edu	37	chr11	56468143	56468143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagacaaaagcatctcctttGctggctgcctgtgtcagttc	9	12	9	11	0	2	1	1	0	1	1	4	1	2	1	2	1	3	4	2	1	3	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr11:56468143G>A	uc010rjn.1	+	1	280	c.280G>A	c.(280-282)GCT>ACT	p.A94T		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CATCTCCTTTGCTGGCTGCCT	0.507													11	92					0	0	0.007413	0	0		A	56468143	A	A	56468143	3	1	9	1	0	0	0	0	1	0	0	0	11271	1319	46	2	282	2	OR9G9	11	56468143	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	50605401	56468143	78538373	64	8278											
PGA3	643834	broad.mit.edu	37	chr11	60971081	60971081	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtggcactctctgagtgCatcatgtacaagtgagtccg	8	11	12	10	1	2	2	1	2	1	0	4	2	3	2	1	2	2	3	1	2	2	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr11:60971081C>T	uc001nqx.2	+	1	98	c.45C>T	c.(43-45)TGC>TGT	p.C15C	PGA3_uc010rld.1_Silent_p.C15C	NM_001079807	NP_001073275			pepsinogen 3, group I precursor											ovary(1)|skin(1)	2						TCTCTGAGTGCATCATGTACA	0.567													22	72					0	0	0.00278	0	0		T	60971081	T	T	60971081	2	4	9	1	0	0	0	0	0	0	0	1	11790	718	25	2		2	PGA3	11	60971081	Silent	SNP	C	TCGA-BR-4253-01A-01D-1126-08	4502938	60971081	74035435	65	8279											
MARK2	2011	broad.mit.edu	37	chr11	63672270	63672270	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccacagcacagccccccaGcgtgtccctgttgcctcccc	5	7	7	22	1	0	0	0	0	0	0	3	0	3	0	8	0	4	2	8	0	0	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr11:63672270G>A	uc001nxw.2	+	16	2268	c.1689G>A	c.(1687-1689)CAG>CAA	p.Q563Q	MARK2_uc001nxx.2_Silent_p.Q509Q|MARK2_uc001nxy.2_Silent_p.Q508Q|MARK2_uc001nxv.3_Silent_p.Q508Q|MARK2_uc001nxz.3_Silent_p.Q529Q|MARK2_uc009yoy.2_Silent_p.Q483Q	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	563					cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						CAGCCCCCCAGCGTGTCCCTG	0.632													11	31					0	0	0.001855	0	0		A	63672270	A	A	63672270	2	1	9	1	0	0	0	0	0	0	0	1	9331	962	34	2		2	MARK2	11	63672270	Silent	SNP	G	TCGA-BR-4253-01A-01D-1126-08	2701189	63672270	71334246	66	8280											
GRM5	2915	broad.mit.edu	37	chr11	88780590	88780590	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatggctacagaactggAgccaggcccaatgaccccta	12	6	10	13	0	0	3	0	2	0	1	0	4	0	4	4	3	3	1	4	3	5	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr11:88780590A>G	uc001pcq.2	-	1	651	c.451T>C	c.(451-453)TCC>CCC	p.S151P	GRM5_uc009yvm.2_Missense_Mutation_p.S151P|GRM5_uc009yvn.1_Missense_Mutation_p.S151P	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	151	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	ACAGAACTGGAGCCAGGCCCA	0.502													11	41					0	0	0.000978	0	0		G	88780590	G	G	88780590	3	3	9	1	0	0	0	0	1	0	0	0	6816	304	11	3	3223	3	GRM5	11	88780590	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08	25108320	88780590	46225926	67	8281											
NCAM1	4684	broad.mit.edu	37	chr11	113076865	113076865	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcagaatcctggcacggggGgagatcaacttcaaggacat	12	6	14	9	1	2	2	2	0	0	2	3	4	3	3	1	6	1	2	1	6	3	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr11:113076865G>A	uc009yyq.1	+	5	931	c.237G>A	c.(235-237)GGG>GGA	p.G79G	NCAM1_uc001pno.2_Silent_p.G79G	NM_001076682	NP_001070150	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1 isoform 3	197	Ig-like C2-type 2.|Extracellular (Potential).				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		TGGCACGGGGGGAGATCAACT	0.493													15	154					0	0	0.003163	0	0		A	113076865	A	A	113076865	2	1	9	1	0	0	0	0	0	0	0	1	10221	1219	43	4		4	NCAM1	11	113076865	Silent	SNP	G	TCGA-BR-4253-01A-01D-1126-08	24296275	113076865	21929651	68	8282											
EPS8	2059	broad.mit.edu	37	chr12	15811466	15811466	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtttaaacttttggaaacAgtcaagaaattcatcaggag	15	12	9	5	0	3	1	3	0	0	1	3	3	3	3	0	2	2	1	0	2	5	5			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr12:15811466A>C	uc009zif.2	-	11	1085	c.991T>G	c.(991-993)TGT>GGT	p.C331G	EPS8_uc001rdb.2_Missense_Mutation_p.C331G|EPS8_uc009zig.2_Missense_Mutation_p.C71G|EPS8_uc010shv.1_Missense_Mutation_p.C71G	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	331					cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		TTTTGGAAACAGTCAAGAAAT	0.368													6	129					0	0	0.001984	0	0		C	15811466	C	C	15811466	3	2	9	1	0	0	0	0	1	0	0	0	5202	188	7	5	1521	5	EPS8	12	15811466	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08		15811466	118040429	69	8283											
KIAA0528	9847	broad.mit.edu	37	chr12	22623829	22623829	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtcaaaagtgattgcgActgccgtgactgtaacctag	10	13	10	8	2	1	2	1	2	0	0	1	3	1	2	2	0	3	1	2	0	4	5			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr12:22623829A>C	uc001rfq.2	-	21	2603	c.2375T>G	c.(2374-2376)GTC>GGC	p.V792G	KIAA0528_uc010sir.1_Missense_Mutation_p.V607G|KIAA0528_uc010sis.1_Missense_Mutation_p.V792G|KIAA0528_uc010sit.1_Missense_Mutation_p.V794G|KIAA0528_uc010siu.1_Missense_Mutation_p.V792G|KIAA0528_uc001rfr.2_Missense_Mutation_p.V783G	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	792							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						AGTGATTGCGACTGCCGTGAC	0.338													8	34					0	0	0.001368	0	0		C	22623829	C	C	22623829	3	2	9	1	0	0	0	0	1	0	0	0	8198	275	10	5	647	5	KIAA0528	12	22623829	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08	6812363	22623829	111228066	70	8284											
OR10P1	121130	broad.mit.edu	37	chr12	56031172	56031172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatgcctccctcatcttctCtctaccttttcgcagccacc	5	13	3	20	1	4	0	1	0	3	0	7	0	5	0	6	0	3	1	6	0	1	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr12:56031172C>T	uc010spq.1	+	1	497	c.497C>T	c.(496-498)TCT>TTT	p.S166F		NM_206899	NP_996782	Q8NGE3	O10P1_HUMAN	olfactory receptor, family 10, subfamily P,	166	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						CTCATCTTCTCTCTACCTTTT	0.592													17	50					0	0	0.007413	0	0		T	56031172	T	T	56031172	3	4	9	1	0	0	0	0	1	0	0	0	10934	913	32	4	499	4	OR10P1	12	56031172	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	33407343	56031172	77820723	71	8285											
RILPL1	353116	broad.mit.edu	37	chr12	124017726	124017726	+	Frame_Shift_Del	DEL	G	-	-																															gaggccgccgcccaccttctGgtgcttgcgctccttctcga																										TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr12:124017726delG	uc001ufe.2	-	1	540	c.304delC	c.(304-306)CAGfs	p.Q102fs	RILPL1_uc010tas.1_Frame_Shift_Del_p.Q102fs	NM_178314	NP_847884	Q5EBL4	RIPL1_HUMAN	Rab interacting lysosomal protein-like 1	102	Potential.				neuroprotection	cytosol					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.00067)|all cancers(50;0.00836)|BRCA - Breast invasive adenocarcinoma(302;0.197)		CCCACCTTCTGGTGCTTGCGC	0.711													2	4	---	---	---	---						.	-	124017726	-	-	124017726	7	5	9	1	0	1	0	1	0	0	0	0	13386	1357	47	0	935	0	RILPL1	12	124017726	Frame_Shift_Del	DEL	G	TCGA-BR-4253-01A-01D-1126-08	67986554	124017726	9834169	72	8286											
DIAPH3	81624	broad.mit.edu	37	chr13	60545059	60545059	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcaacccaaatggcaggAttggtagaggaggagaattt	13	10	13	5	0	1	2	1	0	0	2	1	5	1	4	1	5	1	3	1	5	4	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr13:60545059A>G	uc001vht.2	-	16	2105	c.1886T>C	c.(1885-1887)ATC>ACC	p.I629T	DIAPH3_uc001vhu.2_Missense_Mutation_p.I366T|DIAPH3_uc001vhv.2_Missense_Mutation_p.I207T	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	629	FH1.|Pro-rich.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		AAATGGCAGGATTGGTAGAGG	0.438													5	27					0	0	0.000978	0	0		G	60545059	G	G	60545059	3	3	9	1	0	0	0	0	1	0	0	0	4526	333	12	3	1767	3	DIAPH3	13	60545059	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08		60545059	54624819	73	8287											
COL4A2	1284	broad.mit.edu	37	chr13	111111150	111111150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgcagatgtacagaaggcGacgaagctatcaaaggtctt	15	8	11	7	2	2	2	1	0	1	2	2	4	2	2	0	2	3	3	0	2	6	3			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr13:111111150G>A	uc001vqx.2	+	22	1754	c.1465G>A	c.(1465-1467)GAC>AAC	p.D489N		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	489	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			TACAGAAGGCGACGAAGCTAT	0.627													13	80					0	0	0.003163	0	0		A	111111150	A	A	111111150	3	1	9	1	0	0	0	0	1	0	0	0	3693	1058	37	1	1547	1	COL4A2	13	111111150	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	50566091	111111150	4058728	74	8288											
AHNAK2	113146	broad.mit.edu	37	chr14	105405849	105405849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctgggtttctggaagcctCatgccaggcatctgaaaagg	10	9	12	10	0	3	1	1	1	2	0	3	2	3	2	3	4	2	2	3	4	3	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr14:105405849C>T	uc010axc.1	-	7	16059	c.15939G>A	c.(15937-15939)ATG>ATA	p.M5313I	AHNAK2_uc001ypx.2_Missense_Mutation_p.M5213I	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5313						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CTGGAAGCCTCATGCCAGGCA	0.507													9	44					0	0	0.004482	0	0		T	105405849	T	T	105405849	3	4	9	1	0	0	0	0	1	0	0	0	415	826	29	4	1452	4	AHNAK2	14	105405849	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08		105405849	1943691	75	8289											
ITGA11	22801	broad.mit.edu	37	chr15	68661546	68661546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgagtttggtgcagttccCgtggatcactggacacttgt	6	14	13	8	1	1	1	1	1	0	0	2	3	2	3	1	3	1	4	1	3	0	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr15:68661546C>T	uc002ari.2	-	3	328	c.241G>A	c.(241-243)GGG>AGG	p.G81R	ITGA11_uc010bib.2_Missense_Mutation_p.G81R	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	81	FG-GAP 1.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	GTGCAGTTCCCGTGGATCACT	0.473													19	55					0	0	0.004656	0	0		T	68661546	T	T	68661546	3	4	9	1	0	0	0	0	1	0	0	0	7890	652	23	1	3437	1	ITGA11	15	68661546	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08		68661546	33869846	76	8290											
C15orf32	145858	broad.mit.edu	37	chr15	93015418	93015418	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggatgcttcaaaggaagacTtgcacccggctgacccccag	10	7	11	13	1	1	2	1	1	0	1	1	4	1	4	3	3	2	3	3	3	2	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr15:93015418T>C	uc002brc.1	+	1	512	c.40T>C	c.(40-42)TTG>CTG	p.L14L	C15orf32_uc010bod.1_RNA	NM_153040	NP_694585	Q32M92	CO032_HUMAN	hypothetical protein LOC145858	14										ovary(1)	1	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0493)|OV - Ovarian serous cystadenocarcinoma(32;0.125)			AAAGGAAGACTTGCACCCGGC	0.368													3	48					0	0	0.004672	0	0		C	93015418	C	C	93015418	2	2	9	1	0	0	0	0	0	0	0	1	1793	1606	56	3		3	C15orf32	15	93015418	Silent	SNP	T	TCGA-BR-4253-01A-01D-1126-08	24353872	93015418	9515974	77	8291											
SETD1A	9739	broad.mit.edu	37	chr16	30976237	30976237	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccgggccacacgggaggaaCcccctggagccccttttgct	6	6	13	16	2	0	0	0	0	0	0	0	3	0	3	6	4	3	1	6	4	1	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr16:30976237C>A	uc002ead.1	+	7	1860	c.1174C>A	c.(1174-1176)CCC>ACC	p.P392T		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	392	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						ACGGGAGGAACCCCCTGGAGC	0.587													23	88					1.04121e-07	2.26704e-07	0.005443	1	0		A	30976237	A	A	30976237	3	1	9	1	0	0	0	0	1	0	0	0	14155	507	18	5	1196	5	SETD1A	16	30976237	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08		30976237	59378516	78	8292											
SMPD3	55512	broad.mit.edu	37	chr16	68405903	68405903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtagatgggcgtgaagaggGcagtgcagagcagctgcagg	10	5	20	6	1	0	4	0	1	0	3	0	4	0	4	0	4	4	6	0	4	2	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr16:68405903G>A	uc002ewa.2	-	3	604	c.182C>T	c.(181-183)GCC>GTC	p.A61V	SMPD3_uc010cfe.2_Missense_Mutation_p.A61V|SMPD3_uc010vlh.1_Missense_Mutation_p.A61V	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	61	Cytoplasmic (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	CGTGAAGAGGGCAGTGCAGAG	0.667													5	3					0	0	0.000602	0	0		A	68405903	A	A	68405903	3	1	9	1	0	0	0	0	1	0	0	0	14831	1203	42	2	1813	2	SMPD3	16	68405903	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	37429666	68405903	21948850	79	8293											
ABCA8	10351	broad.mit.edu	37	chr17	66871845	66871845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggagggcacccctttccGtgtttctaaaggtggcccgg	6	11	13	11	2	1	0	0	0	1	0	2	1	2	1	4	5	0	2	4	5	3	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr17:66871845G>A	uc002jhp.2	-	34	4459	c.4280C>T	c.(4279-4281)ACG>ATG	p.T1427M	ABCA8_uc002jhq.2_Missense_Mutation_p.T1467M|ABCA8_uc010wqq.1_Missense_Mutation_p.T1462M	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	1427	ABC transporter 2.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					ACCCCTTTCCGTGTTTCTAAA	0.483													8	36					0	0	0.00308	0	0		A	66871845	A	A	66871845	3	1	9	1	0	0	0	0	1	0	0	0	38	1145	40	1	485	1	ABCA8	17	66871845	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08		66871845	14323365	80	8294											
SYT4	6860	broad.mit.edu	37	chr18	40850508	40850508	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacaaggaatatcaaagAcaaacagctcattgaacact	18	7	5	11	0	3	2	3	1	0	1	3	3	3	3	1	1	3	1	1	1	6	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr18:40850508A>G	uc002law.2	-	4	1445	c.1076T>C	c.(1075-1077)GTC>GCC	p.V359A	SYT4_uc010dng.2_RNA|SYT4_uc010xcm.1_Missense_Mutation_p.V341A|SYT4_uc010dnh.2_RNA	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	359	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						AATATCAAAGACAAACAGCTC	0.418													23	103					0	0	0.00333	0	0		G	40850508	G	G	40850508	3	3	9	1	0	0	0	0	1	0	0	0	15501	275	10	3	205	3	SYT4	18	40850508	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08		40850508	37226740	81	8295											
MUC16	94025	broad.mit.edu	37	chr19	9007843	9007843	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagagctccgatgggtgaaAcctgcatagggaaggaggca	12	5	15	9	1	0	2	0	1	0	1	1	5	1	4	3	4	3	3	3	4	3	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr19:9007843A>C	uc002mkp.2	-	42	39585	c.39381T>G	c.(39379-39381)GGT>GGG	p.G13127G	MUC16_uc010dwi.2_5'Flank|MUC16_uc010dwj.2_5'Flank|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13129	Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GATGGGTGAAACCTGCATAGG	0.522													12	95					0	0	0.00245	0	0		C	9007843	C	C	9007843	2	2	9	1	0	0	0	0	0	0	0	1	9991	57	2	5		5	MUC16	19	9007843	Silent	SNP	A	TCGA-BR-4253-01A-01D-1126-08		9007843	50121140	82	8296											
BEST2	54831	broad.mit.edu	37	chr19	12866250	12866250	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcactatgactggattagcGtacccctcgtgtacacgcag	9	11	9	12	3	1	1	1	1	0	0	2	2	1	2	2	1	3	3	2	1	4	5			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr19:12866250G>A	uc002mux.2	+	5	694	c.694G>A	c.(694-696)GTA>ATA	p.V232I		NM_017682	NP_060152	Q8NFU1	BEST2_HUMAN	vitelliform macular dystrophy 2-like 1	232					membrane depolarization|sensory perception of smell	chloride channel complex|cilium|plasma membrane	chloride channel activity			ovary(1)|pancreas(1)	2						CTGGATTAGCGTACCCCTCGT	0.507													20	50					0	0	0.00278	0	0		A	12866250	A	A	12866250	3	1	9	1	0	0	0	0	1	0	0	0	1406	1145	40	1	712	1	BEST2	19	12866250	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	3858407	12866250	46262733	83	8297											
OR10H2	26538	broad.mit.edu	37	chr19	15839222	15839222	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcatgggctacgaccgctaCgtggccatctgccaccccct	6	8	10	17	3	2	0	1	0	1	0	2	1	2	0	5	2	3	2	5	2	2	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr19:15839222C>T	uc002nbm.2	+	1	389	c.369C>T	c.(367-369)TAC>TAT	p.Y123Y		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	123	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					ACGACCGCTACGTGGCCATCT	0.647													7	28					0	0	0.003163	0	0		T	15839222	T	T	15839222	2	4	9	1	0	0	0	0	0	0	0	1	10925	547	19	1		1	OR10H2	19	15839222	Silent	SNP	C	TCGA-BR-4253-01A-01D-1126-08	2972972	15839222	43289761	84	8298											
SSBP4	170463	broad.mit.edu	37	chr19	18538736	18538736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggacctgtactgcgcggcgCctgacagaagagaggcctgc	8	5	16	12	3	0	3	0	1	0	2	0	5	0	4	3	3	3	1	3	3	2	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr19:18538736C>T	uc002niy.2	+	4	461	c.223C>T	c.(223-225)CCT>TCT	p.P75S	SSBP4_uc010ebp.2_Missense_Mutation_p.P75S|SSBP4_uc002niz.2_Missense_Mutation_p.P75S	NM_032627	NP_116016	Q9BWG4	SSBP4_HUMAN	single stranded DNA binding protein 4 isoform a	75						nucleus	single-stranded DNA binding				0						CTGCGCGGCGCCTGACAGAAG	0.662													11	31					0	0	0.001368	0	0		T	18538736	T	T	18538736	3	4	9	1	0	0	0	0	1	0	0	0	15207	739	26	2	237	2	SSBP4	19	18538736	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	2699514	18538736	40590247	85	8299											
ZNF492	57615	broad.mit.edu	37	chr19	22846716	22846716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgtgaaaatttacagttaaGaaaatactgtaaaagcatgg	19	11	8	3	0	0	2	0	1	0	1	0	2	0	2	0	1	3	3	0	1	9	5			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr19:22846716G>A	uc002nqw.3	+	4	489	c.245G>A	c.(244-246)AGA>AAA	p.R82K		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	82					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				TTACAGTTAAGAAAATACTGT	0.343													17	27					0	0	0.00499	0	0		A	22846716	A	A	22846716	3	1	9	1	0	0	0	0	1	0	0	0	17968	942	33	4	255	4	ZNF492	19	22846716	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	4307980	22846716	36282267	86	8300			1	2		2	2	28	G		8.983106e-05
ZNF492	57615	broad.mit.edu	37	chr19	22846743	22846743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtaaaagcatggatgagtGtaaggtgcacaaagaatgtt	15	10	12	4	0	0	2	0	1	0	1	0	3	0	3	0	2	2	5	0	2	5	3			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr19:22846743G>A	uc002nqw.3	+	4	516	c.272G>A	c.(271-273)TGT>TAT	p.C91Y		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	91					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				ATGGATGAGTGTAAGGTGCAC	0.303													16	30					0	0	0.001523	0	0		A	22846743	A	A	22846743	3	1	9	1	0	0	0	0	1	0	0	0	17968	1377	48	4	282	4	ZNF492	19	22846743	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	27	22846743	36282240	87	8301			1	2		2	2	28	G		8.983106e-05
WDR88	126248	broad.mit.edu	37	chr19	33647307	33647307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgttttaccttcagtggcCatttcctgtgtacaagctcc	6	15	8	12	0	1	0	1	0	0	0	3	0	3	0	4	1	3	4	4	1	3	5			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr19:33647307C>T	uc002nui.2	+	7	934	c.856C>T	c.(856-858)CAT>TAT	p.H286Y		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	286	WD 5.									ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					CTTCAGTGGCCATTTCCTGTG	0.488													26	104					0	0	0.008361	0	0		T	33647307	T	T	33647307	3	4	9	1	0	0	0	0	1	0	0	0	17361	594	21	4	882	4	WDR88	19	33647307	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	10800564	33647307	25481676	88	8302											
MEIS3	56917	broad.mit.edu	37	chr19	47910682	47910682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgctcctccgaggggtacgGgtgctgcagccaccagcaag	7	6	14	14	2	0	0	0	0	0	0	2	1	2	0	4	3	6	5	4	3	2	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr19:47910682G>A	uc002pgu.2	-	9	1309	c.862C>T	c.(862-864)CCG>TCG	p.P288S	MEIS3_uc010xyp.1_RNA|MEIS3_uc002pgo.2_Missense_Mutation_p.P87S|MEIS3_uc002pgp.2_Missense_Mutation_p.P120S|MEIS3_uc002pgq.2_Missense_Mutation_p.P369S|MEIS3_uc002pgr.2_Missense_Mutation_p.P156S|MEIS3_uc002pgt.2_Missense_Mutation_p.P271S|MEIS3_uc002pgv.2_Missense_Mutation_p.P317S|MEIS3_uc002pgs.2_Missense_Mutation_p.P334S|MEIS3_uc010eld.2_Missense_Mutation_p.P334S	NM_001009813	NP_001009813	Q99687	MEIS3_HUMAN	Meis1, myeloid ecotropic viral integration site	288	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000198)|OV - Ovarian serous cystadenocarcinoma(262;0.000439)|Epithelial(262;0.0113)|GBM - Glioblastoma multiforme(486;0.0223)		GAGGGGTACGGGTGCTGCAGC	0.627													9	21					0	0	0.000978	0	0		A	47910682	A	A	47910682	3	1	9	1	0	0	0	0	1	0	0	0	9487	1232	43	4	281	4	MEIS3	19	47910682	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	14263375	47910682	11218301	89	8303											
ZNF665	79788	broad.mit.edu	37	chr19	53678815	53678815	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggccacatccttgaatgTcaactgtccctaaaatgaaa	14	11	6	10	0	1	2	1	2	0	0	3	2	3	2	3	1	1	0	3	1	6	3			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr19:53678815T>G	uc010eqm.1	-	3	125	c.25A>C	c.(25-27)ACA>CCA	p.T9P		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	Error:Variant_position_missing_in_Q9H7R5_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		TCCTTGAATGTCAACTGTCCC	0.413													7	171					0	0	0.004482	0	0		G	53678815	G	G	53678815	3	3	9	1	0	0	0	0	1	0	0	0	18098	1667	58	5	2019	5	ZNF665	19	53678815	Missense_Mutation	SNP	T	TCGA-BR-4253-01A-01D-1126-08	5768133	53678815	5450168	90	8304											
NLRP5	126206	broad.mit.edu	37	chr19	56539808	56539808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccgtatttgcggaaaattCgggtggatgtcaaagggatc	10	11	14	6	3	1	0	1	0	0	0	4	3	2	3	1	4	1	1	1	4	4	3			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr19:56539808C>T	uc002qmj.2	+	7	2209	c.2209C>T	c.(2209-2211)CGG>TGG	p.R737W	NLRP5_uc002qmi.2_Missense_Mutation_p.R718W	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	737	LRR 2.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		GCGGAAAATTCGGGTGGATGT	0.498													37	197					0	0	0.002522	0	0		T	56539808	T	T	56539808	3	4	9	1	0	0	0	0	1	0	0	0	10499	875	31	1	2235	1	NLRP5	19	56539808	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	2860993	56539808	2589175	91	8305											
ZNF419	79744	broad.mit.edu	37	chr19	58004449	58004449	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatcagctcaggtgttcTcaagcaccaggtgactcaca	10	9	9	13	0	4	2	4	2	1	0	5	2	4	2	2	2	2	3	2	2	1	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr19:58004449T>C	uc002qov.2	+	5	764	c.524T>C	c.(523-525)CTC>CCC	p.L175P	ZNF547_uc002qpm.3_Intron|ZNF419_uc010ety.1_Missense_Mutation_p.L176P|ZNF419_uc010etz.1_Missense_Mutation_p.L163P|ZNF419_uc010eua.1_Missense_Mutation_p.L162P|ZNF419_uc002qow.2_Missense_Mutation_p.L143P|ZNF419_uc010eub.1_Missense_Mutation_p.L130P|ZNF419_uc010euc.1_Missense_Mutation_p.L129P	NM_024691	NP_078967	Q96HQ0	ZN419_HUMAN	zinc finger protein 419 isoform 2	175					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0252)|Lung(386;0.171)		TCAGGTGTTCTCAAGCACCAG	0.502													3	42					0	0	0.004672	0	0		C	58004449	C	C	58004449	3	2	9	1	0	0	0	0	1	0	0	0	17921	1551	54	3	545	3	ZNF419	19	58004449	Missense_Mutation	SNP	T	TCGA-BR-4253-01A-01D-1126-08	1464641	58004449	1124534	92	8306											
C20orf194	25943	broad.mit.edu	37	chr20	3245153	3245153	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgttttctgagagaatcAgctcaatgtcttcattcctt	10	16	6	9	0	5	2	3	1	2	1	6	3	6	2	1	0	2	2	1	0	3	5			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr20:3245153A>C	uc002wii.2	-	31	2855	c.2804T>G	c.(2803-2805)CTG>CGG	p.L935R	C20orf194_uc002wij.3_Missense_Mutation_p.L674R|C20orf194_uc002wik.2_Missense_Mutation_p.L609R	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	935											0						TGAGAGAATCAGCTCAATGTC	0.294													11	35					0	0	0.008291	0	0		C	3245153	C	C	3245153	3	2	9	1	0	0	0	0	1	0	0	0	2102	188	7	5	757	5	C20orf194	20	3245153	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08		3245153	59780367	93	8307											
PROCR	10544	broad.mit.edu	37	chr20	33764014	33764014	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggctgtgagctgcctccCgagggctctagagcccatgt	5	9	14	13	1	1	2	0	1	1	1	2	3	2	2	3	2	3	3	3	2	1	1			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr20:33764014C>T	uc002xbt.2	+	3	550	c.366C>T	c.(364-366)CCC>CCT	p.P122P	EDEM2_uc010zuv.1_Intron|PROCR_uc010zuw.1_Silent_p.P159P	NM_006404	NP_006395	Q9UNN8	EPCR_HUMAN	endothelial protein C receptor precursor	122	Extracellular (Potential).				antigen processing and presentation|blood coagulation|immune response	integral to plasma membrane|MHC class I protein complex	receptor activity				0			BRCA - Breast invasive adenocarcinoma(18;0.0152)		Drotrecogin alfa(DB00055)	AGCTGCCTCCCGAGGGCTCTA	0.612													8	52					0	0	0.008291	0	0		T	33764014	T	T	33764014	2	4	9	1	0	0	0	0	0	0	0	1	12569	639	23	1		1	PROCR	20	33764014	Silent	SNP	C	TCGA-BR-4253-01A-01D-1126-08	30518861	33764014	29261506	94	8308											
GNAS	2778	broad.mit.edu	37	chr20	57478739	57478739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcagaccattgtggccGccatgagcaacctggtgccc	8	10	10	13	1	1	2	1	1	0	1	1	2	1	2	5	2	3	1	5	2	1	3			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr20:57478739G>A	uc002xzw.2	+	5	2539	c.2254G>A	c.(2254-2256)GCC>ACC	p.A752T	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Missense_Mutation_p.A50T|GNAS_uc002xzx.2_Missense_Mutation_p.A50T|GNAS_uc010gjr.2_5'UTR|GNAS_uc002xzy.2_Missense_Mutation_p.A35T|GNAS_uc002yaa.2_Missense_Mutation_p.A95T|GNAS_uc010zzt.1_Missense_Mutation_p.A110T|GNAS_uc002yab.2_Intron|GNAS_uc002yad.2_5'UTR|GNAS_uc002yae.2_Missense_Mutation_p.A34T	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	109					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CATTGTGGCCGCCATGAGCAA	0.557			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			16	57					0	0	0.00499	0	0		A	57478739	A	A	57478739	3	1	9	1	0	0	0	0	1	0	0	0	6525	1087	38	1	3160	1	GNAS	20	57478739	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	23714725	57478739	5546781	95	8309											
YTHDF1	54915	broad.mit.edu	37	chr20	61834910	61834910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcccccatgctgagaacgCagggttttcagggaaaaaat	12	9	11	9	1	1	1	1	1	0	1	2	3	2	2	2	2	2	3	2	2	4	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chr20:61834910C>T	uc002yeh.2	-	4	676	c.382G>A	c.(382-384)GCG>ACG	p.A128T	YTHDF1_uc011aaq.1_Missense_Mutation_p.A78T	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	128										ovary(2)	2						GCTGAGAACGCAGGGTTTTCA	0.567													8	43					0	0	0.004482	0	0		T	61834910	T	T	61834910	3	4	9	1	0	0	0	0	1	0	0	0	17524	710	25	2	1305	2	YTHDF1	20	61834910	Missense_Mutation	SNP	C	TCGA-BR-4253-01A-01D-1126-08	4356171	61834910	1190610	96	8310											
VCX3A	51481	broad.mit.edu	37	chrX	6451795	6451795	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagctggccgtctacacactCggtagttcttccatctcgct	6	13	8	14	3	3	0	0	0	3	0	6	0	4	0	2	2	2	4	2	2	3	5			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chrX:6451795C>T	uc004crs.2	-	3	859	c.552G>A	c.(550-552)CCG>CCA	p.P184P	VCX3A_uc010ndk.1_Intron	NM_016379	NP_057463	Q9NNX9	VCX3_HUMAN	variable charge, X-linked 3A	184	Glu-rich.				brain development	nucleolus					0						TCTACACACTCGGTAGTTCTT	0.592													62	130					0	0	0.00361	0	0		T	6451795	T	T	6451795	2	4	9	1	0	0	0	0	0	0	0	1	17170	871	31	1		1	VCX3A	23	6451795	Silent	SNP	C	TCGA-BR-4253-01A-01D-1126-08		6451795	148818765	97	8311											
CDKL5	6792	broad.mit.edu	37	chrX	18622032	18622032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaacatagaaaccaagccGgcaaaagtactgctttgcag	15	9	8	9	1	0	1	0	0	0	1	0	1	0	1	2	1	6	4	2	1	7	5			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chrX:18622032G>A	uc004cym.2	+	12	1241	c.988G>A	c.(988-990)GGC>AGC	p.G330S	CDKL5_uc004cyn.2_Missense_Mutation_p.G330S	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	330					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					AAACCAAGCCGGCAAAAGTAC	0.428													8	285					0	0	0.008291	0	0		A	18622032	A	A	18622032	3	1	9	1	0	0	0	0	1	0	0	0	3160	1116	39	1	1030	1	CDKL5	23	18622032	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	12170237	18622032	136648528	98	8312											
PLP2	5355	broad.mit.edu	37	chrX	49029563	49029563	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagatgatccttgctgctAttttctttgttgtctacatg	6	20	8	7	0	2	2	0	2	2	1	3	3	3	2	1	0	3	3	1	0	2	8			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chrX:49029563A>G	uc004dmx.2	+	2	259	c.184A>G	c.(184-186)ATT>GTT	p.I62V		NM_002668	NP_002659	Q04941	PLP2_HUMAN	proteolipid protein 2 (colonic	62	Helical; (Potential).|MARVEL.				chemotaxis|cytokine-mediated signaling pathway	endoplasmic reticulum membrane|integral to membrane|membrane fraction|plasma membrane	chemokine binding|ion transmembrane transporter activity				0						CCTTGCTGCTATTTTCTTTGT	0.512													4	39					0	0	0.000602	0	0		G	49029563	G	G	49029563	3	3	9	1	0	0	0	0	1	0	0	0	12124	449	16	3	190	3	PLP2	23	49029563	Missense_Mutation	SNP	A	TCGA-BR-4253-01A-01D-1126-08	30407531	49029563	106240997	99	8313											
KLHL4	56062	broad.mit.edu	37	chrX	86868966	86868966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacgcagagcaaactcttcGtaaaatggagaactacttga	15	8	8	10	2	1	3	0	1	1	2	2	4	1	3	1	1	4	3	1	1	5	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chrX:86868966G>A	uc004efb.2	+	2	691	c.509G>A	c.(508-510)CGT>CAT	p.R170H	KLHL4_uc004efa.2_Missense_Mutation_p.R170H	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	170						cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CAAACTCTTCGTAAAATGGAG	0.403													59	72					0	0	0.00361	0	0		A	86868966	A	A	86868966	3	1	9	1	0	0	0	0	1	0	0	0	8407	1145	40	1	515	1	KLHL4	23	86868966	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	37839403	86868966	68401594	100	8314											
GPRASP1	9737	broad.mit.edu	37	chrX	101911301	101911301	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggtttggggccagagaagaGaccattagaagagaggctgg	12	7	17	5	0	0	4	0	0	0	4	0	7	0	4	2	5	0	2	2	5	3	2			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chrX:101911301G>C	uc004ejj.3	+	5	3261	c.2460G>C	c.(2458-2460)GAG>GAC	p.E820D	GPRASP1_uc004eji.3_Missense_Mutation_p.E820D|GPRASP1_uc010nod.2_Missense_Mutation_p.E820D	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	820	Glu-rich.					cytoplasm	protein binding			ovary(1)|lung(1)	2						CCAGAGAAGAGACCATTAGAA	0.502													32	185					0	0	0.004289	0	0		C	101911301	C	C	101911301	3	2	9	1	0	0	0	0	1	0	0	0	6738	933	33	5	2462	5	GPRASP1	23	101911301	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	15042335	101911301	53359259	101	8315											
KLHL13	90293	broad.mit.edu	37	chrX	117054233	117054233	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccttgaagtaatcactagcaGatgccatcatgactctatgc	12	11	7	11	0	3	3	2	2	1	1	3	3	3	3	2	0	3	2	2	0	4	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chrX:117054233G>C	uc004eql.2	-	3	403	c.341C>G	c.(340-342)TCT>TGT	p.S114C	KLHL13_uc004eqk.2_Missense_Mutation_p.S63C|KLHL13_uc011mtn.1_Translation_Start_Site|KLHL13_uc011mto.1_Missense_Mutation_p.S108C|KLHL13_uc011mtp.1_Missense_Mutation_p.S116C|KLHL13_uc004eqm.2_Missense_Mutation_p.S63C|KLHL13_uc011mtq.1_Missense_Mutation_p.S98C	NM_033495	NP_277030	Q9P2N7	KLH13_HUMAN	kelch-like 13	114	BTB.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex				kidney(1)|skin(1)	2						ATCACTAGCAGATGCCATCAT	0.403													14	269					0	0	0.003163	0	0		C	117054233	C	C	117054233	3	2	9	1	0	0	0	0	1	0	0	0	8385	942	33	5	1646	5	KLHL13	23	117054233	Missense_Mutation	SNP	G	TCGA-BR-4253-01A-01D-1126-08	15142932	117054233	38216327	102	8316											
KIAA1210	57481	broad.mit.edu	37	chrX	118221164	118221164	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttgatgacatctgtggCtggaatttagacctatctga	9	14	9	9	0	2	4	0	3	2	1	2	5	2	5	2	2	0	1	2	2	3	4			TCGA-BR-4253-01A-01D-1126-08	TCGA-BR-4253-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	93af2a8c-8e75-4932-af5a-cb52af187daf	bf99df84-f84a-456a-b59a-04b2aeb1bd1d	g.chrX:118221164C>T	uc004era.3	-	11	4029	c.4029G>A	c.(4027-4029)CAG>CAA	p.Q1343Q		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1343										ovary(4)|skin(1)	5						ACATCTGTGGCTGGAATTTAG	0.483													60	291					0	0	0.00361	0	0		T	118221164	T	T	118221164	2	4	9	1	0	0	0	0	0	0	0	1	8230	796	28	2		2	KIAA1210	23	118221164	Silent	SNP	C	TCGA-BR-4253-01A-01D-1126-08	1166931	118221164	37049396	103	8317											
MTF2	22823	broad.mit.edu	37	chr1	93594899	93594899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggttgcgaattcgtgttcctCctgtgccaccaaatgtggct	6	13	11	11	2	0	0	0	0	0	0	3	1	2	0	4	2	2	3	4	2	2	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr1:93594899C>T	uc009wdj.2	+	11	1346	c.1054C>T	c.(1054-1056)CCT>TCT	p.P352S	MTF2_uc010oth.1_Missense_Mutation_p.P250S|MTF2_uc009wdk.2_Intron|MTF2_uc001dpi.3_Missense_Mutation_p.P79S|MTF2_uc010oti.1_Missense_Mutation_p.P250S|MTF2_uc001dpj.3_Missense_Mutation_p.P250S|MTF2_uc001dpl.3_Missense_Mutation_p.P250S|MTF2_uc001dpm.3_Missense_Mutation_p.P21S	NM_007358	NP_031384	Q9Y483	MTF2_HUMAN	metal response element binding transcription	352						nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_lung(203;0.00196)|Lung NSC(277;0.00902)|Melanoma(281;0.099)|Ovarian(761;0.109)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00076)|GBM - Glioblastoma multiforme(16;0.00157)|Epithelial(280;0.0886)		TCGTGTTCCTCCTGTGCCACC	0.323													13	94					0	0	0.004007	0	0		T	93594899	T	T	93594899	3	4	10	1	0	0	0	0	1	0	0	0	9941	855	30	4	1096	4	MTF2	1	93594899	Missense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08		93594899	155655722	1	8318											
WNT2B	7482	broad.mit.edu	37	chr1	113058764	113058764	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacaattctctctctaggtAgccgagaggcagcttttgta	9	13	9	10	1	2	1	0	0	2	1	4	2	2	1	1	2	3	4	1	2	5	7			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr1:113058764A>G	uc001ecb.2	+	3	921	c.406A>G	c.(406-408)AGC>GGC	p.S136G	WNT2B_uc001eca.2_Missense_Mutation_p.S117G|WNT2B_uc009wgg.2_Missense_Mutation_p.S44G	NM_024494	NP_078613	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family,	136					chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity			ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTCTCTAGGTAGCCGAGAGGC	0.517													9	44					0	0	0.000978	0	0		G	113058764	G	G	113058764	3	3	10	1	0	0	0	0	1	0	0	0	17413	420	15	3	549	3	WNT2B	1	113058764	Missense_Mutation	SNP	A	TCGA-BR-4255-01A-01D-1126-08	19463865	113058764	136191857	2	8319											
PTGFRN	5738	broad.mit.edu	37	chr1	117491914	117491914	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagccgatgacgtccggccCgaggtgacgtggtccttcag	6	7	15	13	6	1	2	1	2	0	0	3	5	3	2	4	3	1	0	4	3	0	1	rs140719535		TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr1:117491914C>T	uc001egv.1	+	4	1070	c.933C>T	c.(931-933)CCC>CCT	p.P311P		NM_020440	NP_065173	Q9P2B2	FPRP_HUMAN	prostaglandin F2 receptor negative regulator	311	Ig-like C2-type 3.|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	protein binding			liver(1)	1	Lung SC(450;0.225)	all_cancers(81;0.00104)|all_lung(203;8.97e-05)|all_epithelial(167;0.000139)|Lung NSC(69;0.000446)		Lung(183;0.0704)|LUSC - Lung squamous cell carcinoma(189;0.227)|Colorectal(144;0.248)		ACGTCCGGCCCGAGGTGACGT	0.607													8	68					0	0	0.006214	0	0		T	117491914	T	T	117491914	2	4	10	1	0	0	0	0	0	0	0	1	12773	639	23	1		1	PTGFRN	1	117491914	Silent	SNP	C	TCGA-BR-4255-01A-01D-1126-08	4433150	117491914	131758707	3	8320											
PIAS3	10401	broad.mit.edu	37	chr1	145584516	145584516	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaccagccatcctcggtgCtaaggagccctgctatgggc	7	7	12	15	1	0	0	0	0	0	0	2	1	1	1	5	3	4	2	5	3	2	2			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr1:145584516C>T	uc001eoc.1	+	12	1574	c.1483C>T	c.(1483-1485)CTA>TTA	p.L495L	NBPF10_uc001emp.3_Intron|PIAS3_uc001eod.1_Silent_p.L164L	NM_006099	NP_006090	Q9Y6X2	PIAS3_HUMAN	protein inhibitor of activated STAT, 3	495					positive regulation of protein sumoylation|protein sumoylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	enzyme binding|nucleic acid binding|protein C-terminus binding|zinc ion binding			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					ATCCTCGGTGCTAAGGAGCCC	0.607													9	115					0	0	0.004482	0	0		T	145584516	T	T	145584516	2	4	10	1	0	0	0	0	0	0	0	1	11896	796	28	2		2	PIAS3	1	145584516	Silent	SNP	C	TCGA-BR-4255-01A-01D-1126-08	28092602	145584516	103666105	4	8321											
OTUD7B	56957	broad.mit.edu	37	chr1	149921651	149921651	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgggacctccaaaggcagaTagattcctccaaagggaata	14	7	10	10	0	0	2	0	0	0	2	3	4	3	4	4	3	0	1	4	3	5	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr1:149921651T>C	uc001etn.2	-	9	1360	c.1004A>G	c.(1003-1005)TAT>TGT	p.Y335C		NM_020205	NP_064590	Q6GQQ9	OTU7B_HUMAN	zinc finger protein Cezanne	335	Catalytic.|OTU.|TRAF-binding.				negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)			CAAAGGCAGATAGATTCCTCC	0.532													8	43					0	0	0.004482	0	0		C	149921651	C	C	149921651	3	2	10	1	0	0	0	0	1	0	0	0	11338	1406	49	3	1543	3	OTUD7B	1	149921651	Missense_Mutation	SNP	T	TCGA-BR-4255-01A-01D-1126-08	4337135	149921651	99328970	5	8322											
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48848413	48848413	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcacagcttgcaccaaacAttgcaatcgtcaacaggttg	12	8	8	13	2	1	0	1	0	0	0	2	0	1	0	2	1	5	5	2	1	3	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr2:48848413A>T	uc010yol.1	+	4	2390	c.2343A>T	c.(2341-2343)ACA>ACT	p.T781T	STON1-GTF2A1L_uc002rwp.1_Silent_p.T781T|GTF2A1L_uc002rws.1_Silent_p.T77T|GTF2A1L_uc010yom.1_Silent_p.T43T|GTF2A1L_uc002rwt.2_Silent_p.T77T	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	781					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TGCACCAAACATTGCAATCGT	0.388													7	57					0	0	0.006214	0	0		T	48848413	T	T	48848413	2	4	10	1	0	0	0	0	0	0	0	1	15342	204	8	5		5	STON1-GTF2A1L	2	48848413	Silent	SNP	A	TCGA-BR-4255-01A-01D-1126-08		48848413	194350960	6	8323											
TSGA10	80705	broad.mit.edu	37	chr2	99725896	99725896	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggacttttagacctacttcGcatcatctttctcaaatgtt	9	17	5	10	1	3	1	2	0	2	1	5	2	3	2	1	1	1	2	1	1	3	6			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr2:99725896G>A	uc002szg.3	-	4	635	c.7C>T	c.(7-9)CGA>TGA	p.R3*	TSGA10_uc002szh.3_Nonsense_Mutation_p.R3*|TSGA10_uc002szi.3_Nonsense_Mutation_p.R3*|TSGA10_uc010fin.1_Nonsense_Mutation_p.R3*|TSGA10_uc010yvn.1_Nonsense_Mutation_p.R3*	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	3					spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						GACCTACTTCGCATCATCTTT	0.393													9	76					0	0	0.008291	0	0		A	99725896	A	A	99725896	4	1	10	1	0	0	0	0	0	1	0	0	16643	1095	38	1	2153	1	TSGA10	2	99725896	Nonsense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	50877483	99725896	143473477	7	8324											
IL18RAP	8807	broad.mit.edu	37	chr2	103059744	103059744	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatggtacatcaaagattCtgacctagagtgggaagtct	15	10	10	6	0	3	3	1	1	2	2	3	4	3	4	1	2	1	1	1	2	6	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr2:103059744C>A	uc002tbx.2	+	8	1365	c.881C>A	c.(880-882)TCT>TAT	p.S294Y	IL18RAP_uc010fiz.2_Missense_Mutation_p.S152Y	NM_003853	NP_003844	O95256	I18RA_HUMAN	interleukin 18 receptor accessory protein	294	Ig-like C2-type 2.|Extracellular (Potential).				cell surface receptor linked signaling pathway|inflammatory response|innate immune response	integral to membrane	transmembrane receptor activity			skin(3)|ovary(2)	5						ATCAAAGATTCTGACCTAGAG	0.403													5	88					1.024e-07	1.72617e-07	0.000602	1	0		A	103059744	A	A	103059744	3	1	10	1	0	0	0	0	1	0	0	0	7664	913	32	5	903	5	IL18RAP	2	103059744	Missense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08	3333848	103059744	140139629	8	8325											
POTEE	445582	broad.mit.edu	37	chr2	131976213	131976213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggagtggcaagagcaacGtgggcgcttctggagaccac	9	5	18	9	2	1	2	0	0	1	2	1	4	1	3	1	5	2	3	1	5	2	1			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr2:131976213G>A	uc002tsn.2	+	1	290	c.238G>A	c.(238-240)GTG>ATG	p.V80M	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Translation_Start_Site|POTEE_uc002tsl.2_Translation_Start_Site	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	80							ATP binding				0						CAAGAGCAACGTGGGCGCTTC	0.602													47	147					0	0	0.00361	0	0		A	131976213	A	A	131976213	3	1	10	1	0	0	0	0	1	0	0	0	12283	1145	40	1	240	1	POTEE	2	131976213	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	28916469	131976213	111223160	9	8326											
LRP1B	53353	broad.mit.edu	37	chr2	141707814	141707814	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattactaaccttctttagtAcaattgatctgggcttcatc	11	16	5	9	0	3	1	1	1	2	0	4	1	3	1	1	1	3	2	1	1	6	8			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr2:141707814A>G	uc002tvj.1	-	20	4098	c.3126T>C	c.(3124-3126)TGT>TGC	p.C1042C	LRP1B_uc010fnl.1_Silent_p.C224C	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1042	Extracellular (Potential).|LDL-receptor class A 7.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CTTCTTTAGTACAATTGATCT	0.363										TSP Lung(27;0.18)			7	22					0	0	0.00308	0	0		G	141707814	G	G	141707814	2	3	10	1	0	0	0	0	0	0	0	1	8973	389	14	3		3	LRP1B	2	141707814	Silent	SNP	A	TCGA-BR-4255-01A-01D-1126-08	9731601	141707814	101491559	10	8327											
SCN9A	6335	broad.mit.edu	37	chr2	167133781	167133781	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttacctagagcccctacTgagttaccaatgatcttaat	12	12	7	10	0	1	3	0	2	1	1	1	3	1	3	4	1	4	2	4	1	6	5			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr2:167133781T>A	uc010fpl.2	-	16	2894	c.2553A>T	c.(2551-2553)TCA>TCT	p.S851S	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	862	II.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GAGCCCCTACTGAGTTACCAA	0.413													22	145					0	0	0.001882	0	0		A	167133781	A	A	167133781	2	1	10	1	0	0	0	0	0	0	0	1	13950	1567	55	5		5	SCN9A	2	167133781	Silent	SNP	T	TCGA-BR-4255-01A-01D-1126-08	25425967	167133781	76065592	11	8328											
ITGA4	3676	broad.mit.edu	37	chr2	182360534	182360534	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacctgtagtaattgttgaCgcttctttaagccaccctga	10	13	8	10	1	1	3	0	2	1	1	1	3	1	3	3	0	1	4	3	0	3	7			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr2:182360534C>T	uc002unu.2	+	14	2173	c.1410C>T	c.(1408-1410)GAC>GAT	p.D470D	ITGA4_uc010frj.1_5'Flank	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	470	FG-GAP 7.|Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	TAATTGTTGACGCTTCTTTAA	0.358													14	74					0	0	0.00245	0	0		T	182360534	T	T	182360534	2	4	10	1	0	0	0	0	0	0	0	1	7894	535	19	1		1	ITGA4	2	182360534	Silent	SNP	C	TCGA-BR-4255-01A-01D-1126-08	15226753	182360534	60838839	12	8329											
PMS1	5378	broad.mit.edu	37	chr2	190660534	190660534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaattgaggtgcgagataacGgggagggtatcaaggctgtt	12	9	16	4	2	1	2	1	1	0	1	1	4	1	3	0	5	2	3	0	5	4	4			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr2:190660534G>A	uc002urh.3	+	3	701	c.172G>A	c.(172-174)GGG>AGG	p.G58R	PMS1_uc010zga.1_Missense_Mutation_p.G58R|PMS1_uc010zgb.1_Intron|PMS1_uc002urk.3_Missense_Mutation_p.G58R|PMS1_uc002uri.3_Missense_Mutation_p.G58R|PMS1_uc010zgc.1_5'UTR|PMS1_uc010zgd.1_Intron|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Missense_Mutation_p.G58R|PMS1_uc010frz.2_Missense_Mutation_p.G58R|PMS1_uc010zfz.1_Missense_Mutation_p.G58R	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	58					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			GCGAGATAACGGGGAGGGTAT	0.328			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					14	68					0	0	0.00499	0	0		A	190660534	A	A	190660534	3	1	10	1	0	0	0	0	1	0	0	0	12161	1116	39	1	178	1	PMS1	2	190660534	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	8300000	190660534	52538839	13	8330											
CD96	10225	broad.mit.edu	37	chr3	111264125	111264125	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acagaaactcctgagaatggGtcaaaatggactctgcactt	14	9	9	9	0	2	2	1	1	1	2	3	4	3	3	1	2	2	1	1	2	4	1			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr3:111264125G>A	uc003dxw.2	+	2	464	c.294G>A	c.(292-294)GGG>GGA	p.G98G	CD96_uc003dxv.2_Silent_p.G98G|CD96_uc003dxx.2_Silent_p.G98G|CD96_uc010hpy.1_Silent_p.G98G	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor	98	Extracellular (Potential).|Ig-like V-type 1.				cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						CTGAGAATGGGTCAAAATGGA	0.448									Opitz_Trigonocephaly_syndrome				6	65					0	0	0.001168	0	0		A	111264125	A	A	111264125	2	1	10	1	0	0	0	0	0	0	0	1	3051	1248	44	4		4	CD96	3	111264125	Silent	SNP	G	TCGA-BR-4255-01A-01D-1126-08		111264125	86758305	14	8331											
CCDC80	151887	broad.mit.edu	37	chr3	112356885	112356885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctacttacaaggagtcttCgtttgccttcaaaggacccc	9	11	9	12	1	2	0	1	0	1	0	3	2	2	2	3	3	3	2	3	3	4	5			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr3:112356885C>T	uc003dzf.2	-	2	2086	c.1868G>A	c.(1867-1869)CGA>CAA	p.R623Q	CCDC80_uc011bhv.1_Missense_Mutation_p.R623Q|CCDC80_uc003dzg.2_Missense_Mutation_p.R623Q|CCDC80_uc003dzh.1_Missense_Mutation_p.R623Q	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	623										ovary(2)	2						AAGGAGTCTTCGTTTGCCTTC	0.463													26	85					0	0	0.003954	0	0		T	112356885	T	T	112356885	3	4	10	1	0	0	0	0	1	0	0	0	2857	884	31	1	1012	1	CCDC80	3	112356885	Missense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08	1092760	112356885	85665545	15	8332											
PLS1	5357	broad.mit.edu	37	chr3	142416830	142416830	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttagtgatctttcagctctAtgagatgatccgagtgccag	9	14	10	8	1	3	3	1	3	2	1	4	5	4	3	2	0	2	1	2	0	2	4			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr3:142416830A>G	uc010huv.2	+	12	1451	c.1292A>G	c.(1291-1293)TAT>TGT	p.Y431C	PLS1_uc003euz.2_Missense_Mutation_p.Y431C|PLS1_uc003eva.2_Missense_Mutation_p.Y431C	NM_001145319	NP_001138791	Q14651	PLSI_HUMAN	plastin 1	431	CH 3.|Actin-binding 2.					cytoplasm	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(1)	1						TTTCAGCTCTATGAGATGATC	0.433													12	95					0	0	0.001368	0	0		G	142416830	G	G	142416830	3	3	10	1	0	0	0	0	1	0	0	0	12126	449	16	3	1334	3	PLS1	3	142416830	Missense_Mutation	SNP	A	TCGA-BR-4255-01A-01D-1126-08	30059945	142416830	55605600	16	8333											
MUC4	4585	broad.mit.edu	37	chr3	195506914	195506914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctgtggatactgaggaaGggatggtgacaggaagaggg	12	6	18	5	0	0	3	0	2	0	1	0	7	0	7	1	6	1	0	1	6	3	1			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr3:195506914G>A	uc011bto.1	-	3	11613	c.11153C>T	c.(11152-11154)CCT>CTT	p.P3718L	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_5'Flank|MUC4_uc011btg.1_5'Flank|MUC4_uc011bth.1_5'Flank|MUC4_uc011bti.1_5'Flank|MUC4_uc011btj.1_5'Flank|MUC4_uc011btk.1_5'Flank|MUC4_uc011btl.1_5'Flank|MUC4_uc011btm.1_5'Flank|MUC4_uc011btn.1_5'Flank|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TACTGAGGAAGGGATGGTGAC	0.582													4	8					0	0	0.000248	0	0		A	195506914	A	A	195506914	3	1	10	1	0	0	0	0	1	0	0	0	9996	1000	35	4		4	MUC4	3	195506914	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	53090084	195506914	2515516	17	8334			1	3		5	5	6580	N	T_G_C	2.652903e-09
MUC4	4585	broad.mit.edu	37	chr3	195509388	195509388	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacatgaagaggggtggcGtgacctgtggatattgagga	10	9	18	4	1	0	5	0	4	0	1	0	7	0	7	1	5	0	0	1	5	2	2			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr3:195509388G>A	uc011bto.1	-	3	9139	c.8679C>T	c.(8677-8679)CAC>CAT	p.H2893H	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GAGGGGTGGCGTGACCTGTGG	0.592													4	60					0	0	0.001984	0	0		A	195509388	A	A	195509388	2	1	10	1	0	0	0	0	0	0	0	1	9996	1136	40	1		1	MUC4	3	195509388	Silent	SNP	G	TCGA-BR-4255-01A-01D-1126-08	2474	195509388	2513042	18	8335			1	3		5	5	6580	N	T_G_C	2.652903e-09
MUC4	4585	broad.mit.edu	37	chr3	195512568	195512568	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggtggcgtgacctgtgggTactgaggaagcgtcggtgac	7	8	19	7	3	0	3	0	3	0	0	1	5	0	4	1	5	2	1	1	5	2	1			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr3:195512568T>C	uc011bto.1	-	2	6343	c.5883A>G	c.(5881-5883)GTA>GTG	p.V1961V	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GACCTGTGGGTACTGAGGAAG	0.602													4	81					0	0	0.000602	0	0		C	195512568	C	C	195512568	2	2	10	1	0	0	0	0	0	0	0	1	9996	1625	57	3		3	MUC4	3	195512568	Silent	SNP	T	TCGA-BR-4255-01A-01D-1126-08	3180	195512568	2509862	19	8336			1	3		5	5	6580	N	T_G_C	2.652903e-09
MUC4	4585	broad.mit.edu	37	chr3	195513285	195513285	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggcgtggtgtcacctgtGgatactgaggaaaggctggt	9	9	17	6	1	1	2	1	1	0	1	1	4	1	4	1	6	1	1	1	6	2	1			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr3:195513285G>T	uc011bto.1	-	2	5626	c.5166C>A	c.(5164-5166)TCC>TCA	p.S1722S	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	514					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TGTCACCTGTGGATACTGAGG	0.582													4	37					0.000602214	0.000977908	0.000602	1	0		T	195513285	T	T	195513285	2	4	10	1	0	0	0	0	0	0	0	1	9996	1335	47	5		5	MUC4	3	195513285	Silent	SNP	G	TCGA-BR-4255-01A-01D-1126-08	717	195513285	2509145	20	8337			1	3		5	5	6580	N	T_G_C	2.652903e-09
MUC4	4585	broad.mit.edu	37	chr3	195513493	195513493	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggatgctgaggaagggCtggtgacatgaagaggggtg	9	8	20	4	0	0	4	0	3	0	1	0	6	0	6	0	6	1	2	0	6	2	0			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr3:195513493C>A	uc011bto.1	-	2	5418	c.4958G>T	c.(4957-4959)AGC>ATC	p.S1653I	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	444					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TGAGGAAGGGCTGGTGACATG	0.592													4	52					0.00621372	0.00981989	0.006214	1	0		A	195513493	A	A	195513493	3	1	10	1	0	0	0	0	1	0	0	0	9996	797	28	5		5	MUC4	3	195513493	Missense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08	208	195513493	2508937	21	8338			1	3		5	5	6580	N	T_G_C	2.652903e-09
PIGZ	80235	broad.mit.edu	37	chr3	196675340	196675340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcggggccaggtggtacacgGccccgtccagagcaaaggaa	10	3	16	12	3	0	1	0	0	0	1	1	2	1	2	4	6	2	2	4	6	3	1			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr3:196675340G>A	uc003fxh.2	-	3	575	c.428C>T	c.(427-429)GCC>GTC	p.A143V		NM_025163	NP_079439	Q86VD9	PIGZ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	143	Helical; (Potential).				GPI anchor biosynthetic process	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			ovary(3)	3	all_cancers(143;1.05e-08)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.29e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00603)		GTGGTACACGGCCCCGTCCAG	0.672													5	17					0	0	0.000602	0	0		A	196675340	A	A	196675340	3	1	10	1	0	0	0	0	1	0	0	0	11924	1203	42	2	1315	2	PIGZ	3	196675340	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	1161847	196675340	1347090	22	8339											
CSN1S1	1446	broad.mit.edu	37	chr4	70810618	70810618	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacccctatgctgtttggtaCtatccacaaatcatgcagta	11	13	6	11	0	1	0	1	0	0	0	2	0	2	0	3	1	4	5	3	1	6	6			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr4:70810618C>G	uc003hep.1	+	15	502	c.453C>G	c.(451-453)TAC>TAG	p.Y151*	CSN1S1_uc003heq.1_Nonsense_Mutation_p.Y142*|CSN1S1_uc003her.1_Nonsense_Mutation_p.Y143*	NM_001890	NP_001881	P47710	CASA1_HUMAN	casein alpha s1 isoform 1	151						extracellular region	protein binding|transporter activity				0						CTGTTTGGTACTATCCACAAA	0.413													14	264					0	0	0.003163	0	0		G	70810618	G	G	70810618	4	3	10	1	0	0	0	0	0	1	0	0	3950	576	20	5	507	5	CSN1S1	4	70810618	Nonsense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08		70810618	120343658	23	8340											
TIGD2	166815	broad.mit.edu	37	chr4	90034294	90034294	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggattataaactatgcaAacagttcagatcctaccagt	17	10	6	8	0	1	1	1	0	0	1	2	2	2	2	2	1	4	2	2	1	7	5			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr4:90034294A>G	uc003hsk.2	+	1	327	c.169A>G	c.(169-171)AAC>GAC	p.N57D	FAM13A_uc003hsh.1_5'Flank	NM_145715	NP_663761	Q4W5G0	TIGD2_HUMAN	tigger transposable element derived 2	57					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;3.86e-05)		AAACTATGCAAACAGTTCAGA	0.373													20	84					0	0	0.00278	0	0		G	90034294	G	G	90034294	3	3	10	1	0	0	0	0	1	0	0	0	15921	14	1	3	171	3	TIGD2	4	90034294	Missense_Mutation	SNP	A	TCGA-BR-4255-01A-01D-1126-08	19223676	90034294	101119982	24	8341											
UFSP2	55325	broad.mit.edu	37	chr4	186329110	186329110	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacaaacaggatttttgaCgttataccgatcaattggtt	12	14	8	7	2	1	2	1	2	0	0	1	4	1	3	1	2	2	2	1	2	4	6			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr4:186329110C>T	uc003ixo.2	-	9	1218	c.1101G>A	c.(1099-1101)ACG>ACA	p.T367T	UFSP2_uc003ixn.2_Silent_p.T242T|UFSP2_uc003ixq.2_Silent_p.T257T|UFSP2_uc003ixp.2_RNA	NM_018359	NP_060829	Q9NUQ7	UFSP2_HUMAN	UFM1-specific peptidase 2	367						endoplasmic reticulum|nucleus	small conjugating protein-specific protease activity				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;3.4e-25)|Epithelial(43;2.23e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;8.1e-05)|GBM - Glioblastoma multiforme(59;0.000148)|STAD - Stomach adenocarcinoma(60;0.000782)|LUSC - Lung squamous cell carcinoma(40;0.00939)|COAD - Colon adenocarcinoma(29;0.0108)|READ - Rectum adenocarcinoma(43;0.166)		GGATTTTTGACGTTATACCGA	0.373													4	41					0	0	0.000602	0	0		T	186329110	T	T	186329110	2	4	10	1	0	0	0	0	0	0	0	1	16964	523	19	1		1	UFSP2	4	186329110	Silent	SNP	C	TCGA-BR-4255-01A-01D-1126-08	96294816	186329110	4825166	25	8342											
GPR98	84059	broad.mit.edu	37	chr5	90074406	90074406	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttttcacatgagcaacttCgagtgtcagaagcacagagg	12	9	10	10	1	2	3	2	1	0	2	3	4	2	3	1	1	3	2	1	1	2	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr5:90074406C>T	uc003kju.2	+	63	12925	c.12829C>T	c.(12829-12831)CGA>TGA	p.R4277*	GPR98_uc003kjt.2_Nonsense_Mutation_p.R1983*|GPR98_uc003kjw.2_5'Flank	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	4277	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TGAGCAACTTCGAGTGTCAGA	0.413													11	27					0	0	0.00245	0	0		T	90074406	T	T	90074406	4	4	10	1	0	0	0	0	0	1	0	0	6737	876	31	1	13079	1	GPR98	5	90074406	Nonsense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08		90074406	90840854	26	8343											
ETF1	2107	broad.mit.edu	37	chr5	137844018	137844018	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtcatcaaggtcaaaaaaTtcatcgtctcctccttggta	12	13	6	10	1	5	0	4	0	1	0	8	0	6	0	2	2	0	1	2	2	6	4			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr5:137844018T>C	uc003ldc.3	-	11	1455	c.1290A>G	c.(1288-1290)GAA>GAG	p.E430E	ETF1_uc011cyv.1_Silent_p.E416E|ETF1_uc010jex.2_RNA|ETF1_uc003ldd.3_Silent_p.E397E	NM_004730	NP_004721	P62495	ERF1_HUMAN	eukaryotic translation termination factor 1	430					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation|regulation of translational termination	cytoplasm	protein binding|ribosome binding|translation release factor activity, codon specific			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GGTCAAAAAATTCATCGTCTC	0.488													4	43					0	0	0.000602	0	0		C	137844018	C	C	137844018	2	2	10	1	0	0	0	0	0	0	0	1	5276	1490	52	3		3	ETF1	5	137844018	Silent	SNP	T	TCGA-BR-4255-01A-01D-1126-08	47769612	137844018	43071242	27	8344											
STK10	6793	broad.mit.edu	37	chr5	171523475	171523475	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccccctcatcccggccGtcttcgatctcttccatcac	4	13	4	20	3	5	0	2	0	3	0	10	1	8	0	5	1	0	0	5	1	0	3	rs139075094		TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr5:171523475G>A	uc003mbo.1	-	8	1260	c.960C>T	c.(958-960)GAC>GAT	p.D320D		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	320							ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CATCCCGGCCGTCTTCGATCT	0.647													9	56					0	0	0.004482	0	0		A	171523475	A	A	171523475	2	1	10	1	0	0	0	0	0	0	0	1	15311	1136	40	1		1	STK10	5	171523475	Silent	SNP	G	TCGA-BR-4255-01A-01D-1126-08	33679457	171523475	9391785	28	8345											
CDYL	9425	broad.mit.edu	37	chr6	4892004	4892004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaagacagagtatttggttCggtggaaaggctatgacagc	12	9	15	5	1	0	3	0	1	0	2	1	5	0	5	0	5	1	3	0	5	4	4			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr6:4892004C>T	uc003mwi.2	+	4	375	c.244C>T	c.(244-246)CGG>TGG	p.R82W	CDYL_uc003mwj.2_Missense_Mutation_p.R28W|CDYL_uc003mwk.2_Intron|CDYL_uc011dhx.1_5'UTR|CDYL_uc011dhy.1_5'UTR	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	82	Chromo.				regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		GTATTTGGTTCGGTGGAAAGG	0.408													31	58					0	0	0.002836	0	0		T	4892004	T	T	4892004	3	4	10	1	0	0	0	0	1	0	0	0	3188	875	31	1	88	1	CDYL	6	4892004	Missense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08		4892004	166223063	29	8346											
HIST1H2AD	3013	broad.mit.edu	37	chr6	26199399	26199399	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacgcggcccacagggaactGgagtccggcccgcgaagagc	9	3	15	14	5	0	1	0	0	0	1	1	4	1	3	3	4	3	0	3	4	3	1	rs140533379		TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr6:26199399G>A	uc003ngw.2	-	1	73	c.73C>T	c.(73-75)CAG>TAG	p.Q25*	HIST1H3D_uc003ngv.2_5'UTR|HIST1H2BF_uc003ngx.2_5'Flank	NM_021065	NP_066409	P20671	H2A1D_HUMAN	histone cluster 1, H2ad	25					nucleosome assembly	nucleosome|nucleus	DNA binding				0		all_hematologic(11;0.196)				ACAGGGAACTGGAGTCCGGCC	0.612													3	16					0	0	0.000248	0	0		A	26199399	A	A	26199399	4	1	10	1	0	0	0	0	0	1	0	0	7147	1357	47	4	323	4	HIST1H2AD	6	26199399	Nonsense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	21307395	26199399	144915668	30	8347											
TRERF1	55809	broad.mit.edu	37	chr6	42236873	42236873	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acctgaattcgcaggttttgGttggcaaacacctgggtgaa	10	11	12	8	1	0	2	0	2	0	0	1	2	0	2	2	4	1	4	2	4	3	4			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr6:42236873G>A	uc003osd.2	-	5	1019	c.456C>T	c.(454-456)AAC>AAT	p.N152N	TRERF1_uc011duq.1_Silent_p.N152N|TRERF1_uc003osb.2_5'UTR|TRERF1_uc003osc.2_5'UTR|TRERF1_uc003ose.2_Silent_p.N152N	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	152					cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GCAGGTTTTGGTTGGCAAACA	0.557													15	287					0	0	0.004007	0	0		A	42236873	A	A	42236873	2	1	10	1	0	0	0	0	0	0	0	1	16501	1252	44	4		4	TRERF1	6	42236873	Silent	SNP	G	TCGA-BR-4255-01A-01D-1126-08	16037474	42236873	128878194	31	8348											
TPBG	7162	broad.mit.edu	37	chr6	83075655	83075655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggctcacctgtgcatatcCggaaaaaatgaggaatcggg	12	7	12	10	3	1	1	1	1	0	0	3	3	2	3	3	4	1	2	3	4	5	1			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr6:83075655C>T	uc003pjn.3	+	3	1913	c.977C>T	c.(976-978)CCG>CTG	p.P326L	TPBG_uc010kbj.2_Missense_Mutation_p.P326L|TPBG_uc003pjo.2_Missense_Mutation_p.P326L	NM_006670	NP_006661	Q13641	TPBG_HUMAN	trophoblast glycoprotein precursor	326	Extracellular (Potential).|LRRCT.				cell adhesion	integral to plasma membrane				central_nervous_system(1)	1		all_cancers(76;0.000805)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0897)		BRCA - Breast invasive adenocarcinoma(397;0.107)		TGTGCATATCCGGAAAAAATG	0.537													9	117					0	0	0.004482	0	0		T	83075655	T	T	83075655	3	4	10	1	0	0	0	0	1	0	0	0	16420	652	23	1	979	1	TPBG	6	83075655	Missense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08	40838782	83075655	88039412	32	8349											
NPY	4852	broad.mit.edu	37	chr7	24325011	24325011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggccagatactactcggCgctgcgacactacatcaacc	11	7	8	15	3	1	1	1	0	0	1	2	2	1	1	2	2	5	1	2	2	4	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr7:24325011C>T	uc003sww.1	+	2	238	c.152C>T	c.(151-153)GCG>GTG	p.A51V		NM_000905	NP_000896	P01303	NPY_HUMAN	neuropeptide Y precursor	51					adult feeding behavior|calcium ion transport|cell proliferation|cellular component movement|central nervous system neuron development|cerebral cortex development|digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|neuron projection development|neuropeptide signaling pathway|positive regulation of appetite|synaptic transmission	cell|extracellular space	calcium channel regulator activity|G-protein coupled receptor activity|neuropeptide hormone activity				0						TACTACTCGGCGCTGCGACAC	0.632													5	18					0	0	0.001168	0	0		T	24325011	T	T	24325011	3	4	10	1	0	0	0	0	1	0	0	0	10626	768	27	1	154	1	NPY	7	24325011	Missense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08		24325011	134813652	33	8350											
BUD31	8896	broad.mit.edu	37	chr7	99015162	99015162	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgcggtgcattcagacacggGacaccaacttcgggacgaac	11	6	12	12	4	1	1	1	0	0	1	2	4	1	3	1	3	4	1	1	3	2	2			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr7:99015162G>C	uc003uqf.2	+	5	529	c.328G>C	c.(328-330)GAC>CAC	p.D110H	BUD31_uc011kiu.1_Missense_Mutation_p.D110H|BUD31_uc011kiv.1_Missense_Mutation_p.D110H|BUD31_uc003uqg.3_Missense_Mutation_p.D110H	NM_003910	NP_003901	P41223	BUD31_HUMAN	G10 protein	110					regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_cancers(62;1.76e-08)|all_epithelial(64;1.63e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			TCAGACACGGGACACCAACTT	0.453													7	66					0	0	0.001984	0	0		C	99015162	C	C	99015162	3	2	10	1	0	0	0	0	1	0	0	0	1577	1174	41	5	338	5	BUD31	7	99015162	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	74690151	99015162	60123501	34	8351											
RBM28	55131	broad.mit.edu	37	chr7	127978360	127978360	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctgcttctaggaggtttTtgaactgaacaaaaccaaaa	15	11	7	8	0	1	2	0	2	1	0	1	3	1	3	2	2	5	2	2	2	8	5			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr7:127978360T>C	uc003vmp.2	-	5	600	c.485A>G	c.(484-486)AAA>AGA	p.K162R	RBM28_uc003vmo.2_5'Flank|RBM28_uc011koj.1_Intron|RBM28_uc011kok.1_Missense_Mutation_p.K109R	NM_018077	NP_060547	Q9NW13	RBM28_HUMAN	RNA binding motif protein 28	162	RRM 2.				mRNA processing|RNA splicing	Golgi apparatus|nucleolus|spliceosomal complex	nucleotide binding|RNA binding			ovary(2)	2						TAGGAGGTTTTTGAACTGAAC	0.418													23	51					0	0	0.003954	0	0		C	127978360	C	C	127978360	3	2	10	1	0	0	0	0	1	0	0	0	13153	1841	64	3	1854	3	RBM28	7	127978360	Missense_Mutation	SNP	T	TCGA-BR-4255-01A-01D-1126-08	28963198	127978360	31160303	35	8352											
RBM33	155435	broad.mit.edu	37	chr7	155534608	155534608	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgaattacccatagcgccGtcacacgtgatagaaatgag	13	8	10	10	4	1	4	1	3	0	1	1	4	1	4	2	0	2	0	2	0	5	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr7:155534608G>A	uc010lqk.1	+	13	2513	c.2145G>A	c.(2143-2145)CCG>CCA	p.P715P	RBM33_uc011kvv.1_Silent_p.P524P	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	715							nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		CCATAGCGCCGTCACACGTGA	0.562													18	71					0	0	0.001523	0	0		A	155534608	A	A	155534608	2	1	10	1	0	0	0	0	0	0	0	1	13155	1132	40	1		1	RBM33	7	155534608	Silent	SNP	G	TCGA-BR-4255-01A-01D-1126-08	27556248	155534608	3604055	36	8353											
NEIL2	252969	broad.mit.edu	37	chr8	11643642	11643642	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcacacacaggtctacCagaaagaacagtgccctgct	13	5	9	14	1	1	2	0	0	1	2	1	2	1	2	2	1	5	3	2	1	3	1			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr8:11643642C>T	uc003wug.2	+	5	1534	c.859C>T	c.(859-861)CAG>TAG	p.Q287*	NEIL2_uc003wue.2_Nonsense_Mutation_p.Q287*|NEIL2_uc003wuf.2_Nonsense_Mutation_p.Q226*|NEIL2_uc011kxd.1_Nonsense_Mutation_p.Q171*	NM_145043	NP_659480	Q969S2	NEIL2_HUMAN	nei like 2 isoform a	287	FPG-type.				base-excision repair|nucleotide-excision repair	nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|hydrolase activity, hydrolyzing N-glycosyl compounds|zinc ion binding				0	all_epithelial(15;0.103)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.166)		ACAGGTCTACCAGAAAGAACA	0.622								BER_DNA_glycosylases					25	286					0	0	0.00333	0	0		T	11643642	T	T	11643642	4	4	10	1	0	0	0	0	0	1	0	0	10338	595	21	4	878	4	NEIL2	8	11643642	Nonsense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08		11643642	134720380	37	8354											
FDFT1	2222	broad.mit.edu	37	chr8	11687890	11687890	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atcacctacctttcgagactCagaaaccagagtgtgtttaa	13	11	7	10	1	2	3	2	0	0	3	3	4	2	3	3	0	2	1	3	0	3	4			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr8:11687890C>G	uc003wui.2	+	6	992	c.840C>G	c.(838-840)CTC>CTG	p.L280L	FDFT1_uc003wuh.2_Silent_p.L216L|FDFT1_uc010lsa.1_Silent_p.L195L|FDFT1_uc011kxe.1_Silent_p.L216L|FDFT1_uc011kxf.1_Silent_p.L237L|FDFT1_uc011kxg.1_Silent_p.L113L|FDFT1_uc003wuj.2_Silent_p.L273L|FDFT1_uc010lsb.2_Silent_p.L216L|FDFT1_uc011kxh.1_Silent_p.L216L|FDFT1_uc011kxi.1_Intron|FDFT1_uc011kxj.1_Silent_p.L216L|FDFT1_uc003wuk.2_Silent_p.L339L|FDFT1_uc011kxk.1_Silent_p.L195L	NM_004462	NP_004453	P37268	FDFT_HUMAN	squalene synthase	280					cholesterol biosynthetic process|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	farnesyl-diphosphate farnesyltransferase activity|oxidoreductase activity|protein binding|squalene synthase activity				0	all_epithelial(15;0.234)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.18)		TTTCGAGACTCAGAAACCAGA	0.512													5	672					0	0	0.001168	0	0		G	11687890	G	G	11687890	2	3	10	1	0	0	0	0	0	0	0	1	5816	813	29	5		5	FDFT1	8	11687890	Silent	SNP	C	TCGA-BR-4255-01A-01D-1126-08	44248	11687890	134676132	38	8355											
BRF2	55290	broad.mit.edu	37	chr8	37702081	37702081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtccctaacttcctgaGgggtacgcaaatactgttct	11	11	9	10	1	1	1	0	1	1	0	3	2	3	1	2	2	3	3	2	2	5	5			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr8:37702081G>A	uc003xkk.2	-	4	1297	c.1187C>T	c.(1186-1188)CCT>CTT	p.P396L		NM_018310	NP_060780	Q9HAW0	BRF2_HUMAN	RNA polymerase III transcription initiation	396					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter|transcription initiation, DNA-dependent	nucleoplasm	protein binding|zinc ion binding				0		Lung NSC(58;0.118)|all_lung(54;0.195)	BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;1.81e-10)			AACTTCCTGAGGGGTACGCAA	0.527													3	30					0	0	0.004672	0	0		A	37702081	A	A	37702081	3	1	10	1	0	0	0	0	1	0	0	0	1514	1000	35	4	76	4	BRF2	8	37702081	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	26014191	37702081	108661941	39	8356											
ZNF704	619279	broad.mit.edu	37	chr8	81553643	81553643	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccttcttccagcggcaggcGgtacaccacatgtctcggtt	6	10	11	14	3	2	0	0	0	2	0	4	0	3	0	3	4	2	3	3	4	1	4			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr8:81553643G>A	uc003yby.1	-	9	1429	c.1197C>T	c.(1195-1197)ACC>ACT	p.T399T		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	399						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			AGCGGCAGGCGGTACACCACA	0.612													4	26					0	0	0.001168	0	0		A	81553643	A	A	81553643	2	1	10	1	0	0	0	0	0	0	0	1	18132	1103	39	1		1	ZNF704	8	81553643	Silent	SNP	G	TCGA-BR-4255-01A-01D-1126-08	43851562	81553643	64810379	40	8357											
DCAF13	25879	broad.mit.edu	37	chr8	104452417	104452417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatctgtgtaaaatggacttCtgacagcaagtatattatgt	13	15	8	5	0	2	1	0	1	2	0	2	2	2	2	0	1	1	3	0	1	7	6			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr8:104452417C>T	uc003yln.2	+	9	1737	c.1460C>T	c.(1459-1461)TCT>TTT	p.S487F	DCAF13_uc003ylm.1_Missense_Mutation_p.S220F|DCAF13_uc003ylo.2_Missense_Mutation_p.S198F	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	335	WD 7.				rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						AAATGGACTTCTGACAGCAAG	0.348													10	138					0	0	0.008291	0	0		T	104452417	T	T	104452417	3	4	10	1	0	0	0	0	1	0	0	0	4269	913	32	4	1494	4	DCAF13	8	104452417	Missense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08	22898774	104452417	41911605	41	8358											
IFNB1	3456	broad.mit.edu	37	chr9	21077680	21077680	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcagctgcttaatctcCtcagggatgtcaaagttcat	9	13	9	10	0	4	0	3	0	1	0	5	1	4	1	1	1	4	5	1	1	2	2			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr9:21077680C>T	uc003zok.2	-	1	264	c.189G>A	c.(187-189)GAG>GAA	p.E63E		NM_002176	NP_002167	P01574	IFNB_HUMAN	interferon, beta 1, fibroblast precursor	63					activation of caspase activity|B cell proliferation|blood coagulation|cellular response to exogenous dsRNA|defense response to virus|induction of apoptosis|natural killer cell activation|negative regulation of cell proliferation|negative regulation of T cell differentiation|negative regulation of T-helper 2 cell cytokine production|negative regulation of viral genome replication|negative regulation of viral transcription|negative regulation of virion penetration into host cell|positive regulation of innate immune response|positive regulation of transcription from RNA polymerase II promoter|regulation of MHC class I biosynthetic process|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding|transcription corepressor activity			ovary(1)|breast(1)|kidney(1)	3				GBM - Glioblastoma multiforme(5;7.45e-142)|Lung(24;2.42e-17)|LUSC - Lung squamous cell carcinoma(38;7.17e-11)	Interferon beta-1a(DB00060)|Interferon beta-1b(DB00068)	GCTTAATCTCCTCAGGGATGT	0.453													12	82					0	0	0.000978	0	0		T	21077680	T	T	21077680	2	4	10	1	0	0	0	0	0	0	0	1	7562	680	24	4		4	IFNB1	9	21077680	Silent	SNP	C	TCGA-BR-4255-01A-01D-1126-08		21077680	120135751	42	8359											
TEK	7010	broad.mit.edu	37	chr9	27158095	27158095	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttctgtgaagggcgagttCgaggagaggcaatcaggata	12	9	15	5	2	2	2	1	1	1	1	3	6	2	3	0	4	0	2	0	4	3	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr9:27158095C>T	uc003zqi.3	+	2	761	c.319C>T	c.(319-321)CGA>TGA	p.R107*	TEK_uc010mjc.1_Intron|TEK_uc011lnn.1_Nonsense_Mutation_p.R107*|TEK_uc011lno.1_Nonsense_Mutation_p.R107*|TEK_uc011lnp.1_Intron|TEK_uc003zqj.1_Nonsense_Mutation_p.R84*	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	107	Extracellular (Potential).|Ig-like C2-type 1.				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		AGGGCGAGTTCGAGGAGAGGC	0.463													10	103					0	0	0.000978	0	0		T	27158095	T	T	27158095	4	4	10	1	0	0	0	0	0	1	0	0	15776	876	31	1	325	1	TEK	9	27158095	Nonsense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08	6080415	27158095	114055336	43	8360											
DCAF12	25853	broad.mit.edu	37	chr9	34089583	34089583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtagaaactcactgaccGgattcctgaaagacagaaaa	16	7	8	10	2	1	5	1	2	0	3	3	6	2	6	2	1	1	1	2	1	5	2			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr9:34089583G>A	uc003ztt.2	-	8	1372	c.1030C>T	c.(1030-1032)CGG>TGG	p.R344W		NM_015397	NP_056212	Q5T6F0	DCA12_HUMAN	DDB1 and CUL4 associated factor 12	344	WD 4.					centrosome|CUL4 RING ubiquitin ligase complex					0						CTCACTGACCGGATTCCTGAA	0.488													7	42					0	0	0.004482	0	0		A	34089583	A	A	34089583	3	1	10	1	0	0	0	0	1	0	0	0	4266	1115	39	1	339	1	DCAF12	9	34089583	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	6931488	34089583	107123848	44	8361											
FCN1	2219	broad.mit.edu	37	chr9	137805455	137805455	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgactgagactgcccagcGtctcctgtgtggggagagga	8	7	15	11	2	1	2	0	1	1	2	2	6	1	3	2	3	2	0	2	3	0	0	rs144127766		TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr9:137805455G>A	uc004cfi.2	-	5	404	c.312C>T	c.(310-312)GAC>GAT	p.D104D		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	104					opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		ACTGCCCAGCGTCTCCTGTGT	0.592													4	17					0	0	0.000248	0	0		A	137805455	A	A	137805455	2	1	10	1	0	0	0	0	0	0	0	1	5805	1136	40	1		1	FCN1	9	137805455	Silent	SNP	G	TCGA-BR-4255-01A-01D-1126-08	103715872	137805455	3407976	45	8362											
ZNF248	57209	broad.mit.edu	37	chr10	38121178	38121178	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgagctctccgaagctGggtaagatgtgacttcttgc	7	13	13	8	1	2	3	0	2	2	1	3	4	2	3	1	1	3	3	1	1	2	3	rs137877519		TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr10:38121178G>T	uc001izd.1	-	6	1604	c.1105C>A	c.(1105-1107)CAG>AAG	p.Q369K	ZNF248_uc009xmc.2_Intron|ZNF248_uc001izb.2_Intron|ZNF248_uc001izc.2_Intron|ZNF248_uc010qeu.1_Missense_Mutation_p.Q369K	NM_021045	NP_066383	Q8NDW4	ZN248_HUMAN	zinc finger protein 248	369					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTCCGAAGCTGGGTAAGATGT	0.408													10	145					3.86212e-05	6.32958e-05	0.008291	1	0		T	38121178	T	T	38121178	3	4	10	1	0	0	0	0	1	0	0	0	17818	1357	47	5	638	5	ZNF248	10	38121178	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08		38121178	97413569	46	8363											
GRID1	2894	broad.mit.edu	37	chr10	87407072	87407072	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagggggttggtgccctTggctcggaagtactcatata	7	11	13	10	1	1	0	1	0	0	0	3	1	2	1	2	5	2	3	2	5	4	5			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr10:87407072T>C	uc001kdl.1	-	13	2181	c.2080A>G	c.(2080-2082)AAG>GAG	p.K694E	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.K265E|uc001kdm.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	694	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	TTGGTGCCCTTGGCTCGGAAG	0.537										Multiple Myeloma(13;0.14)			34	324					0	0	0.006999	0	0		C	87407072	C	C	87407072	3	2	10	1	0	0	0	0	1	0	0	0	6787	1821	63	3	965	3	GRID1	10	87407072	Missense_Mutation	SNP	T	TCGA-BR-4255-01A-01D-1126-08	49285894	87407072	48127675	47	8364											
LOXL4	84171	broad.mit.edu	37	chr10	100015439	100015439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctctgtgcctgagcagcGcaccccactcatcaccacct	8	7	7	19	1	3	1	2	1	1	0	3	1	3	1	5	0	4	3	5	0	0	0	rs149982668		TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr10:100015439G>A	uc001kpa.1	-	10	1637	c.1486C>T	c.(1486-1488)CGC>TGC	p.R496C		NM_032211	NP_115587	Q96JB6	LOXL4_HUMAN	lysyl oxidase-like 4 precursor	496	SRCR 4.					extracellular space|membrane	copper ion binding|protein binding|scavenger receptor activity			ovary(3)|breast(1)|skin(1)	5		Colorectal(252;0.234)		Epithelial(162;2.14e-11)|all cancers(201;2.49e-09)		CCTGAGCAGCGCACCCCACTC	0.637													4	40					0	0	0.000602	0	0		A	100015439	A	A	100015439	3	1	10	1	0	0	0	0	1	0	0	0	8920	1087	38	1	808	1	LOXL4	10	100015439	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	12608367	100015439	35519308	48	8365											
HPSE2	60495	broad.mit.edu	37	chr10	100481463	100481463	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccgcccaatattagggcCatataagctggctctggaat	10	9	11	11	2	1	0	0	0	1	0	1	1	1	1	3	4	1	2	3	4	6	4			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr10:100481463C>A	uc001kpn.1	-	5	967	c.907G>T	c.(907-909)GGC>TGC	p.G303C	HPSE2_uc009xwc.1_Missense_Mutation_p.G293C|HPSE2_uc001kpo.1_Missense_Mutation_p.G235C|HPSE2_uc009xwd.1_Missense_Mutation_p.G181C	NM_021828	NP_068600	Q8WWQ2	HPSE2_HUMAN	heparanase 2	303					carbohydrate metabolic process	intracellular|membrane	cation binding|heparanase activity			ovary(1)	1				Epithelial(162;1.8e-09)|all cancers(201;4.72e-07)		ATATTAGGGCCATATAAGCTG	0.468													4	53					2.0095e-06	3.35548e-06	0.001984	1	0		A	100481463	A	A	100481463	3	1	10	1	0	0	0	0	1	0	0	0	7361	594	21	5	941	5	HPSE2	10	100481463	Missense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08	466024	100481463	35053284	49	8366											
CNNM2	54805	broad.mit.edu	37	chr10	104679833	104679833	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaatgacaccaagttggaCgctatgctggaagaatttaa	14	11	9	7	1	1	2	1	1	0	1	1	4	1	4	1	2	1	3	1	2	6	5			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr10:104679833C>T	uc001kwm.2	+	1	1720	c.1596C>T	c.(1594-1596)GAC>GAT	p.D532D	CNNM2_uc001kwn.2_Silent_p.D532D|CNNM2_uc001kwl.2_Silent_p.D532D	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	532	CBS 2.				ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CCAAGTTGGACGCTATGCTGG	0.458													23	153					0	0	0.005443	0	0		T	104679833	T	T	104679833	2	4	10	1	0	0	0	0	0	0	0	1	3616	535	19	1		1	CNNM2	10	104679833	Silent	SNP	C	TCGA-BR-4255-01A-01D-1126-08	4198370	104679833	30854914	50	8367											
SLK	9748	broad.mit.edu	37	chr10	105750529	105750529	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatggtagagattgacataTtagcatcttgtgatcaccca	13	12	8	8	0	2	3	1	2	1	1	2	4	2	3	1	1	1	2	1	1	3	5			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr10:105750529T>C	uc001kxo.1	+	2	281	c.247T>C	c.(247-249)TTA>CTA	p.L83L	SLK_uc001kxp.1_Silent_p.L83L	NM_014720	NP_055535	Q9H2G2	SLK_HUMAN	serine/threonine kinase 2	83	Protein kinase.				apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GATTGACATATTAGCATCTTG	0.368													16	47					0	0	0.003163	0	0		C	105750529	C	C	105750529	2	2	10	1	0	0	0	0	0	0	0	1	14773	1490	52	3		3	SLK	10	105750529	Silent	SNP	T	TCGA-BR-4255-01A-01D-1126-08	1070696	105750529	29784218	51	8368											
BTBD16	118663	broad.mit.edu	37	chr10	124089067	124089067	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctcttcctctgcttgcgTctgcacggcatcaccaaagg	6	10	9	16	3	4	0	1	0	3	0	5	0	5	0	3	2	3	4	3	2	1	2			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr10:124089067T>C	uc001lgc.1	+	11	1235	c.984T>C	c.(982-984)CGT>CGC	p.R328R	BTBD16_uc001lgd.1_Silent_p.R327R	NM_144587	NP_653188	Q32M84	BTBDG_HUMAN	BTB (POZ) domain containing 16	328										skin(1)	1		all_neural(114;0.107)|Lung NSC(174;0.175)|all_lung(145;0.222)|Breast(234;0.238)				TCTGCTTGCGTCTGCACGGCA	0.602													4	35					0	0	0.000602	0	0		C	124089067	C	C	124089067	2	2	10	1	0	0	0	0	0	0	0	1	1544	1654	58	3		3	BTBD16	10	124089067	Silent	SNP	T	TCGA-BR-4255-01A-01D-1126-08	18338538	124089067	11445680	52	8369											
PPP2R2D	55844	broad.mit.edu	37	chr10	133761176	133761176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgtgggacctcaacatGgagagcaggccggtggagac	11	5	17	8	1	1	2	1	0	0	2	1	5	1	3	2	6	2	1	2	6	2	0			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr10:133761176G>A	uc001lks.2	+	6	1107	c.864G>A	c.(862-864)ATG>ATA	p.M288I	PPP2R2D_uc001lkr.2_Missense_Mutation_p.M94I|PPP2R2D_uc001lkt.2_Missense_Mutation_p.M94I|PPP2R2D_uc009yay.2_Missense_Mutation_p.M156I	NM_018461	NP_060931	Q66LE6	2ABD_HUMAN	protein phosphatase 2, regulatory subunit B,	321	WD 5.			M -> T (in Ref. 1; BAF85754).	cell division|exit from mitosis|mitosis|signal transduction	cytoplasm|protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			skin(1)	1		all_cancers(35;2.16e-12)|all_epithelial(44;2.77e-09)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Colorectal(31;0.0124)|Breast(234;0.023)|all_neural(114;0.0299)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.86e-05)|Epithelial(32;8.82e-05)|all cancers(32;0.000106)|BRCA - Breast invasive adenocarcinoma(275;0.21)		ACCTCAACATGGAGAGCAGGC	0.498													8	63					0	0	0.004482	0	0		A	133761176	A	A	133761176	3	1	10	1	0	0	0	0	1	0	0	0	12409	1348	47	4	887	4	PPP2R2D	10	133761176	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	9672109	133761176	1773571	53	8370											
MYOD1	4654	broad.mit.edu	37	chr11	17741344	17741344	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatatggagctactgtcGccaccgctccgcgacgtaga	9	7	12	13	5	0	1	0	0	0	1	2	4	1	3	3	2	2	3	3	2	3	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr11:17741344G>A	uc001mni.2	+	1	235	c.15G>A	c.(13-15)TCG>TCA	p.S5S		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	5					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						AGCTACTGTCGCCACCGCTCC	0.667													4	28					0	0	0.000248	0	0		A	17741344	A	A	17741344	2	1	10	1	0	0	0	0	0	0	0	1	10106	1074	38	1		1	MYOD1	11	17741344	Silent	SNP	G	TCGA-BR-4255-01A-01D-1126-08		17741344	117265172	54	8371											
CD44	960	broad.mit.edu	37	chr11	35243229	35243229	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcatcttggcatccctcttGgccttggctttgattcttgc	4	17	8	12	0	4	1	1	1	3	0	5	1	5	1	2	3	1	2	2	3	0	6			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr11:35243229G>A	uc001mvu.2	+	17	2408	c.1974G>A	c.(1972-1974)TTG>TTA	p.L658L	CD44_uc001mvv.2_Silent_p.L615L|CD44_uc001mvw.2_Silent_p.L409L|CD44_uc001mvx.2_Silent_p.L277L|CD44_uc001mvy.2_Intron|CD44_uc001mwc.3_Silent_p.L345L|CD44_uc010rer.1_Silent_p.L256L|CD44_uc009ykh.2_RNA	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	658	Helical; (Potential).				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	all_cancers(35;0.212)|all_lung(20;0.0874)|all_epithelial(35;0.112)	all_hematologic(20;0.107)	STAD - Stomach adenocarcinoma(6;0.00731)		Hyaluronidase(DB00070)	CATCCCTCTTGGCCTTGGCTT	0.428													8	108					0	0	0.006214	0	0		A	35243229	A	A	35243229	2	1	10	1	0	0	0	0	0	0	0	1	3020	1339	47	4		4	CD44	11	35243229	Silent	SNP	G	TCGA-BR-4255-01A-01D-1126-08	17501885	35243229	99763287	55	8372											
C2CD3	26005	broad.mit.edu	37	chr11	73789208	73789208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctccccaagtctggccaggtCcacataggctgagccaatcc	9	7	9	16	0	1	1	0	1	1	0	4	1	4	1	6	3	1	1	6	3	3	1			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr11:73789208C>T	uc001ouu.2	-	23	4782	c.4555G>A	c.(4555-4557)GAC>AAC	p.D1519N	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1519						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					CTGGCCAGGTCCACATAGGCT	0.493													7	94					0	0	0.00308	0	0		T	73789208	T	T	73789208	3	4	10	1	0	0	0	0	1	0	0	0	2157	855	30	4	1372	4	C2CD3	11	73789208	Missense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08	38545979	73789208	61217308	56	8373											
CACNA1C	775	broad.mit.edu	37	chr12	2706664	2706664	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attagaaattatccttaaggTaatgcaacctgggcaatgca	15	11	8	7	0	0	1	0	0	0	1	1	1	1	1	2	2	3	4	2	2	7	4			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr12:2706664T>C	uc009zdu.1	+	22	3226	c.2913_splice	c.e22+2	p.K971_splice	CACNA1C_uc009zdv.1_Intron|CACNA1C_uc001qkb.2_Splice_Site_p.K951_splice|CACNA1C_uc001qkc.2_Splice_Site_p.K951_splice|CACNA1C_uc001qke.2_Splice_Site_p.K951_splice|CACNA1C_uc001qkf.2_Splice_Site_p.K951_splice|CACNA1C_uc001qjz.2_Intron|CACNA1C_uc001qkd.2_Intron|CACNA1C_uc001qkg.2_Intron|CACNA1C_uc009zdw.1_Intron|CACNA1C_uc001qkh.2_Intron|CACNA1C_uc001qkl.2_Splice_Site_p.K971_splice|CACNA1C_uc001qkn.2_Splice_Site_p.K951_splice|CACNA1C_uc001qko.2_Splice_Site_p.K971_splice|CACNA1C_uc001qkp.2_Splice_Site_p.K951_splice|CACNA1C_uc001qkr.2_Splice_Site_p.K951_splice|CACNA1C_uc001qku.2_Splice_Site_p.K951_splice|CACNA1C_uc001qkq.2_Intron|CACNA1C_uc001qks.2_Intron|CACNA1C_uc001qkt.2_Intron|CACNA1C_uc001qka.1_Splice_Site_p.K486_splice|CACNA1C_uc001qki.1_Intron|CACNA1C_uc001qkj.1_Intron|CACNA1C_uc001qkk.1_Intron|CACNA1C_uc001qkm.1_Intron	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,						axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	ATCCTTAAGGTAATGCAACCT	0.388													6	35					0	0	0.001984	0	0		C	2706664	C	C	2706664	5	2	10	1	0	0	0	0	0	0	1	0	2543	1652	57	3	3109	3	CACNA1C	12	2706664	Splice_Site	SNP	T	TCGA-BR-4255-01A-01D-1126-08		2706664	131145231	57	8374											
VWF	7450	broad.mit.edu	37	chr12	6122735	6122735	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttcaccacgttggagtcGcctgctgggcctgccaagat	7	9	12	13	2	1	1	1	0	0	1	2	2	1	2	4	2	3	3	4	2	1	2			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr12:6122735G>A	uc001qnn.1	-	32	5782	c.5532C>T	c.(5530-5532)GGC>GGT	p.G1844G	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1844	VWFA 3; main binding site for collagens type I and III.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CGTTGGAGTCGCCTGCTGGGC	0.522													13	60					0	0	0.001855	0	0		A	6122735	A	A	6122735	2	1	10	1	0	0	0	0	0	0	0	1	17272	1074	38	1		1	VWF	12	6122735	Silent	SNP	G	TCGA-BR-4255-01A-01D-1126-08	3416071	6122735	127729160	58	8375											
SETDB2	83852	broad.mit.edu	37	chr13	50050758	50050758	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgaacttgaagggagaaaAccctctgcagctgccaatca	14	7	9	11	0	2	3	1	2	1	1	2	4	2	3	2	1	5	2	2	1	5	1			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr13:50050758A>C	uc001vcz.2	+	7	1394	c.488A>C	c.(487-489)AAC>ACC	p.N163T	SETDB2_uc010adg.2_Missense_Mutation_p.N139T|SETDB2_uc001vcy.3_Missense_Mutation_p.N151T|SETDB2_uc010adh.2_Missense_Mutation_p.N151T|SETDB2_uc001vda.2_Missense_Mutation_p.N151T	NM_031915	NP_114121	Q96T68	SETB2_HUMAN	SET domain, bifurcated 2 isoform a	163	MBD.				cell division|chromosome segregation|heart looping|left/right axis specification|mitosis|negative regulation of transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone methyltransferase activity (H3-K9 specific)|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;0.000408)|Breast(56;0.00131)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.1e-09)		AAGGGAGAAAACCCTCTGCAG	0.423													7	81					0	0	0.007413	0	0		C	50050758	C	C	50050758	3	2	10	1	0	0	0	0	1	0	0	0	14164	43	2	5	510	5	SETDB2	13	50050758	Missense_Mutation	SNP	A	TCGA-BR-4255-01A-01D-1126-08		50050758	65119120	59	8376											
SCFD1	23256	broad.mit.edu	37	chr14	31191756	31191756	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatatcagaatcttgttgaCtacataaaggtacattttat	15	15	6	5	0	2	2	1	1	1	1	2	3	2	2	0	1	2	2	0	1	8	8			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr14:31191756C>T	uc001wqm.1	+	23	1851	c.1827C>T	c.(1825-1827)GAC>GAT	p.D609D	SCFD1_uc001wqn.1_Silent_p.D542D|SCFD1_uc010tpg.1_Silent_p.D550D|SCFD1_uc010tph.1_Silent_p.D424D|SCFD1_uc010amf.1_Silent_p.D424D|SCFD1_uc010tpi.1_Silent_p.D517D|SCFD1_uc010ame.1_Missense_Mutation_p.T531I	NM_016106	NP_057190	Q8WVM8	SCFD1_HUMAN	vesicle transport-related protein isoform a	609					post-Golgi vesicle-mediated transport|protein transport|regulation of ER to Golgi vesicle-mediated transport|response to toxin|retrograde vesicle-mediated transport, Golgi to ER|vesicle docking involved in exocytosis	cis-Golgi network|endoplasmic reticulum membrane|Golgi cisterna membrane|Golgi-associated vesicle|plasma membrane	syntaxin-5 binding				0	Hepatocellular(127;0.0877)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)	GBM - Glioblastoma multiforme(265;0.0181)		ATCTTGTTGACTACATAAAGG	0.328													15	49					0	0	0.00499	0	0		T	31191756	T	T	31191756	2	4	10	1	0	0	0	0	0	0	0	1	13914	564	20	4		4	SCFD1	14	31191756	Silent	SNP	C	TCGA-BR-4255-01A-01D-1126-08		31191756	76157784	60	8377											
C15orf55	256646	broad.mit.edu	37	chr15	34647250	34647250	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcattcaccctcaatttcTggcagatctgctgtccccag	7	13	7	14	0	5	1	3	0	2	1	6	1	6	1	3	1	1	2	3	1	1	2			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr15:34647250T>G	uc001zif.2	+	6	1462	c.1307T>G	c.(1306-1308)CTG>CGG	p.L436R	C15orf55_uc010ucc.1_Missense_Mutation_p.L464R|C15orf55_uc010ucd.1_Missense_Mutation_p.L454R	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	436						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		CCTCAATTTCTGGCAGATCTG	0.478			T	BRD3|BRD4	lethal midline carcinoma								41	95					0	0	0.007835	0	0		G	34647250	G	G	34647250	3	3	10	1	0	0	0	0	1	0	0	0	1806	1580	55	5	1329	5	C15orf55	15	34647250	Missense_Mutation	SNP	T	TCGA-BR-4255-01A-01D-1126-08		34647250	67884142	61	8378											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84566718	84566718	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgaagttacacatcaaaGaagaatgtgtcattcccatc	16	10	6	9	0	2	3	2	1	0	2	4	3	3	3	1	0	2	1	1	0	6	2			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr15:84566718G>T	uc002bjz.3	+	14	1800	c.1576G>T	c.(1576-1578)GAA>TAA	p.E526*	ADAMTSL3_uc010bmt.1_Nonsense_Mutation_p.E526*|ADAMTSL3_uc010bmu.1_Nonsense_Mutation_p.E526*	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	526	TSP type-1 3.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			ACACATCAAAGAAGAATGTGT	0.453													27	66					1.39806e-14	2.37938e-14	0.008361	1	0		T	84566718	T	T	84566718	4	4	10	1	0	0	0	0	0	1	0	0	276	943	33	5	1626	5	ADAMTSL3	15	84566718	Nonsense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	49919468	84566718	17964674	62	8379											
SALL1	6299	broad.mit.edu	37	chr16	51175484	51175484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcccccagaggccccgcCgcacctcgcttcctgggaga	5	6	11	19	3	0	2	0	0	0	2	2	3	1	2	7	2	1	2	7	2	0	2	rs140165636		TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr16:51175484C>T	uc010vgs.1	-	2	680	c.649G>A	c.(649-651)GGC>AGC	p.G217S	SALL1_uc010vgr.1_Missense_Mutation_p.G120S|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	217					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GAGGCCCCGCCGCACCTCGCT	0.592													4	45					0	0	0.000602	0	0		T	51175484	T	T	51175484	3	4	10	1	0	0	0	0	1	0	0	0	13835	652	23	1	3333	1	SALL1	16	51175484	Missense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08		51175484	39179269	63	8380											
SF3B3	23450	broad.mit.edu	37	chr16	70602310	70602310	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcttatcatctttgctgAtgatacctacccccgatggg	8	12	8	13	1	2	2	1	2	1	0	2	3	2	2	4	1	4	2	4	1	3	4			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr16:70602310A>T	uc002ezf.2	+	22	3288	c.3077A>T	c.(3076-3078)GAT>GTT	p.D1026V		NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3	1026					protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				ATCTTTGCTGATGATACCTAC	0.468													4	50					0	0	0.000248	0	0		T	70602310	T	T	70602310	3	4	10	1	0	0	0	0	1	0	0	0	14177	333	12	5	3159	5	SF3B3	16	70602310	Missense_Mutation	SNP	A	TCGA-BR-4255-01A-01D-1126-08	19426826	70602310	19752443	64	8381											
TM4SF5	9032	broad.mit.edu	37	chr17	4675218	4675218	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttcctgacacctcaccAtgtgtacgggaaaatgtgcc	9	10	9	13	1	1	1	1	1	0	0	3	2	3	2	5	1	2	1	5	1	3	2			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr17:4675218A>T	uc002fyw.1	+	1	32	c.1A>T	c.(1-3)ATG>TTG	p.M1L		NM_003963	NP_003954	O14894	T4S5_HUMAN	transmembrane 4 superfamily member 5	1	Cytoplasmic (Potential).					integral to plasma membrane				ovary(1)	1						ACACCTCACCATGTGTACGGG	0.567													15	128					0	0	0.004007	0	0		T	4675218	T	T	4675218	3	4	10	1	0	0	0	0	1	0	0	0	15996	217	8	5	3	5	TM4SF5	17	4675218	Missense_Mutation	SNP	A	TCGA-BR-4255-01A-01D-1126-08		4675218	76519992	65	8382											
TP53	7157	broad.mit.edu	37	chr17	7578208	7578208	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagggcaccaccacactaTgtcgaaaagtgtttctgtca	12	10	8	11	1	2	0	1	0	1	0	3	1	2	0	2	1	0	2	2	1	4	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr17:7578208T>C	uc002gim.2	-	6	835	c.641A>G	c.(640-642)CAT>CGT	p.H214R	TP53_uc002gig.1_Missense_Mutation_p.H214R|TP53_uc002gih.2_Missense_Mutation_p.H214R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H82R|TP53_uc010cng.1_Missense_Mutation_p.H82R|TP53_uc002gii.1_Missense_Mutation_p.H82R|TP53_uc010cnh.1_Missense_Mutation_p.H214R|TP53_uc010cni.1_Missense_Mutation_p.H214R|TP53_uc002gij.2_Missense_Mutation_p.H214R|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.H121R|TP53_uc002gio.2_Missense_Mutation_p.H82R|TP53_uc010vug.1_Missense_Mutation_p.H175R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	214	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		H -> Y (in sporadic cancers; somatic mutation).|H -> D (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> P (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H214R(45)|p.0?(7)|p.H214Y(4)|p.H214Q(4)|p.H214D(3)|p.H214fs*5(2)|p.H214fs*33(2)|p.D208fs*1(1)|p.K164_P219del(1)|p.H214H(1)|p.H214fs*7(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213fs*32(1)|p.T211_S215delTFRHS(1)|p.H214_S215insX(1)|p.R209fs*6(1)|p.D208_V216delDRNTFRHSV(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CACCACACTATGTCGAAAAGT	0.542		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			12	34					0	0	0.001855	0	0		C	7578208	C	C	7578208	3	2	10	1	0	0	0	0	1	0	0	0	16407	1464	51	3	653	3	TP53	17	7578208	Missense_Mutation	SNP	T	TCGA-BR-4255-01A-01D-1126-08	2902990	7578208	73617002	66	8383											
UBTF	7343	broad.mit.edu	37	chr17	42290195	42290195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggacactcacatctggccGcactttgagatacaccttct	9	10	7	15	2	3	1	1	1	2	1	3	3	3	2	3	2	1	1	3	2	1	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr17:42290195G>A	uc002igb.2	-	6	719	c.652C>T	c.(652-654)CGG>TGG	p.R218W	UBTF_uc002igc.2_Missense_Mutation_p.R218W|UBTF_uc010czs.2_Missense_Mutation_p.R218W|UBTF_uc002igd.2_Missense_Mutation_p.R218W|UBTF_uc010czt.2_Missense_Mutation_p.R218W|UBTF_uc002ige.2_Missense_Mutation_p.R218W	NM_014233	NP_055048	P17480	UBF1_HUMAN	upstream binding transcription factor, RNA	218	HMG box 2.				positive regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm	DNA binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		ACATCTGGCCGCACTTTGAGA	0.637													5	111					0	0	0.001168	0	0		A	42290195	A	A	42290195	3	1	10	1	0	0	0	0	1	0	0	0	16935	1086	38	1	1702	1	UBTF	17	42290195	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	34711987	42290195	38905015	67	8384											
SIGLEC7	27036	broad.mit.edu	37	chr19	51645712	51645712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggaaggattactcgctgaCgatgcagagttccgtgaccg	9	8	13	11	5	0	3	0	2	0	1	2	6	1	5	3	2	2	3	3	2	2	2	rs140841032		TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr19:51645712C>T	uc002pvv.1	+	1	155	c.86C>T	c.(85-87)ACG>ATG	p.T29M	SIGLEC7_uc002pvw.1_Missense_Mutation_p.T29M|SIGLEC7_uc010eoq.1_RNA|SIGLEC7_uc010eor.1_Missense_Mutation_p.T29M	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	29	Extracellular (Potential).				cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		TACTCGCTGACGATGCAGAGT	0.493													11	26					0	0	0.000978	0	0		T	51645712	T	T	51645712	3	4	10	1	0	0	0	0	1	0	0	0	14338	536	19	1	88	1	SIGLEC7	19	51645712	Missense_Mutation	SNP	C	TCGA-BR-4255-01A-01D-1126-08		51645712	7483271	68	8385											
PYGB	5834	broad.mit.edu	37	chr20	25252030	25252030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttttcagcgtgtttccttGactcaatggctaccttgggc	5	17	9	10	1	2	1	2	1	0	0	3	1	3	1	2	2	2	2	2	2	2	7			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr20:25252030G>A	uc002wup.2	+	4	545	c.436G>A	c.(436-438)GAC>AAC	p.D146N		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	146					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	GTGTTTCCTTGACTCAATGGC	0.502													25	79					0	0	0.004289	0	0		A	25252030	A	A	25252030	3	1	10	1	0	0	0	0	1	0	0	0	12885	1290	45	4	450	4	PYGB	20	25252030	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08		25252030	37773490	69	8386											
L3MBTL	26013	broad.mit.edu	37	chr20	42169439	42169439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttgtgaggaccaagcacGcctcttcaaagacgaggtaa	13	7	12	9	2	2	2	1	1	1	1	2	4	2	3	2	3	1	3	2	3	3	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr20:42169439G>A	uc010zwh.1	+	21	2358	c.2312G>A	c.(2311-2313)CGC>CAC	p.R771H	L3MBTL_uc002xkl.2_Missense_Mutation_p.R703H|L3MBTL_uc002xkm.2_Missense_Mutation_p.R703H|L3MBTL_uc010ggl.2_Missense_Mutation_p.R708H|L3MBTL_uc002xkn.1_Missense_Mutation_p.R462H|L3MBTL_uc002xko.2_Missense_Mutation_p.R355H|L3MBTL_uc002xkp.2_Missense_Mutation_p.R91H|SGK2_uc002xkq.1_5'UTR	NM_015478	NP_056293	Q9Y468	LMBL1_HUMAN	l(3)mbt-like isoform I	703	SAM.				chromatin modification|hemopoiesis|negative regulation of transcription, DNA-dependent|regulation of megakaryocyte differentiation|regulation of mitosis	chromatin|condensed chromosome|nucleoplasm	identical protein binding|methylated histone residue binding|nucleosomal histone binding|SAM domain binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			GACCAAGCACGCCTCTTCAAA	0.562													10	42					0	0	0.000978	0	0		A	42169439	A	A	42169439	3	1	10	1	0	0	0	0	1	0	0	0	8607	1087	38	1	2178	1	L3MBTL	20	42169439	Missense_Mutation	SNP	G	TCGA-BR-4255-01A-01D-1126-08	16917409	42169439	20856081	70	8387											
ADARB1	104	broad.mit.edu	37	chr21	46596225	46596225	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgactccttcagttccagCggggacctcagcttgtctgc	6	11	11	13	1	3	1	2	1	1	0	5	3	5	2	3	2	3	2	3	2	0	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr21:46596225C>T	uc002zgy.2	+	4	1044	c.609C>T	c.(607-609)AGC>AGT	p.S203S	ADARB1_uc002zgr.2_Silent_p.S203S|ADARB1_uc002zgs.2_RNA|ADARB1_uc002zgw.2_Silent_p.S203S|ADARB1_uc002zgv.2_RNA|ADARB1_uc002zgt.2_Silent_p.S203S|ADARB1_uc010gpx.2_Intron|ADARB1_uc002zgq.2_RNA|ADARB1_uc002zgu.2_RNA|ADARB1_uc011afo.1_Silent_p.S252S	NM_015833	NP_056648	P78563	RED1_HUMAN	RNA-specific adenosine deaminase B1 isoform 2	203					adenosine to inosine editing|mRNA modification|mRNA processing|RNA processing	nucleoplasm|nucleus	double-stranded RNA adenosine deaminase activity|double-stranded RNA adenosine deaminase activity|double-stranded RNA binding|double-stranded RNA binding|metal ion binding|mRNA binding|RNA binding			skin(1)	1				Colorectal(79;0.115)		TCAGTTCCAGCGGGGACCTCA	0.597													4	22					0	0	0.000248	0	0		T	46596225	T	T	46596225	2	4	10	1	0	0	0	0	0	0	0	1	282	767	27	1		1	ADARB1	21	46596225	Silent	SNP	C	TCGA-BR-4255-01A-01D-1126-08		46596225	1533670	71	8388											
SBF1	6305	broad.mit.edu	37	chr22	50893258	50893258	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctctgcgtcctcgggCgcatacatgtaattgtggaa	8	12	10	11	3	1	0	0	0	1	0	3	1	2	1	2	2	3	2	2	2	4	4			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chr22:50893258C>T	uc003blh.2	-	35	4992	c.4797G>A	c.(4795-4797)GCG>GCA	p.A1599A	SBF1_uc003ble.2_Silent_p.A75A|SBF1_uc003blf.2_Silent_p.A75A|SBF1_uc011arx.1_Silent_p.A1237A	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1573	Myotubularin phosphatase.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		CGTCCTCGGGCGCATACATGT	0.652													7	17					0	0	0.001984	0	0		T	50893258	T	T	50893258	2	4	10	1	0	0	0	0	0	0	0	1	13883	755	27	1		1	SBF1	22	50893258	Silent	SNP	C	TCGA-BR-4255-01A-01D-1126-08		50893258	411308	72	8389											
MAGEC1	9947	broad.mit.edu	37	chrX	140996328	140996328	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagggagctcctcactaaAgtttgggtgcaggaacatta	11	9	11	10	0	1	0	1	0	0	0	2	2	2	2	2	3	3	3	2	3	4	3			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chrX:140996328A>C	uc004fbt.2	+	4	3424	c.3138A>C	c.(3136-3138)AAA>AAC	p.K1046N	MAGEC1_uc010nsl.1_Missense_Mutation_p.K113N	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	1046	MAGE.						protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TCCTCACTAAAGTTTGGGTGC	0.552										HNSCC(15;0.026)			17	124					0	0	0.007413	0	0		C	140996328	C	C	140996328	3	2	10	1	0	0	0	0	1	0	0	0	9198	69	3	5	3144	5	MAGEC1	23	140996328	Missense_Mutation	SNP	A	TCGA-BR-4255-01A-01D-1126-08		140996328	14274232	73	8390											
MTM1	4534	broad.mit.edu	37	chrX	149840020	149840020	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctgatcccccaacttcAccttccagtccttcgcaaat	8	13	3	17	1	2	1	1	1	1	0	6	1	5	1	5	0	1	1	5	0	2	4			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chrX:149840020A>C	uc004fef.3	+	15	1840	c.1764A>C	c.(1762-1764)TCA>TCC	p.S588S	MTM1_uc011mxx.1_RNA|MTM1_uc011mxy.1_Silent_p.S551S|MTM1_uc011mxz.1_Silent_p.S473S|MTM1_uc010nte.2_Silent_p.S456S	NM_000252	NP_000243	Q13496	MTM1_HUMAN	myotubularin	588					endosome to lysosome transport|intermediate filament organization|mitochondrion distribution|mitochondrion morphogenesis|phosphatidylinositol dephosphorylation|protein transport|regulation of vacuole organization	filopodium|late endosome|plasma membrane|ruffle	intermediate filament binding|phosphatidylinositol binding|phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCCCAACTTCACCTTCCAGTC	0.522													6	63					0	0	0.001855	0	0		C	149840020	C	C	149840020	2	2	10	1	0	0	0	0	0	0	0	1	9955	146	6	5		5	MTM1	23	149840020	Silent	SNP	A	TCGA-BR-4255-01A-01D-1126-08	8843692	149840020	5430540	74	8391											
PLXNA3	55558	broad.mit.edu	37	chrX	153698807	153698807	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacactgcagaagttcgtggAtgacctctttgagacagtgt	10	11	11	9	1	1	3	0	2	1	2	2	5	1	4	1	1	1	2	1	1	1	2			TCGA-BR-4255-01A-01D-1126-08	TCGA-BR-4255-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5c499388-9598-428d-a9b1-1808ce877345	f818c68d-6465-4ea9-a617-1e95a6b5ad0b	g.chrX:153698807A>C	uc004flm.2	+	30	5182	c.5009A>C	c.(5008-5010)GAT>GCT	p.D1670A		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1670	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AAGTTCGTGGATGACCTCTTT	0.607													5	74					0	0	0.001168	0	0		C	153698807	C	C	153698807	3	2	10	1	0	0	0	0	1	0	0	0	12140	333	12	5	5123	5	PLXNA3	23	153698807	Missense_Mutation	SNP	A	TCGA-BR-4255-01A-01D-1126-08	3858787	153698807	1571753	75	8392											
ATAD3B	83858	broad.mit.edu	37	chr1	1430883	1430883	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccacggcatatgcctccAaggacggggtcctcactgag	9	6	13	13	2	1	1	1	1	0	0	3	2	3	2	4	5	1	1	4	5	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:1430883A>G	uc001afv.2	+	16	1734	c.1633A>G	c.(1633-1635)AAG>GAG	p.K545E	ATAD3B_uc001afx.2_Missense_Mutation_p.K499E|ATAD3B_uc001afy.2_Missense_Mutation_p.K98E	NM_031921	NP_114127	Q5T9A4	ATD3B_HUMAN	AAA-ATPase  TOB3	545							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		ATATGCCTCCAAGGACGGGGT	0.642													12	52					0	0	0.003163	0	0		G	1430883	G	G	1430883	3	3	11	1	0	0	0	0	1	0	0	0	1075	131	5	3	1695	3	ATAD3B	1	1430883	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08		1430883	247819738	1	8393											
NPHP4	261734	broad.mit.edu	37	chr1	5940242	5940242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatcgtttgagatgaccCgagatctggacggtggcaat	9	10	12	10	3	1	3	0	2	1	2	3	6	2	4	2	3	0	2	2	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:5940242C>T	uc001alq.1	-	19	2809	c.2543G>A	c.(2542-2544)CGG>CAG	p.R848Q	NPHP4_uc001als.1_RNA|NPHP4_uc009vlt.1_RNA|NPHP4_uc001alt.1_RNA	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	848					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		TGAGATGACCCGAGATCTGGA	0.522													6	25					0	0	0.001168	0	0		T	5940242	T	T	5940242	3	4	11	1	0	0	0	0	1	0	0	0	10600	652	23	1	1785	1	NPHP4	1	5940242	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4509359	5940242	243310379	2	8394											
TAS1R1	80835	broad.mit.edu	37	chr1	6637105	6637105	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttgagtgtgtgccctgtggGgctgggaccttcctcaacaa	6	12	13	10	0	1	1	1	1	0	0	2	2	2	2	3	3	2	1	3	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:6637105G>A	uc001ant.2	+	5	1569	c.1569G>A	c.(1567-1569)GGG>GGA	p.G523G	TAS1R1_uc001anu.2_Silent_p.G269G|TAS1R1_uc001anv.2_Silent_p.G269G|TAS1R1_uc001anw.2_Intron|ZBTB48_uc009vmc.1_5'Flank|ZBTB48_uc001anx.2_5'Flank|ZBTB48_uc009vmd.1_5'Flank	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	523	Extracellular (Potential).				sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;8.73e-34)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		TGCCCTGTGGGGCTGGGACCT	0.612													3	31					0	0	0.004672	0	0		A	6637105	A	A	6637105	2	1	11	1	0	0	0	0	0	0	0	1	15587	1219	43	4		4	TAS1R1	1	6637105	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	696863	6637105	242613516	3	8395											
KLHL21	9903	broad.mit.edu	37	chr1	6659418	6659418	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaggagctgtggtactcGcgggccttcagcatgggcgc	7	7	16	11	3	1	1	1	0	0	1	2	2	1	2	1	4	3	3	1	4	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:6659418G>A	uc001aoa.2	-	2	1168	c.1116C>T	c.(1114-1116)CGC>CGT	p.R372R	KLHL21_uc001anz.1_Silent_p.R372R|KLHL21_uc009vme.2_Silent_p.R5R	NM_014851	NP_055666	Q9UJP4	KLH21_HUMAN	kelch-like 21	372	Kelch 2.				anaphase|cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|polar microtubule				central_nervous_system(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.36e-07)|COAD - Colon adenocarcinoma(227;1.4e-05)|Kidney(185;4.95e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000528)|KIRC - Kidney renal clear cell carcinoma(229;0.000927)|STAD - Stomach adenocarcinoma(132;0.0172)|READ - Rectum adenocarcinoma(331;0.0644)		TGTGGTACTCGCGGGCCTTCA	0.647													5	18					0	0	0.001168	0	0		A	6659418	A	A	6659418	2	1	11	1	0	0	0	0	0	0	0	1	8392	1074	38	1		1	KLHL21	1	6659418	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	22313	6659418	242591203	4	8396											
MTHFR	4524	broad.mit.edu	37	chr1	11856376	11856376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagctgcgtgatgatgaaatCggctcccgcagacaccttct	10	9	10	12	3	1	4	0	3	1	1	3	4	2	4	2	1	2	3	2	1	2	1	rs150847674	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:11856376C>T	uc001atc.1	-	5	851	c.667G>A	c.(667-669)GAT>AAT	p.D223N	MTHFR_uc001atb.1_Missense_Mutation_p.D246N	NM_005957	NP_005948	P42898	MTHR_HUMAN	5,10-methylenetetrahydrofolate reductase	223					blood circulation|folic acid metabolic process	cytosol	methylenetetrahydrofolate reductase (NADPH) activity|protein binding				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)	Benazepril(DB00542)|Cyanocobalamin(DB00115)|Folic Acid(DB00158)|L-Methionine(DB00134)|Menadione(DB00170)|Methotrexate(DB00563)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|Raltitrexed(DB00293)|Riboflavin(DB00140)|S-Adenosylmethionine(DB00118)|Tetrahydrofolic acid(DB00116)	ATGATGAAATCGGCTCCCGCA	0.552													26	227					0	0	0.004656	0	0		T	11856376	T	T	11856376	3	4	11	1	0	0	0	0	1	0	0	0	9949	884	31	1	1335	1	MTHFR	1	11856376	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5196958	11856376	237394245	5	8397											
MFN2	9927	broad.mit.edu	37	chr1	12058853	12058853	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgatgtcaccacagagcTggacagctggattgacaagt	12	10	11	8	0	1	3	1	2	0	1	1	5	1	5	1	2	2	2	1	2	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:12058853T>C	uc001atn.3	+	7	1079	c.626T>C	c.(625-627)CTG>CCG	p.L209P	MFN2_uc009vni.2_Missense_Mutation_p.L209P	NM_014874	NP_055689	O95140	MFN2_HUMAN	mitofusin 2	209	Cytoplasmic (Potential).				blood coagulation|mitochondrial fusion|mitochondrial membrane organization|mitochondrion localization|negative regulation of Ras protein signal transduction|negative regulation of smooth muscle cell proliferation|protein targeting to mitochondrion	cytosol|integral to membrane|intrinsic to mitochondrial outer membrane	GTP binding|GTPase activity|ubiquitin protein ligase binding			ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.25e-06)|COAD - Colon adenocarcinoma(227;0.000302)|BRCA - Breast invasive adenocarcinoma(304;0.000329)|Kidney(185;0.000896)|KIRC - Kidney renal clear cell carcinoma(229;0.00274)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		ACCACAGAGCTGGACAGCTGG	0.522													43	265					0	0	0.01441	0	0		C	12058853	C	C	12058853	3	2	11	1	0	0	0	0	1	0	0	0	9542	1580	55	3	644	3	MFN2	1	12058853	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	202477	12058853	237191768	6	8398											
VPS13D	55187	broad.mit.edu	37	chr1	12371978	12371978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaggtgctgggtccctaGccaggtatgcctttgattat	9	12	12	8	0	0	2	0	1	0	1	1	2	1	2	3	3	3	2	3	3	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:12371978G>A	uc001atv.2	+	29	7072	c.6931G>A	c.(6931-6933)GCC>ACC	p.A2311T	VPS13D_uc001atw.2_Missense_Mutation_p.A2311T|VPS13D_uc001atx.2_Missense_Mutation_p.A1499T|VPS13D_uc001aty.1_Missense_Mutation_p.A49T	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2311					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TGGGTCCCTAGCCAGGTATGC	0.343													5	39					0	0	0.001984	0	0		A	12371978	A	A	12371978	3	1	11	1	0	0	0	0	1	0	0	0	17218	971	34	2	7041	2	VPS13D	1	12371978	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	313125	12371978	236878643	7	8399											
AADACL3	126767	broad.mit.edu	37	chr1	12785289	12785289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggatgcatatggagtggatCcagcccgggttgtggtctgc	6	11	16	8	1	1	0	0	0	1	0	2	3	2	3	2	5	3	2	2	5	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:12785289C>T	uc009vnn.1	+	4	612	c.379C>T	c.(379-381)CCA>TCA	p.P127S	AADACL3_uc001aug.1_Missense_Mutation_p.P57S	NM_001103170	NP_001096640	Q5VUY0	ADCL3_HUMAN	arylacetamide deacetylase-like 3 isoform 1	127							hydrolase activity				0	Ovarian(185;0.249)	Lung NSC(185;8.27e-05)|all_lung(284;9.47e-05)|Renal(390;0.000147)|Colorectal(325;0.000583)|Breast(348;0.000596)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		TGGAGTGGATCCAGCCCGGGT	0.557													4	66					0	0	0.001168	0	0		T	12785289	T	T	12785289	3	4	11	1	0	0	0	0	1	0	0	0	12	855	30	4	397	4	AADACL3	1	12785289	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	413311	12785289	236465332	8	8400											
PRAMEF10	343071	broad.mit.edu	37	chr1	12954532	12954532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaatgcacggccactggaCgctcacgtacaactcacgct	11	6	10	14	4	2	0	2	0	0	0	2	2	2	2	1	3	3	4	1	3	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:12954532C>T	uc001auo.2	-	3	824	c.751G>A	c.(751-753)GTC>ATC	p.V251I		NM_001039361	NP_001034450	O60809	PRA10_HUMAN	PRAME family member 10	251											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GGCCACTGGACGCTCACGTAC	0.458													25	150					0	0	0.004656	0	0		T	12954532	T	T	12954532	3	4	11	1	0	0	0	0	1	0	0	0	12448	536	19	1	681	1	PRAMEF10	1	12954532	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	169243	12954532	236296089	9	8401											
PRDM2	7799	broad.mit.edu	37	chr1	14107072	14107072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagccagatcctgacctcGgtccgggctctggtttccct	4	11	10	16	2	2	2	1	1	1	1	6	2	5	2	5	3	1	2	5	3	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:14107072G>A	uc001avi.2	+	8	3638	c.2782G>A	c.(2782-2784)GGT>AGT	p.G928S	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.G928S|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.G727S|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	928						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		TCCTGACCTCGGTCCGGGCTC	0.532													12	118					0	0	0.013537	0	0		A	14107072	A	A	14107072	3	1	11	1	0	0	0	0	1	0	0	0	12480	1116	39	1	2808	1	PRDM2	1	14107072	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1152540	14107072	235143549	10	8402											
SLC25A34	284723	broad.mit.edu	37	chr1	16064618	16064618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccttggagaccatctggCggcagcaagggctcttgggg	6	8	17	10	1	2	1	0	0	2	1	2	2	2	1	2	6	2	3	2	6	1	2	rs139368754		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:16064618C>T	uc001axb.1	+	3	647	c.475C>T	c.(475-477)CGG>TGG	p.R159W	SLC25A34_uc009vok.1_5'Flank	NM_207348	NP_997231	Q6PIV7	S2534_HUMAN	solute carrier family 25, member 34	159	Solcar 2.				transport	integral to membrane|mitochondrial inner membrane					0		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.56e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GACCATCTGGCGGCAGCAAGG	0.682													6	25					0	0	0.001984	0	0		T	16064618	T	T	16064618	3	4	11	1	0	0	0	0	1	0	0	0	14523	759	27	1	485	1	SLC25A34	1	16064618	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1957546	16064618	233186003	11	8403											
SPEN	23013	broad.mit.edu	37	chr1	16256110	16256110	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttagatgatcaaggaccagaGagagaagacgttaggaaaaa	19	6	12	4	1	1	5	1	1	0	4	1	9	1	7	1	2	0	1	1	2	6	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:16256110G>A	uc001axk.1	+	11	3579	c.3375G>A	c.(3373-3375)GAG>GAA	p.E1125E	SPEN_uc010obp.1_Silent_p.E1084E	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1125					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AAGGACCAGAGAGAGAAGACG	0.398													8	48					0	0	0.004482	0	0		A	16256110	A	A	16256110	2	1	11	1	0	0	0	0	0	0	0	1	15063	933	33	4		4	SPEN	1	16256110	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	191492	16256110	232994511	12	8404											
ARHGEF10L	55160	broad.mit.edu	37	chr1	17983158	17983158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagccccttccacctgctcGctggcctgcaggatgggacc	6	7	11	17	1	0	0	0	0	0	0	2	2	1	2	6	3	3	3	6	3	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:17983158G>A	uc001ban.2	+	25	2974	c.2815G>A	c.(2815-2817)GCT>ACT	p.A939T	ARHGEF10L_uc009vpe.1_Missense_Mutation_p.A900T|ARHGEF10L_uc001bao.2_Missense_Mutation_p.A900T|ARHGEF10L_uc001bap.2_Missense_Mutation_p.A895T|ARHGEF10L_uc001baq.2_Missense_Mutation_p.A700T|ARHGEF10L_uc010ocs.1_Missense_Mutation_p.A712T|ARHGEF10L_uc001bar.2_Missense_Mutation_p.A642T|ARHGEF10L_uc009vpf.2_RNA	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	939					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		CCACCTGCTCGCTGGCCTGCA	0.667													5	18					0	0	0.008291	0	0		A	17983158	A	A	17983158	3	1	11	1	0	0	0	0	1	0	0	0	895	1087	38	1	2909	1	ARHGEF10L	1	17983158	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1727048	17983158	231267463	13	8405											
TAS1R2	80834	broad.mit.edu	37	chr1	19166209	19166209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagtagcccaggctgatggCcaggaggttgagcacagtga	11	6	16	8	0	0	3	0	3	0	0	0	5	0	4	2	4	2	4	2	4	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:19166209C>T	uc001bba.1	-	6	2405	c.2404G>A	c.(2404-2406)GCC>ACC	p.A802T		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	802	Helical; Name=7; (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	AGGCTGATGGCCAGGAGGTTG	0.582													12	34					0	0	0.001855	0	0		T	19166209	T	T	19166209	3	4	11	1	0	0	0	0	1	0	0	0	15588	739	26	2	119	2	TAS1R2	1	19166209	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1183051	19166209	230084412	14	8406											
UBR4	23352	broad.mit.edu	37	chr1	19439226	19439226	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtggaggatgtgtggcCacagcccaggacggataagg	9	7	17	8	1	0	0	0	0	0	0	0	4	0	4	2	7	1	0	2	7	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:19439226C>A	uc001bbi.2	-	78	11597	c.11593G>T	c.(11593-11595)GGC>TGC	p.G3865C	UBR4_uc001bbj.1_3'UTR	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3865					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GATGTGTGGCCACAGCCCAGG	0.592													19	117					1.2476e-16	1.46374e-16	0.00632	1	0		A	19439226	A	A	19439226	3	1	11	1	0	0	0	0	1	0	0	0	16930	594	21	5	4074	5	UBR4	1	19439226	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	273017	19439226	229811395	15	8407											
TMCO4	255104	broad.mit.edu	37	chr1	20072102	20072102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccgtcagaggcagaaacGtgaactcttcaatggctccc	10	8	9	14	2	3	3	2	1	1	2	5	3	5	3	3	2	2	2	3	2	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:20072102G>A	uc001bcn.2	-	10	1042	c.800C>T	c.(799-801)ACG>ATG	p.T267M	TMCO4_uc001bcm.2_Intron|TMCO4_uc001bco.1_Missense_Mutation_p.T267M|TMCO4_uc001bcp.1_Intron|TMCO4_uc009vpn.1_Missense_Mutation_p.T267M|TMCO4_uc001bcq.1_Missense_Mutation_p.T267M	NM_181719	NP_859070	Q5TGY1	TMCO4_HUMAN	transmembrane and coiled-coil domains 4	267						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00708)|COAD - Colon adenocarcinoma(152;2.28e-05)|BRCA - Breast invasive adenocarcinoma(304;5.8e-05)|Kidney(64;0.000367)|GBM - Glioblastoma multiforme(114;0.000377)|KIRC - Kidney renal clear cell carcinoma(64;0.00459)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0862)|Lung(427;0.223)		AGGCAGAAACGTGAACTCTTC	0.572													6	84					0	0	0.008291	0	0		A	20072102	A	A	20072102	3	1	11	1	0	0	0	0	1	0	0	0	16023	1145	40	1	1132	1	TMCO4	1	20072102	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	632876	20072102	229178519	16	8408											
HP1BP3	50809	broad.mit.edu	37	chr1	21091980	21091980	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggccagtgggaggacatcCtccaattttacttgtggttc	9	12	11	9	0	0	0	0	0	0	0	3	2	2	2	3	4	1	1	3	4	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:21091980C>A	uc001bdw.1	-	8	920	c.780G>T	c.(778-780)GAG>GAT	p.E260D	HP1BP3_uc001bdv.1_Missense_Mutation_p.E222D|HP1BP3_uc010odh.1_Missense_Mutation_p.E222D|HP1BP3_uc001bdy.1_Missense_Mutation_p.E260D|HP1BP3_uc001bdz.2_RNA|HP1BP3_uc001bea.2_Missense_Mutation_p.E259D|HP1BP3_uc010odf.1_Translation_Start_Site|HP1BP3_uc010odg.1_Missense_Mutation_p.E108D	NM_016287	NP_057371	Q5SSJ5	HP1B3_HUMAN	HP1-BP74	260	H15 2.				nucleosome assembly	nucleosome|nucleus	DNA binding			central_nervous_system(1)|skin(1)	2		all_lung(284;6.55e-06)|Lung NSC(340;6.59e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.26e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00015)|GBM - Glioblastoma multiforme(114;0.000521)|Kidney(64;0.000529)|STAD - Stomach adenocarcinoma(196;0.00311)|KIRC - Kidney renal clear cell carcinoma(64;0.00687)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.201)		GGAGGACATCCTCCAATTTTA	0.378													11	53					6.40141e-05	6.9606e-05	0.010729	1	0		A	21091980	A	A	21091980	3	1	11	1	0	0	0	0	1	0	0	0	7344	680	24	5	905	5	HP1BP3	1	21091980	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1019878	21091980	228158641	17	8409											
HSPG2	3339	broad.mit.edu	37	chr1	22150185	22150185	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaccagctcctcaccgtcGacttggatggaacctctgcg	7	9	10	15	3	2	1	1	1	1	0	4	4	3	3	4	2	3	1	4	2	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:22150185G>A	uc001bfj.2	-	96	12967	c.12927C>T	c.(12925-12927)GTC>GTT	p.V4309V	LDLRAD2_uc001bfg.1_3'UTR|HSPG2_uc001bfi.2_Silent_p.V326V|HSPG2_uc009vqd.2_Silent_p.V4310V	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	4309	Laminin G-like 3.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CCTCACCGTCGACTTGGATGG	0.647													9	35					0	0	0.001855	0	0		A	22150185	A	A	22150185	2	1	11	1	0	0	0	0	0	0	0	1	7446	1045	37	1		1	HSPG2	1	22150185	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1058205	22150185	227100436	18	8410											
HSPG2	3339	broad.mit.edu	37	chr1	22178102	22178102	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgggcatgggactgcccGggcaccacgcagttcagatc	8	6	13	14	2	1	1	1	0	0	1	2	2	1	2	3	3	1	4	3	3	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:22178102G>A	uc001bfj.2	-	55	7135	c.7095C>T	c.(7093-7095)CCC>CCT	p.P2365P	HSPG2_uc009vqd.2_Silent_p.P2366P	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2365	Ig-like C2-type 9.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GGGACTGCCCGGGCACCACGC	0.657													13	64					0	0	0.001855	0	0		A	22178102	A	A	22178102	2	1	11	1	0	0	0	0	0	0	0	1	7446	1103	39	1		1	HSPG2	1	22178102	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	27917	22178102	227072519	19	8411											
EPHA8	2046	broad.mit.edu	37	chr1	22913053	22913053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cccacagccactccgcagctCcagccgcccaagcctgccac	8	3	7	23	2	0	0	0	0	0	0	2	0	2	0	8	0	5	2	8	0	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:22913053C>T	uc001bfx.1	+	4	1029	c.904C>T	c.(904-906)CCA>TCA	p.P302S	EPHA8_uc001bfw.2_Missense_Mutation_p.P302S	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	302	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CTCCGCAGCTCCAGCCGCCCA	0.667													3	14					0	0	0.001168	0	0		T	22913053	T	T	22913053	3	4	11	1	0	0	0	0	1	0	0	0	5181	855	30	4	918	4	EPHA8	1	22913053	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	734951	22913053	226337568	20	8412											
EPHB2	2048	broad.mit.edu	37	chr1	23191603	23191603	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcagtgacctgctggccCacacccagtacaccttcgag	10	7	8	16	1	1	1	1	1	0	0	2	2	1	1	4	1	2	2	4	1	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:23191603C>A	uc009vqj.1	+	5	1346	c.1201C>A	c.(1201-1203)CAC>AAC	p.H401N	EPHB2_uc001bge.2_Missense_Mutation_p.H401N|EPHB2_uc001bgf.2_Missense_Mutation_p.H401N|EPHB2_uc010odu.1_Missense_Mutation_p.H401N|hsa-mir-4253|MI0015860_5'Flank	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	401	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		CCTGCTGGCCCACACCCAGTA	0.622									Hereditary_Prostate_Cancer				18	61					2.94398e-08	3.35465e-08	0.007413	1	0		A	23191603	A	A	23191603	3	1	11	1	0	0	0	0	1	0	0	0	5183	594	21	5	1219	5	EPHB2	1	23191603	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	278550	23191603	226059018	21	8413											
IL22RA1	58985	broad.mit.edu	37	chr1	24447502	24447502	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaagggagggacatggggtgGccctcgatctggactgagga	10	6	18	7	1	1	1	0	1	1	0	2	6	1	5	1	7	0	0	1	7	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:24447502G>A	uc001biq.1	-	7	1557	c.1518C>T	c.(1516-1518)GGC>GGT	p.G506G	IL22RA1_uc010oeg.1_Silent_p.G438G|IL22RA1_uc009vrb.1_Silent_p.G370G|IL22RA1_uc010oeh.1_3'UTR	NM_021258	NP_067081	Q8N6P7	I22R1_HUMAN	interleukin 22 receptor, alpha 1 precursor	506	Cytoplasmic (Potential).					integral to membrane	interferon receptor activity			skin(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000992)|all_lung(284;0.00138)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;3.84e-24)|Colorectal(126;6.43e-08)|COAD - Colon adenocarcinoma(152;3.51e-06)|GBM - Glioblastoma multiforme(114;5.06e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00911)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.148)		ACATGGGGTGGCCCTCGATCT	0.602													8	44					0	0	0.006214	0	0		A	24447502	A	A	24447502	2	1	11	1	0	0	0	0	0	0	0	1	7689	1190	42	2		2	IL22RA1	1	24447502	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1255899	24447502	224803119	22	8414											
MAN1C1	57134	broad.mit.edu	37	chr1	25944365	25944365	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcagaagttcctcttccTcctcttcctctcgggcctgg	3	12	9	17	2	3	1	0	0	3	1	8	1	7	1	6	2	0	2	6	2	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:25944365T>C	uc001bkm.2	+	1	407	c.77T>C	c.(76-78)CTC>CCC	p.L26P	MAN1C1_uc009vry.1_5'UTR	NM_020379	NP_065112	Q9NR34	MA1C1_HUMAN	mannosidase, alpha, class 1C, member 1	26	Helical; Signal-anchor for type II membrane protein; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(1)	1		Colorectal(325;3.78e-05)|Lung NSC(340;0.000181)|all_lung(284;0.000245)|Renal(390;0.000714)|Ovarian(437;0.00159)|Breast(348;0.0156)|Myeloproliferative disorder(586;0.0257)|all_neural(195;0.0515)|Esophageal squamous(538;0.232)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0574)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.15e-07)|COAD - Colon adenocarcinoma(152;4.31e-06)|STAD - Stomach adenocarcinoma(196;0.00125)|BRCA - Breast invasive adenocarcinoma(304;0.00141)|KIRC - Kidney renal clear cell carcinoma(1967;0.00146)|GBM - Glioblastoma multiforme(114;0.0149)|READ - Rectum adenocarcinoma(331;0.0803)		TTCCTCTTCCTCCTCTTCCTC	0.697													3	4					0	0	0.000602	0	0		C	25944365	C	C	25944365	3	2	11	1	0	0	0	0	1	0	0	0	9231	1551	54	3	79	3	MAN1C1	1	25944365	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1496863	25944365	223306256	23	8415											
STMN1	3925	broad.mit.edu	37	chr1	26230136	26230136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaattgcttcgtttaccttgCgtctttcttctgcagcttct	4	19	7	11	2	4	0	0	0	4	0	5	1	4	0	1	0	5	4	1	0	2	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:26230136C>T	uc001bkz.2	-	3	546	c.182G>A	c.(181-183)CGC>CAC	p.R61H	STMN1_uc010oev.1_Missense_Mutation_p.R61H|STMN1_uc001bla.2_Missense_Mutation_p.R61H|STMN1_uc001blb.2_Missense_Mutation_p.R61H|STMN1_uc001blc.2_Missense_Mutation_p.R61H	NM_203401	NP_981946	P16949	STMN1_HUMAN	stathmin 1 isoform a	61	Potential.				cell differentiation|intracellular signal transduction|microtubule depolymerization|mitotic spindle organization|nervous system development|response to virus	cytoplasm|microtubule	signal transducer activity|tubulin binding				0		Colorectal(325;3.46e-05)|Lung NSC(340;0.000163)|all_lung(284;0.000234)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000946)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.013)|READ - Rectum adenocarcinoma(331;0.0649)		GTTTACCTTGCGTCTTTCTTC	0.373													33	185					0	0	0.004289	0	0		T	26230136	T	T	26230136	3	4	11	1	0	0	0	0	1	0	0	0	15333	768	27	1	430	1	STMN1	1	26230136	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	285771	26230136	223020485	24	8416											
PAFAH2	5051	broad.mit.edu	37	chr1	26303254	26303254	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagccacacggctcatgTcaatgttgccctgaggaaag	11	8	10	12	1	3	1	3	1	0	0	3	2	3	2	2	2	2	2	2	2	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:26303254T>C	uc001bld.3	-	8	857	c.677A>G	c.(676-678)GAC>GGC	p.D226G	PAFAH2_uc001ble.3_Missense_Mutation_p.D226G	NM_000437	NP_000428	Q99487	PAFA2_HUMAN	platelet-activating factor acetylhydrolase 2	226					lipid catabolic process	cytoplasm	1-alkyl-2-acetylglycerophosphocholine esterase activity|phospholipid binding			ovary(2)	2		Colorectal(325;3.47e-05)|Lung NSC(340;6.23e-05)|all_lung(284;9.48e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.84e-25)|Colorectal(126;3.57e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00155)|GBM - Glioblastoma multiforme(114;0.00717)|READ - Rectum adenocarcinoma(331;0.0649)		ACGGCTCATGTCAATGTTGCC	0.483													6	28					0	0	0.004482	0	0		C	26303254	C	C	26303254	3	2	11	1	0	0	0	0	1	0	0	0	11406	1667	58	3	517	3	PAFAH2	1	26303254	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	73118	26303254	222947367	25	8417											
GPATCH3	63906	broad.mit.edu	37	chr1	27224070	27224070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcaactccaaaaagacccGcaggggagtccccacattcc	13	5	8	15	1	1	1	1	0	0	1	4	3	4	2	5	2	1	1	5	2	3	1	rs144011521	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:27224070G>A	uc001bne.2	-	2	627	c.598C>T	c.(598-600)CGG>TGG	p.R200W	GPATCH3_uc009vsp.1_Missense_Mutation_p.R11W	NM_022078	NP_071361	Q96I76	GPTC3_HUMAN	G patch domain containing 3	200						intracellular	nucleic acid binding				0		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.97e-51)|OV - Ovarian serous cystadenocarcinoma(117;9.55e-30)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|STAD - Stomach adenocarcinoma(196;0.000595)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|READ - Rectum adenocarcinoma(331;0.0419)		AAAAAGACCCGCAGGGGAGTC	0.622													7	41					0	0	0.00308	0	0		A	27224070	A	A	27224070	3	1	11	1	0	0	0	0	1	0	0	0	6607	1086	38	1	1003	1	GPATCH3	1	27224070	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	920816	27224070	222026551	26	8418											
PPP1R8	5511	broad.mit.edu	37	chr1	28176658	28176658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggaatcagggagcaggCgcatgcagaactttgccttc	10	8	14	9	1	1	1	1	0	0	1	2	4	1	4	1	4	4	3	1	4	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:28176658C>T	uc001bov.1	+	7	811	c.757C>T	c.(757-759)CGC>TGC	p.R253C	PPP1R8_uc001bow.1_Missense_Mutation_p.R111C|PPP1R8_uc001box.1_Missense_Mutation_p.R29C|PPP1R8_uc009vtc.1_RNA|PPP1R8_uc009vtd.1_RNA	NM_014110	NP_054829	Q12972	PP1R8_HUMAN	protein phosphatase 1 regulatory inhibitor	253					mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|RNA splicing|transcription, DNA-dependent	cytoplasm|nuclear speck|spliceosomal complex	DNA binding|endonuclease activity|protein binding|protein serine/threonine phosphatase inhibitor activity|ribonuclease E activity|RNA binding				0		Colorectal(325;3.46e-05)|all_lung(284;0.000129)|Lung NSC(340;0.000259)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;2.76e-24)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00248)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0649)		AGGGAGCAGGCGCATGCAGAA	0.607													35	142					0	0	0.005524	0	0		T	28176658	T	T	28176658	3	4	11	1	0	0	0	0	1	0	0	0	12399	768	27	1	783	1	PPP1R8	1	28176658	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	952588	28176658	221073963	27	8419											
TSSK3	81629	broad.mit.edu	37	chr1	32829237	32829237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgggagctccaaatcgtcCgtaccctggaccacaagaac	11	6	9	15	3	0	1	0	0	0	1	4	3	2	3	4	2	3	2	4	2	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:32829237C>T	uc001bvf.2	+	2	628	c.187C>T	c.(187-189)CGT>TGT	p.R63C	uc001bve.1_5'Flank	NM_052841	NP_443073	Q96PN8	TSSK3_HUMAN	testis-specific serine kinase 3	63	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.R63G(1)		stomach(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.17)|Breast(348;0.212)				CCAAATCGTCCGTACCCTGGA	0.557													12	38					0	0	0.010729	0	0		T	32829237	T	T	32829237	3	4	11	1	0	0	0	0	1	0	0	0	16696	652	23	1	193	1	TSSK3	1	32829237	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4652579	32829237	216421384	28	8420											
PHC2	1912	broad.mit.edu	37	chr1	33836036	33836036	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actcaccatctgtgccctcaGatacatctgtgcttggcttg	7	13	8	13	0	4	1	2	0	2	1	4	1	4	1	2	1	3	2	2	1	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:33836036G>A	uc001bxg.1	-	4	616	c.562C>T	c.(562-564)CTG>TTG	p.L188L	PHC2_uc001bxh.1_Silent_p.L188L|PHC2_uc009vuh.1_Silent_p.L188L|PHC2_uc001bxi.1_Silent_p.L188L	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	188					multicellular organismal development	PcG protein complex	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				TGTGCCCTCAGATACATCTGT	0.607													8	51					0	0	0.008291	0	0		A	33836036	A	A	33836036	2	1	11	1	0	0	0	0	0	0	0	1	11836	933	33	4		4	PHC2	1	33836036	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1006799	33836036	215414585	29	8421											
ZMYM6	9204	broad.mit.edu	37	chr1	35496158	35496158	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgcttacttgagcattgTctggttcttctttaattttg	8	20	7	6	0	3	1	0	1	3	0	3	1	3	1	0	1	3	3	0	1	3	9			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:35496158T>C	uc001byh.2	-	2	311	c.83A>G	c.(82-84)GAC>GGC	p.D28G	ZMYM6_uc001byf.1_Missense_Mutation_p.D28G|ZMYM6_uc010oht.1_Intron|ZMYM6_uc009vup.2_Intron|ZMYM6_uc009vuq.1_Missense_Mutation_p.D28G|ZMYM6_uc009vur.1_5'UTR|ZMYM6_uc001byj.2_Missense_Mutation_p.D28G|ZMYM6_uc001byi.2_Missense_Mutation_p.D28G|ZMYM6_uc001byk.2_Missense_Mutation_p.D28G	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258	28					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				TTGAGCATTGTCTGGTTCTTC	0.343													17	80					0	0	0.006122	0	0		C	35496158	C	C	35496158	3	2	11	1	0	0	0	0	1	0	0	0	17729	1667	58	3	3954	3	ZMYM6	1	35496158	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1660122	35496158	213754463	30	8422											
MAP7D1	55700	broad.mit.edu	37	chr1	36638990	36638990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatgaagcagccatccaacGgtcagtgaagaagacgtggg	13	6	13	9	2	1	4	1	2	0	2	2	4	2	4	2	2	3	1	2	2	5	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:36638990G>A	uc001bzz.2	+	5	866	c.650G>A	c.(649-651)CGG>CAG	p.R217Q	MAP7D1_uc001caa.2_Missense_Mutation_p.R217Q|MAP7D1_uc001cab.2_Missense_Mutation_p.R217Q|MAP7D1_uc001cac.2_5'UTR	NM_018067	NP_060537	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	217	Potential.					cytoplasm|spindle				ovary(3)|breast(2)	5		Myeloproliferative disorder(586;0.0393)				GCCATCCAACGGTCAGTGAAG	0.577													11	67					0	0	0.00245	0	0		A	36638990	A	A	36638990	3	1	11	1	0	0	0	0	1	0	0	0	9285	1116	39	1	668	1	MAP7D1	1	36638990	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1142832	36638990	212611631	31	8423											
MTF1	4520	broad.mit.edu	37	chr1	38281018	38281018	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggtagaggatgatgacccGggaacaggggctgaagagaa	15	4	17	5	1	0	5	0	3	0	2	0	8	0	7	1	5	1	2	1	5	5	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:38281018G>A	uc001cce.1	-	11	2193	c.2052C>T	c.(2050-2052)CCC>CCT	p.P684P		NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	684						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				ATGATGACCCGGGAACAGGGG	0.607													17	68					0	0	0.00499	0	0		A	38281018	A	A	38281018	2	1	11	1	0	0	0	0	0	0	0	1	9940	1103	39	1		1	MTF1	1	38281018	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1642028	38281018	210969603	32	8424											
MACF1	23499	broad.mit.edu	37	chr1	39747967	39747967	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagaaggtgacagctggtTacacaggaatcaaatgcacc	14	6	10	11	0	1	2	1	1	0	1	1	3	1	3	2	3	3	3	2	3	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:39747967T>C	uc010ois.1	+	8	836	c.631T>C	c.(631-633)TAC>CAC	p.Y211H	MACF1_uc001cda.1_Missense_Mutation_p.Y119H|MACF1_uc010oit.1_Missense_Mutation_p.Y174H	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	211	Actin-binding.|CH 2.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GACAGCTGGTTACACAGGAAT	0.463													3	85					0	0	0.001168	0	0		C	39747967	C	C	39747967	3	2	11	1	0	0	0	0	1	0	0	0	9162	1754	61	3	653	3	MACF1	1	39747967	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1466949	39747967	209502654	33	8425											
ZNF691	51058	broad.mit.edu	37	chr1	43317311	43317311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagaccttatgagtgcactGagtgtgggcggaccttcagc	9	9	14	9	1	1	3	1	2	0	1	1	5	1	4	2	2	2	1	2	2	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:43317311G>A	uc001cih.2	+	2	814	c.763G>A	c.(763-765)GAG>AAG	p.E255K	ZNF691_uc001cig.2_Missense_Mutation_p.E228K|ZNF691_uc009vwm.2_Missense_Mutation_p.E248K	NM_015911	NP_056995	Q5VV52	ZN691_HUMAN	zinc finger protein 691	259	C2H2-type 6.					nucleus	DNA binding|zinc ion binding			ovary(2)	2	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGAGTGCACTGAGTGTGGGCG	0.567													8	49					0	0	0.008291	0	0		A	43317311	A	A	43317311	3	1	11	1	0	0	0	0	1	0	0	0	18121	1291	45	4	684	4	ZNF691	1	43317311	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3569344	43317311	205933310	34	8426											
DPH2	1802	broad.mit.edu	37	chr1	44435850	44435850	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacccaagctgtgcctcatGgagtcgatgtttagcagccc	8	9	10	14	1	1	0	1	0	0	0	2	2	1	1	4	1	4	3	4	1	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:44435850G>T	uc001ckz.2	+	1	198	c.3G>T	c.(1-3)ATG>ATT	p.M1I	DPH2_uc001cla.2_Missense_Mutation_p.M1I|DPH2_uc010okk.1_5'UTR|DPH2_uc001clb.2_5'UTR	NM_001384	NP_001375	Q9BQC3	DPH2_HUMAN	diphthamide biosynthesis protein 2 isoform a	1					peptidyl-diphthamide biosynthetic process from peptidyl-histidine	cytoplasm				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				TGTGCCTCATGGAGTCGATGT	0.647													5	30					3.59834e-05	3.92901e-05	0.001168	1	0		T	44435850	T	T	44435850	3	4	11	1	0	0	0	0	1	0	0	0	4726	1348	47	5	5	5	DPH2	1	44435850	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1118539	44435850	204814771	35	8427											
PLK3	1263	broad.mit.edu	37	chr1	45267574	45267574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggggattttgggctggcagCccggttggagcctccggagc	4	8	19	10	2	0	0	0	0	0	0	1	3	1	3	3	7	3	3	3	7	0	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:45267574C>T	uc001cmn.2	+	5	723	c.623C>T	c.(622-624)GCC>GTC	p.A208V	PLK3_uc001cmo.2_RNA	NM_004073	NP_004064	Q9H4B4	PLK3_HUMAN	polo-like kinase 3	208	Protein kinase.					membrane	ATP binding|protein binding|protein serine/threonine kinase activity				0	Acute lymphoblastic leukemia(166;0.155)					GGGCTGGCAGCCCGGTTGGAG	0.468													5	46					0	0	0.000602	0	0		T	45267574	T	T	45267574	3	4	11	1	0	0	0	0	1	0	0	0	12116	739	26	2	641	2	PLK3	1	45267574	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	831724	45267574	203983047	36	8428											
HECTD3	79654	broad.mit.edu	37	chr1	45474833	45474833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacctcggcactccacgatgCggatctcgatgatcgggagg	8	7	13	13	5	1	1	0	1	1	0	5	5	2	3	2	4	1	1	2	4	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:45474833C>T	uc009vxk.2	-	7	1153	c.1055G>A	c.(1054-1056)CGC>CAC	p.R352H	HECTD3_uc001cmy.3_5'Flank|HECTD3_uc010olh.1_Missense_Mutation_p.R68H|UROD_uc010oli.1_5'Flank|UROD_uc001cna.1_5'Flank|UROD_uc001cnb.1_5'Flank	NM_024602	NP_078878	Q5T447	HECD3_HUMAN	HECT domain containing 3	352	DOC.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	ubiquitin-protein ligase activity				0	Acute lymphoblastic leukemia(166;0.155)					CTCCACGATGCGGATCTCGAT	0.562													6	43					0	0	0.006214	0	0		T	45474833	T	T	45474833	3	4	11	1	0	0	0	0	1	0	0	0	7057	768	27	1	1590	1	HECTD3	1	45474833	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	207259	45474833	203775788	37	8429											
ZCCHC11	23318	broad.mit.edu	37	chr1	52891135	52891135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggaaatggggacgcggtgCatgttcccaaggaattggag	10	7	18	6	2	0	0	0	0	0	0	1	4	1	4	1	7	1	2	1	7	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:52891135C>T	uc001ctx.2	-	29	4987	c.4753G>A	c.(4753-4755)GCA>ACA	p.A1585T	ZCCHC11_uc001cty.2_Missense_Mutation_p.A1586T|ZCCHC11_uc001ctz.2_Missense_Mutation_p.A1581T	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	1585	Pro-rich.				miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						GGACGCGGTGCATGTTCCCAA	0.468													9	48					0	0	0.008291	0	0		T	52891135	T	T	52891135	3	4	11	1	0	0	0	0	1	0	0	0	17605	710	25	2	189	2	ZCCHC11	1	52891135	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	7416302	52891135	196359486	38	8430											
C1orf177	163747	broad.mit.edu	37	chr1	55282678	55282678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagaacccagtaggtgtggGccgctacctcaacacctggc	9	6	12	14	1	1	1	1	0	0	1	1	1	1	1	4	3	3	3	4	3	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:55282678G>A	uc001cyb.3	+	9	1121	c.1067G>A	c.(1066-1068)GGC>GAC	p.G356D	C1orf177_uc001cya.3_Missense_Mutation_p.G356D	NM_001110533	NP_001104003	Q3ZCV2	CA177_HUMAN	hypothetical protein LOC163747 isoform 2	356											0						GTAGGTGTGGGCCGCTACCTC	0.577													7	28					0	0	0.00308	0	0		A	55282678	A	A	55282678	3	1	11	1	0	0	0	0	1	0	0	0	2020	1203	42	2	1101	2	C1orf177	1	55282678	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2391543	55282678	193967943	39	8431											
C8A	731	broad.mit.edu	37	chr1	57340695	57340695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggtgacatctgggatcaagCcagctgctccagttctacaa	10	10	10	11	0	3	1	1	1	2	0	4	2	4	2	2	2	4	3	2	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:57340695C>T	uc001cyo.2	+	3	377	c.245C>T	c.(244-246)GCC>GTC	p.A82V		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	82	TSP type-1 1.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						TGGGATCAAGCCAGCTGCTCC	0.483													10	35					0	0	0.010729	0	0		T	57340695	T	T	57340695	3	4	11	1	0	0	0	0	1	0	0	0	2419	739	26	2	255	2	C8A	1	57340695	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2058017	57340695	191909926	40	8432											
CYP2J2	1573	broad.mit.edu	37	chr1	60381679	60381679	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagttttggtccatgtggaTaagggcttctttgattaagg	10	15	12	4	0	1	1	0	1	1	0	2	2	2	2	1	4	0	2	1	4	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:60381679T>C	uc001czq.2	-	2	309	c.304A>G	c.(304-306)ATC>GTC	p.I102V		NM_000775	NP_000766	P51589	CP2J2_HUMAN	cytochrome P450, family 2, subfamily J,	102					epoxygenase P450 pathway|linoleic acid metabolic process|regulation of heart contraction|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	arachidonic acid 11,12-epoxygenase activity|arachidonic acid 14,15-epoxygenase activity|aromatase activity|electron carrier activity|heme binding|linoleic acid epoxygenase activity			ovary(1)	1	all_cancers(7;0.000396)					TCCATGTGGATAAGGGCTTCT	0.423													13	68					0	0	0.001855	0	0		C	60381679	C	C	60381679	3	2	11	1	0	0	0	0	1	0	0	0	4175	1406	49	3	1236	3	CYP2J2	1	60381679	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	3040984	60381679	188868942	41	8433											
DNAJC6	9829	broad.mit.edu	37	chr1	65874367	65874367	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaagacctactctctggTcaaggtttcaatgctcacaa	11	13	7	10	0	4	2	3	1	1	1	5	2	4	2	1	2	2	2	1	2	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:65874367T>C	uc001dcd.1	+	17	2528	c.2364T>C	c.(2362-2364)GGT>GGC	p.G788G	DNAJC6_uc010opc.1_Silent_p.G775G|DNAJC6_uc001dce.1_Silent_p.G845G	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	788					cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						TACTCTCTGGTCAAGGTTTCA	0.373													26	90					0	0	0.007291	0	0		C	65874367	C	C	65874367	2	2	11	1	0	0	0	0	0	0	0	1	4659	1654	58	3		3	DNAJC6	1	65874367	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	5492688	65874367	183376254	42	8434											
LRRC7	57554	broad.mit.edu	37	chr1	70504797	70504797	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacacaatcccgagtacgTgcaacaggccagcaaaaaca	17	4	7	13	2	1	0	1	0	0	0	2	1	2	0	2	1	6	3	2	1	6	1	rs139023629		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:70504797T>C	uc001dep.2	+	19	3206	c.3176T>C	c.(3175-3177)GTG>GCG	p.V1059A	LRRC7_uc009wbg.2_Missense_Mutation_p.V343A|LRRC7_uc001deq.2_Missense_Mutation_p.V300A	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1059						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CCCGAGTACGTGCAACAGGCC	0.448													9	49					0	0	0.004482	0	0		C	70504797	C	C	70504797	3	2	11	1	0	0	0	0	1	0	0	0	9038	1696	59	3	3250	3	LRRC7	1	70504797	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	4630430	70504797	178745824	43	8435											
C1orf173	127254	broad.mit.edu	37	chr1	75097397	75097397	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatttgttccataatcacCtttgtcaaaagaggttctaa	15	14	5	7	0	3	1	2	0	1	1	4	1	4	1	2	1	0	2	2	1	6	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:75097397C>T	uc001dgg.2	-	7	1038	c.819G>A	c.(817-819)AAG>AAA	p.K273K	C1orf173_uc001dgi.3_Silent_p.K67K	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	273										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CCATAATCACCTTTGTCAAAA	0.338													5	55					0	0	0.001168	0	0		T	75097397	T	T	75097397	2	4	11	1	0	0	0	0	0	0	0	1	2017	695	24	4		4	C1orf173	1	75097397	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4592600	75097397	174153224	44	8436											
DNAJB4	11080	broad.mit.edu	37	chr1	78478866	78478866	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaattttctttggaagaCgaatgggtggtggtagagat	11	14	14	2	1	1	3	0	1	1	2	1	6	1	4	0	4	0	1	0	4	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:78478866C>T	uc001dij.2	+	2	502	c.343C>T	c.(343-345)CGA>TGA	p.R115*	DNAJB4_uc010orn.1_Translation_Start_Site	NM_007034	NP_008965	Q9UDY4	DNJB4_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 4	115					protein folding|response to heat|response to unfolded protein	cytoplasm|plasma membrane	heat shock protein binding|unfolded protein binding				0						CTTTGGAAGACGAATGGGTGG	0.438													18	114					0	0	0.008871	0	0		T	78478866	T	T	78478866	4	4	11	1	0	0	0	0	0	1	0	0	4628	528	19	1	349	1	DNAJB4	1	78478866	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3381469	78478866	170771755	45	8437											
ABCA4	24	broad.mit.edu	37	chr1	94578618	94578618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacgagttccaccacaaagCgaatctggaaaaacaaaaca	20	4	6	11	2	1	0	0	0	1	0	2	3	2	1	2	1	3	1	2	1	6	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:94578618C>T	uc001dqh.2	-	2	175	c.71G>A	c.(70-72)CGC>CAC	p.R24H	ABCA4_uc010otn.1_Missense_Mutation_p.R24H	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	24	Helical; (Potential).		R -> H (in STGD1).		phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CACCACAAAGCGAATCTGGAA	0.428													13	129					0	0	0.001855	0	0		T	94578618	T	T	94578618	3	4	11	1	0	0	0	0	1	0	0	0	34	768	27	1	6946	1	ABCA4	1	94578618	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	16099752	94578618	154672003	46	8438											
LPPR4	9890	broad.mit.edu	37	chr1	99771300	99771300	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatgtttcagcacagagaCgccctcaggtctctgacaga	11	9	10	11	1	3	3	2	1	1	2	4	4	3	3	1	1	1	3	1	1	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:99771300C>T	uc001dse.2	+	7	1132	c.1026C>T	c.(1024-1026)GAC>GAT	p.D342D	LPPR4_uc010oue.1_Silent_p.D284D	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	342							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		AGCACAGAGACGCCCTCAGGT	0.453													24	131					0	0	0.004656	0	0		T	99771300	T	T	99771300	2	4	11	1	0	0	0	0	0	0	0	1	8945	535	19	1		1	LPPR4	1	99771300	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5192682	99771300	149479321	47	8439											
WDR47	22911	broad.mit.edu	37	chr1	109538449	109538449	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatatttaattcaccaagctTttgaatggacctataaaatt	16	15	4	6	0	1	1	1	1	0	0	1	2	1	2	2	1	1	1	2	1	8	9			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:109538449T>C	uc001dwj.2	-	8	1820	c.1444A>G	c.(1444-1446)AAG>GAG	p.K482E	WDR47_uc001dwl.2_Missense_Mutation_p.K490E|WDR47_uc001dwi.2_Missense_Mutation_p.K483E|WDR47_uc001dwk.2_Missense_Mutation_p.K454E|WDR47_uc010ovf.1_Missense_Mutation_p.K409E	NM_001142551	NP_001136023	O94967	WDR47_HUMAN	WD repeat domain 47 isoform 3	482										ovary(1)	1		all_lung(203;0.00519)|all_epithelial(167;0.00611)|Lung NSC(277;0.00822)		Colorectal(144;0.0165)|Lung(183;0.0484)|COAD - Colon adenocarcinoma(174;0.128)|Epithelial(280;0.168)|all cancers(265;0.201)|LUSC - Lung squamous cell carcinoma(189;0.244)		TCACCAAGCTTTTGAATGGAC	0.313													21	82					0	0	0.012319	0	0		C	109538449	C	C	109538449	3	2	11	1	0	0	0	0	1	0	0	0	17326	1850	64	3	1347	3	WDR47	1	109538449	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	9767149	109538449	139712172	48	8440											
KCNA3	3738	broad.mit.edu	37	chr1	111216731	111216731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacacgatggcgatgcccCgggccggcccggagctctcg	5	4	16	16	7	1	0	0	0	1	0	2	4	1	2	4	5	2	1	4	5	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:111216731C>T	uc001dzv.1	-	1	925	c.701G>A	c.(700-702)CGG>CAG	p.R234Q		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	234						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGCGATGCCCCGGGCCGGCCC	0.682													4	18					0	0	0.009096	0	0		T	111216731	T	T	111216731	3	4	11	1	0	0	0	0	1	0	0	0	8020	652	23	1	1030	1	KCNA3	1	111216731	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1678282	111216731	138033890	49	8441											
C1orf88	128344	broad.mit.edu	37	chr1	111891167	111891167	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatgcaggcaggtaccaGaaagtaagtcctcagcagga	13	6	11	11	0	2	1	2	0	0	1	3	2	3	2	3	3	3	5	3	3	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:111891167G>T	uc001eaw.2	+	4	368	c.288G>T	c.(286-288)CAG>CAT	p.Q96H	C1orf88_uc001eax.2_Missense_Mutation_p.Q63H|C1orf88_uc009wge.1_Intron|C1orf88_uc001eay.2_Missense_Mutation_p.Q9H	NM_181643	NP_857594	Q8TCI5	CA088_HUMAN	hypothetical protein LOC128344	96										ovary(1)|skin(1)	2		all_cancers(81;3.21e-05)|all_epithelial(167;1.19e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0239)|Colorectal(144;0.0301)|all cancers(265;0.0677)|Epithelial(280;0.0897)|COAD - Colon adenocarcinoma(174;0.116)|LUSC - Lung squamous cell carcinoma(189;0.135)		GCAGGTACCAGAAAGTAAGTC	0.378													54	243					4.32865e-36	5.11532e-36	0.01441	1	0		T	111891167	T	T	111891167	3	4	11	1	0	0	0	0	1	0	0	0	2068	933	33	5	302	5	C1orf88	1	111891167	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	674436	111891167	137359454	50	8442											
DENND2C	163259	broad.mit.edu	37	chr1	115079372	115079372	+	RNA	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcatctgatgtccatgaaGttagggaggccctgggagag	10	8	16	7	0	1	3	0	2	1	1	2	5	2	4	2	4	0	2	2	4	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:115079372G>T	uc001eez.2	-	29		c.4271C>A				NM_198459		Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C											skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGTCCATGAAGTTAGGGAGGC	0.498													12	106					1.3612e-06	1.52189e-06	0.003163	1	0		T	115079372	T	T	115079372	1	4	11	0	1	0	0	0	0	0	0	0	4436	1044	36	5		5	DENND2C	1	115079372	RNA	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3188205	115079372	134171249	51	8443											
IGSF3	3321	broad.mit.edu	37	chr1	117127667	117127667	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggcttggctgagcctcagGcggctgtctggaacagtaag	7	9	16	9	1	2	1	1	1	1	0	2	2	2	2	1	5	2	4	1	5	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:117127667G>A	uc001egr.1	-	9	3153	c.2448C>T	c.(2446-2448)CGC>CGT	p.R816R	IGSF3_uc001egq.1_Silent_p.R836R|IGSF3_uc001egs.1_Silent_p.R489R	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	816	Ig-like C2-type 7.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		TGAGCCTCAGGCGGCTGTCTG	0.567													8	22					0	0	0.004482	0	0		A	117127667	A	A	117127667	2	1	11	1	0	0	0	0	0	0	0	1	7617	1190	42	2		2	IGSF3	1	117127667	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2048295	117127667	132122954	52	8444											
PDE4DIP	9659	broad.mit.edu	37	chr1	145015901	145015901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgggtctgtacctgaggggGtttctcaaatgctctcaagg	7	12	13	9	0	3	1	2	1	3	0	5	1	3	1	1	4	2	3	1	4	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:145015901G>A	uc001elx.3	-	3	522	c.187C>T	c.(187-189)CCC>TCC	p.P63S	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elm.3_5'UTR|PDE4DIP_uc001eln.3_Missense_Mutation_p.P63S|PDE4DIP_uc001elo.2_Missense_Mutation_p.P134S|PDE4DIP_uc001emh.2_Missense_Mutation_p.P134S|uc001emj.2_Intron	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	Error:Variant_position_missing_in_Q5VU43_after_alignment					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		ACCTGAGGGGGTTTCTCAAAT	0.458			T	PDGFRB	MPD								26	609					0	0	0.003271	0	0		A	145015901	A	A	145015901	3	1	11	1	0	0	0	0	1	0	0	0	11662	1261	44	4	8404	4	PDE4DIP	1	145015901	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	27888234	145015901	104234720	53	8445											
C1orf56	54964	broad.mit.edu	37	chr1	151020433	151020433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccgaaatgcagcgggtcaGtttacgctttgggggcccca	8	8	14	11	3	1	0	1	0	0	0	1	2	1	0	3	3	3	3	3	3	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:151020433G>A	uc001ewn.2	+	1	175	c.110G>A	c.(109-111)AGT>AAT	p.S37N		NM_017860	NP_060330	Q9BUN1	CA056_HUMAN	hypothetical protein LOC54964 precursor	37						extracellular region					0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CAGCGGGTCAGTTTACGCTTT	0.667													3	10					0	0	0.004672	0	0		A	151020433	A	A	151020433	3	1	11	1	0	0	0	0	1	0	0	0	2051	1029	36	4	112	4	C1orf56	1	151020433	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	6004532	151020433	98230188	54	8446											
C1orf56	54964	broad.mit.edu	37	chr1	151021230	151021230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtcccagcctgccacccGccagcccctgcccagccctg	5	4	9	23	1	0	0	0	0	0	0	1	0	1	0	9	0	5	1	9	0	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:151021230G>A	uc001ewn.2	+	1	972	c.907G>A	c.(907-909)GCC>ACC	p.A303T		NM_017860	NP_060330	Q9BUN1	CA056_HUMAN	hypothetical protein LOC54964 precursor	303						extracellular region					0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CCTGCCACCCGCCAGCCCCTG	0.577											OREG0013793	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	48					0	0	0.004007	0	0		A	151021230	A	A	151021230	3	1	11	1	0	0	0	0	1	0	0	0	2051	1087	38	1	909	1	C1orf56	1	151021230	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	797	151021230	98229391	55	8447											
TCHH	7062	broad.mit.edu	37	chr1	152081442	152081442	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagctgctgttcctcctcGcggaattttctgtcgcggtc	3	14	10	14	4	2	0	1	0	1	0	7	1	4	1	2	2	2	3	2	2	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:152081442G>A	uc001ezp.2	-	2	4251	c.4251C>T	c.(4249-4251)CGC>CGT	p.R1417R	TCHH_uc009wne.1_Silent_p.R1417R	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1417	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTTCCTCCTCGCGGAATTTTC	0.587													8	53					0	0	0.006214	0	0		A	152081442	A	A	152081442	2	1	11	1	0	0	0	0	0	0	0	1	15725	1074	38	1		1	TCHH	1	152081442	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1060212	152081442	97169179	56	8448											
HRNR	388697	broad.mit.edu	37	chr1	152188317	152188317	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcccaaagactgacgggAgccagacccatgctgaccat	11	5	12	13	1	0	4	0	2	0	2	0	5	0	5	4	2	2	1	4	2	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:152188317A>C	uc001ezt.1	-	3	5864	c.5788T>G	c.(5788-5790)TCC>GCC	p.S1930A		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1930	21.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GACTGACGGGAGCCAGACCCA	0.577													19	638					0	0	0.006122	0	0		C	152188317	C	C	152188317	3	2	11	1	0	0	0	0	1	0	0	0	7375	304	11	5	2768	5	HRNR	1	152188317	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	106875	152188317	97062304	57	8449											
FLG	2312	broad.mit.edu	37	chr1	152282336	152282336	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatgtctttctcctggacTtgaccttgcctgttcctggg	3	16	9	13	0	2	1	0	1	2	0	5	2	4	2	5	2	1	1	5	2	0	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:152282336T>C	uc001ezu.1	-	3	5062	c.5026A>G	c.(5026-5028)AGT>GGT	p.S1676G		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1676	Ser-rich.|Filaggrin 10.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTCCTGGACTTGACCTTGCC	0.562									Ichthyosis				56	369					0	0	0.01441	0	0		C	152282336	C	C	152282336	3	2	11	1	0	0	0	0	1	0	0	0	5936	1609	56	3	7163	3	FLG	1	152282336	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	94019	152282336	96968285	58	8450											
FLG2	388698	broad.mit.edu	37	chr1	152326950	152326950	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacctgagcctggcctgtgTtgtccaaatccagatgtctg	7	12	11	11	0	1	3	0	2	1	1	3	3	3	3	5	1	1	1	5	1	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:152326950T>C	uc001ezw.3	-	3	3385	c.3312A>G	c.(3310-3312)CAA>CAG	p.Q1104Q	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1104	Ser-rich.|Filaggrin 4.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGGCCTGTGTTGTCCAAATC	0.507													54	278					0	0	0.01441	0	0		C	152326950	C	C	152326950	2	2	11	1	0	0	0	0	0	0	0	1	5937	1722	60	3		3	FLG2	1	152326950	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	44614	152326950	96923671	59	8451											
NPR1	4881	broad.mit.edu	37	chr1	153660672	153660672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaccattccagcagatcCgcctgacgttgcgcaaattt	9	9	9	14	3	0	2	0	1	0	1	2	2	2	2	5	1	2	3	5	1	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:153660672C>T	uc001fcs.3	+	15	2813	c.2392C>T	c.(2392-2394)CGC>TGC	p.R798C	NPR1_uc010pdz.1_Missense_Mutation_p.R544C|NPR1_uc010pea.1_Missense_Mutation_p.R276C	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	798	Cytoplasmic (Potential).|Protein kinase.				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	CCAGCAGATCCGCCTGACGTT	0.607													8	31					0	0	0.006214	0	0		T	153660672	T	T	153660672	3	4	11	1	0	0	0	0	1	0	0	0	10613	652	23	1	2450	1	NPR1	1	153660672	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1333722	153660672	95589949	60	8452											
KIAA0907	22889	broad.mit.edu	37	chr1	155896918	155896918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccactaattcccgtgtctggCcctgaacatgaagatataat	12	11	7	11	1	1	3	0	2	1	1	2	3	2	3	3	1	1	0	3	1	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:155896918C>T	uc001fmi.1	-	5	518	c.494G>A	c.(493-495)GGC>GAC	p.G165D	KIAA0907_uc001fmj.1_Missense_Mutation_p.G165D|KIAA0907_uc009wrk.1_Intron|KIAA0907_uc009wrl.1_RNA|KIAA0907_uc001fml.1_Missense_Mutation_p.G165D|KIAA0907_uc001fmm.2_Missense_Mutation_p.G165D|SCARNA4_uc001fmn.1_5'Flank|KIAA0907_uc001fmo.2_Missense_Mutation_p.G165D	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	165											0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			CCGTGTCTGGCCCTGAACATG	0.413													6	71					0	0	0.008291	0	0		T	155896918	T	T	155896918	3	4	11	1	0	0	0	0	1	0	0	0	8215	739	26	2	1390	2	KIAA0907	1	155896918	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2236246	155896918	93353703	61	8453											
RXFP4	339403	broad.mit.edu	37	chr1	155911718	155911718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgcccggagagcccctgGcccaccttcagacaccttcg	6	7	10	18	2	1	2	1	0	0	2	2	3	1	2	6	2	2	0	6	2	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:155911718G>A	uc010pgs.1	+	1	239	c.218G>A	c.(217-219)GGC>GAC	p.G73D		NM_181885	NP_871001	Q8TDU9	RL3R2_HUMAN	relaxin 3 receptor 2	73	Cytoplasmic (Potential).					integral to membrane|plasma membrane	angiotensin type II receptor activity				0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					AGAGCCCCTGGCCCACCTTCA	0.612													6	38					0	0	0.001168	0	0		A	155911718	A	A	155911718	3	1	11	1	0	0	0	0	1	0	0	0	13787	1203	42	2	220	2	RXFP4	1	155911718	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	14800	155911718	93338903	62	8454											
SEMA4A	64218	broad.mit.edu	37	chr1	156146693	156146693	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggggagaaggccccgttaAgcagagagcaacacctccag	12	4	13	12	1	0	2	0	0	0	2	1	4	1	2	4	3	3	3	4	3	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:156146693A>G	uc001fnl.2	+	15	2295	c.2191A>G	c.(2191-2193)AGC>GGC	p.S731G	SEMA4A_uc009wrq.2_Missense_Mutation_p.S731G|SEMA4A_uc001fnm.2_Missense_Mutation_p.S731G|SEMA4A_uc001fnn.2_Missense_Mutation_p.S599G|SEMA4A_uc001fno.2_Missense_Mutation_p.S731G	NM_022367	NP_071762	Q9H3S1	SEM4A_HUMAN	semaphorin B precursor	731	Cytoplasmic (Potential).				axon guidance	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					GGCCCCGTTAAGCAGAGAGCA	0.597													4	45					0	0	0.000602	0	0		G	156146693	G	G	156146693	3	3	11	1	0	0	0	0	1	0	0	0	14056	72	3	3	2245	3	SEMA4A	1	156146693	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	234975	156146693	93103928	63	8455											
CCT3	7203	broad.mit.edu	37	chr1	156288680	156288680	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctttctcctttcttgtaTtccagagaagaatccagcag	9	14	8	10	0	2	2	0	0	2	2	5	3	4	2	3	1	1	3	3	1	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:156288680T>C	uc001fol.1	-	8	958	c.738A>G	c.(736-738)GAA>GAG	p.E246E	CCT3_uc001fom.1_Silent_p.E245E|CCT3_uc001fon.1_Silent_p.E208E|CCT3_uc010phj.1_Silent_p.E200E|CCT3_uc010phk.1_Silent_p.E200E|CCT3_uc010phl.1_Silent_p.E200E	NM_005998	NP_005989	P49368	TCPG_HUMAN	chaperonin containing TCP1, subunit 3 isoform a	246					'de novo' posttranslational protein folding	cytoskeleton|cytosol|plasma membrane	ATP binding|unfolded protein binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					CTTTCTTGTATTCCAGAGAAG	0.433													8	64					0	0	0.004482	0	0		C	156288680	C	C	156288680	2	2	11	1	0	0	0	0	0	0	0	1	2957	1490	52	3		3	CCT3	1	156288680	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	141987	156288680	92961941	64	8456											
FCRL1	115350	broad.mit.edu	37	chr1	157772362	157772362	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgatgtctcctgtgcccaTagcaactgagcagatgagga	10	9	13	9	0	1	4	0	3	1	1	2	5	1	5	2	2	4	2	2	2	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:157772362T>C	uc001frg.2	-	4	525	c.412A>G	c.(412-414)ATG>GTG	p.M138V	FCRL1_uc001frf.2_5'Flank|FCRL1_uc001frh.2_Missense_Mutation_p.M138V|FCRL1_uc001fri.2_Missense_Mutation_p.M138V|FCRL1_uc001frj.2_Intron	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	138	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CCTGTGCCCATAGCAACTGAG	0.547													8	33					0	0	0.00308	0	0		C	157772362	C	C	157772362	3	2	11	1	0	0	0	0	1	0	0	0	5808	1406	49	3	975	3	FCRL1	1	157772362	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1483682	157772362	91478259	65	8457											
KIRREL	55243	broad.mit.edu	37	chr1	158061167	158061167	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcatgggcctggaaggagaActtcttggaggtggggaccc	8	7	18	8	0	1	1	0	0	1	1	1	5	1	4	2	8	1	1	2	8	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:158061167A>C	uc001frn.3	+	11	1696	c.1292A>C	c.(1291-1293)AAC>ACC	p.N431T	KIRREL_uc010pib.1_Missense_Mutation_p.N331T|KIRREL_uc009wsq.2_Missense_Mutation_p.N267T|KIRREL_uc001fro.3_Missense_Mutation_p.N245T	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	431	Ig-like C2-type 5.|Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					TGGAAGGAGAACTTCTTGGAG	0.592													13	70					0	0	0.003163	0	0		C	158061167	C	C	158061167	3	2	11	1	0	0	0	0	1	0	0	0	8340	43	2	5	1334	5	KIRREL	1	158061167	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	288805	158061167	91189454	66	8458											
CD1B	910	broad.mit.edu	37	chr1	158300854	158300854	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcggcccctggaaggcTgtgaagagtggaaaagcaag	12	5	17	7	1	0	2	0	1	0	1	1	5	0	4	2	5	1	2	2	5	5	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:158300854T>C	uc001frx.2	-	2	170	c.62_splice	c.e2-1	p.A21_splice	CD1B_uc001frw.2_Splice_Site|CD1B_uc010pic.1_Intron	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor						antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					CCTGGAAGGCTGTGAAGAGTG	0.448													28	196					0	0	0.009535	0	0		C	158300854	C	C	158300854	5	2	11	1	0	0	0	0	0	0	1	0	2978	1594	55	3	961	3	CD1B	1	158300854	Splice_Site	SNP	T	TCGA-BR-4256-01A-01D-1126-08	239687	158300854	90949767	67	8459											
OR10K1	391109	broad.mit.edu	37	chr1	158435578	158435578	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagatttgctatacctttgTcattgtacccaagatgctgg	9	15	9	8	0	1	2	1	1	0	2	1	3	1	2	2	1	4	3	2	1	4	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:158435578T>G	uc010pij.1	+	1	227	c.227T>G	c.(226-228)GTC>GGC	p.V76G		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	76	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TATACCTTTGTCATTGTACCC	0.468													25	179					0	0	0.003954	0	0		G	158435578	G	G	158435578	3	3	11	1	0	0	0	0	1	0	0	0	10932	1667	58	5	229	5	OR10K1	1	158435578	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	134724	158435578	90815043	68	8460											
OR10Z1	128368	broad.mit.edu	37	chr1	158576839	158576839	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggatctttatcctcagtcTtttggtcctcttggtctcct	4	18	8	11	0	5	0	1	0	4	0	8	2	7	1	3	3	0	0	3	3	1	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:158576839T>A	uc010pio.1	+	1	611	c.611T>A	c.(610-612)CTT>CAT	p.L204H		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					ATCCTCAGTCTTTTGGTCCTC	0.522													20	135					0	0	0.008871	0	0		A	158576839	A	A	158576839	3	1	11	1	0	0	0	0	1	0	0	0	10942	1609	56	5	613	5	OR10Z1	1	158576839	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	141261	158576839	90673782	69	8461											
SPTA1	6708	broad.mit.edu	37	chr1	158626424	158626424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aattgagatctaatagaaagGcctcatgcttctttagaaga	15	12	8	6	0	3	4	1	1	2	4	3	5	3	4	1	1	1	1	1	1	6	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:158626424G>A	uc001fst.1	-	20	3027	c.2828C>T	c.(2827-2829)GCC>GTC	p.A943V		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	943	Spectrin 10.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TAATAGAAAGGCCTCATGCTT	0.383													21	130					0	0	0.014323	0	0		A	158626424	A	A	158626424	3	1	11	1	0	0	0	0	1	0	0	0	15141	1203	42	2	4563	2	SPTA1	1	158626424	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	49585	158626424	90624197	70	8462											
ARHGAP30	257106	broad.mit.edu	37	chr1	161026197	161026197	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaacttgtcatagagcCggtaagtgagcaggggatcc	12	7	13	9	1	1	2	1	1	0	1	2	3	2	3	2	3	4	3	2	3	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:161026197C>T	uc001fxl.2	-	3	672	c.326G>A	c.(325-327)CGG>CAG	p.R109Q	ARHGAP30_uc001fxk.2_Missense_Mutation_p.R109Q|ARHGAP30_uc001fxm.2_Intron|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_5'UTR	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	109	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			GTCATAGAGCCGGTAAGTGAG	0.557													5	33					0	0	0.000602	0	0		T	161026197	T	T	161026197	3	4	11	1	0	0	0	0	1	0	0	0	879	652	23	1	3019	1	ARHGAP30	1	161026197	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2399773	161026197	88224424	71	8463											
PVRL4	81607	broad.mit.edu	37	chr1	161044096	161044096	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcagaacaagagtgcggcGatcacacccaccaccaccac	14	2	9	16	2	1	2	1	0	0	2	1	3	1	2	4	2	2	1	4	2	2	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:161044096G>A	uc001fxo.2	-	6	1367	c.1068C>T	c.(1066-1068)ATC>ATT	p.I356I	PVRL4_uc010pjy.1_Silent_p.I35I|PVRL4_uc010pjz.1_Silent_p.I90I	NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	356	Helical; (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			AGAGTGCGGCGATCACACCCA	0.597													6	35					0	0	0.004482	0	0		A	161044096	A	A	161044096	2	1	11	1	0	0	0	0	0	0	0	1	12867	1048	37	1		1	PVRL4	1	161044096	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	17899	161044096	88206525	72	8464											
PVRL4	81607	broad.mit.edu	37	chr1	161049588	161049588	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgcagtagcgctagttcCtgggcgccttcgcccgcgtc	4	9	14	14	5	0	0	0	0	0	0	3	1	1	0	3	1	2	4	3	1	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:161049588C>A	uc001fxo.2	-	2	530	c.231G>T	c.(229-231)CAG>CAT	p.Q77H		NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	77	Ig-like V-type 1.|Extracellular (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			GCGCTAGTTCCTGGGCGCCTT	0.682													6	37					0.00116845	0.0012528	0.001168	1	0		A	161049588	A	A	161049588	3	1	11	1	0	0	0	0	1	0	0	0	12867	680	24	5	1333	5	PVRL4	1	161049588	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5492	161049588	88201033	73	8465											
USP21	27005	broad.mit.edu	37	chr1	161130992	161130992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccttccacatgatatccGcccggtcctctgagcctttc	5	12	7	17	2	1	2	0	2	1	0	6	2	5	2	6	1	1	1	6	1	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:161130992G>A	uc010pke.1	+	3	939	c.562G>A	c.(562-564)GCC>ACC	p.A188T	USP21_uc010pkc.1_Missense_Mutation_p.A188T|USP21_uc010pkd.1_Missense_Mutation_p.A188T|USP21_uc010pkf.1_Missense_Mutation_p.A188T	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	188					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CATGATATCCGCCCGGTCCTC	0.577													6	46					0	0	0.001168	0	0		A	161130992	A	A	161130992	3	1	11	1	0	0	0	0	1	0	0	0	17079	1087	38	1	564	1	USP21	1	161130992	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	81404	161130992	88119629	74	8466											
B4GALT3	8703	broad.mit.edu	37	chr1	161141819	161141819	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgagccagcaactggtaTgtcagtgagttcatcccatc	9	11	9	12	1	3	1	2	1	1	0	6	2	4	1	2	1	3	3	2	1	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:161141819T>C	uc001fyq.1	-	8	1231	c.969A>G	c.(967-969)ACA>ACG	p.T323T	PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_Intron|B4GALT3_uc001fyo.1_Silent_p.T103T|B4GALT3_uc001fyp.1_RNA|B4GALT3_uc001fyr.1_Silent_p.T323T|B4GALT3_uc001fys.1_Silent_p.T323T	NM_003779	NP_003770	O60512	B4GT3_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	323	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|metal ion binding|N-acetyllactosamine synthase activity				0	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)		N-Acetyl-D-glucosamine(DB00141)	GCAACTGGTATGTCAGTGAGT	0.547													4	52					0	0	0.009096	0	0		C	161141819	C	C	161141819	2	2	11	1	0	0	0	0	0	0	0	1	1273	1451	51	3		3	B4GALT3	1	161141819	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	10827	161141819	88108802	75	8467											
RGS4	5999	broad.mit.edu	37	chr1	163043361	163043361	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccatctaaactaagtccCaaggccaaaaagatctataa	18	8	4	11	0	3	1	1	0	2	1	4	1	4	1	3	1	1	0	3	1	8	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:163043361C>A	uc009wuy.2	+	4	838	c.327C>A	c.(325-327)CCC>CCA	p.P109P	RGS4_uc001gcl.3_Silent_p.P206P|RGS4_uc009wuz.2_Intron|RGS4_uc009wva.2_Silent_p.P91P	NM_005613	NP_005604	P49798	RGS4_HUMAN	regulator of G-protein signaling 4 isoform 2	109	RGS.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity			ovary(2)|central_nervous_system(1)	3						AACTAAGTCCCAAGGCCAAAA	0.299													14	41					3.27435e-08	3.72786e-08	0.00245	1	0		A	163043361	A	A	163043361	2	1	11	1	0	0	0	0	0	0	0	1	13332	581	21	5		5	RGS4	1	163043361	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1901542	163043361	86207260	76	8468											
POGK	57645	broad.mit.edu	37	chr1	166818499	166818499	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcagtttggagtattggAaaaaaacgttcgagactggc	14	9	12	6	2	0	1	0	0	0	1	1	4	0	3	0	3	2	4	0	3	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:166818499A>G	uc001gdt.1	+	5	803	c.683A>G	c.(682-684)GAA>GGA	p.E228G	POGK_uc010ple.1_Missense_Mutation_p.E143G|POGK_uc010plf.1_Missense_Mutation_p.E110G	NM_017542	NP_060012	Q9P215	POGK_HUMAN	pogo transposable element with KRAB domain	228					multicellular organismal development|regulation of transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						GGAGTATTGGAAAAAAACGTT	0.552													8	45					0	0	0.006214	0	0		G	166818499	G	G	166818499	3	3	11	1	0	0	0	0	1	0	0	0	12204	246	9	3	697	3	POGK	1	166818499	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	3775138	166818499	82432122	77	8469											
F5	2153	broad.mit.edu	37	chr1	169500040	169500040	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctactgggttcacagctgagTagtaggcccaagcccgacag	10	7	12	12	1	1	1	1	1	0	0	1	2	1	1	2	2	3	4	2	2	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:169500040T>C	uc001ggg.1	-	15	5337	c.5192A>G	c.(5191-5193)TAC>TGC	p.Y1731C		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1731	F5/8 type A 3.|Plastocyanin-like 5.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	CACAGCTGAGTAGTAGGCCCA	0.483													12	80					0	0	0.00245	0	0		C	169500040	C	C	169500040	3	2	11	1	0	0	0	0	1	0	0	0	5356	1638	57	3	1526	3	F5	1	169500040	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2681541	169500040	79750581	78	8470											
SELL	6402	broad.mit.edu	37	chr1	169676575	169676575	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatggccactgcatgacCagggctggcaagaagcttta	10	8	11	12	0	0	2	0	1	0	1	1	2	1	2	3	3	2	4	3	3	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:169676575C>T	uc001ggk.2	-	4	686	c.488G>A	c.(487-489)TGG>TAG	p.W163*	C1orf112_uc001ggj.2_Intron|SELL_uc010pls.1_Nonsense_Mutation_p.W116*|SELL_uc001ggl.1_Nonsense_Mutation_p.W176*	NM_000655	NP_000646	P14151	LYAM1_HUMAN	selectin L precursor	163	EGF-like.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	integral to plasma membrane	glycosphingolipid binding|heparin binding|protease binding|sugar binding				0	all_hematologic(923;0.208)					ACTGCATGACCAGGGCTGGCA	0.388													8	55					0	0	0.00308	0	0		T	169676575	T	T	169676575	4	4	11	1	0	0	0	0	0	1	0	0	14041	595	21	4	654	4	SELL	1	169676575	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	176535	169676575	79574046	79	8471											
SLC9A11	284525	broad.mit.edu	37	chr1	173506088	173506088	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgttatacttactttccttGgatggagtaatagcattttg	9	18	9	5	0	0	0	0	0	0	0	1	2	1	2	1	2	3	3	1	2	5	9			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:173506088G>A	uc001giz.2	-	14	2071	c.1648C>T	c.(1648-1650)CAA>TAA	p.Q550*	SLC9A11_uc009wwe.2_Nonsense_Mutation_p.Q108*|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	550					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						TACTTTCCTTGGATGGAGTAA	0.318													15	104					0	0	0.003163	0	0		A	173506088	A	A	173506088	4	1	11	1	0	0	0	0	0	1	0	0	14736	1357	47	4	1786	4	SLC9A11	1	173506088	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3829513	173506088	75744533	80	8472											
TNR	7143	broad.mit.edu	37	chr1	175325484	175325484	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggtgctgatggtgccaCtggtgagaggtccattggtg	6	12	17	6	0	0	2	0	2	0	1	1	3	1	2	2	5	2	2	2	5	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:175325484C>G	uc001gkp.1	-	14	3170	c.3089G>C	c.(3088-3090)AGT>ACT	p.S1030T	TNR_uc009wwu.1_Missense_Mutation_p.S1030T	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1030	Fibronectin type-III 8.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GATGGTGCCACTGGTGAGAGG	0.498													15	92					0	0	0.00499	0	0		G	175325484	G	G	175325484	3	3	11	1	0	0	0	0	1	0	0	0	16363	565	20	5	1019	5	TNR	1	175325484	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1819396	175325484	73925137	81	8473											
ASTN1	460	broad.mit.edu	37	chr1	176998870	176998870	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttcagggttcaagaaggcGgaaccagctgtaatgaaagc	13	7	12	9	1	2	2	2	1	0	1	2	3	2	3	2	3	3	3	2	3	5	3	rs138051324		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:176998870G>A	uc001glc.2	-	5	1232	c.1020C>T	c.(1018-1020)TCC>TCT	p.S340S	ASTN1_uc001glb.1_Silent_p.S340S|ASTN1_uc001gld.1_Silent_p.S340S|ASTN1_uc009wwx.1_Silent_p.S340S|ASTN1_uc001gle.3_RNA|MIR488_hsa-mir-488|MI0003123_5'Flank	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	340					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						TCAAGAAGGCGGAACCAGCTG	0.483													4	21					0	0	0.000602	0	0		A	176998870	A	A	176998870	2	1	11	1	0	0	0	0	0	0	0	1	1065	1103	39	1		1	ASTN1	1	176998870	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1673386	176998870	72251751	82	8474											
SEC16B	89866	broad.mit.edu	37	chr1	177937025	177937025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagggacaggccgatgatgtCcatctctccgaaaccctcgg	9	7	12	13	3	1	1	0	1	1	0	5	5	3	2	4	3	1	0	4	3	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:177937025C>T	uc001gli.1	-	2	182	c.92G>A	c.(91-93)GGA>GAA	p.G31E	SEC16B_uc001glk.1_5'UTR|SEC16B_uc009wwz.1_5'UTR|SEC16B_uc001glj.1_Missense_Mutation_p.G31E|SEC16B_uc001gll.3_Missense_Mutation_p.G31E	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	31					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4						CCGATGATGTCCATCTCTCCG	0.602													5	29					0	0	0.00308	0	0		T	177937025	T	T	177937025	3	4	11	1	0	0	0	0	1	0	0	0	14012	855	30	4	3190	4	SEC16B	1	177937025	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	938155	177937025	71313596	83	8475											
RASAL2	9462	broad.mit.edu	37	chr1	178389670	178389670	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcagcaagcgcctgaaaGgctccatcaagaggaccaaa	14	6	9	12	1	3	2	2	1	1	1	4	3	4	3	3	2	2	2	3	2	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:178389670G>T	uc001glr.2	+	3	270	c.145G>T	c.(145-147)GGC>TGC	p.G49C	RASAL2_uc009wxb.2_Missense_Mutation_p.G197C|RASAL2_uc001glq.2_Missense_Mutation_p.G197C	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	49	PH.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						GCGCCTGAAAGGCTCCATCAA	0.478													21	73					3.7963e-18	4.46202e-18	0.00333	1	0		T	178389670	T	T	178389670	3	4	11	1	0	0	0	0	1	0	0	0	13089	1000	35	5	624	5	RASAL2	1	178389670	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	452645	178389670	70860951	84	8476											
NPL	80896	broad.mit.edu	37	chr1	182783988	182783988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttcttcctcaagccatggaCcaaaggtaagtagataggtc	12	10	10	9	0	2	1	1	0	1	1	4	2	3	2	3	3	1	3	3	3	5	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:182783988C>T	uc009wyb.2	+	7	499	c.359C>T	c.(358-360)ACC>ATC	p.T120I	NPL_uc010pnx.1_Missense_Mutation_p.T101I|NPL_uc010pny.1_RNA|NPL_uc001gpo.1_Missense_Mutation_p.T101I|NPL_uc009wyc.2_Missense_Mutation_p.T120I|NPL_uc001gpp.3_Missense_Mutation_p.T120I|NPL_uc001gpq.1_Missense_Mutation_p.T120I	NM_030769	NP_110396	Q9BXD5	NPL_HUMAN	N-acetylneuraminate pyruvate lyase	120					carbohydrate metabolic process	cytoplasm	N-acetylneuraminate lyase activity			ovary(1)|central_nervous_system(1)|skin(1)	3						AAGCCATGGACCAAAGGTAAG	0.423													4	47					0	0	0.000602	0	0		T	182783988	T	T	182783988	3	4	11	1	0	0	0	0	1	0	0	0	10604	507	18	4	377	4	NPL	1	182783988	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4394318	182783988	66466633	85	8477											
LAMC2	3918	broad.mit.edu	37	chr1	183177156	183177156	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcaagaatggcttttacCggcacagagaaagggaccgc	13	6	13	9	2	0	2	0	0	0	2	0	4	0	3	2	3	2	3	2	3	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:183177156C>T	uc001gqa.2	+	2	534	c.220C>T	c.(220-222)CGG>TGG	p.R74W	LAMC2_uc001gpz.3_Missense_Mutation_p.R74W|LAMC2_uc010poa.1_5'UTR	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	74	Laminin EGF-like 1.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						TGGCTTTTACCGGCACAGAGA	0.507													55	325					0	0	0.01441	0	0		T	183177156	T	T	183177156	3	4	11	1	0	0	0	0	1	0	0	0	8631	643	23	1	226	1	LAMC2	1	183177156	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	393168	183177156	66073465	86	8478											
TPR	7175	broad.mit.edu	37	chr1	186305776	186305776	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaagttcagactgaagttgCacagtctgttcctggagatt	11	12	11	7	0	2	3	1	1	1	2	3	5	3	3	1	1	1	4	1	1	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:186305776C>T	uc001grv.2	-	33	4854	c.4557G>A	c.(4555-4557)GTG>GTA	p.V1519V		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1519	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		ACTGAAGTTGCACAGTCTGTT	0.378			T	NTRK1	papillary thyroid								6	48					0	0	0.001984	0	0		T	186305776	T	T	186305776	2	4	11	1	0	0	0	0	0	0	0	1	16442	697	25	2		2	TPR	1	186305776	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3128620	186305776	62944845	87	8479											
KCNT2	343450	broad.mit.edu	37	chr1	196395022	196395022	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atctttaagggctgaaccttGaaggtagataactcgttggg	11	12	12	6	1	1	3	0	2	1	1	2	3	1	3	1	3	2	3	1	3	5	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:196395022G>A	uc001gtd.1	-	11	1141	c.1081C>T	c.(1081-1083)CAA>TAA	p.Q361*	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Nonsense_Mutation_p.Q361*|KCNT2_uc001gtf.1_Nonsense_Mutation_p.Q361*|KCNT2_uc001gtg.1_Intron|KCNT2_uc009wyu.2_Nonsense_Mutation_p.Q361*|KCNT2_uc009wyv.1_Nonsense_Mutation_p.Q336*	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	361	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						GCTGAACCTTGAAGGTAGATA	0.403													19	121					0	0	0.012319	0	0		A	196395022	A	A	196395022	4	1	11	1	0	0	0	0	0	1	0	0	8108	1299	45	4	2398	4	KCNT2	1	196395022	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	10089246	196395022	52855599	88	8480											
CFH	3075	broad.mit.edu	37	chr1	196716354	196716354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagttgaatttgtgtgtaaaCggggatatcgtctttcatca	10	15	10	6	2	3	1	2	1	1	0	4	2	3	2	0	2	1	2	0	2	4	5	rs145347741	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:196716354C>T	uc001gtj.3	+	22	3847	c.3607C>T	c.(3607-3609)CGG>TGG	p.R1203W		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	1203	Sushi 20.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						TGTGTGTAAACGGGGATATCG	0.383													13	94					0	0	0.003163	0	0		T	196716354	T	T	196716354	3	4	11	1	0	0	0	0	1	0	0	0	3286	527	19	1	3711	1	CFH	1	196716354	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	321332	196716354	52534267	89	8481											
CFHR4	10877	broad.mit.edu	37	chr1	196883716	196883716	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acattggactacgaatgctaCgatggatatgaaatcagtta	15	11	9	6	2	1	1	1	1	0	0	1	5	1	3	0	2	3	2	0	2	6	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:196883716C>T	uc001gto.2	+	4	600	c.531C>T	c.(529-531)TAC>TAT	p.Y177Y	CFHR4_uc009wyy.2_Silent_p.Y423Y|CFHR4_uc001gtp.2_Silent_p.Y424Y	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	177	Sushi 3.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						ACGAATGCTACGATGGATATG	0.398													18	80					0	0	0.010504	0	0		T	196883716	T	T	196883716	2	4	11	1	0	0	0	0	0	0	0	1	3290	547	19	1		1	CFHR4	1	196883716	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	167362	196883716	52366905	90	8482											
ZBTB41	360023	broad.mit.edu	37	chr1	197145714	197145714	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaatgtatttttttgtgcTttgtaaggtgatcatgacgg	8	18	11	4	1	1	3	1	3	0	0	1	3	1	3	0	2	1	3	0	2	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:197145714T>C	uc001gtx.1	-	7	1928	c.1859A>G	c.(1858-1860)AAG>AGG	p.K620R	ZBTB41_uc009wyz.1_RNA	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	620	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TTTTTTGTGCTTTGTAAGGTG	0.294													19	91					0	0	0.014323	0	0		C	197145714	C	C	197145714	3	2	11	1	0	0	0	0	1	0	0	0	17568	1609	56	3	886	3	ZBTB41	1	197145714	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	261998	197145714	52104907	91	8483											
DENND1B	163486	broad.mit.edu	37	chr1	197586803	197586803	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttaccagcagtagtccagCaggtgtggaggaagcactgg	10	7	15	9	0	0	0	0	0	0	0	1	2	1	2	2	4	4	5	2	4	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:197586803C>T	uc001guf.3	-	11	1097	c.759G>A	c.(757-759)CTG>CTA	p.L253L	DENND1B_uc010ppe.1_Silent_p.L233L|DENND1B_uc010ppf.1_RNA|DENND1B_uc001gue.3_Silent_p.L223L|DENND1B_uc001gug.3_Silent_p.L52L	NM_144977	NP_659414	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 2	253	DENN.					clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						AGTAGTCCAGCAGGTGTGGAG	0.418													6	64					0	0	0.001984	0	0		T	197586803	T	T	197586803	2	4	11	1	0	0	0	0	0	0	0	1	4433	697	25	2		2	DENND1B	1	197586803	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	441089	197586803	51663818	92	8484											
LHX9	56956	broad.mit.edu	37	chr1	197890758	197890758	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggaagcggaagagcccagcGctgggagtggacatcgtcaa	11	4	16	10	4	1	1	1	0	0	1	2	5	1	5	1	4	3	1	1	4	3	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:197890758G>A	uc001guk.1	+	3	1139	c.702G>A	c.(700-702)GCG>GCA	p.A234A	LHX9_uc001gui.1_Silent_p.A225A|LHX9_uc001guj.1_Silent_p.A240A	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	234					motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						AGAGCCCAGCGCTGGGAGTGG	0.652													4	6					0	0	0.009096	0	0		A	197890758	A	A	197890758	2	1	11	1	0	0	0	0	0	0	0	1	8793	1074	38	1		1	LHX9	1	197890758	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	303955	197890758	51359863	93	8485											
NAV1	89796	broad.mit.edu	37	chr1	201687704	201687704	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcctggtacatgcacggCgaacgggcccactactccca	8	5	10	18	4	0	0	0	0	0	0	1	1	1	0	4	3	4	2	4	3	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:201687704C>T	uc001gwu.2	+	3	1394	c.1047C>T	c.(1045-1047)GGC>GGT	p.G349G		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	349					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						ACATGCACGGCGAACGGGCCC	0.687													6	33					0	0	0.001168	0	0		T	201687704	T	T	201687704	2	4	11	1	0	0	0	0	0	0	0	1	10201	755	27	1		1	NAV1	1	201687704	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3796946	201687704	47562917	94	8486											
PIK3C2B	5287	broad.mit.edu	37	chr1	204408163	204408163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgctccacctggatcttaCgcagggtctcagcattaggg	8	10	11	12	1	2	0	1	0	2	0	4	1	3	1	2	3	3	3	2	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:204408163C>T	uc001haw.2	-	24	3895	c.3416G>A	c.(3415-3417)CGT>CAT	p.R1139H	PIK3C2B_uc010pqv.1_Missense_Mutation_p.R1111H	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	1139	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			CTGGATCTTACGCAGGGTCTC	0.587													4	30					0	0	0.009096	0	0		T	204408163	T	T	204408163	3	4	11	1	0	0	0	0	1	0	0	0	11929	536	19	1	1532	1	PIK3C2B	1	204408163	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2720459	204408163	44842458	95	8487											
DYRK3	8444	broad.mit.edu	37	chr1	206821125	206821125	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggtatgatgatgcagaTggggcctatattcatgtacc	10	11	14	6	0	1	3	1	2	0	1	1	4	1	4	2	4	2	3	2	4	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:206821125T>C	uc001hej.2	+	3	750	c.582T>C	c.(580-582)GAT>GAC	p.D194D	DYRK3_uc001hek.2_Intron|DYRK3_uc001hei.2_Silent_p.D174D	NM_003582	NP_003573	O43781	DYRK3_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	194					erythrocyte differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|central_nervous_system(1)	3	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			ATGATGCAGATGGGGCCTATA	0.418													18	121					0	0	0.012319	0	0		C	206821125	C	C	206821125	2	2	11	1	0	0	0	0	0	0	0	1	4863	1461	51	3		3	DYRK3	1	206821125	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2412962	206821125	42429496	96	8488											
KCNH1	3756	broad.mit.edu	37	chr1	210856804	210856804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctccttcagctcgtgcCtcacctccaggactgtggcc	4	11	9	17	1	2	0	2	0	0	0	6	1	5	1	6	2	2	1	6	2	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:210856804C>T	uc001hib.2	-	11	2959	c.2789G>A	c.(2788-2790)AGG>AAG	p.R930K	KCNH1_uc001hic.2_Missense_Mutation_p.R903K	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	930	Cytoplasmic (Potential).|CAD (involved in subunit assembly) (By similarity).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		CAGCTCGTGCCTCACCTCCAG	0.532													11	34					0	0	0.013537	0	0		T	210856804	T	T	210856804	3	4	11	1	0	0	0	0	1	0	0	0	8047	681	24	4	184	4	KCNH1	1	210856804	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4035679	210856804	38393817	97	8489											
CNIH3	149111	broad.mit.edu	37	chr1	224804897	224804897	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggccttcactttcgctgcGttctgctacatgctgtctct	4	16	8	13	2	3	0	1	0	2	0	5	0	3	0	1	1	4	4	1	1	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:224804897G>A	uc001hos.1	+	1	719	c.21G>A	c.(19-21)GCG>GCA	p.A7A		NM_152495	NP_689708	Q8TBE1	CNIH3_HUMAN	cornichon homolog 3	7	Cytoplasmic (Potential).				intracellular signal transduction|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic shaft|postsynaptic membrane					0	Breast(184;0.218)			GBM - Glioblastoma multiforme(131;0.073)		CTTTCGCTGCGTTCTGCTACA	0.597													35	203					0	0	0.01441	0	0		A	224804897	A	A	224804897	2	1	11	1	0	0	0	0	0	0	0	1	3607	1132	40	1		1	CNIH3	1	224804897	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	13948093	224804897	24445724	98	8490											
LBR	3930	broad.mit.edu	37	chr1	225591108	225591108	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgtcacgagcttctcggTggacaagcaacatggtgaaa	12	8	11	10	3	2	1	1	1	1	0	4	3	2	2	0	3	3	2	0	3	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:225591108T>C	uc001hoy.2	-	14	1888	c.1745A>G	c.(1744-1746)CAC>CGC	p.H582R	LBR_uc001hoz.2_Missense_Mutation_p.H582R	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	582					cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		AGCTTCTCGGTGGACAAGCAA	0.388													16	65					0	0	0.008871	0	0		C	225591108	C	C	225591108	3	2	11	1	0	0	0	0	1	0	0	0	8668	1696	59	3	106	3	LBR	1	225591108	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	786211	225591108	23659513	99	8491											
ACBD3	64746	broad.mit.edu	37	chr1	226353563	226353563	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaaaacactgttacctcCtgtcattccccaacacatca	14	9	3	15	0	2	1	2	0	0	1	4	1	4	1	4	0	3	1	4	0	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:226353563C>A	uc001hpy.2	-	2	472	c.425G>T	c.(424-426)AGG>ATG	p.R142M		NM_022735	NP_073572	Q9H3P7	GCP60_HUMAN	acyl-Coenzyme A binding domain containing 3	142	ACB.				steroid biosynthetic process|transport	Golgi membrane|integral to membrane|mitochondrion	fatty-acyl-CoA binding|protein binding				0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.121)		CTGTTACCTCCTGTCATTCCC	0.398													14	65					0.000308642	0.000333109	0.003163	1	0		A	226353563	A	A	226353563	3	1	11	1	0	0	0	0	1	0	0	0	123	681	24	5	1189	5	ACBD3	1	226353563	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	762455	226353563	22897058	100	8492											
TTC13	79573	broad.mit.edu	37	chr1	231060632	231060632	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgtctctccactgcatcAaccgtgtcttcccattcatt	8	14	4	15	1	4	0	2	0	2	0	7	0	6	0	3	0	2	1	3	0	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:231060632A>G	uc001huf.3	-	14	1707	c.1676T>C	c.(1675-1677)TTG>TCG	p.L559S	TTC13_uc009xfi.2_Missense_Mutation_p.L506S|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Missense_Mutation_p.L506S|TTC13_uc009xfk.1_Missense_Mutation_p.L449S	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	559							binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		CCACTGCATCAACCGTGTCTT	0.428													12	92					0	0	0.013537	0	0		G	231060632	G	G	231060632	3	3	11	1	0	0	0	0	1	0	0	0	16706	131	5	3	946	3	TTC13	1	231060632	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	4707069	231060632	18189989	101	8493											
ERO1LB	56605	broad.mit.edu	37	chr1	236389790	236389790	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaattctttaatattaggTccccaactgggcttacccca	10	14	6	11	0	1	1	0	1	1	0	2	1	2	1	4	2	2	1	4	2	6	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:236389790T>C	uc001hxt.2	-	12	1087	c.831A>G	c.(829-831)GGA>GGG	p.G277G		NM_019891	NP_063944	Q86YB8	ERO1B_HUMAN	endoplasmic reticulum oxidoreductin 1-Lbeta	277					electron transport chain|protein thiol-disulfide exchange|transport	endoplasmic reticulum membrane	flavin adenine dinucleotide binding|oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor|unfolded protein binding				0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.123)|Acute lymphoblastic leukemia(190;0.205)|Prostate(94;0.219)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			TAATATTAGGTCCCCAACTGG	0.363													19	61					0	0	0.010504	0	0		C	236389790	C	C	236389790	2	2	11	1	0	0	0	0	0	0	0	1	5248	1654	58	3		3	ERO1LB	1	236389790	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	5329158	236389790	12860831	102	8494											
HEATR1	55127	broad.mit.edu	37	chr1	236760194	236760194	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgatacgtcctctgcagctAccagcgccgacactatggta	9	9	9	14	3	1	1	0	1	1	0	2	2	2	1	3	1	5	3	3	1	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:236760194A>G	uc001hyd.1	-	6	811	c.686T>C	c.(685-687)GTA>GCA	p.V229A		NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	229					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CTCTGCAGCTACCAGCGCCGA	0.448													7	52					0	0	0.010729	0	0		G	236760194	G	G	236760194	3	3	11	1	0	0	0	0	1	0	0	0	7043	391	14	3	5908	3	HEATR1	1	236760194	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	370404	236760194	12490427	103	8495											
RYR2	6262	broad.mit.edu	37	chr1	237777405	237777405	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttcactatcacactctccgGctctactcagccgtctgtgc	6	13	6	16	2	6	0	3	0	3	0	7	0	6	0	2	1	3	1	2	1	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:237777405G>A	uc001hyl.1	+	37	5097	c.4977G>A	c.(4975-4977)CGG>CGA	p.R1659R		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1659	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			ACACTCTCCGGCTCTACTCAG	0.502													9	44					0	0	0.006214	0	0		A	237777405	A	A	237777405	2	1	11	1	0	0	0	0	0	0	0	1	13794	1190	42	2		2	RYR2	1	237777405	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1017211	237777405	11473216	104	8496											
RGS7	6000	broad.mit.edu	37	chr1	240977013	240977013	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtattctaaatactgttcCgtgtaacttagtagactaag	12	15	7	7	2	1	1	0	0	1	1	3	1	2	1	1	0	2	4	1	0	8	9			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:240977013C>A	uc001hyv.2	-	13	1191	c.861G>T	c.(859-861)ACG>ACT	p.T287T	RGS7_uc010pyh.1_Silent_p.T261T|RGS7_uc010pyj.1_Silent_p.T203T|RGS7_uc001hyu.2_Silent_p.T287T|RGS7_uc009xgn.1_Silent_p.T234T|RGS7_uc001hyw.2_Silent_p.T287T|RGS7_uc001hyt.2_Silent_p.T119T	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	287	G protein gamma.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			AATACTGTTCCGTGTAACTTA	0.433													9	41					1.08611e-07	1.23224e-07	0.010729	1	0		A	240977013	A	A	240977013	2	1	11	1	0	0	0	0	0	0	0	1	13335	639	23	5		5	RGS7	1	240977013	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3199608	240977013	8273608	105	8497											
ZNF669	79862	broad.mit.edu	37	chr1	247264200	247264200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgtattagacaagaacCggaaacagtgaatgctttac	15	11	8	7	1	1	3	1	1	0	2	1	4	1	4	1	1	4	2	1	1	7	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:247264200C>T	uc001ice.2	-	4	1044	c.871G>A	c.(871-873)GGT>AGT	p.G291S	ZNF669_uc001icf.2_Missense_Mutation_p.G205S	NM_024804	NP_079080	Q96BR6	ZN669_HUMAN	zinc finger protein 669 isoform 1	291	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;4.09e-05)|all_epithelial(71;6.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0283)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00427)			AGACAAGAACCGGAAACAGTG	0.363													4	59					0	0	0.009096	0	0		T	247264200	T	T	247264200	3	4	11	1	0	0	0	0	1	0	0	0	18101	652	23	1	527	1	ZNF669	1	247264200	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	6287187	247264200	1986421	106	8498											
OR11L1	391189	broad.mit.edu	37	chr1	248004443	248004443	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacatggagatcatggtcccGtagtagagagtgacaacagc	13	8	12	8	1	1	3	1	1	0	2	2	5	2	3	1	2	3	2	1	2	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr1:248004443G>A	uc001idn.1	-	1	756	c.756C>T	c.(754-756)TAC>TAT	p.Y252Y		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	252	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TCATGGTCCCGTAGTAGAGAG	0.493													14	73					0	0	0.004007	0	0		A	248004443	A	A	248004443	2	1	11	1	0	0	0	0	0	0	0	1	10949	1140	40	1		1	OR11L1	1	248004443	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	740243	248004443	1246178	107	8499											
RNF144A	9781	broad.mit.edu	37	chr2	7170255	7170255	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgtctctgcccctcacAggatgatttccttctgatac	6	15	6	14	0	4	2	1	2	3	0	7	3	5	3	3	1	2	0	3	1	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:7170255A>G	uc002qys.2	+	8	1100	c.658_splice	c.e8-2	p.D220_splice	RNF144A_uc002qyt.2_Splice_Site_p.D69_splice	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144							Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		TGCCCCTCACAGGATGATTTC	0.527													7	39					0	0	0.00308	0	0		G	7170255	G	G	7170255	5	3	11	1	0	0	0	0	0	0	1	0	13470	202	7	3	678	3	RNF144A	2	7170255	Splice_Site	SNP	A	TCGA-BR-4256-01A-01D-1126-08		7170255	236029118	108	8500											
SMC6	79677	broad.mit.edu	37	chr2	17922967	17922967	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaagttttttaggtgaatActctcaattattccaacttc	12	17	5	7	0	1	2	1	2	1	0	4	2	2	2	1	1	2	1	1	1	7	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:17922967A>G	uc002rco.2	-	4	446	c.150T>C	c.(148-150)AGT>AGC	p.S50S	SMC6_uc010exo.2_Silent_p.S50S|SMC6_uc002rcn.2_Silent_p.S50S|SMC6_uc002rcp.1_Silent_p.S50S|SMC6_uc002rcq.2_Silent_p.S50S|SMC6_uc002rcr.1_Silent_p.S50S	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	50					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTAGGTGAATACTCTCAATTA	0.328													15	127					0	0	0.003163	0	0		G	17922967	G	G	17922967	2	3	11	1	0	0	0	0	0	0	0	1	14812	388	14	3		3	SMC6	2	17922967	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	10752712	17922967	225276406	109	8501											
MSGN1	343930	broad.mit.edu	37	chr2	17998310	17998310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtacaccatcaagtacatCggggaactcacagacctcct	14	7	7	13	1	2	1	2	0	0	1	4	2	3	2	3	2	3	2	3	2	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:17998310C>T	uc010yjt.1	+	1	525	c.525C>T	c.(523-525)ATC>ATT	p.I175I		NM_001105569	NP_001099039	A6NI15	MSGN1_HUMAN	mesogenin 1	175	Helix-loop-helix motif.				cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TCAAGTACATCGGGGAACTCA	0.597													8	41					0	0	0.004482	0	0		T	17998310	T	T	17998310	2	4	11	1	0	0	0	0	0	0	0	1	9887	874	31	1		1	MSGN1	2	17998310	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	75343	17998310	225201063	110	8502											
NT5C1B	93034	broad.mit.edu	37	chr2	18764262	18764262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcattgacatactgtagtGcctgcaggttacaaacatga	13	11	9	8	0	0	2	0	2	0	0	0	2	0	2	1	1	6	4	1	1	5	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:18764262G>A	uc002rcz.2	-	7	1177	c.1073C>T	c.(1072-1074)GCA>GTA	p.A358V	NT5C1B_uc002rcy.2_Missense_Mutation_p.A358V|NT5C1B_uc010exr.2_Missense_Mutation_p.A300V|NT5C1B_uc010yju.1_Missense_Mutation_p.A298V|NT5C1B_uc002rda.2_Missense_Mutation_p.A298V|NT5C1B_uc010yjv.1_Missense_Mutation_p.A375V|NT5C1B_uc010yjw.1_Missense_Mutation_p.A341V|NT5C1B_uc010exs.2_Missense_Mutation_p.A360V	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	358					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				ATACTGTAGTGCCTGCAGGTT	0.463													6	38					0	0	0.006214	0	0		A	18764262	A	A	18764262	3	1	11	1	0	0	0	0	1	0	0	0	10705	1333	46	2	775	2	NT5C1B	2	18764262	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	765952	18764262	224435111	111	8503											
SDC1	6382	broad.mit.edu	37	chr2	20403769	20403769	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggcgggctcctgggcCgtggtggctgtggtcgttga	2	10	21	8	3	0	1	0	1	0	0	2	2	1	1	2	7	0	3	2	7	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:20403769C>A	uc002rdo.1	-	3	731	c.432G>T	c.(430-432)ACG>ACT	p.T144T	SDC1_uc002rdp.1_Silent_p.T144T|SDC1_uc010exv.2_Silent_p.T144T|SDC1_uc010exw.1_RNA	NM_002997	NP_002988	P18827	SDC1_HUMAN	syndecan 1 precursor	144	Extracellular (Potential).				lipid metabolic process|lipoprotein metabolic process|myoblast development|striated muscle cell development	cytoplasm|extracellular region|focal adhesion|integral to plasma membrane	cytoskeletal protein binding|protein C-terminus binding			ovary(4)|skin(1)	5	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)			OV - Ovarian serous cystadenocarcinoma(76;0.221)		GCTCCTGGGCCGTGGTGGCTG	0.687													4	39					1.23904e-05	1.35972e-05	0.000602	1	0		A	20403769	A	A	20403769	2	1	11	1	0	0	0	0	0	0	0	1	13976	639	23	5		5	SDC1	2	20403769	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1639507	20403769	222795604	112	8504											
C2orf44	80304	broad.mit.edu	37	chr2	24260710	24260710	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagacagctgataagtttccTtttcactttgtaagttcttt	9	19	6	7	0	2	2	1	1	1	1	3	2	3	2	1	0	1	4	1	0	3	9			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:24260710T>C	uc002rep.2	-	2	1786	c.1655A>G	c.(1654-1656)AAG>AGG	p.K552R	C2orf44_uc010eya.2_Missense_Mutation_p.K552R	NM_025203	NP_079479	Q9H6R7	CB044_HUMAN	hypothetical protein LOC80304 isoform 1	552							protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATAAGTTTCCTTTTCACTTTG	0.473													18	86					0	0	0.00499	0	0		C	24260710	C	C	24260710	3	2	11	1	0	0	0	0	1	0	0	0	2171	1609	56	3	522	3	C2orf44	2	24260710	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	3856941	24260710	218938663	113	8505											
C2orf16	84226	broad.mit.edu	37	chr2	27805111	27805111	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcgcagtccctccgggaTgaggcaagggaggacctctg	8	6	14	13	2	1	1	0	1	1	0	4	4	3	4	4	4	0	2	4	4	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:27805111T>C	uc002rkz.3	+	1	5723	c.5672T>C	c.(5671-5673)ATG>ACG	p.M1891T	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1891	27 X 8 AA approximative tandem repeat of P-S-E-R-S-H-H-S.|Arg-rich.									large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					CCCTCCGGGATGAGGCAAGGG	0.592													17	119					0	0	0.012319	0	0		C	27805111	C	C	27805111	3	2	11	1	0	0	0	0	1	0	0	0	2160	1464	51	3	5674	3	C2orf16	2	27805111	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	3544401	27805111	215394262	114	8506											
VIT	5212	broad.mit.edu	37	chr2	37041497	37041497	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagttcaactcacagcctcGgaactgaattcagagcaggc	13	7	10	11	1	3	3	3	1	0	2	4	4	3	4	1	2	4	2	1	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:37041497G>T	uc002rpl.2	+	16	2296	c.2075G>T	c.(2074-2076)CGG>CTG	p.R692L	VIT_uc002rpm.2_Missense_Mutation_p.R670L|VIT_uc010ezv.2_Missense_Mutation_p.R648L|VIT_uc010ezw.2_Missense_Mutation_p.R649L	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	677						proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				TCACAGCCTCGGAACTGAATT	0.522													5	63					5.9392e-07	6.67458e-07	0.001168	1	0		T	37041497	T	T	37041497	3	4	11	1	0	0	0	0	1	0	0	0	17197	1116	39	5	2258	5	VIT	2	37041497	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	9236386	37041497	206157876	115	8507											
SLC8A1	6546	broad.mit.edu	37	chr2	40657163	40657163	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagactccaagaaacatgtaGaccatggccacaaaatacac	18	5	7	11	0	0	3	0	0	0	3	1	4	1	3	3	1	2	1	3	1	6	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:40657163G>A	uc002rrx.2	-	1	282	c.258C>T	c.(256-258)GTC>GTT	p.V86V	SLC8A1_uc002rry.2_Silent_p.V86V|SLC8A1_uc002rrz.2_Silent_p.V86V|SLC8A1_uc002rsa.2_Silent_p.V86V|SLC8A1_uc002rsd.3_Silent_p.V86V|SLC8A1_uc002rsb.1_Silent_p.V86V|SLC8A1_uc010fan.1_Silent_p.V86V|SLC8A1_uc002rsc.1_Silent_p.V86V	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	86	Helical; (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	GAAACATGTAGACCATGGCCA	0.403													12	112					0	0	0.00245	0	0		A	40657163	A	A	40657163	2	1	11	1	0	0	0	0	0	0	0	1	14731	929	33	4		4	SLC8A1	2	40657163	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3615666	40657163	202542210	116	8508											
PLEKHH2	130271	broad.mit.edu	37	chr2	43958705	43958705	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgacaactctaccttcCgaagccctgcagacagaagc	11	7	7	16	1	2	3	0	1	2	2	3	4	3	3	4	0	5	1	4	0	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:43958705C>T	uc010yny.1	+	19	2990	c.2907C>T	c.(2905-2907)TCC>TCT	p.S969S	PLEKHH2_uc002rtf.3_Silent_p.S968S	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	969	MyTH4.					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CTCTACCTTCCGAAGCCCTGC	0.328													15	73					0	0	0.004007	0	0		T	43958705	T	T	43958705	2	4	11	1	0	0	0	0	0	0	0	1	12096	639	23	1		1	PLEKHH2	2	43958705	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3301542	43958705	199240668	117	8509											
SIX3	6496	broad.mit.edu	37	chr2	45169750	45169750	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcaagctgcaggccatgtgGctcgaggcgcactaccagga	9	5	15	12	2	0	0	0	0	0	0	1	2	0	1	2	5	3	5	2	5	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:45169750G>A	uc002run.1	+	1	714	c.507G>A	c.(505-507)TGG>TGA	p.W169*		NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3	169					visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				AGGCCATGTGGCTCGAGGCGC	0.647													5	7					0	0	0.000602	0	0		A	45169750	A	A	45169750	4	1	11	1	0	0	0	0	0	1	0	0	14373	1212	42	2	509	2	SIX3	2	45169750	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1211045	45169750	198029623	118	8510											
SERTAD2	9792	broad.mit.edu	37	chr2	64863063	64863063	+	Nonstop_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgctgggtccctgggtcttAggacccaacaagcacctcca	8	8	10	15	1	1	0	0	0	1	0	4	1	3	1	4	3	2	2	4	3	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:64863063A>C	uc002sde.1	-	2	1240	c.943T>G	c.(943-945)TAA>GAA	p.*315E		NM_014755	NP_055570	Q14140	SRTD2_HUMAN	SERTA domain containing 2	315					negative regulation of cell growth|transcription, DNA-dependent	cytoplasm|nucleus					0						CCTGGGTCTTAGGACCCAACA	0.552													17	54					0	0	0.00499	0	0		C	64863063	C	C	64863063	4	2	11	1	0	0	0	0	0	0	0	0	14146	433	15	5	5	5	SERTAD2	2	64863063	Nonstop_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	19693313	64863063	178336310	119	8511											
ZNF638	27332	broad.mit.edu	37	chr2	71635329	71635329	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatccacaaaatattggTgaccatatgttgacctgctc	14	11	6	10	0	0	2	0	2	0	0	2	2	1	2	3	1	1	2	3	1	6	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:71635329T>C	uc002shx.2	+	20	3532	c.3213T>C	c.(3211-3213)GGT>GGC	p.G1071G	ZNF638_uc010yqw.1_Silent_p.G650G|ZNF638_uc002shy.2_Silent_p.G1071G|ZNF638_uc002shz.2_Silent_p.G1071G|ZNF638_uc002sia.2_Silent_p.G1071G|ZNF638_uc002sib.1_Silent_p.G1071G|ZNF638_uc010fed.2_RNA|ZNF638_uc002sic.2_Silent_p.G168G	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1071					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AAAATATTGGTGACCATATGT	0.333													6	63					0	0	0.004482	0	0		C	71635329	C	C	71635329	2	2	11	1	0	0	0	0	0	0	0	1	18080	1683	59	3		3	ZNF638	2	71635329	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	6772266	71635329	171564044	120	8512											
NAT8	9027	broad.mit.edu	37	chr2	73868171	73868171	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagaagaaggactggcccgtCttcttgaagcccatgctctg	9	9	11	12	1	3	3	0	1	3	2	3	4	3	4	2	2	2	1	2	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:73868171C>G	uc002sji.1	-	2	752	c.585G>C	c.(583-585)AAG>AAC	p.K195N		NM_003960	NP_003951	Q9UHE5	NAT8_HUMAN	N-acetyltransferase 8	195	N-acetyltransferase.				gastrulation with mouth forming second|response to drug	integral to membrane	N-acetyltransferase activity			ovary(1)	1						ACTGGCCCGTCTTCTTGAAGC	0.542													15	48					0	0	0.00499	0	0		G	73868171	G	G	73868171	3	3	11	1	0	0	0	0	1	0	0	0	10197	912	32	5	102	5	NAT8	2	73868171	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2232842	73868171	169331202	121	8513											
DGUOK	1716	broad.mit.edu	37	chr2	74177850	74177850	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcttcatctacctccaggcTtctccccaggtaacactgaa	9	10	7	15	0	3	1	1	1	2	0	5	1	4	1	4	3	2	3	4	3	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:74177850T>C	uc002sjx.2	+	4	667	c.582T>C	c.(580-582)GCT>GCC	p.A194A	DGUOK_uc002sjy.2_Intron|DGUOK_uc002sjz.2_Intron	NM_080916	NP_550438	Q16854	DGUOK_HUMAN	deoxyguanosine kinase isoform a precursor	194					guanosine metabolic process|purine base metabolic process|purine deoxyribonucleoside metabolic process|purine-containing compound salvage	mitochondrial matrix	ATP binding|deoxyguanosine kinase activity|phosphotransferase activity, alcohol group as acceptor				0						ACCTCCAGGCTTCTCCCCAGG	0.294													40	228					0	0	0.011902	0	0		C	74177850	C	C	74177850	2	2	11	1	0	0	0	0	0	0	0	1	4481	1596	56	3		3	DGUOK	2	74177850	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	309679	74177850	169021523	122	8514											
MOBKL1B	55233	broad.mit.edu	37	chr2	74386330	74386330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcataaaccctgaacagaCgctttagaatagtctttgcc	12	10	9	10	1	1	3	0	1	1	2	1	3	1	3	2	1	3	2	2	1	6	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:74386330C>T	uc002skh.3	-	5	655	c.461G>A	c.(460-462)CGT>CAT	p.R154H		NM_018221	NP_060691	Q9H8S9	MOL1B_HUMAN	Mob4B protein	154					hippo signaling cascade		metal ion binding|protein binding				0						CCTGAACAGACGCTTTAGAAT	0.393													14	75					0	0	0.001855	0	0		T	74386330	T	T	74386330	3	4	11	1	0	0	0	0	1	0	0	0	9701	536	19	1	197	1	MOBKL1B	2	74386330	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	208480	74386330	168813043	123	8515											
CAPG	822	broad.mit.edu	37	chr2	85628441	85628441	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgtgaaatgctgactcCacaccaccttcctgcagccc	8	10	7	16	0	1	2	0	2	1	0	3	2	3	2	5	0	3	2	5	0	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:85628441C>T	uc002spl.1	-	5	613	c.363G>A	c.(361-363)GTG>GTA	p.V121V	CAPG_uc002spm.1_Silent_p.V121V|CAPG_uc010ysq.1_Silent_p.V121V|CAPG_uc010fgi.1_Silent_p.V121V|CAPG_uc010fgj.1_Silent_p.V15V	NM_001747	NP_001738	P40121	CAPG_HUMAN	gelsolin-like capping protein	121					barbed-end actin filament capping|protein complex assembly	F-actin capping protein complex|melanosome|nuclear membrane|nucleolus	actin binding				0						ATGCTGACTCCACACCACCTT	0.602													7	43					0	0	0.00308	0	0		T	85628441	T	T	85628441	2	4	11	1	0	0	0	0	0	0	0	1	2624	581	21	4		4	CAPG	2	85628441	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	11242111	85628441	157570932	124	8516											
TMEM150A	129303	broad.mit.edu	37	chr2	85829045	85829045	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atggagaacgctgacaggctGacaggcaggaggatccaggc	12	4	16	9	1	0	3	0	2	0	1	1	6	1	5	1	6	1	3	1	6	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:85829045G>A	uc002spw.1	-	1	748	c.27C>T	c.(25-27)GTC>GTT	p.V9V	USP39_uc002sqb.2_5'Flank|TMEM150A_uc002spx.1_5'UTR|TMEM150A_uc002spz.1_5'UTR|TMEM150A_uc002sqa.1_5'UTR|TMEM150A_uc002spy.1_Silent_p.V9V	NM_001031738	NP_001026908	Q86TG1	T150A_HUMAN	transmembrane protein 150A isoform 1	9						integral to membrane|plasma membrane					0						CTGACAGGCTGACAGGCAGGA	0.612													30	118					0	0	0.003271	0	0		A	85829045	A	A	85829045	2	1	11	1	0	0	0	0	0	0	0	1	16092	1277	45	4		4	TMEM150A	2	85829045	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	200604	85829045	157370328	125	8517											
SFTPB	6439	broad.mit.edu	37	chr2	85890528	85890528	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattgcctgtggtatggcctGctcgctgctgttcccggcct	2	13	12	14	2	0	0	0	0	0	0	2	0	1	0	4	3	3	5	4	3	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:85890528G>A	uc002sqh.2	-	8	949	c.943C>T	c.(943-945)CAG>TAG	p.Q315*	SFTPB_uc002sqi.2_Nonsense_Mutation_p.Q323*|SFTPB_uc002sqj.2_Nonsense_Mutation_p.Q315*|SFTPB_uc010ysw.1_5'Flank	NM_198843	NP_942140	P07988	PSPB_HUMAN	surfactant, pulmonary-associated protein B	315	Saposin B-type 3.				organ morphogenesis|respiratory gaseous exchange|sphingolipid metabolic process	extracellular space|lysosome				ovary(1)|central_nervous_system(1)	2						GGTATGGCCTGCTCGCTGCTG	0.632													8	23					0	0	0.008291	0	0		A	85890528	A	A	85890528	4	1	11	1	0	0	0	0	0	1	0	0	14216	1328	46	2	214	2	SFTPB	2	85890528	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	61483	85890528	157308845	126	8518											
POLR1A	25885	broad.mit.edu	37	chr2	86305040	86305040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggcagatgactgagcgcGcagcgtagtccactcgcttt	7	9	13	12	4	0	3	0	2	0	1	2	3	1	3	1	1	2	4	1	1	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:86305040G>A	uc002sqs.2	-	11	1701	c.1322C>T	c.(1321-1323)GCG>GTG	p.A441V		NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	441					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						GACTGAGCGCGCAGCGTAGTC	0.353													14	127					0	0	0.004007	0	0		A	86305040	A	A	86305040	3	1	11	1	0	0	0	0	1	0	0	0	12228	1087	38	1	3936	1	POLR1A	2	86305040	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	414512	86305040	156894333	127	8519											
VPS24	51652	broad.mit.edu	37	chr2	86756342	86756342	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtaagtgcagccttaccGagctggttcttcatccccat	9	11	9	12	1	2	0	1	0	1	0	3	1	3	0	4	2	4	4	4	2	3	4	rs140980165		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:86756342G>T	uc002srj.2	-	3	414	c.285C>A	c.(283-285)CTC>CTA	p.L95L	VPS24_uc002srk.2_Silent_p.L29L|VPS24_uc002srl.2_Intron|VPS24_uc010ytl.1_Silent_p.L124L	NM_016079	NP_057163	Q9Y3E7	CHMP3_HUMAN	vacuolar protein sorting 24 isoform 1	95	Intramolecular interaction with C- terminus.				cell cycle|cell division|cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			central_nervous_system(1)	1						CAGCCTTACCGAGCTGGTTCT	0.468													9	63					2.17888e-05	2.38309e-05	0.006214	1	0		T	86756342	T	T	86756342	2	4	11	1	0	0	0	0	0	0	0	1	17221	1072	37	5		5	VPS24	2	86756342	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	451302	86756342	156443031	128	8520											
ZNF514	84874	broad.mit.edu	37	chr2	95818899	95818899	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaatggccaagttcctgaAgttctccagcatcacctccc	10	9	7	15	0	2	2	1	1	1	1	5	2	4	2	5	1	1	3	5	1	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:95818899A>C	uc002sue.1	-	3	474	c.100T>G	c.(100-102)TTC>GTC	p.F34V	ZNF514_uc002sud.1_Missense_Mutation_p.F107V	NM_032788	NP_116177	Q96K75	ZN514_HUMAN	zinc finger protein 514	34	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAGTTCCTGAAGTTCTCCAGC	0.532													10	79					0	0	0.013537	0	0		C	95818899	C	C	95818899	3	2	11	1	0	0	0	0	1	0	0	0	17984	72	3	5	1114	5	ZNF514	2	95818899	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	9062557	95818899	147380474	129	8521											
PROM2	150696	broad.mit.edu	37	chr2	95947910	95947910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtgcaaggaaggggcagCgctctggacagtcctgcagc	9	5	16	11	1	1	0	0	0	1	0	2	2	2	2	1	4	4	5	1	4	2	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:95947910C>T	uc002suh.1	+	14	1797	c.1664C>T	c.(1663-1665)GCG>GTG	p.A555V	PROM2_uc002sui.2_Missense_Mutation_p.A555V|PROM2_uc002suj.2_Missense_Mutation_p.A209V|PROM2_uc002suk.2_Missense_Mutation_p.A555V|PROM2_uc002sul.2_Missense_Mutation_p.A81V|PROM2_uc002sum.2_RNA	NM_144707	NP_653308	Q8N271	PROM2_HUMAN	prominin 2 precursor	555	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|cilium membrane|integral to membrane|microvillus membrane				ovary(1)	1						GAAGGGGCAGCGCTCTGGACA	0.627													7	20					0	0	0.001984	0	0		T	95947910	T	T	95947910	3	4	11	1	0	0	0	0	1	0	0	0	12578	768	27	1	1718	1	PROM2	2	95947910	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	129011	95947910	147251463	130	8522											
SNRNP200	23020	broad.mit.edu	37	chr2	96956091	96956091	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctggacatttcctagcacGatttctgcattgagcatgtc	8	15	8	10	1	2	1	0	1	2	0	4	3	3	2	1	1	3	3	1	1	1	5	rs138641050		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:96956091G>A	uc002svu.2	-	20	2801	c.2715C>T	c.(2713-2715)ATC>ATT	p.I905I	SNRNP200_uc002svw.1_5'Flank	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	905	Helicase C-terminal 1.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding	p.I905I(1)		ovary(5)|skin(4)|large_intestine(1)	10						TTCCTAGCACGATTTCTGCAT	0.512													26	164					0	0	0.009535	0	0		A	96956091	A	A	96956091	2	1	11	1	0	0	0	0	0	0	0	1	14877	1048	37	1		1	SNRNP200	2	96956091	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1008181	96956091	146243282	131	8523											
ZAP70	7535	broad.mit.edu	37	chr2	98351166	98351166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgcgccagggcgtgtaccGcatgcgcaagtatggccgcc	7	6	15	13	5	0	0	0	0	0	0	0	0	0	0	4	2	3	4	4	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:98351166G>A	uc002syd.1	+	9	1280	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Missense_Mutation_p.R248H|ZAP70_uc002syf.1_Missense_Mutation_p.R51H	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	358	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						GGCGTGTACCGCATGCGCAAG	0.637													10	26					0	0	0.010729	0	0		A	98351166	A	A	98351166	3	1	11	1	0	0	0	0	1	0	0	0	17540	1087	38	1	1099	1	ZAP70	2	98351166	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1395075	98351166	144848207	132	8524											
TSGA10	80705	broad.mit.edu	37	chr2	99721883	99721883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgagccttctcattaaatGctgtctcttgagcaatctga	9	14	9	9	0	3	3	1	3	3	0	5	3	3	3	1	1	3	2	1	1	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:99721883G>A	uc002szg.3	-	7	1026	c.398C>T	c.(397-399)GCA>GTA	p.A133V	TSGA10_uc002szh.3_Missense_Mutation_p.A133V|TSGA10_uc002szi.3_Missense_Mutation_p.A133V|TSGA10_uc010fin.1_Missense_Mutation_p.A133V|TSGA10_uc010yvn.1_Missense_Mutation_p.A133V	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	133					spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						CTCATTAAATGCTGTCTCTTG	0.308													6	81					0	0	0.001168	0	0		A	99721883	A	A	99721883	3	1	11	1	0	0	0	0	1	0	0	0	16643	1319	46	2	1750	2	TSGA10	2	99721883	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1370717	99721883	143477490	133	8525											
TBC1D8	11138	broad.mit.edu	37	chr2	101624428	101624428	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactaatgactgttcagtcAgaagtgaagctaaaatatgt	15	12	9	5	0	2	4	2	3	0	1	2	4	2	4	0	0	1	2	0	0	6	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:101624428A>G	uc010fiv.2	-	20	3409	c.3278T>C	c.(3277-3279)CTG>CCG	p.L1093P	RPL31_uc010yvu.1_Intron|RPL31_uc010yvv.1_Intron|RPL31_uc010fiu.1_Intron|TBC1D8_uc002tau.3_Missense_Mutation_p.L850P	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8	1093					blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						CTGTTCAGTCAGAAGTGAAGC	0.433													13	101					0	0	0.001855	0	0		G	101624428	G	G	101624428	3	3	11	1	0	0	0	0	1	0	0	0	15650	188	7	3	148	3	TBC1D8	2	101624428	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1902545	101624428	141574945	134	8526											
GCC2	9648	broad.mit.edu	37	chr2	109088197	109088197	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaacctggcttttcagcgTgatgaaaaagtattagagtt	12	13	10	6	1	1	3	1	2	0	1	1	3	1	3	1	1	3	4	1	1	5	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:109088197T>C	uc002tec.2	+	6	2566	c.2412T>C	c.(2410-2412)CGT>CGC	p.R804R	GCC2_uc002ted.2_Silent_p.R703R	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	804	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						CTTTTCAGCGTGATGAAAAAG	0.378													18	79					0	0	0.008871	0	0		C	109088197	C	C	109088197	2	2	11	1	0	0	0	0	0	0	0	1	6301	1683	59	3		3	GCC2	2	109088197	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	7463769	109088197	134111176	135	8527											
GCC2	9648	broad.mit.edu	37	chr2	109111808	109111808	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggagaaacacagacctcccGcttctagacatgcacactgt	13	7	8	13	1	1	3	0	0	1	3	2	4	2	3	2	1	2	2	2	1	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:109111808G>A	uc002tec.2	+	20	4663	c.4509G>A	c.(4507-4509)CCG>CCA	p.P1503P	GCC2_uc002ted.2_Silent_p.P1402P	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	1503	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						CAGACCTCCCGCTTCTAGACA	0.453													4	39					0	0	0.001984	0	0		A	109111808	A	A	109111808	2	1	11	1	0	0	0	0	0	0	0	1	6301	1074	38	1		1	GCC2	2	109111808	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	23611	109111808	134087565	136	8528											
RANBP2	5903	broad.mit.edu	37	chr2	109380502	109380502	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggatgatgatgatgacggTcctcactttgagcctgtagt	8	12	14	7	1	1	5	1	5	0	0	2	6	2	6	2	3	1	1	2	3	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:109380502T>C	uc002tem.3	+	20	3633	c.3507T>C	c.(3505-3507)GGT>GGC	p.G1169G		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1169					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						ATGATGACGGTCCTCACTTTG	0.438													25	126					0	0	0.005443	0	0		C	109380502	C	C	109380502	2	2	11	1	0	0	0	0	0	0	0	1	13053	1654	58	3		3	RANBP2	2	109380502	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	268694	109380502	133818871	137	8529											
CCDC93	54520	broad.mit.edu	37	chr2	118764370	118764370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaagttgcaagtggtgataCaccaagtcattcctcctact	12	11	7	11	0	1	1	1	1	0	0	3	1	3	1	3	1	3	2	3	1	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:118764370C>T	uc002tlj.2	-	3	305	c.179G>A	c.(178-180)TGT>TAT	p.C60Y	CCDC93_uc010fld.1_Missense_Mutation_p.C60Y	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	60										large_intestine(1)|ovary(1)	2						AGTGGTGATACACCAAGTCAT	0.348													8	57					0	0	0.006214	0	0		T	118764370	T	T	118764370	3	4	11	1	0	0	0	0	1	0	0	0	2875	478	17	4	1804	4	CCDC93	2	118764370	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	9383868	118764370	124435003	138	8530											
GLI2	2736	broad.mit.edu	37	chr2	121747109	121747109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcacgcagccacacctgcagCcccgcagcggagccccctcc	7	2	10	22	3	0	0	0	0	0	0	1	1	1	1	7	1	5	4	7	1	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:121747109C>T	uc010flp.2	+	13	3649	c.3619C>T	c.(3619-3621)CCC>TCC	p.P1207S	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Missense_Mutation_p.P879S|GLI2_uc002tmu.3_Missense_Mutation_p.P862S	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	1207					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				ACACCTGCAGCCCCGCAGCGG	0.667													3	3					0	0	0.004672	0	0		T	121747109	T	T	121747109	3	4	11	1	0	0	0	0	1	0	0	0	6453	739	26	2	3669	2	GLI2	2	121747109	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2982739	121747109	121452264	139	8531											
R3HDM1	23518	broad.mit.edu	37	chr2	136481597	136481597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggggaactctttaaaattgGcgccaagatccggtggctcc	9	10	12	10	2	1	1	0	0	1	1	3	2	3	2	3	5	1	1	3	5	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:136481597G>A	uc002tuo.2	+	26	3405	c.3035G>A	c.(3034-3036)GGC>GAC	p.G1012D	R3HDM1_uc010fni.2_Missense_Mutation_p.G1011D|R3HDM1_uc002tup.2_Missense_Mutation_p.G957D|R3HDM1_uc010zbh.1_Missense_Mutation_p.G760D	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	1012							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		TTTAAAATTGGCGCCAAGATC	0.512													8	87					0	0	0.004482	0	0		A	136481597	A	A	136481597	3	1	11	1	0	0	0	0	1	0	0	0	12912	1203	42	2	3129	2	R3HDM1	2	136481597	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	14734488	136481597	106717776	140	8532											
LCT	3938	broad.mit.edu	37	chr2	136566593	136566593	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctgcctgtatttctcatcGtacgtgtgatagactctggc	6	15	9	11	2	2	2	1	1	2	1	5	2	3	2	2	1	2	2	2	1	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:136566593G>A	uc002tuu.1	-	8	3335	c.3324C>T	c.(3322-3324)TAC>TAT	p.Y1108Y		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1108	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		ATTTCTCATCGTACGTGTGAT	0.582													5	63					0	0	0.00308	0	0		A	136566593	A	A	136566593	2	1	11	1	0	0	0	0	0	0	0	1	8709	1140	40	1		1	LCT	2	136566593	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	84996	136566593	106632780	141	8533											
MCM6	4175	broad.mit.edu	37	chr2	136614442	136614442	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaaaatggacgtccgggcGttcagagtagcctgaccaca	11	6	12	12	3	1	2	1	1	0	1	2	3	2	3	4	2	1	2	4	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:136614442G>A	uc002tuw.2	-	11	1558	c.1482C>T	c.(1480-1482)AAC>AAT	p.N494N		NM_005915	NP_005906	Q14566	MCM6_HUMAN	minichromosome maintenance complex component 6	494	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|identical protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.166)	Atorvastatin(DB01076)	ACGTCCGGGCGTTCAGAGTAG	0.294													9	38					0	0	0.008291	0	0		A	136614442	A	A	136614442	2	1	11	1	0	0	0	0	0	0	0	1	9409	1136	40	1		1	MCM6	2	136614442	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	47849	136614442	106584931	142	8534											
LRP1B	53353	broad.mit.edu	37	chr2	141130589	141130589	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttttacctggctcacagcTtttctcatcttccccatatt	6	17	3	15	0	3	0	2	0	2	0	5	0	4	0	4	1	2	2	4	1	2	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:141130589T>G	uc002tvj.1	-	69	11728	c.10756A>C	c.(10756-10758)AGC>CGC	p.S3586R		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3586	Extracellular (Potential).|LDL-receptor class A 27.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GGCTCACAGCTTTTCTCATCT	0.368										TSP Lung(27;0.18)			16	83					0	0	0.00499	0	0		G	141130589	G	G	141130589	3	3	11	1	0	0	0	0	1	0	0	0	8973	1609	56	5	3135	5	LRP1B	2	141130589	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	4516147	141130589	102068784	143	8535											
LRP1B	53353	broad.mit.edu	37	chr2	141272329	141272329	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaagcaaattggttccaaGagcaagaagaatctaggaaa	20	6	9	6	0	1	3	0	0	1	3	2	4	2	4	1	2	3	3	1	2	9	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:141272329G>T	uc002tvj.1	-	51	9134	c.8162C>A	c.(8161-8163)TCT>TAT	p.S2721Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2721	Extracellular (Potential).|LDL-receptor class A 16.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTGGTTCCAAGAGCAAGAAGA	0.303										TSP Lung(27;0.18)			10	51					9.70103e-10	1.11027e-09	0.008291	1	0		T	141272329	T	T	141272329	3	4	11	1	0	0	0	0	1	0	0	0	8973	942	33	5	5801	5	LRP1B	2	141272329	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	141740	141272329	101927044	144	8536											
MBD5	55777	broad.mit.edu	37	chr2	149247765	149247765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactgtggaaagatgtgcaCacataaatgggaatagacct	16	8	10	7	0	0	2	0	0	0	2	0	4	0	4	1	2	1	1	1	2	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:149247765C>T	uc002twm.3	+	12	4853	c.3865C>T	c.(3865-3867)CAC>TAC	p.H1289Y	MBD5_uc010zbs.1_Intron|MBD5_uc010fns.2_Missense_Mutation_p.H1289Y|MBD5_uc002two.2_Missense_Mutation_p.H547Y|MBD5_uc002twp.2_Missense_Mutation_p.H339Y	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1289						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		AAGATGTGCACACATAAATGG	0.428													11	82					0	0	0.001855	0	0		T	149247765	T	T	149247765	3	4	11	1	0	0	0	0	1	0	0	0	9365	478	17	4	3891	4	MBD5	2	149247765	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	7975436	149247765	93951608	145	8537											
RIF1	55183	broad.mit.edu	37	chr2	152320331	152320331	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctaccactgaaagccaaGataaggaaaatagtcatcaa	19	7	7	8	0	3	2	2	1	1	1	3	3	3	3	2	1	2	0	2	1	8	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:152320331G>T	uc002txm.2	+	30	4427	c.4297G>T	c.(4297-4299)GAT>TAT	p.D1433Y	RIF1_uc002txl.2_Missense_Mutation_p.D1433Y|RIF1_uc002txn.2_Missense_Mutation_p.D1433Y|RIF1_uc002txo.2_Missense_Mutation_p.D1433Y|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	1433					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		TGAAAGCCAAGATAAGGAAAA	0.383													14	89					5.01169e-05	5.46312e-05	0.00499	1	0		T	152320331	T	T	152320331	3	4	11	1	0	0	0	0	1	0	0	0	13384	942	33	5	4411	5	RIF1	2	152320331	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3072566	152320331	90879042	146	8538											
FMNL2	114793	broad.mit.edu	37	chr2	153471416	153471416	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtccagatccaggcttacCtggacaatgtttttgatgta	11	13	9	8	0	0	2	0	1	0	1	2	3	2	3	3	2	1	3	3	2	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:153471416C>A	uc002tye.2	+	12	1481	c.1114C>A	c.(1114-1116)CTG>ATG	p.L372M		NM_052905	NP_443137	Q96PY5	FMNL2_HUMAN	formin-like 2	372	GBD/FH3.				actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|ovary(1)	3						CCAGGCTTACCTGGACAATGT	0.428													16	89					5.01169e-05	5.46312e-05	0.00499	1	0		A	153471416	A	A	153471416	3	1	11	1	0	0	0	0	1	0	0	0	5966	680	24	5	1160	5	FMNL2	2	153471416	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1151085	153471416	89727957	147	8539											
RPRM	56475	broad.mit.edu	37	chr2	154334842	154334842	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccctcggacttgatgagcaGattgcagccgaggaagaaga	12	6	14	9	2	0	5	0	2	0	3	1	8	0	7	2	2	3	2	2	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:154334842G>A	uc002tyq.1	-	1	481	c.238C>T	c.(238-240)CTG>TTG	p.L80L		NM_019845	NP_062819	Q9NS64	RPRM_HUMAN	reprimo, TP53 dependant G2 arrest mediator	80					cell cycle arrest	cytoplasm|integral to membrane	protein binding				0						TTGATGAGCAGATTGCAGCCG	0.607													7	44					0	0	0.004482	0	0		A	154334842	A	A	154334842	2	1	11	1	0	0	0	0	0	0	0	1	13643	933	33	4		4	RPRM	2	154334842	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	863426	154334842	88864531	148	8540											
GALNT13	114805	broad.mit.edu	37	chr2	155252628	155252628	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagatcccaagacgttatTactcacttggtgaggtatga	11	11	9	10	1	1	4	1	2	0	2	2	4	2	4	2	2	1	2	2	2	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:155252628T>C	uc002tyr.3	+	10	1849	c.1282T>C	c.(1282-1284)TAC>CAC	p.Y428H	GALNT13_uc002tyt.3_Missense_Mutation_p.Y428H|GALNT13_uc010foc.1_Missense_Mutation_p.Y247H|GALNT13_uc010fod.2_Missense_Mutation_p.Y181H	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	428	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						AAGACGTTATTACTCACTTGG	0.338													12	58					0	0	0.001855	0	0		C	155252628	C	C	155252628	3	2	11	1	0	0	0	0	1	0	0	0	6226	1754	61	3	1312	3	GALNT13	2	155252628	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	917786	155252628	87946745	149	8541											
TANC1	85461	broad.mit.edu	37	chr2	159922470	159922470	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagagggaggaaagggaggCaagaaggaagcaggtatgtg	15	3	20	3	1	0	2	0	0	0	2	0	7	0	6	0	6	1	3	0	6	5	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:159922470C>T	uc002uag.2	+	3	322	c.48C>T	c.(46-48)GGC>GGT	p.G16G	TANC1_uc010fol.1_Silent_p.G16G|TANC1_uc010zcm.1_Silent_p.G16G|TANC1_uc010fom.1_Silent_p.G16G	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	16						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						GAAAGGGAGGCAAGAAGGAAG	0.488													12	88					0	0	0.001855	0	0		T	159922470	T	T	159922470	2	4	11	1	0	0	0	0	0	0	0	1	15569	697	25	2		2	TANC1	2	159922470	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4669842	159922470	83276903	150	8542											
TTC21B	79809	broad.mit.edu	37	chr2	166747442	166747442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaaaatcttgggacatcctCgagttttccacatcttctta	11	14	6	10	1	3	0	0	0	3	0	6	3	5	1	2	1	0	1	2	1	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:166747442C>T	uc002udk.2	-	23	3140	c.3007G>A	c.(3007-3009)GAG>AAG	p.E1003K	TTC21B_uc002udj.1_RNA	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	1003						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						GGGACATCCTCGAGTTTTCCA	0.348													7	40					0	0	0.00308	0	0		T	166747442	T	T	166747442	3	4	11	1	0	0	0	0	1	0	0	0	16714	893	31	1	971	1	TTC21B	2	166747442	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	6824972	166747442	76451931	151	8543											
SCN9A	6335	broad.mit.edu	37	chr2	167133718	167133718	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaccaaagagctgcatgccGaccacagcaaaaatgaagac	17	5	8	11	1	0	3	0	1	0	2	0	4	0	3	3	0	5	3	3	0	5	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:167133718G>A	uc010fpl.2	-	16	2957	c.2616C>T	c.(2614-2616)GTC>GTT	p.V872V	uc002udp.2_RNA	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	883	II.|Helical; Name=S5 of repeat II; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GCTGCATGCCGACCACAGCAA	0.463													22	173					0	0	0.013726	0	0		A	167133718	A	A	167133718	2	1	11	1	0	0	0	0	0	0	0	1	13950	1045	37	1		1	SCN9A	2	167133718	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	386276	167133718	76065655	152	8544											
CHRNA1	1134	broad.mit.edu	37	chr2	175618367	175618367	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtccaggtagggggtgtcGgggcagcaggaataggtcac	9	7	18	7	1	1	0	1	0	0	0	3	1	2	1	1	7	1	3	1	7	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:175618367G>A	uc002ujd.2	-	7	795	c.717C>T	c.(715-717)CCC>CCT	p.P239P	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Silent_p.P214P|CHRNA1_uc002ujf.3_Silent_p.P214P	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	239	Extracellular.				muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						AGGGGGTGTCGGGGCAGCAGG	0.592													6	37					0	0	0.001984	0	0		A	175618367	A	A	175618367	2	1	11	1	0	0	0	0	0	0	0	1	3384	1103	39	1		1	CHRNA1	2	175618367	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	8484649	175618367	67581006	153	8545											
OSBPL6	114880	broad.mit.edu	37	chr2	179247806	179247806	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggcgtcgagcatgcctGccagctccttgtcctgacac	7	9	11	14	2	0	1	0	1	0	0	3	2	2	1	4	1	4	2	4	1	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:179247806G>A	uc002ulx.2	+	17	2055	c.1677G>A	c.(1675-1677)CTG>CTA	p.L559L	OSBPL6_uc002uly.2_Silent_p.L584L|OSBPL6_uc010zfe.1_Silent_p.L528L|OSBPL6_uc002ulz.2_Silent_p.L523L|OSBPL6_uc002uma.2_Silent_p.L563L	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	559					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			GAGCATGCCTGCCAGCTCCTT	0.493													8	64					0	0	0.004482	0	0		A	179247806	A	A	179247806	2	1	11	1	0	0	0	0	0	0	0	1	11300	1306	46	2		2	OSBPL6	2	179247806	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3629439	179247806	63951567	154	8546											
TTN	7273	broad.mit.edu	37	chr2	179645895	179645895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtttctccatgcttattgCgaacaacaatagtgtattct	12	15	6	8	1	2	0	0	0	2	0	3	1	2	0	1	0	4	3	1	0	7	6	rs149883066		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:179645895C>T	uc010zfg.1	-	21	3700	c.3476G>A	c.(3475-3477)CGC>CAC	p.R1159H	TTN_uc010zfh.1_Missense_Mutation_p.R1113H|TTN_uc010zfi.1_Missense_Mutation_p.R1113H|TTN_uc010zfj.1_Missense_Mutation_p.R1113H|TTN_uc002unb.2_Missense_Mutation_p.R1159H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1159							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGCTTATTGCGAACAACAAT	0.388													17	68					0	0	0.004007	0	0		T	179645895	T	T	179645895	3	4	11	1	0	0	0	0	1	0	0	0	16761	768	27	1	107880	1	TTN	2	179645895	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	398089	179645895	63553478	155	8547											
WDR75	84128	broad.mit.edu	37	chr2	190320086	190320086	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaactgccaaaatcctcAagccaggaagtagaagccaa	17	5	9	10	0	1	2	1	1	0	1	2	3	2	3	4	1	4	1	4	1	8	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:190320086A>G	uc002uql.1	+	5	474	c.414A>G	c.(412-414)TCA>TCG	p.S138S	WDR75_uc002uqm.1_Silent_p.S74S|WDR75_uc002uqn.1_5'UTR|WDR75_uc002uqo.1_5'Flank	NM_032168	NP_115544	Q8IWA0	WDR75_HUMAN	WD repeat domain 75	138						nucleolus				ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00105)|Epithelial(96;0.0129)|all cancers(119;0.0456)			CAAAATCCTCAAGCCAGGAAG	0.388													14	71					0	0	0.004007	0	0		G	190320086	G	G	190320086	2	3	11	1	0	0	0	0	0	0	0	1	17351	117	5	3		3	WDR75	2	190320086	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	10674191	190320086	52879287	156	8548											
WDR75	84128	broad.mit.edu	37	chr2	190329974	190329974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggatgtataataagaaaaCacaagggtaatactatctgt	17	11	9	4	0	1	1	0	0	1	1	1	2	1	2	0	2	2	2	0	2	9	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:190329974C>T	uc002uql.1	+	12	1343	c.1283C>T	c.(1282-1284)ACA>ATA	p.T428I	WDR75_uc002uqm.1_Missense_Mutation_p.T364I|WDR75_uc002uqn.1_Missense_Mutation_p.T206I|WDR75_uc002uqo.1_Missense_Mutation_p.T206I	NM_032168	NP_115544	Q8IWA0	WDR75_HUMAN	WD repeat domain 75	428						nucleolus				ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00105)|Epithelial(96;0.0129)|all cancers(119;0.0456)			AATAAGAAAACACAAGGGTAA	0.348													6	38					0	0	0.001168	0	0		T	190329974	T	T	190329974	3	4	11	1	0	0	0	0	1	0	0	0	17351	478	17	4	1329	4	WDR75	2	190329974	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	9888	190329974	52869399	157	8549											
NAB1	4664	broad.mit.edu	37	chr2	191524622	191524622	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatctttgagatgaacgaTgatgatccacacaaagagga	16	8	9	8	1	1	5	0	4	1	2	2	8	2	6	1	1	1	0	1	1	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:191524622T>C	uc002usb.2	+	4	1292	c.720T>C	c.(718-720)GAT>GAC	p.D240D	NAB1_uc010fsc.2_Silent_p.D240D|NAB1_uc010fsd.2_Silent_p.D240D|NAB1_uc002usc.2_Silent_p.D240D|NAB1_uc010zgh.1_Silent_p.D240D	NM_005966	NP_005957	Q13506	NAB1_HUMAN	NGFI-A binding protein 1	240	NCD2.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0405)|all cancers(119;0.109)			AGATGAACGATGATGATCCAC	0.418													18	92					0	0	0.007413	0	0		C	191524622	C	C	191524622	2	2	11	1	0	0	0	0	0	0	0	1	10149	1461	51	3		3	NAB1	2	191524622	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1194648	191524622	51674751	158	8550											
SF3B1	23451	broad.mit.edu	37	chr2	198262811	198262811	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaaagcaaatcctcatcCactctcttgcagatacatat	13	11	4	13	0	3	1	2	0	1	1	6	1	5	1	2	0	3	3	2	0	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:198262811C>A	uc002uue.2	-	22	3212	c.3164G>T	c.(3163-3165)TGG>TTG	p.W1055L		NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	1055	HEAT 9.				nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			AATCCTCATCCACTCTCTTGC	0.333													16	99					2.35188e-11	2.7251e-11	0.006122	1	0		A	198262811	A	A	198262811	3	1	11	1	0	0	0	0	1	0	0	0	14174	595	21	5	766	5	SF3B1	2	198262811	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	6738189	198262811	44936562	159	8551											
BZW1	9689	broad.mit.edu	37	chr2	201681849	201681849	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctgctgttcttgaagggTttttcagagtcggagaggaa	8	13	14	6	1	2	3	1	1	1	2	3	5	2	4	0	3	2	4	0	3	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:201681849T>G	uc010zhg.1	+	6	571	c.519T>G	c.(517-519)GGT>GGG	p.G173G	BZW1_uc002uwc.2_Silent_p.G141G|BZW1_uc010zhh.1_Silent_p.G141G	NM_014670	NP_055485	Q7L1Q6	BZW1_HUMAN	basic leucine zipper and W2 domains 1	141					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	protein binding				0						TCTTGAAGGGTTTTTCAGAGT	0.373													6	38					0	0	0.004007	0	0		G	201681849	G	G	201681849	2	3	11	1	0	0	0	0	0	0	0	1	1581	1712	60	5		5	BZW1	2	201681849	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	3419038	201681849	41517524	160	8552											
WDR12	55759	broad.mit.edu	37	chr2	203745590	203745590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttattgttcactttcatgccCcaacatgggaagtggtaggt	9	14	10	8	0	2	0	2	0	0	0	2	1	2	1	2	3	2	2	2	3	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:203745590C>T	uc002uzl.2	-	13	2015	c.1265G>A	c.(1264-1266)GGG>GAG	p.G422E	WDR12_uc010ftt.2_3'UTR	NM_018256	NP_060726	Q9GZL7	WDR12_HUMAN	WD repeat domain 12 protein	422	Sufficient for nucleolar localization.|WD 7.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						CTTTCATGCCCCAACATGGGA	0.368													6	30					0	0	0.004482	0	0		T	203745590	T	T	203745590	3	4	11	1	0	0	0	0	1	0	0	0	17300	623	22	4	10	4	WDR12	2	203745590	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2063741	203745590	39453783	161	8553											
PIKFYVE	200576	broad.mit.edu	37	chr2	209198113	209198113	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttgaacttaggttttaTgggcaccagtatactcgcag	10	13	9	9	1	0	1	0	1	0	0	1	1	0	1	2	2	3	4	2	2	6	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:209198113T>C	uc002vcz.2	+	24	4196	c.4038T>C	c.(4036-4038)TAT>TAC	p.Y1346Y	PIKFYVE_uc002vcy.1_Silent_p.Y1290Y	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1346					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						TTAGGTTTTATGGGCACCAGT	0.438													7	52					0	0	0.001984	0	0		C	209198113	C	C	209198113	2	2	11	1	0	0	0	0	0	0	0	1	11943	1471	51	3		3	PIKFYVE	2	209198113	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	5452523	209198113	34001260	162	8554											
MAP2	4133	broad.mit.edu	37	chr2	210560646	210560646	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatgataaactgctcttccGctcagacacccttcagataa	13	11	5	12	1	3	3	2	1	1	2	4	3	4	3	2	0	2	2	2	0	4	5	rs142649637	by1000genomes	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:210560646G>A	uc002vde.1	+	7	4000	c.3752G>A	c.(3751-3753)CGC>CAC	p.R1251H	MAP2_uc002vdc.1_Missense_Mutation_p.R1251H|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.R1247H	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1251					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CTGCTCTTCCGCTCAGACACC	0.488													17	82					0	0	0.007413	0	0		A	210560646	A	A	210560646	3	1	11	1	0	0	0	0	1	0	0	0	9253	1087	38	1	3766	1	MAP2	2	210560646	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1362533	210560646	32638727	163	8555											
ERBB4	2066	broad.mit.edu	37	chr2	212251610	212251610	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctcgcataggagtcatgTaaccttcctcatccagctct	8	13	7	13	1	4	0	2	0	2	0	7	1	6	1	3	1	2	3	3	1	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:212251610T>C	uc002veg.1	-	27	3547	c.3449A>G	c.(3448-3450)TAC>TGC	p.Y1150C	ERBB4_uc002veh.1_Missense_Mutation_p.Y1134C|ERBB4_uc010zji.1_Missense_Mutation_p.Y1140C|ERBB4_uc010zjj.1_Missense_Mutation_p.Y1124C	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1150	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		AGGAGTCATGTAACCTTCCTC	0.498										TSP Lung(8;0.080)			13	63					0	0	0.00245	0	0		C	212251610	C	C	212251610	3	2	11	1	0	0	0	0	1	0	0	0	5217	1638	57	3	485	3	ERBB4	2	212251610	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1690964	212251610	30947763	164	8556											
ABCA12	26154	broad.mit.edu	37	chr2	215823125	215823125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaagctggcggtggtgacaGagtagcccatcaagatagac	13	6	13	9	1	1	4	1	1	0	3	1	4	1	4	1	3	2	2	1	3	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:215823125G>A	uc002vew.2	-	41	6213	c.5993C>T	c.(5992-5994)TCT>TTT	p.S1998F	ABCA12_uc002vev.2_Missense_Mutation_p.S1680F|ABCA12_uc010zjn.1_Missense_Mutation_p.S925F	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1998	Helical; (Potential).				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GGTGGTGACAGAGTAGCCCAT	0.438													11	71					0	0	0.010729	0	0		A	215823125	A	A	215823125	3	1	11	1	0	0	0	0	1	0	0	0	30	942	33	4	1846	4	ABCA12	2	215823125	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3571515	215823125	27376248	165	8557											
FN1	2335	broad.mit.edu	37	chr2	216236932	216236932	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcctcaaagatcatttgttgCccaacactgggttgctgacc	9	12	8	12	0	2	2	2	1	0	1	3	2	3	2	3	1	3	3	3	1	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:216236932C>A	uc002vfa.2	-	40	6680	c.6414G>T	c.(6412-6414)GGG>GGT	p.G2138G	FN1_uc002vfb.2_Silent_p.G1957G|FN1_uc002vfc.2_Silent_p.G1932G|FN1_uc002vfd.2_Silent_p.G2113G|FN1_uc002vfe.2_Silent_p.G2047G|FN1_uc002vff.2_Silent_p.G2022G|FN1_uc002vfg.2_Silent_p.G1957G|FN1_uc002vfh.2_Intron|FN1_uc002vfi.2_Silent_p.G2138G|FN1_uc002vfj.2_Intron|FN1_uc002vez.2_Silent_p.G332G|FN1_uc010zjp.1_Silent_p.G675G|FN1_uc002vfk.1_Intron|FN1_uc010fva.1_Intron|FN1_uc010fvb.1_Intron|FN1_uc010fvc.1_Intron|FN1_uc010fvd.1_Silent_p.G229G	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	2047	Connecting strand 3 (CS-3) (V region).				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCATTTGTTGCCCAACACTGG	0.532													11	69					9.31168e-06	1.0279e-05	0.001855	1	0		A	216236932	A	A	216236932	2	1	11	1	0	0	0	0	0	0	0	1	5976	726	26	5		5	FN1	2	216236932	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	413807	216236932	26962441	166	8558											
FN1	2335	broad.mit.edu	37	chr2	216249629	216249629	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctcactgtgacagcaggAgcatcccagctgatcagtag	11	9	10	11	0	2	2	2	2	1	0	4	3	3	3	1	1	3	4	1	1	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:216249629A>G	uc002vfa.2	-	29	4949	c.4683T>C	c.(4681-4683)GCT>GCC	p.A1561A	FN1_uc002vfb.2_Silent_p.A1470A|FN1_uc002vfc.2_Silent_p.A1470A|FN1_uc002vfd.2_Silent_p.A1561A|FN1_uc002vfe.2_Silent_p.A1470A|FN1_uc002vff.2_Silent_p.A1470A|FN1_uc002vfg.2_Silent_p.A1470A|FN1_uc002vfh.2_Silent_p.A1470A|FN1_uc002vfi.2_Silent_p.A1561A|FN1_uc002vfj.2_Silent_p.A1561A|FN1_uc002vez.2_5'UTR|FN1_uc010zjp.1_Silent_p.A188A|FN1_uc010fvc.1_5'Flank|FN1_uc010fvd.1_5'Flank	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGACAGCAGGAGCATCCCAGC	0.448													10	57					0	0	0.010729	0	0		G	216249629	G	G	216249629	2	3	11	1	0	0	0	0	0	0	0	1	5976	291	11	3		3	FN1	2	216249629	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	12697	216249629	26949744	167	8559											
TMEM169	92691	broad.mit.edu	37	chr2	216960851	216960851	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccagaatccatcatcatctaCcgctcagacaatgagaaaac	16	7	5	13	1	4	3	3	1	1	3	5	4	5	3	3	0	2	1	3	0	5	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:216960851C>T	uc010zjr.1	+	3	491	c.165C>T	c.(163-165)TAC>TAT	p.Y55Y	TMEM169_uc010zjs.1_Silent_p.Y55Y|TMEM169_uc002vfw.2_Silent_p.Y55Y|TMEM169_uc002vfv.3_Silent_p.Y55Y	NM_001142310	NP_001135782	Q96HH4	TM169_HUMAN	transmembrane protein 169	55	Extracellular (Potential).					integral to membrane				ovary(1)	1		Renal(323;0.0651)		Epithelial(149;6.44e-06)|all cancers(144;0.000398)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCATCATCTACCGCTCAGACA	0.527													9	68					0	0	0.008291	0	0		T	216960851	T	T	216960851	2	4	11	1	0	0	0	0	0	0	0	1	16109	518	18	4		4	TMEM169	2	216960851	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	711222	216960851	26238522	168	8560											
XRCC5	7520	broad.mit.edu	37	chr2	216992311	216992311	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttgtggatgcaaaaacccTaaaaaaagaagatatacaaa	22	7	7	5	0	0	2	0	0	0	2	0	3	0	3	1	1	3	2	1	1	10	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:216992311T>A	uc002vfy.2	+	8	991	c.851T>A	c.(850-852)CTA>CAA	p.L284Q	XRCC5_uc002vfz.2_Missense_Mutation_p.L170Q	NM_021141	NP_066964	P13010	XRCC5_HUMAN	ATP-dependent DNA helicase II	284	Ku.				double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|provirus integration|telomere maintenance|transcription, DNA-dependent	Ku70:Ku80 complex|nonhomologous end joining complex|nuclear telomere cap complex|nucleoplasm	ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|telomeric DNA binding|transcription regulatory region DNA binding			lung(1)|kidney(1)	2		Renal(323;0.0328)		Epithelial(149;9.78e-06)|all cancers(144;0.000632)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.0117)		GCAAAAACCCTAAAAAAAGAA	0.313								Direct_reversal_of_damage|NHEJ					6	63					0	0	0.00308	0	0		A	216992311	A	A	216992311	3	1	11	1	0	0	0	0	1	0	0	0	17482	1522	53	5	881	5	XRCC5	2	216992311	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	31460	216992311	26207062	169	8561											
NHEJ1	79840	broad.mit.edu	37	chr2	219941148	219941148	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctcttgacctttgacagCtgaggtctctgcagagggcc	6	12	11	12	0	2	4	0	3	2	1	4	4	3	4	3	2	2	2	3	2	0	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:219941148C>T	uc002vjp.3	-	8	1001	c.855G>A	c.(853-855)CAG>CAA	p.Q285Q	NHEJ1_uc002vjq.3_RNA	NM_024782	NP_079058	Q9H9Q4	NHEJ1_HUMAN	nonhomologous end-joining factor 1	285					B cell differentiation|central nervous system development|DNA recombination|double-strand break repair via nonhomologous end joining|positive regulation of ligase activity|response to ionizing radiation|T cell differentiation	nonhomologous end joining complex|nucleus	DNA binding|identical protein binding			lung(1)	1		Renal(207;0.0915)		Epithelial(149;2.15e-06)|all cancers(144;0.000339)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(261;0.0112)		CCTTTGACAGCTGAGGTCTCT	0.468								Direct_reversal_of_damage|NHEJ					11	72					0	0	0.010729	0	0		T	219941148	T	T	219941148	2	4	11	1	0	0	0	0	0	0	0	1	10421	796	28	2		2	NHEJ1	2	219941148	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2948837	219941148	23258225	170	8562											
PAX3	5077	broad.mit.edu	37	chr2	223086050	223086050	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgagatggttgaaagccatCagttgattggccccagcttg	10	11	12	8	0	1	3	1	3	0	1	1	4	1	3	3	2	2	3	3	2	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:223086050C>T	uc010fwo.2	-	6	1215	c.849G>A	c.(847-849)CTG>CTA	p.L283L	PAX3_uc002vmt.1_Silent_p.L283L|PAX3_uc002vmy.1_Silent_p.L282L|PAX3_uc002vmv.1_Silent_p.L283L|PAX3_uc002vmw.1_Silent_p.L283L|PAX3_uc002vmx.1_Silent_p.L283L	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	283					apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGAAAGCCATCAGTTGATTGG	0.493			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						19	142					0	0	0.008871	0	0		T	223086050	T	T	223086050	2	4	11	1	0	0	0	0	0	0	0	1	11499	813	29	4		4	PAX3	2	223086050	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3144902	223086050	20113323	171	8563											
ARMC9	80210	broad.mit.edu	37	chr2	232156155	232156155	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcaagcagctaaattcCggtcagtttgatgcaagaat	14	11	8	8	1	3	2	3	1	0	1	4	2	4	2	1	1	3	4	1	1	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:232156155C>T	uc002vrq.3	+	18	1828	c.1716C>T	c.(1714-1716)TCC>TCT	p.S572S	ARMC9_uc002vrp.3_Silent_p.S572S|ARMC9_uc002vrr.1_RNA	NM_025139	NP_079415	Q7Z3E5	ARMC9_HUMAN	armadillo repeat containing 9	572							binding			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0744)|all_hematologic(139;0.0749)|Acute lymphoblastic leukemia(138;0.167)|Medulloblastoma(418;0.184)|Lung NSC(271;0.205)		Epithelial(121;1.43e-10)|LUSC - Lung squamous cell carcinoma(224;0.017)|Lung(119;0.0189)		AGCTAAATTCCGGTCAGTTTG	0.378													21	130					0	0	0.014323	0	0		T	232156155	T	T	232156155	2	4	11	1	0	0	0	0	0	0	0	1	959	666	23	1		1	ARMC9	2	232156155	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	9070105	232156155	11043218	172	8564											
ECEL1	9427	broad.mit.edu	37	chr2	233348873	233348873	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtgcctcacggaatggCggggacaggtgttcactcag	8	8	15	10	2	3	0	3	0	0	0	3	2	3	2	1	5	2	2	1	5	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:233348873C>T	uc002vsv.2	-	7	1450	c.1245G>A	c.(1243-1245)CCG>CCA	p.P415P	ECEL1_uc010fya.1_Silent_p.P415P|ECEL1_uc010fyb.1_Silent_p.P122P	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	415	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity	p.P415L(1)		central_nervous_system(2)	2		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		CACGGAATGGCGGGGACAGGT	0.647													4	14					0	0	0.009096	0	0		T	233348873	T	T	233348873	2	4	11	1	0	0	0	0	0	0	0	1	4897	755	27	1		1	ECEL1	2	233348873	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1192718	233348873	9850500	173	8565											
AGAP1	116987	broad.mit.edu	37	chr2	236817445	236817445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaccactgtgaaagtcccaGggaagaggccaccccgagcc	12	3	12	14	1	0	2	0	1	0	1	1	5	1	3	6	2	2	0	6	2	3	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:236817445G>A	uc002vvs.2	+	11	1814	c.1219G>A	c.(1219-1221)GGG>AGG	p.G407R	AGAP1_uc002vvt.2_Missense_Mutation_p.G407R	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	407	PH.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						GAAAGTCCCAGGGAAGAGGCC	0.473													6	55					0	0	0.001168	0	0		A	236817445	A	A	236817445	3	1	11	1	0	0	0	0	1	0	0	0	366	1000	35	4	1261	4	AGAP1	2	236817445	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3468572	236817445	6381928	174	8566											
CXCR7	57007	broad.mit.edu	37	chr2	237489221	237489221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgatgtgtcccaacatgcCcaacaaaagcgtcctgctct	10	9	9	13	1	1	1	0	1	1	0	3	1	3	1	3	1	5	1	3	1	4	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:237489221C>T	uc010fyq.2	+	3	343	c.113C>T	c.(112-114)CCC>CTC	p.P38L	CXCR7_uc002vwd.2_Missense_Mutation_p.P38L	NM_020311	NP_064707	P25106	CXCR7_HUMAN	chemokine orphan receptor 1	38	Extracellular (Potential).				interspecies interaction between organisms	integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3		Breast(86;0.000182)|Renal(207;0.00339)|all_hematologic(139;0.0048)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|all_lung(227;0.147)|all_neural(83;0.223)		Epithelial(121;8.35e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.09e-11)|Kidney(56;1.11e-07)|KIRC - Kidney renal clear cell carcinoma(57;3.03e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000176)|Lung(119;0.00468)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.118)		CCCAACATGCCCAACAAAAGC	0.527													3	33					0	0	0.004672	0	0		T	237489221	T	T	237489221	3	4	11	1	0	0	0	0	1	0	0	0	4099	623	22	4	115	4	CXCR7	2	237489221	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	671776	237489221	5710152	175	8567											
COL6A3	1293	broad.mit.edu	37	chr2	238262045	238262045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccaggaccgcccttgttgCcctttgaaataagagaagat	11	9	11	10	1	0	3	0	1	0	2	0	5	0	4	4	2	1	1	4	2	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:238262045C>T	uc002vwl.2	-	25	6914	c.6629G>A	c.(6628-6630)GGC>GAC	p.G2210D	COL6A3_uc002vwo.2_Missense_Mutation_p.G2004D|COL6A3_uc010znj.1_Missense_Mutation_p.G1603D|COL6A3_uc002vwp.1_Missense_Mutation_p.G31D	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2210	Triple-helical region.|Collagen-like 3.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GCCCTTGTTGCCCTTTGAAAT	0.547													4	22					0	0	0.000602	0	0		T	238262045	T	T	238262045	3	4	11	1	0	0	0	0	1	0	0	0	3704	753	26	2	2984	2	COL6A3	2	238262045	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	772824	238262045	4937328	176	8568											
LRRFIP1	9208	broad.mit.edu	37	chr2	238668757	238668757	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaccaatggagagacttcCgacaccctcaataatgttgg	12	9	9	11	1	1	1	1	0	0	1	2	4	2	2	3	2	1	2	3	2	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:238668757C>T	uc002vxe.2	+	10	1090	c.798C>T	c.(796-798)TCC>TCT	p.S266S	LRRFIP1_uc002vxc.2_Silent_p.S456S|LRRFIP1_uc010znm.1_Silent_p.S210S|LRRFIP1_uc002vxd.2_Silent_p.S242S|LRRFIP1_uc002vxf.2_Silent_p.S210S	NM_001137552	NP_001131024	Q32MZ4	LRRF1_HUMAN	leucine rich repeat (in FLII) interacting	266					negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|cytoskeleton|nucleus	DNA binding|double-stranded RNA binding|protein binding			breast(3)	3		Breast(86;0.00257)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;9.75e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.01e-10)|Kidney(56;4.85e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.31e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000151)|Lung(119;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0325)|COAD - Colon adenocarcinoma(134;0.228)		GAGAGACTTCCGACACCCTCA	0.398													17	99					0	0	0.007413	0	0		T	238668757	T	T	238668757	2	4	11	1	0	0	0	0	0	0	0	1	9045	639	23	1		1	LRRFIP1	2	238668757	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	406712	238668757	4530616	177	8569											
PER2	8864	broad.mit.edu	37	chr2	239162026	239162026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggaggtccacgggcacagCaggcactgtgaagctggcgt	8	6	16	11	2	0	1	0	1	0	0	1	2	1	2	1	5	2	4	1	5	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:239162026C>T	uc002vyc.2	-	19	2875	c.2638G>A	c.(2638-2640)GCT>ACT	p.A880T	PER2_uc010znv.1_Missense_Mutation_p.A880T	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	880	Pro-rich.				circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		ACGGGCACAGCAGGCACTGTG	0.632													6	24					0	0	0.001168	0	0		T	239162026	T	T	239162026	3	4	11	1	0	0	0	0	1	0	0	0	11749	710	25	2	1149	2	PER2	2	239162026	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	493269	239162026	4037347	178	8570											
MYEOV2	150678	broad.mit.edu	37	chr2	241066248	241066248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgttggtgccacacagcGgatgttctctgcatctggta	6	14	11	10	1	2	0	0	0	2	0	3	1	2	1	1	3	3	4	1	3	1	4	rs137993079		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr2:241066248G>A	uc002vyu.1	-	5	491	c.491C>T	c.(490-492)CCG>CTG	p.P164L		NM_138336	NP_612209	Q8WXC6	MYOV2_HUMAN	hypothetical protein LOC150678 isoform 1	Error:Variant_position_missing_in_Q8WXC6_after_alignment											0		all_epithelial(40;1.56e-11)|Breast(86;0.0002)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.81e-30)|all cancers(36;1.1e-27)|OV - Ovarian serous cystadenocarcinoma(60;2.74e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;8.54e-06)|Lung(119;0.00361)|LUSC - Lung squamous cell carcinoma(224;0.0153)|Colorectal(34;0.0202)|COAD - Colon adenocarcinoma(134;0.143)		GCCACACAGCGGATGTTCTCT	0.532													18	125					0	0	0.008871	0	0		A	241066248	A	A	241066248	3	1	11	1	0	0	0	0	1	0	0	0	10044	1116	39	1	271	1	MYEOV2	2	241066248	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1904222	241066248	2133125	179	8571											
SRGAP3	9901	broad.mit.edu	37	chr3	9034632	9034632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaatccgagatgtgctccGtgggggactggaggtcgttt	6	11	16	8	4	0	1	0	0	0	1	3	4	2	3	2	4	1	3	2	4	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:9034632G>A	uc003brf.1	-	20	3192	c.2516C>T	c.(2515-2517)ACG>ATG	p.T839M	SRGAP3_uc003brg.1_Missense_Mutation_p.T815M	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	839					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		GATGTGCTCCGTGGGGGACTG	0.562			T	RAF1	pilocytic astrocytoma								11	64					0	0	0.008291	0	0		A	9034632	A	A	9034632	3	1	11	1	0	0	0	0	1	0	0	0	15172	1145	40	1	795	1	SRGAP3	3	9034632	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08		9034632	188987798	180	8572											
SETD5	55209	broad.mit.edu	37	chr3	9483295	9483295	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttacagctgggaagagtcActcgtgttcaaaagcaccgg	12	8	12	9	2	2	1	2	0	0	1	3	2	2	2	1	2	3	4	1	2	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:9483295A>G	uc003brt.2	+	9	1264	c.829A>G	c.(829-831)ACT>GCT	p.T277A	SETD5_uc003brs.1_Missense_Mutation_p.T258A|SETD5_uc003bru.2_Missense_Mutation_p.T179A|SETD5_uc003brv.2_Missense_Mutation_p.T166A|SETD5_uc010hck.2_5'Flank|SETD5_uc003brw.1_5'Flank|SETD5_uc003brx.2_5'Flank	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	277	SET.									ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		GGGAAGAGTCACTCGTGTTCA	0.398													30	178					0	0	0.004878	0	0		G	9483295	G	G	9483295	3	3	11	1	0	0	0	0	1	0	0	0	14159	159	6	3	855	3	SETD5	3	9483295	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	448663	9483295	188539135	181	8573											
SLC6A1	6529	broad.mit.edu	37	chr3	11064133	11064133	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtatttctgtatctggaaGggtgttggctggactggaaa	8	14	15	4	0	2	0	0	0	2	0	2	3	2	3	0	5	0	4	0	5	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:11064133G>T	uc010hdq.2	+	7	1104	c.693G>T	c.(691-693)AAG>AAT	p.K231N		NM_003042	NP_003033	P30531	SC6A1_HUMAN	solute carrier family 6 (neurotransmitter	231					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)|skin(1)	2		Ovarian(110;0.0392)		OV - Ovarian serous cystadenocarcinoma(96;0.00099)	Cocaine(DB00907)|Tiagabine(DB00906)	GTATCTGGAAGGGTGTTGGCT	0.547													4	19					1.024e-07	1.16279e-07	0.000602	1	0		T	11064133	T	T	11064133	3	4	11	1	0	0	0	0	1	0	0	0	14698	991	35	5	711	5	SLC6A1	3	11064133	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1580838	11064133	186958297	182	8574											
C3orf31	132001	broad.mit.edu	37	chr3	11885643	11885643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggttctttgaatgccatgCgacagggtcatctactgtga	9	12	11	9	1	3	2	1	2	2	0	3	3	3	2	1	2	3	1	1	2	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:11885643C>T	uc003bwh.2	-	2	420	c.178G>A	c.(178-180)GCA>ACA	p.A60T	C3orf31_uc003bwj.2_Missense_Mutation_p.A60T|C3orf31_uc003bwi.2_RNA|C3orf31_uc011auo.1_Missense_Mutation_p.A60T|C3orf31_uc011aup.1_RNA|C3orf31_uc010hdy.1_RNA	NM_138807	NP_620162	Q96BW9	MMP37_HUMAN	MMP37-like protein, mitochondrial precursor	60					protein import into mitochondrial matrix	extrinsic to mitochondrial inner membrane					0						GAATGCCATGCGACAGGGTCA	0.408													13	62					0	0	0.00245	0	0		T	11885643	T	T	11885643	3	4	11	1	0	0	0	0	1	0	0	0	2224	768	27	1	796	1	C3orf31	3	11885643	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	821510	11885643	186136787	183	8575											
CAND2	23066	broad.mit.edu	37	chr3	12875478	12875478	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagactcaatggagctcagCtagtcccctcagcaccaagg	12	6	9	14	0	3	1	3	0	0	1	4	2	4	2	3	2	3	3	3	2	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:12875478C>T	uc003bxk.2	+	15	3757	c.3708C>T	c.(3706-3708)AGC>AGT	p.S1236S	CAND2_uc003bxj.2_Silent_p.S1119S	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	1236	HEAT 26.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						TGGAGCTCAGCTAGTCCCCTC	0.567													15	58					0	0	0.004007	0	0		T	12875478	T	T	12875478	2	4	11	1	0	0	0	0	0	0	0	1	2619	796	28	2		2	CAND2	3	12875478	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	989835	12875478	185146952	184	8576											
C3orf19	51244	broad.mit.edu	37	chr3	14711585	14711585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacatccgggagtgggaccGcggaaaaggtaagggaggtg	12	4	18	7	3	0	0	0	0	0	0	1	4	1	4	2	6	0	1	2	6	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:14711585G>A	uc003byw.2	+	10	1188	c.1097G>A	c.(1096-1098)CGC>CAC	p.R366H	C3orf19_uc010hej.2_Missense_Mutation_p.R195H	NM_016474	NP_057558	Q6PII3	CC019_HUMAN	hypothetical protein LOC51244	366											0						GAGTGGGACCGCGGAAAAGGT	0.512													6	30					0	0	0.001168	0	0		A	14711585	A	A	14711585	3	1	11	1	0	0	0	0	1	0	0	0	2215	1087	38	1	1135	1	C3orf19	3	14711585	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1836107	14711585	183310845	185	8577											
ANKRD28	23243	broad.mit.edu	37	chr3	15749455	15749455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctgtgtctgatgtagctGcatagtgcaggggtgtgcag	7	12	15	7	0	2	1	0	1	2	0	2	1	2	1	0	2	4	5	0	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:15749455G>A	uc003caj.1	-	14	1576	c.1433C>T	c.(1432-1434)GCA>GTA	p.A478V	ANKRD28_uc003cai.1_Missense_Mutation_p.A324V|ANKRD28_uc011avz.1_Missense_Mutation_p.A324V|ANKRD28_uc003cak.1_RNA|ANKRD28_uc011awa.1_RNA|ANKRD28_uc003cal.1_Missense_Mutation_p.A508V|ANKRD28_uc003cam.2_Missense_Mutation_p.A511V	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28	478	ANK 14.					nucleoplasm	protein binding			breast(1)	1						TGATGTAGCTGCATAGTGCAG	0.463													5	25					0	0	0.001168	0	0		A	15749455	A	A	15749455	3	1	11	1	0	0	0	0	1	0	0	0	656	1319	46	2	1788	2	ANKRD28	3	15749455	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1037870	15749455	182272975	186	8578											
KCNH8	131096	broad.mit.edu	37	chr3	19492689	19492689	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactgcgttctgacatcactAtgcacttgaacaaggagatc	13	10	8	10	1	2	3	1	2	1	1	3	4	2	3	0	1	4	2	0	1	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:19492689A>G	uc003cbk.1	+	10	1813	c.1618A>G	c.(1618-1620)ATG>GTG	p.M540V	KCNH8_uc011awe.1_3'UTR|KCNH8_uc010hex.1_Missense_Mutation_p.M1V|KCNH8_uc011awf.1_3'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	540	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						TGACATCACTATGCACTTGAA	0.438													21	127					0	0	0.008871	0	0		G	19492689	G	G	19492689	3	3	11	1	0	0	0	0	1	0	0	0	8054	449	16	3	1656	3	KCNH8	3	19492689	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	3743234	19492689	178529741	187	8579											
NR1D2	9975	broad.mit.edu	37	chr3	24004097	24004097	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggaggaagaatgcatctgGtatagtgaaatcgatttttt	12	14	11	4	1	1	2	0	1	1	1	2	5	1	4	0	3	1	2	0	3	5	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:24004097G>A	uc003ccs.2	+	5	1465	c.1146_splice	c.e5+1	p.L382_splice	NR1D2_uc010hfd.2_Splice_Site|NR1D2_uc011awk.1_Splice_Site_p.L307_splice	NM_005126	NP_005117	Q14995	NR1D2_HUMAN	nuclear receptor subfamily 1, group D, member 2						regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			urinary_tract(1)|kidney(1)|skin(1)	3						AATGCATCTGGTATAGTGAAA	0.373													6	82					0	0	0.001168	0	0		A	24004097	A	A	24004097	5	1	11	1	0	0	0	0	0	0	1	0	10635	1275	44	4	1165	4	NR1D2	3	24004097	Splice_Site	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4511408	24004097	174018333	188	8580											
GOLGA4	2803	broad.mit.edu	37	chr3	37368531	37368531	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaaaaatgtggcagcataTactgaacaagaagaagcaga	20	5	10	6	0	0	4	0	1	0	3	0	4	0	4	0	1	4	4	0	1	9	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:37368531T>C	uc003cgv.2	+	14	5458	c.5154T>C	c.(5152-5154)TAT>TAC	p.Y1718Y	GOLGA4_uc010hgr.1_Silent_p.Y1279Y|GOLGA4_uc003cgw.2_Silent_p.Y1740Y|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Silent_p.Y1599Y	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1718	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TGGCAGCATATACTGAACAAG	0.353													47	247					0	0	0.01441	0	0		C	37368531	C	C	37368531	2	2	11	1	0	0	0	0	0	0	0	1	6570	1413	49	3		3	GOLGA4	3	37368531	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	13364434	37368531	160653899	189	8581											
XYLB	9942	broad.mit.edu	37	chr3	38438615	38438615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttatagacactgccaactCggcctgtgtgggttctgcat	7	13	11	10	1	1	1	0	0	1	1	2	1	1	1	2	2	3	3	2	2	3	3	rs2234625		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:38438615C>T	uc003cic.2	+	17	1512	c.1403C>T	c.(1402-1404)TCG>TTG	p.S468L	XYLB_uc011ayp.1_Missense_Mutation_p.S331L|XYLB_uc003cid.1_Missense_Mutation_p.S390L	NM_005108	NP_005099	O75191	XYLB_HUMAN	xylulokinase	468					D-xylose metabolic process|generation of precursor metabolites and energy|xylulose catabolic process		ATP binding|xylulokinase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.00372)|Kidney(284;0.00405)		ACTGCCAACTCGGCCTGTGTG	0.542													11	58					0	0	0.00245	0	0		T	38438615	T	T	38438615	3	4	11	1	0	0	0	0	1	0	0	0	17488	893	31	1	1469	1	XYLB	3	38438615	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1070084	38438615	159583815	190	8582											
TGM4	7047	broad.mit.edu	37	chr3	44943299	44943299	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttcagtgctgagagcgttgGgcatcccagcacgcagtgtg	7	10	14	10	2	1	1	1	1	0	1	2	2	2	1	1	1	3	5	1	1	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:44943299G>T	uc003coc.3	+	8	920	c.847G>T	c.(847-849)GGC>TGC	p.G283C		NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)	283					peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	GAGAGCGTTGGGCATCCCAGC	0.577													6	40					0.00198382	0.00211834	0.001984	1	0		T	44943299	T	T	44943299	3	4	11	1	0	0	0	0	1	0	0	0	15857	1232	43	5	877	5	TGM4	3	44943299	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	6504684	44943299	153079131	191	8583											
LIMD1	8994	broad.mit.edu	37	chr3	45637492	45637492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggggccgaagcctggctGcacagaccttggcactggtc	6	7	15	13	1	0	1	0	0	0	1	1	2	0	1	3	5	2	4	3	5	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:45637492G>A	uc003coq.2	+	1	1170	c.1121G>A	c.(1120-1122)TGC>TAC	p.C374Y		NM_014240	NP_055055	Q9UGP4	LIMD1_HUMAN	LIM domains containing 1	374					cytoplasmic mRNA processing body assembly|gene silencing by miRNA|multicellular organismal development|negative regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasmic mRNA processing body|nucleus|RNA-induced silencing complex	protein binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.011)|KIRC - Kidney renal clear cell carcinoma(197;0.0264)|Kidney(197;0.0315)		AAGCCTGGCTGCACAGACCTT	0.612													8	33					0	0	0.004482	0	0		A	45637492	A	A	45637492	3	1	11	1	0	0	0	0	1	0	0	0	8814	1319	46	2	1123	2	LIMD1	3	45637492	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	694193	45637492	152384938	192	8584											
FYCO1	79443	broad.mit.edu	37	chr3	46009351	46009351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttgctgttttttctccCgcctcaactctgctagctcc	3	16	6	16	1	3	0	1	0	2	0	5	0	4	0	4	0	4	5	4	0	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:46009351C>T	uc003cpb.3	-	8	1681	c.1475G>A	c.(1474-1476)CGG>CAG	p.R492Q	FYCO1_uc011bal.1_Missense_Mutation_p.R492Q	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	492	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		TTTTTTCTCCCGCCTCAACTC	0.622													4	76					0	0	0.00308	0	0		T	46009351	T	T	46009351	3	4	11	1	0	0	0	0	1	0	0	0	6139	652	23	1	3005	1	FYCO1	3	46009351	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	371859	46009351	152013079	193	8585											
CELSR3	1951	broad.mit.edu	37	chr3	48699642	48699642	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcaaaggtcctgtccgcccGcaagaggagacctctgggcg	8	6	14	13	3	1	2	0	0	1	2	3	3	3	2	4	3	1	2	4	3	2	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:48699642G>A	uc003cul.2	-	1	707	c.426C>T	c.(424-426)TGC>TGT	p.C142C	CELSR3_uc003cuf.1_Silent_p.C212C	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	142	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CTGTCCGCCCGCAAGAGGAGA	0.622													11	69					0	0	0.00245	0	0		A	48699642	A	A	48699642	2	1	11	1	0	0	0	0	0	0	0	1	3226	1079	38	1		1	CELSR3	3	48699642	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2690291	48699642	149322788	194	8586											
QARS	5859	broad.mit.edu	37	chr3	49139862	49139862	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatccctaccttgaacttcTtctccagatcagcctccaac	9	11	3	18	0	3	2	1	1	2	1	6	2	5	2	6	0	4	0	6	0	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:49139862T>C	uc003cvx.2	-	6	565	c.560A>G	c.(559-561)AAG>AGG	p.K187R	QARS_uc011bcd.1_Missense_Mutation_p.K42R|QARS_uc003cvy.2_Missense_Mutation_p.K42R|QARS_uc011bce.1_Missense_Mutation_p.K176R|QARS_uc011bcf.1_Missense_Mutation_p.K187R	NM_005051	NP_005042	P47897	SYQ_HUMAN	glutaminyl-tRNA synthetase	187					glutaminyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|glutamine-tRNA ligase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)	L-Glutamine(DB00130)	CTTGAACTTCTTCTCCAGATC	0.572													14	93					0	0	0.007413	0	0		C	49139862	C	C	49139862	3	2	11	1	0	0	0	0	1	0	0	0	12896	1609	56	3	1843	3	QARS	3	49139862	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	440220	49139862	148882568	195	8587											
CCDC71	64925	broad.mit.edu	37	chr3	49200881	49200881	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgttggttttgctctggTgcccagagcctcgtcggggt	2	14	14	11	2	2	1	0	0	2	1	4	1	2	1	2	4	3	3	2	4	0	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:49200881T>C	uc003cwg.3	-	2	899	c.761A>G	c.(760-762)CAC>CGC	p.H254R		NM_022903	NP_075054	Q8IV32	CCD71_HUMAN	coiled-coil domain containing 71	254										ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		TTTGCTCTGGTGCCCAGAGCC	0.632													6	34					0	0	0.001984	0	0		C	49200881	C	C	49200881	3	2	11	1	0	0	0	0	1	0	0	0	2847	1696	59	3	646	3	CCDC71	3	49200881	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	61019	49200881	148821549	196	8588											
BSN	8927	broad.mit.edu	37	chr3	49688509	49688509	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccccaagggtggggaggcGgaggtcagtcccattcactt	7	7	15	12	1	2	0	2	0	0	0	3	2	3	2	3	6	0	0	3	6	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:49688509G>A	uc003cxe.3	+	4	2097	c.1983G>A	c.(1981-1983)GCG>GCA	p.A661A		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	661					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		GTGGGGAGGCGGAGGTCAGTC	0.597													6	57					0	0	0.00308	0	0		A	49688509	A	A	49688509	2	1	11	1	0	0	0	0	0	0	0	1	1533	1103	39	1		1	BSN	3	49688509	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	487628	49688509	148333921	197	8589											
MON1A	84315	broad.mit.edu	37	chr3	49947986	49947986	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagaagaccaggctgcgCgcacgcgcctgctgcaggct	8	5	15	13	4	0	2	0	0	0	2	0	3	0	2	2	3	3	5	2	3	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:49947986C>T	uc003cxz.2	-	4	1362	c.1236G>A	c.(1234-1236)GCG>GCA	p.A412A	MON1A_uc003cya.2_Silent_p.A250A|MON1A_uc003cyb.2_Silent_p.A250A	NM_032355	NP_115731	Q86VX9	MON1A_HUMAN	MON1 homolog A isoform a	315							protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		CCAGGCTGCGCGCACGCGCCT	0.692													9	18					0	0	0.004482	0	0		T	49947986	T	T	49947986	2	4	11	1	0	0	0	0	0	0	0	1	9716	755	27	1		1	MON1A	3	49947986	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	259477	49947986	148074444	198	8590											
NISCH	11188	broad.mit.edu	37	chr3	52521801	52521801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgtcttttgcttcccgCatggcgacctcaccgagttt	4	15	9	13	3	2	0	1	0	1	0	3	2	3	0	3	1	1	4	3	1	0	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:52521801C>T	uc011beg.1	+	17	2365	c.2293C>T	c.(2293-2295)CAT>TAT	p.H765Y	NISCH_uc003ded.3_Missense_Mutation_p.H765Y|NISCH_uc003dee.3_Missense_Mutation_p.H254Y|NISCH_uc003deg.1_RNA	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	765	Interaction with LIMK (By similarity).|Interaction with ITGA5 (By similarity).|Interaction with PAK1 (By similarity).				apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		TTGCTTCCCGCATGGCGACCT	0.602													7	39					0	0	0.006214	0	0		T	52521801	T	T	52521801	3	4	11	1	0	0	0	0	1	0	0	0	10451	710	25	2	2355	2	NISCH	3	52521801	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2573815	52521801	145500629	199	8591											
NT5DC2	64943	broad.mit.edu	37	chr3	52559266	52559266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccccgaagtagagcacgcGggggccacgccattccgtca	8	5	13	15	5	1	1	1	0	0	1	3	2	3	1	5	2	1	2	5	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:52559266G>A	uc003deo.2	-	11	1478	c.1054C>T	c.(1054-1056)CGC>TGC	p.R352C	NT5DC2_uc003dem.2_Missense_Mutation_p.R222C|NT5DC2_uc003den.2_Missense_Mutation_p.R389C|NT5DC2_uc010hmi.2_Missense_Mutation_p.R364C|NT5DC2_uc010hmj.2_Missense_Mutation_p.R168C	NM_022908	NP_075059	Q9H857	NT5D2_HUMAN	5'-nucleotidase domain containing 2 isoform 2	352							hydrolase activity|metal ion binding				0				BRCA - Breast invasive adenocarcinoma(193;1.7e-05)|Kidney(197;0.00177)|KIRC - Kidney renal clear cell carcinoma(197;0.002)|OV - Ovarian serous cystadenocarcinoma(275;0.0476)		TAGAGCACGCGGGGGCCACGC	0.642													3	16					0	0	0.000602	0	0		A	52559266	A	A	52559266	3	1	11	1	0	0	0	0	1	0	0	0	10710	1116	39	1	524	1	NT5DC2	3	52559266	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	37465	52559266	145463164	200	8592											
PBRM1	55193	broad.mit.edu	37	chr3	52595943	52595943	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttgattttccgtttggaGccttccttctttgcactgcc	4	18	8	11	1	1	1	0	1	1	0	3	2	3	2	4	1	3	3	4	1	0	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:52595943G>T	uc003des.2	-	25	4140	c.4128C>A	c.(4126-4128)GGC>GGA	p.G1376G	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Silent_p.G1376G|PBRM1_uc003der.2_Silent_p.G1344G|PBRM1_uc003det.2_Silent_p.G1391G|PBRM1_uc003deu.2_Silent_p.G1391G|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Silent_p.G1376G|PBRM1_uc010hmk.1_Silent_p.G1351G|PBRM1_uc003dey.2_Silent_p.G1324G|PBRM1_uc003dez.1_Silent_p.G1375G	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	1376					chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TCCGTTTGGAGCCTTCCTTCT	0.463			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								24	83					9.39395e-14	1.09526e-13	0.00632	1	0		T	52595943	T	T	52595943	2	4	11	1	0	0	0	0	0	0	0	1	11510	958	34	5		5	PBRM1	3	52595943	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	36677	52595943	145426487	201	8593											
IL17RB	55540	broad.mit.edu	37	chr3	53899191	53899191	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagattgatacaaaagaCgattacaatgctctcagtgt	16	10	9	6	1	1	4	1	1	1	3	2	6	1	4	0	0	3	1	0	0	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:53899191C>T	uc003dha.2	+	11	1404	c.1365C>T	c.(1363-1365)GAC>GAT	p.D455D		NM_018725	NP_061195	Q9NRM6	I17RB_HUMAN	interleukin 17B receptor precursor	455	SEFIR.|Cytoplasmic (Potential).			Missing (in Ref. 2; AA sequence).	defense response|regulation of cell growth	extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)		ATACAAAAGACGATTACAATG	0.463													12	70					0	0	0.00245	0	0		T	53899191	T	T	53899191	2	4	11	1	0	0	0	0	0	0	0	1	7656	535	19	1		1	IL17RB	3	53899191	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1303248	53899191	144123239	202	8594											
LRTM1	57408	broad.mit.edu	37	chr3	54952709	54952709	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttggcttgggtttgagcTcgcactccaagagttctcgc	5	12	12	12	2	1	2	0	1	1	1	4	2	2	2	2	2	1	5	2	2	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:54952709T>A	uc003dhl.2	-	3	949	c.815A>T	c.(814-816)GAG>GTG	p.E272V	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	272	Extracellular (Potential).					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		GGGTTTGAGCTCGCACTCCAA	0.607													7	53					0	0	0.001984	0	0		A	54952709	A	A	54952709	3	1	11	1	0	0	0	0	1	0	0	0	9062	1551	54	5	226	5	LRTM1	3	54952709	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1053518	54952709	143069721	203	8595											
FAM107A	11170	broad.mit.edu	37	chr3	58555555	58555555	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggccatcaggcccccaatGtctgcccgctccctctggat	5	8	10	18	2	3	0	1	0	2	0	4	1	4	1	5	3	1	1	5	3	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:58555555G>A	uc003dkm.2	-	3	592	c.33C>T	c.(31-33)GAC>GAT	p.D11D	FAM107A_uc003dko.2_Silent_p.D42D|FAM107A_uc003dkn.2_Silent_p.D11D|FAM107A_uc010hnm.2_Silent_p.D39D|FAM107A_uc003dkp.1_Silent_p.D11D	NM_007177	NP_009108	O95990	F107A_HUMAN	downregulated in renal cell carcinoma	11					regulation of cell growth	nucleus	protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000189)|Kidney(10;0.000536)|KIRC - Kidney renal clear cell carcinoma(10;0.000716)|OV - Ovarian serous cystadenocarcinoma(275;0.154)		GGCCCCCAATGTCTGCCCGCT	0.597													7	31					0	0	0.004482	0	0		A	58555555	A	A	58555555	2	1	11	1	0	0	0	0	0	0	0	1	5400	1368	48	4		4	FAM107A	3	58555555	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3602846	58555555	139466875	204	8596											
LRIG1	26018	broad.mit.edu	37	chr3	66467669	66467669	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagctggctcccctccacGctgcgaatcttgttgtgctg	4	13	10	14	2	2	0	1	0	1	0	4	1	4	0	3	1	3	5	3	1	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:66467669G>A	uc003dmx.2	-	4	401	c.387C>T	c.(385-387)AGC>AGT	p.S129S	LRIG1_uc010hnz.2_5'UTR|LRIG1_uc010hoa.2_Silent_p.S129S	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	129	Extracellular (Potential).|LRR 3.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		TCCCCTCCACGCTGCGAATCT	0.488													30	152					0	0	0.004878	0	0		A	66467669	A	A	66467669	2	1	11	1	0	0	0	0	0	0	0	1	8962	1078	38	1		1	LRIG1	3	66467669	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	7912114	66467669	131554761	205	8597											
KBTBD8	84541	broad.mit.edu	37	chr3	67053771	67053771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaagccttgttcactgcagCtagcatcttccagattcctt	8	14	6	13	0	3	1	2	0	1	1	5	1	5	1	3	0	4	4	3	0	2	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:67053771C>T	uc003dmy.2	+	3	433	c.380C>T	c.(379-381)GCT>GTT	p.A127V	KBTBD8_uc011bfv.1_Intron	NM_032505	NP_115894	Q8NFY9	KBTB8_HUMAN	T-cell activation kelch repeat protein	127										ovary(2)|large_intestine(1)|breast(1)	4		Lung NSC(201;0.0765)		BRCA - Breast invasive adenocarcinoma(55;6.02e-06)|KIRC - Kidney renal clear cell carcinoma(39;0.105)|Kidney(39;0.125)		TTCACTGCAGCTAGCATCTTC	0.418													21	124					0	0	0.004656	0	0		T	67053771	T	T	67053771	3	4	11	1	0	0	0	0	1	0	0	0	8015	797	28	2	390	2	KBTBD8	3	67053771	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	586102	67053771	130968659	206	8598											
GXYLT2	727936	broad.mit.edu	37	chr3	72971426	72971426	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcacattttctgttggAaaccctcaggagtggaagaa	12	10	9	10	0	3	1	2	0	1	1	3	4	3	4	2	3	1	1	2	3	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:72971426A>G	uc003dpg.2	+	3	540	c.540A>G	c.(538-540)GGA>GGG	p.G180G		NM_001080393	NP_001073862	A0PJZ3	GXLT2_HUMAN	glycosyltransferase 8 domain containing 4	180	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						TTTCTGTTGGAAACCCTCAGG	0.453													35	171					0	0	0.004878	0	0		G	72971426	G	G	72971426	2	3	11	1	0	0	0	0	0	0	0	1	6920	233	9	3		3	GXYLT2	3	72971426	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	5917655	72971426	125051004	207	8599											
CNTN3	5067	broad.mit.edu	37	chr3	74420384	74420384	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaggagttggagagcccagCactcgggcatttgtcaccat	11	8	12	10	1	1	1	1	0	0	1	2	3	1	2	2	3	2	3	2	3	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:74420384C>T	uc003dpm.1	-	5	701	c.621G>A	c.(619-621)GTG>GTA	p.V207V		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	207	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		GAGAGCCCAGCACTCGGGCAT	0.493													7	49					0	0	0.00308	0	0		T	74420384	T	T	74420384	2	4	11	1	0	0	0	0	0	0	0	1	3645	697	25	2		2	CNTN3	3	74420384	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1448958	74420384	123602046	208	8600											
VGLL3	389136	broad.mit.edu	37	chr3	87027811	87027811	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccctggaaataagtgaaaaGgacacagcgagagttaaggt	16	7	12	6	1	0	2	0	1	0	1	1	5	1	4	1	3	1	1	1	3	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:87027811G>T	uc003dqn.2	-	2	632	c.268C>A	c.(268-270)CTT>ATT	p.L90I		NM_016206	NP_057290	A8MV65	VGLL3_HUMAN	colon carcinoma related protein	90					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)		TAAGTGAAAAGGACACAGCGA	0.408													14	65					1.49906e-05	1.64368e-05	0.00245	1	0		T	87027811	T	T	87027811	3	4	11	1	0	0	0	0	1	0	0	0	17186	1000	35	5	724	5	VGLL3	3	87027811	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	12607427	87027811	110994619	209	8601											
EPHA3	2042	broad.mit.edu	37	chr3	89499360	89499360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagatgagggctatcgactgCcaccccccatggactgccca	9	7	10	15	1	0	2	0	1	0	1	1	4	0	3	5	2	2	1	5	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:89499360C>T	uc003dqy.2	+	15	2755	c.2530C>T	c.(2530-2532)CCA>TCA	p.P844S	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	844	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		CTATCGACTGCCACCCCCCAT	0.468										TSP Lung(6;0.00050)			5	33					0	0	0.001168	0	0		T	89499360	T	T	89499360	3	4	11	1	0	0	0	0	1	0	0	0	5176	739	26	2	2614	2	EPHA3	3	89499360	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2471549	89499360	108523070	210	8602											
IMPG2	50939	broad.mit.edu	37	chr3	100949961	100949961	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcacagtgcttgcctcGgtaccaccagttctcaccca	7	11	6	17	1	2	0	2	0	1	0	5	0	3	0	5	1	3	3	5	1	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:100949961G>A	uc003duq.1	-	16	3465	c.3262C>T	c.(3262-3264)CGA>TGA	p.R1088*	IMPG2_uc011bhe.1_Nonsense_Mutation_p.R951*|IMPG2_uc010hpj.1_Intron	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	1088	Extracellular (Potential).|EGF-like 2.|Hyaluronan-binding motif involved in chondroitin sulfate C-binding (By similarity).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						TGCTTGCCTCGGTACCACCAG	0.493													33	228					0	0	0.013726	0	0		A	100949961	A	A	100949961	4	1	11	1	0	0	0	0	0	1	0	0	7745	1124	39	1	479	1	IMPG2	3	100949961	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	11450601	100949961	97072469	211	8603											
MYH15	22989	broad.mit.edu	37	chr3	108183492	108183492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaggtaactcaccactcctGcataatggacaagttcaaaa	16	8	7	10	0	2	1	2	0	0	1	3	2	3	2	2	2	2	3	2	2	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:108183492G>A	uc003dxa.1	-	16	1841	c.1784C>T	c.(1783-1785)GCA>GTA	p.A595V		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	595	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CACCACTCCTGCATAATGGAC	0.408													30	226					0	0	0.003271	0	0		A	108183492	A	A	108183492	3	1	11	1	0	0	0	0	1	0	0	0	10052	1319	46	2	4164	2	MYH15	3	108183492	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	7233531	108183492	89838938	212	8604											
WDR52	55779	broad.mit.edu	37	chr3	113092397	113092397	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatagaaaaccagaatcatAgccaccctagaaaagagata	21	6	6	8	0	1	4	1	0	0	4	1	5	1	4	3	0	2	0	3	0	10	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:113092397A>G	uc003eae.1	-	18	2351	c.2305T>C	c.(2305-2307)TAT>CAT	p.Y769H		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	769										central_nervous_system(1)	1						CCAGAATCATAGCCACCCTAG	0.333													6	42					0	0	0.001168	0	0		G	113092397	G	G	113092397	3	3	11	1	0	0	0	0	1	0	0	0	17330	420	15	3	3346	3	WDR52	3	113092397	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	4908905	113092397	84930033	213	8605											
SIDT1	54847	broad.mit.edu	37	chr3	113285337	113285337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggtccttgttgtggttcGccagcagaaagaggtgctgt	6	11	14	10	2	0	2	0	0	0	2	2	2	1	2	3	3	2	4	3	3	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:113285337G>A	uc003eak.2	+	2	944	c.293G>A	c.(292-294)CGC>CAC	p.R98H	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Missense_Mutation_p.R98H|SIDT1_uc011big.1_5'UTR	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	98	Extracellular (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						GTTGTGGTTCGCCAGCAGAAA	0.493													17	77					0	0	0.012319	0	0		A	113285337	A	A	113285337	3	1	11	1	0	0	0	0	1	0	0	0	14327	1087	38	1	299	1	SIDT1	3	113285337	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	192940	113285337	84737093	214	8606											
KIAA2018	205717	broad.mit.edu	37	chr3	113378994	113378994	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagatttaacttgtggcTgggcaattagtggctgcata	9	13	13	6	0	0	1	0	1	0	1	0	2	0	1	0	3	2	5	0	3	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:113378994T>G	uc003eam.2	-	7	1946	c.1535A>C	c.(1534-1536)CAG>CCG	p.Q512P	KIAA2018_uc003eal.2_Missense_Mutation_p.Q456P	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	512					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						AACTTGTGGCTGGGCAATTAG	0.438													3	63					0	0	0.009096	0	0		G	113378994	G	G	113378994	3	3	11	1	0	0	0	0	1	0	0	0	8284	1580	55	5	5206	5	KIAA2018	3	113378994	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	93657	113378994	84643436	215	8607											
KIAA1407	57577	broad.mit.edu	37	chr3	113697052	113697052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtcactgtgctccgctgCaatctcatgcttgccctgag	5	12	9	15	1	2	1	2	1	1	0	4	1	3	1	3	0	4	4	3	0	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:113697052C>T	uc003eax.2	-	16	2734	c.2587G>A	c.(2587-2589)GCA>ACA	p.A863T	KIAA1407_uc011bin.1_RNA	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	863										ovary(2)	2						TGCTCCGCTGCAATCTCATGC	0.418													15	84					0	0	0.007413	0	0		T	113697052	T	T	113697052	3	4	11	1	0	0	0	0	1	0	0	0	8245	710	25	2	231	2	KIAA1407	3	113697052	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	318058	113697052	84325378	216	8608											
STXBP5L	9515	broad.mit.edu	37	chr3	121132132	121132132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctcctactgaaattcagCggttaacatacagccaagaa	14	10	6	11	1	2	2	1	1	1	1	4	2	3	2	2	1	5	1	2	1	6	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:121132132C>T	uc003eec.3	+	25	3288	c.3148C>T	c.(3148-3150)CGG>TGG	p.R1050W	STXBP5L_uc011bji.1_Missense_Mutation_p.R1026W	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	1050	WD 14.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		TGAAATTCAGCGGTTAACATA	0.383													6	78					0	0	0.006214	0	0		T	121132132	T	T	121132132	3	4	11	1	0	0	0	0	1	0	0	0	15382	759	27	1	3242	1	STXBP5L	3	121132132	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	7435080	121132132	76890298	217	8609											
CD86	942	broad.mit.edu	37	chr3	121825268	121825268	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttgtctgtttcattcccTgatgttacgagcaatatgac	9	15	8	9	1	2	2	1	2	1	0	3	3	3	2	1	0	3	4	1	0	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:121825268T>C	uc003eet.2	+	4	740	c.624T>C	c.(622-624)CCT>CCC	p.P208P	CD86_uc011bjo.1_Silent_p.P126P|CD86_uc011bjp.1_Silent_p.P96P|CD86_uc003eeu.2_Silent_p.P202P	NM_175862	NP_787058	P42081	CD86_HUMAN	CD86 antigen isoform 1	208	Ig-like C2-type.|Extracellular (Potential).				interspecies interaction between organisms|positive regulation of cell proliferation|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of lymphotoxin A biosynthetic process|positive regulation of T-helper 2 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation		coreceptor activity|protein binding			pancreas(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.156)	Abatacept(DB01281)	TTTCATTCCCTGATGTTACGA	0.398													21	125					0	0	0.00278	0	0		C	121825268	C	C	121825268	2	2	11	1	0	0	0	0	0	0	0	1	3046	1567	55	3		3	CD86	3	121825268	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	693136	121825268	76197162	218	8610											
ZNF148	7707	broad.mit.edu	37	chr3	124951370	124951370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatccatgatagggagcacGgaagggctgttcaaaggagc	12	7	15	7	1	1	2	1	2	0	0	2	5	2	5	1	4	2	3	1	4	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:124951370G>A	uc003ehx.3	-	9	2686	c.2200C>T	c.(2200-2202)CGT>TGT	p.R734C	SLC12A8_uc003ehw.3_Intron|ZNF148_uc003ehz.3_Missense_Mutation_p.R734C|ZNF148_uc010hsa.2_Missense_Mutation_p.R734C|ZNF148_uc003eia.3_Missense_Mutation_p.R734C|ZNF148_uc003ehy.2_Missense_Mutation_p.R71C	NM_021964	NP_068799	Q9UQR1	ZN148_HUMAN	zinc finger protein 148	734					cellular defense response|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4						TAGGGAGCACGGAAGGGCTGT	0.493													14	60					0	0	0.003163	0	0		A	124951370	A	A	124951370	3	1	11	1	0	0	0	0	1	0	0	0	17759	1116	39	1	188	1	ZNF148	3	124951370	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3126102	124951370	73071060	219	8611											
TXNRD3IT1	645840	broad.mit.edu	37	chr3	126291169	126291169	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatctggcttgcagtgccCtggagatcttcagtagtctc	7	12	11	11	0	4	2	1	0	3	2	5	3	4	2	1	2	2	3	1	2	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:126291169C>A	uc003ejc.2	-	3	697	c.218G>T	c.(217-219)AGG>ATG	p.R73M		NM_001039783	NP_001034872	Q6F5E7	TR3N_HUMAN	thioredoxin reductase 3 intronic transcript 1	73											0						ttgcagtgccctggAGATCTT	0.259													7	56					0.00198382	0.00211834	0.001984	1	0		A	126291169	A	A	126291169	3	1	11	1	0	0	0	0	1	0	0	0	16835	681	24	5	191	5	TXNRD3IT1	3	126291169	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1339799	126291169	71731261	220	8612											
ACAD9	28976	broad.mit.edu	37	chr3	128621403	128621403	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctccctgcaggtggccaTgaacatcctcaacagcggcc	8	8	10	15	1	2	1	1	1	1	0	4	1	3	1	4	3	4	2	4	3	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:128621403T>C	uc003ela.3	+	9	1092	c.890T>C	c.(889-891)ATG>ACG	p.M297T	ACAD9_uc010hsw.1_Missense_Mutation_p.M174T|ACAD9_uc011bks.1_Missense_Mutation_p.M174T|ACAD9_uc003elb.2_Missense_Mutation_p.M174T|ACAD9_uc003elc.1_Missense_Mutation_p.M115T|ACAD9_uc003eld.1_RNA|ACAD9_uc003ele.2_5'Flank	NM_014049	NP_054768	Q9H845	ACAD9_HUMAN	acyl-Coenzyme A dehydrogenase family, member 9	297						mitochondrion	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding			ovary(2)|central_nervous_system(1)	3						CAGGTGGCCATGAACATCCTC	0.612													7	24					0	0	0.013537	0	0		C	128621403	C	C	128621403	3	2	11	1	0	0	0	0	1	0	0	0	111	1464	51	3	924	3	ACAD9	3	128621403	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2330234	128621403	69401027	221	8613											
NPHP3	27031	broad.mit.edu	37	chr3	132403635	132403635	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttcagaaactggtcagcTgttctgtgaacacaatccca	11	10	8	12	1	3	2	2	1	1	1	4	2	4	2	1	1	3	3	1	1	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:132403635T>C	uc003epe.1	-	24	3410	c.3333A>G	c.(3331-3333)ACA>ACG	p.T1111T	NPHP3_uc003eoz.1_5'UTR|NPHP3_uc003epd.1_Silent_p.T353T	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	1111	TPR 7.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						ACTGGTCAGCTGTTCTGTGAA	0.418													8	54					0	0	0.006214	0	0		C	132403635	C	C	132403635	2	2	11	1	0	0	0	0	0	0	0	1	10599	1567	55	3		3	NPHP3	3	132403635	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	3782232	132403635	65618795	222	8614											
CEP63	80254	broad.mit.edu	37	chr3	134278244	134278244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacactatgtctgagagtatGaatgaccaagaagagtttat	15	11	10	5	0	1	5	0	3	1	3	1	7	1	5	1	0	0	2	1	0	6	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:134278244G>A	uc003eqo.1	+	15	2375	c.1926G>A	c.(1924-1926)ATG>ATA	p.M642I	CEP63_uc003eql.1_Intron|CEP63_uc003eqm.2_Intron|CEP63_uc003eqn.1_Intron	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	642					cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						CTGAGAGTATGAATGACCAAG	0.333													11	60					0	0	0.013537	0	0		A	134278244	A	A	134278244	3	1	11	1	0	0	0	0	1	0	0	0	3260	1290	45	4	1976	4	CEP63	3	134278244	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1874609	134278244	63744186	223	8615											
ZBTB38	253461	broad.mit.edu	37	chr3	141161920	141161920	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtttcttccgtagctgaAgcttacagaagtcagcctgt	8	13	10	10	1	2	2	1	1	1	1	3	2	3	2	2	0	4	5	2	0	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:141161920A>C	uc003etw.2	+	8	1672	c.690A>C	c.(688-690)GAA>GAC	p.E230D	ZBTB38_uc010hun.2_Missense_Mutation_p.E227D|ZBTB38_uc010huo.2_Missense_Mutation_p.E230D|ZBTB38_uc003ety.2_Missense_Mutation_p.E230D|ZBTB38_uc010hup.2_Missense_Mutation_p.E231D	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	230					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CCGTAGCTGAAGCTTACAGAA	0.532													8	50					0	0	0.00308	0	0		C	141161920	C	C	141161920	3	2	11	1	0	0	0	0	1	0	0	0	17564	69	3	5	692	5	ZBTB38	3	141161920	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	6883676	141161920	56860510	224	8616											
FAM194A	131831	broad.mit.edu	37	chr3	150416589	150416589	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actactcactcgattgcactTtatcagacaaatcttggagc	12	12	6	11	1	3	1	2	0	1	1	4	3	3	2	0	1	3	1	0	1	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:150416589T>C	uc003eyg.2	-	3	599	c.542A>G	c.(541-543)AAA>AGA	p.K181R	FAM194A_uc003eyh.2_Missense_Mutation_p.K35R	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	181										skin(2)|ovary(1)	3						CGATTGCACTTTATCAGACAA	0.269													17	105					0	0	0.00499	0	0		C	150416589	C	C	150416589	3	2	11	1	0	0	0	0	1	0	0	0	5537	1841	64	3	1497	3	FAM194A	3	150416589	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	9254669	150416589	47605841	225	8617											
RSRC1	51319	broad.mit.edu	37	chr3	157920896	157920896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtctccgttctcatagtcGtagcagtgaaaggtccagtc	8	12	10	11	3	2	1	1	1	2	0	8	1	3	1	2	1	1	3	2	1	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:157920896G>A	uc003fbt.2	+	4	467	c.356G>A	c.(355-357)CGT>CAT	p.R119H	RSRC1_uc011bou.1_Intron|RSRC1_uc003fbu.1_Missense_Mutation_p.R119H|RSRC1_uc003fbv.2_Intron	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	119	Arg/Ser-rich.				nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			TCTCATAGTCGTAGCAGTGAA	0.378													6	47					0	0	0.00308	0	0		A	157920896	A	A	157920896	3	1	11	1	0	0	0	0	1	0	0	0	13739	1145	40	1	366	1	RSRC1	3	157920896	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	7504307	157920896	40101534	226	8618											
WDR49	151790	broad.mit.edu	37	chr3	167246886	167246886	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcaagatctcctgtggtaAggtatcgattcatcttatca	11	14	7	9	1	5	1	3	0	2	1	7	2	5	1	1	2	0	2	1	2	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:167246886A>C	uc003fev.1	-	10	1610	c.1304T>G	c.(1303-1305)CTT>CGT	p.L435R	WDR49_uc003feu.1_Missense_Mutation_p.L260R|WDR49_uc011bpd.1_Missense_Mutation_p.L499R|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	435	WD 7.									large_intestine(1)|ovary(1)|skin(1)	3						TCCTGTGGTAAGGTATCGATT	0.338													5	82					0	0	0.004482	0	0		C	167246886	C	C	167246886	3	2	11	1	0	0	0	0	1	0	0	0	17328	72	3	5	813	5	WDR49	3	167246886	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	9325990	167246886	30775544	227	8619											
GOLIM4	27333	broad.mit.edu	37	chr3	167750557	167750557	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctgaaattctgcctccttAtgggtgggagcatagagttt	8	13	12	8	0	1	2	0	1	1	1	2	3	2	3	3	2	2	2	3	2	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:167750557A>G	uc003ffe.2	-	9	1271	c.927T>C	c.(925-927)CAT>CAC	p.H309H	GOLIM4_uc011bpe.1_Silent_p.H309H|GOLIM4_uc011bpf.1_Silent_p.H281H|GOLIM4_uc011bpg.1_Silent_p.H281H	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	309	Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						CTGCCTCCTTATGGGTGGGAG	0.512													13	84					0	0	0.00245	0	0		G	167750557	G	G	167750557	2	3	11	1	0	0	0	0	0	0	0	1	6581	446	16	3		3	GOLIM4	3	167750557	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	503671	167750557	30271873	228	8620											
NAALADL2	254827	broad.mit.edu	37	chr3	174814591	174814591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttcacaggtaaaaagatgGcctatcagaaggtccatgca	14	10	9	8	0	2	2	2	0	0	2	3	2	3	2	2	3	1	2	2	3	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:174814591G>A	uc003fit.2	+	2	142	c.55G>A	c.(55-57)GCC>ACC	p.A19T	NAALADL2_uc003fiu.1_Missense_Mutation_p.A12T	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	19	Cytoplasmic (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		TAAAAAGATGGCCTATCAGAA	0.343													6	15					0	0	0.001168	0	0		A	174814591	A	A	174814591	3	1	11	1	0	0	0	0	1	0	0	0	10148	1203	42	2	61	2	NAALADL2	3	174814591	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	7064034	174814591	23207839	229	8621											
TBL1XR1	79718	broad.mit.edu	37	chr3	176756101	176756101	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaaaaaaggtttcttacCgtatgtccttggaatgtttt	10	16	10	5	1	1	0	0	0	1	0	2	2	2	2	2	3	1	3	2	3	6	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:176756101C>T	uc003fiw.3	-	11	1307	c.1047G>A	c.(1045-1047)ACG>ACA	p.T349T	TBL1XR1_uc003fix.3_Silent_p.T349T|TBL1XR1_uc011bpz.1_Silent_p.T21T	NM_024665	NP_078941	Q9BZK7	TBL1R_HUMAN	transducin (beta)-like 1 X-linked receptor 1	349	WD 5.				canonical Wnt receptor signaling pathway|cellular lipid metabolic process|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein N-terminus binding|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(143;1.44e-17)|Ovarian(172;0.00163)|Breast(254;0.214)	Acute lymphoblastic leukemia(1;0.00599)|all_hematologic(1;0.0632)|Prostate(884;0.215)	OV - Ovarian serous cystadenocarcinoma(80;9.83e-31)			GGTTTCTTACCGTATGTCCTT	0.343													3	18					0	0	0.009096	0	0		T	176756101	T	T	176756101	2	4	11	1	0	0	0	0	0	0	0	1	15665	666	23	1		1	TBL1XR1	3	176756101	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1941510	176756101	21266329	230	8622											
KCNMB3	27094	broad.mit.edu	37	chr3	178977011	178977011	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgtactttctgcttcacaGgcatcactaatgtcctgtga	8	15	7	11	0	4	1	2	1	2	0	5	1	5	1	1	1	2	3	1	1	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:178977011G>T	uc003fjo.2	-	1	669	c.-273C>A	c.(-275--271)GCCTG>GCATG		KCNMB3_uc003fjl.3_RNA|KCNMB3_uc011bqc.1_Intron|KCNMB3_uc003fjp.1_Intron	NM_171829	NP_741980	Q9NPA1	KCMB3_HUMAN	calcium-activated potassium channel beta 3						detection of calcium ion|platelet activation|regulation of action potential in neuron	voltage-gated potassium channel complex	calcium-activated potassium channel activity|potassium channel regulator activity				0	all_cancers(143;5.6e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;2.41e-27)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.03)			CTGCTTCACAGGCATCACTAA	0.458													8	53					0.00307968	0.00328315	0.00308	1	0		T	178977011	T	T	178977011	1	4	11	1	0	0	0	0	0	0	0	0	8092	1015	35	5		5	KCNMB3	3	178977011	Translation_Start_Site	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2220910	178977011	19045419	231	8623											
EIF2B5	8893	broad.mit.edu	37	chr3	183859721	183859721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgagccaggtgataacGtggtgctggaccagacctac	10	8	12	11	1	0	3	0	2	0	1	1	4	1	4	4	3	4	1	4	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:183859721G>A	uc003fmp.2	+	8	1529	c.1165G>A	c.(1165-1167)GTG>ATG	p.V389M	EIF2B5_uc003fmq.2_Missense_Mutation_p.V110M|EIF2B5_uc003fmr.2_5'Flank	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	389					astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			AGGTGATAACGTGGTGCTGGA	0.572													8	51					0	0	0.006214	0	0		A	183859721	A	A	183859721	3	1	11	1	0	0	0	0	1	0	0	0	5010	1145	40	1	1195	1	EIF2B5	3	183859721	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4882710	183859721	14162709	232	8624											
ADIPOQ	9370	broad.mit.edu	37	chr3	186572260	186572260	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctaccacatcacagtctatAtgaaggatgtgaaggtcagc	13	9	9	10	0	3	2	2	2	1	0	3	3	3	3	2	2	2	0	2	2	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:186572260A>G	uc003fra.2	+	3	586	c.502A>G	c.(502-504)ATG>GTG	p.M168V	ADIPOQ_uc010hyy.2_Missense_Mutation_p.M168V	NM_004797	NP_004788	Q15848	ADIPO_HUMAN	adiponectin precursor	168	C1q.				brown fat cell differentiation|cellular response to drug|cellular response to insulin stimulus|detection of oxidative stress|fatty acid beta-oxidation|generation of precursor metabolites and energy|glucose homeostasis|glucose metabolic process|low-density lipoprotein particle clearance|negative regulation of blood pressure|negative regulation of DNA biosynthetic process|negative regulation of ERK1 and ERK2 cascade|negative regulation of eukaryotic cell surface binding|negative regulation of fat cell differentiation|negative regulation of gluconeogenesis|negative regulation of granulocyte differentiation|negative regulation of heterotypic cell-cell adhesion|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of intracellular protein transport|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|negative regulation of macrophage differentiation|negative regulation of MAP kinase activity|negative regulation of phagocytosis|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein autophosphorylation|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of synaptic transmission|negative regulation of transcription, DNA-dependent|negative regulation of tumor necrosis factor production|negative regulation of tumor necrosis factor-mediated signaling pathway|positive regulation of cAMP-dependent protein kinase activity|positive regulation of cholesterol efflux|positive regulation of fatty acid metabolic process|positive regulation of glucose import|positive regulation of glycogen (starch) synthase activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of metanephric glomerular visceral epithelial cell development|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myeloid cell apoptosis|positive regulation of protein kinase A signaling cascade|positive regulation of renal albumin absorption|protein homooligomerization|protein localization in plasma membrane|response to glucose stimulus|response to tumor necrosis factor	collagen|endoplasmic reticulum|extracellular space	cytokine activity|eukaryotic cell surface binding|hormone activity|protein homodimerization activity			ovary(1)	1	all_cancers(143;1.2e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.47e-19)	GBM - Glioblastoma multiforme(93;0.0776)		CACAGTCTATATGAAGGATGT	0.463													16	97					0	0	0.006122	0	0		G	186572260	G	G	186572260	3	3	11	1	0	0	0	0	1	0	0	0	317	449	16	3	508	3	ADIPOQ	3	186572260	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	2712539	186572260	11450170	233	8625											
LPP	4026	broad.mit.edu	37	chr3	188327061	188327061	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccaagaagtctacattgaAaccacagcctgcaccccagg	15	5	7	14	0	1	2	0	1	1	1	1	2	1	2	5	1	5	1	5	1	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:188327061A>G	uc003frs.1	+	6	788	c.542A>G	c.(541-543)AAA>AGA	p.K181R	LPP_uc011bsg.1_Missense_Mutation_p.K181R|LPP_uc011bsi.1_Missense_Mutation_p.K181R|LPP_uc003frt.2_Missense_Mutation_p.K181R|LPP_uc011bsj.1_Missense_Mutation_p.K18R	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	181	Pro-rich.				cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		TCTACATTGAAACCACAGCCT	0.577			T	HMGA2|MLL|C12orf9	lipoma|leukemia								32	187					0	0	0.006999	0	0		G	188327061	G	G	188327061	3	3	11	1	0	0	0	0	1	0	0	0	8941	14	1	3	556	3	LPP	3	188327061	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1754801	188327061	9695369	234	8626											
IL1RAP	3556	broad.mit.edu	37	chr3	190366420	190366420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcagctgcaggtggccatgCcagtgaagaaaagtcccagg	12	5	14	10	0	0	2	0	1	0	1	1	2	1	2	3	3	4	3	3	3	3	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:190366420C>T	uc003fsm.1	+	12	1845	c.1639C>T	c.(1639-1641)CCA>TCA	p.P547S	IL1RAP_uc010hzg.1_Missense_Mutation_p.P547S|IL1RAP_uc003fsn.1_RNA|IL1RAP_uc003fso.1_Missense_Mutation_p.P547S|IL1RAP_uc003fsp.1_RNA|IL1RAP_uc003fsq.2_Intron	NM_002182	NP_002173	Q9NPH3	IL1AP_HUMAN	interleukin 1 receptor accessory protein isoform	547	Cytoplasmic (Potential).|TIR.				inflammatory response|innate immune response|protein complex assembly	extracellular region|integral to plasma membrane				ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0733)|Breast(254;0.21)		Lung(62;1.95e-06)|LUSC - Lung squamous cell carcinoma(58;2.05e-06)	GBM - Glioblastoma multiforme(93;0.00851)		GGTGGCCATGCCAGTGAAGAA	0.473													8	54					0	0	0.006214	0	0		T	190366420	T	T	190366420	3	4	11	1	0	0	0	0	1	0	0	0	7676	739	26	2	1697	2	IL1RAP	3	190366420	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2039359	190366420	7656010	235	8627											
ATP13A4	84239	broad.mit.edu	37	chr3	193160315	193160315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaccattccagattttctgGccactgttattgcagtctga	10	14	7	10	0	2	2	0	1	2	1	3	2	3	2	3	1	2	2	3	1	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:193160315G>A	uc003ftd.2	-	19	2291	c.2183C>T	c.(2182-2184)GCC>GTC	p.A728V	ATP13A4_uc003fte.1_Missense_Mutation_p.A728V|ATP13A4_uc011bsr.1_Missense_Mutation_p.A199V|ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	728	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		AGATTTTCTGGCCACTGTTAT	0.413													11	77					0	0	0.010729	0	0		A	193160315	A	A	193160315	3	1	11	1	0	0	0	0	1	0	0	0	1127	1203	42	2	1455	2	ATP13A4	3	193160315	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2793895	193160315	4862115	236	8628											
GP5	2814	broad.mit.edu	37	chr3	194118478	194118478	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgggtcaggttgtttccCgataaatccaacaacttcag	11	11	10	9	1	2	0	2	0	0	0	4	1	4	0	2	3	2	2	2	3	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:194118478C>T	uc003ftv.1	-	2	565	c.534G>A	c.(532-534)TCG>TCA	p.S178S		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	178	Extracellular (Potential).|LRR 5.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		GGTTGTTTCCCGATAAATCCA	0.532													14	67					0	0	0.004007	0	0		T	194118478	T	T	194118478	2	4	11	1	0	0	0	0	0	0	0	1	6598	639	23	1		1	GP5	3	194118478	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	958163	194118478	3903952	237	8629											
MUC4	4585	broad.mit.edu	37	chr3	195506147	195506147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgtggatactgaggaaaGgctggtgagaggaagagggg	12	6	19	4	0	0	3	0	2	0	2	0	7	0	6	1	7	1	1	1	7	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:195506147G>A	uc011bto.1	-	3	12380	c.11920C>T	c.(11920-11922)CTT>TTT	p.L3974F	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_5'Flank|MUC4_uc011btg.1_5'Flank|MUC4_uc011bth.1_5'Flank|MUC4_uc011bti.1_5'Flank|MUC4_uc011btj.1_5'Flank|MUC4_uc011btk.1_5'Flank|MUC4_uc011btl.1_5'Flank|MUC4_uc011btm.1_5'Flank|MUC4_uc011btn.1_5'Flank|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		ACTGAGGAAAGGCTGGTGAGA	0.592													4	5					0	0	0.001168	0	0		A	195506147	A	A	195506147	3	1	11	1	0	0	0	0	1	0	0	0	9996	1000	35	4		4	MUC4	3	195506147	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1387669	195506147	2516283	238	8630											
MUC4	4585	broad.mit.edu	37	chr3	195509830	195509830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaggggtggcatgacctgtgGacactgaggaagcgtcggtg	8	7	19	7	2	0	2	0	2	0	0	1	5	0	4	1	6	1	1	1	6	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:195509830G>A	uc011bto.1	-	3	8697	c.8237C>T	c.(8236-8238)TCC>TTC	p.S2746F	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	624					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		ATGACCTGTGGACACTGAGGA	0.592													3	27					0	0	0.009096	0	0		A	195509830	A	A	195509830	3	1	11	1	0	0	0	0	1	0	0	0	9996	1174	41	4		4	MUC4	3	195509830	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3683	195509830	2512600	239	8631											
PAK2	5062	broad.mit.edu	37	chr3	196554107	196554107	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatggaaccccagaacttcAgaatccagagaaactttccc	15	8	6	12	0	1	3	1	0	0	3	3	5	3	4	4	1	3	0	4	1	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr3:196554107A>G	uc003fwy.3	+	14	1713	c.1391A>G	c.(1390-1392)CAG>CGG	p.Q464R		NM_002577	NP_002568	Q13177	PAK2_HUMAN	p21-activated kinase 2	464	Protein kinase.				axon guidance|cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of apoptosis|regulation of defense response to virus by virus|regulation of growth|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|nucleus|perinuclear region of cytoplasm|plasma membrane	ATP binding|identical protein binding|protein kinase binding|protein serine/threonine kinase activity|protein tyrosine kinase activator activity			ovary(1)|lung(1)	2	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00405)		CCAGAACTTCAGAATCCAGAG	0.388													12	81					0	0	0.00245	0	0		G	196554107	G	G	196554107	3	3	11	1	0	0	0	0	1	0	0	0	11420	188	7	3	1441	3	PAK2	3	196554107	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1044277	196554107	1468323	240	8632											
KIAA1530	57654	broad.mit.edu	37	chr4	1373950	1373950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttttgccgggaagtttgagCctgtgcagcactggtgccgt	5	12	14	10	2	0	1	0	1	0	0	0	2	0	2	3	2	5	3	3	2	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:1373950C>T	uc003gde.3	+	11	2131	c.1684C>T	c.(1684-1686)CCT>TCT	p.P562S	KIAA1530_uc010ibv.2_Missense_Mutation_p.P113S	NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	562											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			GAAGTTTGAGCCTGTGCAGCA	0.672													5	10					0	0	0.004482	0	0		T	1373950	T	T	1373950	3	4	11	1	0	0	0	0	1	0	0	0	8257	739	26	2	1722	2	KIAA1530	4	1373950	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08		1373950	189780326	241	8633											
HTT	3064	broad.mit.edu	37	chr4	3224185	3224185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggtgacgcagcccctcGtgatggagcaggaggagagc	8	6	16	11	2	0	3	0	2	0	1	2	6	1	5	3	4	3	2	3	4	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:3224185G>A	uc011bvq.1	+	55	7592	c.7447G>A	c.(7447-7449)GTG>ATG	p.V2483M		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2481					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GCAGCCCCTCGTGATGGAGCA	0.542													5	32					0	0	0.004482	0	0		A	3224185	A	A	3224185	3	1	11	1	0	0	0	0	1	0	0	0	7473	1145	40	1	7655	1	HTT	4	3224185	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1850235	3224185	187930091	242	8634											
EVC2	132884	broad.mit.edu	37	chr4	5567005	5567005	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctgctttctcttgcgggcCcacagcatcttttctaatcc	5	15	6	15	1	4	0	0	0	4	0	6	0	5	0	2	1	3	2	2	1	1	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:5567005C>A	uc003gij.2	-	21	3693	c.3639G>T	c.(3637-3639)TGG>TGT	p.W1213C	EVC2_uc011bwb.1_Missense_Mutation_p.W653C|EVC2_uc003gik.2_Missense_Mutation_p.W1133C	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1213						integral to membrane				large_intestine(3)|ovary(2)	5						TCTTGCGGGCCCACAGCATCT	0.572													9	80					0.000442599	0.000476505	0.006214	1	0		A	5567005	A	A	5567005	3	1	11	1	0	0	0	0	1	0	0	0	5294	624	22	5	295	5	EVC2	4	5567005	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2342820	5567005	185587271	243	8635											
WFS1	7466	broad.mit.edu	37	chr4	6303640	6303640	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaccggccgcttcaagtaCgtccgcgtgactgacatcga	8	8	12	13	6	1	2	1	2	0	0	3	4	2	3	3	2	1	2	3	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:6303640C>T	uc003giy.2	+	8	2284	c.2118C>T	c.(2116-2118)TAC>TAT	p.Y706Y	WFS1_uc003gix.2_Silent_p.Y706Y|WFS1_uc003giz.2_Silent_p.Y524Y	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	706					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		GCTTCAAGTACGTCCGCGTGA	0.652													5	11					0	0	0.001984	0	0		T	6303640	T	T	6303640	2	4	11	1	0	0	0	0	0	0	0	1	17386	547	19	1		1	WFS1	4	6303640	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	736635	6303640	184850636	244	8636											
DRD5	1816	broad.mit.edu	37	chr4	9783925	9783925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtcagaccttttcgtggCgctgctggtcatgccctgga	4	12	13	12	3	2	1	2	0	0	1	3	2	2	2	2	3	2	2	2	3	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:9783925C>T	uc003gmb.3	+	1	668	c.272C>T	c.(271-273)GCG>GTG	p.A91V		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	91	Helical; Name=2; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	CTTTTCGTGGCGCTGCTGGTC	0.632													5	43					0	0	0.000602	0	0		T	9783925	T	T	9783925	3	4	11	1	0	0	0	0	1	0	0	0	4766	768	27	1	274	1	DRD5	4	9783925	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3480285	9783925	181370351	245	8637											
ZNF518B	85460	broad.mit.edu	37	chr4	10446426	10446426	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcagcaaaacaaacagcAgctttatatggaaaagggtt	16	10	8	7	0	1	0	1	0	0	0	1	1	1	1	0	2	5	4	0	2	7	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:10446426A>C	uc003gmn.2	-	3	2014	c.1527T>G	c.(1525-1527)GCT>GCG	p.A509A		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	509					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						AACAAACAGCAGCTTTATATG	0.408													15	106					0	0	0.007413	0	0		C	10446426	C	C	10446426	2	2	11	1	0	0	0	0	0	0	0	1	17988	175	7	5		5	ZNF518B	4	10446426	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	662501	10446426	180707850	246	8638											
BOD1L	259282	broad.mit.edu	37	chr4	13604645	13604645	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acatctggatcatacgattcCctcagaggcacaacagtcac	13	8	7	13	1	4	1	3	0	1	1	5	3	5	2	1	2	2	1	1	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:13604645C>A	uc003gmz.1	-	10	3996	c.3879G>T	c.(3877-3879)AGG>AGT	p.R1293S	BOD1L_uc010idr.1_Missense_Mutation_p.R630S	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1293							DNA binding			ovary(5)|breast(1)	6						CATACGATTCCCTCAGAGGCA	0.468													13	63					0.00316338	0.00336963	0.003163	1	0		A	13604645	A	A	13604645	3	1	11	1	0	0	0	0	1	0	0	0	1484	622	22	5	5344	5	BOD1L	4	13604645	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3158219	13604645	177549631	247	8639											
CPEB2	132864	broad.mit.edu	37	chr4	15009022	15009022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatgcatggcagagatcatCgtagaaccggaaacatggga	15	6	12	8	2	1	2	1	0	0	2	2	5	1	4	1	3	3	3	1	3	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:15009022C>T	uc003gni.1	+	2	532	c.445C>T	c.(445-447)CGT>TGT	p.R149C	CPEB2_uc003gnj.1_Missense_Mutation_p.R149C|CPEB2_uc003gnk.1_Missense_Mutation_p.R149C|CPEB2_uc003gnl.1_Missense_Mutation_p.R149C|CPEB2_uc003gnm.1_Missense_Mutation_p.R149C|CPEB2_uc003gnn.1_Missense_Mutation_p.R149C	NM_182485	NP_872291	Q7Z5Q1	CPEB2_HUMAN	cytoplasmic polyadenylation element binding	149					regulation of translation	cytoplasm	nucleotide binding|RNA binding			skin(1)	1						CAGAGATCATCGTAGAACCGG	0.488													15	87					0	0	0.003163	0	0		T	15009022	T	T	15009022	3	4	11	1	0	0	0	0	1	0	0	0	3804	884	31	1	1762	1	CPEB2	4	15009022	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1404377	15009022	176145254	248	8640											
DCAF16	54876	broad.mit.edu	37	chr4	17805438	17805438	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggggccattcaggaatTggttccagtttggggacaca	10	9	15	7	0	1	1	1	0	0	1	2	3	2	3	2	6	0	2	2	6	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:17805438T>C	uc003gpn.2	-	3	1388	c.327A>G	c.(325-327)CCA>CCG	p.P109P	DCAF16_uc003gpo.2_RNA	NM_017741	NP_060211	Q9NXF7	DCA16_HUMAN	DDB1 and CUL4 associated factor 16	109						CUL4 RING ubiquitin ligase complex				ovary(1)	1						ATTCAGGAATTGGTTCCAGTT	0.488													22	136					0	0	0.00278	0	0		C	17805438	C	C	17805438	2	2	11	1	0	0	0	0	0	0	0	1	4271	1799	63	3		3	DCAF16	4	17805438	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2796416	17805438	173348838	249	8641											
STIM2	57620	broad.mit.edu	37	chr4	27010595	27010595	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgatgacttagatgaagAcacacccccaatagtgtcac	14	9	8	10	0	1	5	1	3	0	2	1	5	1	5	2	0	0	1	2	0	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:27010595A>C	uc003gsh.3	+	11	1961	c.1745A>C	c.(1744-1746)GAC>GCC	p.D582A	STIM2_uc003gsg.3_Missense_Mutation_p.D574A|STIM2_uc010iex.2_Missense_Mutation_p.D574A|STIM2_uc010iey.2_Missense_Mutation_p.D198A	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2	487	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)				TTAGATGAAGACACACCCCCA	0.428													9	94					0	0	0.013537	0	0		C	27010595	C	C	27010595	3	2	11	1	0	0	0	0	1	0	0	0	15309	275	10	5	1526	5	STIM2	4	27010595	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	9205157	27010595	164143681	250	8642											
WDR19	57728	broad.mit.edu	37	chr4	39254779	39254779	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttacagatacaaagaagctGttgtagcttatgaaaatgca	16	12	8	5	0	0	3	0	1	0	2	0	3	0	3	0	0	5	5	0	0	8	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:39254779G>C	uc003gtv.2	+	25	2897	c.2743G>C	c.(2743-2745)GTT>CTT	p.V915L	WDR19_uc011byi.1_Missense_Mutation_p.V755L|WDR19_uc003gtw.1_Missense_Mutation_p.V512L	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19	915	TPR 4.				cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1						CAAAGAAGCTGTTGTAGCTTA	0.323													17	87					0	0	0.006122	0	0		C	39254779	C	C	39254779	3	2	11	1	0	0	0	0	1	0	0	0	17305	1377	48	5	2841	5	WDR19	4	39254779	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	12244184	39254779	151899497	251	8643											
APBB2	323	broad.mit.edu	37	chr4	40827943	40827943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacatgcccaagtactgcaCgtggaacttctggaccagct	11	9	9	12	1	1	0	0	0	1	0	1	2	1	2	2	2	6	3	2	2	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:40827943C>T	uc003gvl.2	-	15	2404	c.1774G>A	c.(1774-1776)GTG>ATG	p.V592M	APBB2_uc010ifu.2_Missense_Mutation_p.V164M|APBB2_uc003gvm.2_Missense_Mutation_p.V570M|APBB2_uc003gvn.2_Missense_Mutation_p.V593M|APBB2_uc003gvk.2_Missense_Mutation_p.V44M	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	592	PID 2.				cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						AAGTACTGCACGTGGAACTTC	0.458													20	112					0	0	0.010504	0	0		T	40827943	T	T	40827943	3	4	11	1	0	0	0	0	1	0	0	0	761	536	19	1	518	1	APBB2	4	40827943	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1573164	40827943	150326333	252	8644											
APBB2	323	broad.mit.edu	37	chr4	40832595	40832595	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctacataagcaaaatccCtgtgcaagcaaaatgtatca	16	10	6	9	0	1	0	1	0	0	0	2	0	2	0	1	0	5	5	1	0	8	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:40832595C>A	uc003gvl.2	-	13	2157	c.1527_splice	c.e13-1	p.R509_splice	APBB2_uc010ifu.2_Splice_Site_p.R81_splice|APBB2_uc003gvm.2_Splice_Site_p.R488_splice|APBB2_uc003gvn.2_Splice_Site_p.R510_splice|APBB2_uc003gvk.2_Splice_Site	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,						cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						AGCAAAATCCCTGTGCAAGCA	0.393													8	35					5.18039e-06	5.73308e-06	0.00308	1	0		A	40832595	A	A	40832595	5	1	11	1	0	0	0	0	0	0	1	0	761	695	24	5	774	5	APBB2	4	40832595	Splice_Site	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4652	40832595	150321681	253	8645											
GUF1	60558	broad.mit.edu	37	chr4	44699460	44699460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaacgttttggcaaaatGtgtatgtatctagttgtatt	13	16	9	3	1	1	0	0	0	1	0	1	1	1	0	0	1	1	6	0	1	8	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:44699460G>A	uc003gww.3	+	16	2078	c.1871G>A	c.(1870-1872)TGT>TAT	p.C624Y	GUF1_uc011bza.1_Missense_Mutation_p.C31Y	NM_021927	NP_068746	Q8N442	GUF1_HUMAN	GUF1 GTPase homolog	624					translation	mitochondrial inner membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)	1						TTGGCAAAATGTGTATGTATC	0.289													10	93					0	0	0.00245	0	0		A	44699460	A	A	44699460	3	1	11	1	0	0	0	0	1	0	0	0	6915	1391	48	4	1933	4	GUF1	4	44699460	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3866865	44699460	146454816	254	8646											
FRYL	285527	broad.mit.edu	37	chr4	48559087	48559087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgggccagccatctgcaaGtgtggtccacacattctcca	8	11	9	13	0	2	0	0	0	2	0	4	0	3	0	4	2	2	1	4	2	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:48559087G>A	uc003gyh.1	-	35	4779	c.4174C>T	c.(4174-4176)CTT>TTT	p.L1392F	FRYL_uc003gyk.2_Missense_Mutation_p.L1392F|FRYL_uc003gyg.1_Missense_Mutation_p.L88F|FRYL_uc003gyi.1_Missense_Mutation_p.L281F	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	1392					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						CCATCTGCAAGTGTGGTCCAC	0.433													8	50					0	0	0.00308	0	0		A	48559087	A	A	48559087	3	1	11	1	0	0	0	0	1	0	0	0	6078	1029	36	4	4987	4	FRYL	4	48559087	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3859627	48559087	142595189	255	8647											
KDR	3791	broad.mit.edu	37	chr4	55958789	55958789	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaacctttcttacctttcGcgatgccaagaactccatgc	9	12	5	15	2	2	1	1	0	1	1	4	2	3	1	4	0	5	0	4	0	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:55958789G>A	uc003has.2	-	22	3366	c.3064C>T	c.(3064-3066)CGA>TGA	p.R1022*	KDR_uc003hat.1_Nonsense_Mutation_p.R1022*	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	1022	Protein kinase.|Cytoplasmic (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	CTTACCTTTCGCGATGCCAAG	0.458			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			6	53					0	0	0.00308	0	0		A	55958789	A	A	55958789	4	1	11	1	0	0	0	0	0	1	0	0	8155	1095	38	1	1042	1	KDR	4	55958789	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	7399702	55958789	135195487	256	8648											
AASDH	132949	broad.mit.edu	37	chr4	57244433	57244433	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttagcctcagatccatGtgttcttctgctttttcttc	4	20	6	11	0	4	1	1	0	3	1	6	1	5	1	2	0	3	3	2	0	1	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:57244433G>A	uc003hbn.2	-	4	702	c.549C>T	c.(547-549)CAC>CAT	p.H183H	AASDH_uc010ihb.2_5'UTR|AASDH_uc011caa.1_Silent_p.H30H|AASDH_uc003hbo.2_Silent_p.H83H|AASDH_uc011cab.1_Intron|AASDH_uc010ihc.2_Silent_p.H183H|AASDH_uc003hbp.2_Silent_p.H183H	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	183					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				TCAGATCCATGTGTTCTTCTG	0.368													10	110					0	0	0.008291	0	0		A	57244433	A	A	57244433	2	1	11	1	0	0	0	0	0	0	0	1	22	1368	48	4		4	AASDH	4	57244433	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1285644	57244433	133909843	257	8649											
ENAM	10117	broad.mit.edu	37	chr4	71508780	71508780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacagctcatatcagcctgCtgtataccctgaggaaatcc	11	9	8	13	0	2	1	2	1	0	0	3	2	3	2	3	1	4	4	3	1	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:71508780C>T	uc011caw.1	+	9	1918	c.1637C>T	c.(1636-1638)GCT>GTT	p.A546V		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	546					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			TATCAGCCTGCTGTATACCCT	0.418													34	222					0	0	0.012213	0	0		T	71508780	T	T	71508780	3	4	11	1	0	0	0	0	1	0	0	0	5120	797	28	2	1667	2	ENAM	4	71508780	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	14264347	71508780	119645496	258	8650											
ENAM	10117	broad.mit.edu	37	chr4	71509090	71509090	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccagaccagaaggagatagtCccttataatgaagaggaccc	15	6	10	10	0	0	5	0	1	0	4	1	7	1	6	4	2	0	0	4	2	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:71509090C>T	uc011caw.1	+	9	2228	c.1947C>T	c.(1945-1947)GTC>GTT	p.V649V		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	649					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			AGGAGATAGTCCCTTATAATG	0.458													35	231					0	0	0.004289	0	0		T	71509090	T	T	71509090	2	4	11	1	0	0	0	0	0	0	0	1	5120	842	30	4		4	ENAM	4	71509090	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	310	71509090	119645186	259	8651											
ENAM	10117	broad.mit.edu	37	chr4	71509960	71509960	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agaaacagctcagagaagagGgaaagccaaaacccttttag	18	5	10	8	0	1	3	1	0	0	3	1	5	1	4	2	1	4	1	2	1	6	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:71509960G>T	uc011caw.1	+	9	3098	c.2817G>T	c.(2815-2817)AGG>AGT	p.R939S		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	939					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			CAGAGAAGAGGGAAAGCCAAA	0.458													17	108					0.000422831	0.000455974	0.004007	1	0		T	71509960	T	T	71509960	3	4	11	1	0	0	0	0	1	0	0	0	5120	1223	43	5	2847	5	ENAM	4	71509960	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	870	71509960	119644316	260	8652											
G3BP2	9908	broad.mit.edu	37	chr4	76587173	76587173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattgcctcacaaactcccGccctacaagcagcggactgg	11	7	8	15	2	1	0	1	0	0	0	2	1	2	1	3	2	5	1	3	2	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:76587173G>A	uc003hir.2	-	2	202	c.37C>T	c.(37-39)CGG>TGG	p.R13W	G3BP2_uc003his.2_Missense_Mutation_p.R13W|G3BP2_uc003hit.2_Missense_Mutation_p.R13W	NM_012297	NP_036429	Q9UN86	G3BP2_HUMAN	Ras-GTPase activating protein SH3 domain-binding	13	NTF2.				cytoplasmic sequestering of NF-kappaB|mRNA transport|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	GTPase activator activity|nucleotide binding|receptor signaling complex scaffold activity|RNA binding			breast(2)|central_nervous_system(1)	3			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			ACAAACTCCCGCCCTACAAGC	0.358													12	57					0	0	0.001855	0	0		A	76587173	A	A	76587173	3	1	11	1	0	0	0	0	1	0	0	0	6156	1086	38	1	1455	1	G3BP2	4	76587173	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	5077213	76587173	114567103	261	8653											
SCARB2	950	broad.mit.edu	37	chr4	77095377	77095377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagccggcattgtctgacGtattggctaatatttctgca	10	13	10	8	2	2	2	0	1	2	1	2	2	2	2	1	2	2	4	1	2	4	6	rs148588727	by1000genomes	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:77095377G>A	uc003hju.1	-	7	1253	c.914C>T	c.(913-915)ACG>ATG	p.T305M	SCARB2_uc011cbu.1_Missense_Mutation_p.T162M	NM_005506	NP_005497	Q14108	SCRB2_HUMAN	scavenger receptor class B, member 2	305	Lumenal (Potential).				cell adhesion|protein targeting to lysosome	integral to plasma membrane|lysosomal lumen|lysosomal membrane|membrane fraction	enzyme binding|receptor activity				0			Lung(101;0.196)			ATTGTCTGACGTATTGGCTAA	0.463													5	94					0	0	0.001984	0	0		A	77095377	A	A	77095377	3	1	11	1	0	0	0	0	1	0	0	0	13907	1145	40	1	546	1	SCARB2	4	77095377	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	508204	77095377	114058899	262	8654											
CCDC158	339965	broad.mit.edu	37	chr4	77283437	77283437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactctggcctcaagctccCggatctttgcatctttttta	6	16	6	13	1	5	0	2	0	3	0	6	1	6	1	2	2	2	2	2	2	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:77283437C>T	uc003hkb.3	-	12	2015	c.1862G>A	c.(1861-1863)CGG>CAG	p.R621Q		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	621	Potential.									skin(3)|ovary(2)|pancreas(1)	6						CTCAAGCTCCCGGATCTTTGC	0.388													18	108					0	0	0.014323	0	0		T	77283437	T	T	77283437	3	4	11	1	0	0	0	0	1	0	0	0	2793	652	23	1	1531	1	CCDC158	4	77283437	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	188060	77283437	113870839	263	8655											
ANKRD56	345079	broad.mit.edu	37	chr4	77816758	77816758	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctagatatttccttgcTcttggcctttctggtagggg	5	17	10	9	0	3	1	0	0	3	1	4	1	4	1	2	4	1	2	2	4	3	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:77816758T>G	uc003hki.2	-	1	2245	c.2245A>C	c.(2245-2247)AGC>CGC	p.S749R		NM_001029870	NP_001025041	A6NEL2	ANR56_HUMAN	ankyrin repeat domain 56	749											0						ATTTCCTTGCTCTTGGCCTTT	0.483													39	306					0	0	0.013114	0	0		G	77816758	G	G	77816758	3	3	11	1	0	0	0	0	1	0	0	0	682	1551	54	5	140	5	ANKRD56	4	77816758	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	533321	77816758	113337518	264	8656											
WDFY3	23001	broad.mit.edu	37	chr4	85645698	85645698	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccagaggccagtcgcatgTagtactctttactgtcataa	10	12	9	10	1	2	1	1	0	1	1	3	1	2	1	2	1	3	3	2	1	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:85645698T>C	uc003hpd.2	-	46	7730	c.7322A>G	c.(7321-7323)TAC>TGC	p.Y2441C	WDFY3_uc003hpe.1_Missense_Mutation_p.Y52C	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2441						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CAGTCGCATGTAGTACTCTTT	0.448													12	64					0	0	0.004007	0	0		C	85645698	C	C	85645698	3	2	11	1	0	0	0	0	1	0	0	0	17296	1638	57	3	3350	3	WDFY3	4	85645698	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	7828940	85645698	105508578	265	8657											
PTPN13	5783	broad.mit.edu	37	chr4	87680177	87680177	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaattttgcaaaatgcaccTgaagatgtgacacttgttat	14	13	8	6	0	0	3	0	2	0	1	0	4	0	3	1	0	2	3	1	0	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:87680177T>C	uc003hpz.2	+	23	3984	c.3504T>C	c.(3502-3504)CCT>CCC	p.P1168P	PTPN13_uc003hpy.2_Silent_p.P1168P|PTPN13_uc003hqa.2_Silent_p.P1149P|PTPN13_uc003hqb.2_Silent_p.P977P	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1168	PDZ 1.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		AAAATGCACCTGAAGATGTGA	0.383													6	50					0	0	0.001168	0	0		C	87680177	C	C	87680177	2	2	11	1	0	0	0	0	0	0	0	1	12805	1567	55	3		3	PTPN13	4	87680177	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2034479	87680177	103474099	266	8658											
KLHL8	57563	broad.mit.edu	37	chr4	88104415	88104415	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagtcaggtactgctctgcTactcaagtgaaggtggtaat	12	11	11	7	0	3	1	2	1	1	0	3	1	3	1	0	3	4	4	0	3	6	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:88104415T>C	uc011cdb.1	-	4	1277	c.892A>G	c.(892-894)AGC>GGC	p.S298G	KLHL8_uc003hql.1_Missense_Mutation_p.S298G|KLHL8_uc003hqm.1_Missense_Mutation_p.S222G|KLHL8_uc003hqn.1_Missense_Mutation_p.S115G|KLHL8_uc010ikj.1_Intron	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8	298											0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		ACTGCTCTGCTACTCAAGTGA	0.388													12	120					0	0	0.004007	0	0		C	88104415	C	C	88104415	3	2	11	1	0	0	0	0	1	0	0	0	8411	1522	53	3	998	3	KLHL8	4	88104415	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	424238	88104415	103049861	267	8659											
IBSP	3381	broad.mit.edu	37	chr4	88732603	88732603	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaatgaaaacgaagaaagCgaagcagaagtggatgaaaa	22	3	13	3	2	0	4	0	2	0	2	0	8	0	6	0	2	3	1	0	2	9	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:88732603C>T	uc003hqx.3	+	7	593	c.495C>T	c.(493-495)AGC>AGT	p.S165S		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	165	Asp/Glu-rich (acidic).				biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		acgaagaaagcgaagcagaag	0.338													12	45					0	0	0.00245	0	0		T	88732603	T	T	88732603	2	4	11	1	0	0	0	0	0	0	0	1	7491	767	27	1		1	IBSP	4	88732603	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	628188	88732603	102421673	268	8660											
TSPAN5	10098	broad.mit.edu	37	chr4	99407915	99407915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaaggaaagtgttttcccGtagcgctccaatgcaccctg	10	9	11	11	2	0	1	0	0	0	1	2	3	2	2	3	1	2	4	3	1	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:99407915G>A	uc003hub.2	-	3	603	c.253C>T	c.(253-255)CGG>TGG	p.R85W	TSPAN5_uc011cdz.1_Missense_Mutation_p.R14W	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	85	Cytoplasmic (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)		GTGTTTTCCCGTAGCGCTCCA	0.478													17	133					0	0	0.006122	0	0		A	99407915	A	A	99407915	3	1	11	1	0	0	0	0	1	0	0	0	16676	1144	40	1	577	1	TSPAN5	4	99407915	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	10675312	99407915	91746361	269	8661											
EIF4E	1977	broad.mit.edu	37	chr4	99823101	99823101	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattccgttttctcctcttcTgtagtcgggggattaggagt	5	16	12	8	2	3	0	0	0	3	0	6	3	4	2	2	3	0	2	2	3	2	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:99823101T>C	uc003hue.2	-	2	1574	c.51A>G	c.(49-51)ACA>ACG	p.T17T	EIF4E_uc011cea.1_Silent_p.T37T|EIF4E_uc011ceb.1_Silent_p.T17T|EIF4E_uc011cec.1_Silent_p.T17T	NM_001968	NP_001959	P06730	IF4E_HUMAN	eukaryotic translation initiation factor 4E	17					G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|interspecies interaction between organisms|mRNA export from nucleus|nuclear-transcribed mRNA poly(A) tail shortening|positive regulation of mitotic cell cycle|regulation of translation	cytoplasmic mRNA processing body|cytosol|eukaryotic translation initiation factor 4F complex|mRNA cap binding complex|RNA-induced silencing complex	protein binding|RNA cap binding|translation initiation factor activity			lung(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)|LUSC - Lung squamous cell carcinoma(721;0.00227)		TCTCCTCTTCTGTAGTCGGGG	0.373													22	116					0	0	0.00333	0	0		C	99823101	C	C	99823101	2	2	11	1	0	0	0	0	0	0	0	1	5036	1567	55	3		3	EIF4E	4	99823101	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	415186	99823101	91331175	270	8662											
MTTP	4547	broad.mit.edu	37	chr4	100530094	100530094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgaataaatacatgctcGccattgttcaagacatccta	16	11	5	9	1	1	2	1	1	0	1	3	2	2	2	2	0	2	2	2	0	7	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:100530094G>A	uc003hvc.3	+	13	1985	c.1729G>A	c.(1729-1731)GCC>ACC	p.A577T	MTTP_uc011cej.1_Missense_Mutation_p.A604T	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	577	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	ATACATGCTCGCCATTGTTCA	0.398													20	108					0	0	0.00278	0	0		A	100530094	A	A	100530094	3	1	11	1	0	0	0	0	1	0	0	0	9982	1087	38	1	1775	1	MTTP	4	100530094	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	706993	100530094	90624182	271	8663											
CYP2U1	113612	broad.mit.edu	37	chr4	108870669	108870669	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaaacctttattccttttggGataggtcagttacacttttt	9	18	7	7	0	1	0	1	0	0	0	2	2	2	1	2	2	2	1	2	2	4	9			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:108870669G>A	uc003hyp.2	+	4	1535	c.1452G>A	c.(1450-1452)GGG>GGA	p.G484G	CYP2U1_uc011cfi.1_Silent_p.G275G	NM_183075	NP_898898	Q7Z449	CP2U1_HUMAN	cytochrome P450, family 2, subfamily U,	484					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000128)		TTCCTTTTGGGATAGGTCAGT	0.303													6	38					0	0	0.001984	0	0		A	108870669	A	A	108870669	2	1	11	1	0	0	0	0	0	0	0	1	4178	1161	41	4		4	CYP2U1	4	108870669	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	8340575	108870669	82283607	272	8664											
CFI	3426	broad.mit.edu	37	chr4	110673647	110673647	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catccatgtcagcagtcaaaAtttctgtttcttctatgata	11	16	5	9	0	5	1	2	1	3	0	6	1	6	1	1	0	1	2	1	0	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:110673647A>T	uc003hzr.3	-	8	1125	c.917T>A	c.(916-918)ATT>AAT	p.I306N	CFI_uc003hzq.2_Missense_Mutation_p.I103N|CFI_uc011cft.1_Missense_Mutation_p.I314N|CFI_uc003hzs.3_Missense_Mutation_p.I299N	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	306					complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		AGCAGTCAAAATTTCTGTTTC	0.279													9	51					0	0	0.004482	0	0		T	110673647	T	T	110673647	3	4	11	1	0	0	0	0	1	0	0	0	3292	101	4	5	858	5	CFI	4	110673647	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1802978	110673647	80480629	273	8665											
PITX2	5308	broad.mit.edu	37	chr4	111539779	111539779	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcggcccgaagccattcttGcatagctcggcctgctggtt	5	11	12	13	3	1	0	0	0	1	0	2	1	1	0	3	3	5	4	3	3	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:111539779G>A	uc003iad.2	-	5	1038	c.456C>T	c.(454-456)TGC>TGT	p.C152C	PITX2_uc003iac.2_Silent_p.C159C|PITX2_uc003iae.2_Silent_p.C106C|PITX2_uc010iml.2_Silent_p.C23C|PITX2_uc003iaf.2_Silent_p.C152C	NM_153426	NP_700475	Q99697	PITX2_HUMAN	paired-like homeodomain transcription factor 2	152					determination of left/right symmetry|organ morphogenesis	transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription factor binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00222)		AGCCATTCTTGCATAGCTCGG	0.577													6	64					0	0	0.001984	0	0		A	111539779	A	A	111539779	2	1	11	1	0	0	0	0	0	0	0	1	11974	1311	46	2		2	PITX2	4	111539779	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	866132	111539779	79614497	274	8666											
UGT8	7368	broad.mit.edu	37	chr4	115597196	115597196	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacaatggagcccatcacCtacgtgccgctgtccatcag	9	8	9	15	2	3	0	3	0	0	0	4	1	4	1	4	1	3	1	4	1	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:115597196C>A	uc003ibs.2	+	6	1900	c.1378C>A	c.(1378-1380)CTA>ATA	p.L460I	UGT8_uc003ibt.2_Missense_Mutation_p.L460I|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	460					central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		AGCCCATCACCTACGTGCCGC	0.418													15	121					8.00594e-06	8.84511e-06	0.007413	1	0		A	115597196	A	A	115597196	3	1	11	1	0	0	0	0	1	0	0	0	16991	680	24	5	1396	5	UGT8	4	115597196	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4057417	115597196	75557080	275	8667											
FAT4	79633	broad.mit.edu	37	chr4	126328260	126328260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaaattttccagacccGtgtactcttttgacattcct	9	14	4	14	1	1	2	0	1	1	1	3	2	3	2	4	0	1	1	4	0	2	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:126328260G>A	uc003ifj.3	+	3	5533	c.5533G>A	c.(5533-5535)GTG>ATG	p.V1845M	FAT4_uc011cgp.1_Missense_Mutation_p.V143M	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1845	Cadherin 18.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TTCCAGACCCGTGTACTCTTT	0.408													31	130					0	0	0.010818	0	0		A	126328260	A	A	126328260	3	1	11	1	0	0	0	0	1	0	0	0	5706	1145	40	1	5543	1	FAT4	4	126328260	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	10731064	126328260	64826016	276	8668											
FAT4	79633	broad.mit.edu	37	chr4	126411935	126411935	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaaaattttcaatccagaGgcacagtcccctaggctttg	12	10	7	12	0	1	1	1	0	0	1	3	1	3	1	4	2	0	2	4	2	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:126411935G>T	uc003ifj.3	+	17	13958	c.13958G>T	c.(13957-13959)AGG>ATG	p.R4653M	FAT4_uc011cgp.1_Missense_Mutation_p.R2894M|FAT4_uc003ifi.1_Missense_Mutation_p.R2130M	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4653	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TCAATCCAGAGGCACAGTCCC	0.507													14	68					2.48551e-13	2.89017e-13	0.00499	1	0		T	126411935	T	T	126411935	3	4	11	1	0	0	0	0	1	0	0	0	5706	1000	35	5	14024	5	FAT4	4	126411935	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	83675	126411935	64742341	277	8669											
HSPA4L	22824	broad.mit.edu	37	chr4	128739575	128739575	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catacaggagccaaaacaaaGgtttggtttactttttctgt	12	14	8	7	0	1	0	0	0	1	0	1	1	1	1	1	3	4	2	1	3	5	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:128739575G>T	uc003ifm.2	+	13	1927	c.1674G>T	c.(1672-1674)AAG>AAT	p.K558N	HSPA4L_uc010iny.1_Missense_Mutation_p.K517N|HSPA4L_uc011cgr.1_Missense_Mutation_p.K525N	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	558					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						CCAAAACAAAGGTTTGGTTTA	0.313													5	58					5.9392e-07	6.67458e-07	0.001168	1	0		T	128739575	T	T	128739575	3	4	11	1	0	0	0	0	1	0	0	0	7429	1014	35	5	1724	5	HSPA4L	4	128739575	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2327640	128739575	62414701	278	8670											
ZNF827	152485	broad.mit.edu	37	chr4	146807029	146807029	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccagcaaaggcgagacGccagcccctccctggctagt	9	6	10	16	2	1	1	1	0	0	1	2	2	2	1	5	2	2	2	5	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:146807029G>A	uc003ikn.2	-	4	1596	c.1548C>T	c.(1546-1548)GGC>GGT	p.G516G	ZNF827_uc003ikm.2_Silent_p.G516G|ZNF827_uc010iox.2_Silent_p.G166G	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	516					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					AAGGCGAGACGCCAGCCCCTC	0.597													9	47					0	0	0.010729	0	0		A	146807029	A	A	146807029	2	1	11	1	0	0	0	0	0	0	0	1	18205	1074	38	1		1	ZNF827	4	146807029	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	18067454	146807029	44347247	279	8671											
NR3C2	4306	broad.mit.edu	37	chr4	149002580	149002580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgatctccaccagcattgcgGggaactctaccttcagcgca	9	9	9	14	2	3	1	1	1	2	0	4	2	3	2	3	2	5	2	3	2	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:149002580G>A	uc003ilj.3	-	9	3204	c.2870C>T	c.(2869-2871)CCC>CTC	p.P957L	NR3C2_uc003ilk.3_Missense_Mutation_p.P840L|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	957	Steroid-binding.			P->A: Slightly reduces aldosterone binding and transcription transactivation.	regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	CAGCATTGCGGGGAACTCTAC	0.602													11	42					0	0	0.013537	0	0		A	149002580	A	A	149002580	3	1	11	1	0	0	0	0	1	0	0	0	10650	1232	43	4	88	4	NR3C2	4	149002580	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2195551	149002580	42151696	280	8672											
DCLK2	166614	broad.mit.edu	37	chr4	151023845	151023845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagcctagaaaagccgtgCggatccttctgaataaaaag	15	8	10	8	2	1	3	0	2	1	1	2	4	2	4	3	1	3	0	3	1	8	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:151023845C>T	uc003ilm.3	+	2	737	c.637C>T	c.(637-639)CGG>TGG	p.R213W	DCLK2_uc003iln.3_Missense_Mutation_p.R213W|DCLK2_uc003ilo.3_Missense_Mutation_p.R213W|DCLK2_uc003ilp.3_RNA	NM_001040260	NP_001035350	Q8N568	DCLK2_HUMAN	doublecortin-like kinase 2 isoform a	213	Doublecortin 2.				intracellular signal transduction	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)					AAAAGCCGTGCGGATCCTTCT	0.418													4	56					0	0	0.009096	0	0		T	151023845	T	T	151023845	3	4	11	1	0	0	0	0	1	0	0	0	4295	759	27	1	643	1	DCLK2	4	151023845	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2021265	151023845	40130431	281	8673											
DCLK2	166614	broad.mit.edu	37	chr4	151114360	151114360	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaccagaaaaatttcgttAtgcccaagatgactttgtcc	12	12	8	9	1	0	3	0	1	0	2	2	4	1	4	3	1	1	1	3	1	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:151114360A>G	uc003ilm.3	+	3	927	c.827A>G	c.(826-828)TAT>TGT	p.Y276C	DCLK2_uc003iln.3_Missense_Mutation_p.Y276C|DCLK2_uc003ilo.3_Missense_Mutation_p.Y276C|DCLK2_uc003ilp.3_RNA	NM_001040260	NP_001035350	Q8N568	DCLK2_HUMAN	doublecortin-like kinase 2 isoform a	276	Doublecortin 2.				intracellular signal transduction	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)					AAATTTCGTTATGCCCAAGAT	0.368													18	113					0	0	0.012319	0	0		G	151114360	G	G	151114360	3	3	11	1	0	0	0	0	1	0	0	0	4295	449	16	3	837	3	DCLK2	4	151114360	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	90515	151114360	40039916	282	8674											
FBXW7	55294	broad.mit.edu	37	chr4	153247366	153247366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaccctaagagtggcatctCgagaaccgctaacaactctg	14	7	8	12	2	2	2	0	0	2	2	3	3	2	2	2	1	4	2	2	1	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:153247366C>T	uc003ims.2	-	10	1585	c.1436G>A	c.(1435-1437)CGA>CAA	p.R479Q	FBXW7_uc011cii.1_Missense_Mutation_p.R479Q|FBXW7_uc003imt.2_Missense_Mutation_p.R479Q|FBXW7_uc011cih.1_Missense_Mutation_p.R303Q|FBXW7_uc003imq.2_Missense_Mutation_p.R399Q|FBXW7_uc003imr.2_Missense_Mutation_p.R361Q	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	479	WD 3.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R479Q(31)|p.R479L(7)|p.R479G(3)|p.R399Q(2)|p.R240L(1)|p.R399L(1)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				AGTGGCATCTCGAGAACCGCT	0.403			Mis|N|D|F		colorectal|endometrial|T-ALL								11	71					0	0	0.00245	0	0		T	153247366	T	T	153247366	3	4	11	1	0	0	0	0	1	0	0	0	5783	884	31	1	699	1	FBXW7	4	153247366	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2133006	153247366	37906910	283	8675											
FHDC1	85462	broad.mit.edu	37	chr4	153897541	153897541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgaactaccccgtgtccCgagctttgcccggaacacag	9	6	9	17	4	0	0	0	0	0	0	1	3	1	1	5	1	5	1	5	1	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:153897541C>T	uc003inf.2	+	11	3173	c.3098C>T	c.(3097-3099)CCG>CTG	p.P1033L		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	1033					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					CCCCGTGTCCCGAGCTTTGCC	0.632													12	60					0	0	0.001855	0	0		T	153897541	T	T	153897541	3	4	11	1	0	0	0	0	1	0	0	0	5890	652	23	1	3140	1	FHDC1	4	153897541	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	650175	153897541	37256735	284	8676											
PPID	5481	broad.mit.edu	37	chr4	159630906	159630906	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaagcaaacatttttgcAtatactgccttctctttatc	10	18	3	10	0	2	0	0	0	2	0	4	0	2	0	1	0	5	2	1	0	5	9			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:159630906A>G	uc003iqc.2	-	10	1207	c.1095T>C	c.(1093-1095)TAT>TAC	p.Y365Y		NM_005038	NP_005029	Q08752	PPID_HUMAN	peptidylprolyl isomerase D	365					protein folding	cytoplasm|intermediate filament cytoskeleton	cyclosporin A binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0159)		ACATTTTTGCATATACTGCCT	0.303													8	40					0	0	0.008291	0	0		G	159630906	G	G	159630906	2	3	11	1	0	0	0	0	0	0	0	1	12343	224	8	3		3	PPID	4	159630906	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	5733365	159630906	31523370	285	8677											
RAPGEF2	9693	broad.mit.edu	37	chr4	160253767	160253767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgaacaaaaaaagtaaaGccaacactgtgggaggaagg	20	4	12	5	0	0	1	0	1	0	0	0	3	0	3	1	3	3	1	1	3	9	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:160253767G>A	uc003iqg.3	+	11	1880	c.1570G>A	c.(1570-1572)GCC>ACC	p.A524T		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	524					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		AAAAAGTAAAGCCAACACTGT	0.408													6	88					0	0	0.001168	0	0		A	160253767	A	A	160253767	3	1	11	1	0	0	0	0	1	0	0	0	13069	971	34	2	1612	2	RAPGEF2	4	160253767	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	622861	160253767	30900509	286	8678											
FSTL5	56884	broad.mit.edu	37	chr4	162307355	162307355	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctggagagacatatggAgtgcccgtcacatcactatt	11	10	9	11	1	3	1	2	0	1	1	3	4	3	3	2	2	1	0	2	2	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:162307355A>T	uc003iqh.2	-	16	2524	c.2088T>A	c.(2086-2088)ACT>ACA	p.T696T	FSTL5_uc003iqi.2_Silent_p.T695T|FSTL5_uc010iqv.2_Silent_p.T686T|uc010iqu.1_RNA	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	696						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		AGACATATGGAGTGCCCGTCA	0.488													18	67					0	0	0.008871	0	0		T	162307355	T	T	162307355	2	4	11	1	0	0	0	0	0	0	0	1	6094	291	11	5		5	FSTL5	4	162307355	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	2053588	162307355	28846921	287	8679											
MFAP3L	9848	broad.mit.edu	37	chr4	170926737	170926737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actttaaagcctacctcctcCtctctccttctcatcctctt	6	16	1	18	0	3	0	1	0	3	0	9	0	7	0	6	0	2	0	6	0	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:170926737C>T	uc003isp.3	-	2	470	c.292G>A	c.(292-294)GGA>AGA	p.G98R	MFAP3L_uc003isn.3_5'Flank	NM_021647	NP_067679	O75121	MFA3L_HUMAN	microfibrillar-associated protein 3-like isoform	98	Extracellular (Potential).|Ig-like C2-type.					integral to membrane|plasma membrane				ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0201)|LUSC - Lung squamous cell carcinoma(193;0.116)		CTACCTCCTCCTCTCTCCTTC	0.408													21	128					0	0	0.003954	0	0		T	170926737	T	T	170926737	3	4	11	1	0	0	0	0	1	0	0	0	9534	690	24	4	945	4	MFAP3L	4	170926737	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	8619382	170926737	20227539	288	8680											
AADAT	51166	broad.mit.edu	37	chr4	171008379	171008379	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttgtaactgttttagcCaggacaaaagctctggaatt	12	15	8	6	0	1	0	0	0	1	0	1	2	1	2	1	2	3	3	1	2	6	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:171008379C>A	uc003isr.2	-	3	599	c.257G>T	c.(256-258)TGG>TTG	p.W86L	AADAT_uc003iss.2_Missense_Mutation_p.W86L|AADAT_uc003ist.2_Missense_Mutation_p.W90L	NM_016228	NP_057312	Q8N5Z0	AADAT_HUMAN	kynurenine aminotransferase II	86					2-oxoglutarate metabolic process|biosynthetic process|glutamate metabolic process|lysine catabolic process	mitochondrial matrix	2-aminoadipate transaminase activity|kynurenine-oxoglutarate transaminase activity|protein homodimerization activity				0		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0355)|LUSC - Lung squamous cell carcinoma(193;0.118)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CTGTTTTAGCCAGGACAAAAG	0.343													9	59					7.48243e-07	8.38725e-07	0.006214	1	0		A	171008379	A	A	171008379	3	1	11	1	0	0	0	0	1	0	0	0	14	595	21	5	1064	5	AADAT	4	171008379	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	81642	171008379	20145897	289	8681											
SORBS2	8470	broad.mit.edu	37	chr4	186545449	186545449	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatttgattttgggagagacGgtttcttccgtgctgctcca	6	15	12	8	2	1	2	0	1	1	1	3	5	3	3	2	2	2	3	2	2	0	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:186545449G>A	uc003iyl.2	-	13	1980	c.1122C>T	c.(1120-1122)ACC>ACT	p.T374T	SORBS2_uc003iyh.2_Intron|SORBS2_uc011ckw.1_Intron|SORBS2_uc003iyi.2_Intron|SORBS2_uc011ckx.1_Intron|SORBS2_uc003iyk.2_Intron|SORBS2_uc003iym.2_Silent_p.T474T|SORBS2_uc003iyn.1_Intron|SORBS2_uc011cku.1_Intron|SORBS2_uc011ckv.1_Silent_p.T278T|SORBS2_uc003iyd.2_Intron|SORBS2_uc003iye.2_Intron|SORBS2_uc003iya.2_Intron|SORBS2_uc003iyb.2_Intron|SORBS2_uc003iyc.2_Intron|SORBS2_uc003iyg.2_Silent_p.T488T|SORBS2_uc003iyf.2_Intron|SORBS2_uc003iyo.1_Intron	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	374						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		TGGGAGAGACGGTTTCTTCCG	0.542													6	48					0	0	0.00308	0	0		A	186545449	A	A	186545449	2	1	11	1	0	0	0	0	0	0	0	1	14953	1103	39	1		1	SORBS2	4	186545449	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	15537070	186545449	4608827	290	8682											
FAT1	2195	broad.mit.edu	37	chr4	187524858	187524858	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacattgagaaggtattgccCtatgtctagctttttgtgtg	8	16	11	6	0	1	1	0	1	1	1	1	3	1	1	1	1	2	2	1	1	4	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:187524858C>A	uc003izf.2	-	19	11010	c.10822G>T	c.(10822-10824)GGG>TGG	p.G3608W		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3608	Extracellular (Potential).|Cadherin 33.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AGGTATTGCCCTATGTCTAGC	0.483										HNSCC(5;0.00058)			13	51					1.61879e-10	1.86247e-10	0.013537	1	0		A	187524858	A	A	187524858	3	1	11	1	0	0	0	0	1	0	0	0	5703	681	24	5	2980	5	FAT1	4	187524858	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	979409	187524858	3629418	291	8683											
ZFP42	132625	broad.mit.edu	37	chr4	188924151	188924151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctggccctcaggctctcGgaggggatgatttctcagac	7	9	13	12	1	3	2	2	1	2	1	5	4	3	4	2	5	1	1	2	5	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr4:188924151G>A	uc003izg.1	+	3	435	c.190G>A	c.(190-192)GGA>AGA	p.G64R	ZFP42_uc003izh.1_Missense_Mutation_p.G64R|ZFP42_uc003izi.1_Missense_Mutation_p.G64R	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	64					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		TCAGGCTCTCGGAGGGGATGA	0.507													11	63					0	0	0.013537	0	0		A	188924151	A	A	188924151	3	1	11	1	0	0	0	0	1	0	0	0	17675	1117	39	1	192	1	ZFP42	4	188924151	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1399293	188924151	2230125	292	8684											
ADCY2	108	broad.mit.edu	37	chr5	7626360	7626360	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcatggaactcgctcttcaGcaaacatatcaggacacctg	12	9	7	13	1	4	0	3	0	1	0	5	2	4	2	1	2	3	2	1	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:7626360G>A	uc003jdz.1	+	4	718	c.651G>A	c.(649-651)CAG>CAA	p.Q217Q		NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	217	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						TCGCTCTTCAGCAAACATATC	0.438													12	75					0	0	0.013537	0	0		A	7626360	A	A	7626360	2	1	11	1	0	0	0	0	0	0	0	1	294	962	34	2		2	ADCY2	5	7626360	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08		7626360	173288900	293	8685											
CTNND2	1501	broad.mit.edu	37	chr5	11364843	11364843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtgccggtgtgtgctggcGgcagagggtccccctggctc	3	8	18	12	2	0	1	0	0	0	1	2	1	1	1	3	6	2	3	3	6	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:11364843G>A	uc003jfa.1	-	8	1482	c.1337C>T	c.(1336-1338)CCG>CTG	p.P446L	CTNND2_uc010itt.2_Missense_Mutation_p.P355L|CTNND2_uc011cmy.1_Missense_Mutation_p.P109L|CTNND2_uc011cmz.1_Missense_Mutation_p.P13L|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.P13L	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	446					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GTGTGCTGGCGGCAGAGGGTC	0.622													4	13					0	0	0.000602	0	0		A	11364843	A	A	11364843	3	1	11	1	0	0	0	0	1	0	0	0	4023	1116	39	1	2400	1	CTNND2	5	11364843	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3738483	11364843	169550417	294	8686											
TRIO	7204	broad.mit.edu	37	chr5	14504649	14504649	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccagcaccccctgcttgtCggcctcctcgacacctttga	5	10	7	19	2	0	1	0	1	0	0	4	2	2	1	6	1	2	2	6	1	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:14504649C>T	uc003jff.2	+	55	8565	c.8559C>T	c.(8557-8559)GTC>GTT	p.V2853V	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2853	Protein kinase.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					CCCTGCTTGTCGGCCTCCTCG	0.587													19	147					0	0	0.014323	0	0		T	14504649	T	T	14504649	2	4	11	1	0	0	0	0	0	0	0	1	16578	871	31	1		1	TRIO	5	14504649	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3139806	14504649	166410611	295	8687											
ZNF622	90441	broad.mit.edu	37	chr5	16465635	16465635	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcccgcactcgctcctggAagccctcggcggtcactggg	4	6	14	17	5	1	0	1	0	0	0	4	1	2	1	3	4	1	2	3	4	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:16465635A>G	uc003jfq.2	-	1	260	c.140T>C	c.(139-141)TTC>TCC	p.F47S		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	47						cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						TCGCTCCTGGAAGCCCTCGGC	0.662													3	11					0	0	0.000602	0	0		G	16465635	G	G	16465635	3	3	11	1	0	0	0	0	1	0	0	0	18071	246	9	3	1317	3	ZNF622	5	16465635	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1960986	16465635	164449625	296	8688											
CDH10	1008	broad.mit.edu	37	chr5	24537611	24537611	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctactggcctcagagttCttctgttaatagcttgtgcg	6	15	10	10	1	4	1	1	0	3	1	4	1	4	1	1	1	3	4	1	1	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:24537611C>A	uc003jgr.1	-	3	736	c.404G>T	c.(403-405)AGA>ATA	p.R135I	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	135	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CCTCAGAGTTCTTCTGTTAAT	0.393										HNSCC(23;0.051)			19	108					2.37509e-13	2.76424e-13	0.010504	1	0		A	24537611	A	A	24537611	3	1	11	1	0	0	0	0	1	0	0	0	3099	913	32	5	2002	5	CDH10	5	24537611	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	8071976	24537611	156377649	297	8689											
AGXT2	64902	broad.mit.edu	37	chr5	35025913	35025913	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgctcgcaccagctcaaaGgcttcctttagaaacccctt	9	11	6	15	1	1	1	1	0	0	1	3	1	2	1	4	1	3	4	4	1	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:35025913G>T	uc003jjf.2	-	9	997	c.918C>A	c.(916-918)GCC>GCA	p.A306A	AGXT2_uc003jje.1_5'UTR|AGXT2_uc011com.1_Silent_p.A306A	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	306					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	CCAGCTCAAAGGCTTCCTTTA	0.493													10	51					6.40141e-05	6.9606e-05	0.010729	1	0		T	35025913	T	T	35025913	2	4	11	1	0	0	0	0	0	0	0	1	405	987	35	5		5	AGXT2	5	35025913	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	10488302	35025913	145889347	298	8690											
C5orf34	375444	broad.mit.edu	37	chr5	43488034	43488034	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaacttctgtatcttttcaAgttcagaagcaacagacctg	13	13	6	9	0	4	2	2	0	2	2	4	2	4	2	1	0	3	3	1	0	6	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:43488034A>C	uc003jnz.1	-	13	2014	c.1697T>G	c.(1696-1698)CTT>CGT	p.L566R		NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	566										breast(1)	1	Lung NSC(6;2.07e-05)					TATCTTTTCAAGTTCAGAAGC	0.318													3	20					0	0	0.000602	0	0		C	43488034	C	C	43488034	3	2	11	1	0	0	0	0	1	0	0	0	2296	72	3	5	227	5	C5orf34	5	43488034	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	8462121	43488034	137427226	299	8691											
HCN1	348980	broad.mit.edu	37	chr5	45262407	45262407	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttgtgcacttcatttttCggcgtggagctgccaggtgt	4	15	12	10	2	2	0	1	0	1	0	3	1	2	1	1	3	3	2	1	3	0	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:45262407C>T	uc003jok.2	-	8	2314	c.2289G>A	c.(2287-2289)CCG>CCA	p.P763P		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	763	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CTTCATTTTTCGGCGTGGAGC	0.443													4	26					0	0	0.001984	0	0		T	45262407	T	T	45262407	2	4	11	1	0	0	0	0	0	0	0	1	7012	871	31	1		1	HCN1	5	45262407	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1774373	45262407	135652853	300	8692											
ISL1	3670	broad.mit.edu	37	chr5	50685764	50685764	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcagcagcccaatgacaaaActgtgagtggctctggggcc	11	6	13	11	0	1	2	0	2	1	0	1	2	1	2	2	3	4	3	2	3	3	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:50685764A>G	uc003jor.2	+	4	1311	c.763A>G	c.(763-765)ACT>GCT	p.T255A		NM_002202	NP_002193	P61371	ISL1_HUMAN	islet-1	255	Gln-rich.				generation of precursor metabolites and energy|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3		Lung NSC(810;0.000845)|Breast(144;0.0411)				CAATGACAAAACTGTGAGTGG	0.577													4	13					0	0	0.000602	0	0		G	50685764	G	G	50685764	3	3	11	1	0	0	0	0	1	0	0	0	7872	43	2	3	777	3	ISL1	5	50685764	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	5423357	50685764	130229496	301	8693											
ANKRD55	79722	broad.mit.edu	37	chr5	55407543	55407543	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaatatttggttgagcacGttgaaccgtctctccttctt	8	15	8	10	2	2	3	0	2	2	1	4	3	3	3	2	1	2	3	2	1	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:55407543G>A	uc003jqu.2	-	10	1184	c.1032C>T	c.(1030-1032)AAC>AAT	p.N344N	ANKRD55_uc003jqt.2_Silent_p.N56N	NM_024669	NP_078945	Q3KP44	ANR55_HUMAN	ankyrin repeat domain 55 isoform 1	343										skin(1)	1		Lung NSC(810;8.69e-05)|Prostate(74;0.00634)|Breast(144;0.0334)|Ovarian(174;0.223)				GGTTGAGCACGTTGAACCGTC	0.512													17	94					0	0	0.00499	0	0		A	55407543	A	A	55407543	2	1	11	1	0	0	0	0	0	0	0	1	681	1136	40	1		1	ANKRD55	5	55407543	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4721779	55407543	125507717	302	8694											
GPBP1	65056	broad.mit.edu	37	chr5	56546862	56546862	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaacttcgatgaaaatgaaAttcctcaagagaatggcaat	18	9	8	6	1	1	3	1	2	0	1	3	6	2	3	1	1	1	1	1	1	7	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:56546862A>G	uc003jrh.3	+	10	2328	c.1054A>G	c.(1054-1056)ATT>GTT	p.I352V	GPBP1_uc010iwg.2_Missense_Mutation_p.I372V|GPBP1_uc003jri.3_Missense_Mutation_p.I181V|GPBP1_uc003jrj.3_Missense_Mutation_p.I344V|GPBP1_uc003jrk.3_Missense_Mutation_p.I359V|GPBP1_uc003jrl.3_RNA	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	352					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		TGAAAATGAAATTCCTCAAGA	0.383													15	86					0	0	0.00499	0	0		G	56546862	G	G	56546862	3	3	11	1	0	0	0	0	1	0	0	0	6610	101	4	3	1109	3	GPBP1	5	56546862	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1139319	56546862	124368398	303	8695											
ACTBL2	345651	broad.mit.edu	37	chr5	56778014	56778014	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccaggcgtagaatggcaTgaggcagggcataaccttca	12	7	13	9	1	1	2	1	1	0	1	2	3	2	2	2	4	1	4	2	4	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:56778014T>C	uc003jrm.2	-	1	623	c.521A>G	c.(520-522)CAT>CGT	p.H174R		NM_001017992	NP_001017992	Q562R1	ACTBL_HUMAN	actin, beta-like 2	174						cytoplasm|cytoskeleton	ATP binding			ovary(3)	3		Lung NSC(810;0.000135)|Prostate(74;0.055)|Breast(144;0.0707)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;4.24e-37)		TAGAATGGCATGAGGCAGGGC	0.552													14	80					0	0	0.007413	0	0		C	56778014	C	C	56778014	3	2	11	1	0	0	0	0	1	0	0	0	194	1464	51	3	613	3	ACTBL2	5	56778014	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	231152	56778014	124137246	304	8696											
ACTBL2	345651	broad.mit.edu	37	chr5	56778343	56778343	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatacttcagggtcaggacGcctctcttgctctgagcctc	6	11	11	13	1	4	1	2	1	2	0	6	3	4	3	2	3	3	1	2	3	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:56778343G>A	uc003jrm.2	-	1	294	c.192C>T	c.(190-192)GGC>GGT	p.G64G		NM_001017992	NP_001017992	Q562R1	ACTBL_HUMAN	actin, beta-like 2	64						cytoplasm|cytoskeleton	ATP binding			ovary(3)	3		Lung NSC(810;0.000135)|Prostate(74;0.055)|Breast(144;0.0707)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;4.24e-37)		GGGTCAGGACGCCTCTCTTGC	0.547													5	54					0	0	0.001168	0	0		A	56778343	A	A	56778343	2	1	11	1	0	0	0	0	0	0	0	1	194	1074	38	1		1	ACTBL2	5	56778343	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	329	56778343	124136917	305	8697											
RNF180	285671	broad.mit.edu	37	chr5	63509571	63509571	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagtgaaatacttgtcaCatcctagagttcagtcaggt	12	12	8	9	0	4	2	4	1	0	1	5	2	5	2	1	1	1	1	1	1	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:63509571C>T	uc003jti.2	+	4	528	c.418C>T	c.(418-420)CAT>TAT	p.H140Y	RNF180_uc003jth.3_Missense_Mutation_p.H140Y|RNF180_uc010iws.2_Intron	NM_001113561	NP_001107033	Q86T96	RN180_HUMAN	ring finger protein 180 isoform 1	140	Cytoplasmic (Potential).					integral to membrane|nuclear envelope	zinc ion binding				0		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0848)|Colorectal(97;0.234)		Lung(70;0.114)		ATACTTGTCACATCCTAGAGT	0.473													23	136					0	0	0.00278	0	0		T	63509571	T	T	63509571	3	4	11	1	0	0	0	0	1	0	0	0	13489	478	17	4	428	4	RNF180	5	63509571	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	6731228	63509571	117405689	306	8698											
TRIM23	373	broad.mit.edu	37	chr5	64887740	64887740	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatggagactgagtagttcAgtgatttcttctactgacag	10	15	10	6	0	3	4	1	3	2	1	3	5	3	4	0	1	1	2	0	1	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:64887740A>G	uc003jty.2	-	11	1667	c.1581T>C	c.(1579-1581)ACT>ACC	p.T527T	TRIM23_uc003jtw.2_Silent_p.T527T|TRIM23_uc003jtx.2_Silent_p.T527T	NM_001656	NP_001647	P36406	TRI23_HUMAN	ADP-ribosylation factor domain protein 1 isoform	527	ARF-like.				interspecies interaction between organisms|small GTPase mediated signal transduction	Golgi membrane|lysosomal membrane	enzyme activator activity|GDP binding|GTP binding|GTPase activity|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Breast(144;0.0433)|Ovarian(174;0.0545)|Colorectal(97;0.234)		Lung(70;0.00473)		TGAGTAGTTCAGTGATTTCTT	0.398													8	63					0	0	0.008291	0	0		G	64887740	G	G	64887740	2	3	11	1	0	0	0	0	0	0	0	1	16523	175	7	3		3	TRIM23	5	64887740	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1378169	64887740	116027520	307	8699											
SV2C	22987	broad.mit.edu	37	chr5	75597266	75597266	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctttggttcggcaccagTgaatccatgatgataggcat	9	13	10	9	1	0	3	0	3	0	0	3	3	2	3	3	3	0	3	3	3	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:75597266T>A	uc003kei.1	+	12	2030	c.1896T>A	c.(1894-1896)AGT>AGA	p.S632R		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	632	Extracellular (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		TCGGCACCAGTGAATCCATGA	0.498													27	160					0	0	0.003755	0	0		A	75597266	A	A	75597266	3	1	11	1	0	0	0	0	1	0	0	0	15444	1693	59	5	1938	5	SV2C	5	75597266	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	10709526	75597266	105317994	308	8700											
ARSB	411	broad.mit.edu	37	chr5	78077720	78077720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttccatgtctaattgcagCatggacagatgtgttaaagg	12	13	10	6	0	1	1	0	0	1	1	2	2	2	2	1	2	2	3	1	2	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:78077720C>T	uc003kfq.2	-	7	2577	c.1291G>A	c.(1291-1293)GCT>ACT	p.A431T		NM_000046	NP_000037	P15848	ARSB_HUMAN	arylsulfatase B isoform 1 precursor	431					lysosomal transport|lysosome organization	lysosome	arylsulfatase activity|metal ion binding|N-acetylgalactosamine-4-sulfatase activity			upper_aerodigestive_tract(1)	1		all_lung(232;0.000637)|Lung NSC(167;0.00173)|Ovarian(174;0.0105)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;4.24e-44)|Epithelial(54;3.12e-39)|all cancers(79;3.02e-34)		CTAATTGCAGCATGGACAGAT	0.473													11	71					0	0	0.013537	0	0		T	78077720	T	T	78077720	3	4	11	1	0	0	0	0	1	0	0	0	989	710	25	2	318	2	ARSB	5	78077720	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2480454	78077720	102837540	309	8701											
MTX3	345778	broad.mit.edu	37	chr5	79279521	79279521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactctcagggcgaaagccGttggaaggaattattttctt	10	13	10	8	2	2	0	1	0	2	0	3	3	2	2	1	3	2	1	1	3	5	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:79279521G>A	uc010jag.2	-	9	952	c.925C>T	c.(925-927)CGG>TGG	p.R309W	MTX3_uc010jah.2_3'UTR|MTX3_uc003kge.3_Missense_Mutation_p.R248W	NM_001010891	NP_001010891	Q5HYI7	MTX3_HUMAN	metaxin 3	309					protein targeting to mitochondrion	mitochondrial outer membrane					0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.63e-45)|Epithelial(54;2.9e-40)|all cancers(79;4.68e-35)		GGCGAAAGCCGTTGGAAGGAA	0.443													9	69					0	0	0.004482	0	0		A	79279521	A	A	79279521	3	1	11	1	0	0	0	0	1	0	0	0	9987	1144	40	1	17	1	MTX3	5	79279521	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1201801	79279521	101635739	310	8702											
FAM151B	167555	broad.mit.edu	37	chr5	79837534	79837534	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaaaatgataactattcCgttgaagatttactttacat	16	14	6	5	1	0	3	0	2	0	1	1	4	1	4	1	1	3	1	1	1	8	8	rs138264758	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:79837534C>T	uc003kgv.1	+	6	857	c.714C>T	c.(712-714)TCC>TCT	p.S238S	FAM151B_uc010jal.1_RNA	NM_205548	NP_991111	Q6UXP7	F151B_HUMAN	hypothetical protein LOC167555	238											0		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;8.21e-47)|Epithelial(54;8.3e-42)|all cancers(79;1.97e-36)		ATAACTATTCCGTTGAAGATT	0.323													11	53					0	0	0.010729	0	0		T	79837534	T	T	79837534	2	4	11	1	0	0	0	0	0	0	0	1	5470	639	23	1		1	FAM151B	5	79837534	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	558013	79837534	101077726	311	8703											
RASGRF2	5924	broad.mit.edu	37	chr5	80521544	80521544	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttatcatagatgaagatacGctatatgagctgtcactaaa	15	12	7	7	1	2	4	2	2	0	2	2	4	2	4	0	0	2	2	0	0	8	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:80521544G>A	uc003kha.1	+	27	3669	c.3669G>A	c.(3667-3669)ACG>ACA	p.T1223T	RNU5E_uc011cto.1_Intron|RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	1223	Ras-GEF.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		ATGAAGATACGCTATATGAGC	0.468													7	44					0	0	0.006214	0	0		A	80521544	A	A	80521544	2	1	11	1	0	0	0	0	0	0	0	1	13098	1074	38	1		1	RASGRF2	5	80521544	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	684010	80521544	100393716	312	8704											
CKMT2	1160	broad.mit.edu	37	chr5	80550855	80550855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcattacgtgctgtcttctcGggtgcgcactggccgcagca	5	10	13	13	4	2	0	0	0	2	0	3	0	2	0	1	2	4	5	1	2	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:80550855G>A	uc003khc.3	+	6	733	c.491G>A	c.(490-492)CGG>CAG	p.R164Q	RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Missense_Mutation_p.R164Q|CKMT2_uc003khd.3_Missense_Mutation_p.R164Q|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816	P17540	KCRS_HUMAN	sarcomeric mitochondrial creatine kinase	164	Phosphagen kinase C-terminal.|ATP.				creatine metabolic process|muscle contraction	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;2.29e-44)|Epithelial(54;1.05e-38)|all cancers(79;4.15e-34)	Creatine(DB00148)	CTGTCTTCTCGGGTGCGCACT	0.652													4	14					0	0	0.009096	0	0		A	80550855	A	A	80550855	3	1	11	1	0	0	0	0	1	0	0	0	3454	1116	39	1	505	1	CKMT2	5	80550855	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	29311	80550855	100364405	313	8705											
SSBP2	23635	broad.mit.edu	37	chr5	80724431	80724431	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgaaaaggatttaagaaAtttccccccatttcgccatc	12	12	5	12	1	1	2	0	1	1	1	4	3	2	3	4	1	0	0	4	1	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:80724431A>T	uc003kho.2	-	16	1240	c.1029T>A	c.(1027-1029)AAT>AAA	p.N343K	RNU5E_uc011cto.1_Intron|SSBP2_uc010jar.2_Missense_Mutation_p.N228K|SSBP2_uc003khn.2_Missense_Mutation_p.N217K|SSBP2_uc003khp.2_Missense_Mutation_p.N351K|SSBP2_uc011ctp.1_Missense_Mutation_p.N323K|SSBP2_uc011ctq.1_Missense_Mutation_p.N321K|SSBP2_uc011ctr.1_Intron	NM_012446	NP_036578	P81877	SSBP2_HUMAN	single-stranded DNA binding protein 2	343					regulation of transcription, DNA-dependent	cytoplasm|nucleus	single-stranded DNA binding		SSBP2/JAK2(4)	haematopoietic_and_lymphoid_tissue(4)|skin(1)	5		Lung NSC(167;0.00154)|all_lung(232;0.00179)|Ovarian(174;0.0338)		OV - Ovarian serous cystadenocarcinoma(54;1.07e-41)|Epithelial(54;2.79e-35)|all cancers(79;1.18e-29)		GATTTAAGAAATTTCCCCCCA	0.363													12	47					0	0	0.00245	0	0		T	80724431	T	T	80724431	3	4	11	1	0	0	0	0	1	0	0	0	15205	98	4	5	64	5	SSBP2	5	80724431	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	173576	80724431	100190829	314	8706											
TMEM161B	153396	broad.mit.edu	37	chr5	87502851	87502851	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgaaactattacctgttTcaagtccaaattccagataa	15	13	5	8	0	1	2	1	1	0	1	3	2	3	2	3	0	2	2	3	0	7	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:87502851T>C	uc003kjc.2	-	6	718	c.593A>G	c.(592-594)GAA>GGA	p.E198G	TMEM161B_uc011cty.1_Missense_Mutation_p.E187G|TMEM161B_uc010jax.2_RNA|TMEM161B_uc011ctz.1_Missense_Mutation_p.E65G|TMEM161B_uc011ctx.1_Missense_Mutation_p.E16G	NM_153354	NP_699185	Q8NDZ6	T161B_HUMAN	transmembrane protein 161B	198						integral to membrane				skin(2)	2		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)		ATTACCTGTTTCAAGTCCAAA	0.289													3	33					0	0	0.004672	0	0		C	87502851	C	C	87502851	3	2	11	1	0	0	0	0	1	0	0	0	16102	1783	62	3	898	3	TMEM161B	5	87502851	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	6778420	87502851	93412409	315	8707											
ANKRD32	84250	broad.mit.edu	37	chr5	94030563	94030563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttttacaacagaggaatgCtaagggagaattgcccttgg	12	10	12	7	0	0	2	0	0	0	2	0	4	0	3	1	3	4	2	1	3	5	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:94030563C>T	uc003kkr.3	+	21	2803	c.2723C>T	c.(2722-2724)GCT>GTT	p.A908V	ANKRD32_uc003kks.2_Missense_Mutation_p.A272V	NM_032290	NP_115666	Q9BQI6	ANR32_HUMAN	ankyrin repeat domain 32	908										ovary(2)	2		all_cancers(142;1.51e-09)|all_epithelial(76;4.68e-12)|all_lung(232;5.94e-05)|Ovarian(174;0.000953)|Lung NSC(167;0.00105)|Colorectal(57;0.122)|Lung SC(612;0.152)		all cancers(79;3.88e-18)		CAGAGGAATGCTAAGGGAGAA	0.368													17	88					0	0	0.007413	0	0		T	94030563	T	T	94030563	3	4	11	1	0	0	0	0	1	0	0	0	660	797	28	2	2801	2	ANKRD32	5	94030563	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	6527712	94030563	86884697	316	8708											
ST8SIA4	7903	broad.mit.edu	37	chr5	100191911	100191911	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccacgtgcttctctcctccTttgaccatgaaagcaggaat	9	12	7	13	1	1	2	0	2	1	0	5	3	4	3	4	1	2	2	4	1	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:100191911T>G	uc003knk.2	-	4	1021	c.693A>C	c.(691-693)AAA>AAC	p.K231N		NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	231	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		TCTCTCCTCCTTTGACCATGA	0.418													25	140					0	0	0.003954	0	0		G	100191911	G	G	100191911	3	3	11	1	0	0	0	0	1	0	0	0	15259	1606	56	5	394	5	ST8SIA4	5	100191911	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	6161348	100191911	80723349	317	8709											
YTHDC2	64848	broad.mit.edu	37	chr5	112862461	112862461	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttgattgtaggagaaacTgggtctggaaagaccacaca	13	10	12	6	0	1	3	0	1	1	2	1	5	1	4	1	3	1	2	1	3	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:112862461T>C	uc003kqn.2	+	4	837	c.654T>C	c.(652-654)ACT>ACC	p.T218T	YTHDC2_uc010jce.1_Silent_p.T218T|YTHDC2_uc010jcf.1_Intron	NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	218	Helicase ATP-binding.|ATP (By similarity).						ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		TAGGAGAAACTGGGTCTGGAA	0.249													11	75					0	0	0.001855	0	0		C	112862461	C	C	112862461	2	2	11	1	0	0	0	0	0	0	0	1	17523	1567	55	3		3	YTHDC2	5	112862461	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	12670550	112862461	68052799	318	8710											
FAM170A	340069	broad.mit.edu	37	chr5	118970140	118970140	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcttcaggtgcatggccTgctgccgggtgttcaccacc	5	9	13	14	2	2	0	2	0	0	0	2	0	2	0	4	4	3	4	4	4	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:118970140T>C	uc003ksm.2	+	3	907	c.697T>C	c.(697-699)TGC>CGC	p.C233R	FAM170A_uc003ksl.2_Intron|FAM170A_uc003ksn.2_Missense_Mutation_p.C233R|FAM170A_uc003kso.2_Missense_Mutation_p.C186R	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	233	C2H2-type; degenerate.					intracellular	zinc ion binding			skin(1)	1						GTGCATGGCCTGCTGCCGGGT	0.592													11	94					0	0	0.00245	0	0		C	118970140	C	C	118970140	3	2	11	1	0	0	0	0	1	0	0	0	5500	1580	55	3	707	3	FAM170A	5	118970140	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	6107679	118970140	61945120	319	8711											
LMNB1	4001	broad.mit.edu	37	chr5	126168436	126168436	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaccatacctgaagaagaGgaggaggaggaagaagcagc	18	2	14	7	0	0	4	0	1	0	3	0	8	0	8	2	4	4	1	2	4	6	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:126168436G>A	uc003kud.1	+	10	2030	c.1662G>A	c.(1660-1662)GAG>GAA	p.E554E	LMNB1_uc010jdb.1_RNA|LMNB1_uc011cxb.1_Silent_p.E344E	NM_005573	NP_005564	P20700	LMNB1_HUMAN	lamin B1	554	Glu-rich (highly acidic; could be involved in chromatin binding).|Tail.				cellular component disassembly involved in apoptosis	lamin filament|nuclear inner membrane	protein binding|structural molecule activity			kidney(1)|central_nervous_system(1)	2		all_cancers(142;0.103)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.033)|OV - Ovarian serous cystadenocarcinoma(64;0.0398)|all cancers(49;0.0903)		CTGAAGAAGAGGAGGAGGAGG	0.318													12	70					0	0	0.00499	0	0		A	126168436	A	A	126168436	2	1	11	1	0	0	0	0	0	0	0	1	8866	991	35	4		4	LMNB1	5	126168436	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	7198296	126168436	54746824	320	8712											
FBN2	2201	broad.mit.edu	37	chr5	127599223	127599223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggacgagcactcattcaCgtcgtggcaggcactggaga	10	6	15	10	3	2	1	2	0	0	1	3	5	2	3	0	5	1	3	0	5	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:127599223C>T	uc003kuu.2	-	63	8525	c.8086G>A	c.(8086-8088)GTG>ATG	p.V2696M		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	2696	EGF-like 47; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		CACTCATTCACGTCGTGGCAG	0.607													9	65					0	0	0.00245	0	0		T	127599223	T	T	127599223	3	4	11	1	0	0	0	0	1	0	0	0	5717	536	19	1	664	1	FBN2	5	127599223	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1430787	127599223	53316037	321	8713											
SLC27A6	28965	broad.mit.edu	37	chr5	128365383	128365383	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccagcttatgcttgtccaCgatttttaagaattcaggta	11	15	7	8	1	1	1	1	0	0	1	2	2	2	1	2	1	3	3	2	1	5	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:128365383C>T	uc003kuy.2	+	10	2062	c.1666C>T	c.(1666-1668)CGA>TGA	p.R556*	SLC27A6_uc003kuz.2_Nonsense_Mutation_p.R556*	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	556					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		TGCTTGTCCACGATTTTTAAG	0.294													5	34					0	0	0.000602	0	0		T	128365383	T	T	128365383	4	4	11	1	0	0	0	0	0	1	0	0	14555	528	19	1	1700	1	SLC27A6	5	128365383	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	766160	128365383	52549877	322	8714											
ACSL6	23305	broad.mit.edu	37	chr5	131326646	131326646	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccaatcacagatcgccgTgccccgccactgtcctacaa	10	6	7	18	3	1	1	1	0	0	1	3	2	2	1	6	0	2	0	6	0	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:131326646T>C	uc010jdo.1	-	3	293	c.210A>G	c.(208-210)GCA>GCG	p.A70A	ACSL6_uc003kvv.1_RNA|ACSL6_uc003kvx.1_Silent_p.A95A|ACSL6_uc003kvy.1_Silent_p.A95A|ACSL6_uc003kwb.2_Silent_p.A60A|ACSL6_uc003kvz.1_Silent_p.A35A|ACSL6_uc003kwa.1_Silent_p.A81A|ACSL6_uc003kwc.1_Silent_p.A35A|ACSL6_uc003kwd.1_Silent_p.A70A|ACSL6_uc010jdn.1_Silent_p.A70A	NM_015256	NP_056071	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6	70	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CAGATCGCCGTGCCCCGCCAC	0.607													3	17					0	0	0.001168	0	0		C	131326646	C	C	131326646	2	2	11	1	0	0	0	0	0	0	0	1	181	1683	59	3		3	ACSL6	5	131326646	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2961263	131326646	49588614	323	8715											
SLC22A4	6583	broad.mit.edu	37	chr5	131647935	131647935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgctcctcggctccttcGtgtccgggcagctgtcagac	3	10	13	15	4	1	1	1	0	0	1	6	1	4	1	3	2	2	4	3	2	0	1	rs11568509	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:131647935G>A	uc003kwq.2	+	2	640	c.475G>A	c.(475-477)GTG>ATG	p.V159M	SLC22A4_uc010jdq.1_RNA|uc003kwr.3_RNA	NM_003059	NP_003050	Q9H015	S22A4_HUMAN	solute carrier family 22 member 4	159	Helical; Name=2; (Potential).				body fluid secretion|sodium ion transport	apical plasma membrane|integral to plasma membrane|mitochondrion	ATP binding|carnitine transporter activity|cation:cation antiporter activity|PDZ domain binding|secondary active organic cation transmembrane transporter activity|symporter activity				0		all_cancers(142;0.0752)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Carnitine(DB00583)	CGGCTCCTTCGTGTCCGGGCA	0.577													21	108					0	0	0.012319	0	0		A	131647935	A	A	131647935	3	1	11	1	0	0	0	0	1	0	0	0	14481	1145	40	1	481	1	SLC22A4	5	131647935	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	321289	131647935	49267325	324	8716											
RAD50	10111	broad.mit.edu	37	chr5	131926968	131926968	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtagaaaccttaaaaaTggaagtaataagtctccaaa	20	9	6	6	0	1	1	0	0	1	1	2	2	1	2	2	1	1	2	2	1	10	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:131926968T>C	uc003kxi.2	+	10	1892	c.1505T>C	c.(1504-1506)ATG>ACG	p.M502T	RAD50_uc003kxh.2_Missense_Mutation_p.M363T	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	502	Potential.				DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ACCTTAAAAATGGAAGTAATA	0.368								Homologous_recombination					5	112					0	0	0.000602	0	0		C	131926968	C	C	131926968	3	2	11	1	0	0	0	0	1	0	0	0	13009	1464	51	3	1543	3	RAD50	5	131926968	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	279033	131926968	48988292	325	8717											
PCBD2	84105	broad.mit.edu	37	chr5	134246093	134246093	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaccttaaagcagcaggAtggtcggaattaagtgagag	13	9	13	6	1	0	2	0	2	0	1	1	5	0	4	1	3	2	2	1	3	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:134246093A>G	uc010jdz.2	+	2	173	c.153A>G	c.(151-153)GGA>GGG	p.G51G	PCBD2_uc011cxw.1_Silent_p.G51G	NM_032151	NP_115527	Q9H0N5	PHS2_HUMAN	pterin-4 alpha-carbinolamine dehydratase 2	51					positive regulation of transcription, DNA-dependent|tetrahydrobiopterin biosynthetic process		4-alpha-hydroxytetrahydrobiopterin dehydratase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AAGCAGCAGGATGGTCGGAAT	0.393													6	83					0	0	0.00308	0	0		G	134246093	G	G	134246093	2	3	11	1	0	0	0	0	0	0	0	1	11518	320	12	3		3	PCBD2	5	134246093	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	2319125	134246093	46669167	326	8718											
DNAJC18	202052	broad.mit.edu	37	chr5	138758500	138758500	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagctgaataaatgcagaatAtgtagtctgaaaaagaaaaa	21	9	8	3	0	1	4	0	2	1	2	1	4	1	4	0	0	2	3	0	0	11	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:138758500A>G	uc003len.2	-	6	681	c.676T>C	c.(676-678)TAT>CAT	p.Y226H	DNAJC18_uc010jff.2_Missense_Mutation_p.Y164H	NM_152686	NP_689899	Q9H819	DJC18_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 18	226					protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			ovary(1)|kidney(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AATGCAGAATATGTAGTCTGA	0.239													20	59					0	0	0.012319	0	0		G	138758500	G	G	138758500	3	3	11	1	0	0	0	0	1	0	0	0	4643	449	16	3	412	3	DNAJC18	5	138758500	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	4512407	138758500	42156760	327	8719											
NRG2	9542	broad.mit.edu	37	chr5	139260458	139260458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgctgttgacgtaaagcCggccccggacggtgtccttc	6	9	12	14	5	0	1	0	1	0	0	2	2	1	2	5	3	2	3	5	3	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:139260458C>T	uc003lex.1	-	3	1199	c.974G>A	c.(973-975)CGG>CAG	p.R325Q	NRG2_uc003lev.1_Missense_Mutation_p.R325Q|NRG2_uc003lew.1_Missense_Mutation_p.R325Q|NRG2_uc003ley.1_Missense_Mutation_p.R325Q	NM_004883	NP_004874	O14511	NRG2_HUMAN	neuregulin 2 isoform 1	325	Ig-like C2-type.|Extracellular (Potential).				embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGTAAAGCCGGCCCCGGAC	0.632													6	32					0	0	0.001984	0	0		T	139260458	T	T	139260458	3	4	11	1	0	0	0	0	1	0	0	0	10667	652	23	1	1701	1	NRG2	5	139260458	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	501958	139260458	41654802	328	8720											
PCDHA1	56147	broad.mit.edu	37	chr5	140167635	140167635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgccgcgattggtgggtgCgggtcatgtggtggcgaagg	4	9	22	6	4	1	0	1	0	0	0	1	2	1	0	1	7	2	0	1	7	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:140167635C>T	uc003lhb.2	+	1	1760	c.1760C>T	c.(1759-1761)GCG>GTG	p.A587V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.A587V	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	587	Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGGTGGGTGCGGGTCATGTG	0.672													10	49					0	0	0.001855	0	0		T	140167635	T	T	140167635	3	4	11	1	0	0	0	0	1	0	0	0	11538	768	27	1	1762	1	PCDHA1	5	140167635	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	907177	140167635	40747625	329	8721											
PCDHA2	56146	broad.mit.edu	37	chr5	140176220	140176220	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaggtgttcgtgctggaCgagaacgacaacgcgccggc	8	6	15	12	6	0	1	0	0	0	1	1	4	0	2	1	3	4	3	1	3	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:140176220C>T	uc003lhd.2	+	1	1777	c.1671C>T	c.(1669-1671)GAC>GAT	p.D557D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.D557D|PCDHA2_uc011czy.1_Silent_p.D557D	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	557	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGTGCTGGACGAGAACGACA	0.687													15	68					0	0	0.008871	0	0		T	140176220	T	T	140176220	2	4	11	1	0	0	0	0	0	0	0	1	11543	535	19	1		1	PCDHA2	5	140176220	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	8585	140176220	40739040	330	8722											
PCDHA8	56140	broad.mit.edu	37	chr5	140222221	140222221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccttcgctgtgggccaccGccagcttgtctgtggaggtg	3	10	15	13	3	1	0	0	0	1	0	2	1	1	1	4	3	1	2	4	3	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:140222221G>A	uc003lhs.2	+	1	1315	c.1315G>A	c.(1315-1317)GCC>ACC	p.A439T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.A439T	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	439	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGGCCACCGCCAGCTTGTC	0.667													5	19					0	0	0.006214	0	0		A	140222221	A	A	140222221	3	1	11	1	0	0	0	0	1	0	0	0	11549	1087	38	1	1317	1	PCDHA8	5	140222221	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	46001	140222221	40693039	331	8723											
PCDHA12	56137	broad.mit.edu	37	chr5	140256301	140256301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggacagcgccctggaccGcgagagcgtgtcggcctatg	6	6	16	13	5	0	1	0	0	0	1	1	4	0	3	3	3	2	1	3	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:140256301G>A	uc003lic.2	+	1	1371	c.1244G>A	c.(1243-1245)CGC>CAC	p.R415H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.R415H	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	415	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCCTGGACCGCGAGAGCGTG	0.612													20	160					0	0	0.00278	0	0		A	140256301	A	A	140256301	3	1	11	1	0	0	0	0	1	0	0	0	11541	1087	38	1	1246	1	PCDHA12	5	140256301	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	34080	140256301	40658959	332	8724											
PCDHB2	56133	broad.mit.edu	37	chr5	140474624	140474624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagttcgataggcagaccGgggatttgttgttaaatgag	10	12	14	5	2	0	2	0	1	0	1	1	4	0	3	1	3	1	5	1	3	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:140474624G>A	uc003lil.2	+	1	388	c.250G>A	c.(250-252)GGG>AGG	p.G84R	PCDHB2_uc003lim.1_Intron	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	84	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TAGGCAGACCGGGGATTTGTT	0.507													12	83					0	0	0.013537	0	0		A	140474624	A	A	140474624	3	1	11	1	0	0	0	0	1	0	0	0	11561	1116	39	1	252	1	PCDHB2	5	140474624	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	218323	140474624	40440636	333	8725											
PCDHB7	56129	broad.mit.edu	37	chr5	140554636	140554636	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggacttgagcggcacCgggaccctatcccagagcta	8	7	13	13	2	0	2	0	1	0	1	1	4	1	4	3	4	2	2	3	4	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:140554636C>T	uc003lit.2	+	1	2394	c.2220C>T	c.(2218-2220)ACC>ACT	p.T740T	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	740	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGAGCGGCACCGGGACCCTAT	0.617													10	138					0	0	0.006214	0	0		T	140554636	T	T	140554636	2	4	11	1	0	0	0	0	0	0	0	1	11566	639	23	1		1	PCDHB7	5	140554636	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	80012	140554636	40360624	334	8726											
PCDHB8	56128	broad.mit.edu	37	chr5	140558582	140558582	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagtcaatatcgaggcgAgagatgctggaggcttttct	11	11	13	6	2	2	2	1	1	1	1	3	6	2	3	0	3	1	2	0	3	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:140558582A>G	uc011dai.1	+	1	1153	c.967A>G	c.(967-969)AGA>GGA	p.R323G	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	323	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TATCGAGGCGAGAGATGCTGG	0.413													9	274					0	0	0.008871	0	0		G	140558582	G	G	140558582	3	3	11	1	0	0	0	0	1	0	0	0	11567	296	11	3	969	3	PCDHB8	5	140558582	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	3946	140558582	40356678	335	8727											
PCDHGA1	56114	broad.mit.edu	37	chr5	140711018	140711018	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtccccgaaaacgtgcCgctgggtactcagctgctca	10	8	10	13	3	2	0	2	0	0	0	3	1	3	0	3	1	5	4	3	1	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:140711018C>A	uc003lji.1	+	1	767	c.767C>A	c.(766-768)CCG>CAG	p.P256Q	PCDHGA1_uc011dan.1_Missense_Mutation_p.P256Q	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	256	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAAAACGTGCCGCTGGGTACT	0.493													18	68					8.34094e-07	9.33356e-07	0.008871	1	0		A	140711018	A	A	140711018	3	1	11	1	0	0	0	0	1	0	0	0	11569	652	23	5	769	5	PCDHGA1	5	140711018	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	152436	140711018	40204242	336	8728											
PCDHGA6	56109	broad.mit.edu	37	chr5	140753898	140753898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgaatccgcgaaacggcaGcttggtcaccgcgggtagga	9	7	14	11	5	2	1	1	1	1	0	3	3	3	2	2	4	2	3	2	4	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:140753898G>A	uc003ljy.1	+	1	248	c.248G>A	c.(247-249)AGC>AAC	p.S83N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.S83N	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	83	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAAACGGCAGCTTGGTCACC	0.567													16	57					0	0	0.007413	0	0		A	140753898	A	A	140753898	3	1	11	1	0	0	0	0	1	0	0	0	11577	971	34	2	250	2	PCDHGA6	5	140753898	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	42880	140753898	40161362	337	8729											
PCDHGB6	56100	broad.mit.edu	37	chr5	140789013	140789013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctggaccgagagcagaCaccagaatacaatgtcacca	15	4	9	13	1	1	3	1	0	0	3	1	5	1	4	4	1	3	1	4	1	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:140789013C>T	uc003lkj.1	+	1	1244	c.1244C>T	c.(1243-1245)ACA>ATA	p.T415I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.T415I	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	415	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAGAGCAGACACCAGAATAC	0.458													7	65					0	0	0.001984	0	0		T	140789013	T	T	140789013	3	4	11	1	0	0	0	0	1	0	0	0	11586	478	17	4	1246	4	PCDHGB6	5	140789013	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	35115	140789013	40126247	338	8730											
PCDHGB7	56099	broad.mit.edu	37	chr5	140799786	140799786	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcaacaaagatagcatgcTactggctagcattttaactc	13	11	6	11	0	1	1	1	0	0	1	2	1	1	1	1	1	6	4	1	1	6	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:140799786T>C	uc003lkn.1	+	1	2505	c.2360T>C	c.(2359-2361)CTA>CCA	p.L787P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.L787P|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	787	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATAGCATGCTACTGGCTAGC	0.333													15	57					0	0	0.010504	0	0		C	140799786	C	C	140799786	3	2	11	1	0	0	0	0	1	0	0	0	11587	1522	53	3	2362	3	PCDHGB7	5	140799786	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	10773	140799786	40115474	339	8731											
DIAPH1	1729	broad.mit.edu	37	chr5	140955848	140955848	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatttctccacctttgtcttAtcaatcatttgatctgaaaa	11	17	4	9	0	5	2	2	2	3	0	6	3	5	2	2	0	0	0	2	0	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:140955848A>G	uc003llb.3	-	14	1551	c.1410T>C	c.(1408-1410)GAT>GAC	p.D470D	DIAPH1_uc003llc.3_Silent_p.D461D|DIAPH1_uc010jgc.1_5'Flank	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	470	Potential.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTTTGTCTTATCAATCATTT	0.373													13	77					0	0	0.013537	0	0		G	140955848	G	G	140955848	2	3	11	1	0	0	0	0	0	0	0	1	4524	446	16	3		3	DIAPH1	5	140955848	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	156062	140955848	39959412	340	8732											
KCTD16	57528	broad.mit.edu	37	chr5	143586874	143586874	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtttgtggaaggatttcCttggcaaaagaagtctttgg	9	15	13	4	0	1	1	0	0	1	1	2	3	2	3	1	5	0	2	1	5	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:143586874C>A	uc003lnm.1	+	3	1226	c.597C>A	c.(595-597)TCC>TCA	p.S199S	KCTD16_uc003lnn.1_Silent_p.S199S	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	199						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			GAAGGATTTCCTTGGCAAAAG	0.473													5	66					5.9392e-07	6.67458e-07	0.001168	1	0		A	143586874	A	A	143586874	2	1	11	1	0	0	0	0	0	0	0	1	8119	668	24	5		5	KCTD16	5	143586874	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2631026	143586874	37328386	341	8733											
PLAC8L1	153770	broad.mit.edu	37	chr5	145483816	145483816	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgacaacagaggtgagtatAtgttgagtaaggaaagatcc	15	9	13	4	0	0	5	0	3	0	2	1	6	1	6	1	2	1	3	1	2	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:145483816A>G	uc003lnv.2	-	1	131	c.59T>C	c.(58-60)ATA>ACA	p.I20T	PLAC8L1_uc011dbp.1_RNA	NM_001029869	NP_001025040	A1L4L8	PL8L1_HUMAN	PLAC8-like 1	20											0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGGTGAGTATATGTTGAGTAA	0.403													14	57					0	0	0.003163	0	0		G	145483816	G	G	145483816	3	3	11	1	0	0	0	0	1	0	0	0	12035	449	16	3	490	3	PLAC8L1	5	145483816	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1896942	145483816	35431444	342	8734											
SPINK5	11005	broad.mit.edu	37	chr5	147473990	147473990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggagagtgatccagtccGtggccctgacggcaggatgc	8	6	16	11	3	0	3	0	2	0	1	2	5	2	4	3	4	1	1	3	4	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:147473990G>A	uc003lox.2	+	9	813	c.740G>A	c.(739-741)CGT>CAT	p.R247H	SPINK5_uc010jgq.1_RNA|SPINK5_uc010jgs.1_Missense_Mutation_p.R219H|SPINK5_uc010jgr.2_Missense_Mutation_p.R228H|SPINK5_uc003low.2_Missense_Mutation_p.R247H|SPINK5_uc003loy.2_Missense_Mutation_p.R247H	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	247	Kazal-like 4.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATCCAGTCCGTGGCCCTGAC	0.403													27	148					0	0	0.009535	0	0		A	147473990	A	A	147473990	3	1	11	1	0	0	0	0	1	0	0	0	15087	1145	40	1	774	1	SPINK5	5	147473990	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1990174	147473990	33441270	343	8735											
SPINK14	408187	broad.mit.edu	37	chr5	147554938	147554938	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatctcatggaagaatcaggTtttaccatgatggaaaatgt	15	12	9	5	0	2	2	2	1	1	1	3	4	2	4	1	3	1	1	1	3	6	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:147554938T>C	uc003loz.1	+	4	271	c.271T>C	c.(271-273)TTT>CTT	p.F91L		NM_001001325	NP_001001325	Q6IE38	ISK14_HUMAN	Kazal type serine protease inhibitor 5-like 2	91	Kazal-like.					extracellular region	serine-type endopeptidase inhibitor activity				0						AAGAATCAGGTTTTACCATGA	0.269													9	34					0	0	0.008291	0	0		C	147554938	C	C	147554938	3	2	11	1	0	0	0	0	1	0	0	0	15084	1725	60	3	285	3	SPINK14	5	147554938	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	80948	147554938	33360322	344	8736											
HTR4	3360	broad.mit.edu	37	chr5	147928374	147928374	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagggcatcaccagcacCgaaaccagcagatccgcaaa	16	2	8	15	2	1	1	1	0	0	1	2	2	2	1	5	1	3	4	5	1	3	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:147928374C>T	uc003lpn.2	-	4	374	c.210G>A	c.(208-210)TCG>TCA	p.S70S	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Silent_p.S70S|HTR4_uc003lpj.1_Silent_p.S70S|HTR4_uc003lpk.2_Silent_p.S70S|HTR4_uc011dby.1_Silent_p.S70S|HTR4_uc003lpl.2_Silent_p.S70S|HTR4_uc003lpm.2_Silent_p.S70S|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Silent_p.S70S	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	70	Helical; Name=2; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	TCACCAGCACCGAAACCAGCA	0.383													13	65					0	0	0.004007	0	0		T	147928374	T	T	147928374	2	4	11	1	0	0	0	0	0	0	0	1	7465	639	23	1		1	HTR4	5	147928374	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	373436	147928374	32986886	345	8737											
SH3TC2	79628	broad.mit.edu	37	chr5	148392271	148392271	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatacgcaggctctccttgAtgcatgtgagtgacctcctg	8	11	11	11	1	1	4	0	3	1	1	3	4	2	4	3	1	2	3	3	1	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:148392271A>G	uc003lpu.2	-	13	3232	c.3080T>C	c.(3079-3081)ATC>ACC	p.I1027T	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_Missense_Mutation_p.I671T|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_Missense_Mutation_p.I574T|SH3TC2_uc010jgx.2_Missense_Mutation_p.I1020T	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	1027	TPR 4.						binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTCTCCTTGATGCATGTGAG	0.577													4	35					0	0	0.000602	0	0		G	148392271	G	G	148392271	3	3	11	1	0	0	0	0	1	0	0	0	14287	333	12	3	806	3	SH3TC2	5	148392271	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	463897	148392271	32522989	346	8738											
SH3TC2	79628	broad.mit.edu	37	chr5	148406142	148406142	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccctgactcacctggcggTatttaggttccgataaagct	9	11	10	11	2	1	1	1	1	0	0	2	3	2	1	3	3	1	3	3	3	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:148406142T>C	uc003lpu.2	-	12	3198	c.3046A>G	c.(3046-3048)ACC>GCC	p.T1016A	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_Missense_Mutation_p.T660A|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_Missense_Mutation_p.T563A|SH3TC2_uc010jgx.2_Missense_Mutation_p.T1009A|SH3TC2_uc003lpv.1_3'UTR|SH3TC2_uc011dbz.1_3'UTR	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	1016	TPR 4.						binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACCTGGCGGTATTTAGGTTC	0.542													22	110					0	0	0.004656	0	0		C	148406142	C	C	148406142	3	2	11	1	0	0	0	0	1	0	0	0	14287	1638	57	3	844	3	SH3TC2	5	148406142	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	13871	148406142	32509118	347	8739											
SH3TC2	79628	broad.mit.edu	37	chr5	148407408	148407408	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggccctggcctccagcggGctgctgcccaccacaatccc	6	5	10	20	1	0	0	0	0	0	0	2	0	2	0	6	3	3	2	6	3	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:148407408G>A	uc003lpu.2	-	11	2039	c.1887C>T	c.(1885-1887)AGC>AGT	p.S629S	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_Silent_p.S273S|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_Silent_p.S176S|SH3TC2_uc010jgx.2_Silent_p.S622S|SH3TC2_uc003lpv.1_Silent_p.S176S|SH3TC2_uc011dbz.1_Silent_p.S514S	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	629							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTCCAGCGGGCTGCTGCCCA	0.672													4	19					0	0	0.001168	0	0		A	148407408	A	A	148407408	2	1	11	1	0	0	0	0	0	0	0	1	14287	1194	42	2		2	SH3TC2	5	148407408	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1266	148407408	32507852	348	8740											
FAT2	2196	broad.mit.edu	37	chr5	150924599	150924599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgagtgtcctgctgctccCggtcaaacgccacacctctt	7	10	8	16	2	2	1	1	1	1	0	4	1	4	1	4	1	3	2	4	1	1	1	rs145039507		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:150924599C>T	uc003lue.3	-	9	6102	c.6089G>A	c.(6088-6090)CGG>CAG	p.R2030Q	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	2030	Extracellular (Potential).|Cadherin 17.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTGCTGCTCCCGGTCAAACGC	0.512													14	103					0	0	0.00499	0	0		T	150924599	T	T	150924599	3	4	11	1	0	0	0	0	1	0	0	0	5704	652	23	1	7020	1	FAT2	5	150924599	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2517191	150924599	29990661	349	8741											
FAT2	2196	broad.mit.edu	37	chr5	150930358	150930358	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcacggtgtcctggggAactctgacttcataacgagt	8	10	12	11	2	2	1	1	1	1	0	3	3	3	2	2	4	2	1	2	4	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:150930358A>G	uc003lue.3	-	7	4384	c.4371T>C	c.(4369-4371)GTT>GTC	p.V1457V	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1457	Extracellular (Potential).|Cadherin 13.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGTCCTGGGGAACTCTGACTT	0.527													5	22					0	0	0.001168	0	0		G	150930358	G	G	150930358	2	3	11	1	0	0	0	0	0	0	0	1	5704	233	9	3		3	FAT2	5	150930358	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	5759	150930358	29984902	350	8742											
NMUR2	56923	broad.mit.edu	37	chr5	151784474	151784474	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggtgctgcagaatcaccagGcacaccaggacattgccaat	12	7	10	12	0	1	1	1	0	0	1	1	2	1	2	3	3	3	3	3	3	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:151784474G>A	uc003luv.2	-	1	367	c.201C>T	c.(199-201)TGC>TGT	p.C67C		NM_020167	NP_064552	Q9GZQ4	NMUR2_HUMAN	neuromedin U receptor 2	67	Helical; Name=1; (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|arachidonic acid secretion|calcium ion transport|central nervous system development|elevation of cytosolic calcium ion concentration|regulation of smooth muscle contraction	integral to membrane|plasma membrane	GTP binding|intracellular calcium activated chloride channel activity|neuromedin U receptor activity			ovary(3)|skin(2)|lung(1)|breast(1)|pancreas(1)	8		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)	Kidney(363;0.000106)|KIRC - Kidney renal clear cell carcinoma(527;0.000672)			GAATCACCAGGCACACCAGGA	0.587													6	49					0	0	0.00308	0	0		A	151784474	A	A	151784474	2	1	11	1	0	0	0	0	0	0	0	1	10526	1195	42	2		2	NMUR2	5	151784474	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	854116	151784474	29130786	351	8743											
RNF145	153830	broad.mit.edu	37	chr5	158621757	158621757	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccagcatagaggagcagaGcagtcaaaaaatatagataa	19	6	10	6	0	1	3	1	0	0	3	2	4	2	4	1	1	3	3	1	1	7	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:158621757G>T	uc003lxp.2	-	3	573	c.260C>A	c.(259-261)GCT>GAT	p.A87D	RNF145_uc011ddy.1_Missense_Mutation_p.A101D|RNF145_uc003lxo.1_Missense_Mutation_p.A115D|RNF145_uc011ddz.1_Missense_Mutation_p.A104D|RNF145_uc010jiq.1_Missense_Mutation_p.A117D|RNF145_uc011dea.1_Missense_Mutation_p.A103D	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	87	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAGGAGCAGAGCAGTCAAAAA	0.343													34	171					1.60099e-16	1.87667e-16	0.004878	1	0		T	158621757	T	T	158621757	3	4	11	1	0	0	0	0	1	0	0	0	13472	971	34	5	1767	5	RNF145	5	158621757	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	6837283	158621757	22293503	352	8744											
CCNJL	79616	broad.mit.edu	37	chr5	159738871	159738871	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagggactgaccttctcGcgcagggtgcagtggacgtc	7	7	17	10	3	1	1	0	1	1	0	3	4	1	4	1	4	1	2	1	4	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:159738871G>A	uc003lyb.1	-	2	312	c.60C>T	c.(58-60)CGC>CGT	p.R20R	CCNJL_uc011dee.1_Silent_p.R20R|CCNJL_uc003lyc.1_Intron|CCNJL_uc011def.1_Silent_p.R20R	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	20	Cyclin N-terminal.					nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGACCTTCTCGCGCAGGGTGC	0.637													9	36					0	0	0.008291	0	0		A	159738871	A	A	159738871	2	1	11	1	0	0	0	0	0	0	0	1	2932	1074	38	1		1	CCNJL	5	159738871	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1117114	159738871	21176389	353	8745											
MAT2B	27430	broad.mit.edu	37	chr5	162943622	162943622	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaagtgcagttcagcaacAagtcagcaaacatggatcac	17	7	8	9	0	3	0	3	0	0	0	3	1	3	1	0	1	5	4	0	1	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:162943622A>G	uc003lzk.2	+	5	733	c.625A>G	c.(625-627)AAG>GAG	p.K209E	MAT2B_uc003lzj.2_Missense_Mutation_p.K198E|MAT2B_uc003lzl.1_Missense_Mutation_p.K209E|MAT2B_uc003lzm.2_5'Flank	NM_013283	NP_037415	Q9NZL9	MAT2B_HUMAN	methionine adenosyltransferase II, beta isoform	209					extracellular polysaccharide biosynthetic process|methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol|methionine adenosyltransferase complex|nucleus	dTDP-4-dehydrorhamnose reductase activity|methionine adenosyltransferase regulator activity|protein binding			upper_aerodigestive_tract(1)	1	Renal(175;0.000281)	Medulloblastoma(196;0.0208)|all_neural(177;0.0765)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.027)|OV - Ovarian serous cystadenocarcinoma(192;0.0406)|Epithelial(171;0.0797)	L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	GTTCAGCAACAAGTCAGCAAA	0.473													6	58					0	0	0.001168	0	0		G	162943622	G	G	162943622	3	3	11	1	0	0	0	0	1	0	0	0	9349	131	5	3	677	3	MAT2B	5	162943622	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	3204751	162943622	17971638	354	8746											
MSX2	4488	broad.mit.edu	37	chr5	174156184	174156184	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catatgagccctaccacctgCaccctgaggaaacacaagac	14	5	7	15	0	0	3	0	2	0	1	0	4	0	4	4	1	4	1	4	1	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:174156184C>T	uc003mcy.2	+	2	490	c.402C>T	c.(400-402)TGC>TGT	p.C134C		NM_002449	NP_002440	P35548	MSX2_HUMAN	msh homeobox 2	134					cranial suture morphogenesis|negative regulation of transcription, DNA-dependent|osteoblast differentiation	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0196)|all_lung(126;0.0303)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CTACCACCTGCACCCTGAGGA	0.498													5	50					0	0	0.001168	0	0		T	174156184	T	T	174156184	2	4	11	1	0	0	0	0	0	0	0	1	9914	718	25	2		2	MSX2	5	174156184	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	11212562	174156184	6759076	355	8747											
FGFR4	2264	broad.mit.edu	37	chr5	176522590	176522590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaacctgcgggagttcctgCgggcccggcgccccccaggc	5	4	15	17	4	0	0	0	0	0	0	1	2	1	1	6	4	3	1	6	4	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:176522590C>T	uc003mfl.2	+	13	1854	c.1687C>T	c.(1687-1689)CGG>TGG	p.R563W	FGFR4_uc003mfm.2_Missense_Mutation_p.R563W|FGFR4_uc011dfu.1_Missense_Mutation_p.R495W|FGFR4_uc003mfo.2_Missense_Mutation_p.R523W	NM_002011	NP_002002	P22455	FGFR4_HUMAN	fibroblast growth factor receptor 4 isoform 1	563	Protein kinase.|Cytoplasmic (Potential).				insulin receptor signaling pathway|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity			lung(11)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|prostate(1)	16	all_cancers(89;5.93e-05)|Renal(175;0.000269)|Lung NSC(126;0.0088)|all_lung(126;0.0142)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Palifermin(DB00039)	GGAGTTCCTGCGGGCCCGGCG	0.697										TSP Lung(9;0.080)			3	5					0	0	0.004672	0	0		T	176522590	T	T	176522590	3	4	11	1	0	0	0	0	1	0	0	0	5882	759	27	1	1803	1	FGFR4	5	176522590	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2366406	176522590	4392670	356	8748											
DDX41	51428	broad.mit.edu	37	chr5	176942974	176942974	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaatgcccttagccatctcCttcactgacatcaatgctga	10	12	6	13	0	3	2	2	2	1	0	4	2	3	2	3	0	3	2	3	0	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:176942974C>A	uc003mho.2	-	5	411	c.390G>T	c.(388-390)AAG>AAT	p.K130N	DDX41_uc003mhm.2_5'Flank|DDX41_uc003mhn.2_Translation_Start_Site|DDX41_uc003mhp.2_Translation_Start_Site|DDX41_uc003mhq.1_Translation_Start_Site	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	130					apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			TAGCCATCTCCTTCACTGACA	0.512													11	62					0.000151284	0.000163683	0.001855	1	0		A	176942974	A	A	176942974	3	1	11	1	0	0	0	0	1	0	0	0	4364	680	24	5	1530	5	DDX41	5	176942974	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	420384	176942974	3972286	357	8749											
ZFP2	80108	broad.mit.edu	37	chr5	178359697	178359697	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacatcaaagaactcatacGtgaggaatgttttcactggc	13	10	9	9	2	3	2	3	1	0	1	3	4	3	3	0	2	2	1	0	2	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:178359697G>A	uc003mjn.1	+	5	1892	c.1383G>A	c.(1381-1383)ACG>ACA	p.T461T	ZFP2_uc010jky.2_Silent_p.T461T|ZFP2_uc010jkx.1_Silent_p.T461T	NM_030613	NP_085116	Q6ZN57	ZFP2_HUMAN	zinc finger protein 2 homolog	461					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.00655)|GBM - Glioblastoma multiforme(465;0.0302)|OV - Ovarian serous cystadenocarcinoma(192;0.0615)|Epithelial(171;0.111)		GAACTCATACGTGAGGAATGT	0.388													9	60					0	0	0.004482	0	0		A	178359697	A	A	178359697	2	1	11	1	0	0	0	0	0	0	0	1	17666	1132	40	1		1	ZFP2	5	178359697	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1416723	178359697	2555563	358	8750											
ZNF454	285676	broad.mit.edu	37	chr5	178392951	178392951	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacctcattcagcatcagAgacatcatattggagagaag	16	8	8	9	0	4	2	4	0	0	2	4	5	4	3	1	1	2	1	1	1	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:178392951A>G	uc003mjo.1	+	5	1817	c.1546A>G	c.(1546-1548)AGA>GGA	p.R516G	ZNF454_uc010jkz.1_Missense_Mutation_p.R516G	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	516	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(89;0.000904)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.225)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.234)		TCAGCATCAGAGACATCATAT	0.383													15	97					0	0	0.004007	0	0		G	178392951	G	G	178392951	3	3	11	1	0	0	0	0	1	0	0	0	17948	296	11	3	1560	3	ZNF454	5	178392951	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	33254	178392951	2522309	359	8751											
C5orf45	51149	broad.mit.edu	37	chr5	179271187	179271187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcctgctggtgtcccaCgttttcttcttcactggcac	4	13	8	16	1	3	0	1	0	2	0	4	0	4	0	3	2	2	3	3	2	0	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:179271187C>T	uc003mla.2	-	4	300	c.256G>A	c.(256-258)GTG>ATG	p.V86M	C5orf45_uc003mky.2_Missense_Mutation_p.V83M|C5orf45_uc011dgt.1_Missense_Mutation_p.V86M|C5orf45_uc011dgu.1_Intron|C5orf45_uc003mlc.2_Intron|C5orf45_uc003mlb.2_Translation_Start_Site	NM_016175	NP_057259	Q6NTE8	CE045_HUMAN	hypothetical protein LOC51149 isoform 1	86											0						TGGTGTCCCACGTTTTCTTCT	0.483													11	56					0	0	0.013537	0	0		T	179271187	T	T	179271187	3	4	11	1	0	0	0	0	1	0	0	0	2307	536	19	1	791	1	C5orf45	5	179271187	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	878236	179271187	1644073	360	8752											
TBC1D9B	23061	broad.mit.edu	37	chr5	179290918	179290918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggctgaagctccctggctgCgtcctgatgcagttcgggtg	4	10	16	11	2	0	2	0	2	0	0	3	2	2	2	2	3	3	5	2	3	1	1	rs113335971	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr5:179290918C>T	uc003mlh.2	-	22	3320	c.3283G>A	c.(3283-3285)GCA>ACA	p.A1095T	TBC1D9B_uc003mli.2_Missense_Mutation_p.A1078T|TBC1D9B_uc003mlj.2_Missense_Mutation_p.A1077T|TBC1D9B_uc003mlf.2_Missense_Mutation_p.A169T|TBC1D9B_uc003mlg.2_Missense_Mutation_p.A254T|TBC1D9B_uc011dgv.1_Missense_Mutation_p.A254T	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	1095						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCCCTGGCTGCGTCCTGATGC	0.647													7	37					0	0	0.001984	0	0		T	179290918	T	T	179290918	3	4	11	1	0	0	0	0	1	0	0	0	15653	768	27	1	473	1	TBC1D9B	5	179290918	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	19731	179290918	1624342	361	8753											
RREB1	6239	broad.mit.edu	37	chr6	7226757	7226757	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactgctgcgtcacaacgcGcttgtccacaaacaacttcc	10	8	8	15	3	1	0	1	0	0	0	3	1	3	1	2	1	5	2	2	1	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:7226757G>A	uc003mxc.2	+	9	1155	c.765G>A	c.(763-765)GCG>GCA	p.A255A	RREB1_uc003mxb.2_Silent_p.A255A|RREB1_uc010jnx.2_Silent_p.A255A	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	255	C2H2-type 5.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				GTCACAACGCGCTTGTCCACA	0.498													13	68					0	0	0.001855	0	0		A	7226757	A	A	7226757	2	1	11	1	0	0	0	0	0	0	0	1	13704	1074	38	1		1	RREB1	6	7226757	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08		7226757	163888310	362	8754											
GCM2	9247	broad.mit.edu	37	chr6	10876680	10876681	+	Frame_Shift_Ins	INS	-	A	A																															gttctcacctgacctacctgINSaaaaaagatcgcgttgccat																										TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:10876680_10876681insA	uc003mzn.3	-	3	525_526	c.453_454insT	c.(451-456)TTTCAGfs	p.F151fs	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	151_152	GCM.				cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				TGACCTACCTGAAAAAAGATCG	0.5													28	57	---	---	---	---						.	A	10876681	A	A	10876680	7	5	11	1	0	1	1	0	0	0	0	0	6313	1299	45	0	1078	0	GCM2	6	10876680	Frame_Shift_Ins	INS	-	TCGA-BR-4256-01A-01D-1126-08	3649923	10876680	160238387	363	8755											
RNF182	221687	broad.mit.edu	37	chr6	13977897	13977897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtttcagacatccatcCgggtgttagtgtggttgcta	6	15	12	8	1	1	1	1	0	0	1	3	1	3	1	2	2	2	5	2	2	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:13977897C>T	uc003nbe.2	+	3	965	c.547C>T	c.(547-549)CGG>TGG	p.R183W	RNF182_uc003nbf.2_Missense_Mutation_p.R183W|RNF182_uc003nbg.2_Missense_Mutation_p.R183W	NM_152737	NP_689950	Q8N6D2	RN182_HUMAN	ring finger protein 182	183						cytoplasm|integral to membrane|intracellular membrane-bounded organelle	protein binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Breast(50;0.00405)|Ovarian(93;0.0964)	all_hematologic(90;0.135)	Epithelial(50;0.195)			GACATCCATCCGGGTGTTAGT	0.488													24	164					0	0	0.00278	0	0		T	13977897	T	T	13977897	3	4	11	1	0	0	0	0	1	0	0	0	13491	643	23	1	549	1	RNF182	6	13977897	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3101217	13977897	157137170	364	8756											
ATXN1	6310	broad.mit.edu	37	chr6	16306697	16306697	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgccgaccacctcctctTcctcgttgccgcgggcttgc	2	10	11	18	5	1	0	0	0	1	0	4	1	3	0	6	2	2	2	6	2	0	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:16306697T>C	uc003nbt.2	-	9	3282	c.2311A>G	c.(2311-2313)AAG>GAG	p.K771E	ATXN1_uc010jpi.2_Missense_Mutation_p.K771E|ATXN1_uc010jpj.1_RNA	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	771	Interaction with USP7.				cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				CACCTCCTCTTCCTCGTTGCC	0.532													6	34					0	0	0.001984	0	0		C	16306697	C	C	16306697	3	2	11	1	0	0	0	0	1	0	0	0	1210	1792	62	3	140	3	ATXN1	6	16306697	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2328800	16306697	154808370	365	8757											
KIF13A	63971	broad.mit.edu	37	chr6	17826310	17826310	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cataggattcggtcaccatgCcacagctgggtggtactgca	9	9	12	11	1	1	0	1	0	0	0	2	1	1	1	2	4	4	3	2	4	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:17826310C>T	uc003ncg.3	-	15	1683	c.1578G>A	c.(1576-1578)TGG>TGA	p.W526*	KIF13A_uc003ncf.2_Nonsense_Mutation_p.W526*|KIF13A_uc003nch.3_Nonsense_Mutation_p.W526*|KIF13A_uc003nci.3_Nonsense_Mutation_p.W526*|KIF13A_uc003ncj.2_Nonsense_Mutation_p.W202*	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	526					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			GGTCACCATGCCACAGCTGGG	0.418													13	55					0	0	0.004007	0	0		T	17826310	T	T	17826310	4	4	11	1	0	0	0	0	0	1	0	0	8290	740	26	2	3964	2	KIF13A	6	17826310	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1519613	17826310	153288757	366	8758											
NHLRC1	378884	broad.mit.edu	37	chr6	18122083	18122083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcaacctttcagttctcCgaaggaccccttccgcgaag	8	10	8	15	3	2	0	1	0	1	0	4	3	3	1	5	1	2	2	5	1	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:18122083C>T	uc003ncl.1	-	1	769	c.755G>A	c.(754-756)CGG>CAG	p.R252Q		NM_198586	NP_940988	Q6VVB1	NHLC1_HUMAN	NHL repeat containing 1	252	NHL 4.				proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	endoplasmic reticulum|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0	Ovarian(93;0.016)|Breast(50;0.0245)	all_hematologic(90;0.165)	all cancers(50;0.0451)|Epithelial(50;0.0493)			TTCAGTTCTCCGAAGGACCCC	0.627													9	33					0	0	0.004482	0	0		T	18122083	T	T	18122083	3	4	11	1	0	0	0	0	1	0	0	0	10424	652	23	1	436	1	NHLRC1	6	18122083	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	295773	18122083	152992984	367	8759											
GPLD1	2822	broad.mit.edu	37	chr6	24460553	24460553	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acactcctctttcagtatagTttatattcctgtcaacactt	10	17	3	11	0	3	0	2	0	1	0	5	0	5	0	2	0	1	2	2	0	5	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:24460553T>C	uc003ned.1	-	12	1073	c.962A>G	c.(961-963)AAC>AGC	p.N321S	GPLD1_uc010jpr.1_Missense_Mutation_p.N158S|GPLD1_uc010jps.1_Missense_Mutation_p.N321S	NM_001503	NP_001494	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific	321						extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3						TTCAGTATAGTTTATATTCCT	0.363													59	102					0	0	0.01441	0	0		C	24460553	C	C	24460553	3	2	11	1	0	0	0	0	1	0	0	0	6629	1725	60	3	1616	3	GPLD1	6	24460553	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	6338470	24460553	146654514	368	8760											
SLC17A2	10246	broad.mit.edu	37	chr6	25914895	25914895	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcccatgaggaaacttgcAtatctgtgggaagatgattt	12	13	10	6	0	1	3	0	2	1	1	2	5	2	5	1	2	2	1	1	2	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:25914895A>T	uc011dkb.1	-	10	1298	c.1215T>A	c.(1213-1215)TAT>TAA	p.Y405*	SLC17A2_uc011dkc.1_Missense_Mutation_p.M356K|SLC17A2_uc003nfl.2_Missense_Mutation_p.M356K			O00624	NPT3_HUMAN	SubName: Full=Solute carrier family 17 (Sodium phosphate), member 2, isoform CRA_b; SubName: Full=Putative uncharacterized protein SLC17A2;	405					phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			ovary(1)	1						GGAAACTTGCATATCTGTGGG	0.428													11	36					0	0	0.013537	0	0		T	25914895	T	T	25914895	4	4	11	1	0	0	0	0	0	1	0	0	14442	217	8	5	251	5	SLC17A2	6	25914895	Nonsense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1454342	25914895	145200172	369	8761											
ZNF165	7718	broad.mit.edu	37	chr6	28053645	28053645	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactagaagatttggagagAggcactgatgaagcagtact	15	9	12	5	0	0	5	0	2	0	3	0	7	0	6	0	2	3	3	0	2	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:28053645A>C	uc003nkg.2	+	3	1471	c.387A>C	c.(385-387)AGA>AGC	p.R129S	ZNF165_uc003nkh.2_Missense_Mutation_p.R129S|ZNF165_uc003nki.3_Missense_Mutation_p.R129S	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	129					viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ATTTGGAGAGAGGCACTGATG	0.522													31	49					0	0	0.004289	0	0		C	28053645	C	C	28053645	3	2	11	1	0	0	0	0	1	0	0	0	17765	301	11	5	389	5	ZNF165	6	28053645	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	2138750	28053645	143061422	370	8762											
GABBR1	2550	broad.mit.edu	37	chr6	29589896	29589896	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccttcaggtttttgacGggcacagctggatctgagaa	9	11	12	9	1	2	3	1	3	1	1	2	5	2	4	1	3	1	3	1	3	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:29589896G>A	uc003nmt.3	-	9	1386	c.1050C>T	c.(1048-1050)CCC>CCT	p.P350P	GABBR1_uc003nmp.3_Silent_p.P233P|GABBR1_uc003nms.3_Silent_p.P233P|GABBR1_uc003nmu.3_Silent_p.P288P|GABBR1_uc011dlr.1_Silent_p.P173P|GABBR1_uc011dls.1_Silent_p.P350P	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	350	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity	p.P350L(1)		ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	GGTTTTTGACGGGCACAGCTG	0.557													11	49					0	0	0.010729	0	0		A	29589896	A	A	29589896	2	1	11	1	0	0	0	0	0	0	0	1	6169	1103	39	1		1	GABBR1	6	29589896	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1536251	29589896	141525171	371	8763											
VARS2	57176	broad.mit.edu	37	chr6	30888205	30888205	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaccccatggtactgccCatctgcaggtaacctcattt	10	10	6	15	0	2	0	1	0	1	0	2	0	2	0	5	2	5	3	5	2	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:30888205C>A	uc003nsc.1	+	13	2021	c.1389C>A	c.(1387-1389)CCC>CCA	p.P463P	VARS2_uc011dmx.1_Silent_p.P463P|VARS2_uc011dmy.1_Silent_p.P323P|VARS2_uc011dmz.1_Silent_p.P493P|VARS2_uc011dna.1_Silent_p.P461P|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_5'UTR|VARS2_uc010jsg.1_5'UTR|VARS2_uc010jsh.1_5'Flank	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	463					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						TGGTACTGCCCATCTGCAGGT	0.493													8	20					0.000442599	0.000476505	0.006214	1	0		A	30888205	A	A	30888205	2	1	11	1	0	0	0	0	0	0	0	1	17150	581	21	5		5	VARS2	6	30888205	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1298309	30888205	140226862	372	8764											
BAT2	7916	broad.mit.edu	37	chr6	31602535	31602535	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccactcctctcagatgagTcagtctgacagtggggtgga	8	10	12	11	0	3	3	2	2	2	1	6	4	5	4	2	3	0	0	2	3	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:31602535T>C	uc003nvb.3	+	21	5190	c.4941T>C	c.(4939-4941)AGT>AGC	p.S1647S	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Silent_p.S1647S	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1647	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						CTCAGATGAGTCAGTCTGACA	0.552													23	105					0	0	0.00333	0	0		C	31602535	C	C	31602535	2	2	11	1	0	0	0	0	0	0	0	1	1320	1664	58	3		3	BAT2	6	31602535	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	714330	31602535	139512532	373	8765											
CLIC1	1192	broad.mit.edu	37	chr6	31701700	31701700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catacagcaggaatgggagcTgcccccctgggcacagcttc	9	6	12	14	0	0	0	0	0	0	0	1	2	0	2	3	3	5	4	3	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:31701700T>C	uc003nwr.2	-	3	452	c.188A>G	c.(187-189)CAG>CGG	p.Q63R	CLIC1_uc003rje.2_Missense_Mutation_p.Q63R	NM_001288	NP_001279	O00299	CLIC1_HUMAN	chloride intracellular channel 1	63	Required for insertion into the membrane.			Q -> E (in Ref. 1; AAC25675 and 3; AAD26137).	signal transduction	brush border|chloride channel complex|cytoplasm|membrane fraction|nuclear membrane|plasma membrane|soluble fraction	protein binding|voltage-gated chloride channel activity			ovary(1)|central_nervous_system(1)	2						GAATGGGAGCTGCCCCCCTGG	0.562													25	82					0	0	0.008361	0	0		C	31701700	C	C	31701700	3	2	11	1	0	0	0	0	1	0	0	0	3528	1580	55	3	553	3	CLIC1	6	31701700	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	99165	31701700	139413367	374	8766											
HLA-DMA	3108	broad.mit.edu	37	chr6	32917066	32917066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accacctgagcaaggcttccGgaagtagatgatgagaacaa	15	6	11	9	1	0	4	0	3	0	2	1	6	1	5	3	2	2	3	3	2	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:32917066G>A	uc003ocm.2	-	4	849	c.763C>T	c.(763-765)CGG>TGG	p.R255W		NM_006120	NP_006111	Q31604	Q31604_HUMAN	major histocompatibility complex, class II, DM	255						integral to membrane|MHC class II protein complex					0						CAAGGCTTCCGGAAGTAGATG	0.567													19	42					0	0	0.00333	0	0		A	32917066	A	A	32917066	3	1	11	1	0	0	0	0	1	0	0	0	7214	1115	39	1	30	1	HLA-DMA	6	32917066	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1215366	32917066	138198001	375	8767											
HLA-DOA	3111	broad.mit.edu	37	chr6	32977255	32977255	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtggcccctgcctcctgcGggctcaggagggtcatcagg	4	8	16	13	1	3	0	3	0	0	0	4	1	4	1	4	6	2	1	4	6	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:32977255G>A	uc003ocr.2	-	1	135	c.59C>T	c.(58-60)CCG>CTG	p.P20L	HLA-DOA_uc010juj.2_5'UTR|HLA-DOA_uc010jui.2_Missense_Mutation_p.P20L	NM_002119	NP_002110	P06340	DOA_HUMAN	major histocompatibility complex, class II, DO	20					antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endosome membrane|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0						TGCCTCCTGCGGGCTCAGGAG	0.612													4	11					0	0	0.001168	0	0		A	32977255	A	A	32977255	3	1	11	1	0	0	0	0	1	0	0	0	7216	1116	39	1	713	1	HLA-DOA	6	32977255	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	60189	32977255	138137812	376	8768											
HLA-DPB1	3115	broad.mit.edu	37	chr6	33048483	33048483	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggacggcaggaatgctaCgcgtttaatgggacacagcg	11	6	15	9	4	0	0	0	0	0	0	0	3	0	3	0	4	3	3	0	4	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:33048483C>T	uc003ocu.1	+	2	194	c.135C>T	c.(133-135)TAC>TAT	p.Y45Y	HLA-DPA1_uc003oct.1_5'UTR|HLA-DPB1_uc011dqn.1_RNA|HLA-DPB1_uc011dqo.1_RNA|HLA-DPB1_uc011dqp.1_Silent_p.Y44Y|HLA-DPB1_uc011dqq.1_Translation_Start_Site	NM_002121	NP_002112	P04440	DPB1_HUMAN	major histocompatibility complex, class II, DP	45	Extracellular (Potential).|Beta-1.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to membrane|lysosomal membrane|MHC class II protein complex				ovary(1)	1						AGGAATGCTACGCGTTTAATG	0.597													12	45					0	0	0.013537	0	0		T	33048483	T	T	33048483	2	4	11	1	0	0	0	0	0	0	0	1	7219	547	19	1		1	HLA-DPB1	6	33048483	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	71228	33048483	138066584	377	8769											
FKBP5	2289	broad.mit.edu	37	chr6	35547992	35547992	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaccgcctgcatgtattTgcctccctaggataaaaaag	13	10	7	11	1	1	0	1	0	0	0	2	1	2	1	4	1	2	2	4	1	6	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:35547992T>C	uc011dte.1	-	9	1050	c.847A>G	c.(847-849)AAA>GAA	p.K283E	FKBP5_uc003okx.2_Missense_Mutation_p.K283E|FKBP5_uc011dtf.1_Missense_Mutation_p.K104E|FKBP5_uc003oky.2_Missense_Mutation_p.K283E	NM_001145776	NP_001139248	Q13451	FKBP5_HUMAN	FK506 binding protein 5 isoform 1	283	TPR 1.				protein folding	cytoplasm|membrane|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1						TGCATGTATTTGCCTCCCTAG	0.423													15	122					0	0	0.010504	0	0		C	35547992	C	C	35547992	3	2	11	1	0	0	0	0	1	0	0	0	5925	1821	63	3	538	3	FKBP5	6	35547992	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2499509	35547992	135567075	378	8770											
LHFPL5	222662	broad.mit.edu	37	chr6	35773711	35773711	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccctagacttctcctcCatcccctctagagccttcaa	7	10	5	19	0	3	2	1	0	2	2	6	2	5	2	7	1	1	0	7	1	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:35773711C>A	uc003olg.1	+	1	641	c.264C>A	c.(262-264)TCC>TCA	p.S88S		NM_182548	NP_872354	Q8TAF8	TMHS_HUMAN	lipoma HMGIC fusion partner-like 5	88						integral to membrane				skin(1)	1						ACTTCTCCTCCATCCCCTCTA	0.557													19	108					2.70639e-06	3.01043e-06	0.014323	1	0		A	35773711	A	A	35773711	2	1	11	1	0	0	0	0	0	0	0	1	8784	581	21	5		5	LHFPL5	6	35773711	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	225719	35773711	135341356	379	8771											
SLC26A8	116369	broad.mit.edu	37	chr6	35960350	35960350	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccaaagatgaaagtcagctgGgacagcatgatatgaagtgc	15	7	12	7	0	1	4	1	3	0	1	1	5	1	5	1	1	3	2	1	1	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:35960350G>A	uc003olm.2	-	6	840	c.729C>T	c.(727-729)TCC>TCT	p.S243S	SLC26A8_uc003oln.2_Silent_p.S243S|SLC26A8_uc003oll.2_Intron	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	243	Helical; (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						AAGTCAGCTGGGACAGCATGA	0.453													6	141					0	0	0.001984	0	0		A	35960350	A	A	35960350	2	1	11	1	0	0	0	0	0	0	0	1	14548	1219	43	4		4	SLC26A8	6	35960350	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	186639	35960350	135154717	380	8772											
BRPF3	27154	broad.mit.edu	37	chr6	36168494	36168494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catccagccagaagcaccccCgctgcctgctgcctactacc	8	6	7	20	1	0	1	0	0	0	1	1	1	1	1	7	0	7	3	7	0	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:36168494C>T	uc003olv.3	+	2	619	c.395C>T	c.(394-396)CCG>CTG	p.P132L	BRPF3_uc010jwb.2_Missense_Mutation_p.P132L|BRPF3_uc011dtj.1_RNA|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Missense_Mutation_p.P132L	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	132					histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						GAAGCACCCCCGCTGCCTGCT	0.567													6	40					0	0	0.010729	0	0		T	36168494	T	T	36168494	3	4	11	1	0	0	0	0	1	0	0	0	1524	652	23	1	397	1	BRPF3	6	36168494	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	208144	36168494	134946573	381	8773											
DNAH8	1769	broad.mit.edu	37	chr6	38781845	38781845	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagcctttatgggcgaaaGcagtcagaagatattatttc	12	12	10	7	1	1	2	1	0	0	2	2	3	1	2	1	1	3	2	1	1	5	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:38781845G>A	uc003ooe.1	+	23	3222	c.2622G>A	c.(2620-2622)AAG>AAA	p.K874K		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ATGGGCGAAAGCAGTCAGAAG	0.323													20	125					0	0	0.012319	0	0		A	38781845	A	A	38781845	2	1	11	1	0	0	0	0	0	0	0	1	4613	962	34	2		2	DNAH8	6	38781845	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2613351	38781845	132333222	382	8774											
TCTE1	202500	broad.mit.edu	37	chr6	44250020	44250020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcctggccaccctcatcctCgatgcagttgagacgtaggt	8	9	11	13	2	1	1	1	1	0	1	3	3	2	1	4	2	2	3	4	2	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:44250020C>T	uc003oxi.2	-	4	1279	c.1123G>A	c.(1123-1125)GAG>AAG	p.E375K	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_182539	NP_872345	Q5JU00	TCTE1_HUMAN	t-complex-associated testis expressed 1	375	LRR 3.									ovary(2)|skin(2)	4	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CCCTCATCCTCGATGCAGTTG	0.612													14	71					0	0	0.004007	0	0		T	44250020	T	T	44250020	3	4	11	1	0	0	0	0	1	0	0	0	15742	893	31	1	390	1	TCTE1	6	44250020	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5468175	44250020	126865047	383	8775											
RUNX2	860	broad.mit.edu	37	chr6	45405710	45405710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcaccttgaccataaccGtcttcacaaatcctccccaa	11	11	3	16	1	3	1	2	1	1	0	5	1	5	1	6	0	1	1	6	0	3	4	rs147009083		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:45405710G>A	uc011dvx.1	+	5	817	c.607G>A	c.(607-609)GTC>ATC	p.V203I	RUNX2_uc011dvy.1_Missense_Mutation_p.V203I|RUNX2_uc003oxt.2_Missense_Mutation_p.V189I	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	203	Runt.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						GACCATAACCGTCTTCACAAA	0.393													26	219					0	0	0.005443	0	0		A	45405710	A	A	45405710	3	1	11	1	0	0	0	0	1	0	0	0	13773	1145	40	1	637	1	RUNX2	6	45405710	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1155690	45405710	125709357	384	8776											
HCRTR2	3062	broad.mit.edu	37	chr6	55142277	55142277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacgaagtcccggatgagcGctgtggcggctgaaataaag	12	6	14	9	4	0	2	0	2	0	0	1	4	1	3	1	3	2	2	1	3	5	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:55142277G>A	uc003pcl.2	+	5	1177	c.862G>A	c.(862-864)GCT>ACT	p.A288T	HCRTR2_uc010jzv.2_RNA	NM_001526	NP_001517	O43614	OX2R_HUMAN	orexin receptor 2	288	Cytoplasmic (Potential).				feeding behavior	integral to plasma membrane	neuropeptide receptor activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|breast(1)	6	Lung NSC(77;0.107)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			CCGGATGAGCGCTGTGGCGGC	0.502													5	22					0	0	0.000602	0	0		A	55142277	A	A	55142277	3	1	11	1	0	0	0	0	1	0	0	0	7018	1087	38	1	880	1	HCRTR2	6	55142277	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	9736567	55142277	115972790	385	8777											
DST	667	broad.mit.edu	37	chr6	56496731	56496731	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcaaatcatctctttccaGgggagttcgaatctgtctaa	11	13	8	9	1	4	0	1	0	3	0	7	2	5	1	1	2	1	2	1	2	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:56496731G>T	uc003pdf.2	-	28	3842	c.3814C>A	c.(3814-3816)CTG>ATG	p.L1272M	DST_uc003pcz.3_Missense_Mutation_p.L1094M|DST_uc011dxj.1_Missense_Mutation_p.L1123M|DST_uc011dxk.1_Missense_Mutation_p.L1134M|DST_uc003pcy.3_Missense_Mutation_p.L768M|DST_uc003pdb.2_Missense_Mutation_p.L768M|DST_uc003pdc.3_Missense_Mutation_p.L768M|DST_uc003pdd.3_Missense_Mutation_p.L768M	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	1094					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TCTCTTTCCAGGGGAGTTCGA	0.383													15	65					6.72482e-11	7.7713e-11	0.003163	1	0		T	56496731	T	T	56496731	3	4	11	1	0	0	0	0	1	0	0	0	4789	991	35	5	18133	5	DST	6	56496731	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1354454	56496731	114618336	386	8778											
COL9A1	1297	broad.mit.edu	37	chr6	70990716	70990716	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaacttaccggggggccCggggggcccttaggacctcg	7	6	15	13	3	1	0	1	0	0	0	2	1	1	1	4	7	2	0	4	7	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:70990716C>T	uc003pfg.3	-	9	1062	c.903G>A	c.(901-903)CCG>CCA	p.P301P	COL9A1_uc003pfe.3_5'Flank|COL9A1_uc003pff.3_Silent_p.P58P	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	301	Triple-helical region (COL3).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						CCGGGGGGCCCGGGGGGCCCT	0.572													4	27					0	0	0.009096	0	0		T	70990716	T	T	70990716	2	4	11	1	0	0	0	0	0	0	0	1	3710	639	23	1		1	COL9A1	6	70990716	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	14493985	70990716	100124351	387	8779											
COL12A1	1303	broad.mit.edu	37	chr6	75861629	75861629	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgagtttctttgaaggTgcttcaacatcgtcttgtga	7	17	9	8	1	3	3	1	3	2	0	5	3	4	3	1	1	2	2	1	1	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:75861629T>C	uc003phs.2	-	20	4120	c.3954A>G	c.(3952-3954)GCA>GCG	p.A1318A	COL12A1_uc003pht.2_Silent_p.A154A	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1318	VWFA 3.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TCTTTGAAGGTGCTTCAACAT	0.473													18	150					0	0	0.003954	0	0		C	75861629	C	C	75861629	2	2	11	1	0	0	0	0	0	0	0	1	3672	1683	59	3		3	COL12A1	6	75861629	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	4870913	75861629	95253438	388	8780											
COL12A1	1303	broad.mit.edu	37	chr6	75899338	75899338	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttcatccctttggtagtaCtgatttaagttaaattcagt	11	17	7	6	0	2	1	2	1	0	0	3	1	3	1	1	1	1	4	1	1	5	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:75899338C>T	uc003phs.2	-	6	754	c.588G>A	c.(586-588)CAG>CAA	p.Q196Q	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_5'Flank	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	196	VWFA 1.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTTGGTAGTACTGATTTAAGT	0.358													13	112					0	0	0.001855	0	0		T	75899338	T	T	75899338	2	4	11	1	0	0	0	0	0	0	0	1	3672	564	20	4		4	COL12A1	6	75899338	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	37709	75899338	95215729	389	8781											
TTK	7272	broad.mit.edu	37	chr6	80718203	80718203	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgcacaatttgaactgTcacaaggtaatctgaaaatg	14	13	7	7	0	2	2	1	2	1	0	2	2	2	2	0	1	2	2	0	1	6	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:80718203T>A	uc003pjc.2	+	4	537	c.463T>A	c.(463-465)TCA>ACA	p.S155T	TTK_uc003pjb.3_Missense_Mutation_p.S155T	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	155					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		ATTTGAACTGTCACAAGGTAA	0.299													6	36					0	0	0.001984	0	0		A	80718203	A	A	80718203	3	1	11	1	0	0	0	0	1	0	0	0	16746	1667	58	5	473	5	TTK	6	80718203	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	4818865	80718203	90396864	390	8782											
UBE2CBP	90025	broad.mit.edu	37	chr6	83667139	83667139	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagggttagcgggtggacGctgatgtcactttcccacaa	8	9	14	10	2	1	1	1	1	0	0	2	2	2	2	1	4	1	3	1	4	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:83667139G>A	uc003pjp.2	-	9	1149	c.1041C>T	c.(1039-1041)AGC>AGT	p.S347S	UBE2CBP_uc011dyx.1_RNA	NM_198920	NP_944602	Q7Z6J8	UB2CB_HUMAN	ubiquitin-conjugating enzyme E2C binding	347						cytoplasm	ligase activity			ovary(1)	1		all_cancers(76;0.000374)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0548)		BRCA - Breast invasive adenocarcinoma(397;0.0944)		GCGGGTGGACGCTGATGTCAC	0.423													6	59					0	0	0.001168	0	0		A	83667139	A	A	83667139	2	1	11	1	0	0	0	0	0	0	0	1	16873	1078	38	1		1	UBE2CBP	6	83667139	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2948936	83667139	87447928	391	8783											
PGM3	5238	broad.mit.edu	37	chr6	83884176	83884176	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttctgctgattgttttaTcttcatttcaacagctgtac	7	20	6	8	0	4	1	2	1	2	0	4	1	4	1	0	0	4	5	0	0	3	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:83884176T>C	uc003pjv.2	-	10	1199	c.1159A>G	c.(1159-1161)ATA>GTA	p.I387V	PGM3_uc003pjw.2_Missense_Mutation_p.I306V|PGM3_uc011dyz.1_Missense_Mutation_p.I415V	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	387					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		GATTGTTTTATCTTCATTTCA	0.348													7	47					0	0	0.001984	0	0		C	83884176	C	C	83884176	3	2	11	1	0	0	0	0	1	0	0	0	11819	1435	50	3	485	3	PGM3	6	83884176	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	217037	83884176	87230891	392	8784											
ZNF292	23036	broad.mit.edu	37	chr6	87964590	87964590	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtataatcagccagacCagaaatatgatgaagagaat	17	10	9	5	0	1	5	1	2	0	3	1	6	1	5	2	0	1	2	2	0	6	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:87964590C>G	uc003plm.3	+	8	1284	c.1243C>G	c.(1243-1245)CAG>GAG	p.Q415E		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	415					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		TCAGCCAGACCAGAAATATGA	0.383													8	59					0	0	0.00308	0	0		G	87964590	G	G	87964590	3	3	11	1	0	0	0	0	1	0	0	0	17851	595	21	5	1273	5	ZNF292	6	87964590	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4080414	87964590	83150477	393	8785											
GABRR2	2570	broad.mit.edu	37	chr6	90024926	90024927	+	Missense_Mutation	DNP	CT	GG	GG																															aaaagctgctttccagtagcCtgtggcagagcaaatccccc																										TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:90024926_90024927CT>GG	uc003pnb.2	-	1	41_42	c.33_34AG>CC	c.(31-36)ACAGGC>ACCCGC	p.G12R		NM_002043	NP_002034	P28476	GBRR2_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 2	12					synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0		all_cancers(76;1.67e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.77e-07)|all_epithelial(107;2.51e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0158)		TTCCAGTAGCCTGTGGCAGAGC	0.515													20	174					0	0	0.004672	0	0		GG	90024927	GG	GG	90024926	3	3	11	1	0	0	0	0	1	0	0	0	6191	681	24	5	1474	5	GABRR2	6	90024926	Missense_Mutation	DNP	CT	TCGA-BR-4256-01A-01D-1126-08	2060336	90024926	81090141	394	8786											
MDN1	23195	broad.mit.edu	37	chr6	90494779	90494779	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaggtgaattttggtccaAtatttgtctagcaaagtagc	11	14	9	7	0	1	1	0	1	1	0	3	1	3	1	2	2	2	2	2	2	6	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:90494779A>T	uc003pnn.1	-	9	1517	c.1401T>A	c.(1399-1401)TAT>TAA	p.Y467*	MDN1_uc003pno.1_Translation_Start_Site|MDN1_uc003pnp.1_Nonsense_Mutation_p.Y467*	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	467					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TTTTGGTCCAATATTTGTCTA	0.443													33	194					0	0	0.00623	0	0		T	90494779	T	T	90494779	4	4	11	1	0	0	0	0	0	1	0	0	9433	108	4	5	15765	5	MDN1	6	90494779	Nonsense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	469853	90494779	80620288	395	8787											
USP45	85015	broad.mit.edu	37	chr6	99958034	99958034	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcttcatcatgaggtacAgtaggccttttacttctttt	8	17	8	8	0	4	1	2	1	2	0	4	2	4	1	1	2	2	2	1	2	3	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:99958034A>G	uc003ppx.2	-	2	596	c.63T>C	c.(61-63)ACT>ACC	p.T21T	USP45_uc003ppw.2_5'Flank|USP45_uc003ppy.2_RNA|USP45_uc010kcq.1_Silent_p.T21T|USP45_uc003ppz.2_Silent_p.T21T|USP45_uc003pqa.2_Silent_p.T21T	NM_001080481	NP_001073950	Q70EL2	UBP45_HUMAN	ubiquitin specific peptidase 45	21					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|breast(1)	2		all_cancers(76;0.000208)|Acute lymphoblastic leukemia(125;8.41e-11)|all_hematologic(75;2.56e-07)|all_epithelial(107;0.122)|Colorectal(196;0.133)		BRCA - Breast invasive adenocarcinoma(108;0.0718)		CATGAGGTACAGTAGGCCTTT	0.343													19	135					0	0	0.00333	0	0		G	99958034	G	G	99958034	2	3	11	1	0	0	0	0	0	0	0	1	17102	175	7	3		3	USP45	6	99958034	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	9463255	99958034	71157033	396	8788											
SIM1	6492	broad.mit.edu	37	chr6	100838636	100838636	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacatttttccctctctctgCtggatatggtcacatggtga	8	15	8	10	0	3	1	1	1	2	0	5	2	4	2	1	3	2	1	1	3	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:100838636C>T	uc003pqj.3	-	11	2109	c.1902G>A	c.(1900-1902)CAG>CAA	p.Q634Q	SIM1_uc010kcu.2_Silent_p.Q634Q	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	634	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		CCTCTCTCTGCTGGATATGGT	0.488													32	126					0	0	0.013726	0	0		T	100838636	T	T	100838636	2	4	11	1	0	0	0	0	0	0	0	1	14348	796	28	2		2	SIM1	6	100838636	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	880602	100838636	70276431	397	8789											
ASCC3	10973	broad.mit.edu	37	chr6	101075830	101075830	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agataaaatttgttcgagatAcaatgacctctagaacaggg	16	10	9	6	1	1	4	0	1	1	3	2	5	1	4	1	1	2	1	1	1	6	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:101075830A>G	uc003pqk.2	-	28	4738	c.4409T>C	c.(4408-4410)GTA>GCA	p.V1470A		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1470	Helicase ATP-binding 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		TGTTCGAGATACAATGACCTC	0.408													10	51					0	0	0.008291	0	0		G	101075830	G	G	101075830	3	3	11	1	0	0	0	0	1	0	0	0	1034	391	14	3	2259	3	ASCC3	6	101075830	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	237194	101075830	70039237	398	8790											
SCML4	256380	broad.mit.edu	37	chr6	108066255	108066255	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcgcacaggaggcttcGgcacagcttggcgaggaagc	9	6	15	11	3	1	0	1	0	0	0	3	3	1	2	0	5	2	4	0	5	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:108066255G>T	uc010kdf.2	-	5	831	c.580C>A	c.(580-582)CGA>AGA	p.R194R	SCML4_uc003prz.3_Silent_p.R136R|SCML4_uc011eam.1_Silent_p.R194R|SCML4_uc003psa.3_Silent_p.R165R	NM_198081	NP_932347	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4	194					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		all_cancers(87;3.26e-06)|Acute lymphoblastic leukemia(125;3.08e-08)|all_hematologic(75;1.15e-06)|all_epithelial(87;0.00142)|Colorectal(196;0.0316)		BRCA - Breast invasive adenocarcinoma(108;0.01)|Epithelial(106;0.0509)|all cancers(137;0.0586)|OV - Ovarian serous cystadenocarcinoma(136;0.0758)		AGGAGGCTTCGGCACAGCTTG	0.587													6	16					8.12818e-05	8.81621e-05	0.001984	1	0		T	108066255	T	T	108066255	2	4	11	1	0	0	0	0	0	0	0	1	13936	1124	39	5		5	SCML4	6	108066255	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	6990425	108066255	63048812	399	8791											
REV3L	5980	broad.mit.edu	37	chr6	111710360	111710360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatttctgtttcttcgccGttgcttttcatcttcccata	4	21	4	12	2	5	0	2	0	3	0	7	0	6	0	2	0	1	3	2	0	1	9			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:111710360G>A	uc003puy.3	-	7	1134	c.811C>T	c.(811-813)CGG>TGG	p.R271W	REV3L_uc003pux.3_Missense_Mutation_p.R193W|REV3L_uc003puz.3_Missense_Mutation_p.R193W	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	271					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TTTCTTCGCCGTTGCTTTTCA	0.358								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					13	128					0	0	0.00245	0	0		A	111710360	A	A	111710360	3	1	11	1	0	0	0	0	1	0	0	0	13265	1144	40	1	8685	1	REV3L	6	111710360	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3644105	111710360	59404707	400	8792											
DSE	29940	broad.mit.edu	37	chr6	116747852	116747852	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacacaacaggagaagtttCttgaagtgattgccaatgcc	14	9	10	8	0	1	4	0	2	1	2	1	5	1	4	2	1	3	1	2	1	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:116747852C>A	uc003pws.2	+	3	726	c.532C>A	c.(532-534)CTT>ATT	p.L178I	DSE_uc011ebf.1_Missense_Mutation_p.L178I|DSE_uc011ebg.1_Missense_Mutation_p.L197I|DSE_uc003pwt.2_Missense_Mutation_p.L178I	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	178					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		GGAGAAGTTTCTTGAAGTGAT	0.463													9	79					0.000151284	0.000163683	0.001855	1	0		A	116747852	A	A	116747852	3	1	11	1	0	0	0	0	1	0	0	0	4780	913	32	5	538	5	DSE	6	116747852	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5037492	116747852	54367215	401	8793											
STX7	8417	broad.mit.edu	37	chr6	132781989	132781989	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggtttttctggatttgcGctgcagacgcaaaaaacaaa	13	10	10	8	2	1	1	0	0	1	1	1	2	1	2	0	2	3	4	0	2	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:132781989G>A	uc003qdg.2	-	10	944	c.694C>T	c.(694-696)CGC>TGC	p.R232C	STX7_uc011ecg.1_RNA|STX7_uc011ech.1_Missense_Mutation_p.R57C	NM_003569	NP_003560	O15400	STX7_HUMAN	syntaxin 7	232	Cytoplasmic (Potential).				intracellular protein transport|post-Golgi vesicle-mediated transport	early endosome membrane|integral to membrane	SNAP receptor activity				0	Breast(56;0.0615)			OV - Ovarian serous cystadenocarcinoma(155;0.00532)|GBM - Glioblastoma multiforme(226;0.0114)		CTGGATTTGCGCTGCAGACGC	0.353													12	67					0	0	0.013537	0	0		A	132781989	A	A	132781989	3	1	11	1	0	0	0	0	1	0	0	0	15375	1101	38	1	95	1	STX7	6	132781989	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	16034137	132781989	38333078	402	8794											
TNFAIP3	7128	broad.mit.edu	37	chr6	138196150	138196150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctcaggaatttgttgaaaCggggctttgctatgatactc	10	14	10	7	1	1	2	1	2	1	0	3	3	1	3	0	3	3	3	0	3	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:138196150C>T	uc003qhr.2	+	3	530	c.464C>T	c.(463-465)ACG>ATG	p.T155M	TNFAIP3_uc003qhs.2_Missense_Mutation_p.T155M	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	155	TRAF-binding.|OTU.				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)|p.T155T(1)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		TTTGTTGAAACGGGGCTTTGC	0.512			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								14	114					0	0	0.004007	0	0		T	138196150	T	T	138196150	3	4	11	1	0	0	0	0	1	0	0	0	16299	536	19	1	470	1	TNFAIP3	6	138196150	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5414161	138196150	32918917	403	8795											
SHPRH	257218	broad.mit.edu	37	chr6	146243472	146243472	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaacaattcatcagctttAcaaaagacacagctgaaaaa	19	8	6	8	0	2	3	2	2	0	1	2	3	2	3	0	0	4	2	0	0	7	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:146243472A>G	uc003qlf.2	-	20	4131	c.3732T>C	c.(3730-3732)TGT>TGC	p.C1244C	SHPRH_uc003qld.2_Silent_p.C1248C|SHPRH_uc003qle.2_Silent_p.C1248C|SHPRH_uc003qlg.1_Silent_p.C800C|SHPRH_uc003qlh.2_Silent_p.C169C|SHPRH_uc003qli.1_Silent_p.C169C	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	1244					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		CATCAGCTTTACAAAAGACAC	0.299													6	45					0	0	0.001168	0	0		G	146243472	G	G	146243472	2	3	11	1	0	0	0	0	0	0	0	1	14316	389	14	3		3	SHPRH	6	146243472	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	8047322	146243472	24871595	404	8796											
RAB32	10981	broad.mit.edu	37	chr6	146865142	146865142	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagcatcatcaagcgctaCgtccaccagctcttctccca	10	8	5	18	2	4	0	2	0	2	0	6	0	5	0	4	0	4	3	4	0	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:146865142C>T	uc003qln.1	+	1	315	c.135C>T	c.(133-135)TAC>TAT	p.Y45Y		NM_006834	NP_006825	Q13637	RAB32_HUMAN	RAB32, member RAS oncogene family	45					protein transport|small GTPase mediated signal transduction	mitochondrion	GTP binding				0		Ovarian(120;0.142)		OV - Ovarian serous cystadenocarcinoma(155;2.68e-09)|GBM - Glioblastoma multiforme(68;0.00608)		TCAAGCGCTACGTCCACCAGC	0.557													10	27					0	0	0.001855	0	0		T	146865142	T	T	146865142	2	4	11	1	0	0	0	0	0	0	0	1	12946	547	19	1		1	RAB32	6	146865142	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	621670	146865142	24249925	405	8797											
ZC3H12D	340152	broad.mit.edu	37	chr6	149777945	149777945	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcacgatgtagcggtcGtcgtagcagaccaggcgctt	8	9	12	12	5	1	1	1	0	0	1	3	2	1	1	2	2	2	4	2	2	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:149777945G>A	uc003qmn.1	-	3	607	c.537C>T	c.(535-537)GAC>GAT	p.D179D	PPIL4_uc010kic.2_Intron|ZC3H12D_uc003qmm.2_Silent_p.D179D|ZC3H12D_uc010kid.2_Silent_p.D179D	NM_207360	NP_997243	A2A288	ZC12D_HUMAN	zinc finger CCCH-type containing 12D	179						cytoplasm|nucleus	endonuclease activity|nucleic acid binding|zinc ion binding				0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.23e-11)|GBM - Glioblastoma multiforme(68;0.0921)		TGTAGCGGTCGTCGTAGCAGA	0.657													8	35					0	0	0.004482	0	0		A	149777945	A	A	149777945	2	1	11	1	0	0	0	0	0	0	0	1	17589	1136	40	1		1	ZC3H12D	6	149777945	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2912803	149777945	21337122	406	8798											
SYNE1	23345	broad.mit.edu	37	chr6	152718029	152718029	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatgctactgacaatttgTttagacaaatgtgcatacaa	15	13	7	6	0	0	3	0	2	0	1	0	3	0	3	0	0	4	3	0	0	7	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:152718029T>G	uc010kiw.2	-	50	8039	c.7437A>C	c.(7435-7437)AAA>AAC	p.K2479N	SYNE1_uc003qot.3_Missense_Mutation_p.K2486N|SYNE1_uc003qou.3_Missense_Mutation_p.K2479N|SYNE1_uc010kjb.1_Missense_Mutation_p.K2462N	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2479	Spectrin 4.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TGACAATTTGTTTAGACAAAT	0.383										HNSCC(10;0.0054)			19	91					0	0	0.008871	0	0		G	152718029	G	G	152718029	3	3	11	1	0	0	0	0	1	0	0	0	15470	1722	60	5	19417	5	SYNE1	6	152718029	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2940084	152718029	18397038	407	8799											
TIAM2	26230	broad.mit.edu	37	chr6	155578187	155578187	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctagagcgagaattcagtGtccagagtttaacatctgtt	11	14	9	7	1	3	3	1	0	2	3	4	4	4	3	1	0	2	2	1	0	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:155578187G>A	uc003qqb.2	+	29	6311	c.5038G>A	c.(5038-5040)GTC>ATC	p.V1680I	TIAM2_uc003qqe.2_Missense_Mutation_p.V1680I|TIAM2_uc010kjj.2_Missense_Mutation_p.V1242I|TIAM2_uc003qqf.2_Missense_Mutation_p.V1056I|TIAM2_uc011efl.1_Missense_Mutation_p.V1024I|TIAM2_uc003qqg.2_Missense_Mutation_p.V992I|TIAM2_uc003qqh.2_Missense_Mutation_p.V605I|uc003qqi.1_5'Flank	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1680					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		AGAATTCAGTGTCCAGAGTTT	0.428													7	43					0	0	0.001984	0	0		A	155578187	A	A	155578187	3	1	11	1	0	0	0	0	1	0	0	0	15916	1377	48	4	5132	4	TIAM2	6	155578187	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2860158	155578187	15536880	408	8800											
ARID1B	57492	broad.mit.edu	37	chr6	157405929	157405929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgcctttctccccacatgCgtcccctcatctctccagca	5	11	5	20	2	3	0	1	0	2	0	8	0	5	0	6	0	2	1	6	0	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:157405929C>T	uc003qqn.2	+	5	2110	c.1958C>T	c.(1957-1959)GCG>GTG	p.A653V	ARID1B_uc003qqo.2_Missense_Mutation_p.A666V|ARID1B_uc003qqp.2_Missense_Mutation_p.A653V|ARID1B_uc003qqq.1_Missense_Mutation_p.A95V	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	711	Ser-rich.				chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TCCCCACATGCGTCCCCTCAT	0.612													9	54					0	0	0.008291	0	0		T	157405929	T	T	157405929	3	4	11	1	0	0	0	0	1	0	0	0	914	768	27	1	2193	1	ARID1B	6	157405929	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1827742	157405929	13709138	409	8801											
TULP4	56995	broad.mit.edu	37	chr6	158923930	158923930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccacccgacagcgcccgcGaccgcaccgactacgtcaac	9	2	9	21	7	1	0	1	0	0	0	1	3	1	0	5	0	3	1	5	0	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:158923930G>A	uc003qrf.2	+	13	4592	c.3235G>A	c.(3235-3237)GAC>AAC	p.D1079N	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	1079					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CAGCGCCCGCGACCGCACCGA	0.687													7	28					0	0	0.001984	0	0		A	158923930	A	A	158923930	3	1	11	1	0	0	0	0	1	0	0	0	16802	1058	37	1	3285	1	TULP4	6	158923930	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1518001	158923930	12191137	410	8802											
PARK2	5071	broad.mit.edu	37	chr6	161990440	161990440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctctttaatcaaggagttggGacagccagctgttggaaaga	12	10	12	7	0	2	1	1	0	1	1	2	4	2	4	1	3	2	3	1	3	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:161990440G>A	uc003qtx.3	-	8	1014	c.880C>T	c.(880-882)CCC>TCC	p.P294S	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Missense_Mutation_p.P103S|PARK2_uc003qtw.3_Missense_Mutation_p.P103S|PARK2_uc003qty.3_Missense_Mutation_p.P266S|PARK2_uc003qtz.3_Missense_Mutation_p.P145S|PARK2_uc010kke.1_Missense_Mutation_p.P313S|PARK2_uc011egf.1_5'UTR	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	294					aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		AAGGAGTTGGGACAGCCAGCT	0.428													9	58					0	0	0.004482	0	0		A	161990440	A	A	161990440	3	1	11	1	0	0	0	0	1	0	0	0	11468	1174	41	4	537	4	PARK2	6	161990440	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3066510	161990440	9124627	411	8803											
RPS6KA2	6196	broad.mit.edu	37	chr6	166864694	166864694	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctaaacaggtgatgagcgTttgcactcggggggacgcca	9	8	14	10	3	1	2	0	2	1	0	2	3	1	3	1	4	3	2	1	4	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:166864694T>C	uc003qvb.1	-	13	1322	c.1103A>G	c.(1102-1104)AAC>AGC	p.N368S	RPS6KA2_uc011ego.1_Missense_Mutation_p.N279S|RPS6KA2_uc010kkl.1_Missense_Mutation_p.N279S|RPS6KA2_uc003qvc.1_Missense_Mutation_p.N376S|RPS6KA2_uc003qvd.1_Missense_Mutation_p.N393S	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	368	AGC-kinase C-terminal.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		GTGATGAGCGTTTGCACTCGG	0.532													11	85					0	0	0.013537	0	0		C	166864694	C	C	166864694	3	2	11	1	0	0	0	0	1	0	0	0	13676	1725	60	3	1134	3	RPS6KA2	6	166864694	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	4874254	166864694	4250373	412	8804											
KIF25	3834	broad.mit.edu	37	chr6	168430309	168430309	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagcgtgagaagcaggccaGgcctgggtctggagccgtcc	7	6	16	12	2	2	1	1	1	1	1	3	3	3	2	4	4	3	1	4	4	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr6:168430309G>T	uc003qwk.1	+	2	306	c.44G>T	c.(43-45)AGG>ATG	p.R15M	KIF25_uc010kkt.1_RNA|KIF25_uc003qwl.1_Missense_Mutation_p.R15M	NM_030615	NP_085118	Q9UIL4	KIF25_HUMAN	kinesin family member 25 isoform 1	15	Kinesin-motor.				microtubule-based movement|mitotic sister chromatid segregation	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(1)|pancreas(1)	2		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		AAGCAGGCCAGGCCTGGGTCT	0.587													6	50					9.70103e-10	1.11027e-09	0.008291	1	0		T	168430309	T	T	168430309	3	4	11	1	0	0	0	0	1	0	0	0	8309	1000	35	5	46	5	KIF25	6	168430309	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1565615	168430309	2684758	413	8805											
INTS1	26173	broad.mit.edu	37	chr7	1527082	1527082	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggggaggcctccgggggggCcccctgagggccacagggga	5	2	22	12	1	0	1	0	1	0	0	1	3	1	3	5	9	0	0	5	9	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:1527082C>G	uc003skn.2	-	20	2621	c.2520G>C	c.(2518-2520)GGG>GGC	p.G840G	INTS1_uc003skp.1_Silent_p.G187G	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	840					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		TCCGGGGGGGCCCCCTGAGGG	0.677													3	10					0	0	0.004672	0	0		G	1527082	G	G	1527082	2	3	11	1	0	0	0	0	0	0	0	1	7791	726	26	5		5	INTS1	7	1527082	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08		1527082	157611581	414	8806											
EIF3B	8662	broad.mit.edu	37	chr7	2418770	2418770	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaacctcatgcataggAattggtggagagaaggcgca	12	7	12	10	1	1	1	1	0	0	1	2	4	2	3	3	4	2	2	3	4	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:2418770A>G	uc003slx.2	+	17	2317	c.2234A>G	c.(2233-2235)GAA>GGA	p.E745G	EIF3B_uc003sly.2_Missense_Mutation_p.E745G|EIF3B_uc003sma.2_Missense_Mutation_p.E473G|EIF3B_uc003smb.2_RNA	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,	745					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		CATGCATAGGAATTGGTGGAG	0.547													6	36					0	0	0.00308	0	0		G	2418770	G	G	2418770	3	3	11	1	0	0	0	0	1	0	0	0	5019	260	9	3	2300	3	EIF3B	7	2418770	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	891688	2418770	156719893	415	8807											
SDK1	221935	broad.mit.edu	37	chr7	4218194	4218194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcccagccagcgcgcccGtggaggtctttgtcggcgag	6	6	16	13	5	1	1	0	0	1	1	2	3	1	2	3	3	3	0	3	3	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:4218194G>A	uc003smx.2	+	35	5213	c.5074G>A	c.(5074-5076)GTG>ATG	p.V1692M	SDK1_uc010kso.2_Missense_Mutation_p.V948M|SDK1_uc003smy.2_Missense_Mutation_p.V179M	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1692	Fibronectin type-III 10.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CAGCGCGCCCGTGGAGGTCTT	0.592													5	41					0	0	0.00308	0	0		A	4218194	A	A	4218194	3	1	11	1	0	0	0	0	1	0	0	0	13993	1145	40	1	5212	1	SDK1	7	4218194	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1799424	4218194	154920469	416	8808											
GLCCI1	113263	broad.mit.edu	37	chr7	8062115	8062115	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatatattttttaaagacAcctagctgttgggcagaaga	14	14	8	5	0	0	3	0	0	0	3	0	3	0	3	1	1	1	3	1	1	8	9			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:8062115A>G	uc003srk.2	+	3	1171	c.612A>G	c.(610-612)ACA>ACG	p.T204T		NM_138426	NP_612435	Q86VQ1	GLCI1_HUMAN	glucocorticoid induced transcript 1	204											0		Ovarian(82;0.0608)		UCEC - Uterine corpus endometrioid carcinoma (126;0.206)		ttttaaaGACACCTAGCTGTT	0.343													6	28					0	0	0.001984	0	0		G	8062115	G	G	8062115	2	3	11	1	0	0	0	0	0	0	0	1	6446	146	6	3		3	GLCCI1	7	8062115	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	3843921	8062115	151076548	417	8809											
ICA1	3382	broad.mit.edu	37	chr7	8198199	8198199	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacaagagattgcatctgctCgctccaagaagatccacttt	12	10	8	11	1	1	3	0	0	1	3	4	5	3	3	2	0	2	3	2	0	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:8198199C>T	uc003srm.2	-	7	730	c.663G>A	c.(661-663)GCG>GCA	p.A221A	ICA1_uc010ktr.2_Silent_p.A221A|ICA1_uc003srl.2_Silent_p.A209A|ICA1_uc003srn.3_Silent_p.A147A|ICA1_uc003srp.3_Silent_p.A220A|ICA1_uc010kts.2_RNA|ICA1_uc003srq.2_Silent_p.A221A|ICA1_uc003srr.2_Silent_p.A220A|ICA1_uc003sro.3_Silent_p.A221A|ICA1_uc011jxg.1_Silent_p.A221A|ICA1_uc003srs.1_Silent_p.A221A	NM_022307	NP_071682	Q05084	ICA69_HUMAN	islet cell autoantigen 1	221	AH.				neurotransmitter transport	cell junction|cytosol|Golgi membrane|nucleus|secretory granule membrane|synaptic vesicle membrane|transport vesicle membrane				central_nervous_system(1)	1		Ovarian(82;0.0612)		UCEC - Uterine corpus endometrioid carcinoma (126;0.246)		TGCATCTGCTCGCTCCAAGAA	0.373													8	84					0	0	0.004482	0	0		T	8198199	T	T	8198199	2	4	11	1	0	0	0	0	0	0	0	1	7493	871	31	1		1	ICA1	7	8198199	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	136084	8198199	150940464	418	8810											
PHF14	9678	broad.mit.edu	37	chr7	11080314	11080314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatagaagttgaatataccgGcaattttgcgagcacccaag	15	9	9	8	2	0	2	0	1	0	1	0	3	0	2	2	1	3	3	2	1	8	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:11080314G>A	uc003sry.1	+	12	2527	c.2092G>A	c.(2092-2094)GCA>ACA	p.A698T	PHF14_uc011jxi.1_Missense_Mutation_p.A413T|PHF14_uc003srz.2_Missense_Mutation_p.A698T|PHF14_uc011jxj.1_Missense_Mutation_p.A413T	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	698							zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		GAATATACCGGCAATTTTGCG	0.348													4	20					0	0	0.000602	0	0		A	11080314	A	A	11080314	3	1	11	1	0	0	0	0	1	0	0	0	11844	1203	42	2	2138	2	PHF14	7	11080314	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2882115	11080314	148058349	419	8811											
SCIN	85477	broad.mit.edu	37	chr7	12668796	12668796	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgaattctatggtggtgActgctacatcatactctaca	10	14	9	8	0	3	2	1	2	2	0	3	2	3	2	0	3	4	1	0	3	5	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:12668796A>G	uc003ssn.3	+	9	1478	c.1268A>G	c.(1267-1269)GAC>GGC	p.D423G	SCIN_uc010ktt.2_RNA|SCIN_uc003sso.3_Missense_Mutation_p.D176G	NM_001112706	NP_001106177	Q9Y6U3	ADSV_HUMAN	scinderin isoform 1	423	Ca(2+)-dependent actin binding.|Gelsolin-like 4.				actin filament capping|actin filament severing|actin nucleation|calcium ion-dependent exocytosis|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of megakaryocyte differentiation|positive regulation of secretion|regulation of chondrocyte differentiation	cell cortex|cytoskeleton	1-phosphatidylinositol binding|actin filament binding|calcium ion binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		TATGGTGGTGACTGCTACATC	0.408													5	90					0	0	0.001855	0	0		G	12668796	G	G	12668796	3	3	11	1	0	0	0	0	1	0	0	0	13930	275	10	3	1302	3	SCIN	7	12668796	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1588482	12668796	146469867	420	8812											
ABCB5	340273	broad.mit.edu	37	chr7	20793131	20793131	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgataatgacagtgagaaggTaacatcattttcttttatct	13	15	7	6	1	3	2	1	2	2	1	3	4	3	2	0	1	1	1	0	1	4	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:20793131T>C	uc003suw.3	+	18	2787	c.2241_splice	c.e18+2	p.K747_splice	ABCB5_uc010kuh.2_Splice_Site_p.K1192_splice	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5						regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						AGTGAGAAGGTAACATCATTT	0.373													15	71					0	0	0.003163	0	0		C	20793131	C	C	20793131	5	2	11	1	0	0	0	0	0	0	1	0	44	1652	57	3	3721	3	ABCB5	7	20793131	Splice_Site	SNP	T	TCGA-BR-4256-01A-01D-1126-08	8124335	20793131	138345532	421	8813											
DNAH11	8701	broad.mit.edu	37	chr7	21742378	21742378	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtctgtcttggttgtggcTggatctctgaaacgaggaga	9	12	14	6	1	3	2	0	1	3	1	4	5	3	3	0	4	1	2	0	4	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:21742378T>A	uc003svc.2	+	38	6283	c.6252T>A	c.(6250-6252)GCT>GCA	p.A2084A		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2084					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TGGTTGTGGCTGGATCTCTGA	0.403									Kartagener_syndrome				5	15					0	0	0.001984	0	0		A	21742378	A	A	21742378	2	1	11	1	0	0	0	0	0	0	0	1	4605	1567	55	5		5	DNAH11	7	21742378	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	949247	21742378	137396285	422	8814											
DFNA5	1687	broad.mit.edu	37	chr7	24756983	24756983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgacattcccatcctccGtcgctgacacctgtgggcaa	7	10	10	14	2	0	2	0	2	0	0	4	2	3	2	4	2	0	2	4	2	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:24756983G>A	uc010kus.1	-	5	675	c.587C>T	c.(586-588)ACG>ATG	p.T196M	DFNA5_uc003swz.2_Missense_Mutation_p.T32M|DFNA5_uc003sxa.1_Missense_Mutation_p.T196M|DFNA5_uc010kut.1_Missense_Mutation_p.T32M|DFNA5_uc003sxb.2_Missense_Mutation_p.T196M	NM_001127453	NP_001120925	O60443	DFNA5_HUMAN	deafness, autosomal dominant 5 protein isoform	196					sensory perception of sound					ovary(1)	1						CCCATCCTCCGTCGCTGACAC	0.572													4	37					0	0	0.009096	0	0		A	24756983	A	A	24756983	3	1	11	1	0	0	0	0	1	0	0	0	4460	1145	40	1	927	1	DFNA5	7	24756983	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3014605	24756983	134381680	423	8815											
HOXA3	3200	broad.mit.edu	37	chr7	27148111	27148111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgacgttagcatgcccttgCccttctgatcctttttgtac	6	16	7	12	1	1	2	0	2	1	0	2	2	2	2	3	0	4	3	3	0	2	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:27148111C>T	uc011jzl.1	-	3	955	c.755G>A	c.(754-756)GGC>GAC	p.G252D	HOXA3_uc011jzk.1_Missense_Mutation_p.G94D|HOXA3_uc003syk.2_Missense_Mutation_p.G252D	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	252					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						CATGCCCTTGCCCTTCTGATC	0.592													9	73					0	0	0.004482	0	0		T	27148111	T	T	27148111	3	4	11	1	0	0	0	0	1	0	0	0	7309	739	26	2	580	2	HOXA3	7	27148111	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2391128	27148111	131990552	424	8816											
TAX1BP1	8887	broad.mit.edu	37	chr7	27855995	27855995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaggagtctagaaaatccaGcagaaaggaaaatggaaggt	20	5	12	4	0	1	2	0	0	1	2	2	5	2	5	1	4	1	1	1	4	8	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:27855995G>A	uc003szl.2	+	14	1950	c.1792G>A	c.(1792-1794)GCA>ACA	p.A598T	TAX1BP1_uc011jzo.1_Missense_Mutation_p.A598T|TAX1BP1_uc003szk.2_Missense_Mutation_p.A598T|TAX1BP1_uc011jzp.1_Missense_Mutation_p.A441T	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	598	Potential.				anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)			AGAAAATCCAGCAGAAAGGAA	0.323													21	114					0	0	0.010504	0	0		A	27855995	A	A	27855995	3	1	11	1	0	0	0	0	1	0	0	0	15619	971	34	2	1842	2	TAX1BP1	7	27855995	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	707884	27855995	131282668	425	8817											
PDE1C	5137	broad.mit.edu	37	chr7	31862835	31862835	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgacacctgatcgcttGgcatctgacgagctgatgct	7	12	11	11	2	2	4	0	4	2	0	3	5	2	4	1	1	2	4	1	1	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:31862835G>A	uc003tcm.1	-	14	1903	c.1434C>T	c.(1432-1434)GCC>GCT	p.A478A	PDE1C_uc003tcn.1_Silent_p.A478A|PDE1C_uc003tco.1_Silent_p.A538A|PDE1C_uc003tcr.2_Silent_p.A478A|PDE1C_uc003tcs.2_Silent_p.A478A	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	478	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			CTGATCGCTTGGCATCTGACG	0.443													16	41					0	0	0.00499	0	0		A	31862835	A	A	31862835	2	1	11	1	0	0	0	0	0	0	0	1	11654	1335	47	4		4	PDE1C	7	31862835	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4006840	31862835	127275828	426	8818											
ELMO1	9844	broad.mit.edu	37	chr7	37251045	37251045	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggacttgcgtttctccatGctgccactgctgttgttagg	5	15	11	10	1	1	0	0	0	1	0	2	1	1	1	2	2	4	5	2	2	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:37251045G>A	uc003tfk.1	-	13	1339	c.1032C>T	c.(1030-1032)AGC>AGT	p.S344S	ELMO1_uc011kbc.1_Silent_p.S248S|ELMO1_uc010kxg.1_Silent_p.S344S	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	344	ELMO.				actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						GTTTCTCCATGCTGCCACTGC	0.468													7	45					0	0	0.004482	0	0		A	37251045	A	A	37251045	2	1	11	1	0	0	0	0	0	0	0	1	5073	1310	46	2		2	ELMO1	7	37251045	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	5388210	37251045	121887618	427	8819											
CDK13	8621	broad.mit.edu	37	chr7	40132819	40132819	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaggccacctccagaacCtagcactccggtgtcgggta	9	7	10	15	2	1	1	1	0	0	1	4	1	3	1	5	3	2	2	5	3	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:40132819C>A	uc003thh.3	+	13	3953	c.3671C>A	c.(3670-3672)CCT>CAT	p.P1224H	CDK13_uc003thi.3_Missense_Mutation_p.P1164H|CDK13_uc003thj.2_Missense_Mutation_p.P275H|CDK13_uc003thk.2_Missense_Mutation_p.P157H	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	1224					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						CCTCCAGAACCTAGCACTCCG	0.453													10	79					1.61879e-10	1.86247e-10	0.013537	1	0		A	40132819	A	A	40132819	3	1	11	1	0	0	0	0	1	0	0	0	3132	681	24	5	3721	5	CDK13	7	40132819	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2881774	40132819	119005844	428	8820											
AEBP1	165	broad.mit.edu	37	chr7	44153301	44153301	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaatgttgactatgacaTcggggccactcagtgcaact	10	10	10	11	1	1	2	1	2	0	0	2	2	1	2	1	2	3	3	1	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:44153301T>C	uc003tkb.2	+	21	3223	c.2918T>C	c.(2917-2919)ATC>ACC	p.I973T	AEBP1_uc003tkc.3_Missense_Mutation_p.I548T|AEBP1_uc003tkd.2_Missense_Mutation_p.I223T	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	973	Interaction with PTEN (By similarity).|Required for transcriptional repression (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GACTATGACATCGGGGCCACT	0.592													13	61					0	0	0.001855	0	0		C	44153301	C	C	44153301	3	2	11	1	0	0	0	0	1	0	0	0	349	1435	50	3	3000	3	AEBP1	7	44153301	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	4020482	44153301	114985362	429	8821											
GCK	2645	broad.mit.edu	37	chr7	44187337	44187337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgccggagtccccgaaggCgccccactcggtattgacgc	6	6	12	17	6	0	1	0	1	0	0	3	3	1	2	5	3	0	1	5	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:44187337C>T	uc003tkl.2	-	7	1245	c.775G>A	c.(775-777)GCC>ACC	p.A259T	GCK_uc003tkh.1_5'Flank|GCK_uc003tki.1_5'Flank|GCK_uc003tkj.1_Missense_Mutation_p.A258T|GCK_uc003tkk.1_Missense_Mutation_p.A260T	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	259			A -> T (in MODY2).		cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						TCCCCGAAGGCGCCCCACTCG	0.642													14	42					0	0	0.00245	0	0		T	44187337	T	T	44187337	3	4	11	1	0	0	0	0	1	0	0	0	6308	768	27	1	638	1	GCK	7	44187337	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	34036	44187337	114951326	430	8822											
COBL	23242	broad.mit.edu	37	chr7	51098597	51098597	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatttgaggctgtgacagcTttttcagttctagggaagac	9	14	11	7	0	3	3	2	2	1	1	3	4	3	4	0	2	1	3	0	2	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:51098597T>C	uc003tpr.3	-	9	1601	c.1416A>G	c.(1414-1416)AAA>AAG	p.K472K	COBL_uc003tps.2_Silent_p.K529K|COBL_uc011kcl.1_Silent_p.K472K|COBL_uc003tpp.3_Silent_p.K258K|COBL_uc003tpq.3_Silent_p.K413K|COBL_uc003tpo.3_Silent_p.K14K	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	472										skin(3)|ovary(2)	5	Glioma(55;0.08)					CTGTGACAGCTTTTTCAGTTC	0.413													3	71					0	0	0.004672	0	0		C	51098597	C	C	51098597	2	2	11	1	0	0	0	0	0	0	0	1	3656	1606	56	3		3	COBL	7	51098597	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	6911260	51098597	108040066	431	8823											
SEC61G	23480	broad.mit.edu	37	chr7	54823470	54823470	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatttcataaagtttacttAcacaatgatgttattaatag	15	17	4	5	0	1	1	1	1	0	0	1	1	1	1	0	0	2	2	0	0	9	9			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:54823470A>G	uc003tqf.2	-	3	288	c.197_splice	c.e3+1	p.V66_splice	SEC61G_uc003tqg.2_Splice_Site_p.V66_splice	NM_001012456	NP_001012474	P60059	SC61G_HUMAN	Sec61 gamma subunit						protein targeting to ER	endoplasmic reticulum membrane|integral to membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity			lung(1)	1	Esophageal squamous(2;7.55e-08)|Breast(14;0.0654)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)			AAGTTTACTTACACAATGATG	0.333													6	39					0	0	0.001168	0	0		G	54823470	G	G	54823470	5	3	11	1	0	0	0	0	0	0	1	0	14028	405	14	3	15	3	SEC61G	7	54823470	Splice_Site	SNP	A	TCGA-BR-4256-01A-01D-1126-08	3724873	54823470	104315193	432	8824											
ZNF138	7697	broad.mit.edu	37	chr7	64275387	64275387	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggaatgtatataggcatgTgatgttagagaactacagaa	15	10	12	4	1	0	3	0	1	0	2	0	5	0	4	0	2	2	3	0	2	8	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:64275387T>C	uc011kdp.1	+	2	271	c.95T>C	c.(94-96)GTG>GCG	p.V32A	ZNF138_uc003ttg.2_5'UTR|ZNF138_uc011kdq.1_Missense_Mutation_p.V32A|ZNF138_uc003tth.2_Intron|ZNF138_uc010kzs.2_Missense_Mutation_p.V26A	NM_001160183	NP_001153655	B4DFX2	B4DFX2_HUMAN	zinc finger protein 138 isoform 2	32					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding				0		Lung NSC(55;0.0795)|all_lung(88;0.18)				TATAGGCATGTGATGTTAGAG	0.393													6	86					0	0	0.001984	0	0		C	64275387	C	C	64275387	3	2	11	1	0	0	0	0	1	0	0	0	17752	1696	59	3	101	3	ZNF138	7	64275387	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	9451917	64275387	94863276	433	8825											
TYW1	55253	broad.mit.edu	37	chr7	66479405	66479405	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcgacatacactgacggcCtaccaactgaaagtgcagag	13	7	10	11	2	0	3	0	2	0	1	0	4	0	3	2	1	5	1	2	1	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:66479405C>A	uc003tvn.2	+	5	576	c.427C>A	c.(427-429)CTA>ATA	p.L143I	TYW1_uc010lai.2_RNA	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	143	Flavodoxin-like.				tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				CACTGACGGCCTACCAACTGA	0.408													24	87					1.7367e-05	1.90265e-05	0.00632	1	0		A	66479405	A	A	66479405	3	1	11	1	0	0	0	0	1	0	0	0	16844	680	24	5	445	5	TYW1	7	66479405	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2204018	66479405	92659258	434	8826											
TYW1B	441250	broad.mit.edu	37	chr7	72159738	72159738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatccttgaagagtgggCggtcgattttcttcaggctg	9	12	13	7	2	2	3	1	1	1	2	4	4	3	3	1	3	0	1	1	3	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:72159738C>T	uc011kej.1	-	14	1604	c.1445G>A	c.(1444-1446)CGC>CAC	p.R482H	TYW1B_uc011keh.1_Missense_Mutation_p.R320H|TYW1B_uc011kei.1_Missense_Mutation_p.R108H	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform	482					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						GAAGAGTGGGCGGTCGATTTT	0.393													11	84					0	0	0.004007	0	0		T	72159738	T	T	72159738	3	4	11	1	0	0	0	0	1	0	0	0	16845	768	27	1	698	1	TYW1B	7	72159738	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5680333	72159738	86978925	435	8827											
BAZ1B	9031	broad.mit.edu	37	chr7	72863875	72863875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaagaaaagattctcacctgCcacgggagttgcgcctggca	12	7	11	11	2	1	2	1	0	1	2	2	3	1	3	3	2	2	2	3	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:72863875C>T	uc003tyc.2	-	15	4070	c.3725G>A	c.(3724-3726)GGC>GAC	p.G1242D		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	1242					ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				TTCTCACCTGCCACGGGAGTT	0.438													4	21					0	0	0.000602	0	0		T	72863875	T	T	72863875	3	4	11	1	0	0	0	0	1	0	0	0	1331	739	26	2	746	2	BAZ1B	7	72863875	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	704137	72863875	86274788	436	8828											
SPDYE5	442590	broad.mit.edu	37	chr7	75131017	75131017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagtcctgttccagaaacgtCggttccagttcttctgttcc	6	15	8	12	2	2	1	0	0	2	1	7	1	6	1	4	1	1	4	4	1	2	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:75131017C>T	uc011kfy.1	+	6	1028	c.892C>T	c.(892-894)CGG>TGG	p.R298W		NM_001099435	NP_001092905	A6NIY4	SPDE5_HUMAN	speedy homolog E5	298	Arg-rich.										0						CCAGAAACGTCGGTTCCAGTT	0.597													30	148					0	0	0.012213	0	0		T	75131017	T	T	75131017	3	4	11	1	0	0	0	0	1	0	0	0	15057	875	31	1	914	1	SPDYE5	7	75131017	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2267142	75131017	84007646	437	8829											
FGL2	10875	broad.mit.edu	37	chr7	76825822	76825822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacagttcccagaaggatatCgatcattgtctttatctgga	11	13	8	9	1	3	1	1	0	2	1	5	4	4	3	1	2	0	1	1	2	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:76825822C>T	uc003ugb.2	-	2	1134	c.1094G>A	c.(1093-1095)CGA>CAA	p.R365Q	CCDC146_uc003ufz.1_Intron|CCDC146_uc003uga.2_Intron	NM_006682	NP_006673	Q14314	FGL2_HUMAN	fibrinogen-like 2 precursor	365	Fibrinogen C-terminal.				signal transduction	fibrinogen complex	receptor binding			skin(2)	2						AGAAGGATATCGATCATTGTC	0.398													9	106					0	0	0.008291	0	0		T	76825822	T	T	76825822	3	4	11	1	0	0	0	0	1	0	0	0	5887	884	31	1	229	1	FGL2	7	76825822	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1694805	76825822	82312841	438	8830											
PCLO	27445	broad.mit.edu	37	chr7	82580130	82580130	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcatagactgcagctcCtccaactttttctgaaccat	9	14	5	13	0	2	2	1	1	1	1	4	2	4	2	3	0	5	3	3	0	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:82580130C>T	uc003uhx.2	-	6	10063	c.9774G>A	c.(9772-9774)GAG>GAA	p.E3258E	PCLO_uc003uhv.2_Silent_p.E3258E|PCLO_uc010lec.2_Silent_p.E223E	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3189	Gln-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ACTGCAGCTCCTCCAACTTTT	0.458													17	130					0	0	0.00499	0	0		T	82580130	T	T	82580130	2	4	11	1	0	0	0	0	0	0	0	1	11602	680	24	4		4	PCLO	7	82580130	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5754308	82580130	76558533	439	8831											
PCLO	27445	broad.mit.edu	37	chr7	82584742	82584742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccatttctgcagcctgacGtaactcttctgtcggagatg	7	13	9	12	2	3	2	0	1	3	1	5	3	4	2	2	1	3	2	2	1	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:82584742G>A	uc003uhx.2	-	5	5816	c.5527C>T	c.(5527-5529)CGT>TGT	p.R1843C	PCLO_uc003uhv.2_Missense_Mutation_p.R1843C	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1774					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GCAGCCTGACGTAACTCTTCT	0.448													26	174					0	0	0.008361	0	0		A	82584742	A	A	82584742	3	1	11	1	0	0	0	0	1	0	0	0	11602	1145	40	1	10002	1	PCLO	7	82584742	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4612	82584742	76553921	440	8832											
STEAP4	79689	broad.mit.edu	37	chr7	87913386	87913386	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcttggctgcttctgaatAgctcaagacttctgcaccac	8	13	7	13	0	4	2	1	1	3	1	4	2	4	2	1	1	3	4	1	1	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:87913386A>G	uc003ujs.2	-	2	304	c.199T>C	c.(199-201)TAT>CAT	p.Y67H	STEAP4_uc010lek.2_Missense_Mutation_p.Y67H|STEAP4_uc003ujt.2_Missense_Mutation_p.Y67H	NM_024636	NP_078912	Q687X5	STEA4_HUMAN	tumor necrosis factor, alpha-induced protein 9	67					fat cell differentiation|ion transport|iron ion homeostasis	Golgi membrane|integral to membrane|plasma membrane	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	Esophageal squamous(14;0.00802)					GCTTCTGAATAGCTCAAGACT	0.428													12	75					0	0	0.010729	0	0		G	87913386	G	G	87913386	3	3	11	1	0	0	0	0	1	0	0	0	15305	420	15	3	1196	3	STEAP4	7	87913386	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	5328644	87913386	71225277	441	8833											
CCDC132	55610	broad.mit.edu	37	chr7	92926504	92926504	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtagcaagtctgaagtttTacaggaatctattagaaaac	15	12	9	5	0	2	2	0	1	2	1	2	3	2	3	0	2	3	3	0	2	9	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:92926504T>C	uc003umo.2	+	16	1438	c.1310T>C	c.(1309-1311)TTA>TCA	p.L437S	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.L407S|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Missense_Mutation_p.L157S	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	437											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			TCTGAAGTTTTACAGGAATCT	0.313													12	47					0	0	0.004007	0	0		C	92926504	C	C	92926504	3	2	11	1	0	0	0	0	1	0	0	0	2770	1764	61	3	1414	3	CCDC132	7	92926504	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	5013118	92926504	66212159	442	8834											
OCM2	4951	broad.mit.edu	37	chr7	97617763	97617763	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagatacccgctctggtcGttgtctatgaaccggaaaac	10	10	9	12	3	2	2	0	1	2	1	4	3	3	3	3	2	3	2	3	2	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:97617763G>A	uc003upc.2	-	2	159	c.159C>T	c.(157-159)AAC>AAT	p.N53N		NM_006188	NP_006179	P0CE71	OCM2_HUMAN	oncomodulin-like	53	EF-hand 1.|1 (Potential).						calcium ion binding				0						CGCTCTGGTCGTTGTCTATGA	0.537													13	113					0	0	0.004007	0	0		A	97617763	A	A	97617763	2	1	11	1	0	0	0	0	0	0	0	1	10841	1136	40	1		1	OCM2	7	97617763	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4691259	97617763	61520900	443	8835											
CYP3A5	1577	broad.mit.edu	37	chr7	99262895	99262895	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcgatgttcactccaaaTgatgtgccagtaatcacatc	12	11	8	10	1	2	1	2	1	0	0	5	3	3	1	2	0	1	2	2	0	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:99262895T>C	uc003urq.2	-	7	651	c.564A>G	c.(562-564)TCA>TCG	p.S188S	ZNF498_uc003urn.2_Intron|CYP3A5_uc003urp.2_Silent_p.S8S|CYP3A5_uc003urr.2_Silent_p.S75S|CYP3A5_uc011kiy.1_Silent_p.S178S|CYP3A5_uc003urs.2_Intron|CYP3A5_uc010lgg.2_Intron	NM_000777	NP_000768	P20815	CP3A5_HUMAN	cytochrome P450, family 3, subfamily A,	188					alkaloid catabolic process|drug catabolic process|oxidative demethylation|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0	all_epithelial(64;2.77e-08)|Lung NSC(181;0.00396)|all_lung(186;0.00659)|Esophageal squamous(72;0.0166)				Alfentanil(DB00802)|Clopidogrel(DB00758)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Indinavir(DB00224)|Irinotecan(DB00762)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Mephenytoin(DB00532)|Midazolam(DB00683)|Mifepristone(DB00834)|Phenytoin(DB00252)|Quinine(DB00468)|Saquinavir(DB01232)|Tacrolimus(DB00864)|Troleandomycin(DB01361)|Verapamil(DB00661)|Vincristine(DB00541)	TCACTCCAAATGATGTGCCAG	0.413													14	106					0	0	0.003163	0	0		C	99262895	C	C	99262895	2	2	11	1	0	0	0	0	0	0	0	1	4183	1451	51	3		3	CYP3A5	7	99262895	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1645132	99262895	59875768	444	8836											
OR2AE1	81392	broad.mit.edu	37	chr7	99474306	99474306	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acatagcggtcataggacatGacagctaagagaaaacattc	17	7	9	8	1	1	2	1	1	0	1	2	4	1	3	0	2	3	1	0	2	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:99474306G>A	uc003usc.1	-	1	351	c.351C>T	c.(349-351)GTC>GTT	p.V117V		NM_001005276	NP_001005276	Q8NHA4	O2AE1_HUMAN	olfactory receptor, family 2, subfamily AE,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)					CATAGGACATGACAGCTAAGA	0.478													15	89					0	0	0.00499	0	0		A	99474306	A	A	99474306	2	1	11	1	0	0	0	0	0	0	0	1	11002	1277	45	4		4	OR2AE1	7	99474306	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	211411	99474306	59664357	445	8837											
ZNF3	7551	broad.mit.edu	37	chr7	99669329	99669329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctgaaggttttcccacaatCactacattcataaggttttt	11	15	6	9	0	2	1	2	1	0	0	3	1	3	1	1	2	1	3	1	2	4	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:99669329C>T	uc003usq.2	-	6	1085	c.778G>A	c.(778-780)GAT>AAT	p.D260N	ZNF3_uc003usp.2_Intron|ZNF3_uc003usr.2_Missense_Mutation_p.D260N|ZNF3_uc010lgj.2_Missense_Mutation_p.D224N|ZNF3_uc003uss.2_Missense_Mutation_p.D267N|ZNF3_uc003ust.3_Missense_Mutation_p.D260N	NM_032924	NP_116313	P17036	ZNF3_HUMAN	zinc finger protein 3 isoform 2	260	C2H2-type 3.				cell differentiation|leukocyte activation|multicellular organismal development	nucleus	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)	Ovarian(593;2.06e-05)|Myeloproliferative disorder(862;0.0122)|Breast(660;0.029)	STAD - Stomach adenocarcinoma(171;0.129)			TTCCCACAATCACTACATTCA	0.483													12	67					0	0	0.010729	0	0		T	99669329	T	T	99669329	3	4	11	1	0	0	0	0	1	0	0	0	17854	826	29	4	695	4	ZNF3	7	99669329	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	195023	99669329	59469334	446	8838											
GATS	352954	broad.mit.edu	37	chr7	99821527	99821527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgaagtctgtctgatacGtggacagcatgaacacggat	12	9	13	7	2	2	3	0	3	2	0	2	6	2	6	0	3	3	1	0	3	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:99821527G>A	uc003uua.3	-	3	638	c.389C>T	c.(388-390)ACG>ATG	p.T130M	GATS_uc003uty.3_RNA|GATS_uc003utz.3_RNA|GATS_uc010lgt.2_RNA|GATS_uc011kjl.1_5'Flank|GATS_uc010lgu.2_RNA	NM_178831	NP_849153	Q8NAP1	GATS_HUMAN	GATS, stromal antigen 3 opposite strand	130											0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TGTCTGATACGTGGACAGCAT	0.572													8	54					0	0	0.004007	0	0		A	99821527	A	A	99821527	3	1	11	1	0	0	0	0	1	0	0	0	6279	1145	40	1	110	1	GATS	7	99821527	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	152198	99821527	59317136	447	8839											
C7orf51	222950	broad.mit.edu	37	chr7	100086071	100086071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggccccctcttgggggtgggGgcccgacccctccagcgggc	2	5	17	17	2	1	0	0	0	1	0	2	1	2	0	6	6	1	0	6	6	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:100086071G>A	uc003uvd.1	+	4	886	c.727G>A	c.(727-729)GGC>AGC	p.G243S	C7orf51_uc003uve.1_Missense_Mutation_p.G25S	NM_173564	NP_775835	Q6ZVC0	CG051_HUMAN	hypothetical protein FLJ37538	243	Poly-Gly.									skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TGGGGGTGGGGGCCCGACCCC	0.647													3	19					0	0	0.000602	0	0		A	100086071	A	A	100086071	3	1	11	1	0	0	0	0	1	0	0	0	2403	1232	43	4	737	4	C7orf51	7	100086071	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	264544	100086071	59052592	448	8840											
EPHB4	2050	broad.mit.edu	37	chr7	100420130	100420130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcactttttgtagaagaggtGcagggatagcagggccatgc	10	9	15	7	0	0	2	0	0	0	2	0	3	0	3	1	3	3	4	1	3	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:100420130G>A	uc003uwn.1	-	4	1062	c.571C>T	c.(571-573)CAC>TAC	p.H191Y	EPHB4_uc003uwm.1_Missense_Mutation_p.H98Y|EPHB4_uc010lhj.1_Missense_Mutation_p.H191Y|EPHB4_uc011kkf.1_Missense_Mutation_p.H191Y|EPHB4_uc011kkg.1_Missense_Mutation_p.H191Y|EPHB4_uc011kkh.1_Missense_Mutation_p.H191Y	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	191	Extracellular (Potential).|Cys-rich.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					TAGAAGAGGTGCAGGGATAGC	0.612													4	19					0	0	0.009096	0	0		A	100420130	A	A	100420130	3	1	11	1	0	0	0	0	1	0	0	0	5185	1319	46	2	2448	2	EPHB4	7	100420130	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	334059	100420130	58718533	449	8841											
SLC12A9	56996	broad.mit.edu	37	chr7	100453458	100453458	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttgatgtcttcggggcCggtctgtgctctgtccgatc	2	14	14	11	3	3	1	0	1	3	0	6	2	4	1	2	3	2	2	2	3	0	2	rs140479354	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:100453458C>T	uc003uwp.2	+	4	589	c.447C>T	c.(445-447)GCC>GCT	p.A149A	SLC12A9_uc003uwo.1_Intron|SLC12A9_uc003uwq.2_Intron|SLC12A9_uc011kki.1_Intron|SLC12A9_uc003uwr.2_5'UTR|SLC12A9_uc003uws.2_5'UTR|SLC12A9_uc003uwt.2_5'Flank|SLC12A9_uc003uwv.2_5'Flank	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	149	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					TCTTCGGGGCCGGTCTGTGCT	0.617													12	47					0	0	0.013537	0	0		T	100453458	T	T	100453458	2	4	11	1	0	0	0	0	0	0	0	1	14415	666	23	1		1	SLC12A9	7	100453458	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	33328	100453458	58685205	450	8842											
SRRT	51593	broad.mit.edu	37	chr7	100478930	100478930	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggaccgtggccgtgagcgCcgtagtcggggtgaatatcg	6	8	18	9	6	0	2	0	2	0	0	2	3	0	3	3	4	1	1	3	4	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:100478930C>T	uc003uwy.2	+	4	415	c.147C>T	c.(145-147)CGC>CGT	p.R49R	SRRT_uc010lhl.1_Silent_p.R49R|SRRT_uc003uxa.2_Silent_p.R49R|SRRT_uc003uwz.2_Silent_p.R49R	NM_015908	NP_056992	Q9BXP5	SRRT_HUMAN	arsenate resistance protein 2 isoform a	49	Arg-rich.				cell proliferation|primary miRNA processing|response to arsenic-containing substance	cytoplasm|nucleoplasm	protein binding			ovary(2)	2						GCCGTGAGCGCCGTAGTCGGG	0.448													7	47					0	0	0.006214	0	0		T	100478930	T	T	100478930	2	4	11	1	0	0	0	0	0	0	0	1	15197	726	26	2		2	SRRT	7	100478930	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	25472	100478930	58659733	451	8843											
MUC17	140453	broad.mit.edu	37	chr7	100682851	100682851	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcaacaactcctgttgaCaccagcacacctgtcaccac	11	9	4	17	0	2	1	2	1	0	0	3	1	3	1	4	0	3	2	4	0	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:100682851C>T	uc003uxp.1	+	3	8207	c.8154C>T	c.(8152-8154)GAC>GAT	p.D2718D	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2718	Extracellular (Potential).|43.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CTCCTGTTGACACCAGCACAC	0.483													36	297					0	0	0.005524	0	0		T	100682851	T	T	100682851	2	4	11	1	0	0	0	0	0	0	0	1	9992	477	17	4		4	MUC17	7	100682851	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	203921	100682851	58455812	452	8844											
ORAI2	80228	broad.mit.edu	37	chr7	102087353	102087353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccatcatcatggtgcccGtgggcctcatcttcgtggtc	5	11	10	15	2	4	0	3	0	1	0	6	0	4	0	4	3	1	0	4	3	0	1	rs149386719		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:102087353G>A	uc010lhz.1	+	4	854	c.619G>A	c.(619-621)GTG>ATG	p.V207M	ORAI2_uc003uzj.2_Missense_Mutation_p.V207M|ORAI2_uc003uzk.2_Missense_Mutation_p.V207M|ORAI2_uc011kks.1_Missense_Mutation_p.V130M	NM_001126340	NP_001119812	Q96SN7	ORAI2_HUMAN	ORAI calcium release-activated calcium modulator	207	Helical; (Potential).					integral to membrane	protein binding			ovary(1)|kidney(1)	2						CATGGTGCCCGTGGGCCTCAT	0.672													6	11					0	0	0.00308	0	0		A	102087353	A	A	102087353	3	1	11	1	0	0	0	0	1	0	0	0	11277	1145	40	1	625	1	ORAI2	7	102087353	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1404502	102087353	57051310	453	8845											
RELN	5649	broad.mit.edu	37	chr7	103155701	103155701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccggcatctgcaggggagcGctcatgctggggtactgggg	5	7	19	10	2	2	0	1	0	1	0	2	1	2	1	1	7	4	5	1	7	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:103155701G>A	uc003vca.2	-	50	8210	c.8050C>T	c.(8050-8052)CGC>TGC	p.R2684C	RELN_uc010liz.2_Missense_Mutation_p.R2684C	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2684					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		GCAGGGGAGCGCTCATGCTGG	0.532													7	24					0	0	0.006214	0	0		A	103155701	A	A	103155701	3	1	11	1	0	0	0	0	1	0	0	0	13245	1087	38	1	2396	1	RELN	7	103155701	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1068348	103155701	55982962	454	8846											
CDHR3	222256	broad.mit.edu	37	chr7	105653434	105653434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccatctggagtggggagcgGcagcagatttttacaggatc	9	9	15	8	1	1	1	0	0	1	1	2	4	1	4	1	5	3	2	1	5	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:105653434G>A	uc003vdl.3	+	9	1289	c.1181G>A	c.(1180-1182)GGC>GAC	p.G394D	CDHR3_uc003vdk.2_Missense_Mutation_p.G42D|CDHR3_uc011kls.1_RNA|CDHR3_uc003vdm.3_Missense_Mutation_p.G381D|CDHR3_uc011klt.1_Missense_Mutation_p.G306D|CDHR3_uc003vdn.2_Missense_Mutation_p.G111D	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	394	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						GTGGGGAGCGGCAGCAGATTT	0.473													17	91					0	0	0.004007	0	0		A	105653434	A	A	105653434	3	1	11	1	0	0	0	0	1	0	0	0	3123	1203	42	2	1215	2	CDHR3	7	105653434	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2497733	105653434	53485229	455	8847											
LAMB1	3912	broad.mit.edu	37	chr7	107580698	107580698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacccccgagtaccctcgcGtgcacttgtcacagcgtgga	8	7	11	15	4	1	1	1	0	0	1	2	3	1	2	3	1	3	2	3	1	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:107580698G>A	uc003vew.2	-	25	3832	c.3497C>T	c.(3496-3498)ACG>ATG	p.T1166M	LAMB1_uc003vev.2_Missense_Mutation_p.T1190M	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1166	Laminin EGF-like 13.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTACCCTCGCGTGCACTTGTC	0.602													10	56					0	0	0.008291	0	0		A	107580698	A	A	107580698	3	1	11	1	0	0	0	0	1	0	0	0	8626	1145	40	1	1903	1	LAMB1	7	107580698	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1927264	107580698	51557965	456	8848											
NRCAM	4897	broad.mit.edu	37	chr7	107807442	107807442	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactcgaactttgtatgcTgttcctggcattagaccctt	8	14	7	12	1	0	1	0	0	0	1	2	2	1	1	3	1	3	4	3	1	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:107807442T>C	uc003vfb.2	-	30	3861	c.3390A>G	c.(3388-3390)ACA>ACG	p.T1130T	NRCAM_uc003vfc.2_Intron|NRCAM_uc011kmk.1_Intron|NRCAM_uc003vfd.2_Intron|NRCAM_uc003vfe.2_Intron|NRCAM_uc011kmj.1_Intron	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	1130	Fibronectin type-III 5.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						CTTTGTATGCTGTTCCTGGCA	0.453													4	25					0	0	0.009096	0	0		C	107807442	C	C	107807442	2	2	11	1	0	0	0	0	0	0	0	1	10663	1567	55	3		3	NRCAM	7	107807442	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	226744	107807442	51331221	457	8849											
LRRN3	54674	broad.mit.edu	37	chr7	110764283	110764283	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacactagatataaatggCgtaactcccaaagaaggggg	16	6	12	7	1	0	2	0	0	0	2	1	3	1	3	1	4	2	1	1	4	8	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:110764283C>T	uc003vft.3	+	4	2501	c.1455C>T	c.(1453-1455)GGC>GGT	p.G485G	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Silent_p.G485G|LRRN3_uc003vfs.3_Silent_p.G485G	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	485	Extracellular (Potential).|Ig-like C2-type.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		ATATAAATGGCGTAACTCCCA	0.408													10	93					0	0	0.008291	0	0		T	110764283	T	T	110764283	2	4	11	1	0	0	0	0	0	0	0	1	9054	755	27	1		1	LRRN3	7	110764283	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2956841	110764283	48374380	458	8850											
CTTNBP2	83992	broad.mit.edu	37	chr7	117417627	117417627	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctgttggcgtggttaaTgaggtctgcaggaacaacag	9	12	13	7	1	2	1	0	1	2	0	3	2	2	2	0	4	3	3	0	4	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:117417627T>C	uc003vjf.2	-	8	2808	c.2716A>G	c.(2716-2718)ATT>GTT	p.I906V		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	906										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GCGTGGTTAATGAGGTCTGCA	0.502													9	65					0	0	0.010729	0	0		C	117417627	C	C	117417627	3	2	11	1	0	0	0	0	1	0	0	0	4048	1464	51	3	2339	3	CTTNBP2	7	117417627	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	6653344	117417627	41721036	459	8851											
CPA5	93979	broad.mit.edu	37	chr7	130008355	130008355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtatggcttcctgctgccgGccacacagatcatccccacg	8	8	9	16	2	1	1	1	0	0	1	3	1	3	1	5	2	2	3	5	2	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:130008355G>A	uc010lmd.1	+	14	1848	c.1228G>A	c.(1228-1230)GCC>ACC	p.A410T	CPA5_uc003vps.2_Missense_Mutation_p.A410T|CPA5_uc003vpt.2_Silent_p.R381R|CPA5_uc010lme.1_Missense_Mutation_p.A410T|CPA5_uc003vpu.1_Missense_Mutation_p.A410T|uc003vpv.1_RNA	NM_001127441	NP_001120913	Q8WXQ8	CBPA5_HUMAN	carboxypeptidase A5 isoform 1	410					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2	Melanoma(18;0.0435)					CCTGCTGCCGGCCACACAGAT	0.612													9	52					0	0	0.006214	0	0		A	130008355	A	A	130008355	3	1	11	1	0	0	0	0	1	0	0	0	3796	1203	42	2	1270	2	CPA5	7	130008355	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	12590728	130008355	29130308	460	8852											
PLXNA4	91584	broad.mit.edu	37	chr7	131859587	131859587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattcctgggaacagcacccGcatggtgtaagttctatagt	11	11	10	9	1	1	0	0	0	1	0	2	1	2	1	2	2	2	4	2	2	5	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:131859587G>A	uc003vra.3	-	21	4196	c.3967C>T	c.(3967-3969)CGG>TGG	p.R1323W		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1323	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						AACAGCACCCGCATGGTGTAA	0.512													21	95					0	0	0.010504	0	0		A	131859587	A	A	131859587	3	1	11	1	0	0	0	0	1	0	0	0	12141	1086	38	1	1765	1	PLXNA4	7	131859587	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1851232	131859587	27279076	461	8853											
NUP205	23165	broad.mit.edu	37	chr7	135301989	135301989	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggacagacagtctgcaaTgtcaaggtgaggattgcttt	10	10	14	7	1	2	2	1	1	1	1	2	4	2	4	0	4	2	2	0	4	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:135301989T>C	uc003vsw.2	+	26	3715	c.3684T>C	c.(3682-3684)AAT>AAC	p.N1228N	NUP205_uc003vsx.2_5'Flank	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1228					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						CAGTCTGCAATGTCAAGGTGA	0.403													20	87					0	0	0.00333	0	0		C	135301989	C	C	135301989	2	2	11	1	0	0	0	0	0	0	0	1	10778	1461	51	3		3	NUP205	7	135301989	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	3442402	135301989	23836674	462	8854											
KIAA1549	57670	broad.mit.edu	37	chr7	138603265	138603265	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagttggtgaagcagaggaCgcaaatgcaagaggagttga	14	7	15	5	1	1	4	1	2	0	2	1	6	1	6	0	3	2	5	0	3	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:138603265C>T	uc011kql.1	-	2	1156	c.1107G>A	c.(1105-1107)GCG>GCA	p.A369A	KIAA1549_uc003vuk.3_Silent_p.A319A|KIAA1549_uc011kqj.1_Silent_p.A369A	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	369						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						AAGCAGAGGACGCAAATGCAA	0.512			O	BRAF	pilocytic astrocytoma								14	136					0	0	0.00499	0	0		T	138603265	T	T	138603265	2	4	11	1	0	0	0	0	0	0	0	1	8260	523	19	1		1	KIAA1549	7	138603265	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3301276	138603265	20535398	463	8855											
HIPK2	28996	broad.mit.edu	37	chr7	139416405	139416405	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctcctcgatgatctgcacGctgcttgtgttctcgatctc	4	15	9	13	3	3	1	0	1	3	0	7	3	4	1	1	0	3	5	1	0	0	2	rs113824554		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:139416405G>A	uc003vvf.3	-	2	603	c.429C>T	c.(427-429)AGC>AGT	p.S143S	HIPK2_uc003vvd.3_Silent_p.S143S	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	143	Transcriptional corepression (By similarity).				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					TGATCTGCACGCTGCTTGTGT	0.532													9	50					0	0	0.006214	0	0		A	139416405	A	A	139416405	2	1	11	1	0	0	0	0	0	0	0	1	7133	1078	38	1		1	HIPK2	7	139416405	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	813140	139416405	19722258	464	8856											
EPHA1	2041	broad.mit.edu	37	chr7	143096842	143096842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcagggctgcagtgcatgCggggtgcacctgagggcctg	6	7	17	11	1	1	1	1	1	0	0	1	1	1	1	2	4	4	4	2	4	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:143096842C>T	uc003wcz.2	-	4	824	c.737G>A	c.(736-738)CGC>CAC	p.R246H		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	246	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				GCAGTGCATGCGGGGTGCACC	0.667													4	19					0	0	0.000602	0	0		T	143096842	T	T	143096842	3	4	11	1	0	0	0	0	1	0	0	0	5173	768	27	1	2253	1	EPHA1	7	143096842	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3680437	143096842	16041821	465	8857											
OR2F2	135948	broad.mit.edu	37	chr7	143632553	143632553	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgtctcctatgccacaagCgtagtcccccagctgctggc	7	9	10	15	1	1	0	0	0	1	0	3	1	2	0	4	1	4	3	4	1	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:143632553C>T	uc011ktv.1	+	1	228	c.228C>T	c.(226-228)AGC>AGT	p.S76S		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	76	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					ATGCCACAAGCGTAGTCCCCC	0.517													20	208					0	0	0.010818	0	0		T	143632553	T	T	143632553	2	4	11	1	0	0	0	0	0	0	0	1	11016	767	27	1		1	OR2F2	7	143632553	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	535711	143632553	15506110	466	8858											
OR2F2	135948	broad.mit.edu	37	chr7	143632955	143632955	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgttcttctgatgacaccTttctgcctggttctgttgtc	4	19	8	10	0	4	2	0	2	4	0	5	2	4	2	2	1	1	3	2	1	0	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:143632955T>C	uc011ktv.1	+	1	630	c.630T>C	c.(628-630)CCT>CCC	p.P210P		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					TGATGACACCTTTCTGCCTGG	0.507													9	80					0	0	0.008291	0	0		C	143632955	C	C	143632955	2	2	11	1	0	0	0	0	0	0	0	1	11016	1596	56	3		3	OR2F2	7	143632955	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	402	143632955	15505708	467	8859											
OR2F1	26211	broad.mit.edu	37	chr7	143657708	143657708	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacccttctgcctggttctTttgtcctacatccagatcat	7	15	5	14	0	3	1	1	0	2	1	5	1	5	1	4	1	2	1	4	1	1	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:143657708T>G	uc003wds.1	+	1	689	c.645T>G	c.(643-645)CTT>CTG	p.L215L		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					GCCTGGTTCTTTTGTCCTACA	0.498													8	110					0	0	0.004482	0	0		G	143657708	G	G	143657708	2	3	11	1	0	0	0	0	0	0	0	1	11015	1828	64	5		5	OR2F1	7	143657708	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	24753	143657708	15480955	468	8860											
OR2A2	442361	broad.mit.edu	37	chr7	143806951	143806951	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagaaaagaaccatctcCtttgttccatgcataatgca	15	10	5	11	0	1	2	0	0	1	2	3	2	2	2	4	0	4	3	4	0	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:143806951C>A	uc011ktz.1	+	1	276	c.276C>A	c.(274-276)TCC>TCA	p.S92S		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					GAACCATCTCCTTTGTTCCAT	0.423													26	154					1.75199e-13	2.04086e-13	0.007291	1	0		A	143806951	A	A	143806951	2	1	11	1	0	0	0	0	0	0	0	1	10996	668	24	5		5	OR2A2	7	143806951	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	149243	143806951	15331712	469	8861											
ARHGEF5	7984	broad.mit.edu	37	chr7	144070331	144070331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccagagtatgcgacggaCagaggaactaatctacctga	13	8	11	9	2	1	3	0	1	1	2	2	6	2	5	2	2	3	1	2	2	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:144070331C>T	uc003wel.2	+	10	4212	c.4094C>T	c.(4093-4095)ACA>ATA	p.T1365I	ARHGEF5_uc003wek.2_Missense_Mutation_p.T1365I|ARHGEF5_uc003wem.2_Missense_Mutation_p.T220I	NM_005435	NP_005426	Q12774	ARHG5_HUMAN	rho guanine nucleotide exchange factor 5	1365					intracellular signal transduction|regulation of Rho protein signal transduction	intracellular	GTP binding|protein binding|Rho guanyl-nucleotide exchange factor activity			skin(2)	2	Melanoma(164;0.14)					ATGCGACGGACAGAGGAACTA	0.517													8	48					0	0	0.008291	0	0		T	144070331	T	T	144070331	3	4	11	1	0	0	0	0	1	0	0	0	909	478	17	4	4128	4	ARHGEF5	7	144070331	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	263380	144070331	15068332	470	8862											
EZH2	2146	broad.mit.edu	37	chr7	148507436	148507436	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaacataccattgttcaagTtgaacagaaagctgcacatg	16	9	8	8	0	1	2	1	1	0	1	1	3	1	2	1	0	5	4	1	0	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:148507436T>C	uc003wfd.1	-	17	2169	c.2003A>G	c.(2002-2004)AAC>AGC	p.N668S	EZH2_uc011kug.1_Missense_Mutation_p.N617S|EZH2_uc003wfb.1_Missense_Mutation_p.N673S|EZH2_uc003wfc.1_Missense_Mutation_p.N629S|EZH2_uc011kuh.1_Missense_Mutation_p.N659S	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	668	SET.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			ATTGTTCAAGTTGAACAGAAA	0.438			Mis		DLBCL								3	69					0	0	0.009096	0	0		C	148507436	C	C	148507436	3	2	11	1	0	0	0	0	1	0	0	0	5342	1725	60	3	253	3	EZH2	7	148507436	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	4437105	148507436	10631227	471	8863											
ZNF398	57541	broad.mit.edu	37	chr7	148851131	148851131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacacctgcagacagcagCtatctctctgtggacagtgg	9	8	12	12	0	2	1	0	0	2	1	3	2	2	2	1	3	3	4	1	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:148851131C>T	uc003wfl.2	+	2	394	c.119C>T	c.(118-120)GCT>GTT	p.A40V	ZNF398_uc011kul.1_5'UTR|ZNF398_uc011kum.1_Missense_Mutation_p.A45V	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	40					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			CAGACAGCAGCTATCTCTCTG	0.587													16	38					0	0	0.006122	0	0		T	148851131	T	T	148851131	3	4	11	1	0	0	0	0	1	0	0	0	17910	797	28	2	125	2	ZNF398	7	148851131	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	343695	148851131	10287532	472	8864											
ABP1	26	broad.mit.edu	37	chr7	150554063	150554063	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcatcagttcttcctcaatAccacaggcttctcattccaa	10	13	4	14	0	4	0	3	0	2	0	7	0	6	0	3	1	2	3	3	1	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:150554063A>G	uc003why.1	+	3	4723	c.505A>G	c.(505-507)ACC>GCC	p.T169A	ABP1_uc003whz.1_Missense_Mutation_p.T169A|ABP1_uc003wia.1_Missense_Mutation_p.T169A	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	169					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	CTTCCTCAATACCACAGGCTT	0.602													13	51					0	0	0.00499	0	0		G	150554063	G	G	150554063	3	3	11	1	0	0	0	0	1	0	0	0	98	391	14	3	507	3	ABP1	7	150554063	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1702932	150554063	8584600	473	8865											
ABP1	26	broad.mit.edu	37	chr7	150554734	150554734	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccccggcatcgactgcccGgagaccgccaccttcctgga	6	5	11	19	4	0	1	0	0	0	1	2	4	1	2	7	3	1	1	7	3	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:150554734G>A	uc003why.1	+	3	5394	c.1176G>A	c.(1174-1176)CCG>CCA	p.P392P	ABP1_uc003whz.1_Silent_p.P392P|ABP1_uc003wia.1_Silent_p.P392P	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	392					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	TCGACTGCCCGGAGACCGCCA	0.607													11	47					0	0	0.013537	0	0		A	150554734	A	A	150554734	2	1	11	1	0	0	0	0	0	0	0	1	98	1103	39	1		1	ABP1	7	150554734	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	671	150554734	8583929	474	8866											
ASB10	136371	broad.mit.edu	37	chr7	150883498	150883498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagggtgccaggcccccGgcagagatgcagggggcgtt	7	5	17	12	2	1	1	1	0	0	1	1	2	1	1	3	5	2	3	3	5	1	1	rs104886473	by1000genomes	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:150883498G>A	uc003wjm.1	-	2	826	c.700C>T	c.(700-702)CGG>TGG	p.R234W	ASB10_uc003wjl.1_Missense_Mutation_p.R234W|ASB10_uc003wjn.1_Missense_Mutation_p.R174W	NM_001142459	NP_001135931	Q8WXI3	ASB10_HUMAN	ankyrin repeat and SOCS box-containing 10	189	ANK 3.				intracellular signal transduction						0			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CCAGGCCCCCGGCAGAGATGC	0.622													3	2					0	0	0.004672	0	0		A	150883498	A	A	150883498	3	1	11	1	0	0	0	0	1	0	0	0	1015	1115	39	1	854	1	ASB10	7	150883498	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	328764	150883498	8255165	475	8867											
MLL3	58508	broad.mit.edu	37	chr7	151860524	151860524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcaaattctacccgaggtgGtggtccactctgtggatttg	8	13	11	9	1	3	0	1	0	2	0	4	2	4	1	2	4	1	0	2	4	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:151860524G>A	uc003wla.2	-	43	10357	c.10138C>T	c.(10138-10140)CCA>TCA	p.P3380S	MLL3_uc003wkz.2_Missense_Mutation_p.P2441S|MLL3_uc003wky.2_Missense_Mutation_p.P889S	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3380	Gln-rich.|Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACCCGAGGTGGTGGTCCACTC	0.458			N		medulloblastoma								21	85					0	0	0.00278	0	0		A	151860524	A	A	151860524	3	1	11	1	0	0	0	0	1	0	0	0	9640	1261	44	4	4665	4	MLL3	7	151860524	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	977026	151860524	7278139	476	8868											
MLL3	58508	broad.mit.edu	37	chr7	151962206	151962206	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatatccaggcacattccAtgatagtgctgaccacaagt	12	10	8	11	0	0	2	0	2	0	0	2	2	2	2	3	1	1	3	3	1	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr7:151962206A>G	uc003wla.2	-	8	1320	c.1101T>C	c.(1099-1101)CAT>CAC	p.H367H		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	367	PHD-type 1.|RING-type.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGCACATTCCATGATAGTGCT	0.443			N		medulloblastoma								9	506					0	0	0.006214	0	0		G	151962206	G	G	151962206	2	3	11	1	0	0	0	0	0	0	0	1	9640	214	8	3		3	MLL3	7	151962206	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	101682	151962206	7176457	477	8869											
CSMD1	64478	broad.mit.edu	37	chr8	2820754	2820754	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagaacttacggagacactgGgggatctctcctttccacac	10	10	9	12	1	1	2	0	0	1	2	4	4	3	3	2	3	2	0	2	3	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:2820754G>A	uc011kwk.1	-	60	9837	c.9447C>T	c.(9445-9447)CCC>CCT	p.P3149P	CSMD1_uc011kwj.1_Silent_p.P2478P|CSMD1_uc010lrg.2_Silent_p.P1040P	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3149	Sushi 25.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GGAGACACTGGGGGATCTCTC	0.552													19	88					0	0	0.012319	0	0		A	2820754	A	A	2820754	2	1	11	1	0	0	0	0	0	0	0	1	3947	1219	43	4		4	CSMD1	8	2820754	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08		2820754	143543268	478	8870											
CSMD1	64478	broad.mit.edu	37	chr8	2830689	2830689	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccattgagcaaacacgtgCgttcaggggagcccctcagc	10	6	11	14	2	2	1	2	1	0	0	2	2	2	2	3	2	5	2	3	2	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:2830689C>T	uc011kwk.1	-	57	9266	c.8876G>A	c.(8875-8877)CGC>CAC	p.R2959H	CSMD1_uc011kwj.1_Missense_Mutation_p.R2288H|CSMD1_uc010lrg.2_Missense_Mutation_p.R969H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2959	Extracellular (Potential).|Sushi 22.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CAAACACGTGCGTTCAGGGGA	0.542													7	80					0	0	0.004482	0	0		T	2830689	T	T	2830689	3	4	11	1	0	0	0	0	1	0	0	0	3947	768	27	1	1877	1	CSMD1	8	2830689	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	9935	2830689	143533333	479	8871											
MCPH1	79648	broad.mit.edu	37	chr8	6338243	6338243	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgatttgacagaaagcagaAtgtcgtcatccaggttgtgg	11	10	12	8	2	1	3	1	1	0	2	3	4	2	3	2	2	1	2	2	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:6338243A>G	uc003wqi.2	+	11	2050	c.1982A>G	c.(1981-1983)AAT>AGT	p.N661S		NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	661	BRCT 2.					microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		AGAAAGCAGAATGTCGTCATC	0.423													17	112					0	0	0.008871	0	0		G	6338243	G	G	6338243	3	3	11	1	0	0	0	0	1	0	0	0	9416	101	4	3	2032	3	MCPH1	8	6338243	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	3507554	6338243	140025779	480	8872											
XKR6	286046	broad.mit.edu	37	chr8	10755778	10755778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcgtaacctgggtccccCggtacccagggatctcaggc	6	7	14	14	2	1	0	1	0	1	0	3	1	2	1	4	5	2	2	4	5	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:10755778C>T	uc003wtk.1	-	3	1637	c.1610G>A	c.(1609-1611)CGG>CAG	p.R537Q		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	537						integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		CTGGGTCCCCCGGTACCCAGG	0.617													4	29					0	0	0.001168	0	0		T	10755778	T	T	10755778	3	4	11	1	0	0	0	0	1	0	0	0	17461	652	23	1	319	1	XKR6	8	10755778	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4417535	10755778	135608244	481	8873											
GATA4	2626	broad.mit.edu	37	chr8	11614510	11614510	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caactccagcaacgccaccaCcagcagcagcgaggagatgc	13	2	10	16	2	0	1	0	0	0	1	1	3	1	1	4	1	7	3	4	1	2	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:11614510C>G	uc003wuc.2	+	6	1618	c.1064C>G	c.(1063-1065)ACC>AGC	p.T355S	GATA4_uc003wub.1_Missense_Mutation_p.T149S|GATA4_uc011kxc.1_Missense_Mutation_p.T356S	NM_002052	NP_002043	P43694	GATA4_HUMAN	GATA binding protein 4	355					atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)		AACGCCACCACCAGCAGCAGC	0.622													8	48					0	0	0.013537	0	0		G	11614510	G	G	11614510	3	3	11	1	0	0	0	0	1	0	0	0	6271	507	18	5	1082	5	GATA4	8	11614510	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	858732	11614510	134749512	482	8874											
NEIL2	252969	broad.mit.edu	37	chr8	11637250	11637250	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggtcggggagcccagcggGcagaagacccttgatggatc	9	5	16	11	2	0	3	0	1	0	2	2	5	0	5	2	5	2	1	2	5	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:11637250G>A	uc003wug.2	+	3	957	c.282G>A	c.(280-282)GGG>GGA	p.G94G	NEIL2_uc003wue.2_Silent_p.G94G|NEIL2_uc003wuf.2_Silent_p.G33G|NEIL2_uc011kxd.1_Intron	NM_145043	NP_659480	Q969S2	NEIL2_HUMAN	nei like 2 isoform a	94					base-excision repair|nucleotide-excision repair	nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|hydrolase activity, hydrolyzing N-glycosyl compounds|zinc ion binding				0	all_epithelial(15;0.103)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.166)		AGCCCAGCGGGCAGAAGACCC	0.612								BER_DNA_glycosylases					12	46					0	0	0.00499	0	0		A	11637250	A	A	11637250	2	1	11	1	0	0	0	0	0	0	0	1	10338	1190	42	2		2	NEIL2	8	11637250	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	22740	11637250	134726772	483	8875											
C8orf79	57604	broad.mit.edu	37	chr8	12878931	12878931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacattaggaaaatcgtttcGttcctggtttttctccagat	9	16	7	9	2	1	1	0	0	1	1	5	2	2	2	2	2	0	3	2	2	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:12878931G>A	uc010lsq.2	+	5	1235	c.743G>A	c.(742-744)CGT>CAT	p.R248H	C8orf79_uc011kxw.1_Intron|C8orf79_uc003wwj.3_Missense_Mutation_p.R161H|C8orf79_uc010lsr.2_Missense_Mutation_p.R122H	NM_020844	NP_065895	Q9P272	K1456_HUMAN	hypothetical protein LOC57604 isoform 1	248							methyltransferase activity				0						AAATCGTTTCGTTCCTGGTTT	0.413													23	126					0	0	0.00278	0	0		A	12878931	A	A	12878931	3	1	11	1	0	0	0	0	1	0	0	0	2441	1145	40	1	753	1	C8orf79	8	12878931	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1241681	12878931	133485091	484	8876											
STC1	6781	broad.mit.edu	37	chr8	23709885	23709885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagagcactgttgaggcaaCgaaccacttcagctgaaaga	14	7	11	9	1	1	4	1	2	0	2	1	5	1	4	1	1	4	5	1	1	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:23709885C>T	uc003xdw.1	-	2	415	c.131G>A	c.(130-132)CGT>CAT	p.R44H		NM_003155	NP_003146	P52823	STC1_HUMAN	stanniocalcin 1 precursor	44					cell surface receptor linked signaling pathway|cell-cell signaling|cellular calcium ion homeostasis		hormone activity	p.R44C(1)		skin(3)|upper_aerodigestive_tract(1)	4		Prostate(55;0.055)|Breast(100;0.116)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		GTTGAGGCAACGAACCACTTC	0.502													8	87					0	0	0.008291	0	0		T	23709885	T	T	23709885	3	4	11	1	0	0	0	0	1	0	0	0	15300	536	19	1	624	1	STC1	8	23709885	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	10830954	23709885	122654137	485	8877											
FZD3	7976	broad.mit.edu	37	chr8	28413394	28413394	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccatgcttcttcaactcagCtggctatggtggatgatcaa	9	12	9	11	0	4	1	3	1	1	0	4	2	4	2	1	3	3	3	1	3	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:28413394C>T	uc003xgx.2	+	7	2171	c.1693C>T	c.(1693-1695)CTG>TTG	p.L565L	FZD3_uc010lvb.2_Silent_p.L565L	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	565	Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		TTCAACTCAGCTGGCTATGGT	0.493													11	66					0	0	0.008291	0	0		T	28413394	T	T	28413394	2	4	11	1	0	0	0	0	0	0	0	1	6145	796	28	2		2	FZD3	8	28413394	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4703509	28413394	117950628	486	8878											
C8orf41	80185	broad.mit.edu	37	chr8	33367337	33367337	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgatagtcatctgaaatgAccaatgatgcgggaagtacc	13	10	10	8	1	3	4	1	4	2	0	3	5	3	5	2	1	2	1	2	1	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:33367337A>G	uc003xjl.3	-	2	1286	c.761T>C	c.(760-762)GTC>GCC	p.V254A	C8orf41_uc003xjk.3_Missense_Mutation_p.V254A|C8orf41_uc010lvv.2_Missense_Mutation_p.V254A|C8orf41_uc003xjm.3_Missense_Mutation_p.V254A|C8orf41_uc003xjn.1_Missense_Mutation_p.V254A	NM_025115	NP_079391	Q6NXR4	CH041_HUMAN	hypothetical protein LOC80185	254							binding				0				KIRC - Kidney renal clear cell carcinoma(67;0.0923)|Kidney(114;0.111)		ATCTGAAATGACCAATGATGC	0.473													12	88					0	0	0.00245	0	0		G	33367337	G	G	33367337	3	3	11	1	0	0	0	0	1	0	0	0	2430	275	10	3	789	3	C8orf41	8	33367337	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	4953943	33367337	112996685	487	8879											
WHSC1L1	54904	broad.mit.edu	37	chr8	38139077	38139077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcatcaattaattcacCgacgtattcatttacaaatt	13	17	2	9	2	5	0	4	0	1	0	5	1	5	0	1	0	1	1	1	0	5	9			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:38139077C>T	uc003xli.2	-	20	4044	c.3526G>A	c.(3526-3528)GGT>AGT	p.G1176S	WHSC1L1_uc011lbm.1_Missense_Mutation_p.G1176S|WHSC1L1_uc010lwe.2_Missense_Mutation_p.G1127S|WHSC1L1_uc003xlh.2_5'Flank	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1176	SET.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			ATTAATTCACCGACGTATTCA	0.323			T	NUP98	AML								6	35					0	0	0.004482	0	0		T	38139077	T	T	38139077	3	4	11	1	0	0	0	0	1	0	0	0	17389	652	23	1	807	1	WHSC1L1	8	38139077	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4771740	38139077	108224945	488	8880											
ANK1	286	broad.mit.edu	37	chr8	41525866	41525866	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctccggtccctgtcggcctgGgagctctcagcctcgggctg	2	9	14	16	3	1	0	1	0	1	0	6	1	3	1	4	4	2	2	4	4	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:41525866G>T	uc003xok.2	-	39	5397	c.5313C>A	c.(5311-5313)TCC>TCA	p.S1771S	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Silent_p.S925S|ANK1_uc003xoi.2_Silent_p.S1771S|ANK1_uc003xoj.2_Silent_p.S1771S|ANK1_uc003xol.2_Silent_p.S1609S|ANK1_uc003xom.2_Silent_p.S1812S	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1771	55 kDa regulatory domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TGTCGGCCTGGGAGCTCTCAG	0.617													8	57					1.12685e-05	1.23868e-05	0.004482	1	0		T	41525866	T	T	41525866	2	4	11	1	0	0	0	0	0	0	0	1	620	1219	43	5		5	ANK1	8	41525866	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3386789	41525866	104838156	489	8881											
SGK196	84197	broad.mit.edu	37	chr8	42958705	42958705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtcaacatggaaaagcagcCccagaacagcaggagaggcc	15	2	12	12	1	1	2	1	0	0	2	1	4	1	3	3	3	5	2	3	3	4	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:42958705C>T	uc003xpw.2	+	4	273	c.14C>T	c.(13-15)CCC>CTC	p.P5L		NM_032237	NP_115613	Q9H5K3	SG196_HUMAN	protein kinase-like protein SgK196	5						integral to membrane	ATP binding|protein kinase activity				0						GAAAAGCAGCCCCAGAACAGC	0.512													15	106					0	0	0.00499	0	0		T	42958705	T	T	42958705	3	4	11	1	0	0	0	0	1	0	0	0	14233	623	22	4	16	4	SGK196	8	42958705	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1432839	42958705	103405317	490	8882											
PRKDC	5591	broad.mit.edu	37	chr8	48706944	48706944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggataaacaatagcctgcGggtagttatcagtgatttct	12	12	11	6	1	2	1	1	1	1	0	2	2	2	2	1	2	3	2	1	2	6	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:48706944G>A	uc003xqi.2	-	75	10634	c.10577C>T	c.(10576-10578)CCG>CTG	p.P3526L	PRKDC_uc003xqj.2_Missense_Mutation_p.P3526L|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3526	FAT.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AATAGCCTGCGGGTAGTTATC	0.458								NHEJ					5	42					0	0	0.001984	0	0		A	48706944	A	A	48706944	3	1	11	1	0	0	0	0	1	0	0	0	12543	1116	39	1	1861	1	PRKDC	8	48706944	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	5748239	48706944	97657078	491	8883											
ATP6V1H	51606	broad.mit.edu	37	chr8	54730032	54730032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggcagaaagtagggccacGcagtgttcttgctacatctt	9	12	11	9	1	2	1	0	0	2	1	2	1	2	1	1	2	2	5	1	2	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:54730032G>A	uc003xrl.2	-	5	517	c.365C>T	c.(364-366)GCG>GTG	p.A122V	ATP6V1H_uc003xrk.2_Missense_Mutation_p.A82V|ATP6V1H_uc003xrm.2_Missense_Mutation_p.A122V|ATP6V1H_uc003xrn.2_Missense_Mutation_p.A122V|ATP6V1H_uc011ldv.1_Missense_Mutation_p.A42V|ATP6V1H_uc010lyd.2_Missense_Mutation_p.A58V	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	122					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)			GTAGGGCCACGCAGTGTTCTT	0.338													9	52					0	0	0.013537	0	0		A	54730032	A	A	54730032	3	1	11	1	0	0	0	0	1	0	0	0	1190	1087	38	1	1126	1	ATP6V1H	8	54730032	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	6023088	54730032	91633990	492	8884											
SOX17	64321	broad.mit.edu	37	chr8	55372486	55372486	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaatctccccgacagccaCggggccatttcctcggtggt	6	9	12	14	3	1	1	0	1	1	0	4	2	2	1	5	4	1	0	5	4	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:55372486C>T	uc003xsb.3	+	2	1380	c.1176C>T	c.(1174-1176)CAC>CAT	p.H392H		NM_022454	NP_071899	Q9H6I2	SOX17_HUMAN	SRY-box 17	392	Sox C-terminal.				angiogenesis|cardiac cell fate determination|endocardial cell differentiation|endocardium formation|endoderm formation|heart formation|heart looping|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|outflow tract morphogenesis|positive regulation of transcription, DNA-dependent|protein destabilization|protein stabilization|regulation of embryonic development|renal system development|vasculogenesis|Wnt receptor signaling pathway	transcription factor complex	beta-catenin binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			lung(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.176)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;1.9e-07)|Epithelial(17;1.7e-05)|all cancers(17;0.000159)			CCGACAGCCACGGGGCCATTT	0.607													6	24					0	0	0.006214	0	0		T	55372486	T	T	55372486	2	4	11	1	0	0	0	0	0	0	0	1	14972	535	19	1		1	SOX17	8	55372486	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	642454	55372486	90991536	493	8885											
RP1	6101	broad.mit.edu	37	chr8	55540063	55540063	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagacatggttccaatagaTctttctgcaaattgttccac	12	13	6	10	0	2	2	0	0	2	2	4	2	4	2	2	1	1	3	2	1	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:55540063T>C	uc003xsd.1	+	4	3769	c.3621T>C	c.(3619-3621)GAT>GAC	p.D1207D	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1207					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TTCCAATAGATCTTTCTGCAA	0.428													25	119					0	0	0.00333	0	0		C	55540063	C	C	55540063	2	2	11	1	0	0	0	0	0	0	0	1	13557	1432	50	3		3	RP1	8	55540063	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	167577	55540063	90823959	494	8886											
CYP7A1	1581	broad.mit.edu	37	chr8	59404099	59404099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggcaaaatgcccaagcctgCccgggactggtccaaaggtg	10	5	13	13	2	0	0	0	0	0	0	1	1	1	1	4	4	3	1	4	4	4	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:59404099C>T	uc003xtm.3	-	6	1513	c.1450G>A	c.(1450-1452)GCA>ACA	p.A484T		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	484					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				CCCAAGCCTGCCCGGGACTGG	0.383									Neonatal_Giant_Cell_Hepatitis				4	33					0	0	0.009096	0	0		T	59404099	T	T	59404099	3	4	11	1	0	0	0	0	1	0	0	0	4199	739	26	2	68	2	CYP7A1	8	59404099	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3864036	59404099	86959923	495	8887											
CHD7	55636	broad.mit.edu	37	chr8	61743037	61743037	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccttgagaagaatttcAcatttctttccaaaggcggt	11	13	7	10	1	2	2	1	1	1	2	4	3	4	2	3	2	0	0	3	2	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:61743037A>G	uc003xue.2	+	15	4156	c.3679A>G	c.(3679-3681)ACA>GCA	p.T1227A		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1227					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GAAGAATTTCACATTTCTTTC	0.393													18	129					0	0	0.012319	0	0		G	61743037	G	G	61743037	3	3	11	1	0	0	0	0	1	0	0	0	3333	159	6	3	3733	3	CHD7	8	61743037	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	2338938	61743037	84620985	496	8888											
ARMC1	55156	broad.mit.edu	37	chr8	66517566	66517566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggttgatgctattgctgatgCcaaagcctaagccaagataa	13	10	10	8	0	0	3	0	2	0	1	0	3	0	3	3	1	5	3	3	1	5	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:66517566C>T	uc003xvl.2	-	6	824	c.589G>A	c.(589-591)GCA>ACA	p.A197T	ARMC1_uc011leo.1_Missense_Mutation_p.A95T	NM_018120	NP_060590	Q9NVT9	ARMC1_HUMAN	armadillo repeat-containing protein	197					metal ion transport		metal ion binding			skin(1)	1			Epithelial(68;0.103)|OV - Ovarian serous cystadenocarcinoma(28;0.235)			ATTGCTGATGCCAAAGCCTAA	0.333													9	69					0	0	0.006214	0	0		T	66517566	T	T	66517566	3	4	11	1	0	0	0	0	1	0	0	0	950	739	26	2	267	2	ARMC1	8	66517566	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4774529	66517566	79846456	497	8889											
ADHFE1	137872	broad.mit.edu	37	chr8	67364208	67364208	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatgccctggagtcatacaCcaccctgccctaccacctgc	8	7	6	20	0	1	0	1	0	0	0	1	1	1	1	7	1	5	0	7	1	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:67364208C>A	uc003xwb.3	+	9	789	c.755C>A	c.(754-756)ACC>AAC	p.T252N	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Missense_Mutation_p.T204N|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_RNA|ADHFE1_uc011les.1_Missense_Mutation_p.T182N|ADHFE1_uc011leq.1_RNA|ADHFE1_uc011ler.1_RNA	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	252					2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			GAGTCATACACCACCCTGCCC	0.522													10	60					6.40141e-05	6.9606e-05	0.010729	1	0		A	67364208	A	A	67364208	3	1	11	1	0	0	0	0	1	0	0	0	314	507	18	5	789	5	ADHFE1	8	67364208	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	846642	67364208	78999814	498	8890											
PREX2	80243	broad.mit.edu	37	chr8	69104648	69104648	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccaagcgcacagctgccTgtgcaaacacagcttgcagt	11	7	10	13	1	0	0	0	0	0	0	1	1	1	0	2	0	7	5	2	0	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:69104648T>C	uc003xxv.1	+	37	4519	c.4492T>C	c.(4492-4494)TGT>CGT	p.C1498R		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1498					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CACAGCTGCCTGTGCAAACAC	0.527													4	30					0	0	0.001168	0	0		C	69104648	C	C	69104648	3	2	11	1	0	0	0	0	1	0	0	0	12499	1580	55	3	4867	3	PREX2	8	69104648	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1740440	69104648	77259374	499	8891											
TRAM1	23471	broad.mit.edu	37	chr8	71495964	71495964	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaggccaaaaccaacagTcagtactgaaagaattaaag	19	6	8	8	0	1	2	1	1	0	1	1	2	1	2	2	1	4	2	2	1	9	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:71495964T>A	uc003xyo.1	-	9	981	c.811A>T	c.(811-813)ACT>TCT	p.T271S	TRAM1_uc011lfc.1_Missense_Mutation_p.T240S	NM_014294	NP_055109	Q15629	TRAM1_HUMAN	translocation associated membrane protein 1	271	Helical; (Potential).|TLC.				cotranslational protein targeting to membrane|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity			ovary(1)	1			Epithelial(68;0.00679)|all cancers(69;0.0324)|OV - Ovarian serous cystadenocarcinoma(28;0.0509)			AAACCAACAGTCAGTACTGAA	0.373													33	228					0	0	0.00623	0	0		A	71495964	A	A	71495964	3	1	11	1	0	0	0	0	1	0	0	0	16477	1667	58	5	325	5	TRAM1	8	71495964	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2391316	71495964	74868058	500	8892											
KCNB2	9312	broad.mit.edu	37	chr8	73849496	73849496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcagatgaagttcccaaccGacctcccagggacagaagag	13	5	11	12	1	0	4	0	1	0	3	2	6	2	5	4	1	2	2	4	1	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:73849496G>A	uc003xzb.2	+	3	2494	c.1906G>A	c.(1906-1908)GAC>AAC	p.D636N		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	636	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			GTTCCCAACCGACCTCCCAGG	0.597													8	79					0	0	0.001855	0	0		A	73849496	A	A	73849496	3	1	11	1	0	0	0	0	1	0	0	0	8029	1058	37	1	1912	1	KCNB2	8	73849496	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2353532	73849496	72514526	501	8893											
ZFHX4	79776	broad.mit.edu	37	chr8	77767139	77767139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatacacgagcgcgggagaGgaaaggccagttccgggcgg	11	3	18	9	5	0	1	0	0	0	1	1	5	1	2	2	5	2	1	2	5	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:77767139G>A	uc003yav.2	+	10	8234	c.7847G>A	c.(7846-7848)AGG>AAG	p.R2616K	ZFHX4_uc003yau.1_Missense_Mutation_p.R2661K|ZFHX4_uc003yaw.1_Missense_Mutation_p.R2616K	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2616	Homeobox 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GCGCGGGAGAGGAAAGGCCAG	0.522										HNSCC(33;0.089)			8	51					0	0	0.004482	0	0		A	77767139	A	A	77767139	3	1	11	1	0	0	0	0	1	0	0	0	17660	1000	35	4	8016	4	ZFHX4	8	77767139	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3917643	77767139	68596883	502	8894											
CNBD1	168975	broad.mit.edu	37	chr8	87951921	87951921	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcacatggtggccatattTtatatagaccaaaaagagcc	15	9	9	8	0	0	2	0	0	0	2	0	3	0	2	3	2	2	1	3	2	6	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:87951921T>G	uc003ydy.2	+	4	418	c.370T>G	c.(370-372)TTA>GTA	p.L124V		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	124										ovary(3)	3						TGGCCATATTTTATATAGACC	0.338													9	55					0	0	0.001855	0	0		G	87951921	G	G	87951921	3	3	11	1	0	0	0	0	1	0	0	0	3594	1838	64	5	384	5	CNBD1	8	87951921	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	10184782	87951921	58412101	503	8895											
NBN	4683	broad.mit.edu	37	chr8	90990491	90990491	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttggactcaactgctttcaGgaattcagtaaaatattctg	12	14	7	8	0	4	0	3	0	1	0	4	2	4	2	0	2	2	2	0	2	5	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:90990491G>T	uc003yej.1	-	5	651	c.541C>A	c.(541-543)CTG>ATG	p.L181M	NBN_uc003yei.1_Missense_Mutation_p.L99M|NBN_uc011lgb.1_Missense_Mutation_p.L181M	NM_002485	NP_002476	O60934	NBN_HUMAN	nibrin	181	BRCT.				cell cycle arrest|DNA damage response, signal transduction by p53 class mediator|DNA duplex unwinding|double-strand break repair via homologous recombination|meiosis|mitotic cell cycle G1/S transition checkpoint|mitotic cell cycle G2/M transition DNA damage checkpoint|positive regulation of kinase activity|positive regulation of protein autophosphorylation|regulation of DNA-dependent DNA replication initiation|telomere maintenance	Mre11 complex|nuclear chromosome, telomeric region|nuclear inclusion body|nucleolus|nucleoplasm	protein N-terminus binding|transcription factor binding			central_nervous_system(3)|kidney(3)|lung(1)	7			BRCA - Breast invasive adenocarcinoma(11;0.0344)			ACTGCTTTCAGGAATTCAGTA	0.313								Direct_reversal_of_damage|Homologous_recombination	Nijmegen_Breakage_syndrome				13	47					0.00136819	0.00146336	0.013537	1	0		T	90990491	T	T	90990491	3	4	11	1	0	0	0	0	1	0	0	0	10209	991	35	5	1771	5	NBN	8	90990491	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3038570	90990491	55373531	504	8896											
RUNX1T1	862	broad.mit.edu	37	chr8	92998448	92998448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctcggcgtcactgtaccGccggatccagtaattcaatt	8	11	9	13	4	2	0	2	0	0	0	5	1	4	1	4	2	1	2	4	2	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:92998448G>A	uc003yfd.2	-	8	1267	c.1183C>T	c.(1183-1185)CGG>TGG	p.R395W	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R368W|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R358W|RUNX1T1_uc010mao.2_Missense_Mutation_p.R368W|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R406W|RUNX1T1_uc010man.1_5'UTR|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R358W	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	395			R -> W (in a colorectal cancer sample; somatic mutation).		generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.R358W(1)		lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			TCACTGTACCGCCGGATCCAG	0.512													14	86					0	0	0.00245	0	0		A	92998448	A	A	92998448	3	1	11	1	0	0	0	0	1	0	0	0	13772	1086	38	1	647	1	RUNX1T1	8	92998448	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2007957	92998448	53365574	505	8897											
TSPYL5	85453	broad.mit.edu	37	chr8	98289167	98289167	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaccttattttggaaataCgggttgcgatcgaagtagaa	13	11	11	6	3	0	1	0	0	0	1	1	4	0	2	1	2	3	3	1	2	6	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:98289167C>T	uc003yhy.2	-	1	1010	c.906G>A	c.(904-906)CCG>CCA	p.P302P		NM_033512	NP_277047	Q86VY4	TSYL5_HUMAN	TSPY-like 5	302					cellular response to gamma radiation|nucleosome assembly|positive regulation of cell proliferation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|regulation of growth	nucleus	protein binding			large_intestine(1)|ovary(1)	2	Breast(36;2.56e-06)					TTTGGAAATACGGGTTGCGAT	0.488													11	77					0	0	0.008291	0	0		T	98289167	T	T	98289167	2	4	11	1	0	0	0	0	0	0	0	1	16688	523	19	1		1	TSPYL5	8	98289167	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5290719	98289167	48074855	506	8898											
KCNS2	3788	broad.mit.edu	37	chr8	99441361	99441361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtggtcccagggaccaCggcaggaaagctgactgcct	9	6	15	11	1	0	1	0	1	0	0	1	4	1	4	3	5	2	2	3	5	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:99441361C>T	uc003yin.2	+	2	1504	c.1154C>T	c.(1153-1155)ACG>ATG	p.T385M		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	385	Extracellular (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			CCAGGGACCACGGCAGGAAAG	0.597													10	59					0	0	0.013537	0	0		T	99441361	T	T	99441361	3	4	11	1	0	0	0	0	1	0	0	0	8105	536	19	1	1156	1	KCNS2	8	99441361	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1152194	99441361	46922661	507	8899											
VPS13B	157680	broad.mit.edu	37	chr8	100147902	100147902	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaattcattgtttgattacCgaagcccagaaaataatggt	15	12	7	7	1	1	2	1	1	0	1	1	3	1	2	2	1	2	1	2	1	6	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:100147902C>T	uc003yiv.2	+	11	1615	c.1504C>T	c.(1504-1506)CGA>TGA	p.R502*	VPS13B_uc003yiw.2_Nonsense_Mutation_p.R502*|VPS13B_uc003yit.2_Nonsense_Mutation_p.R502*|VPS13B_uc003yiu.1_Nonsense_Mutation_p.R502*|VPS13B_uc003yix.1_5'Flank	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	502					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			GTTTGATTACCGAAGCCCAGA	0.338													12	53					0	0	0.00245	0	0		T	100147902	T	T	100147902	4	4	11	1	0	0	0	0	0	1	0	0	17216	644	23	1	1584	1	VPS13B	8	100147902	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	706541	100147902	46216120	508	8900											
RGS22	26166	broad.mit.edu	37	chr8	101065081	101065081	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgggtcttaatggcaagagGgttgccatttgtggaaaagg	10	12	15	4	0	1	1	0	0	1	1	1	2	1	2	1	5	1	2	1	5	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:101065081G>T	uc003yjb.1	-	10	1833	c.1638C>A	c.(1636-1638)ACC>ACA	p.T546T	RGS22_uc003yja.1_Silent_p.T365T|RGS22_uc003yjc.1_Silent_p.T534T|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	546					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			ATGGCAAGAGGGTTGCCATTT	0.418													20	139					1.15919e-05	1.27316e-05	0.008871	1	0		T	101065081	T	T	101065081	2	4	11	1	0	0	0	0	0	0	0	1	13330	1219	43	5		5	RGS22	8	101065081	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	917179	101065081	45298941	509	8901											
UBR5	51366	broad.mit.edu	37	chr8	103293613	103293613	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatatgccacatgcttcAatgagcaaacatccaaaact	18	8	4	11	0	1	1	1	1	0	0	2	1	2	1	2	0	6	2	2	0	6	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:103293613A>G	uc003ykr.1	-	41	5864	c.5831T>C	c.(5830-5832)TTG>TCG	p.L1944S	UBR5_uc003yks.1_Missense_Mutation_p.L1944S	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1944					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			CACATGCTTCAATGAGCAAAC	0.393													20	124					0	0	0.008871	0	0		G	103293613	G	G	103293613	3	3	11	1	0	0	0	0	1	0	0	0	16931	131	5	3	2644	3	UBR5	8	103293613	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	2228532	103293613	43070409	510	8902											
ODF1	4956	broad.mit.edu	37	chr8	103572812	103572812	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggaaaggtatgtgtgtcGgctgagcgggagaacaggta	11	8	18	4	2	0	2	0	1	0	1	1	5	0	3	0	5	2	3	0	5	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:103572812G>A	uc003ykt.2	+	2	561	c.453G>A	c.(451-453)TCG>TCA	p.S151S		NM_024410	NP_077721	Q14990	ODFP1_HUMAN	outer dense fiber of sperm tails 1	151					cell differentiation|multicellular organismal development|spermatogenesis	outer dense fiber	structural molecule activity			ovary(2)	2	all_cancers(14;2.76e-05)|all_epithelial(15;4.54e-08)|Lung NSC(17;4.08e-05)|all_lung(17;9.15e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000125)|STAD - Stomach adenocarcinoma(118;0.0826)			TATGTGTGTCGGCTGAGCGGG	0.488													15	84					0	0	0.006122	0	0		A	103572812	A	A	103572812	2	1	11	1	0	0	0	0	0	0	0	1	10845	1103	39	1		1	ODF1	8	103572812	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	279199	103572812	42791210	511	8903											
ZFPM2	23414	broad.mit.edu	37	chr8	106813750	106813750	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctagcccaagacttgcCtcatctccagttcagcctaa	9	10	5	17	0	4	1	2	0	2	1	5	1	4	1	5	0	3	1	5	0	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:106813750C>A	uc003ymd.2	+	8	1463	c.1440C>A	c.(1438-1440)GCC>GCA	p.A480A	ZFPM2_uc011lhs.1_Silent_p.A211A	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	480					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			CAAGACTTGCCTCATCTCCAG	0.448													22	105					2.89027e-11	3.34595e-11	0.014323	1	0		A	106813750	A	A	106813750	2	1	11	1	0	0	0	0	0	0	0	1	17683	668	24	5		5	ZFPM2	8	106813750	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3240938	106813750	39550272	512	8904											
EIF3E	3646	broad.mit.edu	37	chr8	109215314	109215314	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatcacttgctgatagggTgagactgcattgttacccat	10	13	9	9	0	2	2	2	2	0	1	2	3	2	2	1	1	3	3	1	1	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:109215314T>C	uc003ymu.2	-	12	1225	c.1197A>G	c.(1195-1197)TCA>TCG	p.S399S	EIF3E_uc003ymt.2_Silent_p.S350S|EIF3E_uc003ymv.2_Silent_p.S306S	NM_001568	NP_001559	P60228	EIF3E_HUMAN	eukaryotic translation initiation factor 3,	399	Sufficient for interaction with MCM7.				negative regulation of translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|eukaryotic translation initiation factor 3 complex|PML body	protein N-terminus binding			ovary(2)|kidney(1)	3			OV - Ovarian serous cystadenocarcinoma(57;6.84e-10)			GCTGATAGGGTGAGACTGCAT	0.388													4	115					0	0	0.001168	0	0		C	109215314	C	C	109215314	2	2	11	1	0	0	0	0	0	0	0	1	5023	1683	59	3		3	EIF3E	8	109215314	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2401564	109215314	37148708	513	8905											
TRHR	7201	broad.mit.edu	37	chr8	110100047	110100047	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttggatgcctctgcattacTtacctccagtatttgggaat	8	15	9	9	0	1	0	0	0	1	0	2	2	2	2	3	2	4	3	3	2	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:110100047T>G	uc003ymz.3	+	1	322	c.306T>G	c.(304-306)ACT>ACG	p.T102T		NM_003301	NP_003292	P34981	TRFR_HUMAN	thyrotropin-releasing hormone receptor	102	Helical; Name=3; (Potential).					integral to plasma membrane	thyrotropin-releasing hormone receptor activity			skin(2)|lung(1)	3			OV - Ovarian serous cystadenocarcinoma(57;2.3e-11)			TCTGCATTACTTACCTCCAGT	0.468													13	95					0	0	0.00245	0	0		G	110100047	G	G	110100047	2	3	11	1	0	0	0	0	0	0	0	1	16506	1596	56	5		5	TRHR	8	110100047	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	884733	110100047	36263975	514	8906											
PKHD1L1	93035	broad.mit.edu	37	chr8	110476610	110476610	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttctggttgagaggaatAttatatatgatattaaggga	14	15	10	2	0	2	2	0	2	2	1	2	5	2	4	0	3	0	1	0	3	7	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:110476610A>G	uc003yne.2	+	49	7653	c.7549A>G	c.(7549-7551)ATT>GTT	p.I2517V		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2517	PbH1 1.|Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TGAGAGGAATATTATATATGA	0.358										HNSCC(38;0.096)			10	59					0	0	0.008291	0	0		G	110476610	G	G	110476610	3	3	11	1	0	0	0	0	1	0	0	0	11991	449	16	3	7743	3	PKHD1L1	8	110476610	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	376563	110476610	35887412	515	8907											
CSMD3	114788	broad.mit.edu	37	chr8	113267597	113267597	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaacctctgactggtataTaaagcttttgccttctcttt	9	17	6	9	0	2	2	0	2	2	0	3	2	2	2	2	1	3	2	2	1	5	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:113267597T>C	uc003ynu.2	-	62	10081	c.9922A>G	c.(9922-9924)ATA>GTA	p.I3308V	CSMD3_uc003yns.2_Missense_Mutation_p.I2510V|CSMD3_uc003ynt.2_Missense_Mutation_p.I3268V|CSMD3_uc011lhx.1_Missense_Mutation_p.I3139V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3308	Extracellular (Potential).|Sushi 26.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GACTGGTATATAAAGCTTTTG	0.398										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			9	69					0	0	0.004482	0	0		C	113267597	C	C	113267597	3	2	11	1	0	0	0	0	1	0	0	0	3949	1406	49	3	1241	3	CSMD3	8	113267597	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2790987	113267597	33096425	516	8908											
EXT1	2131	broad.mit.edu	37	chr8	118819472	118819472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacttgtggtaaatagcagCtcctgtcaacaccatggagt	11	11	9	10	0	2	0	2	0	0	0	3	1	3	1	2	2	3	3	2	2	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:118819472C>T	uc003yok.1	-	9	2640	c.1867G>A	c.(1867-1869)GCT>ACT	p.A623T		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	623	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			TAAATAGCAGCTCCTGTCAAC	0.473			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				11	109					0	0	0.010729	0	0		T	118819472	T	T	118819472	3	4	11	1	0	0	0	0	1	0	0	0	5331	797	28	2	385	2	EXT1	8	118819472	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5551875	118819472	27544550	517	8909											
NOV	4856	broad.mit.edu	37	chr8	120435303	120435303	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacctgcacctgtcacacCaactgtcctaagaacaatga	13	7	8	13	0	1	2	1	1	0	1	2	3	2	3	4	1	3	1	4	1	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:120435303C>T	uc003yoq.2	+	5	1226	c.1005C>T	c.(1003-1005)ACC>ACT	p.T335T		NM_002514	NP_002505	P48745	NOV_HUMAN	nephroblastoma overexpressed precursor	335	CTCK.				regulation of cell growth		growth factor activity|insulin-like growth factor binding			ovary(2)|skin(2)|kidney(1)	5	all_cancers(13;3.84e-26)|Lung NSC(37;1.19e-08)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000507)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CCTGTCACACCAACTGTCCTA	0.512													24	242					0	0	0.003755	0	0		T	120435303	T	T	120435303	2	4	11	1	0	0	0	0	0	0	0	1	10572	581	21	4		4	NOV	8	120435303	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1615831	120435303	25928719	518	8910											
ZHX1	11244	broad.mit.edu	37	chr8	124267603	124267603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttatgatgaactgcaatcCgtttattttccactttattt	10	19	5	7	1	0	2	0	2	0	0	2	2	2	2	2	0	2	3	2	0	5	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:124267603C>T	uc003yqe.2	-	3	1014	c.584G>A	c.(583-585)CGG>CAG	p.R195Q	C8orf76_uc003yqd.2_Intron|ZHX1_uc003yqf.2_Missense_Mutation_p.R195Q|ZHX1_uc003yqg.2_Intron|ZHX1_uc010mdi.2_Missense_Mutation_p.R195Q	NM_007222	NP_009153	Q9UKY1	ZHX1_HUMAN	zinc fingers and homeoboxes 1	195					negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			AACTGCAATCCGTTTATTTTC	0.353													12	115					0	0	0.013537	0	0		T	124267603	T	T	124267603	3	4	11	1	0	0	0	0	1	0	0	0	17700	652	23	1	2041	1	ZHX1	8	124267603	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3832300	124267603	22096419	519	8911											
TRIB1	10221	broad.mit.edu	37	chr8	126448362	126448362	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctgagatcctcaacacCactgggacctactccggaaa	12	6	8	15	1	1	1	1	1	0	1	3	4	3	3	5	2	3	0	5	2	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:126448362C>A	uc003yrx.2	+	3	1350	c.768C>A	c.(766-768)ACC>ACA	p.T256T	TRIB1_uc011lis.1_Silent_p.T90T|TRIB1_uc010mdn.2_Silent_p.T25T	NM_025195	NP_079471	Q96RU8	TRIB1_HUMAN	G-protein-coupled receptor induced protein	256	Protein kinase.				JNK cascade|negative regulation of lipopolysaccharide-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|regulation of MAP kinase activity|response to lipopolysaccharide	cytoplasm|nucleus	ATP binding|mitogen-activated protein kinase kinase binding|protein kinase activity|protein kinase inhibitor activity|transcription factor binding|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			lung(1)	1	all_hematologic(1;4.97e-05)|Ovarian(258;0.00167)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)			TCCTCAACACCACTGGGACCT	0.537													6	55					8.12818e-05	8.81621e-05	0.001984	1	0		A	126448362	A	A	126448362	2	1	11	1	0	0	0	0	0	0	0	1	16508	581	21	5		5	TRIB1	8	126448362	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2180759	126448362	19915660	520	8912											
KCNQ3	3786	broad.mit.edu	37	chr8	133146585	133146585	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgctgaccctttctgagacTtcttgtgttttggcgtggag	5	16	12	8	1	2	2	0	2	2	1	2	4	2	3	1	2	1	2	1	2	0	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:133146585T>G	uc003ytj.2	-	13	1976	c.1751A>C	c.(1750-1752)AAG>ACG	p.K584T	KCNQ3_uc010mdt.2_Missense_Mutation_p.K584T	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	584					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			TTTCTGAGACTTCTTGTGTTT	0.483													10	63					0	0	0.010729	0	0		G	133146585	G	G	133146585	3	3	11	1	0	0	0	0	1	0	0	0	8100	1609	56	5	879	5	KCNQ3	8	133146585	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	6698223	133146585	13217437	521	8913											
FAM135B	51059	broad.mit.edu	37	chr8	139153505	139153505	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccagagagtgacaggaaCgtgtggagtttgttgaggta	10	9	17	5	1	0	3	0	2	0	1	0	6	0	5	1	4	1	3	1	4	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:139153505C>T	uc003yuy.2	-	17	3897	c.3726G>A	c.(3724-3726)ACG>ACA	p.T1242T	FAM135B_uc003yux.2_Silent_p.T1143T|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1242										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			GTGACAGGAACGTGTGGAGTT	0.507										HNSCC(54;0.14)			12	69					0	0	0.013537	0	0		T	139153505	T	T	139153505	2	4	11	1	0	0	0	0	0	0	0	1	5460	523	19	1		1	FAM135B	8	139153505	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	6006920	139153505	7210517	522	8914											
PTK2	5747	broad.mit.edu	37	chr8	141803473	141803473	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttggtattgatggcaaagcCcgttcaccttctgcggggaa	8	12	12	9	2	2	1	1	1	1	0	2	2	2	2	2	4	2	3	2	4	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:141803473C>A	uc003yvu.2	-	13	1334	c.1104G>T	c.(1102-1104)CGG>CGT	p.R368R	PTK2_uc011ljq.1_Silent_p.R29R|PTK2_uc003yvp.2_Silent_p.R29R|PTK2_uc003yvq.2_5'UTR|PTK2_uc003yvr.2_Silent_p.R267R|PTK2_uc003yvs.2_Silent_p.R368R|PTK2_uc003yvt.2_Silent_p.R390R|PTK2_uc003yvv.2_Silent_p.R255R|PTK2_uc011ljr.1_Silent_p.R368R	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	368					axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			ATGGCAAAGCCCGTTCACCTT	0.373													26	138					7.68411e-24	9.0642e-24	0.008361	1	0		A	141803473	A	A	141803473	2	1	11	1	0	0	0	0	0	0	0	1	12785	610	22	5		5	PTK2	8	141803473	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2649968	141803473	4560549	523	8915											
ZFP41	286128	broad.mit.edu	37	chr8	144332457	144332457	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccttcaaatgcggggagtgCgggaaagcctttaactgcgg	9	8	14	10	3	1	0	1	0	0	0	1	2	1	2	2	4	5	0	2	4	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:144332457C>T	uc003yxw.2	+	2	802	c.444C>T	c.(442-444)TGC>TGT	p.C148C	ZFP41_uc003yxv.2_RNA	NM_173832	NP_776193	Q8N8Y5	ZFP41_HUMAN	zinc finger protein 41 homolog	148	C2H2-type 3.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.6e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			GCGGGGAGTGCGGGAAAGCCT	0.577													37	191					0	0	0.01441	0	0		T	144332457	T	T	144332457	2	4	11	1	0	0	0	0	0	0	0	1	17674	776	27	1		1	ZFP41	8	144332457	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2528984	144332457	2031565	524	8916											
GRINA	2907	broad.mit.edu	37	chr8	145066937	145066937	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagagtatgtgtttgctgcGctgaacctgtacacagacat	11	11	11	8	1	0	3	0	1	0	2	0	4	0	3	1	0	4	5	1	0	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:145066937G>A	uc003zan.1	+	7	1210	c.1044G>A	c.(1042-1044)GCG>GCA	p.A348A	GRINA_uc003zao.1_Silent_p.A348A|GRINA_uc003zap.1_Silent_p.A348A	NM_001009184	NP_001009184	Q7Z429	GRINA_HUMAN	glutamate receptor, ionotropic, N-methyl	348	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TGTTTGCTGCGCTGAACCTGT	0.572													4	34					0	0	0.001168	0	0		A	145066937	A	A	145066937	2	1	11	1	0	0	0	0	0	0	0	1	6801	1074	38	1		1	GRINA	8	145066937	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	734480	145066937	1297085	525	8917											
SPATC1	375686	broad.mit.edu	37	chr8	145095846	145095846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acctgcctgtcccccactgtCctccacacaacgcccactcc	7	7	4	23	1	0	0	0	0	0	0	4	0	4	0	8	0	2	0	8	0	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:145095846C>T	uc011lkw.1	+	3	1246	c.1144C>T	c.(1144-1146)CCT>TCT	p.P382S	SPATC1_uc011lkx.1_Missense_Mutation_p.P382S	NM_198572	NP_940974	Q76KD6	SPERI_HUMAN	spermatogenesis and centriole associated 1	382										ovary(1)|central_nervous_system(1)	2	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;3.67e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCCCCACTGTCCTCCACACAA	0.612													7	73					0	0	0.004482	0	0		T	145095846	T	T	145095846	3	4	11	1	0	0	0	0	1	0	0	0	15042	855	30	4	1154	4	SPATC1	8	145095846	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	28909	145095846	1268176	526	8918											
CPSF1	29894	broad.mit.edu	37	chr8	145623823	145623823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccatgatctcctgccccGtctgcaggatctgcgggcga	5	9	12	15	3	3	1	0	1	3	0	5	3	4	2	4	2	3	2	4	2	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr8:145623823G>A	uc003zcj.2	-	19	1838	c.1763C>T	c.(1762-1764)ACG>ATG	p.T588M		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	588					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			CTCCTGCCCCGTCTGCAGGAT	0.672													9	51					0	0	0.003163	0	0		A	145623823	A	A	145623823	3	1	11	1	0	0	0	0	1	0	0	0	3827	1145	40	1	2648	1	CPSF1	8	145623823	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	527977	145623823	740199	527	8919											
FOXD4	2298	broad.mit.edu	37	chr9	117535	117535	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgctggaaacgcttcctacgCcggagaaagctgccattgtc	9	8	11	13	4	0	1	0	0	0	1	2	3	1	2	3	2	4	3	3	2	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:117535C>T	uc003zfz.2	-	1	883	c.585G>A	c.(583-585)CGG>CGA	p.R195R		NM_207305	NP_997188	Q12950	FOXD4_HUMAN	forkhead box D4	195	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	all_lung(41;0.218)	all_cancers(5;0.0395)|Acute lymphoblastic leukemia(5;1.91e-07)|all_hematologic(5;1.95e-06)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCTTCCTACGCCGGAGAAAGC	0.687													8	84					0	0	0.006214	0	0		T	117535	T	T	117535	2	4	11	1	0	0	0	0	0	0	0	1	6013	726	26	2		2	FOXD4	9	117535	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08		117535	141095896	528	8920											
GLDC	2731	broad.mit.edu	37	chr9	6604759	6604759	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaagatgcacaaagctaaaAggtcagtagcacagcaggcc	16	5	10	10	0	2	1	2	0	0	1	2	1	2	1	1	2	4	5	1	2	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:6604759A>C	uc003zkc.2	-	7	1080	c.887T>G	c.(886-888)CTT>CGT	p.L296R		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	296					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	CAAAGCTAAAAGGTCAGTAGC	0.522													17	110					0	0	0.010504	0	0		C	6604759	C	C	6604759	3	2	11	1	0	0	0	0	1	0	0	0	6448	72	3	5	2251	5	GLDC	9	6604759	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	6487224	6604759	134608672	529	8921											
PTPRD	5789	broad.mit.edu	37	chr9	8319960	8319960	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagactccagttcttccaacGcccgcgctgccacaataaca	12	7	6	16	3	1	1	0	0	1	1	3	1	3	1	4	0	3	2	4	0	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:8319960G>A	uc003zkk.2	-	44	6252	c.5541C>T	c.(5539-5541)GGC>GGT	p.G1847G	PTPRD_uc003zkp.2_Silent_p.G1441G|PTPRD_uc003zkq.2_Silent_p.G1440G|PTPRD_uc003zkr.2_Silent_p.G1431G|PTPRD_uc003zks.2_Silent_p.G1440G|PTPRD_uc003zkl.2_Silent_p.G1838G|PTPRD_uc003zkm.2_Silent_p.G1834G|PTPRD_uc003zkn.2_Silent_p.G1436G|PTPRD_uc003zko.2_Silent_p.G1437G	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1847	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TTCTTCCAACGCCCGCGCTGC	0.438										TSP Lung(15;0.13)			9	29					0	0	0.004482	0	0		A	8319960	A	A	8319960	2	1	11	1	0	0	0	0	0	0	0	1	12824	1074	38	1		1	PTPRD	9	8319960	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1715201	8319960	132893471	530	8922											
KIAA1797	54914	broad.mit.edu	37	chr9	20988425	20988425	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcacaatacggctcttgaCaaggtaaaatctagaggagt	14	11	9	7	1	3	2	1	1	2	1	3	3	3	3	0	3	1	2	0	3	6	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:20988425C>T	uc003zog.1	+	43	5364	c.5001C>T	c.(4999-5001)GAC>GAT	p.D1667D	KIAA1797_uc003zoh.1_Silent_p.D1103D	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	1667						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		CGGCTCTTGACAAGGTAAAAT	0.284													7	52					0	0	0.00308	0	0		T	20988425	T	T	20988425	2	4	11	1	0	0	0	0	0	0	0	1	8274	477	17	4		4	KIAA1797	9	20988425	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	12668465	20988425	120225006	531	8923											
TLN1	7094	broad.mit.edu	37	chr9	35706102	35706102	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggcttcctgggtgtgagCtgcttgctgtggggagagga	5	10	19	7	0	0	2	0	1	0	1	1	4	1	3	1	5	3	4	1	5	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:35706102C>T	uc003zxt.2	-	41	5722	c.5368G>A	c.(5368-5370)GCT>ACT	p.A1790T		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1790	Interaction with SYNM.				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TGGGTGTGAGCTGCTTGCTGT	0.582													16	90					0	0	0.007413	0	0		T	35706102	T	T	35706102	3	4	11	1	0	0	0	0	1	0	0	0	15972	797	28	2	2325	2	TLN1	9	35706102	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	14717677	35706102	105507329	532	8924											
GNE	10020	broad.mit.edu	37	chr9	36227249	36227249	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggagttattttaccttcAtgctgactattgcaactcgg	9	16	8	8	1	1	1	1	1	0	0	2	2	1	2	1	2	4	3	1	2	5	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:36227249A>G	uc010mlh.2	-	7	1492	c.1277T>C	c.(1276-1278)ATG>ACG	p.M426T	CLTA_uc003zzf.1_Intron|GNE_uc010mlg.2_Missense_Mutation_p.M426T|GNE_uc011lpl.1_Missense_Mutation_p.M316T|GNE_uc010mli.2_Missense_Mutation_p.M457T|GNE_uc010mlj.2_Missense_Mutation_p.M421T	NM_005476	NP_005467	Q9Y223	GLCNE_HUMAN	UDP-N-acetylglucosamine-2-epimerase/N-	426	UDP-N-acetylglucosamine 2-epimerase.|N-acetylmannosamine kinase.				cell adhesion|lipopolysaccharide biosynthetic process|N-acetylneuraminate metabolic process|UDP-N-acetylglucosamine metabolic process		ATP binding|N-acylmannosamine kinase activity|UDP-N-acetylglucosamine 2-epimerase activity				0			STAD - Stomach adenocarcinoma(86;0.228)			TTTTACCTTCATGCTGACTAT	0.368													8	50					0	0	0.004482	0	0		G	36227249	G	G	36227249	3	3	11	1	0	0	0	0	1	0	0	0	6537	217	8	3	915	3	GNE	9	36227249	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	521147	36227249	104986182	533	8925											
MAMDC2	256691	broad.mit.edu	37	chr9	72833435	72833435	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagacagtgaagagtccctcTtatggaggagaagaggtgaa	15	7	14	5	0	1	6	0	2	1	4	2	8	2	7	1	3	0	0	1	3	5	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:72833435T>G	uc004ahm.2	+	12	2451	c.1834T>G	c.(1834-1836)TTA>GTA	p.L612V	MAMDC2_uc004ahn.2_RNA|uc004ahq.1_Intron	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	612	MAM 4.					endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						AGAGTCCCTCTTATGGAGGAG	0.468													12	80					0	0	0.00245	0	0		G	72833435	G	G	72833435	3	3	11	1	0	0	0	0	1	0	0	0	9221	1606	56	5	1880	5	MAMDC2	9	72833435	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	36606186	72833435	68379996	534	8926											
ALDH1A1	216	broad.mit.edu	37	chr9	75545795	75545795	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcttggataatactcacCgccagcagcagacgatctct	11	8	8	14	2	2	1	1	0	1	1	3	3	2	2	3	1	4	3	3	1	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:75545795C>A	uc004ajd.2	-	3	365	c.312G>T	c.(310-312)GCG>GCT	p.A104A	ALDH1A1_uc011lsh.1_Silent_p.A25A	NM_000689	NP_000680	P00352	AL1A1_HUMAN	aldehyde dehydrogenase 1A1	104					cellular aldehyde metabolic process|ethanol oxidation|xenobiotic metabolic process	cytosol	aldehyde dehydrogenase (NAD) activity|androgen binding|Ras GTPase activator activity|retinal dehydrogenase activity			ovary(3)|lung(1)	4					NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	TAATACTCACCGCCAGCAGCA	0.458													13	76					4.93089e-13	5.72351e-13	0.00245	1	0		A	75545795	A	A	75545795	2	1	11	1	0	0	0	0	0	0	0	1	490	666	23	5		5	ALDH1A1	9	75545795	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2712360	75545795	65667636	535	8927											
PRUNE2	158471	broad.mit.edu	37	chr9	79318865	79318865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagtgtgaattttcttcaCggtttacaagtatgtaatcc	10	17	8	6	1	2	2	1	2	1	0	3	2	3	2	1	1	1	3	1	1	5	8	rs149845863	by1000genomes	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:79318865C>T	uc010mpk.2	-	9	7788	c.7664G>A	c.(7663-7665)CGT>CAT	p.R2555H	PRUNE2_uc004akj.3_Missense_Mutation_p.R8H|PRUNE2_uc010mpl.1_Missense_Mutation_p.R8H	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	2555					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						ATTTTCTTCACGGTTTACAAG	0.393													27	208					0	0	0.008361	0	0		T	79318865	T	T	79318865	3	4	11	1	0	0	0	0	1	0	0	0	12663	536	19	1	1646	1	PRUNE2	9	79318865	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3773070	79318865	61894566	536	8928											
PRUNE2	158471	broad.mit.edu	37	chr9	79323912	79323912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgcaaaagtgtgagttgtCggtttgtttcattgtacagt	8	17	12	4	1	1	1	1	1	0	0	2	1	1	1	0	1	2	5	0	1	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:79323912C>T	uc010mpk.2	-	8	3402	c.3278G>A	c.(3277-3279)CGA>CAA	p.R1093Q		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1093					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TGTGAGTTGTCGGTTTGTTTC	0.512													22	118					0	0	0.010504	0	0		T	79323912	T	T	79323912	3	4	11	1	0	0	0	0	1	0	0	0	12663	884	31	1	6036	1	PRUNE2	9	79323912	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5047	79323912	61889519	537	8929											
VPS13A	23230	broad.mit.edu	37	chr9	79841516	79841516	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagatgttcaacctgaaagTatgtccatttcattttacag	12	14	6	9	0	2	2	2	1	0	1	3	2	3	2	3	0	2	2	3	0	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:79841516T>C	uc004akr.2	+	15	1617	c.1357_splice	c.e15+2	p.T453_splice	VPS13A_uc004akp.3_Splice_Site_p.T453_splice|VPS13A_uc004akq.3_Splice_Site_p.T453_splice|VPS13A_uc004aks.2_Splice_Site_p.T453_splice	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A						Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						AACCTGAAAGTATGTCCATTT	0.328													12	86					0	0	0.003163	0	0		C	79841516	C	C	79841516	5	2	11	1	0	0	0	0	0	0	1	0	17215	1652	57	3	1417	3	VPS13A	9	79841516	Splice_Site	SNP	T	TCGA-BR-4256-01A-01D-1126-08	517604	79841516	61371915	538	8930											
FLJ46321	389763	broad.mit.edu	37	chr9	84607460	84607460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaactagagcaacacattcGaaggaggctcatccagcgca	15	5	10	11	2	1	1	1	0	0	1	3	4	2	2	1	2	4	3	1	2	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:84607460G>A	uc004amn.2	+	4	2122	c.2075G>A	c.(2074-2076)CGA>CAA	p.R692Q		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	692						integral to membrane					0						CAACACATTCGAAGGAGGCTC	0.493													18	106					0	0	0.007413	0	0		A	84607460	A	A	84607460	3	1	11	1	0	0	0	0	1	0	0	0	5946	1058	37	1	2089	1	FLJ46321	9	84607460	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4765944	84607460	56605971	539	8931											
RASEF	158158	broad.mit.edu	37	chr9	85607893	85607893	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagtgtcacgaatgtcAgccttgtttcctaccagcat	9	11	9	12	1	2	0	2	0	0	0	3	1	3	0	3	0	4	4	3	0	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:85607893A>T	uc004amo.1	-	15	2229	c.1968T>A	c.(1966-1968)GCT>GCA	p.A656A		NM_152573	NP_689786	Q8IZ41	RASEF_HUMAN	RAS and EF-hand domain containing	656	GTP (By similarity).				protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3						CACGAATGTCAGCCTTGTTTC	0.473													13	69					0	0	0.013537	0	0		T	85607893	T	T	85607893	2	4	11	1	0	0	0	0	0	0	0	1	13093	175	7	5		5	RASEF	9	85607893	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1000433	85607893	55605538	540	8932											
RMI1	80010	broad.mit.edu	37	chr9	86616999	86616999	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aataacttttctttgacttgCaaaaatggaaacaataattg	17	14	5	5	0	1	1	0	1	1	0	1	2	1	2	0	1	3	1	0	1	7	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:86616999C>G	uc004anq.3	+	3	1506	c.1098C>G	c.(1096-1098)TGC>TGG	p.C366W	RMI1_uc004anr.3_Missense_Mutation_p.C366W|RMI1_uc004anp.3_Missense_Mutation_p.C366W|RMI1_uc004ans.3_Missense_Mutation_p.C366W	NM_024945	NP_079221	Q9H9A7	RMI1_HUMAN	RMI1, RecQ mediated genome instability 1,	366					DNA replication	nucleus					0						CTTTGACTTGCAAAAATGGAA	0.323													13	46					0	0	0.00245	0	0		G	86616999	G	G	86616999	3	3	11	1	0	0	0	0	1	0	0	0	13420	718	25	5	1100	5	RMI1	9	86616999	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1009106	86616999	54596432	541	8933											
SEMA4D	10507	broad.mit.edu	37	chr9	92020286	92020286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgtgctcccaggtgatcCggggtatgggtgcaaatgcc	6	10	14	11	1	1	1	0	1	1	0	3	1	3	1	3	4	3	3	3	4	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:92020286C>T	uc004aqo.1	-	5	658	c.86G>A	c.(85-87)CGG>CAG	p.R29Q	SEMA4D_uc011ltm.1_Missense_Mutation_p.R29Q|SEMA4D_uc011ltn.1_RNA|SEMA4D_uc011lto.1_RNA|SEMA4D_uc004aqp.1_Missense_Mutation_p.R27Q	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	29	Sema.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						CCAGGTGATCCGGGGTATGGG	0.617													10	44					0	0	0.006214	0	0		T	92020286	T	T	92020286	3	4	11	1	0	0	0	0	1	0	0	0	14059	652	23	1	3128	1	SEMA4D	9	92020286	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5403287	92020286	49193145	542	8934											
FBP2	8789	broad.mit.edu	37	chr9	97321299	97321299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accccagaatgagggggactCgctggtgaattgcctcgggc	8	7	15	11	2	0	3	0	2	0	1	2	4	0	4	3	4	1	1	3	4	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:97321299C>T	uc004auv.2	-	7	1008	c.941G>A	c.(940-942)CGA>CAA	p.R314Q	uc004aus.1_RNA|uc004aut.1_RNA|uc004auu.2_RNA	NM_003837	NP_003828	O00757	F16P2_HUMAN	fructose-1,6-bisphosphatase 2	314					fructose metabolic process|gluconeogenesis	cytosol	fructose 1,6-bisphosphate 1-phosphatase activity|fructose-2,6-bisphosphate 2-phosphatase activity|metal ion binding				0		Acute lymphoblastic leukemia(62;0.136)				GAGGGGGACTCGCTGGTGAAT	0.582													7	44					0	0	0.001984	0	0		T	97321299	T	T	97321299	3	4	11	1	0	0	0	0	1	0	0	0	5720	884	31	1	82	1	FBP2	9	97321299	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5301013	97321299	43892132	543	8935											
FBP2	8789	broad.mit.edu	37	chr9	97355861	97355861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggccagaccggccttgcGcacagccgaggagatggctt	7	6	16	12	3	0	2	0	0	0	2	0	4	0	2	4	4	2	2	4	4	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:97355861G>A	uc004auv.2	-	1	215	c.148C>T	c.(148-150)CGC>TGC	p.R50C		NM_003837	NP_003828	O00757	F16P2_HUMAN	fructose-1,6-bisphosphatase 2	50					fructose metabolic process|gluconeogenesis	cytosol	fructose 1,6-bisphosphate 1-phosphatase activity|fructose-2,6-bisphosphate 2-phosphatase activity|metal ion binding				0		Acute lymphoblastic leukemia(62;0.136)				CCGGCCTTGCGCACAGCCGAG	0.642													7	22					0	0	0.004482	0	0		A	97355861	A	A	97355861	3	1	11	1	0	0	0	0	1	0	0	0	5720	1087	38	1	899	1	FBP2	9	97355861	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	34562	97355861	43857570	544	8936											
CTSL2	1515	broad.mit.edu	37	chr9	99800233	99800233	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgtgtgttgccttccaCtggtaccactttgtatccaa	6	16	7	12	0	1	0	0	0	1	0	3	0	3	0	4	1	2	3	4	1	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:99800233C>T	uc004awt.2	-	2	290	c.93G>A	c.(91-93)CAG>CAA	p.Q31Q	CTSL2_uc010msi.2_Silent_p.Q31Q|CTSL2_uc004awu.2_Translation_Start_Site|CTSL2_uc010msj.1_Translation_Start_Site|CTSL2_uc010msk.2_Translation_Start_Site	NM_001333	NP_001324	O60911	CATL2_HUMAN	cathepsin L2 preproprotein	31						lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(62;0.0559)				TTGCCTTCCACTGGTACCACT	0.463													13	64					0	0	0.004007	0	0		T	99800233	T	T	99800233	2	4	11	1	0	0	0	0	0	0	0	1	4042	564	20	4		4	CTSL2	9	99800233	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2444372	99800233	41413198	545	8937											
ALDOB	229	broad.mit.edu	37	chr9	104187169	104187169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggttgcctccttgtttgCagccttgccaccccaggcag	4	11	11	15	0	0	0	0	0	0	0	1	0	1	0	6	2	4	4	6	2	0	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:104187169C>T	uc004bbk.2	-	8	1037	c.955G>A	c.(955-957)GCA>ACA	p.A319T		NM_000035	NP_000026	P05062	ALDOB_HUMAN	aldolase B, fructose-bisphosphate	319					fructose 1,6-bisphosphate metabolic process|fructose catabolic process|gluconeogenesis|glycolysis|NADH oxidation|positive regulation of ATPase activity|vacuolar proton-transporting V-type ATPase complex assembly	centriolar satellite|cytosol	ATPase binding|cytoskeletal protein binding|fructose binding|fructose-bisphosphate aldolase activity|identical protein binding			skin(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TCCTTGTTTGCAGCCTTGCCA	0.527													8	51					0	0	0.006214	0	0		T	104187169	T	T	104187169	3	4	11	1	0	0	0	0	1	0	0	0	508	710	25	2	147	2	ALDOB	9	104187169	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4386936	104187169	37026262	546	8938											
EPB41L4B	54566	broad.mit.edu	37	chr9	112017804	112017804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccctacctgaatctgaagcGagagcccagcctgataaagt	12	8	9	12	1	1	4	0	3	1	1	2	5	2	4	4	0	4	0	4	0	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:112017804G>A	uc004bdz.1	-	11	1451	c.1156C>T	c.(1156-1158)CGC>TGC	p.R386C	EPB41L4B_uc004bea.2_Missense_Mutation_p.R386C	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	386						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						AATCTGAAGCGAGAGCCCAGC	0.453													11	43					0	0	0.00245	0	0		A	112017804	A	A	112017804	3	1	11	1	0	0	0	0	1	0	0	0	5164	1058	37	1	1762	1	EPB41L4B	9	112017804	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	7830635	112017804	29195627	547	8939											
PTPN3	5774	broad.mit.edu	37	chr9	112144688	112144688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaccgtggtcaggccatgCgacgtactggagatgtgtca	9	8	13	11	3	2	1	2	0	0	1	2	3	2	1	2	3	2	1	2	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:112144688C>T	uc004bed.2	-	24	2534	c.2422G>A	c.(2422-2424)GCA>ACA	p.A808T	PTPN3_uc004beb.2_Missense_Mutation_p.A677T|PTPN3_uc004bec.2_Missense_Mutation_p.A632T|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Missense_Mutation_p.A763T|PTPN3_uc011lwh.1_Missense_Mutation_p.A654T|PTPN3_uc011lwd.1_Missense_Mutation_p.A276T|PTPN3_uc011lwe.1_Missense_Mutation_p.A521T|PTPN3_uc011lwf.1_Missense_Mutation_p.A476T	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	808	Tyrosine-protein phosphatase.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						TCAGGCCATGCGACGTACTGG	0.572													14	45					0	0	0.00245	0	0		T	112144688	T	T	112144688	3	4	11	1	0	0	0	0	1	0	0	0	12814	768	27	1	331	1	PTPN3	9	112144688	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	126884	112144688	29068743	548	8940											
DNAJC25	548645	broad.mit.edu	37	chr9	114415422	114415422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagaattaaagaaaaagttgGcaaatgaccccagatggaag	20	6	10	5	0	0	4	0	1	0	3	0	5	0	5	2	2	0	2	2	2	8	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:114415422G>A	uc004bfl.2	+	4	1059	c.1003G>A	c.(1003-1005)GCA>ACA	p.A335T	DNAJC25-GNG10_uc004bfn.2_Intron|DNAJC25_uc004bfm.2_Missense_Mutation_p.A213T	NM_001015882	NP_001015882	Q9H1X3	DJC25_HUMAN	DnaJ (Hsp40) homolog, subfamily C , member 25	335					protein folding	integral to membrane	heat shock protein binding|unfolded protein binding				0						GAAAAAGTTGGCAAATGACCC	0.398													10	71					0	0	0.010729	0	0		A	114415422	A	A	114415422	3	1	11	1	0	0	0	0	1	0	0	0	4649	1203	42	2	1017	2	DNAJC25	9	114415422	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2270734	114415422	26798009	549	8941											
HSDL2	84263	broad.mit.edu	37	chr9	115166406	115166406	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcccagccacatccaaaacTtctaggcacaatctatactg	13	8	5	15	1	2	0	0	0	2	0	3	0	3	0	3	1	3	1	3	1	6	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:115166406T>G	uc004bga.1	+	2	242	c.149T>G	c.(148-150)CTT>CGT	p.L50R	HSDL2_uc011lwv.1_Intron|HSDL2_uc004bgb.1_5'UTR|HSDL2_uc004bgc.1_Missense_Mutation_p.L50R|HSDL2_uc011lww.1_5'UTR	NM_032303	NP_115679	Q6YN16	HSDL2_HUMAN	hydroxysteroid dehydrogenase like 2	50						peroxisome	oxidoreductase activity|sterol binding				0						CATCCAAAACTTCTAGGCACA	0.428													8	43					0	0	0.008291	0	0		G	115166406	G	G	115166406	3	3	11	1	0	0	0	0	1	0	0	0	7410	1609	56	5	155	5	HSDL2	9	115166406	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	750984	115166406	26047025	550	8942											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123334315	123334315	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctggtacactgggaacaaGgccactaggagagaacacat	15	6	11	9	0	1	1	0	0	1	1	1	4	1	3	1	4	3	1	1	4	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:123334315G>T	uc004bkf.2	-	2	245	c.64C>A	c.(64-66)CTT>ATT	p.L22I	CDK5RAP2_uc004bkg.2_Missense_Mutation_p.L22I|CDK5RAP2_uc011lxw.1_5'UTR|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_5'UTR|CDK5RAP2_uc011lya.1_5'UTR|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.L22I	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	22					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						CTGGGAACAAGGCCACTAGGA	0.468													12	62					5.50884e-06	6.09141e-06	0.013537	1	0		T	123334315	T	T	123334315	3	4	11	1	0	0	0	0	1	0	0	0	3149	1000	35	5	5765	5	CDK5RAP2	9	123334315	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	8167909	123334315	17879116	551	8943											
OR1Q1	158131	broad.mit.edu	37	chr9	125377600	125377600	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcaccagcacctacctcaAcacccttatgattcacacag	12	8	4	17	0	2	1	2	1	0	0	2	1	2	1	4	0	4	2	4	0	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:125377600A>G	uc011lyy.1	+	1	584	c.584A>G	c.(583-585)AAC>AGC	p.N195S		NM_012364	NP_036496	Q15612	OR1Q1_HUMAN	olfactory receptor, family 1, subfamily Q,	195	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACCTACCTCAACACCCTTATG	0.502													16	92					0	0	0.004007	0	0		G	125377600	G	G	125377600	3	3	11	1	0	0	0	0	1	0	0	0	10990	43	2	3	586	3	OR1Q1	9	125377600	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	2043285	125377600	15835831	552	8944											
OR1K1	392392	broad.mit.edu	37	chr9	125563309	125563309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgatgtacagggggcactccGagcccttctcattgggcgaa	8	8	13	12	3	1	0	1	0	1	0	3	3	2	0	2	3	2	2	2	3	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:125563309G>A	uc011lze.1	+	1	908	c.908G>A	c.(907-909)CGA>CAA	p.R303Q		NM_080859	NP_543135	Q8NGR3	OR1K1_HUMAN	olfactory receptor, family 1, subfamily K,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GGGGCACTCCGAGCCCTTCTC	0.582													8	50					0	0	0.004482	0	0		A	125563309	A	A	125563309	3	1	11	1	0	0	0	0	1	0	0	0	10981	1058	37	1	910	1	OR1K1	9	125563309	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	185709	125563309	15650122	553	8945											
CRB2	286204	broad.mit.edu	37	chr9	126132851	126132851	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcaccactgtgcttgtcCtgagactgccggacctggcc	7	8	11	15	1	0	1	0	1	0	1	1	3	1	2	5	2	3	2	5	2	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:126132851C>A	uc004bnx.1	+	7	1611	c.1519C>A	c.(1519-1521)CTG>ATG	p.L507M	CRB2_uc004bnw.1_Missense_Mutation_p.L507M	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	507	Extracellular (Potential).|Laminin G-like 1.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						TGTGCTTGTCCTGAGACTGCC	0.597													6	35					0.000157383	0.000170141	0.00308	1	0		A	126132851	A	A	126132851	3	1	11	1	0	0	0	0	1	0	0	0	3852	680	24	5	1545	5	CRB2	9	126132851	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	569542	126132851	15080580	554	8946											
NEK6	10783	broad.mit.edu	37	chr9	127089654	127089654	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttcatcacagccacgggCgtcgtgaagctcggtgacct	7	9	13	12	4	2	2	2	2	0	0	4	2	2	2	2	2	2	2	2	2	1	1	rs147517890		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:127089654C>T	uc004bog.2	+	7	701	c.552C>T	c.(550-552)GGC>GGT	p.G184G	NEK6_uc004bof.2_Silent_p.G202G|NEK6_uc004boh.2_Silent_p.G218G|NEK6_uc010mwj.2_Silent_p.G137G|NEK6_uc010mwk.2_Silent_p.G184G|NEK6_uc004boi.2_Silent_p.G184G	NM_014397	NP_055212	Q9HC98	NEK6_HUMAN	NIMA-related kinase 6 isoform 2	184	Protein kinase.				apoptosis|cell division|chromosome segregation|mitosis|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of mitotic metaphase/anaphase transition	cytoplasm|nucleus	ATP binding|kinesin binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|kidney(1)	3						CAGCCACGGGCGTCGTGAAGC	0.632													22	120					0	0	0.013726	0	0		T	127089654	T	T	127089654	2	4	11	1	0	0	0	0	0	0	0	1	10347	755	27	1		1	NEK6	9	127089654	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	956803	127089654	14123777	555	8947											
GOLGA1	2800	broad.mit.edu	37	chr9	127650643	127650643	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cttcctgcagttggaagctgGaacacagggtcctgcatggc	8	9	13	11	0	0	0	0	0	0	0	2	2	2	2	2	4	4	4	2	4	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:127650643G>A	uc004bpc.2	-	19	2136	c.1794C>T	c.(1792-1794)TTC>TTT	p.F598F	GOLGA1_uc010mws.2_RNA	NM_002077	NP_002068	Q92805	GOGA1_HUMAN	golgin 97	598	Potential.					Golgi cisterna membrane				ovary(1)	1						TTGGAAGCTGGAACACAGGGT	0.552													20	130					0	0	0.012319	0	0		A	127650643	A	A	127650643	2	1	11	1	0	0	0	0	0	0	0	1	6566	1165	41	4		4	GOLGA1	9	127650643	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	560989	127650643	13562788	556	8948											
ZBTB43	23099	broad.mit.edu	37	chr9	129595614	129595614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagagtccatcaacaccGtgcagacagagcacacggtg	13	5	10	13	2	2	3	2	0	0	3	3	3	3	3	2	1	3	2	2	1	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:129595614G>A	uc004bql.2	+	3	1099	c.826G>A	c.(826-828)GTG>ATG	p.V276M	ZBTB43_uc010mxf.2_Missense_Mutation_p.V276M	NM_014007	NP_054726	O43298	ZBT43_HUMAN	zinc finger and BTB domain containing 43	276					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CATCAACACCGTGCAGACAGA	0.572													4	18					0	0	0.009096	0	0		A	129595614	A	A	129595614	3	1	11	1	0	0	0	0	1	0	0	0	17569	1145	40	1	828	1	ZBTB43	9	129595614	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1944971	129595614	11617817	557	8949											
SPTAN1	6709	broad.mit.edu	37	chr9	131395517	131395517	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgggaacaagccgactactgCgtctcccacatgaagcccta	11	6	9	15	3	1	1	0	1	1	0	2	3	1	2	3	1	5	0	3	1	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:131395517C>T	uc004bvl.3	+	56	7436	c.7323C>T	c.(7321-7323)TGC>TGT	p.C2441C	SPTAN1_uc004bvm.3_Silent_p.C2446C|SPTAN1_uc004bvn.3_Silent_p.C2421C|SPTAN1_uc004bvo.3_Silent_p.C208C|SPTAN1_uc004bvp.3_Silent_p.C184C	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	2441					actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						CCGACTACTGCGTCTCCCACA	0.622													4	35					0	0	0.001168	0	0		T	131395517	T	T	131395517	2	4	11	1	0	0	0	0	0	0	0	1	15142	776	27	1		1	SPTAN1	9	131395517	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1799903	131395517	9817914	558	8950											
LRRC8A	56262	broad.mit.edu	37	chr9	131670897	131670897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagcggccaagattgaagCgcccgcgctggccttcctgc	7	6	12	16	4	0	2	0	1	0	1	1	2	1	2	4	2	3	1	4	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:131670897C>T	uc004bwl.3	+	3	1708	c.1454C>T	c.(1453-1455)GCG>GTG	p.A485V	LRRC8A_uc010myp.2_Missense_Mutation_p.A485V|LRRC8A_uc010myq.2_Missense_Mutation_p.A485V	NM_019594	NP_062540	Q8IWT6	LRC8A_HUMAN	leucine rich repeat containing 8 family, member	485	LRR 5.				pre-B cell differentiation	integral to membrane					0						AAGATTGAAGCGCCCGCGCTG	0.612													5	12					0	0	0.001984	0	0		T	131670897	T	T	131670897	3	4	11	1	0	0	0	0	1	0	0	0	9039	768	27	1	1456	1	LRRC8A	9	131670897	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	275380	131670897	9542534	559	8951											
BAT2L1	84726	broad.mit.edu	37	chr9	134340174	134340174	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaatgggcagcatgttcCggcaacagtccatcgaggac	11	7	11	12	2	1	0	1	0	0	0	4	2	3	1	2	3	2	4	2	3	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:134340174C>T	uc004can.3	+	11	1484	c.1429C>T	c.(1429-1431)CGG>TGG	p.R477W	BAT2L1_uc010mzj.1_Missense_Mutation_p.R60W	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	477							protein binding				0						CAGCATGTTCCGGCAACAGTC	0.582													4	33					0	0	0.000602	0	0		T	134340174	T	T	134340174	3	4	11	1	0	0	0	0	1	0	0	0	1321	643	23	1	1471	1	BAT2L1	9	134340174	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2669277	134340174	6873257	560	8952											
SETX	23064	broad.mit.edu	37	chr9	135139706	135139706	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagagttcctcctggtgtGatgggtctcggaaccacact	7	11	11	12	1	1	2	0	1	1	1	4	3	3	3	4	3	1	1	4	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:135139706G>T	uc004cbk.2	-	26	8137	c.7954C>A	c.(7954-7956)CAC>AAC	p.H2652N	SETX_uc004cbj.2_Missense_Mutation_p.H2300N|SETX_uc010mzt.2_Missense_Mutation_p.H2238N	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	2652					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		CTCCTGGTGTGATGGGTCTCG	0.537													40	234					3.77016e-25	4.45131e-25	0.013114	1	0		T	135139706	T	T	135139706	3	4	11	1	0	0	0	0	1	0	0	0	14166	1290	45	5	83	5	SETX	9	135139706	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	799532	135139706	6073725	561	8953											
GTF3C4	9329	broad.mit.edu	37	chr9	135555180	135555180	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaagagtatgatgacaGaactgcacgggtaggtgttt	12	11	14	4	1	0	6	0	4	0	2	0	6	0	6	0	2	2	4	0	2	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:135555180G>T	uc010mzv.2	+	2	2432	c.2174G>T	c.(2173-2175)AGA>ATA	p.R725I	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	725					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		TATGATGACAGAACTGCACGG	0.408													17	92					1.67942e-08	1.91535e-08	0.006122	1	0		T	135555180	T	T	135555180	3	4	11	1	0	0	0	0	1	0	0	0	6891	942	33	5	2180	5	GTF3C4	9	135555180	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	415474	135555180	5658251	562	8954											
RPL7A	6130	broad.mit.edu	37	chr9	136218200	136218200	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaaggcaaaggctaaagaActtgccactaaactgggtta	17	7	10	7	0	0	1	0	0	0	1	0	2	0	1	1	3	3	3	1	3	9	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:136218200A>G	uc004cde.1	+	8	810	c.780A>G	c.(778-780)GAA>GAG	p.E260E	RPL7A_uc004cdf.1_Silent_p.E84E	NM_000972	NP_000963	P62424	RL7A_HUMAN	ribosomal protein L7a	260					endocrine pancreas development|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|membrane fraction|polysomal ribosome	RNA binding|structural constituent of ribosome				0				OV - Ovarian serous cystadenocarcinoma(145;4.93e-07)|Epithelial(140;4.09e-06)|all cancers(34;3.78e-05)		AGGCTAAAGAACTTGCCACTA	0.413													3	15					0	0	0.000602	0	0		G	136218200	G	G	136218200	2	3	11	1	0	0	0	0	0	0	0	1	13625	40	2	3		3	RPL7A	9	136218200	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	663020	136218200	4995231	563	8955											
CAMSAP1	157922	broad.mit.edu	37	chr9	138714112	138714112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacactgctcatctgagaggCtgtgctcaggcaggggctcg	7	8	15	11	1	3	1	2	1	1	1	4	3	3	1	0	4	2	5	0	4	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:138714112C>T	uc004cgr.3	-	11	2395	c.2395G>A	c.(2395-2397)GCC>ACC	p.A799T	CAMSAP1_uc004cgq.3_Missense_Mutation_p.A689T|CAMSAP1_uc010nbg.2_Missense_Mutation_p.A521T	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	799						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		ATCTGAGAGGCTGTGCTCAGG	0.577													9	44					0	0	0.010729	0	0		T	138714112	T	T	138714112	3	4	11	1	0	0	0	0	1	0	0	0	2614	797	28	2	2441	2	CAMSAP1	9	138714112	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2495912	138714112	2499319	564	8956											
EDF1	8721	broad.mit.edu	37	chr9	139757844	139757844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagctcctctgtctcccGgtccagcttggccgtgttct	2	13	11	15	2	3	0	0	0	3	0	6	0	5	0	4	2	3	4	4	2	0	2	rs139723037		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr9:139757844G>A	uc004cjt.1	-	3	215	c.187C>T	c.(187-189)CGG>TGG	p.R63W	EDF1_uc004cju.1_Missense_Mutation_p.R63W	NM_003792	NP_003783	O60869	EDF1_HUMAN	endothelial differentiation-related factor 1	63	Interaction with NR5A2, PPARG and NR1H3.				endothelial cell differentiation|multicellular organismal development|positive regulation of DNA binding|positive regulation of transcription, DNA-dependent|regulation of lipid metabolic process|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleolus|nucleus	calmodulin binding|protein binding|protein binding|sequence-specific DNA binding|transcription coactivator activity				0	all_cancers(76;0.0841)|all_epithelial(76;0.217)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		TCTGTCTCCCGGTCCAGCTTG	0.572													10	23					0	0	0.008291	0	0		A	139757844	A	A	139757844	3	1	11	1	0	0	0	0	1	0	0	0	4920	1115	39	1	306	1	EDF1	9	139757844	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1043732	139757844	1455587	565	8957											
UPF2	26019	broad.mit.edu	37	chr10	12006024	12006024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccaaaagtacactggtcCtcaggtgagattctggagat	12	11	10	8	0	2	2	1	1	1	2	3	4	3	2	2	3	2	1	2	3	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:12006024C>T	uc001ila.2	-	10	2642	c.2168G>A	c.(2167-2169)AGG>AAG	p.R723K	UPF2_uc001ilb.2_Missense_Mutation_p.R723K|UPF2_uc001ilc.2_Missense_Mutation_p.R723K|UPF2_uc009xiz.1_Missense_Mutation_p.R723K	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	723	MIF4G 2.|Sufficient for interaction with UPF3A and UPF3B.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				TACACTGGTCCTCAGGTGAGA	0.458													42	210					0	0	0.013114	0	0		T	12006024	T	T	12006024	3	4	11	1	0	0	0	0	1	0	0	0	17030	681	24	4	1698	4	UPF2	10	12006024	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08		12006024	123528723	566	8958											
UPF2	26019	broad.mit.edu	37	chr10	12071324	12071324	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccattaaaatcatgggacaAggagtctctctgttgttctg	10	13	10	8	0	4	0	1	0	3	0	5	2	4	2	1	2	0	2	1	2	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:12071324A>C	uc001ila.2	-	2	1039	c.565T>G	c.(565-567)TTG>GTG	p.L189V	UPF2_uc001ilb.2_Missense_Mutation_p.L189V|UPF2_uc001ilc.2_Missense_Mutation_p.L189V|UPF2_uc009xiz.1_Missense_Mutation_p.L189V	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	189	MIF4G 1.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				TCATGGGACAAGGAGTCTCTC	0.383													8	92					0	0	0.004482	0	0		C	12071324	C	C	12071324	3	2	11	1	0	0	0	0	1	0	0	0	17030	69	3	5	3333	5	UPF2	10	12071324	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	65300	12071324	123463423	567	8959											
CUBN	8029	broad.mit.edu	37	chr10	16942758	16942758	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacagtattgtcctatgAtgggtgattcaggggaccca	9	12	11	9	0	1	2	1	2	0	0	3	3	3	3	3	3	0	1	3	3	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:16942758A>G	uc001ioo.2	-	53	8328	c.8276T>C	c.(8275-8277)ATC>ACC	p.I2759T	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Missense_Mutation_p.I115T	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2759	CUB 20.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTGTCCTATGATGGGTGATTC	0.463													4	44					0	0	0.009096	0	0		G	16942758	G	G	16942758	3	3	11	1	0	0	0	0	1	0	0	0	4054	333	12	3	2655	3	CUBN	10	16942758	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	4871434	16942758	118591989	568	8960											
SLC39A12	221074	broad.mit.edu	37	chr10	18276457	18276457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctcacactgggctccatGctggggacagcgctggtcct	5	10	12	14	1	1	0	1	0	1	0	4	1	3	1	2	4	2	3	2	4	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:18276457G>A	uc001ipo.2	+	7	1419	c.1146G>A	c.(1144-1146)ATG>ATA	p.M382I	SLC39A12_uc001ipn.2_Missense_Mutation_p.M382I|SLC39A12_uc001ipp.2_Missense_Mutation_p.M382I|SLC39A12_uc010qck.1_Missense_Mutation_p.M248I	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	382	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						TGGGCTCCATGCTGGGGACAG	0.557													8	36					0	0	0.00308	0	0		A	18276457	A	A	18276457	3	1	11	1	0	0	0	0	1	0	0	0	14640	1319	46	2	1168	2	SLC39A12	10	18276457	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1333699	18276457	117258290	569	8961											
YME1L1	10730	broad.mit.edu	37	chr10	27403477	27403477	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggattcttatttcttgttcGatggcagattgggtttctgg	6	18	12	5	1	3	1	0	0	3	1	4	3	3	2	0	4	0	3	0	4	1	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:27403477G>A	uc001iti.2	-	19	2333	c.2151C>T	c.(2149-2151)ATC>ATT	p.I717I	YME1L1_uc001itj.2_Silent_p.I660I|YME1L1_uc010qdl.1_Silent_p.I627I|YME1L1_uc009xkv.2_RNA	NM_139312	NP_647473	Q96TA2	YMEL1_HUMAN	YME1-like 1 isoform 1	717					protein catabolic process|proteolysis	membrane|mitochondrion	ATP binding|metal ion binding|metalloendopeptidase activity|nucleoside-triphosphatase activity			ovary(1)	1						TTTCTTGTTCGATGGCAGATT	0.333													7	64					0	0	0.00308	0	0		A	27403477	A	A	27403477	2	1	11	1	0	0	0	0	0	0	0	1	17513	1048	37	1		1	YME1L1	10	27403477	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	9127020	27403477	108131270	570	8962											
MPP7	143098	broad.mit.edu	37	chr10	28420597	28420597	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtaattcttctgagccacAgtatcatgtacagagagcaa	13	11	8	9	1	3	2	1	1	2	1	4	3	3	2	1	0	3	4	1	0	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:28420597A>G	uc001iua.1	-	8	743	c.339T>C	c.(337-339)ACT>ACC	p.T113T	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Silent_p.T113T|MPP7_uc009xla.2_Silent_p.T113T|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	113	L27 2.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						TCTGAGCCACAGTATCATGTA	0.299													10	57					0	0	0.013537	0	0		G	28420597	G	G	28420597	2	3	11	1	0	0	0	0	0	0	0	1	9757	175	7	3		3	MPP7	10	28420597	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1017120	28420597	107114150	571	8963											
KIAA1462	57608	broad.mit.edu	37	chr10	30317027	30317027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgatctctgtaccggtGccctggccaagagccagaat	8	10	11	12	1	1	3	0	1	1	2	2	3	1	3	4	2	4	2	4	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:30317027G>A	uc001iux.2	-	2	2109	c.2050C>T	c.(2050-2052)CAC>TAC	p.H684Y	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.H546Y|KIAA1462_uc009xle.1_Missense_Mutation_p.H684Y	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	684										ovary(4)	4						CTGTACCGGTGCCCTGGCCAA	0.532													11	50					0	0	0.008291	0	0		A	30317027	A	A	30317027	3	1	11	1	0	0	0	0	1	0	0	0	8250	1319	46	2	2037	2	KIAA1462	10	30317027	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1896430	30317027	105217720	572	8964											
ZEB1	6935	broad.mit.edu	37	chr10	31791321	31791321	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagaaaatgagcaaaaccAtgatcctaatgttgaagagt	17	9	9	6	0	0	5	0	3	0	2	1	5	1	5	2	0	3	3	2	0	6	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:31791321A>G	uc001ivs.3	+	4	428	c.365A>G	c.(364-366)CAT>CGT	p.H122R	ZEB1_uc001ivr.3_5'UTR|ZEB1_uc010qee.1_5'UTR|ZEB1_uc010qef.1_5'UTR|ZEB1_uc009xlh.1_RNA|ZEB1_uc009xli.1_RNA|ZEB1_uc009xlj.1_Intron|ZEB1_uc010qeg.1_Intron|ZEB1_uc009xlk.1_5'UTR|ZEB1_uc001ivt.3_5'UTR|ZEB1_uc001ivu.3_Missense_Mutation_p.H123R|ZEB1_uc001ivv.3_Missense_Mutation_p.H102R|ZEB1_uc010qeh.1_Missense_Mutation_p.H55R|ZEB1_uc009xll.2_RNA|ZEB1_uc009xlm.1_RNA|ZEB1_uc009xln.1_RNA|ZEB1_uc009xlo.1_Missense_Mutation_p.H105R|ZEB1_uc009xlp.2_Missense_Mutation_p.H106R	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	122					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				GAGCAAAACCATGATCCTAAT	0.403													7	72					0	0	0.004482	0	0		G	31791321	G	G	31791321	3	3	11	1	0	0	0	0	1	0	0	0	17648	217	8	3	393	3	ZEB1	10	31791321	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1474294	31791321	103743426	573	8965											
CCDC7	221016	broad.mit.edu	37	chr10	32740668	32740668	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acataatttaccattatcacCtgagctaaaggaaaaacata	19	10	4	8	0	1	1	1	1	0	0	1	2	1	2	2	1	3	1	2	1	8	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:32740668C>A	uc001iwj.2	+	2	668	c.98C>A	c.(97-99)CCT>CAT	p.P33H	CCDC7_uc009xlu.1_RNA|CCDC7_uc001iwk.2_Missense_Mutation_p.P33H|CCDC7_uc009xlv.2_RNA|CCDC7_uc009xlw.1_RNA|CCDC7_uc009xlx.1_Missense_Mutation_p.P33H|CCDC7_uc009xly.1_RNA	NM_145023	NP_659460	Q96M83	CCDC7_HUMAN	coiled-coil domain containing 7	33											0		Breast(68;0.000207)|Prostate(175;0.0107)				CCATTATCACCTGAGCTAAAG	0.343													10	55					1.58986e-06	1.77451e-06	0.008291	1	0		A	32740668	A	A	32740668	3	1	11	1	0	0	0	0	1	0	0	0	2845	681	24	5	100	5	CCDC7	10	32740668	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	949347	32740668	102794079	574	8966											
ITGB1	3688	broad.mit.edu	37	chr10	33209310	33209310	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaatgacttctgaggaaaGggactaaaagaatgcctaat	18	8	9	6	0	1	3	0	2	1	1	1	5	1	5	1	2	1	0	1	2	7	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:33209310G>T	uc001iws.3	-	10	1268	c.1132C>A	c.(1132-1134)CTT>ATT	p.L378I	ITGB1_uc001iwp.3_Missense_Mutation_p.L378I|ITGB1_uc001iwq.3_Missense_Mutation_p.L378I|ITGB1_uc001iwr.3_Missense_Mutation_p.L378I|ITGB1_uc001iwt.3_Missense_Mutation_p.L378I|ITGB1_uc001iwu.1_Missense_Mutation_p.L378I	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	378	Extracellular (Potential).|VWFA.				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				TCTGAGGAAAGGGACTAAAAG	0.353													8	79					3.09899e-07	3.50075e-07	0.004482	1	0		T	33209310	T	T	33209310	3	4	11	1	0	0	0	0	1	0	0	0	7906	1000	35	5	1530	5	ITGB1	10	33209310	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	468642	33209310	102325437	575	8967											
NRP1	8829	broad.mit.edu	37	chr10	33469287	33469287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaccttcgtatcctggcGtgctccctatggaaaaaaac	10	11	7	13	2	1	0	1	0	0	0	4	1	3	1	3	2	2	2	3	2	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:33469287G>A	uc001iwx.3	-	17	3012	c.2489C>T	c.(2488-2490)ACG>ATG	p.T830M	NRP1_uc001iwv.3_Missense_Mutation_p.T813M|NRP1_uc009xlz.2_Missense_Mutation_p.T824M|NRP1_uc001iww.3_Missense_Mutation_p.T642M|NRP1_uc001iwy.3_Missense_Mutation_p.T823M	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	830	Extracellular (Potential).				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	GTATCCTGGCGTGCTCCCTAT	0.473													15	87					0	0	0.004007	0	0		A	33469287	A	A	33469287	3	1	11	1	0	0	0	0	1	0	0	0	10679	1145	40	1	286	1	NRP1	10	33469287	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	259977	33469287	102065460	576	8968											
BMS1	9790	broad.mit.edu	37	chr10	43297650	43297650	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgataaagatgcagccaaGgtcttagcagaagatggtaa	16	8	12	5	0	1	4	0	1	1	3	1	5	1	4	1	2	3	3	1	2	6	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:43297650G>T	uc001jaj.2	+	13	2671	c.2313G>T	c.(2311-2313)AAG>AAT	p.K771N		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	771					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						ATGCAGCCAAGGTCTTAGCAG	0.398													8	67					2.80697e-09	3.20412e-09	0.010729	1	0		T	43297650	T	T	43297650	3	4	11	1	0	0	0	0	1	0	0	0	1473	991	35	5	2359	5	BMS1	10	43297650	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	9828363	43297650	92237097	577	8969											
CSGALNACT2	55454	broad.mit.edu	37	chr10	43656003	43656003	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtattttggtaaagaaGgactgtctaaagtcaagtct	12	14	11	4	0	3	1	1	0	2	1	3	2	3	2	0	3	0	2	0	3	7	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:43656003G>T	uc001jan.2	+	4	1275	c.940G>T	c.(940-942)GGA>TGA	p.G314*	CSGALNACT2_uc001jam.1_Nonsense_Mutation_p.G314*	NM_018590	NP_061060	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate	314	Lumenal (Potential).				chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process	Golgi cisterna membrane|integral to Golgi membrane	glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding			ovary(1)	1						TGGTAAAGAAGGACTGTCTAA	0.353													9	50					9.70103e-10	1.11027e-09	0.008291	1	0		T	43656003	T	T	43656003	4	4	11	1	0	0	0	0	0	1	0	0	3942	1001	35	5	950	5	CSGALNACT2	10	43656003	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	358353	43656003	91878744	578	8970											
ALOX5	240	broad.mit.edu	37	chr10	45877991	45877991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatccagctggtcagaatcGagaagcgcaagtactggctg	12	7	13	9	2	1	3	1	0	0	3	3	4	2	3	1	2	3	4	1	2	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:45877991G>A	uc001jce.2	+	2	310	c.211G>A	c.(211-213)GAG>AAG	p.E71K	ALOX5_uc009xmt.2_Missense_Mutation_p.E71K|ALOX5_uc010qfg.1_Missense_Mutation_p.E71K	NM_000698	NP_000689	P09917	LOX5_HUMAN	arachidonate 5-lipoxygenase	71	PLAT.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	cytosol|nuclear envelope lumen|nuclear matrix|nuclear membrane	arachidonate 5-lipoxygenase activity|iron ion binding|lipoxygenase activity|protein binding			ovary(1)|pancreas(1)	2		Lung SC(717;0.0257)			Diethylcarbamazine(DB00711)|Hydrocortisone(DB00741)|Leflunomide(DB01097)|Masoprocol(DB00179)|Meclofenamic acid(DB00939)|Minocycline(DB01017)|Montelukast(DB00471)|Quinacrine(DB01103)|Vitamin E(DB00163)|Zileuton(DB00744)	GGTCAGAATCGAGAAGCGCAA	0.567													8	63					0	0	0.004482	0	0		A	45877991	A	A	45877991	3	1	11	1	0	0	0	0	1	0	0	0	540	1059	37	1	217	1	ALOX5	10	45877991	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2221988	45877991	89656756	579	8971											
RBP3	5949	broad.mit.edu	37	chr10	48390672	48390672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcagcacactggccagcGtctgcgggtctgagatgctc	6	9	13	13	2	3	1	1	1	2	1	4	2	3	1	1	2	4	2	1	2	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:48390672G>A	uc001jez.2	-	1	320	c.206C>T	c.(205-207)ACG>ATG	p.T69M		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	69	4 X approximate tandem repeats.|1.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	ACTGGCCAGCGTCTGCGGGTC	0.607													4	19					0	0	0.001984	0	0		A	48390672	A	A	48390672	3	1	11	1	0	0	0	0	1	0	0	0	13182	1145	40	1	3553	1	RBP3	10	48390672	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2512681	48390672	87144075	580	8972											
FAM13C	220965	broad.mit.edu	37	chr10	61043190	61043190	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgggtccttgactccatgCacctgagcagcttcttcctg	5	11	10	15	1	1	2	0	2	1	0	4	2	4	2	5	1	3	3	5	1	0	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:61043190C>T	uc001jkn.2	-	7	659	c.525G>A	c.(523-525)GTG>GTA	p.V175V	FAM13C_uc001jko.2_Silent_p.V175V|FAM13C_uc010qid.1_Silent_p.V92V|FAM13C_uc010qie.1_Silent_p.V92V|FAM13C_uc010qif.1_Silent_p.V197V|FAM13C_uc001jkp.2_Silent_p.V92V	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	175										ovary(2)	2						TGACTCCATGCACCTGAGCAG	0.527													21	120					0	0	0.00333	0	0		T	61043190	T	T	61043190	2	4	11	1	0	0	0	0	0	0	0	1	5465	697	25	2		2	FAM13C	10	61043190	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	12652518	61043190	74491557	581	8973											
HNRNPH3	3189	broad.mit.edu	37	chr10	70097668	70097668	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgatggactaccaggggagaAgcacaggggaggccttcgtg	10	5	17	9	2	0	1	0	0	0	1	1	5	0	3	2	6	2	1	2	6	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:70097668A>C	uc001jnw.3	+	3	395	c.166A>C	c.(166-168)AGC>CGC	p.S56R	HNRNPH3_uc001jnx.3_Missense_Mutation_p.S56R|HNRNPH3_uc009xpu.2_5'UTR|HNRNPH3_uc010qiv.1_Intron|HNRNPH3_uc001jny.3_Missense_Mutation_p.S7R	NM_012207	NP_036339	P31942	HNRH3_HUMAN	heterogeneous nuclear ribonucleoprotein H3	56	RRM 1.				nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|protein binding|RNA binding			ovary(2)	2						CCAGGGGAGAAGCACAGGGGA	0.488													18	115					0	0	0.006122	0	0		C	70097668	C	C	70097668	3	2	11	1	0	0	0	0	1	0	0	0	7284	72	3	5	172	5	HNRNPH3	10	70097668	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	9054478	70097668	65437079	582	8974											
C10orf27	219793	broad.mit.edu	37	chr10	72539499	72539499	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacaggcttcccggtgagatCtgcaaagggttagaggctgt	9	9	15	8	1	1	2	0	1	1	2	2	4	2	2	1	4	1	4	1	4	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:72539499C>T	uc001jrj.1	-	5	668	c.278_splice	c.e5-1	p.D93_splice	C10orf27_uc010qjm.1_Splice_Site_p.D93_splice|C10orf27_uc009xqh.1_Splice_Site|C10orf27_uc010qjn.1_Splice_Site_p.D93_splice|C10orf27_uc009xqi.1_Intron|C10orf27_uc010qjo.1_Splice_Site_p.D82_splice|C10orf27_uc009xqj.1_Silent_p.Q87Q|C10orf27_uc010qjp.1_Splice_Site_p.D82_splice	NM_152710	NP_689923	Q96M53	SPATL_HUMAN	stromal protein associated with thymii and lymph						cell differentiation|multicellular organismal development|spermatogenesis	cytosol				skin(1)	1						CCGGTGAGATCTGCAAAGGGT	0.577													11	40					0	0	0.013537	0	0		T	72539499	T	T	72539499	5	4	11	1	0	0	0	0	0	0	1	0	1603	927	32	4	806	4	C10orf27	10	72539499	Splice_Site	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2441831	72539499	62995248	583	8975											
SLC29A3	55315	broad.mit.edu	37	chr10	73121832	73121832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcccacacaccccctctcCgccccatcctgaagaagacg	10	6	5	20	2	1	3	0	1	1	2	4	3	3	3	7	0	0	0	7	0	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:73121832C>T	uc001jrr.3	+	6	952	c.895C>T	c.(895-897)CGC>TGC	p.R299C	SLC29A3_uc001jrs.3_3'UTR|SLC29A3_uc010qjq.1_Missense_Mutation_p.R153C|SLC29A3_uc001jrt.3_Missense_Mutation_p.R93C|SLC29A3_uc001jru.3_Missense_Mutation_p.R111C	NM_018344	NP_060814	Q9BZD2	S29A3_HUMAN	solute carrier family 29 (nucleoside	299	Cytoplasmic (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to membrane|late endosome membrane|lysosomal membrane	nucleoside transmembrane transporter activity				0						ACCCCCTCTCCGCCCCATCCT	0.587													12	86					0	0	0.001855	0	0		T	73121832	T	T	73121832	3	4	11	1	0	0	0	0	1	0	0	0	14561	652	23	1	921	1	SLC29A3	10	73121832	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	582333	73121832	62412915	584	8976											
FUT11	170384	broad.mit.edu	37	chr10	75533570	75533570	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagattcctgagaatgAcaggtaagagtgctggggtc	12	8	16	5	0	0	4	0	2	0	3	2	7	1	5	1	4	1	2	1	4	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:75533570A>G	uc001jva.2	+	2	1374	c.1331A>G	c.(1330-1332)GAC>GGC	p.D444G	FUT11_uc001juy.1_3'UTR|FUT11_uc001juz.1_Missense_Mutation_p.D444G	NM_173540	NP_775811	Q495W5	FUT11_HUMAN	fucosyltransferase 11 (alpha (1,3)	444	Lumenal (Potential).				protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity				0	Prostate(51;0.0112)					CCTGAGAATGACAGGTAAGAG	0.537													10	83					0	0	0.00245	0	0		G	75533570	G	G	75533570	3	3	11	1	0	0	0	0	1	0	0	0	6117	275	10	3	1337	3	FUT11	10	75533570	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	2411738	75533570	60001177	585	8977											
PPIF	10105	broad.mit.edu	37	chr10	81113488	81113488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggcaagcatgttgtgttcGgtcacgtcaaagagggcatg	10	10	14	7	2	2	1	2	0	0	1	3	1	2	1	0	3	1	5	0	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:81113488G>A	uc001kai.2	+	6	599	c.514G>A	c.(514-516)GGT>AGT	p.G172S	PPIF_uc001kaj.2_Silent_p.S146S	NM_005729	NP_005720	P30405	PPIF_HUMAN	peptidylprolyl isomerase F precursor	172	PPIase cyclophilin-type.				protein folding	membrane fraction|mitochondrial matrix	peptidyl-prolyl cis-trans isomerase activity			skin(1)	1	all_cancers(46;0.0893)|Breast(12;8.52e-05)|all_epithelial(25;0.00449)|Prostate(51;0.00985)		Epithelial(14;0.00242)|all cancers(16;0.0069)|Colorectal(32;0.229)		Dimethyl sulfoxide(DB01093)|L-Proline(DB00172)	TGTTGTGTTCGGTCACGTCAA	0.512													17	78					0	0	0.008871	0	0		A	81113488	A	A	81113488	3	1	11	1	0	0	0	0	1	0	0	0	12345	1116	39	1	536	1	PPIF	10	81113488	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	5579918	81113488	54421259	586	8978											
PPIF	10105	broad.mit.edu	37	chr10	81113585	81113585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gattgtcatcacagactgtgGccagttgagctaatctgtgg	9	12	12	8	0	3	2	2	1	1	1	3	3	3	2	1	2	1	2	1	2	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:81113585G>A	uc001kai.2	+	6	696	c.611G>A	c.(610-612)GGC>GAC	p.G204D	PPIF_uc001kaj.2_3'UTR	NM_005729	NP_005720	P30405	PPIF_HUMAN	peptidylprolyl isomerase F precursor	204	PPIase cyclophilin-type.				protein folding	membrane fraction|mitochondrial matrix	peptidyl-prolyl cis-trans isomerase activity			skin(1)	1	all_cancers(46;0.0893)|Breast(12;8.52e-05)|all_epithelial(25;0.00449)|Prostate(51;0.00985)		Epithelial(14;0.00242)|all cancers(16;0.0069)|Colorectal(32;0.229)		Dimethyl sulfoxide(DB01093)|L-Proline(DB00172)	ACAGACTGTGGCCAGTTGAGC	0.542													11	30					0	0	0.010729	0	0		A	81113585	A	A	81113585	3	1	11	1	0	0	0	0	1	0	0	0	12345	1203	42	2	633	2	PPIF	10	81113585	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	97	81113585	54421162	587	8979											
SFTPA2	729238	broad.mit.edu	37	chr10	81317088	81317088	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccctcggtaccagttggtGtagtttacaggggtcccatc	6	12	11	12	1	0	0	0	0	0	0	4	0	2	0	4	4	2	4	4	4	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:81317088G>A	uc001kal.3	-	6	721	c.624C>T	c.(622-624)TAC>TAT	p.Y208Y	SFTPA2_uc001kan.3_Silent_p.Y208Y	NM_006926	NP_008857	Q8IWL1	SFPA2_HUMAN	RecName: Full=Pulmonary surfactant-associated protein A2;          Short=SP-A2;          Short=SP-A;          Short=PSP-A;          Short=PSPA; AltName: Full=Alveolar proteinosis protein; AltName: Full=35 kDa pulmonary surfactant-associated protein; Flags: Precursor;	208	C-type lectin.				cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			ACCAGTTGGTGTAGTTTACAG	0.547									Pulmonary_Fibrosis_Idiopathic				31	179					0	0	0.004289	0	0		A	81317088	A	A	81317088	2	1	11	1	0	0	0	0	0	0	0	1	14215	1372	48	4		4	SFTPA2	10	81317088	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	203503	81317088	54217659	588	8980											
KIF20B	9585	broad.mit.edu	37	chr10	91483733	91483733	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtaatagaaactgttggacTtaatagaagacttgaaaaaa	19	11	8	3	0	0	4	0	1	0	3	0	5	0	5	0	1	1	2	0	1	9	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:91483733T>C	uc001kgs.1	+	14	1807	c.1735T>C	c.(1735-1737)TTA>CTA	p.L579L	KIF20B_uc001kgr.1_Silent_p.L579L|KIF20B_uc001kgt.1_5'UTR	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	579	Potential.				cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						ACTGTTGGACTTAATAGAAGA	0.254													16	47					0	0	0.00499	0	0		C	91483733	C	C	91483733	2	2	11	1	0	0	0	0	0	0	0	1	8303	1606	56	3		3	KIF20B	10	91483733	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	10166645	91483733	44051014	589	8981											
EXOC6	54536	broad.mit.edu	37	chr10	94712135	94712135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttcagagtcactacacCggaggtgagtttactaatca	13	12	8	8	1	3	2	3	1	0	1	3	3	3	3	1	2	2	1	1	2	4	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:94712135C>T	uc001kig.2	+	15	1588	c.1522C>T	c.(1522-1524)CGG>TGG	p.R508W	EXOC6_uc010qnr.1_Missense_Mutation_p.R524W|EXOC6_uc001kie.2_Missense_Mutation_p.R503W|EXOC6_uc009xub.2_Missense_Mutation_p.R507W|EXOC6_uc009xuc.2_Missense_Mutation_p.R405W|EXOC6_uc001kih.2_RNA|EXOC6_uc001kii.2_Missense_Mutation_p.R82W	NM_019053	NP_061926	Q8TAG9	EXOC6_HUMAN	SEC15-like 1 isoform a	508					protein transport|vesicle docking involved in exocytosis	exocyst				skin(1)	1		Colorectal(252;0.123)				GTCACTACACCGGAGGTGAGT	0.284													10	53					0	0	0.006214	0	0		T	94712135	T	T	94712135	3	4	11	1	0	0	0	0	1	0	0	0	5316	643	23	1	1670	1	EXOC6	10	94712135	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3228402	94712135	40822612	590	8982											
MYOF	26509	broad.mit.edu	37	chr10	95083098	95083098	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcttggggaaaacatccacCcacatctgaagttttcccta	11	11	6	13	0	2	1	0	1	2	0	4	2	4	2	3	2	1	1	3	2	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:95083098C>A	uc001kin.2	-	47	5412	c.5289G>T	c.(5287-5289)TGG>TGT	p.W1763C	MYOF_uc001kio.2_Missense_Mutation_p.W1750C|MYOF_uc009xue.2_Intron	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1763	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						AAACATCCACCCACATCTGAA	0.433													10	62					0.00829132	0.00881037	0.008291	1	0		A	95083098	A	A	95083098	3	1	11	1	0	0	0	0	1	0	0	0	10107	624	22	5	928	5	MYOF	10	95083098	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	370963	95083098	40451649	591	8983											
ENTPD1	953	broad.mit.edu	37	chr10	97624518	97624518	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtaaaggagaagtaccTgagtgaatactgcttttctg	12	12	12	5	0	1	3	0	2	1	1	1	5	1	4	1	2	3	3	1	2	6	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:97624518T>C	uc001klh.3	+	9	1550	c.1226T>C	c.(1225-1227)CTG>CCG	p.L409P	ENTPD1_uc001kli.3_Missense_Mutation_p.L416P|uc001klg.1_Intron|ENTPD1_uc010qoj.1_Missense_Mutation_p.L421P|ENTPD1_uc010qok.1_Missense_Mutation_p.L301P|ENTPD1_uc010qol.1_Missense_Mutation_p.L301P|ENTPD1_uc010qom.1_Missense_Mutation_p.L368P|ENTPD1_uc010qon.1_Missense_Mutation_p.L271P|ENTPD1_uc009xva.2_Missense_Mutation_p.L271P|ENTPD1_uc009xuz.2_RNA	NM_001776	NP_001767	P49961	ENTP1_HUMAN	ectonucleoside triphosphate diphosphohydrolase 1	409	Extracellular (Potential).				cell adhesion	integral to plasma membrane	ATP binding			ovary(3)	3		Colorectal(252;0.0821)		Epithelial(162;1.31e-07)|all cancers(201;5.33e-06)		GAGAAGTACCTGAGTGAATAC	0.453													15	82					0	0	0.00499	0	0		C	97624518	C	C	97624518	3	2	11	1	0	0	0	0	1	0	0	0	5146	1580	55	3	1357	3	ENTPD1	10	97624518	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2541420	97624518	37910229	592	8984											
RRP12	23223	broad.mit.edu	37	chr10	99139083	99139083	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgttagccaggggcaagaAgtaggtggtgaaaaaaccaa	15	6	15	5	0	0	2	0	1	0	1	0	2	0	2	2	5	2	3	2	5	8	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:99139083A>C	uc001knf.2	-	15	1904	c.1765T>G	c.(1765-1767)TTC>GTC	p.F589V	RRP12_uc009xvm.2_Missense_Mutation_p.F307V|RRP12_uc010qou.1_Missense_Mutation_p.F528V|RRP12_uc009xvn.2_Missense_Mutation_p.F489V	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	589						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		AGGGGCAAGAAGTAGGTGGTG	0.537													23	196					0	0	0.00333	0	0		C	99139083	C	C	99139083	3	2	11	1	0	0	0	0	1	0	0	0	13711	72	3	5	2208	5	RRP12	10	99139083	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1514565	99139083	36395664	593	8985											
AVPI1	60370	broad.mit.edu	37	chr10	99439420	99439420	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagtggcccaggggtttctgCcttgggggcctcttcctgcg	2	11	16	12	1	2	0	0	0	2	0	3	1	3	0	4	5	2	1	4	5	0	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:99439420C>T	uc001koh.1	-	2	354	c.243G>A	c.(241-243)AGG>AGA	p.R81R	AVPI1_uc001koi.2_Silent_p.R81R	NM_021732	NP_068378	Q5T686	AVPI1_HUMAN	vasopressin-induced protein, 32kDa	81				R -> K (in Ref. 3; BAD96819).	cell cycle					breast(1)	1		Colorectal(252;0.162)		Epithelial(162;8.37e-11)|all cancers(201;7.94e-09)		GGGGTTTCTGCCTTGGGGGCC	0.577													4	11					0	0	0.000602	0	0		T	99439420	T	T	99439420	2	4	11	1	0	0	0	0	0	0	0	1	1231	738	26	2		2	AVPI1	10	99439420	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	300337	99439420	36095327	594	8986											
LOXL4	84171	broad.mit.edu	37	chr10	100017916	100017916	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggagcgcaggcgcaccctCggctcctgctgggagaaacc	7	4	14	16	4	0	1	0	0	0	1	2	3	1	2	4	4	3	4	4	4	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:100017916C>T	uc001kpa.1	-	7	1078	c.927G>A	c.(925-927)CCG>CCA	p.P309P		NM_032211	NP_115587	Q96JB6	LOXL4_HUMAN	lysyl oxidase-like 4 precursor	309						extracellular space|membrane	copper ion binding|protein binding|scavenger receptor activity			ovary(3)|breast(1)|skin(1)	5		Colorectal(252;0.234)		Epithelial(162;2.14e-11)|all cancers(201;2.49e-09)		GGCGCACCCTCGGCTCCTGCT	0.687													5	13					0	0	0.000602	0	0		T	100017916	T	T	100017916	2	4	11	1	0	0	0	0	0	0	0	1	8920	871	31	1		1	LOXL4	10	100017916	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	578496	100017916	35516831	595	8987											
PYROXD2	84795	broad.mit.edu	37	chr10	100147059	100147059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcatagacctcgatgcaatCaaacactggggtgccaaaaa	15	6	10	10	1	1	1	1	0	0	1	2	2	1	1	2	3	3	2	2	3	5	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:100147059C>T	uc001kpc.2	-	14	1539	c.1453G>A	c.(1453-1455)GAT>AAT	p.D485N	PYROXD2_uc001kpb.2_RNA|PYROXD2_uc001kpd.2_RNA	NM_032709	NP_116098	Q8N2H3	PYRD2_HUMAN	pyridine nucleotide-disulphide oxidoreductase	485							oxidoreductase activity			central_nervous_system(1)	1						TCGATGCAATCAAACACTGGG	0.408													9	34					0	0	0.004482	0	0		T	100147059	T	T	100147059	3	4	11	1	0	0	0	0	1	0	0	0	12892	826	29	4	304	4	PYROXD2	10	100147059	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	129143	100147059	35387688	596	8988											
MGEA5	10724	broad.mit.edu	37	chr10	103558747	103558747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtaactgcaaatcctccaggGtcactggttccgcagtgtac	9	10	10	12	1	1	0	1	0	0	0	4	0	4	0	3	2	3	5	3	2	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:103558747G>A	uc001ktv.2	-	9	2104	c.1661C>T	c.(1660-1662)ACC>ATC	p.T554I	MGEA5_uc001ktu.2_RNA|MGEA5_uc010qqe.1_Missense_Mutation_p.T501I|MGEA5_uc009xws.2_Missense_Mutation_p.T501I|MGEA5_uc001ktw.2_Missense_Mutation_p.T554I|MGEA5_uc009xwt.2_Missense_Mutation_p.T317I	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	554					glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		ATCCTCCAGGGTCACTGGTTC	0.468													24	113					0	0	0.005443	0	0		A	103558747	A	A	103558747	3	1	11	1	0	0	0	0	1	0	0	0	9573	1261	44	4	1121	4	MGEA5	10	103558747	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3411688	103558747	31976000	597	8989											
NOLC1	9221	broad.mit.edu	37	chr10	103921390	103921390	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagaagataaagcttcagAcccctaacacatttccaaaa	18	7	4	12	0	1	3	1	0	0	3	2	3	2	3	4	0	2	1	4	0	7	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:103921390A>G	uc001kuo.2	+	11	2054	c.1819A>G	c.(1819-1821)ACC>GCC	p.T607A	NOLC1_uc001kup.2_Missense_Mutation_p.T617A|NOLC1_uc001kuq.2_Missense_Mutation_p.T608A|NOLC1_uc009xxb.1_Missense_Mutation_p.T326A|NOLC1_uc001kur.2_Missense_Mutation_p.T326A	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	607	Nuclear localization signal (Potential).				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		AAAGCTTCAGACCCCTAACAC	0.428													7	28					0	0	0.004482	0	0		G	103921390	G	G	103921390	3	3	11	1	0	0	0	0	1	0	0	0	10548	275	10	3	1861	3	NOLC1	10	103921390	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	362643	103921390	31613357	598	8990											
GBF1	8729	broad.mit.edu	37	chr10	104120057	104120057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatgattcacatgggactgCatttgctgacagtggccctt	8	14	10	9	0	1	2	1	2	0	0	1	3	1	3	1	2	2	2	1	2	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:104120057C>T	uc001kux.1	+	12	1534	c.1294C>T	c.(1294-1296)CAT>TAT	p.H432Y	GBF1_uc001kuw.2_3'UTR|GBF1_uc001kuy.1_Missense_Mutation_p.H432Y|GBF1_uc001kuz.1_Missense_Mutation_p.H433Y	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	432					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CATGGGACTGCATTTGCTGAC	0.547													21	153					0	0	0.013726	0	0		T	104120057	T	T	104120057	3	4	11	1	0	0	0	0	1	0	0	0	6286	710	25	2	1336	2	GBF1	10	104120057	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	198667	104120057	31414690	599	8991											
NFKB2	4791	broad.mit.edu	37	chr10	104156720	104156720	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtaacacacagtgacccAcctcgtgctcatgcccacag	10	7	8	16	1	1	1	1	1	0	0	2	1	1	1	3	1	3	2	3	1	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:104156720A>G	uc001kvb.2	+	6	568	c.303A>G	c.(301-303)CCA>CCG	p.P101P	NFKB2_uc001kva.2_Silent_p.P101P|NFKB2_uc010qqk.1_Silent_p.P101P|NFKB2_uc001kvd.2_Silent_p.P101P|NFKB2_uc009xxc.2_Silent_p.P101P	NM_001077494	NP_001070962	Q00653	NFKB2_HUMAN	nuclear factor of kappa light polypeptide gene	101	RHD.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	Bcl3/NF-kappaB2 complex|cytosol|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			lung(3)	3		Colorectal(252;0.00957)		Epithelial(162;3.4e-08)|all cancers(201;6.41e-07)		ACAGTGACCCACCTCGTGCTC	0.602			T	IGH@	B-NHL								4	25					0	0	0.000602	0	0		G	104156720	G	G	104156720	2	3	11	1	0	0	0	0	0	0	0	1	10395	146	6	3		3	NFKB2	10	104156720	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	36663	104156720	31378027	600	8992											
TMEM180	79847	broad.mit.edu	37	chr10	104230500	104230500	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcatgggccgctgctggcGctgtcgttcctggcgttctg	1	12	16	12	4	1	0	0	0	1	0	3	0	2	0	2	4	1	6	2	4	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:104230500G>A	uc001kvt.2	+	5	549	c.330G>A	c.(328-330)GCG>GCA	p.A110A	TMEM180_uc001kvs.2_Intron|TMEM180_uc010qql.1_Intron|TMEM180_uc010qqm.1_Intron|TMEM180_uc001kvu.2_Silent_p.A110A	NM_024789	NP_079065	Q14CX5	TM180_HUMAN	transmembrane protein 180	110	Helical; (Potential).					integral to membrane				ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CGCTGCTGGCGCTGTCGTTCC	0.682													4	36					0	0	0.000602	0	0		A	104230500	A	A	104230500	2	1	11	1	0	0	0	0	0	0	0	1	16124	1074	38	1		1	TMEM180	10	104230500	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	73780	104230500	31304247	601	8993											
OBFC1	79991	broad.mit.edu	37	chr10	105659861	105659861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgctcttctctgtatgtgCggatactgcctctgactcgg	4	14	10	13	3	3	1	0	1	3	0	6	2	3	2	1	2	3	2	1	2	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:105659861C>T	uc001kxl.2	-	4	491	c.416G>A	c.(415-417)CGC>CAC	p.R139H	OBFC1_uc001kxm.2_Missense_Mutation_p.R139H|OBFC1_uc001kxn.2_RNA	NM_024928	NP_079204	Q9H668	STN1_HUMAN	oligonucleotide/oligosaccharide-binding fold	139	OB.				positive regulation of DNA replication|telomere maintenance via telomere lengthening		protein binding|single-stranded telomeric DNA binding			ovary(1)	1		Colorectal(252;0.178)		Epithelial(162;3.39e-10)|all cancers(201;1.32e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0151)		TCTGTATGTGCGGATACTGCC	0.453													10	87					0	0	0.010729	0	0		T	105659861	T	T	105659861	3	4	11	1	0	0	0	0	1	0	0	0	10826	768	27	1	714	1	OBFC1	10	105659861	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1429361	105659861	29874886	602	8994											
ZDHHC6	64429	broad.mit.edu	37	chr10	114194118	114194118	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtccatctccttcagggacCcctgaccacgtaaatacctg	10	9	7	15	1	2	1	1	1	1	0	4	2	3	2	6	1	1	1	6	1	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:114194118C>A	uc001kzv.2	-	7	1264	c.840G>T	c.(838-840)GGG>GGT	p.G280G	ZDHHC6_uc001kzw.2_Silent_p.G276G|ZDHHC6_uc009xya.1_Silent_p.G280G	NM_022494	NP_071939	Q9H6R6	ZDHC6_HUMAN	zinc finger, DHHC-type containing 6	280						integral to membrane	acyltransferase activity|zinc ion binding				0		Colorectal(252;0.198)		Epithelial(162;0.0291)|all cancers(201;0.117)		CTTCAGGGACCCCTGACCACG	0.403													5	52					0.00116845	0.0012528	0.001168	1	0		A	114194118	A	A	114194118	2	1	11	1	0	0	0	0	0	0	0	1	17644	610	22	5		5	ZDHHC6	10	114194118	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	8534257	114194118	21340629	603	8995											
HABP2	3026	broad.mit.edu	37	chr10	115338385	115338385	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgctacctgctctctcggaGgttctgatgactgctatgtt	5	16	10	10	1	2	2	0	2	2	0	4	3	2	3	1	2	4	5	1	2	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:115338385G>T	uc001lai.3	+	7	672	c.569_splice	c.e7-1	p.G190_splice	HABP2_uc010qrz.1_Splice_Site|HABP2_uc010qry.1_Splice_Site	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein						cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		CTCTCTCGGAGGTTCTGATGA	0.517													6	73					1.12685e-05	1.23868e-05	0.004482	1	0		T	115338385	T	T	115338385	5	4	11	1	0	0	0	0	0	0	1	0	6954	1014	35	5	594	5	HABP2	10	115338385	Splice_Site	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1144267	115338385	20196362	604	8996											
NRAP	4892	broad.mit.edu	37	chr10	115402723	115402723	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattttgagatcttgctcacGttcctgaattgaggtgtttc	8	17	9	7	1	2	3	1	3	1	1	4	4	3	3	1	1	1	3	1	1	2	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:115402723G>A	uc001laj.2	-	12	1349	c.1185C>T	c.(1183-1185)AAC>AAT	p.N395N	NRAP_uc001lak.2_Intron|NRAP_uc001lal.3_Silent_p.N395N	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	395	Nebulin 9.			N -> D (in Ref. 3; CAD38623).		fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		TCTTGCTCACGTTCCTGAATT	0.423													15	81					0	0	0.006122	0	0		A	115402723	A	A	115402723	2	1	11	1	0	0	0	0	0	0	0	1	10657	1136	40	1		1	NRAP	10	115402723	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	64338	115402723	20132024	605	8997											
FGFR2	2263	broad.mit.edu	37	chr10	123276912	123276912	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtatattccccagcgtcCtcaaaagttacattccgaat	12	11	5	13	3	1	0	1	0	0	0	4	1	4	0	4	0	2	2	4	0	6	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:123276912C>A	uc010qtk.1	-	8	1652	c.1005G>T	c.(1003-1005)GAG>GAT	p.E335D	FGFR2_uc010qtg.1_Intron|FGFR2_uc010qth.1_Missense_Mutation_p.E220D|FGFR2_uc010qti.1_Missense_Mutation_p.E246D|FGFR2_uc010qtj.1_Intron|FGFR2_uc010qtl.1_Intron|FGFR2_uc010qtm.1_Missense_Mutation_p.E220D|FGFR2_uc001lfl.3_Intron|FGFR2_uc001lfm.2_Intron|FGFR2_uc001lfn.3_RNA|FGFR2_uc010qtn.1_Missense_Mutation_p.E354D|FGFR2_uc010qto.1_Missense_Mutation_p.E239D|FGFR2_uc001lfo.1_3'UTR|FGFR2_uc001lfg.3_Translation_Start_Site	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	335	Ig-like C2-type 3.|Extracellular (Potential).				angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of mesenchymal cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding			endometrium(44)|skin(28)|lung(11)|ovary(4)|cervix(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|soft_tissue(1)|central_nervous_system(1)	96		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Palifermin(DB00039)	CCCCAGCGTCCTCAAAAGTTA	0.448		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				8	77					2.17888e-05	2.38309e-05	0.006214	1	0		A	123276912	A	A	123276912	3	1	11	1	0	0	0	0	1	0	0	0	5880	680	24	5	1608	5	FGFR2	10	123276912	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	7874189	123276912	12257835	606	8998											
DMBT1	1755	broad.mit.edu	37	chr10	124345846	124345846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtggagctgcccccacaatgGctggctctcccataactgtg	7	9	11	14	0	1	0	0	0	1	0	2	1	1	1	3	3	3	3	3	3	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:124345846G>A	uc001lgk.1	+	16	1836	c.1730G>A	c.(1729-1731)GGC>GAC	p.G577D	DMBT1_uc001lgl.1_Missense_Mutation_p.G567D|DMBT1_uc001lgm.1_Intron|DMBT1_uc009xzz.1_Missense_Mutation_p.G577D|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yaa.1_Intron	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	577	SRCR 4.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				CCCCACAATGGCTGGCTCTCC	0.557													16	73					0	0	0.00333	0	0		A	124345846	A	A	124345846	3	1	11	1	0	0	0	0	1	0	0	0	4583	1203	42	2	1792	2	DMBT1	10	124345846	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1068934	124345846	11188901	607	8999											
DMBT1	1755	broad.mit.edu	37	chr10	124348500	124348500	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggctggtgaatggaggTgacaggtgtcagggccgagt	8	8	19	6	1	1	3	1	3	0	0	1	5	1	4	1	6	0	1	1	6	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:124348500T>A	uc001lgk.1	+	17	1930	c.1824T>A	c.(1822-1824)GGT>GGA	p.G608G	DMBT1_uc001lgl.1_Silent_p.G598G|DMBT1_uc001lgm.1_Intron|DMBT1_uc009xzz.1_Silent_p.G608G|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yaa.1_Intron	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	608	SRCR 5.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TGAATGGAGGTGACAGGTGTC	0.547													26	158					0	0	0.003271	0	0		A	124348500	A	A	124348500	2	1	11	1	0	0	0	0	0	0	0	1	4583	1683	59	5		5	DMBT1	10	124348500	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2654	124348500	11186247	608	9000											
GPR26	2849	broad.mit.edu	37	chr10	125447476	125447476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttctccacggtgcccatcGgctcccactggggggtgctg	3	10	13	15	2	2	0	0	0	2	0	5	0	3	0	3	5	2	2	3	5	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:125447476G>A	uc001lhh.2	+	3	867	c.814G>A	c.(814-816)GGC>AGC	p.G272S		NM_153442	NP_703143	Q8NDV2	GPR26_HUMAN	G protein-coupled receptor 26	272	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1		Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)				GGTGCCCATCGGCTCCCACTG	0.597													4	26					0	0	0.009096	0	0		A	125447476	A	A	125447476	3	1	11	1	0	0	0	0	1	0	0	0	6699	1116	39	1	824	1	GPR26	10	125447476	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1098976	125447476	10087271	609	9001											
C10orf90	118611	broad.mit.edu	37	chr10	128193584	128193584	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccctgttttctcttgacTtattctcatcaatcatctgg	7	17	6	11	0	5	1	3	1	3	0	7	1	5	1	1	2	0	1	1	2	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:128193584T>G	uc001ljq.2	-	3	306	c.185A>C	c.(184-186)AAG>ACG	p.K62T	C10orf90_uc001ljp.2_Missense_Mutation_p.K15T|C10orf90_uc010qum.1_Missense_Mutation_p.K159T|C10orf90_uc009yao.2_Missense_Mutation_p.K159T|C10orf90_uc001ljs.1_Missense_Mutation_p.K15T	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	62										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		TTCTCTTGACTTATTCTCATC	0.468													11	76					0	0	0.008291	0	0		G	128193584	G	G	128193584	3	3	11	1	0	0	0	0	1	0	0	0	1626	1609	56	5	1942	5	C10orf90	10	128193584	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2746108	128193584	7341163	610	9002											
DPYSL4	10570	broad.mit.edu	37	chr10	134006199	134006199	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcgtccctgggggcatcAagaccattgacgcccacggc	8	7	11	15	3	2	2	2	1	0	1	4	2	3	2	3	3	0	1	3	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:134006199A>G	uc009ybb.2	+	3	320	c.166A>G	c.(166-168)AAG>GAG	p.K56E		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	56					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		TGGGGGCATCAAGACCATTGA	0.582													5	43					0	0	0.000602	0	0		G	134006199	G	G	134006199	3	3	11	1	0	0	0	0	1	0	0	0	4755	131	5	3	176	3	DPYSL4	10	134006199	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	5812615	134006199	1528548	611	9003											
KNDC1	85442	broad.mit.edu	37	chr10	135013091	135013091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggtggtcaacgggcaggCgtcaccctccccaaggtggg	8	6	15	12	2	2	0	2	0	0	0	3	0	3	0	3	6	1	1	3	6	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr10:135013091C>T	uc001llz.1	+	15	2889	c.2888C>T	c.(2887-2889)GCG>GTG	p.A963V	KNDC1_uc001lma.1_Missense_Mutation_p.A898V|KNDC1_uc001lmb.1_Missense_Mutation_p.A375V	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	963					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		AACGGGCAGGCGTCACCCTCC	0.617													13	53					0	0	0.00245	0	0		T	135013091	T	T	135013091	3	4	11	1	0	0	0	0	1	0	0	0	8442	768	27	1	2946	1	KNDC1	10	135013091	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1006892	135013091	521656	612	9004											
OR52A4	390053	broad.mit.edu	37	chr11	5142251	5142251	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagcttcacaagggccacGcgttcacagtaagtgtggta	11	8	12	10	2	2	0	2	0	0	0	2	0	2	0	1	2	1	5	1	2	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:5142251G>A	uc001lzz.1	-	1	558	c.558C>T	c.(556-558)CGC>CGT	p.R186R		NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		CAAGGGCCACGCGTTCACAGT	0.418													14	77					0	0	0.00245	0	0		A	5142251	A	A	5142251	2	1	11	1	0	0	0	0	0	0	0	1	11128	1074	38	1		1	OR52A4	11	5142251	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08		5142251	129864265	613	9005											
OR51B5	282763	broad.mit.edu	37	chr11	5364322	5364322	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaatcccctcatcagaactcCcagcccaatcttcactactc	12	9	2	18	0	4	1	3	0	1	1	7	1	6	1	4	0	3	0	4	0	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:5364322C>A	uc001map.1	-	1	433	c.433G>T	c.(433-435)GGA>TGA	p.G145*	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Nonsense_Mutation_p.G145*	NM_001005567	NP_001005567	Q9H339	O51B5_HUMAN	olfactory receptor, family 51, subfamily B,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.05e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATCAGAACTCCCAGCCCAATC	0.448													15	95					7.93312e-07	8.88482e-07	0.00245	1	0		A	5364322	A	A	5364322	4	1	11	1	0	0	0	0	0	1	0	0	11110	632	22	5	509	5	OR51B5	11	5364322	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	222071	5364322	129642194	614	9006											
TRIM5	85363	broad.mit.edu	37	chr11	5701080	5701080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccagcaaatgaccttccCgtcctcctgacagaagagta	13	7	8	13	1	0	4	0	2	0	2	3	4	3	4	5	0	2	2	5	0	4	2	rs146215995		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:5701080C>T	uc001mbm.1	-	2	585	c.328G>A	c.(328-330)GGG>AGG	p.G110R	TRIM5_uc001mbq.1_Missense_Mutation_p.G110R|TRIM5_uc001mbl.1_RNA|TRIM5_uc001mbn.2_Missense_Mutation_p.G110R|TRIM5_uc001mbo.2_Missense_Mutation_p.G110R|TRIM5_uc001mbp.2_Missense_Mutation_p.G110R	NM_033034	NP_149023	Q9C035	TRIM5_HUMAN	tripartite motif protein TRIM5 isoform alpha	110	B box-type.		G -> E.		interspecies interaction between organisms|protein trimerization|response to virus	cytoplasm|cytoplasmic mRNA processing body	ligase activity|protein binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)|Lung NSC(207;0.138)|all_lung(207;0.221)		Epithelial(150;7.21e-09)|BRCA - Breast invasive adenocarcinoma(625;0.139)		ATGACCTTCCCGTCCTCCTGA	0.547													18	81					0	0	0.008871	0	0		T	5701080	T	T	5701080	3	4	11	1	0	0	0	0	1	0	0	0	16551	652	23	1	1420	1	TRIM5	11	5701080	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	336758	5701080	129305436	615	9007											
KCNJ11	3767	broad.mit.edu	37	chr11	17408965	17408965	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccacctcgccctcggggCtggtggtcttgcgtaccacc	4	8	12	17	3	1	0	0	0	1	0	3	0	1	0	5	4	2	3	5	4	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:17408965C>T	uc001mna.2	-	1	1242	c.674G>A	c.(673-675)AGC>AAC	p.S225N	KCNJ11_uc001mnb.3_Missense_Mutation_p.S138N	NM_000525	NP_000516	B4DWI4	B4DWI4_HUMAN	potassium inwardly-rectifying channel J11	225						integral to membrane	ATP-activated inward rectifier potassium channel activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0276)|Colorectal(2;0.0633)		GCCCTCGGGGCTGGTGGTCTT	0.637											OREG0020810	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	28					0	0	0.000602	0	0		T	17408965	T	T	17408965	3	4	11	1	0	0	0	0	1	0	0	0	8061	797	28	2	502	2	KCNJ11	11	17408965	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	11707885	17408965	117597551	616	9008											
KCNA4	3739	broad.mit.edu	37	chr11	30033740	30033740	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaactgtagccgccaccGccctcatcctgaggcagcag	9	6	10	16	2	1	2	1	2	0	0	2	2	2	2	5	1	3	3	5	1	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:30033740G>A	uc001msk.2	-	2	1638	c.486C>T	c.(484-486)GGC>GGT	p.G162G		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	162	Poly-Gly.					voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						AGCCGCCACCGCCCTCATCCT	0.438													6	34					0	0	0.008291	0	0		A	30033740	A	A	30033740	2	1	11	1	0	0	0	0	0	0	0	1	8021	1074	38	1		1	KCNA4	11	30033740	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	12624775	30033740	104972776	617	9009											
CCDC73	493860	broad.mit.edu	37	chr11	32624508	32624508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagaagtatttttagtcGtcttgattgcctgcaaatgg	10	14	9	8	1	1	2	0	1	1	1	2	2	1	2	2	1	2	2	2	1	4	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:32624508G>A	uc001mtv.2	-	18	3133	c.3089C>T	c.(3088-3090)ACG>ATG	p.T1030M		NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	1030										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					ATTTTTAGTCGTCTTGATTGC	0.348													15	87					0	0	0.007413	0	0		A	32624508	A	A	32624508	3	1	11	1	0	0	0	0	1	0	0	0	2849	1145	40	1	154	1	CCDC73	11	32624508	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2590768	32624508	102382008	618	9010											
TCP11L1	55346	broad.mit.edu	37	chr11	33079684	33079684	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaatagtgccccttttcAggtatggaaatatgttaatc	13	13	9	6	0	1	0	1	0	0	0	2	2	1	2	2	3	1	2	2	3	6	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:33079684A>G	uc001mud.2	+	5	1037	c.637A>G	c.(637-639)AGA>GGA	p.R213G	TCP11L1_uc009yju.2_Missense_Mutation_p.R28G|TCP11L1_uc010rei.1_Missense_Mutation_p.R213G|TCP11L1_uc001mue.2_Missense_Mutation_p.R213G|TCP11L1_uc001muf.1_5'Flank	NM_018393	NP_060863	Q9NUJ3	T11L1_HUMAN	t-complex 11 (mouse) like 1	213											0						GCCCCTTTTCAGGTATGGAAA	0.313													9	37					0	0	0.008291	0	0		G	33079684	G	G	33079684	3	3	11	1	0	0	0	0	1	0	0	0	15739	202	7	3	651	3	TCP11L1	11	33079684	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	455176	33079684	101926832	619	9011											
LMO2	4005	broad.mit.edu	37	chr11	33881074	33881074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattgtcatctcataggcaCgaatccgcttgtcacaggat	10	11	9	11	2	3	0	3	0	1	0	5	2	4	1	1	2	0	3	1	2	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:33881074C>T	uc001mve.2	-	3	744	c.305G>A	c.(304-306)CGT>CAT	p.R102H	LMO2_uc001mvc.2_Missense_Mutation_p.R95H|LMO2_uc001mvd.2_Missense_Mutation_p.R95H|LMO2_uc010rel.1_Missense_Mutation_p.R102H|LMO2_uc010rem.1_Missense_Mutation_p.R171H	NM_001142316	NP_001135788	P25791	RBTN2_HUMAN	LIM domain only 2 isoform 2	102	LIM zinc-binding 2.				multicellular organismal development	nucleus	protein binding|zinc ion binding			lung(1)	1						CTCATAGGCACGAATCCGCTT	0.478			T	TRD@	T-ALL								8	52					0	0	0.004482	0	0		T	33881074	T	T	33881074	3	4	11	1	0	0	0	0	1	0	0	0	8869	536	19	1	175	1	LMO2	11	33881074	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	801390	33881074	101125442	620	9012											
RAG1	5896	broad.mit.edu	37	chr11	36595310	36595310	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagagagctacttcctggccGgacctcattgccaaggtttt	9	11	10	11	1	1	1	1	0	0	1	2	3	2	2	4	3	3	2	4	3	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:36595310G>A	uc001mwu.3	+	2	580	c.456G>A	c.(454-456)CCG>CCA	p.P152P	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	152	Interaction with importin alpha-1.				histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				CTTCCTGGCCGGACCTCATTG	0.507									Familial_Hemophagocytic_Lymphohistiocytosis				11	61					0	0	0.013537	0	0		A	36595310	A	A	36595310	2	1	11	1	0	0	0	0	0	0	0	1	13028	1103	39	1		1	RAG1	11	36595310	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2714236	36595310	98411206	621	9013											
ALKBH3	221120	broad.mit.edu	37	chr11	43923097	43923097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgcgcacactaaagaaccGcattgaagagaacactggcc	14	5	10	12	2	0	3	0	1	0	2	0	4	0	3	2	1	3	3	2	1	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:43923097G>A	uc001mxs.2	+	8	934	c.491G>A	c.(490-492)CGC>CAC	p.R164H	ALKBH3_uc009ykp.2_RNA|ALKBH3_uc001mxt.2_RNA|ALKBH3_uc009ykq.2_Missense_Mutation_p.R17H	NM_139178	NP_631917	Q96Q83	ALKB3_HUMAN	AlkB homolog 3	164					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation	mitochondrion|nucleoplasm	damaged DNA binding|DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0					Vitamin C(DB00126)	CTAAAGAACCGCATTGAAGAG	0.493								Direct_reversal_of_damage					21	72					0	0	0.008871	0	0		A	43923097	A	A	43923097	3	1	11	1	0	0	0	0	1	0	0	0	528	1087	38	1	517	1	ALKBH3	11	43923097	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	7327787	43923097	91083419	622	9014											
ACCSL	390110	broad.mit.edu	37	chr11	44069844	44069844	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctcctacagtctggggcCgcgagtggcctggagctcca	7	7	13	14	2	1	0	0	0	1	0	3	2	3	1	5	4	3	1	5	4	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:44069844C>T	uc001mxw.1	+	1	314	c.258C>T	c.(256-258)GCC>GCT	p.A86A	ACCSL_uc009ykr.2_5'UTR	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	86							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						AGTCTGGGGCCGCGAGTGGCC	0.577													10	66					0	0	0.00499	0	0		T	44069844	T	T	44069844	2	4	11	1	0	0	0	0	0	0	0	1	134	639	23	1		1	ACCSL	11	44069844	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	146747	44069844	90936672	623	9015											
DDB2	1643	broad.mit.edu	37	chr11	47238526	47238526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caactcaccccagcactgtgGctgtgggttccaaaggggga	9	7	13	12	0	1	0	1	0	0	0	2	1	2	1	3	4	2	3	3	4	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:47238526G>A	uc001neb.2	+	3	577	c.382G>A	c.(382-384)GCT>ACT	p.A128T	DDB2_uc001nec.2_RNA|DDB2_uc009yli.1_Intron|DDB2_uc001ned.2_RNA|DDB2_uc001nee.2_Missense_Mutation_p.A128T|DDB2_uc001nef.2_Missense_Mutation_p.A114T|DDB2_uc001neg.2_5'UTR|DDB2_uc001neh.2_RNA	NM_000107	NP_000098	Q92466	DDB2_HUMAN	damage-specific DNA binding protein 2	128	WD 1.				nucleotide-excision repair, DNA damage removal|protein autoubiquitination|protein polyubiquitination|response to UV	nucleoplasm|protein complex	damaged DNA binding|protein binding			kidney(2)|ovary(1)	3						CAGCACTGTGGCTGTGGGTTC	0.532			Mis|N			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				15	49					0	0	0.00499	0	0		A	47238526	A	A	47238526	3	1	11	1	0	0	0	0	1	0	0	0	4327	1203	42	2	392	2	DDB2	11	47238526	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3168682	47238526	87767990	624	9016											
MYBPC3	4607	broad.mit.edu	37	chr11	47363661	47363661	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaccgcctggtcctttgcGcccaccatcaggtctgcgat	7	9	9	16	3	2	0	1	0	1	0	3	1	3	0	5	2	3	0	5	2	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:47363661G>A	uc001nfa.3	-	17	1726	c.1671C>T	c.(1669-1671)GGC>GGT	p.G557G	MYBPC3_uc010rhl.1_RNA	NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	556	Ig-like C2-type 4.				cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		GGTCCTTTGCGCCCACCATCA	0.582													4	37					0	0	0.001168	0	0		A	47363661	A	A	47363661	2	1	11	1	0	0	0	0	0	0	0	1	10031	1074	38	1		1	MYBPC3	11	47363661	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	125135	47363661	87642855	625	9017											
SPI1	6688	broad.mit.edu	37	chr11	47377075	47377075	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtccaacaggaactggtaCaggcggatcttcttcttgct	9	11	11	10	1	3	0	0	0	3	0	4	2	4	2	1	5	4	2	1	5	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:47377075C>A	uc001nfc.1	-	5	739	c.516G>T	c.(514-516)CTG>CTT	p.L172L	MYBPC3_uc001nfa.3_5'Flank|SPI1_uc001nfb.1_Silent_p.L173L|SLC39A13_uc001nfd.2_Intron	NM_003120	NP_003111	P17947	SPI1_HUMAN	hematopoietic transcription factor PU.1 isoform	172	ETS.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of erythrocyte differentiation	nucleus	protein binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)	2				Lung(87;0.0967)		GGAACTGGTACAGGCGGATCT	0.667													6	19					1.12685e-05	1.23868e-05	0.004482	1	0		A	47377075	A	A	47377075	2	1	11	1	0	0	0	0	0	0	0	1	15074	465	17	5		5	SPI1	11	47377075	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	13414	47377075	87629441	626	9018											
PSMC3	5702	broad.mit.edu	37	chr11	47446697	47446697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacgttggagacaaggtacGgcagggtcttgttcactttg	8	12	14	7	2	2	2	1	1	1	1	2	3	2	2	0	4	1	4	0	4	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:47446697G>A	uc001nfh.2	-	3	454	c.260C>T	c.(259-261)CCG>CTG	p.P87L	PSMC3_uc009ylr.1_Intron	NM_002804	NP_002795	P17980	PRS6A_HUMAN	proteasome 26S ATPase subunit 3	87					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|nucleoside-triphosphatase activity|protein binding|transcription coactivator activity|transcription corepressor activity			ovary(4)	4				Lung(87;0.0932)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GACAAGGTACGGCAGGGTCTT	0.512													10	78					0	0	0.013537	0	0		A	47446697	A	A	47446697	3	1	11	1	0	0	0	0	1	0	0	0	12709	1116	39	1	1099	1	PSMC3	11	47446697	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	69622	47446697	87559819	627	9019											
OR4S1	256148	broad.mit.edu	37	chr11	48328289	48328289	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttgtgggcccaatgagaTagacaacttcttctgtgatg	9	15	10	7	0	2	3	0	2	2	2	2	4	2	3	1	1	1	0	1	1	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:48328289T>C	uc010rhu.1	+	1	515	c.515T>C	c.(514-516)ATA>ACA	p.I172T		NM_001004725	NP_001004725	Q8NGB4	OR4S1_HUMAN	olfactory receptor, family 4, subfamily S,	172	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCCAATGAGATAGACAACTTC	0.547													13	72					0	0	0.00245	0	0		C	48328289	C	C	48328289	3	2	11	1	0	0	0	0	1	0	0	0	11101	1406	49	3	517	3	OR4S1	11	48328289	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	881592	48328289	86678227	628	9020											
OR4C12	283093	broad.mit.edu	37	chr11	50003875	50003875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaagaagtacatgggggAgctcagagcctggctggtgg	10	6	18	7	0	1	2	1	0	0	2	1	4	1	4	1	6	3	3	1	6	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:50003875A>G	uc010ria.1	-	1	163	c.163T>C	c.(163-165)TCC>CCC	p.S55P		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TACATGGGGGAGCTCAGAGCC	0.423													12	64					0	0	0.010729	0	0		G	50003875	G	G	50003875	3	3	11	1	0	0	0	0	1	0	0	0	11065	304	11	3	770	3	OR4C12	11	50003875	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1675586	50003875	85002641	629	9021											
OR4C46	119749	broad.mit.edu	37	chr11	51515486	51515486	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatctctcctttattgatGcctgctattcctctgtcaat	6	18	4	13	0	3	1	1	1	2	0	6	1	5	1	4	0	2	1	4	0	4	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:51515486G>T	uc010ric.1	+	1	205	c.205G>T	c.(205-207)GCC>TCC	p.A69S		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	69	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTTTATTGATGCCTGCTATTC	0.488													20	157					3.62473e-10	4.15937e-10	0.012319	1	0		T	51515486	T	T	51515486	3	4	11	1	0	0	0	0	1	0	0	0	11070	1319	46	5	207	5	OR4C46	11	51515486	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1511611	51515486	83491030	630	9022											
OR5D18	219438	broad.mit.edu	37	chr11	55587765	55587765	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcgttctcacatcttatgcGttcattgttgtaaccatcct	8	17	5	11	2	3	0	2	0	2	0	6	0	4	0	2	0	2	4	2	0	2	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:55587765G>A	uc010rin.1	+	1	660	c.660G>A	c.(658-660)GCG>GCA	p.A220A		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				CATCTTATGCGTTCATTGTTG	0.483													14	88					0	0	0.004007	0	0		A	55587765	A	A	55587765	2	1	11	1	0	0	0	0	0	0	0	1	11176	1132	40	1		1	OR5D18	11	55587765	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4072279	55587765	79418751	631	9023											
OR9Q2	219957	broad.mit.edu	37	chr11	57958150	57958150	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccccgatgtacttcttccTcagccacctttccttggtgg	5	13	7	16	1	2	0	1	0	1	0	4	1	4	0	6	2	2	1	6	2	1	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:57958150T>G	uc010rka.1	+	1	188	c.188T>G	c.(187-189)CTC>CGC	p.L63R		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	63	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				TACTTCTTCCTCAGCCACCTT	0.547													4	25					0	0	0.009096	0	0		G	57958150	G	G	57958150	3	3	11	1	0	0	0	0	1	0	0	0	11275	1551	54	5	190	5	OR9Q2	11	57958150	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2370385	57958150	77048366	632	9024											
OR10W1	81341	broad.mit.edu	37	chr11	58034831	58034831	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcacatcacaaaagaagTgctcaatgccctgagcctgg	12	7	11	11	0	2	2	2	1	0	1	2	2	2	2	2	2	3	2	2	2	4	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:58034831T>C	uc001nmq.1	-	1	902	c.500A>G	c.(499-501)CAC>CGC	p.H167R		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				ACAAAAGAAGTGCTCAATGCC	0.507													6	36					0	0	0.001168	0	0		C	58034831	C	C	58034831	3	2	11	1	0	0	0	0	1	0	0	0	10940	1696	59	3	421	3	OR10W1	11	58034831	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	76681	58034831	76971685	633	9025											
GLYATL1	92292	broad.mit.edu	37	chr11	58722275	58722275	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacatggattcatacacaaaCgtatatcgtatgttctccaa	14	12	6	9	2	2	0	1	0	1	0	4	2	2	1	1	1	2	3	1	1	6	6	rs142174775		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:58722275C>T	uc001nnf.2	+	6	595	c.219C>T	c.(217-219)AAC>AAT	p.N73N	uc001nng.1_Intron|GLYATL1_uc001nnh.1_Silent_p.N104N|GLYATL1_uc001nni.1_Silent_p.N73N|GLYATL1_uc001nnj.1_Silent_p.N73N			Q969I3	GLYL1_HUMAN	SubName: Full=Glycine acyltransferase family-C; SubName: Full=Glycine-N-acyltransferase-like 1, isoform CRA_a;	73						mitochondrion	glycine N-acyltransferase activity			ovary(1)	1					Glycine(DB00145)	CATACACAAACGTATATCGTA	0.378													13	82					0	0	0.013537	0	0		T	58722275	T	T	58722275	2	4	11	1	0	0	0	0	0	0	0	1	6495	535	19	1		1	GLYATL1	11	58722275	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	687444	58722275	76284241	634	9026											
FAM111A	63901	broad.mit.edu	37	chr11	58920216	58920216	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctcagtgactcagttgggTacttattctgggacagtgca	8	13	12	8	0	3	1	2	1	2	0	4	2	3	2	0	2	2	3	0	2	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:58920216T>C	uc010rkp.1	+	5	1302	c.1075T>C	c.(1075-1077)TAC>CAC	p.Y359H	FAM111A_uc010rkq.1_Missense_Mutation_p.Y359H|FAM111A_uc010rkr.1_Missense_Mutation_p.Y359H|FAM111A_uc001nno.2_Missense_Mutation_p.Y359H|FAM111A_uc001nnp.2_Missense_Mutation_p.Y359H|FAM111A_uc001nnq.2_Missense_Mutation_p.Y359H	NM_001142521	NP_001135993	Q96PZ2	F111A_HUMAN	hypothetical protein LOC63901	359					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_epithelial(135;0.139)				CTCAGTTGGGTACTTATTCTG	0.373													25	115					0	0	0.004656	0	0		C	58920216	C	C	58920216	3	2	11	1	0	0	0	0	1	0	0	0	5410	1638	57	3	1081	3	FAM111A	11	58920216	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	197941	58920216	76086300	635	9027											
OR4D9	390199	broad.mit.edu	37	chr11	59282557	59282557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgaatctcaccttcatacgCccatgtacttcctgctccgc	7	12	6	16	2	2	1	2	1	1	0	5	1	4	1	4	0	3	2	4	0	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:59282557C>T	uc010rkv.1	+	1	172	c.172C>T	c.(172-174)CCC>TCC	p.P58S		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCTTCATACGCCCATGTACTT	0.433													21	182					0	0	0.00278	0	0		T	59282557	T	T	59282557	3	4	11	1	0	0	0	0	1	0	0	0	11078	739	26	2	174	2	OR4D9	11	59282557	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	362341	59282557	75723959	636	9028											
MS4A4A	51338	broad.mit.edu	37	chr11	60059718	60059718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttttctgctgccatgaCaaccatgcaaggaatggaac	12	9	8	12	0	1	1	0	1	1	0	1	3	1	3	3	2	5	2	3	2	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:60059718C>T	uc001noz.2	+	2	72	c.62C>T	c.(61-63)ACA>ATA	p.T21I	MS4A4A_uc001npa.2_Missense_Mutation_p.T2I|MS4A4A_uc001npb.2_Missense_Mutation_p.T2I|MS4A4A_uc001npc.2_Missense_Mutation_p.T2I	NM_148975	NP_683876	Q96JQ5	M4A4A_HUMAN	membrane-spanning 4-domains, subfamily A, member	21	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						GCTGCCATGACAACCATGCAA	0.493													12	53					0	0	0.00245	0	0		T	60059718	T	T	60059718	3	4	11	1	0	0	0	0	1	0	0	0	9880	478	17	4	68	4	MS4A4A	11	60059718	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	777161	60059718	74946798	637	9029											
AHNAK	79026	broad.mit.edu	37	chr11	62297304	62297304	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaggttcatatccacctCtgggccctctcctttaaagc	7	11	9	14	0	3	0	1	0	2	0	5	0	4	0	4	3	1	2	4	3	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:62297304C>A	uc001ntl.2	-	5	4885	c.4585G>T	c.(4585-4587)GAG>TAG	p.E1529*	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1529					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				ATATCCACCTCTGGGCCCTCT	0.522													39	211					6.45866e-13	7.49021e-13	0.00874	1	0		A	62297304	A	A	62297304	4	1	11	1	0	0	0	0	0	1	0	0	414	922	32	5	13207	5	AHNAK	11	62297304	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2237586	62297304	72709212	638	9030											
EEF1G	1937	broad.mit.edu	37	chr11	62338457	62338457	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttatagagccacaacaGggtgcagacaactgtgatgt	12	9	11	9	0	0	3	0	1	0	2	0	3	0	3	1	1	5	2	1	1	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:62338457G>T	uc001ntm.1	-	5	648	c.502C>A	c.(502-504)CTG>ATG	p.L168M	EEF1G_uc010rlw.1_Missense_Mutation_p.L218M|EEF1G_uc001ntn.1_Missense_Mutation_p.L48M	NM_001404	NP_001395	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1	168	GST C-terminal.				response to virus	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						AGCCACAACAGGGTGCAGACA	0.483													21	106					3.28513e-13	3.81659e-13	0.003954	1	0		T	62338457	T	T	62338457	3	4	11	1	0	0	0	0	1	0	0	0	4934	991	35	5	835	5	EEF1G	11	62338457	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	41153	62338457	72668059	639	9031											
SLC22A6	9356	broad.mit.edu	37	chr11	62744336	62744336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctggtgctcttgttgctgtCgcgtctgtttccctttcctg	0	19	10	12	2	3	0	0	0	3	0	6	0	5	0	2	1	2	4	2	1	0	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:62744336C>T	uc001nwk.2	-	10	1929	c.1622G>A	c.(1621-1623)CGA>CAA	p.R541Q	SLC22A6_uc001nwl.2_Missense_Mutation_p.R484Q|SLC22A6_uc001nwj.2_Missense_Mutation_p.R528Q|SLC22A6_uc001nwm.2_Missense_Mutation_p.R497Q	NM_004790	NP_004781	Q4U2R8	S22A6_HUMAN	solute carrier family 22 member 6 isoform a	541	Cytoplasmic (Potential).				alpha-ketoglutarate transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|protein binding				0						TTGTTGCTGTCGCGTCTGTTT	0.582													10	27					0	0	0.010729	0	0		T	62744336	T	T	62744336	3	4	11	1	0	0	0	0	1	0	0	0	14483	884	31	1	73	1	SLC22A6	11	62744336	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	405879	62744336	72262180	640	9032											
CDC42BPG	55561	broad.mit.edu	37	chr11	64595231	64595231	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatggagttctcgctgaacActgtcaggtagggggccgca	8	8	15	10	3	2	1	1	1	1	0	3	3	2	2	1	4	1	4	1	4	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:64595231A>G	uc001obs.3	-	31	3992	c.3992T>C	c.(3991-3993)GTG>GCG	p.V1331A		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	1331	CNH.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						CTCGCTGAACACTGTCAGGTA	0.622													8	33					0	0	0.006214	0	0		G	64595231	G	G	64595231	3	3	11	1	0	0	0	0	1	0	0	0	3077	159	6	3	691	3	CDC42BPG	11	64595231	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1850895	64595231	70411285	641	9033											
BATF2	116071	broad.mit.edu	37	chr11	64757176	64757176	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcacaatccatggggcAcaggcgctcatgcacgtgca	10	5	14	12	2	1	0	1	0	0	0	2	1	2	1	1	5	2	5	1	5	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:64757176A>G	uc001ocf.1	-	3	381	c.250T>C	c.(250-252)TGC>CGC	p.C84R	BATF2_uc001oce.1_5'UTR	NM_138456	NP_612465	Q8N1L9	BATF2_HUMAN	basic leucine zipper transcription factor,	84						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TCCATGGGGCACAGGCGCTCA	0.667													4	14					0	0	0.000602	0	0		G	64757176	G	G	64757176	3	3	11	1	0	0	0	0	1	0	0	0	1327	159	6	3	578	3	BATF2	11	64757176	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	161945	64757176	70249340	642	9034											
LTBP3	4054	broad.mit.edu	37	chr11	65319552	65319552	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagggaaaagtcactctcGccctgaatggtgagcgtctg	12	8	12	9	2	3	2	1	2	2	0	4	3	3	3	1	2	1	0	1	2	5	0	rs111330939		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:65319552G>A	uc001oej.2	-	8	1691	c.1422C>T	c.(1420-1422)GGC>GGT	p.G474G	LTBP3_uc001oeh.2_5'Flank|LTBP3_uc010roi.1_Silent_p.G357G|LTBP3_uc001oei.2_Silent_p.G474G|LTBP3_uc010roj.1_Silent_p.G175G|LTBP3_uc010rok.1_Silent_p.G385G	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	474						extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						AGTCACTCTCGCCCTGAATGG	0.597											OREG0021081	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	91					0	0	0.003954	0	0		A	65319552	A	A	65319552	2	1	11	1	0	0	0	0	0	0	0	1	9093	1074	38	1		1	LTBP3	11	65319552	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	562376	65319552	69686964	643	9035											
EHBP1L1	254102	broad.mit.edu	37	chr11	65347891	65347891	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgactttgctgagagtgAtgaagatgaggctcatggcc	10	10	15	6	0	1	6	1	5	0	2	1	8	1	7	1	3	1	2	1	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:65347891A>G	uc001oeo.3	+	6	840	c.575A>G	c.(574-576)GAT>GGT	p.D192G	EHBP1L1_uc001oep.1_5'Flank	NM_001099409	NP_001092879	Q8N3D4	EH1L1_HUMAN	tangerin	192										central_nervous_system(1)	1						GCTGAGAGTGATGAAGATGAG	0.597													11	49					0	0	0.008291	0	0		G	65347891	G	G	65347891	3	3	11	1	0	0	0	0	1	0	0	0	4982	333	12	3	597	3	EHBP1L1	11	65347891	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	28339	65347891	69658625	644	9036											
FIBP	9158	broad.mit.edu	37	chr11	65652091	65652091	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacatctttattgtgggtcaGcttggcggccacgttcacca	7	12	11	11	2	3	0	2	0	1	0	3	1	3	0	2	3	1	2	2	3	1	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:65652091G>A	uc001ogd.2	-	8	998	c.877C>T	c.(877-879)CTG>TTG	p.L293L	FIBP_uc009yqu.2_Silent_p.L283L|FIBP_uc001oge.2_Silent_p.L286L	NM_198897	NP_942600	O43427	FIBP_HUMAN	FGF intracellular binding protein isoform a	293					fibroblast growth factor receptor signaling pathway	endomembrane system|membrane|microsome|mitochondrion|nucleus	fibroblast growth factor binding			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.166)		TTGTGGGTCAGCTTGGCGGCC	0.582											OREG0021089	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	32					0	0	0.001984	0	0		A	65652091	A	A	65652091	2	1	11	1	0	0	0	0	0	0	0	1	5900	962	34	2		2	FIBP	11	65652091	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	304200	65652091	69354425	645	9037											
CATSPER1	117144	broad.mit.edu	37	chr11	65792929	65792929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtaactggaatgatacgCgccgtggtggtcttggtgct	7	11	16	7	3	1	1	0	1	1	0	1	3	1	2	1	5	3	2	1	5	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:65792929C>T	uc001ogt.2	-	1	1060	c.922G>A	c.(922-924)GCG>ACG	p.A308T		NM_053054	NP_444282	Q8NEC5	CTSR1_HUMAN	sperm-associated cation channel 1	308	His-rich.|Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	protein binding			ovary(2)	2						GAATGATACGCGCCgtggtgg	0.308													12	20					0	0	0.013537	0	0		T	65792929	T	T	65792929	3	4	11	1	0	0	0	0	1	0	0	0	2690	768	27	1	1468	1	CATSPER1	11	65792929	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	140838	65792929	69213587	646	9038											
RAB1B	81876	broad.mit.edu	37	chr11	66039698	66039698	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccgaaccatcgagctggAtggcaaaactatcaaacttc	14	8	8	11	2	1	0	1	0	0	0	4	4	2	1	2	2	4	2	2	2	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:66039698A>G	uc001ohf.2	+	3	253	c.158A>G	c.(157-159)GAT>GGT	p.D53G	uc001ohg.1_RNA	NM_030981	NP_112243	Q9H0U4	RAB1B_HUMAN	RAB1B, member RAS oncogene family	53					protein transport|small GTPase mediated signal transduction	Golgi apparatus|membrane	GTP binding|protein binding				0						ATCGAGCTGGATGGCAAAACT	0.512													27	170					0	0	0.010818	0	0		G	66039698	G	G	66039698	3	3	11	1	0	0	0	0	1	0	0	0	12931	333	12	3	168	3	RAB1B	11	66039698	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	246769	66039698	68966818	647	9039											
BRMS1	25855	broad.mit.edu	37	chr11	66109071	66109071	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacacactcgctgcggcgtcGctcatagtcctcatcatcca	8	9	8	16	4	3	0	3	0	0	0	7	1	5	0	2	1	1	2	2	1	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:66109071G>A	uc001ohp.1	-	3	310	c.163C>T	c.(163-165)CGA>TGA	p.R55*	BRMS1_uc001oho.1_Nonsense_Mutation_p.R55*|BRMS1_uc009yre.2_5'Flank	NM_015399	NP_056214	Q9HCU9	BRMS1_HUMAN	breast cancer metastasis suppressor 1 isoform 1	55					apoptosis|negative regulation of anti-apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of anoikis|positive regulation of protein deacetylation|transcription, DNA-dependent	cytoplasm|nucleus	NF-kappaB binding				0						CTGCGGCGTCGCTCATAGTCC	0.527													20	197					0	0	0.003954	0	0		A	66109071	A	A	66109071	4	1	11	1	0	0	0	0	0	1	0	0	1519	1095	38	1	753	1	BRMS1	11	66109071	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	69373	66109071	68897445	648	9040											
RBM4B	83759	broad.mit.edu	37	chr11	66436136	66436136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggtccacatactgctcccGttcataccgggccatgtcat	7	11	8	15	3	2	0	2	0	0	0	5	0	4	0	4	2	3	2	4	2	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:66436136G>A	uc001oja.2	-	2	1708	c.1039C>T	c.(1039-1041)CGG>TGG	p.R347W	RBM4B_uc001ojb.2_Missense_Mutation_p.R347W	NM_031492	NP_113680	Q9BQ04	RBM4B_HUMAN	RNA binding motif protein 4B	347	Interaction with TNPO3 (By similarity).				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|RNA splicing	nucleolus	nucleotide binding|RNA binding|zinc ion binding				0						TACTGCTCCCGTTCATACCGG	0.502													12	51					0	0	0.003163	0	0		A	66436136	A	A	66436136	3	1	11	1	0	0	0	0	1	0	0	0	13167	1144	40	1	44	1	RBM4B	11	66436136	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	327065	66436136	68570380	649	9041											
CORO1B	57175	broad.mit.edu	37	chr11	67208646	67208646	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcggctgaagcctgtggTgaacaccttgccatctgcca	8	10	10	13	1	1	2	0	2	1	0	2	2	1	2	4	2	4	1	4	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:67208646T>C	uc001olj.1	-	5	742	c.706A>G	c.(706-708)ACC>GCC	p.T236A	CORO1B_uc009yrs.1_RNA|CORO1B_uc001olk.1_Missense_Mutation_p.T236A|CORO1B_uc009yrt.1_RNA|CORO1B_uc009yru.1_RNA|CORO1B_uc001oll.1_Missense_Mutation_p.T236A|CORO1B_uc010rps.1_Missense_Mutation_p.T236A	NM_020441	NP_065174	Q9BR76	COR1B_HUMAN	coronin, actin binding protein, 1B	236	WD 4.				actin cytoskeleton organization	actin cytoskeleton|cytoplasm	actin filament binding			large_intestine(1)|ovary(1)	2			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			AAGCCTGTGGTGAACACCTTG	0.672													7	58					0	0	0.001855	0	0		C	67208646	C	C	67208646	3	2	11	1	0	0	0	0	1	0	0	0	3757	1696	59	3	787	3	CORO1B	11	67208646	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	772510	67208646	67797870	650	9042											
GPR152	390212	broad.mit.edu	37	chr11	67218801	67218801	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacgtggggcctgcgccCggggccgcctctggcggggt	1	6	18	16	5	2	0	1	0	1	0	2	0	2	0	5	7	1	0	5	7	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:67218801C>T	uc001olm.2	-	1	1400	c.1395G>A	c.(1393-1395)CCG>CCA	p.P465P	uc009yrw.1_5'Flank|CABP4_uc001oln.2_5'Flank	NM_206997	NP_996880	Q8TDT2	GP152_HUMAN	G protein-coupled receptor 152	465	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			GGCCTGCGCCCGGGGCCGCCT	0.682													3	21					0	0	0.004482	0	0		T	67218801	T	T	67218801	2	4	11	1	0	0	0	0	0	0	0	1	6673	639	23	1		1	GPR152	11	67218801	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	10155	67218801	67787715	651	9043											
ANO1	55107	broad.mit.edu	37	chr11	70007826	70007826	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccccatcttttacgtggcgTtcttcaaaggccggtaggga	7	11	11	12	3	3	0	1	0	2	0	3	1	3	1	3	4	1	2	3	4	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:70007826T>C	uc001opj.2	+	18	2184	c.1879T>C	c.(1879-1881)TTC>CTC	p.F627L	ANO1_uc001opk.1_Missense_Mutation_p.F569L|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.F336L	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	627	Helical; (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						TTACGTGGCGTTCTTCAAAGG	0.552													4	96					0	0	0.000602	0	0		C	70007826	C	C	70007826	3	2	11	1	0	0	0	0	1	0	0	0	695	1725	60	3	1949	3	ANO1	11	70007826	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2789025	70007826	64998690	652	9044											
RNF121	55298	broad.mit.edu	37	chr11	71705854	71705854	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctttgtggacgtcagtgaAgaggggatcattgagaacac	12	10	13	6	1	3	3	2	2	1	2	3	6	3	5	0	3	1	0	0	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:71705854A>C	uc001ora.2	+	7	1057	c.717A>C	c.(715-717)GAA>GAC	p.E239D	RNF121_uc001ord.2_Missense_Mutation_p.E158D|RNF121_uc001orb.2_Missense_Mutation_p.E207D|RNF121_uc009yst.2_Intron	NM_018320	NP_060790	Q9H920	RN121_HUMAN	ring finger protein 121	239	RING-type; atypical.					integral to membrane	zinc ion binding				0						ACGTCAGTGAAGAGGGGATCA	0.517													7	174					0	0	0.001984	0	0		C	71705854	C	C	71705854	3	2	11	1	0	0	0	0	1	0	0	0	13456	69	3	5	743	5	RNF121	11	71705854	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1698028	71705854	63300662	653	9045											
C11orf51	25906	broad.mit.edu	37	chr11	71822201	71822201	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgctagctgctcactcAcccaggcctgatgctgctgt	5	11	11	14	0	2	1	2	1	0	0	2	1	2	1	2	1	5	6	2	1	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:71822201A>G	uc001orw.2	-	3	342	c.120_splice	c.e3+1	p.W40_splice	C11orf51_uc009ytc.1_Intron|C11orf51_uc001orv.2_Splice_Site_p.W40_splice	NM_014042	NP_054761	P60006	CK051_HUMAN	hypothetical protein LOC25906							intracellular					0						CTGCTCACTCACCCAGGCCTG	0.557													6	55					0	0	0.001984	0	0		G	71822201	G	G	71822201	5	3	11	1	0	0	0	0	0	0	1	0	1649	173	6	3	259	3	C11orf51	11	71822201	Splice_Site	SNP	A	TCGA-BR-4256-01A-01D-1126-08	116347	71822201	63184315	654	9046											
CLPB	81570	broad.mit.edu	37	chr11	72013356	72013356	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcatcactcacctcgtgtcGctcctggaactcggacatgt	7	11	9	14	3	3	0	3	0	0	0	7	2	4	2	2	2	1	1	2	2	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:72013356G>A	uc001osj.2	-	11	1299	c.1249C>T	c.(1249-1251)CGA>TGA	p.R417*	CLPB_uc010rqx.1_Nonsense_Mutation_p.R372*|CLPB_uc010rqy.1_Nonsense_Mutation_p.R358*|CLPB_uc001osk.2_Nonsense_Mutation_p.R387*|CLPB_uc009ytg.2_RNA|CLPB_uc010rqz.1_Nonsense_Mutation_p.R216*|CLPB_uc001osi.2_Nonsense_Mutation_p.R25*	NM_030813	NP_110440	Q9H078	CLPB_HUMAN	caseinolytic peptidase B	417					cellular response to heat		ATP binding|nucleoside-triphosphatase activity|protein binding			pancreas(1)	1						ACCTCGTGTCGCTCCTGGAAC	0.522													8	78					0	0	0.004482	0	0		A	72013356	A	A	72013356	4	1	11	1	0	0	0	0	0	1	0	0	3554	1095	38	1	902	1	CLPB	11	72013356	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	191155	72013356	62993160	655	9047											
CTSC	1075	broad.mit.edu	37	chr11	88027550	88027550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtactcagaggagtaataaCgaaagcagtcttccttcatt	13	11	9	8	1	3	1	2	0	1	1	4	3	4	2	1	2	3	3	1	2	4	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:88027550C>T	uc001pck.3	-	7	1117	c.1016G>A	c.(1015-1017)CGT>CAT	p.R339H	CTSC_uc001pcl.3_Missense_Mutation_p.R191H	NM_001814	NP_001805	P53634	CATC_HUMAN	cathepsin C isoform a preproprotein	339			R -> C (in PLS).		immune response	lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GGAGTAATAACGAAAGCAGTC	0.483													13	140					0	0	0.004007	0	0		T	88027550	T	T	88027550	3	4	11	1	0	0	0	0	1	0	0	0	4034	536	19	1	379	1	CTSC	11	88027550	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	16014194	88027550	46978966	656	9048											
FAT3	120114	broad.mit.edu	37	chr11	92430571	92430571	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgattacaacaacttcaaGgaaattggatcgagaacagc	16	9	8	8	1	2	2	1	1	1	1	3	5	2	4	0	2	5	0	0	2	6	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:92430571G>T	uc001pdj.3	+	3	3646	c.3629G>T	c.(3628-3630)AGG>ATG	p.R1210M		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1210	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACAACTTCAAGGAAATTGGAT	0.383										TCGA Ovarian(4;0.039)			11	71					0.00136819	0.00146336	0.013537	1	0		T	92430571	T	T	92430571	3	4	11	1	0	0	0	0	1	0	0	0	5705	1000	35	5	3639	5	FAT3	11	92430571	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4403021	92430571	42575945	657	9049											
MAML2	84441	broad.mit.edu	37	chr11	95712275	95712275	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcaaaagctaagtcactgCtgtggtcagttccttgaaaa	13	11	9	8	0	3	1	3	1	0	0	4	1	4	1	1	1	2	3	1	1	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:95712275C>A	uc001pfw.1	-	5	4593	c.3308G>T	c.(3307-3309)AGC>ATC	p.S1103I		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	1103					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				TAAGTCACTGCTGTGGTCAGT	0.473			T	MECT1|CRTC3	salivary gland mucoepidermoid								13	103					4.3838e-07	4.93933e-07	0.001855	1	0		A	95712275	A	A	95712275	3	1	11	1	0	0	0	0	1	0	0	0	9224	797	28	5	166	5	MAML2	11	95712275	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3281704	95712275	39294241	658	9050											
MMP1	4312	broad.mit.edu	37	chr11	102667472	102667472	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcctggttgaaaagcaTgagcaagatttcctccaggt	10	10	12	9	0	0	3	0	2	0	1	2	3	2	3	3	3	2	3	3	3	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:102667472T>C	uc001phi.2	-	4	691	c.548A>G	c.(547-549)CAT>CGT	p.H183R	uc001phh.1_Intron|MMP1_uc010ruv.1_Missense_Mutation_p.H117R	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	183	Metalloprotease.	Zinc 1.			blood coagulation|collagen catabolic process|interspecies interaction between organisms|leukocyte migration|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)|lung(1)	4	all_epithelial(12;0.0127)	all_neural(303;0.000318)|all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.072)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.233)	OV - Ovarian serous cystadenocarcinoma(223;1.82e-07)|Epithelial(105;1.51e-06)|BRCA - Breast invasive adenocarcinoma(274;0.014)		TTGAAAAGCATGAGCAAGATT	0.423													4	87					0	0	0.009096	0	0		C	102667472	C	C	102667472	3	2	11	1	0	0	0	0	1	0	0	0	9666	1464	51	3	889	3	MMP1	11	102667472	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	6955197	102667472	32339044	659	9051											
GUCY1A2	2977	broad.mit.edu	37	chr11	106810870	106810870	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatattaaagaactcttcAccaaatcttttttgaatttc	14	17	2	8	0	3	2	1	1	2	1	4	2	3	2	1	0	1	0	1	0	7	8	rs61736490		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:106810870A>G	uc001pjg.1	-	4	912	c.522T>C	c.(520-522)GGT>GGC	p.G174G	GUCY1A2_uc010rvo.1_Silent_p.G174G|GUCY1A2_uc009yxn.1_Silent_p.G174G	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	174					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		AGAACTCTTCACCAAATCTTT	0.338													13	77					0	0	0.001855	0	0		G	106810870	G	G	106810870	2	3	11	1	0	0	0	0	0	0	0	1	6909	146	6	3		3	GUCY1A2	11	106810870	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	4143398	106810870	28195646	660	9052											
ZC3H12C	85463	broad.mit.edu	37	chr11	110030105	110030105	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagctggcttttgagtcGgacggtatcattgtgtccaa	8	13	13	7	2	1	2	1	2	0	0	3	3	2	3	1	3	1	3	1	3	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:110030105G>A	uc009yxw.2	+	4	1089	c.1038G>A	c.(1036-1038)TCG>TCA	p.S346S	ZC3H12C_uc010rwc.1_Silent_p.S347S|ZC3H12C_uc010rwd.1_Silent_p.S347S|ZC3H12C_uc001pkr.3_Silent_p.S315S|ZC3H12C_uc001pkq.2_Silent_p.S315S	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	346							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		CTTTTGAGTCGGACGGTATCA	0.463													4	37					0	0	0.001168	0	0		A	110030105	A	A	110030105	2	1	11	1	0	0	0	0	0	0	0	1	17588	1103	39	1		1	ZC3H12C	11	110030105	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3219235	110030105	24976411	661	9053											
ZBTB16	7704	broad.mit.edu	37	chr11	113934373	113934373	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgagtacctggaggaacaGtgcctgaagatgctggagac	12	7	14	8	1	0	3	0	1	0	2	1	7	0	5	2	3	4	2	2	3	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:113934373G>A	uc001pop.2	+	2	615	c.351G>A	c.(349-351)CAG>CAA	p.Q117Q	ZBTB16_uc001poo.1_Silent_p.Q117Q|ZBTB16_uc001poq.2_Silent_p.Q117Q	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	117					apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		TGGAGGAACAGTGCCTGAAGA	0.602													3	25					0	0	0.004672	0	0		A	113934373	A	A	113934373	2	1	11	1	0	0	0	0	0	0	0	1	17551	1020	36	4		4	ZBTB16	11	113934373	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3904268	113934373	21072143	662	9054											
ZBTB16	7704	broad.mit.edu	37	chr11	114121133	114121133	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgagaacgcacaacggCgcctcgccctaccagtgcac	10	4	9	18	4	0	1	0	1	0	1	1	2	0	1	4	1	4	2	4	1	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:114121133C>T	uc001pop.2	+	7	2142	c.1878C>T	c.(1876-1878)GGC>GGT	p.G626G	ZBTB16_uc001poq.2_Silent_p.G626G	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	626					apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		CGCACAACGGCGCCTCGCCCT	0.627													7	57					0	0	0.001984	0	0		T	114121133	T	T	114121133	2	4	11	1	0	0	0	0	0	0	0	1	17551	755	27	1		1	ZBTB16	11	114121133	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	186760	114121133	20885383	663	9055											
CADM1	23705	broad.mit.edu	37	chr11	115111047	115111047	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggattcagtagctgaatcAcagagtcgtcactcttattg	10	13	10	8	1	4	2	3	1	1	1	5	3	4	3	0	1	1	2	0	1	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:115111047A>G	uc001ppi.3	-	2	347	c.218T>C	c.(217-219)GTG>GCG	p.V73A	CADM1_uc001ppf.3_Missense_Mutation_p.V73A|CADM1_uc001ppk.3_Missense_Mutation_p.V73A|CADM1_uc001ppj.3_Missense_Mutation_p.V73A|CADM1_uc001ppl.2_Missense_Mutation_p.V73A	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	73	Ig-like V-type.|Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		TAGCTGAATCACAGAGTCGTC	0.438													5	45					0	0	0.004482	0	0		G	115111047	G	G	115111047	3	3	11	1	0	0	0	0	1	0	0	0	2569	159	6	3	1146	3	CADM1	11	115111047	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	989914	115111047	19895469	664	9056											
CEP164	22897	broad.mit.edu	37	chr11	117222588	117222588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccatgtgacgaacactatCggagcttggtgatccaagag	12	9	11	9	2	0	3	0	2	0	1	3	5	2	4	2	2	2	1	2	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:117222588C>T	uc001prc.2	+	5	424	c.277C>T	c.(277-279)CGG>TGG	p.R93W	CEP164_uc001prb.2_Missense_Mutation_p.R93W|CEP164_uc001prd.2_Missense_Mutation_p.R93W|CEP164_uc010rxj.1_Missense_Mutation_p.R47W|CEP164_uc010rxk.1_Missense_Mutation_p.R93W	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	93	Interaction with ATRIP.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		CGAACACTATCGGAGCTTGGT	0.423													9	64					0	0	0.008291	0	0		T	117222588	T	T	117222588	3	4	11	1	0	0	0	0	1	0	0	0	3252	875	31	1	287	1	CEP164	11	117222588	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2111541	117222588	17783928	665	9057											
CEP164	22897	broad.mit.edu	37	chr11	117253641	117253641	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcggtcagccccaccccGccagtctctccagaggtgta	6	7	12	16	2	2	1	1	0	1	1	4	1	3	1	6	3	1	1	6	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:117253641G>A	uc001prc.2	+	14	1854	c.1707G>A	c.(1705-1707)CCG>CCA	p.P569P	CEP164_uc001prb.2_Silent_p.P572P|CEP164_uc010rxk.1_Silent_p.P543P|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_5'Flank	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	569	Glu-rich.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		GCCCCACCCCGCCAGTCTCTC	0.622													3	7					0	0	0.000602	0	0		A	117253641	A	A	117253641	2	1	11	1	0	0	0	0	0	0	0	1	3252	1074	38	1		1	CEP164	11	117253641	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	31053	117253641	17752875	666	9058											
PVRL1	5818	broad.mit.edu	37	chr11	119547871	119547871	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgcaggtgagcttcacGtccatccgctgcaggtacca	7	10	11	13	2	1	1	1	1	0	0	3	1	3	1	3	2	4	6	3	2	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:119547871G>A	uc001pwv.2	-	4	964	c.792C>T	c.(790-792)GAC>GAT	p.D264D	PVRL1_uc001pwu.1_Silent_p.D264D|PVRL1_uc001pww.2_Silent_p.D264D	NM_002855	NP_002846	Q15223	PVRL1_HUMAN	poliovirus receptor-related 1 isoform 1	264	Extracellular (Potential).|Ig-like C2-type 2.				adherens junction organization|cell junction assembly|entry of virus into host cell|heterophilic cell-cell adhesion|homophilic cell adhesion|immune response	cell-cell adherens junction|extracellular region|integral to membrane	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0		Breast(348;0.037)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.29e-05)		TGAGCTTCACGTCCATCCGCT	0.562													6	40					0	0	0.006214	0	0		A	119547871	A	A	119547871	2	1	11	1	0	0	0	0	0	0	0	1	12864	1136	40	1		1	PVRL1	11	119547871	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2294230	119547871	15458645	667	9059											
GRAMD1B	57476	broad.mit.edu	37	chr11	123464792	123464792	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggctattgtcacgcaggtGttaagccccacctacaagca	10	10	9	12	1	1	0	1	0	0	0	1	0	1	0	3	2	3	4	3	2	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:123464792G>A	uc001pyx.2	+	4	587	c.258G>A	c.(256-258)GTG>GTA	p.V86V	GRAMD1B_uc001pyw.2_Silent_p.V93V|GRAMD1B_uc010rzw.1_Silent_p.V46V|GRAMD1B_uc010rzx.1_Silent_p.V46V|GRAMD1B_uc009zbe.1_Silent_p.V82V	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	86						integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		TCACGCAGGTGTTAAGCCCCA	0.498													11	55					0	0	0.010729	0	0		A	123464792	A	A	123464792	2	1	11	1	0	0	0	0	0	0	0	1	6764	1364	48	4		4	GRAMD1B	11	123464792	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3916921	123464792	11541724	668	9060											
OR6M1	390261	broad.mit.edu	37	chr11	123676673	123676673	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcatgatgaccgtgtagtGcagtgggtcgcagatagcca	9	10	14	8	2	1	3	1	2	0	1	2	3	1	3	2	1	2	4	2	1	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:123676673G>A	uc010rzz.1	-	1	385	c.385C>T	c.(385-387)CAC>TAC	p.H129Y		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	129	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		ACCGTGTAGTGCAGTGGGTCG	0.517													5	32					0	0	0.001168	0	0		A	123676673	A	A	123676673	3	1	11	1	0	0	0	0	1	0	0	0	11224	1319	46	2	559	2	OR6M1	11	123676673	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	211881	123676673	11329843	669	9061											
ST3GAL4	6484	broad.mit.edu	37	chr11	126278260	126278260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggctccaagaccaccatgCgtctcttctaccctgaatct	8	11	7	15	1	3	2	0	1	3	1	5	2	4	2	4	1	2	1	4	1	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:126278260C>T	uc001qds.2	+	8	715	c.496C>T	c.(496-498)CGT>TGT	p.R166C	ST3GAL4_uc001qdt.2_Missense_Mutation_p.R162C|ST3GAL4_uc009zcc.2_Missense_Mutation_p.R2C|ST3GAL4_uc009zcd.2_Missense_Mutation_p.R155C|ST3GAL4_uc001qdu.2_Missense_Mutation_p.R162C|ST3GAL4_uc001qdv.2_Missense_Mutation_p.R166C|ST3GAL4_uc009zce.2_Missense_Mutation_p.R162C|ST3GAL4_uc001qdw.2_Missense_Mutation_p.R155C|ST3GAL4_uc001qdx.1_Missense_Mutation_p.R123C|ST3GAL4_uc001qdy.2_Missense_Mutation_p.R2C|ST3GAL4_uc001qdz.2_Missense_Mutation_p.R2C	NM_006278	NP_006269	Q11206	SIA4C_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	166	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.138)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0767)		GACCACCATGCGTCTCTTCTA	0.552													10	64					0	0	0.006214	0	0		T	126278260	T	T	126278260	3	4	11	1	0	0	0	0	1	0	0	0	15242	768	27	1	510	1	ST3GAL4	11	126278260	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2601587	126278260	8728256	670	9062											
C11orf45	219833	broad.mit.edu	37	chr11	128774355	128774355	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcacctggggccagattctgGgactaggcatcagcacgttg	8	9	13	11	1	3	1	2	0	1	1	3	2	3	2	2	4	1	3	2	4	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:128774355G>T	uc001qeu.2	-	2	301	c.107C>A	c.(106-108)CCC>CAC	p.P36H	KCNJ5_uc001qet.2_Intron|KCNJ5_uc009zck.2_Intron|C11orf45_uc009zcl.2_Missense_Mutation_p.P36H|C11orf45_uc001qev.2_Missense_Mutation_p.P36H	NM_145013	NP_659450	Q8TAV5	CK045_HUMAN	hypothetical protein LOC219833 precursor	36						extracellular region					0	all_hematologic(175;0.0641)	Lung NSC(97;0.00521)|Breast(109;0.00715)|all_lung(97;0.0111)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.00531)|LUSC - Lung squamous cell carcinoma(976;0.0193)|Lung(977;0.0195)		CCAGATTCtgggactaggcat	0.144													11	82					3.07112e-06	3.40743e-06	0.010729	1	0		T	128774355	T	T	128774355	3	4	11	1	0	0	0	0	1	0	0	0	1645	1232	43	5	342	5	C11orf45	11	128774355	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2496095	128774355	6232161	671	9063											
KCNJ5	3762	broad.mit.edu	37	chr11	128781942	128781942	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaaccagacagacatcaaCgtgggctttgacacgggcga	12	6	12	11	3	1	4	1	2	0	2	1	5	1	4	1	2	2	1	1	2	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr11:128781942C>T	uc001qet.2	+	2	1088	c.774C>T	c.(772-774)AAC>AAT	p.N258N	KCNJ5_uc009zck.2_Silent_p.N258N|KCNJ5_uc001qew.2_Silent_p.N258N	NM_000890	NP_000881	P48544	IRK5_HUMAN	potassium inwardly-rectifying channel J5	258	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1	all_hematologic(175;0.0641)	Lung NSC(97;0.00038)|all_lung(97;0.000817)|Breast(109;0.00123)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0059)|LUSC - Lung squamous cell carcinoma(976;0.021)|Lung(977;0.0215)	Glibenclamide(DB01016)	CAGACATCAACGTGGGCTTTG	0.577													15	63					0	0	0.003163	0	0		T	128781942	T	T	128781942	2	4	11	1	0	0	0	0	0	0	0	1	8070	535	19	1		1	KCNJ5	11	128781942	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	7587	128781942	6224574	672	9064											
ERC1	23085	broad.mit.edu	37	chr12	1213982	1213982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagctctgcaaactgttattGagatgaaggtaagtgagaat	15	11	11	4	0	1	3	0	3	1	2	1	5	1	3	0	1	3	4	0	1	6	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:1213982G>A	uc001qjb.2	+	4	1394	c.1153G>A	c.(1153-1155)GAG>AAG	p.E385K	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.E385K|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_Intron|ERC1_uc001qjf.2_Missense_Mutation_p.E385K|ERC1_uc010sdv.1_Missense_Mutation_p.E161K|ERC1_uc009zdp.2_Missense_Mutation_p.E22K	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	385	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			AACTGTTATTGAGATGAAGGT	0.373													18	79					0	0	0.008871	0	0		A	1213982	A	A	1213982	3	1	11	1	0	0	0	0	1	0	0	0	5218	1291	45	4	1163	4	ERC1	12	1213982	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08		1213982	132637913	673	9065											
PARP11	57097	broad.mit.edu	37	chr12	3921464	3921464	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaatctccaattagcactCgagcaagaaacatagattta	16	11	6	8	1	1	2	0	0	1	2	3	3	1	2	1	0	3	3	1	0	7	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:3921464C>A	uc001qmk.1	-	7	876	c.821G>T	c.(820-822)CGA>CTA	p.R274L	PARP11_uc001qml.2_Missense_Mutation_p.R281L|PARP11_uc009zef.2_RNA|PARP11_uc001qmm.2_Missense_Mutation_p.R200L|PARP11_uc001qmn.2_Missense_Mutation_p.R200L	NM_020367	NP_065100	Q9NR21	PAR11_HUMAN	poly (ADP-ribose) polymerase family, member 11	274	PARP catalytic.						NAD+ ADP-ribosyltransferase activity			ovary(1)|central_nervous_system(1)	2			all cancers(3;1.58e-07)|OV - Ovarian serous cystadenocarcinoma(31;0.00287)|GBM - Glioblastoma multiforme(3;0.0141)|COAD - Colon adenocarcinoma(12;0.0264)			AATTAGCACTCGAGCAAGAAA	0.408													16	95					2.23348e-06	2.48651e-06	0.004007	1	0		A	3921464	A	A	3921464	3	1	11	1	0	0	0	0	1	0	0	0	11475	884	31	5	178	5	PARP11	12	3921464	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2707482	3921464	129930431	674	9066											
VWF	7450	broad.mit.edu	37	chr12	6131131	6131131	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttcctgaggcaaaacgccgGccagccacctcacacactgg	10	6	9	16	2	1	1	1	1	0	0	2	1	2	1	5	3	2	1	5	3	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:6131131G>A	uc001qnn.1	-	27	3859	c.3609C>T	c.(3607-3609)GGC>GGT	p.G1203G	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1203					blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CAAAACGCCGGCCAGCCACCT	0.488													16	128					0	0	0.008871	0	0		A	6131131	A	A	6131131	2	1	11	1	0	0	0	0	0	0	0	1	17272	1190	42	2		2	VWF	12	6131131	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2209667	6131131	127720764	675	9067											
VWF	7450	broad.mit.edu	37	chr12	6161758	6161758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggctggaagatctcacCgtcatagtaacaggggcact	10	10	11	10	1	3	1	2	0	2	1	4	2	3	2	1	4	1	3	1	4	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:6161758C>T	uc001qnn.1	-	16	2387	c.2137G>A	c.(2137-2139)GGT>AGT	p.G713S	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	713					blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	AAGATCTCACCGTCATAGTAA	0.532													16	81					0	0	0.008871	0	0		T	6161758	T	T	6161758	3	4	11	1	0	0	0	0	1	0	0	0	17272	652	23	1	6452	1	VWF	12	6161758	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	30627	6161758	127690137	676	9068											
ACRBP	84519	broad.mit.edu	37	chr12	6749364	6749364	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaccgtacaaatccagcccGtaaaagcggcctgattctgg	11	7	9	14	3	1	1	0	1	1	0	2	1	2	1	5	2	3	2	5	2	4	3	rs143853195		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:6749364G>A	uc001qpu.1	-	8	1335	c.1287C>T	c.(1285-1287)TAC>TAT	p.Y429Y	LPAR5_uc010sff.1_5'Flank|ACRBP_uc001qpt.1_5'Flank|ACRBP_uc010sfg.1_Silent_p.Y396Y	NM_032489	NP_115878	Q8NEB7	ACRBP_HUMAN	proacrosin binding protein sp32 precursor	429						acrosomal vesicle|extracellular region				central_nervous_system(1)	1						AATCCAGCCCGTAAAAGCGGC	0.632													13	43					0	0	0.00245	0	0		A	6749364	A	A	6749364	2	1	11	1	0	0	0	0	0	0	0	1	170	1140	40	1		1	ACRBP	12	6749364	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	587606	6749364	127102531	677	9069											
SPSB2	84727	broad.mit.edu	37	chr12	6981674	6981674	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcccgatgtcccagcccCacgactcgctgttgctgccc	4	7	9	21	4	0	0	0	0	0	0	2	2	1	0	6	0	3	3	6	0	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:6981674C>T	uc001qrl.2	-	2	548	c.392G>A	c.(391-393)TGG>TAG	p.W131*	SPSB2_uc001qrm.2_Nonsense_Mutation_p.W131*|SPSB2_uc010sfp.1_Nonsense_Mutation_p.W131*|LRRC23_uc001qrn.1_5'Flank	NM_001146316	NP_001139788	Q99619	SPSB2_HUMAN	splA/ryanodine receptor domain and SOCS box	131	B30.2/SPRY.				intracellular signal transduction	cytoplasm	protein binding			kidney(1)	1						GTCCCAGCCCCACGACTCGCT	0.701											OREG0021639	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	15					0	0	0.00308	0	0		T	6981674	T	T	6981674	4	4	11	1	0	0	0	0	0	1	0	0	15138	595	21	4	407	4	SPSB2	12	6981674	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	232310	6981674	126870221	678	9070											
C1RL	51279	broad.mit.edu	37	chr12	7249058	7249058	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtgtagaagtcataccCttcgccacaccctatgcccc	8	10	7	16	1	1	1	1	0	0	1	2	1	1	1	5	1	2	1	5	1	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:7249058C>A	uc001qsn.2	-	6	1410	c.1393G>T	c.(1393-1395)GGG>TGG	p.G465W	C1RL_uc009zft.2_3'UTR	NM_016546	NP_057630	Q9NZP8	C1RL_HUMAN	complement component 1, r subcomponent-like	465	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis		serine-type endopeptidase activity			pancreas(1)	1						AAGTCATACCCTTCGCCACAC	0.567													20	69					9.57634e-11	1.10568e-10	0.00333	1	0		A	7249058	A	A	7249058	3	1	11	1	0	0	0	0	1	0	0	0	1976	681	24	5	74	5	C1RL	12	7249058	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	267384	7249058	126602837	679	9071											
ATF7IP	55729	broad.mit.edu	37	chr12	14577496	14577496	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcccaggtgaaccggtccCtgttgaacccatttctggtg	7	11	10	13	1	1	2	0	2	1	0	3	2	3	2	4	3	2	1	4	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:14577496C>A	uc001rbw.2	+	2	805	c.647C>A	c.(646-648)CCT>CAT	p.P216H	ATF7IP_uc010shs.1_Missense_Mutation_p.P216H|ATF7IP_uc001rbu.2_Missense_Mutation_p.P216H|ATF7IP_uc001rbv.1_Missense_Mutation_p.P216H|ATF7IP_uc001rbx.2_Missense_Mutation_p.P216H|ATF7IP_uc010sht.1_Missense_Mutation_p.P216H|ATF7IP_uc001rby.3_Missense_Mutation_p.P216H|ATF7IP_uc001rbz.1_Missense_Mutation_p.P216H|ATF7IP_uc001rca.2_Missense_Mutation_p.P216H|ATF7IP_uc001rcb.2_5'Flank	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	216					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						GAACCGGTCCCTGTTGAACCC	0.522													18	109					3.62473e-10	4.15937e-10	0.012319	1	0		A	14577496	A	A	14577496	3	1	11	1	0	0	0	0	1	0	0	0	1088	681	24	5	649	5	ATF7IP	12	14577496	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	7328438	14577496	119274399	680	9072											
PTPRO	5800	broad.mit.edu	37	chr12	15650227	15650227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgactataaaccttctcCtgaaacaggagtcctgtttg	12	13	7	9	0	1	2	0	2	1	0	3	3	2	3	3	1	2	1	3	1	5	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:15650227C>T	uc001rcv.1	+	3	572	c.398C>T	c.(397-399)CCT>CTT	p.P133L	PTPRO_uc001rcw.1_Missense_Mutation_p.P133L|PTPRO_uc001rcu.1_Missense_Mutation_p.P133L	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	133	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)				AAACCTTCTCCTGAAACAGGA	0.383													18	142					0	0	0.00278	0	0		T	15650227	T	T	15650227	3	4	11	1	0	0	0	0	1	0	0	0	12834	681	24	4	408	4	PTPRO	12	15650227	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1072731	15650227	118201668	681	9073											
PIK3C2G	5288	broad.mit.edu	37	chr12	18719882	18719882	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttttttttctcttaaaacaGgtttcctcattggtggcacc	7	18	6	10	0	2	0	1	0	1	0	4	0	3	0	2	3	1	2	2	3	2	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:18719882G>T	uc001rdt.2	+	28	3896	c.3780_splice	c.e28-1	p.E1260_splice	PIK3C2G_uc010sia.1_Splice_Site|PIK3C2G_uc010sib.1_Splice_Site_p.E1301_splice|PIK3C2G_uc010sic.1_Splice_Site_p.E1079_splice	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma						cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				TCTTAAAACAGGTTTCCTCAT	0.338													9	68					3.09899e-07	3.50075e-07	0.004482	1	0		T	18719882	T	T	18719882	5	4	11	1	0	0	0	0	0	0	1	0	11930	1014	35	5	3885	5	PIK3C2G	12	18719882	Splice_Site	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3069655	18719882	115132013	682	9074											
SLCO1C1	53919	broad.mit.edu	37	chr12	20868189	20868189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctacctggatgattttGccagtgaagacaatgcagct	10	12	10	9	0	0	3	0	2	0	1	0	4	0	4	3	1	5	2	3	1	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:20868189G>A	uc001rej.3	+	7	1001	c.646G>A	c.(646-648)GCC>ACC	p.A216T	SLCO1C1_uc010sii.1_Missense_Mutation_p.A216T|SLCO1C1_uc010sij.1_Intron|SLCO1C1_uc009zip.2_Missense_Mutation_p.A50T|SLCO1C1_uc001rei.2_Missense_Mutation_p.A216T|SLCO1C1_uc010sik.1_Missense_Mutation_p.A98T	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	216	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					GGATGATTTTGCCAGTGAAGA	0.423													18	76					0	0	0.006122	0	0		A	20868189	A	A	20868189	3	1	11	1	0	0	0	0	1	0	0	0	14750	1319	46	2	664	2	SLCO1C1	12	20868189	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2148307	20868189	112983706	683	9075											
SLCO1B3	28234	broad.mit.edu	37	chr12	21242842	21242842	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttattctcttttcacagAagagccttcttcggcttgaa	8	17	6	10	1	4	3	1	1	3	2	6	3	4	3	1	1	1	1	1	1	3	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:21242842A>T	uc010sil.1	+	16	2114	c.2049A>T	c.(2047-2049)GGA>GGT	p.G683G	LST-3TM12_uc010sim.1_Silent_p.G622G|LST-3TM12_uc010sin.1_Silent_p.G575G			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					CTTTTCACAGAAGAGCCTTCT	0.294													4	40					0	0	0.001168	0	0		T	21242842	T	T	21242842	2	4	11	1	0	0	0	0	0	0	0	1	14749	260	9	5		5	SLCO1B3	12	21242842	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	374653	21242842	112609053	684	9076											
IAPP	3375	broad.mit.edu	37	chr12	21531349	21531349	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagagagccactgaattacTtgcccctttagaggacaatg	13	9	10	9	0	0	4	0	1	0	3	0	6	0	5	3	1	3	0	3	1	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:21531349T>A	uc001rev.2	+	3	411	c.259T>A	c.(259-261)TTG>ATG	p.L87M	SLCO1A2_uc001res.2_Intron|SLCO1A2_uc010siq.1_Intron	NM_000415	NP_000406	P10997	IAPP_HUMAN	islet amyloid polypeptide precursor	87					apoptosis|cell-cell signaling|endocrine pancreas development|signal transduction	extracellular region|soluble fraction	hormone activity				0					Perindopril(DB00790)	ACTGAATTACTTGCCCCTTTA	0.383													10	74					0	0	0.001855	0	0		A	21531349	A	A	21531349	3	1	11	1	0	0	0	0	1	0	0	0	7488	1606	56	5	265	5	IAPP	12	21531349	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	288507	21531349	112320546	685	9077											
ABCC9	10060	broad.mit.edu	37	chr12	21971084	21971084	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atatttttatccatacctacCgtaagtgcatacagaagacc	14	12	5	10	1	0	2	0	0	0	2	1	2	1	2	4	0	4	2	4	0	7	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:21971084C>T	uc001rfi.1	-	30	3791	c.3771G>A	c.(3769-3771)ACG>ACA	p.T1257T	ABCC9_uc001rfh.2_Silent_p.T1257T|ABCC9_uc001rfj.1_Silent_p.T1221T	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1257	Helical; Name=15; (Potential).|ABC transmembrane type-1 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CCATACCTACCGTAAGTGCAT	0.254													19	180					0	0	0.010504	0	0		T	21971084	T	T	21971084	2	4	11	1	0	0	0	0	0	0	0	1	59	666	23	1		1	ABCC9	12	21971084	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	439735	21971084	111880811	686	9078											
CASC1	55259	broad.mit.edu	37	chr12	25302613	25302613	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaagatgaaggagctcctgCagttgtagtattgattcttg	10	15	11	5	0	1	3	0	2	1	1	2	4	2	4	1	1	2	5	1	1	4	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:25302613C>T	uc001rgl.2	-	6	598	c.516G>A	c.(514-516)CTG>CTA	p.L172L	CASC1_uc001rgk.2_Silent_p.L178L|CASC1_uc001rgm.3_Silent_p.L236L|CASC1_uc001rgj.2_Silent_p.L132L|CASC1_uc010sje.1_Silent_p.L113L|CASC1_uc010sjf.1_Silent_p.L60L|CASC1_uc010sjg.1_Silent_p.L172L	NM_001082973	NP_001076442	Q6TDU7	CASC1_HUMAN	cancer susceptibility candidate 1 isoform b	172										ovary(2)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Melanoma(3;0.0301)|Colorectal(261;0.11)		OV - Ovarian serous cystadenocarcinoma(3;7.42e-20)|Epithelial(3;7.58e-16)|all cancers(3;1.07e-13)			GGAGCTCCTGCAGTTGTAGTA	0.299													6	61					0	0	0.001168	0	0		T	25302613	T	T	25302613	2	4	11	1	0	0	0	0	0	0	0	1	2663	697	25	2		2	CASC1	12	25302613	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3331529	25302613	108549282	687	9079											
ITPR2	3709	broad.mit.edu	37	chr12	26636652	26636652	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattttcatggcaagggccCtggcaatactcagtcaagct	10	11	10	10	0	3	1	3	1	0	0	3	1	3	1	1	3	2	3	1	3	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:26636652C>A	uc001rhg.2	-	42	6408	c.5991G>T	c.(5989-5991)CAG>CAT	p.Q1997H	ITPR2_uc009zjg.1_Missense_Mutation_p.Q148H	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1997	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					GGCAAGGGCCCTGGCAATACT	0.468													14	102					4.75885e-15	5.57331e-15	0.00499	1	0		A	26636652	A	A	26636652	3	1	11	1	0	0	0	0	1	0	0	0	7937	680	24	5	2178	5	ITPR2	12	26636652	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1334039	26636652	107215243	688	9080											
PPFIBP1	8496	broad.mit.edu	37	chr12	27842020	27842020	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacccaataagactttgctgCgaagacatttggccactcat	12	10	7	12	1	1	2	1	0	0	2	1	3	1	2	2	1	2	1	2	1	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:27842020C>T	uc001ric.1	+	26	2964	c.2587C>T	c.(2587-2589)CGA>TGA	p.R863*	PPFIBP1_uc010sjr.1_Nonsense_Mutation_p.R694*|PPFIBP1_uc001rib.1_Nonsense_Mutation_p.R857*|PPFIBP1_uc001ria.2_Nonsense_Mutation_p.R832*|PPFIBP1_uc001rid.1_Nonsense_Mutation_p.R710*|PPFIBP1_uc001rif.1_Nonsense_Mutation_p.R370*	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	863	SAM 3.				cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					GACTTTGCTGCGAAGACATTT	0.438													10	88					0	0	0.010729	0	0		T	27842020	T	T	27842020	4	4	11	1	0	0	0	0	0	1	0	0	12332	760	27	1	2709	1	PPFIBP1	12	27842020	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1205368	27842020	106009875	689	9081											
ADCY6	112	broad.mit.edu	37	chr12	49165630	49165630	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacacactcacacgactgatAgtagagttcatcattgcggc	12	9	8	12	2	3	2	3	1	0	1	3	3	3	2	0	1	1	2	0	1	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:49165630A>G	uc001rsh.3	-	18	3574	c.2914T>C	c.(2914-2916)TAT>CAT	p.Y972H	ADCY6_uc001rsj.3_Missense_Mutation_p.Y972H|ADCY6_uc001rsi.3_Missense_Mutation_p.Y919H|ADCY6_uc010slw.1_Missense_Mutation_p.Y203H	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	972	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						CACGACTGATAGTAGAGTTCA	0.552													6	38					0	0	0.001855	0	0		G	49165630	G	G	49165630	3	3	11	1	0	0	0	0	1	0	0	0	298	420	15	3	608	3	ADCY6	12	49165630	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	21323610	49165630	84686265	690	9082											
MLL2	8085	broad.mit.edu	37	chr12	49415918	49415918	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacacagttaggggcacAggaatggttaatgtacctgg	11	8	14	8	0	0	0	0	0	0	0	0	1	0	1	2	6	1	4	2	6	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:49415918A>C	uc001rta.3	-	53	16429	c.16429T>G	c.(16429-16431)TGT>GGT	p.C5477G		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5477	SET.	Zinc (By similarity).			chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TTAGGGGCACAGGAATGGTTA	0.512			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			20	148					0	0	0.012319	0	0		C	49415918	C	C	49415918	3	2	11	1	0	0	0	0	1	0	0	0	9639	188	7	5	192	5	MLL2	12	49415918	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	250288	49415918	84435977	691	9083											
KCNH3	23416	broad.mit.edu	37	chr12	49948282	49948282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgccccgcgcttcagtcGtggcctccgaggggagctca	4	9	14	14	4	2	0	2	0	0	0	4	2	3	1	4	3	2	3	4	3	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:49948282G>A	uc001ruh.1	+	11	2341	c.2081G>A	c.(2080-2082)CGT>CAT	p.R694H	KCNH3_uc010smj.1_Missense_Mutation_p.R634H	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	694	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						CGCTTCAGTCGTGGCCTCCGA	0.652													15	46					0	0	0.004007	0	0		A	49948282	A	A	49948282	3	1	11	1	0	0	0	0	1	0	0	0	8049	1145	40	1	2123	1	KCNH3	12	49948282	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	532364	49948282	83903613	692	9084											
PRPF40B	25766	broad.mit.edu	37	chr12	50025218	50025218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccccccaccctttcctcCgatggggctaccccccatga	6	8	7	20	1	0	1	0	1	0	0	3	3	3	1	9	2	1	1	9	2	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:50025218C>T	uc001rur.1	+	2	117	c.53C>T	c.(52-54)CCG>CTG	p.P18L	PRPF40B_uc001rup.1_Missense_Mutation_p.P40L|PRPF40B_uc001ruq.1_Missense_Mutation_p.P12L|PRPF40B_uc001rus.1_5'Flank	NM_001031698	NP_001026868	Q6NWY9	PR40B_HUMAN	Huntingtin interacting protein C isoform 1	18	Pro-rich.				mRNA processing|RNA splicing	nuclear speck				skin(2)|ovary(1)|pancreas(1)|kidney(1)	5						CCCTTTCCTCCGATGGGGCTA	0.602													18	89					0	0	0.008871	0	0		T	50025218	T	T	50025218	3	4	11	1	0	0	0	0	1	0	0	0	12594	652	23	1	59	1	PRPF40B	12	50025218	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	76936	50025218	83826677	693	9085											
SLC4A8	9498	broad.mit.edu	37	chr12	51882498	51882498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttagccaacaagggatgatCgcggatggattattaatccc	12	10	10	9	2	0	1	0	1	0	0	2	4	1	4	2	3	2	0	2	3	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:51882498C>T	uc001rys.1	+	18	2480	c.2302C>T	c.(2302-2304)CGC>TGC	p.R768C	SLC4A8_uc001rym.2_Missense_Mutation_p.R715C|SLC4A8_uc001ryn.2_Missense_Mutation_p.R715C|SLC4A8_uc001ryo.2_Missense_Mutation_p.R715C|SLC4A8_uc010snj.1_Missense_Mutation_p.R795C|SLC4A8_uc001ryr.2_Missense_Mutation_p.R768C	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	768	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		AAGGGATGATCGCGGATGGAT	0.378													13	79					0	0	0.007413	0	0		T	51882498	T	T	51882498	3	4	11	1	0	0	0	0	1	0	0	0	14684	884	31	1	2372	1	SLC4A8	12	51882498	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1857280	51882498	81969397	694	9086											
CSAD	51380	broad.mit.edu	37	chr12	53565756	53565756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgagcacaaacacgggggCgatttcatatgtgtacctgc	11	9	11	10	2	1	1	1	1	0	0	1	2	1	1	1	2	4	2	1	2	3	3	rs138203066	by1000genomes	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:53565756C>T	uc001sby.2	-	6	487	c.361G>A	c.(361-363)GCC>ACC	p.A121T	CSAD_uc001sbw.2_Intron|CSAD_uc009zmt.2_5'UTR|CSAD_uc010snx.1_Missense_Mutation_p.A148T|CSAD_uc001sbz.2_Missense_Mutation_p.A121T|CSAD_uc009zmu.2_Intron|CSAD_uc001sca.3_RNA|CSAD_uc010sny.1_Missense_Mutation_p.A121T	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	121					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	AACACGGGGGCGATTTCATAT	0.562									Hereditary_Prostate_Cancer				4	34					0	0	0.000602	0	0		T	53565756	T	T	53565756	3	4	11	1	0	0	0	0	1	0	0	0	3928	768	27	1	1164	1	CSAD	12	53565756	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1683258	53565756	80286139	695	9087											
CALCOCO1	57658	broad.mit.edu	37	chr12	54115307	54115307	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggtctggatgtcatcCtctagctccaggatgcgtgc	6	12	12	11	1	3	1	1	1	2	0	5	3	5	3	2	3	3	1	2	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:54115307C>A	uc001sef.2	-	6	846	c.702G>T	c.(700-702)GAG>GAT	p.E234D	CALCOCO1_uc010som.1_Missense_Mutation_p.E201D|CALCOCO1_uc010son.1_Missense_Mutation_p.E111D|CALCOCO1_uc001seh.2_Missense_Mutation_p.E234D|CALCOCO1_uc009znd.2_Missense_Mutation_p.E234D|CALCOCO1_uc001seg.2_Missense_Mutation_p.E111D|CALCOCO1_uc010soo.1_Missense_Mutation_p.E227D	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	234	Potential.				steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						GGATGTCATCCTCTAGCTCCA	0.567													46	320					2.27781e-18	2.67965e-18	0.01441	1	0		A	54115307	A	A	54115307	3	1	11	1	0	0	0	0	1	0	0	0	2580	680	24	5	1413	5	CALCOCO1	12	54115307	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	549551	54115307	79736588	696	9088											
HOXC6	3223	broad.mit.edu	37	chr12	54422366	54422366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccgggggccaggacgtcCtccccaacgtcgccctcaat	6	6	11	18	5	1	0	1	0	0	0	5	1	3	1	6	3	1	0	6	3	2	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:54422366C>T	uc001sev.2	+	1	173	c.61C>T	c.(61-63)CTC>TTC	p.L21F	HOXC6_uc001ses.2_5'UTR|HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron	NM_004503	NP_004494	P09630	HXC6_HUMAN	homeobox C6 isoform 1	21					regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|upper_aerodigestive_tract(1)	3						CCAGGACGTCCTCCCCAACGT	0.542													6	33					0	0	0.001984	0	0		T	54422366	T	T	54422366	3	4	11	1	0	0	0	0	1	0	0	0	7331	681	24	4	63	4	HOXC6	12	54422366	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	307059	54422366	79429529	697	9089											
NCKAP1L	3071	broad.mit.edu	37	chr12	54913073	54913073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcccgaatgctggactccGtagaaaaattgctggtggaa	12	9	11	9	2	0	1	0	0	0	1	2	4	2	3	2	3	2	3	2	3	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:54913073G>A	uc001sgc.3	+	16	1661	c.1582G>A	c.(1582-1584)GTA>ATA	p.V528I	NCKAP1L_uc010sox.1_Missense_Mutation_p.V70I|NCKAP1L_uc010soy.1_Missense_Mutation_p.V478I	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	528					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						GCTGGACTCCGTAGAAAAATT	0.433													16	91					0	0	0.007413	0	0		A	54913073	A	A	54913073	3	1	11	1	0	0	0	0	1	0	0	0	10241	1145	40	1	1644	1	NCKAP1L	12	54913073	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	490707	54913073	78938822	698	9090											
NCKAP1L	3071	broad.mit.edu	37	chr12	54920460	54920460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccagagtcatccgcaacGccctcctgcagcagacacaa	11	6	7	17	2	1	2	1	0	0	2	4	2	4	2	4	0	3	3	4	0	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:54920460G>A	uc001sgc.3	+	21	2384	c.2305G>A	c.(2305-2307)GCC>ACC	p.A769T	NCKAP1L_uc010sox.1_Missense_Mutation_p.A311T|NCKAP1L_uc010soy.1_Missense_Mutation_p.A719T	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	769				NA -> KP (in Ref. 1; AAA35964).	actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						CATCCGCAACGCCCTCCTGCA	0.517													6	27					0	0	0.00308	0	0		A	54920460	A	A	54920460	3	1	11	1	0	0	0	0	1	0	0	0	10241	1087	38	1	2387	1	NCKAP1L	12	54920460	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	7387	54920460	78931435	699	9091											
OR6C70	390327	broad.mit.edu	37	chr12	55863562	55863562	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtttgcagatggcaacatAgcgatcataggacagagcag	14	7	13	7	1	1	2	1	0	0	2	1	4	1	3	0	3	4	4	0	3	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:55863562A>G	uc010spn.1	-	1	361	c.361T>C	c.(361-363)TAT>CAT	p.Y121H		NM_001005499	NP_001005499	A6NIJ9	O6C70_HUMAN	olfactory receptor, family 6, subfamily C,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ATGGCAACATAGCGATCATAG	0.388													16	99					0	0	0.00499	0	0		G	55863562	G	G	55863562	3	3	11	1	0	0	0	0	1	0	0	0	11216	420	15	3	579	3	OR6C70	12	55863562	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	943102	55863562	77988333	700	9092											
ERBB3	2065	broad.mit.edu	37	chr12	56487323	56487323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcaagcataatcggccgcGcagagactgcggtgagggaa	12	5	14	10	4	1	2	1	1	0	1	2	4	1	3	1	3	2	2	1	3	3	1	rs149951770		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:56487323G>A	uc001sjh.2	+	12	1662	c.1469G>A	c.(1468-1470)CGC>CAC	p.R490H	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.R431H|ERBB3_uc009zok.2_5'Flank|ERBB3_uc001sjk.2_5'Flank|ERBB3_uc001sjj.1_Missense_Mutation_p.R58H	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	490	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			AATCGGCCGCGCAGAGACTGC	0.567													5	46					0	0	0.001984	0	0		A	56487323	A	A	56487323	3	1	11	1	0	0	0	0	1	0	0	0	5216	1087	38	1	1646	1	ERBB3	12	56487323	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	623761	56487323	77364572	701	9093											
ERBB3	2065	broad.mit.edu	37	chr12	56490366	56490366	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagacagagctaaggaagcTtaaagtgcttggctcgggtg	12	8	15	6	1	0	2	0	0	0	2	1	4	0	3	0	3	3	4	0	3	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:56490366T>G	uc001sjh.2	+	18	2328	c.2135T>G	c.(2134-2136)CTT>CGT	p.L712R	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Missense_Mutation_p.L69R|ERBB3_uc010sqc.1_Missense_Mutation_p.L653R|ERBB3_uc009zok.2_Intron|ERBB3_uc001sjk.2_5'UTR	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	712	Cytoplasmic (Potential).|Protein kinase.				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CTAAGGAAGCTTAAAGTGCTT	0.502													36	210					0	0	0.007835	0	0		G	56490366	G	G	56490366	3	3	11	1	0	0	0	0	1	0	0	0	5216	1609	56	5	2336	5	ERBB3	12	56490366	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	3043	56490366	77361529	702	9094											
ERBB3	2065	broad.mit.edu	37	chr12	56495459	56495459	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccccctaggccaagttccCttgaggagctgggttatgag	8	10	12	11	0	0	2	0	2	0	0	2	3	2	3	4	3	1	3	4	3	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:56495459C>A	uc001sjh.2	+	28	3842	c.3649C>A	c.(3649-3651)CTT>ATT	p.L1217I	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Missense_Mutation_p.L574I|ERBB3_uc010sqc.1_Missense_Mutation_p.L1158I|ERBB3_uc009zok.2_Missense_Mutation_p.L482I|ERBB3_uc001sjk.2_Missense_Mutation_p.L458I|ERBB3_uc001sjl.2_Missense_Mutation_p.L337I|PA2G4_uc001sjm.2_5'Flank|PA2G4_uc009zol.2_5'Flank|PA2G4_uc009zom.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	1217	Cytoplasmic (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			GCCAAGTTCCCTTGAGGAGCT	0.537													8	62					1.58986e-06	1.77451e-06	0.008291	1	0		A	56495459	A	A	56495459	3	1	11	1	0	0	0	0	1	0	0	0	5216	681	24	5	3890	5	ERBB3	12	56495459	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5093	56495459	77356436	703	9095											
ESYT1	23344	broad.mit.edu	37	chr12	56532561	56532561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtctttctagctgcgaaaaGgcaccaagcacctcagccct	10	9	8	14	1	3	0	1	0	2	0	3	1	3	0	3	1	4	3	3	1	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:56532561G>A	uc001sjq.2	+	23	2493	c.2443G>A	c.(2443-2445)GGC>AGC	p.G815S	ESYT1_uc001sjr.2_Missense_Mutation_p.G825S	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	815	C2 4.					integral to membrane				ovary(4)|skin(1)	5						GCTGCGAAAAGGCACCAAGCA	0.448													30	169					0	0	0.003271	0	0		A	56532561	A	A	56532561	3	1	11	1	0	0	0	0	1	0	0	0	5272	1000	35	4	2563	4	ESYT1	12	56532561	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	37102	56532561	77319334	704	9096											
TIMELESS	8914	broad.mit.edu	37	chr12	56811689	56811689	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggtcccatcaaattccctAcctctgttcctgccctcatc	8	12	4	17	0	3	0	2	0	1	0	7	0	6	0	5	1	2	1	5	1	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:56811689A>G	uc001slf.2	-	28	3724	c.3556_splice	c.e28+1	p.A1186_splice		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog						cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						CAAATTCCCTACCTCTGTTCC	0.463													23	99					0	0	0.004656	0	0		G	56811689	G	G	56811689	5	3	11	1	0	0	0	0	0	0	1	0	15929	405	14	3	76	3	TIMELESS	12	56811689	Splice_Site	SNP	A	TCGA-BR-4256-01A-01D-1126-08	279128	56811689	77040206	705	9097											
TIMELESS	8914	broad.mit.edu	37	chr12	56817369	56817369	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcctctcagcccgcaccGtttcaggtagtccagaaaat	10	8	9	14	2	2	1	2	0	1	1	4	1	3	1	4	2	1	3	4	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:56817369G>A	uc001slf.2	-	17	2257	c.2089C>T	c.(2089-2091)CGC>TGC	p.R697C		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	697					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						AGCCCGCACCGTTTCAGGTAG	0.418													8	58					0	0	0.010729	0	0		A	56817369	A	A	56817369	3	1	11	1	0	0	0	0	1	0	0	0	15929	1159	40	1	1589	1	TIMELESS	12	56817369	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	5680	56817369	77034526	706	9098											
PRIM1	5557	broad.mit.edu	37	chr12	57128007	57128007	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaaactttcacataaggTgctagactggtcttcttata	13	14	6	8	0	4	1	2	0	2	1	4	1	4	1	0	2	2	1	0	2	6	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:57128007T>C	uc001smd.2	-	12	1231	c.1167A>G	c.(1165-1167)GCA>GCG	p.A389A		NM_000946	NP_000937	P49642	PRI1_HUMAN	DNA primase polypeptide 1	389					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	DNA primase activity|metal ion binding				0						TCACATAAGGTGCTAGACTGG	0.328													6	34					0	0	0.001984	0	0		C	57128007	C	C	57128007	2	2	11	1	0	0	0	0	0	0	0	1	12512	1683	59	3		3	PRIM1	12	57128007	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	310638	57128007	76723888	707	9099											
MARS	4141	broad.mit.edu	37	chr12	57906639	57906639	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgacatctggcgcttctAtctgctgtacattcggcctg	5	14	10	12	2	3	1	0	1	3	0	4	1	3	1	1	2	3	4	1	2	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:57906639A>G	uc001sog.2	+	15	1882	c.1859A>G	c.(1858-1860)TAT>TGT	p.Y620C	MARS_uc001sof.1_RNA|MARS_uc010srq.1_Missense_Mutation_p.Y386C|MARS_uc001soh.1_Missense_Mutation_p.Y15C	NM_004990	NP_004981	P56192	SYMC_HUMAN	methionyl-tRNA synthetase	620					methionyl-tRNA aminoacylation	cytosol	ATP binding|methionine-tRNA ligase activity|protein binding|tRNA binding			ovary(3)|central_nervous_system(1)|pancreas(1)	5			GBM - Glioblastoma multiforme(3;4.27e-41)		L-Methionine(DB00134)	TGGCGCTTCTATCTGCTGTAC	0.547													21	117					0	0	0.004656	0	0		G	57906639	G	G	57906639	3	3	11	1	0	0	0	0	1	0	0	0	9334	449	16	3	1917	3	MARS	12	57906639	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	778632	57906639	75945256	708	9100											
DYRK2	8445	broad.mit.edu	37	chr12	68051258	68051258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggtctaaatgctaagaagCgccagggcatgacaggtggg	11	7	16	7	1	1	2	0	1	1	1	1	2	1	2	1	4	2	2	1	4	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:68051258C>T	uc001str.3	+	3	973	c.571C>T	c.(571-573)CGC>TGC	p.R191C	DYRK2_uc001sts.3_Missense_Mutation_p.R118C	NM_006482	NP_006473	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	191					apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|positive regulation of glycogen biosynthetic process|smoothened signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|manganese ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(1)|central_nervous_system(1)	4			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		TGCTAAGAAGCGCCAGGGCAT	0.473													6	46					0	0	0.00308	0	0		T	68051258	T	T	68051258	3	4	11	1	0	0	0	0	1	0	0	0	4862	768	27	1	581	1	DYRK2	12	68051258	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	10144619	68051258	65800637	709	9101											
DYRK2	8445	broad.mit.edu	37	chr12	68052038	68052038	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactgctggatgcatccaaaCgagccaaaaattttgtgagc	14	9	9	9	1	0	1	0	1	0	0	1	3	1	2	2	1	6	2	2	1	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:68052038C>T	uc001str.3	+	3	1753	c.1351C>T	c.(1351-1353)CGA>TGA	p.R451*	DYRK2_uc001sts.3_Nonsense_Mutation_p.R378*	NM_006482	NP_006473	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	451	Protein kinase.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|positive regulation of glycogen biosynthetic process|smoothened signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|manganese ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(1)|central_nervous_system(1)	4			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		TGCATCCAAACGAGCCAAAAA	0.547													13	47					0	0	0.001855	0	0		T	68052038	T	T	68052038	4	4	11	1	0	0	0	0	0	1	0	0	4862	528	19	1	1361	1	DYRK2	12	68052038	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	780	68052038	65799857	710	9102											
BBS10	79738	broad.mit.edu	37	chr12	76739774	76739774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggttgattggtttgcagtGcatggacagctcttatatat	9	15	12	5	0	1	1	0	1	1	0	1	2	1	2	0	3	3	5	0	3	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:76739774G>A	uc001syd.1	-	2	2075	c.1991C>T	c.(1990-1992)GCA>GTA	p.A664V		NM_024685	NP_078961	Q8TAM1	BBS10_HUMAN	Bardet-Biedl syndrome 10	664					cellular protein metabolic process|nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	cilium	ATP binding			ovary(1)|skin(1)	2						GGTTTGCAGTGCATGGACAGC	0.373									Bardet-Biedl_syndrome				15	90					0	0	0.004007	0	0		A	76739774	A	A	76739774	3	1	11	1	0	0	0	0	1	0	0	0	1337	1319	46	2	184	2	BBS10	12	76739774	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	8687736	76739774	57112121	711	9103											
NAV3	89795	broad.mit.edu	37	chr12	78400518	78400518	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggactgctttacgccccccGcagcctcccagttcaggacc	6	7	9	19	3	1	0	1	0	0	0	2	2	2	2	6	2	3	3	6	2	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:78400518G>A	uc001syp.2	+	8	1373	c.1200G>A	c.(1198-1200)CCG>CCA	p.P400P	NAV3_uc001syo.2_Silent_p.P400P	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	400						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TACGCCCCCCGCAGCCTCCCA	0.502										HNSCC(70;0.22)			19	92					0	0	0.012319	0	0		A	78400518	A	A	78400518	2	1	11	1	0	0	0	0	0	0	0	1	10203	1074	38	1		1	NAV3	12	78400518	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1660744	78400518	55451377	712	9104											
PLXNC1	10154	broad.mit.edu	37	chr12	94631565	94631565	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgaaaggaaccagtacCtgtgataaggatgtgtgagt	13	10	12	6	0	0	3	0	3	0	0	1	5	1	5	3	2	2	1	3	2	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:94631565C>A	uc001tdc.2	+	10	2355	c.2106C>A	c.(2104-2106)ACC>ACA	p.T702T		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	702	Extracellular (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						GAACCAGTACCTGTGATAAGG	0.408													8	54					0.00621372	0.00660808	0.006214	1	0		A	94631565	A	A	94631565	2	1	11	1	0	0	0	0	0	0	0	1	12145	668	24	5		5	PLXNC1	12	94631565	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	16231047	94631565	39220330	713	9105											
LTA4H	4048	broad.mit.edu	37	chr12	96412962	96412962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacctcagaaaactcataaGcagacttttccacctgctct	13	10	4	14	0	3	2	2	0	1	2	4	2	4	2	3	0	4	2	3	0	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:96412962G>A	uc001ten.1	-	7	763	c.695C>T	c.(694-696)GCT>GTT	p.A232V	LTA4H_uc010suy.1_Missense_Mutation_p.A194V|LTA4H_uc010suz.1_Missense_Mutation_p.A194V|LTA4H_uc010sva.1_RNA	NM_000895	NP_000886	P09960	LKHA4_HUMAN	leukotriene A4 hydrolase	232					hormone biosynthetic process|inflammatory response|leukotriene biosynthetic process|peptide catabolic process|prostanoid metabolic process|proteolysis	cytosol|nucleus	aminopeptidase activity|epoxide hydrolase activity|leukotriene-A4 hydrolase activity|metallopeptidase activity|protein binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(1)	1						AAACTCATAAGCAGACTTTTC	0.353													23	99					0	0	0.003954	0	0		A	96412962	A	A	96412962	3	1	11	1	0	0	0	0	1	0	0	0	9087	971	34	2	1192	2	LTA4H	12	96412962	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1781397	96412962	37438933	714	9106											
SLC17A8	246213	broad.mit.edu	37	chr12	100806591	100806591	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctggtggttggcttttcGcataccaaaggggtggctat	6	13	13	9	1	0	0	0	0	0	0	2	0	1	0	2	6	1	4	2	6	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:100806591G>A	uc010svi.1	+	10	1543	c.1230G>A	c.(1228-1230)TCG>TCA	p.S410S	SLC17A8_uc009ztx.2_Silent_p.S360S	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	410	Helical; (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						TTGGCTTTTCGCATACCAAAG	0.448													15	107					0	0	0.003163	0	0		A	100806591	A	A	100806591	2	1	11	1	0	0	0	0	0	0	0	1	14448	1074	38	1		1	SLC17A8	12	100806591	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4393629	100806591	33045304	715	9107											
DRAM1	55332	broad.mit.edu	37	chr12	102302036	102302036	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgtcgtgtacacgctcCtacagtccatcatctcttac	7	13	8	13	2	2	0	1	0	1	0	6	0	4	0	2	1	3	2	2	1	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:102302036C>A	uc001tix.2	+	4	878	c.415C>A	c.(415-417)CTA>ATA	p.L139I	DRAM1_uc010svv.1_Intron	NM_018370	NP_060840	Q8N682	DRAM1_HUMAN	DNA-damage regulated autophagy modulator 1	139					apoptosis|autophagy	integral to membrane|lysosomal membrane				ovary(1)	1						GTACACGCTCCTACAGTCCAT	0.498													8	99					1.12685e-05	1.23868e-05	0.004482	1	0		A	102302036	A	A	102302036	3	1	11	1	0	0	0	0	1	0	0	0	4759	680	24	5	429	5	DRAM1	12	102302036	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1495445	102302036	31549859	716	9108											
STAB2	55576	broad.mit.edu	37	chr12	104160109	104160109	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatgaccccttgaggacaCtgtgagggcctggacgggag	9	6	16	10	1	0	3	0	3	0	0	0	6	0	6	3	4	0	1	3	4	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:104160109C>G	uc001tjw.2	+	69	7837	c.7651C>G	c.(7651-7653)CTG>GTG	p.L2551V	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2551	Cytoplasmic (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTTGAGGACACTGTGAGGGCC	0.542													5	25					0	0	0.000602	0	0		G	104160109	G	G	104160109	3	3	11	1	0	0	0	0	1	0	0	0	15263	564	20	5	7925	5	STAB2	12	104160109	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1858073	104160109	29691786	717	9109											
NUAK1	9891	broad.mit.edu	37	chr12	106464587	106464587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcccggtactctccgctgCtgatttgccgaatgaggttt	5	13	11	12	3	1	2	0	2	1	0	3	3	2	2	3	2	3	5	3	2	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:106464587C>T	uc001tlj.1	-	6	2177	c.797G>A	c.(796-798)AGC>AAC	p.S266N		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	266	Protein kinase.						ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						CTCTCCGCTGCTGATTTGCCG	0.547													10	57					0	0	0.010729	0	0		T	106464587	T	T	106464587	3	4	11	1	0	0	0	0	1	0	0	0	10731	797	28	2	1196	2	NUAK1	12	106464587	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2304478	106464587	27387308	718	9110											
NUAK1	9891	broad.mit.edu	37	chr12	106480539	106480539	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatagtgcacagcagagacGatctgccggaagaagtgccg	13	5	13	10	3	1	2	0	0	1	2	1	5	1	3	2	1	4	2	2	1	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:106480539G>A	uc001tlj.1	-	3	1866	c.486C>T	c.(484-486)ATC>ATT	p.I162I		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	162	Protein kinase.						ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						CAGCAGAGACGATCTGCCGGA	0.507													11	43					0	0	0.001855	0	0		A	106480539	A	A	106480539	2	1	11	1	0	0	0	0	0	0	0	1	10731	1048	37	1		1	NUAK1	12	106480539	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	15952	106480539	27371356	719	9111											
ACACB	32	broad.mit.edu	37	chr12	109604665	109604665	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccctcattcttattctgcaGgccgagcatgtcgggactcc	6	12	9	14	2	3	0	1	0	2	0	6	2	5	1	3	2	2	2	3	2	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:109604665G>T	uc001tob.2	+	3	773	c.654_splice	c.e3-1	p.R218_splice	ACACB_uc001toc.2_Splice_Site_p.R218_splice	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta						acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	TTATTCTGCAGGCCGAGCATG	0.572													8	32					3.09899e-07	3.50075e-07	0.004482	1	0		T	109604665	T	T	109604665	5	4	11	1	0	0	0	0	0	0	1	0	107	1014	35	5	659	5	ACACB	12	109604665	Splice_Site	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3124126	109604665	24247230	720	9112											
ACACB	32	broad.mit.edu	37	chr12	109675059	109675059	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaacttcgatctgaccgcCgtgccctgtgccaaccacaa	9	8	8	16	4	1	1	0	1	1	0	2	2	1	1	5	0	4	1	5	0	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:109675059C>T	uc001tob.2	+	34	4655	c.4536C>T	c.(4534-4536)GCC>GCT	p.A1512A	ACACB_uc001toc.2_Silent_p.A1512A|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Silent_p.A178A	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1512					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	ATCTGACCGCCGTGCCCTGTG	0.552													11	43					0	0	0.001855	0	0		T	109675059	T	T	109675059	2	4	11	1	0	0	0	0	0	0	0	1	107	639	23	1		1	ACACB	12	109675059	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	70394	109675059	24176836	721	9113											
ACACB	32	broad.mit.edu	37	chr12	109680283	109680283	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaagcaagggccccagcaCgggatgctgatcaatactcc	13	5	10	13	1	1	1	1	1	0	0	2	2	2	2	3	2	5	3	3	2	5	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:109680283C>T	uc001tob.2	+	37	5183	c.5064C>T	c.(5062-5064)CAC>CAT	p.H1688H	ACACB_uc001toc.2_Silent_p.H1688H|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Silent_p.H354H	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1688					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GGCCCCAGCACGGGATGCTGA	0.537													19	58					0	0	0.010504	0	0		T	109680283	T	T	109680283	2	4	11	1	0	0	0	0	0	0	0	1	107	535	19	1		1	ACACB	12	109680283	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5224	109680283	24171612	722	9114											
ATP2A2	488	broad.mit.edu	37	chr12	110781180	110781180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcatgaataaacctccccGgaacccaaaggaaccattga	16	6	6	13	1	1	2	1	2	0	0	2	4	2	4	5	2	3	0	5	2	6	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:110781180G>A	uc001tqk.3	+	16	3025	c.2462G>A	c.(2461-2463)CGG>CAG	p.R821Q	ATP2A2_uc001tql.3_Missense_Mutation_p.R821Q|ATP2A2_uc010sxy.1_Missense_Mutation_p.R794Q|ATP2A2_uc001tqn.3_5'Flank|ATP2A2_uc009zvn.2_5'Flank	NM_170665	NP_733765	P16615	AT2A2_HUMAN	ATPase, Ca++ transporting, slow twitch 2 isoform	821	Cytoplasmic (By similarity).				ATP biosynthetic process|cell adhesion|epidermis development|platelet activation|sarcoplasmic reticulum calcium ion transport	integral to plasma membrane|microsome|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|protein C-terminus binding|S100 alpha binding			ovary(3)|skin(1)	4						AAACCTCCCCGGAACCCAAAG	0.463													13	91					0	0	0.003163	0	0		A	110781180	A	A	110781180	3	1	11	1	0	0	0	0	1	0	0	0	1138	1116	39	1	2524	1	ATP2A2	12	110781180	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1100897	110781180	23070715	723	9115											
ATXN2	6311	broad.mit.edu	37	chr12	111893896	111893896	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaacgtgagaaggatggatCgtaaagacagtctgttgtgc	12	10	14	5	2	1	3	0	2	1	2	2	6	1	5	0	2	2	2	0	2	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:111893896C>T	uc001tsj.2	-	23	3843	c.3681G>A	c.(3679-3681)ACG>ACA	p.T1227T	ATXN2_uc001tsh.2_Silent_p.T962T|ATXN2_uc001tsi.2_Silent_p.T920T|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Silent_p.T415T|ATXN2_uc001tsl.1_Silent_p.T228T	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	1227					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						AAGGATGGATCGTAAAGACAG	0.557													27	147					0	0	0.007291	0	0		T	111893896	T	T	111893896	2	4	11	1	0	0	0	0	0	0	0	1	1212	871	31	1		1	ATXN2	12	111893896	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1112716	111893896	21957999	724	9116											
ACAD10	80724	broad.mit.edu	37	chr12	112140085	112140085	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taacagcagagggttttttaCgagaatttgggagactttgc	11	13	12	5	1	0	3	0	0	0	3	0	5	0	3	0	2	4	2	0	2	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:112140085C>T	uc001tsq.2	+	3	507	c.307C>T	c.(307-309)CGA>TGA	p.R103*	ACAD10_uc009zvw.2_Nonsense_Mutation_p.R103*|ACAD10_uc001tso.3_Nonsense_Mutation_p.R103*|ACAD10_uc001tsp.2_Nonsense_Mutation_p.R103*|ACAD10_uc009zvx.2_Nonsense_Mutation_p.R103*	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	103							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						GGGTTTTTTACGAGAATTTGG	0.393													21	124					0	0	0.00278	0	0		T	112140085	T	T	112140085	4	4	11	1	0	0	0	0	0	1	0	0	108	528	19	1	313	1	ACAD10	12	112140085	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	246189	112140085	21711810	725	9117											
C12orf51	283450	broad.mit.edu	37	chr12	112650367	112650367	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgagaggcgctgcccgcagTatgtgaagtacacccggccc	8	6	14	13	3	0	2	0	2	0	1	0	3	0	2	3	2	2	4	3	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:112650367T>C	uc009zwc.2	-	42	6305	c.6287A>G	c.(6286-6288)TAC>TGC	p.Y2096C	C12orf51_uc001ttr.1_Missense_Mutation_p.Y271C	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CTGCCCGCAGTATGTGAAGTA	0.557													16	70					0	0	0.004007	0	0		C	112650367	C	C	112650367	3	2	11	1	0	0	0	0	1	0	0	0	1699	1638	57	3	5815	3	C12orf51	12	112650367	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	510282	112650367	21201528	726	9118											
DTX1	1840	broad.mit.edu	37	chr12	113532908	113532908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagacgggtacgcagcCgcctgggaagatggagttcc	10	5	17	9	3	0	3	0	0	0	3	1	6	1	5	3	4	2	3	3	4	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:113532908C>T	uc001tuk.1	+	7	1784	c.1448C>T	c.(1447-1449)CCG>CTG	p.P483L		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	483					negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						GGTACGCAGCCGCCTGGGAAG	0.647													4	29					0	0	0.009096	0	0		T	113532908	T	T	113532908	3	4	11	1	0	0	0	0	1	0	0	0	4799	652	23	1	1474	1	DTX1	12	113532908	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	882541	113532908	20318987	727	9119											
TBX3	6926	broad.mit.edu	37	chr12	115120662	115120662	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgccccgcttgtgaaacTgatcccaaagttctttagcc	8	11	9	13	2	1	2	0	2	1	0	2	2	2	2	4	1	3	2	4	1	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:115120662T>C	uc001tvt.1	-	1	1308	c.344A>G	c.(343-345)CAG>CGG	p.Q115R	TBX3_uc001tvu.1_Missense_Mutation_p.Q115R|TBX3_uc010syw.1_Missense_Mutation_p.Q115R	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	115	T-box; first part.				anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		CTTGTGAAACTGATCCCAAAG	0.567													10	54					0	0	0.010729	0	0		C	115120662	C	C	115120662	3	2	11	1	0	0	0	0	1	0	0	0	15684	1580	55	3	1919	3	TBX3	12	115120662	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1587754	115120662	18731233	728	9120											
NOS1	4842	broad.mit.edu	37	chr12	117685162	117685162	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccagattaccttgaagacCttcttggcccaggtcctgaa	10	11	8	12	0	1	4	0	2	1	2	3	4	3	4	5	2	1	0	5	2	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:117685162C>A	uc001twm.1	-	18	3500	c.2814G>T	c.(2812-2814)AAG>AAT	p.K938N		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	938	Flavodoxin-like.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CCTTGAAGACCTTCTTGGCCC	0.512													12	83					0.000219431	0.000237022	0.00245	1	0		A	117685162	A	A	117685162	3	1	11	1	0	0	0	0	1	0	0	0	10560	680	24	5	1538	5	NOS1	12	117685162	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2564500	117685162	16166733	729	9121											
RSRC2	65117	broad.mit.edu	37	chr12	123001921	123001921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggatctcgatttcttcCgctccctactcctggatcga	5	15	7	14	3	3	0	0	0	3	0	8	4	6	2	3	2	1	1	3	2	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:123001921C>T	uc001ucr.2	-	5	601	c.455G>A	c.(454-456)CGG>CAG	p.R152Q	RSRC2_uc001uco.2_5'UTR|RSRC2_uc001ucp.2_Missense_Mutation_p.R93Q|RSRC2_uc001ucq.2_5'UTR|RSRC2_uc001ucs.2_5'UTR|RSRC2_uc001uct.2_Missense_Mutation_p.R104Q|RSRC2_uc001ucu.2_Missense_Mutation_p.R152Q	NM_023012	NP_075388	Q7L4I2	RSRC2_HUMAN	arginine/serine-rich coiled-coil 2 isoform a	152	Ser-rich.									ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.14e-05)|Epithelial(86;0.000183)|BRCA - Breast invasive adenocarcinoma(302;0.201)		CGATTTCTTCCGCTCCCTACT	0.463													10	70					0	0	0.013537	0	0		T	123001921	T	T	123001921	3	4	11	1	0	0	0	0	1	0	0	0	13740	652	23	1	873	1	RSRC2	12	123001921	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5316759	123001921	10849974	730	9122											
DNAH10	196385	broad.mit.edu	37	chr12	124258738	124258738	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgaaggaagctatggaaaTtatgccagaaacactggagt	16	8	11	6	0	0	2	0	1	0	1	0	5	0	5	1	3	3	1	1	3	6	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:124258738T>G	uc001uft.3	+	5	390	c.365T>G	c.(364-366)ATT>AGT	p.I122S		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	122	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GCTATGGAAATTATGCCAGAA	0.393													30	152					0	0	0.00623	0	0		G	124258738	G	G	124258738	3	3	11	1	0	0	0	0	1	0	0	0	4604	1493	52	5	383	5	DNAH10	12	124258738	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1256817	124258738	9593157	731	9123											
DNAH10	196385	broad.mit.edu	37	chr12	124341746	124341746	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccctgacttcaacgatgcGgtagagcaggtcctggagga	10	8	13	10	2	1	2	1	1	0	1	2	5	2	4	2	4	4	2	2	4	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:124341746G>A	uc001uft.3	+	36	6253	c.6228G>A	c.(6226-6228)GCG>GCA	p.A2076A		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2076	AAA 2 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TCAACGATGCGGTAGAGCAGG	0.527													15	31					0	0	0.007413	0	0		A	124341746	A	A	124341746	2	1	11	1	0	0	0	0	0	0	0	1	4604	1103	39	1		1	DNAH10	12	124341746	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	83008	124341746	9510149	732	9124											
NCOR2	9612	broad.mit.edu	37	chr12	124857107	124857107	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtccttggcggcctcAgtgtgaggagaggggatgct	5	10	17	9	1	1	2	1	1	0	1	2	4	2	3	3	5	1	1	3	5	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:124857107A>G	uc010tba.1	-	20	2385	c.2268T>C	c.(2266-2268)ACT>ACC	p.T756T	NCOR2_uc010tay.1_Silent_p.T756T|NCOR2_uc010taz.1_Silent_p.T739T|NCOR2_uc010tbb.1_Silent_p.T756T|NCOR2_uc010tbc.1_Silent_p.T738T|NCOR2_uc001ugj.1_Silent_p.T756T	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	756					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		TGGCGGCCTCAGTGTGAGGAG	0.687													4	23					0	0	0.009096	0	0		G	124857107	G	G	124857107	2	3	11	1	0	0	0	0	0	0	0	1	10255	175	7	3		3	NCOR2	12	124857107	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	515361	124857107	8994788	733	9125											
FZD10	11211	broad.mit.edu	37	chr12	130648883	130648883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgcctgctacttttacgaaCgcctcaacatggattactgg	9	12	8	12	3	1	0	1	0	0	0	2	2	1	1	2	2	6	1	2	2	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr12:130648883C>T	uc001uii.2	+	1	1852	c.1396C>T	c.(1396-1398)CGC>TGC	p.R466C	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	466	Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		CTTTTACGAACGCCTCAACAT	0.557													4	50					0	0	0.001168	0	0		T	130648883	T	T	130648883	3	4	11	1	0	0	0	0	1	0	0	0	6143	536	19	1	1398	1	FZD10	12	130648883	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5791776	130648883	3203012	734	9126											
MPHOSPH8	54737	broad.mit.edu	37	chr13	20221160	20221160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgagaagcccctagacaGtgccatgagtgctgaggagg	10	8	14	9	0	0	4	0	3	0	2	0	6	0	5	3	2	3	1	3	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:20221160G>A	uc001umh.2	+	3	956	c.947G>A	c.(946-948)AGT>AAT	p.S316N	MPHOSPH8_uc001umf.1_Missense_Mutation_p.S316N|MPHOSPH8_uc001umg.2_Missense_Mutation_p.S316N|MPHOSPH8_uc001umi.2_Missense_Mutation_p.S13N	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	316					cell cycle	cytoplasm|nucleus					0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		CCCCTAGACAGTGCCATGAGT	0.517													13	89					0	0	0.00499	0	0		A	20221160	A	A	20221160	3	1	11	1	0	0	0	0	1	0	0	0	9745	1029	36	4	957	4	MPHOSPH8	13	20221160	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08		20221160	94948718	735	9127											
XPO4	64328	broad.mit.edu	37	chr13	21396376	21396376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagctaactgggcaaggCactgcagagaatcttgtgcc	12	7	13	9	0	1	2	0	0	1	2	1	4	1	2	1	2	4	4	1	2	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:21396376C>T	uc001unq.3	-	8	929	c.893G>A	c.(892-894)TGC>TAC	p.C298Y		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	298					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		CTGGGCAAGGCACTGCAGAGA	0.373													17	120					0	0	0.007413	0	0		T	21396376	T	T	21396376	3	4	11	1	0	0	0	0	1	0	0	0	17472	710	25	2	2626	2	XPO4	13	21396376	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1175216	21396376	93773502	736	9128											
PARP4	143	broad.mit.edu	37	chr13	25077812	25077812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taacgaaaaggaaaactttcCgccattttccttaatgtcag	14	12	6	9	2	1	0	1	0	0	0	3	2	3	1	3	1	2	0	3	1	6	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:25077812C>T	uc001upl.2	-	2	209	c.103G>A	c.(103-105)GGA>AGA	p.G35R	PARP4_uc010tdc.1_Missense_Mutation_p.G35R	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	35	BRCT.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		GAAAACTTTCCGCCATTTTCC	0.383													10	87					0	0	0.006214	0	0		T	25077812	T	T	25077812	3	4	11	1	0	0	0	0	1	0	0	0	11482	661	23	1	5203	1	PARP4	13	25077812	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3681436	25077812	90092066	737	9129											
FAM123A	219287	broad.mit.edu	37	chr13	25745590	25745590	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcttccccgacggcggctcGgcggccggcgtttcggcggc	2	7	16	16	9	1	0	0	0	1	0	4	1	2	0	3	7	0	2	3	7	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:25745590G>A	uc001uqb.2	-	1	268	c.168C>T	c.(166-168)GCC>GCT	p.A56A	FAM123A_uc001uqa.2_Silent_p.A56A|FAM123A_uc001uqc.2_Silent_p.A56A	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	56	Gly-rich.									ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		ACGGCGGCTCGGCGGCCGGCG	0.597													5	12					0	0	0.001168	0	0		A	25745590	A	A	25745590	2	1	11	1	0	0	0	0	0	0	0	1	5433	1103	39	1		1	FAM123A	13	25745590	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	667778	25745590	89424288	738	9130											
MTUS2	23281	broad.mit.edu	37	chr13	29598991	29598991	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctctcatgacgagtccaaGacatgtgacctgggagatga	11	9	11	10	1	1	5	1	3	1	2	4	7	3	5	3	1	0	0	3	1	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:29598991G>A	uc001usl.3	+	1	244	c.186G>A	c.(184-186)AAG>AAA	p.K62K		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	52						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						ACGAGTCCAAGACATGTGACC	0.418													8	59					0	0	0.00308	0	0		A	29598991	A	A	29598991	2	1	11	1	0	0	0	0	0	0	0	1	9984	933	33	4		4	MTUS2	13	29598991	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3853401	29598991	85570887	739	9131											
HSPH1	10808	broad.mit.edu	37	chr13	31719831	31719831	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaaatgccatgggtgtTgactcgcactttgactttta	9	14	11	7	1	0	3	0	3	0	0	1	3	0	3	1	2	1	2	1	2	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:31719831T>C	uc001utj.2	-	11	1851	c.1453A>G	c.(1453-1455)AAC>GAC	p.N485D	HSPH1_uc001utk.2_Missense_Mutation_p.N485D|HSPH1_uc010aaw.2_Missense_Mutation_p.N444D|HSPH1_uc001utl.2_Missense_Mutation_p.N487D|HSPH1_uc010tds.1_Missense_Mutation_p.N409D	NM_006644	NP_006635	Q92598	HS105_HUMAN	heat shock 105kD	485					positive regulation of MHC class I biosynthetic process|positive regulation of NK T cell activation|response to unfolded protein	cytoplasm|extracellular region	ATP binding				0		Lung SC(185;0.0257)		all cancers(112;0.00385)|Epithelial(112;0.0328)|OV - Ovarian serous cystadenocarcinoma(117;0.0375)|GBM - Glioblastoma multiforme(144;0.125)		CCATGGGTGTTGACTCGCACT	0.418													18	80					0	0	0.007413	0	0		C	31719831	C	C	31719831	3	2	11	1	0	0	0	0	1	0	0	0	7447	1812	63	3	1155	3	HSPH1	13	31719831	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2120840	31719831	83450047	740	9132											
PDS5B	23047	broad.mit.edu	37	chr13	33258137	33258137	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacttacttaattttgtgAgagagagaacattagacaaa	17	12	7	5	0	1	4	1	1	0	3	1	6	1	4	0	0	2	0	0	0	5	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:33258137A>T	uc010abf.2	+	11	1338	c.1180A>T	c.(1180-1182)AGA>TGA	p.R394*	PDS5B_uc001uuo.2_Nonsense_Mutation_p.R394*|PDS5B_uc010abg.2_RNA|PDS5B_uc010teb.1_Nonsense_Mutation_p.R96*	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	394	HEAT.			R -> G (in Ref. 2; AAD22134).	cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		TAATTTTGTGAGAGAGAGAAC	0.269													16	87					0	0	0.006122	0	0		T	33258137	T	T	33258137	4	4	11	1	0	0	0	0	0	1	0	0	11711	296	11	5	1218	5	PDS5B	13	33258137	Nonsense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1538306	33258137	81911741	741	9133											
PDS5B	23047	broad.mit.edu	37	chr13	33344698	33344698	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaggagagcacagcagaGgtaagcatgtgtaactctaa	15	7	12	7	0	2	2	1	0	1	2	2	3	2	2	0	2	4	5	0	2	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:33344698G>T	uc010abf.2	+	32	4222	c.4064G>T	c.(4063-4065)AGA>ATA	p.R1355I	PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1355					cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		GCACAGCAGAGGTAAGCATGT	0.428													6	79					8.12818e-05	8.81621e-05	0.001984	1	0		T	33344698	T	T	33344698	3	4	11	1	0	0	0	0	1	0	0	0	11711	1014	35	5	4186	5	PDS5B	13	33344698	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	86561	33344698	81825180	742	9134											
SPG20	23111	broad.mit.edu	37	chr13	36905589	36905589	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctcaaagagctctctatCatcctctggtaactcagagg	11	11	7	12	0	5	2	3	0	2	2	8	2	7	2	2	2	2	2	2	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:36905589C>A	uc001uvn.2	-	4	1225	c.955G>T	c.(955-957)GAT>TAT	p.D319Y	SPG20_uc010ten.1_Missense_Mutation_p.D319Y|SPG20_uc001uvm.2_Missense_Mutation_p.D319Y|SPG20_uc001uvo.2_Missense_Mutation_p.D319Y|SPG20_uc001uvq.2_Missense_Mutation_p.D319Y|SPG20_uc001uvp.2_Missense_Mutation_p.D319Y	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	319					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		AGCTCTCTATCATCCTCTGGT	0.448													27	103					1.5548e-18	1.83074e-18	0.005443	1	0		A	36905589	A	A	36905589	3	1	11	1	0	0	0	0	1	0	0	0	15067	826	29	5	1073	5	SPG20	13	36905589	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3560891	36905589	78264289	743	9135											
CCNA1	8900	broad.mit.edu	37	chr13	37012843	37012843	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcacggaaggcatgcgCacgattctggtggactggct	9	8	14	10	3	2	0	1	0	1	0	2	4	2	2	0	5	1	3	0	5	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:37012843C>T	uc001uvr.3	+	5	1082	c.732C>T	c.(730-732)CGC>CGT	p.R244R	CCNA1_uc010teo.1_Silent_p.R200R|CCNA1_uc010abq.2_Silent_p.R200R|CCNA1_uc010abp.2_Silent_p.R200R|CCNA1_uc001uvs.3_Silent_p.R243R|CCNA1_uc010abr.2_Intron	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	244					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		AAGGCATGCGCACGATTCTGG	0.473													9	36					0	0	0.010729	0	0		T	37012843	T	T	37012843	2	4	11	1	0	0	0	0	0	0	0	1	2912	697	25	2		2	CCNA1	13	37012843	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	107254	37012843	78157035	744	9136											
FAM48A	55578	broad.mit.edu	37	chr13	37618213	37618213	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaaagacaaaaattttgtAcctgagatttttctaggaga	15	15	7	4	0	1	3	0	1	1	3	1	5	1	3	1	1	1	1	1	1	6	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:37618213A>G	uc001uwg.2	-	7	644	c.396_splice	c.e7+1	p.Q132_splice	FAM48A_uc010abt.2_Splice_Site_p.Q133_splice|FAM48A_uc001uwh.2_Splice_Site_p.Q133_splice|FAM48A_uc001uwi.2_Splice_Site_p.Q132_splice|FAM48A_uc001uwj.2_Splice_Site_p.Q133_splice|FAM48A_uc001uwk.2_Splice_Site_p.Q132_splice|FAM48A_uc010tes.1_Splice_Site_p.Q120_splice|FAM48A_uc001uwl.1_Splice_Site_p.Q132_splice	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A						autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		AAAATTTTGTACCTGAGATTT	0.249													8	37					0	0	0.004482	0	0		G	37618213	G	G	37618213	5	3	11	1	0	0	0	0	0	0	1	0	5586	405	14	3	2021	3	FAM48A	13	37618213	Splice_Site	SNP	A	TCGA-BR-4256-01A-01D-1126-08	605370	37618213	77551665	745	9137											
POSTN	10631	broad.mit.edu	37	chr13	38158194	38158194	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaattgggccacaagatcCgtgaaggtggtttgctgttt	8	13	12	8	1	0	2	0	1	0	1	1	2	1	2	3	3	1	3	3	3	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:38158194C>T	uc001uwo.3	-	9	1273	c.1155G>A	c.(1153-1155)ACG>ACA	p.T385T	POSTN_uc001uwp.3_Silent_p.T385T|POSTN_uc001uwr.2_Silent_p.T385T|POSTN_uc001uwq.2_Silent_p.T385T|POSTN_uc010teu.1_Silent_p.T385T|POSTN_uc010tev.1_Silent_p.T385T|POSTN_uc010tew.1_Silent_p.T385T|POSTN_uc010tex.1_Silent_p.T300T	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	385	FAS1 3.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		CCACAAGATCCGTGAAGGTGG	0.438													5	43					0	0	0.001984	0	0		T	38158194	T	T	38158194	2	4	11	1	0	0	0	0	0	0	0	1	12278	639	23	1		1	POSTN	13	38158194	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	539981	38158194	77011684	746	9138											
FREM2	341640	broad.mit.edu	37	chr13	39263555	39263555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctacagcggtttgtgattCgtatccatcctgtggatcgc	6	13	12	10	3	0	1	0	1	0	0	4	2	2	2	2	3	2	3	2	3	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:39263555C>T	uc001uwv.2	+	1	2383	c.2074C>T	c.(2074-2076)CGT>TGT	p.R692C		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	692	CSPG 4.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GTTTGTGATTCGTATCCATCC	0.562													10	63					0	0	0.010729	0	0		T	39263555	T	T	39263555	3	4	11	1	0	0	0	0	1	0	0	0	6059	884	31	1	2076	1	FREM2	13	39263555	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1105361	39263555	75906323	747	9139											
WBP4	11193	broad.mit.edu	37	chr13	41650292	41650292	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatccaaatcatcagattcGcatagtgattctgatgggga	13	11	10	7	1	3	3	2	2	1	1	5	5	4	4	1	2	0	1	1	2	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:41650292G>A	uc001uxt.2	+	8	788	c.675G>A	c.(673-675)TCG>TCA	p.S225S	WBP4_uc010tfd.1_Silent_p.S204S	NM_007187	NP_009118	O75554	WBP4_HUMAN	WW domain-containing binding protein 4	225					nuclear mRNA cis splicing, via spliceosome	nuclear speck|spliceosomal complex	nucleic acid binding|proline-rich region binding|zinc ion binding			breast(2)|kidney(1)	3		Lung NSC(96;3.55e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;3.11e-09)|Epithelial(112;3.37e-06)|OV - Ovarian serous cystadenocarcinoma(117;8.3e-05)|GBM - Glioblastoma multiforme(144;0.00102)|BRCA - Breast invasive adenocarcinoma(63;0.07)		CATCAGATTCGCATAGTGATT	0.388													11	57					0	0	0.013537	0	0		A	41650292	A	A	41650292	2	1	11	1	0	0	0	0	0	0	0	1	17287	1074	38	1		1	WBP4	13	41650292	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2386737	41650292	73519586	748	9140											
KBTBD6	89890	broad.mit.edu	37	chr13	41705321	41705321	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactccagtaatagggtctcGcccccccaaaatgtagatat	13	9	7	12	1	1	1	0	0	1	1	3	1	2	1	4	1	1	2	4	1	7	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:41705321G>A	uc001uxu.1	-	1	1616	c.1327C>T	c.(1327-1329)CGA>TGA	p.R443*	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Nonsense_Mutation_p.R377*|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	443	Kelch 2.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		ATAGGGTCTCGCCCCCCCAAA	0.473													21	104					0	0	0.00333	0	0		A	41705321	A	A	41705321	4	1	11	1	0	0	0	0	0	1	0	0	8013	1095	38	1	701	1	KBTBD6	13	41705321	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	55029	41705321	73464557	749	9141											
KIAA0564	23078	broad.mit.edu	37	chr13	42303703	42303703	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaatgcgtcttccatctgcTagaatcatttctccattttc	9	16	4	12	1	4	1	1	0	3	1	7	1	5	1	2	0	2	1	2	0	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:42303703T>A	uc001uyj.2	-	23	2683	c.2613A>T	c.(2611-2613)CTA>CTT	p.L871L	KIAA0564_uc001uyk.2_Silent_p.L871L	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	871						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		TTCCATCTGCTAGAATCATTT	0.333													6	81					0	0	0.00308	0	0		A	42303703	A	A	42303703	2	1	11	1	0	0	0	0	0	0	0	1	8201	1509	53	5		5	KIAA0564	13	42303703	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	598382	42303703	72866175	750	9142											
DGKH	160851	broad.mit.edu	37	chr13	42793377	42793377	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaaatagcagctggaatcGccacatgaagagcgagtatc	14	7	12	8	2	0	2	0	1	0	1	2	4	0	3	1	2	3	4	1	2	6	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:42793377G>A	uc001uyl.1	+	27	3246	c.3225G>A	c.(3223-3225)TCG>TCA	p.S1075S	DGKH_uc010tfh.1_Silent_p.S1075S|DGKH_uc001uym.1_Silent_p.S1075S|DGKH_uc010tfi.1_Silent_p.S830S|DGKH_uc010tfj.1_Silent_p.S930S|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Silent_p.S930S|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	1075					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		AGCTGGAATCGCCACATGAAG	0.408													24	131					0	0	0.008361	0	0		A	42793377	A	A	42793377	2	1	11	1	0	0	0	0	0	0	0	1	4476	1074	38	1		1	DGKH	13	42793377	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	489674	42793377	72376501	751	9143											
PIBF1	10464	broad.mit.edu	37	chr13	73369613	73369613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgttcgtcgaaacctgcGtgactttgagttgacagaag	11	11	12	7	3	0	5	0	3	0	2	2	6	0	5	1	0	2	2	1	0	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:73369613G>A	uc001vjc.2	+	4	775	c.470G>A	c.(469-471)CGT>CAT	p.R157H	PIBF1_uc001vja.1_Missense_Mutation_p.R157H|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Missense_Mutation_p.R157H|PIBF1_uc010aep.2_Intron	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	157						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		CGAAACCTGCGTGACTTTGAG	0.338													16	98					0	0	0.006122	0	0		A	73369613	A	A	73369613	3	1	11	1	0	0	0	0	1	0	0	0	11898	1145	40	1	480	1	PIBF1	13	73369613	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	30576236	73369613	41800265	752	9144											
GPC5	2262	broad.mit.edu	37	chr13	92345711	92345711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcatccggatggctcgccGggatgtgagtccatttggta	7	11	14	9	3	0	1	0	1	0	0	3	3	2	3	3	4	1	3	3	4	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:92345711G>A	uc010tif.1	+	3	962	c.596G>A	c.(595-597)CGG>CAG	p.R199Q		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	199						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				ATGGCTCGCCGGGATGTGAGT	0.512													9	51					0	0	0.008291	0	0		A	92345711	A	A	92345711	3	1	11	1	0	0	0	0	1	0	0	0	6616	1116	39	1	606	1	GPC5	13	92345711	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	18976098	92345711	22824167	753	9145											
IPO5	3843	broad.mit.edu	37	chr13	98642694	98642694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgattttagatcaggaCgttatctgctagagctacag	10	14	9	8	1	3	3	1	1	2	2	3	4	3	4	0	1	3	3	0	1	4	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:98642694C>T	uc001vnf.1	+	6	637	c.572C>T	c.(571-573)ACG>ATG	p.T191M	IPO5_uc001vne.2_Missense_Mutation_p.T209M|IPO5_uc010tik.1_Intron|IPO5_uc010til.1_Missense_Mutation_p.T131M	NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	191					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						TAGATCAGGACGTTATCTGCT	0.343													6	59					0	0	0.001984	0	0		T	98642694	T	T	98642694	3	4	11	1	0	0	0	0	1	0	0	0	7812	536	19	1	652	1	IPO5	13	98642694	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	6296983	98642694	16527184	754	9146											
TPP2	7174	broad.mit.edu	37	chr13	103281921	103281921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatggtccatgcctgtctaCagttggttgtccaggtggaa	8	13	12	8	0	1	0	0	0	1	0	3	1	3	1	3	4	2	2	3	4	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:103281921C>T	uc001vpi.3	+	9	1209	c.1106C>T	c.(1105-1107)ACA>ATA	p.T369I		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	369					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TGCCTGTCTACAGTTGGTTGT	0.328													9	36					0	0	0.006214	0	0		T	103281921	T	T	103281921	3	4	11	1	0	0	0	0	1	0	0	0	16438	478	17	4	1140	4	TPP2	13	103281921	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4639227	103281921	11887957	755	9147											
DAOA	267012	broad.mit.edu	37	chr13	106142341	106142341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctctaaggaccgcaggcagCctctagaacgaatgtggacc	11	6	11	13	2	2	1	0	0	2	1	2	4	2	3	4	3	2	2	4	3	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:106142341C>T	uc001vqb.2	+	4	647	c.373C>T	c.(373-375)CCT>TCT	p.P125S	DAOA_uc010tjf.1_Missense_Mutation_p.P54S|DAOA_uc001vpz.2_RNA|DAOA_uc010agd.2_RNA|DAOA_uc010tjg.1_Missense_Mutation_p.P97S|DAOA_uc001vqc.2_RNA|DAOA_uc001vqe.2_RNA	NM_172370	NP_758958	P59103	DAOA_HUMAN	D-amino acid oxidase activator isoform 1	125						Golgi apparatus					0	Lung NSC(43;0.01)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					ccgcaggcagcctctagaacg	0													5	6					0	0	0.000602	0	0		T	106142341	T	T	106142341	3	4	11	1	0	0	0	0	1	0	0	0	4235	739	26	2	496	2	DAOA	13	106142341	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2860420	106142341	9027537	756	9148											
ATP11A	23250	broad.mit.edu	37	chr13	113478731	113478731	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctcagaagcgatctgcCgtggaaaagtaaggctggat	14	8	12	7	2	2	1	1	0	2	1	3	4	2	3	1	3	2	2	1	3	5	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:113478731C>T	uc001vsi.3	+	10	952	c.864C>T	c.(862-864)GCC>GCT	p.A288A	ATP11A_uc001vsj.3_Silent_p.A288A|ATP11A_uc001vsm.1_Silent_p.A164A	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	288	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				AGCGATCTGCCGTGGAAAAGT	0.448													15	60					0	0	0.004007	0	0		T	113478731	T	T	113478731	2	4	11	1	0	0	0	0	0	0	0	1	1120	639	23	1		1	ATP11A	13	113478731	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	7336390	113478731	1691147	757	9149											
TFDP1	7027	broad.mit.edu	37	chr13	114265347	114265347	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaacggagaactcaaggtcTtcatagaccagaaccttagt	14	8	8	11	1	3	3	2	0	1	3	3	4	3	3	3	2	3	0	3	2	6	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr13:114265347T>A	uc001vtw.2	+	3	261	c.49T>A	c.(49-51)TTC>ATC	p.F17I	TFDP1_uc010tkd.1_5'UTR|TFDP1_uc010tke.1_5'UTR|TFDP1_uc001vty.3_Missense_Mutation_p.F17I|TFDP1_uc010agx.2_Missense_Mutation_p.F17I	NM_007111	NP_009042	Q14186	TFDP1_HUMAN	transcription factor Dp-1	17					cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|regulation of transcription from RNA polymerase II promoter	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			lung(4)|ovary(2)|skin(1)	7	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.132)|all_epithelial(44;0.0731)|all_lung(25;0.149)|Breast(118;0.153)	all cancers(43;0.0576)			ACTCAAGGTCTTCATAGACCA	0.448										TSP Lung(29;0.18)			25	151					0	0	0.005443	0	0		A	114265347	A	A	114265347	3	1	11	1	0	0	0	0	1	0	0	0	15822	1609	56	5	55	5	TFDP1	13	114265347	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	786616	114265347	904531	758	9150											
OR4Q3	441669	broad.mit.edu	37	chr14	20216515	20216515	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gataaaaccatgtggcattcCattgccttgttaaggaatga	13	12	9	7	0	0	1	0	1	0	0	1	3	1	2	3	2	2	2	3	2	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:20216515C>G	uc010tkt.1	+	1	929	c.929C>G	c.(928-930)CCA>CGA	p.P310R		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGTGGCATTCCATTGCCTTGT	0.393													11	85					0	0	0.013537	0	0		G	20216515	G	G	20216515	3	3	11	1	0	0	0	0	1	0	0	0	11100	594	21	5	931	5	OR4Q3	14	20216515	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08		20216515	87133025	759	9151											
TEP1	7011	broad.mit.edu	37	chr14	20871938	20871938	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggtgcttccgagggttgtActtagccagctggtactcgt	5	12	13	11	3	0	0	0	0	0	0	2	1	1	0	3	3	5	5	3	3	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:20871938A>G	uc001vxe.2	-	6	1178	c.1138T>C	c.(1138-1140)TAC>CAC	p.Y380H	TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Intron	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	380	TROVE.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		CGAGGGTTGTACTTAGCCAGC	0.622													4	30					0	0	0.001168	0	0		G	20871938	G	G	20871938	3	3	11	1	0	0	0	0	1	0	0	0	15784	391	14	3	6945	3	TEP1	14	20871938	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	655423	20871938	86477602	760	9152											
AP1G2	8906	broad.mit.edu	37	chr14	24033782	24033782	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgatacccgtaggccagCtgcagagcggatatccatga	10	7	14	10	2	0	3	0	2	0	1	1	4	1	4	3	3	4	3	3	3	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:24033782C>T	uc001wkl.2	-	9	1247	c.910G>A	c.(910-912)GCT>ACT	p.A304T	AP1G2_uc001wkj.2_5'UTR|AP1G2_uc001wkk.3_Missense_Mutation_p.A232T|AP1G2_uc001wkn.2_5'UTR|uc001wko.1_Intron|AP1G2_uc001wkp.1_RNA|AP1G2_uc010tnp.1_Missense_Mutation_p.A304T	NM_003917	NP_003908	O75843	AP1G2_HUMAN	adaptor-related protein complex 1, gamma 2	304					interspecies interaction between organisms|intracellular protein transport|vesicle-mediated transport	AP-1 adaptor complex|endosome membrane	protein binding|protein transporter activity			ovary(1)	1	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)		CGTAGGCCAGCTGCAGAGCGG	0.592													6	40					0	0	0.001168	0	0		T	24033782	T	T	24033782	3	4	11	1	0	0	0	0	1	0	0	0	733	797	28	2	1503	2	AP1G2	14	24033782	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3161844	24033782	83315758	761	9153											
TM9SF1	10548	broad.mit.edu	37	chr14	24664214	24664214	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccaacttcgagggttcccTacgactgtcatccttaaggc	8	11	8	14	2	1	0	1	0	0	0	5	2	4	0	3	2	2	1	3	2	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:24664214T>C	uc001wnb.1	-	2	360	c.12A>G	c.(10-12)GTA>GTG	p.V4V	TM9SF1_uc010toa.1_Intron|TM9SF1_uc001wna.1_RNA|TM9SF1_uc010tob.1_Silent_p.V239V|TM9SF1_uc001wnc.2_Silent_p.V4V|TM9SF1_uc001wnd.2_5'Flank	NM_006405	NP_006396	O15321	TM9S1_HUMAN	transmembrane 9 superfamily member 1 isoform a	4					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0183)		GAGGGTTCCCTACGACTGTCA	0.557													6	57					0	0	0.001168	0	0		C	24664214	C	C	24664214	2	2	11	1	0	0	0	0	0	0	0	1	16002	1509	53	3		3	TM9SF1	14	24664214	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	630432	24664214	82685326	762	9154											
NOVA1	4857	broad.mit.edu	37	chr14	27064621	27064621	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccattgcacctacctgggTaaaaatctttggacttagac	12	11	7	11	0	1	1	0	0	1	1	1	2	1	2	3	2	2	2	3	2	5	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:27064621T>C	uc001wpy.2	-	2	593	c.275A>G	c.(274-276)TAC>TGC	p.Y92C	NOVA1_uc001wpz.2_Missense_Mutation_p.Y92C|NOVA1_uc001wqa.2_5'UTR|NOVA1_uc001wqb.2_Missense_Mutation_p.Y92C	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	95	KH 1.				locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		CCTACCTGGGTAAAAATCTTT	0.408													23	108					0	0	0.004656	0	0		C	27064621	C	C	27064621	3	2	11	1	0	0	0	0	1	0	0	0	10573	1638	57	3	1295	3	NOVA1	14	27064621	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2400407	27064621	80284919	763	9155											
ARHGAP5	394	broad.mit.edu	37	chr14	32561281	32561281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaaatatatcactgaggCtgatagcaaagaggtatatg	16	10	9	6	0	1	3	1	2	0	1	1	3	1	3	0	2	2	3	0	2	8	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:32561281C>T	uc001wrl.2	+	2	1645	c.1406C>T	c.(1405-1407)GCT>GTT	p.A469V	ARHGAP5_uc001wrm.2_Missense_Mutation_p.A469V|ARHGAP5_uc001wrn.2_Missense_Mutation_p.A469V|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	469	FF 3.				cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		ATCACTGAGGCTGATAGCAAA	0.373													23	123					0	0	0.00278	0	0		T	32561281	T	T	32561281	3	4	11	1	0	0	0	0	1	0	0	0	886	797	28	2	1408	2	ARHGAP5	14	32561281	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5496660	32561281	74788259	764	9156											
ARHGAP5	394	broad.mit.edu	37	chr14	32623920	32623920	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacctgattttgaaaatcgAgagtttctgtctactactaa	13	14	7	7	1	2	4	0	2	2	2	3	5	2	4	1	0	2	1	1	0	5	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:32623920A>G	uc001wrl.2	+	7	4514	c.4275A>G	c.(4273-4275)CGA>CGG	p.R1425R	ARHGAP5_uc001wrm.2_Silent_p.R1424R|ARHGAP5_uc001wrn.2_Silent_p.R1425R|ARHGAP5_uc001wro.2_Silent_p.R164R|ARHGAP5_uc001wrp.2_Silent_p.R160R	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	1425	Rho-GAP.				cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		TTGAAAATCGAGAGTTTCTGT	0.353													13	56					0	0	0.00245	0	0		G	32623920	G	G	32623920	2	3	11	1	0	0	0	0	0	0	0	1	886	291	11	3		3	ARHGAP5	14	32623920	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	62639	32623920	74725620	765	9157											
PAX9	5083	broad.mit.edu	37	chr14	37145642	37145642	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtagtcattctgtcacGgcttccgcgctctgatggga	7	11	13	10	3	4	1	2	1	2	0	5	3	5	2	1	3	0	3	1	3	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:37145642G>A	uc001wty.3	+	5	1728	c.1011G>A	c.(1009-1011)ACG>ACA	p.T337T	PAX9_uc010amq.2_RNA	NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	337					multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		ATTCTGTCACGGCTTCCGCGC	0.592													7	31					0	0	0.004482	0	0		A	37145642	A	A	37145642	2	1	11	1	0	0	0	0	0	0	0	1	11505	1103	39	1		1	PAX9	14	37145642	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4521722	37145642	70203898	766	9158											
PNN	5411	broad.mit.edu	37	chr14	39650999	39650999	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtctatatcagagagtagtCgatcaggcaaaagatcttca	14	10	10	7	1	5	2	3	0	2	2	6	4	5	2	0	2	0	2	0	2	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:39650999C>T	uc001wuw.3	+	9	2183	c.2086C>T	c.(2086-2088)CGA>TGA	p.R696*		NM_002687	NP_002678	Q9H307	PININ_HUMAN	pinin, desmosome associated protein	696	Ser-rich.|Arg-rich.|Necessary for interaction with PPIG.				cell adhesion|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|desmosome|intermediate filament|nuclear speck	DNA binding|protein binding|structural molecule activity			ovary(1)	1	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0119)		AGAGAGTAGTCGATCAGGCAA	0.403													28	172					0	0	0.007291	0	0		T	39650999	T	T	39650999	4	4	11	1	0	0	0	0	0	1	0	0	12179	876	31	1	2120	1	PNN	14	39650999	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2505357	39650999	67698541	767	9159											
FAM179B	23116	broad.mit.edu	37	chr14	45432443	45432443	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagacagaagaagaatcTgagacagctttctccgcact	14	7	10	10	1	2	5	0	1	2	5	3	7	2	5	1	1	1	2	1	1	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:45432443T>G	uc001wvv.2	+	1	1028	c.819T>G	c.(817-819)TCT>TCG	p.S273S	FAM179B_uc001wvw.2_Silent_p.S273S|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvq.2_5'Flank|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Silent_p.S273S|FAM179B_uc001wvu.2_Silent_p.S273S	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	273							binding			skin(2)|upper_aerodigestive_tract(1)	3						AAGAAGAATCTGAGACAGCTT	0.488													31	110					0	0	0.012213	0	0		G	45432443	G	G	45432443	2	3	11	1	0	0	0	0	0	0	0	1	5517	1567	55	5		5	FAM179B	14	45432443	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	5781444	45432443	61917097	768	9160											
FKBP3	2287	broad.mit.edu	37	chr14	45599948	45599948	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtaaccaagtggtccttgTtagctgtcttggccacattt	7	15	9	10	0	1	0	0	0	1	0	2	0	2	0	3	2	2	3	3	2	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:45599948T>G	uc010tqf.1	-	2	237	c.164A>C	c.(163-165)AAC>ACC	p.N55T		NM_002013	NP_002004	Q00688	FKBP3_HUMAN	FK506 binding protein 3, 25kDa	55					protein folding	membrane|nucleus	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|receptor activity				0						GTGGTCCTTGTTAGCTGTCTT	0.338													4	33					0	0	0.009096	0	0		G	45599948	G	G	45599948	3	3	11	1	0	0	0	0	1	0	0	0	5923	1725	60	5	534	5	FKBP3	14	45599948	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	167505	45599948	61749592	769	9161											
NID2	22795	broad.mit.edu	37	chr14	52520915	52520915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagcatggctgaaggaacGtcccaggggaacagaagagt	13	6	15	7	1	0	3	0	1	0	2	1	5	1	5	1	4	3	3	1	4	5	1	rs147980330		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:52520915G>A	uc001wzo.2	-	4	1126	c.892C>T	c.(892-894)CGT>TGT	p.R298C	NID2_uc010tqs.1_Missense_Mutation_p.R298C|NID2_uc010tqt.1_Missense_Mutation_p.R298C|NID2_uc001wzp.2_Missense_Mutation_p.R298C	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	298						basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CTGAAGGAACGTCCCAGGGGA	0.517													9	39					0	0	0.006214	0	0		A	52520915	A	A	52520915	3	1	11	1	0	0	0	0	1	0	0	0	10434	1145	40	1	3311	1	NID2	14	52520915	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	6920967	52520915	54828625	770	9162											
PELI2	57161	broad.mit.edu	37	chr14	56757145	56757145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtgtacaccttgcgagaaAccaggtcggcccagcaacga	12	6	11	12	3	0	1	0	0	0	1	1	3	0	1	3	2	5	2	3	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:56757145A>G	uc001xch.2	+	5	953	c.667A>G	c.(667-669)ACC>GCC	p.T223A		NM_021255	NP_067078	Q9HAT8	PELI2_HUMAN	pellino 2	223					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1						CTTGCGAGAAACCAGGTCGGC	0.562													12	82					0	0	0.013537	0	0		G	56757145	G	G	56757145	3	3	11	1	0	0	0	0	1	0	0	0	11741	43	2	3	685	3	PELI2	14	56757145	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	4236230	56757145	50592395	771	9163											
GPR135	64582	broad.mit.edu	37	chr14	59930803	59930803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtagatgacagggttgatgGccccattggcccaggtcagc	8	8	14	11	1	1	3	1	2	0	1	1	3	1	3	3	4	1	2	3	4	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:59930803G>A	uc010apj.2	-	1	1257	c.1142C>T	c.(1141-1143)GCC>GTC	p.A381V	GPR135_uc001xed.2_RNA	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	381	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		AGGGTTGATGGCCCCATTGGC	0.652													4	17					0	0	0.009096	0	0		A	59930803	A	A	59930803	3	1	11	1	0	0	0	0	1	0	0	0	6659	1203	42	2	346	2	GPR135	14	59930803	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3173658	59930803	47418737	772	9164											
RTN1	6252	broad.mit.edu	37	chr14	60074086	60074086	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggtggctgagagtgcGgccagggccaggtaggccac	7	6	18	10	1	0	2	0	2	0	1	0	3	0	2	3	6	1	2	3	6	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:60074086G>A	uc001xen.1	-	4	2099	c.1890C>T	c.(1888-1890)GCC>GCT	p.A630A	RTN1_uc001xem.1_Silent_p.A210A|RTN1_uc001xek.1_Silent_p.A62A|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Silent_p.A47A	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	630	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		CTGAGAGTGCGGCCAGGGCCA	0.562													5	23					0	0	0.000602	0	0		A	60074086	A	A	60074086	2	1	11	1	0	0	0	0	0	0	0	1	13750	1103	39	1		1	RTN1	14	60074086	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	143283	60074086	47275454	773	9165											
SIX6	4990	broad.mit.edu	37	chr14	60976498	60976498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccgcgcaccatttgggacGgcgaacagaagacacactgc	11	5	12	13	4	0	2	0	0	0	2	0	4	0	3	2	2	3	1	2	2	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:60976498G>A	uc001xfa.3	+	1	561	c.382G>A	c.(382-384)GGC>AGC	p.G128S		NM_007374	NP_031400	O95475	SIX6_HUMAN	SIX homeobox 6	128	Homeobox.				organ morphogenesis|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.088)		CATTTGGGACGGCGAACAGAA	0.582													4	21					0	0	0.001984	0	0		A	60976498	A	A	60976498	3	1	11	1	0	0	0	0	1	0	0	0	14376	1116	39	1	384	1	SIX6	14	60976498	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	902412	60976498	46373042	774	9166											
KCNH5	27133	broad.mit.edu	37	chr14	63417018	63417018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccagcactggtattgtagCgatatggagtcccaatgctc	9	11	10	11	1	0	0	0	0	0	0	3	2	2	1	2	2	3	4	2	2	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:63417018C>T	uc001xfx.2	-	7	1253	c.1202G>A	c.(1201-1203)CGC>CAC	p.R401H	KCNH5_uc001xfy.2_Missense_Mutation_p.R401H|KCNH5_uc001xfz.1_Missense_Mutation_p.R343H|KCNH5_uc001xga.2_Missense_Mutation_p.R343H	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	401	Extracellular (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		GGTATTGTAGCGATATGGAGT	0.468													13	83					0	0	0.003163	0	0		T	63417018	T	T	63417018	3	4	11	1	0	0	0	0	1	0	0	0	8051	768	27	1	1818	1	KCNH5	14	63417018	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2440520	63417018	43932522	775	9167											
SYNE2	23224	broad.mit.edu	37	chr14	64518919	64518919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctcccagatgacattctttCacagatcagaaagtgcaaag	14	10	7	10	0	4	4	2	1	2	3	5	4	4	4	1	0	1	1	1	0	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:64518919C>T	uc001xgm.2	+	48	8518	c.8288C>T	c.(8287-8289)TCA>TTA	p.S2763L	SYNE2_uc001xgl.2_Missense_Mutation_p.S2763L	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2763	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GACATTCTTTCACAGATCAGA	0.438													17	160					0	0	0.012319	0	0		T	64518919	T	T	64518919	3	4	11	1	0	0	0	0	1	0	0	0	15471	838	29	4	8474	4	SYNE2	14	64518919	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1101901	64518919	42830621	776	9168											
PLEKHG3	26030	broad.mit.edu	37	chr14	65208660	65208660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctcagatgctgagttcCgcccatcttcagaaattgtg	9	12	8	12	1	3	3	2	1	2	2	5	3	4	3	3	0	1	2	3	0	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:65208660C>T	uc001xho.1	+	16	2694	c.2425C>T	c.(2425-2427)CGC>TGC	p.R809C	PLEKHG3_uc001xhn.1_Missense_Mutation_p.R753C|PLEKHG3_uc001xhp.2_Missense_Mutation_p.R930C|PLEKHG3_uc010aqh.1_Missense_Mutation_p.R351C|PLEKHG3_uc001xhq.1_Missense_Mutation_p.R314C	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	809					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		TGCTGAGTTCCGCCCATCTTC	0.617													10	74					0	0	0.008291	0	0		T	65208660	T	T	65208660	3	4	11	1	0	0	0	0	1	0	0	0	12089	652	23	1	2307	1	PLEKHG3	14	65208660	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	689741	65208660	42140880	777	9169											
TMEM90A	646658	broad.mit.edu	37	chr14	74874351	74874351	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagggcccggcgggaggTggtgctggccaggcggaagt	7	4	22	8	3	0	1	0	0	0	1	0	4	0	3	2	8	1	1	2	8	2	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:74874351T>C	uc001xpx.2	-	4	852	c.604A>G	c.(604-606)ACC>GCC	p.T202A		NM_001105579	NP_001099049	A6NDD5	SYN1L_HUMAN	transmembrane protein 90A	202					response to biotic stimulus	Golgi apparatus|integral to membrane					0				BRCA - Breast invasive adenocarcinoma(234;0.00159)		CGGCGGGAGGTGGTGCTGGCC	0.632													5	29					0	0	0.001984	0	0		C	74874351	C	C	74874351	3	2	11	1	0	0	0	0	1	0	0	0	16243	1696	59	3	116	3	TMEM90A	14	74874351	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	9665691	74874351	32475189	778	9170											
C14orf145	145508	broad.mit.edu	37	chr14	81251580	81251580	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagtttagctttgtcctgggCctggctcttcttgagctctg	4	16	11	10	0	3	1	0	1	3	0	4	1	4	1	2	2	2	4	2	2	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:81251580C>T	uc001xux.2	-	14	2041	c.1870G>A	c.(1870-1872)GCC>ACC	p.A624T	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	624	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TTGTCCTGGGCCTGGCTCTTC	0.463													13	96					0	0	0.00245	0	0		T	81251580	T	T	81251580	3	4	11	1	0	0	0	0	1	0	0	0	1752	739	26	2	1458	2	C14orf145	14	81251580	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	6377229	81251580	26097960	779	9171											
ZC3H14	79882	broad.mit.edu	37	chr14	89073629	89073629	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcacagaaaccagaaaaacTtttggagcgctgcaagtact	15	7	10	9	1	0	2	0	0	0	2	0	3	0	3	1	2	5	4	1	2	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:89073629T>A	uc001xww.2	+	13	2015	c.1790T>A	c.(1789-1791)CTT>CAT	p.L597H	ZC3H14_uc010twd.1_Missense_Mutation_p.L597H|ZC3H14_uc010twe.1_Missense_Mutation_p.L592H|ZC3H14_uc001xwx.2_Missense_Mutation_p.L441H|ZC3H14_uc010twf.1_Missense_Mutation_p.L311H|ZC3H14_uc001xwy.2_Missense_Mutation_p.L432H|ZC3H14_uc010twg.1_Missense_Mutation_p.L286H|ZC3H14_uc001xxa.2_Missense_Mutation_p.L142H|ZC3H14_uc001xxc.2_Missense_Mutation_p.L141H|ZC3H14_uc001xxb.2_Missense_Mutation_p.L168H	NM_024824	NP_079100	Q6PJT7	ZC3HE_HUMAN	zinc finger CCCH-type containing 14 isoform 1	597	C3H1-type 1.					cytoplasm|cytoplasm|nuclear speck	protein binding|RNA binding|zinc ion binding			ovary(2)|skin(1)	3						CCAGAAAAACTTTTGGAGCGC	0.453													11	73					0	0	0.001855	0	0		A	89073629	A	A	89073629	3	1	11	1	0	0	0	0	1	0	0	0	17591	1609	56	5	2229	5	ZC3H14	14	89073629	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	7822049	89073629	18275911	780	9172											
CCDC88C	440193	broad.mit.edu	37	chr14	91773527	91773527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagagttctgcaagtgctgcCcctctccctggttctgcctg	5	12	10	14	0	3	1	0	0	3	1	4	1	3	1	4	1	4	4	4	1	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:91773527C>T	uc010aty.2	-	18	3149	c.3050G>A	c.(3049-3051)GGG>GAG	p.G1017E		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	1017	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				CAAGTGCTGCCCCTCTCCCTG	0.607													9	42					0	0	0.008291	0	0		T	91773527	T	T	91773527	3	4	11	1	0	0	0	0	1	0	0	0	2868	623	22	4	3088	4	CCDC88C	14	91773527	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2699898	91773527	15576013	781	9173											
SERPINA9	327657	broad.mit.edu	37	chr14	94936051	94936051	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgttgagggaatacacctGtgaggcaggggtgctctttg	7	11	17	6	0	1	2	0	2	1	0	1	3	1	3	1	5	2	3	1	5	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:94936051G>A	uc001ydf.2	-	2	342	c.181C>T	c.(181-183)CAG>TAG	p.Q61*	SERPINA9_uc001yde.2_Nonsense_Mutation_p.Q61*|SERPINA9_uc010avc.2_Intron|SERPINA9_uc001ydg.2_Intron|SERPINA9_uc001ydh.1_Nonsense_Mutation_p.Q61*|SERPINA9_uc001ydi.1_Intron	NM_175739	NP_783866	Q86WD7	SPA9_HUMAN	serine (or cysteine) proteinase inhibitor, clade	43					regulation of proteolysis	cytoplasm|extracellular region|membrane	serine-type endopeptidase inhibitor activity			lung(1)|central_nervous_system(1)	2		all_cancers(154;0.0691)|all_epithelial(191;0.233)		Epithelial(152;0.144)|COAD - Colon adenocarcinoma(157;0.224)|all cancers(159;0.24)		GAATACACCTGTGAGGCAGGG	0.577													7	34					0	0	0.004482	0	0		A	94936051	A	A	94936051	4	1	11	1	0	0	0	0	0	1	0	0	14120	1386	48	4	1142	4	SERPINA9	14	94936051	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3162524	94936051	12413489	782	9174											
SERPINA12	145264	broad.mit.edu	37	chr14	94964289	94964289	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttggcatcttccaaaaacTtacgctgtggctgcagcctc	8	12	8	13	1	2	0	0	0	2	0	4	0	3	0	2	2	4	4	2	2	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:94964289T>G	uc001ydj.2	-	3	1242	c.446A>C	c.(445-447)AAG>ACG	p.K149T		NM_173850	NP_776249	Q8IW75	SPA12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	149					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			central_nervous_system(2)|ovary(1)|lung(1)	4				COAD - Colon adenocarcinoma(157;0.235)		TTCCAAAAACTTACGCTGTGG	0.458													7	50					0	0	0.001855	0	0		G	94964289	G	G	94964289	3	3	11	1	0	0	0	0	1	0	0	0	14114	1609	56	5	814	5	SERPINA12	14	94964289	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	28238	94964289	12385251	783	9175											
SERPINA3	12	broad.mit.edu	37	chr14	95090098	95090098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgatgatcattgtccctacaGacacccagaacatcttcttc	11	12	5	13	0	3	4	1	2	2	2	5	4	4	4	2	0	2	0	2	0	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:95090098G>A	uc001ydp.2	+	5	1298	c.1219G>A	c.(1219-1221)GAC>AAC	p.D407N	SERPINA3_uc001ydo.3_Missense_Mutation_p.D432N|SERPINA3_uc001ydr.2_RNA|SERPINA3_uc001ydq.2_Missense_Mutation_p.D407N|SERPINA3_uc001yds.2_Missense_Mutation_p.D407N|SERPINA3_uc010avg.2_Missense_Mutation_p.D407N	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3	407					acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity	p.D407N(1)		ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		TGTCCCTACAGACACCCAGAA	0.493													26	132					0	0	0.00632	0	0		A	95090098	A	A	95090098	3	1	11	1	0	0	0	0	1	0	0	0	14115	942	33	4	1233	4	SERPINA3	14	95090098	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	125809	95090098	12259442	784	9176											
DICER1	23405	broad.mit.edu	37	chr14	95569719	95569719	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgaaaggcggccctcatgCgcatcagggtaagtgcaaaa	13	7	12	9	2	2	1	2	1	0	0	2	1	2	1	1	3	2	3	1	3	5	2	rs143454689		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:95569719C>T	uc001ydw.2	-	22	4196	c.4014G>A	c.(4012-4014)GCG>GCA	p.A1338A	DICER1_uc010avh.1_Silent_p.A236A|DICER1_uc001ydv.2_Silent_p.A1328A|DICER1_uc001ydx.2_Silent_p.A1338A|DICER1_uc001ydy.1_Silent_p.A190A	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1338	RNase III 1.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		GGCCCTCATGCGCATCAGGGT	0.413			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				14	78					0	0	0.003163	0	0		T	95569719	T	T	95569719	2	4	11	1	0	0	0	0	0	0	0	1	4527	755	27	1		1	DICER1	14	95569719	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	479621	95569719	11779821	785	9177											
AHNAK2	113146	broad.mit.edu	37	chr14	105412736	105412736	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtggtcttcaggtccccctGcatggaggggaggctcactt	6	10	14	11	0	3	0	2	0	1	0	4	2	4	2	2	6	1	2	2	6	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:105412736G>A	uc010axc.1	-	7	9172	c.9052C>T	c.(9052-9054)CAG>TAG	p.Q3018*	AHNAK2_uc001ypx.2_Nonsense_Mutation_p.Q2918*	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3018						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			AGGTCCCCCTGCATGGAGGGG	0.642													37	214					0	0	0.006999	0	0		A	105412736	A	A	105412736	4	1	11	1	0	0	0	0	0	1	0	0	415	1328	46	2	8339	2	AHNAK2	14	105412736	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	9843017	105412736	1936804	786	9178											
BRF1	2972	broad.mit.edu	37	chr14	105677548	105677548	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcctcctcgtcggcgtggTatgacacgggcccgctctcc	4	8	12	17	5	1	1	0	1	1	0	5	1	2	1	4	3	1	2	4	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr14:105677548T>C	uc001yqp.2	-	17	2270	c.1907A>G	c.(1906-1908)TAC>TGC	p.Y636C	BRF1_uc010tyo.1_Missense_Mutation_p.Y521C|BRF1_uc010typ.1_Missense_Mutation_p.Y543C|BRF1_uc001yqk.2_Missense_Mutation_p.Y162C|BRF1_uc001yql.2_Missense_Mutation_p.Y432C|BRF1_uc001yqo.2_Missense_Mutation_p.Y398C|BRF1_uc010axg.1_Missense_Mutation_p.Y609C|BRF1_uc001yqn.2_Intron|BRF1_uc010axh.1_Intron|BRF1_uc010axi.1_3'UTR	NM_001519	NP_001510	Q92994	TF3B_HUMAN	transcription initiation factor IIIB isoform 1	636					positive regulation of transcription, DNA-dependent|rRNA transcription|transcription initiation from RNA polymerase III promoter|tRNA transcription	transcription factor TFIIIB complex	translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		all_cancers(154;0.0231)|all_epithelial(191;0.0694)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00753)|all cancers(16;0.00925)|Epithelial(46;0.0221)	Epithelial(152;0.14)		GTCGGCGTGGTATGACACGGG	0.687													7	23					0	0	0.001984	0	0		C	105677548	C	C	105677548	3	2	11	1	0	0	0	0	1	0	0	0	1513	1638	57	3	134	3	BRF1	14	105677548	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	264812	105677548	1671992	787	9179											
GABRG3	2567	broad.mit.edu	37	chr15	27772702	27772702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctgtttgtcttcgccgCgctgatggagtatgccaccc	4	13	10	14	3	1	1	0	1	1	0	3	2	2	2	4	1	1	3	4	1	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:27772702C>T	uc001zbg.1	+	8	1155	c.989C>T	c.(988-990)GCG>GTG	p.A330V		NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	330	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		GTCTTCGCCGCGCTGATGGAG	0.547													4	27					0	0	0.001168	0	0		T	27772702	T	T	27772702	3	4	11	1	0	0	0	0	1	0	0	0	6187	768	27	1	1019	1	GABRG3	15	27772702	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08		27772702	74758690	788	9180											
HERC2	8924	broad.mit.edu	37	chr15	28422236	28422236	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatatcccggatacgcttggTtttcagggcctcgatcagcc	7	11	11	12	3	2	0	2	0	0	0	4	3	3	1	3	3	2	2	3	3	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:28422236T>C	uc001zbj.2	-	61	9398	c.9292A>G	c.(9292-9294)ACC>GCC	p.T3098A		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3098	RCC1 8.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ATACGCTTGGTTTTCAGGGCC	0.542													9	56					0	0	0.006214	0	0		C	28422236	C	C	28422236	3	2	11	1	0	0	0	0	1	0	0	0	7074	1725	60	3	5344	3	HERC2	15	28422236	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	649534	28422236	74109156	789	9181											
RYR3	6263	broad.mit.edu	37	chr15	34130674	34130674	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagcaaccctgaagaacCtcaggaagcagtacaggaac	17	3	11	10	0	1	3	1	1	0	2	1	6	1	5	2	2	6	3	2	2	6	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:34130674C>A	uc001zhi.2	+	89	12563	c.12493C>A	c.(12493-12495)CTC>ATC	p.L4165I	RYR3_uc010bar.2_Missense_Mutation_p.L4160I	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4165					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CCTGAAGAACCTCAGGAAGCA	0.517													15	61					6.31663e-08	7.17898e-08	0.003163	1	0		A	34130674	A	A	34130674	3	1	11	1	0	0	0	0	1	0	0	0	13795	681	24	5	12847	5	RYR3	15	34130674	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5708438	34130674	68400718	790	9182											
PGBD4	161779	broad.mit.edu	37	chr15	34396075	34396075	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatctgagcgcaaaagacAcaaggtttggtataagaaat	16	9	9	7	1	1	3	0	1	1	2	2	3	2	3	1	2	1	3	1	2	6	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:34396075A>G	uc001zho.2	+	1	1802	c.1343A>G	c.(1342-1344)CAC>CGC	p.H448R	C15orf24_uc001zhm.2_5'Flank|C15orf24_uc001zhn.2_5'Flank	NM_152595	NP_689808	Q96DM1	PGBD4_HUMAN	piggyBac transposable element derived 4	448											0		all_lung(180;1.76e-08)		all cancers(64;1.22e-17)|GBM - Glioblastoma multiforme(113;1.78e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0242)		CGCAAAAGACACAAGGTTTGG	0.423													13	79					0	0	0.00245	0	0		G	34396075	G	G	34396075	3	3	11	1	0	0	0	0	1	0	0	0	11802	159	6	3	1345	3	PGBD4	15	34396075	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	265401	34396075	68135317	791	9183											
C15orf55	256646	broad.mit.edu	37	chr15	34646818	34646818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcacttggccactggggagtCagatggaaaacaagaggaag	14	6	14	7	0	2	2	2	0	0	2	2	5	2	5	1	5	1	0	1	5	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:34646818C>T	uc001zif.2	+	5	1318	c.1163C>T	c.(1162-1164)TCA>TTA	p.S388L	C15orf55_uc010ucc.1_Missense_Mutation_p.S416L|C15orf55_uc010ucd.1_Missense_Mutation_p.S406L	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	388						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		ACTGGGGAGTCAGATGGAAAA	0.537			T	BRD3|BRD4	lethal midline carcinoma								12	60					0	0	0.001855	0	0		T	34646818	T	T	34646818	3	4	11	1	0	0	0	0	1	0	0	0	1806	838	29	4	1181	4	C15orf55	15	34646818	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	250743	34646818	67884574	792	9184											
LPCAT4	254531	broad.mit.edu	37	chr15	34654982	34654982	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccgcccccacgggagccataCctccacatccacaatgctgc	9	5	7	20	2	0	0	0	0	0	0	2	1	2	1	7	1	4	1	7	1	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:34654982C>T	uc001zig.2	-	8	895	c.801_splice	c.e8+1	p.E267_splice		NM_153613	NP_705841	Q643R3	LPCT4_HUMAN	lysophosphatidylcholine acyltransferase 4						phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|calcium ion binding				0						GGGAGCCATACCTCCACATCC	0.512													5	34					0	0	0.006214	0	0		T	34654982	T	T	34654982	5	4	11	1	0	0	0	0	0	0	1	0	8931	521	18	4	800	4	LPCAT4	15	34654982	Splice_Site	SNP	C	TCGA-BR-4256-01A-01D-1126-08	8164	34654982	67876410	793	9185											
GOLGA8A	23015	broad.mit.edu	37	chr15	34673666	34673666	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcatggcacacagcagttGctgcccaagcctgggtgctc	9	7	12	13	0	0	0	0	0	0	0	1	0	0	0	2	2	6	6	2	2	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:34673666G>A	uc001zii.2	-	16	1867	c.1758C>T	c.(1756-1758)AGC>AGT	p.S586S	GOLGA8A_uc001zih.2_Silent_p.S442S|uc001zil.2_5'Flank	NM_181077	NP_851422	A7E2F4	GOG8A_HUMAN	golgi autoantigen, golgin subfamily a, 8A	614	Golgi-targeting domain (By similarity).					Golgi cisterna membrane					0		all_lung(180;2.78e-08)		all cancers(64;8.27e-19)|GBM - Glioblastoma multiforme(113;6.98e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		CACAGCAGTTGCTGCCCAAGC	0.532													9	46					0	0	0.008871	0	0		A	34673666	A	A	34673666	2	1	11	1	0	0	0	0	0	0	0	1	6578	1310	46	2		2	GOLGA8A	15	34673666	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	18684	34673666	67857726	794	9186											
AQR	9716	broad.mit.edu	37	chr15	35163101	35163101	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtacataaaaagtgctactAcatattctgcctctccaaga	14	12	5	10	0	2	1	0	0	2	1	3	1	2	1	2	0	5	2	2	0	8	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:35163101A>G	uc001ziv.2	-	31	3801	c.3620T>C	c.(3619-3621)GTA>GCA	p.V1207A		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	1207						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		AAGTGCTACTACATATTCTGC	0.333													13	58					0	0	0.001855	0	0		G	35163101	G	G	35163101	3	3	11	1	0	0	0	0	1	0	0	0	835	391	14	3	857	3	AQR	15	35163101	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	489435	35163101	67368291	795	9187											
AQR	9716	broad.mit.edu	37	chr15	35202476	35202476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgggctgggccattcgcGcccaaccaccaaacactaca	12	5	8	16	2	0	0	0	0	0	0	1	0	0	0	4	2	3	1	4	2	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:35202476G>A	uc001ziv.2	-	17	1704	c.1523C>T	c.(1522-1524)GCG>GTG	p.A508V		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	508						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		GGCCATTCGCGCCCAACCACC	0.448													4	27					0	0	0.000602	0	0		A	35202476	A	A	35202476	3	1	11	1	0	0	0	0	1	0	0	0	835	1087	38	1	3010	1	AQR	15	35202476	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	39375	35202476	67328916	796	9188											
EIF2AK4	440275	broad.mit.edu	37	chr15	40254062	40254062	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtatttcaatatggggaGtcctgatcagctcatggtgc	8	14	11	8	0	4	1	3	1	1	0	5	2	5	2	1	3	2	2	1	3	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:40254062G>T	uc001zkm.1	+	7	871	c.821G>T	c.(820-822)AGT>ATT	p.S274I	EIF2AK4_uc001zkl.2_Missense_Mutation_p.S274I|EIF2AK4_uc010bbj.1_Missense_Mutation_p.S3I	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	274					translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		AATATGGGGAGTCCTGATCAG	0.338													12	97					2.27111e-07	2.57445e-07	0.013537	1	0		T	40254062	T	T	40254062	3	4	11	1	0	0	0	0	1	0	0	0	5005	1029	36	5	847	5	EIF2AK4	15	40254062	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	5051586	40254062	62277330	797	9189											
INO80	54617	broad.mit.edu	37	chr15	41379814	41379814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgggtccaagtaggtgccGttgttgctcatagaaagggt	8	12	14	7	1	1	1	1	0	0	1	2	1	2	1	2	3	2	4	2	3	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:41379814G>A	uc001zni.2	-	6	817	c.604C>T	c.(604-606)CGG>TGG	p.R202W	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	202	Assembles INO80 complex module with putative regulatory components INO80E, INO80F, UCHL5, NFRKB, MCRS1 and IN80D.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						AGTAGGTGCCGTTGTTGCTCA	0.428													18	126					0	0	0.012319	0	0		A	41379814	A	A	41379814	3	1	11	1	0	0	0	0	1	0	0	0	7762	1144	40	1	4190	1	INO80	15	41379814	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1125752	41379814	61151578	798	9190											
FRMD5	84978	broad.mit.edu	37	chr15	44175946	44175946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctgcgggtcctggggaCgctgctcagccttgggccat	3	11	14	13	2	3	0	1	0	2	0	4	1	4	1	3	4	3	2	3	4	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:44175946C>T	uc001ztl.2	-	13	1267	c.1090G>A	c.(1090-1092)GTC>ATC	p.V364I	FRMD5_uc001ztj.1_Missense_Mutation_p.V37I|FRMD5_uc001ztk.1_Missense_Mutation_p.V270I|FRMD5_uc010uef.1_Missense_Mutation_p.V37I|FRMD5_uc001ztm.2_Missense_Mutation_p.V37I|FRMD5_uc001ztn.2_Missense_Mutation_p.V130I	NM_032892	NP_116281	Q7Z6J6	FRMD5_HUMAN	FERM domain containing 5 isoform 2	364						cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(109;2.29e-15)|all_epithelial(112;9.98e-13)|Lung NSC(122;4.89e-08)|all_lung(180;5.08e-07)|Melanoma(134;0.0275)		all cancers(107;8.63e-20)|GBM - Glioblastoma multiforme(94;3.63e-06)		GTCCTGGGGACGCTGCTCAGC	0.537													8	78					0	0	0.006214	0	0		T	44175946	T	T	44175946	3	4	11	1	0	0	0	0	1	0	0	0	6067	536	19	1	630	1	FRMD5	15	44175946	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2796132	44175946	58355446	799	9191											
CYP19A1	1588	broad.mit.edu	37	chr15	51514600	51514600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgtccagcatgacacgacGcagaagggtcaacacgtcca	12	5	12	12	3	1	2	1	1	0	1	3	3	3	2	2	2	2	2	2	2	2	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:51514600G>A	uc001zyz.3	-	6	825	c.574C>T	c.(574-576)CGT>TGT	p.R192C	CYP19A1_uc001zza.3_Missense_Mutation_p.R192C|CYP19A1_uc001zzb.2_Missense_Mutation_p.R192C|CYP19A1_uc001zzd.2_Missense_Mutation_p.R192C|CYP19A1_uc010bey.1_Missense_Mutation_p.R192C	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	192					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	ATGACACGACGCAGAAGGGTC	0.493													9	65					0	0	0.008291	0	0		A	51514600	A	A	51514600	3	1	11	1	0	0	0	0	1	0	0	0	4151	1087	38	1	961	1	CYP19A1	15	51514600	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	7338654	51514600	51016792	800	9192											
KIAA1370	56204	broad.mit.edu	37	chr15	52877031	52877031	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcacttcttgtttaacaggTacagaaaaagttctttgtcg	11	16	7	7	1	3	1	1	0	2	1	4	1	3	1	0	1	2	3	0	1	4	8			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:52877031T>C	uc002acg.3	-	12	3141	c.2988A>G	c.(2986-2988)GTA>GTG	p.V996V	KIAA1370_uc002ach.3_RNA|KIAA1370_uc010bfg.1_Silent_p.V908V|KIAA1370_uc002acf.3_Silent_p.V26V|KIAA1370_uc010ugf.1_Silent_p.V1003V	NM_019600	NP_062546	Q32MH5	K1370_HUMAN	hypothetical protein LOC56204	996											0				all cancers(107;0.0803)		GTTTAACAGGTACAGAAAAAG	0.373													4	27					0	0	0.009096	0	0		C	52877031	C	C	52877031	2	2	11	1	0	0	0	0	0	0	0	1	8242	1625	57	3		3	KIAA1370	15	52877031	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1362431	52877031	49654361	801	9193											
CCPG1	9236	broad.mit.edu	37	chr15	55652559	55652559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagccctgtggcttcctctgCcccctttcttttttccatct	2	18	5	16	0	3	0	0	0	3	0	5	0	5	0	5	1	2	1	5	1	1	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:55652559C>T	uc002acv.1	-	8	1577	c.1412G>A	c.(1411-1413)GGC>GAC	p.G471D	CCPG1_uc002acy.2_Missense_Mutation_p.G471D|CCPG1_uc002acu.1_Missense_Mutation_p.G327D|CCPG1_uc002acw.1_Missense_Mutation_p.G196D|CCPG1_uc002acx.2_Intron|CCPG1_uc010bfk.1_Missense_Mutation_p.G471D|CCPG1_uc002acz.1_Missense_Mutation_p.G471D	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2	471	Lumenal (Potential).				cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		GCTTCCTCTGCCCCCTTTCTT	0.393													23	225					0	0	0.007291	0	0		T	55652559	T	T	55652559	3	4	11	1	0	0	0	0	1	0	0	0	2941	739	26	2	865	2	CCPG1	15	55652559	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2775528	55652559	46878833	802	9194											
PRTG	283659	broad.mit.edu	37	chr15	55912260	55912260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaggacagatgtatctcatCgttggactcatgagaaaacc	13	10	10	8	1	2	3	2	2	1	2	4	6	2	5	1	2	1	2	1	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:55912260C>T	uc002adg.2	-	20	3451	c.3403G>A	c.(3403-3405)GAT>AAT	p.D1135N		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	1135					multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		TGTATCTCATCGTTGGACTCA	0.483													11	88					0	0	0.00245	0	0		T	55912260	T	T	55912260	3	4	11	1	0	0	0	0	1	0	0	0	12660	884	31	1	53	1	PRTG	15	55912260	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	259701	55912260	46619132	803	9195											
CGNL1	84952	broad.mit.edu	37	chr15	57731440	57731440	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaggaacttgggcaagtcaAgcgaacacctcctccggcct	10	7	11	13	2	1	0	1	0	0	0	3	2	3	1	4	3	3	2	4	3	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:57731440A>C	uc002aeg.2	+	2	1319	c.1243A>C	c.(1243-1245)AGC>CGC	p.S415R	CGNL1_uc010bfw.2_Missense_Mutation_p.S415R	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	415	Head.					myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		GGGCAAGTCAAGCGAACACCT	0.577													11	76					0	0	0.013537	0	0		C	57731440	C	C	57731440	3	2	11	1	0	0	0	0	1	0	0	0	3307	72	3	5	1245	5	CGNL1	15	57731440	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1819180	57731440	44799952	804	9196											
TLN2	83660	broad.mit.edu	37	chr15	62950012	62950012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctctcaccctgtctccttcGagaaagcttgtgagtttggt	6	14	10	11	1	2	2	1	1	2	1	5	3	2	2	2	1	1	3	2	1	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:62950012G>A	uc002alb.3	+	6	703	c.703G>A	c.(703-705)GAG>AAG	p.E235K		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	235	FERM.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						TGTCTCCTTCGAGAAAGCTTG	0.458													26	148					0	0	0.003954	0	0		A	62950012	A	A	62950012	3	1	11	1	0	0	0	0	1	0	0	0	15973	1059	37	1	725	1	TLN2	15	62950012	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	5218572	62950012	39581380	805	9197											
FEM1B	10116	broad.mit.edu	37	chr15	68582325	68582325	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagagctgataaaatggcGtgctgctatagtagtgaatg	14	10	13	4	1	0	3	0	2	0	1	0	4	0	3	0	1	3	4	0	1	7	4	rs142755987	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:68582325G>A	uc002arg.2	+	2	1244	c.629G>A	c.(628-630)CGT>CAT	p.R210H	FEM1B_uc002arh.2_Missense_Mutation_p.R130H	NM_015322	NP_056137	Q9UK73	FEM1B_HUMAN	fem-1 homolog b	210	ANK 5.				apoptosis|induction of apoptosis|regulation of DNA damage checkpoint|regulation of ubiquitin-protein ligase activity	cytoplasm|nucleus	death receptor binding|ubiquitin-protein ligase activity				0						ATAAAATGGCGTGCTGCTATA	0.473													6	44					0	0	0.004482	0	0		A	68582325	A	A	68582325	3	1	11	1	0	0	0	0	1	0	0	0	5824	1145	40	1	635	1	FEM1B	15	68582325	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	5632313	68582325	33949067	806	9198											
GRAMD2	196996	broad.mit.edu	37	chr15	72456008	72456008	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtggagtccacggatgAtggagggatacaagggatgt	10	9	17	5	1	1	1	0	1	1	0	2	6	2	6	1	5	1	0	1	5	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:72456008A>G	uc002atq.2	-	9	715	c.691T>C	c.(691-693)TCA>CCA	p.S231P	GRAMD2_uc010bis.2_Missense_Mutation_p.S231P|GRAMD2_uc010ukh.1_Missense_Mutation_p.S25P	NM_001012642	NP_001012660	Q8IUY3	GRAM2_HUMAN	GRAM domain containing 2	231						integral to membrane					0						TCCACGGATGATGGAGGGATA	0.537													4	31					0	0	0.004482	0	0		G	72456008	G	G	72456008	3	3	11	1	0	0	0	0	1	0	0	0	6766	333	12	3	389	3	GRAMD2	15	72456008	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	3873683	72456008	30075384	807	9199											
ISLR2	57611	broad.mit.edu	37	chr15	74425657	74425657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcccttccactgcggctgcGgccttgtgtggctgcaggcc	3	10	13	15	2	0	0	0	0	0	0	2	0	2	0	4	4	3	3	4	4	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:74425657G>A	uc002axd.2	+	4	1331	c.562G>A	c.(562-564)GGC>AGC	p.G188S	ISLR2_uc002axe.2_Missense_Mutation_p.G188S|ISLR2_uc010bjg.2_Missense_Mutation_p.G188S|ISLR2_uc010bjf.2_Missense_Mutation_p.G188S	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	188	Extracellular (Potential).|LRRCT.				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CTGCGGCTGCGGCCTTGTGTG	0.667													6	31					0	0	0.00499	0	0		A	74425657	A	A	74425657	3	1	11	1	0	0	0	0	1	0	0	0	7875	1116	39	1	564	1	ISLR2	15	74425657	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1969649	74425657	28105735	808	9200											
CYP1A1	1543	broad.mit.edu	37	chr15	75012940	75012940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcacgctgaattccacccGttgcagcaggatagccagga	10	7	12	12	2	0	1	0	1	0	0	1	3	1	3	3	3	3	5	3	3	2	3	rs56240201	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:75012940G>A	uc002ayp.3	-	7	1551	c.1429C>T	c.(1429-1431)CGG>TGG	p.R477W	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Missense_Mutation_p.R213W|CYP1A1_uc010bjx.2_Missense_Mutation_p.R213W|CYP1A1_uc002ayq.3_Missense_Mutation_p.R477W|CYP1A1_uc010bjy.2_Missense_Mutation_p.R448W	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	477					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity	p.R477W(1)		ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	AATTCCACCCGTTGCAGCAGG	0.542									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				16	87					0	0	0.00499	0	0		A	75012940	A	A	75012940	3	1	11	1	0	0	0	0	1	0	0	0	4152	1144	40	1	113	1	CYP1A1	15	75012940	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	587283	75012940	27518452	809	9201											
PTPN9	5780	broad.mit.edu	37	chr15	75772249	75772249	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgaaactggcattgatgtAatctgtctaatgataaaaag	16	12	8	5	0	2	3	0	3	2	0	2	3	2	3	0	1	1	2	0	1	6	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:75772249A>G	uc002bal.2	-	9	1577	c.1069T>C	c.(1069-1071)TAC>CAC	p.Y357H		NM_002833	NP_002824	P43378	PTN9_HUMAN	protein tyrosine phosphatase, non-receptor type	357	Tyrosine-protein phosphatase.					cytoplasmic part	non-membrane spanning protein tyrosine phosphatase activity|protein binding			lung(1)|skin(1)	2						GCATTGATGTAATCTGTCTAA	0.408													11	59					0	0	0.010729	0	0		G	75772249	G	G	75772249	3	3	11	1	0	0	0	0	1	0	0	0	12819	362	13	3	732	3	PTPN9	15	75772249	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	759309	75772249	26759143	810	9202											
LINGO1	84894	broad.mit.edu	37	chr15	77906539	77906539	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggcagaagaggacgacGcccaggaaagagatgaagcc	16	1	14	10	2	0	4	0	1	0	3	0	8	0	6	3	3	1	1	3	3	3	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:77906539G>A	uc002bct.1	-	2	1762	c.1710C>T	c.(1708-1710)GGC>GGT	p.G570G	LINGO1_uc002bcu.1_Silent_p.G564G	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	570	Helical; (Potential).				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						AGAGGACGACGCCCAGGAAAG	0.597													13	36					0	0	0.003163	0	0		A	77906539	A	A	77906539	2	1	11	1	0	0	0	0	0	0	0	1	8831	1074	38	1		1	LINGO1	15	77906539	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2134290	77906539	24624853	811	9203											
CHRNB4	1143	broad.mit.edu	37	chr15	78921959	78921959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgtagaacagaggcttgcGcttgatgatgaagtcgtaag	11	10	15	5	2	0	5	0	3	0	2	1	5	0	5	0	2	2	4	0	2	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:78921959G>A	uc002bed.1	-	5	800	c.688C>T	c.(688-690)CGC>TGC	p.R230C	CHRNB4_uc002bee.1_Intron|CHRNB4_uc010blh.1_Missense_Mutation_p.R48C	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	230	Extracellular (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						AGAGGCTTGCGCTTGATGATG	0.572													13	58					0	0	0.006122	0	0		A	78921959	A	A	78921959	3	1	11	1	0	0	0	0	1	0	0	0	3396	1087	38	1	816	1	CHRNB4	15	78921959	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1015420	78921959	23609433	812	9204											
TMC3	342125	broad.mit.edu	37	chr15	81636296	81636296	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaacaccagtagtcacttaAgtaccgcacgaaaagtcctc	14	7	6	14	2	1	0	1	0	0	0	3	1	2	0	4	0	2	3	4	0	6	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:81636296A>G	uc002bgo.1	-	14	1609	c.1609T>C	c.(1609-1611)TTA>CTA	p.L537L	TMC3_uc010blr.1_RNA|TMC3_uc002bgp.2_Silent_p.L537L	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	537	Extracellular (Potential).					integral to membrane				ovary(1)|liver(1)	2						TAGTCACTTAAGTACCGCACG	0.448													14	86					0	0	0.001855	0	0		G	81636296	G	G	81636296	2	3	11	1	0	0	0	0	0	0	0	1	16011	69	3	3		3	TMC3	15	81636296	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	2714337	81636296	20895096	813	9205											
EFTUD1	79631	broad.mit.edu	37	chr15	82444608	82444608	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcaacttggattccttcAgggattttgctttgatcttc	7	17	9	8	0	3	1	2	1	1	0	5	4	4	3	1	2	2	1	1	2	1	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:82444608A>G	uc002bgt.1	-	18	2356	c.2187T>C	c.(2185-2187)CCT>CCC	p.P729P	EFTUD1_uc002bgs.1_Silent_p.P100P|EFTUD1_uc002bgu.1_Silent_p.P678P	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	729					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						GGATTCCTTCAGGGATTTTGC	0.433													10	164					0	0	0.008291	0	0		G	82444608	G	G	82444608	2	3	11	1	0	0	0	0	0	0	0	1	4966	175	7	3		3	EFTUD1	15	82444608	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	808312	82444608	20086784	814	9206											
ZSCAN2	54993	broad.mit.edu	37	chr15	85163909	85163909	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatcacgtaagatattctcGgaaatgcctgaaggtgaaag	15	9	11	6	2	2	3	1	2	1	1	3	5	2	4	1	2	1	1	1	2	6	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:85163909G>A	uc002bkr.2	+	3	709	c.483G>A	c.(481-483)TCG>TCA	p.S161S	ZSCAN2_uc010bmz.1_Silent_p.S159S|ZSCAN2_uc010bna.2_Silent_p.S11S|ZSCAN2_uc010uox.1_Silent_p.S160S|ZSCAN2_uc010uoy.1_Silent_p.S160S|ZSCAN2_uc010uoz.1_Silent_p.S160S	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	161					cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		AGATATTCTCGGAAATGCCTG	0.448													24	111					0	0	0.004656	0	0		A	85163909	A	A	85163909	2	1	11	1	0	0	0	0	0	0	0	1	18256	1103	39	1		1	ZSCAN2	15	85163909	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2719301	85163909	17367483	815	9207											
SLC28A1	9154	broad.mit.edu	37	chr15	85487996	85487996	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccctctacagggatcctctAcatgcccaggggggctgaag	8	8	12	13	0	2	1	0	1	2	0	4	2	4	2	3	4	3	1	3	4	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:85487996A>G	uc002blg.2	+	18	1974	c.1772A>G	c.(1771-1773)TAC>TGC	p.Y591C	SLC28A1_uc010bnb.2_Missense_Mutation_p.Y591C|SLC28A1_uc010upe.1_Missense_Mutation_p.Y425C|SLC28A1_uc010upf.1_Missense_Mutation_p.Y591C|SLC28A1_uc010upg.1_Intron	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	591	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GGGATCCTCTACATGCCCAGG	0.602													11	91					0	0	0.00245	0	0		G	85487996	G	G	85487996	3	3	11	1	0	0	0	0	1	0	0	0	14556	391	14	3	1905	3	SLC28A1	15	85487996	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	324087	85487996	17043396	816	9208											
NTRK3	4916	broad.mit.edu	37	chr15	88679207	88679207	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcagggtgaagccattgTcctcactcgtcacattcacc	9	10	8	14	2	4	1	4	1	0	0	6	1	5	1	3	1	1	0	3	1	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:88679207T>C	uc002bme.1	-	8	992	c.830A>G	c.(829-831)GAC>GGC	p.D277G	NTRK3_uc002bmh.2_Missense_Mutation_p.D277G|NTRK3_uc002bmf.1_Missense_Mutation_p.D277G|NTRK3_uc010upl.1_Missense_Mutation_p.D179G|NTRK3_uc010bnh.1_Missense_Mutation_p.D277G|NTRK3_uc002bmg.2_Missense_Mutation_p.D277G	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	277	Ig-like C2-type 1.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			GAAGCCATTGTCCTCACTCGT	0.478			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			9	86					0	0	0.004482	0	0		C	88679207	C	C	88679207	3	2	11	1	0	0	0	0	1	0	0	0	10727	1667	58	3	1999	3	NTRK3	15	88679207	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	3191211	88679207	13852185	817	9209											
WDR93	56964	broad.mit.edu	37	chr15	90286554	90286554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggagaagaacccagagaagGaggaggagcactgggcccgg	13	2	18	8	1	0	3	0	0	0	3	0	8	0	6	2	6	2	1	2	6	3	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:90286554G>A	uc002boj.2	+	17	2094	c.1993G>A	c.(1993-1995)GAG>AAG	p.E665K	WDR93_uc010bnr.2_Missense_Mutation_p.E637K|WDR93_uc010upz.1_Missense_Mutation_p.E382K	NM_020212	NP_064597	Q6P2C0	WDR93_HUMAN	WD repeat domain 93	665					electron transport chain	mitochondrial inner membrane	oxidoreductase activity, acting on NADH or NADPH			ovary(2)	2	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			CCCAGAGAAGGAGGAGGAGCA	0.587													8	37					0	0	0.004482	0	0		A	90286554	A	A	90286554	3	1	11	1	0	0	0	0	1	0	0	0	17366	1175	41	4	2055	4	WDR93	15	90286554	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1607347	90286554	12244838	818	9210											
ASB7	140460	broad.mit.edu	37	chr15	101188577	101188577	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaattaaaattcgacaatgTataggccttcaaaacctaaa	18	10	5	8	2	1	0	1	0	0	0	2	2	1	0	2	1	1	1	2	1	10	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr15:101188577T>C	uc002bwk.2	+	6	1636	c.867T>C	c.(865-867)TGT>TGC	p.C289C		NM_198243	NP_937886	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box-containing protein 7	289	SOCS box.				intracellular signal transduction					skin(1)	1	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			TTCGACAATGTATAGGCCTTC	0.358													9	48					0	0	0.008291	0	0		C	101188577	C	C	101188577	2	2	11	1	0	0	0	0	0	0	0	1	1029	1644	57	3		3	ASB7	15	101188577	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	10902023	101188577	1342815	819	9211											
RHBDF1	64285	broad.mit.edu	37	chr16	108543	108543	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacttgccaaagctgatgtaGggcaagaaggcgaaggagag	15	5	15	6	1	0	3	0	1	0	2	0	5	0	3	1	3	3	3	1	3	6	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:108543G>T	uc002cfl.3	-	21	2512	c.2364C>A	c.(2362-2364)CCC>CCA	p.P788P		NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	788	Helical; (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				AGCTGATGTAGGGCAAGAAGG	0.557													20	107					3.5997e-14	4.20824e-14	0.014323	1	0		T	108543	T	T	108543	2	4	11	1	0	0	0	0	0	0	0	1	13344	987	35	5		5	RHBDF1	16	108543	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08		108543	90246210	820	9212											
NHLRC4	283948	broad.mit.edu	37	chr16	618400	618400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccatcaaggtgtaccaggGcctcaaggagctggcctgac	9	7	12	13	0	2	1	2	1	0	0	3	2	3	2	4	4	2	2	4	4	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:618400G>A	uc002chl.2	+	2	949	c.353G>A	c.(352-354)GGC>GAC	p.G118D	PIGQ_uc010bqw.2_Intron|PIGQ_uc002chm.2_5'Flank|PIGQ_uc002chn.2_5'Flank|PIGQ_uc002cho.2_5'Flank	NM_176677	NP_788850	P0CG21	NHLC4_HUMAN	hypothetical protein LOC283948	118	NHL 2.										0						GTGTACCAGGGCCTCAAGGAG	0.662													5	19					0	0	0.001168	0	0		A	618400	A	A	618400	3	1	11	1	0	0	0	0	1	0	0	0	10427	1203	42	2	355	2	NHLRC4	16	618400	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	509857	618400	89736353	821	9213											
WDR24	84219	broad.mit.edu	37	chr16	739536	739536	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accacctgggctgcgtcgcgGcacacactgatggcattggc	7	7	13	14	3	0	1	0	1	0	0	1	1	0	1	2	4	1	3	2	4	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:739536G>A	uc002ciz.1	-	1	865	c.105C>T	c.(103-105)TGC>TGT	p.C35C		NM_032259	NP_115635	Q96S15	WDR24_HUMAN	WD repeat domain 24	97										ovary(1)|central_nervous_system(1)	2		Hepatocellular(780;0.0218)				CTGCGTCGCGGCACACACTGA	0.617													5	8					0	0	0.001168	0	0		A	739536	A	A	739536	2	1	11	1	0	0	0	0	0	0	0	1	17307	1195	42	2		2	WDR24	16	739536	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	121136	739536	89615217	822	9214											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1817232	1817232	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctgcatggctgttgtgtaCgaccgcgtgtggtgtggcta	4	12	16	9	4	0	0	0	0	0	0	0	1	0	0	1	3	2	6	1	3	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:1817232C>T	uc002cmk.2	+	26	3288	c.3168C>T	c.(3166-3168)TAC>TAT	p.Y1056Y	MAPK8IP3_uc002cml.2_Silent_p.Y1050Y|MAPK8IP3_uc010uvl.1_Silent_p.Y1057Y	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	1056					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						CTGTTGTGTACGACCGCGTGT	0.627													6	36					0	0	0.00308	0	0		T	1817232	T	T	1817232	2	4	11	1	0	0	0	0	0	0	0	1	9304	547	19	1		1	MAPK8IP3	16	1817232	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1077696	1817232	88537521	823	9215											
SPSB3	90864	broad.mit.edu	37	chr16	1827807	1827807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccaggtgtccaggtgcacgCcaatgatggagccctggccg	7	6	15	13	2	0	1	0	1	0	0	1	2	1	2	5	4	2	1	5	4	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:1827807C>T	uc002cmr.2	-	5	695	c.662G>A	c.(661-663)GGC>GAC	p.G221D	SPSB3_uc002cms.2_Missense_Mutation_p.G93D|SPSB3_uc002cmt.2_Missense_Mutation_p.G93D|SPSB3_uc002cmu.2_Missense_Mutation_p.G221D|SPSB3_uc002cmv.2_Missense_Mutation_p.G93D	NM_080861	NP_543137	Q6PJ21	SPSB3_HUMAN	splA/ryanodine receptor domain and SOCS box	221	B30.2/SPRY.				intracellular signal transduction						0						CAGGTGCACGCCAATGATGGA	0.617													3	8					0	0	0.009096	0	0		T	1827807	T	T	1827807	3	4	11	1	0	0	0	0	1	0	0	0	15139	739	26	2	413	2	SPSB3	16	1827807	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	10575	1827807	88526946	824	9216											
NLRC3	197358	broad.mit.edu	37	chr16	3591887	3591887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgagatcatcctggcccCggagtccccaatgtggtttc	6	11	10	14	1	2	1	1	1	1	1	5	3	4	2	5	3	0	1	5	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:3591887C>T	uc010btn.2	-	21	3547	c.3136G>A	c.(3136-3138)GGG>AGG	p.G1046R		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	1046	LRR 16.				I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						ATCCTGGCCCCGGAGTCCCCA	0.522													7	25					0	0	0.006214	0	0		T	3591887	T	T	3591887	3	4	11	1	0	0	0	0	1	0	0	0	10487	652	23	1	65	1	NLRC3	16	3591887	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1764080	3591887	86762866	825	9217											
BTBD12	84464	broad.mit.edu	37	chr16	3656500	3656500	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccatcatctcctcttgAggatcctttgggacattttc	6	14	7	14	1	3	1	1	1	2	0	6	3	4	3	4	2	0	0	4	2	0	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:3656500A>C	uc002cvp.2	-	3	1362	c.735T>G	c.(733-735)CCT>CCG	p.P245P	BTBD12_uc002cvq.1_Silent_p.P245P	NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	245	Interaction with C20orf94, ERCC4 and MSH2.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TCTCCTCTTGAGGATCCTTTG	0.512								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				10	209					0	0	0.001855	0	0		C	3656500	C	C	3656500	2	2	11	1	0	0	0	0	0	0	0	1	1543	291	11	5		5	BTBD12	16	3656500	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	64613	3656500	86698253	826	9218											
CREBBP	1387	broad.mit.edu	37	chr16	3790455	3790455	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctgagctggccaccactcGgacaaaaacctccccggctt	9	7	9	16	2	1	1	0	1	1	0	3	2	2	2	5	3	2	2	5	3	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:3790455G>A	uc002cvv.2	-	24	4282	c.4078C>T	c.(4078-4080)CGA>TGA	p.R1360*	CREBBP_uc002cvw.2_Nonsense_Mutation_p.R1322*	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1360	Cys/His-rich.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding	p.R1360*(1)		haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GCCACCACTCGGACAAAAACC	0.582			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				4	35					0	0	0.000602	0	0		A	3790455	A	A	3790455	4	1	11	1	0	0	0	0	0	1	0	0	3864	1124	39	1	3282	1	CREBBP	16	3790455	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	133955	3790455	86564298	827	9219											
ALG1	56052	broad.mit.edu	37	chr16	5132575	5132575	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcagggtcggcggacctggGtgtctgtctgcacacgtcct	5	9	15	12	3	2	0	0	0	2	0	4	1	3	1	2	4	2	2	2	4	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:5132575G>C	uc002cym.2	+	11	1129	c.1088G>C	c.(1087-1089)GGT>GCT	p.G363A	ALG1_uc002cyj.2_Missense_Mutation_p.G252A|ALG1_uc002cyn.2_Missense_Mutation_p.G364A|ALG1_uc010bue.2_Missense_Mutation_p.G252A|ALG1_uc010uxy.1_Missense_Mutation_p.G252A	NM_019109	NP_061982	Q9BT22	ALG1_HUMAN	beta-1,4-mannosyltransferase	363	Lumenal (Potential).				dolichol-linked oligosaccharide biosynthetic process|lipopolysaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	chitobiosyldiphosphodolichol beta-mannosyltransferase activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(90;0.0164)				GCGGACCTGGGTGTCTGTCTG	0.607													5	26					0	0	0.001984	0	0		C	5132575	C	C	5132575	3	2	11	1	0	0	0	0	1	0	0	0	510	1261	44	5	1130	5	ALG1	16	5132575	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1342120	5132575	85222178	828	9220											
ABAT	18	broad.mit.edu	37	chr16	8866730	8866730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgagggtggagacaaccacGcatccgatgacttctttcgg	9	8	12	12	4	1	2	0	1	1	1	3	5	2	2	3	3	1	1	3	3	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:8866730G>A	uc002czc.3	+	12	1076	c.910G>A	c.(910-912)GCA>ACA	p.A304T	ABAT_uc002czd.3_Missense_Mutation_p.A304T|ABAT_uc010buh.2_Missense_Mutation_p.A246T|ABAT_uc010bui.2_Missense_Mutation_p.A304T	NM_020686	NP_065737	P80404	GABT_HUMAN	4-aminobutyrate aminotransferase precursor	304					behavioral response to cocaine|gamma-aminobutyric acid catabolic process|neurotransmitter catabolic process|neurotransmitter secretion	4-aminobutyrate transaminase complex|mitochondrial matrix	(S)-3-amino-2-methylpropionate transaminase activity|4-aminobutyrate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|succinate-semialdehyde dehydrogenase binding			upper_aerodigestive_tract(1)	1					Divalproex sodium(DB00510)|Isoniazid(DB00951)|L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)|Tiagabine(DB00906)|Valproic Acid(DB00313)|Vigabatrin(DB01080)	AGACAACCACGCATCCGATGA	0.547													4	31					0	0	0.001984	0	0		A	8866730	A	A	8866730	3	1	11	1	0	0	0	0	1	0	0	0	27	1087	38	1	952	1	ABAT	16	8866730	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3734155	8866730	81488023	829	9221											
TXNDC11	51061	broad.mit.edu	37	chr16	11785695	11785695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctcggcttcatgccccCggaggtctggttgacacaga	7	8	13	13	3	2	2	1	1	1	1	3	4	2	3	2	4	2	3	2	4	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:11785695C>T	uc010buu.1	-	9	1494	c.1432G>A	c.(1432-1434)GGG>AGG	p.G478R	TXNDC11_uc002dbg.1_Missense_Mutation_p.G451R	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	478					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						TTCATGCCCCCGGAGGTCTGG	0.562													9	49					0	0	0.006214	0	0		T	11785695	T	T	11785695	3	4	11	1	0	0	0	0	1	0	0	0	16818	652	23	1	1545	1	TXNDC11	16	11785695	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2918965	11785695	78569058	830	9222											
MKL2	57496	broad.mit.edu	37	chr16	14340951	14340951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaaacgagggcagcagcagCggcccctggaagcccagccc	12	1	13	15	2	0	0	0	0	0	0	0	2	0	1	4	3	6	3	4	3	3	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:14340951C>T	uc010uza.1	+	12	1989	c.1834C>T	c.(1834-1836)CGG>TGG	p.R612W	MKL2_uc002dcg.2_Missense_Mutation_p.R612W|MKL2_uc002dcj.2_5'Flank	NM_014048	NP_054767	Q9ULH7	MKL2_HUMAN	megakaryoblastic leukemia 2 protein	601	Potential.				cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5						GCAGCAGCAGCGGCCCCTGGA	0.547													6	30					0	0	0.001984	0	0		T	14340951	T	T	14340951	3	4	11	1	0	0	0	0	1	0	0	0	9620	759	27	1	1872	1	MKL2	16	14340951	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2555256	14340951	76013802	831	9223											
PLA2G10	8399	broad.mit.edu	37	chr16	14766560	14766560	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaagcagttagcaatctcCtggtcacacttgcacaacag	12	9	8	12	0	2	0	1	0	1	0	3	0	2	0	1	1	4	5	1	1	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:14766560C>A	uc002dcq.2	-	4	842	c.402G>T	c.(400-402)CAG>CAT	p.Q134H		NM_003561	NP_003552	O15496	PA2GX_HUMAN	phospholipase A2, group X precursor	134					arachidonic acid metabolic process|axon guidance|cholesterol homeostasis|lipid catabolic process|lysophospholipid transport|negative regulation of cholesterol efflux|negative regulation of sequence-specific DNA binding transcription factor activity|phospholipid metabolic process|positive regulation of arachidonic acid secretion|positive regulation of cellular protein metabolic process|positive regulation of lipid storage|positive regulation of prostaglandin secretion|regulation of macrophage activation	extracellular region	calcium ion binding|phospholipase A2 activity				0						TAGCAATCTCCTGGTCACACT	0.507													11	218					1.05317e-09	1.20323e-09	0.00245	1	0		A	14766560	A	A	14766560	3	1	11	1	0	0	0	0	1	0	0	0	12008	680	24	5	99	5	PLA2G10	16	14766560	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	425609	14766560	75588193	832	9224											
NOMO1	23420	broad.mit.edu	37	chr16	14958558	14958558	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtacagttcttggcatcAgtttctgggaaagtctcttg	7	17	10	7	0	4	0	1	0	3	0	5	1	4	1	0	2	1	4	0	2	2	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:14958558A>G	uc002dcv.2	+	13	1578	c.1512A>G	c.(1510-1512)TCA>TCG	p.S504S		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor	504	Extracellular (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						TCTTGGCATCAGTTTCTGGGA	0.458													33	160					0	0	0.00623	0	0		G	14958558	G	G	14958558	2	3	11	1	0	0	0	0	0	0	0	1	10550	175	7	3		3	NOMO1	16	14958558	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	191998	14958558	75396195	833	9225											
KIAA0430	9665	broad.mit.edu	37	chr16	15704907	15704907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgtctggaatctctgataCgatgtcaatcaactcacaaa	13	12	7	9	1	5	1	3	1	2	0	6	3	5	2	0	1	2	0	0	1	5	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:15704907C>T	uc002ddr.2	-	19	3869	c.3676G>A	c.(3676-3678)GTA>ATA	p.V1226I	KIAA0430_uc002ddq.2_Missense_Mutation_p.V1060I|KIAA0430_uc010uzv.1_Missense_Mutation_p.V1222I|KIAA0430_uc010uzw.1_Missense_Mutation_p.V1225I	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	1225						peroxisome	nucleotide binding|RNA binding				0						ATCTCTGATACGATGTCAATC	0.403													20	78					0	0	0.008871	0	0		T	15704907	T	T	15704907	3	4	11	1	0	0	0	0	1	0	0	0	8193	536	19	1	1588	1	KIAA0430	16	15704907	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	746349	15704907	74649846	834	9226											
SCNN1G	6340	broad.mit.edu	37	chr16	23200704	23200704	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggcaggtacagcaccgtTcgccaccttctagctgactt	7	11	9	14	2	1	1	0	1	1	0	2	1	1	1	3	2	3	5	3	2	2	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:23200704T>C	uc002dlm.1	+	3	469	c.330T>C	c.(328-330)GTT>GTC	p.V110V		NM_001039	NP_001030	P51170	SCNNG_HUMAN	sodium channel, nonvoltage-gated 1, gamma	110	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane|integral to plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(48;0.0366)	Amiloride(DB00594)|Triamterene(DB00384)	ACAGCACCGTTCGCCACCTTC	0.607													8	74					0	0	0.008291	0	0		C	23200704	C	C	23200704	2	2	11	1	0	0	0	0	0	0	0	1	13955	1770	62	3		3	SCNN1G	16	23200704	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	7495797	23200704	67154049	835	9227											
RBBP6	5930	broad.mit.edu	37	chr16	24580751	24580751	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcacaatcagaaggataatAcaaagtcaaaagagaaggag	21	5	10	5	0	3	2	3	0	0	2	3	5	3	4	0	2	1	0	0	2	8	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:24580751A>G	uc002dmh.2	+	17	3780	c.2740A>G	c.(2740-2742)ACA>GCA	p.T914A	RBBP6_uc010vcb.1_Missense_Mutation_p.T781A|RBBP6_uc002dmi.2_Missense_Mutation_p.T880A|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Missense_Mutation_p.T747A	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	914					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		GAAGGATAATACAAAGTCAAA	0.403													16	90					0	0	0.006122	0	0		G	24580751	G	G	24580751	3	3	11	1	0	0	0	0	1	0	0	0	13128	391	14	3	2860	3	RBBP6	16	24580751	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1380047	24580751	65774002	836	9228											
IL21R	50615	broad.mit.edu	37	chr16	27460161	27460161	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggccatgcacctggcccTgcagctgtgaggatgacggc	7	6	16	12	1	0	2	0	2	0	0	0	3	0	3	3	5	3	3	3	5	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:27460161T>G	uc002doq.1	+	9	1407	c.1174T>G	c.(1174-1176)TGC>GGC	p.C392G	IL21R_uc002dor.1_Missense_Mutation_p.C392G|IL21R_uc002dos.1_Missense_Mutation_p.C392G|uc002dot.2_RNA	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	392	Cytoplasmic (Potential).				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						CACCTGGCCCTGCAGCTGTGA	0.632			T	BCL6	NHL								8	33					0	0	0.004482	0	0		G	27460161	G	G	27460161	3	3	11	1	0	0	0	0	1	0	0	0	7687	1580	55	5	1204	5	IL21R	16	27460161	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2879410	27460161	62894592	837	9229											
MVP	9961	broad.mit.edu	37	chr16	29842329	29842329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaagttcggcttcgccacGctgacctcgagatccggctg	6	8	13	14	5	0	2	0	1	0	1	4	3	1	2	3	3	0	5	3	3	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:29842329G>A	uc002dui.2	+	3	340	c.256G>A	c.(256-258)GCT>ACT	p.A86T	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010bzh.1_RNA|MVP_uc010vdz.1_Intron|MVP_uc002duj.2_Missense_Mutation_p.A86T|MVP_uc010vea.1_5'UTR	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	86	MVP 2.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						GCTTCGCCACGCTGACCTCGA	0.627													4	30					0	0	0.000602	0	0		A	29842329	A	A	29842329	3	1	11	1	0	0	0	0	1	0	0	0	10014	1087	38	1	262	1	MVP	16	29842329	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2382168	29842329	60512424	838	9230											
ZNF48	197407	broad.mit.edu	37	chr16	30409177	30409177	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaatgtggcaagagcttccgGcagagttctgacctggtgaa	10	9	14	8	1	1	4	0	2	1	2	2	5	2	4	2	3	1	4	2	3	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:30409177G>A	uc002dya.1	+	2	665	c.606G>A	c.(604-606)CGG>CGA	p.R202R	ZNF48_uc002dxz.1_Silent_p.R79R	NM_152652	NP_689865	Q96MX3	ZNF48_HUMAN	zinc finger protein 48	202	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGAGCTTCCGGCAGAGTTCTG	0.612													5	39					0	0	0.006214	0	0		A	30409177	A	A	30409177	2	1	11	1	0	0	0	0	0	0	0	1	17959	1190	42	2		2	ZNF48	16	30409177	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	566848	30409177	59945576	839	9231											
PRSS36	146547	broad.mit.edu	37	chr16	31161349	31161349	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagggggaggagcaggtgcCgggccatggcgctagagtca	9	4	19	9	2	1	1	1	0	0	1	1	3	1	3	2	6	2	2	2	6	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:31161349C>A	uc002ebd.2	-	1	67	c.8G>T	c.(7-9)CGG>CTG	p.R3L	PRSS36_uc010vff.1_5'Flank|PRSS36_uc010vfg.1_Missense_Mutation_p.R3L|PRSS36_uc010vfh.1_Missense_Mutation_p.R3L	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	3					proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						GAGCAGGTGCCGGGCCATGGC	0.642													8	38					1.61879e-10	1.86247e-10	0.013537	1	0		A	31161349	A	A	31161349	3	1	11	1	0	0	0	0	1	0	0	0	12647	652	23	5	2619	5	PRSS36	16	31161349	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	752172	31161349	59193404	840	9232											
ABCC11	85320	broad.mit.edu	37	chr16	48227793	48227793	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcatggcactcaccccCgagccctgctccaaccagta	9	6	6	20	1	2	0	2	0	0	0	3	1	3	0	6	1	3	3	6	1	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:48227793C>T	uc002eff.1	-	18	2855	c.2505G>A	c.(2503-2505)TCG>TCA	p.S835S	ABCC11_uc002efg.1_Silent_p.S835S|ABCC11_uc002efh.1_Silent_p.S835S|ABCC11_uc010vgk.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	835	ABC transmembrane type-1 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances	p.S835S(1)		ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				CACTCACCCCCGAGCCCTGCT	0.522									Cerumen_Type				10	43					0	0	0.010729	0	0		T	48227793	T	T	48227793	2	4	11	1	0	0	0	0	0	0	0	1	51	639	23	1		1	ABCC11	16	48227793	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	17066444	48227793	42126960	841	9233											
TOX3	27324	broad.mit.edu	37	chr16	52484318	52484318	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaattcaaccccaactgggcGctgagctgagactggttgat	11	9	11	10	1	1	3	1	3	0	1	1	4	1	3	2	2	3	3	2	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:52484318G>A	uc002egw.2	-	4	720	c.549C>T	c.(547-549)AGC>AGT	p.S183S	TOX3_uc010vgt.1_Silent_p.S178S|TOX3_uc010vgu.1_Silent_p.S183S	NM_001080430	NP_001073899	O15405	TOX3_HUMAN	TOX high mobility group box family member 3	183					apoptosis|negative regulation of neuron apoptosis|positive regulation of anti-apoptosis|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|estrogen response element binding|phosphoprotein binding|protein homodimerization activity				0						CCAACTGGGCGCTGAGCTGAG	0.587													27	122					0	0	0.010818	0	0		A	52484318	A	A	52484318	2	1	11	1	0	0	0	0	0	0	0	1	16405	1078	38	1		1	TOX3	16	52484318	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4256525	52484318	37870435	842	9234											
RPGRIP1L	23322	broad.mit.edu	37	chr16	53682876	53682876	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaagccaaatgagcttacCgactgcatatgctctggccc	11	10	8	12	1	1	1	0	1	1	0	1	2	1	1	3	1	5	3	3	1	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:53682876C>T	uc002ehp.2	-	16	2368	c.2304G>A	c.(2302-2304)TCG>TCA	p.S768S	RPGRIP1L_uc002eho.3_Silent_p.S768S|RPGRIP1L_uc010vgy.1_Silent_p.S768S|RPGRIP1L_uc010cbx.2_Silent_p.S768S|RPGRIP1L_uc010vgz.1_Silent_p.S768S	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	768					negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				ATGAGCTTACCGACTGCATAT	0.353													11	77					0	0	0.010729	0	0		T	53682876	T	T	53682876	2	4	11	1	0	0	0	0	0	0	0	1	13575	666	23	1		1	RPGRIP1L	16	53682876	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1198558	53682876	36671877	843	9235											
MMP2	4313	broad.mit.edu	37	chr16	55513508	55513508	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcatcaagttccccggCgatgtcgcccccaaaacgga	10	6	8	17	4	2	0	2	0	0	0	4	2	3	1	5	2	1	1	5	2	3	1	rs139082366		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:55513508C>T	uc002ehz.3	+	1	428	c.117C>T	c.(115-117)GGC>GGT	p.G39G	MMP2_uc010vhd.1_5'Flank|MMP2_uc010ccc.2_5'Flank	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	39					angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	AGTTCCCCGGCGATGTCGCCC	0.662													5	16					0	0	0.000602	0	0		T	55513508	T	T	55513508	2	4	11	1	0	0	0	0	0	0	0	1	9676	755	27	1		1	MMP2	16	55513508	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1830632	55513508	34841245	844	9236											
CES7	221223	broad.mit.edu	37	chr16	55880490	55880490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtccaaaaatccacccgcGgttctttgagtctctgtccg	7	12	9	13	3	2	1	0	1	2	0	6	1	5	1	4	2	0	1	4	2	2	2	rs142487845	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:55880490G>A	uc002eip.2	-	13	1750	c.1601C>T	c.(1600-1602)CCG>CTG	p.P534L	CES7_uc002eio.2_Missense_Mutation_p.P484L|CES7_uc002eiq.2_Missense_Mutation_p.P295L|CES7_uc002eir.2_Missense_Mutation_p.P428L	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	534						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		ATCCACCCGCGGTTCTTTGAG	0.532													39	201					0	0	0.007835	0	0		A	55880490	A	A	55880490	3	1	11	1	0	0	0	0	1	0	0	0	3275	1116	39	1	130	1	CES7	16	55880490	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	366982	55880490	34474263	845	9237											
CES7	221223	broad.mit.edu	37	chr16	55893464	55893464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agccagaattcttaccatagGcagcaggaagccacactcgt	13	7	9	12	1	1	1	0	0	1	1	2	2	1	2	3	2	4	2	3	2	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:55893464G>A	uc002eip.2	-	8	1200	c.1051C>T	c.(1051-1053)CCT>TCT	p.P351S	CES7_uc002eio.2_Missense_Mutation_p.P351S|CES7_uc002eiq.2_Missense_Mutation_p.P112S|CES7_uc002eir.2_Missense_Mutation_p.P245S	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	351						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		CTTACCATAGGCAGCAGGAAG	0.453													3	15					0	0	0.004672	0	0		A	55893464	A	A	55893464	3	1	11	1	0	0	0	0	1	0	0	0	3275	1203	42	2	700	2	CES7	16	55893464	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	12974	55893464	34461289	846	9238											
NLRC5	84166	broad.mit.edu	37	chr16	57054633	57054633	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggctcctcatggacccCgttggcctccagctcggcaa	5	8	12	16	2	1	0	1	0	0	0	4	1	3	1	5	5	1	5	5	5	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:57054633C>A	uc002ekk.1	+	3	234	c.9C>A	c.(7-9)CCC>CCA	p.P3P	NLRC5_uc010ccq.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	3					defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				TCATGGACCCCGTTGGCCTCC	0.458													11	42					0.00136819	0.00146336	0.013537	1	0		A	57054633	A	A	57054633	2	1	11	1	0	0	0	0	0	0	0	1	10489	639	23	5		5	NLRC5	16	57054633	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1161169	57054633	33300120	847	9239											
DOK4	55715	broad.mit.edu	37	chr16	57507884	57507884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagggtggcactgtggaCgcgctggtaaatctgctccc	6	8	15	12	2	1	0	0	0	1	0	2	1	2	1	2	5	1	4	2	5	2	1	rs146675149		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:57507884C>T	uc010cdb.2	-	6	965	c.667G>A	c.(667-669)GTC>ATC	p.V223I	DOK4_uc002elu.1_Missense_Mutation_p.V223I|DOK4_uc002elv.3_Missense_Mutation_p.V223I	NM_018110	NP_060580	Q8TEW6	DOK4_HUMAN	docking protein 4	223	IRS-type PTB.						insulin receptor binding			skin(1)	1						GCACTGTGGACGCGCTGGTAA	0.597													8	30					0	0	0.001855	0	0		T	57507884	T	T	57507884	3	4	11	1	0	0	0	0	1	0	0	0	4705	536	19	1	325	1	DOK4	16	57507884	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	453251	57507884	32846869	848	9240											
MMP15	4324	broad.mit.edu	37	chr16	58074522	58074522	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaccccaatgccatcaTggcgccgttctaccagtgga	10	7	9	15	2	2	0	1	0	1	0	2	1	2	1	5	2	4	2	5	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:58074522T>C	uc002ena.2	+	5	1803	c.830T>C	c.(829-831)ATG>ACG	p.M277T		NM_002428	NP_002419	P51511	MMP15_HUMAN	matrix metalloproteinase 15 preproprotein	277	Extracellular (Potential).				protein modification process|proteolysis	extracellular matrix|integral to plasma membrane	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|protein binding|zinc ion binding			central_nervous_system(2)|breast(1)	3						AATGCCATCATGGCGCCGTTC	0.607													6	46					0	0	0.00308	0	0		C	58074522	C	C	58074522	3	2	11	1	0	0	0	0	1	0	0	0	9672	1464	51	3	848	3	MMP15	16	58074522	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	566638	58074522	32280231	849	9241											
RANBP10	57610	broad.mit.edu	37	chr16	67763726	67763726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccatctccacaaactgcCggcacctgtggagggagcgg	9	6	12	14	2	2	0	1	0	1	0	3	2	2	2	4	4	3	1	4	4	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:67763726C>T	uc002eud.2	-	9	1120	c.1004G>A	c.(1003-1005)CGG>CAG	p.R335Q	RANBP10_uc010ceo.2_Missense_Mutation_p.R106Q|RANBP10_uc010vju.1_Missense_Mutation_p.R279Q|RANBP10_uc010vjv.1_Missense_Mutation_p.R218Q|RANBP10_uc010vjw.1_5'UTR	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	335	CTLH.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		CACAAACTGCCGGCACCTGTG	0.627													7	91					0	0	0.010729	0	0		T	67763726	T	T	67763726	3	4	11	1	0	0	0	0	1	0	0	0	13051	652	23	1	882	1	RANBP10	16	67763726	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	9689204	67763726	22591027	850	9242											
CIRH1A	84916	broad.mit.edu	37	chr16	69184536	69184536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtgagaagcagtgggtgCggacaaaaccgttccagcat	12	6	14	9	2	0	1	0	1	0	1	1	3	1	2	2	2	4	4	2	2	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:69184536C>T	uc002ews.3	+	7	931	c.835C>T	c.(835-837)CGG>TGG	p.R279W	CIRH1A_uc002ewr.2_Missense_Mutation_p.R279W|CIRH1A_uc002ewt.3_Missense_Mutation_p.R196W|CIRH1A_uc010cfi.2_Missense_Mutation_p.R196W|CIRH1A_uc010cfj.1_Missense_Mutation_p.R98W	NM_032830	NP_116219	Q969X6	CIR1A_HUMAN	cirhin	279						nucleolus	protein binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.125)		GCAGTGGGTGCGGACAAAACC	0.567											OREG0023906	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	94					0	0	0.008871	0	0		T	69184536	T	T	69184536	3	4	11	1	0	0	0	0	1	0	0	0	3437	759	27	1	857	1	CIRH1A	16	69184536	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1420810	69184536	21170217	851	9243											
FUK	197258	broad.mit.edu	37	chr16	70503177	70503177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagcgggttatctgcagagCgcccgggcccagctgtggag	6	7	17	11	3	1	1	0	0	1	1	1	2	1	2	2	3	4	4	2	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:70503177C>T	uc002eyy.2	+	10	964	c.906C>T	c.(904-906)AGC>AGT	p.S302S	FUK_uc010cft.2_Silent_p.S334S|FUK_uc002eyz.2_Intron	NM_145059	NP_659496	Q8N0W3	FUK_HUMAN	fucokinase	302						cytoplasm	ATP binding|fucokinase activity			ovary(1)	1		Ovarian(137;0.0694)				ATCTGCAGAGCGCCCGGGCCC	0.642													5	37					0	0	0.004482	0	0		T	70503177	T	T	70503177	2	4	11	1	0	0	0	0	0	0	0	1	6110	767	27	1		1	FUK	16	70503177	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1318641	70503177	19851576	852	9244											
ZNF23	7571	broad.mit.edu	37	chr16	71483393	71483393	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaataagttgagagtcacAcctaaagggctctactaatt	14	12	8	7	0	2	2	1	2	1	1	2	3	2	2	1	1	1	2	1	1	6	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:71483393A>G	uc002faf.2	-	6	1349	c.535T>C	c.(535-537)TGT>CGT	p.C179R	ZNF23_uc002fad.2_Missense_Mutation_p.C121R|ZNF23_uc002fae.2_Missense_Mutation_p.C121R|ZNF23_uc010vmf.1_Missense_Mutation_p.C121R|ZNF23_uc002fag.2_Missense_Mutation_p.C121R|ZNF23_uc002fah.2_Missense_Mutation_p.C179R|ZNF23_uc002fai.2_Missense_Mutation_p.C218R	NM_145911	NP_666016	P17027	ZNF23_HUMAN	zinc finger protein 23	179	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(137;0.00768)		BRCA - Breast invasive adenocarcinoma(221;0.0686)		TGAGAGTCACACCTAAAGGGC	0.373													14	81					0	0	0.00245	0	0		G	71483393	G	G	71483393	3	3	11	1	0	0	0	0	1	0	0	0	17808	159	6	3	1400	3	ZNF23	16	71483393	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	980216	71483393	18871360	853	9245											
PHLPP2	23035	broad.mit.edu	37	chr16	71712666	71712666	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaataaccttaccttaaatcCacatgcttgatatggttcat	13	14	5	9	0	1	1	1	1	0	0	2	2	2	1	3	1	3	2	3	1	6	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:71712666C>A	uc002fax.2	-	7	1266	c.1260G>T	c.(1258-1260)GTG>GTT	p.V420V	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Silent_p.V420V|PHLPP2_uc002fay.1_Silent_p.V420V	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	420	LRR 8.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						ACCTTAAATCCACATGCTTGA	0.378													10	50					0.000978159	0.0010505	0.010729	1	0		A	71712666	A	A	71712666	2	1	11	1	0	0	0	0	0	0	0	1	11874	581	21	5		5	PHLPP2	16	71712666	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	229273	71712666	18642087	854	9246											
CHST5	23563	broad.mit.edu	37	chr16	75563303	75563303	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccccgacccgtgggtgatgTtgtggatccaggcctcgagc	5	9	14	13	3	0	1	0	1	0	0	3	4	2	2	5	3	1	1	5	3	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:75563303T>G	uc002fei.2	-	3	2375	c.980A>C	c.(979-981)AAC>ACC	p.N327T	CHST5_uc002fej.1_Missense_Mutation_p.N333T	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	327	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						GTGGGTGATGTTGTGGATCCA	0.667													5	36					0	0	0.004482	0	0		G	75563303	G	G	75563303	3	3	11	1	0	0	0	0	1	0	0	0	3410	1725	60	5	259	5	CHST5	16	75563303	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	3850637	75563303	14791450	855	9247											
WWOX	51741	broad.mit.edu	37	chr16	78466617	78466617	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgggtgtacacactgctgTttaccttggcgaggcctttc	5	13	13	10	1	0	0	0	0	0	0	1	1	0	0	2	4	3	3	2	4	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:78466617T>C	uc002ffk.2	+	8	1149	c.1024T>C	c.(1024-1026)TTT>CTT	p.F342L	WWOX_uc010vnk.1_Missense_Mutation_p.F229L|WWOX_uc002ffl.2_Intron|WWOX_uc010che.2_Intron	NM_016373	NP_057457	Q9NZC7	WWOX_HUMAN	WW domain-containing oxidoreductase isoform 1	342	Interaction with MAPT (By similarity).				apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)		CACACTGCTGTTTACCTTGGC	0.552													26	173					0	0	0.009535	0	0		C	78466617	C	C	78466617	3	2	11	1	0	0	0	0	1	0	0	0	17440	1725	60	3	1116	3	WWOX	16	78466617	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2903314	78466617	11888136	856	9248											
BCMO1	53630	broad.mit.edu	37	chr16	81303868	81303868	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaacgcctacgaagaggaCggctgcatcgtgtttgacgt	9	9	13	10	5	1	2	1	1	0	1	2	4	1	3	1	2	3	3	1	2	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:81303868C>T	uc002fgn.1	+	7	1166	c.948C>T	c.(946-948)GAC>GAT	p.D316D	BCMO1_uc010vnp.1_Silent_p.D247D	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	316					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						ACGAAGAGGACGGCTGCATCG	0.537													16	69					0	0	0.010504	0	0		T	81303868	T	T	81303868	2	4	11	1	0	0	0	0	0	0	0	1	1385	535	19	1		1	BCMO1	16	81303868	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2837251	81303868	9050885	857	9249											
KIAA1609	57707	broad.mit.edu	37	chr16	84520637	84520637	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggtcacagtcatagtccagCcactggggccccagaagtct	9	7	11	14	1	3	1	2	0	1	1	4	1	4	1	4	3	1	0	4	3	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:84520637C>T	uc002fib.2	-	5	665	c.558G>A	c.(556-558)TGG>TGA	p.W186*	KIAA1609_uc010vod.1_Nonsense_Mutation_p.W159*|KIAA1609_uc002fic.2_RNA	NM_020947	NP_065998	Q6P9B6	K1609_HUMAN	hypothetical protein LOC57707	186							protein binding			ovary(2)	2						CATAGTCCAGCCACTGGGGCC	0.517													8	39					0	0	0.010729	0	0		T	84520637	T	T	84520637	4	4	11	1	0	0	0	0	0	1	0	0	8263	740	26	2	828	2	KIAA1609	16	84520637	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3216769	84520637	5834116	858	9250											
ZCCHC14	23174	broad.mit.edu	37	chr16	87446254	87446254	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatcatggcgctgccaaaGctcttgtccactttcatgct	7	13	7	14	1	3	0	2	0	1	0	5	0	5	0	3	1	3	3	3	1	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:87446254G>T	uc002fjz.1	-	12	1689	c.1662C>A	c.(1660-1662)AGC>AGA	p.S554R	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Missense_Mutation_p.S330R	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	554					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		CGCTGCCAAAGCTCTTGTCCA	0.557													12	84					3.07112e-06	3.40743e-06	0.010729	1	0		T	87446254	T	T	87446254	3	4	11	1	0	0	0	0	1	0	0	0	17608	962	34	5	1195	5	ZCCHC14	16	87446254	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2925617	87446254	2908499	859	9251											
C16orf7	9605	broad.mit.edu	37	chr16	89774889	89774889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgacaccagctgagggaggCcgctcctcagcaccacgaag	10	3	12	16	3	1	1	1	1	0	0	2	4	2	2	5	2	2	3	5	2	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:89774889C>T	uc002fom.1	-	14	1873	c.1748G>A	c.(1747-1749)GGC>GAC	p.G583D	C16orf7_uc002fol.1_Missense_Mutation_p.G513D	NM_004913	NP_004904	Q9Y2B5	CP007_HUMAN	chromosome 16 open reading frame 7	583	VPS9.				ATP synthesis coupled proton transport		GTPase activator activity|transporter activity				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		CTGAGGGAGGCCGCTCCTCAG	0.672													4	11					0	0	0.000602	0	0		T	89774889	T	T	89774889	3	4	11	1	0	0	0	0	1	0	0	0	1831	739	26	2	155	2	C16orf7	16	89774889	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2328635	89774889	579864	860	9252											
TUBB3	10381	broad.mit.edu	37	chr16	89986504	89986504	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggctgcatcttcaagaacTtcaacctctttctcgccctc	7	12	6	16	2	5	1	2	0	3	1	7	1	5	1	2	1	3	2	2	1	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr16:89986504T>C	uc002fpf.2	+	1	1246	c.838T>C	c.(838-840)TTC>CTC	p.F280L	MC1R_uc002fpe.3_Missense_Mutation_p.F280L|TUBB3_uc010ciz.1_5'Flank	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	Error:Variant_position_missing_in_Q13509_after_alignment					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		CTTCAAGAACTTCAACCTCTT	0.587													16	49					0	0	0.006122	0	0		C	89986504	C	C	89986504	3	2	11	1	0	0	0	0	1	0	0	0	16783	1609	56	3		3	TUBB3	16	89986504	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	211615	89986504	368249	861	9253											
NXN	64359	broad.mit.edu	37	chr17	725693	725693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtgaggcttcggcagggcGgacactgaaagacaggacag	11	4	18	8	2	0	3	0	2	0	1	1	5	0	5	0	6	0	2	0	6	1	1	rs139124108		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:725693G>A	uc002fsa.2	-	4	709	c.617C>T	c.(616-618)CCG>CTG	p.P206L	NXN_uc002fsb.1_Missense_Mutation_p.P93L|NXN_uc010vqd.1_5'UTR|NXN_uc002frz.2_5'UTR|NXN_uc010vqe.1_Missense_Mutation_p.P98L	NM_022463	NP_071908	Q6DKJ4	NXN_HUMAN	nucleoredoxin	206	Thioredoxin.				cell differentiation|cell redox homeostasis|multicellular organismal development|Wnt receptor signaling pathway	cytosol|nucleus	protein-disulfide reductase activity			ovary(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (25;0.0237)		TCGGCAGGGCGGACACTGAAA	0.592													3	24					0	0	0.009096	0	0		A	725693	A	A	725693	3	1	11	1	0	0	0	0	1	0	0	0	10806	1116	39	1	710	1	NXN	17	725693	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08		725693	80469517	862	9254											
PRPF8	10594	broad.mit.edu	37	chr17	1581900	1581900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgtatcgatacatgcccGtcaactgcccaacatgggca	11	10	8	12	2	1	0	1	0	0	0	2	1	1	0	2	1	5	2	2	1	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:1581900G>A	uc002fte.2	-	13	1880	c.1766C>T	c.(1765-1767)ACG>ATG	p.T589M		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	589						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		ATACATGCCCGTCAACTGCCC	0.478													21	101					0	0	0.010504	0	0		A	1581900	A	A	1581900	3	1	11	1	0	0	0	0	1	0	0	0	12597	1145	40	1	5365	1	PRPF8	17	1581900	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	856207	1581900	79613310	863	9255											
SMG6	23293	broad.mit.edu	37	chr17	2203279	2203279	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgagctggtgctgcgCgtgcggtagcgattccttcg	4	10	15	12	5	0	1	0	1	0	0	2	2	1	1	2	2	6	4	2	2	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:2203279C>T	uc002fub.1	-	2	823	c.768G>A	c.(766-768)ACG>ACA	p.T256T	SMG6_uc002fud.1_Silent_p.T225T	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	256	Interaction with telomeric DNA.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						TGGTGCTGCGCGTGCGGTAGC	0.662													11	37					0	0	0.010729	0	0		T	2203279	T	T	2203279	2	4	11	1	0	0	0	0	0	0	0	1	14822	755	27	1		1	SMG6	17	2203279	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	621379	2203279	78991931	864	9256											
AIPL1	23746	broad.mit.edu	37	chr17	6328975	6328975	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcatgttccggcagcgcagCcgctcctcctcctgcttctc	4	10	9	18	3	1	0	0	0	1	0	6	0	5	0	5	1	4	6	5	1	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:6328975C>T	uc002gcp.2	-	6	1055	c.960G>A	c.(958-960)CGG>CGA	p.R320R	AIPL1_uc002gcq.2_Silent_p.R260R|AIPL1_uc002gcr.2_Silent_p.R257R|AIPL1_uc010clk.2_Silent_p.R298R|AIPL1_uc010cll.2_Silent_p.R296R|AIPL1_uc002gcs.2_3'UTR	NM_014336	NP_055151	Q9NZN9	AIPL1_HUMAN	aryl hydrocarbon receptor interacting	320					protein farnesylation|protein folding|visual perception	cytoplasm|nucleus	farnesylated protein binding|unfolded protein binding				0				COAD - Colon adenocarcinoma(228;0.141)		GGCAGCGCAGCCGCTCCTCCT	0.458													3	14					0	0	0.000602	0	0		T	6328975	T	T	6328975	2	4	11	1	0	0	0	0	0	0	0	1	436	726	26	2		2	AIPL1	17	6328975	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4125696	6328975	74866235	865	9257											
ASGR1	432	broad.mit.edu	37	chr17	7077743	7077743	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggctccgcaggtcagacAcgaactgcttcacgtggagc	9	7	12	13	3	3	1	3	0	0	1	4	3	4	2	1	3	3	3	1	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:7077743A>G	uc002ges.3	-	6	802	c.392T>C	c.(391-393)GTG>GCG	p.V131A	ASGR1_uc010clx.1_Missense_Mutation_p.V30A	NM_001671	NP_001662	P07306	ASGR1_HUMAN	asialoglycoprotein receptor 1	131	Extracellular (Probable).				receptor-mediated endocytosis	integral to plasma membrane	asialoglycoprotein receptor activity|metal ion binding|sugar binding			breast(1)|central_nervous_system(1)	2						CAGGTCAGACACGAACTGCTT	0.667													4	8					0	0	0.001984	0	0		G	7077743	G	G	7077743	3	3	11	1	0	0	0	0	1	0	0	0	1040	159	6	3	499	3	ASGR1	17	7077743	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	748768	7077743	74117467	866	9258											
NEURL4	84461	broad.mit.edu	37	chr17	7230998	7230998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagctccccagcaactgtgCgctccacgcccacgcggtcc	7	5	10	19	4	0	0	0	0	0	0	3	1	3	0	5	1	4	3	5	1	2	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:7230998C>T	uc002gga.1	-	2	495	c.488G>A	c.(487-489)CGC>CAC	p.R163H	NEURL4_uc002ggb.1_Missense_Mutation_p.R163H|NEURL4_uc002ggc.1_5'Flank	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	163	NHR 1.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						AGCAACTGTGCGCTCCACGCC	0.642													5	47					0	0	0.001984	0	0		T	7230998	T	T	7230998	3	4	11	1	0	0	0	0	1	0	0	0	10366	768	27	1	4312	1	NEURL4	17	7230998	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	153255	7230998	73964212	867	9259											
TP53	7157	broad.mit.edu	37	chr17	7577121	7577121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaggacaggcacaaacacGcacctcaaagctgttccgtc	12	5	8	16	2	1	0	1	0	0	0	3	1	2	1	3	2	2	4	3	2	2	1	rs121913343		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:7577121G>A	uc002gim.2	-	8	1011	c.817C>T	c.(817-819)CGT>TGT	p.R273C	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141C|TP53_uc010cng.1_Missense_Mutation_p.R141C|TP53_uc002gii.1_Missense_Mutation_p.R141C|TP53_uc010cnh.1_Missense_Mutation_p.R273C|TP53_uc010cni.1_Missense_Mutation_p.R273C|TP53_uc002gij.2_Missense_Mutation_p.R273C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(467)|p.R273C(396)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.F270fs*72(1)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCACAAACACGCACCTCAAAG	0.542	R273C(SH10TC_STOMACH)|R273C(SUDHL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(8MGBA_CENTRAL_NERVOUS_SYSTEM)|R273C(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273C(BL70_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(SW1710_URINARY_TRACT)|R273C(RH30_SOFT_TISSUE)|R273C(PANC0213_PANCREAS)|R273C(SJRH30_SOFT_TISSUE)|R273C(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(RDES_BONE)|R273C(TT2609C02_THYROID)|R273C(MFE319_ENDOMETRIUM)|R273C(RPMI8402_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(EFO27_OVARY)|R273C(NCIH1048_LUNG)|R273C(KARPAS299_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			6	26					0	0	0.001984	0	0		A	7577121	A	A	7577121	3	1	11	1	0	0	0	0	1	0	0	0	16407	1087	38	1	469	1	TP53	17	7577121	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	346123	7577121	73618089	868	9260											
NTN1	9423	broad.mit.edu	37	chr17	9066235	9066235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcaactgtcgccacaacaCcgccggccgccactgccatt	8	6	7	20	4	1	0	1	0	0	0	2	0	1	0	7	1	3	0	7	1	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:9066235C>T	uc002glw.3	+	3	1231	c.1124C>T	c.(1123-1125)ACC>ATC	p.T375I		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	375	Laminin EGF-like 2.				apoptosis|axon guidance		protein binding				0						CGCCACAACACCGCCGGCCGC	0.632													3	8					0	0	0.004672	0	0		T	9066235	T	T	9066235	3	4	11	1	0	0	0	0	1	0	0	0	10719	507	18	4	1130	4	NTN1	17	9066235	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1489114	9066235	72128975	869	9261											
NCOR1	9611	broad.mit.edu	37	chr17	16049688	16049688	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattaaacatcaaactactcAccgctgaaatctttcttgct	13	13	3	12	1	4	1	2	1	2	0	4	1	4	1	1	0	4	2	1	0	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:16049688A>G	uc002gpo.2	-	10	1322	c.1082_splice	c.e10+1	p.R361_splice	NCOR1_uc002gpn.2_Splice_Site_p.R361_splice|NCOR1_uc002gpp.1_Splice_Site_p.R252_splice|NCOR1_uc002gpr.2_Splice_Site_p.R252_splice|NCOR1_uc002gps.1_Splice_Site_p.R370_splice|NCOR1_uc010coz.1_Splice_Site_p.R177_splice|NCOR1_uc010cpb.1_Splice_Site_p.R370_splice|NCOR1_uc010cpa.1_Splice_Site_p.R361_splice	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1						cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CAAACTACTCACCGCTGAAAT	0.259													13	80					0	0	0.00245	0	0		G	16049688	G	G	16049688	5	3	11	1	0	0	0	0	0	0	1	0	10254	173	6	3	6386	3	NCOR1	17	16049688	Splice_Site	SNP	A	TCGA-BR-4256-01A-01D-1126-08	6983453	16049688	65145522	870	9262											
RAI1	10743	broad.mit.edu	37	chr17	17697546	17697546	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccctgagaacctgctgtcGgatctcagcctgcagagcct	7	9	10	15	1	1	2	1	1	1	2	4	4	2	3	4	1	5	2	4	1	1	0	rs113249215		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:17697546G>A	uc002grm.2	+	3	1753	c.1284G>A	c.(1282-1284)TCG>TCA	p.S428S	RAI1_uc002grn.1_Silent_p.S428S	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	428						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		ACCTGCTGTCGGATCTCAGCC	0.612													4	100					0	0	0.009096	0	0		A	17697546	A	A	17697546	2	1	11	1	0	0	0	0	0	0	0	1	13032	1103	39	1		1	RAI1	17	17697546	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1647858	17697546	63497664	871	9263											
SREBF1	6720	broad.mit.edu	37	chr17	17721064	17721064	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtcactgccactgccaccGctgccactgcccctgctgcc	5	7	9	20	1	1	0	1	0	0	0	1	1	1	0	7	0	6	2	7	0	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:17721064G>A	uc002gru.1	-	7	1544	c.1350C>T	c.(1348-1350)AGC>AGT	p.S450S	SREBF1_uc002grp.1_Missense_Mutation_p.A20V|SREBF1_uc002grq.1_5'UTR|SREBF1_uc002grr.1_Silent_p.S196S|SREBF1_uc002grs.1_Silent_p.S426S|SREBF1_uc002grt.1_Silent_p.S480S|SREBF1_uc010cpp.1_Silent_p.S426S|SREBF1_uc010cpq.1_Silent_p.S450S	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	450	Gly/Pro/Ser-rich.|Cytoplasmic (Potential).|Interaction with LMNA (By similarity).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						CACTGCCACCGCTGCCACTGC	0.647													5	19					0	0	0.001168	0	0		A	17721064	A	A	17721064	2	1	11	1	0	0	0	0	0	0	0	1	15166	1078	38	1		1	SREBF1	17	17721064	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	23518	17721064	63474146	872	9264											
TOM1L2	146691	broad.mit.edu	37	chr17	17754256	17754256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtccatgacagatggctgcGcaacggggatctatggaggc	9	7	15	10	3	1	2	0	1	1	1	2	4	2	4	1	5	2	2	1	5	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:17754256G>A	uc002grz.3	-	13	1446	c.1289C>T	c.(1288-1290)GCG>GTG	p.A430V	TOM1L2_uc002gry.3_Missense_Mutation_p.A380V|TOM1L2_uc010vwy.1_Missense_Mutation_p.A406V|TOM1L2_uc010cpr.2_Missense_Mutation_p.A385V|TOM1L2_uc010vwz.1_Missense_Mutation_p.A311V|TOM1L2_uc010vxa.1_Intron|TOM1L2_uc002grv.3_Missense_Mutation_p.A163V	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	430					intracellular protein transport	intracellular					0	all_neural(463;0.228)					AGATGGCTGCGCAACGGGGAT	0.587													16	50					0	0	0.003954	0	0		A	17754256	A	A	17754256	3	1	11	1	0	0	0	0	1	0	0	0	16378	1087	38	1	246	1	TOM1L2	17	17754256	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	33192	17754256	63440954	873	9265											
CYTSB	92521	broad.mit.edu	37	chr17	20108736	20108736	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatgaagagcccaccacTcaggaaggaaaaattattga	19	6	9	7	0	1	4	1	2	0	2	1	6	1	6	2	2	1	0	2	2	7	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:20108736T>C	uc002gwq.2	+	4	1519	c.1374T>C	c.(1372-1374)ACT>ACC	p.T458T	CYTSB_uc010cqx.2_Silent_p.T458T|CYTSB_uc002gwr.2_Silent_p.T458T|CYTSB_uc002gws.2_Silent_p.T458T|CYTSB_uc002gwv.2_Silent_p.T377T|CYTSB_uc010vzf.1_Intron|CYTSB_uc002gww.2_Silent_p.T234T|CYTSB_uc002gwt.2_Silent_p.T377T|CYTSB_uc002gwu.2_Silent_p.T377T	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	458						nucleus					0						AGCCCACCACTCAGGAAGGAA	0.443													17	142					0	0	0.007413	0	0		C	20108736	C	C	20108736	2	2	11	1	0	0	0	0	0	0	0	1	4213	1538	54	3		3	CYTSB	17	20108736	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2354480	20108736	61086474	874	9266											
KCNJ12	3768	broad.mit.edu	37	chr17	21318878	21318878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgacatgttcaccacctGtgtggacatccgctggcggt	6	10	13	12	2	1	1	1	1	0	0	2	2	2	2	3	4	0	3	3	4	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:21318878G>A	uc002gyv.1	+	3	929	c.224G>A	c.(223-225)TGT>TAT	p.C75Y		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	75	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	TTCACCACCTGTGTGGACATC	0.572										Prostate(3;0.18)			4	58					0	0	0.000602	0	0		A	21318878	A	A	21318878	3	1	11	1	0	0	0	0	1	0	0	0	8062	1377	48	4	226	4	KCNJ12	17	21318878	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1210142	21318878	59876332	875	9267											
SLC13A2	9058	broad.mit.edu	37	chr17	26821104	26821104	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcataccctccaagttcccAgggctgacccaggacccagg	10	6	9	16	0	1	1	1	1	0	0	3	2	3	2	5	3	1	2	5	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:26821104A>G	uc002hbh.2	+	8	1234	c.1167A>G	c.(1165-1167)CCA>CCG	p.P389P	SLC13A2_uc010wal.1_3'UTR|SLC13A2_uc010wam.1_Silent_p.P345P|SLC13A2_uc010wan.1_Silent_p.P438P|SLC13A2_uc010wao.1_Silent_p.P346P|SLC13A2_uc002hbi.2_Silent_p.P318P	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	389	Helical; (Potential).					integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	CCAAGTTCCCAGGGCTGACCC	0.557													7	44					0	0	0.001984	0	0		G	26821104	G	G	26821104	2	3	11	1	0	0	0	0	0	0	0	1	14417	175	7	3		3	SLC13A2	17	26821104	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	5502226	26821104	54374106	876	9268											
MYO18A	399687	broad.mit.edu	37	chr17	27421841	27421841	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagacacaaccttctgggTgaaccctgcaatgtccatgt	11	10	9	11	0	1	2	0	1	1	1	2	3	2	2	3	1	3	1	3	1	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:27421841T>C	uc002hdt.1	-	30	4695	c.4537A>G	c.(4537-4539)ACC>GCC	p.T1513A	MYO18A_uc010wbc.1_Missense_Mutation_p.T1055A|MYO18A_uc002hds.2_Missense_Mutation_p.T1055A|MYO18A_uc010csa.1_Missense_Mutation_p.T1513A|MYO18A_uc002hdu.1_Missense_Mutation_p.T1513A	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	1513	Potential.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			ACCTTCTGGGTGAACCCTGCA	0.552													24	86					0	0	0.00333	0	0		C	27421841	C	C	27421841	3	2	11	1	0	0	0	0	1	0	0	0	10083	1696	59	3	1679	3	MYO18A	17	27421841	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	600737	27421841	53773369	877	9269											
NF1	4763	broad.mit.edu	37	chr17	29677318	29677318	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatacatatcccattcatcAtggtgacccttcctataggt	10	13	7	11	0	2	1	2	1	0	0	4	2	4	2	3	3	1	0	3	3	4	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:29677318A>G	uc002hgg.2	+	50	7772	c.7439A>G	c.(7438-7440)CAT>CGT	p.H2480R	NF1_uc002hgh.2_Missense_Mutation_p.H2459R|NF1_uc010cso.2_Missense_Mutation_p.H668R|NF1_uc010wbt.1_Missense_Mutation_p.M11V|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2480					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		CCCATTCATCATGGTGACCCT	0.363			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			11	63					0	0	0.013537	0	0		G	29677318	G	G	29677318	3	3	11	1	0	0	0	0	1	0	0	0	10375	217	8	3	7698	3	NF1	17	29677318	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	2255477	29677318	51517892	878	9270											
CDK5R1	8851	broad.mit.edu	37	chr17	30815316	30815316	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgagctccaggccgtcctGctgacatgcctgtacctctc	6	9	9	17	2	1	1	0	1	1	0	4	2	3	1	5	1	4	3	5	1	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:30815316G>A	uc002hhn.2	+	2	899	c.678G>A	c.(676-678)CTG>CTA	p.L226L	CDK5R1_uc010wca.1_Silent_p.L226L|CDK5R1_uc010ctc.2_5'UTR	NM_003885	NP_003876	Q15078	CD5R1_HUMAN	cyclin-dependent kinase 5, regulatory subunit 1	226					axon guidance|axonal fasciculation|brain development|cell proliferation|embryo development|ionotropic glutamate receptor signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of transcription, DNA-dependent|neuron cell-cell adhesion|neuron migration|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of neuron apoptosis|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation	axon|contractile fiber|cyclin-dependent protein kinase 5 holoenzyme complex|cytosol|dendritic spine|growth cone|neuromuscular junction|neuronal cell body|perinuclear region of cytoplasm|plasma membrane	cadherin binding|calcium ion binding|protein kinase binding			ovary(1)	1		Breast(31;0.159)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.0938)			AGGCCGTCCTGCTGACATGCC	0.597													31	132					0	0	0.013726	0	0		A	30815316	A	A	30815316	2	1	11	1	0	0	0	0	0	0	0	1	3146	1306	46	2		2	CDK5R1	17	30815316	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1137998	30815316	50379894	879	9271											
SPACA3	124912	broad.mit.edu	37	chr17	31324543	31324543	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcagggtctgggttactggTaagtaacttgggctggagcc	7	11	15	8	0	2	0	1	0	1	0	2	1	2	1	1	5	3	4	1	5	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:31324543T>C	uc002hhs.1	+	4	656	c.581_splice	c.e4+2	p.W194_splice	SPACA3_uc010cte.1_Splice_Site	NM_173847	NP_776246	Q8IXA5	SACA3_HUMAN	sperm acrosome associated 3						cell wall macromolecule catabolic process|defense response to Gram-positive bacterium|monocyte activation|peptidoglycan catabolic process|positive regulation of macrophage activation|positive regulation of phagocytosis|response to virus	acrosomal membrane|extracellular region|integral to membrane|lysosome	bacterial cell surface binding|lysozyme activity|protein binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.193)			GGGTTACTGGTAAGTAACTTG	0.512													16	92					0	0	0.00499	0	0		C	31324543	C	C	31324543	5	2	11	1	0	0	0	0	0	0	1	0	14998	1652	57	3	597	3	SPACA3	17	31324543	Splice_Site	SNP	T	TCGA-BR-4256-01A-01D-1126-08	509227	31324543	49870667	880	9272											
LIG3	3980	broad.mit.edu	37	chr17	33313055	33313055	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaagaaagctgttgtccAggctaagttgacaaccactg	15	8	10	8	0	0	3	0	1	0	2	1	3	1	3	2	1	2	4	2	1	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:33313055A>G	uc002hik.1	+	3	704	c.596A>G	c.(595-597)CAG>CGG	p.Q199R	LIG3_uc002hii.2_Missense_Mutation_p.Q199R|LIG3_uc002hij.2_Missense_Mutation_p.Q199R|LIG3_uc010cth.1_Missense_Mutation_p.Q208R	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	199					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	GCTGTTGTCCAGGCTAAGTTG	0.453								Other_BER_factors					15	98					0	0	0.003163	0	0		G	33313055	G	G	33313055	3	3	11	1	0	0	0	0	1	0	0	0	8798	188	7	3	602	3	LIG3	17	33313055	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1988512	33313055	47882155	881	9273											
MMP28	79148	broad.mit.edu	37	chr17	34095306	34095306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggccctgcgtttcagggcGccttccttgggggctgtagg	3	10	17	11	2	1	0	1	0	0	0	2	0	2	0	3	5	1	3	3	5	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:34095306G>A	uc002hjy.1	-	8	1202	c.943C>T	c.(943-945)CGC>TGC	p.R315C	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	315					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GTTTCAGGGCGCCTTCCTTGG	0.562													16	22					0	0	0.004007	0	0		A	34095306	A	A	34095306	3	1	11	1	0	0	0	0	1	0	0	0	9683	1087	38	1	631	1	MMP28	17	34095306	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	782251	34095306	47099904	882	9274											
FBXL20	84961	broad.mit.edu	37	chr17	37455302	37455302	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttaactttcgtaaaaagccCccacatcgttttgaaatatt	13	14	4	10	2	0	1	0	1	0	0	2	1	0	1	2	0	2	2	2	0	6	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:37455302C>T	uc010wed.1	-	5	491	c.270G>A	c.(268-270)GGG>GGA	p.G90G	FBXL20_uc002hrt.2_Silent_p.G90G|FBXL20_uc010cvu.2_Silent_p.G90G	NM_032875	NP_116264	Q96IG2	FXL20_HUMAN	F-box and leucine-rich repeat protein 20	90	LRR 1.					cytoplasm				ovary(1)	1			LUAD - Lung adenocarcinoma(14;0.146)			GTAAAAAGCCCCCACATCGTT	0.373													8	64					0	0	0.006214	0	0		T	37455302	T	T	37455302	2	4	11	1	0	0	0	0	0	0	0	1	5731	610	22	4		4	FBXL20	17	37455302	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3359996	37455302	43739908	883	9275											
MED24	9862	broad.mit.edu	37	chr17	38191589	38191589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtccgatgcattcctctgCtttgccgtgacagctacagg	7	11	10	13	2	1	1	0	1	1	0	3	2	3	1	3	1	5	3	3	1	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:38191589C>T	uc002htt.2	-	6	653	c.340G>A	c.(340-342)GCA>ACA	p.A114T	MED24_uc010wes.1_5'UTR|MED24_uc010wet.1_RNA|MED24_uc002hts.2_Missense_Mutation_p.A139T|MED24_uc002htu.2_Missense_Mutation_p.A101T|MED24_uc010cwn.2_Missense_Mutation_p.A101T|MED24_uc010weu.1_Missense_Mutation_p.A24T|MED24_uc010wev.1_Missense_Mutation_p.A64T|MED24_uc010wew.1_Missense_Mutation_p.A43T|MED24_uc010wex.1_Intron|MED24_uc010wez.1_5'Flank|MED24_uc010wfa.1_Missense_Mutation_p.A64T|MED24_uc010wfb.1_Missense_Mutation_p.A126T|MED24_uc010wfc.1_Missense_Mutation_p.A51T	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	114					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)					CATTCCTCTGCTTTGCCGTGA	0.597											OREG0024387	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	22					0	0	0.00308	0	0		T	38191589	T	T	38191589	3	4	11	1	0	0	0	0	1	0	0	0	9460	797	28	2	2713	2	MED24	17	38191589	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	736287	38191589	43003621	884	9276											
TOP2A	7153	broad.mit.edu	37	chr17	38562635	38562635	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taaaatacaactcaaacctaCcaggctgatagcagcatcat	17	8	5	11	0	2	1	2	1	0	0	2	1	2	1	2	1	6	3	2	1	7	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:38562635C>T	uc002huq.2	-	16	2079	c.1953_splice	c.e16+1	p.L651_splice		NM_001067	NP_001058	P11388	TOP2A_HUMAN	DNA topoisomerase II, alpha isozyme						apoptotic chromosome condensation|DNA ligation|DNA repair|DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|phosphatidylinositol-mediated signaling|positive regulation of apoptosis|positive regulation of retroviral genome replication|resolution of meiotic recombination intermediates|sister chromatid segregation	cytoplasm|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|drug binding|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity|ubiquitin binding			ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00183)		Amsacrine(DB00276)|Ciprofloxacin(DB00537)|Dexrazoxane(DB00380)|Doxorubicin(DB00997)|Enoxacin(DB00467)|Epirubicin(DB00445)|Etoposide(DB00773)|Fleroxacin(DB04576)|Gatifloxacin(DB01044)|Idarubicin(DB01177)|Levofloxacin(DB01137)|Lomefloxacin(DB00978)|Lucanthone(DB04967)|Mitoxantrone(DB01204)|Moxifloxacin(DB00218)|Norfloxacin(DB01059)|Ofloxacin(DB01165)|Pefloxacin(DB00487)|Podofilox(DB01179)|Sparfloxacin(DB01208)|Teniposide(DB00444)|Trovafloxacin(DB00685)|Valrubicin(DB00385)	CTCAAACCTACCAGGCTGATA	0.328													4	22					0	0	0.000602	0	0		T	38562635	T	T	38562635	5	4	11	1	0	0	0	0	0	0	1	0	16391	521	18	4	2721	4	TOP2A	17	38562635	Splice_Site	SNP	C	TCGA-BR-4256-01A-01D-1126-08	371046	38562635	42632575	885	9277											
GAST	2520	broad.mit.edu	37	chr17	39871806	39871806	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttaggtacaggggccaacAgggacctggagctaccctgg	9	6	14	12	0	0	0	0	0	0	0	0	2	0	2	4	6	4	2	4	6	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:39871806A>G	uc002hxl.2	+	2	150	c.118A>G	c.(118-120)AGG>GGG	p.R40G	JUP_uc010wfs.1_Intron	NM_000805	NP_000796	P01350	GAST_HUMAN	gastrin preproprotein	40		Cleavage.				extracellular region	hormone activity				0		Breast(137;0.000307)	BRCA - Breast invasive adenocarcinoma(4;0.0677)			AGGGGCCAACAGGGACCTGGA	0.632													14	58					0	0	0.008871	0	0		G	39871806	G	G	39871806	3	3	11	1	0	0	0	0	1	0	0	0	6267	179	7	3	120	3	GAST	17	39871806	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1309171	39871806	41323404	886	9278											
JUP	3728	broad.mit.edu	37	chr17	39925443	39925443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggttcacaatcatggccGccttggtcaccaccacctgg	7	9	10	15	1	3	0	3	0	0	0	3	0	3	0	5	4	0	2	5	4	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:39925443G>A	uc002hxq.2	-	4	762	c.485C>T	c.(484-486)GCG>GTG	p.A162V	JUP_uc010wfs.1_Missense_Mutation_p.A162V|JUP_uc002hxr.2_Missense_Mutation_p.A162V|JUP_uc002hxs.2_Missense_Mutation_p.A162V	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	162	ARM 1.				adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		AATCATGGCCGCCTTGGTCAC	0.657													5	17					0	0	0.000602	0	0		A	39925443	A	A	39925443	3	1	11	1	0	0	0	0	1	0	0	0	7988	1087	38	1	1796	1	JUP	17	39925443	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	53637	39925443	41269767	887	9279											
FKBP10	60681	broad.mit.edu	37	chr17	39975515	39975515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgtcctcctgattgacGtgcacaacccgaaggacgct	9	9	9	14	4	1	2	1	2	0	0	3	4	3	3	3	1	2	2	3	1	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:39975515G>A	uc002hxv.2	+	5	1106	c.781G>A	c.(781-783)GTG>ATG	p.V261M	FKBP10_uc002hxw.1_Translation_Start_Site	NM_021939	NP_068758	Q96AY3	FKB10_HUMAN	FK506 binding protein 10 precursor	261	PPIase FKBP-type 2.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Breast(137;0.00122)		BRCA - Breast invasive adenocarcinoma(366;0.148)		CCTGATTGACGTGCACAACCC	0.617													12	54					0	0	0.00245	0	0		A	39975515	A	A	39975515	3	1	11	1	0	0	0	0	1	0	0	0	5916	1145	40	1	799	1	FKBP10	17	39975515	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	50072	39975515	41219695	888	9280											
CNTNAP1	8506	broad.mit.edu	37	chr17	40849679	40849679	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccctcaagacccacttcCgaacccctcgacccatgact	9	7	4	21	2	1	2	1	1	0	1	4	4	3	2	7	0	1	0	7	0	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:40849679C>T	uc002iay.2	+	22	3892	c.3676C>T	c.(3676-3678)CGA>TGA	p.R1226*	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	1226	Laminin G-like 4.|Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		GACCCACTTCCGAACCCCTCG	0.552													23	88					0	0	0.005443	0	0		T	40849679	T	T	40849679	4	4	11	1	0	0	0	0	0	1	0	0	3649	644	23	1	3762	1	CNTNAP1	17	40849679	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	874164	40849679	40345531	889	9281											
DHX8	1659	broad.mit.edu	37	chr17	41570257	41570257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaaagaccggaaggacCgggacaaatatggagagcgg	14	2	14	11	3	0	2	0	0	0	2	0	6	0	5	4	5	1	0	4	5	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:41570257C>T	uc002idu.1	+	6	785	c.712C>T	c.(712-714)CGG>TGG	p.R238W	DHX8_uc010wif.1_Missense_Mutation_p.R147W|DHX8_uc010wig.1_Missense_Mutation_p.R238W	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	238						catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		CCGGAAGGACCGGGACAAATA	0.542													24	148					0	0	0.005443	0	0		T	41570257	T	T	41570257	3	4	11	1	0	0	0	0	1	0	0	0	4521	643	23	1	734	1	DHX8	17	41570257	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	720578	41570257	39624953	890	9282											
PYY	5697	broad.mit.edu	37	chr17	42030346	42030346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accacaggtctgggccctccGacctgcggaagcgaagggga	9	4	15	13	3	1	0	0	0	1	0	2	4	2	2	4	5	2	0	4	5	2	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:42030346G>A	uc002ieq.2	-	7	813	c.272C>T	c.(271-273)TCG>TTG	p.S91L	PYY_uc002ier.1_3'UTR	NM_004160	NP_004151	P10082	PYY_HUMAN	peptide YY precursor	91					cell proliferation|cell-cell signaling|cellular component movement|cytoskeleton organization|digestion|G-protein coupled receptor protein signaling pathway	soluble fraction					0		Breast(137;0.00314)|Prostate(33;0.0724)		BRCA - Breast invasive adenocarcinoma(366;0.12)		TGGGCCCTCCGACCTGCGGAA	0.642													6	20					0	0	0.001984	0	0		A	42030346	A	A	42030346	3	1	11	1	0	0	0	0	1	0	0	0	12893	1059	37	1	25	1	PYY	17	42030346	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	460089	42030346	39164864	891	9283											
FMNL1	752	broad.mit.edu	37	chr17	43322710	43322710	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcggcaggatgactgcaTggtgctcaaggagttcctga	8	10	15	8	1	1	2	1	2	0	0	2	4	2	4	1	4	3	4	1	4	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:43322710T>C	uc002iin.2	+	22	3019	c.2819T>C	c.(2818-2820)ATG>ACG	p.M940T	FMNL1_uc002iiq.2_Missense_Mutation_p.M518T|FMNL1_uc010dag.2_RNA|LOC100133991_uc010dah.2_5'Flank	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	940	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						GATGACTGCATGGTGCTCAAG	0.637													10	68					0	0	0.006214	0	0		C	43322710	C	C	43322710	3	2	11	1	0	0	0	0	1	0	0	0	5965	1464	51	3	2905	3	FMNL1	17	43322710	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	1292364	43322710	37872500	892	9284											
KPNB1	3837	broad.mit.edu	37	chr17	45734321	45734321	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagatcccagtaaaccagtgGccagaactcattcctcagct	12	8	8	13	0	2	2	2	0	0	2	4	3	4	2	4	1	3	2	4	1	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:45734321G>A	uc002ilt.1	+	4	714	c.378G>A	c.(376-378)TGG>TGA	p.W126*	KPNB1_uc010wkw.1_5'UTR|KPNB1_uc010wkx.1_5'UTR	NM_002265	NP_002256	Q14974	IMB1_HUMAN	karyopherin beta 1	126	HEAT 1.				DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|protein import into nucleus, translocation|ribosomal protein import into nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein domain specific binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TAAACCAGTGGCCAGAACTCA	0.502													5	45					0	0	0.000602	0	0		A	45734321	A	A	45734321	4	1	11	1	0	0	0	0	0	1	0	0	8451	1212	42	2	392	2	KPNB1	17	45734321	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2411611	45734321	35460889	893	9285											
KPNB1	3837	broad.mit.edu	37	chr17	45741591	45741591	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggatagaattctggtccAatgtctgtgatgaggaaatg	13	11	13	4	0	2	3	0	2	2	1	3	5	3	5	1	3	0	0	1	3	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:45741591A>G	uc002ilt.1	+	8	1189	c.853A>G	c.(853-855)AAT>GAT	p.N285D	KPNB1_uc010wkw.1_Missense_Mutation_p.N140D|KPNB1_uc010wkx.1_Intron	NM_002265	NP_002256	Q14974	IMB1_HUMAN	karyopherin beta 1	285					DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|protein import into nucleus, translocation|ribosomal protein import into nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein domain specific binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						ATTCTGGTCCAATGTCTGTGA	0.428													5	143					0	0	0.001168	0	0		G	45741591	G	G	45741591	3	3	11	1	0	0	0	0	1	0	0	0	8451	130	5	3	883	3	KPNB1	17	45741591	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	7270	45741591	35453619	894	9286											
DLX3	1747	broad.mit.edu	37	chr17	48070879	48070879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggtagctggagtagatcGtacgcggctttcggaccttc	6	11	14	10	4	0	1	0	0	0	1	3	3	0	3	1	4	2	6	1	4	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:48070879G>A	uc002ipy.2	-	2	627	c.401C>T	c.(400-402)ACG>ATG	p.T134M		NM_005220	NP_005211	O60479	DLX3_HUMAN	distal-less homeobox 3	134	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGAGTAGATCGTACGCGGCTT	0.687													6	16					0	0	0.001984	0	0		A	48070879	A	A	48070879	3	1	11	1	0	0	0	0	1	0	0	0	4578	1145	40	1	470	1	DLX3	17	48070879	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2329288	48070879	33124331	895	9287											
ITGA3	3675	broad.mit.edu	37	chr17	48151644	48151644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaccacattgtgctgctgcGgtgagccaggaggccagtga	9	7	15	10	1	0	3	0	2	0	1	0	4	0	4	3	3	4	2	3	3	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:48151644G>A	uc010dbl.2	+	9	1846	c.1382G>A	c.(1381-1383)CGG>CAG	p.R461Q	ITGA3_uc010dbm.2_Missense_Mutation_p.R461Q	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	461	FG-GAP 7.|Extracellular (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						GTGCTGCTGCGGTGAGCCAGG	0.527													12	74					0	0	0.006122	0	0		A	48151644	A	A	48151644	3	1	11	1	0	0	0	0	1	0	0	0	7893	1130	39	1	1416	1	ITGA3	17	48151644	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	80765	48151644	33043566	896	9288											
MMD	23531	broad.mit.edu	37	chr17	53488653	53488653	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccatgatacaatgtgaaaTactgtagaaacgatgaagag	17	10	9	5	1	0	5	0	3	0	2	1	6	1	5	1	0	3	1	1	0	7	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:53488653T>C	uc002iui.2	-	3	519	c.234A>G	c.(232-234)GTA>GTG	p.V78V		NM_012329	NP_036461	Q15546	PAQRB_HUMAN	monocyte to macrophage	78	Helical; (Potential).				cytolysis	integral to plasma membrane|late endosome membrane|lysosomal membrane|membrane fraction	receptor activity				0						CAATGTGAAATACTGTAGAAA	0.448													9	64					0	0	0.008291	0	0		C	53488653	C	C	53488653	2	2	11	1	0	0	0	0	0	0	0	1	9661	1393	49	3		3	MMD	17	53488653	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	5337009	53488653	27706557	897	9289											
TRIM37	4591	broad.mit.edu	37	chr17	57093004	57093004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttcctccttttctcaaccGcaggcaagccactgaaaact	10	12	5	14	1	1	1	1	1	1	0	4	1	3	1	4	1	3	2	4	1	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:57093004G>A	uc002iwy.3	-	21	2987	c.2543C>T	c.(2542-2544)GCG>GTG	p.A848V	TRIM37_uc002iwz.3_Missense_Mutation_p.A848V|TRIM37_uc002ixa.3_Missense_Mutation_p.A726V|TRIM37_uc010woc.1_Missense_Mutation_p.A814V	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	848						perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TTTCTCAACCGCAGGCAAGCC	0.398									Mulibrey_Nanism				15	144					0	0	0.004007	0	0		A	57093004	A	A	57093004	3	1	11	1	0	0	0	0	1	0	0	0	16537	1087	38	1	375	1	TRIM37	17	57093004	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3604351	57093004	24102206	898	9290											
TBX2	6909	broad.mit.edu	37	chr17	59479301	59479301	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccaacaacatctctgacAagcacggcttcgtgagtgtt	11	10	9	11	2	1	3	0	3	1	0	3	3	1	3	1	1	3	3	1	1	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:59479301A>G	uc010wox.1	+	2	933	c.652A>G	c.(652-654)AAG>GAG	p.K218E	TBX2_uc002ize.2_Missense_Mutation_p.K208E|TBX2_uc002izg.2_Missense_Mutation_p.K64E	NM_005994	NP_005985	Q13207	TBX2_HUMAN	T-box 2	218	T-box.				cell aging|positive regulation of cell proliferation		sequence-specific DNA binding				0						CATCTCTGACAAGCACGGCTT	0.612													4	32					0	0	0.000602	0	0		G	59479301	G	G	59479301	3	3	11	1	0	0	0	0	1	0	0	0	15680	131	5	3	658	3	TBX2	17	59479301	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	2386297	59479301	21715909	899	9291											
INTS2	57508	broad.mit.edu	37	chr17	59989018	59989018	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttagtatgatccaatgtcaAagccacaccaaggcctggca	13	9	8	11	0	1	1	1	1	0	0	2	1	2	1	4	2	1	2	4	2	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:59989018A>G	uc002izn.2	-	7	917	c.841T>C	c.(841-843)TTG>CTG	p.L281L	INTS2_uc002izm.2_Silent_p.L273L	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	281					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						TCCAATGTCAAAGCCACACCA	0.418													3	32					0	0	0.000602	0	0		G	59989018	G	G	59989018	2	3	11	1	0	0	0	0	0	0	0	1	7794	11	1	3		3	INTS2	17	59989018	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	509717	59989018	21206192	900	9292											
CSH1	1442	broad.mit.edu	37	chr17	61972426	61972426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagcggcactgcaccatgcGcaggaatgtctcgaccttgt	9	8	12	12	3	1	1	0	0	1	1	2	3	1	2	2	2	3	3	2	2	1	1	rs139446025	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:61972426G>A	uc002jcs.1	-	5	726	c.610C>T	c.(610-612)CGC>TGC	p.R204C	CSH2_uc002jck.2_Intron|CSH1_uc002jcp.1_3'UTR|CSH1_uc002jcq.1_Missense_Mutation_p.R165C|CSH1_uc002jcr.1_3'UTR|CSH1_uc002jct.1_Missense_Mutation_p.R170C|CSH1_uc002jcu.1_3'UTR|CSH1_uc002jcv.1_Missense_Mutation_p.R109C|CSH1_uc002jcw.2_3'UTR	NM_001317	NP_001308	P01243	CSH_HUMAN	chorionic somatomammotropin hormone 1 isoform 1	204					female pregnancy|signal transduction	extracellular region	hormone activity|metal ion binding			skin(1)	1						TGCACCATGCGCAGGAATGTC	0.582									Russell-Silver_syndrome				9	70					0	0	0.00245	0	0		A	61972426	A	A	61972426	3	1	11	1	0	0	0	0	1	0	0	0	3943	1087	38	1	47	1	CSH1	17	61972426	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1983408	61972426	19222784	901	9293											
UNC13D	201294	broad.mit.edu	37	chr17	73836367	73836367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtctgggtaggtctcagtgCggggttccagggggtaccac	5	9	18	9	1	2	0	1	0	2	0	4	0	3	0	2	7	2	3	2	7	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:73836367C>T	uc002jpp.2	-	10	1177	c.797G>A	c.(796-798)CGC>CAC	p.R266H	UNC13D_uc010wsk.1_Missense_Mutation_p.R266H|UNC13D_uc002jpq.1_5'UTR|UNC13D_uc010dgq.1_Missense_Mutation_p.R63H	NM_199242	NP_954712	Q70J99	UN13D_HUMAN	unc-13 homolog D	266	Interaction with RAB27A.				positive regulation of exocytosis|regulation of mast cell degranulation	exocytic vesicle|late endosome|lysosome|membrane|recycling endosome	protein binding			upper_aerodigestive_tract(1)|skin(1)	2			all cancers(21;2.11e-06)|Epithelial(20;2.32e-06)|BRCA - Breast invasive adenocarcinoma(9;0.000618)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGTCTCAGTGCGGGGTTCCAG	0.647									Familial_Hemophagocytic_Lymphohistiocytosis				12	18					0	0	0.00245	0	0		T	73836367	T	T	73836367	3	4	11	1	0	0	0	0	1	0	0	0	17013	768	27	1	2567	1	UNC13D	17	73836367	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	11863941	73836367	7358843	902	9294											
USP36	57602	broad.mit.edu	37	chr17	76795011	76795011	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctcggtcaaactcttcGtcccagtcatcaaccacggt	8	11	6	16	3	4	0	3	0	1	0	8	0	6	0	3	2	2	0	3	2	2	2	rs148007252		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:76795011G>A	uc002jvz.1	-	19	3544	c.3219C>T	c.(3217-3219)GAC>GAT	p.D1073D	USP36_uc002jwa.1_Silent_p.D1073D|USP36_uc002jvy.1_Silent_p.D133D	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	1071					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			CAAACTCTTCGTCCCAGTCAT	0.587													29	94					0	0	0.009535	0	0		A	76795011	A	A	76795011	2	1	11	1	0	0	0	0	0	0	0	1	17093	1136	40	1		1	USP36	17	76795011	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2958644	76795011	4400199	903	9295											
CCDC40	55036	broad.mit.edu	37	chr17	78013825	78013825	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatacagaaacttcatcccCggaagggcaaatcagtgctg	13	8	9	11	1	2	1	2	0	0	1	3	2	3	2	2	2	3	2	2	2	5	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:78013825C>T	uc010dht.2	+	3	335	c.308C>T	c.(307-309)CCG>CTG	p.P103L	CCDC40_uc010wub.1_Missense_Mutation_p.P103L	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	103					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			ACTTCATCCCCGGAAGGGCAA	0.398													16	74					0	0	0.006122	0	0		T	78013825	T	T	78013825	3	4	11	1	0	0	0	0	1	0	0	0	2815	652	23	1	318	1	CCDC40	17	78013825	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1218814	78013825	3181385	904	9296											
NPTX1	4884	broad.mit.edu	37	chr17	78447193	78447193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcatacatatagttggtcCgcagtgggaatgtgagctgg	9	11	15	6	1	0	1	0	1	0	0	1	2	1	2	1	4	2	4	1	4	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:78447193C>T	uc002jyp.1	-	3	862	c.704G>A	c.(703-705)CGG>CAG	p.R235Q		NM_002522	NP_002513	Q15818	NPTX1_HUMAN	neuronal pentraxin I precursor	235	Pentaxin.				central nervous system development|synaptic transmission|transport	transport vesicle	metal ion binding				0	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0487)			ATAGTTGGTCCGCAGTGGGAA	0.557													20	130					0	0	0.010504	0	0		T	78447193	T	T	78447193	3	4	11	1	0	0	0	0	1	0	0	0	10621	652	23	1	606	1	NPTX1	17	78447193	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	433368	78447193	2748017	905	9297											
HGS	9146	broad.mit.edu	37	chr17	79667727	79667727	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactcattccctccgcagaaCgtggcctcccaggccccaca	8	6	7	20	2	1	1	1	0	0	1	4	1	4	1	6	2	1	1	6	2	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:79667727C>T	uc002kbg.2	+	20	2096	c.2019C>T	c.(2017-2019)AAC>AAT	p.N673N	MRPL12_uc002kbh.1_5'Flank|SLC25A10_uc010wut.1_5'Flank	NM_004712	NP_004703	O14964	HGS_HUMAN	hepatocyte growth factor-regulated tyrosine	673	Interaction with NF2.|Gln-rich.				cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of JAK-STAT cascade|regulation of protein catabolic process	cytosol|early endosome membrane|multivesicular body membrane	metal ion binding|protein domain specific binding			ovary(1)	1	all_neural(118;0.0878)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)			CTCCGCAGAACGTGGCCTCCC	0.542													4	21					0	0	0.000602	0	0		T	79667727	T	T	79667727	2	4	11	1	0	0	0	0	0	0	0	1	7103	535	19	1		1	HGS	17	79667727	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1220534	79667727	1527483	906	9298											
PCYT2	5833	broad.mit.edu	37	chr17	79865653	79865653	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgccgccgactcacctggCtgctgtgatgggctttggtt	3	12	13	13	3	1	1	1	1	0	0	2	2	2	1	4	3	1	4	4	3	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr17:79865653C>G	uc002kcf.1	-	5	551	c.488G>C	c.(487-489)AGC>ACC	p.S163T	PCYT2_uc010wva.1_Missense_Mutation_p.S131T|PCYT2_uc010wvb.1_Missense_Mutation_p.S131T|PCYT2_uc002kce.1_Missense_Mutation_p.S85T|PCYT2_uc002kcg.1_Missense_Mutation_p.S174T|PCYT2_uc002kch.1_Missense_Mutation_p.S163T|PCYT2_uc002kci.1_Missense_Mutation_p.S104T|PCYT2_uc010dii.1_Missense_Mutation_p.S163T|PCYT2_uc010wvc.1_Missense_Mutation_p.S85T	NM_002861	NP_002852	Q99447	PCY2_HUMAN	phosphate cytidylyltransferase 2, ethanolamine	163	Catalytic 1 (Potential).				phospholipid biosynthetic process		ethanolamine-phosphate cytidylyltransferase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			ACTCACCTGGCTGCTGTGATG	0.662													8	32					0	0	0.006214	0	0		G	79865653	G	G	79865653	3	3	11	1	0	0	0	0	1	0	0	0	11631	797	28	5	775	5	PCYT2	17	79865653	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	197926	79865653	1329557	907	9299											
MYOM1	8736	broad.mit.edu	37	chr18	3215000	3215000	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagagctcagggcgtgctgCgaggcctgctgctgggagga	6	7	18	10	2	2	1	2	0	0	1	2	4	2	3	1	4	5	4	1	4	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:3215000C>T	uc002klp.2	-	2	556	c.222G>A	c.(220-222)TCG>TCA	p.S74S	MYOM1_uc002klq.2_Silent_p.S74S	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	74						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GGGCGTGCTGCGAGGCCTGCT	0.682													4	19					0	0	0.009096	0	0		T	3215000	T	T	3215000	2	4	11	1	0	0	0	0	0	0	0	1	10109	755	27	1		1	MYOM1	18	3215000	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08		3215000	74862248	908	9300											
DLGAP1	9229	broad.mit.edu	37	chr18	3814196	3814196	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatggccttgatataactGccactccgcattcttcggca	8	11	7	15	2	1	1	0	1	1	0	3	1	2	1	4	2	2	2	4	2	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:3814196G>A	uc002kmf.2	-	2	1102	c.1035C>T	c.(1033-1035)GGC>GGT	p.G345G	DLGAP1_uc010wyz.1_Silent_p.G345G|DLGAP1_uc002kme.1_Silent_p.G43G|DLGAP1_uc010dkn.2_Silent_p.G43G|DLGAP1_uc010wyw.1_Silent_p.G51G|DLGAP1_uc010wyx.1_Silent_p.G57G|DLGAP1_uc010wyy.1_Silent_p.G57G|DLGAP1_uc002kmg.2_Silent_p.G43G|DLGAP1_uc002kmk.2_Silent_p.G345G	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	345					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				TGATATAACTGCCACTCCGCA	0.473													14	72					0	0	0.006122	0	0		A	3814196	A	A	3814196	2	1	11	1	0	0	0	0	0	0	0	1	4565	1306	46	2		2	DLGAP1	18	3814196	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	599196	3814196	74263052	909	9301											
RBBP8	5932	broad.mit.edu	37	chr18	20516850	20516850	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagctgtggaagccctaaCtctgcagatacatctagtga	12	9	10	10	0	2	2	0	1	2	1	2	3	2	3	1	1	6	3	1	1	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:20516850C>A	uc002ktw.2	+	2	367	c.36C>A	c.(34-36)AAC>AAA	p.N12K	RBBP8_uc002kty.2_Missense_Mutation_p.N12K|RBBP8_uc002ktz.2_Missense_Mutation_p.N12K|RBBP8_uc002kua.2_Missense_Mutation_p.N12K|RBBP8_uc002ktx.1_Missense_Mutation_p.N12K	NM_002894	NP_002885	Q99708	COM1_HUMAN	retinoblastoma binding protein 8 isoform a	12					cell cycle checkpoint|DNA double-strand break processing involved in repair via single-strand annealing|meiosis|regulation of transcription from RNA polymerase II promoter	nucleus	damaged DNA binding|protein binding|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)|lung(1)|skin(1)	3	all_cancers(21;4.34e-05)|all_epithelial(16;8.3e-07)|Lung NSC(20;0.0107)|Colorectal(14;0.0202)|all_lung(20;0.0291)|Ovarian(20;0.19)		OV - Ovarian serous cystadenocarcinoma(1;0.00196)			GAAGCCCTAACTCTGCAGATA	0.358								Direct_reversal_of_damage|Homologous_recombination					25	128					1.80694e-10	2.07711e-10	0.009535	1	0		A	20516850	A	A	20516850	3	1	11	1	0	0	0	0	1	0	0	0	13130	564	20	5	38	5	RBBP8	18	20516850	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	16702654	20516850	57560398	910	9302											
CDH2	1000	broad.mit.edu	37	chr18	25532148	25532148	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaccatacatgtcagcaAgtttcttgaaccgtggcccc	9	10	7	15	1	2	1	1	1	1	0	3	1	3	1	5	1	3	2	5	1	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:25532148A>T	uc002kwg.2	-	16	3149	c.2690T>A	c.(2689-2691)CTT>CAT	p.L897H	CDH2_uc010xbn.1_Missense_Mutation_p.L866H	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	897	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						CATGTCAGCAAGTTTCTTGAA	0.468													16	87					0	0	0.004007	0	0		T	25532148	T	T	25532148	3	4	11	1	0	0	0	0	1	0	0	0	3108	72	3	5	34	5	CDH2	18	25532148	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	5015298	25532148	52545100	911	9303											
ASXL3	80816	broad.mit.edu	37	chr18	31318982	31318982	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgttatcgatcagttagaAgtctgtgactctcttattcc	8	17	8	8	1	3	2	1	1	2	1	6	3	4	2	1	0	0	3	1	0	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:31318982A>C	uc010dmg.1	+	11	1669	c.1614A>C	c.(1612-1614)GAA>GAC	p.E538D	ASXL3_uc002kxq.2_Missense_Mutation_p.E245D	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	538					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						ATCAGTTAGAAGTCTGTGACT	0.398													6	56					0	0	0.00308	0	0		C	31318982	C	C	31318982	3	2	11	1	0	0	0	0	1	0	0	0	1069	69	3	5	1656	5	ASXL3	18	31318982	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	5786834	31318982	46758266	912	9304											
KIAA1632	57724	broad.mit.edu	37	chr18	43497754	43497754	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccagaattcccaatagTgggatgccttctgcacagaa	12	9	10	10	0	1	2	0	0	1	2	2	4	2	4	3	2	2	1	3	2	4	3	rs113333959		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:43497754T>C	uc002lbm.2	-	17	3229	c.3129A>G	c.(3127-3129)CCA>CCG	p.P1043P	KIAA1632_uc002lbo.1_Silent_p.P1043P|KIAA1632_uc010xcq.1_5'Flank|KIAA1632_uc010xcr.1_5'Flank|KIAA1632_uc010xcs.1_5'Flank|KIAA1632_uc002lbn.2_5'UTR	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1043					autophagy						0						TTCCCAATAGTGGGATGCCTT	0.413													18	96					0	0	0.00499	0	0		C	43497754	C	C	43497754	2	2	11	1	0	0	0	0	0	0	0	1	8265	1683	59	3		3	KIAA1632	18	43497754	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	12178772	43497754	34579494	913	9305											
TCEB3B	51224	broad.mit.edu	37	chr18	44560001	44560001	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggggacctctcccacgtcGctgagggcgtccggattgtt	5	10	14	12	4	1	1	0	1	1	0	4	3	2	3	3	4	0	2	3	4	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:44560001G>A	uc002lcr.1	-	1	1988	c.1635C>T	c.(1633-1635)AGC>AGT	p.S545S	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	545	Activation domain (By similarity).				regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						CTCCCACGTCGCTGAGGGCGT	0.607													17	70					0	0	0.006122	0	0		A	44560001	A	A	44560001	2	1	11	1	0	0	0	0	0	0	0	1	15707	1078	38	1		1	TCEB3B	18	44560001	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1062247	44560001	33517247	914	9306											
MYO5B	4645	broad.mit.edu	37	chr18	47488638	47488638	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcatcatcagttttacctTacattcttcatccaacaggt	10	16	4	11	0	4	0	3	0	1	0	5	0	5	0	2	1	4	2	2	1	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:47488638T>C	uc002leb.2	-	12	1831	c.1543A>G	c.(1543-1545)AAG>GAG	p.K515E	MYO5B_uc002lec.1_Missense_Mutation_p.K514E	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	515	Myosin head-like.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		AGTTTTACCTTACATTCTTCA	0.398													12	111					0	0	0.00245	0	0		C	47488638	C	C	47488638	3	2	11	1	0	0	0	0	1	0	0	0	10097	1763	61	3	4119	3	MYO5B	18	47488638	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	2928637	47488638	30588610	915	9307											
MAPK4	5596	broad.mit.edu	37	chr18	48190774	48190774	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaacgtgctgcacagggAcctgaagcccgccaacatct	10	5	10	16	3	1	1	0	1	1	0	1	2	1	2	4	1	5	2	4	1	3	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:48190774A>G	uc002lev.2	+	2	1446	c.446A>G	c.(445-447)GAC>GGC	p.D149G	MAPK4_uc010xdm.1_Intron|MAPK4_uc010doz.2_Missense_Mutation_p.D149G	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	149	Protein kinase.	Proton acceptor (By similarity).			cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		CTGCACAGGGACCTGAAGCCC	0.572													10	62					0	0	0.010729	0	0		G	48190774	G	G	48190774	3	3	11	1	0	0	0	0	1	0	0	0	9298	275	10	3	448	3	MAPK4	18	48190774	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	702136	48190774	29886474	916	9308											
DCC	1630	broad.mit.edu	37	chr18	50866217	50866217	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcggttatggcgttgggagcCcttacgctgagacagtgcgt	6	11	15	9	4	0	1	0	1	0	1	1	3	0	2	1	3	3	3	1	3	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:50866217C>A	uc002lfe.1	+	15	2886	c.2299C>A	c.(2299-2301)CCT>ACT	p.P767T	DCC_uc010xdr.1_Missense_Mutation_p.P615T|DCC_uc010dpf.1_Missense_Mutation_p.P422T	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	767	Extracellular (Potential).|Fibronectin type-III 4.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		CGTTGGGAGCCCTTACGCTGA	0.458													9	59					7.48243e-07	8.38725e-07	0.006214	1	0		A	50866217	A	A	50866217	3	1	11	1	0	0	0	0	1	0	0	0	4285	623	22	5	2357	5	DCC	18	50866217	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2675443	50866217	27211031	917	9309											
C18orf54	162681	broad.mit.edu	37	chr18	51888064	51888064	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaacttcatatcctgtagaaGacacaccgttaatgacatag	16	10	6	9	1	1	3	1	1	0	2	2	3	2	3	2	0	1	2	2	0	6	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:51888064G>C	uc002lfn.3	+	3	451	c.335G>C	c.(334-336)AGA>ACA	p.R112T	C18orf54_uc002lfo.3_Missense_Mutation_p.R112T	NM_173529	NP_775800	Q8IYD9	CR054_HUMAN	hypothetical protein LOC162681 precursor	112						extracellular region				ovary(1)|skin(1)	2				Colorectal(16;0.0206)|READ - Rectum adenocarcinoma(59;0.186)		TCCTGTAGAAGACACACCGTT	0.338													9	44					0	0	0.006214	0	0		C	51888064	C	C	51888064	3	2	11	1	0	0	0	0	1	0	0	0	1907	942	33	5	341	5	C18orf54	18	51888064	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1021847	51888064	26189184	918	9310											
ALPK2	115701	broad.mit.edu	37	chr18	56203863	56203863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcgtcccccaacctgagcGctgccctgctccttccctag	4	9	7	21	2	0	1	0	1	0	0	4	1	3	1	7	0	4	2	7	0	2	2	rs139032503		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:56203863G>A	uc002lhj.3	-	5	3770	c.3556C>T	c.(3556-3558)CGC>TGC	p.R1186C	ALPK2_uc002lhk.1_Missense_Mutation_p.R517C	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1186							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						CAACCTGAGCGCTGCCCTGCT	0.552													12	82					0	0	0.013537	0	0		A	56203863	A	A	56203863	3	1	11	1	0	0	0	0	1	0	0	0	545	1087	38	1	2992	1	ALPK2	18	56203863	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4315799	56203863	21873385	919	9311											
MC4R	4160	broad.mit.edu	37	chr18	58038752	58038752	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgagacatgaagcacacAcaatatggattctgaggaca	17	7	10	7	0	1	3	0	3	1	1	1	6	1	5	0	2	1	1	0	2	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:58038752A>G	uc002lie.1	-	1	1250	c.831T>C	c.(829-831)TGT>TGC	p.C277C		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	277	Extracellular (Potential).				feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)				TGAAGCACACACAATATGGAT	0.423													17	90					0	0	0.006122	0	0		G	58038752	G	G	58038752	2	3	11	1	0	0	0	0	0	0	0	1	9384	157	6	3		3	MC4R	18	58038752	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1834889	58038752	20038496	920	9312											
PIGN	23556	broad.mit.edu	37	chr18	59742043	59742043	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtctgatatgacgagaacaAtgagaaaaaggctggaaaaa	19	7	11	4	1	1	4	0	3	1	2	1	7	1	5	0	2	1	1	0	2	7	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:59742043A>G	uc002lii.3	-	30	3036	c.2588T>C	c.(2587-2589)ATT>ACT	p.I863T	PIGN_uc002lij.3_Missense_Mutation_p.I863T	NM_176787	NP_789744	O95427	PIGN_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	863	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphotransferase activity, for other substituted phosphate groups			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5		Colorectal(73;0.187)				GACGAGAACAATGAGAAAAAG	0.323													9	45					0	0	0.004482	0	0		G	59742043	G	G	59742043	3	3	11	1	0	0	0	0	1	0	0	0	11912	101	4	3	219	3	PIGN	18	59742043	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1703291	59742043	18335205	921	9313											
TSHZ1	10194	broad.mit.edu	37	chr18	72998236	72998236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggtccaagcccaggaagCgctccctgatggagatggag	9	6	16	10	1	0	2	0	1	0	1	2	5	2	4	3	5	2	1	3	5	2	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:72998236C>T	uc002lly.2	+	2	1302	c.739C>T	c.(739-741)CGC>TGC	p.R247C		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	292						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GCCCAGGAAGCGCTCCCTGAT	0.577													6	60					0	0	0.001984	0	0		T	72998236	T	T	72998236	3	4	11	1	0	0	0	0	1	0	0	0	16649	768	27	1	741	1	TSHZ1	18	72998236	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	13256193	72998236	5079012	922	9314											
SALL3	27164	broad.mit.edu	37	chr18	76757273	76757273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaaacagcagccagccGcccattcacgcggtttatcg	10	7	9	15	4	2	1	2	0	0	1	3	1	2	1	3	1	4	2	3	1	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:76757273G>A	uc002lmt.2	+	3	3854	c.3854G>A	c.(3853-3855)CGC>CAC	p.R1285H	SALL3_uc010dra.2_Missense_Mutation_p.R820H	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1285					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		GCAGCCAGCCGCCCATTCACG	0.572													22	95					0	0	0.007291	0	0		A	76757273	A	A	76757273	3	1	11	1	0	0	0	0	1	0	0	0	13837	1087	38	1	3864	1	SALL3	18	76757273	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3759037	76757273	1319975	923	9315											
C18orf22	79863	broad.mit.edu	37	chr18	77805925	77805925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctggtgtggcaggggcagGtggctgagctgacaacgcag	7	6	19	9	1	0	2	0	2	0	0	0	2	0	2	1	6	2	5	1	6	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr18:77805925G>A	uc002lns.2	+	7	940	c.802G>A	c.(802-804)GTG>ATG	p.V268M	C18orf22_uc010drh.2_Silent_p.R239R|C18orf22_uc010dri.1_Intron|C18orf22_uc002lnt.2_Missense_Mutation_p.V101M|uc002lnu.2_5'Flank	NM_024805	NP_079081	Q8N0V3	RBFA_HUMAN	hypothetical protein LOC79863 precursor	268					rRNA processing	mitochondrion					0		all_cancers(4;3.21e-14)|all_epithelial(4;7.11e-09)|all_lung(4;0.00366)|Lung NSC(4;0.00683)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0545)|all_hematologic(56;0.15)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;6.46e-08)|BRCA - Breast invasive adenocarcinoma(31;0.00376)		GCAGGGGCAGGTGGCTGAGCT	0.572													4	33					0	0	0.000602	0	0		A	77805925	A	A	77805925	3	1	11	1	0	0	0	0	1	0	0	0	1901	1261	44	4	828	4	C18orf22	18	77805925	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1048652	77805925	271323	924	9316											
MED16	10025	broad.mit.edu	37	chr19	873579	873579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttgatcatgaccttgtcaAtgtctacaaggagacgtggg	10	11	13	7	1	3	3	2	2	1	1	3	4	3	3	1	3	1	1	1	3	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:873579A>G	uc002lqd.1	-	11	1926	c.1775T>C	c.(1774-1776)ATT>ACT	p.I592T	MED16_uc010drw.1_Missense_Mutation_p.I417T|MED16_uc002lqe.2_Missense_Mutation_p.I581T|MED16_uc002lqf.2_Missense_Mutation_p.I581T|MED16_uc010xfv.1_RNA|MED16_uc010xfw.1_Missense_Mutation_p.I512T|MED16_uc010xfx.1_Missense_Mutation_p.I437T|MED16_uc010xfy.1_Missense_Mutation_p.I169T|MED16_uc010xfz.1_RNA	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	592					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GACCTTGTCAATGTCTACAAG	0.577													9	54					0	0	0.006214	0	0		G	873579	G	G	873579	3	3	11	1	0	0	0	0	1	0	0	0	9452	101	4	3	882	3	MED16	19	873579	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08		873579	58255404	925	9317											
EFNA2	1943	broad.mit.edu	37	chr19	1298589	1298589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggaccggccctgcctgcGactgaaggtgtacgtgcggc	5	8	16	12	4	0	1	0	1	0	0	0	3	0	2	3	4	4	1	3	4	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:1298589G>A	uc002lry.1	+	3	494	c.494G>A	c.(493-495)CGA>CAA	p.R165Q		NM_001405	NP_001396	O43921	EFNA2_HUMAN	ephrin-A2 precursor	165					cell-cell signaling	anchored to membrane|plasma membrane	ephrin receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCTGCCTGCGACTGAAGGTG	0.627													4	18					0	0	0.001168	0	0		A	1298589	A	A	1298589	3	1	11	1	0	0	0	0	1	0	0	0	4957	1058	37	1	504	1	EFNA2	19	1298589	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	425010	1298589	57830394	926	9318											
TMPRSS9	360200	broad.mit.edu	37	chr19	2422198	2422198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccactgctaggggacagaCgccatttccagacgccccgg	9	5	11	16	3	0	2	0	0	0	2	1	3	1	3	5	3	1	1	5	3	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:2422198C>T	uc010xgx.1	+	13	2399	c.2399C>T	c.(2398-2400)ACG>ATG	p.T800M		NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	800	Extracellular (Potential).				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGGGACAGACGCCATTTCCA	0.642													8	66					0	0	0.010729	0	0		T	2422198	T	T	2422198	3	4	11	1	0	0	0	0	1	0	0	0	16278	536	19	1	2449	1	TMPRSS9	19	2422198	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1123609	2422198	56706785	927	9319											
TLE2	7089	broad.mit.edu	37	chr19	3028785	3028785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgagaacttgaagggctggCcggactggagcggggtctgg	7	7	19	8	3	1	2	0	1	1	1	2	5	1	4	1	7	2	1	1	7	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:3028785C>T	uc002lww.2	-	2	304	c.41G>A	c.(40-42)GGC>GAC	p.G14D	TLE2_uc010dth.2_Missense_Mutation_p.G14D|TLE2_uc010xhc.1_5'UTR|TLE2_uc010dti.2_Missense_Mutation_p.G27D|TLE2_uc010xhd.1_Missense_Mutation_p.G14D	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1	14	Gln-rich.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAAGGGCTGGCCGGACTGGAG	0.642													4	38					0	0	0.000602	0	0		T	3028785	T	T	3028785	3	4	11	1	0	0	0	0	1	0	0	0	15964	739	26	2	2269	2	TLE2	19	3028785	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	606587	3028785	56100198	928	9320											
ATCAY	85300	broad.mit.edu	37	chr19	3907777	3907777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatgcccggggacagcgCggatctatttggggacggca	9	6	16	10	4	1	0	0	0	1	0	1	4	1	3	1	6	3	1	1	6	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:3907777C>T	uc002lyy.3	+	5	834	c.404C>T	c.(403-405)GCG>GTG	p.A135V	ATCAY_uc010xhz.1_Missense_Mutation_p.A141V|ATCAY_uc010dts.2_5'Flank	NM_033064	NP_149053	Q86WG3	ATCAY_HUMAN	caytaxin	135					transport		protein binding			breast(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00485)|STAD - Stomach adenocarcinoma(1328;0.183)		GGGGACAGCGCGGATCTATTT	0.657													8	12					0	0	0.004482	0	0		T	3907777	T	T	3907777	3	4	11	1	0	0	0	0	1	0	0	0	1078	768	27	1	418	1	ATCAY	19	3907777	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	878992	3907777	55221206	929	9321											
SH3GL1	6455	broad.mit.edu	37	chr19	4365543	4365543	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcgcccagaagcccctcCgactgcgggtagccggggtt	6	6	13	16	4	0	1	0	0	0	1	2	2	1	1	5	3	3	2	5	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:4365543C>T	uc002maj.2	-	4	373	c.267G>A	c.(265-267)TCG>TCA	p.S89S	SH3GL1_uc002mak.2_Intron|SH3GL1_uc010xig.1_Intron	NM_003025	NP_003016	Q99961	SH3G1_HUMAN	SH3-domain GRB2-like 1	89	BAR.				central nervous system development|endocytosis|signal transduction	early endosome membrane	lipid binding|protein binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0152)|STAD - Stomach adenocarcinoma(1328;0.182)		GAAGCCCCTCCGACTGCGGGT	0.652			T	MLL	AL								19	24					0	0	0.00333	0	0		T	4365543	T	T	4365543	2	4	11	1	0	0	0	0	0	0	0	1	14275	639	23	1		1	SH3GL1	19	4365543	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	457766	4365543	54763440	930	9322											
PLIN4	729359	broad.mit.edu	37	chr19	4512549	4512549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggccacattcgcagcacCggtgaccccactgcagacag	9	7	10	15	2	0	2	0	1	0	1	1	2	0	2	4	2	2	3	4	2	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:4512549C>T	uc002mar.1	-	3	1381	c.1381G>A	c.(1381-1383)GGT>AGT	p.G461S	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	461	27 X 33 AA approximate tandem repeat.|12.					lipid particle|plasma membrane					0						TTCGCAGCACCGGTGACCCCA	0.577													14	120					0	0	0.004007	0	0		T	4512549	T	T	4512549	3	4	11	1	0	0	0	0	1	0	0	0	12111	652	23	1	2708	1	PLIN4	19	4512549	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	147006	4512549	54616434	931	9323											
EMR1	2015	broad.mit.edu	37	chr19	6924780	6924780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccacctttctgctgtgtcGctccatccgaaatcacaaca	9	10	6	16	3	2	0	1	0	1	0	5	1	4	0	4	0	2	2	4	0	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:6924780G>A	uc002mfw.2	+	15	1921	c.1883G>A	c.(1882-1884)CGC>CAC	p.R628H	EMR1_uc010dvc.2_Intron|EMR1_uc010dvb.2_Missense_Mutation_p.R576H|EMR1_uc010xji.1_Missense_Mutation_p.R487H|EMR1_uc010xjj.1_Missense_Mutation_p.R451H	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	628	Cytoplasmic (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					CTGCTGTGTCGCTCCATCCGA	0.517													7	55					0	0	0.001984	0	0		A	6924780	A	A	6924780	3	1	11	1	0	0	0	0	1	0	0	0	5112	1087	38	1	1941	1	EMR1	19	6924780	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2412231	6924780	52204203	932	9324											
ZNF358	140467	broad.mit.edu	37	chr19	7585134	7585134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagagctccaacttgcaaCaccacctgcgcatccacacg	11	5	8	17	2	0	1	0	0	0	1	2	1	2	1	4	1	5	4	4	1	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:7585134C>T	uc002mgn.2	+	2	1176	c.1006C>T	c.(1006-1008)CAC>TAC	p.H336Y	MCOLN1_uc010dvh.1_5'Flank|MCOLN1_uc002mgo.2_5'Flank|MCOLN1_uc002mgp.2_5'Flank	NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	336	C2H2-type 7.				embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						CAACTTGCAACACCACCTGCG	0.697													5	55					0	0	0.001168	0	0		T	7585134	T	T	7585134	3	4	11	1	0	0	0	0	1	0	0	0	17892	478	17	4	1008	4	ZNF358	19	7585134	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	660354	7585134	51543849	933	9325											
LRRC8E	80131	broad.mit.edu	37	chr19	7965621	7965621	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagctgagccagctctcGccccacgtgggtgccctcag	7	6	11	17	2	2	1	1	1	1	0	3	1	2	1	5	1	5	2	5	1	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:7965621G>A	uc002mir.2	+	3	2315	c.2214G>A	c.(2212-2214)TCG>TCA	p.S738S		NM_025061	NP_079337	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member	738	LRR 10.					integral to membrane				lung(1)|pancreas(1)	2						GCCAGCTCTCGCCCCACGTGG	0.637													4	29					0	0	0.000602	0	0		A	7965621	A	A	7965621	2	1	11	1	0	0	0	0	0	0	0	1	9043	1074	38	1		1	LRRC8E	19	7965621	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	380487	7965621	51163362	934	9326											
HNRNPM	4670	broad.mit.edu	37	chr19	8550540	8550540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgggtcctggcattgacCgcctcgggggtgccggcatg	4	8	18	11	3	0	1	0	1	0	0	2	2	1	2	4	6	1	2	4	6	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:8550540C>T	uc010dwe.2	+	14	1308	c.1228C>T	c.(1228-1230)CGC>TGC	p.R410C	HNRNPM_uc010xke.1_Missense_Mutation_p.R356C|HNRNPM_uc010dwd.2_Missense_Mutation_p.R371C|HNRNPM_uc002mka.2_Missense_Mutation_p.R275C|HNRNPM_uc002mkb.1_5'Flank	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	410	27 X 6 AA repeats of [GEVSTPAN]-[ILMV]- [DE]-[RH]-[MLVI]-[GAV].|2.				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						TGGCATTGACCGCCTCGGGGG	0.647													10	79					0	0	0.013537	0	0		T	8550540	T	T	8550540	3	4	11	1	0	0	0	0	1	0	0	0	7287	652	23	1	1282	1	HNRNPM	19	8550540	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	584919	8550540	50578443	935	9327											
MBD3L1	85509	broad.mit.edu	37	chr19	8953580	8953580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggagactgcagggactccagGcttacagcagtgcaggagaa	12	5	15	9	0	0	2	0	0	0	2	1	5	1	3	1	4	4	4	1	4	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:8953580G>A	uc002mko.2	+	1	312	c.226G>A	c.(226-228)GCT>ACT	p.A76T		NM_145208	NP_660209	Q8WWY6	MB3L1_HUMAN	methyl-CpG binding domain protein 3-like	76	Transcription repressor.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						GGGACTCCAGGCTTACAGCAG	0.517													9	42					0	0	0.006214	0	0		A	8953580	A	A	8953580	3	1	11	1	0	0	0	0	1	0	0	0	9363	1203	42	2	228	2	MBD3L1	19	8953580	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	403040	8953580	50175403	936	9328											
MUC16	94025	broad.mit.edu	37	chr19	9047875	9047875	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaccagtggagacagtcaaAgttggaacaacagaacttgc	15	7	10	9	0	2	2	2	0	0	2	2	4	2	3	1	2	4	1	1	2	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:9047875A>C	uc002mkp.2	-	5	33960	c.33756T>G	c.(33754-33756)ACT>ACG	p.T11252T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11254	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGACAGTCAAAGTTGGAACAA	0.483													10	47					0	0	0.013537	0	0		C	9047875	C	C	9047875	2	2	11	1	0	0	0	0	0	0	0	1	9991	59	3	5		5	MUC16	19	9047875	Silent	SNP	A	TCGA-BR-4256-01A-01D-1126-08	94295	9047875	50081108	937	9329											
MUC16	94025	broad.mit.edu	37	chr19	9061285	9061285	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacttctctctgttgctgAgctggtctcttgagaggtac	6	14	11	10	0	3	2	0	2	3	1	5	3	3	2	0	2	4	5	0	2	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:9061285A>C	uc002mkp.2	-	3	26365	c.26161T>G	c.(26161-26163)TCA>GCA	p.S8721A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8723	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTGTTGCTGAGCTGGTCTCT	0.502													14	82					0	0	0.00245	0	0		C	9061285	C	C	9061285	3	2	11	1	0	0	0	0	1	0	0	0	9991	304	11	5	17690	5	MUC16	19	9061285	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	13410	9061285	50067698	938	9330											
MUC16	94025	broad.mit.edu	37	chr19	9085145	9085145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacaagccaggtggacctgCgctgtttactgggatgcttg	7	10	15	9	1	0	0	0	0	0	0	0	3	0	3	2	4	4	3	2	4	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:9085145C>T	uc002mkp.2	-	1	6874	c.6670G>A	c.(6670-6672)GCA>ACA	p.A2224T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2224	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTGGACCTGCGCTGTTTACT	0.483													5	49					0	0	0.001984	0	0		T	9085145	T	T	9085145	3	4	11	1	0	0	0	0	1	0	0	0	9991	768	27	1	37189	1	MUC16	19	9085145	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	23860	9085145	50043838	939	9331											
COL5A3	50509	broad.mit.edu	37	chr19	10071325	10071325	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccactgccccaccctcttAcccggcagccatcctggggg	5	6	11	19	1	1	0	0	0	1	0	2	0	2	0	7	4	3	1	7	4	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:10071325A>G	uc002mmq.1	-	66	5177	c.5091_splice	c.e66+1	p.R1697_splice		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein						collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			CCACCCTCTTACCCGGCAGCC	0.617													11	36					0	0	0.012319	0	0		G	10071325	G	G	10071325	5	3	11	1	0	0	0	0	0	0	1	0	3701	405	14	3	152	3	COL5A3	19	10071325	Splice_Site	SNP	A	TCGA-BR-4256-01A-01D-1126-08	986180	10071325	49057658	940	9332											
PPAN-P2RY11	692312	broad.mit.edu	37	chr19	10220665	10220665	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagttccccaacatgagcCgcctgcaggacatcagcgag	12	5	11	13	2	1	2	1	1	0	1	2	4	2	3	4	1	4	2	4	1	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:10220665C>A	uc002mna.2	+	7	667	c.667C>A	c.(667-669)CGC>AGC	p.R223S	PPAN-P2RY11_uc010xla.1_Missense_Mutation_p.R223S|P2RY11_uc002mnc.2_5'Flank|PPAN_uc002mmz.1_Missense_Mutation_p.R223S|PPAN_uc002mnb.1_Missense_Mutation_p.R170S	NM_001040664	NP_001035754	Q9NQ55	SSF1_HUMAN	PPAN-P2RY11 protein	223	Brix.				RNA splicing	nucleolus	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(20;2.19e-08)|Epithelial(33;1.76e-05)|all cancers(31;3.54e-05)			CAACATGAGCCGCCTGCAGGA	0.637													7	30					5.68852e-11	6.57956e-11	0.004482	1	0		A	10220665	A	A	10220665	3	1	11	1	0	0	0	0	1	0	0	0	12308	652	23	5	693	5	PPAN-P2RY11	19	10220665	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	149340	10220665	48908318	941	9333											
CDC37	11140	broad.mit.edu	37	chr19	10503997	10503997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggccgagccgcttcttgcGctcctcctcctcgtactcct	2	11	10	18	4	1	0	0	0	1	0	6	1	5	0	6	2	3	3	6	2	1	3	rs143134175		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:10503997G>A	uc002mof.1	-	6	963	c.847C>T	c.(847-849)CGC>TGC	p.R283C	CDC37_uc002moe.1_Missense_Mutation_p.R238C|CDC37_uc010dxf.1_Missense_Mutation_p.R120C|CDC37_uc002mog.1_Intron|CDC37_uc002moh.2_Missense_Mutation_p.R283C	NM_007065	NP_008996	Q16543	CDC37_HUMAN	cell division cycle 37 protein	283					protein targeting|regulation of cyclin-dependent protein kinase activity|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway		unfolded protein binding				0			OV - Ovarian serous cystadenocarcinoma(20;4.65e-10)|Epithelial(33;6.48e-07)|all cancers(31;2.31e-06)	GBM - Glioblastoma multiforme(1328;0.0318)		CGCTTCTTGCGCTCCTCCTCC	0.692													5	22					0	0	0.000602	0	0		A	10503997	A	A	10503997	3	1	11	1	0	0	0	0	1	0	0	0	3071	1087	38	1	301	1	CDC37	19	10503997	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	283332	10503997	48624986	942	9334											
SLC44A2	57153	broad.mit.edu	37	chr19	10738420	10738420	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcacggatatcatatgcTgtgtgttcctgctcctggcc	5	13	11	12	1	1	0	1	0	0	0	3	1	3	1	3	2	3	5	3	2	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:10738420T>C	uc002mpf.2	+	3	248	c.109T>C	c.(109-111)TGT>CGT	p.C37R	SLC44A2_uc002mpe.3_Missense_Mutation_p.C35R	NM_020428	NP_065161	Q8IWA5	CTL2_HUMAN	solute carrier family 44, member 2 isoform 1	37	Helical; (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane|plasma membrane	choline transmembrane transporter activity|signal transducer activity			ovary(1)	1			Epithelial(33;8.7e-06)|all cancers(31;2.77e-05)		Choline(DB00122)	TATCATATGCTGTGTGTTCCT	0.587													9	84					0	0	0.010729	0	0		C	10738420	C	C	10738420	3	2	11	1	0	0	0	0	1	0	0	0	14661	1580	55	3	154	3	SLC44A2	19	10738420	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	234423	10738420	48390563	943	9335											
ELAVL3	1995	broad.mit.edu	37	chr19	11577547	11577547	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggttggtcttgctgtcGtcagtggctccatttgtacc	5	15	12	9	1	2	1	1	1	1	0	4	1	3	1	2	3	2	4	2	3	1	4	rs144461011		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:11577547G>A	uc002mry.1	-	2	485	c.105C>T	c.(103-105)GAC>GAT	p.D35D	ELAVL3_uc002mrx.1_Silent_p.D35D	NM_001420	NP_001411	Q14576	ELAV3_HUMAN	ELAV-like protein 3 isoform 1	35					cell differentiation|nervous system development		AU-rich element binding|nucleotide binding			ovary(1)|breast(1)|skin(1)	3						TCTTGCTGTCGTCAGTGGCTC	0.488													6	38					0	0	0.001984	0	0		A	11577547	A	A	11577547	2	1	11	1	0	0	0	0	0	0	0	1	5059	1136	40	1		1	ELAVL3	19	11577547	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	839127	11577547	47551436	944	9336											
ZNF44	51710	broad.mit.edu	37	chr19	12384634	12384634	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataacttaagcctttcccacActgcttatgtgtatatgact	11	15	5	10	0	0	1	0	1	0	0	1	1	1	1	2	0	3	2	2	0	5	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:12384634A>G	uc010xmj.1	-	5	785	c.580T>C	c.(580-582)TGT>CGT	p.C194R	ZNF44_uc002mtl.2_Intron|ZNF44_uc010dyr.1_Intron|ZNF44_uc010xmi.1_RNA|ZNF44_uc002mtn.3_RNA|ZNF44_uc010dys.2_Missense_Mutation_p.C146R	NM_001164276	NP_001157748	P15621	ZNF44_HUMAN	zinc finger protein 44 isoform 1	194	C2H2-type 1; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		Renal(1328;0.157)		GBM - Glioblastoma multiforme(1328;0.0164)|Lung(535;0.179)		CCTTTCCCACACTGCTTATGT	0.423													14	82					0	0	0.001855	0	0		G	12384634	G	G	12384634	3	3	11	1	0	0	0	0	1	0	0	0	17937	159	6	3	1415	3	ZNF44	19	12384634	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	807087	12384634	46744349	945	9337											
ZNF490	57474	broad.mit.edu	37	chr19	12721453	12721453	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctctggacttgctcctcgagGggtcgctccatctggaaact	6	11	11	13	2	2	0	0	0	2	0	6	3	4	2	2	4	2	2	2	4	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:12721453G>T	uc002mtz.2	-	1	171	c.42C>A	c.(40-42)CCC>CCA	p.P14P	ZNF791_uc002mua.2_5'Flank|ZNF791_uc010xml.1_5'Flank|ZNF791_uc010dyu.1_5'Flank|ZNF791_uc010xmm.1_5'Flank	NM_020714	NP_065765	Q9ULM2	ZN490_HUMAN	zinc finger protein 490	14					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCTCCTCGAGGGGTCGCTCCA	0.582													12	84					4.3838e-07	4.93933e-07	0.001855	1	0		T	12721453	T	T	12721453	2	4	11	1	0	0	0	0	0	0	0	1	17966	1219	43	5		5	ZNF490	19	12721453	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	336819	12721453	46407530	946	9338											
ASNA1	439	broad.mit.edu	37	chr19	12856282	12856282	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaagaagatgatgcaggAggccatgagcgcatttcccg	11	6	15	9	2	0	4	0	2	0	2	1	5	1	5	2	3	2	3	2	3	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:12856282A>C	uc002muv.2	+	3	415	c.401A>C	c.(400-402)GAG>GCG	p.E134A	ASNA1_uc002muw.2_Missense_Mutation_p.E133A	NM_004317	NP_004308	O43681	ASNA_HUMAN	arsA arsenite transporter, ATP-binding, homolog	134					response to arsenic-containing substance	endoplasmic reticulum|nucleolus|soluble fraction	arsenite-transporting ATPase activity|ATP binding|metal ion binding			ovary(2)	2					Adenosine triphosphate(DB00171)	ATGATGCAGGAGGCCATGAGC	0.642													4	48					0	0	0.001984	0	0		C	12856282	C	C	12856282	3	2	11	1	0	0	0	0	1	0	0	0	1048	304	11	5	411	5	ASNA1	19	12856282	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	134829	12856282	46272701	947	9339											
MAST1	22983	broad.mit.edu	37	chr19	12984646	12984646	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgccactgccgggccacacGgtgggcagctcgcacactac	7	4	12	18	4	0	0	0	0	0	0	1	0	0	0	4	3	3	3	4	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:12984646G>A	uc002mvm.2	+	26	3803	c.3675G>A	c.(3673-3675)ACG>ACA	p.T1225T		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1225					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						CGGGCCACACGGTGGGCAGCT	0.711													4	2					0	0	0.000602	0	0		A	12984646	A	A	12984646	2	1	11	1	0	0	0	0	0	0	0	1	9342	1103	39	1		1	MAST1	19	12984646	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	128364	12984646	46144337	948	9340											
EMR2	30817	broad.mit.edu	37	chr19	14863294	14863294	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaggcacagcagagagacGctcagccccatgtaggtgat	12	5	14	10	1	1	3	1	1	0	2	1	5	1	4	2	3	2	4	2	3	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:14863294G>A	uc002mzp.1	-	15	2091	c.1635C>T	c.(1633-1635)AGC>AGT	p.S545S	EMR2_uc010dzs.1_Silent_p.S4S|EMR2_uc010xnw.1_Silent_p.S487S|EMR2_uc002mzo.1_Silent_p.S534S|EMR2_uc002mzq.1_Silent_p.S485S|EMR2_uc002mzr.1_Silent_p.S496S|EMR2_uc002mzs.1_Silent_p.S403S|EMR2_uc002mzt.1_Silent_p.S441S|EMR2_uc002mzu.1_Silent_p.S452S|EMR2_uc010xnx.1_RNA|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	545	Helical; Name=1; (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						GCAGAGAGACGCTCAGCCCCA	0.572													10	19					0	0	0.010729	0	0		A	14863294	A	A	14863294	2	1	11	1	0	0	0	0	0	0	0	1	5113	1078	38	1		1	EMR2	19	14863294	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1878648	14863294	44265689	949	9341											
EMR2	30817	broad.mit.edu	37	chr19	14876537	14876537	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttccagcctgggcggcagcgGcagctgtatgaacccacggt	7	7	14	13	3	0	1	0	1	0	0	1	1	1	1	3	4	4	4	3	4	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:14876537G>A	uc002mzp.1	-	8	1170	c.714C>T	c.(712-714)TGC>TGT	p.C238C	EMR2_uc010dzs.1_5'Flank|EMR2_uc010xnw.1_Silent_p.C238C|EMR2_uc002mzo.1_Silent_p.C238C|EMR2_uc002mzq.1_Silent_p.C189C|EMR2_uc002mzr.1_Silent_p.C189C|EMR2_uc002mzs.1_Intron|EMR2_uc002mzt.1_Silent_p.C145C|EMR2_uc002mzu.1_Silent_p.C145C|EMR2_uc010xnx.1_RNA|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	238	EGF-like 5; calcium-binding (Potential).|Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity	p.C238S(1)		lung(2)|ovary(1)|skin(1)	4						GGCGGCAGCGGCAGCTGTATG	0.597													4	25					0	0	0.001855	0	0		A	14876537	A	A	14876537	2	1	11	1	0	0	0	0	0	0	0	1	5113	1195	42	2		2	EMR2	19	14876537	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	13243	14876537	44252446	950	9342											
OR10H1	26539	broad.mit.edu	37	chr19	15918305	15918305	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaacttcaacagaggtggCacatggcaagcaaaatggtg	14	6	12	9	0	1	1	1	0	0	1	1	1	1	1	1	4	3	3	1	4	5	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:15918305C>T	uc002nbq.2	-	1	632	c.543G>A	c.(541-543)GTG>GTA	p.V181V		NM_013940	NP_039228	Q9Y4A9	O10H1_HUMAN	olfactory receptor, family 10, subfamily H,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACAGAGGTGGCACATGGCAAG	0.582													13	72					0	0	0.00245	0	0		T	15918305	T	T	15918305	2	4	11	1	0	0	0	0	0	0	0	1	10924	697	25	2		2	OR10H1	19	15918305	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1041768	15918305	43210678	951	9343											
USE1	55850	broad.mit.edu	37	chr19	17327060	17327060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccagagagcgagtgcccgCcacaaagacggtgcatctgc	11	4	13	13	3	1	2	0	0	1	2	1	4	1	2	3	1	5	1	3	1	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:17327060C>T	uc002nfo.2	+	4	374	c.314C>T	c.(313-315)GCC>GTC	p.A105V	USE1_uc002nfn.2_Missense_Mutation_p.A105V|USE1_uc010eal.1_Missense_Mutation_p.A105V	NM_018467	NP_060937	Q9NZ43	USE1_HUMAN	unconventional SNARE in the ER 1 homolog	105	Cytoplasmic (Potential).				lysosomal transport|protein catabolic process|protein transport|secretion by cell|vesicle-mediated transport	endoplasmic reticulum membrane|integral to membrane	protein binding				0						CGAGTGCCCGCCACAAAGACG	0.622													6	16					0	0	0.006214	0	0		T	17327060	T	T	17327060	3	4	11	1	0	0	0	0	1	0	0	0	17057	739	26	2	328	2	USE1	19	17327060	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1408755	17327060	41801923	952	9344											
GTPBP3	84705	broad.mit.edu	37	chr19	17450245	17450245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttctgaccctcccccaggtCggaagcctgtgtccatcgtg	5	10	10	16	2	1	1	0	1	1	0	5	2	3	2	5	2	1	0	5	2	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:17450245C>T	uc010eas.2	+	7	876	c.811C>T	c.(811-813)CGG>TGG	p.R271W	GTPBP3_uc010xpo.1_Missense_Mutation_p.R293W|GTPBP3_uc010ear.1_RNA|GTPBP3_uc002ngh.3_Missense_Mutation_p.R271W|GTPBP3_uc002ngg.3_Missense_Mutation_p.R303W|GTPBP3_uc002ngi.3_5'UTR	NM_032620	NP_116009	Q969Y2	GTPB3_HUMAN	GTP binding protein 3 (mitochondrial) isoform V	271					tRNA modification	mitochondrion	GTP binding|GTPase activity			skin(1)	1						TCCCCCAGGTCGGAAGCCTGT	0.622													7	36					0	0	0.006214	0	0		T	17450245	T	T	17450245	3	4	11	1	0	0	0	0	1	0	0	0	6897	875	31	1	929	1	GTPBP3	19	17450245	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	123185	17450245	41678738	953	9345											
KCNN1	3780	broad.mit.edu	37	chr19	18085948	18085948	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctcatcagcctctccacGgccatcctgctgggtctcgt	4	11	9	17	2	4	0	2	0	2	0	7	0	5	0	5	2	3	1	5	2	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:18085948G>A	uc002nht.2	+	4	760	c.450G>A	c.(448-450)ACG>ACA	p.T150T	KCNN1_uc010xqa.1_Silent_p.T150T	NM_002248	NP_002239	Q92952	KCNN1_HUMAN	potassium intermediate/small conductance	150	Helical; Name=Segment S2; (Potential).				synaptic transmission	voltage-gated potassium channel complex	calmodulin binding|small conductance calcium-activated potassium channel activity				0						GCCTCTCCACGGCCATCCTGC	0.592													8	48					0	0	0.00308	0	0		A	18085948	A	A	18085948	2	1	11	1	0	0	0	0	0	0	0	1	8094	1103	39	1		1	KCNN1	19	18085948	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	635703	18085948	41043035	954	9346											
MAST3	23031	broad.mit.edu	37	chr19	18242839	18242839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactatggcatcgtgcaccGtgacctcaaaccagacaagt	13	8	8	12	2	1	2	1	1	0	1	2	2	1	2	3	1	3	2	3	1	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:18242839G>A	uc002nhz.3	+	14	1466	c.1466G>A	c.(1465-1467)CGT>CAT	p.R489H		NM_015016	NP_055831	O60307	MAST3_HUMAN	microtubule associated serine/threonine kinase	489	Protein kinase.						ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			large_intestine(2)|ovary(2)|stomach(1)	5						ATCGTGCACCGTGACCTCAAA	0.637													4	42					0	0	0.000602	0	0		A	18242839	A	A	18242839	3	1	11	1	0	0	0	0	1	0	0	0	9344	1145	40	1	1520	1	MAST3	19	18242839	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	156891	18242839	40886144	955	9347											
SFRS14	10147	broad.mit.edu	37	chr19	19136411	19136411	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtattttttttgtgctcacaTttctcaatgtgacaagtttc	8	20	6	7	0	2	1	2	1	1	0	4	1	2	1	0	0	1	3	0	0	3	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:19136411T>A	uc002nkx.2	-	3	892	c.746A>T	c.(745-747)AAT>ATT	p.N249I	SFRS14_uc002nkz.1_Missense_Mutation_p.N263I|SFRS14_uc002nla.1_Missense_Mutation_p.N249I|SFRS14_uc002nlb.2_Missense_Mutation_p.N249I|SFRS14_uc010xqk.1_Intron	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	249					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			TGTGCTCACATTTCTCAATGT	0.483													21	127					0	0	0.004656	0	0		A	19136411	A	A	19136411	3	1	11	1	0	0	0	0	1	0	0	0	14195	1493	52	5	2534	5	SFRS14	19	19136411	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	893572	19136411	39992572	956	9348											
NCAN	1463	broad.mit.edu	37	chr19	19329855	19329855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgcagccacggccaagcGcagcccgagatgcccctcgg	7	3	12	19	4	0	1	0	0	0	1	1	2	0	1	6	2	5	2	6	2	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:19329855G>A	uc002nlz.2	+	3	304	c.205G>A	c.(205-207)GCA>ACA	p.A69T		NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	69	Ig-like V-type.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			ACGGCCAAGCGCAGCCCGAGA	0.657													7	17					0	0	0.004482	0	0		A	19329855	A	A	19329855	3	1	11	1	0	0	0	0	1	0	0	0	10223	1087	38	1	211	1	NCAN	19	19329855	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	193444	19329855	39799128	957	9349											
ZNF101	94039	broad.mit.edu	37	chr19	19790896	19790896	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagtggagaaaagccataTgaatgtacaaggtgtggtaa	16	9	12	4	0	0	2	0	1	0	1	0	3	0	2	1	3	2	2	1	3	8	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:19790896T>C	uc002nni.1	+	4	1208	c.1098T>C	c.(1096-1098)TAT>TAC	p.Y366Y	ZNF101_uc010ecg.1_Silent_p.Y246Y|ZNF101_uc002nnj.1_Silent_p.Y246Y	NM_033204	NP_149981	Q8IZC7	ZN101_HUMAN	zinc finger protein 101	366	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						AAAAGCCATATGAATGTACAA	0.388													10	60					0	0	0.006214	0	0		C	19790896	C	C	19790896	2	2	11	1	0	0	0	0	0	0	0	1	17739	1471	51	3		3	ZNF101	19	19790896	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	461041	19790896	39338087	958	9350											
RHPN2	85415	broad.mit.edu	37	chr19	33535190	33535190	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccggtcctcatccgcacGgctttcaggatctgctgatt	5	12	10	14	3	3	1	2	1	1	0	6	2	6	2	3	3	1	4	3	3	0	2	rs140849987		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:33535190G>A	uc002nuf.2	-	2	216	c.150C>T	c.(148-150)GCC>GCT	p.A50A	RHPN2_uc010xro.1_5'UTR	NM_033103	NP_149094	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	50	REM.|Interaction with Rho.				signal transduction	perinuclear region of cytoplasm	protein binding			central_nervous_system(5)|ovary(1)	6	Esophageal squamous(110;0.137)					TCATCCGCACGGCTTTCAGGA	0.512													8	79					0	0	0.006214	0	0		A	33535190	A	A	33535190	2	1	11	1	0	0	0	0	0	0	0	1	13376	1103	39	1		1	RHPN2	19	33535190	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	13744294	33535190	25593793	959	9351											
GPI	2821	broad.mit.edu	37	chr19	34868778	34868778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctccctgttcatcattGcctccaaggtatgagtgccg	7	12	9	13	1	2	1	2	1	0	0	5	1	5	1	5	1	2	2	5	1	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:34868778G>A	uc002nvg.1	+	6	728	c.625G>A	c.(625-627)GCC>ACC	p.A209T	GPI_uc002nvf.2_Missense_Mutation_p.A248T|GPI_uc010xrv.1_Missense_Mutation_p.A220T|GPI_uc010xrw.1_Missense_Mutation_p.A181T|GPI_uc010edl.1_Missense_Mutation_p.A209T	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	209					angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					GTTCATCATTGCCTCCAAGGT	0.597													10	51					0	0	0.013537	0	0		A	34868778	A	A	34868778	3	1	11	1	0	0	0	0	1	0	0	0	6626	1319	46	2	768	2	GPI	19	34868778	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1333588	34868778	24260205	960	9352											
ZNF599	148103	broad.mit.edu	37	chr19	35251100	35251100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaaccctttcccacattcCgtgcatgtgtaagggttatt	9	14	7	11	1	0	0	0	0	0	0	2	0	2	0	3	1	2	3	3	1	4	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:35251100C>T	uc010edn.1	-	4	994	c.606G>A	c.(604-606)ACG>ACA	p.T202T	ZNF599_uc010edm.1_Silent_p.T165T	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	202	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			TCCCACATTCCGTGCATGTGT	0.498													29	149					0	0	0.008361	0	0		T	35251100	T	T	35251100	2	4	11	1	0	0	0	0	0	0	0	1	18054	639	23	1		1	ZNF599	19	35251100	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	382322	35251100	23877883	961	9353											
ZNF829	374899	broad.mit.edu	37	chr19	37406110	37406110	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggggaaaggttgtgttcaCtgctgtccagggttggaatc	8	11	15	7	0	1	0	1	0	0	0	3	2	2	2	1	5	1	4	1	5	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:37406110C>T	uc002ofa.1	-	2	322	c.-40G>A	c.(-42--38)CAGTG>CAATG		ZNF568_uc010efg.2_5'Flank|ZNF568_uc010xtn.1_5'Flank|ZNF829_uc002ofb.2_Translation_Start_Site|ZNF568_uc002ofc.2_5'Flank|ZNF568_uc002ofd.2_5'Flank|ZNF568_uc010efe.2_5'Flank|ZNF568_uc010eff.1_5'Flank	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTTGTGTTCACTGCTGTCCAG	0.517													10	37					0	0	0.008291	0	0		T	37406110	T	T	37406110	1	4	11	1	0	0	0	0	0	0	0	0	18207	565	20	4		4	ZNF829	19	37406110	Translation_Start_Site	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2155010	37406110	21722873	962	9354											
RYR1	6261	broad.mit.edu	37	chr19	38939370	38939370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggggagtcactgtgcttcGtgcagcatgtggcctcagga	7	9	15	10	2	2	0	2	0	0	0	3	2	2	2	1	4	3	3	1	4	0	1	rs138647682		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:38939370G>A	uc002oit.2	+	11	1169	c.1039G>A	c.(1039-1041)GTG>ATG	p.V347M	RYR1_uc002oiu.2_Missense_Mutation_p.V347M	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	347	Cytoplasmic.|MIR 5.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	ACTGTGCTTCGTGCAGCATGT	0.602													7	41					0	0	0.00308	0	0		A	38939370	A	A	38939370	3	1	11	1	0	0	0	0	1	0	0	0	13793	1145	40	1	1081	1	RYR1	19	38939370	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1533260	38939370	20189613	963	9355											
RYR1	6261	broad.mit.edu	37	chr19	38948733	38948733	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccgagcggaaggcaccacGcagtacagcaaatggtactt	12	5	13	11	3	0	0	0	0	0	0	0	2	0	1	2	4	4	5	2	4	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:38948733G>A	uc002oit.2	+	18	2098	c.1968G>A	c.(1966-1968)ACG>ACA	p.T656T	RYR1_uc002oiu.2_Silent_p.T656T	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	656	Cytoplasmic.|B30.2/SPRY 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AAGGCACCACGCAGTACAGCA	0.612													11	57					0	0	0.010729	0	0		A	38948733	A	A	38948733	2	1	11	1	0	0	0	0	0	0	0	1	13793	1074	38	1		1	RYR1	19	38948733	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	9363	38948733	20180250	964	9356											
LGALS7B	653499	broad.mit.edu	37	chr19	39281340	39281340	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcttccaggttccatgtaaAcctgctgtgcggggaggagc	7	10	13	11	1	1	0	0	0	1	0	3	2	3	2	3	4	4	3	3	4	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:39281340A>C	uc002ojf.3	+	3	124	c.107A>C	c.(106-108)AAC>ACC	p.N36T		NM_001042507	NP_001035972	P47929	LEG7_HUMAN	galectin-7B	36	Galectin.				apoptosis|heterophilic cell-cell adhesion	cytoplasm|extracellular space|nucleus	sugar binding				0						TTCCATGTAAACCTGCTGTGC	0.502													3	30					0	0	0.009096	0	0		C	39281340	C	C	39281340	3	2	11	1	0	0	0	0	1	0	0	0	8762	43	2	5	117	5	LGALS7B	19	39281340	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	332607	39281340	19847643	965	9357											
IL28A	282616	broad.mit.edu	37	chr19	39760138	39760138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcctcaggtgagggagcGccccatggctttggaggctg	5	9	15	12	1	2	1	1	1	1	0	3	3	2	3	3	5	1	2	3	5	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:39760138G>A	uc002oku.1	+	4	333	c.281G>A	c.(280-282)CGC>CAC	p.R94H		NM_172138	NP_742150	Q8IZJ0	IL28A_HUMAN	interleukin 28A precursor	94					response to virus	extracellular space	cytokine activity			ovary(1)|skin(1)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;5.39e-26)|all cancers(26;4.1e-23)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			GTGAGGGAGCGCCCCATGGCT	0.373													4	20					0	0	0.000602	0	0		A	39760138	A	A	39760138	3	1	11	1	0	0	0	0	1	0	0	0	7698	1087	38	1	295	1	IL28A	19	39760138	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	478798	39760138	19368845	966	9358											
TIMM50	92609	broad.mit.edu	37	chr19	39976416	39976416	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacacgctcgttttggagcTcaccggcgtcctcttgcatc	5	12	9	15	4	2	0	1	0	1	0	5	1	3	1	2	2	3	4	2	2	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:39976416T>C	uc002olu.1	+	6	903	c.770T>C	c.(769-771)CTC>CCC	p.L257P	TIMM50_uc002olt.1_RNA|TIMM50_uc002olv.1_5'UTR	NM_001001563	NP_001001563	Q3ZCQ8	TIM50_HUMAN	translocase of inner mitochondrial membrane 50	154	Mitochondrial intermembrane (Potential).|FCP1 homology.				mitochondrial membrane organization|protein transport|release of cytochrome c from mitochondria|transmembrane transport	integral to membrane|mitochondrial inner membrane presequence translocase complex|nuclear speck	interleukin-2 receptor binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|ribonucleoprotein binding|RNA binding			ovary(1)	1	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GTTTTGGAGCTCACCGGCGTC	0.453													6	44					0	0	0.00308	0	0		C	39976416	C	C	39976416	3	2	11	1	0	0	0	0	1	0	0	0	15938	1551	54	3	792	3	TIMM50	19	39976416	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	216278	39976416	19152567	967	9359											
ZNF780B	163131	broad.mit.edu	37	chr19	40542152	40542152	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcgagtaagttgtatgTgaagttgaaaggctttccca	11	13	12	5	1	0	2	0	2	0	0	2	4	1	2	1	1	0	5	1	1	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:40542152T>C	uc002omu.2	-	5	679	c.614A>G	c.(613-615)CAC>CGC	p.H205R	ZNF780B_uc002omv.2_Missense_Mutation_p.H57R	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	205	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					AAGTTGTATGTGAAGTTGAAA	0.363													13	72					0	0	0.001855	0	0		C	40542152	C	C	40542152	3	2	11	1	0	0	0	0	1	0	0	0	18178	1696	59	3	1891	3	ZNF780B	19	40542152	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	565736	40542152	18586831	968	9360											
LTBP4	8425	broad.mit.edu	37	chr19	41111033	41111033	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgctggcaagttctgccagTtgcactcctcgggcgcccgg	4	9	13	15	4	1	0	0	0	1	0	4	0	2	0	3	3	2	5	3	3	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:41111033T>C	uc002ooh.1	+	5	544	c.544T>C	c.(544-546)TTG>CTG	p.L182L	LTBP4_uc002oog.1_Silent_p.L145L|LTBP4_uc002ooi.1_Silent_p.L115L	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	182					growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GTTCTGCCAGTTGCACTCCTc	0.547													3	17					0	0	0.004672	0	0		C	41111033	C	C	41111033	2	2	11	1	0	0	0	0	0	0	0	1	9094	1722	60	3		3	LTBP4	19	41111033	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	568881	41111033	18017950	969	9361											
BCKDHA	593	broad.mit.edu	37	chr19	41916646	41916646	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggaattcatccagcccaaCgtcatctctggaatccccat	10	11	6	14	1	3	0	2	0	1	0	6	2	5	2	4	2	2	0	4	2	3	2	rs138025447	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:41916646C>T	uc002oqq.2	+	2	242	c.213C>T	c.(211-213)AAC>AAT	p.N71N	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Silent_p.N105N|BCKDHA_uc002oqp.1_Translation_Start_Site|BCKDHA_uc002oqr.2_Silent_p.N71N|BCKDHA_uc010xvz.1_Silent_p.N49N	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	71					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						TCCAGCCCAACGTCATCTCTG	0.597													10	60					0	0	0.00245	0	0		T	41916646	T	T	41916646	2	4	11	1	0	0	0	0	0	0	0	1	1360	535	19	1		1	BCKDHA	19	41916646	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	805613	41916646	17212337	970	9362											
ZNF574	64763	broad.mit.edu	37	chr19	42585199	42585199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcctggcagaacatcgccGcatccacacaggcgaacgac	11	3	11	16	5	0	1	0	0	0	1	2	3	1	1	3	2	2	2	3	2	2	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:42585199G>A	uc002osm.3	+	2	2610	c.2441G>A	c.(2440-2442)CGC>CAC	p.R814H	ZNF574_uc002osk.3_Missense_Mutation_p.R904H	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	814	C2H2-type 19.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				GAACATCGCCGCATCCACACA	0.612													7	38					0	0	0.00308	0	0		A	42585199	A	A	42585199	3	1	11	1	0	0	0	0	1	0	0	0	18031	1087	38	1	2443	1	ZNF574	19	42585199	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	668553	42585199	16543784	971	9363											
ZC3H4	23211	broad.mit.edu	37	chr19	47570462	47570462	+	Frame_Shift_Del	DEL	G	-	-																															cccgggcgctgccgggcgttGgggggccctgccgtggcagc																										TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:47570462delG	uc002pga.3	-	15	3101	c.3063delC	c.(3061-3063)CCCfs	p.P1021fs	ZC3H4_uc002pgb.1_RNA	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	1021							nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		GCCGGGCGTTGGGGGGCCCTG	0.701													6	9	---	---	---	---						.	-	47570462	-	-	47570462	7	5	11	1	0	1	0	1	0	0	0	0	17595	1335	47	0	852	0	ZC3H4	19	47570462	Frame_Shift_Del	DEL	G	TCGA-BR-4256-01A-01D-1126-08	4985263	47570462	11558521	972	9364											
TMEM143	55260	broad.mit.edu	37	chr19	48835272	48835272	+	RNA	DEL	A	-	-																															cgaaactccatctcaagaacAaaaaaaaatctgcaaatctg																										TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:48835272delA	uc002piw.1	-	6		c.2395delT						Q96AN5	TM143_HUMAN	Homo sapiens cDNA FLJ10922 fis, clone OVARC1000420.							integral to membrane|mitochondrion					0		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000149)|all cancers(93;0.000198)|Epithelial(262;0.0151)|GBM - Glioblastoma multiforme(486;0.0157)		tctcaagaacaaaaaaaaaTC	0.229													2	4	---	---	---	---						.	-	48835272	-	-	48835272	6	5	11	0	1	1	0	1	0	0	0	0	16082	145	5	0		0	TMEM143	19	48835272	RNA	DEL	A	TCGA-BR-4256-01A-01D-1126-08	1264810	48835272	10293711	973	9365											
DHDH	27294	broad.mit.edu	37	chr19	49442913	49442913	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccatggtctttggagggCagaagccagagaagatttct	10	10	12	9	0	2	3	0	0	2	3	3	5	3	4	3	3	1	1	3	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:49442913C>T	uc002ple.1	+	4	614	c.574C>T	c.(574-576)CAG>TAG	p.Q192*		NM_014475	NP_055290	Q9UQ10	DHDH_HUMAN	dimeric dihydrodiol dehydrogenase	192					carbohydrate metabolic process		binding|D-xylose 1-dehydrogenase (NADP+) activity|electron carrier activity|NAD(P)+ transhydrogenase activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000158)|all cancers(93;0.000258)|Epithelial(262;0.0173)|GBM - Glioblastoma multiforme(486;0.0179)		CTTTGGAGGGCAGAAGCCAGA	0.562													14	86					0	0	0.00245	0	0		T	49442913	T	T	49442913	4	4	11	1	0	0	0	0	0	1	0	0	4485	711	25	2	588	2	DHDH	19	49442913	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	607641	49442913	9686070	974	9366											
VRK3	51231	broad.mit.edu	37	chr19	50482394	50482394	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtcatatggagacacaCgcagatcctgcagcaaagct	12	7	12	10	1	1	2	1	0	0	2	2	3	2	2	1	3	3	4	1	3	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:50482394C>T	uc002prg.2	-	14	1480	c.1382G>A	c.(1381-1383)CGT>CAT	p.R461H	VRK3_uc002prh.1_Missense_Mutation_p.R461H|VRK3_uc002pri.1_Missense_Mutation_p.R411H|VRK3_uc010ens.2_Missense_Mutation_p.R461H|VRK3_uc010ybl.1_Missense_Mutation_p.R411H|VRK3_uc010ybm.1_Missense_Mutation_p.R230H	NM_016440	NP_057524	Q8IV63	VRK3_HUMAN	vaccinia related kinase 3 isoform 1	461						nucleus	ATP binding|protein kinase activity			stomach(1)|skin(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00166)|OV - Ovarian serous cystadenocarcinoma(262;0.00652)		TGGAGACACACGCAGATCCTG	0.572													6	41					0	0	0.001168	0	0		T	50482394	T	T	50482394	3	4	11	1	0	0	0	0	1	0	0	0	17247	536	19	1	46	1	VRK3	19	50482394	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1039481	50482394	8646589	975	9367											
NAPSA	9476	broad.mit.edu	37	chr19	50861861	50861861	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatccgaggtccgctccGcgagtgcgagcgcgcgccag	5	4	14	18	8	0	0	0	0	0	0	3	3	3	0	6	1	2	1	6	1	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:50861861G>A	uc002prx.2	-	9	1265	c.1212C>T	c.(1210-1212)CGC>CGT	p.R404R	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	404					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		GGTCCGCTCCGCGAGTGCGAG	0.697													5	16					0	0	0.000602	0	0		A	50861861	A	A	50861861	2	1	11	1	0	0	0	0	0	0	0	1	10184	1074	38	1		1	NAPSA	19	50861861	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	379467	50861861	8267122	976	9368											
KLK4	9622	broad.mit.edu	37	chr19	51410327	51410327	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtacccgttgcagatcagggGccccccagagtcaccctgtt	7	8	11	15	1	2	2	2	0	0	2	2	2	2	2	5	2	2	4	5	2	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:51410327G>C	uc002pua.1	-	5	628	c.628C>G	c.(628-630)CCC>GCC	p.P210A	KLK4_uc002pty.1_3'UTR|KLK4_uc002ptz.1_RNA|KLK4_uc002pub.1_Missense_Mutation_p.P115A|KLK4_uc002puc.1_RNA	NM_004917	NP_004908	Q9Y5K2	KLK4_HUMAN	kallikrein-related peptidase 4 preproprotein	210	Peptidase S1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00624)|GBM - Glioblastoma multiforme(134;0.00878)		CAGATCAGGGGCCCCCCAGAG	0.527													11	39					0	0	0.010729	0	0		C	51410327	C	C	51410327	3	2	11	1	0	0	0	0	1	0	0	0	8422	1203	42	5	140	5	KLK4	19	51410327	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	548466	51410327	7718656	977	9369											
KLK8	11202	broad.mit.edu	37	chr19	51503767	51503767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggccctggaacaaggccGcctgccaaggctgcgaatgg	8	5	15	13	2	0	0	0	0	0	0	0	2	0	1	4	5	3	2	4	5	4	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:51503767G>A	uc002pur.1	-	3	322	c.143C>T	c.(142-144)GCG>GTG	p.A48V	KLK9_uc002puw.1_RNA|KLK8_uc002puq.1_Missense_Mutation_p.A93V|KLK8_uc002pus.1_Intron|KLK8_uc002put.1_Intron|KLK8_uc002puu.1_Missense_Mutation_p.A48V|KLK9_uc002puv.1_Intron	NM_007196	NP_009127	O60259	KLK8_HUMAN	kallikrein 8 isoform 1 preproprotein	48	Peptidase S1.				cell death|keratinocyte proliferation|memory|negative regulation of axon regeneration|negative regulation of myelination|neuron projection morphogenesis|proteolysis|regulation of synapse organization|response to wounding	cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(1)	1		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.0033)|GBM - Glioblastoma multiforme(134;0.00888)		GAACAAGGCCGCCTGCCAAGG	0.597													5	28					0	0	0.001168	0	0		A	51503767	A	A	51503767	3	1	11	1	0	0	0	0	1	0	0	0	8426	1087	38	1	655	1	KLK8	19	51503767	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	93440	51503767	7625216	978	9370											
FPR1	2357	broad.mit.edu	37	chr19	52249649	52249649	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaccggatgatgcctctcAccgtcaacatggcaacggcc	10	7	10	14	3	2	2	2	2	1	0	3	3	2	3	4	3	4	1	4	3	3	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:52249649A>G	uc002pxq.2	-	2	694	c.599T>C	c.(598-600)GTG>GCG	p.V200A		NM_002029	NP_002020	P21462	FPR1_HUMAN	formyl peptide receptor 1	200	Extracellular (Potential).				activation of MAPK activity|cellular component movement|chemotaxis|G-protein signaling, coupled to cAMP nucleotide second messenger|nitric oxide mediated signal transduction	endosome|integral to membrane|plasma membrane	N-formyl peptide receptor activity			ovary(1)|lung(1)|skin(1)	3		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00106)|OV - Ovarian serous cystadenocarcinoma(262;0.018)	Nedocromil(DB00716)	GATGCCTCTCACCGTCAACAT	0.512													9	60					0	0	0.00499	0	0		G	52249649	G	G	52249649	3	3	11	1	0	0	0	0	1	0	0	0	6052	159	6	3	457	3	FPR1	19	52249649	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	745882	52249649	6879334	979	9371											
ZNF808	388558	broad.mit.edu	37	chr19	53056872	53056872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaatctttcccatgtaatGagagtggcaaagcctttaat	15	12	7	7	0	1	1	0	1	1	1	2	2	2	1	2	1	1	2	2	1	5	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:53056872G>A	uc010epq.1	+	5	880	c.703G>A	c.(703-705)GAG>AAG	p.E235K	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	235	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		CCCATGTAATGAGAGTGGCAA	0.363													17	174					0	0	0.005443	0	0		A	53056872	A	A	53056872	3	1	11	1	0	0	0	0	1	0	0	0	18198	1291	45	4	713	4	ZNF808	19	53056872	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	807223	53056872	6072111	980	9372											
ZNF611	81856	broad.mit.edu	37	chr19	53217351	53217351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcaggcatttccactctGccaatgagaattctatagcc	10	12	8	11	0	3	1	1	1	2	1	4	2	4	1	3	2	2	2	3	2	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:53217351G>A	uc002pzz.2	-	6	424	c.107C>T	c.(106-108)GCA>GTA	p.A36V	ZNF611_uc010eqc.2_5'UTR|ZNF611_uc010ydo.1_Intron|ZNF611_uc010ydr.1_Intron|ZNF611_uc010ydp.1_Missense_Mutation_p.A36V|ZNF611_uc010ydq.1_Missense_Mutation_p.A36V|ZNF611_uc002qaa.3_5'UTR	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	36	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		TTTCCACTCTGCCAATGAGAA	0.448													20	128					0	0	0.00278	0	0		A	53217351	A	A	53217351	3	1	11	1	0	0	0	0	1	0	0	0	18062	1319	46	2	2018	2	ZNF611	19	53217351	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	160479	53217351	5911632	981	9373											
VN1R2	317701	broad.mit.edu	37	chr19	53762612	53762612	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacctttgcattatgttaCgccctttccttcatcaccta	8	15	4	14	1	2	0	2	0	0	0	3	0	3	0	4	0	3	3	4	0	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:53762612C>T	uc002qbi.2	+	1	1068	c.984C>T	c.(982-984)TAC>TAT	p.Y328Y		NM_173856	NP_776255	Q8NFZ6	VN1R2_HUMAN	vomeronasal 1 receptor 2	328	Helical; Name=6; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0				GBM - Glioblastoma multiforme(134;0.00301)		CATTATGTTACGCCCTTTCCT	0.443													23	146					0	0	0.00278	0	0		T	53762612	T	T	53762612	2	4	11	1	0	0	0	0	0	0	0	1	17205	547	19	1		1	VN1R2	19	53762612	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	545261	53762612	5366371	982	9374											
VN1R2	317701	broad.mit.edu	37	chr19	53762736	53762736	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccttttgttctcatgtgcCgtgaccccagcagatccagg	6	11	10	14	1	1	2	1	1	1	1	3	2	2	2	5	1	2	2	5	1	0	3	rs141012802	by1000genomes	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:53762736C>A	uc002qbi.2	+	1	1192	c.1108C>A	c.(1108-1110)CGT>AGT	p.R370S		NM_173856	NP_776255	Q8NFZ6	VN1R2_HUMAN	vomeronasal 1 receptor 2	370	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0				GBM - Glioblastoma multiforme(134;0.00301)		TCTCATGTGCCGTGACCCCAG	0.428													17	118					3.32936e-07	3.75775e-07	0.006122	1	0		A	53762736	A	A	53762736	3	1	11	1	0	0	0	0	1	0	0	0	17205	652	23	5	1110	5	VN1R2	19	53762736	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	124	53762736	5366247	983	9375											
LILRB5	10990	broad.mit.edu	37	chr19	54758702	54758702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccctgggctgaggtcacaGgactcatggagaattcagcc	10	7	12	12	0	3	2	3	1	0	1	3	4	3	3	2	4	1	1	2	4	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:54758702G>A	uc002qex.2	-	6	1262	c.1151C>T	c.(1150-1152)CCT>CTT	p.P384L	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.P375L|LILRB5_uc002qey.2_Missense_Mutation_p.P384L|LILRB5_uc002qez.2_Missense_Mutation_p.P284L|LILRB5_uc002qfa.1_Missense_Mutation_p.P274L|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	384	Ig-like C2-type 4.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TGAGGTCACAGGACTCATGGA	0.557													7	64					0	0	0.00308	0	0		A	54758702	A	A	54758702	3	1	11	1	0	0	0	0	1	0	0	0	8810	1000	35	4	656	4	LILRB5	19	54758702	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	995966	54758702	4370281	984	9376											
KIR2DL3	3804	broad.mit.edu	37	chr19	55253679	55253679	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctgttactcactccccCtatcagttgtcagctcccag	6	13	7	15	0	4	0	3	0	1	0	6	0	6	0	3	1	2	4	3	1	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:55253679C>A	uc002qgv.2	+	3	342	c.324C>A	c.(322-324)CCC>CCA	p.P108P	KIR2DL3_uc002qgx.2_Silent_p.P108P|KIR2DL3_uc002qgy.2_Silent_p.P108P|KIR2DL3_uc010erw.1_Silent_p.P108P|KIR2DL1_uc002qgz.1_Silent_p.P18P|KIR2DL3_uc002qha.1_RNA	NM_015868	NP_056952	P43628	KI2L3_HUMAN	killer cell immunoglobulin-like receptor, two	108	Extracellular (Potential).				immune response|regulation of immune response	integral to plasma membrane	antigen binding|protein binding|receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		CTCACTCCCCCTATCAGTTGT	0.527													14	140					8.4185e-14	9.82409e-14	0.012213	1	0		A	55253679	A	A	55253679	2	1	11	1	0	0	0	0	0	0	0	1	8333	668	24	5		5	KIR2DL3	19	55253679	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	494977	55253679	3875304	985	9377											
NLRP2	55655	broad.mit.edu	37	chr19	55489190	55489190	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcttcaaaacagaagcacaAggtgggtgtcaggacctcca	13	6	11	11	1	2	1	2	0	0	1	3	2	3	2	2	3	2	2	2	3	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:55489190A>C	uc002qij.2	+	4	482	c.396A>C	c.(394-396)CAA>CAC	p.Q132H	NLRP2_uc010yfp.1_Missense_Mutation_p.Q109H|NLRP2_uc010esn.2_Intron|NLRP2_uc010eso.2_Missense_Mutation_p.Q132H|NLRP2_uc010esp.2_Missense_Mutation_p.Q132H	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	132					apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		CAGAAGCACAAGGTGGGTGTC	0.527													12	74					0	0	0.010729	0	0		C	55489190	C	C	55489190	3	2	11	1	0	0	0	0	1	0	0	0	10496	86	3	5	406	5	NLRP2	19	55489190	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	235511	55489190	3639793	986	9378											
TMEM190	147744	broad.mit.edu	37	chr19	55889219	55889219	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggtctggacgtgcagcggCctcctcctcctgagctgcag	4	9	13	15	2	1	1	0	1	1	0	4	2	4	2	4	3	4	3	4	3	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:55889219C>T	uc002qkt.1	+	4	288	c.270C>T	c.(268-270)GGC>GGT	p.G90G		NM_139172	NP_631911	Q8WZ59	TM190_HUMAN	transmembrane protein 190 precursor	90	Helical; (Potential).					integral to membrane					0	Breast(117;0.191)		BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		CGTGCAGCGGCCTCCTCCTCC	0.697													7	15					0	0	0.010729	0	0		T	55889219	T	T	55889219	2	4	11	1	0	0	0	0	0	0	0	1	16139	726	26	2		2	TMEM190	19	55889219	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	400029	55889219	3239764	987	9379											
NLRP9	338321	broad.mit.edu	37	chr19	56244332	56244332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctttatgagttttggatGccgcaacataaaatagtgtt	12	14	10	5	1	0	1	0	1	0	0	0	3	0	2	1	1	3	4	1	1	5	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:56244332G>A	uc002qly.2	-	2	893	c.865C>T	c.(865-867)CAT>TAT	p.H289Y		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	289	NACHT.					cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		AGTTTTGGATGCCGCAACATA	0.383													8	71					0	0	0.006214	0	0		A	56244332	A	A	56244332	3	1	11	1	0	0	0	0	1	0	0	0	10503	1319	46	2	2142	2	NLRP9	19	56244332	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	355113	56244332	2884651	988	9380											
ZNF667	63934	broad.mit.edu	37	chr19	56953331	56953331	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aattctctggtgaagcatcaGgggtgaaatcctattaaata	14	12	9	6	0	2	2	1	2	1	0	4	2	3	2	1	3	1	1	1	3	7	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:56953331G>T	uc002qnd.2	-	5	1195	c.1033C>A	c.(1033-1035)CTG>ATG	p.L345M	ZNF667_uc010etl.2_Missense_Mutation_p.L127M|ZNF667_uc002qne.2_Missense_Mutation_p.L345M|ZNF667_uc010etm.2_Missense_Mutation_p.L288M	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	345	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		TGAAGCATCAGGGGTGAAATC	0.393													11	88					3.07112e-06	3.40743e-06	0.010729	1	0		T	56953331	T	T	56953331	3	4	11	1	0	0	0	0	1	0	0	0	18099	991	35	5	803	5	ZNF667	19	56953331	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	708999	56953331	2175652	989	9381											
ZNF548	147694	broad.mit.edu	37	chr19	57910578	57910578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcacaccggagaaaggcCgtatgagtgcagggaatgtg	12	7	15	7	2	1	2	1	1	0	1	1	4	1	3	2	3	1	3	2	3	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:57910578C>T	uc002qom.2	+	3	1173	c.923C>T	c.(922-924)CCG>CTG	p.P308L	ZNF547_uc002qpm.3_Intron|ZNF548_uc002qon.2_Missense_Mutation_p.P311L	NM_152909	NP_690873	Q8NEK5	ZN548_HUMAN	zinc finger protein 548	308					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GGAGAAAGGCCGTATGAGTGC	0.448													7	95					0	0	0.00308	0	0		T	57910578	T	T	57910578	3	4	11	1	0	0	0	0	1	0	0	0	18005	652	23	1	973	1	ZNF548	19	57910578	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	957247	57910578	1218405	990	9382											
ZNF274	10782	broad.mit.edu	37	chr19	58723003	58723003	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcccgacacagaggacCgagtaccgcgatgtgatgct	9	6	14	12	4	0	2	0	1	0	1	0	6	0	3	3	2	2	2	3	2	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:58723003C>T	uc002qrq.1	+	9	1389	c.930C>T	c.(928-930)ACC>ACT	p.T310T	ZNF274_uc002qrr.1_Silent_p.T278T|ZNF274_uc002qrs.1_Silent_p.T205T|ZNF274_uc010eum.1_Silent_p.T69T	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	310	KRAB 2.				viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		CACAGAGGACCGAGTACCGCG	0.607													10	62					0	0	0.013537	0	0		T	58723003	T	T	58723003	2	4	11	1	0	0	0	0	0	0	0	1	17834	639	23	1		1	ZNF274	19	58723003	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	812425	58723003	405980	991	9383											
ZNF324	25799	broad.mit.edu	37	chr19	58980632	58980632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccagagggccctgtaccGccgcgtgatgctagacaact	9	6	12	14	3	0	3	0	1	0	2	0	3	0	3	4	1	4	2	4	1	3	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr19:58980632G>A	uc002qsw.1	+	2	174	c.80G>A	c.(79-81)CGC>CAC	p.R27H	ZNF324_uc002qsx.1_5'Flank	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	27	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		GCCCTGTACCGCCGCGTGATG	0.572													4	44					0	0	0.009096	0	0		A	58980632	A	A	58980632	3	1	11	1	0	0	0	0	1	0	0	0	17869	1087	38	1	82	1	ZNF324	19	58980632	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	257629	58980632	148351	992	9384											
TMC2	117532	broad.mit.edu	37	chr20	2593878	2593878	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtctgacatgctggtaacGtacatcaccatcctgctggg	8	11	11	11	1	2	1	1	1	1	0	3	1	3	1	2	2	4	4	2	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:2593878G>A	uc002wgf.1	+	14	1797	c.1782G>A	c.(1780-1782)ACG>ACA	p.T594T	TMC2_uc002wgg.1_Silent_p.T578T|TMC2_uc010zpw.1_Silent_p.T426T|TMC2_uc010zpx.1_Silent_p.T425T	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	594	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						TGCTGGTAACGTACATCACCA	0.557													5	30					0	0	0.001168	0	0		A	2593878	A	A	2593878	2	1	11	1	0	0	0	0	0	0	0	1	16010	1132	40	1		1	TMC2	20	2593878	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08		2593878	60431642	993	9385											
ISM1	140862	broad.mit.edu	37	chr20	13273089	13273089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaagcgaggagtttaatGccaccaaactgtttgaagtt	12	10	12	7	2	0	1	0	1	0	0	0	4	0	3	2	2	3	3	2	2	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:13273089G>A	uc010gce.1	+	5	862	c.856G>A	c.(856-858)GCC>ACC	p.A286T	TASP1_uc010zri.1_Intron	NM_080826	NP_543016	B1AKI9	ISM1_HUMAN	isthmin 1 homolog precursor	286						extracellular region					0						GGAGTTTAATGCCACCAAACT	0.408													6	24					0	0	0.001984	0	0		A	13273089	A	A	13273089	3	1	11	1	0	0	0	0	1	0	0	0	7876	1319	46	2	874	2	ISM1	20	13273089	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	10679211	13273089	49752431	994	9386											
SEL1L2	80343	broad.mit.edu	37	chr20	13971151	13971151	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaccccaagaattatcaaTatctctattaacagagacaa	17	10	5	9	0	2	3	1	1	1	2	3	4	2	3	2	0	1	0	2	0	8	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:13971151T>C	uc010gcf.2	-	1	112	c.30A>G	c.(28-30)ATA>ATG	p.I10M	SEL1L2_uc002woq.3_Translation_Start_Site|SEL1L2_uc010zrl.1_Missense_Mutation_p.I10M|SEL1L2_uc002wor.2_Intron	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	10						integral to membrane	binding			ovary(2)	2						GAATTATCAATATCTCTATTA	0.423													9	58					0	0	0.006214	0	0		C	13971151	C	C	13971151	3	2	11	1	0	0	0	0	1	0	0	0	14036	1396	49	3	2116	3	SEL1L2	20	13971151	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	698062	13971151	49054369	995	9387											
MACROD2	140733	broad.mit.edu	37	chr20	13976403	13976403	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaaagccagccacccccaCggcaacatgtaccccagcaa	13	4	6	18	1	0	0	0	0	0	0	0	0	0	0	6	1	5	3	6	1	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:13976403C>T	uc002wou.2	+	1	258	c.-6C>T	c.(-8--4)CACGG>CATGG		MACROD2_uc002wot.2_Translation_Start_Site|SEL1L2_uc002wor.2_5'Flank|MACROD2_uc002wos.2_RNA	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				GCCACCCCCACGGCAACATGT	0.443													3	16					0	0	0.004672	0	0		T	13976403	T	T	13976403	1	4	11	1	0	0	0	0	0	0	0	0	9164	551	19	1		1	MACROD2	20	13976403	Translation_Start_Site	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5252	13976403	49049117	996	9388											
PCSK2	5126	broad.mit.edu	37	chr20	17434530	17434530	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacggcaggactgccctgtaCgacgagagctgctcttccac	8	7	12	14	3	1	1	0	0	1	1	2	5	2	2	2	2	4	4	2	2	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:17434530C>T	uc002wpm.2	+	9	1349	c.1029C>T	c.(1027-1029)TAC>TAT	p.Y343Y	PCSK2_uc002wpl.2_Silent_p.Y324Y|PCSK2_uc010zrm.1_Silent_p.Y308Y	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	343	Catalytic.				enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity	p.Y343Y(1)		ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CTGCCCTGTACGACGAGAGCT	0.597													9	49					0	0	0.010729	0	0		T	17434530	T	T	17434530	2	4	11	1	0	0	0	0	0	0	0	1	11620	547	19	1		1	PCSK2	20	17434530	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3458127	17434530	45590990	997	9389											
PCSK2	5126	broad.mit.edu	37	chr20	17462302	17462302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggaaggaaaattttgtcCgctacctggagcatgtccag	11	9	13	8	1	0	0	0	0	0	0	2	3	2	3	3	4	2	2	3	4	4	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:17462302C>T	uc002wpm.2	+	12	1824	c.1504C>T	c.(1504-1506)CGC>TGC	p.R502C	PCSK2_uc002wpl.2_Missense_Mutation_p.R483C|PCSK2_uc010zrm.1_Missense_Mutation_p.R467C|PCSK2_uc002wpn.2_Missense_Mutation_p.R156C	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	502					enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AAATTTTGTCCGCTACCTGGA	0.517													12	67					0	0	0.003163	0	0		T	17462302	T	T	17462302	3	4	11	1	0	0	0	0	1	0	0	0	11620	652	23	1	1550	1	PCSK2	20	17462302	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	27772	17462302	45563218	998	9390											
SNX5	27131	broad.mit.edu	37	chr20	17937586	17937586	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgttacttacctttgtgtgCactgtaaatttgactttgtc	8	19	7	7	0	0	1	0	1	0	0	1	1	0	1	1	0	3	3	1	0	4	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:17937586C>T	uc002wqc.2	-	2	233	c.147G>A	c.(145-147)GTG>GTA	p.V49V	SNX5_uc002wqb.2_RNA|SNX5_uc002wqd.2_Silent_p.V49V|SNX5_uc002wqe.2_5'UTR|SNX5_uc010zrt.1_Silent_p.V49V	NM_014426	NP_055241	Q9Y5X3	SNX5_HUMAN	sorting nexin 5	49	PX.				cell communication|pinocytosis|protein transport	cytoplasmic vesicle membrane|early endosome membrane|extrinsic to endosome membrane|extrinsic to internal side of plasma membrane|macropinocytic cup|phagocytic cup|ruffle	phosphatidylinositol binding			large_intestine(1)	1						CCTTTGTGTGCACTGTAAATT	0.438													4	38					0	0	0.009096	0	0		T	17937586	T	T	17937586	2	4	11	1	0	0	0	0	0	0	0	1	14930	697	25	2		2	SNX5	20	17937586	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	475284	17937586	45087934	999	9391											
C20orf72	92667	broad.mit.edu	37	chr20	17956339	17956339	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcagacgtctttttacAagggaaacggttccacgaag	11	12	9	9	3	2	1	1	0	1	1	3	3	3	2	1	2	2	1	1	2	4	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:17956339A>G	uc002wqh.2	+	3	606	c.524A>G	c.(523-525)CAA>CGA	p.Q175R	C20orf72_uc010gco.2_Intron|C20orf72_uc010gcp.2_RNA	NM_052865	NP_443097	Q9BQP7	CT072_HUMAN	hypothetical protein LOC92667	175											0						GTCTTTTTACAAGGGAAACGG	0.408													10	39					0	0	0.008291	0	0		G	17956339	G	G	17956339	3	3	11	1	0	0	0	0	1	0	0	0	2121	130	5	3	530	3	C20orf72	20	17956339	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	18753	17956339	45069181	1000	9392											
RALGAPA2	57186	broad.mit.edu	37	chr20	20493316	20493316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctcttgagcattttggCgcaaaatgacctcaatgatt	11	13	7	10	1	2	3	1	3	1	0	3	3	3	3	2	1	1	2	2	1	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:20493316C>T	uc002wrz.2	-	32	4840	c.4697G>A	c.(4696-4698)CGC>CAC	p.R1566H	RALGAPA2_uc010gcx.2_Missense_Mutation_p.R1270H|RALGAPA2_uc010zsg.1_Missense_Mutation_p.R1014H|RALGAPA2_uc002wsa.1_Missense_Mutation_p.R338H	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1566					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						AGCATTTTGGCGCAAAATGAC	0.473													17	83					0	0	0.00499	0	0		T	20493316	T	T	20493316	3	4	11	1	0	0	0	0	1	0	0	0	13039	768	27	1	956	1	RALGAPA2	20	20493316	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2536977	20493316	42532204	1001	9393											
GGTLC1	92086	broad.mit.edu	37	chr20	23965921	23965921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccaccagccatgcggaCgatggcttgcaccacagcaa	11	4	10	16	2	0	0	0	0	0	0	0	2	0	1	5	2	5	3	5	2	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:23965921C>T	uc002wts.2	-	6	743	c.610G>A	c.(610-612)GTC>ATC	p.V204I	GGTLC1_uc002wtu.2_Missense_Mutation_p.V204I	NM_178312	NP_842564	Q9BX51	GGTL1_HUMAN	gamma-glutamyltransferase light chain 1	204							gamma-glutamyltransferase activity			ovary(1)	1						GCCATGCGGACGATGGCTTGC	0.622													9	48					0	0	0.003163	0	0		T	23965921	T	T	23965921	3	4	11	1	0	0	0	0	1	0	0	0	6380	536	19	1	71	1	GGTLC1	20	23965921	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3472605	23965921	39059599	1002	9394											
HCK	3055	broad.mit.edu	37	chr20	30659469	30659469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttctgtctgctgcaggatgGggtgcatgaagtccaagttc	7	12	13	9	0	2	1	0	1	2	0	4	2	3	2	1	3	3	4	1	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:30659469G>A	uc002wxh.2	+	2	238	c.67G>A	c.(67-69)GGG>AGG	p.G23R	HCK_uc010gdy.2_Missense_Mutation_p.G2R|HCK_uc002wxi.2_Missense_Mutation_p.G2R	NM_002110	NP_002101	P08631	HCK_HUMAN	hemopoietic cell kinase isoform p61HCK	23				G->A: Myristoylation and palmitoylation are abolished, cytoplasmic and no calveolar localization; in isoform p59- HCK.	interspecies interaction between organisms|mesoderm development|regulation of defense response to virus by virus|viral reproduction	caveola|cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|ovary(2)|central_nervous_system(2)|pancreas(1)	9			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CTGCAGGATGGGGTGCATGAA	0.587													9	73					0	0	0.006214	0	0		A	30659469	A	A	30659469	3	1	11	1	0	0	0	0	1	0	0	0	7010	1232	43	4	79	4	HCK	20	30659469	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	6693548	30659469	32366051	1003	9395											
KIAA0406	9675	broad.mit.edu	37	chr20	36640099	36640099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatgcagagccagatgaCgcagatttaaagagatccca	15	6	12	8	1	0	5	0	1	0	4	1	8	1	6	2	1	2	2	2	1	2	2	rs141770247	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:36640099C>T	uc002xhl.2	-	3	2329	c.2120G>A	c.(2119-2121)CGT>CAT	p.R707H	KIAA0406_uc002xhm.2_Missense_Mutation_p.R707H	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	707							binding				0		Myeloproliferative disorder(115;0.00874)				AGCCAGATGACGCAGATTTAA	0.483													8	53					0	0	0.00308	0	0		T	36640099	T	T	36640099	3	4	11	1	0	0	0	0	1	0	0	0	8189	536	19	1	1177	1	KIAA0406	20	36640099	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5980630	36640099	26385421	1004	9396											
LPIN3	64900	broad.mit.edu	37	chr20	39986566	39986566	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggcgcgggccattggcaTggcggacctcaccaaggggt	6	6	16	13	4	1	0	1	0	0	0	2	1	1	1	3	7	0	1	3	7	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:39986566T>C	uc002xjx.2	+	17	2175	c.2084T>C	c.(2083-2085)ATG>ACG	p.M695T	LPIN3_uc010ggh.2_Missense_Mutation_p.M696T|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	695	C-LIP.				fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				GCCATTGGCATGGCGGACCTC	0.632													7	20					0	0	0.00308	0	0		C	39986566	C	C	39986566	3	2	11	1	0	0	0	0	1	0	0	0	8938	1464	51	3	2146	3	LPIN3	20	39986566	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	3346467	39986566	23038954	1005	9397											
CHD6	84181	broad.mit.edu	37	chr20	40033290	40033290	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccccagcctgtgccccatgTtctctctctgcgggcaaagg	5	10	10	16	1	2	0	0	0	2	0	5	0	3	0	5	2	3	2	5	2	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:40033290T>C	uc002xka.1	-	37	8269	c.8091A>G	c.(8089-8091)GAA>GAG	p.E2697E	CHD6_uc002xjz.1_Silent_p.E234E	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2697					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				GTGCCCCATGTTCTCTCTCTG	0.522													14	98					0	0	0.008871	0	0		C	40033290	C	C	40033290	2	2	11	1	0	0	0	0	0	0	0	1	3332	1722	60	3		3	CHD6	20	40033290	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	46724	40033290	22992230	1006	9398											
PTPRT	11122	broad.mit.edu	37	chr20	40727077	40727077	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctgggcagtgtccatcTcattcagcatcaccacagag	10	9	8	14	0	3	1	3	0	1	1	5	1	4	1	3	1	2	2	3	1	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:40727077T>A	uc002xkg.2	-	27	4014	c.3830A>T	c.(3829-3831)GAG>GTG	p.E1277V	PTPRT_uc010ggj.2_Missense_Mutation_p.E1296V|PTPRT_uc010ggi.2_Missense_Mutation_p.E480V	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1277	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				AGTGTCCATCTCATTCAGCAT	0.607													10	63					0	0	0.008291	0	0		A	40727077	A	A	40727077	3	1	11	1	0	0	0	0	1	0	0	0	12837	1551	54	5	515	5	PTPRT	20	40727077	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	693787	40727077	22298443	1007	9399											
PTPRT	11122	broad.mit.edu	37	chr20	40735471	40735471	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcccggagctcacgcacGcagttgaagatgtccaccac	9	6	12	14	3	1	2	1	1	0	1	2	3	2	3	3	2	1	4	3	2	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:40735471G>A	uc002xkg.2	-	24	3529	c.3345C>T	c.(3343-3345)TGC>TGT	p.C1115C	PTPRT_uc010ggj.2_Silent_p.C1134C|PTPRT_uc010ggi.2_Silent_p.C318C	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1115	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GCTCACGCACGCAGTTGAAGA	0.582													8	66					0	0	0.00308	0	0		A	40735471	A	A	40735471	2	1	11	1	0	0	0	0	0	0	0	1	12837	1079	38	1		1	PTPRT	20	40735471	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	8394	40735471	22290049	1008	9400											
SERINC3	10955	broad.mit.edu	37	chr20	43138579	43138579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttccattcgatttacccatGattcattccaagaatgagca	12	13	5	11	1	1	3	1	2	0	1	4	4	3	3	3	0	2	1	3	0	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:43138579G>A	uc002xme.2	-	5	700	c.566C>T	c.(565-567)TCA>TTA	p.S189L	SERINC3_uc002xmf.1_Missense_Mutation_p.S189L|SERINC3_uc010ggs.1_Missense_Mutation_p.S182L|SERINC3_uc010zwp.1_Missense_Mutation_p.S134L	NM_198941	NP_945179	Q13530	SERC3_HUMAN	tumor differentially expressed protein 1	189	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding			skin(3)	3		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.000291)|COAD - Colon adenocarcinoma(18;0.00189)			ATTTACCCATGATTCATTCCA	0.458													15	122					0	0	0.003163	0	0		A	43138579	A	A	43138579	3	1	11	1	0	0	0	0	1	0	0	0	14106	1294	45	4	879	4	SERINC3	20	43138579	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2403108	43138579	19886941	1009	9401											
ADA	100	broad.mit.edu	37	chr20	43248966	43248966	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctgaaggtggcatcccaTaggctttatagagcaggtcg	10	9	14	8	1	0	2	0	1	0	1	2	2	1	2	1	5	1	4	1	5	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:43248966T>C	uc002xmj.2	-	11	1180	c.1052A>G	c.(1051-1053)TAT>TGT	p.Y351C	ADA_uc010ggt.2_RNA	NM_000022	NP_000013	P00813	ADA_HUMAN	adenosine deaminase	351					adenosine catabolic process|cell adhesion|hypoxanthine salvage|inosine biosynthetic process|negative regulation of adenosine receptor signaling pathway|purine nucleotide salvage|purine ribonucleoside monophosphate biosynthetic process|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation	cell junction|cytoplasmic membrane-bounded vesicle lumen|cytosol|external side of plasma membrane|lysosome	adenosine deaminase activity|protein binding|zinc ion binding			pancreas(2)|ovary(1)	3		all_lung(126;1.24e-07)|Lung NSC(126;1.94e-07)|Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)		Adenosine(DB00640)|Cladribine(DB00242)|Dipyridamole(DB00975)|Erythromycin(DB00199)|Fludarabine(DB01073)|Idoxuridine(DB00249)|Nelarabine(DB01280)|Pentostatin(DB00552)|Theophylline(DB00277)|Vidarabine(DB00194)	TGGCATCCCATAGGCTTTATA	0.537									Adenosine_Deaminase_Deficiency				23	88					0	0	0.00278	0	0		C	43248966	C	C	43248966	3	2	11	1	0	0	0	0	1	0	0	0	230	1406	49	3	47	3	ADA	20	43248966	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	110387	43248966	19776554	1010	9402											
PREX1	57580	broad.mit.edu	37	chr20	47266542	47266542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacacaggtaccttgctccGggtcaaggccgatgagggag	10	6	14	11	2	1	1	1	1	0	0	2	3	2	2	3	4	2	2	3	4	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:47266542G>A	uc002xtw.1	-	24	3043	c.3020C>T	c.(3019-3021)CCG>CTG	p.P1007L	PREX1_uc002xtv.1_Missense_Mutation_p.P304L	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1007					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			ACCTTGCTCCGGGTCAAGGCC	0.448													5	51					0	0	0.00308	0	0		A	47266542	A	A	47266542	3	1	11	1	0	0	0	0	1	0	0	0	12498	1116	39	1	2027	1	PREX1	20	47266542	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	4017576	47266542	15758978	1011	9403											
ZNFX1	57169	broad.mit.edu	37	chr20	47879934	47879934	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtacttctgcaggtactgTtcccgtaggacaccacgcat	9	11	9	12	2	1	0	0	0	1	0	2	1	2	1	2	2	3	6	2	2	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:47879934T>C	uc002xui.2	-	6	2485	c.2238A>G	c.(2236-2238)GAA>GAG	p.E746E		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	746							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GCAGGTACTGTTCCCGTAGGA	0.522													12	34					0	0	0.013537	0	0		C	47879934	C	C	47879934	2	2	11	1	0	0	0	0	0	0	0	1	18230	1722	60	3		3	ZNFX1	20	47879934	Silent	SNP	T	TCGA-BR-4256-01A-01D-1126-08	613392	47879934	15145586	1012	9404											
SPATA2	9825	broad.mit.edu	37	chr20	48523040	48523040	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacttctggagtgccactcGtgacatggaggccgtcaggt	7	9	14	11	3	2	1	1	1	1	0	3	4	2	3	2	4	1	0	2	4	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:48523040G>A	uc010gie.2	-	3	1029	c.679C>T	c.(679-681)CGA>TGA	p.R227*	SPATA2_uc002xuw.2_Nonsense_Mutation_p.R227*|SPATA2_uc010zyn.1_Nonsense_Mutation_p.R90*	NM_001135773	NP_001129245	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	227					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			AGTGCCACTCGTGACATGGAG	0.672													3	11					0	0	0.004672	0	0		A	48523040	A	A	48523040	4	1	11	1	0	0	0	0	0	1	0	0	15030	1153	40	1	887	1	SPATA2	20	48523040	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	643106	48523040	14502480	1013	9405											
SNAI1	6615	broad.mit.edu	37	chr20	48600381	48600381	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtttaccttccagcagcccTacgaccaggcccacctgctg	8	8	8	17	1	0	0	0	0	0	0	1	1	1	0	6	1	5	3	6	1	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:48600381T>A	uc002xuz.2	+	2	173	c.103T>A	c.(103-105)TAC>AAC	p.Y35N		NM_005985	NP_005976	O95863	SNAI1_HUMAN	snail 1 homolog	35					epithelial to mesenchymal transition|mesoderm formation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|zinc ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			CCAGCAGCCCTACGACCAGGC	0.582													10	46					0	0	0.013537	0	0		A	48600381	A	A	48600381	3	1	11	1	0	0	0	0	1	0	0	0	14851	1522	53	5	109	5	SNAI1	20	48600381	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	77341	48600381	14425139	1014	9406											
FAM65C	140876	broad.mit.edu	37	chr20	49219090	49219090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcttaggctgggacccCggaggtcgctgtcagacagg	6	8	16	11	2	2	1	1	0	1	1	3	3	2	3	2	6	0	3	2	6	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:49219090C>T	uc002xvm.2	-	13	1484	c.1166G>A	c.(1165-1167)CGG>CAG	p.R389Q	FAM65C_uc010zyt.1_Missense_Mutation_p.R393Q|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Missense_Mutation_p.R389Q	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	389										ovary(2)	2						GCTGGGACCCCGGAGGTCGCT	0.637													6	27					0	0	0.00308	0	0		T	49219090	T	T	49219090	3	4	11	1	0	0	0	0	1	0	0	0	5615	652	23	1	1714	1	FAM65C	20	49219090	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	618709	49219090	13806430	1015	9407											
NFATC2	4773	broad.mit.edu	37	chr20	50133334	50133334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtccatacctgaaccacagGgtggcctccagttggagctt	9	9	11	12	0	0	1	0	1	0	0	2	2	2	2	5	3	3	2	5	3	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:50133334G>A	uc002xwd.2	-	3	1541	c.1321C>T	c.(1321-1323)CCT>TCT	p.P441S	NFATC2_uc002xwc.2_Missense_Mutation_p.P441S|NFATC2_uc010zyv.1_Missense_Mutation_p.P222S|NFATC2_uc010zyw.1_Missense_Mutation_p.P222S|NFATC2_uc010zyx.1_Missense_Mutation_p.P421S|NFATC2_uc010zyy.1_Missense_Mutation_p.P222S|NFATC2_uc010zyz.1_Missense_Mutation_p.P222S|NFATC2_uc002xwe.2_Missense_Mutation_p.P421S	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	441	RHD.				B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					TGAACCACAGGGTGGCCTCCA	0.532													7	49					0	0	0.001984	0	0		A	50133334	A	A	50133334	3	1	11	1	0	0	0	0	1	0	0	0	10381	1232	43	4	1536	4	NFATC2	20	50133334	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	914244	50133334	12892186	1016	9408											
CDH26	60437	broad.mit.edu	37	chr20	58567530	58567530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaccgagaatcccctcatGtaaataacagtttttatgta	13	14	6	8	1	1	2	1	1	0	1	2	3	2	2	3	0	1	3	3	0	6	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:58567530G>A	uc002ybe.2	+	10	1681	c.1381G>A	c.(1381-1383)GTA>ATA	p.V461I	CDH26_uc002ybf.1_Missense_Mutation_p.V41I|CDH26_uc010zzy.1_RNA|CDH26_uc002ybg.2_5'Flank	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	461	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			ATCCCCTCATGTAAATAACAG	0.428													6	59					0	0	0.001168	0	0		A	58567530	A	A	58567530	3	1	11	1	0	0	0	0	1	0	0	0	3113	1377	48	4	1419	4	CDH26	20	58567530	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	8434196	58567530	4457990	1017	9409											
CDH4	1002	broad.mit.edu	37	chr20	60448951	60448951	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggcggctggcctggacCgagaggtgaggcggggtggg	5	5	23	8	3	0	2	0	1	0	1	0	4	0	3	2	9	0	1	2	9	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:60448951C>T	uc002ybn.1	+	7	1059	c.1045C>T	c.(1045-1047)CGA>TGA	p.R349*	CDH4_uc002ybp.1_Nonsense_Mutation_p.R275*	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	349	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			TGGCCTGGACCGAGAGGTGAG	0.662													7	40					0	0	0.00308	0	0		T	60448951	T	T	60448951	4	4	11	1	0	0	0	0	0	1	0	0	3115	644	23	1	1071	1	CDH4	20	60448951	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1881421	60448951	2576569	1018	9410											
LAMA5	3911	broad.mit.edu	37	chr20	60888776	60888776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caggttgagcagcccctctgCcccaggggccaccgtgtcac	6	6	12	17	1	2	1	1	1	1	0	2	1	2	1	6	3	3	2	6	3	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:60888776C>T	uc002ycq.2	-	63	8654	c.8587G>A	c.(8587-8589)GCA>ACA	p.A2863T		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2863	Laminin G-like 1.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGCCCCTCTGCCCCAGGGGCC	0.617													7	41					0	0	0.001984	0	0		T	60888776	T	T	60888776	3	4	11	1	0	0	0	0	1	0	0	0	8625	739	26	2	2572	2	LAMA5	20	60888776	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	439825	60888776	2136744	1019	9411											
ZNF512B	57473	broad.mit.edu	37	chr20	62595544	62595544	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcttggagcggtgaactcGggccttgtcctcagctttga	5	13	12	11	2	2	2	1	2	1	0	4	3	3	3	2	3	3	1	2	3	1	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr20:62595544G>A	uc002yhl.1	-	8	1414	c.1360C>T	c.(1360-1362)CGA>TGA	p.R454*		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	454					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CGGTGAACTCGGGCCTTGTCC	0.657													16	60					0	0	0.00499	0	0		A	62595544	A	A	62595544	4	1	11	1	0	0	0	0	0	1	0	0	17982	1124	39	1	1358	1	ZNF512B	20	62595544	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1706768	62595544	429976	1020	9412											
LIPI	149998	broad.mit.edu	37	chr21	15561475	15561475	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actacaattacattcatatcTtcttcattcagcaaaatcct	14	15	1	11	0	5	0	3	0	2	0	6	0	6	0	1	0	3	1	1	0	6	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:15561475T>G	uc002yjm.2	-	2	385	c.375A>C	c.(373-375)GAA>GAC	p.E125D	LIPI_uc010gkw.1_Missense_Mutation_p.E58D	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	104					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		CATTCATATCTTCTTCATTCA	0.393													16	58					0	0	0.004007	0	0		G	15561475	G	G	15561475	3	3	11	1	0	0	0	0	1	0	0	0	8842	1606	56	5	1106	5	LIPI	21	15561475	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08		15561475	32568420	1021	9413											
TMPRSS15	5651	broad.mit.edu	37	chr21	19770545	19770545	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtcaaaagcaagaacttTgaaatccactgagagtttgt	16	10	9	6	0	1	3	1	2	0	2	2	4	2	3	1	1	2	2	1	1	6	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:19770545T>C	uc002ykw.2	-	2	278	c.247A>G	c.(247-249)AAA>GAA	p.K83E		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	83	Extracellular (Potential).|SEA.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						GCAAGAACTTTGAAATCCACT	0.378													11	58					0	0	0.010729	0	0		C	19770545	C	C	19770545	3	2	11	1	0	0	0	0	1	0	0	0	16271	1821	63	3	2908	3	TMPRSS15	21	19770545	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	4209070	19770545	28359350	1022	9414											
RNF160	26046	broad.mit.edu	37	chr21	30329691	30329691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcatcttttcccattcaCtgtcgttcggcattacactt	6	16	5	14	2	3	0	2	0	1	0	6	0	4	0	2	1	1	2	2	1	1	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:30329691C>T	uc002ymr.2	-	15	3006	c.2993G>A	c.(2992-2994)AGT>AAT	p.S998N		NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	952							ligase activity|zinc ion binding				0						TTCCCATTCACTGTCGTTCGG	0.378													8	89					0	0	0.00308	0	0		T	30329691	T	T	30329691	3	4	11	1	0	0	0	0	1	0	0	0	13480	565	20	4	2509	4	RNF160	21	30329691	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	10559146	30329691	17800204	1023	9415											
CLDN17	26285	broad.mit.edu	37	chr21	31538770	31538770	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaccggaccctggcttgtcGgatgcaattcatccagagcc	9	8	10	14	2	1	1	1	0	0	1	3	3	2	3	4	3	3	2	4	3	2	2	rs148594408		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:31538770G>A	uc011acv.1	-	1	166	c.166C>T	c.(166-168)CGA>TGA	p.R56*		NM_012131	NP_036263	P56750	CLD17_HUMAN	claudin 17	56	Extracellular (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	Golgi apparatus|integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(2)	2						CTGGCTTGTCGGATGCAATTC	0.547													8	50					0	0	0.008291	0	0		A	31538770	A	A	31538770	4	1	11	1	0	0	0	0	0	1	0	0	3481	1124	39	1	512	1	CLDN17	21	31538770	Nonsense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1209079	31538770	16591125	1024	9416											
KRTAP19-1	337882	broad.mit.edu	37	chr21	31852407	31852407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctccattgtacgatgggCggcagcagccatatccatag	10	9	10	12	2	0	0	0	0	0	0	3	1	3	0	4	2	3	3	4	2	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:31852407C>T	uc011acx.1	-	1	230	c.230G>A	c.(229-231)CGC>CAC	p.R77H		NM_181607	NP_853638	Q8IUB9	KR191_HUMAN	keratin associated protein 19-1	77	26 X 2 AA repeats of G-[YCGS].					intermediate filament					0						GTACGATGGGCGGCAGCAGCC	0.488													31	197					0	0	0.004878	0	0		T	31852407	T	T	31852407	3	4	11	1	0	0	0	0	1	0	0	0	8544	768	27	1	44	1	KRTAP19-1	21	31852407	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	313637	31852407	16277488	1025	9417											
IFNGR2	3460	broad.mit.edu	37	chr21	34809262	34809262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaagaagatgttctccaaaCgctttgaaccaaagcatggg	14	8	10	9	1	1	3	0	1	1	2	2	3	1	3	2	1	3	4	2	1	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:34809262C>T	uc002yrp.3	+	7	1655	c.1007C>T	c.(1006-1008)ACG>ATG	p.T336M	IFNGR2_uc002yrq.3_Missense_Mutation_p.T355M|IFNGR2_uc010gma.2_Missense_Mutation_p.T257M|IFNGR2_uc002yrr.3_Missense_Mutation_p.T257M|TMEM50B_uc002yrs.1_Intron	NM_005534	NP_005525	P38484	INGR2_HUMAN	interferon gamma receptor 2 precursor	336	Cytoplasmic (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	endoplasmic reticulum|integral to plasma membrane	interferon-gamma receptor activity				0					Interferon gamma-1b(DB00033)	GTTCTCCAAACGCTTTGAACC	0.507													14	67					0	0	0.004007	0	0		T	34809262	T	T	34809262	3	4	11	1	0	0	0	0	1	0	0	0	7566	536	19	1	1033	1	IFNGR2	21	34809262	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2956855	34809262	13320633	1026	9418											
RUNX1	861	broad.mit.edu	37	chr21	36171728	36171728	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtaggactgatcgtaggaCcacggtggggatggttggat	8	10	18	5	2	0	1	0	1	0	0	1	5	0	5	1	8	0	3	1	8	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:36171728C>T	uc002yuh.2	-	5	2334	c.756G>A	c.(754-756)TGG>TGA	p.W252*	RUNX1_uc002yui.2_Nonsense_Mutation_p.W188*|RUNX1_uc010gmu.2_Nonsense_Mutation_p.W279*|RUNX1_uc010gmv.2_Nonsense_Mutation_p.W279*|RUNX1_uc002yuj.3_Nonsense_Mutation_p.W147*|RUNX1_uc002yuk.3_Nonsense_Mutation_p.W279*|RUNX1_uc002yul.1_Nonsense_Mutation_p.W44*|RUNX1_uc002yum.1_Nonsense_Mutation_p.W83*	NM_001001890	NP_001001890	Q01196	RUNX1_HUMAN	runt-related transcription factor 1 isoform	252	Pro/Ser/Thr-rich.			Missing: No DNA-binding.	myeloid cell differentiation|negative regulation of granulocyte differentiation|positive regulation of angiogenesis|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus|nucleus	ATP binding|calcium ion binding|DNA binding|DNA binding|protein binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			haematopoietic_and_lymphoid_tissue(383)|lung(2)|ovary(1)|central_nervous_system(1)	387						GATCGTAGGACCACGGTGGGG	0.478			T	RPL22|MDS1|EVI1|CBFA2T3|CBFA2T1|ETV6|LAF4	AML|preB- ALL|T-ALL				Platelet_disorder_associated_with_Myeloid_Malignancies				10	66					0	0	0.001855	0	0		T	36171728	T	T	36171728	4	4	11	1	0	0	0	0	0	1	0	0	13771	508	18	4	613	4	RUNX1	21	36171728	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1362466	36171728	11958167	1027	9419											
FAM3B	54097	broad.mit.edu	37	chr21	42694964	42694964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtgctgcctatagcatccGcagcatcggggagaggcctg	8	7	14	12	2	0	1	0	0	0	1	2	2	1	1	3	3	4	4	3	3	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:42694964G>A	uc002yzb.1	+	2	280	c.134G>A	c.(133-135)CGC>CAC	p.R45H	FAM3B_uc002yza.2_RNA|FAM3B_uc002yzc.1_Intron|FAM3B_uc002yzd.1_Missense_Mutation_p.R68H|FAM3B_uc011aeq.1_Missense_Mutation_p.R59H	NM_058186	NP_478066	P58499	FAM3B_HUMAN	family with sequence similarity 3, member B	45					apoptosis|insulin secretion	extracellular space	cytokine activity				0		Prostate(19;1.57e-07)|all_epithelial(19;0.0404)				TATAGCATCCGCAGCATCGGG	0.597													5	24					0	0	0.010729	0	0		A	42694964	A	A	42694964	3	1	11	1	0	0	0	0	1	0	0	0	5571	1087	38	1	140	1	FAM3B	21	42694964	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	6523236	42694964	5434931	1028	9420											
RIPK4	54101	broad.mit.edu	37	chr21	43161902	43161902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggagctccacgacacccCgcaccctcctctccacggcc	7	4	8	22	3	1	0	0	0	1	0	4	2	3	1	7	2	1	3	7	2	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:43161902C>T	uc002yzn.1	-	8	1499	c.1451G>A	c.(1450-1452)CGG>CAG	p.R484Q		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	484						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						CACGACACCCCGCACCCTCCT	0.637													5	50					0	0	0.00308	0	0		T	43161902	T	T	43161902	3	4	11	1	0	0	0	0	1	0	0	0	13408	652	23	1	907	1	RIPK4	21	43161902	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	466938	43161902	4967993	1029	9421											
ZNF295	49854	broad.mit.edu	37	chr21	43411221	43411221	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggctccagaggctggatcTtgggcagtggtggtggcggt	5	9	19	8	1	1	1	0	0	1	1	2	2	2	2	1	8	0	3	1	8	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:43411221T>C	uc002zab.3	-	3	3198	c.2984A>G	c.(2983-2985)AAG>AGG	p.K995R	ZNF295_uc002yzz.3_Missense_Mutation_p.K794R|ZNF295_uc002yzy.3_Missense_Mutation_p.K995R|ZNF295_uc002zaa.3_Missense_Mutation_p.K995R	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	995					negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						AGGCTGGATCTTGGGCAGTGG	0.562													6	37					0	0	0.001984	0	0		C	43411221	C	C	43411221	3	2	11	1	0	0	0	0	1	0	0	0	17852	1609	56	3	220	3	ZNF295	21	43411221	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	249319	43411221	4718674	1030	9422											
UMODL1	89766	broad.mit.edu	37	chr21	43504209	43504209	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccagccctgaatcagtccgGgcagttcacgtcaagacctg	9	7	10	15	2	3	2	3	1	0	1	4	2	4	2	4	1	1	2	4	1	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:43504209G>T	uc002zaf.1	+	3	335	c.335G>T	c.(334-336)GGG>GTG	p.G112V	UMODL1_uc002zad.1_Missense_Mutation_p.G40V|UMODL1_uc002zae.1_Missense_Mutation_p.G40V|UMODL1_uc002zag.1_Missense_Mutation_p.G112V|UMODL1_uc010gow.1_5'Flank|UMODL1_uc002zai.1_5'Flank|UMODL1_uc010gox.1_5'Flank|UMODL1_uc010goy.1_5'Flank|UMODL1_uc002zaj.1_5'Flank|UMODL1_uc010goz.1_5'Flank	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	112	Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						AATCAGTCCGGGCAGTTCACG	0.557													37	184					1.17962e-10	1.36078e-10	0.00874	1	0		T	43504209	T	T	43504209	3	4	11	1	0	0	0	0	1	0	0	0	17006	1232	43	5	345	5	UMODL1	21	43504209	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	92988	43504209	4625686	1031	9423											
ITGB2	3689	broad.mit.edu	37	chr21	46326963	46326963	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccctcatgagcagctgtggCcgggtgtcgcagcgaatgga	7	7	15	12	3	1	1	1	1	0	0	2	3	1	2	3	3	3	3	3	3	1	0	rs149429459	byFrequency	TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:46326963C>T	uc002zgd.2	-	3	239	c.195G>A	c.(193-195)CGG>CGA	p.R65R	ITGB2_uc002zge.2_Silent_p.R65R|ITGB2_uc002zgf.3_Silent_p.R65R|ITGB2_uc011afl.1_5'UTR|ITGB2_uc010gpw.2_Silent_p.R65R|ITGB2_uc002zgg.2_Silent_p.R65R	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	65	Extracellular (Potential).				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	GCAGCTGTGGCCGGGTGTCGC	0.652													5	23					0	0	0.001168	0	0		T	46326963	T	T	46326963	2	4	11	1	0	0	0	0	0	0	0	1	7910	726	26	2		2	ITGB2	21	46326963	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2822754	46326963	1802932	1032	9424											
COL18A1	80781	broad.mit.edu	37	chr21	46888205	46888205	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctccttggggaccccccGccccagcaggtcacccagac	7	4	10	20	1	1	1	1	0	0	1	2	2	2	2	7	3	2	2	7	3	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:46888205G>A	uc011afs.1	+	2	1422	c.1401G>A	c.(1399-1401)CCG>CCA	p.P467P	COL18A1_uc002zhg.2_Silent_p.P52P|COL18A1_uc002zhi.2_Silent_p.P232P	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	467	TSP N-terminal.				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		GGGACCCCCCGCCCCAGCAGG	0.652													5	12					0	0	0.001984	0	0		A	46888205	A	A	46888205	2	1	11	1	0	0	0	0	0	0	0	1	3678	1074	38	1		1	COL18A1	21	46888205	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	561242	46888205	1241690	1033	9425											
MCM3AP	8888	broad.mit.edu	37	chr21	47680751	47680751	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacaaactccatcatcacGcgttccatcagctccacggc	10	8	5	18	3	4	0	4	0	0	0	7	0	7	0	3	1	2	2	3	1	1	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr21:47680751G>A	uc002zir.1	-	15	3573	c.3537C>T	c.(3535-3537)CGC>CGT	p.R1179R	MCM3AP_uc002zip.1_5'Flank|MCM3AP_uc002ziq.1_Silent_p.R106R	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1179					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					CCATCATCACGCGTTCCATCA	0.522													5	83					0	0	0.000602	0	0		A	47680751	A	A	47680751	2	1	11	1	0	0	0	0	0	0	0	1	9406	1074	38	1		1	MCM3AP	21	47680751	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	792546	47680751	449144	1034	9426											
CCT8L2	150160	broad.mit.edu	37	chr22	17073106	17073106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttccagcaaggcttccGtcagcagaaccacgaaggct	10	7	10	14	2	1	1	1	0	0	1	3	2	3	1	4	2	3	5	4	2	3	2	rs147878859		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:17073106G>A	uc002zlp.1	-	1	595	c.335C>T	c.(334-336)ACG>ATG	p.T112M		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	112					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				CAAGGCTTCCGTCAGCAGAAC	0.667													5	29					0	0	0.001168	0	0		A	17073106	A	A	17073106	3	1	11	1	0	0	0	0	1	0	0	0	2964	1145	40	1	1342	1	CCT8L2	22	17073106	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08		17073106	34231460	1035	9427											
TSSK2	23617	broad.mit.edu	37	chr22	19119321	19119321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacatcgtccaccgggacCtcaagtgcgagaaccttctc	9	8	10	14	3	2	1	1	0	1	1	5	4	3	3	4	2	2	0	4	2	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:19119321C>T	uc002zow.2	+	1	1001	c.409C>T	c.(409-411)CTC>TTC	p.L137F	DGCR14_uc002zot.2_3'UTR|DGCR14_uc002zou.2_3'UTR|DGCR14_uc002zov.2_RNA	NM_053006	NP_443732	Q96PF2	TSSK2_HUMAN	testis-specific serine kinase 2	137	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1	Colorectal(54;0.0993)					CCACCGGGACCTCAAGTGCGA	0.592													10	69					0	0	0.013537	0	0		T	19119321	T	T	19119321	3	4	11	1	0	0	0	0	1	0	0	0	16695	681	24	4	411	4	TSSK2	22	19119321	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	2046215	19119321	32185245	1036	9428											
SMARCB1	6598	broad.mit.edu	37	chr22	24135750	24135750	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgtctgttacagatcaCggatacacgactctagccac	10	12	8	11	2	3	1	1	0	2	1	3	3	3	2	1	1	3	2	1	1	3	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:24135750C>T	uc002zyb.2	+	3	444	c.237C>T	c.(235-237)CAC>CAT	p.H79H	SMARCB1_uc002zyg.2_Silent_p.H79H|SMARCB1_uc011ajb.1_Silent_p.H70H|SMARCB1_uc002zya.2_Silent_p.H79H|SMARCB1_uc002zyc.2_Silent_p.H70H|SMARCB1_uc002zyd.2_Silent_p.H70H|SMARCB1_uc002zye.1_Silent_p.H42H|SMARCB1_uc002zyf.1_RNA|SMARCB1_uc010gue.1_Intron	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	79					cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.?(2)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				TTACAGATCACGGATACACGA	0.537			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				14	88					0	0	0.010504	0	0		T	24135750	T	T	24135750	2	4	11	1	0	0	0	0	0	0	0	1	14799	535	19	1		1	SMARCB1	22	24135750	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	5016429	24135750	27168816	1037	9429											
SMARCB1	6598	broad.mit.edu	37	chr22	24145518	24145518	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagctgtgatccatgagaaCgcatctcagcccgaggtgct	9	8	11	13	2	1	2	1	2	1	1	3	4	2	2	3	1	4	3	3	1	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:24145518C>T	uc002zyb.2	+	5	744	c.537C>T	c.(535-537)AAC>AAT	p.N179N	SMARCB1_uc002zya.2_Silent_p.N179N|SMARCB1_uc002zyc.2_Silent_p.N170N|SMARCB1_uc002zyd.2_Silent_p.N188N|SMARCB1_uc002zye.1_Silent_p.N105N|SMARCB1_uc002zyf.1_RNA|SMARCB1_uc010gue.1_RNA	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	179	DNA-binding (Potential).				cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.?(5)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				TCCATGAGAACGCATCTCAGC	0.552			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				12	100					0	0	0.013537	0	0		T	24145518	T	T	24145518	2	4	11	1	0	0	0	0	0	0	0	1	14799	535	19	1		1	SMARCB1	22	24145518	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	9768	24145518	27159048	1038	9430											
PIWIL3	440822	broad.mit.edu	37	chr22	25151789	25151789	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatagcgtaggcaatctggCgacgtgggcgtgagttcttt	8	12	14	7	4	2	1	0	1	2	0	2	2	2	1	0	3	1	3	0	3	4	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:25151789C>T	uc003abd.1	-	6	1071	c.654G>A	c.(652-654)TCG>TCA	p.S218S	PIWIL3_uc011ajx.1_Silent_p.S109S|PIWIL3_uc011ajy.1_Silent_p.S109S|PIWIL3_uc010gut.1_Silent_p.S218S	NM_001008496	NP_001008496	Q7Z3Z3	PIWL3_HUMAN	piwi-like 3	218					cell differentiation|gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatogenesis	cytoplasm	RNA binding			ovary(3)|central_nervous_system(1)	4						GGCAATCTGGCGACGTGGGCG	0.403													24	118					0	0	0.00278	0	0		T	25151789	T	T	25151789	2	4	11	1	0	0	0	0	0	0	0	1	11978	755	27	1		1	PIWIL3	22	25151789	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1006271	25151789	26152777	1039	9431											
MN1	4330	broad.mit.edu	37	chr22	28193441	28193441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actactgtccgacttggcccCgccgtccagggacccaatga	8	7	10	16	3	0	1	0	1	0	0	2	3	2	2	6	2	1	0	6	2	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:28193441C>T	uc003adj.2	-	1	4046	c.3091G>A	c.(3091-3093)GGG>AGG	p.G1031R		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	1031							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						GACTTGGCCCCGCCGTCCAGG	0.647			T	ETV6	AML|meningioma								21	37					0	0	0.00278	0	0		T	28193441	T	T	28193441	3	4	11	1	0	0	0	0	1	0	0	0	9691	652	23	1	879	1	MN1	22	28193441	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3041652	28193441	23111125	1040	9432											
MTMR3	8897	broad.mit.edu	37	chr22	30418067	30418067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatcagaactgtttgtctcGctgcagcacagagattttct	9	13	10	9	1	3	2	1	0	2	2	4	4	3	3	0	1	3	4	0	1	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:30418067G>A	uc003agv.3	+	18	3603	c.3275G>A	c.(3274-3276)CGC>CAC	p.R1092H	MTMR3_uc003agu.3_Intron|MTMR3_uc003agw.3_Intron	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	1092					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			TGTTTGTCTCGCTGCAGCACA	0.498													9	57					0	0	0.010729	0	0		A	30418067	A	A	30418067	3	1	11	1	0	0	0	0	1	0	0	0	9963	1087	38	1	3337	1	MTMR3	22	30418067	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2224626	30418067	20886499	1041	9433											
SMTN	6525	broad.mit.edu	37	chr22	31495882	31495882	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggccttctcatctgcggAgtaagtgtgggccctggccc	4	10	15	12	1	2	0	1	0	2	0	3	1	2	1	3	5	1	1	3	5	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:31495882A>G	uc003ajl.1	+	19	2821	c.2603A>G	c.(2602-2604)GAG>GGG	p.E868G	SMTN_uc003ajk.1_Missense_Mutation_p.E868G|SMTN_uc003ajm.1_Missense_Mutation_p.E868G|SMTN_uc011ale.1_Missense_Mutation_p.E953G|SMTN_uc011alf.1_Missense_Mutation_p.E924G|SMTN_uc003ajn.1_Missense_Mutation_p.E891G|SMTN_uc011alg.1_Missense_Mutation_p.E324G|SMTN_uc003ajo.1_Missense_Mutation_p.E391G|SMTN_uc010gwe.1_Missense_Mutation_p.E248G|SMTN_uc003ajp.1_5'Flank	NM_006932	NP_008863	P53814	SMTN_HUMAN	smoothelin isoform c	868	CH.				muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3						TCATCTGCGGAGTAAGTGTGG	0.617													4	39					0	0	0.009096	0	0		G	31495882	G	G	31495882	3	3	11	1	0	0	0	0	1	0	0	0	14839	318	11	3	2673	3	SMTN	22	31495882	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	1077815	31495882	19808684	1042	9434											
C1QTNF6	114904	broad.mit.edu	37	chr22	37578581	37578581	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccctttcgaagagcagcgTctggaagtcctcgccgctgt	7	9	12	13	4	1	1	0	0	1	1	4	4	2	2	3	1	2	2	3	1	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:37578581T>C	uc003aqw.1	-	2	932	c.427A>G	c.(427-429)ACG>GCG	p.T143A	C1QTNF6_uc003aqx.1_Missense_Mutation_p.T162A|C1QTNF6_uc003aqy.1_Missense_Mutation_p.T162A|C1QTNF6_uc003aqz.1_RNA	NM_182486	NP_872292	Q9BXI9	C1QT6_HUMAN	C1q and tumor necrosis factor related protein 6	143	C1q.					collagen					0						AAGAGCAGCGTCTGGAAGTCC	0.627													5	20					0	0	0.001168	0	0		C	37578581	C	C	37578581	3	2	11	1	0	0	0	0	1	0	0	0	1970	1667	58	3	356	3	C1QTNF6	22	37578581	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	6082699	37578581	13725985	1043	9435											
ELFN2	114794	broad.mit.edu	37	chr22	37769859	37769859	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcactcgaaggccagctcGgggtccccactgctgctgcc	5	7	13	16	2	0	0	0	0	0	0	3	1	1	0	4	4	4	4	4	4	1	0	rs138855230		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:37769859G>A	uc003asq.3	-	3	2502	c.1716C>T	c.(1714-1716)CCC>CCT	p.P572P		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	572	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					AGGCCAGCTCGGGGTCCCCAC	0.647													4	11					0	0	0.009096	0	0		A	37769859	A	A	37769859	2	1	11	1	0	0	0	0	0	0	0	1	5066	1103	39	1		1	ELFN2	22	37769859	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	191278	37769859	13534707	1044	9436											
TRIOBP	11078	broad.mit.edu	37	chr22	38119208	38119208	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagacaccggcggtgggggCcggagcgcaggacagcactg	8	2	18	13	4	0	1	0	0	0	1	0	3	0	3	3	6	2	2	3	6	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:38119208C>T	uc003atr.2	+	7	916	c.645C>T	c.(643-645)GGC>GGT	p.G215G	TRIOBP_uc003atu.2_Silent_p.G43G|TRIOBP_uc003atq.1_Silent_p.G215G|TRIOBP_uc003ats.1_Silent_p.G43G	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	215					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GCGGTGGGGGCCGGAGCGCAG	0.617													3	10					0	0	0.000602	0	0		T	38119208	T	T	38119208	2	4	11	1	0	0	0	0	0	0	0	1	16579	726	26	2		2	TRIOBP	22	38119208	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	349349	38119208	13185358	1045	9437											
TRIOBP	11078	broad.mit.edu	37	chr22	38122069	38122069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtgtgcattgggcaccGggatgcaccctccttctcat	5	11	10	15	1	1	0	1	0	1	0	3	1	2	1	4	2	2	3	4	2	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:38122069G>A	uc003atr.2	+	7	3777	c.3506G>A	c.(3505-3507)CGG>CAG	p.R1169Q	TRIOBP_uc003atu.2_Missense_Mutation_p.R997Q|TRIOBP_uc003atq.1_Missense_Mutation_p.R1169Q|TRIOBP_uc003ats.1_Missense_Mutation_p.R997Q	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1169					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					ATTGGGCACCGGGATGCACCC	0.637													5	58					0	0	0.00308	0	0		A	38122069	A	A	38122069	3	1	11	1	0	0	0	0	1	0	0	0	16579	1116	39	1	3524	1	TRIOBP	22	38122069	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2861	38122069	13182497	1046	9438											
GCAT	23464	broad.mit.edu	37	chr22	38211178	38211178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgatggggccttttccatgGatggcgacatcgcacccctg	6	10	12	13	2	0	1	0	1	0	0	2	3	1	2	4	4	0	1	4	4	0	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:38211178G>A	uc003atz.2	+	5	642	c.622G>A	c.(622-624)GAT>AAT	p.D208N	GCAT_uc003aua.1_Missense_Mutation_p.D234N	NM_014291	NP_055106	O75600	KBL_HUMAN	glycine C-acetyltransferase precursor	208					biosynthetic process|cellular amino acid metabolic process		glycine C-acetyltransferase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups				0	Melanoma(58;0.045)				Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	CTTTTCCATGGATGGCGACAT	0.597													6	18					0	0	0.00308	0	0		A	38211178	A	A	38211178	3	1	11	1	0	0	0	0	1	0	0	0	6299	1174	41	4	718	4	GCAT	22	38211178	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	89109	38211178	13093388	1047	9439											
MCHR1	2847	broad.mit.edu	37	chr22	41076969	41076969	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggatcacctcctcgcacGgggagcatctcctacatcaa	10	7	8	16	2	3	0	2	0	1	0	6	2	4	2	4	3	2	2	4	3	2	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:41076969G>A	uc003ayz.2	+	2	574	c.306G>A	c.(304-306)ACG>ACA	p.T102T	MCHR1_uc003aza.2_5'UTR	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	102	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						CTCCTCGCACGGGGAGCATCT	0.572													16	51					0	0	0.003163	0	0		A	41076969	A	A	41076969	2	1	11	1	0	0	0	0	0	0	0	1	9400	1103	39	1		1	MCHR1	22	41076969	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2865791	41076969	10227597	1048	9440											
EP300	2033	broad.mit.edu	37	chr22	41527639	41527639	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggcccatgagcaacatgagTaagtttgtgtcatcctaata	12	11	9	9	1	1	2	1	2	0	0	2	2	2	2	2	1	2	3	2	1	4	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:41527639T>C	uc003azl.3	+	6	1923	c.1528_splice	c.e6+2	p.S510_splice		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300						apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						GCAACATGAGTAAGTTTGTGT	0.438			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				8	60					0	0	0.004482	0	0		C	41527639	C	C	41527639	5	2	11	1	0	0	0	0	0	0	1	0	5156	1652	57	3	1552	3	EP300	22	41527639	Splice_Site	SNP	T	TCGA-BR-4256-01A-01D-1126-08	450670	41527639	9776927	1049	9441											
SREBF2	6721	broad.mit.edu	37	chr22	42276824	42276824	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgcagcctctcctggaaCgtgatccgctacagcctgca	7	8	10	16	2	1	1	0	1	1	0	3	2	2	2	5	1	6	3	5	1	2	1	rs141892188		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:42276824C>T	uc003bbi.2	+	10	2035	c.1866C>T	c.(1864-1866)AAC>AAT	p.N622N	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|SREBF2_uc003bbj.2_RNA	NM_004599	NP_004590	Q12772	SRBP2_HUMAN	sterol regulatory element-binding transcription	622	Cytoplasmic (Potential).				cholesterol metabolic process	ER to Golgi transport vesicle membrane|Golgi membrane|nucleus|SREBP-SCAP-Insig complex	protein C-terminus binding			breast(2)|ovary(1)|central_nervous_system(1)	4						TCTCCTGGAACGTGATCCGCT	0.642													3	9					0	0	0.008291	0	0		T	42276824	T	T	42276824	2	4	11	1	0	0	0	0	0	0	0	1	15167	535	19	1		1	SREBF2	22	42276824	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	749185	42276824	9027742	1050	9442											
RRP7A	27341	broad.mit.edu	37	chr22	42910211	42910211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagcacccgcaagctggctgCctcagtccgggggagcacag	8	4	14	15	2	1	0	1	0	0	0	2	1	2	1	3	3	4	5	3	3	1	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:42910211C>T	uc003bcq.2	-	6	674	c.658G>A	c.(658-660)GCA>ACA	p.A220T	SERHL_uc011apm.1_Intron|RRP7A_uc003bcp.2_Missense_Mutation_p.A243T	NM_015703	NP_056518	Q9Y3A4	RRP7A_HUMAN	ribosomal RNA processing 7 homolog A	220							nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2						AAGCTGGCTGCCTCAGTCCGG	0.662													3	3					0	0	0.009096	0	0		T	42910211	T	T	42910211	3	4	11	1	0	0	0	0	1	0	0	0	13714	739	26	2	192	2	RRP7A	22	42910211	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	633387	42910211	8394355	1051	9443											
EFCAB6	64800	broad.mit.edu	37	chr22	44028036	44028036	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcttcaggcattcttctgcGgtgataaagtggctgttcac	8	13	11	9	1	4	1	2	1	2	0	4	1	4	1	0	3	2	4	0	3	2	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:44028036G>T	uc003bdy.1	-	19	2396	c.2181C>A	c.(2179-2181)ACC>ACA	p.T727T	EFCAB6_uc003bdz.1_Silent_p.T575T|EFCAB6_uc010gzi.1_Silent_p.T575T|EFCAB6_uc010gzj.1_Silent_p.T25T|EFCAB6_uc010gzk.1_RNA	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	727					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				ATTCTTCTGCGGTGATAAAGT	0.537													11	67					1.05317e-09	1.20323e-09	0.00245	1	0		T	44028036	T	T	44028036	2	4	11	1	0	0	0	0	0	0	0	1	4945	1103	39	5		5	EFCAB6	22	44028036	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1117825	44028036	7276530	1052	9444											
ALG12	79087	broad.mit.edu	37	chr22	50301525	50301525	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctaccaagcccagggggAtgaagagcaggctgcagccc	10	5	14	12	0	1	2	0	1	1	1	1	3	1	3	3	3	5	3	3	3	3	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:50301525A>G	uc003biy.2	-	7	1110	c.836T>C	c.(835-837)ATC>ACC	p.I279T		NM_024105	NP_077010	Q9BV10	ALG12_HUMAN	alpha-1,6-mannosyltransferase ALG12	279	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	integral to membrane|intrinsic to endoplasmic reticulum membrane					0		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		BRCA - Breast invasive adenocarcinoma(115;0.199)|LUAD - Lung adenocarcinoma(64;0.247)		GCCCAGGGGGATGAAGAGCAG	0.652													8	38					0	0	0.010729	0	0		G	50301525	G	G	50301525	3	3	11	1	0	0	0	0	1	0	0	0	514	333	12	3	646	3	ALG12	22	50301525	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	6273489	50301525	1003041	1053	9445											
CPT1B	1375	broad.mit.edu	37	chr22	51015369	51015369	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaagcagcttcagggtttGgcggaagaagaagatgcccg	12	6	16	7	2	1	4	1	0	0	4	1	6	1	5	1	3	3	3	1	3	4	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chr22:51015369G>C	uc003bmk.3	-	3	538	c.376C>G	c.(376-378)CAA>GAA	p.Q126E	CPT1B_uc003bml.2_Missense_Mutation_p.Q126E|CPT1B_uc003bmm.2_Missense_Mutation_p.Q126E|CPT1B_uc003bmo.2_Missense_Mutation_p.Q126E|CPT1B_uc011asa.1_Missense_Mutation_p.Q126E|CPT1B_uc003bmn.2_Missense_Mutation_p.Q126E|CPT1B_uc011asb.1_Missense_Mutation_p.Q126E|CHKB-CPT1B_uc003bmp.2_5'UTR	NM_001145137	NP_001138609	Q92523	CPT1B_HUMAN	carnitine palmitoyltransferase 1B isoform a	126	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)	2		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		all cancers(3;3.56e-77)|OV - Ovarian serous cystadenocarcinoma(4;5.39e-74)|Epithelial(4;5.58e-70)|GBM - Glioblastoma multiforme(4;5.59e-08)|LUAD - Lung adenocarcinoma(64;0.0016)|Lung(4;0.00942)|BRCA - Breast invasive adenocarcinoma(115;0.207)		TTCAGGGTTTGGCGGAAGAAG	0.587											OREG0026685	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	136					0	0	0.012213	0	0		C	51015369	C	C	51015369	3	2	11	1	0	0	0	0	1	0	0	0	3835	1357	47	5	2006	5	CPT1B	22	51015369	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	713844	51015369	289197	1054	9446											
CSF2RA	1438	broad.mit.edu	37	chrX	1401634	1401634	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagccttctgctctgtgagtTaccacacccagcattcctcc	8	11	6	16	0	2	1	0	1	2	0	4	1	4	1	5	0	4	3	5	0	2	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:1401634T>C	uc010nct.2	+	4	360	c.38T>C	c.(37-39)TTA>TCA	p.L13S	CSF2RA_uc011mhb.1_Missense_Mutation_p.L13S|CSF2RA_uc004cpq.2_Missense_Mutation_p.L13S|CSF2RA_uc004cpn.2_Missense_Mutation_p.L13S|CSF2RA_uc004cpo.2_Missense_Mutation_p.L13S|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_5'UTR|CSF2RA_uc004cpp.2_Missense_Mutation_p.L13S|CSF2RA_uc010ncv.2_Missense_Mutation_p.L13S|CSF2RA_uc004cpr.2_Missense_Mutation_p.L13S	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	13						extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CTCTGTGAGTTACCACACCCA	0.522													28	202					0	0	0.012213	0	0		C	1401634	C	C	1401634	3	2	11	1	0	0	0	0	1	0	0	0	3937	1764	61	3	40	3	CSF2RA	23	1401634	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08		1401634	153868926	1055	9447											
ZRSR2	8233	broad.mit.edu	37	chrX	15822297	15822297	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaagaggaggagcagaaaCgacaggagaagaaagaaaaa	23	0	15	3	1	0	6	0	0	0	6	0	11	0	8	0	3	2	1	0	3	6	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:15822297C>T	uc004cxg.3	+	5	421	c.376C>T	c.(376-378)CGA>TGA	p.R126*		NM_005089	NP_005080	Q15696	U2AFM_HUMAN	U2 small nuclear RNA auxiliary factor 1-like 2	126					spliceosome assembly	U12-type spliceosomal complex	nucleotide binding|pre-mRNA 3'-splice site binding|protein binding|zinc ion binding			breast(3)	3	Hepatocellular(33;0.183)					ggagcagaaacgacaggagaa	0.209													6	30					0	0	0.001984	0	0		T	15822297	T	T	15822297	4	4	11	1	0	0	0	0	0	1	0	0	18250	528	19	1	394	1	ZRSR2	23	15822297	Nonsense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	14420663	15822297	139448263	1056	9448											
USP9X	8239	broad.mit.edu	37	chrX	41029259	41029259	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccccccagagcattccgcgGtaaacacctctcttttgtag	8	11	7	15	2	1	1	0	0	1	1	4	1	3	1	5	1	2	3	5	1	3	5			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:41029259G>C	uc004dfb.2	+	19	3281	c.2648G>C	c.(2647-2649)GGT>GCT	p.G883A	USP9X_uc004dfc.2_Missense_Mutation_p.G883A	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	883					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						GCATTCCGCGGTAAACACCTC	0.413													29	76					0	0	0.009535	0	0		C	41029259	C	C	41029259	3	2	11	1	0	0	0	0	1	0	0	0	17116	1261	44	5	2718	5	USP9X	23	41029259	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	25206962	41029259	114241301	1057	9449											
DUSP21	63904	broad.mit.edu	37	chrX	44703423	44703423	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatcatctcagggtgtccaGcagccctccatctacagctt	8	11	7	15	0	4	0	3	0	2	0	7	0	6	0	3	1	4	2	3	1	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:44703423G>A	uc004dgd.2	+	1	175	c.45G>A	c.(43-45)CAG>CAA	p.Q15Q		NM_022076	NP_071359	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	15						cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			large_intestine(1)|lung(1)	2						AGGGTGTCCAGCAGCCCTCCA	0.537													14	22					0	0	0.004007	0	0		A	44703423	A	A	44703423	2	1	11	1	0	0	0	0	0	0	0	1	4826	962	34	2		2	DUSP21	23	44703423	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3674164	44703423	110567137	1058	9450											
ARAF	369	broad.mit.edu	37	chrX	47424708	47424708	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agacagcatgaggctccctcGaaccgccccctgaatgagtt	10	7	10	14	2	0	4	0	3	0	1	2	5	1	4	4	1	2	3	4	1	2	1	rs56202823		TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:47424708G>A	uc011mlq.1	+	6	649	c.516G>A	c.(514-516)TCG>TCA	p.S172S	ARAF_uc011mln.1_RNA|ARAF_uc011mlo.1_Silent_p.S38S|ARAF_uc011mlp.1_Silent_p.S172S|ARAF_uc004dic.1_5'UTR	NM_001654	NP_001645	P10398	ARAF_HUMAN	v-raf murine sarcoma 3611 viral oncogene	172					intracellular signal transduction|negative regulation of apoptosis|positive regulation of peptidyl-serine phosphorylation		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity			large_intestine(3)|lung(2)|ovary(1)|skin(1)	7					Adenosine triphosphate(DB00171)	AGGCTCCCTCGAACCGCCCCC	0.572													9	18					0	0	0.006214	0	0		A	47424708	A	A	47424708	2	1	11	1	0	0	0	0	0	0	0	1	837	1045	37	1		1	ARAF	23	47424708	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	2721285	47424708	107845852	1059	9451											
PPP1R3F	89801	broad.mit.edu	37	chrX	49143388	49143388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagaagtctcccaccctaGcagtccctgcagaatgtgtg	11	8	9	13	0	1	2	0	0	1	2	3	2	2	2	3	0	2	2	3	0	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:49143388G>A	uc004dnh.1	+	4	2252	c.2236G>A	c.(2236-2238)GCA>ACA	p.A746T	PPP1R3F_uc011mnd.1_Missense_Mutation_p.A417T|PPP1R3F_uc004dni.2_Missense_Mutation_p.A400T|PPP1R3F_uc004dnj.1_Missense_Mutation_p.A400T	NM_033215	NP_149992	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory (inhibitor)	746	Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	Ovarian(276;0.236)					TCCCACCCTAGCAGTCCCTGC	0.612													10	22					0	0	0.010729	0	0		A	49143388	A	A	49143388	3	1	11	1	0	0	0	0	1	0	0	0	12397	971	34	2	2250	2	PPP1R3F	23	49143388	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1718680	49143388	106127172	1060	9452											
ZDHHC15	158866	broad.mit.edu	37	chrX	74651314	74651314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagagcagtggtggcagcGgtctggcttgatcagatgac	9	8	16	8	1	2	4	1	2	1	2	2	5	2	4	0	4	2	3	0	4	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:74651314G>A	uc004ecg.2	-	5	899	c.421C>T	c.(421-423)CGC>TGC	p.R141C	ZDHHC15_uc004ech.2_Missense_Mutation_p.R132C|ZDHHC15_uc011mqo.1_RNA	NM_144969	NP_659406	Q96MV8	ZDH15_HUMAN	zinc finger, DHHC-type containing 15 isoform 1	141	DHHC-type.					integral to membrane	zinc ion binding			ovary(2)	2						TGGTGGCAGCGGTCTGGCTTG	0.453													4	16					0	0	0.001168	0	0		A	74651314	A	A	74651314	3	1	11	1	0	0	0	0	1	0	0	0	17630	1116	39	1	620	1	ZDHHC15	23	74651314	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	25507926	74651314	80619246	1061	9453											
HDX	139324	broad.mit.edu	37	chrX	83616610	83616610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcggtcactgaactgagtgCggtcctgtagctgaaaaaca	11	9	11	10	2	1	3	1	3	0	0	3	3	2	3	1	2	4	2	1	2	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:83616610C>T	uc004eek.1	-	5	1425	c.1316G>A	c.(1315-1317)CGC>CAC	p.R439H	HDX_uc011mqv.1_Missense_Mutation_p.R439H|HDX_uc004eel.1_Missense_Mutation_p.R381H	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	439	Homeobox 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						GAACTGAGTGCGGTCCTGTAG	0.378													3	10					0	0	0.004672	0	0		T	83616610	T	T	83616610	3	4	11	1	0	0	0	0	1	0	0	0	7042	768	27	1	780	1	HDX	23	83616610	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	8965296	83616610	71653950	1062	9454											
KLHL4	56062	broad.mit.edu	37	chrX	86919768	86919768	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaaatcctttaaggtatGatccaaaaggtgattcatgg	13	14	8	6	0	2	2	1	2	1	0	4	2	4	2	2	3	0	1	2	3	6	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:86919768G>T	uc004efb.2	+	10	2112	c.1930G>T	c.(1930-1932)GAT>TAT	p.D644Y	KLHL4_uc004efa.2_Missense_Mutation_p.D644Y	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	644	Kelch 5.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						TTTAAGGTATGATCCAAAAGG	0.403													12	19					0.00010058	0.000109003	0.013537	1	0		T	86919768	T	T	86919768	3	4	11	1	0	0	0	0	1	0	0	0	8407	1290	45	5	1968	5	KLHL4	23	86919768	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3303158	86919768	68350792	1063	9455											
PCDH11X	27328	broad.mit.edu	37	chrX	91132491	91132491	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcagtaatcagttcctcCtggagactgcagcatatctt	10	14	7	10	0	3	1	2	0	1	1	5	2	5	1	2	1	2	4	2	1	3	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:91132491C>A	uc004efk.1	+	2	2097	c.1252C>A	c.(1252-1254)CTG>ATG	p.L418M	PCDH11X_uc004efl.1_Missense_Mutation_p.L418M|PCDH11X_uc004efo.1_Missense_Mutation_p.L418M|PCDH11X_uc010nmv.1_Missense_Mutation_p.L418M|PCDH11X_uc004efm.1_Missense_Mutation_p.L418M|PCDH11X_uc004efn.1_Missense_Mutation_p.L418M|PCDH11X_uc004efh.1_Missense_Mutation_p.L418M|PCDH11X_uc004efj.1_Missense_Mutation_p.L418M	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	418	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TCAGTTCCTCCTGGAGACTGC	0.438													23	62					2.98393e-07	3.37955e-07	0.00278	1	0		A	91132491	A	A	91132491	3	1	11	1	0	0	0	0	1	0	0	0	11527	680	24	5	1258	5	PCDH11X	23	91132491	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4212723	91132491	64138069	1064	9456											
ZMAT1	84460	broad.mit.edu	37	chrX	101139336	101139336	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagcctcatgtgaaaatcTttgctcacacattcttgatc	11	13	7	10	0	4	2	2	2	2	0	5	3	4	3	1	1	2	1	1	1	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:101139336T>A	uc004eim.2	-	2	4048	c.550A>T	c.(550-552)AGA>TGA	p.R184*	ZMAT1_uc011mrl.1_Nonsense_Mutation_p.R355*|ZMAT1_uc004ein.2_Nonsense_Mutation_p.R184*|ZMAT1_uc011mrm.1_Nonsense_Mutation_p.R184*	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	184						nucleus	zinc ion binding			ovary(1)	1						TGTGAAAATCTTTGCTCACAC	0.448													25	53					0	0	0.003954	0	0		A	101139336	A	A	101139336	4	1	11	1	0	0	0	0	0	1	0	0	17716	1617	56	5	857	5	ZMAT1	23	101139336	Nonsense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	10006845	101139336	54131224	1065	9457											
GPRASP1	9737	broad.mit.edu	37	chrX	101911911	101911911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcctagccccgtgttcaggGccatttgcaggtccacgtgt	6	11	11	13	2	1	0	1	0	0	0	3	0	3	0	5	2	2	2	5	2	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:101911911G>A	uc004ejj.3	+	5	3871	c.3070G>A	c.(3070-3072)GCC>ACC	p.A1024T	GPRASP1_uc004eji.3_Missense_Mutation_p.A1024T|GPRASP1_uc010nod.2_Missense_Mutation_p.A1024T	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	1024	OPRD1-binding.					cytoplasm	protein binding			ovary(1)|lung(1)	2						CGTGTTCAGGGCCATTTGCAG	0.542													22	59					0	0	0.014323	0	0		A	101911911	A	A	101911911	3	1	11	1	0	0	0	0	1	0	0	0	6738	1203	42	2	3072	2	GPRASP1	23	101911911	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	772575	101911911	53358649	1066	9458											
MORC4	79710	broad.mit.edu	37	chrX	106185215	106185215	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggtaggagacctgagccttCtgcagcatttccaggtgtgt	7	11	13	10	1	1	2	0	1	1	1	2	3	2	2	3	3	3	3	3	3	1	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:106185215C>T	uc004emu.3	-	16	2856	c.2613G>A	c.(2611-2613)CAG>CAA	p.Q871Q	MORC4_uc004emp.3_Intron|MORC4_uc004emv.3_Silent_p.Q871Q|MORC4_uc004emw.3_Silent_p.Q619Q	NM_024657	NP_078933	Q8TE76	MORC4_HUMAN	zinc finger, CW type with coiled-coil domain 2	871	Potential.						ATP binding|zinc ion binding			ovary(1)	1						CCTGAGCCTTCTGCAGCATTT	0.453													11	47					0	0	0.001855	0	0		T	106185215	T	T	106185215	2	4	11	1	0	0	0	0	0	0	0	1	9722	912	32	4		4	MORC4	23	106185215	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4273304	106185215	49085345	1067	9459											
CHRDL1	91851	broad.mit.edu	37	chrX	109931837	109931837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaccttttgcttttttacCtggacacaccttgcagcatt	7	15	6	13	1	0	0	0	0	0	0	0	1	0	1	3	1	4	4	3	1	1	7			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:109931837C>T	uc004eou.3	-	9	1322	c.973G>A	c.(973-975)GGT>AGT	p.G325S	CHRDL1_uc004eov.2_Missense_Mutation_p.E319K|CHRDL1_uc004eow.2_Missense_Mutation_p.G324S|CHRDL1_uc010nps.2_Missense_Mutation_p.G324S|CHRDL1_uc004eot.2_Missense_Mutation_p.G245S|CHRDL1_uc011mss.1_Missense_Mutation_p.G239S	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	318					BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						GCTTTTTTACCTGGACACACC	0.428													36	73					0	0	0.010771	0	0		T	109931837	T	T	109931837	3	4	11	1	0	0	0	0	1	0	0	0	3376	681	24	4	419	4	CHRDL1	23	109931837	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3746622	109931837	45338723	1068	9460											
CHRDL1	91851	broad.mit.edu	37	chrX	110005996	110005996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgccatctctcacccactCtgtacttcttgtcttgaaac	8	14	5	14	0	5	1	1	1	4	0	6	2	5	1	2	0	3	1	2	0	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:110005996C>T	uc004eou.3	-	3	483	c.134G>A	c.(133-135)AGA>AAA	p.R45K	CHRDL1_uc004eov.2_Missense_Mutation_p.R39K|CHRDL1_uc004eow.2_Missense_Mutation_p.R45K|CHRDL1_uc010nps.2_Missense_Mutation_p.R45K|CHRDL1_uc004eot.2_Missense_Mutation_p.R45K|CHRDL1_uc011mss.1_Missense_Mutation_p.R39K|CHRDL1_uc004eox.3_Missense_Mutation_p.R39K	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	39	VWFC 1.				BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						CTCACCCACTCTGTACTTCTT	0.423													22	53					0	0	0.014323	0	0		T	110005996	T	T	110005996	3	4	11	1	0	0	0	0	1	0	0	0	3376	913	32	4	1282	4	CHRDL1	23	110005996	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	74159	110005996	45264564	1069	9461											
HTR2C	3358	broad.mit.edu	37	chrX	114141456	114141456	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccctaaccaagaccagaaCgcacgccgaagaaagaagaa	20	1	8	12	3	0	5	0	0	0	5	0	6	0	5	4	0	3	1	4	0	8	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:114141456C>T	uc004epu.1	+	6	1583	c.855C>T	c.(853-855)AAC>AAT	p.N285N	HTR2C_uc010nqc.1_Silent_p.N285N|HTR2C_uc004epv.1_3'UTR	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	285	Cytoplasmic (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	AAGACCAGAACGCACGCCGAA	0.498													6	104					0	0	0.001984	0	0		T	114141456	T	T	114141456	2	4	11	1	0	0	0	0	0	0	0	1	7459	535	19	1		1	HTR2C	23	114141456	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	4135460	114141456	41129104	1070	9462											
ZCCHC12	170261	broad.mit.edu	37	chrX	117960020	117960020	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatagatgataccctcgaCgactccgatgaggatgtgat	12	9	12	8	3	0	5	0	3	0	2	2	10	1	6	2	1	1	0	2	1	2	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:117960020C>T	uc004equ.2	+	4	1286	c.813C>T	c.(811-813)GAC>GAT	p.D271D		NM_173798	NP_776159	Q6PEW1	ZCH12_HUMAN	zinc finger, CCHC domain containing 12	271					regulation of transcription, DNA-dependent|transcription, DNA-dependent		nucleic acid binding|zinc ion binding			ovary(1)	1						ATACCCTCGACGACTCCGATG	0.582													9	27					0	0	0.010729	0	0		T	117960020	T	T	117960020	2	4	11	1	0	0	0	0	0	0	0	1	17606	535	19	1		1	ZCCHC12	23	117960020	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	3818564	117960020	37310540	1071	9463											
OCRL	4952	broad.mit.edu	37	chrX	128724180	128724180	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccttatggcaagacagaCtccaagtgaccgccagcgtg	12	6	10	13	2	0	3	0	1	0	2	1	3	1	3	4	1	2	1	4	1	4	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:128724180C>A	uc004euq.2	+	24	2804	c.2639C>A	c.(2638-2640)ACT>AAT	p.T880N	OCRL_uc004eur.2_Missense_Mutation_p.T872N|OCRL_uc010nrb.2_RNA	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	880	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						GCAAGACAGACTCCAAGTGAC	0.483													31	59					8.4185e-14	9.82409e-14	0.012213	1	0		A	128724180	A	A	128724180	3	1	11	1	0	0	0	0	1	0	0	0	10842	565	20	5	2733	5	OCRL	23	128724180	Missense_Mutation	SNP	C	TCGA-BR-4256-01A-01D-1126-08	10764160	128724180	26546380	1072	9464											
RBMX2	51634	broad.mit.edu	37	chrX	129546425	129546425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcctcttcgtcacccagacGcaagacagtaaaggaaaagg	15	6	9	11	2	2	2	1	0	1	2	4	3	3	3	2	2	0	2	2	2	5	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:129546425G>A	uc004evt.2	+	6	636	c.572G>A	c.(571-573)CGC>CAC	p.R191H		NM_016024	NP_057108	Q9Y388	RBMX2_HUMAN	RNA binding motif protein, X-linked 2	191	Lys-rich.						nucleotide binding|RNA binding			breast(3)|ovary(1)	4						TCACCCAGACGCAAGACAGTA	0.453													13	46					0	0	0.003163	0	0		A	129546425	A	A	129546425	3	1	11	1	0	0	0	0	1	0	0	0	13177	1087	38	1	594	1	RBMX2	23	129546425	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	822245	129546425	25724135	1073	9465											
IGSF1	3547	broad.mit.edu	37	chrX	130408789	130408789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcggcactgaagggtgaTgtccttccctaacttgaaca	9	11	9	12	1	0	3	0	3	0	0	4	3	3	3	3	2	2	1	3	2	3	3			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:130408789T>C	uc004ewd.2	-	18	3773	c.3535A>G	c.(3535-3537)ATC>GTC	p.I1179V	IGSF1_uc004ewe.3_Missense_Mutation_p.I1173V|IGSF1_uc004ewf.2_Missense_Mutation_p.I1159V	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	1179	Extracellular (Potential).|Ig-like C2-type 12.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						TGAAGGGTGATGTCCTTCCCT	0.493													33	66					0	0	0.012213	0	0		C	130408789	C	C	130408789	3	2	11	1	0	0	0	0	1	0	0	0	7612	1464	51	3	487	3	IGSF1	23	130408789	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	862364	130408789	24861771	1074	9466											
MAGEC1	9947	broad.mit.edu	37	chrX	140995387	140995387	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcctcagtttcctcctcagGgggaggacttccagtcttct	5	14	9	13	0	4	0	2	0	2	0	8	2	8	2	4	3	0	1	4	3	0	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:140995387G>T	uc004fbt.2	+	4	2483	c.2197G>T	c.(2197-2199)GGG>TGG	p.G733W	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	733							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TCCTCCTCAGGGGGAGGACTT	0.547										HNSCC(15;0.026)			35	78					1.49673e-21	1.76396e-21	0.00623	1	0		T	140995387	T	T	140995387	3	4	11	1	0	0	0	0	1	0	0	0	9198	1232	43	5	2203	5	MAGEC1	23	140995387	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	10586598	140995387	14275173	1075	9467											
SLITRK2	84631	broad.mit.edu	37	chrX	144904763	144904763	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccagtgattccagtcagAggggcagccatgctgacacc	9	7	13	12	0	1	3	1	2	0	1	2	3	2	3	4	2	3	2	4	2	0	1			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:144904763A>G	uc004fcd.2	+	5	1810	c.820A>G	c.(820-822)AGG>GGG	p.R274G	SLITRK2_uc010nsp.2_Missense_Mutation_p.R274G|SLITRK2_uc010nso.2_Missense_Mutation_p.R274G|SLITRK2_uc011mwq.1_Missense_Mutation_p.R274G|SLITRK2_uc011mwr.1_Missense_Mutation_p.R274G|SLITRK2_uc011mws.1_Missense_Mutation_p.R274G|SLITRK2_uc004fcg.2_Missense_Mutation_p.R274G|SLITRK2_uc011mwt.1_Missense_Mutation_p.R274G	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	274	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					TTCCAGTCAGAGGGGCAGCCA	0.557													9	33					0	0	0.003163	0	0		G	144904763	G	G	144904763	3	3	11	1	0	0	0	0	1	0	0	0	14768	295	11	3	822	3	SLITRK2	23	144904763	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08	3909376	144904763	10365797	1076	9468											
GABRA3	2556	broad.mit.edu	37	chrX	151376568	151376568	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgccacttccacggatttgTtctttccgagagtccaagaa	9	12	9	11	2	1	2	0	0	1	2	4	4	4	3	4	1	1	1	4	1	2	4			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:151376568T>G	uc010ntk.1	-	7	923	c.683A>C	c.(682-684)AAC>ACC	p.N228T		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	228	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CACGGATTTGTTCTTTCCGAG	0.438													20	53					0	0	0.014323	0	0		G	151376568	G	G	151376568	3	3	11	1	0	0	0	0	1	0	0	0	6176	1725	60	5	811	5	GABRA3	23	151376568	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	6471805	151376568	3893992	1077	9469											
NSDHL	50814	broad.mit.edu	37	chrX	152037483	152037483	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggtgatggtgatcagTcctgtcatccagctgcagcc	6	11	12	12	0	2	2	2	2	0	0	4	2	4	2	3	2	4	3	3	2	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:152037483T>A	uc004fgt.1	+	9	1206	c.945T>A	c.(943-945)AGT>AGA	p.S315R	NSDHL_uc004fgs.1_Missense_Mutation_p.S315R	NM_001129765	NP_001123237	Q15738	NSDHL_HUMAN	NAD(P) dependent steroid dehydrogenase-like	315	Helical; (Potential).				cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity|sterol-4-alpha-carboxylate 3-dehydrogenase (decarboxylating) activity				0	Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	TGGTGATCAGTCCTGTCATCC	0.587													14	21					0	0	0.00245	0	0		A	152037483	A	A	152037483	3	1	11	1	0	0	0	0	1	0	0	0	10689	1664	58	5	971	5	NSDHL	23	152037483	Missense_Mutation	SNP	T	TCGA-BR-4256-01A-01D-1126-08	660915	152037483	3233077	1078	9470											
IDH3G	3421	broad.mit.edu	37	chrX	153053045	153053045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggctctccaccactcccGccacactctgaggagggcat	8	7	9	17	1	3	1	1	1	2	0	5	2	4	2	4	3	0	2	4	3	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:153053045G>A	uc004fip.2	-	8	734	c.548C>T	c.(547-549)GCG>GTG	p.A183V	IDH3G_uc004fio.2_Missense_Mutation_p.A125V|IDH3G_uc004fiq.2_Missense_Mutation_p.A183V|IDH3G_uc010num.2_Missense_Mutation_p.A125V|IDH3G_uc004fir.2_Missense_Mutation_p.A125V|IDH3G_uc004fit.1_Missense_Mutation_p.A183V|IDH3G_uc004fis.2_Missense_Mutation_p.A125V|IDH3G_uc004fiu.2_5'UTR	NM_004135	NP_004126	P51553	IDH3G_HUMAN	isocitrate dehydrogenase 3 (NAD+) gamma isoform	183					carbohydrate metabolic process|isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleolus	ATP binding|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	CACCACTCCCGCCACACTCTG	0.612													6	8					0	0	0.004482	0	0		A	153053045	A	A	153053045	3	1	11	1	0	0	0	0	1	0	0	0	7514	1087	38	1	720	1	IDH3G	23	153053045	Missense_Mutation	SNP	G	TCGA-BR-4256-01A-01D-1126-08	1015562	153053045	2217515	1079	9471											
DNASE1L1	1774	broad.mit.edu	37	chrX	153631964	153631964	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctgtgttttgtgtgacCtgggaggacaaagggatggg	8	10	18	5	0	0	1	0	1	0	0	0	5	0	5	2	5	0	1	2	5	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:153631964C>T	uc004fks.1	-	5	503	c.312_splice	c.e5-1	p.R104_splice	RPL10_uc004fkq.1_RNA|RPL10_uc004fkr.1_3'UTR|DNASE1L1_uc004fkt.1_Splice_Site_p.R104_splice|DNASE1L1_uc004fku.1_Splice_Site_p.R104_splice|DNASE1L1_uc004fkv.1_Splice_Site_p.R104_splice|DNASE1L1_uc004fkw.1_Splice_Site_p.R104_splice	NM_006730	NP_006721	P49184	DNSL1_HUMAN	deoxyribonuclease I-like 1 precursor						DNA catabolic process	endoplasmic reticulum	DNA binding|endodeoxyribonuclease activity, producing 5'-phosphomonoesters				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TTTGTGTGACCTGGGAGGACA	0.567													8	26					0	0	0.004482	0	0		T	153631964	T	T	153631964	5	4	11	1	0	0	0	0	0	0	1	0	4667	695	24	4	613	4	DNASE1L1	23	153631964	Splice_Site	SNP	C	TCGA-BR-4256-01A-01D-1126-08	578919	153631964	1638596	1080	9472											
IL9R	3581	broad.mit.edu	37	chrX	155232611	155232611	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgaggcgagacatgggCacctggctcctggcctgcat	6	7	14	14	1	0	2	0	1	0	1	1	3	1	2	4	4	1	3	4	4	0	0			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:155232611C>T	uc004fnv.1	+	2	248	c.69C>T	c.(67-69)GGC>GGT	p.G23G	IL9R_uc010nvn.2_Silent_p.G2G|IL9R_uc004fnu.1_Silent_p.G70G	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor	23					cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GAGACATGGGCACCTGGCTCC	0.612													5	66					0	0	0.001984	0	0		T	155232611	T	T	155232611	2	4	11	1	0	0	0	0	0	0	0	1	7724	697	25	2		2	IL9R	23	155232611	Silent	SNP	C	TCGA-BR-4256-01A-01D-1126-08	1600647	155232611	37949	1081	9473											
IL9R	3581	broad.mit.edu	37	chrX	155235812	155235812	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtgtccatctttctcctGctgactggcccgacctacct	4	13	8	16	1	2	1	0	1	2	0	4	2	3	1	5	1	2	2	5	1	1	2			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrX:155235812G>A	uc004fnv.1	+	7	1025	c.846G>A	c.(844-846)CTG>CTA	p.L282L	IL9R_uc010nvn.2_Silent_p.L261L|IL9R_uc004fnu.1_Silent_p.L317L	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor	282	Helical; (Potential).				cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TCTTTCTCCTGCTGACTGGCC	0.483													5	26					0	0	0.004482	0	0		A	155235812	A	A	155235812	2	1	11	1	0	0	0	0	0	0	0	1	7724	1306	46	2		2	IL9R	23	155235812	Silent	SNP	G	TCGA-BR-4256-01A-01D-1126-08	3201	155235812	34748	1082	9474											
NLGN4Y	22829	broad.mit.edu	37	chrY	16953056	16953056	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaaacacattgatggggAtgcagcctttacacactttt	11	13	7	10	0	0	1	0	1	0	0	1	2	1	2	2	2	4	1	2	2	2	6			TCGA-BR-4256-01A-01D-1126-08	TCGA-BR-4256-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	314e2003-3112-476a-b7c9-ecee8014938a	3537ea7a-6b33-4bdc-9e90-bfd976cdd753	g.chrY:16953056A>G	uc004ftg.2	+	6	2617	c.2365A>G	c.(2365-2367)ATG>GTG	p.M789V	NLGN4Y_uc004fte.2_Missense_Mutation_p.M621V|NLGN4Y_uc011nas.1_Missense_Mutation_p.M809V|NLGN4Y_uc004ftf.2_Missense_Mutation_p.M482V|NLGN4Y_uc004fth.2_Missense_Mutation_p.M789V	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	789	Cytoplasmic (Potential).				brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0						ATTGATGGGGATGCAGCCTTT	0.483													18	28					0	0	0.007413	0	0		G	16953056	G	G	16953056	3	3	11	1	0	0	0	0	1	0	0	0	10484	333	12	3	2537	3	NLGN4Y	24	16953056	Missense_Mutation	SNP	A	TCGA-BR-4256-01A-01D-1126-08		16953056	42420510	1083	9475											
ATAD3A	55210	broad.mit.edu	37	chr1	1455959	1455959	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtttggggaaggattcCgtgcctttgtgacagactgg	6	13	14	8	1	0	2	0	1	0	1	1	4	1	4	3	4	1	1	3	4	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:1455959C>A	uc001afz.1	+	7	950	c.856C>A	c.(856-858)CGT>AGT	p.R286S	ATAD3A_uc001aga.1_Missense_Mutation_p.R238S|ATAD3A_uc001agb.1_Missense_Mutation_p.R159S	NM_018188	NP_060658	Q9NVI7	ATD3A_HUMAN	ATPase family, AAA domain containing 3A	286							ATP binding|nucleoside-triphosphatase activity|protein binding			skin(1)	1	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.12e-36)|OV - Ovarian serous cystadenocarcinoma(86;2.18e-22)|Colorectal(212;0.000164)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00233)|BRCA - Breast invasive adenocarcinoma(365;0.00469)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0347)|Lung(427;0.147)		GGAAGGATTCCGTGCCTTTGT	0.587													17	34					1.37657e-19	1.587e-19	0.001882	1	0		A	1455959	A	A	1455959	3	1	12	1	0	0	0	0	1	0	0	0	1074	652	23	5	882	5	ATAD3A	1	1455959	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08		1455959	247794662	1	9476											
NADK	65220	broad.mit.edu	37	chr1	1687948	1687948	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgacagcccaccttctcGaaaggtacagaatttcttct	10	12	7	12	1	3	2	0	1	3	1	4	3	3	2	2	1	3	2	2	1	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:1687948G>A	uc009vkw.2	-	5	614	c.493C>T	c.(493-495)CGA>TGA	p.R165*	NADK_uc001aic.2_Nonsense_Mutation_p.R165*|NADK_uc001aid.3_Nonsense_Mutation_p.R165*|NADK_uc001aie.2_Nonsense_Mutation_p.R310*|NADK_uc010nyv.1_Nonsense_Mutation_p.R133*|NADK_uc009vkx.1_Nonsense_Mutation_p.R43*	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	165					ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)		CCACCTTCTCGAAAGGTACAG	0.517													5	21					0	0	0.000602	0	0		A	1687948	A	A	1687948	4	1	12	1	0	0	0	0	0	1	0	0	10155	1066	37	1	879	1	NADK	1	1687948	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	231989	1687948	247562673	2	9477											
PRDM16	63976	broad.mit.edu	37	chr1	3342751	3342751	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagaaactttattgccaaTagtgagatgaaccaagcatc	16	10	7	8	0	1	3	1	2	0	2	2	4	1	3	2	0	4	1	2	0	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:3342751T>C	uc001akf.2	+	14	3326	c.3246T>C	c.(3244-3246)AAT>AAC	p.N1082N	PRDM16_uc001akc.2_Silent_p.N1081N|PRDM16_uc001akd.2_Silent_p.N1081N|PRDM16_uc001ake.2_Silent_p.N1082N|PRDM16_uc009vlh.2_Silent_p.N782N	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	1082	Mediates interaction with SKI and regulation of TGF-beta signaling.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		TTATTGCCAATAGTGAGATGA	0.522			T	EVI1	MDS|AML								20	63					0	0	0.00278	0	0		C	3342751	C	C	3342751	2	2	12	1	0	0	0	0	0	0	0	1	12479	1403	49	3		3	PRDM16	1	3342751	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1654803	3342751	245907870	3	9478											
KIAA0562	9731	broad.mit.edu	37	chr1	3755627	3755627	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttggcgagatcgtagtcTtccttctccacggcacagcg	6	11	10	14	4	2	1	0	0	2	1	6	2	4	1	3	2	1	2	3	2	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:3755627T>C	uc001aky.2	-	8	1151	c.792A>G	c.(790-792)GAA>GAG	p.E264E	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Silent_p.E264E	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	264	Potential.					centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		GATCGTAGTCTTCCTTCTCCA	0.517													18	53					0	0	0.001882	0	0		C	3755627	C	C	3755627	2	2	12	1	0	0	0	0	0	0	0	1	8200	1606	56	3		3	KIAA0562	1	3755627	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	412876	3755627	245494994	4	9479											
RERE	473	broad.mit.edu	37	chr1	8421436	8421436	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggggatgctcggggacgTgctgcgattgtcctggtcga	4	10	18	9	4	0	0	0	0	0	0	3	4	1	2	1	5	3	3	1	5	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:8421436T>C	uc001ape.2	-	19	2941	c.2131A>G	c.(2131-2133)ACG>GCG	p.T711A	RERE_uc001apf.2_Missense_Mutation_p.T711A|RERE_uc010nzx.1_Missense_Mutation_p.T443A|RERE_uc001apd.2_Missense_Mutation_p.T157A	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	711					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		CTCGGGGACGTGCTGCGATTG	0.617													4	36					0	0	0.009096	0	0		C	8421436	C	C	8421436	3	2	12	1	0	0	0	0	1	0	0	0	13256	1696	59	3	2593	3	RERE	1	8421436	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	4665809	8421436	240829185	5	9480											
APITD1	378708	broad.mit.edu	37	chr1	10502436	10502436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attcaaggcagccagcagagGctggagtggtggaaagtgag	12	6	17	6	0	1	2	1	1	0	1	1	4	1	4	1	5	2	3	1	5	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:10502436G>A	uc001are.2	+	5	807	c.391G>A	c.(391-393)GCT>ACT	p.A131T	APITD1_uc001arf.2_Intron|APITD1_uc001arg.2_Intron|APITD1_uc001arh.2_Missense_Mutation_p.A92T	NM_199294	NP_954988	Q8N2Z9	CENPS_HUMAN	apoptosis-inducing, TAF9-like domain 1 isoform	131					DNA repair|mitotic prometaphase|transcription initiation, DNA-dependent	chromosome, centromeric region|cytosol|Fanconi anaemia nuclear complex	chromatin binding|DNA binding|protein binding			ovary(1)	1	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.31e-07)|COAD - Colon adenocarcinoma(227;7.32e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000297)|Kidney(185;0.000747)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0487)		GCCAGCAGAGGCTGGAGTGGT	0.453													16	36					0	0	0.001882	0	0		A	10502436	A	A	10502436	3	1	12	1	0	0	0	0	1	0	0	0	775	1203	42	2	409	2	APITD1	1	10502436	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2081000	10502436	238748185	6	9481											
FBXO44	93611	broad.mit.edu	37	chr1	11716005	11716005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggtctgcagcctctggcGggacctcatcgacctcgtga	5	9	12	15	3	3	1	1	1	2	0	5	3	3	2	4	3	2	1	4	3	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:11716005G>A	uc001asm.2	+	2	239	c.113G>A	c.(112-114)CGG>CAG	p.R38Q	FBXO2_uc001asj.2_5'Flank|FBXO2_uc009vna.2_5'Flank|FBXO2_uc009vnb.1_5'Flank|FBXO44_uc001ask.2_Missense_Mutation_p.R38Q|FBXO44_uc010oaq.1_Missense_Mutation_p.R38Q|FBXO44_uc001asl.2_Missense_Mutation_p.R38Q|FBXO44_uc001asn.2_Missense_Mutation_p.R38Q|FBXO44_uc010oar.1_Missense_Mutation_p.R38Q|FBXO44_uc010oas.1_5'UTR	NM_033182	NP_149438	Q9H4M3	FBX44_HUMAN	F-box protein 44 isoform 1	38	F-box.				protein catabolic process	SCF ubiquitin ligase complex	protein binding			ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.41e-06)|COAD - Colon adenocarcinoma(227;0.000255)|BRCA - Breast invasive adenocarcinoma(304;0.0003)|Kidney(185;0.000758)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		AGCCTCTGGCGGGACCTCATC	0.632													9	16					0	0	0.00245	0	0		A	11716005	A	A	11716005	3	1	12	1	0	0	0	0	1	0	0	0	5767	1116	39	1	115	1	FBXO44	1	11716005	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1213569	11716005	237534616	7	9482											
CLCN6	1185	broad.mit.edu	37	chr1	11894557	11894557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcaggtggccaaatggacagGggactttttcaataagggca	12	9	13	7	0	2	0	2	0	0	0	2	2	2	2	1	6	0	1	1	6	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:11894557G>A	uc001ate.3	+	17	1816	c.1703G>A	c.(1702-1704)GGG>GAG	p.G568E	CLCN6_uc010oat.1_Missense_Mutation_p.G284E|CLCN6_uc010oau.1_Missense_Mutation_p.G546E	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	568	Helical; (By similarity).				cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		AAATGGACAGGGGACTTTTTC	0.547													20	56					0	0	0.008871	0	0		A	11894557	A	A	11894557	3	1	12	1	0	0	0	0	1	0	0	0	3470	1232	43	4	1779	4	CLCN6	1	11894557	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	178552	11894557	237356064	8	9483											
LOC440563	440563	broad.mit.edu	37	chr1	13183671	13183671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattctgccatcctctcctgCtacagcagcccgggcatttt	6	12	7	16	1	2	0	0	0	2	0	4	0	3	0	4	1	5	3	4	1	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:13183671C>T	uc010obg.1	-	1	297	c.202G>A	c.(202-204)GCA>ACA	p.A68T		NM_001136561	NP_001130033	B2RXH8	B2RXH8_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	68						ribonucleoprotein complex	nucleic acid binding|nucleotide binding				0						TCCTCTCCTGCTACAGCAGCC	0.498													3	26					0	0	0.000602	0	0		T	13183671	T	T	13183671	3	4	12	1	0	0	0	0	1	0	0	0	8897	797	28	2	683	2	LOC440563	1	13183671	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1289114	13183671	236066950	9	9484											
EPHA2	1969	broad.mit.edu	37	chr1	16459802	16459802	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagcgtcttgatggccacCggcacctccttcttccccga	5	11	8	17	3	3	1	1	1	2	0	5	2	5	1	6	2	1	1	6	2	0	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:16459802C>T	uc001aya.1	-	11	2063	c.1926G>A	c.(1924-1926)CCG>CCA	p.P642P		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	642	Mediates interaction with ARHGEF16 and ELMO2.|Protein kinase.|Cytoplasmic (Potential).				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	TGATGGCCACCGGCACCTCCT	0.612													12	32					0	0	0.006122	0	0		T	16459802	T	T	16459802	2	4	12	1	0	0	0	0	0	0	0	1	5175	639	23	1		1	EPHA2	1	16459802	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3276131	16459802	232790819	10	9485											
UBR4	23352	broad.mit.edu	37	chr1	19471342	19471342	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatacaatccagctcacaggTacagtagccatggatgatgt	14	9	9	9	0	1	1	1	1	0	0	2	2	2	2	2	2	4	3	2	2	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:19471342T>C	uc001bbi.2	-	54	8009	c.8005A>G	c.(8005-8007)ACC>GCC	p.T2669A	UBR4_uc001bbk.1_Missense_Mutation_p.T351A	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2669					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		AGCTCACAGGTACAGTAGCCA	0.438													3	35					0	0	0.009096	0	0		C	19471342	C	C	19471342	3	2	12	1	0	0	0	0	1	0	0	0	16930	1638	57	3	7758	3	UBR4	1	19471342	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	3011540	19471342	229779279	11	9486											
TMCO4	255104	broad.mit.edu	37	chr1	20066382	20066382	+	Frame_Shift_Del	DEL	C	-	-																															tgctgatcgatggagacacaCcccccaggggttgtcgatga																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:20066382delC	uc001bcn.2	-	12	1356	c.1114delG	c.(1114-1116)GTGfs	p.V372fs	TMCO4_uc001bcm.2_Intron|TMCO4_uc001bco.1_Frame_Shift_Del_p.V372fs|TMCO4_uc001bcp.1_Frame_Shift_Del_p.V332fs	NM_181719	NP_859070	Q5TGY1	TMCO4_HUMAN	transmembrane and coiled-coil domains 4	372						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00708)|COAD - Colon adenocarcinoma(152;2.28e-05)|BRCA - Breast invasive adenocarcinoma(304;5.8e-05)|Kidney(64;0.000367)|GBM - Glioblastoma multiforme(114;0.000377)|KIRC - Kidney renal clear cell carcinoma(64;0.00459)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0862)|Lung(427;0.223)		TGGAGACACACCCCCCAGGGG	0.607													16	25	---	---	---	---						.	-	20066382	-	-	20066382	7	5	12	1	0	1	0	1	0	0	0	0	16023	507	18	0	810	0	TMCO4	1	20066382	Frame_Shift_Del	DEL	C	TCGA-BR-4257-01A-01D-1126-08	595040	20066382	229184239	12	9487											
CNKSR1	10256	broad.mit.edu	37	chr1	26506988	26506988	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccctttgaggactggcagCtgcctggcaagaacctgctc	8	9	11	13	0	0	2	0	1	0	1	2	3	1	3	3	3	4	4	3	3	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:26506988C>T	uc001bln.3	+	2	155	c.97C>T	c.(97-99)CTG>TTG	p.L33L	CNKSR1_uc010oex.1_RNA|CNKSR1_uc001blm.3_Silent_p.L33L|CNKSR1_uc009vsd.2_5'UTR|CNKSR1_uc009vse.2_5'UTR|CNKSR1_uc001blo.2_5'UTR	NM_006314	NP_006305	Q969H4	CNKR1_HUMAN	connector enhancer of kinase suppressor of Ras	33	SAM.				Rho protein signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cell cortex|cell-cell junction	protein binding, bridging			lung(1)|kidney(1)	2		Colorectal(325;3.46e-05)|all_lung(284;0.000116)|Lung NSC(340;0.000154)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.72e-26)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|BRCA - Breast invasive adenocarcinoma(304;0.000959)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00823)|READ - Rectum adenocarcinoma(331;0.0649)		GGACTGGCAGCTGCCTGGCAA	0.602													3	31					0	0	0.004672	0	0		T	26506988	T	T	26506988	2	4	12	1	0	0	0	0	0	0	0	1	3609	796	28	2		2	CNKSR1	1	26506988	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	6440606	26506988	222743633	13	9488											
NUDC	10726	broad.mit.edu	37	chr1	27269258	27269258	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctggacccagaccctgtcGgagctggacgtgagtgtcag	7	7	15	12	3	1	2	1	1	0	1	2	5	1	5	2	3	1	2	2	3	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:27269258G>A	uc001bng.1	+	5	653	c.537G>A	c.(535-537)TCG>TCA	p.S179S	NUDC_uc001bnh.1_Silent_p.S236S|NUDC_uc009vsq.1_Silent_p.S153S	NM_006600	NP_006591	Q9Y266	NUDC_HUMAN	nuclear distribution gene C homolog	179	CS.				cell proliferation|cytokinesis|mitotic prometaphase|multicellular organismal development	cytosol|microtubule|nucleoplasm	protein binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;6.1e-51)|OV - Ovarian serous cystadenocarcinoma(117;2.87e-29)|Colorectal(126;5.74e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000281)|STAD - Stomach adenocarcinoma(196;0.000604)|KIRC - Kidney renal clear cell carcinoma(1967;0.000739)|READ - Rectum adenocarcinoma(331;0.0421)		AGACCCTGTCGGAGCTGGACG	0.577													14	17					0	0	0.003163	0	0		A	27269258	A	A	27269258	2	1	12	1	0	0	0	0	0	0	0	1	10740	1103	39	1		1	NUDC	1	27269258	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	762270	27269258	221981363	14	9489											
HCRTR1	3061	broad.mit.edu	37	chr1	32086581	32086581	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggcatctgggctgtgtcGctggccatcatggtgcccca	4	10	14	13	1	2	0	1	0	1	0	3	0	2	0	3	4	1	3	3	4	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:32086581G>A	uc009vtx.2	+	5	901	c.516G>A	c.(514-516)TCG>TCA	p.S172S	HCRTR1_uc001btb.2_5'UTR|HCRTR1_uc001btc.3_Silent_p.S86S|HCRTR1_uc001btd.2_Silent_p.S172S|HCRTR1_uc010ogl.1_Silent_p.S172S	NM_001525	NP_001516	O43613	OX1R_HUMAN	orexin receptor 1	172	Helical; Name=4; (Potential).				feeding behavior|neuropeptide signaling pathway|synaptic transmission	integral to plasma membrane				ovary(1)	1		Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.053)		GGGCTGTGTCGCTGGCCATCA	0.617													4	9					0	0	0.001168	0	0		A	32086581	A	A	32086581	2	1	12	1	0	0	0	0	0	0	0	1	7017	1074	38	1		1	HCRTR1	1	32086581	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4817323	32086581	217164040	15	9490											
COL16A1	1307	broad.mit.edu	37	chr1	32150143	32150143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttttctccttttggccccGcggggccctgaactccaggc	3	11	10	17	2	1	1	0	1	1	0	3	1	2	1	6	4	1	0	6	4	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:32150143G>A	uc001btk.1	-	31	2506	c.2141C>T	c.(2140-2142)GCG>GTG	p.A714V	COL16A1_uc001btj.1_Missense_Mutation_p.A543V|COL16A1_uc001btl.3_Missense_Mutation_p.A714V	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	714	Triple-helical region 6 (COL6) with 1 imperfection.				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		TTTTGGCCCCGCGGGGCCCTG	0.602													15	39					0	0	0.006122	0	0		A	32150143	A	A	32150143	3	1	12	1	0	0	0	0	1	0	0	0	3676	1087	38	1	2837	1	COL16A1	1	32150143	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	63562	32150143	217100478	16	9491											
BAI2	576	broad.mit.edu	37	chr1	32193865	32193865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttctgaatgccgtttcCgggtgtgcatcaccttctag	7	13	11	10	2	3	2	1	1	2	1	4	2	4	2	3	1	2	3	3	1	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:32193865C>T	uc001btn.2	-	31	4787	c.4433G>A	c.(4432-4434)CGG>CAG	p.R1478Q	BAI2_uc001btm.2_Missense_Mutation_p.R472Q|BAI2_uc001btp.1_Missense_Mutation_p.R472Q|BAI2_uc010ogn.1_Missense_Mutation_p.R448Q|BAI2_uc010ogo.1_Missense_Mutation_p.R1087Q|BAI2_uc010ogp.1_Missense_Mutation_p.R1411Q|BAI2_uc010ogq.1_Missense_Mutation_p.R1444Q|BAI2_uc001bto.2_Missense_Mutation_p.R1477Q	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	1478	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		ATGCCGTTTCCGGGTGTGCAT	0.637													9	19					0	0	0.004482	0	0		T	32193865	T	T	32193865	3	4	12	1	0	0	0	0	1	0	0	0	1300	652	23	1	336	1	BAI2	1	32193865	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	43722	32193865	217056756	17	9492											
LCK	3932	broad.mit.edu	37	chr1	32745576	32745576	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacgcctcattgaggacaaCgagtacacagccagggaggg	12	4	14	11	2	1	1	1	1	0	0	1	4	1	3	2	3	3	2	2	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:32745576C>T	uc001bux.2	+	11	1314	c.1176C>T	c.(1174-1176)AAC>AAT	p.N392N	LCK_uc001buy.2_Silent_p.N392N|LCK_uc001buz.2_Silent_p.N422N|LCK_uc010ohc.1_Silent_p.N436N|LCK_uc001bva.2_Silent_p.N399N	NM_005356	NP_005347	P06239	LCK_HUMAN	lymphocyte-specific protein tyrosine kinase	392	Protein kinase.				activation of caspase activity|cellular zinc ion homeostasis|induction of apoptosis|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of T cell receptor signaling pathway|regulation of defense response to virus by virus|release of sequestered calcium ion into cytosol|response to drug|T cell costimulation|T cell differentiation|T cell receptor signaling pathway|viral reproduction	cytosol|Golgi apparatus|membrane raft|pericentriolar material|plasma membrane	ATP binding|ATPase binding|CD4 receptor binding|CD8 receptor binding|glycoprotein binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein kinase binding|protein serine/threonine phosphatase activity|SH2 domain binding			lung(3)|central_nervous_system(2)|ovary(1)	6		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)			Dasatinib(DB01254)	TTGAGGACAACGAGTACACAG	0.557			T	TRB@	T-ALL								13	21					0	0	0.001855	0	0		T	32745576	T	T	32745576	2	4	12	1	0	0	0	0	0	0	0	1	8692	535	19	1		1	LCK	1	32745576	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	551711	32745576	216505045	18	9493											
CSMD2	114784	broad.mit.edu	37	chr1	34180274	34180274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccctccagacggtacccggGgaagcaggagaaggtcaagg	11	3	16	11	2	1	2	1	0	0	2	2	4	2	3	3	6	2	2	3	6	4	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:34180274G>A	uc001bxn.1	-	21	3228	c.3199C>T	c.(3199-3201)CCC>TCC	p.P1067S	CSMD2_uc001bxm.1_Missense_Mutation_p.P1107S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1067	Sushi 6.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CGGTACCCGGGGAAGCAGGAG	0.662													19	35					0	0	0.003954	0	0		A	34180274	A	A	34180274	3	1	12	1	0	0	0	0	1	0	0	0	3948	1232	43	4	7460	4	CSMD2	1	34180274	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1434698	34180274	215070347	19	9494											
EIF2C1	26523	broad.mit.edu	37	chr1	36354182	36354182	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactacgaggtggacatcaaGccggataagtgtccccgtag	11	7	12	11	3	1	0	1	0	0	0	2	3	2	2	3	3	2	1	3	3	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:36354182G>T	uc001bzl.2	+	2	393	c.180G>T	c.(178-180)AAG>AAT	p.K60N	EIF2C1_uc001bzk.2_5'UTR	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	60					negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TGGACATCAAGCCGGATAAGT	0.448													13	48					6.72482e-11	7.53644e-11	0.003163	1	0		T	36354182	T	T	36354182	3	4	12	1	0	0	0	0	1	0	0	0	5011	962	34	5	186	5	EIF2C1	1	36354182	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2173908	36354182	212896439	20	9495											
LSM10	84967	broad.mit.edu	37	chr1	36859607	36859607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatcgacattgtctatgcGtccgtgggccacgctctcat	7	11	10	13	4	2	0	1	0	2	0	5	1	3	0	2	1	2	2	2	1	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:36859607G>A	uc001cao.1	-	2	274	c.124C>T	c.(124-126)CGC>TGC	p.R42C		NM_032881	NP_116270	Q969L4	LSM10_HUMAN	LSM10, U7 small nuclear RNA associated	42					histone mRNA metabolic process|mRNA processing|RNA splicing|S phase of mitotic cell cycle|termination of RNA polymerase II transcription	Cajal body|U7 snRNP	histone pre-mRNA DCP binding|protein binding				0		Myeloproliferative disorder(586;0.0393)				TTGTCTATGCGTCCGTGGGCC	0.587													11	26					0	0	0.00245	0	0		A	36859607	A	A	36859607	3	1	12	1	0	0	0	0	1	0	0	0	9069	1145	40	1	251	1	LSM10	1	36859607	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	505425	36859607	212391014	21	9496											
SF3A3	10946	broad.mit.edu	37	chr1	38433787	38433787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggatgcccaaacacctcatgCcatgagcatgacgccattcc	11	7	8	15	1	1	2	1	2	0	0	2	3	2	3	5	1	4	1	5	1	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:38433787C>T	uc001cci.2	-	15	1425	c.1301G>A	c.(1300-1302)GGC>GAC	p.G434D	SF3A3_uc010oik.1_Missense_Mutation_p.G381D	NM_006802	NP_006793	Q12874	SF3A3_HUMAN	splicing factor 3a, subunit 3	434	Matrin-type.				nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nuclear speck	nucleic acid binding|protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				ACACCTCATGCCATGAGCATG	0.428													4	93					0	0	0.009096	0	0		T	38433787	T	T	38433787	3	4	12	1	0	0	0	0	1	0	0	0	14173	739	26	2	216	2	SF3A3	1	38433787	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1574180	38433787	210816834	22	9497											
MACF1	23499	broad.mit.edu	37	chr1	39900152	39900152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaattcagagcgttatgccCgcctagagcgggcccaggtc	8	8	12	13	3	2	2	2	0	0	2	3	2	2	2	3	2	3	1	3	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:39900152C>T	uc010oiu.1	+	33	13083	c.12952C>T	c.(12952-12954)CGC>TGC	p.R4318C	MACF1_uc010ois.1_Missense_Mutation_p.R3816C|MACF1_uc001cda.1_Missense_Mutation_p.R3703C|MACF1_uc001cdc.1_Missense_Mutation_p.R2773C	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GCGTTATGCCCGCCTAGAGCG	0.433													14	37					0	0	0.006122	0	0		T	39900152	T	T	39900152	3	4	12	1	0	0	0	0	1	0	0	0	9162	652	23	1	17851	1	MACF1	1	39900152	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1466365	39900152	209350469	23	9498											
ZMPSTE24	10269	broad.mit.edu	37	chr1	40724004	40724004	+	Frame_Shift_Del	DEL	G	-	-																															cggccgagaagcgtatcttcGgggccgtgctgctcttttcc																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:40724004delG	uc001cfg.2	+	1	272	c.61delG	c.(61-63)GGGfs	p.G21fs	uc001cff.2_5'Flank	NM_005857	NP_005848	O75844	FACE1_HUMAN	zinc metallopeptidase STE24	21	Helical; (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane	metal ion binding|metalloexopeptidase activity				0	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;6.3e-18)			GCGTATCTTCGGGGCCGTGCT	0.632													14	29	---	---	---	---						.	-	40724004	-	-	40724004	7	5	12	1	0	1	0	1	0	0	0	0	17723	1116	39	0	63	0	ZMPSTE24	1	40724004	Frame_Shift_Del	DEL	G	TCGA-BR-4257-01A-01D-1126-08	823852	40724004	208526617	24	9499											
SLC6A9	6536	broad.mit.edu	37	chr1	44474178	44474178	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttccaggggttattgcagTaggcccagggcagcacgtgc	7	9	15	10	1	0	0	0	0	0	0	1	0	1	0	2	4	3	6	2	4	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:44474178T>C	uc001cll.2	-	5	848	c.656A>G	c.(655-657)TAC>TGC	p.Y219C	SLC6A9_uc009vxe.2_Missense_Mutation_p.Y75C|SLC6A9_uc010okm.1_Missense_Mutation_p.Y146C|SLC6A9_uc001clm.2_Missense_Mutation_p.Y165C|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Missense_Mutation_p.Y150C|SLC6A9_uc001cln.2_Missense_Mutation_p.Y146C|SLC6A9_uc010oko.1_Missense_Mutation_p.Y35C|SLC6A9_uc010okp.1_RNA	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	219	Extracellular (Potential).					integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	GTTATTGCAGTAGGCCCAGGG	0.582													11	38					0	0	0.001855	0	0		C	44474178	C	C	44474178	3	2	12	1	0	0	0	0	1	0	0	0	14716	1638	57	3	1504	3	SLC6A9	1	44474178	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	3750174	44474178	204776443	25	9500											
ZSWIM5	57643	broad.mit.edu	37	chr1	45553698	45553698	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcatctggaaaagggtttcGgagataggaagacgcaattt	13	11	12	5	2	2	2	1	0	1	2	3	5	2	4	0	4	0	2	0	4	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:45553698G>T	uc001cnd.2	-	2	1035	c.807C>A	c.(805-807)TCC>TCA	p.S269S		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	269							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					AAAGGGTTTCGGAGATAGGAA	0.448													24	73					8.24728e-16	9.44425e-16	0.004656	1	0		T	45553698	T	T	45553698	2	4	12	1	0	0	0	0	0	0	0	1	18269	1103	39	5		5	ZSWIM5	1	45553698	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1079520	45553698	203696923	26	9501											
MKNK1	8569	broad.mit.edu	37	chr1	47046273	47046273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcataggctccctctccaaGcaattcagaggtcagcttgt	9	10	10	12	0	3	1	2	0	1	1	5	1	4	1	2	3	2	4	2	3	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:47046273G>A	uc001cqb.2	-	4	407	c.163C>T	c.(163-165)CTT>TTT	p.L55F	MKNK1_uc010omd.1_5'UTR|MKNK1_uc001cqc.2_Missense_Mutation_p.L55F|MKNK1_uc009vyi.2_Missense_Mutation_p.L55F|MKNK1_uc010ome.1_5'UTR|MKNK1_uc009vyj.2_Intron|MKNK1_uc001cqd.2_Missense_Mutation_p.L43F|MKNK1_uc010omf.1_Missense_Mutation_p.L55F	NM_003684	NP_003675	Q9BUB5	MKNK1_HUMAN	MAP kinase-interacting serine/threonine kinase 1	55	Protein kinase.|ATP (By similarity).				intracellular protein kinase cascade|peptidyl-serine phosphorylation|regulation of translation	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2	Acute lymphoblastic leukemia(166;0.155)					CCCTCTCCAAGCAATTCAGAG	0.468													7	16					0	0	0.00308	0	0		A	47046273	A	A	47046273	3	1	12	1	0	0	0	0	1	0	0	0	9622	971	34	2	1278	2	MKNK1	1	47046273	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1492575	47046273	202204348	27	9502											
BTF3L4	91408	broad.mit.edu	37	chr1	52551842	52551842	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagatgatgatgttccAggtaagtgacatttccttag	12	12	12	5	0	0	4	0	3	0	1	2	6	2	5	2	2	0	2	2	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:52551842A>G	uc001ctk.2	+	5	637	c.429A>G	c.(427-429)CCA>CCG	p.P143P	BTF3L4_uc001ctl.2_Silent_p.P85P|BTF3L4_uc010onh.1_RNA|BTF3L4_uc001ctm.2_Silent_p.P143P	NM_152265	NP_689478	Q96K17	BT3L4_HUMAN	basic transcription factor 3-like 4 isoform 1	143										large_intestine(1)	1						ATGATGTTCCAGGTAAGTGAC	0.333													15	16					0	0	0.00499	0	0		G	52551842	G	G	52551842	2	3	12	1	0	0	0	0	0	0	0	1	1555	202	7	3		3	BTF3L4	1	52551842	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	5505569	52551842	196698779	28	9503											
LRP8	7804	broad.mit.edu	37	chr1	53722913	53722913	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaactcatttccttacaGtgctgggagtggttgctggt	7	13	13	8	0	1	1	1	0	0	1	2	2	2	2	1	3	4	4	1	3	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:53722913G>A	uc001cvi.1	-	15	2575	c.2433C>T	c.(2431-2433)CAC>CAT	p.H811H	LRP8_uc001cvh.1_Silent_p.H364H|LRP8_uc001cvk.1_Silent_p.H641H|LRP8_uc001cvj.1_Silent_p.H811H|LRP8_uc001cvl.1_Intron|LRP8_uc001cvm.1_Silent_p.H396H	NM_004631	NP_004622	Q14114	LRP8_HUMAN	low density lipoprotein receptor-related protein	811	Extracellular (Potential).				cytokine-mediated signaling pathway|endocytosis|lipid metabolic process|platelet activation|proteolysis	caveola	calcium ion binding|very-low-density lipoprotein particle receptor activity				0						TTTCCTTACAGTGCTGGGAGT	0.542													5	14					0	0	0.001168	0	0		A	53722913	A	A	53722913	2	1	12	1	0	0	0	0	0	0	0	1	8981	1043	36	4		4	LRP8	1	53722913	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1171071	53722913	195527708	29	9504											
C1orf83	127428	broad.mit.edu	37	chr1	54554360	54554360	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtggaaaactttcactgAaaaacattcaaatagacctt	17	11	6	7	0	2	3	2	2	0	1	2	4	2	4	1	1	2	0	1	1	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:54554360A>G	uc001cwt.1	+	4	535	c.335A>G	c.(334-336)GAA>GGA	p.E112G	C1orf83_uc001cwu.1_RNA	NM_153035	NP_694580	Q96MN5	TEAN2_HUMAN	hypothetical protein LOC127428	112	TFIIS N-terminal.				transcription, DNA-dependent	nucleus	DNA binding				0						ACTTTCACTGAAAAACATTCA	0.403													5	20					0	0	0.000602	0	0		G	54554360	G	G	54554360	3	3	12	1	0	0	0	0	1	0	0	0	2063	246	9	3	345	3	C1orf83	1	54554360	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	831447	54554360	194696261	30	9505											
C8A	731	broad.mit.edu	37	chr1	57347128	57347128	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatgtaggtacaatatcCtgacccaggaagatgctcag	12	10	9	10	0	1	2	1	1	0	1	3	3	3	3	3	2	2	3	3	2	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:57347128C>A	uc001cyo.2	+	5	607	c.475C>A	c.(475-477)CTG>ATG	p.L159M		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	159	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						GTACAATATCCTGACCCAGGA	0.323													11	49					1.3612e-06	1.47933e-06	0.003163	1	0		A	57347128	A	A	57347128	3	1	12	1	0	0	0	0	1	0	0	0	2419	680	24	5	493	5	C8A	1	57347128	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2792768	57347128	191903493	31	9506											
DNAJC6	9829	broad.mit.edu	37	chr1	65830386	65830386	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatggtaaaaggaggtgcaGggaggctctttagtaaccta	13	9	13	6	0	1	0	0	0	1	0	1	2	1	2	1	5	2	4	1	5	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:65830386G>T	uc001dcd.1	+	2	255	c.91G>T	c.(91-93)GGG>TGG	p.G31W	DNAJC6_uc001dcc.1_Missense_Mutation_p.G62W|DNAJC6_uc010opc.1_Missense_Mutation_p.G18W|DNAJC6_uc001dce.1_Missense_Mutation_p.G88W	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	31					cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						AGGAGGTGCAGGGAGGCTCTT	0.443													23	52					4.87955e-14	5.5644e-14	0.005443	1	0		T	65830386	T	T	65830386	3	4	12	1	0	0	0	0	1	0	0	0	4659	1000	35	5	97	5	DNAJC6	1	65830386	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	8483258	65830386	183420235	32	9507											
FPGT	8790	broad.mit.edu	37	chr1	74670596	74670597	+	Frame_Shift_Ins	INS	-	A	A																															aatgttacttgctttttatgINSaaaaaataggcacactgagc																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:74670596_74670597insA	uc001dgb.1	+	4	902_903	c.865_866insA	c.(865-867)GAAfs	p.E289fs	TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron|FPGT_uc010oqt.1_Intron|FPGT_uc010oqu.1_Intron|FPGT_uc010oqv.1_Intron	NM_003838	NP_003829	O14772	FPGT_HUMAN	fucose-1-phosphate guanyltransferase	289					fucose metabolic process	cytoplasm	fucose-1-phosphate guanylyltransferase activity|GTP binding			skin(1)	1						TGCTTTTTATGAAAAAATAGGC	0.391													8	18	---	---	---	---						.	A	74670597	A	A	74670596	7	5	12	1	0	1	1	0	0	0	0	0	6051	1291	45	0	879	0	FPGT	1	74670596	Frame_Shift_Ins	INS	-	TCGA-BR-4257-01A-01D-1126-08	8840210	74670596	174580025	33	9508											
USP33	23032	broad.mit.edu	37	chr1	78204970	78204970	+	Frame_Shift_Del	DEL	T	-	-																															ctggacactgttttcttgtaTttggtgaggttgtcttacat																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:78204970delT	uc001dht.2	-	6	771	c.424delA	c.(424-426)ATAfs	p.I142fs	USP33_uc001dhu.2_Frame_Shift_Del_p.I111fs|USP33_uc001dhv.2_5'UTR|USP33_uc001dhw.2_Frame_Shift_Del_p.I142fs	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	142					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						TTTTCTTGTATTTGGTGAGGT	0.363													34	69	---	---	---	---						.	-	78204970	-	-	78204970	7	5	12	1	0	1	0	1	0	0	0	0	17090	1493	52	0	2496	0	USP33	1	78204970	Frame_Shift_Del	DEL	T	TCGA-BR-4257-01A-01D-1126-08	3534374	78204970	171045651	34	9509											
PRKACB	5567	broad.mit.edu	37	chr1	84679841	84679841	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgtttgtgtaggtccgAttcccatcccacttcagttc	5	15	10	11	1	1	0	1	0	0	0	5	1	4	0	3	2	0	3	3	2	1	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:84679841A>G	uc001djj.2	+	9	1035	c.771A>G	c.(769-771)CGA>CGG	p.R257R	PRKACB_uc001djl.2_Silent_p.R304R|PRKACB_uc010ort.1_Silent_p.R264R|PRKACB_uc001djn.2_Silent_p.R261R|PRKACB_uc010oru.1_Silent_p.R245R|PRKACB_uc001djp.2_Silent_p.R263R|PRKACB_uc001djq.2_Silent_p.R227R|PRKACB_uc010orv.1_Silent_p.R244R	NM_002731	NP_002722	P22694	KAPCB_HUMAN	cAMP-dependent protein kinase catalytic subunit	257	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|regulation of insulin secretion|synaptic transmission|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|magnesium ion binding|protein binding			lung(2)|ovary(1)	3				all cancers(265;0.00536)|Epithelial(280;0.0161)|OV - Ovarian serous cystadenocarcinoma(397;0.141)		TGTAGGTCCGATTCCCATCCC	0.398													3	20					0	0	0.009096	0	0		G	84679841	G	G	84679841	2	3	12	1	0	0	0	0	0	0	0	1	12520	320	12	3		3	PRKACB	1	84679841	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	6474871	84679841	164570780	35	9510											
COL24A1	255631	broad.mit.edu	37	chr1	86590960	86590960	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcctcactgatgcgatgAgtggtcactgacaggctgaa	9	11	12	9	1	2	4	2	4	0	0	2	5	2	4	1	2	2	1	1	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:86590960A>G	uc001dlj.2	-	3	1101	c.1059T>C	c.(1057-1059)ACT>ACC	p.T353T	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Silent_p.T353T	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	353					cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		TGATGCGATGAGTGGTCACTG	0.413													11	39					0	0	0.00245	0	0		G	86590960	G	G	86590960	2	3	12	1	0	0	0	0	0	0	0	1	3686	291	11	3		3	COL24A1	1	86590960	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1911119	86590960	162659661	36	9511											
LRRC8B	23507	broad.mit.edu	37	chr1	90049770	90049770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactttatctttcgggctgtGttctccctgaacagttgagt	7	16	9	9	1	2	2	0	2	2	0	4	2	2	2	1	1	2	3	1	1	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:90049770G>A	uc001dni.2	+	7	2068	c.1561G>A	c.(1561-1563)GTT>ATT	p.V521I	LRRC8B_uc001dnh.2_Missense_Mutation_p.V521I|LRRC8B_uc001dnj.2_Missense_Mutation_p.V521I	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	521	LRR 3.					integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		TTCGGGCTGTGTTCTCCCTGA	0.443													21	42					0	0	0.00333	0	0		A	90049770	A	A	90049770	3	1	12	1	0	0	0	0	1	0	0	0	9040	1377	48	4	1563	4	LRRC8B	1	90049770	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3458810	90049770	159200851	37	9512											
ZNF326	284695	broad.mit.edu	37	chr1	90473078	90473078	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggaggtagaaaccagggCgggtctagctgggaagcacc	10	6	16	9	2	1	1	0	0	1	1	2	3	1	3	2	5	3	3	2	5	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:90473078C>T	uc001dnq.2	+	5	523	c.384C>T	c.(382-384)GGC>GGT	p.G128G	ZNF326_uc009wda.1_Intron|ZNF326_uc001dnr.2_Intron	NM_182976	NP_892021	Q5BKZ1	ZN326_HUMAN	zinc finger protein 326 isoform 1	128	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	DNA binding			ovary(1)	1		all_lung(203;0.0116)|Lung NSC(277;0.0417)		all cancers(265;0.00728)|Epithelial(280;0.0265)		GAAACCAGGGCGGGTCTAGCT	0.488													24	81					0	0	0.005443	0	0		T	90473078	T	T	90473078	2	4	12	1	0	0	0	0	0	0	0	1	17871	755	27	1		1	ZNF326	1	90473078	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	423308	90473078	158777543	38	9513											
BTBD8	284697	broad.mit.edu	37	chr1	92568094	92568094	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattcttaggaaaaagataAtggagattgggatatcacaa	19	10	9	3	0	2	2	1	0	1	2	2	5	2	4	0	3	0	0	0	3	7	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:92568094A>G	uc001doo.2	+	3	679	c.412A>G	c.(412-414)ATG>GTG	p.M138V	BTBD8_uc010otc.1_RNA	NM_183242	NP_899065	Q5XKL5	BTBD8_HUMAN	BTB (POZ) domain containing 8	138						nucleus				ovary(1)	1		all_lung(203;0.0484)|Lung NSC(277;0.126)|Glioma(108;0.222)		all cancers(265;0.0153)|Epithelial(280;0.0982)		GAAAAAGATAATGGAGATTGG	0.279													13	15					0	0	0.003163	0	0		G	92568094	G	G	92568094	3	3	12	1	0	0	0	0	1	0	0	0	1550	101	4	3	422	3	BTBD8	1	92568094	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2095016	92568094	156682527	39	9514											
CCDC18	343099	broad.mit.edu	37	chr1	93698101	93698101	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaatgttacaacaagagaCaattagaaatggagagctag	19	7	10	5	0	0	3	0	0	0	3	0	5	0	3	0	1	3	3	0	1	8	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:93698101C>G	uc001dpq.2	+	18	2933	c.2765C>G	c.(2764-2766)ACA>AGA	p.T922R	CCDC18_uc009wdl.1_Missense_Mutation_p.T439R	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	803	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		CAACAAGAGACAATTAGAAAT	0.313													25	69					0	0	0.003954	0	0		G	93698101	G	G	93698101	3	3	12	1	0	0	0	0	1	0	0	0	2797	478	17	5	2835	5	CCDC18	1	93698101	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1130007	93698101	155552520	40	9515											
PTBP2	58155	broad.mit.edu	37	chr1	97243163	97243163	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctcaggcagttcttcaagCtgtgacagctgtccagacag	9	10	11	11	0	3	2	2	1	1	1	4	2	4	2	1	1	3	5	1	1	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:97243163C>G	uc001drq.2	+	6	701	c.455C>G	c.(454-456)GCT>GGT	p.A152G	PTBP2_uc001drn.2_Missense_Mutation_p.A152G|PTBP2_uc001dro.2_Missense_Mutation_p.A152G|PTBP2_uc010otz.1_Missense_Mutation_p.A163G|PTBP2_uc001drp.2_RNA|PTBP2_uc009wdw.2_Missense_Mutation_p.A100G|PTBP2_uc001drr.2_Missense_Mutation_p.A152G|PTBP2_uc010oua.1_Missense_Mutation_p.A160G|PTBP2_uc001dru.2_RNA	NM_021190	NP_067013	Q9UKA9	PTBP2_HUMAN	polypyrimidine tract binding protein 2	152							nucleotide binding				0		all_epithelial(167;2.95e-05)|all_lung(203;0.000396)|Lung NSC(277;0.00171)		all cancers(265;0.0582)|Epithelial(280;0.0716)|Colorectal(170;0.0879)|KIRC - Kidney renal clear cell carcinoma(1967;0.202)		GTTCTTCAAGCTGTGACAGCT	0.423													10	22					0	0	0.000978	0	0		G	97243163	G	G	97243163	3	3	12	1	0	0	0	0	1	0	0	0	12748	797	28	5	477	5	PTBP2	1	97243163	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3545062	97243163	152007458	41	9516											
GNAI3	2773	broad.mit.edu	37	chr1	110134705	110134705	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcagctgcctatattcaatgCcagtttgaagatctgaacag	12	11	9	9	0	2	3	1	2	1	1	2	3	2	3	2	0	4	3	2	0	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:110134705C>T	uc001dxz.2	+	8	1072	c.915C>T	c.(913-915)TGC>TGT	p.C305C		NM_006496	NP_006487	P08754	GNAI3_HUMAN	guanine nucleotide binding protein (G protein),	305					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|metabotropic serotonin receptor binding|signal transducer activity			ovary(1)	1		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.046)|Colorectal(144;0.119)|Epithelial(280;0.139)|all cancers(265;0.147)|LUSC - Lung squamous cell carcinoma(189;0.237)		ATATTCAATGCCAGTTTGAAG	0.418													7	20					0	0	0.00308	0	0		T	110134705	T	T	110134705	2	4	12	1	0	0	0	0	0	0	0	1	6521	747	26	2		2	GNAI3	1	110134705	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	12891542	110134705	139115916	42	9517											
KCNA10	3744	broad.mit.edu	37	chr1	111060871	111060871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaagccttcatcctccCggaactggtccatggcctca	8	10	9	14	1	2	2	2	2	0	0	5	3	5	3	5	3	2	0	5	3	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:111060871C>T	uc001dzt.1	-	1	927	c.539G>A	c.(538-540)CGG>CAG	p.R180Q		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	180						voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		TTCATCCTCCCGGAACTGGTC	0.507													7	33					0	0	0.00308	0	0		T	111060871	T	T	111060871	3	4	12	1	0	0	0	0	1	0	0	0	8018	652	23	1	1000	1	KCNA10	1	111060871	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	926166	111060871	138189750	43	9518											
WNT2B	7482	broad.mit.edu	37	chr1	113057636	113057636	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatggatccgagagtgtcAgcaccaattccgccaccacc	12	6	9	14	2	1	2	1	0	0	2	3	4	3	3	6	1	1	1	6	1	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:113057636A>G	uc001ecb.2	+	2	838	c.323A>G	c.(322-324)CAG>CGG	p.Q108R	WNT2B_uc001eca.2_Missense_Mutation_p.Q89R|WNT2B_uc009wgg.2_Missense_Mutation_p.Q16R	NM_024494	NP_078613	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family,	108					chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity			ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CGAGAGTGTCAGCACCAATTC	0.602													6	12					0	0	0.004482	0	0		G	113057636	G	G	113057636	3	3	12	1	0	0	0	0	1	0	0	0	17413	188	7	3	462	3	WNT2B	1	113057636	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1996765	113057636	136192985	44	9519											
LRIG2	9860	broad.mit.edu	37	chr1	113666514	113666514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaacattgcagcggcccGtgtggaacataaacagagaa	16	5	11	9	2	0	2	0	0	0	2	0	4	0	3	1	2	5	1	1	2	5	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:113666514G>A	uc001edf.1	+	18	3187	c.2989G>A	c.(2989-2991)GTG>ATG	p.V997M	LRIG2_uc009wgn.1_Missense_Mutation_p.V894M	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	997	Cytoplasmic (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		GCAGCGGCCCGTGTGGAACAT	0.438													8	9					0	0	0.004482	0	0		A	113666514	A	A	113666514	3	1	12	1	0	0	0	0	1	0	0	0	8963	1145	40	1	3059	1	LRIG2	1	113666514	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	608878	113666514	135584107	45	9520											
MAGI3	260425	broad.mit.edu	37	chr1	114201800	114201800	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgcagtgaatgggcagTccattgttgaactgtctcat	8	14	10	9	0	2	2	1	2	2	0	5	2	3	2	1	1	2	3	1	1	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:114201800T>C	uc001edk.2	+	16	2909	c.2728T>C	c.(2728-2730)TCC>CCC	p.S910P	MAGI3_uc001edh.3_Missense_Mutation_p.S935P|MAGI3_uc001edi.3_Missense_Mutation_p.S910P|MAGI3_uc010owm.1_Missense_Mutation_p.S935P|MAGI3_uc001edj.2_Missense_Mutation_p.S631P	NM_001142782	NP_001136254	Q5TCQ9	MAGI3_HUMAN	membrane-associated guanylate kinase-related  3	935	Interaction with LPAR2 and GRIN2B.|PDZ 5.				apoptosis|interspecies interaction between organisms|intracellular signal transduction	nucleus|tight junction	ATP binding|guanylate kinase activity|protein binding			lung(3)|ovary(2)|central_nervous_system(1)	6	Lung SC(450;0.184)	all_cancers(81;2.34e-09)|all_epithelial(167;7.41e-09)|all_lung(203;7.13e-06)|Lung NSC(69;1.2e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAATGGGCAGTCCATTGTTGA	0.453													15	52					0	0	0.004007	0	0		C	114201800	C	C	114201800	3	2	12	1	0	0	0	0	1	0	0	0	9210	1667	58	3	2790	3	MAGI3	1	114201800	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	535286	114201800	135048821	46	9521											
PHTF1	10745	broad.mit.edu	37	chr1	114247302	114247302	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcacctttagataggaacGcagtgataaccatattttaa	15	12	6	8	1	1	2	1	1	0	1	1	3	1	3	2	1	2	1	2	1	6	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:114247302G>A	uc009wgp.1	-	13	2241	c.1789C>T	c.(1789-1791)CGT>TGT	p.R597C	PHTF1_uc001edn.2_Missense_Mutation_p.R597C|PHTF1_uc001edm.2_Missense_Mutation_p.R354C	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	597						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGATAGGAACGCAGTGATAAC	0.373													10	38					0	0	0.006214	0	0		A	114247302	A	A	114247302	3	1	12	1	0	0	0	0	1	0	0	0	11881	1087	38	1	523	1	PHTF1	1	114247302	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	45502	114247302	135003319	47	9522											
NBPF10	100132406	broad.mit.edu	37	chr1	145311946	145311946	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagcgtgttggcttggctAttgacatggatggtgagtac	9	12	14	6	1	0	2	0	2	0	0	0	3	0	3	0	4	3	4	0	4	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:145311946A>G	uc001end.3	+	14	2049	c.2014A>G	c.(2014-2016)ATT>GTT	p.I672V	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF10_uc001emp.3_Intron|NBPF10_uc010oyi.1_Intron|NBPF10_uc010oyk.1_5'UTR|NBPF10_uc010oyl.1_5'UTR|NBPF10_uc010oyj.1_5'UTR|NBPF10_uc010oym.1_5'Flank	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		TGGCTTGGCTATTGACATGGA	0.458													5	115					0	0	0.000602	0	0		G	145311946	G	G	145311946	3	3	12	1	0	0	0	0	1	0	0	0	10211	464	16	3		3	NBPF10	1	145311946	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	31064644	145311946	103938675	48	9523											
PIAS3	10401	broad.mit.edu	37	chr1	145580520	145580520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagaattactccttgtctGtgtacctggtgaggcagttg	8	14	12	7	0	1	2	0	1	1	1	2	2	2	2	2	2	2	4	2	2	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:145580520G>A	uc001eoc.1	+	7	911	c.820G>A	c.(820-822)GTG>ATG	p.V274M	NBPF10_uc001emp.3_Intron|PIAS3_uc010oyy.1_3'UTR|PIAS3_uc001eod.1_Translation_Start_Site	NM_006099	NP_006090	Q9Y6X2	PIAS3_HUMAN	protein inhibitor of activated STAT, 3	274	PINIT.				positive regulation of protein sumoylation|protein sumoylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	enzyme binding|nucleic acid binding|protein C-terminus binding|zinc ion binding			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CTCCTTGTCTGTGTACCTGGT	0.512													13	69					0	0	0.001855	0	0		A	145580520	A	A	145580520	3	1	12	1	0	0	0	0	1	0	0	0	11896	1377	48	4	846	4	PIAS3	1	145580520	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	268574	145580520	103670101	49	9524											
PRPF3	9129	broad.mit.edu	37	chr1	150307612	150307612	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatccaataccttttttgAcccccgagtctccattgccc	8	12	6	15	1	1	1	0	1	1	0	3	3	2	2	6	1	2	0	6	1	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:150307612A>G	uc001eum.3	+	7	1097	c.935A>G	c.(934-936)GAC>GGC	p.D312G	PRPF3_uc009wlp.2_RNA|PRPF3_uc010pca.1_Missense_Mutation_p.D271G|PRPF3_uc010pcb.1_Missense_Mutation_p.D263G|PRPF3_uc009wlq.1_RNA	NM_004698	NP_004689	O43395	PRPF3_HUMAN	PRP3 pre-mRNA processing factor 3 homolog	312					nuclear mRNA splicing, via spliceosome	Cajal body|cytoplasm|nuclear speck|spliceosomal complex	protein binding	p.D312E(1)		ovary(1)	1	Lung NSC(24;5.57e-29)|Breast(34;0.000844)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)	Colorectal(1306;0.0149)		ACCTTTTTTGACCCCCGAGTC	0.453													6	48					0	0	0.001984	0	0		G	150307612	G	G	150307612	3	3	12	1	0	0	0	0	1	0	0	0	12587	275	10	3	957	3	PRPF3	1	150307612	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	4727092	150307612	98943009	50	9525											
RPRD2	23248	broad.mit.edu	37	chr1	150444651	150444651	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgcttagacttgcctgAtagcacagaagaaaaggggg	12	8	12	9	0	0	4	0	1	0	3	1	4	1	4	2	2	3	2	2	2	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:150444651A>G	uc009wlr.2	+	11	3428	c.3227A>G	c.(3226-3228)GAT>GGT	p.D1076G	RPRD2_uc010pcc.1_3'UTR|RPRD2_uc001eup.3_Missense_Mutation_p.D1050G	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	1076							protein binding			ovary(1)	1						GACTTGCCTGATAGCACAGAA	0.537													16	89					0	0	0.004007	0	0		G	150444651	G	G	150444651	3	3	12	1	0	0	0	0	1	0	0	0	13642	333	12	3	3269	3	RPRD2	1	150444651	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	137039	150444651	98805970	51	9526											
TCHH	7062	broad.mit.edu	37	chr1	152082386	152082386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctctcccgctcctggcGccttctcttctccggttcct	0	15	7	19	3	3	0	0	0	3	0	8	0	5	0	6	2	1	2	6	2	0	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:152082386G>A	uc001ezp.2	-	2	3307	c.3307C>T	c.(3307-3309)CGC>TGC	p.R1103C	TCHH_uc009wne.1_Missense_Mutation_p.R1103C	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1103	10 X 30 AA tandem repeats.|4-7.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGCTCCTGGCGCCTTCTCTTC	0.174													18	74					0	0	0.010504	0	0		A	152082386	A	A	152082386	3	1	12	1	0	0	0	0	1	0	0	0	15725	1087	38	1	2528	1	TCHH	1	152082386	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1637735	152082386	97168235	52	9527											
FLG	2312	broad.mit.edu	37	chr1	152277765	152277765	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacccctctgattgtccCtggactgcctgtgagtgtct	4	13	11	13	0	2	2	0	2	2	0	3	4	3	4	4	2	1	0	4	2	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:152277765C>A	uc001ezu.1	-	3	9633	c.9597G>T	c.(9595-9597)CAG>CAT	p.Q3199H		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3199	Filaggrin 19.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGATTGTCCCTGGACTGCCT	0.552									Ichthyosis				32	160					2.0833e-19	2.39975e-19	0.00361	1	0		A	152277765	A	A	152277765	3	1	12	1	0	0	0	0	1	0	0	0	5936	680	24	5	2592	5	FLG	1	152277765	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	195379	152277765	96972856	53	9528											
FLG	2312	broad.mit.edu	37	chr1	152283156	152283156	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgtgtgtctgagtcttcTgaatgtccctcactgttagt	6	16	10	9	0	4	2	1	2	3	0	5	3	5	2	1	0	0	1	1	0	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:152283156T>C	uc001ezu.1	-	3	4242	c.4206A>G	c.(4204-4206)TCA>TCG	p.S1402S	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1402	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGAGTCTTCTGAATGTCCCT	0.567									Ichthyosis				53	302					0	0	0.00361	0	0		C	152283156	C	C	152283156	2	2	12	1	0	0	0	0	0	0	0	1	5936	1567	55	3		3	FLG	1	152283156	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	5391	152283156	96967465	54	9529											
CRNN	49860	broad.mit.edu	37	chr1	152383276	152383276	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgagagccgcaggctccCtcagcactctcgctcagtgt	6	10	10	15	2	4	1	2	1	2	1	6	2	5	1	2	1	2	4	2	1	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:152383276C>A	uc001ezx.2	-	3	356	c.282G>T	c.(280-282)GAG>GAT	p.E94D		NM_016190	NP_057274	Q9UBG3	CRNN_HUMAN	cornulin	94					cell-cell adhesion|response to heat	cytoplasm|membrane	calcium ion binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGCAGGCTCCCTCAGCACTCT	0.567													21	93					4.59853e-10	5.12826e-10	0.005443	1	0		A	152383276	A	A	152383276	3	1	12	1	0	0	0	0	1	0	0	0	3895	680	24	5	1209	5	CRNN	1	152383276	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	100120	152383276	96867345	55	9530											
SPRR2E	6704	broad.mit.edu	37	chr1	153066064	153066064	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggggaaggtgtcacaggaGgacatttttgctggcactgc	8	10	16	7	0	1	0	1	0	0	0	1	3	1	3	0	6	2	2	0	6	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:153066064G>T	uc001fbh.2	-	2	225	c.164C>A	c.(163-165)CCT>CAT	p.P55H	SPRR2D_uc009wnz.2_Intron|SPRR2A_uc001fbf.2_Intron|SPRR2A_uc009woa.2_Intron	NM_001024209	NP_001019380	P22531	SPR2E_HUMAN	small proline-rich protein 2E	55					keratinization	cornified envelope|cytoplasm	protein binding|structural molecule activity			ovary(1)	1	Lung NSC(65;1.49e-28)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGTCACAGGAGGACATTTTTG	0.557													18	121					2.4624e-09	2.73044e-09	0.008871	1	0		T	153066064	T	T	153066064	3	4	12	1	0	0	0	0	1	0	0	0	15125	1000	35	5	58	5	SPRR2E	1	153066064	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	682788	153066064	96184557	56	9531											
S100A16	140576	broad.mit.edu	37	chr1	153580105	153580105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactcatcgaagctgatgcGcccatcatgattggcatcca	10	10	9	12	2	2	2	2	2	0	0	4	3	3	2	2	1	3	3	2	1	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:153580105G>A	uc001fcc.2	-	3	350	c.217C>T	c.(217-219)CGC>TGC	p.R73C	S100A16_uc001fcd.1_Missense_Mutation_p.R73C	NM_080388	NP_525127	Q96FQ6	S10AG_HUMAN	S100 calcium binding protein A16	73	2; high affinity.|EF-hand 2.					cytosol|nucleolus	calcium ion binding|protein homodimerization activity				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			AAGCTGATGCGCCCATCATGA	0.577													5	35					0	0	0.006214	0	0		A	153580105	A	A	153580105	3	1	12	1	0	0	0	0	1	0	0	0	13802	1087	38	1	98	1	S100A16	1	153580105	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	514041	153580105	95670516	57	9532											
THBS3	7059	broad.mit.edu	37	chr1	155165843	155165843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcagaatacaccaagaCgcccccctcgcatggatgtg	13	5	10	13	2	0	3	0	0	0	3	1	4	0	4	4	1	2	2	4	1	4	1	rs140469044		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:155165843C>T	uc001fix.2	-	22	2770	c.2747G>A	c.(2746-2748)CGT>CAT	p.R916H	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Missense_Mutation_p.R907H|THBS3_uc001fiz.2_Missense_Mutation_p.R879H|THBS3_uc001fiy.2_Missense_Mutation_p.R445H|THBS3_uc010pfu.1_Missense_Mutation_p.R796H	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	916	TSP C-terminal.				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			TACACCAAGACGCCCCCCTCG	0.498													26	133					0	0	0.005443	0	0		T	155165843	T	T	155165843	3	4	12	1	0	0	0	0	1	0	0	0	15880	536	19	1	131	1	THBS3	1	155165843	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1585738	155165843	94084778	58	9533											
GBA	2629	broad.mit.edu	37	chr1	155206085	155206085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgatcccaggagcctagcCgcacactctgctcccagaac	9	6	8	18	2	1	1	0	0	1	1	4	3	3	2	4	1	4	2	4	1	2	1	rs11558184		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:155206085C>T	uc001fjh.2	-	8	1325	c.1175G>A	c.(1174-1176)CGG>CAG	p.R392Q	RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Missense_Mutation_p.R279Q|GBA_uc010pfx.1_Missense_Mutation_p.R343Q|GBA_uc001fji.2_Missense_Mutation_p.R392Q|GBA_uc001fjj.2_Missense_Mutation_p.R392Q|GBA_uc001fjk.2_Missense_Mutation_p.R392Q|GBA_uc001fjl.2_Missense_Mutation_p.R392Q|GBA_uc010pfy.1_Missense_Mutation_p.R305Q	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor	392			R -> G (in GD).|R -> W (in GD; 5% of normal activity).		carbohydrate metabolic process|cell death|cellular response to tumor necrosis factor|ceramide biosynthetic process|glucosylceramide catabolic process|lysosome organization|negative regulation of interleukin-6 production|negative regulation of MAP kinase activity|positive regulation of protein dephosphorylation|sphingosine biosynthetic process|termination of signal transduction	lysosomal lumen|lysosomal membrane	cation binding|glucosylceramidase activity|receptor binding			ovary(1)|skin(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)		Alglucerase(DB00088)|Imiglucerase(DB00053)	GGAGCCTAGCCGCACACTCTG	0.592									Gaucher_disease_type_I				8	18					0	0	0.006214	0	0		T	155206085	T	T	155206085	3	4	12	1	0	0	0	0	1	0	0	0	6281	652	23	1	451	1	GBA	1	155206085	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	40242	155206085	94044536	59	9534											
GBA	2629	broad.mit.edu	37	chr1	155206139	155206139	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcctctgaggcaaagagcAtggtgttggggaacaggcgg	10	6	18	7	1	1	2	0	1	1	1	1	3	1	3	1	7	2	3	1	7	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:155206139A>G	uc001fjh.2	-	8	1271	c.1121T>C	c.(1120-1122)ATG>ACG	p.M374T	RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Missense_Mutation_p.M261T|GBA_uc010pfx.1_Missense_Mutation_p.M325T|GBA_uc001fji.2_Missense_Mutation_p.M374T|GBA_uc001fjj.2_Missense_Mutation_p.M374T|GBA_uc001fjk.2_Missense_Mutation_p.M374T|GBA_uc001fjl.2_Missense_Mutation_p.M374T|GBA_uc010pfy.1_Missense_Mutation_p.M287T	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor	374					carbohydrate metabolic process|cell death|cellular response to tumor necrosis factor|ceramide biosynthetic process|glucosylceramide catabolic process|lysosome organization|negative regulation of interleukin-6 production|negative regulation of MAP kinase activity|positive regulation of protein dephosphorylation|sphingosine biosynthetic process|termination of signal transduction	lysosomal lumen|lysosomal membrane	cation binding|glucosylceramidase activity|receptor binding			ovary(1)|skin(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)		Alglucerase(DB00088)|Imiglucerase(DB00053)	GGCAAAGAGCATGGTGTTGGG	0.562									Gaucher_disease_type_I				4	38					0	0	0.009096	0	0		G	155206139	G	G	155206139	3	3	12	1	0	0	0	0	1	0	0	0	6281	217	8	3	505	3	GBA	1	155206139	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	54	155206139	94044482	60	9535											
ASH1L	55870	broad.mit.edu	37	chr1	155324299	155324299	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcatctcggcagatcccaTtccaacgggtatataatgat	12	11	7	11	2	2	2	1	1	1	1	5	2	4	2	2	2	1	2	2	2	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:155324299T>C	uc009wqq.2	-	16	7673	c.7193A>G	c.(7192-7194)AAT>AGT	p.N2398S	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.N2393S	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2398					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			GCAGATCCCATTCCAACGGGT	0.318													27	137					0	0	0.002096	0	0		C	155324299	C	C	155324299	3	2	12	1	0	0	0	0	1	0	0	0	1042	1493	52	3	1768	3	ASH1L	1	155324299	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	118160	155324299	93926322	61	9536											
SMG5	23381	broad.mit.edu	37	chr1	156230321	156230321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcggagcgggggcaggttaCgaagagccatgtcctctggg	7	7	17	10	3	1	1	0	0	1	1	3	3	2	2	2	5	3	2	2	5	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:156230321C>T	uc001foc.3	-	15	2353	c.2204G>A	c.(2203-2205)CGT>CAT	p.R735H	SMG5_uc009wrv.2_Missense_Mutation_p.R220H	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	735					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					GGGCAGGTTACGAAGAGCCAT	0.562													10	61					0	0	0.000978	0	0		T	156230321	T	T	156230321	3	4	12	1	0	0	0	0	1	0	0	0	14821	536	19	1	878	1	SMG5	1	156230321	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	906022	156230321	93020300	62	9537											
C1orf85	112770	broad.mit.edu	37	chr1	156264628	156264628	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccccatcgggctcaggggaTagcaggaggctccagttgac	8	6	14	13	1	1	1	1	1	0	0	3	3	2	3	3	5	1	4	3	5	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:156264628T>C	uc001foh.2	-	2	313	c.300A>G	c.(298-300)CTA>CTG	p.L100L	C1orf85_uc001fof.3_5'Flank|C1orf85_uc001fog.1_RNA|C1orf85_uc001foi.2_Silent_p.L100L|C1orf85_uc009wrx.2_Silent_p.L100L|C1orf85_uc001foj.2_Intron	NM_144580	NP_653181	Q8WWB7	NCUG1_HUMAN	kidney predominant protein NCU-G1 precursor	100	Lumenal (Potential).				positive regulation of transcription from RNA polymerase II promoter	cytosol|integral to membrane|lysosomal membrane|nucleus	ligand-dependent nuclear receptor activity|protein binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2	Hepatocellular(266;0.158)					GCTCAGGGGATAGCAGGAGGC	0.592													24	113					0	0	0.003954	0	0		C	156264628	C	C	156264628	2	2	12	1	0	0	0	0	0	0	0	1	2065	1393	49	3		3	C1orf85	1	156264628	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	34307	156264628	92985993	63	9538											
VHLL	391104	broad.mit.edu	37	chr1	156268937	156268937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgcctcctgggtgcccGcctgggcctctaaacccacc	4	7	11	19	1	1	0	0	0	1	0	2	0	2	0	8	3	3	0	8	3	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:156268937G>A	uc001fok.2	-	1	492	c.44C>T	c.(43-45)GCG>GTG	p.A15V		NM_001004319	NP_001004319	Q6RSH7	VHLL_HUMAN	von Hippel-Lindau tumor suppressor-like	15					protein ubiquitination	nucleus				ovary(1)	1	Hepatocellular(266;0.158)					CTGGGTGCCCGCCTGGGCCTC	0.617													6	46					0	0	0.001168	0	0		A	156268937	A	A	156268937	3	1	12	1	0	0	0	0	1	0	0	0	17189	1087	38	1	379	1	VHLL	1	156268937	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4309	156268937	92981684	64	9539											
BCAN	63827	broad.mit.edu	37	chr1	156616821	156616821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgaggcctaccggttccGcgtggcactgcctgcgtacc	6	7	13	15	5	0	0	0	0	0	0	1	2	1	0	5	3	5	3	5	3	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:156616821G>A	uc001fpp.2	+	3	656	c.320G>A	c.(319-321)CGC>CAC	p.R107H	BCAN_uc001fpo.2_Missense_Mutation_p.R107H	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	107	Ig-like V-type.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TACCGGTTCCGCGTGGCACTG	0.677													4	16					0	0	0.009096	0	0		A	156616821	A	A	156616821	3	1	12	1	0	0	0	0	1	0	0	0	1346	1087	38	1	326	1	BCAN	1	156616821	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	347884	156616821	92633800	65	9540											
BCAN	63827	broad.mit.edu	37	chr1	156622146	156622146	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaagagaaagaggaggaAgaagaagaggaggaggtgga	20	1	20	0	0	0	6	0	0	0	6	0	13	0	11	0	6	0	0	0	6	6	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:156622146A>G	uc001fpp.2	+	8	1740	c.1404A>G	c.(1402-1404)GAA>GAG	p.E468E	BCAN_uc001fpo.2_Silent_p.E468E	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	468	Glu-rich.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					aagaggaggaagaagaagagg	0.398													9	28					0	0	0.006214	0	0		G	156622146	G	G	156622146	2	3	12	1	0	0	0	0	0	0	0	1	1346	69	3	3		3	BCAN	1	156622146	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	5325	156622146	92628475	66	9541											
ARHGEF11	9826	broad.mit.edu	37	chr1	156909341	156909341	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acactcccatttattttaccTtttctcacaactttgtaacc	10	17	1	13	0	1	0	1	0	1	0	3	0	2	0	3	0	3	1	3	0	4	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:156909341T>C	uc001fqo.2	-	36	5015	c.3975A>G	c.(3973-3975)AAA>AAG	p.K1325K	ARHGEF11_uc010phu.1_Silent_p.K741K|ARHGEF11_uc001fqn.2_Silent_p.K1365K	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	1325					actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TTATTTTACCTTTTCTCACAA	0.493													11	82					0	0	0.001368	0	0		C	156909341	C	C	156909341	2	2	12	1	0	0	0	0	0	0	0	1	896	1623	56	3		3	ARHGEF11	1	156909341	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	287195	156909341	92341280	67	9542											
FCRL4	83417	broad.mit.edu	37	chr1	157548310	157548310	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggatctcagagtatacCaaatctccctttttggggtg	8	14	10	9	0	3	1	1	0	3	1	5	2	3	2	2	3	1	1	2	3	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:157548310C>T	uc001fqw.2	-	10	1519	c.1383G>A	c.(1381-1383)TTG>TTA	p.L461L	FCRL4_uc010phy.1_RNA	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	461	Cytoplasmic (Potential).|ITIM motif 2.					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				CAGAGTATACCAAATCTCCCT	0.393													4	50					0	0	0.000602	0	0		T	157548310	T	T	157548310	2	4	12	1	0	0	0	0	0	0	0	1	5811	593	21	4		4	FCRL4	1	157548310	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	638969	157548310	91702311	68	9543											
FCRL2	79368	broad.mit.edu	37	chr1	157738406	157738406	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctgtacccccagccacTgagcagagcaggatcagttt	9	10	9	13	0	1	2	1	1	0	1	2	3	2	3	4	1	4	4	4	1	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:157738406T>C	uc001fre.2	-	5	740	c.681A>G	c.(679-681)TCA>TCG	p.S227S	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Silent_p.S227S|FCRL2_uc009wsp.2_Intron	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	227	Ig-like C2-type 3.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CCCCAGCCACTGAGCAGAGCA	0.532													27	79					0	0	0.009535	0	0		C	157738406	C	C	157738406	2	2	12	1	0	0	0	0	0	0	0	1	5809	1567	55	3		3	FCRL2	1	157738406	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	190096	157738406	91512215	69	9544											
SPTA1	6708	broad.mit.edu	37	chr1	158615094	158615094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttcagggctagcatggtGcccactgtcgataagttctg	9	12	11	9	1	2	0	1	0	1	0	3	1	2	0	1	2	2	3	1	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:158615094G>A	uc001fst.1	-	29	4277	c.4078C>T	c.(4078-4080)CAC>TAC	p.H1360Y		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1360	Spectrin 13.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CTAGCATGGTGCCCACTGTCG	0.502													14	80					0	0	0.00245	0	0		A	158615094	A	A	158615094	3	1	12	1	0	0	0	0	1	0	0	0	15141	1319	46	2	3277	2	SPTA1	1	158615094	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	876688	158615094	90635527	70	9545											
NHLH1	4807	broad.mit.edu	37	chr1	160340833	160340833	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgcaagctgctgcctacGctgccccccgacaagaagct	8	6	10	17	3	0	1	0	0	0	1	0	2	0	1	4	0	7	5	4	0	4	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:160340833G>A	uc001fwa.2	+	2	754	c.312G>A	c.(310-312)ACG>ACA	p.T104T		NM_005598	NP_005589	Q02575	HEN1_HUMAN	nescient helix loop helix 1	104	Helix-loop-helix motif.				cell differentiation|central nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	all_cancers(52;7.11e-19)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TGCTGCCTACGCTGCCCCCCG	0.597													15	55					0	0	0.008871	0	0		A	160340833	A	A	160340833	2	1	12	1	0	0	0	0	0	0	0	1	10422	1074	38	1		1	NHLH1	1	160340833	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1725739	160340833	88909788	71	9546											
SLAMF7	57823	broad.mit.edu	37	chr1	160718187	160718187	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtagacttcccagatggaGgctactccctgaagctcagc	10	8	11	12	0	1	3	1	1	0	2	3	5	3	4	2	2	3	3	2	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:160718187G>T	uc001fwq.2	+	2	274	c.259G>T	c.(259-261)GGC>TGC	p.G87C	SLAMF7_uc010pjn.1_Intron|SLAMF7_uc001fws.2_Intron|SLAMF7_uc001fwr.2_Missense_Mutation_p.G87C|SLAMF7_uc010pjo.1_Missense_Mutation_p.G87C|SLAMF7_uc010pjp.1_Intron|SLAMF7_uc010pjq.1_Missense_Mutation_p.G87C|SLAMF7_uc010pjr.1_Intron	NM_021181	NP_067004	Q9NQ25	SLAF7_HUMAN	SLAM family member 7	87	Extracellular (Potential).				cell adhesion|natural killer cell activation|natural killer cell mediated cytotoxicity	integral to membrane	receptor activity			skin(2)|ovary(1)	3	all_cancers(52;2.63e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			CCCAGATGGAGGCTACTCCCT	0.502													6	42					3.59834e-05	3.83729e-05	0.001168	1	0		T	160718187	T	T	160718187	3	4	12	1	0	0	0	0	1	0	0	0	14394	1000	35	5	265	5	SLAMF7	1	160718187	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	377354	160718187	88532434	72	9547											
CD244	51744	broad.mit.edu	37	chr1	160803894	160803894	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgcaggttcttgtgacgTgggagcagaagactaatgag	12	10	14	5	1	1	4	0	2	1	2	1	5	1	5	0	2	2	3	0	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:160803894T>C	uc009wtq.2	-	7	1100	c.922A>G	c.(922-924)ACG>GCG	p.T308A	CD244_uc001fxa.2_Missense_Mutation_p.T303A|CD244_uc009wtp.2_RNA|CD244_uc009wtr.2_Missense_Mutation_p.T211A	NM_016382	NP_057466	Q9BZW8	CD244_HUMAN	CD244 natural killer cell receptor 2B4	308	Cytoplasmic (Potential).				blood coagulation|leukocyte migration	integral to membrane|plasma membrane	protein binding|receptor activity			ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			TCTTGTGACGTGGGAGCAGAA	0.433													16	94					0	0	0.006122	0	0		C	160803894	C	C	160803894	3	2	12	1	0	0	0	0	1	0	0	0	2990	1696	59	3	202	3	CD244	1	160803894	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	85707	160803894	88446727	73	9548											
USF1	7391	broad.mit.edu	37	chr1	161011148	161011148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcctaggggcaattgagcGctggcttcctccctgcagta	7	10	12	12	1	0	1	0	1	0	0	3	1	3	1	3	3	2	5	3	3	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:161011148G>A	uc001fxi.2	-	7	721	c.526C>T	c.(526-528)CGC>TGC	p.R176C	F11R_uc010pjw.1_5'Flank|F11R_uc001fxf.3_5'Flank|TSTD1_uc010pjx.1_5'Flank|TSTD1_uc009wtw.2_5'Flank|TSTD1_uc001fxh.3_5'Flank|USF1_uc001fxj.2_Missense_Mutation_p.R117C	NM_007122	NP_009053	P22415	USF1_HUMAN	upstream stimulatory factor 1 isoform 1	176					cellular response to insulin stimulus|glucose homeostasis|late viral mRNA transcription|lipid homeostasis|positive regulation of transcription from RNA polymerase II promoter by glucose|response to hypoxia|response to UV	transcription factor complex	bHLH transcription factor binding|histone deacetylase binding|protein heterodimerization activity|protein homodimerization activity|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(52;6.73e-18)|Breast(13;0.012)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			GCAATTGAGCGCTGGCTTCCT	0.438													6	39					0	0	0.006214	0	0		A	161011148	A	A	161011148	3	1	12	1	0	0	0	0	1	0	0	0	17058	1087	38	1	426	1	USF1	1	161011148	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	207254	161011148	88239473	74	9549											
USF1	7391	broad.mit.edu	37	chr1	161012379	161012379	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttcggaagacgtacttgAcgttggggtcagggaaggtg	9	9	17	6	3	1	2	1	1	0	1	2	4	1	4	0	5	1	3	0	5	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:161012379A>G	uc001fxi.2	-	4	335	c.140T>C	c.(139-141)GTC>GCC	p.V47A	USF1_uc001fxj.2_5'UTR	NM_007122	NP_009053	P22415	USF1_HUMAN	upstream stimulatory factor 1 isoform 1	47					cellular response to insulin stimulus|glucose homeostasis|late viral mRNA transcription|lipid homeostasis|positive regulation of transcription from RNA polymerase II promoter by glucose|response to hypoxia|response to UV	transcription factor complex	bHLH transcription factor binding|histone deacetylase binding|protein heterodimerization activity|protein homodimerization activity|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(52;6.73e-18)|Breast(13;0.012)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			GACGTACTTGACGTTGGGGTC	0.547													4	19					0	0	0.00308	0	0		G	161012379	G	G	161012379	3	3	12	1	0	0	0	0	1	0	0	0	17058	275	10	3	824	3	USF1	1	161012379	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1231	161012379	88238242	75	9550											
ARHGAP30	257106	broad.mit.edu	37	chr1	161018993	161018993	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcactcaggaaaacttcCtccccattttcctcctcaac	10	11	4	16	0	2	0	2	0	0	0	6	1	6	1	5	2	2	1	5	2	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:161018993C>A	uc001fxl.2	-	12	2164	c.1818G>T	c.(1816-1818)GAG>GAT	p.E606D	ARHGAP30_uc001fxk.2_Missense_Mutation_p.E606D|ARHGAP30_uc001fxm.2_Missense_Mutation_p.E452D|ARHGAP30_uc009wtx.2_Missense_Mutation_p.E279D|ARHGAP30_uc001fxn.1_Missense_Mutation_p.E452D	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	606					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			GGAAAACTTCCTCCCCATTTT	0.567													19	103					1.01871e-10	1.14072e-10	0.008871	1	0		A	161018993	A	A	161018993	3	1	12	1	0	0	0	0	1	0	0	0	879	680	24	5	1491	5	ARHGAP30	1	161018993	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	6614	161018993	88231628	76	9551											
USP21	27005	broad.mit.edu	37	chr1	161134845	161134845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtataccagctgtatgccCtttgcaaccactcaggcagc	9	10	8	14	0	1	0	1	0	0	0	1	0	1	0	3	1	6	5	3	1	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:161134845C>T	uc010pke.1	+	13	1896	c.1519C>T	c.(1519-1521)CTT>TTT	p.L507F	USP21_uc010pkf.1_Missense_Mutation_p.L507F|PPOX_uc001fyj.2_5'Flank|PPOX_uc001fyn.2_5'Flank|PPOX_uc001fyg.2_5'Flank|PPOX_uc001fyl.2_5'Flank|PPOX_uc001fym.2_5'Flank|PPOX_uc001fyk.2_5'Flank|PPOX_uc001fyh.2_5'Flank|PPOX_uc010pkg.1_5'Flank|PPOX_uc009wuc.1_5'Flank|PPOX_uc010pkh.1_5'Flank|PPOX_uc001fyi.2_5'Flank	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	507					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GCTGTATGCCCTTTGCAACCA	0.542													8	40					0	0	0.00308	0	0		T	161134845	T	T	161134845	3	4	12	1	0	0	0	0	1	0	0	0	17079	681	24	4	1561	4	USP21	1	161134845	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	115852	161134845	88115776	77	9552											
HSPA6	3310	broad.mit.edu	37	chr1	161494672	161494672	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgttcgatgccaagcggcTgatcgggcgcaagttcgcgg	6	8	16	11	7	0	1	0	1	0	0	3	2	0	1	1	3	2	4	1	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:161494672T>C	uc001gap.2	+	2	884	c.224T>C	c.(223-225)CTG>CCG	p.L75P	HSPA6_uc001gaq.2_Missense_Mutation_p.L75P	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	75					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			GCCAAGCGGCTGATCGGGCGC	0.677													7	37					0	0	0.004482	0	0		C	161494672	C	C	161494672	3	2	12	1	0	0	0	0	1	0	0	0	7431	1580	55	3	226	3	HSPA6	1	161494672	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	359827	161494672	87755949	78	9553											
HSPA6	3310	broad.mit.edu	37	chr1	161495689	161495689	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggtggggtgatgaccaCgctgatccagaggaacgcca	11	5	15	10	2	0	4	0	3	0	1	1	5	1	5	3	4	2	2	3	4	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:161495689C>T	uc001gap.2	+	2	1901	c.1241C>T	c.(1240-1242)ACG>ATG	p.T414M	HSPA6_uc001gaq.2_Missense_Mutation_p.T414M	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	414					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			GTGATGACCACGCTGATCCAG	0.577													6	21					0	0	0.001168	0	0		T	161495689	T	T	161495689	3	4	12	1	0	0	0	0	1	0	0	0	7431	536	19	1	1243	1	HSPA6	1	161495689	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1017	161495689	87754932	79	9554											
NUF2	83540	broad.mit.edu	37	chr1	163310207	163310207	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatatttcagagaaaacCaagcgtttggtaaacatctt	16	12	6	7	1	3	1	2	0	1	1	3	2	3	1	1	1	3	2	1	1	7	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:163310207C>T	uc001gcq.1	+	9	960	c.660C>T	c.(658-660)ACC>ACT	p.T220T	NUF2_uc001gcp.2_Silent_p.T220T|NUF2_uc001gcr.1_Silent_p.T220T|NUF2_uc009wvc.1_Silent_p.T220T	NM_145697	NP_663735	Q9BZD4	NUF2_HUMAN	NUF2, NDC80 kinetochore complex component	220	Interaction with the N-terminus of NDC80.|Potential.				cell division|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding			ovary(3)|skin(1)	4	all_hematologic(923;0.101)					CAGAGAAAACCAAGCGTTTGG	0.323													18	77					0	0	0.007413	0	0		T	163310207	T	T	163310207	2	4	12	1	0	0	0	0	0	0	0	1	10766	581	21	4		4	NUF2	1	163310207	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1814518	163310207	85940414	80	9555											
MGST3	4259	broad.mit.edu	37	chr1	165623555	165623555	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggcctggattgttggaCgagttctttatgcttatggc	5	16	13	7	1	1	0	0	0	1	0	1	3	1	2	1	4	1	4	1	4	2	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:165623555C>T	uc001gdf.2	+	5	377	c.289C>T	c.(289-291)CGA>TGA	p.R97*	MGST3_uc001gdg.2_Nonsense_Mutation_p.R111*	NM_004528	NP_004519	O14880	MGST3_HUMAN	microsomal glutathione S-transferase 3	97					leukotriene biosynthetic process|leukotriene production involved in inflammatory response|signal transduction|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glutathione peroxidase activity|glutathione transferase activity				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Glutathione(DB00143)	GATTGTTGGACGAGTTCTTTA	0.353													20	120					0	0	0.001882	0	0		T	165623555	T	T	165623555	4	4	12	1	0	0	0	0	0	1	0	0	9580	528	19	1	303	1	MGST3	1	165623555	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2313348	165623555	83627066	81	9556											
DCAF6	55827	broad.mit.edu	37	chr1	167971802	167971802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaaggccggagagtgaacGagaacgagatggtaactata	16	5	14	6	3	0	4	0	1	0	3	0	7	0	4	1	3	4	2	1	3	6	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:167971802G>A	uc001gew.2	+	8	1228	c.986G>A	c.(985-987)CGA>CAA	p.R329Q	DCAF6_uc001gev.2_Missense_Mutation_p.R329Q|DCAF6_uc001gex.2_Missense_Mutation_p.R329Q|DCAF6_uc010plk.1_Missense_Mutation_p.R298Q|DCAF6_uc001gey.2_Missense_Mutation_p.R182Q	NM_001017977	NP_001017977	Q58WW2	DCAF6_HUMAN	IQ motif and WD repeats 1 isoform b	329					positive regulation of transcription from RNA polymerase II promoter	CUL4 RING ubiquitin ligase complex|nucleus	ligand-dependent nuclear receptor transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GAGAGTGAACGAGAACGAGAT	0.338													20	61					0	0	0.008871	0	0		A	167971802	A	A	167971802	3	1	12	1	0	0	0	0	1	0	0	0	4277	1058	37	1	1016	1	DCAF6	1	167971802	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2348247	167971802	81278819	82	9557											
METTL13	51603	broad.mit.edu	37	chr1	171763553	171763553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacggccttgctacgatGtcataatgtttgatgttgac	9	13	10	9	2	1	2	1	2	0	0	1	3	1	2	1	1	3	4	1	1	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:171763553G>A	uc001ghz.2	+	7	2058	c.1711G>A	c.(1711-1713)GTC>ATC	p.V571I	METTL13_uc001gia.2_Missense_Mutation_p.V485I|METTL13_uc001gib.2_Missense_Mutation_p.V415I|METTL13_uc010pml.1_Missense_Mutation_p.V570I|METTL13_uc001gic.1_5'Flank	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	571							methyltransferase activity|protein binding			kidney(1)	1						TTGCTACGATGTCATAATGTT	0.418													5	33					0	0	0.001984	0	0		A	171763553	A	A	171763553	3	1	12	1	0	0	0	0	1	0	0	0	9515	1377	48	4	1737	4	METTL13	1	171763553	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3791751	171763553	77487068	83	9558											
TNR	7143	broad.mit.edu	37	chr1	175325505	175325505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggtgagaggtccattggtgGcatacatggtggcagtatag	9	11	16	5	0	0	1	0	1	0	1	1	2	1	1	1	6	1	3	1	6	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:175325505G>A	uc001gkp.1	-	14	3149	c.3068C>T	c.(3067-3069)GCC>GTC	p.A1023V	TNR_uc009wwu.1_Missense_Mutation_p.A1023V	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1023	Fibronectin type-III 8.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TCCATTGGTGGCATACATGGT	0.512													17	81					0	0	0.00499	0	0		A	175325505	A	A	175325505	3	1	12	1	0	0	0	0	1	0	0	0	16363	1203	42	2	1040	2	TNR	1	175325505	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3561952	175325505	73925116	84	9559											
RASAL2	9462	broad.mit.edu	37	chr1	178427415	178427415	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acggtgccagatagacacatAcctcttgctttgccacgaca	11	9	8	13	2	1	2	0	0	1	2	1	3	1	2	3	1	4	1	3	1	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:178427415A>G	uc001glr.2	+	12	2690	c.2565A>G	c.(2563-2565)ATA>ATG	p.I855M	RASAL2_uc001glq.2_Missense_Mutation_p.I996M|RASAL2_uc009wxc.2_Missense_Mutation_p.I369M	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	855					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						ATAGACACATACCTCTTGCTT	0.552													5	40					0	0	0.004482	0	0		G	178427415	G	G	178427415	3	3	12	1	0	0	0	0	1	0	0	0	13089	381	14	3	3080	3	RASAL2	1	178427415	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	3101910	178427415	70823206	85	9560											
MR1	3140	broad.mit.edu	37	chr1	181021588	181021588	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttgatcctcagagcagcaaCctttactcctgtcatgtgga	9	12	8	12	0	2	2	2	1	0	1	4	3	4	3	3	1	4	2	3	1	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:181021588C>T	uc001goq.1	+	4	827	c.822C>T	c.(820-822)AAC>AAT	p.N274N	MR1_uc001gor.1_Silent_p.N229N|MR1_uc001gos.1_Intron|MR1_uc010pns.1_Intron	NM_001531	NP_001522	Q95460	HMR1_HUMAN	major histocompatibility complex, class	274	Extracellular (Potential).|Alpha-3.|Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I|immune response	endoplasmic reticulum|extracellular region|integral to membrane|MHC class I protein complex	MHC class I receptor activity			skin(1)	1						AGAGCAGCAACCTTTACTCCT	0.522													9	43					0	0	0.008291	0	0		T	181021588	T	T	181021588	2	4	12	1	0	0	0	0	0	0	0	1	9770	506	18	4		4	MR1	1	181021588	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2594173	181021588	68229033	86	9561											
LAMC2	3918	broad.mit.edu	37	chr1	183190061	183190061	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgccgcagctctgcagaatAcagtgtccataagatcacct	11	9	8	13	1	2	2	1	0	1	2	3	2	3	2	3	0	4	3	3	0	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:183190061A>G	uc001gqa.2	+	5	919	c.605A>G	c.(604-606)TAC>TGC	p.Y202C	LAMC2_uc001gpz.3_Missense_Mutation_p.Y202C|LAMC2_uc010poa.1_Translation_Start_Site	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	202					cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						TCTGCAGAATACAGTGTCCAT	0.448													9	46					0	0	0.008291	0	0		G	183190061	G	G	183190061	3	3	12	1	0	0	0	0	1	0	0	0	8631	391	14	3	623	3	LAMC2	1	183190061	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2168473	183190061	66060560	87	9562											
HMCN1	83872	broad.mit.edu	37	chr1	185964206	185964206	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgatgaaacagagataacGctacatgtccaaggtgattc	15	9	9	8	1	0	4	0	3	0	1	2	5	1	4	1	1	3	1	1	1	4	3	rs112519612		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:185964206G>A	uc001grq.1	+	24	3994	c.3765G>A	c.(3763-3765)ACG>ACA	p.T1255T		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1255	Ig-like C2-type 9.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CAGAGATAACGCTACATGTCC	0.428													16	72					0	0	0.004007	0	0		A	185964206	A	A	185964206	2	1	12	1	0	0	0	0	0	0	0	1	7236	1074	38	1		1	HMCN1	1	185964206	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2774145	185964206	63286415	88	9563											
PRG4	10216	broad.mit.edu	37	chr1	186276818	186276818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acccaccacccctgaggagcCcacacccaccacccctgagg	10	2	7	22	0	0	2	0	2	0	0	0	3	0	3	9	2	1	0	9	2	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:186276818C>T	uc001gru.3	+	7	2018	c.1967C>T	c.(1966-1968)CCC>CTC	p.P656L	PRG4_uc001grt.3_Missense_Mutation_p.P615L|PRG4_uc009wyl.2_Missense_Mutation_p.P563L|PRG4_uc009wym.2_Missense_Mutation_p.P522L|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	656	59 X 8 AA repeats of K-X-P-X-P-T-T-X.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CCTGAGGAGCCCACACCCACC	0.677													5	53					0	0	0.001168	0	0		T	186276818	T	T	186276818	3	4	12	1	0	0	0	0	1	0	0	0	12503	623	22	4	1989	4	PRG4	1	186276818	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	312612	186276818	62973803	89	9564											
TPR	7175	broad.mit.edu	37	chr1	186300667	186300667	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaatcctggttgtataccTgagtctctacctctccatca	9	13	7	12	0	3	2	1	1	2	1	6	3	4	2	4	1	2	2	4	1	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:186300667T>C	uc001grv.2	-	39	5948	c.5651A>G	c.(5650-5652)CAG>CGG	p.Q1884R		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1884					carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		GTTGTATACCTGAGTCTCTAC	0.363			T	NTRK1	papillary thyroid								15	67					0	0	0.006122	0	0		C	186300667	C	C	186300667	3	2	12	1	0	0	0	0	1	0	0	0	16442	1580	55	3	1492	3	TPR	1	186300667	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	23849	186300667	62949954	90	9565											
TROVE2	6738	broad.mit.edu	37	chr1	193050593	193050593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactcaacgctagtacagttGctgcagcaatgtgcatggtg	10	11	11	9	1	1	0	1	0	0	0	1	0	1	0	0	1	7	7	0	1	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:193050593G>A	uc001gss.2	+	6	1361	c.1186G>A	c.(1186-1188)GCT>ACT	p.A396T	TROVE2_uc001gst.1_Missense_Mutation_p.A121T|TROVE2_uc001gsu.1_Missense_Mutation_p.A121T|TROVE2_uc001gsv.1_Missense_Mutation_p.A396T|TROVE2_uc001gsw.2_Missense_Mutation_p.A396T|TROVE2_uc009wyp.2_Missense_Mutation_p.A396T|TROVE2_uc009wyq.2_Missense_Mutation_p.A396T|TROVE2_uc001gsx.1_Missense_Mutation_p.A396T	NM_004600	NP_004591	P10155	RO60_HUMAN	TROVE domain family, member 2 isoform 2	396					transcription from RNA polymerase III promoter	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0						TAGTACAGTTGCTGCAGCAAT	0.363													10	29					0	0	0.008291	0	0		A	193050593	A	A	193050593	3	1	12	1	0	0	0	0	1	0	0	0	16602	1319	46	2	1204	2	TROVE2	1	193050593	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6749926	193050593	56200028	91	9566											
PTPRC	5788	broad.mit.edu	37	chr1	198682089	198682089	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcttttaacaggtccaggAgagcctcagattattttttg	10	16	8	7	0	2	2	1	0	1	2	3	3	3	2	2	2	2	0	2	2	2	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:198682089A>T	uc001gur.1	+	12	1353	c.1173A>T	c.(1171-1173)GGA>GGT	p.G391G	PTPRC_uc001gus.1_Silent_p.G343G|PTPRC_uc001gut.1_Silent_p.G230G|PTPRC_uc009wzf.1_Silent_p.G279G|PTPRC_uc010ppg.1_Silent_p.G327G	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	391	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						CAGGTCCAGGAGAGCCTCAGA	0.318													8	57					0	0	0.00308	0	0		T	198682089	T	T	198682089	2	4	12	1	0	0	0	0	0	0	0	1	12822	291	11	5		5	PTPRC	1	198682089	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	5631496	198682089	50568532	92	9567											
ZNF281	23528	broad.mit.edu	37	chr1	200376939	200376939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaggtgtgtaaatccactCgtggttctgcaatattgaaa	11	13	10	7	1	1	2	0	2	1	0	3	2	2	2	1	2	1	3	1	2	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:200376939C>T	uc001gve.2	-	2	2002	c.1895G>A	c.(1894-1896)CGA>CAA	p.R632Q	ZNF281_uc001gvf.1_Missense_Mutation_p.R632Q|ZNF281_uc001gvg.1_Missense_Mutation_p.R596Q	NM_012482	NP_036614	Q9Y2X9	ZN281_HUMAN	zinc finger protein 281	632					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)	2						TAAATCCACTCGTGGTTCTGC	0.393													10	72					0	0	0.001855	0	0		T	200376939	T	T	200376939	3	4	12	1	0	0	0	0	1	0	0	0	17843	884	31	1	796	1	ZNF281	1	200376939	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1694850	200376939	48873682	93	9568											
DDX59	83479	broad.mit.edu	37	chr1	200628222	200628222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctttattatatccagaagtCgcccaggggttgctatgata	10	13	10	8	1	0	2	0	1	0	1	2	2	1	2	2	2	1	3	2	2	6	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:200628222C>T	uc009wzk.2	-	4	1238	c.995G>A	c.(994-996)CGA>CAA	p.R332Q	DDX59_uc010ppl.1_Missense_Mutation_p.R332Q	NM_001031725	NP_001026895	Q5T1V6	DDX59_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 59	332	Helicase ATP-binding.					intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4						ATCCAGAAGTCGCCCAGGGGT	0.279													28	96					0	0	0.009535	0	0		T	200628222	T	T	200628222	3	4	12	1	0	0	0	0	1	0	0	0	4379	884	31	1	884	1	DDX59	1	200628222	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	251283	200628222	48622399	94	9569											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200801853	200801853	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatatttgtttgaaagaaacTatgtctttggctgatagcct	11	16	9	5	0	1	3	0	2	1	1	1	4	1	3	1	1	2	2	1	1	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:200801853T>C	uc001gvl.2	+	7	1110	c.840T>C	c.(838-840)ACT>ACC	p.T280T	CAMSAP1L1_uc001gvk.2_Silent_p.T269T|CAMSAP1L1_uc001gvm.2_Silent_p.T269T	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	280	CH.					cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TGAAAGAAACTATGTCTTTGG	0.328													11	46					0	0	0.008291	0	0		C	200801853	C	C	200801853	2	2	12	1	0	0	0	0	0	0	0	1	2615	1509	53	3		3	CAMSAP1L1	1	200801853	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	173631	200801853	48448768	95	9570											
C1orf106	55765	broad.mit.edu	37	chr1	200867455	200867455	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggaagctccaggctacCtacacaacctggcccaggct	9	6	11	15	0	0	0	0	0	0	0	1	1	1	1	4	5	4	3	4	5	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:200867455C>A	uc001gvo.2	+	2	212	c.182C>A	c.(181-183)CCT>CAT	p.P61H	C1orf106_uc010ppm.1_5'UTR	NM_018265	NP_060735	Q3KP66	CA106_HUMAN	hypothetical protein LOC55765 isoform 1	61										skin(2)|ovary(1)	3						TCCAGGCTACCTACACAACCT	0.493													15	66					2.48551e-13	2.82726e-13	0.00499	1	0		A	200867455	A	A	200867455	3	1	12	1	0	0	0	0	1	0	0	0	1983	681	24	5	188	5	C1orf106	1	200867455	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	65602	200867455	48383166	96	9571											
CHI3L1	1116	broad.mit.edu	37	chr1	203149635	203149635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctgcctccttggtgaacCggcctggaattcccggtcct	4	11	10	16	2	0	1	0	1	0	0	4	2	4	2	7	4	2	0	7	4	2	2	rs76446715	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:203149635C>T	uc001gzi.2	-	8	1028	c.857G>A	c.(856-858)CGG>CAG	p.R286Q	FMOD_uc010pqi.1_Intron|CHI3L1_uc001gzk.1_Intron|CHI3L1_uc001gzj.2_Intron|CHI3L1_uc001gzl.3_5'Flank	NM_001276	NP_001267	P36222	CH3L1_HUMAN	chitinase 3-like 1 precursor	286					chitin catabolic process	extracellular space|proteinaceous extracellular matrix	cation binding|chitinase activity|extracellular matrix structural constituent|sugar binding			pancreas(1)	1						CTTGGTGAACCGGCCTGGAAT	0.582													6	45					0	0	0.001168	0	0		T	203149635	T	T	203149635	3	4	12	1	0	0	0	0	1	0	0	0	3343	652	23	1	306	1	CHI3L1	1	203149635	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2282180	203149635	46100986	97	9572											
FMOD	2331	broad.mit.edu	37	chr1	203317092	203317092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacttcatgcgggagggaaCgaagggcaggtacttgaggt	11	8	16	6	2	1	1	1	1	0	0	1	4	1	3	0	5	4	2	0	5	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:203317092C>T	uc001gzr.2	-	2	443	c.307G>A	c.(307-309)GTT>ATT	p.V103I	FMOD_uc010pqi.1_RNA	NM_002023	NP_002014	Q06828	FMOD_HUMAN	fibromodulin precursor	103	LRRNT.				transforming growth factor beta receptor complex assembly	extracellular space|proteinaceous extracellular matrix				ovary(2)|breast(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.171)			CGGGAGGGAACGAAGGGCAGG	0.577													7	34					0	0	0.001984	0	0		T	203317092	T	T	203317092	3	4	12	1	0	0	0	0	1	0	0	0	5973	536	19	1	831	1	FMOD	1	203317092	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	167457	203317092	45933529	98	9573											
ZC3H11A	9877	broad.mit.edu	37	chr1	203821387	203821387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctctgcctcaacaggaaagCccccactctctgtggaggat	9	8	10	14	0	3	0	1	0	2	0	4	3	3	3	3	3	3	1	3	3	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:203821387C>T	uc001hac.2	+	20	2909	c.2293C>T	c.(2293-2295)CCC>TCC	p.P765S	ZC3H11A_uc001had.2_Missense_Mutation_p.P765S|ZC3H11A_uc001hae.2_Missense_Mutation_p.P765S|ZC3H11A_uc001haf.2_Missense_Mutation_p.P765S|ZC3H11A_uc010pqm.1_Missense_Mutation_p.P711S	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	765							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			AACAGGAAAGCCCCCACTCTC	0.507													7	42					0	0	0.00308	0	0		T	203821387	T	T	203821387	3	4	12	1	0	0	0	0	1	0	0	0	17585	739	26	2	2355	2	ZC3H11A	1	203821387	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	504295	203821387	45429234	99	9574											
PIK3C2B	5287	broad.mit.edu	37	chr1	204438278	204438278	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accccagtaggcgcccctgaCccccacctcccagcacctct	7	5	6	23	1	1	1	0	1	1	0	2	1	2	1	9	1	1	2	9	1	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:204438278C>G	uc001haw.2	-	3	1132	c.653G>C	c.(652-654)GGT>GCT	p.G218A	PIK3C2B_uc010pqv.1_Missense_Mutation_p.G218A|PIK3C2B_uc001hax.1_Missense_Mutation_p.G218A|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	218	Interaction with GRB2.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			GCGCCCCTGACCCCCACCTCC	0.517													44	197					0	0	0.00361	0	0		G	204438278	G	G	204438278	3	3	12	1	0	0	0	0	1	0	0	0	11929	507	18	5	4379	5	PIK3C2B	1	204438278	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	616891	204438278	44812343	100	9575											
NFASC	23114	broad.mit.edu	37	chr1	204985644	204985644	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggccacgtcacctgtcAatgctatctactctctggcc	8	10	8	15	1	4	1	2	0	2	1	5	1	4	1	3	2	2	1	3	2	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:204985644A>G	uc001hbj.2	+	30	4028	c.3700A>G	c.(3700-3702)AAT>GAT	p.N1234D	NFASC_uc010pra.1_Missense_Mutation_p.N1168D|NFASC_uc001hbi.2_Missense_Mutation_p.N1163D|NFASC_uc010prb.1_Missense_Mutation_p.N1183D|NFASC_uc010prc.1_Missense_Mutation_p.N734D|NFASC_uc001hbl.1_Missense_Mutation_p.N310D|NFASC_uc001hbm.1_Missense_Mutation_p.N257D|NFASC_uc009xbh.1_Silent_p.S88S|NFASC_uc001hbo.1_Silent_p.S109S	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	1341	Cytoplasmic (Potential).				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			GTCACCTGTCAATGCTATCTA	0.547													8	37					0	0	0.006214	0	0		G	204985644	G	G	204985644	3	3	12	1	0	0	0	0	1	0	0	0	10378	130	5	3	4223	3	NFASC	1	204985644	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	547366	204985644	44264977	101	9576											
CNTN2	6900	broad.mit.edu	37	chr1	205041113	205041113	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggacaaagaagcagctgcGgaccgagtgaggacagcagg	13	2	18	8	2	0	2	0	1	0	1	0	6	0	5	1	5	4	3	1	5	2	0	rs115143667	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:205041113G>A	uc001hbr.2	+	20	2852	c.2583G>A	c.(2581-2583)GCG>GCA	p.A861A	CNTN2_uc001hbq.1_Silent_p.A752A|CNTN2_uc001hbs.2_Silent_p.A649A	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	861	Fibronectin type-III 3.				axon guidance|clustering of voltage-gated potassium channels	anchored to membrane|juxtaparanode region of axon|myelin sheath|node of Ranvier|synapse part	identical protein binding			ovary(1)	1	all_cancers(21;0.144)|Breast(84;0.0437)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			AAGCAGCTGCGGACCGAGTGA	0.632													7	32					0	0	0.004482	0	0		A	205041113	A	A	205041113	2	1	12	1	0	0	0	0	0	0	0	1	3644	1103	39	1		1	CNTN2	1	205041113	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	55469	205041113	44209508	102	9577											
DSTYK	25778	broad.mit.edu	37	chr1	205116774	205116774	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggagcatgggctggacaAtgcccaagagaggcctcttc	9	7	13	12	0	1	1	0	0	1	1	2	4	1	3	3	4	2	2	3	4	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:205116774A>G	uc001hbw.2	-	13	2766	c.2702T>C	c.(2701-2703)ATT>ACT	p.I901T	DSTYK_uc001hbx.2_Missense_Mutation_p.I856T	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	901	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						GGGCTGGACAATGCCCAAGAG	0.537													19	87					0	0	0.001882	0	0		G	205116774	G	G	205116774	3	3	12	1	0	0	0	0	1	0	0	0	4791	101	4	3	91	3	DSTYK	1	205116774	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	75661	205116774	44133847	103	9578											
TMCC2	9911	broad.mit.edu	37	chr1	205211172	205211172	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgaaggcatcggggacaaGgtgagatgggccttctgggg	8	6	19	8	2	1	1	0	1	1	1	2	4	1	2	2	7	0	1	2	7	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:205211172G>T	uc001hbz.1	+	3	1191	c.747G>T	c.(745-747)AAG>AAT	p.K249N	TMCC2_uc010prf.1_Missense_Mutation_p.K171N	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	249				TALLLADGSNVYLLAEEAEGIGDK -> MNQVVQPLMSRHS ACRGSQAHLSW (in Ref. 6).		integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			TCGGGGACAAGGTGAGATGGG	0.682													4	18					0.000602214	0.000631354	0.000602	1	0		T	205211172	T	T	205211172	3	4	12	1	0	0	0	0	1	0	0	0	16018	1014	35	5	753	5	TMCC2	1	205211172	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	94398	205211172	44039449	104	9579											
PFKFB2	5208	broad.mit.edu	37	chr1	207241025	207241025	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggaagattgggggtgacTctggcctctcggtgcgggga	5	9	20	7	2	2	2	0	1	2	1	3	4	2	4	1	8	1	0	1	8	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:207241025T>G	uc001hfg.2	+	9	923	c.814T>G	c.(814-816)TCT>GCT	p.S272A	PFKFB2_uc010psc.1_Missense_Mutation_p.S174A|PFKFB2_uc001hfh.2_Missense_Mutation_p.S272A|PFKFB2_uc009xcc.2_Missense_Mutation_p.S230A|PFKFB2_uc010psd.1_Missense_Mutation_p.S86A	NM_006212	NP_006203	O60825	F262_HUMAN	6-phosphofructo-2-kinase/fructose-2,	272	Fructose-2,6-bisphosphatase.				fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity			ovary(1)	1	Prostate(682;0.19)					TGGGGGTGACTCTGGCCTCTC	0.478													5	93					0	0	0.001168	0	0		G	207241025	G	G	207241025	3	3	12	1	0	0	0	0	1	0	0	0	11780	1551	54	5	844	5	PFKFB2	1	207241025	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	2029853	207241025	42009596	105	9580											
CR1	1378	broad.mit.edu	37	chr1	207679272	207679272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcaatgccccagaatggCttccatttgccaggcctacc	10	9	8	14	0	0	1	0	0	0	1	1	1	1	1	6	2	4	2	6	2	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:207679272C>T	uc001hfy.2	+	2	285	c.145C>T	c.(145-147)CTT>TTT	p.L49F	CR1_uc009xcl.1_Missense_Mutation_p.L49F|CR1_uc001hfx.2_Missense_Mutation_p.L49F|CR1_uc010psg.1_Missense_Mutation_p.L49F|CR1_uc009xcj.1_Missense_Mutation_p.L49F|CR1_uc009xck.1_Missense_Mutation_p.L49F	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	49	Sushi 1.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						CCCAGAATGGCTTCCATTTGC	0.388													26	103					0	0	0.008361	0	0		T	207679272	T	T	207679272	3	4	12	1	0	0	0	0	1	0	0	0	3843	797	28	2	151	2	CR1	1	207679272	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	438247	207679272	41571349	106	9581											
CR1	1378	broad.mit.edu	37	chr1	207787831	207787831	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcagtgttccagtgtgtGaacgtgagtagaaagaacta	14	10	12	5	1	0	4	0	2	0	2	1	4	1	4	1	0	3	3	1	0	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:207787831G>T	uc001hfy.2	+	32	5448	c.5308G>T	c.(5308-5310)GAA>TAA	p.E1770*	CR1_uc001hfx.2_Nonsense_Mutation_p.E2220*	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1770	Extracellular (Potential).|Sushi 27.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TCCAGTGTGTGAACGTGAGTA	0.408													5	55					1.23904e-05	1.32859e-05	0.000602	1	0		T	207787831	T	T	207787831	4	4	12	1	0	0	0	0	0	1	0	0	3843	1291	45	5	6816	5	CR1	1	207787831	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	108559	207787831	41462790	107	9582											
CR1L	1379	broad.mit.edu	37	chr1	207818592	207818592	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctcatggcgcctcccgTccgtctcgagcgtccctttc	2	10	10	19	6	2	0	1	0	1	0	7	1	5	0	5	1	1	1	5	1	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:207818592T>A	uc001hga.3	+	1	135	c.14T>A	c.(13-15)GTC>GAC	p.V5D	CR1L_uc001hfz.2_RNA	NM_175710	NP_783641	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	5						cytoplasm|extracellular region|membrane					0						GCGCCTCCCGTCCGTCTCGAG	0.657													4	39					0	0	0.000602	0	0		A	207818592	A	A	207818592	3	1	12	1	0	0	0	0	1	0	0	0	3844	1667	58	5	16	5	CR1L	1	207818592	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	30761	207818592	41432029	108	9583											
PLXNA2	5362	broad.mit.edu	37	chr1	208216416	208216416	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcattacctccagctccCgcaggacggggtggtcctcg	6	7	13	15	3	0	0	0	0	0	0	4	1	3	1	4	5	2	3	4	5	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:208216416C>A	uc001hgz.2	-	21	4765	c.4007G>T	c.(4006-4008)CGG>CTG	p.R1336L		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1336	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		CTCCAGCTCCCGCAGGACGGG	0.602													4	28					0.00024832	0.000261743	0.009096	1	0		A	208216416	A	A	208216416	3	1	12	1	0	0	0	0	1	0	0	0	12139	652	23	5	1725	5	PLXNA2	1	208216416	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	397824	208216416	41034205	109	9584											
USH2A	7399	broad.mit.edu	37	chr1	215812576	215812576	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagatgacctggaaaaaGaaggctagacaaaaggaaga	19	4	13	5	0	0	5	0	1	0	4	0	7	0	7	1	3	1	2	1	3	7	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:215812576G>T	uc001hku.1	-	69	15360	c.14973C>A	c.(14971-14973)TTC>TTA	p.F4991L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4991	Fibronectin type-III 35.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CCTGGAAAAAGAAGGCTAGAC	0.388										HNSCC(13;0.011)			31	130					4.74835e-14	5.41932e-14	0.002096	1	0		T	215812576	T	T	215812576	3	4	12	1	0	0	0	0	1	0	0	0	17062	933	33	5	651	5	USH2A	1	215812576	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	7596160	215812576	33438045	110	9585											
USH2A	7399	broad.mit.edu	37	chr1	215814033	215814033	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagttcacacacaccacAgacaaattgctgtccaccga	13	7	5	16	1	1	1	1	0	0	1	3	2	3	1	4	0	1	2	4	0	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:215814033A>C	uc001hku.1	-	68	15222	c.14835T>G	c.(14833-14835)TCT>TCG	p.S4945S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4945	Fibronectin type-III 35.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CACACACCACAGACAAATTGC	0.527										HNSCC(13;0.011)			5	64					0	0	0.001168	0	0		C	215814033	C	C	215814033	2	2	12	1	0	0	0	0	0	0	0	1	17062	175	7	5		5	USH2A	1	215814033	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1457	215814033	33436588	111	9586											
USH2A	7399	broad.mit.edu	37	chr1	215847625	215847625	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagatctcctgaggacccCtggcctgcaattttggaggt	8	11	11	11	0	1	2	0	1	1	1	2	4	1	4	4	4	1	1	4	4	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:215847625C>A	uc001hku.1	-	63	14015	c.13628G>T	c.(13627-13629)AGG>ATG	p.R4543M		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4543	Fibronectin type-III 31.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTGAGGACCCCTGGCCTGCAA	0.488										HNSCC(13;0.011)			15	76					2.61681e-11	2.93988e-11	0.00245	1	0		A	215847625	A	A	215847625	3	1	12	1	0	0	0	0	1	0	0	0	17062	681	24	5	2020	5	USH2A	1	215847625	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	33592	215847625	33402996	112	9587											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220363814	220363814	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtggctgccaactctgActggtaacattatttaaacc	10	13	8	10	0	2	1	0	1	2	0	2	1	2	1	2	2	4	2	2	2	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:220363814A>G	uc010puk.1	-	15	1700	c.1536T>C	c.(1534-1536)AGT>AGC	p.S512S	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Silent_p.S92S	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	512					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		GCCAACTCTGACTGGTAACAT	0.393													20	95					0	0	0.00278	0	0		G	220363814	G	G	220363814	2	3	12	1	0	0	0	0	0	0	0	1	12961	272	10	3		3	RAB3GAP2	1	220363814	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	4516189	220363814	28886807	113	9588											
MOSC2	54996	broad.mit.edu	37	chr1	220928413	220928413	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggctccagacatggaccagCtggttttgcctagcaagcag	9	8	13	11	0	0	1	0	0	0	1	1	2	1	2	3	3	4	5	3	3	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:220928413C>T	uc001hmq.2	+	2	595	c.397C>T	c.(397-399)CTG>TTG	p.L133L	MOSC2_uc001hmr.2_Silent_p.L133L|MOSC2_uc009xdx.2_Silent_p.L133L	NM_017898	NP_060368	Q969Z3	MOSC2_HUMAN	MOCO sulphurase C-terminal domain containing 2	133						mitochondrial outer membrane|peroxisome	molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.00499)|all cancers(67;0.204)		CATGGACCAGCTGGTTTTGCC	0.532													5	104					0	0	0.001984	0	0		T	220928413	T	T	220928413	2	4	12	1	0	0	0	0	0	0	0	1	9732	796	28	2		2	MOSC2	1	220928413	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	564599	220928413	28322208	114	9589											
NVL	4931	broad.mit.edu	37	chr1	224424208	224424208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttaagatttaaacacttacGtatagcaatcacagcgaagg	16	10	7	8	2	1	1	1	0	0	1	1	2	1	1	0	1	4	2	0	1	8	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:224424208G>A	uc001hok.2	-	20	2409	c.2366C>T	c.(2365-2367)ACG>ATG	p.T789M	NVL_uc001hol.2_Missense_Mutation_p.T683M|NVL_uc010pvd.1_Missense_Mutation_p.T698M|NVL_uc010pve.1_Missense_Mutation_p.T600M|NVL_uc010pvf.1_RNA	NM_002533	NP_002524	O15381	NVL_HUMAN	nuclear VCP-like isoform 1	789						aggresome|cytoplasm|nucleolus	ATP binding|nucleoside-triphosphatase activity			skin(2)	2				GBM - Glioblastoma multiforme(131;0.00501)		AAACACTTACGTATAGCAATC	0.219													11	50					0	0	0.000978	0	0		A	224424208	A	A	224424208	3	1	12	1	0	0	0	0	1	0	0	0	10799	1159	40	1	220	1	NVL	1	224424208	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3495795	224424208	24826413	115	9590											
EPHX1	2052	broad.mit.edu	37	chr1	226027630	226027630	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggaggtttcttggcctcActgagagggatgtggagctg	6	11	17	7	1	2	1	1	1	1	1	3	5	2	4	1	5	1	2	1	5	0	2	rs35073925	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:226027630A>G	uc001hpk.2	+	6	903	c.823A>G	c.(823-825)ACT>GCT	p.T275A	EPHX1_uc001hpl.2_Missense_Mutation_p.T275A	NM_001136018	NP_001129490	P07099	HYEP_HUMAN	epoxide hydrolase 1	275					aromatic compound catabolic process|response to toxin	endoplasmic reticulum membrane|integral to membrane|microsome	cis-stilbene-oxide hydrolase activity|epoxide hydrolase activity			ovary(3)|lung(1)	4	Breast(184;0.197)					TCTTGGCCTCACTGAGAGGGA	0.547													17	100					0	0	0.010504	0	0		G	226027630	G	G	226027630	3	3	12	1	0	0	0	0	1	0	0	0	5187	159	6	3	841	3	EPHX1	1	226027630	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1603422	226027630	23222991	116	9591											
C1orf55	163859	broad.mit.edu	37	chr1	226175749	226175749	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctcctcttctatgggttCtttactctctgccttcttct	2	19	7	13	0	6	0	0	0	6	0	8	0	7	0	2	2	2	2	2	2	2	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:226175749C>A	uc001hpu.3	-	6	1035	c.982G>T	c.(982-984)GAA>TAA	p.E328*	C1orf55_uc001hpv.2_Nonsense_Mutation_p.E328*	NM_152608	NP_689821	Q6IQ49	CA055_HUMAN	hypothetical protein LOC163859	328										lung(1)	1	Breast(184;0.197)					TCTATGGGTTCTTTACTCTCT	0.493													13	86					4.3838e-07	4.77946e-07	0.001855	1	0		A	226175749	A	A	226175749	4	1	12	1	0	0	0	0	0	1	0	0	2050	922	32	5	381	5	C1orf55	1	226175749	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	148119	226175749	23074872	117	9592											
LIN9	286826	broad.mit.edu	37	chr1	226426761	226426761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacaattgttgcatatctccGctgaaattcaatgctgatgg	12	13	8	8	1	2	2	1	2	1	0	3	2	2	2	1	1	3	4	1	1	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:226426761G>A	uc001hqa.2	-	12	1514	c.1204C>T	c.(1204-1206)CGG>TGG	p.R402W	LIN9_uc001hqb.2_Missense_Mutation_p.R367W|LIN9_uc001hqc.2_Missense_Mutation_p.R334W|LIN9_uc009xel.1_Missense_Mutation_p.R367W	NM_173083	NP_775106	Q5TKA1	LIN9_HUMAN	lin-9 homolog	386	Potential.				cell cycle|DNA replication	nucleoplasm					0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.131)		GCATATCTCCGCTGAAATTCA	0.348													13	68					0	0	0.001855	0	0		A	226426761	A	A	226426761	3	1	12	1	0	0	0	0	1	0	0	0	8830	1086	38	1	488	1	LIN9	1	226426761	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	251012	226426761	22823860	118	9593											
TAF5L	27097	broad.mit.edu	37	chr1	229737984	229737984	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaatggatgcgggacacGtctacttggtggggctctga	8	9	15	9	2	2	1	0	1	2	0	2	3	2	3	1	5	2	1	1	5	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:229737984G>A	uc001htq.2	-	4	1096	c.930C>T	c.(928-930)GAC>GAT	p.D310D	TAF5L_uc001htr.2_Silent_p.D310D	NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	310					histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				TGCGGGACACGTCTACTTGGT	0.463													7	58					0	0	0.001984	0	0		A	229737984	A	A	229737984	2	1	12	1	0	0	0	0	0	0	0	1	15554	1136	40	1		1	TAF5L	1	229737984	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3311223	229737984	19512637	119	9594											
C1orf124	83932	broad.mit.edu	37	chr1	231488454	231488454	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttcacctgggaaactgAtcacttcacatgccattaat	12	12	5	12	0	3	1	3	1	0	0	3	2	3	2	3	1	3	0	3	1	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:231488454A>T	uc001hur.2	+	5	1265	c.817A>T	c.(817-819)ATC>TTC	p.I273F	C1orf124_uc001hus.2_3'UTR|C1orf124_uc001hut.2_3'UTR	NM_032018	NP_114407	Q9H040	CA124_HUMAN	hypothetical protein LOC83932 isoform a	273					DNA repair	nuclear speck	DNA binding|metal ion binding				0	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				TGGGAAACTGATCACTTCACA	0.373													9	55					0	0	0.004482	0	0		T	231488454	T	T	231488454	3	4	12	1	0	0	0	0	1	0	0	0	1995	333	12	5	870	5	C1orf124	1	231488454	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1750470	231488454	17762167	120	9595											
PCNXL2	80003	broad.mit.edu	37	chr1	233120166	233120166	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagcctcagccagacatcGgtcatgaagctgcccctgct	9	7	9	16	1	2	2	2	1	0	1	3	2	2	2	4	1	5	2	4	1	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:233120166G>A	uc001hvl.2	-	34	6533	c.6298C>T	c.(6298-6300)CGA>TGA	p.R2100*	PCNXL2_uc001hvk.1_3'UTR|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	2100						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GCCAGACATCGGTCATGAAGC	0.597													12	31					0	0	0.004007	0	0		A	233120166	A	A	233120166	4	1	12	1	0	0	0	0	0	1	0	0	11611	1124	39	1	119	1	PCNXL2	1	233120166	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1631712	233120166	16130455	121	9596											
HEATR1	55127	broad.mit.edu	37	chr1	236740226	236740226	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttttacggggcttcccaGgttaatgagtaaagatgtca	10	14	10	7	1	2	2	1	1	1	1	3	2	3	2	1	3	1	3	1	3	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:236740226G>T	uc001hyd.1	-	21	2904	c.2779C>A	c.(2779-2781)CTG>ATG	p.L927M	HEATR1_uc009xgh.1_Missense_Mutation_p.L170M	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	927					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			GGGCTTCCCAGGTTAATGAGT	0.373													5	75					0.000602214	0.000631354	0.000602	1	0		T	236740226	T	T	236740226	3	4	12	1	0	0	0	0	1	0	0	0	7043	991	35	5	3755	5	HEATR1	1	236740226	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3620060	236740226	12510395	122	9597											
ACTN2	88	broad.mit.edu	37	chr1	236925910	236925910	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgcactctacggggagagCgatctgtgatgctgagcttc	7	10	13	11	3	2	3	0	2	2	1	4	5	3	3	1	2	4	3	1	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:236925910C>T	uc001hyf.2	+	21	2880	c.2676C>T	c.(2674-2676)AGC>AGT	p.S892S	ACTN2_uc001hyg.2_Silent_p.S684S|ACTN2_uc009xgi.1_Silent_p.S892S|ACTN2_uc010pxu.1_Silent_p.S581S|ACTN2_uc001hyh.2_Silent_p.S580S	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	892					focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			ACGGGGAGAGCGATCTGTGAT	0.507													3	13					0	0	0.004672	0	0		T	236925910	T	T	236925910	2	4	12	1	0	0	0	0	0	0	0	1	205	767	27	1		1	ACTN2	1	236925910	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	185684	236925910	12324711	123	9598											
RYR2	6262	broad.mit.edu	37	chr1	237732550	237732550	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacaccatgatgttcacaCtgaatggtgaaatccttctt	13	12	6	10	0	2	3	1	3	1	0	3	3	3	3	2	1	1	1	2	1	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:237732550C>T	uc001hyl.1	+	29	3649	c.3529C>T	c.(3529-3531)CTG>TTG	p.L1177L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1177	Cytoplasmic (By similarity).|4 X approximate repeats.|B30.2/SPRY 2.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GATGTTCACACTGAATGGTGA	0.458													8	24					0	0	0.006214	0	0		T	237732550	T	T	237732550	2	4	12	1	0	0	0	0	0	0	0	1	13794	564	20	4		4	RYR2	1	237732550	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	806640	237732550	11518071	124	9599											
RYR2	6262	broad.mit.edu	37	chr1	237791158	237791158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtccgatgggctcaggagtCtgtcattgaagaccccgagc	8	8	14	11	2	3	2	2	1	1	1	4	5	4	3	3	3	1	1	3	3	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:237791158C>T	uc001hyl.1	+	41	6338	c.6218C>T	c.(6217-6219)TCT>TTT	p.S2073F		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2073	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GCTCAGGAGTCTGTCATTGAA	0.493													11	28					0	0	0.008291	0	0		T	237791158	T	T	237791158	3	4	12	1	0	0	0	0	1	0	0	0	13794	913	32	4	6380	4	RYR2	1	237791158	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	58608	237791158	11459463	125	9600											
WDR64	128025	broad.mit.edu	37	chr1	241912901	241912901	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggagatgaaggtgttgccGgaggggaaagactggaagga	13	5	19	4	1	0	3	0	1	0	2	0	8	0	7	1	7	1	1	1	7	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:241912901G>T	uc001hzf.1	+	8	930	c.777G>T	c.(775-777)CCG>CCT	p.P259P	WDR64_uc001hzg.1_Silent_p.P5P	NM_144625	NP_653226	B1ANS9	WDR64_HUMAN	WD repeat domain 64	539	WD 7.									skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			AGGTGTTGCCGGAGGGGAAAG	0.512													46	35					4.00472e-15	4.57826e-15	0.00361	1	0		T	241912901	T	T	241912901	2	4	12	1	0	0	0	0	0	0	0	1	17341	1103	39	5		5	WDR64	1	241912901	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4121743	241912901	7337720	126	9601											
MAP1LC3C	440738	broad.mit.edu	37	chr1	242159681	242159681	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtggctctcaggaccatGcggctcctgggatgggcagg	5	8	16	12	2	1	0	1	0	1	0	4	2	3	2	3	6	1	3	3	6	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:242159681G>A	uc001hzk.2	-	4	303	c.228C>T	c.(226-228)CGC>CGT	p.R76R		NM_001004343	NP_001004343	Q9BXW4	MLP3C_HUMAN	microtubule-associated protein 1 light chain 3	76					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule	protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TCAGGACCATGCGGCTCCTGG	0.562													7	50					0	0	0.001984	0	0		A	242159681	A	A	242159681	2	1	12	1	0	0	0	0	0	0	0	1	9251	1306	46	2		2	MAP1LC3C	1	242159681	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	246780	242159681	7090940	127	9602											
CEP170	9859	broad.mit.edu	37	chr1	243303325	243303325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggatcaccagatcgacCgttgtttccttctggtgttt	5	17	9	10	2	3	1	1	0	2	1	5	3	4	2	3	2	0	3	3	2	0	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:243303325C>T	uc001hzs.2	-	16	4552	c.4144G>A	c.(4144-4146)GGT>AGT	p.G1382S	CEP170_uc001hzt.2_Missense_Mutation_p.G1258S|CEP170_uc001hzu.2_Missense_Mutation_p.G1284S|CEP170_uc001hzr.2_5'UTR|CEP170_uc001hzv.1_Missense_Mutation_p.G734S	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	1382	Targeting to microtubules.|Targeting to centrosomes.					centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			CCAGATCGACCGTTGTTTCCT	0.448													8	36					0	0	0.006214	0	0		T	243303325	T	T	243303325	3	4	12	1	0	0	0	0	1	0	0	0	3253	652	23	1	630	1	CEP170	1	243303325	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1143644	243303325	5947296	128	9603											
ZNF496	84838	broad.mit.edu	37	chr1	247464263	247464263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgctgtcgctgaacagctccCcgcacaccgagcactcgtgc	7	6	10	18	5	0	1	0	1	0	0	3	2	1	1	3	0	4	5	3	0	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:247464263C>T	uc001ico.2	-	9	1787	c.1322G>A	c.(1321-1323)GGG>GAG	p.G441E	ZNF496_uc009xgv.2_Missense_Mutation_p.G477E|ZNF496_uc001icp.2_Missense_Mutation_p.G441E	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	441	C2H2-type 2.				positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			GAACAGCTCCCCGCACACCGA	0.637													9	31					0	0	0.001855	0	0		T	247464263	T	T	247464263	3	4	12	1	0	0	0	0	1	0	0	0	17970	623	22	4	445	4	ZNF496	1	247464263	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4160938	247464263	1786358	129	9604											
OR2G2	81470	broad.mit.edu	37	chr1	247751877	247751877	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttctcatctctccttcctGtaccgctgcttcaccagcag	5	14	5	17	1	3	0	2	0	2	0	7	0	5	0	4	0	3	4	4	0	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:247751877G>A	uc010pyy.1	+	1	216	c.216G>A	c.(214-216)CTG>CTA	p.L72L		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	72	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TCTCCTTCCTGTACCGCTGCT	0.463													19	89					0	0	0.008871	0	0		A	247751877	A	A	247751877	2	1	12	1	0	0	0	0	0	0	0	1	11017	1364	48	4		4	OR2G2	1	247751877	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	287614	247751877	1498744	130	9605											
OR2G3	81469	broad.mit.edu	37	chr1	247769166	247769166	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaccaaagaagacgatcacTtacggtggttgtgtggcgca	12	8	13	8	3	1	3	1	0	0	3	1	4	1	3	1	3	1	2	1	3	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:247769166T>G	uc010pyz.1	+	1	279	c.279T>G	c.(277-279)ACT>ACG	p.T93T		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	93	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			AGACGATCACTTACGGTGGTT	0.468													44	198					0	0	0.00361	0	0		G	247769166	G	G	247769166	2	3	12	1	0	0	0	0	0	0	0	1	11018	1596	56	5		5	OR2G3	1	247769166	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	17289	247769166	1481455	131	9606											
OR2M5	127059	broad.mit.edu	37	chr1	248308964	248308964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctcctactgtgggtctcGggaaatagcccacttcttct	6	14	8	13	1	4	0	0	0	4	0	6	1	4	1	2	2	2	0	2	2	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr1:248308964G>A	uc010pze.1	+	1	515	c.515G>A	c.(514-516)CGG>CAG	p.R172Q		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	172	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			TGTGGGTCTCGGGAAATAGCC	0.428													46	229					0	0	0.002852	0	0		A	248308964	A	A	248308964	3	1	12	1	0	0	0	0	1	0	0	0	11032	1116	39	1	517	1	OR2M5	1	248308964	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	539798	248308964	941657	132	9607											
TMEM18	129787	broad.mit.edu	37	chr2	675560	675560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtagcttcgggaggacaagCaggtgaggagcacgcagagc	11	5	17	8	2	0	2	0	1	0	1	1	5	0	5	0	4	4	5	0	4	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:675560C>T	uc002qwl.2	-	2	222	c.128G>A	c.(127-129)TGC>TAC	p.C43Y	TMEM18_uc002qwk.2_RNA|uc002qwm.1_5'Flank	NM_152834	NP_690047	Q96B42	TMM18_HUMAN	transmembrane protein 18	43	Helical; (Potential).				cell migration	integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;5.27e-05)|all_epithelial(98;2.11e-06)|Ovarian(717;0.0253)		all cancers(51;1.95e-21)|Epithelial(75;9.47e-21)|OV - Ovarian serous cystadenocarcinoma(76;8.15e-18)|GBM - Glioblastoma multiforme(21;0.0285)		GGAGGACAAGCAGGTGAGGAG	0.542													9	30					0	0	0.006214	0	0		T	675560	T	T	675560	3	4	12	1	0	0	0	0	1	0	0	0	16123	710	25	2	310	2	TMEM18	2	675560	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08		675560	242523813	133	9608											
SOX11	6664	broad.mit.edu	37	chr2	5833022	5833022	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggccgatgaacgcgttcAtggtatggtccaagatcgaa	11	8	13	9	5	1	2	1	1	0	1	3	4	2	2	2	3	2	2	2	3	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:5833022A>G	uc002qyj.2	+	1	224	c.169A>G	c.(169-171)ATG>GTG	p.M57V		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	57	HMG box.				cardiac ventricle formation|closure of optic fissure|cornea development in camera-type eye|embryonic digestive tract morphogenesis|embryonic skeletal system morphogenesis|eyelid development in camera-type eye|glial cell proliferation|hard palate development|lens morphogenesis in camera-type eye|limb bud formation|lung morphogenesis|negative regulation of cell death|negative regulation of glial cell proliferation|negative regulation of lymphocyte proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|neural crest cell development|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|outflow tract morphogenesis|positive regulation of BMP signaling pathway|positive regulation of hippo signaling cascade|positive regulation of hormone secretion|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of ossification|positive regulation of osteoblast differentiation|positive regulation of stem cell proliferation|regulation of transforming growth factor beta receptor signaling pathway|signal transduction involved in G1/S transition checkpoint|soft palate development|somite development|spinal cord development|sympathetic nervous system development|ventricular septum morphogenesis	cytoplasm|nucleolus	enhancer sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			OV - Ovarian serous cystadenocarcinoma(76;0.132)		GAACGCGTTCATGGTATGGTC	0.602													4	10					0	0	0.001984	0	0		G	5833022	G	G	5833022	3	3	12	1	0	0	0	0	1	0	0	0	14967	217	8	3	171	3	SOX11	2	5833022	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	5157462	5833022	237366351	134	9609											
GRHL1	29841	broad.mit.edu	37	chr2	10140759	10140759	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgacaacattgtgaagcattActccaatgaggacaccttcc	13	9	7	12	1	0	2	0	2	0	0	2	4	2	3	3	1	3	1	3	1	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:10140759A>G	uc002raa.2	+	16	1952	c.1781A>G	c.(1780-1782)TAC>TGC	p.Y594C	GRHL1_uc002rab.2_RNA|GRHL1_uc002rad.2_Missense_Mutation_p.Y405C|GRHL1_uc010yjb.1_Missense_Mutation_p.Y443C	NM_198182	NP_937825	Q9NZI5	GRHL1_HUMAN	grainyhead-like 1	594					cellular lipid metabolic process|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding			pancreas(1)|skin(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.246)		GTGAAGCATTACTCCAATGAG	0.512													48	154					0	0	0.00361	0	0		G	10140759	G	G	10140759	3	3	12	1	0	0	0	0	1	0	0	0	6779	391	14	3	1843	3	GRHL1	2	10140759	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	4307737	10140759	233058614	135	9610											
GREB1	9687	broad.mit.edu	37	chr2	11750919	11750919	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcagatgaagaactacacGtcggtggagacgctggagat	12	6	14	9	4	0	5	0	1	0	4	1	7	0	5	1	3	2	2	1	3	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:11750919G>A	uc002rbk.1	+	18	3072	c.2772G>A	c.(2770-2772)ACG>ACA	p.T924T	GREB1_uc002rbo.1_Silent_p.T558T|GREB1_uc002rbp.1_5'Flank	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	924						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		AGAACTACACGTCGGTGGAGA	0.657													10	23					0	0	0.001368	0	0		A	11750919	A	A	11750919	2	1	12	1	0	0	0	0	0	0	0	1	6776	1132	40	1		1	GREB1	2	11750919	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1610160	11750919	231448454	136	9611											
MATN3	4148	broad.mit.edu	37	chr2	20194089	20194089	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagtctttgaagatacgagCtgaccttgtcctggaatgcc	9	12	10	10	1	2	3	1	2	1	1	3	5	3	4	3	1	3	1	3	1	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:20194089C>A	uc002rdl.2	-	7	1439	c.1376G>T	c.(1375-1377)AGC>ATC	p.S459I	MATN3_uc010exu.1_Missense_Mutation_p.S417I	NM_002381	NP_002372	O15232	MATN3_HUMAN	matrilin 3 precursor	459	By similarity.				skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAGATACGAGCTGACCTTGTC	0.463													5	22					0.000602214	0.000631354	0.000602	1	0		A	20194089	A	A	20194089	3	1	12	1	0	0	0	0	1	0	0	0	9353	797	28	5	92	5	MATN3	2	20194089	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	8443170	20194089	223005284	137	9612											
MFSD2B	388931	broad.mit.edu	37	chr2	24247037	24247037	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctcaaagtcctcattggCgccgtgcccacctgcatgat	8	9	8	16	2	2	1	2	1	0	0	3	1	3	1	5	1	2	1	5	1	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:24247037C>T	uc002reo.1	+	13	1400	c.1386C>T	c.(1384-1386)GGC>GGT	p.G462G		NM_001080473	NP_001073942	A6NFX1	MFS2B_HUMAN	major facilitator superfamily domain containing	462	Helical; (Potential).				transport	integral to membrane				ovary(2)	2						TCCTCATTGGCGCCGTGCCCA	0.607													7	4					0	0	0.001984	0	0		T	24247037	T	T	24247037	2	4	12	1	0	0	0	0	0	0	0	1	9549	755	27	1		1	MFSD2B	2	24247037	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4052948	24247037	218952336	138	9613											
ITSN2	50618	broad.mit.edu	37	chr2	24483988	24483988	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacatacctgtccatgaataGgtgatacagatccaggggac	14	8	10	9	0	0	3	0	2	0	1	2	4	2	4	3	3	3	0	3	3	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:24483988G>T	uc002rfe.2	-	22	2927	c.2669C>A	c.(2668-2670)CCT>CAT	p.P890H	ITSN2_uc002rff.2_Missense_Mutation_p.P863H|ITSN2_uc002rfg.2_Missense_Mutation_p.P890H	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	890					endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCATGAATAGGTGATACAGA	0.338													12	33					1.5842e-08	1.74531e-08	0.001855	1	0		T	24483988	T	T	24483988	3	4	12	1	0	0	0	0	1	0	0	0	7943	1000	35	5	2551	5	ITSN2	2	24483988	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	236951	24483988	218715385	139	9614											
OTOF	9381	broad.mit.edu	37	chr2	26683555	26683555	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggttcattgcgggccaggcCcactgggttcttctctgcct	4	12	12	13	1	3	0	1	0	2	0	4	0	3	0	3	4	2	2	3	4	0	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:26683555C>A	uc002rhk.2	-	45	5900	c.5773G>T	c.(5773-5775)GGC>TGC	p.G1925C	OTOF_uc010yla.1_Missense_Mutation_p.G655C|OTOF_uc002rhh.2_Missense_Mutation_p.G1158C|OTOF_uc002rhi.2_Missense_Mutation_p.G1235C|OTOF_uc002rhj.2_Missense_Mutation_p.G1158C	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1925	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGGGCCAGGCCCACTGGGTTC	0.637													12	12					2.27111e-07	2.48005e-07	0.001368	1	0		A	26683555	A	A	26683555	3	1	12	1	0	0	0	0	1	0	0	0	11322	623	22	5	413	5	OTOF	2	26683555	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2199567	26683555	216515818	140	9615											
GTF3C2	2976	broad.mit.edu	37	chr2	27556591	27556591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggctaaggcactgacCacactcagaggggtctgtag	10	6	14	11	0	2	2	1	1	1	1	2	2	2	2	2	5	0	3	2	5	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:27556591C>T	uc002rjv.1	-	13	2026	c.1663G>A	c.(1663-1665)GGT>AGT	p.G555S	GTF3C2_uc010eyy.1_Missense_Mutation_p.G10S|GTF3C2_uc002rju.1_Missense_Mutation_p.G566S|GTF3C2_uc002rjw.1_Missense_Mutation_p.G555S|GTF3C2_uc010eyz.1_Missense_Mutation_p.G555S|uc002rjy.1_5'Flank	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	555	WD 2.					transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGGCACTGACCACACTCAGAG	0.498													4	75					0	0	0.009096	0	0		T	27556591	T	T	27556591	3	4	12	1	0	0	0	0	1	0	0	0	6889	594	21	4	1104	4	GTF3C2	2	27556591	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	873036	27556591	215642782	141	9616											
IFT172	26160	broad.mit.edu	37	chr2	27683894	27683894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctagtacctttcatgaatgCgttgcctttacggtagcact	8	14	9	10	2	1	1	1	1	0	0	1	1	1	1	2	1	5	5	2	1	5	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:27683894C>T	uc002rku.2	-	23	2560	c.2509G>A	c.(2509-2511)GCA>ACA	p.A837T		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	837	TPR 3.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					TTCATGAATGCGTTGCCTTTA	0.428													20	45					0	0	0.005443	0	0		T	27683894	T	T	27683894	3	4	12	1	0	0	0	0	1	0	0	0	7573	768	27	1	2844	1	IFT172	2	27683894	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	127303	27683894	215515479	142	9617											
XDH	7498	broad.mit.edu	37	chr2	31560626	31560626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcgagctgcacggatggCatctttgatggcaaagaaga	12	8	13	8	2	1	3	0	1	1	2	2	5	1	4	0	3	3	5	0	3	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:31560626C>T	uc002rnv.1	-	35	3911	c.3832G>A	c.(3832-3834)GCC>ACC	p.A1278T		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	1278					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	GCACGGATGGCATCTTTGATG	0.587													12	25					0	0	0.001368	0	0		T	31560626	T	T	31560626	3	4	12	1	0	0	0	0	1	0	0	0	17452	710	25	2	177	2	XDH	2	31560626	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3876732	31560626	211638747	143	9618											
LTBP1	4052	broad.mit.edu	37	chr2	33623607	33623607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tagagaaagacagtgacctgGagtgaaacagaatctacata	18	7	10	6	0	1	5	0	2	1	3	1	7	1	6	1	1	2	0	1	1	6	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:33623607G>A	uc002ros.2	+	34	5164	c.5164G>A	c.(5164-5166)GAG>AAG	p.E1722K	LTBP1_uc002rot.2_Missense_Mutation_p.E1396K|LTBP1_uc002rou.2_Missense_Mutation_p.E1395K|LTBP1_uc002rov.2_Missense_Mutation_p.E1342K|LTBP1_uc010ymz.1_Missense_Mutation_p.E1353K|LTBP1_uc010yna.1_Missense_Mutation_p.E1300K|LTBP1_uc010ynb.1_Missense_Mutation_p.E619K	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1721					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CAGTGACCTGGAGTGAAACAG	0.443													36	22					0	0	0.004878	0	0		A	33623607	A	A	33623607	3	1	12	1	0	0	0	0	1	0	0	0	9091	1175	41	4	5350	4	LTBP1	2	33623607	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2062981	33623607	209575766	144	9619											
CRIM1	51232	broad.mit.edu	37	chr2	36740836	36740836	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggacgggaaatgtgtgccCtgatcacctgcccggtgcct	7	9	13	12	2	1	1	1	1	0	0	1	3	1	3	4	3	3	0	4	3	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:36740836C>T	uc002rpd.2	+	11	1957	c.1918C>T	c.(1918-1920)CTG>TTG	p.L640L		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	640	VWFC 3.|Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				AATGTGTGCCCTGATCACCTG	0.532													9	24					0	0	0.006214	0	0		T	36740836	T	T	36740836	2	4	12	1	0	0	0	0	0	0	0	1	3876	680	24	4		4	CRIM1	2	36740836	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3117229	36740836	206458537	145	9620											
SIX3	6496	broad.mit.edu	37	chr2	45169338	45169338	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatacttctggcgagtaGcggcggcgggaacggtgcgg	6	7	17	11	6	1	0	0	0	1	0	2	2	2	1	1	6	4	1	1	6	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:45169338G>A	uc002run.1	+	1	302	c.95G>A	c.(94-96)AGC>AAC	p.S32N		NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3	32					visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CTGGCGAGTAgcggcggcggg	0.269													10	20					0	0	0.006214	0	0		A	45169338	A	A	45169338	3	1	12	1	0	0	0	0	1	0	0	0	14373	971	34	2	97	2	SIX3	2	45169338	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	8428502	45169338	198030035	146	9621											
MSH2	4436	broad.mit.edu	37	chr2	47705414	47705414	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaattatgtgcttcaggtcTgcaaccaaagattcattaat	13	14	7	7	0	3	1	2	0	1	1	3	1	3	1	1	1	3	3	1	1	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:47705414T>C	uc002rvy.1	+	14	2282	c.2214T>C	c.(2212-2214)TCT>TCC	p.S738S	MSH2_uc010yoh.1_Silent_p.S672S|MSH2_uc002rvz.2_Silent_p.S738S|MSH2_uc010fbg.2_Silent_p.S548S	NM_000251	NP_000242	P43246	MSH2_HUMAN	mutS homolog 2	738					B cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|double-strand break repair|intra-S DNA damage checkpoint|isotype switching|maintenance of DNA repeat elements|male gonad development|meiotic gene conversion|meiotic mismatch repair|negative regulation of neuron apoptosis|negative regulation of reciprocal meiotic recombination|positive regulation of helicase activity|postreplication repair|response to UV-B|response to X-ray|somatic hypermutation of immunoglobulin genes	MutSalpha complex|MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|guanine/thymine mispair binding|loop DNA binding|protein C-terminus binding|protein homodimerization activity|protein kinase binding|Y-form DNA binding	p.?(2)		large_intestine(33)|haematopoietic_and_lymphoid_tissue(6)|endometrium(4)|ovary(3)|cervix(2)|central_nervous_system(2)|stomach(1)|small_intestine(1)|breast(1)|skin(1)|prostate(1)	55		all_hematologic(82;0.0359)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GCTTCAGGTCTGCAACCAAAG	0.343			D|Mis|N|F|S		colorectal|endometrial|ovarian	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				17	56					0	0	0.006122	0	0		C	47705414	C	C	47705414	2	2	12	1	0	0	0	0	0	0	0	1	9888	1567	55	3		3	MSH2	2	47705414	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	2536076	47705414	195493959	147	9622											
RTN4	57142	broad.mit.edu	37	chr2	55252334	55252334	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaagaactttgggtttaacTatgctctctatctctgcttg	9	16	7	9	0	2	1	0	0	2	1	4	1	2	1	0	1	4	3	0	1	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:55252334T>C	uc002rye.2	-	3	3199	c.2901A>G	c.(2899-2901)ATA>ATG	p.I967M	RTN4_uc002ryd.2_Missense_Mutation_p.I761M|RTN4_uc002ryf.2_Intron|RTN4_uc002ryg.2_Intron	NM_020532	NP_065393	Q9NQC3	RTN4_HUMAN	reticulon 4 isoform A	967	Cytoplasmic (Potential).				apoptosis|axonal fasciculation|cerebral cortex radial glia guided migration|endoplasmic reticulum tubular network organization|negative regulation of anti-apoptosis|negative regulation of axon extension|nerve growth factor receptor signaling pathway|regulation of apoptosis|regulation of branching morphogenesis of a nerve|regulation of cell migration	integral to endoplasmic reticulum membrane|nuclear envelope|plasma membrane	protein binding			ovary(2)|large_intestine(1)	3						TGGGTTTAACTATGCTCTCTA	0.408													18	53					0	0	0.001882	0	0		C	55252334	C	C	55252334	3	2	12	1	0	0	0	0	1	0	0	0	13753	1512	53	3	743	3	RTN4	2	55252334	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	7546920	55252334	187947039	148	9623											
PELI1	57162	broad.mit.edu	37	chr2	64322041	64322041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcgtccacataaaatccaGcttcacatccaagccacaga	14	6	6	15	2	1	1	1	0	0	1	4	1	4	1	4	1	2	1	4	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:64322041G>A	uc002scs.3	-	6	5091	c.1052C>T	c.(1051-1053)GCT>GTT	p.A351V	PELI1_uc002sct.3_Missense_Mutation_p.A351V|PELI1_uc002scr.3_Missense_Mutation_p.A172V	NM_020651	NP_065702	Q96FA3	PELI1_HUMAN	pellino protein	351					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol				ovary(1)	1						ATAAAATCCAGCTTCACATCC	0.493													21	77					0	0	0.010504	0	0		A	64322041	A	A	64322041	3	1	12	1	0	0	0	0	1	0	0	0	11740	971	34	2	208	2	PELI1	2	64322041	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	9069707	64322041	178877332	149	9624											
CEP68	23177	broad.mit.edu	37	chr2	65296924	65296924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggagaccttctgctctccGgggaaagccaggtaggtact	8	9	13	11	1	2	1	0	0	2	1	3	3	2	2	3	5	3	3	3	5	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:65296924G>A	uc002sdl.3	+	2	560	c.346G>A	c.(346-348)GGG>AGG	p.G116R	CEP68_uc002sdj.2_Missense_Mutation_p.G116R|CEP68_uc010yqb.1_Missense_Mutation_p.G116R|CEP68_uc002sdk.3_Missense_Mutation_p.G116R|CEP68_uc010yqc.1_Missense_Mutation_p.G116R|CEP68_uc010yqd.1_Missense_Mutation_p.G116R	NM_015147	NP_055962	Q76N32	CEP68_HUMAN	centrosomal protein 68kDa	116					centrosome organization	centrosome				skin(1)	1						TCTGCTCTCCGGGGAAAGCCA	0.557													14	36					0	0	0.006122	0	0		A	65296924	A	A	65296924	3	1	12	1	0	0	0	0	1	0	0	0	3261	1116	39	1	348	1	CEP68	2	65296924	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	974883	65296924	177902449	150	9625											
PCBP1	5093	broad.mit.edu	37	chr2	70315822	70315822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggggcccagatcaaaattgCcaacccagtggaaggctcct	11	6	11	13	1	1	1	1	0	0	1	2	2	2	2	4	4	2	1	4	4	4	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:70315822C>T	uc002sgf.2	+	1	1238	c.947C>T	c.(946-948)GCC>GTC	p.A316V	ASPRV1_uc002sga.2_5'Flank|uc002sgb.1_5'Flank|uc002sgd.2_5'Flank|uc002sge.1_5'Flank	NM_006196	NP_006187	Q15365	PCBP1_HUMAN	poly(rC) binding protein 1	316	KH 3.				nuclear mRNA splicing, via spliceosome	cytoplasm|nucleoplasm|ribonucleoprotein complex	protein binding|RNA binding|single-stranded DNA binding				0						ATCAAAATTGCCAACCCAGTG	0.507													14	30					0	0	0.004007	0	0		T	70315822	T	T	70315822	3	4	12	1	0	0	0	0	1	0	0	0	11519	739	26	2	949	2	PCBP1	2	70315822	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	5018898	70315822	172883551	151	9626											
ATP6V1B1	525	broad.mit.edu	37	chr2	71189997	71189997	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtgctggtcatactgacGgacatgagttcctatgcaga	10	11	11	9	1	1	3	1	2	0	1	2	4	2	4	1	2	3	3	1	2	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:71189997G>A	uc002shj.2	+	9	963	c.876G>A	c.(874-876)ACG>ACA	p.T292T	ATP6V1B1_uc010fdv.2_Silent_p.T292T|ATP6V1B1_uc010fdw.2_RNA|ATP6V1B1_uc010fdx.2_Silent_p.T250T	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	292					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						TCATACTGACGGACATGAGTT	0.587													11	35					0	0	0.000978	0	0		A	71189997	A	A	71189997	2	1	12	1	0	0	0	0	0	0	0	1	1179	1103	39	1		1	ATP6V1B1	2	71189997	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	874175	71189997	172009376	152	9627											
ZNF638	27332	broad.mit.edu	37	chr2	71629145	71629147	+	In_Frame_Del	DEL	AGA	-	-																															cctaataaaggatattctgtAgaagaagtttatgacttagc																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:71629145_71629147delAGA	uc002shx.2	+	16	3076_3078	c.2757_2759delAGA	c.(2755-2760)GTAGAA>GTA	p.E921del	ZNF638_uc010yqw.1_In_Frame_Del_p.E500del|ZNF638_uc002shy.2_In_Frame_Del_p.E921del|ZNF638_uc002shz.2_In_Frame_Del_p.E921del|ZNF638_uc002sia.2_In_Frame_Del_p.E921del|ZNF638_uc002sib.1_In_Frame_Del_p.E921del|ZNF638_uc010fed.2_RNA|ZNF638_uc002sic.2_In_Frame_Del_p.E18del	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	921	RRM 2.				RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						GATATTCTGTAGAAGAAGTTTAT	0.286													30	19	---	---	---	---						.	-	71629147	-	-	71629145	7	5	12	1	0	1	0	1	0	0	0	0	18080	407	15	0	2815	0	ZNF638	2	71629145	In_Frame_Del	DEL	AGA	TCGA-BR-4257-01A-01D-1126-08	439148	71629145	171570228	153	9628											
EMX1	2016	broad.mit.edu	37	chr2	73160979	73160979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaagctggaggaggaagggCctgagtccgagcagaagaag	14	3	18	6	1	0	4	0	1	0	3	1	8	1	7	2	4	2	2	2	4	4	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:73160979C>T	uc002sin.1	+	3	1147	c.769C>T	c.(769-771)CCT>TCT	p.P257S	EMX1_uc002sim.1_Missense_Mutation_p.A209V	NM_004097	NP_004088	Q04741	EMX1_HUMAN	empty spiracles homolog 1	224						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGAGGAAGGGCCTGAGTCCGA	0.577													3	27					0	0	0.000602	0	0		T	73160979	T	T	73160979	3	4	12	1	0	0	0	0	1	0	0	0	5115	739	26	2	779	2	EMX1	2	73160979	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1531834	73160979	170038394	154	9629											
CAPG	822	broad.mit.edu	37	chr2	85628347	85628347	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtcccagttcagtgcccGctcggtggcacggatgttct	4	11	13	13	3	2	0	1	0	1	0	4	1	3	1	2	3	1	5	2	3	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:85628347G>A	uc002spl.1	-	5	707	c.457C>T	c.(457-459)CGG>TGG	p.R153W	CAPG_uc002spm.1_Missense_Mutation_p.R153W|CAPG_uc010ysq.1_Missense_Mutation_p.R153W|CAPG_uc010fgi.1_Missense_Mutation_p.R153W|CAPG_uc010fgj.1_Missense_Mutation_p.R47W	NM_001747	NP_001738	P40121	CAPG_HUMAN	gelsolin-like capping protein	153	Gelsolin-like 2.				barbed-end actin filament capping|protein complex assembly	F-actin capping protein complex|melanosome|nuclear membrane|nucleolus	actin binding				0						TTCAGTGCCCGCTCGGTGGCA	0.582													15	69					0	0	0.004007	0	0		A	85628347	A	A	85628347	3	1	12	1	0	0	0	0	1	0	0	0	2624	1086	38	1	613	1	CAPG	2	85628347	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	12467368	85628347	157571026	155	9630											
RNF103	7844	broad.mit.edu	37	chr2	86831891	86831891	+	Frame_Shift_Del	DEL	A	-	-																															tatctaagtaaggtagctgtAaaaagcccaacacaggtagc																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:86831891delA	uc002srn.2	-	4	2102	c.1133delT	c.(1132-1134)TTAfs	p.L378fs	VPS24_uc010ytl.1_Intron|RNF103_uc002srm.2_Frame_Shift_Del_p.L239fs|uc002sro.2_Intron	NM_005667	NP_005658	O00237	RN103_HUMAN	ring finger protein 103	378	Helical; (Potential).				central nervous system development|ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(1)	1						AGGTAGCTGTAAAAAGCCCAA	0.378													40	62	---	---	---	---						.	-	86831891	-	-	86831891	7	5	12	1	0	1	0	1	0	0	0	0	13448	372	13	0	928	0	RNF103	2	86831891	Frame_Shift_Del	DEL	A	TCGA-BR-4257-01A-01D-1126-08	1203544	86831891	156367482	156	9631											
EIF2AK3	9451	broad.mit.edu	37	chr2	88890059	88890059	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtataacttgtatcatcaAaaagactgatgggaatgact	16	12	8	5	0	2	3	2	2	0	1	2	4	2	4	0	1	1	2	0	1	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:88890059A>T	uc002stc.3	-	6	1269	c.1067T>A	c.(1066-1068)TTT>TAT	p.F356Y		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	356	Lumenal (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						TGTATCATCAAAAAGACTGAT	0.353													13	20					0	0	0.001855	0	0		T	88890059	T	T	88890059	3	4	12	1	0	0	0	0	1	0	0	0	5004	14	1	5	2331	5	EIF2AK3	2	88890059	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2058168	88890059	154309314	157	9632											
ASTL	431705	broad.mit.edu	37	chr2	96789597	96789597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagccacaggcttaatcttCggacatccccttgaaatgat	12	10	8	11	1	1	2	0	2	1	0	3	4	2	3	3	2	1	1	3	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:96789597C>T	uc010yui.1	-	9	1288	c.1288G>A	c.(1288-1290)GAA>AAA	p.E430K		NM_001002036	NP_001002036	Q6HA08	ASTL_HUMAN	astacin-like metalloendopeptidase precursor	430					proteolysis		metalloendopeptidase activity|zinc ion binding				0						GCTTAATCTTCGGACATCCCC	0.572													20	17					0	0	0.00278	0	0		T	96789597	T	T	96789597	3	4	12	1	0	0	0	0	1	0	0	0	1064	893	31	1	10	1	ASTL	2	96789597	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	7899538	96789597	146409776	158	9633											
SNRNP200	23020	broad.mit.edu	37	chr2	96945296	96945296	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagatggggtaatccacatAgctggtgacagaagcaggga	14	7	14	6	0	0	3	0	1	0	2	1	4	1	4	1	4	2	3	1	4	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:96945296A>G	uc002svu.2	-	36	5112	c.5026T>C	c.(5026-5028)TAT>CAT	p.Y1676H	SNRNP200_uc002svt.2_Missense_Mutation_p.Y286H|SNRNP200_uc010yuj.1_RNA	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1676	Helicase C-terminal 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						TAATCCACATAGCTGGTGACA	0.532													3	20					0	0	0.004672	0	0		G	96945296	G	G	96945296	3	3	12	1	0	0	0	0	1	0	0	0	14877	434	15	3	1424	3	SNRNP200	2	96945296	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	155699	96945296	146254077	159	9634											
ANKRD39	51239	broad.mit.edu	37	chr2	97514112	97514112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagccgtgcctttcggtcccGgatggccttcagggctgggc	3	10	15	13	3	1	0	1	0	0	0	3	1	2	1	4	5	2	1	4	5	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:97514112G>A	uc002sxd.3	-	4	510	c.478C>T	c.(478-480)CGG>TGG	p.R160W		NM_016466	NP_057550	Q53RE8	ANR39_HUMAN	ankyrin repeat domain 39	160											0						TTTCGGTCCCGGATGGCCTTC	0.617													4	21					0	0	0.009096	0	0		A	97514112	A	A	97514112	3	1	12	1	0	0	0	0	1	0	0	0	668	1115	39	1	77	1	ANKRD39	2	97514112	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	568816	97514112	145685261	160	9635											
ANKRD36	375248	broad.mit.edu	37	chr2	97858783	97858783	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaaggatggagaaaaatcTaggacaggtaattttgaaaa	20	8	10	3	0	1	2	0	1	1	1	1	5	1	4	0	4	1	1	0	4	8	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:97858783T>C	uc010yva.1	+	38	2686	c.2442T>C	c.(2440-2442)TCT>TCC	p.S814S	ANKRD36_uc002sxo.2_Intron|ANKRD36_uc002sxp.3_RNA|ANKRD36_uc002sxq.1_Intron	NM_001164315	NP_001157787	A6QL64	AN36A_HUMAN	ankyrin repeat domain 36	814											0						GAGAAAAATCTAGGACAGGTA	0.289													5	3					0	0	0.001168	0	0		C	97858783	C	C	97858783	2	2	12	1	0	0	0	0	0	0	0	1	665	1509	53	3		3	ANKRD36	2	97858783	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	344671	97858783	145340590	161	9636											
TSGA10	80705	broad.mit.edu	37	chr2	99688288	99688288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtctcatccaattgccgacGcattctggaaacgtcttgtt	8	14	8	11	3	3	0	1	0	3	0	5	2	4	1	2	1	2	2	2	1	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:99688288G>A	uc002szg.3	-	12	1616	c.988C>T	c.(988-990)CGT>TGT	p.R330C	TSGA10_uc002szh.3_Missense_Mutation_p.R330C|TSGA10_uc002szi.3_Missense_Mutation_p.R330C|TSGA10_uc010fin.1_Missense_Mutation_p.R330C|TSGA10_uc010yvn.1_3'UTR	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	330					spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						AATTGCCGACGCATTCTGGAA	0.428													56	29					0	0	0.00361	0	0		A	99688288	A	A	99688288	3	1	12	1	0	0	0	0	1	0	0	0	16643	1087	38	1	1140	1	TSGA10	2	99688288	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1829505	99688288	143511085	162	9637											
GCC2	9648	broad.mit.edu	37	chr2	109089309	109089309	+	Frame_Shift_Del	DEL	A	-	-																															ttagcaaaatcaccttctgtAaaaaatgatcctctgtcttc																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:109089309delA	uc002tec.2	+	7	2968	c.2814delA	c.(2812-2814)GTAfs	p.V938fs	GCC2_uc002ted.2_Frame_Shift_Del_p.V837fs	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	938	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						CACCTTCTGTAAAAAATGATC	0.308													12	26	---	---	---	---						.	-	109089309	-	-	109089309	7	5	12	1	0	1	0	1	0	0	0	0	6301	349	13	0	2840	0	GCC2	2	109089309	Frame_Shift_Del	DEL	A	TCGA-BR-4257-01A-01D-1126-08	9401021	109089309	134110064	163	9638											
LIMS1	3987	broad.mit.edu	37	chr2	109300406	109300406	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgagaaatttccattggAgctgaagaaaagacttaaga	17	10	9	5	0	0	5	0	2	0	4	1	7	1	6	1	1	1	1	1	1	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:109300406A>C	uc002teg.2	+	10	1048	c.929A>C	c.(928-930)GAG>GCG	p.E310A	LIMS1_uc002tef.2_Missense_Mutation_p.E322A|LIMS1_uc002teh.2_Missense_Mutation_p.E310A|LIMS1_uc002tei.2_Missense_Mutation_p.E310A|LIMS1_uc002tej.2_Missense_Mutation_p.E347A|LIMS1_uc002tek.3_Missense_Mutation_p.E372A|uc002tel.2_5'Flank	NM_004987	NP_004978	P48059	LIMS1_HUMAN	LIM and senescent cell antigen-like domains 1	310					cell aging|cell junction assembly|cellular response to transforming growth factor beta stimulus|negative regulation of transcription, DNA-dependent	cytosol|focal adhesion|perinuclear region of cytoplasm	protein binding|zinc ion binding				0						TTTCCATTGGAGCTGAAGAAA	0.313													4	31					0	0	0.000602	0	0		C	109300406	C	C	109300406	3	2	12	1	0	0	0	0	1	0	0	0	8819	304	11	5	963	5	LIMS1	2	109300406	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	211097	109300406	133898967	164	9639											
ANAPC1	64682	broad.mit.edu	37	chr2	112541976	112541976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttgttcataccactgagtgCcctttacaaatgtaaaagtc	12	14	6	9	0	1	1	1	1	0	0	2	1	1	1	2	0	3	2	2	0	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:112541976C>T	uc002thi.2	-	41	5166	c.4919G>A	c.(4918-4920)GGC>GAC	p.G1640D		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	1640					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						CCACTGAGTGCCCTTTACAAA	0.458													5	26					0	0	0.000602	0	0		T	112541976	T	T	112541976	3	4	12	1	0	0	0	0	1	0	0	0	598	753	26	2	947	2	ANAPC1	2	112541976	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3241570	112541976	130657397	165	9640											
PTPN4	5775	broad.mit.edu	37	chr2	120677688	120677688	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggatttaatatggtgaattAcagagcatgtaaaaatttgt	15	14	10	2	0	0	2	0	1	0	1	0	3	0	3	0	2	2	2	0	2	7	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:120677688A>G	uc002tmf.1	+	12	1643	c.872A>G	c.(871-873)TAC>TGC	p.Y291C	PTPN4_uc010flj.1_Missense_Mutation_p.Y4C	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	291	FERM.					cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	ATGGTGAATTACAGAGCATGT	0.348													23	36					0	0	0.00278	0	0		G	120677688	G	G	120677688	3	3	12	1	0	0	0	0	1	0	0	0	12815	391	14	3	914	3	PTPN4	2	120677688	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	8135712	120677688	122521685	166	9641											
PTPN18	26469	broad.mit.edu	37	chr2	131116512	131116512	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccggcagtcggccagagAacgtgaggaagaaccgctac	11	4	15	11	4	0	3	0	1	0	2	1	5	0	4	3	4	3	2	3	4	4	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:131116512A>G	uc002trc.2	+	2	267	c.166A>G	c.(166-168)AAC>GAC	p.N56D	PTPN18_uc002trd.2_Missense_Mutation_p.N56D|PTPN18_uc002trb.2_Intron	NM_014369	NP_055184	Q99952	PTN18_HUMAN	protein tyrosine phosphatase, non-receptor type	56	Tyrosine-protein phosphatase.					cytoplasm|nucleus	non-membrane spanning protein tyrosine phosphatase activity			ovary(3)|kidney(1)	4	Colorectal(110;0.1)					TCGGCCAGAGAACGTGAGGAA	0.642													12	29					0	0	0.001368	0	0		G	131116512	G	G	131116512	3	3	12	1	0	0	0	0	1	0	0	0	12807	246	9	3	172	3	PTPN18	2	131116512	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	10438824	131116512	112082861	167	9642											
GPR39	2863	broad.mit.edu	37	chr2	133402818	133402818	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctcggagacgtttttctAcctcagctcggtcatcaacc	7	13	7	14	3	5	1	3	0	2	1	7	2	5	1	2	2	3	2	2	2	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:133402818A>G	uc002ttl.2	+	2	1470	c.1001A>G	c.(1000-1002)TAC>TGC	p.Y334C	LYPD1_uc002ttm.3_3'UTR|LYPD1_uc002ttn.2_3'UTR|LYPD1_uc002tto.2_3'UTR	NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	334	Helical; Name=7; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						ACGTTTTTCTACCTCAGCTCG	0.607													35	15					0	0	0.009718	0	0		G	133402818	G	G	133402818	3	3	12	1	0	0	0	0	1	0	0	0	6708	391	14	3	1007	3	GPR39	2	133402818	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2286306	133402818	109796555	168	9643											
THSD7B	80731	broad.mit.edu	37	chr2	137814479	137814479	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcgcggtcatagctccccCtctctttggtggtttgcaat	4	14	10	13	3	2	0	1	0	1	0	5	0	3	0	2	3	2	3	2	3	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:137814479C>A	uc002tva.1	+	2	536	c.536C>A	c.(535-537)CCT>CAT	p.P179H	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Missense_Mutation_p.P69H	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		ATAGCTCCCCCTCTCTTTGGT	0.488													38	135					6.1244e-12	6.89753e-12	0.007835	1	0		A	137814479	A	A	137814479	3	1	12	1	0	0	0	0	1	0	0	0	15905	681	24	5	542	5	THSD7B	2	137814479	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4411661	137814479	105384894	169	9644											
LRP1B	53353	broad.mit.edu	37	chr2	141816614	141816614	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacacagttataccataaaGatgtctaacctataaagagg	19	9	6	7	0	1	2	0	0	1	2	1	2	1	2	2	1	3	1	2	1	9	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:141816614G>T	uc002tvj.1	-	9	2218	c.1246C>A	c.(1246-1248)CTT>ATT	p.L416I	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	416	Extracellular (Potential).|LDL-receptor class B 4.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATACCATAAAGATGTCTAACC	0.299										TSP Lung(27;0.18)			29	23					1.61788e-16	1.8558e-16	0.002445	1	0		T	141816614	T	T	141816614	3	4	12	1	0	0	0	0	1	0	0	0	8973	942	33	5	12885	5	LRP1B	2	141816614	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4002135	141816614	101382759	170	9645											
FMNL2	114793	broad.mit.edu	37	chr2	153399319	153399319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaaggctatctggatccaGctgtaaccaggaaggtaaga	14	8	11	8	0	2	1	1	0	1	1	3	3	3	3	2	4	2	4	2	4	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:153399319G>A	uc002tye.2	+	3	635	c.268G>A	c.(268-270)GCT>ACT	p.A90T		NM_052905	NP_443137	Q96PY5	FMNL2_HUMAN	formin-like 2	90	GBD/FH3.				actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|ovary(1)	3						TCTGGATCCAGCTGTAACCAG	0.443													11	37					0	0	0.00245	0	0		A	153399319	A	A	153399319	3	1	12	1	0	0	0	0	1	0	0	0	5966	971	34	2	278	2	FMNL2	2	153399319	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	11582705	153399319	89800054	171	9646											
TANC1	85461	broad.mit.edu	37	chr2	160027037	160027037	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttcttcttttgaagcaCgatttgctccctacaagcca	8	17	5	11	1	2	1	0	1	2	0	3	2	3	1	2	0	4	2	2	0	3	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:160027037C>T	uc002uag.2	+	10	1346	c.1072C>T	c.(1072-1074)CGA>TGA	p.R358*	TANC1_uc010fol.1_Nonsense_Mutation_p.R252*|TANC1_uc010zcm.1_Nonsense_Mutation_p.R350*|TANC1_uc010fom.1_Nonsense_Mutation_p.R164*	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	358						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						TTTTGAAGCACGATTTGCTCC	0.333													29	20					0	0	0.00632	0	0		T	160027037	T	T	160027037	4	4	12	1	0	0	0	0	0	1	0	0	15569	528	19	1	1102	1	TANC1	2	160027037	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	6627718	160027037	83172336	172	9647											
CSRNP3	80034	broad.mit.edu	37	chr2	166535659	166535659	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaggaggaggaggatgAcgatgatgacaaaggagatg	16	4	19	2	1	0	5	0	3	0	2	0	12	0	10	0	6	0	0	0	6	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:166535659A>G	uc002udf.2	+	7	1530	c.1154A>G	c.(1153-1155)GAC>GGC	p.D385G	CSRNP3_uc002udg.2_Missense_Mutation_p.D385G	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	385					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						gaggaggaTGACGATGATGAC	0.403													9	37					0	0	0.006214	0	0		G	166535659	G	G	166535659	3	3	12	1	0	0	0	0	1	0	0	0	3968	275	10	3	1168	3	CSRNP3	2	166535659	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	6508622	166535659	76663714	173	9648											
XIRP2	129446	broad.mit.edu	37	chr2	168102239	168102239	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtgtcaatgaaatacaaaAgggcaatgttaaaacatcta	20	9	7	5	0	2	1	1	1	1	0	2	1	2	1	0	1	2	2	0	1	10	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:168102239A>C	uc002udx.2	+	8	4355	c.4337A>C	c.(4336-4338)AAG>ACG	p.K1446T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.K1271T|XIRP2_uc010fpq.2_Missense_Mutation_p.K1224T|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1271					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GAAATACAAAAGGGCAATGTT	0.338													9	30					0	0	0.006214	0	0		C	168102239	C	C	168102239	3	2	12	1	0	0	0	0	1	0	0	0	17456	72	3	5	4367	5	XIRP2	2	168102239	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1566580	168102239	75097134	174	9649											
XIRP2	129446	broad.mit.edu	37	chr2	168102522	168102522	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcatgaatttaatgaaacTagagtagaaaagatagaaat	20	11	7	3	0	1	6	1	2	0	4	1	6	1	6	0	0	1	1	0	0	9	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:168102522T>C	uc002udx.2	+	8	4638	c.4620T>C	c.(4618-4620)ACT>ACC	p.T1540T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.T1365T|XIRP2_uc010fpq.2_Silent_p.T1318T|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1365					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TTAATGAAACTAGAGTAGAAA	0.358													37	27					0	0	0.006999	0	0		C	168102522	C	C	168102522	2	2	12	1	0	0	0	0	0	0	0	1	17456	1509	53	3		3	XIRP2	2	168102522	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	283	168102522	75096851	175	9650											
MYO3B	140469	broad.mit.edu	37	chr2	171376034	171376034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaagcaactctcctgctGtcacagagaaaaatgggtga	13	9	9	10	0	3	2	2	1	1	1	4	3	3	2	1	1	3	2	1	1	4	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:171376034G>A	uc002ufy.2	+	30	3702	c.3559G>A	c.(3559-3561)GTC>ATC	p.V1187I	MYO3B_uc002ufv.2_Missense_Mutation_p.V1174I|MYO3B_uc010fqb.1_Missense_Mutation_p.V1174I|MYO3B_uc002ufz.2_Missense_Mutation_p.V1160I|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	1187					response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						CTCTCCTGCTGTCACAGAGAA	0.433													5	36					0	0	0.000602	0	0		A	171376034	A	A	171376034	3	1	12	1	0	0	0	0	1	0	0	0	10095	1377	48	4	3677	4	MYO3B	2	171376034	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3273512	171376034	71823339	176	9651											
RAPGEF4	11069	broad.mit.edu	37	chr2	173852994	173852994	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagtgaatgtagtcatttaCggcaaggtatatatatcttt	12	16	8	5	1	3	1	2	1	1	0	3	1	3	1	0	2	1	3	0	2	8	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:173852994C>T	uc002uhv.3	+	13	1408	c.1221C>T	c.(1219-1221)TAC>TAT	p.Y407Y	RAPGEF4_uc002uhw.3_Silent_p.Y263Y|RAPGEF4_uc010zec.1_Silent_p.Y254Y|RAPGEF4_uc010zed.1_Silent_p.Y236Y|RAPGEF4_uc010zee.1_Silent_p.Y254Y|RAPGEF4_uc010fqo.2_Silent_p.Y236Y|RAPGEF4_uc010zef.1_Silent_p.Y187Y|RAPGEF4_uc010zeg.1_Silent_p.Y234Y|RAPGEF4_uc010fqp.1_Silent_p.Y187Y|RAPGEF4_uc010zeh.1_Silent_p.Y187Y	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	407	cAMP 2.				blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			TAGTCATTTACGGCAAGGTAT	0.348													33	16					0	0	0.004289	0	0		T	173852994	T	T	173852994	2	4	12	1	0	0	0	0	0	0	0	1	13071	547	19	1		1	RAPGEF4	2	173852994	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2476960	173852994	69346379	177	9652											
CDCA7	83879	broad.mit.edu	37	chr2	174228609	174228609	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccgtggaagacatcccctcCcaggctccgactcagtaagt	9	8	9	15	2	1	1	1	0	0	1	5	3	5	2	5	2	0	2	5	2	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:174228609C>A	uc002uid.1	+	4	579	c.448C>A	c.(448-450)CCA>ACA	p.P150T	CDCA7_uc002uic.1_Missense_Mutation_p.P229T|CDCA7_uc010zej.1_Missense_Mutation_p.P185T|CDCA7_uc010zek.1_Missense_Mutation_p.P108T	NM_145810	NP_665809	Q9BWT1	CDCA7_HUMAN	cell division cycle associated 7 isoform 2	150					regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.116)			ACATCCCCTCCCAGGCTCCGA	0.403													58	56					8.33888e-18	9.58128e-18	0.00361	1	0		A	174228609	A	A	174228609	3	1	12	1	0	0	0	0	1	0	0	0	3093	623	22	5	703	5	CDCA7	2	174228609	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	375615	174228609	68970764	178	9653											
HOXD11	3237	broad.mit.edu	37	chr2	176972255	176972255	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctccgcacgtccagcccGtgcgcgaagtggccttccgc	4	7	13	17	6	0	0	0	0	0	0	3	1	3	0	5	2	2	2	5	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:176972255G>A	uc002uki.2	+	1	172	c.172G>A	c.(172-174)GTG>ATG	p.V58M	HOXD11_uc010fqx.2_Intron	NM_021192	NP_067015	P31277	HXD11_HUMAN	homeobox D11	58						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0521)|READ - Rectum adenocarcinoma(9;0.0678)		CGTCCAGCCCGTGCGCGAAGT	0.493			T	NUP98	AML								11	9					0	0	0.001855	0	0		A	176972255	A	A	176972255	3	1	12	1	0	0	0	0	1	0	0	0	7336	1145	40	1	174	1	HOXD11	2	176972255	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2743646	176972255	66227118	179	9654											
TTC30A	92104	broad.mit.edu	37	chr2	178481542	178481542	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttcgaggggttgttcaaTaacagcaggtatgtttgtgc	8	15	12	6	1	2	0	1	0	1	0	3	1	2	0	0	3	3	5	0	3	3	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:178481542T>C	uc002ulo.2	-	1	2153	c.1888A>G	c.(1888-1890)ATT>GTT	p.I630V		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	630					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			GGTTGTTCAATAACAGCAGGT	0.373													50	64					0	0	0.00361	0	0		C	178481542	C	C	178481542	3	2	12	1	0	0	0	0	1	0	0	0	16724	1406	49	3	113	3	TTC30A	2	178481542	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1509287	178481542	64717831	180	9655											
TTN	7273	broad.mit.edu	37	chr2	179396464	179396464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacatttaaaataaaacGtgtattttggccacatggta	15	13	7	6	1	0	1	0	1	0	0	0	1	0	1	1	2	2	2	1	2	7	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:179396464G>A	uc010zfg.1	-	307	97398	c.97174C>T	c.(97174-97176)CGT>TGT	p.R32392C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R26087C|TTN_uc010zfi.1_Missense_Mutation_p.R26020C|TTN_uc010zfj.1_Missense_Mutation_p.R25895C|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33319							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAAATAAAACGTGTATTTTGG	0.448													23	64					0	0	0.008361	0	0		A	179396464	A	A	179396464	3	1	12	1	0	0	0	0	1	0	0	0	16761	1145	40	1	3121	1	TTN	2	179396464	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	914922	179396464	63802909	181	9656											
TTN	7273	broad.mit.edu	37	chr2	179474047	179474047	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacgcgtagctgagattcTccctttttgctgttgtcaat	6	15	10	10	3	2	1	1	1	1	1	3	3	2	2	1	1	2	4	1	1	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:179474047T>A	uc010zfg.1	-	222	44510	c.44286A>T	c.(44284-44286)GGA>GGT	p.G14762G	uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G8457G|TTN_uc010zfi.1_Silent_p.G8390G|TTN_uc010zfj.1_Silent_p.G8265G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15689							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCTGAGATTCTCCCTTTTTGC	0.463													9	16					0	0	0.008291	0	0		A	179474047	A	A	179474047	2	1	12	1	0	0	0	0	0	0	0	1	16761	1538	54	5		5	TTN	2	179474047	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	77583	179474047	63725326	182	9657											
TTN	7273	broad.mit.edu	37	chr2	179594261	179594261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actatattttactacctccaCaggcttcagctctctgataa	11	14	4	12	0	2	1	1	1	1	0	4	1	3	1	2	1	3	2	2	1	5	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:179594261C>T	uc010zfg.1	-	61	15114	c.14890G>A	c.(14890-14892)GTG>ATG	p.V4964M	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.V1625M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5891							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACTACCTCCACAGGCTTCAGC	0.468													15	61					0	0	0.006122	0	0		T	179594261	T	T	179594261	3	4	12	1	0	0	0	0	1	0	0	0	16761	478	17	4	86103	4	TTN	2	179594261	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	120214	179594261	63605112	183	9658											
ZNF804A	91752	broad.mit.edu	37	chr2	185801763	185801763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatgagaacacaggtcagaGgtataaaaacatttcctgta	18	9	8	6	0	1	2	1	1	0	2	2	3	2	2	1	2	2	2	1	2	7	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:185801763G>A	uc002uph.2	+	4	2234	c.1640G>A	c.(1639-1641)AGG>AAG	p.R547K		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	547						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						ACAGGTCAGAGGTATAAAAAC	0.328													5	35					0	0	0.001168	0	0		A	185801763	A	A	185801763	3	1	12	1	0	0	0	0	1	0	0	0	18195	1000	35	4	1654	4	ZNF804A	2	185801763	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6207502	185801763	57397610	184	9659											
COL3A1	1281	broad.mit.edu	37	chr2	189861201	189861201	+	Frame_Shift_Del	DEL	C	-	-																															cagcctggtgtcatgggcttCcccggtcctaaaggaaatga																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:189861201delC	uc002uqj.1	+	24	1857	c.1740delC	c.(1738-1740)TTCfs	p.F580fs		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	580	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	TCATGGGCTTCCCCGGTCCTA	0.423													9	12	---	---	---	---						.	-	189861201	-	-	189861201	7	5	12	1	0	1	0	1	0	0	0	0	3691	854	30	0	1834	0	COL3A1	2	189861201	Frame_Shift_Del	DEL	C	TCGA-BR-4257-01A-01D-1126-08	4059438	189861201	53338172	185	9660											
FAM126B	285172	broad.mit.edu	37	chr2	201846082	201846082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgaggagctctttaccttCgccagcttgacctagccggt	6	11	11	13	2	1	2	0	2	1	0	2	3	1	3	4	2	4	3	4	2	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:201846082C>T	uc002uws.3	-	12	1692	c.1504G>A	c.(1504-1506)GAA>AAA	p.E502K	FAM126B_uc002uwu.2_Missense_Mutation_p.E476K|FAM126B_uc002uwv.2_Missense_Mutation_p.E502K	NM_173822	NP_776183	Q8IXS8	F126B_HUMAN	hypothetical protein LOC285172	502						intracellular				ovary(1)	1						TCTTTACCTTCGCCAGCTTGA	0.507													7	35					0	0	0.001984	0	0		T	201846082	T	T	201846082	3	4	12	1	0	0	0	0	1	0	0	0	5441	893	31	1	92	1	FAM126B	2	201846082	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	11984881	201846082	41353291	186	9661											
BMPR2	659	broad.mit.edu	37	chr2	203420873	203420873	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacccaatatgccaatgggAcagtactatctggccaaaca	15	7	7	12	0	1	0	0	0	1	0	1	1	1	1	3	2	4	1	3	2	7	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:203420873A>G	uc002uzf.3	+	12	3633	c.2485A>G	c.(2485-2487)ACA>GCA	p.T829A	BMPR2_uc010ftr.2_Intron	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	829	Cytoplasmic (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						TGCCAATGGGACAGTACTATC	0.468													8	31					0	0	0.000978	0	0		G	203420873	G	G	203420873	3	3	12	1	0	0	0	0	1	0	0	0	1472	275	10	3	2531	3	BMPR2	2	203420873	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1574791	203420873	39778500	187	9662											
NRP2	8828	broad.mit.edu	37	chr2	206592721	206592721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcctacaagctggaagtcaGcactaatggagaggactgga	14	7	12	8	0	1	1	1	0	0	1	2	5	2	4	1	4	3	2	1	4	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:206592721G>A	uc002vaw.2	+	7	1888	c.1097G>A	c.(1096-1098)AGC>AAC	p.S366N	NRP2_uc002vat.2_Missense_Mutation_p.S366N|NRP2_uc002vau.2_Missense_Mutation_p.S366N|NRP2_uc002vav.2_Missense_Mutation_p.S366N|NRP2_uc002vax.2_Missense_Mutation_p.S366N|NRP2_uc002vay.2_Missense_Mutation_p.S366N|NRP2_uc010fud.2_Missense_Mutation_p.S366N	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	366	Extracellular (Potential).|F5/8 type C 1.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						CTGGAAGTCAGCACTAATGGA	0.498													9	20					0	0	0.006214	0	0		A	206592721	A	A	206592721	3	1	12	1	0	0	0	0	1	0	0	0	10680	971	34	2	1123	2	NRP2	2	206592721	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3171848	206592721	36606652	188	9663											
ZDBF2	57683	broad.mit.edu	37	chr2	207171007	207171007	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaaacaagttttgattgTgatgtttctcttgagtcagt	9	18	9	5	0	3	4	1	4	2	0	4	4	3	4	0	0	1	2	0	0	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:207171007T>C	uc002vbp.2	+	5	2005	c.1755T>C	c.(1753-1755)TGT>TGC	p.C585C		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	585							nucleic acid binding|zinc ion binding			ovary(3)	3						GTTTTGATTGTGATGTTTCTC	0.423													6	22					0	0	0.001168	0	0		C	207171007	C	C	207171007	2	2	12	1	0	0	0	0	0	0	0	1	17624	1702	59	3		3	ZDBF2	2	207171007	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	578286	207171007	36028366	189	9664											
ZDBF2	57683	broad.mit.edu	37	chr2	207171142	207171142	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacatcttgattgtgatgtCtcacttgggacagttgcaga	9	13	11	8	0	2	3	1	2	2	1	3	4	2	4	0	1	1	3	0	1	0	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:207171142C>A	uc002vbp.2	+	5	2140	c.1890C>A	c.(1888-1890)GTC>GTA	p.V630V		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	630							nucleic acid binding|zinc ion binding			ovary(3)	3						ATTGTGATGTCTCACTTGGGA	0.418													31	52					9.04072e-19	1.03964e-18	0.003271	1	0		A	207171142	A	A	207171142	2	1	12	1	0	0	0	0	0	0	0	1	17624	900	32	5		5	ZDBF2	2	207171142	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	135	207171142	36028231	190	9665											
MAP2	4133	broad.mit.edu	37	chr2	210518129	210518129	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaatgggatcaacggagagCtgacctcagctgacagagaa	15	5	13	8	1	2	5	2	2	0	3	2	8	2	6	1	2	3	2	1	2	3	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:210518129C>T	uc002vde.1	+	4	483	c.235C>T	c.(235-237)CTG>TTG	p.L79L	MAP2_uc002vdc.1_Silent_p.L79L|MAP2_uc002vdd.1_Silent_p.L79L|MAP2_uc002vdf.1_Silent_p.L79L|MAP2_uc002vdg.1_Silent_p.L79L|MAP2_uc002vdh.1_Silent_p.L79L|MAP2_uc002vdi.1_Silent_p.L79L	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	79					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CAACGGAGAGCTGACCTCAGC	0.468													34	22					0	0	0.003271	0	0		T	210518129	T	T	210518129	2	4	12	1	0	0	0	0	0	0	0	1	9253	796	28	2		2	MAP2	2	210518129	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3346987	210518129	32681244	191	9666											
ACADL	33	broad.mit.edu	37	chr2	211082788	211082788	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttgttttccagcttttTcccaaacctccctacttact	6	17	3	15	0	0	0	0	0	0	0	4	0	4	0	5	0	4	2	5	0	3	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:211082788T>C	uc002vdz.3	-	3	500	c.272A>G	c.(271-273)GAA>GGA	p.E91G	ACADL_uc010zjg.1_Missense_Mutation_p.E91G	NM_001608	NP_001599	P28330	ACADL_HUMAN	long-chain acyl-CoA dehydrogenase precursor	91					carnitine catabolic process|carnitine metabolic process, CoA-linked|fatty acid beta-oxidation using acyl-CoA dehydrogenase|negative regulation of fatty acid biosynthetic process|negative regulation of fatty acid oxidation|regulation of cholesterol metabolic process|temperature homeostasis	mitochondrial matrix	long-chain-acyl-CoA dehydrogenase activity|palmitoyl-CoA oxidase activity				0		Renal(323;0.202)		Epithelial(149;0.00631)|Lung(261;0.0438)|LUSC - Lung squamous cell carcinoma(261;0.0466)|all cancers(144;0.0621)		TCCAGCTTTTTCCCAAACCTC	0.388													9	23					0	0	0.008291	0	0		C	211082788	C	C	211082788	3	2	12	1	0	0	0	0	1	0	0	0	112	1783	62	3	1056	3	ACADL	2	211082788	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	564659	211082788	32116585	192	9667											
ERBB4	2066	broad.mit.edu	37	chr2	212288922	212288922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcaatagtgcagatgggagGctgaggcaaacgttctcctt	10	10	13	8	1	2	2	1	1	1	1	3	3	2	3	1	3	2	4	1	3	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:212288922G>A	uc002veg.1	-	23	2922	c.2824C>T	c.(2824-2826)CCT>TCT	p.P942S	ERBB4_uc002veh.1_Missense_Mutation_p.P942S|ERBB4_uc010zji.1_Missense_Mutation_p.P932S|ERBB4_uc010zjj.1_Missense_Mutation_p.P932S	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	942	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CAGATGGGAGGCTGAGGCAAA	0.393										TSP Lung(8;0.080)			11	47					0	0	0.001855	0	0		A	212288922	A	A	212288922	3	1	12	1	0	0	0	0	1	0	0	0	5217	1203	42	2	1126	2	ERBB4	2	212288922	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1206134	212288922	30910451	193	9668											
ERBB4	2066	broad.mit.edu	37	chr2	212652859	212652859	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaggaatttgttctggtcTacatagactccaccatttag	12	13	7	9	0	2	1	0	0	2	1	3	2	3	2	2	2	1	1	2	2	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:212652859T>C	uc002veg.1	-	4	545	c.447A>G	c.(445-447)GTA>GTG	p.V149V	ERBB4_uc002veh.1_Silent_p.V149V|ERBB4_uc010zji.1_Silent_p.V149V|ERBB4_uc010zjj.1_Silent_p.V149V|ERBB4_uc010fut.1_Silent_p.V149V	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	149	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TGTTCTGGTCTACATAGACTC	0.343										TSP Lung(8;0.080)			13	24					0	0	0.004007	0	0		C	212652859	C	C	212652859	2	2	12	1	0	0	0	0	0	0	0	1	5217	1509	53	3		3	ERBB4	2	212652859	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	363937	212652859	30546514	194	9669											
FN1	2335	broad.mit.edu	37	chr2	216253000	216253000	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacactggagacactcactAcatattctgtaccaggcagg	13	8	9	11	0	2	2	1	0	1	2	2	3	2	2	1	3	2	2	1	3	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:216253000A>G	uc002vfa.2	-	27	4543	c.4277T>C	c.(4276-4278)GTA>GCA	p.V1426A	FN1_uc002vfb.2_Missense_Mutation_p.V1335A|FN1_uc002vfc.2_Missense_Mutation_p.V1335A|FN1_uc002vfd.2_Missense_Mutation_p.V1426A|FN1_uc002vfe.2_Missense_Mutation_p.V1335A|FN1_uc002vff.2_Missense_Mutation_p.V1335A|FN1_uc002vfg.2_Missense_Mutation_p.V1335A|FN1_uc002vfh.2_Missense_Mutation_p.V1335A|FN1_uc002vfi.2_Missense_Mutation_p.V1426A|FN1_uc002vfj.2_Missense_Mutation_p.V1426A|FN1_uc002vez.2_5'UTR|FN1_uc010zjp.1_Missense_Mutation_p.V53A	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1425	Fibronectin type-III 9.|Cell-attachment.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GACACTCACTACATATTCTGT	0.453													8	51					0	0	0.00308	0	0		G	216253000	G	G	216253000	3	3	12	1	0	0	0	0	1	0	0	0	5976	391	14	3	3236	3	FN1	2	216253000	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	3600141	216253000	26946373	195	9670											
PRKAG3	53632	broad.mit.edu	37	chr2	219689020	219689020	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaggactccctccagacaTagtgtcctctgcctcagggc	9	8	10	14	0	2	1	1	0	1	1	5	3	5	2	4	2	1	0	4	2	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:219689020T>C	uc002vjb.1	-	12	1297	c.1278A>G	c.(1276-1278)CTA>CTG	p.L426L		NM_017431	NP_059127	Q9UGI9	AAKG3_HUMAN	AMP-activated protein kinase, non-catalytic	426					cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|intracellular protein kinase cascade|regulation of fatty acid oxidation	cytosol	AMP-activated protein kinase activity|protein kinase binding			ovary(1)|lung(1)	2		Renal(207;0.0474)		Epithelial(149;4.35e-07)|all cancers(144;8.96e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCTCCAGACATAGTGTCCTCT	0.592													3	18					0	0	0.001984	0	0		C	219689020	C	C	219689020	2	2	12	1	0	0	0	0	0	0	0	1	12524	1393	49	3		3	PRKAG3	2	219689020	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	3436020	219689020	23510353	196	9671											
SPEG	10290	broad.mit.edu	37	chr2	220353849	220353849	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacccacctgccagttggCgtgactgtgaggttccgtgt	5	11	14	11	2	0	3	0	3	0	0	1	3	1	3	4	2	1	2	4	2	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:220353849C>T	uc010fwg.2	+	35	8223	c.8223C>T	c.(8221-8223)GGC>GGT	p.G2741G		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2741	Fibronectin type-III 2.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		TGCCAGTTGGCGTGACTGTGA	0.592													9	33					0	0	0.000978	0	0		T	220353849	T	T	220353849	2	4	12	1	0	0	0	0	0	0	0	1	15061	755	27	1		1	SPEG	2	220353849	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	664829	220353849	22845524	197	9672											
SLC4A3	6508	broad.mit.edu	37	chr2	220497729	220497729	+	Frame_Shift_Del	DEL	C	-	-																															cgtaccctgctactgaagcaCaggtgccggggtgggtccct																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:220497729delC	uc002vmp.3	+	9	1544	c.1275delC	c.(1273-1275)CACfs	p.H425fs	SLC4A3_uc002vmo.3_Frame_Shift_Del_p.H452fs|SLC4A3_uc010fwm.2_5'UTR|SLC4A3_uc010fwn.1_5'UTR	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	425	Cytoplasmic.				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TACTGAAGCACAGGTGCCGGG	0.512													14	10	---	---	---	---						.	-	220497729	-	-	220497729	7	5	12	1	0	1	0	1	0	0	0	0	14680	477	17	0	1386	0	SLC4A3	2	220497729	Frame_Shift_Del	DEL	C	TCGA-BR-4257-01A-01D-1126-08	143880	220497729	22701644	198	9673											
FARSB	10056	broad.mit.edu	37	chr2	223478636	223478636	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaggccaggaagaagggtAgtgcgtgccacctacaggaa	13	4	16	8	1	0	1	0	0	0	1	0	4	0	4	3	5	3	1	3	5	5	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:223478636A>G	uc002vne.1	-	15	1391	c.1356T>C	c.(1354-1356)ACT>ACC	p.T452T	FARSB_uc010zlq.1_Silent_p.T472T|FARSB_uc002vnf.1_Silent_p.T353T	NM_005687	NP_005678	Q9NSD9	SYFB_HUMAN	phenylalanyl-tRNA synthetase, beta subunit	452					phenylalanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|RNA binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(121;3.47e-10)|all cancers(144;1.86e-07)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.011)	L-Phenylalanine(DB00120)	GAAGAAGGGTAGTGCGTGCCA	0.423													10	50					0	0	0.000978	0	0		G	223478636	G	G	223478636	2	3	12	1	0	0	0	0	0	0	0	1	5694	407	15	3		3	FARSB	2	223478636	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2980907	223478636	19720737	199	9674											
CUL3	8452	broad.mit.edu	37	chr2	225376238	225376238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctatttcttcattaattctaGcttctactttctttatatat	9	23	1	8	0	5	0	1	0	4	0	5	0	5	0	0	0	2	1	0	0	7	13			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:225376238G>A	uc002vny.2	-	6	1100	c.716C>T	c.(715-717)GCT>GTT	p.A239V	CUL3_uc010zls.1_Missense_Mutation_p.A173V|CUL3_uc010fwy.1_Missense_Mutation_p.A245V	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	239					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		ATTAATTCTAGCTTCTACTTT	0.323													4	54					0	0	0.009096	0	0		A	225376238	A	A	225376238	3	1	12	1	0	0	0	0	1	0	0	0	4059	971	34	2	1634	2	CUL3	2	225376238	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1897602	225376238	17823135	200	9675											
COL4A4	1286	broad.mit.edu	37	chr2	227892635	227892635	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacccggaagaccagtgggcCcttttctccctggaggtcca	7	8	11	15	1	1	1	0	0	1	1	3	3	2	3	5	4	0	0	5	4	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:227892635C>A	uc010zlt.1	-	42	4718	c.4064G>T	c.(4063-4065)GGG>GTG	p.G1355V		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1355	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		ACCAGTGGGCCCTTTTCTCCC	0.463													11	12					2.68362e-12	3.02739e-12	0.001368	1	0		A	227892635	A	A	227892635	3	1	12	1	0	0	0	0	1	0	0	0	3696	623	22	5	1036	5	COL4A4	2	227892635	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2516397	227892635	15306738	201	9676											
SP110	3431	broad.mit.edu	37	chr2	231042314	231042314	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccgtttccagttctttgcGttccttccttttccttcgac	2	20	5	14	3	1	0	0	0	1	0	7	1	6	0	5	0	1	3	5	0	0	9			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:231042314G>A	uc002vqh.3	-	14	1770	c.1530C>T	c.(1528-1530)AAC>AAT	p.N510N	SP110_uc002vqg.3_Silent_p.N510N|SP110_uc002vqi.3_Silent_p.N510N|SP110_uc010fxk.2_Silent_p.N508N|SP110_uc010fxj.2_Silent_p.N153N	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	510	SAND.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		AGTTCTTTGCGTTCCTTCCTT	0.423													37	138					0	0	0.006999	0	0		A	231042314	A	A	231042314	2	1	12	1	0	0	0	0	0	0	0	1	14986	1136	40	1		1	SP110	2	231042314	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3149679	231042314	12157059	202	9677											
ALPP	250	broad.mit.edu	37	chr2	233243931	233243931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgggggtgtctacggtgaCagctgccaggatcctaaaag	10	8	15	8	1	1	1	0	1	1	0	2	3	2	2	2	4	3	1	2	4	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:233243931C>T	uc002vsq.2	+	3	380	c.215C>T	c.(214-216)ACA>ATA	p.T72I	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	72						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		TCTACGGTGACAGCTGCCAGG	0.597													12	38					0	0	0.00245	0	0		T	233243931	T	T	233243931	3	4	12	1	0	0	0	0	1	0	0	0	548	478	17	4	225	4	ALPP	2	233243931	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2201617	233243931	9955442	203	9678											
ALPP	250	broad.mit.edu	37	chr2	233245422	233245422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatgacagaggctgccctgCgcctgctgagcaggaacccc	9	5	13	14	1	0	4	0	2	0	2	0	5	0	5	4	2	5	3	4	2	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:233245422C>T	uc002vsq.2	+	8	1120	c.955C>T	c.(955-957)CGC>TGC	p.R319C	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	319						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		GGCTGCCCTGCGCCTGCTGAG	0.632													6	48					0	0	0.001168	0	0		T	233245422	T	T	233245422	3	4	12	1	0	0	0	0	1	0	0	0	548	768	27	1	985	1	ALPP	2	233245422	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1491	233245422	9953951	204	9679											
GIGYF2	26058	broad.mit.edu	37	chr2	233671202	233671202	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaattggtgctgttataggTcccttcaataatcaggagat	11	15	9	6	0	2	1	2	0	0	1	3	2	3	1	1	3	1	2	1	3	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:233671202T>C	uc002vti.3	+	17	1978	c.1641T>C	c.(1639-1641)GGT>GGC	p.G547G	GIGYF2_uc010zmj.1_Silent_p.G547G|GIGYF2_uc002vtg.2_Silent_p.G541G|GIGYF2_uc002vtj.3_Silent_p.G568G|GIGYF2_uc002vtk.3_Silent_p.G547G|GIGYF2_uc002vth.3_Silent_p.G541G|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Silent_p.G378G	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	547	GYF.|Required for GRB10-binding (By similarity).				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		CTGTTATAGGTCCCTTCAATA	0.398													16	88					0	0	0.007413	0	0		C	233671202	C	C	233671202	2	2	12	1	0	0	0	0	0	0	0	1	6393	1681	58	3		3	GIGYF2	2	233671202	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	425780	233671202	9528171	205	9680											
COL6A3	1293	broad.mit.edu	37	chr2	238289897	238289897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgtgtacagggccgagcCgtccaggggcttcattttcc	5	9	13	14	3	1	0	1	0	0	0	3	1	3	0	5	3	2	2	5	3	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:238289897C>T	uc002vwl.2	-	5	1843	c.1558G>A	c.(1558-1560)GGC>AGC	p.G520S	COL6A3_uc002vwo.2_Missense_Mutation_p.G314S|COL6A3_uc010znj.1_Missense_Mutation_p.G113S|COL6A3_uc002vwq.2_Missense_Mutation_p.G314S|COL6A3_uc002vwr.2_Missense_Mutation_p.G113S|COL6A3_uc010znk.1_Missense_Mutation_p.G520S	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	520	VWFA 3.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AGGGCCGAGCCGTCCAGGGGC	0.522													29	32					0	0	0.003755	0	0		T	238289897	T	T	238289897	3	4	12	1	0	0	0	0	1	0	0	0	3704	652	23	1	8182	1	COL6A3	2	238289897	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4618695	238289897	4909476	206	9681											
RNPEPL1	57140	broad.mit.edu	37	chr2	241516115	241516115	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcgccattgacatctcCaagtggaggaccttccagac	10	7	10	14	1	1	2	0	1	1	1	3	4	2	4	5	2	1	0	5	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:241516115C>T	uc002vzi.2	+	9	1574	c.981C>T	c.(979-981)TCC>TCT	p.S327S	RNPEPL1_uc010fzf.2_Silent_p.S233S|RNPEPL1_uc002vzj.2_5'UTR	NM_018226	NP_060696	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like	327					leukotriene biosynthetic process|proteolysis		aminopeptidase activity|metallopeptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)		TTGACATCTCCAAGTGGAGGA	0.672													21	16					0	0	0.003954	0	0		T	241516115	T	T	241516115	2	4	12	1	0	0	0	0	0	0	0	1	13535	581	21	4		4	RNPEPL1	2	241516115	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3226218	241516115	1683258	207	9682											
AQP12B	653437	broad.mit.edu	37	chr2	241622123	241622123	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaggccccgagctgcacCgcgcccaccgcctcccgggc	6	2	12	21	5	0	0	0	0	0	0	1	1	1	0	7	2	3	3	7	2	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:241622123C>T	uc010fzj.2	-	1	195	c.132G>A	c.(130-132)GCG>GCA	p.A44A	AQP12B_uc002vzt.2_Intron	NM_001102467	NP_001095937	A6NM10	AQ12B_HUMAN	aquaporin 12B	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane	transporter activity				0		all_epithelial(40;1.71e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;2.2e-31)|all cancers(36;1.08e-28)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.52e-06)|Lung(119;0.00163)|LUSC - Lung squamous cell carcinoma(224;0.008)|Colorectal(34;0.0124)|COAD - Colon adenocarcinoma(134;0.0757)		CGAGCTGCACCGCGCCCACCG	0.687													6	9					0	0	0.001984	0	0		T	241622123	T	T	241622123	2	4	12	1	0	0	0	0	0	0	0	1	825	639	23	1		1	AQP12B	2	241622123	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	106008	241622123	1577250	208	9683											
HDLBP	3069	broad.mit.edu	37	chr2	242187691	242187691	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcacgaatttcacggatccGttcacccttctgcccaatga	9	11	7	14	3	4	1	3	1	1	0	5	3	5	2	3	1	1	1	3	1	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr2:242187691G>C	uc002waz.2	-	13	1813	c.1585C>G	c.(1585-1587)CGG>GGG	p.R529G	HDLBP_uc002wba.2_Missense_Mutation_p.R529G|HDLBP_uc002wbb.2_Missense_Mutation_p.R481G	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	529	KH 6.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		TCACGGATCCGTTCACCCTTC	0.388													6	77					0	0	0.008291	0	0		C	242187691	C	C	242187691	3	2	12	1	0	0	0	0	1	0	0	0	7041	1144	40	5	2285	5	HDLBP	2	242187691	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	565568	242187691	1011682	209	9684											
LRRN1	57633	broad.mit.edu	37	chr3	3886509	3886509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgattgcaatgacctcCgcttaacaaggattcccagt	10	12	8	11	1	0	2	0	2	0	0	2	3	2	3	3	1	2	3	3	1	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:3886509C>T	uc003bpt.3	+	2	945	c.184C>T	c.(184-186)CGC>TGC	p.R62C	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	62	LRRNT.|Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		CAATGACCTCCGCTTAACAAG	0.458													27	71					0	0	0.003271	0	0		T	3886509	T	T	3886509	3	4	12	1	0	0	0	0	1	0	0	0	9052	652	23	1	186	1	LRRN1	3	3886509	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08		3886509	194135921	210	9685											
EDEM1	9695	broad.mit.edu	37	chr3	5244713	5244713	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgcacagcgggagccggTtccctcctggtggaatttgg	7	9	14	11	2	0	0	0	0	0	0	2	2	2	2	3	5	3	2	3	5	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:5244713T>C	uc003bqi.2	+	5	1053	c.921T>C	c.(919-921)GGT>GGC	p.G307G	EDEM1_uc011asz.1_Silent_p.G85G|EDEM1_uc003bqh.2_Silent_p.G307G	NM_014674	NP_055489	Q92611	EDEM1_HUMAN	ER degradation enhancer, mannosidase alpha-like	307	Lumenal (Potential).				ER-associated protein catabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	integral to endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			ovary(2)|breast(1)	3				Epithelial(13;0.0588)|OV - Ovarian serous cystadenocarcinoma(96;0.0682)		CGGGAGCCGGTTCCCTCCTGG	0.532													23	69					0	0	0.005443	0	0		C	5244713	C	C	5244713	2	2	12	1	0	0	0	0	0	0	0	1	4917	1712	60	3		3	EDEM1	3	5244713	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1358204	5244713	192777717	211	9686											
GRM7	2917	broad.mit.edu	37	chr3	6903265	6903265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcacgccaagggtcccagcGgagtgccctgcggcgacatc	7	5	14	15	4	0	0	0	0	0	0	2	2	1	1	3	3	4	1	3	3	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:6903265G>A	uc003bqm.2	+	1	464	c.190G>A	c.(190-192)GGA>AGA	p.G64R	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.G64R|GRM7_uc003bql.2_Missense_Mutation_p.G64R	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	64	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	GGGTCCCAGCGGAGTGCCCTG	0.662													5	2					0	0	0.000602	0	0		A	6903265	A	A	6903265	3	1	12	1	0	0	0	0	1	0	0	0	6818	1117	39	1	192	1	GRM7	3	6903265	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1658552	6903265	191119165	212	9687											
TADA3	10474	broad.mit.edu	37	chr3	9822157	9822157	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcagccatgatcttgcgaaAggcgtccatgacctcgttgt	8	10	12	11	3	1	2	0	2	1	0	3	3	2	2	3	2	2	2	3	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:9822157A>C	uc003bsx.1	-	9	1731	c.1183T>G	c.(1183-1185)TTT>GTT	p.F395V	TADA3_uc010hcn.1_Missense_Mutation_p.F395V|TADA3_uc003bsw.1_Missense_Mutation_p.F224V	NM_006354	NP_006345	O75528	TADA3_HUMAN	transcriptional adaptor 3 isoform a	395	Potential.				estrogen receptor signaling pathway|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	ligand-dependent nuclear receptor binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity				0						ATCTTGCGAAAGGCGTCCATG	0.612													6	27					0	0	0.004482	0	0		C	9822157	C	C	9822157	3	2	12	1	0	0	0	0	1	0	0	0	15537	72	3	5	119	5	TADA3	3	9822157	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2918892	9822157	188200273	213	9688											
SEC13	6396	broad.mit.edu	37	chr3	10346789	10346789	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacatctcgaacccagtcActgtgcgcttctagcttctg	7	11	8	15	2	4	0	1	0	3	0	5	1	4	0	2	0	3	2	2	0	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:10346789A>C	uc003bvn.2	-	7	755	c.636T>G	c.(634-636)AGT>AGG	p.S212R	SEC13_uc003bvl.2_Missense_Mutation_p.S144R|SEC13_uc003bvm.2_Missense_Mutation_p.S198R|SEC13_uc003bvp.2_Missense_Mutation_p.S215R|SEC13_uc003bvo.2_Missense_Mutation_p.S258R|SEC13_uc003bvq.1_Missense_Mutation_p.S198R|SEC13_uc003bvr.1_Missense_Mutation_p.S198R	NM_183352	NP_899195	P55735	SEC13_HUMAN	SEC13 protein isoform 1	212	WD 5.				COPII vesicle coating|intracellular protein transport|mitotic prometaphase|mRNA transport|post-translational protein modification|protein N-linked glycosylation via asparagine|transmembrane transport	cytosol|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Nup107-160 complex	protein binding			ovary(1)	1						GAACCCAGTCACTGTGCGCTT	0.632													3	18					0	0	0.001168	0	0		C	10346789	C	C	10346789	3	2	12	1	0	0	0	0	1	0	0	0	14005	156	6	5	344	5	SEC13	3	10346789	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	524632	10346789	187675641	214	9689											
ATP2B2	491	broad.mit.edu	37	chr3	10382234	10382234	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggggttccggaagatgccGtcaaagacattgcgctcgcc	9	8	13	11	4	1	2	1	0	0	2	3	3	2	3	3	3	2	2	3	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:10382234G>A	uc003bvt.2	-	20	3511	c.3072C>T	c.(3070-3072)GAC>GAT	p.D1024D	ATP2B2_uc003bvv.2_Silent_p.D979D|ATP2B2_uc003bvw.2_Silent_p.D979D|ATP2B2_uc010hdo.2_Silent_p.D729D	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	1024	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						GGAAGATGCCGTCAAAGACAT	0.572													23	70					0	0	0.001882	0	0		A	10382234	A	A	10382234	2	1	12	1	0	0	0	0	0	0	0	1	1141	1136	40	1		1	ATP2B2	3	10382234	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	35445	10382234	187640196	215	9690											
ATP2B2	491	broad.mit.edu	37	chr3	10387133	10387133	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgacggtgagctggaactGcaagaatttggagatgctgt	10	11	15	5	1	0	4	0	2	0	2	0	6	0	5	0	3	4	4	0	3	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:10387133G>A	uc003bvt.2	-	18	3077	c.2638C>T	c.(2638-2640)CAG>TAG	p.Q880*	ATP2B2_uc003bvv.2_Nonsense_Mutation_p.Q835*|ATP2B2_uc003bvw.2_Nonsense_Mutation_p.Q835*|ATP2B2_uc010hdo.2_Nonsense_Mutation_p.Q585*	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	880	Helical; (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						AGCTGGAACTGCAAGAATTTG	0.582													7	33					0	0	0.006214	0	0		A	10387133	A	A	10387133	4	1	12	1	0	0	0	0	0	1	0	0	1141	1328	46	2	1117	2	ATP2B2	3	10387133	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4899	10387133	187635297	216	9691											
NUP210	23225	broad.mit.edu	37	chr3	13383334	13383334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctggccgatggccacacCgcggatgaggaatgtgatgg	8	7	17	9	3	1	2	0	2	1	0	1	5	1	4	3	6	0	0	3	6	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:13383334C>T	uc003bxv.1	-	23	3225	c.3142G>A	c.(3142-3144)GGT>AGT	p.G1048S		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1048	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					ATGGCCACACCGCGGATGAGG	0.527													5	25					0	0	0.004482	0	0		T	13383334	T	T	13383334	3	4	12	1	0	0	0	0	1	0	0	0	10779	652	23	1	2593	1	NUP210	3	13383334	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2996201	13383334	184639096	217	9692											
C3orf20	84077	broad.mit.edu	37	chr3	14744763	14744763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgcaggagttgtgtcGccacatgtgagcacctcagt	9	9	13	10	1	1	1	1	1	0	0	2	3	1	2	2	1	3	4	2	1	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:14744763G>A	uc003byy.2	+	6	1276	c.872G>A	c.(871-873)CGC>CAC	p.R291H	C3orf20_uc003byz.2_Missense_Mutation_p.R169H|C3orf20_uc003bza.2_Missense_Mutation_p.R169H|C3orf20_uc003byx.1_Missense_Mutation_p.R291H	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	291						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						GAGTTGTGTCGCCACATGTGA	0.627													24	67					0	0	0.004656	0	0		A	14744763	A	A	14744763	3	1	12	1	0	0	0	0	1	0	0	0	2216	1087	38	1	886	1	C3orf20	3	14744763	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1361429	14744763	183277667	218	9693											
FGD5	152273	broad.mit.edu	37	chr3	14939591	14939591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggctggcagctgctgtcCgtgaatttgaggtgggtccc	4	10	15	12	2	0	2	0	2	0	0	2	2	2	2	3	4	2	4	3	4	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:14939591C>T	uc003bzc.2	+	6	3165	c.3055C>T	c.(3055-3057)CGT>TGT	p.R1019C	FGD5_uc011avk.1_Missense_Mutation_p.R1019C|FGD5_uc003bzd.2_Missense_Mutation_p.R97C	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	1019	DH.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						AGCTGCTGTCCGTGAATTTGA	0.567													14	55					0	0	0.00499	0	0		T	14939591	T	T	14939591	3	4	12	1	0	0	0	0	1	0	0	0	5850	652	23	1	3077	1	FGD5	3	14939591	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	194828	14939591	183082839	219	9694											
RARB	5915	broad.mit.edu	37	chr3	25502773	25502773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgtacaaaccctgcttcGtctgccaggacaaatcatca	12	9	8	12	1	3	0	2	0	1	0	4	2	3	1	2	1	4	2	2	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:25502773G>A	uc011awl.1	+	2	334	c.268G>A	c.(268-270)GTC>ATC	p.V90I	RARB_uc003cdi.1_5'UTR|RARB_uc003cdh.2_Missense_Mutation_p.V83I	NM_016152	NP_057236	P10826	RARB_HUMAN	retinoic acid receptor, beta isoform 2	90	NR C4-type.|Nuclear receptor.		V -> I (in a colorectal cancer sample; somatic mutation).		embryonic digestive tract development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	protein binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding	p.V83I(1)		ovary(1)|large_intestine(1)|pancreas(1)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tamibarotene(DB04942)|Tazarotene(DB00799)	ACCCTGCTTCGTCTGCCAGGA	0.517													14	44					0	0	0.006122	0	0		A	25502773	A	A	25502773	3	1	12	1	0	0	0	0	1	0	0	0	13078	1145	40	1	253	1	RARB	3	25502773	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	10563182	25502773	172519657	220	9695											
TOP2B	7155	broad.mit.edu	37	chr3	25665821	25665821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatataacgagggcttgcaGcatctttgccaccatgaagc	13	9	9	10	1	1	1	0	1	1	0	1	2	1	1	2	1	5	3	2	1	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:25665821G>A	uc011awn.1	-	20	2505	c.2462C>T	c.(2461-2463)GCT>GTT	p.A821V	TOP2B_uc003cdj.2_Missense_Mutation_p.A816V	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	821					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						AGGGCTTGCAGCATCTTTGCC	0.363													23	106					0	0	0.00333	0	0		A	25665821	A	A	25665821	3	1	12	1	0	0	0	0	1	0	0	0	16392	971	34	2	2486	2	TOP2B	3	25665821	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	163048	25665821	172356609	221	9696											
LRRC3B	116135	broad.mit.edu	37	chr3	26751789	26751789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgattatgccatgctggtcaCcatgtttggctggttcacta	7	14	10	10	1	2	0	2	0	0	0	2	1	2	0	2	3	2	4	2	3	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:26751789C>T	uc003cdp.2	+	2	1215	c.626C>T	c.(625-627)ACC>ATC	p.T209I	LRRC3B_uc003cdq.2_Missense_Mutation_p.T209I	NM_052953	NP_443185	Q96PB8	LRC3B_HUMAN	leucine rich repeat containing 3B precursor	209	Helical; (Potential).					integral to membrane				pancreas(2)|ovary(1)|skin(1)	4						ATGCTGGTCACCATGTTTGGC	0.468													6	25					0	0	0.00308	0	0		T	26751789	T	T	26751789	3	4	12	1	0	0	0	0	1	0	0	0	9014	507	18	4	628	4	LRRC3B	3	26751789	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1085968	26751789	171270641	222	9697											
SLC4A7	9497	broad.mit.edu	37	chr3	27453218	27453218	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggggtagatccattgtgaaAcacaggaatctttctctttt	10	14	10	7	0	2	2	0	1	2	1	4	3	3	3	1	3	1	1	1	3	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:27453218A>G	uc003cdv.2	-	12	1725	c.1654T>C	c.(1654-1656)TTT>CTT	p.F552L	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Missense_Mutation_p.F433L|SLC4A7_uc011aww.1_Missense_Mutation_p.F561L|SLC4A7_uc011awx.1_Missense_Mutation_p.F548L|SLC4A7_uc011awy.1_Missense_Mutation_p.F544L|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Missense_Mutation_p.F433L|SLC4A7_uc011axb.1_Missense_Mutation_p.F548L|SLC4A7_uc010hfl.2_Missense_Mutation_p.F102L|SLC4A7_uc003cdw.2_Missense_Mutation_p.F428L	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	552	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						CCATTGTGAAACACAGGAATC	0.413													5	18					0	0	0.000602	0	0		G	27453218	G	G	27453218	3	3	12	1	0	0	0	0	1	0	0	0	14683	43	2	3	2046	3	SLC4A7	3	27453218	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	701429	27453218	170569212	223	9698											
SLC4A7	9497	broad.mit.edu	37	chr3	27463207	27463207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctttccaaaaagtctacttCgcccaccaggacgttggatg	10	10	8	13	2	1	0	0	0	1	0	3	2	2	2	4	2	1	1	4	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:27463207C>T	uc003cdv.2	-	9	1374	c.1303G>A	c.(1303-1305)GAA>AAA	p.E435K	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Missense_Mutation_p.E316K|SLC4A7_uc011aww.1_Missense_Mutation_p.E444K|SLC4A7_uc011awx.1_Missense_Mutation_p.E431K|SLC4A7_uc011awy.1_Missense_Mutation_p.E427K|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Missense_Mutation_p.E316K|SLC4A7_uc011axb.1_Missense_Mutation_p.E431K|SLC4A7_uc010hfl.2_Intron|SLC4A7_uc003cdw.2_Missense_Mutation_p.E311K	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	435	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						AAGTCTACTTCGCCCACCAGG	0.423													8	48					0	0	0.008291	0	0		T	27463207	T	T	27463207	3	4	12	1	0	0	0	0	1	0	0	0	14683	893	31	1	2409	1	SLC4A7	3	27463207	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	9989	27463207	170559223	224	9699											
CNOT10	25904	broad.mit.edu	37	chr3	32769301	32769301	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattgaagctgttcaggtttAtcatgcaaatcctcgcctct	9	14	8	10	1	3	1	2	1	1	0	5	2	4	1	2	1	2	4	2	1	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:32769301A>G	uc003cfc.1	+	10	1409	c.1154A>G	c.(1153-1155)TAT>TGT	p.Y385C	CNOT10_uc011axi.1_Missense_Mutation_p.Y157C|CNOT10_uc003cfd.1_Missense_Mutation_p.Y384C|CNOT10_uc003cfe.1_Missense_Mutation_p.Y385C|CNOT10_uc010hfv.1_RNA|CNOT10_uc011axj.1_Missense_Mutation_p.Y445C|CNOT10_uc010hfw.1_Missense_Mutation_p.Y80C	NM_015442	NP_056257	Q9H9A5	CNOTA_HUMAN	CCR4-NOT transcription complex, subunit 10	385					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	protein binding			central_nervous_system(1)|skin(1)	2						GTTCAGGTTTATCATGCAAAT	0.453													6	23					0	0	0.00308	0	0		G	32769301	G	G	32769301	3	3	12	1	0	0	0	0	1	0	0	0	3621	449	16	3	1192	3	CNOT10	3	32769301	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	5306094	32769301	165253129	225	9700											
CNOT10	25904	broad.mit.edu	37	chr3	32800967	32800967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggtgctccatacttgcttGcagtgcctacgtggctctgg	5	13	12	11	1	1	0	0	0	1	0	2	0	2	0	2	3	6	4	2	3	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:32800967G>A	uc003cfc.1	+	14	1868	c.1613G>A	c.(1612-1614)TGC>TAC	p.C538Y	CNOT10_uc011axi.1_Missense_Mutation_p.C310Y|CNOT10_uc003cfd.1_Missense_Mutation_p.C537Y|CNOT10_uc003cfe.1_Missense_Mutation_p.C511Y|CNOT10_uc010hfv.1_RNA|CNOT10_uc011axj.1_Missense_Mutation_p.C598Y|CNOT10_uc010hfw.1_Missense_Mutation_p.C233Y	NM_015442	NP_056257	Q9H9A5	CNOTA_HUMAN	CCR4-NOT transcription complex, subunit 10	538					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	protein binding			central_nervous_system(1)|skin(1)	2						ATACTTGCTTGCAGTGCCTAC	0.418													63	320					0	0	0.00361	0	0		A	32800967	A	A	32800967	3	1	12	1	0	0	0	0	1	0	0	0	3621	1319	46	2	1667	2	CNOT10	3	32800967	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	31666	32800967	165221463	226	9701											
TMPPE	643853	broad.mit.edu	37	chr3	33134737	33134737	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactcccactgccactgccAccaccaccacgttgggcccg	7	6	7	21	2	1	0	1	0	0	0	2	0	2	0	7	1	2	1	7	1	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:33134737A>G	uc003cfk.2	-	2	1142	c.951T>C	c.(949-951)GGT>GGC	p.G317G	GLB1_uc003cfh.1_Intron|GLB1_uc003cfi.1_Intron|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Intron|TMPPE_uc011axl.1_Silent_p.G180G	NM_001039770	NP_001034859	Q6ZT21	TMPPE_HUMAN	transmembrane protein with	317						integral to membrane	metal ion binding				0						TGCCACTGCCACCACCACCAC	0.547													7	36					0	0	0.000978	0	0		G	33134737	G	G	33134737	2	3	12	1	0	0	0	0	0	0	0	1	16263	146	6	3		3	TMPPE	3	33134737	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	333770	33134737	164887693	227	9702											
CRTAP	10491	broad.mit.edu	37	chr3	33165913	33165913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttcagagcctgttcatccGagcagtgcgggcatacaacg	9	9	11	12	3	2	1	2	0	0	1	3	2	3	1	2	1	5	3	2	1	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:33165913G>A	uc003cfl.3	+	3	755	c.635G>A	c.(634-636)CGA>CAA	p.R212Q	CRTAP_uc010hfz.2_Missense_Mutation_p.R212Q|CRTAP_uc003cfm.2_Missense_Mutation_p.R33Q|CRTAP_uc003cfn.2_Missense_Mutation_p.R33Q	NM_006371	NP_006362	O75718	CRTAP_HUMAN	cartilage associated protein precursor	212						proteinaceous extracellular matrix	binding				0						CTGTTCATCCGAGCAGTGCGG	0.532													11	41					0	0	0.008291	0	0		A	33165913	A	A	33165913	3	1	12	1	0	0	0	0	1	0	0	0	3901	1058	37	1	645	1	CRTAP	3	33165913	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	31176	33165913	164856517	228	9703											
SUSD5	26032	broad.mit.edu	37	chr3	33194480	33194480	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agctcctcacttgcacctggCccggggccttcctgtccaaa	6	9	9	17	1	1	0	1	0	0	0	4	0	4	0	6	3	2	2	6	3	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:33194480C>T	uc003cfo.1	-	5	2062	c.1644G>A	c.(1642-1644)GGG>GGA	p.G548G		NM_015551	NP_056366	O60279	SUSD5_HUMAN	sushi domain containing 5 precursor	548	Extracellular (Potential).				cell adhesion	integral to membrane	hyaluronic acid binding			ovary(1)|central_nervous_system(1)	2						TTGCACCTGGCCCGGGGCCTT	0.587													10	14					0	0	0.000978	0	0		T	33194480	T	T	33194480	2	4	12	1	0	0	0	0	0	0	0	1	15436	726	26	2		2	SUSD5	3	33194480	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	28567	33194480	164827950	229	9704											
TRANK1	9881	broad.mit.edu	37	chr3	36897095	36897095	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttcctccctaatttcttaTatacttcttcagtgagtctc	7	19	4	11	0	4	1	1	1	3	0	7	1	6	1	2	0	1	1	2	0	4	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:36897095T>G	uc003cgj.2	-	3	2638	c.2336A>C	c.(2335-2337)TAT>TCT	p.Y779S		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1329					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TAATTTCTTATATACTTCTTC	0.453													18	51					0	0	0.010504	0	0		G	36897095	G	G	36897095	3	3	12	1	0	0	0	0	1	0	0	0	16480	1406	49	5	4839	5	TRANK1	3	36897095	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	3702615	36897095	161125335	230	9705											
ACVR2B	93	broad.mit.edu	37	chr3	38519934	38519934	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgctggagatcaaggcTcgggggcgctttggctgtgt	5	10	17	9	2	1	1	1	0	0	1	2	2	1	1	0	5	2	5	0	5	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:38519934T>C	uc003cif.2	+	5	615	c.591T>C	c.(589-591)GCT>GCC	p.A197A	ACVR2B_uc003cig.2_5'UTR	NM_001106	NP_001097	Q13705	AVR2B_HUMAN	activin A receptor, type IIB precursor	197	ATP (By similarity).|Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|anterior/posterior pattern formation|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|regulation of transcription, DNA-dependent	cell surface|cytoplasm|integral to plasma membrane	activin receptor activity|ATP binding|growth factor binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)		AGATCAAGGCTCGGGGGCGCT	0.592													6	15					0	0	0.00308	0	0		C	38519934	C	C	38519934	2	2	12	1	0	0	0	0	0	0	0	1	224	1538	54	3		3	ACVR2B	3	38519934	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1622839	38519934	159502496	231	9706											
SCN10A	6336	broad.mit.edu	37	chr3	38802798	38802798	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accaaggcaaaaacacttagGcagaagatggtgaggatggt	16	6	13	6	0	0	3	0	1	0	2	0	4	0	4	1	5	1	2	1	5	5	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:38802798G>A	uc003ciq.2	-	6	768	c.768C>T	c.(766-768)TGC>TGT	p.C256C		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	256	Helical; Name=S5 of repeat I; (Potential).|I.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	AAACACTTAGGCAGAAGATGG	0.483													5	48					0	0	0.00308	0	0		A	38802798	A	A	38802798	2	1	12	1	0	0	0	0	0	0	0	1	13937	1195	42	2		2	SCN10A	3	38802798	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	282864	38802798	159219632	232	9707											
SNRK	54861	broad.mit.edu	37	chr3	43389492	43389492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcagtgagggggatggcGggggccagagcaagccaagc	9	3	20	9	1	0	2	0	1	0	1	0	3	0	3	2	6	3	2	2	6	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:43389492G>A	uc003cms.3	+	7	2073	c.1741G>A	c.(1741-1743)GGG>AGG	p.G581R	SNRK_uc003cmt.3_Missense_Mutation_p.G581R|SNRK_uc010hik.2_Missense_Mutation_p.G581R|SNRK_uc011azr.1_Missense_Mutation_p.G375R	NM_017719	NP_060189	Q9NRH2	SNRK_HUMAN	SNF related kinase	581					myeloid cell differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.0636)|Kidney(284;0.0792)		GGGGGATGGCGGGGGCCAGAG	0.662													3	14					0	0	0.009096	0	0		A	43389492	A	A	43389492	3	1	12	1	0	0	0	0	1	0	0	0	14876	1116	39	1	1759	1	SNRK	3	43389492	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4586694	43389492	154632938	233	9708											
C3orf75	54859	broad.mit.edu	37	chr3	47537600	47537600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttggcaaaaaaggacaCgcttttgtcctgtatcttat	10	15	7	9	1	1	0	0	0	1	0	3	1	3	1	2	2	0	3	2	2	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:47537600C>T	uc003crk.2	-	7	879	c.760G>A	c.(760-762)GTG>ATG	p.V254M	C3orf75_uc003crj.2_Missense_Mutation_p.V181M|C3orf75_uc011bba.1_Missense_Mutation_p.V205M	NM_001031703	NP_001026873	Q0PNE2	CC075_HUMAN	transmembrane protein 103	254											0						AAAAAGGACACGCTTTTGTCC	0.498													9	39					0	0	0.004482	0	0		T	47537600	T	T	47537600	3	4	12	1	0	0	0	0	1	0	0	0	2248	536	19	1	44	1	C3orf75	3	47537600	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4148108	47537600	150484830	234	9709											
PLXNB1	5364	broad.mit.edu	37	chr3	48459755	48459755	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtctccatgtcccacggAacagtcatacagtaccactg	11	8	8	14	1	2	0	1	0	1	0	4	1	3	1	3	1	3	2	3	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:48459755A>G	uc003csw.2	-	15	3337	c.3067T>C	c.(3067-3069)TCC>CCC	p.S1023P	PLXNB1_uc003csu.2_Missense_Mutation_p.S840P|PLXNB1_uc003csx.2_Missense_Mutation_p.S1023P|PLXNB1_uc010hjx.1_RNA|PLXNB1_uc003csy.1_5'Flank	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1023	Extracellular (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TGTCCCACGGAACAGTCATAC	0.652													4	11					0	0	0.001168	0	0		G	48459755	G	G	48459755	3	3	12	1	0	0	0	0	1	0	0	0	12142	246	9	3	3436	3	PLXNB1	3	48459755	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	922155	48459755	149562675	235	9710											
COL7A1	1294	broad.mit.edu	37	chr3	48628013	48628013	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacagcaagtggagtttcCggctctaggagttacagaca	12	8	13	8	1	1	1	0	0	1	1	2	4	2	4	1	4	3	4	1	4	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:48628013C>T	uc003ctz.2	-	14	1786	c.1785G>A	c.(1783-1785)CCG>CCA	p.P595P		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	595	Nonhelical region (NC1).				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GTGGAGTTTCCGGCTCTAGGA	0.607													22	19					0	0	0.003954	0	0		T	48628013	T	T	48628013	2	4	12	1	0	0	0	0	0	0	0	1	3707	639	23	1		1	COL7A1	3	48628013	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	168258	48628013	149394417	236	9711											
P4HTM	54681	broad.mit.edu	37	chr3	49038942	49038942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcagatgaaggggttacagCgcagccagatcctgcctact	10	7	12	12	2	0	3	0	1	0	2	1	3	1	3	3	2	5	3	3	2	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:49038942C>T	uc003cvg.2	+	3	857	c.508C>T	c.(508-510)CGC>TGC	p.R170C	P4HTM_uc003cvh.2_Missense_Mutation_p.R170C|P4HTM_uc010hkm.1_Missense_Mutation_p.R56C	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	170	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	GGGGTTACAGCGCAGCCAGAT	0.567													8	21					0	0	0.004482	0	0		T	49038942	T	T	49038942	3	4	12	1	0	0	0	0	1	0	0	0	11379	768	27	1	518	1	P4HTM	3	49038942	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	410929	49038942	148983488	237	9712											
WDR6	11180	broad.mit.edu	37	chr3	49051263	49051263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaccacaggctcagcccacGcactcacagctgtttgtaac	11	7	7	16	1	2	0	2	0	0	0	2	0	2	0	2	1	4	5	2	1	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:49051263G>A	uc003cvj.2	+	2	2524	c.2386G>A	c.(2386-2388)GCA>ACA	p.A796T	WDR6_uc011bbx.1_3'UTR|WDR6_uc011bby.1_Missense_Mutation_p.A244T|WDR6_uc010hkn.2_Missense_Mutation_p.A740T|WDR6_uc011bbz.1_Missense_Mutation_p.A715T	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	766	WD 12.				cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		CTCAGCCCACGCACTCACAGC	0.577											OREG0015565	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	25					0	0	0.000978	0	0		A	49051263	A	A	49051263	3	1	12	1	0	0	0	0	1	0	0	0	17336	1087	38	1	2392	1	WDR6	3	49051263	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	12321	49051263	148971167	238	9713											
BSN	8927	broad.mit.edu	37	chr3	49693858	49693858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaacctgctgctgccaaggCccctggggctgggggccctt	5	7	15	14	0	0	0	0	0	0	0	0	1	0	0	5	5	4	3	5	5	2	1	rs5848870		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:49693858C>T	uc003cxe.3	+	5	6983	c.6869C>T	c.(6868-6870)GCC>GTC	p.A2290V		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2290					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		GCTGCCAAGGCCCCTGGGGCT	0.612													8	22					0	0	0.00245	0	0		T	49693858	T	T	49693858	3	4	12	1	0	0	0	0	1	0	0	0	1533	739	26	2	6887	2	BSN	3	49693858	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	642595	49693858	148328572	239	9714											
MST1	4485	broad.mit.edu	37	chr3	49721545	49721545	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccagcgggaccttgcgcaTactcggttggggattataat	8	10	14	9	3	0	0	0	0	0	0	1	2	0	2	2	5	3	2	2	5	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:49721545T>C	uc003cxg.2	-	18	2166	c.2094A>G	c.(2092-2094)GTA>GTG	p.V698V		NM_020998	NP_066278	P26927	HGFL_HUMAN	macrophage stimulating 1 (hepatocyte growth	684	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		ACCTTGCGCATACTCGGTTGG	0.562													8	44					0	0	0.004482	0	0		C	49721545	C	C	49721545	2	2	12	1	0	0	0	0	0	0	0	1	9908	1393	49	3		3	MST1	3	49721545	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	27687	49721545	148300885	240	9715											
BAP1	8314	broad.mit.edu	37	chr3	52443885	52443885	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctctccagctccagccagcCcttattcatcttcccgcggg	5	10	8	18	2	3	0	1	0	2	0	6	0	5	0	5	1	3	2	5	1	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:52443885C>A	uc003ddx.2	-	1	125	c.10G>T	c.(10-12)GGC>TGC	p.G4C	PHF7_uc003ddy.2_5'Flank|PHF7_uc003ddz.2_5'Flank	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	4					monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		TCCAGCCAGCCCTTATTCATC	0.761			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								4	15					0.00024832	0.000261743	0.009096	1	0		A	52443885	A	A	52443885	3	1	12	1	0	0	0	0	1	0	0	0	1312	623	22	5	2247	5	BAP1	3	52443885	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2722340	52443885	145578545	241	9716											
SEMA3G	56920	broad.mit.edu	37	chr3	52472110	52472110	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaccatcccaggcacagtAtgggtcccgggccaggcagc	8	4	14	15	1	0	0	0	0	0	0	2	0	2	0	4	5	1	4	4	5	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:52472110A>G	uc003dea.1	-	14	1615	c.1615T>C	c.(1615-1617)TAC>CAC	p.Y539H		NM_020163	NP_064548	Q9NS98	SEM3G_HUMAN	semaphorin sem2 precursor	539					multicellular organismal development	extracellular region|membrane	receptor activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00173)|KIRC - Kidney renal clear cell carcinoma(197;0.00196)|OV - Ovarian serous cystadenocarcinoma(275;0.0333)		CAGGCACAGTATGGGTCCCGG	0.672													3	19					0	0	0.009096	0	0		G	52472110	G	G	52472110	3	3	12	1	0	0	0	0	1	0	0	0	14055	449	16	3	745	3	SEMA3G	3	52472110	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	28225	52472110	145550320	242	9717											
NISCH	11188	broad.mit.edu	37	chr3	52491918	52491918	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagtaaagcaccgctacagCgacttccatgacctgcatga	13	7	8	13	2	0	2	0	2	0	0	1	3	1	2	3	0	4	4	3	0	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:52491918C>T	uc011beg.1	+	3	225	c.153C>T	c.(151-153)AGC>AGT	p.S51S	NISCH_uc003ded.3_Silent_p.S51S|NISCH_uc003dec.1_Silent_p.S51S	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	51	PX.|Necessary for binding to phosphoinositide-3-P; not sufficient for targeting to endosomes.				apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		ACCGCTACAGCGACTTCCATG	0.522													54	74					0	0	0.00361	0	0		T	52491918	T	T	52491918	2	4	12	1	0	0	0	0	0	0	0	1	10451	767	27	1		1	NISCH	3	52491918	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	19808	52491918	145530512	243	9718											
DNAH12	201625	broad.mit.edu	37	chr3	57368869	57368869	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcctcccagcttttgtcCtgtagccaagttggatcagg	7	14	9	11	0	1	0	1	0	0	0	4	1	4	1	4	2	2	3	4	2	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:57368869C>A	uc003dit.2	-	46	7351	c.7170G>T	c.(7168-7170)CAG>CAT	p.Q2390H	DNAH12_uc010hnc.2_Missense_Mutation_p.Q23H	NM_178504	NP_848599	Q6ZR08	DYH12_HUMAN	dynein heavy chain domain 2 isoform 1	2390	AAA 4 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			pancreas(1)|skin(1)	2						AGCTTTTGTCCTGTAGCCAAG	0.408													3	7					0.004672	0.00484596	0.004672	1	0		A	57368869	A	A	57368869	3	1	12	1	0	0	0	0	1	0	0	0	4606	680	24	5	2164	5	DNAH12	3	57368869	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4876951	57368869	140653561	244	9719											
DNASE1L3	1776	broad.mit.edu	37	chr3	58183580	58183580	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttggtgctcttcttcacCgtggtgtcctcttggtcccc	2	15	10	14	1	4	0	1	0	3	0	6	0	6	0	4	3	1	2	4	3	0	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:58183580C>T	uc003djo.1	-	6	769	c.672G>A	c.(670-672)ACG>ACA	p.T224T	DNASE1L3_uc011bfd.1_Silent_p.T194T|DNASE1L3_uc003djp.1_Silent_p.T224T|DNASE1L3_uc003djq.1_Silent_p.T224T	NM_004944	NP_004935	Q13609	DNSL3_HUMAN	deoxyribonuclease I-like 3 precursor	224					apoptosis|DNA catabolic process	nucleus	calcium ion binding|DNA binding|endodeoxyribonuclease activity, producing 5'-phosphomonoesters			breast(2)|large_intestine(1)	3				BRCA - Breast invasive adenocarcinoma(55;0.00021)|KIRC - Kidney renal clear cell carcinoma(284;0.0445)|Kidney(284;0.0556)|OV - Ovarian serous cystadenocarcinoma(275;0.202)		TCTTCTTCACCGTGGTGTCCT	0.577													10	28					0	0	0.000978	0	0		T	58183580	T	T	58183580	2	4	12	1	0	0	0	0	0	0	0	1	4669	639	23	1		1	DNASE1L3	3	58183580	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	814711	58183580	139838850	245	9720											
ACOX2	8309	broad.mit.edu	37	chr3	58516206	58516206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccttgcctgggccggagccGggattggcggcggatgaccg	4	6	18	13	5	0	1	0	1	0	0	0	4	0	4	5	6	2	0	5	6	0	2	rs138459863		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:58516206G>A	uc003dkl.2	-	8	1154	c.979C>T	c.(979-981)CGG>TGG	p.R327W		NM_003500	NP_003491	Q99424	ACOX2_HUMAN	acyl-Coenzyme A oxidase 2	327					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3alpha,7alpha,12alpha-trihydroxy-5beta-cholestanoyl-CoA 24-hydroxylase activity|acyl-CoA dehydrogenase activity|pristanoyl-CoA oxidase activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000194)|Kidney(10;0.00255)|KIRC - Kidney renal clear cell carcinoma(10;0.00268)|OV - Ovarian serous cystadenocarcinoma(275;0.156)		GGCCGGAGCCGGGATTGGCGG	0.642													9	17					0	0	0.001368	0	0		A	58516206	A	A	58516206	3	1	12	1	0	0	0	0	1	0	0	0	159	1115	39	1	1098	1	ACOX2	3	58516206	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	332626	58516206	139506224	246	9721											
SUCLG2	8801	broad.mit.edu	37	chr3	67568743	67568743	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgtcctttattccttcAaaaatgtcaatttgctccta	9	17	5	10	0	2	0	2	0	0	0	5	0	5	0	3	1	1	2	3	1	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:67568743A>G	uc003dna.3	-	6	616	c.588T>C	c.(586-588)TTT>TTC	p.F196F	SUCLG2_uc010hob.2_Silent_p.F77F	NM_003848	NP_003839	Q96I99	SUCB2_HUMAN	succinate-CoA ligase, GDP-forming beta subunit	196	ATP-grasp.				succinyl-CoA metabolic process|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|GTP binding|succinate-CoA ligase (GDP-forming) activity			central_nervous_system(1)|skin(1)	2		Renal(2;0.00294)|Lung NSC(201;0.012)|Hepatocellular(537;0.121)		BRCA - Breast invasive adenocarcinoma(55;3.53e-05)|Epithelial(33;0.000153)	Succinic acid(DB00139)	TTATTCCTTCAAAAATGTCAA	0.378													9	40					0	0	0.004482	0	0		G	67568743	G	G	67568743	2	3	12	1	0	0	0	0	0	0	0	1	15390	127	5	3		3	SUCLG2	3	67568743	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	9052537	67568743	130453687	247	9722											
LMOD3	56203	broad.mit.edu	37	chr3	69171388	69171388	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctttctgaatcattccCacgggaaggctggggtcagg	8	11	13	9	1	4	2	2	2	2	0	5	3	5	3	1	5	0	1	1	5	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:69171388C>A	uc003dns.2	-	1	359	c.150G>T	c.(148-150)GTG>GTT	p.V50V	LMOD3_uc003dnt.2_Silent_p.V50V	NM_198271	NP_938012	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	50						cytoplasm|cytoskeleton	tropomyosin binding			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		GAATCATTCCCACGGGAAGGC	0.443													7	22					0.00621372	0.00643042	0.006214	1	0		A	69171388	A	A	69171388	2	1	12	1	0	0	0	0	0	0	0	1	8875	581	21	5		5	LMOD3	3	69171388	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1602645	69171388	128851042	248	9723											
PDZRN3	23024	broad.mit.edu	37	chr3	73433392	73433392	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctctcctcaaggagttgtcGggggagatctccagggtgag	7	9	16	9	1	3	2	1	1	2	1	6	4	3	3	2	4	0	2	2	4	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:73433392G>A	uc003dpl.1	-	10	2421	c.2325C>T	c.(2323-2325)CCC>CCT	p.P775P	PDZRN3_uc011bgh.1_Silent_p.P432P|PDZRN3_uc010hoe.1_Silent_p.P473P|PDZRN3_uc011bgf.1_Silent_p.P492P|PDZRN3_uc011bgg.1_Silent_p.P495P	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	775							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		AGGAGTTGTCGGGGGAGATCT	0.647													5	18					0	0	0.001168	0	0		A	73433392	A	A	73433392	2	1	12	1	0	0	0	0	0	0	0	1	11728	1103	39	1		1	PDZRN3	3	73433392	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4262004	73433392	124589038	249	9724											
ROBO1	6091	broad.mit.edu	37	chr3	78663931	78663931	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcctagggcactgagaCgcatgaaaatgtcgacggcc	10	6	15	10	3	0	2	0	2	0	1	1	4	0	2	2	3	0	2	2	3	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:78663931C>T	uc003dqe.2	-	28	4510	c.4302G>A	c.(4300-4302)GCG>GCA	p.A1434A	ROBO1_uc003dqb.2_Silent_p.A1395A|ROBO1_uc003dqc.2_Silent_p.A1334A|ROBO1_uc003dqd.2_Silent_p.A1389A|ROBO1_uc010hoh.2_Silent_p.A626A|ROBO1_uc011bgl.1_Silent_p.A1006A	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1434	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		GGCACTGAGACGCATGAAAAT	0.433													6	12					0	0	0.001984	0	0		T	78663931	T	T	78663931	2	4	12	1	0	0	0	0	0	0	0	1	13538	523	19	1		1	ROBO1	3	78663931	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	5230539	78663931	119358499	250	9725											
EPHA6	285220	broad.mit.edu	37	chr3	96533752	96533752	+	Frame_Shift_Del	DEL	G	-	-																															agagagcctaggagaaccatGgggggctgcgaagtccggga																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:96533752delG	uc010how.1	+	1	328	c.285delG	c.(283-285)ATGfs	p.M95fs	EPHA6_uc003drp.1_Frame_Shift_Del_p.M95fs	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	1						integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						GGAGAACCATGGGGGGCTGCG	0.542													4	7	---	---	---	---						.	-	96533752	-	-	96533752	7	5	12	1	0	1	0	1	0	0	0	0	5179	1348	47	0	287	0	EPHA6	3	96533752	Frame_Shift_Del	DEL	G	TCGA-BR-4257-01A-01D-1126-08	17869821	96533752	101488678	251	9726											
OR5K4	403278	broad.mit.edu	37	chr3	98073327	98073327	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccaattcaaatctttacCattgctactgtcttgatctc	11	16	3	11	0	4	1	1	1	3	0	5	1	4	1	2	0	4	1	2	0	5	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:98073327C>T	uc011bgv.1	+	1	630	c.630C>T	c.(628-630)ACC>ACT	p.T210T		NM_001005517	NP_001005517	A6NMS3	OR5K4_HUMAN	olfactory receptor, family 5, subfamily K,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						AAATCTTTACCATTGCTACTG	0.348													8	48					0	0	0.004482	0	0		T	98073327	T	T	98073327	2	4	12	1	0	0	0	0	0	0	0	1	11188	581	21	4		4	OR5K4	3	98073327	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1539575	98073327	99949103	252	9727											
OR5K3	403277	broad.mit.edu	37	chr3	98110293	98110293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatgtatgctcgaccaggtGcagttaatgaaggggataaa	13	10	12	6	1	1	1	1	1	0	0	2	3	1	2	1	3	2	4	1	3	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:98110293G>A	uc011bgw.1	+	1	784	c.784G>A	c.(784-786)GCA>ACA	p.A262T		NM_001005516	NP_001005516	A6NET4	OR5K3_HUMAN	olfactory receptor, family 5, subfamily K,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCGACCAGGTGCAGTTAATGA	0.353													20	56					0	0	0.008871	0	0		A	98110293	A	A	98110293	3	1	12	1	0	0	0	0	1	0	0	0	11187	1319	46	2	786	2	OR5K3	3	98110293	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	36966	98110293	99912137	253	9728											
ST3GAL6	10402	broad.mit.edu	37	chr3	98510829	98510829	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgccaccatgtctttgAtgaataaggtaatatactgt	13	13	9	6	0	1	2	0	2	1	0	1	3	1	3	2	2	2	1	2	2	6	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:98510829A>T	uc003dsz.2	+	9	1137	c.901A>T	c.(901-903)ATG>TTG	p.M301L	ST3GAL6_uc003dsy.2_Missense_Mutation_p.M215L|ST3GAL6_uc003dta.2_Missense_Mutation_p.M183L|ST3GAL6_uc003dtb.2_Missense_Mutation_p.M157L|ST3GAL6_uc003dtc.2_Missense_Mutation_p.M301L|ST3GAL6_uc010hpd.2_Missense_Mutation_p.M354L	NM_006100	NP_006091	Q9Y274	SIA10_HUMAN	alpha2,3-sialyltransferase VI	301	Lumenal (Potential).				amino sugar metabolic process|glycolipid metabolic process|protein glycosylation|protein lipoylation	integral to Golgi membrane	sialyltransferase activity			ovary(1)	1						CATGTCTTTGATGAATAAGGT	0.358													23	71					0	0	0.00278	0	0		T	98510829	T	T	98510829	3	4	12	1	0	0	0	0	1	0	0	0	15244	333	12	5	931	5	ST3GAL6	3	98510829	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	400536	98510829	99511601	254	9729											
TBC1D23	55773	broad.mit.edu	37	chr3	100020962	100020962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtaaaatccttgctggaaGcacagaagcagtccattgag	14	8	10	9	0	0	2	0	1	0	1	2	3	2	3	2	1	3	4	2	1	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:100020962G>A	uc003dtt.2	+	11	1321	c.1144G>A	c.(1144-1146)GCA>ACA	p.A382T	TBC1D23_uc003dts.2_Missense_Mutation_p.A382T	NM_018309	NP_060779	Q9NUY8	TBC23_HUMAN	TBC1 domain family, member 23	382	Rhodanese.					intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2						CTTGCTGGAAGCACAGAAGCA	0.433													15	35					0	0	0.006122	0	0		A	100020962	A	A	100020962	3	1	12	1	0	0	0	0	1	0	0	0	15638	971	34	2	1186	2	TBC1D23	3	100020962	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1510133	100020962	98001468	255	9730											
ZBED2	79413	broad.mit.edu	37	chr3	111312782	111312782	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgcccacgttgaccccAgggccacggctcacctgcct	5	7	12	17	2	1	1	1	1	0	0	1	1	1	1	6	3	2	2	6	3	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:111312782A>C	uc003dxy.2	-	2	1152	c.267T>G	c.(265-267)CCT>CCG	p.P89P	CD96_uc003dxv.2_Intron|CD96_uc003dxw.2_Intron|CD96_uc003dxx.2_Intron|CD96_uc010hpy.1_Intron	NM_024508	NP_078784	Q9BTP6	ZBED2_HUMAN	zinc finger, BED domain containing 2	89	BED-type.						DNA binding|metal ion binding			skin(1)	1						CGTTGACCCCAGGGCCACGGC	0.617													7	15					0	0	0.004482	0	0		C	111312782	C	C	111312782	2	2	12	1	0	0	0	0	0	0	0	1	17544	175	7	5		5	ZBED2	3	111312782	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	11291820	111312782	86709648	256	9731											
SLC9A10	285335	broad.mit.edu	37	chr3	111921157	111921157	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcattatgtctgcttcgccTtggacatagccttttagtat	7	17	8	9	1	2	0	1	0	1	0	3	1	2	1	2	1	2	2	2	1	4	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:111921157T>C	uc003dyu.2	-	18	2484	c.2262A>G	c.(2260-2262)CAA>CAG	p.Q754Q	SLC9A10_uc011bhu.1_Silent_p.Q17Q|SLC9A10_uc010hqc.2_Silent_p.Q706Q	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	754					cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						CTGCTTCGCCTTGGACATAGC	0.348													11	32					0	0	0.008291	0	0		C	111921157	C	C	111921157	2	2	12	1	0	0	0	0	0	0	0	1	14735	1606	56	3		3	SLC9A10	3	111921157	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	608375	111921157	86101273	257	9732											
KIAA2018	205717	broad.mit.edu	37	chr3	113376559	113376559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcttagcagaatccttacGgctttcatggcttggcttta	8	14	9	10	2	1	1	1	0	0	1	2	1	2	1	1	3	2	5	1	3	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:113376559G>A	uc003eam.2	-	7	4381	c.3970C>T	c.(3970-3972)CGT>TGT	p.R1324C	KIAA2018_uc003eal.2_Missense_Mutation_p.R1268C	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1324					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						GAATCCTTACGGCTTTCATGG	0.438													18	60					0	0	0.004656	0	0		A	113376559	A	A	113376559	3	1	12	1	0	0	0	0	1	0	0	0	8284	1116	39	1	2771	1	KIAA2018	3	113376559	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1455402	113376559	84645871	258	9733											
QTRTD1	79691	broad.mit.edu	37	chr3	113795686	113795686	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agacagccaagcggcctgtgGgtggcttccttctggatggt	6	10	15	10	1	1	1	0	0	1	1	2	2	2	2	3	5	2	1	3	5	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:113795686G>T	uc003eay.2	+	7	873	c.643G>T	c.(643-645)GGT>TGT	p.G215C	QTRTD1_uc003eaz.2_Missense_Mutation_p.G227C|QTRTD1_uc011biq.1_Missense_Mutation_p.G92C|QTRTD1_uc011bir.1_Missense_Mutation_p.G109C|QTRTD1_uc003eba.2_Missense_Mutation_p.G92C	NM_024638	NP_078914	Q9H974	QTRD1_HUMAN	queuine tRNA-ribosyltransferase domain	215					queuosine biosynthetic process	mitochondrion	metal ion binding|queuine tRNA-ribosyltransferase activity			central_nervous_system(1)|skin(1)	2						GCGGCCTGTGGGTGGCTTCCT	0.532													10	30					4.93089e-13	5.59956e-13	0.00245	1	0		T	113795686	T	T	113795686	3	4	12	1	0	0	0	0	1	0	0	0	12911	1232	43	5	661	5	QTRTD1	3	113795686	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	419127	113795686	84226744	259	9734											
POLQ	10721	broad.mit.edu	37	chr3	121248525	121248525	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtagattataaaactctcGagcaatgatatctgccagct	14	12	7	8	1	2	2	0	1	2	1	3	3	2	2	1	0	4	3	1	0	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:121248525G>A	uc003eee.3	-	7	1204	c.1075C>T	c.(1075-1077)CGA>TGA	p.R359*		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	359	Helicase C-terminal.				DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TAAAACTCTCGAGCAATGATA	0.358								DNA_polymerases_(catalytic_subunits)					22	71					0	0	0.00333	0	0		A	121248525	A	A	121248525	4	1	12	1	0	0	0	0	0	1	0	0	12227	1066	37	1	6793	1	POLQ	3	121248525	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	7452839	121248525	76773905	260	9735											
DTX3L	151636	broad.mit.edu	37	chr3	122288531	122288531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaccgatggacattgataGcgatgattccaaagcagctt	14	9	9	9	2	0	2	0	2	0	0	1	5	1	3	2	1	4	2	2	1	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:122288531G>A	uc003efk.2	+	3	1684	c.1595G>A	c.(1594-1596)AGC>AAC	p.S532N	DTX3L_uc010hrj.2_Intron	NM_138287	NP_612144	Q8TDB6	DTX3L_HUMAN	deltex 3-like	532					histone monoubiquitination|response to DNA damage stimulus	cytoplasm|nucleus	histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)	4				GBM - Glioblastoma multiforme(114;0.0459)		GACATTGATAGCGATGATTCC	0.468													10	44					0	0	0.001368	0	0		A	122288531	A	A	122288531	3	1	12	1	0	0	0	0	1	0	0	0	4802	971	34	2	1605	2	DTX3L	3	122288531	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1040006	122288531	75733899	261	9736											
DTX3L	151636	broad.mit.edu	37	chr3	122289427	122289427	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgaccaaaagctgattttTacagtggggtactctcgcgt	9	14	10	8	2	1	2	0	2	1	0	2	2	1	2	1	2	3	2	1	2	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:122289427T>C	uc003efk.2	+	4	2150	c.2061T>C	c.(2059-2061)TTT>TTC	p.F687F	DTX3L_uc010hrj.2_Silent_p.F175F	NM_138287	NP_612144	Q8TDB6	DTX3L_HUMAN	deltex 3-like	687					histone monoubiquitination|response to DNA damage stimulus	cytoplasm|nucleus	histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)	4				GBM - Glioblastoma multiforme(114;0.0459)		AGCTGATTTTTACAGTGGGGT	0.433													25	59					0	0	0.00333	0	0		C	122289427	C	C	122289427	2	2	12	1	0	0	0	0	0	0	0	1	4802	1751	61	3		3	DTX3L	3	122289427	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	896	122289427	75733003	262	9737											
KALRN	8997	broad.mit.edu	37	chr3	124215203	124215203	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggggatgggagcagccaAccagacaccatctccattgc	11	5	12	13	0	1	1	0	0	1	1	2	3	1	3	4	3	4	1	4	3	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:124215203A>G	uc003ehg.2	+	33	4999	c.4872A>G	c.(4870-4872)CAA>CAG	p.Q1624Q	KALRN_uc010hrv.1_Silent_p.Q1615Q|KALRN_uc003ehf.1_Silent_p.Q1624Q|KALRN_uc011bjy.1_Silent_p.Q1615Q	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1624					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GGAGCAGCCAACCAGACACCA	0.537													9	33					0	0	0.001855	0	0		G	124215203	G	G	124215203	2	3	12	1	0	0	0	0	0	0	0	1	7991	40	2	3		3	KALRN	3	124215203	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1925776	124215203	73807227	263	9738											
HEG1	57493	broad.mit.edu	37	chr3	124731892	124731892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaggtcttcagaatggtaGttgtgaaagttggagacatt	12	12	14	3	0	2	4	1	1	1	3	2	6	2	4	0	3	0	3	0	3	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:124731892G>A	uc003ehs.3	-	6	2599	c.2531C>T	c.(2530-2532)ACT>ATT	p.T844I	HEG1_uc011bke.1_Missense_Mutation_p.T944I	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	844	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						CAGAATGGTAGTTGTGAAAGT	0.502													13	126					0	0	0.00499	0	0		A	124731892	A	A	124731892	3	1	12	1	0	0	0	0	1	0	0	0	7060	1029	36	4	1662	4	HEG1	3	124731892	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	516689	124731892	73290538	264	9739											
ZNF148	7707	broad.mit.edu	37	chr3	124953119	124953119	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcttatgcctttccataTgatatttttgtatgaatctc	8	21	4	8	0	2	2	0	2	2	0	5	2	3	2	2	0	1	1	2	0	5	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:124953119T>G	uc003ehx.3	-	8	1208	c.722A>C	c.(721-723)CAT>CCT	p.H241P	SLC12A8_uc003ehw.3_Intron|ZNF148_uc003ehz.3_Missense_Mutation_p.H241P|ZNF148_uc010hsa.2_Missense_Mutation_p.H241P|ZNF148_uc003eia.3_Missense_Mutation_p.H241P|ZNF148_uc003ehy.2_Intron	NM_021964	NP_068799	Q9UQR1	ZN148_HUMAN	zinc finger protein 148	241	C2H2-type 3.				cellular defense response|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4						CCTTTCCATATGATATTTTTG	0.313													21	60					0	0	0.00333	0	0		G	124953119	G	G	124953119	3	3	12	1	0	0	0	0	1	0	0	0	17759	1464	51	5	1670	5	ZNF148	3	124953119	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	221227	124953119	73069311	265	9740											
ZXDC	79364	broad.mit.edu	37	chr3	126180390	126180390	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcataccaaatagaagttGccagtgcctgcactgagctc	11	10	8	12	0	1	2	1	1	0	1	2	2	1	2	3	0	5	3	3	0	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:126180390G>A	uc003eiv.2	-	6	2169	c.2115C>T	c.(2113-2115)GGC>GGT	p.G705G	ZXDC_uc010hsh.2_RNA|ZXDC_uc003eix.2_Silent_p.G705G	NM_025112	NP_079388	Q2QGD7	ZXDC_HUMAN	ZXD family zinc finger C isoform 1	705					positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|LRR domain binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.155)		AATAGAAGTTGCCAGTGCCTG	0.522													7	18					0	0	0.00308	0	0		A	126180390	A	A	126180390	2	1	12	1	0	0	0	0	0	0	0	1	18277	1306	46	2		2	ZXDC	3	126180390	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1227271	126180390	71842040	266	9741											
UROC1	131669	broad.mit.edu	37	chr3	126219539	126219539	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccaactccaagtagcaccTttcctggaccaggtccttga	9	9	7	16	0	0	1	0	1	0	0	3	2	3	2	7	2	2	2	7	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:126219539T>A	uc003eiz.1	-	11	1176	c.1144A>T	c.(1144-1146)AGC>TGC	p.S382C	UROC1_uc010hsi.1_Missense_Mutation_p.S442C	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	382					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		AAGTAGCACCTTTCCTGGACC	0.522													30	90					0	0	0.004289	0	0		A	126219539	A	A	126219539	3	1	12	1	0	0	0	0	1	0	0	0	17054	1623	56	5	926	5	UROC1	3	126219539	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	39149	126219539	71802891	267	9742											
UROC1	131669	broad.mit.edu	37	chr3	126226620	126226620	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagagcttctcatactcCgtccgggaggagtagttggg	9	9	14	9	2	1	1	1	0	1	1	4	3	3	3	2	3	2	4	2	3	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:126226620C>T	uc003eiz.1	-	6	599	c.567G>A	c.(565-567)ACG>ACA	p.T189T	UROC1_uc010hsi.1_Silent_p.T189T	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	189					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		TCTCATACTCCGTCCGGGAGG	0.532													23	81					0	0	0.00632	0	0		T	126226620	T	T	126226620	2	4	12	1	0	0	0	0	0	0	0	1	17054	639	23	1		1	UROC1	3	126226620	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	7081	126226620	71795810	268	9743											
RUVBL1	8607	broad.mit.edu	37	chr3	127806584	127806584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagtatacagcatggtccGgattatcatcactcggtcca	10	11	10	10	2	2	0	2	0	0	0	5	2	4	2	2	4	2	2	2	4	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:127806584G>A	uc003ekh.2	-	9	1188	c.1084C>T	c.(1084-1086)CGG>TGG	p.R362W	RUVBL1_uc003eke.2_Intron|RUVBL1_uc003ekf.2_Missense_Mutation_p.R302W|RUVBL1_uc010hss.2_Missense_Mutation_p.R362W	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1	362					cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		AGCATGGTCCGGATTATCATC	0.488													15	40					0	0	0.004007	0	0		A	127806584	A	A	127806584	3	1	12	1	0	0	0	0	1	0	0	0	13777	1115	39	1	298	1	RUVBL1	3	127806584	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1579964	127806584	70215846	269	9744											
CCDC48	79825	broad.mit.edu	37	chr3	128757721	128757721	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttgctgagcacgctggaCgctttcagggaccccaccca	8	9	10	14	2	1	1	1	1	0	0	1	3	1	3	3	2	2	4	3	2	0	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:128757721C>T	uc011bkt.1	+	7	1638	c.1638C>T	c.(1636-1638)GAC>GAT	p.D546D		NM_024768	NP_079044	Q9HA90	CCD48_HUMAN	coiled-coil domain containing 48	546											0						GCACGCTGGACGCTTTCAGGG	0.537													20	42					0	0	0.00278	0	0		T	128757721	T	T	128757721	2	4	12	1	0	0	0	0	0	0	0	1	2822	535	19	1		1	CCDC48	3	128757721	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	951137	128757721	69264709	270	9745											
IFT122	55764	broad.mit.edu	37	chr3	129233274	129233274	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcagagcaaggccctcggTgcctacaggctggcccggca	9	4	14	14	2	0	1	0	0	0	1	1	1	0	1	3	5	4	4	3	5	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:129233274T>C	uc003emm.2	+	25	3236	c.3030T>C	c.(3028-3030)GGT>GGC	p.G1010G	IFT122_uc003eml.2_Silent_p.G1061G|IFT122_uc003emn.2_Silent_p.G951G|IFT122_uc003emo.2_Silent_p.G900G|IFT122_uc003emp.2_Silent_p.G860G|IFT122_uc010htc.2_Silent_p.G1003G|IFT122_uc011bky.1_Silent_p.G801G|IFT122_uc003emq.2_Silent_p.G850G|IFT122_uc003emr.2_Silent_p.G763G|IFT122_uc011bla.1_Silent_p.G784G|IFT122_uc010hte.2_Silent_p.G336G|IFT122_uc003ems.2_Silent_p.G392G	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	1010					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						AGGCCCTCGGTGCCTACAGGC	0.602													4	18					0	0	0.000602	0	0		C	129233274	C	C	129233274	2	2	12	1	0	0	0	0	0	0	0	1	7571	1683	59	3		3	IFT122	3	129233274	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	475553	129233274	68789156	271	9746											
PLXND1	23129	broad.mit.edu	37	chr3	129281738	129281738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgtcggtgtccatggcccGcacgctcagcgagtccatgc	5	8	13	15	5	1	0	1	0	0	0	4	1	3	0	3	2	2	2	3	2	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:129281738G>A	uc003emx.2	-	27	4817	c.4717C>T	c.(4717-4719)CGG>TGG	p.R1573W	PLXND1_uc011blb.1_Missense_Mutation_p.R241W	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1573	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						TCCATGGCCCGCACGCTCAGC	0.597													8	15					0	0	0.006214	0	0		A	129281738	A	A	129281738	3	1	12	1	0	0	0	0	1	0	0	0	12146	1086	38	1	1100	1	PLXND1	3	129281738	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	48464	129281738	68740692	272	9747											
PLXND1	23129	broad.mit.edu	37	chr3	129292568	129292568	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagggtcccaccgtccaaCgggccactcaggggctcaat	9	5	12	15	2	2	0	2	0	0	0	4	0	4	0	4	4	2	2	4	4	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:129292568C>T	uc003emx.2	-	13	2806	c.2706G>A	c.(2704-2706)CCG>CCA	p.P902P		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	902	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						CACCGTCCAACGGGCCACTCA	0.667													5	16					0	0	0.001984	0	0		T	129292568	T	T	129292568	2	4	12	1	0	0	0	0	0	0	0	1	12146	523	19	1		1	PLXND1	3	129292568	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	10830	129292568	68729862	273	9748											
COL6A6	131873	broad.mit.edu	37	chr3	130292809	130292809	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctttgtagattgtgaaaTtgacaaagtagatcttgttt	11	18	8	4	0	2	4	0	2	2	2	2	4	2	4	0	0	0	3	0	0	4	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:130292809T>A	uc010htl.2	+	7	3018	c.2987T>A	c.(2986-2988)ATT>AAT	p.I996N		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	996	Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GATTGTGAAATTGACAAAGTA	0.343													7	17					0	0	0.004482	0	0		A	130292809	A	A	130292809	3	1	12	1	0	0	0	0	1	0	0	0	3706	1493	52	5	3013	5	COL6A6	3	130292809	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1000241	130292809	67729621	274	9749											
COL6A6	131873	broad.mit.edu	37	chr3	130307997	130307997	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcattggaggagatggcacaAtgggagatcctggaccacca	12	6	14	9	0	0	2	0	0	0	2	1	6	1	4	3	5	0	2	3	5	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:130307997A>G	uc010htl.2	+	11	4220	c.4189A>G	c.(4189-4191)ATG>GTG	p.M1397V	COL6A6_uc003eni.3_5'UTR	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1397	Triple-helical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						AGATGGCACAATGGGAGATCC	0.433													9	26					0	0	0.008291	0	0		G	130307997	G	G	130307997	3	3	12	1	0	0	0	0	1	0	0	0	3706	101	4	3	4231	3	COL6A6	3	130307997	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	15188	130307997	67714433	275	9750											
COL6A6	131873	broad.mit.edu	37	chr3	130345329	130345329	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acaatctttctgtttaacagGgagaacctggagatctggga	12	11	11	7	0	3	2	0	0	3	2	3	5	3	3	1	3	2	1	1	3	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:130345329G>T	uc010htl.2	+	24	4910	c.4879G>T	c.(4879-4881)GGA>TGA	p.G1627*	COL6A6_uc003eni.3_Translation_Start_Site	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1627	Triple-helical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TGTTTAACAGGGAGAACCTGG	0.438													11	57					1.49906e-05	1.60488e-05	0.00245	1	0		T	130345329	T	T	130345329	4	4	12	1	0	0	0	0	0	1	0	0	3706	1246	43	5	4973	5	COL6A6	3	130345329	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	37332	130345329	67677101	276	9751											
EPHB1	2047	broad.mit.edu	37	chr3	134851736	134851736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacaatgtggagtttgtgcCcaggcagctgggcctgacgg	7	8	16	10	2	0	1	0	1	0	0	0	3	0	2	2	4	2	3	2	4	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:134851736C>T	uc003eqt.2	+	5	1362	c.1142C>T	c.(1141-1143)CCC>CTC	p.P381L	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_3'UTR|EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	381	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GAGTTTGTGCCCAGGCAGCTG	0.612													6	24					0	0	0.001984	0	0		T	134851736	T	T	134851736	3	4	12	1	0	0	0	0	1	0	0	0	5182	623	22	4	1160	4	EPHB1	3	134851736	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4506407	134851736	63170694	277	9752											
PIK3CB	5291	broad.mit.edu	37	chr3	138417775	138417775	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatcctcaagtttattccActtgattgacagcagtaatt	13	14	5	9	0	1	2	1	2	0	0	3	2	3	2	2	0	2	3	2	0	4	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:138417775A>G	uc011bmq.1	-	11	1744	c.1744T>C	c.(1744-1746)TGG>CGG	p.W582R	PIK3CB_uc011bmn.1_Missense_Mutation_p.W94R|PIK3CB_uc011bmo.1_Missense_Mutation_p.W28R|PIK3CB_uc011bmp.1_Missense_Mutation_p.W169R	NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta	582	PI3K helical.				activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						AGTTTATTCCACTTGATTGAC	0.373													23	86					0	0	0.004656	0	0		G	138417775	G	G	138417775	3	3	12	1	0	0	0	0	1	0	0	0	11933	159	6	3	1514	3	PIK3CB	3	138417775	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	3566039	138417775	59604655	278	9753											
RNF7	9616	broad.mit.edu	37	chr3	141457324	141457324	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagctgggacgtggagtgCgatacgtgcgccatctgcag	7	8	17	9	4	1	0	0	0	1	0	1	4	1	3	1	3	5	2	1	3	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:141457324C>T	uc003eud.2	+	1	274	c.141C>T	c.(139-141)TGC>TGT	p.C47C	RNF7_uc003euc.2_Silent_p.C47C|RNF7_uc003eue.2_RNA	NM_014245	NP_055060	Q9UBF6	RBX2_HUMAN	ring finger protein 7 isoform 1	47					anti-apoptosis|induction of apoptosis by oxidative stress|protein neddylation|response to redox state	cytoplasm|nucleus	copper ion binding|NEDD8 ligase activity|protein binding|zinc ion binding				0						ACGTGGAGTGCGATACGTGCG	0.662											OREG0015854	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	15					0	0	0.009096	0	0		T	141457324	T	T	141457324	2	4	12	1	0	0	0	0	0	0	0	1	13524	776	27	1		1	RNF7	3	141457324	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3039549	141457324	56565106	279	9754											
CP	1356	broad.mit.edu	37	chr3	148897376	148897376	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagttgaataataagcccaTggaatacaagcagaatcctc	17	8	7	9	0	0	2	0	1	0	1	2	3	1	3	2	1	3	2	2	1	7	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:148897376T>C	uc003ewy.3	-	15	2881	c.2628A>G	c.(2626-2628)CCA>CCG	p.P876P	CP_uc011bnr.1_RNA|CP_uc003eww.3_Silent_p.P28P|CP_uc003ewx.3_Silent_p.P657P|CP_uc003ewz.2_Silent_p.P876P	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	876	Plastocyanin-like 5.|F5/8 type A 3.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	AATAAGCCCATGGAATACAAG	0.368													5	35					0	0	0.000602	0	0		C	148897376	C	C	148897376	2	2	12	1	0	0	0	0	0	0	0	1	3790	1451	51	3		3	CP	3	148897376	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	7440052	148897376	49125054	280	9755											
FAM194A	131831	broad.mit.edu	37	chr3	150387183	150387183	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttcttggactatacaagTaaaaccatttaccttgttgg	12	15	6	8	0	2	0	0	0	2	0	2	1	2	1	2	2	3	2	2	2	6	9			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:150387183T>C	uc003eyg.2	-	12	1456	c.1399A>G	c.(1399-1401)ACT>GCT	p.T467A	FAM194A_uc003eyh.2_Missense_Mutation_p.T321A	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	467										skin(2)|ovary(1)	3						ACTATACAAGTAAAACCATTT	0.433													21	51					0	0	0.003954	0	0		C	150387183	C	C	150387183	3	2	12	1	0	0	0	0	1	0	0	0	5537	1638	57	3	604	3	FAM194A	3	150387183	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1489807	150387183	47635247	281	9756											
DHX36	170506	broad.mit.edu	37	chr3	154011567	154011567	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgttggtagcaattactAttttccgaacaccaggaggg	12	11	10	8	1	0	0	0	0	0	0	1	2	1	1	2	3	3	3	2	3	6	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:154011567A>T	uc003ezy.3	-	14	1721	c.1640T>A	c.(1639-1641)ATA>AAA	p.I547K	DHX36_uc010hvq.2_Missense_Mutation_p.I533K|DHX36_uc003ezz.3_Missense_Mutation_p.I547K	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	547	Helicase C-terminal.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			AGCAATTACTATTTTCCGAAC	0.284													8	39					0	0	0.001368	0	0		T	154011567	T	T	154011567	3	4	12	1	0	0	0	0	1	0	0	0	4515	449	16	5	1434	5	DHX36	3	154011567	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	3624384	154011567	44010863	282	9757											
MLF1	4291	broad.mit.edu	37	chr3	158310241	158310241	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgagtccattcttgcacaCcgagaaaatatgcgacagat	14	9	9	9	2	1	3	0	1	1	2	2	5	2	3	2	0	2	1	2	0	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:158310241C>T	uc003fcb.2	+	2	203	c.66C>T	c.(64-66)CAC>CAT	p.H22H	MLF1_uc003fbz.2_5'UTR|MLF1_uc003fca.2_5'UTR|MLF1_uc003fbx.2_5'UTR|MLF1_uc003fcc.2_Silent_p.H38H|MLF1_uc003fby.2_5'UTR|MLF1_uc010hvx.2_5'UTR	NM_022443	NP_071888	P58340	MLF1_HUMAN	myeloid leukemia factor 1 isoform 1	22					cell cycle arrest|myeloid progenitor cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein domain specific binding				0		Melanoma(1037;0.000458)|Prostate(884;0.0235)|all_neural(597;0.0299)	Lung(72;0.00199)|LUSC - Lung squamous cell carcinoma(72;0.00256)			TTCTTGCACACCGAGAAAATA	0.358			T	NPM1	AML								12	42					0	0	0.001368	0	0		T	158310241	T	T	158310241	2	4	12	1	0	0	0	0	0	0	0	1	9632	506	18	4		4	MLF1	3	158310241	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4298674	158310241	39712189	283	9758											
MLF1	4291	broad.mit.edu	37	chr3	158310320	158310320	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagtatctctgatggtagaGggagagctcataatcgtaga	12	11	12	6	1	3	4	2	1	1	3	5	5	3	4	0	2	1	4	0	2	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:158310320G>T	uc003fcb.2	+	2	282	c.145G>T	c.(145-147)GGG>TGG	p.G49W	MLF1_uc003fbz.2_Missense_Mutation_p.G24W|MLF1_uc003fca.2_Missense_Mutation_p.G24W|MLF1_uc003fbx.2_Missense_Mutation_p.G24W|MLF1_uc003fcc.2_Missense_Mutation_p.G65W|MLF1_uc003fby.2_Translation_Start_Site|MLF1_uc010hvx.2_Missense_Mutation_p.G24W	NM_022443	NP_071888	P58340	MLF1_HUMAN	myeloid leukemia factor 1 isoform 1	49					cell cycle arrest|myeloid progenitor cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein domain specific binding				0		Melanoma(1037;0.000458)|Prostate(884;0.0235)|all_neural(597;0.0299)	Lung(72;0.00199)|LUSC - Lung squamous cell carcinoma(72;0.00256)			TGATGGTAGAGGGAGAGCTCA	0.403			T	NPM1	AML								15	60					5.01169e-05	5.33616e-05	0.00499	1	0		T	158310320	T	T	158310320	3	4	12	1	0	0	0	0	1	0	0	0	9632	1000	35	5	151	5	MLF1	3	158310320	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	79	158310320	39712110	284	9759											
WDR49	151790	broad.mit.edu	37	chr3	167250683	167250683	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttacctaattttgactttagCaacctctggtaatcagggtg	10	15	8	8	0	2	1	1	1	1	0	2	1	2	1	2	2	3	2	2	2	5	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:167250683C>A	uc003fev.1	-	8	1287	c.981G>T	c.(979-981)TTG>TTT	p.L327F	WDR49_uc003feu.1_Missense_Mutation_p.L152F|WDR49_uc011bpd.1_Missense_Mutation_p.L391F|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	327										large_intestine(1)|ovary(1)|skin(1)	3						TTGACTTTAGCAACCTCTGGT	0.418													7	32					0.000157383	0.000166276	0.00308	1	0		A	167250683	A	A	167250683	3	1	12	1	0	0	0	0	1	0	0	0	17328	709	25	5	1144	5	WDR49	3	167250683	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	8940363	167250683	30771747	285	9760											
SLC2A2	6514	broad.mit.edu	37	chr3	170727811	170727811	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagatggtcccaattttgaAaaccccatcaagagagctcc	13	9	8	11	0	1	3	1	2	0	2	3	5	3	3	4	1	2	1	4	1	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:170727811A>G	uc003fhe.1	-	4	741	c.432T>C	c.(430-432)TTT>TTC	p.F144F	SLC2A2_uc003fhf.1_Intron|SLC2A2_uc011bpu.1_Silent_p.F17F	NM_000340	NP_000331	P11168	GTR2_HUMAN	solute carrier family 2 (facilitated glucose	144	Helical; Name=3; (Potential).				carbohydrate metabolic process|cellular lipid metabolic process|endocrine pancreas development|energy reserve metabolic process|regulation of insulin secretion	integral to plasma membrane|membrane fraction	D-glucose transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2	all_cancers(22;1.41e-19)|all_lung(20;1.59e-15)|Lung NSC(18;7.08e-15)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;1.1e-14)|Lung(28;2.99e-14)			CCAATTTTGAAAACCCCATCA	0.289													8	42					0	0	0.006214	0	0		G	170727811	G	G	170727811	2	3	12	1	0	0	0	0	0	0	0	1	14569	11	1	3		3	SLC2A2	3	170727811	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	3477128	170727811	27294619	286	9761											
ECT2	1894	broad.mit.edu	37	chr3	172486914	172486914	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaagtaattatgttaataTattggcaacaattattcagg	16	15	7	3	0	1	1	1	1	0	0	1	1	1	1	0	2	1	3	0	2	9	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:172486914T>C	uc003fii.2	+	12	1454	c.1316T>C	c.(1315-1317)ATA>ACA	p.I439T	ECT2_uc010hwv.1_Missense_Mutation_p.I470T|ECT2_uc003fih.2_Missense_Mutation_p.I438T|ECT2_uc003fij.1_Missense_Mutation_p.I439T|ECT2_uc003fik.1_Missense_Mutation_p.I439T|ECT2_uc003fil.1_Missense_Mutation_p.I470T	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	439	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			TATGTTAATATATTGGCAACA	0.333													7	54					0	0	0.004482	0	0		C	172486914	C	C	172486914	3	2	12	1	0	0	0	0	1	0	0	0	4907	1406	49	3	1358	3	ECT2	3	172486914	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1759103	172486914	25535516	287	9762											
EHHADH	1962	broad.mit.edu	37	chr3	184910379	184910379	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgtgatgggtttttctatAccgtgataggaatttggaaa	12	15	11	3	1	1	2	0	2	1	0	1	4	1	4	1	3	1	1	1	3	6	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:184910379A>G	uc003fpf.2	-	7	1834	c.1807T>C	c.(1807-1809)TAT>CAT	p.Y603H	EHHADH_uc011brs.1_Missense_Mutation_p.Y507H	NM_001966	NP_001957	Q08426	ECHP_HUMAN	enoyl-Coenzyme A, hydratase/3-hydroxyacyl	603						peroxisome	3-hydroxyacyl-CoA dehydrogenase activity|coenzyme binding|dodecenoyl-CoA delta-isomerase activity|enoyl-CoA hydratase activity			ovary(3)	3	all_cancers(143;4.04e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.98e-32)|OV - Ovarian serous cystadenocarcinoma(80;5.55e-21)		NADH(DB00157)	GTTTTTCTATACCGTGATAGG	0.433													3	86					0	0	0.009096	0	0		G	184910379	G	G	184910379	3	3	12	1	0	0	0	0	1	0	0	0	4988	391	14	3	368	3	EHHADH	3	184910379	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	12423465	184910379	13112051	288	9763											
TRA2B	6434	broad.mit.edu	37	chr3	185636197	185636197	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtgatctgtatcctccaCgactatagtaaggagaaggt	13	10	10	8	2	1	2	0	1	1	1	3	4	3	2	2	2	1	2	2	2	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:185636197C>T	uc003fpv.2	-	8	1088	c.812G>A	c.(811-813)CGT>CAT	p.R271H	TRA2B_uc003fpt.2_RNA|TRA2B_uc003fpu.2_RNA|TRA2B_uc010hym.2_Missense_Mutation_p.R171H|TRA2B_uc003fpw.2_Missense_Mutation_p.R251H	NM_004593	NP_004584	P62995	TRA2B_HUMAN	splicing factor, arginine/serine-rich 10	271	Arg/Ser-rich (RS2 domain).				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)	2						GTATCCTCCACGACTATAGTA	0.353													14	67					0	0	0.004007	0	0		T	185636197	T	T	185636197	3	4	12	1	0	0	0	0	1	0	0	0	16460	536	19	1	62	1	TRA2B	3	185636197	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	725818	185636197	12386233	289	9764											
TP63	8626	broad.mit.edu	37	chr3	189526151	189526151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccctataacacagaccacGcgcagaacagcgtcacggcg	12	4	10	15	5	1	2	1	0	0	2	2	2	2	2	2	1	3	1	2	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:189526151G>A	uc003fry.2	+	4	504	c.415G>A	c.(415-417)GCG>ACG	p.A139T	TP63_uc003frx.2_Missense_Mutation_p.A139T|TP63_uc003frz.2_Missense_Mutation_p.A139T|TP63_uc010hzc.1_Missense_Mutation_p.A139T|TP63_uc003fsa.2_Missense_Mutation_p.A45T|TP63_uc003fsb.2_Missense_Mutation_p.A45T|TP63_uc003fsc.2_Missense_Mutation_p.A45T|TP63_uc003fsd.2_Missense_Mutation_p.A45T|TP63_uc010hzd.1_Intron|TP63_uc003fse.1_Missense_Mutation_p.A20T	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	139					anti-apoptosis|cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		CACAGACCACGCGCAGAACAG	0.617									Hay-Wells_syndrome	HNSCC(45;0.13)			11	40					0	0	0.001855	0	0		A	189526151	A	A	189526151	3	1	12	1	0	0	0	0	1	0	0	0	16418	1087	38	1	475	1	TP63	3	189526151	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3889954	189526151	8496279	290	9765											
CLDN16	10686	broad.mit.edu	37	chr3	190127802	190127802	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacagagacggccaaaatgTatgctgtagacacaagggtg	14	6	13	8	1	0	2	0	0	0	2	0	3	0	2	1	2	1	4	1	2	5	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:190127802T>C	uc003fsi.2	+	5	963	c.895T>C	c.(895-897)TAT>CAT	p.Y299H	CLDN16_uc010hze.2_3'UTR	NM_006580	NP_006571	Q9Y5I7	CLD16_HUMAN	claudin 16	299	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|cellular metal ion homeostasis|excretion	integral to membrane|tight junction	identical protein binding|magnesium ion transmembrane transporter activity|structural molecule activity			ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.018)		GGCCAAAATGTATGCTGTAGA	0.428													9	58					0	0	0.008291	0	0		C	190127802	C	C	190127802	3	2	12	1	0	0	0	0	1	0	0	0	3480	1638	57	3	913	3	CLDN16	3	190127802	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	601651	190127802	7894628	291	9766											
C3orf34	84984	broad.mit.edu	37	chr3	196435397	196435397	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaagataagacatgaggtAcctgaaaactttgaaaagtt	17	9	10	5	0	0	5	0	3	0	2	0	5	0	5	1	2	2	3	1	2	7	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:196435397A>G	uc011btw.1	-	2	524	c.142_splice	c.e2+1	p.D48_splice		NM_032898	NP_116287	Q96LK0	CEP19_HUMAN	hypothetical protein LOC84984							centriole|spindle pole					0	all_cancers(143;1.48e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;1.08e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00301)		GACATGAGGTACCTGAAAACT	0.284													18	63					0	0	0.00499	0	0		G	196435397	G	G	196435397	5	3	12	1	0	0	0	0	0	0	1	0	2227	405	14	3	367	3	C3orf34	3	196435397	Splice_Site	SNP	A	TCGA-BR-4257-01A-01D-1126-08	6307595	196435397	1587033	292	9767											
DLG1	1739	broad.mit.edu	37	chr3	196867105	196867105	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgggttgtccgtacctcCtgcaatgctgaaaccaagcc	8	10	11	12	1	0	1	0	1	0	0	2	1	2	1	5	1	5	4	5	1	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr3:196867105C>A	uc003fxo.3	-	9	908	c.718G>T	c.(718-720)GGA>TGA	p.G240*	DLG1_uc011bub.1_Nonsense_Mutation_p.G124*|DLG1_uc011buc.1_Nonsense_Mutation_p.G124*|DLG1_uc011bud.1_Translation_Start_Site|DLG1_uc003fxn.3_Nonsense_Mutation_p.G240*|DLG1_uc011bue.1_Nonsense_Mutation_p.G207*|DLG1_uc010ial.2_Nonsense_Mutation_p.G240*|DLG1_uc011buf.1_RNA|DLG1_uc003fxp.2_RNA|DLG1_uc010iam.1_Nonsense_Mutation_p.G207*|DLG1_uc010ian.2_Nonsense_Mutation_p.G107*	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	240	PDZ 1.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		TCCGTACCTCCTGCAATGCTG	0.418													16	85					3.52763e-06	3.80349e-06	0.00499	1	0		A	196867105	A	A	196867105	4	1	12	1	0	0	0	0	0	1	0	0	4560	690	24	5	2172	5	DLG1	3	196867105	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	431708	196867105	1155325	293	9768											
PDE6B	5158	broad.mit.edu	37	chr4	628573	628573	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtggcggtgatcatggcAgtgaacaagctcaacggccc	9	7	14	11	3	2	2	2	2	0	0	3	2	2	2	1	4	3	2	1	4	3	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:628573A>C	uc003gap.2	+	2	629	c.576A>C	c.(574-576)GCA>GCC	p.A192A	PDE6B_uc003gao.3_Silent_p.A192A	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	192	GAF 1.				cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						TGATCATGGCAGTGAACAAGC	0.488													7	24					0	0	0.001984	0	0		C	628573	C	C	628573	2	2	12	1	0	0	0	0	0	0	0	1	11665	175	7	5		5	PDE6B	4	628573	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08		628573	190525703	294	9769											
ZFYVE28	57732	broad.mit.edu	37	chr4	2339147	2339147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctcacctctccaccgtctCgcagaagagcacgatgacct	9	8	8	16	3	3	3	1	1	2	2	5	4	3	3	4	0	2	3	4	0	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:2339147C>T	uc003gex.1	-	5	917	c.598G>A	c.(598-600)GAG>AAG	p.E200K	ZFYVE28_uc011bvk.1_Missense_Mutation_p.E130K|ZFYVE28_uc011bvl.1_Missense_Mutation_p.E200K|ZFYVE28_uc003gey.3_Missense_Mutation_p.E130K|ZFYVE28_uc003gez.2_Missense_Mutation_p.E153K|ZFYVE28_uc003gew.1_Missense_Mutation_p.E86K	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	200					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						TCCACCGTCTCGCAGAAGAGC	0.637													5	4					0	0	0.00308	0	0		T	2339147	T	T	2339147	3	4	12	1	0	0	0	0	1	0	0	0	17695	893	31	1	2321	1	ZFYVE28	4	2339147	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1710574	2339147	188815129	295	9770											
RGS12	6002	broad.mit.edu	37	chr4	3319285	3319285	+	Frame_Shift_Del	DEL	G	-	-																															gtgggacggtgtgggtgggaGgggtgcccagccctggggtg																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:3319285delG	uc003ggw.2	+	2	2292	c.1388delG	c.(1387-1389)AGGfs	p.R463fs	RGS12_uc003ggu.2_Frame_Shift_Del_p.R463fs|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Frame_Shift_Del_p.R463fs|RGS12_uc003ggx.1_Frame_Shift_Del_p.R463fs	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	463						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GTGGGTGGGAGGGGTGCCCAG	0.687													9	20	---	---	---	---						.	-	3319285	-	-	3319285	7	5	12	1	0	1	0	1	0	0	0	0	13320	1000	35	0	1390	0	RGS12	4	3319285	Frame_Shift_Del	DEL	G	TCGA-BR-4257-01A-01D-1126-08	980138	3319285	187834991	296	9771											
RGS12	6002	broad.mit.edu	37	chr4	3430399	3430399	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctattgcaaagattgggAaaaaaaaatatcagaaaatt	22	10	6	3	0	2	2	1	0	1	2	2	3	2	3	0	1	1	1	0	1	10	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:3430399A>G	uc003ggw.2	+	16	4430	c.3526A>G	c.(3526-3528)AAA>GAA	p.K1176E	RGS12_uc003ggv.2_Missense_Mutation_p.K1176E|RGS12_uc003ggy.1_Intron|RGS12_uc003ggz.2_Missense_Mutation_p.K528E|RGS12_uc011bvs.1_Intron|RGS12_uc003gha.2_Missense_Mutation_p.K518E|RGS12_uc010icv.2_Missense_Mutation_p.K375E	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	1176						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		AAAGATTGGGAAAAAAAAATA	0.328													11	34					0	0	0.000978	0	0		G	3430399	G	G	3430399	3	3	12	1	0	0	0	0	1	0	0	0	13320	247	9	3	3642	3	RGS12	4	3430399	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	111114	3430399	187723877	297	9772											
EVC	2121	broad.mit.edu	37	chr4	5720985	5720985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggttttagaaagacgacaCtcaaaatctgctcaagaatt	15	10	8	8	2	3	3	2	0	1	3	3	4	3	3	0	1	1	2	0	1	6	3	rs147280107		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:5720985C>T	uc003gil.1	+	2	369	c.185C>T	c.(184-186)ACT>ATT	p.T62I	EVC_uc003gim.1_RNA	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	62					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				AAAGACGACACTCAAAATCTG	0.517													20	58					0	0	0.003954	0	0		T	5720985	T	T	5720985	3	4	12	1	0	0	0	0	1	0	0	0	5293	565	20	4	191	4	EVC	4	5720985	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2290586	5720985	185433291	298	9773											
GRPEL1	80273	broad.mit.edu	37	chr4	7064112	7064112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgttatgttgaaagtacCgtataattttgcctcctcca	10	15	6	10	1	0	1	0	1	0	0	2	1	2	1	5	0	2	4	5	0	5	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:7064112C>T	uc003gjy.1	-	3	348	c.307G>A	c.(307-309)GGC>AGC	p.G103S	GRPEL1_uc003gjz.1_Missense_Mutation_p.G103S	NM_025196	NP_079472	Q9HAV7	GRPE1_HUMAN	GrpE-like 1, mitochondrial precursor	103					protein folding|protein import into mitochondrial matrix	mitochondrial matrix	adenyl-nucleotide exchange factor activity|chaperone binding|protein homodimerization activity|unfolded protein binding				0						TTGAAAGTACCGTATAATTTT	0.458													25	56					0	0	0.002096	0	0		T	7064112	T	T	7064112	3	4	12	1	0	0	0	0	1	0	0	0	6822	666	23	1	354	1	GRPEL1	4	7064112	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1343127	7064112	184090164	299	9774											
RBPJ	3516	broad.mit.edu	37	chr4	26431567	26431567	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagatgataaatgatggCgcttcctggacaatcattag	15	10	10	6	1	1	3	1	2	0	1	2	5	2	4	1	2	0	1	1	2	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:26431567C>T	uc003grx.1	+	10	1211	c.975C>T	c.(973-975)GGC>GGT	p.G325G	RBPJ_uc003gry.1_Silent_p.G310G|RBPJ_uc003grz.1_Silent_p.G325G|RBPJ_uc011bxt.1_Silent_p.G325G|RBPJ_uc003gsa.1_Silent_p.G311G|RBPJ_uc003gsb.1_Silent_p.G312G|RBPJ_uc003gsc.1_Silent_p.G311G	NM_005349	NP_005340	Q06330	SUH_HUMAN	recombining binding protein suppressor of	325					DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)				TAAATGATGGCGCTTCCTGGA	0.403													10	35					0	0	0.001368	0	0		T	26431567	T	T	26431567	2	4	12	1	0	0	0	0	0	0	0	1	13186	755	27	1		1	RBPJ	4	26431567	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	19367455	26431567	164722709	300	9775											
ARAP2	116984	broad.mit.edu	37	chr4	36231150	36231150	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagttacaaaaagtggcaCgatgagacacacacacaaga	18	5	9	9	1	0	3	0	2	0	2	0	5	0	3	0	1	1	2	0	1	4	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:36231150C>T	uc003gsq.1	-	2	297	c.-41G>A	c.(-43--39)TCGTG>TCATG		ARAP2_uc003gsr.1_Translation_Start_Site	NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH						regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						AAAAGTGGCACGATGAGACAC	0.348													10	18					0	0	0.006214	0	0		T	36231150	T	T	36231150	1	4	12	1	0	0	0	0	0	0	0	0	839	551	19	1		1	ARAP2	4	36231150	Translation_Start_Site	SNP	C	TCGA-BR-4257-01A-01D-1126-08	9799583	36231150	154923126	301	9776											
PHOX2B	8929	broad.mit.edu	37	chr4	41749473	41749473	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagctctttgagctgggCactggtgaaagtggtgcgga	7	11	15	8	1	1	2	0	2	1	0	2	3	2	3	1	4	3	3	1	4	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:41749473C>A	uc003gwf.3	-	2	682	c.322G>T	c.(322-324)GCC>TCC	p.A108S		NM_003924	NP_003915	Q99453	PHX2B_HUMAN	paired-like homeobox 2b	108	Homeobox.				positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			autonomic_ganglia(7)|lung(2)|ovary(2)|central_nervous_system(1)	12						TTGAGCTGGGCACTGGTGAAA	0.587			Mis|F		neuroblastoma	neuroblastoma	congenital central hypoventilation syndrome		Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				9	23					2.74318e-10	3.0667e-10	0.006214	1	0		A	41749473	A	A	41749473	3	1	12	1	0	0	0	0	1	0	0	0	11878	710	25	5	630	5	PHOX2B	4	41749473	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	5518323	41749473	149404803	302	9777											
ATP8A1	10396	broad.mit.edu	37	chr4	42580304	42580304	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaagtatgcctgggtaaaTttcacaacttctaatgtaac	14	13	7	7	0	2	1	1	1	1	0	2	1	2	1	1	1	3	3	1	1	7	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:42580304T>C	uc003gwr.2	-	12	1333	c.1101A>G	c.(1099-1101)AAA>AAG	p.K367K	ATP8A1_uc003gws.2_Silent_p.K367K|ATP8A1_uc011byz.1_Silent_p.K367K	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	367	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	CCTGGGTAAATTTCACAACTT	0.328													8	25					0	0	0.00308	0	0		C	42580304	C	C	42580304	2	2	12	1	0	0	0	0	0	0	0	1	1193	1490	52	3		3	ATP8A1	4	42580304	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	830831	42580304	148573972	303	9778											
FRYL	285527	broad.mit.edu	37	chr4	48545976	48545976	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggaaagtgctgtttgcaGagcaacttcactaagatgat	14	10	10	7	0	1	3	1	1	0	2	1	4	1	4	0	1	4	4	0	1	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:48545976G>T	uc003gyh.1	-	44	6045	c.5440C>A	c.(5440-5442)CTG>ATG	p.L1814M	FRYL_uc003gyg.1_Missense_Mutation_p.L510M|FRYL_uc003gyi.1_Missense_Mutation_p.L702M|FRYL_uc003gyj.1_Missense_Mutation_p.L109M	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	1814					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						GCTGTTTGCAGAGCAACTTCA	0.418													11	30					6.42651e-13	7.27983e-13	0.000978	1	0		T	48545976	T	T	48545976	3	4	12	1	0	0	0	0	1	0	0	0	6078	933	33	5	3685	5	FRYL	4	48545976	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5965672	48545976	142608300	304	9779											
SPATA18	132671	broad.mit.edu	37	chr4	52917801	52917801	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccatatcaccccacggtcCtgcggaggccaccgcctggt	6	6	11	18	4	1	0	1	0	0	0	2	1	2	1	7	4	1	0	7	4	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:52917801C>A	uc003gzl.2	+	1	209	c.-69C>A	c.(-71--67)TCCTG>TCATG		SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Translation_Start_Site|SPATA18_uc003gzk.1_Translation_Start_Site	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog						mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			CCCCACGGTCCTGCGGAGGCC	0.647													14	25					6.31663e-08	6.9366e-08	0.003163	1	0		A	52917801	A	A	52917801	1	1	12	1	0	0	0	0	0	0	0	0	15028	696	24	5		5	SPATA18	4	52917801	Translation_Start_Site	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4371825	52917801	138236475	305	9780											
USP46	64854	broad.mit.edu	37	chr4	53492381	53492381	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaataatttaaaaattcaTgagcatcctgctgcatgtag	15	12	7	7	0	1	1	1	1	0	0	2	1	2	1	1	0	3	5	1	0	6	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:53492381T>C	uc003gzn.2	-	4	550	c.365A>G	c.(364-366)CAT>CGT	p.H122R	USP46_uc003gzm.3_Missense_Mutation_p.H115R|USP46_uc011bzr.1_Missense_Mutation_p.H99R|USP46_uc011bzs.1_Missense_Mutation_p.H6R	NM_022832	NP_073743	P62068	UBP46_HUMAN	ubiquitin specific peptidase 46 isoform 1	122					behavior|protein deubiquitination|regulation of synaptic transmission, GABAergic|ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0295)			TAAAAATTCATGAGCATCCTG	0.348													11	22					0	0	0.001855	0	0		C	53492381	C	C	53492381	3	2	12	1	0	0	0	0	1	0	0	0	17103	1464	51	3	759	3	USP46	4	53492381	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	574580	53492381	137661895	306	9781											
NMU	10874	broad.mit.edu	37	chr4	56471505	56471505	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgagctgcagcaacggatgCacaactgacgactgagagga	14	4	13	10	3	0	2	0	2	0	1	0	7	0	4	0	2	6	4	0	2	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:56471505C>T	uc003hbc.2	-	7	478	c.372G>A	c.(370-372)GTG>GTA	p.V124V	NMU_uc003hbd.1_Intron|NMU_uc010igv.1_RNA|NMU_uc010igw.1_Silent_p.V39V|NMU_uc010igx.1_Intron	NM_006681	NP_006672	P48645	NMU_HUMAN	neuromedin U precursor	124					neuropeptide signaling pathway	extracellular region					0	Lung NSC(11;0.00256)|all_epithelial(27;0.075)|Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.103)	LUSC - Lung squamous cell carcinoma(4;6.72e-08)|Lung(4;6.22e-07)|Epithelial(7;0.00559)	LUSC - Lung squamous cell carcinoma(721;0.0115)		GCAACGGATGCACAACTGACG	0.463													16	45					0	0	0.00278	0	0		T	56471505	T	T	56471505	2	4	12	1	0	0	0	0	0	0	0	1	10524	697	25	2		2	NMU	4	56471505	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2979124	56471505	134682771	307	9782											
UBA6	55236	broad.mit.edu	37	chr4	68492086	68492086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attttcccttacttttggtgGcttcattagataaaatagcc	10	17	6	8	0	1	1	1	0	0	1	2	1	2	1	2	2	2	1	2	2	5	9			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:68492086G>A	uc003hdg.3	-	28	2562	c.2510C>T	c.(2509-2511)GCC>GTC	p.A837V		NM_018227	NP_060697	A0AVT1	UBA6_HUMAN	ubiquitin-activating enzyme E1-like 2	837					protein ubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm	ATP binding|FAT10 activating enzyme activity|ligase activity|protein binding				0						ACTTTTGGTGGCTTCATTAGA	0.333													9	18					0	0	0.004482	0	0		A	68492086	A	A	68492086	3	1	12	1	0	0	0	0	1	0	0	0	16858	1203	42	2	672	2	UBA6	4	68492086	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	12020581	68492086	122662190	308	9783											
SULT1E1	6783	broad.mit.edu	37	chr4	70723269	70723269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctggtcttgcctggaacgCttccacattatcccaatatt	9	14	6	12	1	2	0	0	0	2	0	4	1	4	1	3	2	2	1	3	2	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:70723269C>T	uc003heo.2	-	2	207	c.94G>A	c.(94-96)GCG>ACG	p.A32T	SULT1E1_uc010ihv.1_Missense_Mutation_p.A32T	NM_005420	NP_005411	P49888	ST1E1_HUMAN	estrogen sulfotransferase	32					3'-phosphoadenosine 5'-phosphosulfate metabolic process|sulfation|xenobiotic metabolic process	cytosol|nuclear membrane	estrone sulfotransferase activity|flavonol 3-sulfotransferase activity|steroid binding|steroid sulfotransferase activity			ovary(1)	1						GCCTGGAACGCTTCCACATTA	0.348													12	34					0	0	0.001368	0	0		T	70723269	T	T	70723269	3	4	12	1	0	0	0	0	1	0	0	0	15405	797	28	2	818	2	SULT1E1	4	70723269	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2231183	70723269	120431007	309	9784											
MUC7	4589	broad.mit.edu	37	chr4	71346558	71346558	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcatgaactacgtcacagaAggcatcatcaccaatcaccc	15	7	5	14	1	5	2	5	1	0	1	5	2	5	2	2	1	2	1	2	1	4	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:71346558A>C	uc011cat.1	+	4	385	c.97A>C	c.(97-99)AGG>CGG	p.R33R	MUC7_uc011cau.1_Silent_p.R33R|MUC7_uc003hfj.2_Silent_p.R33R|uc011cav.1_RNA	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	33						extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			ACGTCACAGAAGGCATCATCA	0.303													26	84					0	0	0.007291	0	0		C	71346558	C	C	71346558	2	2	12	1	0	0	0	0	0	0	0	1	9999	63	3	5		5	MUC7	4	71346558	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	623289	71346558	119807718	310	9785											
PF4V1	5197	broad.mit.edu	37	chr4	74719777	74719777	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgctgaagaatgggaggaaaAtttgcttggatctgcaagcc	12	9	13	7	1	1	2	0	1	1	1	1	5	1	5	1	3	3	3	1	3	5	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:74719777A>T	uc003hhg.1	+	3	320	c.253A>T	c.(253-255)ATT>TTT	p.I85F		NM_002620	NP_002611	P10720	PF4V_HUMAN	platelet factor 4 variant 1	85					immune response	extracellular region	chemokine activity|heparin binding				0	Breast(15;0.00102)		all cancers(17;0.00176)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)			TGGGAGGAAAATTTGCTTGGA	0.463													14	41					0	0	0.003163	0	0		T	74719777	T	T	74719777	3	4	12	1	0	0	0	0	1	0	0	0	11772	101	4	5	263	5	PF4V1	4	74719777	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	3373219	74719777	116434499	311	9786											
G3BP2	9908	broad.mit.edu	37	chr4	76570792	76570792	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattgcgcctaatatccctgCgatcatcaccaccacctctg	9	10	5	17	2	3	0	2	0	1	0	4	1	4	0	5	0	2	0	5	0	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:76570792C>A	uc003hir.2	-	12	1436	c.1271G>T	c.(1270-1272)CGC>CTC	p.R424L	G3BP2_uc003his.2_Missense_Mutation_p.R424L|G3BP2_uc003hit.2_Missense_Mutation_p.R391L	NM_012297	NP_036429	Q9UN86	G3BP2_HUMAN	Ras-GTPase activating protein SH3 domain-binding	424	Gly-rich.				cytoplasmic sequestering of NF-kappaB|mRNA transport|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	GTPase activator activity|nucleotide binding|receptor signaling complex scaffold activity|RNA binding			breast(2)|central_nervous_system(1)	3			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			AATATCCCTGCGATCATCACC	0.498													10	40					9.31168e-06	1.00161e-05	0.001855	1	0		A	76570792	A	A	76570792	3	1	12	1	0	0	0	0	1	0	0	0	6156	768	27	5	181	5	G3BP2	4	76570792	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1851015	76570792	114583484	312	9787											
PPEF2	5470	broad.mit.edu	37	chr4	76797721	76797721	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagcggctttcggggagaaAccatgggatgggtccctgtg	8	8	17	8	2	0	2	0	0	0	2	2	4	1	3	2	5	2	1	2	5	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:76797721A>G	uc003hix.2	-	11	1396	c.1039T>C	c.(1039-1041)TTT>CTT	p.F347L	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Missense_Mutation_p.F347L	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	347	Catalytic.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TCGGGGAGAAACCATGGGATG	0.572													4	10					0	0	0.000602	0	0		G	76797721	G	G	76797721	3	3	12	1	0	0	0	0	1	0	0	0	12327	43	2	3	1250	3	PPEF2	4	76797721	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	226929	76797721	114356555	313	9788											
PDLIM5	10611	broad.mit.edu	37	chr4	95496980	95496980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccttcacccgtggctgccGtcactcctcccctgttcgct	2	11	7	21	3	2	0	2	0	0	0	5	0	4	0	7	1	1	3	7	1	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:95496980G>A	uc003hti.2	+	5	656	c.505G>A	c.(505-507)GTC>ATC	p.V169I	PDLIM5_uc003htf.2_Intron|PDLIM5_uc003htg.2_Intron|PDLIM5_uc011cdx.1_Intron|PDLIM5_uc003hth.2_Intron|PDLIM5_uc003htj.2_Intron|PDLIM5_uc003htk.2_Intron|PDLIM5_uc011cdy.1_Missense_Mutation_p.V47I	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	169					regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		CGTGGCTGCCGTCACTCCTCC	0.547													21	23					0	0	0.003954	0	0		A	95496980	A	A	95496980	3	1	12	1	0	0	0	0	1	0	0	0	11702	1145	40	1	519	1	PDLIM5	4	95496980	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	18699259	95496980	95657296	314	9789											
GSTCD	79807	broad.mit.edu	37	chr4	106746920	106746920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacatttggttcattcaagCaaatatggaatattttactg	14	15	6	6	0	2	0	2	0	0	0	2	1	2	1	0	2	3	2	0	2	7	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:106746920C>T	uc003hxz.3	+	8	1565	c.1493C>T	c.(1492-1494)GCA>GTA	p.A498V	GSTCD_uc003hxy.3_Missense_Mutation_p.A411V|GSTCD_uc011cfb.1_Missense_Mutation_p.A121V	NM_001031720	NP_001026890	Q8NEC7	GSTCD_HUMAN	glutathione S-transferase, C-terminal domain	498						cytoplasm	rRNA methyltransferase activity			breast(1)|central_nervous_system(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.15e-07)|READ - Rectum adenocarcinoma(30;0.139)		TTCATTCAAGCAAATATGGAA	0.274													7	45					0	0	0.00308	0	0		T	106746920	T	T	106746920	3	4	12	1	0	0	0	0	1	0	0	0	6851	710	25	2	1519	2	GSTCD	4	106746920	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	11249940	106746920	84407356	315	9790											
TBCK	93627	broad.mit.edu	37	chr4	107170076	107170076	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagacccagattaatgacaaAcctttataatgtccaaacaa	19	9	4	9	0	0	3	0	1	0	2	1	3	1	3	3	0	2	0	3	0	7	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:107170076A>G	uc010ilv.2	-	8	1085	c.720_splice	c.e8+1	p.K240_splice	TBCK_uc003hyb.2_5'Flank|TBCK_uc003hye.2_Splice_Site_p.K201_splice|TBCK_uc003hyc.2_Splice_Site_p.K177_splice|TBCK_uc003hyd.2_Splice_Site_p.K68_splice|TBCK_uc003hyf.2_Splice_Site_p.K240_splice	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like							intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						TTAATGACAAACCTTTATAAT	0.174													9	15					0	0	0.008291	0	0		G	107170076	G	G	107170076	5	3	12	1	0	0	0	0	0	0	1	0	15661	57	2	3	2035	3	TBCK	4	107170076	Splice_Site	SNP	A	TCGA-BR-4257-01A-01D-1126-08	423156	107170076	83984200	316	9791											
USP53	54532	broad.mit.edu	37	chr4	120177654	120177654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accttttacagaatttgtgcGgtacatttctacaacagcct	11	14	6	10	1	1	1	0	0	1	1	1	1	1	1	2	1	6	1	2	1	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:120177654G>A	uc003ics.3	+	8	1611	c.545G>A	c.(544-546)CGG>CAG	p.R182Q	USP53_uc003icr.3_Missense_Mutation_p.R182Q|USP53_uc003icu.3_5'UTR	NM_019050	NP_061923	Q70EK8	UBP53_HUMAN	ubiquitin specific protease 53	182					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			ovary(1)|breast(1)|kidney(1)|skin(1)	4						GAATTTGTGCGGTACATTTCT	0.308													11	38					0	0	0.000978	0	0		A	120177654	A	A	120177654	3	1	12	1	0	0	0	0	1	0	0	0	17110	1116	39	1	563	1	USP53	4	120177654	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	13007578	120177654	70976622	317	9792											
PDE5A	8654	broad.mit.edu	37	chr4	120419827	120419827	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttctgcaagggcctgccAtttctgcctgttctttctgc	3	16	9	13	0	4	0	0	0	4	0	4	0	4	0	3	1	4	3	3	1	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:120419827A>G	uc003idh.2	-	21	2712	c.2557T>C	c.(2557-2559)TGG>CGG	p.W853R	uc003ide.3_Intron|PDE5A_uc003idf.2_Missense_Mutation_p.W811R|PDE5A_uc003idg.2_Missense_Mutation_p.W801R	NM_001083	NP_001074	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 1	853	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)	AGGGCCTGCCATTTCTGCCTG	0.498													14	55					0	0	0.008871	0	0		G	120419827	G	G	120419827	3	3	12	1	0	0	0	0	1	0	0	0	11663	217	8	3	74	3	PDE5A	4	120419827	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	242173	120419827	70734449	318	9793											
PDE5A	8654	broad.mit.edu	37	chr4	120484020	120484020	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccactatgaaaatggtgcAtttctgcacttgcatgaaag	13	12	8	8	0	1	2	0	2	1	0	2	2	2	2	1	1	3	3	1	1	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:120484020A>G	uc003idh.2	-	6	1254	c.1099T>C	c.(1099-1101)TGC>CGC	p.C367R	PDE5A_uc003idf.2_Missense_Mutation_p.C325R|PDE5A_uc003idg.2_Missense_Mutation_p.C315R	NM_001083	NP_001074	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 1	367	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)	AAAATGGTGCATTTCTGCACT	0.318													19	28					0	0	0.00333	0	0		G	120484020	G	G	120484020	3	3	12	1	0	0	0	0	1	0	0	0	11663	217	8	3	1592	3	PDE5A	4	120484020	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	64193	120484020	70670256	319	9794											
KIAA1109	84162	broad.mit.edu	37	chr4	123227177	123227177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatagaccaattgtttatgCacagcctgtggcctttgata	11	13	9	8	0	0	2	0	1	0	1	0	3	0	2	3	1	2	2	3	1	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:123227177C>T	uc003ieh.2	+	55	9863	c.9818C>T	c.(9817-9819)GCA>GTA	p.A3273V	KIAA1109_uc003iel.1_Missense_Mutation_p.A1208V	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3273					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ATTGTTTATGCACAGCCTGTG	0.378													16	55					0	0	0.00499	0	0		T	123227177	T	T	123227177	3	4	12	1	0	0	0	0	1	0	0	0	8224	710	25	2	10036	2	KIAA1109	4	123227177	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2743157	123227177	67927099	320	9795											
FAT4	79633	broad.mit.edu	37	chr4	126373243	126373243	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagcaatgatggagttcacaGcacagtcacgagcaacatcc	14	7	9	11	1	2	1	2	1	0	0	3	3	3	2	1	1	4	4	1	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:126373243G>T	uc003ifj.3	+	9	11072	c.11072G>T	c.(11071-11073)AGC>ATC	p.S3691I	FAT4_uc011cgp.1_Missense_Mutation_p.S1989I|FAT4_uc003ifi.1_Missense_Mutation_p.S1169I	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3691	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GGAGTTCACAGCACAGTCACG	0.478													27	73					3.73148e-12	4.206e-12	0.007291	1	0		T	126373243	T	T	126373243	3	4	12	1	0	0	0	0	1	0	0	0	5706	971	34	5	11106	5	FAT4	4	126373243	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3146066	126373243	64781033	321	9796											
MFSD8	256471	broad.mit.edu	37	chr4	128861148	128861148	+	Frame_Shift_Del	DEL	A	-	-																															aggaatgtaaaacaagtctgAaaaacttattaagataaaat																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:128861148delA	uc003ifp.2	-	7	721	c.558delT	c.(556-558)TTTfs	p.F186fs	MFSD8_uc011cgu.1_Frame_Shift_Del_p.F141fs|MFSD8_uc011cgv.1_Frame_Shift_Del_p.F148fs|MFSD8_uc011cgw.1_RNA|MFSD8_uc011cgx.1_Intron	NM_152778	NP_689991	Q8NHS3	MFSD8_HUMAN	major facilitator superfamily domain containing	186	Helical; (Potential).				cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2						AACAAGTCTGAAAAACTTATT	0.308													13	27	---	---	---	---						.	-	128861148	-	-	128861148	7	5	12	1	0	1	0	1	0	0	0	0	9556	243	9	0	1026	0	MFSD8	4	128861148	Frame_Shift_Del	DEL	A	TCGA-BR-4257-01A-01D-1126-08	2487905	128861148	62293128	322	9797											
PCDH10	57575	broad.mit.edu	37	chr4	134071765	134071765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggcaccaactccttgcGcgactacgagatcaccccca	9	6	9	17	4	1	1	1	0	0	1	2	3	2	1	4	1	3	1	4	1	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:134071765G>A	uc003iha.2	+	1	1296	c.470G>A	c.(469-471)CGC>CAC	p.R157H	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.R157H	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	157	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AACTCCTTGCGCGACTACGAG	0.622													13	32					0	0	0.007413	0	0		A	134071765	A	A	134071765	3	1	12	1	0	0	0	0	1	0	0	0	11526	1087	38	1	472	1	PCDH10	4	134071765	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5210617	134071765	57082511	323	9798											
MAML3	55534	broad.mit.edu	37	chr4	140811854	140811854	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctcagggagcctaccatTcttacttagatcttctagaa	12	13	6	10	0	4	2	1	0	4	2	5	3	4	3	2	1	3	0	2	1	6	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:140811854T>C	uc003ihz.1	-	2	1488	c.736A>G	c.(736-738)AAT>GAT	p.N246D	MAML3_uc011chd.1_Intron	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	246					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					AGCCTACCATTCTTACTTAGA	0.478													15	57					0	0	0.004007	0	0		C	140811854	C	C	140811854	3	2	12	1	0	0	0	0	1	0	0	0	9225	1783	62	3	2688	3	MAML3	4	140811854	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	6740089	140811854	50342422	324	9799											
RPS3A	6189	broad.mit.edu	37	chr4	152024153	152024153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcagcaccaacaggtccGccaaatccggaagaagatga	14	5	10	12	2	1	3	1	1	0	2	3	4	3	4	4	2	3	2	4	2	4	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:152024153G>A	uc003ilz.2	+	4	536	c.485G>A	c.(484-486)CGC>CAC	p.R162H	RPS3A_uc011cie.1_Missense_Mutation_p.R162H|SNORD73A_uc003ima.1_5'Flank	NM_001006	NP_000997	P61247	RS3A_HUMAN	ribosomal protein S3a	162					cell differentiation|endocrine pancreas development|induction of apoptosis|translational elongation|translational initiation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome			ovary(1)	1	all_hematologic(180;0.093)					CAACAGGTCCGCCAAATCCGG	0.428													5	12					0	0	0.000602	0	0		A	152024153	A	A	152024153	3	1	12	1	0	0	0	0	1	0	0	0	13669	1087	38	1	499	1	RPS3A	4	152024153	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	11212299	152024153	39130123	325	9800											
PRSS48	345062	broad.mit.edu	37	chr4	152212409	152212409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctaccaaaaatggattaatgCcactatttcaagagccaaca	17	9	5	10	0	1	1	1	0	0	1	1	2	1	2	3	1	4	0	3	1	7	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:152212409C>T	uc011cif.1	+	5	791	c.791C>T	c.(790-792)GCC>GTC	p.A264V	PRSS48_uc011cig.1_Missense_Mutation_p.A121V	NM_183375	NP_899231	Q7RTY5	PRS48_HUMAN	epidermis-specific serine protease-like protein	264	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			large_intestine(1)	1						TGGATTAATGCCACTATTTCA	0.448													19	55					0	0	0.010504	0	0		T	152212409	T	T	152212409	3	4	12	1	0	0	0	0	1	0	0	0	12652	739	26	2	809	2	PRSS48	4	152212409	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	188256	152212409	38941867	326	9801											
FAM198B	51313	broad.mit.edu	37	chr4	159092437	159092437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctccgggtccttggacGccggctgctccagagcttac	4	11	12	14	3	1	1	0	0	1	1	4	2	3	2	4	3	3	4	4	3	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:159092437G>A	uc003ipp.3	-	2	543	c.91C>T	c.(91-93)CGT>TGT	p.R31C	uc003ipu.1_5'Flank|FAM198B_uc003ipq.3_Missense_Mutation_p.R31C|FAM198B_uc003ipr.3_Missense_Mutation_p.R31C|FAM198B_uc003ips.2_Missense_Mutation_p.R31C|uc003ipt.1_RNA	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	31	Cytoplasmic (Potential).					Golgi membrane|integral to membrane					0						GTCCTTGGACGCCGGCTGCTC	0.622													6	9					0	0	0.00308	0	0		A	159092437	A	A	159092437	3	1	12	1	0	0	0	0	1	0	0	0	5540	1087	38	1	1589	1	FAM198B	4	159092437	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6880028	159092437	32061839	327	9802											
RAPGEF2	9693	broad.mit.edu	37	chr4	160274685	160274685	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggcttatatgctacagctAcagtaatttcttctccaagc	11	13	7	10	0	2	0	0	0	2	0	3	1	2	0	1	1	5	4	1	1	6	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:160274685A>G	uc003iqg.3	+	22	3965	c.3655A>G	c.(3655-3657)ACA>GCA	p.T1219A		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1219					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		TGCTACAGCTACAGTAATTTC	0.463													5	54					0	0	0.001984	0	0		G	160274685	G	G	160274685	3	3	12	1	0	0	0	0	1	0	0	0	13069	391	14	3	3741	3	RAPGEF2	4	160274685	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1182248	160274685	30879591	328	9803											
ANP32C	23520	broad.mit.edu	37	chr4	165118603	165118603	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgccacttaaatatagatgCgtgaggtttggacacttttc	10	15	9	7	1	0	2	0	1	0	1	1	3	0	3	1	2	2	1	1	2	4	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:165118603C>T	uc011cjk.1	-	1	261	c.261G>A	c.(259-261)ACG>ACA	p.T87T	MARCH1_uc003iqs.1_Intron	NM_012403	NP_036535	O43423	AN32C_HUMAN	acidic nuclear phosphoprotein 32C	87	LRR 3.										0	all_hematologic(180;0.203)	Prostate(90;0.0138)|Melanoma(52;0.18)|all_neural(102;0.223)		KIRC - Kidney renal clear cell carcinoma(143;0.242)		AATATAGATGCGTGAGGTTTG	0.413													18	77					0	0	0.008871	0	0		T	165118603	T	T	165118603	2	4	12	1	0	0	0	0	0	0	0	1	707	755	27	1		1	ANP32C	4	165118603	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4843918	165118603	26035673	329	9804											
PALLD	23022	broad.mit.edu	37	chr4	169433418	169433418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggcagtgccacacaacCgcaagtctcacccacagccc	11	5	7	18	1	1	0	1	0	1	0	2	0	1	0	4	1	3	2	4	1	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:169433418C>T	uc011cjx.1	+	2	974	c.763C>T	c.(763-765)CGC>TGC	p.R255C	PALLD_uc003iru.2_Missense_Mutation_p.R255C	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2	255					cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)		GCCACACAACCGCAAGTCTCA	0.587									Pancreatic_Cancer_Familial_Clustering_of				12	38					0	0	0.001855	0	0		T	169433418	T	T	169433418	3	4	12	1	0	0	0	0	1	0	0	0	11426	652	23	1	765	1	PALLD	4	169433418	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4314815	169433418	21720858	330	9805											
AADAT	51166	broad.mit.edu	37	chr4	171009703	171009703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcgattttggtcctctgCtcaatatgtcagctacaata	10	15	6	10	1	4	0	3	0	1	0	6	1	5	0	1	1	3	2	1	1	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:171009703C>T	uc003isr.2	-	2	422	c.80G>A	c.(79-81)AGC>AAC	p.S27N	AADAT_uc003iss.2_Missense_Mutation_p.S27N|AADAT_uc003ist.2_Missense_Mutation_p.S31N	NM_016228	NP_057312	Q8N5Z0	AADAT_HUMAN	kynurenine aminotransferase II	27					2-oxoglutarate metabolic process|biosynthetic process|glutamate metabolic process|lysine catabolic process	mitochondrial matrix	2-aminoadipate transaminase activity|kynurenine-oxoglutarate transaminase activity|protein homodimerization activity				0		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0355)|LUSC - Lung squamous cell carcinoma(193;0.118)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	TGGTCCTCTGCTCAATATGTC	0.368													13	47					0	0	0.003163	0	0		T	171009703	T	T	171009703	3	4	12	1	0	0	0	0	1	0	0	0	14	797	28	2	1245	2	AADAT	4	171009703	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1576285	171009703	20144573	331	9806											
GALNTL6	442117	broad.mit.edu	37	chr4	173942662	173942662	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagagaagatattcgaccCggtgagccactgcatacccg	11	7	12	11	3	0	3	0	1	0	2	1	6	0	4	3	2	3	1	3	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:173942662C>T	uc003isv.2	+	12	2260	c.1524C>T	c.(1522-1524)CCC>CCT	p.P508P		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	508	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding	p.?(1)		breast(2)|ovary(1)|skin(1)	4						ATATTCGACCCGGTGAGCCAC	0.488													19	56					0	0	0.002299	0	0		T	173942662	T	T	173942662	2	4	12	1	0	0	0	0	0	0	0	1	6240	639	23	1		1	GALNTL6	4	173942662	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2932959	173942662	17211614	332	9807											
STOX2	56977	broad.mit.edu	37	chr4	184930482	184930482	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaccatttggacgagaggaTacctgaccggtctcagtgca	10	9	12	10	2	1	2	1	1	1	1	2	5	1	4	3	3	3	2	3	3	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:184930482T>A	uc003ivz.1	+	3	1926	c.491T>A	c.(490-492)ATA>AAA	p.I164K	STOX2_uc003iwa.1_5'UTR	NM_020225	NP_064610	Q9P2F5	STOX2_HUMAN	storkhead box 2	164					embryo development|maternal placenta development						0		all_lung(41;1.89e-12)|Lung NSC(41;3.48e-12)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|all_hematologic(60;0.027)|Prostate(90;0.0283)		all cancers(43;2.85e-26)|Epithelial(43;2.27e-22)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-10)|Colorectal(24;8.23e-06)|GBM - Glioblastoma multiforme(59;1.64e-05)|STAD - Stomach adenocarcinoma(60;3.6e-05)|COAD - Colon adenocarcinoma(29;4.37e-05)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.227)		GACGAGAGGATACCTGACCGG	0.532													16	36					0	0	0.00499	0	0		A	184930482	A	A	184930482	3	1	12	1	0	0	0	0	1	0	0	0	15345	1406	49	5	501	5	STOX2	4	184930482	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	10987820	184930482	6223794	333	9808											
IRF2	3660	broad.mit.edu	37	chr4	185339859	185339859	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatctactcctggttgatgcTttcctaacaaaagagacaaa	14	12	6	9	0	1	2	0	1	1	1	3	3	3	2	2	1	3	2	2	1	6	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:185339859T>G	uc003iwf.3	-	4	391	c.191A>C	c.(190-192)AAG>ACG	p.K64T		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	64	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		TGGTTGATGCTTTCCTAACAA	0.383													6	17					0	0	0.001168	0	0		G	185339859	G	G	185339859	3	3	12	1	0	0	0	0	1	0	0	0	7844	1609	56	5	882	5	IRF2	4	185339859	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	409377	185339859	5814417	334	9809											
FAT1	2195	broad.mit.edu	37	chr4	187540301	187540301	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattgcctccaattacagttAcatgaacctgggtggaactt	12	12	8	9	0	0	1	0	1	0	0	1	2	1	2	3	2	5	1	3	2	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr4:187540301A>G	uc003izf.2	-	10	7627	c.7439T>C	c.(7438-7440)GTA>GCA	p.V2480A		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2480	Extracellular (Potential).|Cadherin 22.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AATTACAGTTACATGAACCTG	0.473										HNSCC(5;0.00058)			11	162					0	0	0.001855	0	0		G	187540301	G	G	187540301	3	3	12	1	0	0	0	0	1	0	0	0	5703	391	14	3	6399	3	FAT1	4	187540301	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2200442	187540301	3613975	335	9810											
AHRR	57491	broad.mit.edu	37	chr5	434067	434067	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcccctgccctggacagcGggaaagcacagtgaggatgg	11	4	15	11	1	0	1	0	1	0	0	0	4	0	4	3	4	4	1	3	4	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:434067G>A	uc003jav.2	+	12	1322	c.1278G>A	c.(1276-1278)GCG>GCA	p.A426A	AHRR_uc003jaw.2_Silent_p.A404A|AHRR_uc010isy.2_Silent_p.A254A|AHRR_uc010isz.2_Silent_p.A404A|AHRR_uc003jax.2_Silent_p.A167A|AHRR_uc003jay.2_Silent_p.A264A|AHRR_uc003jaz.2_Silent_p.A25A	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	408					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			CCTGGACAGCGGGAAAGCACA	0.692													3	9					0	0	0.000602	0	0		A	434067	A	A	434067	2	1	12	1	0	0	0	0	0	0	0	1	417	1103	39	1		1	AHRR	5	434067	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08		434067	180481193	336	9811											
CEP72	55722	broad.mit.edu	37	chr5	637758	637758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgttggaagattccagaCgttttcggaccaggagggtt	8	11	14	8	2	0	2	0	0	0	2	2	5	1	5	3	4	0	3	3	4	1	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:637758C>T	uc003jbf.2	+	7	1103	c.1031C>T	c.(1030-1032)ACG>ATG	p.T344M	CEP72_uc011clz.1_RNA	NM_018140	NP_060610	Q9P209	CEP72_HUMAN	centrosomal protein 72 kDa	344					G2/M transition of mitotic cell cycle|gamma-tubulin complex localization|spindle organization	centrosome|cytosol				ovary(1)	1			Epithelial(17;0.000339)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|Lung(60;0.0863)			AGATTCCAGACGTTTTCGGAC	0.567													7	16					0	0	0.004482	0	0		T	637758	T	T	637758	3	4	12	1	0	0	0	0	1	0	0	0	3263	536	19	1	1057	1	CEP72	5	637758	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	203691	637758	180277502	337	9812											
SLC12A7	10723	broad.mit.edu	37	chr5	1081765	1081765	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtgagcacgtagggcagTgcgctggcacggctctcctc	5	8	15	13	4	1	1	0	1	1	0	4	1	1	1	1	4	2	6	1	4	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:1081765T>C	uc003jbu.2	-	9	1290	c.1224A>G	c.(1222-1224)GCA>GCG	p.A408A		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	408					potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	CGTAGGGCAGTGCGCTGGCAC	0.637													8	23					0	0	0.008291	0	0		C	1081765	C	C	1081765	2	2	12	1	0	0	0	0	0	0	0	1	14413	1683	59	3		3	SLC12A7	5	1081765	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	444007	1081765	179833495	338	9813											
CLPTM1L	81037	broad.mit.edu	37	chr5	1334411	1334411	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggatgactcacatggaacGctgcgacaaagaaggtcagc	13	6	13	9	2	2	2	2	1	0	1	2	5	2	4	0	3	3	1	0	3	3	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:1334411G>A	uc003jch.2	-	7	930	c.884C>T	c.(883-885)GCG>GTG	p.A295V	CLPTM1L_uc003jcg.2_Missense_Mutation_p.A162V	NM_030782	NP_110409	Q96KA5	CLP1L_HUMAN	CLPTM1-like	295	Helical; (Potential).				apoptosis	integral to membrane				breast(1)|central_nervous_system(1)	2	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		CACATGGAACGCTGCGACAAA	0.567													12	22					0	0	0.00245	0	0		A	1334411	A	A	1334411	3	1	12	1	0	0	0	0	1	0	0	0	3558	1087	38	1	776	1	CLPTM1L	5	1334411	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	252646	1334411	179580849	339	9814											
ADAMTS16	170690	broad.mit.edu	37	chr5	5209338	5209338	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcggagagaaagccaagctCtgcatgctggactttaaaaa	14	9	10	8	1	1	1	0	0	1	1	2	4	1	3	1	2	4	3	1	2	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:5209338C>T	uc003jdl.2	+	10	1722	c.1584C>T	c.(1582-1584)CTC>CTT	p.L528L	ADAMTS16_uc003jdk.1_Silent_p.L528L|ADAMTS16_uc003jdj.1_Silent_p.L528L	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	528	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						AAGCCAAGCTCTGCATGCTGG	0.388													24	32					0	0	0.004656	0	0		T	5209338	T	T	5209338	2	4	12	1	0	0	0	0	0	0	0	1	261	900	32	4		4	ADAMTS16	5	5209338	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3874927	5209338	175705922	340	9815											
MTRR	4552	broad.mit.edu	37	chr5	7875484	7875484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggacatgcagatgactgtGtagggtaagggcagtgttct	9	11	15	6	0	1	2	0	1	1	1	1	3	1	3	0	3	1	5	0	3	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:7875484G>A	uc003jed.2	+	4	508	c.478G>A	c.(478-480)GTA>ATA	p.V160I	MTRR_uc010itn.1_RNA|MTRR_uc003jee.3_Missense_Mutation_p.V133I|MTRR_uc003jef.3_RNA|MTRR_uc003jeg.3_RNA|MTRR_uc010ito.2_RNA	NM_024010	NP_076915	Q9UBK8	MTRR_HUMAN	methionine synthase reductase isoform 2	160	Flavodoxin-like.				methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	AGATGACTGTGTAGGGTAAGG	0.408													33	64					0	0	0.003271	0	0		A	7875484	A	A	7875484	3	1	12	1	0	0	0	0	1	0	0	0	9979	1377	48	4	492	4	MTRR	5	7875484	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2666146	7875484	173039776	341	9816											
SEMA5A	9037	broad.mit.edu	37	chr5	9202323	9202323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaagtaggtaaaatttcCgatgtcataagatgacacaa	19	9	8	5	1	1	3	1	1	0	2	2	4	2	3	1	1	0	2	1	1	7	4	rs140433904	by1000genomes	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:9202323C>T	uc003jek.2	-	9	1388	c.676G>A	c.(676-678)GGA>AGA	p.G226R		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	226	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						GTAAAATTTCCGATGTCATAA	0.423													12	28					0	0	0.001368	0	0		T	9202323	T	T	9202323	3	4	12	1	0	0	0	0	1	0	0	0	14062	661	23	1	2608	1	SEMA5A	5	9202323	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1326839	9202323	171712937	342	9817											
CDH18	1016	broad.mit.edu	37	chr5	19473667	19473667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtacttgagctcctcagcagCagaaggattcctcaaggctg	10	9	11	11	0	2	2	2	1	0	1	4	3	4	3	2	2	4	5	2	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:19473667C>T	uc003jgc.2	-	12	2418	c.2041G>A	c.(2041-2043)GCT>ACT	p.A681T	CDH18_uc003jgd.2_Missense_Mutation_p.A681T|CDH18_uc011cnm.1_3'UTR	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	681	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TCCTCAGCAGCAGAAGGATTC	0.517													11	68					0	0	0.001368	0	0		T	19473667	T	T	19473667	3	4	12	1	0	0	0	0	1	0	0	0	3106	710	25	2	335	2	CDH18	5	19473667	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	10271344	19473667	161441593	343	9818											
CDH12	1010	broad.mit.edu	37	chr5	21842333	21842333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttgactattgttgttcCggctaatcctccaagctgtc	7	15	9	10	1	0	1	0	1	0	0	4	2	3	1	3	1	1	5	3	1	3	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:21842333C>T	uc010iuc.2	-	5	1209	c.751G>A	c.(751-753)GGA>AGA	p.G251R	CDH12_uc011cno.1_Missense_Mutation_p.G211R|CDH12_uc003jgk.2_Missense_Mutation_p.G251R	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	251	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						ATTGTTGTTCCGGCTAATCCT	0.428										HNSCC(59;0.17)			18	49					0	0	0.007413	0	0		T	21842333	T	T	21842333	3	4	12	1	0	0	0	0	1	0	0	0	3101	661	23	1	1665	1	CDH12	5	21842333	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2368666	21842333	159072927	344	9819											
GOLPH3	64083	broad.mit.edu	37	chr5	32126538	32126538	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgcggtgagggtcattcAcccatttgtcaagaacggct	9	10	11	11	2	3	2	3	1	0	1	3	2	3	2	2	3	2	1	2	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:32126538A>C	uc003jhp.1	-	4	962	c.677T>G	c.(676-678)GTG>GGG	p.V226G		NM_022130	NP_071413	Q9H4A6	GOLP3_HUMAN	golgi phosphoprotein 3	226					cell proliferation|positive regulation of TOR signaling cascade|regulation of mitochondrion organization	cytosol|endosome|Golgi cisterna membrane|mitochondrial intermembrane space|plasma membrane|trans-Golgi network	protein binding			ovary(1)	1						AGGGTCATTCACCCATTTGTC	0.502													18	49					0	0	0.001882	0	0		C	32126538	C	C	32126538	3	2	12	1	0	0	0	0	1	0	0	0	6583	159	6	5	223	5	GOLPH3	5	32126538	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	10284205	32126538	148788722	345	9820											
SUB1	10923	broad.mit.edu	37	chr5	32599082	32599082	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagattgggaaaatgaggTacgttagtgttcgcgatttt	10	14	13	4	3	0	2	0	1	0	1	1	4	0	3	0	2	2	4	0	2	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:32599082T>C	uc003jhs.2	+	4	339	c.211T>C	c.(211-213)TAC>CAC	p.Y71H	SUB1_uc003jht.2_RNA	NM_006713	NP_006704	P53999	TCP4_HUMAN	activated RNA polymerase II transcription	71					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleolus|transcription factor complex	protein binding|single-stranded DNA binding|transcription coactivator activity				0						GAAAATGAGGTACGTTAGTGT	0.368													13	26					0	0	0.003163	0	0		C	32599082	C	C	32599082	3	2	12	1	0	0	0	0	1	0	0	0	15387	1638	57	3	221	3	SUB1	5	32599082	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	472544	32599082	148316178	346	9821											
AMACR	23600	broad.mit.edu	37	chr5	34004719	34004719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacccttgccagtgcgtgtgCggtcaaaaagagccattata	11	9	11	10	2	1	1	1	0	0	1	1	2	1	1	3	1	4	0	3	1	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:34004719C>T	uc003jig.2	-	3	594	c.512G>A	c.(511-513)CGC>CAC	p.R171H	AMACR_uc003jih.2_Intron|AMACR_uc003jii.2_Missense_Mutation_p.R171H|AMACR_uc003jij.2_Missense_Mutation_p.R171H|AMACR_uc003jil.1_Missense_Mutation_p.R171H|AMACR_uc003jik.1_Intron	NM_014324	NP_055139	Q9UHK6	AMACR_HUMAN	alpha-methylacyl-CoA racemase isoform 1	171					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	mitochondrion|peroxisomal matrix	alpha-methylacyl-CoA racemase activity				0						AGTGCGTGTGCGGTCAAAAAG	0.478													18	70					0	0	0.00499	0	0		T	34004719	T	T	34004719	3	4	12	1	0	0	0	0	1	0	0	0	562	768	27	1	978	1	AMACR	5	34004719	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1405637	34004719	146910541	347	9822											
DNAJC21	134218	broad.mit.edu	37	chr5	34954762	34954762	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagagcaccttcatcatcGtctttaaacagcgcaacaag	14	8	7	12	2	3	1	2	0	1	1	4	1	3	1	1	0	4	3	1	0	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:34954762G>A	uc003jjc.2	+	12	1766	c.1539G>A	c.(1537-1539)TCG>TCA	p.S513S	DNAJC21_uc003jjb.2_Silent_p.S558S	NM_001012339	NP_001012339	Q5F1R6	DJC21_HUMAN	DnaJ homology subfamily A member 5 isoform 2	513					protein folding	ribosome	heat shock protein binding|nucleic acid binding|unfolded protein binding|zinc ion binding			breast(1)|skin(1)	2	all_lung(31;7.08e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)			CTTCATCATCGTCTTTAAACA	0.393													15	52					0	0	0.006122	0	0		A	34954762	A	A	34954762	2	1	12	1	0	0	0	0	0	0	0	1	4646	1132	40	1		1	DNAJC21	5	34954762	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	950043	34954762	145960498	348	9823											
EGFLAM	133584	broad.mit.edu	37	chr5	38370555	38370555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcccagtgacatcatcCggaccctctgtgagtaccag	8	8	11	14	1	2	2	1	2	1	0	3	3	3	3	4	2	1	2	4	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:38370555C>T	uc003jlc.1	+	6	1027	c.703C>T	c.(703-705)CGG>TGG	p.R235W	EGFLAM_uc003jlb.1_Missense_Mutation_p.R235W	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	235	Fibronectin type-III 2.					cell junction|proteinaceous extracellular matrix|synapse		p.R235W(1)		pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					TGACATCATCCGGACCCTCTG	0.577													5	14					0	0	0.000602	0	0		T	38370555	T	T	38370555	3	4	12	1	0	0	0	0	1	0	0	0	4972	643	23	1	725	1	EGFLAM	5	38370555	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3415793	38370555	142544705	349	9824											
DIMT1L	27292	broad.mit.edu	37	chr5	61686760	61686760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtcactaaaacctgtgctgGttaggatttgctgtatttta	9	17	9	6	0	1	0	1	0	0	0	1	1	1	1	1	2	3	4	1	2	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:61686760G>A	uc003jta.2	-	11	971	c.842C>T	c.(841-843)ACC>ATC	p.T281I		NM_014473	NP_055288	Q9UNQ2	DIMT1_HUMAN	dimethyladenosine transferase	281				Missing (in Ref. 2; AAH02841).		nucleolus	RNA binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			central_nervous_system(1)	1		Lung NSC(810;8.94e-06)|Prostate(74;0.0235)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.122)		ACCTGTGCTGGTTAGGATTTG	0.338													26	80					0	0	0.002836	0	0		A	61686760	A	A	61686760	3	1	12	1	0	0	0	0	1	0	0	0	4529	1261	44	4	107	4	DIMT1L	5	61686760	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	23316205	61686760	119228500	350	9825											
DIMT1L	27292	broad.mit.edu	37	chr5	61686787	61686787	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgctgtattttatctgctAtgctgaaatcttctggtatt	7	21	7	6	0	3	1	0	1	3	0	3	1	3	1	0	1	3	5	0	1	5	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:61686787A>G	uc003jta.2	-	11	944	c.815T>C	c.(814-816)ATA>ACA	p.I272T		NM_014473	NP_055288	Q9UNQ2	DIMT1_HUMAN	dimethyladenosine transferase	272				IIPEDFSIADK -> VSAAVYPVKQI (in Ref. 2; AAH02841).		nucleolus	RNA binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			central_nervous_system(1)	1		Lung NSC(810;8.94e-06)|Prostate(74;0.0235)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.122)		TTTATCTGCTATGCTGAAATC	0.343													4	82					0	0	0.009096	0	0		G	61686787	G	G	61686787	3	3	12	1	0	0	0	0	1	0	0	0	4529	449	16	3	134	3	DIMT1L	5	61686787	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	27	61686787	119228473	351	9826											
ADAMTS6	11174	broad.mit.edu	37	chr5	64756033	64756033	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagtgatcatacagatgtcGttgttgaagggcagactttt	11	13	12	5	1	1	5	1	2	0	3	2	5	1	5	0	1	1	3	0	1	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:64756033G>A	uc003jtp.2	-	4	1409	c.595C>T	c.(595-597)CGA>TGA	p.R199*	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA|ADAMTS6_uc003jtr.1_Translation_Start_Site	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	199					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		TACAGATGTCGTTGTTGAAGG	0.398													19	52					0	0	0.001882	0	0		A	64756033	A	A	64756033	4	1	12	1	0	0	0	0	0	1	0	0	270	1153	40	1	2846	1	ADAMTS6	5	64756033	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3069246	64756033	116159227	352	9827											
MAST4	375449	broad.mit.edu	37	chr5	66430464	66430464	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgaatttctggttggatgCgtgccattctttggggatac	7	16	12	6	1	2	1	0	1	2	0	2	3	2	3	1	4	3	1	1	4	3	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:66430464C>T	uc003jut.1	+	17	1841	c.1773C>T	c.(1771-1773)TGC>TGT	p.C591C	MAST4_uc003juu.1_Silent_p.C601C|MAST4_uc011cra.1_Silent_p.C574C|MAST4_uc003juv.2_Silent_p.C586C|MAST4_uc003juw.2_Silent_p.C586C	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	783	Protein kinase.					cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		TGGTTGGATGCGTGCCATTCT	0.468													16	71					0	0	0.007413	0	0		T	66430464	T	T	66430464	2	4	12	1	0	0	0	0	0	0	0	1	9345	776	27	1		1	MAST4	5	66430464	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1674431	66430464	114484796	353	9828											
NAIP	4671	broad.mit.edu	37	chr5	70308328	70308328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagattcttcacccttatgtCgtacttggcaatgttaccaa	10	14	6	11	1	2	1	1	0	1	1	3	1	2	1	2	1	2	3	2	1	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:70308328C>T	uc003kar.1	-	4	1133	c.415G>A	c.(415-417)GAC>AAC	p.D139N	NAIP_uc003kat.1_Intron|NAIP_uc011crs.1_Missense_Mutation_p.D139N|NAIP_uc003kas.1_Intron	NM_004536	NP_004527	Q13075	BIRC1_HUMAN	NLR family, apoptosis inhibitory protein isoform	139					anti-apoptosis|apoptosis|nervous system development	basolateral plasma membrane|cytoplasm	caspase inhibitor activity|metal ion binding|nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(1)	1		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		ACCCTTATGTCGTACTTGGCA	0.483													14	48					0	0	0.003163	0	0		T	70308328	T	T	70308328	3	4	12	1	0	0	0	0	1	0	0	0	10165	884	31	1	3852	1	NAIP	5	70308328	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3877864	70308328	110606932	354	9829											
UTP15	84135	broad.mit.edu	37	chr5	72868396	72868396	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcatcacaaaaccgtgacAtgtttatgtctaagcagctc	14	11	6	10	1	3	1	2	1	1	0	4	1	3	1	1	0	3	3	1	0	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:72868396A>G	uc003kcw.1	+	7	979	c.756A>G	c.(754-756)ACA>ACG	p.T252T	UTP15_uc011cso.1_Silent_p.T233T|UTP15_uc011csp.1_Silent_p.T62T|UTP15_uc010ize.1_Silent_p.T252T	NM_032175	NP_115551	Q8TED0	UTP15_HUMAN	UTP15, U3 small nucleolar ribonucleoprotein,	252	WD 6.				rRNA processing	cytoplasm|nucleolus					0		Lung NSC(167;0.00405)|Ovarian(174;0.0129)		OV - Ovarian serous cystadenocarcinoma(47;7.76e-55)		AAACCGTGACATGTTTATGTC	0.348													37	67					0	0	0.002852	0	0		G	72868396	G	G	72868396	2	3	12	1	0	0	0	0	0	0	0	1	17123	204	8	3		3	UTP15	5	72868396	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2560068	72868396	108046864	355	9830											
ENC1	8507	broad.mit.edu	37	chr5	73931957	73931957	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccagcttccaggagcgaTtctgcattttcttcattgat	8	15	7	11	1	4	1	2	1	2	0	5	3	5	2	2	1	3	2	2	1	0	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:73931957T>C	uc003kdc.3	-	2	1485	c.354A>G	c.(352-354)GAA>GAG	p.E118E	ENC1_uc011css.1_Silent_p.E45E	NM_003633	NP_003624	O14682	ENC1_HUMAN	ectodermal-neural cortex (with BTB-like domain)	118				INEENAESLLEAGDMLEFQ -> HQLEGKCRNSLLGSLVTC WSFK (in Ref. 1).	nervous system development	cytoplasm|cytoskeleton|nuclear matrix	actin binding			ovary(1)|pancreas(1)|skin(1)	3		all_lung(232;0.0154)|Lung NSC(167;0.0331)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.45e-59)		CCAGGAGCGATTCTGCATTTT	0.512													12	33					0	0	0.000978	0	0		C	73931957	C	C	73931957	2	2	12	1	0	0	0	0	0	0	0	1	5121	1490	52	3		3	ENC1	5	73931957	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1063561	73931957	106983303	356	9831											
SV2C	22987	broad.mit.edu	37	chr5	75505643	75505643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcgaacacttgagctggCtctgcatgttctggatgatc	7	11	14	9	1	2	2	0	2	2	0	3	4	2	3	0	4	3	4	0	4	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:75505643C>T	uc003kei.1	+	4	978	c.844C>T	c.(844-846)CTC>TTC	p.L282F		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	282	Helical; (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		CTTGAGCTGGCTCTGCATGTT	0.597													6	29					0	0	0.001168	0	0		T	75505643	T	T	75505643	3	4	12	1	0	0	0	0	1	0	0	0	15444	797	28	2	854	2	SV2C	5	75505643	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1573686	75505643	105409617	357	9832											
DMGDH	29958	broad.mit.edu	37	chr5	78328598	78328598	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaacacttagactccagccTttgatagagcccactgactc	11	9	8	13	0	0	4	0	2	0	2	2	5	1	5	3	1	3	0	3	1	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:78328598T>C	uc003kfs.2	-	9	1435	c.1429A>G	c.(1429-1431)AGG>GGG	p.R477G	DMGDH_uc011cte.1_Missense_Mutation_p.R327G|DMGDH_uc011ctf.1_Missense_Mutation_p.R276G|DMGDH_uc011ctg.1_Missense_Mutation_p.R97G	NM_013391	NP_037523	Q9UI17	M2GD_HUMAN	dimethylglycine dehydrogenase precursor	477					choline metabolic process|glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|dimethylglycine dehydrogenase activity|electron carrier activity			ovary(2)|liver(1)|skin(1)	4		all_lung(232;0.000638)|Lung NSC(167;0.00173)|Ovarian(174;0.0262)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;6.52e-45)|Epithelial(54;5.96e-40)|all cancers(79;3.56e-35)		GACTCCAGCCTTTGATAGAGC	0.493													34	103					0	0	0.004878	0	0		C	78328598	C	C	78328598	3	2	12	1	0	0	0	0	1	0	0	0	4587	1608	56	3	1203	3	DMGDH	5	78328598	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	2822955	78328598	102586662	358	9833											
RHOBTB3	22836	broad.mit.edu	37	chr5	95099279	95099279	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagattctggggatgtttcAaatgtaatcgagaaagttaa	16	12	10	3	1	2	2	1	0	1	2	3	4	2	3	0	2	0	3	0	2	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:95099279A>G	uc003klm.2	+	7	1653	c.1116A>G	c.(1114-1116)TCA>TCG	p.S372S		NM_014899	NP_055714	O94955	RHBT3_HUMAN	rho-related BTB domain containing 3	372					retrograde transport, endosome to Golgi	Golgi apparatus	ATP binding|ATPase activity|Rab GTPase binding			lung(1)|skin(1)	2		all_cancers(142;2.58e-06)|all_epithelial(76;4.19e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0164)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.79e-16)		GGGATGTTTCAAATGTAATCG	0.333													14	38					0	0	0.00245	0	0		G	95099279	G	G	95099279	2	3	12	1	0	0	0	0	0	0	0	1	13360	117	5	3		3	RHOBTB3	5	95099279	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	16770681	95099279	85815981	359	9834											
RHOBTB3	22836	broad.mit.edu	37	chr5	95116113	95116113	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttagaatacctgtacacAgactcctgctgcccaggtta	10	13	7	11	0	0	2	0	0	0	2	1	2	1	2	3	1	4	3	3	1	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:95116113A>G	uc003klm.2	+	9	1977	c.1440A>G	c.(1438-1440)ACA>ACG	p.T480T		NM_014899	NP_055714	O94955	RHBT3_HUMAN	rho-related BTB domain containing 3	480	BTB 2.|Interaction with Rab9.				retrograde transport, endosome to Golgi	Golgi apparatus	ATP binding|ATPase activity|Rab GTPase binding			lung(1)|skin(1)	2		all_cancers(142;2.58e-06)|all_epithelial(76;4.19e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0164)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.79e-16)		ACCTGTACACAGACTCCTGCT	0.383													7	30					0	0	0.008291	0	0		G	95116113	G	G	95116113	2	3	12	1	0	0	0	0	0	0	0	1	13360	175	7	3		3	RHOBTB3	5	95116113	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	16834	95116113	85799147	360	9835											
EFNA5	1946	broad.mit.edu	37	chr5	106763016	106763016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acttcagcggtccatttggaGagtgaggccggttacattcc	8	11	12	10	2	1	2	1	1	0	1	3	3	3	2	3	4	2	1	3	4	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:106763016G>A	uc003kol.2	-	2	602	c.320C>T	c.(319-321)TCT>TTT	p.S107F	EFNA5_uc010jbr.1_Missense_Mutation_p.S107F	NM_001962	NP_001953	P52803	EFNA5_HUMAN	ephrin-A5 precursor	107					cell-cell signaling	anchored to plasma membrane|caveola|extracellular space	ephrin receptor binding				0		all_cancers(142;5.15e-06)|all_epithelial(76;4.39e-07)|Prostate(80;0.00726)|Lung NSC(167;0.0736)|Ovarian(225;0.0797)|all_lung(232;0.0854)|Colorectal(57;0.241)		Epithelial(69;1.25e-12)|OV - Ovarian serous cystadenocarcinoma(64;1.32e-11)|BRCA - Breast invasive adenocarcinoma(61;0.0376)|COAD - Colon adenocarcinoma(37;0.109)		TCCATTTGGAGAGTGAGGCCG	0.473													17	49					0	0	0.007413	0	0		A	106763016	A	A	106763016	3	1	12	1	0	0	0	0	1	0	0	0	4960	942	33	4	382	4	EFNA5	5	106763016	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	11646903	106763016	74152244	361	9836											
EPB41L4A	64097	broad.mit.edu	37	chr5	111575375	111575375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgtagcggtgcttataaCgtatggatccaaacttgctg	10	12	10	9	2	0	0	0	0	0	0	1	1	1	1	2	2	5	4	2	2	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:111575375C>T	uc003kpv.1	-	11	1221	c.947G>A	c.(946-948)CGT>CAT	p.R316H		NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	316						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		GTGCTTATAACGTATGGATCC	0.338													6	12					0	0	0.001168	0	0		T	111575375	T	T	111575375	3	4	12	1	0	0	0	0	1	0	0	0	5163	536	19	1	1165	1	EPB41L4A	5	111575375	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4812359	111575375	69339885	362	9837											
EPB41L4A	64097	broad.mit.edu	37	chr5	111576502	111576502	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaaaaagaatgaggtttcGttacactaagagagaaagag	19	8	10	4	1	1	5	1	1	0	4	2	6	1	5	0	1	1	2	0	1	7	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:111576502G>A	uc003kpv.1	-	10	1075	c.801C>T	c.(799-801)AAC>AAT	p.N267N		NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	267	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		ATGAGGTTTCGTTACACTAAG	0.368													6	16					0	0	0.004482	0	0		A	111576502	A	A	111576502	2	1	12	1	0	0	0	0	0	0	0	1	5163	1136	40	1		1	EPB41L4A	5	111576502	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1127	111576502	69338758	363	9838											
KCNN2	3781	broad.mit.edu	37	chr5	113698843	113698843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggctacaagctgggccaccGgcgcgccctgttcgaaaagc	8	5	13	15	5	0	0	0	0	0	0	1	1	0	0	3	3	3	3	3	3	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:113698843G>A	uc003kqo.2	+	1	828	c.371G>A	c.(370-372)CGG>CAG	p.R124Q		NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	124						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		CTGGGCCACCGGCGCGCCCTG	0.443													6	4					0	0	0.001168	0	0		A	113698843	A	A	113698843	3	1	12	1	0	0	0	0	1	0	0	0	8095	1116	39	1	373	1	KCNN2	5	113698843	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2122341	113698843	67216417	364	9839											
TMED7-TICAM2	100302736	broad.mit.edu	37	chr5	114916761	114916761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcaaacatctcttccaCgctctgagctccctcctgct	6	14	4	17	1	4	1	1	1	3	0	8	1	7	1	3	0	3	3	3	0	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:114916761C>T	uc003krd.2	-	4	1199	c.193G>A	c.(193-195)GTG>ATG	p.V65M	TMED7-TICAM2_uc003kre.2_Missense_Mutation_p.V234M|TICAM2_uc003krc.2_Missense_Mutation_p.V65M	NM_021649	NP_067681	Q86XR7	TCAM2_HUMAN	toll-like receptor adaptor molecule 2	65					I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	Golgi apparatus|intrinsic to membrane|plasma membrane	protein binding|transmembrane receptor activity				0						ATCTCTTCCACGCTCTGAGCT	0.458													40	148					0	0	0.00361	0	0		T	114916761	T	T	114916761	3	4	12	1	0	0	0	0	1	0	0	0	16035	536	19	1		1	TMED7-TICAM2	5	114916761	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1217918	114916761	65998499	365	9840											
DMXL1	1657	broad.mit.edu	37	chr5	118445967	118445967	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggagattggaaatgcatTtggcattgcaagtaagcaat	13	13	11	4	0	0	1	0	0	0	1	0	3	0	2	0	3	3	5	0	3	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:118445967T>C	uc003ksd.2	+	5	667	c.486T>C	c.(484-486)ATT>ATC	p.I162I	DMXL1_uc010jcl.1_Silent_p.I162I|DMXL1_uc003ksc.1_Silent_p.I162I	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	162										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		GGAAATGCATTTGGCATTGCA	0.333													13	42					0	0	0.00245	0	0		C	118445967	C	C	118445967	2	2	12	1	0	0	0	0	0	0	0	1	4600	1829	64	3		3	DMXL1	5	118445967	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	3529206	118445967	62469293	366	9841											
HSD17B4	3295	broad.mit.edu	37	chr5	118792054	118792054	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttgcagaaagaggagcgTtagttgttggtaagttggtg	9	14	15	3	1	0	2	0	0	0	2	0	3	0	3	0	3	2	6	0	3	3	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:118792054T>C	uc003ksj.2	+	2	226	c.103T>C	c.(103-105)TTA>CTA	p.L35L	HSD17B4_uc011cwg.1_5'UTR|HSD17B4_uc011cwh.1_Intron|HSD17B4_uc011cwi.1_Missense_Mutation_p.V38A|HSD17B4_uc003ksk.3_5'UTR	NM_000414	NP_000405	P51659	DHB4_HUMAN	hydroxysteroid (17-beta) dehydrogenase 4	35	NAD (By similarity).|(3R)-hydroxyacyl-CoA dehydrogenase.				bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3-hydroxyacyl-CoA dehydrogenase activity|3alpha,7alpha,12alpha-trihydroxy-5beta-cholest-24-enoyl-CoA hydratase activity|estradiol 17-beta-dehydrogenase activity|isomerase activity|long-chain-enoyl-CoA hydratase activity|protein binding|sterol binding|sterol transporter activity			ovary(1)|pancreas(1)	2		all_cancers(142;0.0206)|Prostate(80;0.0322)		OV - Ovarian serous cystadenocarcinoma(64;0.000247)|Epithelial(69;0.000849)|all cancers(49;0.0122)	NADH(DB00157)	AAGAGGAGCGTTAGTTGTTGG	0.338													17	49					0	0	0.007413	0	0		C	118792054	C	C	118792054	2	2	12	1	0	0	0	0	0	0	0	1	7402	1722	60	3		3	HSD17B4	5	118792054	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	346087	118792054	62123206	367	9842											
LOX	4015	broad.mit.edu	37	chr5	121409818	121409818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactctcctctgggtgttggCatcaagcaggtcatagtggc	7	11	12	11	0	4	0	2	0	2	0	5	0	4	0	1	4	1	3	1	4	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:121409818C>T	uc003ksu.2	-	4	1300	c.925G>A	c.(925-927)GCC>ACC	p.A309T	LOX_uc010jcp.2_Missense_Mutation_p.A12T|LOX_uc010jcq.2_Missense_Mutation_p.A12T|LOX_uc011cwk.1_Missense_Mutation_p.A79T|LOX_uc010jcr.2_Missense_Mutation_p.A12T	NM_002317	NP_002308	P28300	LYOX_HUMAN	lysyl oxidase preproprotein	309	Lysyl-oxidase like.				protein modification process	extracellular space	copper ion binding|protein-lysine 6-oxidase activity			lung(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)|Ovarian(225;0.0814)|Breast(839;0.143)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;2.14e-11)|OV - Ovarian serous cystadenocarcinoma(64;7.87e-10)|all cancers(49;2.49e-09)|COAD - Colon adenocarcinoma(49;0.02)		TGGGTGTTGGCATCAAGCAGG	0.458													10	17					0	0	0.003163	0	0		T	121409818	T	T	121409818	3	4	12	1	0	0	0	0	1	0	0	0	8916	710	25	2	344	2	LOX	5	121409818	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2617764	121409818	59505442	368	9843											
RAD50	10111	broad.mit.edu	37	chr5	131972826	131972826	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaataatgaaatttcacAgtatgaaaatggaagaaatc	20	9	8	4	0	1	3	1	2	0	1	2	5	1	4	0	1	1	2	0	1	8	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:131972826A>G	uc003kxi.2	+	22	3796	c.3409A>G	c.(3409-3411)AGT>GGT	p.S1137G	RAD50_uc003kxh.2_Missense_Mutation_p.S998G	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	1137					DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GAAATTTCACAGTATGAAAAT	0.279								Homologous_recombination					34	113					0	0	0.003755	0	0		G	131972826	G	G	131972826	3	3	12	1	0	0	0	0	1	0	0	0	13009	188	7	3	3495	3	RAD50	5	131972826	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	10563008	131972826	48942434	369	9844											
AFF4	27125	broad.mit.edu	37	chr5	132232456	132232456	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttttctctgctgtaggTcgaggggaagacttagactc	7	15	11	8	1	2	2	0	0	2	2	5	4	2	3	0	3	1	2	0	3	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:132232456T>C	uc003kyd.2	-	11	2274	c.1866A>G	c.(1864-1866)CGA>CGG	p.R622R	AFF4_uc011cxk.1_Silent_p.R300R|AFF4_uc003kye.1_Silent_p.R622R	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	622					transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CTGCTGTAGGTCGAGGGGAAG	0.428													6	28					0	0	0.001168	0	0		C	132232456	C	C	132232456	2	2	12	1	0	0	0	0	0	0	0	1	359	1654	58	3		3	AFF4	5	132232456	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	259630	132232456	48682804	370	9845											
SMAD5	4090	broad.mit.edu	37	chr5	135510101	135510101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttggtggagaggtgtatgCggaatgcctcagtgacagca	9	10	16	6	1	1	2	1	1	0	1	1	4	1	3	1	4	3	3	1	4	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:135510101C>T	uc003lbj.1	+	8	1478	c.1034C>T	c.(1033-1035)GCG>GTG	p.A345V	SMAD5_uc003lbk.1_Missense_Mutation_p.A345V|SMAD5_uc003lbl.1_Missense_Mutation_p.A345V	NM_001001419	NP_001001419	Q99717	SMAD5_HUMAN	SMAD family member 5	345	MH2.				BMP signaling pathway|embryonic pattern specification|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|ubiquitin protein ligase binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GAGGTGTATGCGGAATGCCTC	0.423													13	42					0	0	0.001855	0	0		T	135510101	T	T	135510101	3	4	12	1	0	0	0	0	1	0	0	0	14786	768	27	1	1052	1	SMAD5	5	135510101	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3277645	135510101	45405159	371	9846											
TRPC7	57113	broad.mit.edu	37	chr5	135692700	135692700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcgaaggccgggtggttgaGgatggcctccacgatgcgca	7	6	17	11	5	0	1	0	1	0	0	1	4	1	2	3	5	1	2	3	5	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:135692700G>A	uc003lbn.1	-	1	376	c.373C>T	c.(373-375)CTC>TTC	p.L125F	TRPC7_uc010jef.1_Missense_Mutation_p.L117F|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.L117F|TRPC7_uc010jei.1_Missense_Mutation_p.L117F|TRPC7_uc010jej.1_5'UTR	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	126	Cytoplasmic (Potential).|ANK 3.				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GGGTGGTTGAGGATGGCCTCC	0.667													3	14					0	0	0.009096	0	0		A	135692700	A	A	135692700	3	1	12	1	0	0	0	0	1	0	0	0	16610	1000	35	4	2256	4	TRPC7	5	135692700	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	182599	135692700	45222560	372	9847											
KDM3B	51780	broad.mit.edu	37	chr5	137717276	137717276	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gataattcagcgcctcaaagCgaggtacagtaatggactgc	13	8	11	9	2	2	0	2	0	0	0	2	3	2	1	1	2	4	2	1	2	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:137717276C>T	uc003lcy.1	+	6	977	c.777C>T	c.(775-777)AGC>AGT	p.S259S	KDM3B_uc010jew.1_5'UTR	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	259					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						CGCCTCAAAGCGAGGTACAGT	0.428													10	19					0	0	0.000978	0	0		T	137717276	T	T	137717276	2	4	12	1	0	0	0	0	0	0	0	1	8143	767	27	1		1	KDM3B	5	137717276	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2024576	137717276	43197984	373	9848											
TMCO6	55374	broad.mit.edu	37	chr5	140024251	140024251	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccgccttgctgcacacaCtagccttttctgacactgaa	8	12	6	15	1	1	2	0	2	1	0	2	2	2	2	3	0	3	2	3	0	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140024251C>T	uc003lgl.2	+	11	1395	c.1294C>T	c.(1294-1296)CTA>TTA	p.L432L	TMCO6_uc003lgm.2_Silent_p.L438L|TMCO6_uc010jft.2_Silent_p.L192L|TMCO6_uc003lgn.2_Silent_p.L323L|TMCO6_uc003lgo.2_Silent_p.L192L	NM_018502	NP_060972	Q96DC7	TMCO6_HUMAN	transmembrane and coiled-coil domains 6	432					protein import into nucleus	cytoplasm|nuclear pore	binding|protein transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGCACACACTAGCCTTTTC	0.552													6	99					0	0	0.00308	0	0		T	140024251	T	T	140024251	2	4	12	1	0	0	0	0	0	0	0	1	16025	564	20	4		4	TMCO6	5	140024251	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2306975	140024251	40891009	374	9849											
PCDHA1	56147	broad.mit.edu	37	chr5	140165915	140165915	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcctgggagcccgggatCtgcttctttggcttctgctc	2	12	15	12	1	3	0	0	0	3	0	4	2	3	2	2	5	3	3	2	5	0	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140165915C>A	uc003lhb.2	+	1	40	c.40C>A	c.(40-42)CTG>ATG	p.L14M	PCDHA1_uc003lha.2_Missense_Mutation_p.L14M|PCDHA1_uc003lgz.2_Missense_Mutation_p.L14M	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	14					homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCCCGGGATCTGCTTCTTTG	0.552													10	30					1.5842e-08	1.74531e-08	0.001855	1	0		A	140165915	A	A	140165915	3	1	12	1	0	0	0	0	1	0	0	0	11538	912	32	5	42	5	PCDHA1	5	140165915	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	141664	140165915	40749345	375	9850											
PCDHA3	56145	broad.mit.edu	37	chr5	140181913	140181913	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatcagcgtgtccgaccgCgactcaggagtcaatggaca	10	7	12	12	4	3	1	3	1	0	0	4	5	4	3	2	2	1	0	2	2	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140181913C>T	uc003lhf.2	+	1	1131	c.1131C>T	c.(1129-1131)CGC>CGT	p.R377R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.R377R	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	377	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCCGACCGCGACTCAGGAG	0.488													12	49					0	0	0.003163	0	0		T	140181913	T	T	140181913	2	4	12	1	0	0	0	0	0	0	0	1	11544	755	27	1		1	PCDHA3	5	140181913	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	15998	140181913	40733347	376	9851											
PCDHA4	56144	broad.mit.edu	37	chr5	140188818	140188818	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaaaggcctcctcacgggcGttggtgggcgctgtgggtcc	4	8	16	13	3	1	0	1	0	0	0	3	0	3	0	4	5	0	2	4	5	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140188818G>A	uc003lhi.2	+	1	2147	c.2046G>A	c.(2044-2046)GCG>GCA	p.A682A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.A682A|PCDHA4_uc011daa.1_Silent_p.A682A	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	682	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTCACGGGCGTTGGTGGGCG	0.637													10	18					0	0	0.00245	0	0		A	140188818	A	A	140188818	2	1	12	1	0	0	0	0	0	0	0	1	11545	1132	40	1		1	PCDHA4	5	140188818	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6905	140188818	40726442	377	9852											
PCDHA7	56141	broad.mit.edu	37	chr5	140215781	140215781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctgactcaggctacaacGcgtggctttcgtatgagttg	8	11	12	10	4	1	2	1	2	0	0	2	2	1	2	0	2	2	5	0	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140215781G>A	uc003lhq.2	+	1	1813	c.1813G>A	c.(1813-1815)GCG>ACG	p.A605T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.A605T	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	605	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGCTACAACGCGTGGCTTTC	0.637													13	41					0	0	0.004007	0	0		A	140215781	A	A	140215781	3	1	12	1	0	0	0	0	1	0	0	0	11548	1087	38	1	1815	1	PCDHA7	5	140215781	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	26963	140215781	40699479	378	9853											
PCDHA9	9752	broad.mit.edu	37	chr5	140229616	140229616	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctacgtgtcagtgcacgcGgagagcggcaaggtgtacgc	9	6	16	10	5	1	1	1	0	0	1	1	2	1	1	0	3	5	4	0	3	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140229616G>A	uc003lhu.2	+	1	2260	c.1536G>A	c.(1534-1536)GCG>GCA	p.A512A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Silent_p.A512A	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	512	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGTGCACGCGGAGAGCGGCA	0.701													4	35					0	0	0.006214	0	0		A	140229616	A	A	140229616	2	1	12	1	0	0	0	0	0	0	0	1	11550	1103	39	1		1	PCDHA9	5	140229616	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	13835	140229616	40685644	379	9854											
PCDHA10	56139	broad.mit.edu	37	chr5	140236079	140236079	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatccagactgcttgactCtcgatttccactagaaggcg	10	11	9	11	2	1	4	0	2	1	2	4	5	3	4	2	1	1	1	2	1	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140236079C>A	uc003lhx.2	+	1	446	c.446C>A	c.(445-447)TCT>TAT	p.S149Y	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Missense_Mutation_p.S149Y|PCDHA10_uc011dad.1_Missense_Mutation_p.S149Y	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	149	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCTTGACTCTCGATTTCCA	0.438													35	97					1.38162e-09	1.53451e-09	0.00874	1	0		A	140236079	A	A	140236079	3	1	12	1	0	0	0	0	1	0	0	0	11539	913	32	5	448	5	PCDHA10	5	140236079	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	6463	140236079	40679181	380	9855											
PCDHA11	56138	broad.mit.edu	37	chr5	140249397	140249397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaagtcttggatgtcaacGacaatgatccagagtttgat	12	12	9	8	1	2	3	1	2	1	1	4	5	4	4	2	1	1	1	2	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140249397G>A	uc003lia.2	+	1	1567	c.709G>A	c.(709-711)GAC>AAC	p.D237N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.D237N	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	237	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGATGTCAACGACAATGATCC	0.443													12	14					0	0	0.001855	0	0		A	140249397	A	A	140249397	3	1	12	1	0	0	0	0	1	0	0	0	11540	1058	37	1	711	1	PCDHA11	5	140249397	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	13318	140249397	40665863	381	9856											
PCDHA13	56136	broad.mit.edu	37	chr5	140262322	140262322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgatttccactagatggcGcatccgatgcagatattgga	10	11	10	10	3	0	2	0	0	0	2	3	5	2	3	2	2	1	2	2	2	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140262322G>A	uc003lif.2	+	1	469	c.469G>A	c.(469-471)GCA>ACA	p.A157T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.A157T|PCDHA13_uc003lid.2_Missense_Mutation_p.A157T	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	157	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTAGATGGCGCATCCGATGC	0.458													12	27					0	0	0.00245	0	0		A	140262322	A	A	140262322	3	1	12	1	0	0	0	0	1	0	0	0	11542	1087	38	1	471	1	PCDHA13	5	140262322	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	12925	140262322	40652938	382	9857											
PCDHB5	26167	broad.mit.edu	37	chr5	140516378	140516378	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccttcacccaaacctcCtacaccctgttcgtccgaga	8	8	5	20	3	1	1	1	0	0	1	4	2	3	1	7	0	2	1	7	0	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140516378C>A	uc003liq.2	+	1	1579	c.1362C>A	c.(1360-1362)TCC>TCA	p.S454S		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	454	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCCAAACCTCCTACACCCTGT	0.602													29	89					5.8336e-16	6.68587e-16	0.003271	1	0		A	140516378	A	A	140516378	2	1	12	1	0	0	0	0	0	0	0	1	11564	668	24	5		5	PCDHB5	5	140516378	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	254056	140516378	40398882	383	9858											
PCDHB11	56125	broad.mit.edu	37	chr5	140581504	140581504	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcaggaggagcagggcGgcctcggtgggaagctgctc	6	6	19	10	2	0	0	0	0	0	0	2	3	0	3	1	6	4	4	1	6	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140581504G>A	uc003liy.2	+	1	2157	c.2157G>A	c.(2155-2157)GCG>GCA	p.A719A	PCDHB11_uc011daj.1_Silent_p.A354A	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	719	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGAGCAGGGCGGCCTCGGTGG	0.652													9	48					0	0	0.001855	0	0		A	140581504	A	A	140581504	2	1	12	1	0	0	0	0	0	0	0	1	11555	1103	39	1		1	PCDHB11	5	140581504	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	65126	140581504	40333756	384	9859											
PCDHB15	56121	broad.mit.edu	37	chr5	140626516	140626516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcacccaaacctcctacaCcctgttcgtccgcgagaaca	10	8	5	18	3	1	1	1	0	0	1	4	2	3	1	5	0	3	1	5	0	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140626516C>T	uc003lje.2	+	1	1370	c.1370C>T	c.(1369-1371)ACC>ATC	p.T457I		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	457	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACCTCCTACACCCTGTTCGTC	0.612													15	48					0	0	0.002299	0	0		T	140626516	T	T	140626516	3	4	12	1	0	0	0	0	1	0	0	0	11559	507	18	4	1372	4	PCDHB15	5	140626516	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	45012	140626516	40288744	385	9860											
PCDHGA4	56111	broad.mit.edu	37	chr5	140735488	140735488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccaacgataatgctcccGtgttcactcagcccgagtac	11	9	7	14	3	2	0	2	0	0	0	3	2	3	0	3	0	5	3	3	0	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140735488G>A	uc003ljq.1	+	1	721	c.721G>A	c.(721-723)GTG>ATG	p.V241M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.V241M	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	241	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAATGCTCCCGTGTTCACTCA	0.532													9	9					0	0	0.008291	0	0		A	140735488	A	A	140735488	3	1	12	1	0	0	0	0	1	0	0	0	11575	1145	40	1	723	1	PCDHGA4	5	140735488	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	108972	140735488	40179772	386	9861											
PCDHGA10	56106	broad.mit.edu	37	chr5	140794641	140794641	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggcgaggtgcgcacggcGcgagccctgctggacagaga	8	3	18	12	6	0	1	0	0	0	1	0	5	0	2	1	4	3	2	1	4	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140794641G>C	uc003lkl.1	+	1	1899	c.1899G>C	c.(1897-1899)GCG>GCC	p.A633A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Silent_p.A633A|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	633	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCGCACGGCGCGAGCCCTGC	0.697													11	18					0	0	0.001855	0	0		C	140794641	C	C	140794641	2	2	12	1	0	0	0	0	0	0	0	1	11570	1074	38	5		5	PCDHGA10	5	140794641	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	59153	140794641	40120619	387	9862											
PCDHGA11	56105	broad.mit.edu	37	chr5	140801363	140801363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggggcagaacggatggggCcaagaatccagagctagtac	12	4	16	9	2	0	3	0	0	0	3	1	4	1	4	2	5	3	3	2	5	5	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140801363C>T	uc003lkq.1	+	1	827	c.569C>T	c.(568-570)GCC>GTC	p.A190V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.A190V|PCDHGA11_uc003lkp.1_Missense_Mutation_p.A190V	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	190	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGGATGGGGCCAAGAATCCA	0.552													11	15					0	0	0.001368	0	0		T	140801363	T	T	140801363	3	4	12	1	0	0	0	0	1	0	0	0	11571	739	26	2	571	2	PCDHGA11	5	140801363	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	6722	140801363	40113897	388	9863											
PCDHGC3	5098	broad.mit.edu	37	chr5	140856231	140856231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgaatactttgcgcttcGcgtgcagacgcgggaggaca	11	8	13	9	5	0	2	0	1	0	1	1	4	0	4	0	2	3	2	0	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140856231G>A	uc003lkv.1	+	1	663	c.548G>A	c.(547-549)CGC>CAC	p.R183H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Missense_Mutation_p.R183H|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	183	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTGCGCTTCGCGTGCAGACG	0.612													10	22					0	0	0.001368	0	0		A	140856231	A	A	140856231	3	1	12	1	0	0	0	0	1	0	0	0	11588	1087	38	1	550	1	PCDHGC3	5	140856231	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	54868	140856231	40059029	389	9864											
DIAPH1	1729	broad.mit.edu	37	chr5	140896555	140896555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctagcagagatgtgactgCacacccggccttcctgttgg	8	9	12	12	1	0	2	0	1	0	1	1	3	1	2	3	2	3	4	3	2	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:140896555C>T	uc003llb.3	-	29	3823	c.3682G>A	c.(3682-3684)GCA>ACA	p.A1228T	DIAPH1_uc011dbd.1_Silent_p.V139V|DIAPH1_uc003llc.3_Missense_Mutation_p.A1219T	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	1228					regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATGTGACTGCACACCCGGCC	0.498													7	27					0	0	0.004482	0	0		T	140896555	T	T	140896555	3	4	12	1	0	0	0	0	1	0	0	0	4524	710	25	2	140	2	DIAPH1	5	140896555	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	40324	140896555	40018705	390	9865											
PCDH12	51294	broad.mit.edu	37	chr5	141336022	141336022	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcccgcgtggagacttcAtacctgcttttctcaaacac	8	14	6	13	2	2	1	2	0	1	1	4	2	3	1	2	1	3	1	2	1	2	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:141336022A>G	uc003llx.2	-	1	2606	c.1395T>C	c.(1393-1395)TAT>TAC	p.Y465Y		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	465	Extracellular (Potential).|Cadherin 5.				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGAGACTTCATACCTGCTTT	0.473													11	44					0	0	0.001368	0	0		G	141336022	G	G	141336022	2	3	12	1	0	0	0	0	0	0	0	1	11529	224	8	3		3	PCDH12	5	141336022	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	439467	141336022	39579238	391	9866											
GNPDA1	10007	broad.mit.edu	37	chr5	141384619	141384619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggccagcgtcttcacacGggtcctggacaccagactgg	8	7	12	14	2	2	1	1	0	1	1	3	2	3	2	3	4	1	0	3	4	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:141384619G>A	uc003lmf.3	-	4	1231	c.472C>T	c.(472-474)CGT>TGT	p.R158C	GNPDA1_uc003lmg.3_Missense_Mutation_p.R158C|GNPDA1_uc010jgh.2_Missense_Mutation_p.R158C|GNPDA1_uc003lmh.3_Missense_Mutation_p.R124C	NM_005471	NP_005462	P46926	GNPI1_HUMAN	glucosamine-6-phosphate deaminase 1	158					generation of precursor metabolites and energy|glucosamine catabolic process|N-acetylglucosamine metabolic process|single fertilization	cytoplasm	glucosamine-6-phosphate deaminase activity|hydrolase activity				0		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTCTTCACACGGGTCCTGGAC	0.607													5	14					0	0	0.000602	0	0		A	141384619	A	A	141384619	3	1	12	1	0	0	0	0	1	0	0	0	6557	1116	39	1	409	1	GNPDA1	5	141384619	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	48597	141384619	39530641	392	9867											
ADRB2	154	broad.mit.edu	37	chr5	148207339	148207339	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctcctaaattggataggCtatgtcaattctggtttcaa	11	15	7	8	0	3	0	2	0	1	0	5	1	5	1	2	3	0	2	2	3	6	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:148207339C>T	uc003lpr.1	+	1	1184	c.945C>T	c.(943-945)GGC>GGT	p.G315G	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	315	Agonist and antagonist binding.|Helical; Name=7.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	ATTGGATAGGCTATGTCAATT	0.483													16	38					0	0	0.004007	0	0		T	148207339	T	T	148207339	2	4	12	1	0	0	0	0	0	0	0	1	341	784	28	2		2	ADRB2	5	148207339	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	6822720	148207339	32707921	393	9868											
AFAP1L1	134265	broad.mit.edu	37	chr5	148699169	148699169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgttcagaggacatgggtCgctggctcgggctgctgctg	4	10	17	10	2	1	1	1	0	0	1	3	2	1	2	0	4	2	7	0	4	0	1	rs143811672	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:148699169C>T	uc003lqh.2	+	13	1635	c.1504C>T	c.(1504-1506)CGC>TGC	p.R502C	AFAP1L1_uc010jgy.2_Missense_Mutation_p.R502C|AFAP1L1_uc003lqi.1_Missense_Mutation_p.R117C	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	502	PH 2.						protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACATGGGTCGCTGGCTCGG	0.562													11	17					0	0	0.000978	0	0		T	148699169	T	T	148699169	3	4	12	1	0	0	0	0	1	0	0	0	354	884	31	1	1554	1	AFAP1L1	5	148699169	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	491830	148699169	32216091	394	9869											
TIGD6	81789	broad.mit.edu	37	chr5	149375760	149375760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttttcttcaaatttggtgCgatcctttaagaatgtagat	10	17	7	7	1	2	2	1	0	1	2	3	3	3	2	2	1	1	1	2	1	4	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:149375760C>T	uc003lri.2	-	2	914	c.152G>A	c.(151-153)CGC>CAC	p.R51H	TIGD6_uc003lrj.2_Missense_Mutation_p.R51H	NM_030953	NP_112215	Q17RP2	TIGD6_HUMAN	hypothetical protein LOC81789	51	HTH psq-type.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			AAATTTGGTGCGATCCTTTAA	0.453													10	28					0	0	0.008291	0	0		T	149375760	T	T	149375760	3	4	12	1	0	0	0	0	1	0	0	0	15925	768	27	1	1417	1	TIGD6	5	149375760	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	676591	149375760	31539500	395	9870											
SYNPO	11346	broad.mit.edu	37	chr5	150029539	150029539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagccgccataccagctgCgcccctcgctctttgtcctc	5	9	8	19	3	1	0	0	0	1	0	4	0	2	0	6	0	5	3	6	0	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:150029539C>T	uc003lsn.2	+	3	2808	c.2434C>T	c.(2434-2436)CGC>TGC	p.R812C	SYNPO_uc003lso.3_Missense_Mutation_p.R568C|SYNPO_uc003lsp.2_Missense_Mutation_p.R568C	NM_001109974	NP_001103444	Q8N3V7	SYNPO_HUMAN	synaptopodin isoform B	812	Pro-rich.				positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATACCAGCTGCGCCCCTCGCT	0.662													16	23					0	0	0.00278	0	0		T	150029539	T	T	150029539	3	4	12	1	0	0	0	0	1	0	0	0	15481	768	27	1	2440	1	SYNPO	5	150029539	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	653779	150029539	30885721	396	9871											
RBM22	55696	broad.mit.edu	37	chr5	150075217	150075217	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgattccgtaataacggtcTttaatattctgatcagcaag	12	15	7	7	2	3	2	1	2	2	0	4	2	4	2	1	1	2	2	1	1	5	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:150075217T>C	uc003lst.2	-	7	719	c.597A>G	c.(595-597)AAA>AAG	p.K199K		NM_018047	NP_060517	Q9NW64	RBM22_HUMAN	RNA binding motif protein 22	199					protein import into nucleus, translocation	catalytic step 2 spliceosome|cytoplasm	calcium-dependent protein binding|nucleotide binding|RNA binding|zinc ion binding				0		Medulloblastoma(196;0.167)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AATAACGGTCTTTAATATTCT	0.428													15	33					0	0	0.006122	0	0		C	150075217	C	C	150075217	2	2	12	1	0	0	0	0	0	0	0	1	13147	1606	56	3		3	RBM22	5	150075217	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	45678	150075217	30840043	397	9872											
FAT2	2196	broad.mit.edu	37	chr5	150932868	150932868	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggccagagggatggaggaCggccggggccaagggatcca	11	2	19	9	2	0	1	0	0	0	1	1	5	1	5	4	8	0	0	4	8	2	0	rs150507279		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:150932868C>T	uc003lue.3	-	5	4039	c.4026G>A	c.(4024-4026)CCG>CCA	p.P1342P	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1342	Extracellular (Potential).|Cadherin 11.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGATGGAGGACGGCCGGGGCC	0.582													9	21					0	0	0.008291	0	0		T	150932868	T	T	150932868	2	4	12	1	0	0	0	0	0	0	0	1	5704	523	19	1		1	FAT2	5	150932868	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	857651	150932868	29982392	398	9873											
GABRG2	2566	broad.mit.edu	37	chr5	161576143	161576143	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcctgacaatgaccaccCtcagcaccattgcccggaaa	11	7	7	16	1	1	2	1	2	0	0	2	3	2	3	5	1	2	1	5	1	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:161576143C>A	uc003lyz.3	+	8	1310	c.952C>A	c.(952-954)CTC>ATC	p.L318I	GABRG2_uc010jjc.2_Missense_Mutation_p.L358I|GABRG2_uc003lyy.3_Missense_Mutation_p.L318I|GABRG2_uc011dej.1_Missense_Mutation_p.L223I	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	318	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		AATGACCACCCTCAGCACCAT	0.468													15	40					8.60227e-14	9.80142e-14	0.004007	1	0		A	161576143	A	A	161576143	3	1	12	1	0	0	0	0	1	0	0	0	6186	681	24	5	1106	5	GABRG2	5	161576143	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	10643275	161576143	19339117	399	9874											
DOCK2	1794	broad.mit.edu	37	chr5	169477279	169477279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaaagtgttcatctaccGcgggaaggaatatgagcgaa	15	7	12	7	3	2	1	1	1	1	0	2	5	2	3	1	2	3	1	1	2	7	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:169477279G>A	uc003maf.2	+	41	4171	c.4091G>A	c.(4090-4092)CGC>CAC	p.R1364H	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.R856H	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1364	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TTCATCTACCGCGGGAAGGAA	0.502													26	94					0	0	0.002096	0	0		A	169477279	A	A	169477279	3	1	12	1	0	0	0	0	1	0	0	0	4693	1087	38	1	4253	1	DOCK2	5	169477279	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	7901136	169477279	11437981	400	9875											
HRH2	3274	broad.mit.edu	37	chr5	175110585	175110585	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgatcagcctcgaccggTactgcgctgtcatggaccca	8	9	10	14	3	3	1	3	1	0	0	4	3	3	2	3	2	3	2	3	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:175110585T>C	uc003mdd.2	+	1	2122	c.349T>C	c.(349-351)TAC>CAC	p.Y117H	HRH2_uc003mdc.3_Missense_Mutation_p.Y117H	NM_022304	NP_071640	P25021	HRH2_HUMAN	histamine receptor H2 isoform 2	117	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|immune response	integral to plasma membrane	histamine receptor activity			ovary(1)	1	all_cancers(89;0.00805)|Renal(175;0.000269)|Lung NSC(126;0.00419)|all_lung(126;0.00711)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Colorectal(1;0.0154)|COAD - Colon adenocarcinoma(1;0.149)	Betazole(DB00272)|Cimetidine(DB00501)|Doxepin(DB01142)|Epinastine(DB00751)|Famotidine(DB00927)|Histamine Phosphate(DB00667)|Nizatidine(DB00585)|Ranitidine(DB00863)	CCTCGACCGGTACTGCGCTGT	0.542													7	27					0	0	0.000978	0	0		C	175110585	C	C	175110585	3	2	12	1	0	0	0	0	1	0	0	0	7372	1638	57	3	351	3	HRH2	5	175110585	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	5633306	175110585	5804675	401	9876											
EIF4E1B	253314	broad.mit.edu	37	chr5	176072487	176072487	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgtgtggacgagggaggCggaaaaccaggcgggcgtgc	8	4	20	9	5	0	0	0	0	0	0	0	4	0	3	1	6	2	1	1	6	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:176072487C>T	uc010jkf.1	+	8	1168	c.584C>T	c.(583-585)GCG>GTG	p.A195V	TSPAN17_uc003mes.3_5'Flank|TSPAN17_uc003met.2_5'Flank|TSPAN17_uc003meu.2_5'Flank|TSPAN17_uc003mev.2_5'Flank|TSPAN17_uc003mew.2_5'Flank	NM_001099408	NP_001092878	A6NMX2	I4E1B_HUMAN	eukaryotic translation initiation factor 4E	195					regulation of translation	cytoplasm|mRNA cap binding complex	translation initiation factor activity				0	all_cancers(89;0.00185)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACGAGGGAGGCGGAAAACCAG	0.627													7	10					0	0	0.004482	0	0		T	176072487	T	T	176072487	3	4	12	1	0	0	0	0	1	0	0	0	5037	768	27	1	606	1	EIF4E1B	5	176072487	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	961902	176072487	4842773	402	9877											
HK3	3101	broad.mit.edu	37	chr5	176308391	176308391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccggatcttctccaccaCggcagctacacccgccccac	7	6	6	22	3	2	0	0	0	2	0	4	1	3	1	6	2	2	2	6	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:176308391C>T	uc003mfa.2	-	18	2631	c.2539G>A	c.(2539-2541)GTG>ATG	p.V847M	HK3_uc003mez.2_Missense_Mutation_p.V403M	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	847	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TTCTCCACCACGGCAGCTACA	0.652													8	15					0	0	0.00308	0	0		T	176308391	T	T	176308391	3	4	12	1	0	0	0	0	1	0	0	0	7208	536	19	1	240	1	HK3	5	176308391	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	235904	176308391	4606869	403	9878											
FGFR4	2264	broad.mit.edu	37	chr5	176520703	176520703	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgctttggccaggtagtAcgtgcagaggcctttggcat	6	11	15	9	1	0	1	0	0	0	1	0	1	0	1	2	5	3	6	2	5	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:176520703A>G	uc003mfl.2	+	11	1613	c.1446A>G	c.(1444-1446)GTA>GTG	p.V482V	FGFR4_uc003mfm.2_Silent_p.V482V|FGFR4_uc011dfu.1_Silent_p.V414V|FGFR4_uc003mfo.2_Silent_p.V442V	NM_002011	NP_002002	P22455	FGFR4_HUMAN	fibroblast growth factor receptor 4 isoform 1	482	Protein kinase.|Cytoplasmic (Potential).				insulin receptor signaling pathway|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity			lung(11)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|prostate(1)	16	all_cancers(89;5.93e-05)|Renal(175;0.000269)|Lung NSC(126;0.0088)|all_lung(126;0.0142)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Palifermin(DB00039)	GCCAGGTAGTACGTGCAGAGG	0.562										TSP Lung(9;0.080)			6	11					0	0	0.001984	0	0		G	176520703	G	G	176520703	2	3	12	1	0	0	0	0	0	0	0	1	5882	378	14	3		3	FGFR4	5	176520703	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	212312	176520703	4394557	404	9879											
DDX41	51428	broad.mit.edu	37	chr5	176939513	176939513	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccatagttctcaatctcCtctggcatgtcataattgat	10	16	5	10	0	4	1	2	1	3	0	6	1	4	1	2	1	1	2	2	1	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:176939513C>A	uc003mho.2	-	14	1554	c.1533G>T	c.(1531-1533)GAG>GAT	p.E511D	DOK3_uc003mhi.3_5'Flank|DOK3_uc003mhj.3_5'Flank|DOK3_uc003mhk.2_5'Flank|DOK3_uc003mhl.2_5'Flank|DDX41_uc003mhm.2_Missense_Mutation_p.E291D|DDX41_uc003mhn.2_Missense_Mutation_p.E380D|DDX41_uc003mhp.2_Missense_Mutation_p.E380D	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	511	Helicase C-terminal.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			TCTCAATCTCCTCTGGCATGT	0.582													6	17					0.00116845	0.00122217	0.001168	1	0		A	176939513	A	A	176939513	3	1	12	1	0	0	0	0	1	0	0	0	4364	680	24	5	351	5	DDX41	5	176939513	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	418810	176939513	3975747	405	9880											
ZFP2	80108	broad.mit.edu	37	chr5	178359697	178359697	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacatcaaagaactcatacGtgaggaatgttttcactggc	13	10	9	9	2	3	2	3	1	0	1	3	4	3	3	0	2	2	1	0	2	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:178359697G>A	uc003mjn.1	+	5	1892	c.1383G>A	c.(1381-1383)ACG>ACA	p.T461T	ZFP2_uc010jky.2_Silent_p.T461T|ZFP2_uc010jkx.1_Silent_p.T461T	NM_030613	NP_085116	Q6ZN57	ZFP2_HUMAN	zinc finger protein 2 homolog	461					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.00655)|GBM - Glioblastoma multiforme(465;0.0302)|OV - Ovarian serous cystadenocarcinoma(192;0.0615)|Epithelial(171;0.111)		GAACTCATACGTGAGGAATGT	0.388													11	29					0	0	0.001855	0	0		A	178359697	A	A	178359697	2	1	12	1	0	0	0	0	0	0	0	1	17666	1132	40	1		1	ZFP2	5	178359697	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1420184	178359697	2555563	406	9881											
MGAT4B	11282	broad.mit.edu	37	chr5	179227025	179227025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagtgcaaagttcttcAtggtgctcaggtagttgggc	7	12	14	8	0	3	0	2	0	1	0	3	0	3	0	0	3	3	7	0	3	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:179227025A>G	uc003mks.2	-	8	1208	c.839T>C	c.(838-840)ATG>ACG	p.M280T	MGAT4B_uc003mkp.2_Missense_Mutation_p.M135T|MGAT4B_uc003mkq.2_Missense_Mutation_p.M135T|MGAT4B_uc003mkr.2_Missense_Mutation_p.M295T|MIR1229_hsa-mir-1229|MI0006319_5'Flank	NM_014275	NP_055090	Q9UQ53	MGT4B_HUMAN	alpha-1,3-mannosyl-glycoprotein	280	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding				0	all_cancers(89;0.000201)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0525)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAAGTTCTTCATGGTGCTCAG	0.602													15	43					0	0	0.00245	0	0		G	179227025	G	G	179227025	3	3	12	1	0	0	0	0	1	0	0	0	9564	217	8	3	839	3	MGAT4B	5	179227025	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	867328	179227025	1688235	407	9882											
TRIM41	90933	broad.mit.edu	37	chr5	180651518	180651518	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtcaccccactgcccccGcctccagcccctcggaggtg	4	5	9	23	3	1	0	1	0	0	0	3	1	2	1	9	2	2	0	9	2	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr5:180651518G>A	uc003mne.1	+	1	1213	c.519G>A	c.(517-519)CCG>CCA	p.P173P	uc003mnb.1_3'UTR|TRIM41_uc003mnc.1_Silent_p.P173P|TRIM41_uc003mnd.1_Silent_p.P173P|TRIM41_uc003mnf.1_RNA	NM_033549	NP_291027	Q8WV44	TRI41_HUMAN	tripartite motif-containing 41 isoform 1	173						cytoplasm|nucleus	ligase activity|protein binding|zinc ion binding				0	all_cancers(89;9.17e-06)|all_epithelial(37;1.19e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000209)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CACTGCCCCCGCCTCCAGCCC	0.418													6	9					0	0	0.001984	0	0		A	180651518	A	A	180651518	2	1	12	1	0	0	0	0	0	0	0	1	16542	1074	38	1		1	TRIM41	5	180651518	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1424493	180651518	263742	408	9883											
GCM2	9247	broad.mit.edu	37	chr6	10874821	10874821	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaattgacattacattgtaGtgtgttcagatgaacccagt	12	14	9	6	0	1	4	1	3	0	1	1	4	1	4	1	0	2	2	1	0	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:10874821G>A	uc003mzn.3	-	5	1000	c.928C>T	c.(928-930)CTA>TTA	p.L310L	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	310					cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				TTACATTGTAGTGTGTTCAGA	0.428													28	112					0	0	0.009535	0	0		A	10874821	A	A	10874821	2	1	12	1	0	0	0	0	0	0	0	1	6313	1020	36	4		4	GCM2	6	10874821	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08		10874821	160240246	409	9884											
C6orf105	84830	broad.mit.edu	37	chr6	11778881	11778881	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttccaccttgcaccatttgCcaagattttgggtttcacct	7	16	6	12	0	1	1	1	0	0	1	2	1	2	1	5	1	2	2	5	1	1	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:11778881C>T	uc003nab.2	-	1	400	c.112G>A	c.(112-114)GCA>ACA	p.A38T	C6orf105_uc011dip.1_Missense_Mutation_p.A38T	NM_032744	NP_116133	Q96IZ2	CF105_HUMAN	hypothetical protein LOC84830 isoform 2	38						integral to membrane					0	Ovarian(93;0.0848)|Breast(50;0.0871)	all_hematologic(90;0.135)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.193)			GCACCATTTGCCAAGATTTTG	0.418													24	87					0	0	0.005443	0	0		T	11778881	T	T	11778881	3	4	12	1	0	0	0	0	1	0	0	0	2321	739	26	2	662	2	C6orf105	6	11778881	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	904060	11778881	159336186	410	9885											
EDN1	1906	broad.mit.edu	37	chr6	12296244	12296244	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcttttcatgatcccaagCtgaaaggcaagccctccaga	12	9	7	13	0	2	3	1	2	1	1	4	3	4	3	3	1	2	2	3	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:12296244C>T	uc003nae.3	+	5	917	c.583C>T	c.(583-585)CTG>TTG	p.L195L	EDN1_uc003nad.2_3'UTR|EDN1_uc003naf.3_Silent_p.L194L	NM_001955	NP_001946	P05305	EDN1_HUMAN	endothelin 1 precursor	195					artery smooth muscle contraction|calcium-mediated signaling|leukocyte activation|negative regulation of blood coagulation|negative regulation of cellular protein metabolic process|negative regulation of nitric-oxide synthase biosynthetic process|negative regulation of transcription from RNA polymerase II promoter|nitric oxide transport|peptide hormone secretion|phosphatidylinositol 3-kinase cascade|positive regulation of cardiac muscle hypertrophy|positive regulation of cell size|positive regulation of endothelial cell migration|positive regulation of heart rate|positive regulation of hormone secretion|positive regulation of JUN kinase activity|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of sarcomere organization|positive regulation of smooth muscle cell proliferation|prostaglandin biosynthetic process|protein kinase C deactivation|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	cytoplasm|extracellular space	cytokine activity|endothelin A receptor binding|endothelin B receptor binding|hormone activity			skin(1)	1	all_cancers(95;0.241)|Breast(50;0.0266)|Ovarian(93;0.12)	all_hematologic(90;0.117)				TGATCCCAAGCTGAAAGGCAA	0.463													30	121					0	0	0.004289	0	0		T	12296244	T	T	12296244	2	4	12	1	0	0	0	0	0	0	0	1	4922	796	28	2		2	EDN1	6	12296244	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	517363	12296244	158818823	411	9886											
JARID2	3720	broad.mit.edu	37	chr6	15501269	15501269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccagaactgcccaggacCggctggccaagctgcaggag	9	4	13	15	1	0	1	0	0	0	1	1	3	1	3	5	4	4	3	5	4	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:15501269C>T	uc003nbj.2	+	8	2321	c.2077C>T	c.(2077-2079)CGG>TGG	p.R693W	JARID2_uc011div.1_Missense_Mutation_p.R521W|JARID2_uc011diw.1_Missense_Mutation_p.R655W	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	693	ARID.				central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				TGCCCAGGACCGGCTGGCCAA	0.587													7	21					0	0	0.004482	0	0		T	15501269	T	T	15501269	3	4	12	1	0	0	0	0	1	0	0	0	7961	643	23	1	2107	1	JARID2	6	15501269	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3205025	15501269	155613798	412	9887											
JARID2	3720	broad.mit.edu	37	chr6	15507634	15507634	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtccatcctgcgtcacctCggtgctgtgcctggtaagcc	4	10	13	14	2	1	0	1	0	0	0	4	0	3	0	5	3	4	2	5	3	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:15507634C>T	uc003nbj.2	+	11	2962	c.2718C>T	c.(2716-2718)CTC>CTT	p.L906L	JARID2_uc011div.1_Silent_p.L734L|JARID2_uc011diw.1_Silent_p.L868L	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	906	JmjC.				central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				TGCGTCACCTCGGTGCTGTGC	0.582													7	37					0	0	0.006214	0	0		T	15507634	T	T	15507634	2	4	12	1	0	0	0	0	0	0	0	1	7961	871	31	1		1	JARID2	6	15507634	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	6365	15507634	155607433	413	9888											
JARID2	3720	broad.mit.edu	37	chr6	15520429	15520429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcgacagtggacgtgcccCcctcccgtctgtcagcctcc	5	7	11	18	3	2	0	1	0	1	0	4	3	4	1	6	1	3	0	6	1	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:15520429C>T	uc003nbj.2	+	18	3932	c.3688C>T	c.(3688-3690)CCC>TCC	p.P1230S	JARID2_uc011div.1_Missense_Mutation_p.P1058S	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	1230					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				GGACGTGCCCCCCTCCCGTCT	0.373													9	47					0	0	0.008291	0	0		T	15520429	T	T	15520429	3	4	12	1	0	0	0	0	1	0	0	0	7961	623	22	4	3758	4	JARID2	6	15520429	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	12795	15520429	155594638	414	9889											
NUP153	9972	broad.mit.edu	37	chr6	17629339	17629339	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagcaggagcaggggtggAgttaataacacctgtaccaa	13	8	13	7	0	0	0	0	0	0	0	0	2	0	2	2	4	4	5	2	4	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:17629339A>C	uc003ncd.1	-	18	3291	c.3091T>G	c.(3091-3093)TCC>GCC	p.S1031A	NUP153_uc011dje.1_Missense_Mutation_p.S1062A|NUP153_uc010jpl.1_Missense_Mutation_p.S989A	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	1031					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			GCAGGGGTGGAGTTAATAACA	0.448													11	37					0	0	0.000978	0	0		C	17629339	C	C	17629339	3	2	12	1	0	0	0	0	1	0	0	0	10774	304	11	5	1356	5	NUP153	6	17629339	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2108910	17629339	153485728	415	9890											
BTN2A2	10385	broad.mit.edu	37	chr6	26384103	26384103	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ccagcctccctcctcctcctCctgctcctcctccttctcag	2	12	3	24	0	1	0	1	0	1	0	10	0	9	0	10	0	2	1	10	0	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:26384103C>G	uc003nhq.2	+	2	140	c.54C>G	c.(52-54)CTC>CTG	p.L18L	BTN2A2_uc011dkf.1_Silent_p.L18L|BTN2A2_uc011dkg.1_Silent_p.L18L|BTN2A2_uc003nhr.2_Silent_p.L18L|BTN2A2_uc011dkh.1_Silent_p.L18L|BTN2A2_uc003nhs.2_Silent_p.L18L|BTN2A2_uc003nht.2_Silent_p.L18L	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	18					negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						tcctcctcctcctgctcctcc	0.488													9	36					0	0	0.008291	0	0		G	26384103	G	G	26384103	2	3	12	1	0	0	0	0	0	0	0	1	1564	842	30	5		5	BTN2A2	6	26384103	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	8754764	26384103	144730964	416	9891											
BTN3A3	10384	broad.mit.edu	37	chr6	26452045	26452045	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttactgtgtccttggctgTgaaaacttcacatcagggag	9	12	11	9	1	2	1	2	1	0	0	3	2	3	2	1	2	2	2	1	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:26452045T>C	uc003nhz.2	+	11	1341	c.1161T>C	c.(1159-1161)TGT>TGC	p.C387C	BTN3A3_uc003nia.2_Silent_p.C345C|BTN3A3_uc011dkn.1_Silent_p.C338C	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	387	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane					0						TCCTTGGCTGTGAAAACTTCA	0.502													13	46					0	0	0.00245	0	0		C	26452045	C	C	26452045	2	2	12	1	0	0	0	0	0	0	0	1	1567	1702	59	3		3	BTN3A3	6	26452045	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	67942	26452045	144663022	417	9892											
HLA-G	3135	broad.mit.edu	37	chr6	29797196	29797196	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctgactcttcctttcagaCccccccaagacacacgtgac	9	10	5	17	1	3	4	1	2	2	2	4	4	4	4	4	0	0	0	4	0	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:29797196C>T	uc003nnw.2	+	5	799	c.621C>T	c.(619-621)GAC>GAT	p.D207D	HLA-G_uc011dmb.1_Silent_p.D179D|HLA-G_uc003raj.3_Silent_p.D212D|HLA-G_uc003nnz.3_Silent_p.N115N|HLA-G_uc010jrn.2_Intron|HLA-G_uc003nny.3_RNA|HLA-G_uc003ran.1_5'Flank	NM_002127	NP_002118	P17693	HLAG_HUMAN	major histocompatibility complex, class I, G	207	Extracellular (Potential).|Alpha-3.				antigen processing and presentation of peptide antigen via MHC class I|cellular defense response|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			ovary(3)|central_nervous_system(1)	4						TCCTTTCAGACCCCCCCAAGA	0.537													25	81					0	0	0.004656	0	0		T	29797196	T	T	29797196	2	4	12	1	0	0	0	0	0	0	0	1	7228	521	18	4		4	HLA-G	6	29797196	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3345151	29797196	141317871	418	9893											
TRIM26	7726	broad.mit.edu	37	chr6	30154088	30154088	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcctcctcttcctcctcCtcctcttctccctcttcctc	0	15	2	24	1	4	0	0	0	4	0	12	0	10	0	9	1	0	0	9	1	0	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:30154088C>T	uc003npr.2	-	9	1394	c.1185G>A	c.(1183-1185)GAG>GAA	p.E395E	TRIM26_uc003nps.2_Silent_p.E395E|TRIM26_uc010jry.2_Silent_p.E125E|TRIM26_uc003npt.2_Silent_p.E395E	NM_003449	NP_003440	Q12899	TRI26_HUMAN	tripartite motif-containing 26	395	B30.2/SPRY.|Poly-Glu.						DNA binding|zinc ion binding			ovary(2)|lung(1)	3						cttcctcctcctcctcttctc	0.338													6	17					0	0	0.00308	0	0		T	30154088	T	T	30154088	2	4	12	1	0	0	0	0	0	0	0	1	16526	680	24	4		4	TRIM26	6	30154088	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	356892	30154088	140960979	419	9894											
PPP1R10	5514	broad.mit.edu	37	chr6	30574361	30574361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttcacctctgtcaaaggtCgctcaggaagggtagttcga	9	10	11	11	2	4	0	3	0	1	0	6	2	4	1	2	3	0	3	2	3	3	3	rs16897725		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:30574361C>T	uc003nqn.1	-	8	1070	c.518G>A	c.(517-519)CGA>CAA	p.R173Q	PPP1R10_uc010jsc.1_5'UTR	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	173	Interaction with TOX4 (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						TGTCAAAGGTCGCTCAGGAAG	0.473													19	64					0	0	0.010504	0	0		T	30574361	T	T	30574361	3	4	12	1	0	0	0	0	1	0	0	0	12374	884	31	1	2356	1	PPP1R10	6	30574361	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	420273	30574361	140540706	420	9895											
DHX16	8449	broad.mit.edu	37	chr6	30632714	30632714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgggaggctgcggcggacgGcctggatggactctttctgc	4	8	17	12	4	2	0	0	0	2	0	2	4	2	4	2	7	2	1	2	7	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:30632714G>A	uc003nqz.2	-	7	1393	c.1181C>T	c.(1180-1182)GCC>GTC	p.A394V	DHX16_uc003nqy.2_5'Flank|DHX16_uc011dmo.1_Missense_Mutation_p.A334V	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	394					mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4						GCGGCGGACGGCCTGGATGGA	0.572													11	19					0	0	0.001368	0	0		A	30632714	A	A	30632714	3	1	12	1	0	0	0	0	1	0	0	0	4508	1203	42	2	2000	2	DHX16	6	30632714	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	58353	30632714	140482353	421	9896											
MDC1	9656	broad.mit.edu	37	chr6	30672220	30672220	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctggtttctggaggtggaAggctgaagctcaggggctat	8	10	17	6	0	2	1	1	1	1	0	2	3	2	3	0	7	2	5	0	7	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:30672220A>G	uc003nrg.3	-	10	5180	c.4740T>C	c.(4738-4740)CCT>CCC	p.P1580P	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Silent_p.P1187P	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1580	Interaction with the PRKDC complex.				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TGGAGGTGGAAGGCTGAAGCT	0.572								Other_conserved_DNA_damage_response_genes					32	139					0	0	0.003271	0	0		G	30672220	G	G	30672220	2	3	12	1	0	0	0	0	0	0	0	1	9421	59	3	3		3	MDC1	6	30672220	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	39506	30672220	140442847	422	9897											
SKIV2L	6499	broad.mit.edu	37	chr6	31931826	31931826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttgacctcaccaccagttCggagaagagcgagatccacc	11	6	9	15	2	1	4	1	1	0	3	3	6	2	4	6	1	1	1	6	1	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:31931826C>T	uc003nyn.1	+	16	2173	c.1784C>T	c.(1783-1785)TCG>TTG	p.S595L	SKIV2L_uc011dou.1_Missense_Mutation_p.S437L|SKIV2L_uc011dov.1_Missense_Mutation_p.S402L	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	595	Helicase C-terminal.					nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						ACCACCAGTTCGGAGAAGAGC	0.582													30	33					0	0	0.008361	0	0		T	31931826	T	T	31931826	3	4	12	1	0	0	0	0	1	0	0	0	14384	893	31	1	1846	1	SKIV2L	6	31931826	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1259606	31931826	139183241	423	9898											
SYNGAP1	8831	broad.mit.edu	37	chr6	33411085	33411085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagacggtgtccctgcccAgcaactgcgaatccccctct	8	7	8	18	2	1	1	0	0	1	1	3	2	3	1	4	1	4	1	4	1	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:33411085A>G	uc011dri.1	+	15	2951	c.2756A>G	c.(2755-2757)CAG>CGG	p.Q919R	SYNGAP1_uc010juy.2_Missense_Mutation_p.Q890R|SYNGAP1_uc010juz.2_Missense_Mutation_p.Q631R	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	919					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						GTCCCTGCCCAGCAACTGCGA	0.682													27	100					0	0	0.003271	0	0		G	33411085	G	G	33411085	3	3	12	1	0	0	0	0	1	0	0	0	15472	188	7	3	2814	3	SYNGAP1	6	33411085	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1479259	33411085	137703982	424	9899											
GRM4	2914	broad.mit.edu	37	chr6	34008491	34008491	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactgcaccttcccctcctgCtcataagctgaatcctgccc	8	10	5	18	0	1	1	1	1	0	0	4	1	4	1	6	0	5	3	6	0	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:34008491C>T	uc003oir.3	-	6	1373	c.1203G>A	c.(1201-1203)GAG>GAA	p.E401E	GRM4_uc011dsn.1_Silent_p.E354E|GRM4_uc010jvh.2_Silent_p.E401E|GRM4_uc010jvi.2_Silent_p.E93E|GRM4_uc003oio.2_Silent_p.E93E|GRM4_uc003oip.2_RNA|GRM4_uc011dsl.1_Silent_p.E261E|GRM4_uc003oiq.2_Silent_p.E268E|GRM4_uc011dsm.1_Silent_p.E232E	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	401	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	TCCCCTCCTGCTCATAAGCTG	0.612													10	46					0	0	0.00245	0	0		T	34008491	T	T	34008491	2	4	12	1	0	0	0	0	0	0	0	1	6815	796	28	2		2	GRM4	6	34008491	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	597406	34008491	137106576	425	9900											
ANKS1A	23294	broad.mit.edu	37	chr6	34937854	34937854	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgactcaaaaggctgctacCctctgcatttggcagcctgg	8	10	10	13	0	2	1	1	1	1	0	2	1	2	1	2	3	4	4	2	3	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:34937854C>A	uc003ojx.3	+	3	488	c.346C>A	c.(346-348)CCT>ACT	p.P116T	ANKS1A_uc011dss.1_Missense_Mutation_p.P116T|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR|ANKS1A_uc010jvq.1_RNA|ANKS1A_uc010jvr.1_5'Flank	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	116	ANK 2.					cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						AGGCTGCTACCCTCTGCATTT	0.512													17	77					1.28384e-07	1.40533e-07	0.001882	1	0		A	34937854	A	A	34937854	3	1	12	1	0	0	0	0	1	0	0	0	688	623	22	5	356	5	ANKS1A	6	34937854	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	929363	34937854	136177213	426	9901											
ZNF76	7629	broad.mit.edu	37	chr6	35260699	35260699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgccacccaaacgacccCggatagcttacctttcggag	9	7	9	16	4	0	0	0	0	0	0	2	3	1	2	6	2	3	1	6	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:35260699C>T	uc003oki.1	+	11	1412	c.1207C>T	c.(1207-1209)CGG>TGG	p.R403W	ZNF76_uc003okj.1_Missense_Mutation_p.R403W	NM_003427	NP_003418	P36508	ZNF76_HUMAN	zinc finger protein 76 (expressed in testis)	403					regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CAAACGACCCCGGATAGCTTA	0.612													20	58					0	0	0.005443	0	0		T	35260699	T	T	35260699	3	4	12	1	0	0	0	0	1	0	0	0	18160	643	23	1	1245	1	ZNF76	6	35260699	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	322845	35260699	135854368	427	9902											
TULP1	7287	broad.mit.edu	37	chr6	35478786	35478786	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctcttcctcctcctcCtctgcaggtagaaactcttc	5	14	4	18	0	3	1	0	0	3	1	10	1	9	1	6	1	2	2	6	1	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:35478786C>A	uc003okv.3	-	5	363	c.351G>T	c.(349-351)GAG>GAT	p.E117D	TULP1_uc003okw.3_Missense_Mutation_p.E64D	NM_003322	NP_003313	O00294	TULP1_HUMAN	tubby like protein 1	117	Poly-Glu.				dendrite development|eye photoreceptor cell development|phagocytosis|photoreceptor cell maintenance|positive regulation of phagocytosis	cell junction|cytoplasm|extracellular region|photoreceptor inner segment|photoreceptor outer segment|synapse	actin filament binding|phosphatidylinositol-4,5-bisphosphate binding			ovary(2)|central_nervous_system(1)	3						cctcctcctcctcTGCAGGTA	0.383													18	55					6.94344e-10	7.73698e-10	0.006122	1	0		A	35478786	A	A	35478786	3	1	12	1	0	0	0	0	1	0	0	0	16799	695	24	5	1321	5	TULP1	6	35478786	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	218087	35478786	135636281	428	9903											
PI16	221476	broad.mit.edu	37	chr6	36930862	36930862	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttcttggtaacagaggtCtcaggctccctggcaaccaa	9	10	10	12	0	2	1	1	0	2	1	4	1	3	1	2	4	2	4	2	4	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:36930862C>A	uc003ona.2	+	5	1072	c.744C>A	c.(742-744)GTC>GTA	p.V248V	PI16_uc003omz.1_Intron|PI16_uc003onb.2_Intron|PI16_uc011dts.1_Silent_p.V19V	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	248	Extracellular (Potential).					extracellular region|integral to membrane	peptidase inhibitor activity				0						TAACAGAGGTCTCAGGCTCCC	0.577													20	54					1.85244e-09	2.05576e-09	0.00333	1	0		A	36930862	A	A	36930862	2	1	12	1	0	0	0	0	0	0	0	1	11888	900	32	5		5	PI16	6	36930862	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1452076	36930862	134184205	429	9904											
FTSJD2	23070	broad.mit.edu	37	chr6	37430630	37430630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtgtgcaagggcctgaagGtgggcatagatgatgttcgg	8	10	18	5	1	0	3	0	2	0	1	1	3	0	3	1	5	1	3	1	5	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:37430630G>A	uc003ons.2	+	13	1604	c.1351G>A	c.(1351-1353)GTG>ATG	p.V451M		NM_015050	NP_055865	Q8N1G2	MTR1_HUMAN	FtsJ methyltransferase domain containing 2	451					mRNA capping	cytoplasm|nucleus	mRNA (nucleoside-2'-O-)-methyltransferase activity|nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GGGCCTGAAGGTGGGCATAGA	0.527													6	64					0	0	0.00308	0	0		A	37430630	A	A	37430630	3	1	12	1	0	0	0	0	1	0	0	0	6105	1261	44	4	1397	4	FTSJD2	6	37430630	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	499768	37430630	133684437	430	9905											
BTBD9	114781	broad.mit.edu	37	chr6	38560444	38560444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggagacagcagtcctgaaGgcctcacaacattcagaagc	14	5	10	12	0	2	3	2	1	0	2	3	4	3	3	2	2	3	1	2	2	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:38560444G>A	uc003ooa.3	-	5	1298	c.722C>T	c.(721-723)CCT>CTT	p.P241L	BTBD9_uc003ony.3_Missense_Mutation_p.P173L|BTBD9_uc010jwv.2_Missense_Mutation_p.P173L|BTBD9_uc010jww.2_RNA|BTBD9_uc010jwx.2_Missense_Mutation_p.P241L	NM_052893	NP_443125	Q96Q07	BTBD9_HUMAN	BTB (POZ) domain containing 9 isoform a	241					cell adhesion						0						CAGTCCTGAAGGCCTCACAAC	0.478													10	29					0	0	0.000978	0	0		A	38560444	A	A	38560444	3	1	12	1	0	0	0	0	1	0	0	0	1551	1000	35	4	1239	4	BTBD9	6	38560444	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1129814	38560444	132554623	431	9906											
DNAH8	1769	broad.mit.edu	37	chr6	38863896	38863896	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctctgatgcagcgtcgtgTattcttcctgaaccatactt	7	14	9	11	2	2	2	0	2	2	0	4	2	3	2	2	1	4	3	2	1	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:38863896T>C	uc003ooe.1	+	58	8784	c.8184T>C	c.(8182-8184)TGT>TGC	p.C2728C		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CAGCGTCGTGTATTCTTCCTG	0.398													15	53					0	0	0.003163	0	0		C	38863896	C	C	38863896	2	2	12	1	0	0	0	0	0	0	0	1	4613	1644	57	3		3	DNAH8	6	38863896	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	303452	38863896	132251171	432	9907											
LRFN2	57497	broad.mit.edu	37	chr6	40399588	40399588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacaagcacagcccgttccGgggggcttttgggaggctct	7	8	14	12	2	1	0	0	0	1	0	2	1	2	1	2	5	2	4	2	5	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:40399588G>A	uc003oph.1	-	2	1730	c.1265C>T	c.(1264-1266)CCG>CTG	p.P422L		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	422	Fibronectin type-III.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					AGCCCGTTCCGGGGGGCTTTT	0.642													19	18					0	0	0.008871	0	0		A	40399588	A	A	40399588	3	1	12	1	0	0	0	0	1	0	0	0	8956	1116	39	1	1112	1	LRFN2	6	40399588	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1535692	40399588	130715479	433	9908											
CNPY3	10695	broad.mit.edu	37	chr6	42903362	42903362	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttgcaagaggctcctggAttatagcctgcacaaggaga	12	9	11	9	0	0	2	0	0	0	2	1	4	1	3	2	3	3	3	2	3	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:42903362A>C	uc003ota.3	+	3	775	c.326A>C	c.(325-327)GAT>GCT	p.D109A	CNPY3_uc003osy.2_RNA|CNPY3_uc003osz.2_Missense_Mutation_p.D109A|CNPY3_uc003otc.3_5'UTR|CNPY3_uc003otb.3_Missense_Mutation_p.D20A	NM_006586	NP_006577	Q9BT09	CNPY3_HUMAN	trinucleotide repeat containing 5 precursor	109	Saposin B-type.				innate immune response	endoplasmic reticulum				ovary(1)	1	Colorectal(47;0.196)		all cancers(41;0.000954)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|OV - Ovarian serous cystadenocarcinoma(102;0.0218)|Kidney(15;0.0388)			AGGCTCCTGGATTATAGCCTG	0.542													9	27					0	0	0.000978	0	0		C	42903362	C	C	42903362	3	2	12	1	0	0	0	0	1	0	0	0	3632	333	12	5	336	5	CNPY3	6	42903362	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2503774	42903362	128211705	434	9909											
PEX6	5190	broad.mit.edu	37	chr6	42936059	42936059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcctcattgaggaggaggtGacgcagcacagccatcacac	11	6	12	12	1	2	2	2	2	0	0	3	4	3	4	2	3	2	2	2	3	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:42936059G>A	uc003otf.2	-	7	1750	c.1657C>T	c.(1657-1659)CAC>TAC	p.H553Y	PEX6_uc010jya.2_RNA	NM_000287	NP_000278	Q13608	PEX6_HUMAN	peroxisomal biogenesis factor 6	553					protein import into peroxisome matrix, translocation|protein stabilization	cytosol|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)	1			all cancers(41;0.00235)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0562)			AGGAGGAGGTGACGCAGCACA	0.542													17	15					0	0	0.00499	0	0		A	42936059	A	A	42936059	3	1	12	1	0	0	0	0	1	0	0	0	11769	1290	45	4	1329	4	PEX6	6	42936059	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	32697	42936059	128179008	435	9910											
MRPL2	51069	broad.mit.edu	37	chr6	43023827	43023827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccatctctcacctgccattCggcctatgtggttagagttc	6	13	9	13	1	2	1	1	0	1	1	5	1	2	1	4	2	1	2	4	2	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:43023827C>T	uc003ots.1	-	4	635	c.512G>A	c.(511-513)CGA>CAA	p.R171Q	CUL7_uc011dvb.1_5'Flank|CUL7_uc003otq.2_5'Flank|CUL7_uc010jyh.2_5'Flank|KLC4_uc003otr.1_Intron|MRPL2_uc011dvc.1_Missense_Mutation_p.R171Q	NM_015950	NP_057034	Q5T653	RM02_HUMAN	mitochondrial ribosomal protein L2 precursor	171					translation	mitochondrion|ribosome	structural constituent of ribosome				0		Ovarian(999;0.0014)	Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00708)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)	BRCA - Breast invasive adenocarcinoma(397;0.0026)		ACCTGCCATTCGGCCTATGTG	0.517													11	30					0	0	0.001368	0	0		T	43023827	T	T	43023827	3	4	12	1	0	0	0	0	1	0	0	0	9803	884	31	1	421	1	MRPL2	6	43023827	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	87768	43023827	128091240	436	9911											
TMEM63B	55362	broad.mit.edu	37	chr6	44120388	44120388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatgatgtgcgtcttcaCggtggtcatgacctacagta	8	12	12	9	2	3	2	2	2	1	0	3	3	3	3	1	3	2	1	1	3	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:44120388C>T	uc003owr.2	+	20	1959	c.1895C>T	c.(1894-1896)ACG>ATG	p.T632M	TMEM63B_uc003ows.2_Missense_Mutation_p.T535M|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	632	Helical; (Potential).					integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			TGCGTCTTCACGGTGGTCATG	0.662											OREG0017465	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	64					0	0	0.007413	0	0		T	44120388	T	T	44120388	3	4	12	1	0	0	0	0	1	0	0	0	16216	536	19	1	1969	1	TMEM63B	6	44120388	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1096561	44120388	126994679	437	9912											
TDRD6	221400	broad.mit.edu	37	chr6	46661387	46661387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgaggtgccgctttctcCtgatgatgaatcaaaagaat	12	12	9	8	1	2	5	1	4	1	1	3	5	2	5	2	1	1	1	2	1	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:46661387C>T	uc003oyj.2	+	1	5522	c.5522C>T	c.(5521-5523)CCT>CTT	p.P1841L	TDRD6_uc010jze.2_Missense_Mutation_p.P1835L	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1841					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			CCGCTTTCTCCTGATGATGAA	0.403													33	73					0	0	0.004878	0	0		T	46661387	T	T	46661387	3	4	12	1	0	0	0	0	1	0	0	0	15759	681	24	4	5524	4	TDRD6	6	46661387	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2540999	46661387	124453680	438	9913											
CD2AP	23607	broad.mit.edu	37	chr6	47471097	47471097	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaaatcatcaggaatgTgaaaaagctacaggaggaag	18	6	13	4	0	2	2	2	1	0	1	2	6	2	5	0	4	2	1	0	4	6	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:47471097T>C	uc003oyw.2	+	2	542	c.86T>C	c.(85-87)GTG>GCG	p.V29A		NM_012120	NP_036252	Q9Y5K6	CD2AP_HUMAN	CD2-associated protein	29	Interaction with ANLN and localization to the midbody.|SH3 1; truncated.				cell division|mitosis|protein complex assembly|signal transduction|substrate-dependent cell migration, cell extension	cytoplasm|filamentous actin|nucleolus|plasma membrane|ruffle	SH3 domain binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2			Lung(136;0.105)|LUSC - Lung squamous cell carcinoma(51;0.138)			ATCAGGAATGTGAAAAAGCTA	0.368													14	34					0	0	0.003163	0	0		C	47471097	C	C	47471097	3	2	12	1	0	0	0	0	1	0	0	0	2997	1696	59	3	92	3	CD2AP	6	47471097	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	809710	47471097	123643970	439	9914											
OPN5	221391	broad.mit.edu	37	chr6	47759639	47759639	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctggatttttctttggcTgtggaagccttatcaccatg	6	15	12	8	0	2	0	1	0	1	0	2	2	2	2	2	4	1	2	2	4	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:47759639T>C	uc003ozc.2	+	3	357	c.352T>C	c.(352-354)TGT>CGT	p.C118R	OPN5_uc003ozd.2_5'UTR	NM_181744	NP_859528	Q6U736	OPN5_HUMAN	opsin 5 isoform 1	118	Helical; Name=3; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1						TTTCTTTGGCTGTGGAAGCCT	0.483													9	20					0	0	0.004482	0	0		C	47759639	C	C	47759639	3	2	12	1	0	0	0	0	1	0	0	0	10902	1580	55	3	362	3	OPN5	6	47759639	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	288542	47759639	123355428	440	9915											
PGK2	5232	broad.mit.edu	37	chr6	49754751	49754751	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccttggctccattgtccagGcagtacttgatgcttgggat	6	13	12	10	0	0	1	0	1	0	0	2	2	2	2	3	3	2	4	3	3	1	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:49754751G>A	uc003ozu.2	-	1	257	c.150C>T	c.(148-150)TGC>TGT	p.C50C		NM_138733	NP_620061	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	50					glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			ovary(1)	1	Lung NSC(77;0.0402)					CATTGTCCAGGCAGTACTTGA	0.468													20	82					0	0	0.010504	0	0		A	49754751	A	A	49754751	2	1	12	1	0	0	0	0	0	0	0	1	11810	1195	42	2		2	PGK2	6	49754751	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1995112	49754751	121360316	441	9916											
PKHD1	5314	broad.mit.edu	37	chr6	51882291	51882291	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattgggaactttcctcgcaAatgtagaggtaaggccacga	12	9	11	9	2	0	1	0	0	0	1	2	3	1	2	2	3	1	3	2	3	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:51882291A>G	uc003pah.1	-	34	5793	c.5517T>C	c.(5515-5517)ATT>ATC	p.I1839I	PKHD1_uc003pai.2_Silent_p.I1839I	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1839	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TTTCCTCGCAAATGTAGAGGT	0.493													36	117					0	0	0.005524	0	0		G	51882291	G	G	51882291	2	3	12	1	0	0	0	0	0	0	0	1	11990	10	1	3		3	PKHD1	6	51882291	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2127540	51882291	119232776	442	9917											
LRRC1	55227	broad.mit.edu	37	chr6	53706924	53706924	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcaatttttccagctagTcaaattacgaaagcttggac	13	12	7	9	1	2	0	2	0	0	0	3	2	3	1	1	1	4	3	1	1	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:53706924T>C	uc003pcd.1	+	2	453	c.176T>C	c.(175-177)GTC>GCC	p.V59A		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	59						cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		TTCCAGCTAGTCAAATTACGA	0.358													10	46					0	0	0.006214	0	0		C	53706924	C	C	53706924	3	2	12	1	0	0	0	0	1	0	0	0	8984	1667	58	3	182	3	LRRC1	6	53706924	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1824633	53706924	117408143	443	9918											
TINAG	27283	broad.mit.edu	37	chr6	54212213	54212213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctaagggtcgatacacggCcaatctatcccctcagaatt	11	10	8	12	2	3	1	1	0	2	1	5	2	4	1	3	2	1	0	3	2	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:54212213C>T	uc003pcj.2	+	6	943	c.797C>T	c.(796-798)GCC>GTC	p.A266V	TINAG_uc010jzt.2_Intron	NM_014464	NP_055279	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	266					cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			CGATACACGGCCAATCTATCC	0.423													7	28					0	0	0.001984	0	0		T	54212213	T	T	54212213	3	4	12	1	0	0	0	0	1	0	0	0	15946	739	26	2	819	2	TINAG	6	54212213	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	505289	54212213	116902854	444	9919											
PRIM2	5558	broad.mit.edu	37	chr6	57398247	57398247	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctatttctgaagggcattgGtttaactttggaacagacat	11	14	9	7	0	1	2	0	1	1	1	1	3	1	3	1	3	2	2	1	3	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:57398247G>T	uc003pdx.2	+	10	1037	c.950G>T	c.(949-951)GGT>GTT	p.G317V		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	317					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		AAGGGCATTGGTTTAACTTTG	0.388													5	131					1.58986e-06	1.72235e-06	0.008291	1	0		T	57398247	T	T	57398247	3	4	12	1	0	0	0	0	1	0	0	0	12513	1261	44	5	984	5	PRIM2	6	57398247	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3186034	57398247	113716820	445	9920											
BAI3	577	broad.mit.edu	37	chr6	70098693	70098693	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcttagacacagaggcaaaGgatgctttggaactgaggcc	12	8	13	8	0	1	3	0	1	1	2	1	5	1	5	1	4	2	2	1	4	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:70098693G>T	uc003pev.3	+	32	4927	c.4479G>T	c.(4477-4479)AAG>AAT	p.K1493N	BAI3_uc010kak.2_Missense_Mutation_p.K1493N|BAI3_uc011dxx.1_Missense_Mutation_p.K699N	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1493	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				CAGAGGCAAAGGATGCTTTGG	0.443													13	37					1.52009e-12	1.71765e-12	0.003163	1	0		T	70098693	T	T	70098693	3	4	12	1	0	0	0	0	1	0	0	0	1301	991	35	5	4597	5	BAI3	6	70098693	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	12700446	70098693	101016374	446	9921											
LMBRD1	55788	broad.mit.edu	37	chr6	70423622	70423622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctctctcttcttaagtgttCgtaacctttcttcaaattgt	7	20	4	10	1	5	0	1	0	4	0	8	0	5	0	1	0	1	2	1	0	3	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:70423622C>T	uc003pfa.2	-	9	945	c.830G>A	c.(829-831)CGA>CAA	p.R277Q	LMBRD1_uc003pey.2_Missense_Mutation_p.R73Q|LMBRD1_uc003pez.2_Missense_Mutation_p.R204Q|LMBRD1_uc010kal.2_Missense_Mutation_p.R204Q|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	277	Cytoplasmic (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						CTTAAGTGTTCGTAACCTTTC	0.393													5	46					0	0	0.000602	0	0		T	70423622	T	T	70423622	3	4	12	1	0	0	0	0	1	0	0	0	8859	884	31	1	824	1	LMBRD1	6	70423622	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	324929	70423622	100691445	447	9922											
RIMS1	22999	broad.mit.edu	37	chr6	72889303	72889303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgggtatgcaatttatgtcGaaagcaacaagaaatcttaa	16	11	9	5	1	1	1	0	0	1	1	2	2	1	1	0	1	3	3	0	1	8	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:72889303G>A	uc003pga.2	+	5	574	c.497G>A	c.(496-498)CGA>CAA	p.R166Q	RIMS1_uc011dyb.1_5'Flank|RIMS1_uc003pgc.2_5'Flank|RIMS1_uc003pgb.3_5'Flank	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	166	RabBD.|FYVE-type.				calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				AATTTATGTCGAAAGCAACAA	0.363													8	34					0	0	0.00308	0	0		A	72889303	A	A	72889303	3	1	12	1	0	0	0	0	1	0	0	0	13392	1058	37	1	515	1	RIMS1	6	72889303	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2465681	72889303	98225764	448	9923											
KCNQ5	56479	broad.mit.edu	37	chr6	73902309	73902309	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgatcaaattcttggaaaAgggcaaatcacatcagataa	17	10	8	6	0	4	2	3	1	1	1	4	3	4	3	0	2	0	2	0	2	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:73902309A>G	uc003pgk.2	+	13	2078	c.1731A>G	c.(1729-1731)AAA>AAG	p.K577K	KCNQ5_uc011dyh.1_Silent_p.K596K|KCNQ5_uc011dyi.1_Silent_p.K587K|KCNQ5_uc010kat.2_Silent_p.K568K|KCNQ5_uc011dyj.1_Silent_p.K467K|KCNQ5_uc011dyk.1_Silent_p.K327K	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	577					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		TTCTTGGAAAAGGGCAAATCA	0.433													13	87					0	0	0.001855	0	0		G	73902309	G	G	73902309	2	3	12	1	0	0	0	0	0	0	0	1	8102	69	3	3		3	KCNQ5	6	73902309	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1013006	73902309	97212758	449	9924											
KCNQ5	56479	broad.mit.edu	37	chr6	73904255	73904255	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaggctctgcctcagccctCgctttggcttcattccagat	7	12	8	14	1	3	1	2	0	1	1	5	1	4	1	3	2	2	3	3	2	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:73904255C>T	uc003pgk.2	+	14	2264	c.1917C>T	c.(1915-1917)CTC>CTT	p.L639L	KCNQ5_uc011dyh.1_Silent_p.L658L|KCNQ5_uc011dyi.1_Silent_p.L649L|KCNQ5_uc010kat.2_Silent_p.L630L|KCNQ5_uc011dyj.1_Silent_p.L529L|KCNQ5_uc011dyk.1_Silent_p.L389L	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	639					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CCTCAGCCCTCGCTTTGGCTT	0.473													18	40					0	0	0.006122	0	0		T	73904255	T	T	73904255	2	4	12	1	0	0	0	0	0	0	0	1	8102	871	31	1		1	KCNQ5	6	73904255	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1946	73904255	97210812	450	9925											
C6orf150	115004	broad.mit.edu	37	chr6	74150030	74150030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaaagccagttttgaatgCgcaggccttcttgggtgcta	8	12	12	9	1	1	2	0	2	1	0	1	2	1	2	2	2	3	3	2	2	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:74150030C>T	uc003pgx.1	-	3	1155	c.1016G>A	c.(1015-1017)CGC>CAC	p.R339H		NM_138441	NP_612450	Q8N884	M21D1_HUMAN	hypothetical protein LOC115004	339											0						GTTTTGAATGCGCAGGCCTTC	0.428													11	47					0	0	0.000978	0	0		T	74150030	T	T	74150030	3	4	12	1	0	0	0	0	1	0	0	0	2340	768	27	1	564	1	C6orf150	6	74150030	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	245775	74150030	96965037	451	9926											
SLC35A1	10559	broad.mit.edu	37	chr6	88187198	88187198	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaactctacttttcaacCacagccgtgtgtatcacaga	14	10	6	11	1	3	2	2	0	1	2	3	2	3	2	2	0	4	1	2	0	5	4	rs3173204		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:88187198C>A	uc011dzj.1	+	2	214	c.135C>A	c.(133-135)ACC>ACA	p.T45T	SLC35A1_uc003plx.2_RNA|SLC35A1_uc010kbw.2_5'UTR|SLC35A1_uc003plz.2_RNA|SLC35A1_uc011dzi.1_5'UTR|SLC35A1_uc003ply.2_RNA|SLC35A1_uc010kbx.2_Silent_p.T45T|SLC35A1_uc010kby.2_RNA|C6orf165_uc010kbv.1_RNA	NM_006416	NP_006407	P78382	S35A1_HUMAN	solute carrier family 35 (CMP-sialic acid	45	Lumenal (Potential).				carbohydrate metabolic process|protein modification process	Golgi membrane|integral to plasma membrane	CMP-N-acetylneuraminate transmembrane transporter activity|sugar:hydrogen symporter activity				0		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		ACTTTTCAACCACAGCCGTGT	0.358													10	54					6.42651e-13	7.27983e-13	0.000978	1	0		A	88187198	A	A	88187198	2	1	12	1	0	0	0	0	0	0	0	1	14595	581	21	5		5	SLC35A1	6	88187198	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	14037168	88187198	82927869	452	9927											
MDN1	23195	broad.mit.edu	37	chr6	90354754	90354754	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtgaactgggattgtccaAtacaacaaagatgacaaaga	17	7	9	8	1	0	4	0	2	0	2	1	5	1	5	2	1	3	0	2	1	6	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:90354754A>G	uc003pnn.1	-	101	16698	c.16582T>C	c.(16582-16584)TTG>CTG	p.L5528L		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5528	VWFA.				protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GGATTGTCCAATACAACAAAG	0.478													11	50					0	0	0.000978	0	0		G	90354754	G	G	90354754	2	3	12	1	0	0	0	0	0	0	0	1	9433	98	4	3		3	MDN1	6	90354754	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2167556	90354754	80760313	453	9928											
MDN1	23195	broad.mit.edu	37	chr6	90513053	90513053	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattgctactcacgggaggAcatcaggatggttaccaatg	13	9	11	8	1	2	0	2	0	0	0	2	3	2	3	1	4	3	2	1	4	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:90513053A>G	uc003pnn.1	-	2	439	c.323T>C	c.(322-324)GTC>GCC	p.V108A	MDN1_uc003pnp.1_Missense_Mutation_p.V108A	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	108					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TCACGGGAGGACATCAGGATG	0.463													13	99					0	0	0.001855	0	0		G	90513053	G	G	90513053	3	3	12	1	0	0	0	0	1	0	0	0	9433	275	10	3	16871	3	MDN1	6	90513053	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	158299	90513053	80602014	454	9929											
C6orf168	84553	broad.mit.edu	37	chr6	99739692	99739692	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccccatgatgtacttcttAtcacctgcagtaaataaagc	12	11	7	11	0	2	1	1	1	1	0	2	1	2	1	3	1	3	3	3	1	6	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:99739692A>T	uc003ppj.3	-	5	1111	c.828T>A	c.(826-828)GAT>GAA	p.D276E	C6orf168_uc003ppi.3_5'UTR	NM_032511	NP_115900	Q5TGI0	CF168_HUMAN	hypothetical protein LOC84553	276										ovary(2)|central_nervous_system(1)	3		all_cancers(76;1.63e-06)|Acute lymphoblastic leukemia(125;5.12e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00898)|Colorectal(196;0.0699)|Lung NSC(302;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.073)		TGTACTTCTTATCACCTGCAG	0.478													16	66					0	0	0.007413	0	0		T	99739692	T	T	99739692	3	4	12	1	0	0	0	0	1	0	0	0	2346	446	16	5	409	5	C6orf168	6	99739692	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	9226639	99739692	71375375	455	9930											
SIM1	6492	broad.mit.edu	37	chr6	100896434	100896434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtagcttgatctccgtgaCggcgctgggaggcagcgagt	6	9	17	9	4	1	2	0	2	1	0	2	4	1	3	1	3	2	4	1	3	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:100896434C>T	uc003pqj.3	-	6	871	c.664G>A	c.(664-666)GTC>ATC	p.V222I	SIM1_uc010kcu.2_Missense_Mutation_p.V222I	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	222	PAS 2.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		ATCTCCGTGACGGCGCTGGGA	0.602													7	26					0	0	0.00308	0	0		T	100896434	T	T	100896434	3	4	12	1	0	0	0	0	1	0	0	0	14348	536	19	1	1660	1	SIM1	6	100896434	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1156742	100896434	70218633	456	9931											
BEND3	57673	broad.mit.edu	37	chr6	107391922	107391922	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgttgctggcgtttgccTtctcaaagagctcgtacacg	6	12	12	11	3	1	1	1	0	1	1	3	1	1	1	1	2	4	6	1	2	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:107391922T>G	uc003prs.2	-	5	1123	c.473A>C	c.(472-474)AAG>ACG	p.K158T		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	158										ovary(3)	3						GGCGTTTGCCTTCTCAAAGAG	0.577													17	66					0	0	0.008871	0	0		G	107391922	G	G	107391922	3	3	12	1	0	0	0	0	1	0	0	0	1400	1609	56	5	2017	5	BEND3	6	107391922	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	6495488	107391922	63723145	457	9932											
FOXO3	2309	broad.mit.edu	37	chr6	108984784	108984784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggaaaagccccccggcggCgggctgtctccatggacaat	8	5	14	14	4	1	0	0	0	1	0	2	2	1	2	4	5	1	1	4	5	3	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:108984784C>T	uc003psk.2	+	3	1064	c.748C>T	c.(748-750)CGG>TGG	p.R250W	FOXO3_uc003psn.2_Intron|FOXO3_uc003psm.2_Missense_Mutation_p.R250W|FOXO3_uc011ean.1_Missense_Mutation_p.R30W|FOXO3_uc010kdj.1_Missense_Mutation_p.R30W	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A	250	Fork-head.|Nuclear localization signal.				antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)		CCCCCGGCGGCGGGCTGTCTC	0.592													5	6					0	0	0.001168	0	0		T	108984784	T	T	108984784	3	4	12	1	0	0	0	0	1	0	0	0	6038	759	27	1	754	1	FOXO3	6	108984784	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1592862	108984784	62130283	458	9933											
RPF2	84154	broad.mit.edu	37	chr6	111320954	111320954	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgctggatatgattgaattAggtattgagaattttgtctc	10	17	11	3	0	1	3	0	3	1	1	2	5	1	4	0	2	1	2	0	2	5	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:111320954A>G	uc003pun.2	+	6	376	c.357A>G	c.(355-357)TTA>TTG	p.L119L	RPF2_uc003puo.2_Silent_p.L56L	NM_032194	NP_115570	Q9H7B2	RPF2_HUMAN	brix domain containing 1	119	Brix.					nucleolus	protein binding			ovary(2)	2						TGATTGAATTAGGTATTGAGA	0.338													15	44					0	0	0.00499	0	0		G	111320954	G	G	111320954	2	3	12	1	0	0	0	0	0	0	0	1	13572	417	15	3		3	RPF2	6	111320954	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2336170	111320954	59794113	459	9934											
REV3L	5980	broad.mit.edu	37	chr6	111654524	111654524	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactaggtgtcacaggaataTagttcattggtttagcaata	13	13	9	6	0	2	0	2	0	0	0	2	1	2	1	0	3	1	3	0	3	7	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:111654524T>A	uc003puy.3	-	23	8050	c.7727A>T	c.(7726-7728)TAT>TTT	p.Y2576F	REV3L_uc003pux.3_Missense_Mutation_p.Y2498F|REV3L_uc003puz.3_Missense_Mutation_p.Y2498F|REV3L_uc003pva.1_RNA	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2576					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		CACAGGAATATAGTTCATTGG	0.438								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					14	31					0	0	0.004007	0	0		A	111654524	A	A	111654524	3	1	12	1	0	0	0	0	1	0	0	0	13265	1406	49	5	1705	5	REV3L	6	111654524	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	333570	111654524	59460543	460	9935											
REV3L	5980	broad.mit.edu	37	chr6	111695100	111695100	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttttactctttcaggtttAaaatttgacatatctaaaat	13	18	5	5	0	3	1	1	1	2	0	3	1	3	1	0	2	1	2	0	2	6	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:111695100A>G	uc003puy.3	-	13	4781	c.4458T>C	c.(4456-4458)TTT>TTC	p.F1486F	REV3L_uc003pux.3_Silent_p.F1408F|REV3L_uc003puz.3_Silent_p.F1408F	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1486					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TTTCAGGTTTAAAATTTGACA	0.353								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					5	90					0	0	0.000602	0	0		G	111695100	G	G	111695100	2	3	12	1	0	0	0	0	0	0	0	1	13265	359	13	3		3	REV3L	6	111695100	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	40576	111695100	59419967	461	9936											
TRAF3IP2	10758	broad.mit.edu	37	chr6	111912543	111912543	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaagattgggaggcagcatCtgtgcacatgctggatacct	11	9	13	8	0	1	1	0	0	1	1	1	4	1	3	1	3	4	4	1	3	2	2	rs141106401		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:111912543C>T	uc011ebc.1	-	3	1362	c.747G>A	c.(745-747)CAG>CAA	p.Q249Q	TRAF3IP2_uc003pvg.2_Silent_p.Q249Q|TRAF3IP2_uc003pvf.2_Silent_p.Q249Q|TRAF3IP2_uc010kdw.2_Silent_p.Q249Q|TRAF3IP2_uc010kdx.2_Silent_p.Q249Q	NM_147686	NP_679211	O43734	CIKS_HUMAN	TRAF3 interacting protein 2 isoform 2	258					intracellular signal transduction|positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular				ovary(2)|central_nervous_system(1)	3		all_cancers(87;7.87e-06)|Acute lymphoblastic leukemia(125;3.61e-09)|all_hematologic(75;2.63e-07)|all_epithelial(87;0.0024)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.033)|all cancers(137;0.0412)|Epithelial(106;0.0732)		GAGGCAGCATCTGTGCACATG	0.542													9	28					0	0	0.000978	0	0		T	111912543	T	T	111912543	2	4	12	1	0	0	0	0	0	0	0	1	16467	912	32	4		4	TRAF3IP2	6	111912543	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	217443	111912543	59202524	462	9937											
KPNA5	3841	broad.mit.edu	37	chr6	117037453	117037453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctctcaaatttatgtagagGcaaaaaccctcctccaaact	14	10	4	13	0	1	1	1	0	1	1	4	1	3	1	4	1	2	2	4	1	6	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:117037453G>A	uc003pxh.2	+	8	859	c.728G>A	c.(727-729)GGC>GAC	p.G243D		NM_002269	NP_002260	O15131	IMA5_HUMAN	karyopherin alpha 5	240	ARM 4.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding|protein transporter activity			breast(3)|skin(1)	4		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0298)|all cancers(137;0.0461)|OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.212)		TTATGTAGAGGCAAAAACCCT	0.308													8	40					0	0	0.00308	0	0		A	117037453	A	A	117037453	3	1	12	1	0	0	0	0	1	0	0	0	8449	1203	42	2	758	2	KPNA5	6	117037453	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5124910	117037453	54077614	463	9938											
ROS1	6098	broad.mit.edu	37	chr6	117650526	117650526	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtatgtaattctacatcCattatcttcagctttctccc	10	17	3	11	0	4	0	1	0	3	0	6	0	5	0	2	0	2	3	2	0	5	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:117650526C>A	uc003pxp.1	-	32	5531	c.5332G>T	c.(5332-5334)GGA>TGA	p.G1778*	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1778	Fibronectin type-III 9.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		ATTCTACATCCATTATCTTCA	0.323			T	GOPC|ROS1	glioblastoma|NSCLC								11	63					2.80697e-09	3.10496e-09	0.000978	1	0		A	117650526	A	A	117650526	4	1	12	1	0	0	0	0	0	1	0	0	13556	603	21	5	1759	5	ROS1	6	117650526	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	613073	117650526	53464541	464	9939											
DCBLD1	285761	broad.mit.edu	37	chr6	117864339	117864339	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctccttgttgtcctggtGtttgctggaatggggatctt	3	17	14	7	0	1	0	0	0	1	0	3	2	3	2	2	4	2	4	2	4	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:117864339G>A	uc003pxs.2	+	12	1535	c.1410G>A	c.(1408-1410)GTG>GTA	p.V470V	GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxr.1_Silent_p.V470V|DCBLD1_uc003pxt.1_Silent_p.V125V	NM_173674	NP_775945	Q8N8Z6	DCBD1_HUMAN	discoidin, CUB and LCCL domain containing 1	470	Helical; (Potential).				cell adhesion	integral to membrane				ovary(1)	1		all_cancers(87;0.171)		GBM - Glioblastoma multiforme(226;0.0447)|OV - Ovarian serous cystadenocarcinoma(136;0.0921)|all cancers(137;0.125)		TTGTCCTGGTGTTTGCTGGAA	0.373													26	87					0	0	0.009535	0	0		A	117864339	A	A	117864339	2	1	12	1	0	0	0	0	0	0	0	1	4283	1364	48	4		4	DCBLD1	6	117864339	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	213813	117864339	53250728	465	9940											
FAM184A	79632	broad.mit.edu	37	chr6	119281303	119281303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgggcaaaccactcctggcGctggggatctggagaagcca	9	5	14	13	2	1	1	0	0	1	1	2	3	2	2	4	5	2	2	4	5	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:119281303G>A	uc003pyj.2	-	18	3736	c.3388C>T	c.(3388-3390)CGC>TGC	p.R1130C	FAM184A_uc003pyk.3_Missense_Mutation_p.R961C|FAM184A_uc003pyl.3_Missense_Mutation_p.R926C|FAM184A_uc003pyi.2_RNA	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	1130										ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						CACTCCTGGCGCTGGGGATCT	0.428													5	19					0	0	0.000602	0	0		A	119281303	A	A	119281303	3	1	12	1	0	0	0	0	1	0	0	0	5522	1087	38	1	38	1	FAM184A	6	119281303	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1416964	119281303	51833764	466	9941											
CLVS2	134829	broad.mit.edu	37	chr6	123318992	123318992	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctggagctcaatgaaaacCcagacacgctgcaccaggac	13	4	10	14	1	1	2	1	1	0	1	1	4	1	4	3	2	3	3	3	2	3	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:123318992C>A	uc003pzi.1	+	2	939	c.70C>A	c.(70-72)CCA>ACA	p.P24T		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	24					lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CAATGAAAACCCAGACACGCT	0.542													11	38					1.05317e-09	1.17162e-09	0.00245	1	0		A	123318992	A	A	123318992	3	1	12	1	0	0	0	0	1	0	0	0	3575	623	22	5	72	5	CLVS2	6	123318992	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4037689	123318992	47796075	467	9942											
PTPRK	5796	broad.mit.edu	37	chr6	128388769	128388769	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgattgtcacccacagtgaaCggggcaggctcaggtaggtt	9	8	14	10	2	2	1	2	1	0	0	2	2	2	1	1	5	1	4	1	5	2	3	rs146089088	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:128388769C>T	uc003qbk.2	-	12	2419	c.2052G>A	c.(2050-2052)CCG>CCA	p.P684P	PTPRK_uc003qbj.2_Silent_p.P684P|PTPRK_uc010kfc.2_Silent_p.P684P|PTPRK_uc011ebu.1_Silent_p.P684P|PTPRK_uc003qbl.1_Silent_p.P554P|PTPRK_uc011ebv.1_Silent_p.P684P	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	684	Extracellular (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		CCACAGTGAACGGGGCAGGCT	0.547													12	40					0	0	0.001368	0	0		T	128388769	T	T	128388769	2	4	12	1	0	0	0	0	0	0	0	1	12830	523	19	1		1	PTPRK	6	128388769	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	5069777	128388769	42726298	468	9943											
PTPRK	5796	broad.mit.edu	37	chr6	128561240	128561240	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaatgcactgaaatgtagcGttttgccctgcattcacctc	9	12	8	12	1	1	1	1	1	0	0	2	1	1	1	2	0	4	5	2	0	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:128561240G>A	uc003qbk.2	-	5	1000	c.633C>T	c.(631-633)AAC>AAT	p.N211N	PTPRK_uc003qbj.2_Silent_p.N211N|PTPRK_uc010kfc.2_Silent_p.N211N|PTPRK_uc011ebu.1_Silent_p.N211N|PTPRK_uc003qbl.1_Silent_p.N81N|PTPRK_uc011ebv.1_Silent_p.N211N	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	211	Extracellular (Potential).|Ig-like C2-type.				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		GAAATGTAGCGTTTTGCCCTG	0.428													13	43					0	0	0.001855	0	0		A	128561240	A	A	128561240	2	1	12	1	0	0	0	0	0	0	0	1	12830	1136	40	1		1	PTPRK	6	128561240	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	172471	128561240	42553827	469	9944											
LAMA2	3908	broad.mit.edu	37	chr6	129775324	129775324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actttctggctatagaaatgCgtaaaggcaaagtcagcttc	13	11	9	8	1	2	1	1	0	1	1	3	1	2	1	0	2	2	4	0	2	6	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:129775324C>T	uc003qbn.2	+	46	6703	c.6598C>T	c.(6598-6600)CGT>TGT	p.R2200C	LAMA2_uc003qbo.2_Missense_Mutation_p.R2200C	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2200	Laminin G-like 1.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TATAGAAATGCGTAAAGGCAA	0.398													12	47					0	0	0.00245	0	0		T	129775324	T	T	129775324	3	4	12	1	0	0	0	0	1	0	0	0	8622	768	27	1	6784	1	LAMA2	6	129775324	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1214084	129775324	41339743	470	9945											
EPB41L2	2037	broad.mit.edu	37	chr6	131191139	131191139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtcacaggctccaccttaCgaatctccccaggaccactc	9	8	7	17	1	2	0	1	0	1	0	5	2	3	1	5	2	1	1	5	2	2	1	rs150621192	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:131191139C>T	uc003qch.2	-	15	2353	c.2171G>A	c.(2170-2172)CGT>CAT	p.R724H	EPB41L2_uc003qce.1_Missense_Mutation_p.R102H|EPB41L2_uc003qcf.1_Intron|EPB41L2_uc003qcg.1_Intron|EPB41L2_uc011eby.1_Intron|EPB41L2_uc003qci.2_Missense_Mutation_p.R654H|EPB41L2_uc010kfk.2_Intron|EPB41L2_uc010kfl.1_Missense_Mutation_p.R654H|EPB41L2_uc003qcd.1_5'Flank|EPB41L2_uc003qcj.1_Missense_Mutation_p.R121H	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	724					cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		CTCCACCTTACGAATCTCCCC	0.517													23	26					0	0	0.001882	0	0		T	131191139	T	T	131191139	3	4	12	1	0	0	0	0	1	0	0	0	5161	536	19	1	866	1	EPB41L2	6	131191139	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1415815	131191139	39923928	471	9946											
CTGF	1490	broad.mit.edu	37	chr6	132270619	132270619	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccacagaatttagctcggtAtgtcttcatgctggtgcagc	8	13	10	10	1	2	1	1	0	1	1	4	1	3	1	1	2	4	4	1	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:132270619A>G	uc003qcz.2	-	5	1041	c.835T>C	c.(835-837)TAC>CAC	p.Y279H		NM_001901	NP_001892	P29279	CTGF_HUMAN	connective tissue growth factor precursor	279	CTCK.|Heparin-binding.				cellular lipid metabolic process|DNA replication|epidermis development|regulation of cell growth|response to wounding	plasma membrane|proteinaceous extracellular matrix	heparin binding|insulin-like growth factor binding				0	Breast(56;0.0602)			GBM - Glioblastoma multiforme(226;0.015)|OV - Ovarian serous cystadenocarcinoma(155;0.0169)		TTAGCTCGGTATGTCTTCATG	0.532													46	223					0	0	0.00361	0	0		G	132270619	G	G	132270619	3	3	12	1	0	0	0	0	1	0	0	0	4011	449	16	3	218	3	CTGF	6	132270619	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1079480	132270619	38844448	472	9947											
MAP3K5	4217	broad.mit.edu	37	chr6	137018441	137018441	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctactcgctgccgaattctTgccaactcagctgccaattc	8	12	6	15	2	3	0	1	0	2	0	5	1	3	0	3	0	6	2	3	0	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:137018441T>C	uc003qhc.2	-	5	1252	c.891A>G	c.(889-891)GCA>GCG	p.A297A	MAP3K5_uc011edk.1_Silent_p.A142A|MAP3K5_uc010kgw.1_Silent_p.A297A	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	297					activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		GCCGAATTCTTGCCAACTCAG	0.393													20	38					0	0	0.010504	0	0		C	137018441	C	C	137018441	2	2	12	1	0	0	0	0	0	0	0	1	9271	1799	63	3		3	MAP3K5	6	137018441	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	4747822	137018441	34096626	473	9948											
HIVEP2	3097	broad.mit.edu	37	chr6	143093783	143093783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctacgctcttctctttcCggcgtttcctgttttcacag	3	16	6	16	3	3	0	1	0	2	0	6	0	5	0	4	1	1	3	4	1	1	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:143093783C>T	uc003qjd.2	-	5	2836	c.2093G>A	c.(2092-2094)CGG>CAG	p.R698Q		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	698					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CTTCTCTTTCCGGCGTTTCCT	0.493													27	84					0	0	0.007291	0	0		T	143093783	T	T	143093783	3	4	12	1	0	0	0	0	1	0	0	0	7203	652	23	1	5271	1	HIVEP2	6	143093783	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	6075342	143093783	28021284	474	9949											
UTRN	7402	broad.mit.edu	37	chr6	144724272	144724272	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacagatgaacacaatgaCgtacagaagaaaacctttac	18	7	6	10	1	0	5	0	2	0	3	1	5	1	5	2	0	4	1	2	0	7	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:144724272C>T	uc003qkt.2	+	2	185	c.93C>T	c.(91-93)GAC>GAT	p.D31D	UTRN_uc010khq.1_Silent_p.D31D	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	31	CH 1.|Actin-binding.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		AACACAATGACGTACAGAAGA	0.368													5	24					0	0	0.001168	0	0		T	144724272	T	T	144724272	2	4	12	1	0	0	0	0	0	0	0	1	17129	535	19	1		1	UTRN	6	144724272	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1630489	144724272	26390795	475	9950											
UST	10090	broad.mit.edu	37	chr6	149342520	149342520	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaatgaaaacttcctgctCgtggggattcttgaagagtt	10	13	12	6	1	1	4	0	3	1	1	3	5	2	5	1	2	2	2	1	2	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:149342520C>T	uc003qmg.2	+	7	1136	c.840C>T	c.(838-840)CTC>CTT	p.L280L		NM_005715	NP_005706	Q9Y2C2	UST_HUMAN	uronyl-2-sulfotransferase	280	Lumenal (Potential).				protein sulfation	Golgi membrane|integral to membrane	sulfotransferase activity			ovary(2)	2		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.78e-10)|GBM - Glioblastoma multiforme(68;0.138)		ACTTCCTGCTCGTGGGGATTC	0.413													8	34					0	0	0.00308	0	0		T	149342520	T	T	149342520	2	4	12	1	0	0	0	0	0	0	0	1	17119	871	31	1		1	UST	6	149342520	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4618248	149342520	21772547	476	9951											
RAET1E	135250	broad.mit.edu	37	chr6	150210620	150210620	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgatcttactggcttcAtgattaattactgtccaggt	8	17	7	9	0	2	2	1	2	1	0	4	2	4	2	2	2	2	1	2	2	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:150210620A>G	uc003qnl.1	-	3	546	c.486T>C	c.(484-486)CAT>CAC	p.H162H	uc003qni.1_Intron|RAET1E_uc003qnj.2_Silent_p.H162H|RAET1E_uc003qnk.1_Silent_p.H126H|RAET1E_uc010kih.1_RNA	NM_139165	NP_631904	Q8TD07	N2DL4_HUMAN	retinoic acid early transcript 1E precursor	162	Extracellular (Potential).|MHC class I alpha-2 like.				antigen processing and presentation|immune response|regulation of immune response	integral to membrane|MHC class I protein complex	protein binding				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.58e-12)		TACTGGCTTCATGATTAATTA	0.483													21	70					0	0	0.00632	0	0		G	150210620	G	G	150210620	2	3	12	1	0	0	0	0	0	0	0	1	13024	214	8	3		3	RAET1E	6	150210620	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	868100	150210620	20904447	477	9952											
ESR1	2099	broad.mit.edu	37	chr6	152129084	152129084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaccaaagcatctgggatgGccctactgcatcagatccaa	13	7	8	13	0	2	1	1	0	1	1	3	2	3	2	3	2	3	2	3	2	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:152129084G>A	uc003qom.3	+	3	407	c.37G>A	c.(37-39)GCC>ACC	p.A13T	ESR1_uc010kin.2_Missense_Mutation_p.A13T|ESR1_uc010kio.2_Missense_Mutation_p.A13T|ESR1_uc010kip.2_Missense_Mutation_p.A13T|ESR1_uc003qon.3_Missense_Mutation_p.A13T|ESR1_uc003qoo.3_Missense_Mutation_p.A13T|ESR1_uc010kiq.2_5'UTR|ESR1_uc010kir.2_Missense_Mutation_p.A13T	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	13	Modulating; mediates interaction with MACROD1.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	ATCTGGGATGGCCCTACTGCA	0.657													4	22					0	0	0.009096	0	0		A	152129084	A	A	152129084	3	1	12	1	0	0	0	0	1	0	0	0	5264	1203	42	2	39	2	ESR1	6	152129084	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1918464	152129084	18985983	478	9953											
SYNE1	23345	broad.mit.edu	37	chr6	152711422	152711422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataggttctgtacctttgagCgtggacggaggagctcatga	9	11	14	7	2	2	2	1	2	1	0	2	5	2	5	1	4	3	3	1	4	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:152711422C>T	uc010kiw.2	-	53	8772	c.8170G>A	c.(8170-8172)GCT>ACT	p.A2724T	SYNE1_uc003qot.3_Missense_Mutation_p.A2731T|SYNE1_uc003qou.3_Missense_Mutation_p.A2724T|SYNE1_uc010kjb.1_Missense_Mutation_p.A2707T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2724	Cytoplasmic (Potential).|HAT 5.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TACCTTTGAGCGTGGACGGAG	0.463										HNSCC(10;0.0054)			14	37					0	0	0.004007	0	0		T	152711422	T	T	152711422	3	4	12	1	0	0	0	0	1	0	0	0	15470	768	27	1	18672	1	SYNE1	6	152711422	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	582338	152711422	18403645	479	9954											
IPCEF1	26034	broad.mit.edu	37	chr6	154489165	154489165	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttttagtcgaaggtcgtcGgtccccaagaggagatagac	10	10	12	9	3	0	3	0	0	0	3	4	5	1	3	2	3	0	0	2	3	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:154489165G>A	uc003qpx.2	-	11	1147	c.991C>T	c.(991-993)CGA>TGA	p.R331*	OPRM1_uc003qpt.1_Intron|IPCEF1_uc003qpv.2_Nonsense_Mutation_p.R202*|IPCEF1_uc003qpw.2_Nonsense_Mutation_p.R332*|IPCEF1_uc010kjh.2_Nonsense_Mutation_p.R332*	NM_015553	NP_056368	Q8WWN9	ICEF1_HUMAN	phosphoinositide-binding protein PIP3-E isoform	331					response to oxidative stress	cytoplasm|plasma membrane	oxygen transporter activity|peroxidase activity				0						GAAGGTCGTCGGTCCCCAAGA	0.368													33	160					0	0	0.003755	0	0		A	154489165	A	A	154489165	4	1	12	1	0	0	0	0	0	1	0	0	7807	1124	39	1	330	1	IPCEF1	6	154489165	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1777743	154489165	16625902	480	9955											
NOX3	50508	broad.mit.edu	37	chr6	155761270	155761270	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagcaattcagtggttgtgTtctaaaaaaaacaacaacaa	18	11	6	6	0	2	0	1	0	1	0	2	0	2	0	0	1	4	3	0	1	9	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:155761270T>C	uc003qqm.2	-	6	591	c.488A>G	c.(487-489)AAC>AGC	p.N163S		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	163	Ferric oxidoreductase.|Extracellular (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		AGTGGTTGTGTTCTaaaaaaa	0.323													4	25					0	0	0.001168	0	0		C	155761270	C	C	155761270	3	2	12	1	0	0	0	0	1	0	0	0	10576	1739	60	3	1250	3	NOX3	6	155761270	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1272105	155761270	15353797	481	9956											
DYNLT1	6993	broad.mit.edu	37	chr6	159062373	159062375	+	In_Frame_Del	DEL	TCA	-	-																															cttttacaatgttgctcactTcatcaacaacaaaagcagtc																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:159062373_159062375delTCA	uc003qrn.1	-	2	45_47	c.45_47delTGA	c.(43-48)GATGAA>GAA	p.D15del		NM_006519	NP_006510	P63172	DYLT1_HUMAN	dynein, light chain, Tctex-type 1	15					cell division|establishment of mitotic spindle orientation|intracellular transport of viral proteins in host cell|mitosis|negative regulation of neurogenesis|regulation of G-protein coupled receptor protein signaling pathway	cytoplasmic dynein complex|Golgi apparatus|microtubule|spindle	identical protein binding|motor activity				0		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;4.02e-18)|BRCA - Breast invasive adenocarcinoma(81;9.53e-06)		GTTGCTCACTTCATCAACAACAA	0.286													17	33	---	---	---	---						.	-	159062375	-	-	159062373	7	5	12	1	0	1	0	1	0	0	0	0	4858	1783	62	0	310	0	DYNLT1	6	159062373	In_Frame_Del	DEL	TCA	TCGA-BR-4257-01A-01D-1126-08	3301103	159062373	12052694	482	9957											
PARK2	5071	broad.mit.edu	37	chr6	162683713	162683713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgccgcgtttctggggtcgtCgcctccagttgcattcattt	3	14	11	13	5	2	0	1	0	1	0	5	0	3	0	3	2	1	3	3	2	0	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:162683713C>T	uc003qtx.3	-	3	390	c.256G>A	c.(256-258)GAC>AAC	p.D86N	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_5'UTR|PARK2_uc003qty.3_Missense_Mutation_p.D86N|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Missense_Mutation_p.D86N	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	86					aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		CTGGGGTCGTCGCCTCCAGTT	0.577													8	22					0	0	0.004482	0	0		T	162683713	T	T	162683713	3	4	12	1	0	0	0	0	1	0	0	0	11468	884	31	1	1181	1	PARK2	6	162683713	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3621340	162683713	8431354	483	9958											
T	6862	broad.mit.edu	37	chr6	166580961	166580961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcccacgcgcagttcgCgctctgtggggtcgcccttc	3	8	13	17	5	1	0	0	0	1	0	4	0	1	0	3	3	0	3	3	3	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:166580961C>T	uc003quu.1	-	2	612	c.119G>A	c.(118-120)CGC>CAC	p.R40H	T_uc003qut.1_Missense_Mutation_p.R40H|T_uc003quv.1_Missense_Mutation_p.R40H	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	40					anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		GCGCAGTTCGCGCTCTGTGGG	0.652									Chordoma_Familial_Clustering_of				4	15					0	0	0.001984	0	0		T	166580961	T	T	166580961	3	4	12	1	0	0	0	0	1	0	0	0	15513	768	27	1	1220	1	T	6	166580961	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3897248	166580961	4534106	484	9959											
TTLL2	83887	broad.mit.edu	37	chr6	167754476	167754476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaccatctgtcccctttgCtgccaattgctttgagctct	5	15	7	14	0	2	1	0	1	2	0	3	1	3	1	4	0	5	4	4	0	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:167754476C>T	uc003qvs.1	+	3	1176	c.1088C>T	c.(1087-1089)GCT>GTT	p.A363V	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	363	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GTCCCCTTTGCTGCCAATTGC	0.458													35	116					0	0	0.007835	0	0		T	167754476	T	T	167754476	3	4	12	1	0	0	0	0	1	0	0	0	16753	797	28	2	1098	2	TTLL2	6	167754476	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1173515	167754476	3360591	485	9960											
MLLT4	4301	broad.mit.edu	37	chr6	168319469	168319469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acactgccgatgagctggccCgcagtgatggaagggaagtg	10	6	16	9	2	0	2	0	2	0	0	0	5	0	4	2	3	2	2	2	3	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:168319469C>T	uc003qwd.2	+	20	2882	c.2740C>T	c.(2740-2742)CGC>TGC	p.R914C	MLLT4_uc003qwb.1_Missense_Mutation_p.R899C|MLLT4_uc003qwc.1_Missense_Mutation_p.R915C|MLLT4_uc003qwg.1_Missense_Mutation_p.R224C	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	915					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		TGAGCTGGCCCGCAGTGATGG	0.448			T	MLL	AL								5	17					0	0	0.000602	0	0		T	168319469	T	T	168319469	3	4	12	1	0	0	0	0	1	0	0	0	9647	652	23	1	2821	1	MLLT4	6	168319469	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	564993	168319469	2795598	486	9961											
THBS2	7058	broad.mit.edu	37	chr6	169648977	169648977	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taagccggcacgccggggtcGggcccgcggaactgcttggc	5	5	17	14	6	0	0	0	0	0	0	1	1	0	1	3	6	3	2	3	6	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr6:169648977G>A	uc003qwt.2	-	4	392	c.144C>T	c.(142-144)CCC>CCT	p.P48P		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	48	TSP N-terminal.|Heparin-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CGCCGGGGTCGGGCCCGCGGA	0.582													8	32					0	0	0.006214	0	0		A	169648977	A	A	169648977	2	1	12	1	0	0	0	0	0	0	0	1	15879	1103	39	1		1	THBS2	6	169648977	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1329508	169648977	1466090	487	9962											
MICALL2	79778	broad.mit.edu	37	chr7	1478512	1478512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgaggtttcttctcctcctCcttccagctctgcactcggg	3	14	9	15	1	3	1	0	1	3	0	8	1	6	1	4	2	2	3	4	2	0	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:1478512C>T	uc003skj.3	-	10	2233	c.2086G>A	c.(2086-2088)GAG>AAG	p.E696K	MICALL2_uc003skh.3_5'UTR|MICALL2_uc003ski.3_Missense_Mutation_p.E183K	NM_182924	NP_891554	Q8IY33	MILK2_HUMAN	MICAL-like 2 isoform 1	696						cytoplasm|cytoskeleton	zinc ion binding			central_nervous_system(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;6.01e-15)		TTCTCCTCCTCCTTCCAGCTC	0.642													13	36					0	0	0.001855	0	0		T	1478512	T	T	1478512	3	4	12	1	0	0	0	0	1	0	0	0	9592	864	30	4	660	4	MICALL2	7	1478512	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08		1478512	157660151	488	9963											
SLC29A4	222962	broad.mit.edu	37	chr7	5340174	5340174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggcatgcccgccctccGtcaccccgcctggccctgca	4	5	10	22	4	1	0	1	0	0	0	2	0	2	0	7	2	3	2	7	2	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:5340174G>A	uc003sod.2	+	10	1492	c.1331G>A	c.(1330-1332)CGT>CAT	p.R444H	SLC29A4_uc003soc.2_Missense_Mutation_p.R444H|SLC29A4_uc003soe.2_Missense_Mutation_p.R430H|SLC29A4_uc010ksw.2_Intron	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	444	Extracellular (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		CCCGCCCTCCGTCACCCCGCC	0.667													11	45					0	0	0.001368	0	0		A	5340174	A	A	5340174	3	1	12	1	0	0	0	0	1	0	0	0	14562	1145	40	1	1365	1	SLC29A4	7	5340174	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3861662	5340174	153798489	489	9964											
TNRC18	84629	broad.mit.edu	37	chr7	5396806	5396806	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcactgtccgaaaacttgaaGggcgacttcaacttgtcctg	10	10	10	11	2	1	1	1	1	0	0	3	3	3	1	2	1	2	1	2	1	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:5396806G>A	uc003soi.3	-	16	5284	c.4935C>T	c.(4933-4935)CCC>CCT	p.P1645P	TNRC18_uc003soj.2_Silent_p.P27P	NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1645							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		AAAACTTGAAGGGCGACTTCA	0.547													6	11					0	0	0.004482	0	0		A	5396806	A	A	5396806	2	1	12	1	0	0	0	0	0	0	0	1	16364	987	35	4		4	TNRC18	7	5396806	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	56632	5396806	153741857	490	9965											
RNF216	54476	broad.mit.edu	37	chr7	5662498	5662498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggattcggggccatcagaagCgatgccgcggctgggggcca	7	5	18	11	4	1	1	1	0	0	1	2	3	1	2	3	6	2	1	3	6	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:5662498C>T	uc003soy.1	-	17	2784	c.2594G>A	c.(2593-2595)CGC>CAC	p.R865H	RNF216_uc010ksz.1_Missense_Mutation_p.R487H|RNF216_uc010kta.1_Missense_Mutation_p.R487H|RNF216_uc011jwj.1_Missense_Mutation_p.R487H|RNF216_uc003sox.1_Missense_Mutation_p.R922H	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	865					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		CCATCAGAAGCGATGCCGCGG	0.617													11	59					0	0	0.003163	0	0		T	5662498	T	T	5662498	3	4	12	1	0	0	0	0	1	0	0	0	13505	768	27	1	10	1	RNF216	7	5662498	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	265692	5662498	153476165	491	9966											
USP42	84132	broad.mit.edu	37	chr7	6155062	6155062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agctgggctccagaatttggGcaatacctgttttgccaatg	9	12	11	9	0	0	1	0	0	0	1	1	1	1	1	3	2	3	4	3	2	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:6155062G>A	uc011jwo.1	+	3	473	c.350G>A	c.(349-351)GGC>GAC	p.G117D	USP42_uc011jwn.1_5'UTR|USP42_uc010kth.1_Intron|USP42_uc011jwp.1_Missense_Mutation_p.G117D|USP42_uc011jwq.1_5'UTR|USP42_uc011jwr.1_5'Flank	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	117					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		CAGAATTTGGGCAATACCTGT	0.443													14	42					0	0	0.003163	0	0		A	6155062	A	A	6155062	3	1	12	1	0	0	0	0	1	0	0	0	17099	1203	42	2	356	2	USP42	7	6155062	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	492564	6155062	152983601	492	9967											
GLCCI1	113263	broad.mit.edu	37	chr7	8125841	8125841	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtctcgtcagcctatctcGgcccctctcttttcatgtcc	4	14	7	16	2	5	0	2	0	3	0	9	0	6	0	4	2	1	0	4	2	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:8125841G>A	uc003srk.2	+	8	1876	c.1317G>A	c.(1315-1317)TCG>TCA	p.S439S		NM_138426	NP_612435	Q86VQ1	GLCI1_HUMAN	glucocorticoid induced transcript 1	439											0		Ovarian(82;0.0608)		UCEC - Uterine corpus endometrioid carcinoma (126;0.206)		AGCCTATCTCGGCCCCTCTCT	0.388													36	90					0	0	0.007835	0	0		A	8125841	A	A	8125841	2	1	12	1	0	0	0	0	0	0	0	1	6446	1103	39	1		1	GLCCI1	7	8125841	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1970779	8125841	151012822	493	9968											
PHF14	9678	broad.mit.edu	37	chr7	11022051	11022051	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttcaaaggacagtggagaAggttcctgtagtgattctga	11	11	13	6	0	2	3	1	2	1	1	3	5	3	4	1	3	0	3	1	3	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:11022051A>C	uc003sry.1	+	3	600	c.165A>C	c.(163-165)GAA>GAC	p.E55D	PHF14_uc011jxi.1_Intron|PHF14_uc003srz.2_Missense_Mutation_p.E55D|PHF14_uc011jxj.1_Intron	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	55							zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		ACAGTGGAGAAGGTTCCTGTA	0.294													5	30					0	0	0.001168	0	0		C	11022051	C	C	11022051	3	2	12	1	0	0	0	0	1	0	0	0	11844	69	3	5	175	5	PHF14	7	11022051	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2896210	11022051	148116612	494	9969											
SCIN	85477	broad.mit.edu	37	chr7	12683795	12683795	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaattcactgaattctaaCgatgtttttgtcctgaaact	12	15	6	8	1	2	2	1	2	1	0	3	3	3	2	1	0	2	2	1	0	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:12683795C>T	uc003ssn.3	+	12	1824	c.1614C>T	c.(1612-1614)AAC>AAT	p.N538N	SCIN_uc010ktt.2_Intron|SCIN_uc003sso.3_Silent_p.N291N	NM_001112706	NP_001106177	Q9Y6U3	ADSV_HUMAN	scinderin isoform 1	538	Ca(2+)-dependent actin binding.|Gelsolin-like 5.				actin filament capping|actin filament severing|actin nucleation|calcium ion-dependent exocytosis|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of megakaryocyte differentiation|positive regulation of secretion|regulation of chondrocyte differentiation	cell cortex|cytoskeleton	1-phosphatidylinositol binding|actin filament binding|calcium ion binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		TGAATTCTAACGATGTTTTTG	0.403													3	12					0	0	0.000602	0	0		T	12683795	T	T	12683795	2	4	12	1	0	0	0	0	0	0	0	1	13930	535	19	1		1	SCIN	7	12683795	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1661744	12683795	146454868	495	9970											
HDAC9	9734	broad.mit.edu	37	chr7	18630000	18630000	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ataaaacagcaacaagaactCctagaaaaggagcagaaact	22	4	7	8	0	0	3	0	0	0	3	1	4	1	4	1	1	6	2	1	1	9	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:18630000C>A	uc003suh.2	+	3	338	c.297C>A	c.(295-297)CTC>CTA	p.L99L	HDAC9_uc003sue.2_Silent_p.L99L|HDAC9_uc011jyd.1_Silent_p.L99L|HDAC9_uc003sui.2_Silent_p.L102L|HDAC9_uc003suj.2_Silent_p.L102L|HDAC9_uc011jya.1_Silent_p.L140L|HDAC9_uc003sua.1_Silent_p.L121L|HDAC9_uc011jyb.1_Silent_p.L99L|HDAC9_uc003sud.1_Silent_p.L99L|HDAC9_uc011jyc.1_Silent_p.L102L|HDAC9_uc003suf.1_Silent_p.L130L|HDAC9_uc010kud.1_Silent_p.L102L|HDAC9_uc011jye.1_Silent_p.L71L|HDAC9_uc011jyf.1_Silent_p.L68L|HDAC9_uc010kue.1_5'UTR	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	99				L -> I (in Ref. 8; AAF04254).	B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	AACAAGAACTCCTAGAAAAGG	0.458													7	16					5.16669e-11	5.79501e-11	0.000978	1	0		A	18630000	A	A	18630000	2	1	12	1	0	0	0	0	0	0	0	1	7030	842	30	5		5	HDAC9	7	18630000	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	5946205	18630000	140508663	496	9971											
HDAC9	9734	broad.mit.edu	37	chr7	18875107	18875107	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggatgttcaccatggaaaCggtacccagcaggcctttta	11	10	10	10	1	1	0	1	0	0	0	1	2	1	2	3	4	3	3	3	4	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:18875107C>T	uc003suh.2	+	19	2516	c.2475C>T	c.(2473-2475)AAC>AAT	p.N825N	HDAC9_uc003sue.2_Silent_p.N825N|HDAC9_uc011jyd.1_Silent_p.N825N|HDAC9_uc003sui.2_Silent_p.N828N|HDAC9_uc003suj.2_Silent_p.N784N|HDAC9_uc003suk.2_Silent_p.N73N	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	825	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	ACCATGGAAACGGTACCCAGC	0.463													12	25					0	0	0.001368	0	0		T	18875107	T	T	18875107	2	4	12	1	0	0	0	0	0	0	0	1	7030	535	19	1		1	HDAC9	7	18875107	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	245107	18875107	140263556	497	9972											
CDCA7L	55536	broad.mit.edu	37	chr7	21942601	21942601	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagacttacttacctctcCagatattccttaacattgtc	11	15	4	11	0	1	2	0	0	1	2	4	3	2	2	3	0	3	0	3	0	5	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:21942601C>T	uc010kuk.2	-	9	1449	c.1329G>A	c.(1327-1329)CTG>CTA	p.L443L	CDCA7L_uc003sve.3_Silent_p.L409L|CDCA7L_uc010kul.2_Silent_p.L397L|CDCA7L_uc003svf.3_Silent_p.L442L	NM_018719	NP_061189	Q96GN5	CDA7L_HUMAN	cell division cycle associated 7-like isoform 1	443					positive regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus					0						CTTACCTCTCCAGATATTCCT	0.483													4	69					0	0	0.009096	0	0		T	21942601	T	T	21942601	2	4	12	1	0	0	0	0	0	0	0	1	3094	581	21	4		4	CDCA7L	7	21942601	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3067494	21942601	137196062	498	9973											
RAPGEF5	9771	broad.mit.edu	37	chr7	22206738	22206738	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgtcatgaagacagtgtaCgtgagaaggaagtcatccag	13	9	13	6	1	2	3	2	2	0	2	3	5	3	4	1	1	1	2	1	1	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:22206738C>T	uc011jym.1	-	2	398	c.324G>A	c.(322-324)ACG>ACA	p.T108T	RAPGEF5_uc003svg.2_Silent_p.T258T			Q92565	RPGF5_HUMAN	Synthetic construct DNA, clone: pF1KSDA0277, Homo sapiens RAPGEF5 gene for Rap guanine nucleotide exchange factor 5, complete cds, without stop codon, in Flexi system.	108	N-terminal Ras-GEF.				nervous system development|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	nucleus	GTP-dependent protein binding|Rap guanyl-nucleotide exchange factor activity			ovary(1)	1						AGACAGTGTACGTGAGAAGGA	0.453													10	29					0	0	0.008291	0	0		T	22206738	T	T	22206738	2	4	12	1	0	0	0	0	0	0	0	1	13072	523	19	1		1	RAPGEF5	7	22206738	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	264137	22206738	136931925	499	9974											
HOXA2	3199	broad.mit.edu	37	chr7	27140675	27140675	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggaaactttgggagtcGccattgtgtccattgggagc	8	11	14	8	1	0	0	0	0	0	0	2	3	1	3	2	3	2	0	2	3	1	3	rs140022054		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:27140675G>A	uc003syh.2	-	2	1076	c.801C>T	c.(799-801)GGC>GGT	p.G267G		NM_006735	NP_006726	O43364	HXA2_HUMAN	homeobox A2	267						nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						TTTGGGAGTCGCCATTGTGTC	0.507													9	33					0	0	0.008291	0	0		A	27140675	A	A	27140675	2	1	12	1	0	0	0	0	0	0	0	1	7308	1074	38	1		1	HOXA2	7	27140675	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4933937	27140675	131997988	500	9975											
HOXA5	3202	broad.mit.edu	37	chr7	27181672	27181672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagcgcgtgtaggccgtccGggcccttttgccttccgggc	2	10	15	14	5	0	0	0	0	0	0	2	0	2	0	5	3	2	2	5	3	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:27181672G>A	uc003syn.1	-	2	656	c.595C>T	c.(595-597)CGG>TGG	p.R199W		NM_019102	NP_061975	P20719	HXA5_HUMAN	homeobox A5	199	Homeobox.				negative regulation of angiogenesis|negative regulation of erythrocyte differentiation|positive regulation of apoptosis|positive regulation of myeloid cell differentiation|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TAGGCCGTCCGGGCCCTTTTG	0.562											OREG0017911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	36					0	0	0.00308	0	0		A	27181672	A	A	27181672	3	1	12	1	0	0	0	0	1	0	0	0	7311	1115	39	1	221	1	HOXA5	7	27181672	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	40997	27181672	131956991	501	9976											
WIPF3	644150	broad.mit.edu	37	chr7	29918676	29918676	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcaaacacacgaggcgCgagcacacctcccaccctgg	10	5	9	17	3	1	0	0	0	1	0	2	2	2	0	3	2	3	2	3	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:29918676C>T	uc003taj.1	+	3	275	c.275C>T	c.(274-276)GCG>GTG	p.A92V		NM_001080529	NP_001073998	A6NGB9	WIPF3_HUMAN	WAS/WASL interacting protein family, member 3	92										ovary(1)	1						ACACGAGGCGCGAGCACACCT	0.517													6	14					0	0	0.001168	0	0		T	29918676	T	T	29918676	3	4	12	1	0	0	0	0	1	0	0	0	17395	768	27	1	285	1	WIPF3	7	29918676	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2737004	29918676	129219987	502	9977											
CCDC129	223075	broad.mit.edu	37	chr7	31692254	31692254	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacccaggcatggccccgagGactgtgtttcctcccgatga	7	8	11	15	2	0	1	0	1	0	0	2	4	2	2	5	3	0	2	5	3	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:31692254G>T	uc003tcj.1	+	14	3939	c.2946G>T	c.(2944-2946)AGG>AGT	p.R982S	CCDC129_uc011kad.1_Missense_Mutation_p.R992S|CCDC129_uc003tci.1_Missense_Mutation_p.R833S|CCDC129_uc011kae.1_Missense_Mutation_p.R1008S|CCDC129_uc003tck.1_Missense_Mutation_p.R890S	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	982											0						TGGCCCCGAGGACTGTGTTTC	0.522													6	23					5.9392e-07	6.46492e-07	0.001168	1	0		T	31692254	T	T	31692254	3	4	12	1	0	0	0	0	1	0	0	0	2767	1165	41	5	2996	5	CCDC129	7	31692254	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1773578	31692254	127446409	503	9978											
CCDC129	223075	broad.mit.edu	37	chr7	31692285	31692285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcccgatgatggccaggagGctccctgttcaggtgggacc	6	8	14	13	1	1	1	1	1	0	0	3	4	3	3	4	5	0	2	4	5	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:31692285G>A	uc003tcj.1	+	14	3970	c.2977G>A	c.(2977-2979)GCT>ACT	p.A993T	CCDC129_uc011kad.1_Missense_Mutation_p.A1003T|CCDC129_uc003tci.1_Missense_Mutation_p.A844T|CCDC129_uc011kae.1_Missense_Mutation_p.A1019T|CCDC129_uc003tck.1_Missense_Mutation_p.A901T	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	993											0						TGGCCAGGAGGCTCCCTGTTC	0.532													6	23					0	0	0.001168	0	0		A	31692285	A	A	31692285	3	1	12	1	0	0	0	0	1	0	0	0	2767	1203	42	2	3027	2	CCDC129	7	31692285	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	31	31692285	127446378	504	9979											
HECW1	23072	broad.mit.edu	37	chr7	43477677	43477677	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgccaagagccgccccAtcatcaagcgcttcttggga	9	9	10	13	2	3	1	2	0	1	1	3	2	3	2	4	1	3	2	4	1	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:43477677A>G	uc003tid.1	+	9	1482	c.877A>G	c.(877-879)ATC>GTC	p.I293V	HECW1_uc011kbi.1_Missense_Mutation_p.I293V|HECW1_uc003tie.1_Missense_Mutation_p.I325V	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	293	C2.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GAGCCGCCCCATCATCAAGCG	0.483													16	76					0	0	0.008871	0	0		G	43477677	G	G	43477677	3	3	12	1	0	0	0	0	1	0	0	0	7058	217	8	3	903	3	HECW1	7	43477677	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	11785392	43477677	115660986	505	9980											
URGCP	55665	broad.mit.edu	37	chr7	43918266	43918266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctactgacgtccatgcgcaCgaaggcgaaggcgggcgccc	8	4	15	14	6	0	1	0	1	0	0	1	3	1	1	2	3	2	2	2	3	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:43918266C>T	uc003tiw.2	-	6	853	c.796G>A	c.(796-798)GTG>ATG	p.V266M	URGCP_uc003tiu.2_Missense_Mutation_p.V223M|URGCP_uc003tiv.2_Missense_Mutation_p.V191M|URGCP_uc003tix.2_Missense_Mutation_p.V257M|URGCP_uc003tiy.2_Missense_Mutation_p.V223M|URGCP_uc003tiz.2_Missense_Mutation_p.V223M|URGCP_uc011kbj.1_Missense_Mutation_p.V223M	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	266					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						TCCATGCGCACGAAGGCGAAG	0.652													8	21					0	0	0.004482	0	0		T	43918266	T	T	43918266	3	4	12	1	0	0	0	0	1	0	0	0	17052	536	19	1	2003	1	URGCP	7	43918266	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	440589	43918266	115220397	506	9981											
ADCY1	107	broad.mit.edu	37	chr7	45753312	45753312	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgactgaggaagtccaccgGctgctgagaaggtgccccta	9	7	14	11	1	0	3	0	3	0	1	1	5	1	4	4	3	2	2	4	3	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:45753312G>A	uc003tne.3	+	20	3096	c.3078G>A	c.(3076-3078)CGG>CGA	p.R1026R		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	1026	Cytoplasmic (Potential).|Interaction with calmodulin (By similarity).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	AAGTCCACCGGCTGCTGAGAA	0.527													8	39					0	0	0.004482	0	0		A	45753312	A	A	45753312	2	1	12	1	0	0	0	0	0	0	0	1	292	1190	42	2		2	ADCY1	7	45753312	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1835046	45753312	113385351	507	9982											
ZNF107	51427	broad.mit.edu	37	chr7	64168629	64168629	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcctttaactgctcctcAacccttaatagacataagat	15	11	4	11	0	1	2	1	0	0	2	2	2	2	2	3	0	4	1	3	0	6	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:64168629A>G	uc003ttd.2	+	7	2733	c.1947A>G	c.(1945-1947)TCA>TCG	p.S649S	ZNF107_uc003tte.2_Silent_p.S649S	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	649	C2H2-type 21.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				ACTGCTCCTCAACCCTTAATA	0.373													10	45					0	0	0.006214	0	0		G	64168629	G	G	64168629	2	3	12	1	0	0	0	0	0	0	0	1	17740	117	5	3		3	ZNF107	7	64168629	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	18415317	64168629	94970034	508	9983											
CALN1	83698	broad.mit.edu	37	chr7	71252835	71252835	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaaggccatagcaaaggcGcatatgaggctcttccggac	12	7	12	10	2	1	2	0	2	1	0	2	3	2	3	2	4	1	3	2	4	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:71252835G>A	uc003twa.3	-	6	1112	c.585C>T	c.(583-585)TGC>TGT	p.C195C	CALN1_uc003twb.3_Silent_p.C237C|CALN1_uc003twc.3_Silent_p.C195C	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2	195	Helical; Anchor for type IV membrane protein; (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				TAGCAAAGGCGCATATGAGGC	0.572													7	37					0	0	0.00308	0	0		A	71252835	A	A	71252835	2	1	12	1	0	0	0	0	0	0	0	1	2594	1079	38	1		1	CALN1	7	71252835	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	7084206	71252835	87885828	509	9984											
PHTF2	57157	broad.mit.edu	37	chr7	77567104	77567104	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtatgggaaggtaatgattgTaagaaagcagacatgtctgt	14	11	13	3	0	1	3	0	1	1	2	1	4	1	4	0	2	1	4	0	2	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:77567104T>C	uc003ugs.3	+	12	1542	c.1416T>C	c.(1414-1416)TGT>TGC	p.C472C	PHTF2_uc003ugp.2_Silent_p.C434C|PHTF2_uc003ugq.3_Silent_p.C434C|PHTF2_uc010ldv.2_Silent_p.C434C|PHTF2_uc003ugt.3_Silent_p.C438C|PHTF2_uc003ugu.3_Silent_p.C434C|PHTF2_uc003ugv.2_Silent_p.C297C|PHTF2_uc010ldw.1_Intron	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	472					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						GTAATGATTGTAAGAAAGCAG	0.318													5	21					0	0	0.00308	0	0		C	77567104	C	C	77567104	2	2	12	1	0	0	0	0	0	0	0	1	11882	1644	57	3		3	PHTF2	7	77567104	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	6314269	77567104	81571559	510	9985											
MAGI2	9863	broad.mit.edu	37	chr7	78636481	78636481	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagaacccttttgaaatcGtaagttgaggtagtgacgaa	14	10	10	7	2	0	4	0	3	0	1	1	5	0	4	1	1	1	3	1	1	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:78636481G>A	uc003ugx.2	-	2	597	c.343C>T	c.(343-345)CGA>TGA	p.R115*	MAGI2_uc003ugy.2_Nonsense_Mutation_p.R115*	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	115	Guanylate kinase-like.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TTTTGAAATCGTAAGTTGAGG	0.383													10	39					0	0	0.008291	0	0		A	78636481	A	A	78636481	4	1	12	1	0	0	0	0	0	1	0	0	9209	1153	40	1	4108	1	MAGI2	7	78636481	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1069377	78636481	80502182	511	9986											
GNAT3	346562	broad.mit.edu	37	chr7	80108232	80108232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctggatctctccacagcCgttttattacctcagccagt	7	14	6	14	1	2	0	1	0	1	0	5	1	4	1	5	1	3	1	5	1	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:80108232C>T	uc011kgu.1	-	4	386	c.386G>A	c.(385-387)CGG>CAG	p.R129Q	CD36_uc003uhc.2_Intron	NM_001102386	NP_001095856	A8MTJ3	GNAT3_HUMAN	guanine nucleotide binding protein, alpha	129					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction|sensory perception of sweet taste|sensory perception of umami taste	cytoplasm|heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						TCTCCACAGCCGTTTTATTAC	0.443													16	53					0	0	0.008871	0	0		T	80108232	T	T	80108232	3	4	12	1	0	0	0	0	1	0	0	0	6528	652	23	1	696	1	GNAT3	7	80108232	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1471751	80108232	79030431	512	9987											
PCLO	27445	broad.mit.edu	37	chr7	82544741	82544741	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatttcttatgctttgactgCttttgataaagtatggctgc	8	18	9	6	0	1	2	0	2	1	0	1	3	1	2	0	1	3	4	0	1	4	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:82544741C>T	uc003uhx.2	-	7	12850	c.12561G>A	c.(12559-12561)AAG>AAA	p.K4187K	PCLO_uc003uhv.2_Silent_p.K4187K|PCLO_uc010lec.2_Silent_p.K1152K	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4118					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GCTTTGACTGCTTTTGATAAA	0.353													7	24					0	0	0.008291	0	0		T	82544741	T	T	82544741	2	4	12	1	0	0	0	0	0	0	0	1	11602	796	28	2		2	PCLO	7	82544741	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2436509	82544741	76593922	513	9988											
ZNF804B	219578	broad.mit.edu	37	chr7	88963180	88963180	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaaagtgttttacacaataCcatctccataaactctaaaa	17	11	4	9	0	2	0	0	0	2	0	3	1	2	1	2	1	3	1	2	1	8	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:88963180C>A	uc011khi.1	+	4	1422	c.884C>A	c.(883-885)ACC>AAC	p.T295N		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	295						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TTACACAATACCATCTCCATA	0.363										HNSCC(36;0.09)			7	30					2.0095e-06	2.17178e-06	0.001984	1	0		A	88963180	A	A	88963180	3	1	12	1	0	0	0	0	1	0	0	0	18196	507	18	5	898	5	ZNF804B	7	88963180	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	6418439	88963180	70175483	514	9989											
STEAP1	26872	broad.mit.edu	37	chr7	89790622	89790622	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaagttgctaaactgggcAtatcaacaggtaagatgaca	16	9	9	7	0	1	2	1	1	0	1	1	2	1	2	0	2	4	4	0	2	7	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:89790622A>G	uc003ujx.2	+	3	788	c.588A>G	c.(586-588)GCA>GCG	p.A196A	STEAP1_uc010lem.2_Silent_p.A196A	NM_012449	NP_036581	Q9UHE8	STEA1_HUMAN	six transmembrane epithelial antigen of the	196	Ferric oxidoreductase.				electron transport chain|ion transport|iron ion homeostasis	cell-cell junction|endosome membrane|integral to plasma membrane	channel activity|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	all_hematologic(106;0.112)					TAAACTGGGCATATCAACAGG	0.368													7	21					0	0	0.001984	0	0		G	89790622	G	G	89790622	2	3	12	1	0	0	0	0	0	0	0	1	15302	204	8	3		3	STEAP1	7	89790622	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	827442	89790622	69348041	515	9990											
AKAP9	10142	broad.mit.edu	37	chr7	91632476	91632476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accatctgtaacaaaggaatCatcacttagagcaactcaac	17	8	5	11	0	4	1	3	0	1	1	4	2	4	2	1	1	4	2	1	1	6	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:91632476C>T	uc003ulg.2	+	8	3470	c.3245C>T	c.(3244-3246)TCA>TTA	p.S1082L	AKAP9_uc003ule.2_Missense_Mutation_p.S1094L|AKAP9_uc003ulf.2_Missense_Mutation_p.S1082L|AKAP9_uc003uli.2_Missense_Mutation_p.S707L	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1094					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			ACAAAGGAATCATCACTTAGA	0.323			T	BRAF	papillary thyroid								13	67					0	0	0.00499	0	0		T	91632476	T	T	91632476	3	4	12	1	0	0	0	0	1	0	0	0	459	838	29	4	3275	4	AKAP9	7	91632476	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1841854	91632476	67506187	516	9991											
CASD1	64921	broad.mit.edu	37	chr7	94168365	94168365	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcacatttctggagcaagTacagtaagtatttggaattt	13	15	8	5	0	2	0	1	0	1	0	2	2	2	2	0	2	2	4	0	2	6	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:94168365T>C	uc003uni.3	+	10	1580	c.1353T>C	c.(1351-1353)AGT>AGC	p.S451S	CASD1_uc003unj.3_Silent_p.S451S	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	451	Helical; (Potential).					integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			CTGGAGCAAGTACAGTAAGTA	0.328													7	32					0	0	0.00308	0	0		C	94168365	C	C	94168365	2	2	12	1	0	0	0	0	0	0	0	1	2667	1635	57	3		3	CASD1	7	94168365	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	2535889	94168365	64970298	517	9992											
BAIAP2L1	55971	broad.mit.edu	37	chr7	97935802	97935802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttcttccagcaacttcGtgtacgacgacgggaaccaa	11	10	8	12	4	1	0	0	0	1	0	3	3	2	1	2	1	4	2	2	1	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:97935802G>A	uc003upj.2	-	11	1453	c.1190C>T	c.(1189-1191)ACG>ATG	p.T397M	uc003upk.1_5'Flank	NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1	397	SH3.				filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			CAGCAACTTCGTGTACGACGA	0.567													16	56					0	0	0.004007	0	0		A	97935802	A	A	97935802	3	1	12	1	0	0	0	0	1	0	0	0	1303	1145	40	1	361	1	BAIAP2L1	7	97935802	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3767437	97935802	61202861	518	9993											
TRRAP	8295	broad.mit.edu	37	chr7	98534814	98534814	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaattaccttcctcagtccAgggagaaaatcatcgctgca	12	9	8	12	1	2	1	2	0	0	1	5	2	4	1	3	1	2	3	3	1	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:98534814A>G	uc003upp.2	+	29	4356	c.4147A>G	c.(4147-4149)AGG>GGG	p.R1383G	TRRAP_uc011kis.1_Missense_Mutation_p.R1383G|TRRAP_uc003upr.2_Missense_Mutation_p.R1075G	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1383					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TCCTCAGTCCAGGGAGAAAAT	0.413													44	150					0	0	0.00361	0	0		G	98534814	G	G	98534814	3	3	12	1	0	0	0	0	1	0	0	0	16627	179	7	3	4257	3	TRRAP	7	98534814	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	599012	98534814	60603849	519	9994											
TRRAP	8295	broad.mit.edu	37	chr7	98580976	98580976	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggaacaacagcctgcaCgacatgaagacggtggtgaa	15	4	14	8	2	0	3	0	2	0	1	0	6	0	5	1	4	4	1	1	4	5	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:98580976C>T	uc003upp.2	+	59	9104	c.8895C>T	c.(8893-8895)CAC>CAT	p.H2965H	TRRAP_uc011kis.1_Silent_p.H2947H|TRRAP_uc003upr.2_Silent_p.H2664H	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2965	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			ACAGCCTGCACGACATGAAGA	0.552													9	37					0	0	0.000978	0	0		T	98580976	T	T	98580976	2	4	12	1	0	0	0	0	0	0	0	1	16627	535	19	1		1	TRRAP	7	98580976	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	46162	98580976	60557687	520	9995											
LRCH4	4034	broad.mit.edu	37	chr7	100175014	100175014	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgccggctcctcccgccTgagggaccaagacagggcaa	8	4	12	17	2	0	2	0	1	0	1	2	3	2	3	6	3	1	2	6	3	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:100175014T>C	uc003uvj.2	-	11	1232	c.1179_splice	c.e11-1	p.R393_splice	LRCH4_uc010lgz.2_Splice_Site|LRCH4_uc003uvi.2_Splice_Site|LRCH4_uc011kjw.1_Splice_Site|LRCH4_uc011kjx.1_Splice_Site	NM_002319	NP_002310	O75427	LRCH4_HUMAN	leucine-rich repeats and calponin homology (CH)						nervous system development	PML body	protein binding			large_intestine(1)|ovary(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TCCTCCCGCCTGAGGGACCAA	0.731													4	9					0	0	0.009096	0	0		C	100175014	C	C	100175014	5	2	12	1	0	0	0	0	0	0	1	0	8953	1594	55	3	906	3	LRCH4	7	100175014	Splice_Site	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1594038	100175014	58963649	521	9996											
MLL5	55904	broad.mit.edu	37	chr7	104742433	104742433	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtaggactcacattggacAgcagcgtcggagacacagaa	14	5	13	9	2	1	2	1	0	0	2	2	6	1	4	0	3	2	2	0	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:104742433A>G	uc003vcm.2	+	17	2522	c.1988A>G	c.(1987-1989)CAG>CGG	p.Q663R	MLL5_uc010ljc.2_Missense_Mutation_p.Q663R|MLL5_uc010lje.1_RNA	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	663					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						CACATTGGACAGCAGCGTCGG	0.398													20	84					0	0	0.004656	0	0		G	104742433	G	G	104742433	3	3	12	1	0	0	0	0	1	0	0	0	9642	188	7	3	2046	3	MLL5	7	104742433	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	4567419	104742433	54396230	522	9997											
MLL5	55904	broad.mit.edu	37	chr7	104748331	104748331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgttaatgacaatttgatcGacgggaattgcacaccccag	12	10	9	10	2	0	2	0	2	0	0	1	4	0	3	2	1	1	2	2	1	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:104748331G>A	uc003vcm.2	+	22	3961	c.3427G>A	c.(3427-3429)GAC>AAC	p.D1143N	MLL5_uc010ljc.2_Missense_Mutation_p.D1143N|MLL5_uc010lje.1_RNA|MLL5_uc010ljf.1_RNA|MLL5_uc010ljg.2_5'UTR|MLL5_uc010ljh.1_5'Flank	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1143					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						CAATTTGATCGACGGGAATTG	0.348													7	42					0	0	0.004482	0	0		A	104748331	A	A	104748331	3	1	12	1	0	0	0	0	1	0	0	0	9642	1058	37	1	3505	1	MLL5	7	104748331	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5898	104748331	54390332	523	9998											
TMEM168	64418	broad.mit.edu	37	chr7	112407372	112407372	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccaaaaaaggttcagaccGcataaccaatttgccaaatg	17	8	6	10	1	1	1	1	0	0	1	2	1	2	1	4	1	2	2	4	1	6	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:112407372G>A	uc003vgn.2	-	5	2366	c.1974C>T	c.(1972-1974)TGC>TGT	p.C658C	TMEM168_uc010lju.2_Silent_p.C658C|TMEM168_uc011kmr.1_Silent_p.C274C	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	658	Helical; (Potential).					integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						GGTTCAGACCGCATAACCAAT	0.433													7	37					0	0	0.001984	0	0		A	112407372	A	A	112407372	2	1	12	1	0	0	0	0	0	0	0	1	16108	1079	38	1		1	TMEM168	7	112407372	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	7659041	112407372	46731291	524	9999											
FOXP2	93986	broad.mit.edu	37	chr7	114299690	114299690	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacagctggtttacacggAcatttgcttacttcaggcgt	8	15	9	9	2	1	0	1	0	0	0	1	1	1	1	0	3	5	3	0	3	3	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:114299690A>G	uc003vhb.2	+	13	1983	c.1609A>G	c.(1609-1611)ACA>GCA	p.T537A	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Missense_Mutation_p.T562A|FOXP2_uc003vha.2_Missense_Mutation_p.T445A|FOXP2_uc011kmu.1_Missense_Mutation_p.T554A|FOXP2_uc011kmv.1_Missense_Mutation_p.T536A|FOXP2_uc010ljz.1_Missense_Mutation_p.T352A|FOXP2_uc003vhe.1_Missense_Mutation_p.T107A	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	537	Fork-head.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						GTTTACACGGACATTTGCTTA	0.333													10	48					0	0	0.001855	0	0		G	114299690	G	G	114299690	3	3	12	1	0	0	0	0	1	0	0	0	6041	275	10	3	1822	3	FOXP2	7	114299690	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1892318	114299690	44838973	525	10000											
RNF148	378925	broad.mit.edu	37	chr7	122341990	122341990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgtttgcaagttaaaatgCgtactacatcttggggtttg	11	15	10	5	1	1	0	0	0	1	0	1	0	1	0	0	2	4	5	0	2	6	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:122341990C>T	uc003vkk.1	-	1	1032	c.815G>A	c.(814-816)CGC>CAC	p.R272H	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron|RNF133_uc003vkj.1_5'Flank|RNF148_uc010lkr.1_3'UTR	NM_198085	NP_932351	Q8N7C7	RN148_HUMAN	ring finger protein 148 precursor	272	RING-type; atypical.					integral to membrane	zinc ion binding				0						AGTTAAAATGCGTACTACATC	0.418													14	61					0	0	0.00245	0	0		T	122341990	T	T	122341990	3	4	12	1	0	0	0	0	1	0	0	0	13474	768	27	1	106	1	RNF148	7	122341990	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	8042300	122341990	36796673	526	10001											
LRRC4	64101	broad.mit.edu	37	chr7	127669218	127669218	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtagtctgaatgagcacCgtggtagaggtggtatatgc	9	10	16	6	2	1	3	0	2	1	1	1	3	1	3	1	4	2	4	1	4	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:127669218C>T	uc003vmk.2	-	2	1613	c.1476G>A	c.(1474-1476)ACG>ACA	p.T492T	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	492	Thr-rich.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		GAATGAGCACCGTGGTAGAGG	0.562													15	51					0	0	0.010504	0	0		T	127669218	T	T	127669218	2	4	12	1	0	0	0	0	0	0	0	1	9015	639	23	1		1	LRRC4	7	127669218	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	5327228	127669218	31469445	527	10002											
IMPDH1	3614	broad.mit.edu	37	chr7	128038480	128038480	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttaccaagactatgacGtcgacgcccgcctgggtgag	8	7	13	13	4	0	3	0	2	0	1	1	4	0	3	4	2	1	0	4	2	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:128038480G>A	uc011kol.1	-	7	913	c.807C>T	c.(805-807)GAC>GAT	p.D269D	IMPDH1_uc011kom.1_Silent_p.D264D|IMPDH1_uc003vmt.2_Silent_p.D244D|IMPDH1_uc003vmu.2_Silent_p.D354D|IMPDH1_uc003vmw.2_Silent_p.D344D|IMPDH1_uc011kon.1_Silent_p.D321D|IMPDH1_uc003vmv.2_Silent_p.D318D|IMPDH1_uc003vmx.2_Silent_p.D277D|IMPDH1_uc003vmy.2_Silent_p.D285D	NM_001142573	NP_001136045	P20839	IMDH1_HUMAN	inosine monophosphate dehydrogenase 1 isoform e	269	NAD (By similarity).				GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	DNA binding|IMP dehydrogenase activity|metal ion binding			skin(2)|lung(1)|central_nervous_system(1)	4					Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)|Ribavirin(DB00811)|Thioguanine(DB00352)	AGACTATGACGTCGACGCCCG	0.587											OREG0018292	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	12					0	0	0.00308	0	0		A	128038480	A	A	128038480	2	1	12	1	0	0	0	0	0	0	0	1	7742	1136	40	1		1	IMPDH1	7	128038480	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	369262	128038480	31100183	528	10003											
CPA4	51200	broad.mit.edu	37	chr7	129950820	129950820	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaggccccagatgccgaGgaactcgtgagtcacagctg	13	5	12	11	2	1	2	1	1	0	1	2	4	1	3	3	2	3	1	3	2	3	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:129950820G>T	uc003vpr.2	+	9	1034	c.987G>T	c.(985-987)GAG>GAT	p.E329D	CPA4_uc011kpd.1_Missense_Mutation_p.E296D|CPA4_uc011kpe.1_Missense_Mutation_p.E225D	NM_016352	NP_057436	Q9UI42	CBPA4_HUMAN	carboxypeptidase A4 preproprotein	329					histone acetylation|proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					CAGATGCCGAGGAACTCGTGA	0.567													9	46					0.00010058	0.000106593	0.001368	1	0		T	129950820	T	T	129950820	3	4	12	1	0	0	0	0	1	0	0	0	3795	991	35	5	1021	5	CPA4	7	129950820	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1912340	129950820	29187843	529	10004											
TTC26	79989	broad.mit.edu	37	chr7	138832998	138832998	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccctctgctactacaagTtggattactatgatgtgtct	8	15	9	9	0	2	1	0	1	2	0	2	2	2	2	1	2	4	2	1	2	5	5	rs144351469		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:138832998T>C	uc003vus.2	+	7	706	c.592T>C	c.(592-594)TTG>CTG	p.L198L	TTC26_uc003vuq.2_Silent_p.L198L|TTC26_uc011kqm.1_Intron|TTC26_uc003vur.3_Silent_p.L198L|TTC26_uc011kqn.1_Silent_p.L198L|TTC26_uc011kqo.1_Silent_p.L167L|TTC26_uc011kqp.1_Silent_p.L93L|TTC26_uc003vut.2_Silent_p.L58L|TTC26_uc011kqq.1_Intron	NM_024926	NP_079202	A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26 isoform 1	198							binding			ovary(1)	1						CTACTACAAGTTGGATTACTA	0.388													21	86					0	0	0.002299	0	0		C	138832998	C	C	138832998	2	2	12	1	0	0	0	0	0	0	0	1	16720	1722	60	3		3	TTC26	7	138832998	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	8882178	138832998	20305665	530	10005											
SLC37A3	84255	broad.mit.edu	37	chr7	140051864	140051864	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggcggcttctcctcaccaAtttcttctggtgacaccagg	6	11	11	13	1	4	1	1	1	3	0	5	1	4	1	3	5	0	1	3	5	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:140051864A>T	uc003vvo.2	-	8	867	c.701T>A	c.(700-702)ATT>AAT	p.I234N	SLC37A3_uc003vvp.2_Missense_Mutation_p.I234N|SLC37A3_uc010lnh.2_Missense_Mutation_p.I234N|SLC37A3_uc011kqz.1_RNA|SLC37A3_uc011kra.1_Missense_Mutation_p.I234N|SLC37A3_uc011krb.1_Missense_Mutation_p.I206N	NM_207113	NP_996996	Q8NCC5	SPX3_HUMAN	solute carrier family 37 (glycerol-3-phosphate	234					carbohydrate transport|transmembrane transport	integral to membrane				ovary(3)	3	Melanoma(164;0.0142)					CTCCTCACCAATTTCTTCTGG	0.478													10	12					0	0	0.000978	0	0		T	140051864	T	T	140051864	3	4	12	1	0	0	0	0	1	0	0	0	14624	101	4	5	964	5	SLC37A3	7	140051864	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1218866	140051864	19086799	531	10006											
CASP2	835	broad.mit.edu	37	chr7	142997069	142997069	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttacctgcacaccgagtcacGgactcctgcatcgtggcact	8	9	9	15	3	1	0	1	0	0	0	3	2	2	1	3	2	3	3	3	2	1	1	rs114290247	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:142997069G>A	uc003wco.2	+	7	948	c.801G>A	c.(799-801)ACG>ACA	p.T267T	CASP2_uc003wcp.2_3'UTR|CASP2_uc011kta.1_Silent_p.T151T|CASP2_uc003wcq.2_RNA|CASP2_uc011ktb.1_Silent_p.T17T	NM_032982	NP_116764	P42575	CASP2_HUMAN	caspase 2 isoform 1 preproprotein	267					apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|protein maturation by peptide bond cleavage	cytosol	cysteine-type endopeptidase activity|enzyme binding|protein binding|protein domain specific binding			lung(2)|ovary(1)	3	Melanoma(164;0.059)					ACCGAGTCACGGACTCCTGCA	0.517											OREG0018400	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	42					0	0	0.001855	0	0		A	142997069	A	A	142997069	2	1	12	1	0	0	0	0	0	0	0	1	2674	1103	39	1		1	CASP2	7	142997069	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2945205	142997069	16141594	532	10007											
FAM115A	9747	broad.mit.edu	37	chr7	143573696	143573696	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgaaggcagcagagggagtCgccatggctctattggtttc	8	10	14	9	2	1	1	0	0	1	1	4	3	1	2	1	4	1	4	1	4	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:143573696C>T	uc003wdo.1	-	2	139	c.6G>A	c.(4-6)GCG>GCA	p.A2A	FAM115A_uc011ktu.1_Intron|FAM115A_uc003wdp.1_Silent_p.A2A	NM_014719	NP_055534	Q9Y4C2	F115A_HUMAN	hypothetical protein LOC9747	2											0	Melanoma(164;0.0903)					CAGAGGGAGTCGCCATGGCTC	0.468													15	34					0	0	0.004007	0	0		T	143573696	T	T	143573696	2	4	12	1	0	0	0	0	0	0	0	1	5416	871	31	1		1	FAM115A	7	143573696	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	576627	143573696	15564967	533	10008											
OR2A14	135941	broad.mit.edu	37	chr7	143827119	143827119	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccctgaggagggcactgaGgaaggagaggctgacgtgag	10	4	19	8	2	0	5	0	4	0	1	0	8	0	7	1	5	0	2	1	5	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:143827119G>T	uc011kua.1	+	1	914	c.914G>T	c.(913-915)AGG>ATG	p.R305M		NM_001001659	NP_001001659	Q96R47	O2A14_HUMAN	olfactory receptor, family 2, subfamily A,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					AGGGCACTGAGGAAGGAGAGG	0.488													26	79					2.12542e-12	2.39966e-12	0.00632	1	0		T	143827119	T	T	143827119	3	4	12	1	0	0	0	0	1	0	0	0	10995	1000	35	5	916	5	OR2A14	7	143827119	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	253423	143827119	15311544	534	10009											
CUL1	8454	broad.mit.edu	37	chr7	148496368	148496368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttatcttgttgcataggCggccatcgtgagaatcatga	9	13	10	9	2	2	2	1	2	1	1	4	3	3	2	2	2	1	2	2	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:148496368C>T	uc010lpg.2	+	21	2664	c.2138C>T	c.(2137-2139)GCG>GTG	p.A713V	CUL1_uc003wey.2_Missense_Mutation_p.A713V|CUL1_uc003wez.2_Missense_Mutation_p.A603V|CUL1_uc003wfa.2_Missense_Mutation_p.A374V	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	713					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GTTGCATAGGCGGCCATCGTG	0.483													15	43					0	0	0.006122	0	0		T	148496368	T	T	148496368	3	4	12	1	0	0	0	0	1	0	0	0	4057	782	27	1	2216	1	CUL1	7	148496368	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4669249	148496368	10642295	535	10010											
ZNF425	155054	broad.mit.edu	37	chr7	148801590	148801590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcaggcgctggtgggcgCgcatggcgttcctccagaag	5	8	17	11	4	0	1	0	0	0	1	2	1	2	1	2	4	1	4	2	4	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:148801590C>T	uc003wfj.2	-	4	1446	c.1373G>A	c.(1372-1374)CGC>CAC	p.R458H		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	458	C2H2-type 9.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			CTGGTGGGCGCGCATGGCGTT	0.662													10	22					0	0	0.006214	0	0		T	148801590	T	T	148801590	3	4	12	1	0	0	0	0	1	0	0	0	17924	768	27	1	889	1	ZNF425	7	148801590	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	305222	148801590	10337073	536	10011											
KCNH2	3757	broad.mit.edu	37	chr7	150656686	150656686	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagccagctggtgggggggCcccggtggttggtgtcatga	4	8	19	10	1	1	1	1	1	0	0	1	1	1	1	4	7	2	2	4	7	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:150656686C>G	uc003wic.2	-	3	459	c.446G>C	c.(445-447)GGC>GCC	p.G149A	KCNH2_uc011kux.1_Missense_Mutation_p.G53A|KCNH2_uc003wie.2_Missense_Mutation_p.G149A	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	149	Cytoplasmic (Potential).				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	GGTGGGGGGGCCCCGGTGGTT	0.582													5	14					0	0	0.001168	0	0		G	150656686	G	G	150656686	3	3	12	1	0	0	0	0	1	0	0	0	8048	739	26	5	3466	5	KCNH2	7	150656686	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1855096	150656686	8481977	537	10012											
ACCN3	9311	broad.mit.edu	37	chr7	150747697	150747697	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttgccagcagcagcaggTacccttccgtgtgcctccac	6	10	9	16	1	1	0	0	0	1	0	3	0	3	0	5	1	6	4	5	1	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:150747697T>C	uc003win.2	+	3	1181	c.813_splice	c.e3+2	p.Q271_splice	ACCN3_uc003wio.2_Splice_Site_p.Q271_splice|ACCN3_uc003wip.2_Splice_Site_p.Q271_splice|ACCN3_uc003wiq.2_Splice_Site	NM_004769	NP_004760	Q9UHC3	ACCN3_HUMAN	amiloride-sensitive cation channel 3 isoform a						sensory perception|signal transduction	cytoplasm|integral to plasma membrane	ligand-gated sodium channel activity			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CAGCAGCAGGTACCCTTCCGT	0.612													13	53					0	0	0.00245	0	0		C	150747697	C	C	150747697	5	2	12	1	0	0	0	0	0	0	1	0	130	1652	57	3	825	3	ACCN3	7	150747697	Splice_Site	SNP	T	TCGA-BR-4257-01A-01D-1126-08	91011	150747697	8390966	538	10013											
GALNT11	63917	broad.mit.edu	37	chr7	151802408	151802408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcataagaaatacaaagcGtgaggggttgattcgaggga	15	8	14	4	2	1	3	1	2	0	1	2	5	1	4	0	3	2	1	0	3	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:151802408G>A	uc010lqg.1	+	5	895	c.665G>A	c.(664-666)CGT>CAT	p.R222H	GALNT11_uc011kvm.1_Missense_Mutation_p.R141H|GALNT11_uc003wku.2_Missense_Mutation_p.R222H|GALNT11_uc011kvn.1_RNA|GALNT11_uc003wkw.1_5'Flank	NM_022087	NP_071370	Q8NCW6	GLT11_HUMAN	N-acetylgalactosaminyltransferase 11	222	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.214)	OV - Ovarian serous cystadenocarcinoma(82;0.00168)	UCEC - Uterine corpus endometrioid carcinoma (81;0.177)|BRCA - Breast invasive adenocarcinoma(188;0.0932)		AATACAAAGCGTGAGGGGTTG	0.433													4	56					0	0	0.009096	0	0		A	151802408	A	A	151802408	3	1	12	1	0	0	0	0	1	0	0	0	6224	1145	40	1	679	1	GALNT11	7	151802408	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1054711	151802408	7336255	539	10014											
MLL3	58508	broad.mit.edu	37	chr7	151878749	151878749	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagggtcaacagacaatcGccttgatgcctgtgacactg	12	9	10	10	1	1	3	1	2	0	1	2	3	1	3	2	1	2	0	2	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:151878749G>A	uc003wla.2	-	36	6415	c.6196C>T	c.(6196-6198)CGA>TGA	p.R2066*	MLL3_uc003wkz.2_Nonsense_Mutation_p.R1127*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2066	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACAGACAATCGCCTTGATGCC	0.453			N		medulloblastoma								13	45					0	0	0.003163	0	0		A	151878749	A	A	151878749	4	1	12	1	0	0	0	0	0	1	0	0	9640	1095	38	1	8635	1	MLL3	7	151878749	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	76341	151878749	7259914	540	10015											
PAXIP1	22976	broad.mit.edu	37	chr7	154739611	154739611	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacttttcccttaaagtgtAccttaaagagtggagaaacg	13	13	8	7	1	0	2	0	0	0	2	1	3	1	2	2	1	3	1	2	1	7	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr7:154739611A>G	uc003wlp.2	-	17	2965	c.2922_splice	c.e17+1	p.K974_splice	LOC100132707_uc003wlo.2_RNA|PAXIP1_uc003wlq.1_Splice_Site_p.K940_splice|PAXIP1_uc011kvs.1_Splice_Site_p.K938_splice	NM_007349	NP_031375	Q6ZW49	PAXI1_HUMAN	PAX interacting protein 1						DNA damage response, signal transduction by p53 class mediator|DNA recombination|DNA repair|histone H3-K4 methylation|positive regulation of histone acetylation|positive regulation of histone H3-K36 methylation|positive regulation of histone H3-K4 methylation|positive regulation of isotype switching|positive regulation of protein ubiquitination|positive regulation of transcription initiation from RNA polymerase II promoter|response to ionizing radiation|transcription, DNA-dependent	histone methyltransferase complex|nuclear matrix				lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0296)	UCEC - Uterine corpus endometrioid carcinoma (81;0.178)		CTTAAAGTGTACCTTAAAGAG	0.468													26	107					0	0	0.003954	0	0		G	154739611	G	G	154739611	5	3	12	1	0	0	0	0	0	0	1	0	11506	405	14	3	305	3	PAXIP1	7	154739611	Splice_Site	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2860862	154739611	4399052	541	10016											
ZNF596	169270	broad.mit.edu	37	chr8	196042	196042	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgccatgtatgtgggaaaGccttcactgaatcttctgac	10	12	10	9	0	3	2	1	2	2	0	3	3	3	3	2	1	2	1	2	1	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:196042G>T	uc003wot.2	+	6	1483	c.1195G>T	c.(1195-1197)GCC>TCC	p.A399S	ZNF596_uc003wou.2_Missense_Mutation_p.A298S|ZNF596_uc003wov.2_Missense_Mutation_p.A399S|ZNF596_uc003wow.2_Missense_Mutation_p.A399S	NM_173539	NP_775810	Q8TC21	ZN596_HUMAN	zinc finger protein 596	399	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(2;4.81e-29)|all_epithelial(2;5.03e-19)|Lung NSC(2;8.68e-08)|all_lung(2;1.52e-07)|Ovarian(12;0.00965)|Colorectal(14;0.0367)|all_neural(12;0.0837)|Myeloproliferative disorder(644;0.116)|all_hematologic(2;0.138)|Acute lymphoblastic leukemia(644;0.242)		Epithelial(5;3.77e-18)|all cancers(2;5.2e-17)|OV - Ovarian serous cystadenocarcinoma(5;5.37e-09)|BRCA - Breast invasive adenocarcinoma(11;1.7e-06)|Colorectal(2;6.51e-05)|READ - Rectum adenocarcinoma(2;0.0276)|COAD - Colon adenocarcinoma(149;0.0702)		ATGTGGGAAAGCCTTCACTGA	0.428													14	76					6.49762e-13	7.34818e-13	0.006122	1	0		T	196042	T	T	196042	3	4	12	1	0	0	0	0	1	0	0	0	18051	971	34	5	1213	5	ZNF596	8	196042	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08		196042	146167980	542	10017											
CSMD1	64478	broad.mit.edu	37	chr8	3019715	3019715	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggctcgcactggaaggagAgcacgtcgttcaccatgtac	9	7	13	12	4	1	1	1	0	0	1	3	3	1	2	1	3	2	5	1	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:3019715A>G	uc011kwk.1	-	38	6203	c.5813T>C	c.(5812-5814)CTC>CCC	p.L1938P	CSMD1_uc011kwj.1_Missense_Mutation_p.L1330P|CSMD1_uc003wqe.2_Missense_Mutation_p.L1094P|CSMD1_uc010lrg.2_Missense_Mutation_p.L6P	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1938	Sushi 11.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CTGGAAGGAGAGCACGTCGTT	0.512													7	18					0	0	0.001984	0	0		G	3019715	G	G	3019715	3	3	12	1	0	0	0	0	1	0	0	0	3947	304	11	3	5016	3	CSMD1	8	3019715	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2823673	3019715	143344307	543	10018											
SGK223	157285	broad.mit.edu	37	chr8	8185550	8185550	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgggaggatgaggcggaGggggcccctttgcactggag	7	6	20	8	1	0	1	0	1	0	0	0	5	0	5	2	7	2	2	2	7	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:8185550G>A	uc003wsh.3	-	4	2742	c.2742C>T	c.(2740-2742)CCC>CCT	p.P914P		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	914							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						ATGAGGCGGAGGGGGCCCCTT	0.657													5	21					0	0	0.00308	0	0		A	8185550	A	A	8185550	2	1	12	1	0	0	0	0	0	0	0	1	14235	987	35	4		4	SGK223	8	8185550	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5165835	8185550	138178472	544	10019											
MFHAS1	9258	broad.mit.edu	37	chr8	8748408	8748408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaagacgtgctccttgagagCcggactgtcctcaaagtaga	11	8	12	10	2	1	3	1	1	0	3	3	6	3	4	3	1	2	2	3	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:8748408C>T	uc003wsj.1	-	1	2724	c.2161G>A	c.(2161-2163)GCT>ACT	p.A721T		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	721											0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		TCCTTGAGAGCCGGACTGTCC	0.587													4	42					0	0	0.000602	0	0		T	8748408	T	T	8748408	3	4	12	1	0	0	0	0	1	0	0	0	9539	739	26	2	1009	2	MFHAS1	8	8748408	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	562858	8748408	137615614	545	10020											
ERI1	90459	broad.mit.edu	37	chr8	8869198	8869198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgaagaaggaaacccacCtgagtttgtacatgaaataa	16	10	9	6	0	0	4	0	3	0	1	0	5	0	5	2	1	2	2	2	1	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:8869198C>T	uc011kwu.1	+	3	694	c.434C>T	c.(433-435)CCT>CTT	p.P145L	ERI1_uc003wsk.2_Missense_Mutation_p.P145L	NM_153332	NP_699163	Q8IV48	ERI1_HUMAN	three prime histone mRNA exonuclease 1	145	Exonuclease.				gene silencing by RNA|rRNA 3'-end processing	cytoplasm|histone pre-mRNA 3'end processing complex|nucleolus	3'-5' exonuclease activity|histone pre-mRNA stem-loop binding|metal ion binding|ribosome binding|rRNA binding				0					Adenosine monophosphate(DB00131)	GGAAACCCACCTGAGTTTGTA	0.323													13	27					0	0	0.001368	0	0		T	8869198	T	T	8869198	3	4	12	1	0	0	0	0	1	0	0	0	5235	681	24	4	444	4	ERI1	8	8869198	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	120790	8869198	137494824	546	10021											
TNKS	8658	broad.mit.edu	37	chr8	9634228	9634228	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcccagaccgcaacagcCgcagagcagaagacctagtg	12	4	10	15	2	0	4	0	0	0	4	1	4	1	4	5	0	3	3	5	0	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:9634228C>T	uc003wss.2	+	27	3971	c.3966C>T	c.(3964-3966)GCC>GCT	p.A1322A	TNKS_uc011kww.1_Silent_p.A1085A	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1322					mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		CCGCAACAGCCGCAGAGCAGA	0.468													17	24					0	0	0.002299	0	0		T	9634228	T	T	9634228	2	4	12	1	0	0	0	0	0	0	0	1	16344	639	23	1		1	TNKS	8	9634228	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	765030	9634228	136729794	547	10022											
MSRA	4482	broad.mit.edu	37	chr8	10159084	10159084	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtccgagtggtgtaccaGccagaacacatgagttttga	10	10	12	9	2	0	3	0	2	0	1	2	4	1	3	3	1	3	2	3	1	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:10159084G>T	uc003wsx.2	+	4	569	c.372G>T	c.(370-372)CAG>CAT	p.Q124H	MSRA_uc011kwx.1_Missense_Mutation_p.Q84H|MSRA_uc011kwy.1_Missense_Mutation_p.Q81H|MSRA_uc003wsz.2_Missense_Mutation_p.Q81H|MSRA_uc003wsy.2_Missense_Mutation_p.Q58H	NM_012331	NP_036463	Q9UJ68	MSRA_HUMAN	methionine sulfoxide reductase A isoform a	124					methionine metabolic process|protein modification process|response to oxidative stress	mitochondrion|nucleus	peptide-methionine-(S)-S-oxide reductase activity				0		Myeloproliferative disorder(644;0.178)			L-Methionine(DB00134)	TGGTGTACCAGCCAGAACACA	0.423													11	74					7.93312e-07	8.62845e-07	0.00245	1	0		T	10159084	T	T	10159084	3	4	12	1	0	0	0	0	1	0	0	0	9905	962	34	5	403	5	MSRA	8	10159084	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	524856	10159084	136204938	548	10023											
RP1L1	94137	broad.mit.edu	37	chr8	10468221	10468221	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggagacccaaggtcttcCtcaaataactgcagactggc	12	7	10	12	0	2	2	1	0	1	2	3	3	3	2	2	3	2	2	2	3	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:10468221C>T	uc003wtc.2	-	4	3616	c.3387G>A	c.(3385-3387)GAG>GAA	p.E1129E		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1129					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CAAGGTCTTCCTCAAATAACT	0.602													15	45					0	0	0.010504	0	0		T	10468221	T	T	10468221	2	4	12	1	0	0	0	0	0	0	0	1	13558	680	24	4		4	RP1L1	8	10468221	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	309137	10468221	135895801	549	10024											
GATA4	2626	broad.mit.edu	37	chr8	11615818	11615818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagacgttctcagtcagtgCgatgtctggccatgggccct	6	11	12	12	2	4	1	3	0	2	1	5	2	4	1	2	2	1	1	2	2	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:11615818C>T	uc003wuc.2	+	7	1717	c.1163C>T	c.(1162-1164)GCG>GTG	p.A388V	GATA4_uc003wub.1_Missense_Mutation_p.A182V|GATA4_uc011kxc.1_Missense_Mutation_p.A389V|uc003wud.1_5'Flank	NM_002052	NP_002043	P43694	GATA4_HUMAN	GATA binding protein 4	388					atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)		TCAGTCAGTGCGATGTCTGGC	0.617													16	77					0	0	0.00499	0	0		T	11615818	T	T	11615818	3	4	12	1	0	0	0	0	1	0	0	0	6271	768	27	1	1185	1	GATA4	8	11615818	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1147597	11615818	134748204	550	10025											
DLC1	10395	broad.mit.edu	37	chr8	13357399	13357399	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccatgacagcagtcaggtAgtgaaacacacttctctttg	12	11	8	10	0	2	2	1	2	1	0	4	2	3	2	1	1	2	2	1	1	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:13357399A>G	uc003wwm.2	-	2	626	c.182T>C	c.(181-183)CTA>CCA	p.L61P	DLC1_uc003wwn.2_Missense_Mutation_p.L61P|DLC1_uc011kxy.1_Missense_Mutation_p.L61P	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	61					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GCAGTCAGGTAGTGAAACACA	0.458													7	286					0	0	0.00308	0	0		G	13357399	G	G	13357399	3	3	12	1	0	0	0	0	1	0	0	0	4556	420	15	3	4557	3	DLC1	8	13357399	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1741581	13357399	133006623	551	10026											
SLC7A2	6542	broad.mit.edu	37	chr8	17401110	17401110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggctggcctctgctatgccGaatttggggcccgtgttccc	3	12	13	13	2	1	0	0	0	1	0	2	1	2	0	4	4	2	3	4	4	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:17401110G>A	uc011kyc.1	+	2	431	c.262G>A	c.(262-264)GAA>AAA	p.E88K	SLC7A2_uc011kyd.1_Missense_Mutation_p.E128K|SLC7A2_uc011kye.1_Missense_Mutation_p.E128K|SLC7A2_uc011kyf.1_Missense_Mutation_p.E88K	NM_001008539	NP_001008539	P52569	CTR2_HUMAN	solute carrier family 7, member 2 isoform 2	88	Cytoplasmic (Potential).				cellular amino acid metabolic process|ion transport	cytoplasm|integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity			ovary(2)|skin(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	L-Lysine(DB00123)|L-Ornithine(DB00129)	CTGCTATGCCGAATTTGGGGC	0.587													20	27					0	0	0.001882	0	0		A	17401110	A	A	17401110	3	1	12	1	0	0	0	0	1	0	0	0	14722	1059	37	1	388	1	SLC7A2	8	17401110	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4043711	17401110	128962912	552	10027											
KIAA1967	57805	broad.mit.edu	37	chr8	22471699	22471699	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgagttggctatcagccTtccccctgagccagcccttt	6	12	8	15	0	2	2	1	2	1	0	3	2	3	2	5	1	3	2	5	1	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:22471699T>G	uc003xch.2	+	9	936	c.799T>G	c.(799-801)TTC>GTC	p.F267V	KIAA1967_uc003xci.2_Missense_Mutation_p.F267V|KIAA1967_uc003xcj.1_5'UTR	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	267					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		GCTATCAGCCTTCCCCCTGAG	0.582													12	31					0	0	0.004007	0	0		G	22471699	G	G	22471699	3	3	12	1	0	0	0	0	1	0	0	0	8281	1609	56	5	829	5	KIAA1967	8	22471699	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	5070589	22471699	123892323	553	10028											
KIAA1967	57805	broad.mit.edu	37	chr8	22473240	22473240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgatgccttggagcaagcaGcagacacttctagacggaac	12	7	11	11	1	1	3	0	1	1	2	1	5	1	5	1	2	5	3	1	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:22473240G>A	uc003xch.2	+	13	1560	c.1423G>A	c.(1423-1425)GCA>ACA	p.A475T	KIAA1967_uc003xci.2_Missense_Mutation_p.A475T|KIAA1967_uc003xcj.1_Missense_Mutation_p.A144T	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	475					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		GGAGCAAGCAGCAGACACTTC	0.572													15	63					0	0	0.003163	0	0		A	22473240	A	A	22473240	3	1	12	1	0	0	0	0	1	0	0	0	8281	971	34	2	1469	2	KIAA1967	8	22473240	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1541	22473240	123890782	554	10029											
EGR3	1960	broad.mit.edu	37	chr8	22548748	22548748	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatggcctccacgtcaccCtgcggtggctgcaccatgct	6	9	10	16	2	1	0	1	0	0	0	2	0	2	0	4	3	4	3	4	3	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:22548748C>A	uc003xcm.1	-	2	760	c.402G>T	c.(400-402)CAG>CAT	p.Q134H	EGR3_uc011kzn.1_Missense_Mutation_p.Q96H|EGR3_uc011kzo.1_Missense_Mutation_p.Q80H	NM_004430	NP_004421	Q06889	EGR3_HUMAN	early growth response 3	134					circadian rhythm|muscle organ development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Prostate(55;0.0421)|Breast(100;0.102)		Colorectal(74;0.0145)|BRCA - Breast invasive adenocarcinoma(99;0.053)|COAD - Colon adenocarcinoma(73;0.0608)		CCACGTCACCCTGCGGTGGCT	0.662													9	14					2.80697e-09	3.10496e-09	0.000978	1	0		A	22548748	A	A	22548748	3	1	12	1	0	0	0	0	1	0	0	0	4979	680	24	5	765	5	EGR3	8	22548748	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	75508	22548748	123815274	555	10030											
RHOBTB2	23221	broad.mit.edu	37	chr8	22868168	22868168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcatcattctagccaacCgcctctgcctgccacacctg	8	9	6	18	1	4	0	2	0	2	0	4	0	4	0	6	0	5	1	6	0	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:22868168C>T	uc003xcq.2	+	7	2275	c.1738C>T	c.(1738-1740)CGC>TGC	p.R580C	RHOBTB2_uc003xcp.2_Missense_Mutation_p.R602C|RHOBTB2_uc011kzp.1_Missense_Mutation_p.R587C|uc003xcr.2_Intron	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	580					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		TCTAGCCAACCGCCTCTGCCT	0.597													31	65					0	0	0.004289	0	0		T	22868168	T	T	22868168	3	4	12	1	0	0	0	0	1	0	0	0	13359	652	23	1	1845	1	RHOBTB2	8	22868168	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	319420	22868168	123495854	556	10031											
LOXL2	4017	broad.mit.edu	37	chr8	23191084	23191084	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtgggcctctgtgccggTgcagtccatggagaatggcc	6	9	16	10	1	1	1	0	0	1	1	2	3	2	1	4	4	2	1	4	4	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:23191084T>C	uc003xdh.1	-	5	1135	c.796A>G	c.(796-798)ACC>GCC	p.T266A	uc003xdj.2_5'Flank|uc003xdi.2_5'Flank	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	266	SRCR 2.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		TCTGTGCCGGTGCAGTCCATG	0.617													4	39					0	0	0.000602	0	0		C	23191084	C	C	23191084	3	2	12	1	0	0	0	0	1	0	0	0	8918	1696	59	3	1568	3	LOXL2	8	23191084	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	322916	23191084	123172938	557	10032											
NEFL	4747	broad.mit.edu	37	chr8	24813138	24813138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtccttggcggcgcgcaCggcgtcggtgttcttggcgg	1	10	17	13	8	1	0	0	0	1	0	4	0	2	0	1	6	0	2	1	6	0	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:24813138C>T	uc003xee.2	-	1	994	c.892G>A	c.(892-894)GTG>ATG	p.V298M		NM_006158	NP_006149	P07196	NFL_HUMAN	neurofilament, light polypeptide 68kDa	298	Rod.|Coil 2B.				anterograde axon cargo transport|axon transport of mitochondrion|neurofilament bundle assembly|retrograde axon cargo transport|synaptic transmission	cytosol|neurofilament	identical protein binding|protein C-terminus binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.00965)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		GCGGCGCGCACGGCGTCGGTG	0.617													7	26					0	0	0.00308	0	0		T	24813138	T	T	24813138	3	4	12	1	0	0	0	0	1	0	0	0	10334	536	19	1	756	1	NEFL	8	24813138	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1622054	24813138	121550884	558	10033											
ADRA1A	148	broad.mit.edu	37	chr8	26721708	26721708	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggagaacttgaggagcCtcactgagaagtgcgtcttg	9	8	14	10	2	2	3	1	2	1	2	2	6	2	4	2	2	3	0	2	2	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:26721708C>A	uc003xfh.1	-	1	1215	c.779G>T	c.(778-780)AGG>ATG	p.R260M	ADRA1A_uc003xfc.1_Missense_Mutation_p.R260M|ADRA1A_uc010lul.1_Missense_Mutation_p.R260M|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.R260M|ADRA1A_uc010lum.1_Missense_Mutation_p.R260M|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.R260M	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	260	Cytoplasmic (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	CTTGAGGAGCCTCACTGAGAA	0.607													9	37					0.000978159	0.0010247	0.000978	1	0		A	26721708	A	A	26721708	3	1	12	1	0	0	0	0	1	0	0	0	334	681	24	5	920	5	ADRA1A	8	26721708	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1908570	26721708	119642314	559	10034											
STMN4	81551	broad.mit.edu	37	chr8	27101235	27101235	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttttgtacctaccagcaagGgtcatgtttctgggatctgg	7	15	11	8	0	3	0	1	0	2	0	3	1	3	1	2	3	3	3	2	3	3	5	rs138378493	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:27101235G>T	uc003xfk.2	-	2	120	c.6C>A	c.(4-6)ACC>ACA	p.T2T	STMN4_uc003xfj.2_Silent_p.T2T|STMN4_uc011lai.1_Silent_p.T2T|STMN4_uc011laj.1_Intron|STMN4_uc011lak.1_Silent_p.T2T|STMN4_uc010luo.2_Silent_p.T2T			Q9H169	STMN4_HUMAN	RecName: Full=Stathmin-4; AltName: Full=Stathmin-like protein B3;          Short=RB3;	2					intracellular signal transduction					large_intestine(1)|pancreas(1)	2		Ovarian(32;0.00167)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0214)|Epithelial(17;9.82e-10)|Colorectal(74;0.142)		TACCAGCAAGGGTCATGTTTC	0.532													8	60					0.00010058	0.000106593	0.001368	1	0		T	27101235	T	T	27101235	2	4	12	1	0	0	0	0	0	0	0	1	15336	1219	43	5		5	STMN4	8	27101235	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	379527	27101235	119262787	560	10035											
PTK2B	2185	broad.mit.edu	37	chr8	27296915	27296915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgacgtctggatgttcGgtgagtgctgatttgggagg	6	12	17	6	2	1	3	0	3	1	0	2	5	1	5	1	4	1	2	1	4	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:27296915G>A	uc003xfn.1	+	25	2642	c.1834G>A	c.(1834-1836)GCC>ACC	p.A612T	PTK2B_uc003xfo.1_Missense_Mutation_p.A612T|PTK2B_uc003xfp.1_Missense_Mutation_p.A612T|PTK2B_uc003xfq.1_Missense_Mutation_p.A612T|PTK2B_uc003xfr.1_Missense_Mutation_p.A358T	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	612	Protein kinase.				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		CTGGATGTTCGGTGAGTGCTG	0.562													16	33					0	0	0.007291	0	0		A	27296915	A	A	27296915	3	1	12	1	0	0	0	0	1	0	0	0	12786	1130	39	1	1908	1	PTK2B	8	27296915	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	195680	27296915	119067107	561	10036											
C8orf80	389643	broad.mit.edu	37	chr8	27922180	27922180	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccagatgcgcatctcagcGgcctctccatcccaatctct	7	9	8	17	2	3	1	1	0	3	1	7	1	4	1	4	2	2	1	4	2	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:27922180G>A	uc003xgm.3	-	7	923	c.780C>T	c.(778-780)GCC>GCT	p.A260A		NM_001010906	NP_001010906	Q68CJ6	SLIP_HUMAN	speckled-like pattern in the germinal center	260						nucleus	GTP binding|GTPase activity			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.126)|Kidney(114;0.15)|Colorectal(74;0.181)		GCATCTCAGCGGCCTCTCCAT	0.562													9	53					0	0	0.008291	0	0		A	27922180	A	A	27922180	2	1	12	1	0	0	0	0	0	0	0	1	2442	1103	39	1		1	C8orf80	8	27922180	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	625265	27922180	118441842	562	10037											
C8orf80	389643	broad.mit.edu	37	chr8	27925085	27925085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggatcttccttttgggcttCgccctcagtaactcctcata	6	14	8	13	1	3	0	2	0	1	0	6	1	5	1	3	2	1	2	3	2	2	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:27925085C>T	uc003xgm.3	-	6	800	c.657G>A	c.(655-657)GCG>GCA	p.A219A		NM_001010906	NP_001010906	Q68CJ6	SLIP_HUMAN	speckled-like pattern in the germinal center	219						nucleus	GTP binding|GTPase activity			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.126)|Kidney(114;0.15)|Colorectal(74;0.181)		TTTTGGGCTTCGCCCTCAGTA	0.502													10	26					0	0	0.008291	0	0		T	27925085	T	T	27925085	2	4	12	1	0	0	0	0	0	0	0	1	2442	871	31	1		1	C8orf80	8	27925085	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2905	27925085	118438937	563	10038											
KIF13B	23303	broad.mit.edu	37	chr8	29025013	29025013	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcttggctcgatctgcataCcgcagagttgagagggtttc	7	12	13	9	2	1	2	0	1	1	2	3	4	1	2	1	2	3	6	1	2	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:29025013C>T	uc003xhh.3	-	11	1094	c.1035G>A	c.(1033-1035)CGG>CGA	p.R345R	KIF13B_uc003xhj.2_Silent_p.R242R|KIF13B_uc010lvf.1_Silent_p.R281R	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	345					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		GATCTGCATACCGCAGAGTTG	0.522													17	68					0	0	0.008871	0	0		T	29025013	T	T	29025013	2	4	12	1	0	0	0	0	0	0	0	1	8291	494	18	4		4	KIF13B	8	29025013	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1099928	29025013	117339009	564	10039											
NRG1	3084	broad.mit.edu	37	chr8	32472059	32472059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactggtatgccagcctcaaCtgaaggagcatatgtgtctt	10	11	10	10	0	2	1	1	1	1	0	2	2	2	2	2	2	4	2	2	2	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:32472059C>T	uc003xiv.2	+	4	945	c.428C>T	c.(427-429)ACT>ATT	p.T143I	NRG1_uc003xip.2_Intron|NRG1_uc003xir.2_Missense_Mutation_p.T143I|NRG1_uc010lvl.2_Missense_Mutation_p.T143I|NRG1_uc010lvm.2_Intron|NRG1_uc010lvn.2_Intron|NRG1_uc003xis.2_Missense_Mutation_p.T143I|NRG1_uc011lbf.1_Missense_Mutation_p.T143I|NRG1_uc010lvo.2_Missense_Mutation_p.T143I|NRG1_uc003xiu.2_Missense_Mutation_p.T143I|NRG1_uc003xiw.2_Missense_Mutation_p.T143I|NRG1_uc003xit.2_Missense_Mutation_p.T143I|NRG1_uc010lvr.2_5'UTR|NRG1_uc010lvs.2_Intron|NRG1_uc010lvp.2_Missense_Mutation_p.T109I|NRG1_uc010lvq.2_Intron|NRG1_uc003xix.2_Missense_Mutation_p.T33I	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	143	Extracellular (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		CCAGCCTCAACTGAAGGAGCA	0.438													15	61					0	0	0.006122	0	0		T	32472059	T	T	32472059	3	4	12	1	0	0	0	0	1	0	0	0	10666	565	20	4	1193	4	NRG1	8	32472059	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3447046	32472059	113891963	565	10040											
PROSC	11212	broad.mit.edu	37	chr8	37632909	37632909	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatcgtggagcacataaaCgccaagtgtcctaacctgga	12	7	10	12	2	0	0	0	0	0	0	2	2	1	2	4	2	3	1	4	2	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:37632909C>T	uc003xkh.2	+	6	584	c.507C>T	c.(505-507)AAC>AAT	p.N169N		NM_007198	NP_009129	O94903	PROSC_HUMAN	proline synthetase co-transcribed homolog	169							pyridoxal phosphate binding			central_nervous_system(1)	1		Lung NSC(58;0.174)	BRCA - Breast invasive adenocarcinoma(5;6.14e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)		L-Proline(DB00172)|Pyridoxal Phosphate(DB00114)	AGCACATAAACGCCAAGTGTC	0.483													50	198					0	0	0.00361	0	0		T	37632909	T	T	37632909	2	4	12	1	0	0	0	0	0	0	0	1	12581	535	19	1		1	PROSC	8	37632909	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	5160850	37632909	108731113	566	10041											
ADAM9	8754	broad.mit.edu	37	chr8	38912036	38912036	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctgcgaaggaagtaccTgtaagcttaaatcatttgct	11	13	9	8	1	1	0	1	0	0	0	1	2	1	1	1	1	5	5	1	1	6	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:38912036T>C	uc003xmr.2	+	13	1417	c.1339T>C	c.(1339-1341)TGT>CGT	p.C447R	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_RNA|ADAM9_uc010lwr.2_RNA|ADAM9_uc003xms.2_5'Flank	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	447	Extracellular (Potential).|Disintegrin.				activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			AGGAAGTACCTGTAAGCTTAA	0.343													23	38					0	0	0.00632	0	0		C	38912036	C	C	38912036	3	2	12	1	0	0	0	0	1	0	0	0	253	1580	55	3	1389	3	ADAM9	8	38912036	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1279127	38912036	107451986	567	10042											
IDO2	169355	broad.mit.edu	37	chr8	39872860	39872860	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccttccctgagggactacatCctgtcatctggacaggacca	9	9	9	14	0	2	1	1	1	1	0	4	4	4	4	4	3	1	0	4	3	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:39872860C>T	uc010lwy.1	+	11	1244	c.1002C>T	c.(1000-1002)ATC>ATT	p.I334I	IDO2_uc003xno.1_RNA|IDO2_uc010lwz.1_Silent_p.I75I|IDO2_uc003xnp.1_Silent_p.I75I	NM_194294	NP_919270	Q6ZQW0	I23O2_HUMAN	indoleamine-pyrrole 2,3 dioxygenase-like 1	321					tryptophan catabolic process to kynurenine	cytosol	heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			ovary(2)	2						GGGACTACATCCTGTCATCTG	0.507													12	48					0	0	0.001855	0	0		T	39872860	T	T	39872860	2	4	12	1	0	0	0	0	0	0	0	1	7518	845	30	4		4	IDO2	8	39872860	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	960824	39872860	106491162	568	10043											
MYST3	7994	broad.mit.edu	37	chr8	41798536	41798536	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgcacttcagagcctcagGgcttttcttgagctgtcctc	5	14	9	13	0	4	2	2	1	2	1	6	2	5	2	2	1	3	3	2	1	0	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:41798536G>T	uc010lxb.2	-	16	3407	c.2863C>A	c.(2863-2865)CCT>ACT	p.P955T	MYST3_uc010lxc.2_Missense_Mutation_p.P955T|MYST3_uc003xon.3_Missense_Mutation_p.P955T	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	955					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			AGAGCCTCAGGGCTTTTCTTG	0.587													23	118					8.58068e-18	9.85083e-18	0.007291	1	0		T	41798536	T	T	41798536	3	4	12	1	0	0	0	0	1	0	0	0	10122	1232	43	5	3163	5	MYST3	8	41798536	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1925676	41798536	104565486	569	10044											
POTEA	340441	broad.mit.edu	37	chr8	43173622	43173622	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaagaaatgcagaagcaTggaagtaataatgtgggatt	18	8	13	2	0	0	3	0	0	0	3	0	6	0	5	0	2	2	3	0	2	7	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:43173622T>C	uc003xpz.1	+	9	1087	c.1044T>C	c.(1042-1044)CAT>CAC	p.H348H	POTEA_uc003xqa.1_Silent_p.H302H	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	348										ovary(1)	1						TGCAGAAGCATGGAAGTAATA	0.358													18	87					0	0	0.00278	0	0		C	43173622	C	C	43173622	2	2	12	1	0	0	0	0	0	0	0	1	12280	1461	51	3		3	POTEA	8	43173622	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1375086	43173622	103190400	570	10045											
PRKDC	5591	broad.mit.edu	37	chr8	48809839	48809839	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaataaacacaatgatgcGgaaggtggaaatcctctgca	15	8	9	9	1	1	1	0	1	1	0	3	3	3	3	2	3	3	1	2	3	6	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:48809839G>A	uc003xqi.2	-	30	3537	c.3480C>T	c.(3478-3480)TCC>TCT	p.S1160S	PRKDC_uc003xqj.2_Silent_p.S1160S|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1160					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				ACAATGATGCGGAAGGTGGAA	0.428								NHEJ					45	190					0	0	0.00361	0	0		A	48809839	A	A	48809839	2	1	12	1	0	0	0	0	0	0	0	1	12543	1103	39	1		1	PRKDC	8	48809839	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5636217	48809839	97554183	571	10046											
MCM4	4173	broad.mit.edu	37	chr8	48888298	48888298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagtgccacctctcgtaaaCggaaagaagaattagctgaa	15	8	10	8	2	1	4	0	2	1	2	2	5	1	5	2	1	3	2	2	1	7	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:48888298C>T	uc003xqk.1	+	16	2484	c.2389C>T	c.(2389-2391)CGG>TGG	p.R797W	MCM4_uc003xql.1_Missense_Mutation_p.R797W|MCM4_uc011ldi.1_Missense_Mutation_p.R784W	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	797					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				CTCTCGTAAACGGAAAGAAGA	0.328													16	42					0	0	0.004007	0	0		T	48888298	T	T	48888298	3	4	12	1	0	0	0	0	1	0	0	0	9407	527	19	1	2447	1	MCM4	8	48888298	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	78459	48888298	97475724	572	10047											
ST18	9705	broad.mit.edu	37	chr8	53055565	53055565	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagaggcctctccaggaaacTttttttcctctaaattttct	9	17	5	10	0	3	1	0	0	3	1	5	2	4	2	3	2	1	0	3	2	4	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:53055565T>A	uc003xqz.2	-	12	2249	c.2093A>T	c.(2092-2094)AAG>ATG	p.K698M	ST18_uc011ldq.1_Missense_Mutation_p.K345M|ST18_uc011ldr.1_Missense_Mutation_p.K663M|ST18_uc011lds.1_Missense_Mutation_p.K603M|ST18_uc003xra.2_Missense_Mutation_p.K698M	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	698						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				TCCAGGAAACTTTTTTTCCTC	0.408													49	26					0	0	0.00361	0	0		A	53055565	A	A	53055565	3	1	12	1	0	0	0	0	1	0	0	0	15237	1609	56	5	1090	5	ST18	8	53055565	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	4167267	53055565	93308457	573	10048											
FAM110B	90362	broad.mit.edu	37	chr8	59059757	59059757	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactgtgaacagtctcaggAcagtaacagtgaccttagaa	15	8	10	8	0	1	4	1	2	1	2	2	5	1	5	1	1	2	1	1	1	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:59059757A>G	uc003xtj.1	+	5	1848	c.968A>G	c.(967-969)GAC>GGC	p.D323G		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	323						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				CAGTCTCAGGACAGTAACAGT	0.448													9	36					0	0	0.006214	0	0		G	59059757	G	G	59059757	3	3	12	1	0	0	0	0	1	0	0	0	5408	275	10	3	970	3	FAM110B	8	59059757	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	6004192	59059757	87304265	574	10049											
ARFGEF1	10565	broad.mit.edu	37	chr8	68189648	68189648	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatcctctatagttccaaTgttgccatctgcacttgcat	9	14	5	13	0	2	0	0	0	2	0	4	0	4	0	4	0	3	4	4	0	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:68189648T>C	uc003xxo.1	-	8	1462	c.1072A>G	c.(1072-1074)ATT>GTT	p.I358V		NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	358					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			ATAGTTCCAATGTTGCCATCT	0.358													8	56					0	0	0.004482	0	0		C	68189648	C	C	68189648	3	2	12	1	0	0	0	0	1	0	0	0	852	1464	51	3	4605	3	ARFGEF1	8	68189648	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	9129891	68189648	78174374	575	10050											
SLCO5A1	81796	broad.mit.edu	37	chr8	70744031	70744031	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggagttttctttcttgAcattgtcatctaagtaggtt	9	17	10	5	0	4	1	1	1	3	0	4	3	4	3	0	3	0	3	0	3	2	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:70744031A>G	uc003xyl.2	-	2	1585	c.878T>C	c.(877-879)GTC>GCC	p.V293A	SLCO5A1_uc010lzb.2_Missense_Mutation_p.V293A|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Missense_Mutation_p.V293A|SLCO5A1_uc010lzc.2_Missense_Mutation_p.V293A	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	293	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			TTCTTTCTTGACATTGTCATC	0.413													29	51					0	0	0.002096	0	0		G	70744031	G	G	70744031	3	3	12	1	0	0	0	0	1	0	0	0	14756	275	10	3	1704	3	SLCO5A1	8	70744031	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2554383	70744031	75619991	576	10051											
ZFHX4	79776	broad.mit.edu	37	chr8	77617605	77617605	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgtctccctcagccacTcatcgtctgagtctagcaag	7	11	7	16	1	6	1	2	1	4	0	8	1	6	1	3	0	2	1	3	0	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:77617605T>C	uc003yav.2	+	2	1669	c.1282T>C	c.(1282-1284)TCA>CCA	p.S428P	ZFHX4_uc003yat.1_Missense_Mutation_p.S428P|ZFHX4_uc003yau.1_Missense_Mutation_p.S428P|ZFHX4_uc003yaw.1_Missense_Mutation_p.S428P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	428						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCTCAGCCACTCATCGTCTGA	0.507										HNSCC(33;0.089)			10	62					0	0	0.000978	0	0		C	77617605	C	C	77617605	3	2	12	1	0	0	0	0	1	0	0	0	17660	1551	54	3	1284	3	ZFHX4	8	77617605	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	6873574	77617605	68746417	577	10052											
FAM164A	51101	broad.mit.edu	37	chr8	79590866	79590866	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttttgattcaagcagacaGagagctgaaggaactgatat	15	10	10	6	0	1	5	1	3	0	2	1	7	1	6	0	1	3	2	0	1	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:79590866G>T	uc003ybd.2	+	3	264	c.162G>T	c.(160-162)CAG>CAT	p.Q54H		NM_016010	NP_057094	Q96GY0	F164A_HUMAN	hypothetical protein LOC51101	54										ovary(1)	1						CAAGCAGACAGAGAGCTGAAG	0.363													6	170					0.000157383	0.000166276	0.00308	1	0		T	79590866	T	T	79590866	3	4	12	1	0	0	0	0	1	0	0	0	5489	933	33	5	172	5	FAM164A	8	79590866	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1973261	79590866	66773156	578	10053											
PAG1	55824	broad.mit.edu	37	chr8	81897170	81897170	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatactctctacattaacActttgacgacattttttgtt	11	17	5	8	1	1	1	0	1	1	0	2	3	1	2	0	1	3	1	0	1	3	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:81897170A>G	uc003ybz.2	-	7	1428	c.717T>C	c.(715-717)AGT>AGC	p.S239S		NM_018440	NP_060910	Q9NWQ8	PAG1_HUMAN	phosphoprotein associated with glycosphingolipid	239	Cytoplasmic (Potential).				epidermal growth factor receptor signaling pathway|intracellular signal transduction|T cell receptor signaling pathway	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding|SH3/SH2 adaptor activity				0	Lung NSC(7;5.76e-06)|all_lung(9;2e-05)		BRCA - Breast invasive adenocarcinoma(6;0.0567)|Epithelial(68;0.0634)|all cancers(69;0.197)			CTACATTAACACTTTGACGAC	0.483													16	78					0	0	0.010504	0	0		G	81897170	G	G	81897170	2	3	12	1	0	0	0	0	0	0	0	1	11407	156	6	3		3	PAG1	8	81897170	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2306304	81897170	64466852	579	10054											
ESRP1	54845	broad.mit.edu	37	chr8	95680236	95680236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaagtcattgtccgcatgCgggggctccctttcacggcc	6	10	11	14	3	3	0	3	0	0	0	5	0	5	0	3	3	1	2	3	3	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:95680236C>T	uc003ygq.3	+	10	1174	c.991C>T	c.(991-993)CGG>TGG	p.R331W	ESRP1_uc003ygr.3_Missense_Mutation_p.R331W|ESRP1_uc003ygs.3_Missense_Mutation_p.R331W|ESRP1_uc003ygt.3_Missense_Mutation_p.R331W|ESRP1_uc003ygu.3_Missense_Mutation_p.R331W|ESRP1_uc003ygv.2_Missense_Mutation_p.R171W|ESRP1_uc003ygw.2_Missense_Mutation_p.R171W	NM_017697	NP_060167	Q6NXG1	ESRP1_HUMAN	RNA binding motif protein 35A isoform 1	331	RRM 2.				mRNA processing|regulation of RNA splicing|RNA splicing	nucleus|plasma membrane	mRNA binding|nucleotide binding		ESRP1/RAF1(4)	prostate(4)	4						TGTCCGCATGCGGGGGCTCCC	0.488													12	51					0	0	0.004007	0	0		T	95680236	T	T	95680236	3	4	12	1	0	0	0	0	1	0	0	0	5266	759	27	1	1029	1	ESRP1	8	95680236	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	13783066	95680236	50683786	580	10055											
LAPTM4B	55353	broad.mit.edu	37	chr8	98827611	98827611	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcctgatatgtgctatggcTacttacggagcgtacaaggt	10	12	11	8	2	0	1	0	1	0	0	1	2	1	2	1	3	5	3	1	3	6	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:98827611T>C	uc003yia.2	+	3	696	c.540T>C	c.(538-540)GCT>GCC	p.A180A	LAPTM4B_uc010mbg.2_Intron	NM_018407	NP_060877	Q86VI4	LAP4B_HUMAN	lysosomal associated transmembrane protein 4	233	Helical; (Potential).				transport	endomembrane system|integral to membrane	protein binding			skin(1)	1	Breast(36;1.59e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.149)			GTGCTATGGCTACTTACGGAG	0.413													14	34					0	0	0.004007	0	0		C	98827611	C	C	98827611	2	2	12	1	0	0	0	0	0	0	0	1	8641	1509	53	3		3	LAPTM4B	8	98827611	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	3147375	98827611	47536411	581	10056											
MATN2	4147	broad.mit.edu	37	chr8	98943434	98943434	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatgcggcatctgtccacGggcaccatgactgggctggc	7	7	15	12	2	1	1	0	1	1	0	2	2	2	2	2	5	1	3	2	5	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:98943434G>A	uc003yic.2	+	3	627	c.396G>A	c.(394-396)ACG>ACA	p.T132T	MATN2_uc003yib.1_Silent_p.T132T|MATN2_uc010mbh.1_Silent_p.T132T|MATN2_uc003yid.2_Silent_p.T132T|MATN2_uc003yie.1_Silent_p.T132T|MATN2_uc010mbi.1_Silent_p.T6T	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	132	VWFA 1.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			ATCTGTCCACGGGCACCATGA	0.572													7	23					0	0	0.004482	0	0		A	98943434	A	A	98943434	2	1	12	1	0	0	0	0	0	0	0	1	9352	1103	39	1		1	MATN2	8	98943434	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	115823	98943434	47420588	582	10057											
VPS13B	157680	broad.mit.edu	37	chr8	100844800	100844800	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagtgctggagcctgccAgctatagttagaccagagtt	10	10	11	10	0	1	2	1	0	0	2	1	3	1	3	3	1	4	4	3	1	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:100844800A>G	uc003yiv.2	+	52	9720	c.9609A>G	c.(9607-9609)CCA>CCG	p.P3203P	VPS13B_uc003yiw.2_Silent_p.P3178P	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3203					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			GGAGCCTGCCAGCTATAGTTA	0.488													13	46					0	0	0.003163	0	0		G	100844800	G	G	100844800	2	3	12	1	0	0	0	0	0	0	0	1	17216	175	7	3		3	VPS13B	8	100844800	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1901366	100844800	45519222	583	10058											
SPAG1	6674	broad.mit.edu	37	chr8	101243518	101243518	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccatatatacaaacaggCaagttctttgtaactttata	14	14	6	7	0	1	0	0	0	1	0	1	0	1	0	1	1	4	3	1	1	8	9			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:101243518C>T	uc003yjh.1	+	15	2074	c.1988_splice	c.e15+2	p.R663_splice	SPAG1_uc003yji.1_Splice_Site_p.R663_splice	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1						single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		TACAAACAGGCAAGTTCTTTG	0.219													13	70					0	0	0.00245	0	0		T	101243518	T	T	101243518	5	4	12	1	0	0	0	0	0	0	1	0	15000	724	25	2	2044	2	SPAG1	8	101243518	Splice_Site	SNP	C	TCGA-BR-4257-01A-01D-1126-08	398718	101243518	45120504	584	10059											
UBR5	51366	broad.mit.edu	37	chr8	103297968	103297968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgatggtaccactccggcGtaagtttgaaggatcaatat	12	11	10	8	2	1	2	1	2	0	0	2	3	2	3	2	3	1	3	2	3	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:103297968G>A	uc003ykr.1	-	39	5290	c.5257C>T	c.(5257-5259)CGC>TGC	p.R1753C	UBR5_uc003yks.1_Missense_Mutation_p.R1753C	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1753					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			CCACTCCGGCGTAAGTTTGAA	0.453													12	48					0	0	0.00245	0	0		A	103297968	A	A	103297968	3	1	12	1	0	0	0	0	1	0	0	0	16931	1145	40	1	3226	1	UBR5	8	103297968	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2054450	103297968	43066054	585	10060											
NUDCD1	84955	broad.mit.edu	37	chr8	110255326	110255326	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctgaaatcctaaaataGgatcattggtttctaggctt	11	15	8	7	0	2	1	1	1	1	0	3	2	3	2	2	3	1	2	2	3	5	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:110255326G>T	uc003ynb.3	-	10	1775	c.1664C>A	c.(1663-1665)CCT>CAT	p.P555H	NUDCD1_uc003yna.2_Missense_Mutation_p.P526H|NUDCD1_uc010mcl.2_Missense_Mutation_p.P468H	NM_032869	NP_116258	Q96RS6	NUDC1_HUMAN	NudC domain containing 1 isoform 1	555										ovary(1)|breast(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;1.56e-12)			TCCTAAAATAGGATCATTGGT	0.368													70	138					6.04451e-25	6.9981e-25	0.00361	1	0		T	110255326	T	T	110255326	3	4	12	1	0	0	0	0	1	0	0	0	10741	1000	35	5	91	5	NUDCD1	8	110255326	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6957358	110255326	36108696	586	10061											
CSMD3	114788	broad.mit.edu	37	chr8	113326150	113326150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catacctatatatcttatccGgaagccttttttgttattgc	9	18	5	9	1	1	0	0	0	1	0	2	1	2	1	3	1	3	1	3	1	7	10			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:113326150G>A	uc003ynu.2	-	49	7840	c.7681C>T	c.(7681-7683)CGG>TGG	p.R2561W	CSMD3_uc003yns.2_Missense_Mutation_p.R1763W|CSMD3_uc003ynt.2_Missense_Mutation_p.R2521W|CSMD3_uc011lhx.1_Missense_Mutation_p.R2457W|CSMD3_uc003ynw.1_Missense_Mutation_p.R272W	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2561	CUB 14.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TATCTTATCCGGAAGCCTTTT	0.303										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	77					0	0	0.00245	0	0		A	113326150	A	A	113326150	3	1	12	1	0	0	0	0	1	0	0	0	3949	1115	39	1	3534	1	CSMD3	8	113326150	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3070824	113326150	33037872	587	10062											
CSMD3	114788	broad.mit.edu	37	chr8	113988066	113988066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaaaataacatccaatacCtctatgagtaacaactgcaa	19	9	4	9	0	1	1	0	1	1	0	2	1	2	1	2	0	5	3	2	0	9	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:113988066C>T	uc003ynu.2	-	7	1501	c.1342G>A	c.(1342-1344)GTG>ATG	p.V448M	CSMD3_uc003ynt.2_Missense_Mutation_p.V408M|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	448	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CATCCAATACCTCTATGAGTA	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			4	130					0	0	0.000602	0	0		T	113988066	T	T	113988066	3	4	12	1	0	0	0	0	1	0	0	0	3949	695	24	4	10041	4	CSMD3	8	113988066	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	661916	113988066	32375956	588	10063											
CSMD3	114788	broad.mit.edu	37	chr8	114448937	114448937	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacaccgtcaataaaaagacGaggttccaaaacgtaaatcc	18	6	7	10	3	1	1	1	0	0	1	3	3	3	1	3	1	1	2	3	1	8	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:114448937G>A	uc003ynu.2	-	1	306	c.147C>T	c.(145-147)CTC>CTT	p.L49L	CSMD3_uc011lhx.1_Silent_p.L49L|CSMD3_uc010mcx.1_Silent_p.L49L|CSMD3_uc003ynx.3_Silent_p.L49L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	49	Helical; (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ATAAAAAGACGAGGTTCCAAA	0.507										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			48	196					0	0	0.00361	0	0		A	114448937	A	A	114448937	2	1	12	1	0	0	0	0	0	0	0	1	3949	1045	37	1		1	CSMD3	8	114448937	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	460871	114448937	31915085	589	10064											
EXT1	2131	broad.mit.edu	37	chr8	118819559	118819559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccagaagtggctgcgcgCggggtaccccacaatcctct	8	7	11	15	3	1	1	0	0	1	1	3	1	3	1	4	3	2	2	4	3	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:118819559C>T	uc003yok.1	-	9	2553	c.1780G>A	c.(1780-1782)GCG>ACG	p.A594T		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	594	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			TGGCTGCGCGCGGGGTACCCC	0.522			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				13	45					0	0	0.001855	0	0		T	118819559	T	T	118819559	3	4	12	1	0	0	0	0	1	0	0	0	5331	768	27	1	472	1	EXT1	8	118819559	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4370622	118819559	27544463	590	10065											
ENPP2	5168	broad.mit.edu	37	chr8	120596014	120596014	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcactttagtcttgtactTaaatgttgagccataaccta	12	14	7	8	0	1	1	0	1	1	0	1	1	1	1	2	1	3	3	2	1	6	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:120596014T>C	uc003yot.1	-	17	1572	c.1486A>G	c.(1486-1488)AAG>GAG	p.K496E	ENPP2_uc011lic.1_Missense_Mutation_p.K13E|ENPP2_uc003yor.1_Missense_Mutation_p.K135E|ENPP2_uc003yos.1_Missense_Mutation_p.K548E|ENPP2_uc010mdd.1_Missense_Mutation_p.K496E	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	496					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GTCTTGTACTTAAATGTTGAG	0.318													9	59					0	0	0.008291	0	0		C	120596014	C	C	120596014	3	2	12	1	0	0	0	0	1	0	0	0	5138	1763	61	3	1220	3	ENPP2	8	120596014	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1776455	120596014	25768008	591	10066											
DSCC1	79075	broad.mit.edu	37	chr8	120854138	120854138	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcattctgaagtagcattcGtgctgctgctctacatattt	8	15	8	10	2	2	1	0	1	2	0	3	1	2	1	0	0	5	6	0	0	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:120854138G>A	uc003yov.2	-	7	955	c.820C>T	c.(820-822)CGA>TGA	p.R274*		NM_024094	NP_076999	Q9BVC3	DCC1_HUMAN	defective in sister chromatid cohesion 1	274					DNA replication|maintenance of mitotic sister chromatid cohesion|post-translational protein acetylation|regulation of DNA replication	chromatin|chromosome, centromeric region|nucleoplasm	DNA binding|protein binding			pancreas(1)	1	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			AGTAGCATTCGTGCTGCTGCT	0.368													12	25					0	0	0.00245	0	0		A	120854138	A	A	120854138	4	1	12	1	0	0	0	0	0	1	0	0	4776	1153	40	1	373	1	DSCC1	8	120854138	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	258124	120854138	25509884	592	10067											
COL14A1	7373	broad.mit.edu	37	chr8	121282285	121282285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtcttcagtatgtaaggcgGccaaggctgacctggtattt	8	12	13	8	1	2	1	1	1	1	0	2	1	2	1	2	5	0	4	2	5	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:121282285G>A	uc003yox.2	+	26	3350	c.3085G>A	c.(3085-3087)GCC>ACC	p.A1029T	COL14A1_uc003yoz.2_5'UTR	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	1029					cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			ATGTAAGGCGGCCAAGGCTGA	0.408													7	60					0	0	0.004482	0	0		A	121282285	A	A	121282285	3	1	12	1	0	0	0	0	1	0	0	0	3674	1203	42	2	3183	2	COL14A1	8	121282285	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	428147	121282285	25081737	593	10068											
ZHX1	11244	broad.mit.edu	37	chr8	124267220	124267220	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgatctgttcctctgtatAttttgcttgagcagaaagaa	10	16	8	7	0	2	4	0	2	2	2	3	4	3	4	1	0	2	4	1	0	4	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:124267220A>G	uc003yqe.2	-	3	1397	c.967T>C	c.(967-969)TAT>CAT	p.Y323H	C8orf76_uc003yqd.2_Intron|ZHX1_uc003yqf.2_Missense_Mutation_p.Y323H|ZHX1_uc003yqg.2_Intron|ZHX1_uc010mdi.2_Missense_Mutation_p.Y323H	NM_007222	NP_009153	Q9UKY1	ZHX1_HUMAN	zinc fingers and homeoboxes 1	323	Required for dimerization.|Homeobox 1.|Required for interaction with NFYA.				negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			TCCTCTGTATATTTTGCTTGA	0.398													62	223					0	0	0.00361	0	0		G	124267220	G	G	124267220	3	3	12	1	0	0	0	0	1	0	0	0	17700	449	16	3	1658	3	ZHX1	8	124267220	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2984935	124267220	22096802	594	10069											
ATAD2	29028	broad.mit.edu	37	chr8	124383982	124383982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaatcctacaacttcgaCgcacttcaacatcaccatta	13	12	2	14	2	3	0	2	0	1	0	5	1	4	0	2	0	3	1	2	0	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:124383982C>T	uc003yqh.3	-	4	572	c.464G>A	c.(463-465)CGT>CAT	p.R155H	ATAD2_uc011lii.1_5'UTR|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.R155H	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			ACAACTTCGACGCACTTCAAC	0.373													12	42					0	0	0.001368	0	0		T	124383982	T	T	124383982	3	4	12	1	0	0	0	0	1	0	0	0	1072	536	19	1	3808	1	ATAD2	8	124383982	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	116762	124383982	21980040	595	10070											
NDUFB9	4715	broad.mit.edu	37	chr8	125559294	125559294	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgagaaggcaatgtatccTgattactttgccaagagaga	13	11	10	7	0	1	4	0	2	1	3	2	6	2	4	2	1	2	2	2	1	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:125559294T>G	uc003yrg.3	+	3	433	c.348T>G	c.(346-348)CCT>CCG	p.P116P	NDUFB9_uc011lim.1_Silent_p.P116P	NM_005005	NP_004996	Q9Y6M9	NDUB9_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	116					mitochondrial electron transport, NADH to ubiquinone|sensory perception of sound|transport	mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			ovary(1)|skin(1)	2	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)		NADH(DB00157)	CAATGTATCCTGATTACTTTG	0.463													50	185					0	0	0.00361	0	0		G	125559294	G	G	125559294	2	3	12	1	0	0	0	0	0	0	0	1	10307	1567	55	5		5	NDUFB9	8	125559294	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1175312	125559294	20804728	596	10071											
KIAA0196	9897	broad.mit.edu	37	chr8	126062902	126062902	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccagcaactgctttggAtccacctaagtgccaatcaa	11	11	6	13	0	2	0	1	0	1	0	4	1	4	1	4	1	4	2	4	1	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:126062902A>G	uc003yrt.2	-	18	2432	c.2103T>C	c.(2101-2103)GAT>GAC	p.D701D	KIAA0196_uc011lir.1_Silent_p.D553D|KIAA0196_uc003yru.1_Silent_p.D275D	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	701					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			ACTGCTTTGGATCCACCTAAG	0.453													4	38					0	0	0.009096	0	0		G	126062902	G	G	126062902	2	3	12	1	0	0	0	0	0	0	0	1	8177	330	12	3		3	KIAA0196	8	126062902	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	503608	126062902	20301120	597	10072											
FAM49B	51571	broad.mit.edu	37	chr8	130863080	130863080	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagatcagctgatactcaCggtgtttccagcatgactct	12	11	8	10	1	3	3	2	2	1	1	4	3	4	3	1	1	3	3	1	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:130863080C>T	uc003yss.2	-	12	1262	c.713_splice	c.e12+1	p.P238_splice	FAM49B_uc003yst.2_Splice_Site_p.P238_splice|FAM49B_uc003ysu.2_Splice_Site_p.P238_splice|FAM49B_uc003ysv.2_Splice_Site_p.P92_splice|FAM49B_uc003ysw.2_Splice_Site_p.P238_splice|FAM49B_uc003ysx.2_Splice_Site_p.P238_splice|FAM49B_uc003ysy.1_Splice_Site_p.P238_splice	NM_016623	NP_057707	Q9NUQ9	FA49B_HUMAN	hypothetical protein LOC51571												0	Ovarian(5;0.000567)|Esophageal squamous(12;0.00693)|Acute lymphoblastic leukemia(118;0.155)		LUAD - Lung adenocarcinoma(14;0.0989)			CTGATACTCACGGTGTTTCCA	0.328													13	40					0	0	0.004007	0	0		T	130863080	T	T	130863080	5	4	12	1	0	0	0	0	0	0	1	0	5590	550	19	1	276	1	FAM49B	8	130863080	Splice_Site	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4800178	130863080	15500942	598	10073											
KCNQ3	3786	broad.mit.edu	37	chr8	133141659	133141659	+	Frame_Shift_Del	DEL	C	-	-																															ttctccctcatccagctcgaCcccccattggggccgaacac																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:133141659delC	uc003ytj.2	-	15	2694	c.2469delG	c.(2467-2469)GGGfs	p.G823fs	KCNQ3_uc010mdt.2_Frame_Shift_Del_p.G811fs|uc003yti.2_5'Flank	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	823					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			TCCAGCTCGACCCCCCATTGG	0.612													17	30	---	---	---	---						.	-	133141659	-	-	133141659	7	5	12	1	0	1	0	1	0	0	0	0	8100	494	18	0	153	0	KCNQ3	8	133141659	Frame_Shift_Del	DEL	C	TCGA-BR-4257-01A-01D-1126-08	2278579	133141659	13222363	599	10074											
TG	7038	broad.mit.edu	37	chr8	133913747	133913747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggtgtgtcatggacagcGgagaagaggtgcctgggacg	8	7	19	7	2	1	2	1	0	0	2	1	5	1	4	1	5	2	1	1	5	1	0	rs138469414	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:133913747G>A	uc003ytw.2	+	16	3624	c.3583G>A	c.(3583-3585)GGA>AGA	p.G1195R	TG_uc010mdw.2_Intron	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1195	Thyroglobulin type-1 10.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CATGGACAGCGGAGAAGAGGT	0.647													6	12					0	0	0.00308	0	0		A	133913747	A	A	133913747	3	1	12	1	0	0	0	0	1	0	0	0	15838	1117	39	1	3645	1	TG	8	133913747	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	772088	133913747	12450275	600	10075											
ST3GAL1	6482	broad.mit.edu	37	chr8	134488056	134488056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctctcatcgaaccaggccGagagcttgcgctgcccgatg	8	7	11	15	4	1	1	1	0	1	1	3	4	1	1	4	1	4	2	4	1	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:134488056G>A	uc003yuk.2	-	5	1041	c.212C>T	c.(211-213)TCG>TTG	p.S71L	ST3GAL1_uc003yum.2_Missense_Mutation_p.S71L	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	71	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			GAACCAGGCCGAGAGCTTGCG	0.607													7	32					0	0	0.004482	0	0		A	134488056	A	A	134488056	3	1	12	1	0	0	0	0	1	0	0	0	15239	1059	37	1	834	1	ST3GAL1	8	134488056	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	574309	134488056	11875966	601	10076											
ZFAT	57623	broad.mit.edu	37	chr8	135614560	135614560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcagcctgatggagctgaCgaacttcttgcggcagacgg	8	7	15	11	4	1	3	0	2	1	1	1	5	1	4	1	3	4	3	1	3	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:135614560C>T	uc003yup.2	-	6	1577	c.1402G>A	c.(1402-1404)GTC>ATC	p.V468I	ZFAT_uc003yun.2_Missense_Mutation_p.V456I|ZFAT_uc003yuo.2_Missense_Mutation_p.V456I|ZFAT_uc010meh.2_Missense_Mutation_p.V456I|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.V456I|ZFAT_uc010mej.2_Missense_Mutation_p.V406I|ZFAT_uc003yur.2_Missense_Mutation_p.V456I	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	468	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			ATGGAGCTGACGAACTTCTTG	0.602													6	25					0	0	0.006214	0	0		T	135614560	T	T	135614560	3	4	12	1	0	0	0	0	1	0	0	0	17657	536	19	1	2373	1	ZFAT	8	135614560	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1126504	135614560	10749462	602	10077											
KCNK9	51305	broad.mit.edu	37	chr8	140715158	140715158	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtccgactcgagggcgtcGaacacggcggcgcccaccag	7	4	15	15	7	0	0	0	0	0	0	3	3	1	0	3	4	1	0	3	4	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:140715158G>A	uc003yvf.1	-	1	142	c.78C>T	c.(76-78)TTC>TTT	p.F26F	KCNK9_uc003yvg.1_Silent_p.F26F	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	26	Helical; (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			CGAGGGCGTCGAACACGGCGG	0.627													10	13					0	0	0.000978	0	0		A	140715158	A	A	140715158	2	1	12	1	0	0	0	0	0	0	0	1	8088	1049	37	1		1	KCNK9	8	140715158	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5100598	140715158	5648864	603	10078											
PTP4A3	11156	broad.mit.edu	37	chr8	142441050	142441050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgccgcggagccatcaacaGcaagcagctcacctacctgg	10	4	11	16	3	2	0	2	0	0	0	2	1	2	1	4	2	6	3	4	2	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:142441050G>A	uc003ywg.1	+	5	762	c.428G>A	c.(427-429)AGC>AAC	p.S143N	PTP4A3_uc003ywh.1_Missense_Mutation_p.S118N|PTP4A3_uc010met.1_Missense_Mutation_p.A57T	NM_032611	NP_116000	O75365	TP4A3_HUMAN	protein tyrosine phosphatase type IVA, member 3	143	Tyrosine-protein phosphatase.					early endosome|plasma membrane	identical protein binding|prenylated protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0	all_cancers(97;2.55e-15)|all_epithelial(106;1.39e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0474)			GCCATCAACAGCAAGCAGCTC	0.592													11	32					0	0	0.000978	0	0		A	142441050	A	A	142441050	3	1	12	1	0	0	0	0	1	0	0	0	12795	971	34	2	446	2	PTP4A3	8	142441050	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1725892	142441050	3922972	604	10079											
ZC3H3	23144	broad.mit.edu	37	chr8	144547949	144547949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcggccttgcgggacaCgtacacgtggctatagggac	8	7	14	12	4	0	0	0	0	0	0	1	3	0	2	2	4	2	2	2	4	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:144547949C>T	uc003yyd.2	-	9	2274	c.2245G>A	c.(2245-2247)GTG>ATG	p.V749M		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	749	C3H1-type 3.				mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			TTGCGGGACACGTACACGTGG	0.637													4	41					0	0	0.001168	0	0		T	144547949	T	T	144547949	3	4	12	1	0	0	0	0	1	0	0	0	17594	536	19	1	617	1	ZC3H3	8	144547949	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2106899	144547949	1816073	605	10080											
ZNF707	286075	broad.mit.edu	37	chr8	144776046	144776046	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcccgtgtcaggtgctcacGcagcgttgtgggcggcggcc	3	9	16	13	5	2	0	2	0	0	0	3	0	3	0	2	4	2	3	2	4	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:144776046G>A	uc003yze.3	+	7	777	c.462G>A	c.(460-462)ACG>ACA	p.T154T	ZNF707_uc010mfh.2_Silent_p.T154T|ZNF707_uc010mfi.2_Silent_p.T154T|ZNF707_uc003yzf.3_Silent_p.T154T|ZNF707_uc003yzh.3_Silent_p.T81T|ZNF707_uc011lkq.1_RNA	NM_173831	NP_776192	Q96C28	ZN707_HUMAN	zinc finger protein 707	154					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)	1	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;5.6e-41)|Epithelial(56;1.02e-39)|all cancers(56;9.65e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			AGGTGCTCACGCAGCGTTGTG	0.672													7	13					0	0	0.004482	0	0		A	144776046	A	A	144776046	2	1	12	1	0	0	0	0	0	0	0	1	18136	1074	38	1		1	ZNF707	8	144776046	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	228097	144776046	1587976	606	10081											
SPATC1	375686	broad.mit.edu	37	chr8	145101719	145101719	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctggcggcgtctgagggCggcccctacaccgtggactt	5	7	16	13	4	1	1	0	1	1	0	1	3	1	2	3	5	2	1	3	5	1	2	rs149191984	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:145101719C>T	uc011lkw.1	+	5	1740	c.1638C>T	c.(1636-1638)GGC>GGT	p.G546G	SPATC1_uc011lkx.1_3'UTR	NM_198572	NP_940974	Q76KD6	SPERI_HUMAN	spermatogenesis and centriole associated 1	546										ovary(1)|central_nervous_system(1)	2	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;3.67e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CGTCTGAGGGCGGCCCCTACA	0.697													6	27					0	0	0.006214	0	0		T	145101719	T	T	145101719	2	4	12	1	0	0	0	0	0	0	0	1	15042	755	27	1		1	SPATC1	8	145101719	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	325673	145101719	1262303	607	10082											
FBXL6	26233	broad.mit.edu	37	chr8	145580725	145580725	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagagcgtcagcagtcacAccgtggcagccggagagctt	10	5	13	13	3	2	2	2	0	0	2	2	3	2	2	3	2	4	3	3	2	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:145580725A>G	uc003zcb.2	-	4	721	c.696T>C	c.(694-696)GGT>GGC	p.G232G	C8ORFK29_uc011llb.1_5'Flank|C8ORFK29_uc010mfw.2_5'Flank|C8ORFK29_uc003zby.3_5'Flank|FBXL6_uc003zbz.2_5'UTR|FBXL6_uc003zca.2_Silent_p.G226G|FBXL6_uc010mfx.2_5'UTR|GPR172A_uc003zcc.1_5'Flank|GPR172A_uc003zcd.1_5'Flank|GPR172A_uc003zce.1_5'Flank|GPR172A_uc010mfy.1_5'Flank|GPR172A_uc003zcf.1_5'Flank|GPR172A_uc011llc.1_5'Flank	NM_012162	NP_036294	Q8N531	FBXL6_HUMAN	F-box and leucine-rich repeat protein 6 isoform	232	LRR 3.				proteolysis		ubiquitin-protein ligase activity			ovary(1)|lung(1)	2	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			CAGCAGTCACACCGTGGCAGC	0.637													4	16					0	0	0.001984	0	0		G	145580725	G	G	145580725	2	3	12	1	0	0	0	0	0	0	0	1	5737	146	6	3		3	FBXL6	8	145580725	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	479006	145580725	783297	608	10083											
GPR172A	79581	broad.mit.edu	37	chr8	145583729	145583729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttccttgagcgttttcccGccagcaccttcttctgggca	5	13	8	15	2	2	1	0	1	2	0	4	1	4	1	4	1	2	3	4	1	0	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:145583729G>A	uc003zcc.1	+	3	734	c.577G>A	c.(577-579)GCC>ACC	p.A193T	FBXL6_uc003zbz.2_5'Flank|FBXL6_uc003zca.2_5'Flank|FBXL6_uc003zcb.2_5'Flank|FBXL6_uc010mfx.2_5'Flank|GPR172A_uc003zcd.1_Missense_Mutation_p.A193T|GPR172A_uc003zce.1_Missense_Mutation_p.A193T|GPR172A_uc010mfy.1_Missense_Mutation_p.A193T|GPR172A_uc003zcf.1_Missense_Mutation_p.A193T|GPR172A_uc011llc.1_Missense_Mutation_p.A105T	NM_024531	NP_078807	Q9HAB3	RFT3_HUMAN	G protein-coupled receptor 172A precursor	193						integral to plasma membrane	receptor activity|riboflavin transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			GCGTTTTCCCGCCAGCACCTT	0.662													10	38					0	0	0.001855	0	0		A	145583729	A	A	145583729	3	1	12	1	0	0	0	0	1	0	0	0	6684	1087	38	1	583	1	GPR172A	8	145583729	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3004	145583729	780293	609	10084											
SLC39A4	55630	broad.mit.edu	37	chr8	145638280	145638280	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcggaggccaggttcagcaGcagtgcttggcgcacggaca	8	5	16	12	4	1	0	1	0	0	0	1	2	1	2	1	5	3	5	1	5	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:145638280G>A	uc003zcq.2	-	11	1778	c.1678C>T	c.(1678-1680)CTG>TTG	p.L560L	SLC39A4_uc003zcm.1_Silent_p.L62L|SLC39A4_uc003zcn.2_Silent_p.L62L|SLC39A4_uc003zco.2_Silent_p.L284L|SLC39A4_uc003zcp.2_Silent_p.L535L	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	560	Helical; Name=4; (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|recycling endosome membrane	zinc ion transmembrane transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			AGGTTCAGCAGCAGTGCTTGG	0.677													5	10					0	0	0.001984	0	0		A	145638280	A	A	145638280	2	1	12	1	0	0	0	0	0	0	0	1	14645	962	34	2		2	SLC39A4	8	145638280	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	54551	145638280	725742	610	10085											
RECQL4	9401	broad.mit.edu	37	chr8	145741187	145741187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcccagtgatcgaactgctCgttcaggaaacaagactcct	11	9	9	12	2	1	2	1	1	0	1	4	4	2	3	2	1	4	2	2	1	3	1	rs117670586	by1000genomes	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr8:145741187C>T	uc003zdj.2	-	6	1251	c.1219G>A	c.(1219-1221)GAG>AAG	p.E407K	LRRC14_uc003zdk.1_5'Flank|LRRC14_uc003zdl.1_5'Flank	NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	407					DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			TCGAACTGCTCGTTCAGGAAA	0.617			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				10	19					0	0	0.001855	0	0		T	145741187	T	T	145741187	3	4	12	1	0	0	0	0	1	0	0	0	13227	893	31	1	2472	1	RECQL4	8	145741187	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	102907	145741187	622835	611	10086											
DMRT3	58524	broad.mit.edu	37	chr9	990546	990546	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaacacaccttgagctcCtaccccatctcgtcttccaa	9	12	4	16	1	2	2	0	2	2	0	5	2	4	2	5	0	3	1	5	0	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:990546C>A	uc003zgw.1	+	2	998	c.960C>A	c.(958-960)TCC>TCA	p.S320S		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	320					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		CCTTGAGCTCCTACCCCATCT	0.557													19	31					6.49762e-13	7.34818e-13	0.006122	1	0		A	990546	A	A	990546	2	1	12	1	0	0	0	0	0	0	0	1	4593	668	24	5		5	DMRT3	9	990546	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08		990546	140222885	612	10087											
KCNV2	169522	broad.mit.edu	37	chr9	2718833	2718833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccaccaacgcggccagaCggtgggcagcgtgggtaagg	8	3	19	11	4	0	1	0	0	0	1	0	1	0	1	3	6	2	2	3	6	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:2718833C>T	uc003zho.1	+	1	1308	c.1094C>T	c.(1093-1095)ACG>ATG	p.T365M		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	365	Extracellular (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		CGCGGCCAGACGGTGGGCAGC	0.672													6	12					0	0	0.006214	0	0		T	2718833	T	T	2718833	3	4	12	1	0	0	0	0	1	0	0	0	8111	536	19	1	1096	1	KCNV2	9	2718833	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1728287	2718833	138494598	613	10088											
JAK2	3717	broad.mit.edu	37	chr9	5066768	5066768	+	Frame_Shift_Del	DEL	T	-	-																															cctaaggactttaataaataTtttttgacttttgctgtcga																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:5066768delT	uc010mhm.2	+	9	1418	c.1305delT	c.(1303-1305)TATfs	p.Y435fs	JAK2_uc003ziw.2_Frame_Shift_Del_p.Y435fs	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	435	SH2; atypical.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		TTAATAAATATTTTTTGACTT	0.323		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				8	17	---	---	---	---						.	-	5066768	-	-	5066768	7	5	12	1	0	1	0	1	0	0	0	0	7954	1500	52	0	1335	0	JAK2	9	5066768	Frame_Shift_Del	DEL	T	TCGA-BR-4257-01A-01D-1126-08	2347935	5066768	136146663	614	10089											
UHRF2	115426	broad.mit.edu	37	chr9	6475403	6475403	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaacaggggttctgaaggAacattaaatgactgcaagat	16	10	10	5	0	1	3	0	2	1	1	1	4	1	4	0	3	3	2	0	3	7	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:6475403A>T	uc003zjy.2	+	5	1216	c.876A>T	c.(874-876)GGA>GGT	p.G292G	UHRF2_uc003zjz.2_RNA|UHRF2_uc003zka.1_Silent_p.G69G	NM_152896	NP_690856	Q96PU4	UHRF2_HUMAN	ubiquitin-like with PHD and ring finger domains	292					cell cycle|cell differentiation|cell proliferation|protein autoubiquitination|regulation of cell cycle|ubiquitin-dependent protein catabolic process	nucleus	DNA binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0392)|Lung(218;0.129)		GTTCTGAAGGAACATTAAATG	0.348													22	97					0	0	0.00333	0	0		T	6475403	T	T	6475403	2	4	12	1	0	0	0	0	0	0	0	1	16996	233	9	5		5	UHRF2	9	6475403	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1408635	6475403	134738028	615	10090											
KDM4C	23081	broad.mit.edu	37	chr9	7015920	7015920	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggtgcaaaagaaatgcGtggacagcagtaagtagctt	13	7	13	8	2	0	1	0	0	0	1	0	2	0	2	1	2	4	5	1	2	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:7015920G>A	uc003zkh.2	+	15	2830	c.2250G>A	c.(2248-2250)GCG>GCA	p.A750A	KDM4C_uc010mhu.2_Silent_p.A772A|KDM4C_uc011lmi.1_Silent_p.A750A|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Silent_p.A750A|KDM4C_uc011lmk.1_Silent_p.A495A|KDM4C_uc011lml.1_Silent_p.A437A	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	750					positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						AAAGAAATGCGTGGACAGCAG	0.408													6	38					0	0	0.00308	0	0		A	7015920	A	A	7015920	2	1	12	1	0	0	0	0	0	0	0	1	8146	1132	40	1		1	KDM4C	9	7015920	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	540517	7015920	134197511	616	10091											
TYRP1	7306	broad.mit.edu	37	chr9	12694013	12694013	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaatgagtgctcctaaacTcctctctctgggctgtatct	8	13	8	12	0	3	2	0	1	3	1	6	2	5	2	2	1	2	3	2	1	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:12694013T>A	uc003zkv.3	+	2	195	c.17T>A	c.(16-18)CTC>CAC	p.L6H		NM_000550	NP_000541	P17643	TYRP1_HUMAN	tyrosinase-related protein 1 precursor	6					melanin biosynthetic process	clathrin-coated endocytic vesicle membrane|endosome membrane|integral to membrane|melanosome membrane	copper ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, another compound as one donor, and incorporation of one atom of oxygen|protein heterodimerization activity|protein homodimerization activity			lung(1)	1		all_cancers(3;3.1e-05)|all_lung(3;1.7e-06)|Lung NSC(3;2.09e-06)|all_epithelial(3;0.000695)|all_hematologic(3;0.0033)|Acute lymphoblastic leukemia(23;0.0744)		GBM - Glioblastoma multiforme(50;9.85e-06)		GCTCCTAAACTCCTCTCTCTG	0.473									Oculocutaneous_Albinism				15	53					0	0	0.003163	0	0		A	12694013	A	A	12694013	3	1	12	1	0	0	0	0	1	0	0	0	16842	1551	54	5	19	5	TYRP1	9	12694013	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	5678093	12694013	128519418	617	10092											
PSIP1	11168	broad.mit.edu	37	chr9	15474206	15474206	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgtttttcctcttgccccTttttcttacttttgtcctct	1	24	4	12	0	3	0	0	0	3	0	5	0	5	0	4	0	2	2	4	0	1	9			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:15474206T>C	uc003zlv.3	-	9	989	c.659A>G	c.(658-660)AAG>AGG	p.K220R	PSIP1_uc003zlw.3_Missense_Mutation_p.K220R|PSIP1_uc003zlz.3_Missense_Mutation_p.K220R|PSIP1_uc003zma.3_Missense_Mutation_p.K211R|PSIP1_uc003zly.2_Missense_Mutation_p.K220R	NM_033222	NP_150091	O75475	PSIP1_HUMAN	PC4 and SFRS1 interacting protein 1 isoform 2	220					initiation of viral infection|interspecies interaction between organisms|nuclear mRNA 5'-splice site recognition|provirus integration|regulation of transcription, DNA-dependent|response to heat|response to oxidative stress|transcription, DNA-dependent	cytosol|nuclear heterochromatin|nuclear periphery|nucleoplasm|nucleoplasm|transcriptionally active chromatin	activating transcription factor binding|chromatin binding|DNA secondary structure binding|RNA polymerase II transcription coactivator activity			breast(1)	1				GBM - Glioblastoma multiforme(50;2.38e-06)		CTCTTGCCCCTTTTTCTTACT	0.358													26	74					0	0	0.00632	0	0		C	15474206	C	C	15474206	3	2	12	1	0	0	0	0	1	0	0	0	12685	1609	56	3	994	3	PSIP1	9	15474206	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	2780193	15474206	125739225	618	10093											
IFNA10	3446	broad.mit.edu	37	chr9	21206750	21206750	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatgcttccaggtcattcAgttgctggtaaagttcagtg	9	13	10	9	0	3	0	3	0	0	0	4	0	4	0	1	2	2	5	1	2	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:21206750A>G	uc003zoq.1	-	1	393	c.347T>C	c.(346-348)CTG>CCG	p.L116P	IFNA14_uc003zoo.1_Intron	NM_002171	NP_002162	P01566	IFN10_HUMAN	interferon, alpha 10 precursor	116					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.17)		CAGGTCATTCAGTTGCTGGTA	0.478													14	34					0	0	0.003954	0	0		G	21206750	G	G	21206750	3	3	12	1	0	0	0	0	1	0	0	0	7548	188	7	3	226	3	IFNA10	9	21206750	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	5732544	21206750	120006681	619	10094											
OR13J1	392309	broad.mit.edu	37	chr9	35869831	35869831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgctgaccgacgtgttgcCgcatgccagcttcagcactg	6	10	11	14	4	1	1	1	1	0	0	2	2	1	1	3	0	4	5	3	0	0	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:35869831C>T	uc011lph.1	-	1	568	c.568G>A	c.(568-570)GGC>AGC	p.G190S		NM_001004487	NP_001004487	Q8NGT2	O13J1_HUMAN	olfactory receptor, family 13, subfamily J,	190	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_epithelial(49;0.169)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00494)|STAD - Stomach adenocarcinoma(86;0.194)			GACGTGTTGCCGCATGCCAGC	0.597													9	23					0	0	0.001855	0	0		T	35869831	T	T	35869831	3	4	12	1	0	0	0	0	1	0	0	0	10963	652	23	1	373	1	OR13J1	9	35869831	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	14663081	35869831	105343600	620	10095											
TJP2	9414	broad.mit.edu	37	chr9	71827497	71827497	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagagctgatatgggaacagTacactgtgaccctacaaaag	16	7	10	8	0	0	3	0	2	0	1	0	4	0	4	1	1	4	2	1	1	7	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:71827497T>C	uc004ahe.2	+	2	294	c.94T>C	c.(94-96)TAC>CAC	p.Y32H	TJP2_uc011lrs.1_Missense_Mutation_p.Y9H|TJP2_uc004ahb.1_Missense_Mutation_p.Y9H|TJP2_uc011lrt.1_Missense_Mutation_p.Y9H|TJP2_uc004ahd.2_Missense_Mutation_p.Y32H|TJP2_uc004ahf.2_Missense_Mutation_p.Y32H|TJP2_uc011lru.1_Missense_Mutation_p.Y36H|TJP2_uc011lrv.1_Missense_Mutation_p.Y54H	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)	32					cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						ATGGGAACAGTACACTGTGAC	0.358													5	35					0	0	0.000602	0	0		C	71827497	C	C	71827497	3	2	12	1	0	0	0	0	1	0	0	0	15955	1638	57	3	257	3	TJP2	9	71827497	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	35957666	71827497	69385934	621	10096											
SMC5	23137	broad.mit.edu	37	chr9	72965075	72965075	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattagagtcaaatttcgaAgtagtactcaactgcatgaa	16	11	8	6	1	2	2	2	1	0	1	3	4	2	2	0	0	3	3	0	0	8	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:72965075A>G	uc004ahr.2	+	23	3052	c.2935A>G	c.(2935-2937)AGT>GGT	p.S979G	SMC5_uc011lry.1_Missense_Mutation_p.S124G	NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein	979					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						CAAATTTCGAAGTAGTACTCA	0.328													5	24					0	0	0.001168	0	0		G	72965075	G	G	72965075	3	3	12	1	0	0	0	0	1	0	0	0	14811	72	3	3	3025	3	SMC5	9	72965075	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1137578	72965075	68248356	622	10097											
FLJ46321	389763	broad.mit.edu	37	chr9	84607323	84607323	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctctgtggttcaaaaatcCcaggaagacttttgtcctcc	9	12	7	13	0	2	1	1	0	1	1	5	2	5	2	4	2	0	1	4	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:84607323C>T	uc004amn.2	+	4	1985	c.1938C>T	c.(1936-1938)TCC>TCT	p.S646S		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	646						integral to membrane					0						TTCAAAAATCCCAGGAAGACT	0.468													9	28					0	0	0.000978	0	0		T	84607323	T	T	84607323	2	4	12	1	0	0	0	0	0	0	0	1	5946	610	22	4		4	FLJ46321	9	84607323	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	11642248	84607323	56606108	623	10098											
ZCCHC6	79670	broad.mit.edu	37	chr9	88940282	88940282	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctttttgggccaatcctTcaattcccgagataccaatt	9	13	7	12	2	1	1	1	0	0	1	3	2	3	1	4	1	1	1	4	1	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:88940282T>C	uc004aoq.2	-	12	1971	c.1756A>G	c.(1756-1758)AAG>GAG	p.K586E	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.K463E|ZCCHC6_uc004aou.2_Missense_Mutation_p.K586E	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	586	PAP-associated 1.				RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						GGCCAATCCTTCAATTCCCGA	0.403													4	58					0	0	0.009096	0	0		C	88940282	C	C	88940282	3	2	12	1	0	0	0	0	1	0	0	0	17617	1792	62	3	2795	3	ZCCHC6	9	88940282	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	4332959	88940282	52273149	624	10099											
FAM75C1	441452	broad.mit.edu	37	chr9	90535641	90535641	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctccacgtgaggatttggcGgcttctgtcccagccatctc	5	12	10	14	2	3	1	0	1	3	0	6	2	4	2	3	3	1	1	3	3	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:90535641G>A	uc010mqi.2	+	4	848	c.819G>A	c.(817-819)GCG>GCA	p.A273A	FAM75C1_uc004apq.3_Silent_p.A256A	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						AGGATTTGGCGGCTTCTGTCC	0.557													22	86					0	0	0.007291	0	0		A	90535641	A	A	90535641	2	1	12	1	0	0	0	0	0	0	0	1	5637	1103	39	1		1	FAM75C1	9	90535641	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1595359	90535641	50677790	625	10100											
SPTLC1	10558	broad.mit.edu	37	chr9	94809515	94809515	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagctaacaggggaggtaaCgaagctgaaaagcagtatcc	15	5	13	8	1	0	1	0	1	0	0	1	3	1	2	1	3	5	6	1	3	6	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:94809515C>T	uc004arl.1	-	11	1058	c.1020G>A	c.(1018-1020)TCG>TCA	p.S340S	SPTLC1_uc011ltv.1_Silent_p.S340S	NM_006415	NP_006406	O15269	SPTC1_HUMAN	serine palmitoyltransferase subunit 1 isoform a	340	Cytoplasmic (Potential).					integral to membrane|SPOTS complex	protein binding|pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups			ovary(1)|breast(1)	2					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	GGGGAGGTAACGAAGCTGAAA	0.433													12	33					0	0	0.003163	0	0		T	94809515	T	T	94809515	2	4	12	1	0	0	0	0	0	0	0	1	15148	523	19	1		1	SPTLC1	9	94809515	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4273874	94809515	46403916	626	10101											
GABBR2	9568	broad.mit.edu	37	chr9	101340346	101340346	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggctttcaacccttttgcGttgtcgcactgggaagcaac	9	11	10	11	2	1	0	1	0	0	0	2	1	1	1	1	2	4	4	1	2	4	4	rs139594158	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:101340346G>A	uc004ays.2	-	2	486	c.330C>T	c.(328-330)AAC>AAT	p.N110N		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	110	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	ACCCTTTTGCGTTGTCGCACT	0.463													16	29					0	0	0.006122	0	0		A	101340346	A	A	101340346	2	1	12	1	0	0	0	0	0	0	0	1	6170	1136	40	1		1	GABBR2	9	101340346	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6530831	101340346	39873085	627	10102											
SVEP1	79987	broad.mit.edu	37	chr9	113261516	113261516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaaaggtggaacagtggcGctctacggtagggaaacaga	13	6	15	7	2	1	2	0	1	1	1	1	4	1	4	0	5	3	2	0	5	5	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:113261516G>A	uc010mtz.2	-	7	1823	c.1486C>T	c.(1486-1488)CGC>TGC	p.R496C	SVEP1_uc010mua.1_Missense_Mutation_p.R496C|SVEP1_uc004beu.2_Missense_Mutation_p.R496C	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	496	Sushi 3.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GAACAGTGGCGCTCTACGGTA	0.433													6	19					0	0	0.00308	0	0		A	113261516	A	A	113261516	3	1	12	1	0	0	0	0	1	0	0	0	15445	1087	38	1	9397	1	SVEP1	9	113261516	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	11921170	113261516	27951915	628	10103											
DNAJC25-GNG10	552891	broad.mit.edu	37	chr9	114429191	114429191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctggaagtaaccccttcCgggagcctagatcctgtgct	8	9	11	13	1	0	1	0	0	0	1	2	3	2	3	5	2	4	3	5	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:114429191C>T	uc004bfn.2	+	2	455	c.433C>T	c.(433-435)CGG>TGG	p.R145W	GNG10_uc011lws.1_RNA|GNG10_uc004bfp.2_Missense_Mutation_p.R60W	NM_004125	NP_004116	Q9H1X3	DJC25_HUMAN	DNAJC25-GNG10 protein	Error:Variant_position_missing_in_Q9H1X3_after_alignment					protein folding	integral to membrane	heat shock protein binding|unfolded protein binding				0						TAACCCCTTCCGGGAGCCTAG	0.517													8	17					0	0	0.004482	0	0		T	114429191	T	T	114429191	3	4	12	1	0	0	0	0	1	0	0	0	4650	643	23	1	439	1	DNAJC25-GNG10	9	114429191	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1167675	114429191	26784240	629	10104											
WDR31	114987	broad.mit.edu	37	chr9	116082681	116082681	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagccattgctgcaggagaTacacttgtgtccatccacac	12	9	8	12	0	0	1	0	0	0	1	2	2	2	1	3	1	4	2	3	1	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:116082681T>C	uc004bhe.2	-	9	988	c.736A>G	c.(736-738)ATC>GTC	p.I246V	WDR31_uc004bhc.2_Missense_Mutation_p.I245V|WDR31_uc004bhd.2_Missense_Mutation_p.I121V|WDR31_uc004bhf.2_RNA	NM_001012361	NP_001012361	Q8NA23	WDR31_HUMAN	WD repeat domain 31 isoform 1	246											0						CTGCAGGAGATACACTTGTGT	0.507													14	42					0	0	0.003163	0	0		C	116082681	C	C	116082681	3	2	12	1	0	0	0	0	1	0	0	0	17312	1406	49	3	379	3	WDR31	9	116082681	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1653490	116082681	25130750	630	10105											
COL27A1	85301	broad.mit.edu	37	chr9	117008145	117008145	+	Splice_Site	DEL	G	-	-																															ctcctctttgtctctttgcaGggggaaccaggggatcctgg																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:117008145delG	uc011lxl.1	+	24	2935	c.2935_splice	c.e24-1	p.G979_splice	COL27A1_uc004bii.2_Splice_Site	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor						cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						TCTCTTTGCAGGGGGAACCAG	0.517													11	25	---	---	---	---						.	-	117008145	-	-	117008145	8	5	12	1	0	1	0	1	0	0	1	0	3688	1014	35	0	3028	0	COL27A1	9	117008145	Splice_Site	DEL	G	TCGA-BR-4257-01A-01D-1126-08	925464	117008145	24205286	631	10106											
DAB2IP	153090	broad.mit.edu	37	chr9	124532969	124532969	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcatctcagctgggCtgcagaagatggtgattgag	10	8	15	8	0	1	4	1	2	1	2	2	4	1	4	0	2	4	6	0	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:124532969C>T	uc004bln.2	+	11	2029	c.1960C>T	c.(1960-1962)CTG>TTG	p.L654L	DAB2IP_uc004blo.2_Silent_p.L558L|DAB2IP_uc004blp.2_Silent_p.L109L	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	682					activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						CTCAGCTGGGCTGCAGAAGAT	0.607													7	19					0	0	0.001984	0	0		T	124532969	T	T	124532969	2	4	12	1	0	0	0	0	0	0	0	1	4222	796	28	2		2	DAB2IP	9	124532969	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	7524824	124532969	16680462	632	10107											
OR1L3	26735	broad.mit.edu	37	chr9	125437936	125437936	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatcaaatgttatccatcaTtttttttgtgatgtcaaccc	11	17	4	9	0	3	1	3	1	0	0	4	1	4	1	2	0	1	1	2	0	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:125437936T>C	uc011lzb.1	+	1	528	c.528T>C	c.(526-528)CAT>CAC	p.H176H		NM_001005234	NP_001005234	Q8NH93	OR1L3_HUMAN	olfactory receptor, family 1, subfamily L,	176	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TTATCCATCATTTTTTTTGTG	0.463													24	69					0	0	0.003954	0	0		C	125437936	C	C	125437936	2	2	12	1	0	0	0	0	0	0	0	1	10983	1490	52	3		3	OR1L3	9	125437936	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	904967	125437936	15775495	633	10108											
PDCL	5082	broad.mit.edu	37	chr9	125582383	125582383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaatctatttccaggtcgCtatcctcactgtgacacgtg	8	14	7	12	2	3	1	2	1	1	0	6	1	5	1	2	1	0	1	2	1	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:125582383C>T	uc004bmz.1	-	4	983	c.887G>A	c.(886-888)AGC>AAC	p.S296N	uc004bmy.2_5'Flank|PDCL_uc004bna.2_3'UTR	NM_005388	NP_005379	Q13371	PHLP_HUMAN	phosducin-like	296					signal transduction|visual perception						0						TTCCAGGTCGCTATCCTCACT	0.418													12	41					0	0	0.001855	0	0		T	125582383	T	T	125582383	3	4	12	1	0	0	0	0	1	0	0	0	11645	797	28	2	22	2	PDCL	9	125582383	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	144447	125582383	15631048	634	10109											
RABGAP1	23637	broad.mit.edu	37	chr9	125760928	125760928	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggtaataacagaagtacaGgagcctgttcgatttctcct	11	13	9	8	1	1	1	0	0	1	1	3	3	1	2	2	2	3	3	2	2	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:125760928G>T	uc011lzh.1	+	10	1391	c.1257G>T	c.(1255-1257)CAG>CAT	p.Q419H	RABGAP1_uc004bnl.3_RNA	NM_012197	NP_036329	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	419					cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5						CAGAAGTACAGGAGCCTGTTC	0.393													31	54					1.45844e-13	1.66035e-13	0.002836	1	0		T	125760928	T	T	125760928	3	4	12	1	0	0	0	0	1	0	0	0	12989	991	35	5	1291	5	RABGAP1	9	125760928	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	178545	125760928	15452503	635	10110											
FAM129B	64855	broad.mit.edu	37	chr9	130294048	130294048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaactccgtcaggatcttcCcggttttttctggaagagaa	9	12	11	9	2	3	1	1	0	2	1	5	5	5	4	2	4	1	1	2	4	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:130294048C>T	uc004brh.2	-	2	267	c.65G>A	c.(64-66)GGG>GAG	p.G22E	FAM129B_uc004bri.2_Missense_Mutation_p.G9E|FAM129B_uc004brj.3_Missense_Mutation_p.G22E	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	22							protein binding				0						CAGGATCTTCCCGGTTTTTTC	0.532													4	22					0	0	0.009096	0	0		T	130294048	T	T	130294048	3	4	12	1	0	0	0	0	1	0	0	0	5448	623	22	4	2227	4	FAM129B	9	130294048	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4533120	130294048	10919383	636	10111											
ABL1	25	broad.mit.edu	37	chr9	133730285	133730285	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccaagcaactacatcacGccagtcaacagtctggagaa	14	6	8	13	1	3	1	2	0	1	1	4	2	4	1	2	1	4	1	2	1	5	1	rs141072111		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:133730285G>A	uc004bzw.2	+	3	354	c.351G>A	c.(349-351)ACG>ACA	p.T117T	ABL1_uc004bzv.2_Silent_p.T136T	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	117	SH3.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	ACTACATCACGCCAGTCAACA	0.537			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								8	32					0	0	0.000978	0	0		A	133730285	A	A	133730285	2	1	12	1	0	0	0	0	0	0	0	1	92	1074	38	1		1	ABL1	9	133730285	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3436237	133730285	7483146	637	10112											
DDX31	64794	broad.mit.edu	37	chr9	135537951	135537951	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagaaaacattttttgtgcGttccccttaaaagtcctctg	10	14	8	9	1	1	1	0	0	1	1	3	2	3	1	3	1	2	1	3	1	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:135537951G>A	uc004cbq.1	-	2	674	c.522C>T	c.(520-522)AAC>AAT	p.N174N	DDX31_uc010mzu.1_Silent_p.N174N|DDX31_uc004cbr.1_Silent_p.N174N|DDX31_uc004cbs.1_Silent_p.N174N	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	174						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		TTTTTTGTGCGTTCCCCTTAA	0.433													15	36					0	0	0.007413	0	0		A	135537951	A	A	135537951	2	1	12	1	0	0	0	0	0	0	0	1	4359	1136	40	1		1	DDX31	9	135537951	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1807666	135537951	5675480	638	10113											
REXO4	57109	broad.mit.edu	37	chr9	136279942	136279942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggtactggcgccctcctgtCcatcttggaacctgaaggaa	9	9	11	12	1	1	1	0	1	1	0	3	3	3	3	4	4	2	1	4	4	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:136279942C>T	uc004cdm.2	-	2	615	c.415G>A	c.(415-417)GAC>AAC	p.D139N	ADAMTS13_uc004cdp.3_Intron|REXO4_uc011mde.1_Missense_Mutation_p.D2N|REXO4_uc011mdf.1_Missense_Mutation_p.D2N|REXO4_uc004cdn.2_Intron|REXO4_uc004cdo.2_Nonsense_Mutation_p.W79*	NM_020385	NP_065118	Q9GZR2	REXO4_HUMAN	XPMC2 prevents mitotic catastrophe 2 homolog	139						nucleolus	exonuclease activity|nucleic acid binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.58e-08)|Epithelial(140;9.55e-07)|all cancers(34;1.05e-05)		GCCCTCCTGTCCATCTTGGAA	0.527													8	32					0	0	0.004482	0	0		T	136279942	T	T	136279942	3	4	12	1	0	0	0	0	1	0	0	0	13268	855	30	4	881	4	REXO4	9	136279942	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	741991	136279942	4933489	639	10114											
ADAMTS13	11093	broad.mit.edu	37	chr9	136310835	136310835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagctggatgccacctctGcaggggagaaggctccctcc	8	6	12	15	0	1	1	0	0	1	1	3	3	3	2	4	4	3	3	4	4	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:136310835G>A	uc004cdv.3	+	21	3070	c.2626G>A	c.(2626-2628)GCA>ACA	p.A876T	ADAMTS13_uc004cdp.3_Missense_Mutation_p.A103T|ADAMTS13_uc004cdt.1_Missense_Mutation_p.A876T|ADAMTS13_uc004cdu.1_Missense_Mutation_p.A845T|ADAMTS13_uc004cdw.3_Missense_Mutation_p.A876T|ADAMTS13_uc004cdx.3_Missense_Mutation_p.A845T|ADAMTS13_uc004cdy.1_RNA|ADAMTS13_uc004cdz.3_Missense_Mutation_p.A546T|ADAMTS13_uc004cds.1_Missense_Mutation_p.A401T|ADAMTS13_uc004cdr.1_RNA	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	876					cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		TGCCACCTCTGCAGGGGAGAA	0.657													8	11					0	0	0.008291	0	0		A	136310835	A	A	136310835	3	1	12	1	0	0	0	0	1	0	0	0	258	1319	46	2	2708	2	ADAMTS13	9	136310835	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	30893	136310835	4902596	640	10115											
TMEM8C	389827	broad.mit.edu	37	chr9	136384042	136384042	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgccgatggggcccgagTacaccccgtagccccatcgg	6	6	13	16	4	0	0	0	0	0	0	1	2	0	0	6	3	3	2	6	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:136384042T>C	uc011mdk.1	-	3	353	c.353A>G	c.(352-354)TAC>TGC	p.Y118C		NM_001080483	NP_001073952	A6NI61	TMM8C_HUMAN	transmembrane protein 8C	118	Helical; (Potential).					integral to membrane					0						GGGGCCCGAGTACACCCCGTA	0.617													12	36					0	0	0.001855	0	0		C	136384042	C	C	136384042	3	2	12	1	0	0	0	0	1	0	0	0	16241	1638	57	3	324	3	TMEM8C	9	136384042	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	73207	136384042	4829389	641	10116											
AGPAT2	10555	broad.mit.edu	37	chr9	139571494	139571494	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccggttgatgaagaagacGcccccgaggtacatgatgag	11	7	14	9	3	0	6	0	4	0	2	0	7	0	6	3	2	2	2	3	2	3	2	rs149658120		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:139571494G>A	uc004cii.1	-	3	513	c.411C>T	c.(409-411)GGC>GGT	p.G137G	AGPAT2_uc004cij.1_Silent_p.G137G	NM_006412	NP_006403	O15120	PLCB_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 2	137	Helical; (Potential).				phosphatidic acid biosynthetic process|positive regulation of cytokine production|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0	all_cancers(76;0.0893)|all_epithelial(76;0.231)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.87e-06)|Epithelial(140;0.000123)		TGAAGAAGACGCCCCCGAGGT	0.652													16	39					0	0	0.00278	0	0		A	139571494	A	A	139571494	2	1	12	1	0	0	0	0	0	0	0	1	387	1074	38	1		1	AGPAT2	9	139571494	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3187452	139571494	1641937	642	10117											
C9orf86	55684	broad.mit.edu	37	chr9	139734212	139734212	+	Frame_Shift_Del	DEL	C	-	-																															atgagggccctgccgagccgCccccaccccccaagctccct																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:139734212delC	uc004cji.1	+	13	2093	c.1825delC	c.(1825-1827)CCCfs	p.P609fs	C9orf86_uc004cjj.1_Frame_Shift_Del_p.P610fs|C9orf86_uc004cjk.1_RNA|C9orf86_uc010nbr.1_Intron|C9orf86_uc004cjl.1_RNA|C9orf86_uc010nbs.1_Frame_Shift_Del_p.P494fs|C9orf86_uc004cjn.1_Frame_Shift_Del_p.P403fs	NM_024718	NP_078994	Q3YEC7	PARF_HUMAN	Rab-like GTP-binding protein 1 isoform 1	609					small GTPase mediated signal transduction	cytoplasm|nucleus	GTP binding|protein binding				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.61e-05)|Epithelial(140;0.000183)		TGCCGAGCCGCCCCCACCCCC	0.642													10	22	---	---	---	---						.	-	139734212	-	-	139734212	7	5	12	1	0	1	0	1	0	0	0	0	2505	739	26	0	2122	0	C9orf86	9	139734212	Frame_Shift_Del	DEL	C	TCGA-BR-4257-01A-01D-1126-08	162718	139734212	1479219	643	10118											
TMEM203	94107	broad.mit.edu	37	chr9	140099729	140099729	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaggcacgaacacgttccaCcaggagaggcccgggaccag	13	2	13	13	3	0	1	0	0	0	1	1	4	1	2	4	4	1	2	4	4	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:140099729C>A	uc004clv.2	-	1	362	c.138G>T	c.(136-138)TGG>TGT	p.W46C	NDOR1_uc004clx.2_5'Flank|NDOR1_uc004clw.2_5'Flank|NDOR1_uc011mes.1_5'Flank|NDOR1_uc004cly.2_5'Flank	NM_053045	NP_444273	Q969S6	TM203_HUMAN	transmembrane protein 203	46						integral to membrane					0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		ACACGTTCCACCAGGAGAGGC	0.627													5	7					0.000602214	0.000631354	0.000602	1	0		A	140099729	A	A	140099729	3	1	12	1	0	0	0	0	1	0	0	0	16153	508	18	5	276	5	TMEM203	9	140099729	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	365517	140099729	1113702	644	10119											
CACNA1B	774	broad.mit.edu	37	chr9	140852062	140852062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaagcagtgctgaagagagCggccaccaagaagagcagaa	17	3	13	8	1	0	5	0	1	0	4	0	6	0	5	2	1	4	3	2	1	6	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr9:140852062C>T	uc004cog.2	+	10	1401	c.1256C>T	c.(1255-1257)GCG>GTG	p.A419V	CACNA1B_uc011mfd.1_5'UTR	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	419	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	CTGAAGAGAGCGGCCACCAAG	0.592													4	11					0	0	0.000602	0	0		T	140852062	T	T	140852062	3	4	12	1	0	0	0	0	1	0	0	0	2542	768	27	1	1294	1	CACNA1B	9	140852062	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	752333	140852062	361369	645	10120											
PITRM1	10531	broad.mit.edu	37	chr10	3180476	3180476	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgacagcaaagagctgctCtctgtgggcctgcttcatct	7	11	11	12	0	3	2	1	1	2	1	4	2	3	2	1	1	4	5	1	1	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:3180476C>A	uc010qah.1	-	23	2709	c.2677G>T	c.(2677-2679)GAG>TAG	p.E893*	PITRM1_uc001igr.1_3'UTR|PITRM1_uc001igs.1_Nonsense_Mutation_p.E96*|PITRM1_uc001igt.1_Nonsense_Mutation_p.E991*|PITRM1_uc009xhv.1_Nonsense_Mutation_p.E557*|PITRM1_uc001igu.1_Nonsense_Mutation_p.E917*|PITRM1_uc010qai.1_Nonsense_Mutation_p.E962*			E7ES23	E7ES23_HUMAN	SubName: Full=cDNA FLJ54065, moderately similar to Mus musculus pitrilysin metallepetidase 1 (Pitrm1), mRNA;	893					proteolysis		metalloendopeptidase activity|zinc ion binding			pancreas(1)	1						AAGAGCTGCTCTCTGTGGGCC	0.617													6	13					2.0095e-06	2.17178e-06	0.001984	1	0		A	3180476	A	A	3180476	4	1	12	1	0	0	0	0	0	1	0	0	11972	922	32	5	150	5	PITRM1	10	3180476	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08		3180476	132354271	646	10121											
AKR1E2	83592	broad.mit.edu	37	chr10	4889684	4889684	+	Frame_Shift_Del	DEL	A	-	-																															tttttctgtttttcagaactAaaaatcacaaagactatcct																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:4889684delA	uc001ihi.2	+	10	1040	c.925delA	c.(925-927)AAAfs	p.K309fs	AKR1E2_uc001ihl.1_Intron|AKR1E2_uc009xhw.2_Frame_Shift_Del_p.K211fs|AKR1E2_uc001ihj.2_RNA|AKR1E2_uc001ihk.2_Frame_Shift_Del_p.K252fs	NM_001040177	NP_001035267	Q96JD6	AKCL2_HUMAN	aldo-keto reductase family 1, member E2	309						cytoplasm	1,5-anhydro-D-fructose reductase activity				0						TTTCAGAACTAAAAATCACAA	0.343													22	49	---	---	---	---						.	-	4889684	-	-	4889684	7	5	12	1	0	1	0	1	0	0	0	0	474	363	13	0	963	0	AKR1E2	10	4889684	Frame_Shift_Del	DEL	A	TCGA-BR-4257-01A-01D-1126-08	1709208	4889684	130645063	647	10122											
NET1	10276	broad.mit.edu	37	chr10	5498109	5498109	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcggcccgtcacacggaaCgaacggcactcttaccaggt	10	6	10	15	5	2	0	1	0	1	0	3	2	2	1	2	4	3	1	2	4	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:5498109C>T	uc001iia.2	+	11	1395	c.1257C>T	c.(1255-1257)AAC>AAT	p.N419N	NET1_uc010qar.1_Silent_p.N238N|NET1_uc001iib.2_Silent_p.N365N|NET1_uc010qas.1_Silent_p.N238N	NM_001047160	NP_001040625	Q7Z628	ARHG8_HUMAN	neuroepithelial cell transforming gene 1 isoform	419	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1						TCACACGGAACGAACGGCACT	0.483													7	29					0	0	0.00308	0	0		T	5498109	T	T	5498109	2	4	12	1	0	0	0	0	0	0	0	1	10357	535	19	1		1	NET1	10	5498109	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	608425	5498109	130036638	648	10123											
TAF3	83860	broad.mit.edu	37	chr10	8006409	8006409	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaagaaaagaaatcaccTggacgttccaagagccccaa	17	5	7	12	1	1	3	1	0	0	3	3	4	3	4	5	1	1	1	5	1	6	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:8006409T>C	uc010qbd.1	+	3	936	c.936T>C	c.(934-936)CCT>CCC	p.P312P		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	312					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						AGAAATCACCTGGACGTTcca	0.403													17	38					0	0	0.001882	0	0		C	8006409	C	C	8006409	2	2	12	1	0	0	0	0	0	0	0	1	15550	1567	55	3		3	TAF3	10	8006409	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	2508300	8006409	127528338	649	10124											
FAM171A1	221061	broad.mit.edu	37	chr10	15290697	15290697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcctcaggctgctctgcGtggccaggggcacagtgaca	6	8	15	12	1	2	1	1	1	1	0	2	1	2	1	2	4	3	3	2	4	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:15290697G>A	uc001iob.2	-	5	702	c.695C>T	c.(694-696)ACG>ATG	p.T232M		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	232	Extracellular (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						GCTGCTCTGCGTGGCCAGGGG	0.602													7	26					0	0	0.00308	0	0		A	15290697	A	A	15290697	3	1	12	1	0	0	0	0	1	0	0	0	5501	1145	40	1	1993	1	FAM171A1	10	15290697	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	7284288	15290697	120244050	650	10125											
CUBN	8029	broad.mit.edu	37	chr10	16932369	16932369	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggttcttagggctacttaCggctaacaaaggacgcggag	10	10	13	8	3	1	0	0	0	1	0	1	2	1	2	0	5	3	3	0	5	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:16932369C>T	uc001ioo.2	-	55	8807	c.8755_splice	c.e55+1	p.R2919_splice	CUBN_uc009xjq.1_Splice_Site|CUBN_uc009xjr.1_Splice_Site_p.R275_splice	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor						cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GGGCTACTTACGGCTAACAAA	0.572													6	25					0	0	0.004482	0	0		T	16932369	T	T	16932369	5	4	12	1	0	0	0	0	0	0	1	0	4054	550	19	1	2167	1	CUBN	10	16932369	Splice_Site	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1641672	16932369	118602378	651	10126											
STAM	8027	broad.mit.edu	37	chr10	17747022	17747022	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagctggaagatattgatAggtaaaagaacatgggtgca	18	8	12	3	0	0	3	0	1	0	2	0	4	0	4	0	3	3	3	0	3	8	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:17747022A>G	uc001ipj.1	+	11	1270	c.1054A>G	c.(1054-1056)AGA>GGA	p.R352G	STAM_uc009xjw.1_Intron	NM_003473	NP_003464	Q92783	STAM1_HUMAN	signal transducing adaptor molecule 1	352					cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	SH3/SH2 adaptor activity			large_intestine(1)|ovary(1)	2						AGATATTGATAGGTAAAAGAA	0.338													11	30					0	0	0.001855	0	0		G	17747022	G	G	17747022	3	3	12	1	0	0	0	0	1	0	0	0	15273	434	15	3	1096	3	STAM	10	17747022	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	814653	17747022	117787725	652	10127											
KIAA1462	57608	broad.mit.edu	37	chr10	30336525	30336525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcctctcggtgtgctgcGgcggctttcggagtcactca	3	11	15	12	4	3	0	2	0	1	0	5	1	3	1	1	5	2	2	1	5	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:30336525G>A	uc001iux.2	-	1	276	c.217C>T	c.(217-219)CGC>TGC	p.R73C	KIAA1462_uc001iuy.2_Missense_Mutation_p.R73C|KIAA1462_uc001iuz.2_5'UTR|KIAA1462_uc009xle.1_Missense_Mutation_p.R73C	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	73										ovary(4)	4						GGTGTGCTGCGGCGGCTTTCG	0.622													4	10					0	0	0.001984	0	0		A	30336525	A	A	30336525	3	1	12	1	0	0	0	0	1	0	0	0	8250	1116	39	1	3874	1	KIAA1462	10	30336525	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	12589503	30336525	105198222	653	10128											
MAP3K8	1326	broad.mit.edu	37	chr10	30748255	30748255	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggatgagagagctgatagaAgcttccctggagagaaaccc	13	6	14	8	0	0	5	0	2	0	3	1	9	1	7	2	2	3	2	2	2	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:30748255A>G	uc001ivi.1	+	8	1794	c.1098A>G	c.(1096-1098)GAA>GAG	p.E366E	MAP3K8_uc009xlf.1_Silent_p.E366E|MAP3K8_uc001ivj.1_Silent_p.E366E	NM_005204	NP_005195	P41279	M3K8_HUMAN	mitogen-activated protein kinase kinase kinase	366	Protein kinase.				cell cycle|T cell costimulation	cytosol	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			breast(3)|central_nervous_system(1)	4		Prostate(175;0.151)				AGCTGATAGAAGCTTCCCTGG	0.532													14	33					0	0	0.00245	0	0		G	30748255	G	G	30748255	2	3	12	1	0	0	0	0	0	0	0	1	9274	69	3	3		3	MAP3K8	10	30748255	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	411730	30748255	104786492	654	10129											
ARHGAP12	94134	broad.mit.edu	37	chr10	32097965	32097965	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgattaaatgtaaaaagAggttctggtaattctcgaaa	18	12	8	3	1	2	2	0	1	2	1	3	3	2	2	0	2	0	3	0	2	8	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:32097965A>G	uc001ivz.1	-	18	2490	c.2220T>C	c.(2218-2220)CCT>CCC	p.P740P	ARHGAP12_uc001ivy.1_Silent_p.P686P|ARHGAP12_uc009xls.2_Silent_p.P691P|ARHGAP12_uc001iwb.1_Silent_p.P733P|ARHGAP12_uc001iwc.1_Silent_p.P708P|ARHGAP12_uc009xlq.1_Silent_p.P661P|ARHGAP12_uc001ivw.1_5'Flank|ARHGAP12_uc001ivx.1_Silent_p.P39P	NM_018287	NP_060757	Q8IWW6	RHG12_HUMAN	Rho GTPase activating protein 12	740	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0		Prostate(175;0.0199)				ATGTAAAAAGAGGTTCTGGTA	0.289													8	19					0	0	0.00308	0	0		G	32097965	G	G	32097965	2	3	12	1	0	0	0	0	0	0	0	1	865	291	11	3		3	ARHGAP12	10	32097965	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1349710	32097965	103436782	655	10130											
PARD3	56288	broad.mit.edu	37	chr10	34558704	34558704	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagccatggaaccttcataAgaagaaactcccccatacat	16	7	6	12	0	1	3	1	0	0	3	2	4	2	4	4	1	4	0	4	1	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:34558704A>G	uc010qej.1	-	22	3309	c.3309T>C	c.(3307-3309)TCT>TCC	p.S1103S	PARD3_uc010qek.1_Silent_p.S1100S|PARD3_uc010qel.1_Silent_p.S1066S|PARD3_uc010qem.1_Silent_p.S1087S|PARD3_uc010qen.1_Silent_p.S1057S|PARD3_uc010qeo.1_Silent_p.S1020S|PARD3_uc010qep.1_Silent_p.S1013S|PARD3_uc010qeq.1_Silent_p.S991S	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	1103					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				AACCTTCATAAGAAGAAACTC	0.468													11	20					0	0	0.001368	0	0		G	34558704	G	G	34558704	2	3	12	1	0	0	0	0	0	0	0	1	11462	59	3	3		3	PARD3	10	34558704	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2460739	34558704	100976043	656	10131											
RASGEF1A	221002	broad.mit.edu	37	chr10	43696165	43696165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagggggtcgcagcacaCgcccaggatgtccttctggg	7	6	14	14	2	1	0	0	0	1	0	3	1	2	1	3	4	1	2	3	4	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:43696165C>T	uc001jap.1	-	5	712	c.631G>A	c.(631-633)GTG>ATG	p.V211M	RASGEF1A_uc001jao.1_Missense_Mutation_p.V219M	NM_145313	NP_660356	Q8N9B8	RGF1A_HUMAN	RasGEF domain family, member 1A	211					cell migration|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						TCGCAGCACACGCCCAGGATG	0.652													4	3					0	0	0.001168	0	0		T	43696165	T	T	43696165	3	4	12	1	0	0	0	0	1	0	0	0	13094	536	19	1	850	1	RASGEF1A	10	43696165	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	9137461	43696165	91838582	657	10132											
RASSF4	83937	broad.mit.edu	37	chr10	45488730	45488730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccaggttccaagccctgCgtctgacgatgctgcagcgc	6	8	11	16	3	1	1	0	1	1	0	3	2	3	1	4	1	5	3	4	1	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:45488730C>T	uc001jbo.2	+	11	1053	c.919C>T	c.(919-921)CGT>TGT	p.R307C	RASSF4_uc001jbp.2_Missense_Mutation_p.R338C|RASSF4_uc009xmn.2_Missense_Mutation_p.R237C|RASSF4_uc001jbq.2_Missense_Mutation_p.R204C|RASSF4_uc001jbt.2_Missense_Mutation_p.R264C	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	307	SARAH.				cell cycle|signal transduction		protein binding			large_intestine(1)	1						CCAAGCCCTGCGTCTGACGAT	0.622													5	9					0	0	0.001984	0	0		T	45488730	T	T	45488730	3	4	12	1	0	0	0	0	1	0	0	0	13113	768	27	1	957	1	RASSF4	10	45488730	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1792565	45488730	90046017	658	10133											
FAM21C	253725	broad.mit.edu	37	chr10	46248126	46248126	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcctgttcagtggcggcaAggggctatttgatgatgagg	7	11	17	6	1	1	3	1	3	0	0	1	3	1	3	1	6	0	3	1	6	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:46248126A>G	uc001jcu.2	+	12	1193	c.1094A>G	c.(1093-1095)AAG>AGG	p.K365R	FAM21C_uc001jcs.1_Missense_Mutation_p.K310R|FAM21C_uc001jct.2_Missense_Mutation_p.K365R|FAM21C_uc010qfi.1_Missense_Mutation_p.K341R|FAM21C_uc010qfj.1_5'Flank	NM_015262	NP_056077	A8K5W5	A8K5W5_HUMAN	hypothetical protein LOC253725	365										ovary(1)	1						AGTGGCGGCAAGGGGCTATTT	0.552													28	63					0	0	0.009535	0	0		G	46248126	G	G	46248126	3	3	12	1	0	0	0	0	1	0	0	0	5553	72	3	3	1140	3	FAM21C	10	46248126	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	759396	46248126	89286621	659	10134											
ANK3	288	broad.mit.edu	37	chr10	61868760	61868760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattctcatcccgtgatgacGgcttcctctcatggagcccc	6	11	9	15	2	2	2	2	2	2	0	6	4	4	3	4	2	1	1	4	2	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:61868760G>A	uc001jky.2	-	27	3193	c.3001C>T	c.(3001-3003)CGT>TGT	p.R1001C	ANK3_uc001jkw.2_Missense_Mutation_p.R135C|ANK3_uc009xpa.2_Missense_Mutation_p.R135C|ANK3_uc001jkx.2_Missense_Mutation_p.R179C|ANK3_uc010qih.1_Missense_Mutation_p.R1002C|ANK3_uc001jkz.3_Missense_Mutation_p.R995C|ANK3_uc001jla.1_Missense_Mutation_p.R67C|ANK3_uc001jlb.1_Missense_Mutation_p.R519C	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1001	ZU5.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CCGTGATGACGGCTTCCTCTC	0.527													7	20					0	0	0.001984	0	0		A	61868760	A	A	61868760	3	1	12	1	0	0	0	0	1	0	0	0	622	1116	39	1	10513	1	ANK3	10	61868760	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	15620634	61868760	73665987	660	10135											
TET1	80312	broad.mit.edu	37	chr10	70450958	70450958	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccactggtgtgactgagcCgctaacgcctcatcagccaa	9	9	9	14	2	2	2	2	2	0	0	3	2	3	2	4	1	3	1	4	1	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:70450958C>T	uc001jok.3	+	12	6303	c.5798C>T	c.(5797-5799)CCG>CTG	p.P1933L		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1933					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						GTGACTGAGCCGCTAACGCCT	0.552													15	37					0	0	0.003163	0	0		T	70450958	T	T	70450958	3	4	12	1	0	0	0	0	1	0	0	0	15794	652	23	1	5840	1	TET1	10	70450958	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	8582198	70450958	65083789	661	10136											
CDH23	64072	broad.mit.edu	37	chr10	73544820	73544820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcaccttcaacatcactgCgggcaaccgcgagcgggcct	8	6	10	17	4	3	0	3	0	0	0	3	1	3	0	4	2	4	1	4	2	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:73544820C>T	uc001jrx.3	+	41	6052	c.5675C>T	c.(5674-5676)GCG>GTG	p.A1892V		NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1892	Cadherin 18.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						AACATCACTGCGGGCAACCGC	0.602													8	15					0	0	0.00308	0	0		T	73544820	T	T	73544820	3	4	12	1	0	0	0	0	1	0	0	0	3111	768	27	1	6186	1	CDH23	10	73544820	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3093862	73544820	61989927	662	10137											
DNAJB12	54788	broad.mit.edu	37	chr10	74114622	74114622	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccttgagggcgatgctgaTacagcgctcagcttcatcct	7	10	12	12	2	2	2	2	2	0	0	3	3	3	2	2	2	4	3	2	2	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:74114622T>C	uc010qjv.1	-	1	286	c.136A>G	c.(136-138)ATC>GTC	p.I46V	DNAJB12_uc001jsz.2_Missense_Mutation_p.I46V|DNAJB12_uc001jta.2_Missense_Mutation_p.I46V	NM_017626	NP_060096	Q9NXW2	DJB12_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 12	12					protein folding	endoplasmic reticulum|integral to membrane	heat shock protein binding|unfolded protein binding				0						GCGATGCTGATACAGCGCTCA	0.677													4	10					0	0	0.000602	0	0		C	74114622	C	C	74114622	3	2	12	1	0	0	0	0	1	0	0	0	4623	1406	49	3	1125	3	DNAJB12	10	74114622	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	569802	74114622	61420125	663	10138											
CBARA1	10367	broad.mit.edu	37	chr10	74267946	74267946	+	Frame_Shift_Del	DEL	A	-	-																															tgtgaggaaaatgtagtctgAaaaggatatgagcccacatt																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:74267946delA	uc001jtb.1	-	7	758	c.625delT	c.(625-627)TCAfs	p.S209fs	CBARA1_uc010qjw.1_5'UTR|CBARA1_uc010qjx.1_Intron|CBARA1_uc009xqo.1_RNA	NM_006077	NP_006068	Q9BPX6	MICU1_HUMAN	calcium binding atopy-related autoantigen 1	207					calcium ion import|defense response|elevation of mitochondrial calcium ion concentration	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			ovary(1)	1						ATGTAGTCTGAAAAGGATATG	0.348													4	9	---	---	---	---						.	-	74267946	-	-	74267946	7	5	12	1	0	1	0	1	0	0	0	0	2699	246	9	0	839	0	CBARA1	10	74267946	Frame_Shift_Del	DEL	A	TCGA-BR-4257-01A-01D-1126-08	153324	74267946	61266801	664	10139											
ECD	11319	broad.mit.edu	37	chr10	74894376	74894376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttacttgttggtctgtgatCggtgttgtcaggcagctgca	5	15	13	8	1	2	1	1	1	1	0	3	1	2	1	0	3	3	5	0	3	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:74894376C>T	uc001jtn.2	-	14	2143	c.1900G>A	c.(1900-1902)GAT>AAT	p.D634N	ECD_uc009xqx.2_Missense_Mutation_p.D667N|ECD_uc009xqy.2_Missense_Mutation_p.D591N|ECD_uc001jto.2_Missense_Mutation_p.D333N	NM_007265	NP_009196	O95905	SGT1_HUMAN	suppressor of S. cerevisiae gcr2 isoform 1	634					regulation of glycolysis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	transcription coactivator activity			pancreas(1)	1	Prostate(51;0.0119)					GGTCTGTGATCGGTGTTGTCA	0.378													3	23					0	0	0.004672	0	0		T	74894376	T	T	74894376	3	4	12	1	0	0	0	0	1	0	0	0	4894	884	31	1	38	1	ECD	10	74894376	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	626430	74894376	60640371	665	10140											
AGAP5	729092	broad.mit.edu	37	chr10	75456870	75456870	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatctgtttgagagttcCtctggaatattgtgcttgcc	7	15	9	10	0	2	1	0	1	2	1	3	3	3	2	3	1	2	3	3	1	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:75456870C>A	uc009xri.2	-	2	316	c.275G>T	c.(274-276)AGG>ATG	p.R92M	AGAP5_uc001juu.3_Missense_Mutation_p.R53M	NM_001144000	NP_001137472	A6NIR3	AGAP5_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	92					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						TTGAGAGTTCCTCTGGAATAT	0.378													12	28					0.00010058	0.000106593	0.001368	1	0		A	75456870	A	A	75456870	3	1	12	1	0	0	0	0	1	0	0	0	371	681	24	5	1813	5	AGAP5	10	75456870	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	562494	75456870	60077877	666	10141											
SEC24C	9632	broad.mit.edu	37	chr10	75523277	75523277	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attgaagatgacaggaacaaCcggggtacagagccatttgt	14	8	12	7	1	0	4	0	2	0	2	0	5	0	5	2	3	4	1	2	3	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:75523277C>A	uc001juw.2	+	8	1196	c.1017C>A	c.(1015-1017)AAC>AAA	p.N339K	SEC24C_uc010qkn.1_Intron|SEC24C_uc009xrj.1_Missense_Mutation_p.N197K|SEC24C_uc001jux.2_Missense_Mutation_p.N339K|SEC24C_uc010qko.1_Missense_Mutation_p.N220K|SEC24C_uc010qkp.1_Intron|SEC24C_uc010qkq.1_Intron	NM_004922	NP_004913	P53992	SC24C_HUMAN	SEC24-related protein C	339					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|zinc ion binding			skin(2)|central_nervous_system(1)	3	Prostate(51;0.0112)					ACAGGAACAACCGGGGTACAG	0.488													11	36					0.000151284	0.00016008	0.001855	1	0		A	75523277	A	A	75523277	3	1	12	1	0	0	0	0	1	0	0	0	14021	506	18	5	1039	5	SEC24C	10	75523277	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	66407	75523277	60011470	667	10142											
KCNMA1	3778	broad.mit.edu	37	chr10	78799284	78799284	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catccagttaaaggtcacttActcacaaacagtagggaagg	15	8	9	9	0	2	0	2	0	0	0	3	1	3	1	1	3	2	2	1	3	6	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:78799284A>G	uc001jxn.2	-	15	2036	c.1859_splice	c.e15+1	p.E620_splice	KCNMA1_uc001jxj.2_Splice_Site_p.E620_splice|KCNMA1_uc001jxk.1_Splice_Site_p.E235_splice|KCNMA1_uc009xrt.1_Splice_Site_p.E440_splice|KCNMA1_uc001jxl.1_Splice_Site_p.E274_splice|KCNMA1_uc001jxo.2_Splice_Site_p.E620_splice|KCNMA1_uc001jxm.2_Splice_Site_p.E620_splice|KCNMA1_uc001jxq.2_Splice_Site_p.E620_splice	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium						cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	AAGGTCACTTACTCACAAACA	0.473													6	29					0	0	0.00308	0	0		G	78799284	G	G	78799284	5	3	12	1	0	0	0	0	0	0	1	0	8089	405	14	3	2077	3	KCNMA1	10	78799284	Splice_Site	SNP	A	TCGA-BR-4257-01A-01D-1126-08	3276007	78799284	56735463	668	10143											
KCNMA1	3778	broad.mit.edu	37	chr10	78844406	78844406	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagagttacctcatgatattCgaggcatcctccgcatccgg	10	10	9	12	3	1	2	1	1	0	1	5	3	4	2	4	2	1	3	4	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:78844406C>T	uc001jxn.2	-	12	1689	c.1512G>A	c.(1510-1512)TCG>TCA	p.S504S	KCNMA1_uc001jxj.2_Silent_p.S504S|KCNMA1_uc001jxk.1_Silent_p.S119S|KCNMA1_uc009xrt.1_Silent_p.S324S|KCNMA1_uc001jxl.1_Silent_p.S158S|KCNMA1_uc001jxo.2_Silent_p.S504S|KCNMA1_uc001jxm.2_Silent_p.S504S|KCNMA1_uc001jxq.2_Silent_p.S504S	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	504	RCK N-terminal.|Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	TCATGATATTCGAGGCATCCT	0.532													12	25					0	0	0.001855	0	0		T	78844406	T	T	78844406	2	4	12	1	0	0	0	0	0	0	0	1	8089	871	31	1		1	KCNMA1	10	78844406	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	45122	78844406	56690341	669	10144											
ZMIZ1	57178	broad.mit.edu	37	chr10	81053157	81053157	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgggtcccacccaggcgtAtaacagccaattcatgaacc	12	7	9	13	1	1	1	1	1	0	0	2	2	2	1	4	2	3	1	4	2	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:81053157A>C	uc001kaf.2	+	12	1549	c.977A>C	c.(976-978)TAT>TCT	p.Y326S	ZMIZ1_uc001kag.2_Missense_Mutation_p.Y202S|ZMIZ1_uc001kah.1_Missense_Mutation_p.Y208S	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	326					transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			ACCCAGGCGTATAACAGCCAA	0.552													19	68					0	0	0.008871	0	0		C	81053157	C	C	81053157	3	2	12	1	0	0	0	0	1	0	0	0	17721	449	16	5	1007	5	ZMIZ1	10	81053157	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2208751	81053157	54481590	670	10145											
PTEN	5728	broad.mit.edu	37	chr10	89717770	89717770	+	Frame_Shift_Del	DEL	A	-	-																															cacaaacagaacaagatgctAaaaaaggtttgtactttact																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:89717770delA	uc001kfb.2	+	8	1826	c.795delA	c.(793-795)CTAfs	p.L265fs		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	265	C2 tensin-type.			KMLKKDK->AAGAADA: Reduces the growth suppression activity and cells show anchorage-independent growth. Reduces binding to phospholipid membranes in vitro. Phosphatase activity towards PtdIns(3,4,5)P3 is not affected.	activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.K267fs*9(4)|p.R55fs*1(4)|p.N212fs*1(2)|p.Y27fs*1(2)|p.M264fs*8(2)|p.G165_*404del(1)|p.?(1)|p.G165_K342del(1)|p.D268fs*30(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		ACAAGATGCTAAAAAAGGTTT	0.348		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			21	33	---	---	---	---						.	-	89717770	-	-	89717770	7	5	12	1	0	1	0	1	0	0	0	0	12760	349	13	0	821	0	PTEN	10	89717770	Frame_Shift_Del	DEL	A	TCGA-BR-4257-01A-01D-1126-08	8664613	89717770	45816977	671	10146											
KIF11	3832	broad.mit.edu	37	chr10	94392365	94392365	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttttggcaaaaacctgaaTagtctgtttaataatatgga	15	15	7	4	0	1	1	0	1	1	0	1	2	1	2	1	2	1	2	1	2	7	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:94392365T>C	uc001kic.2	+	13	1925	c.1617T>C	c.(1615-1617)AAT>AAC	p.N539N	KIF11_uc010qnq.1_Intron	NM_004523	NP_004514	P52732	KIF11_HUMAN	kinesin family member 11	539					blood coagulation|cell division|microtubule-based movement|spindle assembly involved in mitosis	chromatin remodeling complex|cytosol|kinesin complex|microtubule|spindle pole	ATP binding|microtubule motor activity|protein kinase binding			skin(1)	1						AAAACCTGAATAGTCTGTTTA	0.383													3	46					0	0	0.004672	0	0		C	94392365	C	C	94392365	2	2	12	1	0	0	0	0	0	0	0	1	8288	1403	49	3		3	KIF11	10	94392365	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	4674595	94392365	41142382	672	10147											
EXOC6	54536	broad.mit.edu	37	chr10	94733809	94733809	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttattttgtcccatgtcaGgatgctcgacatgcagcaga	9	13	10	9	1	1	1	1	0	0	1	3	3	2	2	1	1	3	4	1	1	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:94733809G>T	uc001kig.2	+	18	1840	c.1774_splice	c.e18-1	p.D592_splice	EXOC6_uc010qnr.1_Splice_Site_p.D608_splice|EXOC6_uc001kie.2_Splice_Site_p.D587_splice|EXOC6_uc009xub.2_Splice_Site_p.D591_splice|EXOC6_uc009xuc.2_Splice_Site_p.D489_splice|EXOC6_uc001kih.2_Splice_Site|EXOC6_uc001kii.2_Splice_Site_p.D166_splice	NM_019053	NP_061926	Q8TAG9	EXOC6_HUMAN	SEC15-like 1 isoform a						protein transport|vesicle docking involved in exocytosis	exocyst				skin(1)	1		Colorectal(252;0.123)				TCCCATGTCAGGATGCTCGAC	0.318													11	16					1.49906e-05	1.60488e-05	0.00245	1	0		T	94733809	T	T	94733809	5	4	12	1	0	0	0	0	0	0	1	0	5316	1014	35	5	1933	5	EXOC6	10	94733809	Splice_Site	SNP	G	TCGA-BR-4257-01A-01D-1126-08	341444	94733809	40800938	673	10148											
MYOF	26509	broad.mit.edu	37	chr10	95079681	95079681	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggtagtcaaacgggaaaAcaaatcgccagttaaaattc	18	7	9	7	2	1	0	1	0	0	0	3	2	1	1	1	2	2	2	1	2	8	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:95079681A>G	uc001kin.2	-	49	5669	c.5546T>C	c.(5545-5547)GTT>GCT	p.V1849A	MYOF_uc001kio.2_Missense_Mutation_p.V1836A|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1849	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						AAACGGGAAAACAAATCGCCA	0.438													11	40					0	0	0.001855	0	0		G	95079681	G	G	95079681	3	3	12	1	0	0	0	0	1	0	0	0	10107	43	2	3	663	3	MYOF	10	95079681	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	345872	95079681	40455066	674	10149											
OPALIN	93377	broad.mit.edu	37	chr10	98105764	98105764	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttccatttctatagtaggAcggtaacggtcatgcacagg	10	12	10	9	2	2	0	1	0	1	0	3	1	3	1	1	4	2	3	1	4	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:98105764A>G	uc001kmj.2	-	6	799	c.360T>C	c.(358-360)CGT>CGC	p.R120R	OPALIN_uc010qor.1_Silent_p.R110R|OPALIN_uc001kmi.2_Silent_p.R110R|OPALIN_uc001kmk.2_Silent_p.R97R|OPALIN_uc010qos.1_RNA	NM_033207	NP_149984	Q96PE5	OPALI_HUMAN	transmembrane protein 10 isoform a	120						Golgi apparatus|integral to membrane|plasma membrane					0						CTATAGTAGGACGGTAACGGT	0.517													15	58					0	0	0.007413	0	0		G	98105764	G	G	98105764	2	3	12	1	0	0	0	0	0	0	0	1	10892	262	10	3		3	OPALIN	10	98105764	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	3026083	98105764	37428983	675	10150											
HPS1	3257	broad.mit.edu	37	chr10	100182223	100182223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaccatctgcccagtggtgCggtccacatagatgaagtgc	9	8	11	13	1	1	2	0	1	1	1	2	2	2	2	4	2	3	0	4	2	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:100182223C>T	uc010qpf.1	-	17	1892	c.1646G>A	c.(1645-1647)CGC>CAC	p.R549H	HPS1_uc001kpi.1_Missense_Mutation_p.R550H|HPS1_uc001kpj.1_Missense_Mutation_p.R457H|HPS1_uc001kpk.1_Missense_Mutation_p.R374H	NM_000195	NP_000186	Q92902	HPS1_HUMAN	Hermansky-Pudlak syndrome 1 protein isoform a	549					lysosome organization|response to stimulus|visual perception	cytoplasmic membrane-bounded vesicle|integral to plasma membrane|lysosome|membrane fraction|soluble fraction	protein dimerization activity			skin(1)	1		Colorectal(252;0.234)		Epithelial(162;3.87e-12)|all cancers(201;5.63e-10)		CCCAGTGGTGCGGTCCACATA	0.562									Hermansky-Pudlak_syndrome				13	58					0	0	0.007413	0	0		T	100182223	T	T	100182223	3	4	12	1	0	0	0	0	1	0	0	0	7355	768	27	1	472	1	HPS1	10	100182223	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2076459	100182223	35352524	676	10151											
ABCC2	1244	broad.mit.edu	37	chr10	101553677	101553677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaatctagcctactcctGcctgttcttcatctcctacg	6	16	4	15	1	5	0	1	0	4	0	7	0	6	0	4	0	4	1	4	0	4	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:101553677G>A	uc001kqf.2	+	5	636	c.497G>A	c.(496-498)TGC>TAC	p.C166Y		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	166	Helical; Name=5; (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GCCTACTCCTGCCTGTTCTTC	0.388													9	36					0	0	0.000978	0	0		A	101553677	A	A	101553677	3	1	12	1	0	0	0	0	1	0	0	0	53	1319	46	2	515	2	ABCC2	10	101553677	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1371454	101553677	33981070	677	10152											
FAM178A	55719	broad.mit.edu	37	chr10	102710474	102710474	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcttcatttagtcggtgaAgttagttgttctcattcttt	6	21	7	7	1	4	1	2	1	3	0	6	1	4	1	0	1	0	3	0	1	3	9			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:102710474A>C	uc001krt.3	+	17	3836	c.3294A>C	c.(3292-3294)GAA>GAC	p.E1098D	FAM178A_uc001krs.2_Missense_Mutation_p.E1098D	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	1098											0						TAGTCGGTGAAGTTAGTTGTT	0.294													5	14					0	0	0.000602	0	0		C	102710474	C	C	102710474	3	2	12	1	0	0	0	0	1	0	0	0	5514	69	3	5	3360	5	FAM178A	10	102710474	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1156797	102710474	32824273	678	10153											
BTRC	8945	broad.mit.edu	37	chr10	103292822	103292822	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaggatcatcggattccacGgtcaggtagaaaatttcaaa	15	9	9	8	2	3	1	3	0	0	1	5	3	4	3	1	4	0	1	1	4	4	3	rs61751508		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:103292822G>T	uc001kta.2	+	9	1205	c.1092G>T	c.(1090-1092)ACG>ACT	p.T364T	BTRC_uc001ktb.2_Silent_p.T328T|BTRC_uc001ktc.2_Silent_p.T338T	NM_033637	NP_378663	Q9Y297	FBW1A_HUMAN	beta-transducin repeat containing protein	364	WD 2.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|positive regulation of proteolysis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|viral reproduction|Wnt receptor signaling pathway	cytosol|nucleus|SCF ubiquitin ligase complex				ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;1.05e-08)|all cancers(201;6.59e-07)		CGGATTCCACGGTCAGGTAGA	0.398													14	56					6.31663e-08	6.9366e-08	0.003163	1	0		T	103292822	T	T	103292822	2	4	12	1	0	0	0	0	0	0	0	1	1572	1103	39	5		5	BTRC	10	103292822	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	582348	103292822	32241925	679	10154											
PSD	5662	broad.mit.edu	37	chr10	104173805	104173805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaggccaaggcctccagcGaggcgaggctggtataggag	9	5	18	9	2	0	1	0	1	0	0	1	4	1	2	3	6	1	2	3	6	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:104173805G>A	uc001kvg.1	-	5	1801	c.1274C>T	c.(1273-1275)TCG>TTG	p.S425L	PSD_uc001kvh.1_Missense_Mutation_p.S46L|PSD_uc009xxd.1_Missense_Mutation_p.S425L	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	425					regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		GGCCTCCAGCGAGGCGAGGCT	0.652													8	14					0	0	0.000978	0	0		A	104173805	A	A	104173805	3	1	12	1	0	0	0	0	1	0	0	0	12668	1059	37	1	1852	1	PSD	10	104173805	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	880983	104173805	31360942	680	10155											
COL17A1	1308	broad.mit.edu	37	chr10	105793033	105793033	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtccgcagtcacgttgctGtaggcagagaagaccttgct	9	9	13	10	2	1	2	1	0	0	2	2	3	2	2	2	2	2	6	2	2	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:105793033G>A	uc001kxr.2	-	53	4426	c.4257C>T	c.(4255-4257)TAC>TAT	p.Y1419Y	COL17A1_uc001kxq.2_5'Flank	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	1419	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TCACGTTGCTGTAGGCAGAGA	0.612													4	6					0	0	0.009096	0	0		A	105793033	A	A	105793033	2	1	12	1	0	0	0	0	0	0	0	1	3677	1372	48	4		4	COL17A1	10	105793033	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1619228	105793033	29741714	681	10156											
COL17A1	1308	broad.mit.edu	37	chr10	105798255	105798255	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcccagggggccctggcggGcctgacacgtacatggtact	6	6	16	13	2	0	1	0	1	0	0	0	1	0	1	3	6	2	2	3	6	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:105798255G>A	uc001kxr.2	-	45	3148	c.2979C>T	c.(2977-2979)GGC>GGT	p.G993G		NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	993	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GCCCTGGCGGGCCTGACACGT	0.592													25	44					0	0	0.003954	0	0		A	105798255	A	A	105798255	2	1	12	1	0	0	0	0	0	0	0	1	3677	1190	42	2		2	COL17A1	10	105798255	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5222	105798255	29736492	682	10157											
SMC3	9126	broad.mit.edu	37	chr10	112343281	112343281	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaaggatttacaagatgAactagcaggcaatagtgaac	17	7	10	7	0	0	3	0	2	0	1	0	4	0	4	1	2	5	2	1	2	8	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:112343281A>G	uc001kze.2	+	11	1070	c.944A>G	c.(943-945)GAA>GGA	p.E315G		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	315	Potential.				cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		TTACAAGATGAACTAGCAGGC	0.388													11	46					0	0	0.000978	0	0		G	112343281	G	G	112343281	3	3	12	1	0	0	0	0	1	0	0	0	14809	246	9	3	986	3	SMC3	10	112343281	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	6545026	112343281	23191466	683	10158											
EMX2	2018	broad.mit.edu	37	chr10	119305240	119305240	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccccgtcccagcttctaagGctggaacacgcctttgagaa	9	9	9	14	2	1	1	0	1	1	1	3	3	3	2	4	2	2	2	4	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:119305240G>A	uc001ldh.3	+	2	1327	c.504G>A	c.(502-504)AGG>AGA	p.R168R	EMX2OS_uc001ldg.2_5'Flank|EMX2_uc001ldi.3_Intron	NM_004098	NP_004089	Q04743	EMX2_HUMAN	empty spiracles homeobox 2 isoform 1	168	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Colorectal(252;0.109)|Lung NSC(174;0.179)|all_lung(145;0.22)		all cancers(201;0.0133)		AGCTTCTAAGGCTGGAACACG	0.607													12	12					0	0	0.001368	0	0		A	119305240	A	A	119305240	2	1	12	1	0	0	0	0	0	0	0	1	5116	1194	42	2		2	EMX2	10	119305240	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6961959	119305240	16229507	684	10159											
TIAL1	7073	broad.mit.edu	37	chr10	121339499	121339499	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttggattttccagttgccAtgtctttaactacccgggca	7	15	8	11	1	1	0	0	0	1	0	2	1	2	1	3	2	3	2	3	2	2	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:121339499A>G	uc001lei.1	-	6	959	c.395T>C	c.(394-396)ATG>ACG	p.M132T	TIAL1_uc001leh.1_Missense_Mutation_p.M110T|TIAL1_uc001lej.1_Missense_Mutation_p.M149T|TIAL1_uc001lek.1_Missense_Mutation_p.M9T|TIAL1_uc009xzi.1_Missense_Mutation_p.M1T|TIAL1_uc010qtb.1_Missense_Mutation_p.M9T	NM_003252	NP_003243	Q01085	TIAR_HUMAN	TIA-1 related protein isoform 1	132	RRM 2.				apoptosis|defense response|induction of apoptosis|regulation of transcription from RNA polymerase II promoter	lysosome|nucleus|stress granule	nucleotide binding|RNA binding			ovary(1)	1		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00239)|BRCA - Breast invasive adenocarcinoma(275;0.0932)		TCCAGTTGCCATGTCTTTAAC	0.358													7	21					0	0	0.00308	0	0		G	121339499	G	G	121339499	3	3	12	1	0	0	0	0	1	0	0	0	15914	217	8	3	760	3	TIAL1	10	121339499	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2034259	121339499	14195248	685	10160											
TACC2	10579	broad.mit.edu	37	chr10	123892188	123892188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctggaaagcccaaccttaGctgcctcttcctaccacggt	9	9	7	16	1	1	0	0	0	1	0	2	1	2	1	6	2	5	1	6	2	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:123892188G>A	uc001lfv.2	+	6	5998	c.5638G>A	c.(5638-5640)GCT>ACT	p.A1880T	TACC2_uc001lfw.2_Missense_Mutation_p.A71T|TACC2_uc009xzx.2_Missense_Mutation_p.A1880T|TACC2_uc010qtv.1_Missense_Mutation_p.A1929T|TACC2_uc001lfx.2_5'UTR|TACC2_uc001lfy.2_5'UTR	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1880						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				CCCAACCTTAGCTGCCTCTTC	0.567													11	17					0	0	0.001368	0	0		A	123892188	A	A	123892188	3	1	12	1	0	0	0	0	1	0	0	0	15527	971	34	2	5656	2	TACC2	10	123892188	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2552689	123892188	11642559	686	10161											
DMBT1	1755	broad.mit.edu	37	chr10	124391375	124391375	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctattcctttttcaggaaaCcatctatcgacacctggtaa	11	14	5	11	1	3	0	1	0	2	0	5	2	4	1	3	2	1	1	3	2	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:124391375C>T	uc001lgk.1	+	47	6070	c.5964C>T	c.(5962-5964)AAC>AAT	p.N1988N	DMBT1_uc001lgl.1_Silent_p.N1978N|DMBT1_uc001lgm.1_Silent_p.N1360N|DMBT1_uc009xzz.1_Silent_p.N1988N|DMBT1_uc010qtx.1_Silent_p.N708N|DMBT1_uc009yab.1_Silent_p.N691N|DMBT1_uc009yac.1_Silent_p.N282N	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1988					epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TTTCAGGAAACCATCTATCGA	0.493													7	29					0	0	0.001984	0	0		T	124391375	T	T	124391375	2	4	12	1	0	0	0	0	0	0	0	1	4583	506	18	4		4	DMBT1	10	124391375	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	499187	124391375	11143372	687	10162											
FAM24A	118670	broad.mit.edu	37	chr10	124671216	124671216	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcagcttactggttgcCgcgatggtgctcctaagtgt	7	11	14	9	2	0	0	0	0	0	0	1	2	1	1	2	3	5	4	2	3	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:124671216C>T	uc001lgv.2	+	2	187	c.66C>T	c.(64-66)GCC>GCT	p.A22A		NM_001029888	NP_001025059	A6NFZ4	FA24A_HUMAN	family with sequence similarity 24, member A	22						extracellular region				ovary(2)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.124)|COAD - Colon adenocarcinoma(40;0.141)		TACTGGTTGCCGCGATGGTGC	0.473													53	170					0	0	0.00361	0	0		T	124671216	T	T	124671216	2	4	12	1	0	0	0	0	0	0	0	1	5558	639	23	1		1	FAM24A	10	124671216	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	279841	124671216	10863531	688	10163											
BUB3	9184	broad.mit.edu	37	chr10	124917344	124917344	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggatcagacagttaaacTgtgggatcccagaactcctt	11	11	10	9	0	1	2	1	0	0	2	3	4	3	4	2	2	2	1	2	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:124917344T>C	uc001lhe.2	+	4	607	c.365T>C	c.(364-366)CTG>CCG	p.L122P	BUB3_uc009yah.2_Missense_Mutation_p.L74P|BUB3_uc001lhf.3_Missense_Mutation_p.L122P|BUB3_uc001lhd.2_Missense_Mutation_p.L122P|BUB3_uc010qud.1_Missense_Mutation_p.L42P	NM_004725	NP_004716	O43684	BUB3_HUMAN	budding uninhibited by benzimidazoles 3 isoform	122	WD 3.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|attachment of spindle microtubules to kinetochore|cell division|meiosis|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	condensed chromosome kinetochore|cytosol|nucleus	protein binding			ovary(1)	1		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)				ACAGTTAAACTGTGGGATCCC	0.448													17	32					0	0	0.00499	0	0		C	124917344	C	C	124917344	3	2	12	1	0	0	0	0	1	0	0	0	1575	1580	55	3	375	3	BUB3	10	124917344	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	246128	124917344	10617403	689	10164											
C10orf137	26098	broad.mit.edu	37	chr10	127412448	127412448	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcagtacaccgcataggAaggactctcttactagatga	13	9	10	9	1	1	2	0	1	1	1	2	4	1	4	1	3	2	3	1	3	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:127412448A>G	uc001liq.1	+	4	746	c.453A>G	c.(451-453)GGA>GGG	p.G151G	C10orf137_uc001lin.2_Silent_p.G151G|C10orf137_uc001lio.1_Silent_p.G151G|C10orf137_uc001lip.1_5'UTR	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				ACCGCATAGGAAGGACTCTCT	0.348													7	118					0	0	0.00308	0	0		G	127412448	G	G	127412448	2	3	12	1	0	0	0	0	0	0	0	1	1597	233	9	3		3	C10orf137	10	127412448	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2495104	127412448	8122299	690	10165											
DOCK1	1793	broad.mit.edu	37	chr10	128795065	128795065	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgggaatattttggatcCagaattaactagcacgatta	15	12	9	5	1	0	2	0	0	0	2	1	5	1	4	1	2	2	1	1	2	6	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:128795065C>A	uc001ljt.2	+	7	591	c.527C>A	c.(526-528)CCA>CAA	p.P176Q	DOCK1_uc010qun.1_Missense_Mutation_p.P176Q	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	176					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		ATTTTGGATCCAGAATTAACT	0.378													29	76					1.06801e-11	1.20085e-11	0.009535	1	0		A	128795065	A	A	128795065	3	1	12	1	0	0	0	0	1	0	0	0	4690	594	21	5	553	5	DOCK1	10	128795065	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1382617	128795065	6739682	691	10166											
PAOX	196743	broad.mit.edu	37	chr10	135195102	135195102	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggagacctttccagtgtcGgtagagtgtgaggatggaga	9	9	18	5	1	0	4	0	1	0	3	2	7	1	5	2	5	0	1	2	5	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:135195102G>A	uc001lmv.2	+	3	887	c.807G>A	c.(805-807)TCG>TCA	p.S269S	PAOX_uc001lmw.2_RNA|PAOX_uc001lmx.2_Silent_p.S269S|PAOX_uc001lmy.2_Silent_p.S269S|PAOX_uc001lmz.2_RNA|PAOX_uc001lna.2_RNA|PAOX_uc001lnb.2_RNA|PAOX_uc001lnc.2_RNA	NM_152911	NP_690875	Q6QHF9	PAOX_HUMAN	polyamine oxidase isoform 1	407					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		TTCCAGTGTCGGTAGAGTGTG	0.582													14	21					0	0	0.003163	0	0		A	135195102	A	A	135195102	2	1	12	1	0	0	0	0	0	0	0	1	11442	1103	39	1		1	PAOX	10	135195102	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6400037	135195102	339645	692	10167											
PAOX	196743	broad.mit.edu	37	chr10	135195153	135195153	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcaccatgtcatcgtcacCgtgcccttaggtaggtcagg	7	9	12	13	3	3	0	3	0	0	0	4	0	3	0	3	3	1	2	3	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr10:135195153C>A	uc001lmv.2	+	3	938	c.858C>A	c.(856-858)ACC>ACA	p.T286T	PAOX_uc001lmw.2_RNA|PAOX_uc001lmx.2_Silent_p.T286T|PAOX_uc001lmy.2_Silent_p.T286T|PAOX_uc001lmz.2_RNA|PAOX_uc001lna.2_RNA|PAOX_uc001lnb.2_RNA|PAOX_uc001lnc.2_RNA	NM_152911	NP_690875	Q6QHF9	PAOX_HUMAN	polyamine oxidase isoform 1	424					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		TCATCGTCACCGTGCCCTTAG	0.617													11	19					5.16669e-11	5.79501e-11	0.000978	1	0		A	135195153	A	A	135195153	2	1	12	1	0	0	0	0	0	0	0	1	11442	639	23	5		5	PAOX	10	135195153	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	51	135195153	339594	693	10168											
RIC8A	60626	broad.mit.edu	37	chr11	211202	211202	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccatctgtccccagccaCgcagtgaacctcctggggaa	8	7	9	17	1	1	1	0	1	1	0	4	2	4	2	7	2	2	1	7	2	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:211202C>T	uc001log.2	+	5	1147	c.822C>T	c.(820-822)CAC>CAT	p.H274H	RIC8A_uc001lof.2_Silent_p.H274H|RIC8A_uc001loh.2_Silent_p.H267H	NM_021932	NP_068751	Q9NPQ8	RIC8A_HUMAN	resistance to inhibitors of cholinesterase 8	274						cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity				0		all_cancers(49;9.23e-07)|all_epithelial(84;0.000315)|Breast(177;0.00122)|Ovarian(85;0.0202)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.45e-27)|Epithelial(43;2.94e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.86e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		TCCCCAGCCACGCAGTGAACC	0.552													9	26					0	0	0.001368	0	0		T	211202	T	T	211202	2	4	12	1	0	0	0	0	0	0	0	1	13380	535	19	1		1	RIC8A	11	211202	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08		211202	134795314	694	10169											
B4GALNT4	338707	broad.mit.edu	37	chr11	372694	372695	+	Frame_Shift_Ins	INS	-	G	G																															acctagacatgctgtttcctINSgggggggctgggaggctgcc																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:372694_372695insG	uc001lpb.2	+	3	297_298	c.288_289insG	c.(286-291)CCTGGGfs	p.P96fs		NM_178537	NP_848632	Q76KP1	B4GN4_HUMAN	beta	96_97	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			pancreas(1)	1		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGCTGTTTCCTGGGGGGGCTGG	0.604													8	13	---	---	---	---						.	G	372695	G	G	372694	7	5	12	1	0	1	1	0	0	0	0	0	1270	1567	55	0	298	0	B4GALNT4	11	372694	Frame_Shift_Ins	INS	-	TCGA-BR-4257-01A-01D-1126-08	161492	372694	134633822	695	10170											
MUC6	4588	broad.mit.edu	37	chr11	1018326	1018326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgtgggtggaccctgtgGccttgagcgttgttggtgga	3	13	18	7	1	0	1	0	1	0	0	0	3	0	3	2	5	1	2	2	5	0	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:1018326G>A	uc001lsw.2	-	31	4526	c.4475C>T	c.(4474-4476)GCC>GTC	p.A1492V		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1492	Pro-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGACCCTGTGGCCTTGAGCGT	0.577													10	211					0	0	0.00278	0	0		A	1018326	A	A	1018326	3	1	12	1	0	0	0	0	1	0	0	0	9998	1203	42	2	2856	2	MUC6	11	1018326	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	645632	1018326	133988190	696	10171											
MUC5B	727897	broad.mit.edu	37	chr11	1250474	1250474	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacctgctccaacccccagCgcgcgcagctctgcgaggac	8	4	10	19	4	1	0	0	0	1	0	2	2	2	1	4	1	5	3	4	1	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:1250474C>T	uc009ycr.1	+	25	3145	c.3019C>T	c.(3019-3021)CGC>TGC	p.R1007C	MUC5B_uc009yct.1_Missense_Mutation_p.R351C|MUC5B_uc001ltb.2_Missense_Mutation_p.R351C|MUC5B_uc001lta.2_Missense_Mutation_p.R19C	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	351	TIL 1.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CAACCCCCAGCGCGCGCAGCT	0.677													3	4					0	0	0.009096	0	0		T	1250474	T	T	1250474	3	4	12	1	0	0	0	0	1	0	0	0	9997	768	27	1	1085	1	MUC5B	11	1250474	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	232148	1250474	133756042	697	10172											
NUP98	4928	broad.mit.edu	37	chr11	3721906	3721906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atagtcatgaatgacagcaaCtcccagattggggacaatga	15	8	10	8	0	1	4	1	3	0	1	2	5	2	5	1	2	2	1	1	2	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:3721906C>T	uc001lyh.2	-	24	3967	c.3676G>A	c.(3676-3678)GTT>ATT	p.V1226I	NUP98_uc001lyi.2_Missense_Mutation_p.V1226I|NUP98_uc001lyg.2_Missense_Mutation_p.V191I	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1243					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		ATGACAGCAACTCCCAGATTG	0.413			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								12	40					0	0	0.00245	0	0		T	3721906	T	T	3721906	3	4	12	1	0	0	0	0	1	0	0	0	10792	565	20	4	1766	4	NUP98	11	3721906	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2471432	3721906	131284610	698	10173											
OR52J3	119679	broad.mit.edu	37	chr11	5068158	5068158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgtgctccactacattacGcaaccatcttgacatcccaa	11	11	4	15	1	2	1	0	1	2	0	4	1	4	1	3	0	4	2	3	0	4	3	rs143834741		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:5068158G>A	uc010qyv.1	+	1	403	c.403G>A	c.(403-405)GCA>ACA	p.A135T		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACTACATTACGCAACCATCTT	0.483													12	33					0	0	0.001368	0	0		A	5068158	A	A	5068158	3	1	12	1	0	0	0	0	1	0	0	0	11141	1087	38	1	405	1	OR52J3	11	5068158	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1346252	5068158	129938358	699	10174											
OR51B2	79345	broad.mit.edu	37	chr11	5344589	5344589	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgattctccagatccgagtTtaactactaaacctatgttt	11	15	5	10	1	1	2	0	1	1	1	3	3	2	2	3	0	3	2	3	0	5	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:5344589T>C	uc001mao.1	-	1	994	c.939A>G	c.(937-939)TAA>TAG	p.*313*	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	313					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGATCCGAGTTTAACTACTAA	0.373													7	30					0	0	0.000978	0	0		C	5344589	C	C	5344589	2	2	12	1	0	0	0	0	0	0	0	1	11108	1848	64	3		3	OR51B2	11	5344589	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	276431	5344589	129661927	700	10175											
TRIM22	10346	broad.mit.edu	37	chr11	5730360	5730360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagacaagtgaaaactgtaCgcacctgcacatttaagaat	17	8	8	8	1	0	3	0	1	0	2	0	4	0	3	1	0	3	3	1	0	6	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:5730360C>T	uc001mbr.2	+	8	1256	c.979C>T	c.(979-981)CGC>TGC	p.R327C	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|TRIM22_uc009yes.2_Missense_Mutation_p.R323C|TRIM22_uc010qzm.1_Missense_Mutation_p.R155C|TRIM22_uc009yeu.2_Missense_Mutation_p.R138C|OR56B1_uc001mbs.1_Intron|OR56B1_uc009yev.1_Intron	NM_006074	NP_006065	Q8IYM9	TRI22_HUMAN	tripartite motif-containing 22	327	B30.2/SPRY.				immune response|interspecies interaction between organisms|protein trimerization|response to virus	Cajal body|Golgi apparatus|nuclear speck	ligase activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)		GAAAACTGTACGCACCTGCAC	0.413													32	57					0	0	0.004878	0	0		T	5730360	T	T	5730360	3	4	12	1	0	0	0	0	1	0	0	0	16522	536	19	1	1005	1	TRIM22	11	5730360	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	385771	5730360	129276156	701	10176											
OR52E6	390078	broad.mit.edu	37	chr11	5862840	5862840	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgagaaaggtagcctccAaaagatatttccttgatatt	14	13	7	7	0	1	3	0	2	1	2	3	4	3	3	3	1	1	1	3	1	6	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:5862840A>G	uc010qzq.1	-	1	288	c.288T>C	c.(286-288)TTT>TTC	p.F96F	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGTAGCCTCCAAAAGATATTT	0.468													32	100					0	0	0.003271	0	0		G	5862840	G	G	5862840	2	3	12	1	0	0	0	0	0	0	0	1	11136	127	5	3		3	OR52E6	11	5862840	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	132480	5862840	129143676	702	10177											
OR56A4	120793	broad.mit.edu	37	chr11	6023400	6023400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttgagcaggatggggaCatctggaggaattctcttcc	9	11	14	7	0	2	1	0	1	2	0	4	6	3	5	1	5	1	2	1	5	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:6023400C>T	uc010qzv.1	-	1	979	c.979G>A	c.(979-981)GTC>ATC	p.V327I		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	275	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGGATGGGGACATCTGGAGGA	0.517													16	25					0	0	0.004007	0	0		T	6023400	T	T	6023400	3	4	12	1	0	0	0	0	1	0	0	0	11154	478	17	4	120	4	OR56A4	11	6023400	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	160560	6023400	128983116	703	10178											
CYB5R2	51700	broad.mit.edu	37	chr11	7694000	7694000	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttctcaatcaagggcagCgggtacttggcttcagggtc	7	12	12	10	1	4	0	3	0	2	0	6	0	4	0	0	4	2	3	0	4	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:7694000C>T	uc001mfm.2	-	2	295	c.57G>A	c.(55-57)CCG>CCA	p.P19P	CYB5R2_uc001mfn.2_RNA|CYB5R2_uc009yfk.2_Silent_p.P19P|CYB5R2_uc009yfl.1_Silent_p.P19P	NM_016229	NP_057313	Q6BCY4	NB5R2_HUMAN	cytochrome b5 reductase b5R.2	19	FAD-binding FR-type.				sterol biosynthetic process	membrane|soluble fraction	cytochrome-b5 reductase activity				0				Epithelial(150;5.48e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TCAAGGGCAGCGGGTACTTGG	0.552													7	30					0	0	0.006214	0	0		T	7694000	T	T	7694000	2	4	12	1	0	0	0	0	0	0	0	1	4130	755	27	1		1	CYB5R2	11	7694000	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1670600	7694000	127312516	704	10179											
BTBD10	84280	broad.mit.edu	37	chr11	13435077	13435077	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaaaacatcatacttacTgagatctctacatttaatag	17	12	3	9	0	2	1	1	1	1	1	3	2	2	1	0	0	4	0	0	0	7	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:13435077T>C	uc001mkz.2	-	6	1065	c.808A>G	c.(808-810)AGT>GGT	p.S270G	BTBD10_uc010rcl.1_Missense_Mutation_p.S278G|BTBD10_uc001mla.2_Missense_Mutation_p.S254G|BTBD10_uc009ygn.2_RNA|BTBD10_uc010rcm.1_Missense_Mutation_p.S222G|BTBD10_uc010rcn.1_Missense_Mutation_p.S239G|BTBD10_uc009ygo.2_Missense_Mutation_p.S222G	NM_032320	NP_115696	Q9BSF8	BTBDA_HUMAN	K+ channel tetramerization protein	270						nucleus					0				Epithelial(150;0.0214)		TCATACTTACTGAGATCTCTA	0.323													23	30					0	0	0.00278	0	0		C	13435077	C	C	13435077	3	2	12	1	0	0	0	0	1	0	0	0	1541	1594	55	3	635	3	BTBD10	11	13435077	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	5741077	13435077	121571439	705	10180											
FAR1	84188	broad.mit.edu	37	chr11	13729476	13729476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagttaaatgtgattgcaaCgcgacagcttattctccttg	10	14	8	9	2	2	1	1	1	1	0	3	2	2	1	1	0	3	3	1	0	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:13729476C>T	uc001mld.2	+	4	550	c.395C>T	c.(394-396)ACG>ATG	p.T132M	FAR1_uc009ygp.2_Missense_Mutation_p.T132M	NM_032228	NP_115604	Q8WVX9	FACR1_HUMAN	fatty acyl CoA reductase 1	132					ether lipid biosynthetic process	integral to membrane|peroxisomal matrix|peroxisomal membrane	protein binding			ovary(1)|skin(1)	2						GTGATTGCAACGCGACAGCTT	0.338													14	23					0	0	0.00245	0	0		T	13729476	T	T	13729476	3	4	12	1	0	0	0	0	1	0	0	0	5688	536	19	1	405	1	FAR1	11	13729476	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	294399	13729476	121277040	706	10181											
SERGEF	26297	broad.mit.edu	37	chr11	18028253	18028253	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgtgaccaagccccagttgCccatctttgttcaggccaca	8	10	9	14	0	2	1	1	1	1	0	2	1	2	1	5	1	2	2	5	1	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:18028253C>T	uc001mnm.2	-	3	317	c.237G>A	c.(235-237)GGG>GGA	p.G79G	SERGEF_uc009yhd.2_RNA|SERGEF_uc001mnn.2_Silent_p.G79G|SERGEF_uc010rcz.1_5'UTR|SERGEF_uc001mno.1_5'UTR	NM_012139	NP_036271	Q9UGK8	SRGEF_HUMAN	deafness locus associated putative guanine	79	RCC1 2.				negative regulation of protein secretion|signal transduction	cytoplasm|nucleus	protein binding|Ran guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1						GCCCCAGTTGCCCATCTTTGT	0.473													15	124					0	0	0.003163	0	0		T	18028253	T	T	18028253	2	4	12	1	0	0	0	0	0	0	0	1	14102	726	26	2		2	SERGEF	11	18028253	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4298777	18028253	116978263	707	10182											
NAV2	89797	broad.mit.edu	37	chr11	19970272	19970272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgacaccaatgtcaccaCggagatgagtggccgtagca	11	8	12	10	2	1	3	1	2	0	1	1	4	1	3	3	2	1	3	3	2	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:19970272C>T	uc010rdm.1	+	11	2721	c.2360C>T	c.(2359-2361)ACG>ATG	p.T787M	NAV2_uc001mpp.2_Missense_Mutation_p.T700M|NAV2_uc001mpr.3_Missense_Mutation_p.T764M	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	787						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						AATGTCACCACGGAGATGAGT	0.517													9	41					0	0	0.008291	0	0		T	19970272	T	T	19970272	3	4	12	1	0	0	0	0	1	0	0	0	10202	536	19	1	2408	1	NAV2	11	19970272	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1942019	19970272	115036244	708	10183											
HTATIP2	10553	broad.mit.edu	37	chr11	20385903	20385903	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttaaaggaaatcctggaGcagggcctgttttccaaagt	11	11	10	9	0	1	0	0	0	1	0	3	2	3	2	3	3	1	2	3	3	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:20385903G>A	uc009yia.1	+	2	186	c.120G>A	c.(118-120)GAG>GAA	p.E40E	HTATIP2_uc009yib.1_Silent_p.E40E|HTATIP2_uc001mpx.2_Silent_p.E74E|HTATIP2_uc001mpz.2_Silent_p.E40E|HTATIP2_uc001mpy.3_Silent_p.E40E	NM_006410	NP_006401	Q9BUP3	HTAI2_HUMAN	HIV-1 Tat interactive protein 2, 30kDa isoform	40	NADP.				angiogenesis|anti-apoptosis|apoptosis|cell differentiation|cellular amino acid metabolic process|induction of apoptosis|interspecies interaction between organisms|nuclear import|regulation of angiogenesis|regulation of transcription from RNA polymerase II promoter	cytoplasm|nuclear envelope	NAD binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor|protein binding|transcription coactivator activity				0						AAATCCTGGAGCAGGGCCTGT	0.498													9	40					0	0	0.001368	0	0		A	20385903	A	A	20385903	2	1	12	1	0	0	0	0	0	0	0	1	7448	962	34	2		2	HTATIP2	11	20385903	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	415631	20385903	114620613	709	10184											
PAX6	5080	broad.mit.edu	37	chr11	31812317	31812317	+	Frame_Shift_Del	DEL	G	-	-																															tcatgtgtgtctgcatatgtGggggggtgtaggtatcataa																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:31812317delG	uc001mtd.3	-	11	2014	c.1124delC	c.(1123-1125)CCAfs	p.P375fs	PAX6_uc001mte.3_Frame_Shift_Del_p.P375fs|PAX6_uc001mtg.3_Frame_Shift_Del_p.P389fs|PAX6_uc001mtf.3_Frame_Shift_Del_p.P375fs|PAX6_uc001mth.3_Frame_Shift_Del_p.P375fs|PAX6_uc009yjr.2_Frame_Shift_Del_p.P375fs	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	375	Pro/Ser/Thr-rich.		P -> Q (in AN; reduced DNA binding ability).		blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					CTGCATATGTGGGGGGGTGTA	0.587									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				23	35	---	---	---	---						.	-	31812317	-	-	31812317	7	5	12	1	0	1	0	1	0	0	0	0	11502	1348	47	0	152	0	PAX6	11	31812317	Frame_Shift_Del	DEL	G	TCGA-BR-4257-01A-01D-1126-08	11426414	31812317	103194199	710	10185											
FBXO3	26273	broad.mit.edu	37	chr11	33772171	33772171	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaactgacacagtaatatcCccagttgttgctacacattc	13	11	6	11	0	0	1	0	1	0	0	2	2	1	1	2	0	3	4	2	0	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:33772171C>T	uc001muz.2	-	8	874	c.846G>A	c.(844-846)GGG>GGA	p.G282G	FBXO3_uc010rej.1_5'UTR|FBXO3_uc001muy.2_Silent_p.G169G|FBXO3_uc009ykb.2_RNA|FBXO3_uc001mva.1_Silent_p.G282G|FBXO3_uc001mvb.1_Silent_p.G277G|FBXO3_uc010rek.1_RNA	NM_012175	NP_036307	Q9UK99	FBX3_HUMAN	F-box only protein 3 isoform 1	282	ApaG.				proteolysis	nucleus	ubiquitin-protein ligase activity			pancreas(1)	1		Lung NSC(402;0.0804)		BRCA - Breast invasive adenocarcinoma(625;0.00315)|Lung(977;0.00488)|LUSC - Lung squamous cell carcinoma(625;0.008)		CAGTAATATCCCCAGTTGTTG	0.348													16	20					0	0	0.00499	0	0		T	33772171	T	T	33772171	2	4	12	1	0	0	0	0	0	0	0	1	5753	610	22	4		4	FBXO3	11	33772171	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1959854	33772171	101234345	711	10186											
RAG1	5896	broad.mit.edu	37	chr11	36595732	36595732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtgaaatccatctcctGccagatctgtgaacacattc	10	13	6	12	0	2	3	0	2	2	1	5	3	3	3	3	0	2	0	3	0	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:36595732G>A	uc001mwu.3	+	2	1002	c.878G>A	c.(877-879)TGC>TAC	p.C293Y	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	293	RING-type.	Zinc 2 (By similarity).			histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				TCCATCTCCTGCCAGATCTGT	0.488									Familial_Hemophagocytic_Lymphohistiocytosis				31	41					0	0	0.002836	0	0		A	36595732	A	A	36595732	3	1	12	1	0	0	0	0	1	0	0	0	13028	1319	46	2	880	2	RAG1	11	36595732	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2823561	36595732	98410784	712	10187											
API5	8539	broad.mit.edu	37	chr11	43356827	43356827	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctgatttctgtctctgcaGgatctcttccacattcctcc	5	15	6	15	0	3	1	0	1	3	0	8	2	6	2	4	1	1	1	4	1	0	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:43356827G>T	uc010rfh.1	+	12	1452	c.1279_splice	c.e12-1	p.D427_splice	API5_uc010rfg.1_Splice_Site_p.D416_splice|API5_uc001mxf.2_Splice_Site_p.D427_splice|API5_uc010rfi.1_Splice_Site_p.D373_splice|API5_uc001mxg.2_Splice_Site_p.D301_splice	NM_001142930	NP_001136402	Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5 isoform a						anti-apoptosis|apoptosis	cytoplasm|spliceosomal complex	fibroblast growth factor binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						TGTCTCTGCAGGATCTCTTCC	0.388													23	32					6.12954e-19	7.05465e-19	0.004656	1	0		T	43356827	T	T	43356827	5	4	12	1	0	0	0	0	0	0	1	0	773	1014	35	5	1324	5	API5	11	43356827	Splice_Site	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6761095	43356827	91649689	713	10188											
ALKBH3	221120	broad.mit.edu	37	chr11	43911304	43911304	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcctggctttgttgacgTgaaagaagctgactggatat	10	13	12	6	1	0	4	0	3	0	1	1	5	1	5	1	2	1	4	1	2	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:43911304T>C	uc001mxs.2	+	6	739	c.296T>C	c.(295-297)GTG>GCG	p.V99A	ALKBH3_uc009ykp.2_RNA|ALKBH3_uc001mxt.2_RNA|ALKBH3_uc009ykq.2_5'UTR	NM_139178	NP_631917	Q96Q83	ALKB3_HUMAN	AlkB homolog 3	99					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation	mitochondrion|nucleoplasm	damaged DNA binding|DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0					Vitamin C(DB00126)	TTTGTTGACGTGAAAGAAGCT	0.423								Direct_reversal_of_damage					3	56					0	0	0.009096	0	0		C	43911304	C	C	43911304	3	2	12	1	0	0	0	0	1	0	0	0	528	1696	59	3	314	3	ALKBH3	11	43911304	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	554477	43911304	91095212	714	10189											
ALX4	60529	broad.mit.edu	37	chr11	44289061	44289061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctgggcgtagttctcagCtcgggtgaggaggggcagct	6	9	17	9	2	1	1	1	1	1	0	3	2	1	2	1	5	3	5	1	5	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:44289061C>T	uc001myb.2	-	3	993	c.889G>A	c.(889-891)GCT>ACT	p.A297T		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	297					hair follicle development						0						TAGTTCTCAGCTCGGGTGAGG	0.632													6	29					0	0	0.001168	0	0		T	44289061	T	T	44289061	3	4	12	1	0	0	0	0	1	0	0	0	558	797	28	2	354	2	ALX4	11	44289061	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	377757	44289061	90717455	715	10190											
ALX4	60529	broad.mit.edu	37	chr11	44297062	44297062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgttgctctctgagtcggCcttctccaatgggctgggga	4	13	13	11	1	2	1	0	1	2	0	5	2	2	2	2	4	1	3	2	4	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:44297062C>T	uc001myb.2	-	2	717	c.613G>A	c.(613-615)GCC>ACC	p.A205T		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	205					hair follicle development						0						TCTGAGTCGGCCTTCTCCAAT	0.622													25	79					0	0	0.002836	0	0		T	44297062	T	T	44297062	3	4	12	1	0	0	0	0	1	0	0	0	558	739	26	2	634	2	ALX4	11	44297062	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	8001	44297062	90709454	716	10191											
ZNF408	79797	broad.mit.edu	37	chr11	46727164	46727164	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcaccctgcagcccaccCtctgtgccttctgctgcttc	4	10	9	18	0	2	0	0	0	2	0	3	1	2	0	4	1	5	4	4	1	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:46727164C>A	uc001nde.1	+	5	2144	c.1914C>A	c.(1912-1914)CCC>CCA	p.P638P	ZNF408_uc010rgw.1_Silent_p.P630P	NM_024741	NP_079017	Q9H9D4	ZN408_HUMAN	zinc finger protein 408	638					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding				0						GCAGCCCACCCTCTGTGCCTT	0.662													11	17					1.58986e-06	1.72235e-06	0.008291	1	0		A	46727164	A	A	46727164	2	1	12	1	0	0	0	0	0	0	0	1	17913	668	24	5		5	ZNF408	11	46727164	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2430102	46727164	88279352	717	10192											
ACP2	53	broad.mit.edu	37	chr11	47264672	47264672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagggcaaccagggtagtgtCgtgctgcgggggagaggggc	7	5	21	8	2	0	1	0	0	0	1	1	2	0	1	1	6	3	3	1	6	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:47264672C>T	uc001nei.2	-	9	976	c.859G>A	c.(859-861)GAC>AAC	p.D287N	ACP2_uc010rhe.1_Missense_Mutation_p.D259N|ACP2_uc009ylj.2_Missense_Mutation_p.D215N|ACP2_uc010rhf.1_Missense_Mutation_p.D255N|ACP2_uc010rhg.1_Missense_Mutation_p.D224N|ACP2_uc010rhh.1_Missense_Mutation_p.D100N|ACP2_uc010rhi.1_Missense_Mutation_p.D100N|ACP2_uc009ylk.2_Missense_Mutation_p.D254N	NM_001610	NP_001601	P11117	PPAL_HUMAN	acid phosphatase 2, lysosomal isoform 1	287	Lumenal (Potential).	Proton donor (By similarity).				integral to membrane|lysosomal lumen|lysosomal membrane	acid phosphatase activity			ovary(1)	1						AGGGTAGTGTCGTGCTGCGGG	0.567													26	35					0	0	0.009535	0	0		T	47264672	T	T	47264672	3	4	12	1	0	0	0	0	1	0	0	0	163	884	31	1	424	1	ACP2	11	47264672	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	537508	47264672	87741844	718	10193											
MADD	8567	broad.mit.edu	37	chr11	47307054	47307054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactggcaagtgactcagatGcagagtcagactctcgggca	11	7	13	10	1	3	4	2	1	1	3	4	5	3	4	0	2	1	3	0	2	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:47307054G>A	uc001ner.1	+	14	2655	c.2464G>A	c.(2464-2466)GCA>ACA	p.A822T	MADD_uc001neq.2_Missense_Mutation_p.A822T|MADD_uc001nev.1_Missense_Mutation_p.A779T|MADD_uc001nes.1_Missense_Mutation_p.A779T|MADD_uc001net.1_Missense_Mutation_p.A822T|MADD_uc009yln.1_Missense_Mutation_p.A779T|MADD_uc001neu.1_Missense_Mutation_p.A779T|MADD_uc001nex.2_Missense_Mutation_p.A822T|MADD_uc001nez.2_Missense_Mutation_p.A779T|MADD_uc001new.2_Missense_Mutation_p.A822T	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	822					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		TGACTCAGATGCAGAGTCAGA	0.572													31	96					0	0	0.003755	0	0		A	47307054	A	A	47307054	3	1	12	1	0	0	0	0	1	0	0	0	9170	1319	46	2	2514	2	MADD	11	47307054	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	42382	47307054	87699462	719	10194											
KBTBD4	55709	broad.mit.edu	37	chr11	47599015	47599015	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtggagaaattcctctgtAttctgcagctgggccaggtg	9	11	13	8	0	2	1	0	0	2	1	3	2	3	1	2	3	2	3	2	3	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:47599015A>G	uc001nfx.2	-	2	708	c.537T>C	c.(535-537)AAT>AAC	p.N179N	NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_Silent_p.N204N|KBTBD4_uc001nfz.2_Silent_p.N195N|KBTBD4_uc001nfy.2_Silent_p.N179N|NDUFS3_uc010rhn.1_5'Flank|NDUFS3_uc001nga.2_5'Flank	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4	179	BACK.									ovary(1)|central_nervous_system(1)	2						ATTCCTCTGTATTCTGCAGCT	0.537													16	59					0	0	0.007413	0	0		G	47599015	G	G	47599015	2	3	12	1	0	0	0	0	0	0	0	1	8011	446	16	3		3	KBTBD4	11	47599015	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	291961	47599015	87407501	720	10195											
NUP160	23279	broad.mit.edu	37	chr11	47859139	47859139	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtaagcaatcgttgcattActgaactctgtttcagttcc	9	15	7	10	1	2	1	1	1	1	0	4	1	3	1	1	0	4	6	1	0	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:47859139A>G	uc001ngm.2	-	5	870	c.785T>C	c.(784-786)GTA>GCA	p.V262A	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	262					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						TCGTTGCATTACTGAACTCTG	0.448													18	75					0	0	0.001882	0	0		G	47859139	G	G	47859139	3	3	12	1	0	0	0	0	1	0	0	0	10776	391	14	3	3653	3	NUP160	11	47859139	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	260124	47859139	87147377	721	10196											
PTPRJ	5795	broad.mit.edu	37	chr11	48161113	48161113	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctcaaatggacctgccCtcctggcgccaatgcaggct	7	9	11	14	1	1	0	1	0	1	0	3	1	2	1	4	4	2	3	4	4	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:48161113C>A	uc001ngp.3	+	11	2583	c.2228C>A	c.(2227-2229)CCT>CAT	p.P743H	PTPRJ_uc010rhr.1_Missense_Mutation_p.P188H	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	743	Extracellular (Potential).|Fibronectin type-III 8.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						TGGACCTGCCCTCCTGGCGCC	0.577													7	28					5.4927e-09	6.06597e-09	0.004482	1	0		A	48161113	A	A	48161113	3	1	12	1	0	0	0	0	1	0	0	0	12829	681	24	5	2279	5	PTPRJ	11	48161113	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	301974	48161113	86845403	722	10197											
OR4S1	256148	broad.mit.edu	37	chr11	48327840	48327840	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgagagcagagagatgcaGcatacatgctttgtggtatt	11	13	12	5	0	0	3	0	1	0	3	0	5	0	3	0	1	5	5	0	1	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:48327840G>A	uc010rhu.1	+	1	66	c.66G>A	c.(64-66)CAG>CAA	p.Q22Q		NM_001004725	NP_001004725	Q8NGB4	OR4S1_HUMAN	olfactory receptor, family 4, subfamily S,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GAGAGATGCAGCATACATGCT	0.463													38	151					0	0	0.002522	0	0		A	48327840	A	A	48327840	2	1	12	1	0	0	0	0	0	0	0	1	11101	962	34	2		2	OR4S1	11	48327840	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	166727	48327840	86678676	723	10198											
OR4C46	119749	broad.mit.edu	37	chr11	51515845	51515845	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctcaacctcgcctgcacTgacacccatatgctggaact	9	10	7	15	1	1	1	1	1	0	0	2	2	1	2	3	1	5	3	3	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:51515845T>C	uc010ric.1	+	1	564	c.564T>C	c.(562-564)ACT>ACC	p.T188T		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	188	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TCGCCTGCACTGACACCCATA	0.458													32	47					0	0	0.003755	0	0		C	51515845	C	C	51515845	2	2	12	1	0	0	0	0	0	0	0	1	11070	1567	55	3		3	OR4C46	11	51515845	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	3188005	51515845	83490671	724	10199											
SPRYD5	84767	broad.mit.edu	37	chr11	55659079	55659079	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccttctcacctcctctcAggcctatcttttgctgtagt	4	16	6	15	0	3	0	2	0	3	0	7	0	5	0	4	1	1	3	4	1	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:55659079A>G	uc010rip.1	+	7	1422	c.1330A>G	c.(1330-1332)AGG>GGG	p.R444G	SPRYD5_uc010riq.1_Missense_Mutation_p.R301G	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	444	B30.2/SPRY.					intracellular	zinc ion binding				0		all_epithelial(135;0.226)				ACCTCCTCTCAGGCCTATCTT	0.448													5	130					0	0	0.00308	0	0		G	55659079	G	G	55659079	3	3	12	1	0	0	0	0	1	0	0	0	15136	179	7	3	1352	3	SPRYD5	11	55659079	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	4143234	55659079	79347437	725	10200											
OR8K5	219453	broad.mit.edu	37	chr11	55927697	55927697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtgattaggtagatgaCgaggaagactccaaaaaggg	15	7	13	6	1	0	4	0	2	0	2	1	6	1	5	1	3	0	1	1	3	5	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:55927697C>T	uc010rja.1	-	1	97	c.97G>A	c.(97-99)GTC>ATC	p.V33I		NM_001004058	NP_001004058	Q8NH50	OR8K5_HUMAN	olfactory receptor, family 8, subfamily K,	33	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(21;0.00693)	Lung NSC(402;0.197)|all_epithelial(135;0.236)				AGGTAGATGACGAGGAAGACT	0.433													36	60					0	0	0.003755	0	0		T	55927697	T	T	55927697	3	4	12	1	0	0	0	0	1	0	0	0	11264	536	19	1	829	1	OR8K5	11	55927697	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	268618	55927697	79078819	726	10201											
OR5T2	219464	broad.mit.edu	37	chr11	56000210	56000210	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccattgcagccaagagaaagCattctgtggttccaaaacta	14	9	8	10	0	1	1	0	0	1	1	2	2	2	1	3	1	4	3	3	1	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:56000210C>A	uc010rjc.1	-	1	452	c.452G>T	c.(451-453)TGC>TTC	p.C151F		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	151	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CAAGAGAAAGCATTCTGTGGT	0.418													34	34					1.15183e-24	1.33242e-24	0.009718	1	0		A	56000210	A	A	56000210	3	1	12	1	0	0	0	0	1	0	0	0	11201	710	25	5	626	5	OR5T2	11	56000210	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	72513	56000210	79006306	727	10202											
P2RX3	5024	broad.mit.edu	37	chr11	57117371	57117371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgccaaactggcgcgcaCggtgaggacctagccattct	8	10	11	12	3	1	1	0	1	1	0	1	2	1	2	3	3	3	1	3	3	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:57117371C>T	uc001nju.2	+	7	780	c.704C>T	c.(703-705)ACG>ATG	p.T235M		NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3	235	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						CTGGCGCGCACGGTGAGGACC	0.637											OREG0020966	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	15					0	0	0.00308	0	0		T	57117371	T	T	57117371	3	4	12	1	0	0	0	0	1	0	0	0	11360	550	19	1	730	1	P2RX3	11	57117371	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1117161	57117371	77889145	728	10203											
PRG3	10394	broad.mit.edu	37	chr11	57146997	57146997	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaagttttaggagtccgCaccaataggtagcggcagat	13	8	12	8	2	0	1	0	0	0	1	1	2	1	2	2	3	1	5	2	3	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:57146997C>T	uc001njv.1	-	3	455	c.345G>A	c.(343-345)GTG>GTA	p.V115V		NM_006093	NP_006084	Q9Y2Y8	PRG3_HUMAN	proteoglycan 3 precursor	115	C-type lectin.				basophil activation|histamine biosynthetic process|immune response|leukotriene biosynthetic process|negative regulation of translation|neutrophil activation|positive regulation of interleukin-8 biosynthetic process|superoxide anion generation		sugar binding				0						TAGGAGTCCGCACCAATAGGT	0.512													6	89					0	0	0.001984	0	0		T	57146997	T	T	57146997	2	4	12	1	0	0	0	0	0	0	0	1	12502	697	25	2		2	PRG3	11	57146997	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	29626	57146997	77859519	729	10204											
TIMM10	26519	broad.mit.edu	37	chr11	57296267	57296267	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caactctgtcaactttttgcCcatccgctcatggatgtcca	8	13	6	14	1	3	0	2	0	1	0	5	1	5	1	3	1	3	1	3	1	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:57296267C>A	uc001nkm.1	-	3	343	c.196G>T	c.(196-198)GGC>TGC	p.G66C		NM_012456	NP_036588	P62072	TIM10_HUMAN	translocase of inner mitochondrial membrane 10	66					protein import into mitochondrial inner membrane|sensory perception of sound|transmembrane transport	mitochondrial inner membrane presequence translocase complex|mitochondrial intermembrane space protein transporter complex	zinc ion binding				0						AACTTTTTGCCCATCCGCTCA	0.542													9	48					1.58986e-06	1.72235e-06	0.008291	1	0		A	57296267	A	A	57296267	3	1	12	1	0	0	0	0	1	0	0	0	15930	623	22	5	80	5	TIMM10	11	57296267	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	149270	57296267	77710249	730	10205											
MPEG1	219972	broad.mit.edu	37	chr11	58979300	58979300	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagatctgtgcagccagggtAggtgttgaatgtataatagc	11	11	14	5	0	1	2	0	1	1	1	1	3	1	2	1	2	3	4	1	2	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:58979300A>G	uc001nnu.3	-	1	1195	c.1039T>C	c.(1039-1041)TAC>CAC	p.Y347H		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	347	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				CAGCCAGGGTAGGTGTTGAAT	0.502													17	59					0	0	0.007413	0	0		G	58979300	G	G	58979300	3	3	12	1	0	0	0	0	1	0	0	0	9741	420	15	3	1115	3	MPEG1	11	58979300	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1683033	58979300	76027216	731	10206											
MS4A13	503497	broad.mit.edu	37	chr11	60296882	60296882	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attttactgttcttctacggTttggaattttctattgcact	7	21	6	7	1	3	0	0	0	3	0	3	1	3	1	0	2	3	3	0	2	4	10			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:60296882T>G	uc001nps.2	+	6	674	c.351T>G	c.(349-351)GGT>GGG	p.G117G	MS4A13_uc009ync.2_Silent_p.G77G|MS4A13_uc009ynd.2_Silent_p.G58G	NM_001012417	NP_001012417	Q5J8X5	M4A13_HUMAN	membrane-spanning 4-domains, subfamily A, member	117	Helical; (Potential).					integral to membrane					0						TCTTCTACGGTTTGGAATTTT	0.353													10	32					0	0	0.006214	0	0		G	60296882	G	G	60296882	2	3	12	1	0	0	0	0	0	0	0	1	9875	1712	60	5		5	MS4A13	11	60296882	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1317582	60296882	74709634	732	10207											
SLC22A11	55867	broad.mit.edu	37	chr11	64323478	64323478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcagctctgttcatggcgTtctcgaagctcttggagcaa	8	11	12	10	2	4	0	1	0	3	0	5	2	4	1	0	3	3	6	0	3	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:64323478T>C	uc001oai.2	+	1	381	c.7T>C	c.(7-9)TTC>CTC	p.F3L	SLC22A11_uc001oah.1_Missense_Mutation_p.F3L|SLC22A11_uc001oaj.2_Missense_Mutation_p.F3L|SLC22A11_uc009ypq.2_Missense_Mutation_p.F3L	NM_018484	NP_060954	Q9NSA0	S22AB_HUMAN	solute carrier family 22 member 11	3	Cytoplasmic (Potential).				urate metabolic process	apical plasma membrane|external side of plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium-independent organic anion transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2					Probenecid(DB01032)	GTTCATGGCGTTCTCGAAGCT	0.592											OREG0004031	type=REGULATORY REGION|Gene=SLC22A11|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	16	17					0	0	0.00499	0	0		C	64323478	C	C	64323478	3	2	12	1	0	0	0	0	1	0	0	0	14467	1725	60	3	9	3	SLC22A11	11	64323478	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	4026596	64323478	70683038	733	10208											
SCYL1	57410	broad.mit.edu	37	chr11	65298235	65298235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttcggcaatgctggggccGttgtcctcacgcccctcttc	4	11	11	15	3	2	0	1	0	1	0	5	0	3	0	4	3	1	4	4	3	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:65298235G>A	uc001oea.1	+	7	1062	c.985G>A	c.(985-987)GTT>ATT	p.V329I	SCYL1_uc009yqk.2_Missense_Mutation_p.V329I|SCYL1_uc001oeb.1_Missense_Mutation_p.V329I|SCYL1_uc001oec.1_Missense_Mutation_p.V329I|SCYL1_uc001oed.1_Missense_Mutation_p.V186I|SCYL1_uc001oee.1_5'UTR	NM_020680	NP_065731	Q96KG9	NTKL_HUMAN	SCY1-like 1 isoform A	329					regulation of transcription, DNA-dependent|retrograde vesicle-mediated transport, Golgi to ER|transcription, DNA-dependent	cis-Golgi network|COPI vesicle coat|ER-Golgi intermediate compartment|microtubule organizing center|nucleus	ATP binding|DNA binding|protein tyrosine kinase activity			skin(1)	1						TGCTGGGGCCGTTGTCCTCAC	0.622													10	29					0	0	0.001368	0	0		A	65298235	A	A	65298235	3	1	12	1	0	0	0	0	1	0	0	0	13972	1145	40	1	1011	1	SCYL1	11	65298235	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	974757	65298235	69708281	734	10209											
SNX32	254122	broad.mit.edu	37	chr11	65618601	65618601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtatccgagatgcctgcctgCgggccgaccgcgtcatgcgc	5	7	14	15	6	1	1	1	0	0	1	2	3	2	1	5	1	4	1	5	1	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:65618601C>T	uc001ofr.2	+	7	806	c.679C>T	c.(679-681)CGG>TGG	p.R227W		NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B	227					cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		TGCCTGCCTGCGGGCCGACCG	0.632													16	62					0	0	0.00278	0	0		T	65618601	T	T	65618601	3	4	12	1	0	0	0	0	1	0	0	0	14927	759	27	1	705	1	SNX32	11	65618601	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	320366	65618601	69387915	735	10210											
CPT1A	1374	broad.mit.edu	37	chr11	68542897	68542897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctgtcaatggacatgaCgtactgtcaaaaatagaaca	16	8	10	7	1	2	2	2	1	0	1	2	4	2	3	0	2	2	2	0	2	6	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:68542897C>T	uc001oog.3	-	13	1632	c.1462G>A	c.(1462-1464)GTC>ATC	p.V488I	CPT1A_uc001oof.3_Missense_Mutation_p.V488I|CPT1A_uc009ysj.2_Intron	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	488	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	ATGGACATGACGTACTGTCAA	0.453													7	51					0	0	0.00308	0	0		T	68542897	T	T	68542897	3	4	12	1	0	0	0	0	1	0	0	0	3834	536	19	1	927	1	CPT1A	11	68542897	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2924296	68542897	66463619	736	10211											
ANO1	55107	broad.mit.edu	37	chr11	70017068	70017068	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgcgctgctgaacaacaTcatcgagatccgcctggacg	9	9	11	12	4	1	2	1	1	0	1	3	4	2	3	2	1	4	3	2	1	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:70017068T>G	uc001opj.2	+	22	2578	c.2273T>G	c.(2272-2274)ATC>AGC	p.I758S	ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.I467S|ANO1_uc010rql.1_5'UTR	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	758	Cytoplasmic (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						CTGAACAACATCATCGAGATC	0.587													9	13					0	0	0.004482	0	0		G	70017068	G	G	70017068	3	3	12	1	0	0	0	0	1	0	0	0	695	1435	50	5	2359	5	ANO1	11	70017068	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1474171	70017068	64989448	737	10212											
SERPINH1	871	broad.mit.edu	37	chr11	75277741	75277741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcctgggcgagctgctgcGctcactcagcaactccacgg	6	6	13	16	4	2	0	2	0	0	0	3	1	3	0	2	3	5	4	2	3	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:75277741G>A	uc001owr.2	+	2	576	c.347G>A	c.(346-348)CGC>CAC	p.R116H	SERPINH1_uc009yuf.2_Missense_Mutation_p.R116H|SERPINH1_uc009yug.2_Missense_Mutation_p.R116H|SERPINH1_uc001ows.2_Missense_Mutation_p.R116H|SERPINH1_uc001owt.2_5'Flank	NM_001235	NP_001226	P50454	SERPH_HUMAN	serine (or cysteine) proteinase inhibitor, clade	116					regulation of proteolysis|response to unfolded protein	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	collagen binding|serine-type endopeptidase inhibitor activity			ovary(2)	2	Ovarian(111;0.11)					GAGCTGCTGCGCTCACTCAGC	0.692													3	9					0	0	0.004672	0	0		A	75277741	A	A	75277741	3	1	12	1	0	0	0	0	1	0	0	0	14142	1087	38	1	349	1	SERPINH1	11	75277741	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5260673	75277741	59728775	738	10213											
UVRAG	7405	broad.mit.edu	37	chr11	75776823	75776823	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctatcttctgaacaaaaaTatagcacaggtaagtctctg	14	12	7	8	0	4	1	0	1	4	0	5	1	4	1	0	1	2	2	0	1	7	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:75776823T>G	uc001oxc.2	+	13	1537	c.1296T>G	c.(1294-1296)AAT>AAG	p.N432K	UVRAG_uc010rrw.1_Missense_Mutation_p.N331K|UVRAG_uc001oxd.2_Missense_Mutation_p.N60K|UVRAG_uc010rrx.1_Missense_Mutation_p.N60K	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	432					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						TGAACAAAAATATAGCACAGG	0.383													14	58					0	0	0.001855	0	0		G	75776823	G	G	75776823	3	3	12	1	0	0	0	0	1	0	0	0	17134	1403	49	5	1346	5	UVRAG	11	75776823	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	499082	75776823	59229693	739	10214											
INTS4	92105	broad.mit.edu	37	chr11	77633436	77633436	+	Frame_Shift_Del	DEL	A	-	-																															atgtctggttcagctgtgtcAaaaaatgggtgggtgctcag																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:77633436delA	uc001oys.2	-	13	1624	c.1596delT	c.(1594-1596)TTTfs	p.F532fs	INTS4_uc001oyt.2_RNA	NM_033547	NP_291025	Q96HW7	INT4_HUMAN	integrator complex subunit 4	532					snRNA processing	integrator complex	protein binding			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			CAGCTGTGTCAAAAAATGGGT	0.507													3	4	---	---	---	---						.	-	77633436	-	-	77633436	7	5	12	1	0	1	0	1	0	0	0	0	7796	127	5	0	1339	0	INTS4	11	77633436	Frame_Shift_Del	DEL	A	TCGA-BR-4257-01A-01D-1126-08	1856613	77633436	57373080	740	10215											
CCDC90B	60492	broad.mit.edu	37	chr11	82984691	82984691	+	Frame_Shift_Del	DEL	T	-	-																															tttttacatattactttaccTtttttgtaaattctgtagtt																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:82984691delT	uc001pae.2	-	7	955	c.593delA	c.(592-594)AAGfs	p.K198fs	CCDC90B_uc001pac.2_Frame_Shift_Del_p.K97fs|CCDC90B_uc001pad.2_Frame_Shift_Del_p.K97fs|CCDC90B_uc001paf.2_Frame_Shift_Del_p.K189fs	NM_021825	NP_068597	Q9GZT6	CC90B_HUMAN	coiled-coil domain containing 90B precursor	198						integral to membrane|mitochondrion|mitochondrion					0		Acute lymphoblastic leukemia(157;0.103)				TTACTTTACCTTTTTTGTAAA	0.274													12	19	---	---	---	---						.	-	82984691	-	-	82984691	7	5	12	1	0	1	0	1	0	0	0	0	2872	1623	56	0	183	0	CCDC90B	11	82984691	Frame_Shift_Del	DEL	T	TCGA-BR-4257-01A-01D-1126-08	5351255	82984691	52021825	741	10216											
FAT3	120114	broad.mit.edu	37	chr11	92088561	92088561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggaaggttcagtatagacGacgagagtggtaagtgtaat	13	11	14	3	2	1	2	1	0	0	2	1	5	1	3	0	3	0	4	0	3	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:92088561G>A	uc001pdj.3	+	1	3300	c.3283G>A	c.(3283-3285)GAC>AAC	p.D1095N		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1095	Cadherin 10.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CAGTATAGACGACGAGAGTGG	0.453										TCGA Ovarian(4;0.039)			15	34					0	0	0.004007	0	0		A	92088561	A	A	92088561	3	1	12	1	0	0	0	0	1	0	0	0	5705	1058	37	1	3285	1	FAT3	11	92088561	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	9103870	92088561	42917955	742	10217											
FAT3	120114	broad.mit.edu	37	chr11	92533874	92533874	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccgggaaaaccctctagaAggggatgttagtatttttgt	11	12	12	6	1	1	1	0	0	1	1	1	4	1	3	2	3	1	2	2	3	6	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:92533874A>G	uc001pdj.3	+	9	7712	c.7695A>G	c.(7693-7695)GAA>GAG	p.E2565E		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2565	Cadherin 23.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACCCTCTAGAAGGGGATGTTA	0.478										TCGA Ovarian(4;0.039)			7	22					0	0	0.001984	0	0		G	92533874	G	G	92533874	2	3	12	1	0	0	0	0	0	0	0	1	5705	69	3	3		3	FAT3	11	92533874	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	445313	92533874	42472642	743	10218											
PIWIL4	143689	broad.mit.edu	37	chr11	94340675	94340675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatatttgagctcagactGcccagtcccaagccaatgtg	13	9	8	11	0	1	2	1	1	0	1	2	2	2	2	3	0	3	1	3	0	5	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:94340675G>A	uc001pfa.2	+	14	1920	c.1709G>A	c.(1708-1710)TGC>TAC	p.C570Y	PIWIL4_uc010rue.1_RNA|PIWIL4_uc009ywk.1_RNA	NM_152431	NP_689644	Q7Z3Z4	PIWL4_HUMAN	piwi-like 4	570	Piwi.				cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|meiosis|multicellular organismal development|piRNA metabolic process|regulation of translation|spermatogenesis	nucleus|piP-body	piRNA binding			skin(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				AGCTCAGACTGCCCAGTCCCA	0.418													11	24					0	0	0.008291	0	0		A	94340675	A	A	94340675	3	1	12	1	0	0	0	0	1	0	0	0	11979	1319	46	2	1763	2	PIWIL4	11	94340675	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1806801	94340675	40665841	744	10219											
CWC15	51503	broad.mit.edu	37	chr11	94696586	94696586	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatgaactttttgtgaaaTtcagatcgcagtgtgtcatt	10	16	8	7	1	2	3	2	2	0	1	4	3	3	3	1	0	1	1	1	0	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:94696586T>A	uc001pfd.3	-	8	777	c.654A>T	c.(652-654)GAA>GAT	p.E218D		NM_016403	NP_057487	Q9P013	CWC15_HUMAN	CWC15 homolog	218					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome	protein binding|RNA binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TTTTGTGAAATTCAGATCGCA	0.333													7	3					0	0	0.00308	0	0		A	94696586	A	A	94696586	3	1	12	1	0	0	0	0	1	0	0	0	4070	1490	52	5	39	5	CWC15	11	94696586	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	355911	94696586	40309930	745	10220											
KDM4D	55693	broad.mit.edu	37	chr11	94731303	94731303	+	Frame_Shift_Del	DEL	A	-	-																															ctcgcctacagttctcaaggAaaatgggattcccttcaatc																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:94731303delA	uc001pfe.2	+	3	1599	c.767delA	c.(766-768)GAAfs	p.E256fs		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	256	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GTTCTCAAGGAAAATGGGATT	0.567													20	35	---	---	---	---						.	-	94731303	-	-	94731303	7	5	12	1	0	1	0	1	0	0	0	0	8147	246	9	0	769	0	KDM4D	11	94731303	Frame_Shift_Del	DEL	A	TCGA-BR-4257-01A-01D-1126-08	34717	94731303	40275213	746	10221											
BIRC2	329	broad.mit.edu	37	chr11	102220626	102220626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagacttttcccaggtccctCgtatcaaaacattaagagta	14	11	6	10	1	1	2	1	0	0	2	4	2	3	2	2	1	1	2	2	1	6	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:102220626C>T	uc001pgy.2	+	2	1440	c.41C>T	c.(40-42)TCG>TTG	p.S14L	BIRC2_uc010ruq.1_Intron|BIRC2_uc010rur.1_Missense_Mutation_p.S14L	NM_001166	NP_001157	Q13490	BIRC2_HUMAN	baculoviral IAP repeat-containing protein 2	14					cell surface receptor linked signaling pathway|cellular component disassembly involved in apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	CD40 receptor complex|cytosol|internal side of plasma membrane	protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3	all_cancers(8;0.00044)|all_epithelial(12;0.00348)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0093)	Lung(13;0.109)|Epithelial(9;0.11)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0144)		CCAGGTCCCTCGTATCAAAAC	0.378													15	66					0	0	0.004007	0	0		T	102220626	T	T	102220626	3	4	12	1	0	0	0	0	1	0	0	0	1436	893	31	1	43	1	BIRC2	11	102220626	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	7489323	102220626	32785890	747	10222											
MMP12	4321	broad.mit.edu	37	chr11	102742328	102742328	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgttttgcccacctccTgaatgtgtagtccagaattc	7	16	8	10	0	0	2	0	1	0	1	3	2	2	2	4	0	1	3	4	0	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:102742328T>C	uc001phk.2	-	4	666	c.621A>G	c.(619-621)TCA>TCG	p.S207S		NM_002426	NP_002417	P39900	MMP12_HUMAN	matrix metalloproteinase 12 preproprotein	207					positive regulation of epithelial cell proliferation involved in wound healing|proteolysis|wound healing, spreading of epidermal cells	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)	GCCCACCTCCTGAATGTGTAG	0.373													2	2					0	0	0.004672	0	0		C	102742328	C	C	102742328	2	2	12	1	0	0	0	0	0	0	0	1	9669	1567	55	3		3	MMP12	11	102742328	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	521702	102742328	32264188	748	10223											
DDI1	414301	broad.mit.edu	37	chr11	103907911	103907911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagcagcagcgcacacccGctgcccagcggtcacagggc	9	2	13	17	3	1	0	1	0	0	0	1	0	1	0	2	2	6	5	2	2	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:103907911G>A	uc001phr.2	+	1	604	c.361G>A	c.(361-363)GCT>ACT	p.A121T	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	121					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		GCGCACACCCGCTGCCCAGCG	0.677													10	16					0	0	0.00245	0	0		A	103907911	A	A	103907911	3	1	12	1	0	0	0	0	1	0	0	0	4331	1087	38	1	363	1	DDI1	11	103907911	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1165583	103907911	31098605	749	10224											
KBTBD3	143879	broad.mit.edu	37	chr11	105924490	105924490	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttatagcaaaatgtatatTgattttctccattttcctca	11	19	4	7	0	2	1	1	1	1	0	4	1	3	1	2	0	1	3	2	0	6	9			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:105924490T>C	uc001pja.2	-	4	1566	c.926A>G	c.(925-927)CAA>CGA	p.Q309R	KBTBD3_uc001pjb.2_Missense_Mutation_p.Q309R|KBTBD3_uc009yxm.2_Missense_Mutation_p.Q230R	NM_198439	NP_940841	Q8NAB2	KBTB3_HUMAN	BTB and kelch domain containing 3	305	Kelch 1.									ovary(1)|central_nervous_system(1)	2		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.43e-05)|Epithelial(105;0.00418)|all cancers(92;0.0299)		AAATGTATATTGATTTTCTCC	0.393													17	41					0	0	0.007413	0	0		C	105924490	C	C	105924490	3	2	12	1	0	0	0	0	1	0	0	0	8010	1812	63	3	916	3	KBTBD3	11	105924490	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	2016579	105924490	29082026	750	10225											
CUL5	8065	broad.mit.edu	37	chr11	107925673	107925673	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagacgagaatgtaactcCgttgaagcagtaagtaattt	16	10	9	6	2	0	3	0	1	0	2	1	4	1	3	1	0	2	5	1	0	6	5	rs147410964	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:107925673C>T	uc001pjv.2	+	7	1438	c.771C>T	c.(769-771)TCC>TCT	p.S257S	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	257					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		AATGTAACTCCGTTGAAGCAG	0.299													10	20					0	0	0.008291	0	0		T	107925673	T	T	107925673	2	4	12	1	0	0	0	0	0	0	0	1	4062	639	23	1		1	CUL5	11	107925673	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2001183	107925673	27080843	751	10226											
ATM	472	broad.mit.edu	37	chr11	108117798	108117798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaagtattcttcaggatttCgtaatattgccgtcaaagaa	14	13	8	6	2	3	1	2	0	1	1	4	3	3	2	1	1	1	2	1	1	6	7	rs138398778		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:108117798C>T	uc001pkb.1	+	8	1394	c.1009C>T	c.(1009-1011)CGT>TGT	p.R337C	ATM_uc009yxr.1_Missense_Mutation_p.R337C	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	337			R -> C (in a colorectal adenocarcinoma sample; somatic mutation).|R -> H (in a colorectal adenocarcinoma sample; somatic mutation).		cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding	p.R337C(2)|p.R337S(2)|p.R337H(1)		haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TTCAGGATTTCGTAATATTGC	0.323			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			9	35					0	0	0.006214	0	0		T	108117798	T	T	108117798	3	4	12	1	0	0	0	0	1	0	0	0	1110	884	31	1	1035	1	ATM	11	108117798	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	192125	108117798	26888718	752	10227											
LAYN	143903	broad.mit.edu	37	chr11	111414815	111414815	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacagaaactgatagaaaagTtcattgaaaacctcttgcca	18	9	6	8	0	2	4	1	2	1	2	2	4	2	4	2	0	4	1	2	0	7	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:111414815T>C	uc001plr.1	+	3	613	c.277T>C	c.(277-279)TTC>CTC	p.F93L	LAYN_uc001plp.1_Missense_Mutation_p.F85L|LAYN_uc001plq.1_Missense_Mutation_p.F93L|LAYN_uc001pls.1_Missense_Mutation_p.F85L|LAYN_uc010rwg.1_5'UTR|LAYN_uc010rwh.1_5'UTR	NM_178834	NP_849156	Q6UX15	LAYN_HUMAN	layilin	93	C-type lectin.|Extracellular (Potential).					cell surface|integral to membrane|ruffle	hyaluronic acid binding|sugar binding				0		all_cancers(61;9.06e-10)|all_epithelial(67;1.34e-05)|Melanoma(852;1.74e-05)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.086)		Epithelial(105;1.5e-06)|BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|all cancers(92;2.45e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0476)		GATAGAAAAGTTCATTGAAAA	0.488													6	35					0	0	0.001168	0	0		C	111414815	C	C	111414815	3	2	12	1	0	0	0	0	1	0	0	0	8665	1725	60	3	259	3	LAYN	11	111414815	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	3297017	111414815	23591701	753	10228											
CLDN25	644672	broad.mit.edu	37	chr11	113650551	113650551	+	Frame_Shift_Del	DEL	G	-	-																															tccgtgcaaaagtccagctcGgggggctacttctctccctc																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:113650551delG	uc009yyw.1	+	1	34	c.34delG	c.(34-36)GGGfs	p.G12fs		NM_001101389	NP_001094859	C9JDP6	CLD25_HUMAN	claudin 25	12	Helical; (Potential).					integral to membrane|tight junction	structural molecule activity				0						AGTCCAGCTCGGGGGGCTACT	0.552													49	67	---	---	---	---						.	-	113650551	-	-	113650551	7	5	12	1	0	1	0	1	0	0	0	0	3488	1116	39	0	36	0	CLDN25	11	113650551	Frame_Shift_Del	DEL	G	TCGA-BR-4257-01A-01D-1126-08	2235736	113650551	21355965	754	10229											
HTR3B	9177	broad.mit.edu	37	chr11	113802574	113802574	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatctgggcccccgataTcatcatcaatgagttgtaag	10	11	9	11	1	4	1	3	1	1	0	4	2	4	1	3	1	1	2	3	1	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:113802574T>C	uc001pok.2	+	4	420	c.353T>C	c.(352-354)ATC>ACC	p.I118T	HTR3B_uc001pol.2_Missense_Mutation_p.I107T	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	118	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		GCCCCCGATATCATCATCAAT	0.453													39	52					0	0	0.00361	0	0		C	113802574	C	C	113802574	3	2	12	1	0	0	0	0	1	0	0	0	7461	1435	50	3	367	3	HTR3B	11	113802574	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	152023	113802574	21203942	755	10230											
FAM55D	54827	broad.mit.edu	37	chr11	114453246	114453246	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagatcaccctgtcataGccttggttccttgcactcca	8	12	8	13	0	2	2	2	1	0	1	4	2	4	2	4	1	2	2	4	1	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:114453246G>A	uc001ppc.2	-	3	775	c.594C>T	c.(592-594)GGC>GGT	p.G198G	FAM55D_uc001ppd.2_Intron	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	198						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		CCCTGTCATAGCCTTGGTTCC	0.527													8	37					0	0	0.00308	0	0		A	114453246	A	A	114453246	2	1	12	1	0	0	0	0	0	0	0	1	5601	958	34	2		2	FAM55D	11	114453246	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	650672	114453246	20553270	756	10231											
SIK3	23387	broad.mit.edu	37	chr11	116744643	116744643	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactcaagttgcccggttggTtgcaagttttgcataggcaa	9	13	11	8	1	1	0	1	0	0	0	1	0	1	0	1	3	4	7	1	3	5	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:116744643T>C	uc001ppy.2	-	12	1419	c.1383A>G	c.(1381-1383)CAA>CAG	p.Q461Q	SIK3_uc001ppz.2_Silent_p.Q360Q|SIK3_uc001pqa.2_Silent_p.Q413Q	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	461						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						GCCCGGTTGGTTGCAAGTTTT	0.517													19	76					0	0	0.001882	0	0		C	116744643	C	C	116744643	2	2	12	1	0	0	0	0	0	0	0	1	14344	1722	60	3		3	SIK3	11	116744643	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	2291397	116744643	18261873	757	10232											
TTC36	143941	broad.mit.edu	37	chr11	118399499	118399499	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggcgactccagggagaCgtggcaggtaaggggagatg	9	4	19	9	3	0	2	0	0	0	2	1	5	1	2	2	6	0	2	2	6	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:118399499C>T	uc001ptg.1	+	2	300	c.300C>T	c.(298-300)GAC>GAT	p.D100D	TTC36_uc010ryb.1_RNA|TTC36_uc010ryc.1_Silent_p.D41D|TMEM25_uc010ryd.1_5'Flank|TMEM25_uc001ptk.3_5'Flank|TMEM25_uc010rye.1_5'Flank|TMEM25_uc001pth.2_5'Flank|TMEM25_uc009zad.2_5'Flank|TMEM25_uc001pti.2_5'Flank|TMEM25_uc010ryf.1_5'Flank|TMEM25_uc001ptl.2_5'Flank|TMEM25_uc001ptm.2_5'Flank|TMEM25_uc001ptn.2_5'Flank	NM_001080441	NP_001073910	A6NLP5	TTC36_HUMAN	tetratricopeptide repeat domain 36	100	TPR 2.						binding				0						TCCAGGGAGACGTGGCAGGTA	0.537													5	13					0	0	0.001984	0	0		T	118399499	T	T	118399499	2	4	12	1	0	0	0	0	0	0	0	1	16730	535	19	1		1	TTC36	11	118399499	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1654856	118399499	16607017	758	10233											
TREH	11181	broad.mit.edu	37	chr11	118533631	118533631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagctgatgcagctgccctgCccaggcacgcagtttggcat	7	8	13	13	1	0	1	0	1	0	0	0	2	0	1	2	2	5	7	2	2	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:118533631C>T	uc001pty.1	-	4	427	c.382G>A	c.(382-384)GCA>ACA	p.A128T	TREH_uc009zaj.1_Missense_Mutation_p.A128T|TREH_uc001ptz.1_Silent_p.G7G|TREH_uc009zak.2_Missense_Mutation_p.A128T	NM_007180	NP_009111	O43280	TREA_HUMAN	trehalase precursor	128					polysaccharide digestion|trehalose catabolic process	anchored to plasma membrane	alpha,alpha-trehalase activity			pancreas(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.16e-05)		AGCTGCCCTGCCCAGGCACGC	0.577													5	3					0	0	0.001984	0	0		T	118533631	T	T	118533631	3	4	12	1	0	0	0	0	1	0	0	0	16495	739	26	2	1416	2	TREH	11	118533631	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	134132	118533631	16472885	759	10234											
C2CD2L	9854	broad.mit.edu	37	chr11	118982005	118982005	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagccacccatgatgccccaGgctcagccagccatccccag	10	4	8	19	0	1	1	1	1	0	0	2	1	2	1	8	1	4	1	8	1	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:118982005G>T	uc001pvo.2	+	6	1190	c.831G>T	c.(829-831)CAG>CAT	p.Q277H	DPAGT1_uc010ryz.1_5'Flank|C2CD2L_uc001pvn.2_Missense_Mutation_p.Q277H	NM_014807	NP_055622	O14523	C2C2L_HUMAN	transmembrane protein 24	277						integral to membrane					0						TGATGCCCCAGGCTCAGCCAG	0.547													26	137					1.06647e-15	1.22023e-15	0.003755	1	0		T	118982005	T	T	118982005	3	4	12	1	0	0	0	0	1	0	0	0	2156	991	35	5	853	5	C2CD2L	11	118982005	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	448374	118982005	16024511	760	10235											
OAF	220323	broad.mit.edu	37	chr11	120096472	120096472	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcagcacaatgagatcAtccccagtgaggccatggcc	11	6	11	13	0	1	2	1	2	0	1	2	3	2	2	4	2	3	3	4	2	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:120096472A>G	uc001pxb.2	+	2	575	c.334A>G	c.(334-336)ATC>GTC	p.I112V		NM_178507	NP_848602	Q86UD1	OAF_HUMAN	OAF homolog precursor	112											0		Breast(109;0.00663)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)		CAATGAGATCATCCCCAGTGA	0.647													32	66					0	0	0.002522	0	0		G	120096472	G	G	120096472	3	3	12	1	0	0	0	0	1	0	0	0	10817	217	8	3	340	3	OAF	11	120096472	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1114467	120096472	14910044	761	10236											
GRIK4	2900	broad.mit.edu	37	chr11	120690602	120690602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcttcaactgcaccaccGcctgcctcatctgtgccaaa	9	10	5	17	1	4	0	2	0	2	0	4	0	4	0	5	0	4	1	5	0	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:120690602G>A	uc001pxn.2	+	6	771	c.484G>A	c.(484-486)GCC>ACC	p.A162T	GRIK4_uc009zav.1_Missense_Mutation_p.A162T|GRIK4_uc009zaw.1_Missense_Mutation_p.A162T|GRIK4_uc009zax.1_Missense_Mutation_p.A162T	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	162	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	CTGCACCACCGCCTGCCTCAT	0.547													56	54					0	0	0.00361	0	0		A	120690602	A	A	120690602	3	1	12	1	0	0	0	0	1	0	0	0	6792	1087	38	1	498	1	GRIK4	11	120690602	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	594130	120690602	14315914	762	10237											
TECTA	7007	broad.mit.edu	37	chr11	121038788	121038788	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcacgcatatcatgtataAaaacacactctggatcgaaa	16	9	7	9	2	2	0	1	0	1	0	3	2	2	1	0	2	1	3	0	2	6	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:121038788A>G	uc010rzo.1	+	18	5612	c.5612A>G	c.(5611-5613)AAA>AGA	p.K1871R		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1871	ZP.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		ATCATGTATAAAAACACACTC	0.448													4	80					0	0	0.009096	0	0		G	121038788	G	G	121038788	3	3	12	1	0	0	0	0	1	0	0	0	15772	14	1	3	5682	3	TECTA	11	121038788	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	348186	121038788	13967728	763	10238											
BLID	414899	broad.mit.edu	37	chr11	121986495	121986495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acccaagagcgcctccagtgGcaggcgtgcttttgcctctg	6	9	12	14	2	1	1	0	0	1	1	2	1	2	1	4	2	3	2	4	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:121986495G>A	uc001pyf.2	-	1	429	c.136C>T	c.(136-138)CCA>TCA	p.P46S	LOC399959_uc009zba.2_Intron	NM_001001786	NP_001001786	Q8IZY5	BLID_HUMAN	BRCC2 protein	46					apoptosis	mitochondrion					0		Breast(109;0.0164)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;2.08e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.101)		GCCTCCAGTGGCAGGCGTGCT	0.483											OREG0021435	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	57					0	0	0.009096	0	0		A	121986495	A	A	121986495	3	1	12	1	0	0	0	0	1	0	0	0	1444	1203	42	2	194	2	BLID	11	121986495	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	947707	121986495	13020021	764	10239											
UBASH3B	84959	broad.mit.edu	37	chr11	122659945	122659945	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggcacgtccttaaccacCggctgctctggactcctgcc	6	10	9	16	2	1	0	0	0	1	0	3	1	3	1	5	3	3	3	5	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:122659945C>T	uc001pyi.3	+	6	1269	c.909C>T	c.(907-909)ACC>ACT	p.T303T		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	303	SH3.					cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		CCTTAACCACCGGCTGCTCTG	0.522													37	70					0	0	0.00361	0	0		T	122659945	T	T	122659945	2	4	12	1	0	0	0	0	0	0	0	1	16866	639	23	1		1	UBASH3B	11	122659945	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	673450	122659945	12346571	765	10240											
HSPA8	3312	broad.mit.edu	37	chr11	122928610	122928610	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttctgttgatgttcaaaTtcttccttctcagcagtctg	6	19	6	10	0	6	1	2	1	5	0	8	1	7	1	1	0	1	3	1	0	1	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:122928610T>C	uc001pyo.2	-	9	1851	c.1773A>G	c.(1771-1773)GAA>GAG	p.E591E	HSPA8_uc009zbc.2_Silent_p.E355E|HSPA8_uc001pyp.2_Intron|HSPA8_uc010rzu.1_Silent_p.E514E	NM_006597	NP_006588	P11142	HSP7C_HUMAN	heat shock 70kDa protein 8 isoform 1	591					cellular membrane organization|interspecies interaction between organisms|mRNA metabolic process|negative regulation of transcription, DNA-dependent|neurotransmitter secretion|post-Golgi vesicle-mediated transport|protein folding|response to unfolded protein|transcription, DNA-dependent	cell surface|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|melanosome|plasma membrane|ribonucleoprotein complex	ATP binding|ATPase activity, coupled|protein binding			central_nervous_system(7)|lung(1)	8		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		GATGTTCAAATTCTTCCTTCT	0.438													18	65					0	0	0.007413	0	0		C	122928610	C	C	122928610	2	2	12	1	0	0	0	0	0	0	0	1	7432	1490	52	3		3	HSPA8	11	122928610	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	268665	122928610	12077906	766	10241											
OR10G8	219869	broad.mit.edu	37	chr11	123900482	123900482	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgatcagggtggattcTcacctccacaccaccatgta	9	10	9	13	0	2	1	2	1	1	0	4	2	3	2	4	3	0	1	4	3	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:123900482T>A	uc001pzp.1	+	1	153	c.153T>A	c.(151-153)TCT>TCA	p.S51S		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	51	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		GGGTGGATTCTCACCTCCACA	0.552													12	73					0	0	0.003163	0	0		A	123900482	A	A	123900482	2	1	12	1	0	0	0	0	0	0	0	1	10922	1538	54	5		5	OR10G8	11	123900482	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	971872	123900482	11106034	767	10242											
OR8B12	219858	broad.mit.edu	37	chr11	124413190	124413190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttacagatggccacgtagcGgtcatacgccatcgctgaca	10	8	11	12	4	1	2	1	1	0	1	2	2	1	2	2	2	3	3	2	2	3	3	rs148702196		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:124413190G>A	uc010sam.1	-	1	361	c.361C>T	c.(361-363)CGC>TGC	p.R121C		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		GCCACGTAGCGGTCATACGCC	0.502													50	42					0	0	0.00361	0	0		A	124413190	A	A	124413190	3	1	12	1	0	0	0	0	1	0	0	0	11245	1116	39	1	573	1	OR8B12	11	124413190	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	512708	124413190	10593326	768	10243											
NFRKB	4798	broad.mit.edu	37	chr11	129754692	129754692	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccacccgcaggggcacCgcaggactaggagaacgtgc	10	2	15	14	3	0	1	0	0	0	1	0	3	0	2	3	5	2	4	3	5	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr11:129754692C>T	uc001qfi.2	-	7	891	c.690G>A	c.(688-690)GCG>GCA	p.A230A	NFRKB_uc001qfg.2_Silent_p.A255A|NFRKB_uc001qfh.2_Silent_p.A253A|NFRKB_uc010sbw.1_Silent_p.A242A	NM_001143835	NP_001137307	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein	230					DNA recombination|DNA repair|inflammatory response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Ino80 complex	DNA binding|protease binding			ovary(3)	3	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0167)|Lung(977;0.171)|LUSC - Lung squamous cell carcinoma(976;0.184)		GCAGGGGCACCGCAGGACTAG	0.527													9	22					0	0	0.006214	0	0		T	129754692	T	T	129754692	2	4	12	1	0	0	0	0	0	0	0	1	10403	639	23	1		1	NFRKB	11	129754692	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	5341502	129754692	5251824	769	10244											
CHD4	1108	broad.mit.edu	37	chr12	6687040	6687040	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggctcattgaggatggcatAgcgtgggtcattctggatgt	8	12	15	6	1	3	1	2	1	1	0	3	3	3	3	0	5	1	2	0	5	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:6687040A>G	uc001qpo.2	-	37	5436	c.5272T>C	c.(5272-5274)TAT>CAT	p.Y1758H	CHD4_uc001qpn.2_Missense_Mutation_p.Y1751H|CHD4_uc001qpp.2_Missense_Mutation_p.Y1783H|uc001qpq.1_5'Flank	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1758	Required for interaction with PCNT.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						AGGATGGCATAGCGTGGGTCA	0.433													17	58					0	0	0.004007	0	0		G	6687040	G	G	6687040	3	3	12	1	0	0	0	0	1	0	0	0	3330	420	15	3	482	3	CHD4	12	6687040	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08		6687040	127164855	770	10245											
ACRBP	84519	broad.mit.edu	37	chr12	6749557	6749557	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaagcaaggggctgacaaaGggagtcttgtgggaggtgtc	10	7	18	6	0	1	1	0	1	1	0	2	3	1	3	0	5	1	3	0	5	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:6749557G>T	uc001qpu.1	-	7	1257	c.1209C>A	c.(1207-1209)CCC>CCA	p.P403P	LPAR5_uc010sff.1_5'Flank|ACRBP_uc001qpt.1_5'Flank|ACRBP_uc010sfg.1_Silent_p.P370P	NM_032489	NP_115878	Q8NEB7	ACRBP_HUMAN	proacrosin binding protein sp32 precursor	403						acrosomal vesicle|extracellular region				central_nervous_system(1)	1						GGCTGACAAAGGGAGTCTTGT	0.617													4	8					0.000602214	0.000631354	0.000602	1	0		T	6749557	T	T	6749557	2	4	12	1	0	0	0	0	0	0	0	1	170	987	35	5		5	ACRBP	12	6749557	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	62517	6749557	127102338	771	10246											
USP5	8078	broad.mit.edu	37	chr12	6964649	6964649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagacatttcaataagaccGgccagcgagtctacttgcac	13	8	9	11	2	2	2	1	0	1	2	2	4	2	2	2	1	3	1	2	1	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:6964649G>A	uc001qri.3	+	2	255	c.196G>A	c.(196-198)GGC>AGC	p.G66S	USP5_uc001qrh.3_Missense_Mutation_p.G66S	NM_001098536	NP_001092006	P45974	UBP5_HUMAN	ubiquitin specific peptidase 5 isoform 1	66					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process	lysosome	cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			lung(2)|breast(1)|skin(1)	4						CAATAAGACCGGCCAGCGAGT	0.567													19	61					0	0	0.00333	0	0		A	6964649	A	A	6964649	3	1	12	1	0	0	0	0	1	0	0	0	17107	1116	39	1	202	1	USP5	12	6964649	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	215092	6964649	126887246	772	10247											
PHB2	11331	broad.mit.edu	37	chr12	7077645	7077645	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgagcacctcgttgacaaTggacggcaacactcgttcct	9	10	9	13	3	0	2	0	2	0	0	3	3	1	3	2	2	2	4	2	2	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:7077645T>C	uc001qsd.2	-	4	616	c.406A>G	c.(406-408)ATT>GTT	p.I136V	PHB2_uc010sft.1_Missense_Mutation_p.I136V|PHB2_uc010sfu.1_Missense_Mutation_p.I136V|PHB2_uc001qse.1_5'Flank|PHB2_uc001qsf.1_5'Flank|PHB2_uc009zfn.1_5'Flank|SCARNA12_uc001qsg.2_5'Flank	NM_001144831	NP_001138303	Q99623	PHB2_HUMAN	prohibitin 2 isoform 1	136					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial inner membrane|nucleus	estrogen receptor binding|receptor activity			ovary(2)|pancreas(1)	3						TCGTTGACAATGGACGGCAAC	0.577													5	10					0	0	0.001168	0	0		C	7077645	C	C	7077645	3	2	12	1	0	0	0	0	1	0	0	0	11834	1464	51	3	517	3	PHB2	12	7077645	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	112996	7077645	126774250	773	10248											
CLEC4A	50856	broad.mit.edu	37	chr12	8281918	8281918	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actacaaaagagctggttcaTacaacattggagtgtgtgaa	15	10	10	6	0	1	2	1	1	0	1	1	3	1	3	0	2	4	2	0	2	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:8281918T>C	uc001qtz.1	+	3	505	c.258T>C	c.(256-258)CAT>CAC	p.H86H	CLEC4A_uc009zga.1_Silent_p.H47H|CLEC4A_uc001qub.1_Intron|CLEC4A_uc001quc.1_Intron|CLEC4A_uc009zgb.1_Intron	NM_016184	NP_057268	Q9UMR7	CLC4A_HUMAN	C-type lectin domain family 4, member A isoform	86	Extracellular (Potential).				cell adhesion|cell surface receptor linked signaling pathway|innate immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0				Kidney(36;0.0915)		AGCTGGTTCATACAACATTGG	0.333													4	22					0	0	0.001984	0	0		C	8281918	C	C	8281918	2	2	12	1	0	0	0	0	0	0	0	1	3515	1403	49	3		3	CLEC4A	12	8281918	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1204273	8281918	125569977	774	10249											
PLBD1	79887	broad.mit.edu	37	chr12	14664529	14664529	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggactctttgccaggacaGgagagtctcgggtattacct	9	10	12	10	2	2	1	0	0	2	1	3	4	2	3	2	4	2	1	2	4	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:14664529G>A	uc001rcc.1	-	7	1122	c.961C>T	c.(961-963)CTG>TTG	p.L321L		NM_024829	NP_079105	Q6P4A8	PLBL1_HUMAN	phospholipase B domain containing 1	321					lipid catabolic process	extracellular region	hydrolase activity				0						TGCCAGGACAGGAGAGTCTCG	0.448													13	53					0	0	0.006122	0	0		A	14664529	A	A	14664529	2	1	12	1	0	0	0	0	0	0	0	1	12044	991	35	4		4	PLBD1	12	14664529	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6382611	14664529	119187366	775	10250											
ART4	420	broad.mit.edu	37	chr12	14993873	14993873	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataaaacaaaatagccacaGcgtgtgtggtagtcatgttc	14	11	9	7	1	1	0	1	0	0	0	2	0	1	0	1	1	3	2	1	1	7	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:14993873G>T	uc001rcl.1	-	2	725	c.359C>A	c.(358-360)GCT>GAT	p.A120D	ART4_uc009zid.1_Intron|ART4_uc009zie.1_Intron|ART4_uc001rcm.1_Missense_Mutation_p.A120D	NM_021071	NP_066549	Q93070	NAR4_HUMAN	ADP-ribosyltransferase 4 precursor	120					arginine metabolic process|protein ADP-ribosylation	anchored to membrane|plasma membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity				0						AATAGCCACAGCGTGTGTGGT	0.433													25	54					2.24059e-21	2.58749e-21	0.00632	1	0		T	14993873	T	T	14993873	3	4	12	1	0	0	0	0	1	0	0	0	1000	971	34	5	593	5	ART4	12	14993873	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	329344	14993873	118858022	776	10251											
CMAS	55907	broad.mit.edu	37	chr12	22208418	22208418	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtaggaaatattcaagctActtctccatgtttacatcct	11	16	5	9	0	2	0	1	0	1	0	4	1	3	1	2	1	3	3	2	1	6	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:22208418A>G	uc001rfm.2	+	3	512	c.433A>G	c.(433-435)ACT>GCT	p.T145A	CMAS_uc001rfn.2_RNA	NM_018686	NP_061156	Q8NFW8	NEUA_HUMAN	cytidine monophospho-N-acetylneuraminic acid	145					lipopolysaccharide biosynthetic process	nucleus	N-acylneuraminate cytidylyltransferase activity			ovary(1)|pancreas(1)|skin(1)	3						TATTCAAGCTACTTCTCCATG	0.328													4	27					0	0	0.001168	0	0		G	22208418	G	G	22208418	3	3	12	1	0	0	0	0	1	0	0	0	3578	391	14	3	443	3	CMAS	12	22208418	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	7214545	22208418	111643477	777	10252											
KRAS	3845	broad.mit.edu	37	chr12	25398281	25398281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaggcactcttgcctacgCcaccagctccaactaccaca	11	7	5	18	1	2	0	1	0	1	0	3	0	3	0	5	1	5	2	5	1	4	3	rs112445441		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:25398281C>T	uc001rgp.1	-	2	219	c.38G>A	c.(37-39)GGC>GAC	p.G13D	KRAS_uc001rgq.1_Missense_Mutation_p.G13D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	13	GTP.		G -> R (in pylocytic astrocytoma; somatic mutation; increase activation of the Ras pathway).|G -> D (in a breast carcinoma cell line and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G13D(2647)|p.G13C(182)|p.G13S(58)|p.G13R(41)|p.G13V(27)|p.G13A(24)|p.G13G(11)|p.G13E(4)|p.G12_G13insG(4)|p.G13N(3)|p.G13I(1)|p.G13_V14>DI(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CTTGCCTACGCCACCAGCTCC	0.338	G13D(NCIH647_LUNG)|G13D(MDAMB231_BREAST)|G13D(NCIH747_LARGE_INTESTINE)|G13D(T84_LARGE_INTESTINE)|G13D(LOVO_LARGE_INTESTINE)|G13D(DLD1_LARGE_INTESTINE)|G13D(DV90_LUNG)|G13D(HCT15_LARGE_INTESTINE)|G13D(HCT116_LARGE_INTESTINE)|G13D(TOLEDO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G13D(NOMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			3	6					0	0	0.000602	0	0		T	25398281	T	T	25398281	3	4	12	1	0	0	0	0	1	0	0	0	8454	739	26	2	668	2	KRAS	12	25398281	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3189863	25398281	108453614	778	10253											
TWF1	5756	broad.mit.edu	37	chr12	44191543	44191543	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgagctgtctattattcaAtttttccaaagcctgaaagg	11	15	8	7	0	2	2	1	2	1	0	3	2	3	2	2	1	2	2	2	1	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:44191543A>T	uc001rob.2	-	7	728	c.700T>A	c.(700-702)TTG>ATG	p.L234M	TWF1_uc001rnz.2_Missense_Mutation_p.L95M|TWF1_uc001roa.2_Missense_Mutation_p.L227M|TWF1_uc001roc.2_Missense_Mutation_p.L95M	NM_002822	NP_002813	Q12792	TWF1_HUMAN	twinfilin 1	193	ADF-H 2.					actin cytoskeleton|cytoplasm	actin binding|protein tyrosine kinase activity			stomach(1)	1	all_cancers(12;0.00125)	Lung NSC(34;0.0804)|all_lung(34;0.181)		GBM - Glioblastoma multiforme(48;0.0474)		CTATTATTCAATTTTTCCAAA	0.383													14	33					0	0	0.001855	0	0		T	44191543	T	T	44191543	3	4	12	1	0	0	0	0	1	0	0	0	16807	98	4	5	491	5	TWF1	12	44191543	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	18793262	44191543	89660352	779	10254											
NELL2	4753	broad.mit.edu	37	chr12	44915909	44915909	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagcaaaaaagatcaacTgtgggattctcacagtcaca	15	7	10	9	0	3	1	3	0	1	1	4	2	3	2	0	2	2	2	0	2	4	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:44915909T>C	uc001rog.2	-	18	2644	c.2049A>G	c.(2047-2049)ACA>ACG	p.T683T	NELL2_uc001rof.3_Silent_p.T682T|NELL2_uc001roh.2_Silent_p.T683T|NELL2_uc009zkd.2_Silent_p.T635T|NELL2_uc010skz.1_Silent_p.T733T|NELL2_uc010sla.1_Silent_p.T706T	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	683	VWFC 3.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		AAAGATCAACTGTGGGATTCT	0.433													6	29					0	0	0.001168	0	0		C	44915909	C	C	44915909	2	2	12	1	0	0	0	0	0	0	0	1	10353	1567	55	3		3	NELL2	12	44915909	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	724366	44915909	88935986	780	10255											
MLL2	8085	broad.mit.edu	37	chr12	49434936	49434936	+	Frame_Shift_Del	DEL	G	-	-																															ccagcatcgggggctgcgcaGgggcccccgtaggactagga																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:49434936delG	uc001rta.3	-	31	6617	c.6617delC	c.(6616-6618)CCTfs	p.P2206fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2206	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GGGCTGCGCAGGGGCCCCCGT	0.701			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			4	7	---	---	---	---						.	-	49434936	-	-	49434936	7	5	12	1	0	1	0	1	0	0	0	0	9639	1000	35	0	10092	0	MLL2	12	49434936	Frame_Shift_Del	DEL	G	TCGA-BR-4257-01A-01D-1126-08	4519027	49434936	84416959	781	10256											
GPD1	2819	broad.mit.edu	37	chr12	50498517	50498517	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatacctgccagggcacAagttgcccccaaatgtggtg	11	8	10	12	0	1	0	1	0	0	0	1	0	1	0	4	2	3	2	4	2	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:50498517A>G	uc001rvz.2	+	2	235	c.202A>G	c.(202-204)AAG>GAG	p.K68E	GPD1_uc010smp.1_Missense_Mutation_p.K68E|GPD1_uc001rwa.2_Missense_Mutation_p.K68E	NM_005276	NP_005267	P21695	GPDA_HUMAN	glycerol-3-phosphate dehydrogenase 1 (soluble)	68					glycerol-3-phosphate catabolic process|triglyceride biosynthetic process	cytosol|glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|protein homodimerization activity				0					NADH(DB00157)	GCCAGGGCACAAGTTGCCCCC	0.542													18	54					0	0	0.010504	0	0		G	50498517	G	G	50498517	3	3	12	1	0	0	0	0	1	0	0	0	6619	131	5	3	208	3	GPD1	12	50498517	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1063581	50498517	83353378	782	10257											
SCN8A	6334	broad.mit.edu	37	chr12	52094954	52094954	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctacacagttcctggcatgCtggaacctttactctgtggg	7	13	10	11	0	2	0	0	0	2	0	3	1	3	1	2	3	4	3	2	3	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:52094954C>T	uc001ryw.2	+	8	1133	c.955C>T	c.(955-957)CTG>TTG	p.L319L	SCN8A_uc010snl.1_Silent_p.L184L|SCN8A_uc001ryx.1_Silent_p.L184L|SCN8A_uc001ryz.1_Silent_p.L184L|SCN8A_uc001ryy.2_Silent_p.L184L	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	319	I.				axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	TCCTGGCATGCTGGAACCTTT	0.393													11	26					0	0	0.00245	0	0		T	52094954	T	T	52094954	2	4	12	1	0	0	0	0	0	0	0	1	13949	796	28	2		2	SCN8A	12	52094954	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1596437	52094954	81756941	783	10258											
GDF11	10220	broad.mit.edu	37	chr12	56143376	56143376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagcactcaagcgagtccCgctgctgccgatatcccctc	8	7	9	17	4	1	0	1	0	0	0	4	3	3	0	4	0	4	3	4	0	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:56143376C>T	uc001shq.2	+	3	971	c.934C>T	c.(934-936)CGC>TGC	p.R312C	GDF11_uc010spv.1_Missense_Mutation_p.R312C	NM_005811	NP_005802	O95390	GDF11_HUMAN	growth differentiation factor 11 precursor	312					growth|mesoderm development|skeletal system development	extracellular space	cytokine activity|growth factor activity	p.R312H(1)		kidney(1)	1						AAGCGAGTCCCGCTGCTGCCG	0.582													17	38					0	0	0.008871	0	0		T	56143376	T	T	56143376	3	4	12	1	0	0	0	0	1	0	0	0	6327	652	23	1	944	1	GDF11	12	56143376	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4048422	56143376	77708519	784	10259											
ERBB3	2065	broad.mit.edu	37	chr12	56481660	56481660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgctgccatgatgagtgtgCcgggggctgctcaggccctc	4	9	16	12	1	1	2	1	2	0	0	2	2	1	2	3	3	4	3	3	3	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:56481660C>T	uc001sjh.2	+	6	888	c.695C>T	c.(694-696)GCC>GTC	p.A232V	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.A173V|ERBB3_uc001sji.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	232	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			GATGAGTGTGCCGGGGGCTGC	0.547													6	42					0	0	0.004482	0	0		T	56481660	T	T	56481660	3	4	12	1	0	0	0	0	1	0	0	0	5216	739	26	2	848	2	ERBB3	12	56481660	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	338284	56481660	77370235	785	10260											
SMARCC2	6601	broad.mit.edu	37	chr12	56563427	56563427	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagactccaccacttcCttcagcacttcctcctgccc	6	10	3	22	0	2	1	2	0	0	1	6	1	6	1	7	0	2	1	7	0	0	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:56563427C>A	uc001skb.2	-	24	2614	c.2508G>T	c.(2506-2508)AAG>AAT	p.K836N	SMARCC2_uc001skd.2_Missense_Mutation_p.K867N|SMARCC2_uc001ska.2_Missense_Mutation_p.K867N|SMARCC2_uc001skc.2_Missense_Mutation_p.K866N|SMARCC2_uc010sqf.1_Missense_Mutation_p.K756N	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	836	Glu-rich.				chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			ccaccacttccttcagcactt	0.224													6	14					0.00198382	0.00206711	0.001984	1	0		A	56563427	A	A	56563427	3	1	12	1	0	0	0	0	1	0	0	0	14801	680	24	5	1156	5	SMARCC2	12	56563427	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	81767	56563427	77288468	786	10261											
SLC39A5	283375	broad.mit.edu	37	chr12	56629344	56629344	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgaccttctctctgtcagGcacaagaagggcggcacgca	9	7	11	14	2	3	2	1	1	2	1	4	2	3	2	2	3	0	3	2	3	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:56629344G>A	uc010sqj.1	+	8	1062	c.805G>A	c.(805-807)GCA>ACA	p.A269T	SLC39A5_uc010sqi.1_Missense_Mutation_p.A160T|SLC39A5_uc010sqk.1_Missense_Mutation_p.A269T	NM_173596	NP_775867	Q6ZMH5	S39A5_HUMAN	solute carrier family 39 (metal ion	269	Extracellular (Potential).				zinc ion transport	basolateral plasma membrane|integral to membrane	metal ion transmembrane transporter activity			ovary(1)|skin(1)	2						TCTCTGTCAGGCACAAGAAGG	0.587													6	109					0	0	0.001168	0	0		A	56629344	A	A	56629344	3	1	12	1	0	0	0	0	1	0	0	0	14646	1217	42	2	823	2	SLC39A5	12	56629344	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	65917	56629344	77222551	787	10262											
STAT2	6773	broad.mit.edu	37	chr12	56749230	56749230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccacatctactaacctcCatcatagcccttaaatccag	13	10	2	16	0	2	0	1	0	1	0	4	0	4	0	5	0	4	0	5	0	6	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:56749230C>T	uc001slc.2	-	5	546	c.468G>A	c.(466-468)ATG>ATA	p.M156I	STAT2_uc001sld.2_Missense_Mutation_p.M152I|STAT2_uc010sqn.1_Missense_Mutation_p.M152I	NM_005419	NP_005410	P52630	STAT2_HUMAN	signal transducer and activator of transcription	156					interspecies interaction between organisms|JAK-STAT cascade|regulation of transcription from RNA polymerase II promoter|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	cytosol|nucleoplasm|plasma membrane	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						TACTAACCTCCATCATAGCCC	0.522													61	147					0	0	0.00361	0	0		T	56749230	T	T	56749230	3	4	12	1	0	0	0	0	1	0	0	0	15290	594	21	4	2167	4	STAT2	12	56749230	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	119886	56749230	77102665	788	10263											
INHBE	83729	broad.mit.edu	37	chr12	57849901	57849901	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcagcctacagctcccTgctcacttttcacctgtcca	7	12	4	18	0	3	0	3	0	0	0	5	0	5	0	4	0	4	2	4	0	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:57849901T>C	uc001snw.2	+	2	547	c.323T>C	c.(322-324)CTG>CCG	p.L108P		NM_031479	NP_113667	P58166	INHBE_HUMAN	activin beta E precursor	108					growth	extracellular region	growth factor activity|hormone activity			breast(2)|central_nervous_system(1)	3						TACAGCTCCCTGCTCACTTTT	0.572											OREG0021944	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	116					0	0	0.002852	0	0		C	57849901	C	C	57849901	3	2	12	1	0	0	0	0	1	0	0	0	7760	1580	55	3	329	3	INHBE	12	57849901	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1100671	57849901	76001994	789	10264											
GLI1	2735	broad.mit.edu	37	chr12	57864396	57864396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccttggagaagccgagccGagtatccaggatacaacccc	11	6	10	14	2	0	1	0	0	0	1	2	5	2	2	6	2	4	1	6	2	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:57864396G>A	uc001snx.2	+	12	1951	c.1873G>A	c.(1873-1875)GAG>AAG	p.E625K	GLI1_uc009zpq.2_Missense_Mutation_p.E497K	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	625					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			AAGCCGAGCCGAGTATCCAGG	0.602													5	23					0	0	0.001168	0	0		A	57864396	A	A	57864396	3	1	12	1	0	0	0	0	1	0	0	0	6452	1059	37	1	1915	1	GLI1	12	57864396	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	14495	57864396	75987499	790	10265											
MBD6	114785	broad.mit.edu	37	chr12	57920381	57920381	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccagctgcctccaaagccCcagtagtccccagccctgtg	8	6	8	19	0	0	0	0	0	0	0	2	0	2	0	8	0	4	2	8	0	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:57920381C>A	uc001soj.1	+	7	1677	c.1453C>A	c.(1453-1455)CCA>ACA	p.P485T	MBD6_uc001sok.1_Missense_Mutation_p.P352T|MBD6_uc001sol.1_RNA	NM_052897	NP_443129	Q96DN6	MBD6_HUMAN	methyl-CpG binding domain protein 6	485	Pro-rich.					chromosome|nucleus	chromatin binding|DNA binding			central_nervous_system(3)|ovary(1)	4						CTCCAAAGCCCCAGTAGTCCC	0.617													10	33					3.45872e-05	3.69706e-05	0.004007	1	0		A	57920381	A	A	57920381	3	1	12	1	0	0	0	0	1	0	0	0	9366	623	22	5	1471	5	MBD6	12	57920381	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	55985	57920381	75931514	791	10266											
FAM119B	25895	broad.mit.edu	37	chr12	58166907	58166907	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggggatcttggcagcgctGcagggtgcgtgagctggctt	4	10	19	8	2	1	1	0	1	1	0	1	2	1	2	0	5	4	5	0	5	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:58166907G>A	uc001sqg.2	+	2	410	c.285G>A	c.(283-285)CTG>CTA	p.L95L	METTL1_uc010ssd.1_5'Flank|METTL1_uc009zqc.2_5'Flank|FAM119B_uc001sqf.2_Silent_p.L95L|FAM119B_uc009zqd.2_Intron	NM_015433	NP_056248	Q96AZ1	MT21B_HUMAN	hypothetical protein LOC25895 isoform a	95	Helical; (Potential).					integral to membrane|intracellular	methyltransferase activity				0	all_cancers(7;9.07e-82)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					TGGCAGCGCTGCAGGGTGCGT	0.572													15	41					0	0	0.003163	0	0		A	58166907	A	A	58166907	2	1	12	1	0	0	0	0	0	0	0	1	5425	1306	46	2		2	FAM119B	12	58166907	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	246526	58166907	75684988	792	10267											
SRGAP1	57522	broad.mit.edu	37	chr12	64491077	64491077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atattaactcagttgctggcGttctgaagctctatttccgt	8	16	8	9	2	3	1	1	1	2	0	4	1	4	1	1	1	3	4	1	1	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:64491077G>A	uc010ssp.1	+	15	1791	c.1735G>A	c.(1735-1737)GTT>ATT	p.V579I	SRGAP1_uc001srv.2_Missense_Mutation_p.V516I	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	579	Rho-GAP.				axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		AGTTGCTGGCGTTCTGAAGCT	0.363													15	29					0	0	0.004007	0	0		A	64491077	A	A	64491077	3	1	12	1	0	0	0	0	1	0	0	0	15170	1145	40	1	1793	1	SRGAP1	12	64491077	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6324170	64491077	69360818	793	10268											
TMBIM4	51643	broad.mit.edu	37	chr12	66539677	66539677	+	Frame_Shift_Del	DEL	A	-	-																															agagtatacacagtcaaaccAaaaaatactgtagtagtcag																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:66539677delA	uc001stc.2	-	5	484	c.408delT	c.(406-408)TTTfs	p.F136fs	LLPH_uc010ssx.1_RNA|TMBIM4_uc001std.2_Frame_Shift_Del_p.F105fs|TMBIM4_uc009zqr.2_Frame_Shift_Del_p.F183fs|TMBIM4_uc001ste.2_RNA|TMBIM4_uc001stf.2_Frame_Shift_Del_p.F136fs|TMBIM4_uc009zqs.2_Frame_Shift_Del_p.F136fs	NM_016056	NP_057140	Q9HC24	TMBI4_HUMAN	transmembrane BAX inhibitor motif containing 4	136	Helical; (Potential).					integral to membrane	protein binding			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(28;0.0745)		CAGTCAAACCAAAAAATACTG	0.284													16	23	---	---	---	---						.	-	66539677	-	-	66539677	7	5	12	1	0	1	0	1	0	0	0	0	16007	127	5	0	320	0	TMBIM4	12	66539677	Frame_Shift_Del	DEL	A	TCGA-BR-4257-01A-01D-1126-08	2048600	66539677	67312218	794	10269											
TMBIM4	51643	broad.mit.edu	37	chr12	66547166	66547166	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaaagtataaaaaaactgTtgaagtcactgtagttaaga	18	11	7	5	0	2	2	2	1	0	1	2	2	2	2	0	0	1	4	0	0	9	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:66547166T>C	uc001stc.2	-	2	236	c.160A>G	c.(160-162)ACA>GCA	p.T54A	LLPH_uc010ssx.1_RNA|TMBIM4_uc001std.2_Missense_Mutation_p.T23A|TMBIM4_uc009zqr.2_Missense_Mutation_p.T101A|TMBIM4_uc001ste.2_RNA|TMBIM4_uc001stf.2_Missense_Mutation_p.T54A|TMBIM4_uc009zqs.2_Missense_Mutation_p.T54A	NM_016056	NP_057140	Q9HC24	TMBI4_HUMAN	transmembrane BAX inhibitor motif containing 4	54	Helical; (Potential).					integral to membrane	protein binding			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(28;0.0745)		AAAAAAACTGTTGAAGTCACT	0.313													9	32					0	0	0.001368	0	0		C	66547166	C	C	66547166	3	2	12	1	0	0	0	0	1	0	0	0	16007	1725	60	3	580	3	TMBIM4	12	66547166	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	7489	66547166	67304729	795	10270											
HELB	92797	broad.mit.edu	37	chr12	66731962	66731962	+	RNA	DEL	A	-	-																															taacgtcaaagtaccaagatAaaaaaagtttcctataactg																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:66731962delA	uc010ssz.1	+	13		c.3448delA			HELB_uc009zqt.1_RNA			Q8NG08	HELB_HUMAN	Homo sapiens helicase B mRNA, complete cds.						DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		GTACCAAGATAAAAAAAGTTT	0.294													4	8	---	---	---	---						.	-	66731962	-	-	66731962	6	5	12	0	1	1	0	1	0	0	0	0	7061	377	13	0		0	HELB	12	66731962	RNA	DEL	A	TCGA-BR-4257-01A-01D-1126-08	184796	66731962	67119933	796	10271											
YEATS4	8089	broad.mit.edu	37	chr12	69784045	69784045	+	Frame_Shift_Del	DEL	A	-	-																															cgtgaaactataaattgtttAaaaaatgaaatcagaaaact																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:69784045delA	uc001sux.2	+	7	854	c.633delA	c.(631-633)TTAfs	p.L211fs		NM_006530	NP_006521	O95619	YETS4_HUMAN	glioma-amplified sequence-41	211	Interaction with MLLT10.|Potential.|Interaction with TACC1.				histone H2A acetylation|histone H4 acetylation|mitosis|positive regulation of transcription, DNA-dependent|regulation of growth	NuA4 histone acetyltransferase complex|nuclear matrix	DNA binding|protein C-terminus binding|sequence-specific DNA binding transcription factor activity|structural constituent of cytoskeleton				0	all_epithelial(5;9.25e-35)|Breast(13;9.83e-07)|Esophageal squamous(21;0.187)		Epithelial(6;6.89e-18)|BRCA - Breast invasive adenocarcinoma(5;3.14e-09)|Lung(24;9.68e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|OV - Ovarian serous cystadenocarcinoma(12;0.00691)|STAD - Stomach adenocarcinoma(21;0.0151)|LUSC - Lung squamous cell carcinoma(43;0.24)|Kidney(9;0.241)			TAAATTGTTTAAAAAATGAAA	0.323													19	36	---	---	---	---						.	-	69784045	-	-	69784045	7	5	12	1	0	1	0	1	0	0	0	0	17499	359	13	0	659	0	YEATS4	12	69784045	Frame_Shift_Del	DEL	A	TCGA-BR-4257-01A-01D-1126-08	3052083	69784045	64067850	797	10272											
PTPRR	5801	broad.mit.edu	37	chr12	71139707	71139707	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagggtccacgacaacatTcagtacctttggggcctgct	8	11	11	11	1	1	1	1	1	0	0	2	2	2	1	3	3	3	2	3	3	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:71139707T>C	uc001swi.1	-	6	1314	c.898A>G	c.(898-900)AAT>GAT	p.N300D	PTPRR_uc001swh.1_Missense_Mutation_p.N55D|PTPRR_uc009zrs.2_Missense_Mutation_p.N149D|PTPRR_uc010stq.1_Missense_Mutation_p.N188D|PTPRR_uc010str.1_Missense_Mutation_p.N149D	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	300	Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		ACGACAACATTCAGTACCTTT	0.542													8	29					0	0	0.006214	0	0		C	71139707	C	C	71139707	3	2	12	1	0	0	0	0	1	0	0	0	12835	1783	62	3	1111	3	PTPRR	12	71139707	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1355662	71139707	62712188	798	10273											
LGR5	8549	broad.mit.edu	37	chr12	71977612	71977612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgaacatgctcacgggaGtctccagtgccgtgctggct	7	9	13	12	2	2	1	1	1	1	0	3	2	2	2	2	2	4	3	2	2	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:71977612G>A	uc001swl.2	+	18	1870	c.1822G>A	c.(1822-1824)GTC>ATC	p.V608I	LGR5_uc001swm.2_Missense_Mutation_p.V584I|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	608	Helical; Name=2; (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						GCTCACGGGAGTCTCCAGTGC	0.512													9	22					0	0	0.00245	0	0		A	71977612	A	A	71977612	3	1	12	1	0	0	0	0	1	0	0	0	8773	1029	36	4	1892	4	LGR5	12	71977612	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	837905	71977612	61874283	799	10274											
TRHDE	29953	broad.mit.edu	37	chr12	72667257	72667257	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcgcagaggaattacaatctGaagattatctacaacgcgct	14	9	9	9	3	2	3	0	1	2	2	2	4	2	4	0	1	3	2	0	1	7	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:72667257G>A	uc001sxa.2	+	1	729	c.699G>A	c.(697-699)CTG>CTA	p.L233L	LOC283392_uc010stv.1_5'UTR	NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	233	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						ATTACAATCTGAAGATTATCT	0.557													21	42					0	0	0.003954	0	0		A	72667257	A	A	72667257	2	1	12	1	0	0	0	0	0	0	0	1	16505	1277	45	4		4	TRHDE	12	72667257	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	689645	72667257	61184638	800	10275											
MYF5	4617	broad.mit.edu	37	chr12	81110900	81110900	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacttctacgacggctccTgcataccgtcccccgagggt	7	9	10	15	4	1	0	0	0	1	0	3	2	3	0	4	2	4	3	4	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:81110900T>A	uc001szg.2	+	1	193	c.58T>A	c.(58-60)TGC>AGC	p.C20S		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	20					muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						CGACGGCTCCTGCATACCGTC	0.617													6	10					0	0	0.00308	0	0		A	81110900	A	A	81110900	3	1	12	1	0	0	0	0	1	0	0	0	10045	1580	55	5	60	5	MYF5	12	81110900	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	8443643	81110900	52740995	801	10276											
CEP290	80184	broad.mit.edu	37	chr12	88472895	88472895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctctagtatgtcgatcaaCgatttgttgaacattgagat	11	15	8	7	2	2	2	1	2	1	1	4	5	2	2	0	0	2	2	0	0	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:88472895C>T	uc001tar.2	-	39	5682	c.5338G>A	c.(5338-5340)GTT>ATT	p.V1780I	CEP290_uc001taq.2_Missense_Mutation_p.V840I	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1780	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						TGTCGATCAACGATTTGTTGA	0.373													5	16					0	0	0.001168	0	0		T	88472895	T	T	88472895	3	4	12	1	0	0	0	0	1	0	0	0	3256	536	19	1	2165	1	CEP290	12	88472895	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	7361995	88472895	45379000	802	10277											
NR2C1	7181	broad.mit.edu	37	chr12	95442864	95442864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgaaagctacatgtgaatCgctgagaagtggcccctctt	10	10	10	11	1	1	3	0	3	1	1	2	4	1	3	3	1	2	2	3	1	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:95442864C>T	uc001tdm.3	-	9	1367	c.1111G>A	c.(1111-1113)GAT>AAT	p.D371N	NR2C1_uc010suu.1_Missense_Mutation_p.D371N|NR2C1_uc001tdo.3_Missense_Mutation_p.D371N|NR2C1_uc001tdn.3_Missense_Mutation_p.D371N	NM_003297	NP_003288	P13056	NR2C1_HUMAN	nuclear receptor subfamily 2, group C, member 1	371					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	PML body	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1						ACATGTGAATCGCTGAGAAGT	0.393													12	35					0	0	0.001855	0	0		T	95442864	T	T	95442864	3	4	12	1	0	0	0	0	1	0	0	0	10641	884	31	1	802	1	NR2C1	12	95442864	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	6969969	95442864	38409031	803	10278											
CCDC38	120935	broad.mit.edu	37	chr12	96292234	96292234	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtttgtttattgtttcCtgtgctgccctgaaaagcaa	8	16	10	7	0	0	1	0	1	0	0	1	2	1	2	2	1	3	5	2	1	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:96292234C>A	uc001tek.1	-	7	777	c.543G>T	c.(541-543)CAG>CAT	p.Q181H		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	181	Potential.									skin(1)	1						TTATTGTTTCCTGTGCTGCCC	0.403													21	67					1.10923e-09	1.23298e-09	0.00278	1	0		A	96292234	A	A	96292234	3	1	12	1	0	0	0	0	1	0	0	0	2813	680	24	5	1188	5	CCDC38	12	96292234	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	849370	96292234	37559661	804	10279											
APAF1	317	broad.mit.edu	37	chr12	99076985	99076985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcactcagagcaagtcaattGctgccatttcaccaacagta	13	9	7	12	0	3	1	3	0	0	1	3	1	3	1	2	0	4	4	2	0	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:99076985G>A	uc001tfz.2	+	15	2688	c.2111G>A	c.(2110-2112)TGC>TAC	p.C704Y	APAF1_uc001tfy.2_Missense_Mutation_p.C693Y|APAF1_uc001tga.2_Missense_Mutation_p.C693Y|APAF1_uc001tgb.2_Missense_Mutation_p.C704Y|APAF1_uc001tgc.2_Intron|APAF1_uc009zto.2_Missense_Mutation_p.C113Y	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	704	WD 3.				activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	CAAGTCAATTGCTGCCATTTC	0.378													20	41					0	0	0.008871	0	0		A	99076985	A	A	99076985	3	1	12	1	0	0	0	0	1	0	0	0	755	1319	46	2	2165	2	APAF1	12	99076985	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2784751	99076985	34774910	805	10280											
NR1H4	9971	broad.mit.edu	37	chr12	100957089	100957089	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggagccacttcttgatgTgctacaaaagttgtgtaaga	12	12	10	7	0	2	2	1	1	1	1	2	3	2	3	1	1	3	3	1	1	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:100957089T>C	uc001tht.1	+	9	1311	c.1283T>C	c.(1282-1284)GTG>GCG	p.V428A	NR1H4_uc001thp.1_Missense_Mutation_p.V414A|NR1H4_uc001thq.1_Missense_Mutation_p.V418A|NR1H4_uc010svj.1_RNA|NR1H4_uc001thr.1_Missense_Mutation_p.V418A|NR1H4_uc010svk.1_Missense_Mutation_p.V367A|NR1H4_uc001ths.1_Missense_Mutation_p.V424A	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	428	Ligand-binding.				bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						CTTCTTGATGTGCTACAAAAG	0.388													12	32					0	0	0.00499	0	0		C	100957089	C	C	100957089	3	2	12	1	0	0	0	0	1	0	0	0	10638	1696	59	3	1275	3	NR1H4	12	100957089	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1880104	100957089	32894806	806	10281											
GAS2L3	283431	broad.mit.edu	37	chr12	101005888	101005888	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagggacattggggttgaTgaaacttacctctttgaatc	10	14	11	6	0	1	3	0	3	1	0	2	4	1	4	1	3	2	2	1	3	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:101005888T>C	uc001thu.2	+	6	640	c.414T>C	c.(412-414)GAT>GAC	p.D138D	GAS2L3_uc009zty.2_Silent_p.D138D|GAS2L3_uc001thv.2_Silent_p.D34D	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	138	CH.				cell cycle arrest					skin(1)	1						TTGGGGTTGATGAAACTTACC	0.393													21	61					0	0	0.003954	0	0		C	101005888	C	C	101005888	2	2	12	1	0	0	0	0	0	0	0	1	6263	1461	51	3		3	GAS2L3	12	101005888	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	48799	101005888	32846007	807	10282											
IGF1	3479	broad.mit.edu	37	chr12	102811694	102811694	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcagacttgcttctgtccCctccttctgttcccctcctg	2	15	6	18	0	2	1	0	0	2	1	6	1	6	1	6	0	2	3	6	0	0	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:102811694C>A	uc001tjp.3	-	4	709	c.490G>T	c.(490-492)GGG>TGG	p.G164W	IGF1_uc001tjn.2_Intron|IGF1_uc001tjm.2_Intron|IGF1_uc001tjo.2_Intron	NM_001111285	NP_001104755	P05019	IGF1_HUMAN	insulin-like growth factor 1 isoform 3	164					anti-apoptosis|bone mineralization involved in bone maturation|cellular component movement|DNA replication|glycolate metabolic process|muscle hypertrophy|myoblast differentiation|myoblast proliferation|myotube cell development|negative regulation of smooth muscle cell apoptosis|phosphatidylinositol-mediated signaling|platelet activation|platelet degranulation|positive regulation of activated T cell proliferation|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis|positive regulation of osteoblast differentiation|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of Ras protein signal transduction|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tyrosine phosphorylation of Stat5 protein|Ras protein signal transduction|regulation of multicellular organism growth|satellite cell maintenance involved in skeletal muscle regeneration	platelet alpha granule lumen	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|integrin binding			central_nervous_system(1)|pancreas(1)	2						GCTTCTGTCCCCTCCTTCTGT	0.468													7	164					0.00198382	0.00206711	0.001984	1	0		A	102811694	A	A	102811694	3	1	12	1	0	0	0	0	1	0	0	0	7586	623	22	5	165	5	IGF1	12	102811694	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1805806	102811694	31040201	808	10283											
RIC8B	55188	broad.mit.edu	37	chr12	107254141	107254141	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggagataattggtacTcagaggatgaggacacagac	16	6	14	5	0	1	5	1	1	0	4	1	9	1	7	0	4	1	1	0	4	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:107254141T>G	uc001tlx.2	+	8	1527	c.1402T>G	c.(1402-1404)TCA>GCA	p.S468A	RIC8B_uc001tlw.2_Missense_Mutation_p.S468A|RIC8B_uc001tly.2_Missense_Mutation_p.S428A|RIC8B_uc001tlz.2_RNA|RIC8B_uc009zur.2_RNA	NM_018157	NP_060627	Q9NVN3	RIC8B_HUMAN	resistance to inhibitors of cholinesterase 8	468					regulation of G-protein coupled receptor protein signaling pathway	cell cortex|cytosol|plasma membrane	G-protein alpha-subunit binding|guanyl-nucleotide exchange factor activity			ovary(1)	1						TAATTGGTACTCAGAGGATGA	0.458													13	24					0	0	0.001855	0	0		G	107254141	G	G	107254141	3	3	12	1	0	0	0	0	1	0	0	0	13381	1551	54	5	1432	5	RIC8B	12	107254141	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	4442447	107254141	26597754	809	10284											
ISCU	23479	broad.mit.edu	37	chr12	108958107	108958107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggggtcccttgacaagacatCtaaaaatgttggaactggac	13	9	11	8	0	1	2	0	1	1	1	2	4	2	4	1	4	1	1	1	4	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:108958107C>T	uc010sxc.1	+	2	272	c.167C>T	c.(166-168)TCT>TTT	p.S56F	SART3_uc001tmz.1_5'Flank|SART3_uc009zux.1_5'Flank|SART3_uc010swx.1_5'Flank|SART3_uc010swz.1_5'Flank|SART3_uc001tna.1_5'Flank|SART3_uc001tnb.2_5'Flank|ISCU_uc010sxa.1_Missense_Mutation_p.S56F|ISCU_uc010sxb.1_Missense_Mutation_p.S56F|ISCU_uc001tnc.3_Missense_Mutation_p.S31F|ISCU_uc009zuy.2_Missense_Mutation_p.S31F|ISCU_uc010sxd.1_Missense_Mutation_p.S56F	NM_213595	NP_998760	Q9H1K1	ISCU_HUMAN	iron-sulfur cluster assembly enzyme isoform	56					iron-sulfur cluster assembly|nitrogen fixation	cytosol|mitochondrion|nucleus	iron ion binding|iron-sulfur cluster binding|protein complex scaffold				0						GACAAGACATCTAAAAATGTT	0.383													10	26					0	0	0.000978	0	0		T	108958107	T	T	108958107	3	4	12	1	0	0	0	0	1	0	0	0	7868	913	32	4	98	4	ISCU	12	108958107	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1703966	108958107	24893788	810	10285											
TRPV4	59341	broad.mit.edu	37	chr12	110226433	110226433	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgaaggtctcgctgtcacgGcacgaggggtaagtgggcac	8	7	16	10	3	2	1	1	1	1	0	3	2	2	1	0	5	0	4	0	5	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:110226433G>A	uc001tpj.1	-	12	2075	c.1980C>T	c.(1978-1980)TGC>TGT	p.C660C	TRPV4_uc001tpg.1_Silent_p.C626C|TRPV4_uc001tph.1_Silent_p.C613C|TRPV4_uc001tpi.1_Silent_p.C553C|TRPV4_uc001tpk.1_Silent_p.C660C|TRPV4_uc001tpl.1_Silent_p.C600C	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	660					actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CGCTGTCACGGCACGAGGGGT	0.597													17	45					0	0	0.007413	0	0		A	110226433	A	A	110226433	2	1	12	1	0	0	0	0	0	0	0	1	16624	1195	42	2		2	TRPV4	12	110226433	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1268326	110226433	23625462	811	10286											
VPS29	51699	broad.mit.edu	37	chr12	110933822	110933822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggaaatacatcacctcatCgaagtctcctctcacaatat	14	10	5	12	1	4	0	3	0	2	0	7	2	4	1	2	1	1	0	2	1	5	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:110933822C>T	uc001tqy.2	-	2	250	c.190G>A	c.(190-192)GAT>AAT	p.D64N	VPS29_uc001tqw.2_RNA|VPS29_uc001tqx.2_Missense_Mutation_p.D68N|VPS29_uc001tqz.2_RNA	NM_016226	NP_057310	Q9UBQ0	VPS29_HUMAN	vacuolar protein sorting 29 isoform 1	64					protein transport	endosome membrane	metal ion binding|phosphoserine phosphatase activity				0						ATCACCTCATCGAAGTCTCCT	0.398													11	35					0	0	0.003163	0	0		T	110933822	T	T	110933822	3	4	12	1	0	0	0	0	1	0	0	0	17226	884	31	1	370	1	VPS29	12	110933822	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	707389	110933822	22918073	812	10287											
PLBD2	196463	broad.mit.edu	37	chr12	113825620	113825620	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcccaatggggagaatgCtatctccgcccgctccgacc	8	6	10	17	3	1	1	0	0	1	1	3	3	2	1	6	2	2	2	6	2	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:113825620C>A	uc001tve.2	+	11	1546	c.1511C>A	c.(1510-1512)GCT>GAT	p.A504D	PLBD2_uc001tvf.2_Missense_Mutation_p.A472D	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	504					lipid catabolic process	lysosomal lumen	hydrolase activity				0						GGGGAGAATGCTATCTCCGCC	0.597													36	115					3.43241e-23	3.96719e-23	0.009718	1	0		A	113825620	A	A	113825620	3	1	12	1	0	0	0	0	1	0	0	0	12045	797	28	5	1553	5	PLBD2	12	113825620	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2891798	113825620	20026275	813	10288											
CCDC60	160777	broad.mit.edu	37	chr12	119773072	119773072	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctcggagaacctaaggcagGtaagtctcccctctgctgaa	10	8	10	13	1	2	2	0	1	2	1	4	3	2	2	4	3	2	3	4	3	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:119773072G>C	uc001txe.2	+	1	555	c.90_splice	c.e1+1	p.Q30_splice		NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60											ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		CCTAAGGCAGGTAAGTCTCCC	0.373													14	24					0	0	0.006122	0	0		C	119773072	C	C	119773072	5	2	12	1	0	0	0	0	0	0	1	0	2834	1275	44	5	93	5	CCDC60	12	119773072	Splice_Site	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5947452	119773072	14078823	814	10289											
UNC119B	84747	broad.mit.edu	37	chr12	121154782	121154782	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttgattttggcttctgcAtccccagcagtaggaacact	9	13	8	11	0	1	1	0	1	1	0	2	2	2	2	2	2	3	4	2	2	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:121154782A>G	uc001tyz.2	+	4	1027	c.580A>G	c.(580-582)ATC>GTC	p.I194V		NM_001080533	NP_001074002	A6NIH7	U119B_HUMAN	unc-119 homolog B	194										haematopoietic_and_lymphoid_tissue(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TGGCTTCTGCATCCCCAGCAG	0.458													16	59					0	0	0.006122	0	0		G	121154782	G	G	121154782	3	3	12	1	0	0	0	0	1	0	0	0	17009	217	8	3	594	3	UNC119B	12	121154782	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1381710	121154782	12697113	815	10290											
B3GNT4	79369	broad.mit.edu	37	chr12	122691078	122691078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccctgcctagccgtcacCgtctcttcttgacctatcgt	4	14	7	16	3	3	1	1	1	2	0	6	1	4	1	5	0	2	0	5	0	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:122691078C>T	uc001ubx.2	+	3	498	c.280C>T	c.(280-282)CGT>TGT	p.R94C	B3GNT4_uc001uby.2_Missense_Mutation_p.R69C	NM_030765	NP_110392	Q9C0J1	B3GN4_HUMAN	UDP-GlcNAc:betaGal	94	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000297)|Epithelial(86;0.000497)|BRCA - Breast invasive adenocarcinoma(302;0.222)		TAGCCGTCACCGTCTCTTCTT	0.577													39	114					0	0	0.00361	0	0		T	122691078	T	T	122691078	3	4	12	1	0	0	0	0	1	0	0	0	1260	652	23	1	286	1	B3GNT4	12	122691078	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1536296	122691078	11160817	816	10291											
GPR109A	338442	broad.mit.edu	37	chr12	123187233	123187233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaacaggatgatgcccagggGcaggaagaactccaggagga	14	3	16	8	0	0	2	0	1	0	1	1	7	1	6	2	6	3	1	2	6	3	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:123187233G>A	uc001ucx.1	-	1	672	c.598C>T	c.(598-600)CCC>TCC	p.P200S	GPR81_uc001ucw.1_Intron	NM_177551	NP_808219	Q8TDS4	HCAR2_HUMAN	G protein-coupled receptor 109A	200	Helical; Name=5; (Potential).				negative regulation of lipid catabolic process|neutrophil apoptosis|positive regulation of adiponectin secretion|positive regulation of neutrophil apoptosis	integral to membrane|plasma membrane	nicotinic acid receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	ATGCCCAGGGGCAGGAAGAAC	0.542													19	36					0	0	0.002299	0	0		A	123187233	A	A	123187233	3	1	12	1	0	0	0	0	1	0	0	0	6640	1203	42	2	497	2	GPR109A	12	123187233	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	496155	123187233	10664662	817	10292											
SBNO1	55206	broad.mit.edu	37	chr12	123810084	123810084	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcattcaattctcccccGccctcttccaaagcttctaa	11	12	2	16	1	5	0	2	0	3	0	7	0	6	0	4	0	1	1	4	0	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:123810084G>A	uc010tap.1	-	14	1938	c.1938C>T	c.(1936-1938)GGC>GGT	p.G646G	SBNO1_uc010tao.1_Silent_p.G645G|SBNO1_uc010taq.1_Intron|SBNO1_uc001uet.2_Silent_p.G646G|SBNO1_uc001ueu.2_Silent_p.G645G|SBNO1_uc001uev.2_Silent_p.G644G|SBNO1_uc009zxy.1_Silent_p.G611G	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	646							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		ATTCTCCCCCGCCCTCTTCCA	0.338													40	80					0	0	0.00361	0	0		A	123810084	A	A	123810084	2	1	12	1	0	0	0	0	0	0	0	1	13887	1074	38	1		1	SBNO1	12	123810084	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	622851	123810084	10041811	818	10293											
DDX55	57696	broad.mit.edu	37	chr12	124092063	124092063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttcacgaagcacttccccGagttcaggtgaattggatgc	10	11	10	10	2	2	1	2	1	0	0	3	4	3	2	2	2	2	2	2	2	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:124092063G>A	uc001ufi.2	+	4	355	c.331G>A	c.(331-333)GAG>AAG	p.E111K	DDX55_uc001ufh.2_5'UTR|DDX55_uc001ufj.1_Intron|DDX55_uc001ufk.2_5'UTR	NM_020936	NP_065987	Q8NHQ9	DDX55_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 55	111	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000142)|Epithelial(86;0.000637)|all cancers(50;0.00772)		GCACTTCCCCGAGTTCAGGTG	0.488													15	35					0	0	0.004007	0	0		A	124092063	A	A	124092063	3	1	12	1	0	0	0	0	1	0	0	0	4376	1059	37	1	345	1	DDX55	12	124092063	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	281979	124092063	9759832	819	10294											
EP400	57634	broad.mit.edu	37	chr12	132446241	132446241	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagattcccccagcctctccGgagatggcacagatgaggaa	11	6	12	12	1	1	4	0	1	1	3	3	7	2	5	4	3	1	1	4	3	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:132446241G>A	uc001ujn.2	+	1	1112	c.1077G>A	c.(1075-1077)CCG>CCA	p.P359P	EP400_uc001ujl.2_Silent_p.P359P|EP400_uc001ujm.2_Silent_p.P359P|EP400_uc001ujj.1_Silent_p.P359P|EP400_uc001ujk.2_Silent_p.P359P	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	359					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CAGCCTCTCCGGAGATGGCAC	0.532													4	27					0	0	0.009096	0	0		A	132446241	A	A	132446241	2	1	12	1	0	0	0	0	0	0	0	1	5157	1103	39	1		1	EP400	12	132446241	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	8354178	132446241	1405654	820	10295											
P2RX2	22953	broad.mit.edu	37	chr12	133197638	133197638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgtgacctggacctgcctGcatcggagtgcaaccccaag	9	7	11	14	1	0	1	0	1	0	0	1	3	0	3	5	2	4	2	5	2	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr12:133197638G>A	uc001ukj.1	+	8	826	c.826G>A	c.(826-828)GCA>ACA	p.A276T	P2RX2_uc001uki.1_Missense_Mutation_p.A276T|P2RX2_uc001ukk.1_Missense_Mutation_p.A276T|P2RX2_uc001ukl.1_Missense_Mutation_p.A252T|P2RX2_uc001ukm.1_Missense_Mutation_p.A204T|P2RX2_uc001ukn.1_Missense_Mutation_p.A184T|P2RX2_uc009zyt.1_Missense_Mutation_p.A276T|P2RX2_uc001uko.1_Missense_Mutation_p.A242T	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	276	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		GGACCTGCCTGCATCGGAGTG	0.607													10	34					0	0	0.003163	0	0		A	133197638	A	A	133197638	3	1	12	1	0	0	0	0	1	0	0	0	11359	1319	46	2	856	2	P2RX2	12	133197638	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	751397	133197638	654257	821	10296											
MPHOSPH8	54737	broad.mit.edu	37	chr13	20242596	20242596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaaccagtttttccaatcGcatgtcatcgactctgtgag	10	13	8	10	2	2	2	1	1	1	1	5	3	3	2	2	0	1	2	2	0	3	3	rs145688067		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:20242596G>A	uc001umh.2	+	11	2263	c.2254G>A	c.(2254-2256)GCA>ACA	p.A752T	MPHOSPH8_uc001umg.2_Missense_Mutation_p.A752T	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	752					cell cycle	cytoplasm|nucleus					0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		TTTTCCAATCGCATGTCATCG	0.418													14	47					0	0	0.003163	0	0		A	20242596	A	A	20242596	3	1	12	1	0	0	0	0	1	0	0	0	9745	1087	38	1	2296	1	MPHOSPH8	13	20242596	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08		20242596	94927282	822	10297											
GJB6	10804	broad.mit.edu	37	chr13	20797345	20797345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtagtaggccacatgcatgGccaccagcagcgctggggtg	8	7	15	11	1	0	0	0	0	0	0	0	0	0	0	3	4	3	5	3	4	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:20797345G>A	uc001umz.3	-	3	828	c.275C>T	c.(274-276)GCC>GTC	p.A92V	GJB6_uc001unc.3_Missense_Mutation_p.A92V|GJB6_uc001una.3_Missense_Mutation_p.A92V|GJB6_uc001und.3_Missense_Mutation_p.A92V|GJB6_uc001unb.3_Missense_Mutation_p.A92V	NM_006783	NP_006774	O95452	CXB6_HUMAN	gap junction protein, beta 6	92	Helical; (Potential).				cell communication|sensory perception of sound	connexon complex|integral to membrane|intracellular membrane-bounded organelle				ovary(1)	1		all_cancers(29;2.04e-22)|all_epithelial(30;1.19e-19)|all_lung(29;2.27e-18)|Lung SC(185;0.0257)|Ovarian(182;0.0822)		all cancers(112;2.17e-05)|Epithelial(112;0.00075)|OV - Ovarian serous cystadenocarcinoma(117;0.00978)|Lung(94;0.0238)|GBM - Glioblastoma multiforme(144;0.0323)|LUSC - Lung squamous cell carcinoma(192;0.0744)		CACATGCATGGCCACCAGCAG	0.527													4	25					0	0	0.000602	0	0		A	20797345	A	A	20797345	3	1	12	1	0	0	0	0	1	0	0	0	6427	1203	42	2	514	2	GJB6	13	20797345	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	554749	20797345	94372533	823	10298											
EFHA1	221154	broad.mit.edu	37	chr13	22070218	22070218	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggacgatgagctaaacTgaacatctgcatggcaatag	15	7	11	8	1	1	2	0	2	1	0	1	5	1	3	0	2	4	3	0	2	5	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:22070218T>C	uc001uof.2	-	10	1037	c.1015A>G	c.(1015-1017)AGT>GGT	p.S339G	EFHA1_uc010tct.1_Missense_Mutation_p.S129G	NM_152726	NP_689939	Q8IYU8	EFHA1_HUMAN	EF-hand domain family, member A1	339							calcium ion binding				0		all_cancers(29;1.24e-15)|all_epithelial(30;5.4e-14)|all_lung(29;2.04e-13)|Lung SC(185;0.0367)		all cancers(112;0.000171)|Epithelial(112;0.000398)|OV - Ovarian serous cystadenocarcinoma(117;0.00641)|Lung(94;0.189)		TGAGCTAAACTGAACATCTGC	0.313													9	34					0	0	0.008291	0	0		C	22070218	C	C	22070218	3	2	12	1	0	0	0	0	1	0	0	0	4949	1580	55	3	301	3	EFHA1	13	22070218	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1272873	22070218	93099660	824	10299											
SGCG	6445	broad.mit.edu	37	chr13	23824814	23824814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaatgtgactgtaaatGcgcgcaactcagaaggggag	13	6	13	9	2	1	3	1	1	0	2	1	4	1	4	1	2	2	2	1	2	5	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:23824814G>A	uc001uom.2	+	4	498	c.343G>A	c.(343-345)GCG>ACG	p.A115T	SGCG_uc009zzv.2_Missense_Mutation_p.A115T|SGCG_uc009zzw.2_Missense_Mutation_p.A115T	NM_000231	NP_000222	Q13326	SGCG_HUMAN	gamma sarcoglycan	115	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0		all_cancers(29;4.34e-23)|all_epithelial(30;4.4e-19)|all_lung(29;2.45e-18)|Lung SC(185;0.0228)|Breast(139;0.188)		all cancers(112;0.00255)|Epithelial(112;0.0129)|OV - Ovarian serous cystadenocarcinoma(117;0.0365)|Lung(94;0.205)		GACTGTAAATGCGCGCAACTC	0.403													13	31					0	0	0.003163	0	0		A	23824814	A	A	23824814	3	1	12	1	0	0	0	0	1	0	0	0	14228	1319	46	2	353	2	SGCG	13	23824814	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1754596	23824814	91345064	825	10300											
C1QTNF9	338872	broad.mit.edu	37	chr13	24890284	24890284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagagatggacgagacggagCgaagggtgacaaaggcgatg	15	3	18	5	4	0	3	0	1	0	2	0	9	0	5	0	4	1	0	0	4	3	0	rs143537751		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:24890284C>T	uc001upj.2	+	2	204	c.143C>T	c.(142-144)GCG>GTG	p.A48V	C1QTNF9_uc001upe.2_RNA	NM_178540	NP_848635	P0C862	C1T9A_HUMAN	C1q and tumor necrosis factor related protein 9	48	Collagen-like 1.					collagen	hormone activity				0		all_cancers(29;3.55e-20)|all_epithelial(30;4.25e-17)|all_lung(29;1.04e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.00565)|Epithelial(112;0.027)|OV - Ovarian serous cystadenocarcinoma(117;0.115)|Lung(94;0.159)		CGAGACGGAGCGAAGGGTGAC	0.542													8	32					0	0	0.001855	0	0		T	24890284	T	T	24890284	3	4	12	1	0	0	0	0	1	0	0	0	1973	768	27	1	145	1	C1QTNF9	13	24890284	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1065470	24890284	90279594	826	10301											
ATP12A	479	broad.mit.edu	37	chr13	25262595	25262595	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatcctcctgtgggtgggcGcctttctctgttggattgca	3	15	12	11	1	1	0	0	0	1	0	4	1	3	1	3	3	1	2	3	3	1	4	rs149324896		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:25262595G>A	uc001upp.2	+	4	554	c.367G>A	c.(367-369)GCC>ACC	p.A123T	ATP12A_uc010aaa.2_Missense_Mutation_p.A123T	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	123	Helical; (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	GTGGGTGGGCGCCTTTCTCTG	0.572													57	202					0	0	0.00361	0	0		A	25262595	A	A	25262595	3	1	12	1	0	0	0	0	1	0	0	0	1123	1087	38	1	381	1	ATP12A	13	25262595	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	372311	25262595	89907283	827	10302											
GSX1	219409	broad.mit.edu	37	chr13	28367816	28367816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatgtacctgtcccgcctaCgtcgcatcgagatcgcgacc	8	9	9	15	6	0	1	0	0	0	1	4	3	1	1	4	0	2	2	4	0	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:28367816C>T	uc001urr.1	+	2	574	c.526C>T	c.(526-528)CGT>TGT	p.R176C		NM_145657	NP_663632	Q9H4S2	GSX1_HUMAN	GS homeobox 1	176	Homeobox.				positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung SC(185;0.0161)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0402)|all cancers(112;0.0404)|OV - Ovarian serous cystadenocarcinoma(117;0.197)		GTCCCGCCTACGTCGCATCGA	0.582													15	66					0	0	0.010504	0	0		T	28367816	T	T	28367816	3	4	12	1	0	0	0	0	1	0	0	0	6865	536	19	1	532	1	GSX1	13	28367816	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3105221	28367816	86802062	828	10303											
PAN3	255967	broad.mit.edu	37	chr13	28834653	28834653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatgcaaccgaaagcaaacGcaccttccttcttcatggct	12	10	6	13	2	2	0	1	0	1	0	3	1	3	0	3	1	4	4	3	1	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:28834653G>A	uc001urz.2	+	7	888	c.880G>A	c.(880-882)GCA>ACA	p.A294T	PAN3_uc010tdo.1_Missense_Mutation_p.A440T|PAN3_uc001ury.2_Missense_Mutation_p.A128T|PAN3_uc001urx.2_Missense_Mutation_p.A240T	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	440	Interaction with polyadenylate-binding protein.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		GAAAGCAAACGCACCTTCCTT	0.418													6	70					0	0	0.001984	0	0		A	28834653	A	A	28834653	3	1	12	1	0	0	0	0	1	0	0	0	11434	1087	38	1	1348	1	PAN3	13	28834653	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	466837	28834653	86335225	829	10304											
RXFP2	122042	broad.mit.edu	37	chr13	32366011	32366011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgtatgcccttgacggacgGcatttcttcatttgaggacc	8	13	10	10	2	2	2	1	2	1	0	2	4	2	4	2	3	1	2	2	3	1	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:32366011G>A	uc001utt.2	+	15	1285	c.1214G>A	c.(1213-1215)GGC>GAC	p.G405D	RXFP2_uc010aba.2_Missense_Mutation_p.G364D	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	405	Extracellular (Potential).					integral to membrane|plasma membrane					0		Lung SC(185;0.0262)		all cancers(112;0.000559)|Epithelial(112;0.0017)|OV - Ovarian serous cystadenocarcinoma(117;0.0145)|BRCA - Breast invasive adenocarcinoma(63;0.0535)		TTGACGGACGGCATTTCTTCA	0.393													18	41					0	0	0.007413	0	0		A	32366011	A	A	32366011	3	1	12	1	0	0	0	0	1	0	0	0	13785	1203	42	2	1272	2	RXFP2	13	32366011	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3531358	32366011	82803867	830	10305											
SPG20	23111	broad.mit.edu	37	chr13	36909438	36909438	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagtgaccttcagcagctTgaggagtataagcaggagga	12	9	14	6	0	1	2	1	2	0	0	1	5	1	5	1	3	3	5	1	3	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:36909438T>C	uc001uvn.2	-	3	800	c.530A>G	c.(529-531)CAA>CGA	p.Q177R	SPG20_uc010ten.1_Missense_Mutation_p.Q177R|SPG20_uc001uvm.2_Missense_Mutation_p.Q177R|SPG20_uc001uvo.2_Missense_Mutation_p.Q177R|SPG20_uc001uvq.2_Missense_Mutation_p.Q177R|SPG20_uc001uvp.2_Missense_Mutation_p.Q177R	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	177					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		TTCAGCAGCTTGAGGAGTATA	0.483													10	35					0	0	0.004007	0	0		C	36909438	C	C	36909438	3	2	12	1	0	0	0	0	1	0	0	0	15067	1812	63	3	1502	3	SPG20	13	36909438	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	4543427	36909438	78260440	831	10306											
C13orf23	80209	broad.mit.edu	37	chr13	39587850	39587850	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatagcacttgttaggggcTgaagcagaagagtcagagtt	12	9	14	6	0	1	4	1	1	0	3	1	4	1	4	0	2	2	6	0	2	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:39587850T>C	uc001uwy.2	-	11	2412	c.1539A>G	c.(1537-1539)TCA>TCG	p.S513S	C13orf23_uc001uwz.2_Silent_p.S491S	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	513	Ser-rich.									ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		TGTTAGGGGCTGAAGCAGAAG	0.532													21	71					0	0	0.001882	0	0		C	39587850	C	C	39587850	2	2	12	1	0	0	0	0	0	0	0	1	1724	1567	55	3		3	C13orf23	13	39587850	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	2678412	39587850	75582028	832	10307											
NAA16	79612	broad.mit.edu	37	chr13	41943312	41943312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactagaagaagaaagaaagCatgcagaaagagaacgtcaa	23	3	10	5	1	1	6	1	0	0	6	1	7	1	6	0	0	4	2	0	0	9	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:41943312C>T	uc001uyf.2	+	15	2164	c.1840C>T	c.(1840-1842)CAT>TAT	p.H614Y	NAA16_uc010tfg.1_RNA	NM_024561	NP_078837	Q6N069	NAA16_HUMAN	NMDA receptor regulated 1-like protein isoform	614					N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent	cytoplasm|transcription factor complex	binding			central_nervous_system(1)	1						agaaagaaagcatgcagaaag	0.214													26	69					0	0	0.003954	0	0		T	41943312	T	T	41943312	3	4	12	1	0	0	0	0	1	0	0	0	10137	710	25	2	1931	2	NAA16	13	41943312	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2355462	41943312	73226566	833	10308											
TPT1	7178	broad.mit.edu	37	chr13	45914128	45914128	+	Splice_Site	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtactgccagtatcacttaCgatttcatgtaatctttgat	10	16	7	8	1	3	1	2	1	1	0	3	2	3	1	1	1	3	3	1	1	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:45914128C>A	uc001uzy.1	-	3	386	c.293_splice	c.e3+1	p.S98_splice	TPT1_uc001uzz.1_Splice_Site_p.S64_splice|SNORA31_uc001vaa.1_5'Flank|LOC100190939_uc010tfr.1_5'Flank|LOC100190939_uc001vac.2_5'Flank	NM_003295	NP_003286	P13693	TCTP_HUMAN	tumor protein, translationally-controlled 1						anti-apoptosis|response to virus	extracellular space|multivesicular body	calcium ion binding|protein binding				0		Lung NSC(96;0.00227)|Prostate(109;0.00578)|Breast(56;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000232)		GTATCACTTACGATTTCATGT	0.383													8	34					0.00307968	0.00320409	0.00308	1	0		A	45914128	A	A	45914128	5	1	12	1	0	0	0	0	0	0	1	0	16455	550	19	5	240	5	TPT1	13	45914128	Splice_Site	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3970816	45914128	69255750	834	10309											
NEK5	341676	broad.mit.edu	37	chr13	52639595	52639595	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggtcttcccttcctgaCgactgacgctaagcacagac	8	10	8	15	2	1	3	0	2	1	1	3	4	3	3	3	1	1	2	3	1	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:52639595C>T	uc001vge.2	-	22	2215	c.2075G>A	c.(2074-2076)CGT>CAT	p.R692H		NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	692							ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		CCCTTCCTGACGACTGACGCT	0.547													23	36					0	0	0.005443	0	0		T	52639595	T	T	52639595	3	4	12	1	0	0	0	0	1	0	0	0	10346	536	19	1	55	1	NEK5	13	52639595	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	6725467	52639595	62530283	835	10310											
SUGT1	10910	broad.mit.edu	37	chr13	53239778	53239778	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttttttaataggtatgaCtggtatcaaacagaatctca	13	17	6	5	0	2	2	2	1	1	1	3	2	2	2	0	2	1	2	0	2	6	8	rs148803576		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:53239778C>T	uc001vhc.2	+	10	750	c.525C>T	c.(523-525)GAC>GAT	p.D175D	SUGT1_uc001vha.2_RNA|SUGT1_uc001vhb.2_Silent_p.D143D|SUGT1_uc010thb.1_Silent_p.D87D|SUGT1_uc001vhd.2_Silent_p.D32D	NM_001130912	NP_001124384	Q9Y2Z0	SUGT1_HUMAN	suppressor of G2 allele of SKP1 isoform a	175	CS.				mitosis	kinetochore|ubiquitin ligase complex	binding				0		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.25e-08)		ATAGGTATGACTGGTATCAAA	0.303													7	17					0	0	0.00308	0	0		T	53239778	T	T	53239778	2	4	12	1	0	0	0	0	0	0	0	1	15394	564	20	4		4	SUGT1	13	53239778	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	600183	53239778	61930100	836	10311											
PCDH17	27253	broad.mit.edu	37	chr13	58208795	58208795	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaccactgggacatgtcGctgccgctcatcgtgactct	7	9	10	15	3	2	1	1	1	1	0	4	2	2	2	2	1	2	3	2	1	0	0	rs79688799	by1000genomes	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:58208795G>A	uc001vhq.1	+	1	3007	c.2115G>A	c.(2113-2115)TCG>TCA	p.S705S	PCDH17_uc010aec.1_Silent_p.S705S	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	705	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GGGACATGTCGCTGCCGCTCA	0.612													7	34					0	0	0.00308	0	0		A	58208795	A	A	58208795	2	1	12	1	0	0	0	0	0	0	0	1	11531	1074	38	1		1	PCDH17	13	58208795	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4969017	58208795	56961083	837	10312											
DIAPH3	81624	broad.mit.edu	37	chr13	60413550	60413550	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagctgccttcccatctGcctcaaattcttttccagcg	7	14	6	14	1	3	1	1	1	2	0	5	1	5	1	4	0	4	1	4	0	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:60413550G>A	uc001vht.2	-	23	2989	c.2770C>T	c.(2770-2772)CAG>TAG	p.Q924*	DIAPH3_uc001vhu.2_Nonsense_Mutation_p.Q661*	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	924	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		CTTCCCATCTGCCTCAAATTC	0.403													11	43					0	0	0.000978	0	0		A	60413550	A	A	60413550	4	1	12	1	0	0	0	0	0	1	0	0	4526	1328	46	2	855	2	DIAPH3	13	60413550	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2204755	60413550	54756328	838	10313											
DIAPH3	81624	broad.mit.edu	37	chr13	60737769	60737769	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggggccactgggcggcggAgggtgttgggggcccttcct	2	8	20	11	3	0	0	0	0	0	0	2	1	1	1	3	8	0	1	3	8	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:60737769A>G	uc001vht.2	-	1	351	c.132T>C	c.(130-132)CCT>CCC	p.P44P	DIAPH3_uc001vhw.1_Silent_p.P44P|DIAPH3_uc010aed.1_Silent_p.P44P|DIAPH3_uc010aee.1_Silent_p.P44P	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	44					actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		TGGGCGGCGGAGGGTGTTGGG	0.711													6	7					0	0	0.00308	0	0		G	60737769	G	G	60737769	2	3	12	1	0	0	0	0	0	0	0	1	4526	291	11	3		3	DIAPH3	13	60737769	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	324219	60737769	54432109	839	10314											
PCDH9	5101	broad.mit.edu	37	chr13	67802393	67802393	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accagtctgtagacaaggctGgcgctggtccctgtggcagc	7	8	14	12	1	1	1	0	0	1	1	2	1	2	1	2	4	1	4	2	4	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:67802393G>A	uc001vik.2	-	2	872	c.180C>T	c.(178-180)GCC>GCT	p.A60A	PCDH9_uc001vil.2_Silent_p.A60A|PCDH9_uc010thl.1_Silent_p.A60A|PCDH9_uc001vin.3_Silent_p.A60A	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	60	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		AGACAAGGCTGGCGCTGGTCC	0.458													8	16					0	0	0.003163	0	0		A	67802393	A	A	67802393	2	1	12	1	0	0	0	0	0	0	0	1	11537	1335	47	4		4	PCDH9	13	67802393	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	7064624	67802393	47367485	840	10315											
C13orf34	79866	broad.mit.edu	37	chr13	73327858	73327858	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctataatacgcagaattgtGgaagcaatattatggataca	16	11	9	5	1	0	1	0	0	0	1	0	3	0	3	0	2	3	3	0	2	9	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:73327858G>T	uc001viv.1	+	11	1632	c.1513G>T	c.(1513-1515)GGA>TGA	p.G505*	C13orf34_uc010aen.1_Nonsense_Mutation_p.G580*|C13orf34_uc010thr.1_Nonsense_Mutation_p.G435*|C13orf34_uc001viw.1_Nonsense_Mutation_p.G454*	NM_024808	NP_079084	Q6PGQ7	BORA_HUMAN	aurora borealis	505					cell division|mitosis|regulation of mitosis|regulation of mitotic spindle organization|regulation of protein localization		protein kinase binding				0		Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.000227)		GCAGAATTGTGGAAGCAATAT	0.318													6	38					0.00829132	0.00857398	0.008291	1	0		T	73327858	T	T	73327858	4	4	12	1	0	0	0	0	0	1	0	0	1731	1349	47	5	1551	5	C13orf34	13	73327858	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5525465	73327858	41842020	841	10316											
LMO7	4008	broad.mit.edu	37	chr13	76210812	76210812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccatggaagggctggaggagGcagaggccaactgctccgtg	9	5	17	10	1	0	1	0	0	0	1	1	4	1	4	3	6	2	3	3	6	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:76210812G>A	uc001vjt.1	+	1	354	c.19G>A	c.(19-21)GCA>ACA	p.A7T	LMO7_uc010thv.1_Intron	NM_005358	NP_005349	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 1	Error:Variant_position_missing_in_Q8WWI1_after_alignment						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		GCTGGAGGAGGCAGAGGCCAA	0.662													4	9					0	0	0.009096	0	0		A	76210812	A	A	76210812	3	1	12	1	0	0	0	0	1	0	0	0	8872	1218	42	2		2	LMO7	13	76210812	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2882954	76210812	38959066	842	10317											
MYCBP2	23077	broad.mit.edu	37	chr13	77657276	77657276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaggatgagcagcttcccCggcaatcactatgtctgaga	12	9	10	10	1	2	2	1	2	1	1	3	4	3	3	2	2	2	3	2	2	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:77657276C>T	uc001vkf.2	-	64	10904	c.10813G>A	c.(10813-10815)GGG>AGG	p.G3605R	MYCBP2_uc010aev.2_Missense_Mutation_p.G3009R|MYCBP2_uc001vke.2_Missense_Mutation_p.G225R	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3605					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GCAGCTTCCCCGGCAATCACT	0.453													34	84					0	0	0.005524	0	0		T	77657276	T	T	77657276	3	4	12	1	0	0	0	0	1	0	0	0	10036	652	23	1	3193	1	MYCBP2	13	77657276	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1446464	77657276	37512602	843	10318											
SLITRK6	84189	broad.mit.edu	37	chr13	86370288	86370288	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctaaagaattgtgattgAtatgaagttgtttcaggagg	12	16	11	2	0	2	4	1	3	1	1	2	5	2	5	0	2	0	2	0	2	5	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:86370288A>T	uc001vll.1	-	2	815	c.356T>A	c.(355-357)ATC>AAC	p.I119N	SLITRK6_uc010afe.1_5'Flank	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	119	Extracellular (Potential).|LRR 2.					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		ATTGTGATTGATATGAAGTTG	0.358													17	59					0	0	0.006122	0	0		T	86370288	T	T	86370288	3	4	12	1	0	0	0	0	1	0	0	0	14772	333	12	5	2173	5	SLITRK6	13	86370288	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	8713012	86370288	28799590	844	10319											
GPC5	2262	broad.mit.edu	37	chr13	93518632	93518632	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagcaggatgtgcagtggcGactgaatctatgacattcac	11	9	13	8	1	2	2	1	2	1	0	2	5	2	4	0	3	2	2	0	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:93518632G>A	uc010tif.1	+	8	2025	c.1659G>A	c.(1657-1659)GCG>GCA	p.A553A		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	553						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				GTGCAGTGGCGACTGAATCTA	0.443													25	66					0	0	0.005443	0	0		A	93518632	A	A	93518632	2	1	12	1	0	0	0	0	0	0	0	1	6616	1045	37	1		1	GPC5	13	93518632	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	7148344	93518632	21651246	845	10320											
TPP2	7174	broad.mit.edu	37	chr13	103257246	103257246	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaaaggatggtgagattgTtggcctttcaggaagagtgc	10	10	15	6	0	1	2	1	1	0	2	1	5	1	4	2	4	1	1	2	4	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:103257246T>G	uc001vpi.3	+	2	372	c.269T>G	c.(268-270)GTT>GGT	p.V90G		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	90					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GGTGAGATTGTTGGCCTTTCA	0.368													36	99					0	0	0.003214	0	0		G	103257246	G	G	103257246	3	3	12	1	0	0	0	0	1	0	0	0	16438	1725	60	5	275	5	TPP2	13	103257246	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	9738614	103257246	11912632	846	10321											
COL4A1	1282	broad.mit.edu	37	chr13	110835372	110835372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggggccctggaaatccaatgCctggctggcccacagcgccc	7	5	13	16	1	0	0	0	0	0	0	1	1	1	1	5	5	2	1	5	5	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:110835372C>T	uc001vqw.3	-	28	2185	c.2063G>A	c.(2062-2064)GGC>GAC	p.G688D	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	688	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			AAATCCAATGCCTGGCTGGCC	0.622													4	9					0	0	0.009096	0	0		T	110835372	T	T	110835372	3	4	12	1	0	0	0	0	1	0	0	0	3692	739	26	2	3046	2	COL4A1	13	110835372	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	7578126	110835372	4334506	847	10322											
COL4A2	1284	broad.mit.edu	37	chr13	111117854	111117854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccaggactgggccttcccGgcctcaaaggccaacgtggt	7	6	12	16	2	1	0	1	0	0	0	2	1	2	1	6	5	1	0	6	5	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:111117854G>A	uc001vqx.2	+	25	2168	c.1879G>A	c.(1879-1881)GGC>AGC	p.G627S		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	627	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GGGCCTTCCCGGCCTCAAAGG	0.642													7	21					0	0	0.00308	0	0		A	111117854	A	A	111117854	3	1	12	1	0	0	0	0	1	0	0	0	3693	1116	39	1	1973	1	COL4A2	13	111117854	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	282482	111117854	4052024	848	10323											
ARHGEF7	8874	broad.mit.edu	37	chr13	111926266	111926266	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcgcctggataaatacccTacgctgctcaaagagctcga	12	8	9	12	3	1	1	1	0	0	1	2	3	1	2	2	1	5	3	2	1	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:111926266T>C	uc001vrs.2	+	11	1492	c.1242T>C	c.(1240-1242)CCT>CCC	p.P414P	ARHGEF7_uc001vrr.2_Silent_p.P393P|ARHGEF7_uc001vrt.2_Silent_p.P364P|ARHGEF7_uc010tjn.1_Intron|ARHGEF7_uc001vru.1_Silent_p.P236P|ARHGEF7_uc001vrv.3_Silent_p.P236P|ARHGEF7_uc001vrw.3_Silent_p.P236P|ARHGEF7_uc001vrx.3_Silent_p.P236P|ARHGEF7_uc010tjo.1_Silent_p.P311P|ARHGEF7_uc010tjp.1_Silent_p.P158P|ARHGEF7_uc010agn.1_Silent_p.P158P	NM_001113511	NP_001106983	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform c	414	DH.				apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			ATAAATACCCTACGCTGCTCA	0.532													14	41					0	0	0.003163	0	0		C	111926266	C	C	111926266	2	2	12	1	0	0	0	0	0	0	0	1	911	1509	53	3		3	ARHGEF7	13	111926266	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	808412	111926266	3243612	849	10324											
GAS6	2621	broad.mit.edu	37	chr13	114526521	114526521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgacgtccagaggggtccGcactgcaatgaaagcggtgc	9	5	14	13	4	0	2	0	1	0	1	2	3	2	2	3	3	3	2	3	3	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr13:114526521G>A	uc001vud.2	-	13	1633	c.1480C>T	c.(1480-1482)CGG>TGG	p.R494W	GAS6_uc001vug.2_Missense_Mutation_p.R195W|GAS6_uc001vuf.2_Missense_Mutation_p.R221W	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	537	Laminin G-like 2.				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				AGAGGGGTCCGCACTGCAATG	0.622													11	35					0	0	0.001368	0	0		A	114526521	A	A	114526521	3	1	12	1	0	0	0	0	1	0	0	0	6264	1086	38	1	568	1	GAS6	13	114526521	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2600255	114526521	643357	850	10325											
TEP1	7011	broad.mit.edu	37	chr14	20853225	20853225	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggttcaggaactgcatcAcctccatctctgtcacagag	9	10	8	14	1	4	1	3	0	1	1	7	2	6	2	3	2	2	2	3	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:20853225A>G	uc001vxe.2	-	21	3066	c.3026T>C	c.(3025-3027)GTG>GCG	p.V1009A	TEP1_uc010ahk.2_Missense_Mutation_p.V359A|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.V901A|TEP1_uc010tlh.1_5'Flank	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1009					telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		GAACTGCATCACCTCCATCTC	0.577													8	24					0	0	0.00499	0	0		G	20853225	G	G	20853225	3	3	12	1	0	0	0	0	1	0	0	0	15784	159	6	3	4997	3	TEP1	14	20853225	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08		20853225	86496315	851	10326											
TEP1	7011	broad.mit.edu	37	chr14	20871992	20871992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgtccgtcatggcagtacGgagacaggcgggcaggggca	8	7	17	9	3	1	1	1	0	0	1	2	2	2	1	1	6	1	4	1	6	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:20871992G>A	uc001vxe.2	-	6	1124	c.1084C>T	c.(1084-1086)CGT>TGT	p.R362C	TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Intron	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	362	TROVE.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		ATGGCAGTACGGAGACAGGCG	0.582													6	30					0	0	0.000978	0	0		A	20871992	A	A	20871992	3	1	12	1	0	0	0	0	1	0	0	0	15784	1116	39	1	6999	1	TEP1	14	20871992	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	18767	20871992	86477548	852	10327											
SALL2	6297	broad.mit.edu	37	chr14	21993076	21993076	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttctgcccctgaagaggaAgaggaggaggaggaggaaga	13	5	18	5	0	1	4	0	1	1	3	1	10	1	10	2	6	1	1	2	6	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:21993076A>G	uc001wbe.2	-	2	1068	c.786T>C	c.(784-786)TCT>TCC	p.S262S	SALL2_uc010tly.1_Silent_p.S260S|SALL2_uc010tlz.1_Intron|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Intron|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	262	Poly-Ser.						DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		CTgaagaggaagaggaggagg	0.512													3	22					0	0	0.000602	0	0		G	21993076	G	G	21993076	2	3	12	1	0	0	0	0	0	0	0	1	13836	59	3	3		3	SALL2	14	21993076	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1121084	21993076	85356464	853	10328											
RBM23	55147	broad.mit.edu	37	chr14	23374162	23374162	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacccacatagaggcgcatTggtccaccattgcccttttg	9	10	9	13	1	0	1	0	0	0	1	1	2	1	1	4	2	2	1	4	2	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:23374162T>A	uc001whg.2	-	9	985	c.786A>T	c.(784-786)CCA>CCT	p.P262P	RBM23_uc001whh.2_Silent_p.P246P|RBM23_uc001whi.2_Silent_p.P228P|RBM23_uc010tne.1_Silent_p.P92P|RBM23_uc001whj.2_Silent_p.P12P|RBM23_uc001whk.1_Silent_p.P262P	NM_001077351	NP_001070819	Q86U06	RBM23_HUMAN	RNA binding motif protein 23 isoform 1	262					mRNA processing	nucleus	nucleotide binding|RNA binding			skin(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.0128)		AGAGGCGCATTGGTCCACCAT	0.517													41	100					0	0	0.002522	0	0		A	23374162	A	A	23374162	2	1	12	1	0	0	0	0	0	0	0	1	13148	1799	63	5		5	RBM23	14	23374162	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1381086	23374162	83975378	854	10329											
MYH7	4625	broad.mit.edu	37	chr14	23902741	23902741	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatcagcctgacacccacCttgccatactcggtctcggc	8	8	7	18	2	2	1	1	1	1	0	4	1	2	1	4	2	3	0	4	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:23902741C>A	uc001wjx.2	-	3	307	c.201G>T	c.(199-201)AAG>AAT	p.K67N		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	67	Myosin head-like.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TGACACCCACCTTGCCATACT	0.572													13	30					2.31682e-05	2.47842e-05	0.003163	1	0		A	23902741	A	A	23902741	3	1	12	1	0	0	0	0	1	0	0	0	10057	695	24	5	5758	5	MYH7	14	23902741	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	528579	23902741	83446799	855	10330											
PCK2	5106	broad.mit.edu	37	chr14	24572963	24572963	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggacagtgcccgagagacAcccattgggctggtgccaaa	11	5	14	11	1	0	1	0	0	0	1	0	5	0	2	3	3	2	1	3	3	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:24572963A>G	uc001wlt.2	+	10	1845	c.1713A>G	c.(1711-1713)ACA>ACG	p.T571T	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Intron|PCK2_uc010tnw.1_Silent_p.T437T|PCK2_uc010tnx.1_Silent_p.T437T|PCK2_uc001wlu.3_Silent_p.T405T	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	571					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		CCCGAGAGACACCCATTGGGC	0.607													10	17					0	0	0.001368	0	0		G	24572963	G	G	24572963	2	3	12	1	0	0	0	0	0	0	0	1	11601	146	6	3		3	PCK2	14	24572963	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	670222	24572963	82776577	856	10331											
FOXG1	2290	broad.mit.edu	37	chr14	29237047	29237047	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgccgttcagctacaacGcgctcatcatgatggccatc	9	8	9	15	4	3	1	3	1	0	0	4	1	3	1	3	1	4	3	3	1	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:29237047G>A	uc001wqe.2	+	1	761	c.562G>A	c.(562-564)GCG>ACG	p.A188T		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	188	Fork-head.				axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		CAGCTACAACGCGCTCATCAT	0.383													4	15					0	0	0.000602	0	0		A	29237047	A	A	29237047	3	1	12	1	0	0	0	0	1	0	0	0	6021	1087	38	1	564	1	FOXG1	14	29237047	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4664084	29237047	78112493	857	10332											
PPP2R3C	55012	broad.mit.edu	37	chr14	35564337	35564337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgttccatagcgtgagaGttcttctttactgagcatgc	8	14	10	9	1	2	2	0	2	2	1	3	3	3	2	1	0	5	4	1	0	2	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:35564337G>A	uc001wss.2	-	10	1246	c.892C>T	c.(892-894)CTC>TTC	p.L298F	PPP2R3C_uc001wst.2_Missense_Mutation_p.L182F|PPP2R3C_uc010tpr.1_Missense_Mutation_p.L182F|PPP2R3C_uc001wsu.2_Intron	NM_017917	NP_060387	Q969Q6	P2R3C_HUMAN	serine/threonine-protein phosphatase 2A	298	EF-hand 1.					centrosome|nucleus	calcium ion binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;8.62e-06)|LUAD - Lung adenocarcinoma(48;1.42e-05)|Epithelial(34;0.0177)|all cancers(34;0.0491)	GBM - Glioblastoma multiforme(112;0.0803)		TAGCGTGAGAGTTCTTCTTTA	0.373													6	26					0	0	0.001984	0	0		A	35564337	A	A	35564337	3	1	12	1	0	0	0	0	1	0	0	0	12412	1029	36	4	485	4	PPP2R3C	14	35564337	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6327290	35564337	71785203	858	10333											
SSTR1	6751	broad.mit.edu	37	chr14	38678777	38678777	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcagcgccatcctgatCtctttcatctactccgtggt	6	12	9	14	2	3	1	1	1	2	0	6	1	5	1	3	2	2	1	3	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:38678777C>A	uc001wul.1	+	3	800	c.183C>A	c.(181-183)ATC>ATA	p.I61I	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	61	Helical; Name=1; (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	CCATCCTGATCTCTTTCATCT	0.637													13	27					1.5842e-08	1.74531e-08	0.001855	1	0		A	38678777	A	A	38678777	2	1	12	1	0	0	0	0	0	0	0	1	15222	903	32	5		5	SSTR1	14	38678777	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3114440	38678777	68670763	859	10334											
CDKL1	8814	broad.mit.edu	37	chr14	50846843	50846843	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacattggttctatgacCtgtgaagtaagagccaatat	12	12	8	9	0	2	3	1	2	1	1	2	3	2	3	3	1	1	2	3	1	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:50846843C>A	uc010anu.1	-	8	1078	c.1078G>T	c.(1078-1080)GGT>TGT	p.G360C	CDKL1_uc001wxz.2_Intron	NM_004196	NP_004187	Q00532	CDKL1_HUMAN	cyclin-dependent kinase-like 1	Error:Variant_position_missing_in_Q00532_after_alignment						cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(1)|stomach(1)	2	all_epithelial(31;0.000746)|Breast(41;0.0102)					gttctatgacctgtgaagtaa	0													6	13					3.59834e-05	3.83729e-05	0.001168	1	0		A	50846843	A	A	50846843	3	1	12	1	0	0	0	0	1	0	0	0	3156	696	24	5		5	CDKL1	14	50846843	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	12168066	50846843	56502697	860	10335											
NIN	51199	broad.mit.edu	37	chr14	51192775	51192775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catgacagttaccagttgttCctggtttccctgaagggaag	9	12	11	9	0	0	2	0	2	0	0	2	3	2	3	3	2	1	4	3	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:51192775C>T	uc001wym.2	-	30	6279	c.6088G>A	c.(6088-6090)GAA>AAA	p.E2030K	NIN_uc001wyi.2_Missense_Mutation_p.E2030K|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.E1317K|NIN_uc010tqp.1_Missense_Mutation_p.E2036K	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	2030	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					ACCAGTTGTTCCTGGTTTCCC	0.393			T	PDGFRB	MPD								20	25					0	0	0.002299	0	0		T	51192775	T	T	51192775	3	4	12	1	0	0	0	0	1	0	0	0	10436	864	30	4	402	4	NIN	14	51192775	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	345932	51192775	56156765	861	10336											
NIN	51199	broad.mit.edu	37	chr14	51219236	51219236	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtggctacaggccatacCtgcactttacaacgttccag	10	9	9	13	1	0	0	0	0	0	0	1	0	1	0	3	3	5	3	3	3	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:51219236C>T	uc001wym.2	-	21	5141	c.4950G>A	c.(4948-4950)CAG>CAA	p.Q1650Q	NIN_uc001wyi.2_Silent_p.Q1650Q|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Silent_p.Q937Q|NIN_uc010tqp.1_Silent_p.Q1656Q|NIN_uc001wyo.2_Silent_p.Q1650Q	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1650	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CAGGCCATACCTGCACTTTAC	0.368			T	PDGFRB	MPD								41	107					0	0	0.00874	0	0		T	51219236	T	T	51219236	2	4	12	1	0	0	0	0	0	0	0	1	10436	695	24	4		4	NIN	14	51219236	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	26461	51219236	56130304	862	10337											
TRIM9	114088	broad.mit.edu	37	chr14	51561483	51561483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggtccagatagtcatagtCggagaccccggagcccgcgg	9	5	14	13	4	1	2	1	0	0	2	3	4	2	3	4	4	1	0	4	4	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:51561483C>T	uc001wyx.3	-	1	940	c.175G>A	c.(175-177)GAC>AAC	p.D59N	TRIM9_uc001wyy.2_Missense_Mutation_p.D59N|TRIM9_uc001wyz.3_Missense_Mutation_p.D59N	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	59					proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					TAGTCATAGTCGGAGACCCCG	0.642													3	4					0	0	0.004672	0	0		T	51561483	T	T	51561483	3	4	12	1	0	0	0	0	1	0	0	0	16575	884	31	1	2047	1	TRIM9	14	51561483	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	342247	51561483	55788057	863	10338											
C14orf166	51637	broad.mit.edu	37	chr14	52466489	52466489	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcttcagattcagcgtcAtgatgattacctggtaatgc	9	13	9	10	1	3	3	3	2	0	1	3	3	3	3	2	1	4	2	2	1	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:52466489A>G	uc010aod.2	+	5	567	c.437A>G	c.(436-438)CAT>CGT	p.H146R	C14orf166_uc001wzm.3_Missense_Mutation_p.H12R|C14orf166_uc001wzn.3_Missense_Mutation_p.H12R	NM_016039	NP_057123	Q9Y224	CN166_HUMAN	homeobox prox 1	146						microtubule organizing center|nucleus|perinuclear region of cytoplasm|tRNA-splicing ligase complex	identical protein binding				0	Breast(41;0.0639)|all_epithelial(31;0.101)					ATTCAGCGTCATGATGATTAC	0.333													13	39					0	0	0.003163	0	0		G	52466489	G	G	52466489	3	3	12	1	0	0	0	0	1	0	0	0	1759	217	8	3	455	3	C14orf166	14	52466489	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	905006	52466489	54883051	864	10339											
BMP4	652	broad.mit.edu	37	chr14	54417278	54417278	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagtcacctcaatggctagCccatagtttggctgcttctc	7	13	9	12	0	3	1	2	1	1	0	4	1	3	1	2	2	2	4	2	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:54417278C>T	uc001xal.3	-	3	886	c.699G>A	c.(697-699)GGG>GGA	p.G233G	BMP4_uc010aoh.2_Silent_p.G233G|BMP4_uc001xao.3_Silent_p.G233G|BMP4_uc001xan.3_Silent_p.G233G	NM_130851	NP_570912	P12644	BMP4_HUMAN	bone morphogenetic protein 4 preproprotein	233					activation of MAPKK activity|blood vessel endothelial cell proliferation involved in sprouting angiogenesis|BMP signaling pathway involved in heart induction|BMP signaling pathway involved in nephric duct formation|branching involved in ureteric bud morphogenesis|bronchus development|bud dilation involved in lung branching|cardiac septum development|cartilage development|endocardial cushion development|epithelial cell proliferation involved in lung morphogenesis|intermediate mesodermal cell differentiation|lung alveolus development|lymphoid progenitor cell differentiation|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|negative regulation of branch elongation involved in ureteric bud branching by BMP signaling pathway|negative regulation of branching involved in ureteric bud morphogenesis|negative regulation of cell proliferation involved in heart morphogenesis|negative regulation of glomerular mesangial cell proliferation|negative regulation of glomerulus development|negative regulation of immature T cell proliferation in thymus|negative regulation of MAP kinase activity|negative regulation of metanephric comma-shaped body morphogenesis|negative regulation of metanephric S-shaped body morphogenesis|negative regulation of mitosis|negative regulation of myoblast differentiation|negative regulation of phosphorylation|negative regulation of striated muscle tissue development|negative regulation of thymocyte apoptosis|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cardiac muscle fiber development|positive regulation of cartilage development|positive regulation of collagen biosynthetic process|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of kidney development|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|protein localization to nucleus|pulmonary artery endothelial tube morphogenesis|secondary heart field specification|SMAD protein signal transduction|specification of ureteric bud anterior/posterior symmetry by BMP signaling pathway|steroid hormone mediated signaling pathway	extracellular space|proteinaceous extracellular matrix	BMP receptor binding|chemoattractant activity|cytokine activity|growth factor activity				0						CAATGGCTAGCCCATAGTTTG	0.577													4	23					0	0	0.004482	0	0		T	54417278	T	T	54417278	2	4	12	1	0	0	0	0	0	0	0	1	1463	726	26	2		2	BMP4	14	54417278	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1950789	54417278	52932262	865	10340											
BMP4	652	broad.mit.edu	37	chr14	54418933	54418933	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatcagcattcggttaccaGgaatcatggtgtctctgggg	8	11	12	10	1	3	0	2	0	1	0	5	1	3	1	2	5	2	2	2	5	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:54418933G>T	uc001xal.3	-	2	195	c.8C>A	c.(7-9)CCT>CAT	p.P3H	BMP4_uc010aoh.2_Missense_Mutation_p.P3H|BMP4_uc001xao.3_Missense_Mutation_p.P3H|BMP4_uc001xan.3_Missense_Mutation_p.P3H	NM_130851	NP_570912	P12644	BMP4_HUMAN	bone morphogenetic protein 4 preproprotein	3					activation of MAPKK activity|blood vessel endothelial cell proliferation involved in sprouting angiogenesis|BMP signaling pathway involved in heart induction|BMP signaling pathway involved in nephric duct formation|branching involved in ureteric bud morphogenesis|bronchus development|bud dilation involved in lung branching|cardiac septum development|cartilage development|endocardial cushion development|epithelial cell proliferation involved in lung morphogenesis|intermediate mesodermal cell differentiation|lung alveolus development|lymphoid progenitor cell differentiation|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|negative regulation of branch elongation involved in ureteric bud branching by BMP signaling pathway|negative regulation of branching involved in ureteric bud morphogenesis|negative regulation of cell proliferation involved in heart morphogenesis|negative regulation of glomerular mesangial cell proliferation|negative regulation of glomerulus development|negative regulation of immature T cell proliferation in thymus|negative regulation of MAP kinase activity|negative regulation of metanephric comma-shaped body morphogenesis|negative regulation of metanephric S-shaped body morphogenesis|negative regulation of mitosis|negative regulation of myoblast differentiation|negative regulation of phosphorylation|negative regulation of striated muscle tissue development|negative regulation of thymocyte apoptosis|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cardiac muscle fiber development|positive regulation of cartilage development|positive regulation of collagen biosynthetic process|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of kidney development|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|protein localization to nucleus|pulmonary artery endothelial tube morphogenesis|secondary heart field specification|SMAD protein signal transduction|specification of ureteric bud anterior/posterior symmetry by BMP signaling pathway|steroid hormone mediated signaling pathway	extracellular space|proteinaceous extracellular matrix	BMP receptor binding|chemoattractant activity|cytokine activity|growth factor activity				0						TCGGTTACCAGGAATCATGGT	0.463													15	25					1.99824e-07	2.18557e-07	0.00499	1	0		T	54418933	T	T	54418933	3	4	12	1	0	0	0	0	1	0	0	0	1463	1000	35	5	1226	5	BMP4	14	54418933	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1655	54418933	52930607	866	10341											
C14orf105	55195	broad.mit.edu	37	chr14	57960431	57960431	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttagagtgactcaggccCatttcatgtgaaagacattc	11	12	9	9	0	3	4	2	2	1	2	4	4	3	4	1	1	0	0	1	1	2	3	rs117025852	by1000genomes	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:57960431C>A	uc001xcy.2	-	1	146	c.3G>T	c.(1-3)ATG>ATT	p.M1I	C14orf105_uc010trl.1_Missense_Mutation_p.M1I|C14orf105_uc010trm.1_5'UTR|C14orf105_uc010trn.1_5'UTR|C14orf105_uc001xcz.2_Missense_Mutation_p.M1I|C14orf105_uc010aox.1_RNA|C14orf105_uc010aoy.1_5'UTR	NM_018168	NP_060638	Q9NVL8	CN105_HUMAN	hypothetical protein LOC55195	1											0						GACTCAGGCCCATTTCATGTG	0.443													7	13					8.12818e-05	8.64768e-05	0.001984	1	0		A	57960431	A	A	57960431	3	1	12	1	0	0	0	0	1	0	0	0	1740	594	21	5	911	5	C14orf105	14	57960431	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3541498	57960431	49389109	867	10342											
C14orf135	64430	broad.mit.edu	37	chr14	60591468	60591468	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggatcagtagaatcacAgagggttggtgatcattcta	12	11	11	7	0	4	3	3	1	1	2	5	4	5	4	1	3	0	2	1	3	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:60591468A>G	uc001xer.3	+	8	2399	c.1877A>G	c.(1876-1878)CAG>CGG	p.Q626R	C14orf135_uc001xeq.2_Missense_Mutation_p.Q626R|C14orf135_uc010apm.2_RNA	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	860						integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		GTAGAATCACAGAGGGTTGGT	0.373													31	87					0	0	0.002836	0	0		G	60591468	G	G	60591468	3	3	12	1	0	0	0	0	1	0	0	0	1748	188	7	3	1903	3	C14orf135	14	60591468	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2631037	60591468	46758072	868	10343											
PRKCH	5583	broad.mit.edu	37	chr14	62016477	62016477	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttttaactccaattgatgaGggacatcttccaatgattaa	13	14	7	7	0	1	3	0	3	1	0	3	4	3	4	2	1	1	1	2	1	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:62016477G>T	uc001xfn.2	+	14	2285	c.1980G>T	c.(1978-1980)GAG>GAT	p.E660D	PRKCH_uc010tsa.1_Missense_Mutation_p.E499D|PRKCH_uc010tsb.1_Missense_Mutation_p.E228D|PRKCH_uc001xfo.2_RNA	NM_006255	NP_006246	P24723	KPCL_HUMAN	protein kinase C, eta	660	AGC-kinase C-terminal.				intracellular signal transduction|platelet activation	cytosol|plasma membrane	ATP binding|enzyme binding|metal ion binding|protein kinase C activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|large_intestine(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(108;0.045)|BRCA - Breast invasive adenocarcinoma(234;0.0906)|KIRC - Kidney renal clear cell carcinoma(182;0.182)		CAATTGATGAGGGACATCTTC	0.418													24	46					4.72057e-08	5.19225e-08	0.003954	1	0		T	62016477	T	T	62016477	3	4	12	1	0	0	0	0	1	0	0	0	12535	991	35	5	2034	5	PRKCH	14	62016477	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1425009	62016477	45333063	869	10344											
PPP2R5E	5529	broad.mit.edu	37	chr14	63863413	63863413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcccgttcccgagggtcttCgctgtcaaatagctccagaa	8	10	10	13	3	2	1	1	0	1	1	6	2	5	1	3	1	1	3	3	1	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:63863413C>T	uc001xgd.1	-	6	1161	c.571G>A	c.(571-573)GAA>AAA	p.E191K	PPP2R5E_uc010tsf.1_Missense_Mutation_p.E115K|PPP2R5E_uc010tsg.1_Missense_Mutation_p.E115K|PPP2R5E_uc001xge.2_Missense_Mutation_p.E191K|PPP2R5E_uc010tsh.1_Missense_Mutation_p.E191K|PPP2R5E_uc001xgf.1_RNA	NM_006246	NP_006237	Q16537	2A5E_HUMAN	epsilon isoform of regulatory subunit B56,	191					signal transduction	cytoplasm|intracellular membrane-bounded organelle|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00197)|all cancers(60;0.0153)|BRCA - Breast invasive adenocarcinoma(234;0.128)		CGAGGGTCTTCGCTGTCAAAT	0.368													13	30					0	0	0.00245	0	0		T	63863413	T	T	63863413	3	4	12	1	0	0	0	0	1	0	0	0	12418	893	31	1	868	1	PPP2R5E	14	63863413	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1846936	63863413	43486127	870	10345											
TMEM229B	161145	broad.mit.edu	37	chr14	67940214	67940214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcgtccttgtcgaagcGgaggcggagggtgttgcgga	6	8	18	9	5	1	0	1	0	0	0	3	4	2	3	1	5	3	1	1	5	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:67940214G>A	uc001xjk.2	-	3	837	c.427C>T	c.(427-429)CGC>TGC	p.R143C	TMEM229B_uc001xjj.1_RNA	NM_182526	NP_872332	Q8NBD8	T229B_HUMAN	transmembrane protein 229B	143	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(1)	1						TTGTCGAAGCGGAGGCGGAGG	0.657													10	6					0	0	0.006214	0	0		A	67940214	A	A	67940214	3	1	12	1	0	0	0	0	1	0	0	0	16173	1116	39	1	80	1	TMEM229B	14	67940214	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4076801	67940214	39409326	871	10346											
PCNX	22990	broad.mit.edu	37	chr14	71455319	71455319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggcagtgtcatttcgcCgtgaacgcagcacatttagg	10	9	13	9	3	1	1	1	1	0	0	2	2	1	2	1	3	2	3	1	3	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:71455319C>T	uc001xmo.2	+	7	2793	c.2347C>T	c.(2347-2349)CGT>TGT	p.R783C	PCNX_uc001xmn.3_Missense_Mutation_p.R783C|PCNX_uc010are.1_Intron	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	783						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		GTCATTTCGCCGTGAACGCAG	0.547													23	45					0	0	0.004656	0	0		T	71455319	T	T	71455319	3	4	12	1	0	0	0	0	1	0	0	0	11610	652	23	1	2373	1	PCNX	14	71455319	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3515105	71455319	35894221	872	10347											
PCNX	22990	broad.mit.edu	37	chr14	71570279	71570279	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctacccaatctttgtctcAcccctgacaacttcttactc	8	13	4	16	0	3	1	1	1	3	0	5	1	3	1	3	1	3	1	3	1	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:71570279A>C	uc001xmo.2	+	32	6434	c.5988A>C	c.(5986-5988)TCA>TCC	p.S1996S	PCNX_uc010are.1_Silent_p.S1885S|PCNX_uc010arf.1_Silent_p.S784S|PCNX_uc001xmp.2_Silent_p.S80S	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1996						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		TCTTTGTCTCACCCCTGACAA	0.443													6	29					0	0	0.001855	0	0		C	71570279	C	C	71570279	2	2	12	1	0	0	0	0	0	0	0	1	11610	146	6	5		5	PCNX	14	71570279	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	114960	71570279	35779261	873	10348											
SIPA1L1	26037	broad.mit.edu	37	chr14	72055785	72055785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaattccaaaggaagcctcaGcatggaccagggagatgata	15	6	12	8	0	1	2	1	1	0	1	2	6	2	4	3	3	2	1	3	3	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:72055785G>A	uc001xms.2	+	2	1544	c.1196G>A	c.(1195-1197)AGC>AAC	p.S399N	SIPA1L1_uc001xmt.2_Missense_Mutation_p.S399N|SIPA1L1_uc001xmu.2_Missense_Mutation_p.S399N|SIPA1L1_uc001xmv.2_Missense_Mutation_p.S399N	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	399					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		GGAAGCCTCAGCATGGACCAG	0.498													14	31					0	0	0.004007	0	0		A	72055785	A	A	72055785	3	1	12	1	0	0	0	0	1	0	0	0	14354	971	34	2	1198	2	SIPA1L1	14	72055785	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	485506	72055785	35293755	874	10349											
RBM25	58517	broad.mit.edu	37	chr14	73566386	73566386	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttttaggaggatataaaTgctatagaaatggaagaaga	17	12	10	2	0	1	3	0	0	1	3	1	6	1	6	0	3	1	1	0	3	9	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:73566386T>A	uc001xno.2	+	9	1003	c.795T>A	c.(793-795)AAT>AAA	p.N265K	RBM25_uc001xnn.3_Missense_Mutation_p.N265K|RBM25_uc010ttu.1_Missense_Mutation_p.N265K|RBM25_uc001xnp.2_Missense_Mutation_p.N60K	NM_021239	NP_067062	P49756	RBM25_HUMAN	RNA binding motif protein 25	265					apoptosis|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|RNA splicing	cytoplasm|nuclear speck	mRNA binding|nucleotide binding|protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)		AGGATATAAATGCTATAGAAA	0.358													26	58					0	0	0.008361	0	0		A	73566386	A	A	73566386	3	1	12	1	0	0	0	0	1	0	0	0	13150	1461	51	5	825	5	RBM25	14	73566386	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1510601	73566386	33783154	875	10350											
C14orf43	91748	broad.mit.edu	37	chr14	74203800	74203800	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgttcaggacccttcccGtcctcatcaagacctccagc	7	11	6	17	1	4	1	3	0	1	1	7	2	7	2	5	1	1	1	5	1	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:74203800G>A	uc001xot.2	-	3	2433	c.1650C>T	c.(1648-1650)GAC>GAT	p.D550D	C14orf43_uc001xou.2_Silent_p.D550D|C14orf43_uc010tud.1_Silent_p.D550D|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	550					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		GACCCTTCCCGTCCTCATCAA	0.602													10	23					0	0	0.008291	0	0		A	74203800	A	A	74203800	2	1	12	1	0	0	0	0	0	0	0	1	1777	1136	40	1		1	C14orf43	14	74203800	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	637414	74203800	33145740	876	10351											
KIAA0317	9870	broad.mit.edu	37	chr14	75139565	75139565	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcatgtctgctgaccttcAgggtgactttggaatgtggt	7	13	14	7	0	2	2	1	2	1	0	2	3	2	3	1	4	1	2	1	4	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:75139565A>G	uc001xqb.2	-	11	1896	c.1391T>C	c.(1390-1392)CTG>CCG	p.L464P	KIAA0317_uc010tut.1_Missense_Mutation_p.L303P|KIAA0317_uc001xqc.2_Missense_Mutation_p.L464P	NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870	464					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		GCTGACCTTCAGGGTGACTTT	0.448													15	66					0	0	0.00499	0	0		G	75139565	G	G	75139565	3	3	12	1	0	0	0	0	1	0	0	0	8183	188	7	3	1120	3	KIAA0317	14	75139565	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	935765	75139565	32209975	877	10352											
FLRT2	23768	broad.mit.edu	37	chr14	86087980	86087980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctgccctagtgtgtgccGctgcgacaggaactttgtct	5	11	13	12	2	1	0	0	0	1	0	1	2	1	1	3	2	4	1	3	2	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:86087980G>A	uc001xvr.2	+	2	889	c.122G>A	c.(121-123)CGC>CAC	p.R41H	FLRT2_uc010atd.2_Missense_Mutation_p.R41H	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	41	Extracellular (Potential).|LRRNT.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		AGTGTGTGCCGCTGCGACAGG	0.542													10	52					0	0	0.003163	0	0		A	86087980	A	A	86087980	3	1	12	1	0	0	0	0	1	0	0	0	5953	1087	38	1	124	1	FLRT2	14	86087980	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	10948415	86087980	21261560	878	10353											
CCDC88C	440193	broad.mit.edu	37	chr14	91780228	91780228	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttcctggccagcctcccGttctcctcctggagtcgctg	3	11	9	18	2	1	0	0	0	1	0	6	1	4	1	7	2	1	2	7	2	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:91780228G>A	uc010aty.2	-	15	2031	c.1932C>T	c.(1930-1932)AAC>AAT	p.N644N		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	644	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				CCAGCCTCCCGTTCTCCTCCT	0.642													5	6					0	0	0.00308	0	0		A	91780228	A	A	91780228	2	1	12	1	0	0	0	0	0	0	0	1	2868	1136	40	1		1	CCDC88C	14	91780228	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5692248	91780228	15569312	879	10354											
FBLN5	10516	broad.mit.edu	37	chr14	92406952	92406952	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaggtcaaagccattcgtGcactgtgcctgcagggaagg	9	8	13	11	1	1	0	1	0	0	0	3	1	2	1	3	3	4	2	3	3	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:92406952G>A	uc001xzx.3	-	3	554	c.81C>T	c.(79-81)TGC>TGT	p.C27C	FBLN5_uc010aud.2_Silent_p.C32C|FBLN5_uc010aue.2_Silent_p.C27C	NM_006329	NP_006320	Q9UBX5	FBLN5_HUMAN	fibulin 5 precursor	27					cell-matrix adhesion|elastic fiber assembly|protein localization at cell surface|regulation of removal of superoxide radicals	extracellular space|proteinaceous extracellular matrix|soluble fraction	calcium ion binding|integrin binding|protein C-terminus binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		all_cancers(154;0.0722)				AGCCATTCGTGCACTGTGCCT	0.507													6	14					0	0	0.001984	0	0		A	92406952	A	A	92406952	2	1	12	1	0	0	0	0	0	0	0	1	5714	1311	46	2		2	FBLN5	14	92406952	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	626724	92406952	14942588	880	10355											
LGMN	5641	broad.mit.edu	37	chr14	93176196	93176196	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcataccctgaaactgcaTcactttcatggtggagattg	10	14	8	9	0	3	2	3	1	0	1	3	3	3	2	1	2	3	1	1	2	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:93176196T>G	uc001yav.2	-	12	1167	c.841A>C	c.(841-843)ATG>CTG	p.M281L	LGMN_uc001yat.2_Missense_Mutation_p.M281L|LGMN_uc001yau.2_Missense_Mutation_p.M281L|LGMN_uc001yaw.2_Missense_Mutation_p.M281L|LGMN_uc010aul.2_Missense_Mutation_p.M162L|LGMN_uc001yax.2_Missense_Mutation_p.M281L|LGMN_uc001yay.2_Missense_Mutation_p.M281L	NM_001008530	NP_001008530	Q99538	LGMN_HUMAN	legumain preproprotein	281					hormone biosynthetic process|negative regulation of neuron apoptosis|vitamin D metabolic process	lysosome	cysteine-type endopeptidase activity|protein serine/threonine kinase activity			skin(1)	1		all_cancers(154;0.0706)		COAD - Colon adenocarcinoma(157;0.224)		TGAAACTGCATCACTTTCATG	0.383													9	24					0	0	0.008291	0	0		G	93176196	G	G	93176196	3	3	12	1	0	0	0	0	1	0	0	0	8771	1435	50	5	476	5	LGMN	14	93176196	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	769244	93176196	14173344	881	10356											
SERPINA6	866	broad.mit.edu	37	chr14	94780499	94780499	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctgctggctgttgcccAgtcctggaaattcatagcca	7	12	10	12	0	2	0	1	0	1	0	3	1	3	1	3	2	3	3	3	2	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:94780499A>G	uc001ycv.2	-	2	591	c.487T>C	c.(487-489)TGG>CGG	p.W163R	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	163					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	GCTGTTGCCCAGTCCTGGAAA	0.488													8	32					0	0	0.00308	0	0		G	94780499	G	G	94780499	3	3	12	1	0	0	0	0	1	0	0	0	14118	188	7	3	746	3	SERPINA6	14	94780499	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1604303	94780499	12569041	882	10357											
SETD3	84193	broad.mit.edu	37	chr14	99871571	99871571	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggcacgagccaagacctcGgccttcatggcgtagagtct	8	7	12	14	4	2	2	1	0	1	2	3	3	2	2	4	3	1	2	4	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:99871571G>T	uc001ygc.2	-	10	1232	c.1062C>A	c.(1060-1062)GCC>GCA	p.A354A		NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	354					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				CCAAGACCTCGGCCTTCATGG	0.443													18	44					4.74835e-14	5.41932e-14	0.002096	1	0		T	99871571	T	T	99871571	2	4	12	1	0	0	0	0	0	0	0	1	14157	1103	39	5		5	SETD3	14	99871571	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5091072	99871571	7477969	883	10358											
RAGE	5891	broad.mit.edu	37	chr14	102695911	102695911	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgacagtctgaccactccCgaaagctttagtttgggcag	10	9	11	11	2	1	1	0	1	1	0	2	4	2	1	2	1	1	3	2	1	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:102695911C>T	uc001ylm.2	-	11	1291	c.1065G>A	c.(1063-1065)TCG>TCA	p.S355S	RAGE_uc010txv.1_Silent_p.S325S|RAGE_uc001yln.2_Silent_p.S173S|RAGE_uc001ylh.2_Intron|RAGE_uc001yli.2_RNA|RAGE_uc001yll.2_RNA|RAGE_uc001ylj.2_RNA|RAGE_uc001ylk.2_RNA	NM_014226	NP_055041	Q9UQ07	MOK_HUMAN	MAPK/MAK/MRK overlapping kinase	355					signal transduction	Golgi apparatus	ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TGACCACTCCCGAAAGCTTTA	0.537													11	26					0	0	0.001855	0	0		T	102695911	T	T	102695911	2	4	12	1	0	0	0	0	0	0	0	1	13031	639	23	1		1	RAGE	14	102695911	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2824340	102695911	4653629	884	10359											
TNFAIP2	7127	broad.mit.edu	37	chr14	103601572	103601572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagcaaaggccacctgagcGctatcctggccatcaagggg	10	5	12	14	1	1	1	1	1	0	0	2	1	2	1	5	4	2	2	5	4	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:103601572G>A	uc001ymm.1	+	11	1971	c.1840G>A	c.(1840-1842)GCT>ACT	p.A614T	TNFAIP2_uc010awo.1_Missense_Mutation_p.A274T|TNFAIP2_uc010txz.1_Missense_Mutation_p.A283T|TNFAIP2_uc010tya.1_Missense_Mutation_p.A97T	NM_006291	NP_006282	Q03169	TNAP2_HUMAN	tumor necrosis factor, alpha-induced protein 2	614					angiogenesis|cell differentiation	extracellular space				central_nervous_system(1)	1		Melanoma(154;0.155)	Epithelial(46;0.191)			CCACCTGAGCGCTATCCTGGC	0.637													6	25					0	0	0.001984	0	0		A	103601572	A	A	103601572	3	1	12	1	0	0	0	0	1	0	0	0	16298	1087	38	1	1882	1	TNFAIP2	14	103601572	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	905661	103601572	3747968	885	10360											
TDRD9	122402	broad.mit.edu	37	chr14	104482383	104482383	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagccggatgaggagatggcGgtgagggagctggctggcaa	9	5	20	7	2	0	3	0	2	0	1	0	6	0	5	1	7	2	3	1	7	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:104482383G>A	uc001yom.3	+	22	2319	c.2289G>A	c.(2287-2289)GCG>GCA	p.A763A	TDRD9_uc001yon.3_Silent_p.A501A	NM_153046	NP_694591	Q8NDG6	TDRD9_HUMAN	tudor domain containing 9	763					cell differentiation|DNA methylation involved in gamete generation|fertilization|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	nucleus|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding	p.A478A(1)		ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0768)				AGGAGATGGCGGTGAGGGAGC	0.498													3	4					0	0	0.009096	0	0		A	104482383	A	A	104482383	2	1	12	1	0	0	0	0	0	0	0	1	15761	1103	39	1		1	TDRD9	14	104482383	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	880811	104482383	2867157	886	10361											
KIAA0284	283638	broad.mit.edu	37	chr14	105353063	105353063	+	Frame_Shift_Del	DEL	C	-	-																															gggcagacagcccagcccagCcccccagcacgggatggcgt																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:105353063delC	uc010axb.2	+	12	2711	c.2487delC	c.(2485-2487)AGCfs	p.S829fs	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Frame_Shift_Del_p.S759fs|KIAA0284_uc001yps.2_Frame_Shift_Del_p.S735fs|KIAA0284_uc001ypt.2_5'Flank	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	829						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		CCCAGCCCAGCCCCCCAGCAC	0.637													5	7	---	---	---	---						.	-	105353063	-	-	105353063	7	5	12	1	0	1	0	1	0	0	0	0	8182	738	26	0	2529	0	KIAA0284	14	105353063	Frame_Shift_Del	DEL	C	TCGA-BR-4257-01A-01D-1126-08	870680	105353063	1996477	887	10362											
PACS2	23241	broad.mit.edu	37	chr14	105833659	105833659	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcctccctgtccagccagcCcattgaccacgaagacagca	10	5	8	18	2	0	2	0	1	0	1	2	3	2	2	6	0	3	1	6	0	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr14:105833659C>A	uc001yqt.2	+	5	708	c.533C>A	c.(532-534)CCC>CAC	p.P178H	PACS2_uc001yqs.2_Missense_Mutation_p.P111H|PACS2_uc001yqv.2_Missense_Mutation_p.P178H|PACS2_uc001yqu.2_Missense_Mutation_p.P178H	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	178					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		TCCAGCCAGCCCATTGACCAC	0.677													8	36					0.00010058	0.000106593	0.001368	1	0		A	105833659	A	A	105833659	3	1	12	1	0	0	0	0	1	0	0	0	11392	623	22	5	551	5	PACS2	14	105833659	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	480596	105833659	1515881	888	10363											
ATP10A	57194	broad.mit.edu	37	chr15	25953366	25953366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttggcgatgcacaaggtgCgcaggccttccgccgcatac	7	8	12	14	4	1	0	0	0	1	0	2	1	2	0	3	3	3	3	3	3	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:25953366C>T	uc010ayu.2	-	11	2532	c.2426G>A	c.(2425-2427)CGC>CAC	p.R809H		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	809	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GCACAAGGTGCGCAGGCCTTC	0.582													10	35					0	0	0.008291	0	0		T	25953366	T	T	25953366	3	4	12	1	0	0	0	0	1	0	0	0	1117	768	27	1	2117	1	ATP10A	15	25953366	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08		25953366	76578026	889	10364											
HERC2	8924	broad.mit.edu	37	chr15	28421604	28421604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactccagacttggtgagcGccagggagaactgagctcca	10	6	12	13	1	0	4	0	2	0	2	2	5	2	4	4	2	3	1	4	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:28421604G>A	uc001zbj.2	-	63	9762	c.9656C>T	c.(9655-9657)GCG>GTG	p.A3219V		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3219	RCC1 10.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CTTGGTGAGCGCCAGGGAGAA	0.577													14	32					0	0	0.003163	0	0		A	28421604	A	A	28421604	3	1	12	1	0	0	0	0	1	0	0	0	7074	1087	38	1	4972	1	HERC2	15	28421604	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2468238	28421604	74109788	890	10365											
OTUD7A	161725	broad.mit.edu	37	chr15	31819407	31819407	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttattctgctgcgtctgctGccacctccacctccgcttca	4	13	6	18	2	3	0	1	0	2	0	5	0	5	0	5	0	4	3	5	0	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:31819407G>A	uc001zfq.2	-	5	850	c.757C>T	c.(757-759)CAG>TAG	p.Q253*	OTUD7A_uc001zfr.2_Nonsense_Mutation_p.Q253*	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	253	OTU.|Catalytic (By similarity).|TRAF-binding (By similarity).					cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		TGCGTCTGCTGCCACCTCCAC	0.617													17	40					0	0	0.00333	0	0		A	31819407	A	A	31819407	4	1	12	1	0	0	0	0	0	1	0	0	11337	1328	46	2	2051	2	OTUD7A	15	31819407	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3397803	31819407	70711985	891	10366											
AVEN	57099	broad.mit.edu	37	chr15	34159951	34159951	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agatttcagctcaaagatggGcccccttcctccaggcccca	9	8	8	16	0	2	2	2	0	0	2	4	2	4	2	6	2	1	1	6	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:34159951G>C	uc001zhj.2	-	5	774	c.718C>G	c.(718-720)CCC>GCC	p.P240A		NM_020371	NP_065104	Q9NQS1	AVEN_HUMAN	cell death regulator aven	240					anti-apoptosis|apoptosis	endomembrane system|intracellular|membrane|membrane fraction	protein binding			kidney(1)	1		all_lung(180;1.78e-08)		all cancers(64;1.66e-15)|GBM - Glioblastoma multiforme(113;1.42e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0359)		TCAAAGATGGGCCCCCTTCCT	0.542													7	31					0	0	0.001855	0	0		C	34159951	C	C	34159951	3	2	12	1	0	0	0	0	1	0	0	0	1227	1203	42	5	378	5	AVEN	15	34159951	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2340544	34159951	68371441	892	10367											
C15orf55	256646	broad.mit.edu	37	chr15	34648763	34648763	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtccaaagaaaatcaagaaCagagctgtgaaaccgtaggg	17	5	12	7	1	1	4	1	1	0	3	2	4	2	4	2	2	3	2	2	2	7	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:34648763C>T	uc001zif.2	+	7	2625	c.2470C>T	c.(2470-2472)CAG>TAG	p.Q824*	C15orf55_uc010ucc.1_Nonsense_Mutation_p.Q852*|C15orf55_uc010ucd.1_Nonsense_Mutation_p.Q842*	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	824						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		AAATCAAGAACAGAGCTGTGA	0.512			T	BRD3|BRD4	lethal midline carcinoma								13	34					0	0	0.001855	0	0		T	34648763	T	T	34648763	4	4	12	1	0	0	0	0	0	1	0	0	1806	479	17	4	2496	4	C15orf55	15	34648763	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	488812	34648763	67882629	893	10368											
RTF1	23168	broad.mit.edu	37	chr15	41772868	41772868	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttggaagactacaaaaaaCgacgagggcttatttgagca	16	8	10	7	2	0	2	0	1	0	1	0	5	0	3	0	2	3	2	0	2	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:41772868C>T	uc001zny.2	+	18	2128	c.2116C>T	c.(2116-2118)CGA>TGA	p.R706*		NM_015138	NP_055953	Q92541	RTF1_HUMAN	Paf1/RNA polymerase II complex component	706					histone modification|regulation of transcription, DNA-dependent|transcription initiation, DNA-dependent	nucleoplasm	protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(109;1.79e-19)|all_epithelial(112;8.18e-17)|Lung NSC(122;3.16e-11)|all_lung(180;8.14e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;1.15e-16)|GBM - Glioblastoma multiforme(113;1.81e-06)|BRCA - Breast invasive adenocarcinoma(123;0.119)		CTACAAAAAACGACGAGGGCT	0.532													4	25					0	0	0.009096	0	0		T	41772868	T	T	41772868	4	4	12	1	0	0	0	0	0	1	0	0	13746	528	19	1	2186	1	RTF1	15	41772868	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	7124105	41772868	60758524	894	10369											
MGA	23269	broad.mit.edu	37	chr15	41988756	41988756	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatacattgaaaattccaaTgagactgccttctgcttagg	13	12	7	9	0	1	2	0	2	1	1	2	3	2	2	2	1	3	1	2	1	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:41988756T>C	uc001zog.1	+	3	1639	c.1548T>C	c.(1546-1548)AAT>AAC	p.N516N	MGA_uc010ucy.1_Silent_p.N516N|MGA_uc010ucz.1_Silent_p.N516N	NM_001080541	NP_001074010	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 2	516						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		AAAATTCCAATGAGACTGCCT	0.388													15	31					0	0	0.00245	0	0		C	41988756	C	C	41988756	2	2	12	1	0	0	0	0	0	0	0	1	9558	1461	51	3		3	MGA	15	41988756	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	215888	41988756	60542636	895	10370											
ZSCAN29	146050	broad.mit.edu	37	chr15	43661966	43661966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccttggtgcgcacctccGgccttagccaccgacagcaa	7	7	10	17	3	0	0	0	0	0	0	2	1	2	0	6	2	3	3	6	2	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:43661966G>A	uc001zrk.1	-	1	293	c.146C>T	c.(145-147)CCG>CTG	p.P49L	ZSCAN29_uc001zrj.1_5'Flank|ZSCAN29_uc010bdf.1_Missense_Mutation_p.P48L|ZSCAN29_uc001zrl.1_RNA|ZSCAN29_uc010bdg.1_Missense_Mutation_p.P48L|ZSCAN29_uc001zrm.2_Missense_Mutation_p.P48L|TUBGCP4_uc001zrn.2_5'Flank|TUBGCP4_uc001zro.2_5'Flank	NM_152455	NP_689668	Q8IWY8	ZSC29_HUMAN	zinc finger protein 690	49	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.97e-07)		GCGCACCTCCGGCCTTAGCCA	0.557													12	40					0	0	0.001855	0	0		A	43661966	A	A	43661966	3	1	12	1	0	0	0	0	1	0	0	0	18261	1116	39	1	2432	1	ZSCAN29	15	43661966	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1673210	43661966	58869426	896	10371											
FBN1	2200	broad.mit.edu	37	chr15	48741074	48741074	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcatatattggggatttcTtgacattcattacgatctgt	9	17	8	7	1	3	1	1	1	2	0	3	3	3	2	0	2	2	1	0	2	3	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:48741074T>G	uc001zwx.1	-	46	5890	c.5562A>C	c.(5560-5562)CAA>CAC	p.Q1854H	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1854	EGF-like 31; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		TGGGGATTTCTTGACATTCAT	0.353													7	22					0	0	0.004482	0	0		G	48741074	G	G	48741074	3	3	12	1	0	0	0	0	1	0	0	0	5716	1606	56	5	3137	5	FBN1	15	48741074	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	5079108	48741074	53790318	897	10372											
ONECUT1	3175	broad.mit.edu	37	chr15	53081051	53081051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcctccggaaggtctccCggccggatttgagtttgctc	6	11	11	13	3	1	1	0	1	1	0	5	3	3	3	4	4	1	2	4	4	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:53081051C>T	uc002aci.1	-	1	1159	c.1031G>A	c.(1030-1032)CGG>CAG	p.R344Q		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	344	CUT.				endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		GAAGGTCTCCCGGCCGGATTT	0.672													6	13					0	0	0.001984	0	0		T	53081051	T	T	53081051	3	4	12	1	0	0	0	0	1	0	0	0	10887	652	23	1	374	1	ONECUT1	15	53081051	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4339977	53081051	49450341	898	10373											
TCF12	6938	broad.mit.edu	37	chr15	57545469	57545469	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatccatacagcagtctcgaAtggaggatcgtttagacaga	14	9	10	8	2	1	2	0	0	1	2	4	5	2	4	1	2	2	2	1	2	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:57545469A>G	uc002aec.2	+	15	1482	c.1198A>G	c.(1198-1200)ATG>GTG	p.M400V	TCF12_uc010ugm.1_Missense_Mutation_p.M452V|TCF12_uc010ugn.1_Missense_Mutation_p.M420V|TCF12_uc002aea.2_Missense_Mutation_p.M424V|TCF12_uc010bfs.2_Intron|TCF12_uc002aeb.2_Missense_Mutation_p.M424V|TCF12_uc002aed.2_Missense_Mutation_p.M400V|TCF12_uc002aee.2_Missense_Mutation_p.M230V|TCF12_uc010bft.2_Missense_Mutation_p.M254V|TCF12_uc010ugo.1_Missense_Mutation_p.M164V|TCF12_uc010ugp.1_Missense_Mutation_p.M58V|TCF12_uc010ugq.1_Missense_Mutation_p.M34V|TCF12_uc010ugr.1_Missense_Mutation_p.M13V	NM_207038	NP_996921	Q99081	HTF4_HUMAN	transcription factor 12 isoform b	400					immune response|muscle organ development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(2)|lung(1)	8		Colorectal(260;0.0907)		all cancers(107;0.000313)|GBM - Glioblastoma multiforme(80;0.00878)|STAD - Stomach adenocarcinoma(283;0.239)		GCAGTCTCGAATGGAGGATCG	0.438			T	TEC	extraskeletal myxoid chondrosarcoma								12	29					0	0	0.006122	0	0		G	57545469	G	G	57545469	3	3	12	1	0	0	0	0	1	0	0	0	15712	101	4	3	1401	3	TCF12	15	57545469	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	4464418	57545469	44985923	899	10374											
ALDH1A2	8854	broad.mit.edu	37	chr15	58285256	58285256	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattttccaggcaaacatcaGcagggggaagttccactgaa	13	9	10	9	0	1	1	1	1	0	0	3	2	3	2	2	3	2	3	2	3	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:58285256G>A	uc002aex.2	-	6	629	c.571C>T	c.(571-573)CTG>TTG	p.L191L	ALDH1A2_uc002aey.2_Silent_p.L191L|ALDH1A2_uc010ugv.1_Silent_p.L170L|ALDH1A2_uc010ugw.1_Silent_p.L162L|ALDH1A2_uc002aew.2_Silent_p.L95L	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	191					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	GCAAACATCAGCAGGGGGAAG	0.423													10	39					0	0	0.006214	0	0		A	58285256	A	A	58285256	2	1	12	1	0	0	0	0	0	0	0	1	491	962	34	2		2	ALDH1A2	15	58285256	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	739787	58285256	44246136	900	10375											
GCNT3	9245	broad.mit.edu	37	chr15	59911456	59911456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccacccttcagcgtgcacGgtggatgcctggctctgttc	4	10	13	14	2	2	0	1	0	1	0	3	1	2	1	3	4	3	3	3	4	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:59911456G>A	uc002age.2	+	3	1468	c.1019G>A	c.(1018-1020)CGG>CAG	p.R340Q	GCNT3_uc002agd.2_Missense_Mutation_p.R340Q	NM_004751	NP_004742	O95395	GCNT3_HUMAN	glucosaminyl (N-acetyl) transferase 3, mucin	340	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|membrane fraction	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)	2						CAGCGTGCACGGTGGATGCCT	0.507													4	84					0	0	0.000602	0	0		A	59911456	A	A	59911456	3	1	12	1	0	0	0	0	1	0	0	0	6317	1116	39	1	1021	1	GCNT3	15	59911456	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1626200	59911456	42619936	901	10376											
TLN2	83660	broad.mit.edu	37	chr15	62994288	62994288	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggtgtgaagctattggcCgccctcatggatgatgaggt	9	10	15	7	1	1	3	1	3	0	0	1	4	1	4	2	4	1	1	2	4	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:62994288C>T	uc002alb.3	+	15	1794	c.1794C>T	c.(1792-1794)GCC>GCT	p.A598A		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	598					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						AGCTATTGGCCGCCCTCATGG	0.582													7	15					0	0	0.001984	0	0		T	62994288	T	T	62994288	2	4	12	1	0	0	0	0	0	0	0	1	15973	639	23	1		1	TLN2	15	62994288	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3082832	62994288	39537104	902	10377											
IGDCC4	57722	broad.mit.edu	37	chr15	65677433	65677433	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaccagcccagctcagcccGcttggttgagcccaggagat	9	6	12	14	1	1	2	1	1	0	1	1	4	1	2	4	2	5	3	4	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:65677433G>T	uc002aou.1	-	19	3411	c.3201C>A	c.(3199-3201)AGC>AGA	p.S1067R	IGDCC4_uc002aot.1_Missense_Mutation_p.S655R	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	1067	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						AGCTCAGCCCGCTTGGTTGAG	0.697											OREG0023195	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	5					5.18039e-06	5.57668e-06	0.00308	1	0		T	65677433	T	T	65677433	3	4	12	1	0	0	0	0	1	0	0	0	7585	1078	38	5	559	5	IGDCC4	15	65677433	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2683145	65677433	36853959	903	10378											
SLC24A1	9187	broad.mit.edu	37	chr15	65946296	65946296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttgtgatctcttcaattgCgtcatgtaaatggagaatga	11	15	10	5	1	3	3	2	2	1	1	4	4	3	3	0	1	1	2	0	1	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:65946296C>T	uc010ujf.1	+	10	3466	c.3179C>T	c.(3178-3180)GCG>GTG	p.A1060V	SLC24A1_uc010uje.1_Intron|SLC24A1_uc010ujg.1_Missense_Mutation_p.A1030V|SLC24A1_uc010ujh.1_Missense_Mutation_p.A1042V|SLC24A1_uc010uji.1_Missense_Mutation_p.A387V	NM_004727	NP_004718	O60721	NCKX1_HUMAN	solute carrier family 24	1060	Helical; (Potential).				response to light intensity|visual perception	integral to plasma membrane|membrane fraction|outer membrane	calcium, potassium:sodium antiporter activity|protein binding|symporter activity				0						TCTTCAATTGCGTCATGTAAA	0.383													28	87					0	0	0.008361	0	0		T	65946296	T	T	65946296	3	4	12	1	0	0	0	0	1	0	0	0	14490	768	27	1	1319	1	SLC24A1	15	65946296	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	268863	65946296	36585096	904	10379											
ITGA11	22801	broad.mit.edu	37	chr15	68617468	68617468	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgccctgtaccgagatgtaCcgagactctgagagtggtgg	8	9	15	9	2	1	3	0	1	1	3	1	6	1	3	3	2	3	2	3	2	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:68617468C>T	uc002ari.2	-	18	2409	c.2322_splice	c.e18+1	p.S774_splice	ITGA11_uc010bib.2_Splice_Site_p.S774_splice	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor						cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	CCGAGATGTACCGAGACTCTG	0.622													3	18					0	0	0.009096	0	0		T	68617468	T	T	68617468	5	4	12	1	0	0	0	0	0	0	1	0	7890	521	18	4	1295	4	ITGA11	15	68617468	Splice_Site	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2671172	68617468	33913924	905	10380											
NOX5	79400	broad.mit.edu	37	chr15	69329504	69329504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcggactggcagtgtcccGcatggcagccgtgtgcatca	7	8	13	13	3	1	0	1	0	0	0	3	1	2	1	2	3	2	4	2	3	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:69329504G>A	uc002ars.1	+	8	1345	c.1325G>A	c.(1324-1326)CGC>CAC	p.R442H	NOX5_uc002arp.1_Missense_Mutation_p.R424H|NOX5_uc002arq.1_Missense_Mutation_p.R396H|NOX5_uc010bid.1_Missense_Mutation_p.R407H|NOX5_uc002arr.1_Missense_Mutation_p.R414H|NOX5_uc010bie.1_Missense_Mutation_p.R242H|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	442	FAD-binding FR-type.|Helical; (Potential).				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						GCAGTGTCCCGCATGGCAGCC	0.562													10	18					0	0	0.000978	0	0		A	69329504	A	A	69329504	3	1	12	1	0	0	0	0	1	0	0	0	10578	1087	38	1	1388	1	NOX5	15	69329504	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	712036	69329504	33201888	906	10381											
LRRC49	54839	broad.mit.edu	37	chr15	71193355	71193355	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttactcagacaggttgagCctagaaaggtgaggacaatt	13	10	11	7	0	1	4	1	2	0	2	1	5	1	5	1	3	2	1	1	3	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:71193355C>T	uc002asw.2	+	4	535	c.288C>T	c.(286-288)AGC>AGT	p.S96S	LRRC49_uc002asu.2_Silent_p.S86S|LRRC49_uc002asx.2_Silent_p.S52S|LRRC49_uc010ukf.1_Silent_p.S101S|LRRC49_uc002asy.2_5'UTR|LRRC49_uc002asz.2_Silent_p.S68S	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	96						cytoplasm|microtubule				ovary(1)	1						ACAGGTTGAGCCTAGAAAGGT	0.363													12	24					0	0	0.001368	0	0		T	71193355	T	T	71193355	2	4	12	1	0	0	0	0	0	0	0	1	9024	738	26	2		2	LRRC49	15	71193355	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1863851	71193355	31338037	907	10382											
NEO1	4756	broad.mit.edu	37	chr15	73470705	73470705	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgaagggttctatcagTgcattgctgaaaatgatgtt	12	13	11	5	0	2	4	1	3	1	1	2	4	2	4	0	1	2	4	0	1	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:73470705T>C	uc002avm.3	+	7	1370	c.1228T>C	c.(1228-1230)TGC>CGC	p.C410R	NEO1_uc010ukx.1_Missense_Mutation_p.C410R|NEO1_uc010uky.1_Missense_Mutation_p.C410R|NEO1_uc010ukz.1_5'UTR|NEO1_uc002avn.3_Missense_Mutation_p.C55R	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	410	Extracellular (Potential).|Ig-like C2-type 4.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						GTTCTATCAGTGCATTGCTGA	0.363													12	26					0	0	0.003163	0	0		C	73470705	C	C	73470705	3	2	12	1	0	0	0	0	1	0	0	0	10355	1696	59	3	1254	3	NEO1	15	73470705	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	2277350	73470705	29060687	908	10383											
NEO1	4756	broad.mit.edu	37	chr15	73594972	73594972	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagctatgaaccagatgagCtgaccaaagagatggcccac	15	5	11	10	0	0	6	0	3	0	3	0	7	0	6	3	1	3	2	3	1	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:73594972C>T	uc002avm.3	+	29	4463	c.4321C>T	c.(4321-4323)CTG>TTG	p.L1441L	NEO1_uc010ukx.1_Silent_p.L1430L|NEO1_uc010uky.1_Silent_p.L1388L|NEO1_uc010ukz.1_Silent_p.L854L|NEO1_uc002avn.3_Silent_p.L1079L	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	1441	Cytoplasmic (Potential).				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						ACCAGATGAGCTGACCAAAGA	0.507													8	27					0	0	0.004482	0	0		T	73594972	T	T	73594972	2	4	12	1	0	0	0	0	0	0	0	1	10355	796	28	2		2	NEO1	15	73594972	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	124267	73594972	28936420	909	10384											
CSPG4	1464	broad.mit.edu	37	chr15	75968797	75968797	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggactctgaagtggtcAtgagaggaggagaagttggt	11	8	17	5	0	2	3	1	2	1	2	2	7	2	5	1	5	0	1	1	5	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:75968797A>G	uc002baw.2	-	10	6156	c.6063T>C	c.(6061-6063)CAT>CAC	p.H2021H		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	2021	Extracellular (Potential).|CSPG 14.|Cysteine-containing.|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						TGAAGTGGTCATGAGAGGAGG	0.602													22	50					0	0	0.008361	0	0		G	75968797	G	G	75968797	2	3	12	1	0	0	0	0	0	0	0	1	3963	214	8	3		3	CSPG4	15	75968797	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2373825	75968797	26562595	910	10385											
CHRNB4	1143	broad.mit.edu	37	chr15	78921917	78921917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagcaaggtggtgagcaCgcaggggatgatgaggttga	10	6	19	6	1	0	4	0	4	0	0	0	5	0	5	1	6	2	4	1	6	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:78921917C>T	uc002bed.1	-	5	842	c.730G>A	c.(730-732)GTG>ATG	p.V244M	CHRNB4_uc002bee.1_Intron|CHRNB4_uc010blh.1_Missense_Mutation_p.V62M	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	244	Helical; (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						GTGGTGAGCACGCAGGGGATG	0.547													20	45					0	0	0.005443	0	0		T	78921917	T	T	78921917	3	4	12	1	0	0	0	0	1	0	0	0	3396	536	19	1	774	1	CHRNB4	15	78921917	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2953120	78921917	23609475	911	10386											
SH3GL3	6457	broad.mit.edu	37	chr15	84237297	84237297	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagcatacagagctaagctAggaatgctgaacactgtgtc	14	9	10	8	0	0	2	0	1	0	1	1	3	0	3	0	1	6	4	0	1	6	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:84237297A>G	uc002bjw.2	+	4	399	c.204A>G	c.(202-204)CTA>CTG	p.L68L	SH3GL3_uc010uot.1_Silent_p.L68L|SH3GL3_uc002bjx.2_5'UTR|SH3GL3_uc002bju.2_Silent_p.L76L|SH3GL3_uc002bjv.2_RNA	NM_003027	NP_003018	Q99963	SH3G3_HUMAN	SH3-domain GRB2-like 3	68	Required for dimerization upon membrane association (By similarity).|BAR.				central nervous system development|endocytosis|signal transduction	early endosome membrane	identical protein binding|lipid binding			pancreas(1)|central_nervous_system(1)|skin(1)	3						GAGCTAAGCTAGGAATGCTGA	0.448													13	41					0	0	0.001855	0	0		G	84237297	G	G	84237297	2	3	12	1	0	0	0	0	0	0	0	1	14277	407	15	3		3	SH3GL3	15	84237297	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	5315380	84237297	18294095	912	10387											
ZSCAN2	54993	broad.mit.edu	37	chr15	85164068	85164068	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcataggcctgcagggCacctacctaggggagaagcc	10	5	13	13	0	1	1	1	0	0	1	1	2	1	1	4	4	4	3	4	4	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:85164068C>T	uc002bkr.2	+	3	868	c.642C>T	c.(640-642)GGC>GGT	p.G214G	ZSCAN2_uc010bmz.1_Silent_p.G212G|ZSCAN2_uc010bna.2_Silent_p.G64G|ZSCAN2_uc010uox.1_Intron|ZSCAN2_uc010uoy.1_Intron|ZSCAN2_uc010uoz.1_Intron	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	214					cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		GCCTGCAGGGCACCTACCTAG	0.602													12	45					0	0	0.000978	0	0		T	85164068	T	T	85164068	2	4	12	1	0	0	0	0	0	0	0	1	18256	697	25	2		2	ZSCAN2	15	85164068	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	926771	85164068	17367324	913	10388											
SEMA4B	10509	broad.mit.edu	37	chr15	90766851	90766851	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccttcctcaaggcccagCtgctgtgctcacggcccgac	5	8	9	19	2	2	0	2	0	0	0	4	1	4	0	5	2	3	3	5	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:90766851C>T	uc002boy.2	+	9	1205	c.922C>T	c.(922-924)CTG>TTG	p.L308L	SEMA4B_uc002boz.2_Silent_p.L308L|SEMA4B_uc010uqd.1_Silent_p.L146L|SEMA4B_uc002bpa.2_Silent_p.L146L|SEMA4B_uc010bnv.1_5'UTR	NM_020210	NP_064595			semaphorin 4B precursor											ovary(1)|breast(1)|kidney(1)	3	Melanoma(11;0.00551)|Lung NSC(78;0.0125)|all_lung(78;0.0272)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.217)			CAAGGCCCAGCTGCTGTGCTC	0.637													7	5					0	0	0.001984	0	0		T	90766851	T	T	90766851	2	4	12	1	0	0	0	0	0	0	0	1	14057	796	28	2		2	SEMA4B	15	90766851	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	5602783	90766851	11764541	914	10389											
SLCO3A1	28232	broad.mit.edu	37	chr15	92647631	92647631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgggtttccacagtccctgCccccgcactcagagcccgcc	5	8	9	19	2	1	1	1	0	0	1	3	1	3	1	6	1	2	2	6	1	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:92647631C>T	uc002bqx.2	+	4	1069	c.868C>T	c.(868-870)CCC>TCC	p.P290S	SLCO3A1_uc002bqy.2_Missense_Mutation_p.P290S|SLCO3A1_uc010boc.1_RNA|SLCO3A1_uc002bqz.1_Missense_Mutation_p.P232S	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,	290	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			ACAGTCCCTGCCCCCGCACTC	0.617													10	33					0	0	0.001368	0	0		T	92647631	T	T	92647631	3	4	12	1	0	0	0	0	1	0	0	0	14753	739	26	2	882	2	SLCO3A1	15	92647631	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1880780	92647631	9883761	915	10390											
MCTP2	55784	broad.mit.edu	37	chr15	94901781	94901781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctacttctctgacaggatggGcattttggacattgaagtgt	9	14	11	7	0	1	2	0	2	1	0	2	4	1	4	0	3	1	1	0	3	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:94901781G>A	uc002btj.2	+	9	1306	c.1241G>A	c.(1240-1242)GGC>GAC	p.G414D	MCTP2_uc010urg.1_Silent_p.G392G|MCTP2_uc002bti.2_Missense_Mutation_p.G414D|MCTP2_uc010boj.2_Missense_Mutation_p.G143D|MCTP2_uc010bok.2_Missense_Mutation_p.G414D|MCTP2_uc002btk.3_Missense_Mutation_p.G2D|MCTP2_uc002btl.2_Missense_Mutation_p.G2D	NM_018349	NP_060819	Q6DN12	MCTP2_HUMAN	multiple C2 domains, transmembrane 2 isoform 1	414	C2 2.				calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(78;0.0821)|all_lung(78;0.148)		BRCA - Breast invasive adenocarcinoma(143;0.0323)|OV - Ovarian serous cystadenocarcinoma(32;0.0593)			GACAGGATGGGCATTTTGGAC	0.453													14	26					0	0	0.00245	0	0		A	94901781	A	A	94901781	3	1	12	1	0	0	0	0	1	0	0	0	9419	1203	42	2	1275	2	MCTP2	15	94901781	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2254150	94901781	7629611	916	10391											
SYNM	23336	broad.mit.edu	37	chr15	99671044	99671044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcaggtgattcagagggcGagcagagttattttgtgtcc	9	11	15	6	1	1	3	1	1	0	2	2	4	2	3	1	3	1	3	1	3	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:99671044G>A	uc002bup.2	+	6	2599	c.2479G>A	c.(2479-2481)GAG>AAG	p.E827K	SYNM_uc002buo.2_Missense_Mutation_p.E827K|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	827	Tail.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						TTCAGAGGGCGAGCAGAGTTA	0.547													17	20					0	0	0.00499	0	0		A	99671044	A	A	99671044	3	1	12	1	0	0	0	0	1	0	0	0	15480	1059	37	1	2492	1	SYNM	15	99671044	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4769263	99671044	2860348	917	10392											
CHSY1	22856	broad.mit.edu	37	chr15	101775430	101775430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcccggctcatgatcaCgccaggcccccccatgcaga	8	5	8	20	2	2	2	2	1	0	1	3	2	3	2	6	2	1	2	6	2	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:101775430C>T	uc002bwt.1	-	3	1156	c.673G>A	c.(673-675)GTG>ATG	p.V225M		NM_014918	NP_055733	Q86X52	CHSS1_HUMAN	chondroitin sulfate synthase 1	225	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity				0	Lung NSC(78;0.00217)|all_lung(78;0.00271)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CTCATGATCACGCCAGGCCCC	0.612													4	47					0	0	0.009096	0	0		T	101775430	T	T	101775430	3	4	12	1	0	0	0	0	1	0	0	0	3415	536	19	1	1743	1	CHSY1	15	101775430	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2104386	101775430	755962	918	10393											
TM2D3	80213	broad.mit.edu	37	chr15	102182749	102182749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcaggacgtctatcagcGtccatattcccaggccaccg	9	8	10	14	3	2	1	1	1	1	0	4	2	4	2	4	2	2	1	4	2	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:102182749G>A	uc002bxi.2	-	6	707	c.677C>T	c.(676-678)ACG>ATG	p.T226M	TM2D3_uc010usg.1_Intron|TM2D3_uc002bxh.2_Missense_Mutation_p.T161M|TM2D3_uc002bxj.2_Missense_Mutation_p.T200M|TM2D3_uc002bxk.2_Missense_Mutation_p.T161M	NM_078474	NP_510883	Q9BRN9	TM2D3_HUMAN	TM2 domain containing 3 isoform a	226	Helical; (Potential).					integral to membrane				ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GTCTATCAGCGTCCATATTCC	0.557													18	30					0	0	0.001882	0	0		A	102182749	A	A	102182749	3	1	12	1	0	0	0	0	1	0	0	0	15990	1145	40	1	70	1	TM2D3	15	102182749	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	407319	102182749	348643	919	10394											
TARSL2	123283	broad.mit.edu	37	chr15	102224299	102224299	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctccactgtgcaaaaaatGtgagcatcgtcctgctggaa	11	10	10	10	1	0	1	0	1	0	0	3	2	2	2	2	1	4	4	2	1	4	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr15:102224299G>A	uc002bxm.2	-	12	1684	c.1629C>T	c.(1627-1629)CAC>CAT	p.H543H	TARSL2_uc002bxl.2_Silent_p.H88H|TARSL2_uc010usi.1_RNA	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2	543					threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGCAAAAAATGTGAGCATCGT	0.468													10	19					0	0	0.006214	0	0		A	102224299	A	A	102224299	2	1	12	1	0	0	0	0	0	0	0	1	15586	1368	48	4		4	TARSL2	15	102224299	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	41550	102224299	307093	920	10395											
AXIN1	8312	broad.mit.edu	37	chr16	339512	339512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcggcccctcaccagggtgCggtaggggatgggttccccg	4	6	17	14	4	1	0	1	0	0	0	2	1	2	1	5	6	1	2	5	6	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:339512C>T	uc002cgp.1	-	10	2567	c.2390G>A	c.(2389-2391)CGC>CAC	p.R797H	AXIN1_uc002cgq.1_Missense_Mutation_p.R761H	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	797	DIX.				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				CACCAGGGTGCGGTAGGGGAT	0.652													8	25					0	0	0.001368	0	0		T	339512	T	T	339512	3	4	12	1	0	0	0	0	1	0	0	0	1237	768	27	1	206	1	AXIN1	16	339512	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08		339512	90015241	921	10396											
JMJD8	339123	broad.mit.edu	37	chr16	733072	733072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctctggcgtcttctcaggtgGgtaaaggaaccagcgctggg	7	9	15	10	2	3	0	1	0	3	0	4	1	3	1	1	5	2	2	1	5	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:733072G>A	uc002ciw.1	-	8	715	c.658C>T	c.(658-660)CCA>TCA	p.P220S	JMJD8_uc002cix.1_Missense_Mutation_p.P220S|JMJD8_uc002ciy.1_Missense_Mutation_p.P190S	NM_001005920	NP_001005920	Q96S16	JMJD8_HUMAN	jumonji domain containing 8	269	JmjC.									breast(1)	1						TTCTCAGGTGGGTAAAGGAAC	0.642													12	51					0	0	0.001855	0	0		A	733072	A	A	733072	3	1	12	1	0	0	0	0	1	0	0	0	7972	1232	43	4	207	4	JMJD8	16	733072	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	393560	733072	89621681	922	10397											
BAIAP3	8938	broad.mit.edu	37	chr16	1394670	1394670	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgatgaccttcagttctgCtacagtgtgtacgccagcct	8	13	9	11	1	2	2	1	2	1	0	2	2	2	2	3	0	4	3	3	0	3	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:1394670C>A	uc002clk.1	+	19	1833	c.1833C>A	c.(1831-1833)TGC>TGA	p.C611*	BAIAP3_uc002clj.2_Nonsense_Mutation_p.C593*|BAIAP3_uc010uuz.1_Nonsense_Mutation_p.C576*|BAIAP3_uc010uva.1_Nonsense_Mutation_p.C548*|BAIAP3_uc010uvc.1_Nonsense_Mutation_p.C540*	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	611					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				TTCAGTTCTGCTACAGTGTGT	0.652													8	36					1.58986e-06	1.72235e-06	0.008291	1	0		A	1394670	A	A	1394670	4	1	12	1	0	0	0	0	0	1	0	0	1305	805	28	5	1907	5	BAIAP3	16	1394670	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	661598	1394670	88960083	923	10398											
RPS2	6187	broad.mit.edu	37	chr16	2012162	2012162	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actctggtgtgggtcttgacGaggtggtcagtgaactcctg	6	12	15	8	1	3	2	1	2	2	0	4	3	4	2	1	4	1	0	1	4	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:2012162G>A	uc002cnn.2	-	6	1007	c.819C>T	c.(817-819)CTC>CTT	p.L273L	RPS2_uc010bsa.1_RNA|RPS2_uc002cnl.2_Silent_p.L215L|RPS2_uc002cnm.2_RNA|RPS2_uc002cno.2_Silent_p.L273L|SNHG9_uc002cnr.2_5'Flank	NM_002952	NP_002943	P15880	RS2_HUMAN	ribosomal protein S2	273					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleoplasm	fibroblast growth factor 1 binding|fibroblast growth factor 3 binding|RNA binding|structural constituent of ribosome				0						GGGTCTTGACGAGGTGGTCAG	0.493													6	22					0	0	0.00308	0	0		A	2012162	A	A	2012162	2	1	12	1	0	0	0	0	0	0	0	1	13656	1045	37	1		1	RPS2	16	2012162	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	617492	2012162	88342591	924	10399											
CASKIN1	57524	broad.mit.edu	37	chr16	2240127	2240127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagcagcaggctgatcAattccgtgttgccgttcagg	7	10	11	13	2	2	1	2	1	0	0	4	1	4	1	4	2	3	5	4	2	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:2240127A>G	uc010bsg.1	-	3	223	c.191T>C	c.(190-192)TTG>TCG	p.L64S		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	64	ANK 1.				signal transduction	cytoplasm				skin(2)	2						CAGGCTGATCAATTCCGTGTT	0.672													3	18					0	0	0.001168	0	0		G	2240127	G	G	2240127	3	3	12	1	0	0	0	0	1	0	0	0	2669	131	5	3	4176	3	CASKIN1	16	2240127	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	227965	2240127	88114626	925	10400											
MLST8	64223	broad.mit.edu	37	chr16	2258499	2258499	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgcaagatctggaggacGtccaacttctccctgatgac	10	9	10	12	2	2	3	0	2	2	1	4	5	3	5	2	2	2	1	2	2	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:2258499G>A	uc002coz.2	+	8	866	c.747G>A	c.(745-747)ACG>ACA	p.T249T	MLST8_uc002coy.2_Silent_p.T249T|MLST8_uc002cpa.2_Silent_p.T65T|MLST8_uc002cpb.2_Silent_p.T248T|MLST8_uc010uvx.1_Silent_p.T183T|MLST8_uc002cpc.2_Silent_p.T249T|MLST8_uc002cpd.2_Silent_p.T183T|MLST8_uc002cpe.2_Silent_p.T249T|MLST8_uc002cpg.2_Silent_p.T268T|MLST8_uc002cph.2_RNA|MLST8_uc002cpf.2_Silent_p.T249T	NM_022372	NP_071767	Q9BVC4	LST8_HUMAN	G protein beta subunit-like	249	WD 6.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|T cell costimulation	cytosol	protein binding				0						TCTGGAGGACGTCCAACTTCT	0.662													10	33					0	0	0.001368	0	0		A	2258499	A	A	2258499	2	1	12	1	0	0	0	0	0	0	0	1	9652	1132	40	1		1	MLST8	16	2258499	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	18372	2258499	88096254	926	10401											
ADCY9	115	broad.mit.edu	37	chr16	4164627	4164627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgcagggccccggctcCgggcgaggggaagcaggctt	6	4	18	13	3	0	0	0	0	0	0	1	2	1	1	4	6	2	4	4	6	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:4164627C>T	uc002cvx.2	-	2	1356	c.817G>A	c.(817-819)GGA>AGA	p.G273R		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	273	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						GCCCCGGCTCCGGGCGAGGGG	0.622													6	25					0	0	0.006214	0	0		T	4164627	T	T	4164627	3	4	12	1	0	0	0	0	1	0	0	0	301	661	23	1	3284	1	ADCY9	16	4164627	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1906128	4164627	86190126	927	10402											
ADCY9	115	broad.mit.edu	37	chr16	4164980	4164980	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaaagaagcccacacacAccaggaggaagcacagcgcg	17	0	11	13	2	0	2	0	0	0	2	0	4	0	4	2	2	3	1	2	2	3	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:4164980A>G	uc002cvx.2	-	2	1003	c.464T>C	c.(463-465)GTG>GCG	p.V155A		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	155	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						GCCCACACACACCAGGAGGAA	0.587													9	30					0	0	0.008291	0	0		G	4164980	G	G	4164980	3	3	12	1	0	0	0	0	1	0	0	0	301	159	6	3	3637	3	ADCY9	16	4164980	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	353	4164980	86189773	928	10403											
TFAP4	7023	broad.mit.edu	37	chr16	4312636	4312636	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccgctcgttgctgttggcGatctcccgccgaatccgccg	3	10	11	17	7	1	0	0	0	1	0	5	2	3	0	5	1	1	4	5	1	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:4312636G>A	uc010uxg.1	-	2	410	c.156C>T	c.(154-156)ATC>ATT	p.I52I		NM_003223	NP_003214	Q01664	TFAP4_HUMAN	transcription factor AP-4 (activating enhancer	52	Basic motif.				DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation by host of viral transcription|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|regulation of S phase of mitotic cell cycle	transcriptional repressor complex	E-box binding|histone deacetylase binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						TGCTGTTGGCGATCTCCCGCC	0.627													26	24					0	0	0.002445	0	0		A	4312636	A	A	4312636	2	1	12	1	0	0	0	0	0	0	0	1	15817	1048	37	1		1	TFAP4	16	4312636	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	147656	4312636	86042117	929	10404											
MGRN1	23295	broad.mit.edu	37	chr16	4701990	4701990	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtcactcctgccccccaCgagcccgtgaagacgctgcg	7	6	10	18	5	1	2	1	1	0	1	2	3	2	2	5	0	4	1	5	0	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:4701990C>T	uc002cwz.2	+	3	370	c.234C>T	c.(232-234)CAC>CAT	p.H78H	MGRN1_uc002cxa.2_Silent_p.H78H|MGRN1_uc010btx.2_Silent_p.H78H|MGRN1_uc010btw.2_Silent_p.H78H|MGRN1_uc002cxb.2_Silent_p.H78H|MGRN1_uc010uxo.1_Silent_p.H78H|MGRN1_uc010uxp.1_Silent_p.H78H|MGRN1_uc010uxq.1_RNA	NM_001142290	NP_001135762	O60291	MGRN1_HUMAN	mahogunin, ring finger 1 isoform 3	78					endosome to lysosome transport|negative regulation of cAMP-mediated signaling|negative regulation of G-protein coupled receptor protein signaling pathway|protein monoubiquitination	cytosol|early endosome|nucleus|plasma membrane|plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2						CTGCCCCCCACGAGCCCGTGA	0.617													7	23					0	0	0.000978	0	0		T	4701990	T	T	4701990	2	4	12	1	0	0	0	0	0	0	0	1	9577	535	19	1		1	MGRN1	16	4701990	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	389354	4701990	85652763	930	10405											
A2BP1	54715	broad.mit.edu	37	chr16	7645632	7645632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcaccgtggtagagggcCgtaaaatcgaggtgcatgtt	10	8	15	8	4	0	1	0	0	0	1	1	2	0	1	2	4	1	5	2	4	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:7645632C>T	uc002cys.2	+	8	1538	c.550C>T	c.(550-552)CGT>TGT	p.R184C	A2BP1_uc010buf.1_Missense_Mutation_p.R184C|A2BP1_uc002cyr.1_Missense_Mutation_p.R183C|A2BP1_uc002cyt.2_Missense_Mutation_p.R184C|A2BP1_uc010uxz.1_Missense_Mutation_p.R227C|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Missense_Mutation_p.R184C|A2BP1_uc010uyb.1_Missense_Mutation_p.R184C|A2BP1_uc002cyw.2_Missense_Mutation_p.R204C|A2BP1_uc002cyy.2_Missense_Mutation_p.R204C|A2BP1_uc002cyx.2_Missense_Mutation_p.R204C|A2BP1_uc010uyc.1_Missense_Mutation_p.R204C	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	184	RRM.	Interaction with RNA.			mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		GGTAGAGGGCCGTAAAATCGA	0.453													33	64					0	0	0.005524	0	0		T	7645632	T	T	7645632	3	4	12	1	0	0	0	0	1	0	0	0	3	652	23	1	659	1	A2BP1	16	7645632	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2943642	7645632	82709121	931	10406											
NUBP1	4682	broad.mit.edu	37	chr16	10850626	10850626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctgttatctggaggggacCcaagaaaaacggtttgccac	11	9	12	9	1	1	1	0	0	1	1	1	3	1	3	2	4	3	3	2	4	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:10850626C>T	uc002daa.1	+	6	463	c.440C>T	c.(439-441)CCC>CTC	p.P147L	NUBP1_uc010bum.1_Intron|NUBP1_uc002dab.1_Missense_Mutation_p.P136L	NM_002484	NP_002475	P53384	NUBP1_HUMAN	nucleotide binding protein 1	147					cell growth|cellular iron ion homeostasis|iron-sulfur cluster assembly	cytosol	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding|nucleoside-triphosphatase activity|protein binding			ovary(1)|skin(1)	2						TGGAGGGGACCCAAGAAAAAC	0.532													8	31					0	0	0.006214	0	0		T	10850626	T	T	10850626	3	4	12	1	0	0	0	0	1	0	0	0	10734	623	22	4	462	4	NUBP1	16	10850626	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3204994	10850626	79504127	932	10407											
FAM18A	780776	broad.mit.edu	37	chr16	10868933	10868933	+	Frame_Shift_Del	DEL	A	-	-																															tcactcggaaaaacaggtggAaaaaggtggccaaggggtgt																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:10868933delA	uc010buo.1	-	3	381	c.110delT	c.(109-111)TTCfs	p.F37fs	FAM18A_uc010uyr.1_Intron|FAM18A_uc010uys.1_Intron|FAM18A_uc010uyt.1_RNA|FAM18A_uc010bun.2_RNA|FAM18A_uc010uyu.1_Intron|FAM18A_uc002dad.3_RNA|FAM18A_uc002daf.1_RNA|FAM18A_uc002dae.1_5'UTR	NM_001079512	NP_001072980	A6NH52	FA18A_HUMAN	hypothetical protein LOC780776	37	Helical; (Potential).					integral to membrane					0						AAACAGGTGGAAAAAGGTGGC	0.537													8	10	---	---	---	---						.	-	10868933	-	-	10868933	7	5	12	1	0	1	0	1	0	0	0	0	5529	246	9	0	551	0	FAM18A	16	10868933	Frame_Shift_Del	DEL	A	TCGA-BR-4257-01A-01D-1126-08	18307	10868933	79485820	933	10408											
BFAR	51283	broad.mit.edu	37	chr16	14758878	14758878	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaatgctatgttactctcAgttctggaattattctcctt	9	18	5	9	0	4	0	2	0	3	0	6	1	4	1	1	1	2	3	1	1	5	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:14758878A>G	uc002dco.2	+	7	1391	c.1110A>G	c.(1108-1110)TCA>TCG	p.S370S	BFAR_uc002dcp.2_Silent_p.S245S|BFAR_uc010uzh.1_Silent_p.S242S	NM_016561	NP_057645	Q9NZS9	BFAR_HUMAN	bifunctional apoptosis regulator	370	Helical; (Potential).				anti-apoptosis|apoptosis	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	structural molecule activity|zinc ion binding			ovary(1)|skin(1)	2						TGTTACTCTCAGTTCTGGAAT	0.428													24	28					0	0	0.005443	0	0		G	14758878	G	G	14758878	2	3	12	1	0	0	0	0	0	0	0	1	1415	175	7	3		3	BFAR	16	14758878	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	3889945	14758878	75595875	934	10409											
ABCC6	368	broad.mit.edu	37	chr16	16302688	16302688	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaggtcttttggtctcaGtggcctcctgtatcccctcc	4	13	9	15	0	2	1	1	0	2	1	6	1	5	1	6	3	0	1	6	3	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:16302688G>A	uc002den.3	-	7	728	c.691C>T	c.(691-693)CTG>TTG	p.L231L	ABCC6_uc010bvo.2_RNA|ABCC6_uc010uzz.1_Silent_p.L243L	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	231	Cytoplasmic (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		TTTGGTCTCAGTGGCCTCCTG	0.498													6	28					0	0	0.004482	0	0		A	16302688	A	A	16302688	2	1	12	1	0	0	0	0	0	0	0	1	57	1020	36	4		4	ABCC6	16	16302688	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1543810	16302688	74052065	935	10410											
GPRC5B	51704	broad.mit.edu	37	chr16	19883873	19883873	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccagggtccccaggaggaAcagaaagtggaggcccacag	12	2	15	12	0	0	1	0	0	0	1	1	4	1	4	4	5	1	0	4	5	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:19883873A>G	uc002dgt.2	-	2	403	c.295T>C	c.(295-297)TTC>CTC	p.F99L	GPRC5B_uc010vav.1_Missense_Mutation_p.F125L	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	99	Helical; Name=2; (Potential).									lung(1)|breast(1)|skin(1)	3						CCCAGGAGGAACAGAAAGTGG	0.612													3	11					0	0	0.004672	0	0		G	19883873	G	G	19883873	3	3	12	1	0	0	0	0	1	0	0	0	6741	43	2	3	928	3	GPRC5B	16	19883873	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	3581185	19883873	70470880	936	10411											
ACSM1	116285	broad.mit.edu	37	chr16	20702489	20702489	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggatgccccagagggtccGgaacctcattagccactgca	9	7	12	13	1	1	1	1	0	0	1	2	3	2	3	5	3	4	1	5	3	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:20702489G>A	uc002dhm.1	-	1	90	c.22C>T	c.(22-24)CGG>TGG	p.R8W	ACSM1_uc002dhn.1_RNA|ACSM1_uc010bwg.1_Missense_Mutation_p.R8W	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	8					benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						CAGAGGGTCCGGAACCTCATT	0.532													11	48					0	0	0.001368	0	0		A	20702489	A	A	20702489	3	1	12	1	0	0	0	0	1	0	0	0	182	1115	39	1	1763	1	ACSM1	16	20702489	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	818616	20702489	69652264	937	10412											
DNAH3	55567	broad.mit.edu	37	chr16	21042447	21042447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcaaatataatccacttgcGatcatcagagagtgaagacg	16	9	8	8	2	3	3	3	1	0	2	4	5	4	3	1	0	1	0	1	0	4	3	rs146173789		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:21042447G>A	uc010vbe.1	-	37	5359	c.5359C>T	c.(5359-5361)CGC>TGC	p.R1787C		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1787	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ATCCACTTGCGATCATCAGAG	0.458													12	42					0	0	0.000978	0	0		A	21042447	A	A	21042447	3	1	12	1	0	0	0	0	1	0	0	0	4609	1058	37	1	7094	1	DNAH3	16	21042447	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	339958	21042447	69312306	938	10413											
IL4R	3566	broad.mit.edu	37	chr16	27353456	27353456	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccagggaacatgaaggtcTtgcaggagcccacctgcgtc	9	6	12	14	1	1	1	0	1	1	0	2	3	1	3	4	3	4	1	4	3	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:27353456T>C	uc002don.2	+	4	327	c.85T>C	c.(85-87)TTG>CTG	p.L29L	IL4R_uc002dom.2_Silent_p.L29L|IL4R_uc002dop.3_Silent_p.L14L|IL4R_uc010bxy.2_Silent_p.L29L|IL4R_uc002doo.2_5'UTR	NM_000418	NP_000409	P24394	IL4RA_HUMAN	interleukin 4 receptor alpha chain isoform a	29	Extracellular (Potential).				immune response|production of molecular mediator involved in inflammatory response	integral to plasma membrane	identical protein binding|interleukin-4 receptor activity|receptor signaling protein activity			ovary(1)|skin(1)	2						CATGAAGGTCTTGCAGGAGCC	0.577													4	29					0	0	0.001984	0	0		C	27353456	C	C	27353456	2	2	12	1	0	0	0	0	0	0	0	1	7714	1606	56	3		3	IL4R	16	27353456	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	6311009	27353456	63001297	939	10414											
IL27	246778	broad.mit.edu	37	chr16	28513323	28513323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggaggtgccgctgcagatCgcggaggtccagcctcatgg	6	6	17	12	4	1	1	1	0	0	1	3	3	2	3	3	5	3	2	3	5	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:28513323C>T	uc002dqc.2	-	4	459	c.436G>A	c.(436-438)GAT>AAT	p.D146N	uc010vct.1_Intron	NM_145659	NP_663634	Q8NEV9	IL27A_HUMAN	interleukin 27 precursor	146					inflammatory response|innate immune response|positive regulation of interferon-gamma biosynthetic process|regulation of defense response to virus|regulation of T cell proliferation|regulation of T-helper 1 cell differentiation	extracellular space	cytokine activity|interleukin-27 receptor binding				0						CGCTGCAGATCGCGGAGGTCC	0.652													9	20					0	0	0.006214	0	0		T	28513323	T	T	28513323	3	4	12	1	0	0	0	0	1	0	0	0	7696	884	31	1	303	1	IL27	16	28513323	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1159867	28513323	61841430	940	10415											
KCTD13	253980	broad.mit.edu	37	chr16	29922371	29922371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgattttgcggccctgcccGtagaaagaccagcagcagat	10	7	12	12	3	0	3	0	0	0	3	0	4	0	3	3	1	4	3	3	1	2	3	rs143894366		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:29922371G>A	uc002duv.2	-	5	872	c.681C>T	c.(679-681)TAC>TAT	p.Y227Y	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|ASPHD1_uc002duu.3_Intron|ASPHD1_uc010bzi.2_Intron|KCTD13_uc010vee.1_RNA	NM_178863	NP_849194	Q8WZ19	BACD1_HUMAN	potassium channel tetramerisation domain	227					cell migration|DNA replication|negative regulation of Rho protein signal transduction|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|nucleus|voltage-gated potassium channel complex	GTP-Rho binding|voltage-gated potassium channel activity				0						GGCCCTGCCCGTAGAAAGACC	0.587													10	35					0	0	0.000978	0	0		A	29922371	A	A	29922371	2	1	12	1	0	0	0	0	0	0	0	1	8116	1140	40	1		1	KCTD13	16	29922371	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1409048	29922371	60432382	941	10416											
HIRIP3	8479	broad.mit.edu	37	chr16	30005496	30005496	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcaacctcttcccaccctTaagctgggtcctgtcctcac	7	11	5	18	0	3	0	2	0	1	0	6	0	6	0	5	1	2	1	5	1	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:30005496T>C	uc002dve.2	-	4	1431	c.970A>G	c.(970-972)AAG>GAG	p.K324E	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|INO80E_uc002dvg.1_5'Flank|INO80E_uc002dvh.1_5'Flank|INO80E_uc002dvi.1_5'Flank|INO80E_uc002dvj.1_5'Flank|INO80E_uc002dvk.1_5'Flank|HIRIP3_uc002dvf.2_Intron	NM_003609	NP_003600	Q9BW71	HIRP3_HUMAN	HIRA interacting protein 3	324					chromatin assembly or disassembly	nucleus	protein binding			central_nervous_system(1)	1						TTCCCACCCTTAAGCTGGGTC	0.577													15	76					0	0	0.003163	0	0		C	30005496	C	C	30005496	3	2	12	1	0	0	0	0	1	0	0	0	7137	1763	61	3	716	3	HIRIP3	16	30005496	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	83125	30005496	60349257	942	10417											
TBX6	6911	broad.mit.edu	37	chr16	30100291	30100291	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggggtccagcgtgctgttGgtgagcttgacacgatggaa	7	10	17	7	2	0	2	0	2	0	0	1	4	1	3	1	4	3	3	1	4	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:30100291G>T	uc010veh.1	-	4	654	c.594C>A	c.(592-594)ACC>ACA	p.T198T	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TBX6_uc002dwk.1_Silent_p.T198T	NM_004608	NP_004599	O95947	TBX6_HUMAN	T-box 6	198	T-box.				anatomical structure morphogenesis|mesoderm development|multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GCGTGCTGTTGGTGAGCTTGA	0.652													8	31					0.000219431	0.00023165	0.00245	1	0		T	30100291	T	T	30100291	2	4	12	1	0	0	0	0	0	0	0	1	15687	1335	47	5		5	TBX6	16	30100291	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	94795	30100291	60254462	943	10418											
ZNF668	79759	broad.mit.edu	37	chr16	31072722	31072722	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgggggggcttctcgtcAgcctcctcaccccccgcctc	4	8	10	19	2	3	0	2	0	1	0	6	0	4	0	6	3	2	1	6	3	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:31072722A>G	uc010caf.2	-	3	1884	c.1527T>C	c.(1525-1527)GCT>GCC	p.A509A	ZNF668_uc002eao.2_Silent_p.A509A	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	509					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						GCTTCTCGTCAGCCTCCTCAC	0.657													7	37					0	0	0.004482	0	0		G	31072722	G	G	31072722	2	3	12	1	0	0	0	0	0	0	0	1	18100	175	7	3		3	ZNF668	16	31072722	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	972431	31072722	59282031	944	10419											
MYST1	84148	broad.mit.edu	37	chr16	31131803	31131803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatcactcgcaaccaaaagCgcaagcatgatgagatcaac	17	5	8	11	2	2	3	2	2	0	2	3	4	2	3	1	0	4	3	1	0	5	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:31131803C>T	uc002eay.2	+	3	448	c.430C>T	c.(430-432)CGC>TGC	p.R144C	MYST1_uc002eax.2_Missense_Mutation_p.R144C	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	144					histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						CAACCAAAAGCGCAAGCATGA	0.567													9	20					0	0	0.001368	0	0		T	31131803	T	T	31131803	3	4	12	1	0	0	0	0	1	0	0	0	10120	768	27	1	440	1	MYST1	16	31131803	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	59081	31131803	59222950	945	10420											
ITGAX	3687	broad.mit.edu	37	chr16	31383801	31383801	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcggcctatgctggccGccgatgctcagagatacttc	7	9	11	14	3	1	1	1	0	0	1	2	3	1	1	4	2	4	2	4	2	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:31383801G>A	uc002ebu.1	+	18	2330	c.2263G>A	c.(2263-2265)GCC>ACC	p.A755T	ITGAX_uc002ebt.2_Missense_Mutation_p.A755T	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	755	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TATGCTGGCCGCCGATGCTCA	0.632													13	12					0	0	0.004007	0	0		A	31383801	A	A	31383801	3	1	12	1	0	0	0	0	1	0	0	0	7905	1087	38	1	2333	1	ITGAX	16	31383801	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	251998	31383801	58970952	946	10421											
ZNF423	23090	broad.mit.edu	37	chr16	49671711	49671711	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgttgaggttgtagagggtgGgcatggagtccaggcagatc	8	9	18	6	1	0	3	0	1	0	2	2	4	1	4	1	5	0	5	1	5	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:49671711G>T	uc002efs.2	-	5	1650	c.1352C>A	c.(1351-1353)CCC>CAC	p.P451H	ZNF423_uc010vgn.1_Missense_Mutation_p.P334H	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	451	C2H2-type 10.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GTAGAGGGTGGGCATGGAGTC	0.562													5	66					1.23904e-05	1.32859e-05	0.000602	1	0		T	49671711	T	T	49671711	3	4	12	1	0	0	0	0	1	0	0	0	17923	1232	43	5	2522	5	ZNF423	16	49671711	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	18287910	49671711	40683042	947	10422											
ADCY7	113	broad.mit.edu	37	chr16	50332842	50332842	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcatgcgaatcaagatcCtcggcgactgctactactgt	10	10	10	11	3	1	1	1	0	0	1	3	3	2	1	1	1	5	2	1	1	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:50332842C>A	uc002egd.1	+	7	1244	c.976C>A	c.(976-978)CTC>ATC	p.L326I	ADCY7_uc002egb.1_Missense_Mutation_p.L326I|ADCY7_uc002egc.1_Missense_Mutation_p.L326I	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	326	Cytoplasmic (Potential).|Guanylate cyclase 1.				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	AATCAAGATCCTCGGCGACTG	0.637													13	32					1.05317e-09	1.17162e-09	0.00245	1	0		A	50332842	A	A	50332842	3	1	12	1	0	0	0	0	1	0	0	0	299	681	24	5	1002	5	ADCY7	16	50332842	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	661131	50332842	40021911	948	10423											
NOD2	64127	broad.mit.edu	37	chr16	50744697	50744697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccacctcaatgacgatgCggacactgtgctggtggtgg	7	9	15	10	2	1	1	1	1	0	0	1	3	1	2	2	5	2	1	2	5	1	0	rs149338478	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:50744697C>T	uc002egm.1	+	4	980	c.875C>T	c.(874-876)GCG>GTG	p.A292V	NOD2_uc010cbk.1_Missense_Mutation_p.A265V|NOD2_uc002egl.1_Missense_Mutation_p.A70V|NOD2_uc010cbl.1_Missense_Mutation_p.A70V|NOD2_uc010cbm.1_Missense_Mutation_p.A70V|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	292					activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				AATGACGATGCGGACACTGTG	0.647													3	14					0	0	0.000602	0	0		T	50744697	T	T	50744697	3	4	12	1	0	0	0	0	1	0	0	0	10536	768	27	1	889	1	NOD2	16	50744697	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	411855	50744697	39610056	949	10424											
SALL1	6299	broad.mit.edu	37	chr16	51174686	51174686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtggagaacctgttccCgcagatgttgcacttgaatg	8	12	12	9	1	0	3	0	1	0	2	1	4	1	3	2	2	2	4	2	2	2	4	rs148915594		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:51174686C>T	uc010vgs.1	-	2	1478	c.1447G>A	c.(1447-1449)GGG>AGG	p.G483R	SALL1_uc010vgr.1_Missense_Mutation_p.G386R|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	483	C2H2-type 2.				adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			AACCTGTTCCCGCAGATGTTG	0.527													24	55					0	0	0.00278	0	0		T	51174686	T	T	51174686	3	4	12	1	0	0	0	0	1	0	0	0	13835	652	23	1	2535	1	SALL1	16	51174686	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	429989	51174686	39180067	950	10425											
MMP2	4313	broad.mit.edu	37	chr16	55519218	55519218	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtgtttcagagcatggCgatggatacccctttgacgg	7	12	14	8	2	1	2	1	1	0	1	1	4	1	3	2	3	2	2	2	3	1	3	rs151071926		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:55519218C>T	uc002ehz.3	+	4	848	c.537C>T	c.(535-537)GGC>GGT	p.G179G	MMP2_uc010vhd.1_Silent_p.G103G|MMP2_uc010ccc.2_Silent_p.G129G	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	179	Collagenase-like 1.				angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	CAGAGCATGGCGATGGATACC	0.567													10	92					0	0	0.00245	0	0		T	55519218	T	T	55519218	2	4	12	1	0	0	0	0	0	0	0	1	9676	755	27	1		1	MMP2	16	55519218	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4344532	55519218	34835535	951	10426											
MMP2	4313	broad.mit.edu	37	chr16	55525756	55525756	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacgagtttggccacgcCatggggctggagcactccca	7	6	13	15	2	0	0	0	0	0	0	1	2	1	1	4	4	1	3	4	4	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:55525756C>T	uc002ehz.3	+	8	1535	c.1224C>T	c.(1222-1224)GCC>GCT	p.A408A	MMP2_uc010vhd.1_Silent_p.A332A|MMP2_uc010ccc.2_Silent_p.A358A|MMP2_uc002eia.3_5'Flank	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	408	Collagenase-like 2.				angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	TTGGCCACGCCATGGGGCTGG	0.577													15	24					0	0	0.003163	0	0		T	55525756	T	T	55525756	2	4	12	1	0	0	0	0	0	0	0	1	9676	581	21	4		4	MMP2	16	55525756	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	6538	55525756	34828997	952	10427											
CETP	1071	broad.mit.edu	37	chr16	57016121	57016121	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgcagtcaatgatcacCgctgtgggcatccctgaggt	7	11	11	12	1	2	2	2	2	0	0	4	2	4	2	3	2	1	3	3	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:57016121C>T	uc002eki.2	+	14	1350	c.1293C>T	c.(1291-1293)ACC>ACT	p.T431T	CETP_uc002ekj.2_Silent_p.T371T	NM_000078	NP_000069	P11597	CETP_HUMAN	cholesteryl ester transfer protein, plasma	431					cholesterol homeostasis|cholesterol metabolic process|high-density lipoprotein particle remodeling|lipoprotein metabolic process|low-density lipoprotein particle remodeling|phosphatidylcholine metabolic process|phospholipid homeostasis|receptor-mediated endocytosis|regulation of cholesterol efflux|triglyceride homeostasis|triglyceride metabolic process|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle|vesicle	cholesterol binding|cholesterol transporter activity|phosphatidylcholine binding|phospholipid transporter activity|triglyceride binding			central_nervous_system(1)|skin(1)	2						CAATGATCACCGCTGTGGGCA	0.582													14	39					0	0	0.004007	0	0		T	57016121	T	T	57016121	2	4	12	1	0	0	0	0	0	0	0	1	3280	639	23	1		1	CETP	16	57016121	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1490365	57016121	33338632	953	10428											
NLRC5	84166	broad.mit.edu	37	chr16	57092035	57092035	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttctggaatgtctgccgCaggtgcccatctccggtttg	4	12	12	13	2	3	0	0	0	3	0	4	1	3	1	4	3	2	2	4	3	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:57092035C>T	uc002ekk.1	+	28	4030	c.3805C>T	c.(3805-3807)CAG>TAG	p.Q1269*	NLRC5_uc002ekn.2_Intron|NLRC5_uc002ekl.2_Nonsense_Mutation_p.Q1073*|NLRC5_uc002ekm.2_Nonsense_Mutation_p.Q1043*|NLRC5_uc010ccr.1_RNA|NLRC5_uc010ccs.1_RNA|NLRC5_uc002eko.1_RNA|NLRC5_uc002ekp.1_Nonsense_Mutation_p.Q184*|NLRC5_uc002ekq.1_5'UTR|NLRC5_uc002ekr.1_Nonsense_Mutation_p.Q156*	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	1269					defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				ATGTCTGCCGCAGGTGCCCAT	0.577													9	15					0	0	0.000978	0	0		T	57092035	T	T	57092035	4	4	12	1	0	0	0	0	0	1	0	0	10489	711	25	2	3907	2	NLRC5	16	57092035	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	75914	57092035	33262718	954	10429											
CCDC113	29070	broad.mit.edu	37	chr16	58288046	58288046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagggcaaatgcggaacgcGacctgcagcatcacgaggta	13	4	13	11	4	1	0	1	0	0	0	1	3	1	1	1	3	4	4	1	3	4	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:58288046G>A	uc002ene.2	+	3	452	c.373G>A	c.(373-375)GAC>AAC	p.D125N	CCDC113_uc010vid.1_Intron	NM_014157	NP_054876	Q9H0I3	CC113_HUMAN	coiled-coil domain containing 113 isoform 1	125	Potential.					protein complex					0						TGCGGAACGCGACCTGCAGCA	0.562													10	41					0	0	0.008291	0	0		A	58288046	A	A	58288046	3	1	12	1	0	0	0	0	1	0	0	0	2753	1058	37	1	383	1	CCDC113	16	58288046	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1196011	58288046	32066707	955	10430											
GOT2	2806	broad.mit.edu	37	chr16	58757658	58757658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaagctcaccttgcggaCgctaggcagaacgtaaggct	11	6	12	12	3	1	1	1	0	0	1	1	2	1	2	1	3	4	6	1	3	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:58757658C>T	uc002eof.1	-	2	352	c.238G>A	c.(238-240)GTC>ATC	p.V80I	GOT2_uc010vim.1_Missense_Mutation_p.V80I	NM_002080	NP_002071	P00505	AATM_HUMAN	aspartate aminotransferase 2 precursor	80					aspartate catabolic process|fatty acid transport|gluconeogenesis|response to ethanol	mitochondrial matrix|plasma membrane	L-aspartate:2-oxoglutarate aminotransferase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	ACCTTGCGGACGCTAGGCAGA	0.378													28	117					0	0	0.002836	0	0		T	58757658	T	T	58757658	3	4	12	1	0	0	0	0	1	0	0	0	6596	536	19	1	1090	1	GOT2	16	58757658	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	469612	58757658	31597095	956	10431											
PLEKHG4	25894	broad.mit.edu	37	chr16	67319435	67319435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggcctatgccttcctgcGccatgtaagcccgacaggcc	7	8	11	15	2	0	0	0	0	0	0	1	1	1	0	6	2	3	1	6	2	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:67319435G>A	uc002eso.3	+	13	4973	c.2438G>A	c.(2437-2439)CGC>CAC	p.R813H	PLEKHG4_uc002esp.3_Missense_Mutation_p.R620H|PLEKHG4_uc002esq.3_Missense_Mutation_p.R813H|PLEKHG4_uc010cef.2_Missense_Mutation_p.R813H|PLEKHG4_uc002ess.3_Missense_Mutation_p.R813H|PLEKHG4_uc010ceg.2_Missense_Mutation_p.R732H	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	813	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		GCCTTCCTGCGCCATGTAAGC	0.493													6	22					0	0	0.004482	0	0		A	67319435	A	A	67319435	3	1	12	1	0	0	0	0	1	0	0	0	12090	1087	38	1	2488	1	PLEKHG4	16	67319435	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	8561777	67319435	23035318	957	10432											
LRRC36	55282	broad.mit.edu	37	chr16	67412553	67412553	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcattttgtcagaaaaaaTtcaacagttggaggaaggtg	14	11	10	6	0	3	1	3	0	0	1	3	3	3	3	1	3	1	1	1	3	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:67412553T>A	uc002esv.2	+	12	1887	c.1868T>A	c.(1867-1869)ATT>AAT	p.I623N	LRRC36_uc002esw.2_RNA|LRRC36_uc002esx.2_Missense_Mutation_p.I502N|LRRC36_uc010vjk.1_Missense_Mutation_p.I398N|LRRC36_uc010vjl.1_Missense_Mutation_p.I95N|LRRC36_uc002esy.2_Missense_Mutation_p.I133N	NM_018296	NP_060766	Q1X8D7	LRC36_HUMAN	leucine rich repeat containing 36 isoform 1	623	Potential.										0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0669)|Epithelial(162;0.161)		TCAGAAAAAATTCAACAGTTG	0.378													18	46					0	0	0.006122	0	0		A	67412553	A	A	67412553	3	1	12	1	0	0	0	0	1	0	0	0	9008	1493	52	5	1942	5	LRRC36	16	67412553	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	93118	67412553	22942200	958	10433											
EDC4	23644	broad.mit.edu	37	chr16	67909972	67909972	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagactggtcttcggaccatGccacccattaacctgcaaga	12	8	8	13	1	1	2	0	0	1	2	2	3	1	3	4	2	3	1	4	2	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:67909972G>A	uc002eur.2	+	2	373	c.207G>A	c.(205-207)ATG>ATA	p.M69I	EDC4_uc010cer.2_5'UTR|EDC4_uc010vkg.1_Missense_Mutation_p.M1I|EDC4_uc010ces.1_5'Flank|EDC4_uc002eus.2_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	69					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		TTCGGACCATGCCACCCATTA	0.522													19	80					0	0	0.010504	0	0		A	67909972	A	A	67909972	3	1	12	1	0	0	0	0	1	0	0	0	4914	1319	46	2	213	2	EDC4	16	67909972	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	497419	67909972	22444781	959	10434											
PDPR	55066	broad.mit.edu	37	chr16	70154529	70154529	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcccacccaggcacaggTggtcatctgtggaggtggaa	8	7	14	12	0	2	0	1	0	1	0	2	2	2	2	3	6	1	1	3	6	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:70154529T>A	uc002eyf.1	+	3	1091	c.134T>A	c.(133-135)GTG>GAG	p.V45E	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Intron	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	45					glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		CAGGCACAGGTGGTCATCTGT	0.577													11	50					0	0	0.000978	0	0		A	70154529	A	A	70154529	3	1	12	1	0	0	0	0	1	0	0	0	11708	1696	59	5	136	5	PDPR	16	70154529	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	2244557	70154529	20200224	960	10435											
DDX19B	11269	broad.mit.edu	37	chr16	70363885	70363885	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcaagcagtactatgtcCtgtgcagcagcagagacgag	12	7	11	11	1	1	1	1	0	0	1	2	3	2	1	2	0	5	5	2	0	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:70363885C>A	uc002eyo.2	+	9	1066	c.937C>A	c.(937-939)CTG>ATG	p.L313M	DDX19B_uc010vly.1_Missense_Mutation_p.L313M|DDX19A_uc002eys.2_Intron|DDX19B_uc010vlv.1_Missense_Mutation_p.L287M|DDX19B_uc010vlw.1_Missense_Mutation_p.L204M|DDX19B_uc002eyp.2_Missense_Mutation_p.L282M|DDX19B_uc002eyq.2_Missense_Mutation_p.L204M|DDX19B_uc002eyr.2_Missense_Mutation_p.L162M|DDX19B_uc010vlx.1_Missense_Mutation_p.L162M|uc002eyt.2_Intron	NM_007242	NP_009173	Q9UMR2	DD19B_HUMAN	DEAD (Asp-Glu-Ala-As) box polypeptide 19 isoform	313	Helicase C-terminal.				mRNA export from nucleus|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			kidney(1)	1		Ovarian(137;0.0694)				GTACTATGTCCTGTGCAGCAG	0.522													19	122					7.33628e-21	8.46494e-21	0.002299	1	0		A	70363885	A	A	70363885	3	1	12	1	0	0	0	0	1	0	0	0	4350	680	24	5	971	5	DDX19B	16	70363885	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	209356	70363885	19990868	961	10436											
MARVELD3	91862	broad.mit.edu	37	chr16	71674764	71674764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggactgccagctggcaggcaCcgacggagcagcagccacct	9	3	14	15	2	0	0	0	0	0	0	0	3	0	2	4	4	5	5	4	4	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:71674764C>T	uc002fau.2	+	3	1130	c.1067C>T	c.(1066-1068)ACC>ATC	p.T356I	PHLPP2_uc002fav.2_RNA|MARVELD3_uc010cge.2_3'UTR	NM_001017967	NP_001017967	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane				skin(1)	1		Ovarian(137;0.125)				CTGGCAGGCACCGACGGAGCA	0.582													4	29					0	0	0.000602	0	0		T	71674764	T	T	71674764	3	4	12	1	0	0	0	0	1	0	0	0	9337	507	18	4	1692	4	MARVELD3	16	71674764	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1310879	71674764	18679989	962	10437											
DHX38	9785	broad.mit.edu	37	chr16	72138432	72138432	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcatcgtcacatcagccacGatggatgcggagaagtttgc	10	9	11	11	3	3	1	3	0	0	1	4	4	3	2	1	2	3	1	1	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:72138432G>A	uc002fcb.2	+	15	2413	c.2058G>A	c.(2056-2058)ACG>ACA	p.T686T	DHX38_uc010vmp.1_Intron	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	686	Helicase ATP-binding.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				CATCAGCCACGATGGATGCGG	0.572													10	26					0	0	0.001368	0	0		A	72138432	A	A	72138432	2	1	12	1	0	0	0	0	0	0	0	1	4517	1045	37	1		1	DHX38	16	72138432	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	463668	72138432	18216321	963	10438											
ZFHX3	463	broad.mit.edu	37	chr16	72831435	72831435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctggatgcaatcatatctgCcagtttcttccgattggcct	7	14	8	12	1	3	0	1	0	2	0	4	2	4	1	4	2	2	2	4	2	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:72831435C>T	uc002fck.2	-	9	5819	c.5146G>A	c.(5146-5148)GCA>ACA	p.A1716T	ZFHX3_uc002fcl.2_Missense_Mutation_p.A802T	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1716					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ATCATATCTGCCAGTTTCTTC	0.403													8	24					0	0	0.00308	0	0		T	72831435	T	T	72831435	3	4	12	1	0	0	0	0	1	0	0	0	17659	739	26	2	5973	2	ZFHX3	16	72831435	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	693003	72831435	17523318	964	10439											
ZFHX3	463	broad.mit.edu	37	chr16	72993844	72993844	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcggaggggggcccggcCgacgcggtgctctccgcgag	3	4	20	14	7	1	0	0	0	1	0	3	3	1	1	3	7	1	2	3	7	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:72993844C>T	uc002fck.2	-	2	874	c.201G>A	c.(199-201)TCG>TCA	p.S67S	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	67					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GGGGCCCGGCCGACGCGGTGC	0.667													4	5					0	0	0.000602	0	0		T	72993844	T	T	72993844	2	4	12	1	0	0	0	0	0	0	0	1	17659	639	23	1		1	ZFHX3	16	72993844	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	162409	72993844	17360909	965	10440											
TERF2IP	54386	broad.mit.edu	37	chr16	75690483	75690483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggtgctcagaatgtagctCggaggattgaatttcgaaag	11	12	13	5	2	1	2	1	1	0	1	3	5	1	4	0	3	2	3	0	3	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:75690483C>T	uc002fet.1	+	3	1271	c.1174C>T	c.(1174-1176)CGG>TGG	p.R392W		NM_018975	NP_061848	Q9NYB0	TE2IP_HUMAN	telomeric repeat binding factor 2, interacting	392	Nuclear localization signal (Potential).				negative regulation of DNA recombination at telomere|negative regulation of telomere maintenance|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of double-strand break repair via homologous recombination|telomere maintenance via telomerase|transcription, DNA-dependent	cytoplasm|nuclear telomere cap complex|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1						GAATGTAGCTCGGAGGATTGA	0.363													17	61					0	0	0.00499	0	0		T	75690483	T	T	75690483	3	4	12	1	0	0	0	0	1	0	0	0	15788	875	31	1	1184	1	TERF2IP	16	75690483	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2696639	75690483	14664270	966	10441											
PKD1L2	114780	broad.mit.edu	37	chr16	81171067	81171067	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaacagatgtcctggcagCggggccacagtatcctcctc	8	7	10	16	1	0	1	0	0	0	1	4	1	3	1	5	3	2	2	5	3	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:81171067C>T	uc002fgh.1	-	34	5694	c.5694G>A	c.(5692-5694)CCG>CCA	p.P1898P	PKD1L2_uc002fgf.1_5'Flank|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	1898	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GTCCTGGCAGCGGGGCCACAG	0.597													4	10					0	0	0.000602	0	0		T	81171067	T	T	81171067	2	4	12	1	0	0	0	0	0	0	0	1	11984	755	27	1		1	PKD1L2	16	81171067	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	5480584	81171067	9183686	967	10442											
CDH13	1012	broad.mit.edu	37	chr16	83159089	83159089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaatcagagacagcctttcCcaagagatgttggcaaggta	14	8	11	8	0	1	3	1	0	0	3	2	5	2	3	2	2	1	3	2	2	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:83159089C>T	uc002fgx.2	+	4	586	c.466C>T	c.(466-468)CCA>TCA	p.P156S	CDH13_uc010chh.2_Missense_Mutation_p.P156S|CDH13_uc010vns.1_Missense_Mutation_p.P203S|CDH13_uc010vnt.1_5'UTR|CDH13_uc010vnu.1_Intron	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	156	Cadherin 1.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		ACAGCCTTTCCCAAGAGATGT	0.393													6	25					0	0	0.001984	0	0		T	83159089	T	T	83159089	3	4	12	1	0	0	0	0	1	0	0	0	3102	623	22	4	480	4	CDH13	16	83159089	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1988022	83159089	7195664	968	10443											
COTL1	23406	broad.mit.edu	37	chr16	84623721	84623721	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcagtacctgtacgaccTccttcaccagggtcttgtcc	8	11	7	15	1	3	0	2	0	1	0	5	1	5	0	5	1	3	2	5	1	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:84623721T>C	uc002fid.2	-	3	457	c.308A>G	c.(307-309)GAG>GGG	p.E103G	COTL1_uc002fie.2_Intron|COTL1_uc010chk.2_RNA	NM_021149	NP_066972	Q14019	COTL1_HUMAN	coactosin-like 1	103	ADF-H.					cytoplasm|cytoskeleton	actin binding|enzyme binding			skin(1)	1						CTGTACGACCTCCTTCACCAG	0.532													4	26					0	0	0.000602	0	0		C	84623721	C	C	84623721	3	2	12	1	0	0	0	0	1	0	0	0	3764	1551	54	3	128	3	COTL1	16	84623721	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1464632	84623721	5731032	969	10444											
CRISPLD2	83716	broad.mit.edu	37	chr16	84906600	84906600	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcccttcccgccagtcGtctagcatatgccgcgccgc	4	10	8	19	5	2	0	0	0	2	0	5	0	4	0	5	0	2	1	5	0	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:84906600G>A	uc010voh.1	+	10	1211	c.984G>A	c.(982-984)TCG>TCA	p.S328S	CRISPLD2_uc010vog.1_Intron|CRISPLD2_uc002fio.2_Silent_p.S327S|CRISPLD2_uc002fim.2_Silent_p.S328S|CRISPLD2_uc002fin.3_Silent_p.S328S	NM_031476	NP_113664	Q9H0B8	CRLD2_HUMAN	cysteine-rich secretory protein LCCL domain	328	LCCL 1.					extracellular region|transport vesicle					0						CCCGCCAGTCGTCTAGCATAT	0.527													15	45					0	0	0.007413	0	0		A	84906600	A	A	84906600	2	1	12	1	0	0	0	0	0	0	0	1	3886	1132	40	1		1	CRISPLD2	16	84906600	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	282879	84906600	5448153	970	10445											
COX4I1	1327	broad.mit.edu	37	chr16	85834824	85834824	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcagaatgttggctaccAgggtatttagcctagttggc	8	14	11	8	0	1	1	1	0	0	1	1	1	1	1	2	3	2	4	2	3	5	8			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:85834824A>C	uc002fje.2	+	2	177	c.13A>C	c.(13-15)AGG>CGG	p.R5R	COX4NB_uc002fjd.2_5'Flank|COX4NB_uc010vol.1_5'Flank|COX4I1_uc002fjf.2_Silent_p.R5R|COX4I1_uc002fjg.1_Silent_p.R5R|COX4I1_uc010vom.1_5'UTR	NM_001861	NP_001852	P13073	COX41_HUMAN	cytochrome c oxidase subunit IV isoform 1	5					respiratory electron transport chain	mitochondrial inner membrane|nucleus	cytochrome-c oxidase activity|protein binding			lung(1)	1		Renal(780;0.228)				GTTGGCTACCAGGGTATTTAG	0.393													16	83					0	0	0.006122	0	0		C	85834824	C	C	85834824	2	2	12	1	0	0	0	0	0	0	0	1	3772	179	7	5		5	COX4I1	16	85834824	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	928224	85834824	4519929	971	10446											
TRAPPC2L	51693	broad.mit.edu	37	chr16	88925094	88925094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccactacatggtgcacaCatctctggacgtggtggatg	8	11	12	10	1	1	0	0	0	1	0	3	2	2	2	1	4	2	2	1	4	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr16:88925094C>T	uc002fmc.2	+	2	154	c.101C>T	c.(100-102)ACA>ATA	p.T34I	GALNS_uc002fly.3_5'Flank|GALNS_uc010cid.2_5'Flank|GALNS_uc002flz.3_5'Flank|GALNS_uc002fma.2_5'Flank|TRAPPC2L_uc010cie.2_RNA|TRAPPC2L_uc002fmd.3_Missense_Mutation_p.T34I|TRAPPC2L_uc002fme.3_Missense_Mutation_p.T34I|TRAPPC2L_uc002fmf.2_5'Flank|uc002fmg.2_5'Flank	NM_016209	NP_057293	Q9UL33	TPC2L_HUMAN	trafficking protein particle complex 2-like	34					ER to Golgi vesicle-mediated transport	endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm					0				BRCA - Breast invasive adenocarcinoma(80;0.0477)		ATGGTGCACACATCTCTGGAC	0.567													30	65					0	0	0.002836	0	0		T	88925094	T	T	88925094	3	4	12	1	0	0	0	0	1	0	0	0	16485	478	17	4	107	4	TRAPPC2L	16	88925094	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3090270	88925094	1429659	972	10447											
FAM101B	359845	broad.mit.edu	37	chr17	293243	293243	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggggcagctgcacgtcgtcGatgaagtgcctctcggagtc	7	8	15	11	4	1	1	0	1	1	0	5	3	1	2	1	3	3	3	1	3	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:293243G>A	uc002frj.2	-	2	421	c.147C>T	c.(145-147)ATC>ATT	p.I49I		NM_182705	NP_874364	Q8N5W9	F101B_HUMAN	hypothetical protein LOC359845	119											0		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.0216)		GCACGTCGTCGATGAAGTGCC	0.662													16	18					0	0	0.002299	0	0		A	293243	A	A	293243	2	1	12	1	0	0	0	0	0	0	0	1	5392	1048	37	1		1	FAM101B	17	293243	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08		293243	80901967	973	10448											
SGSM2	9905	broad.mit.edu	37	chr17	2279115	2279115	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaggagaagcctcaggcCggagaactggaggccggaga	12	2	17	10	2	1	3	1	0	0	3	1	7	1	4	4	6	3	0	4	6	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:2279115C>T	uc002fun.3	+	17	2470	c.2295C>T	c.(2293-2295)GCC>GCT	p.A765A	SGSM2_uc002fum.3_Silent_p.A810A|SGSM2_uc010vqw.1_Silent_p.A765A|SGSM2_uc002fup.1_5'UTR|SGSM2_uc002fuq.2_5'Flank	NM_001098509	NP_001091979	O43147	SGSM2_HUMAN	RUN and TBC1 domain containing 1 isoform 2	765	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0				Colorectal(2;5.15e-05)|READ - Rectum adenocarcinoma(2;0.000115)		AGCCTCAGGCCGGAGAACTGG	0.677													6	20					0	0	0.001855	0	0		T	2279115	T	T	2279115	2	4	12	1	0	0	0	0	0	0	0	1	14248	639	23	1		1	SGSM2	17	2279115	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1985872	2279115	78916095	974	10449											
RAP1GAP2	23108	broad.mit.edu	37	chr17	2901577	2901577	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttccaagaggaaaacacGccgtttgtcccagacatgat	13	9	8	11	2	1	3	0	1	1	2	3	4	3	4	3	1	1	1	3	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:2901577G>A	uc010ckd.2	+	14	1197	c.1107G>A	c.(1105-1107)ACG>ACA	p.T369T	RAP1GAP2_uc010cke.2_Silent_p.T354T	NM_015085	NP_055900	Q684P5	RPGP2_HUMAN	RAP1 GTPase activating protein 2 isoform 1	369	Rap-GAP.				regulation of small GTPase mediated signal transduction	centrosome|cytosol|perinuclear region of cytoplasm	GTPase activator activity			ovary(1)	1						AGGAAAACACGCCGTTTGTCC	0.473													19	66					0	0	0.002299	0	0		A	2901577	A	A	2901577	2	1	12	1	0	0	0	0	0	0	0	1	13063	1074	38	1		1	RAP1GAP2	17	2901577	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	622462	2901577	78293633	975	10450											
MYBBP1A	10514	broad.mit.edu	37	chr17	4442989	4442989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggctccgggtgggggcGccaggggctggactcttggt	2	8	21	10	2	1	0	0	0	1	0	2	1	2	1	2	9	0	2	2	9	0	1	rs138002559	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:4442989G>A	uc002fyb.3	-	26	3770	c.3708C>T	c.(3706-3708)GGC>GGT	p.G1236G	MYBBP1A_uc002fxz.3_Silent_p.G1236G|SPNS2_uc002fxx.2_3'UTR|SPNS2_uc002fxy.2_3'UTR|MYBBP1A_uc002fya.3_Silent_p.G181G|MYBBP1A_uc010vsa.1_Silent_p.G278G	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	1236	Required for nuclear and nucleolar localization (By similarity).				nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						GGGTGGGGGCGCCAGGGGCTG	0.647													20	31					0	0	0.00333	0	0		A	4442989	A	A	4442989	2	1	12	1	0	0	0	0	0	0	0	1	10026	1074	38	1		1	MYBBP1A	17	4442989	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1541412	4442989	76752221	976	10451											
CHD3	1107	broad.mit.edu	37	chr17	7794048	7794048	+	Frame_Shift_Del	DEL	G	-	-																															ggaaaaagggggagggagatGgggggcaaaaggtgagtaga																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:7794048delG	uc002gje.2	+	3	523	c.373delG	c.(373-375)GGGfs	p.G125fs	CHD3_uc002gjd.2_Frame_Shift_Del_p.G184fs|CHD3_uc002gjf.2_Frame_Shift_Del_p.G125fs|CHD3_uc002gjg.1_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	125				GEGDGG -> PHFQQK (in Ref. 4; AAC50228).	chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GGAGGGAGATGGGGGGCAAAA	0.522													4	9	---	---	---	---						.	-	7794048	-	-	7794048	7	5	12	1	0	1	0	1	0	0	0	0	3329	1348	47	0	664	0	CHD3	17	7794048	Frame_Shift_Del	DEL	G	TCGA-BR-4257-01A-01D-1126-08	3351059	7794048	73401162	977	10452											
MYH2	4620	broad.mit.edu	37	chr17	10447054	10447054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggagttgtcattcctcaCggtcttggcgttgccaaagg	8	11	13	9	2	3	1	2	0	1	1	4	2	4	2	2	4	1	2	2	4	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:10447054C>T	uc010coi.2	-	8	843	c.715G>A	c.(715-717)GTG>ATG	p.V239M	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.V239M|MYH2_uc010coj.2_Missense_Mutation_p.V239M	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	239	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TCATTCCTCACGGTCTTGGCG	0.478													15	51					0	0	0.001882	0	0		T	10447054	T	T	10447054	3	4	12	1	0	0	0	0	1	0	0	0	10053	536	19	1	5242	1	MYH2	17	10447054	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2653006	10447054	70748156	978	10453											
DNAH9	1770	broad.mit.edu	37	chr17	11837339	11837339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaaggagaactgtctttggCcccagggttcccactcccag	9	8	11	13	0	1	2	0	0	1	2	3	3	3	2	4	3	1	1	4	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:11837339C>T	uc002gne.2	+	65	12508	c.12440C>T	c.(12439-12441)GCC>GTC	p.A4147V	DNAH9_uc010coo.2_Missense_Mutation_p.A3365V|DNAH9_uc002gnf.2_Missense_Mutation_p.A459V	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	4147					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CTGTCTTTGGCCCCAGGGTTC	0.517													12	41					0	0	0.001855	0	0		T	11837339	T	T	11837339	3	4	12	1	0	0	0	0	1	0	0	0	4614	739	26	2	12698	2	DNAH9	17	11837339	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1390285	11837339	69357871	979	10454											
MYO15A	51168	broad.mit.edu	37	chr17	18023246	18023246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacggagtccactacaccGtcccctatgccgaaggcgtc	8	7	9	17	4	0	0	0	0	0	0	3	2	2	1	6	2	3	0	6	2	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:18023246G>A	uc010vxh.1	+	2	1470	c.1132G>A	c.(1132-1134)GTC>ATC	p.V378I		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	378	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCACTACACCGTCCCCTATGC	0.597													28	22					0	0	0.002096	0	0		A	18023246	A	A	18023246	3	1	12	1	0	0	0	0	1	0	0	0	10081	1145	40	1	1134	1	MYO15A	17	18023246	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	6185907	18023246	63171964	980	10455											
FLII	2314	broad.mit.edu	37	chr17	18151293	18151293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacgctgcttatgttccaCggagagcttgtagttgatct	7	13	13	8	2	1	2	0	1	1	1	2	4	2	3	1	2	2	6	1	2	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:18151293C>T	uc002gsr.1	-	19	2296	c.2245G>A	c.(2245-2247)GTG>ATG	p.V749M	FLII_uc002gsq.1_Missense_Mutation_p.V620M|FLII_uc010cpy.1_Missense_Mutation_p.V738M|FLII_uc010vxn.1_Missense_Mutation_p.V718M|FLII_uc010vxo.1_Missense_Mutation_p.V694M|FLII_uc002gss.1_Missense_Mutation_p.V748M	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	749	Interaction with ACTL6A.				multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					TTATGTTCCACGGAGAGCTTG	0.607											OREG0024225	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	45					0	0	0.009096	0	0		T	18151293	T	T	18151293	3	4	12	1	0	0	0	0	1	0	0	0	5939	536	19	1	1612	1	FLII	17	18151293	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	128047	18151293	63043917	981	10456											
ALDH3A1	218	broad.mit.edu	37	chr17	19642929	19642929	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatgggcagcacaggcccGaagatctcctcttgcatcac	10	7	10	14	2	3	1	1	0	2	1	4	3	3	1	2	2	2	3	2	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:19642929G>T	uc010cqu.2	-	7	1338	c.1008C>A	c.(1006-1008)TTC>TTA	p.F336L	ALDH3A1_uc010vzd.1_Missense_Mutation_p.F336L|ALDH3A1_uc002gwj.2_Missense_Mutation_p.F336L|ALDH3A1_uc010cqv.2_Missense_Mutation_p.F335L|ALDH3A1_uc002gwk.2_Missense_Mutation_p.F453L|ALDH3A1_uc002gwl.1_Missense_Mutation_p.F263L	NM_001135168	NP_001128640	P30838	AL3A1_HUMAN	aldehyde dehydrogenase 3A1	336					cellular aldehyde metabolic process	cytosol|endoplasmic reticulum	alcohol dehydrogenase (NADP+) activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(1)|pancreas(1)	2	all_cancers(12;4.01e-05)|all_epithelial(12;0.00301)|Breast(13;0.186)			Colorectal(15;0.0829)	NADH(DB00157)	GCACAGGCCCGAAGATCTCCT	0.632													4	6					0.00909568	0.00939153	0.009096	1	0		T	19642929	T	T	19642929	3	4	12	1	0	0	0	0	1	0	0	0	497	1049	37	5	369	5	ALDH3A1	17	19642929	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1491636	19642929	61552281	982	10457											
ALDH3A1	218	broad.mit.edu	37	chr17	19646727	19646727	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctggatcatgtactcgAtctcctctaggacgtacacc	8	12	8	13	2	4	0	1	0	3	0	6	3	4	2	2	2	2	3	2	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:19646727A>G	uc010cqu.2	-	2	542	c.212T>C	c.(211-213)ATC>ACC	p.I71T	ALDH3A1_uc010vzd.1_Missense_Mutation_p.I71T|ALDH3A1_uc002gwj.2_Missense_Mutation_p.I71T|ALDH3A1_uc010cqv.2_Missense_Mutation_p.I71T|ALDH3A1_uc002gwk.2_5'UTR|ALDH3A1_uc002gwl.1_5'UTR	NM_001135168	NP_001128640	P30838	AL3A1_HUMAN	aldehyde dehydrogenase 3A1	71					cellular aldehyde metabolic process	cytosol|endoplasmic reticulum	alcohol dehydrogenase (NADP+) activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(1)|pancreas(1)	2	all_cancers(12;4.01e-05)|all_epithelial(12;0.00301)|Breast(13;0.186)			Colorectal(15;0.0829)	NADH(DB00157)	CATGTACTCGATCTCCTCTAG	0.612													8	39					0	0	0.006214	0	0		G	19646727	G	G	19646727	3	3	12	1	0	0	0	0	1	0	0	0	497	333	12	3	1185	3	ALDH3A1	17	19646727	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	3798	19646727	61548483	983	10458											
AKAP10	11216	broad.mit.edu	37	chr17	19823397	19823397	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagattctcggatgaattGccccaagtcactgactcttc	9	12	7	13	1	4	3	2	2	2	1	6	4	4	4	2	1	1	0	2	1	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:19823397G>A	uc002gwo.2	-	12	1923	c.1786C>T	c.(1786-1788)CAA>TAA	p.Q596*	AKAP10_uc002gwp.1_Nonsense_Mutation_p.Q596*|AKAP10_uc010cqw.1_Nonsense_Mutation_p.Q538*	NM_007202	NP_009133	O43572	AKA10_HUMAN	A-kinase anchor protein 10 precursor	596					blood coagulation|protein localization	cytosol|mitochondrion|plasma membrane	signal transducer activity			skin(1)	1	all_cancers(12;2.08e-05)|all_epithelial(12;0.00158)|Breast(13;0.165)					CGGATGAATTGCCCCAAGTCA	0.343													8	26					0	0	0.006214	0	0		A	19823397	A	A	19823397	4	1	12	1	0	0	0	0	0	1	0	0	446	1328	46	2	218	2	AKAP10	17	19823397	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	176670	19823397	61371813	984	10459											
GIT1	28964	broad.mit.edu	37	chr17	27901773	27901773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgcttggcagccttggCgatgtcataggcgcactgga	7	9	14	11	2	1	0	1	0	0	0	1	2	1	1	1	4	3	4	1	4	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:27901773C>T	uc002hef.2	-	20	2447	c.2233G>A	c.(2233-2235)GCC>ACC	p.A745T	GIT1_uc002heg.2_Missense_Mutation_p.A754T|GIT1_uc010wbg.1_Missense_Mutation_p.A731T|GIT1_uc010csb.1_3'UTR	NM_014030	NP_054749	Q9Y2X7	GIT1_HUMAN	G protein-coupled receptor kinase interactor 1	745	Interaction with PXN and TGFB1I1 (By similarity).				regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|focal adhesion	ARF GTPase activator activity|protein binding|zinc ion binding				0				READ - Rectum adenocarcinoma(3;0.0419)|Colorectal(3;0.069)		GCAGCCTTGGCGATGTCATAG	0.627													7	14					0	0	0.00308	0	0		T	27901773	T	T	27901773	3	4	12	1	0	0	0	0	1	0	0	0	6411	768	27	1	56	1	GIT1	17	27901773	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	8078376	27901773	53293437	985	10460											
SLFN5	162394	broad.mit.edu	37	chr17	33591816	33591816	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttacctggatcagggaagActatcttggctcttaggatc	9	12	11	9	0	3	1	1	0	2	1	4	4	3	4	1	4	1	2	1	4	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:33591816A>C	uc002hjf.3	+	4	1870	c.1753A>C	c.(1753-1755)ACT>CCT	p.T585P	SLFN5_uc010wcg.1_Intron	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	585	ATP (Potential).				cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		ATCAGGGAAGACTATCTTGGC	0.428													22	101					0	0	0.003954	0	0		C	33591816	C	C	33591816	3	2	12	1	0	0	0	0	1	0	0	0	14762	275	10	5	1763	5	SLFN5	17	33591816	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	5690043	33591816	47603394	986	10461											
GAS2L2	246176	broad.mit.edu	37	chr17	34072681	34072681	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgacttctagcagcttcAtgttgcccaaaatctcctct	8	14	5	14	0	4	1	1	1	3	0	6	1	5	1	3	0	3	3	3	0	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:34072681A>G	uc002hjv.1	-	6	1863	c.1835T>C	c.(1834-1836)ATG>ACG	p.M612T		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	612					cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TAGCAGCTTCATGTTGCCCAA	0.607													4	58					0	0	0.001168	0	0		G	34072681	G	G	34072681	3	3	12	1	0	0	0	0	1	0	0	0	6262	217	8	3	811	3	GAS2L2	17	34072681	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	480865	34072681	47122529	987	10462											
KRTAP1-5	83895	broad.mit.edu	37	chr17	39182975	39182975	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgggcatggtgcagttGgcagcaggatgggggcgtgc	5	7	21	8	1	0	0	0	0	0	0	0	1	0	1	1	7	3	5	1	7	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:39182975G>T	uc002hvu.2	-	1	480	c.433C>A	c.(433-435)CAA>AAA	p.Q145K		NM_031957	NP_114163	Q9BYS1	KRA15_HUMAN	keratin associated protein 1.5	145	15 X 5 AA repeats of C-C-[QEPVRC]- [TPIVLE]-[SRHVP].					keratin filament					0		Breast(137;0.00043)	STAD - Stomach adenocarcinoma(17;0.000371)			TGGTGCAGTTGGCAGCAGGAT	0.652													10	12					1.08611e-07	1.18984e-07	0.000978	1	0		T	39182975	T	T	39182975	3	4	12	1	0	0	0	0	1	0	0	0	8520	1357	47	5	95	5	KRTAP1-5	17	39182975	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5110294	39182975	42012235	988	10463											
STAT5B	6777	broad.mit.edu	37	chr17	40359649	40359649	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttggccgatcaggaaacacGtagataaggtaattcaagtc	14	10	10	7	2	2	1	2	0	0	1	3	3	2	2	1	3	1	2	1	3	5	5	rs147503881		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:40359649G>A	uc002hzh.2	-	16	2173	c.2004C>T	c.(2002-2004)TAC>TAT	p.Y668Y		NM_012448	NP_036580	P51692	STA5B_HUMAN	signal transducer and activator of transcription	668	SH2.				2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|JAK-STAT cascade involved in growth hormone signaling pathway|oxaloacetate metabolic process|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|glucocorticoid receptor binding|sequence-specific DNA binding transcription factor activity			ovary(3)|lung(2)|skin(1)	6		all_cancers(22;4.15e-07)|all_epithelial(22;2.83e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.135)	Dasatinib(DB01254)	CAGGAAACACGTAGATAAGGT	0.443													20	49					0	0	0.001882	0	0		A	40359649	A	A	40359649	2	1	12	1	0	0	0	0	0	0	0	1	15294	1140	40	1		1	STAT5B	17	40359649	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1176674	40359649	40835561	989	10464											
ITGA2B	3674	broad.mit.edu	37	chr17	42457968	42457968	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctggagccagtgctcacCtgtacacagccacctggttg	7	8	10	16	0	1	0	1	0	0	0	1	1	1	1	6	2	4	3	6	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:42457968C>A	uc002igt.1	-	14	1471	c.1439G>T	c.(1438-1440)AGA>ATA	p.R480I	ITGA2B_uc002igu.1_5'UTR	NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	480	Extracellular (Potential).|FG-GAP 7.				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	CAGTGCTCACCTGTACACAGC	0.592													11	22					4.36969e-10	4.88104e-10	0.001855	1	0		A	42457968	A	A	42457968	3	1	12	1	0	0	0	0	1	0	0	0	7892	695	24	5	1748	5	ITGA2B	17	42457968	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2098319	42457968	38737242	990	10465											
EFTUD2	9343	broad.mit.edu	37	chr17	42942391	42942391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtcaggtggatgccaagctCgtctagggtccgtgggaggc	6	8	17	10	3	2	0	1	0	1	0	4	2	3	2	2	5	2	1	2	5	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:42942391C>T	uc002ihn.2	-	14	1453	c.1192G>A	c.(1192-1194)GAG>AAG	p.E398K	EFTUD2_uc010wje.1_Missense_Mutation_p.E363K|EFTUD2_uc010wjf.1_Missense_Mutation_p.E388K	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	398						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				ATGCCAAGCTCGTCTAGGGTC	0.547											OREG0024466	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	28					0	0	0.003163	0	0		T	42942391	T	T	42942391	3	4	12	1	0	0	0	0	1	0	0	0	4967	893	31	1	1786	1	EFTUD2	17	42942391	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	484423	42942391	38252819	991	10466											
NMT1	4836	broad.mit.edu	37	chr17	43182260	43182260	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcaatgcactggatctcAtggagaacaaaaccttcctg	12	11	8	10	0	2	1	2	0	1	1	4	3	3	2	2	2	3	2	2	2	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:43182260A>G	uc002ihz.2	+	11	1384	c.1366A>G	c.(1366-1368)ATG>GTG	p.M456V	NMT1_uc002iia.2_RNA	NM_021079	NP_066565	P30419	NMT1_HUMAN	N-myristoyltransferase 1	456					activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals|N-terminal protein myristoylation|protein lipoylation	actin cytoskeleton|cell junction|cytosol	glycylpeptide N-tetradecanoyltransferase activity				0		Prostate(33;0.155)				ACTGGATCTCATGGAGAACAA	0.507													8	30					0	0	0.008291	0	0		G	43182260	G	G	43182260	3	3	12	1	0	0	0	0	1	0	0	0	10522	217	8	3	1408	3	NMT1	17	43182260	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	239869	43182260	38012950	992	10467											
LRRC37A2	474170	broad.mit.edu	37	chr17	44626102	44626102	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccaggcatctgtggagaaCgctgccgaagaaaaaaggct	13	5	13	10	2	1	2	0	0	1	2	1	4	1	2	2	3	2	3	2	3	5	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:44626102C>T	uc002ikn.1	+	9	3600	c.3597C>T	c.(3595-3597)AAC>AAT	p.N1199N	ARL17A_uc002iko.3_Intron|LRRC37A2_uc002ikq.1_Silent_p.N160N|LRRC37A2_uc010dax.1_Silent_p.N129N	NM_001006607	NP_001006608	A6NM11	L37A2_HUMAN	c114 SLIT-like testicular protein precursor	1199	Extracellular (Potential).					integral to membrane					0		Melanoma(429;0.211)		BRCA - Breast invasive adenocarcinoma(366;0.232)		CTGTGGAGAACGCTGCCGAAG	0.587													8	45					0	0	0.004007	0	0		T	44626102	T	T	44626102	2	4	12	1	0	0	0	0	0	0	0	1	9010	535	19	1		1	LRRC37A2	17	44626102	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1443842	44626102	36569108	993	10468											
HLF	3131	broad.mit.edu	37	chr17	53392780	53392780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccatgatcaagaaagctcGcaaagtcttcatccctgatg	12	9	8	12	1	3	3	2	2	1	1	5	3	4	3	2	0	1	2	2	0	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:53392780G>A	uc002iug.1	+	3	1169	c.644G>A	c.(643-645)CGC>CAC	p.R215H	HLF_uc010dce.1_Missense_Mutation_p.R130H|HLF_uc002iuh.2_Missense_Mutation_p.R130H|HLF_uc010wni.1_Missense_Mutation_p.R162H	NM_002126	NP_002117	Q16534	HLF_HUMAN	hepatic leukemia factor	215					multicellular organismal development|rhythmic process|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						AAGAAAGCTCGCAAAGTCTTC	0.488			T	TCF3	ALL								10	19					0	0	0.001855	0	0		A	53392780	A	A	53392780	3	1	12	1	0	0	0	0	1	0	0	0	7230	1087	38	1	654	1	HLF	17	53392780	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	8766678	53392780	27802430	994	10469											
TRIM25	7706	broad.mit.edu	37	chr17	54981777	54981777	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccttgtcgaggtggtctCtgaggcgtccaagagagcct	6	11	13	11	2	1	2	0	1	1	1	5	4	3	2	3	3	1	0	3	3	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:54981777C>A	uc002iut.2	-	3	826	c.766G>T	c.(766-768)GAG>TAG	p.E256*	TRIM25_uc010dcj.2_Nonsense_Mutation_p.E48*	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25	256	Interaction with influenza A virus NS1.|Potential.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)					GAGGTGGTCTCTGAGGCGTCC	0.463													24	87					6.32553e-13	7.17735e-13	0.004656	1	0		A	54981777	A	A	54981777	4	1	12	1	0	0	0	0	0	1	0	0	16525	922	32	5	1154	5	TRIM25	17	54981777	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1588997	54981777	26213433	995	10470											
MSI2	124540	broad.mit.edu	37	chr17	55752431	55752431	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggactccggagtggggAattacataagtgcggccagc	10	6	15	10	2	0	0	0	0	0	0	1	3	1	3	3	5	3	0	3	5	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:55752431A>G	uc002iuz.1	+	12	1062	c.889A>G	c.(889-891)AAT>GAT	p.N297D	MSI2_uc010wnm.1_Missense_Mutation_p.N293D	NM_138962	NP_620412	Q96DH6	MSI2H_HUMAN	musashi 2 isoform a	297						cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)|pancreas(1)	2	Breast(9;1.78e-08)			GBM - Glioblastoma multiforme(1;0.0025)		CGGAGTGGGGAATTACATAAG	0.682			T	HOXA9	CML								8	20					0	0	0.008291	0	0		G	55752431	G	G	55752431	3	3	12	1	0	0	0	0	1	0	0	0	9894	246	9	3	1030	3	MSI2	17	55752431	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	770654	55752431	25442779	996	10471											
ACE	1636	broad.mit.edu	37	chr17	61574303	61574303	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acggagaacgagctgcatggGgagaagctgggctggccgca	10	4	18	9	3	0	2	0	0	0	2	0	5	0	2	1	5	4	5	1	5	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:61574303G>A	uc002jau.1	+	24	3670	c.3648G>A	c.(3646-3648)GGG>GGA	p.G1216G	ACE_uc002jav.1_Silent_p.G642G|ACE_uc010ddv.1_Silent_p.G443G|ACE_uc010wpj.1_Silent_p.G601G|ACE_uc002jaw.1_RNA|ACE_uc010wpk.1_Silent_p.G421G	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	1216	Extracellular (Potential).|Peptidase M2 2.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	AGCTGCATGGGGAGAAGCTGG	0.657													7	6					0	0	0.00308	0	0		A	61574303	A	A	61574303	2	1	12	1	0	0	0	0	0	0	0	1	136	1219	43	4		4	ACE	17	61574303	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	5821872	61574303	19620907	997	10472											
DDX42	11325	broad.mit.edu	37	chr17	61895288	61895288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgacctacccgtctgccGgagcccaaggagtcaacaac	10	6	10	15	2	2	1	1	1	1	0	2	3	2	3	4	2	5	0	4	2	4	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:61895288G>A	uc002jbu.2	+	19	2604	c.2347G>A	c.(2347-2349)GGA>AGA	p.G783R	DDX42_uc002jbv.2_Missense_Mutation_p.G783R|DDX42_uc002jbx.2_Missense_Mutation_p.G519R|DDX42_uc002jby.2_Missense_Mutation_p.G329R|DDX42_uc010wps.1_Missense_Mutation_p.G151R	NM_007372	NP_031398	Q86XP3	DDX42_HUMAN	DEAD box polypeptide 42 protein	783	Gly-rich.|Necessary for interaction with TP53BP2.				protein localization|regulation of anti-apoptosis	Cajal body|cytoplasm|nuclear speck	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)|large_intestine(1)	5						CCCGTCTGCCGGAGCCCAAGG	0.582													15	31					0	0	0.00499	0	0		A	61895288	A	A	61895288	3	1	12	1	0	0	0	0	1	0	0	0	4365	1117	39	1	2413	1	DDX42	17	61895288	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	320985	61895288	19299922	998	10473											
SCN4A	6329	broad.mit.edu	37	chr17	62020337	62020337	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaggatgtccaccttgagCtggctctggttgtctgtctc	5	14	11	11	0	3	1	0	1	3	0	5	2	4	2	2	3	2	3	2	3	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:62020337C>T	uc002jds.1	-	23	4214	c.4137G>A	c.(4135-4137)CAG>CAA	p.Q1379Q		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1379	IV.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	CCACCTTGAGCTGGCTCTGGT	0.512													16	71					0	0	0.00333	0	0		T	62020337	T	T	62020337	2	4	12	1	0	0	0	0	0	0	0	1	13945	796	28	2		2	SCN4A	17	62020337	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	125049	62020337	19174873	999	10474											
ERN1	2081	broad.mit.edu	37	chr17	62141446	62141446	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtgatcacacactccccCttgtccccaatggtgacgcc	7	8	9	17	2	1	2	1	2	0	0	3	2	3	2	5	2	0	0	5	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:62141446C>T	uc002jdz.2	-	10	1100	c.987G>A	c.(985-987)AAG>AAA	p.K329K		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	329	Lumenal (Potential).				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						CACACTCCCCCTTGTCCCCAA	0.572											OREG0024657	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	9					0	0	0.000602	0	0		T	62141446	T	T	62141446	2	4	12	1	0	0	0	0	0	0	0	1	5245	680	24	4		4	ERN1	17	62141446	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	121109	62141446	19053764	1000	10475											
AXIN2	8313	broad.mit.edu	37	chr17	63526100	63526100	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagaccccagggctcaatcGatccgctccactttgcccag	8	7	8	18	2	1	1	1	0	0	1	4	2	3	1	6	1	1	2	6	1	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:63526100G>A	uc002jfi.2	-	11	2815	c.2526C>T	c.(2524-2526)ATC>ATT	p.I842I	AXIN2_uc002jfh.2_Silent_p.I777I	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	842	DIX.				cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						GGGCTCAATCGATCCGCTCCA	0.537									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				20	41					0	0	0.002299	0	0		A	63526100	A	A	63526100	2	1	12	1	0	0	0	0	0	0	0	1	1238	1048	37	1		1	AXIN2	17	63526100	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1384654	63526100	17669110	1001	10476											
ABCA6	23460	broad.mit.edu	37	chr17	67125775	67125775	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gataagccatataaaaaaaaGagtataaatatgaccatgaa	23	8	6	4	0	0	3	0	2	0	1	0	4	0	3	2	0	1	1	2	0	11	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:67125775G>A	uc002jhw.1	-	7	1084	c.909C>T	c.(907-909)CTC>CTT	p.L303L		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	303	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					ATAAAAAAAAGAGTATAAATA	0.303													12	36					0	0	0.000978	0	0		A	67125775	A	A	67125775	2	1	12	1	0	0	0	0	0	0	0	1	36	929	33	4		4	ABCA6	17	67125775	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3599675	67125775	14069435	1002	10477											
ABCA10	10349	broad.mit.edu	37	chr17	67178424	67178424	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattacacgcaacagaaaatCtgtaatccttgaaaaaaagt	19	10	5	7	1	1	2	0	1	1	1	2	2	2	2	1	0	2	2	1	0	9	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:67178424C>A	uc010dfa.1	-	23	3518	c.2639G>T	c.(2638-2640)AGA>ATA	p.R880I	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_Missense_Mutation_p.R481I	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	880					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					AACAGAAAATCTGTAATCCTT	0.284													3	8					0.004672	0.00484596	0.004672	1	0		A	67178424	A	A	67178424	3	1	12	1	0	0	0	0	1	0	0	0	29	913	32	5	2064	5	ABCA10	17	67178424	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	52649	67178424	14016786	1003	10478											
ABCA10	10349	broad.mit.edu	37	chr17	67221504	67221504	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccatcttattcattatcCtttgtgttatgttactgact	8	19	6	8	0	2	1	1	1	1	0	3	1	3	1	2	1	1	2	2	1	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:67221504C>A	uc010dfa.1	-	4	875	c.-4G>T	c.(-6--2)AAGGA>AATGA		ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfc.1_Translation_Start_Site	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10						transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					ATTCATTATCCTTTGTGTTAT	0.393													5	17					5.9392e-07	6.46492e-07	0.001168	1	0		A	67221504	A	A	67221504	1	1	12	1	0	0	0	0	0	0	0	0	29	696	24	5		5	ABCA10	17	67221504	Translation_Start_Site	SNP	C	TCGA-BR-4257-01A-01D-1126-08	43080	67221504	13973706	1004	10479											
KCNJ2	3759	broad.mit.edu	37	chr17	68171712	68171712	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgatgctttcatcattggcGcagtcatggccaagatggca	9	11	11	10	2	3	1	3	0	0	1	4	2	3	1	1	3	1	3	1	3	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:68171712G>T	uc010dfg.2	+	2	933	c.532G>T	c.(532-534)GCA>TCA	p.A178S	KCNJ2_uc002jir.2_Missense_Mutation_p.A178S	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	178	Helical; Name=M2; (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					CATCATTGGCGCAGTCATGGC	0.478													16	40					1.5739e-10	1.76096e-10	0.004007	1	0		T	68171712	T	T	68171712	3	4	12	1	0	0	0	0	1	0	0	0	8067	1087	38	5	534	5	KCNJ2	17	68171712	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	950208	68171712	13023498	1005	10480											
CD300LF	146722	broad.mit.edu	37	chr17	72700850	72700850	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcgacaccaccacttcAagtaggtctcccagcctgat	9	9	6	17	1	2	1	1	1	1	0	5	2	3	1	5	1	1	1	5	1	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:72700850A>G	uc002jlg.2	-	2	252	c.149T>C	c.(148-150)TTG>TCG	p.L50S	RAB37_uc002jlc.2_Intron|RAB37_uc010dfu.2_Intron|RAB37_uc002jld.2_Intron|CD300LF_uc002jlf.2_Missense_Mutation_p.L53S|CD300LF_uc010dfw.2_RNA|CD300LF_uc002jlh.2_Missense_Mutation_p.L50S|CD300LF_uc002jli.2_Missense_Mutation_p.L53S|CD300LF_uc010wra.1_Missense_Mutation_p.L50S|CD300LF_uc002jlj.1_Missense_Mutation_p.L53S	NM_139018	NP_620587	Q8TDQ1	CLM1_HUMAN	NK inhibitory receptor precursor	50	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			upper_aerodigestive_tract(1)	1						CCACCACTTCAAGTAGGTCTC	0.532													22	77					0	0	0.007291	0	0		G	72700850	G	G	72700850	3	3	12	1	0	0	0	0	1	0	0	0	3004	131	5	3	747	3	CD300LF	17	72700850	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	4529138	72700850	8494360	1006	10481											
GRB2	2885	broad.mit.edu	37	chr17	73389634	73389634	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggcatcagcacttacctTgaggatgtccccccttttga	7	12	8	14	1	1	2	1	2	0	0	3	3	2	3	4	2	2	2	4	2	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:73389634T>C	uc002jnx.3	-	2	433	c.76A>G	c.(76-78)AAG>GAG	p.K26E	GRB2_uc002jny.3_Missense_Mutation_p.K26E	NM_002086	NP_002077	P62993	GRB2_HUMAN	growth factor receptor-bound protein 2 isoform	26	SH3 1.				axon guidance|blood coagulation|cell junction assembly|cell-cell signaling|cellular response to ionizing radiation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of reactive oxygen species metabolic process|Ras protein signal transduction|receptor internalization|signal transduction in response to DNA damage|T cell costimulation	cytosol|Golgi apparatus	epidermal growth factor receptor binding|insulin receptor substrate binding|SH3/SH2 adaptor activity			ovary(3)	3	all_cancers(13;5.44e-09)|all_epithelial(9;1.1e-09)|Breast(9;1.85e-09)|all_lung(278;0.222)		all cancers(21;1.09e-07)|Epithelial(20;1.23e-06)|Lung(188;0.185)		Pegademase bovine(DB00061)	GCACTTACCTTGAGGATGTCC	0.507													4	124					0	0	0.000602	0	0		C	73389634	C	C	73389634	3	2	12	1	0	0	0	0	1	0	0	0	6774	1821	63	3	597	3	GRB2	17	73389634	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	688784	73389634	7805576	1007	10482											
EVPL	2125	broad.mit.edu	37	chr17	74004745	74004745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtagatggtcttctcctgcGatttggctttctggaggacg	5	15	13	8	2	3	1	0	0	3	1	4	4	3	3	1	4	1	2	1	4	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:74004745G>A	uc002jqi.2	-	22	4769	c.4541C>T	c.(4540-4542)TCG>TTG	p.S1514L	EVPL_uc010wss.1_Missense_Mutation_p.S1536L|EVPL_uc010wst.1_Missense_Mutation_p.S984L	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1514	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CTTCTCCTGCGATTTGGCTTT	0.597													22	41					0	0	0.00278	0	0		A	74004745	A	A	74004745	3	1	12	1	0	0	0	0	1	0	0	0	5300	1059	37	1	1564	1	EVPL	17	74004745	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	615111	74004745	7190465	1008	10483											
ST6GALNAC1	55808	broad.mit.edu	37	chr17	74625570	74625570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttccatgctgccctctgtgCtgtgtggggcaccttgtcct	2	14	11	14	0	1	0	0	0	1	0	3	0	3	0	4	2	3	3	4	2	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:74625570C>T	uc002jsh.2	-	2	529	c.355G>A	c.(355-357)GCA>ACA	p.A119T	ST6GALNAC1_uc002jsi.2_5'UTR|ST6GALNAC1_uc002jsj.2_RNA	NM_018414	NP_060884	Q9NSC7	SIA7A_HUMAN	sialyltransferase 7A	119	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity				0						GCCCTCTGTGCTGTGTGGGGC	0.597													14	36					0	0	0.00245	0	0		T	74625570	T	T	74625570	3	4	12	1	0	0	0	0	1	0	0	0	15248	797	28	2	1479	2	ST6GALNAC1	17	74625570	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	620825	74625570	6569640	1009	10484											
ENPP7	339221	broad.mit.edu	37	chr17	77705066	77705066	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacacccccaacctggaCgccatggcccgagacggggt	8	4	14	15	3	0	1	0	0	0	1	0	4	0	3	5	5	1	0	5	5	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:77705066C>T	uc002jxa.2	+	1	185	c.165C>T	c.(163-165)GAC>GAT	p.D55D		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	55					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CCAACCTGGACGCCATGGCCC	0.627													6	7					0	0	0.00308	0	0		T	77705066	T	T	77705066	2	4	12	1	0	0	0	0	0	0	0	1	5143	535	19	1		1	ENPP7	17	77705066	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3079496	77705066	3490144	1010	10485											
RPTOR	57521	broad.mit.edu	37	chr17	78865556	78865556	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagtcatcttgtggttcagTatgaaagcaatttctgcacc	10	14	9	8	0	4	2	2	2	2	0	4	2	4	2	1	1	2	4	1	1	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:78865556T>C	uc002jyt.1	+	18	2825	c.2020T>C	c.(2020-2022)TAT>CAT	p.Y674H	RPTOR_uc010wug.1_Missense_Mutation_p.Y516H	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	674					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						TGTGGTTCAGTATGAAAGCAA	0.517													30	69					0	0	0.008361	0	0		C	78865556	C	C	78865556	3	2	12	1	0	0	0	0	1	0	0	0	13690	1638	57	3	2090	3	RPTOR	17	78865556	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1160490	78865556	2329654	1011	10486											
RPTOR	57521	broad.mit.edu	37	chr17	78882649	78882649	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacactcagatttggagaGtcctgctgcacctggctgct	7	13	10	11	0	1	2	1	0	0	2	2	3	2	2	2	2	4	4	2	2	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:78882649G>T	uc002jyt.1	+	21	3245	c.2440G>T	c.(2440-2442)GTC>TTC	p.V814F	RPTOR_uc010wug.1_Missense_Mutation_p.V656F	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	814					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						GATTTGGAGAGTCCTGCTGCA	0.527													16	106					1.02788e-11	1.15669e-11	0.00499	1	0		T	78882649	T	T	78882649	3	4	12	1	0	0	0	0	1	0	0	0	13690	1029	36	5	2522	5	RPTOR	17	78882649	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	17093	78882649	2312561	1012	10487											
BAHCC1	57597	broad.mit.edu	37	chr17	79430712	79430712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagtgccaggtcgtggcgCgcgagcagtatgagcagatg	10	6	16	9	4	0	2	0	1	0	1	1	3	0	2	1	2	3	3	1	2	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:79430712C>T	uc002kaf.2	+	26	7696	c.7696C>T	c.(7696-7698)CGC>TGC	p.R2566C		NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	2566	BAH.						DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			GGTCGTGGCGCGCGAGCAGTA	0.672													6	16					0	0	0.00308	0	0		T	79430712	T	T	79430712	3	4	12	1	0	0	0	0	1	0	0	0	1297	768	27	1	7637	1	BAHCC1	17	79430712	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	548063	79430712	1764498	1013	10488											
LRRC45	201255	broad.mit.edu	37	chr17	79984832	79984832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttccaggagaaccaagcccGcactcacgtcctcagcaagg	11	5	9	16	2	2	1	2	0	0	1	4	2	4	1	4	2	3	2	4	2	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:79984832G>A	uc002kde.2	+	6	959	c.719G>A	c.(718-720)CGC>CAC	p.R240H		NM_144999	NP_659436	Q96CN5	LRC45_HUMAN	leucine rich repeat containing 45	240						centrosome				pancreas(1)	1	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			AACCAAGCCCGCACTCACGTC	0.542													3	8					0	0	0.001168	0	0		A	79984832	A	A	79984832	3	1	12	1	0	0	0	0	1	0	0	0	9020	1087	38	1	741	1	LRRC45	17	79984832	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	554120	79984832	1210378	1014	10489											
UTS2R	2837	broad.mit.edu	37	chr17	80332642	80332642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaccgtcatgagcagcgagCgctacgctgcggtgctgcgg	6	7	16	12	6	1	2	1	2	0	0	1	3	1	2	1	2	7	4	1	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:80332642C>T	uc010wvl.1	+	1	442	c.442C>T	c.(442-444)CGC>TGC	p.R148C		NM_018949	NP_061822	Q9UKP6	UR2R_HUMAN	urotensin 2 receptor	148	Cytoplasmic (Potential).					integral to membrane|plasma membrane				breast(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.00928)|BRCA - Breast invasive adenocarcinoma(99;0.0833)			GAGCAGCGAGCGCTACGCTGC	0.692													7	2					0	0	0.00308	0	0		T	80332642	T	T	80332642	3	4	12	1	0	0	0	0	1	0	0	0	17132	768	27	1	444	1	UTS2R	17	80332642	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	347810	80332642	862568	1015	10490											
FOXK2	3607	broad.mit.edu	37	chr17	80529613	80529613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacaggatgattcaaagcCgccttactcctacgcgcagc	12	8	8	13	3	1	1	1	1	0	0	2	2	2	2	3	1	5	1	3	1	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr17:80529613C>T	uc002kfn.2	+	4	947	c.776C>T	c.(775-777)CCG>CTG	p.P259L	FOXK2_uc002kfm.1_Missense_Mutation_p.P259L|FOXK2_uc010diu.2_Missense_Mutation_p.P259L	NM_004514	NP_004505	Q01167	FOXK2_HUMAN	forkhead box K2	259	Fork-head.				embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0	Breast(20;0.00106)|all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.0371)|BRCA - Breast invasive adenocarcinoma(99;0.0415)			GATTCAAAGCCGCCTTACTCC	0.363													9	15					0	0	0.008291	0	0		T	80529613	T	T	80529613	3	4	12	1	0	0	0	0	1	0	0	0	6029	652	23	1	790	1	FOXK2	17	80529613	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	196971	80529613	665597	1016	10491											
EPB41L3	23136	broad.mit.edu	37	chr18	5396200	5396200	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcacagaatatctcacCtgtgatgattcatatgtgat	11	15	7	8	0	4	4	3	3	2	1	5	4	4	4	1	0	0	0	1	0	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:5396200C>A	uc002kmt.1	-	19	3059	c.2973G>T	c.(2971-2973)CAG>CAT	p.Q991H	EPB41L3_uc010wzh.1_Missense_Mutation_p.Q822H|EPB41L3_uc002kmu.1_Missense_Mutation_p.Q769H|EPB41L3_uc010dkq.1_Missense_Mutation_p.Q660H|EPB41L3_uc002kms.1_Missense_Mutation_p.Q226H|EPB41L3_uc010wze.1_Missense_Mutation_p.Q296H|EPB41L3_uc010wzf.1_Missense_Mutation_p.Q288H|EPB41L3_uc010wzg.1_Missense_Mutation_p.Q263H|EPB41L3_uc010dkr.2_Missense_Mutation_p.Q383H	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	991	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						AATATCTCACCTGTGATGATT	0.438													80	153					1.19347e-43	1.3841e-43	0.00361	1	0		A	5396200	A	A	5396200	3	1	12	1	0	0	0	0	1	0	0	0	5162	695	24	5	306	5	EPB41L3	18	5396200	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08		5396200	72681048	1017	10492											
CIDEA	1149	broad.mit.edu	37	chr18	12274164	12274164	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcaccttcgacttgtacAggctgaaccccaaggacttc	10	9	9	13	1	1	1	1	1	0	0	3	4	1	2	3	2	2	2	3	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:12274164A>G	uc002kqt.3	+	4	468	c.403A>G	c.(403-405)AGG>GGG	p.R135G	CIDEA_uc002kqu.3_Missense_Mutation_p.R169G|CIDEA_uc010dlc.2_RNA	NM_001279	NP_001270	O60543	CIDEA_HUMAN	cell death-inducing DFFA-like effector a isoform	135					DNA damage response, signal transduction resulting in induction of apoptosis|DNA fragmentation involved in apoptotic nuclear change|lipid metabolic process|lipid storage|negative regulation of apoptosis|negative regulation of cytokine secretion|negative regulation of lipid catabolic process|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of sequestering of triglyceride|temperature homeostasis	mitochondrial envelope|nucleus	protein homodimerization activity			ovary(1)|central_nervous_system(1)	2						CGACTTGTACAGGCTGAACCC	0.597													15	44					0	0	0.00278	0	0		G	12274164	G	G	12274164	3	3	12	1	0	0	0	0	1	0	0	0	3428	179	7	3	561	3	CIDEA	18	12274164	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	6877964	12274164	65803084	1018	10493											
TUBB6	84617	broad.mit.edu	37	chr18	12325150	12325150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcagtgctggacgtggtgcGgaaggagtgcgagcactgcg	7	6	19	9	5	0	0	0	0	0	0	0	4	0	3	0	4	5	3	0	4	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:12325150G>A	uc002kqw.2	+	4	407	c.362G>A	c.(361-363)CGG>CAG	p.R121Q	TUBB6_uc002kqv.2_Missense_Mutation_p.R49Q|TUBB6_uc010dld.2_RNA|TUBB6_uc002kqx.2_Missense_Mutation_p.R84Q|TUBB6_uc002kqy.2_Intron	NM_032525	NP_115914	Q9BUF5	TBB6_HUMAN	tubulin, beta 6	121					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0				READ - Rectum adenocarcinoma(1;0.0649)		GACGTGGTGCGGAAGGAGTGC	0.662													15	27					0	0	0.004007	0	0		A	12325150	A	A	12325150	3	1	12	1	0	0	0	0	1	0	0	0	16786	1116	39	1	376	1	TUBB6	18	12325150	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	50986	12325150	65752098	1019	10494											
DSG3	1830	broad.mit.edu	37	chr18	29044085	29044085	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctccaggctctagattaTgaacaactacaaagcgtgaa	14	11	7	9	1	2	3	0	2	2	1	3	3	2	3	1	1	4	1	1	1	7	4	rs113083364		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:29044085T>C	uc002kws.2	+	9	1120	c.1011T>C	c.(1009-1011)TAT>TAC	p.Y337Y		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	337	Cadherin 3.|Extracellular (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			CTCTAGATTATGAACAACTAC	0.393													8	58					0	0	0.004482	0	0		C	29044085	C	C	29044085	2	2	12	1	0	0	0	0	0	0	0	1	4784	1471	51	3		3	DSG3	18	29044085	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	16718935	29044085	49033163	1020	10495											
SETBP1	26040	broad.mit.edu	37	chr18	42281525	42281525	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcgggatgtggattccAactccaacgcggacagtgag	10	6	15	10	3	0	1	0	1	0	0	2	4	2	4	2	4	2	0	2	4	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:42281525A>C	uc010dni.2	+	2	510	c.214A>C	c.(214-216)AAC>CAC	p.N72H	SETBP1_uc002lay.2_Missense_Mutation_p.N72H	NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	72						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		TGTGGATTCCAACTCCAACGC	0.567									Schinzel-Giedion_syndrome				13	74					0	0	0.002299	0	0		C	42281525	C	C	42281525	3	2	12	1	0	0	0	0	1	0	0	0	14154	130	5	5	216	5	SETBP1	18	42281525	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	13237440	42281525	35795723	1021	10496											
SLC14A2	8170	broad.mit.edu	37	chr18	43253755	43253755	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctacgtcatcacctggCagacgcacctcctcgccatc	7	10	7	17	3	3	1	2	0	1	1	6	1	4	1	4	1	1	3	4	1	1	2	rs151319242		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:43253755C>T	uc010dnj.2	+	19	2806	c.2485C>T	c.(2485-2487)CAG>TAG	p.Q829*	SLC14A2_uc002lbe.2_Nonsense_Mutation_p.Q829*	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	829						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						CATCACCTGGCAGACGCACCT	0.478													13	29					0	0	0.00245	0	0		T	43253755	T	T	43253755	4	4	12	1	0	0	0	0	0	1	0	0	14422	711	25	2	2551	2	SLC14A2	18	43253755	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	972230	43253755	34823493	1022	10497											
TCEB3B	51224	broad.mit.edu	37	chr18	44561289	44561289	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggctcctgggggccgtcGcgttttctgggaagccccag	4	9	16	12	3	1	0	0	0	1	0	3	1	2	1	4	4	1	2	4	4	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:44561289G>T	uc002lcr.1	-	1	700	c.347C>A	c.(346-348)GCG>GAG	p.A116E	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	116					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GGGGGCCGTCGCGTTTTCTGG	0.662													10	44					3.07112e-06	3.31389e-06	0.000978	1	0		T	44561289	T	T	44561289	3	4	12	1	0	0	0	0	1	0	0	0	15707	1087	38	5	1918	5	TCEB3B	18	44561289	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1307534	44561289	33515959	1023	10498											
HDHD2	84064	broad.mit.edu	37	chr18	44662713	44662713	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggaggatagcttgccttTtaagagcttcctgtgcgcct	6	13	11	11	1	0	1	0	0	0	1	1	3	1	3	4	2	4	2	4	2	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:44662713T>A	uc002lcs.2	-	2	231	c.98A>T	c.(97-99)AAA>ATA	p.K33I	HDHD2_uc002lct.2_5'UTR	NM_032124	NP_115500	Q9H0R4	HDHD2_HUMAN	haloacid dehalogenase-like hydrolase domain	33							hydrolase activity				0						AGCTTGCCTTTTAAGAGCTTC	0.458													4	61					0	0	0.000602	0	0		A	44662713	A	A	44662713	3	1	12	1	0	0	0	0	1	0	0	0	7039	1841	64	5	705	5	HDHD2	18	44662713	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	101424	44662713	33414535	1024	10499											
DYM	54808	broad.mit.edu	37	chr18	46956658	46956658	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggaaagaaaatgagagaAgctgattccagaacgggtca	17	5	13	6	1	1	5	1	2	0	3	2	7	2	6	1	2	2	1	1	2	5	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:46956658A>C	uc002ldi.1	-	2	472	c.107T>G	c.(106-108)CTT>CGT	p.L36R	DYM_uc010xdf.1_Missense_Mutation_p.L36R	NM_017653	NP_060123	Q7RTS9	DYM_HUMAN	dymeclin	36						Golgi apparatus					0						AAATGAGAGAAGCTGATTCCA	0.418													4	117					0	0	0.000602	0	0		C	46956658	C	C	46956658	3	2	12	1	0	0	0	0	1	0	0	0	4846	72	3	5	1966	5	DYM	18	46956658	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2293945	46956658	31120590	1025	10500											
CXXC1	30827	broad.mit.edu	37	chr18	47811481	47811481	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgtagcctcaggaggcTccttgactgttgatgacgcc	6	11	13	11	1	1	3	1	3	0	0	2	4	2	4	3	3	1	4	3	3	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:47811481T>C	uc002leq.3	-	7	1536	c.803A>G	c.(802-804)GAG>GGG	p.E268G	CXXC1_uc002lep.3_Missense_Mutation_p.E125G|CXXC1_uc002ler.3_Missense_Mutation_p.E268G|CXXC1_uc010doy.2_Missense_Mutation_p.E268G|CXXC1_uc002les.2_Missense_Mutation_p.E268G	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	268	Asp/Glu-rich (acidic).				histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTCAGGAGGCTCCTTGACTGT	0.597													22	35					0	0	0.003954	0	0		C	47811481	C	C	47811481	3	2	12	1	0	0	0	0	1	0	0	0	4100	1551	54	3	1215	3	CXXC1	18	47811481	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	854823	47811481	30265767	1026	10501											
MAPK4	5596	broad.mit.edu	37	chr18	48241512	48241512	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgactgctcctttcccccAataactacaccaaagccatc	12	8	3	18	1	0	0	0	0	0	0	3	1	2	0	5	0	4	1	5	0	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:48241512A>G	uc002lev.2	+	3	1610	c.610A>G	c.(610-612)AAT>GAT	p.N204D	MAPK4_uc010xdm.1_5'UTR|MAPK4_uc010doz.2_Missense_Mutation_p.N204D	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	204	Protein kinase.				cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		CCTTTCCCCCAATAACTACAC	0.507													14	56					0	0	0.004007	0	0		G	48241512	G	G	48241512	3	3	12	1	0	0	0	0	1	0	0	0	9298	130	5	3	616	3	MAPK4	18	48241512	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	430031	48241512	29835736	1027	10502											
FECH	2235	broad.mit.edu	37	chr18	55233706	55233706	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagcagctgtactgtggatActgtgtgaaagcaatagccc	11	9	13	8	0	0	1	0	1	0	0	0	3	0	3	1	2	6	4	1	2	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:55233706A>G	uc002lgq.3	-	5	688	c.571T>C	c.(571-573)TAT>CAT	p.Y191H	FECH_uc002lgp.3_Missense_Mutation_p.Y197H|FECH_uc002lgr.3_Missense_Mutation_p.Y49H	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor	191			Y -> H (in EPP; enzyme retains 72% of activity).		generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)				TACTGTGGATACTGTGTGAAA	0.443													30	46					0	0	0.002836	0	0		G	55233706	G	G	55233706	3	3	12	1	0	0	0	0	1	0	0	0	5822	391	14	3	728	3	FECH	18	55233706	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	6992194	55233706	22843542	1028	10503											
ATP8B1	5205	broad.mit.edu	37	chr18	55335683	55335683	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttttgtctccagtaagcacCcagatcttaatgtcagcttt	9	16	6	10	0	3	1	1	0	2	1	4	1	3	1	2	0	2	3	2	0	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:55335683C>G	uc002lgw.2	-	18	2187	c.2187G>C	c.(2185-2187)TGG>TGC	p.W729C	uc002lgu.1_RNA|uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	729	Cytoplasmic (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				CAGTAAGCACCCAGATCTTAA	0.408									Byler_disease				20	41					0	0	0.00333	0	0		G	55335683	G	G	55335683	3	3	12	1	0	0	0	0	1	0	0	0	1195	624	22	5	1608	5	ATP8B1	18	55335683	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	101977	55335683	22741565	1029	10504											
CDH20	28316	broad.mit.edu	37	chr18	59221533	59221533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctacgacgacgagggcggcGgcgaggaggacaccgaggcc	9	1	19	12	7	0	0	0	0	0	0	0	7	0	2	2	6	1	1	2	6	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:59221533G>A	uc010dps.1	+	11	2023	c.2011G>A	c.(2011-2013)GGC>AGC	p.G671S	CDH20_uc002lif.2_Missense_Mutation_p.G665S	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	671	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				CGAGGGCGGCGGCGAGGAGGA	0.652													45	30					0	0	0.00361	0	0		A	59221533	A	A	59221533	3	1	12	1	0	0	0	0	1	0	0	0	3109	1116	39	1	2053	1	CDH20	18	59221533	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3885850	59221533	18855715	1030	10505											
SERPINB5	5268	broad.mit.edu	37	chr18	61154235	61154235	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatttcaaacagtaacatcGgatgtaaacaaacttagttc	16	11	7	7	1	1	0	1	0	0	0	3	2	1	2	0	2	4	3	0	2	6	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:61154235G>A	uc002liz.3	+	3	367	c.225G>A	c.(223-225)TCG>TCA	p.S75S	SERPINB5_uc002liy.2_Silent_p.S75S	NM_002639	NP_002630	P36952	SPB5_HUMAN	serine (or cysteine) proteinase inhibitor, clade	75					cellular component movement|regulation of proteolysis	cytoplasm|extracellular space	protein binding|serine-type endopeptidase inhibitor activity			ovary(1)	1						CAGTAACATCGGATGTAAACA	0.358													27	61					0	0	0.00632	0	0		A	61154235	A	A	61154235	2	1	12	1	0	0	0	0	0	0	0	1	14129	1103	39	1		1	SERPINB5	18	61154235	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1932702	61154235	16923013	1031	10506											
SERPINB13	5275	broad.mit.edu	37	chr18	61260166	61260166	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaatgcagccgatgaaagtCgaaagaagattaattcctgg	16	9	10	6	2	0	3	0	1	0	2	2	5	1	3	2	1	2	1	2	1	6	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:61260166C>T	uc002ljc.2	+	5	601	c.433C>T	c.(433-435)CGA>TGA	p.R145*	SERPINB13_uc002ljd.2_5'UTR|SERPINB13_uc010xep.1_Nonsense_Mutation_p.R154*|SERPINB13_uc010xeq.1_Intron|SERPINB13_uc010xer.1_Intron	NM_012397	NP_036529	Q9UIV8	SPB13_HUMAN	serine (or cysteine) proteinase inhibitor, clade	145					regulation of proteolysis|response to UV	cytoplasm|extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)	1						CGATGAAAGTCGAAAGAAGAT	0.323													16	84					0	0	0.002299	0	0		T	61260166	T	T	61260166	4	4	12	1	0	0	0	0	0	1	0	0	14125	876	31	1	447	1	SERPINB13	18	61260166	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	105931	61260166	16817082	1032	10507											
RTTN	25914	broad.mit.edu	37	chr18	67806936	67806936	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagtgtgaggcatggttgtAccaaacattctacaacctgg	12	10	11	8	0	1	2	0	1	1	1	1	2	1	2	2	3	4	3	2	3	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:67806936A>G	uc002lkp.2	-	21	2755	c.2687T>C	c.(2686-2688)GTA>GCA	p.V896A	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	896							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				GCATGGTTGTACCAAACATTC	0.413													61	92					0	0	0.00361	0	0		G	67806936	G	G	67806936	3	3	12	1	0	0	0	0	1	0	0	0	13762	391	14	3	4109	3	RTTN	18	67806936	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	6546770	67806936	10270312	1033	10508											
CNDP2	55748	broad.mit.edu	37	chr18	72178084	72178084	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgattctgcctcgaaggcAtggaggagtcaggctctgag	8	9	14	10	2	3	1	1	1	2	0	5	5	4	3	2	4	1	2	2	4	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:72178084A>G	uc002llm.1	+	6	655	c.493A>G	c.(493-495)ATG>GTG	p.M165V	CNDP2_uc002lln.1_Missense_Mutation_p.M81V|CNDP2_uc010dqs.2_Missense_Mutation_p.M1V	NM_018235	NP_060705	Q96KP4	CNDP2_HUMAN	CNDP dipeptidase 2	165						cytoplasm	carboxypeptidase activity|metal ion binding|metallopeptidase activity|protein binding|tripeptidase activity			ovary(2)|skin(1)	3		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.22)		CCTCGAAGGCATGGAGGAGTC	0.493													23	62					0	0	0.005443	0	0		G	72178084	G	G	72178084	3	3	12	1	0	0	0	0	1	0	0	0	3597	217	8	3	511	3	CNDP2	18	72178084	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	4371148	72178084	5899164	1034	10509											
TSHZ1	10194	broad.mit.edu	37	chr18	72998529	72998529	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaaagcagcgaacccgtaCgtcacgcccaataaccgcta	14	4	8	15	5	1	1	1	0	0	1	1	2	1	1	3	0	5	3	3	0	6	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:72998529C>T	uc002lly.2	+	2	1595	c.1032C>T	c.(1030-1032)TAC>TAT	p.Y344Y		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	389						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		CGAACCCGTACGTCACGCCCA	0.617													13	36					0	0	0.003163	0	0		T	72998529	T	T	72998529	2	4	12	1	0	0	0	0	0	0	0	1	16649	547	19	1		1	TSHZ1	18	72998529	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	820445	72998529	5078719	1035	10510											
TSHZ1	10194	broad.mit.edu	37	chr18	73000349	73000349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagacacacttgggcttcaGcctgaaggatctctccaagc	10	8	11	12	0	2	2	1	1	1	1	4	4	3	3	2	3	2	1	2	3	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:73000349G>A	uc002lly.2	+	2	3415	c.2852G>A	c.(2851-2853)AGC>AAC	p.S951N		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	996						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		TTGGGCTTCAGCCTGAAGGAT	0.488													24	42					0	0	0.00333	0	0		A	73000349	A	A	73000349	3	1	12	1	0	0	0	0	1	0	0	0	16649	971	34	2	2854	2	TSHZ1	18	73000349	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1820	73000349	5076899	1036	10511											
ZNF236	7776	broad.mit.edu	37	chr18	74563868	74563868	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagtggctagtctcaaagcGcatattatgctacatgaaaa	15	10	9	7	1	1	2	1	1	1	1	2	2	1	2	0	1	3	3	0	1	7	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:74563868G>A	uc002lmi.2	+	3	528	c.330G>A	c.(328-330)GCG>GCA	p.A110A	ZNF236_uc002lmj.2_RNA|ZNF236_uc002lmk.1_Silent_p.A110A	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	110	C2H2-type 3.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GTCTCAAAGCGCATATTATGC	0.393													7	46					0	0	0.001984	0	0		A	74563868	A	A	74563868	2	1	12	1	0	0	0	0	0	0	0	1	17814	1074	38	1		1	ZNF236	18	74563868	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1563519	74563868	3513380	1037	10512											
CTDP1	9150	broad.mit.edu	37	chr18	77475147	77475147	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgagtcacagaacagcgagCtgtcgggggtcactgcgggt	8	6	16	11	4	2	1	2	0	0	1	3	3	2	1	1	3	4	1	1	3	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:77475147C>T	uc002lnh.1	+	8	1834	c.1687C>T	c.(1687-1689)CTG>TTG	p.L563L	CTDP1_uc002lni.1_Silent_p.L563L|CTDP1_uc010drd.1_Silent_p.L563L	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	563					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		GAACAGCGAGCTGTCGGGGGT	0.587													7	17					0	0	0.008291	0	0		T	77475147	T	T	77475147	2	4	12	1	0	0	0	0	0	0	0	1	4005	796	28	2		2	CTDP1	18	77475147	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2911279	77475147	602101	1038	10513											
ADNP2	22850	broad.mit.edu	37	chr18	77894088	77894088	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actggactcttgaagcaaacGcacattgctccaaaaccagc	14	7	7	13	1	1	1	0	1	1	0	2	2	2	2	2	1	5	3	2	1	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:77894088G>A	uc002lnw.2	+	4	1247	c.792G>A	c.(790-792)ACG>ACA	p.T264T		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	264					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		TGAAGCAAACGCACATTGCTC	0.463													24	48					0	0	0.007291	0	0		A	77894088	A	A	77894088	2	1	12	1	0	0	0	0	0	0	0	1	324	1074	38	1		1	ADNP2	18	77894088	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	418941	77894088	183160	1039	10514											
ADNP2	22850	broad.mit.edu	37	chr18	77894778	77894778	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgggccagacagctccGtcacgggttcttcccccagg	5	8	12	16	2	2	1	1	0	1	1	4	1	4	1	5	3	1	2	5	3	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr18:77894778G>A	uc002lnw.2	+	4	1937	c.1482G>A	c.(1480-1482)CCG>CCA	p.P494P		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	494					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		AGACAGCTCCGTCACGGGTTC	0.597													16	45					0	0	0.004007	0	0		A	77894778	A	A	77894778	2	1	12	1	0	0	0	0	0	0	0	1	324	1132	40	1		1	ADNP2	18	77894778	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	690	77894778	182470	1040	10515											
CFD	1675	broad.mit.edu	37	chr19	861776	861776	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccgcgacgtggcaccgggAactctctgcgacgtggccgg	6	5	16	14	7	1	0	0	0	1	0	2	4	1	1	3	4	2	1	3	4	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:861776A>G	uc002lqc.2	+	4	460	c.435A>G	c.(433-435)GGA>GGG	p.G145G	CFD_uc010drv.2_Silent_p.G152G	NM_001928	NP_001919	P00746	CFAD_HUMAN	complement factor D preproprotein	145	Peptidase S1.				complement activation, alternative pathway|platelet activation|platelet degranulation|proteolysis	platelet alpha granule lumen	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGCACCGGGAACTCTCTGCG	0.721													3	6					0	0	0.004672	0	0		G	861776	G	G	861776	2	3	12	1	0	0	0	0	0	0	0	1	3284	233	9	3		3	CFD	19	861776	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08		861776	58267207	1041	10516											
JSRP1	126306	broad.mit.edu	37	chr19	2254215	2254215	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttcagcctctccttccccGttcctggggtccccctggcg	1	12	9	19	2	2	0	1	0	1	0	6	0	5	0	7	3	1	1	7	3	0	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:2254215G>A	uc002lvi.1	-	3	268	c.233C>T	c.(232-234)ACG>ATG	p.T78M	JSRP1_uc002lvj.1_Missense_Mutation_p.T78M	NM_144616	NP_653217	Q96MG2	JSPR1_HUMAN	junctional sarcoplasmic reticulum protein 1	78						sarcoplasmic reticulum membrane				pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCTTCCCCGTTCCTGGGGT	0.627											OREG0025137	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	62					0	0	0.00278	0	0		A	2254215	A	A	2254215	3	1	12	1	0	0	0	0	1	0	0	0	7982	1145	40	1	778	1	JSRP1	19	2254215	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1392439	2254215	56874768	1042	10517											
SLC39A3	29985	broad.mit.edu	37	chr19	2737214	2737214	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcatgaagaagaacacGcccaccatgcacaggatttt	15	6	9	11	1	0	3	0	1	0	2	0	4	0	4	2	1	4	3	2	1	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:2737214G>A	uc002lwg.2	-	2	296	c.42C>T	c.(40-42)GGC>GGT	p.G14G	SLC39A3_uc010xgy.1_Silent_p.G14G|SLC39A3_uc002lwh.2_Silent_p.G14G	NM_144564	NP_653165	Q9BRY0	S39A3_HUMAN	solute carrier family 39 (zinc transporter),	14	Helical; (Potential).					integral to membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGAAGAACACGCCCACCATGC	0.562													7	7					0	0	0.001984	0	0		A	2737214	A	A	2737214	2	1	12	1	0	0	0	0	0	0	0	1	14644	1074	38	1		1	SLC39A3	19	2737214	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	482999	2737214	56391769	1043	10518											
ZNF554	115196	broad.mit.edu	37	chr19	2833886	2833886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctcaggagaaggctactgCatggcatggatttggggaaa	11	9	14	7	0	1	1	1	0	0	1	2	4	2	3	1	6	2	3	1	6	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:2833886C>T	uc002lwm.2	+	5	851	c.653C>T	c.(652-654)GCA>GTA	p.A218V	ZNF554_uc002lwl.2_Missense_Mutation_p.A167V	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	218					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGGCTACTGCATGGCATGGA	0.512													13	34					0	0	0.001855	0	0		T	2833886	T	T	2833886	3	4	12	1	0	0	0	0	1	0	0	0	18010	710	25	2	671	2	ZNF554	19	2833886	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	96672	2833886	56295097	1044	10519											
ZNF556	80032	broad.mit.edu	37	chr19	2877814	2877814	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcacgccggagggagaccGtatgagtgcaagcagtgtgg	10	6	17	8	3	0	2	0	1	0	1	0	4	0	3	2	3	3	4	2	3	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:2877814G>A	uc002lwp.1	+	4	945	c.858G>A	c.(856-858)CCG>CCA	p.P286P	ZNF556_uc002lwq.2_Silent_p.P285P	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	286					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAGGGAGACCGTATGAGTGCA	0.517													20	42					0	0	0.001882	0	0		A	2877814	A	A	2877814	2	1	12	1	0	0	0	0	0	0	0	1	18012	1132	40	1		1	ZNF556	19	2877814	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	43928	2877814	56251169	1045	10520											
CREB3L3	84699	broad.mit.edu	37	chr19	4164623	4164623	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatcaccctgcccactcagCtgcccctcactaaggtgagt	8	8	8	17	0	3	1	3	1	0	0	3	1	3	1	4	1	3	2	4	1	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:4164623C>T	uc002lzl.2	+	5	816	c.700C>T	c.(700-702)CTG>TTG	p.L234L	CREB3L3_uc002lzm.2_Silent_p.L224L|CREB3L3_uc010xib.1_Silent_p.L223L|CREB3L3_uc010xic.1_Silent_p.L225L	NM_032607	NP_115996	Q68CJ9	CR3L3_HUMAN	cAMP responsive element binding protein 3-like	234	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0232)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCCACTCAGCTGCCCCTCAC	0.562													3	17					0	0	0.009096	0	0		T	4164623	T	T	4164623	2	4	12	1	0	0	0	0	0	0	0	1	3861	796	28	2		2	CREB3L3	19	4164623	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1286809	4164623	54964360	1046	10521											
TMIGD2	126259	broad.mit.edu	37	chr19	4292680	4292680	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaccctgaccatagagacGgggtggccgggcctggggct	7	5	18	11	2	0	3	0	1	0	2	0	5	0	3	4	6	0	1	4	6	1	1	rs148804982	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:4292680G>A	uc002lzx.1	-	5	811	c.765C>T	c.(763-765)CCC>CCT	p.P255P	TMIGD2_uc010dtv.1_Silent_p.P251P	NM_144615	NP_653216	Q96BF3	TMIG2_HUMAN	transmembrane and immunoglobulin domain	255	Pro-rich.|Cytoplasmic (Potential).					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		CCATAGAGACGGGGTggccgg	0.498													13	15					0	0	0.003163	0	0		A	4292680	A	A	4292680	2	1	12	1	0	0	0	0	0	0	0	1	16256	1103	39	1		1	TMIGD2	19	4292680	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	128057	4292680	54836303	1047	10522											
LONP1	9361	broad.mit.edu	37	chr19	5693672	5693672	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgcgggcgctctccttcAtcacctcccccagctggcct	4	10	8	19	2	3	0	2	0	1	0	5	0	4	0	5	2	2	2	5	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:5693672A>G	uc002mcx.2	-	16	2462	c.2429T>C	c.(2428-2430)ATG>ACG	p.M810T	LONP1_uc002mcy.2_Missense_Mutation_p.M746T|LONP1_uc010duh.2_Missense_Mutation_p.M551T|LONP1_uc010dui.2_Missense_Mutation_p.M794T|LONP1_uc002mcz.2_Missense_Mutation_p.M614T	NM_004793	NP_004784	P36776	LONM_HUMAN	mitochondrial lon peptidase 1 precursor	810					cellular chaperone-mediated protein complex assembly|cellular response to oxidative stress|misfolded or incompletely synthesized protein catabolic process|mitochondrial DNA metabolic process|oxidation-dependent protein catabolic process|protein homooligomerization|response to hypoxia	mitochondrial nucleoid	ADP binding|ATP binding|ATP-dependent peptidase activity|DNA polymerase binding|G-quadruplex DNA binding|mitochondrial heavy strand promoter anti-sense binding|mitochondrial light strand promoter anti-sense binding|sequence-specific DNA binding|serine-type endopeptidase activity|single-stranded DNA binding|single-stranded RNA binding				0						GCTCTCCTTCATCACCTCCCC	0.607													6	15					0	0	0.001168	0	0		G	5693672	G	G	5693672	3	3	12	1	0	0	0	0	1	0	0	0	8910	217	8	3	462	3	LONP1	19	5693672	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1400992	5693672	53435311	1048	10523											
LONP1	9361	broad.mit.edu	37	chr19	5700863	5700863	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcactgcctgtgcccgCgccaggtccaggttctcgtt	4	10	11	16	3	1	0	0	0	1	0	4	0	3	0	5	2	3	3	5	2	0	2	rs146759309	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:5700863C>T	uc002mcx.2	-	9	1476	c.1443G>A	c.(1441-1443)GCG>GCA	p.A481A	LONP1_uc002mcy.2_Silent_p.A417A|LONP1_uc010duh.2_Silent_p.A222A|LONP1_uc010dui.2_Silent_p.A465A|LONP1_uc002mcz.2_Silent_p.A285A	NM_004793	NP_004784	P36776	LONM_HUMAN	mitochondrial lon peptidase 1 precursor	481					cellular chaperone-mediated protein complex assembly|cellular response to oxidative stress|misfolded or incompletely synthesized protein catabolic process|mitochondrial DNA metabolic process|oxidation-dependent protein catabolic process|protein homooligomerization|response to hypoxia	mitochondrial nucleoid	ADP binding|ATP binding|ATP-dependent peptidase activity|DNA polymerase binding|G-quadruplex DNA binding|mitochondrial heavy strand promoter anti-sense binding|mitochondrial light strand promoter anti-sense binding|sequence-specific DNA binding|serine-type endopeptidase activity|single-stranded DNA binding|single-stranded RNA binding				0						CCTGTGCCCGCGCCAGGTCCA	0.587													20	47					0	0	0.002299	0	0		T	5700863	T	T	5700863	2	4	12	1	0	0	0	0	0	0	0	1	8910	755	27	1		1	LONP1	19	5700863	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	7191	5700863	53428120	1049	10524											
SH2D3A	10045	broad.mit.edu	37	chr19	6760727	6760727	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaggcccctgccaagtcAcaggcctggagaccacagcc	10	3	12	16	0	1	2	1	0	0	2	1	3	1	2	6	3	2	1	6	3	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:6760727A>C	uc002mft.2	-	3	535	c.341T>G	c.(340-342)GTG>GGG	p.V114G	SH2D3A_uc010xjg.1_Intron	NM_005490	NP_005481	Q9BRG2	SH23A_HUMAN	SH2 domain containing 3A	114	SH2.				JNK cascade|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			breast(2)	2						CTGCCAAGTCACAGGCCTGGA	0.612													3	11					0	0	0.004672	0	0		C	6760727	C	C	6760727	3	2	12	1	0	0	0	0	1	0	0	0	14258	159	6	5	1421	5	SH2D3A	19	6760727	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	1059864	6760727	52368256	1050	10525											
KIAA1543	57662	broad.mit.edu	37	chr19	7676981	7676981	+	Frame_Shift_Del	DEL	G	-	-																															aaaccatctccctgtctggtGggggaggcatcgaaaccgcc																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:7676981delG	uc002mgv.3	+	11	1703	c.1602delG	c.(1600-1602)GTGfs	p.V534fs	KIAA1543_uc002mgu.3_Frame_Shift_Del_p.V561fs|KIAA1543_uc002mgw.2_5'Flank	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	534	Pro-rich.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						CCTGTCTGGTGGGGGAGGCAT	0.637													7	15	---	---	---	---						.	-	7676981	-	-	7676981	7	5	12	1	0	1	0	1	0	0	0	0	8259	1335	47	0	1733	0	KIAA1543	19	7676981	Frame_Shift_Del	DEL	G	TCGA-BR-4257-01A-01D-1126-08	916254	7676981	51452002	1051	10526											
XAB2	56949	broad.mit.edu	37	chr19	7685435	7685435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctccccacagccctacccGggggtcacagatctgggagc	7	5	11	18	1	2	1	1	0	1	1	3	2	3	2	5	3	3	0	5	3	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:7685435G>A	uc002mgx.2	-	15	2118	c.2092C>T	c.(2092-2094)CGG>TGG	p.R698W		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	698	HAT 14.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						AGCCCTACCCGGGGGTCACAG	0.677								Direct_reversal_of_damage|NER					6	15					0	0	0.004482	0	0		A	7685435	A	A	7685435	3	1	12	1	0	0	0	0	1	0	0	0	17444	1115	39	1	495	1	XAB2	19	7685435	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	8454	7685435	51443548	1052	10527											
CD320	51293	broad.mit.edu	37	chr19	8367483	8367483	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgaccaggcttgcactgAgcaccgctgtggggaacaga	9	6	15	11	2	0	3	0	2	0	1	0	4	0	4	2	4	3	4	2	4	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:8367483A>G	uc002mjj.1	-	5	778	c.713T>C	c.(712-714)CTC>CCC	p.L238P	CD320_uc002mjk.1_RNA|CD320_uc002mjl.1_Missense_Mutation_p.L196P	NM_016579	NP_057663	Q9NPF0	CD320_HUMAN	8D6 antigen isoform 1 precursor	238	Helical; (Potential).				regulation of cell growth	endoplasmic reticulum|integral to membrane	growth factor activity				0						GCTTGCACTGAGCACCGCTGT	0.627													4	30					0	0	0.000602	0	0		G	8367483	G	G	8367483	3	3	12	1	0	0	0	0	1	0	0	0	3007	304	11	3	139	3	CD320	19	8367483	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	682048	8367483	50761500	1053	10528											
ACTL9	284382	broad.mit.edu	37	chr19	8808138	8808138	+	Frame_Shift_Del	DEL	G	-	-																															gtgacagccccgggacctctGgggggttgaacagcagctcc																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:8808138delG	uc002mkl.2	-	1	1035	c.914delC	c.(913-915)CCAfs	p.P305fs		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	305						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						CGGGACCTCTGGGGGGTTGAA	0.647													12	17	---	---	---	---						.	-	8808138	-	-	8808138	7	5	12	1	0	1	0	1	0	0	0	0	203	1348	47	0	340	0	ACTL9	19	8808138	Frame_Shift_Del	DEL	G	TCGA-BR-4257-01A-01D-1126-08	440655	8808138	50320845	1054	10529											
ZNF558	148156	broad.mit.edu	37	chr19	8932736	8932736	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgccctgtgtgtgtcctttTtgctgagaggctgggaacag	5	12	14	10	1	0	1	0	1	0	1	1	3	1	2	3	2	2	2	3	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:8932736T>C	uc002mkn.1	-	2	293	c.63A>G	c.(61-63)CAA>CAG	p.Q21Q	ZNF558_uc010xkh.1_5'Flank|ZNF558_uc010dwg.1_Silent_p.Q21Q	NM_144693	NP_653294	Q96NG5	ZN558_HUMAN	zinc finger protein 558	21					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1						TGTGTCCTTTTTGCTGAGAGG	0.527													18	66					0	0	0.008871	0	0		C	8932736	C	C	8932736	2	2	12	1	0	0	0	0	0	0	0	1	18014	1838	64	3		3	ZNF558	19	8932736	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	124598	8932736	50196247	1055	10530											
MUC16	94025	broad.mit.edu	37	chr19	9077103	9077103	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaggtgatgtataatgtgTttgtgacatcaggagatgca	11	13	14	3	0	1	3	1	2	0	1	1	5	1	4	0	3	1	3	0	3	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:9077103T>C	uc002mkp.2	-	3	10547	c.10343A>G	c.(10342-10344)AAC>AGC	p.N3448S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3449	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTATAATGTGTTTGTGACATC	0.478													3	55					0	0	0.004672	0	0		C	9077103	C	C	9077103	3	2	12	1	0	0	0	0	1	0	0	0	9991	1725	60	3	33508	3	MUC16	19	9077103	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	144367	9077103	50051880	1056	10531											
MUC16	94025	broad.mit.edu	37	chr19	9087343	9087343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgagaaggtgtggacataGgtggaaaaatagcaaatgta	17	8	13	3	0	0	1	0	1	0	1	0	4	0	3	0	4	1	2	0	4	7	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:9087343G>A	uc002mkp.2	-	1	4676	c.4472C>T	c.(4471-4473)CCT>CTT	p.P1491L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1491	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTGGACATAGGTGGAAAAAT	0.428													38	113					0	0	0.002522	0	0		A	9087343	A	A	9087343	3	1	12	1	0	0	0	0	1	0	0	0	9991	1000	35	4	39387	4	MUC16	19	9087343	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	10240	9087343	50041640	1057	10532											
ZNF266	10781	broad.mit.edu	37	chr19	9524026	9524026	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagaactgaaggctttcccGcactccttacattcataggg	11	10	9	11	1	1	2	1	1	0	1	3	3	3	2	2	2	2	2	2	2	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:9524026G>A	uc002mll.2	-	4	1841	c.1575C>T	c.(1573-1575)TGC>TGT	p.C525C	ZNF266_uc002mlm.2_Silent_p.C525C|ZNF266_uc002mln.2_Silent_p.C525C|ZNF266_uc002mlo.2_Silent_p.C525C|ZNF266_uc010dwp.2_Silent_p.C525C|ZNF266_uc010dwq.2_Silent_p.C525C	NM_198058	NP_932175	Q14584	ZN266_HUMAN	zinc finger protein 266	525	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGGCTTTCCCGCACTCCTTAC	0.428													18	32					0	0	0.006122	0	0		A	9524026	A	A	9524026	2	1	12	1	0	0	0	0	0	0	0	1	17830	1079	38	1		1	ZNF266	19	9524026	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	436683	9524026	49604957	1058	10533											
OLFM2	93145	broad.mit.edu	37	chr19	9968487	9968487	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgtacatactggaggtcGcgatacgtccgcaactcaag	10	7	11	13	6	1	0	1	0	0	0	3	2	2	1	2	2	4	2	2	2	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:9968487G>A	uc002mmp.2	-	3	292	c.264C>T	c.(262-264)CGC>CGT	p.R88R	OLFM2_uc002mmo.2_Silent_p.R10R	NM_058164	NP_477512	O95897	NOE2_HUMAN	olfactomedin 2 precursor	88						extracellular region				large_intestine(1)|skin(1)	2						ACTGGAGGTCGCGATACGTCC	0.612													12	11					0	0	0.003163	0	0		A	9968487	A	A	9968487	2	1	12	1	0	0	0	0	0	0	0	1	10872	1074	38	1		1	OLFM2	19	9968487	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	444461	9968487	49160496	1059	10534											
ZGLP1	100125288	broad.mit.edu	37	chr19	10419251	10419251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagggcagtggggtcaCgttttcttgggtgactcctg	6	11	17	7	1	2	2	1	1	1	1	3	3	3	2	1	5	0	2	1	5	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:10419251C>T	uc002mnw.3	-	1	983	c.107G>A	c.(106-108)CGT>CAT	p.R36H	FDX1L_uc002mnx.1_Intron	NM_001103167	NP_001096637	P0C6A0	ZGLP1_HUMAN	GATA like protein-1	36					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						AGTGGGGTCACGTTTTCTTGG	0.622													3	15					0	0	0.009096	0	0		T	10419251	T	T	10419251	3	4	12	1	0	0	0	0	1	0	0	0	17698	536	19	1	724	1	ZGLP1	19	10419251	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	450764	10419251	48709732	1060	10535											
CDC37	11140	broad.mit.edu	37	chr19	10506695	10506695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcttctgctcccagctcCgctcctccttgcgcagctgc	3	10	8	20	2	1	0	0	0	1	0	5	0	5	0	5	0	6	6	5	0	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:10506695C>T	uc002mof.1	-	2	403	c.287G>A	c.(286-288)CGG>CAG	p.R96Q	CDC37_uc002moe.1_5'Flank|CDC37_uc010dxf.1_5'UTR|CDC37_uc002mog.1_Missense_Mutation_p.R96Q|CDC37_uc002moh.2_Missense_Mutation_p.R96Q	NM_007065	NP_008996	Q16543	CDC37_HUMAN	cell division cycle 37 protein	96					protein targeting|regulation of cyclin-dependent protein kinase activity|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway		unfolded protein binding				0			OV - Ovarian serous cystadenocarcinoma(20;4.65e-10)|Epithelial(33;6.48e-07)|all cancers(31;2.31e-06)	GBM - Glioblastoma multiforme(1328;0.0318)		CTCCCAGCTCCGCTCCTCCTT	0.642													11	23					0	0	0.003163	0	0		T	10506695	T	T	10506695	3	4	12	1	0	0	0	0	1	0	0	0	3071	652	23	1	877	1	CDC37	19	10506695	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	87444	10506695	48622288	1061	10536											
KEAP1	9817	broad.mit.edu	37	chr19	10610092	10610092	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccccaaaatgcatgtagatGtactcccgggcacgctggtg	9	9	11	12	2	0	1	0	0	0	1	2	1	2	1	3	2	2	5	3	2	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:10610092G>A	uc002moq.1	-	2	774	c.618C>T	c.(616-618)TAC>TAT	p.Y206Y	KEAP1_uc002mor.1_Silent_p.Y206Y	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	206	BACK.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			GCATGTAGATGTACTCCCGGG	0.602													4	13					0	0	0.009096	0	0		A	10610092	A	A	10610092	2	1	12	1	0	0	0	0	0	0	0	1	8157	1372	48	4		4	KEAP1	19	10610092	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	103397	10610092	48518891	1062	10537											
ELAVL3	1995	broad.mit.edu	37	chr19	11565601	11565601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgaagatgcaccagccggCgcccgccgcgccccccgaca	8	1	11	21	7	0	1	0	0	0	1	0	3	0	1	7	1	2	1	7	1	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:11565601C>T	uc002mry.1	-	7	1224	c.844G>A	c.(844-846)GCC>ACC	p.A282T	ELAVL3_uc002mrx.1_Missense_Mutation_p.A275T	NM_001420	NP_001411	Q14576	ELAV3_HUMAN	ELAV-like protein 3 isoform 1	282				Missing (in Ref. 1; AAA58677 and 4; BAA21838).	cell differentiation|nervous system development		AU-rich element binding|nucleotide binding			ovary(1)|breast(1)|skin(1)	3						CACCAgccggcgcccgccgcg	0.547													4	19					0	0	0.004482	0	0		T	11565601	T	T	11565601	3	4	12	1	0	0	0	0	1	0	0	0	5059	768	27	1	263	1	ELAVL3	19	11565601	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	955509	11565601	47563382	1063	10538											
ELOF1	84337	broad.mit.edu	37	chr19	11664600	11664600	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcgtctatccaatcactGtacacatccacgggttctga	10	10	8	13	2	3	1	1	1	2	0	5	1	5	1	2	2	1	2	2	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:11664600G>A	uc002mse.1	-	4	277	c.213C>T	c.(211-213)TAC>TAT	p.Y71Y	ELOF1_uc002msd.1_Silent_p.Y92Y	NM_032377	NP_115753	P60002	ELOF1_HUMAN	elongation factor 1 homolog (ELF1, S.	71					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding				0						TCCAATCACTGTACACATCCA	0.577													14	29					0	0	0.00499	0	0		A	11664600	A	A	11664600	2	1	12	1	0	0	0	0	0	0	0	1	5080	1372	48	4		4	ELOF1	19	11664600	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	98999	11664600	47464383	1064	10539											
ZNF564	163050	broad.mit.edu	37	chr19	12638137	12638137	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaataaactggggcggtcaAaggcttttccacattcctga	12	10	10	9	1	1	1	1	1	0	0	3	2	3	1	2	4	1	1	2	4	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:12638137A>G	uc002mty.2	-	4	995	c.785T>C	c.(784-786)TTT>TCT	p.F262S	ZNF709_uc002mtx.3_Intron	NM_144976	NP_659413	Q8TBZ8	ZN564_HUMAN	zinc finger protein 564	262	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGGGCGGTCAAAGGCTTTTCC	0.398													14	46					0	0	0.008871	0	0		G	12638137	G	G	12638137	3	3	12	1	0	0	0	0	1	0	0	0	18020	14	1	3	880	3	ZNF564	19	12638137	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	973537	12638137	46490846	1065	10540											
PKN1	5585	broad.mit.edu	37	chr19	14574680	14574680	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcagatgaacatcgatgtCgccacgtgggtgcggctgct	8	8	15	10	4	0	2	0	1	0	1	2	3	0	2	1	3	3	3	1	3	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:14574680C>T	uc002myp.2	+	11	1704	c.1536C>T	c.(1534-1536)GTC>GTT	p.V512V	PKN1_uc002myq.2_Silent_p.V518V	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	512					activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						ACATCGATGTCGCCACGTGGG	0.682													6	13					0	0	0.008291	0	0		T	14574680	T	T	14574680	2	4	12	1	0	0	0	0	0	0	0	1	11998	871	31	1		1	PKN1	19	14574680	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1936543	14574680	44554303	1066	10541											
HSH2D	84941	broad.mit.edu	37	chr19	16268222	16268222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctaaaaaagccacctcGccactgtgaacttgtcgtca	12	8	8	13	2	1	1	1	1	0	0	3	1	1	1	3	0	3	2	3	0	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:16268222G>A	uc002ndp.3	+	9	1207	c.676G>A	c.(676-678)GCC>ACC	p.A226T	HSH2D_uc002ndr.2_Missense_Mutation_p.R169H|HSH2D_uc010ead.2_RNA	NM_032855	NP_116244	Q96JZ2	HSH2D_HUMAN	hematopoietic SH2 domain containing	226						cytoplasm|nucleus					0						AAGCCACCTCGCCACTGTGAA	0.582													9	19					0	0	0.004482	0	0		A	16268222	A	A	16268222	3	1	12	1	0	0	0	0	1	0	0	0	7416	1087	38	1	695	1	HSH2D	19	16268222	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1693542	16268222	42860761	1067	10542											
NWD1	284434	broad.mit.edu	37	chr19	16918704	16918704	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accttttacactcagctgccCgagaccctctccagcgtggc	7	9	8	17	2	2	1	1	0	1	1	3	2	2	1	4	1	4	1	4	1	1	2	rs61735363	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:16918704C>T	uc002neu.3	+	18	4466	c.4044C>T	c.(4042-4044)CCC>CCT	p.P1348P	NWD1_uc002net.3_Silent_p.P1213P|NWD1_uc002nev.3_Silent_p.P1142P			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1348							ATP binding			skin(3)|ovary(2)|pancreas(2)	7						CTCAGCTGCCCGAGACCCTCT	0.572													22	53					0	0	0.004656	0	0		T	16918704	T	T	16918704	2	4	12	1	0	0	0	0	0	0	0	1	10800	639	23	1		1	NWD1	19	16918704	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	650482	16918704	42210279	1068	10543											
MYO9B	4650	broad.mit.edu	37	chr19	17298808	17298808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctacaccggcatgctggagaCcgtgcgcatccggaggtcag	8	6	14	13	4	1	1	1	0	0	1	2	3	2	2	3	4	3	3	3	4	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:17298808C>T	uc010eak.2	+	19	2794	c.2642C>T	c.(2641-2643)ACC>ATC	p.T881I	MYO9B_uc002nfi.2_Missense_Mutation_p.T881I|MYO9B_uc002nfj.1_Missense_Mutation_p.T881I	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	881	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						ATGCTGGAGACCGTGCGCATC	0.577													3	9					0	0	0.001168	0	0		T	17298808	T	T	17298808	3	4	12	1	0	0	0	0	1	0	0	0	10103	507	18	4	2712	4	MYO9B	19	17298808	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	380104	17298808	41830175	1069	10544											
GTPBP3	84705	broad.mit.edu	37	chr19	17452410	17452410	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacctggccctggcggcagaGgcgctgcgggtggcccgggg	3	4	21	13	4	0	1	0	0	0	1	0	2	0	1	3	8	1	2	3	8	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:17452410G>T	uc010eas.2	+	9	1442	c.1377G>T	c.(1375-1377)GAG>GAT	p.E459D	GTPBP3_uc010xpo.1_Missense_Mutation_p.E481D|GTPBP3_uc002ngh.3_Missense_Mutation_p.E438D|GTPBP3_uc002ngg.3_Missense_Mutation_p.E491D|GTPBP3_uc002ngi.3_Missense_Mutation_p.E125D	NM_032620	NP_116009	Q969Y2	GTPB3_HUMAN	GTP binding protein 3 (mitochondrial) isoform V	459					tRNA modification	mitochondrion	GTP binding|GTPase activity			skin(1)	1						TGGCGGCAGAGGCGCTGCGGG	0.657													3	17					0.00198382	0.00206711	0.001984	1	0		T	17452410	T	T	17452410	3	4	12	1	0	0	0	0	1	0	0	0	6897	991	35	5	1503	5	GTPBP3	19	17452410	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	153602	17452410	41676573	1070	10545											
KLHL26	55295	broad.mit.edu	37	chr19	18779306	18779306	+	Frame_Shift_Del	DEL	G	-	-																															acaattttgtgtacgtggccGgggggcagcacctgcagtac																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:18779306delG	uc002njz.1	+	3	1126	c.1099delG	c.(1099-1101)GGGfs	p.G367fs		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	367	Kelch 2.									ovary(1)	1						GTACGTGGCCGGGGGGCAGCA	0.687													4	6	---	---	---	---						.	-	18779306	-	-	18779306	7	5	12	1	0	1	0	1	0	0	0	0	8397	1116	39	0	1109	0	KLHL26	19	18779306	Frame_Shift_Del	DEL	G	TCGA-BR-4257-01A-01D-1126-08	1326896	18779306	40349677	1071	10546											
LPAR2	9170	broad.mit.edu	37	chr19	19735185	19735185	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggactggcggaggcacgcGcagcagagaaggcggcggaa	10	2	20	9	5	0	1	0	0	0	1	0	5	0	4	0	7	1	3	0	7	2	0	rs144833106		TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:19735185G>A	uc002nnb.3	-	3	1075	c.936C>T	c.(934-936)TGC>TGT	p.C312C	LPAR2_uc002nna.3_Silent_p.C312C|LPAR2_uc002nnc.3_Silent_p.C312C	NM_004720	NP_004711	Q9HBW0	LPAR2_HUMAN	lysophosphatidic acid receptor 2	312	Cytoplasmic (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration	cell surface|integral to plasma membrane	LIM domain binding|lipid binding			ovary(1)|breast(1)	2						GGAGGCACGCGCAGCAGAGAA	0.627													9	22					0	0	0.006214	0	0		A	19735185	A	A	19735185	2	1	12	1	0	0	0	0	0	0	0	1	8923	1079	38	1		1	LPAR2	19	19735185	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	955879	19735185	39393798	1072	10547											
ZNF506	440515	broad.mit.edu	37	chr19	19906095	19906095	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accacattcttcacatttatAgcgtttctctccagcatcaa	11	14	3	13	1	4	0	2	0	2	0	6	0	5	0	2	0	2	2	2	0	3	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:19906095A>G	uc010eci.2	-	4	749	c.601T>C	c.(601-603)TAT>CAT	p.Y201H	ZNF506_uc002nog.2_Intron|ZNF506_uc002noh.3_Missense_Mutation_p.Y169H	NM_001099269	NP_001092739	Q5JVG8	ZN506_HUMAN	zinc finger protein 506 isoform 1	201	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding				0						TCACATTTATAGCGTTTCTCT	0.338													3	31					0	0	0.004672	0	0		G	19906095	G	G	19906095	3	3	12	1	0	0	0	0	1	0	0	0	17977	420	15	3	737	3	ZNF506	19	19906095	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	170910	19906095	39222888	1073	10548											
ZNF708	7562	broad.mit.edu	37	chr19	21477541	21477541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcaaaatgagaacacataGctgaaagaaataaaaataac	23	6	7	5	0	0	3	0	2	0	2	0	4	0	3	0	1	3	2	0	1	10	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:21477541G>A	uc002npq.1	-	4	425	c.227C>T	c.(226-228)GCT>GTT	p.A76V	ZNF708_uc002npr.1_Missense_Mutation_p.A12V|ZNF708_uc010ecs.1_Missense_Mutation_p.A12V	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	76					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						AGAACACATAGCTGAAAGAAA	0.289													8	20					0	0	0.004482	0	0		A	21477541	A	A	21477541	3	1	12	1	0	0	0	0	1	0	0	0	18137	985	34	2	1468	2	ZNF708	19	21477541	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1571446	21477541	37651442	1074	10549											
ZNF536	9745	broad.mit.edu	37	chr19	31039376	31039376	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccttccatgaaagtccaCggagtggatggtggtgagga	9	8	14	10	1	0	2	0	2	0	0	2	5	2	5	4	5	0	0	4	5	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:31039376C>T	uc002nsu.1	+	4	2988	c.2850C>T	c.(2848-2850)CAC>CAT	p.H950H	ZNF536_uc010edd.1_Silent_p.H950H	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	950					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TGAAAGTCCACGGAGTGGATG	0.532													33	95					0	0	0.003214	0	0		T	31039376	T	T	31039376	2	4	12	1	0	0	0	0	0	0	0	1	17999	535	19	1		1	ZNF536	19	31039376	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	9561835	31039376	28089607	1075	10550											
ZNF536	9745	broad.mit.edu	37	chr19	31039865	31039865	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcccatcagacttctacaaGcagtttggtgtttacccagg	9	13	8	11	0	2	1	1	0	1	1	3	1	3	1	2	2	3	3	2	2	3	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:31039865G>T	uc002nsu.1	+	4	3477	c.3339G>T	c.(3337-3339)AAG>AAT	p.K1113N	ZNF536_uc010edd.1_Missense_Mutation_p.K1113N	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1113					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					ACTTCTACAAGCAGTTTGGTG	0.567													10	21					0.00621372	0.00643042	0.006214	1	0		T	31039865	T	T	31039865	3	4	12	1	0	0	0	0	1	0	0	0	17999	962	34	5	3349	5	ZNF536	19	31039865	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	489	31039865	28089118	1076	10551											
LSM14A	26065	broad.mit.edu	37	chr19	34687605	34687605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atggacctttcggcaggatgCccacatacagtcagttcagt	10	10	10	11	1	2	0	2	0	0	0	3	2	2	2	2	3	2	2	2	3	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:34687605C>T	uc002nvb.3	+	3	548	c.352C>T	c.(352-354)CCC>TCC	p.P118S	LSM14A_uc002nva.3_Missense_Mutation_p.P118S|LSM14A_uc010xru.1_Missense_Mutation_p.P118S	NM_001114093	NP_001107565	Q8ND56	LS14A_HUMAN	LSM14 homolog A isoform a	118					cytoplasmic mRNA processing body assembly|multicellular organismal development|regulation of translation	cytoplasmic mRNA processing body|intracellular membrane-bounded organelle|stress granule				skin(1)	1	Esophageal squamous(110;0.162)					CGGCAGGATGCCCACATACAG	0.403													17	47					0	0	0.00278	0	0		T	34687605	T	T	34687605	3	4	12	1	0	0	0	0	1	0	0	0	9072	739	26	2	362	2	LSM14A	19	34687605	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3647740	34687605	24441378	1077	10552											
ZNF302	55900	broad.mit.edu	37	chr19	35174067	35174067	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgtaagcaggtctttcCgtaactaagccatatgtgat	10	14	8	9	1	1	1	0	1	1	0	3	1	3	1	3	1	3	3	3	1	4	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:35174067C>T	uc002nvr.1	+	5	533	c.270C>T	c.(268-270)TCC>TCT	p.S90S	ZNF302_uc010xrz.1_Silent_p.S47S|ZNF302_uc002nvp.1_Silent_p.S46S|ZNF302_uc002nvq.1_Silent_p.S46S|ZNF302_uc002nvs.1_Silent_p.S46S	NM_018443	NP_060913	Q9NR11	ZN302_HUMAN	zinc finger protein 302	Error:Variant_position_missing_in_Q9NR11_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;6.16e-07)|Lung NSC(56;9.71e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			CAGGTCTTTCCGTAACTAAGC	0.418													11	42					0	0	0.003163	0	0		T	35174067	T	T	35174067	2	4	12	1	0	0	0	0	0	0	0	1	17857	639	23	1		1	ZNF302	19	35174067	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	486462	35174067	23954916	1078	10553											
ZNF567	163081	broad.mit.edu	37	chr19	37210721	37210721	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacgggagagaaaccataTgagtgtaatgactgtgggaa	15	7	13	6	1	0	3	0	2	0	1	0	6	0	5	1	2	1	1	1	2	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:37210721T>A	uc010xtl.1	+	6	1317	c.1095T>A	c.(1093-1095)TAT>TAA	p.Y365*	ZNF567_uc002oeo.1_Nonsense_Mutation_p.Y365*|ZNF567_uc010xtk.1_Nonsense_Mutation_p.Y365*|ZNF567_uc002oep.3_Nonsense_Mutation_p.Y334*|ZNF567_uc002oeq.1_Nonsense_Mutation_p.Y334*	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	365	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AGAAACCATATGAGTGTAATG	0.443													12	27					0	0	0.001368	0	0		A	37210721	A	A	37210721	4	1	12	1	0	0	0	0	0	1	0	0	18023	1471	51	5	1012	5	ZNF567	19	37210721	Nonsense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	2036654	37210721	21918262	1079	10554											
ZNF607	84775	broad.mit.edu	37	chr19	38189172	38189172	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaatgccttcccacatctTttacattcatagggtttatc	10	16	5	10	0	2	1	1	1	1	0	4	1	3	1	2	1	2	1	2	1	4	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:38189172T>C	uc002ohc.1	-	5	2456	c.1860A>G	c.(1858-1860)AAA>AAG	p.K620K	ZNF607_uc002ohb.1_Silent_p.K619K	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	620	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			TCCCACATCTTTTACATTCAT	0.378													12	25					0	0	0.001368	0	0		C	38189172	C	C	38189172	2	2	12	1	0	0	0	0	0	0	0	1	18058	1838	64	3		3	ZNF607	19	38189172	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	978451	38189172	20939811	1080	10555											
SIPA1L3	23094	broad.mit.edu	37	chr19	38572895	38572895	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttccgcagcgagcagccCgacgcccgagggtgccaggc	7	3	16	15	5	0	0	0	0	0	0	1	4	1	0	4	2	4	3	4	2	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:38572895C>T	uc002ohk.2	+	3	1199	c.690C>T	c.(688-690)CCC>CCT	p.P230P		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	230					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GCGAGCAGCCCGACGCCCGAG	0.692													7	17					0	0	0.008291	0	0		T	38572895	T	T	38572895	2	4	12	1	0	0	0	0	0	0	0	1	14356	639	23	1		1	SIPA1L3	19	38572895	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	383723	38572895	20556088	1081	10556											
SIPA1L3	23094	broad.mit.edu	37	chr19	38573583	38573583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcagcggcgagggccacctgGcagagcccgccctgagcgcc	6	2	16	17	4	0	2	0	1	0	1	0	3	0	2	5	3	3	2	5	3	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:38573583G>A	uc002ohk.2	+	3	1887	c.1378G>A	c.(1378-1380)GCA>ACA	p.A460T		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	460					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GGGCCACCTGGCAGAGCCCGC	0.687													5	6					0	0	0.001984	0	0		A	38573583	A	A	38573583	3	1	12	1	0	0	0	0	1	0	0	0	14356	1203	42	2	1380	2	SIPA1L3	19	38573583	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	688	38573583	20555400	1082	10557											
DPF1	8193	broad.mit.edu	37	chr19	38706879	38706879	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagccgttggggatgacagTgccgtcgggcgccttcttgg	4	10	17	10	4	1	1	0	1	1	0	2	2	1	2	3	4	2	2	3	4	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:38706879T>C	uc002ohl.2	-	8	775	c.748A>G	c.(748-750)ACT>GCT	p.T250A	DPF1_uc002ohm.2_Missense_Mutation_p.T294A|DPF1_uc002ohn.2_Missense_Mutation_p.T212A|DPF1_uc010xtu.1_Missense_Mutation_p.T268A|DPF1_uc010xtv.1_Missense_Mutation_p.T268A	NM_004647	NP_004638	Q92782	DPF1_HUMAN	D4, zinc and double PHD fingers family 1 isoform	250					induction of apoptosis|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nBAF complex	zinc ion binding				0	all_cancers(60;1.24e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GGGATGACAGTGCCGTCGGGC	0.632													4	5					0	0	0.004482	0	0		C	38706879	C	C	38706879	3	2	12	1	0	0	0	0	1	0	0	0	4722	1696	59	3	410	3	DPF1	19	38706879	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	133296	38706879	20422104	1083	10558											
RYR1	6261	broad.mit.edu	37	chr19	39018367	39018367	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggacgccgatgacccCgagaaaatcgtgcgcagagt	12	4	15	10	5	0	3	0	1	0	2	1	8	0	5	3	2	1	1	3	2	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:39018367C>T	uc002oit.2	+	73	10897	c.10767C>T	c.(10765-10767)CCC>CCT	p.P3589P	RYR1_uc002oiu.2_Silent_p.P3584P|RYR1_uc002oiv.1_Silent_p.P504P|RYR1_uc010xuf.1_Silent_p.P509P	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3589					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CCGATGACCCCGAGAAAATCG	0.652													5	12					0	0	0.00308	0	0		T	39018367	T	T	39018367	2	4	12	1	0	0	0	0	0	0	0	1	13793	639	23	1		1	RYR1	19	39018367	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	311488	39018367	20110616	1084	10559											
CAPN12	147968	broad.mit.edu	37	chr19	39221806	39221806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgaagtccacacgcagaCggctatcccggtagcggctg	8	6	13	14	5	0	1	0	0	0	1	3	2	2	1	2	3	1	5	2	3	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:39221806C>T	uc002ojd.1	-	19	2324	c.2015G>A	c.(2014-2016)CGT>CAT	p.R672H	CAPN12_uc010egd.1_Missense_Mutation_p.R33H|CAPN12_uc002ojc.1_Missense_Mutation_p.R126H	NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	672	Domain IV.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			CACACGCAGACGGCTATCCCG	0.647													3	6					0	0	0.000602	0	0		T	39221806	T	T	39221806	3	4	12	1	0	0	0	0	1	0	0	0	2628	536	19	1	156	1	CAPN12	19	39221806	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	203439	39221806	19907177	1085	10560											
NFKBIB	4793	broad.mit.edu	37	chr19	39399383	39399383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccccaggatgaatacgacGacattgtggttcacagcagc	11	7	11	12	2	1	1	1	1	0	0	1	4	1	2	2	2	3	2	2	2	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:39399383G>A	uc002ojw.2	+	6	1040	c.982G>A	c.(982-984)GAC>AAC	p.D328N	NFKBIB_uc002ojx.2_3'UTR|NFKBIB_uc002ojy.2_3'UTR	NM_002503	NP_002494	Q15653	IKBB_HUMAN	nuclear factor of kappa light polypeptide gene	328					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription, DNA-dependent	cytosol|nucleus	protein binding|signal transducer activity|transcription coactivator activity			lung(1)|kidney(1)	2	all_cancers(60;4.39e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			TGAATACGACGACATTGTGGT	0.587													6	27					0	0	0.001984	0	0		A	39399383	A	A	39399383	3	1	12	1	0	0	0	0	1	0	0	0	10397	1058	37	1	1052	1	NFKBIB	19	39399383	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	177577	39399383	19729600	1086	10561											
IL28B	282617	broad.mit.edu	37	chr19	39735101	39735101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggggaagaggcgggagcGgcacttgcagtccttcagca	8	6	16	11	2	1	1	1	0	0	1	2	3	2	3	2	5	3	3	2	5	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:39735101G>A	uc010xut.1	-	2	218	c.214C>T	c.(214-216)CGC>TGC	p.R72C	IL28B_uc010xuu.1_Missense_Mutation_p.R72C	NM_172139	NP_742151	Q8IZI9	IL28B_HUMAN	interleukin 28B	72					response to virus	extracellular space	cytokine activity				0	all_cancers(60;2.81e-07)|all_lung(34;7.81e-08)|Lung NSC(34;9.29e-08)|all_epithelial(25;3.9e-07)|Ovarian(47;0.0315)		Epithelial(26;1.55e-27)|all cancers(26;1.41e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			AGGCGGGAGCGGCACTTGCAG	0.637													3	6					0	0	0.009096	0	0		A	39735101	A	A	39735101	3	1	12	1	0	0	0	0	1	0	0	0	7699	1116	39	1	391	1	IL28B	19	39735101	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	335718	39735101	19393882	1087	10562											
FCGBP	8857	broad.mit.edu	37	chr19	40368706	40368706	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatgttaccgcagagcccGcacactgcgccatgatagct	9	8	9	15	3	0	2	0	1	0	1	1	2	1	2	4	0	4	4	4	0	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:40368706G>A	uc002omp.3	-	28	12650	c.12642C>T	c.(12640-12642)TGC>TGT	p.C4214C		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4214	VWFD 10.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CGCAGAGCCCGCACACTGCGC	0.607													26	154					0	0	0.00623	0	0		A	40368706	A	A	40368706	2	1	12	1	0	0	0	0	0	0	0	1	5792	1079	38	1		1	FCGBP	19	40368706	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	633605	40368706	18760277	1088	10563											
ZNF546	339327	broad.mit.edu	37	chr19	40520949	40520949	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgtgggaagatttttaGtcgtcgctataatcttactc	11	15	9	6	2	1	2	0	0	1	2	4	3	1	3	0	1	1	1	0	1	6	6			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:40520949G>C	uc002oms.2	+	7	2028	c.1772G>C	c.(1771-1773)AGT>ACT	p.S591T	ZNF546_uc002omt.2_Missense_Mutation_p.S565T	NM_178544	NP_848639	Q86UE3	ZN546_HUMAN	zinc finger protein 546	591	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					AAGATTTTTAGTCGTCGCTAT	0.353													4	28					0	0	0.009096	0	0		C	40520949	C	C	40520949	3	2	12	1	0	0	0	0	1	0	0	0	18003	1029	36	5	1790	5	ZNF546	19	40520949	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	152243	40520949	18608034	1089	10564											
SNRPA	6626	broad.mit.edu	37	chr19	41265406	41265406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccttcgtggagcgggaccGcaagcgggagaagaggaagc	11	3	17	10	4	0	2	0	0	0	2	1	6	0	5	2	4	3	1	2	4	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:41265406G>A	uc002ooz.2	+	3	852	c.317G>A	c.(316-318)CGC>CAC	p.R106H	SNRPA_uc002opa.2_Missense_Mutation_p.R56H	NM_004596	NP_004587	P09012	SNRPA_HUMAN	small nuclear ribonucleoprotein polypeptide A	106						nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding			skin(2)|ovary(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			GAGCGGGACCGCAAGCGGGAG	0.552													13	20					0	0	0.00499	0	0		A	41265406	A	A	41265406	3	1	12	1	0	0	0	0	1	0	0	0	14884	1087	38	1	327	1	SNRPA	19	41265406	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	744457	41265406	17863577	1090	10565											
CYP2A7	1549	broad.mit.edu	37	chr19	41388023	41388023	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgggtcccggaggcagcttCcccctgctcttcctctgctg	2	11	12	16	1	2	0	0	0	2	0	5	1	5	1	4	3	3	4	4	3	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:41388023C>T	uc002opm.2	-	1	635	c.93G>A	c.(91-93)GGG>GGA	p.G31G	CYP2A7_uc002opo.2_Intron|CYP2A7_uc002opn.2_Silent_p.G31G	NM_000764	NP_000755	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A,	31						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			GAGGCAGCTTCCCCCTGCTCT	0.582													9	21					0	0	0.000978	0	0		T	41388023	T	T	41388023	2	4	12	1	0	0	0	0	0	0	0	1	4166	842	30	4		4	CYP2A7	19	41388023	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	122617	41388023	17740960	1091	10566											
MEGF8	1954	broad.mit.edu	37	chr19	42839311	42839311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaccctgccttctctgcccGtattggggcagctggcgcct	3	10	13	15	2	1	0	0	0	1	0	2	1	1	1	4	4	3	3	4	4	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:42839311G>A	uc002otl.3	+	4	1318	c.683G>A	c.(682-684)CGT>CAT	p.R228H	MEGF8_uc002otm.3_5'Flank	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	228	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				TTCTCTGCCCGTATTGGGGCA	0.657													5	15					0	0	0.00308	0	0		A	42839311	A	A	42839311	3	1	12	1	0	0	0	0	1	0	0	0	9481	1145	40	1	697	1	MEGF8	19	42839311	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1451288	42839311	16289672	1092	10567											
CXCL17	284340	broad.mit.edu	37	chr19	42937210	42937210	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgtcatgaattttcttctCggggctctcaggaaccaatc	9	13	8	11	1	4	1	2	1	3	0	7	2	4	2	1	3	1	1	1	3	3	3	rs151260095	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:42937210C>T	uc002otu.2	-	3	332	c.180G>A	c.(178-180)CCG>CCA	p.P60P	uc010eif.1_Intron|uc002ott.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron	NM_198477	NP_940879	Q6UXB2	VCC1_HUMAN	chemokine (C-X-C motif) ligand 17 precursor	60					angiogenesis|cell differentiation|chemotaxis	extracellular region					0		Prostate(69;0.00899)				ATTTTCTTCTCGGGGCTCTCA	0.453													12	19					0	0	0.001855	0	0		T	42937210	T	T	42937210	2	4	12	1	0	0	0	0	0	0	0	1	4087	871	31	1		1	CXCL17	19	42937210	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	97899	42937210	16191773	1093	10568											
CEACAM1	634	broad.mit.edu	37	chr19	43015774	43015774	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgtgagatcacgctggtcGcttgccctaaataaatatca	11	12	8	10	2	3	1	2	1	1	1	4	2	3	1	1	1	1	2	1	1	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:43015774G>A	uc002otv.2	-	7	1496	c.1383C>T	c.(1381-1383)AGC>AGT	p.S461S	uc010eif.1_Intron|uc002ott.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron|CEACAM1_uc010eii.2_Intron|CEACAM1_uc002otw.2_Intron|CEACAM1_uc010eij.2_Intron|CEACAM1_uc002otx.2_Silent_p.S396S|CEACAM1_uc002oty.2_Silent_p.S365S|CEACAM1_uc002otz.2_Intron|CEACAM1_uc010eik.2_Silent_p.S187S	NM_001712	NP_001703	P13688	CEAM1_HUMAN	carcinoembryonic antigen-related cell adhesion	461	Cytoplasmic (Potential).				angiogenesis|cell migration|homophilic cell adhesion|integrin-mediated signaling pathway	extracellular region|integral to plasma membrane|membrane fraction				ovary(1)|central_nervous_system(1)	2		Prostate(69;0.00682)		GBM - Glioblastoma multiforme(486;0.00148)	Arcitumomab(DB00113)	CACGCTGGTCGCTTGCCCTAA	0.478													10	42					0	0	0.006214	0	0		A	43015774	A	A	43015774	2	1	12	1	0	0	0	0	0	0	0	1	3190	1078	38	1		1	CEACAM1	19	43015774	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	78564	43015774	16113209	1094	10569											
ZNF227	7770	broad.mit.edu	37	chr19	44739572	44739572	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttatagatgcgacagttgcgGcaagggattcagtagcagca	12	9	13	7	2	1	1	1	0	0	1	1	3	1	2	0	2	4	5	0	2	4	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:44739572G>T	uc002oyu.2	+	6	1194	c.989G>T	c.(988-990)GGC>GTC	p.G330V	ZNF227_uc010xwu.1_Missense_Mutation_p.G279V|ZNF227_uc002oyv.2_Missense_Mutation_p.G330V|ZNF227_uc010xwv.1_Missense_Mutation_p.G279V|ZNF227_uc010xww.1_Missense_Mutation_p.G251V|ZNF227_uc002oyw.2_Missense_Mutation_p.G302V|ZNF227_uc010ejh.2_Missense_Mutation_p.G323V|ZNF235_uc002oyx.1_Intron	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	330	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)				GACAGTTGCGGCAAGGGATTC	0.388													18	31					4.35082e-09	4.8088e-09	0.010504	1	0		T	44739572	T	T	44739572	3	4	12	1	0	0	0	0	1	0	0	0	17806	1203	42	5	1003	5	ZNF227	19	44739572	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1723798	44739572	14389411	1095	10570											
ZNF296	162979	broad.mit.edu	37	chr19	45574990	45574990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcatgccgtgcatgcggcGgtggcggttgagcttactgc	4	10	16	11	5	1	1	1	1	0	0	1	1	1	1	1	4	6	3	1	4	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:45574990G>A	uc002pao.2	-	3	1354	c.1297C>T	c.(1297-1299)CGC>TGC	p.R433C		NM_145288	NP_660331	Q8WUU4	ZN296_HUMAN	zinc finger protein 296	433	C2H2-type 5.				regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGCATGCGGCGGTGGCGGTTG	0.672													9	15					0	0	0.000978	0	0		A	45574990	A	A	45574990	3	1	12	1	0	0	0	0	1	0	0	0	17853	1116	39	1	134	1	ZNF296	19	45574990	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	835418	45574990	13553993	1096	10571											
FOSB	2354	broad.mit.edu	37	chr19	45974040	45974040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctcccagcccccggtcGtcgacccctacgacatgccg	5	6	10	20	5	0	0	0	0	0	0	3	2	1	0	7	2	3	0	7	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:45974040G>A	uc002pbx.3	+	2	872	c.280G>A	c.(280-282)GTC>ATC	p.V94I	ERCC1_uc002pbu.1_Intron|FOSB_uc002pbw.2_Missense_Mutation_p.V94I|FOSB_uc010eke.2_Missense_Mutation_p.V55I|FOSB_uc002pby.3_Missense_Mutation_p.V94I|FOSB_uc010eka.1_Missense_Mutation_p.V55I|FOSB_uc010ekb.1_Missense_Mutation_p.V94I|FOSB_uc010ekc.1_Intron|FOSB_uc010ekf.2_Missense_Mutation_p.V55I|FOSB_uc010ekd.1_Missense_Mutation_p.V94I|FOSB_uc010ekg.2_Intron|FOSB_uc002pca.3_Missense_Mutation_p.V45I	NM_006732	NP_006723	P53539	FOSB_HUMAN	FBJ murine osteosarcoma viral oncogene homolog B	94					behavior|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(2)|lung(1)	3		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00814)|Epithelial(262;0.18)|GBM - Glioblastoma multiforme(486;0.242)		GCCCCCGGTCGTCGACCCCTA	0.657													8	29					0	0	0.00245	0	0		A	45974040	A	A	45974040	3	1	12	1	0	0	0	0	1	0	0	0	6000	1145	40	1	286	1	FOSB	19	45974040	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	399050	45974040	13154943	1097	10572											
KPTN	11133	broad.mit.edu	37	chr19	47984241	47984241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagagatgaatggccgggtCgttcccactcaagagaaaca	13	7	12	9	2	1	3	1	1	0	2	3	5	2	3	2	2	1	2	2	2	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:47984241C>T	uc002pgy.2	-	5	603	c.499G>A	c.(499-501)GAC>AAC	p.D167N	KPTN_uc010xys.1_RNA	NM_007059	NP_008990	Q9Y664	KPTN_HUMAN	kaptin (actin binding protein)	167					actin filament organization|cellular component movement|sensory perception of sound	actin cytoskeleton|growth cone|microtubule organizing center|nucleus|perinuclear region of cytoplasm|stereocilium	actin binding			ovary(1)	1		all_cancers(25;1.55e-10)|all_epithelial(76;3.4e-08)|all_lung(116;1.73e-07)|Lung NSC(112;3.95e-07)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		OV - Ovarian serous cystadenocarcinoma(262;0.000428)|all cancers(93;0.000631)|Epithelial(262;0.0153)|GBM - Glioblastoma multiforme(486;0.0694)		ATGGCCGGGTCGTTCCCACTC	0.562													5	7					0	0	0.000602	0	0		T	47984241	T	T	47984241	3	4	12	1	0	0	0	0	1	0	0	0	8453	884	31	1	843	1	KPTN	19	47984241	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	2010201	47984241	11144742	1098	10573											
CRX	1406	broad.mit.edu	37	chr19	48343102	48343102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcaggccagagctatggcGcctacagccccgtggatagc	9	7	12	13	2	1	1	1	0	0	1	1	2	1	2	4	3	4	1	4	3	4	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:48343102G>A	uc002phq.3	+	4	982	c.778G>A	c.(778-780)GCC>ACC	p.A260T		NM_000554	NP_000545	O43186	CRX_HUMAN	cone-rod homeobox protein	260					organ morphogenesis|response to stimulus|visual perception		leucine zipper domain binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2		all_cancers(25;2.76e-09)|all_epithelial(76;7.01e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000266)|all cancers(93;0.000788)|Epithelial(262;0.0226)|GBM - Glioblastoma multiforme(486;0.0521)		GAGCTATGGCGCCTACAGCCC	0.632													18	51					0	0	0.00333	0	0		A	48343102	A	A	48343102	3	1	12	1	0	0	0	0	1	0	0	0	3905	1087	38	1	788	1	CRX	19	48343102	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	358861	48343102	10785881	1099	10574											
TMEM143	55260	broad.mit.edu	37	chr19	48845798	48845798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgctcaccttggaggcccGcaggcccatgaagatggcga	9	6	13	13	2	1	2	1	1	0	1	1	4	1	3	3	4	1	2	3	4	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:48845798G>A	uc002pix.1	-	6	973	c.964C>T	c.(964-966)CGG>TGG	p.R322W	TMEM143_uc002piw.1_Intron|TMEM143_uc002piy.1_Missense_Mutation_p.R287W|TMEM143_uc010xzn.1_Missense_Mutation_p.R257W|TMEM143_uc010elw.1_Missense_Mutation_p.R222W|TMEM143_uc010xzo.1_Missense_Mutation_p.R112W	NM_018273	NP_060743	Q96AN5	TM143_HUMAN	transmembrane protein 143	322						integral to membrane|mitochondrion					0		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000149)|all cancers(93;0.000198)|Epithelial(262;0.0151)|GBM - Glioblastoma multiforme(486;0.0157)		TTGGAGGCCCGCAGGCCCATG	0.637													4	2					0	0	0.009096	0	0		A	48845798	A	A	48845798	3	1	12	1	0	0	0	0	1	0	0	0	16082	1086	38	1	427	1	TMEM143	19	48845798	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	502696	48845798	10283185	1100	10575											
TEAD2	8463	broad.mit.edu	37	chr19	49863216	49863216	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccacaccccctctgcatcCgggcccccgtcacccccagc	5	5	6	25	2	2	0	1	0	1	0	4	0	4	0	8	1	2	1	8	1	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:49863216C>T	uc002pnj.2	-	2	208	c.117G>A	c.(115-117)CCG>CCA	p.P39P	TEAD2_uc002png.2_Silent_p.P39P|TEAD2_uc002pnh.2_Silent_p.P39P|TEAD2_uc002pni.2_Silent_p.P39P|TEAD2_uc010yao.1_Intron|TEAD2_uc010emw.2_Silent_p.P39P	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	39					hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		CCTCTGCATCCGGGCCCCCGT	0.667													8	10					0	0	0.004482	0	0		T	49863216	T	T	49863216	2	4	12	1	0	0	0	0	0	0	0	1	15764	639	23	1		1	TEAD2	19	49863216	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1017418	49863216	9265767	1101	10576											
SIGLEC9	27180	broad.mit.edu	37	chr19	51631709	51631709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaatcggcaaggccagcagCgggcgtgggagatacgggca	11	3	18	9	4	0	1	0	0	0	1	1	3	0	1	1	5	3	3	1	5	3	1	rs61739656	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:51631709C>T	uc002pvu.2	+	6	1212	c.1145C>T	c.(1144-1146)GCG>GTG	p.A382V	SIGLEC9_uc010yct.1_Missense_Mutation_p.A382V	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	382	Cytoplasmic (Potential).				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		AGGCCAGCAGCGGGCGTGGGA	0.587													14	30					0	0	0.00499	0	0		T	51631709	T	T	51631709	3	4	12	1	0	0	0	0	1	0	0	0	14340	768	27	1	1167	1	SIGLEC9	19	51631709	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1768493	51631709	7497274	1102	10577											
ZNF600	162966	broad.mit.edu	37	chr19	53269380	53269380	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccactatgaagtctacgatgGcaatgaaggtatgacctctg	12	10	10	9	1	2	3	0	3	2	0	2	4	2	3	2	2	1	2	2	2	6	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:53269380G>A	uc002qab.3	-	3	1915	c.1629C>T	c.(1627-1629)TGC>TGT	p.C543C		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	543	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		GTCTACGATGGCAATGAAGGT	0.453													45	113					0	0	0.00361	0	0		A	53269380	A	A	53269380	2	1	12	1	0	0	0	0	0	0	0	1	18055	1195	42	2		2	ZNF600	19	53269380	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1637671	53269380	5859603	1103	10578											
CACNG6	59285	broad.mit.edu	37	chr19	54515275	54515275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcagagagtcagcccGgagcctcccccggccccacg	6	4	12	19	3	1	1	1	0	0	1	2	3	2	2	6	2	4	2	6	2	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:54515275G>A	uc002qct.2	+	4	1205	c.615G>A	c.(613-615)CCG>CCA	p.P205P	CACNG6_uc002qcu.2_Silent_p.P159P|CACNG6_uc002qcv.2_Silent_p.P134P	NM_145814	NP_665813	Q9BXT2	CCG6_HUMAN	voltage-dependent calcium channel gamma-6	205						voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(2)	2	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.168)		GAGTCAGCCCGGAGCCTCCCC	0.692													9	9					0	0	0.006214	0	0		A	54515275	A	A	54515275	2	1	12	1	0	0	0	0	0	0	0	1	2564	1103	39	1		1	CACNG6	19	54515275	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1245895	54515275	4613708	1104	10579											
NLRP7	199713	broad.mit.edu	37	chr19	55450708	55450708	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtccccgatgtcccaggcGtggccgtccctgtcctcccc	3	8	10	20	4	0	0	0	0	0	0	5	1	5	0	8	2	0	0	8	2	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:55450708G>A	uc002qih.3	-	4	1555	c.1479C>T	c.(1477-1479)CAC>CAT	p.H493H	NLRP7_uc002qig.3_Silent_p.H493H|NLRP7_uc002qii.3_Silent_p.H493H|NLRP7_uc010esk.2_Silent_p.H493H|NLRP7_uc010esl.2_Silent_p.H521H	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	493							ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		TGTCCCAGGCGTGGCCGTCCC	0.567													6	24					0	0	0.001368	0	0		A	55450708	A	A	55450708	2	1	12	1	0	0	0	0	0	0	0	1	10501	1136	40	1		1	NLRP7	19	55450708	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	935433	55450708	3678275	1105	10580											
ZNF628	89887	broad.mit.edu	37	chr19	55994085	55994085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggtgcacacgggcctgcggGccttcacctgtggccagtgc	4	7	16	14	2	1	0	1	0	0	0	1	0	1	0	4	4	3	1	4	4	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:55994085G>A	uc002qld.2	+	3	2078	c.1513G>A	c.(1513-1515)GCC>ACC	p.A505T	NAT14_uc002qle.1_5'Flank	NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	505						nucleus	DNA binding|zinc ion binding				0	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0531)		GGGCCTGCGGGCCTTCACCTG	0.697													3	8					0	0	0.009096	0	0		A	55994085	A	A	55994085	3	1	12	1	0	0	0	0	1	0	0	0	18077	1203	42	2	1515	2	ZNF628	19	55994085	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	543377	55994085	3134898	1106	10581											
NLRP4	147945	broad.mit.edu	37	chr19	56392902	56392902	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgaggaagagagaaatccTaacctgaccatcacagacga	16	5	10	10	1	1	5	1	2	0	3	2	8	2	6	3	1	1	1	3	1	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr19:56392902T>G	uc002qmd.3	+	10	3356	c.2934T>G	c.(2932-2934)CCT>CCG	p.P978P	NLRP4_uc002qmf.2_Silent_p.P903P|NLRP4_uc010etf.2_Silent_p.P753P	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	978							ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		AGAGAAATCCTAACCTGACCA	0.448													6	31					0	0	0.001168	0	0		G	56392902	G	G	56392902	2	3	12	1	0	0	0	0	0	0	0	1	10498	1509	53	5		5	NLRP4	19	56392902	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	398817	56392902	2736081	1107	10582											
ANGPT4	51378	broad.mit.edu	37	chr20	870947	870947	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgggggccgtctgattcTgggccatttgctgctggacc	4	11	15	11	1	2	1	0	1	2	0	2	2	2	2	3	4	2	3	3	4	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:870947T>C	uc002wei.2	-	2	477	c.374A>G	c.(373-375)CAG>CGG	p.Q125R	ANGPT4_uc010zpn.1_Missense_Mutation_p.Q119R	NM_015985	NP_057069	Q9Y264	ANGP4_HUMAN	angiopoietin 4 precursor	125	Potential.				anti-apoptosis|blood coagulation|cellular response to hypoxia|leukocyte migration|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of peptidyl-tyrosine phosphorylation|signal transduction	extracellular space	receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			ovary(2)	2						CGTCTGATTCTGGGCCATTTG	0.617													17	28					0	0	0.00499	0	0		C	870947	C	C	870947	3	2	12	1	0	0	0	0	1	0	0	0	612	1580	55	3	1169	3	ANGPT4	20	870947	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08		870947	62154573	1108	10583											
SIRPA	140885	broad.mit.edu	37	chr20	1902206	1902206	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagaccaacgtggaccccgTaggagagagcgtgtcctaca	11	5	12	13	3	0	2	0	0	0	2	1	5	1	4	5	2	3	1	5	2	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:1902206T>C	uc002wfq.2	+	4	962	c.602T>C	c.(601-603)GTA>GCA	p.V201A	SIRPA_uc010zps.1_Missense_Mutation_p.V181A|SIRPA_uc002wfr.2_Missense_Mutation_p.V201A|SIRPA_uc002wfs.2_Missense_Mutation_p.V201A|SIRPA_uc002wft.2_Missense_Mutation_p.V201A	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	201	Ig-like C1-type 1.|Extracellular (Potential).		VG -> AR.		blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		GTGGACCCCGTAGGAGAGAGC	0.572													3	68					0	0	0.004672	0	0		C	1902206	C	C	1902206	3	2	12	1	0	0	0	0	1	0	0	0	14357	1638	57	3	612	3	SIRPA	20	1902206	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1031259	1902206	61123314	1109	10584											
TGM6	343641	broad.mit.edu	37	chr20	2384384	2384384	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcgtgtatactcaaacacGaagaagattgggagatgcat	15	8	12	6	2	1	3	1	0	0	3	1	6	1	3	0	1	4	2	0	1	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:2384384G>A	uc002wfy.1	+	9	1312	c.1251G>A	c.(1249-1251)ACG>ACA	p.T417T	TGM6_uc010gal.1_Silent_p.T417T	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	417					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	ACTCAAACACGAAGAAGATTG	0.577													17	60					0	0	0.006122	0	0		A	2384384	A	A	2384384	2	1	12	1	0	0	0	0	0	0	0	1	15859	1045	37	1		1	TGM6	20	2384384	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	482178	2384384	60641136	1110	10585											
GNRH2	2797	broad.mit.edu	37	chr20	3025077	3025077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccatggccagctccaggcGaggcctcctgctcctgctgc	5	7	12	17	1	0	0	0	0	0	0	3	1	3	0	6	3	5	3	6	3	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:3025077G>A	uc002whr.1	+	2	68	c.17G>A	c.(16-18)CGA>CAA	p.R6Q	GNRH2_uc002whp.1_Missense_Mutation_p.R6Q|GNRH2_uc002whq.1_Missense_Mutation_p.R6Q|GNRH2_uc010gau.1_Missense_Mutation_p.R6Q|MRPS26_uc002whs.2_5'Flank	NM_001501	NP_001492	O43555	GON2_HUMAN	gonadotropin-releasing hormone 2 isoform a	6					multicellular organismal development|signal transduction	extracellular region|soluble fraction	hormone activity				0						AGCTCCAGGCGAGGCCTCCTG	0.617													8	21					0	0	0.001368	0	0		A	3025077	A	A	3025077	3	1	12	1	0	0	0	0	1	0	0	0	6563	1058	37	1	19	1	GNRH2	20	3025077	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	640693	3025077	60000443	1111	10586											
ProSAPiP1	9762	broad.mit.edu	37	chr20	3145701	3145701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccctcccgcagctgcgagCgcagtcccacgatctcactc	6	6	10	19	4	1	0	1	0	1	0	5	2	3	0	3	1	3	3	3	1	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:3145701C>T	uc002wia.1	-	3	2819	c.1421G>A	c.(1420-1422)CGC>CAC	p.R474H	ProSAPiP1_uc002wib.1_Missense_Mutation_p.R428H	NM_014731	NP_055546	O60299	PRIP1_HUMAN	ProSAPiP1 protein	474	Potential.					cell junction|cytoplasm|postsynaptic density|postsynaptic membrane				pancreas(1)	1						CAGCTGCGAGCGCAGTCCCAC	0.652													4	7					0	0	0.009096	0	0		T	3145701	T	T	3145701	3	4	12	1	0	0	0	0	1	0	0	0	12895	768	27	1	604	1	ProSAPiP1	20	3145701	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	120624	3145701	59879819	1112	10587											
ADAM33	80332	broad.mit.edu	37	chr20	3652952	3652952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagtcacccatggcctggcGgcacagcgctccagccggct	7	5	12	17	3	1	0	1	0	0	0	2	0	2	0	4	4	2	3	4	4	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:3652952G>A	uc002wit.2	-	14	1513	c.1426C>T	c.(1426-1428)CGC>TGC	p.R476C	ADAM33_uc002wiq.1_5'Flank|ADAM33_uc002wir.1_Missense_Mutation_p.R476C|ADAM33_uc002wis.2_5'UTR|ADAM33_uc002wiu.2_Missense_Mutation_p.R476C|uc002wiv.1_5'Flank|ADAM33_uc002wiw.1_Intron|ADAM33_uc010gba.1_Intron|ADAM33_uc010gbb.1_Intron	NM_025220	NP_079496	Q9BZ11	ADA33_HUMAN	ADAM metallopeptidase domain 33 isoform alpha	476	Extracellular (Potential).|Disintegrin.				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|ovary(1)|skin(1)	4						ATGGCCTGGCGGCACAGCGCT	0.662													14	12					0	0	0.004007	0	0		A	3652952	A	A	3652952	3	1	12	1	0	0	0	0	1	0	0	0	250	1116	39	1	1051	1	ADAM33	20	3652952	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	507251	3652952	59372568	1113	10588											
ADRA1D	146	broad.mit.edu	37	chr20	4202257	4202257	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccacctcgtgtgggacgccTagggacacagcctccacctc	7	6	11	17	2	0	0	0	0	0	0	3	2	1	2	6	2	1	0	6	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:4202257T>C	uc002wkr.2	-	2	1687	c.1632A>G	c.(1630-1632)CTA>CTG	p.L544L		NM_000678	NP_000669	P25100	ADA1D_HUMAN	alpha-1D-adrenergic receptor	544	Cytoplasmic (By similarity).			KPPSAFREWRLLGPFRRPTTQLRAKVSSLSHKIRAGGAQRA EAACAQRSEVEAVSLGVPHEVAEGATCQAYELADYSNLRET DI -> SHPAPSASGGCWGRSGDPRPSCAPKSPACRTRSPP GARSAQRQRAPSAQRWRLCP (in Ref. 1).	cell proliferation|cell-cell signaling|DNA metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|multicellular organismal development|positive regulation of cell proliferation	integral to plasma membrane	alpha1-adrenergic receptor activity				0					Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Methotrimeprazine(DB01403)|Norepinephrine(DB00368)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)	GTGGGACGCCTAGGGACACAG	0.672													4	15					0	0	0.000602	0	0		C	4202257	C	C	4202257	2	2	12	1	0	0	0	0	0	0	0	1	336	1509	53	3		3	ADRA1D	20	4202257	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	549305	4202257	58823263	1114	10589											
MCM8	84515	broad.mit.edu	37	chr20	5933111	5933111	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaacaaagaccccacagTcaatgcagtcaacattggat	15	9	6	11	0	3	1	3	0	0	1	3	2	3	2	2	1	3	1	2	1	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:5933111T>C	uc002wmi.2	+	3	567	c.190T>C	c.(190-192)TCA>CCA	p.S64P	TRMT6_uc002wmh.1_5'Flank|TRMT6_uc010zra.1_5'Flank|TRMT6_uc010gbn.1_5'Flank|TRMT6_uc010gbo.1_5'Flank|MCM8_uc002wmj.2_Missense_Mutation_p.S64P|MCM8_uc002wmk.2_Missense_Mutation_p.S64P|MCM8_uc002wml.2_Missense_Mutation_p.S64P|MCM8_uc010gbp.2_Missense_Mutation_p.S64P	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	64					cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						GACCCCACAGTCAATGCAGTC	0.343													28	87					0	0	0.003271	0	0		C	5933111	C	C	5933111	3	2	12	1	0	0	0	0	1	0	0	0	9411	1667	58	3	196	3	MCM8	20	5933111	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1730854	5933111	57092409	1115	10590											
FLRT3	23767	broad.mit.edu	37	chr20	14307651	14307651	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaaaccccagggaattgTgctaaggtgattacgggaca	12	7	14	8	1	0	1	0	1	0	0	0	3	0	3	2	4	3	2	2	4	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:14307651T>C	uc002wov.1	-	3	969	c.502A>G	c.(502-504)ACA>GCA	p.T168A	MACROD2_uc002wot.2_Intron|MACROD2_uc002wou.2_Intron|FLRT3_uc002wow.1_Missense_Mutation_p.T168A	NM_198391	NP_938205	Q9NZU0	FLRT3_HUMAN	fibronectin leucine rich transmembrane protein 3	168	Extracellular (Potential).|LRR 5.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			kidney(1)	1		Colorectal(1;0.0464)	COAD - Colon adenocarcinoma(2;0.129)	Colorectal(1;0.0393)		CAGGGAATTGTGCTAAGGTGA	0.453													24	43					0	0	0.004656	0	0		C	14307651	C	C	14307651	3	2	12	1	0	0	0	0	1	0	0	0	5954	1696	59	3	1451	3	FLRT3	20	14307651	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	8374540	14307651	48717869	1116	10591											
THBD	7056	broad.mit.edu	37	chr20	23028798	23028798	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaccccggagcagaagccGccgttttcgcactcgtcgat	8	7	10	16	6	0	1	0	0	0	1	3	3	0	2	4	1	2	3	4	1	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:23028798G>A	uc002wss.2	-	1	1504	c.1344C>T	c.(1342-1344)GGC>GGT	p.G448G	THBD_uc002wst.1_5'Flank|THBD_uc002wsu.1_Silent_p.G389G	NM_000361	NP_000352	P07204	TRBM_HUMAN	thrombomodulin precursor	448	EGF-like 6; calcium-binding (Potential).|Extracellular (Potential).				blood coagulation|leukocyte migration|negative regulation of fibrinolysis|negative regulation of platelet activation	cell surface|integral to plasma membrane	calcium ion binding|protein binding|transmembrane receptor activity				0	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)				Drotrecogin alfa(DB00055)	AGCAGAAGCCGCCGTTTTCGC	0.637													7	6					0	0	0.004482	0	0		A	23028798	A	A	23028798	2	1	12	1	0	0	0	0	0	0	0	1	15877	1074	38	1		1	THBD	20	23028798	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	8721147	23028798	39996722	1117	10592											
TMEM90B	79953	broad.mit.edu	37	chr20	24524119	24524119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagacagcctcgagtaccCggatgggaagttcattgacc	12	7	11	11	2	1	2	1	1	0	1	2	5	1	4	3	2	2	2	3	2	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:24524119C>T	uc002wtw.1	+	2	1019	c.386C>T	c.(385-387)CCG>CTG	p.P129L		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	129	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						CTCGAGTACCCGGATGGGAAG	0.607													20	39					0	0	0.002299	0	0		T	24524119	T	T	24524119	3	4	12	1	0	0	0	0	1	0	0	0	16244	652	23	1	388	1	TMEM90B	20	24524119	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1495321	24524119	38501401	1118	10593											
ACSS1	84532	broad.mit.edu	37	chr20	25004171	25004171	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgagccaccaggacatgCtgcacggtggggcagtgctt	7	8	15	11	1	0	1	0	1	0	0	0	2	0	2	2	4	4	4	2	4	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:25004171C>T	uc002wub.2	-	4	1616	c.738G>A	c.(736-738)CAG>CAA	p.Q246Q	ACSS1_uc002wuc.2_Silent_p.Q246Q|ACSS1_uc010gdc.2_Intron|ACSS1_uc002wud.1_5'Flank|ACSS1_uc002wua.2_Silent_p.Q163Q	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	246					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CCAGGACATGCTGCACGGTGG	0.587													9	17					0	0	0.000978	0	0		T	25004171	T	T	25004171	2	4	12	1	0	0	0	0	0	0	0	1	188	796	28	2		2	ACSS1	20	25004171	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	480052	25004171	38021349	1119	10594											
NINL	22981	broad.mit.edu	37	chr20	25493618	25493618	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttagaaccattcacatacTttggagggatggcactggag	12	10	11	8	0	1	1	1	0	0	1	1	4	1	4	1	4	2	1	1	4	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:25493618T>G	uc002wux.1	-	4	376	c.302A>C	c.(301-303)AAG>ACG	p.K101T	NINL_uc010gdn.1_Missense_Mutation_p.K101T|NINL_uc010gdo.1_5'UTR|NINL_uc010ztf.1_Missense_Mutation_p.K117T	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	101					G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						ATTCACATACTTTGGAGGGAT	0.582													10	49					0	0	0.001368	0	0		G	25493618	G	G	25493618	3	3	12	1	0	0	0	0	1	0	0	0	10439	1609	56	5	3930	5	NINL	20	25493618	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	489447	25493618	37531902	1120	10595											
DEFB119	245932	broad.mit.edu	37	chr20	29965051	29965051	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggtaatcaccagcactcAaggtagtcttggccactgct	11	10	9	11	0	3	0	2	0	1	0	3	0	3	0	2	3	2	4	2	3	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:29965051A>G	uc002wvt.2	-	2	373	c.253T>C	c.(253-255)TGA>CGA	p.*85R	DEFB119_uc002wvs.2_3'UTR	NM_153289	NP_695021	Q8N690	DB119_HUMAN	defensin, beta 119 isoform a precursor	85					defense response to bacterium	extracellular region					0	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			ACCAGCACTCAAGGTAGTCTT	0.488													37	41					0	0	0.002852	0	0		G	29965051	G	G	29965051	4	3	12	1	0	0	0	0	0	0	0	0	4412	143	5	3	5	3	DEFB119	20	29965051	Nonstop_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	4471433	29965051	33060469	1121	10596											
KIF3B	9371	broad.mit.edu	37	chr20	30904405	30904405	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacttaaagagacatacAgctcattgcagcaagaggtg	15	8	11	7	0	1	2	1	0	0	2	1	4	1	3	0	2	5	3	0	2	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:30904405A>C	uc002wxq.2	+	4	1749	c.1582A>C	c.(1582-1584)AGC>CGC	p.S528R	KIF3B_uc010ztw.1_Missense_Mutation_p.S466R	NM_004798	NP_004789	O15066	KIF3B_HUMAN	kinesin family member 3B	528	Potential.				anterograde axon cargo transport|blood coagulation|determination of left/right symmetry|mitotic centrosome separation|plus-end-directed vesicle transport along microtubule|spindle assembly involved in mitosis	centrosome|cytosol|kinesin II complex|plus-end kinesin complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|Rho GTPase binding			central_nervous_system(3)|ovary(2)	5			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			AGAGACATACAGCTCATTGCA	0.438													12	40					0	0	0.003163	0	0		C	30904405	C	C	30904405	3	2	12	1	0	0	0	0	1	0	0	0	8317	188	7	5	1592	5	KIF3B	20	30904405	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	939354	30904405	32121115	1122	10597											
MYH7B	57644	broad.mit.edu	37	chr20	33577633	33577633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagctctacgacaaccacGcggggaagtcacccaatttc	12	6	8	15	3	2	0	1	0	1	0	3	2	2	1	3	2	3	1	3	2	5	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:33577633G>A	uc002xbi.1	+	18	1896	c.1804G>A	c.(1804-1806)GCG>ACG	p.A602T	MIR499_hsa-mir-499|MI0003183_5'Flank	NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	560	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			CGACAACCACGCGGGGAAGTC	0.612													17	40					0	0	0.010504	0	0		A	33577633	A	A	33577633	3	1	12	1	0	0	0	0	1	0	0	0	10058	1087	38	1	1874	1	MYH7B	20	33577633	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2673228	33577633	29447887	1123	10598											
DLGAP4	22839	broad.mit.edu	37	chr20	35125326	35125326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaccgcccagcgtgacaCggggtggagtcgccccagcc	6	3	14	18	5	0	1	0	1	0	0	1	3	0	2	6	3	2	0	6	3	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:35125326C>T	uc002xff.2	+	8	2302	c.1867C>T	c.(1867-1869)CGG>TGG	p.R623W	DLGAP4_uc010zvp.1_Missense_Mutation_p.R623W|DLGAP4_uc002xfg.2_Translation_Start_Site|DLGAP4_uc002xfh.2_Missense_Mutation_p.R84W|DLGAP4_uc002xfi.2_Translation_Start_Site|DLGAP4_uc002xfj.2_5'Flank	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	623					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				CAGCGTGACACGGGGTGGAGT	0.647													7	9					0	0	0.000978	0	0		T	35125326	T	T	35125326	3	4	12	1	0	0	0	0	1	0	0	0	4568	527	19	1	1924	1	DLGAP4	20	35125326	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1547693	35125326	27900194	1124	10599											
NNAT	4826	broad.mit.edu	37	chr20	36149740	36149740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccattcttggaaccatggcgGcagtggcggcggcctcggct	5	8	15	13	4	1	0	0	0	1	0	2	1	1	1	3	7	1	2	3	7	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:36149740G>A	uc002xhd.2	+	1	134	c.7G>A	c.(7-9)GCA>ACA	p.A3T	BLCAP_uc002xha.2_5'UTR|BLCAP_uc002xhb.2_Intron|BLCAP_uc002xhc.2_Intron|NNAT_uc002xhe.2_Missense_Mutation_p.A3T	NM_005386	NP_005377	Q16517	NNAT_HUMAN	neuronatin isoform alpha	3					brain development|protein lipoylation|transport						0		Myeloproliferative disorder(115;0.00878)				AACCATGGCGGCAGTGGCGGC	0.637													24	59					0	0	0.003271	0	0		A	36149740	A	A	36149740	3	1	12	1	0	0	0	0	1	0	0	0	10527	1203	42	2	9	2	NNAT	20	36149740	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1024414	36149740	26875780	1125	10600											
PPP1R16B	26051	broad.mit.edu	37	chr20	37536802	37536802	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctacaacggggacatcaGggagaccaggacagaccaag	15	2	12	12	1	1	2	1	0	0	2	1	5	1	4	3	4	2	0	3	4	3	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:37536802G>T	uc002xje.2	+	10	1349	c.1160G>T	c.(1159-1161)AGG>ATG	p.R387M	PPP1R16B_uc010ggc.2_Missense_Mutation_p.R345M	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	387					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GGGGACATCAGGGAGACCAGG	0.597													7	31					1.06961e-07	1.17365e-07	0.00308	1	0		T	37536802	T	T	37536802	3	4	12	1	0	0	0	0	1	0	0	0	12388	1000	35	5	1194	5	PPP1R16B	20	37536802	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1387062	37536802	25488718	1126	10601											
FAM83D	81610	broad.mit.edu	37	chr20	37570621	37570621	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgattgcagtggtcatggAcgtgttcacagacatcgaca	10	10	13	8	2	2	2	2	1	0	1	3	4	2	3	0	3	1	2	0	3	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:37570621A>G	uc002xjg.2	+	2	634	c.593A>G	c.(592-594)GAC>GGC	p.D198G	FAM83D_uc002xjf.2_Missense_Mutation_p.D198G	NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	168					cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				GTGGTCATGGACGTGTTCACA	0.493													6	77					0	0	0.001984	0	0		G	37570621	G	G	37570621	3	3	12	1	0	0	0	0	1	0	0	0	5650	275	10	3	599	3	FAM83D	20	37570621	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	33819	37570621	25454899	1127	10602											
DHX35	60625	broad.mit.edu	37	chr20	37647462	37647462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggtctggacaaagactGtcgcctaactgaaccgcttg	10	8	12	11	2	1	2	0	1	1	1	2	3	1	3	2	3	2	2	2	3	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:37647462G>A	uc002xjh.2	+	15	1429	c.1418G>A	c.(1417-1419)TGT>TAT	p.C473Y	DHX35_uc010zwa.1_Missense_Mutation_p.C318Y|DHX35_uc010zwb.1_Missense_Mutation_p.C318Y|DHX35_uc010zwc.1_Missense_Mutation_p.C442Y	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	473						catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GACAAAGACTGTCGCCTAACT	0.443													28	112					0	0	0.009535	0	0		A	37647462	A	A	37647462	3	1	12	1	0	0	0	0	1	0	0	0	4514	1377	48	4	1476	4	DHX35	20	37647462	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	76841	37647462	25378058	1128	10603											
HNF4A	3172	broad.mit.edu	37	chr20	43047140	43047140	+	Frame_Shift_Del	DEL	G	-	-																															gatccatggtgttcaaggacGtgctgctcctaggtgaggcg																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:43047140delG	uc002xma.2	+	6	813	c.724delG	c.(724-726)GTGfs	p.V242fs	HNF4A_uc002xlt.2_Frame_Shift_Del_p.V220fs|HNF4A_uc002xlu.2_Frame_Shift_Del_p.V220fs|HNF4A_uc002xlv.2_Frame_Shift_Del_p.V220fs|HNF4A_uc002xly.2_Frame_Shift_Del_p.V242fs|HNF4A_uc002xlz.2_Frame_Shift_Del_p.V242fs|HNF4A_uc010ggq.2_Frame_Shift_Del_p.V235fs	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	242					blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			GTTCAAGGACGTGCTGCTCCT	0.607													31	35	---	---	---	---						.	-	43047140	-	-	43047140	7	5	12	1	0	1	0	1	0	0	0	0	7269	1145	40	0	799	0	HNF4A	20	43047140	Frame_Shift_Del	DEL	G	TCGA-BR-4257-01A-01D-1126-08	5399678	43047140	19978380	1129	10604											
YWHAB	7529	broad.mit.edu	37	chr20	43535058	43535058	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagggagacgaaggagaCgctggggagggagagaacta	15	2	18	6	2	0	3	0	0	0	3	0	9	0	5	1	5	2	1	1	5	4	1	rs150381005	by1000genomes	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:43535058C>T	uc002xmt.2	+	7	1002	c.720C>T	c.(718-720)GAC>GAT	p.D240D	YWHAB_uc002xmu.2_Silent_p.D240D	NM_003404	NP_003395	P31946	1433B_HUMAN	tyrosine 3-monooxygenase/tryptophan	240					activation of MAPKK activity|activation of pro-apoptotic gene products|axon guidance|cytoplasmic sequestering of protein|epidermal growth factor receptor signaling pathway|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|mRNA metabolic process|negative regulation of protein dephosphorylation|nerve growth factor receptor signaling pathway|Ras protein signal transduction	centrosome|cytosol|melanosome|perinuclear region of cytoplasm	histone deacetylase binding|phosphoserine binding|protein domain specific binding			kidney(2)|ovary(1)|breast(1)	4		Myeloproliferative disorder(115;0.0122)				ACGAAGGAGACGCTGGGGAGG	0.448													13	15					0	0	0.004007	0	0		T	43535058	T	T	43535058	2	4	12	1	0	0	0	0	0	0	0	1	17527	535	19	1		1	YWHAB	20	43535058	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	487918	43535058	19490462	1130	10605											
SYS1	90196	broad.mit.edu	37	chr20	43995543	43995543	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgctgtacttcatccggCgaggaaagcagtgtctggat	8	11	13	9	2	2	0	1	0	1	0	3	3	3	2	1	3	3	4	1	3	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:43995543C>T	uc002xnv.2	+	4	517	c.259C>T	c.(259-261)CGA>TGA	p.R87*	SYS1_uc010gha.2_RNA|SYS1_uc002xnw.1_Intron|SYS1-DBNDD2_uc002xnx.2_Intron	NM_033542	NP_291020	Q8N2H4	SYS1_HUMAN	SYS1 Golgi-localized integral membrane protein	87					protein transport	Golgi membrane|integral to membrane				skin(1)	1		Myeloproliferative disorder(115;0.0122)				CTTCATCCGGCGAGGAAAGCA	0.567													30	87					0	0	0.008361	0	0		T	43995543	T	T	43995543	4	4	12	1	0	0	0	0	0	1	0	0	15489	760	27	1	269	1	SYS1	20	43995543	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	460485	43995543	19029977	1131	10606											
KCNB1	3745	broad.mit.edu	37	chr20	48098564	48098564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgctcccgtagggtctcggCctcacgcttgagctcctcgt	3	10	11	17	5	2	1	1	1	1	0	6	1	4	1	4	2	1	4	4	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:48098564C>T	uc002xur.1	-	1	618	c.454G>A	c.(454-456)GCC>ACC	p.A152T	KCNB1_uc002xus.1_Missense_Mutation_p.A152T	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	152	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			AGGGTCTCGGCCTCACGCTTG	0.582													40	32					0	0	0.002852	0	0		T	48098564	T	T	48098564	3	4	12	1	0	0	0	0	1	0	0	0	8028	739	26	2	2130	2	KCNB1	20	48098564	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4103021	48098564	14926956	1132	10607											
PTGIS	5740	broad.mit.edu	37	chr20	48164538	48164538	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccaggagaacggtgacatAcctgcccccaaccagtatct	11	7	9	14	1	1	2	0	1	1	1	2	3	2	2	5	2	4	1	5	2	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:48164538A>G	uc002xut.2	-	3	271	c.217T>C	c.(217-219)TAT>CAT	p.Y73H	PTGIS_uc010zyi.1_Intron	NM_000961	NP_000952	Q16647	PTGIS_HUMAN	prostaglandin I2 synthase	73					hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|prostaglandin-I synthase activity			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(12;2.37e-05)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)		Phenylbutazone(DB00812)	ACGGTGACATACCTGCCCCCA	0.557													15	23					0	0	0.008871	0	0		G	48164538	G	G	48164538	3	3	12	1	0	0	0	0	1	0	0	0	12775	391	14	3	1317	3	PTGIS	20	48164538	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	65974	48164538	14860982	1133	10608											
PARD6B	84612	broad.mit.edu	37	chr20	49366959	49366959	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagcaagcagctcaaacacGgaatttgaaacacatgctcc	16	7	7	11	1	1	1	1	1	0	0	2	2	2	2	1	1	6	4	1	1	5	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:49366959G>A	uc002xvo.2	+	3	1296	c.1053G>A	c.(1051-1053)ACG>ACA	p.T351T		NM_032521	NP_115910	Q9BYG5	PAR6B_HUMAN	PAR-6 beta	351					axonogenesis|cell cycle|cell division|establishment or maintenance of cell polarity|protein complex assembly|regulation of cell migration|tight junction assembly	cytosol|tight junction	protein binding			kidney(1)	1						GCTCAAACACGGAATTTGAAA	0.398													30	45					0	0	0.002836	0	0		A	49366959	A	A	49366959	2	1	12	1	0	0	0	0	0	0	0	1	11465	1103	39	1		1	PARD6B	20	49366959	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1202421	49366959	13658561	1134	10609											
SALL4	57167	broad.mit.edu	37	chr20	50408031	50408031	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgaggaagcaaagcgctcgGgaggcgggacatgacgttcg	10	5	17	9	5	0	2	0	2	0	0	2	5	0	5	0	4	2	3	0	4	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:50408031G>T	uc002xwh.3	-	2	1092	c.991C>A	c.(991-993)CCG>ACG	p.P331T	SALL4_uc010gii.2_Missense_Mutation_p.P331T|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	331					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						AAAGCGCTCGGGAGGCGGGAC	0.642													4	19					0.00116845	0.00122217	0.001168	1	0		T	50408031	T	T	50408031	3	4	12	1	0	0	0	0	1	0	0	0	13838	1232	43	5	2182	5	SALL4	20	50408031	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1041072	50408031	12617489	1135	10610											
COL9A3	1299	broad.mit.edu	37	chr20	61467685	61467685	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggggaagccgggagttccGgtacgtcgcttttccggctt	5	10	15	11	6	0	0	0	0	0	0	3	2	2	2	3	5	2	4	3	5	2	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:61467685G>T	uc002ydm.2	+	28	1551	c.1548G>T	c.(1546-1548)CCG>CCT	p.P516P	COL9A3_uc002ydn.2_5'Flank	NM_001853	NP_001844	Q14050	CO9A3_HUMAN	alpha 3 type IX collagen precursor	516	Triple-helical region 3 (COL3).				axon guidance	collagen type IX					0	Breast(26;5.68e-08)					CGGGAGTTCCGGTACGTCGCT	0.632													11	9					2.80697e-09	3.10496e-09	0.000978	1	0		T	61467685	T	T	61467685	2	4	12	1	0	0	0	0	0	0	0	1	3712	1130	39	5		5	COL9A3	20	61467685	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	11059654	61467685	1557835	1136	10611											
DIDO1	11083	broad.mit.edu	37	chr20	61511012	61511012	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcgtcgggctcctccagcGgcttctctttgggccccacg	2	9	14	16	4	1	0	0	0	1	0	5	0	3	0	4	4	1	2	4	4	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:61511012G>T	uc002ydr.1	-	16	6560	c.6296C>A	c.(6295-6297)CCG>CAG	p.P2099Q	DIDO1_uc002yds.1_Missense_Mutation_p.P2099Q	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	2099					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CTCCTCCAGCGGCTTCTCTTT	0.527													49	45					7.10663e-31	8.23476e-31	0.00361	1	0		T	61511012	T	T	61511012	3	4	12	1	0	0	0	0	1	0	0	0	4528	1116	39	5	430	5	DIDO1	20	61511012	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	43327	61511012	1514508	1137	10612											
DIDO1	11083	broad.mit.edu	37	chr20	61528048	61528048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcccaccaaagcagcggagCcagggaacttcttggaggca	11	5	12	13	1	1	0	0	0	1	0	2	3	2	3	3	4	4	2	3	4	2	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:61528048C>T	uc002ydr.1	-	7	2153	c.1889G>A	c.(1888-1890)GGC>GAC	p.G630D	DIDO1_uc002yds.1_Missense_Mutation_p.G630D|DIDO1_uc002ydt.1_Missense_Mutation_p.G630D|DIDO1_uc002ydu.1_Missense_Mutation_p.G630D	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	630					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					AGCAGCGGAGCCAGGGAACTT	0.647													5	12					0	0	0.006214	0	0		T	61528048	T	T	61528048	3	4	12	1	0	0	0	0	1	0	0	0	4528	739	26	2	4902	2	DIDO1	20	61528048	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	17036	61528048	1497472	1138	10613											
KCNQ2	3785	broad.mit.edu	37	chr20	62038661	62038661	+	Frame_Shift_Del	DEL	G	-	-																															agtaggcctcggtctctgtcGgggggatgcccatccgctgc																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:62038661delG	uc002yey.1	-	17	2132	c.1955delC	c.(1954-1956)CCGfs	p.P652fs	KCNQ2_uc002yez.1_Frame_Shift_Del_p.P621fs|KCNQ2_uc002yfa.1_Frame_Shift_Del_p.P634fs|KCNQ2_uc002yfb.1_Frame_Shift_Del_p.P624fs	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	652	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	GGTCTCTGTCGGGGGGATGCC	0.642													10	20	---	---	---	---						.	-	62038661	-	-	62038661	7	5	12	1	0	1	0	1	0	0	0	0	8099	1116	39	0	667	0	KCNQ2	20	62038661	Frame_Shift_Del	DEL	G	TCGA-BR-4257-01A-01D-1126-08	510613	62038661	986859	1139	10614											
ZBTB46	140685	broad.mit.edu	37	chr20	62421833	62421833	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctggtgagcgccaggtgcGctgagtacatgaagtcgatg	8	9	16	8	3	0	3	0	3	0	0	1	4	0	3	1	2	4	3	1	2	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:62421833G>A	uc002ygv.1	-	2	479	c.278C>T	c.(277-279)GCG>GTG	p.A93V	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	93	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					CGCCAGGTGCGCTGAGTACAT	0.602													11	22					0	0	0.00245	0	0		A	62421833	A	A	62421833	3	1	12	1	0	0	0	0	1	0	0	0	17572	1087	38	1	1507	1	ZBTB46	20	62421833	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	383172	62421833	603687	1140	10615											
MYT1	4661	broad.mit.edu	37	chr20	62838958	62838958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgcaggaaggagccccGtcaagtcccattttggatcc	8	11	11	11	1	1	0	1	0	0	0	3	3	3	3	4	3	2	1	4	3	2	3	rs117661126	byFrequency	TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:62838958G>A	uc002yii.2	+	7	773	c.409G>A	c.(409-411)GTC>ATC	p.V137I	MYT1_uc002yih.2_Intron|MYT1_uc002yij.2_5'UTR	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	137					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					AAGGAGCCCCGTCAAGTCCCA	0.582													5	94					0	0	0.000602	0	0		A	62838958	A	A	62838958	3	1	12	1	0	0	0	0	1	0	0	0	10124	1145	40	1	427	1	MYT1	20	62838958	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	417125	62838958	186562	1141	10616											
MYT1	4661	broad.mit.edu	37	chr20	62858781	62858781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaggtgccccacgcccGgctgtgacggctctggccac	4	7	13	17	3	2	1	0	1	2	0	2	1	2	1	4	4	2	3	4	4	0	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr20:62858781G>A	uc002yii.2	+	17	2906	c.2542G>A	c.(2542-2544)GGC>AGC	p.G848S	MYT1_uc002yih.2_Missense_Mutation_p.G527S|MYT1_uc002yij.2_Missense_Mutation_p.G507S	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	848	C2HC-type 5.				cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					CCCCACGCCCGGCTGTGACGG	0.677													5	12					0	0	0.000602	0	0		A	62858781	A	A	62858781	3	1	12	1	0	0	0	0	1	0	0	0	10124	1116	39	1	2600	1	MYT1	20	62858781	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	19823	62858781	166739	1142	10617											
TMPRSS15	5651	broad.mit.edu	37	chr21	19737461	19737461	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagatcttgtattaccgtaTgatccactggcagacaacac	13	11	7	10	1	1	3	0	1	1	2	2	3	2	3	2	1	2	3	2	1	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr21:19737461T>C	uc002ykw.2	-	7	800	c.769A>G	c.(769-771)ATA>GTA	p.I257V		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	257	Extracellular (Potential).|CUB 1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TATTACCGTATGATCCACTGG	0.348													9	30					0	0	0.000978	0	0		C	19737461	C	C	19737461	3	2	12	1	0	0	0	0	1	0	0	0	16271	1464	51	3	2366	3	TMPRSS15	21	19737461	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08		19737461	28392434	1143	10618											
NCAM2	4685	broad.mit.edu	37	chr21	22849745	22849745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagattgggatattctgaacCgacagtttatgaattcagca	13	13	9	6	1	2	3	1	2	1	1	2	5	2	4	1	1	2	2	1	1	5	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr21:22849745C>T	uc002yld.1	+	15	2279	c.2030C>T	c.(2029-2031)CCG>CTG	p.P677L	NCAM2_uc011acb.1_Missense_Mutation_p.P535L	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	677	Fibronectin type-III 2.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TATTCTGAACCGACAGTTTAT	0.378													14	28					0	0	0.006122	0	0		T	22849745	T	T	22849745	3	4	12	1	0	0	0	0	1	0	0	0	10222	652	23	1	2088	1	NCAM2	21	22849745	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3112284	22849745	25280150	1144	10619											
GABPA	2551	broad.mit.edu	37	chr21	27136926	27136926	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaacaatggccaaatccaaCtatggcagtttttgctagaa	15	10	8	8	0	0	1	0	0	0	1	1	2	1	1	2	2	3	3	2	2	7	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr21:27136926C>T	uc002ylx.3	+	9	1491	c.964C>T	c.(964-966)CTA>TTA	p.L322L	GABPA_uc002yly.3_Silent_p.L322L	NM_002040	NP_002031	Q06546	GABPA_HUMAN	GA binding protein transcription factor, alpha	322	ETS.				positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding			ovary(1)|central_nervous_system(1)	2						CCAAATCCAACTATGGCAGTT	0.413													12	31					0	0	0.00499	0	0		T	27136926	T	T	27136926	2	4	12	1	0	0	0	0	0	0	0	1	6171	564	20	4		4	GABPA	21	27136926	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4287181	27136926	20992969	1145	10620											
ADAMTS1	9510	broad.mit.edu	37	chr21	28212698	28212698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggaagtgtttggtttgaCacaccagcaccccaccagag	11	7	11	12	1	0	2	0	1	0	1	0	3	0	3	4	2	1	3	4	2	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr21:28212698C>T	uc002ymf.2	-	5	2017	c.1562G>A	c.(1561-1563)TGT>TAT	p.C521Y		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	521	Disintegrin.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		TTTGGTTTGACACACCAGCAC	0.537													5	22					0	0	0.000602	0	0		T	28212698	T	T	28212698	3	4	12	1	0	0	0	0	1	0	0	0	255	478	17	4	1361	4	ADAMTS1	21	28212698	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1075772	28212698	19917197	1146	10621											
ADAMTS1	9510	broad.mit.edu	37	chr21	28214961	28214961	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagcatggtttccacataGcggtgactggacacaaatcg	13	8	10	10	2	0	1	0	1	0	0	2	2	1	2	1	3	2	2	1	3	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr21:28214961G>A	uc002ymf.2	-	2	1229	c.774C>T	c.(772-774)CGC>CGT	p.R258R		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	258	Peptidase M12B.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		TTTCCACATAGCGGTGACTGG	0.453													4	33					0	0	0.009096	0	0		A	28214961	A	A	28214961	2	1	12	1	0	0	0	0	0	0	0	1	255	958	34	2		2	ADAMTS1	21	28214961	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2263	28214961	19914934	1147	10622											
PLAC4	191585	broad.mit.edu	37	chr21	42551242	42551243	+	Frame_Shift_Del	DEL	GA	-	-																															ttgagggtgtcagggtgagtGagagtgtccagggtgaggag																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr21:42551242_42551243delGA	uc002yyz.2	-	1	5924_5925	c.313_314delTC	c.(313-315)TCAfs	p.S105fs	BACE2_uc002yyw.2_Intron|BACE2_uc002yyx.2_Intron|BACE2_uc002yyy.2_Intron	NM_182832	NP_878252	Q8WY50	PLAC4_HUMAN	placenta-specific 4	105											0		Prostate(19;2.29e-06)				cagggtgagtgagagtgtccag	0.079													7	13	---	---	---	---						.	-	42551243	-	-	42551242	7	5	12	1	0	1	0	1	0	0	0	0	12033	1294	45	0	142	0	PLAC4	21	42551242	Frame_Shift_Del	DEL	GA	TCGA-BR-4257-01A-01D-1126-08	14336281	42551242	5578653	1148	10623											
ZNF295	49854	broad.mit.edu	37	chr21	43412000	43412000	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctcgtggcttccttgctcTaggagagaagagagcttagc	8	10	13	10	2	1	2	0	0	1	2	3	5	2	3	1	2	3	4	1	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr21:43412000T>C	uc002zab.3	-	3	2419	c.2205A>G	c.(2203-2205)CTA>CTG	p.L735L	ZNF295_uc002yzz.3_Intron|ZNF295_uc002yzy.3_Silent_p.L735L|ZNF295_uc002zaa.3_Silent_p.L735L	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	735					negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						TTCCTTGCTCTAGGAGAGAAG	0.537													16	74					0	0	0.004656	0	0		C	43412000	C	C	43412000	2	2	12	1	0	0	0	0	0	0	0	1	17852	1536	53	3		3	ZNF295	21	43412000	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	860758	43412000	4717895	1149	10624											
UMODL1	89766	broad.mit.edu	37	chr21	43508533	43508533	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgtggctgacgtctccAccctgctgggtgacattgcg	4	11	13	13	2	1	2	0	2	1	0	2	2	1	2	3	2	3	2	3	2	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr21:43508533A>G	uc002zaf.1	+	5	733	c.733A>G	c.(733-735)ACC>GCC	p.T245A	UMODL1_uc002zad.1_Missense_Mutation_p.T173A|UMODL1_uc002zae.1_Missense_Mutation_p.T173A|UMODL1_uc002zag.1_Missense_Mutation_p.T245A|UMODL1_uc010gow.1_Missense_Mutation_p.T37A|UMODL1_uc002zai.1_5'UTR|UMODL1_uc010gox.1_RNA|UMODL1_uc010goy.1_Intron|UMODL1_uc002zaj.1_RNA|UMODL1_uc010goz.1_Missense_Mutation_p.T37A	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	245	Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						TGACGTCTCCACCCTGCTGGG	0.642													3	9					0	0	0.001168	0	0		G	43508533	G	G	43508533	3	3	12	1	0	0	0	0	1	0	0	0	17006	159	6	3	751	3	UMODL1	21	43508533	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	96533	43508533	4621362	1150	10625											
TMPRSS3	64699	broad.mit.edu	37	chr21	43810131	43810131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagtgacaggatctgtgcaGcaacagcatctgcatctgaa	12	8	11	10	0	3	2	0	2	3	0	3	3	3	3	0	1	5	5	0	1	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr21:43810131G>A	uc002zbb.2	-	3	311	c.110C>T	c.(109-111)GCT>GTT	p.A37V	TMPRSS3_uc002zaz.2_5'Flank|TMPRSS3_uc002zba.2_5'UTR|TMPRSS3_uc002zbc.2_Missense_Mutation_p.A37V|TMPRSS3_uc002zbd.2_Missense_Mutation_p.A37V	NM_024022	NP_076927	P57727	TMPS3_HUMAN	transmembrane protease, serine 3 isoform 1	37	Cytoplasmic (Potential).				cellular sodium ion homeostasis|proteolysis	endoplasmic reticulum membrane|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity|sodium channel regulator activity			ovary(2)|breast(1)	3						GATCTGTGCAGCAACAGCATC	0.443													12	13					0	0	0.001368	0	0		A	43810131	A	A	43810131	3	1	12	1	0	0	0	0	1	0	0	0	16273	971	34	2	1381	2	TMPRSS3	21	43810131	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	301598	43810131	4319764	1151	10626											
PDXK	8566	broad.mit.edu	37	chr21	45168941	45168941	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcttgcagacattatcacGcccaaccagtttgaggccga	10	8	9	14	3	1	2	1	1	0	1	1	3	1	2	4	1	2	3	4	1	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr21:45168941G>A	uc002zdm.3	+	6	642	c.444G>A	c.(442-444)ACG>ACA	p.T148T	PDXK_uc010gpj.2_Silent_p.T148T|PDXK_uc002zdn.3_Silent_p.T120T|PDXK_uc002zdq.3_Silent_p.T75T	NM_003681	NP_003672	O00764	PDXK_HUMAN	pyridoxal kinase	148					cell proliferation|pyridoxal 5'-phosphate salvage	cytosol	ATP binding|lithium ion binding|magnesium ion binding|potassium ion binding|protein homodimerization activity|pyridoxal kinase activity|pyridoxal phosphate binding|sodium ion binding|zinc ion binding				0				Colorectal(79;0.109)|READ - Rectum adenocarcinoma(84;0.161)|STAD - Stomach adenocarcinoma(101;0.18)	Pyridoxal(DB00147)|Pyridoxine(DB00165)	ACATTATCACGCCCAACCAGT	0.348													7	18					0	0	0.004482	0	0		A	45168941	A	A	45168941	2	1	12	1	0	0	0	0	0	0	0	1	11716	1074	38	1		1	PDXK	21	45168941	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1358810	45168941	2960954	1152	10627											
PFKL	5211	broad.mit.edu	37	chr21	45741668	45741668	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggcggctggcatgaatgcGgccgtgcgctcggcggtgcg	3	6	19	13	8	0	1	0	1	0	0	1	1	0	1	2	6	3	3	2	6	1	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr21:45741668G>A	uc002zel.2	+	13	1307	c.1248G>A	c.(1246-1248)GCG>GCA	p.A416A	PFKL_uc002zek.2_Silent_p.A463A|PFKL_uc002zem.2_Silent_p.A3A|PFKL_uc002zen.2_Silent_p.A3A	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	416					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)		GCATGAATGCGGCCGTGCGCT	0.647													3	8					0	0	0.001168	0	0		A	45741668	A	A	45741668	2	1	12	1	0	0	0	0	0	0	0	1	11783	1103	39	1		1	PFKL	21	45741668	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	572727	45741668	2388227	1153	10628											
COL18A1	80781	broad.mit.edu	37	chr21	46917558	46917559	+	Frame_Shift_Ins	INS	-	C	C																															ggcgccaaaggagaagtgggINScccccccggaccaccaggtg																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr21:46917558_46917559insC	uc011afs.1	+	31	3932_3933	c.3911_3912insC	c.(3910-3912)GGCfs	p.G1304fs	COL18A1_uc002zhg.2_Frame_Shift_Ins_p.G889fs|COL18A1_uc002zhi.2_Frame_Shift_Ins_p.G1069fs	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	1304	Triple-helical region 7 (COL7).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		GGAGAAGTGGGCCCCCCCGGAC	0.639													5	2	---	---	---	---						.	C	46917559	C	C	46917558	7	5	12	1	0	1	1	0	0	0	0	0	3678	1203	42	0	4147	0	COL18A1	21	46917558	Frame_Shift_Ins	INS	-	TCGA-BR-4257-01A-01D-1126-08	1175890	46917558	1212337	1154	10629											
CECR2	27443	broad.mit.edu	37	chr22	17978463	17978463	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggatgcagacagtctcCgtgtggagccattgggtgaa	8	9	15	9	1	1	2	0	1	1	1	2	4	1	4	3	3	2	1	3	3	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:17978463C>T	uc010gqw.1	+	3	427	c.301C>T	c.(301-303)CGT>TGT	p.R101C	CECR2_uc010gqv.1_5'UTR|CECR2_uc002zml.2_5'UTR|CECR2_uc002zmm.1_5'UTR	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	143					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		AGACAGTCTCCGTGTGGAGCC	0.488													6	15					0	0	0.004482	0	0		T	17978463	T	T	17978463	3	4	12	1	0	0	0	0	1	0	0	0	3209	652	23	1	313	1	CECR2	22	17978463	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08		17978463	33326103	1155	10630											
ZNF74	7625	broad.mit.edu	37	chr22	20761010	20761010	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttaagtgtgagaaatgtgggGagatgttcaactggagctcg	11	11	15	4	1	1	2	1	1	0	2	2	5	1	3	0	3	2	2	0	3	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:20761010G>T	uc010gsm.2	+	6	1899	c.1687G>T	c.(1687-1689)GAG>TAG	p.E563*	ZNF74_uc002zsg.2_Nonsense_Mutation_p.E492*|ZNF74_uc002zsh.2_Nonsense_Mutation_p.E563*|ZNF74_uc002zsi.2_Nonsense_Mutation_p.E492*|ZNF74_uc010gsn.2_Nonsense_Mutation_p.E492*	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	563	C2H2-type 12.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GAAATGTGGGGAGATGTTCAA	0.463													16	21					3.32936e-07	3.63275e-07	0.006122	1	0		T	20761010	T	T	20761010	4	4	12	1	0	0	0	0	0	1	0	0	18152	1175	41	5	1705	5	ZNF74	22	20761010	Nonsense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2782547	20761010	30543556	1156	10631											
RTDR1	27156	broad.mit.edu	37	chr22	23404006	23404006	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttcagtgatcactgtggcGaacatcagggcaccggcagc	9	7	12	13	2	3	1	3	1	0	0	3	2	3	1	2	3	2	2	2	3	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:23404006G>A	uc002zwt.2	-	6	929	c.771C>T	c.(769-771)TTC>TTT	p.F257F		NM_014433	NP_055248	Q9UHP6	RTDR1_HUMAN	rhabdoid tumor deletion region protein 1	257							binding			ovary(1)	1	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.175)		TCACTGTGGCGAACATCAGGG	0.582													4	18					0	0	0.001168	0	0		A	23404006	A	A	23404006	2	1	12	1	0	0	0	0	0	0	0	1	13744	1049	37	1		1	RTDR1	22	23404006	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	2642996	23404006	27900560	1157	10632											
CYTSA	23384	broad.mit.edu	37	chr22	24717611	24717611	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attaatgaggatcattctgaGggtgatgaaaaatctgagaa	16	11	11	3	0	3	5	1	5	2	1	3	7	3	6	0	2	0	0	0	2	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:24717611G>T	uc002zzw.2	+	5	970	c.663G>T	c.(661-663)GAG>GAT	p.E221D	CYTSA_uc002zzv.3_Missense_Mutation_p.E221D|CYTSA_uc011ajq.1_Missense_Mutation_p.E221D	NM_015330	NP_056145	Q69YQ0	CYTSA_HUMAN	cytospin A	221	Potential.				cell cycle|cell division						0						ATCATTCTGAGGGTGATGAAA	0.448													24	43					4.59853e-10	5.12826e-10	0.005443	1	0		T	24717611	T	T	24717611	3	4	12	1	0	0	0	0	1	0	0	0	4212	991	35	5	673	5	CYTSA	22	24717611	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1313605	24717611	26586955	1158	10633											
SGSM1	129049	broad.mit.edu	37	chr22	25294421	25294421	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagtgaggacaacctctcGgaggagcctgagatggaaag	13	5	15	8	1	1	2	0	2	1	1	2	8	1	6	2	4	2	0	2	4	2	0			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:25294421G>A	uc003abg.2	+	20	2827	c.2670G>A	c.(2668-2670)TCG>TCA	p.S890S	SGSM1_uc003abh.2_Silent_p.S829S|SGSM1_uc010guu.1_Silent_p.S835S|SGSM1_uc003abj.2_Silent_p.S774S|SGSM1_uc003abi.1_Silent_p.S810S	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	890	Rab-GAP TBC.					Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						ACAACCTCTCGGAGGAGCCTG	0.587													8	35					0	0	0.000978	0	0		A	25294421	A	A	25294421	2	1	12	1	0	0	0	0	0	0	0	1	14247	1103	39	1		1	SGSM1	22	25294421	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	576810	25294421	26010145	1159	10634											
ADRBK2	157	broad.mit.edu	37	chr22	26086188	26086188	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttggatgaacatggacaCgcaagaatatcagatcttgg	13	10	10	8	1	3	3	1	1	2	2	3	5	3	5	0	3	1	1	0	3	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:26086188C>T	uc003abx.3	+	12	1137	c.990C>T	c.(988-990)CAC>CAT	p.H330H	ADRBK2_uc010gux.2_Silent_p.H330H|ADRBK2_uc003abw.2_Silent_p.H217H|ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	330	Protein kinase.						ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	AACATGGACACGCAAGAATAT	0.418													7	22					0	0	0.006214	0	0		T	26086188	T	T	26086188	2	4	12	1	0	0	0	0	0	0	0	1	344	535	19	1		1	ADRBK2	22	26086188	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	791767	26086188	25218378	1160	10635											
TFIP11	24144	broad.mit.edu	37	chr22	26895229	26895229	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgagggggttgctgcaGtcgggctgcatccgccgctc	4	8	18	11	3	0	1	0	1	0	0	3	1	1	1	2	4	3	6	2	4	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:26895229G>A	uc003acr.2	-	8	1544	c.1170C>T	c.(1168-1170)GAC>GAT	p.D390D	TFIP11_uc003acs.2_Silent_p.D390D|TFIP11_uc003act.2_Silent_p.D390D	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	390					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						GGTTGCTGCAGTCGGGCTGCA	0.607													7	9					0	0	0.00308	0	0		A	26895229	A	A	26895229	2	1	12	1	0	0	0	0	0	0	0	1	15832	1020	36	4		4	TFIP11	22	26895229	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	809041	26895229	24409337	1161	10636											
CHEK2	11200	broad.mit.edu	37	chr22	29120963	29120963	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccataagataataatattAcctttatttctgcttagtga	15	16	4	6	0	1	2	0	1	1	1	1	2	1	2	2	0	3	1	2	0	8	9			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:29120963A>G	uc003adu.1	-	4	664	c.592_splice	c.e4+1	p.V198_splice	CHEK2_uc003ads.1_Intron|CHEK2_uc010gvh.1_Intron|CHEK2_uc010gvi.1_Splice_Site_p.V198_splice|CHEK2_uc010gvj.1_Intron|CHEK2_uc003adr.1_Splice_Site|CHEK2_uc010gvk.1_Splice_Site|CHEK2_uc003adt.1_Splice_Site_p.V241_splice|CHEK2_uc003adv.1_Splice_Site_p.V198_splice|CHEK2_uc003adw.1_Splice_Site_p.V198_splice|CHEK2_uc003adx.1_Splice_Site|CHEK2_uc003ady.1_Splice_Site_p.V198_splice|CHEK2_uc003adz.1_Intron	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a						cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						TAATAATATTACCTTTATTTC	0.343			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				3	29					0	0	0.004672	0	0		G	29120963	G	G	29120963	5	3	12	1	0	0	0	0	0	0	1	0	3338	405	14	3	1085	3	CHEK2	22	29120963	Splice_Site	SNP	A	TCGA-BR-4257-01A-01D-1126-08	2225734	29120963	22183603	1162	10637											
EWSR1	2130	broad.mit.edu	37	chr22	29695771	29695771	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacgaggtggccctggggggCcccctggacctttgatggaa	6	7	17	11	1	0	1	0	1	0	0	0	5	0	3	4	7	0	0	4	7	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:29695771C>G	uc003aet.2	+	16	2189	c.1861C>G	c.(1861-1863)CCC>GCC	p.P621A	EWSR1_uc003aev.2_Missense_Mutation_p.P626A|EWSR1_uc003aew.2_Missense_Mutation_p.P565A|EWSR1_uc003aex.2_Missense_Mutation_p.P620A|EWSR1_uc003aey.2_Missense_Mutation_p.P416A|EWSR1_uc003aez.2_Missense_Mutation_p.P282A	NM_005243	NP_005234	Q01844	EWS_HUMAN	Ewing sarcoma breakpoint region 1 isoform 2	621	Arg/Gly/Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	calmodulin binding|nucleotide binding|RNA binding|zinc ion binding		EWSR1/FLI1(2266)|EWSR1/ATF1(323)|EWSR1/WT1(231)|EWSR1/ERG(162)|EWSR1/NR4A3(140)|EWSR1/DDIT3(43)|EWSR1/CREB1(42)|EWSR1/FEV(10)|EWSR1/POU5F1(10)|EWSR1/ETV1(7)|EWSR1/ETV4(6)|EWSR1/ZNF384(4)|EWSR1/PBX1(3)|EWSR1/SP3(3)|EWSR1/PATZ1(2)	bone(2526)|soft_tissue(702)|skin(8)|autonomic_ganglia(4)|haematopoietic_and_lymphoid_tissue(4)|salivary_gland(2)|central_nervous_system(2)|NS(2)|pancreas(2)|lung(1)|ovary(1)	3254						CCCTGGGGGGCCCCCTGGACC	0.607			T	FLI1|ERG|ZNF278|NR4A3|FEV|ATF1|ETV1|ETV4|WT1|ZNF384|CREB1|POU5F1| PBX1	Ewing sarcoma| desmoplastic small round cell tumor |ALL|clear cell sarcoma|sarcoma|myoepithelioma								3	4					0	0	0.000602	0	0		G	29695771	G	G	29695771	3	3	12	1	0	0	0	0	1	0	0	0	5304	739	26	5	2040	5	EWSR1	22	29695771	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	574808	29695771	21608795	1163	10638											
RNF215	200312	broad.mit.edu	37	chr22	30780336	30780336	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctagcacccacctgctcctGggcacgactgcctccaaggc	7	6	10	18	1	0	0	0	0	0	0	2	1	2	0	5	2	3	4	5	2	2	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:30780336G>T	uc003ahp.2	-	5	736	c.736C>A	c.(736-738)CAG>AAG	p.Q246K	RNF215_uc011akw.1_Missense_Mutation_p.Q151K	NM_001017981	NP_001017981	Q9Y6U7	RN215_HUMAN	ring finger protein 215	246	Extracellular (Potential).					integral to membrane	zinc ion binding			central_nervous_system(1)	1						ACCTGCTCCTGGGCACGACTG	0.557													4	45					1.23904e-05	1.32859e-05	0.000602	1	0		T	30780336	T	T	30780336	3	4	12	1	0	0	0	0	1	0	0	0	13504	1357	47	5	417	5	RNF215	22	30780336	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1084565	30780336	20524230	1164	10639											
DEPDC5	9681	broad.mit.edu	37	chr22	32239152	32239152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcagaacgttccacaaaGtgacgctgaaggataagatg	14	7	13	7	2	0	4	0	2	0	2	1	5	1	5	1	2	1	3	1	2	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:32239152G>A	uc003als.2	+	28	2702	c.2560G>A	c.(2560-2562)GTG>ATG	p.V854M	DEPDC5_uc011als.1_Missense_Mutation_p.V785M|DEPDC5_uc011alu.1_Missense_Mutation_p.V863M|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.V854M|DEPDC5_uc003alu.2_Missense_Mutation_p.V303M|DEPDC5_uc003alv.2_RNA|DEPDC5_uc011alw.1_Missense_Mutation_p.V184M|DEPDC5_uc003alw.2_Missense_Mutation_p.V152M|DEPDC5_uc011alx.1_Intron|DEPDC5_uc010gwk.2_5'Flank	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	854					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						GTTCCACAAAGTGACGCTGAA	0.443													13	41					0	0	0.00245	0	0		A	32239152	A	A	32239152	3	1	12	1	0	0	0	0	1	0	0	0	4448	1029	36	4	2684	4	DEPDC5	22	32239152	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1458816	32239152	19065414	1165	10640											
SYN3	8224	broad.mit.edu	37	chr22	33327401	33327401	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actttggtcccatttctcacGacctgcatgtccaccatgca	8	12	6	15	1	1	0	1	0	1	0	4	1	3	0	4	1	2	2	4	1	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:33327401G>A	uc003amx.2	-	3	594	c.435C>T	c.(433-435)GTC>GTT	p.V145V	SYN3_uc003amy.2_Silent_p.V145V|SYN3_uc003amz.2_Silent_p.V145V	NM_003490	NP_003481	O14994	SYN3_HUMAN	synapsin III isoform IIIa	145	C; actin-binding and synaptic-vesicle binding.				neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1						CATTTCTCACGACCTGCATGT	0.473													7	22					0	0	0.004482	0	0		A	33327401	A	A	33327401	2	1	12	1	0	0	0	0	0	0	0	1	15467	1045	37	1		1	SYN3	22	33327401	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1088249	33327401	17977165	1166	10641											
CARD10	29775	broad.mit.edu	37	chr22	37914112	37914112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcaagatgtccatcaggCgccctacagagtagtggggg	10	6	15	10	2	1	2	1	0	0	2	2	2	2	2	2	3	2	2	2	3	3	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:37914112C>T	uc003asx.1	-	2	242	c.239G>A	c.(238-240)CGC>CAC	p.R80H	CARD10_uc003ast.1_RNA|CARD10_uc003asy.1_Missense_Mutation_p.R80H	NM_014550	NP_055365	Q9BWT7	CAR10_HUMAN	caspase recruitment domain protein 10	80	CARD.				activation of NF-kappaB-inducing kinase activity|protein complex assembly|regulation of apoptosis	CBM complex	receptor signaling complex scaffold activity			upper_aerodigestive_tract(1)|lung(1)|breast(1)|ovary(1)|prostate(1)|kidney(1)	6	Melanoma(58;0.0574)					GTCCATCAGGCGCCCTACAGA	0.637													8	16					0	0	0.00308	0	0		T	37914112	T	T	37914112	3	4	12	1	0	0	0	0	1	0	0	0	2647	768	27	1	2935	1	CARD10	22	37914112	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4586711	37914112	13390454	1167	10642											
SUN2	25777	broad.mit.edu	37	chr22	39141791	39141791	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcagggtggaatgtctgcagCccataggggtagaaatacca	12	7	14	8	0	1	1	0	0	1	1	1	2	1	2	2	4	3	3	2	4	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:39141791C>T	uc003awh.1	-	9	995	c.711G>A	c.(709-711)GGG>GGA	p.G237G	SUN2_uc011anz.1_Silent_p.G272G|SUN2_uc011aoa.1_Silent_p.G226G|SUN2_uc003awi.1_Silent_p.G237G|SUN2_uc010gxq.1_Silent_p.G258G|SUN2_uc010gxr.1_Silent_p.G237G|SUN2_uc010gxs.1_Silent_p.G237G	NM_015374	NP_056189	Q9UH99	SUN2_HUMAN	unc-84 homolog B	237	Perinuclear space.				centrosome localization|cytoskeletal anchoring at nuclear membrane|mitotic spindle organization|nuclear envelope organization|nuclear matrix anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	endosome membrane|integral to membrane|nuclear inner membrane|SUN-KASH complex	lamin binding|microtubule binding			large_intestine(1)|skin(1)	2						ATGTCTGCAGCCCATAGGGGT	0.617													6	17					0	0	0.001984	0	0		T	39141791	T	T	39141791	2	4	12	1	0	0	0	0	0	0	0	1	15417	726	26	2		2	SUN2	22	39141791	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1227679	39141791	12162775	1168	10643											
CBX6	23466	broad.mit.edu	37	chr22	39262866	39262866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactttggggcgggccagcGccccggccccctgcccggcg	2	4	17	18	5	0	0	0	0	0	0	0	1	0	1	6	6	2	0	6	6	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:39262866G>A	uc003awl.2	-	5	650	c.587C>T	c.(586-588)GCG>GTG	p.A196V		NM_014292	NP_055107	O95503	CBX6_HUMAN	chromobox homolog 6	196					chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	PcG protein complex					0	Melanoma(58;0.04)					gcgggccagcgccccggcccc	0.448													3	10					0	0	0.004672	0	0		A	39262866	A	A	39262866	3	1	12	1	0	0	0	0	1	0	0	0	2725	1087	38	1	655	1	CBX6	22	39262866	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	121075	39262866	12041700	1169	10644											
SLC25A17	10478	broad.mit.edu	37	chr22	41173356	41173356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccgagattccttcatcgCgaatgatctgatgaaaagca	14	9	9	9	3	2	4	1	3	1	1	4	6	3	4	2	0	2	1	2	0	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:41173356C>T	uc003azc.2	-	6	613	c.473G>A	c.(472-474)CGC>CAC	p.R158H	SLC25A17_uc010gyg.2_RNA|SLC25A17_uc011aou.1_Missense_Mutation_p.R121H|SLC25A17_uc003azd.2_RNA|SLC25A17_uc011aov.1_Missense_Mutation_p.R85H	NM_006358	NP_006349	O43808	PM34_HUMAN	solute carrier family 25 (mitochondrial carrier;	158	Lumenal (Potential).|Solcar 2.				fatty acid alpha-oxidation	integral to plasma membrane|mitochondrial inner membrane|peroxisomal membrane	adenine nucleotide transmembrane transporter activity|protein binding				0						TCCTTCATCGCGAATGATCTG	0.403													10	31					0	0	0.006214	0	0		T	41173356	T	T	41173356	3	4	12	1	0	0	0	0	1	0	0	0	14504	768	27	1	466	1	SLC25A17	22	41173356	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	1910490	41173356	10131210	1170	10645											
XRCC6	2547	broad.mit.edu	37	chr22	42032527	42032527	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcctctgatcaggtgcaaaAcgaattctagagcttgacca	12	10	9	10	1	3	3	1	2	2	1	3	4	3	3	2	1	4	2	2	1	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:42032527A>G	uc003bao.1	+	5	412	c.342A>G	c.(340-342)AAA>AAG	p.K114K	XRCC6_uc003bap.1_Silent_p.K73K|XRCC6_uc011apc.1_Silent_p.K64K|XRCC6_uc003baq.1_Silent_p.K114K|XRCC6_uc003bar.1_Silent_p.K114K|XRCC6_uc003bas.1_Silent_p.K64K	NM_001469	NP_001460	P12956	XRCC6_HUMAN	ATP-dependent DNA helicase II, 70 kDa subunit	114					DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5						CAGGTGCAAAACGAATTCTAG	0.463								Direct_reversal_of_damage|NHEJ					8	14					0	0	0.00308	0	0		G	42032527	G	G	42032527	2	3	12	1	0	0	0	0	0	0	0	1	17483	40	2	3		3	XRCC6	22	42032527	Silent	SNP	A	TCGA-BR-4257-01A-01D-1126-08	859171	42032527	9272039	1171	10646											
MEI1	150365	broad.mit.edu	37	chr22	42125712	42125712	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaggtggccagtgctcActgtataactgcggtgcttg	6	11	13	11	1	1	0	1	0	0	0	1	0	1	0	2	3	5	4	2	3	2	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:42125712A>G	uc003baz.1	+	8	933	c.908A>G	c.(907-909)CAC>CGC	p.H303R	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc003bay.3_Missense_Mutation_p.H303R|MEI1_uc011apd.1_RNA	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	303							binding			central_nervous_system(1)|skin(1)	2						GCCAGTGCTCACTGTATAACT	0.527													4	19					0	0	0.009096	0	0		G	42125712	G	G	42125712	3	3	12	1	0	0	0	0	1	0	0	0	9483	159	6	3	938	3	MEI1	22	42125712	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	93185	42125712	9178854	1172	10647											
MEI1	150365	broad.mit.edu	37	chr22	42191805	42191805	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggcctccttggagggcCttccccctagcacctcctca	5	9	9	18	0	1	0	1	0	0	0	4	1	4	1	7	3	2	2	7	3	1	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:42191805C>A	uc003baz.1	+	30	3758	c.3733C>A	c.(3733-3735)CTT>ATT	p.L1245I	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc011apd.1_RNA|MEI1_uc003bbb.1_Missense_Mutation_p.L631I|MEI1_uc003bbc.1_Missense_Mutation_p.L613I|MEI1_uc010gym.1_Missense_Mutation_p.L578I|MEI1_uc003bbd.1_Missense_Mutation_p.L458I|MEI1_uc010gyn.1_RNA|MEI1_uc003bbe.1_RNA|MEI1_uc003bbf.2_Missense_Mutation_p.L259I|MEI1_uc003bbg.2_Missense_Mutation_p.L215I	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	1245							binding			central_nervous_system(1)|skin(1)	2						CTTGGAGGGCCTTCCCCCTAG	0.602													4	6					0.00909568	0.00939153	0.009096	1	0		A	42191805	A	A	42191805	3	1	12	1	0	0	0	0	1	0	0	0	9483	681	24	5	3851	5	MEI1	22	42191805	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	66093	42191805	9112761	1173	10648											
SCUBE1	80274	broad.mit.edu	37	chr22	43616498	43616498	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgatctcaaactctgctgTgatgtgggacacctccttgg	7	12	10	12	1	2	1	1	1	2	0	5	3	3	2	2	2	2	1	2	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:43616498T>C	uc003bdt.1	-	14	1733	c.1645A>G	c.(1645-1647)ACA>GCA	p.T549A		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	549					adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				AACTCTGCTGTGATGTGGGAC	0.582													18	57					0	0	0.001882	0	0		C	43616498	C	C	43616498	3	2	12	1	0	0	0	0	1	0	0	0	13969	1696	59	3	1357	3	SCUBE1	22	43616498	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	1424693	43616498	7688068	1174	10649											
GRAMD4	23151	broad.mit.edu	37	chr22	47073062	47073062	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgctcgtgtttggtgccAtggtgcacagggatgaggcc	6	9	16	10	2	0	1	0	1	0	0	1	2	0	2	3	4	3	3	3	4	0	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:47073062A>G	uc003bhx.2	+	18	1690	c.1651A>G	c.(1651-1653)ATG>GTG	p.M551V	GRAMD4_uc010had.2_Missense_Mutation_p.M467V|GRAMD4_uc003bhy.2_Missense_Mutation_p.M74V	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	551					apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		GTTTGGTGCCATGGTGCACAG	0.597													11	47					0	0	0.003163	0	0		G	47073062	G	G	47073062	3	3	12	1	0	0	0	0	1	0	0	0	6768	217	8	3	1721	3	GRAMD4	22	47073062	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	3456564	47073062	4231504	1175	10650											
TUBGCP6	85378	broad.mit.edu	37	chr22	50667976	50667976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgctcctgacacgtggaCgccccgcttcaccacaaagg	10	5	10	16	4	1	2	1	1	0	1	2	3	2	3	4	2	0	2	4	2	1	1			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chr22:50667976C>T	uc003bkb.1	-	4	1659	c.1147G>A	c.(1147-1149)GTC>ATC	p.V383I	TUBGCP6_uc010har.1_Missense_Mutation_p.V383I|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	383					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GACACGTGGACGCCCCGCTTC	0.642													4	1					0	0	0.001984	0	0		T	50667976	T	T	50667976	3	4	12	1	0	0	0	0	1	0	0	0	16796	536	19	1	4400	1	TUBGCP6	22	50667976	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3594914	50667976	636590	1176	10651											
PPP2R3B	28227	broad.mit.edu	37	chrX	299553	299553	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttctgctcgtggtcgaggTacttctcgatgttgaagaag	7	14	12	8	3	2	2	0	1	2	1	5	4	2	2	0	2	2	3	0	2	3	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:299553T>C	uc004cpg.2	-	11	1631	c.1430A>G	c.(1429-1431)TAC>TGC	p.Y477C	PPP2R3B_uc004cpf.2_Missense_Mutation_p.Y78C	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	477					cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GTGGTCGAGGTACTTCTCGAT	0.498													9	19					0	0	0.008291	0	0		C	299553	C	C	299553	3	2	12	1	0	0	0	0	1	0	0	0	12411	1638	57	3	309	3	PPP2R3B	23	299553	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08		299553	154971007	1177	10652											
NLGN4X	57502	broad.mit.edu	37	chrX	5821797	5821797	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtccgtggtgtccagcaTgttgcagccgaccttgtctg	5	12	12	12	2	1	0	0	0	1	0	3	1	3	0	4	1	3	3	4	1	0	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:5821797T>C	uc010ndh.2	-	5	1423	c.922A>G	c.(922-924)ATG>GTG	p.M308V	NLGN4X_uc004crp.2_Missense_Mutation_p.M328V|NLGN4X_uc004crq.2_Missense_Mutation_p.M308V|NLGN4X_uc010ndi.2_Missense_Mutation_p.M345V|NLGN4X_uc004crr.2_Missense_Mutation_p.M308V|NLGN4X_uc010ndj.2_Missense_Mutation_p.M308V	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	308	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						GTGTCCAGCATGTTGCAGCCG	0.582													11	23					0	0	0.00245	0	0		C	5821797	C	C	5821797	3	2	12	1	0	0	0	0	1	0	0	0	10483	1464	51	3	1536	3	NLGN4X	23	5821797	Missense_Mutation	SNP	T	TCGA-BR-4257-01A-01D-1126-08	5522244	5821797	149448763	1178	10653											
GPR143	4935	broad.mit.edu	37	chrX	9716622	9716622	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcccaacttacctggacacGgaagggtagtagagcatggc	11	7	13	10	1	0	1	0	0	0	1	1	3	1	3	2	4	3	3	2	4	5	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:9716622G>T	uc004cst.1	-	4	600	c.600C>A	c.(598-600)TCC>TCA	p.S200S		NM_000273	NP_000264	P51810	GP143_HUMAN	G protein-coupled receptor 143	180	Extracellular (Potential).				calcium-mediated signaling using intracellular calcium source|eye pigment biosynthetic process|melanosome organization|melanosome transport|phosphatidylinositol-mediated signaling|regulation of calcium-mediated signaling|visual perception	apical plasma membrane|Golgi apparatus|integral to membrane|lysosomal membrane|melanosome membrane|membrane fraction	dopamine binding|L-DOPA receptor activity|protein binding|tyrosine binding			ovary(1)	1		Hepatocellular(5;0.000888)				ACCTGGACACGGAAGGGTAGT	0.597													5	7					2.0095e-06	2.17178e-06	0.001984	1	0		T	9716622	T	T	9716622	2	4	12	1	0	0	0	0	0	0	0	1	6666	1103	39	5		5	GPR143	23	9716622	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	3894825	9716622	145553938	1179	10654											
GEMIN8	54960	broad.mit.edu	37	chrX	14027111	14027111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaagctcagctgcaccgcgGcctccatggcttggatcttg	7	9	11	14	2	2	0	1	0	1	0	3	1	3	1	3	3	3	4	3	3	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:14027111G>A	uc004cwb.2	-	5	993	c.650C>T	c.(649-651)GCC>GTC	p.A217V	GEMIN8_uc004cwc.2_Missense_Mutation_p.A217V|GEMIN8_uc004cwd.2_Missense_Mutation_p.A217V	NM_017856	NP_060326	Q9NWZ8	GEMI8_HUMAN	gem (nuclear organelle) associated protein 8	217					spliceosomal snRNP assembly	Cajal body|cytoplasm|SMN complex|spliceosomal complex	protein binding				0						CTGCACCGCGGCCTCCATGGC	0.617													16	21					0	0	0.002299	0	0		A	14027111	A	A	14027111	3	1	12	1	0	0	0	0	1	0	0	0	6349	1203	42	2	82	2	GEMIN8	23	14027111	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4310489	14027111	141243449	1180	10655											
CDKL5	6792	broad.mit.edu	37	chrX	18622050	18622050	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggcaaaagtactgctttgCagtctcaccacagatctaac	12	9	7	13	1	2	1	1	0	2	1	3	1	2	1	2	1	4	4	2	1	4	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:18622050C>T	uc004cym.2	+	12	1259	c.1006C>T	c.(1006-1008)CAG>TAG	p.Q336*	CDKL5_uc004cyn.2_Nonsense_Mutation_p.Q336*	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	336					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					TACTGCTTTGCAGTCTCACCA	0.438													50	87					0	0	0.00361	0	0		T	18622050	T	T	18622050	4	4	12	1	0	0	0	0	0	1	0	0	3160	711	25	2	1048	2	CDKL5	23	18622050	Nonsense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	4594939	18622050	136648510	1181	10656											
MAOB	4129	broad.mit.edu	37	chrX	43741511	43741511	+	Frame_Shift_Del	DEL	C	-	-																															gcgactaacctgagatgccgCcccccaccacgaccacgtcg																										TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:43741511delC	uc004dfz.3	-	1	211	c.35delG	c.(34-36)GGCfs	p.G12fs	MAOB_uc011mky.1_5'UTR|MAOB_uc010nhj.2_Frame_Shift_Del_p.G12fs	NM_000898	NP_000889	P27338	AOFB_HUMAN	monoamine oxidase B	12	Cytoplasmic.				xenobiotic metabolic process	integral to membrane|mitochondrial outer membrane	electron carrier activity|primary amine oxidase activity			ovary(1)|central_nervous_system(1)	2					Amantadine(DB00915)|Bupropion(DB01156)|Carbidopa(DB00190)|Citalopram(DB00215)|Dopamine(DB00988)|Entacapone(DB00494)|Furazolidone(DB00614)|Ginkgo biloba(DB01381)|Ibuprofen(DB01050)|Imipramine(DB00458)|Iproniazid(DB04818)|Isocarboxazid(DB01247)|Levodopa(DB01235)|Maprotiline(DB00934)|Meclizine(DB00737)|Moclobemide(DB01171)|Nicotine(DB00184)|Pargyline(DB01626)|Phenelzine(DB00780)|Phentermine(DB00191)|Rasagiline(DB01367)|Selegiline(DB01037)|Tranylcypromine(DB00752)	TGAGATGCCGCCCCCCACCAC	0.697													5	7	---	---	---	---						.	-	43741511	-	-	43741511	7	5	12	1	0	1	0	1	0	0	0	0	9244	739	26	0	1587	0	MAOB	23	43741511	Frame_Shift_Del	DEL	C	TCGA-BR-4257-01A-01D-1126-08	25119461	43741511	111529049	1182	10657											
SUV39H1	6839	broad.mit.edu	37	chrX	48558962	48558962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaggtgcggcttcgagccGggctgcccatctacgagtgc	5	7	15	14	4	1	0	0	0	1	0	2	2	1	0	3	3	5	2	3	3	1	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:48558962G>A	uc004dkn.2	+	3	691	c.646G>A	c.(646-648)GGG>AGG	p.G216R	SUV39H1_uc011mmf.1_Missense_Mutation_p.G227R|SUV39H1_uc011mmg.1_RNA	NM_003173	NP_003164	O43463	SUV91_HUMAN	suppressor of variegation 3-9 homolog 1	216	Pre-SET.				cell cycle|cell differentiation|chromatin silencing at rDNA|interspecies interaction between organisms|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|chromosome, centromeric region|condensed nuclear chromosome|rDNA heterochromatin	chromatin binding|histone methyltransferase activity (H3-K9 specific)|protein N-terminus binding|zinc ion binding				0						GCTTCGAGCCGGGCTGCCCAT	0.622													5	5					0	0	0.00308	0	0		A	48558962	A	A	48558962	3	1	12	1	0	0	0	0	1	0	0	0	15437	1116	39	1	656	1	SUV39H1	23	48558962	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	4817451	48558962	106711598	1183	10658											
MED12	9968	broad.mit.edu	37	chrX	70348474	70348474	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacctatcttttcatgactcGctggctacttttgttgccat	6	17	7	11	1	2	1	1	1	1	0	3	2	2	1	2	1	2	3	2	1	2	7			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:70348474G>A	uc004dyy.2	+	24	3580	c.3381G>A	c.(3379-3381)TCG>TCA	p.S1127S	MED12_uc011mpq.1_Silent_p.S1127S|MED12_uc004dyz.2_Silent_p.S1127S|MED12_uc004dza.2_Silent_p.S974S|MED12_uc010nla.2_5'Flank	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1127					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					TTCATGACTCGCTGGCTACTT	0.522											OREG0019857	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	8					0	0	0.006214	0	0		A	70348474	A	A	70348474	2	1	12	1	0	0	0	0	0	0	0	1	9446	1074	38	1		1	MED12	23	70348474	Silent	SNP	G	TCGA-BR-4257-01A-01D-1126-08	21789512	70348474	84922086	1184	10659											
MED12	9968	broad.mit.edu	37	chrX	70353001	70353001	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taattggcgagatgaccagtActtagatgattgcaaaccaa	15	10	9	7	1	0	4	0	2	0	2	0	5	0	4	2	1	3	2	2	1	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:70353001A>G	uc004dyy.2	+	33	4755	c.4556A>G	c.(4555-4557)TAC>TGC	p.Y1519C	MED12_uc011mpq.1_Missense_Mutation_p.Y1519C|MED12_uc004dyz.2_Missense_Mutation_p.Y1519C|MED12_uc004dza.2_Missense_Mutation_p.Y1366C|MED12_uc010nla.2_Missense_Mutation_p.Y145C	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1519					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					GATGACCAGTACTTAGATGAT	0.453													18	20					0	0	0.007413	0	0		G	70353001	G	G	70353001	3	3	12	1	0	0	0	0	1	0	0	0	9446	391	14	3	4686	3	MED12	23	70353001	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	4527	70353001	84917559	1185	10660											
SATL1	340562	broad.mit.edu	37	chrX	84363304	84363304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgccttatgcctggttggCtggggacttgctggctcatg	3	14	15	9	0	1	0	1	0	0	0	1	1	1	1	2	5	3	5	2	5	1	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:84363304C>T	uc011mqx.1	-	1	671	c.671G>A	c.(670-672)AGC>AAC	p.S224N	SATL1_uc004een.2_Missense_Mutation_p.S224N	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	37	Gln-rich.						N-acetyltransferase activity			breast(2)	2						GCCTGGTTGGCTGGGGACTTG	0.527													3	42					0	0	0.004672	0	0		T	84363304	T	T	84363304	3	4	12	1	0	0	0	0	1	0	0	0	13880	797	28	2	1247	2	SATL1	23	84363304	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	14010303	84363304	70907256	1186	10661											
AMOT	154796	broad.mit.edu	37	chrX	112054510	112054510	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttgaaatcatgcatcctccGaatctcgccctctagcttgt	8	13	7	13	2	3	1	1	1	2	0	6	2	5	1	3	0	2	3	3	0	3	3			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:112054510G>A	uc004epr.2	-	3	1504	c.1504C>T	c.(1504-1506)CGG>TGG	p.R502W	AMOT_uc004eps.2_Missense_Mutation_p.R93W|AMOT_uc004ept.1_Missense_Mutation_p.R502W	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	502	Potential.				actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						TGCATCCTCCGAATCTCGCCC	0.517													29	73					0	0	0.002445	0	0		A	112054510	A	A	112054510	3	1	12	1	0	0	0	0	1	0	0	0	582	1057	37	1	1786	1	AMOT	23	112054510	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	27691206	112054510	43216050	1187	10662											
GRIA3	2892	broad.mit.edu	37	chrX	122616765	122616765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctgttacaaatcacgggCagagtccaaacgcatgaaac	15	8	8	10	2	2	2	1	1	1	1	3	2	3	2	1	1	3	3	1	1	4	2			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:122616765C>T	uc004etq.3	+	16	2848	c.2555C>T	c.(2554-2556)GCA>GTA	p.A852V	GRIA3_uc004etr.3_Missense_Mutation_p.A852V|GRIA3_uc004ets.3_RNA	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	852	Cytoplasmic (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	AAATCACGGGCAGAGTCCAAA	0.473													4	52					0	0	0.009096	0	0		T	122616765	T	T	122616765	3	4	12	1	0	0	0	0	1	0	0	0	6785	710	25	2	2732	2	GRIA3	23	122616765	Missense_Mutation	SNP	C	TCGA-BR-4257-01A-01D-1126-08	10562255	122616765	32653795	1188	10663											
ACTRT1	139741	broad.mit.edu	37	chrX	127185298	127185298	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccggagagtacaatgtcTgcataaagtttattctggat	11	12	9	9	1	2	1	0	0	2	1	2	3	2	2	2	2	2	3	2	2	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:127185298T>C	uc004eum.2	-	1	1085	c.888A>G	c.(886-888)GCA>GCG	p.A296A		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	296						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						GTACAATGTCTGCATAAAGTT	0.522													23	40					0	0	0.003954	0	0		C	127185298	C	C	127185298	2	2	12	1	0	0	0	0	0	0	0	1	218	1567	55	3		3	ACTRT1	23	127185298	Silent	SNP	T	TCGA-BR-4257-01A-01D-1126-08	4568533	127185298	28085262	1189	10664											
F9	2158	broad.mit.edu	37	chrX	138644004	138644004	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacatgtcttcgatctacaaAgttcaccatctataacaaca	15	11	3	12	1	4	0	1	0	3	0	5	1	4	0	1	0	3	1	1	0	5	5			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:138644004A>G	uc004fas.1	+	8	1189	c.1160A>G	c.(1159-1161)AAG>AGG	p.K387R	F9_uc004fat.1_Missense_Mutation_p.K349R	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	387	Peptidase S1.		K -> E (in HEMB; mild).		blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	CGATCTACAAAGTTCACCATC	0.463													15	25					0	0	0.002299	0	0		G	138644004	G	G	138644004	3	3	12	1	0	0	0	0	1	0	0	0	5362	72	3	3	1190	3	F9	23	138644004	Missense_Mutation	SNP	A	TCGA-BR-4257-01A-01D-1126-08	11458706	138644004	16626556	1190	10665											
CD99L2	83692	broad.mit.edu	37	chrX	149983362	149983362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctatacccggtttcctgcGgccatcatcttgatcatcca	7	13	6	15	2	3	1	2	1	1	0	6	1	6	1	5	2	2	1	5	2	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:149983362G>A	uc004fel.2	-	4	368	c.250C>T	c.(250-252)CGC>TGC	p.R84C	CD99L2_uc004fek.2_RNA|CD99L2_uc004fem.2_Intron|CD99L2_uc004fen.2_Intron|CD99L2_uc004feo.2_RNA|CD99L2_uc011myb.1_Missense_Mutation_p.R84C	NM_031462	NP_113650	Q8TCZ2	C99L2_HUMAN	CD99 antigen-like 2 isoform E3'-E4'-E3-E4	84	Extracellular (Potential).				cell adhesion	cell junction|integral to membrane				large_intestine(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGTTTCCTGCGGCCATCATCT	0.453													6	85					0	0	0.001984	0	0		A	149983362	A	A	149983362	3	1	12	1	0	0	0	0	1	0	0	0	3054	1116	39	1	570	1	CD99L2	23	149983362	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	11339358	149983362	5287198	1191	10666											
PLXNB3	5365	broad.mit.edu	37	chrX	153040420	153040420	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgcacctacgccgagcgCgccttcttccctggccatgg	5	8	10	18	5	1	0	0	0	1	0	2	1	2	0	6	2	3	1	6	2	2	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:153040420C>T	uc004fii.2	+	24	4191	c.4017C>T	c.(4015-4017)CGC>CGT	p.R1339R	PLXNB3_uc010nuk.2_Silent_p.R1362R|PLXNB3_uc011mzd.1_Silent_p.R978R|PLXNB3_uc004fij.1_RNA|SRPK3_uc004fik.2_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1339	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					ACGCCGAGCGCGCCTTCTTCC	0.701													4	7					0	0	0.004482	0	0		T	153040420	T	T	153040420	2	4	12	1	0	0	0	0	0	0	0	1	12144	755	27	1		1	PLXNB3	23	153040420	Silent	SNP	C	TCGA-BR-4257-01A-01D-1126-08	3057058	153040420	2230140	1192	10667											
SPRY3	10251	broad.mit.edu	37	chrX	155003589	155003589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcctattgaacagctgcGctctactcatgctagcaatg	9	12	8	12	1	3	1	1	1	2	0	3	1	3	1	1	0	7	4	1	0	5	4			TCGA-BR-4257-01A-01D-1126-08	TCGA-BR-4257-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	936def52-8689-403a-97f4-3dda9f05feb1	7b9f4212-c55d-40c5-9fa9-c8b2713cf775	g.chrX:155003589G>A	uc004fnq.1	+	2	510	c.56G>A	c.(55-57)CGC>CAC	p.R19H	SPRY3_uc010nvl.1_Missense_Mutation_p.R19H	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	19					multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GAACAGCTGCGCTCTACTCAT	0.488													24	37					0	0	0.003954	0	0		A	155003589	A	A	155003589	3	1	12	1	0	0	0	0	1	0	0	0	15132	1087	38	1	58	1	SPRY3	23	155003589	Missense_Mutation	SNP	G	TCGA-BR-4257-01A-01D-1126-08	1963169	155003589	266971	1193	10668											
MTOR	2475	broad.mit.edu	37	chr1	11204807	11204807	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcatgtggcaagaaacCatggcctgatggaagcaaat	15	6	12	8	0	0	2	0	1	0	1	0	4	0	3	2	3	3	3	2	3	4	0			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:11204807C>G	uc001asd.2	-	34	4891	c.4770G>C	c.(4768-4770)ATG>ATC	p.M1590I		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	1590	FAT.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GGCAAGAAACCATGGCCTGAT	0.478													3	36					0	0	0.004672	0	0		G	11204807	G	G	11204807	3	3	13	1	0	0	0	0	1	0	0	0	9972	594	21	5	2979	5	MTOR	1	11204807	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08		11204807	238045814	1	10669											
CLIC4	25932	broad.mit.edu	37	chr1	25153587	25153587	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctctgcatatatcaagaattCaaggccagaggctaatgaag	15	9	9	8	0	3	3	2	1	1	2	3	3	3	3	1	2	1	2	1	2	7	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:25153587C>G	uc001bjo.2	+	4	680	c.395C>G	c.(394-396)TCA>TGA	p.S132*	CLIC4_uc001bjn.2_RNA|CLIC4_uc001bjp.1_Nonsense_Mutation_p.S112*	NM_013943	NP_039234	Q9Y696	CLIC4_HUMAN	chloride intracellular channel 4	132	GST C-terminal.				cellular response to calcium ion|establishment or maintenance of apical/basal cell polarity|keratinocyte differentiation|negative regulation of cell migration|regulation of cytoskeleton organization	actin cytoskeleton|apical part of cell|cell surface|cell-cell junction|centrosome|chloride channel complex|cytoplasmic vesicle membrane|cytosol|microvillus|midbody|mitochondrion|nuclear matrix|perinuclear region of cytoplasm|soluble fraction	voltage-gated chloride channel activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000778)|all_lung(284;0.00106)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0479)|OV - Ovarian serous cystadenocarcinoma(117;1.06e-24)|Colorectal(126;1.03e-07)|COAD - Colon adenocarcinoma(152;4.93e-06)|STAD - Stomach adenocarcinoma(196;0.000418)|GBM - Glioblastoma multiforme(114;0.000451)|BRCA - Breast invasive adenocarcinoma(304;0.00215)|KIRC - Kidney renal clear cell carcinoma(1967;0.00216)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.18)		ATCAAGAATTCAAGGCCAGAG	0.338													47	23					0	0	0.00361	0	0		G	25153587	G	G	25153587	4	3	13	1	0	0	0	0	0	1	0	0	3531	838	29	5	409	5	CLIC4	1	25153587	Nonsense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	13948780	25153587	224097034	2	10670											
ZMYM6	9204	broad.mit.edu	37	chr1	35452793	35452793	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccagaacccaacagatttTtttgttttgactcagtcaaa	12	13	7	9	0	2	3	2	1	0	2	2	3	2	3	2	1	2	1	2	1	3	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:35452793T>C	uc001byh.2	-	16	4118	c.3890A>G	c.(3889-3891)AAA>AGA	p.K1297R	uc001byd.3_5'Flank|uc001bye.2_5'Flank|ZMYM6_uc001byf.1_Intron|ZMYM6_uc010oht.1_Missense_Mutation_p.K1200R	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258	1297					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				CAACAGATTTTTTTGTTTTGA	0.373													19	16					0	0	0.010504	0	0		C	35452793	C	C	35452793	3	2	13	1	0	0	0	0	1	0	0	0	17729	1841	64	3	91	3	ZMYM6	1	35452793	Missense_Mutation	SNP	T	TCGA-BR-4267-01A-01D-1126-08	10299206	35452793	213797828	3	10671											
GJA9	81025	broad.mit.edu	37	chr1	39341225	39341225	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttaaatagcggctctaaGtgaaatccatataaaaggta	17	10	7	7	1	1	1	0	1	1	0	2	1	2	1	1	2	1	2	1	2	9	6			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:39341225G>C	uc001cct.1	-	2	827	c.546C>G	c.(544-546)CAC>CAG	p.H182Q	RRAGC_uc001ccr.2_5'Flank|MYCBP_uc001ccs.2_5'Flank	NM_030772	NP_110399	P57773	CXA9_HUMAN	gap junction protein, alpha 9, 59kDa	182	Helical; (Potential).				cell communication	connexon complex|integral to membrane					0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			GCGGCTCTAAGTGAAATCCAT	0.393													43	30					0	0	0.00361	0	0		C	39341225	C	C	39341225	3	2	13	1	0	0	0	0	1	0	0	0	6421	1020	36	5	1005	5	GJA9	1	39341225	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	3888432	39341225	209909396	4	10672											
TNNI3K	51086	broad.mit.edu	37	chr1	74664041	74664041	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcggaggttttccgagctaAgaggtaccagagaaggcacc	11	7	14	9	2	0	2	0	0	0	2	1	5	1	3	3	4	3	4	3	4	3	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:74664041A>C	uc001dge.1	+	1	95	c.79A>C	c.(79-81)AGA>CGA	p.R27R	LRRIQ3_uc001dfy.3_5'Flank|LRRIQ3_uc001dfz.3_5'Flank|TNNI3K_uc001dgc.1_Silent_p.R27R|TNNI3K_uc001dgd.2_Silent_p.R27R|FPGT_uc010oqt.1_5'UTR|FPGT_uc010oqu.1_Silent_p.R27R|FPGT_uc001dgb.1_Silent_p.R27R|FPGT_uc010oqv.1_Silent_p.R27R	NM_001112808	NP_001106279	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform a	Error:Variant_position_missing_in_Q59H18_after_alignment						cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						TTCCGAGCTAAGAGGTACCAG	0.577													9	25					0	0	0.000978	0	0		C	74664041	C	C	74664041	2	2	13	1	0	0	0	0	0	0	0	1	16354	64	3	5		5	TNNI3K	1	74664041	Silent	SNP	A	TCGA-BR-4267-01A-01D-1126-08	35322816	74664041	174586580	5	10673											
ZNHIT6	54680	broad.mit.edu	37	chr1	86123656	86123656	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggatctagttcataatatcTtattaataaaaaaaaacaaa	22	12	3	4	0	3	0	1	0	2	0	3	1	3	1	0	1	1	1	0	1	11	7			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:86123656T>G	uc001dlh.2	-	9	1382	c.1248_splice	c.e9-1	p.R416_splice	ZNHIT6_uc010osc.1_Splice_Site_p.R377_splice	NM_017953	NP_060423	Q9NWK9	BCD1_HUMAN	zinc finger, HIT type 6						box C/D snoRNP assembly|ribosome biogenesis	pre-snoRNP complex	identical protein binding|metal ion binding			large_intestine(1)	1						TCATAATATCTTATTAATAAA	0.244													15	15					0	0	0.00245	0	0		G	86123656	G	G	86123656	5	3	13	1	0	0	0	0	0	0	1	0	18234	1623	56	5	174	5	ZNHIT6	1	86123656	Splice_Site	SNP	T	TCGA-BR-4267-01A-01D-1126-08	11459615	86123656	163126965	6	10674											
CA14	23632	broad.mit.edu	37	chr1	150234696	150234696	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagtgaagccacatttgcAgaggtaccagggaacaaaga	17	5	11	8	0	0	3	0	1	0	2	0	4	0	4	2	2	5	2	2	2	5	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:150234696A>C	uc001etx.2	+	4	705	c.396A>C	c.(394-396)GCA>GCC	p.A132A		NM_012113	NP_036245	Q9ULX7	CAH14_HUMAN	carbonic anhydrase XIV precursor	132	Extracellular (Potential).					integral to membrane	carbonate dehydratase activity|metal ion binding			ovary(1)	1	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			CCACATTTGCAGAGGTACCAG	0.542													54	87					0	0	0.00361	0	0		C	150234696	C	C	150234696	2	2	13	1	0	0	0	0	0	0	0	1	2518	175	7	5		5	CA14	1	150234696	Silent	SNP	A	TCGA-BR-4267-01A-01D-1126-08	64111040	150234696	99015925	7	10675											
CLK2	1196	broad.mit.edu	37	chr1	155235680	155235680	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttgtaggtgagctcatagtCtgaattcacaaacagaatat	14	12	9	6	0	3	3	2	2	1	1	3	3	3	3	0	1	2	3	0	1	6	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:155235680C>G	uc001fjy.2	-	8	1194	c.904G>C	c.(904-906)GAC>CAC	p.D302H	RAG1AP1_uc010pey.1_Intron|CLK2_uc001fjw.2_Missense_Mutation_p.D301H|CLK2_uc001fjx.2_Missense_Mutation_p.D74H|CLK2_uc009wqm.2_Missense_Mutation_p.D302H	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	302	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			AGCTCATAGTCTGAATTCACA	0.517								Other_conserved_DNA_damage_response_genes					41	141					0	0	0.00361	0	0		G	155235680	G	G	155235680	3	3	13	1	0	0	0	0	1	0	0	0	3540	913	32	5	619	5	CLK2	1	155235680	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	5000984	155235680	94014941	8	10676											
KIRREL	55243	broad.mit.edu	37	chr1	158064804	158064804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcggaccccatatgaggCgtatgaccccattggcaagt	10	7	13	11	2	0	2	0	2	0	0	0	4	0	4	4	4	1	2	4	4	3	3			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:158064804C>T	uc001frn.3	+	15	2572	c.2168C>T	c.(2167-2169)GCG>GTG	p.A723V	KIRREL_uc010pib.1_Missense_Mutation_p.A623V|KIRREL_uc009wsq.2_Missense_Mutation_p.A559V|KIRREL_uc001fro.3_Missense_Mutation_p.A537V|uc001frp.2_5'Flank	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	723	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					CCATATGAGGCGTATGACCCC	0.632													8	12					0	0	0.00308	0	0		T	158064804	T	T	158064804	3	4	13	1	0	0	0	0	1	0	0	0	8340	768	27	1	2226	1	KIRREL	1	158064804	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	2829124	158064804	91185817	9	10677											
CD1C	911	broad.mit.edu	37	chr1	158261887	158261887	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctccagatccctttgaagtAcaggtgaaagcgggctgtga	10	9	12	10	1	0	4	0	3	0	1	2	4	2	4	3	2	2	2	3	2	3	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:158261887A>G	uc001fru.2	+	3	634	c.342A>G	c.(340-342)GTA>GTG	p.V114V	CD1C_uc001frv.2_5'UTR	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	114	Extracellular (Potential).				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					CCTTTGAAGTACAGGTGAAAG	0.418													35	97					0	0	0.005524	0	0		G	158261887	G	G	158261887	2	3	13	1	0	0	0	0	0	0	0	1	2979	378	14	3		3	CD1C	1	158261887	Silent	SNP	A	TCGA-BR-4267-01A-01D-1126-08	197083	158261887	90988734	10	10678											
DARC	2532	broad.mit.edu	37	chr1	159176045	159176045	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaggtccaagctgttgctGttgtcaacatgtctggccca	7	12	12	10	0	2	1	1	1	1	0	3	1	3	1	2	2	3	4	2	2	2	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:159176045G>T	uc001fto.2	+	2	1056	c.816G>T	c.(814-816)CTG>CTT	p.L272L	DARC_uc001ftp.3_Silent_p.L274L	NM_002036	NP_002027	Q16570	DUFFY_HUMAN	Duffy blood group antigen isoform b	272	Extracellular (Potential).				defense response	integral to membrane|plasma membrane	C-C chemokine binding|chemokine receptor activity			ovary(1)|lung(1)	2	all_hematologic(112;0.0429)					AGCTGTTGCTGTTGTCAACAT	0.577													54	141					5.39261e-20	6.18824e-20	0.00361	1	0		T	159176045	T	T	159176045	2	4	13	1	0	0	0	0	0	0	0	1	4243	1364	48	5		5	DARC	1	159176045	Silent	SNP	G	TCGA-BR-4267-01A-01D-1126-08	914158	159176045	90074576	11	10679											
RNPEP	6051	broad.mit.edu	37	chr1	201965357	201965357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagaagaatttttggcaacaGgagagaagctttttggacct	13	12	11	5	0	0	3	0	0	0	3	0	6	0	5	1	3	2	2	1	3	5	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:201965357G>A	uc001gxd.2	+	4	849	c.820G>A	c.(820-822)GGA>AGA	p.G274R	RNPEP_uc001gxe.2_5'UTR|RNPEP_uc001gxf.2_Missense_Mutation_p.G143R	NM_020216	NP_064601	Q9H4A4	AMPB_HUMAN	arginyl aminopeptidase	274					leukotriene biosynthetic process		epoxide hydrolase activity|zinc ion binding			upper_aerodigestive_tract(1)	1				KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|Colorectal(1306;0.005)		TTTGGCAACAGGAGAGAAGCT	0.488													58	186					0	0	0.00361	0	0		A	201965357	A	A	201965357	3	1	13	1	0	0	0	0	1	0	0	0	13534	1001	35	4	834	4	RNPEP	1	201965357	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	42789312	201965357	47285264	12	10680											
NLRP3	114548	broad.mit.edu	37	chr1	247587525	247587525	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactatctgttctatatccaCtgtcgagaggtgagccttgt	8	14	10	9	1	2	2	0	1	2	1	4	4	3	2	2	1	1	1	2	1	3	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr1:247587525C>T	uc001icr.2	+	5	918	c.780C>T	c.(778-780)CAC>CAT	p.H260H	NLRP3_uc001ics.2_Silent_p.H260H|NLRP3_uc001icu.2_Silent_p.H260H|NLRP3_uc001icw.2_Silent_p.H260H|NLRP3_uc001icv.2_Silent_p.H260H|NLRP3_uc010pyw.1_Silent_p.H258H|NLRP3_uc001ict.1_Silent_p.H258H	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	260	NACHT.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			TCTATATCCACTGTCGAGAGG	0.547													5	124					0	0	0.000602	0	0		T	247587525	T	T	247587525	2	4	13	1	0	0	0	0	0	0	0	1	10497	564	20	4		4	NLRP3	1	247587525	Silent	SNP	C	TCGA-BR-4267-01A-01D-1126-08	45622168	247587525	1663096	13	10681											
RRM2	6241	broad.mit.edu	37	chr2	10263605	10263605	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccccatcgagtaccatgAtatctggcagatgtataaga	12	11	8	10	1	1	3	0	1	1	2	3	4	2	3	3	1	1	3	3	1	4	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr2:10263605A>G	uc002rah.2	+	3	457	c.266A>G	c.(265-267)GAT>GGT	p.D89G		NM_001034	NP_001025	P31350	RIR2_HUMAN	ribonucleotide reductase M2 polypeptide isoform	89					deoxyribonucleoside diphosphate metabolic process|deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol	ribonucleoside-diphosphate reductase activity|transition metal ion binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.188)|OV - Ovarian serous cystadenocarcinoma(76;0.221)		GAGTACCATGATATCTGGCAG	0.582													3	57					0	0	0.004672	0	0		G	10263605	G	G	10263605	3	3	13	1	0	0	0	0	1	0	0	0	13707	333	12	3	456	3	RRM2	2	10263605	Missense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08		10263605	232935768	14	10682											
KCNG3	170850	broad.mit.edu	37	chr2	42671708	42671708	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaccaacctatgcagataGcttcaattatcctgtcaaga	14	11	6	10	0	2	3	2	1	0	2	3	3	3	3	3	0	4	2	3	0	7	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr2:42671708G>C	uc002rsn.2	-	2	1273	c.677C>G	c.(676-678)GCT>GGT	p.A226G	KCNG3_uc002rsm.2_Missense_Mutation_p.A215G	NM_133329	NP_579875	Q8TAE7	KCNG3_HUMAN	potassium voltage-gated channel, subfamily G,	226	Helical; Name=Segment S2; (Potential).					endoplasmic reticulum|voltage-gated potassium channel complex	protein binding			central_nervous_system(1)	1						TATGCAGATAGCTTCAATTAT	0.358													50	86					0	0	0.00361	0	0		C	42671708	C	C	42671708	3	2	13	1	0	0	0	0	1	0	0	0	8045	971	34	5	637	5	KCNG3	2	42671708	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	32408103	42671708	200527665	15	10683											
NEB	4703	broad.mit.edu	37	chr2	152581987	152581987	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcactgagttgatcttgtaCttttttgattctgcgaagtt	7	19	8	7	1	3	3	1	3	2	0	3	4	3	3	0	0	2	3	0	0	2	8			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr2:152581987C>G	uc010fnx.2	-	6	573	c.382G>C	c.(382-384)GTA>CTA	p.V128L		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	128	Nebulin 2.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGATCTTGTACTTTTTTGATT	0.398													36	95					0	0	0.00874	0	0		G	152581987	G	G	152581987	3	3	13	1	0	0	0	0	1	0	0	0	10321	565	20	5	26012	5	NEB	2	152581987	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	109910279	152581987	90617386	16	10684											
ZDBF2	57683	broad.mit.edu	37	chr2	207175935	207175935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatcattagaaagtatatttCgaaatactctgtctttttac	13	18	4	6	1	3	1	1	0	2	1	4	2	3	1	0	0	2	1	0	0	8	9			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr2:207175935C>T	uc002vbp.2	+	5	6933	c.6683C>T	c.(6682-6684)TCG>TTG	p.S2228L		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	2228							nucleic acid binding|zinc ion binding			ovary(3)	3						AAGTATATTTCGAAATACTCT	0.358													11	26					0	0	0.001368	0	0		T	207175935	T	T	207175935	3	4	13	1	0	0	0	0	1	0	0	0	17624	893	31	1	6693	1	ZDBF2	2	207175935	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	54593948	207175935	36023438	17	10685											
CPS1	1373	broad.mit.edu	37	chr2	211507237	211507237	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatttgattggtgtgctGtctctagtatccgcacactg	7	15	11	8	1	1	1	0	1	1	0	3	2	2	2	1	2	1	3	1	2	3	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr2:211507237G>T	uc002vee.3	+	25	3121	c.2989G>T	c.(2989-2991)GTC>TTC	p.V997F	CPS1_uc010fur.2_Missense_Mutation_p.V1003F|CPS1_uc010fus.2_Missense_Mutation_p.V546F	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	997					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		TTGGTGTGCTGTCTCTAGTAT	0.453													26	52					5.61819e-17	6.39469e-17	0.005443	1	0		T	211507237	T	T	211507237	3	4	13	1	0	0	0	0	1	0	0	0	3826	1377	48	5	3109	5	CPS1	2	211507237	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	4331302	211507237	31692136	18	10686											
GOLGA4	2803	broad.mit.edu	37	chr3	37368748	37368748	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggcaaagcaacatgaagatCaaagtatgataggtcatctt	17	9	9	6	0	3	3	2	2	1	1	3	3	3	3	0	2	2	3	0	2	6	3			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr3:37368748C>G	uc003cgv.2	+	14	5675	c.5371C>G	c.(5371-5373)CAA>GAA	p.Q1791E	GOLGA4_uc010hgr.1_Missense_Mutation_p.Q1352E|GOLGA4_uc003cgw.2_Missense_Mutation_p.Q1813E|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.Q1672E	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1791	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						ACATGAAGATCAAAGTATGAT	0.373													48	98					0	0	0.00361	0	0		G	37368748	G	G	37368748	3	3	13	1	0	0	0	0	1	0	0	0	6570	827	29	5	5495	5	GOLGA4	3	37368748	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08		37368748	160653682	19	10687											
VPRBP	9730	broad.mit.edu	37	chr3	51458366	51458366	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgggccacacacacaattGatgataatctgaagtgctga	13	10	9	9	0	2	4	0	4	2	0	2	4	2	4	1	1	1	1	1	1	3	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr3:51458366G>A	uc003dbe.1	-	14	2226	c.2058C>T	c.(2056-2058)ATC>ATT	p.I686I	VPRBP_uc003dbf.1_5'UTR	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	686					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		ACACACAATTGATGATAATCT	0.423													88	125					0	0	0.00361	0	0		A	51458366	A	A	51458366	2	1	13	1	0	0	0	0	0	0	0	1	17211	1280	45	4		4	VPRBP	3	51458366	Silent	SNP	G	TCGA-BR-4267-01A-01D-1126-08	14089618	51458366	146564064	20	10688											
ARAP2	116984	broad.mit.edu	37	chr4	36189098	36189098	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttctactctaaaaacaaaAgttctttgtgttgtaacaac	14	16	4	7	0	3	0	0	0	3	0	3	0	3	0	0	0	4	3	0	0	8	8			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr4:36189098A>C	uc003gsq.1	-	8	1991	c.1653T>G	c.(1651-1653)ACT>ACG	p.T551T	ARAP2_uc003gsr.1_Silent_p.T551T	NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	551	PH 1.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TAAAAACAAAAGTTCTTTGTG	0.299													3	32					0	0	0.004672	0	0		C	36189098	C	C	36189098	2	2	13	1	0	0	0	0	0	0	0	1	839	59	3	5		5	ARAP2	4	36189098	Silent	SNP	A	TCGA-BR-4267-01A-01D-1126-08		36189098	154965178	21	10689											
SLC6A18	348932	broad.mit.edu	37	chr5	1243688	1243688	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtgcctcgggcccgggcCtggccttcgtcgtcttcacg	3	9	14	15	5	2	1	1	0	1	1	5	1	2	1	4	3	1	0	4	3	0	2	rs150034651		TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr5:1243688C>G	uc003jby.1	+	9	1273	c.1150C>G	c.(1150-1152)CTG>GTG	p.L384V		NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18	384	Extracellular (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GGGCCCGGGCCTGGCCTTCGT	0.647													15	24					0	0	0.00245	0	0		G	1243688	G	G	1243688	3	3	13	1	0	0	0	0	1	0	0	0	14706	680	24	5	1184	5	SLC6A18	5	1243688	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08		1243688	179671572	22	10690											
MARCH6	10299	broad.mit.edu	37	chr5	10411480	10411480	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttattgggagaccaggaagAaaatgaaaacagtgcaaatc	18	8	10	5	0	0	3	0	1	0	2	1	5	0	4	1	2	2	1	1	2	7	3			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr5:10411480A>T	uc003jet.1	+	19	1910	c.1727A>T	c.(1726-1728)GAA>GTA	p.E576V	MARCH6_uc011cmu.1_Missense_Mutation_p.E528V|MARCH6_uc003jeu.1_Missense_Mutation_p.E274V|MARCH6_uc011cmv.1_Missense_Mutation_p.E471V	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	576	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						GACCAGGAAGAAAATGAAAAC	0.403													18	72					0	0	0.001882	0	0		T	10411480	T	T	10411480	3	4	13	1	0	0	0	0	1	0	0	0	9323	246	9	5	1801	5	MARCH6	5	10411480	Missense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08	9167792	10411480	170503780	23	10691											
RAB3C	115827	broad.mit.edu	37	chr5	58021913	58021913	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttattttaatgtatgacattAcaaatgaagaatccttcaat	16	16	4	5	0	1	3	1	2	0	1	2	3	2	3	1	0	1	1	1	0	8	6			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr5:58021913A>T	uc003jrp.2	+	3	434	c.337A>T	c.(337-339)ACA>TCA	p.T113S		NM_138453	NP_612462	Q96E17	RAB3C_HUMAN	RAB3C, member RAS oncogene family	113					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)|central_nervous_system(1)	2		all_cancers(5;9.93e-10)|all_epithelial(5;1.49e-10)|all_lung(5;8.97e-05)|Lung NSC(5;0.000139)|Prostate(74;0.0664)		OV - Ovarian serous cystadenocarcinoma(10;1.8e-34)		GTATGACATTACAAATGAAGA	0.383													44	91					0	0	0.00874	0	0		T	58021913	T	T	58021913	3	4	13	1	0	0	0	0	1	0	0	0	12958	391	14	5	347	5	RAB3C	5	58021913	Missense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08	47610433	58021913	122893347	24	10692											
CMYA5	202333	broad.mit.edu	37	chr5	79034978	79034978	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttgagcacatcagtgaaAatgaatttgcgagtgaggca	13	10	11	7	1	1	4	1	4	0	0	1	5	1	4	1	1	2	2	1	1	3	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr5:79034978A>C	uc003kgc.2	+	2	10462	c.10390A>C	c.(10390-10392)AAT>CAT	p.N3464H		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3464						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CATCAGTGAAAATGAATTTGC	0.413													24	44					0	0	0.002299	0	0		C	79034978	C	C	79034978	3	2	13	1	0	0	0	0	1	0	0	0	3593	14	1	5	10396	5	CMYA5	5	79034978	Missense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08	21013065	79034978	101880282	25	10693											
VCAN	1462	broad.mit.edu	37	chr5	82876239	82876239	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gttggagccggaggtggcagGagtcgaggcgctgatcccta	7	7	18	9	3	0	1	0	1	0	0	2	5	1	4	2	6	1	3	2	6	1	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr5:82876239G>C	uc003kii.3	+	15	10533	c.10177G>C	c.(10177-10179)GAG>CAG	p.E3393Q	VCAN_uc003kij.3_Missense_Mutation_p.E2406Q|VCAN_uc010jau.2_Missense_Mutation_p.E1639Q|VCAN_uc003kik.3_Missense_Mutation_p.E652Q|VCAN_uc003kil.3_Missense_Mutation_p.E2057Q	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3393					cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GAGGTGGCAGGAGTCGAGGCG	0.408													17	25					0	0	0.007413	0	0		C	82876239	C	C	82876239	3	2	13	1	0	0	0	0	1	0	0	0	17164	1175	41	5	10231	5	VCAN	5	82876239	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	3841261	82876239	98039021	26	10694											
ELL2	22936	broad.mit.edu	37	chr5	95278749	95278749	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaaggtcgaaaaggaattAaattctattaaaagaaacaa	21	10	7	3	1	1	2	0	1	1	1	2	4	1	3	0	2	1	0	0	2	11	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr5:95278749A>T	uc003klr.3	-	2	502	c.152T>A	c.(151-153)TTA>TAA	p.L51*		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	51					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		AAAAGGAATTAAATTCTATTA	0.308													16	26					0	0	0.006122	0	0		T	95278749	T	T	95278749	4	4	13	1	0	0	0	0	0	1	0	0	5071	372	13	5	1814	5	ELL2	5	95278749	Nonsense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08	12402510	95278749	85636511	27	10695											
APC	324	broad.mit.edu	37	chr5	112174631	112174631	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaatggttcagaaacaaatCgagtgggttctaatcatgga	14	10	10	7	1	3	1	2	0	1	1	4	3	3	2	1	3	1	2	1	3	4	3	rs121913331		TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr5:112174631C>T	uc010jby.2	+	16	3720	c.3340C>T	c.(3340-3342)CGA>TGA	p.R1114*	APC_uc011cvt.1_Nonsense_Mutation_p.R1096*|APC_uc003kpz.3_Nonsense_Mutation_p.R1114*|APC_uc003kpy.3_Nonsense_Mutation_p.R1114*|APC_uc010jbz.2_Nonsense_Mutation_p.R831*|APC_uc010jca.2_Nonsense_Mutation_p.R414*	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1114	Ser-rich.|Responsible for down-regulation through a process mediated by direct ubiquitination.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.R1114*(22)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		AGAAACAAATCGAGTGGGTTC	0.403	R1114*(SW948_LARGE_INTESTINE)|R1114*(LOVO_LARGE_INTESTINE)	12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			24	28					0	0	0.004656	0	0		T	112174631	T	T	112174631	4	4	13	1	0	0	0	0	0	1	0	0	763	876	31	1	3398	1	APC	5	112174631	Nonsense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	16895882	112174631	68740629	28	10696											
PCDHB8	56128	broad.mit.edu	37	chr5	140558485	140558485	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagcttcagatgagataagCaaaacttttaaggtcgattt	15	12	8	6	1	1	2	1	1	0	2	2	4	1	2	0	1	3	2	0	1	5	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr5:140558485C>G	uc011dai.1	+	1	1056	c.870C>G	c.(868-870)AGC>AGG	p.S290R	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	290	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATGAGATAAGCAAAACTTTTA	0.403													43	75					0	0	0.007835	0	0		G	140558485	G	G	140558485	3	3	13	1	0	0	0	0	1	0	0	0	11567	709	25	5	872	5	PCDHB8	5	140558485	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	28383854	140558485	40356775	29	10697											
HRH2	3274	broad.mit.edu	37	chr5	175110463	175110463	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctggtgctgcccttctctgCcatctaccagctgtcctgca	4	12	8	17	0	2	0	0	0	2	0	4	0	3	0	5	1	6	3	5	1	1	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr5:175110463C>A	uc003mdd.2	+	1	2000	c.227C>A	c.(226-228)GCC>GAC	p.A76D	HRH2_uc003mdc.3_Missense_Mutation_p.A76D	NM_022304	NP_071640	P25021	HRH2_HUMAN	histamine receptor H2 isoform 2	76	Helical; Name=2; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|immune response	integral to plasma membrane	histamine receptor activity			ovary(1)	1	all_cancers(89;0.00805)|Renal(175;0.000269)|Lung NSC(126;0.00419)|all_lung(126;0.00711)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Colorectal(1;0.0154)|COAD - Colon adenocarcinoma(1;0.149)	Betazole(DB00272)|Cimetidine(DB00501)|Doxepin(DB01142)|Epinastine(DB00751)|Famotidine(DB00927)|Histamine Phosphate(DB00667)|Nizatidine(DB00585)|Ranitidine(DB00863)	CCCTTCTCTGCCATCTACCAG	0.557													21	75					3.01185e-09	3.32015e-09	0.003954	1	0		A	175110463	A	A	175110463	3	1	13	1	0	0	0	0	1	0	0	0	7372	739	26	5	229	5	HRH2	5	175110463	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	34551978	175110463	5804797	30	10698											
CDYL	9425	broad.mit.edu	37	chr6	4935819	4935819	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagacatctgttacaggagtGactgccagcaaaaggaaatt	15	8	10	8	0	1	2	0	1	1	1	1	4	1	4	1	2	3	2	1	2	4	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr6:4935819G>C	uc003mwi.2	+	5	1055	c.924G>C	c.(922-924)GTG>GTC	p.V308V	CDYL_uc003mwj.2_Silent_p.V254V|CDYL_uc003mwk.2_Silent_p.V19V|CDYL_uc011dhx.1_Silent_p.V122V|CDYL_uc011dhy.1_Silent_p.V122V	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	308					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		TTACAGGAGTGACTGCCAGCA	0.453													49	112					0	0	0.00361	0	0		C	4935819	C	C	4935819	2	2	13	1	0	0	0	0	0	0	0	1	3188	1277	45	5		5	CDYL	6	4935819	Silent	SNP	G	TCGA-BR-4267-01A-01D-1126-08		4935819	166179248	31	10699											
CDKAL1	54901	broad.mit.edu	37	chr6	20846367	20846367	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaggaaatttggccagttatCcaattgatgaactagtagat	14	12	10	5	0	0	3	0	2	0	1	1	5	1	4	2	2	1	2	2	2	6	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr6:20846367C>G	uc003ndc.1	+	9	874	c.700C>G	c.(700-702)CCA>GCA	p.P234A	CDKAL1_uc003ndd.1_Missense_Mutation_p.P234A|CDKAL1_uc003nde.1_Missense_Mutation_p.P164A	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	234					RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			GGCCAGTTATCCAATTGATGA	0.318													46	55					0	0	0.00361	0	0		G	20846367	G	G	20846367	3	3	13	1	0	0	0	0	1	0	0	0	3155	855	30	5	726	5	CDKAL1	6	20846367	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	15910548	20846367	150268700	32	10700											
OR2J2	26707	broad.mit.edu	37	chr6	29141694	29141694	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccggaaaagaccatctcGtatgctggttgcatggttca	9	10	12	10	2	2	1	1	0	1	1	3	2	2	2	2	4	2	5	2	4	3	3			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr6:29141694G>A	uc011dlm.1	+	1	384	c.282G>A	c.(280-282)TCG>TCA	p.S94S		NM_030905	NP_112167	O76002	OR2J2_HUMAN	olfactory receptor, family 2, subfamily J,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGACCATCTCGTATGCTGGTT	0.473													49	159					0	0	0.00361	0	0		A	29141694	A	A	29141694	2	1	13	1	0	0	0	0	0	0	0	1	11022	1132	40	1		1	OR2J2	6	29141694	Silent	SNP	G	TCGA-BR-4267-01A-01D-1126-08	8295327	29141694	141973373	33	10701											
GSTA5	221357	broad.mit.edu	37	chr6	52701078	52701078	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccataaaggttgtatttgctGgcaatgtagttaagaatggc	12	13	11	5	0	0	1	0	0	0	1	0	1	0	1	1	3	1	6	1	3	7	6			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr6:52701078G>C	uc003pba.1	-	4	298	c.228C>G	c.(226-228)GCC>GCG	p.A76A		NM_153699	NP_714543	Q7RTV2	GSTA5_HUMAN	glutathione S-transferase alpha 5	76	GST N-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.0912)				Glutathione(DB00143)	TGTATTTGCTGGCAATGTAGT	0.433													51	204					0	0	0.00361	0	0		C	52701078	C	C	52701078	2	2	13	1	0	0	0	0	0	0	0	1	6850	1335	47	5		5	GSTA5	6	52701078	Silent	SNP	G	TCGA-BR-4267-01A-01D-1126-08	23559384	52701078	118413989	34	10702											
MED23	9439	broad.mit.edu	37	chr6	131914216	131914216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaaggccatgagctccaCacaagtaacatggagagcat	14	6	10	11	0	0	2	0	1	0	1	1	3	1	2	3	2	4	3	3	2	3	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr6:131914216C>T	uc003qcs.1	-	24	3502	c.3328G>A	c.(3328-3330)GTG>ATG	p.V1110M	MED23_uc003qcq.2_Missense_Mutation_p.V1116M|MED23_uc003qcr.1_Translation_Start_Site	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	1110					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		ATGAGCTCCACACAAGTAACA	0.468													36	22					0	0	0.004878	0	0		T	131914216	T	T	131914216	3	4	13	1	0	0	0	0	1	0	0	0	9459	478	17	4	809	4	MED23	6	131914216	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	79213138	131914216	39200851	35	10703											
FBXO24	26261	broad.mit.edu	37	chr7	100192033	100192033	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagatctactctttggtagTgaatgagacccagcttgacc	12	11	9	9	0	2	4	0	3	2	2	2	5	2	4	2	1	2	2	2	1	4	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr7:100192033T>C	uc003uvm.1	+	6	1114	c.821T>C	c.(820-822)GTG>GCG	p.V274A	FBXO24_uc003uvl.1_Missense_Mutation_p.V260A|FBXO24_uc003uvn.1_5'UTR|uc011kjy.1_Intron|FBXO24_uc011kjz.1_Missense_Mutation_p.V312A|FBXO24_uc011kka.1_Missense_Mutation_p.V262A	NM_033506	NP_277041	O75426	FBX24_HUMAN	F-box only protein 24 isoform 1	274						ubiquitin ligase complex	ubiquitin-protein ligase activity			ovary(3)|skin(1)	4	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					TCTTTGGTAGTGAATGAGACC	0.547													23	44					0	0	0.00278	0	0		C	100192033	C	C	100192033	3	2	13	1	0	0	0	0	1	0	0	0	5749	1696	59	3	1000	3	FBXO24	7	100192033	Missense_Mutation	SNP	T	TCGA-BR-4267-01A-01D-1126-08		100192033	58946630	36	10704											
MUC17	140453	broad.mit.edu	37	chr7	100686417	100686417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgacacaagcacaacttttaCcccttctactgacactgcct	11	11	4	15	0	1	2	0	2	1	0	1	2	1	2	3	0	5	1	3	0	4	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr7:100686417C>T	uc003uxp.1	+	3	11773	c.11720C>T	c.(11719-11721)ACC>ATC	p.T3907I	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3907	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ACAACTTTTACCCCTTCTACT	0.483													40	78					0	0	0.00623	0	0		T	100686417	T	T	100686417	3	4	13	1	0	0	0	0	1	0	0	0	9992	507	18	4	11730	4	MUC17	7	100686417	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	494384	100686417	58452246	37	10705											
GPR37	2861	broad.mit.edu	37	chr7	124386683	124386683	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgttgtcattgtcatcacTggtcaccgttgaagacttct	7	15	8	11	2	5	2	4	1	1	1	6	2	5	2	1	1	0	2	1	1	1	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr7:124386683T>G	uc003vli.2	-	2	2389	c.1738A>C	c.(1738-1740)AGT>CGT	p.S580R		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	580	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						TTGTCATCACTGGTCACCGTT	0.498													35	103					0	0	0.004289	0	0		G	124386683	G	G	124386683	3	3	13	1	0	0	0	0	1	0	0	0	6706	1580	55	5	107	5	GPR37	7	124386683	Missense_Mutation	SNP	T	TCGA-BR-4267-01A-01D-1126-08	23700266	124386683	34751980	38	10706											
TEX15	56154	broad.mit.edu	37	chr8	30699691	30699691	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttattgttattttccccAggttttacaatatgaatatt	12	20	4	5	0	0	1	0	1	0	0	1	1	1	1	2	1	1	2	2	1	8	11			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr8:30699691A>T	uc003xil.2	-	1	6843	c.6843T>A	c.(6841-6843)CCT>CCA	p.P2281P		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2281										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TATTTTCCCCAGGTTTTACAA	0.328													19	38					0	0	0.007413	0	0		T	30699691	T	T	30699691	2	4	13	1	0	0	0	0	0	0	0	1	15804	175	7	5		5	TEX15	8	30699691	Silent	SNP	A	TCGA-BR-4267-01A-01D-1126-08		30699691	115664331	39	10707											
OSR2	116039	broad.mit.edu	37	chr8	99961741	99961741	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttaccaaatcctacaatttGctcatccatgagaggaccca	13	11	5	12	0	1	1	1	1	0	1	3	3	3	2	4	1	3	1	4	1	4	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr8:99961741G>A	uc003yir.2	+	2	1096	c.561G>A	c.(559-561)TTG>TTA	p.L187L	OSR2_uc010mbn.2_Silent_p.L187L|OSR2_uc003yiq.2_Silent_p.L187L|OSR2_uc011lgx.1_Silent_p.L308L	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	187	C2H2-type 1.				bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding			central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			CCTACAATTTGCTCATCCATG	0.527													52	137					0	0	0.00361	0	0		A	99961741	A	A	99961741	2	1	13	1	0	0	0	0	0	0	0	1	11313	1310	46	2		2	OSR2	8	99961741	Silent	SNP	G	TCGA-BR-4267-01A-01D-1126-08	69262050	99961741	46402281	40	10708											
ADCY8	114	broad.mit.edu	37	chr8	132052171	132052171	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaaagaaatccgagttgcTaggggcacagtcaaggtgca	15	6	13	7	1	1	2	1	0	0	2	2	3	2	2	1	3	2	4	1	3	5	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr8:132052171T>G	uc003ytd.3	-	1	665	c.409A>C	c.(409-411)AGC>CGC	p.S137R	ADCY8_uc010mds.2_Missense_Mutation_p.S137R	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	137	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TCCGAGTTGCTAGGGGCACAG	0.607										HNSCC(32;0.087)			4	17					0	0	0.009096	0	0		G	132052171	G	G	132052171	3	3	13	1	0	0	0	0	1	0	0	0	300	1522	53	5	3418	5	ADCY8	8	132052171	Missense_Mutation	SNP	T	TCGA-BR-4267-01A-01D-1126-08	32090430	132052171	14311851	41	10709											
KLHL9	55958	broad.mit.edu	37	chr9	21334270	21334270	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaagcacaaatgcaagtcGttcaaaagggagttttagaa	17	8	11	5	1	1	1	1	0	0	1	2	3	1	3	0	2	2	4	0	2	7	3			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr9:21334270G>A	uc003zoy.2	-	1	1160	c.589C>T	c.(589-591)CGA>TGA	p.R197*	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	197	BACK.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		AATGCAAGTCGTTCAAAAGGG	0.398													4	95					0	0	0.000602	0	0		A	21334270	A	A	21334270	4	1	13	1	0	0	0	0	0	1	0	0	8412	1153	40	1	1268	1	KLHL9	9	21334270	Nonsense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08		21334270	119879161	42	10710											
ALAD	210	broad.mit.edu	37	chr9	116151266	116151266	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgcctacctgctctgcGgaaggcagtcatggcctcca	6	9	11	15	1	2	0	1	0	1	0	3	1	3	1	5	3	5	2	5	3	2	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr9:116151266G>T	uc011lxf.1	-	11	1124	c.922C>A	c.(922-924)CGC>AGC	p.R308S	ALAD_uc011lxe.1_Missense_Mutation_p.R291S|ALAD_uc004bhl.3_Missense_Mutation_p.R337S	NM_000031	NP_000022	P13716	HEM2_HUMAN	delta-aminolevulinic acid dehydratase	308					heme biosynthetic process|protein homooligomerization	cytosol	identical protein binding|lead ion binding|porphobilinogen synthase activity|zinc ion binding				0					Aminolevulinic acid(DB00855)	CCTGCTCTGCGGAAGGCAGTC	0.597													6	32					2.0095e-06	2.18085e-06	0.001984	1	0		T	116151266	T	T	116151266	3	4	13	1	0	0	0	0	1	0	0	0	483	1116	39	5	78	5	ALAD	9	116151266	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	94816996	116151266	25062165	43	10711											
TNFSF15	9966	broad.mit.edu	37	chr9	117568086	117568086	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agtgccatgtggcttacctgGaactgcacacaggcctctcc	8	9	10	14	0	1	0	0	0	1	0	2	1	1	1	4	3	4	2	4	3	2	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr9:117568086G>C	uc004bjh.2	-	1	323	c.207C>G	c.(205-207)TTC>TTG	p.F69L		NM_005118	NP_005109	O95150	TNF15_HUMAN	tumor necrosis factor (ligand) superfamily,	69	Extracellular (Potential).				activation of caspase activity|activation of NF-kappaB-inducing kinase activity|cytokine metabolic process|immune response	extracellular space|integral to plasma membrane	cytokine activity|tumor necrosis factor receptor binding				0						GGCTTACCTGGAACTGCACAC	0.572													15	13					0	0	0.007413	0	0		C	117568086	C	C	117568086	3	2	13	1	0	0	0	0	1	0	0	0	16333	1165	41	5	564	5	TNFSF15	9	117568086	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	1416820	117568086	23645345	44	10712											
ZNF33A	7581	broad.mit.edu	37	chr10	38305806	38305806	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatgtttcaggtagaacAgaagtcccaggagtcagtat	13	10	11	7	0	2	3	2	1	0	2	3	4	3	4	1	2	1	3	1	2	5	3			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr10:38305806A>G	uc001izh.2	+	3	195	c.17A>G	c.(16-18)CAG>CGG	p.Q6R	ZNF33A_uc001izg.2_Missense_Mutation_p.Q6R|ZNF33A_uc010qev.1_Missense_Mutation_p.Q13R|ZNF33A_uc001izi.1_Missense_Mutation_p.Q6R|ZNF33A_uc001izj.2_RNA	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	6						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						CAGGTAGAACAGAAGTCCCAG	0.413													6	65					0	0	0.001168	0	0		G	38305806	G	G	38305806	3	3	13	1	0	0	0	0	1	0	0	0	17879	188	7	3	23	3	ZNF33A	10	38305806	Missense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08		38305806	97228941	45	10713											
AGAP6	414189	broad.mit.edu	37	chr10	51768695	51768695	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagaggaaagccccggaGaatcatgctgacaccatcgg	15	4	12	10	2	1	3	1	1	0	2	2	6	1	4	3	3	2	1	3	3	3	0			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr10:51768695G>T	uc001jix.3	+	8	1208	c.810G>T	c.(808-810)GAG>GAT	p.E270D		NM_001077665	NP_001071133	Q5VW22	AGAP6_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	270					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			skin(1)	1						AAGCCCCGGAGAATCATGCTG	0.522													113	167					7.97229e-56	9.301e-56	0.00361	1	0		T	51768695	T	T	51768695	3	4	13	1	0	0	0	0	1	0	0	0	372	933	33	5	840	5	AGAP6	10	51768695	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	13462889	51768695	83766052	46	10714											
IFIT1B	439996	broad.mit.edu	37	chr10	91143104	91143104	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgatggaaagcttattgaaGacagcctgattcagctgaga	13	10	11	7	0	1	5	1	4	0	2	1	7	1	6	1	1	3	2	1	1	3	3			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr10:91143104G>C	uc001kgh.2	+	2	114	c.34G>C	c.(34-36)GAC>CAC	p.D12H	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron	NM_001010987	NP_001010987	Q5T764	IFT1B_HUMAN	interferon-induced protein with	12							binding				0						GCTTATTGAAGACAGCCTGAT	0.373													27	53					0	0	0.002096	0	0		C	91143104	C	C	91143104	3	2	13	1	0	0	0	0	1	0	0	0	7538	942	33	5	40	5	IFIT1B	10	91143104	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	39374409	91143104	44391643	47	10715											
B4GALNT4	338707	broad.mit.edu	37	chr11	379952	379952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactcgcgtttcagcgtcGtcctggtggatttcgagagc	5	11	15	10	5	1	1	1	0	0	1	5	4	2	3	1	3	2	1	1	3	0	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr11:379952G>A	uc001lpb.2	+	16	2584	c.2575G>A	c.(2575-2577)GTC>ATC	p.V859I		NM_178537	NP_848632	Q76KP1	B4GN4_HUMAN	beta	859	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			pancreas(1)	1		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TTTCAGCGTCGTCCTGGTGGA	0.667													8	19					0	0	0.006214	0	0		A	379952	A	A	379952	3	1	13	1	0	0	0	0	1	0	0	0	1270	1145	40	1	2637	1	B4GALNT4	11	379952	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08		379952	134626564	48	10716											
CDHR5	53841	broad.mit.edu	37	chr11	618098	618098	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgagaagcgcttgtcctcCgaggggccgccacctggcat	7	6	13	15	4	0	1	0	0	0	1	2	3	2	1	6	3	1	2	6	3	1	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr11:618098C>T	uc001lqj.2	-	14	2079	c.1974G>A	c.(1972-1974)TCG>TCA	p.S658S	IRF7_uc009ycb.2_5'Flank|IRF7_uc010qwf.1_5'Flank|IRF7_uc001lqf.2_5'Flank|IRF7_uc010qwg.1_5'Flank|IRF7_uc001lqg.2_5'Flank|IRF7_uc001lqh.2_5'Flank|IRF7_uc001lqi.2_5'Flank|IRF7_uc010qwh.1_5'Flank|CDHR5_uc001lqk.2_Silent_p.S464S|CDHR5_uc009ycc.2_Silent_p.S492S|CDHR5_uc009ycd.2_Silent_p.S652S|CDHR5_uc001lql.2_Silent_p.S658S	NM_021924	NP_068743	Q9HBB8	CDHR5_HUMAN	mucin and cadherin-like isoform 1	658	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						GCTTGTCCTCCGAGGGGCCGC	0.652													10	11					0	0	0.004007	0	0		T	618098	T	T	618098	2	4	13	1	0	0	0	0	0	0	0	1	3125	639	23	1		1	CDHR5	11	618098	Silent	SNP	C	TCGA-BR-4267-01A-01D-1126-08	238146	618098	134388418	49	10717											
TRIM22	10346	broad.mit.edu	37	chr11	5730579	5730579	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attattcaaaagtttactccAgatatagacctcaatatggc	15	13	5	8	0	2	2	2	0	0	2	3	2	3	2	2	1	1	1	2	1	8	7			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr11:5730579A>T	uc001mbr.2	+	8	1475	c.1198A>T	c.(1198-1200)AGA>TGA	p.R400*	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|TRIM22_uc009yes.2_Nonsense_Mutation_p.R396*|TRIM22_uc010qzm.1_Nonsense_Mutation_p.R228*|TRIM22_uc009yeu.2_Nonsense_Mutation_p.R211*|OR56B1_uc001mbs.1_Intron|OR56B1_uc009yev.1_Intron	NM_006074	NP_006065	Q8IYM9	TRI22_HUMAN	tripartite motif-containing 22	400	B30.2/SPRY.				immune response|interspecies interaction between organisms|protein trimerization|response to virus	Cajal body|Golgi apparatus|nuclear speck	ligase activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)		AGTTTACTCCAGATATAGACC	0.383													19	36					0	0	0.009535	0	0		T	5730579	T	T	5730579	4	4	13	1	0	0	0	0	0	1	0	0	16522	180	7	5	1224	5	TRIM22	11	5730579	Nonsense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08	5112481	5730579	129275937	50	10718											
ZNF408	79797	broad.mit.edu	37	chr11	46726634	46726634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcgcaagacccaccaggtgCcagctgcccctgccccttgc	7	6	9	19	1	0	1	0	0	0	1	1	1	0	1	7	1	5	2	7	1	1	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr11:46726634C>T	uc001nde.1	+	5	1614	c.1384C>T	c.(1384-1386)CCA>TCA	p.P462S	ZNF408_uc010rgw.1_Missense_Mutation_p.P454S	NM_024741	NP_079017	Q9H9D4	ZN408_HUMAN	zinc finger protein 408	462					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding				0						CCACCAGGTGCCAGCTGCCCC	0.662													10	22					0	0	0.003163	0	0		T	46726634	T	T	46726634	3	4	13	1	0	0	0	0	1	0	0	0	17913	739	26	2	1434	2	ZNF408	11	46726634	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	40996055	46726634	88279882	51	10719											
NR1H3	10062	broad.mit.edu	37	chr11	47282926	47282926	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agctcagcccggaacaactgGgcatgatcgagaagctcgtc	11	6	12	12	3	1	2	1	1	0	1	4	4	1	3	1	2	5	3	1	2	3	0			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr11:47282926G>T	uc009ylm.2	+	5	855	c.634G>T	c.(634-636)GGC>TGC	p.G212C	NR1H3_uc009yll.1_Missense_Mutation_p.G218C|NR1H3_uc010rhk.1_Missense_Mutation_p.G218C|NR1H3_uc001nek.2_Missense_Mutation_p.G167C|NR1H3_uc001nej.2_Missense_Mutation_p.G212C|NR1H3_uc001nel.2_Missense_Mutation_p.G167C|NR1H3_uc001nen.3_Missense_Mutation_p.G212C|NR1H3_uc001nem.2_Missense_Mutation_p.G212C|NR1H3_uc001nep.2_Missense_Mutation_p.G121C	NM_005693	NP_005684	Q13133	NR1H3_HUMAN	nuclear receptor subfamily 1, group H, member 3	212					apoptotic cell clearance|cellular response to lipopolysaccharide|cholesterol homeostasis|negative regulation of cholesterol storage|negative regulation of inflammatory response|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of macrophage activation|negative regulation of pancreatic juice secretion|negative regulation of pinocytosis|negative regulation of secretion of lysosomal enzymes|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of cholesterol homeostasis|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor biosynthetic process|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of circadian rhythm|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to progesterone stimulus|triglyceride homeostasis	nuclear chromatin|nucleoplasm	cholesterol binding|steroid hormone receptor activity|sterol response element binding|transcription coactivator activity|zinc ion binding			ovary(2)|lung(1)	3						GGAACAACTGGGCATGATCGA	0.617													25	25					2.44723e-14	2.763e-14	0.004656	1	0		T	47282926	T	T	47282926	3	4	13	1	0	0	0	0	1	0	0	0	10637	1232	43	5	648	5	NR1H3	11	47282926	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	556292	47282926	87723590	52	10720											
OR5F1	338674	broad.mit.edu	37	chr11	55761793	55761793	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtcgccagggagataaaGaagtacatctgtaggaagca	14	8	13	6	1	1	2	0	0	1	2	2	4	1	3	1	2	2	4	1	2	6	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr11:55761793G>T	uc010riv.1	-	1	309	c.309C>A	c.(307-309)TTC>TTA	p.F103L		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					GGGAGATAAAGAAGTACATCT	0.458													39	81					7.66079e-34	8.86372e-34	0.002522	1	0		T	55761793	T	T	55761793	3	4	13	1	0	0	0	0	1	0	0	0	11177	933	33	5	638	5	OR5F1	11	55761793	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	8478867	55761793	79244723	53	10721											
SYT7	9066	broad.mit.edu	37	chr11	61300595	61300595	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccttccctcctgcaggcaAcctgagggcaggggagtcca	7	6	13	15	1	0	1	0	1	0	0	3	2	3	2	5	4	2	3	5	4	1	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr11:61300595A>G	uc001nrv.2	-	4	223	c.217T>C	c.(217-219)TTG>CTG	p.L73L	SYT7_uc009ynr.2_Silent_p.L148L	NM_004200	NP_004191	O43581	SYT7_HUMAN	synaptotagmin VII	73	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|pancreas(1)	4						CCTGCAGGCAACCTGAGGGCA	0.662													12	26					0	0	0.001855	0	0		G	61300595	G	G	61300595	2	3	13	1	0	0	0	0	0	0	0	1	15504	57	2	3		3	SYT7	11	61300595	Silent	SNP	A	TCGA-BR-4267-01A-01D-1126-08	5538802	61300595	73705921	54	10722											
KRAS	3845	broad.mit.edu	37	chr12	25398281	25398281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaggcactcttgcctacgCcaccagctccaactaccaca	11	7	5	18	1	2	0	1	0	1	0	3	0	3	0	5	1	5	2	5	1	4	3	rs112445441		TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr12:25398281C>T	uc001rgp.1	-	2	219	c.38G>A	c.(37-39)GGC>GAC	p.G13D	KRAS_uc001rgq.1_Missense_Mutation_p.G13D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	13	GTP.		G -> R (in pylocytic astrocytoma; somatic mutation; increase activation of the Ras pathway).|G -> D (in a breast carcinoma cell line and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G13D(2647)|p.G13C(182)|p.G13S(58)|p.G13R(41)|p.G13V(27)|p.G13A(24)|p.G13G(11)|p.G13E(4)|p.G12_G13insG(4)|p.G13N(3)|p.G13I(1)|p.G13_V14>DI(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CTTGCCTACGCCACCAGCTCC	0.338	G13D(NCIH647_LUNG)|G13D(MDAMB231_BREAST)|G13D(NCIH747_LARGE_INTESTINE)|G13D(T84_LARGE_INTESTINE)|G13D(LOVO_LARGE_INTESTINE)|G13D(DLD1_LARGE_INTESTINE)|G13D(DV90_LUNG)|G13D(HCT15_LARGE_INTESTINE)|G13D(HCT116_LARGE_INTESTINE)|G13D(TOLEDO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G13D(NOMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			18	7					0	0	0.010504	0	0		T	25398281	T	T	25398281	3	4	13	1	0	0	0	0	1	0	0	0	8454	739	26	2	668	2	KRAS	12	25398281	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08		25398281	108453614	55	10723											
ARID2	196528	broad.mit.edu	37	chr12	46240719	46240738	+	Splice_Site	DEL	TGGTAAGTGGTTTATTTCTA	-	-																															gtgagaagtttgcttgtcagTggtaagtggtttatttctat																										TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr12:46240719_46240738delTGGTAAGTGGTTTATTTCTA	uc001ros.1	+	12	1580	c.1580_splice	c.e12+1	p.W527_splice	ARID2_uc001ror.2_Splice_Site_p.W527_splice|ARID2_uc009zkg.1_Splice_Site|ARID2_uc009zkh.1_Splice_Site_p.W154_splice	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TGCTTGTCAGTGGTAAGTGGTTTATTTCTATTAAGGATTT	0.359													15	28	---	---	---	---						.	-	46240738	-	-	46240719	8	5	13	1	0	1	0	1	0	0	1	0	915	1710	59	0	1625	0	ARID2	12	46240719	Splice_Site	DEL	TGGTAAGTGGTTTATTTCTA	TCGA-BR-4267-01A-01D-1126-08	20842438	46240719	87611176	56	10724											
MLL2	8085	broad.mit.edu	37	chr12	49424548	49424548	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgttaggggcagcagggacaGctcctacaaggggcaagatg	11	5	16	9	1	0	1	0	0	0	1	1	2	1	2	1	5	3	5	1	5	4	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr12:49424548G>C	uc001rta.3	-	41	13675	c.13675C>G	c.(13675-13677)CTG>GTG	p.L4559V		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4559					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGCAGGGACAGCTCCTACAAG	0.587			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			33	37					0	0	0.003271	0	0		C	49424548	C	C	49424548	3	2	13	1	0	0	0	0	1	0	0	0	9639	962	34	5	2994	5	MLL2	12	49424548	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	3183829	49424548	84427347	57	10725											
KIAA0748	9840	broad.mit.edu	37	chr12	55356379	55356379	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctctttcttgctctgctctTtcttttccagaaagtctcat	5	19	5	12	0	6	1	1	0	6	1	8	1	7	1	1	0	2	3	1	0	1	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr12:55356379T>A	uc001sgn.3	-	9	1413	c.1303A>T	c.(1303-1305)AAG>TAG	p.K435*	KIAA0748_uc001sgl.3_Nonsense_Mutation_p.K297*|KIAA0748_uc001sgm.3_Nonsense_Mutation_p.K182*|KIAA0748_uc010spb.1_Nonsense_Mutation_p.K182*|KIAA0748_uc010spc.1_Nonsense_Mutation_p.K297*|KIAA0748_uc010spd.1_Nonsense_Mutation_p.K435*|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	435										ovary(1)|central_nervous_system(1)	2						GCTCTGCTCTTTCTTTTCCAG	0.502													55	133					0	0	0.00361	0	0		A	55356379	A	A	55356379	4	1	13	1	0	0	0	0	0	1	0	0	8206	1850	64	5	270	5	KIAA0748	12	55356379	Nonsense_Mutation	SNP	T	TCGA-BR-4267-01A-01D-1126-08	5931831	55356379	78495516	58	10726											
BTBD11	121551	broad.mit.edu	37	chr12	108045467	108045467	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagcttctgtctgctgctaAgtttttccagctggaggctt	5	17	10	9	0	2	0	0	0	2	0	3	1	3	1	1	2	4	6	1	2	2	6			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr12:108045467A>C	uc001tmk.1	+	16	3529	c.3008A>C	c.(3007-3009)AAG>ACG	p.K1003T	BTBD11_uc001tml.1_Missense_Mutation_p.K540T|BTBD11_uc001tmm.1_Missense_Mutation_p.K82T	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	1003						integral to membrane	DNA binding			skin(2)|ovary(1)	3						TCTGCTGCTAAGTTTTTCCAG	0.438													19	25					0	0	0.002299	0	0		C	108045467	C	C	108045467	3	2	13	1	0	0	0	0	1	0	0	0	1542	72	3	5	3175	5	BTBD11	12	108045467	Missense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08	52689088	108045467	25806428	59	10727											
NOS1	4842	broad.mit.edu	37	chr12	117657958	117657958	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgatgcgctggatggctttGaggacatcagcagccatggt	9	10	14	8	1	1	2	1	2	0	0	1	4	1	4	1	4	3	3	1	4	0	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr12:117657958G>C	uc001twm.1	-	27	4778	c.4092C>G	c.(4090-4092)CTC>CTG	p.L1364L		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1364					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GGATGGCTTTGAGGACATCAG	0.612													54	162					0	0	0.00361	0	0		C	117657958	C	C	117657958	2	2	13	1	0	0	0	0	0	0	0	1	10560	1277	45	5		5	NOS1	12	117657958	Silent	SNP	G	TCGA-BR-4267-01A-01D-1126-08	9612491	117657958	16193937	60	10728											
RNF10	9921	broad.mit.edu	37	chr12	121013630	121013630	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcctgcccctgtggacAgcgacggggagagtgataat	8	9	13	11	2	0	2	0	1	0	1	2	5	2	3	4	3	2	0	4	3	1	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr12:121013630A>G	uc001typ.3	+	16	2719	c.2236A>G	c.(2236-2238)AGC>GGC	p.S746G	RNF10_uc010szk.1_RNA|RNF10_uc001tyq.3_Missense_Mutation_p.S657G	NM_014868	NP_055683	Q8N5U6	RNF10_HUMAN	ring finger protein 10	746					negative regulation of Schwann cell proliferation|positive regulation of myelination|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CCCTGTGGACAGCGACGGGGA	0.428													181	182					0	0	0.00361	0	0		G	121013630	G	G	121013630	3	3	13	1	0	0	0	0	1	0	0	0	13447	188	7	3	2298	3	RNF10	12	121013630	Missense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08	3355672	121013630	12838265	61	10729											
OGFOD2	79676	broad.mit.edu	37	chr12	123463763	123463763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaccttgtcgtctggctccGagcctctgctgtgcgcaaca	6	10	11	14	3	2	0	0	0	2	0	4	2	3	0	3	1	5	3	3	1	2	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr12:123463763G>A	uc001uea.1	+	7	944	c.923G>A	c.(922-924)CGA>CAA	p.R308Q	OGFOD2_uc001uds.1_Missense_Mutation_p.R144Q|OGFOD2_uc001udt.1_Missense_Mutation_p.R144Q|OGFOD2_uc001udu.1_Missense_Mutation_p.R144Q|OGFOD2_uc001udv.1_Missense_Mutation_p.R144Q|OGFOD2_uc009zxs.1_Missense_Mutation_p.R144Q|OGFOD2_uc001udw.1_Missense_Mutation_p.R144Q|OGFOD2_uc001udx.1_Missense_Mutation_p.R144Q|OGFOD2_uc001udy.1_Missense_Mutation_p.R144Q|OGFOD2_uc001udz.1_Missense_Mutation_p.R248Q|OGFOD2_uc001ueb.1_Missense_Mutation_p.R144Q|ARL6IP4_uc001uec.2_5'Flank|ARL6IP4_uc001ued.2_5'Flank|ARL6IP4_uc001uee.2_5'Flank|ARL6IP4_uc001uef.2_5'Flank|ARL6IP4_uc001ueg.2_5'Flank|ARL6IP4_uc009zxt.2_5'Flank|ARL6IP4_uc001ueh.2_5'Flank|ARL6IP4_uc001uei.2_5'Flank	NM_024623	NP_078899	Q6N063	OGFD2_HUMAN	2-oxoglutarate and iron-dependent oxygenase	308	Fe2OG dioxygenase.						iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			pancreas(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.11e-05)|Epithelial(86;0.000127)|BRCA - Breast invasive adenocarcinoma(302;0.107)	Vitamin C(DB00126)	GTCTGGCTCCGAGCCTCTGCT	0.672													25	15					0	0	0.003954	0	0		A	123463763	A	A	123463763	3	1	13	1	0	0	0	0	1	0	0	0	10861	1058	37	1	765	1	OGFOD2	12	123463763	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	2450133	123463763	10388132	62	10730											
KPNA3	3839	broad.mit.edu	37	chr13	50283717	50283717	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atatgccttaccttatttatCttctcttttgggtgtgataa	8	20	6	7	0	2	1	0	1	2	0	3	1	2	1	2	1	2	0	2	1	5	9			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr13:50283717C>G	uc001vdj.2	-	12	1438	c.1023G>C	c.(1021-1023)AAG>AAC	p.K341N		NM_002267	NP_002258	O00505	IMA3_HUMAN	karyopherin alpha 3	341	NLS binding site (minor) (By similarity).|ARM 7.				interspecies interaction between organisms|NLS-bearing substrate import into nucleus|protein complex assembly	cytoplasm|nuclear pore	nuclear localization sequence binding|protein transporter activity				0		Lung NSC(96;2.46e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.42e-09)		CCTTATTTATCTTCTCTTTTG	0.388													4	96					0	0	0.009096	0	0		G	50283717	G	G	50283717	3	3	13	1	0	0	0	0	1	0	0	0	8447	912	32	5	566	5	KPNA3	13	50283717	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08		50283717	64886161	63	10731											
DCT	1638	broad.mit.edu	37	chr13	95118904	95118904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctatggccctgtaggggcGtcctggtcctgaaacaattg	8	11	12	10	1	1	1	0	1	1	0	3	1	3	1	3	4	1	1	3	4	4	3			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr13:95118904G>A	uc001vlv.3	-	3	1031	c.604C>T	c.(604-606)CGC>TGC	p.R202C	DCT_uc010afh.2_Missense_Mutation_p.R202C	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	202	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		CTGTAGGGGCGTCCTGGTCCT	0.418													14	33					0	0	0.003163	0	0		A	95118904	A	A	95118904	3	1	13	1	0	0	0	0	1	0	0	0	4307	1145	40	1	1086	1	DCT	13	95118904	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	44835187	95118904	20050974	64	10732											
HS6ST3	266722	broad.mit.edu	37	chr13	96743492	96743492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgccccgattcgtgccgCgcttcaacttcagcctgaag	6	9	9	17	4	2	1	2	1	0	0	3	2	2	1	5	0	4	1	5	0	2	3			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr13:96743492C>T	uc001vmw.2	+	1	400	c.376C>T	c.(376-378)CGC>TGC	p.R126C		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	126	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					ATTCGTGCCGCGCTTCAACTT	0.552													3	7					0	0	0.009096	0	0		T	96743492	T	T	96743492	3	4	13	1	0	0	0	0	1	0	0	0	7388	768	27	1	378	1	HS6ST3	13	96743492	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	1624588	96743492	18426386	65	10733											
TRIM9	114088	broad.mit.edu	37	chr14	51448802	51448802	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccgagtgcgccgagccaggGtcgaaagcaaaccaggccac	11	3	13	14	4	0	0	0	0	0	0	2	3	1	0	5	2	4	1	5	2	2	0			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr14:51448802G>C	uc001wyx.3	-	8	2388	c.1623C>G	c.(1621-1623)GAC>GAG	p.D541E	TRIM9_uc001wyy.2_Missense_Mutation_p.D622E	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	541	B30.2/SPRY.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					CCGAGCCAGGGTCGAAAGCAA	0.537													18	30					0	0	0.010504	0	0		C	51448802	C	C	51448802	3	2	13	1	0	0	0	0	1	0	0	0	16575	1252	44	5	521	5	TRIM9	14	51448802	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08		51448802	55900738	66	10734											
C14orf73	91828	broad.mit.edu	37	chr14	103566569	103566569	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaagatgccatcaccaCagacagacactcctgggccg	11	5	9	16	1	1	3	1	0	0	3	2	3	2	3	5	1	2	0	5	1	1	0			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr14:103566569C>G	uc001ymk.2	+	1	89	c.13C>G	c.(13-15)CAG>GAG	p.Q5E		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	hypothetical protein LOC91828	5											0		Melanoma(154;0.155)	Epithelial(46;0.221)			GCCATCACCACAGACAGACAC	0.627													5	12					0	0	0.001984	0	0		G	103566569	G	G	103566569	3	3	13	1	0	0	0	0	1	0	0	0	1782	479	17	5	15	5	C14orf73	14	103566569	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	52117767	103566569	3782971	67	10735											
RYR3	6263	broad.mit.edu	37	chr15	33878223	33878223	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggaagttttgcactgcaTcttaactgaaagcccagaag	12	11	9	9	0	1	2	0	1	1	1	1	3	1	3	1	1	4	3	1	1	4	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr15:33878223T>A	uc001zhi.2	+	16	1764	c.1694T>A	c.(1693-1695)ATC>AAC	p.I565N	RYR3_uc010bar.2_Missense_Mutation_p.I565N	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	565	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTGCACTGCATCTTAACTGAA	0.443													7	58					0	0	0.006214	0	0		A	33878223	A	A	33878223	3	1	13	1	0	0	0	0	1	0	0	0	13795	1435	50	5	1756	5	RYR3	15	33878223	Missense_Mutation	SNP	T	TCGA-BR-4267-01A-01D-1126-08		33878223	68653169	68	10736											
IDH3A	3419	broad.mit.edu	37	chr15	78454614	78454614	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtatcaagctcatcacCgagggggcgagcaagcgcat	12	5	13	11	3	3	1	3	0	0	1	3	3	3	1	1	2	3	4	1	2	3	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr15:78454614C>T	uc002bdd.2	+	6	543	c.516C>T	c.(514-516)ACC>ACT	p.T172T	IDH3A_uc010umt.1_Silent_p.T137T|IDH3A_uc010umu.1_Silent_p.T63T|IDH3A_uc002bde.2_Silent_p.T122T|IDH3A_uc010umv.1_Silent_p.T122T|IDH3A_uc002bdf.2_Silent_p.T23T|IDH3A_uc002bdg.2_Silent_p.T85T	NM_005530	NP_005521	P50213	IDH3A_HUMAN	isocitrate dehydrogenase 3 (NAD+) alpha	172					carbohydrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0					NADH(DB00157)	AGCTCATCACCGAGGGGGCGA	0.547													28	22					0	0	0.009535	0	0		T	78454614	T	T	78454614	2	4	13	1	0	0	0	0	0	0	0	1	7512	639	23	1		1	IDH3A	15	78454614	Silent	SNP	C	TCGA-BR-4267-01A-01D-1126-08	44576391	78454614	24076778	69	10737											
ADCY9	115	broad.mit.edu	37	chr16	4164838	4164838	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtaaggttggagctgtcGccgcgtcctgagacaggcgt	6	8	16	11	5	0	1	0	1	0	1	2	3	1	2	3	3	1	3	3	3	1	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr16:4164838G>A	uc002cvx.2	-	2	1145	c.606C>T	c.(604-606)GGC>GGT	p.G202G		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	202	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						TGGAGCTGTCGCCGCGTCCTG	0.597													17	44					0	0	0.007413	0	0		A	4164838	A	A	4164838	2	1	13	1	0	0	0	0	0	0	0	1	301	1074	38	1		1	ADCY9	16	4164838	Silent	SNP	G	TCGA-BR-4267-01A-01D-1126-08		4164838	86189915	70	10738											
RRN3	54700	broad.mit.edu	37	chr16	15155664	15155664	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acactacttgaaggacttcgGaaatgcgtgtcaaaggagct	13	9	11	8	2	1	1	1	1	0	0	2	4	1	4	0	3	3	1	0	3	4	3			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr16:15155664G>T	uc002dde.2	-	18	1961	c.1893C>A	c.(1891-1893)TTC>TTA	p.F631L	PDXDC1_uc002ddc.2_Intron|RRN3_uc010uzp.1_Missense_Mutation_p.F499L|RRN3_uc010uzq.1_Missense_Mutation_p.F601L	NM_018427	NP_060897	Q9NYV6	RRN3_HUMAN	RRN3 RNA polymerase I transcription factor	631	Interaction with EIF3L.|Interaction with TWISTNB.				regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm				ovary(1)	1						AAGGACTTCGGAAATGCGTGT	0.493													17	33					2.35188e-11	2.6132e-11	0.006122	1	0		T	15155664	T	T	15155664	3	4	13	1	0	0	0	0	1	0	0	0	13709	1165	41	5	66	5	RRN3	16	15155664	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	10990826	15155664	75199089	71	10739											
ACSM3	6296	broad.mit.edu	37	chr16	20796353	20796353	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgagtgctggggaaccaaTtacccctgacgtgactgaaa	11	9	12	9	1	0	4	0	4	0	0	0	5	0	5	3	2	3	1	3	2	4	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr16:20796353T>C	uc002dhr.2	+	8	1254	c.1067T>C	c.(1066-1068)ATT>ACT	p.I356T	ACSM3_uc002dhq.2_Missense_Mutation_p.I356T|ACSM3_uc010vba.1_Missense_Mutation_p.I385T|ERI2_uc002dhs.2_Intron	NM_005622	NP_005613	Q53FZ2	ACSM3_HUMAN	SA hypertension-associated homolog isoform 1	356					regulation of blood pressure	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			ovary(1)	1						GGGGAACCAATTACCCCTGAC	0.423													4	152					0	0	0.009096	0	0		C	20796353	C	C	20796353	3	2	13	1	0	0	0	0	1	0	0	0	185	1493	52	3	1093	3	ACSM3	16	20796353	Missense_Mutation	SNP	T	TCGA-BR-4267-01A-01D-1126-08	5640689	20796353	69558400	72	10740											
DNAH3	55567	broad.mit.edu	37	chr16	20975848	20975848	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagacaggggtgcctaactGcagcgcgttttccagcatcc	9	8	11	13	2	0	1	0	0	0	1	2	1	2	1	3	2	5	3	3	2	2	3			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr16:20975848G>A	uc010vbe.1	-	53	9358	c.9358C>T	c.(9358-9360)CAG>TAG	p.Q3120*	DNAH3_uc010vbd.1_Nonsense_Mutation_p.Q555*	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3120	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GTGCCTAACTGCAGCGCGTTT	0.448													72	120					0	0	0.00361	0	0		A	20975848	A	A	20975848	4	1	13	1	0	0	0	0	0	1	0	0	4609	1328	46	2	3031	2	DNAH3	16	20975848	Nonsense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	179495	20975848	69378905	73	10741											
BRD7	29117	broad.mit.edu	37	chr16	50354623	50354623	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaatttgttactgctttCagcgctatgagcctgtcttg	8	15	8	10	1	2	1	1	1	1	0	2	1	2	1	2	0	4	3	2	0	4	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr16:50354623C>A	uc002egf.1	-	15	1630	c.1563G>T	c.(1561-1563)CTG>CTT	p.L521L	BRD7_uc002ege.1_Silent_p.L522L	NM_013263	NP_037395	Q9NPI1	BRD7_HUMAN	bromodomain containing 7	521					cell cycle|negative regulation of cell proliferation|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of histone acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleus	histone acetyl-lysine binding|p53 binding|transcription coactivator activity|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding				0		all_cancers(37;0.0127)				TTACTGCTTTCAGCGCTATGA	0.453													97	139					4.65105e-59	5.47183e-59	0.00361	1	0		A	50354623	A	A	50354623	2	1	13	1	0	0	0	0	0	0	0	1	1508	813	29	5		5	BRD7	16	50354623	Silent	SNP	C	TCGA-BR-4267-01A-01D-1126-08	29378775	50354623	40000130	74	10742											
CES7	221223	broad.mit.edu	37	chr16	55899941	55899941	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagagctggggtccccaccGaagaactcgatgttcttctg	9	9	11	12	2	2	2	0	0	2	2	4	4	3	2	3	2	2	2	3	2	2	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr16:55899941G>A	uc002eip.2	-	5	788	c.639C>T	c.(637-639)TTC>TTT	p.F213F	CES7_uc002eio.2_Silent_p.F213F|CES7_uc002eiq.2_5'UTR|CES7_uc002eir.2_Silent_p.F107F	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	213						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		GGTCCCCACCGAAGAACTCGA	0.547													21	25					0	0	0.010504	0	0		A	55899941	A	A	55899941	2	1	13	1	0	0	0	0	0	0	0	1	3275	1049	37	1		1	CES7	16	55899941	Silent	SNP	G	TCGA-BR-4267-01A-01D-1126-08	5545318	55899941	34454812	75	10743											
HYDIN	54768	broad.mit.edu	37	chr16	70934955	70934955	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaggcttggtgggctgaaaGtacaggtgcaggccgtactc	9	8	15	9	1	0	1	0	1	0	0	1	1	0	1	1	5	3	5	1	5	3	3			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr16:70934955G>T	uc002ezr.2	-	53	9125	c.8997C>A	c.(8995-8997)TAC>TAA	p.Y2999*		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3000										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TGGGCTGAAAGTACAGGTGCA	0.517													30	117					2.47316e-13	2.76994e-13	0.003271	1	0		T	70934955	T	T	70934955	4	4	13	1	0	0	0	0	0	1	0	0	7483	1024	36	5	6501	5	HYDIN	16	70934955	Nonsense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	15035014	70934955	19419798	76	10744											
ZNF19	7567	broad.mit.edu	37	chr16	71512174	71512174	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgggggatcatcctgTgcttccaggccccaagccat	6	10	11	14	0	2	0	1	0	1	0	4	1	4	1	5	3	3	2	5	3	1	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr16:71512174T>A	uc010cgc.1	-	5	737	c.231A>T	c.(229-231)GCA>GCT	p.A77A	ZNF23_uc002fai.2_5'UTR|ZNF19_uc002fak.1_Silent_p.A65A|ZNF19_uc002fal.1_Silent_p.A65A|ZNF19_uc002fam.1_Silent_p.A77A	NM_006961	NP_008892	P17023	ZNF19_HUMAN	zinc finger protein 19	77	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(137;0.00965)		BRCA - Breast invasive adenocarcinoma(221;0.0161)|Kidney(780;0.0598)		GATCATCCTGTGCTTCCAGGC	0.468													11	21					0	0	0.001855	0	0		A	71512174	A	A	71512174	2	1	13	1	0	0	0	0	0	0	0	1	17780	1683	59	5		5	ZNF19	16	71512174	Silent	SNP	T	TCGA-BR-4267-01A-01D-1126-08	577219	71512174	18842579	77	10745											
KCNG4	93107	broad.mit.edu	37	chr16	84270603	84270603	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccagcttcctcagcagcttCcgcaggcagcacctctccag	7	8	8	18	1	2	0	1	0	1	0	6	0	5	0	5	1	4	6	5	1	0	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr16:84270603C>A	uc010voc.1	-	2	610	c.489G>T	c.(487-489)CGG>CGT	p.R163R	KCNG4_uc002fhu.1_Silent_p.R163R	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	163						voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						TCAGCAGCTTCCGCAGGCAGC	0.667													9	23					0.000219431	0.00023273	0.00245	1	0		A	84270603	A	A	84270603	2	1	13	1	0	0	0	0	0	0	0	1	8046	842	30	5		5	KCNG4	16	84270603	Silent	SNP	C	TCGA-BR-4267-01A-01D-1126-08	12758429	84270603	6084150	78	10746											
UBB	7314	broad.mit.edu	37	chr17	16285491	16285491	+	Silent	SNP	C	T	T																															ctgaccggcaagaccatcacCctggaagtggagcccagtga																								rs16962973		TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr17:16285491C>T	uc002gpx.2	+	2	408	c.270C>T	c.(268-270)ACC>ACT	p.T90T	UBB_uc010vwe.1_Intron	NM_018955	NP_061828	P0CG47	UBB_HUMAN	ubiquitin B precursor	90	Ubiquitin-like 2.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)		AGACCATCACCCTGGAAGTGG	0.552													4	75					0	0	0.009096	0	0		T	16285491	T	T	16285491	2	4	13	1	0	0	0	0	0	0	0	1	16867	610	22	4		4	UBB	17	16285491	Silent	SNP	C	TCGA-BR-4267-01A-01D-1126-08		16285491	64909719	79	10747	15	2									
UBB	7314	broad.mit.edu	37	chr17	16285497	16285497	+	Silent	SNP	A	G	G																															ggcaagaccatcaccctggaAgtggagcccagtgacaccat																										TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr17:16285497A>G	uc002gpx.2	+	2	414	c.276A>G	c.(274-276)GAA>GAG	p.E92E	UBB_uc010vwe.1_Intron	NM_018955	NP_061828	P0CG47	UBB_HUMAN	ubiquitin B precursor	92	Ubiquitin-like 2.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)		TCACCCTGGAAGTGGAGCCCA	0.557													4	73					0	0	0.009096	0	0		G	16285497	G	G	16285497	2	3	13	1	0	0	0	0	0	0	0	1	16867	69	3	3		3	UBB	17	16285497	Silent	SNP	A	TCGA-BR-4267-01A-01D-1126-08	6	16285497	64909713	80	10748	15	2									
ITGB3	3690	broad.mit.edu	37	chr17	45362061	45362061	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgaaaacccctgctatgAgtaagtccctcctccagacg	10	8	7	16	2	0	2	0	1	0	1	4	3	3	2	6	0	2	2	6	0	4	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr17:45362061A>C	uc002ilj.2	+	4	634	c.614A>C	c.(613-615)GAT>GCT	p.D205A	ITGB3_uc002ili.1_Missense_Mutation_p.D205A|ITGB3_uc010wkr.1_RNA	NM_000212	NP_000203	P05106	ITB3_HUMAN	integrin beta chain, beta 3 precursor	205	VWFA.|Extracellular (Potential).			D -> EY (in Ref. 11; AAA67537).	activation of protein kinase activity|angiogenesis involved in wound healing|axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|platelet activation|platelet degranulation|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|regulation of bone resorption|smooth muscle cell migration|tube development	alphav-beta3 integrin-vitronectin complex|integrin complex|platelet alpha granule membrane	cell adhesion molecule binding|identical protein binding|platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			central_nervous_system(5)|large_intestine(1)	6					Abciximab(DB00054)|Tirofiban(DB00775)	CCCTGCTATGAGTAAGTCCCT	0.532													13	159					0	0	0.004007	0	0		C	45362061	C	C	45362061	3	2	13	1	0	0	0	0	1	0	0	0	7911	318	11	5	628	5	ITGB3	17	45362061	Missense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08	29076564	45362061	35833149	81	10749											
MIB1	57534	broad.mit.edu	37	chr18	19418419	19418419	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccttacatctggctgccctTaataatcacgtagaagtggc	10	11	9	11	1	2	1	1	0	1	1	2	1	2	1	2	2	2	2	2	2	5	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr18:19418419T>G	uc002ktq.2	+	13	1923	c.1923T>G	c.(1921-1923)CTT>CTG	p.L641L	MIB1_uc002ktp.2_Silent_p.L280L	NM_020774	NP_065825	Q86YT6	MIB1_HUMAN	mindbomb homolog 1	641	ANK 7.				Notch signaling pathway	centrosome|nuclear membrane|plasma membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(4)	4			STAD - Stomach adenocarcinoma(5;0.212)			TGGCTGCCCTTAATAATCACG	0.353													35	42					0	0	0.007835	0	0		G	19418419	G	G	19418419	2	3	13	1	0	0	0	0	0	0	0	1	9584	1741	61	5		5	MIB1	18	19418419	Silent	SNP	T	TCGA-BR-4267-01A-01D-1126-08		19418419	58658829	82	10750											
SMAD4	4089	broad.mit.edu	37	chr18	48591919	48591919	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacccttctggaggagatcGcttttgtttgggtcaactct	6	14	12	9	1	3	1	1	0	2	1	4	4	3	3	1	4	1	2	1	4	1	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr18:48591919G>C	uc010xdp.1	+	9	1620	c.1082G>C	c.(1081-1083)CGC>CCC	p.R361P	SMAD4_uc002lfb.3_Missense_Mutation_p.R206P	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	361	MH2.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in JPS).		BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.R361C(6)|p.R361H(3)|p.?(2)|p.R361S(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		GGAGGAGATCGCTTTTGTTTG	0.413									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				33	18					0	0	0.002836	0	0		C	48591919	C	C	48591919	3	2	13	1	0	0	0	0	1	0	0	0	14785	1087	38	5	1112	5	SMAD4	18	48591919	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	29173500	48591919	29485329	83	10751											
PCSK4	54760	broad.mit.edu	37	chr19	1481839	1481839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcgtatagtgggaggtcCatggacatgccgcagaggac	10	6	16	9	2	0	1	0	0	0	1	1	4	1	4	2	5	1	2	2	5	2	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr19:1481839C>T	uc002ltb.1	-	15	2249	c.2187G>A	c.(2185-2187)ATG>ATA	p.M729I	C19orf25_uc010xgn.1_5'Flank|C19orf25_uc002lsy.3_5'Flank|C19orf25_uc010dsk.2_5'Flank|C19orf25_uc010xgo.1_5'Flank|C19orf25_uc002lsx.1_5'Flank|PCSK4_uc002lsz.2_Missense_Mutation_p.M216I|PCSK4_uc002lta.2_3'UTR	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	729	Helical; (Potential).				proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTGGGAGGTCCATGGACATGC	0.677													7	7					0	0	0.001984	0	0		T	1481839	T	T	1481839	3	4	13	1	0	0	0	0	1	0	0	0	11621	594	21	4	84	4	PCSK4	19	1481839	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08		1481839	57647144	84	10752											
CREB3L3	84699	broad.mit.edu	37	chr19	4159760	4159760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgaaagacctcctcctttCgggcagcagtggggacctgg	7	8	14	12	2	0	2	0	1	0	1	3	3	2	3	4	4	1	2	4	4	1	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr19:4159760C>T	uc002lzl.2	+	4	673	c.557C>T	c.(556-558)TCG>TTG	p.S186L	CREB3L3_uc002lzm.2_Missense_Mutation_p.S176L|CREB3L3_uc010xib.1_Missense_Mutation_p.S177L|CREB3L3_uc010xic.1_Missense_Mutation_p.S177L	NM_032607	NP_115996	Q68CJ9	CR3L3_HUMAN	cAMP responsive element binding protein 3-like	186	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0232)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCTCCTTTCGGGCAGCAGT	0.433													18	35					0	0	0.001882	0	0		T	4159760	T	T	4159760	3	4	13	1	0	0	0	0	1	0	0	0	3861	893	31	1	571	1	CREB3L3	19	4159760	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	2677921	4159760	54969223	85	10753											
UNC13A	23025	broad.mit.edu	37	chr19	17738735	17738735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgtagctgttgagtgttattCatgagaatgcagggctgtgg	8	13	15	5	1	1	2	1	2	0	1	1	3	1	2	0	2	2	6	0	2	3	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr19:17738735C>T	uc002nhd.2	-	32	4032	c.4032G>A	c.(4030-4032)ATG>ATA	p.M1344I		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1256					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						GAGTGTTATTCATGAGAATGC	0.597													228	378					0	0	0.00361	0	0		T	17738735	T	T	17738735	3	4	13	1	0	0	0	0	1	0	0	0	17010	826	29	4	1391	4	UNC13A	19	17738735	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	13578975	17738735	41390248	86	10754											
ZNF607	84775	broad.mit.edu	37	chr19	38190035	38190035	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acattcatagtgtttctcccCtgaataaattctctgatgca	11	15	5	10	0	3	2	1	2	2	0	5	2	3	2	2	0	1	2	2	0	4	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr19:38190035C>G	uc002ohc.1	-	5	1593	c.997G>C	c.(997-999)GGG>CGG	p.G333R	ZNF607_uc002ohb.1_Missense_Mutation_p.G332R	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	333					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			TGTTTCTCCCCTGAATAAATT	0.378													47	113					0	0	0.00361	0	0		G	38190035	G	G	38190035	3	3	13	1	0	0	0	0	1	0	0	0	18058	681	24	5	1097	5	ZNF607	19	38190035	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	20451300	38190035	20938948	87	10755											
RYR1	6261	broad.mit.edu	37	chr19	38968395	38968395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacaggagcccagctgcGtgtgggcgggctgggtcacc	5	6	18	12	2	1	0	1	0	0	0	1	2	1	2	2	5	3	2	2	5	0	0			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr19:38968395G>A	uc002oit.2	+	30	4469	c.4339G>A	c.(4339-4341)GTG>ATG	p.V1447M	RYR1_uc002oiu.2_Missense_Mutation_p.V1447M	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1447	Cytoplasmic.|B30.2/SPRY 3.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GCCCAGCTGCGTGTGGGCGGG	0.597													18	27					0	0	0.008871	0	0		A	38968395	A	A	38968395	3	1	13	1	0	0	0	0	1	0	0	0	13793	1145	40	1	4457	1	RYR1	19	38968395	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	778360	38968395	20160588	88	10756											
SPTBN4	57731	broad.mit.edu	37	chr19	41003482	41003482	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcacagctgagcagcaccTggggctggcgcggctgctgg	5	5	17	14	3	0	1	0	1	0	0	0	1	0	1	2	5	4	7	2	5	0	0			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr19:41003482T>A	uc002ony.2	+	7	841	c.755T>A	c.(754-756)CTG>CAG	p.L252Q	SPTBN4_uc002onx.2_Missense_Mutation_p.L252Q|SPTBN4_uc002onz.2_Missense_Mutation_p.L252Q	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	252	Actin-binding.|CH 2.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GAGCAGCACCTGGGGCTGGCG	0.622													16	37					0	0	0.010504	0	0		A	41003482	A	A	41003482	3	1	13	1	0	0	0	0	1	0	0	0	15146	1580	55	5	777	5	SPTBN4	19	41003482	Missense_Mutation	SNP	T	TCGA-BR-4267-01A-01D-1126-08	2035087	41003482	18125501	89	10757											
ATP5SL	55101	broad.mit.edu	37	chr19	41938220	41938220	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagtcgactcccacaacCtcgcaattgggcagcatctc	9	7	8	17	2	1	0	0	0	1	0	5	1	2	0	3	1	2	3	3	1	2	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr19:41938220C>G	uc002oqw.1	-	6	696	c.690G>C	c.(688-690)GAG>GAC	p.E230D	CYP2F1_uc010xvw.1_Intron|ATP5SL_uc002oqu.1_RNA|ATP5SL_uc002oqv.2_Missense_Mutation_p.E236D|ATP5SL_uc010xwa.1_Missense_Mutation_p.R182T|ATP5SL_uc002oqx.1_Missense_Mutation_p.E203D|ATP5SL_uc002oqy.1_Missense_Mutation_p.R176T|ATP5SL_uc002oqz.1_Missense_Mutation_p.R149T	NM_018035	NP_060505	Q9NW81	AT5SL_HUMAN	ATP5S-like	230										large_intestine(1)|breast(1)	2						CTCCCACAACCTCGCAATTGG	0.627													16	38					0	0	0.007413	0	0		G	41938220	G	G	41938220	3	3	13	1	0	0	0	0	1	0	0	0	1165	681	24	5	87	5	ATP5SL	19	41938220	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	934738	41938220	17190763	90	10758											
SLC8A2	6543	broad.mit.edu	37	chr19	47969322	47969322	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcccacgctggtctcaccGttggccttggtgatggtgat	4	12	14	11	2	1	2	1	2	1	0	2	2	1	2	3	4	1	2	3	4	0	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr19:47969322G>A	uc002pgx.2	-	2	617	c.339C>T	c.(337-339)AAC>AAT	p.N113N	SLC8A2_uc010xyq.1_Intron|SLC8A2_uc010xyr.1_Intron|SLC8A2_uc010ele.2_Silent_p.N113N	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	113	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		TGGTCTCACCGTTGGCCTTGG	0.577													6	46					0	0	0.001168	0	0		A	47969322	A	A	47969322	2	1	13	1	0	0	0	0	0	0	0	1	14732	1136	40	1		1	SLC8A2	19	47969322	Silent	SNP	G	TCGA-BR-4267-01A-01D-1126-08	6031102	47969322	11159661	91	10759											
FCGRT	2217	broad.mit.edu	37	chr19	50017644	50017644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtcagcggtggcagcagcagGacaaggcggccaacaaggag	12	2	17	10	2	1	0	1	0	0	0	1	2	1	2	1	6	4	3	1	6	3	0			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr19:50017644G>A	uc002poe.2	+	4	988	c.502G>A	c.(502-504)GAC>AAC	p.D168N	FCGRT_uc002pod.2_RNA|FCGRT_uc002pog.2_Missense_Mutation_p.D168N|FCGRT_uc002pof.1_Missense_Mutation_p.D73N|FCGRT_uc010yax.1_Missense_Mutation_p.D168N|FCGRT_uc002poh.1_Missense_Mutation_p.D28N	NM_001136019	NP_001129491	P55899	FCGRN_HUMAN	Fc fragment of IgG, receptor, transporter, alpha	168	Extracellular (Potential).|Alpha-2.				antigen processing and presentation|female pregnancy|immune response	integral to membrane|MHC class I protein complex	IgG binding|receptor activity			ovary(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00291)|GBM - Glioblastoma multiforme(134;0.0156)		GCAGCAGCAGGACAAGGCGGC	0.652													3	6					0	0	0.004672	0	0		A	50017644	A	A	50017644	3	1	13	1	0	0	0	0	1	0	0	0	5800	1174	41	4	512	4	FCGRT	19	50017644	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	2048322	50017644	9111339	92	10760											
RRAS	6237	broad.mit.edu	37	chr19	50138991	50138991	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaggggacttggctcacCggacagcccgcaccagctgc	9	4	14	14	2	1	0	1	0	0	0	1	3	1	3	3	5	3	3	3	5	1	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr19:50138991C>G	uc002pop.1	-	5	617	c.572G>C	c.(571-573)CGG>CCG	p.R191P		NM_006270	NP_006261	P10301	RRAS_HUMAN	related RAS viral (r-ras) oncogene homolog	191					axon guidance|Ras protein signal transduction|synaptic transmission	intracellular|plasma membrane	GDP binding|GTP binding|GTPase activity|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00114)|GBM - Glioblastoma multiforme(134;0.0206)		CTTGGCTCACCGGACAGCCCG	0.607													15	42					0	0	0.004007	0	0		G	50138991	G	G	50138991	3	3	13	1	0	0	0	0	1	0	0	0	13701	666	23	5	92	5	RRAS	19	50138991	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	121347	50138991	8989992	93	10761											
CLEC11A	6320	broad.mit.edu	37	chr19	51228703	51228703	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccagcggcgtctctactaCgtctgcgagttccccttcta	5	12	9	15	4	3	0	0	0	3	0	5	1	4	0	3	1	5	1	3	1	3	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr19:51228703C>T	uc002psy.2	+	4	1129	c.951C>T	c.(949-951)TAC>TAT	p.Y317Y		NM_002975	NP_002966	Q9Y240	CLC11_HUMAN	stem cell growth factor precursor	317	C-type lectin.				positive regulation of cell proliferation	cytoplasm|extracellular region	growth factor activity|sugar binding			ovary(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		GTCTCTACTACGTCTGCGAGT	0.701													5	3					0	0	0.000602	0	0		T	51228703	T	T	51228703	2	4	13	1	0	0	0	0	0	0	0	1	3499	547	19	1		1	CLEC11A	19	51228703	Silent	SNP	C	TCGA-BR-4267-01A-01D-1126-08	1089712	51228703	7900280	94	10762											
C20orf43	51507	broad.mit.edu	37	chr20	55048432	55048432	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatattaagacgaccaataGttgcctgtgaacttggcagg	14	10	10	7	1	0	2	0	1	0	1	0	3	0	2	2	2	2	2	2	2	6	5			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr20:55048432G>C	uc002xxt.2	+	2	252	c.145G>C	c.(145-147)GTT>CTT	p.V49L	C20orf43_uc010zzf.1_Missense_Mutation_p.V79L|C20orf43_uc002xxu.2_Missense_Mutation_p.V49L|C20orf43_uc002xxv.2_Missense_Mutation_p.V49L	NM_016407	NP_057491	Q9BY42	CT043_HUMAN	hypothetical protein LOC51507	49										ovary(1)	1			Colorectal(105;0.202)			ACGACCAATAGTTGCCTGTGA	0.328													26	46					0	0	0.009535	0	0		C	55048432	C	C	55048432	3	2	13	1	0	0	0	0	1	0	0	0	2115	1029	36	5	151	5	C20orf43	20	55048432	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08		55048432	7977088	95	10763											
CDH4	1002	broad.mit.edu	37	chr20	60503257	60503257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttccacagggataccccCggccagcggcaccgggaccc	7	4	12	18	3	0	0	0	0	0	0	1	2	1	2	6	4	2	2	6	4	1	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr20:60503257C>T	uc002ybn.1	+	12	1795	c.1781C>T	c.(1780-1782)CCG>CTG	p.P594L	CDH4_uc002ybp.1_Missense_Mutation_p.P520L	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	594	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GGGATACCCCCGGCCAGCGGC	0.602													28	49					0	0	0.009535	0	0		T	60503257	T	T	60503257	3	4	13	1	0	0	0	0	1	0	0	0	3115	652	23	1	1827	1	CDH4	20	60503257	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	5454825	60503257	2522263	96	10764											
FAM3B	54097	broad.mit.edu	37	chr21	42710319	42710319	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacagctccagtccccaaaAggcaaaaatgtgaccactgg	14	7	8	12	0	0	1	0	1	0	0	2	1	2	1	4	2	2	2	4	2	5	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr21:42710319A>C	uc002yzb.1	+	3	324	c.178A>C	c.(178-180)AGG>CGG	p.R60R	FAM3B_uc002yza.2_RNA|FAM3B_uc002yzc.1_Silent_p.R12R|FAM3B_uc002yzd.1_Silent_p.R83R|FAM3B_uc011aeq.1_Silent_p.R74R	NM_058186	NP_478066	P58499	FAM3B_HUMAN	family with sequence similarity 3, member B	60					apoptosis|insulin secretion	extracellular space	cytokine activity				0		Prostate(19;1.57e-07)|all_epithelial(19;0.0404)				AGTCCCCAAAAGGCAAAAATG	0.478													55	102					0	0	0.00361	0	0		C	42710319	C	C	42710319	2	2	13	1	0	0	0	0	0	0	0	1	5571	63	3	5		5	FAM3B	21	42710319	Silent	SNP	A	TCGA-BR-4267-01A-01D-1126-08		42710319	5419576	97	10765											
SLC7A4	6545	broad.mit.edu	37	chr22	21385414	21385414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccggagaagccgaagggtgCaaagccgccttcgtcagcgc	9	4	15	13	5	1	1	1	0	0	1	2	3	1	1	4	2	4	1	4	2	3	1			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chr22:21385414C>T	uc002zud.2	-	2	756	c.688G>A	c.(688-690)GCA>ACA	p.A230T	SLC7A4_uc002zue.2_Missense_Mutation_p.A230T	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	230	Helical; (Potential).				cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	CCGAAGGGTGCAAAGCCGCCT	0.602													21	15					0	0	0.00632	0	0		T	21385414	T	T	21385414	3	4	13	1	0	0	0	0	1	0	0	0	14724	710	25	2	1235	2	SLC7A4	22	21385414	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08		21385414	29919152	98	10766											
TLR7	51284	broad.mit.edu	37	chrX	12906522	12906522	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaagtatgcaaagactgaAaattttaagatagcatttta	18	12	7	4	0	0	3	0	1	0	2	0	4	0	3	0	0	2	3	0	0	8	6			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chrX:12906522A>C	uc004cvc.2	+	3	3034	c.2895A>C	c.(2893-2895)GAA>GAC	p.E965D		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	965	TIR.|Cytoplasmic (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	CAAAGACTGAAAATTTTAAGA	0.398													129	37					0	0	0.00361	0	0		C	12906522	C	C	12906522	3	2	13	1	0	0	0	0	1	0	0	0	15981	11	1	5	2901	5	TLR7	23	12906522	Missense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08		12906522	142364038	99	10767											
GRIPAP1	56850	broad.mit.edu	37	chrX	48837686	48837686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctgcagcttatctgccCgtttccgctccaaatgcagc	6	11	8	16	2	1	0	0	0	1	0	4	0	4	0	4	0	5	6	4	0	2	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chrX:48837686C>T	uc004dly.1	-	21	1906	c.1871G>A	c.(1870-1872)CGG>CAG	p.R624Q	GRIPAP1_uc004dlz.2_Missense_Mutation_p.R514Q|GRIPAP1_uc004dma.2_Missense_Mutation_p.R545Q	NM_020137	NP_064522	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1 isoform 1	624	Potential.					early endosome				breast(2)|kidney(1)	3						CTTATCTGCCCGTTTCCGCTC	0.612													12	4					0	0	0.001855	0	0		T	48837686	T	T	48837686	3	4	13	1	0	0	0	0	1	0	0	0	6805	652	23	1	732	1	GRIPAP1	23	48837686	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	35931164	48837686	106432874	100	10768											
WDR45	11152	broad.mit.edu	37	chrX	48934155	48934155	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcggggaaggagtacacatAgatgcggttcttcagcacga	11	8	14	8	3	2	1	1	0	1	1	3	4	2	3	0	4	3	3	0	4	3	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chrX:48934155A>G	uc004dmk.1	-	6	542	c.370T>C	c.(370-372)TAT>CAT	p.Y124H	PRAF2_uc004dmi.2_5'Flank|PRAF2_uc011mmt.1_Intron|WDR45_uc004dmj.1_Missense_Mutation_p.Y74H|WDR45_uc004dml.1_Missense_Mutation_p.Y125H|WDR45_uc004dmm.1_Missense_Mutation_p.Y89H|WDR45_uc010nim.1_Missense_Mutation_p.Y124H|WDR45_uc004dmn.1_Missense_Mutation_p.Y15H|WDR45_uc004dmo.1_Missense_Mutation_p.Y147H|WDR45_uc004dmp.1_Missense_Mutation_p.Y125H	NM_001029896	NP_001025067	Q9Y484	WIPI4_HUMAN	WD repeat domain 45 isoform 2	124					autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1						GAGTACACATAGATGCGGTTC	0.562													6	57					0	0	0.00308	0	0		G	48934155	G	G	48934155	3	3	13	1	0	0	0	0	1	0	0	0	17323	420	15	3	736	3	WDR45	23	48934155	Missense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08	96469	48934155	106336405	101	10769											
AKAP4	8852	broad.mit.edu	37	chrX	49957932	49957932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgatttcattttgcctttgtCcctctctttcatttcagctt	4	22	4	11	0	4	1	3	1	1	0	6	1	5	1	2	0	2	1	2	0	0	7			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chrX:49957932C>T	uc004dow.1	-	5	1556	c.1432G>A	c.(1432-1434)GAC>AAC	p.D478N	AKAP4_uc004dov.1_Intron|AKAP4_uc010njp.1_Missense_Mutation_p.D300N|AKAP4_uc004dou.1_Missense_Mutation_p.D469N	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	478					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					TTGCCTTTGTCCCTCTCTTTC	0.438													64	22					0	0	0.00361	0	0		T	49957932	T	T	49957932	3	4	13	1	0	0	0	0	1	0	0	0	453	855	30	4	1140	4	AKAP4	23	49957932	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	1023777	49957932	105312628	102	10770											
ACRC	93953	broad.mit.edu	37	chrX	70823870	70823870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcggaagctcccgacgacaGcagtgatgattcggaagctc	10	8	12	11	4	0	2	0	2	0	0	4	6	1	4	1	2	3	3	1	2	2	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chrX:70823870G>A	uc004eae.2	+	8	1244	c.743G>A	c.(742-744)AGC>AAC	p.S248N	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	248	Asp/Ser-rich.					nucleus				ovary(3)	3	Renal(35;0.156)					CCCGACGACAGCAGTGATGAT	0.552													4	133					0	0	0.009096	0	0		A	70823870	A	A	70823870	3	1	13	1	0	0	0	0	1	0	0	0	171	971	34	2	769	2	ACRC	23	70823870	Missense_Mutation	SNP	G	TCGA-BR-4267-01A-01D-1126-08	20865938	70823870	84446690	103	10771											
ELF4	2000	broad.mit.edu	37	chrX	129208703	129208703	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctgctccacgatcacagCtgggaacacagaggggtctt	10	8	11	12	1	2	1	1	0	1	1	3	3	3	2	2	3	4	2	2	3	2	2			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chrX:129208703C>G	uc004evd.3	-	3	485	c.100G>C	c.(100-102)GCT>CCT	p.A34P	ELF4_uc004eve.3_Missense_Mutation_p.A34P	NM_001421	NP_001412	Q99607	ELF4_HUMAN	E74-like factor 4	34					natural killer cell proliferation|NK T cell proliferation|positive regulation of transcription from RNA polymerase II promoter	PML body	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ACGATCACAGCTGGGAACACA	0.537			T	ERG	AML								23	10					0	0	0.002299	0	0		G	129208703	G	G	129208703	3	3	13	1	0	0	0	0	1	0	0	0	5064	797	28	5	1919	5	ELF4	23	129208703	Missense_Mutation	SNP	C	TCGA-BR-4267-01A-01D-1126-08	58384833	129208703	26061857	104	10772											
GABRE	2564	broad.mit.edu	37	chrX	151123349	151123349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttaaaacgcttgcaccActcacagcaggccagcttgg	10	9	8	14	1	2	0	1	0	1	0	2	0	2	0	2	2	4	4	2	2	2	4			TCGA-BR-4267-01A-01D-1126-08	TCGA-BR-4267-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	a28c27a6-9a08-4262-bb11-28b611e84d29	50fe780e-876b-46e8-87c3-9f7315fa8c7d	g.chrX:151123349A>G	uc004ffi.2	-	9	1399	c.1345T>C	c.(1345-1347)TGG>CGG	p.W449R	GABRE_uc011myd.1_RNA	NM_004961	NP_004952	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor,	449	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CGCTTGCACCACTCACAGCAG	0.617													10	1					0	0	0.000978	0	0		G	151123349	G	G	151123349	3	3	13	1	0	0	0	0	1	0	0	0	6184	159	6	3	179	3	GABRE	23	151123349	Missense_Mutation	SNP	A	TCGA-BR-4267-01A-01D-1126-08	21914646	151123349	4147211	105	10773											
PDPN	10630	broad.mit.edu	37	chr1	13940872	13940872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttcattggtgcaatcatcGttgtggttatgcgaaaaatg	10	14	11	6	2	2	0	2	0	0	0	3	1	2	0	0	2	2	4	0	2	4	4			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr1:13940872G>A	uc001avd.2	+	5	725	c.676G>A	c.(676-678)GTT>ATT	p.V226I	PDPN_uc001avc.2_Missense_Mutation_p.V226I|PDPN_uc009vob.2_Missense_Mutation_p.V108I|PDPN_uc009voc.2_Missense_Mutation_p.V108I|PDPN_uc001ave.2_Missense_Mutation_p.V108I|PDPN_uc001avf.2_Missense_Mutation_p.V108I	NM_006474	NP_006465	Q86YL7	PDPN_HUMAN	lung type-I cell membrane-associated	150	Helical; (Potential).				cell morphogenesis|lymphangiogenesis|regulation of cell shape	filopodium membrane|integral to plasma membrane|lamellipodium membrane|microvillus membrane|ruffle membrane				ovary(2)	2	Ovarian(185;0.249)	all_lung(284;2.29e-05)|Lung NSC(185;4.37e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00969)|Colorectal(212;4.48e-06)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000347)|Kidney(185;0.00087)|KIRC - Kidney renal clear cell carcinoma(229;0.0027)|STAD - Stomach adenocarcinoma(313;0.00802)|READ - Rectum adenocarcinoma(331;0.0678)		TGCAATCATCGTTGTGGTTAT	0.423													11	42					0	0	0.016723	0	0		A	13940872	A	A	13940872	3	1	14	1	0	0	0	0	1	0	0	0	11707	1145	40	1	694	1	PDPN	1	13940872	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08		13940872	235309749	1	10774											
LEPRE1	64175	broad.mit.edu	37	chr1	43228097	43228097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttccatgtgctcaggattgCccacgaagaaggtgtgtgct	8	12	12	9	1	1	1	1	0	0	1	2	3	2	2	2	2	3	2	2	2	2	2			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr1:43228097C>T	uc001chv.2	-	2	628	c.515G>A	c.(514-516)GGC>GAC	p.G172D	LEPRE1_uc001chw.2_Missense_Mutation_p.G172D|LEPRE1_uc001chx.3_Missense_Mutation_p.G172D|LEPRE1_uc001chy.3_Missense_Mutation_p.G172D	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	172	TPR 2.				negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	CTCAGGATTGCCCACGAAGAA	0.468													4	125					0	0	0.009096	0	0		T	43228097	T	T	43228097	3	4	14	1	0	0	0	0	1	0	0	0	8745	739	26	2	1770	2	LEPRE1	1	43228097	Missense_Mutation	SNP	C	TCGA-BR-4279-01A-01D-1126-08	29287225	43228097	206022524	2	10775											
BEST4	266675	broad.mit.edu	37	chr1	45250412	45250412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtactggtccttctcagcgGggggaaggttctggtacatt	7	12	14	8	1	2	0	1	0	2	0	4	1	3	1	1	6	3	3	1	6	3	5			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr1:45250412G>A	uc001cmm.2	-	8	1086	c.1037C>T	c.(1036-1038)CCC>CTC	p.P346L		NM_153274	NP_695006	Q8NFU0	BEST4_HUMAN	bestrophin 4	346	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CTTCTCAGCGGGGGGAAGGTT	0.637													6	51					0	0	0.047766	0	0		A	45250412	A	A	45250412	3	1	14	1	0	0	0	0	1	0	0	0	1408	1232	43	4	392	4	BEST4	1	45250412	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08	2022315	45250412	204000209	3	10776											
ST6GALNAC5	81849	broad.mit.edu	37	chr1	77510220	77510220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgagccaggtgctgccccGgctgaaggccttcatgatta	7	9	12	13	1	1	3	1	3	0	0	1	3	1	3	5	3	3	2	5	3	2	2			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr1:77510220G>A	uc001dhi.2	+	3	768	c.593G>A	c.(592-594)CGG>CAG	p.R198Q	ST6GALNAC5_uc010ori.1_Intron|ST6GALNAC5_uc009wbw.2_RNA	NM_030965	NP_112227	Q9BVH7	SIA7E_HUMAN	sialyltransferase 7E	198	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			pancreas(1)|skin(1)	2						GTGCTGCCCCGGCTGAAGGCC	0.577													4	105					0	0	0.021553	0	0		A	77510220	A	A	77510220	3	1	14	1	0	0	0	0	1	0	0	0	15252	1116	39	1	603	1	ST6GALNAC5	1	77510220	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08	32259808	77510220	171740401	4	10777											
USH2A	7399	broad.mit.edu	37	chr1	216348749	216348749	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagggtccattcagttctTcaggtggaaaccacctaaga	12	9	11	9	0	3	2	2	0	1	2	4	4	4	3	3	3	1	1	3	3	2	4			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr1:216348749T>A	uc001hku.1	-	21	4859	c.4472A>T	c.(4471-4473)GAA>GTA	p.E1491V	USH2A_uc001hkv.2_Missense_Mutation_p.E1491V	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1491	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATTCAGTTCTTCAGGTGGAAA	0.438										HNSCC(13;0.011)			5	27					0	0	0.014758	0	0		A	216348749	A	A	216348749	3	1	14	1	0	0	0	0	1	0	0	0	17062	1783	62	5	11358	5	USH2A	1	216348749	Missense_Mutation	SNP	T	TCGA-BR-4279-01A-01D-1126-08	138838529	216348749	32901872	5	10778											
B3GNT7	93010	broad.mit.edu	37	chr2	232263406	232263406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctggagctctacccgatcGacgacgtctttctgggcatg	6	10	11	14	4	3	0	0	0	3	0	4	4	3	1	2	2	2	2	2	2	1	2			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr2:232263406G>A	uc002vrs.2	+	2	1156	c.976G>A	c.(976-978)GAC>AAC	p.D326N		NM_145236	NP_660279	Q8NFL0	B3GN7_HUMAN	UDP-GlcNAc:betaGal	326	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;3.22e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0139)		CTACCCGATCGACGACGTCTT	0.677													7	17					0	0	0.038147	0	0		A	232263406	A	A	232263406	3	1	14	1	0	0	0	0	1	0	0	0	1263	1058	37	1	982	1	B3GNT7	2	232263406	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08		232263406	10935967	6	10779											
COL7A1	1294	broad.mit.edu	37	chr3	48621022	48621022	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacccaggttgtcctgggagGcctggagctccatcctcaga	7	8	13	13	0	1	1	1	0	0	1	4	4	4	3	5	4	1	2	5	4	0	1			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr3:48621022G>A	uc003ctz.2	-	40	4369	c.4368C>T	c.(4366-4368)GGC>GGT	p.G1456G		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1456	Triple-helical region.|Interrupted collagenous region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GTCCTGGGAGGCCTGGAGCTC	0.627													6	23					0	0	0.02938	0	0		A	48621022	A	A	48621022	2	1	14	1	0	0	0	0	0	0	0	1	3707	1190	42	2		2	COL7A1	3	48621022	Silent	SNP	G	TCGA-BR-4279-01A-01D-1126-08		48621022	149401408	7	10780											
DRD3	1814	broad.mit.edu	37	chr3	113858530	113858530	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggttggagatggagcaGacagtggggtcccctgtgga	8	8	18	7	0	1	2	1	0	0	2	2	5	2	4	2	6	1	2	2	6	0	1			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr3:113858530G>T	uc003ebd.2	-	6	963	c.540C>A	c.(538-540)GTC>GTA	p.V180V	DRD3_uc010hqn.1_Silent_p.V180V|DRD3_uc003ebb.1_Silent_p.V180V|DRD3_uc003ebc.1_Silent_p.V180V	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	180	Extracellular.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	AGATGGAGCAGACAGTGGGGT	0.498													17	101					1.5739e-10	1.85418e-10	0.028581	1	0		T	113858530	T	T	113858530	2	4	14	1	0	0	0	0	0	0	0	1	4764	929	33	5		5	DRD3	3	113858530	Silent	SNP	G	TCGA-BR-4279-01A-01D-1126-08	65237508	113858530	84163900	8	10781											
SEMA5B	54437	broad.mit.edu	37	chr3	122680090	122680090	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggtgggcaacaggagaCggactgaagccacagggcat	12	4	17	8	1	0	2	0	1	0	1	0	4	0	3	1	6	2	2	1	6	2	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr3:122680090C>T	uc003efz.1	-	2	325	c.21G>A	c.(19-21)CCG>CCA	p.P7P	SEMA5B_uc011bju.1_Intron|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Silent_p.P7P|SEMA5B_uc010hro.1_Intron|SEMA5B_uc010hrp.1_Intron	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	7	Extracellular (Potential).				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		CAACAGGAGACGGACTGAAGC	0.577													5	21					0	0	0.021553	0	0		T	122680090	T	T	122680090	2	4	14	1	0	0	0	0	0	0	0	1	14063	523	19	1		1	SEMA5B	3	122680090	Silent	SNP	C	TCGA-BR-4279-01A-01D-1126-08	8821560	122680090	75342340	9	10782											
ZBTB38	253461	broad.mit.edu	37	chr3	141161551	141161551	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggaaacagtcactgatctCgcagctgcaggaaaaaagct	15	6	10	10	1	2	1	1	1	1	0	3	3	2	3	0	2	4	4	0	2	4	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr3:141161551C>T	uc003etw.2	+	8	1303	c.321C>T	c.(319-321)CTC>CTT	p.L107L	ZBTB38_uc010hun.2_Silent_p.L104L|ZBTB38_uc010huo.2_Silent_p.L107L|ZBTB38_uc003ety.2_Silent_p.L107L|ZBTB38_uc010hup.2_Silent_p.L108L	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	107					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						TCACTGATCTCGCAGCTGCAG	0.423													10	59					0	0	0.069234	0	0		T	141161551	T	T	141161551	2	4	14	1	0	0	0	0	0	0	0	1	17564	871	31	1		1	ZBTB38	3	141161551	Silent	SNP	C	TCGA-BR-4279-01A-01D-1126-08	18481461	141161551	56860879	10	10783											
MUC4	4585	broad.mit.edu	37	chr3	195509142	195509142	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctagtgacaggaagaggCgtggtgtcacctgtggatac	9	8	17	7	1	1	2	1	1	0	1	1	4	1	4	1	5	1	1	1	5	3	2	rs12487058		TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr3:195509142C>G	uc011bto.1	-	3	9385	c.8925G>C	c.(8923-8925)ACG>ACC	p.T2975T	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	845	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		CAGGAAGAGGCGTGGTGTCAC	0.602													3	10					0	0	0.010729	0	0		G	195509142	G	G	195509142	2	3	14	1	0	0	0	0	0	0	0	1	9996	755	27	5		5	MUC4	3	195509142	Silent	SNP	C	TCGA-BR-4279-01A-01D-1126-08	54347591	195509142	2513288	11	10784											
DCHS2	54798	broad.mit.edu	37	chr4	155250824	155250824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtcatctcatggtgcccccGgtgctcacgatccagtgcca	7	9	10	15	2	3	0	3	0	1	0	5	1	4	0	4	2	3	1	4	2	0	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr4:155250824G>A	uc003inw.2	-	11	2404	c.2404C>T	c.(2404-2406)CGG>TGG	p.R802W	DCHS2_uc003inx.2_Missense_Mutation_p.R1257W	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	802	Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TGGTGCCCCCGGTGCTCACGA	0.552													11	40					0	0	0.013537	0	0		A	155250824	A	A	155250824	3	1	14	1	0	0	0	0	1	0	0	0	4291	1115	39	1	6502	1	DCHS2	4	155250824	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08		155250824	35903452	12	10785											
RXFP1	59350	broad.mit.edu	37	chr4	159560437	159560437	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagaagggattgaaatttcaAatatccaacaaaggatgttt	17	12	8	4	0	1	2	1	1	0	1	2	4	2	4	1	2	1	1	1	2	7	5			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr4:159560437A>G	uc003ipz.2	+	14	1151	c.1069A>G	c.(1069-1071)AAT>GAT	p.N357D	RXFP1_uc010iqj.1_Missense_Mutation_p.N186D|RXFP1_uc011cja.1_Missense_Mutation_p.N252D|RXFP1_uc010iqo.2_Missense_Mutation_p.N309D|RXFP1_uc011cjb.1_Missense_Mutation_p.N255D|RXFP1_uc010iqk.2_Missense_Mutation_p.N225D|RXFP1_uc011cjc.1_Missense_Mutation_p.N276D|RXFP1_uc011cjd.1_Missense_Mutation_p.N276D|RXFP1_uc010iql.2_Missense_Mutation_p.N201D|RXFP1_uc011cje.1_Missense_Mutation_p.N384D|RXFP1_uc010iqm.2_Missense_Mutation_p.N324D|RXFP1_uc011cjf.1_Missense_Mutation_p.N226D|RXFP1_uc010iqn.2_Missense_Mutation_p.N302D	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	357	Extracellular (Potential).|LRR 9.					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		TGAAATTTCAAATATCCAACA	0.284													5	33					0	0	0.014758	0	0		G	159560437	G	G	159560437	3	3	14	1	0	0	0	0	1	0	0	0	13784	14	1	3	1123	3	RXFP1	4	159560437	Missense_Mutation	SNP	A	TCGA-BR-4279-01A-01D-1126-08	4309613	159560437	31593839	13	10786											
BDP1	55814	broad.mit.edu	37	chr5	70759924	70759924	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaaaactgaaaagccatcGactccagtccagacaagaga	19	4	8	10	1	0	4	0	1	0	3	3	6	2	4	3	0	2	0	3	0	6	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr5:70759924G>A	uc003kbp.1	+	4	902	c.639G>A	c.(637-639)TCG>TCA	p.S213S	BDP1_uc003kbn.1_Silent_p.S213S|BDP1_uc003kbo.2_Silent_p.S213S	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	213	Interaction with ZBTB43.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AAAAGCCATCGACTCCAGTCC	0.264													4	35					0	0	0.009096	0	0		A	70759924	A	A	70759924	2	1	14	1	0	0	0	0	0	0	0	1	1396	1045	37	1		1	BDP1	5	70759924	Silent	SNP	G	TCGA-BR-4279-01A-01D-1126-08		70759924	110155336	14	10787											
ACOT12	134526	broad.mit.edu	37	chr5	80631636	80631636	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtaaagtcagacaagagacGataagccaaatgtgctggac	16	7	11	7	1	1	2	1	0	0	2	1	5	1	3	1	1	2	2	1	1	5	2			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr5:80631636G>A	uc003khl.3	-	12	1268	c.1213C>T	c.(1213-1215)CGT>TGT	p.R405C	RNU5E_uc011cto.1_Intron	NM_130767	NP_570123	Q8WYK0	ACO12_HUMAN	acyl-CoA thioesterase 12	405	START.				acyl-CoA metabolic process|fatty acid metabolic process	cytosol	acetyl-CoA hydrolase activity|carboxylesterase activity			ovary(1)|kidney(1)	2		Lung NSC(167;0.0176)|all_lung(232;0.0205)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;1.37e-45)|Epithelial(54;1.25e-39)|all cancers(79;5.01e-34)		GACAAGAGACGATAAGCCAAA	0.348													16	85					0	0	0.062417	0	0		A	80631636	A	A	80631636	3	1	14	1	0	0	0	0	1	0	0	0	150	1058	37	1	470	1	ACOT12	5	80631636	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08	9871712	80631636	100283624	15	10788											
HSD17B4	3295	broad.mit.edu	37	chr5	118861675	118861675	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgccaggcgtgtgttacAgcagtttgcagataatgatg	9	13	12	7	1	1	2	0	1	1	1	1	2	1	2	1	1	4	4	1	1	2	4			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr5:118861675A>G	uc003ksj.2	+	19	1760	c.1637A>G	c.(1636-1638)CAG>CGG	p.Q546R	HSD17B4_uc011cwg.1_Missense_Mutation_p.Q522R|HSD17B4_uc011cwh.1_Missense_Mutation_p.Q528R|HSD17B4_uc011cwi.1_Missense_Mutation_p.Q571R|HSD17B4_uc003ksk.3_Missense_Mutation_p.Q399R|HSD17B4_uc011cwj.1_Missense_Mutation_p.Q399R|HSD17B4_uc010jcn.1_Missense_Mutation_p.Q284R|HSD17B4_uc010jco.1_Missense_Mutation_p.S15G	NM_000414	NP_000405	P51659	DHB4_HUMAN	hydroxysteroid (17-beta) dehydrogenase 4	546	MaoC-like.|Enoyl-CoA hydratase 2.				bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3-hydroxyacyl-CoA dehydrogenase activity|3alpha,7alpha,12alpha-trihydroxy-5beta-cholest-24-enoyl-CoA hydratase activity|estradiol 17-beta-dehydrogenase activity|isomerase activity|long-chain-enoyl-CoA hydratase activity|protein binding|sterol binding|sterol transporter activity			ovary(1)|pancreas(1)	2		all_cancers(142;0.0206)|Prostate(80;0.0322)		OV - Ovarian serous cystadenocarcinoma(64;0.000247)|Epithelial(69;0.000849)|all cancers(49;0.0122)	NADH(DB00157)	CGTGTGTTACAGCAGTTTGCA	0.348													17	82					0	0	0.038395	0	0		G	118861675	G	G	118861675	3	3	14	1	0	0	0	0	1	0	0	0	7402	188	7	3	1711	3	HSD17B4	5	118861675	Missense_Mutation	SNP	A	TCGA-BR-4279-01A-01D-1126-08	38230039	118861675	62053585	16	10789											
PCDHGA7	56108	broad.mit.edu	37	chr5	140764604	140764604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgtcctcgtactgctggCgctcaggctgcggcgctggc	2	10	14	15	5	1	0	1	0	0	0	4	0	2	0	1	4	3	5	1	4	1	2			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr5:140764604C>T	uc003lka.1	+	1	2138	c.2138C>T	c.(2137-2139)GCG>GTG	p.A713V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGB4_uc003lkc.1_5'Flank|PCDHGA7_uc003ljz.1_Missense_Mutation_p.A713V|PCDHGB4_uc011dav.1_5'Flank	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	713	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTACTGCTGGCGCTCAGGCTG	0.632													12	46					0	0	0.016723	0	0		T	140764604	T	T	140764604	3	4	14	1	0	0	0	0	1	0	0	0	11578	768	27	1	2140	1	PCDHGA7	5	140764604	Missense_Mutation	SNP	C	TCGA-BR-4279-01A-01D-1126-08	21902929	140764604	40150656	17	10790											
HSPA1L	3305	broad.mit.edu	37	chr6	31779057	31779057	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgtcaaagtcctccccAcccaggtgagtgtccccagc	7	9	9	16	0	1	1	1	1	0	0	4	1	4	1	6	1	1	1	6	1	1	1			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr6:31779057A>G	uc003nxh.2	-	2	876	c.693T>C	c.(691-693)GGT>GGC	p.G231G	HSPA1L_uc010jte.2_Silent_p.G231G	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	231					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						AGTCCTCCCCACCCAGGTGAG	0.507													11	77					0	0	0.028581	0	0		G	31779057	G	G	31779057	2	3	14	1	0	0	0	0	0	0	0	1	7426	146	6	3		3	HSPA1L	6	31779057	Silent	SNP	A	TCGA-BR-4279-01A-01D-1126-08		31779057	139336010	18	10791											
KIFC1	3833	broad.mit.edu	37	chr6	33372771	33372771	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatggagcgccggcgacTgcacaaccagctgcaggaac	13	3	13	12	3	0	1	0	0	0	1	0	4	0	3	2	3	6	3	2	3	3	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr6:33372771T>G	uc003oef.3	+	7	1349	c.899T>G	c.(898-900)CTG>CGG	p.L300R	KIFC1_uc011drf.1_Missense_Mutation_p.L292R	NM_002263	NP_002254	Q9BW19	KIFC1_HUMAN	kinesin family member C1	300	Potential.				blood coagulation|cell division|microtubule-based movement|mitotic sister chromatid segregation	early endosome|microtubule|microtubule associated complex|microtubule organizing center|nucleus|spindle	ATP binding|microtubule motor activity				0						CGCCGGCGACTGCACAACCAG	0.642													9	54					0	0	0.069234	0	0		G	33372771	G	G	33372771	3	3	14	1	0	0	0	0	1	0	0	0	8328	1580	55	5	925	5	KIFC1	6	33372771	Missense_Mutation	SNP	T	TCGA-BR-4279-01A-01D-1126-08	1593714	33372771	137742296	19	10792											
RIMS1	22999	broad.mit.edu	37	chr6	73102406	73102406	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttttgctgatagtttaatAtttcctggagtgcgactggg	7	16	11	7	1	0	1	0	1	0	0	1	3	1	2	2	2	2	2	2	2	3	7			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr6:73102406A>G	uc003pga.2	+	31	4589	c.4512A>G	c.(4510-4512)ATA>ATG	p.I1504M	RIMS1_uc011dyb.1_Missense_Mutation_p.I901M|RIMS1_uc003pgc.2_Missense_Mutation_p.I953M|RIMS1_uc010kaq.2_Missense_Mutation_p.I824M|RIMS1_uc011dyc.1_Missense_Mutation_p.I629M|RIMS1_uc010kar.2_Missense_Mutation_p.I572M|RIMS1_uc011dyd.1_Missense_Mutation_p.I638M|RIMS1_uc003pgf.2_Missense_Mutation_p.I504M|RIMS1_uc003pgg.2_Missense_Mutation_p.I400M|RIMS1_uc003pgi.2_Missense_Mutation_p.I320M|RIMS1_uc003pgh.2_Missense_Mutation_p.I371M|RIMS1_uc003pgd.2_Missense_Mutation_p.I570M|RIMS1_uc003pge.2_Missense_Mutation_p.I544M|RIMS1_uc011dye.1_Missense_Mutation_p.I310M|RIMS1_uc011dyf.1_Missense_Mutation_p.I128M|RIMS1_uc011dyg.1_Missense_Mutation_p.I31M	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1504					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				ATAGTTTAATATTTCCTGGAG	0.418													12	34					0	0	0.013537	0	0		G	73102406	G	G	73102406	3	3	14	1	0	0	0	0	1	0	0	0	13392	439	16	3	4797	3	RIMS1	6	73102406	Missense_Mutation	SNP	A	TCGA-BR-4279-01A-01D-1126-08	39729635	73102406	98012661	20	10793											
C6orf170	221322	broad.mit.edu	37	chr6	121412103	121412103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacttgataatcaggaccaaGgaaaacacaagtagcaatat	19	7	7	8	0	1	1	1	1	0	0	1	3	1	3	1	2	2	2	1	2	8	4			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr6:121412103G>A	uc003pyo.1	-	31	3618	c.3550C>T	c.(3550-3552)CTT>TTT	p.L1184F		NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	1184	Rab-GAP TBC.				multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		TCAGGACCAAGGAAAACACAA	0.343													4	86					0	0	0.014758	0	0		A	121412103	A	A	121412103	3	1	14	1	0	0	0	0	1	0	0	0	2347	1000	35	4	231	4	C6orf170	6	121412103	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08	48309697	121412103	49702964	21	10794											
SYNE1	23345	broad.mit.edu	37	chr6	152631075	152631075	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagctggcaaccacatcctcGgggatccggagggcactctg	9	6	13	13	2	1	0	0	0	1	0	4	2	3	2	3	5	2	3	3	5	2	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr6:152631075G>A	uc010kiw.2	-	90	17699	c.17097C>T	c.(17095-17097)CCC>CCT	p.P5699P	SYNE1_uc010kiv.2_Silent_p.P223P|SYNE1_uc003qos.3_Silent_p.P223P|SYNE1_uc003qot.3_Silent_p.P5628P|SYNE1_uc003qou.3_Silent_p.P5699P	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5699	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CCACATCCTCGGGGATCCGGA	0.557										HNSCC(10;0.0054)			6	29					0	0	0.021553	0	0		A	152631075	A	A	152631075	2	1	14	1	0	0	0	0	0	0	0	1	15470	1103	39	1		1	SYNE1	6	152631075	Silent	SNP	G	TCGA-BR-4279-01A-01D-1126-08	31218972	152631075	18483992	22	10795											
LPA	4018	broad.mit.edu	37	chr6	161015130	161015130	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtagcaatcctggaccccGgggctttgctccgttggtgc	4	11	14	12	2	0	0	0	0	0	0	2	1	2	1	4	5	3	5	4	5	2	3			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr6:161015130G>A	uc003qtl.2	-	23	3609	c.3489C>T	c.(3487-3489)CCC>CCT	p.P1163P		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3671	Kringle 33.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	CCTGGACCCCGGGGCTTTGCT	0.468													20	91					0	0	0.062417	0	0		A	161015130	A	A	161015130	2	1	14	1	0	0	0	0	0	0	0	1	8921	1103	39	1		1	LPA	6	161015130	Silent	SNP	G	TCGA-BR-4279-01A-01D-1126-08	8384055	161015130	10099937	23	10796											
DLC1	10395	broad.mit.edu	37	chr8	12958040	12958040	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggggcgcgtggctggggagGctgccagtgctgctgaggct	3	7	22	9	2	0	1	0	1	0	0	0	2	0	2	1	7	3	5	1	7	0	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr8:12958040G>C	uc003wwm.2	-	9	2250	c.1806C>G	c.(1804-1806)AGC>AGG	p.S602R	DLC1_uc003wwk.1_Missense_Mutation_p.S165R|DLC1_uc003wwl.1_Missense_Mutation_p.S199R|DLC1_uc011kxx.1_Missense_Mutation_p.S91R	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	602					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GGCTGGGGAGGCTGCCAGTGC	0.677													3	0					0	0	0.021553	0	0		C	12958040	C	C	12958040	3	2	14	1	0	0	0	0	1	0	0	0	4556	1194	42	5	2820	5	DLC1	8	12958040	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08		12958040	133405982	24	10797											
C8orf58	541565	broad.mit.edu	37	chr8	22458519	22458519	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgacaagttcagaggtgtCggcagggaggcactctttct	8	10	15	8	1	3	2	1	1	2	1	4	3	3	3	0	5	0	3	0	5	1	2	rs138371466		TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr8:22458519C>T	uc003xce.2	+	2	277	c.165C>T	c.(163-165)GTC>GTT	p.V55V	C8orf58_uc011kzl.1_Silent_p.V55V|C8orf58_uc003xcf.2_Silent_p.V55V	NM_001013842	NP_001013864	Q8NAV2	CH058_HUMAN	hypothetical protein LOC541565	55										skin(1)	1		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00563)|Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		TCAGAGGTGTCGGCAGGGAGG	0.637													5	21					0	0	0.038147	0	0		T	22458519	T	T	22458519	2	4	14	1	0	0	0	0	0	0	0	1	2436	871	31	1		1	C8orf58	8	22458519	Silent	SNP	C	TCGA-BR-4279-01A-01D-1126-08	9500479	22458519	123905503	25	10798											
ENTPD4	9583	broad.mit.edu	37	chr8	23305223	23305223	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcatgaccactggctttcGgtttttatccctcatttgcc	5	17	6	13	1	2	1	2	1	0	0	4	1	3	1	3	2	1	2	3	2	1	6			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr8:23305223G>A	uc003xdl.2	-	4	546	c.382C>T	c.(382-384)CGA>TGA	p.R128*	ENTPD4_uc011kzu.1_Nonsense_Mutation_p.R128*|ENTPD4_uc003xdm.2_Nonsense_Mutation_p.R128*|ENTPD4_uc011kzv.1_Nonsense_Mutation_p.R128*|ENTPD4_uc011kzw.1_Nonsense_Mutation_p.R94*	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	128	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		ACTGGCTTTCGGTTTTTATCC	0.453													44	158					0	0	0.048971	0	0		A	23305223	A	A	23305223	4	1	14	1	0	0	0	0	0	1	0	0	5149	1124	39	1	1508	1	ENTPD4	8	23305223	Nonsense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08	846704	23305223	123058799	26	10799											
KIF13B	23303	broad.mit.edu	37	chr8	28999695	28999695	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggttatcttcttcacactcTttccactcctgataaaggtc	8	15	6	12	0	4	1	1	1	3	0	7	1	6	1	2	2	0	1	2	2	3	5			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr8:28999695T>C	uc003xhh.3	-	19	2372	c.2313A>G	c.(2311-2313)AAA>AAG	p.K771K		NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	771	Potential.				microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		CTTCACACTCTTTCCACTCCT	0.403													13	50					0	0	0.020292	0	0		C	28999695	C	C	28999695	2	2	14	1	0	0	0	0	0	0	0	1	8291	1606	56	3		3	KIF13B	8	28999695	Silent	SNP	T	TCGA-BR-4279-01A-01D-1126-08	5694472	28999695	117364327	27	10800											
AP3M2	10947	broad.mit.edu	37	chr8	42012282	42012282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggaaaagtgtggtcagccGttctgtttgtgattactttt	7	18	11	5	1	2	1	1	1	1	0	2	2	2	2	1	2	2	2	1	2	3	6			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr8:42012282G>A	uc003xop.2	+	3	368	c.77G>A	c.(76-78)CGT>CAT	p.R26H	AP3M2_uc003xoo.2_Missense_Mutation_p.R26H|AP3M2_uc010lxe.2_RNA|AP3M2_uc003xoq.1_5'UTR|AP3M2_uc003xor.1_Missense_Mutation_p.R26H	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	26					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			GTGGTCAGCCGTTCTGTTTGT	0.453													4	42					0	0	0.021553	0	0		A	42012282	A	A	42012282	3	1	14	1	0	0	0	0	1	0	0	0	748	1145	40	1	79	1	AP3M2	8	42012282	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08	13012587	42012282	104351740	28	10801											
TOP1MT	116447	broad.mit.edu	37	chr8	144400005	144400005	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtgcttgttcaggctggtCgtctggggaggaaaatggtc	7	11	17	6	1	2	0	1	0	1	0	4	2	2	2	0	7	1	3	0	7	2	2			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr8:144400005C>T	uc003yxz.2	-	10	1237	c.1218G>A	c.(1216-1218)ACG>ACA	p.T406T	TOP1MT_uc011lkd.1_Silent_p.T308T|TOP1MT_uc011lke.1_Silent_p.T308T|TOP1MT_uc010mfb.2_Silent_p.T308T|TOP1MT_uc011lkf.1_Silent_p.T201T	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	406					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	TCAGGCTGGTCGTCTGGGGAG	0.602													5	17					0	0	0.014758	0	0		T	144400005	T	T	144400005	2	4	14	1	0	0	0	0	0	0	0	1	16390	871	31	1		1	TOP1MT	8	144400005	Silent	SNP	C	TCGA-BR-4279-01A-01D-1126-08	102387723	144400005	1964017	29	10802											
AK3	50808	broad.mit.edu	37	chr9	4712977	4712977	+	Nonstop_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tagttacacacatttctcctCatggagtaactgaagctttc	11	14	6	10	0	2	1	1	1	1	0	4	2	2	2	1	1	3	3	1	1	4	5			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr9:4712977C>G	uc003ziq.1	-	5	823	c.683G>C	c.(682-684)TGA>TCA	p.*228S	AK3_uc003zip.1_RNA|AK3_uc011lma.1_Nonstop_Mutation_p.*188S|AK3_uc003zir.1_Nonstop_Mutation_p.*158S	NM_016282	NP_057366	Q9UIJ7	KAD3_HUMAN	adenylate kinase 3	228					blood coagulation	mitochondrial matrix	ATP binding|GTP binding|nucleoside triphosphate adenylate kinase activity			ovary(2)	2	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0302)		CATTTCTCCTCATGGAGTAAC	0.383													8	53					0	0	0.047766	0	0		G	4712977	G	G	4712977	4	3	14	1	0	0	0	0	0	0	0	0	441	837	29	5	4	5	AK3	9	4712977	Nonstop_Mutation	SNP	C	TCGA-BR-4279-01A-01D-1126-08		4712977	136500454	30	10803											
CER1	9350	broad.mit.edu	37	chr9	14720137	14720137	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggagccagcatgtaggAtgtgtccatcttcatgctcc	7	11	11	12	0	2	0	1	0	1	0	4	2	4	2	4	2	3	3	4	2	1	2			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr9:14720137A>G	uc003zlj.2	-	2	800	c.755T>C	c.(754-756)ATC>ACC	p.I252T		NM_005454	NP_005445	O95813	CER1_HUMAN	cerberus 1 precursor	252					BMP signaling pathway	extracellular space	cytokine activity				0				GBM - Glioblastoma multiforme(50;3.16e-06)		AGCATGTAGGATGTGTCCATC	0.488													14	50					0	0	0.016723	0	0		G	14720137	G	G	14720137	3	3	14	1	0	0	0	0	1	0	0	0	3268	333	12	3	52	3	CER1	9	14720137	Missense_Mutation	SNP	A	TCGA-BR-4279-01A-01D-1126-08	10007160	14720137	126493294	31	10804											
PAPPA	5069	broad.mit.edu	37	chr9	118950313	118950313	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccgagtgcaaccacacgctGacgggccacgacggcgggga	9	2	15	15	6	0	1	0	1	0	0	0	4	0	2	3	4	2	2	3	4	1	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr9:118950313G>C	uc004bjn.2	+	2	1677	c.1296G>C	c.(1294-1296)CTG>CTC	p.L432L	PAPPA_uc011lxp.1_Silent_p.L225L|PAPPA_uc011lxq.1_Silent_p.L225L	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	432	Metalloprotease.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						ACCACACGCTGACGGGCCACG	0.612													3	17					0	0	0.004672	0	0		C	118950313	C	C	118950313	2	2	14	1	0	0	0	0	0	0	0	1	11451	1277	45	5		5	PAPPA	9	118950313	Silent	SNP	G	TCGA-BR-4279-01A-01D-1126-08	104230176	118950313	22263118	32	10805											
SPTAN1	6709	broad.mit.edu	37	chr9	131339474	131339474	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atggcctctgatgattttggCcgagacctggcaagtgttca	8	12	12	9	1	2	3	1	2	1	1	2	4	2	3	3	3	0	2	3	3	1	3			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr9:131339474C>T	uc004bvl.3	+	7	965	c.852C>T	c.(850-852)GGC>GGT	p.G284G	SPTAN1_uc011mbg.1_Silent_p.G284G|SPTAN1_uc011mbh.1_Silent_p.G296G|SPTAN1_uc004bvm.3_Silent_p.G284G|SPTAN1_uc004bvn.3_Silent_p.G284G	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	284	Spectrin 4.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						ATGATTTTGGCCGAGACCTGG	0.483													4	148					0	0	0.009096	0	0		T	131339474	T	T	131339474	2	4	14	1	0	0	0	0	0	0	0	1	15142	726	26	2		2	SPTAN1	9	131339474	Silent	SNP	C	TCGA-BR-4279-01A-01D-1126-08	12389161	131339474	9873957	33	10806											
FAS	355	broad.mit.edu	37	chr10	90774152	90774152	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactatcatcctcaaggacaTtactagtgactcagaaaatt	15	11	6	9	0	3	2	3	1	0	1	4	4	4	3	1	1	1	0	1	1	6	4			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr10:90774152T>A	uc001kfr.2	+	9	1299	c.953T>A	c.(952-954)ATT>AAT	p.I318N	FAS_uc010qna.1_RNA|FAS_uc001kfs.2_3'UTR|FAS_uc001kft.2_Missense_Mutation_p.I297N|FAS_uc010qnb.1_RNA|FAS_uc010qnc.1_RNA|FAS_uc001kfw.2_3'UTR|FAS_uc010qnd.1_RNA|FAS_uc010qne.1_RNA|FAS_uc009xtp.2_RNA	NM_000043	NP_000034	P25445	TNR6_HUMAN	tumor necrosis factor receptor superfamily,	318	Cytoplasmic (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|anti-apoptosis|cellular response to mechanical stimulus|positive regulation of necrotic cell death	cytosol|extracellular region|integral to membrane|soluble fraction	identical protein binding|kinase binding			upper_aerodigestive_tract(1)|breast(1)	2		Colorectal(252;0.0161)		Colorectal(12;0.000136)|COAD - Colon adenocarcinoma(12;0.000193)		CTCAAGGACATTACTAGTGAC	0.338									Autoimmune_Lymphoproliferative_syndrome_type_I				14	68					0	0	0.028581	0	0		A	90774152	A	A	90774152	3	1	14	1	0	0	0	0	1	0	0	0	5695	1493	52	5	987	5	FAS	10	90774152	Missense_Mutation	SNP	T	TCGA-BR-4279-01A-01D-1126-08		90774152	44760595	34	10807											
KCNA5	3741	broad.mit.edu	37	chr12	5154556	5154556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcatcttcaagctctccCgccactccaaggggctgcag	7	8	9	17	2	3	0	1	0	2	0	6	0	5	0	4	2	2	4	4	2	2	1			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr12:5154556C>T	uc001qni.2	+	1	1472	c.1243C>T	c.(1243-1245)CGC>TGC	p.R415C		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	415	Helical; Voltage-sensor; Name=Segment S4; (Potential).					Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						CAAGCTCTCCCGCCACTCCAA	0.632													5	22					0	0	0.013537	0	0		T	5154556	T	T	5154556	3	4	14	1	0	0	0	0	1	0	0	0	8022	652	23	1	1245	1	KCNA5	12	5154556	Missense_Mutation	SNP	C	TCGA-BR-4279-01A-01D-1126-08		5154556	128697339	35	10808											
LRRK2	120892	broad.mit.edu	37	chr12	40740652	40740652	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctatgacattttgacaacTggaggtagaatagtagaggg	13	11	12	5	0	1	4	0	2	1	2	1	5	1	5	0	3	1	2	0	3	6	6			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr12:40740652T>G	uc001rmg.3	+	42	6328	c.6207T>G	c.(6205-6207)ACT>ACG	p.T2069T	LRRK2_uc009zjw.2_Silent_p.T907T|LRRK2_uc001rmi.2_Silent_p.T902T	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2069	Protein kinase.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				TTTTGACAACTGGAGGTAGAA	0.363													6	35					0	0	0.021553	0	0		G	40740652	G	G	40740652	2	3	14	1	0	0	0	0	0	0	0	1	9051	1567	55	5		5	LRRK2	12	40740652	Silent	SNP	T	TCGA-BR-4279-01A-01D-1126-08	35586096	40740652	93111243	36	10809											
NEDD1	121441	broad.mit.edu	37	chr12	97345236	97345236	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgccatagggacattgtgaAtttgcaagtggagatgatta	13	12	12	4	0	0	3	0	2	0	1	0	5	0	4	1	2	2	1	1	2	4	4			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr12:97345236A>T	uc001teu.3	+	15	2177	c.1838A>T	c.(1837-1839)AAT>ATT	p.N613I	NEDD1_uc001tev.3_Missense_Mutation_p.N613I|NEDD1_uc010svc.1_Missense_Mutation_p.N524I|NEDD1_uc001tew.2_Missense_Mutation_p.N620I|NEDD1_uc001tex.2_Missense_Mutation_p.N524I	NM_152905	NP_690869	Q8NHV4	NEDD1_HUMAN	neural precursor cell expressed, developmentally	613					cell division|G2/M transition of mitotic cell cycle|mitosis	cytosol					0						GACATTGTGAATTTGCAAGTG	0.289													11	55					0	0	0.069234	0	0		T	97345236	T	T	97345236	3	4	14	1	0	0	0	0	1	0	0	0	10328	101	4	5	1913	5	NEDD1	12	97345236	Missense_Mutation	SNP	A	TCGA-BR-4279-01A-01D-1126-08	56604584	97345236	36506659	37	10810											
SLC5A8	160728	broad.mit.edu	37	chr12	101603454	101603454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctagcggtgagggacagcGccacgggcactgcggtcatt	8	6	16	11	4	1	1	1	1	0	0	1	2	1	2	1	4	4	2	1	4	1	2			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr12:101603454G>A	uc001thz.3	-	1	563	c.173C>T	c.(172-174)GCG>GTG	p.A58V		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	58	Helical; (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						GAGGGACAGCGCCACGGGCAC	0.632													5	25					0	0	0.02938	0	0		A	101603454	A	A	101603454	3	1	14	1	0	0	0	0	1	0	0	0	14696	1087	38	1	1719	1	SLC5A8	12	101603454	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08	4258218	101603454	32248441	38	10811											
CCDC60	160777	broad.mit.edu	37	chr12	119954427	119954427	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctctcatattctcatcaGatctgcagaagctcctggag	10	11	8	12	0	4	2	3	0	3	2	7	4	5	3	2	1	2	2	2	1	2	2			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr12:119954427G>T	uc001txe.2	+	8	1349	c.884_splice	c.e8-1	p.N295_splice	uc001txf.2_Intron	NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60											ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		ATTCTCATCAGATCTGCAGAA	0.537													7	32					7.48243e-07	8.57985e-07	0.058154	1	0		T	119954427	T	T	119954427	5	4	14	1	0	0	0	0	0	0	1	0	2834	956	33	5	913	5	CCDC60	12	119954427	Splice_Site	SNP	G	TCGA-BR-4279-01A-01D-1126-08	18350973	119954427	13897468	39	10812											
TMEM132B	114795	broad.mit.edu	37	chr12	126137113	126137113	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctccctgcagccacacCgagcagacaaaagggccatc	11	5	8	17	1	1	1	0	0	1	1	4	2	2	1	4	1	3	2	4	1	2	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr12:126137113C>T	uc001uhe.1	+	8	2034	c.2026C>T	c.(2026-2028)CGA>TGA	p.R676*	TMEM132B_uc001uhf.1_Nonsense_Mutation_p.R188*	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	676	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		GCAGCCACACCGAGCAGACAA	0.612													8	37					0	0	0.010729	0	0		T	126137113	T	T	126137113	4	4	14	1	0	0	0	0	0	1	0	0	16071	644	23	1	2056	1	TMEM132B	12	126137113	Nonsense_Mutation	SNP	C	TCGA-BR-4279-01A-01D-1126-08	6182686	126137113	7714782	40	10813											
ANKRD10	55608	broad.mit.edu	37	chr13	111532325	111532325	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctaatccactgctaattcCgttagttcctgtcaagcact	9	13	7	12	1	1	0	1	0	0	0	4	0	4	0	3	1	2	5	3	1	4	5			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr13:111532325C>G	uc001vrn.2	-	6	1057	c.922G>C	c.(922-924)GGA>CGA	p.G308R	ANKRD10_uc001vrm.2_Missense_Mutation_p.G45R|ANKRD10_uc001vrl.2_RNA	NM_017664	NP_060134	Q9NXR5	ANR10_HUMAN	ankyrin repeat domain 10	308										central_nervous_system(1)	1	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		all cancers(43;0.0882)|BRCA - Breast invasive adenocarcinoma(86;0.188)|Lung(89;0.208)			CTGCTAATTCCGTTAGTTCCT	0.532													10	61					0	0	0.010729	0	0		G	111532325	G	G	111532325	3	3	14	1	0	0	0	0	1	0	0	0	638	661	23	5	344	5	ANKRD10	13	111532325	Missense_Mutation	SNP	C	TCGA-BR-4279-01A-01D-1126-08		111532325	3637553	41	10814											
OR4K17	390436	broad.mit.edu	37	chr14	20586246	20586246	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagacatatattttgtacaGgtagtcattgttgccaacag	13	14	8	6	0	1	1	1	0	0	1	1	1	1	1	1	1	3	3	1	1	6	9			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr14:20586246G>A	uc001vwo.1	+	1	681	c.681G>A	c.(679-681)CAG>CAA	p.Q227Q		NM_001004715	NP_001004715	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K,	199	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		ATTTTGTACAGGTAGTCATTG	0.413													29	126					0	0	0.045705	0	0		A	20586246	A	A	20586246	2	1	14	1	0	0	0	0	0	0	0	1	11090	991	35	4		4	OR4K17	14	20586246	Silent	SNP	G	TCGA-BR-4279-01A-01D-1126-08		20586246	86763294	42	10815											
BRMS1L	84312	broad.mit.edu	37	chr14	36302313	36302313	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcgtacaaaggtagcaggTaggaaagtgaagaatctttt	15	11	11	4	1	1	2	0	1	1	1	2	3	1	3	0	3	2	4	0	3	7	6			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr14:36302313T>C	uc001wtl.2	+	3	487	c.361_splice	c.e3+2	p.G121_splice	BRMS1L_uc010tpx.1_Splice_Site_p.G73_splice	NM_032352	NP_115728	Q5PSV4	BRM1L_HUMAN	breast cancer metastasis-suppressor 1-like						regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				skin(1)	1	Breast(36;0.137)|Hepatocellular(127;0.158)		Lung(8;1.7e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.00467)|all cancers(34;0.0157)|BRCA - Breast invasive adenocarcinoma(188;0.158)	GBM - Glioblastoma multiforme(112;0.0333)		AGGTAGCAGGTAGGAAAGTGA	0.358													4	23					0	0	0.009096	0	0		C	36302313	C	C	36302313	5	2	14	1	0	0	0	0	0	0	1	0	1520	1652	57	3	373	3	BRMS1L	14	36302313	Splice_Site	SNP	T	TCGA-BR-4279-01A-01D-1126-08	15716067	36302313	71047227	43	10816											
OCA2	4948	broad.mit.edu	37	chr15	28096604	28096604	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acctcagggtcgtggctcagGttcaggagcacgggaatctg	8	8	15	10	2	4	0	3	0	1	0	5	2	4	2	1	5	1	3	1	5	1	1			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr15:28096604G>C	uc001zbh.3	-	22	2372	c.2262C>G	c.(2260-2262)AAC>AAG	p.N754K	OCA2_uc010ayv.2_Missense_Mutation_p.N730K	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	754	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		CGTGGCTCAGGTTCAGGAGCA	0.582									Oculocutaneous_Albinism				3	9					0	0	0.009096	0	0		C	28096604	C	C	28096604	3	2	14	1	0	0	0	0	1	0	0	0	10834	1252	44	5	266	5	OCA2	15	28096604	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08		28096604	74434788	44	10817											
DUOX2	50506	broad.mit.edu	37	chr15	45388106	45388106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtccagggccccactgcccGgatgtgcaggctgagtgtgt	5	8	16	12	1	0	1	0	1	0	0	1	2	1	2	4	4	2	2	4	4	0	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr15:45388106G>A	uc010bea.2	-	30	4203	c.4000C>T	c.(4000-4002)CGG>TGG	p.R1334W	DUOX2_uc001zun.2_Missense_Mutation_p.R1334W	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1334	Cytoplasmic (Potential).|FAD-binding FR-type.				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		CCCACTGCCCGGATGTGCAGG	0.642													5	43					0	0	0.02938	0	0		A	45388106	A	A	45388106	3	1	14	1	0	0	0	0	1	0	0	0	4807	1115	39	1	666	1	DUOX2	15	45388106	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08	17291502	45388106	57143286	45	10818											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84442350	84442350	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgactggagtgactgctccCggacctgtgggggaggagca	7	6	18	10	2	0	1	0	1	0	0	1	6	1	5	2	5	2	2	2	5	0	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr15:84442350C>A	uc002bjz.3	+	4	489	c.265C>A	c.(265-267)CGG>AGG	p.R89R	ADAMTSL3_uc002bjy.1_Silent_p.R89R|ADAMTSL3_uc010bmt.1_Silent_p.R89R|ADAMTSL3_uc010bmu.1_Silent_p.R89R	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	89	TSP type-1 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			TGACTGCTCCCGGACCTGTGG	0.502													12	79					7.93312e-07	8.97695e-07	0.020292	1	0		A	84442350	A	A	84442350	2	1	14	1	0	0	0	0	0	0	0	1	276	643	23	5		5	ADAMTSL3	15	84442350	Silent	SNP	C	TCGA-BR-4279-01A-01D-1126-08	39054244	84442350	18089042	46	10819											
TPSD1	23430	broad.mit.edu	37	chr16	1306825	1306825	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaggatctggccgccctcagGgtgcaactgcgggagcagca	9	5	15	12	2	2	0	1	0	1	0	2	2	2	2	2	4	5	3	2	4	2	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr16:1306825G>C	uc002clb.1	+	3	291	c.282G>C	c.(280-282)AGG>AGC	p.R94S	TPSD1_uc010brm.1_Silent_p.P23P	NM_012217	NP_036349	Q9BZJ3	TRYD_HUMAN	tryptase delta 1 precursor	94	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0		Hepatocellular(780;0.00369)				CCGCCCTCAGGGTGCAACTGC	0.662													6	16					0	0	0.02938	0	0		C	1306825	C	C	1306825	3	2	14	1	0	0	0	0	1	0	0	0	16451	1223	43	5	292	5	TPSD1	16	1306825	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08		1306825	89047928	47	10820											
CDH1	999	broad.mit.edu	37	chr16	68842728	68842728	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtgacagagcctctggatAgagaacgcattgccacatac	13	7	11	10	1	1	3	0	1	1	2	1	5	1	4	2	2	4	1	2	2	3	3			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr16:68842728A>G	uc002ewg.1	+	5	788	c.664A>G	c.(664-666)AGA>GGA	p.R222G	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.R222G	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	222	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding			breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		GCCTCTGGATAGAGAACGCAT	0.478			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				9	36					0	0	0.069234	0	0		G	68842728	G	G	68842728	3	3	14	1	0	0	0	0	1	0	0	0	3098	412	15	3	682	3	CDH1	16	68842728	Missense_Mutation	SNP	A	TCGA-BR-4279-01A-01D-1126-08	67535903	68842728	21512025	48	10821											
CDH1	999	broad.mit.edu	37	chr16	68856129	68856129	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcagtacaacgacccaaGtgggtacctgagttttattt	11	13	8	9	1	1	1	1	1	0	0	1	2	1	1	2	1	3	3	2	1	5	6			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr16:68856129G>T	uc002ewg.1	+	12	2060	c.1936_splice	c.e12+1	p.T646_splice	CDH1_uc010vlj.1_Splice_Site|CDH1_uc010cfg.1_Splice_Site_p.T585_splice	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein						adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding			breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		AACGACCCAAGTGGGTACCTG	0.488			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				9	34					0.00136819	0.00148943	0.013537	1	0		T	68856129	T	T	68856129	5	4	14	1	0	0	0	0	0	0	1	0	3098	1043	36	5	1983	5	CDH1	16	68856129	Splice_Site	SNP	G	TCGA-BR-4279-01A-01D-1126-08	13401	68856129	21498624	49	10822											
ADAMTS18	170692	broad.mit.edu	37	chr16	77393318	77393318	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattccactgatgggggcaaAccctattgaaagagcagttt	12	10	10	9	0	0	3	0	2	0	1	1	3	1	3	2	2	2	3	2	2	3	4			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr16:77393318A>C	uc002ffc.3	-	8	1638	c.1219T>G	c.(1219-1221)TTT>GTT	p.F407V	ADAMTS18_uc010chc.1_5'UTR|ADAMTS18_uc002ffe.1_Missense_Mutation_p.F103V|ADAMTS18_uc010vni.1_RNA	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	407	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						ATGGGGGCAAACCCTATTGAA	0.433													6	22					0	0	0.038147	0	0		C	77393318	C	C	77393318	3	2	14	1	0	0	0	0	1	0	0	0	263	43	2	5	2510	5	ADAMTS18	16	77393318	Missense_Mutation	SNP	A	TCGA-BR-4279-01A-01D-1126-08	8537189	77393318	12961435	50	10823											
IMP5	162540	broad.mit.edu	37	chr17	43923421	43923421	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccttcctgctggccctgctGgcctttgatgtcttctttgt	1	18	9	13	0	2	1	0	1	2	0	4	1	4	1	4	2	2	2	4	2	0	4			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr17:43923421G>T	uc010wka.1	+	1	1149	c.1149G>T	c.(1147-1149)CTG>CTT	p.L383L	LOC100128977_uc010wjz.1_Intron	NM_175882	NP_787078	Q8IUH8	IMP5_HUMAN	intramembrane protease 5 precursor	383	Helical; (Potential).					integral to membrane	aspartic-type endopeptidase activity			pancreas(2)	2	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.148)		TGGCCCTGCTGGCCTTTGATG	0.582													10	37					3.86212e-05	4.25823e-05	0.069234	1	0		T	43923421	T	T	43923421	2	4	14	1	0	0	0	0	0	0	0	1	7737	1335	47	5		5	IMP5	17	43923421	Silent	SNP	G	TCGA-BR-4279-01A-01D-1126-08		43923421	37271789	51	10824											
TRIM25	7706	broad.mit.edu	37	chr17	54981760	54981760	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttctcctcttcctttatcttCcttgtcgaggtggtctctga	3	19	7	12	1	4	1	0	1	4	0	9	2	6	1	3	2	0	0	3	2	1	6			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr17:54981760C>T	uc002iut.2	-	3	843	c.783G>A	c.(781-783)AGG>AGA	p.R261R	TRIM25_uc010dcj.2_Silent_p.R53R	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25	261	Interaction with influenza A virus NS1.|Potential.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)					CCTTTATCTTCCTTGTCGAGG	0.478													22	107					0	0	0.021523	0	0		T	54981760	T	T	54981760	2	4	14	1	0	0	0	0	0	0	0	1	16525	854	30	4		4	TRIM25	17	54981760	Silent	SNP	C	TCGA-BR-4279-01A-01D-1126-08	11058339	54981760	26213450	52	10825											
KCNH6	81033	broad.mit.edu	37	chr17	61611421	61611421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagccgccttcctgctcagcGatcaggacgaatcacggcgt	8	7	11	15	5	3	0	3	0	0	0	4	3	4	1	3	2	3	1	3	2	1	1			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr17:61611421G>A	uc002jay.2	+	5	930	c.850G>A	c.(850-852)GAT>AAT	p.D284N	KCNH6_uc002jax.1_Missense_Mutation_p.D284N|KCNH6_uc010wpl.1_Missense_Mutation_p.D161N|KCNH6_uc010wpm.1_Missense_Mutation_p.D284N|KCNH6_uc002jaz.1_Missense_Mutation_p.D284N	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	284	Extracellular (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	CCTGCTCAGCGATCAGGACGA	0.592													13	48					0	0	0.069288	0	0		A	61611421	A	A	61611421	3	1	14	1	0	0	0	0	1	0	0	0	8052	1058	37	1	868	1	KCNH6	17	61611421	Missense_Mutation	SNP	G	TCGA-BR-4279-01A-01D-1126-08	6629661	61611421	19583789	53	10826											
SMAD4	4089	broad.mit.edu	37	chr18	48591918	48591918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggacccttctggaggagatCgcttttgtttgggtcaactc	6	14	12	9	1	2	1	1	0	1	1	4	4	2	3	1	4	1	2	1	4	1	4	rs80338963		TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr18:48591918C>T	uc010xdp.1	+	9	1619	c.1081C>T	c.(1081-1083)CGC>TGC	p.R361C	SMAD4_uc002lfb.3_Missense_Mutation_p.R206C	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	361	MH2.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in JPS).		BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.R361C(6)|p.R361H(3)|p.?(2)|p.R361S(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TGGAGGAGATCGCTTTTGTTT	0.413									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				11	36					0	0	0.069234	0	0		T	48591918	T	T	48591918	3	4	14	1	0	0	0	0	1	0	0	0	14785	884	31	1	1111	1	SMAD4	18	48591918	Missense_Mutation	SNP	C	TCGA-BR-4279-01A-01D-1126-08		48591918	29485330	54	10827											
MUC16	94025	broad.mit.edu	37	chr19	9089753	9089753	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttccttccctgaaagctgAggactgtagagatgatgtct	9	12	12	8	0	1	4	0	3	1	1	3	6	3	5	2	2	1	3	2	2	2	3			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr19:9089753A>G	uc002mkp.2	-	1	2266	c.2062T>C	c.(2062-2064)TCA>CCA	p.S688P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	688	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGAAAGCTGAGGACTGTAGA	0.502													15	75					0	0	0.0333	0	0		G	9089753	G	G	9089753	3	3	14	1	0	0	0	0	1	0	0	0	9991	304	11	3	41797	3	MUC16	19	9089753	Missense_Mutation	SNP	A	TCGA-BR-4279-01A-01D-1126-08		9089753	50039230	55	10828											
NAPSA	9476	broad.mit.edu	37	chr19	50864332	50864332	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatcaaaatgggcaaaagcGaagaccaggctgggctccca	14	4	11	12	1	1	1	1	0	0	1	2	2	2	1	3	3	1	3	3	3	5	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr19:50864332G>A	uc002prx.2	-	5	587	c.534C>T	c.(532-534)TTC>TTT	p.F178F	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	178					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		GGGCAAAAGCGAAGACCAGGC	0.527													20	83					0	0	0.069288	0	0		A	50864332	A	A	50864332	2	1	14	1	0	0	0	0	0	0	0	1	10184	1049	37	1		1	NAPSA	19	50864332	Silent	SNP	G	TCGA-BR-4279-01A-01D-1126-08	41774579	50864332	8264651	56	10829											
LILRA4	23547	broad.mit.edu	37	chr19	54848675	54848675	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgctgggctcctcacctgcGatcaggatgtccagggggtc	5	8	14	14	2	2	0	2	0	0	0	5	2	4	1	4	4	1	2	4	4	0	0	rs142322002	byFrequency	TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr19:54848675G>A	uc002qfj.2	-	5	1005	c.948C>T	c.(946-948)ATC>ATT	p.I316I	LILRA4_uc002qfi.2_Silent_p.I250I	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	316	Extracellular (Potential).					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		CCTCACCTGCGATCAGGATGT	0.692													9	19					0	0	0.010729	0	0		A	54848675	A	A	54848675	2	1	14	1	0	0	0	0	0	0	0	1	8803	1048	37	1		1	LILRA4	19	54848675	Silent	SNP	G	TCGA-BR-4279-01A-01D-1126-08	3984343	54848675	4280308	57	10830											
USP29	57663	broad.mit.edu	37	chr19	57641825	57641825	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgattccctggttctaccCgttgaaccagacaagaatgc	11	10	9	11	1	1	4	0	2	1	2	2	4	2	4	3	1	3	2	3	1	4	4	rs35663514		TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr19:57641825C>T	uc002qny.2	+	4	2138	c.1782C>T	c.(1780-1782)CCC>CCT	p.P594P		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	594					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGGTTCTACCCGTTGAACCAG	0.488													11	55					0	0	0.016723	0	0		T	57641825	T	T	57641825	2	4	14	1	0	0	0	0	0	0	0	1	17085	639	23	1		1	USP29	19	57641825	Silent	SNP	C	TCGA-BR-4279-01A-01D-1126-08	2793150	57641825	1487158	58	10831											
PRIC285	85441	broad.mit.edu	37	chr20	62196078	62196078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtgcacagccacctcgCacctgggacccaggtctcgg	7	7	12	15	2	1	1	0	1	1	0	3	2	1	2	4	3	2	2	4	3	0	0			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr20:62196078C>T	uc002yfm.2	-	9	4989	c.4097G>A	c.(4096-4098)TGC>TAC	p.C1366Y	PRIC285_uc002yfl.1_Missense_Mutation_p.C797Y	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1366					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			AGCCACCTCGCACCTGGGACC	0.672													4	11					0	0	0.014758	0	0		T	62196078	T	T	62196078	3	4	14	1	0	0	0	0	1	0	0	0	12507	710	25	2	3900	2	PRIC285	20	62196078	Missense_Mutation	SNP	C	TCGA-BR-4279-01A-01D-1126-08		62196078	829442	59	10832											
CDC45	8318	broad.mit.edu	37	chr22	19492984	19492984	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactctccgtggactgcacAcggatctcctttgagtatga	9	11	9	12	2	2	2	0	2	2	0	4	4	2	4	2	2	1	2	2	2	1	2			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chr22:19492984A>G	uc002zpr.2	+	10	880	c.804A>G	c.(802-804)ACA>ACG	p.T268T	CDC45_uc011agz.1_Silent_p.T263T|CDC45_uc011aha.1_Silent_p.T300T|CDC45_uc002zps.2_Silent_p.T268T|CDC45_uc002zpt.2_Silent_p.T222T	NM_003504	NP_003495	O75419	CDC45_HUMAN	CDC45-like	268					DNA replication checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	centrosome|nucleoplasm	protein binding			lung(1)	1						TGGACTGCACACGGATCTCCT	0.572													8	46					0	0	0.013537	0	0		G	19492984	G	G	19492984	2	3	14	1	0	0	0	0	0	0	0	1	3084	146	6	3		3	CDC45	22	19492984	Silent	SNP	A	TCGA-BR-4279-01A-01D-1126-08		19492984	31811582	60	10833											
L1CAM	3897	broad.mit.edu	37	chrX	153129907	153129907	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagctgacatactgtggCgaaagggaagccccaccctt	10	9	11	11	1	0	1	0	1	0	0	0	3	0	2	3	2	3	2	3	2	4	4	rs142563956	byFrequency	TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	g.chrX:153129907C>T	uc004fjb.2	-	24	3300	c.3192G>A	c.(3190-3192)TCG>TCA	p.S1064S	L1CAM_uc004fjc.2_Silent_p.S1064S|L1CAM_uc010nuo.2_Silent_p.S1059S	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	1064	Fibronectin type-III 5.|Extracellular (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CATACTGTGGCGAAAGGGAAG	0.607													14	37					0	0	0.027356	0	0		T	153129907	T	T	153129907	2	4	14	1	0	0	0	0	0	0	0	1	8604	755	27	1		1	L1CAM	23	153129907	Silent	SNP	C	TCGA-BR-4279-01A-01D-1126-08		153129907	2140653	61	10834											
CDK11A	728642	broad.mit.edu	37	chr1	1638926	1638926	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagtcgggcacatagtcGccctctgtcagggcgctgct	5	8	16	12	3	2	0	1	0	1	0	4	1	2	1	1	4	1	3	1	4	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:1638926G>A	uc009vks.2	-	11	1275	c.1167C>T	c.(1165-1167)GGC>GGT	p.G389G	CDK11B_uc001ags.1_Intron|CDK11B_uc001agt.1_Intron|CDK11B_uc001aha.1_Intron|CDK11B_uc001agw.1_Intron|CDK11B_uc001agv.1_Intron|CDK11B_uc001agy.1_Intron|CDK11B_uc001agx.1_Intron|CDK11B_uc001agz.1_Intron|SLC35E2B_uc001ahh.3_Intron|SLC35E2_uc009vkm.1_Intron|CDK11A_uc001ahj.3_5'UTR|CDK11A_uc009vkp.2_Intron|CDK11A_uc009vkq.2_Intron|CDK11A_uc009vkr.2_Silent_p.G379G|CDK11A_uc010nys.1_Silent_p.G379G|CDK11A_uc010nyt.1_Silent_p.G389G|CDK11A_uc010nyu.1_RNA	NM_024011	NP_076916	Q9UQ88	CD11A_HUMAN	cell division cycle 2-like 2 isoform 1	392					apoptosis|mitosis|regulation of cell growth|regulation of mRNA processing|regulation of transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity|protein binding			stomach(1)	1						GCACATAGTCGCCCTCTGTCA	0.652													8	11					0	0	0.006214	0	0		A	1638926	A	A	1638926	2	1	15	1	0	0	0	0	0	0	0	1	3129	1074	38	1		1	CDK11A	1	1638926	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08		1638926	247611695	1	10835											
MMEL1	79258	broad.mit.edu	37	chr1	2526293	2526293	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgcccaccttgaggttctGcagactgttctcaaagtaca	9	10	10	12	1	2	2	1	1	2	1	3	2	2	2	2	2	2	4	2	2	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:2526293G>A	uc001ajy.2	-	17	1838	c.1624C>T	c.(1624-1626)CAG>TAG	p.Q542*	MMEL1_uc009vlg.1_RNA	NM_033467	NP_258428	Q495T6	MMEL1_HUMAN	membrane metallo-endopeptidase-like 1	542	Potential.|Lumenal (Potential).				proteolysis	extracellular region|integral to membrane|intracellular membrane-bounded organelle	metal ion binding|metalloendopeptidase activity				0	all_cancers(77;0.000233)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.03e-20)|all_lung(118;5.15e-09)|Lung NSC(185;9.02e-07)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;8.52e-23)|GBM - Glioblastoma multiforme(42;1.49e-08)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;0.000213)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00219)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.131)		TTGAGGTTCTGCAGACTGTTC	0.627													15	23					0	0	0.006122	0	0		A	2526293	A	A	2526293	4	1	15	1	0	0	0	0	0	1	0	0	9664	1328	46	2	747	2	MMEL1	1	2526293	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	887367	2526293	246724328	2	10836											
PRDM16	63976	broad.mit.edu	37	chr1	3328152	3328152	+	Frame_Shift_Del	DEL	C	-	-																															tgccccgggcctgcccttgaCccccagccccatgatggaca																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:3328152delC	uc001akf.2	+	9	1471	c.1391delC	c.(1390-1392)ACCfs	p.T464fs	PRDM16_uc001akc.2_Frame_Shift_Del_p.T464fs|PRDM16_uc001akd.2_Frame_Shift_Del_p.T464fs|PRDM16_uc001ake.2_Frame_Shift_Del_p.T464fs|PRDM16_uc009vlh.2_Frame_Shift_Del_p.T165fs	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	464	Pro-rich.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		CTGCCCTTGACCCCCAGCCCC	0.637			T	EVI1	MDS|AML								34	43	---	---	---	---						.	-	3328152	-	-	3328152	7	5	15	1	0	1	0	1	0	0	0	0	12479	507	18	0	1425	0	PRDM16	1	3328152	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	801859	3328152	245922469	3	10837											
TP73	7161	broad.mit.edu	37	chr1	3638707	3638707	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcctgtttacaagaaagcGgagcacgtgaccgacgtcgt	11	8	12	10	5	0	2	0	1	0	1	1	4	0	3	2	1	4	2	2	1	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:3638707G>A	uc001akp.2	+	5	662	c.552G>A	c.(550-552)GCG>GCA	p.A184A	TP73_uc001akq.2_Silent_p.A184A|TP73_uc010nzj.1_Silent_p.A135A|TP73_uc001akr.2_Silent_p.A135A|TP73_uc009vlk.1_Silent_p.A135A|TP73_uc001aks.2_Silent_p.A135A|TP73_uc010nzk.1_Silent_p.A113A	NM_005427	NP_005418	O15350	P73_HUMAN	tumor protein p73 isoform a	184	DNA-binding (Potential).				cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mismatch repair|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of JUN kinase activity|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|protein tetramerization|response to gamma radiation|response to X-ray	chromatin|cytosol|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|metal ion binding|p53 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|transcription repressor activity			ovary(1)|lung(1)	2	all_cancers(77;0.0395)|Ovarian(185;0.0634)|Lung NSC(156;0.188)|all_lung(157;0.198)	all_epithelial(116;7.42e-17)|all_lung(118;1.86e-06)|Lung NSC(185;0.000163)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.109)|Ovarian(437;0.127)		Epithelial(90;5.57e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.87e-22)|GBM - Glioblastoma multiforme(42;5.72e-16)|Colorectal(212;2.22e-05)|COAD - Colon adenocarcinoma(227;8.48e-05)|Kidney(185;0.000539)|BRCA - Breast invasive adenocarcinoma(365;0.000868)|STAD - Stomach adenocarcinoma(132;0.0072)|KIRC - Kidney renal clear cell carcinoma(229;0.00751)|Lung(427;0.226)		ACAAGAAAGCGGAGCACGTGA	0.637													16	39					0	0	0.006122	0	0		A	3638707	A	A	3638707	2	1	15	1	0	0	0	0	0	0	0	1	16419	1103	39	1		1	TP73	1	3638707	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	310555	3638707	245611914	4	10838											
CHD5	26038	broad.mit.edu	37	chr1	6203990	6203990	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcttctcccagcatcagctCcctgggaaacggcattggag	8	9	11	13	1	3	0	1	0	2	0	5	2	4	2	2	3	3	3	2	3	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:6203990C>A	uc001amb.1	-	13	2036	c.1936G>T	c.(1936-1938)GAG>TAG	p.E646*	CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	646	Chromo 2.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		AGCATCAGCTCCCTGGGAAAC	0.647													24	33					8.16721e-17	9.57637e-17	0.010818	1	0		A	6203990	A	A	6203990	4	1	15	1	0	0	0	0	0	1	0	0	3331	869	30	5	4044	5	CHD5	1	6203990	Nonsense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2565283	6203990	243046631	5	10839											
PRAMEF2	65122	broad.mit.edu	37	chr1	12920127	12920127	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacctggaacagctgatcagGtgagaaaggattgtgcactt	12	9	12	8	0	1	2	1	2	0	1	1	5	1	4	1	3	3	2	1	3	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:12920127G>A	uc001aum.1	+	3	953	c.866_splice	c.e3+1	p.R289_splice		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2												0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AGCTGATCAGGTGAGAAAGGA	0.478													39	78					0	0	0.007835	0	0		A	12920127	A	A	12920127	5	1	15	1	0	0	0	0	0	0	1	0	12457	1275	44	4	873	4	PRAMEF2	1	12920127	Splice_Site	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6716137	12920127	236330494	6	10840											
CELA2B	51032	broad.mit.edu	37	chr1	15813917	15813917	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgcgggtctccaactacaaCgactggatcaattcggtaag	12	8	10	11	4	2	0	1	0	1	0	4	2	2	1	1	3	3	1	1	3	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:15813917C>T	uc001awl.2	+	7	802	c.777C>T	c.(775-777)AAC>AAT	p.N259N		NM_015849	NP_056933	P08218	CEL2B_HUMAN	elastase 2B preproprotein	259	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1						CCAACTACAACGACTGGATCA	0.607													34	83					0	0	0.006999	0	0		T	15813917	T	T	15813917	2	4	15	1	0	0	0	0	0	0	0	1	3215	535	19	1		1	CELA2B	1	15813917	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2893790	15813917	233436704	7	10841											
DNAJC16	23341	broad.mit.edu	37	chr1	15890807	15890807	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcgatggttctactctgcTtctgactacatctcagactg	7	15	7	12	1	4	2	1	1	4	1	6	3	4	2	0	1	3	2	0	1	2	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:15890807T>C	uc001aws.2	+	11	1671	c.1551T>C	c.(1549-1551)GCT>GCC	p.A517A	DNAJC16_uc001awr.1_Silent_p.A517A|DNAJC16_uc001awt.2_Silent_p.A205A|DNAJC16_uc001awu.2_RNA	NM_015291	NP_056106	Q9Y2G8	DJC16_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 16	517	Cytoplasmic (Potential).				cell redox homeostasis|protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			urinary_tract(1)|lung(1)|kidney(1)	3		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00173)|all_lung(284;0.00459)|Lung NSC(340;0.00499)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		TCTACTCTGCTTCTGACTACA	0.433													29	67					0	0	0.005524	0	0		C	15890807	C	C	15890807	2	2	15	1	0	0	0	0	0	0	0	1	4641	1596	56	3		3	DNAJC16	1	15890807	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	76890	15890807	233359814	8	10842											
RSC1A1	6248	broad.mit.edu	37	chr1	15986909	15986909	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgaggttgcacaacaaaaAgcttcacatgaccaagaata	18	8	7	8	0	1	3	1	2	0	1	1	3	1	3	1	1	3	3	1	1	7	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:15986909A>G	uc010obn.1	+	1	546	c.546A>G	c.(544-546)AAA>AAG	p.K182K		NM_006511	NP_006502	Q92681	RSCA1_HUMAN	regulatory solute carrier protein, family 1,	182					negative regulation of transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transport	cell junction|Golgi apparatus|nucleus	ion channel inhibitor activity			ovary(1)	1		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00276)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CACAACAAAAAGCTTCACATG	0.423													20	50					0	0	0.012319	0	0		G	15986909	G	G	15986909	2	3	15	1	0	0	0	0	0	0	0	1	13723	69	3	3		3	RSC1A1	1	15986909	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	96102	15986909	233263712	9	10843											
SPATA21	374955	broad.mit.edu	37	chr1	16725286	16725286	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcgagctggcacagagcTgagccactttctgctgtcag	7	10	13	11	1	2	2	1	1	1	1	3	3	2	2	1	2	4	5	1	2	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:16725286T>C	uc001ayn.2	-	13	1867	c.1384A>G	c.(1384-1386)AGC>GGC	p.S462G	SPATA21_uc001ayl.1_Intron|SPATA21_uc010occ.1_Missense_Mutation_p.S439G	NM_198546	NP_940948	Q7Z572	SPT21_HUMAN	spermatogenesis associated 21	462							calcium ion binding			ovary(2)|breast(1)	3		Colorectal(325;0.000147)|Renal(390;0.00145)|Lung NSC(340;0.00215)|Breast(348;0.00224)|all_lung(284;0.00351)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(227;1.15e-05)|BRCA - Breast invasive adenocarcinoma(304;4.2e-05)|Kidney(64;0.000183)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.0122)|READ - Rectum adenocarcinoma(331;0.0651)		GGCACAGAGCTGAGCCACTTT	0.592													3	59					0	0	0.004672	0	0		C	16725286	C	C	16725286	3	2	15	1	0	0	0	0	1	0	0	0	15032	1580	55	3	29	3	SPATA21	1	16725286	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	738377	16725286	232525335	10	10844											
E2F2	1870	broad.mit.edu	37	chr1	23836471	23836471	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtcgtcctggtccaaggaTggggagaagctgatcagagg	10	8	16	7	1	1	3	1	1	0	2	4	5	3	4	2	5	1	1	2	5	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:23836471T>C	uc001bhe.1	-	7	1643	c.1215A>G	c.(1213-1215)CCA>CCG	p.P405P		NM_004091	NP_004082	Q14209	E2F2_HUMAN	E2F transcription factor 2	405	Transactivation (Potential).				G1 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(2)|skin(2)	4		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.52e-24)|Colorectal(126;6.25e-08)|COAD - Colon adenocarcinoma(152;3.42e-06)|GBM - Glioblastoma multiforme(114;8.98e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00102)|KIRC - Kidney renal clear cell carcinoma(1967;0.00366)|STAD - Stomach adenocarcinoma(196;0.0132)|READ - Rectum adenocarcinoma(331;0.0652)|Lung(427;0.0888)|LUSC - Lung squamous cell carcinoma(448;0.19)		GGTCCAAGGATGGGGAGAAGC	0.612													5	12					0	0	0.004482	0	0		C	23836471	C	C	23836471	2	2	15	1	0	0	0	0	0	0	0	1	4873	1451	51	3		3	E2F2	1	23836471	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	7111185	23836471	225414150	11	10845											
TCEB3	6924	broad.mit.edu	37	chr1	24083515	24083515	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagctttaaccccagcccTgaggagccggcctatgatgg	9	8	11	13	1	1	2	1	2	0	0	1	3	1	3	5	3	4	1	5	3	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:24083515T>C	uc001bho.2	+	10	2295	c.2235T>C	c.(2233-2235)CCT>CCC	p.P745P		NM_003198	NP_003189	Q14241	ELOA1_HUMAN	elongin A	745					positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|viral reproduction	integral to membrane	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.42e-24)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;4.74e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|KIRC - Kidney renal clear cell carcinoma(1967;0.00334)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		ACCCCAGCCCTGAGGAGCCGG	0.577													46	69					0	0	0.01441	0	0		C	24083515	C	C	24083515	2	2	15	1	0	0	0	0	0	0	0	1	15706	1567	55	3		3	TCEB3	1	24083515	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	247044	24083515	225167106	12	10846											
GALE	2582	broad.mit.edu	37	chr1	24125170	24125170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcaaactccacagagcGgcctgtcagctcctggaccc	8	7	8	18	1	2	1	2	0	0	1	5	2	5	2	5	2	3	1	5	2	1	0	rs142821993	byFrequency	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:24125170G>A	uc009vqo.1	-	3	382	c.172C>T	c.(172-174)CGC>TGC	p.R58C	GALE_uc001bhv.1_Missense_Mutation_p.R58C|GALE_uc001bhw.1_Missense_Mutation_p.R58C|GALE_uc001bhx.1_Missense_Mutation_p.R58C|GALE_uc009vqp.1_Missense_Mutation_p.R58C|GALE_uc001bhy.1_Missense_Mutation_p.R58C|GALE_uc001bhz.1_5'UTR|GALE_uc001bia.2_5'Flank|GALE_uc009vqq.1_Missense_Mutation_p.R58C	NM_001127621	NP_001121093	Q14376	GALE_HUMAN	UDP-galactose-4-epimerase	58					galactose catabolic process	cytosol	coenzyme binding|protein homodimerization activity|UDP-glucose 4-epimerase activity				0		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;1.79e-24)|Colorectal(126;4.8e-08)|COAD - Colon adenocarcinoma(152;2.83e-06)|GBM - Glioblastoma multiforme(114;4.22e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000946)|KIRC - Kidney renal clear cell carcinoma(1967;0.00314)|STAD - Stomach adenocarcinoma(196;0.0123)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0827)|LUSC - Lung squamous cell carcinoma(448;0.184)		TCCACAGAGCGGCCTGTCAGC	0.517													8	9					0	0	0.004482	0	0		A	24125170	A	A	24125170	3	1	15	1	0	0	0	0	1	0	0	0	6217	1116	39	1	910	1	GALE	1	24125170	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	41655	24125170	225125451	13	10847											
MYOM3	127294	broad.mit.edu	37	chr1	24408528	24408528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatgggctgctgattgaccGcatgccagtccagctcttcc	6	10	12	13	1	1	2	0	2	1	0	3	3	3	3	4	2	3	4	4	2	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:24408528G>A	uc001bin.3	-	18	2406	c.2243C>T	c.(2242-2244)GCG>GTG	p.A748V	MYOM3_uc001bim.3_Missense_Mutation_p.A405V|MYOM3_uc001bio.2_Missense_Mutation_p.A748V|MYOM3_uc001bip.1_3'UTR	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	748	Fibronectin type-III 4.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		CTGATTGACCGCATGCCAGTC	0.602													12	10					0	0	0.001855	0	0		A	24408528	A	A	24408528	3	1	15	1	0	0	0	0	1	0	0	0	10111	1087	38	1	2150	1	MYOM3	1	24408528	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	283358	24408528	224842093	14	10848											
PDIK1L	149420	broad.mit.edu	37	chr1	26448694	26448694	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaagtgtttcctttccacaGcatgtggaacagatttttac	11	14	7	9	0	0	1	0	0	0	1	2	2	2	2	2	1	3	2	2	1	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:26448694G>T	uc010oew.1	+	3	925	c.652G>T	c.(652-654)GCA>TCA	p.A218S	PDIK1L_uc001blj.3_Missense_Mutation_p.A218S|PDIK1L_uc009vsb.2_Missense_Mutation_p.A218S	NM_152835	NP_690048	Q8N165	PDK1L_HUMAN	PDLIM1 interacting kinase 1 like	218	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity				0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00239)|all_lung(284;0.00366)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;7.32e-26)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000735)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.015)|READ - Rectum adenocarcinoma(331;0.0649)		CCTTTCCACAGCATGTGGAAC	0.443													42	54					6.2361e-21	7.38385e-21	0.007835	1	0		T	26448694	T	T	26448694	3	4	15	1	0	0	0	0	1	0	0	0	11692	971	34	5	658	5	PDIK1L	1	26448694	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2040166	26448694	222801927	15	10849											
CCDC21	64793	broad.mit.edu	37	chr1	26582097	26582097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacccaagaaccagcacaaGtaaggagttgtacagagtgt	16	6	10	9	0	0	2	0	0	0	2	0	3	0	3	2	1	4	4	2	1	6	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:26582097G>A	uc001bls.1	+	4	775	c.644G>A	c.(643-645)AGT>AAT	p.S215N	CCDC21_uc001blr.2_Missense_Mutation_p.S215N|CCDC21_uc010ofa.1_Missense_Mutation_p.S164N	NM_022778	NP_073615	Q6P2H3	CEP85_HUMAN	coiled-coil domain containing 21	215						centrosome|nucleolus|spindle pole					0		all_cancers(24;7e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.6e-26)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;9.48e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00155)|GBM - Glioblastoma multiforme(114;0.00917)|READ - Rectum adenocarcinoma(331;0.0649)		ACCAGCACAAGTAAGGAGTTG	0.532													35	59					0	0	0.007835	0	0		A	26582097	A	A	26582097	3	1	15	1	0	0	0	0	1	0	0	0	2799	1029	36	4	654	4	CCDC21	1	26582097	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	133403	26582097	222668524	16	10850											
COL16A1	1307	broad.mit.edu	37	chr1	32119201	32119202	+	Frame_Shift_Ins	INS	-	G	G																															aatggtggtatttcctacctINSggggggccgggaagaccatt																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:32119201_32119202insG	uc001btk.1	-	70	4975_4976	c.4610_4611insC	c.(4609-4611)CCAfs	p.P1537fs	COL16A1_uc001bti.1_Frame_Shift_Ins_p.P151fs|COL16A1_uc001btj.1_Frame_Shift_Ins_p.P1335fs	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	1537	Triple-helical region 1 (COL1) with 2 imperfections.				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		ATTTCCTACCTGGGGGGCCGGG	0.446													10	22	---	---	---	---						.	G	32119202	G	G	32119201	7	5	15	1	0	1	1	0	0	0	0	0	3676	1594	55	0	211	0	COL16A1	1	32119201	Frame_Shift_Ins	INS	-	TCGA-BR-4280-01A-01D-1126-08	5537104	32119201	217131420	17	10851											
ADC	113451	broad.mit.edu	37	chr1	33585749	33585749	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcacagacaccctgtgcgTgggccctgtcttcaccccag	7	8	10	16	1	3	1	2	0	1	1	3	2	3	1	4	1	1	0	4	1	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:33585749T>C	uc001bwr.2	+	12	1936	c.1349T>C	c.(1348-1350)GTG>GCG	p.V450A	ADC_uc001bws.2_Missense_Mutation_p.V450A|ADC_uc009vue.2_Missense_Mutation_p.V450A|ADC_uc001bwt.1_3'UTR|ADC_uc001bwu.2_Missense_Mutation_p.V355A|ADC_uc001bwv.2_Missense_Mutation_p.V355A|ADC_uc001bww.2_Missense_Mutation_p.V355A|ADC_uc001bwx.1_3'UTR|ADC_uc009vug.2_Missense_Mutation_p.V470A	NM_052998	NP_443724	Q96A70	ADC_HUMAN	ODC antizyme inhibitor-2	450					polyamine biosynthetic process|spermatogenesis	cytosol	arginine decarboxylase activity			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)			L-Arginine(DB00125)|Pyridoxal Phosphate(DB00114)	ACCCTGTGCGTGGGCCCTGTC	0.637													4	29					0	0	0.004482	0	0		C	33585749	C	C	33585749	3	2	15	1	0	0	0	0	1	0	0	0	287	1696	59	3	1383	3	ADC	1	33585749	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1466548	33585749	215664872	18	10852											
PHC2	1912	broad.mit.edu	37	chr1	33841025	33841025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctggggcccggtggggCggccacttccaccactgctg	6	7	14	14	2	1	0	0	0	1	0	2	0	2	0	4	6	1	1	4	6	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:33841025C>T	uc001bxg.1	-	1	170	c.116G>A	c.(115-117)CGC>CAC	p.R39H	PHC2_uc001bxh.1_Missense_Mutation_p.R39H|PHC2_uc009vuh.1_Missense_Mutation_p.R39H|PHC2_uc001bxi.1_Missense_Mutation_p.R39H	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	39					multicellular organismal development	PcG protein complex	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				CCCGGTGGGgcggccacttcc	0.333													8	20					0	0	0.013537	0	0		T	33841025	T	T	33841025	3	4	15	1	0	0	0	0	1	0	0	0	11836	768	27	1	2516	1	PHC2	1	33841025	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	255276	33841025	215409596	19	10853											
CSMD2	114784	broad.mit.edu	37	chr1	34006749	34006749	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgcagacgggcttggtTccattccatgtccggtcctt	4	14	10	13	2	0	1	0	0	0	1	4	1	4	1	5	3	1	3	5	3	0	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:34006749T>C	uc001bxn.1	-	58	9035	c.9006A>G	c.(9004-9006)GGA>GGG	p.G3002G	CSMD2_uc001bxm.1_Silent_p.G3146G	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3002	Extracellular (Potential).|Sushi 22.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CGGGCTTGGTTCCATTCCATG	0.488													32	63					0	0	0.004289	0	0		C	34006749	C	C	34006749	2	2	15	1	0	0	0	0	0	0	0	1	3948	1770	62	3		3	CSMD2	1	34006749	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	165724	34006749	215243872	20	10854											
CSMD2	114784	broad.mit.edu	37	chr1	34071015	34071015	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccacgttgtagccagctccCctcacaatgccattggcaaa	10	8	7	16	1	1	0	1	0	0	0	2	0	2	0	5	1	3	4	5	1	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:34071015C>A	uc001bxn.1	-	43	6434	c.6405G>T	c.(6403-6405)AGG>AGT	p.R2135S	CSMD2_uc001bxm.1_Missense_Mutation_p.R2133S|CSMD2_uc001bxo.1_Missense_Mutation_p.R1006S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2135	Sushi 12.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AGCCAGCTCCCCTCACAATGC	0.537													4	44					0.000602214	0.000650769	0.000602	1	0		A	34071015	A	A	34071015	3	1	15	1	0	0	0	0	1	0	0	0	3948	622	22	5	4166	5	CSMD2	1	34071015	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	64266	34071015	215179606	21	10855											
BMP8B	656	broad.mit.edu	37	chr1	40230378	40230378	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagtggcctcactgcccgaGgggtgcggatgggactcgga	6	7	17	11	3	2	0	2	0	0	0	3	4	2	3	2	6	2	0	2	6	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:40230378G>T	uc001cdz.1	-	4	1161	c.785C>A	c.(784-786)CCT>CAT	p.P262H	BMP8B_uc001cea.1_Missense_Mutation_p.P287H	NM_001720	NP_001711	P34820	BMP8B_HUMAN	bone morphogenetic protein 8B preproprotein	262					cartilage development|cell differentiation|growth|ossification	extracellular space	cytokine activity|growth factor activity				0	all_cancers(7;5.56e-14)|all_lung(5;3.88e-17)|all_epithelial(6;3.78e-16)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;1.92e-17)|all cancers(16;4.03e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CACTGCCCGAGGGGTGCGGAT	0.662													9	29					1.58986e-06	1.76957e-06	0.008291	1	0		T	40230378	T	T	40230378	3	4	15	1	0	0	0	0	1	0	0	0	1468	1000	35	5	439	5	BMP8B	1	40230378	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6159363	40230378	209020243	22	10856											
TIE1	7075	broad.mit.edu	37	chr1	43772910	43772910	+	Frame_Shift_Del	DEL	C	-	-																															catgacggcgaatgtgtatgCccccctggcttcactggcac																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:43772910delC	uc001ciu.2	+	5	817	c.738delC	c.(736-738)TGCfs	p.C246fs	TIE1_uc010okd.1_Frame_Shift_Del_p.C246fs|TIE1_uc010oke.1_Frame_Shift_Del_p.C201fs|TIE1_uc009vwq.2_Intron|TIE1_uc010okf.1_5'UTR|TIE1_uc010okg.1_5'UTR|TIE1_uc010okc.1_Frame_Shift_Del_p.C246fs	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	246	Extracellular (Potential).|EGF-like 1.				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AATGTGTATGCCCCCCTGGCT	0.632													24	43	---	---	---	---						.	-	43772910	-	-	43772910	7	5	15	1	0	1	0	1	0	0	0	0	15918	747	26	0	756	0	TIE1	1	43772910	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	3542532	43772910	205477711	23	10857											
PTPRF	5792	broad.mit.edu	37	chr1	44064544	44064544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggagaatggcgagccccgtgGactccccatcatccaagacg	10	5	12	14	3	1	2	1	0	0	2	3	5	3	3	5	3	1	0	5	3	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:44064544G>A	uc001cjr.2	+	13	2613	c.2273G>A	c.(2272-2274)GGA>GAA	p.G758E	PTPRF_uc001cjs.2_Missense_Mutation_p.G758E|PTPRF_uc001cju.2_Missense_Mutation_p.G329E|PTPRF_uc009vwt.2_Missense_Mutation_p.G329E|PTPRF_uc001cjv.2_Missense_Mutation_p.G227E|PTPRF_uc001cjw.2_5'UTR	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	758	Fibronectin type-III 5.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GAGCCCCGTGGACTCCCCATC	0.632													6	18					0	0	0.00308	0	0		A	44064544	A	A	44064544	3	1	15	1	0	0	0	0	1	0	0	0	12826	1174	41	4	2315	4	PTPRF	1	44064544	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	291634	44064544	205186077	24	10858											
DMAP1	55929	broad.mit.edu	37	chr1	44684086	44684086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctttgacctcagccgccGctttgacctgcgttttgttg	3	15	9	14	3	2	2	1	2	1	0	2	2	2	2	5	0	2	3	5	0	0	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:44684086G>A	uc001clq.1	+	5	577	c.497G>A	c.(496-498)CGC>CAC	p.R166H	DMAP1_uc010okt.1_Missense_Mutation_p.A205T|DMAP1_uc001clr.1_Missense_Mutation_p.R166H|DMAP1_uc001cls.1_Missense_Mutation_p.R166H|DMAP1_uc010oku.1_Missense_Mutation_p.R156H	NM_001034024	NP_001029196	Q9NPF5	DMAP1_HUMAN	DNA methyltransferase 1 associated protein 1	166	SANT.				DNA methylation|histone H2A acetylation|histone H4 acetylation|negative regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex	DNA binding|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					CTCAGCCGCCGCTTTGACCTG	0.527											OREG0013437	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	36					0	0	0.006999	0	0		A	44684086	A	A	44684086	3	1	15	1	0	0	0	0	1	0	0	0	4582	1087	38	1	511	1	DMAP1	1	44684086	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	619542	44684086	204566535	25	10859											
ZSWIM5	57643	broad.mit.edu	37	chr1	45671791	45671791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcctccacccgttcgtatgCccacttttccgccaccgtct	4	12	5	20	4	1	0	0	0	1	0	5	0	4	0	7	0	1	2	7	0	1	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:45671791C>T	uc001cnd.2	-	1	460	c.232G>A	c.(232-234)GCA>ACA	p.A78T		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	78							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					CGTTCGTATGCCCACTTTTCC	0.682													6	3					0	0	0.00308	0	0		T	45671791	T	T	45671791	3	4	15	1	0	0	0	0	1	0	0	0	18269	739	26	2	3381	2	ZSWIM5	1	45671791	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	987705	45671791	203578830	26	10860											
KIAA0494	9813	broad.mit.edu	37	chr1	47149030	47149030	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgggcagctttctcaacTgggtctccaagaaactgtga	10	11	11	9	0	2	2	1	1	2	1	4	2	2	2	1	2	3	3	1	2	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:47149030T>C	uc001cqk.3	-	10	2231	c.1254A>G	c.(1252-1254)CCA>CCG	p.P418P	KIAA0494_uc010omh.1_Silent_p.P354P|KIAA0494_uc010omj.1_Silent_p.P210P	NM_014774	NP_055589	O75071	K0494_HUMAN	hypothetical protein LOC9813	418							calcium ion binding				0	Acute lymphoblastic leukemia(166;0.155)					CTTTCTCAACTGGGTCTCCAA	0.388													28	44					0	0	0.013726	0	0		C	47149030	C	C	47149030	2	2	15	1	0	0	0	0	0	0	0	1	8195	1567	55	3		3	KIAA0494	1	47149030	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1477239	47149030	202101591	27	10861											
FGGY	55277	broad.mit.edu	37	chr1	59811947	59811947	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catcgaaacgtcatcatgtgGctggaccatcgagcagtcag	11	8	11	11	3	3	0	3	0	0	0	5	3	3	1	1	2	2	2	1	2	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:59811947G>A	uc001czi.3	+	4	554	c.342G>A	c.(340-342)TGG>TGA	p.W114*	FGGY_uc001czg.2_Nonsense_Mutation_p.W2*|FGGY_uc001czh.2_RNA|FGGY_uc009wac.2_Nonsense_Mutation_p.W114*|FGGY_uc001czj.3_Nonsense_Mutation_p.W114*|FGGY_uc001czk.3_Nonsense_Mutation_p.W2*|FGGY_uc001czl.3_Intron	NM_018291	NP_060761	Q96C11	FGGY_HUMAN	FGGY carbohydrate kinase domain containing	114					carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)					TCATCATGTGGCTGGACCATC	0.502													11	52					0	0	0.00245	0	0		A	59811947	A	A	59811947	4	1	15	1	0	0	0	0	0	1	0	0	5885	1212	42	2	352	2	FGGY	1	59811947	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	12662917	59811947	189438674	28	10862											
KANK4	163782	broad.mit.edu	37	chr1	62718875	62718875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttctgatggtccacattgCagacgcctgcaagagaagca	11	9	11	10	1	1	3	0	1	1	2	2	4	2	3	2	1	3	4	2	1	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:62718875C>T	uc001dah.3	-	8	2923	c.2546G>A	c.(2545-2547)TGC>TAC	p.C849Y	KANK4_uc001dai.3_Missense_Mutation_p.C221Y|KANK4_uc001daf.3_5'UTR|KANK4_uc001dag.3_Missense_Mutation_p.C205Y	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	849	ANK 1.									ovary(3)|skin(2)|lung(1)	6						GTCCACATTGCAGACGCCTGC	0.542													21	45					0	0	0.008871	0	0		T	62718875	T	T	62718875	3	4	15	1	0	0	0	0	1	0	0	0	7995	710	25	2	453	2	KANK4	1	62718875	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2906928	62718875	186531746	29	10863											
ATG4C	84938	broad.mit.edu	37	chr1	63284744	63284744	+	Frame_Shift_Del	DEL	A	-	-																															catggacttcccacactgtcAaaaaatttactgcatcattt																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:63284744delA	uc001dat.2	+	5	625	c.463delA	c.(463-465)AAAfs	p.K155fs	ATG4C_uc001dau.2_Frame_Shift_Del_p.K155fs	NM_178221	NP_835739	Q96DT6	ATG4C_HUMAN	APG4 autophagy 4 homolog C isoform 8	155					autophagic vacuole assembly|protein targeting to membrane|proteolysis	cytosol|extracellular region	cysteine-type endopeptidase activity			ovary(1)	1						CCACACTGTCAAAAAATTTAC	0.378													39	70	---	---	---	---						.	-	63284744	-	-	63284744	7	5	15	1	0	1	0	1	0	0	0	0	1099	131	5	0	477	0	ATG4C	1	63284744	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	565869	63284744	185965877	30	10864											
TTLL7	79739	broad.mit.edu	37	chr1	84373183	84373183	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcattactgtgaggcagatGcctcatgtaggaggaagcac	12	9	12	8	0	2	2	2	1	0	1	2	4	2	4	1	3	3	3	1	3	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:84373183G>T	uc001djc.2	-	16	2344	c.1948C>A	c.(1948-1950)CAT>AAT	p.H650N	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_RNA|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	650					cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		TGAGGCAGATGCCTCATGTAG	0.483													38	61					1.03325e-14	1.19554e-14	0.011902	1	0		T	84373183	T	T	84373183	3	4	15	1	0	0	0	0	1	0	0	0	16758	1319	46	5	739	5	TTLL7	1	84373183	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	21088439	84373183	164877438	31	10865											
MCOLN2	255231	broad.mit.edu	37	chr1	85424271	85424271	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagtatatacactgcagcTgtagtcatcttcatctgtac	10	15	7	9	0	4	1	2	1	2	0	4	1	4	1	0	0	4	5	0	0	5	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:85424271T>G	uc001dkm.2	-	3	593	c.352A>C	c.(352-354)AGC>CGC	p.S118R	MCOLN2_uc001dkn.2_RNA	NM_153259	NP_694991	Q8IZK6	MCLN2_HUMAN	mucolipin 2	118						integral to membrane	ion channel activity			ovary(3)|upper_aerodigestive_tract(1)	4				all cancers(265;0.0111)|Epithelial(280;0.0263)|OV - Ovarian serous cystadenocarcinoma(397;0.217)		ACACTGCAGCTGTAGTCATCT	0.358													32	80					0	0	0.003755	0	0		G	85424271	G	G	85424271	3	3	15	1	0	0	0	0	1	0	0	0	9414	1580	55	5	1396	5	MCOLN2	1	85424271	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1051088	85424271	163826350	32	10866											
CLCA4	22802	broad.mit.edu	37	chr1	87031503	87031504	+	Frame_Shift_Ins	INS	-	A	A																															ggttgttgaattttgtaacgINSaaaaaacccataatcaagaa																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:87031503_87031504insA	uc009wcs.2	+	6	798_799	c.754_755insA	c.(754-756)GAAfs	p.E252fs	CLCA4_uc009wct.2_Frame_Shift_Ins_p.E15fs|CLCA4_uc009wcu.2_Frame_Shift_Ins_p.E72fs	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	252						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		ATTTTGTAACGAAAAAACCCAT	0.272													19	37	---	---	---	---						.	A	87031504	A	A	87031503	7	5	15	1	0	1	1	0	0	0	0	0	3462	1059	37	0	776	0	CLCA4	1	87031503	Frame_Shift_Ins	INS	-	TCGA-BR-4280-01A-01D-1126-08	1607232	87031503	162219118	33	10867											
PKN2	5586	broad.mit.edu	37	chr1	89206848	89206848	+	Frame_Shift_Del	DEL	A	-	-																															tgaggaaagtcacaacagatAaaaaaagtttggcttatgta																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:89206848delA	uc001dmn.2	+	2	568	c.226delA	c.(226-228)AAAfs	p.K76fs	PKN2_uc001dmm.1_Frame_Shift_Del_p.K76fs|PKN2_uc010osp.1_Frame_Shift_Del_p.K76fs|PKN2_uc010osq.1_Intron|PKN2_uc009wcv.2_Frame_Shift_Del_p.K76fs	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	76	REM 1.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		CACAACAGATAAAAAAAGTTT	0.308													18	32	---	---	---	---						.	-	89206848	-	-	89206848	7	5	15	1	0	1	0	1	0	0	0	0	11999	363	13	0	232	0	PKN2	1	89206848	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	2175345	89206848	160043773	34	10868											
GBP2	2634	broad.mit.edu	37	chr1	89586917	89586917	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaccacatccagattcccTtggtgtgagacttcactgtg	9	11	8	13	0	1	2	1	1	0	2	3	3	3	2	3	1	0	0	3	1	0	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:89586917T>C	uc001dmz.1	-	3	498	c.227A>G	c.(226-228)AAG>AGG	p.K76R	GBP2_uc001dmy.1_RNA	NM_004120	NP_004111	P32456	GBP2_HUMAN	guanylate binding protein 2,	76					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)	1		Lung NSC(277;0.0908)		all cancers(265;0.0151)|Epithelial(280;0.0284)		CCAGATTCCCTTGGTGTGAGA	0.453													40	73					0	0	0.01441	0	0		C	89586917	C	C	89586917	3	2	15	1	0	0	0	0	1	0	0	0	6289	1609	56	3	1584	3	GBP2	1	89586917	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	380069	89586917	159663704	35	10869											
GLMN	11146	broad.mit.edu	37	chr1	92754658	92754658	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatagctgattccaaagggTagacaatgctaatccaattg	15	10	9	7	0	0	3	0	1	0	2	2	3	2	3	2	1	2	3	2	1	6	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:92754658T>C	uc001dor.2	-	6	560	c.445A>G	c.(445-447)ACC>GCC	p.T149A	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Missense_Mutation_p.T149A	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	149					muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		TTCCAAAGGGTAGACAATGCT	0.378									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				42	52					0	0	0.011902	0	0		C	92754658	C	C	92754658	3	2	15	1	0	0	0	0	1	0	0	0	6463	1638	57	3	1395	3	GLMN	1	92754658	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	3167741	92754658	156495963	36	10870											
VCAM1	7412	broad.mit.edu	37	chr1	101186193	101186193	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggtgacgaatgaggggAccacatctacgctgacaatg	13	6	14	8	2	1	3	0	3	1	0	1	6	1	5	1	4	1	1	1	4	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:101186193A>G	uc001dti.2	+	2	346	c.226A>G	c.(226-228)ACC>GCC	p.T76A	VCAM1_uc001dtj.2_Missense_Mutation_p.T76A|VCAM1_uc010ouj.1_Intron	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	76	Ig-like C2-type 1.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	GAATGAGGGGACCACATCTAC	0.463													29	44					0	0	0.008361	0	0		G	101186193	G	G	101186193	3	3	15	1	0	0	0	0	1	0	0	0	17163	275	10	3	232	3	VCAM1	1	101186193	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	8431535	101186193	148064428	37	10871											
SLC6A17	388662	broad.mit.edu	37	chr1	110714812	110714812	+	Frame_Shift_Del	DEL	G	-	-																															cactatatatgtccccgcctGgggggcatcggcttctccag																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:110714812delG	uc009wfq.2	+	3	878	c.417delG	c.(415-417)CTGfs	p.L139fs		NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	139	Cytoplasmic (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		GTCCCCGCCTGGGGGGCATCG	0.632													4	6	---	---	---	---						.	-	110714812	-	-	110714812	7	5	15	1	0	1	0	1	0	0	0	0	14705	1335	47	0	423	0	SLC6A17	1	110714812	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	9528619	110714812	138535809	38	10872											
C1orf103	55791	broad.mit.edu	37	chr1	111494604	111494604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taacaggaacaagagatggcGtaaaaggctgtagattatct	16	9	11	5	1	1	2	0	0	1	2	1	4	1	3	0	3	2	3	0	3	7	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:111494604G>A	uc001eaa.2	-	2	1158	c.902C>T	c.(901-903)ACG>ATG	p.T301M	C1orf103_uc001dzz.2_Intron|C1orf103_uc001eab.2_Intron|C1orf103_uc001eac.1_Intron	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	301					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		AAGAGATGGCGTAAAAGGCTG	0.343													22	41					0	0	0.012319	0	0		A	111494604	A	A	111494604	3	1	15	1	0	0	0	0	1	0	0	0	1980	1145	40	1	1419	1	C1orf103	1	111494604	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	779792	111494604	137756017	39	10873											
MOV10	4343	broad.mit.edu	37	chr1	113237103	113237103	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctttgtggatgggctgAccttcaaggtgaactttacc	7	12	12	10	1	1	2	1	2	0	0	1	3	1	3	3	3	2	2	3	3	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:113237103A>G	uc001eck.2	+	9	1594	c.1324A>G	c.(1324-1326)ACC>GCC	p.T442A	MOV10_uc001ecl.2_Missense_Mutation_p.T442A|MOV10_uc001ecn.2_Missense_Mutation_p.T442A|MOV10_uc001ecm.2_Missense_Mutation_p.T382A|MOV10_uc009wgj.1_Missense_Mutation_p.T382A	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	442					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		GGATGGGCTGACCTTCAAGGT	0.597													7	28					0	0	0.004482	0	0		G	113237103	G	G	113237103	3	3	15	1	0	0	0	0	1	0	0	0	9736	275	10	3	1354	3	MOV10	1	113237103	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1742499	113237103	136013518	40	10874											
PPM1J	333926	broad.mit.edu	37	chr1	113253964	113253964	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactctgcgggggaactcaaGgtgggtgaattcactgccta	10	9	13	9	1	3	1	2	1	1	0	3	2	3	2	1	4	4	0	1	4	5	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:113253964G>T	uc001ect.1	-	6	997	c.970C>A	c.(970-972)CTT>ATT	p.L324I	PPM1J_uc009wgl.1_RNA|PPM1J_uc001ecs.1_Missense_Mutation_p.L118I	NM_005167	NP_005158	Q5JR12	PPM1J_HUMAN	protein phosphatase 1J (PP2C domain containing)	324	PP2C-like.									breast(2)|central_nervous_system(1)	3	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGGAACTCAAGGTGGGTGAAT	0.582													4	13					0.00909568	0.00967732	0.009096	1	0		T	113253964	T	T	113253964	3	4	15	1	0	0	0	0	1	0	0	0	12364	1000	35	5	567	5	PPM1J	1	113253964	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	16861	113253964	135996657	41	10875											
BCL9	607	broad.mit.edu	37	chr1	147087679	147087680	+	Frame_Shift_Del	DEL	AC	-	-																															agaacatttctaacaacaagAcagagagaagcacagcgcct																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:147087679_147087680delAC	uc001epq.2	+	7	1377_1378	c.637_638delAC	c.(637-639)ACAfs	p.T213fs	BCL9_uc010ozr.1_Frame_Shift_Del_p.T139fs	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	213					Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					TAACAACAAGACAGAGAGAAGC	0.426			T	IGH@|IGL@	B-ALL								25	46	---	---	---	---						.	-	147087680	-	-	147087679	7	5	15	1	0	1	0	1	0	0	0	0	1382	275	10	0	651	0	BCL9	1	147087679	Frame_Shift_Del	DEL	AC	TCGA-BR-4280-01A-01D-1126-08	33833715	147087679	102162942	42	10876											
OTUD7B	56957	broad.mit.edu	37	chr1	149916793	149916793	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgttagccacagaatctgCtctcttcttgtccttctccc	5	17	5	14	0	4	1	0	0	4	1	7	1	5	1	3	0	2	2	3	0	2	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:149916793C>T	uc001etn.2	-	12	1851	c.1495G>A	c.(1495-1497)GCA>ACA	p.A499T		NM_020205	NP_064590	Q6GQQ9	OTU7B_HUMAN	zinc finger protein Cezanne	499					negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)			ACAGAATCTGCTCTCTTCTTG	0.552													48	68					0	0	0.01441	0	0		T	149916793	T	T	149916793	3	4	15	1	0	0	0	0	1	0	0	0	11338	797	28	2	1040	2	OTUD7B	1	149916793	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2829114	149916793	99333828	43	10877											
ZNF687	57592	broad.mit.edu	37	chr1	151259991	151259991	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtggccaccatccagaaCgccagtactgccatgctgat	9	8	9	15	1	0	2	0	1	0	1	1	2	1	2	6	1	4	2	6	1	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:151259991C>T	uc001exq.2	+	2	1322	c.1224C>T	c.(1222-1224)AAC>AAT	p.N408N	ZNF687_uc001exp.1_Silent_p.N417N|ZNF687_uc009wmo.2_Silent_p.N408N|ZNF687_uc009wmp.2_Silent_p.N408N	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	408					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CCATCCAGAACGCCAGTACTG	0.582													7	10					0	0	0.004007	0	0		T	151259991	T	T	151259991	2	4	15	1	0	0	0	0	0	0	0	1	18117	535	19	1		1	ZNF687	1	151259991	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1343198	151259991	97990630	44	10878											
TCHH	7062	broad.mit.edu	37	chr1	152082434	152082434	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctgctcttcctcctgctGcagctcctcttccttccgat	3	14	6	18	1	2	0	0	0	2	0	7	1	7	0	5	0	5	5	5	0	0	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:152082434G>A	uc001ezp.2	-	2	3259	c.3259C>T	c.(3259-3261)CAG>TAG	p.Q1087*	TCHH_uc009wne.1_Nonsense_Mutation_p.Q1087*	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1087	10 X 30 AA tandem repeats.|4-7.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			tcctcctgctgcagctcctct	0.174													21	51					0	0	0.003954	0	0		A	152082434	A	A	152082434	4	1	15	1	0	0	0	0	0	1	0	0	15725	1328	46	2	2576	2	TCHH	1	152082434	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	822443	152082434	97168187	45	10879											
HRNR	388697	broad.mit.edu	37	chr1	152188549	152188549	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccactgctggaagaccaaccGgagccagacccatgttggcc	10	5	11	15	1	0	2	0	0	0	2	0	4	0	4	6	3	3	2	6	3	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:152188549G>A	uc001ezt.1	-	3	5632	c.5556C>T	c.(5554-5556)TCC>TCT	p.S1852S		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1852	20.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AAGACCAACCGGAGCCAGACC	0.597													43	224					0	0	0.01441	0	0		A	152188549	A	A	152188549	2	1	15	1	0	0	0	0	0	0	0	1	7375	1103	39	1		1	HRNR	1	152188549	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	106115	152188549	97062072	46	10880											
KCNN3	3782	broad.mit.edu	37	chr1	154698452	154698452	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttctccgctttggtgagTtccagctttcgggccaccac	4	13	10	14	2	1	1	0	1	1	0	4	1	2	1	4	2	2	4	4	2	0	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:154698452T>A	uc001ffp.2	-	5	1955	c.1641A>T	c.(1639-1641)GAA>GAT	p.E547D	KCNN3_uc001ffo.2_Missense_Mutation_p.E242D	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	552						integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			CTTTGGTGAGTTCCAGCTTTC	0.547													12	15					0	0	0.013537	0	0		A	154698452	A	A	154698452	3	1	15	1	0	0	0	0	1	0	0	0	8096	1722	60	5	570	5	KCNN3	1	154698452	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2509903	154698452	94552169	47	10881											
MUC1	4582	broad.mit.edu	37	chr1	155161732	155161732	+	Frame_Shift_Del	DEL	G	-	-																															ccgaggtgacaccgtgggctGggggggcggtggagcccggg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:155161732delG	uc010pft.1	-	2	467	c.401delC	c.(400-402)CCAfs	p.P134fs	RAG1AP1_uc010pey.1_Intron|MUC1_uc001fhy.2_5'Flank|MUC1_uc001fhz.2_5'Flank|MUC1_uc010pfb.1_Intron|MUC1_uc010pfc.1_Intron|MUC1_uc009wph.2_Intron|MUC1_uc010pfd.1_Intron|MUC1_uc010pfe.1_Intron|MUC1_uc010pff.1_Intron|MUC1_uc009wpi.2_Intron|MUC1_uc010pfg.1_Intron|MUC1_uc010pfh.1_Intron|MUC1_uc010pfi.1_Intron|MUC1_uc010pfj.1_Intron|MUC1_uc010pfk.1_Intron|MUC1_uc010pfl.1_Intron|MUC1_uc001fin.2_Intron|MUC1_uc009wpk.2_Intron|MUC1_uc001fip.2_Intron|MUC1_uc009wqg.2_Intron|MUC1_uc009wpo.2_Intron|MUC1_uc009wps.2_Intron|MUC1_uc009wpt.2_Intron|MUC1_uc001fic.2_Intron|MUC1_uc009wpu.2_Intron|MUC1_uc009wpq.2_Intron|MUC1_uc009wpv.2_Intron|MUC1_uc001fim.2_Intron|MUC1_uc001fib.2_Intron|MUC1_uc009wpw.2_Intron|MUC1_uc001fie.2_Intron|MUC1_uc009wpr.2_Intron|MUC1_uc001fig.2_Intron|MUC1_uc001fif.2_Intron|MUC1_uc009wpx.2_Intron|MUC1_uc001fid.2_Intron|MUC1_uc009wpj.2_Intron|MUC1_uc001fij.2_Intron|MUC1_uc009wpy.2_Intron|MUC1_uc010pfm.1_Intron|MUC1_uc001fiq.2_Intron|MUC1_uc009wpz.2_Intron|MUC1_uc010pfn.1_Intron|MUC1_uc009wqa.2_Intron|MUC1_uc010pfo.1_Intron|MUC1_uc010pfp.1_Intron|MUC1_uc001fii.2_Intron|MUC1_uc001fih.2_Intron|MUC1_uc001fia.2_Intron|MUC1_uc009wqc.2_Intron|MUC1_uc009wqd.2_Intron|MUC1_uc009wqb.2_Intron|MUC1_uc010pfq.1_Intron|MUC1_uc010pfr.1_Intron|MUC1_uc001fit.2_Intron|MUC1_uc009wqe.2_Intron|MUC1_uc001fil.2_Intron|MUC1_uc009wpm.2_Intron|MUC1_uc009wpp.2_Intron|MUC1_uc010pfs.1_Intron|MUC1_uc001fik.2_Intron|MUC1_uc001fio.2_Intron|MUC1_uc009wqf.2_Intron|MUC1_uc009wpl.2_Intron|MUC1_uc009wpn.2_Intron|MUC1_uc001fis.1_Intron|uc009wqh.2_5'Flank|MUC1_uc001fiv.1_Frame_Shift_Del_p.P143fs|MUC1_uc001fiw.1_Frame_Shift_Del_p.P134fs			P15941	MUC1_HUMAN	SubName: Full=MUC1 isoform M13;	134	Extracellular (Potential).|42 X 20 AA approximate tandem repeats of P-A-P-G-S-T-A-P-P-A-H-G-V-T-S-A-P-D-T-R.|4.			P -> Q (in Ref. 16; AAA35757).		apical plasma membrane|cell surface|cytoplasm|extracellular region|integral to plasma membrane|nucleus	protein binding			large_intestine(1)|pancreas(1)|breast(1)|skin(1)	4	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;5.31e-10)|all cancers(21;2.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			ACCGTGGGCTGGGGGGGCGGT	0.766			T	IGH@	B-NHL								2	4	---	---	---	---						.	-	155161732	-	-	155161732	7	5	15	1	0	1	0	1	0	0	0	0	9988	1363	47	0		0	MUC1	1	155161732	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	463280	155161732	94088889	48	10882											
THBS3	7059	broad.mit.edu	37	chr1	155168382	155168382	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtccttggtgtcctgatgcCcatccccatcgctaatcaga	7	12	8	14	1	1	2	1	1	0	1	5	2	4	2	5	1	1	1	5	1	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:155168382C>A	uc001fix.2	-	17	1915	c.1892G>T	c.(1891-1893)GGG>GTG	p.G631V	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Missense_Mutation_p.G622V|THBS3_uc001fiz.2_Missense_Mutation_p.G594V|THBS3_uc001fiy.2_Missense_Mutation_p.G160V|THBS3_uc010pfu.1_Missense_Mutation_p.G511V|THBS3_uc010pfv.1_RNA	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	631	TSP type-3 6.				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GTCCTGATGCCCATCCCCATC	0.512													35	60					4.00102e-26	4.78436e-26	0.00623	1	0		A	155168382	A	A	155168382	3	1	15	1	0	0	0	0	1	0	0	0	15880	623	22	5	1006	5	THBS3	1	155168382	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	6650	155168382	94082239	49	10883											
HCN3	57657	broad.mit.edu	37	chr1	155255714	155255714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcagtgtgctggcccgcgGcgcccgggacacacgcctca	5	5	14	17	5	2	0	2	0	0	0	2	1	2	1	3	3	1	2	3	3	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:155255714G>A	uc001fjz.1	+	6	1444	c.1436G>A	c.(1435-1437)GGC>GAC	p.G479D	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_Missense_Mutation_p.G174D	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	479	Cytoplasmic (Potential).|cAMP.					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CTGGCCCGCGGCGCCCGGGAC	0.647													20	20					0	0	0.014323	0	0		A	155255714	A	A	155255714	3	1	15	1	0	0	0	0	1	0	0	0	7014	1203	42	2	1458	2	HCN3	1	155255714	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	87332	155255714	93994907	50	10884											
HCN3	57657	broad.mit.edu	37	chr1	155257084	155257084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggagttccccatgatgcGccgggcctttgagactgtgg	6	10	15	10	2	0	3	0	3	0	1	1	5	1	4	4	3	1	1	4	3	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:155257084G>A	uc001fjz.1	+	7	1606	c.1598G>A	c.(1597-1599)CGC>CAC	p.R533H	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_Missense_Mutation_p.R228H	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	533	Cytoplasmic (Potential).|cAMP.					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CCCATGATGCGCCGGGCCTTT	0.617													28	41					0	0	0.004289	0	0		A	155257084	A	A	155257084	3	1	15	1	0	0	0	0	1	0	0	0	7014	1087	38	1	1624	1	HCN3	1	155257084	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1370	155257084	93993537	51	10885											
FCRL4	83417	broad.mit.edu	37	chr1	157557696	157557696	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttgatctaaatacatcaTtctcgtctccatatccaatg	13	15	3	10	1	4	1	1	1	3	0	7	1	5	1	2	0	1	0	2	0	6	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:157557696T>C	uc001fqw.2	-	4	657	c.521A>G	c.(520-522)AAT>AGT	p.N174S	FCRL4_uc010phy.1_Intron	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	174	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				AAATACATCATTCTCGTCTCC	0.318													9	19					0	0	0.004482	0	0		C	157557696	C	C	157557696	3	2	15	1	0	0	0	0	1	0	0	0	5811	1493	52	3	1062	3	FCRL4	1	157557696	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2300612	157557696	91692925	52	10886											
CD5L	922	broad.mit.edu	37	chr1	157805724	157805724	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcctgtgcaactgactgAttggatgaggaccttttgct	7	15	11	8	0	0	3	0	3	0	0	1	5	1	5	2	2	3	3	2	2	1	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:157805724A>G	uc001frk.3	-	3	420	c.277T>C	c.(277-279)TCA>CCA	p.S93P		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	93	SRCR 1.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CAACTGACTGATTGGATGAGG	0.493													5	245					0	0	0.001168	0	0		G	157805724	G	G	157805724	3	3	15	1	0	0	0	0	1	0	0	0	3030	333	12	3	782	3	CD5L	1	157805724	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	248028	157805724	91444897	53	10887											
OR10T2	128360	broad.mit.edu	37	chr1	158368769	158368769	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaacgcatgtcacaaatgAggttggtggccaccaaagca	16	6	10	9	1	1	1	1	1	0	0	1	1	1	1	2	3	2	3	2	3	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:158368769A>G	uc010pih.1	-	1	488	c.488T>C	c.(487-489)CTC>CCC	p.L163P		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	163	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					GTCACAAATGAGGTTGGTGGC	0.468													21	73					0	0	0.00278	0	0		G	158368769	G	G	158368769	3	3	15	1	0	0	0	0	1	0	0	0	10938	304	11	3	458	3	OR10T2	1	158368769	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	563045	158368769	90881852	54	10888											
OR10T2	128360	broad.mit.edu	37	chr1	158368995	158368995	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagatggtcttggtgtctgAgagcaggtggaccagcagct	8	9	17	7	0	2	2	0	1	2	2	2	5	2	3	1	5	3	3	1	5	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:158368995A>G	uc010pih.1	-	1	262	c.262T>C	c.(262-264)TCA>CCA	p.S88P		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					TTGGTGTCTGAGAGCAGGTGG	0.498													3	65					0	0	0.004672	0	0		G	158368995	G	G	158368995	3	3	15	1	0	0	0	0	1	0	0	0	10938	304	11	3	684	3	OR10T2	1	158368995	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	226	158368995	90881626	55	10889											
DARC	2532	broad.mit.edu	37	chr1	159176186	159176186	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaccctcttgccctctctGcccctccctgaaggatggtc	4	10	8	19	1	2	1	0	1	2	0	5	2	3	2	5	2	2	1	5	2	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:159176186G>T	uc001fto.2	+	2	1197	c.957G>T	c.(955-957)CTG>CTT	p.L319L	DARC_uc001ftp.3_Silent_p.L321L	NM_002036	NP_002027	Q16570	DUFFY_HUMAN	Duffy blood group antigen isoform b	319	Cytoplasmic (Potential).				defense response	integral to membrane|plasma membrane	C-C chemokine binding|chemokine receptor activity			ovary(1)|lung(1)	2	all_hematologic(112;0.0429)					TGCCCTCTCTGCCCCTCCCTG	0.557													113	146					1.74079e-70	2.11304e-70	0.01441	1	0		T	159176186	T	T	159176186	2	4	15	1	0	0	0	0	0	0	0	1	4243	1306	46	5		5	DARC	1	159176186	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	807191	159176186	90074435	56	10890											
IGSF9	57549	broad.mit.edu	37	chr1	159900128	159900128	+	Frame_Shift_Del	DEL	C	-	-																															gggatcccaatgcaggagtaCcccccggggtgtcctcactg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:159900128delC	uc001fur.2	-	15	2113	c.1915delG	c.(1915-1917)GTAfs	p.V639fs	IGSF9_uc001fuq.2_Frame_Shift_Del_p.V623fs|IGSF9_uc001fup.2_5'UTR	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	639	Fibronectin type-III 2.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			TGCAGGAGTACCCCCCGGGGT	0.672													37	58	---	---	---	---						.	-	159900128	-	-	159900128	7	5	15	1	0	1	0	1	0	0	0	0	7621	507	18	0	1652	0	IGSF9	1	159900128	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	723942	159900128	89350493	57	10891											
FMO4	2329	broad.mit.edu	37	chr1	171310826	171310826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctgattcctccaagcctGcctccatgtcacattattta	8	14	4	15	0	1	1	1	1	0	0	5	1	5	1	6	0	2	0	6	0	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:171310826G>A	uc001gho.2	+	10	1742	c.1525G>A	c.(1525-1527)GCC>ACC	p.A509T		NM_002022	NP_002013	P31512	FMO4_HUMAN	flavin containing monooxygenase 4	509					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			kidney(2)|skin(1)	3	all_cancers(6;3.9e-08)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					CTCCAAGCCTGCCTCCATGTC	0.453													4	37					0	0	0.009096	0	0		A	171310826	A	A	171310826	3	1	15	1	0	0	0	0	1	0	0	0	5971	1319	46	2	1555	2	FMO4	1	171310826	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	11410698	171310826	77939795	58	10892											
TNN	63923	broad.mit.edu	37	chr1	175067511	175067511	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgactgaccgggtgacagaGaatatggccacggtctcctg	9	8	14	10	2	1	4	0	3	1	1	2	5	1	4	3	3	0	0	3	3	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:175067511G>C	uc001gkl.1	+	9	2012	c.1899G>C	c.(1897-1899)GAG>GAC	p.E633D	TNN_uc010pmx.1_Missense_Mutation_p.E544D	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	633	Fibronectin type-III 5.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GGGTGACAGAGAATATGGCCA	0.542													42	60					0	0	0.013114	0	0		C	175067511	C	C	175067511	3	2	15	1	0	0	0	0	1	0	0	0	16348	933	33	5	1929	5	TNN	1	175067511	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3756685	175067511	74183110	59	10893											
FAM5B	57795	broad.mit.edu	37	chr1	177250122	177250122	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actctgagagctggttcatgCctgtgaatgagggcagcttt	8	12	13	8	0	2	3	1	3	1	1	2	4	2	3	1	2	3	4	1	2	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:177250122C>T	uc001glf.2	+	8	2122	c.1810C>T	c.(1810-1812)CCT>TCT	p.P604S	FAM5B_uc001glg.2_Missense_Mutation_p.P499S	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	604						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CTGGTTCATGCCTGTGAATGA	0.552													14	19					0	0	0.006122	0	0		T	177250122	T	T	177250122	3	4	15	1	0	0	0	0	1	0	0	0	5607	739	26	2	1836	2	FAM5B	1	177250122	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2182611	177250122	72000499	60	10894											
CACNA1E	777	broad.mit.edu	37	chr1	181680124	181680124	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagagagagtggagaacCgaagggctttcatgaagctg	14	6	16	5	1	1	5	1	1	0	4	1	9	1	5	1	2	2	2	1	2	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:181680124C>T	uc001gow.2	+	8	1255	c.1090C>T	c.(1090-1092)CGA>TGA	p.R364*	CACNA1E_uc009wxs.2_Nonsense_Mutation_p.R271*	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	364	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						AGTGGAGAACCGAAGGGCTTT	0.537													34	52					0	0	0.003755	0	0		T	181680124	T	T	181680124	4	4	15	1	0	0	0	0	0	1	0	0	2545	644	23	1	1120	1	CACNA1E	1	181680124	Nonsense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	4430002	181680124	67570497	61	10895											
C1orf14	81626	broad.mit.edu	37	chr1	182908681	182908681	+	Frame_Shift_Del	DEL	A	-	-																															gtctctccaaagaaagtcatAaaaaaacctacgataaacca																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:182908681delA	uc001gpu.2	-	4	1063	c.778delT	c.(778-780)TATfs	p.Y260fs	C1orf14_uc001gpv.2_Frame_Shift_Del_p.Y141fs|C1orf14_uc010pnz.1_Frame_Shift_Del_p.Y118fs|C1orf14_uc001gpw.2_5'UTR	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	332											0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		AGAAAGTCATAAAAAAACCTA	0.308													16	9	---	---	---	---						.	-	182908681	-	-	182908681	7	5	15	1	0	1	0	1	0	0	0	0	2003	362	13	0	1211	0	C1orf14	1	182908681	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	1228557	182908681	66341940	62	10896											
PRG4	10216	broad.mit.edu	37	chr1	186276875	186276875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccaaggcagcggctcccaAcacccctaaggagcctgctc	9	5	9	18	1	0	0	0	0	0	0	3	1	2	1	5	3	4	3	5	3	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:186276875A>G	uc001gru.3	+	7	2075	c.2024A>G	c.(2023-2025)AAC>AGC	p.N675S	PRG4_uc001grt.3_Missense_Mutation_p.N634S|PRG4_uc009wyl.2_Missense_Mutation_p.N582S|PRG4_uc009wym.2_Missense_Mutation_p.N541S|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	675	59 X 8 AA repeats of K-X-P-X-P-T-T-X.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GCGGCTCCCAACACCCCTAAG	0.642													15	37					0	0	0.010504	0	0		G	186276875	G	G	186276875	3	3	15	1	0	0	0	0	1	0	0	0	12503	43	2	3	2046	3	PRG4	1	186276875	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	3368194	186276875	62973746	63	10897											
PTPRC	5788	broad.mit.edu	37	chr1	198711490	198711490	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagatgcctgatggttcaAgtagaggtatgttctaacct	11	12	11	7	0	2	3	1	1	1	2	2	4	2	3	2	2	2	4	2	2	4	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:198711490A>G	uc001gur.1	+	25	2865	c.2685A>G	c.(2683-2685)CAA>CAG	p.Q895Q	PTPRC_uc001gus.1_Silent_p.Q847Q|PTPRC_uc001gut.1_Silent_p.Q734Q	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	895	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.	Substrate (By similarity).			axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TGATGGTTCAAGTAGAGGTAT	0.363													8	103					0	0	0.006214	0	0		G	198711490	G	G	198711490	2	3	15	1	0	0	0	0	0	0	0	1	12822	69	3	3		3	PTPRC	1	198711490	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	12434615	198711490	50539131	64	10898											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200822407	200822407	+	Frame_Shift_Del	DEL	A	-	-																															ccatttgatttcttaggcgtAaaactgaggaagaacgtcag																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:200822407delA	uc001gvl.2	+	14	3910	c.3640delA	c.(3640-3642)AAAfs	p.K1214fs	CAMSAP1L1_uc001gvk.2_Frame_Shift_Del_p.K1203fs|CAMSAP1L1_uc001gvm.2_Frame_Shift_Del_p.K1187fs	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	1214						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TCTTAGGCGTAAAACTGAGGA	0.363													73	120	---	---	---	---						.	-	200822407	-	-	200822407	7	5	15	1	0	1	0	1	0	0	0	0	2615	363	13	0	3657	0	CAMSAP1L1	1	200822407	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	2110917	200822407	48428214	65	10899											
FMOD	2331	broad.mit.edu	37	chr1	203316677	203316677	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctcaagagctgagggcagcCcatcaggcaccttccgaagg	10	5	13	13	1	2	2	2	1	0	1	3	3	3	2	3	3	2	4	3	3	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:203316677C>A	uc001gzr.2	-	2	858	c.722G>T	c.(721-723)GGG>GTG	p.G241V	FMOD_uc010pqi.1_RNA	NM_002023	NP_002014	Q06828	FMOD_HUMAN	fibromodulin precursor	241	LRR 6.				transforming growth factor beta receptor complex assembly	extracellular space|proteinaceous extracellular matrix				ovary(2)|breast(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.171)			TGAGGGCAGCCCATCAGGCAC	0.572													50	83					3.88204e-17	4.56293e-17	0.01441	1	0		A	203316677	A	A	203316677	3	1	15	1	0	0	0	0	1	0	0	0	5973	623	22	5	416	5	FMOD	1	203316677	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2494270	203316677	45933944	66	10900											
GOLT1A	127845	broad.mit.edu	37	chr1	204168355	204168355	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggatgttgcagacattgcCcaggaagccgaaggcgacag	11	5	16	9	2	0	1	0	0	0	1	0	5	0	3	2	4	3	2	2	4	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:204168355C>A	uc001has.1	-	4	514	c.328G>T	c.(328-330)GGC>TGC	p.G110C	KISS1_uc001har.2_5'Flank|GOLT1A_uc001hat.1_Missense_Mutation_p.G110C	NM_198447	NP_940849	Q6ZVE7	GOT1A_HUMAN	golgi transport 1 homolog A	110	Helical; Name=4; (Potential).				protein transport|vesicle-mediated transport	Golgi membrane|integral to membrane					0	all_cancers(21;0.0165)|Breast(84;0.179)|all_epithelial(62;0.242)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.244)			CAGACATTGCCCAGGAAGCCG	0.632													5	7					0.00116845	0.00125983	0.001168	1	0		A	204168355	A	A	204168355	3	1	15	1	0	0	0	0	1	0	0	0	6585	623	22	5	78	5	GOLT1A	1	204168355	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	851678	204168355	45082266	67	10901											
LRRN2	10446	broad.mit.edu	37	chr1	204588803	204588803	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcacagtctcgggcatcCgaaaagctgttctgggacag	12	8	11	10	2	3	0	1	0	2	0	5	2	4	1	1	2	1	3	1	2	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:204588803C>T	uc001hbe.1	-	3	706	c.318G>A	c.(316-318)TCG>TCA	p.S106S	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Silent_p.S106S|LRRN2_uc009xbf.1_Silent_p.S106S|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	106	LRR 2.|Extracellular (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			CTCGGGCATCCGAAAAGCTGT	0.607													31	44					0	0	0.013726	0	0		T	204588803	T	T	204588803	2	4	15	1	0	0	0	0	0	0	0	1	9053	639	23	1		1	LRRN2	1	204588803	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	420448	204588803	44661818	68	10902											
TMCC2	9911	broad.mit.edu	37	chr1	205238824	205238824	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctggggctgggcctggTggggcgctggggagccctaa	5	7	19	10	1	1	0	0	0	1	0	1	1	1	1	2	8	2	2	2	8	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:205238824T>G	uc001hbz.1	+	4	1938	c.1494T>G	c.(1492-1494)GGT>GGG	p.G498G	TMCC2_uc010prf.1_Silent_p.G420G|TMCC2_uc001hca.2_Silent_p.G273G|TMCC2_uc001hcb.1_Silent_p.G258G|TMCC2_uc001hcc.1_Silent_p.G119G|TMCC2_uc001hcd.2_Silent_p.G265G	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	498						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CTGGGCCTGGTGGGGCGCTGG	0.632													8	37					0	0	0.010729	0	0		G	205238824	G	G	205238824	2	3	15	1	0	0	0	0	0	0	0	1	16018	1683	59	5		5	TMCC2	1	205238824	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	650021	205238824	44011797	69	10903											
TMCC2	9911	broad.mit.edu	37	chr1	205241213	205241213	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctggaagcactgggactcCctcacctacctcctggagca	8	8	9	16	0	2	0	1	0	1	0	4	3	4	3	4	3	3	2	4	3	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:205241213C>T	uc001hbz.1	+	6	2535	c.2091C>T	c.(2089-2091)TCC>TCT	p.S697S	TMCC2_uc010prf.1_Silent_p.S619S|TMCC2_uc001hca.2_Silent_p.S472S|TMCC2_uc001hcb.1_Silent_p.S457S|TMCC2_uc001hcc.1_Silent_p.S318S|TMCC2_uc001hcd.2_3'UTR	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	697	Helical; (Potential).					integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			ACTGGGACTCCCTCACCTACC	0.632													20	50					0	0	0.010504	0	0		T	205241213	T	T	205241213	2	4	15	1	0	0	0	0	0	0	0	1	16018	610	22	4		4	TMCC2	1	205241213	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2389	205241213	44009408	70	10904											
CR1	1378	broad.mit.edu	37	chr1	207787831	207787831	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcagtgttccagtgtgtGaacgtgagtagaaagaacta	14	10	12	5	1	0	4	0	2	0	2	1	4	1	4	1	0	3	3	1	0	6	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:207787831G>T	uc001hfy.2	+	32	5448	c.5308G>T	c.(5308-5310)GAA>TAA	p.E1770*	CR1_uc001hfx.2_Nonsense_Mutation_p.E2220*	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1770	Extracellular (Potential).|Sushi 27.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TCCAGTGTGTGAACGTGAGTA	0.408													9	65					0.000274275	0.000297723	0.004482	1	0		T	207787831	T	T	207787831	4	4	15	1	0	0	0	0	0	1	0	0	3843	1291	45	5	6816	5	CR1	1	207787831	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2546618	207787831	41462790	71	10905											
CENPF	1063	broad.mit.edu	37	chr1	214832209	214832209	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttagggtttgctgacatcccGacaggaaagactagcccata	12	9	10	10	1	0	2	0	1	0	1	1	4	1	3	2	2	2	2	2	2	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:214832209G>A	uc001hkm.2	+	19	9153	c.8979G>A	c.(8977-8979)CCG>CCA	p.P2993P		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	3089	Sufficient for nuclear localization.|Sufficient for centromere localization.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		CTGACATCCCGACAGGAAAGA	0.478											OREG0014250	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	43	70					0	0	0.011902	0	0		A	214832209	A	A	214832209	2	1	15	1	0	0	0	0	0	0	0	1	3234	1045	37	1		1	CENPF	1	214832209	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	7044378	214832209	34418412	72	10906											
USH2A	7399	broad.mit.edu	37	chr1	215916618	215916618	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacggagaaggccagaggtgTtacacttccatcattgagta	13	9	11	8	1	1	3	1	1	0	2	2	4	2	3	2	3	2	2	2	3	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:215916618T>G	uc001hku.1	-	59	11836	c.11449A>C	c.(11449-11451)ACA>CCA	p.T3817P		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3817	Fibronectin type-III 23.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GCCAGAGGTGTTACACTTCCA	0.408										HNSCC(13;0.011)			36	64					0	0	0.005524	0	0		G	215916618	G	G	215916618	3	3	15	1	0	0	0	0	1	0	0	0	17062	1725	60	5	4215	5	USH2A	1	215916618	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1084409	215916618	33334003	73	10907											
USH2A	7399	broad.mit.edu	37	chr1	216595572	216595572	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgttctccagccttgggaaaAgacctcgtgactcagtcaag	10	9	10	12	2	3	2	2	1	1	1	5	3	3	3	3	1	1	1	3	1	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:216595572A>C	uc001hku.1	-	2	494	c.107T>G	c.(106-108)CTT>CGT	p.L36R	USH2A_uc001hkv.2_Missense_Mutation_p.L36R	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	36	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CCTTGGGAAAAGACCTCGTGA	0.468										HNSCC(13;0.011)			4	79					0	0	0.001168	0	0		C	216595572	C	C	216595572	3	2	15	1	0	0	0	0	1	0	0	0	17062	72	3	5	15799	5	USH2A	1	216595572	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	678954	216595572	32655049	74	10908											
LEFTY2	7044	broad.mit.edu	37	chr1	226125285	226125285	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggcagcgaggcagtctcCgaggcgatacactgtcgcgg	8	6	16	11	5	1	0	0	0	1	0	3	3	1	0	1	4	2	2	1	4	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:226125285C>T	uc001hpt.1	-	4	1037	c.957G>A	c.(955-957)TCG>TCA	p.S319S	LEFTY2_uc010pvk.1_Silent_p.S285S|LEFTY2_uc009xek.1_3'UTR	NM_003240	NP_003231	O00292	LFTY2_HUMAN	endometrial bleeding associated factor	319					cell growth|multicellular organismal development|platelet activation|platelet degranulation|transforming growth factor beta receptor signaling pathway	extracellular space|platelet alpha granule lumen	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)					AGGCAGTCTCCGAGGCGATAC	0.647													5	20					0	0	0.008291	0	0		T	226125285	T	T	226125285	2	4	15	1	0	0	0	0	0	0	0	1	8732	639	23	1		1	LEFTY2	1	226125285	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	9529713	226125285	23125336	75	10909											
CABC1	56997	broad.mit.edu	37	chr1	227174190	227174190	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggatgccatcctcatcCtgggggaggccttcgcctct	5	11	11	14	1	2	0	1	0	1	0	5	2	4	2	5	4	1	0	5	4	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:227174190C>A	uc001hqm.1	+	20	5115	c.1696C>A	c.(1696-1698)CTG>ATG	p.L566M	CABC1_uc001hqn.1_Missense_Mutation_p.L566M|CABC1_uc009xeq.1_Missense_Mutation_p.L514M|CABC1_uc010pvq.1_Missense_Mutation_p.L287M|CABC1_uc010pvr.1_Missense_Mutation_p.L240M|CABC1_uc001hqo.1_Missense_Mutation_p.L287M|CABC1_uc009xer.1_Missense_Mutation_p.L82M	NM_020247	NP_064632	Q8NI60	ADCK3_HUMAN	chaperone, ABC1 activity of bc1 complex like	566					cell death	mitochondrion	ATP binding|protein serine/threonine kinase activity				0		Prostate(94;0.0771)				CATCCTCATCCTGGGGGAGGC	0.587													9	58					0.000274275	0.000297723	0.004482	1	0		A	227174190	A	A	227174190	3	1	15	1	0	0	0	0	1	0	0	0	2530	680	24	5	1750	5	CABC1	1	227174190	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1048905	227174190	22076431	76	10910											
JMJD4	65094	broad.mit.edu	37	chr1	227920624	227920624	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcatggagtccctccactcGctgacctcctcctgcacggc	5	8	10	18	2	0	1	0	1	0	0	5	2	4	2	5	3	1	3	5	3	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:227920624G>A	uc001hrb.2	-	5	1065	c.1065C>T	c.(1063-1065)AGC>AGT	p.S355S	SNAP47_uc001hqz.2_Intron|SNAP47_uc001hra.2_Intron|SNAP47_uc001hrd.2_5'Flank|SNAP47_uc001hre.2_5'Flank|SNAP47_uc001hrf.2_5'Flank|LOC100130093_uc001hqx.3_RNA|LOC100130093_uc001hqy.3_RNA|JMJD4_uc001hrc.2_Intron	NM_023007	NP_075383	Q9H9V9	JMJD4_HUMAN	jumonji domain containing 4 isoform 1	355											0		Prostate(94;0.0885)				CCCTCCACTCGCTGACCTCCT	0.612													9	22					0	0	0.001855	0	0		A	227920624	A	A	227920624	2	1	15	1	0	0	0	0	0	0	0	1	7967	1078	38	1		1	JMJD4	1	227920624	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	746434	227920624	21329997	77	10911											
LYST	1130	broad.mit.edu	37	chr1	235914579	235914579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgactggagtgaatctgtgaGgttttcagagtcatgatttg	9	15	13	4	0	3	5	2	4	1	1	3	6	3	6	0	2	0	1	0	2	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:235914579G>A	uc001hxj.2	-	28	7886	c.7711C>T	c.(7711-7713)CTC>TTC	p.L2571F	LYST_uc009xga.1_Missense_Mutation_p.L153F	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2571					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GAATCTGTGAGGTTTTCAGAG	0.413									Chediak-Higashi_syndrome				42	79					0	0	0.011902	0	0		A	235914579	A	A	235914579	3	1	15	1	0	0	0	0	1	0	0	0	9146	1000	35	4	3798	4	LYST	1	235914579	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	7993955	235914579	13336042	78	10912											
OR2L3	391192	broad.mit.edu	37	chr1	248224181	248224181	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcctacttagtcagctctcCctcattgacctaaattacat	10	15	3	13	0	3	1	2	1	1	0	5	1	4	1	3	0	3	1	3	0	5	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:248224181C>A	uc001idx.1	+	1	198	c.198C>A	c.(196-198)TCC>TCA	p.S66S	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			GTCAGCTCTCCCTCATTGACC	0.423													115	207					5.80972e-51	7.02554e-51	0.01441	1	0		A	248224181	A	A	248224181	2	1	15	1	0	0	0	0	0	0	0	1	11027	610	22	5		5	OR2L3	1	248224181	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	12309602	248224181	1026440	79	10913											
OR2L13	284521	broad.mit.edu	37	chr1	248263381	248263381	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaaaggaggggagaaaaaAggccttcaccaccatttcaa	16	6	9	10	0	3	1	3	0	0	1	3	3	3	2	3	4	0	0	3	4	5	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr1:248263381A>G	uc001ids.2	+	3	1041	c.704A>G	c.(703-705)AAG>AGG	p.K235R		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			GGGAGAAAAAAGGCCTTCACC	0.453													40	53					0	0	0.007835	0	0		G	248263381	G	G	248263381	3	3	15	1	0	0	0	0	1	0	0	0	11025	72	3	3	706	3	OR2L13	1	248263381	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	39200	248263381	987240	80	10914											
PXDN	7837	broad.mit.edu	37	chr2	1647304	1647304	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacgtctgcttgatctgaGtcagctgggccggggagaac	7	8	16	10	3	3	3	1	2	2	1	3	5	3	3	1	3	3	2	1	3	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:1647304G>C	uc002qxa.2	-	19	3852	c.3788C>G	c.(3787-3789)ACT>AGT	p.T1263S		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1263					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CTTGATCTGAGTCAGCTGGGC	0.592													16	32					0	0	0.00499	0	0		C	1647304	C	C	1647304	3	2	15	1	0	0	0	0	1	0	0	0	12872	1029	36	5	671	5	PXDN	2	1647304	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08		1647304	241552069	81	10915											
GREB1	9687	broad.mit.edu	37	chr2	11755363	11755363	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgaggccttggagagtgAtgctgagaagctgagcagca	12	6	16	7	1	0	4	0	3	0	2	0	8	0	4	1	2	5	4	1	2	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:11755363A>G	uc002rbk.1	+	20	3569	c.3269A>G	c.(3268-3270)GAT>GGT	p.D1090G	GREB1_uc002rbp.1_Missense_Mutation_p.D88G	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1090						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		TTGGAGAGTGATGCTGAGAAG	0.582													4	24					0	0	0.001168	0	0		G	11755363	G	G	11755363	3	3	15	1	0	0	0	0	1	0	0	0	6776	333	12	3	3451	3	GREB1	2	11755363	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	10108059	11755363	231444010	82	10916											
GEN1	348654	broad.mit.edu	37	chr2	17962826	17962826	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcatagtagaaaagttgatAtgcaaaccactcggaaaatt	18	10	7	6	1	1	2	1	1	0	1	2	3	1	3	1	1	2	3	1	1	8	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:17962826A>G	uc002rct.2	+	14	2420	c.2347A>G	c.(2347-2349)ATG>GTG	p.M783V	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Missense_Mutation_p.M783V|GEN1_uc002rcu.2_Missense_Mutation_p.M783V	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease	783					DNA repair	nucleus	DNA binding|endonuclease activity|metal ion binding			breast(5)|kidney(1)|central_nervous_system(1)|skin(1)	8	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					AAAAGTTGATATGCAAACCAC	0.393								Homologous_recombination					42	50					0	0	0.006999	0	0		G	17962826	G	G	17962826	3	3	15	1	0	0	0	0	1	0	0	0	6350	449	16	3	2397	3	GEN1	2	17962826	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	6207463	17962826	225236547	83	10917											
DPYSL5	56896	broad.mit.edu	37	chr2	27157527	27157527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaggactggtcccacgCggctgcctatgtcacggtgc	6	7	12	16	3	1	0	1	0	0	0	2	1	2	1	4	4	2	1	4	4	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:27157527C>T	uc002rhu.3	+	8	1030	c.872C>T	c.(871-873)GCG>GTG	p.A291V	DPYSL5_uc002rhv.3_Missense_Mutation_p.A291V	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	291					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGGTCCCACGCGGCTGCCTAT	0.582													81	97					0	0	0.01441	0	0		T	27157527	T	T	27157527	3	4	15	1	0	0	0	0	1	0	0	0	4756	768	27	1	898	1	DPYSL5	2	27157527	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	9194701	27157527	216041846	84	10918											
ABHD1	84696	broad.mit.edu	37	chr2	27351926	27351926	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cattgtgctgctgcttcctgGcatcactggcagtagccagg	6	11	12	12	0	1	0	1	0	0	0	2	0	2	0	2	3	4	6	2	3	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:27351926G>T	uc002rit.2	+	3	549	c.389G>T	c.(388-390)GGC>GTC	p.G130V	ABHD1_uc002riu.2_RNA|ABHD1_uc002riv.2_RNA	NM_032604	NP_115993	Q96SE0	ABHD1_HUMAN	abhydrolase domain-containing protein 1	130						integral to membrane	carboxylesterase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGCTTCCTGGCATCACTGGC	0.577													25	30					1.08312e-15	1.26081e-15	0.009535	1	0		T	27351926	T	T	27351926	3	4	15	1	0	0	0	0	1	0	0	0	73	1203	42	5	399	5	ABHD1	2	27351926	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	194399	27351926	215847447	85	10919											
WDR43	23160	broad.mit.edu	37	chr2	29135551	29135551	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgaacaatcaaactatgggTtttggagaccaaagaagtct	15	10	9	7	1	2	2	1	0	1	2	3	4	2	2	1	2	2	1	1	2	6	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:29135551T>G	uc002rmo.2	+	4	613	c.581T>G	c.(580-582)GTT>GGT	p.V194G	SNORD92_uc002rmp.1_5'Flank	NM_015131	NP_055946	Q15061	WDR43_HUMAN	WD repeat domain 43	194	WD 4.					nucleolus				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					AAACTATGGGTTTTGGAGACC	0.388													31	37					0	0	0.003755	0	0		G	29135551	G	G	29135551	3	3	15	1	0	0	0	0	1	0	0	0	17321	1725	60	5	595	5	WDR43	2	29135551	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1783625	29135551	214063822	86	10920											
C2orf71	388939	broad.mit.edu	37	chr2	29293519	29293519	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtccaaggtgggaggctgCggtcggccacctggctggcg	4	6	20	11	3	0	0	0	0	0	0	2	1	1	1	3	8	1	2	3	8	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:29293519C>T	uc002rmt.1	-	1	3609	c.3609G>A	c.(3607-3609)CCG>CCA	p.P1203P		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	1203					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						TGGGAGGCTGCGGTCGGCCAC	0.632													16	23					0	0	0.006122	0	0		T	29293519	T	T	29293519	2	4	15	1	0	0	0	0	0	0	0	1	2194	755	27	1		1	C2orf71	2	29293519	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	157968	29293519	213905854	87	10921											
CEBPZ	10153	broad.mit.edu	37	chr2	37455474	37455474	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gataagcaactctttgaaagTatccaaggccataaggcact	15	9	8	9	0	1	1	0	1	1	0	2	2	2	1	2	2	2	3	2	2	6	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:37455474T>C	uc002rpz.2	-	2	892	c.862A>G	c.(862-864)ACT>GCT	p.T288A		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	288					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				TCTTTGAAAGTATCCAAGGCC	0.443													4	46					0	0	0.009096	0	0		C	37455474	C	C	37455474	3	2	15	1	0	0	0	0	1	0	0	0	3207	1638	57	3	2362	3	CEBPZ	2	37455474	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	8161955	37455474	205743899	88	10922											
SFRS7	6432	broad.mit.edu	37	chr2	38977264	38977264	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacagttcttaaaggaccaTaataactgaaagccctttct	15	12	5	9	0	2	1	0	1	2	0	2	2	2	2	2	1	3	1	2	1	6	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:38977264T>C	uc002rqz.2	-	2	339	c.101A>G	c.(100-102)TAT>TGT	p.Y34C	SFRS7_uc002rra.2_RNA|SFRS7_uc010ynp.1_Missense_Mutation_p.Y34C|GEMIN6_uc002rrb.2_5'Flank	NM_001031684	NP_001026854	Q16629	SRSF7_HUMAN	splicing factor, arginine/serine-rich 7	34	RRM.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding|zinc ion binding				0		all_hematologic(82;0.248)				TAAAGGACCATAATAACTGAA	0.433													40	66					0	0	0.009718	0	0		C	38977264	C	C	38977264	3	2	15	1	0	0	0	0	1	0	0	0	14207	1406	49	3	643	3	SFRS7	2	38977264	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1521790	38977264	204222109	89	10923											
THUMPD2	80745	broad.mit.edu	37	chr2	39996850	39996850	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actttaggatgcaagcatacCtgtgcagtgaaggcctttcc	10	11	10	10	0	0	1	0	1	0	0	1	2	1	2	3	2	4	3	3	2	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:39996850C>A	uc002rru.2	-	3	709	c.672G>T	c.(670-672)CAG>CAT	p.Q224H	THUMPD2_uc002rrv.2_RNA|THUMPD2_uc010ynt.1_Intron|THUMPD2_uc010ynu.1_Missense_Mutation_p.Q224H	NM_025264	NP_079540	Q9BTF0	THUM2_HUMAN	THUMP domain containing 2	224	THUMP.						methyltransferase activity			skin(1)	1		all_hematologic(82;0.248)				GCAAGCATACCTGTGCAGTGA	0.259													31	51					2.42023e-17	2.8482e-17	0.003271	1	0		A	39996850	A	A	39996850	3	1	15	1	0	0	0	0	1	0	0	0	15908	695	24	5	871	5	THUMPD2	2	39996850	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1019586	39996850	203202523	90	10924											
PKDCC	91461	broad.mit.edu	37	chr2	42275917	42275917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggctgctatcggctggcggCccacaagctgcttaaggaga	8	7	15	11	2	0	1	0	0	0	1	1	2	0	1	1	5	3	5	1	5	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:42275917C>T	uc002rsg.2	+	1	757	c.578C>T	c.(577-579)GCC>GTC	p.A193V		NM_138370	NP_612379	Q504Y2	PKDCC_HUMAN	protein kinase-like protein SgK493	193	Protein kinase.				cell differentiation|embryonic digestive tract development|lung alveolus development|negative regulation of Golgi to plasma membrane protein transport|ossification|palate development|positive regulation of bone mineralization|positive regulation of chondrocyte differentiation|protein transport	Golgi apparatus	ATP binding|protein kinase activity			breast(1)	1						CGGCTGGCGGCCCACAAGCTG	0.687													2	1					0	0	0.000602	0	0		T	42275917	T	T	42275917	3	4	15	1	0	0	0	0	1	0	0	0	11988	739	26	2	580	2	PKDCC	2	42275917	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2279067	42275917	200923456	91	10925											
PKDCC	91461	broad.mit.edu	37	chr2	42284800	42284800	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtggtccctgatcccaacaAgaccacatatgtgaaggcct	12	8	9	12	0	0	3	0	2	0	1	2	3	2	3	4	2	1	0	4	2	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:42284800A>G	uc002rsg.2	+	7	1633	c.1454A>G	c.(1453-1455)AAG>AGG	p.K485R		NM_138370	NP_612379	Q504Y2	PKDCC_HUMAN	protein kinase-like protein SgK493	485	Protein kinase.				cell differentiation|embryonic digestive tract development|lung alveolus development|negative regulation of Golgi to plasma membrane protein transport|ossification|palate development|positive regulation of bone mineralization|positive regulation of chondrocyte differentiation|protein transport	Golgi apparatus	ATP binding|protein kinase activity			breast(1)	1						GATCCCAACAAGACCACATAT	0.572													17	16					0	0	0.004007	0	0		G	42284800	G	G	42284800	3	3	15	1	0	0	0	0	1	0	0	0	11988	72	3	3	1480	3	PKDCC	2	42284800	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	8883	42284800	200914573	92	10926											
EML4	27436	broad.mit.edu	37	chr2	42513521	42513521	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggatttttcaaaagcagTaagtaacaatttttagagaa	16	13	7	5	0	1	1	1	0	0	1	1	3	1	2	1	1	2	3	1	1	7	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:42513521T>C	uc002rsi.2	+	10	1384	c.1122_splice	c.e10+2	p.A374_splice	EML4_uc010fap.2_Splice_Site_p.A316_splice|EML4_uc002rsj.2_Splice_Site_p.A63_splice	NM_019063	NP_061936	Q9HC35	EMAL4_HUMAN	echinoderm microtubule associated protein like 4						microtubule-based process|mitosis	cytoplasm|microtubule	protein binding		EML4/ALK(246)	lung(246)|ovary(2)|central_nervous_system(1)|skin(1)	250						TCAAAAGCAGTAAGTAACAAT	0.403			T	ALK	NSCLC								3	77					0	0	0.004672	0	0		C	42513521	C	C	42513521	5	2	15	1	0	0	0	0	0	0	1	0	5107	1652	57	3	1162	3	EML4	2	42513521	Splice_Site	SNP	T	TCGA-BR-4280-01A-01D-1126-08	228721	42513521	200685852	93	10927											
PAPOLG	64895	broad.mit.edu	37	chr2	61022147	61022147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaactattgatacatcaCgcaaaaaggtaacaagatag	18	9	6	8	1	1	2	1	1	0	1	2	2	2	2	1	1	3	2	1	1	8	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:61022147C>T	uc002sai.2	+	21	2335	c.2104C>T	c.(2104-2106)CGC>TGC	p.R702C	PAPOLG_uc002saj.2_Missense_Mutation_p.R391C|PAPOLG_uc002sak.2_Missense_Mutation_p.R237C|PAPOLG_uc010fch.2_Missense_Mutation_p.R369C	NM_022894	NP_075045	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma	702					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(2;0.0797)		LUSC - Lung squamous cell carcinoma(5;1.19e-07)|Lung(5;2.86e-06)|Epithelial(17;0.0768)			TGATACATCACGCAAAAAGGT	0.308													30	56					0	0	0.010818	0	0		T	61022147	T	T	61022147	3	4	15	1	0	0	0	0	1	0	0	0	11450	536	19	1	2186	1	PAPOLG	2	61022147	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	18508626	61022147	182177226	94	10928											
XPO1	7514	broad.mit.edu	37	chr2	61721063	61721063	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcaaatatagctgtctcctgGgaggaacatcaaaatgttga	14	10	10	7	0	2	1	1	1	1	0	3	3	2	3	1	2	2	3	1	2	6	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:61721063G>T	uc002sbj.2	-	12	1939	c.1211C>A	c.(1210-1212)CCC>CAC	p.P404H	XPO1_uc010fcl.2_Missense_Mutation_p.P400H|XPO1_uc010ypn.1_Missense_Mutation_p.P400H|XPO1_uc002sbk.2_5'UTR|XPO1_uc002sbh.2_Missense_Mutation_p.P51H	NM_003400	NP_003391	O14980	XPO1_HUMAN	exportin 1	404	HEAT 3.|Necessary for HTLV-1 Rex-mediated mRNA export.|Interaction with Ran and nuclear export complex formation.				intracellular protein transport|mitotic prometaphase|mRNA metabolic process|mRNA transport|viral genome transport in host cell|viral infectious cycle	annulate lamellae|Cajal body|cytosol|kinetochore|nuclear envelope|nucleolus|ribonucleoprotein complex	protein binding|protein transporter activity|RNA binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(7;5.71e-05)|Epithelial(17;0.0662)|all cancers(80;0.226)			CTGTCTCCTGGGAGGAACATC	0.433													103	202					9.40513e-36	1.12885e-35	0.01441	1	0		T	61721063	T	T	61721063	3	4	15	1	0	0	0	0	1	0	0	0	17471	1232	43	5	2060	5	XPO1	2	61721063	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	698916	61721063	181478310	95	10929											
PELI1	57162	broad.mit.edu	37	chr2	64327600	64327600	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggcccgagataaagtatAtgatatgctatgctggtctt	10	13	11	7	1	1	2	0	1	1	1	1	3	1	2	1	2	2	3	1	2	6	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:64327600A>G	uc002scs.3	-	3	4274	c.235T>C	c.(235-237)TAT>CAT	p.Y79H	PELI1_uc002sct.3_Missense_Mutation_p.Y79H|PELI1_uc002scr.3_5'Flank	NM_020651	NP_065702	Q96FA3	PELI1_HUMAN	pellino protein	79					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol				ovary(1)	1						GATAAAGTATATGATATGCTA	0.338													50	71					0	0	0.01441	0	0		G	64327600	G	G	64327600	3	3	15	1	0	0	0	0	1	0	0	0	11740	449	16	3	1037	3	PELI1	2	64327600	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	2606537	64327600	178871773	96	10930											
MPHOSPH10	10199	broad.mit.edu	37	chr2	71377061	71377061	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctaaattacaagatcaagtAaaaatgcaaatcaatgatgc	20	10	5	6	0	3	2	2	1	1	1	3	2	3	2	0	0	3	2	0	0	10	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:71377061A>G	uc002sht.1	+	11	2314	c.1962A>G	c.(1960-1962)GTA>GTG	p.V654V		NM_005791	NP_005782	O00566	MPP10_HUMAN	M-phase phosphoprotein 10	654	Potential.				RNA splicing, via transesterification reactions|rRNA processing	chromosome|nucleolus|small nucleolar ribonucleoprotein complex	protein binding			skin(2)|ovary(1)	3						AAGATCAAGTAAAAATGCAAA	0.289													37	42					0	0	0.004878	0	0		G	71377061	G	G	71377061	2	3	15	1	0	0	0	0	0	0	0	1	9743	349	13	3		3	MPHOSPH10	2	71377061	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	7049461	71377061	171822312	97	10931											
ALMS1	7840	broad.mit.edu	37	chr2	73678505	73678505	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaggacctttaggttcCagtgcacttggagagaagcc	10	8	12	11	0	0	1	0	0	0	1	1	4	1	3	4	3	3	3	4	3	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:73678505C>T	uc002sje.1	+	10	4965	c.4854C>T	c.(4852-4854)TCC>TCT	p.S1618S	ALMS1_uc002sjf.1_Silent_p.S1574S|ALMS1_uc002sjg.2_Silent_p.S1004S|ALMS1_uc002sjh.1_Silent_p.S1004S	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1616	23.|34 X 47 AA approximate tandem repeat.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CTTTAGGTTCCAGTGCACTTG	0.468													50	45					0	0	0.01441	0	0		T	73678505	T	T	73678505	2	4	15	1	0	0	0	0	0	0	0	1	535	581	21	4		4	ALMS1	2	73678505	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2301444	73678505	169520868	98	10932											
LOXL3	84695	broad.mit.edu	37	chr2	74776634	74776634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacttccaccagcccctccGtcacgggcaggggtcgtctg	5	8	12	16	3	2	1	1	1	1	0	5	1	4	1	5	3	1	1	5	3	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:74776634G>A	uc002smp.1	-	4	626	c.554C>T	c.(553-555)ACG>ATG	p.T185M	LOXL3_uc002smo.1_Translation_Start_Site|LOXL3_uc010ffm.1_Missense_Mutation_p.T185M|LOXL3_uc002smq.1_Intron|LOXL3_uc010ffn.1_Intron|DOK1_uc002smr.2_Intron	NM_032603	NP_115992	P58215	LOXL3_HUMAN	lysyl oxidase-like 3 precursor	185	SRCR 2.					extracellular space|membrane	copper ion binding|protein-lysine 6-oxidase activity|scavenger receptor activity				0						CAGCCCCTCCGTCACGGGCAG	0.672													4	5					0	0	0.006214	0	0		A	74776634	A	A	74776634	3	1	15	1	0	0	0	0	1	0	0	0	8919	1145	40	1	1751	1	LOXL3	2	74776634	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1098129	74776634	168422739	99	10933											
KCMF1	56888	broad.mit.edu	37	chr2	85280273	85280273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttttaacttacacaggtTgaatgatcctaaaatgtctg	12	16	6	7	0	2	2	0	2	2	0	3	2	3	2	1	1	2	1	1	1	5	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:85280273T>C	uc002sox.3	+	7	1231	c.887T>C	c.(886-888)TTG>TCG	p.L296S		NM_020122	NP_064507	Q9P0J7	KCMF1_HUMAN	potassium channel modulatory factor 1	296						intracellular	ligase activity|zinc ion binding			ovary(2)	2						TTACACAGGTTGAATGATCCT	0.438													5	16					0	0	0.001984	0	0		C	85280273	C	C	85280273	3	2	15	1	0	0	0	0	1	0	0	0	8016	1821	63	3	913	3	KCMF1	2	85280273	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	10503639	85280273	157919100	100	10934											
POLR1A	25885	broad.mit.edu	37	chr2	86315957	86315957	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtgccttccagaagagagCaatgagcttgctcttgctct	9	12	10	10	0	2	3	0	1	2	2	3	4	3	3	2	0	5	4	2	0	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:86315957C>A	uc002sqs.2	-	5	956	c.577G>T	c.(577-579)GCT>TCT	p.A193S	POLR1A_uc002sqv.2_Missense_Mutation_p.A193S	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	193					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						CAGAAGAGAGCAATGAGCTTG	0.453													42	39					9.57592e-29	1.1465e-28	0.01441	1	0		A	86315957	A	A	86315957	3	1	15	1	0	0	0	0	1	0	0	0	12228	710	25	5	4705	5	POLR1A	2	86315957	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1035684	86315957	156883416	101	10935											
ARID5A	10865	broad.mit.edu	37	chr2	97217702	97217702	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtggggccaaacctgcAgggtccggcctggtctcctg	6	8	15	12	1	1	0	0	0	1	0	3	0	2	0	5	5	2	1	5	5	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:97217702A>C	uc002swe.2	+	7	1537	c.1437A>C	c.(1435-1437)GCA>GCC	p.A479A	ARID5A_uc010yuq.1_Silent_p.A427A|ARID5A_uc002swf.2_Silent_p.A315A|ARID5A_uc002swg.2_Silent_p.A427A	NM_212481	NP_997646	Q03989	ARI5A_HUMAN	AT rich interactive domain 5A	479					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding				0						CCAAACCTGCAGGGTCCGGCC	0.657													3	7					0	0	0.000602	0	0		C	97217702	C	C	97217702	2	2	15	1	0	0	0	0	0	0	0	1	921	175	7	5		5	ARID5A	2	97217702	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	10901745	97217702	145981671	102	10936											
CHST10	9486	broad.mit.edu	37	chr2	101010201	101010201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatgcagaaataagtctttCgaagggatctcttacaataa	17	11	7	6	1	2	1	0	0	2	1	4	3	2	2	0	1	2	1	0	1	7	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:101010201C>T	uc002tam.2	-	7	936	c.577G>A	c.(577-579)GAA>AAA	p.E193K		NM_004854	NP_004845	O43529	CHSTA_HUMAN	HNK-1 sulfotransferase	193	PAPS (Probable).|Lumenal (Potential).				carbohydrate biosynthetic process|cell adhesion	Golgi membrane|integral to membrane|membrane fraction				ovary(1)	1						ATAAGTCTTTCGAAGGGATCT	0.393													35	42					0	0	0.005524	0	0		T	101010201	T	T	101010201	3	4	15	1	0	0	0	0	1	0	0	0	3401	893	31	1	497	1	CHST10	2	101010201	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3792499	101010201	142189172	103	10937											
TBC1D8	11138	broad.mit.edu	37	chr2	101656720	101656720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcagaggcgaacatccGccccgtggtgtgacagcgac	8	6	14	13	4	1	2	1	1	0	1	2	4	2	2	3	2	2	1	3	2	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:101656720G>A	uc010fiv.2	-	6	1086	c.955C>T	c.(955-957)CGG>TGG	p.R319W	TBC1D8_uc010yvw.1_Missense_Mutation_p.R334W|TBC1D8_uc002tau.3_Missense_Mutation_p.R76W	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8	319	GRAM 2.				blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						GCGAACATCCGCCCCGTGGTG	0.572													26	44					0	0	0.007291	0	0		A	101656720	A	A	101656720	3	1	15	1	0	0	0	0	1	0	0	0	15650	1086	38	1	2527	1	TBC1D8	2	101656720	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	646519	101656720	141542653	104	10938											
RANBP2	5903	broad.mit.edu	37	chr2	109400209	109400209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcaatttgttataacacTgaagaaagcagaacatttgg	15	13	7	6	0	1	3	1	1	1	2	2	3	1	3	0	1	3	2	0	1	6	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:109400209T>C	uc002tem.3	+	29	9653	c.9527T>C	c.(9526-9528)CTG>CCG	p.L3176P		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	3176	PPIase cyclophilin-type.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GTTATAACACTGAAGAAAGCA	0.348													46	56					0	0	0.01441	0	0		C	109400209	C	C	109400209	3	2	15	1	0	0	0	0	1	0	0	0	13053	1580	55	3	9641	3	RANBP2	2	109400209	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	7743489	109400209	133799164	105	10939											
SEPT10	151011	broad.mit.edu	37	chr2	110332309	110332309	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcttggagataggcctcaAactgagcatctatgtagtca	11	12	9	9	0	4	2	2	1	2	1	4	3	4	2	1	2	2	2	1	2	4	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:110332309A>G	uc002tew.2	-	5	828	c.449T>C	c.(448-450)TTT>TCT	p.F150S	SEPT10_uc010ywu.1_Intron|SEPT10_uc002tex.2_Missense_Mutation_p.F127S|SEPT10_uc002tey.2_Missense_Mutation_p.F150S|SEPT10_uc010ywv.1_Missense_Mutation_p.F16S|SEPT10_uc002tev.1_5'UTR|SEPT10_uc010fjo.2_RNA	NM_144710	NP_653311	Q9P0V9	SEP10_HUMAN	septin 10 isoform 1	150					cell cycle|cell division	septin complex	GTP binding				0						ATAGGCCTCAAACTGAGCATC	0.378													30	41					0	0	0.008361	0	0		G	110332309	G	G	110332309	3	3	15	1	0	0	0	0	1	0	0	0	14085	14	1	3	943	3	SEPT10	2	110332309	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	932100	110332309	132867064	106	10940											
MAP3K2	10746	broad.mit.edu	37	chr2	128065338	128065338	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaaattcagcccaaggCggcttttcagttagcatttc	9	13	8	11	1	3	0	3	0	0	0	4	0	3	0	1	2	2	4	1	2	3	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:128065338C>T	uc002toj.1	-	16	1742	c.1677G>A	c.(1675-1677)CCG>CCA	p.P559P		NM_006609	NP_006600	Q9Y2U5	M3K2_HUMAN	mitogen-activated protein kinase kinase kinase	559	Protein kinase.				activation of JUN kinase activity|cellular response to mechanical stimulus	nucleus	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein kinase binding			lung(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0706)		CAGCCCAAGGCGGCTTTTCAG	0.408													9	8					0	0	0.008291	0	0		T	128065338	T	T	128065338	2	4	15	1	0	0	0	0	0	0	0	1	9268	755	27	1		1	MAP3K2	2	128065338	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	17733029	128065338	115134035	107	10941											
WDR33	55339	broad.mit.edu	37	chr2	128477098	128477098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggaggcccctgcatgcctCggatctcctgaggacctctc	5	9	12	15	1	2	1	0	1	2	0	5	4	2	4	5	4	2	1	5	4	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:128477098C>T	uc002tpg.1	-	16	2684	c.2501G>A	c.(2500-2502)CGA>CAA	p.R834Q		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	834					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		CTGCATGCCTCGGATCTCCTG	0.627													12	23					0	0	0.013537	0	0		T	128477098	T	T	128477098	3	4	15	1	0	0	0	0	1	0	0	0	17313	884	31	1	1537	1	WDR33	2	128477098	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	411760	128477098	114722275	108	10942											
POTEF	728378	broad.mit.edu	37	chr2	130832662	130832662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctcctcgggagccacacGcagctcgttgtagaaggtgt	7	9	14	11	3	0	1	0	0	0	1	3	2	1	2	2	2	3	5	2	2	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:130832662G>A	uc010fmh.2	-	17	2783	c.2383C>T	c.(2383-2385)CGT>TGT	p.R795C		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	795	Actin-like.					cell cortex	ATP binding			skin(3)|ovary(2)	5						GGAGCCACACGCAGCTCGTTG	0.567													51	84					0	0	0.01441	0	0		A	130832662	A	A	130832662	3	1	15	1	0	0	0	0	1	0	0	0	12284	1087	38	1	848	1	POTEF	2	130832662	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2355564	130832662	112366711	109	10943											
ARHGEF4	50649	broad.mit.edu	37	chr2	131803636	131803636	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggccctgctacctgacGcgccagaagcacccagccct	7	4	11	19	3	0	2	0	1	0	1	0	2	0	2	6	2	4	2	6	2	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:131803636G>A	uc002tsa.1	+	14	2467	c.1947G>A	c.(1945-1947)ACG>ACA	p.T649T	ARHGEF4_uc010fmw.1_Silent_p.T797T|ARHGEF4_uc002tsb.1_3'UTR|ARHGEF4_uc010fmx.1_Silent_p.T589T|ARHGEF4_uc002tsc.1_Silent_p.T192T	NM_015320	NP_056135	Q9NR80	ARHG4_HUMAN	Rho guanine nucleotide exchange factor 4 isoform	649					apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|lamellipodium assembly|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|ruffle membrane	protein domain specific binding|Rac guanyl-nucleotide exchange factor activity			breast(3)|ovary(2)|skin(1)	6		Prostate(154;0.055)		BRCA - Breast invasive adenocarcinoma(221;0.097)		GCTACCTGACGCGCCAGAAGC	0.667													22	25					0	0	0.00333	0	0		A	131803636	A	A	131803636	2	1	15	1	0	0	0	0	0	0	0	1	908	1074	38	1		1	ARHGEF4	2	131803636	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	970974	131803636	111395737	110	10944											
PLEKHB2	55041	broad.mit.edu	37	chr2	131890528	131890528	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatccgtggtttcctcaccTccaccatacacggcctatgc	8	10	6	17	2	1	0	1	0	0	0	4	0	4	0	6	2	2	1	6	2	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:131890528T>C	uc002tsg.3	+	6	947	c.387T>C	c.(385-387)CCT>CCC	p.P129P	PLEKHB2_uc002tsh.2_Silent_p.P129P|PLEKHB2_uc002tsj.3_Silent_p.P129P|PLEKHB2_uc002tsf.3_Silent_p.P129P|PLEKHB2_uc010zao.1_Silent_p.P79P|PLEKHB2_uc010zap.1_Silent_p.P129P|PLEKHB2_uc010zaq.1_Intron|PLEKHB2_uc002tsi.3_Silent_p.P170P	NM_001100623	NP_001094093	Q96CS7	PKHB2_HUMAN	pleckstrin homology domain containing, family B	129						membrane	protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.0828)		TTTCCTCACCTCCACCATACA	0.602													23	41					0	0	0.003954	0	0		C	131890528	C	C	131890528	2	2	15	1	0	0	0	0	0	0	0	1	12084	1538	54	3		3	PLEKHB2	2	131890528	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	86892	131890528	111308845	111	10945											
GPR39	2863	broad.mit.edu	37	chr2	133174707	133174707	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggccacctggatcaaaaTcacccttattctggtgtacc	9	11	9	12	0	3	0	2	0	1	0	3	1	3	1	4	4	1	1	4	4	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:133174707T>C	uc002ttl.2	+	1	561	c.92T>C	c.(91-93)ATC>ACC	p.I31T		NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	31	Helical; Name=1; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						TGGATCAAAATCACCCTTATT	0.537													18	42					0	0	0.010504	0	0		C	133174707	C	C	133174707	3	2	15	1	0	0	0	0	1	0	0	0	6708	1435	50	3	94	3	GPR39	2	133174707	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1284179	133174707	110024666	112	10946											
SCN2A	6326	broad.mit.edu	37	chr2	166246213	166246213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagagaaaaccgatatgaCgccttccaccacgtctccac	12	7	6	16	3	1	2	0	1	1	1	4	4	3	2	6	0	1	0	6	0	3	2	rs112098080		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:166246213C>T	uc002udc.2	+	27	6187	c.5897C>T	c.(5896-5898)ACG>ATG	p.T1966M	SCN2A_uc002udd.2_Missense_Mutation_p.T1966M|SCN2A_uc002ude.2_Missense_Mutation_p.T1966M	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1966					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ACCGATATGACGCCTTCCACC	0.383													28	59					0	0	0.009535	0	0		T	166246213	T	T	166246213	3	4	15	1	0	0	0	0	1	0	0	0	13941	536	19	1	6095	1	SCN2A	2	166246213	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	33071506	166246213	76953160	113	10947											
XIRP2	129446	broad.mit.edu	37	chr2	168108385	168108385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagagtttttaaaggcctgGgatatgcaaccgcagatgct	12	10	12	7	1	0	2	0	0	0	2	0	4	0	3	2	2	3	4	2	2	5	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:168108385G>A	uc002udx.2	+	8	10501	c.10483G>A	c.(10483-10485)GGA>AGA	p.G3495R	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.G3320R|XIRP2_uc010fpq.2_Missense_Mutation_p.G3273R|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3320					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TAAAGGCCTGGGATATGCAAC	0.383													30	61					0	0	0.013726	0	0		A	168108385	A	A	168108385	3	1	15	1	0	0	0	0	1	0	0	0	17456	1233	43	4	10513	4	XIRP2	2	168108385	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1862172	168108385	75090988	114	10948											
MYO3B	140469	broad.mit.edu	37	chr2	171242744	171242744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgggaagacagaaagcGcccacctgattgttcagcat	11	8	11	11	1	2	3	1	1	1	2	2	4	2	4	2	1	2	3	2	1	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:171242744G>A	uc002ufy.2	+	13	1479	c.1336G>A	c.(1336-1338)GCC>ACC	p.A446T	MYO3B_uc002ufv.2_Missense_Mutation_p.A433T|MYO3B_uc010fqb.1_Missense_Mutation_p.A433T|MYO3B_uc002ufz.2_Missense_Mutation_p.A446T|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	446	Myosin head-like.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						GACAGAAAGCGCCCACCTGAT	0.448													15	32					0	0	0.003163	0	0		A	171242744	A	A	171242744	3	1	15	1	0	0	0	0	1	0	0	0	10095	1087	38	1	1386	1	MYO3B	2	171242744	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3134359	171242744	71956629	115	10949											
DYNC1I2	1781	broad.mit.edu	37	chr2	172546719	172546719	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacgtaagaagcagcgactGgcccaaatcagagaggaaaa	18	3	12	8	2	1	2	1	0	0	2	1	6	1	3	1	2	3	2	1	2	6	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:172546719G>T	uc002uha.1	+	2	219	c.54G>T	c.(52-54)CTG>CTT	p.L18L	DYNC1I2_uc002uhc.2_Silent_p.L18L|DYNC1I2_uc002uhb.1_Silent_p.L18L|DYNC1I2_uc010zds.1_Silent_p.L18L|DYNC1I2_uc002uhd.1_Silent_p.L18L|DYNC1I2_uc002uhe.1_Silent_p.L18L|DYNC1I2_uc002uhf.1_Silent_p.L18L|DYNC1I2_uc010zdt.1_Silent_p.L18L	NM_001378	NP_001369	Q13409	DC1I2_HUMAN	dynein, cytoplasmic 1, intermediate chain 2	18					G2/M transition of mitotic cell cycle|interspecies interaction between organisms|microtubule-based movement|transport	centrosome|cytosol|dynein complex|microtubule|vesicle	microtubule motor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.198)			AGCAGCGACTGGCCCAAATCa	0.264													9	12					0.00829132	0.00888027	0.008291	1	0		T	172546719	T	T	172546719	2	4	15	1	0	0	0	0	0	0	0	1	4849	1335	47	5		5	DYNC1I2	2	172546719	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1303975	172546719	70652654	116	10950											
SLC25A12	8604	broad.mit.edu	37	chr2	172650186	172650186	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcacattcagggcgctgActctgggtcccgtggtgatc	6	9	15	11	2	2	2	1	2	1	0	4	3	3	3	1	4	1	2	1	4	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:172650186A>T	uc002uhh.2	-	14	1486	c.1397T>A	c.(1396-1398)GTC>GAC	p.V466D	SLC25A12_uc010fqh.2_Missense_Mutation_p.V359D	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12	466	Solcar 2.				gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)		L-Aspartic Acid(DB00128)	CAGGGCGCTGACTCTGGGTCC	0.463													31	44					0	0	0.003271	0	0		T	172650186	T	T	172650186	3	4	15	1	0	0	0	0	1	0	0	0	14499	275	10	5	659	5	SLC25A12	2	172650186	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	103467	172650186	70549187	117	10951											
ITGA6	3655	broad.mit.edu	37	chr2	173368931	173368931	+	Frame_Shift_Del	DEL	A	-	-																															aaagtatattgataaccttgAaaaaaaacagtggatcacaa																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:173368931delA	uc002uhp.1	+	25	3430	c.3227delA	c.(3226-3228)GAAfs	p.E1076fs	ITGA6_uc010zdy.1_3'UTR|ITGA6_uc002uho.1_3'UTR|ITGA6_uc010fqm.1_3'UTR	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a	1115	Cytoplasmic (Potential).				blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			GATAACCTTGAAAAAAAACAG	0.408													11	24	---	---	---	---						.	-	173368931	-	-	173368931	7	5	15	1	0	1	0	1	0	0	0	0	7896	246	9	0	3437	0	ITGA6	2	173368931	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	718745	173368931	69830442	118	10952											
OSBPL6	114880	broad.mit.edu	37	chr2	179255915	179255915	+	Frame_Shift_Del	DEL	C	-	-																															aggactctactgtggtgtggCcccctctgcaaagtgcattt																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:179255915delC	uc002ulx.2	+	22	2795	c.2417delC	c.(2416-2418)GCCfs	p.A806fs	OSBPL6_uc002uly.2_Frame_Shift_Del_p.A831fs|OSBPL6_uc010zfe.1_Frame_Shift_Del_p.A775fs|OSBPL6_uc002ulz.2_Frame_Shift_Del_p.A770fs|OSBPL6_uc002uma.2_Frame_Shift_Del_p.A810fs	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	806					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			TGTGGTGTGGCCCCCTCTGCA	0.537													35	78	---	---	---	---						.	-	179255915	-	-	179255915	7	5	15	1	0	1	0	1	0	0	0	0	11300	739	26	0	2617	0	OSBPL6	2	179255915	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	5886984	179255915	63943458	119	10953											
MSTN	2660	broad.mit.edu	37	chr2	190925074	190925074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaaatatatccatagttggGcctttactactttattgtat	11	18	5	7	0	1	0	1	0	0	0	2	0	2	0	2	1	2	2	2	1	8	11			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:190925074G>A	uc002urp.2	-	2	594	c.461C>T	c.(460-462)GCC>GTC	p.A154V		NM_005259	NP_005250	O14793	GDF8_HUMAN	myostatin precursor	154					muscle organ development|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000742)|Epithelial(96;0.0121)|all cancers(119;0.0395)			CCATAGTTGGGCCTTTACTAC	0.353													37	45					0	0	0.004289	0	0		A	190925074	A	A	190925074	3	1	15	1	0	0	0	0	1	0	0	0	9911	1203	42	2	674	2	MSTN	2	190925074	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	11669159	190925074	52274299	120	10954											
KCTD18	130535	broad.mit.edu	37	chr2	201355178	201355178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaaccggtttgctgtcGccccagccgacgtctggatg	6	11	12	12	4	1	1	0	1	1	0	2	3	1	2	4	2	3	2	4	2	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:201355178G>A	uc002uvs.2	-	7	1443	c.926C>T	c.(925-927)GCG>GTG	p.A309V	KCTD18_uc002uvt.2_Missense_Mutation_p.A309V	NM_152387	NP_689600	Q6PI47	KCD18_HUMAN	potassium channel tetramerization domain	309						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1						GTTTGCTGTCGCCCCAGCCGA	0.592													5	3					0	0	0.008291	0	0		A	201355178	A	A	201355178	3	1	15	1	0	0	0	0	1	0	0	0	8121	1087	38	1	358	1	KCTD18	2	201355178	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	10430104	201355178	41844195	121	10955											
CASP8	841	broad.mit.edu	37	chr2	202149988	202149988	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctaccgaaaccctgcagagGgaacctggtacatccagtca	12	6	9	14	1	1	1	1	0	0	1	2	3	2	2	5	2	5	2	5	2	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:202149988G>T	uc002uxr.1	+	9	1461	c.1252G>T	c.(1252-1254)GGA>TGA	p.G418*	CASP8_uc002uxp.1_Nonsense_Mutation_p.G435*|CASP8_uc002uxq.1_Nonsense_Mutation_p.G403*|CASP8_uc002uxt.1_Nonsense_Mutation_p.G477*|CASP8_uc002uxu.1_RNA|CASP8_uc002uxw.1_Nonsense_Mutation_p.G403*|CASP8_uc002uxy.1_Intron|CASP8_uc002uxx.1_Intron|CASP8_uc010ftf.2_Nonsense_Mutation_p.G334*	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	418					activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						CCCTGCAGAGGGAACCTGGTA	0.512										HNSCC(4;0.00038)			24	39					1.10513e-12	1.27262e-12	0.014323	1	0		T	202149988	T	T	202149988	4	4	15	1	0	0	0	0	0	1	0	0	2680	1233	43	5	1559	5	CASP8	2	202149988	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	794810	202149988	41049385	122	10956											
ZDBF2	57683	broad.mit.edu	37	chr2	207174987	207174987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tattgatgacttgtcagtggCcttagataaaccatgccatc	11	13	8	9	0	1	3	1	2	0	1	2	3	1	3	3	1	2	0	3	1	4	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:207174987C>T	uc002vbp.2	+	5	5985	c.5735C>T	c.(5734-5736)GCC>GTC	p.A1912V		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1912							nucleic acid binding|zinc ion binding			ovary(3)	3						TTGTCAGTGGCCTTAGATAAA	0.483													43	62					0	0	0.01441	0	0		T	207174987	T	T	207174987	3	4	15	1	0	0	0	0	1	0	0	0	17624	739	26	2	5745	2	ZDBF2	2	207174987	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5024999	207174987	36024386	123	10957											
ZDBF2	57683	broad.mit.edu	37	chr2	207175826	207175826	+	Frame_Shift_Del	DEL	A	-	-																															gtaataagctaggttttcccAaaaaggtttataaaccaatt																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:207175826delA	uc002vbp.2	+	5	6824	c.6574delA	c.(6574-6576)AAAfs	p.K2192fs		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	2192							nucleic acid binding|zinc ion binding			ovary(3)	3						AGGTTTTCCCAAAAAGGTTTA	0.338													29	59	---	---	---	---						.	-	207175826	-	-	207175826	7	5	15	1	0	1	0	1	0	0	0	0	17624	131	5	0	6584	0	ZDBF2	2	207175826	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	839	207175826	36023547	124	10958											
FAM119A	151194	broad.mit.edu	37	chr2	208477826	208477826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaaatatgtacatctttttCaggatcgtagtgaacctttc	11	16	7	7	1	2	1	1	1	1	0	4	2	2	2	1	1	2	3	1	1	6	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:208477826C>T	uc002vcf.2	-	4	761	c.601G>A	c.(601-603)GAA>AAA	p.E201K	FAM119A_uc002vce.2_Intron|FAM119A_uc010fuk.1_Missense_Mutation_p.E201K|FAM119A_uc002vcg.3_Missense_Mutation_p.E201K	NM_145280	NP_660323	Q8WXB1	MT21A_HUMAN	hypothetical protein LOC151194	201						integral to membrane	methyltransferase activity				0				LUSC - Lung squamous cell carcinoma(261;0.0705)|Epithelial(149;0.131)|Lung(261;0.135)		ACATCTTTTTCAGGATCGTAG	0.373													17	136					0	0	0.004007	0	0		T	208477826	T	T	208477826	3	4	15	1	0	0	0	0	1	0	0	0	5424	835	29	4	59	4	FAM119A	2	208477826	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1302000	208477826	34721547	125	10959											
ERBB4	2066	broad.mit.edu	37	chr2	212285296	212285296	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagagattctgaaagaacTtgctgtcatttggactggga	12	11	11	7	0	2	3	1	1	1	2	2	6	2	5	1	2	2	1	1	2	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:212285296T>C	uc002veg.1	-	25	3103	c.3005A>G	c.(3004-3006)AAG>AGG	p.K1002R	ERBB4_uc002veh.1_Missense_Mutation_p.K1002R|ERBB4_uc010zji.1_Missense_Mutation_p.K992R|ERBB4_uc010zjj.1_Missense_Mutation_p.K992R	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1002	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CTGAAAGAACTTGCTGTCATT	0.408										TSP Lung(8;0.080)			4	45					0	0	0.000602	0	0		C	212285296	C	C	212285296	3	2	15	1	0	0	0	0	1	0	0	0	5217	1609	56	3	937	3	ERBB4	2	212285296	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	3807470	212285296	30914077	126	10960											
BARD1	580	broad.mit.edu	37	chr2	215645475	215645475	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtttttcctccctgatgTaccaccaactttacgtttgc	7	16	5	13	1	0	1	0	1	0	0	2	1	2	1	4	0	4	3	4	0	3	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:215645475T>C	uc002veu.2	-	4	1258	c.1123A>G	c.(1123-1125)ACA>GCA	p.T375A	BARD1_uc010zjm.1_Missense_Mutation_p.T231A	NM_000465	NP_000456	Q99728	BARD1_HUMAN	BRCA1 associated RING domain 1	375					cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		CTCCCTGATGTACCACCAACT	0.423									Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				39	56					0	0	0.00874	0	0		C	215645475	C	C	215645475	3	2	15	1	0	0	0	0	1	0	0	0	1313	1638	57	3	1242	3	BARD1	2	215645475	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	3360179	215645475	27553898	127	10961											
MARCH4	57574	broad.mit.edu	37	chr2	217234942	217234942	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtaccagccggagcagcaGcaccaccaccaccagagcag	13	1	10	17	1	0	1	0	0	0	1	0	2	0	2	6	1	6	5	6	1	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:217234942G>C	uc002vgb.2	-	1	1809	c.42C>G	c.(40-42)TGC>TGG	p.C14W		NM_020814	NP_065865	Q9P2E8	MARH4_HUMAN	membrane-associated ring finger (C3HC4) 4	14						Golgi membrane|Golgi stack|integral to membrane|trans-Golgi network	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Renal(323;0.0854)		Epithelial(149;2.19e-05)|all cancers(144;0.00121)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(261;0.0125)		CGGAGCAGCAGCACCACCACC	0.617													5	6					0	0	0.004482	0	0		C	217234942	C	C	217234942	3	2	15	1	0	0	0	0	1	0	0	0	9321	963	34	5	1206	5	MARCH4	2	217234942	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1589467	217234942	25964431	128	10962											
TMEM198	130612	broad.mit.edu	37	chr2	220414535	220414535	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actatgagtatgggtcccggGgacctctgacagcctgctca	8	9	12	12	1	2	2	1	2	1	0	3	3	3	3	3	3	2	2	3	3	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:220414535G>T	uc002vme.2	+	6	1627	c.1042G>T	c.(1042-1044)GGA>TGA	p.G348*	TMEM198_uc002vmf.2_Nonsense_Mutation_p.G348*|hsa-mir-3132|MI0014152_5'Flank	NM_001005209	NP_001005209	Q66K66	TM198_HUMAN	transmembrane protein 198	348						integral to membrane				ovary(1)	1		Renal(207;0.0376)		Epithelial(149;6.49e-08)|all cancers(144;6.45e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		TGGGTCCCGGGGACCTCTGAC	0.607													22	35					5.61819e-17	6.59556e-17	0.005443	1	0		T	220414535	T	T	220414535	4	4	15	1	0	0	0	0	0	1	0	0	16144	1233	43	5	1056	5	TMEM198	2	220414535	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3179593	220414535	22784838	129	10963											
STK11IP	114790	broad.mit.edu	37	chr2	220474096	220474096	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgtcaggagctgcttgcCgtgttgaccccagtcaccaa	7	10	10	14	1	3	1	2	1	1	0	3	2	3	2	4	1	3	3	4	1	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:220474096C>A	uc002vml.2	+	17	2014	c.1971C>A	c.(1969-1971)GCC>GCA	p.A657A	STK11IP_uc010zll.1_3'UTR|STK11IP_uc002vmm.1_Silent_p.A646A	NM_052902	NP_443134	Q8N1F8	S11IP_HUMAN	LKB1 interacting protein	657					protein localization	cytoplasm	protein kinase binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;2.69e-07)|all cancers(144;5.91e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGCTGCTTGCCGTGTTGACCC	0.642													4	13					0.00116845	0.00125983	0.001168	1	0		A	220474096	A	A	220474096	2	1	15	1	0	0	0	0	0	0	0	1	15313	639	23	5		5	STK11IP	2	220474096	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	59561	220474096	22725277	130	10964											
TRIP12	9320	broad.mit.edu	37	chr2	230652352	230652352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacataaaaaagcatttgccGggtatcaaaaggaaagaaaa	21	7	8	5	1	1	1	1	0	0	1	1	2	1	2	1	2	3	2	1	2	10	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:230652352G>A	uc002vpw.1	-	32	4748	c.4639C>T	c.(4639-4641)CGG>TGG	p.R1547W	TRIP12_uc002vpx.1_Missense_Mutation_p.R1595W|TRIP12_uc002vpy.1_Missense_Mutation_p.R1277W	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1547	K-box.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		AGCATTTGCCGGGTATCAAAA	0.343													19	31					0	0	0.007413	0	0		A	230652352	A	A	230652352	3	1	15	1	0	0	0	0	1	0	0	0	16582	1115	39	1	1379	1	TRIP12	2	230652352	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	10178256	230652352	12547021	131	10965											
GPR55	9290	broad.mit.edu	37	chr2	231774722	231774722	+	Frame_Shift_Del	DEL	C	-	-																															acaggatgtccttccgttagCcccgggagatcgtggtgtcc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:231774722delC	uc002vrg.2	-	2	1149	c.956delG	c.(955-957)GGCfs	p.G319fs	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Frame_Shift_Del_p.G319fs	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	319	Cytoplasmic (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		CTTCCGTTAGCCCCGGGAGAT	0.552													29	61	---	---	---	---						.	-	231774722	-	-	231774722	7	5	15	1	0	1	0	1	0	0	0	0	6714	739	26	0	7	0	GPR55	2	231774722	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	1122370	231774722	11424651	132	10966											
NCL	4691	broad.mit.edu	37	chr2	232327984	232327986	+	In_Frame_Del	DEL	GGA	-	-																															tatcttcttctacctcctttGgaggaggagccattttcttg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:232327984_232327986delGGA	uc002vru.2	-	2	201_203	c.60_62delTCC	c.(58-63)CCTCCA>CCA	p.20_21PP>P	SNORD82_uc010fxw.1_5'Flank	NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	20_21					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		TACCTCCTTTGGAGGAGGAGCCA	0.399													59	115	---	---	---	---						.	-	232327986	-	-	232327984	7	5	15	1	0	1	0	1	0	0	0	0	10245	1348	47	0	2122	0	NCL	2	232327984	In_Frame_Del	DEL	GGA	TCGA-BR-4280-01A-01D-1126-08	553262	232327984	10871389	133	10967											
CXCR7	57007	broad.mit.edu	37	chr2	237489246	237489246	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaagcgtcctgctctacacGctctccttcatttacatttt	9	15	4	13	2	3	0	1	0	2	0	5	0	4	0	2	0	4	2	2	0	4	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:237489246G>A	uc010fyq.2	+	3	368	c.138G>A	c.(136-138)ACG>ACA	p.T46T	CXCR7_uc002vwd.2_Silent_p.T46T	NM_020311	NP_064707	P25106	CXCR7_HUMAN	chemokine orphan receptor 1	46	Helical; Name=1; (Potential).				interspecies interaction between organisms	integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3		Breast(86;0.000182)|Renal(207;0.00339)|all_hematologic(139;0.0048)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|all_lung(227;0.147)|all_neural(83;0.223)		Epithelial(121;8.35e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.09e-11)|Kidney(56;1.11e-07)|KIRC - Kidney renal clear cell carcinoma(57;3.03e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000176)|Lung(119;0.00468)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.118)		TGCTCTACACGCTCTCCTTCA	0.532													13	21					0	0	0.003163	0	0		A	237489246	A	A	237489246	2	1	15	1	0	0	0	0	0	0	0	1	4099	1074	38	1		1	CXCR7	2	237489246	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	5161262	237489246	5710127	134	10968											
PER2	8864	broad.mit.edu	37	chr2	239159277	239159277	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgcaggacgcacttaaTgaaatgctcactttcttcca	11	12	6	12	1	2	1	1	1	1	0	4	2	4	2	2	1	2	3	2	1	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:239159277T>C	uc002vyc.2	-	21	3619	c.3382A>G	c.(3382-3384)ATT>GTT	p.I1128V	PER2_uc010znv.1_Missense_Mutation_p.I1128V	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	1128					circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		ACGCACTTAATGAAATGCTCA	0.478													8	32					0	0	0.004482	0	0		C	239159277	C	C	239159277	3	2	15	1	0	0	0	0	1	0	0	0	11749	1464	51	3	397	3	PER2	2	239159277	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1670031	239159277	4040096	135	10969											
KIF1A	547	broad.mit.edu	37	chr2	241700703	241700703	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgaggaagatggcgttgccCcacagcaggtcccgcagaga	10	6	14	11	2	0	3	0	1	0	2	1	5	1	4	3	3	2	3	3	3	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:241700703C>A	uc002vzy.2	-	23	2327	c.2181G>T	c.(2179-2181)TGG>TGT	p.W727C	KIF1A_uc010fzk.2_Missense_Mutation_p.W736C|KIF1A_uc002vzz.1_Missense_Mutation_p.W736C	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	727					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		TGGCGTTGCCCCACAGCAGGT	0.602													34	57					5.8336e-16	6.80705e-16	0.003271	1	0		A	241700703	A	A	241700703	3	1	15	1	0	0	0	0	1	0	0	0	8299	624	22	5	2991	5	KIF1A	2	241700703	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2541426	241700703	1498670	136	10970											
KIF1A	547	broad.mit.edu	37	chr2	241726673	241726673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggggagccctacctccaCggagtaggacatgttgtcgt	7	8	15	11	3	0	0	0	0	0	0	2	3	1	3	3	5	2	2	3	5	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr2:241726673C>T	uc002vzy.2	-	5	570	c.424G>A	c.(424-426)GTG>ATG	p.V142M	KIF1A_uc010fzk.2_Missense_Mutation_p.V142M|KIF1A_uc002vzz.1_Missense_Mutation_p.V142M	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	142	Kinesin-motor.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		CCTACCTCCACGGAGTAGGAC	0.632													20	13					0	0	0.012319	0	0		T	241726673	T	T	241726673	3	4	15	1	0	0	0	0	1	0	0	0	8299	536	19	1	4820	1	KIF1A	2	241726673	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	25970	241726673	1472700	137	10971											
CHL1	10752	broad.mit.edu	37	chr3	419520	419520	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggataattattgatggagctAatttgaccatatctaatgta	14	15	8	4	0	1	2	0	2	1	0	1	4	1	4	1	2	1	2	1	2	6	8			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:419520A>G	uc003bou.2	+	15	1994	c.1723A>G	c.(1723-1725)AAT>GAT	p.N575D	CHL1_uc003bot.2_Missense_Mutation_p.N591D|CHL1_uc003bow.1_Missense_Mutation_p.N575D|CHL1_uc011asi.1_Missense_Mutation_p.N591D|uc003box.1_Intron	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	575	Ig-like C2-type 6.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		TGATGGAGCTAATTTGACCAT	0.333													28	59					0	0	0.005443	0	0		G	419520	G	G	419520	3	3	15	1	0	0	0	0	1	0	0	0	3352	362	13	3	1825	3	CHL1	3	419520	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08		419520	197602910	138	10972											
CNTN4	152330	broad.mit.edu	37	chr3	3095601	3095601	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatataatagaaattaagccAttcagcgacggaggagatgg	16	9	11	5	2	1	2	1	0	0	2	1	5	1	3	1	3	2	0	1	3	6	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:3095601A>G	uc003bpc.2	+	23	3143	c.2922A>G	c.(2920-2922)CCA>CCG	p.P974P	CNTN4_uc003bpe.2_Silent_p.P646P|CNTN4_uc003bpf.2_Silent_p.P645P|CNTN4_uc003bpg.2_Silent_p.P230P	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	974	Fibronectin type-III 4.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		AAATTAAGCCATTCAGCGACG	0.398													28	44					0	0	0.009535	0	0		G	3095601	G	G	3095601	2	3	15	1	0	0	0	0	0	0	0	1	3646	204	8	3		3	CNTN4	3	3095601	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	2676081	3095601	194926829	139	10973											
IL17RE	132014	broad.mit.edu	37	chr3	9944618	9944618	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaattgcacagaagcccaTggggagctccagactggcag	11	6	12	12	0	0	2	0	0	0	2	1	3	1	3	3	3	3	3	3	3	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:9944618T>C	uc003btu.2	+	2	119	c.2T>C	c.(1-3)ATG>ACG	p.M1T	CIDEC_uc003bto.2_Intron|IL17RE_uc003btv.2_Missense_Mutation_p.M1T|IL17RE_uc011atn.1_RNA|IL17RE_uc003btw.2_Missense_Mutation_p.M1T|IL17RE_uc003btx.2_5'UTR|IL17RE_uc010hcq.2_Missense_Mutation_p.M1T|IL17RE_uc003bty.2_RNA	NM_153483	NP_705616	Q8NFR9	I17RE_HUMAN	interleukin 17 receptor E isoform 1	1						cytoplasm|extracellular region|integral to membrane	receptor activity			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(96;5.34e-64)		CAGAAGCCCATGGGGAGCTCC	0.617													19	23					0	0	0.00278	0	0		C	9944618	C	C	9944618	3	2	15	1	0	0	0	0	1	0	0	0	7659	1464	51	3	4	3	IL17RE	3	9944618	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	6849017	9944618	188077812	140	10974											
ATP2B2	491	broad.mit.edu	37	chr3	10370646	10370646	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcgagttctgcttgagcGcggcatcttcttccaggtcg	4	12	13	12	4	3	1	0	1	3	0	6	2	4	1	1	3	2	4	1	3	0	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:10370646G>A	uc003bvt.2	-	23	4023	c.3584C>T	c.(3583-3585)GCG>GTG	p.A1195V	ATP2B2_uc003bvv.2_Missense_Mutation_p.A1150V|ATP2B2_uc003bvw.2_Missense_Mutation_p.A1150V|ATP2B2_uc003bvs.2_RNA|ATP2B2_uc010hdo.2_Missense_Mutation_p.A900V|hsa-mir-378b|MI0014154_5'Flank	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	1195	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CTGCTTGAGCGCGGCATCTTC	0.547													29	44					0	0	0.00632	0	0		A	10370646	A	A	10370646	3	1	15	1	0	0	0	0	1	0	0	0	1141	1087	38	1	151	1	ATP2B2	3	10370646	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	426028	10370646	187651784	141	10975											
MKRN2	23609	broad.mit.edu	37	chr3	12611711	12611711	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaactaactcacatgaaccCggaaagcgtgaaaagagaac	20	4	8	9	2	1	3	1	2	0	1	1	5	1	4	1	1	5	0	1	1	8	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:12611711C>T	uc003bxd.2	+	3	353	c.297C>T	c.(295-297)CCC>CCT	p.P99P	MKRN2_uc003bxe.2_Silent_p.P97P|MKRN2_uc011aus.1_Silent_p.P56P	NM_014160	NP_054879	Q9H000	MKRN2_HUMAN	makorin ring finger protein 2	99						intracellular	ligase activity|nucleic acid binding|zinc ion binding				0						CACATGAACCCGGAAAGCGTG	0.498													3	39					0	0	0.009096	0	0		T	12611711	T	T	12611711	2	4	15	1	0	0	0	0	0	0	0	1	9625	639	23	1		1	MKRN2	3	12611711	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2241065	12611711	185410719	142	10976											
GPD1L	23171	broad.mit.edu	37	chr3	32181769	32181769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcatttctgacatcatccGtgagaagatgggtattgaca	11	12	10	8	1	3	4	2	3	1	2	4	5	4	4	1	1	0	2	1	1	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:32181769G>A	uc003cew.2	+	4	476	c.416G>A	c.(415-417)CGT>CAT	p.R139H		NM_015141	NP_055956	Q8N335	GPD1L_HUMAN	glycerol-3-phosphate dehydrogenase 1-like	139					glycerol-3-phosphate catabolic process	glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|NAD binding|protein homodimerization activity				0						GACATCATCCGTGAGAAGATG	0.517													53	64					0	0	0.01441	0	0		A	32181769	A	A	32181769	3	1	15	1	0	0	0	0	1	0	0	0	6620	1145	40	1	430	1	GPD1L	3	32181769	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	19570058	32181769	165840661	143	10977											
ACVR2B	93	broad.mit.edu	37	chr3	38520654	38520654	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagagtgaacgggagatcttCagcacacctggcatgaagca	13	6	12	10	1	2	4	1	2	1	2	2	5	2	4	1	2	3	3	1	2	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:38520654C>T	uc003cif.2	+	6	726	c.702C>T	c.(700-702)TTC>TTT	p.F234F	ACVR2B_uc003cig.2_Silent_p.F25F	NM_001106	NP_001097	Q13705	AVR2B_HUMAN	activin A receptor, type IIB precursor	234	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|anterior/posterior pattern formation|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|regulation of transcription, DNA-dependent	cell surface|cytoplasm|integral to plasma membrane	activin receptor activity|ATP binding|growth factor binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)		GGGAGATCTTCAGCACACCTG	0.602													6	171					0	0	0.00308	0	0		T	38520654	T	T	38520654	2	4	15	1	0	0	0	0	0	0	0	1	224	825	29	4		4	ACVR2B	3	38520654	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	6338885	38520654	159501776	144	10978											
CCR2	729230	broad.mit.edu	37	chr3	46399019	46399019	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccccagtacatccacaacAtgctgtccacatctcgttct	9	12	4	16	1	2	0	0	0	2	0	6	0	5	0	4	0	3	3	4	0	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:46399019A>G	uc003cpn.3	+	2	486	c.1A>G	c.(1-3)ATG>GTG	p.M1V	CCR2_uc003cpm.3_Missense_Mutation_p.M1V	NM_001123041	NP_001116513	P41597	CCR2_HUMAN	chemokine (C-C motif) receptor 2 isoform A	1	Extracellular (Potential).				astrocyte cell migration|blood vessel remodeling|cellular defense response|chemokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response|interspecies interaction between organisms|JAK-STAT cascade|monocyte extravasation|negative regulation of adenylate cyclase activity|negative regulation of angiogenesis|negative regulation of eosinophil degranulation|negative regulation of type 2 immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of immune complex clearance by monocytes and macrophages|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-2 production|positive regulation of monocyte chemotaxis|positive regulation of T cell chemotaxis|positive regulation of T cell extravasation|positive regulation of T-helper 1 type immune response|positive regulation of tumor necrosis factor biosynthetic process|regulation of vascular endothelial growth factor production|T-helper 17 cell chemotaxis	cytosol|dendrite|integral to plasma membrane|perikaryon|perinuclear region of cytoplasm|soluble fraction	C-C chemokine receptor activity|CCR2 chemokine receptor binding|protein homodimerization activity			lung(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0174)|Kidney(197;0.0206)		CATCCACAACATGCTGTCCAC	0.428													17	108					0	0	0.006122	0	0		G	46399019	G	G	46399019	3	3	15	1	0	0	0	0	1	0	0	0	2944	217	8	3	3	3	CCR2	3	46399019	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	7878365	46399019	151623411	145	10979											
P4HTM	54681	broad.mit.edu	37	chr3	49040002	49040002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattcaggagatgtacgccGcgatcaaggctgaccctgat	10	8	12	11	3	2	3	2	2	0	1	2	5	2	3	2	2	1	3	2	2	2	2	rs34281016		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:49040002G>A	uc003cvg.2	+	4	1046	c.697G>A	c.(697-699)GCG>ACG	p.A233T	P4HTM_uc003cvh.2_Missense_Mutation_p.A233T|P4HTM_uc010hkm.1_Missense_Mutation_p.A119T	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	233	Lumenal (Potential).|EF-hand 2.					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	GATGTACGCCGCGATCAAGGC	0.562													41	78					0	0	0.00874	0	0		A	49040002	A	A	49040002	3	1	15	1	0	0	0	0	1	0	0	0	11379	1087	38	1	711	1	P4HTM	3	49040002	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2640983	49040002	148982428	146	10980											
AMIGO3	386724	broad.mit.edu	37	chr3	49755859	49755859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggcacacgaagagtcccGcatgctgctcctgtacgttg	8	8	11	14	3	0	1	0	0	0	1	2	2	2	1	3	1	3	6	3	1	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:49755859G>A	uc003cxj.2	-	1	1380	c.1040C>T	c.(1039-1041)GCG>GTG	p.A347V	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	347	Extracellular (Potential).|Ig-like C2-type.				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GAAGAGTCCCGCATGCTGCTC	0.672													3	11					0	0	0.000602	0	0		A	49755859	A	A	49755859	3	1	15	1	0	0	0	0	1	0	0	0	577	1087	38	1	478	1	AMIGO3	3	49755859	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	715857	49755859	148266571	147	10981											
RBM6	10180	broad.mit.edu	37	chr3	50005493	50005493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagggccagagaacagtcccGttctgattttaggaatagag	12	10	12	7	1	1	3	0	1	1	2	2	5	2	4	2	2	1	1	2	2	5	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:50005493G>A	uc003cyc.2	+	3	768	c.635G>A	c.(634-636)CGT>CAT	p.R212H	RBM6_uc011bdh.1_RNA|RBM6_uc010hlc.1_Intron|RBM6_uc003cyd.2_Intron|RBM6_uc003cye.2_Intron|RBM6_uc011bdi.1_Intron|RBM6_uc010hld.1_Intron|RBM6_uc010hle.1_Intron|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	212					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		GAACAGTCCCGTTCTGATTTT	0.423													38	54					0	0	0.004878	0	0		A	50005493	A	A	50005493	3	1	15	1	0	0	0	0	1	0	0	0	13169	1145	40	1	641	1	RBM6	3	50005493	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	249634	50005493	148016937	148	10982											
RBM6	10180	broad.mit.edu	37	chr3	50005514	50005514	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgattttaggaatagagAtgtatctgatttggacttta	11	18	9	3	0	2	3	0	2	2	1	2	6	2	5	0	2	0	1	0	2	5	8			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:50005514A>G	uc003cyc.2	+	3	789	c.656A>G	c.(655-657)GAT>GGT	p.D219G	RBM6_uc011bdh.1_RNA|RBM6_uc010hlc.1_Intron|RBM6_uc003cyd.2_Intron|RBM6_uc003cye.2_Intron|RBM6_uc011bdi.1_Intron|RBM6_uc010hld.1_Intron|RBM6_uc010hle.1_Intron|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	219					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		AGGAATAGAGATGTATCTGAT	0.448													5	113					0	0	0.001984	0	0		G	50005514	G	G	50005514	3	3	15	1	0	0	0	0	1	0	0	0	13169	333	12	3	662	3	RBM6	3	50005514	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	21	50005514	148016916	149	10983											
DOCK3	1795	broad.mit.edu	37	chr3	51413261	51413261	+	Frame_Shift_Del	DEL	A	-	-																															tcccaatctgtctgtggctgAaaaaggtattgttgcccagg																								rs34788750		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:51413261delA	uc011bds.1	+	51	5518	c.5495delA	c.(5494-5496)GAAfs	p.E1832fs		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1832						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		TCTGTGGCTGAAAAAGGTATT	0.557													32	66	---	---	---	---						.	-	51413261	-	-	51413261	7	5	15	1	0	1	0	1	0	0	0	0	4694	246	9	0	5697	0	DOCK3	3	51413261	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	1407747	51413261	146609169	150	10984											
TLR9	54106	broad.mit.edu	37	chr3	52255367	52255367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagaggaggacactctggcGgcagaggcgctggcgcagcc	8	3	17	13	3	1	2	0	0	1	2	1	4	1	4	2	6	1	3	2	6	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:52255367G>A	uc003dda.1	-	2	3599	c.2965C>T	c.(2965-2967)CGC>TGC	p.R989C	TLR9_uc003ddb.2_Missense_Mutation_p.R1086C	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	989	TIR.|Cytoplasmic (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	ACACTCTGGCGGCAGAGGCGC	0.687													13	14					0	0	0.003163	0	0		A	52255367	A	A	52255367	3	1	15	1	0	0	0	0	1	0	0	0	15983	1116	39	1	137	1	TLR9	3	52255367	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	842106	52255367	145767063	151	10985											
TLR9	54106	broad.mit.edu	37	chr3	52257017	52257017	+	Frame_Shift_Del	DEL	C	-	-																															cttctcccctccatctgcctCccccatggtggctgtcagct																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:52257017delC	uc003dda.1	-	2	1949	c.1315delG	c.(1315-1317)GAGfs	p.E439fs	TLR9_uc003ddb.2_Frame_Shift_Del_p.E536fs	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	439	LRR 14.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	CCATCTGCCTCCCCCATGGTG	0.657													34	54	---	---	---	---						.	-	52257017	-	-	52257017	7	5	15	1	0	1	0	1	0	0	0	0	15983	864	30	0	1787	0	TLR9	3	52257017	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	1650	52257017	145765413	152	10986											
GLYCTK	132158	broad.mit.edu	37	chr3	52325846	52325846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactagactgctggcagccCgtggagccaccatccaggag	9	6	12	14	1	1	1	1	0	0	1	2	3	2	3	4	3	3	2	4	3	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:52325846C>T	uc003ddo.2	+	4	709	c.613C>T	c.(613-615)CGT>TGT	p.R205C	GLYCTK_uc003ddq.2_Intron|GLYCTK_uc003ddm.2_RNA|GLYCTK_uc003ddn.2_Intron|GLYCTK_uc003ddp.1_Missense_Mutation_p.R205C|GLYCTK_uc003ddr.2_5'Flank	NM_145262	NP_660305	Q8IVS8	GLCTK_HUMAN	glycerate kinase isoform 1	205					protein phosphorylation	Golgi apparatus|mitochondrion	ATP binding|glycerate kinase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;3.56e-05)|Kidney(197;0.00171)|KIRC - Kidney renal clear cell carcinoma(197;0.00194)|OV - Ovarian serous cystadenocarcinoma(275;0.235)		GCTGGCAGCCCGTGGAGCCAC	0.622											OREG0015611	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	21					0	0	0.00278	0	0		T	52325846	T	T	52325846	3	4	15	1	0	0	0	0	1	0	0	0	6497	652	23	1	623	1	GLYCTK	3	52325846	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	68829	52325846	145696584	153	10987											
TNNC1	7134	broad.mit.edu	37	chr3	52486500	52486501	+	Frame_Shift_Ins	INS	-	T	T																															tgtgatagggattctcaccaINStttttctgctcttctgtcag																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:52486500_52486501insT	uc003deb.2	-	2	79_80	c.53_54insA	c.(52-54)AATfs	p.N18fs	NISCH_uc011beg.1_5'Flank	NM_003280	NP_003271	P63316	TNNC1_HUMAN	troponin C, slow	18	EF-hand 1.				cardiac muscle contraction|muscle filament sliding|regulation of ATPase activity|regulation of muscle filament sliding speed|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin filament binding|calcium ion binding|calcium-dependent protein binding|protein homodimerization activity|troponin I binding|troponin T binding				0				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00175)|KIRC - Kidney renal clear cell carcinoma(197;0.00198)|OV - Ovarian serous cystadenocarcinoma(275;0.0525)	Bepridil(DB01244)|Dihydroxyaluminium(DB01375)|Levosimendan(DB00922)	GATTCTCACCATTTTTCTGCTC	0.54													15	22	---	---	---	---						.	T	52486501	T	T	52486500	7	5	15	1	0	1	1	0	0	0	0	0	16349	231	8	0	451	0	TNNC1	3	52486500	Frame_Shift_Ins	INS	-	TCGA-BR-4280-01A-01D-1126-08	160654	52486500	145535930	154	10988											
NISCH	11188	broad.mit.edu	37	chr3	52525384	52525384	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggttccaccccgatgcaGgtggtcacgtgcttgacgcg	6	8	14	13	4	1	1	1	1	0	0	2	2	2	1	3	3	2	4	3	3	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:52525384G>T	uc011beg.1	+	21	3831	c.3759G>T	c.(3757-3759)CAG>CAT	p.Q1253H	NISCH_uc003ded.3_Missense_Mutation_p.Q1253H|NISCH_uc003dee.3_Missense_Mutation_p.Q742H|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_Missense_Mutation_p.Q2H	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	1253					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		CCCCGATGCAGGTGGTCACGT	0.672													14	19					3.52763e-06	3.89493e-06	0.00499	1	0		T	52525384	T	T	52525384	3	4	15	1	0	0	0	0	1	0	0	0	10451	991	35	5	3837	5	NISCH	3	52525384	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	38884	52525384	145497046	155	10989											
WNT5A	7474	broad.mit.edu	37	chr3	55508438	55508438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagcccttggcgtggatgCgctcccgctcgcgggcgtcc	3	7	16	15	6	0	0	0	0	0	0	3	2	2	2	3	4	2	2	3	4	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:55508438C>T	uc003dhn.2	-	4	929	c.611G>A	c.(610-612)CGC>CAC	p.R204H	WNT5A_uc003dhm.2_Missense_Mutation_p.R189H|WNT5A_uc010hmw.2_Missense_Mutation_p.R189H|WNT5A_uc010hmx.2_Missense_Mutation_p.R115H	NM_003392	NP_003383	P41221	WNT5A_HUMAN	wingless-type MMTV integration site family,	204					activation of JUN kinase activity|activation of protein kinase B activity|axon guidance|cartilage development|cellular protein localization|cellular response to calcium ion|cellular response to interferon-gamma|cellular response to lipopolysaccharide|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|cervix development|cochlea morphogenesis|convergent extension involved in organogenesis|dopaminergic neuron differentiation|dorsal/ventral axis specification|embryonic digit morphogenesis|embryonic skeletal system development|epithelial cell proliferation involved in mammary gland duct elongation|epithelial to mesenchymal transition|face development|genitalia development|heart looping|hemopoietic stem cell proliferation|keratinocyte differentiation|lateral sprouting involved in mammary gland duct morphogenesis|lens development in camera-type eye|male gonad development|mammary gland branching involved in thelarche|negative regulation of apoptosis|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of mesenchymal cell proliferation|negative regulation of transcription, DNA-dependent|neural tube closure|olfactory bulb interneuron development|optic cup formation involved in camera-type eye development|palate development|positive regulation of angiogenesis|positive regulation of cartilage development|positive regulation of cGMP metabolic process|positive regulation of chemokine biosynthetic process|positive regulation of cytokine secretion involved in immune response|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of macrophage activation|positive regulation of macrophage cytokine production|positive regulation of mesenchymal cell proliferation|positive regulation of neuron projection development|positive regulation of NF-kappaB transcription factor activity|positive regulation of ossification|positive regulation of protein catabolic process|positive regulation of protein kinase C signaling cascade|positive regulation of T cell chemotaxis|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|primitive streak formation|regulation of branching involved in mammary gland duct morphogenesis|somitogenesis|tail morphogenesis|type B pancreatic cell development|urinary bladder development|uterus development|vagina development|Wnt receptor signaling pathway, calcium modulating pathway|wound healing	extracellular space|membrane fraction|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|receptor tyrosine kinase-like orphan receptor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.00377)|Kidney(284;0.00408)|OV - Ovarian serous cystadenocarcinoma(275;0.204)		GGCGTGGATGCGCTCCCGCTC	0.682													5	4					0	0	0.000602	0	0		T	55508438	T	T	55508438	3	4	15	1	0	0	0	0	1	0	0	0	17417	768	27	1	539	1	WNT5A	3	55508438	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2983054	55508438	142513992	156	10990											
ACOX2	8309	broad.mit.edu	37	chr3	58516335	58516335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagttgctctgtgctgtacCgagtttgacgtaggtgccat	6	14	13	8	2	1	1	0	1	1	0	1	2	1	1	2	1	4	7	2	1	3	5	rs143508132	byFrequency	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:58516335C>T	uc003dkl.2	-	8	1025	c.850G>A	c.(850-852)GGT>AGT	p.G284S		NM_003500	NP_003491	Q99424	ACOX2_HUMAN	acyl-Coenzyme A oxidase 2	284					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3alpha,7alpha,12alpha-trihydroxy-5beta-cholestanoyl-CoA 24-hydroxylase activity|acyl-CoA dehydrogenase activity|pristanoyl-CoA oxidase activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000194)|Kidney(10;0.00255)|KIRC - Kidney renal clear cell carcinoma(10;0.00268)|OV - Ovarian serous cystadenocarcinoma(275;0.156)		TGTGCTGTACCGAGTTTGACG	0.582													6	23					0	0	0.001984	0	0		T	58516335	T	T	58516335	3	4	15	1	0	0	0	0	1	0	0	0	159	652	23	1	1227	1	ACOX2	3	58516335	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3007897	58516335	139506095	157	10991											
PTPRG	5793	broad.mit.edu	37	chr3	62204651	62204651	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcattgctgtgctcgtttActggaggtaagccaggcagc	7	12	12	10	1	1	0	1	0	1	0	3	1	1	1	1	3	5	5	1	3	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:62204651A>G	uc003dlb.2	+	13	3001	c.2282A>G	c.(2281-2283)TAC>TGC	p.Y761C	PTPRG_uc003dlc.2_Missense_Mutation_p.Y761C|PTPRG_uc011bfi.1_Missense_Mutation_p.Y36C	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	761	Helical; (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		GTGCTCGTTTACTGGAGGTAA	0.577													50	76					0	0	0.01441	0	0		G	62204651	G	G	62204651	3	3	15	1	0	0	0	0	1	0	0	0	12827	391	14	3	2332	3	PTPRG	3	62204651	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	3688316	62204651	135817779	158	10992											
SYNPR	132204	broad.mit.edu	37	chr3	63542315	63542315	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgtcttcagcagagttcttCgtcactgttgctgtcttcgc	4	16	9	12	3	5	1	2	0	3	1	8	1	5	1	0	0	2	4	0	0	0	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:63542315C>T	uc003dlq.2	+	3	615	c.246C>T	c.(244-246)TTC>TTT	p.F82F	SYNPR_uc003dlp.2_Silent_p.F102F|SYNPR_uc011bfk.1_RNA|SYNPR_uc011bfl.1_Intron|SYNPR_uc010hnt.2_Silent_p.F91F|SYNPR_uc011bfm.1_Intron	NM_144642	NP_653243	Q8TBG9	SYNPR_HUMAN	synaptoporin isoform 2	82	MARVEL.|Helical; (Potential).					cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	transporter activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000918)|KIRC - Kidney renal clear cell carcinoma(15;0.0658)|Kidney(15;0.0904)		CAGAGTTCTTCGTCACTGTTG	0.522													16	20					0	0	0.004007	0	0		T	63542315	T	T	63542315	2	4	15	1	0	0	0	0	0	0	0	1	15484	883	31	1		1	SYNPR	3	63542315	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1337664	63542315	134480115	159	10993											
ATXN7	6314	broad.mit.edu	37	chr3	63981263	63981263	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgtgccgacatcacaaTgtggagtcagctatctggca	10	10	10	11	1	4	0	2	0	2	0	4	2	4	1	1	2	2	2	1	2	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:63981263T>C	uc003dlw.3	+	12	2318	c.1765T>C	c.(1765-1767)TGT>CGT	p.C589R	ATXN7_uc003dlv.2_Missense_Mutation_p.C589R|ATXN7_uc010hnv.2_Missense_Mutation_p.C589R|ATXN7_uc011bfn.1_Missense_Mutation_p.C444R	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	589					cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		GACATCACAATGTGGAGTCAG	0.517													32	50					0	0	0.013726	0	0		C	63981263	C	C	63981263	3	2	15	1	0	0	0	0	1	0	0	0	1216	1464	51	3	1871	3	ATXN7	3	63981263	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	438948	63981263	134041167	160	10994											
MAGI1	9223	broad.mit.edu	37	chr3	65342221	65342221	+	Frame_Shift_Del	DEL	G	-	-																															gaccgctctctcctgcgctcGggggagcgtgcgcgcctccg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:65342221delG	uc003dmn.2	-	23	4747	c.4221delC	c.(4219-4221)CCCfs	p.P1407fs	MAGI1_uc003dmm.2_3'UTR	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	1436					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		TCCTGCGCTCGGGGGAGCGTG	0.662													35	64	---	---	---	---						.	-	65342221	-	-	65342221	7	5	15	1	0	1	0	1	0	0	0	0	9208	1103	39	0	171	0	MAGI1	3	65342221	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	1360958	65342221	132680209	161	10995											
FOXP1	27086	broad.mit.edu	37	chr3	71027093	71027093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacgggagtcaggggggCggttggggtcgttggagtat	5	9	23	4	3	1	1	1	1	0	0	2	3	1	3	0	9	0	3	0	9	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:71027093C>T	uc003dol.2	-	11	1557	c.1234G>A	c.(1234-1236)GCC>ACC	p.A412T	FOXP1_uc003dom.2_Missense_Mutation_p.A336T|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Missense_Mutation_p.A412T|FOXP1_uc003dop.2_Missense_Mutation_p.A412T|FOXP1_uc003doq.1_Missense_Mutation_p.A411T|FOXP1_uc003doi.2_Missense_Mutation_p.A312T|FOXP1_uc003doj.2_Missense_Mutation_p.A312T|FOXP1_uc003dok.2_Missense_Mutation_p.A225T|FOXP1_uc003dor.1_Missense_Mutation_p.A190T	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	412					cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		GTCAGGGGGGCGGTTGGGGTC	0.557			T	PAX5	ALL								31	56					0	0	0.013726	0	0		T	71027093	T	T	71027093	3	4	15	1	0	0	0	0	1	0	0	0	6040	768	27	1	827	1	FOXP1	3	71027093	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5684872	71027093	126995337	162	10996											
FOXP1	27086	broad.mit.edu	37	chr3	71247410	71247410	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccgatgtccacggccggCgtctctccgttggaccgccc	3	7	12	19	6	1	0	0	0	1	0	4	2	3	1	7	3	0	1	7	3	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:71247410C>T	uc003dol.2	-	2	446	c.123G>A	c.(121-123)ACG>ACA	p.T41T	FOXP1_uc003dom.2_Silent_p.T41T|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Silent_p.T41T|FOXP1_uc003dop.2_Silent_p.T41T|FOXP1_uc003doq.1_Silent_p.T41T|FOXP1_uc003dos.2_Silent_p.T41T	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	41					cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		CCACGGCCGGCGTCTCTCCGT	0.637			T	PAX5	ALL								26	22					0	0	0.010818	0	0		T	71247410	T	T	71247410	2	4	15	1	0	0	0	0	0	0	0	1	6040	755	27	1		1	FOXP1	3	71247410	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	220317	71247410	126775020	163	10997											
NSUN3	63899	broad.mit.edu	37	chr3	93803180	93803180	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaatattatctcctaaatGctgcttctcttctcccagtg	11	15	4	11	0	3	0	0	0	3	0	6	0	3	0	2	0	2	2	2	0	6	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:93803180G>C	uc003drl.1	+	3	468	c.352G>C	c.(352-354)GCT>CCT	p.A118P		NM_022072	NP_071355	Q9H649	NSUN3_HUMAN	NOL1/NOP2/Sun domain family, member 3	118							methyltransferase activity			skin(1)	1						TCTCCTAAATGCTGCTTCTCT	0.458													24	56					0	0	0.003954	0	0		C	93803180	C	C	93803180	3	2	15	1	0	0	0	0	1	0	0	0	10698	1319	46	5	362	5	NSUN3	3	93803180	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	22555770	93803180	104219250	164	10998											
SENP7	57337	broad.mit.edu	37	chr3	101136515	101136515	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaacagatgtcgaaggcAatgagtctgattgcaccttg	11	11	11	8	1	2	3	1	2	1	1	3	4	2	3	1	1	2	2	1	1	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:101136515A>G	uc003dut.2	-	5	515	c.404T>C	c.(403-405)TTG>TCG	p.L135S	SENP7_uc003duu.2_Missense_Mutation_p.L135S|SENP7_uc003duv.2_Missense_Mutation_p.L102S|SENP7_uc003duw.2_Intron|SENP7_uc003dux.2_Intron	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	135					proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						TGTCGAAGGCAATGAGTCTGA	0.393													19	112					0	0	0.007413	0	0		G	101136515	G	G	101136515	3	3	15	1	0	0	0	0	1	0	0	0	14076	131	5	3	2828	3	SENP7	3	101136515	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	7333335	101136515	96885915	165	10999											
MORC1	27136	broad.mit.edu	37	chr3	108773613	108773613	+	Frame_Shift_Del	DEL	C	-	-																															agtactggaccaagtactgtCccatgacttttagtagatga																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:108773613delC	uc003dxl.2	-	14	1379	c.1292delG	c.(1291-1293)GGAfs	p.G431fs	MORC1_uc011bhn.1_Frame_Shift_Del_p.G431fs	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	431					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						CAAGTACTGTCCCATGACTTT	0.383													46	98	---	---	---	---						.	-	108773613	-	-	108773613	7	5	15	1	0	1	0	1	0	0	0	0	9719	855	30	0	1722	0	MORC1	3	108773613	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	7637098	108773613	89248817	166	11000											
DRD3	1814	broad.mit.edu	37	chr3	113847734	113847734	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaacatgggtcaagaagaaGggcagccagcagacaatgaa	18	3	13	7	0	1	5	1	1	0	4	1	5	1	5	1	2	3	2	1	2	6	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:113847734G>A	uc003ebd.2	-	8	1455	c.1032C>T	c.(1030-1032)CCC>CCT	p.P344P	DRD3_uc010hqn.1_Silent_p.P344P|DRD3_uc003ebb.1_Silent_p.P311P|DRD3_uc003ebc.1_Silent_p.P344P	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	344	Agonist binding.|Helical; Name=6.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	TCAAGAAGAAGGGCAGCCAGC	0.498													58	74					0	0	0.01441	0	0		A	113847734	A	A	113847734	2	1	15	1	0	0	0	0	0	0	0	1	4764	987	35	4		4	DRD3	3	113847734	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	5074121	113847734	84174696	167	11001											
ZBTB20	26137	broad.mit.edu	37	chr3	114058003	114058003	+	Frame_Shift_Del	DEL	G	-	-																															cacctgggggtgtgcctgcaGggggggtcccattgctggca																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:114058003delG	uc003ebi.2	-	5	2255	c.2075delC	c.(2074-2076)CCTfs	p.P692fs	ZBTB20_uc003ebj.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc010hqp.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebk.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebl.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebm.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebn.2_Frame_Shift_Del_p.P619fs	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	692					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TGTGCCTGCAGGGGGGGTCCC	0.632													22	30	---	---	---	---						.	-	114058003	-	-	114058003	7	5	15	1	0	1	0	1	0	0	0	0	17554	1000	35	0	154	0	ZBTB20	3	114058003	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	210269	114058003	83964427	168	11002											
KLF15	28999	broad.mit.edu	37	chr3	126070902	126070902	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcccgatccaacaggcttGgcggcaatgggcacaggggc	8	5	16	12	2	0	0	0	0	0	0	2	1	2	0	2	7	1	3	2	7	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:126070902G>T	uc011bkk.1	-	2	1046	c.864C>A	c.(862-864)GCC>GCA	p.A288A		NM_014079	NP_054798	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	288						nucleus	DNA binding|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(114;0.147)		CAACAGGCTTGGCGGCAATGG	0.622													3	2					0.00909568	0.00967732	0.009096	1	0		T	126070902	T	T	126070902	2	4	15	1	0	0	0	0	0	0	0	1	8359	1335	47	5		5	KLF15	3	126070902	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	12012899	126070902	71951528	169	11003											
PLXNA1	5361	broad.mit.edu	37	chr3	126710241	126710241	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagcccctgcagatcgaTgacgacttctgcgggcagga	9	6	12	14	3	1	2	0	1	1	1	2	5	1	3	3	2	3	2	3	2	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:126710241T>C	uc003ejg.2	+	2	1144	c.1140T>C	c.(1138-1140)GAT>GAC	p.D380D		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	403	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TGCAGATCGATGACGACTTCT	0.672													9	15					0	0	0.004482	0	0		C	126710241	C	C	126710241	2	2	15	1	0	0	0	0	0	0	0	1	12138	1461	51	3		3	PLXNA1	3	126710241	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	639339	126710241	71312189	170	11004											
PPP2R3A	5523	broad.mit.edu	37	chr3	135721164	135721164	+	Frame_Shift_Del	DEL	A	-	-																															tgatacaatttctagctctgAaactgtctatatgaatgtaa																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:135721164delA	uc003eqv.1	+	2	1389	c.824delA	c.(823-825)GAAfs	p.E275fs	PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	275					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						TCTAGCTCTGAAACTGTCTAT	0.338													22	50	---	---	---	---						.	-	135721164	-	-	135721164	7	5	15	1	0	1	0	1	0	0	0	0	12410	246	9	0	826	0	PPP2R3A	3	135721164	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	9010923	135721164	62301266	171	11005											
DZIP1L	199221	broad.mit.edu	37	chr3	137787113	137787113	+	Frame_Shift_Del	DEL	G	-	-																															catggctctgacgagttggtGggggtggctctgccggtgtg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:137787113delG	uc003erq.2	-	13	2075	c.1712delC	c.(1711-1713)CCAfs	p.P571fs		NM_173543	NP_775814	Q8IYY4	DZI1L_HUMAN	DAZ interacting protein 1-like	571						intracellular	zinc ion binding			ovary(1)|pancreas(1)	2						ACGAGTTGGTGGGGGTGGCTC	0.667													18	27	---	---	---	---						.	-	137787113	-	-	137787113	7	5	15	1	0	1	0	1	0	0	0	0	4870	1348	47	0	607	0	DZIP1L	3	137787113	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	2065949	137787113	60235317	172	11006											
NMNAT3	349565	broad.mit.edu	37	chr3	139280118	139280118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtgacctactcggcccaCgcacaccaagccaaacttct	10	7	7	17	3	1	1	0	1	1	0	3	1	1	1	4	1	3	1	4	1	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:139280118C>T	uc003etj.2	-	4	533	c.493G>A	c.(493-495)GTG>ATG	p.V165M	NMNAT3_uc003etk.2_Missense_Mutation_p.V128M|NMNAT3_uc003etl.2_RNA|NMNAT3_uc010hul.2_Missense_Mutation_p.V76M	NM_178177	NP_835471	Q96T66	NMNA3_HUMAN	nicotinamide mononucleotide adenylyltransferase	165					water-soluble vitamin metabolic process	cytosol|mitochondrion	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity				0						ACTCGGCCCACGCACACCAAG	0.552													14	20					0	0	0.001855	0	0		T	139280118	T	T	139280118	3	4	15	1	0	0	0	0	1	0	0	0	10519	536	19	1	269	1	NMNAT3	3	139280118	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1493005	139280118	58742312	173	11007											
HPS3	84343	broad.mit.edu	37	chr3	148872996	148872996	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaccagtgcagctgtacaaAgagatggtactcttttcaaa	13	11	8	9	0	3	1	2	0	1	1	3	2	3	1	1	1	4	4	1	1	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:148872996A>C	uc003ewu.1	+	8	1643	c.1503A>C	c.(1501-1503)AAA>AAC	p.K501N	HPS3_uc011bnq.1_Missense_Mutation_p.K336N	NM_032383	NP_115759	Q969F9	HPS3_HUMAN	Hermansky-Pudlak syndrome 3 protein	501						cytoplasm				ovary(5)|large_intestine(1)	6			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			AGCTGTACAAAGAGATGGTAC	0.353									Hermansky-Pudlak_syndrome				18	33					0	0	0.010504	0	0		C	148872996	C	C	148872996	3	2	15	1	0	0	0	0	1	0	0	0	7356	69	3	5	1533	5	HPS3	3	148872996	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	9592878	148872996	49149434	174	11008											
FAM194A	131831	broad.mit.edu	37	chr3	150377912	150377912	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcatctccacttacgtatcGgaggattggaatctcctcag	9	12	9	11	2	4	0	2	0	2	0	7	3	4	3	2	3	1	1	2	3	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:150377912G>A	uc003eyg.2	-	14	1816	c.1759C>T	c.(1759-1761)CGA>TGA	p.R587*	FAM194A_uc003eyh.2_Nonsense_Mutation_p.R441*	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	587										skin(2)|ovary(1)	3						CTTACGTATCGGAGGATTGGA	0.468													5	122					0	0	0.001984	0	0		A	150377912	A	A	150377912	4	1	15	1	0	0	0	0	0	1	0	0	5537	1124	39	1	236	1	FAM194A	3	150377912	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1504916	150377912	47644518	175	11009											
IGSF10	285313	broad.mit.edu	37	chr3	151164080	151164081	+	Frame_Shift_Ins	INS	-	T	T																															aggaagcatcacagctgtgcINSttttttgtaaactaacttta																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:151164080_151164081insT	uc011bod.1	-	4	3688_3689	c.3688_3689insA	c.(3688-3690)AGCfs	p.S1230fs		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1230					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CACAGCTGTGCTTTTTTGTAAA	0.381													45	74	---	---	---	---						.	T	151164081	T	T	151164080	7	5	15	1	0	1	1	0	0	0	0	0	7613	797	28	0	4242	0	IGSF10	3	151164080	Frame_Shift_Ins	INS	-	TCGA-BR-4280-01A-01D-1126-08	786168	151164080	46858350	176	11010											
SI	6476	broad.mit.edu	37	chr3	164758862	164758862	+	Frame_Shift_Del	DEL	A	-	-																															accaaaagtgaattctgcccAaaaaatgcaggatcctgatg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:164758862delA	uc003fei.2	-	18	2087	c.2025delT	c.(2023-2025)TTTfs	p.F675fs		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	675	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	AATTCTGCCCAAAAAATGCAG	0.333										HNSCC(35;0.089)			51	92	---	---	---	---						.	-	164758862	-	-	164758862	7	5	15	1	0	1	0	1	0	0	0	0	14322	127	5	0	3582	0	SI	3	164758862	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	13594782	164758862	33263568	177	11011											
BCHE	590	broad.mit.edu	37	chr3	165491219	165491219	+	Frame_Shift_Del	DEL	T	-	-																															tagtgtaatcgttaaattgaTttttccagtccatcatgtaa																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:165491219delT	uc003fem.3	-	4	1920	c.1760delA	c.(1759-1761)AATfs	p.N587fs	BCHE_uc003fen.3_RNA	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	587					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	GTTAAATTGATTTTTCCAGTC	0.333													16	31	---	---	---	---						.	-	165491219	-	-	165491219	7	5	15	1	0	1	0	1	0	0	0	0	1359	1493	52	0	52	0	BCHE	3	165491219	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	732357	165491219	32531211	178	11012											
SLC7A14	57709	broad.mit.edu	37	chr3	170244644	170244644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactccactggtttggtgcGtaggatcctggagtgcattg	6	12	15	8	1	0	0	0	0	0	0	2	3	2	3	2	5	2	3	2	5	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:170244644G>A	uc003fgz.2	-	2	398	c.82C>T	c.(82-84)CGC>TGC	p.R28C	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	28						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			GGTTTGGTGCGTAGGATCCTG	0.587													15	22					0	0	0.004007	0	0		A	170244644	A	A	170244644	3	1	15	1	0	0	0	0	1	0	0	0	14721	1145	40	1	2261	1	SLC7A14	3	170244644	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	4753425	170244644	27777786	179	11013											
CCDC39	339829	broad.mit.edu	37	chr3	180365986	180365986	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttcttgctgcttcaaggtTtcaaaatccagtttttgtaa	10	18	6	7	0	3	0	2	0	1	0	4	0	4	0	1	1	2	5	1	1	4	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:180365986T>G	uc010hxe.2	-	10	1444	c.1329A>C	c.(1327-1329)GAA>GAC	p.E443D	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	443	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			GCTTCAAGGTTTCAAAATCCA	0.348													12	24					0	0	0.013537	0	0		G	180365986	G	G	180365986	3	3	15	1	0	0	0	0	1	0	0	0	2814	1838	64	5	1540	5	CCDC39	3	180365986	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	10121342	180365986	17656444	180	11014											
MCCC1	56922	broad.mit.edu	37	chr3	182790190	182790190	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctaattgcagatggaggaGggcctataaaaataattcct	14	11	9	7	0	1	1	0	0	1	1	2	3	2	3	2	3	1	1	2	3	6	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:182790190G>T	uc003fle.2	-	5	592	c.455C>A	c.(454-456)CCT>CAT	p.P152H	MCCC1_uc010hxi.2_RNA|MCCC1_uc011bqo.1_RNA|MCCC1_uc003flf.2_Intron|MCCC1_uc003flg.2_Missense_Mutation_p.P43H|MCCC1_uc011bqp.1_Missense_Mutation_p.P105H|MCCC1_uc011bqq.1_Missense_Mutation_p.P43H	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	152	Biotin carboxylation.				biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	AGATGGAGGAGGGCCTATAAA	0.333													29	32					9.80776e-20	1.15844e-19	0.00632	1	0		T	182790190	T	T	182790190	3	4	15	1	0	0	0	0	1	0	0	0	9392	1000	35	5	1782	5	MCCC1	3	182790190	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2424204	182790190	15232240	181	11015											
ALG3	10195	broad.mit.edu	37	chr3	183963113	183963113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtggacacggtaagaggCgcagcacatgaagaaaaaga	17	3	15	6	2	0	4	0	1	0	3	0	6	0	6	0	4	1	3	0	4	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:183963113C>T	uc003fne.2	-	4	509	c.478G>A	c.(478-480)GCC>ACC	p.A160T	ALG3_uc011brc.1_Missense_Mutation_p.A125T|ALG3_uc011brd.1_Missense_Mutation_p.A104T|ALG3_uc011bre.1_Missense_Mutation_p.A112T|ALG3_uc003fnf.1_Missense_Mutation_p.A120T|ALG3_uc011brf.1_Missense_Mutation_p.A52T	NM_005787	NP_005778	Q92685	ALG3_HUMAN	alpha-1,3-mannosyltransferase ALG3 isoform a	160	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	alpha-1,3-mannosyltransferase activity				0	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CGGTAAGAGGCGCAGCACATG	0.557													5	21					0	0	0.00308	0	0		T	183963113	T	T	183963113	3	4	15	1	0	0	0	0	1	0	0	0	520	768	27	1	862	1	ALG3	3	183963113	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1172923	183963113	14059317	182	11016											
EIF4G1	1981	broad.mit.edu	37	chr3	184045694	184045694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggcatggtgtcgagtctaCgctggagcgcagtgccattg	7	9	15	10	4	1	0	0	0	1	0	2	2	1	1	1	3	3	3	1	3	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:184045694C>T	uc003fnp.2	+	26	4055	c.3857C>T	c.(3856-3858)ACG>ATG	p.T1286M	EIF4G1_uc003fnt.2_Missense_Mutation_p.T997M|EIF4G1_uc003fnq.2_Missense_Mutation_p.T1199M|EIF4G1_uc003fnr.2_Missense_Mutation_p.T1122M|EIF4G1_uc010hxx.2_Missense_Mutation_p.T1293M|EIF4G1_uc003fns.2_Missense_Mutation_p.T1246M|EIF4G1_uc010hxy.2_Missense_Mutation_p.T1293M|EIF4G1_uc003fnv.3_Missense_Mutation_p.T1287M|EIF4G1_uc003fnu.3_Missense_Mutation_p.T1286M|EIF4G1_uc003fnw.2_Missense_Mutation_p.T1293M|EIF4G1_uc003fnx.2_Missense_Mutation_p.T1091M|EIF4G1_uc003fny.3_Missense_Mutation_p.T1090M|EIF4G1_uc003foa.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1286	MI.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GTCGAGTCTACGCTGGAGCGC	0.597													16	25					0	0	0.010504	0	0		T	184045694	T	T	184045694	3	4	15	1	0	0	0	0	1	0	0	0	5044	536	19	1	3951	1	EIF4G1	3	184045694	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	82581	184045694	13976736	183	11017											
ATP13A3	79572	broad.mit.edu	37	chr3	194147839	194147839	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacacttcataccaaggttgCtgtttgacccaaaaaaaacc	15	9	5	12	0	1	1	1	1	0	0	1	1	1	1	3	1	3	3	3	1	6	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:194147839C>T	uc003fty.3	-	28	3492	c.3090G>A	c.(3088-3090)CAG>CAA	p.Q1030Q	ATP13A3_uc003ftx.3_5'Flank	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	1030					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		ACCAAGGTTGCTGTTTGACCC	0.358													14	39					0	0	0.004007	0	0		T	194147839	T	T	194147839	2	4	15	1	0	0	0	0	0	0	0	1	1126	796	28	2		2	ATP13A3	3	194147839	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	10102145	194147839	3874591	184	11018											
MFI2	4241	broad.mit.edu	37	chr3	196736658	196736658	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtctcaccacggccaccacGtagtacgagttgctgctgtc	7	9	10	15	4	1	0	1	0	1	0	3	1	1	0	3	1	3	5	3	1	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr3:196736658G>A	uc003fxk.3	-	11	1469	c.1356C>T	c.(1354-1356)TAC>TAT	p.Y452Y		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	452	Transferrin-like 2.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		CGGCCACCACGTAGTACGAGT	0.662													18	26					0	0	0.010818	0	0		A	196736658	A	A	196736658	2	1	15	1	0	0	0	0	0	0	0	1	9540	1140	40	1		1	MFI2	3	196736658	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2588819	196736658	1285772	185	11019											
TMEM129	92305	broad.mit.edu	37	chr4	1720065	1720065	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacccacgtgtctgtcacaAtcacacgggcacctggtgca	9	8	9	15	2	4	0	3	0	1	0	4	0	4	0	2	2	1	2	2	2	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:1720065A>G	uc003gdn.2	-	2	1014	c.494T>C	c.(493-495)ATT>ACT	p.I165T	TMEM129_uc010iby.2_RNA|TMEM129_uc003gdm.2_Missense_Mutation_p.I165T	NM_001127266	NP_001120738	A0AVI4	TM129_HUMAN	transmembrane protein 129 isoform a	165	Extracellular (Potential).					integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.00765)			GTCTGTCACAATCACACGGGC	0.607													9	17					0	0	0.008291	0	0		G	1720065	G	G	1720065	3	3	15	1	0	0	0	0	1	0	0	0	16067	101	4	3	606	3	TMEM129	4	1720065	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08		1720065	189434211	186	11020											
LETM1	3954	broad.mit.edu	37	chr4	1817414	1817414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacgaggtcgtcgatgttgaCcttgccatccttgttttcat	6	15	10	10	3	1	1	1	1	0	0	4	4	2	1	3	1	1	2	3	1	0	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:1817414C>T	uc003gdv.2	-	13	2344	c.2047G>A	c.(2047-2049)GTC>ATC	p.V683I		NM_012318	NP_036450	O95202	LETM1_HUMAN	leucine zipper-EF-hand containing transmembrane	683	Mitochondrial matrix (Potential).|EF-hand.|Potential.				cristae formation	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			central_nervous_system(1)	1			all cancers(2;0.00756)|OV - Ovarian serous cystadenocarcinoma(23;0.00989)|Epithelial(3;0.0141)			TCGATGTTGACCTTGCCATCC	0.602													14	28					0	0	0.006122	0	0		T	1817414	T	T	1817414	3	4	15	1	0	0	0	0	1	0	0	0	8750	507	18	4	180	4	LETM1	4	1817414	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	97349	1817414	189336862	187	11021											
FAM193A	8603	broad.mit.edu	37	chr4	2701621	2701621	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactgccccaagttggacaTgctcactagaaatttccagg	12	9	9	11	0	1	2	1	0	0	2	2	3	2	3	3	2	2	2	3	2	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:2701621T>C	uc010icl.2	+	17	3200	c.2849T>C	c.(2848-2850)ATG>ACG	p.M950T	FAM193A_uc010ick.2_Missense_Mutation_p.M1150T|FAM193A_uc003gfd.2_Missense_Mutation_p.M950T|FAM193A_uc011bvm.1_Missense_Mutation_p.M972T|FAM193A_uc011bvn.1_Missense_Mutation_p.M950T|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Missense_Mutation_p.M804T	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	950										ovary(3)	3						AAGTTGGACATGCTCACTAGA	0.453													10	134					0	0	0.010729	0	0		C	2701621	C	C	2701621	3	2	15	1	0	0	0	0	1	0	0	0	5535	1464	51	3	2907	3	FAM193A	4	2701621	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	884207	2701621	188452655	188	11022											
HTT	3064	broad.mit.edu	37	chr4	3158802	3158802	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcatatttttaaagcttCtagacaatctgatacctcag	12	15	6	8	0	3	2	1	1	2	1	3	2	3	2	1	0	3	2	1	0	6	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:3158802C>A	uc011bvq.1	+	29	3780	c.3635C>A	c.(3634-3636)TCT>TAT	p.S1212Y		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1210					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		TTTAAAGCTTCTAGACAATCT	0.333													19	42					2.4624e-09	2.78571e-09	0.008871	1	0		A	3158802	A	A	3158802	3	1	15	1	0	0	0	0	1	0	0	0	7473	913	32	5	3739	5	HTT	4	3158802	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	457181	3158802	187995474	189	11023											
TADA2B	93624	broad.mit.edu	37	chr4	7056720	7056720	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagctacctggacaaagtccTaaagaaaaggattttgaatt	16	11	8	6	0	0	2	0	1	0	1	1	4	1	4	2	2	2	1	2	2	8	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:7056720T>C	uc003gjw.3	+	2	1353	c.1202T>C	c.(1201-1203)CTA>CCA	p.L401P	TADA2B_uc010idi.2_Missense_Mutation_p.L326P	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	401					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0						GACAAAGTCCTAAAGAAAAGG	0.493													21	33					0	0	0.012319	0	0		C	7056720	C	C	7056720	3	2	15	1	0	0	0	0	1	0	0	0	15536	1522	53	3	1208	3	TADA2B	4	7056720	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	3897918	7056720	184097556	190	11024											
LCORL	254251	broad.mit.edu	37	chr4	17887775	17887775	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgtagagagatctaacActccatcccctataattttt	11	16	4	10	0	2	2	0	0	2	2	4	3	4	2	3	0	1	1	3	0	4	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:17887775A>G	uc003gpq.2	-	6	703	c.692T>C	c.(691-693)GTG>GCG	p.V231A	LCORL_uc011bxk.1_Intron	NM_153686	NP_710153	Q8N3X6	LCORL_HUMAN	ligand dependent nuclear receptor	231					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0						GAGATCTAACACTCCATCCCC	0.323													4	115					0	0	0.009096	0	0		G	17887775	G	G	17887775	3	3	15	1	0	0	0	0	1	0	0	0	8706	159	6	3	1309	3	LCORL	4	17887775	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	10831055	17887775	173266501	191	11025											
PPARGC1A	10891	broad.mit.edu	37	chr4	23814436	23814436	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgcttctcatactctctGcgatattcttccctcttcag	5	17	4	15	2	6	0	2	0	5	0	10	1	7	0	1	0	2	1	1	0	2	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:23814436G>C	uc003gqs.2	-	10	2073	c.1953C>G	c.(1951-1953)CGC>CGG	p.R651R	PPARGC1A_uc003gqt.2_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	651					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				CATACTCTCTGCGATATTCTT	0.453													47	81					0	0	0.01441	0	0		C	23814436	C	C	23814436	2	2	15	1	0	0	0	0	0	0	0	1	12319	1306	46	5		5	PPARGC1A	4	23814436	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	5926661	23814436	167339840	192	11026											
ARAP2	116984	broad.mit.edu	37	chr4	36115863	36115863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggaataatattttttatcGctaatatatcattagttaat	15	19	4	3	1	1	0	1	0	0	0	2	1	1	1	0	1	0	2	0	1	10	11			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:36115863G>A	uc003gsq.1	-	26	4423	c.4085C>T	c.(4084-4086)GCG>GTG	p.A1362V		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1362	Ras-associating.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						ATTTTTTATCGCTAATATATC	0.313													28	61					0	0	0.008361	0	0		A	36115863	A	A	36115863	3	1	15	1	0	0	0	0	1	0	0	0	839	1087	38	1	1061	1	ARAP2	4	36115863	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	12301427	36115863	155038413	193	11027											
ATP10D	57205	broad.mit.edu	37	chr4	47559698	47559698	+	Frame_Shift_Del	DEL	G	-	-																															tagatcagacacccttcactGggggggttgcccattaagtc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:47559698delG	uc003gxk.1	+	12	2006	c.1842delG	c.(1840-1842)CTGfs	p.L614fs	ATP10D_uc003gxl.1_Intron	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	614	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						ACCCTTCACTGGGGGGGTTGC	0.403													27	48	---	---	---	---						.	-	47559698	-	-	47559698	7	5	15	1	0	1	0	1	0	0	0	0	1119	1335	47	0	1884	0	ATP10D	4	47559698	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	11443835	47559698	143594578	194	11028											
CORIN	10699	broad.mit.edu	37	chr4	47746539	47746539	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagtaattcaccatccccaGgactgattcacagccttctt	10	11	7	13	0	3	1	2	1	1	0	4	3	4	3	4	2	1	1	4	2	1	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:47746539G>T	uc003gxm.2	-	5	772	c.679C>A	c.(679-681)CTG>ATG	p.L227M	CORIN_uc011bzf.1_Missense_Mutation_p.L88M|CORIN_uc011bzg.1_Missense_Mutation_p.L160M|CORIN_uc011bzh.1_Missense_Mutation_p.L227M|CORIN_uc011bzi.1_Missense_Mutation_p.L227M|CORIN_uc003gxn.3_Missense_Mutation_p.L227M	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	227	Extracellular (Potential).|FZ 1.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						ACCATCCCCAGGACTGATTCA	0.443													93	133					4.08981e-53	4.95191e-53	0.01441	1	0		T	47746539	T	T	47746539	3	4	15	1	0	0	0	0	1	0	0	0	3755	991	35	5	2521	5	CORIN	4	47746539	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	186841	47746539	143407737	195	11029											
KIAA1211	57482	broad.mit.edu	37	chr4	57181919	57181919	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatacgaaaaagacccatgCtgggacccagcgaagagaca	16	3	11	11	2	0	2	0	0	0	2	0	6	0	3	2	1	3	2	2	1	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:57181919C>T	uc003hbk.2	+	8	2642	c.2251C>T	c.(2251-2253)CTG>TTG	p.L751L	KIAA1211_uc010iha.2_Silent_p.L744L|KIAA1211_uc011bzz.1_Silent_p.L661L|KIAA1211_uc003hbm.1_Silent_p.L637L	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	751										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					AAGACCCATGCTGGGACCCAG	0.582													28	37					0	0	0.005443	0	0		T	57181919	T	T	57181919	2	4	15	1	0	0	0	0	0	0	0	1	8231	796	28	2		2	KIAA1211	4	57181919	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	9435380	57181919	133972357	196	11030											
KIAA1211	57482	broad.mit.edu	37	chr4	57181941	57181941	+	Frame_Shift_Del	DEL	C	-	-																															gggacccagcgaagagacagCcccccagcctcctcctgctg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:57181941delC	uc003hbk.2	+	8	2664	c.2273delC	c.(2272-2274)GCCfs	p.A758fs	KIAA1211_uc010iha.2_Frame_Shift_Del_p.A751fs|KIAA1211_uc011bzz.1_Frame_Shift_Del_p.A668fs|KIAA1211_uc003hbm.1_Frame_Shift_Del_p.A644fs	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	758										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					GAAGAGACAGCCCCCCAGCCT	0.592													19	41	---	---	---	---						.	-	57181941	-	-	57181941	7	5	15	1	0	1	0	1	0	0	0	0	8231	739	26	0	2291	0	KIAA1211	4	57181941	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	22	57181941	133972335	197	11031											
TMPRSS11F	389208	broad.mit.edu	37	chr4	68925166	68925166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtttccactctggcttgccGaagtgtattttgtataggtc	6	16	11	8	1	1	0	0	0	1	0	3	1	2	0	2	3	1	4	2	3	4	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:68925166G>A	uc003hdt.1	-	9	1085	c.1036C>T	c.(1036-1038)CGG>TGG	p.R346W	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	346	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						CTGGCTTGCCGAAGTGTATTT	0.363													20	23					0	0	0.014323	0	0		A	68925166	A	A	68925166	3	1	15	1	0	0	0	0	1	0	0	0	16268	1057	37	1	288	1	TMPRSS11F	4	68925166	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	11743225	68925166	122229110	198	11032											
AFM	173	broad.mit.edu	37	chr4	74364932	74364932	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcactacttgctgtacgcTaagtgaagagtttgcctgtg	8	15	10	8	1	1	2	1	1	0	1	1	2	1	2	1	0	4	4	1	0	4	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:74364932T>C	uc003hhb.2	+	11	1422	c.1391T>C	c.(1390-1392)CTA>CCA	p.L464P		NM_001133	NP_001124	P43652	AFAM_HUMAN	afamin precursor	464	Albumin 3.				vitamin transport		vitamin E binding			ovary(2)|central_nervous_system(1)	3	Breast(15;0.00102)		Epithelial(6;5.69e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|all cancers(17;0.000555)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TGCTGTACGCTAAGTGAAGAG	0.403													14	35					0	0	0.00245	0	0		C	74364932	C	C	74364932	3	2	15	1	0	0	0	0	1	0	0	0	361	1522	53	3	1433	3	AFM	4	74364932	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	5439766	74364932	116789344	199	11033											
EREG	2069	broad.mit.edu	37	chr4	75246852	75246852	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacatgagtcaaaactactgCaggtaatatgtcagaaataa	18	9	8	6	0	2	2	2	1	0	1	2	3	2	2	0	1	3	2	0	1	7	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:75246852C>T	uc003hie.1	+	3	442	c.276C>T	c.(274-276)TGC>TGT	p.C92C	EREG_uc003hid.2_Silent_p.C86C	NM_001432	NP_001423	O14944	EREG_HUMAN	epiregulin preproprotein	92	Extracellular (Potential).|EGF-like.				angiogenesis|cell-cell signaling|cytokine-mediated signaling pathway|epidermal growth factor receptor signaling pathway|female meiosis|keratinocyte differentiation|keratinocyte proliferation|luteinizing hormone signaling pathway|mRNA transcription|negative regulation of epithelial cell proliferation|negative regulation of smooth muscle cell differentiation|negative regulation of transcription, DNA-dependent|oocyte maturation|organ morphogenesis|ovarian cumulus expansion|ovulation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of DNA replication|positive regulation of epidermal growth factor receptor activity|positive regulation of fibroblast proliferation|positive regulation of innate immune response|positive regulation of interleukin-6 biosynthetic process|positive regulation of mitosis|positive regulation of phosphorylation|positive regulation of smooth muscle cell proliferation|primary follicle stage|wound healing	extracellular space|integral to plasma membrane	epidermal growth factor receptor binding|growth factor activity			breast(1)|skin(1)	2			Lung(101;0.196)			AAAACTACTGCAGGTAATATG	0.274													34	56					0	0	0.004289	0	0		T	75246852	T	T	75246852	2	4	15	1	0	0	0	0	0	0	0	1	5228	718	25	2		2	EREG	4	75246852	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	881920	75246852	115907424	200	11034											
NUP54	53371	broad.mit.edu	37	chr4	77065399	77065399	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcccgttgttgtgccaaaAccagtaccaaatccaaaacc	13	9	6	13	1	0	0	0	0	0	0	2	0	2	0	6	0	4	4	6	0	6	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:77065399A>G	uc003hjs.2	-	3	326	c.198T>C	c.(196-198)GGT>GGC	p.G66G	NUP54_uc010ije.2_5'UTR|NUP54_uc011cbs.1_5'UTR|NUP54_uc011cbt.1_Intron|NUP54_uc003hjt.2_5'UTR	NM_017426	NP_059122	Q7Z3B4	NUP54_HUMAN	nucleoporin 54kDa	66	Gly-rich.|Thr-rich.|9 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|mRNA transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleoplasm				ovary(1)|lung(1)	2						TTGTGCCAAAACCAGTACCAA	0.388													5	394					0	0	0.00308	0	0		G	77065399	G	G	77065399	2	3	15	1	0	0	0	0	0	0	0	1	10786	30	2	3		3	NUP54	4	77065399	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1818547	77065399	114088877	201	11035											
HELQ	113510	broad.mit.edu	37	chr4	84374977	84374977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcagtggcaaagtctgtaGcatgtttcttatgttcaggg	8	16	11	6	0	4	0	2	0	2	0	4	0	4	0	0	2	1	5	0	2	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:84374977G>A	uc003hom.2	-	2	598	c.419C>T	c.(418-420)GCT>GTT	p.A140V	HELQ_uc010ikb.2_Missense_Mutation_p.A140V|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA|HELQ_uc003hon.1_Missense_Mutation_p.A34V|HELQ_uc003hoo.1_Missense_Mutation_p.A103V|HELQ_uc003hop.1_Missense_Mutation_p.A34V|HELQ_uc003hoq.1_Missense_Mutation_p.A140V|MRPS18C_uc003hor.3_5'Flank|MRPS18C_uc011ccu.1_5'Flank	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	140							ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						AAAGTCTGTAGCATGTTTCTT	0.368								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					68	122					0	0	0.01441	0	0		A	84374977	A	A	84374977	3	1	15	1	0	0	0	0	1	0	0	0	7063	971	34	2	2954	2	HELQ	4	84374977	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	7309578	84374977	106779299	202	11036											
WDFY3	23001	broad.mit.edu	37	chr4	85716121	85716121	+	Frame_Shift_Del	DEL	A	-	-																															tatgaggggccaaactgggcAaaaaaagacatctattaaag																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:85716121delA	uc003hpd.2	-	20	3587	c.3179delT	c.(3178-3180)TTGfs	p.L1060fs		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1060						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CAAACTGGGCAAAAAAAGACA	0.393													20	37	---	---	---	---						.	-	85716121	-	-	85716121	7	5	15	1	0	1	0	1	0	0	0	0	17296	131	5	0	7597	0	WDFY3	4	85716121	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	1341144	85716121	105438155	203	11037											
DMP1	1758	broad.mit.edu	37	chr4	88584031	88584031	+	Frame_Shift_Del	DEL	C	-	-																															agtgagtccaggggagataaCcccgaccccacaactagtta																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:88584031delC	uc003hqv.2	+	6	1205	c.1101delC	c.(1099-1101)AACfs	p.N367fs	DMP1_uc003hqw.2_Frame_Shift_Del_p.N351fs	NM_004407	NP_004398	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1 isoform 1	367					biomineral tissue development|ossification	cytoplasm|nucleus|proteinaceous extracellular matrix	calcium ion binding|integrin binding			pancreas(1)|skin(1)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)		GGGGAGATAACCCCGACCCCA	0.537													92	142	---	---	---	---						.	-	88584031	-	-	88584031	7	5	15	1	0	1	0	1	0	0	0	0	4589	506	18	0	1119	0	DMP1	4	88584031	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	2867910	88584031	102570245	204	11038											
ATOH1	474	broad.mit.edu	37	chr4	94750382	94750382	+	Frame_Shift_Del	DEL	G	-	-																															ccgggacgaggtggacggccGgggggagctggtaaggagga																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:94750382delG	uc003hta.1	+	1	305	c.305delG	c.(304-306)CGGfs	p.R102fs		NM_005172	NP_005163	Q92858	ATOH1_HUMAN	atonal homolog 1	102					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;3.57e-07)		GTGGACGGCCGGGGGGAGCTG	0.692													5	10	---	---	---	---						.	-	94750382	-	-	94750382	7	5	15	1	0	1	0	1	0	0	0	0	1113	1116	39	0	307	0	ATOH1	4	94750382	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	6166351	94750382	96403894	205	11039											
ADH1A	124	broad.mit.edu	37	chr4	100205902	100205903	+	Frame_Shift_Ins	INS	-	T	T																															agcagtagttgctctccgggINStttttacaaattctgcattt																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:100205902_100205903insT	uc003hur.1	-	4	388_389	c.317_318insA	c.(316-318)AACfs	p.N106fs	uc003hum.1_Intron|ADH1A_uc011ceg.1_Frame_Shift_Ins_p.N106fs|ADH1A_uc010ilf.1_5'Flank|ADH1A_uc010ilg.1_Frame_Shift_Ins_p.N106fs	NM_000667	NP_000658	P07327	ADH1A_HUMAN	class I alcohol dehydrogenase, alpha subunit	106					ethanol oxidation|transcription, DNA-dependent|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|protein binding|zinc ion binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(123;9.56e-08)	Fomepizole(DB01213)|NADH(DB00157)	TGCTCTCCGGGTTTTTACAAAT	0.421													25	54	---	---	---	---						.	T	100205903	T	T	100205902	7	5	15	1	0	1	1	0	0	0	0	0	307	1252	44	0	833	0	ADH1A	4	100205902	Frame_Shift_Ins	INS	-	TCGA-BR-4280-01A-01D-1126-08	5455520	100205902	90948374	206	11040											
NFKB1	4790	broad.mit.edu	37	chr4	103517339	103517339	+	Frame_Shift_Del	DEL	A	-	-																															aggaccctgaaggttgtgacAaaagtgatgacaaaaacact																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:103517339delA	uc011ceq.1	+	14	1809	c.1342delA	c.(1342-1344)AAAfs	p.K448fs	NFKB1_uc011cep.1_Frame_Shift_Del_p.K449fs|NFKB1_uc011cer.1_Frame_Shift_Del_p.K268fs	NM_003998	NP_003989	P19838	NFKB1_HUMAN	nuclear factor kappa-B, subunit 1 isoform 1	448	Interaction with CFLAR.				anti-apoptosis|apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of calcidiol 1-monooxygenase activity|nerve growth factor receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter	cytosol|I-kappaB/NF-kappaB complex|mitochondrion|nucleoplasm	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|breast(2)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.59e-08)	Dexamethasone(DB01234)|Pranlukast(DB01411)|Thalidomide(DB01041)	AGGTTGTGACAAAAGTGATGA	0.398													43	88	---	---	---	---						.	-	103517339	-	-	103517339	7	5	15	1	0	1	0	1	0	0	0	0	10394	131	5	0	1395	0	NFKB1	4	103517339	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	3311437	103517339	87636937	207	11041											
NPNT	255743	broad.mit.edu	37	chr4	106819158	106819158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcttggggacagtgtcagCgtgagtatcaagcctgggga	9	9	16	7	1	3	1	2	1	1	0	3	3	3	3	1	4	2	1	1	4	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:106819158C>T	uc003hya.2	+	2	377	c.172C>T	c.(172-174)CCT>TCT	p.P58S	NPNT_uc011cfc.1_Missense_Mutation_p.P58S|NPNT_uc011cfd.1_Missense_Mutation_p.P58S|NPNT_uc011cfe.1_Missense_Mutation_p.P58S|NPNT_uc010ilt.1_Missense_Mutation_p.P58S|NPNT_uc011cff.1_Missense_Mutation_p.P58S|NPNT_uc010ilu.1_5'UTR	NM_001033047	NP_001028219	Q6UXI9	NPNT_HUMAN	nephronectin precursor	58	EGF-like 1.				cell differentiation	membrane	calcium ion binding			skin(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.41e-07)		ACAGTGTCAGCGTGAGTATCA	0.552													10	25					0	0	0.008291	0	0		T	106819158	T	T	106819158	3	4	15	1	0	0	0	0	1	0	0	0	10609	782	27	1	178	1	NPNT	4	106819158	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3301819	106819158	84335118	208	11042											
PAPSS1	9061	broad.mit.edu	37	chr4	108603286	108603286	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcagaatcgatcccagtgAaacctgcaaaaggtaacaga	17	7	8	9	1	1	3	1	1	0	2	3	4	2	3	2	1	3	2	2	1	5	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:108603286A>G	uc003hyk.2	-	5	638	c.554T>C	c.(553-555)TTC>TCC	p.F185S	PAPSS1_uc011cfh.1_RNA	NM_005443	NP_005434	O43252	PAPS1_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase	185	Adenylyl-sulfate kinase.				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|sulfate adenylyltransferase (ATP) activity			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.49e-05)		GATCCCAGTGAAACCTGCAAA	0.383													32	46					0	0	0.003271	0	0		G	108603286	G	G	108603286	3	3	15	1	0	0	0	0	1	0	0	0	11453	246	9	3	1352	3	PAPSS1	4	108603286	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1784128	108603286	82550990	209	11043											
BBS7	55212	broad.mit.edu	37	chr4	122756413	122756413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcacatatgcttgtagtgtgCcatactggccttcaattgag	9	14	9	9	0	2	1	2	1	0	0	2	1	2	1	2	1	3	2	2	1	4	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:122756413C>T	uc003ied.2	-	14	1571	c.1397G>A	c.(1396-1398)GGC>GAC	p.G466D	BBS7_uc003iee.1_Missense_Mutation_p.G466D	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	466					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						TTGTAGTGTGCCATACTGGCC	0.373									Bardet-Biedl_syndrome				29	39					0	0	0.005443	0	0		T	122756413	T	T	122756413	3	4	15	1	0	0	0	0	1	0	0	0	1342	739	26	2	779	2	BBS7	4	122756413	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	14153127	122756413	68397863	210	11044											
FAT4	79633	broad.mit.edu	37	chr4	126239199	126239199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcctggaccgtgaacttGcttcccagattgttctgaat	7	12	12	10	1	1	3	0	2	1	1	2	4	2	4	3	3	2	2	3	3	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:126239199G>A	uc003ifj.3	+	1	1633	c.1633G>A	c.(1633-1635)GCT>ACT	p.A545T		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	545	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CCGTGAACTTGCTTCCCAGAT	0.522											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	39					0	0	0.000602	0	0		A	126239199	A	A	126239199	3	1	15	1	0	0	0	0	1	0	0	0	5706	1319	46	2	1635	2	FAT4	4	126239199	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3482786	126239199	64915077	211	11045											
FAT4	79633	broad.mit.edu	37	chr4	126370559	126370559	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagttacccgtgtcacaacTtctgatgaagacattgggat	12	11	9	9	1	2	3	1	2	1	1	2	4	2	4	1	1	2	1	1	1	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:126370559T>G	uc003ifj.3	+	9	8388	c.8388T>G	c.(8386-8388)ACT>ACG	p.T2796T	FAT4_uc011cgp.1_Silent_p.T1094T|FAT4_uc003ifi.1_Silent_p.T274T	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2796	Cadherin 27.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GTGTCACAACTTCTGATGAAG	0.373													46	78					0	0	0.01441	0	0		G	126370559	G	G	126370559	2	3	15	1	0	0	0	0	0	0	0	1	5706	1596	56	5		5	FAT4	4	126370559	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	131360	126370559	64783717	212	11046											
FAT4	79633	broad.mit.edu	37	chr4	126372301	126372301	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgaaggtattggccaagaActttggcagcattagaggtg	11	12	13	5	0	0	3	0	1	0	2	0	3	0	3	1	4	2	3	1	4	5	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:126372301A>T	uc003ifj.3	+	9	10130	c.10130A>T	c.(10129-10131)AAC>ATC	p.N3377I	FAT4_uc011cgp.1_Missense_Mutation_p.N1675I|FAT4_uc003ifi.1_Missense_Mutation_p.N855I	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3377	Cadherin 32.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TTGGCCAAGAACTTTGGCAGC	0.398													7	186					0	0	0.004482	0	0		T	126372301	T	T	126372301	3	4	15	1	0	0	0	0	1	0	0	0	5706	43	2	5	10164	5	FAT4	4	126372301	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1742	126372301	64781975	213	11047											
FAT4	79633	broad.mit.edu	37	chr4	126411350	126411350	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctgcccagactcgcacaCgggaaggacctgtgagatgg	10	6	14	11	2	0	2	0	1	0	2	1	5	0	4	2	3	2	2	2	3	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:126411350C>A	uc003ifj.3	+	17	13373	c.13373C>A	c.(13372-13374)ACG>AAG	p.T4458K	FAT4_uc011cgp.1_Missense_Mutation_p.T2699K|FAT4_uc003ifi.1_Missense_Mutation_p.T1935K	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4458	EGF-like 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GACTCGCACACGGGAAGGACC	0.632													21	27					2.89027e-11	3.30463e-11	0.014323	1	0		A	126411350	A	A	126411350	3	1	15	1	0	0	0	0	1	0	0	0	5706	536	19	5	13439	5	FAT4	4	126411350	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	39049	126411350	64742926	214	11048											
INPP4B	8821	broad.mit.edu	37	chr4	143003205	143003205	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcatgcaatccagcgctCggataaagaagtccttgtgt	10	12	9	10	2	1	1	1	0	1	1	5	2	3	2	2	1	2	2	2	1	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:143003205C>A	uc003iix.3	-	26	3216	c.2621G>T	c.(2620-2622)CGA>CTA	p.R874L	INPP4B_uc003iiw.3_Missense_Mutation_p.R874L|INPP4B_uc011chm.1_RNA|INPP4B_uc011chn.1_Missense_Mutation_p.R689L|INPP4B_uc011cho.1_RNA	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	874					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					ATCCAGCGCTCGGATAAAGAA	0.348													19	33					1.96292e-10	2.23639e-10	0.010504	1	0		A	143003205	A	A	143003205	3	1	15	1	0	0	0	0	1	0	0	0	7769	884	31	5	161	5	INPP4B	4	143003205	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	16591855	143003205	48151071	215	11049											
LRBA	987	broad.mit.edu	37	chr4	151773180	151773180	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagagacactaccatgacAatcattaattaatttggttt	14	14	5	8	0	2	2	2	1	0	1	2	3	2	2	1	1	1	1	1	1	4	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:151773180A>G	uc010ipj.2	-	23	4156	c.3682T>C	c.(3682-3684)TGT>CGT	p.C1228R	LRBA_uc003ilt.3_5'Flank|LRBA_uc003ilu.3_Missense_Mutation_p.C1228R	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1228						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					CTACCATGACAATCATTAATT	0.428													32	51					0	0	0.004289	0	0		G	151773180	G	G	151773180	3	3	15	1	0	0	0	0	1	0	0	0	8949	130	5	3	5053	3	LRBA	4	151773180	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	8769975	151773180	39381096	216	11050											
KIAA0922	23240	broad.mit.edu	37	chr4	154519772	154519772	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgttattgacatgattggCgtggaaggatttggagcaag	11	12	14	4	1	0	2	0	2	0	0	0	5	0	5	0	4	1	2	0	4	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:154519772C>T	uc003inm.3	+	21	2203	c.2151C>T	c.(2149-2151)GGC>GGT	p.G717G	KIAA0922_uc010ipp.2_Silent_p.G718G|KIAA0922_uc010ipq.2_Silent_p.G486G	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	717	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				ACATGATTGGCGTGGAAGGAT	0.418													28	47					0	0	0.009535	0	0		T	154519772	T	T	154519772	2	4	15	1	0	0	0	0	0	0	0	1	8217	755	27	1		1	KIAA0922	4	154519772	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2746592	154519772	36634504	217	11051											
GUCY1A3	2982	broad.mit.edu	37	chr4	156631766	156631766	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgttacgaggaagatgaaaAcatccttggggtggttggag	12	10	15	4	1	0	2	0	1	0	1	1	5	1	4	1	5	2	2	1	5	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:156631766A>G	uc003iov.2	+	7	985	c.449A>G	c.(448-450)AAC>AGC	p.N150S	GUCY1A3_uc003iou.2_Missense_Mutation_p.N150S|GUCY1A3_uc010iqc.2_Missense_Mutation_p.N150S|GUCY1A3_uc003iow.2_Missense_Mutation_p.N150S|GUCY1A3_uc010iqd.2_Missense_Mutation_p.N149S|GUCY1A3_uc003iox.2_Missense_Mutation_p.N150S|GUCY1A3_uc003ioz.2_5'UTR|GUCY1A3_uc003ioy.2_Missense_Mutation_p.N150S|GUCY1A3_uc010iqe.2_Intron|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Missense_Mutation_p.N150S	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	150				VIKESLGEEVFKICYEEDENILGVVGGTLKDFLNSFSTLLK QSSHCQEAGKRGR -> LSKNLLVKRFLKYVTRKMKTSLGW LEAPLKIFKQLQYPSETEQPLPRSRKKGQ (in Ref. 1).	blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		GAAGATGAAAACATCCTTGGG	0.418													21	48					0	0	0.010504	0	0		G	156631766	G	G	156631766	3	3	15	1	0	0	0	0	1	0	0	0	6910	43	2	3	463	3	GUCY1A3	4	156631766	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	2111994	156631766	34522510	218	11052											
CTSO	1519	broad.mit.edu	37	chr4	156849508	156849508	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaaacattacttcccattTtgacatgggcataaccatct	13	12	4	12	0	1	1	0	1	1	0	2	1	2	1	2	1	3	1	2	1	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:156849508T>G	uc003ipg.2	-	7	960	c.911A>C	c.(910-912)AAA>ACA	p.K304T		NM_001334	NP_001325	P43234	CATO_HUMAN	cathepsin O preproprotein	304					proteolysis	lysosome	cysteine-type endopeptidase activity				0	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.05)|Kidney(143;0.0627)|COAD - Colon adenocarcinoma(41;0.148)		ACTTCCCATTTTGACATGGGC	0.343													4	76					0	0	0.009096	0	0		G	156849508	G	G	156849508	3	3	15	1	0	0	0	0	1	0	0	0	4043	1841	64	5	62	5	CTSO	4	156849508	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	217742	156849508	34304768	219	11053											
MARCH1	55016	broad.mit.edu	37	chr4	164506986	164506986	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctgagctctttatccacTggtggaggcaggactggtgg	7	12	14	8	0	2	1	0	1	2	0	3	3	3	3	1	6	1	2	1	6	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:164506986T>C	uc003iqs.1	-	6	1315	c.338A>G	c.(337-339)CAG>CGG	p.Q113R	MARCH1_uc003iqr.1_Missense_Mutation_p.Q96R	NM_017923	NP_060393	Q8TCQ1	MARH1_HUMAN	membrane-associated RING-CH protein I	113	RING-CH-type.				antigen processing and presentation of peptide antigen via MHC class II|immune response	cytoplasmic vesicle membrane|early endosome membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|plasma membrane	MHC protein binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				CTTTATCCACTGGTGGAGGCA	0.537													5	55					0	0	0.000602	0	0		C	164506986	C	C	164506986	3	2	15	1	0	0	0	0	1	0	0	0	9316	1580	55	3	543	3	MARCH1	4	164506986	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	7657478	164506986	26647290	220	11054											
GPM6A	2823	broad.mit.edu	37	chr4	176556153	176556155	+	In_Frame_Del	DEL	CGG	-	-																															tgtcttcatacttctgcatcCggcaggcgtctttcacatag																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:176556153_176556155delCGG	uc003iuf.2	-	7	1542_1544	c.738_740delCCG	c.(736-741)TGCCGG>TGG	p.246_247CR>W	GPM6A_uc011ckj.1_In_Frame_Del_p.239_240CR>W|GPM6A_uc003iug.2_In_Frame_Del_p.246_247CR>W|GPM6A_uc003iuh.2_In_Frame_Del_p.235_236CR>W	NM_201591	NP_963885	P51674	GPM6A_HUMAN	glycoprotein M6A isoform 2	246_247	Cytoplasmic (Potential).					cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)		CTTCTGCATCCGGCAGGCGTCTT	0.429													21	41	---	---	---	---						.	-	176556155	-	-	176556153	7	5	15	1	0	1	0	1	0	0	0	0	6630	652	23	0	100	0	GPM6A	4	176556153	In_Frame_Del	DEL	CGG	TCGA-BR-4280-01A-01D-1126-08	12049167	176556153	14598123	221	11055											
ENPP6	133121	broad.mit.edu	37	chr4	185038092	185038092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtcattcaggctgatgtActtattcagctcaatcactt	10	14	7	10	0	5	1	5	1	0	0	5	1	5	1	0	2	2	3	0	2	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:185038092A>G	uc003iwc.2	-	5	914	c.772T>C	c.(772-774)TAC>CAC	p.Y258H		NM_153343	NP_699174	Q6UWR7	ENPP6_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	258	Extracellular (Potential).				lipid catabolic process	extracellular region|integral to membrane|plasma membrane				central_nervous_system(1)	1		all_lung(41;7.99e-12)|Lung NSC(41;1.46e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;4.98e-27)|Epithelial(43;3.15e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.09e-12)|Colorectal(24;3.78e-05)|STAD - Stomach adenocarcinoma(60;4.5e-05)|COAD - Colon adenocarcinoma(29;0.000154)|GBM - Glioblastoma multiforme(59;0.000167)|BRCA - Breast invasive adenocarcinoma(30;0.000378)|LUSC - Lung squamous cell carcinoma(40;0.0151)		AGGCTGATGTACTTATTCAGC	0.552													4	36					0	0	0.009096	0	0		G	185038092	G	G	185038092	3	3	15	1	0	0	0	0	1	0	0	0	5142	391	14	3	566	3	ENPP6	4	185038092	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	8481939	185038092	6116184	222	11056											
TRIML2	205860	broad.mit.edu	37	chr4	189013038	189013038	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcaatctcatagttctcAggtcctcagatagtgccagg	9	12	9	11	0	4	1	4	0	3	1	8	1	5	1	2	2	1	1	2	2	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr4:189013038A>C	uc003izl.2	-	7	689	c.653T>G	c.(652-654)CTG>CGG	p.L218R	TRIML2_uc003izj.1_Missense_Mutation_p.L46R|TRIML2_uc003izk.1_Missense_Mutation_p.L26R|TRIML2_uc011cle.1_Missense_Mutation_p.L293R	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	218	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		CATAGTTCTCAGGTCCTCAGA	0.502													23	48					0	0	0.00278	0	0		C	189013038	C	C	189013038	3	2	15	1	0	0	0	0	1	0	0	0	16577	188	7	5	514	5	TRIML2	4	189013038	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	3974946	189013038	2141238	223	11057											
ADAMTS16	170690	broad.mit.edu	37	chr5	5303392	5303392	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgcccagctggtccgtggGgaactggagtgcctgcagtc	5	8	15	13	1	0	0	0	0	0	0	2	2	1	2	4	4	5	2	4	4	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:5303392G>T	uc003jdl.2	+	19	2939	c.2801G>T	c.(2800-2802)GGG>GTG	p.G934V	ADAMTS16_uc003jdk.1_Missense_Mutation_p.G934V	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	934	TSP type-1 3.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TGGTCCGTGGGGAACTGGAGT	0.672													4	6					1.23904e-05	1.35872e-05	0.000602	1	0		T	5303392	T	T	5303392	3	4	15	1	0	0	0	0	1	0	0	0	261	1232	43	5	2875	5	ADAMTS16	5	5303392	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08		5303392	175611868	224	11058											
CTNND2	1501	broad.mit.edu	37	chr5	11346569	11346569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agggccggatttgctgtatgGagactcaacagagggacaat	12	8	14	7	1	1	2	1	0	0	2	1	5	1	4	1	4	2	2	1	4	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:11346569G>A	uc003jfa.1	-	9	1688	c.1543C>T	c.(1543-1545)CCA>TCA	p.P515S	CTNND2_uc010itt.2_Missense_Mutation_p.P424S|CTNND2_uc011cmy.1_Missense_Mutation_p.P178S|CTNND2_uc011cmz.1_Missense_Mutation_p.P82S|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.P82S	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	515					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						TTGCTGTATGGAGACTCAACA	0.602													18	43					0	0	0.012319	0	0		A	11346569	A	A	11346569	3	1	15	1	0	0	0	0	1	0	0	0	4023	1174	41	4	2190	4	CTNND2	5	11346569	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6043177	11346569	169568691	225	11059											
DNAH5	1767	broad.mit.edu	37	chr5	13766090	13766090	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactgaactaccaacctgtaAgttctgtaaaaagttccctg	13	11	6	11	0	1	1	0	1	1	0	2	1	2	1	3	0	3	4	3	0	7	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:13766090A>C	uc003jfd.2	-	59	10138	c.10096T>G	c.(10096-10098)TTA>GTA	p.L3366V	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3366	Stalk (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CCAACCTGTAAGTTCTGTAAA	0.408									Kartagener_syndrome				6	119					0	0	0.004482	0	0		C	13766090	C	C	13766090	3	2	15	1	0	0	0	0	1	0	0	0	4610	69	3	5	3862	5	DNAH5	5	13766090	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	2419521	13766090	167149170	226	11060											
CDH12	1010	broad.mit.edu	37	chr5	21802491	21802491	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaggttggaagcctcaacTttgaaagtgtatgccttctt	10	14	10	7	0	2	2	1	2	1	0	2	3	2	3	2	2	3	2	2	2	5	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:21802491T>G	uc010iuc.2	-	7	1499	c.1041A>C	c.(1039-1041)AAA>AAC	p.K347N	CDH12_uc011cno.1_Missense_Mutation_p.K307N|CDH12_uc003jgk.2_Missense_Mutation_p.K347N	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	347	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						AAGCCTCAACTTTGAAAGTGT	0.438										HNSCC(59;0.17)			7	69					0	0	0.00308	0	0		G	21802491	G	G	21802491	3	3	15	1	0	0	0	0	1	0	0	0	3101	1606	56	5	1367	5	CDH12	5	21802491	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	8036401	21802491	159112769	227	11061											
CDH10	1008	broad.mit.edu	37	chr5	24509890	24509890	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggtgttttctgcttcgacTttcagagtataaagtcttcg	7	17	10	7	2	3	1	1	0	2	1	5	2	3	1	0	1	1	3	0	1	3	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:24509890T>C	uc003jgr.1	-	7	1373	c.1041A>G	c.(1039-1041)AAA>AAG	p.K347K	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	347	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CTGCTTCGACTTTCAGAGTAT	0.378										HNSCC(23;0.051)			16	39					0	0	0.006122	0	0		C	24509890	C	C	24509890	2	2	15	1	0	0	0	0	0	0	0	1	3099	1606	56	3		3	CDH10	5	24509890	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2707399	24509890	156405370	228	11062											
PDZD2	23037	broad.mit.edu	37	chr5	32074648	32074648	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcacagacagtgaacctgActggcagagccaatgatcca	13	6	10	12	0	1	5	1	3	0	2	2	5	2	5	3	1	2	2	3	1	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:32074648A>G	uc003jhl.2	+	18	3824	c.3436A>G	c.(3436-3438)ACT>GCT	p.T1146A	PDZD2_uc003jhm.2_Missense_Mutation_p.T1146A|PDZD2_uc011cnx.1_Missense_Mutation_p.T972A	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1146					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						AGTGAACCTGACTGGCAGAGC	0.597													8	22					0	0	0.006214	0	0		G	32074648	G	G	32074648	3	3	15	1	0	0	0	0	1	0	0	0	11720	275	10	3	3502	3	PDZD2	5	32074648	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	7564758	32074648	148840612	229	11063											
PDZD2	23037	broad.mit.edu	37	chr5	32098700	32098700	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccacagccaatgggaagggTttgctgtccagaaagaccat	12	7	11	11	0	0	2	0	0	0	2	1	3	1	3	4	2	2	2	4	2	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:32098700T>C	uc003jhl.2	+	23	8566	c.8178T>C	c.(8176-8178)GGT>GGC	p.G2726G	PDZD2_uc003jhm.2_Silent_p.G2726G|PDZD2_uc003jhn.2_5'Flank	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2726					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						ATGGGAAGGGTTTGCTGTCCA	0.557													11	19					0	0	0.010504	0	0		C	32098700	C	C	32098700	2	2	15	1	0	0	0	0	0	0	0	1	11720	1712	60	3		3	PDZD2	5	32098700	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	24052	32098700	148816560	230	11064											
SPEF2	79925	broad.mit.edu	37	chr5	35641550	35641550	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagggtttcaagtgccaaacTtaataatttttctcgcttgg	10	15	8	8	1	2	0	1	0	1	0	3	0	2	0	1	2	2	2	1	2	4	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:35641550T>G	uc003jjo.2	+	3	290	c.179T>G	c.(178-180)CTT>CGT	p.L60R	SPEF2_uc003jjn.1_Missense_Mutation_p.L60R|SPEF2_uc003jjq.3_Missense_Mutation_p.L60R	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	60	CH.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AGTGCCAAACTTAATAATTTT	0.368													14	84					0	0	0.007413	0	0		G	35641550	G	G	35641550	3	3	15	1	0	0	0	0	1	0	0	0	15060	1609	56	5	189	5	SPEF2	5	35641550	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	3542850	35641550	145273710	231	11065											
SPEF2	79925	broad.mit.edu	37	chr5	35793420	35793420	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaggagcagttgggcaccAtcacttttgagcagtatatg	12	11	11	7	0	1	1	1	1	0	0	1	2	1	2	1	2	2	5	1	2	3	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:35793420A>G	uc003jjo.2	+	32	4825	c.4714A>G	c.(4714-4716)ATC>GTC	p.I1572V	SPEF2_uc003jjp.1_Missense_Mutation_p.I1058V|SPEF2_uc003jjr.2_Missense_Mutation_p.I627V	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1572					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GTTGGGCACCATCACTTTTGA	0.468													6	56					0	0	0.001984	0	0		G	35793420	G	G	35793420	3	3	15	1	0	0	0	0	1	0	0	0	15060	217	8	3	4861	3	SPEF2	5	35793420	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	151870	35793420	145121840	232	11066											
NUP155	9631	broad.mit.edu	37	chr5	37299658	37299658	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtttaaatgggtcagcaaAttccccataaagctgtgaga	15	10	9	7	0	1	1	1	1	0	1	2	2	2	1	2	1	2	3	2	1	6	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:37299658A>T	uc003jku.1	-	31	3692	c.3574T>A	c.(3574-3576)TTT>ATT	p.F1192I	NUP155_uc003jkt.1_Missense_Mutation_p.F1133I|NUP155_uc010iuz.1_Missense_Mutation_p.F1128I	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	1192					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGGTCAGCAAATTCCCCATAA	0.358													34	46					0	0	0.004878	0	0		T	37299658	T	T	37299658	3	4	15	1	0	0	0	0	1	0	0	0	10775	101	4	5	621	5	NUP155	5	37299658	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1506238	37299658	143615602	233	11067											
HCN1	348980	broad.mit.edu	37	chr5	45396642	45396642	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagagactggattaaagcGgtggcatggccgacaaacat	13	7	12	9	2	0	1	0	0	0	1	1	4	1	2	2	4	2	1	2	4	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:45396642G>A	uc003jok.2	-	4	1207	c.1182C>T	c.(1180-1182)ACC>ACT	p.T394T		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	394	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GGATTAAAGCGGTGGCATGGC	0.498													12	16					0	0	0.001855	0	0		A	45396642	A	A	45396642	2	1	15	1	0	0	0	0	0	0	0	1	7012	1103	39	1		1	HCN1	5	45396642	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	8096984	45396642	135518618	234	11068											
SKIV2L2	23517	broad.mit.edu	37	chr5	54674186	54674186	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataataaaatagtaattcccAatgaagaaagtgtggttatc	18	12	7	4	0	0	2	0	1	0	1	2	2	1	2	1	1	0	2	1	1	9	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:54674186A>G	uc003jpy.3	+	17	2121	c.1855A>G	c.(1855-1857)AAT>GAT	p.N619D	SKIV2L2_uc011cqi.1_Missense_Mutation_p.N518D	NM_015360	NP_056175	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2	619					maturation of 5.8S rRNA	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(1)|skin(1)	2		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				AGTAATTCCCAATGAAGAAAG	0.274													24	41					0	0	0.007291	0	0		G	54674186	G	G	54674186	3	3	15	1	0	0	0	0	1	0	0	0	14385	130	5	3	1921	3	SKIV2L2	5	54674186	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	9277544	54674186	126241074	235	11069											
MAP3K1	4214	broad.mit.edu	37	chr5	56181765	56181765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctattgtcttatagggggatCggtggctcatttgctgagta	7	15	13	6	1	2	1	1	1	1	0	3	2	2	2	0	4	1	3	0	4	4	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:56181765C>T	uc003jqw.3	+	17	4490	c.3989C>T	c.(3988-3990)TCG>TTG	p.S1330L		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	1330	Protein kinase.				cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		ATAGGGGGATCGGTGGCTCAT	0.343													13	35					0	0	0.00245	0	0		T	56181765	T	T	56181765	3	4	15	1	0	0	0	0	1	0	0	0	9261	893	31	1	4055	1	MAP3K1	5	56181765	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1507579	56181765	124733495	236	11070											
RGS7BP	401190	broad.mit.edu	37	chr5	63871704	63871704	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctaaaatccatatgtctgCtggggtctcttcagtttcat	8	16	8	9	0	4	0	2	0	2	0	6	0	5	0	1	2	2	3	1	2	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:63871704C>T	uc003jtj.2	+	3	436	c.436C>T	c.(436-438)CTG>TTG	p.L146L	RGS7BP_uc011cqu.1_Silent_p.L13L	NM_001029875	NP_001025046	Q6MZT1	R7BP_HUMAN	regulator of G-protein signaling 7 binding	146					negative regulation of signal transduction	cytoplasm|nucleus|plasma membrane					0		Lung NSC(810;0.000518)|Prostate(74;0.0435)|Ovarian(174;0.186)		Lung(70;0.147)		CATATGTCTGCTGGGGTCTCT	0.418													18	57					0	0	0.008871	0	0		T	63871704	T	T	63871704	2	4	15	1	0	0	0	0	0	0	0	1	13336	796	28	2		2	RGS7BP	5	63871704	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	7689939	63871704	117043556	237	11071											
NLN	57486	broad.mit.edu	37	chr5	65105422	65105422	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatgcttgaaaattgggtGtgggacgtcgattccctccg	9	11	12	9	3	0	1	0	1	0	0	3	3	2	2	2	2	1	1	2	2	3	3	rs140799100	byFrequency	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:65105422G>A	uc003juf.2	+	10	1724	c.1608G>A	c.(1606-1608)GTG>GTA	p.V536V	NLN_uc003jug.2_Silent_p.V365V|NLN_uc010iww.2_Silent_p.V213V	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	536					proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)		AAAATTGGGTGTGGGACGTCG	0.428													48	68					0	0	0.01441	0	0		A	65105422	A	A	65105422	2	1	15	1	0	0	0	0	0	0	0	1	10486	1364	48	4		4	NLN	5	65105422	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1233718	65105422	115809838	238	11072											
NLN	57486	broad.mit.edu	37	chr5	65105492	65105492	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctattgcagacgatctgCttgaaaaacttgttgcttct	9	14	8	10	1	2	2	0	1	2	1	2	3	2	2	1	0	4	4	1	0	3	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:65105492C>A	uc003juf.2	+	10	1794	c.1678C>A	c.(1678-1680)CTT>ATT	p.L560I	NLN_uc003jug.2_Missense_Mutation_p.L389I|NLN_uc010iww.2_Missense_Mutation_p.L237I	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	560					proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)		AGACGATCTGCTTGAAAAACT	0.393													27	45					1.13719e-10	1.29715e-10	0.008361	1	0		A	65105492	A	A	65105492	3	1	15	1	0	0	0	0	1	0	0	0	10486	797	28	5	1716	5	NLN	5	65105492	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	70	65105492	115809768	239	11073											
FAM151B	167555	broad.mit.edu	37	chr5	79837571	79837571	+	Frame_Shift_Del	DEL	A	-	-																															acattagagaccattttgacAaaaaacaagttttctatgac																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:79837571delA	uc003kgv.1	+	6	894	c.751delA	c.(751-753)AAAfs	p.K251fs	FAM151B_uc010jal.1_RNA	NM_205548	NP_991111	Q6UXP7	F151B_HUMAN	hypothetical protein LOC167555	251											0		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;8.21e-47)|Epithelial(54;8.3e-42)|all cancers(79;1.97e-36)		CCATTTTGACAAAAAACAAGT	0.308													19	27	---	---	---	---						.	-	79837571	-	-	79837571	7	5	15	1	0	1	0	1	0	0	0	0	5470	131	5	0	773	0	FAM151B	5	79837571	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	14732079	79837571	101077689	240	11074											
VCAN	1462	broad.mit.edu	37	chr5	82816658	82816658	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaggataaagacatcccaAgtttcactgaagatggagca	17	7	10	7	0	1	3	1	1	0	2	2	6	2	5	1	2	1	2	1	2	5	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:82816658A>G	uc003kii.3	+	7	2889	c.2533A>G	c.(2533-2535)AGT>GGT	p.S845G	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.S845G|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	845	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		AGACATCCCAAGTTTCACTGA	0.428													7	121					0	0	0.001984	0	0		G	82816658	G	G	82816658	3	3	15	1	0	0	0	0	1	0	0	0	17164	72	3	3	2555	3	VCAN	5	82816658	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	2979087	82816658	98098602	241	11075											
GPR98	84059	broad.mit.edu	37	chr5	89923350	89923350	+	Frame_Shift_Del	DEL	T	-	-																															tcagccaaacacaactgttgTttttccaccttttattcatg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:89923350delT	uc003kju.2	+	7	1091	c.995delT	c.(994-996)GTTfs	p.V332fs	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	332	Calx-beta 3.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		ACAACTGTTGTTTTTCCACCT	0.373													58	83	---	---	---	---						.	-	89923350	-	-	89923350	7	5	15	1	0	1	0	1	0	0	0	0	6737	1725	60	0	1021	0	GPR98	5	89923350	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	7106692	89923350	90991910	242	11076											
GDF9	2661	broad.mit.edu	37	chr5	132197386	132197386	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggggctgtatttggcaggTacacatgacggtcttggcac	9	10	14	8	1	1	1	0	1	1	0	1	1	1	1	0	6	1	5	0	6	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:132197386T>C	uc003kxz.1	-	2	1512	c.1260A>G	c.(1258-1260)GTA>GTG	p.V420V	GDF9_uc011cxj.1_Silent_p.V332V	NM_005260	NP_005251	O60383	GDF9_HUMAN	growth differentiation factor 9 precursor	420					female gamete generation|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			skin(1)	1		all_cancers(142;0.105)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ATTTGGCAGGTACACATGACG	0.483													32	49					0	0	0.010818	0	0		C	132197386	C	C	132197386	2	2	15	1	0	0	0	0	0	0	0	1	6334	1625	57	3		3	GDF9	5	132197386	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	42274036	132197386	48717874	243	11077											
AFF4	27125	broad.mit.edu	37	chr5	132234075	132234075	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactattatggtgtgaaggTtcagagttactaaaagagat	14	13	10	4	0	2	3	2	1	0	2	2	4	2	3	0	2	1	2	0	2	6	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:132234075T>C	uc003kyd.2	-	10	1644	c.1236A>G	c.(1234-1236)GAA>GAG	p.E412E	AFF4_uc011cxk.1_Silent_p.E90E|AFF4_uc003kye.1_Silent_p.E412E	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	412	Ser-rich.				transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GGTGTGAAGGTTCAGAGTTAC	0.363													32	36					0	0	0.013726	0	0		C	132234075	C	C	132234075	2	2	15	1	0	0	0	0	0	0	0	1	359	1722	60	3		3	AFF4	5	132234075	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	36689	132234075	48681185	244	11078											
KIF20A	10112	broad.mit.edu	37	chr5	137518981	137518981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttatgacctattagaacCgcctagccaacagcgcaaga	13	8	8	12	2	0	3	0	1	0	2	0	3	0	3	4	0	4	2	4	0	7	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:137518981C>T	uc003lcj.2	+	8	1452	c.956C>T	c.(955-957)CCG>CTG	p.P319L	KIF20A_uc011cyo.1_Missense_Mutation_p.P301L	NM_005733	NP_005724	O95235	KI20A_HUMAN	kinesin family member 20A	319	Kinesin-motor.				cytokinesis|M phase of mitotic cell cycle|microtubule-based movement|protein transport|vesicle-mediated transport	Golgi apparatus|microtubule|nucleoplasm	ATP binding|microtubule motor activity|protein binding|transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CTATTAGAACCGCCTAGCCAA	0.493													16	39					0	0	0.006122	0	0		T	137518981	T	T	137518981	3	4	15	1	0	0	0	0	1	0	0	0	8302	652	23	1	982	1	KIF20A	5	137518981	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5284906	137518981	43396279	245	11079											
PCDHA3	56145	broad.mit.edu	37	chr5	140181171	140181171	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggacattaatgacaacgCgccagtttttccaatggctg	12	10	10	9	2	0	1	0	1	0	0	1	3	1	2	2	2	1	2	2	2	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:140181171C>T	uc003lhf.2	+	1	389	c.389C>T	c.(388-390)GCG>GTG	p.A130V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.A130V	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	130	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATGACAACGCGCCAGTTTTT	0.542													36	80					0	0	0.004289	0	0		T	140181171	T	T	140181171	3	4	15	1	0	0	0	0	1	0	0	0	11544	768	27	1	391	1	PCDHA3	5	140181171	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2662190	140181171	40734089	246	11080											
PCDHB8	56128	broad.mit.edu	37	chr5	140559946	140559946	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtattacctaatattcagggCcattcttttgggccagaaat	11	14	8	8	0	2	1	1	0	1	1	2	1	2	1	3	2	1	1	3	2	5	8			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:140559946C>T	uc011dai.1	+	1	2517	c.2331C>T	c.(2329-2331)GGC>GGT	p.G777G	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	777	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATATTCAGGGCCATTCTTTTG	0.408													19	48					0	0	0.012319	0	0		T	140559946	T	T	140559946	2	4	15	1	0	0	0	0	0	0	0	1	11567	726	26	2		2	PCDHB8	5	140559946	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	378775	140559946	40355314	247	11081											
PCDHB11	56125	broad.mit.edu	37	chr5	140581381	140581381	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgctccctgaggcggcaccGgcccaggcccaggccgactc	5	3	13	20	4	0	1	0	1	0	0	2	2	1	1	6	5	0	2	6	5	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:140581381G>A	uc003liy.2	+	1	2034	c.2034G>A	c.(2032-2034)CCG>CCA	p.P678P	PCDHB11_uc011daj.1_Silent_p.P313P	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	678	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGCGGCACCGGCCCAGGCCC	0.687													15	26					0	0	0.007291	0	0		A	140581381	A	A	140581381	2	1	15	1	0	0	0	0	0	0	0	1	11555	1103	39	1		1	PCDHB11	5	140581381	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	21435	140581381	40333879	248	11082											
PCDHGA2	56113	broad.mit.edu	37	chr5	140719048	140719048	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaacgcccttcagaagtaCgcactcaacccaaatgacca	15	5	7	14	2	2	3	2	1	0	2	2	4	2	3	3	0	3	2	3	0	5	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:140719048C>T	uc003ljk.1	+	1	695	c.510C>T	c.(508-510)TAC>TAT	p.Y170Y	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Silent_p.Y170Y	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	170	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCAGAAGTACGCACTCAACC	0.537													49	73					0	0	0.01441	0	0		T	140719048	T	T	140719048	2	4	15	1	0	0	0	0	0	0	0	1	11573	547	19	1		1	PCDHGA2	5	140719048	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	137667	140719048	40196212	249	11083											
PPARGC1B	133522	broad.mit.edu	37	chr5	149212845	149212845	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcttcacccaagagcacCgggcccagaccaagcctgcg	10	3	11	17	2	1	2	1	0	0	2	1	2	1	2	5	1	4	3	5	1	2	1	rs141686848		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:149212845C>T	uc003lrc.2	+	5	1251	c.1209C>T	c.(1207-1209)ACC>ACT	p.T403T	PPARGC1B_uc003lrb.1_Silent_p.T403T|PPARGC1B_uc003lrd.2_Silent_p.T364T|PPARGC1B_uc003lrf.2_Silent_p.T382T|PPARGC1B_uc003lre.1_Silent_p.T382T	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	403					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CCAAGAGCACCGGGCCCAGAC	0.602													9	35					0	0	0.008291	0	0		T	149212845	T	T	149212845	2	4	15	1	0	0	0	0	0	0	0	1	12320	639	23	1		1	PPARGC1B	5	149212845	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	8493797	149212845	31702415	250	11084											
TCOF1	6949	broad.mit.edu	37	chr5	149769545	149769545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcagcaaggagtccagtCggatatcagatggcaagaaa	15	5	13	8	1	1	2	1	0	0	2	3	4	2	4	1	3	2	4	1	3	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:149769545C>T	uc003lry.2	+	19	3250	c.3142C>T	c.(3142-3144)CGG>TGG	p.R1048W	TCOF1_uc011dch.1_Missense_Mutation_p.R1048W|TCOF1_uc003lrz.2_Missense_Mutation_p.R1048W|TCOF1_uc003lrx.2_Missense_Mutation_p.R971W|TCOF1_uc003lsa.2_Missense_Mutation_p.R971W	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	1048					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGAGTCCAGTCGGATATCAGA	0.592													6	9					0	0	0.001984	0	0		T	149769545	T	T	149769545	3	4	15	1	0	0	0	0	1	0	0	0	15733	875	31	1	3238	1	TCOF1	5	149769545	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	556700	149769545	31145715	251	11085											
DCTN4	51164	broad.mit.edu	37	chr5	150095168	150095168	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggttctgccaactcatcGtactctgctgctgcatcctt	6	14	8	13	1	3	1	1	1	2	0	5	1	4	1	2	1	6	5	2	1	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:150095168G>A	uc003lsv.2	-	12	1230	c.1128C>T	c.(1126-1128)TAC>TAT	p.Y376Y	DCTN4_uc003lsu.2_Silent_p.Y319Y|DCTN4_uc010jhi.2_Silent_p.Y383Y	NM_016221	NP_057305	Q9UJW0	DCTN4_HUMAN	dynactin 4 (p62) isoform b	376						centrosome|nucleus	protein N-terminus binding			central_nervous_system(1)	1		Medulloblastoma(196;0.167)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCAACTCATCGTACTCTGCTG	0.502													15	31					0	0	0.004007	0	0		A	150095168	A	A	150095168	2	1	15	1	0	0	0	0	0	0	0	1	4312	1140	40	1		1	DCTN4	5	150095168	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	325623	150095168	30820092	252	11086											
FAT2	2196	broad.mit.edu	37	chr5	150917385	150917385	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccagcttgaattcatgcgcCccagggccatgcagagaata	11	8	10	12	1	1	2	1	1	0	1	2	3	2	2	4	1	3	2	4	1	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:150917385C>A	uc003lue.3	-	11	9175	c.9162G>T	c.(9160-9162)GGG>GGT	p.G3054G	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3054	Extracellular (Potential).|Cadherin 27.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATTCATGCGCCCCAGGGCCAT	0.463													36	60					3.21399e-22	3.81489e-22	0.004878	1	0		A	150917385	A	A	150917385	2	1	15	1	0	0	0	0	0	0	0	1	5704	610	22	5		5	FAT2	5	150917385	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	822217	150917385	29997875	253	11087											
FAT2	2196	broad.mit.edu	37	chr5	150928856	150928856	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatggccaggcctctcacCtttcaggagggagtagtgga	8	9	13	11	0	3	0	3	0	1	0	4	3	3	3	3	5	0	1	3	5	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:150928856C>A	uc003lue.3	-	8	4802	c.4789G>T	c.(4789-4791)GGG>TGG	p.G1597W	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1597	Extracellular (Potential).|Cadherin 14.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGCCTCTCACCTTTCAGGAGG	0.527													7	19					1.26484e-09	1.43428e-09	0.00308	1	0		A	150928856	A	A	150928856	3	1	15	1	0	0	0	0	1	0	0	0	5704	695	24	5	8324	5	FAT2	5	150928856	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	11471	150928856	29986404	254	11088											
GALNT10	55568	broad.mit.edu	37	chr5	153760082	153760082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accatgacgactttcggtacGagacacaggcaggggatgcc	11	6	13	11	3	0	2	0	1	0	1	1	5	0	3	2	4	2	2	2	4	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:153760082G>A	uc003lvh.2	+	6	961	c.829G>A	c.(829-831)GAG>AAG	p.E277K	GALNT10_uc003lvg.1_Missense_Mutation_p.E277K|GALNT10_uc010jic.2_RNA|GALNT10_uc010jid.2_Missense_Mutation_p.E118K	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	277	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			CTTTCGGTACGAGACACAGGC	0.542													43	73					0	0	0.01441	0	0		A	153760082	A	A	153760082	3	1	15	1	0	0	0	0	1	0	0	0	6223	1059	37	1	851	1	GALNT10	5	153760082	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2831226	153760082	27155178	255	11089											
KIF4B	285643	broad.mit.edu	37	chr5	154395578	154395580	+	In_Frame_Del	DEL	AAC	-	-																															actcaaggatgctctccagaAacaacgagaggtcacagata																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:154395578_154395580delAAC	uc010jih.1	+	1	2319_2321	c.2159_2161delAAC	c.(2158-2163)AAACAA>AAA	p.Q721del		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	721	Interaction with PRC1 (By similarity).|Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			GCTCTCCAGAAACAACGAGAGGT	0.463													45	74	---	---	---	---						.	-	154395580	-	-	154395578	7	5	15	1	0	1	0	1	0	0	0	0	8320	14	1	0	2161	0	KIF4B	5	154395578	In_Frame_Del	DEL	AAC	TCGA-BR-4280-01A-01D-1126-08	635496	154395578	26519682	256	11090											
C5orf54	63920	broad.mit.edu	37	chr5	159821646	159821646	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagcatccctcagttttgtAggcaatgtctttatgacaag	11	13	9	8	0	2	2	1	1	1	1	3	2	3	2	1	1	1	4	1	1	4	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:159821646A>G	uc003lye.1	-	2	1316	c.852T>C	c.(850-852)CCT>CCC	p.P284P	C5orf54_uc003lyf.1_Silent_p.P284P	NM_022090	NP_071373	Q8IZ13	CE054_HUMAN	transposon-derived Buster3 transposase-like	284										pancreas(1)	1						tcagttttgtaggcaatgtct	0													4	177					0	0	0.009096	0	0		G	159821646	G	G	159821646	2	3	15	1	0	0	0	0	0	0	0	1	2313	407	15	3		3	C5orf54	5	159821646	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	5426068	159821646	21093614	257	11091											
CCDC99	54908	broad.mit.edu	37	chr5	169031164	169031164	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaattacaccctattctaTatgtgtcttctaaatctact	13	16	3	9	0	4	1	0	0	4	1	4	1	4	1	1	0	2	0	1	0	8	8			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:169031164T>C	uc003mae.3	+	12	2050	c.1771T>C	c.(1771-1773)TAT>CAT	p.Y591H	CCDC99_uc011deq.1_Missense_Mutation_p.Y408H|CCDC99_uc010jjk.2_Missense_Mutation_p.Y317H	NM_017785	NP_060255	Q96EA4	SPDLY_HUMAN	coiled-coil domain containing 99	591					cell division|establishment of mitotic spindle orientation|mitotic metaphase plate congression|mitotic prometaphase|protein localization to kinetochore	condensed chromosome outer kinetochore|cytosol|microtubule organizing center|nucleus|spindle pole	kinetochore binding|protein binding			ovary(1)|liver(1)	2	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCCTATTCTATATGTGTCTTC	0.368													47	59					0	0	0.01441	0	0		C	169031164	C	C	169031164	3	2	15	1	0	0	0	0	1	0	0	0	2879	1406	49	3	1813	3	CCDC99	5	169031164	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	9209518	169031164	11884096	258	11092											
DRD1	1812	broad.mit.edu	37	chr5	174869692	174869692	+	Frame_Shift_Del	DEL	G	-	-																															atcaggatgaaggctgccttGggggtcatctttctctcata																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:174869692delG	uc003mcz.2	-	2	1356	c.411delC	c.(409-411)CCCfs	p.P137fs		NM_000794	NP_000785	P21728	DRD1_HUMAN	dopamine receptor D1	137	Cytoplasmic (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|adult walking behavior|cerebral cortex GABAergic interneuron migration|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|mating behavior|positive regulation of cAMP biosynthetic process|positive regulation of cell migration|positive regulation of potassium ion transport|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of synaptic transmission, glutamatergic|prepulse inhibition|response to drug|synapse assembly|visual learning	endoplasmic reticulum membrane|membrane fraction	protein binding			ovary(2)|skin(1)	3	all_cancers(89;0.00895)|Renal(175;0.000159)|Lung NSC(126;0.00625)|all_lung(126;0.0104)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)		Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Carphenazine(DB01038)|Chlorprothixene(DB01239)|Clozapine(DB00363)|Cocaine(DB00907)|Dopamine(DB00988)|Fenoldopam(DB00800)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Methylergonovine(DB00353)|Minaprine(DB00805)|Olanzapine(DB00334)|Pegademase bovine(DB00061)|Pergolide(DB01186)|Perphenazine(DB00850)|Prochlorperazine(DB00433)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Triflupromazine(DB00508)|Zuclopenthixol(DB01624)	AGGCTGCCTTGGGGGTCATCT	0.537													39	80	---	---	---	---						.	-	174869692	-	-	174869692	7	5	15	1	0	1	0	1	0	0	0	0	4762	1335	47	0	933	0	DRD1	5	174869692	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	5838528	174869692	6045568	259	11093											
CDHR2	54825	broad.mit.edu	37	chr5	176017621	176017621	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctcatcagtgtcatcataGgattgggagtggctttgctg	8	13	13	7	0	4	0	4	0	0	0	4	2	4	2	0	3	2	3	0	3	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:176017621G>T	uc003mem.1	+	28	3538	c.3472G>T	c.(3472-3474)GGA>TGA	p.G1158*	CDHR2_uc003men.1_Nonsense_Mutation_p.G1158*	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	1158	Helical; (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						TGTCATCATAGGATTGGGAGT	0.562													4	64					1.23904e-05	1.35872e-05	0.000602	1	0		T	176017621	T	T	176017621	4	4	15	1	0	0	0	0	0	1	0	0	3122	1001	35	5	3578	5	CDHR2	5	176017621	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1147929	176017621	4897639	260	11094											
PROP1	5626	broad.mit.edu	37	chr5	177419842	177419842	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtgacaaagcaaaggcGcctcctgtggagggctggga	9	7	17	8	1	0	1	0	1	0	0	1	3	1	3	2	5	1	2	2	5	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:177419842G>A	uc003mif.1	-	3	858	c.549C>T	c.(547-549)GGC>GGT	p.G183G		NM_006261	NP_006252	O75360	PROP1_HUMAN	PROP paired-like homeobox 1	183					central nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(89;0.00176)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAGCAAAGGCGCCTCCTGTGG	0.652													8	6					0	0	0.008291	0	0		A	177419842	A	A	177419842	2	1	15	1	0	0	0	0	0	0	0	1	12579	1074	38	1		1	PROP1	5	177419842	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1402221	177419842	3495418	261	11095											
RUFY1	80230	broad.mit.edu	37	chr5	179036402	179036404	+	In_Frame_Del	DEL	TCT	-	-																															ctgccggaactgtggccacaTcttctgcaacacctgctcca																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:179036402_179036404delTCT	uc003mka.1	+	18	2009_2011	c.2009_2011delTCT	c.(2008-2013)ATCTTC>ATC	p.F671del	RUFY1_uc003mkb.1_In_Frame_Del_p.F563del|RUFY1_uc003mkc.1_In_Frame_Del_p.F563del|RUFY1_uc003mkd.1_In_Frame_Del_p.F273del	NM_025158	NP_079434	Q96T51	RUFY1_HUMAN	RUN and FYVE domain-containing 1 isoform a	671	FYVE-type.				endocytosis|protein transport	early endosome membrane	lipid binding|zinc ion binding			ovary(4)|breast(1)	5	all_cancers(89;0.00018)|all_epithelial(37;8.37e-05)|Renal(175;0.000159)|Lung NSC(126;0.00108)|all_lung(126;0.00195)	all_cancers(40;0.0322)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGTGGCCACATCTTCTGCAACAC	0.65										HNSCC(44;0.11)			21	42	---	---	---	---						.	-	179036404	-	-	179036402	7	5	15	1	0	1	0	1	0	0	0	0	13763	1435	50	0	2079	0	RUFY1	5	179036402	In_Frame_Del	DEL	TCT	TCGA-BR-4280-01A-01D-1126-08	1616560	179036402	1878858	262	11096											
FLT4	2324	broad.mit.edu	37	chr5	180046728	180046728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggatgccgaaagcggaggCttccaccaccttcccgaagg	9	6	13	13	3	0	0	0	0	0	0	2	4	2	2	5	4	2	1	5	4	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr5:180046728C>T	uc003mma.3	-	18	2663	c.2584G>A	c.(2584-2586)GCC>ACC	p.A862T	FLT4_uc003mlz.3_Missense_Mutation_p.A862T|FLT4_uc003mmb.1_Missense_Mutation_p.A395T	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	862	Cytoplasmic (Potential).|Protein kinase.				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	AAAGCGGAGGCTTCCACCACC	0.657									Congenital_Hereditary_Lymphedema				30	34					0	0	0.008361	0	0		T	180046728	T	T	180046728	3	4	15	1	0	0	0	0	1	0	0	0	5958	797	28	2	1567	2	FLT4	5	180046728	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1010326	180046728	868532	263	11097											
F13A1	2162	broad.mit.edu	37	chr6	6196106	6196106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaaccgaggcggggccaCaccgatacatgcctgcattg	9	7	12	13	3	0	1	0	1	0	0	0	3	0	1	4	3	4	1	4	3	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:6196106C>T	uc003mwv.2	-	10	1352	c.1229G>A	c.(1228-1230)TGT>TAT	p.C410Y	F13A1_uc011dib.1_Missense_Mutation_p.C347Y	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	410					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	GGCGGGGCCACACCGATACAT	0.512													7	16					0	0	0.00308	0	0		T	6196106	T	T	6196106	3	4	15	1	0	0	0	0	1	0	0	0	5348	478	17	4	993	4	F13A1	6	6196106	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08		6196106	164918961	264	11098											
PHACTR1	221692	broad.mit.edu	37	chr6	13283733	13283733	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactacgtggaggtggctgAcgctcaggactatgaccgca	9	8	14	10	3	1	3	1	3	0	0	1	5	1	5	1	4	1	3	1	4	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:13283733A>G	uc010jpc.2	+	13	1921	c.1589A>G	c.(1588-1590)GAC>GGC	p.D530G	PHACTR1_uc003nah.1_Missense_Mutation_p.D530G|TBC1D7_uc003naj.2_Intron|TBC1D7_uc011dis.1_Intron|uc003nak.1_Intron	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	530						cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			GAGGTGGCTGACGCTCAGGAC	0.597													23	55					0	0	0.00278	0	0		G	13283733	G	G	13283733	3	3	15	1	0	0	0	0	1	0	0	0	11828	275	10	3	1631	3	PHACTR1	6	13283733	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	7087627	13283733	157831334	265	11099											
CAP2	10486	broad.mit.edu	37	chr6	17507473	17507473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactttcagagagagaaaccGggggagtaacatgtttaatc	15	9	11	6	1	1	2	1	0	0	2	2	5	1	3	1	2	3	2	1	2	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:17507473G>A	uc003ncb.2	+	5	617	c.374G>A	c.(373-375)CGG>CAG	p.R125Q	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Missense_Mutation_p.R99Q|CAP2_uc011djb.1_Missense_Mutation_p.R125Q|CAP2_uc011djc.1_Intron|CAP2_uc011djd.1_Intron	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	125					activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			GAGAGAAACCGGGGGAGTAAC	0.493													33	33					0	0	0.013726	0	0		A	17507473	A	A	17507473	3	1	15	1	0	0	0	0	1	0	0	0	2623	1116	39	1	388	1	CAP2	6	17507473	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	4223740	17507473	153607594	266	11100											
HLA-B	3106	broad.mit.edu	37	chr6	31324898	31324898	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggccagggccgccgagAgcagcaggaggacggttcgg	8	3	19	11	4	1	1	1	0	0	1	2	4	1	3	3	6	2	3	3	6	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:31324898A>G	uc003nth.2	-	1	92	c.38T>C	c.(37-39)CTC>CCC	p.L13P	HLA-C_uc003ntb.2_5'Flank|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_5'Flank|HLA-B_uc011dnk.1_5'Flank|HLA-B_uc003ntf.2_Missense_Mutation_p.L13P|HLA-B_uc003ntg.1_5'Flank|HLA-B_uc003nti.1_5'Flank|HLA-B_uc010jsn.1_5'Flank|HLA-B_uc010jso.2_5'Flank	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B	13					antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						GGCCGCCGAGAGCAGCAGGAG	0.711									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				8	2					0	0	0.013537	0	0		G	31324898	G	G	31324898	3	3	15	1	0	0	0	0	1	0	0	0	7212	304	11	3	1078	3	HLA-B	6	31324898	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	13817425	31324898	139790169	267	11101											
AIF1	199	broad.mit.edu	37	chr6	31584639	31584639	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaaaaggaaaagccaacaGgccccccagccaagaaagct	18	1	10	12	0	0	2	0	0	0	2	0	4	0	3	5	2	4	1	5	2	7	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:31584639G>T	uc003nuy.2	+	6	480	c.406G>T	c.(406-408)GGC>TGC	p.G136C	AIF1_uc010jsy.2_3'UTR|AIF1_uc003nva.2_Missense_Mutation_p.G82C	NM_001623	NP_001614	P55008	AIF1_HUMAN	allograft inflammatory factor 1 isoform 3	136				KEKPTGPPAKKAISELP -> RKTNTPPSQESPI (in Ref. 2; AAA92457).	actin filament bundle assembly|cell cycle arrest|inflammatory response|negative regulation of cell proliferation	nucleus|ruffle membrane	actin filament binding|calcium ion binding			ovary(1)	1						AAAGCCAACAGGCCCCCCAGC	0.488													34	58					2.05212e-20	2.42683e-20	0.005524	1	0		T	31584639	T	T	31584639	3	4	15	1	0	0	0	0	1	0	0	0	424	1000	35	5	626	5	AIF1	6	31584639	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	259741	31584639	139530428	268	11102											
VARS	7407	broad.mit.edu	37	chr6	31760167	31760167	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctccaccctcgcctcAcctcccctggaggtggctgc	4	8	9	20	1	1	0	1	0	0	0	5	1	4	1	7	3	2	2	7	3	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:31760167A>G	uc003nxe.2	-	5	1209	c.786_splice	c.e5+1	p.E262_splice	VARS_uc011doi.1_Splice_Site	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase						translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	CCCTCGCCTCACCTCCCCTGG	0.532													28	29					0	0	0.010818	0	0		G	31760167	G	G	31760167	5	3	15	1	0	0	0	0	0	0	1	0	17149	173	6	3	3110	3	VARS	6	31760167	Splice_Site	SNP	A	TCGA-BR-4280-01A-01D-1126-08	175528	31760167	139354900	269	11103											
HSPA1L	3305	broad.mit.edu	37	chr6	31779676	31779676	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgatctccaccttgccgTgctggaacacccccacacag	9	7	8	17	2	1	1	0	1	1	0	2	3	1	2	5	1	3	1	5	1	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:31779676T>C	uc003nxh.2	-	2	257	c.74A>G	c.(73-75)CAC>CGC	p.H25R	HSPA1L_uc010jte.2_Missense_Mutation_p.H25R	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	25					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						CACCTTGCCGTGCTGGAACAC	0.607													27	48					0	0	0.008361	0	0		C	31779676	C	C	31779676	3	2	15	1	0	0	0	0	1	0	0	0	7426	1696	59	3	1855	3	HSPA1L	6	31779676	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	19509	31779676	139335391	270	11104											
PRRT1	80863	broad.mit.edu	37	chr6	32117114	32117114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagatgaaggagaagttcCgggcctcgcgtgaagcgatc	10	6	17	8	4	0	4	0	2	0	2	3	7	1	4	2	3	1	1	2	3	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:32117114C>T	uc003nzt.2	-	4	922	c.806G>A	c.(805-807)CGG>CAG	p.R269Q	PRRT1_uc003nzs.2_Missense_Mutation_p.R310Q|PRRT1_uc003nzu.2_Silent_p.P161P	NM_030651	NP_085154	Q99946	PRRT1_HUMAN	NG5 protein	269					response to biotic stimulus	integral to membrane				breast(1)	1						GGAGAAGTTCCGGGCCTCGCG	0.647													4	12					0	0	0.001984	0	0		T	32117114	T	T	32117114	3	4	15	1	0	0	0	0	1	0	0	0	12631	652	23	1	118	1	PRRT1	6	32117114	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	337438	32117114	138997953	271	11105											
USP49	25862	broad.mit.edu	37	chr6	41767603	41767603	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagccggagaacctgaggTagtctgtagatcattaactg	11	10	12	8	1	2	3	1	1	1	2	2	4	2	3	2	2	4	3	2	2	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:41767603T>C	uc003ori.2	-	6	1857	c.1635A>G	c.(1633-1635)CTA>CTG	p.L545L		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	545					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GAACCTGAGGTAGTCTGTAGA	0.488													40	75					0	0	0.009718	0	0		C	41767603	C	C	41767603	2	2	15	1	0	0	0	0	0	0	0	1	17106	1625	57	3		3	USP49	6	41767603	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	9650489	41767603	129347464	272	11106											
MRPL2	51069	broad.mit.edu	37	chr6	43022057	43022057	+	Frame_Shift_Del	DEL	G	-	-																															agcttcacgtaactcttcatGgggggtagtggccgaatctt																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:43022057delG	uc003ots.1	-	7	996	c.873delC	c.(871-873)CCCfs	p.P291fs	CUL7_uc011dvb.1_5'Flank|CUL7_uc003otq.2_5'Flank|CUL7_uc010jyh.2_5'Flank|KLC4_uc003otr.1_Intron	NM_015950	NP_057034	Q5T653	RM02_HUMAN	mitochondrial ribosomal protein L2 precursor	291					translation	mitochondrion|ribosome	structural constituent of ribosome				0		Ovarian(999;0.0014)	Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00708)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)	BRCA - Breast invasive adenocarcinoma(397;0.0026)		AACTCTTCATGGGGGGTAGTG	0.587													28	49	---	---	---	---						.	-	43022057	-	-	43022057	7	5	15	1	0	1	0	1	0	0	0	0	9803	1335	47	0	48	0	MRPL2	6	43022057	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	1254454	43022057	128093010	273	11107											
TTBK1	84630	broad.mit.edu	37	chr6	43252030	43252030	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggcgcggccccagcattGgacacagccatcaccagcag	10	4	11	16	2	1	0	1	0	0	0	1	1	1	1	4	3	3	2	4	3	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:43252030G>A	uc003ouq.1	+	14	3831	c.3552G>A	c.(3550-3552)TTG>TTA	p.L1184L		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	1184						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			CCCCAGCATTGGACACAGCCA	0.682													4	8					0	0	0.00308	0	0		A	43252030	A	A	43252030	2	1	15	1	0	0	0	0	0	0	0	1	16702	1339	47	4		4	TTBK1	6	43252030	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	229973	43252030	127863037	274	11108											
TMEM63B	55362	broad.mit.edu	37	chr6	44118039	44118039	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcctaccctcgctgggActgagcaggtgagttgagaa	8	9	13	11	1	0	3	0	3	0	1	2	5	1	4	2	2	3	4	2	2	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:44118039A>G	uc003owr.2	+	17	1663	c.1599A>G	c.(1597-1599)GGA>GGG	p.G533G	TMEM63B_uc003ows.2_Silent_p.G436G|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	533	Helical; (Potential).					integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			CCTCGCTGGGACTGAGCAGGT	0.587													28	31					0	0	0.012213	0	0		G	44118039	G	G	44118039	2	3	15	1	0	0	0	0	0	0	0	1	16216	262	10	3		3	TMEM63B	6	44118039	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	866009	44118039	126997028	275	11109											
MUT	4594	broad.mit.edu	37	chr6	49427150	49427151	+	Frame_Shift_Ins	INS	-	A	A																															tcaggtaatgaggtgaaagtINSaaaaaaagctgattcttagc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:49427150_49427151insA	uc003ozg.3	-	2	284_285	c.29_30insT	c.(28-30)TTAfs	p.L10fs		NM_000255	NP_000246	P22033	MUTA_HUMAN	methylmalonyl Coenzyme A mutase precursor	10					fatty acid beta-oxidation	mitochondrial matrix	cobalamin binding|metal ion binding|methylmalonyl-CoA mutase activity				0	Lung NSC(77;0.0376)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GAGGTGAAAGTAAAAAAAGCTG	0.416													23	53	---	---	---	---						.	A	49427151	A	A	49427150	7	5	15	1	0	1	1	0	0	0	0	0	10009	1635	57	0	2270	0	MUT	6	49427150	Frame_Shift_Ins	INS	-	TCGA-BR-4280-01A-01D-1126-08	5309111	49427150	121687917	276	11110											
ICK	22858	broad.mit.edu	37	chr6	52869977	52869977	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcgtacttggaagcccaGtctgtccggccatgcactgg	7	9	13	12	2	1	0	0	0	1	0	2	2	2	1	3	3	4	2	3	3	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:52869977G>A	uc003pbh.2	-	15	2359	c.1869C>T	c.(1867-1869)GAC>GAT	p.D623D	ICK_uc003pbi.2_Silent_p.D623D	NM_016513	NP_057597	Q9UPZ9	ICK_HUMAN	intestinal cell kinase	623					intracellular protein kinase cascade|multicellular organismal development	cytosol|nucleus	ATP binding|cyclin-dependent protein kinase activity|magnesium ion binding			ovary(1)|large_intestine(1)|lung(1)|kidney(1)|central_nervous_system(1)	5	Lung NSC(77;0.103)					TGGAAGCCCAGTCTGTCCGGC	0.577													41	50					0	0	0.01441	0	0		A	52869977	A	A	52869977	2	1	15	1	0	0	0	0	0	0	0	1	7500	1020	36	4		4	ICK	6	52869977	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3442827	52869977	118245090	277	11111											
BAI3	577	broad.mit.edu	37	chr6	70070837	70070837	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatttctctaaatgatgaTgaagaagaaaagggaacaaa	20	8	10	3	0	1	5	0	3	1	2	2	7	1	7	0	2	1	0	0	2	8	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:70070837T>C	uc003pev.3	+	29	4120	c.3672T>C	c.(3670-3672)GAT>GAC	p.D1224D	BAI3_uc010kak.2_Silent_p.D1224D|BAI3_uc011dxx.1_Silent_p.D430D	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1224	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TAAATGATGATGAAGAAGAAA	0.413													22	39					0	0	0.003954	0	0		C	70070837	C	C	70070837	2	2	15	1	0	0	0	0	0	0	0	1	1301	1461	51	3		3	BAI3	6	70070837	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	17200860	70070837	101044230	278	11112											
CD109	135228	broad.mit.edu	37	chr6	74472143	74472143	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtgaaaggagacgtaacGcttacatttttacctttatc	12	13	7	9	2	0	2	0	1	0	1	1	3	0	2	2	1	3	2	2	1	5	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:74472143G>A	uc003php.2	+	8	1220	c.795G>A	c.(793-795)ACG>ACA	p.T265T	CD109_uc010kaz.2_Silent_p.T265T|CD109_uc003phq.2_Silent_p.T265T|CD109_uc010kba.2_Silent_p.T188T	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	265						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						GAGACGTAACGCTTACATTTT	0.294													24	25					0	0	0.00632	0	0		A	74472143	A	A	74472143	2	1	15	1	0	0	0	0	0	0	0	1	2966	1074	38	1		1	CD109	6	74472143	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	4401306	74472143	96642924	279	11113											
COL12A1	1303	broad.mit.edu	37	chr6	75855832	75855832	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcacctctttgggtcttgTtggctctgtgtccttaacag	4	18	9	10	0	4	0	1	0	3	0	5	0	5	0	2	2	1	2	2	2	1	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:75855832T>C	uc003phs.2	-	24	4712	c.4546A>G	c.(4546-4548)ACA>GCA	p.T1516A	COL12A1_uc003pht.2_Missense_Mutation_p.T352A	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1516	Fibronectin type-III 10.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTGGGTCTTGTTGGCTCTGTG	0.433													6	61					0	0	0.001168	0	0		C	75855832	C	C	75855832	3	2	15	1	0	0	0	0	1	0	0	0	3672	1725	60	3	4817	3	COL12A1	6	75855832	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1383689	75855832	95259235	280	11114											
IBTK	25998	broad.mit.edu	37	chr6	82950021	82950021	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacactcctttctttccacaGgaggaaacaaggtggagggc	12	8	11	10	0	1	0	0	0	1	0	3	3	3	3	2	5	2	0	2	5	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:82950021G>T	uc003pjl.1	-	2	710	c.183C>A	c.(181-183)TCC>TCA	p.S61S	IBTK_uc011dyv.1_Silent_p.S61S|IBTK_uc011dyw.1_Silent_p.S61S|IBTK_uc010kbi.1_Translation_Start_Site|IBTK_uc003pjm.2_Silent_p.S61S	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	61	ANK 1.				negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		TCTTTCCACAGGAGGAAACAA	0.443													35	43					9.45814e-24	1.12403e-23	0.004878	1	0		T	82950021	T	T	82950021	2	4	15	1	0	0	0	0	0	0	0	1	7492	987	35	5		5	IBTK	6	82950021	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	7094189	82950021	88165046	281	11115											
SNAP91	9892	broad.mit.edu	37	chr6	84302947	84302947	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcatctggcttaggcgcTgcagcaacttcaggagtgga	9	8	14	10	1	2	0	1	0	1	0	2	2	2	2	0	4	4	6	0	4	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:84302947T>G	uc011dze.1	-	18	2045	c.1728A>C	c.(1726-1728)GCA>GCC	p.A576A	SNAP91_uc011dzd.1_Silent_p.A79A|SNAP91_uc003pkb.2_Intron|SNAP91_uc003pkc.2_Silent_p.A574A|SNAP91_uc003pkd.2_Intron|SNAP91_uc003pka.2_Silent_p.A574A	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	576	Ala-rich.				clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		GCTTAGGCGCTGCAGCAACTT	0.418													6	11					0	0	0.001984	0	0		G	84302947	G	G	84302947	2	3	15	1	0	0	0	0	0	0	0	1	14858	1567	55	5		5	SNAP91	6	84302947	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1352926	84302947	86812120	282	11116											
MDN1	23195	broad.mit.edu	37	chr6	90417112	90417115	+	Frame_Shift_Del	DEL	CTCT	-	-																															caaaggacattctcaaaacaCtctctcttagctttttgcta																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:90417112_90417115delCTCT	uc003pnn.1	-	52	8095_8098	c.7979_7982delAGAG	c.(7978-7983)GAGAGTfs	p.E2660fs		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2660_2661					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TCTCAAAACACTCTCTCTTAGCTT	0.348													20	42	---	---	---	---						.	-	90417115	-	-	90417112	7	5	15	1	0	1	0	1	0	0	0	0	9433	565	20	0	9012	0	MDN1	6	90417112	Frame_Shift_Del	DEL	CTCT	TCGA-BR-4280-01A-01D-1126-08	6114165	90417112	80697955	283	11117											
CASP8AP2	9994	broad.mit.edu	37	chr6	90577062	90577062	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctagagactcttaagtgCgagtctataccagcttgtac	10	12	9	10	1	2	1	0	0	2	1	2	3	2	1	1	0	5	3	1	0	5	6	rs147437828	by1000genomes	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:90577062C>T	uc003pnr.2	+	8	4249	c.4053C>T	c.(4051-4053)TGC>TGT	p.C1351C	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Silent_p.C1351C|CASP8AP2_uc011dzz.1_Silent_p.C1351C	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	1351					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		CTCTTAAGTGCGAGTCTATAC	0.408													20	28					0	0	0.00333	0	0		T	90577062	T	T	90577062	2	4	15	1	0	0	0	0	0	0	0	1	2681	776	27	1		1	CASP8AP2	6	90577062	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	159950	90577062	80538005	284	11118											
SFRS18	25957	broad.mit.edu	37	chr6	99857075	99857075	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggaggctcctgcttcacaGgaagtgcaataggtgaacgc	10	8	14	9	1	1	1	1	1	0	0	2	3	2	3	1	4	3	3	1	4	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:99857075G>T	uc003ppo.3	-	6	875	c.647C>A	c.(646-648)CCT>CAT	p.P216H	SFRS18_uc003ppp.3_Missense_Mutation_p.P216H|SFRS18_uc011eag.1_Missense_Mutation_p.P216H|SFRS18_uc003ppr.2_Missense_Mutation_p.P216H	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	216	Pro-rich.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		CTGCTTCACAGGAAGTGCAAT	0.443													6	24					0.000157383	0.00017161	0.00308	1	0		T	99857075	T	T	99857075	3	4	15	1	0	0	0	0	1	0	0	0	14199	1000	35	5	1798	5	SFRS18	6	99857075	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	9280013	99857075	71257992	285	11119											
MAN1A1	4121	broad.mit.edu	37	chr6	119670101	119670101	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgctgaataccagcagcaGcacgaacttctccgtcaggc	10	6	11	14	3	2	1	1	1	1	0	3	2	2	1	2	2	5	4	2	2	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:119670101G>A	uc003pym.1	-	2	572	c.130C>T	c.(130-132)CTG>TTG	p.L44L	MAN1A1_uc010kei.1_Silent_p.L44L	NM_005907	NP_005898	P33908	MA1A1_HUMAN	mannosidase, alpha, class 1A, member 1	44	Helical; Signal-anchor for type II membrane protein; (Potential).			KGSGPAALRLTEKFVLLLV -> MNSNFITFDLKMSLLPSN L (in Ref. 2; CAA52831).	post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_epithelial(87;0.173)		OV - Ovarian serous cystadenocarcinoma(136;0.0612)|GBM - Glioblastoma multiforme(226;0.0702)|all cancers(137;0.115)		ACCAGCAGCAGCACGAACTTC	0.507													5	4					0	0	0.001168	0	0		A	119670101	A	A	119670101	2	1	15	1	0	0	0	0	0	0	0	1	9228	962	34	2		2	MAN1A1	6	119670101	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	19813026	119670101	51444966	286	11120											
TAAR1	134864	broad.mit.edu	37	chr6	132966361	132966361	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaagggcaccagcatattAggaaaactcccatcacaatc	17	6	7	11	0	1	1	1	0	0	1	3	2	2	2	2	2	2	2	2	2	6	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:132966361A>G	uc003qdm.1	-	1	782	c.782T>C	c.(781-783)CTA>CCA	p.L261P		NM_138327	NP_612200	Q96RJ0	TAAR1_HUMAN	trace amine associated receptor 1	261	Helical; Name=6; (Potential).					plasma membrane					0	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00616)|GBM - Glioblastoma multiforme(226;0.0154)	Amphetamine(DB00182)	CCAGCATATTAGGAAAACTCC	0.378													42	81					0	0	0.011902	0	0		G	132966361	G	G	132966361	3	3	15	1	0	0	0	0	1	0	0	0	15514	420	15	3	241	3	TAAR1	6	132966361	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	13296260	132966361	38148706	287	11121											
ECT2L	345930	broad.mit.edu	37	chr6	139135710	139135710	+	Frame_Shift_Del	DEL	T	-	-																															tcaagaattcttattcgcaaTttttttaagatgcactaaat																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:139135710delT	uc003qif.1	+	2	252	c.149delT	c.(148-150)ATTfs	p.I50fs	ECT2L_uc011edq.1_5'UTR	NM_001077706	NP_001071174	Q008S8	ECT2L_HUMAN	epithelial cell transforming sequence 2	50					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0						TTATTCGCAATTTTTTTAAGA	0.338													12	17	---	---	---	---						.	-	139135710	-	-	139135710	7	5	15	1	0	1	0	1	0	0	0	0	4908	1493	52	0	155	0	ECT2L	6	139135710	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	6169349	139135710	31979357	288	11122											
TXLNB	167838	broad.mit.edu	37	chr6	139563701	139563701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggtgtcagccacgttgcGcggctggggcccagctgagg	5	8	17	11	3	1	1	1	1	0	0	1	1	1	1	2	5	3	3	2	5	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:139563701G>A	uc011eds.1	-	10	2182	c.2017C>T	c.(2017-2019)CGC>TGC	p.R673C		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	673						cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		GCCACGTTGCGCGGCTGGGGC	0.617													15	17					0	0	0.014323	0	0		A	139563701	A	A	139563701	3	1	15	1	0	0	0	0	1	0	0	0	16814	1087	38	1	41	1	TXLNB	6	139563701	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	427991	139563701	31551366	289	11123											
FBXO30	84085	broad.mit.edu	37	chr6	146126435	146126435	+	Frame_Shift_Del	DEL	T	-	-																															ttcacgtcccctaagtctacTtttttccaacacaattcacc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:146126435delT	uc003qla.2	-	2	1306	c.1107delA	c.(1105-1107)AAAfs	p.K369fs	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	369							ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		CTAAGTCTACTTTTTTCCAAC	0.393													58	99	---	---	---	---						.	-	146126435	-	-	146126435	7	5	15	1	0	1	0	1	0	0	0	0	5754	1606	56	0	1138	0	FBXO30	6	146126435	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	6562734	146126435	24988632	290	11124											
SHPRH	257218	broad.mit.edu	37	chr6	146240594	146240594	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcatcaacagcagacacacGattcctcagagccatccaat	14	8	5	14	1	3	2	3	0	0	2	5	3	5	2	3	0	3	1	3	0	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:146240594G>A	uc003qlf.2	-	22	4441	c.4042C>T	c.(4042-4044)CGT>TGT	p.R1348C	SHPRH_uc003qld.2_Missense_Mutation_p.R1352C|SHPRH_uc003qle.2_Missense_Mutation_p.R1352C|SHPRH_uc003qlg.1_Missense_Mutation_p.R904C|SHPRH_uc003qlh.2_Missense_Mutation_p.R273C|SHPRH_uc003qli.1_Missense_Mutation_p.R273C	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	1348					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		GCAGACACACGATTCCTCAGA	0.418													28	44					0	0	0.007835	0	0		A	146240594	A	A	146240594	3	1	15	1	0	0	0	0	1	0	0	0	14316	1058	37	1	1062	1	SHPRH	6	146240594	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	114159	146240594	24874473	291	11125											
TAB2	23118	broad.mit.edu	37	chr6	149700256	149700256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggagatgaacaggtcatgcGgaatcagcccacactcttca	13	7	10	11	1	4	2	3	1	1	1	4	4	4	3	1	3	3	0	1	3	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:149700256G>A	uc003qmj.2	+	3	1383	c.1205G>A	c.(1204-1206)CGG>CAG	p.R402Q	TAB2_uc011eec.1_Missense_Mutation_p.R370Q|TAB2_uc010kia.1_Missense_Mutation_p.R402Q|TAB2_uc010kib.1_Missense_Mutation_p.R402Q|TAB2_uc003qmk.3_RNA	NM_015093	NP_055908	Q9NYJ8	TAB2_HUMAN	mitogen-activated protein kinase kinase kinase 7	402					activation of MAPK activity|heart development|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	K63-linked polyubiquitin binding|zinc ion binding				0						CAGGTCATGCGGAATCAGCCC	0.512													22	28					0	0	0.005443	0	0		A	149700256	A	A	149700256	3	1	15	1	0	0	0	0	1	0	0	0	15521	1116	39	1	1211	1	TAB2	6	149700256	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3459662	149700256	21414811	292	11126											
LATS1	9113	broad.mit.edu	37	chr6	149983013	149983013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccattgtcatcaaaaaacCttcggaaggtaaattcatag	16	10	7	8	1	3	0	3	0	0	0	4	1	3	1	2	2	2	1	2	2	7	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:149983013C>T	uc003qmu.1	-	8	3793	c.3245G>A	c.(3244-3246)AGG>AAG	p.R1082K	LATS1_uc010kif.1_Missense_Mutation_p.R977K	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	1082	AGC-kinase C-terminal.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		ATCAAAAAACCTTCGGAAGGT	0.363													26	52					0	0	0.009535	0	0		T	149983013	T	T	149983013	3	4	15	1	0	0	0	0	1	0	0	0	8662	681	24	4	151	4	LATS1	6	149983013	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	282757	149983013	21132054	293	11127											
TULP4	56995	broad.mit.edu	37	chr6	158923753	158923753	+	Frame_Shift_Del	DEL	G	-	-																															ccaagtccaagggcgggcccGggggggtggtgacacagctc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:158923753delG	uc003qrf.2	+	13	4415	c.3058delG	c.(3058-3060)GGGfs	p.G1020fs	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	1020					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		GGGCGGGCCCGGGGGGGTGGT	0.721													2	4	---	---	---	---						.	-	158923753	-	-	158923753	7	5	15	1	0	1	0	1	0	0	0	0	16802	1116	39	0	3108	0	TULP4	6	158923753	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	8940740	158923753	12191314	294	11128											
FNDC1	84624	broad.mit.edu	37	chr6	159660894	159660895	+	Frame_Shift_Ins	INS	-	C	C																															cccacacccaccactcccatINSccccacctgtccccctggga																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr6:159660894_159660895insC	uc010kjv.2	+	14	4726_4727	c.4526_4527insC	c.(4525-4527)ATCfs	p.I1509fs	FNDC1_uc010kjw.1_Frame_Shift_Ins_p.I1394fs	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	1509	Thr-rich.					extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		accactcccatccccaccTGTC	0.252													4	4	---	---	---	---						.	C	159660895	C	C	159660894	7	5	15	1	0	1	1	0	0	0	0	0	5982	1435	50	0	4580	0	FNDC1	6	159660894	Frame_Shift_Ins	INS	-	TCGA-BR-4280-01A-01D-1126-08	737141	159660894	11454173	295	11129											
FOXK1	221937	broad.mit.edu	37	chr7	4794168	4794168	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgcagaacgtgacctcggaCctgcagctggcagcagagtt	9	7	14	11	2	0	3	0	1	0	2	1	4	0	4	2	2	5	6	2	2	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:4794168C>T	uc003snc.1	+	3	835	c.825C>T	c.(823-825)GAC>GAT	p.D275D	FOXK1_uc003sna.1_Silent_p.D112D|FOXK1_uc003snb.1_Silent_p.D275D	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	forkhead box K1	275					cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		TGACCTCGGACCTGCAGCTGG	0.642													18	24					0	0	0.012319	0	0		T	4794168	T	T	4794168	2	4	15	1	0	0	0	0	0	0	0	1	6028	506	18	4		4	FOXK1	7	4794168	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08		4794168	154344495	296	11130											
SNX13	23161	broad.mit.edu	37	chr7	17873707	17873707	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcggatcctctgaaactaGgatcttttaacatgtcaagc	12	12	7	10	1	3	1	1	1	2	0	5	3	4	3	1	2	3	0	1	2	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:17873707G>T	uc003stw.1	-	15	1778	c.1565C>A	c.(1564-1566)CCT>CAT	p.P522H	SNX13_uc003stv.2_Missense_Mutation_p.P522H|SNX13_uc010kuc.2_Missense_Mutation_p.P319H			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;	522					cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					TCTGAAACTAGGATCTTTTAA	0.373													8	13					5.18039e-06	5.71323e-06	0.00308	1	0		T	17873707	T	T	17873707	3	4	15	1	0	0	0	0	1	0	0	0	14909	1000	35	5	1356	5	SNX13	7	17873707	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	13079539	17873707	141264956	297	11131											
RAPGEF5	9771	broad.mit.edu	37	chr7	22184666	22184666	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacactagaaacttactgagCcgcaattttgatgaattttt	13	14	6	8	1	0	4	0	3	0	1	0	4	0	4	1	0	3	1	1	0	5	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:22184666C>T	uc003svg.2	-	20	2036	c.1723G>A	c.(1723-1725)GCT>ACT	p.A575T	RAPGEF5_uc011jyl.1_Missense_Mutation_p.A256T	NM_012294	NP_036426	Q92565	RPGF5_HUMAN	Rap guanine nucleotide exchange factor (GEF) 5	425	Ras-GEF.				nervous system development|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	nucleus	GTP-dependent protein binding|Rap guanyl-nucleotide exchange factor activity			ovary(1)	1						ACTTACTGAGCCGCAATTTTG	0.458													13	22					0	0	0.004007	0	0		T	22184666	T	T	22184666	3	4	15	1	0	0	0	0	1	0	0	0	13072	739	26	2	497	2	RAPGEF5	7	22184666	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	4310959	22184666	136953997	298	11132											
EVX1	2128	broad.mit.edu	37	chr7	27282961	27282961	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccccctcagtcgacagcctCtccggacaggggcaacccag	8	4	11	18	2	2	0	1	0	1	0	4	2	2	1	5	3	2	1	5	3	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:27282961C>T	uc003szd.1	+	1	798	c.312C>T	c.(310-312)CTC>CTT	p.L104L	EVX1_uc011jzn.1_5'UTR|EVX1_uc010kuy.1_Silent_p.L104L	NM_001989	NP_001980	P49640	EVX1_HUMAN	even-skipped homeobox 1	104						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						TCGACAGCCTCTCCGGACAGG	0.597													3	3					0	0	0.009096	0	0		T	27282961	T	T	27282961	2	4	15	1	0	0	0	0	0	0	0	1	5302	900	32	4		4	EVX1	7	27282961	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5098295	27282961	131855702	299	11133											
ZNRF2	223082	broad.mit.edu	37	chr7	30395357	30395357	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcagaggatgtactgagTaaagatgctggggaatgtgc	11	11	14	5	0	2	3	1	1	1	2	2	5	2	5	0	3	3	3	0	3	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:30395357T>C	uc003tat.2	+	3	1630	c.579T>C	c.(577-579)AGT>AGC	p.S193S		NM_147128	NP_667339	Q8NHG8	ZNRF2_HUMAN	zinc finger/RING finger 2	193						cell junction|endosome membrane|lysosomal membrane|presynaptic membrane	ligase activity|zinc ion binding				0						ATGTACTGAGTAAAGATGCTG	0.353													9	53					0	0	0.010729	0	0		C	30395357	C	C	30395357	2	2	15	1	0	0	0	0	0	0	0	1	18237	1635	57	3		3	ZNRF2	7	30395357	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	3112396	30395357	128743306	300	11134											
NPC1L1	29881	broad.mit.edu	37	chr7	44555476	44555476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgatcaggaggttgaggCggaagaagaagatctgaatg	14	7	17	3	1	2	6	1	3	1	3	2	9	2	8	0	4	0	1	0	4	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:44555476C>T	uc003tlb.2	-	19	3859	c.3803G>A	c.(3802-3804)CGC>CAC	p.R1268H	NPC1L1_uc003tlc.2_Missense_Mutation_p.R1241H|NPC1L1_uc011kbw.1_Missense_Mutation_p.R1195H|NPC1L1_uc003tla.2_Intron	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	1268	Cytoplasmic (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	GAGGTTGAGGCGGAAGAAGAA	0.602													11	30					0	0	0.001855	0	0		T	44555476	T	T	44555476	3	4	15	1	0	0	0	0	1	0	0	0	10590	768	27	1	284	1	NPC1L1	7	44555476	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	14160119	44555476	114583187	301	11135											
ZMIZ2	83637	broad.mit.edu	37	chr7	44806214	44806214	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctgccacaggcgtgatgggGccccccagcatgtctggagc	6	6	14	15	1	1	1	0	1	1	0	1	2	1	2	5	4	3	1	5	4	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:44806214G>C	uc003tlr.2	+	18	2730	c.2607G>C	c.(2605-2607)GGG>GGC	p.G869G	ZMIZ2_uc003tlq.2_Silent_p.G811G|ZMIZ2_uc003tls.2_Silent_p.G843G|ZMIZ2_uc003tlt.2_Silent_p.G492G|ZMIZ2_uc010kyj.2_Silent_p.G391G|ZMIZ2_uc003tlu.2_Silent_p.G150G|ZMIZ2_uc010kyk.1_5'Flank	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	869	Pro-rich.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						GCGTGATGGGGCCCCCCAGCA	0.667													10	8					0	0	0.006122	0	0		C	44806214	C	C	44806214	2	2	15	1	0	0	0	0	0	0	0	1	17722	1190	42	5		5	ZMIZ2	7	44806214	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	250738	44806214	114332449	302	11136											
TNS3	64759	broad.mit.edu	37	chr7	47467961	47467961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgatatgaccactcctatgCgtcctttcccgccctgcagg	7	11	8	15	2	0	2	0	2	0	0	3	2	3	2	5	1	2	1	5	1	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:47467961C>T	uc003tnv.2	-	9	705	c.338G>A	c.(337-339)CGC>CAC	p.R113H	TNS3_uc003tnw.2_Missense_Mutation_p.R113H|TNS3_uc010kyo.1_Missense_Mutation_p.R113H	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	113	Phosphatase tensin-type.					focal adhesion	protein binding			ovary(4)	4						CACTCCTATGCGTCCTTTCCC	0.478													28	52					0	0	0.003755	0	0		T	47467961	T	T	47467961	3	4	15	1	0	0	0	0	1	0	0	0	16369	768	27	1	4091	1	TNS3	7	47467961	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2661747	47467961	111670702	303	11137											
PKD1L1	168507	broad.mit.edu	37	chr7	47851451	47851451	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtactgcagggctgagtcGctgcggaagatgctgaatga	9	9	16	7	2	0	4	0	3	0	1	1	5	0	5	0	3	4	5	0	3	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:47851451G>A	uc003tny.1	-	50	7545	c.7545C>T	c.(7543-7545)AGC>AGT	p.S2515S	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron|PKD1L1_uc003tob.2_Silent_p.S242S	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2515	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GGGCTGAGTCGCTGCGGAAGA	0.612													9	11					0	0	0.008291	0	0		A	47851451	A	A	47851451	2	1	15	1	0	0	0	0	0	0	0	1	11983	1078	38	1		1	PKD1L1	7	47851451	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	383490	47851451	111287212	304	11138											
FGL2	10875	broad.mit.edu	37	chr7	76828797	76828797	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcctgggtctccgttgTcatcagcctgcagcttgcag	4	13	11	13	1	4	0	2	0	2	0	5	0	4	0	3	1	5	4	3	1	0	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:76828797T>C	uc003ugb.2	-	1	354	c.314A>G	c.(313-315)GAC>GGC	p.D105G	CCDC146_uc003ufz.1_Intron|CCDC146_uc003uga.2_Intron	NM_006682	NP_006673	Q14314	FGL2_HUMAN	fibrinogen-like 2 precursor	105	Potential.				signal transduction	fibrinogen complex	receptor binding			skin(2)	2						GTCTCCGTTGTCATCAGCCTG	0.473													42	52					0	0	0.01441	0	0		C	76828797	C	C	76828797	3	2	15	1	0	0	0	0	1	0	0	0	5887	1667	58	3	1013	3	FGL2	7	76828797	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	28977346	76828797	82309866	305	11139											
PCLO	27445	broad.mit.edu	37	chr7	82544043	82544043	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggaagtcatccatgatgAatgctatgtcacggtcatag	11	12	11	7	1	3	2	3	2	0	0	4	3	4	3	1	2	1	2	1	2	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:82544043A>C	uc003uhx.2	-	7	13548	c.13259T>G	c.(13258-13260)TTC>TGC	p.F4420C	PCLO_uc003uhv.2_Missense_Mutation_p.F4420C|PCLO_uc010lec.2_Missense_Mutation_p.F1385C	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4351					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ATCCATGATGAATGCTATGTC	0.453													12	23					0	0	0.013537	0	0		C	82544043	C	C	82544043	3	2	15	1	0	0	0	0	1	0	0	0	11602	246	9	5	2262	5	PCLO	7	82544043	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	5715246	82544043	76594620	306	11140											
PCLO	27445	broad.mit.edu	37	chr7	82580251	82580251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccagttccaggagctcaCgctccaagtctagctgctgc	7	10	9	15	1	3	0	1	0	2	0	6	1	5	1	3	1	4	5	3	1	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:82580251C>T	uc003uhx.2	-	6	9942	c.9653G>A	c.(9652-9654)CGT>CAT	p.R3218H	PCLO_uc003uhv.2_Missense_Mutation_p.R3218H|PCLO_uc010lec.2_Missense_Mutation_p.R183H	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3149	Gln-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CAGGAGCTCACGCTCCAAGTC	0.458													26	41					0	0	0.00632	0	0		T	82580251	T	T	82580251	3	4	15	1	0	0	0	0	1	0	0	0	11602	536	19	1	5872	1	PCLO	7	82580251	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	36208	82580251	76558412	307	11141											
ABCB4	5244	broad.mit.edu	37	chr7	87032472	87032472	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcactttcagtatccagAgctgatgtagcttcatccaa	10	15	6	10	0	3	2	3	1	0	1	5	2	5	2	2	0	2	4	2	0	3	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:87032472A>C	uc003uiv.1	-	27	3709	c.3633T>G	c.(3631-3633)GCT>GCG	p.A1211A	ABCB4_uc003uiw.1_Silent_p.A1204A|ABCB4_uc003uix.1_Silent_p.A1157A	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	1211	ABC transporter 2.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CAGTATCCAGAGCTGATGTAG	0.433													42	81					0	0	0.01441	0	0		C	87032472	C	C	87032472	2	2	15	1	0	0	0	0	0	0	0	1	43	291	11	5		5	ABCB4	7	87032472	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	4452221	87032472	72106191	308	11142											
STEAP2	261729	broad.mit.edu	37	chr7	89856641	89856641	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagctgcttatcaactttaTtacggcaccaagtataggag	12	11	9	9	1	1	0	1	0	0	0	1	1	1	1	1	2	4	5	1	2	7	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:89856641T>C	uc003ujz.2	+	3	1242	c.849T>C	c.(847-849)TAT>TAC	p.Y283Y	STEAP2_uc003ujy.2_Silent_p.Y325Y|STEAP2_uc010len.2_Silent_p.Y283Y|STEAP2_uc003uka.2_Silent_p.Y283Y|STEAP2_uc003ukb.2_Silent_p.Y283Y|STEAP2_uc003ukc.2_Silent_p.Y283Y|STEAP2_uc003ukd.2_Silent_p.Y283Y	NM_152999	NP_694544	Q8NFT2	STEA2_HUMAN	six transmembrane epithelial antigen of the	283	Ferric oxidoreductase.				electron transport chain|endocytosis|Golgi to plasma membrane transport|ion transport|iron ion homeostasis|regulated secretory pathway|response to hormone stimulus	cytosol|early endosome|endosome membrane|integral to Golgi membrane|plasma membrane|trans-Golgi network transport vesicle|vesicular fraction	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity|transporter activity			ovary(2)	2	all_hematologic(106;0.112)					ATCAACTTTATTACGGCACCA	0.408													36	55					0	0	0.00623	0	0		C	89856641	C	C	89856641	2	2	15	1	0	0	0	0	0	0	0	1	15303	1500	52	3		3	STEAP2	7	89856641	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2824169	89856641	69282022	309	11143											
AKAP9	10142	broad.mit.edu	37	chr7	91712572	91712572	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagagaaattgtccatttTagaaaaagaagatgagactg	20	9	9	3	0	0	5	0	1	0	5	1	7	1	5	1	0	0	0	1	0	7	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:91712572T>C	uc003ulg.2	+	33	8474	c.8249T>C	c.(8248-8250)TTA>TCA	p.L2750S	AKAP9_uc003ulf.2_Missense_Mutation_p.L2742S|AKAP9_uc003uli.2_Missense_Mutation_p.L2373S|AKAP9_uc003ulj.2_Missense_Mutation_p.L520S|AKAP9_uc003ulk.2_Missense_Mutation_p.L25S	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2762	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTGTCCATTTTAGAAAAAGAA	0.383			T	BRAF	papillary thyroid								49	50					0	0	0.01441	0	0		C	91712572	C	C	91712572	3	2	15	1	0	0	0	0	1	0	0	0	459	1764	61	3	8379	3	AKAP9	7	91712572	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1855931	91712572	67426091	310	11144											
COL1A2	1278	broad.mit.edu	37	chr7	94056940	94056940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcactttcacctttgcaggGcccccctggtccccctggcc	3	10	8	20	0	2	0	2	0	0	0	3	0	3	0	7	3	1	1	7	3	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:94056940G>A	uc003ung.1	+	49	3740	c.3269G>A	c.(3268-3270)GGC>GAC	p.G1090D	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1090					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CCTTTGCAGGGCCCCCCTGGT	0.532										HNSCC(75;0.22)			30	42					0	0	0.003755	0	0		A	94056940	A	A	94056940	3	1	15	1	0	0	0	0	1	0	0	0	3681	1217	42	2	3463	2	COL1A2	7	94056940	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2344368	94056940	65081723	311	11145											
DLX6	1750	broad.mit.edu	37	chr7	96639211	96639211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagggctcggcggccctgtCgccacgctcgccagcgctgc	3	5	14	19	6	0	0	0	0	0	0	3	0	0	0	4	3	2	3	4	3	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:96639211C>T	uc003uom.2	+	4	650	c.650C>T	c.(649-651)TCG>TTG	p.S217L	DLX6AS_uc003uol.2_Intron|DLX6AS_uc010lfo.1_Intron	NM_005222	NP_005213	P56179	DLX6_HUMAN	distal-less homeobox 6	127					nervous system development|skeletal system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					GCGGCCCTGTCGCCACGCTCG	0.577													10	13					0	0	0.010729	0	0		T	96639211	T	T	96639211	3	4	15	1	0	0	0	0	1	0	0	0	4581	893	31	1	744	1	DLX6	7	96639211	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2582271	96639211	62499452	312	11146											
TRRAP	8295	broad.mit.edu	37	chr7	98567799	98567799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaaggagccatgctccCgtccatcaccaacgtcatca	10	7	7	17	2	3	0	3	0	0	0	5	1	5	1	5	1	4	1	5	1	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:98567799C>T	uc003upp.2	+	51	7765	c.7556C>T	c.(7555-7557)CCG>CTG	p.P2519L	TRRAP_uc011kis.1_Missense_Mutation_p.P2501L|TRRAP_uc003upr.2_Missense_Mutation_p.P2218L	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2519					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GCCATGCTCCCGTCCATCACC	0.627													13	23					0	0	0.008871	0	0		T	98567799	T	T	98567799	3	4	15	1	0	0	0	0	1	0	0	0	16627	652	23	1	7696	1	TRRAP	7	98567799	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1928588	98567799	60570864	313	11147											
LRRN3	54674	broad.mit.edu	37	chr7	110762919	110762919	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaaaaagtggattgtccaCggttatgtacgtgtgaaatc	14	12	10	5	2	0	1	0	1	0	0	2	2	1	2	1	2	1	2	1	2	6	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:110762919C>A	uc003vft.3	+	4	1137	c.91C>A	c.(91-93)CGG>AGG	p.R31R	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Silent_p.R31R|LRRN3_uc003vfs.3_Silent_p.R31R	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	31	Extracellular (Potential).|LRRNT.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		GGATTGTCCACGGTTATGTAC	0.408													4	65					1.23904e-05	1.35872e-05	0.000602	1	0		A	110762919	A	A	110762919	2	1	15	1	0	0	0	0	0	0	0	1	9054	527	19	5		5	LRRN3	7	110762919	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	12195120	110762919	48375744	314	11148											
FOXP2	93986	broad.mit.edu	37	chr7	114269985	114269985	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagcaacaacaacaacaAcagcagcaacaacagcagca	21	0	6	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	6	0	0	7	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:114269985A>G	uc003vhb.2	+	5	896	c.522A>G	c.(520-522)CAA>CAG	p.Q174Q	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Silent_p.Q199Q|FOXP2_uc003vha.2_Silent_p.Q82Q|FOXP2_uc011kmu.1_Silent_p.Q191Q|FOXP2_uc011kmv.1_Silent_p.Q174Q|FOXP2_uc010ljz.1_Silent_p.Q82Q|FOXP2_uc003vgt.1_RNA|FOXP2_uc003vgv.1_Silent_p.Q174Q|FOXP2_uc003vgx.2_Silent_p.Q174Q|FOXP2_uc003vhd.2_Silent_p.Q174Q|FOXP2_uc003vhc.2_Silent_p.Q199Q	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	174	Gln-rich.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding	p.Q174*(1)		ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						aacaacaacaacagcagcaac	0.164													3	20					0	0	0.008291	0	0		G	114269985	G	G	114269985	2	3	15	1	0	0	0	0	0	0	0	1	6041	40	2	3		3	FOXP2	7	114269985	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	3507066	114269985	44868678	315	11149											
SPAM1	6677	broad.mit.edu	37	chr7	123594028	123594028	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagacattacattttataTgccagtagacaatttgggaa	16	12	8	5	0	0	2	0	0	0	2	0	4	0	3	1	1	2	1	1	1	7	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:123594028T>C	uc003vld.2	+	4	806	c.404T>C	c.(403-405)ATG>ACG	p.M135T	SPAM1_uc003vle.2_Missense_Mutation_p.M135T|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.M135T|SPAM1_uc010lku.2_Missense_Mutation_p.M135T	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	135					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	ACATTTTATATGCCAGTAGAC	0.398													42	68					0	0	0.01441	0	0		C	123594028	C	C	123594028	3	2	15	1	0	0	0	0	1	0	0	0	15011	1464	51	3	406	3	SPAM1	7	123594028	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	9324043	123594028	35544635	316	11150											
OPN1SW	611	broad.mit.edu	37	chr7	128415565	128415565	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtatccgttacagctggCgacgaagacagggaagacag	14	5	14	8	3	0	2	0	0	0	2	1	6	1	3	1	2	2	3	1	2	5	2	rs144400933		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:128415565C>T	uc003vnt.3	-	1	280	c.280G>A	c.(280-282)GCC>ACC	p.A94T		NM_001708	NP_001699	P03999	OPSB_HUMAN	opsin 1 (cone pigments), short-wave-sensitive	94	Helical; Name=2; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0						TTACAGCTGGCGACGAAGACA	0.552													34	56					0	0	0.01441	0	0		T	128415565	T	T	128415565	3	4	15	1	0	0	0	0	1	0	0	0	10899	768	27	1	786	1	OPN1SW	7	128415565	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	4821537	128415565	30723098	317	11151											
FLNC	2318	broad.mit.edu	37	chr7	128489424	128489424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccagattgggcaggagaCggtgatcacggtggatgcca	11	7	15	8	2	1	3	1	1	0	2	2	5	2	4	2	5	1	1	2	5	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:128489424C>T	uc003vnz.3	+	30	5200	c.4991C>T	c.(4990-4992)ACG>ATG	p.T1664M	FLNC_uc003voa.3_Missense_Mutation_p.T1664M	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1664	Filamin 15.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GGGCAGGAGACGGTGATCACG	0.642													10	14					0	0	0.010729	0	0		T	128489424	T	T	128489424	3	4	15	1	0	0	0	0	1	0	0	0	5949	536	19	1	5109	1	FLNC	7	128489424	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	73859	128489424	30649239	318	11152											
MEST	4232	broad.mit.edu	37	chr7	130144785	130144785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttctcttccactaggaaaaCgctgccgcggtccacagtgt	8	10	10	13	3	1	0	0	0	1	0	4	1	3	1	3	2	2	2	3	2	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:130144785C>T	uc003vqg.2	+	12	1113	c.896C>T	c.(895-897)ACG>ATG	p.T299M	MEST_uc003vqc.2_Missense_Mutation_p.T290M|MEST_uc003vqd.2_Missense_Mutation_p.T256M|MEST_uc003vqf.2_Missense_Mutation_p.T290M|MEST_uc011kph.1_Missense_Mutation_p.T285M|MEST_uc010lmg.2_Missense_Mutation_p.R278C	NM_002402	NP_002393	Q5EB52	MEST_HUMAN	mesoderm specific transcript isoform a	299					mesoderm development	endoplasmic reticulum membrane|integral to membrane	hydrolase activity|protein binding			ovary(2)	2	Melanoma(18;0.0435)					ACTAGGAAAACGCTGCCGCGG	0.537													24	44					0	0	0.00278	0	0		T	130144785	T	T	130144785	3	4	15	1	0	0	0	0	1	0	0	0	9502	536	19	1	942	1	MEST	7	130144785	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1655361	130144785	28993878	319	11153											
TAS2R38	5726	broad.mit.edu	37	chr7	141673000	141673001	+	Frame_Shift_Ins	INS	-	A	A																															actgtgaagtgaggtctgctINSaaaaaagcaccaaacacaga																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:141673000_141673001insA	uc003vwx.1	-	1	573_574	c.489_490insT	c.(487-492)TTTAGCfs	p.F163fs		NM_176817	NP_789787	P59533	T2R38_HUMAN	taste receptor, type 2, member 38	163_164	Extracellular (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			kidney(1)|skin(1)	2	Melanoma(164;0.0171)					TGAGGTCTGCTAAAAAAGCACC	0.426													20	44	---	---	---	---						.	A	141673001	A	A	141673000	7	5	15	1	0	1	1	0	0	0	0	0	15600	1522	53	0	515	0	TAS2R38	7	141673000	Frame_Shift_Ins	INS	-	TCGA-BR-4280-01A-01D-1126-08	11528215	141673000	17465663	320	11154											
TAS2R40	259286	broad.mit.edu	37	chr7	142919775	142919775	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttttctataacatggggAtcttcgttcctctgatcatg	8	18	7	8	1	4	1	1	1	3	0	6	2	5	2	1	2	1	1	1	2	3	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:142919775A>G	uc011ksx.1	+	1	604	c.604A>G	c.(604-606)ATC>GTC	p.I202V		NM_176882	NP_795363	P59535	T2R40_HUMAN	taste receptor, type 2, member 40	202	Helical; Name=5; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			ovary(1)	1	Melanoma(164;0.059)					TAACATGGGGATCTTCGTTCC	0.493													5	104					0	0	0.000602	0	0		G	142919775	G	G	142919775	3	3	15	1	0	0	0	0	1	0	0	0	15603	333	12	3	606	3	TAS2R40	7	142919775	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1246775	142919775	16218888	321	11155											
TAS2R60	338398	broad.mit.edu	37	chr7	143141266	143141266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccgagagcccagtgtgcagGcacacataaaggctctgctg	10	7	12	12	1	1	1	0	0	1	1	2	2	2	1	2	2	3	4	2	2	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:143141266G>A	uc011ktg.1	+	1	721	c.721G>A	c.(721-723)GCA>ACA	p.A241T	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	241	Helical; Name=6; (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					CAGTGTGCAGGCACACATAAA	0.473													21	82					0	0	0.014323	0	0		A	143141266	A	A	143141266	3	1	15	1	0	0	0	0	1	0	0	0	15610	1203	42	2	723	2	TAS2R60	7	143141266	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	221491	143141266	15997397	322	11156											
CNTNAP2	26047	broad.mit.edu	37	chr7	146536934	146536934	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattgggtgacccaatacCggatgctctacagcgacaca	12	7	10	12	2	1	2	0	1	1	1	1	4	1	3	2	2	4	1	2	2	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:146536934C>A	uc003weu.1	+	3	856	c.340C>A	c.(340-342)CGG>AGG	p.R114R		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	114	F5/8 type C.|Extracellular (Potential).		R -> Q.		behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GACCCAATACCGGATGCTCTA	0.473										HNSCC(39;0.1)			19	26					1.87028e-06	2.07929e-06	0.012319	1	0		A	146536934	A	A	146536934	2	1	15	1	0	0	0	0	0	0	0	1	3650	643	23	5		5	CNTNAP2	7	146536934	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3395668	146536934	12601729	323	11157											
MLL3	58508	broad.mit.edu	37	chr7	151871239	151871239	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcaccattggtggcatGcccagattgttttgtgccat	7	14	9	11	0	2	1	2	0	0	1	2	1	2	1	3	2	2	2	3	2	0	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:151871239G>A	uc003wla.2	-	39	9570	c.9351C>T	c.(9349-9351)GGC>GGT	p.G3117G	MLL3_uc003wkz.2_Silent_p.G2178G|MLL3_uc003wky.2_Silent_p.G626G	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3117	Gln-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTGGTGGCATGCCCAGATTGT	0.373			N		medulloblastoma								26	31					0	0	0.009535	0	0		A	151871239	A	A	151871239	2	1	15	1	0	0	0	0	0	0	0	1	9640	1306	46	2		2	MLL3	7	151871239	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	5334305	151871239	7267424	324	11158											
HTR5A	3361	broad.mit.edu	37	chr7	154875885	154875885	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaggactctgccaaacaGccccagatggtgttcacggt	10	8	12	11	1	2	2	1	1	1	1	2	3	2	3	3	3	3	1	3	3	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr7:154875885G>T	uc003wlu.1	+	2	826	c.762G>T	c.(760-762)CAG>CAT	p.Q254H		NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	254	Cytoplasmic (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		CTGCCAAACAGCCCCAGATGG	0.617													7	22					0.00307968	0.00330945	0.00308	1	0		T	154875885	T	T	154875885	3	4	15	1	0	0	0	0	1	0	0	0	7466	962	34	5	768	5	HTR5A	7	154875885	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3004646	154875885	4262778	325	11159											
TNKS	8658	broad.mit.edu	37	chr8	9609294	9609294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggccctttagcagagttggCcgtaggaggagcctccaatg	8	9	14	10	1	0	1	0	0	0	1	1	3	1	3	4	4	2	3	4	4	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:9609294C>T	uc003wss.2	+	19	3013	c.3008C>T	c.(3007-3009)GCC>GTC	p.A1003V	TNKS_uc011kww.1_Missense_Mutation_p.A766V|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1003					mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		GCAGAGTTGGCCGTAGGAGGA	0.547													35	63					0	0	0.003271	0	0		T	9609294	T	T	9609294	3	4	15	1	0	0	0	0	1	0	0	0	16344	739	26	2	3082	2	TNKS	8	9609294	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08		9609294	136754728	326	11160											
ADAM7	8756	broad.mit.edu	37	chr8	24304725	24304725	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgaagaagaattgttgtaTgaaataaaactaaatagaaa	22	11	7	1	0	0	5	0	2	0	3	0	5	0	5	0	0	1	2	0	0	12	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:24304725T>C	uc003xeb.2	+	3	296	c.183T>C	c.(181-183)TAT>TAC	p.Y61Y	ADAM7_uc003xea.1_Silent_p.Y61Y	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	61	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		AATTGTTGTATGAAATAAAAC	0.343													6	159					0	0	0.001984	0	0		C	24304725	C	C	24304725	2	2	15	1	0	0	0	0	0	0	0	1	251	1471	51	3		3	ADAM7	8	24304725	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	14695431	24304725	122059297	327	11161											
GPR124	25960	broad.mit.edu	37	chr8	37691605	37691605	+	Frame_Shift_Del	DEL	G	-	-																															tgggtgccctggagcgcattGggggggccgccctcagcccc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:37691605delG	uc003xkj.2	+	11	1930	c.1567delG	c.(1567-1569)GGGfs	p.G523fs	GPR124_uc010lvy.2_Frame_Shift_Del_p.G523fs	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	523	Extracellular (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			GGAGCGCATTGGGGGGGCCGC	0.687													20	23	---	---	---	---						.	-	37691605	-	-	37691605	7	5	15	1	0	1	0	1	0	0	0	0	6653	1348	47	0	1588	0	GPR124	8	37691605	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	13386880	37691605	108672417	328	11162											
PRKDC	5591	broad.mit.edu	37	chr8	48848299	48848299	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgcaaacttacccacagtActaatgcaattcctgagaac	15	10	5	11	0	0	1	0	1	0	1	1	2	1	1	2	0	6	3	2	0	6	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:48848299A>G	uc003xqi.2	-	13	1497	c.1440T>C	c.(1438-1440)AGT>AGC	p.S480S	PRKDC_uc003xqj.2_Silent_p.S480S|PRKDC_uc011ldh.1_Silent_p.S480S	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	480					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TACCCACAGTACTAATGCAAT	0.373								NHEJ					5	89					0	0	0.000602	0	0		G	48848299	G	G	48848299	2	3	15	1	0	0	0	0	0	0	0	1	12543	388	14	3		3	PRKDC	8	48848299	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	11156694	48848299	97515723	329	11163											
XKR4	114786	broad.mit.edu	37	chr8	56015465	56015465	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtggactactacctgcgCggccagcgctggtggttcgg	4	8	16	13	5	0	0	0	0	0	0	1	1	0	1	3	5	4	2	3	5	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:56015465C>T	uc003xsf.2	+	1	449	c.417C>T	c.(415-417)CGC>CGT	p.R139R		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	139						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			ACTACCTGCGCGGCCAGCGCT	0.632													13	24					0	0	0.003163	0	0		T	56015465	T	T	56015465	2	4	15	1	0	0	0	0	0	0	0	1	17459	755	27	1		1	XKR4	8	56015465	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	7167166	56015465	90348557	330	11164											
VCPIP1	80124	broad.mit.edu	37	chr8	67577294	67577294	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcccaaattcacctggaaAgtgcttggtaacaagtttca	13	11	7	10	0	2	0	2	0	0	0	3	1	3	1	2	2	2	3	2	2	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:67577294A>C	uc003xwn.2	-	1	2159	c.1900T>G	c.(1900-1902)TTT>GTT	p.F634V	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	634					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			TCACCTGGAAAGTGCTTGGTA	0.368													73	123					0	0	0.01441	0	0		C	67577294	C	C	67577294	3	2	15	1	0	0	0	0	1	0	0	0	17167	72	3	5	1780	5	VCPIP1	8	67577294	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	11561829	67577294	78786728	331	11165											
ARFGEF1	10565	broad.mit.edu	37	chr8	68111330	68111330	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagaatgatgcatgagcttTaaactgcagggaaaatgaat	16	10	11	4	0	0	4	0	3	0	1	0	5	0	5	0	1	4	4	0	1	7	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:68111330T>C	uc003xxo.1	-	39	5779	c.5389A>G	c.(5389-5391)AAA>GAA	p.K1797E	ARFGEF1_uc003xxl.1_Intron|ARFGEF1_uc003xxm.1_Missense_Mutation_p.K200E|ARFGEF1_uc003xxn.1_Missense_Mutation_p.K742E|ARFGEF1_uc003xxp.1_3'UTR	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	1797					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GCATGAGCTTTAAACTGCAGG	0.403													45	66					0	0	0.01441	0	0		C	68111330	C	C	68111330	3	2	15	1	0	0	0	0	1	0	0	0	852	1763	61	3	164	3	ARFGEF1	8	68111330	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	534036	68111330	78252692	332	11166											
C8orf34	116328	broad.mit.edu	37	chr8	69434189	69434189	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaaagtgaagatagtggCtctagtcctgcaggaaggtg	11	9	16	5	0	1	2	0	1	1	1	2	4	2	4	1	4	1	2	1	4	5	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:69434189C>T	uc010lyz.2	+	6	712	c.663C>T	c.(661-663)GGC>GGT	p.G221G	C8orf34_uc010lyy.1_Silent_p.G221G|C8orf34_uc003xyb.2_Silent_p.G196G	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	221					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			AAGATAGTGGCTCTAGTCCTG	0.403													33	47					0	0	0.00623	0	0		T	69434189	T	T	69434189	2	4	15	1	0	0	0	0	0	0	0	1	2425	784	28	2		2	C8orf34	8	69434189	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1322859	69434189	76929833	333	11167											
EYA1	2138	broad.mit.edu	37	chr8	72123448	72123448	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataacaacatacaccactttTcttccaaacctttgaattat	15	14	1	11	0	1	1	0	1	1	0	2	1	2	1	3	0	4	0	3	0	6	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:72123448T>C	uc003xys.3	-	16	1928	c.1641A>G	c.(1639-1641)AGA>AGG	p.R547R	EYA1_uc003xyr.3_Silent_p.R512R|EYA1_uc003xyt.3_Silent_p.R514R|EYA1_uc010lzf.2_Silent_p.R474R|EYA1_uc003xyu.2_Silent_p.R547R|EYA1_uc011lfe.1_Silent_p.R541R|EYA1_uc003xyv.2_Silent_p.R425R	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	547			R -> G (in anterior segment anomalies; with cataract).		double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			ACACCACTTTTCTTCCAAACC	0.348													13	85					0	0	0.003163	0	0		C	72123448	C	C	72123448	2	2	15	1	0	0	0	0	0	0	0	1	5336	1780	62	3		3	EYA1	8	72123448	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2689259	72123448	74240574	334	11168											
ZNF704	619279	broad.mit.edu	37	chr8	81733851	81733851	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgcttaatgctccccacCtgtgaaatgaaacacagaaa	14	8	6	13	1	0	3	0	2	0	1	2	3	2	3	4	0	2	2	4	0	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:81733851C>T	uc003yby.1	-	2	212	c.-20_splice	c.e2-1			NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704							intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			TGCTCCCCACCTGTGAAATGA	0.428													41	69					0	0	0.007835	0	0		T	81733851	T	T	81733851	5	4	15	1	0	0	0	0	0	0	1	0	18132	695	24	4		4	ZNF704	8	81733851	Splice_Site	SNP	C	TCGA-BR-4280-01A-01D-1126-08	9610403	81733851	64630171	335	11169											
RALYL	138046	broad.mit.edu	37	chr8	85774590	85774590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtaattccgctgaagcGtcccagagtggcagtcacaa	11	8	11	11	2	1	2	1	1	0	1	3	2	3	2	2	1	2	4	2	1	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:85774590G>A	uc003ycq.3	+	7	889	c.473G>A	c.(472-474)CGT>CAT	p.R158H	RALYL_uc003ycr.3_Missense_Mutation_p.R158H|RALYL_uc003ycs.3_Missense_Mutation_p.R158H|RALYL_uc010lzy.2_Missense_Mutation_p.R147H|RALYL_uc003yct.3_Missense_Mutation_p.R171H|RALYL_uc003ycu.3_Missense_Mutation_p.R85H|RALYL_uc003ycv.3_Missense_Mutation_p.R70H	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2	158							identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						CCGCTGAAGCGTCCCAGAGTG	0.507													10	8					0	0	0.001855	0	0		A	85774590	A	A	85774590	3	1	15	1	0	0	0	0	1	0	0	0	13045	1145	40	1	534	1	RALYL	8	85774590	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	4040739	85774590	60589432	336	11170											
TMEM67	91147	broad.mit.edu	37	chr8	94793160	94793160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggattagcacctcaagtgCtcagttctacctctcttcct	8	14	6	13	0	4	0	2	0	2	0	6	1	5	1	3	1	3	3	3	1	4	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:94793160C>T	uc011lgk.1	+	9	999	c.928C>T	c.(928-930)CTC>TTC	p.L310F	TMEM67_uc010mat.1_Missense_Mutation_p.L225F|TMEM67_uc010maw.2_Intron|TMEM67_uc003yga.3_Missense_Mutation_p.L229F	NM_153704	NP_714915	Q5HYA8	MKS3_HUMAN	meckelin isoform 1	310					cilium assembly|ER-associated protein catabolic process|negative regulation of centrosome duplication	centrosome|cilium membrane|cytoplasmic vesicle membrane|endoplasmic reticulum membrane|integral to membrane|microtubule basal body	unfolded protein binding			ovary(2)	2	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.00896)			ACCTCAAGTGCTCAGTTCTAC	0.323													4	96					0	0	0.009096	0	0		T	94793160	T	T	94793160	3	4	15	1	0	0	0	0	1	0	0	0	16221	797	28	2	1100	2	TMEM67	8	94793160	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	9018570	94793160	51570862	337	11171											
CSMD3	114788	broad.mit.edu	37	chr8	113318350	113318350	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attacaaaaataggtaactcGcgttcctaccaaatagtctg	15	11	6	9	2	1	0	0	0	1	0	3	0	2	0	2	1	3	2	2	1	8	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:113318350G>A	uc003ynu.2	-	51	8116	c.7957C>T	c.(7957-7959)CGA>TGA	p.R2653*	CSMD3_uc003yns.2_Nonsense_Mutation_p.R1855*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.R2613*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.R2549*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2653	Extracellular (Potential).|Sushi 15.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TAGGTAACTCGCGTTCCTACC	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			36	63					0	0	0.004289	0	0		A	113318350	A	A	113318350	4	1	15	1	0	0	0	0	0	1	0	0	3949	1095	38	1	3250	1	CSMD3	8	113318350	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	18525190	113318350	33045672	338	11172											
EXT1	2131	broad.mit.edu	37	chr8	118831966	118831966	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagaagcttcaacactggCtgggactgagagaccagggg	12	5	15	9	1	1	3	1	1	0	2	1	6	1	4	1	4	2	2	1	4	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:118831966C>A	uc003yok.1	-	6	2258	c.1485G>T	c.(1483-1485)CAG>CAT	p.Q495H		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	495	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			TCAACACTGGCTGGGACTGAG	0.557			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				6	61					0.00307968	0.00330945	0.00308	1	0		A	118831966	A	A	118831966	3	1	15	1	0	0	0	0	1	0	0	0	5331	796	28	5	779	5	EXT1	8	118831966	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5513616	118831966	27532056	339	11173											
COL22A1	169044	broad.mit.edu	37	chr8	139649029	139649029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatctgcaccacgttctcCttgacttcccttgaaaggaa	10	11	6	14	1	2	2	0	2	2	0	4	3	3	3	4	1	1	2	4	1	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:139649029C>T	uc003yvd.2	-	48	3958	c.3511G>A	c.(3511-3513)GGA>AGA	p.G1171R	COL22A1_uc011ljo.1_Missense_Mutation_p.G451R	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1171	Pro-rich.|Gly-rich.|Collagen-like 11.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			CCACGTTCTCCTTGACTTCCC	0.333										HNSCC(7;0.00092)			7	171					0	0	0.004482	0	0		T	139649029	T	T	139649029	3	4	15	1	0	0	0	0	1	0	0	0	3684	690	24	4	1441	4	COL22A1	8	139649029	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	20817063	139649029	6714993	340	11174											
TRAPPC9	83696	broad.mit.edu	37	chr8	141321405	141321405	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaggccgccagggagggCgatgggctccatggtcccag	6	5	19	11	2	0	1	0	1	0	0	2	3	2	2	4	6	0	1	4	6	0	0	rs148453804	byFrequency	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:141321405C>T	uc003yvj.2	-	10	1698	c.1564G>A	c.(1564-1566)GCC>ACC	p.A522T	TRAPPC9_uc003yvh.2_Missense_Mutation_p.A620T|TRAPPC9_uc003yvi.1_Missense_Mutation_p.A513T	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	522					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						CCAGGGAGGGCGATGGGCTCC	0.552													13	23					0	0	0.003163	0	0		T	141321405	T	T	141321405	3	4	15	1	0	0	0	0	1	0	0	0	16491	768	27	1	1938	1	TRAPPC9	8	141321405	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1672376	141321405	5042617	341	11175											
TSNARE1	203062	broad.mit.edu	37	chr8	143427155	143427155	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgctggccccagatcacCttccccgtccttccccacac	5	8	6	22	1	1	1	1	0	0	1	4	1	4	1	9	1	1	1	9	1	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:143427155C>A	uc003ywk.2	-	3	305	c.187G>T	c.(187-189)GGT>TGT	p.G63C	TSNARE1_uc011lju.1_Missense_Mutation_p.G63C|TSNARE1_uc003ywj.2_Missense_Mutation_p.G63C|TSNARE1_uc003ywl.3_Intron	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	63					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CCCAGATCACCTTCCCCGTCC	0.622													7	25					2.0095e-06	2.22381e-06	0.001984	1	0		A	143427155	A	A	143427155	3	1	15	1	0	0	0	0	1	0	0	0	16656	681	24	5	1398	5	TSNARE1	8	143427155	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2105750	143427155	2936867	342	11176											
BAI1	575	broad.mit.edu	37	chr8	143558823	143558823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggctttcgggatcgcacgCgcacctgcaggcccccccag	5	6	13	17	4	0	0	0	0	0	0	2	1	0	1	4	3	1	4	4	3	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:143558823C>T	uc003ywm.2	+	5	1483	c.1300C>T	c.(1300-1302)CGC>TGC	p.R434C		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	434	Extracellular (Potential).|TSP type-1 3.				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GGATCGCACGCGCACCTGCAG	0.647													6	18					0	0	0.001984	0	0		T	143558823	T	T	143558823	3	4	15	1	0	0	0	0	1	0	0	0	1299	768	27	1	1318	1	BAI1	8	143558823	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	131668	143558823	2805199	343	11177											
C8orf73	642475	broad.mit.edu	37	chr8	144652165	144652165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacgctgcgggtcgtccgCgctgcgaagccgagggagca	7	4	18	12	7	0	1	0	0	0	1	2	5	1	2	2	2	4	3	2	2	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:144652165C>T	uc010mff.2	-	7	1158	c.1114G>A	c.(1114-1116)GCG>ACG	p.A372T	C8orf73_uc010mfg.1_Missense_Mutation_p.R384H	NM_001100878	NP_001094348	A6NGR9	CH073_HUMAN	hypothetical protein LOC642475	372	Leu-rich.						binding			ovary(1)	1	all_cancers(97;6.49e-11)|all_epithelial(106;4.73e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.014)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GGGTCGTCCGCGCTGCGAAGC	0.632													9	15					0	0	0.013537	0	0		T	144652165	T	T	144652165	3	4	15	1	0	0	0	0	1	0	0	0	2438	768	27	1	1077	1	C8orf73	8	144652165	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1093342	144652165	1711857	344	11178											
NRBP2	340371	broad.mit.edu	37	chr8	144919329	144919329	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtggctgcaaagttcatcAgtgggtagattccattcctg	9	12	12	8	0	2	1	2	0	0	1	4	2	4	1	2	2	1	4	2	2	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr8:144919329A>G	uc011lkt.1	-	14	1285	c.1145T>C	c.(1144-1146)CTG>CCG	p.L382P	NRBP2_uc003yzv.2_Missense_Mutation_p.L139P|NRBP2_uc003yzz.1_5'UTR|NRBP2_uc003yzw.2_Missense_Mutation_p.L174P|NRBP2_uc010mfl.2_Missense_Mutation_p.L174P|NRBP2_uc010mfm.2_Missense_Mutation_p.L139P|NRBP2_uc011lks.1_Missense_Mutation_p.L139P|NRBP2_uc003yzy.2_Missense_Mutation_p.L139P	NM_178564	NP_848659	Q9NSY0	NRBP2_HUMAN	nuclear receptor binding protein 2	382					negative regulation of neuron apoptosis|neuron differentiation	cytoplasm	ATP binding|protein kinase activity			central_nervous_system(2)	2	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			AAAGTTCATCAGTGGGTAGAT	0.627													13	9					0	0	0.003163	0	0		G	144919329	G	G	144919329	3	3	15	1	0	0	0	0	1	0	0	0	10662	188	7	3	380	3	NRBP2	8	144919329	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	267164	144919329	1444693	345	11179											
RANBP6	26953	broad.mit.edu	37	chr9	6013657	6013657	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccacatcctgtgtgtctaAgagagcaacatcaggtttag	11	12	9	9	0	2	1	1	0	1	1	4	2	4	1	2	1	2	2	2	1	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:6013657A>C	uc003zjr.2	-	1	1962	c.1951T>G	c.(1951-1953)TTA>GTA	p.L651V	RANBP6_uc011lmf.1_Missense_Mutation_p.L299V|RANBP6_uc003zjs.2_Missense_Mutation_p.L239V	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	651					protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		TGTGTGTCTAAGAGAGCAACA	0.388													6	116					0	0	0.00308	0	0		C	6013657	C	C	6013657	3	2	15	1	0	0	0	0	1	0	0	0	13056	69	3	5	1370	5	RANBP6	9	6013657	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08		6013657	135199774	346	11180											
PTPRD	5789	broad.mit.edu	37	chr9	8484205	8484205	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaatgaaggcaggcttggtAcgtaatacatctggtgcagt	11	10	12	8	1	1	1	0	1	1	0	1	1	1	1	1	4	3	5	1	4	5	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:8484205A>G	uc003zkk.2	-	29	4038	c.3327T>C	c.(3325-3327)CGT>CGC	p.R1109R	PTPRD_uc003zkp.2_Silent_p.R698R|PTPRD_uc003zkq.2_Silent_p.R698R|PTPRD_uc003zkr.2_Silent_p.R693R|PTPRD_uc003zks.2_Silent_p.R688R|PTPRD_uc003zkl.2_Silent_p.R1100R|PTPRD_uc003zkm.2_Silent_p.R1096R|PTPRD_uc003zkn.2_Silent_p.R698R|PTPRD_uc003zko.2_Silent_p.R695R	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1109	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CAGGCTTGGTACGTAATACAT	0.453										TSP Lung(15;0.13)			5	57					0	0	0.000602	0	0		G	8484205	G	G	8484205	2	3	15	1	0	0	0	0	0	0	0	1	12824	378	14	3		3	PTPRD	9	8484205	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	2470548	8484205	132729226	347	11181											
BNC2	54796	broad.mit.edu	37	chr9	16435990	16435990	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccttccatggattcctcGcccagtttgggctccgaaga	6	11	9	15	2	0	1	0	0	0	1	5	3	4	2	6	2	0	2	6	2	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:16435990G>A	uc003zml.2	-	6	2342	c.2202C>T	c.(2200-2202)GGC>GGT	p.G734G	BNC2_uc011lmw.1_Silent_p.G639G|BNC2_uc003zmm.2_Silent_p.G692G|BNC2_uc003zmq.1_Silent_p.G748G|BNC2_uc003zmr.1_Silent_p.G771G|BNC2_uc003zmp.1_Silent_p.G762G|BNC2_uc010mij.1_Silent_p.G656G|BNC2_uc011lmv.1_Silent_p.G560G|BNC2_uc003zmo.1_Silent_p.G656G|BNC2_uc003zmj.2_Silent_p.G499G|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Silent_p.G499G|BNC2_uc003zmn.1_Silent_p.G499G	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	734					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		TGGATTCCTCGCCCAGTTTGG	0.517													33	43					0	0	0.004878	0	0		A	16435990	A	A	16435990	2	1	15	1	0	0	0	0	0	0	0	1	1476	1074	38	1		1	BNC2	9	16435990	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	7951785	16435990	124777441	348	11182											
CNTLN	54875	broad.mit.edu	37	chr9	17226276	17226276	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggatgccaaaatacaagaAtttgaacaggttggtgttat	16	11	10	4	0	0	2	0	1	0	1	0	3	0	3	1	3	3	2	1	3	8	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:17226276A>C	uc003zmz.2	+	3	551	c.525A>C	c.(523-525)GAA>GAC	p.E175D	CNTLN_uc003zmx.3_Missense_Mutation_p.E175D|CNTLN_uc003zmy.2_Missense_Mutation_p.E175D	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	175						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		AAATACAAGAATTTGAACAGG	0.244													10	21					0	0	0.013537	0	0		C	17226276	C	C	17226276	3	2	15	1	0	0	0	0	1	0	0	0	3642	98	4	5	535	5	CNTLN	9	17226276	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	790286	17226276	123987155	349	11183											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18574264	18574264	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcatcagtggtttatgccaAgtaagtgctgatttgttctc	8	16	10	7	0	2	1	1	1	1	0	3	1	2	1	1	1	3	5	1	1	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:18574264A>G	uc003zne.3	+	4	601	c.474A>G	c.(472-474)CAA>CAG	p.Q158Q	ADAMTSL1_uc003znb.2_Silent_p.Q158Q|ADAMTSL1_uc003znc.3_Silent_p.Q158Q	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	158						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		GTTTATGCCAAGTAAGTGCTG	0.403													4	205					0	0	0.009096	0	0		G	18574264	G	G	18574264	2	3	15	1	0	0	0	0	0	0	0	1	274	86	3	3		3	ADAMTSL1	9	18574264	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1347988	18574264	122639167	350	11184											
ACER2	340485	broad.mit.edu	37	chr9	19424786	19424786	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttgggttctgatgtgtgcTttggccatgtggttccccag	3	16	13	9	0	1	1	0	1	1	0	2	1	2	1	3	3	1	3	3	3	0	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:19424786T>G	uc003zny.1	+	3	470	c.312T>G	c.(310-312)GCT>GCG	p.A104A	ACER2_uc003znx.1_RNA|ACER2_uc003znz.1_Silent_p.A55A	NM_001010887	NP_001010887	Q5QJU3	ACER2_HUMAN	alkaline ceramidase 2	104	Helical; (Potential).				ceramide metabolic process|negative regulation of cell adhesion mediated by integrin|negative regulation of cell-matrix adhesion|negative regulation of protein glycosylation in Golgi|positive regulation of cell proliferation|response to retinoic acid|sphingosine biosynthetic process	integral to Golgi membrane	ceramidase activity			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2						TGATGTGTGCTTTGGCCATGT	0.443													44	55					0	0	0.011902	0	0		G	19424786	G	G	19424786	2	3	15	1	0	0	0	0	0	0	0	1	139	1596	56	5		5	ACER2	9	19424786	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	850522	19424786	121788645	351	11185											
SLC24A2	25769	broad.mit.edu	37	chr9	19516258	19516258	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggattttgttcattcGccacttgcagagggcgatag	8	11	12	10	2	1	1	1	0	0	1	2	3	1	2	2	2	1	2	2	2	1	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:19516258G>A	uc003zoa.1	-	10	1941	c.1879C>T	c.(1879-1881)CGA>TGA	p.R627*	SLC24A2_uc003zob.1_Nonsense_Mutation_p.R610*	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	627	Extracellular (Potential).				visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		TTGTTCATTCGCCACTTGCAG	0.512													62	82					0	0	0.01441	0	0		A	19516258	A	A	19516258	4	1	15	1	0	0	0	0	0	1	0	0	14491	1095	38	1	110	1	SLC24A2	9	19516258	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	91472	19516258	121697173	352	11186											
IFT74	80173	broad.mit.edu	37	chr9	26984556	26984556	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaactagcagactacaacaTggtattttatcttttctaag	14	14	5	8	0	2	1	0	0	2	1	2	1	2	1	0	1	4	2	0	1	7	8			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:26984556T>C	uc010mja.2	+	6	591	c.464T>C	c.(463-465)ATG>ACG	p.M155T	IFT74_uc010mjb.2_Missense_Mutation_p.M155T|IFT74_uc003zqf.3_Missense_Mutation_p.M155T|IFT74_uc003zqg.3_Missense_Mutation_p.M155T	NM_001099223	NP_001092693	Q96LB3	IFT74_HUMAN	coiled-coil domain containing 2 isoform a	155	Potential.					cytoplasmic membrane-bounded vesicle|intraflagellar transport particle B|microtubule-based flagellum				skin(1)	1		all_neural(11;2.36e-10)		Lung(218;1.4e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)		GACTACAACATGGTATTTTAT	0.239													26	74					0	0	0.009535	0	0		C	26984556	C	C	26984556	3	2	15	1	0	0	0	0	1	0	0	0	7579	1478	51	3	482	3	IFT74	9	26984556	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	7468298	26984556	114228875	353	11187											
C9orf72	203228	broad.mit.edu	37	chr9	27566788	27566788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagtataattgatagtcCatatgtgctgcgatccccat	11	13	9	8	1	0	1	0	1	0	0	2	3	2	2	3	1	2	2	3	1	5	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:27566788C>T	uc003zqq.2	-	2	428	c.331G>A	c.(331-333)GGA>AGA	p.G111R	C9orf72_uc003zqr.1_Missense_Mutation_p.G111R	NM_018325	NP_060795	Q96LT7	CI072_HUMAN	hypothetical protein LOC203228 isoform a	111										ovary(3)|central_nervous_system(1)	4		all_neural(11;7.57e-10)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.00016)		ATTGATAGTCCATATGTGCTG	0.363													31	48					0	0	0.010818	0	0		T	27566788	T	T	27566788	3	4	15	1	0	0	0	0	1	0	0	0	2498	603	21	4	1158	4	C9orf72	9	27566788	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	582232	27566788	113646643	354	11188											
TAF1L	138474	broad.mit.edu	37	chr9	32635575	32635575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaatcgcagccgggtcgCataaaccggaaataaaacaa	18	4	9	10	4	0	0	0	0	0	0	2	1	0	1	2	2	4	3	2	2	7	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:32635575C>T	uc003zrg.1	-	1	93	c.3G>A	c.(1-3)ATG>ATA	p.M1I	uc003zrh.1_Intron	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		AGCCGGGTCGCATAAACCGGA	0.572													12	18					0	0	0.013537	0	0		T	32635575	T	T	32635575	3	4	15	1	0	0	0	0	1	0	0	0	15548	710	25	2	5481	2	TAF1L	9	32635575	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5068787	32635575	108577856	355	11189											
PRSS3	5646	broad.mit.edu	37	chr9	33797910	33797910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgcggccaagatcatccGccaccctaaatacaacaggg	14	5	8	14	2	1	1	1	0	0	1	2	1	2	1	4	2	3	0	4	2	6	2	rs146360076	byFrequency	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:33797910G>A	uc003ztj.3	+	3	455	c.455G>A	c.(454-456)CGC>CAC	p.R152H	uc003ztk.1_Intron|PRSS3_uc003zti.3_Missense_Mutation_p.R109H|PRSS3_uc003ztl.3_Missense_Mutation_p.R95H	NM_007343	NP_031369	P35030	TRY3_HUMAN	mesotrypsin isoform 1 preproprotein	152	Peptidase S1.				digestion|endothelial cell migration|zymogen activation	extracellular space	calcium ion binding|protein binding|serine-type endopeptidase activity|serine-type peptidase activity				0			LUSC - Lung squamous cell carcinoma(29;0.0176)			AAGATCATCCGCCACCCTAAA	0.547													50	71					0	0	0.01441	0	0		A	33797910	A	A	33797910	3	1	15	1	0	0	0	0	1	0	0	0	12644	1087	38	1	509	1	PRSS3	9	33797910	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1162335	33797910	107415521	356	11190											
PIGO	84720	broad.mit.edu	37	chr9	35091339	35091339	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgcgctccgcatgcaacaGcagaagtgggaaggccaaca	13	4	13	11	2	0	1	0	0	0	1	1	3	1	2	2	2	5	4	2	2	4	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:35091339G>A	uc003zwd.2	-	7	2941	c.2545C>T	c.(2545-2547)CTG>TTG	p.L849L	PIGO_uc003zwc.1_3'UTR|PIGO_uc003zwe.2_Intron|PIGO_uc003zwf.2_Intron|PIGO_uc003zwg.1_Silent_p.L412L	NM_032634	NP_116023	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	849	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	transferase activity			large_intestine(1)|ovary(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GCATGCAACAGCAGAAGTGGG	0.562													20	32					0	0	0.014323	0	0		A	35091339	A	A	35091339	2	1	15	1	0	0	0	0	0	0	0	1	11913	962	34	2		2	PIGO	9	35091339	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1293429	35091339	106122092	357	11191											
RUSC2	9853	broad.mit.edu	37	chr9	35558504	35558504	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctacaacaaagtcagccAattcccagagctcaccagtc	13	7	5	16	0	3	1	2	0	1	1	5	1	4	1	4	0	4	1	4	0	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:35558504A>G	uc003zww.2	+	8	3536	c.3281A>G	c.(3280-3282)CAA>CGA	p.Q1094R	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.Q1094R	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	1094	RUN.					cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			AAAGTCAGCCAATTCCCAGAG	0.542													56	127					0	0	0.01441	0	0		G	35558504	G	G	35558504	3	3	15	1	0	0	0	0	1	0	0	0	13776	130	5	3	3307	3	RUSC2	9	35558504	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	467165	35558504	105654927	358	11192											
OR13J1	392309	broad.mit.edu	37	chr9	35869672	35869672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagcactacagccaggtgtgCcaagcaggtggagaaggctt	11	6	14	10	0	0	1	0	0	0	1	0	2	0	1	2	4	5	3	2	4	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:35869672C>T	uc011lph.1	-	1	727	c.727G>A	c.(727-729)GCA>ACA	p.A243T		NM_001004487	NP_001004487	Q8NGT2	O13J1_HUMAN	olfactory receptor, family 13, subfamily J,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_epithelial(49;0.169)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00494)|STAD - Stomach adenocarcinoma(86;0.194)			GCCAGGTGTGCCAAGCAGGTG	0.557													18	36					0	0	0.006122	0	0		T	35869672	T	T	35869672	3	4	15	1	0	0	0	0	1	0	0	0	10963	739	26	2	214	2	OR13J1	9	35869672	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	311168	35869672	105343759	359	11193											
TMEM2	23670	broad.mit.edu	37	chr9	74360369	74360369	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccatacaaggtaattgtcGctttggatttatagcggcat	10	14	10	7	2	0	0	0	0	0	0	1	1	0	1	1	3	3	3	1	3	5	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:74360369G>A	uc011lsa.1	-	4	1139	c.599C>T	c.(598-600)GCG>GTG	p.A200V	TMEM2_uc010mos.2_Missense_Mutation_p.A200V|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	200	G8.					integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		GGTAATTGTCGCTTTGGATTT	0.433													51	94					0	0	0.01441	0	0		A	74360369	A	A	74360369	3	1	15	1	0	0	0	0	1	0	0	0	16146	1087	38	1	3636	1	TMEM2	9	74360369	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	38490697	74360369	66853062	360	11194											
VPS13A	23230	broad.mit.edu	37	chr9	79955199	79955199	+	Splice_Site	DEL	G	-	-																															gcctgaaaatggactatcaaGtgagttcattctatgcttat																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:79955199delG	uc004akr.2	+	49	7139	c.6879_splice	c.e49+1	p.Q2293_splice	VPS13A_uc004akp.3_Splice_Site_p.Q2293_splice|VPS13A_uc004akq.3_Splice_Site_p.Q2293_splice|VPS13A_uc004aks.2_Splice_Site_p.Q2254_splice	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A						Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GGACTATCAAGTGAGTTCATT	0.289													37	55	---	---	---	---						.	-	79955199	-	-	79955199	8	5	15	1	0	1	0	1	0	0	1	0	17215	1043	36	0	7074	0	VPS13A	9	79955199	Splice_Site	DEL	G	TCGA-BR-4280-01A-01D-1126-08	5594830	79955199	61258232	361	11195											
GNAQ	2776	broad.mit.edu	37	chr9	80336240	80336240	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtgtctaggaggcacaatTagaccagattgtactccttc	10	11	11	9	0	1	2	0	0	1	2	3	3	2	3	2	3	1	2	2	3	4	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:80336240T>C	uc004akw.2	-	7	1120	c.1079A>G	c.(1078-1080)TAA>TGA	p.*360*	GNAQ_uc011lso.1_Silent_p.*158*|GNAQ_uc004akv.1_5'Flank	NM_002072	NP_002063	P50148	GNAQ_HUMAN	guanine nucleotide binding protein (G protein),	360					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|glutamate signaling pathway|negative regulation of protein kinase activity|platelet activation|protein ADP-ribosylation|protein stabilization|regulation of action potential|regulation of catenin import into nucleus	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activator activity|GTPase activity|signal transducer activity			eye(136)|skin(44)|meninges(11)|ovary(1)|kidney(1)	193						GAGGCACAATTAGACCAGATT	0.488			Mis		uveal melanoma								15	14					0	0	0.00499	0	0		C	80336240	C	C	80336240	2	2	15	1	0	0	0	0	0	0	0	1	6524	1761	61	3		3	GNAQ	9	80336240	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	381041	80336240	60877191	362	11196											
TLE1	7088	broad.mit.edu	37	chr9	84225192	84225192	+	Frame_Shift_Del	DEL	G	-	-																															tggtaggtactctcatgtgaGggggaggatcaaaccccacc																								rs143065311		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:84225192delG	uc004aly.2	-	14	1715	c.1274delC	c.(1273-1275)CCTfs	p.P425fs	TLE1_uc004alz.2_Frame_Shift_Del_p.P435fs|TLE1_uc011lsr.1_Frame_Shift_Del_p.P410fs|TLE1_uc004ama.1_Frame_Shift_Del_p.P424fs	NM_005077	NP_005068	Q04724	TLE1_HUMAN	transducin-like enhancer protein 1	425	Pro/Ser-rich.				negative regulation of Wnt receptor signaling pathway|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway		transcription factor binding			ovary(1)|skin(1)	2						TCTCATGTGAGGGGGAGGATC	0.448													14	29	---	---	---	---						.	-	84225192	-	-	84225192	7	5	15	1	0	1	0	1	0	0	0	0	15963	1000	35	0	1066	0	TLE1	9	84225192	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	3888952	84225192	56988239	363	11197											
ZNF484	83744	broad.mit.edu	37	chr9	95609713	95609713	+	Frame_Shift_Del	DEL	T	-	-																															tgatgcacatggagttgtgaTtttttaataaaggatttccc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:95609713delT	uc004asu.1	-	5	1505	c.1356delA	c.(1354-1356)AAAfs	p.K452fs	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Frame_Shift_Del_p.K454fs|ZNF484_uc010mrb.1_Frame_Shift_Del_p.K416fs|ZNF484_uc004asv.1_Frame_Shift_Del_p.K416fs	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	452	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGAGTTGTGATTTTTTAATAA	0.383													20	37	---	---	---	---						.	-	95609713	-	-	95609713	7	5	15	1	0	1	0	1	0	0	0	0	17962	1490	52	0	1206	0	ZNF484	9	95609713	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	11384521	95609713	45603718	364	11198											
PHF2	5253	broad.mit.edu	37	chr9	96428055	96428055	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccaagcccgtgcgggaTgagtatgagtacgtgtcgga	10	7	15	9	4	0	2	0	2	0	0	1	4	0	4	2	2	4	2	2	2	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:96428055T>C	uc004aub.2	+	15	2172	c.2025T>C	c.(2023-2025)GAT>GAC	p.D675D	PHF2_uc011lug.1_Silent_p.D558D|PHF2_uc004auc.2_Silent_p.D94D	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	675					liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		CCGTGCGGGATGAGTATGAGT	0.582													24	140					0	0	0.008361	0	0		C	96428055	C	C	96428055	2	2	15	1	0	0	0	0	0	0	0	1	11849	1461	51	3		3	PHF2	9	96428055	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	818342	96428055	44785376	365	11199											
PTPDC1	138639	broad.mit.edu	37	chr9	96860859	96860859	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggaaggtagaaatgtggCaggtattattagtacttaat	16	12	11	2	0	0	1	0	0	0	1	0	2	0	2	0	4	1	4	0	4	9	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:96860859C>T	uc004auf.1	+	7	2189	c.1849C>T	c.(1849-1851)CAG>TAG	p.Q617*	PTPDC1_uc004aug.1_Intron|PTPDC1_uc004auh.1_Nonsense_Mutation_p.Q669*|PTPDC1_uc010mrj.1_Nonsense_Mutation_p.Q671*|PTPDC1_uc010mri.1_Nonsense_Mutation_p.Q669*	NM_177995	NP_818931	A2A3K4	PTPC1_HUMAN	protein tyrosine phosphatase domain containing 1	617							protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1						AGAAATGTGGCAGGTATTATT	0.333													30	42					0	0	0.009535	0	0		T	96860859	T	T	96860859	4	4	15	1	0	0	0	0	0	1	0	0	12796	711	25	2	2113	2	PTPDC1	9	96860859	Nonsense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	432804	96860859	44352572	366	11200											
OR13C9	286362	broad.mit.edu	37	chr9	107379859	107379859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataactatcaagagcagtggCatcaatgtgaacaatattgt	16	11	8	6	0	2	2	2	1	0	1	2	2	2	2	0	1	3	2	0	1	7	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:107379859C>T	uc011lvr.1	-	1	627	c.627G>A	c.(625-627)ATG>ATA	p.M209I		NM_001001956	NP_001001956	Q8NGT0	O13C9_HUMAN	olfactory receptor, family 13, subfamily C,	209	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGAGCAGTGGCATCAATGTGA	0.433													39	66					0	0	0.009718	0	0		T	107379859	T	T	107379859	3	4	15	1	0	0	0	0	1	0	0	0	10958	710	25	2	332	2	OR13C9	9	107379859	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	10519000	107379859	33833572	367	11201											
MUSK	4593	broad.mit.edu	37	chr9	113530131	113530131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagataacaaaggctactgcGcccagtacagaggggaggtg	14	5	14	8	1	0	2	0	0	0	2	0	3	0	3	1	4	4	2	1	4	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:113530131G>A	uc004bey.2	+	8	1050	c.952G>A	c.(952-954)GCC>ACC	p.A318T		NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	318	FZ.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						AGGCTACTGCGCCCAGTACAG	0.433													55	96					0	0	0.01441	0	0		A	113530131	A	A	113530131	3	1	15	1	0	0	0	0	1	0	0	0	10007	1087	38	1	1016	1	MUSK	9	113530131	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6150272	113530131	27683300	368	11202											
SUSD1	64420	broad.mit.edu	37	chr9	114905868	114905868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcacgcatcgccctccatGcctgcacaggccagaaactt	9	8	8	16	2	1	1	1	0	0	1	3	1	2	1	4	1	3	3	4	1	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:114905868G>A	uc004bfu.2	-	4	450	c.409C>T	c.(409-411)CAT>TAT	p.H137Y	SUSD1_uc010mui.2_Missense_Mutation_p.H137Y|SUSD1_uc010muj.2_Missense_Mutation_p.H137Y	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	137	EGF-like 3; calcium-binding (Potential).|Extracellular (Potential).					integral to membrane	calcium ion binding				0						CGCCCTCCATGCCTGCACAGG	0.418													38	67					0	0	0.013114	0	0		A	114905868	A	A	114905868	3	1	15	1	0	0	0	0	1	0	0	0	15432	1319	46	2	1890	2	SUSD1	9	114905868	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1375737	114905868	26307563	369	11203											
RGS3	5998	broad.mit.edu	37	chr9	116353631	116353631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgagcggggctgacaccGttggggatgatgacgaagcc	10	6	17	8	3	0	5	0	4	0	1	0	7	0	6	2	4	2	2	2	4	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:116353631G>A	uc004bhq.2	+	22	3243	c.3034G>A	c.(3034-3036)GTT>ATT	p.V1012I	RGS3_uc004bhs.2_Missense_Mutation_p.V902I|RGS3_uc004bht.2_Missense_Mutation_p.V731I|RGS3_uc010muy.2_Missense_Mutation_p.V405I|RGS3_uc004bhv.2_Missense_Mutation_p.V333I|RGS3_uc010muz.1_Missense_Mutation_p.V351I|RGS3_uc004bhw.2_Intron|RGS3_uc011lxh.1_Missense_Mutation_p.V322I|RGS3_uc004bhx.2_Missense_Mutation_p.V333I|RGS3_uc004bhy.1_Missense_Mutation_p.V322I|RGS3_uc004bhz.2_Missense_Mutation_p.V354I|RGS3_uc004bia.2_5'Flank	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	1012					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						GGCTGACACCGTTGGGGATGA	0.572													8	54					0	0	0.006214	0	0		A	116353631	A	A	116353631	3	1	15	1	0	0	0	0	1	0	0	0	13331	1145	40	1	3369	1	RGS3	9	116353631	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1447763	116353631	24859800	370	11204											
AKNA	80709	broad.mit.edu	37	chr9	117122197	117122197	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctccatgaggccatggtaaActtgctccatctgcagctcc	8	10	9	14	0	1	1	0	1	1	0	4	1	4	1	4	2	4	5	4	2	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:117122197A>T	uc004biq.3	-	9	2405	c.2270T>A	c.(2269-2271)GTT>GAT	p.V757D	AKNA_uc004bin.3_Missense_Mutation_p.V4D|AKNA_uc004bio.3_Missense_Mutation_p.V217D|AKNA_uc004bip.3_Missense_Mutation_p.V676D|AKNA_uc004bir.3_Missense_Mutation_p.V757D|AKNA_uc004bis.3_Missense_Mutation_p.V757D|AKNA_uc010mve.2_Missense_Mutation_p.V638D|AKNA_uc004biu.1_Missense_Mutation_p.V498D|AKNA_uc004biv.1_Missense_Mutation_p.V757D	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	757					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(2)	6						GCCATGGTAAACTTGCTCCAT	0.617													25	33					0	0	0.00632	0	0		T	117122197	T	T	117122197	3	4	15	1	0	0	0	0	1	0	0	0	463	43	2	5	2101	5	AKNA	9	117122197	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	768566	117122197	24091234	371	11205											
C9orf91	203197	broad.mit.edu	37	chr9	117379548	117379548	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccctggctggagtgccCtgcctggagggagccctcct	3	8	13	17	0	0	0	0	0	0	0	2	3	2	3	7	4	3	1	7	4	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:117379548C>A	uc004bjd.3	+	2	290	c.73C>A	c.(73-75)CTG>ATG	p.L25M	C9orf91_uc004bje.3_Translation_Start_Site	NM_153045	NP_694590	Q5VZI3	CI091_HUMAN	hypothetical protein LOC203197	25						integral to membrane				pancreas(1)	1						CTGGAGTGCCCTGCCTGGAGG	0.617													9	11					2.17888e-05	2.38392e-05	0.006214	1	0		A	117379548	A	A	117379548	3	1	15	1	0	0	0	0	1	0	0	0	2508	680	24	5	75	5	C9orf91	9	117379548	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	257351	117379548	23833883	372	11206											
TRIM32	22954	broad.mit.edu	37	chr9	119461306	119461306	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggcagatctacccaacCtcactcctctctcagtggca	8	10	8	15	0	4	1	2	0	2	1	6	1	5	1	3	3	2	2	3	3	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:119461306C>A	uc004bjx.2	+	2	1443	c.1285C>A	c.(1285-1287)CTC>ATC	p.L429I	ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjs.1_Intron|ASTN2_uc004bjt.1_Intron|TRIM32_uc004bjw.2_Missense_Mutation_p.L429I	NM_001099679	NP_001093149	Q13049	TRI32_HUMAN	tripartite motif-containing 32	429	NHL 2.				fat cell differentiation|innate immune response|negative regulation of apoptosis|negative regulation of fibroblast proliferation|positive regulation of cell cycle|positive regulation of cell growth|positive regulation of cell migration|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein catabolic process|positive regulation of proteolysis|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to tumor necrosis factor|response to UV	nucleus	myosin binding|protein self-association|RNA binding|Tat protein binding|transcription coactivator activity|translation initiation factor binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(2)|kidney(1)	3						TCTACCCAACCTCACTCCTCT	0.512									Bardet-Biedl_syndrome				85	143					4.21773e-46	5.08764e-46	0.01441	1	0		A	119461306	A	A	119461306	3	1	15	1	0	0	0	0	1	0	0	0	16532	681	24	5	1287	5	TRIM32	9	119461306	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2081758	119461306	21752125	373	11207											
OR1L3	26735	broad.mit.edu	37	chr9	125437522	125437522	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttatcatatacctggtcacTttgatgggaaatctgctcat	10	15	7	9	0	4	1	3	1	1	0	4	2	4	2	1	2	2	1	1	2	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:125437522T>C	uc011lzb.1	+	1	114	c.114T>C	c.(112-114)ACT>ACC	p.T38T		NM_001005234	NP_001005234	Q8NH93	OR1L3_HUMAN	olfactory receptor, family 1, subfamily L,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ACCTGGTCACTTTGATGGGAA	0.428													4	117					0	0	0.009096	0	0		C	125437522	C	C	125437522	2	2	15	1	0	0	0	0	0	0	0	1	10983	1596	56	3		3	OR1L3	9	125437522	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	5976216	125437522	15775909	374	11208											
OR5C1	392391	broad.mit.edu	37	chr9	125551855	125551855	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatccagacagccacggTgttagctatcacggtgtctt	8	12	9	12	2	3	1	2	0	1	1	4	1	4	1	2	2	2	2	2	2	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:125551855T>C	uc011lzd.1	+	1	644	c.644T>C	c.(643-645)GTG>GCG	p.V215A		NM_001001923	NP_001001923	Q8NGR4	OR5C1_HUMAN	olfactory receptor, family 5, subfamily C,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1						ACAGCCACGGTGTTAGCTATC	0.582													8	23					0	0	0.013537	0	0		C	125551855	C	C	125551855	3	2	15	1	0	0	0	0	1	0	0	0	11172	1696	59	3	646	3	OR5C1	9	125551855	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	114333	125551855	15661576	375	11209											
LMX1B	4010	broad.mit.edu	37	chr9	129455844	129455844	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacgggcctcagtgtgcgCgtggtccaggtctggtttca	5	10	16	10	3	3	1	2	0	1	1	4	2	4	1	2	4	1	1	2	4	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:129455844C>T	uc004bqj.2	+	5	764	c.714C>T	c.(712-714)CGC>CGT	p.R238R	LMX1B_uc004bqi.2_Silent_p.R238R|LMX1B_uc011maa.1_Silent_p.R238R	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	238	Homeobox.				dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TCAGTGTGCGCGTGGTCCAGG	0.642									Nail-Patella_Syndrome				8	21					0	0	0.010729	0	0		T	129455844	T	T	129455844	2	4	15	1	0	0	0	0	0	0	0	1	8879	755	27	1		1	LMX1B	9	129455844	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3903989	129455844	11757587	376	11210											
DNM1	1759	broad.mit.edu	37	chr9	130980885	130980885	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccgagttcctgcactgcaAgggaaagaaattcaccgact	12	8	10	11	2	1	1	1	0	0	1	2	4	2	2	3	1	3	3	3	1	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:130980885A>G	uc011mau.1	+	3	347	c.260A>G	c.(259-261)AAG>AGG	p.K87R	DNM1_uc010mxr.2_Missense_Mutation_p.K87R|DNM1_uc011mat.1_Missense_Mutation_p.K87R	NM_004408	NP_004399	Q05193	DYN1_HUMAN	dynamin 1 isoform 1	87					receptor-mediated endocytosis	microtubule	GTP binding|GTPase activity			ovary(2)	2						CTGCACTGCAAGGGAAAGAAA	0.597													16	26					0	0	0.00499	0	0		G	130980885	G	G	130980885	3	3	15	1	0	0	0	0	1	0	0	0	4676	72	3	3	270	3	DNM1	9	130980885	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1525041	130980885	10232546	377	11211											
TBC1D13	54662	broad.mit.edu	37	chr9	131570101	131570101	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtgcccaggactacccCatcacagatgtctgccagat	9	9	8	15	0	2	2	1	0	1	2	3	3	3	3	5	1	3	0	5	1	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:131570101C>A	uc010myj.2	+	12	1269	c.1146C>A	c.(1144-1146)CCC>CCA	p.P382P	TBC1D13_uc010myk.2_Silent_p.P257P|TBC1D13_uc010myl.2_Silent_p.P201P	NM_018201	NP_060671	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	382						intracellular	Rab GTPase activator activity				0						AGGACTACCCCATCACAGATG	0.607													36	63					3.38236e-24	4.02463e-24	0.006999	1	0		A	131570101	A	A	131570101	2	1	15	1	0	0	0	0	0	0	0	1	15627	581	21	5		5	TBC1D13	9	131570101	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	589216	131570101	9643330	378	11212											
C9orf114	51490	broad.mit.edu	37	chr9	131588302	131588302	+	Frame_Shift_Del	DEL	T	-	-																															cccatctttctgttcctaccTttttcatgccacagttgaca																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:131588302delT	uc004bwd.2	-	7	664	c.638delA	c.(637-639)AAGfs	p.K213fs	C9orf114_uc004bwe.2_Frame_Shift_Del_p.K213fs|C9orf114_uc010mym.2_RNA	NM_016390	NP_057474	Q5T280	CI114_HUMAN	hypothetical protein LOC51490	213											0						TGTTCCTACCTTTTTCATGCC	0.592													45	51	---	---	---	---						.	-	131588302	-	-	131588302	7	5	15	1	0	1	0	1	0	0	0	0	2452	1623	56	0	516	0	C9orf114	9	131588302	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	18201	131588302	9625129	379	11213											
LAMC3	10319	broad.mit.edu	37	chr9	133901811	133901811	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcctgccagaagacctaCggccggcccgagggccagta	8	4	13	16	3	0	2	0	0	0	2	1	3	1	2	7	3	2	1	7	3	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:133901811C>T	uc004caa.1	+	2	611	c.513C>T	c.(511-513)TAC>TAT	p.Y171Y		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	171	Laminin N-terminal.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		AGAAGACCTACGGCCGGCCCG	0.677													11	8					0	0	0.001855	0	0		T	133901811	T	T	133901811	2	4	15	1	0	0	0	0	0	0	0	1	8632	547	19	1		1	LAMC3	9	133901811	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2313509	133901811	7311620	380	11214											
GTF3C5	9328	broad.mit.edu	37	chr9	135917576	135917576	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagtaccagcagcctgctgCtccgcatcaggaagagaacg	11	6	11	13	2	2	1	2	0	0	1	3	3	3	2	3	1	6	5	3	1	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:135917576C>A	uc004cci.3	+	2	593	c.256C>A	c.(256-258)CTC>ATC	p.L86I	GTF3C5_uc010mzz.2_Intron|GTF3C5_uc004ccj.3_Missense_Mutation_p.L86I	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	86						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		CAGCCTGCTGCTCCGCATCAG	0.607													4	38					0.00909568	0.00967732	0.009096	1	0		A	135917576	A	A	135917576	3	1	15	1	0	0	0	0	1	0	0	0	6892	797	28	5	262	5	GTF3C5	9	135917576	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2015765	135917576	5295855	381	11215											
RXRA	6256	broad.mit.edu	37	chr9	137328407	137328407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaagctcatcggggacacaCccattgacaccttccttatg	10	10	7	14	1	2	1	2	1	0	0	4	2	3	2	3	2	1	1	3	2	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:137328407C>T	uc004cfb.2	+	10	1498	c.1336C>T	c.(1336-1338)CCC>TCC	p.P446S	RXRA_uc004cfc.1_Missense_Mutation_p.P349S	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	446	Ligand-binding.				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)	CGGGGACACACCCATTGACAC	0.597													29	61					0	0	0.012213	0	0		T	137328407	T	T	137328407	3	4	15	1	0	0	0	0	1	0	0	0	13788	507	18	4	1374	4	RXRA	9	137328407	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1410831	137328407	3885024	382	11216											
CAMSAP1	157922	broad.mit.edu	37	chr9	138703390	138703390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatagtagcagtaaagcGccctgaactggcagccagca	13	5	12	11	1	0	1	0	1	0	0	0	2	0	2	2	2	5	5	2	2	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:138703390G>A	uc004cgr.3	-	17	4574	c.4574C>T	c.(4573-4575)GCG>GTG	p.A1525V	CAMSAP1_uc004cgq.3_Missense_Mutation_p.A1415V|CAMSAP1_uc010nbg.2_Missense_Mutation_p.A1247V	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1525	CKK.					cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		GCAGTAAAGCGCCCTGAACTG	0.458													5	13					0	0	0.000602	0	0		A	138703390	A	A	138703390	3	1	15	1	0	0	0	0	1	0	0	0	2614	1087	38	1	238	1	CAMSAP1	9	138703390	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1374983	138703390	2510041	383	11217											
SEC16A	9919	broad.mit.edu	37	chr9	139368727	139368727	+	Frame_Shift_Del	DEL	G	-	-																															tagaggactgaggaggccgaGggggcagctgctgacccgcg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:139368727delG	uc004chx.2	-	3	3650	c.3341delC	c.(3340-3342)CCTfs	p.P1114fs	SEC16A_uc004chv.3_Frame_Shift_Del_p.P504fs|SEC16A_uc004chw.2_Frame_Shift_Del_p.P1114fs|SEC16A_uc010nbn.2_Frame_Shift_Del_p.P1114fs|SEC16A_uc010nbo.1_Frame_Shift_Del_p.P1114fs	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	936	Pro-rich.|Required for endoplasmic reticulum localization.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		AGGAGGCCGAGGGGGCAGCTG	0.637													4	8	---	---	---	---						.	-	139368727	-	-	139368727	7	5	15	1	0	1	0	1	0	0	0	0	14011	1000	35	0	3852	0	SEC16A	9	139368727	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	665337	139368727	1844704	384	11218											
NOTCH1	4851	broad.mit.edu	37	chr9	139409854	139409854	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatctcgcagttgggtccTgaaggggtggcacgtgtcgg	5	11	17	8	3	1	2	0	2	1	0	4	2	2	2	1	5	0	3	1	5	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:139409854T>C	uc004chz.2	-	12	1904	c.1904_splice	c.e12-1	p.G635_splice	NOTCH1_uc004cia.1_5'Flank	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein						aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		AGTTGGGTCCTGAAGGGGTGG	0.682			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			9	23					0	0	0.004482	0	0		C	139409854	C	C	139409854	5	2	15	1	0	0	0	0	0	0	1	0	10566	1594	55	3	5857	3	NOTCH1	9	139409854	Splice_Site	SNP	T	TCGA-BR-4280-01A-01D-1126-08	41127	139409854	1803577	385	11219											
C9orf172	389813	broad.mit.edu	37	chr9	139739752	139739752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttccggggcagctttgcaGccagtcccggcccaaccttc	5	8	11	17	2	0	0	0	0	0	0	3	0	2	0	5	3	4	4	5	3	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr9:139739752G>A	uc011meh.1	+	1	886	c.886G>A	c.(886-888)GCC>ACC	p.A296T	PHPT1_uc004cjp.2_5'Flank	NM_001080482	NP_001073951	C9J069	CI172_HUMAN	chromosome 9 open reading frame 172	296	Pro-rich.										0						CAGCTTTGCAGCCAGTCCCGG	0.682													5	9					0	0	0.001984	0	0		A	139739752	A	A	139739752	3	1	15	1	0	0	0	0	1	0	0	0	2474	971	34	2	888	2	C9orf172	9	139739752	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	329898	139739752	1473679	386	11220											
C10orf18	54906	broad.mit.edu	37	chr10	5789072	5789072	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatttcgtcaggatgccacAcatcaggtgactctttagaa	11	11	9	10	1	3	2	2	1	1	1	4	3	3	3	1	2	1	1	1	2	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:5789072A>G	uc001iij.2	+	15	4313	c.3688A>G	c.(3688-3690)ACA>GCA	p.T1230A	C10orf18_uc001iik.2_Missense_Mutation_p.T74A	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	1230										ovary(1)|central_nervous_system(1)	2						AGGATGCCACACATCAGGTGA	0.418													41	77					0	0	0.010771	0	0		G	5789072	G	G	5789072	3	3	15	1	0	0	0	0	1	0	0	0	1599	159	6	3	3734	3	C10orf18	10	5789072	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08		5789072	129745675	387	11221											
UPF2	26019	broad.mit.edu	37	chr10	12070793	12070793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtggtcccttttcaggtGtttggtcaaagacgtaaagt	8	14	11	8	1	2	1	2	0	0	1	3	1	3	1	2	3	0	2	2	3	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:12070793G>A	uc001ila.2	-	2	1570	c.1096C>T	c.(1096-1098)CAC>TAC	p.H366Y	UPF2_uc001ilb.2_Missense_Mutation_p.H366Y|UPF2_uc001ilc.2_Missense_Mutation_p.H366Y|UPF2_uc009xiz.1_Missense_Mutation_p.H366Y	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	366	MIF4G 1.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				CTTTTCAGGTGTTTGGTCAAA	0.378													23	44					0	0	0.014323	0	0		A	12070793	A	A	12070793	3	1	15	1	0	0	0	0	1	0	0	0	17030	1377	48	4	2802	4	UPF2	10	12070793	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6281721	12070793	123463954	388	11222											
NEBL	10529	broad.mit.edu	37	chr10	21074772	21074772	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatcgtcaataggctgcacGttgacgatgtagtcgccgtc	8	10	11	12	5	1	1	1	1	0	0	4	2	1	1	2	1	1	4	2	1	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:21074772G>A	uc001iqi.2	-	28	3346	c.2949C>T	c.(2947-2949)AAC>AAT	p.N983N	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Silent_p.N239N	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	983	SH3.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						TAGGCTGCACGTTGACGATGT	0.483													25	66					0	0	0.005443	0	0		A	21074772	A	A	21074772	2	1	15	1	0	0	0	0	0	0	0	1	10322	1136	40	1		1	NEBL	10	21074772	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	9003979	21074772	114459975	389	11223											
ARMC4	55130	broad.mit.edu	37	chr10	28274045	28274045	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcactttcaggatcatcatCtctggtaattttgccaagaa	11	15	6	9	0	5	1	4	0	1	1	6	2	5	2	1	2	1	1	1	2	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:28274045C>G	uc009xky.2	-	4	576	c.478G>C	c.(478-480)GAT>CAT	p.D160H	ARMC4_uc010qdt.1_5'Flank|ARMC4_uc001itz.2_Missense_Mutation_p.D160H	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	160							binding			ovary(4)|skin(2)	6						GGATCATCATCTCTGGTAATT	0.353													10	10					0	0	0.006214	0	0		G	28274045	G	G	28274045	3	3	15	1	0	0	0	0	1	0	0	0	954	913	32	5	2724	5	ARMC4	10	28274045	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	7199273	28274045	107260702	390	11224											
ERCC6	2074	broad.mit.edu	37	chr10	50686483	50686483	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtatggatttatggtatctcGtaagacacatgcacacttgt	11	14	9	7	1	1	1	0	0	1	1	2	2	1	2	0	2	1	4	0	2	4	6	rs121917901		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:50686483G>A	uc001jhs.3	-	11	2357	c.2203C>T	c.(2203-2205)CGA>TGA	p.R735*	ERCC6_uc009xod.2_5'Flank|ERCC6_uc010qgr.1_Nonsense_Mutation_p.R105*|ERCC6_uc001jhr.3_Nonsense_Mutation_p.R135*	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	735					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						ATGGTATCTCGTAAGACACAT	0.388								Direct_reversal_of_damage|NER					56	94					0	0	0.01441	0	0		A	50686483	A	A	50686483	4	1	15	1	0	0	0	0	0	1	0	0	5225	1153	40	1	2322	1	ERCC6	10	50686483	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	22412438	50686483	84848264	391	11225											
PCDH15	65217	broad.mit.edu	37	chr10	55581859	55581859	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgccttttggttctctcTgagggtctgttttacacact	5	17	10	9	0	3	1	0	1	3	0	4	2	3	2	1	3	2	2	1	3	1	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:55581859T>C	uc001jju.1	-	33	6022	c.5627A>G	c.(5626-5628)CAG>CGG	p.Q1876R	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Missense_Mutation_p.Q730R|PCDH15_uc010qhv.1_Missense_Mutation_p.Q1873R|PCDH15_uc010qhw.1_Missense_Mutation_p.Q1836R|PCDH15_uc010qhx.1_Missense_Mutation_p.Q1807R|PCDH15_uc010qhy.1_Missense_Mutation_p.Q1883R|PCDH15_uc010qhz.1_Missense_Mutation_p.Q1878R|PCDH15_uc010qia.1_Missense_Mutation_p.Q1856R|PCDH15_uc010qib.1_Missense_Mutation_p.Q1853R	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1876	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TGGTTCTCTCTGAGGGTCTGT	0.393										HNSCC(58;0.16)			51	106					0	0	0.01441	0	0		C	55581859	C	C	55581859	3	2	15	1	0	0	0	0	1	0	0	0	11530	1580	55	3	1850	3	PCDH15	10	55581859	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	4895376	55581859	79952888	392	11226											
PCDH15	65217	broad.mit.edu	37	chr10	55721625	55721625	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaactgtacatcatctactcTatacctcacacgacttgcag	13	11	4	13	1	4	0	2	0	2	0	4	1	4	0	1	0	5	2	1	0	5	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:55721625T>C	uc001jju.1	-	22	3291	c.2896A>G	c.(2896-2898)AGA>GGA	p.R966G	PCDH15_uc010qhq.1_Missense_Mutation_p.R971G|PCDH15_uc010qhr.1_Missense_Mutation_p.R966G|PCDH15_uc010qhs.1_Missense_Mutation_p.R978G|PCDH15_uc010qht.1_Missense_Mutation_p.R973G|PCDH15_uc010qhu.1_Missense_Mutation_p.R966G|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.R966G|PCDH15_uc010qhw.1_Missense_Mutation_p.R929G|PCDH15_uc010qhx.1_Missense_Mutation_p.R895G|PCDH15_uc010qhy.1_Missense_Mutation_p.R971G|PCDH15_uc010qhz.1_Missense_Mutation_p.R966G|PCDH15_uc010qia.1_Missense_Mutation_p.R944G|PCDH15_uc010qib.1_Missense_Mutation_p.R944G	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	966	Extracellular (Potential).|Cadherin 9.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TCATCTACTCTATACCTCACA	0.328										HNSCC(58;0.16)			27	55					0	0	0.004656	0	0		C	55721625	C	C	55721625	3	2	15	1	0	0	0	0	1	0	0	0	11530	1530	53	3	4638	3	PCDH15	10	55721625	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	139766	55721625	79813122	393	11227											
CTNNA3	29119	broad.mit.edu	37	chr10	68940246	68940246	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtcgtatttcctcctcAgttactgtgagtggattcag	7	15	11	8	1	2	1	2	1	0	0	5	3	4	2	2	2	1	2	2	2	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:68940246A>G	uc009xpn.1	-	7	999	c.876T>C	c.(874-876)ACT>ACC	p.T292T	CTNNA3_uc001jmw.2_Silent_p.T292T|CTNNA3_uc001jmx.3_Silent_p.T292T|CTNNA3_uc009xpo.1_Silent_p.T152T|CTNNA3_uc001jna.2_Silent_p.T304T	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	292					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						TTTCCTCCTCAGTTACTGTGA	0.423													15	58					0	0	0.003163	0	0		G	68940246	G	G	68940246	2	3	15	1	0	0	0	0	0	0	0	1	4017	175	7	3		3	CTNNA3	10	68940246	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	13218621	68940246	66594501	394	11228											
ADAMTS14	140766	broad.mit.edu	37	chr10	72489928	72489928	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcgctgggcacactcccAgcagcgccaggaccccagcc	7	4	12	18	2	0	0	0	0	0	0	2	1	1	1	5	2	3	3	5	2	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:72489928A>G	uc001jrh.2	+	6	1025	c.1025A>G	c.(1024-1026)CAG>CGG	p.Q342R	ADAMTS14_uc001jrg.2_Missense_Mutation_p.Q342R	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	342	Peptidase M12B.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						GCACACTCCCAGCAGCGCCAG	0.647													11	15					0	0	0.003163	0	0		G	72489928	G	G	72489928	3	3	15	1	0	0	0	0	1	0	0	0	259	188	7	3	1047	3	ADAMTS14	10	72489928	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	3549682	72489928	63044819	395	11229											
TTC18	118491	broad.mit.edu	37	chr10	75113397	75113397	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctagtgaagttgtattttGcacttccttctggagaaaca	10	15	9	7	0	1	2	0	1	1	1	2	3	2	2	1	1	3	4	1	1	4	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:75113397G>C	uc009xrc.2	-	3	288	c.167C>G	c.(166-168)GCA>GGA	p.A56G	TTC18_uc001jty.2_Missense_Mutation_p.A56G|TTC18_uc009xrd.1_5'UTR	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18	56							binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					GTTGTATTTTGCACTTCCTTC	0.408													23	37					0	0	0.014323	0	0		C	75113397	C	C	75113397	3	2	15	1	0	0	0	0	1	0	0	0	16711	1319	46	5	3302	5	TTC18	10	75113397	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2623469	75113397	60421350	396	11230											
PTEN	5728	broad.mit.edu	37	chr10	89624305	89624305	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcgacttagacttgaccTgtatccatttctgcggctgc	7	14	9	11	2	1	2	0	1	1	1	3	4	2	2	2	1	2	2	2	1	2	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:89624305T>G	uc001kfb.2	+	2	1110	c.79T>G	c.(79-81)TAT>GAT	p.Y27D	KILLIN_uc009xti.2_5'Flank	NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	27	Phosphatase tensin-type.		Y -> S (loss of phosphatase activity towards Ins(1,3,4,5)P4).		activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(13)|p.0?(12)|p.Y27fs*1(3)|p.Y27C(2)|p.Y27_N212>Y(2)|p.Y27S(1)|p.Y27fs*16(1)|p.Y27N(1)|p.Y27*(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		AGACTTGACCTGTATCCATTT	0.463		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			4	95					0	0	0.001168	0	0		G	89624305	G	G	89624305	3	3	15	1	0	0	0	0	1	0	0	0	12760	1594	55	5	81	5	PTEN	10	89624305	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	14510908	89624305	45910442	397	11231											
DNMBP	23268	broad.mit.edu	37	chr10	101731839	101731839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagttcttctgatacgctagGgcagaagtcaaaaatggctc	12	10	10	9	1	3	2	1	1	2	1	4	2	3	2	0	2	1	4	0	2	5	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:101731839G>A	uc001kqj.2	-	2	135	c.43C>T	c.(43-45)CCT>TCT	p.P15S		NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	15	SH3 1.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		GATACGCTAGGGCAGAAGTCA	0.423													6	88					0	0	0.001168	0	0		A	101731839	A	A	101731839	3	1	15	1	0	0	0	0	1	0	0	0	4680	1232	43	4	4754	4	DNMBP	10	101731839	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	12107534	101731839	33802908	398	11232											
SCD	6319	broad.mit.edu	37	chr10	102120550	102120550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actactctgccagtgagtacCgctggcacatcaacttcacc	10	9	7	15	1	3	1	2	1	1	0	3	1	3	1	3	1	4	3	3	1	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:102120550C>T	uc001kqy.2	+	6	1430	c.940C>T	c.(940-942)CGC>TGC	p.R314C		NM_005063	NP_005054	O00767	ACOD_HUMAN	stearoyl-CoA desaturase 1	314	Cytoplasmic (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity				0		Colorectal(252;0.0323)		Epithelial(162;1.97e-10)|all cancers(201;1.73e-08)		CAGTGAGTACCGCTGGCACAT	0.527													39	53					0	0	0.01441	0	0		T	102120550	T	T	102120550	3	4	15	1	0	0	0	0	1	0	0	0	13911	652	23	1	962	1	SCD	10	102120550	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	388711	102120550	33414197	399	11233											
SFXN2	118980	broad.mit.edu	37	chr10	104489523	104489523	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtgccctttgccgctgTggctgcggctaactgtgtca	3	12	14	12	2	1	0	1	0	0	0	1	0	1	0	2	3	4	3	2	3	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:104489523T>C	uc001kwb.2	+	6	717	c.551T>C	c.(550-552)GTG>GCG	p.V184A	SFXN2_uc001kwc.2_RNA|SFXN2_uc001kwd.2_Intron	NM_178858	NP_849189	Q96NB2	SFXN2_HUMAN	sideroflexin 2	184	Helical; (Potential).			QMALSYFTATTTAVATAVGMNMLTKKAPPLVGRWVPFAAVA AANCVNIPMMRQQELIKGI -> KRRPWWAAGCPLPLWLRL TVSISP (in Ref. 2).	iron ion homeostasis	integral to membrane	cation transmembrane transporter activity				0		Colorectal(252;0.207)		Epithelial(162;4.53e-09)|all cancers(201;1.2e-07)|BRCA - Breast invasive adenocarcinoma(275;0.218)		TTTGCCGCTGTGGCTGCGGCT	0.557											OREG0020485	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	24					0	0	0.012319	0	0		C	104489523	C	C	104489523	3	2	15	1	0	0	0	0	1	0	0	0	14220	1696	59	3	569	3	SFXN2	10	104489523	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2368973	104489523	31045224	400	11234											
PDCD11	22984	broad.mit.edu	37	chr10	105174906	105174906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggggatgaggtcaagtgcCgggtgagcctcctgaagggt	7	8	18	8	2	1	3	1	3	0	0	3	4	2	4	3	5	2	0	3	5	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:105174906C>T	uc001kwy.1	+	12	1603	c.1516C>T	c.(1516-1518)CGG>TGG	p.R506W		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	506	S1 motif 5.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		GGTCAAGTGCCGGGTGAGCCT	0.527													9	20					0	0	0.008291	0	0		T	105174906	T	T	105174906	3	4	15	1	0	0	0	0	1	0	0	0	11636	643	23	1	1558	1	PDCD11	10	105174906	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	685383	105174906	30359841	401	11235											
COL17A1	1308	broad.mit.edu	37	chr10	105823514	105823514	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacactgacctgaggaggAtgtgctgagtccagggtgca	9	8	16	8	0	0	4	0	4	0	0	1	6	1	6	2	3	2	2	2	3	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:105823514A>G	uc001kxr.2	-	11	998	c.829T>C	c.(829-831)TCC>CCC	p.S277P	COL17A1_uc010qqv.1_Missense_Mutation_p.S261P|COL17A1_uc009xxp.1_Missense_Mutation_p.S277P	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	277	Cytoplasmic (Potential).|Nonhelical region (NC16).				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		CCTGAGGAGGATGTGCTGAGT	0.522													5	36					0	0	0.000602	0	0		G	105823514	G	G	105823514	3	3	15	1	0	0	0	0	1	0	0	0	3677	333	12	3	3848	3	COL17A1	10	105823514	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	648608	105823514	29711233	402	11236											
TCF7L2	6934	broad.mit.edu	37	chr10	114925501	114925501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctgaagcccgaccccctgGcccacctgtccatgatgcct	6	7	8	20	1	0	2	0	2	0	0	1	3	1	2	8	1	2	0	8	1	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:114925501G>A	uc001lae.3	+	14	2086	c.1579G>A	c.(1579-1581)GCC>ACC	p.A527T	TCF7L2_uc001lac.3_Missense_Mutation_p.A521T|TCF7L2_uc010qrk.1_3'UTR|TCF7L2_uc010qrl.1_Missense_Mutation_p.A504T|TCF7L2_uc010qrm.1_3'UTR|TCF7L2_uc010qrn.1_3'UTR|TCF7L2_uc001lad.3_3'UTR|TCF7L2_uc001lag.3_3'UTR|TCF7L2_uc001laf.3_Missense_Mutation_p.A504T|TCF7L2_uc010qro.1_3'UTR|TCF7L2_uc001lah.2_3'UTR|TCF7L2_uc010qrp.1_3'UTR|TCF7L2_uc010qrq.1_3'UTR|TCF7L2_uc010qrr.1_Missense_Mutation_p.A459T|TCF7L2_uc010qrs.1_Missense_Mutation_p.A415T|TCF7L2_uc010qrt.1_Missense_Mutation_p.A415T|TCF7L2_uc010qru.1_3'UTR|TCF7L2_uc010qrv.1_3'UTR|TCF7L2_uc010qrw.1_3'UTR|TCF7L2_uc010qrx.1_3'UTR	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	544					anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		CGACCCCCTGGCCCACCTGTC	0.706													13	21					0	0	0.004007	0	0		A	114925501	A	A	114925501	3	1	15	1	0	0	0	0	1	0	0	0	15723	1203	42	2	1910	2	TCF7L2	10	114925501	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	9101987	114925501	20609246	403	11237											
GFRA1	2674	broad.mit.edu	37	chr10	118030461	118030461	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcgctgcggcactcatcCttggcctccaggccggatgc	5	8	13	15	3	1	0	1	0	0	0	3	1	3	1	4	5	2	2	4	5	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:118030461C>A	uc001lcj.2	-	3	905	c.207G>T	c.(205-207)AAG>AAT	p.K69N	GFRA1_uc001lci.2_Missense_Mutation_p.K69N|GFRA1_uc009xyr.2_Missense_Mutation_p.K69N	NM_005264	NP_005255	P56159	GFRA1_HUMAN	GDNF family receptor alpha 1 isoform a	69	1.				axon guidance	anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity			ovary(1)|pancreas(1)	2		Lung NSC(174;0.21)		all cancers(201;0.0337)		GGCACTCATCCTTGGCCTCCA	0.612													11	36					9.70103e-10	1.10135e-09	0.008291	1	0		A	118030461	A	A	118030461	3	1	15	1	0	0	0	0	1	0	0	0	6362	680	24	5	1226	5	GFRA1	10	118030461	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3104960	118030461	17504286	404	11238											
PRLHR	2834	broad.mit.edu	37	chr10	120353797	120353797	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaactcatggcgagccagtgGcagagcagctgcaccagccc	10	4	13	14	1	1	1	1	0	0	1	1	3	1	1	3	2	6	4	3	2	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:120353797G>A	uc001ldp.1	-	2	1099	c.960C>T	c.(958-960)TGC>TGT	p.C320C		NM_004248	NP_004239	P49683	PRLHR_HUMAN	G protein-coupled receptor 10	320	Helical; Name=7; (Potential).				female pregnancy	integral to plasma membrane	neuropeptide Y receptor activity				0		Colorectal(252;0.0429)|Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0166)		CGAGCCAGTGGCAGAGCAGCT	0.647													13	8					0	0	0.006122	0	0		A	120353797	A	A	120353797	2	1	15	1	0	0	0	0	0	0	0	1	12552	1195	42	2		2	PRLHR	10	120353797	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2323336	120353797	15180950	405	11239											
SFXN4	119559	broad.mit.edu	37	chr10	120925115	120925115	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggacggcgtctctgcgtccTaggagccgcccaggttgcgt	4	8	16	13	5	1	0	0	0	1	0	3	2	2	2	3	4	3	1	3	4	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:120925115T>G	uc001leb.2	-	1	90	c.45A>C	c.(43-45)CTA>CTC	p.L15L	SFXN4_uc001ldz.2_5'Flank|SFXN4_uc001lea.2_RNA	NM_213649	NP_998814	Q6P4A7	SFXN4_HUMAN	sideroflexin 4	15					iron ion homeostasis	integral to membrane|mitochondrial membrane	cation transmembrane transporter activity			ovary(1)	1		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0261)		CTCTGCGTCCTAGGAGCCGCC	0.532													8	11					0	0	0.010729	0	0		G	120925115	G	G	120925115	2	3	15	1	0	0	0	0	0	0	0	1	14222	1509	53	5		5	SFXN4	10	120925115	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	571318	120925115	14609632	406	11240											
TACC2	10579	broad.mit.edu	37	chr10	123844834	123844834	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcagcaccaacgagacagaAgttgcctgcactaggggaga	13	5	13	10	1	1	3	1	0	0	3	1	5	1	3	2	2	4	3	2	2	3	2	rs140606887	byFrequency	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:123844834A>C	uc001lfv.2	+	4	3179	c.2819A>C	c.(2818-2820)AAG>ACG	p.K940T	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.K940T|TACC2_uc010qtv.1_Missense_Mutation_p.K940T	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	940						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				ACGAGACAGAAGTTGCCTGCA	0.522													35	44					0	0	0.00623	0	0		C	123844834	C	C	123844834	3	2	15	1	0	0	0	0	1	0	0	0	15527	72	3	5	2829	5	TACC2	10	123844834	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	2919719	123844834	11689913	407	11241											
TACC2	10579	broad.mit.edu	37	chr10	123903103	123903103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcatctccccagctgctGcccatgcgggtcttcctccc	4	9	8	20	1	2	0	0	0	2	0	5	0	4	0	6	1	5	3	6	1	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:123903103G>A	uc001lfv.2	+	7	6076	c.5716G>A	c.(5716-5718)GCC>ACC	p.A1906T	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Intron|TACC2_uc010qtv.1_Intron|TACC2_uc001lfx.2_Intron|TACC2_uc001lfy.2_Intron	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1906						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				CCCAGCTGCTGCCCATGCGGG	0.572											OREG0020589	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	66					0	0	0.001168	0	0		A	123903103	A	A	123903103	3	1	15	1	0	0	0	0	1	0	0	0	15527	1319	46	2	5738	2	TACC2	10	123903103	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	58269	123903103	11631644	408	11242											
DOCK1	1793	broad.mit.edu	37	chr10	129172450	129172450	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacgacgagaacaaagaaaAccgcatgagctgcaccgtca	16	3	10	12	4	1	3	1	1	0	2	1	5	1	3	2	0	4	4	2	0	4	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:129172450A>C	uc001ljt.2	+	35	3648	c.3584A>C	c.(3583-3585)AAC>ACC	p.N1195T	DOCK1_uc010qun.1_Missense_Mutation_p.N1216T|DOCK1_uc009yaq.2_Missense_Mutation_p.N190T	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	1195	DHR-2.				apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		AACAAAGAAAACCGCATGAGC	0.453													19	25					0	0	0.00333	0	0		C	129172450	C	C	129172450	3	2	15	1	0	0	0	0	1	0	0	0	4690	43	2	5	3722	5	DOCK1	10	129172450	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	5269347	129172450	6362297	409	11243											
MKI67	4288	broad.mit.edu	37	chr10	129905499	129905499	+	Silent	SNP	G	C	C																															ttgggtgtgtgcatggctttGcctgctgatggtgttcgttt																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:129905499G>C	uc001lke.2	-	13	4800	c.4605C>G	c.(4603-4605)GGC>GGG	p.G1535G	MKI67_uc001lkf.2_Silent_p.G1175G|MKI67_uc009yav.1_Silent_p.G1110G|MKI67_uc009yaw.1_Silent_p.G685G	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1535	5.|16 X 122 AA approximate repeats.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GCATGGCTTTGCCTGCTGATG	0.473													111	193					0	0	0.01441	0	0		C	129905499	C	C	129905499	2	2	15	1	0	0	0	0	0	0	0	1	9616	1306	46	5		5	MKI67	10	129905499	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	733049	129905499	5629248	410	11244	16	2									
MKI67	4288	broad.mit.edu	37	chr10	129905503	129905503	+	Missense_Mutation	SNP	G	A	A																															gtgtgtgcatggctttgcctGctgatggtgttcgtttcctg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:129905503G>A	uc001lke.2	-	13	4796	c.4601C>T	c.(4600-4602)GCA>GTA	p.A1534V	MKI67_uc001lkf.2_Missense_Mutation_p.A1174V|MKI67_uc009yav.1_Missense_Mutation_p.A1109V|MKI67_uc009yaw.1_Missense_Mutation_p.A684V	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1534	5.|16 X 122 AA approximate repeats.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GGCTTTGCCTGCTGATGGTGT	0.488													105	194					0	0	0.01441	0	0		A	129905503	A	A	129905503	3	1	15	1	0	0	0	0	1	0	0	0	9616	1319	46	2	5181	2	MKI67	10	129905503	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	4	129905503	5629244	411	11245	16	2									
DPYSL4	10570	broad.mit.edu	37	chr10	134014458	134014458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaccaacggcattgaggagCgcatgtcgatggtctgggag	9	7	16	9	3	1	1	0	1	1	0	2	4	1	3	1	4	2	3	1	4	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:134014458C>T	uc009ybb.2	+	10	1235	c.1081C>T	c.(1081-1083)CGC>TGC	p.R361C		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	361					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		CATTGAGGAGCGCATGTCGAT	0.647													13	21					0	0	0.001855	0	0		T	134014458	T	T	134014458	3	4	15	1	0	0	0	0	1	0	0	0	4755	768	27	1	1119	1	DPYSL4	10	134014458	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	4108955	134014458	1520289	412	11246											
LRRC27	80313	broad.mit.edu	37	chr10	134188696	134188696	+	Frame_Shift_Del	DEL	T	-	-																															cagcacagcctcaaaatacaTtttttaacacaaaatatgga																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr10:134188696delT	uc010quw.1	+	11	1738	c.1543delT	c.(1543-1545)TTTfs	p.F515fs	LRRC27_uc001llg.2_RNA|LRRC27_uc001lli.2_Frame_Shift_Del_p.F515fs|LRRC27_uc001llj.2_Frame_Shift_Del_p.F453fs	NM_030626	NP_085129	Q9C0I9	LRC27_HUMAN	leucine rich repeat containing 27 isoform a	515										ovary(1)	1		all_cancers(35;6.28e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;9.12e-05)|Epithelial(32;0.000116)|all cancers(32;0.000145)|BRCA - Breast invasive adenocarcinoma(275;0.218)		TCAAAATACATTTTTTAACAC	0.493													22	27	---	---	---	---						.	-	134188696	-	-	134188696	7	5	15	1	0	1	0	1	0	0	0	0	8999	1493	52	0	1763	0	LRRC27	10	134188696	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	174238	134188696	1346051	413	11247											
TRPM5	29850	broad.mit.edu	37	chr11	2438983	2438983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgccttcaggatgaccGtgtccagctcctcggagccc	6	7	11	17	3	1	1	1	1	0	0	4	3	3	3	6	2	3	1	6	2	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:2438983G>A	uc001lwm.3	-	7	992	c.983C>T	c.(982-984)ACG>ATG	p.T328M	TRPM5_uc010qxl.1_Missense_Mutation_p.T328M|TRPM5_uc009ydn.2_Missense_Mutation_p.T330M	NM_014555	NP_055370	Q9NZQ8	TRPM5_HUMAN	transient receptor potential cation channel,	328	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity|voltage-gated ion channel activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Medulloblastoma(188;0.0049)|Breast(177;0.00586)|all_epithelial(84;0.0075)|Ovarian(85;0.0256)|all_neural(188;0.0311)		BRCA - Breast invasive adenocarcinoma(625;0.00147)|LUSC - Lung squamous cell carcinoma(625;0.191)		CAGGATGACCGTGTCCAGCTC	0.632													8	5					0	0	0.010729	0	0		A	2438983	A	A	2438983	3	1	15	1	0	0	0	0	1	0	0	0	16615	1145	40	1	2586	1	TRPM5	11	2438983	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08		2438983	132567533	414	11248											
ART1	417	broad.mit.edu	37	chr11	3681478	3681478	+	Frame_Shift_Del	DEL	C	-	-																															ggagaggaagaggtgctgatCcccccctttgagaccttcca																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:3681478delC	uc001lye.1	+	3	830	c.729delC	c.(727-729)ATCfs	p.I243fs	ART1_uc009yeb.1_Frame_Shift_Del_p.I243fs	NM_004314	NP_004305	P52961	NAR1_HUMAN	ADP-ribosyltransferase 1 precursor	243					protein ADP-ribosylation	anchored to membrane|integral to plasma membrane|sarcoplasmic reticulum membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity				0		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0351)|LUSC - Lung squamous cell carcinoma(625;0.195)	Becaplermin(DB00102)	AGGTGCTGATCCCCCCCTTTG	0.607													33	41	---	---	---	---						.	-	3681478	-	-	3681478	7	5	15	1	0	1	0	1	0	0	0	0	998	845	30	0	735	0	ART1	11	3681478	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	1242495	3681478	131325038	415	11249											
OR52K1	390036	broad.mit.edu	37	chr11	4510933	4510933	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcatgcaccgtgtagcccGccatgctgcccctcgtgtcc	5	9	10	17	3	1	0	1	0	0	0	3	0	2	0	6	0	4	3	6	0	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:4510933G>A	uc001lza.1	+	1	803	c.803G>A	c.(802-804)CGC>CAC	p.R268H		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		CGTGTAGCCCGCCATGCTGCC	0.502													79	69					0	0	0.01441	0	0		A	4510933	A	A	4510933	3	1	15	1	0	0	0	0	1	0	0	0	11142	1087	38	1	805	1	OR52K1	11	4510933	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	829455	4510933	130495583	416	11250											
UBQLN3	50613	broad.mit.edu	37	chr11	5528836	5528836	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctcctacgactgtctcagCttctccacagcagcatccac	8	9	7	17	1	2	0	1	0	2	0	6	1	4	0	3	1	4	4	3	1	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:5528836C>T	uc001may.1	-	2	2039	c.1953G>A	c.(1951-1953)AAG>AAA	p.K651K	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	651	UBA.									ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTGTCTCAGCTTCTCCACAG	0.507													24	32					0	0	0.003954	0	0		T	5528836	T	T	5528836	2	4	15	1	0	0	0	0	0	0	0	1	16924	796	28	2		2	UBQLN3	11	5528836	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1017903	5528836	129477680	417	11251											
TUB	7275	broad.mit.edu	37	chr11	8118863	8118863	+	Frame_Shift_Del	DEL	C	-	-																															ggagtttgcactgaggccggCcccccagggtatcaccatca																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:8118863delC	uc001mga.2	+	7	925	c.776delC	c.(775-777)GCCfs	p.A259fs	TUB_uc010rbk.1_Frame_Shift_Del_p.A265fs|TUB_uc001mfy.2_Frame_Shift_Del_p.A314fs	NM_177972	NP_813977	P50607	TUB_HUMAN	tubby isoform b	259					phagocytosis|positive regulation of phagocytosis|response to stimulus	cytoplasm|extracellular region|nucleus|plasma membrane				ovary(1)	1		all_lung(207;6.91e-20)|Lung NSC(207;3.36e-17)		Epithelial(150;1.69e-62)|BRCA - Breast invasive adenocarcinoma(625;8.54e-06)|LUSC - Lung squamous cell carcinoma(625;0.000184)		CTGAGGCCGGCCCCCCAGGGT	0.597													33	66	---	---	---	---						.	-	8118863	-	-	8118863	7	5	15	1	0	1	0	1	0	0	0	0	16768	739	26	0	1013	0	TUB	11	8118863	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	2590027	8118863	126887653	418	11252											
CTR9	9646	broad.mit.edu	37	chr11	10785739	10785739	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaaatcttagaacagacTgatatacaggtattttagta	16	12	7	6	0	1	3	0	1	1	2	1	3	1	3	0	1	2	3	0	1	8	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:10785739T>C	uc001mja.2	+	10	1424	c.1275T>C	c.(1273-1275)ACT>ACC	p.T425T		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	425	TPR 8.				histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		TAGAACAGACTGATATACAGG	0.368													31	62					0	0	0.008361	0	0		C	10785739	C	C	10785739	2	2	15	1	0	0	0	0	0	0	0	1	4027	1567	55	3		3	CTR9	11	10785739	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2666876	10785739	124220777	419	11253											
MICALCL	84953	broad.mit.edu	37	chr11	12315225	12315225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggaaattcccctgtatctgCctcatcacccaaagccagag	11	8	8	14	0	3	1	2	0	1	1	4	2	4	2	5	1	2	1	5	1	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:12315225C>T	uc001mkg.1	+	3	538	c.247C>T	c.(247-249)CCT>TCT	p.P83S		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	83	Interaction with MAPK1 (By similarity).				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		CCTGTATCTGCCTCATCACCC	0.587													64	106					0	0	0.01441	0	0		T	12315225	T	T	12315225	3	4	15	1	0	0	0	0	1	0	0	0	9590	739	26	2	253	2	MICALCL	11	12315225	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1529486	12315225	122691291	420	11254											
SOX6	55553	broad.mit.edu	37	chr11	16119182	16119184	+	In_Frame_Del	DEL	AGC	-	-																															tgtaaagggctgagtccagaAgcagcagcagctgccattgt																								rs150961105		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:16119182_16119184delAGC	uc001mme.2	-	8	1021_1023	c.988_990delGCT	c.(988-990)GCTdel	p.A330del	SOX6_uc001mmd.2_In_Frame_Del_p.A320del|SOX6_uc001mmf.2_In_Frame_Del_p.A317del|SOX6_uc001mmg.2_In_Frame_Del_p.A317del	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	317	Poly-Ala.				muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						TGAGTCCAGAAGCAGCAGCAGCT	0.458													21	42	---	---	---	---						.	-	16119184	-	-	16119182	7	5	15	1	0	1	0	1	0	0	0	0	14980	59	3	0	1613	0	SOX6	11	16119182	In_Frame_Del	DEL	AGC	TCGA-BR-4280-01A-01D-1126-08	3803957	16119182	118887334	421	11255											
CHST1	8534	broad.mit.edu	37	chr11	45671618	45671618	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgggggccgcatgaggcCggtggacacggagttggaga	8	4	19	10	4	0	2	0	1	0	1	0	5	0	4	3	7	0	2	3	7	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:45671618C>A	uc001mys.1	-	4	1527	c.856G>T	c.(856-858)GGC>TGC	p.G286C		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	286	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CGCATGAGGCCGGTGGACACG	0.622													9	26					2.61681e-11	2.99552e-11	0.00245	1	0		A	45671618	A	A	45671618	3	1	15	1	0	0	0	0	1	0	0	0	3400	652	23	5	383	5	CHST1	11	45671618	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	29552436	45671618	89334898	422	11256											
HARBI1	283254	broad.mit.edu	37	chr11	46625165	46625165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctcatactcctcttccGggggctgttccatgggtcct	3	14	11	13	1	2	0	1	0	1	0	6	0	6	0	4	3	2	3	4	3	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:46625165G>A	uc001ncy.2	-	3	1213	c.965C>T	c.(964-966)CCG>CTG	p.P322L		NM_173811	NP_776172	Q96MB7	HARB1_HUMAN	harbinger transposase derived 1	322						cytoplasm|nucleus	metal ion binding|nuclease activity				0						CTCCTCTTCCGGGGGCTGTTC	0.512													24	45					0	0	0.00333	0	0		A	46625165	A	A	46625165	3	1	15	1	0	0	0	0	1	0	0	0	6974	1116	39	1	88	1	HARBI1	11	46625165	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	953547	46625165	88381351	423	11257											
LRP4	4038	broad.mit.edu	37	chr11	46910972	46910972	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccacttactctgggcacaGgcgtggctgctgatcttgcg	6	10	12	13	2	2	1	0	1	2	0	2	1	2	1	1	3	3	3	1	3	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:46910972G>T	uc001ndn.3	-	16	2351	c.2205C>A	c.(2203-2205)GCC>GCA	p.A735A		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	735	Extracellular (Potential).|EGF-like 3.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		TCTGGGCACAGGCGTGGCTGC	0.607											OREG0020948	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	37					5.71845e-15	6.64056e-15	0.005524	1	0		T	46910972	T	T	46910972	2	4	15	1	0	0	0	0	0	0	0	1	8977	987	35	5		5	LRP4	11	46910972	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	285807	46910972	88095544	424	11258											
OR4C16	219428	broad.mit.edu	37	chr11	55340531	55340531	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattgatcacagatgacaaaAgataaatgaaggtttcaaat	20	10	7	4	0	2	5	2	3	0	2	2	5	2	5	0	1	0	1	0	1	7	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:55340531A>C	uc010rih.1	+	1	928	c.928A>C	c.(928-930)AGA>CGA	p.R310R		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				AGATGACAAAAGATAAATGAA	0.333													6	15					0	0	0.001168	0	0		C	55340531	C	C	55340531	2	2	15	1	0	0	0	0	0	0	0	1	11068	64	3	5		5	OR4C16	11	55340531	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	8429559	55340531	79665985	425	11259											
OR5D18	219438	broad.mit.edu	37	chr11	55587286	55587286	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaactgcatacccccatgTactttttcctcagccaactc	10	11	3	17	0	1	0	1	0	0	0	3	0	2	0	5	0	6	2	5	0	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:55587286T>C	uc010rin.1	+	1	181	c.181T>C	c.(181-183)TAC>CAC	p.Y61H		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	61	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				TACCCCCATGTACTTTTTCCT	0.433													55	128					0	0	0.01441	0	0		C	55587286	C	C	55587286	3	2	15	1	0	0	0	0	1	0	0	0	11176	1638	57	3	183	3	OR5D18	11	55587286	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	246755	55587286	79419230	426	11260											
SLC43A1	8501	broad.mit.edu	37	chr11	57258808	57258808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaggcacaacagctgcatgGccccgaagacggaggagtag	13	3	15	10	2	0	1	0	0	0	1	0	5	0	3	2	4	3	4	2	4	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:57258808G>A	uc001nkk.2	-	11	1200	c.1082C>T	c.(1081-1083)GCC>GTC	p.A361V	SLC43A1_uc001nkl.2_Missense_Mutation_p.A361V	NM_003627	NP_003618	O75387	LAT3_HUMAN	solute carrier family 43, member 1	361	Helical; (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	neutral amino acid transmembrane transporter activity				0						CAGCTGCATGGCCCCGAAGAC	0.612													5	23					0	0	0.001168	0	0		A	57258808	A	A	57258808	3	1	15	1	0	0	0	0	1	0	0	0	14657	1203	42	2	617	2	SLC43A1	11	57258808	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1671522	57258808	77747708	427	11261											
ROM1	6094	broad.mit.edu	37	chr11	62382265	62382265	+	Frame_Shift_Del	DEL	C	-	-																															caggccagcacctgaggaggCcccaccaggagaagcacctc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:62382265delC	uc001ntv.2	+	3	1551	c.1010delC	c.(1009-1011)GCCfs	p.A337fs	EML3_uc001ntt.1_5'Flank|EML3_uc001ntu.1_5'Flank|EML3_uc010rly.1_5'Flank	NM_000327	NP_000318	Q03395	ROM1_HUMAN	retinal outer segment membrane protein 1	337	Cytoplasmic (Potential).				cell adhesion|visual perception	integral to plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						CCTGAGGAGGCCCCACCAGGA	0.582													27	32	---	---	---	---						.	-	62382265	-	-	62382265	7	5	15	1	0	1	0	1	0	0	0	0	13546	739	26	0	1020	0	ROM1	11	62382265	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	5123457	62382265	72624251	428	11262											
INTS5	80789	broad.mit.edu	37	chr11	62416571	62416571	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggaggggtccccactgcgGcctccagatccccctgccag	6	5	13	17	1	0	1	0	0	0	1	3	2	3	2	7	4	2	0	7	4	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:62416571G>A	uc001nud.2	-	2	1034	c.981C>T	c.(979-981)GGC>GGT	p.G327G	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	327					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						CCCCACTGCGGCCTCCAGATC	0.617													5	71					0	0	0.00308	0	0		A	62416571	A	A	62416571	2	1	15	1	0	0	0	0	0	0	0	1	7797	1190	42	2		2	INTS5	11	62416571	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	34306	62416571	72589945	429	11263											
C11orf84	144097	broad.mit.edu	37	chr11	63585488	63585488	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctcgcacatcttggagcaGcaccctcacaccttggacct	8	8	8	17	2	2	0	1	0	1	0	3	2	2	2	3	2	2	4	3	2	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:63585488G>T	uc001nxt.2	+	2	575	c.339G>T	c.(337-339)CAG>CAT	p.Q113H		NM_138471	NP_612480	Q9BUA3	CK084_HUMAN	hypothetical protein LOC144097	113											0						TCTTGGAGCAGCACCCTCACA	0.642													11	19					2.80697e-09	3.17182e-09	0.010729	1	0		T	63585488	T	T	63585488	3	4	15	1	0	0	0	0	1	0	0	0	1670	962	34	5	345	5	C11orf84	11	63585488	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1168917	63585488	71421028	430	11264											
CDC42BPG	55561	broad.mit.edu	37	chr11	64606355	64606355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcacgtcaggcacgtccGgggggaactgcaggtggtcc	6	6	17	12	3	1	0	1	0	0	0	3	1	3	1	2	7	2	3	2	7	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:64606355G>A	uc001obs.3	-	8	896	c.896C>T	c.(895-897)CCG>CTG	p.P299L		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	299	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						AGGCACGTCCGGGGGGAACTG	0.672													5	9					0	0	0.001168	0	0		A	64606355	A	A	64606355	3	1	15	1	0	0	0	0	1	0	0	0	3077	1116	39	1	3879	1	CDC42BPG	11	64606355	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1020867	64606355	70400161	431	11265											
PPP2R5B	5526	broad.mit.edu	37	chr11	64698015	64698015	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttcctggttcgcgtccTgatccccctgcactctgtca	4	12	9	16	2	2	1	1	1	1	0	6	1	5	1	4	1	1	4	4	1	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:64698015T>G	uc001oby.2	+	8	1430	c.845T>G	c.(844-846)CTG>CGG	p.L282R	PPP2R5B_uc001obz.2_Missense_Mutation_p.L282R	NM_006244	NP_006235	Q15173	2A5B_HUMAN	beta isoform of regulatory subunit B56, protein	282					signal transduction	cytoplasm|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(2)	2						GTTCGCGTCCTGATCCCCCTG	0.612													12	70					0	0	0.003163	0	0		G	64698015	G	G	64698015	3	3	15	1	0	0	0	0	1	0	0	0	12415	1580	55	5	871	5	PPP2R5B	11	64698015	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	91660	64698015	70308501	432	11266											
EHBP1L1	254102	broad.mit.edu	37	chr11	65349384	65349384	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggagtcagagctggggAggctgaagagagttcagcag	11	6	18	6	0	3	3	3	1	0	2	3	6	3	5	0	4	2	4	0	4	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:65349384A>G	uc001oeo.3	+	9	1506	c.1241A>G	c.(1240-1242)GAG>GGG	p.E414G	EHBP1L1_uc001oep.1_Missense_Mutation_p.E34G	NM_001099409	NP_001092879	Q8N3D4	EH1L1_HUMAN	tangerin	414										central_nervous_system(1)	1						AGAGCTGGGGAGGCTGAAGAG	0.567													17	18					0	0	0.008871	0	0		G	65349384	G	G	65349384	3	3	15	1	0	0	0	0	1	0	0	0	4982	304	11	3	1275	3	EHBP1L1	11	65349384	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	651369	65349384	69657132	433	11267											
PCNXL3	399909	broad.mit.edu	37	chr11	65386142	65386142	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcccggcctccagtctcCgatcgcagcgccgctacagt	6	7	11	17	5	1	1	0	1	1	0	4	2	2	1	5	1	3	2	5	1	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:65386142C>T	uc001oey.2	+	6	1309	c.1309C>T	c.(1309-1311)CGA>TGA	p.R437*		NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	437	Ser-rich.					integral to membrane					0						CTCCAGTCTCCGATCGCAGCG	0.647													11	19					0	0	0.001855	0	0		T	65386142	T	T	65386142	4	4	15	1	0	0	0	0	0	1	0	0	11612	644	23	1	1331	1	PCNXL3	11	65386142	Nonsense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	36758	65386142	69620374	434	11268											
RBM4B	83759	broad.mit.edu	37	chr11	66436473	66436473	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcagaagccgctgccgcCgctgctactgcctcataaga	9	8	10	14	3	1	2	1	0	0	2	1	2	1	2	4	0	6	4	4	0	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:66436473C>T	uc001oja.2	-	2	1371	c.702G>A	c.(700-702)GCG>GCA	p.A234A	RBM4B_uc001ojb.2_Silent_p.A234A	NM_031492	NP_113680	Q9BQ04	RBM4B_HUMAN	RNA binding motif protein 4B	234	Interaction with TNPO3 (By similarity).|Poly-Ala.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|RNA splicing	nucleolus	nucleotide binding|RNA binding|zinc ion binding				0						CCGCTGCCGCCGCTGCTACTG	0.532													9	15					0	0	0.003163	0	0		T	66436473	T	T	66436473	2	4	15	1	0	0	0	0	0	0	0	1	13167	639	23	1		1	RBM4B	11	66436473	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1050331	66436473	68570043	435	11269											
TBX10	347853	broad.mit.edu	37	chr11	67400514	67400514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcgctcactgtccttgcGtgggtccacgaagaccacgt	8	9	11	13	4	1	1	1	0	0	1	3	2	3	1	3	1	2	1	3	1	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:67400514G>A	uc001omp.2	-	5	698	c.610C>T	c.(610-612)CGC>TGC	p.R204C		NM_005995	NP_005986	O75333	TBX10_HUMAN	T-box 10	204	T-box.				anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						CTGTCCTTGCGTGGGTCCACG	0.567													50	166					0	0	0.01441	0	0		A	67400514	A	A	67400514	3	1	15	1	0	0	0	0	1	0	0	0	15676	1145	40	1	563	1	TBX10	11	67400514	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	964041	67400514	67606002	436	11270											
ALDH3B1	221	broad.mit.edu	37	chr11	67789015	67789015	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcacctgacacctgtcacCctggagctggggggcaagaa	11	5	13	12	0	1	2	1	1	0	1	1	3	1	3	3	4	2	3	3	4	3	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:67789015C>T	uc010rpy.1	+	8	740	c.624C>T	c.(622-624)ACC>ACT	p.T208T	ALDH3B1_uc001omz.2_Silent_p.T208T|ALDH3B1_uc001ona.2_Silent_p.T171T|ALDH3B1_uc001onb.2_RNA	NM_001161473	NP_001154945	P43353	AL3B1_HUMAN	aldehyde dehydrogenase 3B1 isoform a	208					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase				0					NADH(DB00157)	CACCTGTCACCCTGGAGCTGG	0.632											OREG0021141	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	79					0	0	0.010771	0	0		T	67789015	T	T	67789015	2	4	15	1	0	0	0	0	0	0	0	1	499	610	22	4		4	ALDH3B1	11	67789015	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	388501	67789015	67217501	437	11271											
NUMA1	4926	broad.mit.edu	37	chr11	71733444	71733444	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttggagctcatggtagagtGgtataagagcagcatggtca	11	11	14	5	0	2	2	2	0	0	2	2	3	2	3	0	4	3	5	0	4	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:71733444G>T	uc001orl.1	-	7	485	c.313C>A	c.(313-315)CAC>AAC	p.H105N	NUMA1_uc001ork.1_Missense_Mutation_p.H105N|NUMA1_uc001orm.1_Missense_Mutation_p.H105N|NUMA1_uc009ysx.1_Missense_Mutation_p.H105N|NUMA1_uc001oro.1_Missense_Mutation_p.H105N|NUMA1_uc009ysy.1_Missense_Mutation_p.H105N|NUMA1_uc001orp.2_Missense_Mutation_p.H105N|NUMA1_uc001orq.2_Missense_Mutation_p.H105N	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	105					G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						ATGGTAGAGTGGTATAAGAGC	0.532			T	RARA	APL								41	77					2.58029e-29	3.09314e-29	0.009718	1	0		T	71733444	T	T	71733444	3	4	15	1	0	0	0	0	1	0	0	0	10769	1348	47	5	6118	5	NUMA1	11	71733444	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3944429	71733444	63273072	438	11272											
FOLR2	2350	broad.mit.edu	37	chr11	71932697	71932697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccccaacgaggaagtggCgaggttctatgctgcagcca	11	6	12	12	2	1	0	0	0	1	0	1	3	1	1	3	3	5	3	3	3	4	2	rs140546240		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:71932697C>T	uc009ytd.2	+	5	828	c.659C>T	c.(658-660)GCG>GTG	p.A220V	FOLR2_uc009yte.2_Missense_Mutation_p.A220V|FOLR2_uc001ose.3_Missense_Mutation_p.A220V|FOLR2_uc009ytf.2_Missense_Mutation_p.A220V	NM_001113534	NP_001107006	P14207	FOLR2_HUMAN	folate receptor 2 precursor	220					folic acid transport	anchored to membrane|extracellular region|membrane fraction|plasma membrane	folic acid binding|receptor activity			breast(2)|ovary(1)	3					Folic Acid(DB00158)	GAGGAAGTGGCGAGGTTCTAT	0.577													26	38					0	0	0.009535	0	0		T	71932697	T	T	71932697	3	4	15	1	0	0	0	0	1	0	0	0	5996	768	27	1	673	1	FOLR2	11	71932697	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	199253	71932697	63073819	439	11273											
CLPB	81570	broad.mit.edu	37	chr11	72006671	72006671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcaatcaatggtcttccCttttccatctgtcagccggc	6	14	7	14	1	4	0	2	0	2	0	6	0	6	0	3	2	2	1	3	2	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:72006671C>T	uc001osj.2	-	13	1491	c.1441G>A	c.(1441-1443)GGG>AGG	p.G481R	CLPB_uc010rqx.1_Missense_Mutation_p.G436R|CLPB_uc010rqy.1_Missense_Mutation_p.G422R|CLPB_uc001osk.2_Missense_Mutation_p.G451R|CLPB_uc009ytg.2_RNA|CLPB_uc010rqz.1_Missense_Mutation_p.G280R|CLPB_uc001osi.2_Missense_Mutation_p.G89R	NM_030813	NP_110440	Q9H078	CLPB_HUMAN	caseinolytic peptidase B	481					cellular response to heat		ATP binding|nucleoside-triphosphatase activity|protein binding			pancreas(1)	1						ATGGTCTTCCCTTTTCCATCT	0.488													6	11					0	0	0.001984	0	0		T	72006671	T	T	72006671	3	4	15	1	0	0	0	0	1	0	0	0	3554	681	24	4	702	4	CLPB	11	72006671	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	73974	72006671	62999845	440	11274											
MYO7A	4647	broad.mit.edu	37	chr11	76905421	76905421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacgacctggctgagctggCctcccagcagtactttgtag	7	9	13	12	1	0	1	0	1	0	0	1	3	1	2	3	3	3	5	3	3	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:76905421C>T	uc001oyb.2	+	32	4447	c.4175C>T	c.(4174-4176)GCC>GTC	p.A1392V	MYO7A_uc010rsm.1_Missense_Mutation_p.A1381V|MYO7A_uc001oyc.2_Missense_Mutation_p.A1392V|MYO7A_uc009yus.1_RNA|MYO7A_uc009yut.1_Missense_Mutation_p.A603V	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	1392	FERM 1.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						GCTGAGCTGGCCTCCCAGCAG	0.637													10	13					0	0	0.013537	0	0		T	76905421	T	T	76905421	3	4	15	1	0	0	0	0	1	0	0	0	10100	739	26	2	4331	2	MYO7A	11	76905421	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	4898750	76905421	58101095	441	11275											
ANKRD42	338699	broad.mit.edu	37	chr11	82951953	82951953	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgatttatgtctgagtgActtggataaaacagatgcca	13	12	11	5	0	1	4	0	3	1	1	1	6	1	6	1	2	2	0	1	2	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:82951953A>C	uc001ozz.1	+	9	1510	c.1088A>C	c.(1087-1089)GAC>GCC	p.D363A	ANKRD42_uc010rsv.1_Missense_Mutation_p.D391A|ANKRD42_uc001paa.2_Missense_Mutation_p.D391A|ANKRD42_uc001pab.1_Missense_Mutation_p.D390A	NM_182603	NP_872409	Q8N9B4	ANR42_HUMAN	ankyrin repeat domain 42	363										skin(1)	1						TGTCTGAGTGACTTGGATAAA	0.353													21	67					0	0	0.003954	0	0		C	82951953	C	C	82951953	3	2	15	1	0	0	0	0	1	0	0	0	670	275	10	5	1122	5	ANKRD42	11	82951953	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	6046532	82951953	52054563	442	11276											
TYR	7299	broad.mit.edu	37	chr11	89028414	89028414	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtaggggccgtcctcactgcCctgctggcagggcttgtgag	4	9	16	12	1	1	1	1	1	0	0	2	1	2	1	3	4	2	4	3	4	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:89028414C>A	uc001pcs.2	+	5	1552	c.1470C>A	c.(1468-1470)GCC>GCA	p.A490A		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	490	Helical; (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	TCCTCACTGCCCTGCTGGCAG	0.532									Oculocutaneous_Albinism				10	12					1.08611e-07	1.2173e-07	0.010729	1	0		A	89028414	A	A	89028414	2	1	15	1	0	0	0	0	0	0	0	1	16839	610	22	5		5	TYR	11	89028414	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	6076461	89028414	45978102	443	11277											
FAT3	120114	broad.mit.edu	37	chr11	92086551	92086551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtactttaaaattaatcctCggtcgggtctgattgttaca	10	16	8	7	2	1	1	0	1	1	0	4	1	2	1	1	2	2	2	1	2	5	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:92086551C>T	uc001pdj.3	+	1	1290	c.1273C>T	c.(1273-1275)CGG>TGG	p.R425W		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	425	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AATTAATCCTCGGTCGGGTCT	0.408										TCGA Ovarian(4;0.039)			9	17					0	0	0.006214	0	0		T	92086551	T	T	92086551	3	4	15	1	0	0	0	0	1	0	0	0	5705	875	31	1	1275	1	FAT3	11	92086551	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3058137	92086551	42919965	444	11278											
CNTN5	53942	broad.mit.edu	37	chr11	100211320	100211320	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcacttcacagtgagggcTtacaatggagctggatatgg	11	11	12	7	0	2	1	2	1	0	0	2	3	2	3	0	4	2	2	0	4	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:100211320T>G	uc001pga.2	+	22	3195	c.2856T>G	c.(2854-2856)GCT>GCG	p.A952A	CNTN5_uc001pgb.2_Silent_p.A878A|CNTN5_uc010ruk.1_Silent_p.A223A	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	952	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CAGTGAGGGCTTACAATGGAG	0.443													18	28					0	0	0.008871	0	0		G	100211320	G	G	100211320	2	3	15	1	0	0	0	0	0	0	0	1	3647	1596	56	5		5	CNTN5	11	100211320	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	8124769	100211320	34795196	445	11279											
DYNC2H1	79659	broad.mit.edu	37	chr11	102987326	102987326	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataacttggacagtctatccTtactagaagttgttgacttg	11	15	8	7	0	1	2	0	1	1	1	2	3	2	3	1	1	2	2	1	1	5	8			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:102987326T>C	uc001pho.2	+	5	793	c.649T>C	c.(649-651)TTA>CTA	p.L217L	DYNC2H1_uc001phn.1_Silent_p.L217L|DYNC2H1_uc009yxe.1_Silent_p.L217L	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	217	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CAGTCTATCCTTACTAGAAGT	0.338													4	101					0	0	0.001984	0	0		C	102987326	C	C	102987326	2	2	15	1	0	0	0	0	0	0	0	1	4852	1606	56	3		3	DYNC2H1	11	102987326	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2776006	102987326	32019190	446	11280											
KIAA1826	84437	broad.mit.edu	37	chr11	105880317	105880317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctttctctacctgtaagCgttccttttcaatctgcagc	6	17	6	12	1	4	0	1	0	3	0	6	0	5	0	2	0	4	3	2	0	3	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:105880317C>T	uc001piy.2	-	3	1156	c.983G>A	c.(982-984)CGC>CAC	p.R328H	KIAA1826_uc001piz.2_Missense_Mutation_p.R328H	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	328	Potential.					nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		TACCTGTAAGCGTTCCTTTTC	0.393													13	83					0	0	0.00499	0	0		T	105880317	T	T	105880317	3	4	15	1	0	0	0	0	1	0	0	0	8276	768	27	1	58	1	KIAA1826	11	105880317	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2892991	105880317	29126199	447	11281											
KDELC2	143888	broad.mit.edu	37	chr11	108352801	108352801	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaagcatggagtgggtgAtgtcatacgttggaaggaca	11	10	14	6	1	2	1	2	1	0	0	2	4	2	4	0	4	2	2	0	4	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:108352801A>C	uc001pkj.2	-	4	899	c.833T>G	c.(832-834)ATC>AGC	p.I278S	KDELC2_uc001pki.2_Missense_Mutation_p.I222S	NM_153705	NP_714916	Q7Z4H8	KDEL2_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 2 precursor	278						endoplasmic reticulum lumen				ovary(1)	1		all_cancers(61;1.38e-11)|all_epithelial(67;3.16e-07)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;6.93e-06)|BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|all cancers(92;0.00016)|OV - Ovarian serous cystadenocarcinoma(223;0.132)|Colorectal(284;0.14)		GGAGTGGGTGATGTCATACGT	0.448													51	80					0	0	0.01441	0	0		C	108352801	C	C	108352801	3	2	15	1	0	0	0	0	1	0	0	0	8134	333	12	5	710	5	KDELC2	11	108352801	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	2472484	108352801	26653715	448	11282											
TTC12	54970	broad.mit.edu	37	chr11	113238943	113238944	+	RNA	DEL	AG	-	-																															gcagtcatctccaatttggaAgagagtctgctgcacctgaa																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:113238943_113238944delAG	uc001pnw.2	+	22		c.2182_2183delAG				NM_017868		Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12								binding			pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4		all_cancers(61;2.73e-16)|all_epithelial(67;8.64e-10)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.183)|Renal(330;0.187)		BRCA - Breast invasive adenocarcinoma(274;5.3e-06)|Epithelial(105;8.37e-05)|all cancers(92;0.000694)		CCAATTTGGAAGAGAGTCTGCT	0.495													2	4	---	---	---	---						.	-	113238944	-	-	113238943	6	5	15	0	1	1	0	1	0	0	0	0	16705	87	3	0		0	TTC12	11	113238943	RNA	DEL	AG	TCGA-BR-4280-01A-01D-1126-08	4886142	113238943	21767573	449	11283											
UBE4A	9354	broad.mit.edu	37	chr11	118244399	118244399	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggaggccaacatccatcAggtggaactgtttaccaggg	12	7	12	10	0	1	0	1	0	0	0	2	2	2	2	3	5	3	1	3	5	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:118244399A>G	uc001psw.2	+	8	1244	c.1115A>G	c.(1114-1116)CAG>CGG	p.Q372R	UBE4A_uc001psv.2_Missense_Mutation_p.Q379R	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	372					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		AACATCCATCAGGTGGAACTG	0.463													9	40					0	0	0.006214	0	0		G	118244399	G	G	118244399	3	3	15	1	0	0	0	0	1	0	0	0	16908	202	7	3	1162	3	UBE4A	11	118244399	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	5005456	118244399	16762117	450	11284											
BCL9L	283149	broad.mit.edu	37	chr11	118769560	118769560	+	Frame_Shift_Del	DEL	G	-	-																															ggttcatgagatgcagattaGggggctgagccttggggggc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:118769560delG	uc001pug.2	-	8	5029	c.4064delC	c.(4063-4065)CCTfs	p.P1355fs	BCL9L_uc009zal.2_Frame_Shift_Del_p.P1350fs	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	1355	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		ATGCAGATTAGGGGGCTGAGC	0.622													26	47	---	---	---	---						.	-	118769560	-	-	118769560	7	5	15	1	0	1	0	1	0	0	0	0	1383	1000	35	0	439	0	BCL9L	11	118769560	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	525161	118769560	16236956	451	11285											
MCAM	4162	broad.mit.edu	37	chr11	119185613	119185613	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcacaagaagatgcgctcGtcttggggggtgacttgagt	8	10	16	7	2	1	4	0	2	1	2	2	4	1	4	0	4	1	2	0	4	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:119185613G>A	uc001pwf.2	-	3	359	c.330C>T	c.(328-330)GAC>GAT	p.D110D		NM_006500	NP_006491	P43121	MUC18_HUMAN	melanoma cell adhesion molecule	110	Extracellular (Potential).|Ig-like V-type 1.				anatomical structure morphogenesis|cell adhesion	integral to membrane|plasma membrane				ovary(2)|breast(1)|central_nervous_system(1)	4		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.78e-05)		AGATGCGCTCGTCTTGGGGGG	0.657													15	22					0	0	0.007413	0	0		A	119185613	A	A	119185613	2	1	15	1	0	0	0	0	0	0	0	1	9386	1136	40	1		1	MCAM	11	119185613	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	416053	119185613	15820903	452	11286											
CRTAM	56253	broad.mit.edu	37	chr11	122720827	122720827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgtggaggaaggccagaCgctcactctaaagtgtgtca	11	7	12	11	2	3	1	2	0	1	1	3	3	3	3	2	3	0	1	2	3	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:122720827C>T	uc001pyj.2	+	2	98	c.98C>T	c.(97-99)ACG>ATG	p.T33M		NM_019604	NP_062550	O95727	CRTAM_HUMAN	class-I MHC-restricted T cell associated	33	Ig-like V-type.|Extracellular (Potential).				cell recognition|detection of tumor cell|positive regulation of cytokine secretion|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	integral to membrane|plasma membrane	receptor binding			ovary(1)	1		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.28e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		GAAGGCCAGACGCTCACTCTA	0.527													27	28					0	0	0.010818	0	0		T	122720827	T	T	122720827	3	4	15	1	0	0	0	0	1	0	0	0	3900	536	19	1	104	1	CRTAM	11	122720827	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3535214	122720827	12285689	453	11287											
OR10G4	390264	broad.mit.edu	37	chr11	123887010	123887010	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagacctgtgcctcccaCtgtattgtggtcctttgctt	4	17	8	12	0	1	1	1	0	0	1	3	1	3	1	4	1	2	2	4	1	1	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr11:123887010C>T	uc010sac.1	+	1	729	c.729C>T	c.(727-729)CAC>CAT	p.H243H		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		GTGCCTCCCACTGTATTGTGG	0.522													20	40					0	0	0.007413	0	0		T	123887010	T	T	123887010	2	4	15	1	0	0	0	0	0	0	0	1	10920	564	20	4		4	OR10G4	11	123887010	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1166183	123887010	11119506	454	11288											
WNK1	65125	broad.mit.edu	37	chr12	992220	992220	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accccgaggagatagcaacaAttatggtacgtctgcatttg	12	10	10	9	2	1	1	0	0	1	1	1	3	1	1	2	2	4	3	2	2	5	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:992220A>G	uc001qio.3	+	15	3991	c.3484A>G	c.(3484-3486)ATT>GTT	p.I1162V	WNK1_uc001qip.3_Missense_Mutation_p.I915V|WNK1_uc001qir.3_Missense_Mutation_p.I335V	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1162					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GATAGCAACAATTATGGTACG	0.368													4	146					0	0	0.001168	0	0		G	992220	G	G	992220	3	3	15	1	0	0	0	0	1	0	0	0	17403	101	4	3	5044	3	WNK1	12	992220	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08		992220	132859675	455	11289											
KCNA6	3742	broad.mit.edu	37	chr12	4920572	4920572	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accattgccctgcctgtgccCgtcatcgtctccaacttcaa	7	11	6	17	2	3	0	2	0	1	0	5	0	3	0	5	0	4	0	5	0	2	2	rs140094246		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:4920572C>T	uc001qng.2	+	1	2231	c.1365C>T	c.(1363-1365)CCC>CCT	p.P455P		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	455	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						TGCCTGTGCCCGTCATCGTCT	0.617										HNSCC(72;0.22)			19	30					0	0	0.00333	0	0		T	4920572	T	T	4920572	2	4	15	1	0	0	0	0	0	0	0	1	8023	639	23	1		1	KCNA6	12	4920572	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3928352	4920572	128931323	456	11290											
NCAPD2	9918	broad.mit.edu	37	chr12	6631158	6631158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcccggaagattacagagGccattggcatcatcagcaag	12	8	10	11	1	3	2	2	0	1	2	4	3	3	3	2	3	2	2	2	3	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:6631158G>A	uc001qoo.2	+	15	1955	c.1909G>A	c.(1909-1911)GCC>ACC	p.A637T	NCAPD2_uc009zen.1_Missense_Mutation_p.A509T|NCAPD2_uc010sfd.1_Missense_Mutation_p.A592T	NM_014865	NP_055680	Q15021	CND1_HUMAN	non-SMC condensin I complex, subunit D2	637					cell division|mitotic chromosome condensation	condensin core heterodimer|cytoplasm	histone binding			ovary(2)|lung(1)|breast(1)|kidney(1)	5						GATTACAGAGGCCATTGGCAT	0.458													36	57					0	0	0.004878	0	0		A	6631158	A	A	6631158	3	1	15	1	0	0	0	0	1	0	0	0	10224	1203	42	2	1963	2	NCAPD2	12	6631158	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1710586	6631158	127220737	457	11291											
ATN1	1822	broad.mit.edu	37	chr12	7045189	7045189	+	Frame_Shift_Del	DEL	C	-	-																															cctaatgggggtaagcagcaCcccccacccactactcccat																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:7045189delC	uc001qrw.1	+	5	996	c.759delC	c.(757-759)CACfs	p.H253fs	ATN1_uc001qrx.1_Frame_Shift_Del_p.H253fs|ATN1_uc001qry.1_Frame_Shift_Del_p.H252fs	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	253					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						GTAAGCAGCACCCCCCACCCA	0.617													17	23	---	---	---	---						.	-	7045189	-	-	7045189	7	5	15	1	0	1	0	1	0	0	0	0	1112	506	18	0	773	0	ATN1	12	7045189	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	414031	7045189	126806706	458	11292											
CLSTN3	9746	broad.mit.edu	37	chr12	7286179	7286179	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctttgccaggtgagatctgCggcttccggctccatgggtc	4	11	13	13	2	1	1	0	1	1	1	4	2	3	1	4	4	2	2	4	4	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:7286179C>T	uc001qsr.2	+	3	476	c.198C>T	c.(196-198)TGC>TGT	p.C66C	CLSTN3_uc001qss.2_Silent_p.C78C	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	66	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						GTGAGATCTGCGGCTTCCGGC	0.642													18	16					0	0	0.00333	0	0		T	7286179	T	T	7286179	2	4	15	1	0	0	0	0	0	0	0	1	3566	776	27	1		1	CLSTN3	12	7286179	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	240990	7286179	126565716	459	11293											
CD163L1	283316	broad.mit.edu	37	chr12	7531738	7531738	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctctctggagaccctgattGcagacccacattcaagttgc	9	10	9	13	0	2	3	1	1	1	2	3	4	2	3	2	1	2	3	2	1	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:7531738G>T	uc001qsy.2	-	9	2233	c.2207C>A	c.(2206-2208)GCA>GAA	p.A736E	CD163L1_uc010sge.1_Missense_Mutation_p.A746E	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	736	SRCR 7.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						GACCCTGATTGCAGACCCACA	0.488													4	87					0.00909568	0.00967732	0.009096	1	0		T	7531738	T	T	7531738	3	4	15	1	0	0	0	0	1	0	0	0	2971	1319	46	5	2198	5	CD163L1	12	7531738	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	245559	7531738	126320157	460	11294											
CLEC4D	338339	broad.mit.edu	37	chr12	8673741	8673741	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggcataagaatgaaccCgacaactctcagggagaaaa	16	7	9	9	1	2	3	1	1	2	2	3	5	2	3	1	2	2	1	1	2	6	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:8673741C>T	uc001qun.2	+	6	715	c.522C>T	c.(520-522)CCC>CCT	p.P174P		NM_080387	NP_525126	Q8WXI8	CLC4D_HUMAN	C-type lectin domain family 4, member D	174	C-type lectin.|Extracellular (Potential).				innate immune response	integral to membrane	sugar binding				0	Lung SC(5;0.184)					AGAATGAACCCGACAACTCTC	0.338													23	48					0	0	0.00333	0	0		T	8673741	T	T	8673741	2	4	15	1	0	0	0	0	0	0	0	1	3517	639	23	1		1	CLEC4D	12	8673741	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1142003	8673741	125178154	461	11295											
TAS2R7	50837	broad.mit.edu	37	chr12	10954759	10954759	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataaacacagagagaaccacGcaccccagtagaatccagga	18	3	8	12	1	0	3	0	0	0	3	1	5	1	4	4	1	2	2	4	1	5	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:10954759G>A	uc001qyv.2	-	1	468	c.411C>T	c.(409-411)TGC>TGT	p.C137C		NM_023919	NP_076408	Q9NYW3	TA2R7_HUMAN	taste receptor, type 2, member 7	137	Helical; Name=4; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			skin(1)	1						AGAGAACCACGCACCCCAGTA	0.413													15	22					0	0	0.00245	0	0		A	10954759	A	A	10954759	2	1	15	1	0	0	0	0	0	0	0	1	15611	1079	38	1		1	TAS2R7	12	10954759	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2281018	10954759	122897136	462	11296											
PRB1	5542	broad.mit.edu	37	chr12	11506168	11506168	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgggggaccttgaggattgTtgccttcttgttggggtggt	3	15	18	5	0	1	1	0	1	1	0	1	3	1	3	2	6	1	2	2	6	0	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:11506168T>C	uc001qzw.1	-	4	906	c.869A>G	c.(868-870)AAC>AGC	p.N290S	PRB1_uc001qzu.1_Missense_Mutation_p.N157S|PRB1_uc001qzv.1_Missense_Mutation_p.N137S	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	351	15.|15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].					extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			TTGAGGATTGTTGCCTTCTTG	0.627													47	135					0	0	0.01441	0	0		C	11506168	C	C	11506168	3	2	15	1	0	0	0	0	1	0	0	0	12464	1725	60	3	130	3	PRB1	12	11506168	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	551409	11506168	122345727	463	11297											
ATF7IP	55729	broad.mit.edu	37	chr12	14628902	14628902	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagagagtggagcttcacaaGgtacttcaatagtaattgta	15	11	10	5	0	2	1	2	0	0	1	2	3	2	2	0	2	2	4	0	2	7	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:14628902G>T	uc001rbw.2	+	11	3099	c.2941G>T	c.(2941-2943)GAC>TAC	p.D981Y	ATF7IP_uc001rbu.2_Missense_Mutation_p.G981C|ATF7IP_uc001rbv.1_Missense_Mutation_p.D980Y|ATF7IP_uc001rbx.2_Missense_Mutation_p.D980Y|ATF7IP_uc001rby.3_Missense_Mutation_p.D981Y|ATF7IP_uc001rca.2_Missense_Mutation_p.D981Y	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	981					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						AGCTTCACAAGGTACTTCAAT	0.363													19	34					1.50039e-11	1.71957e-11	0.012319	1	0		T	14628902	T	T	14628902	3	4	15	1	0	0	0	0	1	0	0	0	1088	1014	35	5	2979	5	ATF7IP	12	14628902	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3122734	14628902	119222993	464	11298											
SLCO1B3	28234	broad.mit.edu	37	chr12	21033817	21033817	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtggcatctcatgtagatGtaccactttcttattgcaac	10	14	7	10	0	2	1	1	0	2	1	3	1	2	1	1	1	3	4	1	1	4	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:21033817G>C	uc001rek.2	+	11	1486	c.1360G>C	c.(1360-1362)GTA>CTA	p.V454L	SLCO1B3_uc001rel.2_Missense_Mutation_p.V454L|SLCO1B3_uc010sil.1_Missense_Mutation_p.V454L|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Missense_Mutation_p.V279L	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	454	Extracellular (Potential).|Kazal-like.				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TCATGTAGATGTACCACTTTC	0.289													36	58					0	0	0.003755	0	0		C	21033817	C	C	21033817	3	2	15	1	0	0	0	0	1	0	0	0	14749	1377	48	5	1398	5	SLCO1B3	12	21033817	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6404915	21033817	112818078	465	11299											
ABCC9	10060	broad.mit.edu	37	chr12	22068696	22068696	+	Frame_Shift_Del	DEL	T	-	-																															ttgccttcagatcaataggcTttttgtgagcagatataata																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:22068696delT	uc001rfi.1	-	5	742	c.722delA	c.(721-723)AAGfs	p.K241fs	ABCC9_uc001rfh.2_Frame_Shift_Del_p.K241fs|ABCC9_uc001rfj.1_Frame_Shift_Del_p.K241fs	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	241	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ATCAATAGGCTTTTTGTGAGC	0.373													37	68	---	---	---	---						.	-	22068696	-	-	22068696	7	5	15	1	0	1	0	1	0	0	0	0	59	1609	56	0	4205	0	ABCC9	12	22068696	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	1034879	22068696	111783199	466	11300											
KRAS	3845	broad.mit.edu	37	chr12	25398281	25398281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaggcactcttgcctacgCcaccagctccaactaccaca	11	7	5	18	1	2	0	1	0	1	0	3	0	3	0	5	1	5	2	5	1	4	3	rs112445441		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:25398281C>T	uc001rgp.1	-	2	219	c.38G>A	c.(37-39)GGC>GAC	p.G13D	KRAS_uc001rgq.1_Missense_Mutation_p.G13D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	13	GTP.		G -> R (in pylocytic astrocytoma; somatic mutation; increase activation of the Ras pathway).|G -> D (in a breast carcinoma cell line and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G13D(2647)|p.G13C(182)|p.G13S(58)|p.G13R(41)|p.G13V(27)|p.G13A(24)|p.G13G(11)|p.G13E(4)|p.G12_G13insG(4)|p.G13N(3)|p.G13I(1)|p.G13_V14>DI(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CTTGCCTACGCCACCAGCTCC	0.338	G13D(NCIH647_LUNG)|G13D(MDAMB231_BREAST)|G13D(NCIH747_LARGE_INTESTINE)|G13D(T84_LARGE_INTESTINE)|G13D(LOVO_LARGE_INTESTINE)|G13D(DLD1_LARGE_INTESTINE)|G13D(DV90_LUNG)|G13D(HCT15_LARGE_INTESTINE)|G13D(HCT116_LARGE_INTESTINE)|G13D(TOLEDO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G13D(NOMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			5	12					0	0	0.001168	0	0		T	25398281	T	T	25398281	3	4	15	1	0	0	0	0	1	0	0	0	8454	739	26	2	668	2	KRAS	12	25398281	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3329585	25398281	108453614	467	11301											
TMTC1	83857	broad.mit.edu	37	chr12	29669328	29669328	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatggctgacaagaggcgaTagcattcaaggcatccggtc	12	7	13	9	2	1	3	1	1	0	2	3	4	2	3	1	4	1	3	1	4	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:29669328T>C	uc001rjb.2	-	15	2411	c.1937A>G	c.(1936-1938)TAT>TGT	p.Y646C	TMTC1_uc001riz.2_Missense_Mutation_p.Y403C|TMTC1_uc001rja.2_Missense_Mutation_p.Y490C|TMTC1_uc001riy.2_Missense_Mutation_p.Y99C	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	754	TPR 8.					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					CAAGAGGCGATAGCATTCAAG	0.453													25	69					0	0	0.008361	0	0		C	29669328	C	C	29669328	3	2	15	1	0	0	0	0	1	0	0	0	16285	1406	49	3	403	3	TMTC1	12	29669328	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	4271047	29669328	104182567	468	11302											
CNTN1	1272	broad.mit.edu	37	chr12	41419075	41419075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtattttatagaagtcgggGcctgcaatagtgcagggtgt	10	12	14	5	1	0	1	0	0	0	1	1	1	0	1	1	3	2	3	1	3	6	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:41419075G>A	uc001rmm.1	+	21	2760	c.2647G>A	c.(2647-2649)GCC>ACC	p.A883T	CNTN1_uc001rmn.1_Missense_Mutation_p.A872T	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	883	Fibronectin type-III 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				AGAAGTCGGGGCCTGCAATAG	0.478													35	192					0	0	0.004878	0	0		A	41419075	A	A	41419075	3	1	15	1	0	0	0	0	1	0	0	0	3643	1203	42	2	2725	2	CNTN1	12	41419075	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	11749747	41419075	92432820	469	11303											
HDAC7	51564	broad.mit.edu	37	chr12	48181527	48181527	+	Frame_Shift_Del	DEL	G	-	-																															aggtactcaggatcccccatGggggggtccagacctccagc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:48181527delG	uc010slo.1	-	21	2616	c.2421delC	c.(2419-2421)CCCfs	p.P807fs	HDAC7_uc009zku.2_RNA|HDAC7_uc001rqe.2_Frame_Shift_Del_p.P241fs|HDAC7_uc001rqj.3_Frame_Shift_Del_p.P770fs|HDAC7_uc001rqk.3_Frame_Shift_Del_p.P790fs|HDAC7_uc010slp.1_Frame_Shift_Del_p.P51fs	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	768	Histone deacetylase.				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		GATCCCCCATGGGGGGGTCCA	0.622													7	16	---	---	---	---						.	-	48181527	-	-	48181527	7	5	15	1	0	1	0	1	0	0	0	0	7028	1335	47	0	578	0	HDAC7	12	48181527	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	6762452	48181527	85670368	470	11304											
SENP1	29843	broad.mit.edu	37	chr12	48440804	48440804	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagccattggtgtcaaacTctttccttttcttgtcaatg	7	16	7	11	0	4	0	2	0	2	0	5	0	5	0	3	1	2	0	3	1	2	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:48440804T>G	uc001rqx.2	-	16	2179	c.1733A>C	c.(1732-1734)GAG>GCG	p.E578A	SENP1_uc001rqw.2_Missense_Mutation_p.E578A|SENP1_uc001rqy.2_Missense_Mutation_p.E379A|SENP1_uc001rqz.2_Missense_Mutation_p.E379A|SENP1_uc009zkx.2_Missense_Mutation_p.E578A	NM_014554	NP_055369	Q9P0U3	SENP1_HUMAN	sentrin/SUMO-specific protease 1	578	Protease.				activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)				GGTGTCAAACTCTTTCCTTTT	0.423													28	36					0	0	0.003271	0	0		G	48440804	G	G	48440804	3	3	15	1	0	0	0	0	1	0	0	0	14071	1551	54	5	210	5	SENP1	12	48440804	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	259277	48440804	85411091	471	11305											
CACNB3	784	broad.mit.edu	37	chr12	49220203	49220203	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggccaaatccctgcagCtagtagtgttggacgctgac	9	9	12	11	1	0	1	0	1	0	0	1	2	1	2	2	2	3	6	2	2	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:49220203C>T	uc001rsl.1	+	10	997	c.796C>T	c.(796-798)CTA>TTA	p.L266L	CACNB3_uc010sly.1_Silent_p.L253L|CACNB3_uc010slz.1_Silent_p.L265L|CACNB3_uc001rsk.1_Silent_p.L113L	NM_000725	NP_000716	P54284	CACB3_HUMAN	calcium channel, voltage-dependent, beta 3	266					axon guidance|membrane depolarization|synaptic transmission	cytosol|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0					Verapamil(DB00661)	ATCCCTGCAGCTAGTAGTGTT	0.572													4	78					0	0	0.001168	0	0		T	49220203	T	T	49220203	2	4	15	1	0	0	0	0	0	0	0	1	2557	796	28	2		2	CACNB3	12	49220203	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	779399	49220203	84631692	472	11306											
MLL2	8085	broad.mit.edu	37	chr12	49427944	49427944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actcacggccagcttttttgGcagtgcgctgcttggcacac	6	11	11	13	2	1	0	1	0	0	0	1	0	1	0	1	3	3	5	1	3	0	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:49427944G>A	uc001rta.3	-	38	10646	c.10646C>T	c.(10645-10647)GCC>GTC	p.A3549V		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3549	Gln-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGCTTTTTTGGCAGTGCGCTG	0.552			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			15	67					0	0	0.00499	0	0		A	49427944	A	A	49427944	3	1	15	1	0	0	0	0	1	0	0	0	9639	1203	42	2	6035	2	MLL2	12	49427944	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	207741	49427944	84423951	473	11307											
GALNT6	11226	broad.mit.edu	37	chr12	51773084	51773084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgctacttactcaggtggtCgggtgtctggccccagggac	5	10	15	11	1	2	0	1	0	1	0	3	1	2	1	2	5	3	1	2	5	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:51773084C>T	uc001ryk.2	-	2	707	c.482G>A	c.(481-483)CGA>CAA	p.R161Q	GALNT6_uc009zma.1_RNA|GALNT6_uc001ryl.1_Missense_Mutation_p.R161Q|GALNT6_uc010snh.1_Missense_Mutation_p.R161Q	NM_007210	NP_009141	Q8NCL4	GALT6_HUMAN	polypeptide N-acetylgalactosaminyltransferase 6	161	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|perinuclear region of cytoplasm	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						CTCAGGTGGTCGGGTGTCTGG	0.562													5	19					0	0	0.000602	0	0		T	51773084	T	T	51773084	3	4	15	1	0	0	0	0	1	0	0	0	6232	884	31	1	1426	1	GALNT6	12	51773084	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2345140	51773084	82078811	474	11308											
KRT6A	3853	broad.mit.edu	37	chr12	52883807	52883807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatctcctgcttggtgttgcGcaggtcgtccccatgtctgc	4	13	11	13	2	2	0	0	0	2	0	5	0	3	0	3	2	3	3	3	2	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:52883807G>A	uc001sam.2	-	6	1332	c.1123C>T	c.(1123-1125)CGC>TGC	p.R375C		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	375	Rod.|Coil 2.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		TTGGTGTTGCGCAGGTCGTCC	0.567													7	32					0	0	0.00245	0	0		A	52883807	A	A	52883807	3	1	15	1	0	0	0	0	1	0	0	0	8496	1087	38	1	587	1	KRT6A	12	52883807	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1110723	52883807	80968088	475	11309											
KRT6A	3853	broad.mit.edu	37	chr12	52885323	52885323	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttgttcttgaagtcctcCaccaggtcctgcatgcctct	6	13	7	15	0	2	1	0	1	2	0	5	1	5	1	5	1	2	2	5	1	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:52885323C>A	uc001sam.2	-	2	947	c.738G>T	c.(736-738)GTG>GTT	p.V246V		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	246	Coil 1B.|Rod.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		TGAAGTCCTCCACCAGGTCCT	0.542													23	47					9.95505e-16	1.16022e-15	0.014323	1	0		A	52885323	A	A	52885323	2	1	15	1	0	0	0	0	0	0	0	1	8496	581	21	5		5	KRT6A	12	52885323	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1516	52885323	80966572	476	11310											
TENC1	23371	broad.mit.edu	37	chr12	53454525	53454525	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agactgagtcctggcgaggcCttgccccctgtttcccaggc	5	9	12	15	1	0	2	0	1	0	1	2	3	2	2	5	3	1	1	5	3	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:53454525C>A	uc001sbp.2	+	20	2970	c.2835C>A	c.(2833-2835)GCC>GCA	p.A945A	TENC1_uc001sbl.2_Silent_p.A821A|TENC1_uc001sbn.2_Silent_p.A955A|TENC1_uc001sbq.2_Silent_p.A343A|TENC1_uc001sbr.2_RNA|TENC1_uc009zmr.2_Silent_p.A440A|TENC1_uc001sbs.2_5'Flank	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	945	Pro-rich.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						CTGGCGAGGCCTTGCCCCCTG	0.677													3	12					0.00024832	0.000270461	0.009096	1	0		A	53454525	A	A	53454525	2	1	15	1	0	0	0	0	0	0	0	1	15783	668	24	5		5	TENC1	12	53454525	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	569202	53454525	80397370	477	11311											
SLC39A5	283375	broad.mit.edu	37	chr12	56625312	56625312	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcctctgactggacgggCtgcatccccagctgcagaca	7	7	13	14	1	1	2	0	1	1	1	2	3	2	3	3	3	3	4	3	3	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:56625312C>A	uc010sqj.1	+	4	511	c.254C>A	c.(253-255)GCT>GAT	p.A85D	SLC39A5_uc010sqi.1_Translation_Start_Site|SLC39A5_uc010sqk.1_Missense_Mutation_p.A85D	NM_173596	NP_775867	Q6ZMH5	S39A5_HUMAN	solute carrier family 39 (metal ion	85	Extracellular (By similarity).				zinc ion transport	basolateral plasma membrane|integral to membrane	metal ion transmembrane transporter activity			ovary(1)|skin(1)	2						ACTGGACGGGCTGCATCCCCA	0.642													19	33					2.4624e-09	2.78571e-09	0.008871	1	0		A	56625312	A	A	56625312	3	1	15	1	0	0	0	0	1	0	0	0	14646	797	28	5	256	5	SLC39A5	12	56625312	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3170787	56625312	77226583	478	11312											
TIMELESS	8914	broad.mit.edu	37	chr12	56818681	56818681	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagggaaccacggagtccAtgctgagctcagaattctag	13	7	11	10	1	2	2	1	1	1	1	3	4	3	4	2	2	3	2	2	2	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:56818681A>G	uc001slf.2	-	15	1901	c.1733T>C	c.(1732-1734)ATG>ACG	p.M578T		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	578					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						CACGGAGTCCATGCTGAGCTC	0.537													22	44					0	0	0.005443	0	0		G	56818681	G	G	56818681	3	3	15	1	0	0	0	0	1	0	0	0	15929	217	8	3	1953	3	TIMELESS	12	56818681	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	193369	56818681	77033214	479	11313											
LRP1	4035	broad.mit.edu	37	chr12	57560723	57560723	+	Frame_Shift_Del	DEL	C	-	-																															tgccccccagcccgcacctgCccccccaaccagttctcctg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:57560723delC	uc001snd.2	+	18	3274	c.2808delC	c.(2806-2808)TGCfs	p.C936fs	LRP1_uc009zph.1_5'Flank|LRP1_uc009zpi.1_5'Flank	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	936	LDL-receptor class A 5.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CCCGCACCTGCCCCCCCAACC	0.592													22	32	---	---	---	---						.	-	57560723	-	-	57560723	7	5	15	1	0	1	0	1	0	0	0	0	8969	747	26	0	2878	0	LRP1	12	57560723	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	742042	57560723	76291172	480	11314											
LRP1	4035	broad.mit.edu	37	chr12	57579622	57579622	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaatcgcatcttcttcAgcgacatccactttgggaac	9	10	6	16	2	3	0	1	0	2	0	5	2	4	1	3	1	2	1	3	1	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:57579622A>G	uc001snd.2	+	41	7238	c.6772A>G	c.(6772-6774)AGC>GGC	p.S2258G		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	2258	LDL-receptor class B 21.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CATCTTCTTCAGCGACATCCA	0.572													17	18					0	0	0.00499	0	0		G	57579622	G	G	57579622	3	3	15	1	0	0	0	0	1	0	0	0	8969	188	7	3	6934	3	LRP1	12	57579622	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	18899	57579622	76272273	481	11315											
BEST3	144453	broad.mit.edu	37	chr12	70049234	70049234	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaagttctcacactggacTgtggggtcaggctctgtaaa	9	10	14	8	0	3	0	2	0	2	0	4	2	3	2	0	5	0	3	0	5	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:70049234T>G	uc001svg.2	-	10	1687	c.1460A>C	c.(1459-1461)CAG>CCG	p.Q487P	BEST3_uc001svd.1_Intron|BEST3_uc001sve.1_Intron|BEST3_uc001svf.2_Missense_Mutation_p.Q274P|BEST3_uc010stm.1_Missense_Mutation_p.Q381P	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	487	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			CACACTGGACTGTGGGGTCAG	0.567													7	121					0	0	0.006214	0	0		G	70049234	G	G	70049234	3	3	15	1	0	0	0	0	1	0	0	0	1407	1580	55	5	550	5	BEST3	12	70049234	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	12469612	70049234	63802661	482	11316											
CNOT2	4848	broad.mit.edu	37	chr12	70704760	70704760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgaaaacatgtactacaGccagtcttctatgtttccac	12	12	6	11	1	2	1	0	1	2	0	3	2	3	1	2	0	4	2	2	0	5	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:70704760G>A	uc001svv.2	+	3	713	c.134G>A	c.(133-135)AGC>AAC	p.S45N	CNOT2_uc009zro.2_Missense_Mutation_p.S45N|CNOT2_uc009zrp.2_Missense_Mutation_p.S25N|CNOT2_uc009zrq.2_Missense_Mutation_p.S45N	NM_014515	NP_055330	Q9NZN8	CNOT2_HUMAN	CCR4-NOT transcription complex, subunit 2	45					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	protein binding|RNA polymerase II transcription cofactor activity				0	Renal(347;0.236)		GBM - Glioblastoma multiforme(1;4.77e-09)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			ATGTACTACAGCCAGTCTTCT	0.373													4	62					0	0	0.000602	0	0		A	70704760	A	A	70704760	3	1	15	1	0	0	0	0	1	0	0	0	3622	971	34	2	140	2	CNOT2	12	70704760	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	655526	70704760	63147135	483	11317											
KCNC2	3747	broad.mit.edu	37	chr12	75601370	75601370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagctcctcctcgaagagcgGcccgcacacgtctgcggggc	6	5	13	17	5	1	1	0	0	1	1	4	2	3	1	3	3	3	2	3	3	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:75601370G>A	uc001sxg.1	-	2	938	c.394C>T	c.(394-396)CCG>TCG	p.P132S	KCNC2_uc009zry.2_Missense_Mutation_p.P132S|KCNC2_uc001sxe.2_Missense_Mutation_p.P132S|KCNC2_uc001sxf.2_Missense_Mutation_p.P132S|KCNC2_uc010stw.1_Missense_Mutation_p.P132S	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	132	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						TCGAAGAGCGGCCCGCACACG	0.677													10	14					0	0	0.010729	0	0		A	75601370	A	A	75601370	3	1	15	1	0	0	0	0	1	0	0	0	8031	1203	42	2	1604	2	KCNC2	12	75601370	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	4896610	75601370	58250525	484	11318											
ALX1	8092	broad.mit.edu	37	chr12	85674056	85674056	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattatggagtttctgagcgAgaagtttgccctcaagagcc	10	11	12	8	1	2	3	1	1	1	2	2	6	2	4	2	1	3	2	2	1	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:85674056A>G	uc001tae.3	+	1	21	c.17A>G	c.(16-18)GAG>GGG	p.E6G		NM_006982	NP_008913	Q15699	ALX1_HUMAN	cartilage paired-class homeoprotein 1	6					brain development|cartilage condensation|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(134;0.134)		TTTCTGAGCGAGAAGTTTGCC	0.572													6	80					0	0	0.001984	0	0		G	85674056	G	G	85674056	3	3	15	1	0	0	0	0	1	0	0	0	556	304	11	3	19	3	ALX1	12	85674056	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	10072686	85674056	48177839	485	11319											
CCDC41	51134	broad.mit.edu	37	chr12	94769791	94769791	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattagctgattgtttttcAgcctttcatacaaacaaaat	15	15	4	7	0	2	1	2	1	0	0	2	1	2	1	1	0	4	2	1	0	6	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:94769791A>G	uc001tdd.2	-	8	1390	c.804T>C	c.(802-804)GCT>GCC	p.A268A	CCDC41_uc001tde.2_Silent_p.A268A|CCDC41_uc009zsw.1_RNA|CCDC41_uc001tdf.2_Silent_p.A268A	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen	260	Potential.										0						ATTGTTTTTCAGCCTTTCATA	0.239													12	4					0	0	0.004007	0	0		G	94769791	G	G	94769791	2	3	15	1	0	0	0	0	0	0	0	1	2816	175	7	3		3	CCDC41	12	94769791	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	9095735	94769791	39082104	486	11320											
APAF1	317	broad.mit.edu	37	chr12	99121028	99121028	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgctacccatggaggCtgggtgactgacctttgctt	6	11	14	10	0	0	2	0	2	0	0	0	4	0	4	2	4	4	4	2	4	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:99121028C>A	uc001tfz.2	+	26	4111	c.3534C>A	c.(3532-3534)GGC>GGA	p.G1178G	APAF1_uc001tfy.2_Silent_p.G1167G|APAF1_uc001tga.2_Silent_p.G1124G|APAF1_uc001tgb.2_Silent_p.G1135G|APAF1_uc001tgc.2_Intron|APAF1_uc009zto.2_Silent_p.G502G	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	1178	WD 13.				activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	CCCATGGAGGCTGGGTGACTG	0.418													24	49					4.72057e-08	5.30309e-08	0.003954	1	0		A	99121028	A	A	99121028	2	1	15	1	0	0	0	0	0	0	0	1	755	784	28	5		5	APAF1	12	99121028	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	4351237	99121028	34730867	487	11321											
GNPTAB	79158	broad.mit.edu	37	chr12	102154925	102154925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcaaacttaacggcagttCgtgaattctggtagccagtg	10	11	11	9	2	1	1	0	1	1	0	2	1	1	1	1	2	4	4	1	2	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:102154925C>T	uc001tit.2	-	15	3294	c.3115G>A	c.(3115-3117)GAA>AAA	p.E1039K		NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	1039	EF-hand.				cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						AACGGCAGTTCGTGAATTCTG	0.318													16	28					0	0	0.010504	0	0		T	102154925	T	T	102154925	3	4	15	1	0	0	0	0	1	0	0	0	6560	893	31	1	683	1	GNPTAB	12	102154925	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3033897	102154925	31696970	488	11322											
STAB2	55576	broad.mit.edu	37	chr12	104123939	104123939	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaagatcatatccagtgatAtcatcagtactaatgggatt	14	13	7	7	0	3	2	3	1	0	1	4	3	4	3	1	1	1	1	1	1	5	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:104123939A>G	uc001tjw.2	+	49	5314	c.5128A>G	c.(5128-5130)ATC>GTC	p.I1710V	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1710	Extracellular (Potential).|FAS1 5.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						ATCCAGTGATATCATCAGTAC	0.343													59	91					0	0	0.01441	0	0		G	104123939	G	G	104123939	3	3	15	1	0	0	0	0	1	0	0	0	15263	449	16	3	5322	3	STAB2	12	104123939	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1969014	104123939	29727956	489	11323											
BTBD11	121551	broad.mit.edu	37	chr12	108013807	108013807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggagtctttgcggatcGccttccagcagcaccgcagg	6	8	14	13	3	1	0	0	0	1	0	3	2	2	2	3	4	3	4	3	4	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:108013807G>A	uc001tmk.1	+	11	3018	c.2497G>A	c.(2497-2499)GCC>ACC	p.A833T	BTBD11_uc009zut.1_Missense_Mutation_p.A714T|BTBD11_uc001tmj.2_Missense_Mutation_p.A833T|BTBD11_uc001tml.1_Missense_Mutation_p.A370T	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	833	ANK 5.					integral to membrane	DNA binding			skin(2)|ovary(1)	3						TTTGCGGATCGCCTTCCAGCA	0.443													8	12					0	0	0.004482	0	0		A	108013807	A	A	108013807	3	1	15	1	0	0	0	0	1	0	0	0	1542	1087	38	1	2644	1	BTBD11	12	108013807	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3889868	108013807	25838088	490	11324											
MYO1H	283446	broad.mit.edu	37	chr12	109845646	109845646	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtctacgctagagatgcAatggcaaaggctgtttatgg	10	12	12	7	1	2	1	0	0	2	1	2	2	2	1	0	3	2	5	0	3	5	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:109845646A>G	uc010sxn.1	+	9	1035	c.1035A>G	c.(1033-1035)GCA>GCG	p.A345A		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						CTAGAGATGCAATGGCAAAGG	0.443													22	38					0	0	0.014323	0	0		G	109845646	G	G	109845646	2	3	15	1	0	0	0	0	0	0	0	1	10093	117	5	3		3	MYO1H	12	109845646	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1831839	109845646	24006249	491	11325											
MVK	4598	broad.mit.edu	37	chr12	110023886	110023886	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccaaggggagagaatgaTtcacgggaacccctccggag	11	6	13	11	2	1	2	1	1	0	1	3	6	3	5	4	4	1	0	4	4	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:110023886T>A	uc001toy.3	+	6	771	c.587T>A	c.(586-588)ATT>AAT	p.I196N	MVK_uc009zvk.2_Missense_Mutation_p.I196N|MVK_uc010sxr.1_Missense_Mutation_p.I144N|MVK_uc001toz.3_Missense_Mutation_p.I2N|MVK_uc001tpc.3_RNA	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase	196					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0						GAGAGAATGATTCACGGGAAC	0.453													18	19					0	0	0.014323	0	0		A	110023886	A	A	110023886	3	1	15	1	0	0	0	0	1	0	0	0	10013	1493	52	5	605	5	MVK	12	110023886	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	178240	110023886	23828009	492	11326											
ATXN2	6311	broad.mit.edu	37	chr12	111953992	111953992	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttaggcatagtagagacAggagctggagaaccatgagc	13	7	14	7	1	0	3	0	1	0	2	0	6	0	4	1	3	3	4	1	3	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:111953992A>G	uc001tsj.2	-	10	1983	c.1821T>C	c.(1819-1821)CCT>CCC	p.P607P	ATXN2_uc001tsh.2_Silent_p.P342P|ATXN2_uc001tsi.2_Silent_p.P318P|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsm.1_Silent_p.P342P	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	607	Pro-rich.				cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						TAGTAGAGACAGGAGCTGGAG	0.517													3	60					0	0	0.009096	0	0		G	111953992	G	G	111953992	2	3	15	1	0	0	0	0	0	0	0	1	1212	175	7	3		3	ATXN2	12	111953992	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1930106	111953992	21897903	493	11327											
DDX54	79039	broad.mit.edu	37	chr12	113617081	113617081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcaggctgtcttgccaCtgcccgtccgggccatggcc	5	7	14	15	2	1	0	0	0	1	0	2	1	2	1	5	4	3	2	5	4	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:113617081C>T	uc001tup.2	-	4	459	c.431G>A	c.(430-432)AGT>AAT	p.S144N	DDX54_uc001tuq.3_Missense_Mutation_p.S144N	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	144	ATP (By similarity).|Helicase ATP-binding.				estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						TGTCTTGCCACTGCCCGTCCG	0.647													6	13					0	0	0.00308	0	0		T	113617081	T	T	113617081	3	4	15	1	0	0	0	0	1	0	0	0	4375	565	20	4	2285	4	DDX54	12	113617081	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1663089	113617081	20234814	494	11328											
KDM2B	84678	broad.mit.edu	37	chr12	121970842	121970842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagcgccaaattgtgcagcGttggaggaatcagccaaaaa	15	6	11	9	2	1	0	1	0	0	0	1	2	1	2	2	2	4	2	2	2	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:121970842G>A	uc001uat.2	-	8	904	c.800C>T	c.(799-801)ACG>ATG	p.T267M	KDM2B_uc001uas.2_Missense_Mutation_p.T236M|KDM2B_uc001uau.2_Missense_Mutation_p.T150M|KDM2B_uc001uav.3_Intron	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	267	JmjC.				embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						ATTGTGCAGCGTTGGAGGAAT	0.557													30	32					0	0	0.009535	0	0		A	121970842	A	A	121970842	3	1	15	1	0	0	0	0	1	0	0	0	8141	1145	40	1	3326	1	KDM2B	12	121970842	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	8353761	121970842	11881053	495	11329											
VPS33A	65082	broad.mit.edu	37	chr12	122750948	122750948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggccgtaggacagatgaGccgccatcttgctccaccac	8	7	10	16	3	1	2	0	1	1	1	3	3	2	3	5	2	2	2	5	2	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:122750948G>A	uc001ucd.2	-	1	121	c.8C>T	c.(7-9)GCT>GTT	p.A3V	VPS33A_uc001ucc.2_RNA|VPS33A_uc001uce.2_Missense_Mutation_p.A3V	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	3					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		GGACAGATGAGCCGCCATCTT	0.647													7	13					0	0	0.00308	0	0		A	122750948	A	A	122750948	3	1	15	1	0	0	0	0	1	0	0	0	17227	971	34	2	1834	2	VPS33A	12	122750948	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	780106	122750948	11100947	496	11330											
PITPNM2	57605	broad.mit.edu	37	chr12	123489928	123489928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagacggcttcgtgcttgaCgagctcagtggcctcctcac	6	9	12	14	4	2	2	2	1	0	1	4	4	3	2	2	2	2	3	2	2	0	2	rs138122520		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:123489928C>T	uc001uej.1	-	6	950	c.811G>A	c.(811-813)GTC>ATC	p.V271I	PITPNM2_uc001uek.1_Missense_Mutation_p.V271I|PITPNM2_uc009zxu.1_Missense_Mutation_p.V271I	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	271					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)		TCGTGCTTGACGAGCTCAGTG	0.622													30	60					0	0	0.013726	0	0		T	123489928	T	T	123489928	3	4	15	1	0	0	0	0	1	0	0	0	11970	536	19	1	3318	1	PITPNM2	12	123489928	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	738980	123489928	10361967	497	11331											
DNAH10	196385	broad.mit.edu	37	chr12	124371810	124371810	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctgttcacggatgcccAtgtggctgaggagggcttcc	5	12	13	11	1	2	1	1	1	1	0	3	3	3	3	2	4	1	3	2	4	0	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:124371810A>G	uc001uft.3	+	51	8616	c.8591A>G	c.(8590-8592)CAT>CGT	p.H2864R		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2864	AAA 4 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		ACGGATGCCCATGTGGCTGAG	0.547													14	15					0	0	0.004007	0	0		G	124371810	G	G	124371810	3	3	15	1	0	0	0	0	1	0	0	0	4604	217	8	3	8793	3	DNAH10	12	124371810	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	881882	124371810	9480085	498	11332											
FZD10	11211	broad.mit.edu	37	chr12	130647844	130647844	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccggctcaagtgctccccGattatggagcagttcaactt	8	10	10	13	2	2	0	2	0	0	0	3	2	3	1	3	2	3	4	3	2	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr12:130647844G>A	uc001uii.2	+	1	813	c.357G>A	c.(355-357)CCG>CCA	p.P119P	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	119	FZ.|Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		AGTGCTCCCCGATTATGGAGC	0.627													34	54					0	0	0.00623	0	0		A	130647844	A	A	130647844	2	1	15	1	0	0	0	0	0	0	0	1	6143	1045	37	1		1	FZD10	12	130647844	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6276034	130647844	3204051	499	11333											
PDX1	3651	broad.mit.edu	37	chr13	28498612	28498612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggaggaggacaagaagcGcggcggcgggacagctgtcg	12	2	19	8	5	0	1	0	0	0	1	1	5	0	5	0	6	2	1	0	6	3	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:28498612G>A	uc001urt.2	+	2	734	c.626G>A	c.(625-627)CGC>CAC	p.R209H		NM_000209	NP_000200	P52945	PDX1_HUMAN	pancreatic and duodenal homeobox 1	209					detection of glucose|generation of precursor metabolites and energy|insulin secretion|nitric oxide mediated signal transduction|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|type B pancreatic cell differentiation	nucleus	sequence-specific DNA binding transcription factor activity				0	all_cancers(110;0.175)|all_hematologic(3;0.0447)|Acute lymphoblastic leukemia(6;0.155)	Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0402)|all cancers(112;0.0404)|OV - Ovarian serous cystadenocarcinoma(117;0.197)		GACAAGAAGCGCGGCGGCGGG	0.592													10	11					0	0	0.003163	0	0		A	28498612	A	A	28498612	3	1	15	1	0	0	0	0	1	0	0	0	11714	1087	38	1	632	1	PDX1	13	28498612	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08		28498612	86671266	500	11334											
FRY	10129	broad.mit.edu	37	chr13	32821607	32821607	+	Frame_Shift_Del	DEL	A	-	-																															cttccaaggaattacctgggAaaaccctggacttccacttc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:32821607delA	uc001utx.2	+	48	7472	c.6976delA	c.(6976-6978)AAAfs	p.K2326fs	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2326					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		ATTACCTGGGAAAACCCTGGA	0.408													39	89	---	---	---	---						.	-	32821607	-	-	32821607	7	5	15	1	0	1	0	1	0	0	0	0	6077	247	9	0	7166	0	FRY	13	32821607	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	4322995	32821607	82348271	501	11335											
NBEA	26960	broad.mit.edu	37	chr13	36006531	36006531	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaaagctgcaatagaatatgGttagtaccaatgcttcttcc	13	12	8	8	0	1	1	0	0	1	1	2	2	2	1	2	1	4	5	2	1	8	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:36006531G>C	uc001uvb.2	+	39	6510	c.6304_splice	c.e39+1	p.G2102_splice	NBEA_uc010abi.2_Splice_Site_p.G758_splice	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin							cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		ATAGAATATGGTTAGTACCAA	0.398													4	53					0	0	0.009096	0	0		C	36006531	C	C	36006531	5	2	15	1	0	0	0	0	0	0	1	0	10205	1275	44	5	6459	5	NBEA	13	36006531	Splice_Site	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3184924	36006531	79163347	502	11336											
DCLK1	9201	broad.mit.edu	37	chr13	36385001	36385001	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaatgatttctggagccacGtatgttggggtgccacagac	9	10	13	9	1	1	2	0	1	1	1	1	3	1	3	2	3	2	3	2	3	2	3	rs144489471	byFrequency	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:36385001G>A	uc001uvf.2	-	12	1892	c.1659C>T	c.(1657-1659)TAC>TAT	p.Y553Y	DCLK1_uc001uve.3_Silent_p.Y246Y|DCLK1_uc010teh.1_Silent_p.Y246Y|DCLK1_uc010abk.2_Silent_p.Y73Y	NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	553	Protein kinase.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		CTGGAGCCACGTATGTTGGGG	0.478													7	239					0	0	0.00308	0	0		A	36385001	A	A	36385001	2	1	15	1	0	0	0	0	0	0	0	1	4294	1140	40	1		1	DCLK1	13	36385001	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	378470	36385001	78784877	503	11337											
FREM2	341640	broad.mit.edu	37	chr13	39264788	39264788	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actccctgaatgatgacatcTtgtgcactatagttattcag	11	14	7	9	0	2	3	1	3	1	0	3	3	3	3	1	0	1	2	1	0	4	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:39264788T>A	uc001uwv.2	+	1	3616	c.3307T>A	c.(3307-3309)TTG>ATG	p.L1103M		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1103	Extracellular (Potential).|CSPG 7.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TGATGACATCTTGTGCACTAT	0.398													5	133					0	0	0.000602	0	0		A	39264788	A	A	39264788	3	1	15	1	0	0	0	0	1	0	0	0	6059	1606	56	5	3309	5	FREM2	13	39264788	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2879787	39264788	75905090	504	11338											
NHLRC3	387921	broad.mit.edu	37	chr13	39621842	39621842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgggaagtacttgattgtgGcccagctgaatcttagcagg	10	11	13	7	0	1	2	0	2	1	0	1	3	1	3	1	3	3	3	1	3	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:39621842G>A	uc001uxc.2	+	7	1145	c.823G>A	c.(823-825)GCC>ACC	p.A275T	NHLRC3_uc001uxd.2_Missense_Mutation_p.A208T|NHLRC3_uc001uxe.2_Missense_Mutation_p.A78T	NM_001012754	NP_001012772	Q5JS37	NHLC3_HUMAN	NHL repeat containing 3 isoform a	275						extracellular region				skin(1)	1		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;2.37e-08)|Epithelial(112;3.14e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00101)|BRCA - Breast invasive adenocarcinoma(63;0.00335)|GBM - Glioblastoma multiforme(144;0.0128)		CTTGATTGTGGCCCAGCTGAA	0.418													4	78					0	0	0.000602	0	0		A	39621842	A	A	39621842	3	1	15	1	0	0	0	0	1	0	0	0	10426	1203	42	2	849	2	NHLRC3	13	39621842	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	357054	39621842	75548036	505	11339											
ELF1	1997	broad.mit.edu	37	chr13	41533046	41533046	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgaactctcagtaatcAtgtcattgggctcttccaca	10	12	7	12	0	4	1	3	1	2	0	6	1	5	1	2	1	1	2	2	1	2	3	rs138470719	by1000genomes	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:41533046A>G	uc001uxs.2	-	3	552	c.179T>C	c.(178-180)ATG>ACG	p.M60T	ELF1_uc010tfc.1_Missense_Mutation_p.M60T|ELF1_uc010acd.2_5'UTR	NM_172373	NP_758961	P32519	ELF1_HUMAN	E74-like factor 1 (ets domain transcription	60					positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung NSC(96;8.3e-05)|Prostate(109;0.0233)|Breast(139;0.0296)|Lung SC(185;0.0367)		all cancers(112;1.87e-08)|Epithelial(112;8.45e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000202)|GBM - Glioblastoma multiforme(144;0.00266)|BRCA - Breast invasive adenocarcinoma(63;0.072)		CTCAGTAATCATGTCATTGGG	0.453													49	106					0	0	0.01441	0	0		G	41533046	G	G	41533046	3	3	15	1	0	0	0	0	1	0	0	0	5061	217	8	3	1708	3	ELF1	13	41533046	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1911204	41533046	73636832	506	11340											
MTRF1	9617	broad.mit.edu	37	chr13	41797467	41797467	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattatatgtccgaattcgCtctgactgggctcttgttcc	8	15	8	10	2	2	1	0	1	2	0	5	2	4	1	2	1	0	3	2	1	4	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:41797467C>T	uc001uxx.2	-	11	1619	c.1149G>A	c.(1147-1149)GAG>GAA	p.E383E	MTRF1_uc001uxy.2_Silent_p.E383E|MTRF1_uc001uxz.2_Silent_p.E219E|MTRF1_uc010tff.1_Silent_p.E396E|uc001uxv.1_Intron	NM_004294	NP_004285	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	383					regulation of translational termination	mitochondrion	translation release factor activity, codon specific				0		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)		TCCGAATTCGCTCTGACTGGG	0.378													85	142					0	0	0.01441	0	0		T	41797467	T	T	41797467	2	4	15	1	0	0	0	0	0	0	0	1	9977	796	28	2		2	MTRF1	13	41797467	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	264421	41797467	73372411	507	11341											
SPERT	220082	broad.mit.edu	37	chr13	46287863	46287863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgaagaaggaccacgtcGccctgcaggtgccccgtggc	7	6	15	13	3	0	2	0	1	0	1	1	3	0	3	4	4	2	1	4	4	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:46287863G>A	uc001van.1	+	3	783	c.703G>A	c.(703-705)GCC>ACC	p.A235T	SPERT_uc001vao.2_Missense_Mutation_p.A199T	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	235						cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		GGACCACGTCGCCCTGCAGGT	0.677													12	24					0	0	0.001855	0	0		A	46287863	A	A	46287863	3	1	15	1	0	0	0	0	1	0	0	0	15064	1087	38	1	713	1	SPERT	13	46287863	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	4490396	46287863	68882015	508	11342											
KPNA3	3839	broad.mit.edu	37	chr13	50296149	50296149	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcagagattgacaatgAcccatgtgacgttccgaagg	11	9	11	10	2	0	4	0	3	0	1	2	6	2	4	3	1	1	2	3	1	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:50296149A>G	uc001vdj.2	-	9	1083	c.668T>C	c.(667-669)GTC>GCC	p.V223A		NM_002267	NP_002258	O00505	IMA3_HUMAN	karyopherin alpha 3	223	NLS binding site (major) (By similarity).|ARM 4.				interspecies interaction between organisms|NLS-bearing substrate import into nucleus|protein complex assembly	cytoplasm|nuclear pore	nuclear localization sequence binding|protein transporter activity				0		Lung NSC(96;2.46e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.42e-09)		ATTGACAATGACCCATGTGAC	0.463													25	91					0	0	0.00333	0	0		G	50296149	G	G	50296149	3	3	15	1	0	0	0	0	1	0	0	0	8447	275	10	3	933	3	KPNA3	13	50296149	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	4008286	50296149	64873729	509	11343											
SERPINE3	647174	broad.mit.edu	37	chr13	51922396	51922396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggtgggggtgctggagcttCcttacctgggaagtgcagtg	6	10	18	7	0	0	0	0	0	0	0	1	2	1	2	2	5	4	3	2	5	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:51922396C>T	uc001vfh.2	+	4	808	c.748C>T	c.(748-750)CCT>TCT	p.P250S	SERPINE3_uc010tgp.1_Missense_Mutation_p.P250S	NM_001101320	NP_001094790	A8MV23	SERP3_HUMAN	nexin-related serine protease inhibitor	250					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)	2						GCTGGAGCTTCCTTACCTGGG	0.597													9	9					0	0	0.006214	0	0		T	51922396	T	T	51922396	3	4	15	1	0	0	0	0	1	0	0	0	14138	855	30	4	762	4	SERPINE3	13	51922396	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1626247	51922396	63247482	510	11344											
SUGT1	10910	broad.mit.edu	37	chr13	53250454	53250454	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgccaaaacaattcgtagcAggtttgttttctggccttga	10	13	9	9	2	1	1	0	1	1	0	2	1	1	1	2	2	2	4	2	2	4	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:53250454A>G	uc001vhc.2	+	12	1038	c.813A>G	c.(811-813)GCA>GCG	p.A271A	SUGT1_uc001vha.2_RNA|SUGT1_uc001vhb.2_Silent_p.A239A|SUGT1_uc010thb.1_Silent_p.A183A|SUGT1_uc001vhd.2_Silent_p.A128A	NM_001130912	NP_001124384	Q9Y2Z0	SUGT1_HUMAN	suppressor of G2 allele of SKP1 isoform a	271					mitosis	kinetochore|ubiquitin ligase complex	binding				0		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.25e-08)		AATTCGTAGCAGGTTTGTTTT	0.358													9	38					0	0	0.004482	0	0		G	53250454	G	G	53250454	2	3	15	1	0	0	0	0	0	0	0	1	15394	202	7	3		3	SUGT1	13	53250454	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1328058	53250454	61919424	511	11345											
PCDH17	27253	broad.mit.edu	37	chr13	58206969	58206969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaccgcgagtccctgtgcCgccacaatgccaagtgccag	8	6	11	16	4	0	0	0	0	0	0	2	2	1	0	6	0	3	0	6	0	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:58206969C>T	uc001vhq.1	+	1	1181	c.289C>T	c.(289-291)CGC>TGC	p.R97C	PCDH17_uc010aec.1_Missense_Mutation_p.R97C	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	97	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GTCCCTGTGCCGCCACAATGC	0.617													12	18					0	0	0.010729	0	0		T	58206969	T	T	58206969	3	4	15	1	0	0	0	0	1	0	0	0	11531	652	23	1	291	1	PCDH17	13	58206969	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	4956515	58206969	56962909	512	11346											
EDNRB	1910	broad.mit.edu	37	chr13	78492678	78492678	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaccagcgcaaccagggCgcgtccgcacagacttggag	12	3	13	13	4	0	2	0	0	0	2	1	3	1	3	3	2	3	2	3	2	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:78492678C>T	uc001vko.2	-	1	289	c.31G>A	c.(31-33)GCC>ACC	p.A11T	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.A11T|EDNRB_uc010aez.1_Missense_Mutation_p.A11T|EDNRB_uc001vkp.1_Missense_Mutation_p.A94T|EDNRB_uc010afa.1_Missense_Mutation_p.A11T	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	11					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	GCAACCAGGGCGCGTCCGCAC	0.642											OREG0022452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	30					0	0	0.000602	0	0		T	78492678	T	T	78492678	3	4	15	1	0	0	0	0	1	0	0	0	4926	768	27	1	1446	1	EDNRB	13	78492678	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	20285709	78492678	36677200	513	11347											
DOCK9	23348	broad.mit.edu	37	chr13	99505739	99505739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actggtcaagtttatcacagCgaaccacggaatttcccaat	13	10	7	11	2	2	0	2	0	0	0	3	2	3	1	2	2	2	1	2	2	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:99505739C>T	uc001vnt.2	-	35	3927	c.3872G>A	c.(3871-3873)CGC>CAC	p.R1291H	DOCK9_uc001vnw.2_Missense_Mutation_p.R1290H|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.R1291H|DOCK9_uc010tip.1_5'UTR|DOCK9_uc010tiq.1_Missense_Mutation_p.R269H	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1291					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TTTATCACAGCGAACCACGGA	0.378													77	231					0	0	0.01441	0	0		T	99505739	T	T	99505739	3	4	15	1	0	0	0	0	1	0	0	0	4700	768	27	1	2421	1	DOCK9	13	99505739	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	21013061	99505739	15664139	514	11348											
UBAC2	337867	broad.mit.edu	37	chr13	99966475	99966475	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttatatattgggactgcagGtacagtatgcatttttatgt	10	18	9	4	0	0	0	0	0	0	0	0	1	0	1	0	2	3	4	0	2	6	10			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:99966475G>A	uc001voa.3	+	5	997	c.513_splice	c.e5+1	p.Q171_splice	UBAC2_uc010tiu.1_Splice_Site_p.Q193_splice|UBAC2_uc001vob.3_Splice_Site_p.Q144_splice|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Splice_Site_p.Q58_splice|UBAC2_uc001voc.2_Splice_Site_p.Q136_splice|UBAC2_uc010tiw.1_Intron|UBAC2_uc001voh.2_Splice_Site	NM_001144072	NP_001137544	Q8NBM4	UBAC2_HUMAN	UBA domain containing 2 isoform 1							integral to membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					GGGACTGCAGGTACAGTATGC	0.338													8	142					0	0	0.004482	0	0		A	99966475	A	A	99966475	5	1	15	1	0	0	0	0	0	0	1	0	16861	1275	44	4	692	4	UBAC2	13	99966475	Splice_Site	SNP	G	TCGA-BR-4280-01A-01D-1126-08	460736	99966475	15203403	515	11349											
MCF2L	23263	broad.mit.edu	37	chr13	113731509	113731509	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaggcactggcaaagtcGccctgcccctccccaggtct	6	6	10	19	2	1	0	0	0	1	0	3	1	2	0	6	3	1	2	6	3	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr13:113731509G>A	uc001vsu.2	+	13	1837	c.1815G>A	c.(1813-1815)TCG>TCA	p.S605S	MCF2L_uc001vsq.2_Silent_p.S605S|MCF2L_uc010tjr.1_Silent_p.S548S|MCF2L_uc001vsr.2_Silent_p.S552S|MCF2L_uc001vss.3_Silent_p.S546S|MCF2L_uc010tjs.1_Silent_p.S546S|MCF2L_uc001vst.1_Silent_p.S510S	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	578					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				TGGCAAAGTCGCCCTGCCCCT	0.721													4	5					0	0	0.000602	0	0		A	113731509	A	A	113731509	2	1	15	1	0	0	0	0	0	0	0	1	9397	1074	38	1		1	MCF2L	13	113731509	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	13765034	113731509	1438369	516	11350											
OR11H12	440153	broad.mit.edu	37	chr14	19377709	19377709	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttgtgagtggacaattcAgatcttcctcttctcactct	8	15	6	12	0	5	2	2	1	4	1	7	3	6	3	1	1	0	0	1	1	1	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:19377709A>C	uc010tkp.1	+	1	116	c.116A>C	c.(115-117)CAG>CCG	p.Q39P		NM_001013354	NP_001013372	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H,	39	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGGACAATTCAGATCTTCCTC	0.423													48	59					0	0	0.01441	0	0		C	19377709	C	C	19377709	3	2	15	1	0	0	0	0	1	0	0	0	10946	188	7	5	118	5	OR11H12	14	19377709	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08		19377709	87971831	517	11351											
POTEG	404785	broad.mit.edu	37	chr14	19553565	19553565	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacttctggagaccacgAcgattctgctatgaagacac	11	8	11	11	2	2	3	0	1	2	2	2	6	2	3	1	2	1	2	1	2	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:19553565A>G	uc001vuz.1	+	1	201	c.149A>G	c.(148-150)GAC>GGC	p.D50G	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	50										ovary(1)	1						GGAGACCACGACGATTCTGCT	0.602													18	478					0	0	0.007835	0	0		G	19553565	G	G	19553565	3	3	15	1	0	0	0	0	1	0	0	0	12285	275	10	3	151	3	POTEG	14	19553565	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	175856	19553565	87795975	518	11352											
OR4Q3	441669	broad.mit.edu	37	chr14	20215981	20215981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccatctgtaaccctttgcGctaccttacagtcatgaacc	9	12	6	14	1	2	1	1	1	1	0	2	1	2	1	4	0	6	2	4	0	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:20215981G>A	uc010tkt.1	+	1	395	c.395G>A	c.(394-396)CGC>CAC	p.R132H		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	132	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AACCCTTTGCGCTACCTTACA	0.493													19	114					0	0	0.012319	0	0		A	20215981	A	A	20215981	3	1	15	1	0	0	0	0	1	0	0	0	11100	1087	38	1	397	1	OR4Q3	14	20215981	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	662416	20215981	87133559	519	11353											
OR4M1	441670	broad.mit.edu	37	chr14	20248625	20248625	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatccttatcatttgcacCatcaggctagaccctcatct	11	13	4	13	0	4	1	3	0	1	1	5	1	5	1	3	1	1	2	3	1	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:20248625C>A	uc010tku.1	+	1	144	c.144C>A	c.(142-144)ACC>ACA	p.T48T		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	48	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCATTTGCACCATCAGGCTAG	0.433													84	448					2.36867e-37	2.85008e-37	0.01441	1	0		A	20248625	A	A	20248625	2	1	15	1	0	0	0	0	0	0	0	1	11094	581	21	5		5	OR4M1	14	20248625	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	32644	20248625	87100915	520	11354											
OR4L1	122742	broad.mit.edu	37	chr14	20529031	20529031	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcttgccgtattttatacAgttatcacacccttactgaa	11	15	4	11	1	2	1	1	1	1	0	2	1	2	1	2	0	3	2	2	0	6	7			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:20529031A>T	uc001vwn.1	+	1	828	c.828A>T	c.(826-828)ACA>ACT	p.T276T		NM_001004717	NP_001004717	Q8NH43	OR4L1_HUMAN	olfactory receptor, family 4, subfamily L,	276	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		TATTTTATACAGTTATCACAC	0.363													51	60					0	0	0.01441	0	0		T	20529031	T	T	20529031	2	4	15	1	0	0	0	0	0	0	0	1	11093	175	7	5		5	OR4L1	14	20529031	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	280406	20529031	86820509	521	11355											
ANG	283	broad.mit.edu	37	chr14	21162101	21162101	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccacagcggggttcagaaaCgttgttgttgcttgtgaaaa	10	11	13	7	2	1	2	1	1	0	1	1	2	1	2	1	2	3	5	1	2	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:21162101C>T	uc001vxw.3	+	2	978	c.378C>T	c.(376-378)AAC>AAT	p.N126N	RNASE4_uc001vxx.3_Intron|RNASE4_uc001vxy.3_Intron|ANG_uc001vxz.2_Silent_p.N126N|RNASE4_uc001vya.2_Intron	NM_001145	NP_001136	P03950	ANGI_HUMAN	angiogenin, ribonuclease, RNase A family, 5	126					actin filament polymerization|activation of phospholipase A2 activity|activation of phospholipase C activity|activation of protein kinase B activity|angiogenesis|cell communication|cell death|cell migration|diacylglycerol biosynthetic process|homeostatic process|negative regulation of smooth muscle cell proliferation|negative regulation of translation|oocyte maturation|ovarian follicle development|placenta development|positive regulation of endothelial cell proliferation|positive regulation of phosphorylation|positive regulation of protein secretion|response to hormone stimulus|response to hypoxia|rRNA transcription	angiogenin-PRI complex|basal lamina|extracellular space|growth cone|neuronal cell body|nucleolus	actin binding|copper ion binding|heparin binding|pancreatic ribonuclease activity|peptide binding|receptor binding|rRNA binding			ovary(1)	1	all_cancers(95;0.00387)	all_cancers(140;0.196)|all_epithelial(140;0.156)	Epithelial(56;5.13e-07)|all cancers(55;4.73e-06)	OV - Ovarian serous cystadenocarcinoma(311;3.25e-17)|GBM - Glioblastoma multiforme(265;5.56e-07)		GGTTCAGAAACGTTGTTGTTG	0.532													32	43					0	0	0.009718	0	0		T	21162101	T	T	21162101	2	4	15	1	0	0	0	0	0	0	0	1	607	535	19	1		1	ANG	14	21162101	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	633070	21162101	86187439	522	11356											
RNASE1	6035	broad.mit.edu	37	chr14	21270141	21270141	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttcttggcccgggattcCttgcccagggaaggctggac	7	10	13	11	1	1	0	0	0	1	0	2	3	2	3	3	5	1	1	3	5	2	4	rs150792279		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:21270141C>T	uc001vyf.2	-	2	263	c.87G>A	c.(85-87)AAG>AAA	p.K29K	RNASE1_uc001vyg.2_Silent_p.K29K|RNASE1_uc001vyh.2_Silent_p.K29K|RNASE1_uc001vyi.2_Silent_p.K29K	NM_198232	NP_937875	P07998	RNAS1_HUMAN	pancreatic ribonuclease precursor	29						extracellular region	nucleic acid binding|pancreatic ribonuclease activity|protein binding				0	all_cancers(95;0.00671)	all_lung(585;0.235)	Epithelial(56;9.21e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0126)		CCCGGGATTCCTTGCCCAGGG	0.572													10	14					0	0	0.001855	0	0		T	21270141	T	T	21270141	2	4	15	1	0	0	0	0	0	0	0	1	13424	680	24	4		4	RNASE1	14	21270141	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	108040	21270141	86079399	523	11357											
NDRG2	57447	broad.mit.edu	37	chr14	21488953	21488953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttcttacagcatatctcGccaggatgtaggctccagct	9	13	8	11	1	2	0	0	0	2	0	4	1	3	1	2	2	3	4	2	2	4	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:21488953G>A	uc001vyy.2	-	8	608	c.458C>T	c.(457-459)GCG>GTG	p.A153V	NDRG2_uc010tll.1_Missense_Mutation_p.A149V|NDRG2_uc001vyt.2_Missense_Mutation_p.A66V|NDRG2_uc001vyu.2_Missense_Mutation_p.A139V|NDRG2_uc001vyv.2_Missense_Mutation_p.A139V|NDRG2_uc001vyw.2_Missense_Mutation_p.A139V|NDRG2_uc001vzb.2_Missense_Mutation_p.A93V|NDRG2_uc001vyx.2_Missense_Mutation_p.A153V|NDRG2_uc001vza.2_Missense_Mutation_p.A139V|NDRG2_uc001vyz.2_Missense_Mutation_p.A139V|NDRG2_uc001vzc.2_Missense_Mutation_p.A139V|NDRG2_uc001vze.2_Missense_Mutation_p.A153V|NDRG2_uc001vzd.2_Missense_Mutation_p.A153V|NDRG2_uc001vzg.2_Missense_Mutation_p.A139V|NDRG2_uc001vzf.2_Missense_Mutation_p.A139V|NDRG2_uc010aig.2_Missense_Mutation_p.A153V	NM_201540	NP_963834	Q9UN36	NDRG2_HUMAN	N-myc downstream-regulated gene 2 isoform a	153					cell differentiation|nervous system development	centrosome|cytosol|Golgi apparatus|nucleus|perinuclear region of cytoplasm				ovary(1)|breast(1)	2	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;6.85e-11)|Epithelial(56;9.49e-09)|all cancers(55;3.84e-08)	GBM - Glioblastoma multiforme(265;0.0191)		AGCATATCTCGCCAGGATGTA	0.458													52	53					0	0	0.01441	0	0		A	21488953	A	A	21488953	3	1	15	1	0	0	0	0	1	0	0	0	10271	1087	38	1	697	1	NDRG2	14	21488953	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	218812	21488953	85860587	524	11358											
CDH24	64403	broad.mit.edu	37	chr14	23517497	23517497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaacacgtctcggcgcgCgggagggccgggcgccgggg	4	2	22	13	8	1	0	0	0	1	0	2	1	1	1	2	7	1	1	2	7	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:23517497C>T	uc001wil.2	-	13	2412	c.2152G>A	c.(2152-2154)GCG>ACG	p.A718T	CDH24_uc001wik.3_RNA|CDH24_uc010akf.2_Missense_Mutation_p.A680T	NM_022478	NP_071923	Q86UP0	CAD24_HUMAN	cadherin-like 24 isoform 1	718	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|cell-cell adhesion|homophilic cell adhesion	cell-cell junction|cell-cell junction|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|delta-catenin binding			central_nervous_system(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		TCTcggcgcgcgggagggccg	0.607													4	9					0	0	0.001168	0	0		T	23517497	T	T	23517497	3	4	15	1	0	0	0	0	1	0	0	0	3112	768	27	1	311	1	CDH24	14	23517497	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2028544	23517497	83832043	525	11359											
CDH24	64403	broad.mit.edu	37	chr14	23523785	23523785	+	Frame_Shift_Del	DEL	C	-	-																															accgtagtgctgcctgacagCccccccatgtggccgcccat																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:23523785delC	uc001wil.2	-	5	974	c.714delG	c.(712-714)GGGfs	p.G238fs	CDH24_uc010akf.2_Frame_Shift_Del_p.G238fs|CDH24_uc001win.3_Frame_Shift_Del_p.G238fs	NM_022478	NP_071923	Q86UP0	CAD24_HUMAN	cadherin-like 24 isoform 1	238	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|cell-cell adhesion|homophilic cell adhesion	cell-cell junction|cell-cell junction|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|delta-catenin binding			central_nervous_system(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		TGCCTGACAGCCCCCCCATGT	0.607											OREG0022594	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	33	---	---	---	---						.	-	23523785	-	-	23523785	7	5	15	1	0	1	0	1	0	0	0	0	3112	726	26	0	1781	0	CDH24	14	23523785	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	6288	23523785	83825755	526	11360											
PABPN1	8106	broad.mit.edu	37	chr14	23777209	23777209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaggctcagcccaacaacGcttcacccaggtctccgatg	9	6	8	18	2	3	0	2	0	1	0	4	1	3	0	4	2	3	2	4	2	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:23777209G>A	uc001wjh.3	+	3	421	c.233G>A	c.(232-234)CGC>CAC	p.R78H	BCL2L2_uc001wjg.3_Missense_Mutation_p.R78H|BCL2L2_uc001wji.3_Missense_Mutation_p.R78H	NM_004643	NP_004634	Q86U42	PABP2_HUMAN	poly(A) binding protein, nuclear 1	Error:Variant_position_missing_in_Q86U42_after_alignment					modification by virus of host mRNA processing|mRNA 3'-end processing|muscle contraction|nuclear mRNA splicing, via spliceosome|poly(A)+ mRNA export from nucleus|termination of RNA polymerase II transcription|viral infectious cycle	cytoplasm|nucleoplasm|ribonucleoprotein complex	nucleotide binding|protein binding|RNA binding			ovary(2)	2	all_cancers(95;6.69e-06)			GBM - Glioblastoma multiforme(265;0.00643)		GCCCAACAACGCTTCACCCAG	0.607													4	43					0	0	0.009096	0	0		A	23777209	A	A	23777209	3	1	15	1	0	0	0	0	1	0	0	0	11387	1087	38	1		1	PABPN1	14	23777209	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	253424	23777209	83572331	527	11361											
MYH6	4624	broad.mit.edu	37	chr14	23855229	23855229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtctgctccaccacggcacGcagctcctccagctcagcct	6	8	8	19	2	2	0	1	0	1	0	5	0	5	0	5	1	4	5	5	1	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:23855229G>A	uc001wjv.2	-	34	5138	c.5071C>T	c.(5071-5073)CGT>TGT	p.R1691C		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1691	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		ACCACGGCACGCAGCTCCTCC	0.657													16	22					0	0	0.007413	0	0		A	23855229	A	A	23855229	3	1	15	1	0	0	0	0	1	0	0	0	10056	1087	38	1	772	1	MYH6	14	23855229	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	78020	23855229	83494311	528	11362											
PCK2	5106	broad.mit.edu	37	chr14	24572069	24572069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagggtgtccccattgacGccatcatctttggtggccgc	6	10	12	13	2	2	2	1	1	1	1	3	2	3	2	4	3	0	0	4	3	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:24572069G>A	uc001wlt.2	+	8	1474	c.1342G>A	c.(1342-1344)GCC>ACC	p.A448T	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Missense_Mutation_p.A460T|PCK2_uc010tnw.1_Missense_Mutation_p.A314T|PCK2_uc010tnx.1_Missense_Mutation_p.A314T|PCK2_uc001wlu.3_Missense_Mutation_p.A314T	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	448					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		CCCCATTGACGCCATCATCTT	0.577													31	53					0	0	0.010818	0	0		A	24572069	A	A	24572069	3	1	15	1	0	0	0	0	1	0	0	0	11601	1087	38	1	1464	1	PCK2	14	24572069	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	716840	24572069	82777471	529	11363											
IPO4	79711	broad.mit.edu	37	chr14	24655530	24655530	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagtctcccccatcagcTcaatctccaactcttcctct	7	12	5	17	0	6	0	2	0	4	0	9	1	7	1	4	1	2	1	4	1	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:24655530T>G	uc001wmv.1	-	10	1099	c.968A>C	c.(967-969)GAG>GCG	p.E323A	IPO4_uc001wmt.1_5'Flank|IPO4_uc001wmu.2_5'UTR|IPO4_uc001wmx.1_Missense_Mutation_p.E187A|IPO4_uc001wmy.1_Missense_Mutation_p.E187A|IPO4_uc010tnz.1_RNA|IPO4_uc001wmw.1_RNA|IPO4_uc001wmz.1_Missense_Mutation_p.E323A	NM_024658	NP_078934	Q8TEX9	IPO4_HUMAN	importin 4	323					intracellular protein transport	cytoplasm|nucleus	protein binding|protein transporter activity			kidney(1)	1				GBM - Glioblastoma multiforme(265;0.0087)		CCCCATCAGCTCAATCTCCAA	0.587													9	281					0	0	0.006214	0	0		G	24655530	G	G	24655530	3	3	15	1	0	0	0	0	1	0	0	0	7811	1551	54	5	2361	5	IPO4	14	24655530	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	83461	24655530	82694010	530	11364											
TGM1	7051	broad.mit.edu	37	chr14	24727798	24727798	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctcgtcgaagtagatgTccatggtaagggatgtgtct	8	14	13	6	2	2	1	0	0	2	1	5	3	3	2	1	2	0	3	1	2	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:24727798T>C	uc001wod.2	-	8	1365	c.1241A>G	c.(1240-1242)GAC>GGC	p.D414G	TGM1_uc010tog.1_Intron	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	414					cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	GAAGTAGATGTCCATGGTAAG	0.567													28	33					0	0	0.013726	0	0		C	24727798	C	C	24727798	3	2	15	1	0	0	0	0	1	0	0	0	15854	1667	58	3	1244	3	TGM1	14	24727798	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	72268	24727798	82621742	531	11365											
PRKD1	5587	broad.mit.edu	37	chr14	30103733	30103733	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctcatgagtgggatattgTtgcttgttgatggacttgag	7	15	13	6	0	1	3	1	3	0	0	1	5	1	5	1	2	1	3	1	2	1	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:30103733T>G	uc001wqh.2	-	8	1386	c.1205A>C	c.(1204-1206)AAC>ACC	p.N402T		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	402					cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TGGGATATTGTTGCTTGTTGA	0.393													7	155					0	0	0.004482	0	0		G	30103733	G	G	30103733	3	3	15	1	0	0	0	0	1	0	0	0	12540	1725	60	5	1577	5	PRKD1	14	30103733	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	5375935	30103733	77245807	532	11366											
SCFD1	23256	broad.mit.edu	37	chr14	31188570	31188570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attttgatcccaaaatgctgCggggcaatgacaggtaagca	13	9	11	8	1	0	2	0	2	0	0	1	2	1	2	1	3	3	4	1	3	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:31188570C>T	uc001wqm.1	+	21	1747	c.1723C>T	c.(1723-1725)CGG>TGG	p.R575W	SCFD1_uc001wqn.1_Missense_Mutation_p.R508W|SCFD1_uc010tpg.1_Missense_Mutation_p.R516W|SCFD1_uc010tph.1_Missense_Mutation_p.R390W|SCFD1_uc010amf.1_Missense_Mutation_p.R390W|SCFD1_uc010tpi.1_Missense_Mutation_p.R483W|SCFD1_uc010ame.1_Missense_Mutation_p.R508W	NM_016106	NP_057190	Q8WVM8	SCFD1_HUMAN	vesicle transport-related protein isoform a	575					post-Golgi vesicle-mediated transport|protein transport|regulation of ER to Golgi vesicle-mediated transport|response to toxin|retrograde vesicle-mediated transport, Golgi to ER|vesicle docking involved in exocytosis	cis-Golgi network|endoplasmic reticulum membrane|Golgi cisterna membrane|Golgi-associated vesicle|plasma membrane	syntaxin-5 binding				0	Hepatocellular(127;0.0877)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)	GBM - Glioblastoma multiforme(265;0.0181)		CAAAATGCTGCGGGGCAATGA	0.333													39	64					0	0	0.011902	0	0		T	31188570	T	T	31188570	3	4	15	1	0	0	0	0	1	0	0	0	13914	759	27	1	1805	1	SCFD1	14	31188570	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1084837	31188570	76160970	533	11367											
HECTD1	25831	broad.mit.edu	37	chr14	31638663	31638663	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agatctggatttgcaccatgCcgtaacagagtctagagaag	13	9	11	8	1	2	3	0	0	2	3	2	5	2	4	2	1	3	2	2	1	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:31638663C>T	uc001wrc.1	-	9	1833	c.1344G>A	c.(1342-1344)CGG>CGA	p.R448R	HECTD1_uc001wrd.1_5'Flank	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	448	ANK 2.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		TTGCACCATGCCGTAACAGAG	0.358													32	56					0	0	0.003271	0	0		T	31638663	T	T	31638663	2	4	15	1	0	0	0	0	0	0	0	1	7055	726	26	2		2	HECTD1	14	31638663	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	450093	31638663	75710877	534	11368											
AKAP6	9472	broad.mit.edu	37	chr14	33015700	33015700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctcctctccaagtcacgTcactaggaatggtgaggttg	9	10	11	11	1	3	1	2	1	1	0	5	2	4	2	3	3	1	1	3	3	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:33015700T>C	uc001wrq.2	+	4	2011	c.1841T>C	c.(1840-1842)GTC>GCC	p.V614A	AKAP6_uc010aml.2_Missense_Mutation_p.V611A	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	614					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CCAAGTCACGTCACTAGGAAT	0.478													44	53					0	0	0.011902	0	0		C	33015700	C	C	33015700	3	2	15	1	0	0	0	0	1	0	0	0	455	1667	58	3	1851	3	AKAP6	14	33015700	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1377037	33015700	74333840	535	11369											
INSM2	84684	broad.mit.edu	37	chr14	36005056	36005057	+	Frame_Shift_Ins	INS	-	T	T																															tgcaagcactgcccgtccacINStttttttagctctccagggc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:36005056_36005057insT	uc001wth.1	+	1	1809_1810	c.1598_1599insT	c.(1597-1599)ACTfs	p.T533fs		NM_032594	NP_115983	Q96T92	INSM2_HUMAN	insulinoma-associated protein IA-6	533	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)|skin(1)	2	Breast(36;0.122)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(9;2.16e-07)|Lung(238;2.63e-07)|Epithelial(34;0.00145)|all cancers(34;0.00452)	GBM - Glioblastoma multiforme(112;0.0223)		TGCCCGTCCACTTTTTTTAGCT	0.629													17	26	---	---	---	---						.	T	36005057	T	T	36005056	7	5	15	1	0	1	1	0	0	0	0	0	7788	565	20	0	1600	0	INSM2	14	36005056	Frame_Shift_Ins	INS	-	TCGA-BR-4280-01A-01D-1126-08	2989356	36005056	71344484	536	11370											
SEC23A	10484	broad.mit.edu	37	chr14	39514489	39514489	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatcaggactattgttaaAaacttgcaggaaagaagatc	16	10	8	7	0	2	2	2	0	0	2	3	4	2	4	0	2	2	2	0	2	6	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:39514489A>G	uc001wup.1	-	16	2000	c.1777T>C	c.(1777-1779)TTT>CTT	p.F593L	SEC23A_uc010tqa.1_Missense_Mutation_p.F479L|SEC23A_uc010tqb.1_Missense_Mutation_p.F564L	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	593					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		CTATTGTTAAAAACTTGCAGG	0.323													3	56					0	0	0.004672	0	0		G	39514489	G	G	39514489	3	3	15	1	0	0	0	0	1	0	0	0	14016	14	1	3	540	3	SEC23A	14	39514489	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	3509433	39514489	67835051	537	11371											
KLHL28	54813	broad.mit.edu	37	chr14	45414534	45414534	+	Frame_Shift_Del	DEL	A	-	-																															gatccaagactctaatgcatAaaaaacagtctcttcggtag																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:45414534delA	uc001wvq.2	-	2	844	c.598delT	c.(598-600)TATfs	p.Y200fs	KLHL28_uc001wvr.2_Frame_Shift_Del_p.Y200fs|KLHL28_uc001wvt.3_Frame_Shift_Del_p.Y200fs	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	200										ovary(1)	1						TCTAATGCATAAAAAACAGTC	0.368													32	69	---	---	---	---						.	-	45414534	-	-	45414534	7	5	15	1	0	1	0	1	0	0	0	0	8398	362	13	0	1133	0	KLHL28	14	45414534	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	5900045	45414534	61935006	538	11372											
C14orf182	283551	broad.mit.edu	37	chr14	50472448	50472448	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtcaggctccacacaggTtctactgctcctcttcctcc	5	13	6	17	0	4	0	1	0	3	0	8	0	8	0	4	2	2	3	4	2	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:50472448T>C	uc001wxi.1	-	1	1791	c.70A>G	c.(70-72)ACC>GCC	p.T24A		NM_001012706	NP_001012724	A1A4T8	CN182_HUMAN	hypothetical protein LOC283551	24											0						TCCACACAGGTTCTACTGCTC	0.502													5	250					0	0	0.001168	0	0		C	50472448	C	C	50472448	3	2	15	1	0	0	0	0	1	0	0	0	1768	1725	60	3	265	3	C14orf182	14	50472448	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	5057914	50472448	56877092	539	11373											
TBPL2	387332	broad.mit.edu	37	chr14	55900349	55900349	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagggatgattcctcataccTtttggctcccgtgcagacca	8	11	10	12	1	1	2	1	1	0	1	3	4	3	3	4	2	2	2	4	2	1	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:55900349T>C	uc001xby.2	-	4	787	c.787A>G	c.(787-789)AGT>GGT	p.S263G		NM_199047	NP_950248	Q6SJ96	TBPL2_HUMAN	TATA box binding protein like 2	263					multicellular organismal development|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding				0						TCCTCATACCTTTTGGCTCCC	0.443													55	69					0	0	0.01441	0	0		C	55900349	C	C	55900349	3	2	15	1	0	0	0	0	1	0	0	0	15671	1623	56	3	356	3	TBPL2	14	55900349	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	5427901	55900349	51449191	540	11374											
C14orf105	55195	broad.mit.edu	37	chr14	57938138	57938138	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtcctcaccagtgctcGtggcttcttctcatctttcc	3	15	7	16	1	4	0	2	0	3	0	8	0	6	0	4	2	1	2	4	2	0	3	rs144453893	by1000genomes	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:57938138G>C	uc001xcy.2	-	6	969	c.826C>G	c.(826-828)CGA>GGA	p.R276G	C14orf105_uc010trl.1_Missense_Mutation_p.R316G|C14orf105_uc010trm.1_Missense_Mutation_p.R187G|C14orf105_uc010trn.1_Missense_Mutation_p.R187G|C14orf105_uc001xcz.2_Missense_Mutation_p.R275G	NM_018168	NP_060638	Q9NVL8	CN105_HUMAN	hypothetical protein LOC55195	276											0						ACCAGTGCTCGTGGCTTCTTC	0.453													15	35					0	0	0.008871	0	0		C	57938138	C	C	57938138	3	2	15	1	0	0	0	0	1	0	0	0	1740	1153	40	5	68	5	C14orf105	14	57938138	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2037789	57938138	49411402	541	11375											
WDR89	112840	broad.mit.edu	37	chr14	64065892	64065892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcctggatgttcaaacGtgtaactggttcatcagtgt	10	13	10	8	1	3	0	3	0	0	0	4	2	4	1	1	2	2	3	1	2	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:64065892G>A	uc001xgh.2	-	3	1015	c.769C>T	c.(769-771)CGT>TGT	p.R257C	WDR89_uc001xgi.2_Missense_Mutation_p.R257C	NM_001008726	NP_001008726	Q96FK6	WDR89_HUMAN	WD repeat domain 89	257											0				OV - Ovarian serous cystadenocarcinoma(108;0.00543)|all cancers(60;0.0181)|BRCA - Breast invasive adenocarcinoma(234;0.101)		ATGTTCAAACGTGTAACTGGT	0.383													56	83					0	0	0.01441	0	0		A	64065892	A	A	64065892	3	1	15	1	0	0	0	0	1	0	0	0	17362	1145	40	1	398	1	WDR89	14	64065892	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6127754	64065892	43283648	542	11376											
SYNE2	23224	broad.mit.edu	37	chr14	64655326	64655326	+	Frame_Shift_Del	DEL	A	-	-																															tacatgggttgtattcaatgAaaaaaataaagagttgtgtg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:64655326delA	uc001xgm.2	+	98	18001	c.17771delA	c.(17770-17772)GAAfs	p.E5924fs	SYNE2_uc001xgl.2_Frame_Shift_Del_p.E5924fs|SYNE2_uc010apy.2_Frame_Shift_Del_p.E2309fs|SYNE2_uc001xgn.2_Frame_Shift_Del_p.E886fs|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_5'UTR|SYNE2_uc001xgq.2_Frame_Shift_Del_p.E289fs	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5924	Spectrin 5.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GTATTCAATGAAAAAAATAAA	0.388													36	69	---	---	---	---						.	-	64655326	-	-	64655326	7	5	15	1	0	1	0	1	0	0	0	0	15471	246	9	0	18157	0	SYNE2	14	64655326	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	589434	64655326	42694214	543	11377											
ACTN1	87	broad.mit.edu	37	chr14	69358881	69358881	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttctcctgcaccttgggCggcttgtgcaggcgccggta	4	10	13	14	3	1	0	0	0	1	0	2	0	1	0	3	4	2	4	3	4	1	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:69358881C>T	uc001xkl.2	-	10	1285	c.975G>A	c.(973-975)CCG>CCA	p.P325P	ACTN1_uc010ttb.1_Silent_p.P260P|ACTN1_uc001xkm.2_Silent_p.P325P|ACTN1_uc001xkn.2_Silent_p.P325P|ACTN1_uc001xko.1_Silent_p.P260P|ACTN1_uc010ttd.1_Silent_p.P304P	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	325	Spectrin 1.|Interaction with DDN.				focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		GCACCTTGGGCGGCTTGTGCA	0.622													7	56					0	0	0.001984	0	0		T	69358881	T	T	69358881	2	4	15	1	0	0	0	0	0	0	0	1	204	755	27	1		1	ACTN1	14	69358881	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	4703555	69358881	37990659	544	11378											
C14orf115	55237	broad.mit.edu	37	chr14	74824119	74824119	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcatccggccccgccgctgCgaccacgtgccctccacgct	4	6	10	21	6	1	0	1	0	0	0	3	1	3	0	7	1	2	2	7	1	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:74824119C>T	uc001xpw.3	+	2	824	c.633C>T	c.(631-633)TGC>TGT	p.C211C		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	211					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		CCCGCCGCTGCGACCACGTGC	0.637													12	7					0	0	0.012319	0	0		T	74824119	T	T	74824119	2	4	15	1	0	0	0	0	0	0	0	1	1743	776	27	1		1	C14orf115	14	74824119	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5465238	74824119	32525421	545	11379											
PSMC1	5700	broad.mit.edu	37	chr14	90735804	90735804	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgttggaactgctgaaccaGttggatggatttgattctag	10	14	12	5	0	1	2	0	2	1	0	1	5	1	5	1	3	3	3	1	3	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:90735804G>C	uc001xyf.2	+	9	993	c.945G>C	c.(943-945)CAG>CAC	p.Q315H	PSMC1_uc001xyg.2_Missense_Mutation_p.Q242H|PSMC1_uc001xyh.2_Missense_Mutation_p.Q242H	NM_002802	NP_002793	P62191	PRS4_HUMAN	proteasome 26S ATPase subunit 1	315					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0		all_cancers(154;0.142)		COAD - Colon adenocarcinoma(157;0.21)		TGCTGAACCAGTTGGATGGAT	0.398													38	61					0	0	0.011902	0	0		C	90735804	C	C	90735804	3	2	15	1	0	0	0	0	1	0	0	0	12707	1020	36	5	979	5	PSMC1	14	90735804	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	15911685	90735804	16613736	546	11380											
FAM181A	90050	broad.mit.edu	37	chr14	94395475	94395475	+	Frame_Shift_Del	DEL	C	-	-																															tccccaccaagccagccgtgCccccacccatcttcaatgtc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:94395475delC	uc001ybz.1	+	3	1337	c.1030delC	c.(1030-1032)CCCfs	p.P344fs	C14orf86_uc001yby.2_5'Flank|FAM181A_uc010aus.1_Frame_Shift_Del_p.P282fs|FAM181A_uc001yca.1_Frame_Shift_Del_p.P282fs	NM_138344	NP_612353	Q8N9Y4	F181A_HUMAN	hypothetical protein LOC90050	344											0						GCCAGCCGTGCCCCCACCCAT	0.672													14	25	---	---	---	---						.	-	94395475	-	-	94395475	7	5	15	1	0	1	0	1	0	0	0	0	5519	739	26	0	1036	0	FAM181A	14	94395475	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	3659671	94395475	12954065	547	11381											
ASB2	51676	broad.mit.edu	37	chr14	94413763	94413763	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgttggtcttgttggcgtcGgcaccctgtgacagcagaaa	7	12	13	9	2	1	2	0	1	1	1	2	2	1	2	1	3	1	4	1	3	1	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:94413763G>A	uc001ycc.1	-	5	1329	c.840C>T	c.(838-840)GCC>GCT	p.A280A	ASB2_uc001ycd.2_Silent_p.A328A|ASB2_uc001yce.1_Silent_p.A226A	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	280	ANK 7.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		TGTTGGCGTCGGCACCCTGTG	0.617													27	43					0	0	0.007291	0	0		A	94413763	A	A	94413763	2	1	15	1	0	0	0	0	0	0	0	1	1024	1103	39	1		1	ASB2	14	94413763	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	18288	94413763	12935777	548	11382											
SETD3	84193	broad.mit.edu	37	chr14	99871696	99871696	+	Frame_Shift_Del	DEL	A	-	-																															tgcgttggatcgagtgccatAaaaaatgtaaatctgagatg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:99871696delA	uc001ygc.2	-	10	1107	c.937delT	c.(937-939)TATfs	p.Y313fs		NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	313	SET.				peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				CGAGTGCCATAAAAAATGTAA	0.398													34	47	---	---	---	---						.	-	99871696	-	-	99871696	7	5	15	1	0	1	0	1	0	0	0	0	14157	362	13	0	863	0	SETD3	14	99871696	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	5457933	99871696	7477844	549	11383											
ADSSL1	122622	broad.mit.edu	37	chr14	105208323	105208323	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgggcatcggggccttccCcaccgagcagatcaacgtga	8	7	13	13	3	1	2	1	1	0	1	3	3	2	2	4	3	2	2	4	3	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr14:105208323C>A	uc001ypd.2	+	9	1006	c.932C>A	c.(931-933)CCC>CAC	p.P311H	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Missense_Mutation_p.P354H|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	311					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	GGGGCCTTCCCCACCGAGCAG	0.682													34	52					2.24893e-16	2.63057e-16	0.009718	1	0		A	105208323	A	A	105208323	3	1	15	1	0	0	0	0	1	0	0	0	348	623	22	5	1291	5	ADSSL1	14	105208323	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5336627	105208323	2141217	550	11384											
MAGEL2	54551	broad.mit.edu	37	chr15	23890722	23890722	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctgcggtctatagaagagGccctgcattctcctgatgga	8	10	11	12	1	2	3	0	1	2	2	3	4	2	4	3	3	2	1	3	3	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:23890722G>A	uc001ywj.3	-	1	454	c.359C>T	c.(358-360)GCC>GTC	p.A120V		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		TATAGAAGAGGCCCTGCATTC	0.592													4	5					0	0	0.009096	0	0		A	23890722	A	A	23890722	3	1	15	1	0	0	0	0	1	0	0	0	9207	1203	42	2	1585	2	MAGEL2	15	23890722	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08		23890722	78640670	551	11385											
C15orf2	23742	broad.mit.edu	37	chr15	24923624	24923624	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagcattgcctcagcccaAgtctccaccagttttcctgc	8	10	7	16	0	2	0	1	0	1	0	4	1	3	0	5	0	4	2	5	0	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:24923624A>C	uc001ywo.2	+	1	3084	c.2610A>C	c.(2608-2610)CAA>CAC	p.Q870H		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	870					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CCTCAGCCCAAGTCTCCACCA	0.498													39	45					0	0	0.00623	0	0		C	24923624	C	C	24923624	3	2	15	1	0	0	0	0	1	0	0	0	1787	69	3	5	2612	5	C15orf2	15	24923624	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1032902	24923624	77607768	552	11386											
OTUD7A	161725	broad.mit.edu	37	chr15	31776530	31776530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggcgtggtcttttccgacGgcgacgtgctggccgacgca	5	8	15	13	8	1	0	0	0	1	0	2	3	2	0	2	4	1	2	2	4	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:31776530G>A	uc001zfq.2	-	11	1841	c.1748C>T	c.(1747-1749)CCG>CTG	p.P583L	OTUD7A_uc001zfr.2_Missense_Mutation_p.P590L	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	583						cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		CTTTTCCGACGGCGACGTGCT	0.697													5	2					0	0	0.000602	0	0		A	31776530	A	A	31776530	3	1	15	1	0	0	0	0	1	0	0	0	11337	1116	39	1	1036	1	OTUD7A	15	31776530	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6852906	31776530	70754862	553	11387											
FMN1	342184	broad.mit.edu	37	chr15	33358802	33358802	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcatgtctcatcttgcgCttgagagcttccagctcaga	7	14	8	12	1	4	2	3	1	3	2	7	3	5	2	1	0	3	3	1	0	0	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:33358802C>T	uc001zhf.3	-	1	1284	c.1284G>A	c.(1282-1284)AAG>AAA	p.K428K	FMN1_uc001zhg.2_Silent_p.K428K	NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	178	Microtubule-binding (By similarity).				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		TCATCTTGCGCTTGAGAGCTT	0.527													9	24					0	0	0.013537	0	0		T	33358802	T	T	33358802	2	4	15	1	0	0	0	0	0	0	0	1	5963	796	28	2		2	FMN1	15	33358802	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1582272	33358802	69172590	554	11388											
TMCO5A	145942	broad.mit.edu	37	chr15	38228551	38228551	+	Frame_Shift_Del	DEL	A	-	-																															atctcaagattggctcagtcAaaaagaaacattatcagttt																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:38228551delA	uc001zjw.2	+	2	130	c.27delA	c.(25-27)TCAfs	p.S9fs	TMCO5A_uc001zjv.1_Frame_Shift_Del_p.S9fs|TMCO5A_uc010bbc.1_Frame_Shift_Del_p.S9fs	NM_152453	NP_689666	Q8N6Q1	TMC5A_HUMAN	transmembrane and coiled-coil domains 5A	9						integral to membrane				central_nervous_system(1)	1						TGGCTCAGTCAAAAAGAAACA	0.403													47	91	---	---	---	---						.	-	38228551	-	-	38228551	7	5	15	1	0	1	0	1	0	0	0	0	16024	117	5	0	29	0	TMCO5A	15	38228551	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	4869749	38228551	64302841	555	11389											
BUB1B	701	broad.mit.edu	37	chr15	40477506	40477506	+	Frame_Shift_Del	DEL	C	-	-																															cagtccagccatggatagcaCcccccatgcccagggccaaa																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:40477506delC	uc001zkx.3	+	7	1104	c.892delC	c.(892-894)CCCfs	p.P298fs	BUB1B_uc010ucl.1_Frame_Shift_Del_p.P161fs	NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	298					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		ATGGATAGCACCCCCCATGCC	0.478			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				57	114	---	---	---	---						.	-	40477506	-	-	40477506	7	5	15	1	0	1	0	1	0	0	0	0	1574	507	18	0	918	0	BUB1B	15	40477506	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	2248955	40477506	62053886	556	11390											
PLA2G4E	123745	broad.mit.edu	37	chr15	42302336	42302338	+	In_Frame_Del	DEL	CCA	-	-																															tttccagaacactggcccccCcaccccgggcctggaccaca																								rs28736629		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:42302336_42302338delCCA	uc001zow.1	-	1	108_110	c.108_110delTGG	c.(106-111)GGTGGG>GGG	p.36_37GG>G		NM_001080490	NP_001073959	Q3MJ16	PA24E_HUMAN	phospholipase A2, group 4E	Error:Variant_position_missing_in_Q3MJ16_after_alignment					phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity				0		all_cancers(109;8.09e-13)|all_epithelial(112;2.03e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.0273)		OV - Ovarian serous cystadenocarcinoma(18;7.61e-18)|GBM - Glioblastoma multiforme(94;3.07e-06)		ACTGGCCCCCCCACCCCGGGCCT	0.591													11	18	---	---	---	---						.	-	42302338	-	-	42302336	7	5	15	1	0	1	0	1	0	0	0	0	12024	623	22	0	2485	0	PLA2G4E	15	42302336	In_Frame_Del	DEL	CCA	TCGA-BR-4280-01A-01D-1126-08	1824830	42302336	60229056	557	11391											
TGM5	9333	broad.mit.edu	37	chr15	43545709	43545709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccagggacctcaccatggCacacaccactctgctgacgt	9	6	9	17	2	2	1	1	1	1	0	2	2	2	2	4	2	1	2	4	2	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:43545709C>T	uc001zrd.1	-	5	687	c.679G>A	c.(679-681)GCC>ACC	p.A227T	TGM5_uc001zre.1_Missense_Mutation_p.A145T	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	227					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	CTCACCATGGCACACACCACT	0.647													9	32					0	0	0.006214	0	0		T	43545709	T	T	43545709	3	4	15	1	0	0	0	0	1	0	0	0	15858	710	25	2	1519	2	TGM5	15	43545709	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1243373	43545709	58985683	558	11392											
RNF111	54778	broad.mit.edu	37	chr15	59359012	59359012	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaacggaaactggccctccTgcaatgccaaggttaccttc	10	9	9	13	1	0	0	0	0	0	0	2	1	1	1	4	3	5	3	4	3	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:59359012T>C	uc002afv.2	+	6	1695	c.1416T>C	c.(1414-1416)CCT>CCC	p.P472P	RNF111_uc002afs.2_Silent_p.P472P|RNF111_uc002aft.2_Silent_p.P472P|RNF111_uc002afu.2_Silent_p.P472P|RNF111_uc002afw.2_Silent_p.P472P|RNF111_uc002afx.2_5'UTR	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	472					multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		CTGGCCCTCCTGCAATGCCAA	0.448													43	47					0	0	0.013114	0	0		C	59359012	C	C	59359012	2	2	15	1	0	0	0	0	0	0	0	1	13450	1567	55	3		3	RNF111	15	59359012	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	15813303	59359012	43172380	559	11393											
RNF111	54778	broad.mit.edu	37	chr15	59373146	59373146	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgcagatgcctctttgAcaaggccacttcatcatcaa	10	13	6	12	0	5	2	3	1	2	1	5	2	5	2	2	1	2	1	2	1	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:59373146A>G	uc002afv.2	+	8	2239	c.1960A>G	c.(1960-1962)ACA>GCA	p.T654A	RNF111_uc002afs.2_Missense_Mutation_p.T654A|RNF111_uc002aft.2_Missense_Mutation_p.T654A|RNF111_uc002afu.2_Missense_Mutation_p.T653A|RNF111_uc002afw.2_Missense_Mutation_p.T654A|RNF111_uc002afx.2_Missense_Mutation_p.T180A	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	654	Pro-rich.				multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		TGCCTCTTTGACAAGGCCACT	0.423													49	72					0	0	0.01441	0	0		G	59373146	G	G	59373146	3	3	15	1	0	0	0	0	1	0	0	0	13450	275	10	3	1986	3	RNF111	15	59373146	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	14134	59373146	43158246	560	11394											
NARG2	79664	broad.mit.edu	37	chr15	60758863	60758863	+	Frame_Shift_Del	DEL	A	-	-																															atttctttgcagaattctgcAaaaactttaggaactcagta																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:60758863delA	uc002agp.2	-	5	693	c.458delT	c.(457-459)TTGfs	p.L153fs	NARG2_uc002ago.2_Frame_Shift_Del_p.L16fs|NARG2_uc010bgk.2_Frame_Shift_Del_p.L153fs|NARG2_uc002agr.1_Frame_Shift_Del_p.L153fs	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	153						nucleus				ovary(1)|lung(1)	2						AGAATTCTGCAAAAACTTTAG	0.318													27	49	---	---	---	---						.	-	60758863	-	-	60758863	7	5	15	1	0	1	0	1	0	0	0	0	10187	131	5	0	2538	0	NARG2	15	60758863	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	1385717	60758863	41772529	561	11395											
HERC1	8925	broad.mit.edu	37	chr15	63904497	63904497	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagaaatgtcagcagtgtTggctggtagtcgagatcttc	9	12	13	7	1	2	2	1	1	1	2	4	4	2	2	0	2	1	4	0	2	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:63904497T>C	uc002amp.2	-	77	14501	c.14353A>G	c.(14353-14355)AAC>GAC	p.N4785D	HERC1_uc002amo.2_5'Flank	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	4785	HECT.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TCAGCAGTGTTGGCTGGTAGT	0.443													8	23					0	0	0.001855	0	0		C	63904497	C	C	63904497	3	2	15	1	0	0	0	0	1	0	0	0	7073	1812	63	3	240	3	HERC1	15	63904497	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	3145634	63904497	38626895	562	11396											
FAM96A	84191	broad.mit.edu	37	chr15	64373351	64373351	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttactcttaagcacagccCtgtggagggaaaatcacacc	12	10	8	11	0	2	0	1	0	1	0	2	2	2	2	2	2	3	1	2	2	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:64373351C>A	uc002amt.1	-	3	530	c.290_splice	c.e3-1	p.G97_splice	FAM96A_uc002amu.1_Intron|FAM96A_uc010uin.1_Intron	NM_032231	NP_115607	Q9H5X1	FA96A_HUMAN	family with sequence similarity 96, member A						chromosome segregation						0						AAGCACAGCCCTGTGGAGGGA	0.338													23	43					4.16121e-05	4.5425e-05	0.00278	1	0		A	64373351	A	A	64373351	5	1	15	1	0	0	0	0	0	0	1	0	5668	695	24	5	205	5	FAM96A	15	64373351	Splice_Site	SNP	C	TCGA-BR-4280-01A-01D-1126-08	468854	64373351	38158041	563	11397											
CYP11A1	1583	broad.mit.edu	37	chr15	74640300	74640300	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taggcgacccagggcgggatGaggaatcgttctgggttggg	7	8	19	7	3	1	1	0	1	1	0	2	4	1	3	1	6	0	2	1	6	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:74640300G>A	uc002axt.2	-	2	521	c.366C>T	c.(364-366)CTC>CTT	p.L122L	CYP11A1_uc002axs.2_5'UTR|CYP11A1_uc010bjm.1_Intron|CYP11A1_uc010bjn.1_RNA|CYP11A1_uc010bjo.1_Silent_p.L122L|CYP11A1_uc010ulj.1_5'UTR|CYP11A1_uc010bjq.2_Silent_p.L122L	NM_000781	NP_000772	P05108	CP11A_HUMAN	cytochrome P450, family 11, subfamily A,	122					C21-steroid hormone biosynthetic process|cholesterol metabolic process|vitamin D metabolic process|xenobiotic metabolic process	mitochondrial matrix	cholesterol monooxygenase (side-chain-cleaving) activity|electron carrier activity|heme binding			ovary(2)	2					Aminoglutethimide(DB00357)|Cholecalciferol(DB00169)|Cimetidine(DB00501)|Clotrimazole(DB00257)|Digitoxin(DB01396)|Digoxin(DB00390)|Medroxyprogesterone(DB00603)|Ouabain(DB01092)|Progesterone(DB00396)|Testosterone(DB00624)|Trilostane(DB01108)	AGGGCGGGATGAGGAATCGTT	0.577													14	29					0	0	0.00245	0	0		A	74640300	A	A	74640300	2	1	15	1	0	0	0	0	0	0	0	1	4147	1277	45	4		4	CYP11A1	15	74640300	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	10266949	74640300	27891092	564	11398											
AP3B2	8120	broad.mit.edu	37	chr15	83333197	83333197	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggactccccagagccgCtctcactgctgctcttactg	5	11	9	16	1	2	1	1	0	2	1	4	2	3	2	3	1	5	4	3	1	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:83333197C>A	uc010uoh.1	-	18	2303	c.2126G>T	c.(2125-2127)AGC>ATC	p.S709I	AP3B2_uc010uoi.1_Missense_Mutation_p.S728I|AP3B2_uc010uoj.1_Missense_Mutation_p.S677I|AP3B2_uc010bmp.2_5'Flank|AP3B2_uc010uog.1_Missense_Mutation_p.S345I|AP3B2_uc002biy.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	709	Glu/Ser-rich.				endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			CCCAGAGCCGCTCTCACTGCT	0.557													24	16					7.38237e-10	8.40093e-10	0.00632	1	0		A	83333197	A	A	83333197	3	1	15	1	0	0	0	0	1	0	0	0	745	797	28	5	1158	5	AP3B2	15	83333197	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	8692897	83333197	19198195	565	11399											
BLM	641	broad.mit.edu	37	chr15	91295092	91295092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttccatgtattgaatttgAtgatgatgattatgatacgg	12	16	10	3	1	0	6	0	6	0	0	1	6	1	6	1	1	1	2	1	1	4	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr15:91295092A>G	uc002bpr.2	+	4	972	c.875A>G	c.(874-876)GAT>GGT	p.D292G	BLM_uc010uqh.1_Missense_Mutation_p.D292G|BLM_uc010uqi.1_5'UTR|BLM_uc010bnx.2_Missense_Mutation_p.D292G	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	292	Poly-Asp.				double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			ATTGAATTTGATGATGATGAT	0.318			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				7	71					0	0	0.001984	0	0		G	91295092	G	G	91295092	3	3	15	1	0	0	0	0	1	0	0	0	1446	333	12	3	885	3	BLM	15	91295092	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	7961895	91295092	11236300	566	11400											
SOLH	6650	broad.mit.edu	37	chr16	603483	603483	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccccccactcacgccagaGgtcgccggtctgcatgggcc	6	5	12	18	3	2	1	1	0	1	1	3	1	2	1	6	3	2	1	6	3	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:603483G>T	uc002chi.2	+	14	3591	c.3228G>T	c.(3226-3228)GAG>GAT	p.E1076D	SOLH_uc002chj.2_Missense_Mutation_p.E136D	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	1076					proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				TCACGCCAGAGGTCGCCGGTC	0.672													10	13					1.58986e-06	1.76957e-06	0.008291	1	0		T	603483	T	T	603483	3	4	15	1	0	0	0	0	1	0	0	0	14950	991	35	5	3270	5	SOLH	16	603483	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08		603483	89751270	567	11401											
TELO2	9894	broad.mit.edu	37	chr16	1556268	1556268	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggcagggcccggcaggcagCcccagcagattcaactccgt	9	4	13	15	2	1	1	1	0	0	1	2	1	2	1	4	4	3	4	4	4	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:1556268C>T	uc002cly.2	+	17	2355	c.2064C>T	c.(2062-2064)AGC>AGT	p.S688S		NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	688						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				CGGCAGGCAGCCCCAGCAGAT	0.662													11	15					0	0	0.013537	0	0		T	1556268	T	T	1556268	2	4	15	1	0	0	0	0	0	0	0	1	15782	738	26	2		2	TELO2	16	1556268	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	952785	1556268	88798485	568	11402											
PKD1	5310	broad.mit.edu	37	chr16	2158763	2158763	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggacggtcaccgtggcctgCgccacgaagaagctcaccag	9	5	13	14	4	2	1	2	0	0	1	2	3	2	2	4	3	2	1	4	3	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:2158763C>T	uc002cos.1	-	15	6614	c.6405G>A	c.(6403-6405)GCG>GCA	p.A2135A	PKD1_uc002cot.1_Silent_p.A2135A	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2135	PKD 17.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CCGTGGCCTGCGCCACGAAGA	0.672													3	1					0	0	0.004672	0	0		T	2158763	T	T	2158763	2	4	15	1	0	0	0	0	0	0	0	1	11982	755	27	1		1	PKD1	16	2158763	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	602495	2158763	88195990	569	11403											
ZSCAN10	84891	broad.mit.edu	37	chr16	3142748	3142748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgcagagctcccggagcCggctcagggacgcccgtggc	5	3	17	16	5	1	1	1	0	0	1	2	3	2	3	4	5	2	3	4	5	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:3142748C>T	uc002ctv.1	-	1	114	c.26G>A	c.(25-27)CGG>CAG	p.R9Q	ZSCAN10_uc002cty.1_Intron|ZSCAN10_uc002ctw.1_Silent_p.P16P|ZSCAN10_uc002ctx.1_5'UTR	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	9	SCAN box.				negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						CTCCCGGAGCCGGCTCAGGGA	0.657													8	2					0	0	0.008291	0	0		T	3142748	T	T	3142748	3	4	15	1	0	0	0	0	1	0	0	0	18252	652	23	1	2171	1	ZSCAN10	16	3142748	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	983985	3142748	87212005	570	11404											
ZNF205	7755	broad.mit.edu	37	chr16	3170075	3170075	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcacaaccgcacacacacaGgcgagaagccctaccactgc	13	2	8	18	3	0	1	0	0	0	1	0	2	0	1	3	1	4	2	3	1	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:3170075G>T	uc002cub.2	+	7	1549	c.1414G>T	c.(1414-1416)GGC>TGC	p.G472C	ZNF205_uc002cua.2_Missense_Mutation_p.G472C	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	472					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						CACACACACAGGCGAGAAGCC	0.672													25	39					4.7796e-09	5.38822e-09	0.004656	1	0		T	3170075	T	T	3170075	3	4	15	1	0	0	0	0	1	0	0	0	17789	1000	35	5	1436	5	ZNF205	16	3170075	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	27327	3170075	87184678	571	11405											
GRIN2A	2903	broad.mit.edu	37	chr16	9934585	9934585	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccacaaagggcacagagaAgtccaccacttcagaacgtt	14	7	8	12	1	1	2	1	0	0	2	3	3	3	2	3	1	1	2	3	1	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:9934585A>C	uc002czo.3	-	7	2118	c.1570T>G	c.(1570-1572)TTC>GTC	p.F524V	GRIN2A_uc010uym.1_Missense_Mutation_p.F524V|GRIN2A_uc010uyn.1_Missense_Mutation_p.F367V|GRIN2A_uc002czr.3_Missense_Mutation_p.F524V	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	524	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GGCACAGAGAAGTCCACCACT	0.458													10	68					0	0	0.010729	0	0		C	9934585	C	C	9934585	3	2	15	1	0	0	0	0	1	0	0	0	6795	72	3	5	2852	5	GRIN2A	16	9934585	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	6764510	9934585	80420168	572	11406											
ITPRIPL2	162073	broad.mit.edu	37	chr16	19127146	19127146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatacgctcttccactgcGtcctgggccctggtggggcg	3	9	14	15	3	1	0	0	0	1	0	3	0	3	0	4	4	2	1	4	4	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:19127146G>A	uc002dfu.3	+	1	1893	c.1363G>A	c.(1363-1365)GTC>ATC	p.V455I	ITPRIPL2_uc002dft.2_Missense_Mutation_p.V151I	NM_001034841	NP_001030013	Q3MIP1	IPIL2_HUMAN	inositol 1,4,5-triphosphate receptor interacting	455	Cytoplasmic (Potential).					integral to membrane				skin(2)	2						CTTCCACTGCGTCCTGGGCCC	0.672													16	30					0	0	0.00278	0	0		A	19127146	A	A	19127146	3	1	15	1	0	0	0	0	1	0	0	0	7941	1145	40	1	1365	1	ITPRIPL2	16	19127146	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	9192561	19127146	71227607	573	11407											
PLK1	5347	broad.mit.edu	37	chr16	23695383	23695383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcctggaccccagcaacCggaagcccctcacagtcctc	9	4	9	19	1	1	0	1	0	0	0	3	2	2	2	7	2	4	2	7	2	2	0	rs150139246		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:23695383C>T	uc002dlz.1	+	5	1062	c.1009C>T	c.(1009-1011)CGG>TGG	p.R337W		NM_005030	NP_005021	P53350	PLK1_HUMAN	polo-like kinase 1	337	D-box that targets the protein for proteasomal degradation in anaphase.			R->A: Interferes with ubiquitination and subsequent proteasomal degradation in anaphase; when associated with A-340.	anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G2/M transition DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic prophase|negative regulation of cyclin-dependent protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|protein localization to chromatin|protein ubiquitination|regulation of mitotic anaphase|regulation of protein binding	centrosome|condensed nuclear chromosome outer kinetochore|cytosol|nucleoplasm|spindle microtubule|spindle midzone|spindle pole	anaphase-promoting complex binding|ATP binding|polo kinase kinase activity|protein kinase binding			lung(1)|skin(1)	2				GBM - Glioblastoma multiforme(48;0.0156)		CCCCAGCAACCGGAAGCCCCT	0.557													32	88					0	0	0.013726	0	0		T	23695383	T	T	23695383	3	4	15	1	0	0	0	0	1	0	0	0	12113	643	23	1	1027	1	PLK1	16	23695383	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	4568237	23695383	66659370	574	11408											
AQP8	343	broad.mit.edu	37	chr16	25228660	25228660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctctcttcatcttcatcGggtgcctgtcggtcattgag	4	15	10	12	2	5	1	3	1	2	0	8	1	5	1	1	2	2	1	1	2	0	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:25228660G>A	uc002doc.2	+	2	236	c.154G>A	c.(154-156)GGG>AGG	p.G52R		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	52	Helical; (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		CATCTTCATCGGGTGCCTGTC	0.637													8	136					0	0	0.00308	0	0		A	25228660	A	A	25228660	3	1	15	1	0	0	0	0	1	0	0	0	832	1116	39	1	160	1	AQP8	16	25228660	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1533277	25228660	65126093	575	11409											
KIAA0556	23247	broad.mit.edu	37	chr16	27709693	27709693	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgtctgcaacccgcaaaActctttgcgaggctgagtac	9	9	9	14	2	2	1	0	1	2	0	2	2	2	1	2	1	5	4	2	1	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:27709693A>C	uc002dow.2	+	9	1009	c.985A>C	c.(985-987)ACT>CCT	p.T329P	KIAA0556_uc002dox.1_Missense_Mutation_p.T237P	NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	329										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						AACCCGCAAAACTCTTTGCGA	0.577													4	107					0	0	0.004482	0	0		C	27709693	C	C	27709693	3	2	15	1	0	0	0	0	1	0	0	0	8199	43	2	5	1019	5	KIAA0556	16	27709693	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	2481033	27709693	62645060	576	11410											
TAOK2	9344	broad.mit.edu	37	chr16	29997132	29997132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagtgtcgccagtacaagCgcaagatgttgctggctcgg	8	9	14	10	3	0	1	0	0	0	1	2	1	0	1	1	2	4	6	1	2	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:29997132C>T	uc002dva.1	+	15	2725	c.1942C>T	c.(1942-1944)CGC>TGC	p.R648C	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Missense_Mutation_p.R648C|TAOK2_uc002dvc.1_Missense_Mutation_p.R648C|TAOK2_uc010bzm.1_Missense_Mutation_p.R655C|TAOK2_uc002dvd.1_Missense_Mutation_p.R475C	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	648					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CCAGTACAAGCGCAAGATGTT	0.652													8	10					0	0	0.013537	0	0		T	29997132	T	T	29997132	3	4	15	1	0	0	0	0	1	0	0	0	15573	768	27	1	1996	1	TAOK2	16	29997132	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2287439	29997132	60357621	577	11411											
ZNF768	79724	broad.mit.edu	37	chr16	30536832	30536832	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaggtggccctatgggcAggtcccctgtgggctgctcc	6	8	14	13	0	0	0	0	0	0	0	2	0	2	0	4	5	1	3	4	5	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:30536832A>G	uc002dyk.3	-	2	805	c.629T>C	c.(628-630)CTG>CCG	p.L210P	ZNF768_uc010vex.1_Missense_Mutation_p.L179P|uc002dyl.1_5'Flank|ZNF768_uc010vew.1_Missense_Mutation_p.L179P	NM_024671	NP_078947	Q9H5H4	ZN768_HUMAN	zinc finger protein 768	210					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	DNA binding|zinc ion binding				0						CCCTATGGGCAGGTCCCCTGT	0.577													39	50					0	0	0.01441	0	0		G	30536832	G	G	30536832	3	3	15	1	0	0	0	0	1	0	0	0	18166	188	7	3	997	3	ZNF768	16	30536832	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	539700	30536832	59817921	578	11412											
PHKG2	5261	broad.mit.edu	37	chr16	30768297	30768297	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtaaagaaaggggagcAgcagaaccgggcggctctct	11	5	16	9	2	1	2	0	0	1	2	2	3	1	3	1	5	3	4	1	5	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:30768297A>G	uc002dzk.1	+	10	1193	c.1100A>G	c.(1099-1101)CAG>CGG	p.Q367R	PHKG2_uc002dzi.1_Missense_Mutation_p.Q371R|PHKG2_uc002dzj.1_Missense_Mutation_p.Q265R	NM_000294	NP_000285	P15735	PHKG2_HUMAN	phosphorylase kinase, gamma 2 (testis)	367	Calmodulin-binding (domain-C) (By similarity).				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			ovary(1)	1			Colorectal(24;0.198)			AAAGGGGAGCAGCAGAACCGG	0.597													40	51					0	0	0.007835	0	0		G	30768297	G	G	30768297	3	3	15	1	0	0	0	0	1	0	0	0	11866	188	7	3	1134	3	PHKG2	16	30768297	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	231465	30768297	59586456	579	11413											
ABCC11	85320	broad.mit.edu	37	chr16	48239399	48239399	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatccaggcctgctgggggAcataggccaggcttccctgc	6	7	14	14	1	0	0	0	0	0	0	2	2	2	1	4	5	2	2	4	5	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:48239399A>G	uc002eff.1	-	12	2080	c.1730T>C	c.(1729-1731)GTC>GCC	p.V577A	ABCC11_uc002efg.1_Missense_Mutation_p.V577A|ABCC11_uc002efh.1_Missense_Mutation_p.V577A|ABCC11_uc010vgk.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	577	ABC transporter 1.|Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				CTGCTGGGGGACATAGGCCAG	0.622									Cerumen_Type				22	37					0	0	0.014323	0	0		G	48239399	G	G	48239399	3	3	15	1	0	0	0	0	1	0	0	0	51	275	10	3	2490	3	ABCC11	16	48239399	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	17471102	48239399	42115354	580	11414											
ADCY7	113	broad.mit.edu	37	chr16	50326687	50326687	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctcttcacctacactgTgaagtgcatccagatccgcc	9	9	8	15	1	2	2	1	1	1	1	4	3	4	3	5	1	2	1	5	1	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:50326687T>C	uc002egd.1	+	4	906	c.638T>C	c.(637-639)GTG>GCG	p.V213A	ADCY7_uc002egb.1_Missense_Mutation_p.V213A|ADCY7_uc002egc.1_Missense_Mutation_p.V213A	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	213	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	ACCTACACTGTGAAGTGCATC	0.612													5	45					0	0	0.001168	0	0		C	50326687	C	C	50326687	3	2	15	1	0	0	0	0	1	0	0	0	299	1696	59	3	652	3	ADCY7	16	50326687	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2087288	50326687	40028066	581	11415											
IRX3	79191	broad.mit.edu	37	chr16	54318975	54318975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgccatccctgcgcgccGccccagccagggacagctca	6	4	12	19	4	1	0	1	0	0	0	3	1	2	1	6	2	3	1	6	2	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:54318975G>A	uc002eht.1	-	2	1234	c.818C>T	c.(817-819)GCG>GTG	p.A273V		NM_024336	NP_077312	P78415	IRX3_HUMAN	iroquois homeobox 3	273					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CCTGCGCGCCGCCCCAGCCAG	0.493													4	5					0	0	0.009096	0	0		A	54318975	A	A	54318975	3	1	15	1	0	0	0	0	1	0	0	0	7861	1087	38	1	699	1	IRX3	16	54318975	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3992288	54318975	36035778	582	11416											
LPCAT2	54947	broad.mit.edu	37	chr16	55583231	55583231	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcatacctatgaagactgCagattgatgatttcagcagg	13	11	10	7	0	2	5	2	3	0	2	2	6	2	5	1	1	3	2	1	1	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:55583231C>T	uc002eie.3	+	10	1159	c.978C>T	c.(976-978)TGC>TGT	p.C326C	LPCAT2_uc002eic.2_Silent_p.C56C	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	326	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						ATGAAGACTGCAGATTGATGA	0.318													12	84					0	0	0.001855	0	0		T	55583231	T	T	55583231	2	4	15	1	0	0	0	0	0	0	0	1	8929	718	25	2		2	LPCAT2	16	55583231	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1264256	55583231	34771522	583	11417											
LPCAT2	54947	broad.mit.edu	37	chr16	55584911	55584911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgaatatgcatctattgCgagttcctcaaaaggaggaa	14	10	11	6	1	2	1	1	1	1	0	3	5	3	4	1	3	2	2	1	3	6	4	rs139462449		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:55584911C>T	uc002eie.3	+	11	1293	c.1112C>T	c.(1111-1113)GCG>GTG	p.A371V	LPCAT2_uc002eic.2_Missense_Mutation_p.A101V	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	371	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						GCATCTATTGCGAGTTCCTCA	0.348													26	41					0	0	0.003954	0	0		T	55584911	T	T	55584911	3	4	15	1	0	0	0	0	1	0	0	0	8929	768	27	1	1154	1	LPCAT2	16	55584911	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1680	55584911	34769842	584	11418											
CES1	1066	broad.mit.edu	37	chr16	55850858	55850858	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggggtctccctgtaagTccagagataagaatttctgt	9	13	10	9	0	3	2	0	0	3	2	5	3	4	2	2	2	0	1	2	2	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:55850858T>A	uc002eim.2	-	8	1028	c.920A>T	c.(919-921)GAC>GTC	p.D307V	CES1_uc010ccf.2_5'UTR|CES1_uc002eil.2_Missense_Mutation_p.D308V|CES1_uc002ein.2_Missense_Mutation_p.D307V	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	307					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	TCCCTGTAAGTCCAGAGATAA	0.473													62	135					0	0	0.01441	0	0		A	55850858	A	A	55850858	3	1	15	1	0	0	0	0	1	0	0	0	3272	1667	58	5	811	5	CES1	16	55850858	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	265947	55850858	34503895	585	11419											
RSPRY1	89970	broad.mit.edu	37	chr16	57246908	57246908	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactccagaaattgactgaaAttctcaatttaaatggagaa	17	11	6	7	0	1	4	1	2	1	2	3	5	2	4	1	1	0	0	1	1	6	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:57246908A>G	uc002elb.2	+	5	819	c.541A>G	c.(541-543)ATT>GTT	p.I181V	RSPRY1_uc002elc.2_Missense_Mutation_p.I181V|RSPRY1_uc002eld.2_Missense_Mutation_p.I181V	NM_133368	NP_588609	Q96DX4	RSPRY_HUMAN	ring finger and SPRY domain containing 1	181						extracellular region	zinc ion binding			ovary(1)	1						ATTGACTGAAATTCTCAATTT	0.428													6	141					0	0	0.001984	0	0		G	57246908	G	G	57246908	3	3	15	1	0	0	0	0	1	0	0	0	13738	101	4	3	555	3	RSPRY1	16	57246908	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1396050	57246908	33107845	586	11420											
ZNF319	57567	broad.mit.edu	37	chr16	58031628	58031628	+	Frame_Shift_Del	DEL	G	-	-																															cgggtgctgcgggaagcgacGgggcggctgtggtggctggc																								rs141462652		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:58031628delG	uc002emx.1	-	2	1165	c.542delC	c.(541-543)CCGfs	p.P181fs		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	181					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGGAAGCGACGGGGCGGCTGT	0.632													32	53	---	---	---	---						.	-	58031628	-	-	58031628	7	5	15	1	0	1	0	1	0	0	0	0	17862	1116	39	0	1210	0	ZNF319	16	58031628	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	784720	58031628	32323125	587	11421											
CDH8	1006	broad.mit.edu	37	chr16	61935209	61935209	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggtttgcttgtctcccAgtccactgcttgagctgtta	6	14	10	11	0	1	2	0	1	1	1	3	2	2	2	2	1	3	5	2	1	1	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:61935209A>G	uc002eog.1	-	3	673	c.421T>C	c.(421-423)TGG>CGG	p.W141R		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	141	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		CTTGTCTCCCAGTCCACTGCT	0.403													22	48					0	0	0.00632	0	0		G	61935209	G	G	61935209	3	3	15	1	0	0	0	0	1	0	0	0	3119	188	7	3	2018	3	CDH8	16	61935209	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	3903581	61935209	28419544	588	11422											
PSKH1	5681	broad.mit.edu	37	chr16	67942865	67942865	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccccgactgctggccacacGgagcctccctcagaaccacc	8	4	8	21	2	1	1	1	0	0	1	2	3	2	2	7	2	3	1	7	2	1	0	rs146109328		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:67942865G>A	uc002euv.2	+	2	383	c.213G>A	c.(211-213)ACG>ACA	p.T71T	PSKH1_uc010cet.2_Silent_p.T71T	NM_006742	NP_006733	P11801	KPSH1_HUMAN	protein serine kinase H1	71						endoplasmic reticulum membrane|Golgi apparatus|microtubule organizing center|nuclear speck|plasma membrane	ATP binding|protein serine/threonine kinase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0044)|Epithelial(162;0.0197)|all cancers(182;0.128)		CTGGCCACACGGAGCCTCCCT	0.587													10	15					0	0	0.013537	0	0		A	67942865	A	A	67942865	2	1	15	1	0	0	0	0	0	0	0	1	12686	1103	39	1		1	PSKH1	16	67942865	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6007656	67942865	22411888	589	11423											
SLC12A4	6560	broad.mit.edu	37	chr16	67986246	67986246	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggaaaatggtcccatacAcacgcatattgttcaaagtg	14	10	8	9	1	2	0	2	0	0	0	3	1	3	1	1	2	1	2	1	2	5	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:67986246A>G	uc002euz.2	-	7	899	c.758T>C	c.(757-759)GTG>GCG	p.V253A	SLC12A4_uc010ceu.2_Missense_Mutation_p.V247A|SLC12A4_uc010vkh.1_Missense_Mutation_p.V222A|SLC12A4_uc010vki.1_Missense_Mutation_p.V253A|SLC12A4_uc010vkj.1_Missense_Mutation_p.V255A|SLC12A4_uc002eva.2_Missense_Mutation_p.V253A|SLC12A4_uc002evb.2_RNA|SLC12A4_uc010cew.1_3'UTR	NM_005072	NP_005063	Q9UP95	S12A4_HUMAN	solute carrier family 12, member 4 isoform a	253	Helical; (Potential).				cell volume homeostasis|potassium ion transport|sodium ion transport	integral to plasma membrane|membrane fraction	potassium:chloride symporter activity			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	GGTCCCATACACACGCATATT	0.488													45	74					0	0	0.01441	0	0		G	67986246	G	G	67986246	3	3	15	1	0	0	0	0	1	0	0	0	14410	159	6	3	2571	3	SLC12A4	16	67986246	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	43381	67986246	22368507	590	11424											
PLA2G15	23659	broad.mit.edu	37	chr16	68293549	68293549	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatctgaaacgtgtgctcCttgggccctgactcctgtgc	5	12	10	14	1	1	2	0	2	1	0	3	2	3	2	4	1	3	1	4	1	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:68293549C>A	uc002evr.2	+	6	1311	c.1228C>A	c.(1228-1230)CTT>ATT	p.L410I	PLA2G15_uc010vld.1_3'UTR|PLA2G15_uc010vle.1_Missense_Mutation_p.L316I|PLA2G15_uc010vlf.1_Missense_Mutation_p.L210I|PLA2G15_uc002evs.2_Missense_Mutation_p.L231I	NM_012320	NP_036452	Q8NCC3	PAG15_HUMAN	lysophospholipase 3 (lysosomal phospholipase A2)	410					fatty acid catabolic process	extracellular region|lysosome	lysophospholipase activity|phosphatidylcholine-sterol O-acyltransferase activity|phospholipid binding			ovary(1)	1						ACGTGTGCTCCTTGGGCCCTG	0.627													20	21					1.28384e-07	1.43724e-07	0.012319	1	0		A	68293549	A	A	68293549	3	1	15	1	0	0	0	0	1	0	0	0	12011	681	24	5	1250	5	PLA2G15	16	68293549	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	307303	68293549	22061204	591	11425											
CLEC18A	348174	broad.mit.edu	37	chr16	69996892	69996892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaggtttggcaactgcGtggagctgcaggcttcagct	6	10	14	11	1	1	0	1	0	0	0	1	1	1	1	1	4	6	7	1	4	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:69996892G>A	uc010vlo.1	+	12	1345	c.1225G>A	c.(1225-1227)GTG>ATG	p.V409M	CLEC18C_uc002exy.2_Intron|CLEC18A_uc002exz.2_Missense_Mutation_p.V409M|CLEC18A_uc002eya.2_Missense_Mutation_p.V409M	NM_001136214	NP_001129686	A5D8T8	CL18A_HUMAN	secretory protein LOC348174 precursor	409	C-type lectin.					extracellular region	sugar binding				0						TGGCAACTGCGTGGAGCTGCA	0.597													9	36					0	0	0.007413	0	0		A	69996892	A	A	69996892	3	1	15	1	0	0	0	0	1	0	0	0	3505	1145	40	1	1267	1	CLEC18A	16	69996892	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1703343	69996892	20357861	592	11426											
DDX19A	55308	broad.mit.edu	37	chr16	70395364	70395364	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatgccatgggcttcaatCgaccctccaagatacaagag	12	9	8	12	1	2	2	1	0	1	2	4	3	3	2	3	1	2	1	3	1	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:70395364C>A	uc002eyv.2	+	5	408	c.337C>A	c.(337-339)CGA>AGA	p.R113R	DDX19B_uc010vly.1_Intron|DDX19A_uc002eys.2_Silent_p.R114R|DDX19A_uc010cfq.1_5'UTR|DDX19A_uc010cfr.2_5'UTR|DDX19A_uc010cfs.2_5'UTR|DDX19A_uc010vlz.1_Intron|DDX19A_uc010vma.1_Silent_p.R23R	NM_018332	NP_060802	Q9NUU7	DD19A_HUMAN	DDX19-like protein	113	Q motif.				mRNA transport|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|RNA binding				0		Ovarian(137;0.221)				GGGCTTCAATCGACCCTCCAA	0.478													28	58					4.3181e-19	5.09409e-19	0.013726	1	0		A	70395364	A	A	70395364	2	1	15	1	0	0	0	0	0	0	0	1	4349	876	31	5		5	DDX19A	16	70395364	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	398472	70395364	19959389	593	11427											
HYDIN	54768	broad.mit.edu	37	chr16	70843797	70843797	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttttccggaagtgctggCgtggctttcagatagagctc	6	12	14	9	2	1	2	1	0	0	2	3	3	2	3	1	4	2	4	1	4	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:70843797C>T	uc002ezr.2	-	85	14897	c.14769G>A	c.(14767-14769)ACG>ACA	p.T4923T	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4924										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GAAGTGCTGGCGTGGCTTTCA	0.468													154	252					0	0	0.01441	0	0		T	70843797	T	T	70843797	2	4	15	1	0	0	0	0	0	0	0	1	7483	755	27	1		1	HYDIN	16	70843797	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	448433	70843797	19510956	594	11428											
TAT	6898	broad.mit.edu	37	chr16	71610203	71610203	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggcctcacagaccacctgGcctttctgcctttcattttt	6	14	7	14	0	3	1	2	0	1	1	3	1	3	1	5	2	1	0	5	2	0	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:71610203G>T	uc002fap.2	-	2	215	c.116C>A	c.(115-117)GCC>GAC	p.A39D	TAT_uc002faq.2_Missense_Mutation_p.A39D|TAT_uc002far.2_Missense_Mutation_p.A39D	NM_000353	NP_000344	P17735	ATTY_HUMAN	tyrosine aminotransferase	39					2-oxoglutarate metabolic process|glutamate metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	1-aminocyclopropane-1-carboxylate synthase activity|L-tyrosine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(2)	2		Ovarian(137;0.125)		Kidney(780;0.0157)	L-Glutamic Acid(DB00142)|L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Pyridoxal Phosphate(DB00114)	AGACCACCTGGCCTTTCTGCC	0.502													30	46					2.08457e-15	2.42362e-15	0.010818	1	0		T	71610203	T	T	71610203	3	4	15	1	0	0	0	0	1	0	0	0	15615	1203	42	5	1292	5	TAT	16	71610203	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	766406	71610203	18744550	595	11429											
ZNF821	55565	broad.mit.edu	37	chr16	71894307	71894307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgggggtctcattgtcccGccggctcttcttggccgtgc	1	12	13	15	4	3	0	1	0	3	0	6	0	4	0	3	4	1	1	3	4	0	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:71894307G>A	uc010vmj.1	-	7	1229	c.853C>T	c.(853-855)CGG>TGG	p.R285W	ATXN1L_uc010vmi.1_Intron|ZNF821_uc002fbe.2_Missense_Mutation_p.R135W|ZNF821_uc002fbf.2_Missense_Mutation_p.R243W|ZNF821_uc002fbg.3_Missense_Mutation_p.R135W|ZNF821_uc002fbh.3_Missense_Mutation_p.R243W|ZNF821_uc002fbi.3_Missense_Mutation_p.R82W	NM_017530	NP_060000	O75541	ZN821_HUMAN	zinc finger protein 821	285	Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCATTGTCCCGCCGGCTCTTC	0.642													19	16					0	0	0.008871	0	0		A	71894307	A	A	71894307	3	1	15	1	0	0	0	0	1	0	0	0	18203	1086	38	1	389	1	ZNF821	16	71894307	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	284104	71894307	18460446	596	11430											
MLKL	197259	broad.mit.edu	37	chr16	74729294	74729294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatgggtgaaacaggcatgCgttgctcaacctgaagtaac	12	10	11	8	1	1	2	1	2	0	0	1	2	1	2	1	2	5	4	1	2	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:74729294C>T	uc002fdb.2	-	2	803	c.362G>A	c.(361-363)CGC>CAC	p.R121H	MLKL_uc002fdc.2_Missense_Mutation_p.R121H	NM_152649	NP_689862	Q8NB16	MLKL_HUMAN	mixed lineage kinase domain-like isoform 1	121							ATP binding|protein binding|protein kinase activity			stomach(2)	2						AACAGGCATGCGTTGCTCAAC	0.512													48	48					0	0	0.01441	0	0		T	74729294	T	T	74729294	3	4	15	1	0	0	0	0	1	0	0	0	9637	768	27	1	1124	1	MLKL	16	74729294	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2834987	74729294	15625459	597	11431											
WDR59	79726	broad.mit.edu	37	chr16	74908279	74908279	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacactggaacgtgaagcctTtgcagatggcacactgcgtg	10	8	12	11	2	0	2	0	1	0	1	0	3	0	3	1	2	4	2	1	2	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:74908279T>C	uc002fdh.1	-	26	2855	c.2753A>G	c.(2752-2754)AAA>AGA	p.K918R	WDR59_uc002fdf.1_Missense_Mutation_p.K363R|WDR59_uc002fdg.1_Missense_Mutation_p.K510R	NM_030581	NP_085058	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	918										ovary(1)|breast(1)	2						CGTGAAGCCTTTGCAGATGGC	0.607													8	19					0	0	0.001855	0	0		C	74908279	C	C	74908279	3	2	15	1	0	0	0	0	1	0	0	0	17334	1841	64	3	175	3	WDR59	16	74908279	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	178985	74908279	15446474	598	11432											
ADAMTS18	170692	broad.mit.edu	37	chr16	77328919	77328919	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagagagaatgcaacacTgcttcctccttttggaaggg	11	9	12	9	0	0	2	0	0	0	2	2	5	2	4	2	3	3	2	2	3	3	3	rs140716153		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:77328919T>G	uc002ffc.3	-	19	3326	c.2907A>C	c.(2905-2907)GCA>GCC	p.A969A	ADAMTS18_uc010chc.1_Silent_p.A557A	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	969	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						AATGCAACACTGCTTCCTCCT	0.567													18	36					0	0	0.010504	0	0		G	77328919	G	G	77328919	2	3	15	1	0	0	0	0	0	0	0	1	263	1567	55	5		5	ADAMTS18	16	77328919	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2420640	77328919	13025834	599	11433											
KIAA0182	23199	broad.mit.edu	37	chr16	85688453	85688453	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtaccgtgaccgaggactAcctgagaagcttccggccct	9	7	11	14	3	0	2	0	2	0	1	1	5	1	3	5	2	3	2	5	2	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:85688453A>G	uc002fix.2	+	5	727	c.653A>G	c.(652-654)TAC>TGC	p.Y218C	KIAA0182_uc002fiw.2_Missense_Mutation_p.Y114C|KIAA0182_uc002fiy.2_Missense_Mutation_p.Y145C	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	218							protein binding			large_intestine(3)|ovary(1)|skin(1)	5						ACCGAGGACTACCTGAGAAGC	0.677													6	10					0	0	0.00308	0	0		G	85688453	G	G	85688453	3	3	15	1	0	0	0	0	1	0	0	0	8175	391	14	3	671	3	KIAA0182	16	85688453	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	8359534	85688453	4666300	600	11434											
FBXO31	79791	broad.mit.edu	37	chr16	87367837	87367837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggtcgggcagctggatcCgatgcctcaggtcgatctcc	6	8	14	13	4	2	0	1	0	1	0	6	4	3	1	3	4	2	2	3	4	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:87367837C>T	uc002fjw.2	-	8	1096	c.1052G>A	c.(1051-1053)CGG>CAG	p.R351Q	FBXO31_uc010vot.1_Missense_Mutation_p.R179Q|FBXO31_uc002fjv.2_Missense_Mutation_p.R243Q	NM_024735	NP_079011	Q5XUX0	FBX31_HUMAN	F-box protein 31	351					cell cycle|cyclin catabolic process|mitotic cell cycle G1/S transition DNA damage checkpoint|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	SCF ubiquitin ligase complex	cyclin binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0272)		CAGCTGGATCCGATGCCTCAG	0.657													16	29					0	0	0.010504	0	0		T	87367837	T	T	87367837	3	4	15	1	0	0	0	0	1	0	0	0	5755	652	23	1	575	1	FBXO31	16	87367837	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1679384	87367837	2986916	601	11435											
CTU2	348180	broad.mit.edu	37	chr16	88781126	88781126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggctgggcccagcgctgtGgccagggggcctgcaggagg	4	5	21	11	1	0	0	0	0	0	0	0	1	0	1	3	7	2	3	3	7	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:88781126G>A	uc002flm.2	+	12	1381	c.1333G>A	c.(1333-1335)GGC>AGC	p.G445S	CTU2_uc002fln.2_Missense_Mutation_p.G445S|CTU2_uc010chz.2_Missense_Mutation_p.G516S|CTU2_uc010cia.2_Missense_Mutation_p.G358S	NM_001012759	NP_001012777	Q2VPK5	CTU2_HUMAN	cytoplasmic tRNA 2-thiolation protein 2 isoform	445					tRNA thio-modification|tRNA wobble uridine modification	cytoplasm|protein complex|soluble fraction	protein binding			skin(1)	1						CCAGCGCTGTGGCCAGGGGGC	0.697													3	6					0	0	0.009096	0	0		A	88781126	A	A	88781126	3	1	15	1	0	0	0	0	1	0	0	0	4051	1348	47	4	1379	4	CTU2	16	88781126	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1413289	88781126	1573627	602	11436											
C16orf7	9605	broad.mit.edu	37	chr16	89783208	89783208	+	Frame_Shift_Del	DEL	G	-	-																															ttcagcatcttggaggtgtcGgggggcacagtttccccagc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr16:89783208delG	uc002fom.1	-	3	323	c.198delC	c.(196-198)CCCfs	p.P66fs	C16orf7_uc002fol.1_5'UTR|uc002fon.1_RNA|uc002foo.1_Intron	NM_004913	NP_004904	Q9Y2B5	CP007_HUMAN	chromosome 16 open reading frame 7	66					ATP synthesis coupled proton transport		GTPase activator activity|transporter activity				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		TGGAGGTGTCGGGGGGCACAG	0.592													8	13	---	---	---	---						.	-	89783208	-	-	89783208	7	5	15	1	0	1	0	1	0	0	0	0	1831	1103	39	0	1749	0	C16orf7	16	89783208	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	1002082	89783208	571545	603	11437											
WDR81	124997	broad.mit.edu	37	chr17	1634162	1634162	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgtcagggcctgtgctcAgctgcctcctccacatcgcc	4	10	10	17	2	2	0	2	0	0	0	6	0	4	0	5	1	3	2	5	1	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:1634162A>G	uc002fti.2	+	3	469	c.208A>G	c.(208-210)AGC>GGC	p.S70G	WDR81_uc002fth.2_Missense_Mutation_p.S246G|WDR81_uc010vqp.1_Missense_Mutation_p.S94G|WDR81_uc002ftj.2_Missense_Mutation_p.S1297G|WDR81_uc010vqq.1_5'UTR	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	70										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GCCTGTGCTCAGCTGCCTCCT	0.637													13	30					0	0	0.003163	0	0		G	1634162	G	G	1634162	3	3	15	1	0	0	0	0	1	0	0	0	17356	188	7	3	3961	3	WDR81	17	1634162	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08		1634162	79561048	604	11438											
ANKFY1	51479	broad.mit.edu	37	chr17	4098700	4098700	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgtgtctccctacgtactgTttgcactgcagcagctgact	6	12	10	13	2	1	1	0	1	1	0	2	1	1	1	1	0	6	6	1	0	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:4098700T>G	uc002fxq.1	-	9	1208	c.1170A>C	c.(1168-1170)AAA>AAC	p.K390N	ANKFY1_uc002fxn.2_Missense_Mutation_p.K432N|ANKFY1_uc002fxo.2_Missense_Mutation_p.K390N|ANKFY1_uc002fxp.2_Missense_Mutation_p.K389N|ANKFY1_uc010ckp.2_Missense_Mutation_p.K331N|ANKFY1_uc002fxr.2_Missense_Mutation_p.K390N	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	390	ANK 5.					endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						CTACGTACTGTTTGCACTGCA	0.458													6	433					0	0	0.001984	0	0		G	4098700	G	G	4098700	3	3	15	1	0	0	0	0	1	0	0	0	626	1722	60	5	2502	5	ANKFY1	17	4098700	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2464538	4098700	77096510	605	11439											
GGT6	124975	broad.mit.edu	37	chr17	4461879	4461879	+	Frame_Shift_Del	DEL	G	-	-																															ggtggtgaacaggatgccctGgggcacaggtagctgctctg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:4461879delG	uc002fyd.3	-	4	973	c.913delC	c.(913-915)CAGfs	p.Q305fs	GGT6_uc010vsb.1_Frame_Shift_Del_p.Q157fs|GGT6_uc002fyc.3_Frame_Shift_Del_p.Q273fs|GGT6_uc010vsc.1_Frame_Shift_Del_p.Q311fs	NM_001122890	NP_001116362	Q6P531	GGT6_HUMAN	gamma-glutamyltransferase 6 isoform a	305	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			skin(1)	1						AGGATGCCCTGGGGCACAGGT	0.672													5	9	---	---	---	---						.	-	4461879	-	-	4461879	7	5	15	1	0	1	0	1	0	0	0	0	6378	1357	47	0	572	0	GGT6	17	4461879	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	363179	4461879	76733331	606	11440											
ENO3	2027	broad.mit.edu	37	chr17	4858519	4858519	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagggggtcatcaaggcCaagtatgggaaggatgccac	12	6	14	9	0	3	0	3	0	0	0	3	2	3	2	2	5	1	1	2	5	5	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:4858519C>A	uc002gab.3	+	7	688	c.594C>A	c.(592-594)GCC>GCA	p.A198A	ENO3_uc010vsr.1_Silent_p.A105A|ENO3_uc002gac.3_Silent_p.A198A|ENO3_uc010vss.1_Silent_p.A155A|ENO3_uc010vst.1_Silent_p.A34A	NM_053013	NP_443739	P13929	ENOB_HUMAN	enolase 3	198					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex	magnesium ion binding|phosphopyruvate hydratase activity			ovary(1)	1						TCATCAAGGCCAAGTATGGGA	0.582													20	31					1.10513e-12	1.27262e-12	0.014323	1	0		A	4858519	A	A	4858519	2	1	15	1	0	0	0	0	0	0	0	1	5131	581	21	5		5	ENO3	17	4858519	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	396640	4858519	76336691	607	11441											
KIF1C	10749	broad.mit.edu	37	chr17	4927147	4927147	+	Frame_Shift_Del	DEL	C	-	-																															aggctccaactccgctccaaCcccctgaggaggtcactccc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:4927147delC	uc002gan.1	+	23	3339	c.3013delC	c.(3013-3015)CCCfs	p.P1005fs		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	1005	Pro-rich.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						TCCGCTCCAACCCCCTGAGGA	0.687													13	26	---	---	---	---						.	-	4927147	-	-	4927147	7	5	15	1	0	1	0	1	0	0	0	0	8301	507	18	0	3095	0	KIF1C	17	4927147	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	68628	4927147	76268063	608	11442											
FAM64A	54478	broad.mit.edu	37	chr17	6348605	6348605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggctgcccctgagagccGtcaacctcaacctccgcgca	8	5	11	17	3	2	1	2	1	0	1	3	3	3	2	6	2	4	2	6	2	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:6348605G>A	uc002gcw.1	+	2	224	c.175G>A	c.(175-177)GTC>ATC	p.V59I	FAM64A_uc002gct.1_Missense_Mutation_p.V59I|FAM64A_uc002gcu.1_Missense_Mutation_p.V59I|FAM64A_uc002gcv.1_Missense_Mutation_p.V59I|FAM64A_uc002gcx.1_Missense_Mutation_p.V59I|FAM64A_uc002gcy.1_RNA|FAM64A_uc002gcz.1_RNA|FAM64A_uc002gda.1_Missense_Mutation_p.V59I|FAM64A_uc002gdb.1_Missense_Mutation_p.V59I	NM_019013	NP_061886	Q9BSJ6	FA64A_HUMAN	family with sequence similarity 64, member A	59						nucleolus	protein binding				0				COAD - Colon adenocarcinoma(228;0.141)		CCTGAGAGCCGTCAACCTCAA	0.647													12	16					0	0	0.001855	0	0		A	6348605	A	A	6348605	3	1	15	1	0	0	0	0	1	0	0	0	5612	1145	40	1	177	1	FAM64A	17	6348605	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1421458	6348605	74846605	609	11443											
MYH10	4628	broad.mit.edu	37	chr17	8383818	8383818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgatccgagcttccagacGccgcttctcatccagcagcg	7	8	10	16	5	1	1	1	0	1	1	5	3	4	1	4	0	4	3	4	0	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:8383818G>A	uc002gll.2	-	37	5293	c.5197C>T	c.(5197-5199)CGT>TGT	p.R1733C	MYH10_uc002glm.2_Missense_Mutation_p.R1764C|MYH10_uc010cnx.2_Missense_Mutation_p.R1742C	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1733	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						GCTTCCAGACGCCGCTTCTCA	0.567													11	12					0	0	0.013537	0	0		A	8383818	A	A	8383818	3	1	15	1	0	0	0	0	1	0	0	0	10048	1087	38	1	753	1	MYH10	17	8383818	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2035213	8383818	72811392	610	11444											
PIK3R6	146850	broad.mit.edu	37	chr17	8707380	8707380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaccacatccctgaaagtgCgttgatcgtccttgtccagc	8	11	9	13	2	0	3	0	3	0	0	4	3	3	3	4	0	2	1	4	0	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:8707380C>T	uc002glq.1	-	20	2327	c.2087G>A	c.(2086-2088)CGC>CAC	p.R696H	PIK3R6_uc002glr.1_RNA|PIK3R6_uc002gls.1_RNA	NM_001010855	NP_001010855	Q5UE93	PI3R6_HUMAN	phosphoinositide-3-kinase, regulatory subunit 6	696					platelet activation	cytosol					0						CCTGAAAGTGCGTTGATCGTC	0.587													9	20					0	0	0.006214	0	0		T	8707380	T	T	8707380	3	4	15	1	0	0	0	0	1	0	0	0	11942	768	27	1	185	1	PIK3R6	17	8707380	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	323562	8707380	72487830	611	11445											
FLCN	201163	broad.mit.edu	37	chr17	17131329	17131329	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttccgcctgctcaccCtggccaggactgtcctcatt	4	13	7	17	1	4	0	2	0	2	0	6	1	6	1	5	2	1	1	5	2	0	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:17131329C>A	uc002gra.3	-	4	627	c.123G>T	c.(121-123)CAG>CAT	p.Q41H	PLD6_uc010cpn.2_RNA|FLCN_uc002grb.3_Missense_Mutation_p.Q41H|FLCN_uc002grc.2_Missense_Mutation_p.Q41H	NM_144997	NP_659434	Q8NFG4	FLCN_HUMAN	folliculin isoform 1	41					regulation of protein phosphorylation	cytoplasm|nucleus|plasma membrane	protein binding			thyroid(1)|haematopoietic_and_lymphoid_tissue(1)|lung(1)	3						CCTGCTCACCCTGGCCAGGAC	0.657									Birt-Hogg-Dub__syndrome|Familial_Non-VHL_Clear_Cell_Renal_Cancer				11	24					1.08611e-07	1.2173e-07	0.010729	1	0		A	17131329	A	A	17131329	3	1	15	1	0	0	0	0	1	0	0	0	5935	680	24	5	1818	5	FLCN	17	17131329	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	8423949	17131329	64063881	612	11446											
LRRC48	83450	broad.mit.edu	37	chr17	17898358	17898358	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccttcctgtttgacagcAtgtacgctgaggactcagag	8	11	11	11	1	1	3	1	2	0	1	3	4	3	4	2	1	2	5	2	1	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:17898358A>G	uc010vxd.1	+	9	1136	c.757A>G	c.(757-759)ATG>GTG	p.M253V	LRRC48_uc002gsa.2_Missense_Mutation_p.M253V|LRRC48_uc010vxc.1_Missense_Mutation_p.M253V|LRRC48_uc002gsb.2_Missense_Mutation_p.M253V|LRRC48_uc010vxe.1_5'Flank	NM_001130090	NP_001123562	Q9H069	LRC48_HUMAN	leucine rich repeat containing 48 isoform a	253						cytoplasm				pancreas(1)	1	all_neural(463;0.228)					GTTTGACAGCATGTACGCTGA	0.517													4	54					0	0	0.009096	0	0		G	17898358	G	G	17898358	3	3	15	1	0	0	0	0	1	0	0	0	9023	217	8	3	779	3	LRRC48	17	17898358	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	767029	17898358	63296852	613	11447											
DRG2	1819	broad.mit.edu	37	chr17	18005286	18005286	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggtggaccgcctggccCgaaaacccaacagtgtggtc	11	5	13	12	2	0	1	0	0	0	1	1	3	0	2	4	4	2	0	4	4	4	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:18005286C>T	uc002gsh.1	+	9	836	c.781C>T	c.(781-783)CGA>TGA	p.R261*	DRG2_uc002gsi.1_RNA|DRG2_uc002gsj.1_Nonsense_Mutation_p.R261*	NM_001388	NP_001379	P55039	DRG2_HUMAN	developmentally regulated GTP binding protein 2	261					signal transduction		GTP binding			ovary(1)	1	all_neural(463;0.228)					CCGCCTGGCCCGAAAACCCAA	0.577													4	13					0	0	0.009096	0	0		T	18005286	T	T	18005286	4	4	15	1	0	0	0	0	0	1	0	0	4768	644	23	1	815	1	DRG2	17	18005286	Nonsense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	106928	18005286	63189924	614	11448											
USP22	23326	broad.mit.edu	37	chr17	20907606	20907606	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgctgccggataaagcTggtgtagtggccactctcca	7	12	12	10	1	1	0	0	0	1	0	2	1	1	1	3	3	3	3	3	3	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:20907606T>G	uc002gym.3	-	12	1648	c.1444A>C	c.(1444-1446)AGC>CGC	p.S482R	USP22_uc002gyn.3_Missense_Mutation_p.S470R|USP22_uc002gyl.3_Missense_Mutation_p.S377R	NM_015276	NP_056091	Q9UPT9	UBP22_HUMAN	ubiquitin thiolesterase 22	482					cell cycle|embryo development|histone deubiquitination|histone H4 acetylation|histone ubiquitination|positive regulation of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1						CGGATAAAGCTGGTGTAGTGG	0.547													14	26					0	0	0.014323	0	0		G	20907606	G	G	20907606	3	3	15	1	0	0	0	0	1	0	0	0	17080	1580	55	5	141	5	USP22	17	20907606	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2902320	20907606	60287604	615	11449											
MAP2K3	5606	broad.mit.edu	37	chr17	21208376	21208376	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcagcctgagaggatcaAcccagagctgaaccagaagg	13	4	12	12	0	1	4	1	2	0	3	1	6	1	5	4	2	5	2	4	2	3	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:21208376A>C	uc002gys.2	+	9	975	c.710A>C	c.(709-711)AAC>ACC	p.N237T	MAP2K3_uc002gyt.2_Missense_Mutation_p.N208T|MAP2K3_uc002gyu.2_Missense_Mutation_p.N208T	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	237	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		GAGAGGATCAACCCAGAGCTG	0.622													20	126					0	0	0.00278	0	0		C	21208376	C	C	21208376	3	2	15	1	0	0	0	0	1	0	0	0	9256	43	2	5	744	5	MAP2K3	17	21208376	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	300770	21208376	59986834	616	11450											
KSR1	8844	broad.mit.edu	37	chr17	25909717	25909717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggagttcattggatgcgcGgcgggaaagtggctcagggc	7	9	18	7	3	2	0	2	0	0	0	2	3	2	3	0	6	1	2	0	6	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:25909717G>A	uc010crg.2	+	5	600	c.155G>A	c.(154-156)CGG>CAG	p.R52Q	KSR1_uc002gzj.1_Intron	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	187					Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		TTGGATGCGCGGCGGGAAAGT	0.642													8	8					0	0	0.004482	0	0		A	25909717	A	A	25909717	3	1	15	1	0	0	0	0	1	0	0	0	8597	1116	39	1	161	1	KSR1	17	25909717	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	4701341	25909717	55285493	617	11451											
SLC13A2	9058	broad.mit.edu	37	chr17	26821457	26821457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctcctcgactggaagaCggtgaaccagaagatgccgt	10	7	13	11	3	0	4	0	1	0	3	2	6	1	5	4	3	2	0	4	3	3	0	rs141214124		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:26821457C>T	uc002hbh.2	+	9	1302	c.1235C>T	c.(1234-1236)ACG>ATG	p.T412M	SLC13A2_uc010wam.1_Missense_Mutation_p.T368M|SLC13A2_uc010wan.1_Missense_Mutation_p.T461M|SLC13A2_uc010wao.1_Missense_Mutation_p.T369M|SLC13A2_uc002hbi.2_Missense_Mutation_p.T341M	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	412						integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	GACTGGAAGACGGTGAACCAG	0.577											OREG0024276	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	58					0	0	0.003271	0	0		T	26821457	T	T	26821457	3	4	15	1	0	0	0	0	1	0	0	0	14417	536	19	1	1416	1	SLC13A2	17	26821457	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	911740	26821457	54373753	618	11452											
RPL23A	6147	broad.mit.edu	37	chr17	27047808	27047810	+	In_Frame_Del	DEL	AAG	-	-																															aaggtgtccacagccacaaaAagaagaagatccgcacgtca																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:27047808_27047810delAAG	uc002hci.2	+	2	133_135	c.109_111delAAG	c.(109-111)AAGdel	p.K39del	RAB34_uc002hce.2_5'Flank|RAB34_uc002hcg.2_5'Flank|RAB34_uc002hcf.2_5'Flank|RAB34_uc010was.1_5'Flank|RAB34_uc010wat.1_5'Flank|RAB34_uc002hch.2_5'Flank|RAB34_uc010wau.1_5'Flank|RAB34_uc010wav.1_5'Flank|RPL23A_uc002hck.1_RNA|SNORD4A_uc002hcl.2_5'Flank|SNORD42A_uc002hcm.1_5'Flank|SNORD4B_uc002hcn.1_5'Flank	NM_000984	NP_000975	P62750	RL23A_HUMAN	ribosomal protein L23a	39					cell proliferation|endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleus	nucleotide binding|protein binding|rRNA binding|structural constituent of ribosome			ovary(1)	1	Lung NSC(42;0.00431)					CAGCCACAAAAAGAAGAAGATCC	0.547											OREG0024282	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	59	---	---	---	---						.	-	27047810	-	-	27047808	7	5	15	1	0	1	0	1	0	0	0	0	13596	15	1	0	115	0	RPL23A	17	27047808	In_Frame_Del	DEL	AAG	TCGA-BR-4280-01A-01D-1126-08	226351	27047808	54147402	619	11453											
TAOK1	57551	broad.mit.edu	37	chr17	27869581	27869581	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccaatctccaacagatTgaagaagagatgttggcttt	12	13	8	8	0	2	4	0	1	2	3	4	5	3	4	2	1	1	2	2	1	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:27869581T>C	uc002hdz.1	+	20	2741	c.2547T>C	c.(2545-2547)ATT>ATC	p.I849I	TAOK1_uc010wbe.1_Silent_p.I701I|TAOK1_uc010wbf.1_Silent_p.I849I	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	849	Potential.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			TCCAACAGATTGAAGAAGAGA	0.358													25	93					0	0	0.00333	0	0		C	27869581	C	C	27869581	2	2	15	1	0	0	0	0	0	0	0	1	15572	1800	63	3		3	TAOK1	17	27869581	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	821773	27869581	53325629	620	11454											
MYO1D	4642	broad.mit.edu	37	chr17	31087632	31087632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacgatccaacaaaaaaggCgctcatatattgcctgcaag	16	8	7	10	2	1	0	1	0	0	0	2	1	2	0	2	1	4	2	2	1	8	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:31087632C>T	uc002hho.1	-	9	1061	c.1049G>A	c.(1048-1050)CGC>CAC	p.R350H	MYO1D_uc002hhp.1_Missense_Mutation_p.R350H|MYO1D_uc010wcb.1_Missense_Mutation_p.R350H	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	350	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			ACAAAAAAGGCGCTCATATAT	0.383													26	52					0	0	0.009535	0	0		T	31087632	T	T	31087632	3	4	15	1	0	0	0	0	1	0	0	0	10089	768	27	1	2027	1	MYO1D	17	31087632	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3218051	31087632	50107578	621	11455											
TMEM98	26022	broad.mit.edu	37	chr17	31260227	31260227	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattggtgccatggagacccAgtctgagccctctgagttag	8	10	12	11	0	2	3	0	2	2	1	2	4	2	3	3	2	2	1	3	2	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:31260227A>G	uc002hhq.2	+	4	625	c.167A>G	c.(166-168)CAG>CGG	p.Q56R	TMEM98_uc002hhr.2_Missense_Mutation_p.Q56R	NM_015544	NP_056359	Q9Y2Y6	TMM98_HUMAN	transmembrane protein 98	56						endoplasmic reticulum|integral to membrane					0		Ovarian(249;0.182)|Breast(31;0.244)	BRCA - Breast invasive adenocarcinoma(9;0.0769)			ATGGAGACCCAGTCTGAGCCC	0.527													19	50					0	0	0.012319	0	0		G	31260227	G	G	31260227	3	3	15	1	0	0	0	0	1	0	0	0	16250	188	7	3	173	3	TMEM98	17	31260227	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	172595	31260227	49934983	622	11456											
SLFN11	91607	broad.mit.edu	37	chr17	33679651	33679651	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcggtgctgacaagcacAgcaacatcctttggagaata	12	10	10	9	1	0	2	0	1	0	1	1	3	1	2	1	2	5	3	1	2	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:33679651A>G	uc010ctp.2	-	7	2872	c.2430T>C	c.(2428-2430)GCT>GCC	p.A810A	SLFN11_uc010ctq.2_Silent_p.A810A|SLFN11_uc002hjh.3_Silent_p.A810A|SLFN11_uc002hjg.3_Silent_p.A810A|SLFN11_uc010ctr.2_Silent_p.A810A	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	810						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TGACAAGCACAGCAACATCCT	0.453													16	42					0	0	0.004007	0	0		G	33679651	G	G	33679651	2	3	15	1	0	0	0	0	0	0	0	1	14758	175	7	3		3	SLFN11	17	33679651	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	2419424	33679651	47515559	623	11457											
MYO19	80179	broad.mit.edu	37	chr17	34862834	34862834	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccaggcctgctgtgtggtAccgcacaggccccgcataat	8	7	11	15	2	0	0	0	0	0	0	0	0	0	0	5	3	2	4	5	3	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:34862834A>G	uc010wcy.1	-	18	2604	c.1612T>C	c.(1612-1614)TAC>CAC	p.Y538H	MYO19_uc002hmw.2_Intron|MYO19_uc010cuu.2_RNA|MYO19_uc010wcz.1_RNA	NM_001163735	NP_001157207	Q96H55	MYO19_HUMAN	myosin XIX isoform 2	538	Myosin head-like.					mitochondrial outer membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)	1		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GCTGTGTGGTACCGCACAGGC	0.612													5	6					0	0	0.001168	0	0		G	34862834	G	G	34862834	3	3	15	1	0	0	0	0	1	0	0	0	10085	391	14	3	1340	3	MYO19	17	34862834	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1183183	34862834	46332376	624	11458											
LHX1	3975	broad.mit.edu	37	chr17	35298059	35298059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccaagcggcggggaccgCgcaccaccatcaaagccaag	11	1	13	16	5	1	0	1	0	0	0	1	1	1	1	5	3	2	1	5	3	3	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:35298059C>T	uc002hnh.1	+	3	1546	c.550C>T	c.(550-552)CGC>TGC	p.R184C	LHX1_uc010cux.1_Missense_Mutation_p.R92C	NM_005568	NP_005559	P48742	LHX1_HUMAN	LIM homeobox protein 1	184	Homeobox.			R -> G (in Ref. 1; AAA21644).	cerebellar Purkinje cell differentiation|cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation|cervix development|comma-shaped body morphogenesis|dorsal/ventral pattern formation|ectoderm formation|embryonic pattern specification|embryonic retina morphogenesis in camera-type eye|embryonic viscerocranium morphogenesis|endoderm formation|forebrain regionalization|head development|motor axon guidance|negative regulation of transcription, DNA-dependent|nephric duct morphogenesis|nephron tubule epithelial cell differentiation|neuron migration|oviduct epithelium development|paramesonephric duct development|positive regulation of anterior head development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of embryonic development|positive regulation of gastrulation|positive regulation of transcription, DNA-dependent|post-embryonic development|primitive streak formation|renal vesicle morphogenesis|retina layer formation|S-shaped body morphogenesis|spinal cord association neuron differentiation|transcription from RNA polymerase II promoter|ureteric bud development|uterine epithelium development|vagina development	nucleus|protein complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(25;0.00607)				GCGGGGACCGCGCACCACCAT	0.662													6	15					0	0	0.00308	0	0		T	35298059	T	T	35298059	3	4	15	1	0	0	0	0	1	0	0	0	8786	768	27	1	560	1	LHX1	17	35298059	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	435225	35298059	45897151	625	11459											
SRCIN1	80725	broad.mit.edu	37	chr17	36707421	36707421	+	Frame_Shift_Del	DEL	G	-	-																															cctcccactgggctccgttcGgggggctgccttctggccgt																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:36707421delG	uc002hqd.2	-	15	3157	c.2932delC	c.(2932-2934)CGAfs	p.R978fs	SRCIN1_uc002hqf.1_Frame_Shift_Del_p.R850fs|SRCIN1_uc002hqe.2_Frame_Shift_Del_p.R832fs	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	850	Pro-rich.			R -> K (in Ref. 6; AA sequence).	exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						GGCTCCGTTCGGGGGGCTGCC	0.687													5	5	---	---	---	---						.	-	36707421	-	-	36707421	7	5	15	1	0	1	0	1	0	0	0	0	15161	1124	39	0	639	0	SRCIN1	17	36707421	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	1409362	36707421	44487789	626	11460											
CWC25	54883	broad.mit.edu	37	chr17	36958376	36958376	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagttcttctccagagctAccgaagttctctgtaaagag	12	12	8	9	1	3	2	0	0	3	2	5	3	3	2	2	0	2	4	2	0	6	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:36958376A>G	uc002hqu.2	-	10	1400	c.1247T>C	c.(1246-1248)GTA>GCA	p.V416A	CWC25_uc010wdv.1_Missense_Mutation_p.V353A|PIP4K2B_uc002hqs.2_5'Flank|PIP4K2B_uc010wdt.1_5'Flank	NM_017748	NP_060218	Q9NXE8	CWC25_HUMAN	coiled-coil domain containing 49	416											0						CTCCAGAGCTACCGAAGTTCT	0.458													12	24					0	0	0.003163	0	0		G	36958376	G	G	36958376	3	3	15	1	0	0	0	0	1	0	0	0	4072	391	14	3	34	3	CWC25	17	36958376	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	250955	36958376	44236834	627	11461											
NR1D1	9572	broad.mit.edu	37	chr17	38252308	38252309	+	Frame_Shift_Del	DEL	TC	-	-																															ctcagcaagcatccgctgctTctctcgtttggggatgcgcc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:38252308_38252309delTC	uc002htz.1	-	5	1262_1263	c.636_637delGA	c.(634-639)GAGAAGfs	p.E212fs	NR1D1_uc010cwq.1_RNA|NR1D1_uc010cwr.1_Intron	NM_021724	NP_068370	P20393	NR1D1_HUMAN	nuclear receptor subfamily 1, group D, member 1	212_213					cellular response to lipopolysaccharide|negative regulation of receptor biosynthetic process|negative regulation of toll-like receptor 4 signaling pathway|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			skin(1)	1	Colorectal(19;0.000442)					ATCCGCTGCTTCTCTCGTTTGG	0.564													22	48	---	---	---	---						.	-	38252309	-	-	38252308	7	5	15	1	0	1	0	1	0	0	0	0	10634	1792	62	0	1223	0	NR1D1	17	38252308	Frame_Shift_Del	DEL	TC	TCGA-BR-4280-01A-01D-1126-08	1293932	38252308	42942902	628	11462											
KRT10	3858	broad.mit.edu	37	chr17	38978786	38978786	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctcctcctcctcctcCtccactgcgggaggaagagt	5	10	8	18	1	0	1	0	0	0	1	8	3	8	3	8	2	1	0	8	2	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:38978786C>A	uc002hvi.2	-	1	78	c.52G>T	c.(52-54)GGA>TGA	p.G18*	KRT10_uc010cxd.2_5'Flank|TMEM99_uc002hvj.1_Intron	NM_000421	NP_000412	P13645	K1C10_HUMAN	keratin 10	18	Head.|Gly-rich.				epidermis development		protein binding|structural constituent of epidermis				0		Breast(137;0.000301)				cctcctcctcctccACTGCGG	0.408													15	19					9.16793e-09	1.03233e-08	0.00499	1	0		A	38978786	A	A	38978786	4	1	15	1	0	0	0	0	0	1	0	0	8464	690	24	5	1734	5	KRT10	17	38978786	Nonsense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	726478	38978786	42216424	629	11463											
KRT39	390792	broad.mit.edu	37	chr17	39123064	39123064	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctagagcagttttgacaTggggttgaaggagaattggt	11	12	14	4	0	0	4	0	2	0	2	1	5	1	4	1	4	1	3	1	4	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:39123064T>C	uc002hvo.1	-	1	81	c.45A>G	c.(43-45)CCA>CCG	p.P15P	KRT39_uc010wfm.1_5'UTR	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	15	Head.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				AGTTTTGACATGGGGTTGAAG	0.473													56	128					0	0	0.01441	0	0		C	39123064	C	C	39123064	2	2	15	1	0	0	0	0	0	0	0	1	8492	1451	51	3		3	KRT39	17	39123064	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	144278	39123064	42072146	630	11464											
DNAJC7	7266	broad.mit.edu	37	chr17	40152526	40152526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttttgtataataattataaGcttcattgtaatctttcttg	11	21	4	5	0	3	0	1	0	2	0	3	0	3	0	0	0	1	3	0	0	6	12			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:40152526G>A	uc002hyo.2	-	2	377	c.140C>T	c.(139-141)GCT>GTT	p.A47V	DNAJC7_uc010wgb.1_5'UTR|DNAJC7_uc010wgc.1_5'UTR|DNAJC7_uc002hyp.2_Intron|DNAJC7_uc010cxw.2_RNA	NM_003315	NP_003306	Q99615	DNJC7_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 7	47	TPR 1.				chaperone cofactor-dependent protein refolding	cytoplasm|cytoskeleton|nucleus	heat shock protein binding|unfolded protein binding			ovary(1)	1		all_cancers(22;0.00273)|Breast(137;0.00104)|all_epithelial(22;0.0305)				ATAATTATAAGCTTCATTGTA	0.328													27	55					0	0	0.009535	0	0		A	40152526	A	A	40152526	3	1	15	1	0	0	0	0	1	0	0	0	4660	971	34	2	1396	2	DNAJC7	17	40152526	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1029462	40152526	41042684	631	11465											
MEOX1	4222	broad.mit.edu	37	chr17	41719304	41719304	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacttggagaggctgtggAgtccccatcctcagggtcct	7	10	13	11	0	1	2	1	1	0	1	4	4	4	3	4	4	1	1	4	4	1	1	rs78282512		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:41719304A>C	uc002idz.2	-	3	768	c.739T>G	c.(739-741)TCC>GCC	p.S247A	MEOX1_uc002iea.2_3'UTR|MEOX1_uc002ieb.2_Missense_Mutation_p.S132A	NM_004527	NP_004518	P50221	MEOX1_HUMAN	mesenchyme homeobox 1 isoform 1	247						nucleus	sequence-specific DNA binding				0		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.0753)		GAGGCTGTGGAGTCCCCATCC	0.562													27	65					0	0	0.010818	0	0		C	41719304	C	C	41719304	3	2	15	1	0	0	0	0	1	0	0	0	9491	304	11	5	29	5	MEOX1	17	41719304	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1566778	41719304	39475906	632	11466											
SOST	50964	broad.mit.edu	37	chr17	41835990	41835990	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaggctcggggtactctccGagctcggggatgatttccgt	5	10	16	10	4	1	1	0	1	1	0	5	4	2	3	2	6	2	3	2	6	1	2	rs149814744		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:41835990G>A	uc002iec.1	-	1	167	c.120C>T	c.(118-120)CTC>CTT	p.L40L		NM_025237	NP_079513	Q9BQB4	SOST_HUMAN	sclerostin precursor	40					negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of ossification|negative regulation of protein complex assembly|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway		heparin binding|protein binding				0		Breast(137;0.00725)		UCEC - Uterine corpus endometrioid carcinoma (308;0.177)|BRCA - Breast invasive adenocarcinoma(366;0.0741)		GGTACTCTCCGAGCTCGGGGA	0.617													13	24					0	0	0.00499	0	0		A	41835990	A	A	41835990	2	1	15	1	0	0	0	0	0	0	0	1	14963	1045	37	1		1	SOST	17	41835990	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	116686	41835990	39359220	633	11467											
SLC4A1	6521	broad.mit.edu	37	chr17	42328633	42328633	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggccggcgtggacttcAccacccacagcactgccagg	8	4	14	15	2	1	0	1	0	0	0	1	2	1	2	4	5	2	1	4	5	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:42328633A>G	uc002igf.3	-	19	2698	c.2549T>C	c.(2548-2550)GTG>GCG	p.V850A		NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	850	Helical; (Potential).|Membrane (anion exchange).		Missing (in AR-dRTA).		bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		CGTGGACTTCACCACCCACAG	0.637													5	23					0	0	0.001168	0	0		G	42328633	G	G	42328633	3	3	15	1	0	0	0	0	1	0	0	0	14675	159	6	3	194	3	SLC4A1	17	42328633	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	492643	42328633	38866577	634	11468											
GPATCH8	23131	broad.mit.edu	37	chr17	42483368	42483368	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttctcatccttgcgggAtcttgaagagacatttcgag	8	16	9	8	2	2	2	1	1	2	1	5	5	3	3	1	1	1	0	1	1	1	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:42483368A>G	uc002igw.1	-	7	608	c.544T>C	c.(544-546)TCC>CCC	p.S182P	GPATCH8_uc002igv.1_Missense_Mutation_p.S104P|GPATCH8_uc010wiz.1_Missense_Mutation_p.S104P	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	182						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		TCCTTGCGGGATCTTGAAGAG	0.408													38	42					0	0	0.007835	0	0		G	42483368	G	G	42483368	3	3	15	1	0	0	0	0	1	0	0	0	6609	333	12	3	3972	3	GPATCH8	17	42483368	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	154735	42483368	38711842	635	11469											
SGCA	6442	broad.mit.edu	37	chr17	48245314	48245314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccatcccccaggtcacaGcctacaatcgggacagcttt	9	9	7	16	1	1	0	1	0	0	0	4	1	3	1	4	2	3	1	4	2	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:48245314G>A	uc002iqi.2	+	4	355	c.319G>A	c.(319-321)GCC>ACC	p.A107T	SGCA_uc010wmh.1_Missense_Mutation_p.A5T|SGCA_uc002iqj.2_Missense_Mutation_p.A107T|SGCA_uc010wmi.1_RNA	NM_000023	NP_000014	Q16586	SGCA_HUMAN	sarcoglycan, alpha isoform 1 precursor	107	Extracellular (Potential).				muscle contraction|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(2)	2						CCAGGTCACAGCCTACAATCG	0.577													57	84					0	0	0.01441	0	0		A	48245314	A	A	48245314	3	1	15	1	0	0	0	0	1	0	0	0	14224	971	34	2	333	2	SGCA	17	48245314	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	5761946	48245314	32949896	636	11470											
LRRC59	55379	broad.mit.edu	37	chr17	48462519	48462519	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttaggtttcttctcctgCtcccgcttggctgctttgag	2	18	9	12	1	3	1	0	1	3	0	5	1	4	1	2	2	2	5	2	2	1	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:48462519C>T	uc002iqt.2	-	6	790	c.636G>A	c.(634-636)GAG>GAA	p.E212E		NM_018509	NP_060979	Q96AG4	LRC59_HUMAN	leucine rich repeat containing 59	212	Potential.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial nucleoid	protein binding			central_nervous_system(1)	1	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			TCTTCTCCTGCTCCCGCTTGG	0.542													5	150					0	0	0.000602	0	0		T	48462519	T	T	48462519	2	4	15	1	0	0	0	0	0	0	0	1	9033	796	28	2		2	LRRC59	17	48462519	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	217205	48462519	32732691	637	11471											
SPATA20	64847	broad.mit.edu	37	chr17	48631632	48631632	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggatggagcagagcccAgcgccaattccgtgtcagcc	10	5	12	14	2	1	1	1	0	0	1	2	3	2	3	5	2	4	1	5	2	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:48631632A>G	uc002irf.2	+	14	2071	c.1930A>G	c.(1930-1932)AGC>GGC	p.S644G	SPATA20_uc002irc.2_Missense_Mutation_p.S311G|SPATA20_uc002ire.2_Missense_Mutation_p.S600G|SPATA20_uc002ird.2_Missense_Mutation_p.S660G|SPATA20_uc002irg.2_RNA	NM_022827	NP_073738	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	644					cell differentiation|mannose metabolic process|multicellular organismal development|spermatogenesis	extracellular region	mannose-6-phosphate isomerase activity|protein binding				0	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			AGCAGAGCCCAGCGCCAATTC	0.612													12	20					0	0	0.00245	0	0		G	48631632	G	G	48631632	3	3	15	1	0	0	0	0	1	0	0	0	15031	188	7	3	2036	3	SPATA20	17	48631632	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	169113	48631632	32563578	638	11472											
CACNA1G	8913	broad.mit.edu	37	chr17	48678110	48678110	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggggaacgggtccgcgcGtggatccgagcccgactccc	8	4	15	14	6	0	0	0	0	0	0	3	4	3	2	4	4	2	0	4	4	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:48678110G>A	uc002irk.1	+	18	4086	c.3714G>A	c.(3712-3714)GCG>GCA	p.A1238A	CACNA1G_uc002iri.1_Silent_p.A1238A|CACNA1G_uc002irj.1_Silent_p.A1215A|CACNA1G_uc002irl.1_Silent_p.A1215A|CACNA1G_uc002irm.1_Silent_p.A1215A|CACNA1G_uc002irn.1_Silent_p.A1215A|CACNA1G_uc002iro.1_Silent_p.A1215A|CACNA1G_uc002irp.1_Silent_p.A1238A|CACNA1G_uc002irq.1_Silent_p.A1215A|CACNA1G_uc002irr.1_Silent_p.A1238A|CACNA1G_uc002irs.1_Silent_p.A1238A|CACNA1G_uc002irt.1_Silent_p.A1238A|CACNA1G_uc002irv.1_Silent_p.A1238A|CACNA1G_uc002irw.1_Silent_p.A1215A|CACNA1G_uc002iru.1_Silent_p.A1215A|CACNA1G_uc002irx.1_Silent_p.A1151A|CACNA1G_uc002iry.1_Silent_p.A1151A|CACNA1G_uc002irz.1_Silent_p.A1151A|CACNA1G_uc002isa.1_Silent_p.A1151A|CACNA1G_uc002isb.1_Silent_p.A1151A|CACNA1G_uc002isc.1_Silent_p.A1151A|CACNA1G_uc002isd.1_Silent_p.A1151A|CACNA1G_uc002ise.1_Silent_p.A1151A|CACNA1G_uc002isf.1_Silent_p.A1151A|CACNA1G_uc002isg.1_Silent_p.A1151A|CACNA1G_uc002ish.1_Silent_p.A1151A|CACNA1G_uc002isi.1_Silent_p.A1128A|CACNA1G_uc002isj.2_Translation_Start_Site	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1238	Cytoplasmic (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GGGTCCGCGCGTGGATCCGAG	0.632													11	24					0	0	0.013537	0	0		A	48678110	A	A	48678110	2	1	15	1	0	0	0	0	0	0	0	1	2547	1132	40	1		1	CACNA1G	17	48678110	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	46478	48678110	32517100	639	11473											
MPO	4353	broad.mit.edu	37	chr17	56355248	56355248	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagacaggggtcatcgtgcaGgttgtcaaagggcagcaggg	10	6	18	7	1	2	1	2	0	0	1	3	2	2	1	0	5	2	4	0	5	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:56355248G>T	uc002ivu.1	-	7	1321	c.1144C>A	c.(1144-1146)CTG>ATG	p.L382M		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	382					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	TCATCGTGCAGGTTGTCAAAG	0.642													21	22					1.22574e-08	1.3786e-08	0.014323	1	0		T	56355248	T	T	56355248	3	4	15	1	0	0	0	0	1	0	0	0	9750	991	35	5	1117	5	MPO	17	56355248	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	7677138	56355248	24839962	640	11474											
RNFT1	51136	broad.mit.edu	37	chr17	58033900	58033900	+	Frame_Shift_Del	DEL	A	-	-																															ctgaaagttctcagatgcccAaaaaattccaaaagctgaaa																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:58033900delA	uc002iya.2	-	7	1113	c.1020delT	c.(1018-1020)TTTfs	p.F340fs	RNFT1_uc002iyb.2_RNA|RNFT1_uc002iyc.2_Frame_Shift_Del_p.F78fs	NM_016125	NP_057209	Q5M7Z0	RNFT1_HUMAN	PTD016 protein	340	Helical; (Potential).					integral to membrane	zinc ion binding				0	all_cancers(5;1.58e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;7.95e-12)|all cancers(12;1.34e-10)			TCAGATGCCCAAAAAATTCCA	0.323													27	40	---	---	---	---						.	-	58033900	-	-	58033900	7	5	15	1	0	1	0	1	0	0	0	0	13526	127	5	0	299	0	RNFT1	17	58033900	Frame_Shift_Del	DEL	A	TCGA-BR-4280-01A-01D-1126-08	1678652	58033900	23161310	641	11475											
DDX42	11325	broad.mit.edu	37	chr17	61889307	61889307	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggcaaatgaagatgtgAcacagattgtggagattctc	13	10	11	7	0	2	5	1	2	1	3	3	6	2	5	0	2	0	1	0	2	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:61889307A>G	uc002jbu.2	+	15	1671	c.1414A>G	c.(1414-1416)ACA>GCA	p.T472A	DDX42_uc002jbv.2_Missense_Mutation_p.T472A|DDX42_uc002jbw.1_Missense_Mutation_p.T208A|DDX42_uc002jbx.2_Missense_Mutation_p.T208A|DDX42_uc002jby.2_Missense_Mutation_p.T18A	NM_007372	NP_031398	Q86XP3	DDX42_HUMAN	DEAD box polypeptide 42 protein	472					protein localization|regulation of anti-apoptosis	Cajal body|cytoplasm|nuclear speck	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)|large_intestine(1)	5						TGAAGATGTGACACAGATTGT	0.453													96	165					0	0	0.01441	0	0		G	61889307	G	G	61889307	3	3	15	1	0	0	0	0	1	0	0	0	4365	275	10	3	1464	3	DDX42	17	61889307	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	3855407	61889307	19305903	642	11476											
BPTF	2186	broad.mit.edu	37	chr17	65944394	65944394	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaagaagagagcactccTggacaaggatctgcaaattg	14	7	11	9	0	1	3	0	1	1	2	2	6	2	5	2	2	2	2	2	2	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:65944394T>C	uc002jgf.2	+	23	7959	c.7898T>C	c.(7897-7899)CTG>CCG	p.L2633P	BPTF_uc002jge.2_Missense_Mutation_p.L2616P|BPTF_uc002jgg.2_Missense_Mutation_p.L290P|BPTF_uc002jgh.2_Missense_Mutation_p.L92P	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2759					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			AGAGCACTCCTGGACAAGGAT	0.478													11	52					0	0	0.010729	0	0		C	65944394	C	C	65944394	3	2	15	1	0	0	0	0	1	0	0	0	1498	1580	55	3	8374	3	BPTF	17	65944394	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	4055087	65944394	15250816	643	11477											
OTOP3	347741	broad.mit.edu	37	chr17	72943232	72943232	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgctgcactgggccagatgGgcatcgcctatttctccatc	6	11	11	13	1	1	1	0	0	1	1	4	1	1	1	3	2	2	3	3	2	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:72943232G>T	uc010wrr.1	+	6	1282	c.1282G>T	c.(1282-1284)GGC>TGC	p.G428C	OTOP3_uc010wrq.1_Missense_Mutation_p.G410C	NM_178233	NP_839947	Q7RTS5	OTOP3_HUMAN	otopetrin 3	428	Helical; (Potential).					integral to membrane|intracellular	zinc ion binding			ovary(1)	1	all_lung(278;0.151)|Lung NSC(278;0.185)					GGGCCAGATGGGCATCGCCTA	0.612													19	23					5.35356e-11	6.11383e-11	0.00278	1	0		T	72943232	T	T	72943232	3	4	15	1	0	0	0	0	1	0	0	0	11326	1232	43	5	1304	5	OTOP3	17	72943232	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6998838	72943232	8251978	644	11478											
ITGB4	3691	broad.mit.edu	37	chr17	73748363	73748363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgctacacggtgaaggcgcGcaacggggccggctgggggc	6	3	19	13	6	0	1	0	1	0	0	0	1	0	1	2	7	2	3	2	7	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:73748363G>A	uc002jpg.2	+	31	4089	c.3902G>A	c.(3901-3903)CGC>CAC	p.R1301H	ITGB4_uc002jph.2_Missense_Mutation_p.R1301H|ITGB4_uc002jpi.3_Missense_Mutation_p.R1301H|ITGB4_uc002jpj.2_Missense_Mutation_p.R1301H|GALK1_uc010wsi.1_Intron	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1301	Fibronectin type-III 2.|Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GTGAAGGCGCGCAACGGGGCC	0.637													29	49					0	0	0.010818	0	0		A	73748363	A	A	73748363	3	1	15	1	0	0	0	0	1	0	0	0	7913	1087	38	1	4020	1	ITGB4	17	73748363	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	805131	73748363	7446847	645	11479											
ITGB4	3691	broad.mit.edu	37	chr17	73750720	73750720	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaactccctgcacaggaTgaccacgaccagtgctgctg	10	6	9	16	1	0	1	0	1	0	0	1	3	1	2	4	1	4	3	4	1	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:73750720T>C	uc002jpg.2	+	34	4569	c.4382T>C	c.(4381-4383)ATG>ACG	p.M1461T	ITGB4_uc002jph.2_Missense_Mutation_p.M1391T|ITGB4_uc002jpi.3_Missense_Mutation_p.M1391T|ITGB4_uc002jpj.2_Missense_Mutation_p.M1391T|GALK1_uc010wsi.1_Intron	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1461	Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			CTGCACAGGATGACCACGACC	0.637													4	39					0	0	0.009096	0	0		C	73750720	C	C	73750720	3	2	15	1	0	0	0	0	1	0	0	0	7913	1464	51	3	4512	3	ITGB4	17	73750720	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2357	73750720	7444490	646	11480											
TRIM65	201292	broad.mit.edu	37	chr17	73888350	73888350	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccctgagccctcgcacctGcaggaaggtctgctcatcca	7	8	10	16	1	2	1	1	1	1	0	4	2	3	2	4	2	4	3	4	2	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:73888350G>A	uc002jpx.2	-	3	778	c.742C>T	c.(742-744)CAG>TAG	p.Q248*		NM_173547	NP_775818	Q6PJ69	TRI65_HUMAN	tripartite motif-containing 65	248						intracellular	zinc ion binding				0			Epithelial(20;7.53e-06)|all cancers(21;9.11e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			CCTCGCACCTGCAGGAAGGTC	0.647													11	7					0	0	0.013537	0	0		A	73888350	A	A	73888350	4	1	15	1	0	0	0	0	0	1	0	0	16565	1328	46	2	827	2	TRIM65	17	73888350	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	137630	73888350	7306860	647	11481											
EXOC7	23265	broad.mit.edu	37	chr17	74097459	74097459	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagcctacctgtggggcTgggaaagaaaagagccaggt	11	7	14	9	0	0	2	0	0	0	2	1	3	1	3	4	4	3	1	4	4	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:74097459T>C	uc002jqs.2	-	4	407	c.312_splice	c.e4-1	p.G104_splice	EXOC7_uc010dgv.1_Splice_Site_p.G51_splice|EXOC7_uc002jqq.2_Splice_Site_p.G104_splice|EXOC7_uc010wsw.1_Splice_Site_p.G104_splice|EXOC7_uc010wsx.1_Splice_Site_p.G104_splice|EXOC7_uc002jqr.2_Splice_Site_p.G104_splice|EXOC7_uc010wsv.1_Splice_Site_p.G63_splice|EXOC7_uc002jqu.2_Splice_Site_p.G104_splice|EXOC7_uc002jqv.2_Intron	NM_001145297	NP_001138769	Q9UPT5	EXOC7_HUMAN	exocyst complex component 7 isoform 4						exocytosis|protein transport	centriolar satellite|cytosol|exocyst|plasma membrane	protein binding				0			LUSC - Lung squamous cell carcinoma(166;0.187)			CCTGTGGGGCTGGGAAAGAAA	0.522													18	45					0	0	0.012319	0	0		C	74097459	C	C	74097459	5	2	15	1	0	0	0	0	0	0	1	0	5318	1594	55	3	1965	3	EXOC7	17	74097459	Splice_Site	SNP	T	TCGA-BR-4280-01A-01D-1126-08	209109	74097459	7097751	648	11482											
PGS1	9489	broad.mit.edu	37	chr17	76395508	76395508	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtctccctctttcacacGccgcacctccgtgggctgct	4	10	9	18	4	3	0	1	0	2	0	5	1	4	0	4	1	1	3	4	1	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:76395508G>A	uc002jvm.2	+	5	603	c.591G>A	c.(589-591)ACG>ACA	p.T197T	PGS1_uc010wtt.1_RNA|PGS1_uc010dho.2_RNA|PGS1_uc002jvn.2_5'UTR|PGS1_uc002jvo.2_RNA|PGS1_uc002jvp.1_5'Flank	NM_024419	NP_077733	Q32NB8	PGPS1_HUMAN	phosphatidylglycerophosphate synthase 1	197					phospholipid biosynthetic process	endoplasmic reticulum|mitochondrion	ATP binding|CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activity				0			BRCA - Breast invasive adenocarcinoma(99;0.00144)|OV - Ovarian serous cystadenocarcinoma(97;0.031)			TCTTTCACACGCCGCACCTCC	0.597													38	44					0	0	0.00874	0	0		A	76395508	A	A	76395508	2	1	15	1	0	0	0	0	0	0	0	1	11827	1074	38	1		1	PGS1	17	76395508	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2298049	76395508	4799702	649	11483											
ENGASE	64772	broad.mit.edu	37	chr17	77073557	77073557	+	Frame_Shift_Del	DEL	T	-	-																															gtctttcgagaggtggtcagTttttccccggaccccctgcc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:77073557delT	uc002jwv.2	+	2	200	c.192delT	c.(190-192)AGTfs	p.S64fs	ENGASE_uc002jwu.1_Frame_Shift_Del_p.S64fs|ENGASE_uc010wtz.1_5'UTR|ENGASE_uc002jww.2_5'Flank	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	64						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						AGGTGGTCAGTTTTTCCCCGG	0.493													30	41	---	---	---	---						.	-	77073557	-	-	77073557	7	5	15	1	0	1	0	1	0	0	0	0	5126	1722	60	0	198	0	ENGASE	17	77073557	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	678049	77073557	4121653	650	11484											
TBC1D16	125058	broad.mit.edu	37	chr17	77922698	77922698	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccacattgggattgtctTccccccggaagaactggttg	7	12	10	12	1	2	1	0	0	2	1	4	3	3	3	4	3	1	1	4	3	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:77922698T>C	uc002jxj.2	-	8	1630	c.1514A>G	c.(1513-1515)GAA>GGA	p.E505G	TBC1D16_uc002jxh.2_Missense_Mutation_p.E143G|TBC1D16_uc002jxi.2_Missense_Mutation_p.E130G|TBC1D16_uc002jxk.1_Missense_Mutation_p.E143G	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	505	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			GGGATTGTCTTCCCCCCGGAA	0.567													27	44					0	0	0.008361	0	0		C	77922698	C	C	77922698	3	2	15	1	0	0	0	0	1	0	0	0	15630	1783	62	3	809	3	TBC1D16	17	77922698	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	849141	77922698	3272512	651	11485											
RNF213	57674	broad.mit.edu	37	chr17	78321528	78321528	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccagaagtacgtggacctCggtctggggacccaccgcgt	7	6	15	13	4	1	1	0	0	1	1	2	3	1	3	4	5	1	1	4	5	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:78321528C>T	uc002jyh.1	+	4	3835	c.3612C>T	c.(3610-3612)CTC>CTT	p.L1204L		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			ACGTGGACCTCGGTCTGGGGA	0.557													31	48					0	0	0.012213	0	0		T	78321528	T	T	78321528	2	4	15	1	0	0	0	0	0	0	0	1	13502	871	31	1		1	RNF213	17	78321528	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	398830	78321528	2873682	652	11486											
C17orf101	79701	broad.mit.edu	37	chr17	80369341	80369341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcggttacctgcgaatccGctccgcttcctccctggtga	5	10	11	15	4	0	1	0	1	0	0	4	2	4	1	5	3	2	3	5	3	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr17:80369341G>A	uc002keu.1	-	3	471	c.370C>T	c.(370-372)CGG>TGG	p.R124W	C17orf101_uc002ket.1_Missense_Mutation_p.R124W|C17orf101_uc010dip.1_RNA	NM_024648	NP_078924	Q6PK18	CQ101_HUMAN	hypothetical protein LOC79701 isoform 1	124	Lumenal (Potential).					integral to membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(1)	1						CTGCGAATCCGCTCCGCTTCC	0.587													14	24					0	0	0.008871	0	0		A	80369341	A	A	80369341	3	1	15	1	0	0	0	0	1	0	0	0	1851	1086	38	1	794	1	C17orf101	17	80369341	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2047813	80369341	825869	653	11487											
THOC1	9984	broad.mit.edu	37	chr18	216495	216495	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtacttaccggtaattcCttggctagctttattaccat	9	16	7	9	1	0	0	0	0	0	0	1	0	1	0	3	3	4	4	3	3	6	9			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:216495C>A	uc002kkj.3	-	19	1633	c.1593G>T	c.(1591-1593)AAG>AAT	p.K531N	THOC1_uc002kkk.3_RNA|THOC1_uc002kkh.3_Missense_Mutation_p.K155N	NM_005131	NP_005122	Q96FV9	THOC1_HUMAN	THO complex 1	531					apoptosis|intronless viral mRNA export from host nucleus|mRNA processing|regulation of transcription elongation, DNA-dependent|RNA splicing|signal transduction|transcription, DNA-dependent	cytoplasm|nuclear matrix|nuclear speck|THO complex part of transcription export complex	DNA binding|protein binding|RNA binding			ovary(1)	1		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				CCGGTAATTCCTTGGCTAGCT	0.368													6	239					2.0095e-06	2.22381e-06	0.001984	1	0		A	216495	A	A	216495	3	1	15	1	0	0	0	0	1	0	0	0	15889	680	24	5	392	5	THOC1	18	216495	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08		216495	77860753	654	11488											
LPIN2	9663	broad.mit.edu	37	chr18	2925364	2925364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgaggagtcattctcggccGgcctgttcaacattagccca	8	10	10	13	3	3	0	2	0	1	0	5	2	3	1	3	3	2	1	3	3	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:2925364G>A	uc002klo.2	-	14	2035	c.1796C>T	c.(1795-1797)CCG>CTG	p.P599L		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	599					fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		ATTCTCGGCCGGCCTGTTCAA	0.498													16	40					0	0	0.005443	0	0		A	2925364	A	A	2925364	3	1	15	1	0	0	0	0	1	0	0	0	8937	1116	39	1	922	1	LPIN2	18	2925364	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2708869	2925364	75151884	655	11489											
PTPRM	5797	broad.mit.edu	37	chr18	8076526	8076526	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatttcttcagtggagagaAccaactcaaacatatggtgt	14	12	8	7	0	3	1	2	0	1	1	3	3	3	2	1	2	3	0	1	2	5	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:8076526A>C	uc002knn.3	+	9	2018	c.1515A>C	c.(1513-1515)GAA>GAC	p.E505D	PTPRM_uc010dkv.2_Missense_Mutation_p.E505D|PTPRM_uc010wzl.1_Missense_Mutation_p.E292D	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	505	Fibronectin type-III 3.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				AGTGGAGAGAACCAACTCAAA	0.348													15	40					0	0	0.00499	0	0		C	8076526	C	C	8076526	3	2	15	1	0	0	0	0	1	0	0	0	12831	40	2	5	1549	5	PTPRM	18	8076526	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	5151162	8076526	70000722	656	11490											
RAB12	201475	broad.mit.edu	37	chr18	8633208	8633208	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacagcaggtcaggagagAttcaacagcattacctcagc	14	6	10	11	0	3	1	3	0	0	1	3	4	3	2	1	2	5	2	1	2	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:8633208A>G	uc002knp.2	+	3	592	c.309A>G	c.(307-309)AGA>AGG	p.R103R		NM_001025300	NP_001020471	Q6IQ22	RAB12_HUMAN	RAB12, member RAS oncogene family	103					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding				0						GTCAGGAGAGATTCAACAGCA	0.403													6	106					0	0	0.00308	0	0		G	8633208	G	G	8633208	2	3	15	1	0	0	0	0	0	0	0	1	12923	330	12	3		3	RAB12	18	8633208	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	556682	8633208	69444040	657	11491											
SEH1L	81929	broad.mit.edu	37	chr18	12955468	12955468	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgattccccagacacatAgtggatctgtatggcgtgtg	8	14	11	8	1	1	2	0	1	1	1	2	3	2	3	2	2	0	1	2	2	2	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:12955468A>G	uc002krr.2	+	3	307	c.169A>G	c.(169-171)AGT>GGT	p.S57G	SEH1L_uc002krq.2_Missense_Mutation_p.S57G	NM_031216	NP_112493	Q96EE3	SEH1_HUMAN	sec13-like protein isoform 2	57	WD 2.				attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|carbohydrate metabolic process|cell division|glucose transport|mitotic metaphase plate congression|mitotic prometaphase|mRNA transport|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex					0						CCAGACACATAGTGGATCTGT	0.398													7	115					0	0	0.001984	0	0		G	12955468	G	G	12955468	3	3	15	1	0	0	0	0	1	0	0	0	14034	420	15	3	179	3	SEH1L	18	12955468	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	4322260	12955468	65121780	658	11492											
C18orf1	753	broad.mit.edu	37	chr18	13621221	13621221	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtctccacgcggtcctTcatcaaccgcccgaaccaga	11	6	7	17	4	3	1	2	0	1	1	5	2	4	1	5	1	2	0	5	1	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:13621221T>C	uc002ksa.2	+	5	955	c.287T>C	c.(286-288)TTC>TCC	p.F96S	C18orf1_uc002ksb.2_Missense_Mutation_p.F96S|C18orf1_uc002kse.2_Missense_Mutation_p.F59S|C18orf1_uc002ksf.2_Missense_Mutation_p.F59S|C18orf1_uc002ksg.1_Missense_Mutation_p.F19S|C18orf1_uc002ksh.1_Missense_Mutation_p.F38S|C18orf1_uc002ksi.1_Missense_Mutation_p.F38S	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	96	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		ACGCGGTCCTTCATCAACCGC	0.627													22	37					0	0	0.003954	0	0		C	13621221	C	C	13621221	3	2	15	1	0	0	0	0	1	0	0	0	1897	1783	62	3	378	3	C18orf1	18	13621221	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	665753	13621221	64456027	659	11493											
RBBP8	5932	broad.mit.edu	37	chr18	20570945	20570945	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgatgagctctaccacTgtctggaaggaaatcacaag	12	10	11	8	0	3	2	1	2	2	0	3	4	3	4	1	3	2	1	1	3	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:20570945T>G	uc002ktw.2	+	10	1184	c.853T>G	c.(853-855)TGT>GGT	p.C285G	RBBP8_uc002kty.2_Missense_Mutation_p.C285G|RBBP8_uc002ktz.2_Missense_Mutation_p.C285G|RBBP8_uc002kua.2_Missense_Mutation_p.C285G|RBBP8_uc002ktx.1_Missense_Mutation_p.C285G	NM_002894	NP_002885	Q99708	COM1_HUMAN	retinoblastoma binding protein 8 isoform a	285					cell cycle checkpoint|DNA double-strand break processing involved in repair via single-strand annealing|meiosis|regulation of transcription from RNA polymerase II promoter	nucleus	damaged DNA binding|protein binding|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)|lung(1)|skin(1)	3	all_cancers(21;4.34e-05)|all_epithelial(16;8.3e-07)|Lung NSC(20;0.0107)|Colorectal(14;0.0202)|all_lung(20;0.0291)|Ovarian(20;0.19)		OV - Ovarian serous cystadenocarcinoma(1;0.00196)			GCTCTACCACTGTCTGGAAGG	0.328								Direct_reversal_of_damage|Homologous_recombination					7	60					0	0	0.00308	0	0		G	20570945	G	G	20570945	3	3	15	1	0	0	0	0	1	0	0	0	13130	1580	55	5	887	5	RBBP8	18	20570945	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	6949724	20570945	57506303	660	11494											
CHST9	83539	broad.mit.edu	37	chr18	24496988	24496988	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatgatgactcaccccaccGtatttcttgcaaaactcctg	10	12	6	13	1	2	3	1	3	1	0	3	3	3	3	4	0	2	2	4	0	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:24496988G>A	uc002kwd.2	-	5	765	c.567C>T	c.(565-567)TAC>TAT	p.Y189Y	C18orf16_uc002kwb.2_Intron|C18orf16_uc010xbm.1_Intron|CHST9_uc002kwc.2_Silent_p.Y104Y|CHST9_uc002kwe.2_Silent_p.Y189Y	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	189	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					TCACCCCACCGTATTTCTTGC	0.368													49	79					0	0	0.01441	0	0		A	24496988	A	A	24496988	2	1	15	1	0	0	0	0	0	0	0	1	3414	1140	40	1		1	CHST9	18	24496988	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	3926043	24496988	53580260	661	11495											
DSC2	1824	broad.mit.edu	37	chr18	28654723	28654723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gactaaagtcaaagggtgggCcatggataggctcatcagga	13	7	14	7	0	3	0	3	0	0	0	3	3	3	2	1	5	0	1	1	5	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:28654723C>T	uc002kwl.3	-	12	2268	c.1814G>A	c.(1813-1815)GGC>GAC	p.G605D	DSC2_uc002kwk.3_Missense_Mutation_p.G605D	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	605	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			AAAGGGTGGGCCATGGATAGG	0.413													26	52					0	0	0.008361	0	0		T	28654723	T	T	28654723	3	4	15	1	0	0	0	0	1	0	0	0	4772	739	26	2	951	2	DSC2	18	28654723	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	4157735	28654723	49422525	662	11496											
KIAA1012	22878	broad.mit.edu	37	chr18	29410772	29410772	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattctgctgacttgtttcAaacactgtaacttggtccga	10	14	8	9	1	2	1	1	1	1	0	3	3	3	1	1	1	3	3	1	1	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:29410772A>G	uc002kxc.3	-	29	4618	c.4254T>C	c.(4252-4254)TTT>TTC	p.F1418F	KIAA1012_uc002kxb.3_Silent_p.F1364F|KIAA1012_uc002kxd.3_RNA	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	1418					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						GACTTGTTTCAAACACTGTAA	0.403													23	29					0	0	0.00632	0	0		G	29410772	G	G	29410772	2	3	15	1	0	0	0	0	0	0	0	1	8220	127	5	3		3	KIAA1012	18	29410772	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	756049	29410772	48666476	663	11497											
ASXL3	80816	broad.mit.edu	37	chr18	31319536	31319536	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccgatgtctgacttacCtttaacatcagaaacttctt	11	14	4	12	1	4	2	2	1	2	1	4	3	4	2	2	0	3	0	2	0	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:31319536C>A	uc010dmg.1	+	11	2223	c.2168C>A	c.(2167-2169)CCT>CAT	p.P723H	ASXL3_uc002kxq.2_Missense_Mutation_p.P430H	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	723	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TCTGACTTACCTTTAACATCA	0.408													94	184					1.43847e-43	1.73298e-43	0.01441	1	0		A	31319536	A	A	31319536	3	1	15	1	0	0	0	0	1	0	0	0	1069	681	24	5	2210	5	ASXL3	18	31319536	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1908764	31319536	46757712	664	11498											
ASXL3	80816	broad.mit.edu	37	chr18	31325381	31325381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggagccagatgttaaagggGtgccttgtgtcatcagttcc	8	12	13	8	0	2	1	2	0	0	1	3	2	3	2	3	3	2	2	3	3	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:31325381G>A	uc010dmg.1	+	12	5624	c.5569G>A	c.(5569-5571)GTG>ATG	p.V1857M	ASXL3_uc002kxq.2_Missense_Mutation_p.V1564M	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1857					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TGTTAAAGGGGTGCCTTGTGT	0.453													9	301					0	0	0.013537	0	0		A	31325381	A	A	31325381	3	1	15	1	0	0	0	0	1	0	0	0	1069	1261	44	4	5615	4	ASXL3	18	31325381	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	5845	31325381	46751867	665	11499											
MOCOS	55034	broad.mit.edu	37	chr18	33800060	33800060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagggctgctatatgacCggagctggatggttgtgaat	10	10	14	7	1	0	2	0	2	0	0	0	4	0	4	2	4	2	4	2	4	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:33800060C>T	uc002kzq.3	+	9	1863	c.1840C>T	c.(1840-1842)CGG>TGG	p.R614W		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	614					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GCTATATGACCGGAGCTGGAT	0.537													34	53					0	0	0.00623	0	0		T	33800060	T	T	33800060	3	4	15	1	0	0	0	0	1	0	0	0	9707	643	23	1	1874	1	MOCOS	18	33800060	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2474679	33800060	44277188	666	11500											
FHOD3	80206	broad.mit.edu	37	chr18	34205516	34205516	+	Frame_Shift_Del	DEL	C	-	-																															gcgatgagaccacggagccaCcccccagtgggtgccgggac																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:34205516delC	uc002kzt.1	+	10	1097	c.1000delC	c.(1000-1002)CCCfs	p.P334fs	FHOD3_uc002kzr.1_Frame_Shift_Del_p.P334fs|FHOD3_uc002kzs.1_Frame_Shift_Del_p.P334fs|FHOD3_uc002kzu.1_Frame_Shift_Del_p.P159fs|FHOD3_uc010dmz.1_Frame_Shift_Del_p.P87fs	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	334	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CACGGAGCCACCCCCCAGTGG	0.677													16	33	---	---	---	---						.	-	34205516	-	-	34205516	7	5	15	1	0	1	0	1	0	0	0	0	5897	507	18	0	1038	0	FHOD3	18	34205516	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	405456	34205516	43871732	667	11501											
PSTPIP2	9050	broad.mit.edu	37	chr18	43585486	43585486	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttatggatagcatccatTatgagctctgtctgtaaaga	11	15	9	6	0	2	2	0	1	2	1	3	3	3	3	1	1	2	4	1	1	5	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:43585486T>C	uc002lbp.3	-	6	462	c.366A>G	c.(364-366)ATA>ATG	p.I122M	PSTPIP2_uc002lbq.3_Missense_Mutation_p.I122M	NM_024430	NP_077748	Q9H939	PPIP2_HUMAN	proline-serine-threonine phosphatase interacting	122	Potential.					membrane				ovary(1)	1						TAGCATCCATTATGAGCTCTG	0.303													7	22					0	0	0.00308	0	0		C	43585486	C	C	43585486	3	2	15	1	0	0	0	0	1	0	0	0	12744	1744	61	3	674	3	PSTPIP2	18	43585486	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	9379970	43585486	34491762	668	11502											
KIAA0427	9811	broad.mit.edu	37	chr18	46385794	46385794	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagcgcacgggacaagaTgctgtgcccctcggagtcca	8	5	14	14	3	0	1	0	0	0	1	2	3	1	3	4	3	3	2	4	3	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:46385794T>G	uc002ldc.2	+	12	1946	c.1661T>G	c.(1660-1662)ATG>AGG	p.M554R	KIAA0427_uc002ldd.2_Missense_Mutation_p.M556R|KIAA0427_uc002lde.3_Missense_Mutation_p.M183R	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	554	MIF4G.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						CGGGACAAGATGCTGTGCCCC	0.627													15	33					0	0	0.006122	0	0		G	46385794	G	G	46385794	3	3	15	1	0	0	0	0	1	0	0	0	8192	1464	51	5	1709	5	KIAA0427	18	46385794	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2800308	46385794	31691454	669	11503											
MAPK4	5596	broad.mit.edu	37	chr18	48190611	48190611	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcactgacctgcagggtgagCtgttcaagttcagcgtggcg	7	9	15	10	2	2	2	2	2	0	0	2	2	2	2	1	2	3	5	1	2	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:48190611C>T	uc002lev.2	+	2	1283	c.283C>T	c.(283-285)CTG>TTG	p.L95L	MAPK4_uc010xdm.1_Intron|MAPK4_uc010doz.2_Silent_p.L95L	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	95	Protein kinase.				cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		GCAGGGTGAGCTGTTCAAGTT	0.602													18	38					0	0	0.012319	0	0		T	48190611	T	T	48190611	2	4	15	1	0	0	0	0	0	0	0	1	9298	796	28	2		2	MAPK4	18	48190611	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1804817	48190611	29886637	670	11504											
ALPK2	115701	broad.mit.edu	37	chr18	56247010	56247010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtaatccgtcataacatcaGaacattccagatactccagg	15	9	6	11	1	2	2	2	0	0	2	5	2	5	2	3	1	3	1	3	1	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:56247010G>A	uc002lhj.3	-	4	1212	c.998C>T	c.(997-999)TCT>TTT	p.S333F		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	333							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						CATAACATCAGAACATTCCAG	0.433											OREG0025011	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	105					0	0	0.007413	0	0		A	56247010	A	A	56247010	3	1	15	1	0	0	0	0	1	0	0	0	545	942	33	4	5554	4	ALPK2	18	56247010	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	8056399	56247010	21830238	671	11505											
CCBE1	147372	broad.mit.edu	37	chr18	57103367	57103367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caggaagtcgaaagaaccagGgggtccctgtgtacatggga	12	6	15	8	1	0	1	0	0	0	1	2	4	1	3	2	4	2	1	2	4	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:57103367G>A	uc002lib.2	-	11	1064	c.994C>T	c.(994-996)CCT>TCT	p.P332S	CCBE1_uc010dpq.2_Missense_Mutation_p.P61S|CCBE1_uc002lia.2_Missense_Mutation_p.P185S	NM_133459	NP_597716	Q6UXH8	CCBE1_HUMAN	collagen and calcium binding EGF domains 1	332	Collagen-like 2.				lymphangiogenesis|sprouting angiogenesis|venous blood vessel morphogenesis	collagen	calcium ion binding			skin(2)|ovary(1)	3		Colorectal(73;0.175)				AAAGAACCAGGGGGTCCCTGT	0.537													32	54					0	0	0.009535	0	0		A	57103367	A	A	57103367	3	1	15	1	0	0	0	0	1	0	0	0	2734	1232	43	4	230	4	CCBE1	18	57103367	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	856357	57103367	20973881	672	11506											
CDH20	28316	broad.mit.edu	37	chr18	59157845	59157845	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggacttggcatgtcctTgtacttctgggggctgatgg	4	14	15	8	0	1	1	0	1	1	0	2	2	2	2	1	5	1	4	1	5	1	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:59157845T>C	uc010dps.1	+	1	71	c.59T>C	c.(58-60)TTG>TCG	p.L20S	CDH20_uc002lif.2_Missense_Mutation_p.L14S	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	20					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				GGCATGTCCTTGTACTTCTGG	0.488													47	90					0	0	0.01441	0	0		C	59157845	C	C	59157845	3	2	15	1	0	0	0	0	1	0	0	0	3109	1821	63	3	61	3	CDH20	18	59157845	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2054478	59157845	18919403	673	11507											
CDH20	28316	broad.mit.edu	37	chr18	59221588	59221588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtggaacccccgggaggCgcaggcgggggccgccccca	6	2	17	16	4	0	0	0	0	0	0	0	2	0	2	5	6	1	1	5	6	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:59221588C>T	uc010dps.1	+	11	2078	c.2066C>T	c.(2065-2067)GCG>GTG	p.A689V	CDH20_uc002lif.2_Missense_Mutation_p.A683V	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	689	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				CCCCGGGAGGCGCAGGCGGGG	0.677													14	26					0	0	0.00499	0	0		T	59221588	T	T	59221588	3	4	15	1	0	0	0	0	1	0	0	0	3109	768	27	1	2108	1	CDH20	18	59221588	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	63743	59221588	18855660	674	11508											
CDH20	28316	broad.mit.edu	37	chr18	59221697	59221697	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagcactgtccacagctaCgtgctggccaagctctacga	11	7	9	14	2	1	0	0	0	1	0	2	1	2	0	2	1	7	4	2	1	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:59221697C>T	uc010dps.1	+	11	2187	c.2175C>T	c.(2173-2175)TAC>TAT	p.Y725Y	CDH20_uc002lif.2_Silent_p.Y719Y	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	725	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				TCCACAGCTACGTGCTGGCCA	0.657													6	11					0	0	0.00308	0	0		T	59221697	T	T	59221697	2	4	15	1	0	0	0	0	0	0	0	1	3109	547	19	1		1	CDH20	18	59221697	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	109	59221697	18855551	675	11509											
CTDP1	9150	broad.mit.edu	37	chr18	77477859	77477859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagggtgtgccccccaccGccttgttccacccgatgccg	4	7	13	17	3	0	0	0	0	0	0	1	2	1	1	8	2	2	1	8	2	0	2	rs142285723	byFrequency	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr18:77477859G>A	uc002lnh.1	+	10	2407	c.2260G>A	c.(2260-2262)GCC>ACC	p.A754T	CTDP1_uc002lni.1_Missense_Mutation_p.A754T|CTDP1_uc010drd.1_Missense_Mutation_p.A754T	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	754					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		GCCCCCCACCGCCTTGTTCCA	0.682													16	22					0	0	0.010504	0	0		A	77477859	A	A	77477859	3	1	15	1	0	0	0	0	1	0	0	0	4005	1087	38	1	2298	1	CTDP1	18	77477859	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	18256162	77477859	599389	676	11510											
SBNO2	22904	broad.mit.edu	37	chr19	1119609	1119609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catgtagatcatgttccgagGctcagaggcacctgtggggg	8	9	15	9	1	2	2	2	0	0	2	3	3	3	2	2	4	0	4	2	4	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:1119609G>A	uc002lrk.3	-	13	1517	c.1279C>T	c.(1279-1281)CCT>TCT	p.P427S	SBNO2_uc002lrj.3_Missense_Mutation_p.P370S|SBNO2_uc010dse.2_Missense_Mutation_p.P420S|SBNO2_uc010xgj.1_Missense_Mutation_p.P370S|SBNO2_uc010dsf.2_Missense_Mutation_p.P370S	NM_014963	NP_055778	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 isoform 1	427					macrophage activation involved in immune response|negative regulation of transcription, DNA-dependent|regulation of inflammatory response|transcription, DNA-dependent						0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATGTTCCGAGGCTCAGAGGCA	0.637													4	4					0	0	0.009096	0	0		A	1119609	A	A	1119609	3	1	15	1	0	0	0	0	1	0	0	0	13888	1203	42	2	2901	2	SBNO2	19	1119609	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08		1119609	58009374	677	11511											
JSRP1	126306	broad.mit.edu	37	chr19	2255302	2255302	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcctcccaggctctggtTgtcatggacatggctggagc	6	10	13	12	0	2	0	1	0	1	0	4	2	4	2	2	5	2	4	2	5	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:2255302T>A	uc002lvi.1	-	1	47	c.12A>T	c.(10-12)ACA>ACT	p.T4T	JSRP1_uc002lvj.1_Silent_p.T4T	NM_144616	NP_653217	Q96MG2	JSPR1_HUMAN	junctional sarcoplasmic reticulum protein 1	4	Mediates interaction with CACNA1S (By similarity).					sarcoplasmic reticulum membrane				pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGCTCTGGTTGTCATGGACA	0.657													4	6					0	0	0.00308	0	0		A	2255302	A	A	2255302	2	1	15	1	0	0	0	0	0	0	0	1	7982	1799	63	5		5	JSRP1	19	2255302	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1135693	2255302	56873681	678	11512											
FZR1	51343	broad.mit.edu	37	chr19	3527034	3527034	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaacgatgtgtctccctaCtccctgtctcccgtcagcaa	7	10	8	16	2	3	0	1	0	2	0	6	1	4	0	3	1	3	2	3	1	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:3527034C>G	uc010dtk.2	+	5	478	c.444C>G	c.(442-444)TAC>TAG	p.Y148*	FZR1_uc002lxt.2_Nonsense_Mutation_p.Y148*|FZR1_uc002lxv.2_Intron	NM_001136198	NP_001129670	Q9UM11	FZR_HUMAN	Fzr1 protein isoform 1	148					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|DNA repair|G2/M transition DNA damage checkpoint|mitosis|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	protein binding			lung(1)|kidney(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		TGTCTCCCTACTCCCTGTCTC	0.647													7	51					0	0	0.006214	0	0		G	3527034	G	G	3527034	4	3	15	1	0	0	0	0	0	1	0	0	6152	576	20	5	462	5	FZR1	19	3527034	Nonsense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1271732	3527034	55601949	679	11513											
PTPRS	5802	broad.mit.edu	37	chr19	5286136	5286136	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacagacaccatgccagggcCccaggtgggcgccatgcttg	8	5	13	15	1	0	1	0	0	0	1	0	1	0	1	5	3	2	1	5	3	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:5286136C>A	uc002mbv.2	-	2	250	c.16G>T	c.(16-18)GGC>TGC	p.G6C	PTPRS_uc002mbu.1_Missense_Mutation_p.G6C|PTPRS_uc010xin.1_Missense_Mutation_p.G6C|PTPRS_uc002mbw.2_Missense_Mutation_p.G6C|PTPRS_uc002mbx.2_Missense_Mutation_p.G6C|PTPRS_uc002mby.2_Missense_Mutation_p.G6C|PTPRS_uc002mbz.1_Missense_Mutation_p.G6C	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	6					cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		ATGCCAGGGCCCCAGGTGGGC	0.667													10	13					3.86212e-05	4.22078e-05	0.008291	1	0		A	5286136	A	A	5286136	3	1	15	1	0	0	0	0	1	0	0	0	12836	623	22	5	5978	5	PTPRS	19	5286136	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1759102	5286136	53842847	680	11514											
GTF2F1	2962	broad.mit.edu	37	chr19	6381412	6381412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cggggtgggtgccttcttctCctcctcctcctccttgtcct	0	15	9	17	1	2	0	0	0	2	0	8	0	7	0	7	3	1	0	7	3	0	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:6381412C>T	uc002meq.2	-	9	1261	c.976G>A	c.(976-978)GAG>AAG	p.E326K	GTF2F1_uc010xjb.1_Missense_Mutation_p.E147K|GTF2F1_uc010xjc.1_Missense_Mutation_p.E241K	NM_002096	NP_002087	P35269	T2FA_HUMAN	general transcription factor IIF, polypeptide 1,	326	Glu-rich.				mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|response to virus|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cell junction|transcription factor TFIIF complex	catalytic activity|DNA binding|phosphatase activator activity|transcription coactivator activity|transcription factor binding				0						Gccttcttctcctcctcctcc	0.542													7	12					0	0	0.00308	0	0		T	6381412	T	T	6381412	3	4	15	1	0	0	0	0	1	0	0	0	6874	864	30	4	597	4	GTF2F1	19	6381412	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1095276	6381412	52747571	681	11515											
ARHGEF18	23370	broad.mit.edu	37	chr19	7518449	7518449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtcagtgagtgtgagaaggGccagcgcctcagggagatcg	9	6	18	8	2	2	3	2	2	0	2	3	5	2	3	2	3	1	0	2	3	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:7518449G>A	uc002mgi.2	+	7	1641	c.1388G>A	c.(1387-1389)GGC>GAC	p.G463D	ARHGEF18_uc010xjm.1_Missense_Mutation_p.G305D|ARHGEF18_uc002mgh.2_Missense_Mutation_p.G305D|ARHGEF18_uc002mgj.1_Missense_Mutation_p.G106D	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	463					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				TGTGAGAAGGGCCAGCGCCTC	0.552													33	50					0	0	0.013726	0	0		A	7518449	A	A	7518449	3	1	15	1	0	0	0	0	1	0	0	0	901	1203	42	2	1414	2	ARHGEF18	19	7518449	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1137037	7518449	51610534	682	11516											
MCOLN1	57192	broad.mit.edu	37	chr19	7598461	7598461	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcaggcctacatcgcacAgtgccaggacagccccacct	9	5	10	17	1	0	0	0	0	0	0	1	1	0	1	5	2	4	3	5	2	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:7598461A>G	uc002mgo.2	+	13	1753	c.1628A>G	c.(1627-1629)CAG>CGG	p.Q543R	PNPLA6_uc002mgq.1_5'Flank|PNPLA6_uc010xjp.1_5'Flank|PNPLA6_uc002mgr.1_5'Flank|PNPLA6_uc010xjq.1_5'Flank|PNPLA6_uc002mgs.2_5'Flank|MCOLN1_uc002mgp.2_Missense_Mutation_p.Q508R	NM_020533	NP_065394	Q9GZU1	MCLN1_HUMAN	mucolipin 1	543					calcium ion transport|cellular iron ion homeostasis|transferrin transport	integral to plasma membrane|late endosome membrane|lysosomal membrane	cation channel activity|iron ion transmembrane transporter activity			breast(1)	1						TACATCGCACAGTGCCAGGAC	0.692													6	10					0	0	0.004482	0	0		G	7598461	G	G	7598461	3	3	15	1	0	0	0	0	1	0	0	0	9413	188	7	3	1678	3	MCOLN1	19	7598461	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	80012	7598461	51530522	683	11517											
CLEC4M	10332	broad.mit.edu	37	chr19	7830544	7830544	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccaaggtccccagctccCtaagtcaggaacaatccgag	11	7	9	14	1	1	0	1	0	0	0	5	2	5	1	5	2	2	1	5	2	4	1	rs147993793	byFrequency	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:7830544C>A	uc002mih.2	+	4	353	c.235C>A	c.(235-237)CTA>ATA	p.L79I	CLEC4M_uc010xjv.1_Missense_Mutation_p.L51I|CLEC4M_uc002mhy.2_Missense_Mutation_p.L23I|CLEC4M_uc010xjw.1_Missense_Mutation_p.L58I|CLEC4M_uc010dvt.2_Missense_Mutation_p.L79I|CLEC4M_uc010dvs.2_Missense_Mutation_p.L78I|CLEC4M_uc010xjx.1_Missense_Mutation_p.L51I|CLEC4M_uc002mhz.2_Missense_Mutation_p.L79I|CLEC4M_uc002mic.2_Missense_Mutation_p.L51I|CLEC4M_uc002mia.2_Missense_Mutation_p.L58I	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	79	Extracellular (Probable).				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						CCCCAGCTCCCTAAGTCAGGA	0.363													5	97					5.9392e-07	6.63348e-07	0.001168	1	0		A	7830544	A	A	7830544	3	1	15	1	0	0	0	0	1	0	0	0	3521	680	24	5	270	5	CLEC4M	19	7830544	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	232083	7830544	51298439	684	11518											
TIMM44	10469	broad.mit.edu	37	chr19	7998751	7998751	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacgggctggtacctactcGtttggctcaaacactttctc	7	12	8	14	2	2	0	1	0	1	0	4	0	2	0	2	3	3	4	2	3	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:7998751G>A	uc002miz.2	-	6	683	c.681C>T	c.(679-681)AAC>AAT	p.N227N	TIMM44_uc002mja.2_Translation_Start_Site|TIMM44_uc010dvx.1_RNA	NM_006351	NP_006342	O43615	TIM44_HUMAN	translocase of inner mitochondrial membrane 44	227					protein targeting to mitochondrion	mitochondrial inner membrane presequence translocase complex|mitochondrial matrix	ATP binding|P-P-bond-hydrolysis-driven protein transmembrane transporter activity			ovary(1)	1						GTACCTACTCGTTTGGCTCAA	0.592													20	39					0	0	0.007413	0	0		A	7998751	A	A	7998751	2	1	15	1	0	0	0	0	0	0	0	1	15937	1136	40	1		1	TIMM44	19	7998751	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	168207	7998751	51130232	685	11519											
FBN3	84467	broad.mit.edu	37	chr19	8176624	8176624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcacctcttgggctgcacCggtgctcctgggagacgcat	6	9	13	13	2	2	1	1	0	1	1	3	2	3	1	3	3	2	4	3	3	0	1	rs143347714		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:8176624C>T	uc002mjf.2	-	31	4013	c.3992G>A	c.(3991-3993)CGG>CAG	p.R1331Q		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1331	EGF-like 20; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						TGGGCTGCACCGGTGCTCCTG	0.617													11	21					0	0	0.001855	0	0		T	8176624	T	T	8176624	3	4	15	1	0	0	0	0	1	0	0	0	5718	652	23	1	4569	1	FBN3	19	8176624	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	177873	8176624	50952359	686	11520											
ZNF699	374879	broad.mit.edu	37	chr19	9406969	9406969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttgaggactcgctgaaggCcttcccacactctttacatt	8	14	7	12	1	1	2	0	2	1	0	3	3	2	3	2	2	1	1	2	2	2	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:9406969C>T	uc002mlc.1	-	5	1111	c.1111G>A	c.(1111-1113)GCC>ACC	p.A371T		NM_198535	NP_940937	Q32M78	ZN699_HUMAN	zinc finger protein 699	371	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCGCTGAAGGCCTTCCCACAC	0.433													24	36					0	0	0.00333	0	0		T	9406969	T	T	9406969	3	4	15	1	0	0	0	0	1	0	0	0	18126	739	26	2	821	2	ZNF699	19	9406969	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1230345	9406969	49722014	687	11521											
TYK2	7297	broad.mit.edu	37	chr19	10463629	10463629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggctgtccccatcctcgCgcacgcggtagtactcgtgg	4	8	14	15	6	0	0	0	0	0	0	4	0	2	0	3	4	1	4	3	4	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:10463629C>T	uc002moc.3	-	22	3551	c.3173G>A	c.(3172-3174)CGC>CAC	p.R1058H	TYK2_uc010dxe.2_Missense_Mutation_p.R873H	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	1058	Protein kinase 2.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			CCCATCCTCGCGCACGCGGTA	0.657													15	17					0	0	0.003163	0	0		T	10463629	T	T	10463629	3	4	15	1	0	0	0	0	1	0	0	0	16836	768	27	1	406	1	TYK2	19	10463629	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1056660	10463629	48665354	688	11522											
KANK2	25959	broad.mit.edu	37	chr19	11304155	11304155	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacctgctcctccagctGccgcagcttccgcagggcac	5	8	9	19	2	1	0	1	0	0	0	4	0	4	0	5	1	4	6	5	1	0	2	rs148328896	byFrequency	TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:11304155G>T	uc010dxv.2	-	6	1159	c.601C>A	c.(601-603)CAG>AAG	p.Q201K	KANK2_uc002mqm.2_Missense_Mutation_p.Q201K|KANK2_uc002mqo.3_Missense_Mutation_p.Q201K|KANK2_uc002mqp.1_Missense_Mutation_p.Q10K|KANK2_uc002mqq.2_Missense_Mutation_p.Q201K	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	201	Potential.										0						TCCTCCAGCTGCCGCAGCTTC	0.637													9	6					9.70103e-10	1.10135e-09	0.008291	1	0		T	11304155	T	T	11304155	3	4	15	1	0	0	0	0	1	0	0	0	7993	1328	46	5	2018	5	KANK2	19	11304155	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	840526	11304155	47824828	689	11523											
RGL3	57139	broad.mit.edu	37	chr19	11508219	11508219	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggagggggattcgagggcTgcccagaggcaaagcgaagg	10	3	20	8	3	0	1	0	0	0	1	1	5	0	3	1	6	2	2	1	6	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:11508219T>G	uc002mrp.2	-	17	1865	c.1801A>C	c.(1801-1803)AGC>CGC	p.S601R	RGL3_uc002mrn.2_Missense_Mutation_p.S365R|RGL3_uc002mrm.2_Missense_Mutation_p.S365R|RGL3_uc002mro.2_Missense_Mutation_p.S607R	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	601	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						ATTCGAGGGCTGCCCAGAGGC	0.652													10	13					0	0	0.008291	0	0		G	11508219	G	G	11508219	3	3	15	1	0	0	0	0	1	0	0	0	13303	1580	55	5	343	5	RGL3	19	11508219	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	204064	11508219	47620764	690	11524											
ZNF442	79973	broad.mit.edu	37	chr19	12460790	12460790	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttctctccagtgtgaaTcctttcatggacttttaagt	7	17	8	9	0	2	1	1	1	1	0	5	2	4	2	2	2	0	1	2	2	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:12460790T>A	uc002mtr.1	-	6	2220	c.1609A>T	c.(1609-1611)ATT>TTT	p.I537F	ZNF442_uc010xmk.1_Missense_Mutation_p.I468F	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	537	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						CCAGTGTGAATCCTTTCATGG	0.388													28	43					0	0	0.00632	0	0		A	12460790	A	A	12460790	3	1	15	1	0	0	0	0	1	0	0	0	17940	1435	50	5	278	5	ZNF442	19	12460790	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	952571	12460790	46668193	691	11525											
C19orf57	79173	broad.mit.edu	37	chr19	14000035	14000035	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgaagtcagaggcgtccAgggcatcctgtatctggctg	7	10	13	11	2	2	1	1	0	1	1	5	2	4	1	2	3	0	3	2	3	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:14000035A>G	uc002mxl.1	-	6	1693	c.1634T>C	c.(1633-1635)CTG>CCG	p.L545P	C19orf57_uc002mxk.1_Missense_Mutation_p.L427P|C19orf57_uc002mxm.1_Intron	NM_024323	NP_077299	Q0VDD7	CS057_HUMAN	hypothetical protein LOC79173	545					multicellular organismal development		protein binding			ovary(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			AGAGGCGTCCAGGGCATCCTG	0.612													7	14					0	0	0.006214	0	0		G	14000035	G	G	14000035	3	3	15	1	0	0	0	0	1	0	0	0	1942	188	7	3	291	3	C19orf57	19	14000035	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1539245	14000035	45128948	692	11526											
OR7C1	26664	broad.mit.edu	37	chr19	14910600	14910600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcggtcataggccatcaCggtcaagagtaaattgtcca	13	8	11	9	2	3	1	3	0	0	1	4	2	4	1	2	3	1	1	2	3	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:14910600C>T	uc010xnz.1	-	1	349	c.349G>A	c.(349-351)GTG>ATG	p.V117M		NM_198944	NP_945182	O76099	OR7C1_HUMAN	olfactory receptor, family 7, subfamily C,	117	Helical; Name=3; (Potential).				sensory perception of smell|spermatogenesis	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						TAGGCCATCACGGTCAAGAGT	0.483													30	57					0	0	0.008361	0	0		T	14910600	T	T	14910600	3	4	15	1	0	0	0	0	1	0	0	0	11236	536	19	1	615	1	OR7C1	19	14910600	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	910565	14910600	44218383	693	11527											
ANO8	57719	broad.mit.edu	37	chr19	17438659	17438659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaacgtagccgaactgcaCgaacatctcctggtagtcct	11	8	8	14	3	1	0	0	0	1	0	3	2	2	0	3	1	5	3	3	1	5	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:17438659C>T	uc002ngf.2	-	14	2416	c.2257G>A	c.(2257-2259)GTG>ATG	p.V753M	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	753	Helical; (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						CCGAACTGCACGAACATCTCC	0.612													21	31					0	0	0.004656	0	0		T	17438659	T	T	17438659	3	4	15	1	0	0	0	0	1	0	0	0	703	536	19	1	1461	1	ANO8	19	17438659	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2528059	17438659	41690324	694	11528											
UNC13A	23025	broad.mit.edu	37	chr19	17759368	17759368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgtagcagtaggtgggcGtggtggccgtccacacttcg	6	9	15	11	4	0	0	0	0	0	0	3	0	1	0	2	4	1	3	2	4	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:17759368G>A	uc002nhd.2	-	16	1952	c.1952C>T	c.(1951-1953)ACG>ATG	p.T651M		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	563	Phorbol-ester/DAG-type.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						GTAGGTGGGCGTGGTGGCCGT	0.602													10	16					0	0	0.00499	0	0		A	17759368	A	A	17759368	3	1	15	1	0	0	0	0	1	0	0	0	17010	1145	40	1	3535	1	UNC13A	19	17759368	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	320709	17759368	41369615	695	11529											
WDR88	126248	broad.mit.edu	37	chr19	33647411	33647411	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactctgatgcagggccaTgaaggttctgtcagttcctg	7	12	13	9	0	3	3	1	3	2	0	4	3	4	3	2	2	1	3	2	2	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:33647411T>C	uc002nui.2	+	7	1038	c.960T>C	c.(958-960)CAT>CAC	p.H320H		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	320	WD 6.									ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					TGCAGGGCCATGAAGGTTCTG	0.488													33	47					0	0	0.004878	0	0		C	33647411	C	C	33647411	2	2	15	1	0	0	0	0	0	0	0	1	17361	1461	51	3		3	WDR88	19	33647411	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	15888043	33647411	25481572	696	11530											
MLL4	9757	broad.mit.edu	37	chr19	36223002	36223002	+	Frame_Shift_Del	DEL	G	-	-																															tcgccatcccggaggcccttGgggggtgtctcctttggccc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:36223002delG	uc010eei.2	+	28	5631	c.5631delG	c.(5629-5631)TTGfs	p.L1877fs		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1877					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGAGGCCCTTGGGGGGTGTCT	0.672													6	2	---	---	---	---						.	-	36223002	-	-	36223002	7	5	15	1	0	1	0	1	0	0	0	0	9641	1339	47	0	5737	0	MLL4	19	36223002	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	2575591	36223002	22905981	697	11531											
WDR62	284403	broad.mit.edu	37	chr19	36594075	36594075	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtcctcgctgcagggaaGgctgaagagaccctggaggc	9	5	16	11	1	0	2	0	1	0	1	2	5	1	4	2	5	1	3	2	5	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:36594075G>T	uc002odc.2	+	29	3556	c.3465G>T	c.(3463-3465)AAG>AAT	p.K1155N	WDR62_uc002odd.2_Missense_Mutation_p.K1160N	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	1155	WD 14.				cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CTGCAGGGAAGGCTGAAGAGA	0.662													13	18					3.35478e-16	3.91932e-16	0.003163	1	0		T	36594075	T	T	36594075	3	4	15	1	0	0	0	0	1	0	0	0	17339	991	35	5	3594	5	WDR62	19	36594075	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	371073	36594075	22534908	698	11532											
ZNF461	92283	broad.mit.edu	37	chr19	37130098	37130098	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattcccgacattcatagggTttctcaccagtatgaattct	10	14	6	11	1	3	1	2	1	2	0	5	2	4	1	2	1	0	2	2	1	3	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:37130098T>A	uc002oem.2	-	6	1377	c.1149A>T	c.(1147-1149)AAA>AAT	p.K383N	ZNF461_uc002oen.2_Missense_Mutation_p.K352N|ZNF461_uc010xtj.1_Missense_Mutation_p.K360N	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	383					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			ATTCATAGGGTTTCTCACCAG	0.398													13	85					0	0	0.00499	0	0		A	37130098	A	A	37130098	3	1	15	1	0	0	0	0	1	0	0	0	17950	1722	60	5	546	5	ZNF461	19	37130098	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	536023	37130098	21998885	699	11533											
ZNF568	374900	broad.mit.edu	37	chr19	37440970	37440970	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcatactggggagaaaccTtatgcatgtaaggattgttg	12	13	11	5	0	1	1	1	0	0	1	1	3	1	2	1	3	3	3	1	3	4	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:37440970T>G	uc002ofc.2	+	7	1430	c.915T>G	c.(913-915)CCT>CCG	p.P305P	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Silent_p.P229P|ZNF568_uc010efe.2_Silent_p.P229P|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	305					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GGGAGAAACCTTATGCATGTA	0.378													15	34					0	0	0.004007	0	0		G	37440970	G	G	37440970	2	3	15	1	0	0	0	0	0	0	0	1	18024	1596	56	5		5	ZNF568	19	37440970	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	310872	37440970	21688013	700	11534											
RYR1	6261	broad.mit.edu	37	chr19	39038982	39038982	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacatgttcctgaaactcaaGgacattgtgggctctgaagc	11	10	11	9	0	2	2	1	2	1	0	3	4	3	3	1	2	2	2	1	2	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:39038982G>T	uc002oit.2	+	89	12334	c.12204G>T	c.(12202-12204)AAG>AAT	p.K4068N	RYR1_uc002oiu.2_Missense_Mutation_p.K4063N|RYR1_uc002oiv.1_Missense_Mutation_p.K977N	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4068					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TGAAACTCAAGGACATTGTGG	0.537													27	43					7.26314e-15	8.41408e-15	0.007291	1	0		T	39038982	T	T	39038982	3	4	15	1	0	0	0	0	1	0	0	0	13793	991	35	5	12558	5	RYR1	19	39038982	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1598012	39038982	20090001	701	11535											
HNRNPL	3191	broad.mit.edu	37	chr19	39322070	39322070	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtctggggcttcaccgaGggctactccggaagcctcct	5	9	14	13	2	2	0	1	0	1	0	4	2	4	1	4	5	2	2	4	5	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:39322070G>T	uc002ojj.1	-	6	846	c.766C>A	c.(766-768)CTC>ATC	p.L256I	ECH1_uc002oji.2_Missense_Mutation_p.L47I|ECH1_uc010xuk.1_Missense_Mutation_p.L47I|HNRNPL_uc010ege.1_Intron	NM_001005335	NP_001005335	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	Error:Variant_position_missing_in_P14866_after_alignment					nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			GCTTCACCGAGGGCTACTCCG	0.577													21	18					1.50039e-11	1.71957e-11	0.012319	1	0		T	39322070	T	T	39322070	3	4	15	1	0	0	0	0	1	0	0	0	7286	1000	35	5		5	HNRNPL	19	39322070	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	283088	39322070	19806913	702	11536											
C19orf47	126526	broad.mit.edu	37	chr19	40828262	40828262	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtttctggggtggcccccaGgcggctgaagactcctgtgg	4	9	16	12	2	1	2	0	1	1	1	2	2	2	2	3	6	0	2	3	6	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:40828262G>T	uc002oni.3	-	9	797	c.796C>A	c.(796-798)CTG>ATG	p.L266M	C19orf47_uc002ong.2_Missense_Mutation_p.L125M|C19orf47_uc002onh.2_Missense_Mutation_p.L199M	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526	266										ovary(1)|skin(1)	2			Lung(22;0.000636)			GTGGCCCCCAGGCGGCTGAAG	0.542													8	6					0.000274275	0.000297723	0.004482	1	0		T	40828262	T	T	40828262	3	4	15	1	0	0	0	0	1	0	0	0	1933	991	35	5	476	5	C19orf47	19	40828262	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1506192	40828262	18300721	703	11537											
ZNF234	10780	broad.mit.edu	37	chr19	44661951	44661951	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggtgcacacaggagaaaaAccctatacatgtggggagtg	14	6	14	7	0	0	1	0	0	0	1	0	3	0	2	1	4	3	1	1	4	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:44661951A>C	uc002oym.2	+	6	2089	c.1782A>C	c.(1780-1782)AAA>AAC	p.K594N	ZNF234_uc002oyl.3_Missense_Mutation_p.K594N	NM_006630	NP_006621	Q14588	ZN234_HUMAN	zinc finger protein 234	594					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				CAGGAGAAAAACCCTATACAT	0.488													6	137					0	0	0.001168	0	0		C	44661951	C	C	44661951	3	2	15	1	0	0	0	0	1	0	0	0	17812	40	2	5	1796	5	ZNF234	19	44661951	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	3833689	44661951	14467032	704	11538											
SYMPK	8189	broad.mit.edu	37	chr19	46351244	46351244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagctcgctaatgacccGtgactttaccatccactgcc	8	11	7	15	2	0	2	0	2	0	0	2	2	1	2	4	0	3	3	4	0	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:46351244G>A	uc002pdn.2	-	7	687	c.442C>T	c.(442-444)CGG>TGG	p.R148W	SYMPK_uc002pdo.1_Missense_Mutation_p.R148W|SYMPK_uc002pdp.1_Missense_Mutation_p.R148W|SYMPK_uc002pdq.1_Missense_Mutation_p.R148W	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	148					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		CTAATGACCCGTGACTTTACC	0.547													10	15					0	0	0.008291	0	0		A	46351244	A	A	46351244	3	1	15	1	0	0	0	0	1	0	0	0	15464	1144	40	1	3466	1	SYMPK	19	46351244	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1689293	46351244	12777739	705	11539											
PGLYRP1	8993	broad.mit.edu	37	chr19	46522617	46522617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacctcagggctccctgaGccacaccgcaggccagtaga	9	5	12	15	1	1	2	1	1	0	1	2	3	2	3	5	3	1	3	5	3	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:46522617G>A	uc002pdx.1	-	3	514	c.470C>T	c.(469-471)GCT>GTT	p.A157V		NM_005091	NP_005082	O75594	PGRP1_HUMAN	peptidoglycan recognition protein 1 precursor	157					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region	bacterial cell surface binding|N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(2)	2		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.0036)|GBM - Glioblastoma multiforme(486;0.022)|Epithelial(262;0.208)		GGCTCCCTGAGCCACACCGCA	0.632													14	21					0	0	0.00245	0	0		A	46522617	A	A	46522617	3	1	15	1	0	0	0	0	1	0	0	0	11812	971	34	2	124	2	PGLYRP1	19	46522617	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	171373	46522617	12606366	706	11540											
PNMAL2	57469	broad.mit.edu	37	chr19	46998154	46998154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctcggcctcactcctcGcgggagcagacggccgtcct	5	7	12	17	5	1	1	1	0	0	1	6	2	4	2	5	3	1	1	5	3	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:46998154G>A	uc002pes.2	-	1	1016	c.569C>T	c.(568-570)GCG>GTG	p.A190V	uc002peu.1_Missense_Mutation_p.A89T	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	190										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		CTCACTCCTCGCGGGAGCAGA	0.647													13	21					0	0	0.012319	0	0		A	46998154	A	A	46998154	3	1	15	1	0	0	0	0	1	0	0	0	12177	1087	38	1	1342	1	PNMAL2	19	46998154	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	475537	46998154	12130829	707	11541											
CCDC114	93233	broad.mit.edu	37	chr19	48807230	48807230	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcttttcacgcttctccAggacatcgggatccggctgc	5	11	10	15	3	2	0	1	0	1	0	5	2	3	2	3	3	2	3	3	3	0	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:48807230A>G	uc002pir.2	-	7	1405	c.722T>C	c.(721-723)CTG>CCG	p.L241P	CCDC114_uc002piq.2_Missense_Mutation_p.L50P|CCDC114_uc002pio.2_Missense_Mutation_p.L278P|CCDC114_uc002pis.1_5'Flank|CCDC114_uc002pit.1_Missense_Mutation_p.L278P|CCDC114_uc002piu.1_Missense_Mutation_p.L278P	NM_144577	NP_653178	Q96M63	CC114_HUMAN	coiled-coil domain containing 114 isoform 2	241										ovary(1)	1		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000162)|Epithelial(262;0.0134)|GBM - Glioblastoma multiforme(486;0.0143)		ACGCTTCTCCAGGACATCGGG	0.642													17	30					0	0	0.00278	0	0		G	48807230	G	G	48807230	3	3	15	1	0	0	0	0	1	0	0	0	2754	188	7	3	1322	3	CCDC114	19	48807230	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1809076	48807230	10321753	708	11542											
TRPM4	54795	broad.mit.edu	37	chr19	49674945	49674945	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacactctggccccagggagTgggggagccaggcaaggcga	9	3	18	11	1	1	0	0	0	1	0	1	4	1	2	3	6	1	1	3	6	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:49674945T>C	uc002pmw.2	+	8	1041	c.969T>C	c.(967-969)AGT>AGC	p.S323S	TRPM4_uc010emu.2_Silent_p.S323S|TRPM4_uc010yak.1_5'UTR|TRPM4_uc002pmx.2_Silent_p.S149S|TRPM4_uc010emv.2_Silent_p.S208S|TRPM4_uc010yal.1_Silent_p.S40S	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	323	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		CCCCAGGGAGTGGGGGAGCCA	0.612													4	22					0	0	0.000602	0	0		C	49674945	C	C	49674945	2	2	15	1	0	0	0	0	0	0	0	1	16614	1693	59	3		3	TRPM4	19	49674945	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	867715	49674945	9454038	709	11543											
PTOV1	53635	broad.mit.edu	37	chr19	50363375	50363375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttgtcaacggcatccggCgtgtcattgccaaccagcag	9	9	10	13	3	2	0	2	0	0	0	3	0	3	0	3	2	4	2	3	2	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:50363375C>T	uc002pqf.1	+	11	1344	c.1174C>T	c.(1174-1176)CGT>TGT	p.R392C	PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Silent_p.G336G|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	392	Interaction with FLOT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		CGGCATCCGGCGTGTCATTGC	0.587													20	29					0	0	0.003954	0	0		T	50363375	T	T	50363375	3	4	15	1	0	0	0	0	1	0	0	0	12792	768	27	1	1216	1	PTOV1	19	50363375	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	688430	50363375	8765608	710	11544											
NUP62	23636	broad.mit.edu	37	chr19	50412513	50412513	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagggcaacgtggcaggTgccgtgggctgggctgaatt	7	8	19	7	2	0	2	0	2	0	0	0	2	0	2	1	5	2	4	1	5	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:50412513T>C	uc002pqx.2	-	2	656	c.552A>G	c.(550-552)GCA>GCG	p.A184A	IL4I1_uc002pqv.1_Intron|IL4I1_uc010eno.1_Intron|IL4I1_uc002pqw.1_Intron|IL4I1_uc002pqu.1_Intron|NUP62_uc002pqy.2_Silent_p.A184A|NUP62_uc002pqz.2_Silent_p.A184A|NUP62_uc002pra.2_Silent_p.A184A|NUP62_uc002prb.2_Silent_p.A184A|NUP62_uc002prc.2_Silent_p.A184A	NM_153719	NP_714941	P37198	NUP62_HUMAN	nucleoporin 62kDa	184	15 X 9 AA approximate repeats.|Ala-rich.|Thr-rich.				carbohydrate metabolic process|cell death|cell surface receptor linked signaling pathway|glucose transport|hormone-mediated signaling pathway|mRNA transport|negative regulation of apoptosis|negative regulation of cell proliferation|nucleocytoplasmic transport|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|protein transport|regulation of glucose transport|transcription, DNA-dependent|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleocytoplasmic shuttling complex|ribonucleoprotein complex|spindle pole	chromatin binding|protein serine/threonine kinase activity|receptor signaling complex scaffold activity|SH2 domain binding|structural constituent of nuclear pore|thyroid hormone receptor binding|ubiquitin binding				0		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00242)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		ACGTGGCAGGTGCCGTGGGCT	0.627													16	24					0	0	0.00499	0	0		C	50412513	C	C	50412513	2	2	15	1	0	0	0	0	0	0	0	1	10787	1683	59	3		3	NUP62	19	50412513	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	49138	50412513	8716470	711	11545											
VRK3	51231	broad.mit.edu	37	chr19	50491647	50491647	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctgtttttgcttcatgAtgtcctcagtgttgggaagg	6	17	11	7	0	3	1	2	1	1	0	4	2	4	2	1	2	1	3	1	2	1	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:50491647A>G	uc002prg.2	-	12	1297	c.1199T>C	c.(1198-1200)ATC>ACC	p.I400T	VRK3_uc002prh.1_Missense_Mutation_p.I400T|VRK3_uc002pri.1_Missense_Mutation_p.I350T|VRK3_uc010ens.2_Missense_Mutation_p.I400T|VRK3_uc010ybl.1_Missense_Mutation_p.I350T|VRK3_uc010ybm.1_Missense_Mutation_p.I169T|VRK3_uc002prj.1_Missense_Mutation_p.I350T|VRK3_uc002prk.1_Missense_Mutation_p.I400T|VRK3_uc010ent.1_Missense_Mutation_p.I156T|VRK3_uc002prl.2_Missense_Mutation_p.I400T	NM_016440	NP_057524	Q8IV63	VRK3_HUMAN	vaccinia related kinase 3 isoform 1	400	Protein kinase.					nucleus	ATP binding|protein kinase activity			stomach(1)|skin(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00166)|OV - Ovarian serous cystadenocarcinoma(262;0.00652)		TTGCTTCATGATGTCCTCAGT	0.582													4	100					0	0	0.009096	0	0		G	50491647	G	G	50491647	3	3	15	1	0	0	0	0	1	0	0	0	17247	333	12	3	237	3	VRK3	19	50491647	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	79134	50491647	8637336	712	11546											
NR1H2	7376	broad.mit.edu	37	chr19	50882025	50882025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaactgcagtgcaacaaacGctccttctccgaccagccca	11	6	6	18	2	1	0	0	0	1	0	3	1	2	0	5	0	6	3	5	0	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:50882025G>A	uc010enw.2	+	7	998	c.722G>A	c.(721-723)CGC>CAC	p.R241H	NR1H2_uc002prv.3_RNA|NR1H2_uc002prz.3_Missense_Mutation_p.R240H|NR1H2_uc002psa.3_Missense_Mutation_p.R143H	NM_007121	NP_009052	P55055	NR1H2_HUMAN	nuclear receptor subfamily 1, group H, member 2	240	Ligand-binding (Potential).				negative regulation of cholesterol storage|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of pinocytosis|negative regulation of transcription, DNA-dependent|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		TGCAACAAACGCTCCTTCTCC	0.617													33	28					0	0	0.003755	0	0		A	50882025	A	A	50882025	3	1	15	1	0	0	0	0	1	0	0	0	10636	1087	38	1	733	1	NR1H2	19	50882025	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	390378	50882025	8246958	713	11547											
FAM71E1	112703	broad.mit.edu	37	chr19	50970986	50970986	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgggtcttgagtggggcccGcagctgcaagtagaaggtgc	7	8	17	9	2	1	2	0	1	1	1	2	2	1	2	1	4	3	4	1	4	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:50970986G>A	uc002psh.2	-	4	998	c.640C>T	c.(640-642)CGG>TGG	p.R214W	FAM71E1_uc002psg.2_Missense_Mutation_p.R198W|FAM71E1_uc002psi.2_RNA	NM_138411	NP_612420	Q6IPT2	F71E1_HUMAN	hypothetical protein LOC112703	214										breast(1)	1		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.0077)|GBM - Glioblastoma multiforme(134;0.026)		AGTGGGGCCCGCAGCTGCAAG	0.597													3	2					0	0	0.004672	0	0		A	50970986	A	A	50970986	3	1	15	1	0	0	0	0	1	0	0	0	5625	1086	38	1	107	1	FAM71E1	19	50970986	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	88961	50970986	8157997	714	11548											
SHANK1	50944	broad.mit.edu	37	chr19	51165362	51165362	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtccaggaactgggctcGgtgctccgccaaacccagcc	7	6	13	15	2	0	0	0	0	0	0	3	1	2	1	5	4	4	2	5	4	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:51165362G>A	uc002psx.1	-	23	6365	c.6346C>T	c.(6346-6348)CGA>TGA	p.R2116*	SHANK1_uc002psw.1_Nonsense_Mutation_p.R1500*	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	2116	SAM.				cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		AACTGGGCTCGGTGCTCCGCC	0.632													13	16					0	0	0.013537	0	0		A	51165362	A	A	51165362	4	1	15	1	0	0	0	0	0	1	0	0	14289	1124	39	1	143	1	SHANK1	19	51165362	Nonsense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	194376	51165362	7963621	715	11549											
SHANK1	50944	broad.mit.edu	37	chr19	51190039	51190039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtccgctttttctccatgCtgggcaccggcgccggctgc	2	10	13	16	5	1	0	0	0	1	0	3	0	2	0	4	4	2	4	4	4	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:51190039C>T	uc002psx.1	-	19	2439	c.2420G>A	c.(2419-2421)AGC>AAC	p.S807N	SHANK1_uc002psw.1_Missense_Mutation_p.S191N	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	807					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		TTTCTCCATGCTGGGCACCGG	0.577													6	15					0	0	0.008291	0	0		T	51190039	T	T	51190039	3	4	15	1	0	0	0	0	1	0	0	0	14289	797	28	2	4085	2	SHANK1	19	51190039	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	24677	51190039	7938944	716	11550											
SHANK1	50944	broad.mit.edu	37	chr19	51191203	51191203	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgtgcactgcctcatccAtgtccgggtgcctggtgacc	4	12	11	14	1	2	1	1	1	1	0	4	1	4	1	5	2	3	1	5	2	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:51191203A>G	uc002psx.1	-	17	2304	c.2285T>C	c.(2284-2286)ATG>ACG	p.M762T	SHANK1_uc002psw.1_Missense_Mutation_p.M146T	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	762					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		TGCCTCATCCATGTCCGGGTG	0.637													15	27					0	0	0.00245	0	0		G	51191203	G	G	51191203	3	3	15	1	0	0	0	0	1	0	0	0	14289	217	8	3	4228	3	SHANK1	19	51191203	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1164	51191203	7937780	717	11551											
KLK1	3816	broad.mit.edu	37	chr19	51323227	51323227	+	Frame_Shift_Del	DEL	T	-	-																															gtcaccttctggacgtgggcTtttttgcactcatcattagg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:51323227delT	uc002ptk.1	-	4	600	c.561delA	c.(559-561)AAAfs	p.K187fs	KLK1_uc010ycg.1_RNA	NM_002257	NP_002248	P06870	KLK1_HUMAN	kallikrein 1 preproprotein	187	Peptidase S1.				proteolysis	nucleus	serine-type endopeptidase activity				0		all_neural(266;0.0199)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00399)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGACGTGGGCTTTTTTGCACT	0.557													17	30	---	---	---	---						.	-	51323227	-	-	51323227	7	5	15	1	0	1	0	1	0	0	0	0	8413	1606	56	0	235	0	KLK1	19	51323227	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	132024	51323227	7805756	718	11552											
SIGLEC6	946	broad.mit.edu	37	chr19	52034212	52034212	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgttgggcctgtgggtcagGgctggtgaggagatggggac	6	9	21	5	0	1	2	1	1	0	1	1	4	1	3	1	7	0	2	1	7	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:52034212G>T	uc002pwy.2	-	3	591	c.429C>A	c.(427-429)GCC>GCA	p.A143A	SIGLEC6_uc002pwz.2_Silent_p.A143A|SIGLEC6_uc002pxa.2_Silent_p.A143A|SIGLEC6_uc010ydb.1_Silent_p.A96A|SIGLEC6_uc010ydc.1_Silent_p.A132A|SIGLEC6_uc010eoz.1_Intron|SIGLEC6_uc010epb.1_Silent_p.A96A|SIGLEC6_uc010epa.1_Silent_p.A132A	NM_001245	NP_001236	O43699	SIGL6_HUMAN	sialic acid binding Ig-like lectin 6 isoform 1	143	Extracellular (Potential).				cell adhesion|cell-cell signaling	cytoplasm|extracellular region|integral to plasma membrane|membrane fraction|nucleus				ovary(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00115)|OV - Ovarian serous cystadenocarcinoma(262;0.0165)		TGTGGGTCAGGGCTGGTGAGG	0.622													26	50					1.38854e-25	1.65834e-25	0.008361	1	0		T	52034212	T	T	52034212	2	4	15	1	0	0	0	0	0	0	0	1	14337	1246	43	5		5	SIGLEC6	19	52034212	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	710985	52034212	7094771	719	11553											
ZNF766	90321	broad.mit.edu	37	chr19	52794408	52794408	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggcacagttcatggtttgTacagcatcagagaagtgttc	11	12	11	7	0	2	1	2	0	0	1	3	2	2	1	0	2	2	6	0	2	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:52794408T>C	uc002pyr.1	+	4	1407	c.1364T>C	c.(1363-1365)GTA>GCA	p.V455A	ZNF766_uc002pys.1_3'UTR|ZNF766_uc002pyt.1_Intron	NM_001010851	NP_001010851	Q5HY98	ZN766_HUMAN	zinc finger protein 766	455	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00236)|OV - Ovarian serous cystadenocarcinoma(262;0.00871)		TCATGGTTTGTACAGCATCAG	0.408													6	161					0	0	0.001168	0	0		C	52794408	C	C	52794408	3	2	15	1	0	0	0	0	1	0	0	0	18165	1638	57	3	1378	3	ZNF766	19	52794408	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	760196	52794408	6334575	720	11554											
ZNF808	388558	broad.mit.edu	37	chr19	53057126	53057126	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccttacaagtgtaatgaGtgtggcaaggtctttcgtca	12	12	10	7	1	2	1	1	1	1	0	3	1	2	1	1	2	2	2	1	2	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:53057126G>A	uc010epq.1	+	5	1134	c.957G>A	c.(955-957)GAG>GAA	p.E319E	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	319	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		AGTGTAATGAGTGTGGCAAGG	0.388													6	133					0	0	0.001168	0	0		A	53057126	A	A	53057126	2	1	15	1	0	0	0	0	0	0	0	1	18198	1020	36	4		4	ZNF808	19	53057126	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	262718	53057126	6071857	721	11555											
NLRP12	91662	broad.mit.edu	37	chr19	54314476	54314476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgacacattcccctaggCgcgcattgcggtcttccatg	6	11	11	13	3	1	1	0	1	1	0	3	1	3	1	3	3	1	2	3	3	1	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:54314476C>T	uc002qch.3	-	3	657	c.437G>A	c.(436-438)CGC>CAC	p.R146H	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Missense_Mutation_p.R146H|NLRP12_uc002qcj.3_Missense_Mutation_p.R146H|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.R146H	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	146					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		TTCCCCTAGGCGCGCATTGCG	0.567													13	86					0	0	0.013537	0	0		T	54314476	T	T	54314476	3	4	15	1	0	0	0	0	1	0	0	0	10493	768	27	1	2876	1	NLRP12	19	54314476	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1257350	54314476	4814507	722	11556											
GP6	51206	broad.mit.edu	37	chr19	55530055	55530055	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttgtgaatgagacggtcAgttcagcggtggcttctgag	7	12	15	7	3	3	3	2	3	1	1	3	4	3	3	0	3	1	3	0	3	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:55530055A>G	uc002qik.2	-	6	717	c.689T>C	c.(688-690)CTG>CCG	p.L230P	GP6_uc002qil.2_Missense_Mutation_p.L230P|GP6_uc010esq.2_Missense_Mutation_p.L212P	NM_016363	NP_057447	Q9HCN6	GPVI_HUMAN	glycoprotein VI (platelet) isoform 2	230	Extracellular (Potential).				enzyme linked receptor protein signaling pathway|leukocyte migration|platelet activation	integral to plasma membrane	collagen binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.156)	GBM - Glioblastoma multiforme(193;0.0515)		TGAGACGGTCAGTTCAGCGGT	0.458													36	74					0	0	0.009718	0	0		G	55530055	G	G	55530055	3	3	15	1	0	0	0	0	1	0	0	0	6599	188	7	3	1185	3	GP6	19	55530055	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1215579	55530055	3598928	723	11557											
BRSK1	84446	broad.mit.edu	37	chr19	55812988	55812988	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattgccagagcctcctgAggggaatgatcgaagtggag	11	7	15	8	1	0	4	0	2	0	2	2	7	1	6	3	3	2	0	3	3	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:55812988A>G	uc002qkg.2	+	8	1064	c.787A>G	c.(787-789)AGG>GGG	p.R263G	BRSK1_uc002qkf.2_Missense_Mutation_p.R279G|BRSK1_uc002qkh.2_5'Flank	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	263	Protein kinase.				establishment of cell polarity|G2/M transition DNA damage checkpoint|neuron differentiation|response to UV	cell junction|cytoplasm|nucleus	magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|lung(1)|breast(1)|skin(1)	6		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0474)		GAGCCTCCTGAGGGGAATGAT	0.597													6	13					0	0	0.001984	0	0		G	55812988	G	G	55812988	3	3	15	1	0	0	0	0	1	0	0	0	1526	295	11	3	817	3	BRSK1	19	55812988	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	282933	55812988	3315995	724	11558											
ZIM3	114026	broad.mit.edu	37	chr19	57646555	57646555	+	Frame_Shift_Del	DEL	T	-	-																															gggcttttccccagtatggaTttttttatgttgaatgaggt																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr19:57646555delT	uc002qnz.1	-	5	1536	c.1150delA	c.(1150-1152)ATCfs	p.I384fs		NM_052882	NP_443114	Q96PE6	ZIM3_HUMAN	zinc finger, imprinted 3	384	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.243)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CCAGTATGGATTTTTTTATGT	0.388													53	92	---	---	---	---						.	-	57646555	-	-	57646555	7	5	15	1	0	1	0	1	0	0	0	0	17710	1493	52	0	272	0	ZIM3	19	57646555	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	1833567	57646555	1482428	725	11559											
SIGLEC1	6614	broad.mit.edu	37	chr20	3686656	3686656	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccctcgagaagctccacCggggaggcaatggtgggcac	8	5	16	12	2	0	1	0	0	0	1	2	3	1	2	3	5	2	3	3	5	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:3686656C>T	uc002wja.2	-	3	441	c.441G>A	c.(439-441)CCG>CCA	p.P147P	SIGLEC1_uc002wiz.3_Silent_p.P147P|SIGLEC1_uc002wjc.2_Silent_p.P58P	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	147	Ig-like C2-type 1.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						GAAGCTCCACCGGGGAGGCAA	0.632													15	54					0	0	0.006122	0	0		T	3686656	T	T	3686656	2	4	15	1	0	0	0	0	0	0	0	1	14330	639	23	1		1	SIGLEC1	20	3686656	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08		3686656	59338864	726	11560											
ADRA1D	146	broad.mit.edu	37	chr20	4202221	4202221	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcggccaattcgtaggcctgGcaggtggcgccctcggccac	5	7	14	15	4	0	0	0	0	0	0	3	0	0	0	4	6	0	2	4	6	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:4202221G>A	uc002wkr.2	-	2	1723	c.1668C>T	c.(1666-1668)TGC>TGT	p.C556C		NM_000678	NP_000669	P25100	ADA1D_HUMAN	alpha-1D-adrenergic receptor	556	Cytoplasmic (By similarity).			KPPSAFREWRLLGPFRRPTTQLRAKVSSLSHKIRAGGAQRA EAACAQRSEVEAVSLGVPHEVAEGATCQAYELADYSNLRET DI -> SHPAPSASGGCWGRSGDPRPSCAPKSPACRTRSPP GARSAQRQRAPSAQRWRLCP (in Ref. 1).	cell proliferation|cell-cell signaling|DNA metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|multicellular organismal development|positive regulation of cell proliferation	integral to plasma membrane	alpha1-adrenergic receptor activity				0					Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Methotrimeprazine(DB01403)|Norepinephrine(DB00368)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)	CGTAGGCCTGGCAGGTGGCGC	0.687													17	25					0	0	0.008871	0	0		A	4202221	A	A	4202221	2	1	15	1	0	0	0	0	0	0	0	1	336	1195	42	2		2	ADRA1D	20	4202221	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	515565	4202221	58823299	727	11561											
CHGB	1114	broad.mit.edu	37	chr20	5904215	5904215	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaattatctcaactacggTgaggaaggagccccagggaa	15	6	12	8	1	1	2	1	1	1	1	2	5	1	5	2	4	3	0	2	4	6	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:5904215T>C	uc002wmg.2	+	4	1731	c.1425T>C	c.(1423-1425)GGT>GGC	p.G475G	CHGB_uc010zqz.1_Silent_p.G158G	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	475						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						TCAACTACGGTGAGGAAGGAG	0.512													7	123					0	0	0.004482	0	0		C	5904215	C	C	5904215	2	2	15	1	0	0	0	0	0	0	0	1	3342	1683	59	3		3	CHGB	20	5904215	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1701994	5904215	57121305	728	11562											
BTBD3	22903	broad.mit.edu	37	chr20	11898985	11898985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttgatgcttccagagaCggtaaagaacaggtccaaga	13	9	10	9	1	1	4	0	1	1	3	3	5	3	4	2	2	2	2	2	2	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:11898985C>T	uc002wnz.2	+	1	421	c.62C>T	c.(61-63)ACG>ATG	p.T21M	BTBD3_uc002wny.2_Translation_Start_Site|BTBD3_uc002woa.2_Translation_Start_Site|BTBD3_uc010zrf.1_Translation_Start_Site|BTBD3_uc010zrg.1_5'Flank|BTBD3_uc010zrh.1_5'Flank	NM_014962	NP_055777	Q9Y2F9	BTBD3_HUMAN	BTB/POZ domain containing protein 3 isoform a	21										ovary(2)|central_nervous_system(1)	3						CTTCCAGAGACGGTAAAGAAC	0.333													119	297					0	0	0.01441	0	0		T	11898985	T	T	11898985	3	4	15	1	0	0	0	0	1	0	0	0	1547	536	19	1	64	1	BTBD3	20	11898985	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5994770	11898985	51126535	729	11563											
DTD1	92675	broad.mit.edu	37	chr20	18608856	18608856	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcgccagctcccggcacTgctacctctgacccaaagca	10	6	8	17	2	1	1	0	1	1	0	3	2	2	1	4	1	4	4	4	1	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:18608856T>C	uc002wrf.3	+	4	617	c.456T>C	c.(454-456)ACT>ACC	p.T152T		NM_080820	NP_543010	Q8TEA8	DTD1_HUMAN	D-tyrosyl-tRNA deacylase 1	152					D-amino acid catabolic process	cytoplasm	hydrolase activity, acting on ester bonds			ovary(2)	2						CTCCCGGCACTGCTACCTCTG	0.562													7	35					0	0	0.00308	0	0		C	18608856	C	C	18608856	2	2	15	1	0	0	0	0	0	0	0	1	4792	1567	55	3		3	DTD1	20	18608856	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	6709871	18608856	44416664	730	11564											
GZF1	64412	broad.mit.edu	37	chr20	23345800	23345800	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtgggggactacaggtgTccccaggaccaaagcccgga	10	5	15	11	1	0	0	0	0	0	0	1	4	1	3	4	5	2	0	4	5	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:23345800T>C	uc010gdb.2	+	3	954	c.780T>C	c.(778-780)TGT>TGC	p.C260C	GZF1_uc002wsy.2_Silent_p.C260C|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Silent_p.C260C	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	260					transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					ACTACAGGTGTCCCCAGGACC	0.532													5	88					0	0	0.000602	0	0		C	23345800	C	C	23345800	2	2	15	1	0	0	0	0	0	0	0	1	6930	1673	58	3		3	GZF1	20	23345800	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	4736944	23345800	39679720	731	11565											
ACSS1	84532	broad.mit.edu	37	chr20	24993453	24993453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcctgtgctcacgatggCgtcctcaatctctgcggtcc	5	10	10	16	3	3	0	2	0	1	0	6	1	5	0	4	2	3	1	4	2	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:24993453C>T	uc002wub.2	-	11	2580	c.1702G>A	c.(1702-1704)GCC>ACC	p.A568T	ACSS1_uc002wuc.2_Missense_Mutation_p.A566T|ACSS1_uc010gdc.2_Missense_Mutation_p.A363T|ACSS1_uc002wud.1_RNA|ACSS1_uc002wua.2_Missense_Mutation_p.A485T	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	568					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CTCACGATGGCGTCCTCAATC	0.607													24	52					0	0	0.003954	0	0		T	24993453	T	T	24993453	3	4	15	1	0	0	0	0	1	0	0	0	188	768	27	1	383	1	ACSS1	20	24993453	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1647653	24993453	38032067	732	11566											
TPX2	22974	broad.mit.edu	37	chr20	30345300	30345300	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtcacaagttaaaagctcTtattcctatgatgccccctc	11	13	5	12	0	2	1	1	1	1	0	4	1	3	1	3	0	2	2	3	0	5	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:30345300T>G	uc002wwp.1	+	3	719	c.21T>G	c.(19-21)TCT>TCG	p.S7S	TPX2_uc010gdv.1_Silent_p.S7S	NM_012112	NP_036244	Q9ULW0	TPX2_HUMAN	TPX2, microtubule-associated protein homolog	7					activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2			Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)			TTAAAAGCTCTTATTCCTATG	0.413													19	101					0	0	0.014323	0	0		G	30345300	G	G	30345300	2	3	15	1	0	0	0	0	0	0	0	1	16458	1596	56	5		5	TPX2	20	30345300	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	5351847	30345300	32680220	733	11567											
MYLK2	85366	broad.mit.edu	37	chr20	30411335	30411335	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcatggtggagctgaggacCgggaatgtcagcagtgaatt	10	8	16	7	2	1	2	1	2	0	0	1	5	1	5	1	4	2	3	1	4	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:30411335C>T	uc002wwq.2	+	5	930	c.828C>T	c.(826-828)ACC>ACT	p.T276T		NM_033118	NP_149109	Q9H1R3	MYLK2_HUMAN	skeletal myosin light chain kinase	276					cardiac muscle tissue morphogenesis|regulation of muscle filament sliding		ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			lung(2)|skin(2)|ovary(1)|central_nervous_system(1)	6			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			AGCTGAGGACCGGGAATGTCA	0.627											OREG0025856	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	99					0	0	0.00623	0	0		T	30411335	T	T	30411335	2	4	15	1	0	0	0	0	0	0	0	1	10075	639	23	1		1	MYLK2	20	30411335	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	66035	30411335	32614185	734	11568											
SUN5	140732	broad.mit.edu	37	chr20	31577498	31577498	+	Frame_Shift_Del	DEL	T	-	-																															cttcattattttctgggccaTtttttgctgaaaaggcagaa																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:31577498delT	uc002wyi.2	-	9	634	c.541delA	c.(541-543)ATGfs	p.M181fs		NM_080675	NP_542406	Q8TC36	SUN5_HUMAN	sperm associated antigen 4-like	181	Potential.				spermatogenesis					skin(1)	1						TTCTGGGCCATTTTTTGCTGA	0.507													30	61	---	---	---	---						.	-	31577498	-	-	31577498	7	5	15	1	0	1	0	1	0	0	0	0	15419	1493	52	0	618	0	SUN5	20	31577498	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	1166163	31577498	31448022	735	11569											
SAMHD1	25939	broad.mit.edu	37	chr20	35521337	35521337	+	Nonstop_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaactgactacagacattcAcattgggtcatctttaaaaa	16	11	5	9	0	3	2	2	1	1	1	3	2	3	2	0	1	2	0	0	1	5	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:35521337A>C	uc002xgh.1	-	16	2009	c.1879T>G	c.(1879-1881)TGA>GGA	p.*627G	C20orf118_uc002xgg.1_3'UTR|SAMHD1_uc010gft.1_RNA	NM_015474	NP_056289	Q9Y3Z3	SAMH1_HUMAN	SAM domain- and HD domain-containing protein 1	627					defense response to virus|innate immune response|regulation of innate immune response	nucleus	metal ion binding|phosphoric diester hydrolase activity				0		Myeloproliferative disorder(115;0.00878)				ACAGACATTCACATTGGGTCA	0.393													34	106					0	0	0.004289	0	0		C	35521337	C	C	35521337	4	2	15	1	0	0	0	0	0	0	0	0	13853	172	6	5	5	5	SAMHD1	20	35521337	Nonstop_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	3943839	35521337	27504183	736	11570											
TGM2	7052	broad.mit.edu	37	chr20	36760864	36760864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggactccgtaaggcagtcacGgtatttctcatagaggatgc	10	10	12	9	2	2	1	2	0	1	1	4	3	3	3	1	4	1	3	1	4	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:36760864G>A	uc002xhr.2	-	11	1754	c.1654C>T	c.(1654-1656)CGT>TGT	p.R552C	TGM2_uc002xhq.2_Missense_Mutation_p.R153C|TGM2_uc010zvx.1_Missense_Mutation_p.R471C|TGM2_uc010zvy.1_Missense_Mutation_p.R492C|TGM2_uc002xhs.1_Missense_Mutation_p.R528C	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	552					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)	AGGCAGTCACGGTATTTCTCA	0.547													9	318					0	0	0.004482	0	0		A	36760864	A	A	36760864	3	1	15	1	0	0	0	0	1	0	0	0	15855	1116	39	1	421	1	TGM2	20	36760864	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1239527	36760864	26264656	737	11571											
SERINC3	10955	broad.mit.edu	37	chr20	43142670	43142670	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaacatgaggcaccgctgcaGaggcatggaacctggaatga	14	5	13	9	1	0	3	0	2	0	1	0	5	0	5	2	4	3	4	2	4	3	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:43142670G>A	uc002xme.2	-	2	185	c.51C>T	c.(49-51)CTC>CTT	p.L17L	SERINC3_uc002xmf.1_Silent_p.L17L|SERINC3_uc010ggs.1_Silent_p.L10L|SERINC3_uc010zwp.1_5'UTR	NM_198941	NP_945179	Q13530	SERC3_HUMAN	tumor differentially expressed protein 1	17	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			skin(3)	3		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.000291)|COAD - Colon adenocarcinoma(18;0.00189)			CACCGCTGCAGAGGCATGGAA	0.498													40	75					0	0	0.005524	0	0		A	43142670	A	A	43142670	2	1	15	1	0	0	0	0	0	0	0	1	14106	929	33	4		4	SERINC3	20	43142670	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6381806	43142670	19882850	738	11572											
SYS1	90196	broad.mit.edu	37	chr20	43995615	43995615	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctgctggttctacagcTcccgtttcccctcggcgctg	2	12	12	15	3	1	0	0	0	1	0	4	0	3	0	3	3	3	6	3	3	1	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:43995615T>G	uc002xnv.2	+	4	589	c.331T>G	c.(331-333)TCC>GCC	p.S111A	SYS1_uc010gha.2_RNA|SYS1_uc002xnw.1_Intron|SYS1-DBNDD2_uc002xnx.2_Intron	NM_033542	NP_291020	Q8N2H4	SYS1_HUMAN	SYS1 Golgi-localized integral membrane protein	111	Helical; (Potential).				protein transport	Golgi membrane|integral to membrane				skin(1)	1		Myeloproliferative disorder(115;0.0122)				GTTCTACAGCTCCCGTTTCCC	0.582													8	109					0	0	0.00308	0	0		G	43995615	G	G	43995615	3	3	15	1	0	0	0	0	1	0	0	0	15489	1551	54	5	341	5	SYS1	20	43995615	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	852945	43995615	19029905	739	11573											
WFDC13	164237	broad.mit.edu	37	chr20	44333226	44333226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcagaaacatttcaaaagCgcaacaggtaagagatatct	18	8	7	8	1	3	2	2	0	1	2	3	3	3	2	0	1	3	2	0	1	6	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:44333226C>T	uc002xpd.2	+	2	340	c.232C>T	c.(232-234)CGC>TGC	p.R78C	WFDC10B_uc002xpb.2_Intron|WFDC10B_uc002xpc.2_Intron	NM_172005	NP_742002	Q8IUB5	WFD13_HUMAN	WAP four-disulfide core domain 13 precursor	78						extracellular region	peptidase inhibitor activity				0		Myeloproliferative disorder(115;0.0122)				ATTTCAAAAGCGCAACAGGTA	0.483													7	135					0	0	0.00308	0	0		T	44333226	T	T	44333226	3	4	15	1	0	0	0	0	1	0	0	0	17377	768	27	1	238	1	WFDC13	20	44333226	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	337611	44333226	18692294	740	11574											
ZSWIM3	140831	broad.mit.edu	37	chr20	44486535	44486535	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcgcctacaaaagggagaAcaggtgctccttcattctca	12	8	9	12	1	2	1	2	0	1	1	4	2	3	1	2	2	4	1	2	2	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:44486535A>C	uc002xqd.2	+	1	274	c.71A>C	c.(70-72)AAC>ACC	p.N24T	ACOT8_uc002xqa.1_5'Flank|ACOT8_uc010zxe.1_5'Flank|ACOT8_uc002xqc.1_5'Flank|ACOT8_uc010zxf.1_5'Flank|ZSWIM3_uc010zxg.1_5'UTR	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	24							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				AAAAGGGAGAACAGGTGCTCC	0.542													57	161					0	0	0.01441	0	0		C	44486535	C	C	44486535	3	2	15	1	0	0	0	0	1	0	0	0	18267	43	2	5	73	5	ZSWIM3	20	44486535	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	153309	44486535	18538985	741	11575											
EYA2	2139	broad.mit.edu	37	chr20	45702826	45702826	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctaccccggcttcccccaGagccagtacccccagtatta	8	8	6	19	1	0	1	0	0	0	1	2	1	2	1	8	1	3	3	8	1	4	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:45702826G>T	uc002xsm.2	+	7	887	c.513G>T	c.(511-513)CAG>CAT	p.Q171H	EYA2_uc010ghp.2_Missense_Mutation_p.Q171H|EYA2_uc002xsn.2_Missense_Mutation_p.Q176H|EYA2_uc002xso.2_Missense_Mutation_p.Q171H|EYA2_uc002xsp.2_Missense_Mutation_p.Q171H|EYA2_uc002xsq.2_Missense_Mutation_p.Q171H	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a	171					DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)				GCTTCCCCCAGAGCCAGTACC	0.597													19	67					3.51602e-12	4.03923e-12	0.008871	1	0		T	45702826	T	T	45702826	3	4	15	1	0	0	0	0	1	0	0	0	5337	933	33	5	535	5	EYA2	20	45702826	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1216291	45702826	17322694	742	11576											
ARFGEF2	10564	broad.mit.edu	37	chr20	47589799	47589799	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggaagaagtggacatgAgctgggaatgacacctctgc	12	7	14	8	0	2	3	1	2	1	1	2	6	2	6	1	3	2	1	1	3	3	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:47589799A>C	uc002xtx.3	+	12	1795	c.1643A>C	c.(1642-1644)GAG>GCG	p.E548A		NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	548					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			AGTGGACATGAGCTGGGAATG	0.294													7	77					0	0	0.00308	0	0		C	47589799	C	C	47589799	3	2	15	1	0	0	0	0	1	0	0	0	853	304	11	5	1689	5	ARFGEF2	20	47589799	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1886973	47589799	15435721	743	11577											
ZNFX1	57169	broad.mit.edu	37	chr20	47887312	47887312	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagggcctctcatccaagTgcacttcattgtaggtaggg	9	10	13	9	0	2	0	2	0	1	0	4	1	3	1	2	4	1	3	2	4	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:47887312T>C	uc002xui.2	-	3	1284	c.1037A>G	c.(1036-1038)CAC>CGC	p.H346R		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	346							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CTCATCCAAGTGCACTTCATT	0.493													9	257					0	0	0.006214	0	0		C	47887312	C	C	47887312	3	2	15	1	0	0	0	0	1	0	0	0	18230	1696	59	3	4767	3	ZNFX1	20	47887312	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	297513	47887312	15138208	744	11578											
PTGIS	5740	broad.mit.edu	37	chr20	48127617	48127617	+	Frame_Shift_Del	DEL	C	-	-																															caggcagtgattgtgccccgCcccccagggcatgttgtaat																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:48127617delC	uc002xut.2	-	9	1360	c.1306delG	c.(1306-1308)GCGfs	p.A436fs	PTGIS_uc010zyi.1_Frame_Shift_Del_p.A297fs	NM_000961	NP_000952	Q16647	PTGIS_HUMAN	prostaglandin I2 synthase	436					hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|prostaglandin-I synthase activity			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(12;2.37e-05)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)		Phenylbutazone(DB00812)	TTGTGCCCCGCCCCCCAGGGC	0.547													18	39	---	---	---	---						.	-	48127617	-	-	48127617	7	5	15	1	0	1	0	1	0	0	0	0	12775	739	26	0	204	0	PTGIS	20	48127617	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	240305	48127617	14897903	745	11579											
PTGIS	5740	broad.mit.edu	37	chr20	48166644	48166644	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccttcatcctcgtgaggaAgctggcagcatcttttccaa	8	12	8	13	1	2	1	1	1	1	0	6	2	5	2	3	2	2	3	3	2	2	3	rs148875055		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:48166644A>G	uc002xut.2	-	2	211	c.157T>C	c.(157-159)TTC>CTC	p.F53L	PTGIS_uc010zyi.1_5'UTR	NM_000961	NP_000952	Q16647	PTGIS_HUMAN	prostaglandin I2 synthase	53					hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|prostaglandin-I synthase activity			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(12;2.37e-05)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)		Phenylbutazone(DB00812)	CTCGTGAGGAAGCTGGCAGCA	0.577													16	46					0	0	0.004007	0	0		G	48166644	G	G	48166644	3	3	15	1	0	0	0	0	1	0	0	0	12775	72	3	3	1381	3	PTGIS	20	48166644	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	39027	48166644	14858876	746	11580											
PFDN4	5203	broad.mit.edu	37	chr20	52830939	52830939	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatcaacaaaagataaacaAatttgcacggaatacaagta	22	7	6	6	1	1	2	1	0	0	2	1	3	1	3	0	1	4	2	0	1	10	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:52830939A>C	uc002xwx.2	+	2	212	c.74A>C	c.(73-75)AAA>ACA	p.K25T		NM_002623	NP_002614	Q9NQP4	PFD4_HUMAN	prefoldin subunit 4	25					'de novo' posttranslational protein folding	prefoldin complex	chaperone binding|unfolded protein binding				0	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		Colorectal(105;0.124)|STAD - Stomach adenocarcinoma(23;0.206)			AAGATAAACAAATTTGCACGG	0.279													6	29					0	0	0.006214	0	0		C	52830939	C	C	52830939	3	2	15	1	0	0	0	0	1	0	0	0	11776	14	1	5	80	5	PFDN4	20	52830939	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	4664295	52830939	10194581	747	11581											
CASS4	57091	broad.mit.edu	37	chr20	55027197	55027197	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacccagaggcacatttcCtttggatgaagatgtcagct	10	12	10	9	0	1	3	1	1	0	2	2	4	2	4	2	2	2	3	2	2	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:55027197C>A	uc002xxp.2	+	6	1190	c.965C>A	c.(964-966)CCT>CAT	p.P322H	CASS4_uc002xxq.3_Missense_Mutation_p.P322H|CASS4_uc002xxr.2_Missense_Mutation_p.P322H|CASS4_uc010zze.1_Missense_Mutation_p.P268H|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	322					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						GGCACATTTCCTTTGGATGAA	0.443													17	96					3.52763e-06	3.89493e-06	0.00499	1	0		A	55027197	A	A	55027197	3	1	15	1	0	0	0	0	1	0	0	0	2686	681	24	5	983	5	CASS4	20	55027197	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2196258	55027197	7998323	748	11582											
STX16	8675	broad.mit.edu	37	chr20	57243094	57243094	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgaaagaattggccagcCttcatgacaagcatttaaac	16	9	8	8	0	1	4	1	2	0	2	1	4	1	4	2	1	3	1	2	1	5	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:57243094C>A	uc002xzi.2	+	4	1039	c.304C>A	c.(304-306)CTT>ATT	p.L102I	STX16_uc010zzq.1_5'UTR|STX16_uc002xzk.2_Missense_Mutation_p.L85I|STX16_uc002xzm.2_Missense_Mutation_p.L98I|STX16_uc002xzj.2_Missense_Mutation_p.L81I|STX16_uc002xzl.2_5'UTR	NM_001001433	NP_001001433	O14662	STX16_HUMAN	syntaxin 16 isoform a	102	Cytoplasmic (Potential).				intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|microsome|SNARE complex	SNAP receptor activity			ovary(1)	1	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;3.73e-09)|Epithelial(14;8.54e-06)|all cancers(14;6.89e-05)			ATTGGCCAGCCTTCATGACAA	0.473													28	131					5.60225e-13	6.46671e-13	0.009535	1	0		A	57243094	A	A	57243094	3	1	15	1	0	0	0	0	1	0	0	0	15364	681	24	5	318	5	STX16	20	57243094	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2215897	57243094	5782426	749	11583											
ZBTB46	140685	broad.mit.edu	37	chr20	62407094	62407094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagccgtcatcccccagcaCgtcggccttcagcgacagca	8	5	11	17	4	2	0	2	0	0	0	4	2	3	1	4	2	4	2	4	2	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:62407094C>T	uc002ygv.1	-	3	1360	c.1159G>A	c.(1159-1161)GTG>ATG	p.V387M	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	387					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					TCCCCCAGCACGTCGGCCTTC	0.672											OREG0026130	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	40					0	0	0.004007	0	0		T	62407094	T	T	62407094	3	4	15	1	0	0	0	0	1	0	0	0	17572	536	19	1	622	1	ZBTB46	20	62407094	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5164000	62407094	618426	750	11584											
RGS19	10287	broad.mit.edu	37	chr20	62705590	62705590	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctcggccttcagctcctcGcaggccaaccagaagagcat	9	6	10	16	2	1	2	1	0	0	2	4	2	2	2	5	2	3	3	5	2	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:62705590G>A	uc002yhy.2	-	5	636	c.369C>T	c.(367-369)TGC>TGT	p.C123C	RGS19_uc002yhz.2_Silent_p.C101C|RGS19_uc002yia.2_Silent_p.C123C|RGS19_uc002yib.2_Silent_p.C123C	NM_005873	NP_005864	P49795	RGS19_HUMAN	G protein signalling regulator 19	123	RGS.				autophagy|G-protein coupled receptor protein signaling pathway|negative regulation of signal transduction|small GTPase mediated signal transduction	Golgi apparatus|membrane fraction|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			skin(1)	1	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					TCAGCTCCTCGCAGGCCAACC	0.607													9	42					0	0	0.010729	0	0		A	62705590	A	A	62705590	2	1	15	1	0	0	0	0	0	0	0	1	13326	1079	38	1		1	RGS19	20	62705590	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	298496	62705590	319930	751	11585											
OPRL1	4987	broad.mit.edu	37	chr20	62730104	62730104	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgcagcattgccaaggaCgtggccctggcctgcaagac	8	6	14	13	2	0	1	0	0	0	1	0	2	0	2	3	3	4	3	3	3	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr20:62730104C>T	uc002yic.2	+	5	1467	c.1065C>T	c.(1063-1065)GAC>GAT	p.D355D	OPRL1_uc002yid.2_Silent_p.D355D|OPRL1_uc002yif.3_Silent_p.D350D	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	355	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					TTGCCAAGGACGTGGCCCTGG	0.647													15	36					0	0	0.010504	0	0		T	62730104	T	T	62730104	2	4	15	1	0	0	0	0	0	0	0	1	10905	535	19	1		1	OPRL1	20	62730104	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	24514	62730104	295416	752	11586											
TPTE	7179	broad.mit.edu	37	chr21	10951287	10951287	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctacaaatactcgaagaAgaacatccatgagaaaaaat	20	9	5	7	1	1	3	0	1	1	3	3	5	2	3	1	0	3	0	1	0	9	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr21:10951287A>C	uc002yip.1	-	10	793	c.425T>G	c.(424-426)CTT>CGT	p.L142R	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.L124R|TPTE_uc002yir.1_Missense_Mutation_p.L104R|TPTE_uc010gkv.1_Missense_Mutation_p.L4R	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	142	Helical; (Potential).				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TACTCGAAGAAGAACATCCAT	0.269													10	157					0	0	0.008291	0	0		C	10951287	C	C	10951287	3	2	15	1	0	0	0	0	1	0	0	0	16456	72	3	5	1290	5	TPTE	21	10951287	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08		10951287	37178608	753	11587											
ADAMTS5	11096	broad.mit.edu	37	chr21	28338331	28338331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgatagaagcagtggctcCggtggcgccagggcgcactc	7	5	15	14	4	0	1	0	0	0	1	2	2	1	1	3	4	1	3	3	4	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr21:28338331C>T	uc002ymg.2	-	1	1109	c.380G>A	c.(379-381)CGG>CAG	p.R127Q		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	127					proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						GCAGTGGCTCCGGTGGCGCCA	0.667													11	13					0	0	0.013537	0	0		T	28338331	T	T	28338331	3	4	15	1	0	0	0	0	1	0	0	0	269	652	23	1	2444	1	ADAMTS5	21	28338331	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	17387044	28338331	19791564	754	11588											
RNF160	26046	broad.mit.edu	37	chr21	30316746	30316746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtaaaagcaaactgtggatgCcttgggaaaaaaattctttc	15	11	9	6	0	1	0	0	0	1	0	2	2	1	2	1	2	3	2	1	2	6	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr21:30316746C>T	uc002ymr.2	-	22	4092	c.4079G>A	c.(4078-4080)GGC>GAC	p.G1360D		NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	1314							ligase activity|zinc ion binding				0						ACTGTGGATGCCTTGGGAAAA	0.373													19	98					0	0	0.007413	0	0		T	30316746	T	T	30316746	3	4	15	1	0	0	0	0	1	0	0	0	13480	739	26	2	1395	2	RNF160	21	30316746	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1978415	30316746	17813149	755	11589											
KRTAP19-5	337972	broad.mit.edu	37	chr21	31874258	31874258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcggtatccatagcctcCgaagccagagccgtatccgt	8	8	11	14	4	0	1	0	0	0	1	3	2	3	1	6	1	4	3	6	1	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr21:31874258C>T	uc011ada.1	-	1	151	c.151G>A	c.(151-153)GGA>AGA	p.G51R		NM_181611	NP_853642	Q3LI72	KR195_HUMAN	keratin associated protein 19-5	51						intermediate filament	protein binding				0						CCATAGCCTCCGAAGCCAGAG	0.547													36	49					0	0	0.01441	0	0		T	31874258	T	T	31874258	3	4	15	1	0	0	0	0	1	0	0	0	8548	661	23	1	70	1	KRTAP19-5	21	31874258	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1557512	31874258	16255637	756	11590											
DOPEY2	9980	broad.mit.edu	37	chr21	37605234	37605234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccattcccagtccctggCgcttgtcattgaagacaaga	12	9	8	12	1	1	3	1	1	0	2	3	3	3	3	3	1	1	1	3	1	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr21:37605234C>T	uc002yvg.2	+	15	2562	c.2483C>T	c.(2482-2484)GCG>GTG	p.A828V	DOPEY2_uc011aeb.1_Missense_Mutation_p.A828V	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	828					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						CAGTCCCTGGCGCTTGTCATT	0.502													39	58					0	0	0.011902	0	0		T	37605234	T	T	37605234	3	4	15	1	0	0	0	0	1	0	0	0	4714	768	27	1	2537	1	DOPEY2	21	37605234	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5730976	37605234	10524661	757	11591											
MORC3	23515	broad.mit.edu	37	chr21	37710204	37710204	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacttggaagtcataaaagcGgagcatgttgttgttccaat	12	13	10	6	1	1	0	1	0	0	0	2	2	2	2	1	2	3	4	1	2	5	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr21:37710204G>A	uc002yvi.2	+	4	496	c.420G>A	c.(418-420)GCG>GCA	p.A140A		NM_015358	NP_056173	Q14149	MORC3_HUMAN	MORC family CW-type zinc finger 3	140					cell aging|maintenance of protein location in nucleus|negative regulation of fibroblast proliferation|peptidyl-serine phosphorylation|protein stabilization	aggresome|intermediate filament cytoskeleton|PML body	ATP binding|zinc ion binding			ovary(2)	2						TCATAAAAGCGGAGCATGTTG	0.403													48	62					0	0	0.01441	0	0		A	37710204	A	A	37710204	2	1	15	1	0	0	0	0	0	0	0	1	9721	1103	39	1		1	MORC3	21	37710204	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	104970	37710204	10419691	758	11592											
CBS	875	broad.mit.edu	37	chr21	44474020	44474020	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccgctcctgggcggccacGaagttcagcaagtcaatggc	8	7	12	14	3	2	0	2	0	0	0	4	1	4	0	3	3	1	3	3	3	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr21:44474020G>A	uc002zcu.2	-	17	1871	c.1626C>T	c.(1624-1626)TTC>TTT	p.F542F	CBS_uc002zcs.1_Silent_p.F437F|CBS_uc002zct.2_Silent_p.F542F|CBS_uc002zcw.3_Silent_p.F542F|CBS_uc002zcv.2_Silent_p.F542F	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	542					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	GGGCGGCCACGAAGTTCAGCA	0.652													9	19					0	0	0.00245	0	0		A	44474020	A	A	44474020	2	1	15	1	0	0	0	0	0	0	0	1	2714	1049	37	1		1	CBS	21	44474020	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6763816	44474020	3655875	759	11593											
ADARB1	104	broad.mit.edu	37	chr21	46595860	46595860	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgtcctccccaagaacGccctgatgcagctgaatgag	9	6	11	15	2	0	4	0	3	0	1	2	4	2	4	5	1	3	2	5	1	3	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr21:46595860G>A	uc002zgy.2	+	4	679	c.244G>A	c.(244-246)GCC>ACC	p.A82T	ADARB1_uc002zgr.2_Missense_Mutation_p.A82T|ADARB1_uc002zgs.2_RNA|ADARB1_uc002zgw.2_Missense_Mutation_p.A82T|ADARB1_uc002zgv.2_RNA|ADARB1_uc002zgt.2_Missense_Mutation_p.A82T|ADARB1_uc010gpx.2_Intron|ADARB1_uc002zgq.2_RNA|ADARB1_uc002zgu.2_RNA|ADARB1_uc011afo.1_Missense_Mutation_p.A131T	NM_015833	NP_056648	P78563	RED1_HUMAN	RNA-specific adenosine deaminase B1 isoform 2	82	DRBM 1.				adenosine to inosine editing|mRNA modification|mRNA processing|RNA processing	nucleoplasm|nucleus	double-stranded RNA adenosine deaminase activity|double-stranded RNA adenosine deaminase activity|double-stranded RNA binding|double-stranded RNA binding|metal ion binding|mRNA binding|RNA binding			skin(1)	1				Colorectal(79;0.115)		CCCCAAGAACGCCCTGATGCA	0.597													46	91					0	0	0.01441	0	0		A	46595860	A	A	46595860	3	1	15	1	0	0	0	0	1	0	0	0	282	1087	38	1	250	1	ADARB1	21	46595860	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2121840	46595860	1534035	760	11594											
CDC45	8318	broad.mit.edu	37	chr22	19495010	19495010	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggtctgtgcatggacagaAgcggctccaggagttccttg	7	10	15	9	1	1	1	0	0	1	1	3	3	3	3	2	4	2	3	2	4	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:19495010A>G	uc002zpr.2	+	11	1002	c.926A>G	c.(925-927)AAG>AGG	p.K309R	CDC45_uc011agz.1_Missense_Mutation_p.K304R|CDC45_uc011aha.1_Missense_Mutation_p.K341R|CDC45_uc002zps.2_Missense_Mutation_p.K309R|CDC45_uc002zpt.2_Missense_Mutation_p.K263R	NM_003504	NP_003495	O75419	CDC45_HUMAN	CDC45-like	309					DNA replication checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	centrosome|nucleoplasm	protein binding			lung(1)	1						CATGGACAGAAGCGGCTCCAG	0.612													27	48					0	0	0.003755	0	0		G	19495010	G	G	19495010	3	3	15	1	0	0	0	0	1	0	0	0	3084	72	3	3	1068	3	CDC45	22	19495010	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08		19495010	31809556	761	11595											
COMT	1312	broad.mit.edu	37	chr22	19951793	19951793	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgaccactggaaggacCggtacctgccggacacgctt	8	7	11	15	4	0	0	0	0	0	0	2	4	1	3	5	4	2	2	5	4	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:19951793C>T	uc002zqu.2	+	5	835	c.586C>T	c.(586-588)CGG>TGG	p.R196W	COMT_uc002zqt.2_Missense_Mutation_p.R196W|COMT_uc002zqv.2_Missense_Mutation_p.R196W|COMT_uc002zqw.2_Missense_Mutation_p.R196W|COMT_uc011ahd.1_Missense_Mutation_p.R196W|COMT_uc002zqx.2_Missense_Mutation_p.R196W	NM_000754	NP_000745	P21964	COMT_HUMAN	catechol-O-methyltransferase isoform MB-COMT	196					neurotransmitter biosynthetic process|neurotransmitter catabolic process|xenobiotic metabolic process	cytosol|integral to membrane|intracellular membrane-bounded organelle|microsome|plasma membrane|soluble fraction	catechol O-methyltransferase activity|magnesium ion binding|protein binding			ovary(1)	1	Colorectal(54;0.0993)				Carbidopa(DB00190)|Conjugated Estrogens(DB00286)|Diethylstilbestrol(DB00255)|Dobutamine(DB00841)|Dopamine(DB00988)|Entacapone(DB00494)|Folic Acid(DB00158)|L-Valine(DB00161)|Levodopa(DB01235)|Methyldopa(DB00968)|Modafinil(DB00745)|Morphine(DB00295)|S-Adenosylmethionine(DB00118)|Tolcapone(DB00323)	CTGGAAGGACCGGTACCTGCC	0.597													22	32					0	0	0.00333	0	0		T	19951793	T	T	19951793	3	4	15	1	0	0	0	0	1	0	0	0	3728	643	23	1	596	1	COMT	22	19951793	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	456783	19951793	31352773	762	11596											
TRMT2A	27037	broad.mit.edu	37	chr22	20103762	20103762	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtgggcggcctttccagAgggcaccatgcaaaacgcgc	9	6	14	12	3	0	2	0	1	0	1	1	2	1	2	3	3	2	2	3	3	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:20103762A>G	uc002zrk.1	-	3	613	c.398T>C	c.(397-399)CTC>CCC	p.L133P	TRMT2A_uc002zrl.1_Missense_Mutation_p.L133P|TRMT2A_uc002zrm.1_5'UTR|TRMT2A_uc002zrn.1_Missense_Mutation_p.L133P|TRMT2A_uc011ahk.1_Missense_Mutation_p.L133P|RANBP1_uc011ahl.1_5'Flank|RANBP1_uc002zro.1_5'Flank|RANBP1_uc002zrp.2_5'Flank	NM_182984	NP_892029	Q8IZ69	TRM2A_HUMAN	HpaII tiny fragments locus 9C	133	RRM.				RNA processing		nucleotide binding|RNA binding|RNA methyltransferase activity			breast(1)	1						GCCTTTCCAGAGGGCACCATG	0.637													15	17					0	0	0.003163	0	0		G	20103762	G	G	20103762	3	3	15	1	0	0	0	0	1	0	0	0	16591	304	11	3	1523	3	TRMT2A	22	20103762	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	151969	20103762	31200804	763	11597											
P2RX6	9127	broad.mit.edu	37	chr22	21377597	21377597	+	Frame_Shift_Del	DEL	T	-	-																															gagacctgggaccccacctaTtttaagcactgccgctatga																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:21377597delT	uc010gsu.1	+	7	672	c.672delT	c.(670-672)TATfs	p.Y224fs	P2RX6_uc002ztz.2_Frame_Shift_Del_p.Y198fs|P2RX6_uc002zua.2_RNA|P2RX6_uc002zuc.1_RNA	NM_005446	NP_005437	O15547	P2RX6_HUMAN	purinergic receptor P2X6 isoform 1	224	Extracellular (Potential).				muscle contraction|protein homooligomerization	cell junction|cytoplasm|integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0						ACCCCACCTATTTTAAGCACT	0.592													42	74	---	---	---	---						.	-	21377597	-	-	21377597	7	5	15	1	0	1	0	1	0	0	0	0	11363	1500	52	0	698	0	P2RX6	22	21377597	Frame_Shift_Del	DEL	T	TCGA-BR-4280-01A-01D-1126-08	1273835	21377597	29926969	764	11598											
HIC2	23119	broad.mit.edu	37	chr22	21800714	21800714	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccttcaagtgttcggtctgCgagaagacctacaaggaccc	10	8	10	13	2	2	2	1	0	1	2	3	4	2	3	3	2	2	1	3	2	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:21800714C>T	uc002zur.3	+	3	1760	c.1530C>T	c.(1528-1530)TGC>TGT	p.C510C	HIC2_uc002zus.3_Silent_p.C510C	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	510	C2H2-type 2.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				GTTCGGTCTGCGAGAAGACCT	0.642													23	19					0	0	0.00278	0	0		T	21800714	T	T	21800714	2	4	15	1	0	0	0	0	0	0	0	1	7118	776	27	1		1	HIC2	22	21800714	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	423117	21800714	29503852	765	11599											
MMP11	4320	broad.mit.edu	37	chr22	24124456	24124456	+	Frame_Shift_Del	DEL	C	-	-																															ggtgaaaagccagtcctgggCcccgcacccctcaccgagct																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:24124456delC	uc002zxx.2	+	7	1141	c.1119delC	c.(1117-1119)GGCfs	p.G373fs	MMP11_uc002zxy.2_Intron|MMP11_uc002zxz.2_RNA	NM_005940	NP_005931	P24347	MMP11_HUMAN	matrix metalloproteinase 11 preproprotein	373	Hemopexin-like 2.				collagen catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|large_intestine(1)	3		Medulloblastoma(6;9.86e-08)|all_neural(6;0.000318)				cagtcctgggccccgcacccc	0.443													35	39	---	---	---	---						.	-	24124456	-	-	24124456	7	5	15	1	0	1	0	1	0	0	0	0	9668	726	26	0	1145	0	MMP11	22	24124456	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	2323742	24124456	27180110	766	11600											
HSCB	150274	broad.mit.edu	37	chr22	29141880	29141880	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggaatagagattcctgAaaggacagattatgaaatgg	16	9	11	5	0	0	4	0	2	0	2	1	7	1	6	2	3	0	0	2	3	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:29141880A>G	uc003aea.2	+	4	493	c.452A>G	c.(451-453)GAA>GGA	p.E151G		NM_172002	NP_741999	Q8IWL3	HSC20_HUMAN	J-type co-chaperone HSC20 precursor	151					iron-sulfur cluster assembly|protein folding	mitochondrion	chaperone binding|heat shock protein binding|metal ion binding			kidney(1)	1						GAGATTCCTGAAAGGACAGAT	0.378													35	52					0	0	0.00874	0	0		G	29141880	G	G	29141880	3	3	15	1	0	0	0	0	1	0	0	0	7390	246	9	3	466	3	HSCB	22	29141880	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	5017424	29141880	22162686	767	11601											
NEFH	4744	broad.mit.edu	37	chr22	29885456	29885456	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggccaagtccccagtgaaGgaagaagcaaagtcaccggc	15	3	12	11	1	1	2	1	1	0	1	2	3	2	3	4	3	1	1	4	3	6	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:29885456G>T	uc003afo.2	+	4	1898	c.1827G>T	c.(1825-1827)AAG>AAT	p.K609N	NEFH_uc003afp.2_Intron	NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	609	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				cell death|nervous system development	neurofilament					0						ccccagtgaaggaagaagcaa	0.468													56	92					4.88506e-25	5.81985e-25	0.01441	1	0		T	29885456	T	T	29885456	3	4	15	1	0	0	0	0	1	0	0	0	10333	991	35	5	1841	5	NEFH	22	29885456	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	743576	29885456	21419110	768	11602											
CABP7	164633	broad.mit.edu	37	chr22	30125551	30125551	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtgctgcgcagtggcaTgaagtagacgccacctggat	9	7	14	11	2	0	2	0	1	0	1	0	3	0	3	3	3	2	4	3	3	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:30125551T>C	uc003agl.2	+	5	711	c.641T>C	c.(640-642)ATG>ACG	p.M214T		NM_182527	NP_872333	Q86V35	CABP7_HUMAN	calcium binding protein 7	214	Extracellular (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding				0			OV - Ovarian serous cystadenocarcinoma(5;0.00442)|Epithelial(10;0.215)|all cancers(5;0.233)			CGCAGTGGCATGAAGTAGACG	0.657													16	30					0	0	0.004007	0	0		C	30125551	C	C	30125551	3	2	15	1	0	0	0	0	1	0	0	0	2538	1464	51	3	659	3	CABP7	22	30125551	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	240095	30125551	21179015	769	11603											
TBC1D10A	83874	broad.mit.edu	37	chr22	30695501	30695501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtactgccaagcacggccccGcagagaaggcgggatgccct	9	4	14	14	3	0	1	0	0	0	1	0	3	0	2	4	3	4	3	4	3	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:30695501G>A	uc011akt.1	-	3	373	c.349C>T	c.(349-351)CGG>TGG	p.R117W	GATSL3_uc003ahg.2_RNA|GATSL3_uc003ahh.2_RNA|GATSL3_uc010gvq.2_RNA|GATSL3_uc003ahi.2_5'UTR|TBC1D10A_uc003ahj.3_Missense_Mutation_p.R29W|TBC1D10A_uc010gvu.2_Missense_Mutation_p.R124W|TBC1D10A_uc003ahk.3_Missense_Mutation_p.R117W	NM_031937	NP_114143	Q9BXI6	TB10A_HUMAN	TBC1 domain family, member 10A	117	Rab-GAP TBC.					intracellular|microvillus	guanyl-nucleotide exchange factor activity|PDZ domain binding|Rab GTPase activator activity			ovary(1)	1						GCACGGCCCCGCAGAGAAGGC	0.582													23	28					0	0	0.00333	0	0		A	30695501	A	A	30695501	3	1	15	1	0	0	0	0	1	0	0	0	15623	1086	38	1	1205	1	TBC1D10A	22	30695501	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	569950	30695501	20609065	770	11604											
FBXO7	25793	broad.mit.edu	37	chr22	32880008	32880008	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggaagggcaagtgccacAttcattagagaccttgtatc	11	10	12	8	0	1	1	1	0	0	1	2	3	1	2	2	3	1	2	2	3	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:32880008A>C	uc003amq.2	+	3	825	c.542A>C	c.(541-543)CAT>CCT	p.H181P	FBXO7_uc003amp.1_Missense_Mutation_p.H67P|FBXO7_uc003amr.2_Missense_Mutation_p.H67P|FBXO7_uc003ams.2_Missense_Mutation_p.H25P|FBXO7_uc003amt.2_Missense_Mutation_p.H102P|FBXO7_uc003amu.2_Missense_Mutation_p.H67P	NM_012179	NP_036311	Q9Y3I1	FBX7_HUMAN	F-box only protein 7 isoform 1	181					cell death|regulation of protein stability|ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)	1						CAAGTGCCACATTCATTAGAG	0.453													6	141					0	0	0.001984	0	0		C	32880008	C	C	32880008	3	2	15	1	0	0	0	0	1	0	0	0	5774	217	8	5	593	5	FBXO7	22	32880008	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	2184507	32880008	18424558	771	11605											
MCM5	4174	broad.mit.edu	37	chr22	35812348	35812348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagatgcgagaagatgaccGtgtggcaatccacgaagcca	13	7	12	9	3	0	4	0	1	0	3	1	6	1	4	3	1	2	1	3	1	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:35812348G>A	uc003anu.3	+	11	1458	c.1364G>A	c.(1363-1365)CGT>CAT	p.R455H	MCM5_uc010gwr.2_Missense_Mutation_p.R264H|MCM5_uc003anv.3_Missense_Mutation_p.R412H|MCM5_uc010gws.1_RNA|MCM5_uc003anw.1_Missense_Mutation_p.R239H	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	455	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						GAAGATGACCGTGTGGCAATC	0.557													37	58					0	0	0.01441	0	0		A	35812348	A	A	35812348	3	1	15	1	0	0	0	0	1	0	0	0	9408	1145	40	1	1402	1	MCM5	22	35812348	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	2932340	35812348	15492218	772	11606											
GRAP2	9402	broad.mit.edu	37	chr22	40366977	40366977	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgagctggggttccacagCggggaggtggtggaggtcct	6	7	20	8	2	0	0	0	0	0	0	2	4	2	2	2	8	2	2	2	8	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:40366977C>T	uc003ayh.1	+	8	1145	c.882C>T	c.(880-882)AGC>AGT	p.S294S	GRAP2_uc003ayi.2_RNA|GRAP2_uc011aom.1_Silent_p.S268S|GRAP2_uc011aon.1_Silent_p.S228S|GRAP2_uc010gya.1_Silent_p.S294S|GRAP2_uc011aoo.1_Silent_p.S222S|GRAP2_uc011aop.1_Silent_p.S254S|GRAP2_uc011aoq.1_Silent_p.S181S|GRAP2_uc003ayj.1_Silent_p.S294S	NM_004810	NP_004801	O75791	GRAP2_HUMAN	GRB2-related adaptor protein 2	294	SH3 2.				cell-cell signaling|Ras protein signal transduction|T cell costimulation|T cell receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						GGTTCCACAGCGGGGAGGTGG	0.647													20	22					0	0	0.014323	0	0		T	40366977	T	T	40366977	2	4	15	1	0	0	0	0	0	0	0	1	6770	767	27	1		1	GRAP2	22	40366977	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	4554629	40366977	10937589	773	11607											
TOB2	10766	broad.mit.edu	37	chr22	41832689	41832689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggctgttggtgggtgagcGggccatgcgaggctgctgtg	4	9	20	8	2	0	1	0	1	0	0	0	2	0	1	1	5	3	4	1	5	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:41832689G>A	uc003azz.1	-	2	1368	c.661C>T	c.(661-663)CGC>TGC	p.R221C		NM_016272	NP_057356	Q14106	TOB2_HUMAN	transducer of ERBB2, 2	221					female gamete generation|negative regulation of cell proliferation	cytoplasm|nucleus				ovary(1)	1						GTGGGTGAGCGGGCCATGCGA	0.592													8	4					0	0	0.010729	0	0		A	41832689	A	A	41832689	3	1	15	1	0	0	0	0	1	0	0	0	16373	1116	39	1	377	1	TOB2	22	41832689	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1465712	41832689	9471877	774	11608											
PMM1	5372	broad.mit.edu	37	chr22	41973879	41973879	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtccaggctatccaggcagTagcgcttgtcccagccctcg	6	8	12	15	2	0	0	0	0	0	0	4	0	3	0	4	3	2	4	4	3	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:41973879T>C	uc003bal.2	-	7	661	c.599A>G	c.(598-600)TAC>TGC	p.Y200C		NM_002676	NP_002667	Q92871	PMM1_HUMAN	phosphomannomutase 1	200					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	metal ion binding|phosphomannomutase activity			ovary(1)	1						ATCCAGGCAGTAGCGCTTGTC	0.607													24	28					0	0	0.00278	0	0		C	41973879	C	C	41973879	3	2	15	1	0	0	0	0	1	0	0	0	12155	1638	57	3	197	3	PMM1	22	41973879	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	141190	41973879	9330687	775	11609											
NAGA	4668	broad.mit.edu	37	chr22	42458950	42458950	+	Frame_Shift_Del	DEL	G	-	-																															caggtctgtggacatcaagaGgggggctgccagcaccgtcc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:42458950delG	uc003bbx.2	-	8	975	c.838delC	c.(838-840)CTCfs	p.L280fs	NAGA_uc003bby.2_Frame_Shift_Del_p.L280fs|NAGA_uc003bbw.3_Frame_Shift_Del_p.L280fs	NM_000262	NP_000253	P17050	NAGAB_HUMAN	alpha-N-acetylgalactosaminidase precursor	280					glycoside catabolic process|glycosylceramide catabolic process|oligosaccharide metabolic process	lysosome	alpha-galactosidase activity|alpha-N-acetylgalactosaminidase activity|cation binding|protein homodimerization activity			central_nervous_system(1)	1						GACATCAAGAGGGGGGCTGCC	0.557													19	43	---	---	---	---						.	-	42458950	-	-	42458950	7	5	15	1	0	1	0	1	0	0	0	0	10159	1000	35	0	409	0	NAGA	22	42458950	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	485071	42458950	8845616	776	11610											
PNPLA5	150379	broad.mit.edu	37	chr22	44277498	44277498	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgagggccatgttcctcAgcaggccctgcatccaccac	7	7	9	18	1	1	0	1	0	0	0	4	1	3	0	6	2	2	3	6	2	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:44277498A>G	uc003beg.2	-	8	1236	c.1139T>C	c.(1138-1140)CTG>CCG	p.L380P	PNPLA5_uc011aqc.1_Missense_Mutation_p.L240P|PNPLA5_uc003beh.2_Missense_Mutation_p.L266P	NM_138814	NP_620169	Q7Z6Z6	PLPL5_HUMAN	patatin-like phospholipase domain containing 5	380					lipid catabolic process		hydrolase activity				0		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				CATGTTCCTCAGCAGGCCCTG	0.657													8	12					0	0	0.004482	0	0		G	44277498	G	G	44277498	3	3	15	1	0	0	0	0	1	0	0	0	12187	188	7	3	158	3	PNPLA5	22	44277498	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1818548	44277498	7027068	777	11611											
PRR5-ARHGAP8	553158	broad.mit.edu	37	chr22	45182488	45182488	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcattctgcaggtggcaggTagggccccagctgggcagtc	6	7	17	11	0	1	0	0	0	1	0	2	0	1	0	2	6	2	6	2	6	1	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:45182488T>C	uc003bfd.2	+	8	1113	c.841_splice	c.e8+2	p.G281_splice	PRR5-ARHGAP8_uc003bfc.2_Splice_Site_p.G158_splice|PRR5-ARHGAP8_uc011aqi.1_Splice_Site_p.G149_splice|PRR5-ARHGAP8_uc011aqj.1_Splice_Site_p.G63_splice|ARHGAP8_uc003bfi.2_Splice_Site_p.G27_splice|ARHGAP8_uc010gzv.2_Splice_Site_p.G27_splice|ARHGAP8_uc003bfj.2_Splice_Site_p.G27_splice|ARHGAP8_uc003bfk.2_Splice_Site_p.G27_splice|ARHGAP8_uc003bfl.2_Splice_Site|PRR5-ARHGAP8_uc003bfg.1_Splice_Site_p.G63_splice	NM_181335	NP_851852			Rho GTPase activating protein 8 isoform 2											skin(2)	2						AGGTGGCAGGTAGGGCCCCAG	0.647													4	14					0	0	0.001984	0	0		C	45182488	C	C	45182488	5	2	15	1	0	0	0	0	0	0	1	0	12623	1652	57	3	465	3	PRR5-ARHGAP8	22	45182488	Splice_Site	SNP	T	TCGA-BR-4280-01A-01D-1126-08	904990	45182488	6122078	778	11612											
SHANK3	85358	broad.mit.edu	37	chr22	51117521	51117521	+	Frame_Shift_Del	DEL	G	-	-																															cccctctaccacagcgccctGgggggtggggatgccctctg																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chr22:51117521delG	uc003bne.1	+	6	675	c.675delG	c.(673-675)CTGfs	p.L225fs		NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	225										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		ACAGCGCCCTGGGGGGTGGGG	0.637													4	6	---	---	---	---						.	-	51117521	-	-	51117521	7	5	15	1	0	1	0	1	0	0	0	0	14291	1335	47	0	697	0	SHANK3	22	51117521	Frame_Shift_Del	DEL	G	TCGA-BR-4280-01A-01D-1126-08	5935033	51117521	187045	779	11613											
ARSE	415	broad.mit.edu	37	chrX	2878425	2878425	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattgtatcttaccaagaaTggtgcagatgtaacatgttg	13	14	9	5	0	1	2	0	0	1	2	1	2	1	2	1	1	3	4	1	1	6	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:2878425T>C	uc004crc.3	-	2	267	c.17A>G	c.(16-18)CAT>CGT	p.H6R	ARSE_uc011mhi.1_Missense_Mutation_p.H6R|ARSE_uc011mhh.1_5'UTR	NM_000047	NP_000038	P51690	ARSE_HUMAN	arylsulfatase E precursor	6					skeletal system development	Golgi stack	arylsulfatase activity|metal ion binding			ovary(1)|central_nervous_system(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TTACCAAGAATGGTGCAGATG	0.244													16	62					0	0	0.007413	0	0		C	2878425	C	C	2878425	3	2	15	1	0	0	0	0	1	0	0	0	991	1464	51	3	1792	3	ARSE	23	2878425	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08		2878425	152392135	780	11614											
KAL1	3730	broad.mit.edu	37	chrX	8555928	8555928	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatagatcacaggctcaatAgaaatattgaatttcgagga	17	10	8	6	1	2	3	2	1	0	2	3	5	2	4	0	2	0	1	0	2	6	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:8555928A>C	uc004csf.2	-	5	783	c.633T>G	c.(631-633)TCT>TCG	p.S211S		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	211	Fibronectin type-III 1.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						CAGGCTCAATAGAAATATTGA	0.463													9	24					0	0	0.004482	0	0		C	8555928	C	C	8555928	2	2	15	1	0	0	0	0	0	0	0	1	7990	407	15	5		5	KAL1	23	8555928	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	5677503	8555928	146714632	781	11615											
KAL1	3730	broad.mit.edu	37	chrX	8555953	8555953	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattgaatttcgaggaccacTtaacctccagctgtccagac	11	11	7	12	1	0	2	0	1	0	1	3	4	2	3	4	1	2	1	4	1	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:8555953T>G	uc004csf.2	-	5	758	c.608A>C	c.(607-609)AAG>ACG	p.K203T		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	203	Fibronectin type-III 1.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						CGAGGACCACTTAACCTCCAG	0.438													8	30					0	0	0.00308	0	0		G	8555953	G	G	8555953	3	3	15	1	0	0	0	0	1	0	0	0	7990	1609	56	5	1474	5	KAL1	23	8555953	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	25	8555953	146714607	782	11616											
WWC3	55841	broad.mit.edu	37	chrX	10094344	10094344	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcagctgcaggaagaactgCtggtatggcgccaggctccg	8	6	15	12	3	0	1	0	0	0	1	1	2	1	2	2	4	4	6	2	4	3	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:10094344C>T	uc004csx.3	+	15	2302	c.2104C>T	c.(2104-2106)CTG>TTG	p.L702L	WWC3_uc010nds.2_Silent_p.L366L|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	702	C2.									ovary(4)	4						GGAAGAACTGCTGGTATGGCG	0.517													23	38					0	0	0.014323	0	0		T	10094344	T	T	10094344	2	4	15	1	0	0	0	0	0	0	0	1	17439	796	28	2		2	WWC3	23	10094344	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1538391	10094344	145176216	783	11617											
WWC3	55841	broad.mit.edu	37	chrX	10106971	10106971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgctgcgggaggccgagCggcaggtgggggtcccctgt	3	6	20	12	3	0	0	0	0	0	0	1	2	1	1	4	6	3	2	4	6	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:10106971C>T	uc004csx.3	+	21	3277	c.3079C>T	c.(3079-3081)CGG>TGG	p.R1027W	WWC3_uc010nds.2_Missense_Mutation_p.R691W|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	1027	Potential.									ovary(4)	4						GGAGGCCGAGCGGCAGGTGGG	0.711													4	2					0	0	0.004482	0	0		T	10106971	T	T	10106971	3	4	15	1	0	0	0	0	1	0	0	0	17439	759	27	1	3157	1	WWC3	23	10106971	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	12627	10106971	145163589	784	11618											
ASB11	140456	broad.mit.edu	37	chrX	15307687	15307687	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaggccacatataggggAgttccgagctgaggcacctc	9	7	14	11	1	0	1	0	1	0	0	2	3	1	2	3	4	2	4	3	4	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:15307687A>G	uc004cwp.1	-	5	594	c.594T>C	c.(592-594)ACT>ACC	p.T198T	ASB11_uc004cwo.1_Silent_p.T177T|ASB11_uc010nes.1_RNA|ASB11_uc010net.1_Silent_p.T181T	NM_080873	NP_543149	Q8WXH4	ASB11_HUMAN	ankyrin repeat and SOCS box-containing protein	198	ANK 5.				intracellular signal transduction					breast(2)|skin(1)	3	Hepatocellular(33;0.183)					CATATAGGGGAGTTCCGAGCT	0.443													14	244					0	0	0.004007	0	0		G	15307687	G	G	15307687	2	3	15	1	0	0	0	0	0	0	0	1	1016	291	11	3		3	ASB11	23	15307687	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	5200716	15307687	139962873	785	11619											
SH3KBP1	30011	broad.mit.edu	37	chrX	19626152	19626152	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccttcccaccagcctacGtcgatgcagtcctagaaaac	10	9	6	16	2	1	1	0	0	1	1	5	2	3	1	5	0	4	1	5	0	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:19626152G>A	uc004czm.2	-	9	1225	c.909C>T	c.(907-909)GAC>GAT	p.D303D	SH3KBP1_uc011mje.1_Silent_p.D42D|SH3KBP1_uc011mjf.1_Silent_p.D65D|SH3KBP1_uc004czl.2_Silent_p.D266D	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	303	SH3 3.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						ACCAGCCTACGTCGATGCAGT	0.537													31	27					0	0	0.006999	0	0		A	19626152	A	A	19626152	2	1	15	1	0	0	0	0	0	0	0	1	14280	1136	40	1		1	SH3KBP1	23	19626152	Silent	SNP	G	TCGA-BR-4280-01A-01D-1126-08	4318465	19626152	135644408	786	11620											
YY2	404281	broad.mit.edu	37	chrX	21875159	21875159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggtgagttttccgtgaCtatgtggtcccctaacgata	8	12	13	8	2	0	2	0	2	0	0	2	4	2	3	3	3	1	1	3	3	3	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:21875159C>T	uc011mjp.1	+	1	557	c.557C>T	c.(556-558)ACT>ATT	p.T186I	MBTPS2_uc004dae.2_Intron|MBTPS2_uc010nfr.2_Intron|YY2_uc010nfq.2_Missense_Mutation_p.T404I|MBTPS2_uc004dab.2_Intron	NM_206923	NP_996806	O15391	TYY2_HUMAN	YY2 transcription factor	186					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|plasma membrane	DNA binding|zinc ion binding			breast(1)|skin(1)	2						TTTTCCGTGACTATGTGGTCC	0.542													99	128					0	0	0.01441	0	0		T	21875159	T	T	21875159	3	4	15	1	0	0	0	0	1	0	0	0	17535	565	20	4	559	4	YY2	23	21875159	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2249007	21875159	133395401	787	11621											
YY2	404281	broad.mit.edu	37	chrX	21875525	21875525	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctggtccacaccggcgAgaagccctttcagtgcacat	9	7	10	15	2	1	1	1	0	0	1	2	2	2	1	4	2	3	2	4	2	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:21875525A>G	uc011mjp.1	+	1	923	c.923A>G	c.(922-924)GAG>GGG	p.E308G	MBTPS2_uc004dae.2_Intron|MBTPS2_uc010nfr.2_Intron|YY2_uc010nfq.2_Missense_Mutation_p.E526G|MBTPS2_uc004dab.2_Intron	NM_206923	NP_996806	O15391	TYY2_HUMAN	YY2 transcription factor	308	Mediates transcriptional repression.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|plasma membrane	DNA binding|zinc ion binding			breast(1)|skin(1)	2						CACACCGGCGAGAAGCCCTTT	0.547													6	268					0	0	0.004482	0	0		G	21875525	G	G	21875525	3	3	15	1	0	0	0	0	1	0	0	0	17535	304	11	3	925	3	YY2	23	21875525	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	366	21875525	133395035	788	11622											
FAM48B1	100130302	broad.mit.edu	37	chrX	24381312	24381312	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgggtgtgtcatagtagaAgttcgtgactacaggcagtc	10	11	14	6	1	1	2	1	1	0	1	3	2	1	2	0	2	1	3	0	2	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:24381312A>C	uc011mjx.1	+	1	435	c.435A>C	c.(433-435)GAA>GAC	p.E145D		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						TCATAGTAGAAGTTCGTGACT	0.453													19	136					0	0	0.003954	0	0		C	24381312	C	C	24381312	3	2	15	1	0	0	0	0	1	0	0	0	5587	69	3	5	437	5	FAM48B1	23	24381312	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	2505787	24381312	130889248	789	11623											
FAM48B1	100130302	broad.mit.edu	37	chrX	24381937	24381937	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggacaccaagccaagcAtcatgcagtcgtttaatgat	12	9	9	11	1	1	1	1	1	0	0	2	2	1	2	3	1	3	3	3	1	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:24381937A>G	uc011mjx.1	+	1	1060	c.1060A>G	c.(1060-1062)ATC>GTC	p.I354V		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						CAAGCCAAGCATCATGCAGTC	0.552													33	67					0	0	0.003755	0	0		G	24381937	G	G	24381937	3	3	15	1	0	0	0	0	1	0	0	0	5587	217	8	3	1062	3	FAM48B1	23	24381937	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	625	24381937	130888623	790	11624											
POLA1	5422	broad.mit.edu	37	chrX	24742543	24742543	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagaaaatagcaacaaaatAtaaaattatgaagttcaagt	22	10	6	3	0	1	2	1	2	0	1	1	3	1	2	0	0	2	2	0	0	12	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:24742543A>G	uc004dbl.2	+	12	1297	c.1274A>G	c.(1273-1275)TAT>TGT	p.Y425C	POLA1_uc004dbm.2_Missense_Mutation_p.Y431C|POLA1_uc004dbn.2_Missense_Mutation_p.Y289C	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	425					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	GCAACAAAATATAAAATTATG	0.299													5	57					0	0	0.000602	0	0		G	24742543	G	G	24742543	3	3	15	1	0	0	0	0	1	0	0	0	12206	449	16	3	1320	3	POLA1	23	24742543	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	360606	24742543	130528017	791	11625											
CXorf22	170063	broad.mit.edu	37	chrX	35938122	35938122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactgtgcataatatttgccGctggaaccagaaaatccgat	13	11	8	9	2	0	1	0	0	0	1	1	3	1	2	3	1	4	2	3	1	6	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:35938122G>A	uc004ddj.2	+	1	265	c.206G>A	c.(205-207)CGC>CAC	p.R69H	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	69										large_intestine(1)|lung(1)|ovary(1)	3						AATATTTGCCGCTGGAACCAG	0.582													14	11					0	0	0.003163	0	0		A	35938122	A	A	35938122	3	1	15	1	0	0	0	0	1	0	0	0	4105	1087	38	1	208	1	CXorf22	23	35938122	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	11195579	35938122	119332438	792	11626											
XK	7504	broad.mit.edu	37	chrX	37553709	37553709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatcagcgttcagccgggCgtcggtgatccaggctttct	5	10	13	13	5	3	1	2	1	1	0	5	2	4	1	3	3	2	2	3	3	0	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:37553709C>T	uc004ddq.2	+	2	498	c.416C>T	c.(415-417)GCG>GTG	p.A139V		NM_021083	NP_066569	P51811	XK_HUMAN	membrane transport protein XK	139	Extracellular (Potential).				amino acid transport	integral to membrane	protein binding|transporter activity				0		all_lung(315;0.175)				TTCAGCCGGGCGTCGGTGATC	0.547													5	10					0	0	0.000602	0	0		T	37553709	T	T	37553709	3	4	15	1	0	0	0	0	1	0	0	0	17457	768	27	1	422	1	XK	23	37553709	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1615587	37553709	117716851	793	11627											
BCOR	54880	broad.mit.edu	37	chrX	39932620	39932620	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatgccctcaggggctgggTaagggaggtaactcctgggg	8	7	17	9	0	1	0	1	0	0	0	2	1	2	1	2	7	2	3	2	7	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:39932620T>G	uc004den.3	-	4	2271	c.1979A>C	c.(1978-1980)TAC>TCC	p.Y660S	BCOR_uc004dep.3_Missense_Mutation_p.Y660S|BCOR_uc004deo.3_Missense_Mutation_p.Y660S|BCOR_uc004dem.3_Missense_Mutation_p.Y660S|BCOR_uc004deq.3_Missense_Mutation_p.Y660S	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	660	Pro-rich.				heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						AGGGGCTGGGTAAGGGAGGTA	0.517													4	24					0	0	0.006214	0	0		G	39932620	G	G	39932620	3	3	15	1	0	0	0	0	1	0	0	0	1387	1638	57	5	3336	5	BCOR	23	39932620	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	2378911	39932620	115337940	794	11628											
DUSP21	63904	broad.mit.edu	37	chrX	44703932	44703932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctatgagaaggacctacGtatgatgatatcaatgtaag	15	11	9	6	1	2	3	1	3	1	1	2	5	2	4	1	1	1	2	1	1	7	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:44703932G>A	uc004dgd.2	+	1	684	c.554G>A	c.(553-555)CGT>CAT	p.R185H		NM_022076	NP_071359	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	185						cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			large_intestine(1)|lung(1)	2						AAGGACCTACGTATGATGATA	0.448													20	37					0	0	0.014323	0	0		A	44703932	A	A	44703932	3	1	15	1	0	0	0	0	1	0	0	0	4826	1145	40	1	556	1	DUSP21	23	44703932	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	4771312	44703932	110566628	795	11629											
SLC9A7	84679	broad.mit.edu	37	chrX	46508175	46508175	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcttatgccttctgcccaAgttgaggaagaaggagagcg	12	9	12	8	1	2	3	0	1	2	2	2	5	2	4	2	2	3	1	2	2	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:46508175A>C	uc004dgu.1	-	11	1413	c.1405T>G	c.(1405-1407)TTG>GTG	p.L469V		NM_032591	NP_115980	Q96T83	SL9A7_HUMAN	solute carrier family 9, member 7	469					regulation of pH	Golgi membrane|integral to membrane|recycling endosome membrane|trans-Golgi network	potassium:hydrogen antiporter activity|protein homodimerization activity|sodium:hydrogen antiporter activity			ovary(2)	2						CTTCTGCCCAAGTTGAGGAAG	0.453													31	40					0	0	0.00623	0	0		C	46508175	C	C	46508175	3	2	15	1	0	0	0	0	1	0	0	0	14744	69	3	5	800	5	SLC9A7	23	46508175	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1804243	46508175	108762385	796	11630											
ZNF41	7592	broad.mit.edu	37	chrX	47308161	47308161	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaggtttgatttgagggtAaagactttcccacattgagt	11	14	11	5	0	0	5	0	4	0	1	1	5	1	5	1	2	0	2	1	2	2	5			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:47308161A>G	uc004dhs.3	-	4	1201	c.1134T>C	c.(1132-1134)TTT>TTC	p.F378F	ZNF41_uc004dhu.3_Silent_p.F370F|ZNF41_uc004dht.3_Silent_p.F250F|ZNF41_uc004dhv.3_Silent_p.F346F|ZNF41_uc004dhw.3_Silent_p.F338F|ZNF41_uc004dhy.3_Silent_p.F336F|ZNF41_uc004dhx.3_Silent_p.F336F|ZNF41_uc011mlm.1_Silent_p.F250F	NM_153380	NP_700359	P51814	ZNF41_HUMAN	zinc finger protein 41	378	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3		all_lung(315;0.000129)				ATTTGAGGGTAAAGACTTTCC	0.413													32	70					0	0	0.003755	0	0		G	47308161	G	G	47308161	2	3	15	1	0	0	0	0	0	0	0	1	17914	359	13	3		3	ZNF41	23	47308161	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	799986	47308161	107962399	797	11631											
CFP	5199	broad.mit.edu	37	chrX	47489004	47489004	+	Frame_Shift_Del	DEL	C	-	-																															agtcttccacgctgacaccaCcccccaggaggcccttgcac																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:47489004delC	uc004dig.3	-	2	272	c.146delG	c.(145-147)GGTfs	p.G49fs	CFP_uc004dih.2_Frame_Shift_Del_p.G49fs|CFP_uc004dii.1_5'UTR|CFP_uc010nhu.2_Frame_Shift_Del_p.G49fs	NM_001145252	NP_001138724	P27918	PROP_HUMAN	complement factor properdin precursor	49					complement activation, alternative pathway|defense response to bacterium	extracellular space				breast(2)|lung(1)	3						GCTGACACCACCCCCCAGGAG	0.612													4	3	---	---	---	---						.	-	47489004	-	-	47489004	7	5	15	1	0	1	0	1	0	0	0	0	3296	507	18	0	1295	0	CFP	23	47489004	Frame_Shift_Del	DEL	C	TCGA-BR-4280-01A-01D-1126-08	180843	47489004	107781556	798	11632											
WDR13	64743	broad.mit.edu	37	chrX	48458724	48458724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcccaagggtgcgcttcGccaatgatgaccgacaccgc	9	6	11	15	4	0	2	0	2	0	0	2	3	1	2	4	1	1	1	4	1	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:48458724G>A	uc004dkh.1	+	6	688	c.541G>A	c.(541-543)GCC>ACC	p.A181T	WDR13_uc010nif.1_Missense_Mutation_p.A59T|WDR13_uc004dki.1_Missense_Mutation_p.A89T|WDR13_uc004dkj.1_Missense_Mutation_p.A181T|WDR13_uc004dkk.1_Missense_Mutation_p.A89T|WDR13_uc004dkl.3_Missense_Mutation_p.A89T|WDR13_uc011mme.1_Missense_Mutation_p.A59T	NM_017883	NP_060353	Q9H1Z4	WDR13_HUMAN	WD repeat domain 13 protein	181	WD 1.					cytoplasm|nucleus				ovary(2)	2						GGTGCGCTTCGCCAATGATGA	0.597													25	22					0	0	0.004656	0	0		A	48458724	A	A	48458724	3	1	15	1	0	0	0	0	1	0	0	0	17301	1087	38	1	559	1	WDR13	23	48458724	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	969720	48458724	106811836	799	11633											
AKAP4	8852	broad.mit.edu	37	chrX	49957256	49957256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaggcagagcttcatcacaGattctactagtttatctata	13	14	6	8	0	4	2	2	0	2	2	4	2	4	2	0	1	2	3	0	1	6	9			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:49957256G>A	uc004dow.1	-	5	2232	c.2108C>T	c.(2107-2109)TCT>TTT	p.S703F	AKAP4_uc004dov.1_Missense_Mutation_p.S320F|AKAP4_uc010njp.1_Missense_Mutation_p.S525F|AKAP4_uc004dou.1_Missense_Mutation_p.S694F	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	703					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					CTTCATCACAGATTCTACTAG	0.463													31	47					0	0	0.010818	0	0		A	49957256	A	A	49957256	3	1	15	1	0	0	0	0	1	0	0	0	453	942	33	4	464	4	AKAP4	23	49957256	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	1498532	49957256	105313304	800	11634											
AKAP4	8852	broad.mit.edu	37	chrX	49958092	49958092	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagcgcttcagcatggcCtccatgatgtctgtagcatt	9	11	9	12	1	2	1	1	1	1	0	3	1	3	1	3	1	3	4	3	1	2	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:49958092C>A	uc004dow.1	-	5	1396	c.1272G>T	c.(1270-1272)GAG>GAT	p.E424D	AKAP4_uc004dov.1_Intron|AKAP4_uc010njp.1_Missense_Mutation_p.E246D|AKAP4_uc004dou.1_Missense_Mutation_p.E415D	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	424					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					TCAGCATGGCCTCCATGATGT	0.453													52	89					5.86059e-21	6.94775e-21	0.01441	1	0		A	49958092	A	A	49958092	3	1	15	1	0	0	0	0	1	0	0	0	453	680	24	5	1300	5	AKAP4	23	49958092	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	836	49958092	105312468	801	11635											
XAGE3	170626	broad.mit.edu	37	chrX	52893814	52893814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatagcatacctccttctggCattttaaattgttctgattt	9	18	6	8	0	2	1	0	1	2	0	3	2	3	1	2	1	2	3	2	1	4	8			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:52893814C>T	uc004dre.2	-	4	363	c.303G>A	c.(301-303)ATG>ATA	p.M101I	XAGE3_uc004drf.2_Missense_Mutation_p.M101I	NM_130776	NP_570132	Q8WTP9	GAGD4_HUMAN	XAGE-3 protein	101											0						CTCCTTCTGGCATTTTAAATT	0.378													51	44					0	0	0.01441	0	0		T	52893814	T	T	52893814	3	4	15	1	0	0	0	0	1	0	0	0	17446	710	25	2	40	2	XAGE3	23	52893814	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2935722	52893814	102376746	802	11636											
GNL3L	54552	broad.mit.edu	37	chrX	54559016	54559016	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatgatgaaacttagacAcagtgagtttcctttaccac	13	12	6	10	0	1	4	1	3	0	1	2	4	2	4	2	0	2	1	2	0	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:54559016A>G	uc004dth.1	+	2	156	c.17A>G	c.(16-18)CAC>CGC	p.H6R	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	6					ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						AAACTTAGACACAGTGAGTTT	0.348													57	85					0	0	0.01441	0	0		G	54559016	G	G	54559016	3	3	15	1	0	0	0	0	1	0	0	0	6553	159	6	3	19	3	GNL3L	23	54559016	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1665202	54559016	100711544	803	11637											
FAM123B	139285	broad.mit.edu	37	chrX	63411827	63411827	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagttccccaggggctaggCcaggataagacctaactggg	12	6	13	10	0	0	1	0	0	0	1	1	2	1	2	4	5	1	2	4	5	4	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:63411827C>A	uc004dvo.2	-	2	1613	c.1340G>T	c.(1339-1341)GGC>GTC	p.G447V		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	447					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						AGGGGCTAGGCCAGGATAAGA	0.532													23	38					1.55469e-16	1.82073e-16	0.00333	1	0		A	63411827	A	A	63411827	3	1	15	1	0	0	0	0	1	0	0	0	5434	739	26	5	2071	5	FAM123B	23	63411827	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	8852811	63411827	91858733	804	11638											
FOXO4	4303	broad.mit.edu	37	chrX	70320655	70320655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagagcggcaaagccccccGccgccgggccgcctccatgg	7	2	13	19	5	0	1	0	0	0	1	1	1	1	1	8	3	2	1	8	3	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:70320655G>A	uc004dys.1	+	2	928	c.575G>A	c.(574-576)CGC>CAC	p.R192H	FOXO4_uc010nkz.2_Missense_Mutation_p.R192H|FOXO4_uc004dyt.1_Missense_Mutation_p.R137H	NM_005938	NP_005929	P98177	FOXO4_HUMAN	forkhead box O4	192					cell cycle arrest|cell differentiation|embryo development|G1 phase of mitotic cell cycle|insulin receptor signaling pathway|mitotic cell cycle G2/M transition DNA damage checkpoint|muscle organ development|negative regulation of angiogenesis|negative regulation of cell proliferation|negative regulation of smooth muscle cell differentiation|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			central_nervous_system(2)|prostate(1)	3	Renal(35;0.156)					AAAgccccccgccgccgggcc	0.517											OREG0019856	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	7					0	0	0.004482	0	0		A	70320655	A	A	70320655	3	1	15	1	0	0	0	0	1	0	0	0	6039	1087	38	1	581	1	FOXO4	23	70320655	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	6908828	70320655	84949905	805	11639											
ACRC	93953	broad.mit.edu	37	chrX	70824105	70824105	+	Missense_Mutation	SNP	T	A	A																															gatgattcggatgttcccgaTgacaatagtgatgatttgga																								rs151063209		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:70824105T>A	uc004eae.2	+	8	1479	c.978T>A	c.(976-978)GAT>GAA	p.D326E	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	326	Asp/Ser-rich.					nucleus				ovary(3)	3	Renal(35;0.156)					ATGTTCCCGATGACAATAGTG	0.478													91	128					0	0	0.01441	0	0		A	70824105	A	A	70824105	3	1	15	1	0	0	0	0	1	0	0	0	171	1461	51	5	1004	5	ACRC	23	70824105	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	503450	70824105	84446455	806	11640	17	2									
ACRC	93953	broad.mit.edu	37	chrX	70824111	70824111	+	Missense_Mutation	SNP	T	G	G																															tcggatgttcccgatgacaaTagtgatgatttggaagttcc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:70824111T>G	uc004eae.2	+	8	1485	c.984T>G	c.(982-984)AAT>AAG	p.N328K	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	328	Asp/Ser-rich.					nucleus				ovary(3)	3	Renal(35;0.156)					CCGATGACAATAGTGATGATT	0.483													80	121					0	0	0.01441	0	0		G	70824111	G	G	70824111	3	3	15	1	0	0	0	0	1	0	0	0	171	1403	49	5	1010	5	ACRC	23	70824111	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	6	70824111	84446449	807	11641	17	2									
KIAA2022	340533	broad.mit.edu	37	chrX	73959959	73959959	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtttttcaaaagaagctgtcCcagactcatccttgtggacc	10	12	8	11	0	2	2	2	0	0	2	4	3	4	3	3	1	1	2	3	1	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:73959959C>A	uc004eby.2	-	3	5050	c.4433G>T	c.(4432-4434)GGG>GTG	p.G1478V		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1478					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						AGAAGCTGTCCCAGACTCATC	0.473													22	51					1.9806e-07	2.21469e-07	0.014323	1	0		A	73959959	A	A	73959959	3	1	15	1	0	0	0	0	1	0	0	0	8285	623	22	5	125	5	KIAA2022	23	73959959	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	3135848	73959959	81310601	808	11642											
P2RY10	27334	broad.mit.edu	37	chrX	78216820	78216820	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactttattttttacaccaTggtaaaggaaaccatcatta	15	15	4	7	0	1	0	1	0	0	0	1	1	1	1	2	2	3	1	2	2	7	8			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:78216820T>C	uc004ede.2	+	4	1172	c.803T>C	c.(802-804)ATG>ACG	p.M268T	P2RY10_uc004edf.2_Missense_Mutation_p.M268T	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	268	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						TTTTACACCATGGTAAAGGAA	0.448													8	148					0	0	0.006214	0	0		C	78216820	C	C	78216820	3	2	15	1	0	0	0	0	1	0	0	0	11366	1464	51	3	805	3	P2RY10	23	78216820	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	4256861	78216820	77053740	809	11643											
POU3F4	5456	broad.mit.edu	37	chrX	82764202	82764202	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatcgaggtgagtgtcaaGggcgtactggagacgcattt	9	10	14	8	3	1	2	1	1	0	1	3	4	2	2	1	3	1	2	1	3	2	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:82764202G>T	uc004eeg.2	+	1	934	c.870G>T	c.(868-870)AAG>AAT	p.K290N		NM_000307	NP_000298	P49335	PO3F4_HUMAN	POU domain, class 3, transcription factor 4	290	Homeobox.				sensory perception of sound	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGAGTGTCAAGGGCGTACTGG	0.612													17	19					1.37522e-17	1.62038e-17	0.007413	1	0		T	82764202	T	T	82764202	3	4	15	1	0	0	0	0	1	0	0	0	12296	991	35	5	872	5	POU3F4	23	82764202	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	4547382	82764202	72506358	810	11644											
DACH2	117154	broad.mit.edu	37	chrX	85950100	85950100	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccccaacatggaattgcTcatgcagccctagctggcca	10	7	10	14	0	1	0	1	0	0	0	1	2	1	2	4	3	5	3	4	3	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:85950100T>G	uc004eew.2	+	5	1019	c.849T>G	c.(847-849)GCT>GCG	p.A283A	DACH2_uc004eex.2_Silent_p.A270A|DACH2_uc010nmq.2_Silent_p.A149A|DACH2_uc011mra.1_Silent_p.A116A|DACH2_uc010nmr.2_Silent_p.A64A	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	283					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						ATGGAATTGCTCATGCAGCCC	0.478													14	24					0	0	0.00245	0	0		G	85950100	G	G	85950100	2	3	15	1	0	0	0	0	0	0	0	1	4224	1538	54	5		5	DACH2	23	85950100	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	3185898	85950100	69320460	811	11645											
TGIF2LX	90316	broad.mit.edu	37	chrX	89177518	89177518	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaggcgtctgtgccggccaAgtcagggcccagtggtccag	6	6	16	13	3	2	0	1	0	1	0	3	1	3	0	4	4	1	0	4	4	1	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:89177518A>C	uc004efe.2	+	2	483	c.434A>C	c.(433-435)AAG>ACG	p.K145T		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	145						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GTGCCGGCCAAGTCAGGGCCC	0.592													33	31					0	0	0.003755	0	0		C	89177518	C	C	89177518	3	2	15	1	0	0	0	0	1	0	0	0	15852	72	3	5	436	5	TGIF2LX	23	89177518	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	3227418	89177518	66093042	812	11646											
PCDH11X	27328	broad.mit.edu	37	chrX	91873813	91873813	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacatctcagttttacacCatgtctgaaagacttcatcc	12	12	5	12	0	3	2	2	1	2	1	5	2	4	2	2	0	2	2	2	0	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:91873813C>A	uc004efk.1	+	7	4763	c.3918C>A	c.(3916-3918)ACC>ACA	p.T1306T	PCDH11X_uc004efl.1_Silent_p.T1296T|PCDH11X_uc004efo.1_Silent_p.T1269T|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Silent_p.T1298T|PCDH11X_uc004efn.1_Silent_p.T1288T	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1306	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						AGTTTTACACCATGTCTGAAA	0.478													7	239					2.0095e-06	2.22381e-06	0.001984	1	0		A	91873813	A	A	91873813	2	1	15	1	0	0	0	0	0	0	0	1	11527	581	21	5		5	PCDH11X	23	91873813	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2696295	91873813	63396747	813	11647											
DIAPH2	1730	broad.mit.edu	37	chrX	96502819	96502819	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcagaaaatcaacacgataAgtttgtggaaaagatgacca	19	7	9	6	1	1	3	1	1	0	2	1	5	1	4	1	1	2	2	1	1	6	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:96502819A>C	uc004efu.3	+	23	3221	c.2825A>C	c.(2824-2826)AAG>ACG	p.K942T	DIAPH2_uc004eft.3_Missense_Mutation_p.K942T	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	942	Potential.|FH2.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						CAACACGATAAGTTTGTGGAA	0.358													10	125					0	0	0.013537	0	0		C	96502819	C	C	96502819	3	2	15	1	0	0	0	0	1	0	0	0	4525	72	3	5	2915	5	DIAPH2	23	96502819	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	4629006	96502819	58767741	814	11648											
PCDH19	57526	broad.mit.edu	37	chrX	99662916	99662916	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcattggagtcggtcaccTtgatactaaggccaacggtg	9	11	12	9	2	2	1	2	1	0	0	3	2	2	2	2	4	2	0	2	4	3	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:99662916T>G	uc010nmz.2	-	1	2356	c.680A>C	c.(679-681)AAG>ACG	p.K227T	PCDH19_uc004efw.3_Missense_Mutation_p.K227T|PCDH19_uc004efx.3_Missense_Mutation_p.K227T	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	227	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						GTCGGTCACCTTGATACTAAG	0.617													4	94					0	0	0.000602	0	0		G	99662916	G	G	99662916	3	3	15	1	0	0	0	0	1	0	0	0	11533	1609	56	5	2790	5	PCDH19	23	99662916	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	3160097	99662916	55607644	815	11649											
CENPI	2491	broad.mit.edu	37	chrX	100356202	100356202	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctcaaaacatggacaaaAcaatccagtgggagattatg	17	8	8	8	0	1	1	1	0	1	1	3	3	2	2	1	2	2	0	1	2	6	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:100356202A>G	uc004egx.2	+	2	413	c.143A>G	c.(142-144)AAC>AGC	p.N48S	CENPI_uc011mrg.1_Missense_Mutation_p.N48S|CENPI_uc004egy.2_Missense_Mutation_p.N48S	NM_006733	NP_006724	Q92674	CENPI_HUMAN	centromere protein I	48					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	cytosol|kinetochore|nucleoplasm	protein binding			skin(1)	1						CATGGACAAAACAATCCAGTG	0.408													5	175					0	0	0.001984	0	0		G	100356202	G	G	100356202	3	3	15	1	0	0	0	0	1	0	0	0	3236	43	2	3	145	3	CENPI	23	100356202	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	693286	100356202	54914358	816	11650											
DRP2	1821	broad.mit.edu	37	chrX	100511132	100511132	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaccagtacctgctgcggCactccagccccatcacagac	10	5	9	17	1	1	1	1	0	0	1	2	2	2	2	5	2	4	3	5	2	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:100511132C>G	uc004egz.2	+	21	2641	c.2272C>G	c.(2272-2274)CAC>GAC	p.H758D	DRP2_uc011mrh.1_Missense_Mutation_p.H680D	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	758					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						CCTGCTGCGGCACTCCAGCCC	0.582													35	50					0	0	0.004878	0	0		G	100511132	G	G	100511132	3	3	15	1	0	0	0	0	1	0	0	0	4770	710	25	5	2346	5	DRP2	23	100511132	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	154930	100511132	54759428	817	11651											
BHLHB9	80823	broad.mit.edu	37	chrX	102004719	102004719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgtggcaacagcttgcCgcccttctaggaacactcgc	7	9	10	15	2	1	0	0	0	1	0	2	1	1	1	3	2	5	2	3	2	3	3	rs149330911		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:102004719C>T	uc010nog.2	+	4	1367	c.796C>T	c.(796-798)CGC>TGC	p.R266C	BHLHB9_uc011mrq.1_Missense_Mutation_p.R266C|BHLHB9_uc011mrr.1_Missense_Mutation_p.R266C|BHLHB9_uc011mrs.1_Missense_Mutation_p.R266C|BHLHB9_uc011mrt.1_Missense_Mutation_p.R266C|BHLHB9_uc004ejo.2_Missense_Mutation_p.R266C|BHLHB9_uc011mru.1_Missense_Mutation_p.R266C|BHLHB9_uc011mrv.1_Missense_Mutation_p.R266C	NM_001142526	NP_001135998	Q6PI77	BHLH9_HUMAN	basic helix-loop-helix domain containing, class	266						cytoplasm|nucleus	binding			ovary(2)	2						AACAGCTTGCCGCCCTTCTAG	0.498													55	79					0	0	0.01441	0	0		T	102004719	T	T	102004719	3	4	15	1	0	0	0	0	1	0	0	0	1421	652	23	1	798	1	BHLHB9	23	102004719	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1493587	102004719	53265841	818	11652											
TMSB15B	286527	broad.mit.edu	37	chrX	103219168	103219169	+	Frame_Shift_Ins	INS	-	A	A																															gaagaaaactaatactgaagINSaaaaaaatactcttccctca																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:103219168_103219169insA	uc010noz.2	+	2	187_188	c.73_74insA	c.(73-75)GAAfs	p.E25fs	TMSB15B_uc004elo.3_RNA|TMSB15B_uc004elq.3_RNA	NM_194324	NP_919305	P0CG34	TB15A_HUMAN	thymosin beta15b	25					actin cytoskeleton organization|sequestering of actin monomers	cytoplasm|cytoskeleton	actin binding			skin(1)	1						TAATACTGAAGAAAAAAATACT	0.356													34	73	---	---	---	---						.	A	103219169	A	A	103219168	7	5	15	1	0	1	1	0	0	0	0	0	16281	943	33	0	75	0	TMSB15B	23	103219168	Frame_Shift_Ins	INS	-	TCGA-BR-4280-01A-01D-1126-08	1214449	103219168	52051392	819	11653											
GUCY2F	2986	broad.mit.edu	37	chrX	108718959	108718959	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcaacctcaggcagggcCtttgaaaacagcgaatcaca	14	5	10	12	1	2	1	2	1	0	0	2	2	2	1	2	2	4	3	2	2	4	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:108718959C>A	uc004eod.3	-	2	483	c.207G>T	c.(205-207)AAG>AAT	p.K69N	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	69	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						CAGGCAGGGCCTTTGAAAACA	0.517											OREG0019905	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	102					4.35082e-09	4.91057e-09	0.010504	1	0		A	108718959	A	A	108718959	3	1	15	1	0	0	0	0	1	0	0	0	6914	680	24	5	3191	5	GUCY2F	23	108718959	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5499791	108718959	46551601	820	11654											
PAK3	5063	broad.mit.edu	37	chrX	110248880	110248880	+	Translation_Start_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcaagcccgaagagaaatTtggcccttatggtaagtgat	12	10	12	7	1	0	2	0	1	0	1	0	4	0	2	2	3	1	2	2	3	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:110248880T>G	uc004eoy.1	+	1	455	c.-1013T>G	c.(-1015--1011)ATTTG>ATGTG		PAK3_uc010npt.1_Intron|PAK3_uc010npu.1_Intron			O75914	PAK3_HUMAN	SubName: Full=cDNA FLJ75088, highly similar to Homo sapiens p21 (CDKN1A)-activated kinase 2 (PAK2), mRNA;						multicellular organismal development		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding			lung(6)|ovary(3)|large_intestine(1)	10						GAAGAGAAATTTGGCCCTTAT	0.443										TSP Lung(19;0.15)			2	2					0	0	0.004672	0	0		G	110248880	G	G	110248880	1	3	15	1	0	0	0	0	0	0	0	0	11421	1856	64	5		5	PAK3	23	110248880	Translation_Start_Site	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1529921	110248880	45021680	821	11655											
TRPC5	7224	broad.mit.edu	37	chrX	111155719	111155719	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctcggccttgaactcattctCcaccttgctgagctccttga	6	13	7	15	1	2	3	1	3	1	0	5	3	3	3	4	1	3	2	4	1	1	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:111155719C>G	uc004epl.1	-	3	1619	c.700G>C	c.(700-702)GAG>CAG	p.E234Q	TRPC5_uc004epm.1_Missense_Mutation_p.E234Q	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	234	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						AACTCATTCTCCACCTTGCTG	0.557													71	133					0	0	0.01441	0	0		G	111155719	G	G	111155719	3	3	15	1	0	0	0	0	1	0	0	0	16608	864	30	5	2257	5	TRPC5	23	111155719	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	906839	111155719	44114841	822	11656											
KLHL13	90293	broad.mit.edu	37	chrX	117054219	117054219	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctgtgaacatagccttgaAgtaatcactagcagatgcca	14	9	8	10	0	1	3	1	2	0	1	1	3	1	3	3	0	4	2	3	0	5	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:117054219A>G	uc004eql.2	-	3	417	c.355T>C	c.(355-357)TTC>CTC	p.F119L	KLHL13_uc004eqk.2_Missense_Mutation_p.F68L|KLHL13_uc011mtn.1_5'UTR|KLHL13_uc011mto.1_Missense_Mutation_p.F113L|KLHL13_uc011mtp.1_Missense_Mutation_p.F121L|KLHL13_uc004eqm.2_Missense_Mutation_p.F68L|KLHL13_uc011mtq.1_Missense_Mutation_p.F103L	NM_033495	NP_277030	Q9P2N7	KLH13_HUMAN	kelch-like 13	119	BTB.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex				kidney(1)|skin(1)	2						ATAGCCTTGAAGTAATCACTA	0.378													11	232					0	0	0.010729	0	0		G	117054219	G	G	117054219	3	3	15	1	0	0	0	0	1	0	0	0	8385	72	3	3	1632	3	KLHL13	23	117054219	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	5898500	117054219	38216341	823	11657											
SLC25A5	292	broad.mit.edu	37	chrX	118604463	118604463	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgcatgatgatgcagtcAgggcgcaaaggaagtaagtt	12	7	14	8	3	1	2	1	2	0	0	1	3	1	3	1	2	1	5	1	2	3	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:118604463A>G	uc004erh.3	+	3	842	c.726A>G	c.(724-726)TCA>TCG	p.S242S	LOC100303728_uc004ere.1_5'Flank|LOC100303728_uc004erg.1_5'Flank	NM_001152	NP_001143	P05141	ADT2_HUMAN	adenine nucleotide translocator 2	242	Solcar 3.				chromosome segregation|energy reserve metabolic process|interspecies interaction between organisms|regulation of insulin secretion|viral reproduction	integral to plasma membrane|mitochondrial inner membrane|mitochondrial nucleoid|MMXD complex	adenine transmembrane transporter activity|protein binding			ovary(1)	1					Clodronate(DB00720)	TGATGCAGTCAGGGCGCAAAG	0.493													3	62					0	0	0.000602	0	0		G	118604463	G	G	118604463	2	3	15	1	0	0	0	0	0	0	0	1	14537	175	7	3		3	SLC25A5	23	118604463	Silent	SNP	A	TCGA-BR-4280-01A-01D-1126-08	1550244	118604463	36666097	824	11658											
CUL4B	8450	broad.mit.edu	37	chrX	119669715	119669715	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcttttaacacacagtgTcctagggttgactgccactg	8	13	9	11	0	1	1	0	1	1	0	2	1	2	1	2	1	3	2	2	1	2	4			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:119669715T>C	uc004esw.2	-	18	2621	c.2184A>G	c.(2182-2184)GGA>GGG	p.G728G	CUL4B_uc010nqq.2_Silent_p.G429G|CUL4B_uc004esv.2_Silent_p.G710G	NM_003588	NP_003579	Q13620	CUL4B_HUMAN	cullin 4B isoform 1	728					cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3						ACACACAGTGTCCTAGGGTTG	0.343													77	95					0	0	0.01441	0	0		C	119669715	C	C	119669715	2	2	15	1	0	0	0	0	0	0	0	1	4061	1654	58	3		3	CUL4B	23	119669715	Silent	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1065252	119669715	35600845	825	11659											
CT47B1	643311	broad.mit.edu	37	chrX	120009203	120009203	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgacgggtggccaccgccaAgtcgaagttggccgcctcgt	6	6	14	15	6	0	0	0	0	0	0	2	2	0	0	6	3	0	1	6	3	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:120009203A>T	uc011muc.1	-	1	577	c.322T>A	c.(322-324)TTG>ATG	p.L108M		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	108											0						GCCACCGCCAAGTCGAAGTTG	0.552													5	11					0	0	0.010729	0	0		T	120009203	T	T	120009203	3	4	15	1	0	0	0	0	1	0	0	0	3992	69	3	5	585	5	CT47B1	23	120009203	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	339488	120009203	35261357	826	11660											
ODZ1	10178	broad.mit.edu	37	chrX	123517645	123517645	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataatccctttgccccaggTgcactaatttagtaaggaaa	13	11	7	10	0	0	0	0	0	0	0	1	1	1	1	3	2	2	2	3	2	5	6			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:123517645T>C	uc004euj.2	-	29	7179	c.7115A>G	c.(7114-7116)CAC>CGC	p.H2372R	ODZ1_uc011muj.1_Missense_Mutation_p.H2378R|ODZ1_uc010nqy.2_Missense_Mutation_p.H2379R	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2372	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TTGCCCCAGGTGCACTAATTT	0.418													29	74					0	0	0.007291	0	0		C	123517645	C	C	123517645	3	2	15	1	0	0	0	0	1	0	0	0	10853	1696	59	3	1074	3	ODZ1	23	123517645	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	3508442	123517645	31752915	827	11661											
ODZ1	10178	broad.mit.edu	37	chrX	123526074	123526074	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatctgcttacaggagacCacagaatgggtcgcccagtc	11	9	10	11	1	1	2	0	0	1	2	3	3	1	2	2	2	2	1	2	2	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:123526074C>A	uc004euj.2	-	27	5559	c.5495G>T	c.(5494-5496)TGG>TTG	p.W1832L	ODZ1_uc011muj.1_Missense_Mutation_p.W1838L|ODZ1_uc010nqy.2_Missense_Mutation_p.W1839L	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1832	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TACAGGAGACCACAGAATGGG	0.393													13	85					9.31168e-06	1.02577e-05	0.001855	1	0		A	123526074	A	A	123526074	3	1	15	1	0	0	0	0	1	0	0	0	10853	595	21	5	2702	5	ODZ1	23	123526074	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	8429	123526074	31744486	828	11662											
UTP14A	10813	broad.mit.edu	37	chrX	129055391	129055391	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggctgcaacccaggaggaCcctgagcaactgccagagct	11	4	13	13	0	0	2	0	1	0	1	0	5	0	4	3	3	6	4	3	3	2	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:129055391C>G	uc004euz.2	+	11	1204	c.1176C>G	c.(1174-1176)GAC>GAG	p.D392E	UTP14A_uc011mup.1_Missense_Mutation_p.D340E|UTP14A_uc011muq.1_Missense_Mutation_p.D338E|UTP14A_uc004eva.1_Missense_Mutation_p.D98E	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	392					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						CCCAGGAGGACCCTGAGCAAC	0.507													32	64					0	0	0.004289	0	0		G	129055391	G	G	129055391	3	3	15	1	0	0	0	0	1	0	0	0	17121	506	18	5	1218	5	UTP14A	23	129055391	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5529317	129055391	26215169	829	11663											
BCORL1	63035	broad.mit.edu	37	chrX	129147663	129147664	+	Frame_Shift_Ins	INS	-	TCAG	TCAG																															ctccagctcctgccccgcttINStcagtcccagtttcagctcc																										TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:129147663_129147664insTCAG	uc004evb.1	+	4	1029_1030	c.915_916insTCAG	c.(913-918)CTTTCAfs	p.L305fs	BCORL1_uc010nrd.1_Frame_Shift_Ins_p.L207fs	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	305_306	Pro-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						ctgccccgctttcagtcccagt	0.248													12	17	---	---	---	---						.	TCAG	129147664	TCAG	TCAG	129147663	7	5	15	1	0	1	1	0	0	0	0	0	1388	1828	64	0	925	0	BCORL1	23	129147663	Frame_Shift_Ins	INS	-	TCGA-BR-4280-01A-01D-1126-08	92272	129147663	26122897	830	11664											
IGSF1	3547	broad.mit.edu	37	chrX	130410940	130410940	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgagctccacagggtcgcTgggctcagaccagatagaaa	12	5	12	12	2	1	3	1	0	0	3	3	4	2	3	2	2	1	3	2	2	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:130410940T>C	uc004ewd.2	-	14	2819	c.2581A>G	c.(2581-2583)AGC>GGC	p.S861G	IGSF1_uc004ewe.3_Missense_Mutation_p.S855G|IGSF1_uc004ewf.2_Missense_Mutation_p.S841G	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	861	Extracellular (Potential).|Ig-like C2-type 8.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						ACAGGGTCGCTGGGCTCAGAC	0.567													52	86					0	0	0.01441	0	0		C	130410940	C	C	130410940	3	2	15	1	0	0	0	0	1	0	0	0	7612	1580	55	3	1457	3	IGSF1	23	130410940	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	1263277	130410940	24859620	831	11665											
FRMD7	90167	broad.mit.edu	37	chrX	131216453	131216453	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttgatttgggctcttcCgaaagcctgaagaaagcatg	10	11	12	8	1	1	3	0	2	1	1	2	4	2	3	2	2	2	3	2	2	3	3	rs145014972		TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:131216453C>T	uc004ewn.2	-	9	1021	c.843G>A	c.(841-843)TCG>TCA	p.S281S	FRMD7_uc011muy.1_Silent_p.S266S	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	281	FERM.				regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TGGGCTCTTCCGAAAGCCTGA	0.483													125	239					0	0	0.01441	0	0		T	131216453	T	T	131216453	2	4	15	1	0	0	0	0	0	0	0	1	6069	639	23	1		1	FRMD7	23	131216453	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	805513	131216453	24054107	832	11666											
GPR112	139378	broad.mit.edu	37	chrX	135405357	135405357	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgttcctagggcactttcTcaagaatgagagcagcgagg	10	10	12	9	1	2	2	1	1	2	2	4	4	3	2	1	2	2	3	1	2	3	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:135405357T>C	uc004ezu.1	+	5	782	c.491T>C	c.(490-492)CTC>CCC	p.L164P	GPR112_uc010nsb.1_Intron	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	164	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					GGGCACTTTCTCAAGAATGAG	0.453													19	182					0	0	0.008871	0	0		C	135405357	C	C	135405357	3	2	15	1	0	0	0	0	1	0	0	0	6644	1551	54	3	497	3	GPR112	23	135405357	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	4188904	135405357	19865203	833	11667											
MAGEC1	9947	broad.mit.edu	37	chrX	140995628	140995628	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtctcctctccagagtcCtgtgagctccttcccctcct	4	12	6	19	0	2	2	0	1	2	1	8	2	6	2	8	0	1	1	8	0	0	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:140995628C>A	uc004fbt.2	+	4	2724	c.2438C>A	c.(2437-2439)CCT>CAT	p.P813H	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	813							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CTCCAGAGTCCTGTGAGCTCC	0.547										HNSCC(15;0.026)			82	133					8.6486e-37	1.03934e-36	0.01441	1	0		A	140995628	A	A	140995628	3	1	15	1	0	0	0	0	1	0	0	0	9198	681	24	5	2444	5	MAGEC1	23	140995628	Missense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	5590271	140995628	14274932	834	11668											
AFF2	2334	broad.mit.edu	37	chrX	148037692	148037692	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctggcaagattgtgccaaAgtctcgggaattcattgaaa	12	10	11	8	1	2	2	1	1	1	1	3	3	2	3	2	2	1	1	2	2	4	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:148037692A>G	uc004fcp.2	+	11	2596	c.2117A>G	c.(2116-2118)AAG>AGG	p.K706R	AFF2_uc004fcq.2_Missense_Mutation_p.K696R|AFF2_uc004fcr.2_Missense_Mutation_p.K667R|AFF2_uc011mxb.1_Missense_Mutation_p.K671R|AFF2_uc004fcs.2_Missense_Mutation_p.K673R|AFF2_uc011mxc.1_Missense_Mutation_p.K347R	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	706					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					ATTGTGCCAAAGTCTCGGGAA	0.488													6	218					0	0	0.001168	0	0		G	148037692	G	G	148037692	3	3	15	1	0	0	0	0	1	0	0	0	357	72	3	3	2214	3	AFF2	23	148037692	Missense_Mutation	SNP	A	TCGA-BR-4280-01A-01D-1126-08	7042064	148037692	7232868	835	11669											
PRRG3	79057	broad.mit.edu	37	chrX	150869254	150869254	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggggagccttctgggcacCgagaggcagcgaacagcccc	10	3	15	13	2	1	1	0	0	1	1	1	4	1	2	4	4	4	2	4	4	2	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:150869254C>T	uc004few.1	+	4	835	c.445C>T	c.(445-447)CGA>TGA	p.R149*		NM_024082	NP_076987	Q9BZD7	TMG3_HUMAN	proline rich Gla (G-carboxyglutamic acid) 3	149	Cytoplasmic (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TTCTGGGCACCGAGAGGCAGC	0.672													12	26					0	0	0.003163	0	0		T	150869254	T	T	150869254	4	4	15	1	0	0	0	0	0	1	0	0	12629	644	23	1	455	1	PRRG3	23	150869254	Nonsense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	2831562	150869254	4401306	836	11670											
CNGA2	1260	broad.mit.edu	37	chrX	150912578	150912578	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggcagtaaaatgggcaatCgacgcacagctaatatccgc	14	6	11	10	3	0	0	0	0	0	0	2	1	1	0	1	2	1	5	1	2	5	3			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:150912578C>T	uc004fey.1	+	7	1827	c.1603C>T	c.(1603-1605)CGA>TGA	p.R535*		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	535	cAMP (By similarity).|Cytoplasmic (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AATGGGCAATCGACGCACAGC	0.498													62	107					0	0	0.01441	0	0		T	150912578	T	T	150912578	4	4	15	1	0	0	0	0	0	1	0	0	3600	876	31	1	1625	1	CNGA2	23	150912578	Nonsense_Mutation	SNP	C	TCGA-BR-4280-01A-01D-1126-08	43324	150912578	4357982	837	11671											
ATP2B3	492	broad.mit.edu	37	chrX	152814984	152814984	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagacaacaacctggtgcgCcacctggatgcctgcgagac	12	5	11	13	2	0	2	0	0	0	2	0	4	0	3	4	2	5	0	4	2	3	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:152814984C>T	uc004fht.1	+	9	1494	c.1368C>T	c.(1366-1368)CGC>CGT	p.R456R	ATP2B3_uc004fhs.1_Silent_p.R456R	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	456	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACCTGGTGCGCCACCTGGATG	0.587													48	102					0	0	0.01441	0	0		T	152814984	T	T	152814984	2	4	15	1	0	0	0	0	0	0	0	1	1142	726	26	2		2	ATP2B3	23	152814984	Silent	SNP	C	TCGA-BR-4280-01A-01D-1126-08	1902406	152814984	2455576	838	11672											
DUSP9	1852	broad.mit.edu	37	chrX	152915040	152915040	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacccccaacctcccaaacTtcttcgagaagaatggtgac	12	8	6	15	1	2	3	1	1	1	2	4	4	3	3	4	1	2	0	4	1	4	2			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:152915040T>G	uc004fhx.3	+	3	931	c.727T>G	c.(727-729)TTC>GTC	p.F243V	DUSP9_uc004fhy.3_Missense_Mutation_p.F243V	NM_001395	NP_001386	Q99956	DUS9_HUMAN	dual specificity phosphatase 9	243	Tyrosine-protein phosphatase.				inactivation of MAPK activity|JNK cascade	cytosol|endoplasmic reticulum|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)	2	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCTCCCAAACTTCTTCGAGAA	0.547													27	143					0	0	0.008361	0	0		G	152915040	G	G	152915040	3	3	15	1	0	0	0	0	1	0	0	0	4838	1609	56	5	733	5	DUSP9	23	152915040	Missense_Mutation	SNP	T	TCGA-BR-4280-01A-01D-1126-08	100056	152915040	2355520	839	11673											
HCFC1	3054	broad.mit.edu	37	chrX	153219666	153219666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggtgacgctgggtgccGccgccacctctaggccagac	5	5	17	14	3	1	2	0	1	1	1	1	2	1	2	5	5	1	1	5	5	1	1			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:153219666G>A	uc004fjp.2	-	17	4712	c.4184C>T	c.(4183-4185)GCG>GTG	p.A1395V		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1395					cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCTGGGTGCCGCCGCCACCTC	0.677													10	9					0	0	0.013537	0	0		A	153219666	A	A	153219666	3	1	15	1	0	0	0	0	1	0	0	0	7007	1087	38	1	1963	1	HCFC1	23	153219666	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	304626	153219666	2050894	840	11674											
EMD	2010	broad.mit.edu	37	chrX	153609454	153609454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgggctgggccaggatcGccaggtcccgctctggggcc	3	6	18	14	2	1	0	0	0	1	0	3	1	2	1	4	7	0	3	4	7	0	0			TCGA-BR-4280-01A-01D-1126-08	TCGA-BR-4280-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	41b158f4-026e-4f40-9175-f3e5c0b1f8ce	3fea064a-3d4a-4a19-a445-de5e616a5edd	g.chrX:153609454G>A	uc004fkl.2	+	6	910	c.662G>A	c.(661-663)CGC>CAC	p.R221H		NM_000117	NP_000108	P50402	EMD_HUMAN	emerin	221	Interaction with F-actin (Probable).				cellular response to growth factor stimulus|muscle contraction|muscle organ development|negative regulation of catenin import into nucleus|negative regulation of fibroblast proliferation|positive regulation of protein export from nucleus|regulation of canonical Wnt receptor signaling pathway	endoplasmic reticulum|integral to membrane|microtubule|nuclear inner membrane|nuclear outer membrane	actin binding|beta-tubulin binding				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGCCAGGATCGCCAGGTCCCG	0.577													19	35					0	0	0.008871	0	0		A	153609454	A	A	153609454	3	1	15	1	0	0	0	0	1	0	0	0	5095	1087	38	1	684	1	EMD	23	153609454	Missense_Mutation	SNP	G	TCGA-BR-4280-01A-01D-1126-08	389788	153609454	1661106	841	11675											
MORN1	79906	broad.mit.edu	37	chr1	2303936	2303936	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactcttggcaatttccccGtggtcctgcagcagctgaac	7	12	9	13	1	1	1	0	1	1	0	3	1	3	1	3	2	5	4	3	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:2303936G>A	uc001ajb.1	-	8	750	c.729C>T	c.(727-729)CAC>CAT	p.H243H	MORN1_uc009vld.2_Silent_p.H219H|MORN1_uc001ajd.1_Silent_p.H243H	NM_024848	NP_079124	Q5T089	MORN1_HUMAN	MORN repeat containing 1	243										ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.000194)|all_epithelial(69;9.96e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;3.3e-15)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;2.21e-37)|OV - Ovarian serous cystadenocarcinoma(86;5.01e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.00137)|BRCA - Breast invasive adenocarcinoma(365;0.00488)|STAD - Stomach adenocarcinoma(132;0.00665)|KIRC - Kidney renal clear cell carcinoma(229;0.0203)|Lung(427;0.212)		CAATTTCCCCGTGGTCCTGCA	0.542													8	26					0	0	1	0	0		A	2303936	A	A	2303936	2	1	16	1	0	0	0	0	0	0	0	1	9726	1136	40	1		1	MORN1	1	2303936	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08		2303936	246946685	1	11676											
RER1	11079	broad.mit.edu	37	chr1	2334500	2334500	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attaagtaccggtacatcccGttcacacatgggaagagaag	14	8	10	9	2	1	1	1	0	0	1	2	3	2	2	2	2	2	3	2	2	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:2334500G>A	uc001aje.1	+	7	719	c.528G>A	c.(526-528)CCG>CCA	p.P176P	RER1_uc001ajf.1_3'UTR	NM_007033	NP_008964	O15258	RER1_HUMAN	RER1 retention in endoplasmic reticulum 1	176				HAATKGILVAMVCTFFDAFNVPVFWPILVMYFIMLFCITMK RQIKHMIKYRYIPFTHGKRRYRGKEDAGKAFAS -> DASV CGDGRCSCKAGGGRQCPVLAADAALTFSPHLKACGYQGHPC GYGLYFLRRFQRPGVLADSGDVLHHALLYHDEEANQAHD (in Ref. 2; AAC72940).	retrograde vesicle-mediated transport, Golgi to ER	integral to Golgi membrane					0	all_cancers(77;0.000247)|all_epithelial(69;9.96e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;5.35e-20)|all_lung(118;2.78e-08)|Lung NSC(185;2.69e-06)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;2.28e-37)|OV - Ovarian serous cystadenocarcinoma(86;8.29e-23)|GBM - Glioblastoma multiforme(42;4.71e-08)|Colorectal(212;4.73e-05)|COAD - Colon adenocarcinoma(227;0.00021)|Kidney(185;0.00116)|BRCA - Breast invasive adenocarcinoma(365;0.00459)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0182)|Lung(427;0.204)		GGTACATCCCGTTCACACATG	0.547													4	152					0	0	1	0	0		A	2334500	A	A	2334500	2	1	16	1	0	0	0	0	0	0	0	1	13255	1132	40	1		1	RER1	1	2334500	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	30564	2334500	246916121	2	11677											
ARHGEF16	27237	broad.mit.edu	37	chr1	3395142	3395142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcgcaacagcgagggcCgccaggagcagctcctgctc	7	6	13	15	3	0	0	0	0	0	0	3	2	1	1	3	2	6	5	3	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:3395142C>T	uc001akg.3	+	12	2028	c.1780C>T	c.(1780-1782)CGC>TGC	p.R594C	ARHGEF16_uc001aki.2_Missense_Mutation_p.R306C|ARHGEF16_uc001akj.2_Missense_Mutation_p.R306C|ARHGEF16_uc010nzh.1_Missense_Mutation_p.R298C	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	594	PH.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		CAGCGAGGGCCGCCAGGAGCA	0.677													13	17					0	0	1	0	0		T	3395142	T	T	3395142	3	4	16	1	0	0	0	0	1	0	0	0	899	652	23	1	1822	1	ARHGEF16	1	3395142	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1060642	3395142	245855479	3	11678											
MEGF6	1953	broad.mit.edu	37	chr1	3431982	3431982	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacggacacaatgcctgccGtcctcctggagctggaaccc	8	7	10	16	2	1	0	1	0	0	0	3	3	3	3	5	3	4	1	5	3	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:3431982G>A	uc001akl.2	-	6	941	c.714C>T	c.(712-714)GAC>GAT	p.D238D	MEGF6_uc001akk.2_Silent_p.D133D	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	238	EGF-like 4.|EGF-like 3.					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		AATGCCTGCCGTCCTCCTGGA	0.677													3	6					0	0	1	0	0		A	3431982	A	A	3431982	2	1	16	1	0	0	0	0	0	0	0	1	9480	1136	40	1		1	MEGF6	1	3431982	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	36840	3431982	245818639	4	11679											
KIAA0562	9731	broad.mit.edu	37	chr1	3765295	3765295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaactgcagtttccttattCgacatctctccaccatttga	9	15	5	12	1	1	1	0	1	1	0	5	2	3	1	3	0	2	3	3	0	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:3765295C>T	uc001aky.2	-	3	523	c.164G>A	c.(163-165)CGA>CAA	p.R55Q	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Missense_Mutation_p.R55Q	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	55						centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		TTTCCTTATTCGACATCTCTC	0.358													21	45					0	0	1	0	0		T	3765295	T	T	3765295	3	4	16	1	0	0	0	0	1	0	0	0	8200	884	31	1	2693	1	KIAA0562	1	3765295	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	333313	3765295	245485326	5	11680											
DFFB	1677	broad.mit.edu	37	chr1	3789133	3789133	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacctggaacctggatcAcatgtaagctcacagagcga	13	6	10	12	1	2	1	2	0	0	1	2	4	2	3	2	2	4	3	2	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:3789133A>G	uc001alc.2	+	6	1102	c.779A>G	c.(778-780)CAC>CGC	p.H260R	DFFB_uc001ale.2_RNA|DFFB_uc009vlp.2_RNA|DFFB_uc001alb.2_RNA|DFFB_uc010nzn.1_Missense_Mutation_p.H284R|DFFB_uc009vlq.2_RNA|DFFB_uc009vlr.2_Missense_Mutation_p.H211R|DFFB_uc001ald.2_Missense_Mutation_p.H196R	NM_004402	NP_004393	O76075	DFFB_HUMAN	DNA fragmentation factor, 40 kD, beta	260					apoptotic chromosome condensation|DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction	cytosol|nucleoplasm	deoxyribonuclease activity|enzyme binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;2.05e-30)|all_epithelial(116;6.22e-21)|all_lung(118;2.65e-08)|Lung NSC(185;6.25e-06)|Breast(487;0.000659)|Renal(390;0.00121)|all_neural(13;0.0019)|Hepatocellular(190;0.00705)|Colorectal(325;0.0113)|all_hematologic(16;0.0194)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0548)|Medulloblastoma(700;0.211)		Epithelial(90;1.18e-39)|OV - Ovarian serous cystadenocarcinoma(86;7.28e-23)|GBM - Glioblastoma multiforme(42;2.95e-17)|Colorectal(212;1.23e-05)|COAD - Colon adenocarcinoma(227;5.94e-05)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00038)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		AACCTGGATCACATGTAAGCT	0.398													13	38					0	0	1	0	0		G	3789133	G	G	3789133	3	3	16	1	0	0	0	0	1	0	0	0	4459	159	6	3	801	3	DFFB	1	3789133	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	23838	3789133	245461488	6	11681											
CHD5	26038	broad.mit.edu	37	chr1	6169955	6169955	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacttcagccaggcgggcGttgagggccatggcggggtg	5	7	18	11	3	1	1	1	1	0	0	2	1	2	1	3	6	1	1	3	6	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:6169955G>A	uc001amb.1	-	38	5578	c.5478C>T	c.(5476-5478)AAC>AAT	p.N1826N	CHD5_uc001alz.1_Silent_p.N683N|CHD5_uc001ama.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1826					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		CCAGGCGGGCGTTGAGGGCCA	0.657													15	38					0	0	1	0	0		A	6169955	A	A	6169955	2	1	16	1	0	0	0	0	0	0	0	1	3331	1136	40	1		1	CHD5	1	6169955	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2380822	6169955	243080666	7	11682											
CAMTA1	23261	broad.mit.edu	37	chr1	7721916	7721916	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccacaactgcctctgcacCggcagcctgggtgagccggg	7	5	13	16	2	1	1	0	1	1	0	1	1	1	1	5	3	5	2	5	3	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:7721916C>T	uc001aoi.2	+	8	1002	c.795C>T	c.(793-795)ACC>ACT	p.T265T		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	265					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		GCCTCTGCACCGGCAGCCTGG	0.697													4	4					0	0	1	0	0		T	7721916	T	T	7721916	2	4	16	1	0	0	0	0	0	0	0	1	2616	639	23	1		1	CAMTA1	1	7721916	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1551961	7721916	241528705	8	11683											
SLC45A1	50651	broad.mit.edu	37	chr1	8384692	8384692	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttggcatcgagttcagctaCgccatggagacggcgtacgt	8	10	13	10	5	1	1	1	0	0	1	2	3	1	1	1	3	3	4	1	3	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:8384692C>T	uc001apb.2	+	1	303	c.303C>T	c.(301-303)TAC>TAT	p.Y101Y		NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	101	Helical; (Potential).				carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		AGTTCAGCTACGCCATGGAGA	0.632													4	9					0	0	1	0	0		T	8384692	T	T	8384692	2	4	16	1	0	0	0	0	0	0	0	1	14665	547	19	1		1	SLC45A1	1	8384692	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	662776	8384692	240865929	9	11684											
RERE	473	broad.mit.edu	37	chr1	8420774	8420774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggatgggagtggtaggCgggggcttgatgtggggcat	5	9	24	3	1	0	1	0	1	0	0	0	3	0	3	0	9	0	3	0	9	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:8420774C>T	uc001ape.2	-	19	3603	c.2793G>A	c.(2791-2793)CCG>CCA	p.P931P	RERE_uc001apf.2_Silent_p.P931P|RERE_uc010nzx.1_Silent_p.P663P|RERE_uc001apd.2_Silent_p.P377P	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	931	Pro-rich.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		GAGTGGTAGGCGGGGGCTTGA	0.687													3	12					0	0	1	0	0		T	8420774	T	T	8420774	2	4	16	1	0	0	0	0	0	0	0	1	13256	755	27	1		1	RERE	1	8420774	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	36082	8420774	240829847	10	11685											
CA6	765	broad.mit.edu	37	chr1	9017324	9017324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctctgagcacaccgtggacGggatcagacatgtgatcgag	10	7	14	10	3	2	3	1	2	1	1	3	6	2	5	1	2	1	2	1	2	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:9017324G>A	uc001apm.2	+	3	412	c.388G>A	c.(388-390)GGG>AGG	p.G130R	CA6_uc009vmn.2_Missense_Mutation_p.G70R	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	130					one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)		CACCGTGGACGGGATCAGACA	0.483													17	29					0	0	1	0	0		A	9017324	A	A	9017324	3	1	16	1	0	0	0	0	1	0	0	0	2524	1116	39	1	398	1	CA6	1	9017324	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	596550	9017324	240233297	11	11686											
SPSB1	80176	broad.mit.edu	37	chr1	9416314	9416315	+	Frame_Shift_Ins	INS	-	C	C																															gggggtggcgacggcagacgINScccccctgcactctgtcggg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:9416314_9416315insC	uc010oae.1	+	2	703_704	c.364_365insC	c.(364-366)GCCfs	p.A122fs	SPSB1_uc001apv.2_Frame_Shift_Ins_p.A122fs	NM_025106	NP_079382	Q96BD6	SPSB1_HUMAN	splA/ryanodine receptor domain and SOCS box	122	B30.2/SPRY.				intracellular signal transduction	cytoplasm					0	all_lung(157;0.194)	all_epithelial(116;4.38e-15)|all_lung(118;0.000156)|Lung NSC(185;0.000446)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;2.72e-07)|COAD - Colon adenocarcinoma(227;9.12e-05)|Kidney(185;0.000296)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00193)|BRCA - Breast invasive adenocarcinoma(304;0.00202)|READ - Rectum adenocarcinoma(331;0.0419)		GACGGCAGACGCCCCCCTGCAC	0.658													19	33	---	---	---	---						.	C	9416315	C	C	9416314	7	5	16	1	0	1	1	0	0	0	0	0	15137	1087	38	0	366	0	SPSB1	1	9416314	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	398990	9416314	239834307	12	11687											
TMEM201	199953	broad.mit.edu	37	chr1	9656943	9656943	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactacaacaagccgatcccCgcccagtacttggagcacct	11	6	8	16	2	0	0	0	0	0	0	1	3	1	1	5	1	5	2	5	1	4	3	rs143914018		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:9656943C>T	uc001apz.2	+	3	273	c.261C>T	c.(259-261)CCC>CCT	p.P87P	TMEM201_uc001apy.2_Silent_p.P87P	NM_001130924	NP_001124396	Q5SNT2	TM201_HUMAN	transmembrane protein 201 isoform 1	87						integral to membrane|nuclear inner membrane					0	all_lung(157;0.222)	all_epithelial(116;2.09e-14)|Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|STAD - Stomach adenocarcinoma(132;0.00345)|READ - Rectum adenocarcinoma(331;0.0419)		AGCCGATCCCCGCCCAGTACT	0.672													15	19					0	0	1	0	0		T	9656943	T	T	9656943	2	4	16	1	0	0	0	0	0	0	0	1	16151	639	23	1		1	TMEM201	1	9656943	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	240629	9656943	239593678	13	11688											
NMNAT1	64802	broad.mit.edu	37	chr1	10042553	10042553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaccggagcaacattcacGtggtgaatgaatggatcgct	13	8	11	9	3	1	2	1	2	0	0	2	4	1	4	1	3	3	2	1	3	4	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:10042553G>A	uc001aqp.2	+	5	778	c.634G>A	c.(634-636)GTG>ATG	p.V212M		NM_022787	NP_073624	Q9HAN9	NMNA1_HUMAN	nicotinamide mononucleotide adenylyltransferase	212					water-soluble vitamin metabolic process	nucleoplasm	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity|protein binding				0		all_lung(284;0.000407)|Renal(390;0.000469)|Lung NSC(185;0.000577)|Colorectal(325;0.0062)|Breast(348;0.00686)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.31e-08)|COAD - Colon adenocarcinoma(227;1.54e-05)|Kidney(185;0.00028)|BRCA - Breast invasive adenocarcinoma(304;0.00032)|KIRC - Kidney renal clear cell carcinoma(229;0.00101)|STAD - Stomach adenocarcinoma(132;0.00908)|READ - Rectum adenocarcinoma(331;0.0419)		CAACATTCACGTGGTGAATGA	0.483													41	88					0	0	1	0	0		A	10042553	A	A	10042553	3	1	16	1	0	0	0	0	1	0	0	0	10517	1145	40	1	648	1	NMNAT1	1	10042553	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	385610	10042553	239208068	14	11689											
CASZ1	54897	broad.mit.edu	37	chr1	10706296	10706296	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggattcggccttgccagaCgttttgcagacgtacttgca	7	12	12	10	3	0	2	0	0	0	2	1	3	0	3	2	2	4	4	2	2	1	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:10706296C>T	uc001aro.2	-	17	3905	c.3585G>A	c.(3583-3585)ACG>ACA	p.T1195T		NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	1195					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		CCTTGCCAGACGTTTTGCAGA	0.537													20	43					0	0	1	0	0		T	10706296	T	T	10706296	2	4	16	1	0	0	0	0	0	0	0	1	2688	523	19	1		1	CASZ1	1	10706296	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	663743	10706296	238544325	15	11690											
MTOR	2475	broad.mit.edu	37	chr1	11168277	11168277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaggttttcatgggatgtcGcttgtttgatgagcagctca	8	14	13	6	1	2	3	2	2	0	1	3	4	2	4	0	2	2	5	0	2	0	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:11168277G>A	uc001asd.2	-	57	7716	c.7595C>T	c.(7594-7596)GCG>GTG	p.A2532V	MTOR_uc001asc.2_Missense_Mutation_p.A737V	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	2532	FATC.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						ATGGGATGTCGCTTGTTTGAT	0.473													31	74					0	0	1	0	0		A	11168277	A	A	11168277	3	1	16	1	0	0	0	0	1	0	0	0	9972	1087	38	1	62	1	MTOR	1	11168277	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	461981	11168277	238082344	16	11691											
PRDM2	7799	broad.mit.edu	37	chr1	14107246	14107246	+	Frame_Shift_Del	DEL	C	-	-																															tattaactgttgccactccgCcccctcccctccttcctacc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:14107246delC	uc001avi.2	+	8	3812	c.2956delC	c.(2956-2958)CCCfs	p.P986fs	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Frame_Shift_Del_p.P986fs|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Frame_Shift_Del_p.P785fs|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	986	Pro-rich.|SH3-binding (Potential).					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		TGCCACTCCGCCCCCTCCCCT	0.617													44	59	---	---	---	---						.	-	14107246	-	-	14107246	7	5	16	1	0	1	0	1	0	0	0	0	12480	739	26	0	2982	0	PRDM2	1	14107246	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	2938969	14107246	235143375	17	11692											
PRDM2	7799	broad.mit.edu	37	chr1	14107892	14107893	+	Frame_Shift_Ins	INS	-	T	T																															gtttgtaaaaaagaatttgcINSttttttgtgcaatttgcagc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:14107892_14107893insT	uc001avi.2	+	8	4458_4459	c.3602_3603insT	c.(3601-3603)GCTfs	p.A1201fs	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Frame_Shift_Ins_p.A1201fs|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Frame_Shift_Ins_p.A1000fs|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1201	C2H2-type 6.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		AAAGAATTTGCTTTTTTGTGCA	0.431													51	102	---	---	---	---						.	T	14107893	T	T	14107892	7	5	16	1	0	1	1	0	0	0	0	0	12480	797	28	0	3628	0	PRDM2	1	14107892	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	646	14107892	235142729	18	11693											
KAZ	23254	broad.mit.edu	37	chr1	15428216	15428216	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtccaagaagttccaccaGgtcagcatcctgctggggat	9	9	12	11	0	1	1	1	0	0	1	4	2	4	2	4	3	2	3	4	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:15428216G>T	uc001avm.3	+	11	2006	c.1725G>T	c.(1723-1725)CAG>CAT	p.Q575H	KAZ_uc001avs.3_Missense_Mutation_p.Q22H	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	575	SAM 2.				keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						AGTTCCACCAGGTCAGCATCC	0.597													11	15					2.62699e-14	2.81378e-14	1	1	0		T	15428216	T	T	15428216	3	4	16	1	0	0	0	0	1	0	0	0	8004	991	35	5	2023	5	KAZ	1	15428216	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1320324	15428216	233822405	19	11694											
RSC1A1	6248	broad.mit.edu	37	chr1	15987413	15987413	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagaagaatcttgcccGtctataacggcagccttgaa	12	9	9	11	2	3	3	1	1	2	2	3	3	3	3	2	1	4	2	2	1	5	4	rs142914242		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:15987413G>A	uc010obn.1	+	1	1050	c.1050G>A	c.(1048-1050)CCG>CCA	p.P350P		NM_006511	NP_006502	Q92681	RSCA1_HUMAN	regulatory solute carrier protein, family 1,	350					negative regulation of transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transport	cell junction|Golgi apparatus|nucleus	ion channel inhibitor activity			ovary(1)	1		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00276)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AATCTTGCCCGTCTATAACGG	0.408													14	31					0	0	1	0	0		A	15987413	A	A	15987413	2	1	16	1	0	0	0	0	0	0	0	1	13723	1132	40	1		1	RSC1A1	1	15987413	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	559197	15987413	233263208	20	11695											
ARHGEF19	128272	broad.mit.edu	37	chr1	16525645	16525645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccaggaggccccctcacCgtcactggtccaggtcctca	6	8	9	18	1	3	0	3	0	0	0	6	1	6	1	6	4	0	0	6	4	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:16525645C>T	uc001ayc.1	-	15	2388	c.2251G>A	c.(2251-2253)GGC>AGC	p.G751S	ARHGEF19_uc009voo.1_Missense_Mutation_p.G104S|ARHGEF19_uc001ayb.1_Missense_Mutation_p.G228S	NM_153213	NP_694945	Q8IW93	ARHGJ_HUMAN	Rho guanine nucleotide exchange factor (GEF) 19	751	SH3.				regulation of actin cytoskeleton organization	intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|Colorectal(212;3.48e-07)|COAD - Colon adenocarcinoma(227;2.19e-05)|BRCA - Breast invasive adenocarcinoma(304;9.46e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.0117)|READ - Rectum adenocarcinoma(331;0.0649)		GCCCCCTCACCGTCACTGGTC	0.557													18	33					0	0	1	0	0		T	16525645	T	T	16525645	3	4	16	1	0	0	0	0	1	0	0	0	902	666	23	1	165	1	ARHGEF19	1	16525645	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	538232	16525645	232724976	21	11696											
PADI2	11240	broad.mit.edu	37	chr1	17431556	17431556	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggccccggctggggccgcGctgtggggagagatgagaga	6	5	21	9	3	0	3	0	1	0	2	0	6	0	4	3	6	0	2	3	6	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:17431556G>A	uc001baf.2	-	2	175	c.93C>T	c.(91-93)AGC>AGT	p.S31S	PADI2_uc010ocm.1_Silent_p.S31S|PADI2_uc001bag.1_Silent_p.S31S	NM_007365	NP_031391	Q9Y2J8	PADI2_HUMAN	peptidyl arginine deiminase, type II	31					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(3)|pancreas(1)|central_nervous_system(1)|skin(1)	6		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000422)|Renal(390;0.000518)|all_lung(284;0.000546)|Ovarian(437;0.00671)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;1.49e-05)|COAD - Colon adenocarcinoma(227;1.54e-05)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)	L-Citrulline(DB00155)	CTGGGGCCGCGCTGTGGGGAG	0.572													7	7					0	0	1	0	0		A	17431556	A	A	17431556	2	1	16	1	0	0	0	0	0	0	0	1	11397	1101	38	1		1	PADI2	1	17431556	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	905911	17431556	231819065	22	11697											
PAX7	5081	broad.mit.edu	37	chr1	19062344	19062344	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagcgtggaccccgtggcCggctatcagtacggccagta	8	7	13	13	4	1	0	1	0	0	0	1	1	1	1	4	4	3	3	4	4	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:19062344C>T	uc001bay.2	+	8	1972	c.1374C>T	c.(1372-1374)GCC>GCT	p.A458A	PAX7_uc001baz.2_Silent_p.A456A|PAX7_uc010oct.1_Silent_p.A458A	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	458					anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	p.A458A(1)	PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		ACCCCGTGGCCGGCTATCAGT	0.672			T	FOXO1A	alveolar rhabdomyosarcoma								7	13					0	0	1	0	0		T	19062344	T	T	19062344	2	4	16	1	0	0	0	0	0	0	0	1	11503	639	23	1		1	PAX7	1	19062344	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1630788	19062344	230188277	23	11698											
HSPG2	3339	broad.mit.edu	37	chr1	22181934	22181934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttggactctgggcccacCgccccctgcagacagagtcc	7	6	10	18	1	1	2	0	0	1	2	2	3	2	3	5	2	1	1	5	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:22181934C>T	uc001bfj.2	-	47	5900	c.5860G>A	c.(5860-5862)GGT>AGT	p.G1954S	HSPG2_uc009vqd.2_Missense_Mutation_p.G1955S	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	1954	Ig-like C2-type 4.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CTGGGCCCACCGCCCCCTGCA	0.687													6	16					0	0	1	0	0		T	22181934	T	T	22181934	3	4	16	1	0	0	0	0	1	0	0	0	7446	652	23	1	7519	1	HSPG2	1	22181934	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3119590	22181934	227068687	24	11699											
EPHB2	2048	broad.mit.edu	37	chr1	23208938	23208938	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagccggaccagcccaatGgcgtgatcctggactatgag	9	6	12	14	2	0	2	0	2	0	0	1	4	1	4	5	3	2	0	5	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:23208938G>A	uc009vqj.1	+	6	1535	c.1390G>A	c.(1390-1392)GGC>AGC	p.G464S	EPHB2_uc001bge.2_Missense_Mutation_p.G464S|EPHB2_uc001bgf.2_Missense_Mutation_p.G464S|EPHB2_uc010odu.1_Missense_Mutation_p.G464S	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	464	Fibronectin type-III 2.|Extracellular (Potential).				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		CCAGCCCAATGGCGTGATCCT	0.612									Hereditary_Prostate_Cancer				40	63					0	0	1	0	0		A	23208938	A	A	23208938	3	1	16	1	0	0	0	0	1	0	0	0	5183	1348	47	4	1412	4	EPHB2	1	23208938	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1027004	23208938	226041683	25	11700											
ASAP3	55616	broad.mit.edu	37	chr1	23760793	23760793	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagcagcttgaggcagtcGggctggttgtagagtgctgc	7	9	17	8	1	0	2	0	1	0	1	1	2	0	2	0	3	5	8	0	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:23760793G>T	uc001bha.2	-	19	2029	c.1905C>A	c.(1903-1905)CCC>CCA	p.P635P	ASAP3_uc001bgy.1_Silent_p.P139P|ASAP3_uc001bgz.1_RNA|ASAP3_uc010odz.1_Silent_p.P504P|ASAP3_uc010oea.1_Silent_p.P626P|ASAP3_uc001bhb.2_Silent_p.P158P	NM_017707	NP_060177	Q8TDY4	ASAP3_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	635	ANK 2.				regulation of ARF GTPase activity	cytoplasm	ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						TGAGGCAGTCGGGCTGGTTGT	0.493													32	48					3.86903e-22	4.22888e-22	1	1	0		T	23760793	T	T	23760793	2	4	16	1	0	0	0	0	0	0	0	1	1013	1103	39	5		5	ASAP3	1	23760793	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	551855	23760793	225489828	26	11701											
EXTL1	2134	broad.mit.edu	37	chr1	26357744	26357744	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggacttccccttctactAcctgcaacagggtatgccct	8	10	7	16	0	1	0	0	0	1	0	2	1	2	1	5	2	5	2	5	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:26357744A>G	uc001blf.2	+	5	2090	c.1223A>G	c.(1222-1224)TAC>TGC	p.Y408C		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	408	Lumenal (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		CCCTTCTACTACCTGCAACAG	0.612													18	29					0	0	1	0	0		G	26357744	G	G	26357744	3	3	16	1	0	0	0	0	1	0	0	0	5333	391	14	3	1241	3	EXTL1	1	26357744	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	2596951	26357744	222892877	27	11702											
ARID1A	8289	broad.mit.edu	37	chr1	27106862	27106862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgcgcttcctcagtgaccGaaagaacccggtgtgccggg	7	7	15	12	4	1	2	1	1	0	1	2	3	2	2	4	3	3	1	4	3	2	1	rs142069738		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:27106862G>A	uc001bmv.1	+	20	6846	c.6473G>A	c.(6472-6474)CGA>CAA	p.R2158Q	ARID1A_uc001bmu.1_Missense_Mutation_p.R1941Q|ARID1A_uc001bmx.1_Missense_Mutation_p.R1004Q|ARID1A_uc009vsm.1_Missense_Mutation_p.R486Q|ARID1A_uc009vsn.1_Missense_Mutation_p.R400Q	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2158					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.R2158*(1)		ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CTCAGTGACCGAAAGAACCCG	0.597			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								27	61					0	0	1	0	0		A	27106862	A	A	27106862	3	1	16	1	0	0	0	0	1	0	0	0	913	1058	37	1	6551	1	ARID1A	1	27106862	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	749118	27106862	222143759	28	11703											
MAP3K6	9064	broad.mit.edu	37	chr1	27687696	27687696	+	Frame_Shift_Del	DEL	G	-	-																															acagctggacgtcctgagccGgggggagtgcatagaggaag																								rs139401154		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:27687696delG	uc001bny.1	-	13	2033	c.1784delC	c.(1783-1785)CCGfs	p.P595fs	MAP3K6_uc009vsw.1_Frame_Shift_Del_p.P587fs|MAP3K6_uc001bnz.1_Frame_Shift_Del_p.P118fs	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	595					activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		GTCCTGAGCCGGGGGGAGTGC	0.662													9	14	---	---	---	---						.	-	27687696	-	-	27687696	7	5	16	1	0	1	0	1	0	0	0	0	9272	1116	39	0	2150	0	MAP3K6	1	27687696	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	580834	27687696	221562925	29	11704											
MATN1	4146	broad.mit.edu	37	chr1	31194535	31194535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctcaaattcaacaggcCgaacgctgcgagagctgtcg	10	9	10	12	4	2	1	2	0	1	1	4	3	2	1	1	1	4	2	1	1	3	2	rs147880584		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:31194535C>T	uc001brz.2	-	2	192	c.158G>A	c.(157-159)CGG>CAG	p.R53Q	uc001bsb.1_RNA|MATN1_uc001bsa.1_5'Flank	NM_002379	NP_002370	P21941	MATN1_HUMAN	matrilin 1, cartilage matrix protein precursor	53	VWFA 1.				protein complex assembly	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			central_nervous_system(1)	1		Colorectal(325;0.00792)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)|Ovarian(437;0.0563)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-05)|COAD - Colon adenocarcinoma(152;0.000726)|STAD - Stomach adenocarcinoma(196;0.0183)|READ - Rectum adenocarcinoma(331;0.0649)		TTCAACAGGCCGAACGCTGCG	0.607													36	71					0	0	1	0	0		T	31194535	T	T	31194535	3	4	16	1	0	0	0	0	1	0	0	0	9351	652	23	1	1360	1	MATN1	1	31194535	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3506839	31194535	218056086	30	11705											
PUM1	9698	broad.mit.edu	37	chr1	31452917	31452917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaatgtctcacctagtgtcGctgctgcagccaatccagct	9	10	9	13	1	1	1	1	0	1	1	4	1	2	1	3	0	4	4	3	0	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:31452917G>A	uc001bsi.1	-	9	1459	c.1346C>T	c.(1345-1347)GCG>GTG	p.A449V	PUM1_uc001bsf.1_Missense_Mutation_p.A115V|PUM1_uc001bsg.1_Missense_Mutation_p.A262V|PUM1_uc001bsh.1_Missense_Mutation_p.A449V|PUM1_uc001bsj.1_Missense_Mutation_p.A450V|PUM1_uc010oga.1_Missense_Mutation_p.A353V|PUM1_uc001bsk.1_Missense_Mutation_p.A485V|PUM1_uc010ogb.1_Missense_Mutation_p.A390V	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	449	Ala-rich.				cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		ACCTAGTGTCGCTGCTGCAGC	0.493													7	11					0	0	1	0	0		A	31452917	A	A	31452917	3	1	16	1	0	0	0	0	1	0	0	0	12850	1087	38	1	2276	1	PUM1	1	31452917	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	258382	31452917	217797704	31	11706											
TMEM39B	55116	broad.mit.edu	37	chr1	32557419	32557419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgacactgcgggagaCgtggaagcagcacacaagac	12	4	12	13	2	0	3	0	1	0	2	1	5	1	4	2	2	3	2	2	2	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:32557419C>T	uc010ogv.1	+	6	880	c.734C>T	c.(733-735)ACG>ATG	p.T245M	TMEM39B_uc010ogt.1_RNA|TMEM39B_uc010ogu.1_Missense_Mutation_p.T118M|TMEM39B_uc001bue.3_Missense_Mutation_p.T246M|TMEM39B_uc001buf.3_Missense_Mutation_p.T46M|TMEM39B_uc010ogw.1_Missense_Mutation_p.T46M	NM_018056	NP_060526	Q9GZU3	TM39B_HUMAN	transmembrane protein 39B	245						integral to membrane					0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				CTGCGGGAGACGTGGAAGCAG	0.642													6	32					0	0	1	0	0		T	32557419	T	T	32557419	3	4	16	1	0	0	0	0	1	0	0	0	16187	536	19	1	756	1	TMEM39B	1	32557419	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1104502	32557419	216693202	32	11707											
IQCC	55721	broad.mit.edu	37	chr1	32672879	32672879	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acactgagatccccagaggcGggcccgatcagagaggaacc	12	3	13	13	2	1	3	1	1	0	3	2	7	2	4	4	3	1	0	4	3	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:32672879G>A	uc001bum.2	+	5	644	c.597G>A	c.(595-597)GCG>GCA	p.A199A	IQCC_uc009vua.2_Silent_p.A279A|IQCC_uc010ogz.1_Silent_p.A99A|DCDC2B_uc001bun.2_5'Flank	NM_018134	NP_060604	Q4KMZ1	IQCC_HUMAN	IQ motif containing C isoform 2	199										ovary(4)	4		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CCCCAGAGGCGGGCCCGATCA	0.567													49	66					0	0	1	0	0		A	32672879	A	A	32672879	2	1	16	1	0	0	0	0	0	0	0	1	7820	1103	39	1		1	IQCC	1	32672879	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	115460	32672879	216577742	33	11708											
GJA4	2701	broad.mit.edu	37	chr1	35260514	35260514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttggtgcacctgctgtgtCgctgcctcagccgggggatg	4	10	16	11	2	1	0	1	0	0	0	2	1	1	1	3	3	4	4	3	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:35260514C>T	uc001bya.2	+	2	788	c.700C>T	c.(700-702)CGC>TGC	p.R234C	GJA4_uc009vul.2_Missense_Mutation_p.R310C|GJA4_uc009vum.1_Missense_Mutation_p.R234C	NM_002060	NP_002051	P35212	CXA4_HUMAN	connexin 37	234	Cytoplasmic (Potential).				cell-cell junction assembly	integral to plasma membrane				central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				CCTGCTGTGTCGCTGCCTCAG	0.602													17	24					0	0	1	0	0		T	35260514	T	T	35260514	3	4	16	1	0	0	0	0	1	0	0	0	6418	884	31	1	702	1	GJA4	1	35260514	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2587635	35260514	213990107	34	11709											
NCDN	23154	broad.mit.edu	37	chr1	36026733	36026733	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcactggaggagacgggcacGgaggtgaaagaggatgtggt	11	5	20	5	2	0	3	0	1	0	2	0	7	0	6	0	7	0	2	0	7	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:36026733G>A	uc001bza.2	+	4	1108	c.981G>A	c.(979-981)ACG>ACA	p.T327T	NCDN_uc001bzb.2_Silent_p.T327T|NCDN_uc001bzc.2_Silent_p.T310T	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	327					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				AGACGGGCACGGAGGTGAAAG	0.627													7	9					0	0	1	0	0		A	36026733	A	A	36026733	2	1	16	1	0	0	0	0	0	0	0	1	10233	1103	39	1		1	NCDN	1	36026733	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	766219	36026733	213223888	35	11710											
THRAP3	9967	broad.mit.edu	37	chr1	36757051	36757051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaaaaaggaacaggagtttCgttccattttccagcacata	15	10	7	9	1	0	0	0	0	0	0	3	2	2	2	2	2	2	3	2	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:36757051C>T	uc001cae.3	+	6	2046	c.1822C>T	c.(1822-1824)CGT>TGT	p.R608C	THRAP3_uc001caf.3_Missense_Mutation_p.R608C	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	608					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				ACAGGAGTTTCGTTCCATTTT	0.463			T	USP6	aneurysmal bone cysts								26	43					0	0	1	0	0		T	36757051	T	T	36757051	3	4	16	1	0	0	0	0	1	0	0	0	15899	884	31	1	1836	1	THRAP3	1	36757051	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	730318	36757051	212493570	36	11711											
MTF1	4520	broad.mit.edu	37	chr1	38288328	38288328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaagatgctgaatttcctGtggatggcggaacatcactg	12	11	11	7	1	1	2	1	1	0	1	2	4	2	4	1	3	2	1	1	3	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:38288328G>A	uc001cce.1	-	9	1373	c.1232C>T	c.(1231-1233)ACA>ATA	p.T411I	MTF1_uc009vvj.1_Missense_Mutation_p.T102I	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	411						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TGAATTTCCTGTGGATGGCGG	0.473													10	45					0	0	1	0	0		A	38288328	A	A	38288328	3	1	16	1	0	0	0	0	1	0	0	0	9940	1377	48	4	1041	4	MTF1	1	38288328	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1531277	38288328	210962293	37	11712											
MTF1	4520	broad.mit.edu	37	chr1	38305655	38305655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaaatggcttctccttcGtgtgcactcgcacgtggatc	7	12	9	13	3	2	0	1	0	1	0	6	1	2	1	1	2	1	3	1	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:38305655G>A	uc001cce.1	-	3	725	c.584C>T	c.(583-585)ACG>ATG	p.T195M	MTF1_uc009vvj.1_Translation_Start_Site	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	195						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CTTCTCCTTCGTGTGCACTCG	0.537													24	45					0	0	1	0	0		A	38305655	A	A	38305655	3	1	16	1	0	0	0	0	1	0	0	0	9940	1145	40	1	1713	1	MTF1	1	38305655	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	17327	38305655	210944966	38	11713											
NT5C1A	84618	broad.mit.edu	37	chr1	40131856	40131856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgctgctcctcgtccatgCgaaacaaggctcgggaggac	8	8	12	13	3	1	0	0	0	1	0	5	3	3	2	2	3	4	3	2	3	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:40131856C>T	uc001cdq.1	-	2	188	c.188G>A	c.(187-189)CGC>CAC	p.R63H		NM_032526	NP_115915	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	63					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CTCGTCCATGCGAAACAAGGC	0.597													4	63					0	0	1	0	0		T	40131856	T	T	40131856	3	4	16	1	0	0	0	0	1	0	0	0	10704	768	27	1	938	1	NT5C1A	1	40131856	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1826201	40131856	209118765	39	11714											
FOXJ3	22887	broad.mit.edu	37	chr1	42776750	42776750	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacagatggacaagcctgTccatacaaacccatctggcc	12	8	8	13	0	1	1	0	0	1	1	2	2	2	2	4	2	4	1	4	2	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:42776750T>A	uc001che.2	-	4	327	c.15A>T	c.(13-15)GGA>GGT	p.G5G	FOXJ3_uc001chf.2_Silent_p.G5G|FOXJ3_uc001chg.2_Silent_p.G5G|FOXJ3_uc001chh.1_Silent_p.G5G	NM_014947	NP_055762	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	5					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)	2	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GACAAGCCTGTCCATACAAAC	0.328													10	28					0	0	1	0	0		A	42776750	A	A	42776750	2	1	16	1	0	0	0	0	0	0	0	1	6027	1654	58	5		5	FOXJ3	1	42776750	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2644894	42776750	206473871	40	11715											
TIE1	7075	broad.mit.edu	37	chr1	43770692	43770692	+	Frame_Shift_Del	DEL	C	-	-																															tgcgcaccccgcccgggccaCccctgcgcctggcgcgcaac																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:43770692delC	uc001ciu.2	+	2	308	c.229delC	c.(229-231)CCCfs	p.P77fs	TIE1_uc010okd.1_Frame_Shift_Del_p.P77fs|TIE1_uc010oke.1_Frame_Shift_Del_p.P32fs|TIE1_uc009vwq.2_Frame_Shift_Del_p.P77fs|TIE1_uc010okf.1_5'UTR|TIE1_uc010okg.1_5'Flank|TIE1_uc010oka.1_Frame_Shift_Del_p.P77fs|TIE1_uc010okb.1_Frame_Shift_Del_p.P77fs|TIE1_uc010okc.1_Frame_Shift_Del_p.P77fs	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	77	Extracellular (Potential).|Ig-like C2-type 1.				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GCCCGGGCCACCCCTGCGCCT	0.746													3	6	---	---	---	---						.	-	43770692	-	-	43770692	7	5	16	1	0	1	0	1	0	0	0	0	15918	507	18	0	235	0	TIE1	1	43770692	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	993942	43770692	205479929	41	11716											
PTPRF	5792	broad.mit.edu	37	chr1	44069662	44069662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggcggagaggaacgggCgcatcatcagctacaccgtg	9	6	15	11	4	2	1	2	0	0	1	2	3	2	2	1	4	4	3	1	4	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:44069662C>T	uc001cjr.2	+	16	3179	c.2839C>T	c.(2839-2841)CGC>TGC	p.R947C	PTPRF_uc001cjs.2_Missense_Mutation_p.R938C|PTPRF_uc001cju.2_Intron|PTPRF_uc009vwt.2_Missense_Mutation_p.R507C|PTPRF_uc001cjv.2_Missense_Mutation_p.R407C|PTPRF_uc001cjw.2_Missense_Mutation_p.R173C	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	947	Fibronectin type-III 7.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GAGGAACGGGCGCATCATCAG	0.602													14	22					0	0	1	0	0		T	44069662	T	T	44069662	3	4	16	1	0	0	0	0	1	0	0	0	12826	768	27	1	2893	1	PTPRF	1	44069662	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	298970	44069662	205180959	42	11717											
TOE1	114034	broad.mit.edu	37	chr1	45809251	45809251	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctggaccctggctcccTgaatgccacaataaggtata	11	9	9	12	0	1	1	0	1	1	0	2	2	2	2	3	3	2	3	3	3	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:45809251T>C	uc009vxq.2	+	8	1993	c.1410T>C	c.(1408-1410)CCT>CCC	p.P470P	TOE1_uc001cnq.3_RNA|TOE1_uc010olm.1_Silent_p.P390P|TOE1_uc001cnr.3_RNA	NM_025077	NP_079353	Q96GM8	TOE1_HUMAN	target of EGR1, member 1 (nuclear)	470						nuclear speck|nucleolus	nucleic acid binding|zinc ion binding			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)					CCTGGCTCCCTGAATGCCACA	0.532													18	41					0	0	1	0	0		C	45809251	C	C	45809251	2	2	16	1	0	0	0	0	0	0	0	1	16374	1567	55	3		3	TOE1	1	45809251	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1739589	45809251	203441370	43	11718											
TESK2	10420	broad.mit.edu	37	chr1	45813598	45813598	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggctacacacctgacatcGgggatcttctcagccaggcc	9	7	11	14	1	2	1	1	1	2	0	4	2	2	2	3	4	2	1	3	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:45813598G>A	uc001cns.1	-	6	1018	c.615C>T	c.(613-615)CCC>CCT	p.P205P	TESK2_uc009vxr.1_Silent_p.P205P|TESK2_uc010olo.1_Silent_p.P122P|TESK2_uc009vxs.1_5'UTR	NM_007170	NP_009101	Q96S53	TESK2_HUMAN	testis-specific protein kinase 2	205	Protein kinase.				actin cytoskeleton organization|focal adhesion assembly|spermatogenesis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(2)|pancreas(1)	5	Acute lymphoblastic leukemia(166;0.155)					ACCTGACATCGGGGATCTTCT	0.542													17	40					0	0	1	0	0		A	45813598	A	A	45813598	2	1	16	1	0	0	0	0	0	0	0	1	15793	1103	39	1		1	TESK2	1	45813598	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4347	45813598	203437023	44	11719											
CCDC17	149483	broad.mit.edu	37	chr1	46088681	46088681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacacctctagagctcccCgcgtcctcccggcctcagct	6	7	7	21	3	2	1	1	0	1	1	5	1	5	1	7	1	3	2	7	1	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:46088681C>T	uc010olt.1	-	4	750	c.602G>A	c.(601-603)CGG>CAG	p.R201Q	CCDC17_uc009vxy.2_Missense_Mutation_p.R169Q|CCDC17_uc010ols.1_Missense_Mutation_p.R192Q|CCDC17_uc001com.3_Missense_Mutation_p.R22Q|CCDC17_uc001con.3_RNA|CCDC17_uc009vxz.2_Intron	NM_001114938	NP_001108410	Q96LX7	CCD17_HUMAN	coiled-coil domain containing 17	201	Potential.									ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TAGAGCTCCCCGCGTCCTCCC	0.672													3	11					0	0	1	0	0		T	46088681	T	T	46088681	3	4	16	1	0	0	0	0	1	0	0	0	2796	652	23	1	1306	1	CCDC17	1	46088681	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	275083	46088681	203161940	45	11720											
GLIS1	148979	broad.mit.edu	37	chr1	54059810	54059810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgggcttctcgcccgagtGcactcgcatgtggatgagca	6	10	14	11	3	1	1	0	1	1	0	3	3	1	2	1	2	2	5	1	2	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:54059810G>A	uc001cvr.1	-	3	1333	c.766C>T	c.(766-768)CAC>TAC	p.H256Y		NM_147193	NP_671726	Q8NBF1	GLIS1_HUMAN	GLIS family zinc finger 1	256	C2H2-type 2; atypical.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			skin(1)	1						TCGCCCGAGTGCACTCGCATG	0.662													7	20					0	0	1	0	0		A	54059810	A	A	54059810	3	1	16	1	0	0	0	0	1	0	0	0	6460	1319	46	2	1128	2	GLIS1	1	54059810	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	7971129	54059810	195190811	46	11721											
INADL	10207	broad.mit.edu	37	chr1	62503676	62503676	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcagtcaatcagatggcCgttactccctttccagtgcc	8	11	9	13	1	2	1	2	0	0	1	4	2	4	1	4	1	3	2	4	1	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:62503676C>T	uc001dab.2	+	30	4101	c.3987C>T	c.(3985-3987)GCC>GCT	p.A1329A	INADL_uc009waf.1_Silent_p.A1329A|INADL_uc001daa.2_Silent_p.A1329A|INADL_uc001dad.3_Silent_p.A1026A|INADL_uc001dac.2_RNA|INADL_uc010oot.1_Silent_p.A113A|INADL_uc009wag.2_Silent_p.A113A|INADL_uc010oou.1_Silent_p.A2A	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1329					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						ATCAGATGGCCGTTACTCCCT	0.378													28	72					0	0	1	0	0		T	62503676	T	T	62503676	2	4	16	1	0	0	0	0	0	0	0	1	7747	639	23	1		1	INADL	1	62503676	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	8443866	62503676	186746945	47	11722											
MIER1	57708	broad.mit.edu	37	chr1	67450349	67450349	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaacaggtggaaataagaaAccacttcatgcagatatgga	17	7	9	8	0	1	2	1	0	0	2	1	4	1	4	2	3	3	1	2	3	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:67450349A>C	uc001dde.2	+	14	1598	c.1464A>C	c.(1462-1464)AAA>AAC	p.K488N	MIER1_uc010opf.1_Intron|MIER1_uc009way.2_Intron|MIER1_uc001ddc.2_Intron|MIER1_uc001ddh.2_Intron|MIER1_uc001ddf.2_Missense_Mutation_p.K452N|MIER1_uc001ddg.2_Missense_Mutation_p.K408N|MIER1_uc010opg.1_Missense_Mutation_p.K452N|MIER1_uc001ddj.1_Missense_Mutation_p.K435N|MIER1_uc001ddi.2_Intron	NM_001077700	NP_001071168	Q8N108	MIER1_HUMAN	mesoderm induction early response 1 isoform b	459					positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)	1						GAAATAAGAAACCACTTCATG	0.363													24	82					0	0	1	0	0		C	67450349	C	C	67450349	3	2	16	1	0	0	0	0	1	0	0	0	9598	40	2	5	1595	5	MIER1	1	67450349	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	4946673	67450349	181800272	48	11723											
SERBP1	26135	broad.mit.edu	37	chr1	67880887	67880887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtttgggcgcccaccacGcccacgtccacctcgtcctc	5	7	9	20	5	0	0	0	0	0	0	4	0	2	0	6	2	0	1	6	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:67880887G>A	uc001ddv.2	-	7	1272	c.1132C>T	c.(1132-1134)CGT>TGT	p.R378C	SERBP1_uc001ddx.2_Missense_Mutation_p.R372C|SERBP1_uc001ddy.2_Missense_Mutation_p.R357C|SERBP1_uc001ddw.2_Missense_Mutation_p.R363C	NM_001018067	NP_001018077	Q8NC51	PAIRB_HUMAN	SERPINE1 mRNA binding protein 1 isoform 1	378					regulation of mRNA stability	nucleus|perinuclear region of cytoplasm	mRNA 3'-UTR binding|protein binding			skin(1)	1						CGCCCACCACGCCCACGTCCA	0.532													12	30					0	0	1	0	0		A	67880887	A	A	67880887	3	1	16	1	0	0	0	0	1	0	0	0	14100	1087	38	1	102	1	SERBP1	1	67880887	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	430538	67880887	181369734	49	11724											
TNNI3K	51086	broad.mit.edu	37	chr1	74957869	74957869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaccggggaggacctggccGgagtcatgtggcagcattaa	10	6	16	9	2	1	0	1	0	0	0	1	4	1	3	3	6	2	2	3	6	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:74957869G>A	uc001dgf.1	+	23	2321	c.2270G>A	c.(2269-2271)CGG>CAG	p.R757Q	TNNI3K_uc001dge.1_Missense_Mutation_p.R858Q	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	757						cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						GGACCTGGCCGGAGTCATGTG	0.488													49	105					0	0	1	0	0		A	74957869	A	A	74957869	3	1	16	1	0	0	0	0	1	0	0	0	16354	1116	39	1	2715	1	TNNI3K	1	74957869	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	7076982	74957869	174292752	50	11725											
C1orf173	127254	broad.mit.edu	37	chr1	75037295	75037295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttgctattgttttctcctCggctgtctccgaacctgcca	5	16	7	13	2	2	0	0	0	2	0	5	1	2	0	4	1	3	3	4	1	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:75037295C>T	uc001dgg.2	-	14	4318	c.4099G>A	c.(4099-4101)GAG>AAG	p.E1367K		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1367	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						GTTTTCTCCTCGGCTGTCTCC	0.517													38	58					0	0	1	0	0		T	75037295	T	T	75037295	3	4	16	1	0	0	0	0	1	0	0	0	2017	893	31	1	497	1	C1orf173	1	75037295	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	79426	75037295	174213326	51	11726											
FUBP1	8880	broad.mit.edu	37	chr1	78422353	78422353	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagcgtaataagcagcccAagctgctgaatttggatccg	11	9	12	9	2	0	2	0	2	0	0	1	3	1	3	2	1	5	4	2	1	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:78422353A>G	uc001dii.2	-	17	1698	c.1609T>C	c.(1609-1611)TGG>CGG	p.W537R	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Missense_Mutation_p.W558R	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	537	Pro-rich.				transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						TAAGCAGCCCAAGCTGCTGAA	0.453													13	42					0	0	1	0	0		G	78422353	G	G	78422353	3	3	16	1	0	0	0	0	1	0	0	0	6106	130	5	3	341	3	FUBP1	1	78422353	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	3385058	78422353	170828268	52	11727											
WDR63	126820	broad.mit.edu	37	chr1	85598680	85598680	+	Frame_Shift_Del	DEL	A	-	-																															gtcatacatggaggtgatgtAaaaaagcttcctgaaggggt																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:85598680delA	uc001dkt.2	+	23	2866	c.2675delA	c.(2674-2676)TAAfs	p.*892fs	WDR63_uc009wcl.2_Frame_Shift_Del_p.*853fs	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	892										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		GAGGTGATGTAAAAAAGCTTC	0.388													59	135	---	---	---	---						.	-	85598680	-	-	85598680	7	5	16	1	0	1	0	1	0	0	0	0	17340	369	13	0	2761	0	WDR63	1	85598680	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	7176327	85598680	163651941	53	11728											
PKN2	5586	broad.mit.edu	37	chr1	89206691	89206691	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggattcccgaagtcttccGttttctgagaatgtgagtgc	7	13	13	8	2	2	2	0	2	2	1	4	5	4	3	2	2	1	1	2	2	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:89206691G>A	uc001dmn.2	+	2	411	c.69G>A	c.(67-69)CCG>CCA	p.P23P	PKN2_uc001dmm.1_Silent_p.P23P|PKN2_uc010osp.1_Silent_p.P23P|PKN2_uc010osq.1_Intron|PKN2_uc009wcv.2_Silent_p.P23P	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	23					signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		GAAGTCTTCCGTTTTCTGAGA	0.378													32	57					0	0	1	0	0		A	89206691	A	A	89206691	2	1	16	1	0	0	0	0	0	0	0	1	11999	1132	40	1		1	PKN2	1	89206691	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3608011	89206691	160043930	54	11729											
HFM1	164045	broad.mit.edu	37	chr1	91844741	91844741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctttccagtcatcaaaaCgctgactgcacaaggctttt	10	14	6	11	1	3	1	2	1	1	0	4	1	4	1	1	1	2	3	1	1	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:91844741C>T	uc001doa.3	-	9	1137	c.1037G>A	c.(1036-1038)CGT>CAT	p.R346H	HFM1_uc010osu.1_Missense_Mutation_p.R25H|HFM1_uc010osv.1_Missense_Mutation_p.R30H|HFM1_uc001doc.1_Missense_Mutation_p.R346H	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	346	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		GTCATCAAAACGCTGACTGCA	0.323													17	27					0	0	1	0	0		T	91844741	T	T	91844741	3	4	16	1	0	0	0	0	1	0	0	0	7099	536	19	1	3394	1	HFM1	1	91844741	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2638050	91844741	157405880	55	11730											
EVI5	7813	broad.mit.edu	37	chr1	93029202	93029202	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatttatcacttacctcAtgattcagctctgctatctg	11	15	4	11	0	5	1	3	1	2	0	5	1	5	1	1	0	3	2	1	0	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:93029202A>G	uc001dox.2	-	17	2125	c.2115T>C	c.(2113-2115)CAT>CAC	p.H705H	EVI5_uc010otf.1_Silent_p.H716H|EVI5_uc001doy.1_RNA	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	705	Targeting to the centrosomes.|Potential.|Interaction with AURKB and INCENP.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		CACTTACCTCATGATTCAGCT	0.358													37	75					0	0	1	0	0		G	93029202	G	G	93029202	2	3	16	1	0	0	0	0	0	0	0	1	5297	214	8	3		3	EVI5	1	93029202	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1184461	93029202	156221419	56	11731											
RWDD3	25950	broad.mit.edu	37	chr1	95709927	95709928	+	Frame_Shift_Del	DEL	TG	-	-																															accagggcccagtgtgtgacTgtgaaagagaatttacttga																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:95709927_95709928delTG	uc009wdu.2	+	2	322_323	c.246_247delTG	c.(244-249)ACTGTGfs	p.T82fs	RWDD3_uc001drd.3_3'UTR|RWDD3_uc010oty.1_Frame_Shift_Del_p.T67fs|RWDD3_uc009wdt.2_Frame_Shift_Del_p.T82fs|RWDD3_uc001drf.3_Frame_Shift_Del_p.T82fs|RWDD3_uc001drh.3_Frame_Shift_Del_p.T67fs|RWDD3_uc009wdv.2_Intron|RWDD3_uc001drg.3_RNA|RWDD3_uc001dri.3_Frame_Shift_Del_p.T82fs	NM_015485	NP_056300	Q9Y3V2	RWDD3_HUMAN	RWD domain containing 3 isoform a	82_83	RWD.					cytoplasm|nucleus	protein binding			ovary(1)	1		all_epithelial(167;5.99e-05)|all_lung(203;0.00168)|Lung NSC(277;0.00769)		all cancers(265;0.112)|Epithelial(280;0.229)		AGTGTGTGACTGTGAAAGAGAA	0.46													32	67	---	---	---	---						.	-	95709928	-	-	95709927	7	5	16	1	0	1	0	1	0	0	0	0	13782	1567	55	0	252	0	RWDD3	1	95709927	Frame_Shift_Del	DEL	TG	TCGA-BR-4292-01A-01D-1126-08	2680725	95709927	153540694	57	11732											
KCNA2	3737	broad.mit.edu	37	chr1	111146149	111146149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctctccctctgtctccCggtggtagaagtagttgaaa	7	13	10	11	1	3	2	0	1	3	1	6	2	4	2	3	2	0	4	3	2	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:111146149C>T	uc001dzu.2	-	2	1752	c.1256G>A	c.(1255-1257)CGG>CAG	p.R419Q	KCNA2_uc009wfv.1_Intron|KCNA2_uc009wfw.2_Missense_Mutation_p.R419Q	NM_004974	NP_004965	P16389	KCNA2_HUMAN	potassium voltage-gated channel, shaker-related	419						juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(1)	1		all_cancers(81;5.55e-06)|all_epithelial(167;1.87e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Colorectal(144;0.00878)|Lung(183;0.0234)|all cancers(265;0.0492)|Epithelial(280;0.0529)|COAD - Colon adenocarcinoma(174;0.131)|LUSC - Lung squamous cell carcinoma(189;0.133)|READ - Rectum adenocarcinoma(129;0.191)		CTCTGTCTCCCGGTGGTAGAA	0.498													26	67					0	0	1	0	0		T	111146149	T	T	111146149	3	4	16	1	0	0	0	0	1	0	0	0	8019	652	23	1	247	1	KCNA2	1	111146149	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	15436222	111146149	138104472	58	11733											
WNT2B	7482	broad.mit.edu	37	chr1	113033683	113033683	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcatacctacacagtcagcGttcaacaagtgtttgcaaag	13	9	9	10	1	2	0	2	0	0	0	2	0	2	0	1	1	5	4	1	1	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:113033683G>A	uc001eca.2	+	2	225	c.105G>A	c.(103-105)GCG>GCA	p.A35A	WNT2B_uc009wgg.2_Intron	NM_004185	NP_004176	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family,	Error:Variant_position_missing_in_Q93097_after_alignment					chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity			ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		cacagtcagcgttcaacaagt	0.07													9	23					0	0	1	0	0		A	113033683	A	A	113033683	2	1	16	1	0	0	0	0	0	0	0	1	17413	1132	40	1		1	WNT2B	1	113033683	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1887534	113033683	136216938	59	11734											
WNT2B	7482	broad.mit.edu	37	chr1	113051942	113051942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgcttcggcgcgccagcGccccggtccctgtgccgtcg	1	7	13	20	8	0	0	0	0	0	0	4	0	2	0	6	2	2	1	6	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:113051942G>A	uc001ecb.2	+	1	573	c.58G>A	c.(58-60)GCC>ACC	p.A20T	WNT2B_uc001eca.2_Intron|WNT2B_uc009wgg.2_Intron	NM_024494	NP_078613	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family,	20					chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity			ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCGCGCCAGCGCCCCGGTCCC	0.751													3	3					0	0	1	0	0		A	113051942	A	A	113051942	3	1	16	1	0	0	0	0	1	0	0	0	17413	1087	38	1	193	1	WNT2B	1	113051942	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	18259	113051942	136198679	60	11735											
SLC22A15	55356	broad.mit.edu	37	chr1	116609275	116609275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgaccttcaggtgtattcGtatcgcaggctgggagaaga	9	10	13	9	3	1	2	1	0	0	2	4	4	2	2	2	3	0	4	2	3	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:116609275G>A	uc001egb.3	+	11	1630	c.1500G>A	c.(1498-1500)TCG>TCA	p.S500S		NM_018420	NP_060890	Q8IZD6	S22AF_HUMAN	solute carrier family 22, member 15	500					ion transport	integral to membrane	transmembrane transporter activity			large_intestine(2)	2	Lung SC(450;0.184)	all_cancers(81;3.17e-06)|all_epithelial(167;2.32e-06)|all_lung(203;9.81e-06)|Lung NSC(69;5.94e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		AGGTGTATTCGTATCGCAGGC	0.488													6	22					0	0	1	0	0		A	116609275	A	A	116609275	2	1	16	1	0	0	0	0	0	0	0	1	14471	1132	40	1		1	SLC22A15	1	116609275	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3557333	116609275	132641346	61	11736											
IGSF3	3321	broad.mit.edu	37	chr1	117146451	117146451	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcgctcccagtaggaCgagcctggctgcacggtgcc	5	7	14	15	3	0	0	0	0	0	0	1	2	1	1	3	3	5	5	3	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:117146451C>T	uc001egr.1	-	6	2124	c.1419G>A	c.(1417-1419)TCG>TCA	p.S473S	IGSF3_uc001egq.1_Silent_p.S493S|IGSF3_uc001egs.1_Silent_p.S146S	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	473	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		CCCAGTAGGACGAGCCTGGCT	0.622													23	34					0	0	1	0	0		T	117146451	T	T	117146451	2	4	16	1	0	0	0	0	0	0	0	1	7617	523	19	1		1	IGSF3	1	117146451	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	537176	117146451	132104170	62	11737											
TRIM45	80263	broad.mit.edu	37	chr1	117661189	117661189	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccccatgcttgtggatgAcattgctggtgaagtcacag	9	11	12	9	0	1	2	1	2	0	0	2	3	2	3	2	2	2	2	2	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:117661189A>G	uc001egz.2	-	2	1277	c.689T>C	c.(688-690)GTC>GCC	p.V230A	TRIM45_uc009whe.2_Missense_Mutation_p.V230A|TRIM45_uc001eha.2_Missense_Mutation_p.V126A	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	230						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		CTTGTGGATGACATTGCTGGT	0.577													7	51					0	0	1	0	0		G	117661189	G	G	117661189	3	3	16	1	0	0	0	0	1	0	0	0	16546	275	10	3	1073	3	TRIM45	1	117661189	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	514738	117661189	131589432	63	11738											
SPAG17	200162	broad.mit.edu	37	chr1	118634309	118634309	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaataattgtaatatcTcatgtctacttcagttgtga	13	15	6	7	0	3	1	2	1	2	0	4	1	3	1	0	0	2	3	0	0	5	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:118634309T>C	uc001ehk.2	-	10	1347	c.1279A>G	c.(1279-1281)AGA>GGA	p.R427G		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	427						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TTGTAATATCTCATGTCTACT	0.373													13	33					0	0	1	0	0		C	118634309	C	C	118634309	3	2	16	1	0	0	0	0	1	0	0	0	15004	1559	54	3	5548	3	SPAG17	1	118634309	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	973120	118634309	130616312	64	11739											
SPAG17	200162	broad.mit.edu	37	chr1	118642346	118642346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tataggaatgccaagctcagCcataattgctaatagctgag	14	10	9	8	0	1	1	1	1	0	0	1	2	1	2	2	1	5	3	2	1	7	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:118642346C>T	uc001ehk.2	-	6	780	c.712G>A	c.(712-714)GCT>ACT	p.A238T		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	238						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		CCAAGCTCAGCCATAATTGCT	0.418													43	63					0	0	1	0	0		T	118642346	T	T	118642346	3	4	16	1	0	0	0	0	1	0	0	0	15004	739	26	2	6131	2	SPAG17	1	118642346	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	8037	118642346	130608275	65	11740											
ADAM30	11085	broad.mit.edu	37	chr1	120437609	120437609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacacgtatccagatggacGaaaccgacaatcatgacagc	16	5	8	12	3	1	2	1	1	0	1	2	5	2	3	2	1	2	1	2	1	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:120437609G>A	uc001eij.2	-	1	1505	c.1351C>T	c.(1351-1353)CGT>TGT	p.R451C		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	451	Disintegrin.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		CCAGATGGACGAAACCGACAA	0.463													43	119					0	0	1	0	0		A	120437609	A	A	120437609	3	1	16	1	0	0	0	0	1	0	0	0	248	1058	37	1	1025	1	ADAM30	1	120437609	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1795263	120437609	128813012	66	11741											
PPIAL4G	644591	broad.mit.edu	37	chr1	143767446	143767446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcttccacaatattcacacGttctttcaccttgccaaagg	10	12	6	13	1	3	0	2	0	1	0	4	0	4	0	3	2	1	2	3	2	3	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:143767446G>A	uc001ejt.2	-	1	436	c.403C>T	c.(403-405)CGT>TGT	p.R135C		NM_001123068	NP_001116540	A2BFH1	PAL4G_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	135	PPIase cyclophilin-type.				protein folding	cytoplasm	peptidyl-prolyl cis-trans isomerase activity				0						ATATTCACACGTTCTTTCACC	0.463													19	251					0	0	1	0	0		A	143767446	A	A	143767446	3	1	16	1	0	0	0	0	1	0	0	0	12340	1145	40	1	95	1	PPIAL4G	1	143767446	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	23329837	143767446	105483175	67	11742											
POLR3C	10623	broad.mit.edu	37	chr1	145608566	145608566	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctaagcattcgcaatacccGgctgcactgggcttcatact	9	11	8	13	2	2	0	1	0	1	0	3	0	2	0	1	2	4	5	1	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:145608566G>A	uc001eoh.2	-	3	402	c.241C>T	c.(241-243)CGG>TGG	p.R81W	NBPF10_uc001emp.3_Intron|RNF115_uc001eoj.2_5'Flank|RNF115_uc001eok.2_5'Flank|RNF115_uc009wiy.2_5'Flank|POLR3C_uc001eog.2_Missense_Mutation_p.R94W|POLR3C_uc001eoi.2_Intron|POLR3C_uc009wix.2_Missense_Mutation_p.R81W	NM_006468	NP_006459	Q9BUI4	RPC3_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	81					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|regulation of transcription from RNA polymerase III promoter|response to virus	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)		Epithelial(2;7.55e-13)			CGCAATACCCGGCTGCACTGG	0.483													40	119					0	0	1	0	0		A	145608566	A	A	145608566	3	1	16	1	0	0	0	0	1	0	0	0	12249	1115	39	1	1415	1	POLR3C	1	145608566	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1841120	145608566	103642055	68	11743											
PLEKHO1	51177	broad.mit.edu	37	chr1	150123100	150123100	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcatcttgtcctggggcAgggacctcaggatggaaacc	8	10	12	11	0	3	0	2	0	2	0	5	3	4	3	3	5	1	1	3	5	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:150123100A>G	uc001ett.2	+	2	309	c.31_splice	c.e2-2	p.G11_splice	PLEKHO1_uc001etr.2_Splice_Site|PLEKHO1_uc001ets.2_Splice_Site	NM_016274	NP_057358	Q53GL0	PKHO1_HUMAN	pleckstrin homology domain containing, family O							cytoplasm|nucleus|plasma membrane				lung(1)	1	Lung NSC(24;7.78e-28)|Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GTCCTGGGGCAGGGACCTCAG	0.617													5	81					0	0	1	0	0		G	150123100	G	G	150123100	5	3	16	1	0	0	0	0	0	0	1	0	12103	202	7	3	35	3	PLEKHO1	1	150123100	Splice_Site	SNP	A	TCGA-BR-4292-01A-01D-1126-08	4514534	150123100	99127521	69	11744											
VPS72	6944	broad.mit.edu	37	chr1	151149142	151149142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttaatgacaattttctggCgcaaggctcggggcccagag	10	10	12	9	2	1	2	0	1	1	1	2	2	1	2	1	4	0	2	1	4	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:151149142C>T	uc001exe.1	-	6	1116	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H	TMOD4_uc001exd.2_5'Flank|TMOD4_uc001exc.3_5'Flank|TMOD4_uc010pct.1_5'Flank	NM_005997	NP_005988	Q15906	VPS72_HUMAN	transcription factor-like 1	358					chromatin modification|negative regulation of transcription from RNA polymerase II promoter	nucleus|protein complex	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|pancreas(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			AATTTTCTGGCGCAAGGCTCG	0.582													78	85					0	0	1	0	0		T	151149142	T	T	151149142	3	4	16	1	0	0	0	0	1	0	0	0	17243	768	27	1	25	1	VPS72	1	151149142	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1026042	151149142	98101479	70	11745											
ZNF687	57592	broad.mit.edu	37	chr1	151261166	151261166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcctgtctgcacgtctctCgccgtgtaggatacaggtgc	6	10	13	12	3	2	0	0	0	2	0	4	1	2	1	2	3	3	2	2	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:151261166C>T	uc001exq.2	+	3	2376	c.2278C>T	c.(2278-2280)CGC>TGC	p.R760C	ZNF687_uc009wmo.2_Missense_Mutation_p.R760C|ZNF687_uc009wmp.2_Missense_Mutation_p.R760C	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	760					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GCACGTCTCTCGCCGTGTAGG	0.562													73	54					0	0	1	0	0		T	151261166	T	T	151261166	3	4	16	1	0	0	0	0	1	0	0	0	18117	884	31	1	2284	1	ZNF687	1	151261166	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	112024	151261166	97989455	71	11746											
FLG	2312	broad.mit.edu	37	chr1	152275642	152275642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacatgactggctgtatcgCggtgagaggatccggggtgt	7	10	17	7	3	0	2	0	2	0	1	2	4	1	3	1	5	1	3	1	5	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:152275642C>T	uc001ezu.1	-	3	11756	c.11720G>A	c.(11719-11721)CGC>CAC	p.R3907H		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3907	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGCTGTATCGCGGTGAGAGGA	0.502									Ichthyosis				33	91					0	0	1	0	0		T	152275642	T	T	152275642	3	4	16	1	0	0	0	0	1	0	0	0	5936	768	27	1	469	1	FLG	1	152275642	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1014476	152275642	96974979	72	11747											
FLG	2312	broad.mit.edu	37	chr1	152283084	152283084	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccctgactggccacgtgcGgactctttgtggctctgctg	3	12	12	14	2	2	1	0	1	2	0	3	2	3	2	3	3	2	2	3	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:152283084G>A	uc001ezu.1	-	3	4314	c.4278C>T	c.(4276-4278)TCC>TCT	p.S1426S	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1426	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGCCACGTGCGGACTCTTTGT	0.557									Ichthyosis				161	182					0	0	1	0	0		A	152283084	A	A	152283084	2	1	16	1	0	0	0	0	0	0	0	1	5936	1103	39	1		1	FLG	1	152283084	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	7442	152283084	96967537	73	11748											
FLG	2312	broad.mit.edu	37	chr1	152284397	152284397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgaccggctctgtcttcgtGatgggacctggggtgtctgg	3	12	17	9	2	3	2	0	2	3	0	4	3	3	3	2	5	0	1	2	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:152284397G>A	uc001ezu.1	-	3	3001	c.2965C>T	c.(2965-2967)CAC>TAC	p.H989Y	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	989	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGTCTTCGTGATGGGACCTG	0.572									Ichthyosis				15	420					0	0	1	0	0		A	152284397	A	A	152284397	3	1	16	1	0	0	0	0	1	0	0	0	5936	1290	45	4	9224	4	FLG	1	152284397	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1313	152284397	96966224	74	11749											
FLG	2312	broad.mit.edu	37	chr1	152284999	152284999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggaaagaccctgaacgtCgagacctttcccctgaccgg	11	6	11	13	3	0	5	0	2	0	3	2	7	1	6	5	2	1	0	5	2	2	1	rs142483068	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:152284999C>T	uc001ezu.1	-	3	2399	c.2363G>A	c.(2362-2364)CGA>CAA	p.R788Q	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	788	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCCTGAACGTCGAGACCTTTC	0.567									Ichthyosis				147	337					0	0	1	0	0		T	152284999	T	T	152284999	3	4	16	1	0	0	0	0	1	0	0	0	5936	884	31	1	9826	1	FLG	1	152284999	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	602	152284999	96965622	75	11750											
LCE2C	353140	broad.mit.edu	37	chr1	152648744	152648744	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtctcttccaccggcgcCggcaccagagccccgactgc	5	5	10	21	5	1	1	0	0	1	1	3	2	2	1	7	2	2	1	7	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:152648744C>T	uc001fah.2	+	2	308	c.253C>T	c.(253-255)CGG>TGG	p.R85W		NM_178429	NP_848516	Q5TA81	LCE2C_HUMAN	late cornified envelope 2C	85	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCACCGGCGCCGGCACCAGAG	0.682													22	15					0	0	1	0	0		T	152648744	T	T	152648744	3	4	16	1	0	0	0	0	1	0	0	0	8683	643	23	1	255	1	LCE2C	1	152648744	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	363745	152648744	96601877	76	11751											
SLC27A3	11000	broad.mit.edu	37	chr1	153749150	153749150	+	Frame_Shift_Del	DEL	C	-	-																															agtgccaggatacctctcttCcccccagagcataacagaca																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:153749150delC	uc001fcz.2	+	2	1030	c.965delC	c.(964-966)TCCfs	p.S322fs	SLC27A3_uc009won.2_RNA	NM_024330	NP_077306	Q5K4L6	S27A3_HUMAN	solute carrier family 27 member 3	322					fatty acid metabolic process	integral to membrane|mitochondrial membrane	ligase activity|nucleotide binding			ovary(1)	1	all_lung(78;6.47e-32)|Lung NSC(65;2.52e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TACCTCTCTTCCCCCCAGAGC	0.597													28	45	---	---	---	---						.	-	153749150	-	-	153749150	7	5	16	1	0	1	0	1	0	0	0	0	14552	855	30	0	971	0	SLC27A3	1	153749150	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	1100406	153749150	95501471	77	11752											
UBAP2L	9898	broad.mit.edu	37	chr1	154229634	154229634	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacctcccccagtggtcagTgtctcctccagtctcaatag	7	10	8	16	0	3	0	2	0	2	0	7	0	5	0	5	1	0	1	5	1	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:154229634T>A	uc001fep.3	+	19	2420	c.2253T>A	c.(2251-2253)AGT>AGA	p.S751R	UBAP2L_uc009wot.2_Missense_Mutation_p.S751R|UBAP2L_uc010pek.1_Missense_Mutation_p.S743R|UBAP2L_uc010pel.1_Missense_Mutation_p.S761R|UBAP2L_uc010pen.1_Missense_Mutation_p.S665R|UBAP2L_uc001feq.2_5'UTR|UBAP2L_uc001fer.2_5'UTR	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	751					binding of sperm to zona pellucida		protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CAGTGGTCAGTGTCTCCTCCA	0.552													5	67					0	0	1	0	0		A	154229634	A	A	154229634	3	1	16	1	0	0	0	0	1	0	0	0	16864	1693	59	5	2323	5	UBAP2L	1	154229634	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	480484	154229634	95020987	78	11753											
ADAR	103	broad.mit.edu	37	chr1	154557387	154557387	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtagttcttggccgtctcGtagtcacgggcagctttctt	6	14	11	10	3	4	0	1	0	3	0	5	0	4	0	1	2	1	5	1	2	3	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:154557387G>A	uc001ffh.2	-	15	3776	c.3576C>T	c.(3574-3576)TAC>TAT	p.Y1192Y	ADAR_uc001ffj.2_Silent_p.Y1147Y|ADAR_uc001ffi.2_Silent_p.Y1166Y|ADAR_uc001ffk.2_Silent_p.Y897Y	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	1192	A to I editase.				adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		TGGCCGTCTCGTAGTCACGGG	0.473													69	45					0	0	1	0	0		A	154557387	A	A	154557387	2	1	16	1	0	0	0	0	0	0	0	1	281	1140	40	1		1	ADAR	1	154557387	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	327753	154557387	94693234	79	11754											
HCN3	57657	broad.mit.edu	37	chr1	155252423	155252423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accgcgggccatccgcacgcGctacctgcgcacctggttcc	5	6	11	19	6	0	0	0	0	0	0	2	0	2	0	6	2	2	4	6	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:155252423G>A	uc001fjz.1	+	2	508	c.500G>A	c.(499-501)CGC>CAC	p.R167H	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_5'UTR	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	167	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			ATCCGCACGCGCTACCTGCGC	0.587													20	34					0	0	1	0	0		A	155252423	A	A	155252423	3	1	16	1	0	0	0	0	1	0	0	0	7014	1087	38	1	506	1	HCN3	1	155252423	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	695036	155252423	93998198	80	11755											
LMNA	4000	broad.mit.edu	37	chr1	156108451	156108451	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccagtgtcacggtcactcGcagctaccgcagtgtggggg	6	8	14	13	3	2	0	2	0	0	0	4	0	3	0	2	3	2	3	2	3	1	1	rs13768		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:156108451G>A	uc001fni.2	+	11	2120	c.1871G>A	c.(1870-1872)CGC>CAC	p.R624H	LMNA_uc001fnf.1_3'UTR|LMNA_uc001fnh.2_Missense_Mutation_p.R594H|LMNA_uc009wro.1_Intron|LMNA_uc001fnj.2_3'UTR|LMNA_uc001fnk.2_Missense_Mutation_p.R525H|LMNA_uc010pha.1_3'UTR|LMNA_uc010phb.1_RNA	NM_170707	NP_733821	P02545	LMNA_HUMAN	lamin A/C isoform 1 precursor	624	Tail.		R -> H (in EDMD2).		cellular component disassembly involved in apoptosis|cellular response to hypoxia|establishment or maintenance of microtubule cytoskeleton polarity|muscle organ development|positive regulation of cell aging|regulation of apoptosis|regulation of cell migration	cytoplasm|lamin filament|nuclear envelope|nuclear envelope|perinuclear region of cytoplasm	protein binding|structural molecule activity|structural molecule activity			ovary(2)	2	Hepatocellular(266;0.158)					ACGGTCACTCGCAGCTACCGC	0.677									Werner_syndrome|Hutchinson-Gilford_Progeria_Syndrome				9	6					0	0	1	0	0		A	156108451	A	A	156108451	3	1	16	1	0	0	0	0	1	0	0	0	8865	1087	38	1	1934	1	LMNA	1	156108451	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	856028	156108451	93142170	81	11756											
CCT3	7203	broad.mit.edu	37	chr1	156303398	156303398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcctgggtccggctaatttCgatcatggacttggccgctg	6	12	12	11	3	1	0	1	0	0	0	4	2	3	1	3	4	0	2	3	4	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:156303398C>T	uc001fol.1	-	5	464	c.244G>A	c.(244-246)GAA>AAA	p.E82K	CCT3_uc001fom.1_Missense_Mutation_p.E82K|CCT3_uc001fon.1_Missense_Mutation_p.E44K|CCT3_uc010phj.1_Missense_Mutation_p.E36K|CCT3_uc010phk.1_Missense_Mutation_p.E36K|CCT3_uc010phl.1_Missense_Mutation_p.E36K	NM_005998	NP_005989	P49368	TCPG_HUMAN	chaperonin containing TCP1, subunit 3 isoform a	82					'de novo' posttranslational protein folding	cytoskeleton|cytosol|plasma membrane	ATP binding|unfolded protein binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					CGGCTAATTTCGATCATGGAC	0.423													33	110					0	0	1	0	0		T	156303398	T	T	156303398	3	4	16	1	0	0	0	0	1	0	0	0	2957	893	31	1	1433	1	CCT3	1	156303398	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	194947	156303398	92947223	82	11757											
PEAR1	375033	broad.mit.edu	37	chr1	156883740	156883740	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctgcccagcttgccaggggGcccccgggagagcagctaca	7	4	14	16	1	0	1	0	0	0	1	0	2	0	1	5	3	6	3	5	3	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:156883740G>C	uc001fqj.1	+	22	2926	c.2810G>C	c.(2809-2811)GGC>GCC	p.G937A	PEAR1_uc001fqk.1_Missense_Mutation_p.G562A	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	937	Pro-rich.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TTGCCAGGGGGCCCCCGGGAG	0.647													10	20					0	0	1	0	0		C	156883740	C	C	156883740	3	2	16	1	0	0	0	0	1	0	0	0	11731	1203	42	5	2892	5	PEAR1	1	156883740	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	580342	156883740	92366881	83	11758											
OR10T2	128360	broad.mit.edu	37	chr1	158368816	158368816	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacctgtggctcctgagagAgaaatcaactccaaccccag	14	6	8	13	0	1	2	1	1	0	2	3	4	3	2	5	1	3	1	5	1	4	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:158368816A>C	uc010pih.1	-	1	441	c.441T>G	c.(439-441)TCT>TCG	p.S147S		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	147	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					CTCCTGAGAGAGAAATCAACT	0.458													78	65					0	0	1	0	0		C	158368816	C	C	158368816	2	2	16	1	0	0	0	0	0	0	0	1	10938	291	11	5		5	OR10T2	1	158368816	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1485076	158368816	90881805	84	11759											
SPTA1	6708	broad.mit.edu	37	chr1	158621239	158621239	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttgatatcccttagccgaGgctcattggtattcaaatcc	9	14	8	10	1	2	1	2	1	0	0	4	2	4	1	3	2	1	3	3	2	4	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:158621239G>T	uc001fst.1	-	24	3594	c.3395C>A	c.(3394-3396)CCT>CAT	p.P1132H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1132	Spectrin 11.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CCTTAGCCGAGGCTCATTGGT	0.423													5	213					0.000602214	0.00061219	1	1	0		T	158621239	T	T	158621239	3	4	16	1	0	0	0	0	1	0	0	0	15141	1000	35	5	3980	5	SPTA1	1	158621239	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	252423	158621239	90629382	85	11760											
SLAMF8	56833	broad.mit.edu	37	chr1	159799702	159799702	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccaagtgctgagcaaagtCgggggctcggtgctgctggt	6	8	17	10	2	0	1	0	1	0	0	2	1	0	1	1	4	4	5	1	4	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:159799702C>T	uc001fue.3	+	2	297	c.87C>T	c.(85-87)GTC>GTT	p.V29V		NM_020125	NP_064510	Q9P0V8	SLAF8_HUMAN	SLAM family member 8 precursor	29	Extracellular (Potential).					integral to membrane					0	all_hematologic(112;0.0597)					TGAGCAAAGTCGGGGGCTCGG	0.602													12	89					0	0	1	0	0		T	159799702	T	T	159799702	2	4	16	1	0	0	0	0	0	0	0	1	14395	871	31	1		1	SLAMF8	1	159799702	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1178463	159799702	89450919	86	11761											
HSD17B7	51478	broad.mit.edu	37	chr1	162762614	162762614	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtggatgtcagcaacctGcagtcggtcttccgggcctc	6	9	13	13	2	2	0	1	0	1	0	5	1	3	1	3	4	3	2	3	4	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:162762614G>A	uc001gci.2	+	2	296	c.201G>A	c.(199-201)CTG>CTA	p.L67L	HSD17B7_uc009wuv.2_RNA	NM_016371	NP_057455	P56937	DHB7_HUMAN	hydroxysteroid (17-beta) dehydrogenase 7	67	Extracellular (Potential).				cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	3-keto sterol reductase activity|estradiol 17-beta-dehydrogenase activity			ovary(1)	1	all_hematologic(112;0.115)				NADH(DB00157)	TCAGCAACCTGCAGTCGGTCT	0.493													44	41					0	0	1	0	0		A	162762614	A	A	162762614	2	1	16	1	0	0	0	0	0	0	0	1	7404	1306	46	2		2	HSD17B7	1	162762614	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2962912	162762614	86488007	87	11762											
ILDR2	387597	broad.mit.edu	37	chr1	166890564	166890564	+	Frame_Shift_Del	DEL	C	-	-																															gtccatggaaacggccggcaCccccgtggcgaagttcttcc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:166890564delC	uc001gdx.1	-	9	1320	c.1264delG	c.(1264-1266)GTGfs	p.V422fs		NM_199351	NP_955383	Q71H61	ILDR2_HUMAN	immunoglobulin-like domain containing receptor	422	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						ACGGCCGGCACCCCCGTGGCG	0.721													17	16	---	---	---	---						.	-	166890564	-	-	166890564	7	5	16	1	0	1	0	1	0	0	0	0	7726	507	18	0	663	0	ILDR2	1	166890564	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	4127950	166890564	82360057	88	11763											
ATP1B1	481	broad.mit.edu	37	chr1	169100579	169100579	+	RNA	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtggagtattttggactggGcaactcccctggttttcctc	5	15	11	10	0	0	0	0	0	0	0	3	2	2	2	3	4	1	3	3	4	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:169100579G>A	uc001gfs.1	+	6		c.823G>A						P05026	AT1B1_HUMAN	Synthetic construct DNA, clone: pF1KB8186, Homo sapiens ATP1B1 gene for ATPase, Na+/K+ transporting, beta 1 polypeptide, without stop codon, in Flexi system.						ATP biosynthetic process|blood coagulation|leukocyte migration	sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	all_hematologic(923;0.208)					TTTGGACTGGGCAACTCCCCT	0.443													16	218					0	0	1	0	0		A	169100579	A	A	169100579	1	1	16	0	1	0	0	0	0	0	0	0	1133	1203	42	2		2	ATP1B1	1	169100579	RNA	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2210015	169100579	80150042	89	11764											
RC3H1	149041	broad.mit.edu	37	chr1	173912741	173912741	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctctgcaacaccagccTgttactaacagcctagtgca	10	9	6	16	0	1	0	0	0	1	0	2	0	2	0	4	0	7	3	4	0	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:173912741T>G	uc001gju.3	-	17	3061	c.2974A>C	c.(2974-2976)AGG>CGG	p.R992R	RC3H1_uc010pms.1_Intron|RC3H1_uc001gjv.2_Intron|RC3H1_uc010pmt.1_Silent_p.R992R	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	992					cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						AACACCAGCCTGTTACTAACA	0.532													14	28					0	0	1	0	0		G	173912741	G	G	173912741	2	3	16	1	0	0	0	0	0	0	0	1	13191	1579	55	5		5	RC3H1	1	173912741	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	4812162	173912741	75337880	90	11765											
RC3H1	149041	broad.mit.edu	37	chr1	173953746	173953746	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctacacaaagtaataggctgCtgctcagggacctggaggcc	11	7	12	11	0	1	0	1	0	0	0	1	2	1	2	2	4	3	4	2	4	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:173953746C>T	uc001gju.3	-	2	330	c.243G>A	c.(241-243)CAG>CAA	p.Q81Q	RC3H1_uc010pms.1_Silent_p.Q81Q|RC3H1_uc001gjv.2_Silent_p.Q81Q|RC3H1_uc010pmt.1_Silent_p.Q81Q	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	81					cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TAATAGGCTGCTGCTCAGGGA	0.388													20	47					0	0	1	0	0		T	173953746	T	T	173953746	2	4	16	1	0	0	0	0	0	0	0	1	13191	796	28	2		2	RC3H1	1	173953746	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	41005	173953746	75296875	91	11766											
XPR1	9213	broad.mit.edu	37	chr1	180775653	180775653	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatggtgacagacaaaaggCtatgaagcgtttacgtgtcc	13	9	12	7	2	0	4	0	2	0	2	1	4	1	4	1	2	2	2	1	2	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:180775653C>A	uc001goi.2	+	6	833	c.641C>A	c.(640-642)GCT>GAT	p.A214D	XPR1_uc009wxm.2_Missense_Mutation_p.A214D|XPR1_uc009wxn.2_Missense_Mutation_p.A214D	NM_004736	NP_004727	Q9UBH6	XPR1_HUMAN	xenotropic and polytropic retrovirus receptor	214	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0						AGACAAAAGGCTATGAAGCGT	0.383													20	49					9.57634e-11	1.01006e-10	1	1	0		A	180775653	A	A	180775653	3	1	16	1	0	0	0	0	1	0	0	0	17477	797	28	5	663	5	XPR1	1	180775653	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6821907	180775653	68474968	92	11767											
ZNF648	127665	broad.mit.edu	37	chr1	182026636	182026636	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcacagagatactttccAttgctggggaagctgggtgg	8	10	15	8	1	0	1	0	0	0	1	1	3	1	2	1	4	4	3	1	4	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:182026636A>G	uc001goz.2	-	2	718	c.510T>C	c.(508-510)AAT>AAC	p.N170N		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	170					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GATACTTTCCATTGCTGGGGA	0.577													12	22					0	0	1	0	0		G	182026636	G	G	182026636	2	3	16	1	0	0	0	0	0	0	0	1	18088	214	8	3		3	ZNF648	1	182026636	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1250983	182026636	67223985	93	11768											
C1orf21	81563	broad.mit.edu	37	chr1	184446659	184446659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactatgggctgtgcctccGccaagcatgttgccactgtt	7	11	11	12	1	0	1	0	0	0	1	1	1	1	1	4	1	3	4	4	1	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:184446659G>A	uc001gqv.1	+	2	493	c.16G>A	c.(16-18)GCC>ACC	p.A6T		NM_030806	NP_110433	Q9H246	CA021_HUMAN	chromosome 1 open reading frame 21	6											0		Breast(1374;0.00262)		Colorectal(1306;4.8e-08)|KIRC - Kidney renal clear cell carcinoma(1967;0.00314)		CTGTGCCTCCGCCAAGCATGT	0.463													25	34					0	0	1	0	0		A	184446659	A	A	184446659	3	1	16	1	0	0	0	0	1	0	0	0	2031	1087	38	1	18	1	C1orf21	1	184446659	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2420023	184446659	64803962	94	11769											
TPR	7175	broad.mit.edu	37	chr1	186313658	186313658	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcttcaacatcagcagcaTgcagcatcaattctctctca	12	10	6	13	0	5	0	4	0	2	0	7	1	5	0	0	0	6	5	0	0	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:186313658T>C	uc001grv.2	-	25	3563	c.3266A>G	c.(3265-3267)CAT>CGT	p.H1089R		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1089	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		ATCAGCAGCATGCAGCATCAA	0.383			T	NTRK1	papillary thyroid								14	105					0	0	1	0	0		C	186313658	C	C	186313658	3	2	16	1	0	0	0	0	1	0	0	0	16442	1464	51	3	3933	3	TPR	1	186313658	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1866999	186313658	62936963	95	11770											
PTGS2	5743	broad.mit.edu	37	chr1	186645044	186645044	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttaccctgccagcaatttGcctggtgaatgattcaacaa	11	11	8	11	0	1	2	1	2	0	0	1	2	1	2	3	1	5	2	3	1	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:186645044G>A	uc001gsb.2	-	8	1380	c.1243C>T	c.(1243-1245)CAA>TAA	p.Q415*	PTGS2_uc009wyo.2_Nonsense_Mutation_p.Q262*	NM_000963	NP_000954	P35354	PGH2_HUMAN	prostaglandin-endoperoxide synthase 2 precursor	415					cellular component movement|cyclooxygenase pathway|hormone biosynthetic process|positive regulation of brown fat cell differentiation|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of fever generation|positive regulation of fibroblast growth factor production|positive regulation of nitric oxide biosynthetic process|positive regulation of platelet-derived growth factor production|positive regulation of prostaglandin biosynthetic process|positive regulation of transforming growth factor-beta production|positive regulation vascular endothelial growth factor production|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|microsome|neuron projection|nucleus	enzyme binding|heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|central_nervous_system(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Carprofen(DB00821)|Celecoxib(DB00482)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Epoprostenol(DB01240)|Etodolac(DB00749)|Etoricoxib(DB01628)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ginseng(DB01404)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lenalidomide(DB00480)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mesalazine(DB00244)|Nabumetone(DB00461)|Naproxen(DB00788)|Oxaprozin(DB00991)|Phenylbutazone(DB00812)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Thalidomide(DB01041)|Tiaprofenic acid(DB01600)|Tolmetin(DB00500)|Valdecoxib(DB00580)	CCAGCAATTTGCCTGGTGAAT	0.333													18	45					0	0	1	0	0		A	186645044	A	A	186645044	4	1	16	1	0	0	0	0	0	1	0	0	12779	1328	46	2	583	2	PTGS2	1	186645044	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	331386	186645044	62605577	96	11771											
RGS2	5997	broad.mit.edu	37	chr1	192780201	192780201	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgtgaagacttcaaaaaaaCcaaatcaccccaaaagctgt	18	7	5	11	0	2	2	2	1	0	1	2	2	2	2	3	0	2	1	3	0	7	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:192780201C>A	uc001gsl.2	+	4	398	c.365C>A	c.(364-366)ACC>AAC	p.T122N		NM_002923	NP_002914	P41220	RGS2_HUMAN	regulator of G-protein signaling 2	122	RGS.				cell cycle|negative regulation of cardiac muscle hypertrophy|negative regulation of G-protein coupled receptor protein signaling pathway|negative regulation of MAP kinase activity|negative regulation of phospholipase activity|positive regulation of cardiac muscle contraction|regulation of adrenergic receptor signaling pathway|regulation of translation|relaxation of cardiac muscle	cytosol|internal side of plasma membrane|mitochondrion|nucleolus	calmodulin binding|GTPase activator activity|signal transducer activity				0						TTCAAAAAAACCAAATCACCC	0.393													64	158					3.83939e-23	4.19925e-23	1	1	0		A	192780201	A	A	192780201	3	1	16	1	0	0	0	0	1	0	0	0	13327	507	18	5	379	5	RGS2	1	192780201	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6135157	192780201	56470420	97	11772											
B3GALT2	8707	broad.mit.edu	37	chr1	193149443	193149443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaatgtagtttacggtggCgatacctgcctgccttttct	6	16	9	10	2	2	0	0	0	2	0	2	1	2	0	3	2	4	2	3	2	4	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:193149443C>T	uc001gtc.3	-	2	1965	c.1250G>A	c.(1249-1251)CGC>CAC	p.R417H	CDC73_uc001gtb.2_Intron	NM_003783	NP_003774	O43825	B3GT2_HUMAN	UDP-Gal:betaGlcNAc beta	417	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1						TTTACGGTGGCGATACCTGCC	0.368													26	74					0	0	1	0	0		T	193149443	T	T	193149443	3	4	16	1	0	0	0	0	1	0	0	0	1249	768	27	1	22	1	B3GALT2	1	193149443	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	369242	193149443	56101178	98	11773											
F13B	2165	broad.mit.edu	37	chr1	197031010	197031010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtggttttgtaccctgaagCgcaaccataacgcatgttct	10	12	9	10	2	1	1	0	1	1	0	1	1	1	1	2	1	4	5	2	1	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:197031010C>T	uc001gtt.1	-	3	399	c.355G>A	c.(355-357)GCT>ACT	p.A119T		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	119	Sushi 2.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TACCCTGAAGCGCAACCATAA	0.403													24	36					0	0	1	0	0		T	197031010	T	T	197031010	3	4	16	1	0	0	0	0	1	0	0	0	5349	768	27	1	1670	1	F13B	1	197031010	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3881567	197031010	52219611	99	11774											
DENND1B	163486	broad.mit.edu	37	chr1	197480898	197480898	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccattgatctaaagaaaTccaagctctttgcagctgcc	12	11	6	12	0	2	2	0	1	2	1	4	2	4	2	3	0	4	3	3	0	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:197480898T>A	uc010ppe.1	-	21	2053	c.1715A>T	c.(1714-1716)GAT>GTT	p.D572V	DENND1B_uc010ppf.1_RNA	NM_001142795	NP_001136267	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 1	Error:Variant_position_missing_in_Q6P3S1_after_alignment						clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						TCTAAAGAAATCCAAGCTCTT	0.378													19	49					0	0	1	0	0		A	197480898	A	A	197480898	3	1	16	1	0	0	0	0	1	0	0	0	4433	1435	50	5	560	5	DENND1B	1	197480898	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	449888	197480898	51769723	100	11775											
KIF21B	23046	broad.mit.edu	37	chr1	200974489	200974489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtggatggtgaagatggCgtgggagcgtgagctctgca	8	8	19	6	2	1	3	0	2	1	1	1	5	1	5	0	5	3	2	0	5	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:200974489C>T	uc001gvs.1	-	5	996	c.679G>A	c.(679-681)GCC>ACC	p.A227T	KIF21B_uc001gvr.1_Missense_Mutation_p.A227T|KIF21B_uc009wzl.1_Missense_Mutation_p.A227T|KIF21B_uc010ppn.1_Missense_Mutation_p.A227T|KIF21B_uc001gvt.1_Missense_Mutation_p.A10T	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	227	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						GTGAAGATGGCGTGGGAGCGT	0.637													16	33					0	0	1	0	0		T	200974489	T	T	200974489	3	4	16	1	0	0	0	0	1	0	0	0	8305	768	27	1	4315	1	KIF21B	1	200974489	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3493591	200974489	48276132	101	11776											
PKP1	5317	broad.mit.edu	37	chr1	201289420	201289420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctcggccgatgcaggcCgccagaccatgcgtaactac	9	6	12	14	4	0	2	0	1	0	1	1	3	0	2	4	2	5	3	4	2	2	2	rs146785756		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:201289420C>T	uc001gwd.2	+	8	1572	c.1321C>T	c.(1321-1323)CGC>TGC	p.R441C	PKP1_uc001gwe.2_Missense_Mutation_p.R420C|PKP1_uc009wzm.2_Missense_Mutation_p.R28C	NM_000299	NP_000290	Q13835	PKP1_HUMAN	plakophilin 1 isoform 1b	441	ARM 5.				cell adhesion|cellular component disassembly involved in apoptosis|multicellular organismal development	desmosome|intermediate filament|nucleus	intermediate filament binding|signal transducer activity|structural constituent of epidermis			ovary(2)	2						CGATGCAGGCCGCCAGACCAT	0.373													9	32					0	0	1	0	0		T	201289420	T	T	201289420	3	4	16	1	0	0	0	0	1	0	0	0	12003	652	23	1	1351	1	PKP1	1	201289420	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	314931	201289420	47961201	102	11777											
TNNT2	7139	broad.mit.edu	37	chr1	201333455	201333455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctgccgctccttctcccGctcattccggatgcgctgct	2	13	9	17	4	3	0	1	0	2	0	6	1	5	1	4	1	3	5	4	1	0	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:201333455G>A	uc001gwf.2	-	11	529	c.460C>T	c.(460-462)CGG>TGG	p.R154W	TNNT2_uc009wzn.2_5'Flank|TNNT2_uc009wzo.2_5'Flank|TNNT2_uc009wzp.2_5'Flank|TNNT2_uc001gwg.2_Missense_Mutation_p.R144W|TNNT2_uc001gwh.2_Missense_Mutation_p.R139W|TNNT2_uc001gwi.2_Missense_Mutation_p.R114W|TNNT2_uc009wzr.2_Missense_Mutation_p.R85W|TNNT2_uc001gwj.1_5'Flank|TNNT2_uc009wzs.1_Missense_Mutation_p.R119W|TNNT2_uc001gwk.1_Missense_Mutation_p.R85W|TNNT2_uc009wzt.1_Missense_Mutation_p.R144W	NM_000364	NP_000355	P45379	TNNT2_HUMAN	troponin T type 2, cardiac isoform 1	154					ATP catabolic process|muscle filament sliding|negative regulation of ATPase activity|positive regulation of ATPase activity|regulation of heart contraction|response to calcium ion|response to calcium ion|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin binding|tropomyosin binding|troponin C binding|troponin I binding				0						TCCTTCTCCCGCTCATTCCGG	0.667													7	13					0	0	1	0	0		A	201333455	A	A	201333455	3	1	16	1	0	0	0	0	1	0	0	0	16356	1086	38	1	467	1	TNNT2	1	201333455	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	44035	201333455	47917166	103	11778											
PPFIA4	8497	broad.mit.edu	37	chr1	203040880	203040880	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgggcacagaccggaagCtggatgacgtgagtacctgg	9	7	15	10	2	0	3	0	2	0	1	0	5	0	5	3	4	2	3	3	4	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:203040880C>T	uc001gyz.2	+	15	2460	c.1867C>T	c.(1867-1869)CTG>TTG	p.L623L	PPFIA4_uc009xaj.2_Silent_p.L1254L|PPFIA4_uc010pqf.1_Silent_p.L836L|PPFIA4_uc001gza.2_Silent_p.L614L|PPFIA4_uc001gzb.1_Silent_p.L309L|PPFIA4_uc001gzc.1_Silent_p.L165L	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	623					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						AGACCGGAAGCTGGATGACGT	0.527													5	22					0	0	1	0	0		T	203040880	T	T	203040880	2	4	16	1	0	0	0	0	0	0	0	1	12331	796	28	2		2	PPFIA4	1	203040880	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1707425	203040880	46209741	104	11779											
ADORA1	134	broad.mit.edu	37	chr1	203098074	203098074	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgatctgggcggtgaaGgtgaaccaggcgctgcggga	7	7	19	8	3	1	3	0	3	1	0	1	4	1	4	1	6	2	1	1	6	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:203098074G>T	uc001gze.1	+	3	538	c.105G>T	c.(103-105)AAG>AAT	p.K35N	ADORA1_uc001gzf.1_Missense_Mutation_p.K35N|ADORA1_uc010pqg.1_Translation_Start_Site|ADORA1_uc009xak.1_Translation_Start_Site|ADORA1_uc010pqh.1_Missense_Mutation_p.K68N	NM_000674	NP_000665	P30542	AA1R_HUMAN	adenosine A1 receptor	35	Cytoplasmic (Potential).				induction of apoptosis by extracellular signals|inflammatory response|nervous system development|phagocytosis	integral to plasma membrane				large_intestine(1)	1					Aminophylline(DB01223)|Caffeine(DB00201)|Defibrotide(DB04932)|Gabapentin(DB00996)|Imipramine(DB00458)|Pegademase bovine(DB00061)|Theophylline(DB00277)	GGGCGGTGAAGGTGAACCAGG	0.652													30	68					3.76114e-14	4.02597e-14	1	1	0		T	203098074	T	T	203098074	3	4	16	1	0	0	0	0	1	0	0	0	326	991	35	5	107	5	ADORA1	1	203098074	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	57194	203098074	46152547	105	11780											
LAMB3	3914	broad.mit.edu	37	chr1	209811925	209811925	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccggaggatgaagccacAttctctactcggtgactgta	9	9	13	10	2	1	2	0	2	1	0	3	4	1	4	2	4	2	1	2	4	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:209811925A>G	uc001hhg.2	-	3	642	c.252T>C	c.(250-252)AAT>AAC	p.N84N	LAMB3_uc009xco.2_Silent_p.N84N|LAMB3_uc001hhh.2_Silent_p.N84N|LAMB3_uc010psl.1_RNA|LAMB3_uc009xcp.1_Silent_p.N84N	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	84	Laminin N-terminal.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		ATGAAGCCACATTCTCTACTC	0.532													21	28					0	0	1	0	0		G	209811925	G	G	209811925	2	3	16	1	0	0	0	0	0	0	0	1	8628	214	8	3		3	LAMB3	1	209811925	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	6713851	209811925	39438696	106	11781											
SERTAD4	56256	broad.mit.edu	37	chr1	210415509	210415509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggtggccccctcagccacGaacctgtgggaaatgacctt	9	8	11	13	1	1	1	1	1	0	0	1	3	1	2	5	3	2	0	5	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:210415509G>A	uc001hhy.2	+	4	1077	c.898G>A	c.(898-900)GAA>AAA	p.E300K	SERTAD4_uc009xcw.2_Missense_Mutation_p.E300K	NM_019605	NP_062551	Q9NUC0	SRTD4_HUMAN	SERTA domain containing 4	300							protein binding			ovary(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0237)|all cancers(67;0.127)		CCTCAGCCACGAACCTGTGGG	0.398													25	55					0	0	1	0	0		A	210415509	A	A	210415509	3	1	16	1	0	0	0	0	1	0	0	0	14148	1059	37	1	908	1	SERTAD4	1	210415509	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	603584	210415509	38835112	107	11782											
GPATCH2	55105	broad.mit.edu	37	chr1	217793680	217793680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcacattatacgacctcCgttttctccctctccttttc	6	16	4	15	2	2	0	0	0	2	0	6	2	3	0	4	0	2	2	4	0	2	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:217793680C>T	uc001hlf.1	-	2	314	c.218G>A	c.(217-219)CGG>CAG	p.R73Q	GPATCH2_uc001hlg.3_Missense_Mutation_p.R73Q	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	73						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		ATACGACCTCCGTTTTCTCCC	0.473													6	90					0	0	1	0	0		T	217793680	T	T	217793680	3	4	16	1	0	0	0	0	1	0	0	0	6606	652	23	1	1404	1	GPATCH2	1	217793680	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7378171	217793680	31456941	108	11783											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220369638	220369638	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggattggaccctacagtgAtatactgagacatggcaggt	12	10	12	7	0	0	2	0	2	0	1	0	5	0	4	1	4	2	1	1	4	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:220369638A>G	uc010puk.1	-	10	1078	c.914T>C	c.(913-915)ATC>ACC	p.I305T	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_5'UTR	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	305					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		CCCTACAGTGATATACTGAGA	0.378													30	65					0	0	1	0	0		G	220369638	G	G	220369638	3	3	16	1	0	0	0	0	1	0	0	0	12961	333	12	3	3371	3	RAB3GAP2	1	220369638	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	2575958	220369638	28880983	109	11784											
LBR	3930	broad.mit.edu	37	chr1	225594521	225594521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggatgatgtccatggtcGtcaacaacgcttcctataag	10	11	10	10	3	1	1	1	1	0	0	4	2	3	2	2	2	2	1	2	2	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:225594521G>A	uc001hoy.2	-	11	1471	c.1328C>T	c.(1327-1329)ACG>ATG	p.T443M	LBR_uc001hoz.2_Missense_Mutation_p.T443M|LBR_uc001hpa.1_Missense_Mutation_p.T443M	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	443					cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		GTCCATGGTCGTCAACAACGC	0.408													8	42					0	0	1	0	0		A	225594521	A	A	225594521	3	1	16	1	0	0	0	0	1	0	0	0	8668	1145	40	1	535	1	LBR	1	225594521	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	5224883	225594521	23656100	110	11785											
OBSCN	84033	broad.mit.edu	37	chr1	228402783	228402783	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtccctacctcgagttcccGgggactgtccacctgggtaa	7	9	11	14	2	0	0	0	0	0	0	4	2	3	1	5	3	1	2	5	3	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:228402783G>A	uc009xez.1	+	5	1856	c.1812G>A	c.(1810-1812)CCG>CCA	p.P604P	OBSCN_uc001hsn.2_Silent_p.P604P|uc001hsm.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	604	Fibronectin type-III 1.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TCGAGTTCCCGGGGACTGTCC	0.627													7	23					0	0	1	0	0		A	228402783	A	A	228402783	2	1	16	1	0	0	0	0	0	0	0	1	10831	1103	39	1		1	OBSCN	1	228402783	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2808262	228402783	20847838	111	11786											
RAB4A	5867	broad.mit.edu	37	chr1	229422273	229422273	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttattggaaatgcaggaacTggcaaatcttgcttacttca	12	13	9	7	0	2	0	1	0	1	0	2	2	2	2	0	3	4	4	0	3	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:229422273T>C	uc001hth.2	+	2	280	c.72T>C	c.(70-72)ACT>ACC	p.T24T	RAB4A_uc001hti.2_RNA|RAB4A_uc001htj.2_Intron	NM_004578	NP_004569	P20338	RAB4A_HUMAN	RAB4A, member RAS oncogene family	19	GTP.						GDP binding|GTP binding|GTPase activity			ovary(1)	1	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.178)				ATGCAGGAACTGGCAAATCTT	0.333													10	15					0	0	1	0	0		C	229422273	C	C	229422273	2	2	16	1	0	0	0	0	0	0	0	1	12971	1567	55	3		3	RAB4A	1	229422273	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1019490	229422273	19828348	112	11787											
ABCB10	23456	broad.mit.edu	37	chr1	229667403	229667403	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttaaaaggcagcttgggcTctctctccaggagctcccag	8	9	11	13	1	2	0	0	0	2	0	5	1	3	1	2	3	2	5	2	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:229667403T>G	uc001htp.3	-	7	1458	c.1415A>C	c.(1414-1416)GAG>GCG	p.E472A		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	472	Mitochondrial intermembrane (Potential).|Mitochondrial matrix (Potential).					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				CAGCTTGGGCTCTCTCTCCAG	0.512													25	64					0	0	1	0	0		G	229667403	G	G	229667403	3	3	16	1	0	0	0	0	1	0	0	0	41	1551	54	5	829	5	ABCB10	1	229667403	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	245130	229667403	19583218	113	11788											
URB2	9816	broad.mit.edu	37	chr1	229772399	229772399	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttagaacagctgtacctgcAgaaaatgaaaaggactttaa	17	9	8	7	0	0	3	0	1	0	2	0	4	0	4	1	1	4	3	1	1	8	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:229772399A>C	uc001hts.1	+	4	2175	c.2039A>C	c.(2038-2040)CAG>CCG	p.Q680P	URB2_uc009xfd.1_Missense_Mutation_p.Q680P	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	680						nucleolus				central_nervous_system(2)|ovary(1)	3						CTGTACCTGCAGAAAATGAAA	0.423													66	185					0	0	1	0	0		C	229772399	C	C	229772399	3	2	16	1	0	0	0	0	1	0	0	0	17051	188	7	5	2049	5	URB2	1	229772399	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	104996	229772399	19478222	114	11789											
NID1	4811	broad.mit.edu	37	chr1	236142400	236142400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaagatcgagagcaaccaCggaattcctacaaagcacca	16	5	8	12	2	0	2	0	0	0	2	2	4	1	3	3	1	5	3	3	1	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:236142400C>T	uc001hxo.2	-	19	3619	c.3517G>A	c.(3517-3519)GTG>ATG	p.V1173M	NID1_uc009xgd.2_Missense_Mutation_p.V1040M|NID1_uc009xgc.2_Missense_Mutation_p.V254M	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	1173					cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	AGAGCAACCACGGAATTCCTA	0.488													9	29					0	0	1	0	0		T	236142400	T	T	236142400	3	4	16	1	0	0	0	0	1	0	0	0	10433	536	19	1	234	1	NID1	1	236142400	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6370001	236142400	13108221	115	11790											
NID1	4811	broad.mit.edu	37	chr1	236154336	236154336	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgcaggtccttggtgaatCgggggagccactgtactcag	8	8	14	11	2	1	1	1	1	0	0	3	2	2	2	3	4	2	2	3	4	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:236154336C>T	uc001hxo.2	-	14	2880	c.2778G>A	c.(2776-2778)CCG>CCA	p.P926P	NID1_uc009xgd.2_Silent_p.P793P|NID1_uc009xgc.2_Silent_p.P12P	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	926					cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	CTTGGTGAATCGGGGGAGCCA	0.532													5	10					0	0	1	0	0		T	236154336	T	T	236154336	2	4	16	1	0	0	0	0	0	0	0	1	10433	871	31	1		1	NID1	1	236154336	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	11936	236154336	13096285	116	11791											
ZP4	57829	broad.mit.edu	37	chr1	238048857	238048857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgggtagtcaccaacacCgtagtaagagccatagtttt	12	10	9	10	1	1	1	1	0	0	1	1	1	1	1	3	1	2	4	3	1	5	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:238048857C>T	uc001hym.2	-	8	994	c.994G>A	c.(994-996)GGT>AGT	p.G332S	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	332	ZP.|Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			TCACCAACACCGTAGTAAGAG	0.483													23	46					0	0	1	0	0		T	238048857	T	T	238048857	3	4	16	1	0	0	0	0	1	0	0	0	18243	652	23	1	648	1	ZP4	1	238048857	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1894521	238048857	11201764	117	11792											
KIF26B	55083	broad.mit.edu	37	chr1	245849621	245849621	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcgagcaaggattccggCgtggcgtctagggagtcctt	6	9	14	12	4	1	0	0	0	1	0	4	3	3	2	3	4	1	1	3	4	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:245849621C>T	uc001ibf.1	+	12	3776	c.3336C>T	c.(3334-3336)GGC>GGT	p.G1112G	KIF26B_uc001ibg.1_Silent_p.G730G|KIF26B_uc001ibh.1_Silent_p.G354G	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1112					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			AGGATTCCGGCGTGGCGTCTA	0.617													32	55					0	0	1	0	0		T	245849621	T	T	245849621	2	4	16	1	0	0	0	0	0	0	0	1	8311	755	27	1		1	KIF26B	1	245849621	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7800764	245849621	3401000	118	11793											
OR13G1	441933	broad.mit.edu	37	chr1	247836183	247836183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggaaaacatacatgggcGtatgcaaggtgttgttatag	14	10	13	4	1	0	0	0	0	0	0	0	2	0	1	0	3	3	4	0	3	8	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:247836183G>A	uc001idi.1	-	1	161	c.161C>T	c.(160-162)ACG>ATG	p.T54M		NM_001005487	NP_001005487	Q8NGZ3	O13G1_HUMAN	olfactory receptor, family 13, subfamily G,	54	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			ATACATGGGCGTATGCAAGGT	0.423													10	50					0	0	1	0	0		A	247836183	A	A	247836183	3	1	16	1	0	0	0	0	1	0	0	0	10961	1145	40	1	766	1	OR13G1	1	247836183	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1986562	247836183	1414438	119	11794											
OR2T8	343172	broad.mit.edu	37	chr1	248084867	248084867	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgagacccccgtgctggTgcgtttggcttgtgctgaca	4	11	14	12	3	0	2	0	1	0	1	0	3	0	2	2	2	4	4	2	2	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:248084867T>C	uc010pzc.1	+	1	548	c.548T>C	c.(547-549)GTG>GCG	p.V183A		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CCCGTGCTGGTGCGTTTGGCT	0.552													9	49					0	0	1	0	0		C	248084867	C	C	248084867	3	2	16	1	0	0	0	0	1	0	0	0	11049	1696	59	3	550	3	OR2T8	1	248084867	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	248684	248084867	1165754	120	11795											
OR14I1	401994	broad.mit.edu	37	chr1	248845531	248845531	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagcagaaacagcccggcGtgcagcacctgcagctccca	11	4	10	16	2	1	1	1	0	0	1	2	1	2	1	3	1	7	5	3	1	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:248845531G>A	uc001ieu.1	-	1	75	c.75C>T	c.(73-75)CAC>CAT	p.H25H		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	25	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACAGCCCGGCGTGCAGCACCT	0.493													23	42					0	0	1	0	0		A	248845531	A	A	248845531	2	1	16	1	0	0	0	0	0	0	0	1	10966	1136	40	1		1	OR14I1	1	248845531	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	760664	248845531	405090	121	11796											
ZNF692	55657	broad.mit.edu	37	chr1	249149812	249149812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcccaggccggggttggagCagactgggcctgactcccag	7	6	15	13	1	0	2	0	1	0	1	2	3	2	3	4	5	1	2	4	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr1:249149812C>T	uc001ifc.1	-	8	1071	c.904G>A	c.(904-906)GCT>ACT	p.A302T	ZNF692_uc001iez.1_Missense_Mutation_p.A24T|ZNF692_uc001ifa.1_Missense_Mutation_p.A24T|ZNF692_uc001ifb.1_Missense_Mutation_p.A98T|ZNF692_uc001ifd.1_Missense_Mutation_p.A301T|ZNF692_uc001ife.1_RNA|ZNF692_uc001iff.1_Missense_Mutation_p.A257T|ZNF692_uc010pzr.1_Missense_Mutation_p.A307T	NM_017865	NP_060335	Q9BU19	ZN692_HUMAN	zinc finger protein 692 isoform 2	302					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			GGGGTTGGAGCAGACTGGGCC	0.632													12	25					0	0	1	0	0		T	249149812	T	T	249149812	3	4	16	1	0	0	0	0	1	0	0	0	18122	710	25	2	675	2	ZNF692	1	249149812	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	304281	249149812	100809	122	11797											
TPO	7173	broad.mit.edu	37	chr2	1459959	1459959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacatcgaccacgacatcGcgttcacaccacagagcacc	14	5	6	16	4	1	1	1	0	0	1	3	3	1	1	3	0	2	2	3	0	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:1459959G>A	uc002qww.2	+	7	815	c.724G>A	c.(724-726)GCG>ACG	p.A242T	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Missense_Mutation_p.A242T|TPO_uc002qwr.2_Missense_Mutation_p.A242T|TPO_uc002qwx.2_Missense_Mutation_p.A242T|TPO_uc010yio.1_Missense_Mutation_p.A242T|TPO_uc010yip.1_Missense_Mutation_p.A242T	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	242	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity	p.A242A(1)		ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CCACGACATCGCGTTCACACC	0.498													5	41					0	0	1	0	0		A	1459959	A	A	1459959	3	1	16	1	0	0	0	0	1	0	0	0	16436	1087	38	1	746	1	TPO	2	1459959	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08		1459959	241739414	123	11798											
MBOAT2	129642	broad.mit.edu	37	chr2	9017344	9017344	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtaagcttggcatgcgcCtgcaatgaaaagacatgcaa	14	7	10	10	1	0	2	0	1	0	1	0	2	0	2	2	1	4	5	2	1	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:9017344C>A	uc002qzg.1	-	7	640	c.507_splice	c.e7-1	p.R169_splice	MBOAT2_uc010yix.1_Splice_Site_p.R169_splice	NM_138799	NP_620154	Q6ZWT7	MBOA2_HUMAN	O-acyltransferase (membrane bound) domain						phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TGGCATGCGCCTGCAATGAAA	0.428													14	24					3.41278e-10	3.58819e-10	1	1	0		A	9017344	A	A	9017344	5	1	16	1	0	0	0	0	0	0	1	0	9375	695	24	5	1084	5	MBOAT2	2	9017344	Splice_Site	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7557385	9017344	234182029	124	11799											
HPCAL1	3241	broad.mit.edu	37	chr2	10560003	10560003	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcaaggactgccccacCggccacctgaccgtggacga	8	6	10	17	3	1	1	1	1	0	0	2	4	2	3	7	3	1	0	7	3	1	1	rs143370055	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:10560003C>T	uc002raj.2	+	3	494	c.120C>T	c.(118-120)ACC>ACT	p.T40T	HPCAL1_uc002rak.2_Silent_p.T40T|HPCAL1_uc002ral.2_Silent_p.T40T|HPCAL1_uc010exe.2_RNA|HPCAL1_uc010exf.2_Silent_p.T40T	NM_002149	NP_002140	P37235	HPCL1_HUMAN	hippocalcin-like 1	40	EF-hand 1.						calcium ion binding			pancreas(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.214)		ACTGCCCCACCGGCCACCTGA	0.622													22	34					0	0	1	0	0		T	10560003	T	T	10560003	2	4	16	1	0	0	0	0	0	0	0	1	7346	639	23	1		1	HPCAL1	2	10560003	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1542659	10560003	232639370	125	11800											
GREB1	9687	broad.mit.edu	37	chr2	11756801	11756801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgaaaagggagaggtccCgctcccacgactcagcatcc	11	5	10	15	2	1	2	1	1	0	1	4	4	4	2	4	2	1	2	4	2	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:11756801C>T	uc002rbk.1	+	21	3667	c.3367C>T	c.(3367-3369)CGC>TGC	p.R1123C	GREB1_uc002rbp.1_Missense_Mutation_p.R121C	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1123	Ser-rich.					integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GGAGAGGTCCCGCTCCCACGA	0.493													68	144					0	0	1	0	0		T	11756801	T	T	11756801	3	4	16	1	0	0	0	0	1	0	0	0	6776	652	23	1	3553	1	GREB1	2	11756801	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1196798	11756801	231442572	126	11801											
KCNS3	3790	broad.mit.edu	37	chr2	18112315	18112315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccatcgccctggacaagacGaggaacttgtcaacctgaat	12	8	9	12	2	1	2	1	1	0	1	3	5	2	4	3	2	2	0	3	2	4	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:18112315G>A	uc002rcv.2	+	3	491	c.40G>A	c.(40-42)GAG>AAG	p.E14K	KCNS3_uc002rcw.2_Missense_Mutation_p.E14K	NM_002252	NP_002243	Q9BQ31	KCNS3_HUMAN	potassium voltage-gated channel	14	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TGGACAAGACGAGGAACTTGT	0.537													17	49					0	0	1	0	0		A	18112315	A	A	18112315	3	1	16	1	0	0	0	0	1	0	0	0	8106	1059	37	1	42	1	KCNS3	2	18112315	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6355514	18112315	225087058	127	11802											
SDC1	6382	broad.mit.edu	37	chr2	20402951	20402951	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccacggccactacagcCgtattctcccccgaggtttc	6	9	9	17	3	1	0	0	0	1	0	4	1	2	0	5	3	2	3	5	3	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:20402951C>T	uc002rdo.1	-	4	959	c.660G>A	c.(658-660)ACG>ACA	p.T220T	SDC1_uc002rdp.1_Silent_p.T220T|SDC1_uc010exv.2_Intron	NM_002997	NP_002988	P18827	SDC1_HUMAN	syndecan 1 precursor	220	Extracellular (Potential).				lipid metabolic process|lipoprotein metabolic process|myoblast development|striated muscle cell development	cytoplasm|extracellular region|focal adhesion|integral to plasma membrane	cytoskeletal protein binding|protein C-terminus binding			ovary(4)|skin(1)	5	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)			OV - Ovarian serous cystadenocarcinoma(76;0.221)		CCACTACAGCCGTATTCTCCC	0.647													13	9					0	0	1	0	0		T	20402951	T	T	20402951	2	4	16	1	0	0	0	0	0	0	0	1	13976	639	23	1		1	SDC1	2	20402951	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2290636	20402951	222796422	128	11803											
KIF3C	3797	broad.mit.edu	37	chr2	26203351	26203351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcctcgctcaccaggctgCggtcatcctggatggctgcc	4	10	11	16	2	3	0	2	0	1	0	6	1	4	1	4	4	2	3	4	4	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:26203351C>T	uc002rgu.2	-	1	2093	c.1436G>A	c.(1435-1437)CGC>CAC	p.R479H	KIF3C_uc010eyj.1_RNA|KIF3C_uc010ykr.1_Missense_Mutation_p.R479H	NM_002254	NP_002245	O14782	KIF3C_HUMAN	kinesin family member 3C	479	Potential.				blood coagulation|microtubule-based movement	cytosol|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CACCAGGCTGCGGTCATCCTG	0.607													14	31					0	0	1	0	0		T	26203351	T	T	26203351	3	4	16	1	0	0	0	0	1	0	0	0	8318	768	27	1	977	1	KIF3C	2	26203351	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5800400	26203351	216996022	129	11804											
EPT1	85465	broad.mit.edu	37	chr2	26606214	26606214	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtttattaaactttttcAggtaagtattttatttttta	11	23	5	2	0	1	1	1	1	0	0	1	1	1	1	0	1	1	3	0	1	7	12			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:26606214A>G	uc010ykz.1	+	7	877	c.730A>G	c.(730-732)AGA>GGA	p.R244G	EPT1_uc010eyl.1_RNA	NM_033505	NP_277040	Q9C0D9	EPT1_HUMAN	selenoprotein I	244					phospholipid biosynthetic process	integral to membrane	ethanolaminephosphotransferase activity|metal ion binding				0						AAACTTTTTCAGGTAAGTATT	0.289													3	11					0	0	1	0	0		G	26606214	G	G	26606214	3	3	16	1	0	0	0	0	1	0	0	0	5207	202	7	3	756	3	EPT1	2	26606214	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	402863	26606214	216593159	130	11805											
OTOF	9381	broad.mit.edu	37	chr2	26693574	26693574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttcttcttcttcttcttctCcttctcctcctcagcctgca	2	19	2	18	0	8	0	1	0	7	0	11	0	9	0	4	0	2	1	4	0	0	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:26693574C>T	uc002rhk.2	-	32	4037	c.3910G>A	c.(3910-3912)GAG>AAG	p.E1304K	OTOF_uc010yla.1_Missense_Mutation_p.E34K|OTOF_uc002rhh.2_Missense_Mutation_p.E537K|OTOF_uc002rhi.2_Missense_Mutation_p.E614K|OTOF_uc002rhj.2_Missense_Mutation_p.E537K	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1304	Cytoplasmic (Potential).|Poly-Lys.				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ttcttcttctccttctcctcc	0.512													15	40					0	0	1	0	0		T	26693574	T	T	26693574	3	4	16	1	0	0	0	0	1	0	0	0	11322	864	30	4	2328	4	OTOF	2	26693574	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	87360	26693574	216505799	131	11806											
KCNK3	3777	broad.mit.edu	37	chr2	26950703	26950703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggggctgggcatgcggcGcgccgacgtgtccatggcca	6	5	18	12	5	0	0	0	0	0	0	1	2	1	0	3	5	1	2	3	5	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:26950703G>A	uc002rhn.2	+	2	615	c.452G>A	c.(451-453)CGC>CAC	p.R151H		NM_002246	NP_002237	O14649	KCNK3_HUMAN	potassium channel, subfamily K, member 3	151	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCATGCGGCGCGCCGACGTG	0.647													13	20					0	0	1	0	0		A	26950703	A	A	26950703	3	1	16	1	0	0	0	0	1	0	0	0	8083	1087	38	1	458	1	KCNK3	2	26950703	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	257129	26950703	216248670	132	11807											
DPYSL5	56896	broad.mit.edu	37	chr2	27150265	27150265	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacattggggcaatcgccCgcgtccatgctgaaaatggg	10	7	14	10	3	0	1	0	1	0	0	2	2	1	2	2	4	1	2	2	4	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:27150265C>T	uc002rhu.3	+	4	723	c.565C>T	c.(565-567)CGC>TGC	p.R189C	DPYSL5_uc002rhv.3_Missense_Mutation_p.R189C	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	189					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCAATCGCCCGCGTCCATGC	0.532													14	25					0	0	1	0	0		T	27150265	T	T	27150265	3	4	16	1	0	0	0	0	1	0	0	0	4756	652	23	1	575	1	DPYSL5	2	27150265	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	199562	27150265	216049108	133	11808											
AGBL5	60509	broad.mit.edu	37	chr2	27278613	27278613	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgatgccgtcctgcacccGgccatctatggggccaaagc	7	7	11	16	2	1	1	0	1	1	0	2	1	2	1	6	3	3	1	6	3	2	1	rs140050281		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:27278613G>A	uc002rie.2	+	7	1189	c.972G>A	c.(970-972)CCG>CCA	p.P324P	AGBL5_uc002ric.2_Silent_p.P324P|AGBL5_uc002rid.2_Silent_p.P324P|AGBL5_uc002rif.2_RNA	NM_021831	NP_068603	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5 isoform 1	324					protein branching point deglutamylation|proteolysis	cytosol|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCTGCACCCGGCCATCTATG	0.552													36	69					0	0	1	0	0		A	27278613	A	A	27278613	2	1	16	1	0	0	0	0	0	0	0	1	378	1103	39	1		1	AGBL5	2	27278613	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	128348	27278613	215920760	134	11809											
AGBL5	60509	broad.mit.edu	37	chr2	27282079	27282079	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttgcctgtctcctgctcCgaaaacaccttgagtcgggc	6	10	12	13	2	1	1	0	1	1	0	4	2	2	1	4	2	3	2	4	2	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:27282079C>T	uc002rie.2	+	11	2113	c.1896C>T	c.(1894-1896)TCC>TCT	p.S632S	AGBL5_uc002rid.2_Silent_p.S632S|AGBL5_uc002rif.2_RNA	NM_021831	NP_068603	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5 isoform 1	632					protein branching point deglutamylation|proteolysis	cytosol|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCTCCTGCTCCGAAAACACCT	0.537													59	124					0	0	1	0	0		T	27282079	T	T	27282079	2	4	16	1	0	0	0	0	0	0	0	1	378	639	23	1		1	AGBL5	2	27282079	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3466	27282079	215917294	135	11810											
IFT172	26160	broad.mit.edu	37	chr2	27679392	27679392	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaccaattgtctgcagcGtggtcaacagcagcttccag	9	9	9	14	1	3	0	2	0	1	0	4	0	4	0	3	1	5	3	3	1	2	2	rs76787560	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:27679392G>A	uc002rku.2	-	30	3408	c.3357C>T	c.(3355-3357)CAC>CAT	p.H1119H	IFT172_uc010ezb.2_5'Flank	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	1119					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					TGTCTGCAGCGTGGTCAACAG	0.522													17	50					0	0	1	0	0		A	27679392	A	A	27679392	2	1	16	1	0	0	0	0	0	0	0	1	7573	1136	40	1		1	IFT172	2	27679392	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	397313	27679392	215519981	136	11811											
PLB1	151056	broad.mit.edu	37	chr2	28825712	28825712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagtcctggtcaacctcGtggacttcctgaaccccact	8	9	8	16	1	1	2	1	1	0	1	4	3	3	3	6	2	2	0	6	2	2	1	rs142314104	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:28825712G>A	uc002rmb.1	+	39	2698	c.2698G>A	c.(2698-2700)GTG>ATG	p.V900M	PLB1_uc010ezj.1_Missense_Mutation_p.V889M|PLB1_uc002rme.1_Translation_Start_Site|PLB1_uc002rmf.1_5'Flank	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	900	4 X 308-326 AA approximate repeats.|Extracellular (Potential).|3.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					GGTCAACCTCGTGGACTTCCT	0.612													45	78					0	0	1	0	0		A	28825712	A	A	28825712	3	1	16	1	0	0	0	0	1	0	0	0	12043	1145	40	1	2885	1	PLB1	2	28825712	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1146320	28825712	214373661	137	11812											
C2orf71	388939	broad.mit.edu	37	chr2	29295029	29295029	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggatggcatttggaagcttcCcagctttgccttgttcgtcc	5	14	11	11	1	0	0	0	0	0	0	3	2	2	2	3	3	3	4	3	3	1	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:29295029C>A	uc002rmt.1	-	1	2099	c.2099G>T	c.(2098-2100)GGG>GTG	p.G700V		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	700					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						TGGAAGCTTCCCAGCTTTGCC	0.517													23	53					7.87624e-14	8.41453e-14	1	1	0		A	29295029	A	A	29295029	3	1	16	1	0	0	0	0	1	0	0	0	2194	623	22	5	1775	5	C2orf71	2	29295029	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	469317	29295029	213904344	138	11813											
TMEM178	130733	broad.mit.edu	37	chr2	39931305	39931305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccttttaatttaaccaagaCcatacagcaagatgagtggc	14	11	7	9	0	0	3	0	1	0	2	1	3	1	3	3	1	3	1	3	1	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:39931305C>T	uc002rrt.2	+	2	510	c.485C>T	c.(484-486)ACC>ATC	p.T162I	TMEM178_uc010fam.1_Missense_Mutation_p.T162I	NM_152390	NP_689603	Q8NBL3	TM178_HUMAN	transmembrane protein 178 precursor	162	Extracellular (Potential).					integral to membrane					0		all_hematologic(82;0.248)				TTAACCAAGACCATACAGCAA	0.458													18	39					0	0	1	0	0		T	39931305	T	T	39931305	3	4	16	1	0	0	0	0	1	0	0	0	16120	507	18	4	491	4	TMEM178	2	39931305	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	10636276	39931305	203268068	139	11814											
ABCG8	64241	broad.mit.edu	37	chr2	44079930	44079930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccccatctacttaggggCggcccagcacatggtccagt	8	7	10	16	1	1	0	0	0	1	0	2	0	2	0	4	4	2	1	4	4	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:44079930C>T	uc002rtq.2	+	6	977	c.887C>T	c.(886-888)GCG>GTG	p.A296V	ABCG8_uc010yoa.1_Missense_Mutation_p.A296V	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	296	ABC transporter.|Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TACTTAGGGGCGGCCCAGCAC	0.592													19	43					0	0	1	0	0		T	44079930	T	T	44079930	3	4	16	1	0	0	0	0	1	0	0	0	72	768	27	1	909	1	ABCG8	2	44079930	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4148625	44079930	199119443	140	11815											
SRBD1	55133	broad.mit.edu	37	chr2	45778340	45778340	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaaggtgcgccctggaacAgggcttgttaaaaggagctg	11	9	14	7	1	0	0	0	0	0	0	0	2	0	2	1	4	3	3	1	4	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:45778340A>C	uc002rus.2	-	12	1675	c.1599T>G	c.(1597-1599)CCT>CCG	p.P533P	SRBD1_uc010yoc.1_Silent_p.P52P	NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	533					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			GCCCTGGAACAGGGCTTGTTA	0.398													19	42					0	0	1	0	0		C	45778340	C	C	45778340	2	2	16	1	0	0	0	0	0	0	0	1	15158	175	7	5		5	SRBD1	2	45778340	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1698410	45778340	197421033	141	11816											
SRBD1	55133	broad.mit.edu	37	chr2	45800478	45800478	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atacaaacatgtctcttctgGcacctgttcagatacacaag	13	11	6	11	0	3	1	1	0	2	1	4	1	3	1	1	1	3	2	1	1	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:45800478G>A	uc002rus.2	-	9	1249	c.1173C>T	c.(1171-1173)TGC>TGT	p.C391C		NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	391					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			GTCTCTTCTGGCACCTGTTCA	0.328													9	26					0	0	1	0	0		A	45800478	A	A	45800478	2	1	16	1	0	0	0	0	0	0	0	1	15158	1195	42	2		2	SRBD1	2	45800478	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	22138	45800478	197398895	142	11817											
FSHR	2492	broad.mit.edu	37	chr2	49210115	49210115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcttctaaattattattatCgcttagattcctggggatgg	9	18	8	6	1	2	1	0	0	2	1	4	2	3	2	1	3	0	1	1	3	6	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:49210115C>T	uc002rww.2	-	8	678	c.604G>A	c.(604-606)GAT>AAT	p.D202N	FSHR_uc002rwx.2_Missense_Mutation_p.D202N|FSHR_uc010fbn.2_Missense_Mutation_p.D176N	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	202	LRR 7.|Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	TTATTATTATCGCTTAGATTC	0.413									Gonadal_Dysgenesis_46_XX				15	52					0	0	1	0	0		T	49210115	T	T	49210115	3	4	16	1	0	0	0	0	1	0	0	0	6087	884	31	1	1495	1	FSHR	2	49210115	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3409637	49210115	193989258	143	11818											
NRXN1	9378	broad.mit.edu	37	chr2	50318469	50318469	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacttgcttacctgcagggTagcgctcgatcactggccag	7	10	11	13	2	2	0	2	0	0	0	3	1	2	0	2	2	4	4	2	2	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:50318469T>C	uc010fbp.2	-	3	1412	c.605A>G	c.(604-606)TAC>TGC	p.Y202C	NRXN1_uc002rxb.3_Missense_Mutation_p.Y909C|NRXN1_uc010fbq.2_Missense_Mutation_p.Y1277C|NRXN1_uc002rxe.3_Missense_Mutation_p.Y1237C	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	202	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			ACCTGCAGGGTAGCGCTCGAT	0.448													54	104					0	0	1	0	0		C	50318469	C	C	50318469	3	2	16	1	0	0	0	0	1	0	0	0	10684	1638	57	3	833	3	NRXN1	2	50318469	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1108354	50318469	192880904	144	11819											
NRXN1	9378	broad.mit.edu	37	chr2	50573961	50573961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgccactcctaggaggcCgctgagggtgagcgggacta	8	5	15	13	3	0	2	0	2	0	0	1	4	1	4	4	4	1	1	4	4	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:50573961C>T	uc010fbp.2	-	1	934	c.127G>A	c.(127-129)GGC>AGC	p.G43S	NRXN1_uc002rxb.3_Intron|NRXN1_uc010fbq.2_Intron|NRXN1_uc002rxe.3_Intron|NRXN1_uc002rxc.1_Intron	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	43					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CCTAGGAGGCCGCTGAGGGTG	0.522													3	9					0	0	1	0	0		T	50573961	T	T	50573961	3	4	16	1	0	0	0	0	1	0	0	0	10684	652	23	1	1319	1	NRXN1	2	50573961	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	255492	50573961	192625412	145	11820											
USP34	9736	broad.mit.edu	37	chr2	61441428	61441428	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggttctgaacaataaggcGgatattctctggacagtcag	11	11	12	7	1	3	1	1	1	2	0	4	3	3	3	0	4	1	1	0	4	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:61441428G>A	uc002sbe.2	-	68	8471	c.8449C>T	c.(8449-8451)CGC>TGC	p.R2817C		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2817					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ACAATAAGGCGGATATTCTCT	0.428													50	136					0	0	1	0	0		A	61441428	A	A	61441428	3	1	16	1	0	0	0	0	1	0	0	0	17091	1116	39	1	2243	1	USP34	2	61441428	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	10867467	61441428	181757945	146	11821											
B3GNT2	10678	broad.mit.edu	37	chr2	62450427	62450427	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggcttcaggacatttgatAtcgaggagaaaaacaaaaat	19	8	9	5	1	1	2	1	1	0	1	2	5	1	3	0	3	1	1	0	3	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:62450427A>G	uc002sbs.2	+	2	1310	c.1072A>G	c.(1072-1074)ATC>GTC	p.I358V		NM_006577	NP_006568	Q9NY97	B3GN2_HUMAN	UDP-GlcNAc:betaGal	358	Lumenal (Potential).					Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1	Lung NSC(7;0.031)|all_lung(7;0.0634)		LUSC - Lung squamous cell carcinoma(7;3.55e-06)|Epithelial(17;0.0963)			GACATTTGATATCGAGGAGAA	0.408													4	58					0	0	1	0	0		G	62450427	G	G	62450427	3	3	16	1	0	0	0	0	1	0	0	0	1258	449	16	3	1074	3	B3GNT2	2	62450427	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1008999	62450427	180748946	147	11822											
ANTXR1	84168	broad.mit.edu	37	chr2	69409628	69409628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattttgtttattttaggttCgttggggagaaaagggctcc	8	17	12	4	1	0	1	0	0	0	1	2	2	1	1	1	4	0	4	1	4	5	9			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:69409628C>T	uc002sfg.2	+	16	1545	c.1189C>T	c.(1189-1191)CGT>TGT	p.R397C		NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	397	Cytoplasmic (Potential).				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						ATTTTAGGTTCGTTGGGGAGA	0.413									Familial_Infantile_Hemangioma				24	48					0	0	1	0	0		T	69409628	T	T	69409628	3	4	16	1	0	0	0	0	1	0	0	0	711	884	31	1	1328	1	ANTXR1	2	69409628	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6959201	69409628	173789745	148	11823											
ANXA4	307	broad.mit.edu	37	chr2	70039823	70039823	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattatctggacgatgctctCgtgagacaggatgcccaggt	10	10	12	9	2	2	1	0	1	2	1	3	5	2	3	1	3	2	1	1	3	2	1	rs141776547		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:70039823C>T	uc002sfr.3	+	8	743	c.516C>T	c.(514-516)CTC>CTT	p.L172L	ANXA4_uc010yqn.1_RNA|ANXA4_uc002sfs.3_Silent_p.L150L|ANXA4_uc010yqo.1_Silent_p.L88L	NM_001153	NP_001144	P09525	ANXA4_HUMAN	annexin IV	170					anti-apoptosis|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity				0						ACGATGCTCTCGTGAGACAGG	0.453													16	28					0	0	1	0	0		T	70039823	T	T	70039823	2	4	16	1	0	0	0	0	0	0	0	1	720	871	31	1		1	ANXA4	2	70039823	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	630195	70039823	173159550	149	11824											
CLEC4F	165530	broad.mit.edu	37	chr2	71043196	71043196	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaggcgactctgctcctgCtggatttccatggttagagc	6	13	11	11	1	2	1	1	0	1	1	4	3	4	2	2	3	3	3	2	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:71043196C>A	uc002shf.2	-	4	1394	c.1317G>T	c.(1315-1317)CAG>CAT	p.Q439H	CLEC4F_uc010yqv.1_Missense_Mutation_p.Q439H	NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	439	Extracellular (Potential).				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5						TCTGCTCCTGCTGGATTTCCA	0.517													24	43					6.12954e-19	6.64702e-19	1	1	0		A	71043196	A	A	71043196	3	1	16	1	0	0	0	0	1	0	0	0	3519	796	28	5	468	5	CLEC4F	2	71043196	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1003373	71043196	172156177	150	11825											
VAX2	25806	broad.mit.edu	37	chr2	71148370	71148370	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagtatgtggtgggccgCgagcgcactgagctggcccg	5	7	17	12	4	0	1	0	1	0	0	0	2	0	1	3	3	3	3	3	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:71148370C>T	uc002shh.2	+	2	422	c.390C>T	c.(388-390)CGC>CGT	p.R130R		NM_012476	NP_036608	Q9UIW0	VAX2_HUMAN	ventral anterior homeobox 2	130	Homeobox.				ectoderm development|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TGGTGGGCCGCGAGCGCACTG	0.647													4	9					0	0	1	0	0		T	71148370	T	T	71148370	2	4	16	1	0	0	0	0	0	0	0	1	17161	755	27	1		1	VAX2	2	71148370	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	105174	71148370	172051003	151	11826											
ZNF638	27332	broad.mit.edu	37	chr2	71591248	71591248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtccaagaatttgccatcGtttcatttctagatacagat	13	14	6	8	1	2	3	1	0	1	3	4	3	3	3	2	0	2	1	2	0	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:71591248G>A	uc002shx.2	+	5	1902	c.1583G>A	c.(1582-1584)CGT>CAT	p.R528H	ZNF638_uc010fec.2_Missense_Mutation_p.R634H|ZNF638_uc010yqw.1_Missense_Mutation_p.R107H|ZNF638_uc002shw.2_Missense_Mutation_p.R528H|ZNF638_uc002shy.2_Missense_Mutation_p.R528H|ZNF638_uc002shz.2_Missense_Mutation_p.R528H|ZNF638_uc002sia.2_Missense_Mutation_p.R528H|ZNF638_uc002sib.1_Missense_Mutation_p.R528H|ZNF638_uc010fed.2_5'Flank	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	528	Arg-rich.				RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						ATTTGCCATCGTTTCATTTCT	0.433													33	69					0	0	1	0	0		A	71591248	A	A	71591248	3	1	16	1	0	0	0	0	1	0	0	0	18080	1145	40	1	1597	1	ZNF638	2	71591248	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	442878	71591248	171608125	152	11827											
LRRTM1	347730	broad.mit.edu	37	chr2	80529936	80529936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcgcactgcaagttgccatCgtagcgcccctggaagttgt	7	9	13	12	3	0	0	0	0	0	0	1	1	0	1	3	2	3	5	3	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:80529936C>T	uc002sok.1	-	2	1279	c.1009G>A	c.(1009-1011)GAT>AAT	p.D337N	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	337	LRRCT.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						AAGTTGCCATCGTAGCGCCCC	0.657										HNSCC(69;0.2)			11	14					0	0	1	0	0		T	80529936	T	T	80529936	3	4	16	1	0	0	0	0	1	0	0	0	9057	884	31	1	563	1	LRRTM1	2	80529936	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	8938688	80529936	162669437	153	11828											
PTCD3	55037	broad.mit.edu	37	chr2	86355071	86355071	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtaatttgagaaccctcGcttgcaacatatcaccatat	12	12	6	11	1	1	1	1	1	0	1	2	2	1	1	2	1	3	3	2	1	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:86355071G>A	uc002sqw.2	+	14	1170	c.1104G>A	c.(1102-1104)TCG>TCA	p.S368S	PTCD3_uc002sqx.1_5'UTR	NM_017952	NP_060422	Q96EY7	PTCD3_HUMAN	pentatricopeptide repeat domain 3 precursor	368	PPR 6.					mitochondrion	protein binding			ovary(1)	1						GAGAACCCTCGCTTGCAACAT	0.338													33	57					0	0	1	0	0		A	86355071	A	A	86355071	2	1	16	1	0	0	0	0	0	0	0	1	12751	1074	38	1		1	PTCD3	2	86355071	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	5825135	86355071	156844302	154	11829											
ZAP70	7535	broad.mit.edu	37	chr2	98351851	98351851	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcattggcgtctgccaggcCgaggccctcatgctggtcat	5	10	12	14	2	4	0	3	0	1	0	4	1	4	0	3	4	2	1	3	4	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:98351851C>T	uc002syd.1	+	10	1428	c.1221C>T	c.(1219-1221)GCC>GCT	p.A407A	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Silent_p.A297A|ZAP70_uc002syf.1_Silent_p.A100A	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	407	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						TCTGCCAGGCCGAGGCCCTCA	0.662													31	45					0	0	1	0	0		T	98351851	T	T	98351851	2	4	16	1	0	0	0	0	0	0	0	1	17540	639	23	1		1	ZAP70	2	98351851	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	11996780	98351851	144847522	155	11830											
CNGA3	1261	broad.mit.edu	37	chr2	99008387	99008387	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggctggtcctggactactcGgcagatgtcctgtatgtctt	5	14	12	10	1	1	1	0	0	1	1	4	2	3	2	2	4	1	3	2	4	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:99008387G>A	uc002syt.2	+	7	1044	c.627G>A	c.(625-627)TCG>TCA	p.S209S	CNGA3_uc002syu.2_Silent_p.S191S|CNGA3_uc010fij.2_Silent_p.S213S	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	209					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						TGGACTACTCGGCAGATGTCC	0.597													12	37					0	0	1	0	0		A	99008387	A	A	99008387	2	1	16	1	0	0	0	0	0	0	0	1	3601	1103	39	1		1	CNGA3	2	99008387	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	656536	99008387	144190986	156	11831											
LIPT1	51601	broad.mit.edu	37	chr2	99779031	99779031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaagggatcaggagcaatgCcactgctagcataccttcct	11	8	9	13	0	1	0	1	0	0	0	2	2	2	2	4	2	5	3	4	2	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:99779031C>T	uc002szm.3	+	4	951	c.611C>T	c.(610-612)GCC>GTC	p.A204V	MRPL30_uc002szl.1_Intron|LIPT1_uc002szn.3_Missense_Mutation_p.A204V|LIPT1_uc002szo.3_Missense_Mutation_p.A204V|LIPT1_uc002szp.3_Missense_Mutation_p.A204V|LIPT1_uc002szq.3_Missense_Mutation_p.A204V|MRPL30_uc002szr.2_Intron	NM_145198	NP_660199	Q9Y234	LIPT_HUMAN	lipoyltransferase 1 precursor	204					lipid metabolic process|protein lipoylation	mitochondrion	acyltransferase activity				0					Lipoic Acid(DB00166)	AGGAGCAATGCCACTGCTAGC	0.438													33	57					0	0	1	0	0		T	99779031	T	T	99779031	3	4	16	1	0	0	0	0	1	0	0	0	8846	739	26	2	613	2	LIPT1	2	99779031	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	770644	99779031	143420342	157	11832											
EIF5B	9669	broad.mit.edu	37	chr2	100013282	100013282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagtacatttttaattctcGagatccgatagtgatggggg	10	14	11	6	2	2	2	1	1	1	1	4	4	3	2	1	2	1	1	1	2	3	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:100013282G>A	uc002tab.2	+	22	3498	c.3314G>A	c.(3313-3315)CGA>CAA	p.R1105Q	EIF5B_uc010yvq.1_Missense_Mutation_p.R87Q	NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	1105					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						TTTAATTCTCGAGATCCGATA	0.413													19	55					0	0	1	0	0		A	100013282	A	A	100013282	3	1	16	1	0	0	0	0	1	0	0	0	5052	1058	37	1	3400	1	EIF5B	2	100013282	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	234251	100013282	143186091	158	11833											
PDCL3	79031	broad.mit.edu	37	chr2	101188062	101188062	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttttatagaattcccctcTgtgccctgataaatcagcac	10	14	6	11	0	2	2	1	1	1	1	3	2	3	2	3	0	2	2	3	0	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:101188062T>C	uc002tao.2	+	5	491	c.379T>C	c.(379-381)TGT>CGT	p.C127R		NM_024065	NP_076970	Q9H2J4	PDCL3_HUMAN	phosducin-like 3	127					apoptosis|interspecies interaction between organisms	cytoplasm	protein binding				0						AATTCCCCTCTGTGCCCTGAT	0.388													20	71					0	0	1	0	0		C	101188062	C	C	101188062	3	2	16	1	0	0	0	0	1	0	0	0	11647	1580	55	3	397	3	PDCL3	2	101188062	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1174780	101188062	142011311	159	11834											
MERTK	10461	broad.mit.edu	37	chr2	112704982	112704982	+	Frame_Shift_Del	DEL	T	-	-																															tctccgcaggacttcctcacTttactaagcagcctgagagc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:112704982delT	uc002thk.1	+	4	717	c.595delT	c.(595-597)TTTfs	p.F199fs	MERTK_uc002thl.1_Frame_Shift_Del_p.F23fs	NM_006343	NP_006334	Q12866	MERTK_HUMAN	MER receptor tyrosine kinase precursor	199	Extracellular (Potential).|Ig-like C2-type 2.				cell surface receptor linked signaling pathway|cell-cell signaling|leukocyte migration	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|upper_aerodigestive_tract(1)|stomach(1)|kidney(1)	9						ACTTCCTCACTTTACTAAGCA	0.493													38	65	---	---	---	---						.	-	112704982	-	-	112704982	7	5	16	1	0	1	0	1	0	0	0	0	9497	1609	56	0	609	0	MERTK	2	112704982	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	11516920	112704982	130494391	160	11835											
STEAP3	55240	broad.mit.edu	37	chr2	120020821	120020821	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgcatcagccgcagactCgccaggatccggagaggctg	8	5	13	15	3	1	2	1	0	0	2	3	4	2	3	4	3	2	3	4	3	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:120020821C>T	uc002tlp.2	+	6	1531	c.1374C>T	c.(1372-1374)CTC>CTT	p.L458L	STEAP3_uc002tlq.2_Silent_p.L468L|STEAP3_uc002tlr.2_Silent_p.L458L|STEAP3_uc010fle.2_3'UTR	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	458	Cytoplasmic (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						GCCGCAGACTCGCCAGGATCC	0.632													15	20					0	0	1	0	0		T	120020821	T	T	120020821	2	4	16	1	0	0	0	0	0	0	0	1	15304	871	31	1		1	STEAP3	2	120020821	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7315839	120020821	123178552	161	11836											
INHBB	3625	broad.mit.edu	37	chr2	121107076	121107076	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtgcaggctcggctgggcGacagcaggcaccgcattcgc	6	6	16	13	4	0	0	0	0	0	0	2	1	0	0	1	5	2	6	1	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:121107076G>A	uc002tmn.2	+	2	896	c.850G>A	c.(850-852)GAC>AAC	p.D284N		NM_002193	NP_002184	P09529	INHBB_HUMAN	inhibin beta B subunit preproprotein	284					activin receptor signaling pathway|cellular response to insulin stimulus|cellular response to starvation|defense response|fat cell differentiation|growth|negative regulation of follicle-stimulating hormone secretion|negative regulation of hepatocyte growth factor biosynthetic process|negative regulation of insulin secretion|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation	extracellular region|perinuclear region of cytoplasm	cytokine activity|growth factor activity|hormone activity|host cell surface receptor binding|protein homodimerization activity			pancreas(2)|skin(1)	3		Prostate(154;0.122)				TCGGCTGGGCGACAGCAGGCA	0.647													12	20					0	0	1	0	0		A	121107076	A	A	121107076	3	1	16	1	0	0	0	0	1	0	0	0	7758	1058	37	1	856	1	INHBB	2	121107076	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1086255	121107076	122092297	162	11837											
IWS1	55677	broad.mit.edu	37	chr2	128281353	128281353	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgttcatcctgtactggggTagcaccaccatcatctgatt	8	12	8	13	1	3	1	2	1	1	0	4	1	4	1	4	2	2	4	4	2	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:128281353T>C	uc002ton.2	-	2	352	c.49A>G	c.(49-51)ACC>GCC	p.T17A	IWS1_uc010yzl.1_RNA|IWS1_uc010fma.2_Intron	NM_017969	NP_060439	Q96ST2	IWS1_HUMAN	IWS1 homolog	17					transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0735)		TGTACTGGGGTAGCACCACCA	0.418													5	140					0	0	1	0	0		C	128281353	C	C	128281353	3	2	16	1	0	0	0	0	1	0	0	0	7947	1638	57	3	2462	3	IWS1	2	128281353	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	7174277	128281353	114918020	163	11838											
FAM128B	80097	broad.mit.edu	37	chr2	130948157	130948157	+	Frame_Shift_Del	DEL	G	-	-																															agcgctaccaggctgcccaaGgggggcgggcctgggaagag																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:130948157delG	uc002tqu.2	+	3	588	c.435delG	c.(433-435)AAGfs	p.K145fs		NM_025029	NP_079305	Q6NZ67	MZT2B_HUMAN	hypothetical protein LOC80097	145						centrosome|gamma-tubulin ring complex|spindle	protein binding				0	Colorectal(110;0.1)					GGCTGCCCAAGGGGGGCGGGC	0.657													13	30	---	---	---	---						.	-	130948157	-	-	130948157	7	5	16	1	0	1	0	1	0	0	0	0	5446	991	35	0	445	0	FAM128B	2	130948157	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	2666804	130948157	112251216	164	11839											
TUBA3E	112714	broad.mit.edu	37	chr2	130951399	130951399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatccacaaactggatagtgCgcttggtcttgatggtggcg	9	11	13	8	2	1	1	0	1	1	0	2	2	2	2	1	4	2	1	1	4	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:130951399C>T	uc002tqv.2	-	4	1117	c.1016G>A	c.(1015-1017)CGC>CAC	p.R339H		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	339					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					CTGGATAGTGCGCTTGGTCTT	0.547													33	73					0	0	1	0	0		T	130951399	T	T	130951399	3	4	16	1	0	0	0	0	1	0	0	0	16774	768	27	1	344	1	TUBA3E	2	130951399	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3242	130951399	112247974	165	11840											
IMP4	92856	broad.mit.edu	37	chr2	131103825	131103825	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacgtggagctcactgaggtCgggccccgctttgagctgaa	8	8	14	11	3	1	3	1	3	0	0	2	4	1	4	2	3	3	3	2	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:131103825C>T	uc002tra.1	+	8	758	c.741C>T	c.(739-741)GTC>GTT	p.V247V		NM_033416	NP_219484	Q96G21	IMP4_HUMAN	IMP4, U3 small nucleolar ribonucleoprotein,	247	Brix.				rRNA processing|translation	nucleolus|ribonucleoprotein complex	aminoacyl-tRNA ligase activity|ATP binding|protein binding			central_nervous_system(2)	2	Colorectal(110;0.1)					TCACTGAGGTCGGGCCCCGCT	0.622													21	31					0	0	1	0	0		T	131103825	T	T	131103825	2	4	16	1	0	0	0	0	0	0	0	1	7736	871	31	1		1	IMP4	2	131103825	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	152426	131103825	112095548	166	11841											
LCT	3938	broad.mit.edu	37	chr2	136594278	136594279	+	Frame_Shift_Del	DEL	AT	-	-																															gagtggaaggcgaatgtggcAtagtcggcgaagaggtcagc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:136594278_136594279delAT	uc002tuu.1	-	1	472_473	c.461_462delAT	c.(460-462)TATfs	p.Y154fs		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	154	Extracellular (Potential).|4 X approximate repeats.|1.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CGAATGTGGCATAGTCGGCGAA	0.574													18	41	---	---	---	---						.	-	136594279	-	-	136594278	7	5	16	1	0	1	0	1	0	0	0	0	8709	224	8	0	5389	0	LCT	2	136594278	Frame_Shift_Del	DEL	AT	TCGA-BR-4292-01A-01D-1126-08	5490453	136594278	106605095	167	11842											
THSD7B	80731	broad.mit.edu	37	chr2	137852592	137852592	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttaggagcaggagccggaAcgtgaagcacatggctattg	12	8	14	7	2	0	1	0	1	0	0	0	4	0	4	1	4	4	3	1	4	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:137852592A>T	uc002tva.1	+	3	1007	c.1007A>T	c.(1006-1008)AAC>ATC	p.N336I	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Missense_Mutation_p.N226I	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AGGAGCCGGAACGTGAAGCAC	0.542													27	32					0	0	1	0	0		T	137852592	T	T	137852592	3	4	16	1	0	0	0	0	1	0	0	0	15905	43	2	5	1017	5	THSD7B	2	137852592	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1258314	137852592	105346781	168	11843											
SPOPL	339745	broad.mit.edu	37	chr2	139326628	139326628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacagtttggcattccacGcaaacggctaaaacagtcct	12	9	7	13	2	0	0	0	0	0	0	3	0	3	0	3	2	2	4	3	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:139326628G>A	uc002tvh.2	+	11	1557	c.1157G>A	c.(1156-1158)CGC>CAC	p.R386H		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	386						nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		GGCATTCCACGCAAACGGCTA	0.443													117	231					0	0	1	0	0		A	139326628	A	A	139326628	3	1	16	1	0	0	0	0	1	0	0	0	15110	1087	38	1	1195	1	SPOPL	2	139326628	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1474036	139326628	103872745	169	11844											
GTDC1	79712	broad.mit.edu	37	chr2	144710386	144710386	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttaggacaaagtgggtaAcacccacagtacacagcttc	13	9	8	11	0	1	0	0	0	1	0	2	1	1	1	1	2	3	3	1	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:144710386A>C	uc002tvp.2	-	10	1434	c.1155T>G	c.(1153-1155)TGT>TGG	p.C385W	GTDC1_uc002tvo.2_Missense_Mutation_p.V337G|GTDC1_uc002tvq.2_Missense_Mutation_p.C267W|GTDC1_uc002tvr.2_Missense_Mutation_p.C300W|GTDC1_uc010fnn.2_Missense_Mutation_p.C385W|GTDC1_uc002tvs.2_Missense_Mutation_p.C353W|GTDC1_uc010fno.2_Missense_Mutation_p.C256W	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	385					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		AAAGTGGGTAACACCCACAGT	0.333													40	74					0	0	1	0	0		C	144710386	C	C	144710386	3	2	16	1	0	0	0	0	1	0	0	0	6867	41	2	5	233	5	GTDC1	2	144710386	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	5383758	144710386	98488987	170	11845											
ACVR2A	92	broad.mit.edu	37	chr2	148674946	148674946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cattggtgcagaaaaacgagGcaccagtgttgatgtggatc	12	9	13	7	1	0	2	0	1	0	1	1	4	0	3	1	3	2	3	1	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:148674946G>A	uc002twg.2	+	7	1036	c.767G>A	c.(766-768)GGC>GAC	p.G256D	ACVR2A_uc010zbn.1_Missense_Mutation_p.G148D|ACVR2A_uc002twh.2_Missense_Mutation_p.G256D	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	256	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		GAAAAACGAGGCACCAGTGTT	0.403													18	35					0	0	1	0	0		A	148674946	A	A	148674946	3	1	16	1	0	0	0	0	1	0	0	0	223	1203	42	2	789	2	ACVR2A	2	148674946	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3964560	148674946	94524427	171	11846											
NEB	4703	broad.mit.edu	37	chr2	152521924	152521924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaagtgaacttcagcttctCggggtgctggcgatacttct	7	13	12	9	2	3	1	1	1	2	0	4	2	3	1	0	3	4	3	0	3	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:152521924C>T	uc010fnx.2	-	42	5352	c.5161G>A	c.(5161-5163)GAG>AAG	p.E1721K		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1721	Nebulin 44.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TTCAGCTTCTCGGGGTGCTGG	0.507													34	25					0	0	1	0	0		T	152521924	T	T	152521924	3	4	16	1	0	0	0	0	1	0	0	0	10321	893	31	1	21089	1	NEB	2	152521924	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3846978	152521924	90677449	172	11847											
FAP	2191	broad.mit.edu	37	chr2	163072486	163072486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtatcgataataaatatcCgaacaacgggattcttagct	14	12	8	7	3	1	0	0	0	1	0	3	3	2	1	1	2	3	2	1	2	8	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:163072486C>T	uc002ucd.2	-	10	996	c.788G>A	c.(787-789)CGG>CAG	p.R263Q	FAP_uc010zct.1_Missense_Mutation_p.R238Q|FAP_uc010fpd.2_Intron|FAP_uc010fpe.1_Missense_Mutation_p.R230Q	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	263	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						AATAAATATCCGAACAACGGG	0.403													36	16					0	0	1	0	0		T	163072486	T	T	163072486	3	4	16	1	0	0	0	0	1	0	0	0	5687	652	23	1	1562	1	FAP	2	163072486	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	10550562	163072486	80126887	173	11848											
LRP2	4036	broad.mit.edu	37	chr2	170099985	170099985	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacgataggtcaatacatcGatgattggggcaattaaact	16	10	9	6	2	1	1	1	1	0	0	2	3	1	1	0	3	3	1	0	3	7	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:170099985G>A	uc002ues.2	-	23	3691	c.3478C>T	c.(3478-3480)CGA>TGA	p.R1160*	LRP2_uc010zdf.1_Nonsense_Mutation_p.R1023*	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1160	LDL-receptor class A 11.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TCAATACATCGATGATTGGGG	0.398													4	116					0	0	1	0	0		A	170099985	A	A	170099985	4	1	16	1	0	0	0	0	0	1	0	0	8974	1066	37	1	10717	1	LRP2	2	170099985	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	7027499	170099985	73099388	174	11849											
METTL8	79828	broad.mit.edu	37	chr2	172188335	172188335	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacgagctccacagctccAgaagcaaaatcacaacaata	17	7	5	12	1	1	1	1	0	0	1	3	2	3	1	2	0	5	3	2	0	7	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:172188335A>G	uc010zdo.1	-	6	840	c.699T>C	c.(697-699)TCT>TCC	p.S233S	METTL8_uc002ugu.3_Silent_p.S233S|METTL8_uc002ugv.3_Silent_p.S233S|METTL8_uc002ugt.3_Silent_p.S233S|METTL8_uc002ugs.3_Silent_p.S183S|METTL8_uc010zdp.1_Silent_p.S188S	NM_024770	NP_079046	B3KW44	B3KW44_HUMAN	methyltransferase like 8	233							methyltransferase activity			ovary(1)	1						CCACAGCTCCAGAAGCAAAAT	0.323													7	15					0	0	1	0	0		G	172188335	G	G	172188335	2	3	16	1	0	0	0	0	0	0	0	1	9525	175	7	3		3	METTL8	2	172188335	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	2088350	172188335	71011038	175	11850											
HOXD4	3233	broad.mit.edu	37	chr2	177017383	177017383	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagcggtcccgaacggccTacacccggcagcaagtccta	10	4	10	17	4	0	0	0	0	0	0	2	1	2	0	5	3	4	2	5	3	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:177017383T>C	uc002uks.2	+	2	730	c.481T>C	c.(481-483)TAC>CAC	p.Y161H		NM_014621	NP_055436	P09016	HXD4_HUMAN	homeobox D4	161	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00765)|Epithelial(96;0.105)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		CCGAACGGCCTACACCCGGCA	0.552													24	20					0	0	1	0	0		C	177017383	C	C	177017383	3	2	16	1	0	0	0	0	1	0	0	0	7340	1522	53	3	487	3	HOXD4	2	177017383	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	4829048	177017383	66181990	176	11851											
TTN	7273	broad.mit.edu	37	chr2	179397385	179397385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagatgtccccaagagaacGtcttctaggtcggtagtaaa	13	9	11	8	2	2	2	0	0	2	2	4	4	3	2	2	2	1	2	2	2	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:179397385G>A	uc010zfg.1	-	307	96477	c.96253C>T	c.(96253-96255)CGT>TGT	p.R32085C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R25780C|TTN_uc010zfi.1_Missense_Mutation_p.R25713C|TTN_uc010zfj.1_Missense_Mutation_p.R25588C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33012							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCAAGAGAACGTCTTCTAGGT	0.463													20	62					0	0	1	0	0		A	179397385	A	A	179397385	3	1	16	1	0	0	0	0	1	0	0	0	16761	1145	40	1	4042	1	TTN	2	179397385	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2380002	179397385	63801988	177	11852											
TTN	7273	broad.mit.edu	37	chr2	179403334	179403334	+	Frame_Shift_Del	DEL	A	-	-																															agcccagtctcattctcagcAaaaaccctgaattcatactc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:179403334delA	uc010zfg.1	-	303	91742	c.91518delT	c.(91516-91518)TTTfs	p.F30506fs	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Frame_Shift_Del_p.F24201fs|TTN_uc010zfi.1_Frame_Shift_Del_p.F24134fs|TTN_uc010zfj.1_Frame_Shift_Del_p.F24009fs	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31433							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATTCTCAGCAAAAACCCTGA	0.418													75	43	---	---	---	---						.	-	179403334	-	-	179403334	7	5	16	1	0	1	0	1	0	0	0	0	16761	127	5	0	8793	0	TTN	2	179403334	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	5949	179403334	63796039	178	11853											
TTN	7273	broad.mit.edu	37	chr2	179435651	179435651	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgatcttcaactaggcCagttacttcaaaatgagtgt	11	14	8	8	0	4	2	2	2	2	0	4	2	4	2	1	1	2	1	1	1	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:179435651C>A	uc010zfg.1	-	275	67728	c.67504G>T	c.(67504-67506)GGC>TGC	p.G22502C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G16197C|TTN_uc010zfi.1_Missense_Mutation_p.G16130C|TTN_uc010zfj.1_Missense_Mutation_p.G16005C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23429							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCAACTAGGCCAGTTACTTCA	0.418													9	151					0.000673444	0.00068376	1	1	0		A	179435651	A	A	179435651	3	1	16	1	0	0	0	0	1	0	0	0	16761	594	21	5	32919	5	TTN	2	179435651	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	32317	179435651	63763722	179	11854											
TTN	7273	broad.mit.edu	37	chr2	179499546	179499546	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtgcaaagttaagaagcGttttccaccttctgctttga	9	16	8	8	1	1	2	0	1	1	1	2	2	2	2	2	0	3	4	2	0	3	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:179499546G>A	uc010zfg.1	-	178	34575	c.34351C>T	c.(34351-34353)CGC>TGC	p.R11451C	TTN_uc010zfh.1_Missense_Mutation_p.R5146C|TTN_uc010zfi.1_Missense_Mutation_p.R5079C|TTN_uc010zfj.1_Missense_Mutation_p.R4954C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12378							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTTAAGAAGCGTTTTCCACCT	0.373													58	40					0	0	1	0	0		A	179499546	A	A	179499546	3	1	16	1	0	0	0	0	1	0	0	0	16761	1145	40	1	66174	1	TTN	2	179499546	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	63895	179499546	63699827	180	11855											
TTN	7273	broad.mit.edu	37	chr2	179535860	179535860	+	Frame_Shift_Del	DEL	T	-	-																															ggaacaactttagtgggcggTttttttggagggatgatttt																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:179535860delT	uc010zfg.1	-	151	31586	c.31362delA	c.(31360-31362)AAAfs	p.K10454fs	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Frame_Shift_Del_p.K7115fs|TTN_uc010fre.1_Intron|TTN_uc010zfk.1_5'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11381							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAGTGGGCGGTTTTTTTGGAG	0.368													15	23	---	---	---	---						.	-	179535860	-	-	179535860	7	5	16	1	0	1	0	1	0	0	0	0	16761	1722	60	0	69271	0	TTN	2	179535860	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	36314	179535860	63663513	181	11856											
NCKAP1	10787	broad.mit.edu	37	chr2	183867725	183867725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaaagaagacttggcaaaCgtcaatagtattcagcaatt	17	10	7	7	1	3	2	3	0	0	2	3	2	3	2	0	1	2	3	0	1	7	5	rs142669044	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:183867725C>T	uc002upc.2	-	4	748	c.346G>A	c.(346-348)GTT>ATT	p.V116I	NCKAP1_uc002upb.2_Missense_Mutation_p.V122I	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	116					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			ACTTGGCAAACGTCAATAGTA	0.313													24	10					0	0	1	0	0		T	183867725	T	T	183867725	3	4	16	1	0	0	0	0	1	0	0	0	10240	536	19	1	3152	1	NCKAP1	2	183867725	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4331865	183867725	59331648	182	11857											
ZSWIM2	151112	broad.mit.edu	37	chr2	187698688	187698688	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtacctcacgaaatgtaaaCgtgtgggaaagatggcagca	14	8	12	7	2	1	1	1	0	0	1	1	3	1	2	1	2	3	4	1	2	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:187698688C>T	uc002upu.1	-	6	853	c.813G>A	c.(811-813)ACG>ACA	p.T271T		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	271	ZZ-type.				apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			GAAATGTAAACGTGTGGGAAA	0.363													21	51					0	0	1	0	0		T	187698688	T	T	187698688	2	4	16	1	0	0	0	0	0	0	0	1	18266	523	19	1		1	ZSWIM2	2	187698688	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3830963	187698688	55500685	183	11858											
MFSD6	54842	broad.mit.edu	37	chr2	191301046	191301046	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtattacaaacagctgggAatgtctccaagccagagtgg	12	9	12	8	0	1	1	0	0	1	1	2	2	1	2	2	2	4	2	2	2	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:191301046A>G	uc002urz.2	+	3	615	c.291A>G	c.(289-291)GGA>GGG	p.G97G		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	97					transmembrane transport	integral to membrane				ovary(2)	2						AACAGCTGGGAATGTCTCCAA	0.413													73	45					0	0	1	0	0		G	191301046	G	G	191301046	2	3	16	1	0	0	0	0	0	0	0	1	9553	233	9	3		3	MFSD6	2	191301046	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	3602358	191301046	51898327	184	11859											
STAT1	6772	broad.mit.edu	37	chr2	191850352	191850352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagggactctcacctcattcGttctggtgccagcatttttc	7	14	8	12	1	3	0	2	0	2	0	6	1	3	1	2	2	2	2	2	2	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:191850352G>A	uc002usj.2	-	15	1644	c.1256C>T	c.(1255-1257)ACG>ATG	p.T419M	STAT1_uc010fse.1_Missense_Mutation_p.T419M|STAT1_uc002usk.2_Missense_Mutation_p.T419M|STAT1_uc002usl.2_Missense_Mutation_p.T421M|STAT1_uc010fsf.1_Missense_Mutation_p.T231M	NM_007315	NP_009330	P42224	STAT1_HUMAN	signal transducer and activator of transcription	419					activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)	CACCTCATTCGTTCTGGTGCC	0.433													43	26					0	0	1	0	0		A	191850352	A	A	191850352	3	1	16	1	0	0	0	0	1	0	0	0	15289	1145	40	1	1044	1	STAT1	2	191850352	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	549306	191850352	51349021	185	11860											
PLCL1	5334	broad.mit.edu	37	chr2	198950564	198950564	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtacagcaaaacagtgatAatcctatttttgatgaaact	15	13	6	7	0	0	3	0	3	0	0	1	3	1	3	1	0	4	2	1	0	6	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:198950564A>G	uc010fsp.2	+	2	2614	c.2323A>G	c.(2323-2325)AAT>GAT	p.N775D	PLCL1_uc002uuv.3_Missense_Mutation_p.N696D	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	775	C2.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	AAACAGTGATAATCCTATTTT	0.398													24	74					0	0	1	0	0		G	198950564	G	G	198950564	3	3	16	1	0	0	0	0	1	0	0	0	12058	362	13	3	2329	3	PLCL1	2	198950564	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	7100212	198950564	44248809	186	11861											
PLCL1	5334	broad.mit.edu	37	chr2	198950794	198950794	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcaataactaatcgaagTggaggaggaaaggcacagaa	19	5	12	5	1	0	1	0	0	0	1	1	5	0	4	0	4	2	2	0	4	7	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:198950794T>C	uc010fsp.2	+	2	2844	c.2553T>C	c.(2551-2553)AGT>AGC	p.S851S	PLCL1_uc002uuv.3_Silent_p.S772S	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	851					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	CTAATCGAAGTGGAGGAGGAA	0.463													16	43					0	0	1	0	0		C	198950794	C	C	198950794	2	2	16	1	0	0	0	0	0	0	0	1	12058	1693	59	3		3	PLCL1	2	198950794	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	230	198950794	44248579	187	11862											
PLCL1	5334	broad.mit.edu	37	chr2	199011601	199011601	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtggactgagtaaagcccCcagcagcagtgctgaggcca	10	6	13	12	0	0	2	0	2	0	0	0	3	0	3	3	2	4	4	3	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:199011601C>A	uc010fsp.2	+	6	3494	c.3203C>A	c.(3202-3204)CCC>CAC	p.P1068H	PLCL1_uc002uuv.3_Missense_Mutation_p.P989H	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	1068					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	AGTAAAGCCCCCAGCAGCAGT	0.517													42	23					6.5261e-18	7.06781e-18	1	1	0		A	199011601	A	A	199011601	3	1	16	1	0	0	0	0	1	0	0	0	12058	623	22	5	3225	5	PLCL1	2	199011601	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	60807	199011601	44187772	188	11863											
C2orf69	205327	broad.mit.edu	37	chr2	200790166	200790167	+	Frame_Shift_Ins	INS	-	A	A																															agaaaaagtgaggacctgtgINSaaaaatctgatgagtctgcc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:200790166_200790167insA	uc010zhb.1	+	2	898_899	c.715_716insA	c.(715-717)GAAfs	p.E239fs		NM_153689	NP_710156	Q8N8R5	CB069_HUMAN	hypothetical protein LOC205327 precursor	239						extracellular region				central_nervous_system(1)	1						GAGGACCTGTGAAAAATCTGAT	0.386													38	77	---	---	---	---						.	A	200790167	A	A	200790166	7	5	16	1	0	1	1	0	0	0	0	0	2191	1291	45	0	721	0	C2orf69	2	200790166	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	1778565	200790166	42409207	189	11864											
ALS2	57679	broad.mit.edu	37	chr2	202625614	202625614	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaggtacctgagatggcActggcttttcaccatgctct	8	11	11	11	0	2	1	1	1	1	1	2	3	2	1	2	3	3	5	2	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:202625614A>G	uc002uyo.2	-	4	1459	c.1103T>C	c.(1102-1104)GTG>GCG	p.V368A	ALS2_uc002uyp.3_Missense_Mutation_p.V368A|ALS2_uc002uyq.2_Missense_Mutation_p.V368A|ALS2_uc002uyr.2_Missense_Mutation_p.V368A	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	368					cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						CTGAGATGGCACTGGCTTTTC	0.398													22	42					0	0	1	0	0		G	202625614	G	G	202625614	3	3	16	1	0	0	0	0	1	0	0	0	550	159	6	3	4072	3	ALS2	2	202625614	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1835448	202625614	40573759	190	11865											
CREB1	1385	broad.mit.edu	37	chr2	208424959	208424959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caacaccataggtatctatgCcagcagctcatgcaacatca	14	8	6	13	0	3	0	2	0	1	0	3	0	3	0	2	1	6	4	2	1	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:208424959C>T	uc002vcc.2	+	3	375	c.124C>T	c.(124-126)CCA>TCA	p.P42S	CREB1_uc010ziz.1_Missense_Mutation_p.P40S|CREB1_uc002vcd.2_Missense_Mutation_p.P42S|CREB1_uc010zja.1_RNA	NM_134442	NP_604391	P16220	CREB1_HUMAN	cAMP responsive element binding protein 1	42					activation of phospholipase C activity|axon guidance|innate immune response|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein dimerization activity|transcription cofactor activity		EWSR1/CREB1(42)	soft_tissue(42)|breast(1)|central_nervous_system(1)	44				LUSC - Lung squamous cell carcinoma(261;0.0768)|Epithelial(149;0.127)|Lung(261;0.145)	Adenosine monophosphate(DB00131)|Bromocriptine(DB01200)|Naloxone(DB01183)	GGTATCTATGCCAGCAGCTCA	0.448			T	EWSR1	clear cell sarcoma|angiomatoid fibrous histiocytoma								30	47					0	0	1	0	0		T	208424959	T	T	208424959	3	4	16	1	0	0	0	0	1	0	0	0	3857	739	26	2	130	2	CREB1	2	208424959	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5799345	208424959	34774414	191	11866											
ERBB4	2066	broad.mit.edu	37	chr2	213403254	213403254	+	Frame_Shift_Del	DEL	T	-	-																															aagtcctgtcgccggcttcaTtttttggaagtctcagatcc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:213403254delT	uc002veg.1	-	1	99	c.1delA	c.(1-3)ATGfs	p.M1fs	ERBB4_uc002veh.1_Frame_Shift_Del_p.M1fs|ERBB4_uc010zji.1_Frame_Shift_Del_p.M1fs|ERBB4_uc010zjj.1_Frame_Shift_Del_p.M1fs|ERBB4_uc010fut.1_Frame_Shift_Del_p.M1fs	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1					cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		GCCGGCTTCATTTTTTGGAAG	0.537										TSP Lung(8;0.080)			22	39	---	---	---	---						.	-	213403254	-	-	213403254	7	5	16	1	0	1	0	1	0	0	0	0	5217	1493	52	0	4037	0	ERBB4	2	213403254	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	4978295	213403254	29796119	192	11867											
IKZF2	22807	broad.mit.edu	37	chr2	213872376	213872376	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaagctgggctttgtttcCtcttgggatttaaggcaggg	6	15	14	6	0	1	0	0	0	1	0	2	1	2	1	1	4	1	5	1	4	2	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:213872376C>A	uc002vem.2	-	8	1458	c.1289G>T	c.(1288-1290)AGG>ATG	p.R430M	IKZF2_uc010fuu.2_Missense_Mutation_p.R285M|IKZF2_uc002vej.2_Missense_Mutation_p.R377M|IKZF2_uc002vek.2_RNA|IKZF2_uc010fuv.2_Missense_Mutation_p.R356M|IKZF2_uc002vel.2_Missense_Mutation_p.R351M|IKZF2_uc010fuw.2_Missense_Mutation_p.R204M|IKZF2_uc010fux.2_Missense_Mutation_p.R204M|IKZF2_uc010fuy.2_Missense_Mutation_p.R358M|IKZF2_uc002ven.2_Missense_Mutation_p.R404M|IKZF2_uc002vei.2_Missense_Mutation_p.R208M	NM_016260	NP_057344	Q9UKS7	IKZF2_HUMAN	helios isoform 1	430					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		GCTTTGTTTCCTCTTGGGATT	0.502													59	109					5.10508e-28	5.59466e-28	1	1	0		A	213872376	A	A	213872376	3	1	16	1	0	0	0	0	1	0	0	0	7631	681	24	5	295	5	IKZF2	2	213872376	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	469122	213872376	29326997	193	11868											
SMARCAL1	50485	broad.mit.edu	37	chr2	217315720	217315720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggtgattgccccaggacGgatcaatgccaggaccagag	11	6	14	10	1	1	2	1	1	0	1	1	5	1	5	4	4	2	0	4	4	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:217315720G>A	uc002vgc.3	+	12	2333	c.2003G>A	c.(2002-2004)CGG>CAG	p.R668Q	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.R668Q|SMARCAL1_uc010fvg.2_Missense_Mutation_p.R646Q	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	668					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		GCCCCAGGACGGATCAATGCC	0.582									Schimke_Immuno-Osseous_Dysplasia				15	38					0	0	1	0	0		A	217315720	A	A	217315720	3	1	16	1	0	0	0	0	1	0	0	0	14798	1116	39	1	2041	1	SMARCAL1	2	217315720	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3443344	217315720	25883653	194	11869											
TNS1	7145	broad.mit.edu	37	chr2	218678471	218678471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatggccagcccgtacgCgcctcggaaggagtgactgt	7	8	13	13	4	1	1	1	1	0	0	2	3	1	3	3	3	2	1	3	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:218678471C>T	uc002vgt.2	-	26	4884	c.4486G>A	c.(4486-4488)GCG>ACG	p.A1496T	TNS1_uc002vgr.2_Missense_Mutation_p.A1483T|TNS1_uc002vgs.2_Missense_Mutation_p.A1475T|TNS1_uc002vgq.2_5'UTR	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1496	SH2.					cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		AGCCCGTACGCGCCTCGGAAG	0.592													35	15					0	0	1	0	0		T	218678471	T	T	218678471	3	4	16	1	0	0	0	0	1	0	0	0	16368	768	27	1	753	1	TNS1	2	218678471	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1362751	218678471	24520902	195	11870											
C2orf62	375307	broad.mit.edu	37	chr2	219229425	219229425	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtggagcagactgtccaCgcggaggagggcatccccat	9	6	14	12	3	0	1	0	0	0	1	3	4	2	4	3	4	1	2	3	4	0	0	rs142758364		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:219229425C>T	uc002vhr.2	+	7	734	c.705C>T	c.(703-705)CAC>CAT	p.H235H	C2orf62_uc002vhs.2_Intron	NM_198559	NP_940961	Q7Z7H3	CB062_HUMAN	hypothetical protein LOC375307	235											0		Renal(207;0.0915)		Epithelial(149;8.08e-07)|all cancers(144;0.000146)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGACTGTCCACGCGGAGGAGG	0.597													23	37					0	0	1	0	0		T	219229425	T	T	219229425	2	4	16	1	0	0	0	0	0	0	0	1	2184	535	19	1		1	C2orf62	2	219229425	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	550954	219229425	23969948	196	11871											
STK36	27148	broad.mit.edu	37	chr2	219561885	219561885	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggaaggggagctttcgCtatccagtccaccaagccct	10	7	10	14	1	0	0	0	0	0	0	3	2	2	2	4	3	2	2	4	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:219561885C>A	uc002viu.2	+	23	2976	c.2710C>A	c.(2710-2712)CTA>ATA	p.L904I	STK36_uc002viv.2_Missense_Mutation_p.L883I|STK36_uc002viw.2_Missense_Mutation_p.L82I|STK36_uc002vix.2_5'UTR	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	904					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		GGAGCTTTCGCTATCCAGTCC	0.522													76	19					6.14238e-36	6.74929e-36	1	1	0		A	219561885	A	A	219561885	3	1	16	1	0	0	0	0	1	0	0	0	15327	796	28	5	2796	5	STK36	2	219561885	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	332460	219561885	23637488	197	11872											
CCDC108	255101	broad.mit.edu	37	chr2	219893021	219893021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggtagagcgtcaggccccGggccaggtgtgtgcggtacc	5	6	19	11	3	1	1	1	0	0	1	1	1	1	1	4	6	3	2	4	6	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:219893021G>A	uc002vjl.1	-	12	1837	c.1753C>T	c.(1753-1755)CGG>TGG	p.R585W	CCDC108_uc010fwa.1_Missense_Mutation_p.R28W|CCDC108_uc010zkp.1_Missense_Mutation_p.R574W|CCDC108_uc010zkq.1_Missense_Mutation_p.R520W	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	585						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GTCAGGCCCCGGGCCAGGTGT	0.622													47	22					0	0	1	0	0		A	219893021	A	A	219893021	3	1	16	1	0	0	0	0	1	0	0	0	2746	1115	39	1	4120	1	CCDC108	2	219893021	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	331136	219893021	23306352	198	11873											
ACSL3	2181	broad.mit.edu	37	chr2	223791754	223791754	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctttgttttccggaaagttCgaagcttgctagggggaaat	9	13	13	6	2	0	0	0	0	0	0	2	3	1	2	1	3	2	5	1	3	4	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:223791754C>T	uc002vni.2	+	12	1763	c.1312C>T	c.(1312-1314)CGA>TGA	p.R438*	ACSL3_uc002vnj.2_Nonsense_Mutation_p.R438*	NM_004457	NP_004448	O95573	ACSL3_HUMAN	acyl-CoA synthetase long-chain family member 3	438	Cytoplasmic (Potential).				long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|fatty-acyl-CoA synthase activity|long-chain fatty acid-CoA ligase activity|protein binding			ovary(2)	2		Renal(207;0.0183)		Epithelial(121;1.28e-10)|all cancers(144;8.06e-08)|Lung(261;0.00834)|LUSC - Lung squamous cell carcinoma(224;0.00864)	Icosapent(DB00159)	CCGGAAAGTTCGAAGCTTGCT	0.303			T	ETV1	prostate								31	15					0	0	1	0	0		T	223791754	T	T	223791754	4	4	16	1	0	0	0	0	0	1	0	0	178	876	31	1	1346	1	ACSL3	2	223791754	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3898733	223791754	19407619	199	11874											
KIAA1486	57624	broad.mit.edu	37	chr2	226447629	226447629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacacctacggggcagcccCgggtggctcccggtcccgga	6	4	15	16	4	0	0	0	0	0	0	2	2	2	1	5	6	3	2	5	6	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:226447629C>T	uc002voe.2	+	4	1671	c.1496C>T	c.(1495-1497)CCG>CTG	p.P499L	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.P269L	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	499										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		GGGGCAGCCCCGGGTGGCTCC	0.687													11	4					0	0	1	0	0		T	226447629	T	T	226447629	3	4	16	1	0	0	0	0	1	0	0	0	8253	652	23	1	1506	1	KIAA1486	2	226447629	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2655875	226447629	16751744	200	11875											
ALPI	248	broad.mit.edu	37	chr2	233323610	233323610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcggcggtgcccctgtcGtccgagacccacggaggcga	6	4	16	15	6	0	1	0	0	0	1	2	4	1	2	4	5	1	0	4	5	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:233323610G>A	uc002vst.3	+	11	1418	c.1341G>A	c.(1339-1341)TCG>TCA	p.S447S	ALPI_uc002vsu.3_Silent_p.S358S	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	447					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		TGCCCCTGTCGTCCGAGACCC	0.692													6	3					0	0	1	0	0		A	233323610	A	A	233323610	2	1	16	1	0	0	0	0	0	0	0	1	543	1132	40	1		1	ALPI	2	233323610	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6875981	233323610	9875763	201	11876											
CHRND	1144	broad.mit.edu	37	chr2	233393281	233393281	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacggcttcgtgtactggCtgccacctgccatcttccgc	5	11	9	16	3	1	0	0	0	1	0	3	0	2	0	4	2	4	3	4	2	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:233393281C>T	uc002vsw.2	+	5	428	c.424C>T	c.(424-426)CTG>TTG	p.L142L	CHRND_uc010zmg.1_Silent_p.L127L|CHRND_uc010fyc.2_Silent_p.G51G|CHRND_uc010zmh.1_Silent_p.G51G	NM_000751	NP_000742	Q07001	ACHD_HUMAN	nicotinic acetylcholine receptor delta	142	Extracellular (Potential).				muscle contraction|musculoskeletal movement|neuromuscular process|skeletal muscle tissue growth|synaptic transmission	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)|breast(1)|skin(1)	3		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.89e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00078)|Lung(119;0.00579)|LUSC - Lung squamous cell carcinoma(224;0.00754)		CGTGTACTGGCTGCCACCTGC	0.562													56	14					0	0	1	0	0		T	233393281	T	T	233393281	2	4	16	1	0	0	0	0	0	0	0	1	3397	796	28	2		2	CHRND	2	233393281	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	69671	233393281	9806092	202	11877											
COL6A3	1293	broad.mit.edu	37	chr2	238233452	238233452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgatgactccgggtttggCgagcactgagcgtcgagaga	9	8	15	9	4	0	4	0	3	0	1	2	7	1	4	1	2	2	2	1	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:238233452C>T	uc002vwl.2	-	44	9784	c.9499G>A	c.(9499-9501)GCC>ACC	p.A3167T	COL6A3_uc002vwo.2_Missense_Mutation_p.A2961T|COL6A3_uc010znj.1_Missense_Mutation_p.A2560T|COL6A3_uc002vwj.2_Missense_Mutation_p.A548T	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	3167	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CCGGGTTTGGCGAGCACTGAG	0.537													29	9					0	0	1	0	0		T	238233452	T	T	238233452	3	4	16	1	0	0	0	0	1	0	0	0	3704	768	27	1	38	1	COL6A3	2	238233452	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4840171	238233452	4965921	203	11878											
COL6A3	1293	broad.mit.edu	37	chr2	238253700	238253700	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagaaaatcatgtacttaCggcatttatctttgatgctt	13	15	6	7	1	2	2	1	1	1	1	2	2	2	2	0	1	4	3	0	1	6	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:238253700C>T	uc002vwl.2	-	34	7447	c.7162_splice	c.e34+1	p.P2388_splice	COL6A3_uc002vwo.2_Splice_Site_p.P2182_splice|COL6A3_uc010znj.1_Splice_Site_p.P1781_splice|COL6A3_uc002vwj.2_5'Flank|COL6A3_uc002vwp.1_Splice_Site_p.P209_splice	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor						axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CATGTACTTACGGCATTTATC	0.343													26	11					0	0	1	0	0		T	238253700	T	T	238253700	5	4	16	1	0	0	0	0	0	0	1	0	3704	550	19	1	2414	1	COL6A3	2	238253700	Splice_Site	SNP	C	TCGA-BR-4292-01A-01D-1126-08	20248	238253700	4945673	204	11879											
COL6A3	1293	broad.mit.edu	37	chr2	238277739	238277739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatcctgctaacaaaatctCgaatatgtgcaaagccatct	15	10	5	11	1	2	0	0	0	2	0	4	1	3	0	2	0	4	2	2	0	7	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:238277739C>T	uc002vwl.2	-	10	4652	c.4367G>A	c.(4366-4368)CGA>CAA	p.R1456Q	COL6A3_uc002vwo.2_Missense_Mutation_p.R1250Q|COL6A3_uc010znj.1_Missense_Mutation_p.R849Q	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1456	VWFA 8.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AACAAAATCTCGAATATGTGC	0.458													36	13					0	0	1	0	0		T	238277739	T	T	238277739	3	4	16	1	0	0	0	0	1	0	0	0	3704	884	31	1	5306	1	COL6A3	2	238277739	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	24039	238277739	4921634	205	11880											
MYEOV2	150678	broad.mit.edu	37	chr2	241066179	241066179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacttggattggttcttcCgtaaactgtttcttaagcgt	7	16	9	9	2	2	0	0	0	2	0	3	1	3	1	2	2	2	3	2	2	3	7	rs140948790		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:241066179C>T	uc002vyu.1	-	5	560	c.560G>A	c.(559-561)CGG>CAG	p.R187Q		NM_138336	NP_612209	Q8WXC6	MYOV2_HUMAN	hypothetical protein LOC150678 isoform 1	Error:Variant_position_missing_in_Q8WXC6_after_alignment											0		all_epithelial(40;1.56e-11)|Breast(86;0.0002)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.81e-30)|all cancers(36;1.1e-27)|OV - Ovarian serous cystadenocarcinoma(60;2.74e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;8.54e-06)|Lung(119;0.00361)|LUSC - Lung squamous cell carcinoma(224;0.0153)|Colorectal(34;0.0202)|COAD - Colon adenocarcinoma(134;0.143)		TTGGTTCTTCCGTAAACTGTT	0.483													38	77					0	0	1	0	0		T	241066179	T	T	241066179	3	4	16	1	0	0	0	0	1	0	0	0	10044	652	23	1	202	1	MYEOV2	2	241066179	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2788440	241066179	2133194	206	11881											
ANKMY1	51281	broad.mit.edu	37	chr2	241492466	241492466	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcccggtaaaactgcccAtggtatgactgtgagatgga	10	10	13	8	1	0	2	0	2	0	1	1	4	1	3	2	4	2	2	2	4	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:241492466A>G	uc002vyz.1	-	3	307	c.78T>C	c.(76-78)CAT>CAC	p.H26H	ANKMY1_uc002vza.1_Silent_p.H115H|ANKMY1_uc010fzd.1_Silent_p.H115H|ANKMY1_uc002vzb.1_Silent_p.H115H|ANKMY1_uc002vzc.1_Silent_p.H115H|ANKMY1_uc002vzd.1_Silent_p.H115H|ANKMY1_uc010fze.1_Intron|ANKMY1_uc002vze.2_Silent_p.H17H|ANKMY1_uc002vzf.2_Silent_p.H17H	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	26	MORN 2.						zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		AAAACTGCCCATGGTATGACT	0.552													19	24					0	0	1	0	0		G	241492466	G	G	241492466	2	3	16	1	0	0	0	0	0	0	0	1	634	214	8	3		3	ANKMY1	2	241492466	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	426287	241492466	1706907	207	11882											
GPR35	2859	broad.mit.edu	37	chr2	241569453	241569453	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttctacgcctacttgggCgtcctgctggtgctaggcct	3	12	13	13	2	1	0	0	0	1	0	2	0	2	0	3	4	4	3	3	4	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:241569453C>T	uc002vzs.1	+	1	659	c.84C>T	c.(82-84)GGC>GGT	p.G28G	GPR35_uc010fzh.1_Silent_p.G59G|GPR35_uc010fzi.1_Silent_p.G59G	NM_005301	NP_005292	Q9HC97	GPR35_HUMAN	G protein-coupled receptor 35	28	Helical; Name=1; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(2)|pancreas(1)	3		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;5.29e-32)|all cancers(36;1.38e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.02e-06)|Lung(119;0.00163)|Colorectal(34;0.00463)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.031)		CCTACTTGGGCGTCCTGCTGG	0.627													30	15					0	0	1	0	0		T	241569453	T	T	241569453	2	4	16	1	0	0	0	0	0	0	0	1	6705	755	27	1		1	GPR35	2	241569453	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	76987	241569453	1629920	208	11883											
C2orf54	79919	broad.mit.edu	37	chr2	241831149	241831149	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaaggacaggtggagctgCtcctccctcaggctggccgc	7	6	14	14	1	1	0	1	0	0	0	3	2	3	2	3	5	3	4	3	5	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:241831149C>T	uc002wae.3	-	2	705	c.546G>A	c.(544-546)GAG>GAA	p.E182E	C2orf54_uc002wac.2_Silent_p.E14E|C2orf54_uc002wad.2_Silent_p.E33E	NM_001085437	NP_001078906	Q08AI8	CB054_HUMAN	hypothetical protein LOC79919 isoform 1	182											0		all_epithelial(40;3.99e-16)|Breast(86;2.35e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|Lung NSC(271;0.094)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;8.14e-32)|all cancers(36;4.77e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;4.88e-06)|Lung(119;0.000452)|LUSC - Lung squamous cell carcinoma(224;0.00415)|Colorectal(34;0.021)|COAD - Colon adenocarcinoma(134;0.15)		GGTGGAGCTGCTCCTCCCTCA	0.652													18	18					0	0	1	0	0		T	241831149	T	T	241831149	2	4	16	1	0	0	0	0	0	0	0	1	2178	796	28	2		2	C2orf54	2	241831149	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	261696	241831149	1368224	209	11884											
STK25	10494	broad.mit.edu	37	chr2	242439681	242439681	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaatgtatgtctcctccaGgggacctggtttaagctgga	8	11	13	9	0	1	0	0	0	1	0	3	2	2	2	3	5	1	4	3	5	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:242439681G>T	uc002wbm.2	-	4	605	c.334C>A	c.(334-336)CTG>ATG	p.L112M	STK25_uc002wbk.2_5'Flank|STK25_uc002wbl.2_5'Flank|STK25_uc002wbn.2_Missense_Mutation_p.L112M|STK25_uc002wbo.2_Missense_Mutation_p.L35M|STK25_uc010zos.1_Missense_Mutation_p.L18M|STK25_uc010zot.1_Missense_Mutation_p.L38M|STK25_uc002wbp.2_Missense_Mutation_p.L112M|STK25_uc010fzo.2_Missense_Mutation_p.L35M|STK25_uc010zou.1_Missense_Mutation_p.L18M|STK25_uc010zov.1_Missense_Mutation_p.L18M|STK25_uc010zow.1_Missense_Mutation_p.L112M	NM_006374	NP_006365	O00506	STK25_HUMAN	serine/threonine kinase 25	112	Protein kinase.				response to oxidative stress|signal transduction	Golgi apparatus	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity				0		all_cancers(19;2.09e-34)|all_epithelial(40;2.09e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Ovarian(221;0.069)|Lung NSC(271;0.0886)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.2)		Epithelial(32;8.24e-34)|all cancers(36;3.46e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.6e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.1e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0839)		GTCTCCTCCAGGGGACCTGGT	0.582													15	51					7.93312e-07	8.20036e-07	1	1	0		T	242439681	T	T	242439681	3	4	16	1	0	0	0	0	1	0	0	0	15319	991	35	5	978	5	STK25	2	242439681	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	608532	242439681	759692	210	11885											
C2orf85	285093	broad.mit.edu	37	chr2	242815105	242815105	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgccgagggccccatcacGgttagtgagggctgcatcac	9	7	13	12	2	2	1	2	1	0	0	2	2	2	1	3	3	2	3	3	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr2:242815105G>A	uc010fzu.1	+	2	1421	c.1398G>A	c.(1396-1398)ACG>ACA	p.T466T		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	466						integral to membrane				ovary(1)	1						GCCCCATCACGGTTAGTGAGG	0.612													19	14					0	0	1	0	0		A	242815105	A	A	242815105	2	1	16	1	0	0	0	0	0	0	0	1	2203	1103	39	1		1	C2orf85	2	242815105	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	375424	242815105	384268	211	11886											
GRM7	2917	broad.mit.edu	37	chr3	7503408	7503408	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagacgaacttcagctcaAtgtgagttctgcttgcttct	9	13	9	10	1	4	2	2	1	2	1	4	4	4	2	0	0	4	4	0	0	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:7503408A>T	uc003bqm.2	+	7	1788	c.1514A>T	c.(1513-1515)AAT>ATT	p.N505I	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.N505I|GRM7_uc003bql.2_Missense_Mutation_p.N505I|GRM7_uc003bqn.1_Missense_Mutation_p.N88I|GRM7_uc010hch.1_5'UTR	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	505	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	CTTCAGCTCAATGTGAGTTCT	0.443													10	96					0	0	1	0	0		T	7503408	T	T	7503408	3	4	16	1	0	0	0	0	1	0	0	0	6818	115	4	5	1540	5	GRM7	3	7503408	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08		7503408	190519022	212	11887											
RFTN1	23180	broad.mit.edu	37	chr3	16358730	16358730	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttcttctctggagaatcGccactgaaactagaaatcag	13	11	7	10	1	3	3	1	1	2	2	5	4	3	3	1	1	1	0	1	1	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:16358730G>A	uc003cay.2	-	10	1624	c.1342C>T	c.(1342-1344)CGA>TGA	p.R448*	RFTN1_uc010hes.2_Nonsense_Mutation_p.R412*|OXNAD1_uc003cax.2_Intron|OXNAD1_uc011awb.1_Intron	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	448						plasma membrane		p.R448*(1)		ovary(3)|central_nervous_system(1)	4						CTGGAGAATCGCCACTGAAAC	0.438													13	39					0	0	1	0	0		A	16358730	A	A	16358730	4	1	16	1	0	0	0	0	0	1	0	0	13283	1095	38	1	398	1	RFTN1	3	16358730	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	8855322	16358730	181663700	213	11888											
PLCL2	23228	broad.mit.edu	37	chr3	17051544	17051544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggatttggttgccaactccGcagatgttgcaaacatctgg	9	12	11	9	1	1	1	0	0	1	1	2	2	2	2	2	3	4	4	2	3	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:17051544G>A	uc011awc.1	+	5	787	c.682G>A	c.(682-684)GCA>ACA	p.A228T	PLCL2_uc010het.1_Missense_Mutation_p.A110T|PLCL2_uc011awd.1_Missense_Mutation_p.A110T	NM_001144382	NP_001137854	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2 isoform 1	236	PH.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(2)|ovary(1)|lung(1)	4						TGCCAACTCCGCAGATGTTGC	0.413													65	113					0	0	1	0	0		A	17051544	A	A	17051544	3	1	16	1	0	0	0	0	1	0	0	0	12059	1087	38	1	706	1	PLCL2	3	17051544	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	692814	17051544	180970886	214	11889											
RAB5A	5868	broad.mit.edu	37	chr3	20025266	20025266	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagaggaagaggagtagAccttaccgaacccacacaac	15	4	10	12	1	0	3	0	0	0	3	0	6	0	5	4	2	4	1	4	2	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:20025266A>G	uc003cbn.2	+	6	1134	c.599A>G	c.(598-600)GAC>GGC	p.D200G	RAB5A_uc010hey.2_RNA|RAB5A_uc011awg.1_Missense_Mutation_p.D186G|C3orf48_uc010hez.2_Intron	NM_004162	NP_004153	P20339	RAB5A_HUMAN	RAB5A, member RAS oncogene family	200					blood coagulation|protein transport|receptor internalization|regulation of filopodium assembly|small GTPase mediated signal transduction	early endosome membrane|melanosome|plasma membrane	GDP binding|GTP binding|GTPase activity				0						AGAGGAGTAGACCTTACCGAA	0.368													4	63					0	0	1	0	0		G	20025266	G	G	20025266	3	3	16	1	0	0	0	0	1	0	0	0	12973	275	10	3	617	3	RAB5A	3	20025266	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	2973722	20025266	177997164	215	11890											
KAT2B	8850	broad.mit.edu	37	chr3	20153198	20153198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcttcactgttatgaggcGacaactcctggaacaagcaa	12	9	10	10	1	2	1	1	1	1	0	3	3	3	2	1	3	3	2	1	3	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:20153198G>A	uc003cbq.2	+	6	1408	c.962G>A	c.(961-963)CGA>CAA	p.R321Q		NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	321					cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GTTATGAGGCGACAACTCCTG	0.463													34	72					0	0	1	0	0		A	20153198	A	A	20153198	3	1	16	1	0	0	0	0	1	0	0	0	7998	1058	37	1	984	1	KAT2B	3	20153198	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	127932	20153198	177869232	216	11891											
SGOL1	151648	broad.mit.edu	37	chr3	20225413	20225413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgcagctataaaagacctgCgtttgccaatctctgccaag	11	10	9	11	1	1	1	0	0	1	1	2	1	1	1	3	0	5	3	3	0	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:20225413C>T	uc003cbs.2	-	2	294	c.107G>A	c.(106-108)CGC>CAC	p.R36H	SGOL1_uc003cbr.2_Missense_Mutation_p.R36H|SGOL1_uc010hfa.2_Missense_Mutation_p.R36H|SGOL1_uc003cbt.2_Missense_Mutation_p.R36H|SGOL1_uc003cbu.2_Missense_Mutation_p.R36H|SGOL1_uc003cbv.2_Missense_Mutation_p.R36H|SGOL1_uc003cbw.2_Missense_Mutation_p.R36H|SGOL1_uc003cbx.2_Missense_Mutation_p.R36H|SGOL1_uc003cby.2_Missense_Mutation_p.R36H|SGOL1_uc003cbz.2_Missense_Mutation_p.R36H|SGOL1_uc003cca.2_Missense_Mutation_p.R36H|SGOL1_uc003ccb.2_Missense_Mutation_p.R36H|SGOL1_uc003ccc.2_Missense_Mutation_p.R36H	NM_001012410	NP_001012410	Q5FBB7	SGOL1_HUMAN	shugoshin-like 1 isoform A2	36	Potential.|Necessary for interaction with PPP2CA and PPP2R1A.				attachment of spindle microtubules to kinetochore|cell division|centriole-centriole cohesion|meiotic chromosome segregation|mitotic prometaphase	centrosome|condensed chromosome kinetochore|cytosol|mitotic cohesin complex|spindle pole	protein binding				0						AAAAGACCTGCGTTTGCCAAT	0.318													26	58					0	0	1	0	0		T	20225413	T	T	20225413	3	4	16	1	0	0	0	0	1	0	0	0	14241	768	27	1	1630	1	SGOL1	3	20225413	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	72215	20225413	177797017	217	11892											
TOP2B	7155	broad.mit.edu	37	chr3	25670433	25670433	+	Frame_Shift_Del	DEL	T	-	-																															agaaggaaagttcctgcttaTttttgcttgccttaaattaa																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:25670433delT	uc011awn.1	-	15	1854	c.1811delA	c.(1810-1812)AATfs	p.N604fs	TOP2B_uc003cdj.2_Frame_Shift_Del_p.N599fs	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	604					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						TTCCTGCTTATTTTTGCTTGC	0.279													14	14	---	---	---	---						.	-	25670433	-	-	25670433	7	5	16	1	0	1	0	1	0	0	0	0	16392	1493	52	0	3157	0	TOP2B	3	25670433	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	5445020	25670433	172351997	218	11893											
PDCD6IP	10015	broad.mit.edu	37	chr3	33877588	33877588	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgctatgatgaatatgttaAtgtgaaggatttttctgaca	12	16	9	4	1	1	4	0	4	1	0	2	5	1	5	0	1	0	2	0	1	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:33877588A>T	uc003cfx.2	+	8	1042	c.887A>T	c.(886-888)AAT>ATT	p.N296I	PDCD6IP_uc003cfy.2_Missense_Mutation_p.N301I|PDCD6IP_uc011axw.1_Missense_Mutation_p.N77I	NM_013374	NP_037506	Q8WUM4	PDC6I_HUMAN	programmed cell death 6 interacting protein	296	Interaction with EIAV p9.|Interaction with CHMP4A, CHMP4B and CHMP4C.|BRO1.				apoptosis|cell cycle|cell division|interspecies interaction between organisms|protein transport	cytosol|melanosome|microtubule organizing center	calcium-dependent protein binding			ovary(1)|skin(1)	2						GAATATGTTAATGTGAAGGAT	0.358													46	84					0	0	1	0	0		T	33877588	T	T	33877588	3	4	16	1	0	0	0	0	1	0	0	0	11643	101	4	5	932	5	PDCD6IP	3	33877588	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	8207155	33877588	164144842	219	11894											
LRRFIP2	9209	broad.mit.edu	37	chr3	37170567	37170567	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaattacctctttttgttgtCgttccagttctctcatgcgt	6	19	6	10	2	3	0	1	0	2	0	6	0	4	0	2	0	2	3	2	0	2	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:37170567C>T	uc003cgp.2	-	4	587	c.164G>A	c.(163-165)CGA>CAA	p.R55Q	LRRFIP2_uc011ayf.1_Missense_Mutation_p.R55Q|LRRFIP2_uc003cgr.2_Missense_Mutation_p.R55Q|LRRFIP2_uc003cgs.3_Missense_Mutation_p.R55Q|LRRFIP2_uc003cgt.3_Missense_Mutation_p.R55Q	NM_006309	NP_006300	Q9Y608	LRRF2_HUMAN	leucine rich repeat (in FLII) interacting	55	DVL3-binding.				Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1						TTTTTGTTGTCGTTCCAGTTC	0.428													29	56					0	0	1	0	0		T	37170567	T	T	37170567	3	4	16	1	0	0	0	0	1	0	0	0	9046	884	31	1	2105	1	LRRFIP2	3	37170567	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3292979	37170567	160851863	220	11895											
XYLB	9942	broad.mit.edu	37	chr3	38414150	38414150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtccccgtccctcagggagCcatttcttcctactacgtcc	5	12	7	17	2	2	0	1	0	1	0	6	1	6	1	6	1	3	0	6	1	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:38414150C>T	uc003cic.2	+	10	879	c.770C>T	c.(769-771)GCC>GTC	p.A257V	XYLB_uc011ayp.1_Missense_Mutation_p.A120V|XYLB_uc003cid.1_Missense_Mutation_p.A179V	NM_005108	NP_005099	O75191	XYLB_HUMAN	xylulokinase	257					D-xylose metabolic process|generation of precursor metabolites and energy|xylulose catabolic process		ATP binding|xylulokinase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.00372)|Kidney(284;0.00405)		CCTCAGGGAGCCATTTCTTCC	0.572													9	49					0	0	1	0	0		T	38414150	T	T	38414150	3	4	16	1	0	0	0	0	1	0	0	0	17488	739	26	2	808	2	XYLB	3	38414150	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1243583	38414150	159608280	221	11896											
RPSA	3921	broad.mit.edu	37	chr3	39453213	39453213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcgtggcaccatttcccGtgaacacccatgggaggtca	9	8	11	13	2	1	1	1	1	0	0	2	2	2	2	3	3	2	1	3	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:39453213G>A	uc003cjp.2	+	5	657	c.572G>A	c.(571-573)CGT>CAT	p.R191H	RPSA_uc003cjq.2_Missense_Mutation_p.R196H|RPSA_uc003cjr.2_Missense_Mutation_p.R191H|RPSA_uc003cjt.2_RNA	NM_002295	NP_002286	P08865	RSSA_HUMAN	ribosomal protein SA	191					cell adhesion|endocrine pancreas development|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosomal small subunit assembly|rRNA export from nucleus|translational elongation|translational termination|viral transcription	90S preribosome|cytosolic small ribosomal subunit|nucleus|plasma membrane	protein binding|receptor activity|ribosome binding|structural constituent of ribosome			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0509)|Kidney(284;0.064)		ACCATTTCCCGTGAACACCCA	0.498													4	37					0	0	1	0	0		A	39453213	A	A	39453213	3	1	16	1	0	0	0	0	1	0	0	0	13688	1145	40	1	586	1	RPSA	3	39453213	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1039063	39453213	158569217	222	11897											
ZNF167	55888	broad.mit.edu	37	chr3	44612793	44612793	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgggaaagcctttagtcagCgttccacttttaatcaccac	10	12	8	11	1	2	0	2	0	0	0	3	1	3	1	3	1	2	1	3	1	3	5	rs148767433		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:44612793C>T	uc010hin.2	+	6	2579	c.2191C>T	c.(2191-2193)CGT>TGT	p.R731C	ZNF167_uc003cni.2_Intron|ZNF167_uc010hio.2_Intron|ZNF167_uc003cnj.2_Missense_Mutation_p.R731C|ZNF167_uc003cnk.2_Intron	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	731	C2H2-type 13.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		CTTTAGTCAGCGTTCCACTTT	0.463													34	74					0	0	1	0	0		T	44612793	T	T	44612793	3	4	16	1	0	0	0	0	1	0	0	0	17766	768	27	1	2209	1	ZNF167	3	44612793	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5159580	44612793	153409637	223	11898											
PTH1R	5745	broad.mit.edu	37	chr3	46943318	46943318	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaagctgcgggagaccaaCgccggccggtgtgacacacg	10	3	14	14	5	0	2	0	1	0	1	0	3	0	2	4	3	3	1	4	3	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:46943318C>T	uc003cqm.2	+	13	1382	c.1179C>T	c.(1177-1179)AAC>AAT	p.N393N	PTH1R_uc003cqn.2_Silent_p.N393N	NM_000316	NP_000307	Q03431	PTH1R_HUMAN	parathyroid hormone receptor 1 precursor	393	Cytoplasmic (Potential).					cytoplasm|integral to plasma membrane|nucleus	parathyroid hormone receptor activity|peptide hormone binding|protein self-association			breast(1)	1						GGGAGACCAACGCCGGCCGGT	0.642									Ollier_disease_/_Maffuci_syndrome				5	16					0	0	1	0	0		T	46943318	T	T	46943318	2	4	16	1	0	0	0	0	0	0	0	1	12781	535	19	1		1	PTH1R	3	46943318	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2330525	46943318	151079112	224	11899											
NBEAL2	23218	broad.mit.edu	37	chr3	47050494	47050494	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagactgctcccggccgcGcctcccttgcccatgaaggt	5	8	10	18	3	0	2	0	1	0	1	3	2	3	2	6	2	2	1	6	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:47050494G>A	uc003cqp.2	+	53	8222	c.8043G>A	c.(8041-8043)GCG>GCA	p.A2681A	NRADDP_uc011bas.1_5'Flank|NBEAL2_uc010hjm.1_Silent_p.A2058A|NBEAL2_uc010hjn.1_Silent_p.A1047A|NBEAL2_uc010hjo.1_Silent_p.A241A	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	2681							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		TCCCGGCCGCGCCTCCCTTGC	0.622													7	8					0	0	1	0	0		A	47050494	A	A	47050494	2	1	16	1	0	0	0	0	0	0	0	1	10207	1074	38	1		1	NBEAL2	3	47050494	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	107176	47050494	150971936	225	11900											
KIF9	64147	broad.mit.edu	37	chr3	47315092	47315092	+	Frame_Shift_Del	DEL	C	-	-																															gtgcttgtaattctcagttgCccccatcatggtgtatgtct																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:47315092delC	uc010hjp.2	-	5	920	c.316delG	c.(316-318)GCAfs	p.A106fs	KIF9_uc003cqx.2_Frame_Shift_Del_p.A106fs|KIF9_uc003cqy.2_Frame_Shift_Del_p.A106fs|KIF9_uc011bat.1_Intron|KIF9_uc011bau.1_RNA	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	106	Kinesin-motor.				blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		TTCTCAGTTGCCCCCATCATG	0.557													22	47	---	---	---	---						.	-	47315092	-	-	47315092	7	5	16	1	0	1	0	1	0	0	0	0	8326	739	26	0	2128	0	KIF9	3	47315092	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	264598	47315092	150707338	226	11901											
ARIH2	10425	broad.mit.edu	37	chr3	49004710	49004710	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacggcgtgggcgtgggTgagtctgccacaaaacttat	10	8	15	8	3	1	1	0	1	1	0	1	2	1	2	1	4	2	0	1	4	4	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:49004710T>C	uc003cvb.2	+	6	850	c.538_splice	c.e6+2	p.G180_splice	ARIH2_uc003cvc.2_Splice_Site_p.G180_splice|ARIH2_uc003cvf.2_Splice_Site_p.G98_splice|ARIH2_uc010hkl.2_Splice_Site_p.G180_splice	NM_006321	NP_006312	O95376	ARI2_HUMAN	ariadne homolog 2						developmental cell growth|hemopoietic stem cell proliferation|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.42e-05)|Kidney(197;0.00258)|KIRC - Kidney renal clear cell carcinoma(197;0.00269)		TGGGCGTGGGTGAGTCTGCCA	0.488													21	33					0	0	1	0	0		C	49004710	C	C	49004710	5	2	16	1	0	0	0	0	0	0	1	0	924	1710	59	3	554	3	ARIH2	3	49004710	Splice_Site	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1689618	49004710	149017720	227	11902											
LAMB2	3913	broad.mit.edu	37	chr3	49159606	49159606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtcagaccttgcccgccGtgcatcctgcagtagctgct	5	9	13	14	2	1	1	1	0	0	1	2	1	2	1	4	2	5	5	4	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:49159606G>A	uc003cwe.2	-	28	5070	c.4771C>T	c.(4771-4773)CGG>TGG	p.R1591W	USP19_uc003cvz.3_5'Flank|USP19_uc011bcg.1_5'Flank|USP19_uc003cwb.2_5'Flank|USP19_uc003cwd.1_5'Flank|USP19_uc011bch.1_5'Flank|USP19_uc011bci.1_5'Flank	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1591	Potential.|Domain I.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CTTGCCCGCCGTGCATCCTGC	0.612													6	30					0	0	1	0	0		A	49159606	A	A	49159606	3	1	16	1	0	0	0	0	1	0	0	0	8627	1144	40	1	645	1	LAMB2	3	49159606	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	154896	49159606	148862824	228	11903											
AMIGO3	386724	broad.mit.edu	37	chr3	49756307	49756307	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagctcaggtacggagaTgtgtcccagccggttggagg	7	7	17	10	2	1	1	1	0	0	1	2	3	2	2	3	6	3	3	3	6	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:49756307T>C	uc003cxj.2	-	1	932	c.592A>G	c.(592-594)ATC>GTC	p.I198V	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	198	Extracellular (Potential).|LRR 6.				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GGTACGGAGATGTGTCCCAGC	0.627											OREG0015572	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	19					0	0	1	0	0		C	49756307	C	C	49756307	3	2	16	1	0	0	0	0	1	0	0	0	577	1464	51	3	926	3	AMIGO3	3	49756307	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	596701	49756307	148266123	229	11904											
CAMKV	79012	broad.mit.edu	37	chr3	49897038	49897038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctggagtgatgcttccatCggtggctggggtgacactgc	5	10	17	9	1	0	2	0	2	0	0	2	3	1	3	1	6	2	3	1	6	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:49897038C>T	uc003cxt.1	-	11	1412	c.1219G>A	c.(1219-1221)GAT>AAT	p.D407N	CAMKV_uc011bcy.1_Missense_Mutation_p.D332N|CAMKV_uc003cxv.1_Missense_Mutation_p.D379N|CAMKV_uc003cxw.1_Missense_Mutation_p.D239N|CAMKV_uc003cxx.1_Missense_Mutation_p.D239N|CAMKV_uc003cxu.2_Missense_Mutation_p.D376N|CAMKV_uc011bcz.1_Missense_Mutation_p.D339N|CAMKV_uc011bda.1_Missense_Mutation_p.D333N	NM_024046	NP_076951	Q8NCB2	CAMKV_HUMAN	CaM kinase-like vesicle-associated	407	Ala-rich.					cytoplasmic vesicle membrane|plasma membrane	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|large_intestine(2)|central_nervous_system(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		ATGCTTCCATCGGTGGCTGGG	0.607													28	57					0	0	1	0	0		T	49897038	T	T	49897038	3	4	16	1	0	0	0	0	1	0	0	0	2611	884	31	1	290	1	CAMKV	3	49897038	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	140731	49897038	148125392	230	11905											
RBM6	10180	broad.mit.edu	37	chr3	50099537	50099537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaaagacagaggagtgaCgagggtaagaggaattgtta	18	6	15	2	1	0	4	0	1	0	3	0	8	0	6	0	3	0	2	0	3	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:50099537C>T	uc003cyc.2	+	15	2715	c.2582C>T	c.(2581-2583)ACG>ATG	p.T861M	RBM6_uc010hlc.1_Missense_Mutation_p.T380M|RBM6_uc003cyd.2_Missense_Mutation_p.T339M|RBM6_uc003cye.2_Missense_Mutation_p.T339M|RBM6_uc011bdi.1_Missense_Mutation_p.T203M|RBM6_uc010hld.1_RNA|RBM6_uc010hle.1_RNA|RBM6_uc010hlf.1_RNA	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	861					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		AGAGGAGTGACGAGGGTAAGA	0.378													26	66					0	0	1	0	0		T	50099537	T	T	50099537	3	4	16	1	0	0	0	0	1	0	0	0	13169	536	19	1	2636	1	RBM6	3	50099537	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	202499	50099537	147922893	231	11906											
SEMA3F	6405	broad.mit.edu	37	chr3	50211341	50211341	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacgtgggcagcaaggactaCgtgctgtccctggacctgca	8	8	13	12	2	0	0	0	0	0	0	1	2	1	2	2	3	5	4	2	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:50211341C>T	uc003cyj.2	+	3	426	c.228C>T	c.(226-228)TAC>TAT	p.Y76Y	SEMA3F_uc003cyk.2_Silent_p.Y76Y	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	76	Sema.				axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		GCAAGGACTACGTGCTGTCCC	0.617													22	32					0	0	1	0	0		T	50211341	T	T	50211341	2	4	16	1	0	0	0	0	0	0	0	1	14054	547	19	1		1	SEMA3F	3	50211341	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	111804	50211341	147811089	232	11907											
RASSF1	11186	broad.mit.edu	37	chr3	50369011	50369011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggccgtgacgctcagcgcGctcaaagagtgcaaacttgc	9	8	12	12	4	2	2	2	1	0	1	2	2	2	2	1	1	4	3	1	1	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:50369011G>A	uc003dad.1	-	4	882	c.751C>T	c.(751-753)CGC>TGC	p.R251C	RASSF1_uc003daa.1_Missense_Mutation_p.R96C|RASSF1_uc003dab.1_Missense_Mutation_p.R177C|RASSF1_uc003dac.2_Missense_Mutation_p.R96C|RASSF1_uc003dae.1_Missense_Mutation_p.R247C|RASSF1_uc010hlk.1_RNA|RASSF1_uc003daf.1_Missense_Mutation_p.R96C	NM_170714	NP_733832	Q9NS23	RASF1_HUMAN	Ras association domain family 1 isoform D	251	Ras-associating.				cell cycle arrest|negative regulation of cell cycle arrest|positive regulation of protein ubiquitination|protein stabilization|Ras protein signal transduction|response to DNA damage stimulus	microtubule|microtubule cytoskeleton|microtubule organizing center|nucleus|spindle pole	identical protein binding|protein binding|protein N-terminus binding|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000278)|OV - Ovarian serous cystadenocarcinoma(275;0.0015)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		CGCTCAGCGCGCTCAAAGAGT	0.607													26	50					0	0	1	0	0		A	50369011	A	A	50369011	3	1	16	1	0	0	0	0	1	0	0	0	13109	1087	38	1	295	1	RASSF1	3	50369011	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	157670	50369011	147653419	233	11908											
GRM2	2912	broad.mit.edu	37	chr3	51746928	51746928	+	Frame_Shift_Del	DEL	G	-	-																															ctgggtggccagtgatggttGgggggccctggagagtgtgg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:51746928delG	uc010hlv.2	+	3	1129	c.890delG	c.(889-891)TGGfs	p.W297fs	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	297	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	AGTGATGGTTGGGGGGCCCTG	0.642													24	30	---	---	---	---						.	-	51746928	-	-	51746928	7	5	16	1	0	1	0	1	0	0	0	0	6813	1357	47	0	896	0	GRM2	3	51746928	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	1377917	51746928	146275502	234	11909											
NISCH	11188	broad.mit.edu	37	chr3	52522196	52522196	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcggcgctcctgctgcgcGccctctgaggccgtcaagtc	3	8	14	16	5	2	1	1	1	1	0	4	1	3	1	3	2	3	2	3	2	1	0	rs113789685		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:52522196G>A	uc011beg.1	+	17	2760	c.2688G>A	c.(2686-2688)GCG>GCA	p.A896A	NISCH_uc003ded.3_Silent_p.A896A|NISCH_uc003dee.3_Silent_p.A385A|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_5'Flank	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	896					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		CCTGCTGCGCGCCCTCTGAGG	0.657													10	16					0	0	1	0	0		A	52522196	A	A	52522196	2	1	16	1	0	0	0	0	0	0	0	1	10451	1074	38	1		1	NISCH	3	52522196	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	775268	52522196	145500234	235	11910											
STAB1	23166	broad.mit.edu	37	chr3	52557277	52557277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgccacccagcggggtctcGacttcctggacttcctggat	6	10	11	14	2	1	0	0	0	1	0	4	3	3	2	4	4	2	0	4	4	0	2	rs137992546		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:52557277G>A	uc003dej.2	+	64	7134	c.7060G>A	c.(7060-7062)GAC>AAC	p.D2354N	STAB1_uc003dek.1_Missense_Mutation_p.D369N|STAB1_uc003del.2_Missense_Mutation_p.D241N	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2354	Extracellular (Potential).|FAS1 7.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		GCGGGGTCTCGACTTCCTGGA	0.567													22	69					0	0	1	0	0		A	52557277	A	A	52557277	3	1	16	1	0	0	0	0	1	0	0	0	15262	1058	37	1	7314	1	STAB1	3	52557277	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	35081	52557277	145465153	236	11911											
PBRM1	55193	broad.mit.edu	37	chr3	52595936	52595936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccactcatgttgattttccGtttggagccttccttctttg	4	18	8	11	1	2	1	1	1	1	0	4	2	4	2	4	1	1	2	4	1	0	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:52595936G>A	uc003des.2	-	25	4147	c.4135C>T	c.(4135-4137)CGG>TGG	p.R1379W	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.R1379W|PBRM1_uc003der.2_Missense_Mutation_p.R1347W|PBRM1_uc003det.2_Missense_Mutation_p.R1394W|PBRM1_uc003deu.2_Missense_Mutation_p.R1394W|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.R1379W|PBRM1_uc010hmk.1_Missense_Mutation_p.R1354W|PBRM1_uc003dey.2_Missense_Mutation_p.R1327W|PBRM1_uc003dez.1_Missense_Mutation_p.R1378W	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	1379	HMG box.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TTGATTTTCCGTTTGGAGCCT	0.478			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								6	69					0	0	1	0	0		A	52595936	A	A	52595936	3	1	16	1	0	0	0	0	1	0	0	0	11510	1144	40	1	789	1	PBRM1	3	52595936	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	38659	52595936	145426494	237	11912											
SFMBT1	51460	broad.mit.edu	37	chr3	52941285	52941285	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgccttcacttagggaatCatcatccccttcatctgggt	8	13	7	13	0	5	0	4	0	1	0	6	1	6	1	3	2	1	0	3	2	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:52941285C>A	uc003dgf.2	-	20	2700	c.2131G>T	c.(2131-2133)GAT>TAT	p.D711Y	SFMBT1_uc010hmr.2_Missense_Mutation_p.D658Y|SFMBT1_uc003dgg.2_Missense_Mutation_p.D711Y|SFMBT1_uc003dgh.2_Missense_Mutation_p.D711Y	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	711					regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		CTTAGGGAATCATCATCCCCT	0.473													21	65					2.39187e-15	2.57694e-15	1	1	0		A	52941285	A	A	52941285	3	1	16	1	0	0	0	0	1	0	0	0	14182	826	29	5	481	5	SFMBT1	3	52941285	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	345349	52941285	145081145	238	11913											
CADPS	8618	broad.mit.edu	37	chr3	62477973	62477973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtaatacatacagtcagtaCggagaaaatcattcagcagc	16	8	9	8	1	3	1	3	0	0	1	3	2	3	1	0	2	5	3	0	2	6	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:62477973C>T	uc003dll.2	-	20	3236	c.2876G>A	c.(2875-2877)CGT>CAT	p.R959H	CADPS_uc003dlk.1_Missense_Mutation_p.R456H|CADPS_uc003dlm.2_Missense_Mutation_p.R969H|CADPS_uc003dln.2_Missense_Mutation_p.R929H	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	959	MHD1.|Interaction with DRD2.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		ACAGTCAGTACGGAGAAAATC	0.428													87	166					0	0	1	0	0		T	62477973	T	T	62477973	3	4	16	1	0	0	0	0	1	0	0	0	2573	536	19	1	1229	1	CADPS	3	62477973	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	9536688	62477973	135544457	239	11914											
SLC25A26	115286	broad.mit.edu	37	chr3	66293635	66293635	+	Frame_Shift_Del	DEL	T	-	-																															tttaaatttcagctgctgcaTtttttatcacctatgaatat																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:66293635delT	uc011bfq.1	+	4	927	c.199delT	c.(199-201)TTTfs	p.F67fs	SLC25A26_uc011bfs.1_5'UTR|SLC25A26_uc011bft.1_RNA|SLC25A26_uc011bfr.1_Frame_Shift_Del_p.F67fs|SLC25A26_uc003dmt.2_5'UTR	NM_173471	NP_775742	Q70HW3	SAMC_HUMAN	solute carrier family 25, member 26 isoform a	67	Solcar 1.|Helical; Name=2; (Potential).					integral to membrane|mitochondrial inner membrane|nucleus	S-adenosylmethionine transmembrane transporter activity			pancreas(1)	1		Lung NSC(201;0.00774)		BRCA - Breast invasive adenocarcinoma(55;0.00046)|KIRC - Kidney renal clear cell carcinoma(15;0.0515)|Kidney(15;0.0648)		AGCTGCTGCATTTTTTATCAC	0.328													24	54	---	---	---	---						.	-	66293635	-	-	66293635	7	5	16	1	0	1	0	1	0	0	0	0	14514	1493	52	0	11	0	SLC25A26	3	66293635	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	3815662	66293635	131728795	240	11915											
PDZRN3	23024	broad.mit.edu	37	chr3	73432742	73432742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctgcatcatgaactcgCgccgccgccgctgctccttg	4	10	10	17	5	2	1	1	1	1	0	4	1	3	1	4	0	4	4	4	0	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:73432742C>T	uc003dpl.1	-	10	3071	c.2975G>A	c.(2974-2976)CGC>CAC	p.R992H	PDZRN3_uc011bgh.1_Missense_Mutation_p.R649H|PDZRN3_uc010hoe.1_Missense_Mutation_p.R690H|PDZRN3_uc011bgf.1_Missense_Mutation_p.R709H|PDZRN3_uc011bgg.1_Missense_Mutation_p.R712H	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	992	Potential.						ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		CATGAACTCGCGCCGCCGCCG	0.577													28	60					0	0	1	0	0		T	73432742	T	T	73432742	3	4	16	1	0	0	0	0	1	0	0	0	11728	768	27	1	229	1	PDZRN3	3	73432742	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7139107	73432742	124589688	241	11916											
PDZRN3	23024	broad.mit.edu	37	chr3	73432975	73432975	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactccatgcgcggctccgaCggggtgggagagctcaggtc	6	6	16	13	4	1	1	1	0	0	1	4	3	3	1	2	5	2	2	2	5	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:73432975C>T	uc003dpl.1	-	10	2838	c.2742G>A	c.(2740-2742)CCG>CCA	p.P914P	PDZRN3_uc011bgh.1_Silent_p.P571P|PDZRN3_uc010hoe.1_Silent_p.P612P|PDZRN3_uc011bgf.1_Silent_p.P631P|PDZRN3_uc011bgg.1_Silent_p.P634P	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	914							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GCGGCTCCGACGGGGTGGGAG	0.657													15	20					0	0	1	0	0		T	73432975	T	T	73432975	2	4	16	1	0	0	0	0	0	0	0	1	11728	523	19	1		1	PDZRN3	3	73432975	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	233	73432975	124589455	242	11917											
ROBO1	6091	broad.mit.edu	37	chr3	78685077	78685077	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggatgagctgagtggtggcGtaaggagtaggctgccctga	8	9	18	6	1	0	3	0	3	0	0	0	5	0	5	1	5	2	4	1	5	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:78685077G>A	uc003dqe.2	-	23	3427	c.3219C>T	c.(3217-3219)TAC>TAT	p.Y1073Y	ROBO1_uc003dqb.2_Silent_p.Y1034Y|ROBO1_uc003dqc.2_Silent_p.Y973Y|ROBO1_uc003dqd.2_Silent_p.Y1028Y|ROBO1_uc010hoh.2_Silent_p.Y265Y|ROBO1_uc011bgl.1_Silent_p.Y645Y	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1073	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		GAGTGGTGGCGTAAGGAGTAG	0.488													31	69					0	0	1	0	0		A	78685077	A	A	78685077	2	1	16	1	0	0	0	0	0	0	0	1	13538	1140	40	1		1	ROBO1	3	78685077	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	5252102	78685077	119337353	243	11918											
C3orf26	84319	broad.mit.edu	37	chr3	99890707	99890707	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacagcattcagaggagaCggcaaagttataaaattatt	17	10	9	5	1	1	3	1	1	0	2	1	4	1	3	0	2	1	3	0	2	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:99890707C>T	uc003dtl.2	+	7	686	c.543C>T	c.(541-543)GAC>GAT	p.D181D		NM_032359	NP_115735	Q9BQ75	CC026_HUMAN	hypothetical protein LOC84319	181							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(1)	1						TCAGAGGAGACGGCAAAGTTA	0.418													19	62					0	0	1	0	0		T	99890707	T	T	99890707	2	4	16	1	0	0	0	0	0	0	0	1	2221	535	19	1		1	C3orf26	3	99890707	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	21205630	99890707	98131723	244	11919											
DPPA4	55211	broad.mit.edu	37	chr3	109050737	109050737	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggcctttggagctcagcTtcaattgttggcaccaggcc	6	11	11	13	0	2	0	2	0	0	0	2	1	2	1	4	4	2	4	4	4	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:109050737T>C	uc003dxq.3	-	3	375	c.320A>G	c.(319-321)AAG>AGG	p.K107R	DPPA4_uc011bho.1_Missense_Mutation_p.K107R|DPPA4_uc011bhp.1_Missense_Mutation_p.K107R	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	107						nucleus	protein binding			upper_aerodigestive_tract(1)	1						GGAGCTCAGCTTCAATTGTTG	0.507													7	82					0	0	1	0	0		C	109050737	C	C	109050737	3	2	16	1	0	0	0	0	1	0	0	0	4742	1609	56	3	614	3	DPPA4	3	109050737	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	9160030	109050737	88971693	245	11920											
GSK3B	2932	broad.mit.edu	37	chr3	119631658	119631658	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggaccagctgctttgcaCtaacagaaaaaaaataaaaa	19	7	6	9	1	0	1	0	0	0	1	1	2	0	2	1	1	4	3	1	1	8	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:119631658C>G	uc003edo.2	-	6	1592	c.609_splice	c.e6-1	p.S203_splice	GSK3B_uc003edn.2_Splice_Site_p.S203_splice	NM_001146156	NP_001139628	P49841	GSK3B_HUMAN	glycogen synthase kinase 3 beta isoform 2						axon guidance|epithelial to mesenchymal transition|ER overload response|glycogen metabolic process|hippocampus development|negative regulation of apoptosis|negative regulation of protein binding|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|positive regulation of cell-matrix adhesion|positive regulation of protein complex assembly|positive regulation of protein export from nucleus|positive regulation of Rac GTPase activity|regulation of microtubule-based process|superior temporal gyrus development	Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|nucleus|plasma membrane	ATP binding|beta-catenin binding|NF-kappaB binding|p53 binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|RNA polymerase II transcription factor binding|tau-protein kinase activity|ubiquitin protein ligase binding			lung(2)	2				GBM - Glioblastoma multiforme(114;0.24)	Lithium(DB01356)	CTGCTTTGCACTAACAGAAAA	0.353													14	24					0	0	1	0	0		G	119631658	G	G	119631658	5	3	16	1	0	0	0	0	0	0	1	0	6840	579	20	5	721	5	GSK3B	3	119631658	Splice_Site	SNP	C	TCGA-BR-4292-01A-01D-1126-08	10580921	119631658	78390772	246	11921											
POLQ	10721	broad.mit.edu	37	chr3	121230875	121230875	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacaaattaagatactctcGcctataaccaaaagatacac	18	10	3	10	1	1	2	0	0	1	2	2	2	1	2	2	0	4	0	2	0	9	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:121230875G>A	uc003eee.3	-	10	1599	c.1470C>T	c.(1468-1470)GGC>GGT	p.G490G		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	490	Helicase C-terminal.				DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AGATACTCTCGCCTATAACCA	0.378								DNA_polymerases_(catalytic_subunits)					23	43					0	0	1	0	0		A	121230875	A	A	121230875	2	1	16	1	0	0	0	0	0	0	0	1	12227	1101	38	1		1	POLQ	3	121230875	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1599217	121230875	76791555	247	11922											
WDR5B	54554	broad.mit.edu	37	chr3	122134419	122134419	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtactaggcgttcagccCtgaaccaggcagtccagtac	9	8	12	12	1	1	1	1	1	0	0	2	1	2	1	3	3	4	4	3	3	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:122134419C>A	uc003efa.1	-	1	464	c.-43G>T	c.(-45--41)CAGGG>CATGG			NM_019069	NP_061942	Q86VZ2	WDR5B_HUMAN	WD repeat domain 5B											ovary(3)	3				GBM - Glioblastoma multiforme(114;0.0704)		GCGTTCAGCCCTGAACCAGGC	0.483													17	55					2.4624e-09	2.58403e-09	1	1	0		A	122134419	A	A	122134419	1	1	16	1	0	0	0	0	0	0	0	0	17335	696	24	5		5	WDR5B	3	122134419	Translation_Start_Site	SNP	C	TCGA-BR-4292-01A-01D-1126-08	903544	122134419	75888011	248	11923											
ADCY5	111	broad.mit.edu	37	chr3	123051470	123051470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcatgaccagttcctgtgCagtgcactgggacgccaggc	7	8	14	12	1	1	1	1	1	0	0	2	2	2	2	3	3	2	3	3	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:123051470C>T	uc003egh.1	-	4	1459	c.1459G>A	c.(1459-1461)GCA>ACA	p.A487T	ADCY5_uc003egg.1_Missense_Mutation_p.A120T|ADCY5_uc003egi.1_Missense_Mutation_p.A46T	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	487	Guanylate cyclase 1.|Cytoplasmic (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		AGTTCCTGTGCAGTGCACTGG	0.572													11	30					0	0	1	0	0		T	123051470	T	T	123051470	3	4	16	1	0	0	0	0	1	0	0	0	297	710	25	2	2398	2	ADCY5	3	123051470	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	917051	123051470	74970960	249	11924											
MYLK	4638	broad.mit.edu	37	chr3	123427553	123427553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagcctcaccttgtaccGtgagcacggcctgggtgcgg	5	8	15	13	3	2	1	2	1	0	0	2	1	2	1	4	4	4	2	4	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:123427553G>A	uc003ego.2	-	15	2414	c.2132C>T	c.(2131-2133)ACG>ATG	p.T711M	MYLK_uc011bjw.1_Missense_Mutation_p.T711M|MYLK_uc003egp.2_Missense_Mutation_p.T642M|MYLK_uc003egq.2_Missense_Mutation_p.T711M|MYLK_uc003egr.2_Missense_Mutation_p.T642M|MYLK_uc003egs.2_Missense_Mutation_p.T535M	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	711	Ig-like C2-type 5.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		ACCTTGTACCGTGAGCACGGC	0.602													13	27					0	0	1	0	0		A	123427553	A	A	123427553	3	1	16	1	0	0	0	0	1	0	0	0	10074	1145	40	1	3692	1	MYLK	3	123427553	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	376083	123427553	74594877	250	11925											
ITGB5	3693	broad.mit.edu	37	chr3	124485139	124485139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacataggtgaacatcatgaCgcagtccttggcggttttgt	9	12	11	9	2	1	2	1	2	0	0	2	2	2	2	1	3	1	2	1	3	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:124485139C>T	uc003eho.2	-	13	2368	c.2071G>A	c.(2071-2073)GTC>ATC	p.V691I	ITGB5_uc010hrx.2_RNA	NM_002213	NP_002204	P18084	ITB5_HUMAN	integrin, beta 5 precursor	691	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)		AACATCATGACGCAGTCCTTG	0.572													40	53					0	0	1	0	0		T	124485139	T	T	124485139	3	4	16	1	0	0	0	0	1	0	0	0	7914	536	19	1	340	1	ITGB5	3	124485139	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1057586	124485139	73537291	251	11926											
KLF15	28999	broad.mit.edu	37	chr3	126062587	126062587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcagttcacggagcgcaCggagcggctgctccgcggga	6	7	15	13	6	2	0	2	0	0	0	3	3	3	3	1	4	3	4	1	4	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:126062587C>T	uc011bkk.1	-	3	1416	c.1234G>A	c.(1234-1236)GTG>ATG	p.V412M		NM_014079	NP_054798	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	412						nucleus	DNA binding|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(114;0.147)		ACGGAGCGCACGGAGCGGCTG	0.592													4	20					0	0	1	0	0		T	126062587	T	T	126062587	3	4	16	1	0	0	0	0	1	0	0	0	8359	536	19	1	20	1	KLF15	3	126062587	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1577448	126062587	71959843	252	11927											
PLXNA1	5361	broad.mit.edu	37	chr3	126735391	126735391	+	Frame_Shift_Del	DEL	C	-	-																															gtgagatccggtgcctgacaCcccccgggcagagccctggc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:126735391delC	uc003ejg.2	+	15	2981	c.2977delC	c.(2977-2979)CCCfs	p.P993fs		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1016	IPT/TIG 2.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GTGCCTGACACCCCCCGGGCA	0.627													17	38	---	---	---	---						.	-	126735391	-	-	126735391	7	5	16	1	0	1	0	1	0	0	0	0	12138	507	18	0	3104	0	PLXNA1	3	126735391	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	672804	126735391	71287039	253	11928											
XRN1	54464	broad.mit.edu	37	chr3	142122802	142122802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttttgtttatgtctacaCgccaagcatctaaggatatt	10	17	7	7	1	2	0	0	0	2	0	2	1	2	1	1	1	2	3	1	1	5	8	rs138660782		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:142122802C>T	uc003eus.2	-	17	1980	c.1913G>A	c.(1912-1914)CGT>CAT	p.R638H	XRN1_uc010huu.2_Missense_Mutation_p.R104H|XRN1_uc003eut.2_Missense_Mutation_p.R638H|XRN1_uc003euu.2_Missense_Mutation_p.R638H|XRN1_uc003euv.1_Missense_Mutation_p.R499H	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	638					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						TATGTCTACACGCCAAGCATC	0.299													13	35					0	0	1	0	0		T	142122802	T	T	142122802	3	4	16	1	0	0	0	0	1	0	0	0	17485	536	19	1	3311	1	XRN1	3	142122802	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	15387411	142122802	55899628	254	11929											
PAQR9	344838	broad.mit.edu	37	chr3	142681763	142681763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggcagctgaacacgtgcGccgtgcagctcatggcgaag	10	5	14	12	4	1	1	1	1	0	0	1	2	1	1	1	2	5	4	1	2	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:142681763G>A	uc003evg.2	-	1	416	c.416C>T	c.(415-417)GCG>GTG	p.A139V	PAQR9_uc003evf.1_5'Flank	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	139	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						GAACACGTGCGCCGTGCAGCT	0.657													10	16					0	0	1	0	0		A	142681763	A	A	142681763	3	1	16	1	0	0	0	0	1	0	0	0	11461	1087	38	1	721	1	PAQR9	3	142681763	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	558961	142681763	55340667	255	11930											
PLSCR1	5359	broad.mit.edu	37	chr3	146254325	146254325	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatttaaaataaattacttActttgtttgtccatgattaa	15	18	3	5	0	0	1	0	1	0	0	1	1	1	1	1	0	2	1	1	0	7	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:146254325A>C	uc003evx.3	-	2	401	c.13_splice	c.e2+1	p.N5_splice	PLSCR1_uc003evy.3_Intron|PLSCR1_uc011bnn.1_Splice_Site|PLSCR1_uc003evz.3_Splice_Site|PLSCR1_uc003ewa.2_Splice_Site_p.N5_splice	NM_021105	NP_066928	O15162	PLS1_HUMAN	phospholipid scramblase 1						phospholipid scrambling|platelet activation|response to virus	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding			ovary(2)	2						TAAATTACTTACTTTGTTTGT	0.294													3	44					0	0	1	0	0		C	146254325	C	C	146254325	5	2	16	1	0	0	0	0	0	0	1	0	12128	405	14	5	973	5	PLSCR1	3	146254325	Splice_Site	SNP	A	TCGA-BR-4292-01A-01D-1126-08	3572562	146254325	51768105	256	11931											
MED12L	116931	broad.mit.edu	37	chr3	150845633	150845633	+	Frame_Shift_Del	DEL	G	-	-																															ttcctatccttagtaaaaaaGaggatgtttttgcatattta																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:150845633delG	uc003eyp.2	+	4	456	c.418delG	c.(418-420)GAGfs	p.E140fs	MED12L_uc011bnz.1_Frame_Shift_Del_p.E140fs|MED12L_uc003eym.1_Frame_Shift_Del_p.E140fs|MED12L_uc003eyn.2_Frame_Shift_Del_p.E140fs|MED12L_uc003eyo.2_Frame_Shift_Del_p.E140fs	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	140					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TAGTAAAAAAGAGGATGTTTT	0.343													26	49	---	---	---	---						.	-	150845633	-	-	150845633	7	5	16	1	0	1	0	1	0	0	0	0	9447	943	33	0	432	0	MED12L	3	150845633	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	4591308	150845633	47176797	257	11932											
AADACL2	344752	broad.mit.edu	37	chr3	151458608	151458608	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtcagaaacccgaaggCgagctgtgatatattttcat	14	10	10	7	2	2	2	2	1	0	1	2	5	2	2	1	1	2	1	1	1	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:151458608C>T	uc003ezc.2	+	2	433	c.313C>T	c.(313-315)CGA>TGA	p.R105*	AADACL2_uc010hvn.2_Intron	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2 precursor	105						extracellular region|integral to membrane	carboxylesterase activity				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			AACCCGAAGGCGAGCTGTGAT	0.368													22	56					0	0	1	0	0		T	151458608	T	T	151458608	4	4	16	1	0	0	0	0	0	1	0	0	11	760	27	1	319	1	AADACL2	3	151458608	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	612975	151458608	46563822	258	11933											
DHX36	170506	broad.mit.edu	37	chr3	154007599	154007599	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accattatacagatgatagcAatgaccaggttgaactctta	15	11	7	8	0	1	4	0	3	1	1	1	4	1	4	2	1	3	2	2	1	6	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:154007599A>T	uc003ezy.3	-	16	1912	c.1831T>A	c.(1831-1833)TGC>AGC	p.C611S	DHX36_uc010hvq.2_Missense_Mutation_p.C597S|DHX36_uc003ezz.3_Missense_Mutation_p.C611S	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	611	Helicase C-terminal.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			AGATGATAGCAATGACCAGGT	0.338													11	34					0	0	1	0	0		T	154007599	T	T	154007599	3	4	16	1	0	0	0	0	1	0	0	0	4515	130	5	5	1235	5	DHX36	3	154007599	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	2548991	154007599	44014831	259	11934											
PLCH1	23007	broad.mit.edu	37	chr3	155301426	155301426	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgattctcatctgtgtcGgcttcctgaaaagggcatag	8	12	10	11	1	2	2	1	2	2	0	5	2	3	2	2	2	0	2	2	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:155301426G>A	uc011bok.1	-	5	847	c.570C>T	c.(568-570)GCC>GCT	p.A190A	PLCH1_uc011boj.1_Silent_p.A190A|PLCH1_uc011bol.1_Silent_p.A172A	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	190	EF-hand 2.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CATCTGTGTCGGCTTCCTGAA	0.328													22	39					0	0	1	0	0		A	155301426	A	A	155301426	2	1	16	1	0	0	0	0	0	0	0	1	12056	1103	39	1		1	PLCH1	3	155301426	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1293827	155301426	42721004	260	11935											
RARRES1	5918	broad.mit.edu	37	chr3	158428614	158428614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgttgtcttttctttttctCgatgagccgtgtacaagtta	6	20	8	7	2	3	1	0	1	3	0	4	2	3	1	1	0	2	3	1	0	3	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:158428614C>T	uc003fci.2	-	3	519	c.448G>A	c.(448-450)GAG>AAG	p.E150K	RARRES1_uc003fcj.2_Missense_Mutation_p.E150K	NM_206963	NP_996846	P49788	TIG1_HUMAN	retinoic acid receptor responder (tazarotene	150	Extracellular (Potential).				negative regulation of cell proliferation	integral to membrane					0			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)		Tretinoin(DB00755)	TTCTTTTTCTCGATGAGCCGT	0.423													29	83					0	0	1	0	0		T	158428614	T	T	158428614	3	4	16	1	0	0	0	0	1	0	0	0	13080	893	31	1	467	1	RARRES1	3	158428614	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3127188	158428614	39593816	261	11936											
ZBBX	79740	broad.mit.edu	37	chr3	167077712	167077712	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actttcccatttatcttgggTttttcacattctgaagaatt	9	19	5	8	0	3	2	1	1	2	1	4	2	4	2	1	1	0	1	1	1	3	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:167077712T>G	uc003fep.2	-	8	701	c.378A>C	c.(376-378)AAA>AAC	p.K126N	ZBBX_uc011bpc.1_Missense_Mutation_p.K126N|ZBBX_uc003feq.2_Missense_Mutation_p.K97N	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	126						intracellular	zinc ion binding			ovary(2)	2						TTATCTTGGGTTTTTCACATT	0.303													19	41					0	0	1	0	0		G	167077712	G	G	167077712	3	3	16	1	0	0	0	0	1	0	0	0	17542	1722	60	5	2080	5	ZBBX	3	167077712	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	8649098	167077712	30944718	262	11937											
SERPINI1	5274	broad.mit.edu	37	chr3	167507159	167507159	+	Frame_Shift_Del	DEL	A	-	-																															tcaatgggatatgacagcctAaaaaatggtaagagtgatca																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:167507159delA	uc003ffa.3	+	2	441	c.243delA	c.(241-243)CTAfs	p.L81fs	SERPINI1_uc003ffb.3_Frame_Shift_Del_p.L81fs	NM_001122752	NP_001116224	Q99574	NEUS_HUMAN	neuroserpin precursor	81					central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1						ATGACAGCCTAAAAAATGGTA	0.388													53	107	---	---	---	---						.	-	167507159	-	-	167507159	7	5	16	1	0	1	0	1	0	0	0	0	14143	349	13	0	245	0	SERPINI1	3	167507159	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	429447	167507159	30515271	263	11938											
GPR160	26996	broad.mit.edu	37	chr3	169802469	169802469	+	Frame_Shift_Del	DEL	A	-	-																															ccagttatactgtgagatctAaaaaaatattcttatccaag																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:169802469delA	uc003fgi.2	+	4	1299	c.709delA	c.(709-711)AAAfs	p.K237fs	GPR160_uc010hwq.2_Frame_Shift_Del_p.K237fs	NM_014373	NP_055188	Q9UJ42	GP160_HUMAN	G protein-coupled receptor 160	237	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_cancers(22;3.26e-22)|all_epithelial(15;5.71e-27)|all_lung(20;8.41e-17)|Lung NSC(18;3.49e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			TGTGAGATCTAAAAAAATATT	0.328													25	38	---	---	---	---						.	-	169802469	-	-	169802469	7	5	16	1	0	1	0	1	0	0	0	0	6679	363	13	0	711	0	GPR160	3	169802469	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	2295310	169802469	28219961	264	11939											
SLC7A14	57709	broad.mit.edu	37	chr3	170204127	170204127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgtcaaagccaatgaaagCgtagaagcatgttgctgctc	13	9	11	8	1	1	2	1	1	0	1	2	3	1	2	1	0	5	5	1	0	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:170204127C>T	uc003fgz.2	-	5	1106	c.790G>A	c.(790-792)GCT>ACT	p.A264T	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	264	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			CCAATGAAAGCGTAGAAGCAT	0.517													26	50					0	0	1	0	0		T	170204127	T	T	170204127	3	4	16	1	0	0	0	0	1	0	0	0	14721	768	27	1	1541	1	SLC7A14	3	170204127	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	401658	170204127	27818303	265	11940											
SLC7A14	57709	broad.mit.edu	37	chr3	170218991	170218991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctcagagcactggctcCggccgcagtgccaatcaggt	7	7	13	14	2	2	1	2	0	0	1	3	1	3	1	3	3	3	5	3	3	1	0	rs146405741		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:170218991C>T	uc003fgz.2	-	3	764	c.448G>A	c.(448-450)GGA>AGA	p.G150R	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	150						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			GCACTGGCTCCGGCCGCAGTG	0.557													8	22					0	0	1	0	0		T	170218991	T	T	170218991	3	4	16	1	0	0	0	0	1	0	0	0	14721	661	23	1	1891	1	SLC7A14	3	170218991	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	14864	170218991	27803439	266	11941											
MCCC1	56922	broad.mit.edu	37	chr3	182743546	182743546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaccagtaaggcttacctgCatgctataagacccatcatg	14	9	7	11	0	1	1	1	0	0	1	1	1	1	1	3	1	4	4	3	1	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:182743546C>T	uc003fle.2	-	15	1865	c.1728G>A	c.(1726-1728)ATG>ATA	p.M576I	MCCC1_uc010hxi.2_RNA|MCCC1_uc011bqo.1_Intron|MCCC1_uc003flf.2_Missense_Mutation_p.M459I|MCCC1_uc003flg.2_Missense_Mutation_p.M467I|MCCC1_uc011bqp.1_Missense_Mutation_p.M529I	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	576					biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	GGCTTACCTGCATGCTATAAG	0.373													24	54					0	0	1	0	0		T	182743546	T	T	182743546	3	4	16	1	0	0	0	0	1	0	0	0	9392	710	25	2	469	2	MCCC1	3	182743546	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	12524555	182743546	15278884	267	11942											
AP2M1	1173	broad.mit.edu	37	chr3	183896808	183896808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaacgctgccatggtcttcGaattcctctataagatgtgt	9	14	8	10	2	3	1	1	0	2	1	5	2	4	1	2	1	2	1	2	1	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:183896808G>A	uc011bqx.1	+	3	395	c.238G>A	c.(238-240)GAA>AAA	p.E80K	AP2M1_uc003fmw.2_Missense_Mutation_p.E80K|AP2M1_uc003fmx.2_Missense_Mutation_p.E80K|AP2M1_uc003fmy.2_Missense_Mutation_p.E80K|AP2M1_uc011bqy.1_5'Flank|AP2M1_uc011bqz.1_5'Flank	NM_004068	NP_004059	Q96CW1	AP2M1_HUMAN	adaptor-related protein complex 2, mu 1 subunit	80					axon guidance|cellular membrane organization|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|clathrin coat of coated pit|cytosol|endocytic vesicle membrane|peroxisomal membrane	lipid binding|protein binding|transporter activity				0	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.92e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CATGGTCTTCGAATTCCTCTA	0.483													31	74					0	0	1	0	0		A	183896808	A	A	183896808	3	1	16	1	0	0	0	0	1	0	0	0	742	1059	37	1	244	1	AP2M1	3	183896808	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1153262	183896808	14125622	268	11943											
THPO	7066	broad.mit.edu	37	chr3	184090371	184090371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagggctggtaggggtgggcGttggagcagaagggtcagga	8	6	23	4	1	1	1	1	0	0	1	1	4	1	3	0	8	1	4	0	8	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:184090371G>A	uc003fol.1	-	6	1207	c.992C>T	c.(991-993)ACG>ATG	p.T331M	THPO_uc003fom.1_Missense_Mutation_p.T327M|THPO_uc003fon.2_3'UTR|THPO_uc011bro.1_Missense_Mutation_p.T207M|THPO_uc003fop.2_3'UTR|THPO_uc011brp.1_Missense_Mutation_p.T144M	NM_000460	NP_000451	P40225	TPO_HUMAN	thrombopoietin precursor	331	Pro-rich.				cell proliferation|platelet activation	extracellular space	cytokine activity|growth factor activity|hormone activity			ovary(1)	1	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGGGGTGGGCGTTGGAGCAGA	0.572													33	60					0	0	1	0	0		A	184090371	A	A	184090371	3	1	16	1	0	0	0	0	1	0	0	0	15897	1145	40	1	73	1	THPO	3	184090371	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	193563	184090371	13932059	269	11944											
IGF2BP2	10644	broad.mit.edu	37	chr3	185375140	185375140	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttcttcccgatgatggcGcccacagcctgggttgggat	5	10	12	14	2	1	1	0	1	1	0	2	3	2	2	4	3	1	1	4	3	0	3	rs142081639		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:185375140G>A	uc003fpo.2	-	12	1399	c.1320C>T	c.(1318-1320)GGC>GGT	p.G440G	IGF2BP2_uc010hyi.2_Silent_p.G383G|IGF2BP2_uc010hyj.2_Silent_p.G377G|IGF2BP2_uc010hyk.2_Silent_p.G304G|IGF2BP2_uc010hyl.2_Silent_p.G334G|IGF2BP2_uc003fpp.2_Silent_p.G397G|IGF2BP2_uc003fpq.2_Silent_p.G445G	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	440	KH 3.				anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			CGATGATGGCGCCCACAGCCT	0.567													19	31					0	0	1	0	0		A	185375140	A	A	185375140	2	1	16	1	0	0	0	0	0	0	0	1	7590	1074	38	1		1	IGF2BP2	3	185375140	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1284769	185375140	12647290	270	11945											
HRG	3273	broad.mit.edu	37	chr3	186395437	186395437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccaggtaaaggaccccGtcccttccattgcagacaaa	12	6	9	14	1	0	1	0	0	0	1	2	2	2	2	5	3	1	2	5	3	3	3	rs149578094		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:186395437G>A	uc003fqq.2	+	7	1366	c.1343G>A	c.(1342-1344)CGT>CAT	p.R448H		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	448	His/Pro-rich (HRR).				fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		AAAGGACCCCGTCCCTTCCAT	0.567													20	51					0	0	1	0	0		A	186395437	A	A	186395437	3	1	16	1	0	0	0	0	1	0	0	0	7370	1145	40	1	1369	1	HRG	3	186395437	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1020297	186395437	11626993	271	11946											
LPP	4026	broad.mit.edu	37	chr3	188123957	188123957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagcactggtgagcccctcGgccatgtgcctgcacggatg	8	7	13	13	2	0	1	0	1	0	0	1	2	0	2	4	3	4	2	4	3	1	0	rs139718801	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:188123957G>A	uc003frs.1	+	3	295	c.49G>A	c.(49-51)GGC>AGC	p.G17S	LPP_uc011bsg.1_Missense_Mutation_p.G17S|LPP_uc011bsi.1_Missense_Mutation_p.G17S|LPP_uc003frt.2_Missense_Mutation_p.G17S	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	17					cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		TGAGCCCCTCGGCCATGTGCC	0.502			T	HMGA2|MLL|C12orf9	lipoma|leukemia								63	148					0	0	1	0	0		A	188123957	A	A	188123957	3	1	16	1	0	0	0	0	1	0	0	0	8941	1116	39	1	51	1	LPP	3	188123957	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1728520	188123957	9898473	272	11947											
GP5	2814	broad.mit.edu	37	chr3	194118379	194118379	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggctgttcaacagcccCgaatccagagacacaaggcg	12	4	10	15	2	1	1	1	0	0	1	2	3	2	1	4	2	2	2	4	2	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:194118379C>T	uc003ftv.1	-	2	664	c.633G>A	c.(631-633)TCG>TCA	p.S211S		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	211	Extracellular (Potential).|LRR 6.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		TCAACAGCCCCGAATCCAGAG	0.612													35	47					0	0	1	0	0		T	194118379	T	T	194118379	2	4	16	1	0	0	0	0	0	0	0	1	6598	639	23	1		1	GP5	3	194118379	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5994422	194118379	3904051	273	11948											
TNK2	10188	broad.mit.edu	37	chr3	195594978	195594978	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggagcctgcagttgccTcatgcactcctgctgtagcg	5	9	13	14	2	1	0	1	0	0	0	2	1	2	1	4	2	6	5	4	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:195594978T>C	uc003fvu.1	-	12	2689	c.2146A>G	c.(2146-2148)AGG>GGG	p.R716G	TNK2_uc003fvq.1_Missense_Mutation_p.R123G|TNK2_uc003fvr.1_Missense_Mutation_p.R241G|TNK2_uc003fvs.1_Missense_Mutation_p.R748G|TNK2_uc003fvt.1_Missense_Mutation_p.R794G|TNK2_uc010hzw.1_RNA	NM_005781	NP_005772	Q07912	ACK1_HUMAN	tyrosine kinase, non-receptor, 2 isoform 1	716	Pro-rich.			Missing (in Ref. 4; AAH08884).	positive regulation of peptidyl-tyrosine phosphorylation|protein ubiquitination|small GTPase mediated signal transduction	adherens junction|cytoplasmic vesicle membrane|endosome|nucleus	ATP binding|GTPase inhibitor activity|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|central_nervous_system(3)|lung(2)|stomach(1)|skin(1)	10	all_cancers(143;6.48e-09)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;1.46e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.3e-19)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;0.000757)	Adenosine triphosphate(DB00171)	TGCAGTTGCCTCATGCACTCC	0.716													4	11					0	0	1	0	0		C	195594978	C	C	195594978	3	2	16	1	0	0	0	0	1	0	0	0	16343	1550	54	3	986	3	TNK2	3	195594978	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1476599	195594978	2427452	274	11949											
OSTalpha	200931	broad.mit.edu	37	chr3	195944785	195944785	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcttctctcagcctccCacagcagcccaactcctgag	7	8	7	19	0	2	1	1	1	1	0	5	1	4	1	5	0	5	2	5	0	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr3:195944785C>T	uc003fwd.2	+	2	312	c.111C>T	c.(109-111)CCC>CCT	p.P37P	OSTalpha_uc011btu.1_Silent_p.P37P	NM_152672	NP_689885	Q86UW1	OSTA_HUMAN	organic solute transporter alpha	37						integral to membrane|plasma membrane	transporter activity			ovary(1)	1	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;8.83e-25)|all cancers(36;8.38e-23)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;7.51e-07)|Lung(62;1.06e-06)	GBM - Glioblastoma multiforme(46;0.00202)		CTCAGCCTCCCACAGCAGCCC	0.607													9	14					0	0	1	0	0		T	195944785	T	T	195944785	2	4	16	1	0	0	0	0	0	0	0	1	11319	581	21	4		4	OSTalpha	3	195944785	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	349807	195944785	2077645	275	11950											
KIAA1530	57654	broad.mit.edu	37	chr4	1348916	1348916	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcgcagcgcttcacccgCgtcgggacccacggtggatg	5	8	14	14	6	1	0	1	0	0	0	3	2	1	2	2	3	1	3	2	3	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:1348916C>T	uc003gde.3	+	7	1506	c.1059C>T	c.(1057-1059)CGC>CGT	p.R353R		NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	353											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			GCTTCACCCGCGTCGGGACCC	0.617													10	14					0	0	1	0	0		T	1348916	T	T	1348916	2	4	16	1	0	0	0	0	0	0	0	1	8257	755	27	1		1	KIAA1530	4	1348916	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08		1348916	189805360	276	11951											
TACC3	10460	broad.mit.edu	37	chr4	1742700	1742700	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacagaaagaggtgatcgAgggctaccgcaaggtatgtc	14	6	14	7	2	0	3	0	1	0	2	2	5	0	3	1	3	2	3	1	3	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:1742700A>T	uc003gdo.2	+	13	2318	c.2210A>T	c.(2209-2211)GAG>GTG	p.E737V	TACC3_uc003gdp.2_Missense_Mutation_p.E377V|TACC3_uc010ica.2_Missense_Mutation_p.E158V	NM_006342	NP_006333	Q9Y6A5	TACC3_HUMAN	transforming, acidic coiled-coil containing	737	Potential.					centrosome				ovary(1)|central_nervous_system(1)	2		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.00765)|Epithelial(3;0.0126)			GAGGTGATCGAGGGCTACCGC	0.522													36	57					0	0	1	0	0		T	1742700	T	T	1742700	3	4	16	1	0	0	0	0	1	0	0	0	15528	304	11	5	2256	5	TACC3	4	1742700	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	393784	1742700	189411576	277	11952											
ZFYVE28	57732	broad.mit.edu	37	chr4	2306791	2306791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcggcccaggtactgcctgCccacccaaatgggccagctg	7	6	12	16	1	0	0	0	0	0	0	1	0	0	0	5	3	4	2	5	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:2306791C>T	uc003gex.1	-	8	1595	c.1276G>A	c.(1276-1278)GCA>ACA	p.A426T	ZFYVE28_uc011bvk.1_Missense_Mutation_p.A356T|ZFYVE28_uc011bvl.1_Missense_Mutation_p.A396T|ZFYVE28_uc003gew.1_Missense_Mutation_p.A312T	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	426					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						GTACTGCCTGCCCACCCAAAT	0.677													12	17					0	0	1	0	0		T	2306791	T	T	2306791	3	4	16	1	0	0	0	0	1	0	0	0	17695	739	26	2	1411	2	ZFYVE28	4	2306791	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	564091	2306791	188847485	278	11953											
TNIP2	79155	broad.mit.edu	37	chr4	2746454	2746454	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatctgcacccgctccaaCgcagcatcccgggccgtcct	7	6	9	19	4	1	0	0	0	1	0	4	0	4	0	5	1	4	5	5	1	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:2746454C>T	uc003gfg.2	-	4	963	c.876G>A	c.(874-876)GCG>GCA	p.A292A	TNIP2_uc003gff.2_Silent_p.A185A|TNIP2_uc003gfh.2_Intron	NM_024309	NP_077285	Q8NFZ5	TNIP2_HUMAN	A20-binding inhibitor of NF-kappaB activation 2	292	Potential.					cytosol	protein binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CCCGCTCCAACGCAGCATCCC	0.612													11	25					0	0	1	0	0		T	2746454	T	T	2746454	2	4	16	1	0	0	0	0	0	0	0	1	16340	523	19	1		1	TNIP2	4	2746454	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	439663	2746454	188407822	279	11954											
NOP14	8602	broad.mit.edu	37	chr4	2948228	2948228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggagaacaaatttgatagCgtcacttgcagattcaggaa	14	10	10	7	2	2	3	2	1	0	2	3	5	2	4	0	2	3	1	0	2	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:2948228C>T	uc003ggj.1	-	11	1618	c.1546G>A	c.(1546-1548)GCT>ACT	p.A516T	C4orf10_uc003gge.1_Intron|C4orf10_uc003ggh.2_Intron|C4orf10_uc003ggi.1_Intron|NOP14_uc010icp.2_Missense_Mutation_p.A262T|NOP14_uc003ggk.3_Missense_Mutation_p.A516T|NOP14_uc003ggl.2_Missense_Mutation_p.A516T	NM_003703	NP_003694	P78316	NOP14_HUMAN	probable nucleolar complex protein 14	516					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	mitochondrion|Noc4p-Nop14p complex|small-subunit processome	snoRNA binding			pancreas(1)	1						AATTTGATAGCGTCACTTGCA	0.438													19	42					0	0	1	0	0		T	2948228	T	T	2948228	3	4	16	1	0	0	0	0	1	0	0	0	10555	768	27	1	1059	1	NOP14	4	2948228	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	201774	2948228	188206048	280	11955											
HGFAC	3083	broad.mit.edu	37	chr4	3450973	3450973	+	Frame_Shift_Del	DEL	G	-	-																															tctctgcccagggggactcaGgggggcccctggcctgcgag																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:3450973delG	uc003ghc.2	+	14	1798	c.1795delG	c.(1795-1797)GGGfs	p.G599fs	HGFAC_uc010icw.2_Frame_Shift_Del_p.G606fs	NM_001528	NP_001519	Q04756	HGFA_HUMAN	HGF activator preproprotein	599	Peptidase S1.				proteolysis	extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(2)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		GGGGGACTCAGGGGGGCCCCT	0.682													28	57	---	---	---	---						.	-	3450973	-	-	3450973	7	5	16	1	0	1	0	1	0	0	0	0	7102	1000	35	0	1849	0	HGFAC	4	3450973	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	502745	3450973	187703303	281	11956											
EVC2	132884	broad.mit.edu	37	chr4	5664926	5664926	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcctcattcacgccatcAgctgaggtgaacggcaaggg	10	7	13	11	2	3	2	3	2	0	0	4	2	4	2	2	4	2	2	2	4	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:5664926A>G	uc003gij.2	-	9	1107	c.1053T>C	c.(1051-1053)GCT>GCC	p.A351A	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Silent_p.A271A	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	351						integral to membrane				large_intestine(3)|ovary(2)	5						TCACGCCATCAGCTGAGGTGA	0.468													6	81					0	0	1	0	0		G	5664926	G	G	5664926	2	3	16	1	0	0	0	0	0	0	0	1	5294	175	7	3		3	EVC2	4	5664926	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	2213953	5664926	185489350	282	11957											
EVC	2121	broad.mit.edu	37	chr4	5733277	5733277	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagccagggtgagaaggaCgactgcagctcctcatccag	10	6	13	12	1	1	2	1	2	0	1	3	5	3	3	3	2	3	2	3	2	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:5733277C>T	uc003gil.1	+	4	694	c.510C>T	c.(508-510)GAC>GAT	p.D170D	EVC_uc003gim.1_RNA	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	170					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				GTGAGAAGGACGACTGCAGCT	0.602													20	47					0	0	1	0	0		T	5733277	T	T	5733277	2	4	16	1	0	0	0	0	0	0	0	1	5293	535	19	1		1	EVC	4	5733277	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	68351	5733277	185420999	283	11958											
CRMP1	1400	broad.mit.edu	37	chr4	5862758	5862758	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagtgtcactcactgatcAtcgtggtcccgcccaccagt	8	9	9	15	2	3	1	3	1	0	0	5	2	4	1	3	1	0	0	3	1	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:5862758A>G	uc003gip.2	-	4	409	c.308T>C	c.(307-309)ATG>ACG	p.M103T	CRMP1_uc003gin.1_Intron|CRMP1_uc003giq.2_Missense_Mutation_p.M103T|CRMP1_uc003gir.2_Missense_Mutation_p.M98T|CRMP1_uc003gis.2_Missense_Mutation_p.M217T	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	103					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		CTCACTGATCATCGTGGTCCC	0.577													9	15					0	0	1	0	0		G	5862758	G	G	5862758	3	3	16	1	0	0	0	0	1	0	0	0	3893	217	8	3	1458	3	CRMP1	4	5862758	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	129481	5862758	185291518	284	11959											
CCDC96	257236	broad.mit.edu	37	chr4	7043508	7043508	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctggtttcaaaatgcacCaggctctgcttcagctgaat	10	12	8	11	0	3	1	2	1	1	0	4	1	4	1	2	2	3	5	2	2	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:7043508C>A	uc003gjv.2	-	1	1221	c.1158G>T	c.(1156-1158)CTG>CTT	p.L386L	TADA2B_uc003gjw.3_5'Flank|TADA2B_uc010idi.2_5'Flank	NM_153376	NP_699207	Q2M329	CCD96_HUMAN	coiled-coil domain containing 96	386	Potential.										0						CAAAATGCACCAGGCTCTGCT	0.522													25	60					4.87955e-14	5.2164e-14	1	1	0		A	7043508	A	A	7043508	2	1	16	1	0	0	0	0	0	0	0	1	2877	581	21	5		5	CCDC96	4	7043508	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1180750	7043508	184110768	285	11960											
DRD5	1816	broad.mit.edu	37	chr4	9784659	9784659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccggccggcttcccctgcGtcagtgagaccaccttcgac	5	8	10	18	4	1	1	1	1	0	1	4	3	3	1	6	2	1	1	6	2	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:9784659G>A	uc003gmb.3	+	1	1402	c.1006G>A	c.(1006-1008)GTC>ATC	p.V336I		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	336	Extracellular (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	CTTCCCCTGCGTCAGTGAGAC	0.587													32	65					0	0	1	0	0		A	9784659	A	A	9784659	3	1	16	1	0	0	0	0	1	0	0	0	4766	1145	40	1	1008	1	DRD5	4	9784659	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2741151	9784659	181369617	286	11961											
SLC2A9	56606	broad.mit.edu	37	chr4	9987317	9987317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctatgcccatgatgaagcGtcccacgatgagcatttcaa	12	10	8	11	2	2	3	1	3	1	0	3	4	3	3	2	0	3	1	2	0	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:9987317G>A	uc003gmc.2	-	4	572	c.511C>T	c.(511-513)CGC>TGC	p.R171C	SLC2A9_uc003gmd.2_Missense_Mutation_p.R142C	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein	171	Extracellular (Potential).				glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						ATGATGAAGCGTCCCACGATG	0.388													20	50					0	0	1	0	0		A	9987317	A	A	9987317	3	1	16	1	0	0	0	0	1	0	0	0	14577	1145	40	1	1147	1	SLC2A9	4	9987317	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	202658	9987317	181166959	287	11962											
C1QTNF7	114905	broad.mit.edu	37	chr4	15444178	15444178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaataagcatctggcaatcGgactggtacacaatgggcaa	14	8	10	9	1	1	0	0	0	1	0	2	1	1	1	0	4	2	4	0	4	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:15444178G>A	uc011bxb.1	+	3	852	c.625G>A	c.(625-627)GGA>AGA	p.G209R	C1QTNF7_uc003gno.2_Missense_Mutation_p.G216R|C1QTNF7_uc003gnp.2_Missense_Mutation_p.G209R	NM_001135171	NP_001128643	Q9BXJ2	C1QT7_HUMAN	C1q and tumor necrosis factor related protein 7	209	C1q.					collagen					0						TCTGGCAATCGGACTGGTACA	0.478													75	170					0	0	1	0	0		A	15444178	A	A	15444178	3	1	16	1	0	0	0	0	1	0	0	0	1971	1117	39	1	656	1	C1QTNF7	4	15444178	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	5456861	15444178	175710098	288	11963											
LGI2	55203	broad.mit.edu	37	chr4	25014047	25014047	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggctgcgcgatggccaCgtacacatcgttcttggagt	6	10	14	11	4	1	0	0	0	1	0	2	2	1	1	1	3	2	4	1	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:25014047C>T	uc003grf.2	-	7	829	c.730G>A	c.(730-732)GTG>ATG	p.V244M		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	244	EAR 1.					extracellular region					0		Breast(46;0.173)				GCGATGGCCACGTACACATCG	0.468													7	84					0	0	1	0	0		T	25014047	T	T	25014047	3	4	16	1	0	0	0	0	1	0	0	0	8768	536	19	1	915	1	LGI2	4	25014047	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	9569869	25014047	166140229	289	11964											
ZCCHC4	29063	broad.mit.edu	37	chr4	25334863	25334863	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttttgtcaaacatgtcagCagttgttgttaccagatgac	11	14	9	7	0	2	2	2	1	0	1	2	2	2	2	1	0	3	5	1	0	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:25334863C>T	uc003grl.3	+	4	424	c.388C>T	c.(388-390)CAG>TAG	p.Q130*	ZCCHC4_uc003grm.1_RNA|ZCCHC4_uc003grn.3_5'UTR	NM_024936	NP_079212	Q9H5U6	ZCHC4_HUMAN	zinc finger, CCHC domain containing 4	130							methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(2)	2		Breast(46;0.0503)				AACATGTCAGCAGTTGTTGTT	0.388													16	41					0	0	1	0	0		T	25334863	T	T	25334863	4	4	16	1	0	0	0	0	0	1	0	0	17615	711	25	2	402	2	ZCCHC4	4	25334863	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	320816	25334863	165819413	290	11965											
SLC34A2	10568	broad.mit.edu	37	chr4	25665878	25665878	+	Frame_Shift_Del	DEL	T	-	-																															ccaagggattgggagattgaTtttacttctcggatttctct																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:25665878delT	uc003grr.2	+	4	386	c.305delT	c.(304-306)ATTfs	p.I102fs	SLC34A2_uc003grs.2_Frame_Shift_Del_p.I101fs|SLC34A2_uc010iev.2_Frame_Shift_Del_p.I101fs	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	102	Helical; Name=M1; (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				GGGAGATTGATTTTACTTCTC	0.483													48	97	---	---	---	---						.	-	25665878	-	-	25665878	7	5	16	1	0	1	0	1	0	0	0	0	14593	1493	52	0	315	0	SLC34A2	4	25665878	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	331015	25665878	165488398	291	11966	18	2									
SLC34A2	10568	broad.mit.edu	37	chr4	25665888	25665888	+	Silent	SNP	C	T	T																															gggagattgattttacttctCggatttctctactttttcgt																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:25665888C>T	uc003grr.2	+	4	396	c.315C>T	c.(313-315)CTC>CTT	p.L105L	SLC34A2_uc003grs.2_Silent_p.L104L|SLC34A2_uc010iev.2_Silent_p.L104L	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	105	Helical; Name=M1; (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				TTTTACTTCTCGGATTTCTCT	0.507													38	67					0	0	1	0	0		T	25665888	T	T	25665888	2	4	16	1	0	0	0	0	0	0	0	1	14593	871	31	1		1	SLC34A2	4	25665888	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	10	25665888	165488388	292	11967	18	2									
CHRNA9	55584	broad.mit.edu	37	chr4	40356371	40356371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacagtacaaagtgctgaCgaggaatattgagtacatcg	14	9	11	7	2	0	2	0	2	0	0	1	4	0	3	0	1	4	4	0	1	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:40356371C>T	uc003gva.1	+	5	1290	c.1274C>T	c.(1273-1275)ACG>ATG	p.T425M		NM_017581	NP_060051	Q9UGM1	ACHA9_HUMAN	cholinergic receptor, nicotinic, alpha 9	425	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|synaptic transmission	cell junction|postsynaptic membrane	calcium channel activity|receptor activity			breast(3)|skin(3)|central_nervous_system(1)	7					Nicotine(DB00184)	AAAGTGCTGACGAGGAATATT	0.498													21	46					0	0	1	0	0		T	40356371	T	T	40356371	3	4	16	1	0	0	0	0	1	0	0	0	3392	536	19	1	1292	1	CHRNA9	4	40356371	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	14690483	40356371	150797905	293	11968											
BEND4	389206	broad.mit.edu	37	chr4	42119703	42119703	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actttgtttatctgctcttcCgagggcatccaccaatcggg	7	13	9	12	2	2	0	0	0	2	0	5	1	4	0	3	2	1	3	3	2	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:42119703C>T	uc003gwn.2	-	6	2017	c.1437G>A	c.(1435-1437)TCG>TCA	p.S479S	BEND4_uc003gwm.2_3'UTR	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	479	BEN.										0						TCTGCTCTTCCGAGGGCATCC	0.498													6	13					0	0	1	0	0		T	42119703	T	T	42119703	2	4	16	1	0	0	0	0	0	0	0	1	1401	639	23	1		1	BEND4	4	42119703	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1763332	42119703	149034573	294	11969											
KCTD8	386617	broad.mit.edu	37	chr4	44177044	44177044	+	Frame_Shift_Del	DEL	T	-	-																															ggtatccattgtacaggtgcTtttttagaggggcgatccaa																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:44177044delT	uc003gwu.2	-	2	1469	c.1185delA	c.(1183-1185)AAAfs	p.K395fs		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	395						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						GTACAGGTGCTTTTTTAGAGG	0.502										HNSCC(17;0.042)			60	125	---	---	---	---						.	-	44177044	-	-	44177044	7	5	16	1	0	1	0	1	0	0	0	0	8131	1606	56	0	240	0	KCTD8	4	44177044	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	2057341	44177044	146977232	295	11970											
FRYL	285527	broad.mit.edu	37	chr4	48569288	48569288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacattctgaataatattcGccactaaggcactaaaatgg	16	10	7	8	1	1	1	0	1	1	0	2	2	1	1	1	2	1	1	1	2	7	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:48569288G>A	uc003gyh.1	-	28	3751	c.3146C>T	c.(3145-3147)GCG>GTG	p.A1049V	FRYL_uc003gyk.2_Missense_Mutation_p.A1049V|FRYL_uc003gyi.1_5'Flank	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	1049					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						AATAATATTCGCCACTAAGGC	0.328													12	19					0	0	1	0	0		A	48569288	A	A	48569288	3	1	16	1	0	0	0	0	1	0	0	0	6078	1087	38	1	6043	1	FRYL	4	48569288	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4392244	48569288	142584988	296	11971											
LRRC66	339977	broad.mit.edu	37	chr4	52861190	52861190	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttggaggaaagactgaTgggcctgtgtctcttgggtc	7	12	14	8	0	2	2	0	1	2	1	4	4	2	4	1	4	0	0	1	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:52861190T>G	uc003gzi.2	-	4	2011	c.1998A>C	c.(1996-1998)CCA>CCC	p.P666P		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	666						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						GAAAGACTGATGGGCCTGTGT	0.557													26	47					0	0	1	0	0		G	52861190	G	G	52861190	2	3	16	1	0	0	0	0	0	0	0	1	9036	1451	51	5		5	LRRC66	4	52861190	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	4291902	52861190	138293086	297	11972											
GSX2	170825	broad.mit.edu	37	chr4	54966533	54966533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcgcgctccttctatgtcGactcgctcatcatcaaggac	7	12	8	14	4	4	0	3	0	1	0	8	2	5	1	1	1	0	2	1	1	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:54966533G>A	uc010igp.1	+	1	286	c.22G>A	c.(22-24)GAC>AAC	p.D8N	PDGFRA_uc003haa.2_Intron	NM_133267	NP_573574	Q9BZM3	GSX2_HUMAN	GS homeobox 2	8						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(7;0.00671)|Lung NSC(11;0.0154)|all_neural(26;0.0209)|Glioma(25;0.08)|all_epithelial(27;0.147)		LUSC - Lung squamous cell carcinoma(32;0.00216)			CTTCTATGTCGACTCGCTCAT	0.647													5	15					0	0	1	0	0		A	54966533	A	A	54966533	3	1	16	1	0	0	0	0	1	0	0	0	6866	1058	37	1	24	1	GSX2	4	54966533	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2105343	54966533	136187743	298	11973											
KIAA1211	57482	broad.mit.edu	37	chr4	57181853	57181853	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgcctggcagaaatttTccgatggtggcacggagacc	8	9	13	11	2	0	2	0	0	0	2	1	4	1	2	4	4	2	2	4	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:57181853T>C	uc003hbk.2	+	8	2576	c.2185T>C	c.(2185-2187)TCC>CCC	p.S729P	KIAA1211_uc010iha.2_Missense_Mutation_p.S722P|KIAA1211_uc011bzz.1_Missense_Mutation_p.S639P|KIAA1211_uc003hbm.1_Missense_Mutation_p.S615P	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	729								p.S729S(1)		ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					GCAGAAATTTTCCGATGGTGG	0.572													32	62					0	0	1	0	0		C	57181853	C	C	57181853	3	2	16	1	0	0	0	0	1	0	0	0	8231	1783	62	3	2203	3	KIAA1211	4	57181853	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2215320	57181853	133972423	299	11974											
CSN3	1448	broad.mit.edu	37	chr4	71114781	71114781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgtcccaatgtattatgtgCcaaatagctatccttattat	12	16	5	8	0	0	0	0	0	0	0	2	0	2	0	3	0	2	2	3	0	8	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:71114781C>T	uc003hfe.3	+	4	212	c.154C>T	c.(154-156)CCA>TCA	p.P52S		NM_005212	NP_005203	P07498	CASK_HUMAN	casein kappa precursor	52						extracellular region	protein binding	p.P52A(1)		ovary(2)|kidney(1)|central_nervous_system(1)	4						GTATTATGTGCCAAATAGCTA	0.333													32	66					0	0	1	0	0		T	71114781	T	T	71114781	3	4	16	1	0	0	0	0	1	0	0	0	3952	739	26	2	164	2	CSN3	4	71114781	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	13932928	71114781	120039495	300	11975											
C4orf35	85438	broad.mit.edu	37	chr4	71201047	71201047	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctacagaaagaaattacCtctctgactggcactacaaa	16	8	5	12	0	1	3	0	1	1	2	2	3	1	3	2	1	3	1	2	1	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:71201047C>A	uc003hff.2	+	1	377	c.291C>A	c.(289-291)ACC>ACA	p.T97T		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	97						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				AAGAAATTACCTCTCTGACTG	0.373													21	67					1.22574e-08	1.279e-08	1	1	0		A	71201047	A	A	71201047	2	1	16	1	0	0	0	0	0	0	0	1	2268	668	24	5		5	C4orf35	4	71201047	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	86266	71201047	119953229	301	11976											
GC	2638	broad.mit.edu	37	chr4	72622553	72622553	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaaaaacgtccatggctgTtttttcttgacaacagtctt	11	14	6	10	1	2	1	0	1	2	0	3	1	3	1	1	1	2	2	1	1	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:72622553T>G	uc003hge.2	-	8	1063	c.910A>C	c.(910-912)ACA>CCA	p.T304P	GC_uc003hgd.2_Missense_Mutation_p.T182P|GC_uc010iie.2_Missense_Mutation_p.T304P|GC_uc010iif.2_Missense_Mutation_p.T323P	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	304	Albumin 2.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	TCCATGGCTGTTTTTTCTTGA	0.423													17	40					0	0	1	0	0		G	72622553	G	G	72622553	3	3	16	1	0	0	0	0	1	0	0	0	6297	1725	60	5	534	5	GC	4	72622553	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1421506	72622553	118531723	302	11977											
NAAA	27163	broad.mit.edu	37	chr4	76842177	76842177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgatgaccaccccctcccGgggggacgtgccaccaacaa	9	4	11	17	3	0	2	0	2	0	0	1	3	1	3	6	3	2	0	6	3	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:76842177G>A	uc003hjb.2	-	6	830	c.766C>T	c.(766-768)CGG>TGG	p.R256W	NAAA_uc003hja.2_Missense_Mutation_p.R256W|NAAA_uc003hjc.3_Missense_Mutation_p.R256W|NAAA_uc003hjd.3_RNA|NAAA_uc011cbq.1_Missense_Mutation_p.R155W	NM_014435	NP_055250	Q02083	NAAA_HUMAN	N-acylethanolamine acid amidase isoform 1	256					lipid metabolic process	lysosome	hydrolase activity			skin(1)	1						ACCCCCTCCCGGGGGGACGTG	0.512													32	39					0	0	1	0	0		A	76842177	A	A	76842177	3	1	16	1	0	0	0	0	1	0	0	0	10145	1115	39	1	340	1	NAAA	4	76842177	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4219624	76842177	114312099	303	11978											
SDAD1	55153	broad.mit.edu	37	chr4	76892547	76892547	+	Frame_Shift_Del	DEL	T	-	-																															ccttttccaactttttcttgTttttggaacttttcttccct																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:76892547delT	uc003hje.3	-	9	895	c.776delA	c.(775-777)AACfs	p.N259fs	SDAD1_uc003hjf.3_Frame_Shift_Del_p.N162fs|SDAD1_uc011cbr.1_Frame_Shift_Del_p.N222fs	NM_018115	NP_060585	Q9NVU7	SDA1_HUMAN	SDA1 domain containing 1	259	Potential.				protein transport|ribosomal large subunit biogenesis	nucleolus	protein binding			ovary(1)	1			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			CTTTTTCTTGTTTTTGGAACT	0.368													40	91	---	---	---	---						.	-	76892547	-	-	76892547	7	5	16	1	0	1	0	1	0	0	0	0	13975	1725	60	0	1343	0	SDAD1	4	76892547	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	50370	76892547	114261729	304	11979											
ANKRD56	345079	broad.mit.edu	37	chr4	77817102	77817102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttggctatccagtgcaacGcagtgtacccagtcaaaaag	12	9	10	10	1	1	0	1	0	0	0	2	0	2	0	2	1	3	5	2	1	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:77817102G>A	uc003hki.2	-	1	1901	c.1901C>T	c.(1900-1902)GCG>GTG	p.A634V		NM_001029870	NP_001025041	A6NEL2	ANR56_HUMAN	ankyrin repeat domain 56	634	ANK 1.										0						CCAGTGCAACGCAGTGTACCC	0.522													30	58					0	0	1	0	0		A	77817102	A	A	77817102	3	1	16	1	0	0	0	0	1	0	0	0	682	1087	38	1	484	1	ANKRD56	4	77817102	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	924555	77817102	113337174	305	11980											
FRAS1	80144	broad.mit.edu	37	chr4	79371314	79371314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcttccaagggtctgtagCacgcatcacagaacagcact	11	9	8	13	1	3	1	1	0	2	1	5	1	4	1	1	1	3	4	1	1	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:79371314C>T	uc003hlb.2	+	45	6724	c.6284C>T	c.(6283-6285)GCA>GTA	p.A2095V		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2094	CSPG 9.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						GGGTCTGTAGCACGCATCACA	0.453													28	70					0	0	1	0	0		T	79371314	T	T	79371314	3	4	16	1	0	0	0	0	1	0	0	0	6056	710	25	2	6537	2	FRAS1	4	79371314	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1554212	79371314	111782962	306	11981											
PRDM8	56978	broad.mit.edu	37	chr4	81122567	81122567	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacggacagctgttctacCgctctctccgcaggattgcc	9	9	9	14	3	2	0	0	0	2	0	4	2	3	2	3	2	4	4	3	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:81122567C>T	uc010ijo.2	+	7	1182	c.343C>T	c.(343-345)CGC>TGC	p.R115C	PRDM8_uc003hmb.3_Missense_Mutation_p.R115C|PRDM8_uc003hmc.3_Missense_Mutation_p.R115C	NM_020226	NP_064611	Q9NQV8	PRDM8_HUMAN	PR domain containing 8	115	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GCTGTTCTACCGCTCTCTCCG	0.498													19	48					0	0	1	0	0		T	81122567	T	T	81122567	3	4	16	1	0	0	0	0	1	0	0	0	12484	652	23	1	349	1	PRDM8	4	81122567	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1751253	81122567	110031709	307	11982											
BMP3	651	broad.mit.edu	37	chr4	81952623	81952623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtctctgaacacatgctgcGgctctatgacaggtacagca	10	9	11	11	1	2	2	0	2	2	0	3	2	2	2	0	3	5	4	0	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:81952623G>A	uc003hmg.3	+	1	505	c.185G>A	c.(184-186)CGG>CAG	p.R62Q		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	62					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						CACATGCTGCGGCTCTATGAC	0.687													3	14					0	0	1	0	0		A	81952623	A	A	81952623	3	1	16	1	0	0	0	0	1	0	0	0	1462	1116	39	1	187	1	BMP3	4	81952623	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	830056	81952623	109201653	308	11983											
SLC10A6	345274	broad.mit.edu	37	chr4	87754575	87754575	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacaggttgtcatactgAtgctgaaagtaaaattaata	16	12	9	4	0	1	2	1	2	0	0	1	3	1	3	0	2	3	3	0	2	7	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:87754575A>G	uc003hqd.2	-	2	528	c.380T>C	c.(379-381)ATC>ACC	p.I127T		NM_197965	NP_932069	Q3KNW5	SOAT_HUMAN	sodium-dependent organic anion transporter	127	Cytoplasmic (Potential).					integral to membrane|plasma membrane	bile acid:sodium symporter activity				0		Acute lymphoblastic leukemia(40;0.244)|all_hematologic(202;0.248)		OV - Ovarian serous cystadenocarcinoma(123;0.00099)		TGTCATACTGATGCTGAAAGT	0.438													8	80					0	0	1	0	0		G	87754575	G	G	87754575	3	3	16	1	0	0	0	0	1	0	0	0	14403	333	12	3	773	3	SLC10A6	4	87754575	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	5801952	87754575	103399701	309	11984											
KLHL8	57563	broad.mit.edu	37	chr4	88091757	88091757	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcctaaggaagccaaggCaattcctcgcctgcaaagac	12	6	9	14	1	0	1	0	0	0	1	3	2	2	2	5	2	2	2	5	2	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:88091757C>T	uc011cdb.1	-	7	1604	c.1219G>A	c.(1219-1221)GCC>ACC	p.A407T	KLHL8_uc003hql.1_Missense_Mutation_p.A407T|KLHL8_uc003hqm.1_Missense_Mutation_p.A331T|KLHL8_uc003hqn.1_Missense_Mutation_p.A224T|KLHL8_uc010ikj.1_Missense_Mutation_p.A56T	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8	407	Kelch 2.										0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		GAAGCCAAGGCAATTCCTCGC	0.358													18	61					0	0	1	0	0		T	88091757	T	T	88091757	3	4	16	1	0	0	0	0	1	0	0	0	8411	710	25	2	659	2	KLHL8	4	88091757	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	337182	88091757	103062519	310	11985											
HERC5	51191	broad.mit.edu	37	chr4	89388315	89388315	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacgtgaccagctgatgccGcttccagtgaaagtatcatc	11	9	9	12	2	1	3	1	3	0	0	3	3	2	3	3	0	2	3	3	0	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:89388315G>A	uc003hrt.2	+	7	1170	c.1017G>A	c.(1015-1017)CCG>CCA	p.P339P	HERC5_uc011cdm.1_5'Flank	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	339	RCC1 5.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		AGCTGATGCCGCTTCCAGTGA	0.393													34	74					0	0	1	0	0		A	89388315	A	A	89388315	2	1	16	1	0	0	0	0	0	0	0	1	7077	1074	38	1		1	HERC5	4	89388315	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1296558	89388315	101765961	311	11986											
PDHA2	5161	broad.mit.edu	37	chr4	96761964	96761964	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtgttttcatctgtgaGaataacctatatggaatggg	10	15	10	6	0	2	1	1	1	1	1	2	3	2	2	2	2	1	1	2	2	5	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:96761964G>T	uc003htr.3	+	1	726	c.663G>T	c.(661-663)GAG>GAT	p.E221D		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	221					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	TCATCTGTGAGAATAACCTAT	0.453													10	46					0.000151284	0.000154264	1	1	0		T	96761964	T	T	96761964	3	4	16	1	0	0	0	0	1	0	0	0	11684	933	33	5	665	5	PDHA2	4	96761964	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	7373649	96761964	94392312	312	11987											
TSPAN5	10098	broad.mit.edu	37	chr4	99397385	99397385	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataccagcaacgatggttaaAttgtcctgcaaccacttctc	12	11	6	12	1	1	0	0	0	1	0	3	1	2	0	3	1	5	3	3	1	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:99397385A>T	uc003hub.2	-	7	1046	c.696T>A	c.(694-696)AAT>AAA	p.N232K	TSPAN5_uc011cdz.1_Missense_Mutation_p.N161K	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	232	Extracellular (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)		CGATGGTTAAATTGTCCTGCA	0.458													13	67					0	0	1	0	0		T	99397385	T	T	99397385	3	4	16	1	0	0	0	0	1	0	0	0	16676	98	4	5	118	5	TSPAN5	4	99397385	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	2635421	99397385	91756891	313	11988											
CASP6	839	broad.mit.edu	37	chr4	110618908	110618908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtccattttgtacttttctgCcggatcaaacatttctctgt	7	18	6	10	1	3	0	1	0	2	0	5	1	4	1	2	1	3	1	2	1	2	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:110618908C>T	uc003hzn.1	-	3	178	c.100G>A	c.(100-102)GCA>ACA	p.A34T	CASP6_uc003hzo.1_Intron	NM_001226	NP_001217	P55212	CASP6_HUMAN	caspase 6 isoform alpha preproprotein	34					cellular component disassembly involved in apoptosis|induction of apoptosis|proteolysis	cytosol|nucleoplasm	cysteine-type endopeptidase activity|protein binding			ovary(1)|breast(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000171)		TACTTTTCTGCCGGATCAAAC	0.398													5	53					0	0	1	0	0		T	110618908	T	T	110618908	3	4	16	1	0	0	0	0	1	0	0	0	2678	739	26	2	801	2	CASP6	4	110618908	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	11221523	110618908	80535368	314	11989											
RRH	10692	broad.mit.edu	37	chr4	110757242	110757242	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgttttgggctttgatgccTatcatagggtgggctagtta	6	16	13	6	0	1	1	1	1	0	0	1	1	1	1	1	3	1	4	1	3	4	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:110757242T>C	uc003hzv.2	+	4	511	c.477T>C	c.(475-477)CCT>CCC	p.P159P		NM_006583	NP_006574	O14718	OPSX_HUMAN	peropsin	159	Helical; Name=4; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00109)		CTTTGATGCCTATCATAGGGT	0.438													44	109					0	0	1	0	0		C	110757242	C	C	110757242	2	2	16	1	0	0	0	0	0	0	0	1	13705	1509	53	3		3	RRH	4	110757242	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	138334	110757242	80397034	315	11990											
AP1AR	55435	broad.mit.edu	37	chr4	113189356	113189356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaacagaggaagacattctaCgggcagcacttaagtatagc	16	7	10	8	1	1	2	0	0	1	2	1	3	1	3	0	2	4	3	0	2	6	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:113189356C>T	uc003iaj.3	+	10	1053	c.700C>T	c.(700-702)CGG>TGG	p.R234W	AP1AR_uc003iak.3_Missense_Mutation_p.R201W	NM_018569	NP_061039	Q63HQ0	AP1AR_HUMAN	adaptor-related protein complex 1 associated	234					protein transport	early endosome|Golgi apparatus|late endosome|transport vesicle					0						AGACATTCTACGGGCAGCACT	0.388													33	57					0	0	1	0	0		T	113189356	T	T	113189356	3	4	16	1	0	0	0	0	1	0	0	0	730	527	19	1	738	1	AP1AR	4	113189356	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2432114	113189356	77964920	316	11991											
C4orf21	55345	broad.mit.edu	37	chr4	113462250	113462250	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacattaatgtcatttacctGttctagtcctttaacattat	12	18	3	8	0	2	0	1	0	1	0	3	0	3	0	2	0	3	1	2	0	6	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:113462250G>C	uc003iau.2	-	25	5984	c.5773C>G	c.(5773-5775)CAG>GAG	p.Q1925E	C4orf21_uc003iav.2_RNA|C4orf21_uc003iat.2_Missense_Mutation_p.Q383E	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	747						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		TCATTTACCTGTTCTAGTCCT	0.363													3	6					0	0	1	0	0		C	113462250	C	C	113462250	3	2	16	1	0	0	0	0	1	0	0	0	2257	1386	48	5	557	5	C4orf21	4	113462250	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	272894	113462250	77692026	317	11992											
KIAA1109	84162	broad.mit.edu	37	chr4	123120560	123120560	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttacatgtggatgccacTaccagcatgcaatatcggac	11	10	8	12	1	1	0	0	0	1	0	2	2	1	2	2	2	5	2	2	2	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:123120560T>C	uc003ieh.2	+	12	1380	c.1335T>C	c.(1333-1335)ACT>ACC	p.T445T	KIAA1109_uc003iei.1_Silent_p.T199T|KIAA1109_uc010ins.1_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	445					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TGGATGCCACTACCAGCATGC	0.328													23	63					0	0	1	0	0		C	123120560	C	C	123120560	2	2	16	1	0	0	0	0	0	0	0	1	8224	1509	53	3		3	KIAA1109	4	123120560	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	9658310	123120560	68033716	318	11993											
FAT4	79633	broad.mit.edu	37	chr4	126238642	126238642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaagttccgctacttccCggccacctcgcgctacgcct	6	9	9	17	5	0	1	0	1	0	0	3	1	2	1	5	1	2	3	5	1	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:126238642C>T	uc003ifj.3	+	1	1076	c.1076C>T	c.(1075-1077)CCG>CTG	p.P359L		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	359	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CGCTACTTCCCGGCCACCTCG	0.632											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	40					0	0	1	0	0		T	126238642	T	T	126238642	3	4	16	1	0	0	0	0	1	0	0	0	5706	652	23	1	1078	1	FAT4	4	126238642	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3118082	126238642	64915634	319	11994											
KLHL2	11275	broad.mit.edu	37	chr4	166238981	166238981	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtaattttttaaaggagTttgtgcagttaatggtctgt	9	19	10	3	0	2	0	0	0	2	0	2	1	2	1	0	2	1	4	0	2	4	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:166238981T>G	uc003irb.2	+	14	1872	c.1613T>G	c.(1612-1614)GTT>GGT	p.V538G	KLHL2_uc011cjm.1_Missense_Mutation_p.V542G|KLHL2_uc003irc.2_Missense_Mutation_p.V450G|KLHL2_uc010ira.2_Missense_Mutation_p.V191G	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	538	Kelch 5.				intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		TTTAAAGGAGTTTGTGCAGTT	0.343													36	68					0	0	1	0	0		G	166238981	G	G	166238981	3	3	16	1	0	0	0	0	1	0	0	0	8390	1725	60	5	1709	5	KLHL2	4	166238981	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	40000339	166238981	24915295	320	11995											
SPOCK3	50859	broad.mit.edu	37	chr4	167675677	167675677	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttgctgtctctggaagcAgtagcaccactcattattag	10	12	8	11	0	2	0	1	0	1	0	3	1	2	1	2	1	3	4	2	1	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:167675677A>C	uc003iri.1	-	9	1063	c.922T>G	c.(922-924)TGC>GGC	p.C308G	SPOCK3_uc011cjp.1_Missense_Mutation_p.C265G|SPOCK3_uc011cjq.1_Missense_Mutation_p.C317G|SPOCK3_uc011cjr.1_Missense_Mutation_p.C188G|SPOCK3_uc003irj.1_Missense_Mutation_p.C305G|SPOCK3_uc011cjs.1_Missense_Mutation_p.C257G|SPOCK3_uc011cjt.1_Missense_Mutation_p.C216G|SPOCK3_uc011cju.1_Missense_Mutation_p.C201G|SPOCK3_uc011cjv.1_Missense_Mutation_p.C210G|SPOCK3_uc003irk.3_Missense_Mutation_p.C305G	NM_016950	NP_058646	Q9BQ16	TICN3_HUMAN	testican 3 isoform 2	308					signal transduction	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase inhibitor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)		CTCTGGAAGCAGTAGCACCAC	0.348													34	24					0	0	1	0	0		C	167675677	C	C	167675677	3	2	16	1	0	0	0	0	1	0	0	0	15106	188	7	5	404	5	SPOCK3	4	167675677	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1436696	167675677	23478599	321	11996											
DDX60	55601	broad.mit.edu	37	chr4	169190007	169190007	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaacttaatgcctactcGgtgagatgttcaggattact	11	14	9	7	1	1	2	1	2	0	1	2	4	1	3	1	2	4	1	1	2	4	5	rs145361158		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:169190007G>A	uc003irp.2	-	20	3076	c.2784C>T	c.(2782-2784)ACC>ACT	p.T928T		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	928	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		ATGCCTACTCGGTGAGATGTT	0.368													22	43					0	0	1	0	0		A	169190007	A	A	169190007	2	1	16	1	0	0	0	0	0	0	0	1	4381	1103	39	1		1	DDX60	4	169190007	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1514330	169190007	21964269	322	11997											
PALLD	23022	broad.mit.edu	37	chr4	169812119	169812119	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctagaatagcctccgatGaggaaattcaaggcacaaag	15	7	10	9	1	1	2	1	1	0	1	2	4	2	3	2	2	2	2	2	2	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:169812119G>T	uc011cjx.1	+	11	2222	c.2011G>T	c.(2011-2013)GAG>TAG	p.E671*	CBR4_uc011cjy.1_Intron|PALLD_uc003iru.2_Nonsense_Mutation_p.E671*|PALLD_uc003irv.2_Nonsense_Mutation_p.E289*|PALLD_uc003irw.2_Nonsense_Mutation_p.E173*	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2	895					cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)		AGCCTCCGATGAGGAAATTCA	0.443									Pancreatic_Cancer_Familial_Clustering_of				34	71					3.11337e-16	3.35863e-16	1	1	0		T	169812119	T	T	169812119	4	4	16	1	0	0	0	0	0	1	0	0	11426	1291	45	5	2556	5	PALLD	4	169812119	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	622112	169812119	21342157	323	11998											
NEK1	4750	broad.mit.edu	37	chr4	170345785	170345785	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttattttttggtggtaaatgCgagtgagatcgaaatgcaaa	13	14	11	3	2	0	1	0	1	0	1	1	4	0	1	0	2	2	2	0	2	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:170345785C>T	uc003isb.1	-	29	3549	c.3057G>A	c.(3055-3057)TCG>TCA	p.S1019S	NEK1_uc003isc.1_Silent_p.S975S|NEK1_uc003isd.1_Silent_p.S1047S|NEK1_uc003ise.1_Silent_p.S1003S|NEK1_uc003isf.1_Silent_p.S950S	NM_012224	NP_036356	Q96PY6	NEK1_HUMAN	NIMA-related kinase 1	1019					cell division|cilium assembly|mitosis	nucleus|pericentriolar material	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(3)|ovary(2)|large_intestine(1)	6		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)|KIRC - Kidney renal clear cell carcinoma(143;0.0325)|Kidney(143;0.0385)|LUSC - Lung squamous cell carcinoma(193;0.14)		GTGGTAAATGCGAGTGAGATC	0.393													42	19					0	0	1	0	0		T	170345785	T	T	170345785	2	4	16	1	0	0	0	0	0	0	0	1	10340	755	27	1		1	NEK1	4	170345785	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	533666	170345785	20808491	324	11999											
FBXO8	26269	broad.mit.edu	37	chr4	175183955	175183955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcgcaaggtcctgccaaaCacatgaagccaagcaaaggt	15	6	9	11	1	0	1	0	1	0	0	2	1	1	1	3	2	4	2	3	2	5	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:175183955C>T	uc003itp.2	-	2	1139	c.289G>A	c.(289-291)GTT>ATT	p.V97I	FBXO8_uc003itq.2_Intron	NM_012180	NP_036312	Q9NRD0	FBX8_HUMAN	F-box only protein 8	97	F-box.				regulation of ARF protein signal transduction|ubiquitin-dependent protein catabolic process	cytoplasm|ubiquitin ligase complex	ARF guanyl-nucleotide exchange factor activity			breast(2)	2		Prostate(90;0.00201)|Melanoma(52;0.012)|Renal(120;0.0183)|all_neural(102;0.0887)|all_hematologic(60;0.107)		all cancers(43;7.29e-18)|Epithelial(43;1.85e-15)|OV - Ovarian serous cystadenocarcinoma(60;5.62e-09)|GBM - Glioblastoma multiforme(59;0.00115)|STAD - Stomach adenocarcinoma(60;0.00299)|LUSC - Lung squamous cell carcinoma(193;0.1)		TCCTGCCAAACACATGAAGCC	0.413													29	45					0	0	1	0	0		T	175183955	T	T	175183955	3	4	16	1	0	0	0	0	1	0	0	0	5775	478	17	4	690	4	FBXO8	4	175183955	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4838170	175183955	15970321	325	12000											
KIAA1712	80817	broad.mit.edu	37	chr4	175231156	175231158	+	In_Frame_Del	DEL	TCT	-	-																															gatgaaaacacctggactaaTcttcttagtcgtgtcactct																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:175231156_175231158delTCT	uc003itr.2	+	8	1248_1250	c.834_836delTCT	c.(832-837)AATCTT>AAT	p.L280del	KIAA1712_uc010iro.2_In_Frame_Del_p.L280del|KIAA1712_uc003its.2_RNA	NM_001040157	NP_001035247	Q9C0F1	CEP44_HUMAN	HBV PreS1-transactivated protein 3 isoform a	280						centrosome|midbody|spindle pole					0		Prostate(90;0.00276)|Melanoma(52;0.0179)|Renal(120;0.0376)|Breast(14;0.0991)|all_hematologic(60;0.124)|all_neural(102;0.196)		all cancers(43;4.06e-18)|Epithelial(43;1.18e-15)|OV - Ovarian serous cystadenocarcinoma(60;4.65e-09)|GBM - Glioblastoma multiforme(59;0.00098)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0949)		CCTGGACTAATCTTCTTAGTCGT	0.305													34	75	---	---	---	---						.	-	175231158	-	-	175231156	7	5	16	1	0	1	0	1	0	0	0	0	8269	1432	50	0	856	0	KIAA1712	4	175231156	In_Frame_Del	DEL	TCT	TCGA-BR-4292-01A-01D-1126-08	47201	175231156	15923120	326	12001											
ODZ3	55714	broad.mit.edu	37	chr4	183600990	183600990	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctttttataatgatgggAaaaatgcagagcaggtgtct	12	13	12	4	0	1	2	0	1	1	1	1	3	1	3	0	3	2	3	0	3	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:183600990A>G	uc003ivd.1	+	7	1535	c.1498A>G	c.(1498-1500)AAA>GAA	p.K500E	ODZ3_uc003ive.1_5'Flank	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	500	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TAATGATGGGAAAAATGCAGA	0.448													6	6					0	0	1	0	0		G	183600990	G	G	183600990	3	3	16	1	0	0	0	0	1	0	0	0	10855	247	9	3	1524	3	ODZ3	4	183600990	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	8369834	183600990	7553286	327	12002											
IRF2	3660	broad.mit.edu	37	chr4	185339687	185339687	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctgtaaatgcctttaccTttcttagaaggccgttctga	9	15	8	9	1	3	2	0	1	3	1	3	2	3	2	3	1	2	2	3	1	5	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:185339687T>C	uc003iwf.3	-	4	563	c.363A>G	c.(361-363)AAA>AAG	p.K121K		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	121					blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		TGCCTTTACCTTTCTTAGAAG	0.398													43	20					0	0	1	0	0		C	185339687	C	C	185339687	2	2	16	1	0	0	0	0	0	0	0	1	7844	1623	56	3		3	IRF2	4	185339687	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1738697	185339687	5814589	328	12003											
MTNR1A	4543	broad.mit.edu	37	chr4	187455100	187455100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcctaggcaccatgctggCggggtcagaggccacggcca	8	5	15	13	2	1	1	1	0	0	1	2	2	2	1	4	6	1	2	4	6	1	1	rs148793802		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr4:187455100C>T	uc003izd.1	-	2	814	c.796G>A	c.(796-798)GCC>ACC	p.A266T		NM_005958	NP_005949	P48039	MTR1A_HUMAN	melatonin receptor 1A	266	Extracellular (Potential).				circadian rhythm|G-protein signaling, coupled to cyclic nucleotide second messenger|mating behavior	integral to plasma membrane	melatonin receptor activity			ovary(1)|skin(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5		all_cancers(14;6.39e-56)|all_epithelial(14;1.48e-41)|all_lung(41;2.45e-15)|Lung NSC(41;7.26e-15)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00335)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|Renal(120;0.0183)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;7.63e-12)|BRCA - Breast invasive adenocarcinoma(30;6.68e-07)|GBM - Glioblastoma multiforme(59;3.44e-05)|LUSC - Lung squamous cell carcinoma(40;0.000106)|STAD - Stomach adenocarcinoma(60;0.000279)|READ - Rectum adenocarcinoma(43;0.159)	Melatonin(DB01065)|Ramelteon(DB00980)	ACCATGCTGGCGGGGTCAGAG	0.507													61	21					0	0	1	0	0		T	187455100	T	T	187455100	3	4	16	1	0	0	0	0	1	0	0	0	9969	768	27	1	260	1	MTNR1A	4	187455100	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2115413	187455100	3699176	329	12004											
SLC9A3	6550	broad.mit.edu	37	chr5	488455	488455	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgactgcgtcgttcagcagCgactccccgaagacgatgat	9	8	12	12	5	1	3	1	2	0	1	3	6	2	3	2	0	3	2	2	0	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:488455C>T	uc003jbe.2	-	3	763	c.651G>A	c.(649-651)TCG>TCA	p.S217S	SLC9A3_uc011clx.1_Silent_p.S217S	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	217	Helical; Name=G/M5B; (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CGTTCAGCAGCGACTCCCCGA	0.667													19	23					0	0	1	0	0		T	488455	T	T	488455	2	4	16	1	0	0	0	0	0	0	0	1	14738	755	27	1		1	SLC9A3	5	488455	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08		488455	180426805	330	12005											
LPCAT1	79888	broad.mit.edu	37	chr5	1466903	1466903	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcttggtcaatggctcGgaataggtcggtcacggtga	7	11	13	10	3	3	1	2	1	1	0	6	2	4	2	1	6	0	1	1	6	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:1466903G>A	uc003jcm.2	-	13	1498	c.1381C>T	c.(1381-1383)CGA>TGA	p.R461*	LPCAT1_uc003jcl.2_Nonsense_Mutation_p.R35*	NM_024830	NP_079106	Q8NF37	PCAT1_HUMAN	lysophosphatidylcholine acyltransferase 1	461	Lumenal (Potential).|EF-hand 2.				phospholipid biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(19;0.0274)|all cancers(22;0.0534)	GBM - Glioblastoma multiforme(108;0.156)		TCAATGGCTCGGAATAGGTCG	0.647													7	56					0	0	1	0	0		A	1466903	A	A	1466903	4	1	16	1	0	0	0	0	0	1	0	0	8928	1124	39	1	231	1	LPCAT1	5	1466903	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	978448	1466903	179448357	331	12006											
IRX4	50805	broad.mit.edu	37	chr5	1878859	1878859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcttccagcgggtcgaagtCgtccaagtcactaagctcca	9	9	10	13	3	1	0	1	0	0	0	6	1	4	0	3	1	3	2	3	1	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:1878859C>T	uc003jcz.2	-	5	903	c.784G>A	c.(784-786)GAC>AAC	p.D262N	IRX4_uc011cmf.1_Missense_Mutation_p.D123N	NM_016358	NP_057442	P78413	IRX4_HUMAN	iroquois homeobox 4	262					heart development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(108;0.242)		GGGTCGAAGTCGTCCAAGTCA	0.672													5	21					0	0	1	0	0		T	1878859	T	T	1878859	3	4	16	1	0	0	0	0	1	0	0	0	7862	884	31	1	779	1	IRX4	5	1878859	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	411956	1878859	179036401	332	12007											
C5orf38	153571	broad.mit.edu	37	chr5	2752844	2752844	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaggagctcaggttggcGccgccggtgcagtgggcatt	5	7	19	10	3	1	0	1	0	0	0	1	1	1	1	2	6	2	5	2	6	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:2752844G>A	uc003jdc.2	+	2	426	c.309G>A	c.(307-309)GCG>GCA	p.A103A	C5orf38_uc011cmg.1_Silent_p.A103A|C5orf38_uc011cmh.1_RNA|C5orf38_uc011cmi.1_RNA|C5orf38_uc011cmj.1_Intron	NM_178569	NP_848664	Q86SI9	CEI_HUMAN	hypothetical protein LOC153571 precursor	103						extracellular region					0				GBM - Glioblastoma multiforme(108;0.205)		TCAGGTTGGCGCCGCCGGTGC	0.642													11	26					0	0	1	0	0		A	2752844	A	A	2752844	2	1	16	1	0	0	0	0	0	0	0	1	2299	1074	38	1		1	C5orf38	5	2752844	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	873985	2752844	178162416	333	12008											
ADCY2	108	broad.mit.edu	37	chr5	7709334	7709334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaccccaagggagaacgacGgagcccccagcatctcttca	11	5	9	16	2	3	1	2	0	1	1	4	4	3	2	4	2	3	1	4	2	2	1	rs141886153	by1000genomes	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:7709334G>A	uc003jdz.1	+	10	1479	c.1412G>A	c.(1411-1413)CGG>CAG	p.R471Q	ADCY2_uc011cmo.1_Missense_Mutation_p.R291Q	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	471	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						GGAGAACGACGGAGCCCCCAG	0.587													18	35					0	0	1	0	0		A	7709334	A	A	7709334	3	1	16	1	0	0	0	0	1	0	0	0	294	1116	39	1	1450	1	ADCY2	5	7709334	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4956490	7709334	173205926	334	12009											
ANKH	56172	broad.mit.edu	37	chr5	14769138	14769138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaccaccatacacaggaCggctttggtcctgtctctct	7	11	8	15	1	2	0	0	0	2	0	4	1	3	1	4	3	2	1	4	3	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:14769138C>T	uc003jfm.3	-	2	590	c.259G>A	c.(259-261)GTC>ATC	p.V87I		NM_054027	NP_473368	Q9HCJ1	ANKH_HUMAN	progressive ankylosis protein	87	Helical; (Potential).				locomotory behavior|regulation of bone mineralization|skeletal system development	integral to plasma membrane|outer membrane	inorganic diphosphate transmembrane transporter activity|inorganic phosphate transmembrane transporter activity			upper_aerodigestive_tract(1)	1						ATACACAGGACGGCTTTGGTC	0.547													14	24					0	0	1	0	0		T	14769138	T	T	14769138	3	4	16	1	0	0	0	0	1	0	0	0	627	536	19	1	1263	1	ANKH	5	14769138	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7059804	14769138	166146122	335	12010											
CDH6	1004	broad.mit.edu	37	chr5	31294199	31294199	+	Frame_Shift_Del	DEL	A	-	-																															caagaggctggacagggaagAaaaacccgtttacatccttc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:31294199delA	uc003jhe.1	+	3	685	c.359delA	c.(358-360)GAAfs	p.E120fs	CDH6_uc003jhd.1_Frame_Shift_Del_p.E120fs	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	120	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						GACAGGGAAGAAAAACCCGTT	0.448													56	112	---	---	---	---						.	-	31294199	-	-	31294199	7	5	16	1	0	1	0	1	0	0	0	0	3117	246	9	0	365	0	CDH6	5	31294199	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	16525061	31294199	149621061	336	12011											
MTMR12	54545	broad.mit.edu	37	chr5	32230244	32230244	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgggcccctcgatatgcggTaacaacaaaccatggtagtc	11	8	10	12	3	0	0	0	0	0	0	3	1	0	0	3	3	4	2	3	3	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:32230244T>C	uc003jhq.2	-	16	2054	c.1884A>G	c.(1882-1884)TTA>TTG	p.L628L	MTMR12_uc010iuk.2_Silent_p.L574L|MTMR12_uc010iul.2_Silent_p.L518L	NM_001040446	NP_001035536	Q9C0I1	MTMRC_HUMAN	myotubularin related protein 12	628	Myotubularin phosphatase.					cytoplasm	phosphatase activity			ovary(1)	1						CGATATGCGGTAACAACAAAC	0.488													42	93					0	0	1	0	0		C	32230244	C	C	32230244	2	2	16	1	0	0	0	0	0	0	0	1	9959	1635	57	3		3	MTMR12	5	32230244	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	936045	32230244	148685016	337	12012											
ZFR	51663	broad.mit.edu	37	chr5	32404048	32404048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgaatgtgggcagcatacGcatctgctcctgtacaagac	11	8	10	12	2	1	1	0	0	1	1	2	2	2	1	1	1	4	5	1	1	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:32404048G>A	uc003jhr.1	-	7	1267	c.1187C>T	c.(1186-1188)GCG>GTG	p.A396V		NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	396					multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		GGCAGCATACGCATCTGCTCC	0.448													30	44					0	0	1	0	0		A	32404048	A	A	32404048	3	1	16	1	0	0	0	0	1	0	0	0	17684	1087	38	1	2093	1	ZFR	5	32404048	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	173804	32404048	148511212	338	12013											
RAI14	26064	broad.mit.edu	37	chr5	34824014	34824014	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaactgatgcaattgacaaaCgtgtccagggctaaagcaga	16	7	10	8	1	0	3	0	2	0	1	1	3	1	3	1	1	4	3	1	1	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:34824014C>T	uc003jir.2	+	15	2263	c.2067C>T	c.(2065-2067)AAC>AAT	p.N689N	RAI14_uc010iur.2_Silent_p.N660N|RAI14_uc011coj.1_Silent_p.N689N|RAI14_uc003jis.2_Silent_p.N692N|RAI14_uc003jit.2_Silent_p.N689N|RAI14_uc011cok.1_Silent_p.N681N	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	689	Potential.					cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					AATTGACAAACGTGTCCAGGG	0.438													10	63					0	0	1	0	0		T	34824014	T	T	34824014	2	4	16	1	0	0	0	0	0	0	0	1	13033	535	19	1		1	RAI14	5	34824014	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2419966	34824014	146091246	339	12014											
HEATR7B2	133558	broad.mit.edu	37	chr5	41009422	41009422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtcatcttctaactcaGtctccagtttgtctattaag	9	16	6	10	1	6	0	2	0	4	0	7	1	6	0	1	0	1	1	1	0	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:41009422G>A	uc003jmj.3	-	32	3870	c.3380C>T	c.(3379-3381)ACT>ATT	p.T1127I	HEATR7B2_uc003jmi.3_Missense_Mutation_p.T682I	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1127	HEAT 12.						binding			ovary(6)|central_nervous_system(2)	8						TTCTAACTCAGTCTCCAGTTT	0.498													35	69					0	0	1	0	0		A	41009422	A	A	41009422	3	1	16	1	0	0	0	0	1	0	0	0	7051	1029	36	4	1421	4	HEATR7B2	5	41009422	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6185408	41009422	139905838	340	12015											
C6	729	broad.mit.edu	37	chr5	41203323	41203323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaagtacaagacagagcGtctggccatgccttgagagc	12	7	13	9	1	1	4	0	2	1	3	1	6	1	4	2	1	4	1	2	1	3	2	rs150931891	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:41203323G>A	uc003jmk.2	-	2	220	c.10C>T	c.(10-12)CGC>TGC	p.R4C	C6_uc003jml.1_Missense_Mutation_p.R4C	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	4					complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				AAGACAGAGCGTCTGGCCATG	0.463													27	82					0	0	1	0	0		A	41203323	A	A	41203323	3	1	16	1	0	0	0	0	1	0	0	0	2318	1145	40	1	2862	1	C6	5	41203323	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	193901	41203323	139711937	341	12016											
MGC42105	167359	broad.mit.edu	37	chr5	43280635	43280635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattacagaagagcatattcGaaataaccaagggagagatg	18	7	10	6	1	0	3	0	0	0	3	1	6	0	4	1	1	3	1	1	1	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:43280635G>A	uc003jno.2	+	4	1996	c.1115G>A	c.(1114-1116)CGA>CAA	p.R372Q		NM_153361	NP_699192	Q8IY84	NIM1_HUMAN	serine/threonine-protein kinase NIM1	372							ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.R372*(2)		lung(4)|ovary(2)|stomach(1)|large_intestine(1)|breast(1)	9						GAGCATATTCGAAATAACCAA	0.423													20	130					0	0	1	0	0		A	43280635	A	A	43280635	3	1	16	1	0	0	0	0	1	0	0	0	9570	1058	37	1	1125	1	MGC42105	5	43280635	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2077312	43280635	137634625	342	12017											
PELO	53918	broad.mit.edu	37	chr5	52096812	52096812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtccaggctatccagcGccacatacactttgatgttg	8	11	11	11	1	0	1	0	1	0	0	2	1	2	1	3	3	2	2	3	3	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:52096812G>A	uc003jos.2	+	2	1569	c.584G>A	c.(583-585)CGC>CAC	p.R195H	ITGA1_uc003jov.2_Intron|ITGA1_uc003jou.2_Intron|PELO_uc003jot.1_Intron	NM_015946	NP_057030	Q9BRX2	PELO_HUMAN	pelota homolog	195					cell cycle|cell division|translation	cytoplasm|nucleus	endonuclease activity|metal ion binding|protein binding				0		Lung NSC(810;4.94e-05)|Breast(144;0.0848)				GCTATCCAGCGCCACATACAC	0.522													20	28					0	0	1	0	0		A	52096812	A	A	52096812	3	1	16	1	0	0	0	0	1	0	0	0	11743	1087	38	1	586	1	PELO	5	52096812	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	8816177	52096812	128818448	343	12018											
HTR1A	3350	broad.mit.edu	37	chr5	63256991	63256991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccttgctaatggtgcatgCgtcggggtccgagcggtctt	5	12	14	10	4	1	0	0	0	1	0	4	1	3	0	2	4	4	2	2	4	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:63256991C>T	uc011cqt.1	-	1	556	c.556G>A	c.(556-558)GCA>ACA	p.A186T		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	186	Extracellular (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	ATGGTGCATGCGTCGGGGTCC	0.572													38	45					0	0	1	0	0		T	63256991	T	T	63256991	3	4	16	1	0	0	0	0	1	0	0	0	7452	768	27	1	715	1	HTR1A	5	63256991	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	11160179	63256991	117658269	344	12019											
SFRS12	140890	broad.mit.edu	37	chr5	65473381	65473381	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagagagaaaaagaaagggaCcacatcagtgaaagaagaga	23	2	12	4	0	1	6	1	1	0	5	1	9	1	7	1	1	0	0	1	1	6	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:65473381C>T	uc003juo.2	+	12	1932	c.1272C>T	c.(1270-1272)GAC>GAT	p.D424D	SFRS12_uc003jun.2_Silent_p.D540D|SFRS12_uc010iwy.2_Silent_p.D423D	NM_139168	NP_631907	Q8WXA9	SREK1_HUMAN	splicing factor, arginine/serine-rich 12 isoform	424	Arg/Glu/Lys/Ser-rich.				mRNA processing|RNA splicing	spliceosomal complex	nucleic acid binding|nucleotide binding|protein binding				0		Lung NSC(167;9.34e-06)|Prostate(74;0.00187)|Ovarian(174;0.0545)|Breast(144;0.0928)|Colorectal(97;0.234)		Lung(70;0.00449)		AAGAAAGGGACCACATCAGTG	0.333													36	51					0	0	1	0	0		T	65473381	T	T	65473381	2	4	16	1	0	0	0	0	0	0	0	1	14192	506	18	4		4	SFRS12	5	65473381	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2216390	65473381	115441879	345	12020											
ZNF366	167465	broad.mit.edu	37	chr5	71756348	71756348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtgctgcatcatgtggcGcttcaggtggctggtctggg	3	12	17	9	1	3	0	2	0	1	0	3	0	3	0	0	5	2	5	0	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:71756348G>A	uc003kce.1	-	2	1162	c.976C>T	c.(976-978)CGC>TGC	p.R326C		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	326	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		ATCATGTGGCGCTTCAGGTGG	0.657													18	22					0	0	1	0	0		A	71756348	A	A	71756348	3	1	16	1	0	0	0	0	1	0	0	0	17895	1087	38	1	1274	1	ZNF366	5	71756348	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6282967	71756348	109158912	346	12021											
FCHO2	115548	broad.mit.edu	37	chr5	72377779	72377779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagtggatggaggagtaaCgaacatgcagtcccttcccc	11	7	11	12	1	0	0	0	0	0	0	2	4	2	3	4	3	3	2	4	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:72377779C>T	uc003kcl.2	+	23	2266	c.2150C>T	c.(2149-2151)ACG>ATG	p.T717M	FCHO2_uc011csl.1_Missense_Mutation_p.T684M|FCHO2_uc010izb.2_Missense_Mutation_p.T145M|FCHO2_uc011csn.1_Missense_Mutation_p.T145M	NM_138782	NP_620137	Q0JRZ9	FCHO2_HUMAN	FCH domain only 2 isoform a	717										ovary(1)	1		Lung NSC(167;0.0465)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;4.6e-53)		GGAGGAGTAACGAACATGCAG	0.423													44	83					0	0	1	0	0		T	72377779	T	T	72377779	3	4	16	1	0	0	0	0	1	0	0	0	5802	536	19	1	2240	1	FCHO2	5	72377779	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	621431	72377779	108537481	347	12022											
UTP15	84135	broad.mit.edu	37	chr5	72868406	72868406	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaccgtgacatgtttatgtCtaagcagctctggacagagg	12	10	11	8	1	2	2	0	1	2	1	2	3	2	3	1	2	3	3	1	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:72868406C>T	uc003kcw.1	+	7	989	c.766C>T	c.(766-768)CTA>TTA	p.L256L	UTP15_uc011cso.1_Silent_p.L237L|UTP15_uc011csp.1_Silent_p.L66L|UTP15_uc010ize.1_Silent_p.L256L	NM_032175	NP_115551	Q8TED0	UTP15_HUMAN	UTP15, U3 small nucleolar ribonucleoprotein,	256	WD 6.				rRNA processing	cytoplasm|nucleolus					0		Lung NSC(167;0.00405)|Ovarian(174;0.0129)		OV - Ovarian serous cystadenocarcinoma(47;7.76e-55)		ATGTTTATGTCTAAGCAGCTC	0.353													52	94					0	0	1	0	0		T	72868406	T	T	72868406	2	4	16	1	0	0	0	0	0	0	0	1	17123	912	32	4		4	UTP15	5	72868406	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	490627	72868406	108046854	348	12023											
HOMER1	9456	broad.mit.edu	37	chr5	78697766	78697766	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttgataggcagcaagttGctgtttccattgtttcacat	8	16	8	9	0	2	1	1	1	1	0	3	1	3	1	1	1	2	6	1	1	2	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:78697766G>A	uc003kfy.2	-	6	1743	c.640C>T	c.(640-642)CAA>TAA	p.Q214*	HOMER1_uc010jab.2_Intron|HOMER1_uc010jac.2_Intron|HOMER1_uc010jad.2_Nonsense_Mutation_p.Q40*	NM_004272	NP_004263	Q86YM7	HOME1_HUMAN	homer 1	214	Potential.				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic density|postsynaptic membrane					0		Lung NSC(167;0.00131)|all_lung(232;0.00151)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.87e-44)|Epithelial(54;7.07e-41)|all cancers(79;5.5e-36)		GCAGCAAGTTGCTGTTTCCAT	0.478													23	82					0	0	1	0	0		A	78697766	A	A	78697766	4	1	16	1	0	0	0	0	0	1	0	0	7294	1328	46	2	440	2	HOMER1	5	78697766	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	5829360	78697766	102217494	349	12024											
CMYA5	202333	broad.mit.edu	37	chr5	79030050	79030050	+	Frame_Shift_Del	DEL	A	-	-																															ttctgacctccttgtagaacAaaaaaagacagaaaaagcac																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:79030050delA	uc003kgc.2	+	2	5534	c.5462delA	c.(5461-5463)CAAfs	p.Q1821fs		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1821						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CTTGTAGAACAAAAAAAGACA	0.383													35	76	---	---	---	---						.	-	79030050	-	-	79030050	7	5	16	1	0	1	0	1	0	0	0	0	3593	130	5	0	5468	0	CMYA5	5	79030050	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	332284	79030050	101885210	350	12025											
ACOT12	134526	broad.mit.edu	37	chr5	80667576	80667576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgcctcttacctccatgCttgtgctgaatgctctagta	7	14	9	11	0	2	1	0	1	2	0	3	1	3	1	3	1	5	4	3	1	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:80667576C>T	uc003khl.3	-	3	306	c.251G>A	c.(250-252)AGC>AAC	p.S84N	RNU5E_uc011cto.1_Intron|ACOT12_uc003khm.2_Missense_Mutation_p.S84N	NM_130767	NP_570123	Q8WYK0	ACO12_HUMAN	acyl-CoA thioesterase 12	84	Coenzyme A binding.|Acyl coenzyme A hydrolase 1.				acyl-CoA metabolic process|fatty acid metabolic process	cytosol	acetyl-CoA hydrolase activity|carboxylesterase activity			ovary(1)|kidney(1)	2		Lung NSC(167;0.0176)|all_lung(232;0.0205)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;1.37e-45)|Epithelial(54;1.25e-39)|all cancers(79;5.01e-34)		TACCTCCATGCTTGTGCTGAA	0.398													23	67					0	0	1	0	0		T	80667576	T	T	80667576	3	4	16	1	0	0	0	0	1	0	0	0	150	797	28	2	1468	2	ACOT12	5	80667576	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1637526	80667576	100247684	351	12026											
RASA1	5921	broad.mit.edu	37	chr5	86675571	86675571	+	Frame_Shift_Del	DEL	A	-	-																															gttaagtccatcaaagttagAaaaaaatgaagatgtgaaca																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:86675571delA	uc003kiw.2	+	19	2625	c.2507delA	c.(2506-2508)GAAfs	p.E836fs	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Frame_Shift_Del_p.E659fs|RASA1_uc011ctv.1_Frame_Shift_Del_p.E669fs|RASA1_uc011ctw.1_Frame_Shift_Del_p.E670fs|RASA1_uc010jaw.2_Frame_Shift_Del_p.E658fs	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	836	Ras-GAP.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		TCAAAGTTAGAAAAAAATGAA	0.308													23	51	---	---	---	---						.	-	86675571	-	-	86675571	7	5	16	1	0	1	0	1	0	0	0	0	13085	246	9	0	2593	0	RASA1	5	86675571	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	6007995	86675571	94239689	352	12027											
GPR98	84059	broad.mit.edu	37	chr5	89923028	89923028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtttatattcctttaacagGtaccagaaaatgatgaaata	16	14	6	5	0	0	3	0	2	0	1	1	3	1	3	2	1	2	2	2	1	8	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:89923028G>A	uc003kju.2	+	7	769	c.673G>A	c.(673-675)GTA>ATA	p.V225I	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	225	Calx-beta 2.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CCTTTAACAGGTACCAGAAAA	0.318													6	6					0	0	1	0	0		A	89923028	A	A	89923028	3	1	16	1	0	0	0	0	1	0	0	0	6737	1275	44	4	699	4	GPR98	5	89923028	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3247457	89923028	90992232	353	12028											
GPR98	84059	broad.mit.edu	37	chr5	90015894	90015894	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatctgccatattagacacGgaaccagaaatggatgagta	16	9	9	7	1	1	3	0	1	1	2	1	5	1	5	2	2	2	1	2	2	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:90015894G>A	uc003kju.2	+	44	9573	c.9477G>A	c.(9475-9477)ACG>ACA	p.T3159T	GPR98_uc003kjt.2_Silent_p.T865T|GPR98_uc003kjv.2_Silent_p.T759T	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3159	Extracellular (Potential).|Calx-beta 22.				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TATTAGACACGGAACCAGAAA	0.363													30	89					0	0	1	0	0		A	90015894	A	A	90015894	2	1	16	1	0	0	0	0	0	0	0	1	6737	1103	39	1		1	GPR98	5	90015894	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	92866	90015894	90899366	354	12029											
NR2F1	7025	broad.mit.edu	37	chr5	92923762	92923762	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgagccctaccccacgtcGcgctacggcagccagtgcat	7	5	11	18	5	0	0	0	0	0	0	1	1	0	0	5	1	5	3	5	1	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:92923762G>A	uc003kkj.2	+	2	2290	c.603G>A	c.(601-603)TCG>TCA	p.S201S		NM_005654	NP_005645	P10589	COT1_HUMAN	nuclear receptor subfamily 2, group F, member 1	201					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			urinary_tract(1)|ovary(1)|lung(1)	3		all_cancers(142;1.62e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0416)|all cancers(79;9.57e-18)		ACCCCACGTCGCGCTACGGCA	0.667													8	11					0	0	1	0	0		A	92923762	A	A	92923762	2	1	16	1	0	0	0	0	0	0	0	1	10646	1074	38	1		1	NR2F1	5	92923762	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2907868	92923762	87991498	355	12030											
TSSK1B	83942	broad.mit.edu	37	chr5	112769462	112769462	+	Frame_Shift_Del	DEL	G	-	-																															ccgcgtctctggaggctgttGggggggcccttcctctgtct																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:112769462delG	uc003kqm.2	-	1	1267	c.1075delC	c.(1075-1077)CAAfs	p.Q359fs	MCC_uc003kql.3_Intron	NM_032028	NP_114417	Q9BXA7	TSSK1_HUMAN	testis-specific serine kinase 1	359					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|skin(2)|stomach(1)	5		all_cancers(142;0.0138)|all_epithelial(76;0.000445)|Colorectal(10;0.00814)|Prostate(80;0.0115)|Ovarian(225;0.156)		Epithelial(69;4.15e-08)|OV - Ovarian serous cystadenocarcinoma(64;4.49e-08)|all cancers(49;3.2e-06)|COAD - Colon adenocarcinoma(37;0.0371)|Colorectal(14;0.0449)		GGAGGCTGTTGGGGGGGCCCT	0.597													8	18	---	---	---	---						.	-	112769462	-	-	112769462	7	5	16	1	0	1	0	1	0	0	0	0	16694	1357	47	0	32	0	TSSK1B	5	112769462	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	19845700	112769462	68145798	356	12031											
KCNN2	3781	broad.mit.edu	37	chr5	113822813	113822813	+	Frame_Shift_Del	DEL	A	-	-																															acaaaaatacaaagctagtgAaaaagatagatcatgcaaaa																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:113822813delA	uc003kqo.2	+	6	1778	c.1321delA	c.(1321-1323)AAAfs	p.K441fs	KCNN2_uc003kqp.2_Frame_Shift_Del_p.K93fs|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	441	Calmodulin-binding (By similarity).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		AAAGCTAGTGAAAAAGATAGA	0.323													35	74	---	---	---	---						.	-	113822813	-	-	113822813	7	5	16	1	0	1	0	1	0	0	0	0	8095	247	9	0	1343	0	KCNN2	5	113822813	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	1053351	113822813	67092447	357	12032											
AQPEP	206338	broad.mit.edu	37	chr5	115299005	115299005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctacaccgaccagggcgagCgcaggtaagggctgtacagc	10	5	14	12	3	1	0	0	0	1	0	1	2	1	0	2	3	4	4	2	3	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:115299005C>T	uc003kro.2	+	1	855	c.691C>T	c.(691-693)CGC>TGC	p.R231C	AQPEP_uc003krp.2_RNA|uc003krn.1_5'Flank	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	231	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						CCAGGGCGAGCGCAGGTAAGG	0.672													8	16					0	0	1	0	0		T	115299005	T	T	115299005	3	4	16	1	0	0	0	0	1	0	0	0	834	768	27	1	693	1	AQPEP	5	115299005	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1476192	115299005	65616255	358	12033											
SNCAIP	9627	broad.mit.edu	37	chr5	121776408	121776408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accaggatggcaacagtgccGttcacgtagcctcacagcat	11	7	10	13	2	2	0	2	0	0	0	2	1	2	1	3	2	4	4	3	2	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:121776408G>A	uc003ksw.1	+	7	1587	c.1381G>A	c.(1381-1383)GTT>ATT	p.V461I	SNCAIP_uc011cwl.1_Missense_Mutation_p.V19I|SNCAIP_uc010jct.2_Missense_Mutation_p.V461I|SNCAIP_uc003ksx.1_Missense_Mutation_p.V508I|SNCAIP_uc003ksy.1_Missense_Mutation_p.V95I|SNCAIP_uc003ksz.1_Missense_Mutation_p.V95I|SNCAIP_uc010jcu.2_Missense_Mutation_p.V57I|SNCAIP_uc011cwm.1_Missense_Mutation_p.V95I|SNCAIP_uc003kta.1_Missense_Mutation_p.V93I|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.V155I|SNCAIP_uc010jcx.1_Missense_Mutation_p.V401I|uc003ktb.1_Intron	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	461	ANK 4.				cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		CAACAGTGCCGTTCACGTAGC	0.428													41	74					0	0	1	0	0		A	121776408	A	A	121776408	3	1	16	1	0	0	0	0	1	0	0	0	14866	1145	40	1	1403	1	SNCAIP	5	121776408	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6477403	121776408	59138852	359	12034											
ZNF608	57507	broad.mit.edu	37	chr5	123984642	123984642	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatttgggggtgtccttcGtccgctggcattgaggctgc	5	12	14	10	2	0	1	0	1	0	0	3	1	2	1	2	4	1	3	2	4	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:123984642G>A	uc003ktq.1	-	4	1558	c.1435C>T	c.(1435-1437)CGA>TGA	p.R479*	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Nonsense_Mutation_p.R479*|ZNF608_uc003ktt.1_Nonsense_Mutation_p.R479*	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	479						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		GGTGTCCTTCGTCCGCTGGCA	0.577													22	46					0	0	1	0	0		A	123984642	A	A	123984642	4	1	16	1	0	0	0	0	0	1	0	0	18059	1153	40	1	3127	1	ZNF608	5	123984642	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2208234	123984642	56930618	360	12035											
PRRC1	133619	broad.mit.edu	37	chr5	126874760	126874760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacggatagatagcttgcGtcgaactggggtgatccatg	10	9	15	7	3	0	2	0	1	0	1	2	5	1	4	1	4	4	1	1	4	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:126874760G>A	uc003kuk.2	+	7	1130	c.950G>A	c.(949-951)CGT>CAT	p.R317H	PRRC1_uc003kuj.3_Missense_Mutation_p.R317H	NM_130809	NP_570721	Q96M27	PRRC1_HUMAN	proline-rich coiled-coil 1	317						Golgi apparatus					0		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0851)|Epithelial(69;0.113)		GATAGCTTGCGTCGAACTGGG	0.373													24	45					0	0	1	0	0		A	126874760	A	A	126874760	3	1	16	1	0	0	0	0	1	0	0	0	12626	1145	40	1	972	1	PRRC1	5	126874760	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2890118	126874760	54040500	361	12036											
P4HA2	8974	broad.mit.edu	37	chr5	131543466	131543466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgacatcgtagtacctgaCgatgtgcgggctgtcccact	8	10	11	12	3	0	2	0	2	0	0	2	3	1	2	2	1	2	3	2	1	2	2	rs148040234		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:131543466C>T	uc003kwh.2	-	8	1579	c.1015G>A	c.(1015-1017)GTC>ATC	p.V339I	P4HA2_uc003kwg.2_Missense_Mutation_p.V339I|P4HA2_uc003kwi.2_Missense_Mutation_p.V339I|P4HA2_uc003kwk.2_Missense_Mutation_p.V339I|P4HA2_uc003kwl.2_Missense_Mutation_p.V339I|P4HA2_uc003kwj.2_Missense_Mutation_p.V339I	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	339						endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	TAGTACCTGACGATGTGCGGG	0.527													55	114					0	0	1	0	0		T	131543466	T	T	131543466	3	4	16	1	0	0	0	0	1	0	0	0	11376	536	19	1	688	1	P4HA2	5	131543466	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4668706	131543466	49371794	362	12037											
PDLIM4	8572	broad.mit.edu	37	chr5	131606656	131606656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcaggcaccgggactgggCcagaagatggcagaccaagc	11	3	14	13	1	1	3	1	0	0	3	1	4	1	4	4	4	1	2	4	4	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:131606656C>T	uc003kwn.2	+	4	453	c.376C>T	c.(376-378)CCA>TCA	p.P126S	uc003kwm.3_Intron|PDLIM4_uc003kwp.2_Missense_Mutation_p.P126S|PDLIM4_uc003kwo.2_Missense_Mutation_p.P126S	NM_003687	NP_003678	P50479	PDLI4_HUMAN	PDZ and LIM domain 4 isoform 1	126							protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CGGGACTGGGCCAGAAGATGG	0.627													21	87					0	0	1	0	0		T	131606656	T	T	131606656	3	4	16	1	0	0	0	0	1	0	0	0	11701	739	26	2	390	2	PDLIM4	5	131606656	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	63190	131606656	49308604	363	12038											
RAD50	10111	broad.mit.edu	37	chr5	131953826	131953826	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcataatttggcattagggCgacagaaaggttatgaagaa	16	10	11	4	1	1	3	1	1	0	2	1	4	1	3	0	3	0	2	0	3	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:131953826C>T	uc003kxi.2	+	21	3616	c.3229C>T	c.(3229-3231)CGA>TGA	p.R1077*	RAD50_uc003kxh.2_Nonsense_Mutation_p.R938*	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	1077	Potential.				DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GGCATTAGGGCGACAGAAAGG	0.318								Homologous_recombination					59	160					0	0	1	0	0		T	131953826	T	T	131953826	4	4	16	1	0	0	0	0	0	1	0	0	13009	760	27	1	3311	1	RAD50	5	131953826	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	347170	131953826	48961434	364	12039											
TRPC7	57113	broad.mit.edu	37	chr5	135692750	135692750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgatggccagcagcagcGcgtcccccacccgtgccagg	6	5	13	17	3	0	1	0	1	0	0	1	1	1	1	5	2	5	3	5	2	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:135692750G>A	uc003lbn.1	-	1	326	c.323C>T	c.(322-324)GCG>GTG	p.A108V	TRPC7_uc010jef.1_Missense_Mutation_p.A100V|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.A100V|TRPC7_uc010jei.1_Missense_Mutation_p.A100V|TRPC7_uc010jej.1_5'UTR	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	109	Cytoplasmic (Potential).|ANK 3.				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CAGCAGCAGCGCGTCCCCCAC	0.667													13	24					0	0	1	0	0		A	135692750	A	A	135692750	3	1	16	1	0	0	0	0	1	0	0	0	16610	1087	38	1	2306	1	TRPC7	5	135692750	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3738924	135692750	45222510	365	12040											
FAM13B	51306	broad.mit.edu	37	chr5	137278577	137278577	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacatacatagaagctgctcGagaacttgacaatcggagat	15	9	9	8	2	0	4	0	1	0	3	2	6	0	4	0	1	5	2	0	1	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:137278577G>A	uc003lbz.2	-	21	3043	c.2509C>T	c.(2509-2511)CGA>TGA	p.R837*	FAM13B_uc003lcb.2_Nonsense_Mutation_p.R713*|FAM13B_uc003lca.2_Nonsense_Mutation_p.R809*	NM_016603	NP_057687	Q9NYF5	FA13B_HUMAN	hypothetical protein LOC51306 isoform 1	837					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						GAAGCTGCTCGAGAACTTGAC	0.328													29	63					0	0	1	0	0		A	137278577	A	A	137278577	4	1	16	1	0	0	0	0	0	1	0	0	5464	1066	37	1	250	1	FAM13B	5	137278577	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1585827	137278577	43636683	366	12041											
FAM13B	51306	broad.mit.edu	37	chr5	137289904	137289904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccaacttttctggatcatGtaggaaacgctggctttgac	10	13	9	9	1	2	1	1	1	1	0	3	3	3	3	1	3	2	3	1	3	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:137289904G>A	uc003lbz.2	-	14	2137	c.1603C>T	c.(1603-1605)CAT>TAT	p.H535Y	FAM13B_uc003lcb.2_Missense_Mutation_p.H439Y|FAM13B_uc003lca.2_Missense_Mutation_p.H535Y	NM_016603	NP_057687	Q9NYF5	FA13B_HUMAN	hypothetical protein LOC51306 isoform 1	535					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						TCTGGATCATGTAGGAAACGC	0.403													28	53					0	0	1	0	0		A	137289904	A	A	137289904	3	1	16	1	0	0	0	0	1	0	0	0	5464	1377	48	4	1184	4	FAM13B	5	137289904	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	11327	137289904	43625356	367	12042											
WNT8A	7478	broad.mit.edu	37	chr5	137420203	137420203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcctatctgacctacaCgactagtgtggccttgggtg	7	10	12	12	1	1	1	0	1	1	0	1	2	1	1	4	3	1	0	4	3	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:137420203C>T	uc003lcd.1	+	3	124	c.119C>T	c.(118-120)ACG>ATG	p.T40M	BRD8_uc003lcc.1_Intron|WNT8A_uc011cyj.1_Missense_Mutation_p.T58M|WNT8A_uc011cyk.1_Missense_Mutation_p.T58M	NM_058244	NP_490645	Q9H1J5	WNT8A_HUMAN	wingless-type MMTV integration site family,	40					brain segmentation|canonical Wnt receptor signaling pathway involved in neural crest cell differentiation|cell migration involved in gastrulation|dorsal/ventral pattern formation|ectoderm development|endoderm development|eye development|hindbrain development|mesodermal cell fate commitment|negative regulation of Wnt receptor signaling pathway|neural crest cell fate commitment|neural plate pattern specification|notochord development|palate development|polarity specification of anterior/posterior axis|polarity specification of proximal/distal axis|positive regulation of fibroblast growth factor receptor signaling pathway|regulation of transcription involved in anterior/posterior axis specification|response to retinoic acid|somitogenesis|spinal cord anterior/posterior patterning|tail morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			ovary(1)|lung(1)|breast(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CTGACCTACACGACTAGTGTG	0.577													28	43					0	0	1	0	0		T	137420203	T	T	137420203	3	4	16	1	0	0	0	0	1	0	0	0	17422	536	19	1	129	1	WNT8A	5	137420203	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	130299	137420203	43495057	368	12043											
NRG2	9542	broad.mit.edu	37	chr5	139251390	139251390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgtctcgttgcacttcCgggcgtgccccgaccaggat	4	10	13	14	4	1	0	0	0	1	0	3	2	2	1	4	3	2	3	4	3	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:139251390C>T	uc003lex.1	-	4	1253	c.1028G>A	c.(1027-1029)CGG>CAG	p.R343Q	NRG2_uc003lev.1_Missense_Mutation_p.R343Q|NRG2_uc003lew.1_Missense_Mutation_p.R343Q|NRG2_uc003ley.1_Missense_Mutation_p.R343Q	NM_004883	NP_004874	O14511	NRG2_HUMAN	neuregulin 2 isoform 1	343	EGF-like.|Extracellular (Potential).				embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTGCACTTCCGGGCGTGCCC	0.567													21	61					0	0	1	0	0		T	139251390	T	T	139251390	3	4	16	1	0	0	0	0	1	0	0	0	10667	652	23	1	1643	1	NRG2	5	139251390	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1831187	139251390	41663870	369	12044											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139892956	139892957	+	Frame_Shift_Ins	INS	-	A	A																															tcctgctgtaggaactgttgINSaaaaaatgtcatcaatgtgt																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:139892956_139892957insA	uc003lfs.1	+	24	4333_4334	c.4209_4210insA	c.(4207-4212)TTGAAAfs	p.L1403fs	ANKHD1_uc003lfq.1_Frame_Shift_Ins_p.L1422fs|ANKHD1_uc003lfr.2_Frame_Shift_Ins_p.L1403fs|ANKHD1_uc003lft.1_Frame_Shift_Ins_p.L614fs|ANKHD1_uc003lfu.1_Frame_Shift_Ins_p.L883fs|ANKHD1_uc003lfv.1_Frame_Shift_Ins_p.L480fs|ANKHD1-EIF4EBP3_uc011czh.1_Frame_Shift_Ins_p.L142fs|ANKHD1_uc003lfw.2_Frame_Shift_Ins_p.L41fs	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1403_1404						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGAACTGTTGAAAAAATGTCA	0.347													22	46	---	---	---	---						.	A	139892957	A	A	139892956	7	5	16	1	0	1	1	0	0	0	0	0	629	1281	45	0	4303	0	ANKHD1-EIF4EBP3	5	139892956	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	641566	139892956	41022304	370	12045											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139905920	139905920	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtagcagtggtggtaaaaGccaagagttaaattttgtga	14	11	13	3	0	0	2	0	1	0	1	0	3	0	2	1	2	2	4	1	2	6	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:139905920G>C	uc003lfs.1	+	26	4956	c.4832G>C	c.(4831-4833)AGC>ACC	p.S1611T	ANKHD1_uc003lfr.2_Missense_Mutation_p.S1611T|ANKHD1_uc003lfu.1_Missense_Mutation_p.S1091T|ANKHD1-EIF4EBP3_uc011czh.1_Missense_Mutation_p.S350T|ANKHD1_uc003lfw.2_Missense_Mutation_p.S249T|ANKHD1_uc010jfl.2_Missense_Mutation_p.S46T|ANKHD1-EIF4EBP3_uc003lfx.1_5'Flank	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1611						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGGTAAAAGCCAAGAGTTA	0.428													7	148					0	0	1	0	0		C	139905920	C	C	139905920	3	2	16	1	0	0	0	0	1	0	0	0	629	971	34	5	4934	5	ANKHD1-EIF4EBP3	5	139905920	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	12964	139905920	41009340	371	12046											
PCDHA1	56147	broad.mit.edu	37	chr5	140166534	140166534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccactgatgggggcaaacCggagctgcaaggtacagttg	10	7	15	9	1	0	1	0	1	0	0	0	2	0	2	2	4	5	5	2	4	3	2	rs149577981	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140166534C>T	uc003lhb.2	+	1	659	c.659C>T	c.(658-660)CCG>CTG	p.P220L	PCDHA1_uc003lha.2_Missense_Mutation_p.P220L|PCDHA1_uc003lgz.2_Missense_Mutation_p.P220L	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	220	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGGGCAAACCGGAGCTGCAA	0.458													23	59					0	0	1	0	0		T	140166534	T	T	140166534	3	4	16	1	0	0	0	0	1	0	0	0	11538	652	23	1	661	1	PCDHA1	5	140166534	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	260614	140166534	40748726	372	12047											
PCDHA1	56147	broad.mit.edu	37	chr5	140167731	140167731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccggcagcaggcggcgcgcGcatcccgttccgcgtggggc	3	4	18	16	8	0	0	0	0	0	0	2	0	2	0	3	5	1	4	3	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140167731G>A	uc003lhb.2	+	1	1856	c.1856G>A	c.(1855-1857)CGC>CAC	p.R619H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.R619H	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	619	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGGCGCGCGCATCCCGTTC	0.667													8	64					0	0	1	0	0		A	140167731	A	A	140167731	3	1	16	1	0	0	0	0	1	0	0	0	11538	1087	38	1	1858	1	PCDHA1	5	140167731	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1197	140167731	40747529	373	12048											
PCDHA3	56145	broad.mit.edu	37	chr5	140182842	140182842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcgtccgctggcgccaCgggcccggaagctgcactgg	5	4	16	16	5	0	0	0	0	0	0	1	1	1	1	4	5	2	3	4	5	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140182842C>T	uc003lhf.2	+	1	2060	c.2060C>T	c.(2059-2061)ACG>ATG	p.T687M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.T687M	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	687	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGGCGCCACGGGCCCGGAA	0.632													21	43					0	0	1	0	0		T	140182842	T	T	140182842	3	4	16	1	0	0	0	0	1	0	0	0	11544	536	19	1	2062	1	PCDHA3	5	140182842	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	15111	140182842	40732418	374	12049											
PCDHA5	56143	broad.mit.edu	37	chr5	140202765	140202765	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgtgaaggagaacaacccgCcaggctgccacatcttcacg	11	6	10	14	3	2	2	1	1	1	1	3	3	2	2	3	2	3	1	3	2	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140202765C>A	uc003lhl.2	+	1	1405	c.1405C>A	c.(1405-1407)CCA>ACA	p.P469T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.P469T|PCDHA5_uc003lhj.1_Missense_Mutation_p.P469T	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	469	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAACAACCCGCCAGGCTGCCA	0.677													18	56					1.77063e-15	1.90887e-15	1	1	0		A	140202765	A	A	140202765	3	1	16	1	0	0	0	0	1	0	0	0	11546	739	26	5	1407	5	PCDHA5	5	140202765	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	19923	140202765	40712495	375	12050											
PCDHA6	56142	broad.mit.edu	37	chr5	140209889	140209889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacggcggacaagcccaCgctggtgtgctccagcgcag	7	5	15	14	4	0	0	0	0	0	0	1	1	1	1	2	3	4	4	2	3	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140209889C>T	uc003lho.2	+	1	2240	c.2213C>T	c.(2212-2214)ACG>ATG	p.T738M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Missense_Mutation_p.T738M	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	738	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACAAGCCCACGCTGGTGTGC	0.692													18	28					0	0	1	0	0		T	140209889	T	T	140209889	3	4	16	1	0	0	0	0	1	0	0	0	11547	536	19	1	2215	1	PCDHA6	5	140209889	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7124	140209889	40705371	376	12051											
PCDHA7	56141	broad.mit.edu	37	chr5	140215576	140215576	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgttgcagttccaggtgagCgcgcgcgatgcgggcgtgcc	4	8	17	12	6	0	1	0	1	0	0	1	2	1	1	2	2	4	3	2	2	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140215576C>T	uc003lhq.2	+	1	1608	c.1608C>T	c.(1606-1608)AGC>AGT	p.S536S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.S536S	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	536	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCAGGTGAGCGCGCGCGATG	0.682													27	57					0	0	1	0	0		T	140215576	T	T	140215576	2	4	16	1	0	0	0	0	0	0	0	1	11548	767	27	1		1	PCDHA7	5	140215576	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5687	140215576	40699684	377	12052											
PCDHA13	56136	broad.mit.edu	37	chr5	140263515	140263515	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacgtgacgctgcaggtgttCgtgctggacgagaacgacaa	11	7	14	9	5	0	2	0	1	0	1	1	5	0	3	0	2	4	4	0	2	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140263515C>T	uc003lif.2	+	1	1662	c.1662C>T	c.(1660-1662)TTC>TTT	p.F554F	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.F554F|PCDHA13_uc003lid.2_Silent_p.F554F	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	554	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCAGGTGTTCGTGCTGGACG	0.692													37	64					0	0	1	0	0		T	140263515	T	T	140263515	2	4	16	1	0	0	0	0	0	0	0	1	11542	883	31	1		1	PCDHA13	5	140263515	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	47939	140263515	40651745	378	12053											
PCDHA13	56136	broad.mit.edu	37	chr5	140264043	140264043	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcaccgcccaccgagggCgcgtgcgcgccgggcaagcc	5	2	16	18	8	0	0	0	0	0	0	1	1	0	0	5	3	2	2	5	3	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140264043C>T	uc003lif.2	+	1	2190	c.2190C>T	c.(2188-2190)GGC>GGT	p.G730G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.G730G|PCDHA13_uc003lid.2_Silent_p.G730G	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	730	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCACCGAGGGCGCGTGCGCGC	0.662													9	36					0	0	1	0	0		T	140264043	T	T	140264043	2	4	16	1	0	0	0	0	0	0	0	1	11542	755	27	1		1	PCDHA13	5	140264043	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	528	140264043	40651217	379	12054											
PCDHAC1	56135	broad.mit.edu	37	chr5	140306840	140306840	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacaccaatgacaactcAcctctctttcctgccggcga	9	9	7	16	2	2	1	1	1	1	0	4	3	3	2	4	2	2	0	4	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140306840A>G	uc003lih.2	+	1	539	c.363A>G	c.(361-363)TCA>TCG	p.S121S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Silent_p.S121S	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	121	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGACAACTCACCTCTCTTTC	0.607													17	32					0	0	1	0	0		G	140306840	G	G	140306840	2	3	16	1	0	0	0	0	0	0	0	1	11551	146	6	3		3	PCDHAC1	5	140306840	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	42797	140306840	40608420	380	12055											
PCDHB7	56129	broad.mit.edu	37	chr5	140553146	140553146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaacgcccctgattttgtgCggtcgctctacaaggtgcag	8	10	11	12	3	1	1	0	1	1	0	2	1	1	1	2	2	4	2	2	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140553146C>T	uc003lit.2	+	1	904	c.730C>T	c.(730-732)CGG>TGG	p.R244W		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	244	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGATTTTGTGCGGTCGCTCTA	0.542													24	41					0	0	1	0	0		T	140553146	T	T	140553146	3	4	16	1	0	0	0	0	1	0	0	0	11566	759	27	1	732	1	PCDHB7	5	140553146	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	246306	140553146	40362114	381	12056											
PCDHB7	56129	broad.mit.edu	37	chr5	140554034	140554034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagaccgcggctcccccGcgctgagcagcgaggcgctg	6	3	14	18	6	0	2	0	1	0	1	1	3	1	2	4	2	2	4	4	2	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140554034G>A	uc003lit.2	+	1	1792	c.1618G>A	c.(1618-1620)GCG>ACG	p.A540T		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	540	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGGCTCCCCCGCGCTGAGCAG	0.697													18	36					0	0	1	0	0		A	140554034	A	A	140554034	3	1	16	1	0	0	0	0	1	0	0	0	11566	1087	38	1	1620	1	PCDHB7	5	140554034	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	888	140554034	40361226	382	12057											
PCDHB16	57717	broad.mit.edu	37	chr5	140564007	140564007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcgcacaatggcgaggtgCgcaccgccaggctgctgagc	7	4	17	13	4	0	1	0	1	0	0	0	2	0	1	2	4	3	4	2	4	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140564007C>T	uc003liv.2	+	1	3028	c.1873C>T	c.(1873-1875)CGC>TGC	p.R625C	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	625	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGCGAGGTGCGCACCGCCAG	0.697													10	15					0	0	1	0	0		T	140564007	T	T	140564007	3	4	16	1	0	0	0	0	1	0	0	0	11560	768	27	1	1875	1	PCDHB16	5	140564007	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	9973	140564007	40351253	383	12058											
PCDHB9	56127	broad.mit.edu	37	chr5	140568534	140568534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagcgaggcgctggtgcGcgtactggtgctggacgcca	6	6	18	11	5	0	0	0	0	0	0	0	3	0	1	1	4	5	4	1	4	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140568534G>A	uc003liw.1	+	3	1643	c.1643G>A	c.(1642-1644)CGC>CAC	p.R548H		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	548	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCGCTGGTGCGCGTACTGGTG	0.711													9	27					0	0	1	0	0		A	140568534	A	A	140568534	3	1	16	1	0	0	0	0	1	0	0	0	11568	1087	38	1	1644	1	PCDHB9	5	140568534	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4527	140568534	40346726	384	12059											
PCDHGA2	56113	broad.mit.edu	37	chr5	140719254	140719254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctggatgcgaacgacaatgCgcctgtttttacacagcccg	9	9	10	13	4	0	0	0	0	0	0	0	3	0	1	3	1	5	1	3	1	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140719254C>T	uc003ljk.1	+	1	901	c.716C>T	c.(715-717)GCG>GTG	p.A239V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.A239V	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	239	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACGACAATGCGCCTGTTTTT	0.592													24	65					0	0	1	0	0		T	140719254	T	T	140719254	3	4	16	1	0	0	0	0	1	0	0	0	11573	768	27	1	718	1	PCDHGA2	5	140719254	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	150720	140719254	40196006	385	12060											
PCDHGB4	8641	broad.mit.edu	37	chr5	140768432	140768432	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacggtggaggaatgattgcGcaatgcacagtggaggtaga	12	7	17	5	2	0	2	0	1	0	1	0	6	0	5	0	5	2	3	0	5	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:140768432G>A	uc003lkc.1	+	1	981	c.981G>A	c.(979-981)GCG>GCA	p.A327A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Silent_p.A327A	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	327	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAATGATTGCGCAATGCACAG	0.428													12	44					0	0	1	0	0		A	140768432	A	A	140768432	2	1	16	1	0	0	0	0	0	0	0	1	11584	1074	38	1		1	PCDHGB4	5	140768432	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	49178	140768432	40146828	386	12061											
ARHGAP26	23092	broad.mit.edu	37	chr5	142437258	142437258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatccacagccttgttcatcGgctcccagagaaaaatcggc	12	8	8	13	2	1	1	1	0	0	1	5	2	3	1	3	2	1	2	3	2	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:142437258G>A	uc011dbj.1	+	17	1519	c.1484G>A	c.(1483-1485)CGG>CAG	p.R495Q	ARHGAP26_uc003lmt.2_Missense_Mutation_p.R495Q|ARHGAP26_uc003lmw.2_Missense_Mutation_p.R495Q	NM_015071	NP_055886	Q9UNA1	RHG26_HUMAN	GTPase regulator associated with the focal	495	Rho-GAP.				actin cytoskeleton organization|filopodium assembly|nervous system development|small GTPase mediated signal transduction	cytoskeleton|cytosol|focal adhesion	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(1)	1		all_hematologic(541;0.0416)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTTGTTCATCGGCTCCCAGAG	0.453													33	81					0	0	1	0	0		A	142437258	A	A	142437258	3	1	16	1	0	0	0	0	1	0	0	0	875	1116	39	1	1550	1	ARHGAP26	5	142437258	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1668826	142437258	38478002	387	12062											
ARHGAP26	23092	broad.mit.edu	37	chr5	142513670	142513670	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgttcagtcaacagagaaaCgtgagtctttgctgcatagg	11	10	11	9	2	3	2	2	1	1	1	3	3	3	2	1	1	4	3	1	1	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:142513670C>T	uc011dbj.1	+	19	1872	c.1837C>T	c.(1837-1839)CAG>TAG	p.Q613*	ARHGAP26_uc003lmt.2_Nonsense_Mutation_p.Q613*|ARHGAP26_uc003lmw.2_Nonsense_Mutation_p.Q613*	NM_015071	NP_055886	Q9UNA1	RHG26_HUMAN	GTPase regulator associated with the focal	613	Ser-rich.				actin cytoskeleton organization|filopodium assembly|nervous system development|small GTPase mediated signal transduction	cytoskeleton|cytosol|focal adhesion	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(1)	1		all_hematologic(541;0.0416)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AACAGAGAAACGTGAGTCTTT	0.582													28	58					0	0	1	0	0		T	142513670	T	T	142513670	4	4	16	1	0	0	0	0	0	1	0	0	875	550	19	1	1911	1	ARHGAP26	5	142513670	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	76412	142513670	38401590	388	12063											
SH3RF2	153769	broad.mit.edu	37	chr5	145393517	145393517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtccattctccttcagggCgccatatggtagagatcagc	8	11	11	11	1	3	1	2	0	1	1	5	2	4	1	3	3	1	1	3	3	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:145393517C>T	uc003lnt.2	+	5	1190	c.952C>T	c.(952-954)CGC>TGC	p.R318C	SH3RF2_uc011dbl.1_Missense_Mutation_p.R318C	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	318							ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCCTTCAGGGCGCCATATGGT	0.577													45	91					0	0	1	0	0		T	145393517	T	T	145393517	3	4	16	1	0	0	0	0	1	0	0	0	14284	768	27	1	966	1	SH3RF2	5	145393517	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2879847	145393517	35521743	389	12064											
DPYSL3	1809	broad.mit.edu	37	chr5	146778698	146778698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatctggatcccagatgaCgaggtcgctgtcagaaccca	11	7	11	12	2	2	3	1	1	1	2	4	5	3	4	2	2	2	2	2	2	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:146778698C>T	uc003lon.1	-	11	1338	c.1228G>A	c.(1228-1230)GTC>ATC	p.V410I	DPYSL3_uc003loo.2_Missense_Mutation_p.V524I	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	410					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCCAGATGACGAGGTCGCTG	0.527													61	104					0	0	1	0	0		T	146778698	T	T	146778698	3	4	16	1	0	0	0	0	1	0	0	0	4754	536	19	1	500	1	DPYSL3	5	146778698	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1385181	146778698	34136562	390	12065											
ABLIM3	22885	broad.mit.edu	37	chr5	148577904	148577904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgggacttcatcacaggcGaagtcatctcggccctgggc	7	7	13	14	3	4	0	3	0	1	0	5	2	4	1	2	4	0	0	2	4	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:148577904G>A	uc003lpy.2	+	4	525	c.274G>A	c.(274-276)GAA>AAA	p.E92K	ABLIM3_uc003lpz.1_Missense_Mutation_p.E92K|ABLIM3_uc003lqa.1_Silent_p.A73A|ABLIM3_uc003lqb.2_Missense_Mutation_p.E92K|ABLIM3_uc003lqc.1_Missense_Mutation_p.E92K|ABLIM3_uc003lqd.1_Missense_Mutation_p.E92K|ABLIM3_uc003lqf.2_Missense_Mutation_p.E92K|ABLIM3_uc003lqe.1_Missense_Mutation_p.E92K	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3	92	LIM zinc-binding 2.				axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CATCACAGGCGAAGTCATCTC	0.597													14	31					0	0	1	0	0		A	148577904	A	A	148577904	3	1	16	1	0	0	0	0	1	0	0	0	96	1059	37	1	284	1	ABLIM3	5	148577904	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1799206	148577904	32337356	391	12066											
PDE6A	5145	broad.mit.edu	37	chr5	149263008	149263008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacataacgatttccttccGtgtctgctccagcatcatgt	8	14	6	13	2	3	0	2	0	1	0	6	1	6	0	3	0	3	2	3	0	1	3	rs142092713		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:149263008G>A	uc003lrg.3	-	17	2239	c.2119C>T	c.(2119-2121)CGG>TGG	p.R707W		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	707					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			ATTTCCTTCCGTGTCTGCTCC	0.473													10	15					0	0	1	0	0		A	149263008	A	A	149263008	3	1	16	1	0	0	0	0	1	0	0	0	11664	1144	40	1	487	1	PDE6A	5	149263008	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	685104	149263008	31652252	392	12067											
FAT2	2196	broad.mit.edu	37	chr5	150948236	150948236	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagttgcccaccacatacTcctcagttttaaatacattg	13	12	5	11	0	1	1	1	0	0	1	2	1	2	1	3	0	3	2	3	0	5	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:150948236T>G	uc003lue.3	-	1	270	c.257A>C	c.(256-258)GAG>GCG	p.E86A	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.E86A	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	86	Extracellular (Potential).|Cadherin 1.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CACCACATACTCCTCAGTTTT	0.507													79	205					0	0	1	0	0		G	150948236	G	G	150948236	3	3	16	1	0	0	0	0	1	0	0	0	5704	1551	54	5	12884	5	FAT2	5	150948236	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1685228	150948236	29967024	393	12068											
ADRA1B	147	broad.mit.edu	37	chr5	159399008	159399008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagcaaggagttcaagcgcGctttcgtgcgcatcctcggg	7	8	13	13	5	1	0	1	0	0	0	4	1	2	1	2	2	3	4	2	2	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:159399008G>A	uc003lxt.1	+	2	1245	c.1072G>A	c.(1072-1074)GCT>ACT	p.A358T		NM_000679	NP_000670	P35368	ADA1B_HUMAN	alpha-1B-adrenergic receptor	358	Cytoplasmic (By similarity).				cell proliferation|cell-cell signaling|G-protein signaling, coupled to cAMP nucleotide second messenger|intracellular protein kinase cascade	integral to plasma membrane	alpha1-adrenergic receptor activity			lung(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Modafinil(DB00745)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Olanzapine(DB00334)|Phendimetrazine(DB01579)|Phenylephrine(DB00388)|Prazosin(DB00457)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Trazodone(DB00656)	GTTCAAGCGCGCTTTCGTGCG	0.502													12	30					0	0	1	0	0		A	159399008	A	A	159399008	3	1	16	1	0	0	0	0	1	0	0	0	335	1087	38	1	1078	1	ADRA1B	5	159399008	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	8450772	159399008	21516252	394	12069											
DOCK2	1794	broad.mit.edu	37	chr5	169129410	169129410	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcatgtgtgtgtgcgcGgaggatggcaaaacgctgcc	8	9	15	9	3	2	0	2	0	0	0	2	2	2	2	1	3	3	2	1	3	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:169129410G>A	uc003maf.2	+	14	1442	c.1362G>A	c.(1360-1362)GCG>GCA	p.A454A	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_5'Flank|DOCK2_uc010jjl.1_Silent_p.A5A	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	454	DHR-1.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GTGTGTGCGCGGAGGATGGCA	0.512											OREG0017017	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	55					0	0	1	0	0		A	169129410	A	A	169129410	2	1	16	1	0	0	0	0	0	0	0	1	4693	1103	39	1		1	DOCK2	5	169129410	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	9730402	169129410	11785850	395	12070											
GABRP	2568	broad.mit.edu	37	chr5	170236617	170236617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacactgatgatcgggtcccGcacttctcttcccaacacca	9	9	6	17	2	1	2	0	2	1	0	5	2	3	2	3	1	1	1	3	1	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:170236617G>A	uc003mau.2	+	9	1076	c.878G>A	c.(877-879)CGC>CAC	p.R293H	GABRP_uc011dev.1_Intron	NM_014211	NP_055026	O00591	GBRP_HUMAN	gamma-aminobutyric acid (GABA) A receptor, pi	293						cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			breast(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0122)|all_lung(126;0.0193)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			ATCGGGTCCCGCACTTCTCTT	0.502											OREG0017032	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	74	152					0	0	1	0	0		A	170236617	A	A	170236617	3	1	16	1	0	0	0	0	1	0	0	0	6188	1087	38	1	908	1	GABRP	5	170236617	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1107207	170236617	10678643	396	12071											
STK10	6793	broad.mit.edu	37	chr5	171614943	171614943	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgcccacgatctcccacAcctcgttggggtccaggtcg	5	8	11	17	4	1	0	0	0	1	0	6	1	2	0	4	3	0	2	4	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:171614943A>G	uc003mbo.1	-	1	404	c.104T>C	c.(103-105)GTG>GCG	p.V35A		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	35							ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GATCTCCCACACCTCGTTGGG	0.652													4	8					0	0	1	0	0		G	171614943	G	G	171614943	3	3	16	1	0	0	0	0	1	0	0	0	15311	159	6	3	2878	3	STK10	5	171614943	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1378326	171614943	9300317	397	12072											
C5orf41	153222	broad.mit.edu	37	chr5	172513563	172513563	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcgaagccacaccttttcGgaacaaactctgatgagcac	12	10	7	12	2	1	2	0	2	1	0	3	4	1	3	2	1	4	1	2	1	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:172513563G>A	uc003mch.2	+	3	373	c.69G>A	c.(67-69)TCG>TCA	p.S23S	C5orf41_uc003mcg.2_Silent_p.S23S|C5orf41_uc003mcf.2_Silent_p.S23S|C5orf41_uc011dfd.1_Silent_p.S23S	NM_153607	NP_705835	Q8IUR6	CE041_HUMAN	luman-recruiting factor	23							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			ACACCTTTTCGGAACAAACTC	0.413													46	73					0	0	1	0	0		A	172513563	A	A	172513563	2	1	16	1	0	0	0	0	0	0	0	1	2303	1103	39	1		1	C5orf41	5	172513563	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	898620	172513563	8401697	398	12073											
HMP19	51617	broad.mit.edu	37	chr5	173491266	173491266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaagaacggaatatcagcCggaacagaagaacaaaggga	20	2	12	7	2	1	3	1	0	0	3	1	7	1	6	1	3	4	0	1	3	8	1	rs142224266		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:173491266C>T	uc003mcx.2	+	3	306	c.161C>T	c.(160-162)CCG>CTG	p.P54L		NM_015980	NP_057064	Q9Y328	NSG2_HUMAN	HMP19 protein	54	Cytoplasmic (Potential).				dopamine receptor signaling pathway	cytoplasmic vesicle membrane|Golgi cisterna membrane|integral to membrane|multivesicular body membrane	dopamine receptor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00925)|all_lung(126;0.0148)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GAATATCAGCCGGAACAGAAG	0.423													37	72					0	0	1	0	0		T	173491266	T	T	173491266	3	4	16	1	0	0	0	0	1	0	0	0	7261	652	23	1	167	1	HMP19	5	173491266	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	977703	173491266	7423994	399	12074											
HK3	3101	broad.mit.edu	37	chr5	176310832	176310832	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggacatcatggtccccacCgtgtcattgacaatggcaac	11	8	9	13	1	2	1	2	1	0	0	3	2	3	2	3	3	1	1	3	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:176310832C>T	uc003mfa.2	-	15	2084	c.1992G>A	c.(1990-1992)ACG>ACA	p.T664T	HK3_uc003mez.2_Silent_p.T220T	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	664	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGGTCCCCACCGTGTCATTGA	0.582													35	64					0	0	1	0	0		T	176310832	T	T	176310832	2	4	16	1	0	0	0	0	0	0	0	1	7208	639	23	1		1	HK3	5	176310832	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2819566	176310832	4604428	400	12075											
RUFY1	80230	broad.mit.edu	37	chr5	179021923	179021923	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcacatcctttgaaggaaaAaccaaccaagttatgtccag	16	9	6	10	0	1	1	1	1	0	0	3	2	3	2	4	1	2	1	4	1	6	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr5:179021923A>T	uc003mka.1	+	12	1470	c.1470A>T	c.(1468-1470)AAA>AAT	p.K490N	RUFY1_uc003mkb.1_Missense_Mutation_p.K382N|RUFY1_uc003mkc.1_Missense_Mutation_p.K382N|RUFY1_uc003mkd.1_Missense_Mutation_p.K92N	NM_025158	NP_079434	Q96T51	RUFY1_HUMAN	RUN and FYVE domain-containing 1 isoform a	490	Potential.				endocytosis|protein transport	early endosome membrane	lipid binding|zinc ion binding			ovary(4)|breast(1)	5	all_cancers(89;0.00018)|all_epithelial(37;8.37e-05)|Renal(175;0.000159)|Lung NSC(126;0.00108)|all_lung(126;0.00195)	all_cancers(40;0.0322)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TTGAAGGAAAAACCAACCAAG	0.473										HNSCC(44;0.11)			20	39					0	0	1	0	0		T	179021923	T	T	179021923	3	4	16	1	0	0	0	0	1	0	0	0	13763	11	1	5	1516	5	RUFY1	5	179021923	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	2711091	179021923	1893337	401	12076											
DUSP22	56940	broad.mit.edu	37	chr6	348155	348155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcgcatacatcatgaccGtcactgactttggctgggag	9	11	11	10	2	2	3	2	3	0	0	3	4	2	4	1	2	1	2	1	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:348155G>A	uc003msx.2	+	6	755	c.316G>A	c.(316-318)GTC>ATC	p.V106I	DUSP22_uc011dhn.1_Missense_Mutation_p.V106I|DUSP22_uc003msy.1_Missense_Mutation_p.V63I	NM_020185	NP_064570	Q9NRW4	DUS22_HUMAN	dual specificity phosphatase 22	106	Tyrosine-protein phosphatase.				apoptosis|cell proliferation|inactivation of MAPK activity|multicellular organismal development|positive regulation of JNK cascade|regulation of cell proliferation|transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.V106I(1)		ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(77;0.228)	Breast(5;0.0249)|all_hematologic(90;0.0489)		OV - Ovarian serous cystadenocarcinoma(45;0.0277)|BRCA - Breast invasive adenocarcinoma(62;0.0669)		CATCATGACCGTCACTGACTT	0.602													29	143					0	0	1	0	0		A	348155	A	A	348155	3	1	16	1	0	0	0	0	1	0	0	0	4827	1145	40	1	338	1	DUSP22	6	348155	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08		348155	170766912	402	12077											
EXOC2	55770	broad.mit.edu	37	chr6	637806	637806	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcacaagggggggttgtcGtgatcgagacattgtgcttt	7	12	16	6	2	1	2	1	1	0	1	3	3	1	2	0	4	1	2	0	4	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:637806G>A	uc003mtd.2	-	2	147	c.13C>T	c.(13-15)CGA>TGA	p.R5*	EXOC2_uc003mte.2_Nonsense_Mutation_p.R5*|EXOC2_uc011dho.1_Intron	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	5					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		GGGGGTTGTCGTGATCGAGAC	0.478													37	67					0	0	1	0	0		A	637806	A	A	637806	4	1	16	1	0	0	0	0	0	1	0	0	5310	1153	40	1	2869	1	EXOC2	6	637806	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	289651	637806	170477261	403	12078											
BPHL	670	broad.mit.edu	37	chr6	3127615	3127615	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagacttttttgaaagggaTgcaaaagatgctgttgattt	12	14	11	4	0	0	4	0	2	0	2	0	5	0	5	0	1	2	4	0	1	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:3127615T>C	uc003mva.2	+	3	400	c.351T>C	c.(349-351)GAT>GAC	p.D117D	BPHL_uc003muz.2_RNA|BPHL_uc011dht.1_RNA|BPHL_uc003muy.2_Silent_p.D100D	NM_004332	NP_004323	Q86WA6	BPHL_HUMAN	biphenyl hydrolase-like precursor	117					cellular amino acid metabolic process|response to toxin	mitochondrion	hydrolase activity				0	Ovarian(93;0.0386)	all_hematologic(90;0.108)				TTGAAAGGGATGCAAAAGATG	0.493													5	100					0	0	1	0	0		C	3127615	C	C	3127615	2	2	16	1	0	0	0	0	0	0	0	1	1492	1461	51	3		3	BPHL	6	3127615	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2489809	3127615	167987452	404	12079											
TUBB2A	7280	broad.mit.edu	37	chr6	3154798	3154798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtcagcttcagggtgcGgaagcagatgtcatacaggg	9	8	17	7	1	3	1	3	0	0	1	3	2	3	2	0	5	4	2	0	5	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:3154798G>A	uc003mvc.2	-	4	723	c.637C>T	c.(637-639)CGC>TGC	p.R213C	TUBB2A_uc003mvb.2_Missense_Mutation_p.R206C|TUBB2A_uc003mvd.2_Missense_Mutation_p.R176C	NM_001069	NP_001060	Q13885	TBB2A_HUMAN	tubulin, beta 2	213					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			skin(1)	1	Ovarian(93;0.0386)	all_hematologic(90;0.0895)				TTCAGGGTGCGGAAGCAGATG	0.612													45	66					0	0	1	0	0		A	3154798	A	A	3154798	3	1	16	1	0	0	0	0	1	0	0	0	16780	1116	39	1	704	1	TUBB2A	6	3154798	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	27183	3154798	167960269	405	12080											
RREB1	6239	broad.mit.edu	37	chr6	7247181	7247181	+	Frame_Shift_Del	DEL	C	-	-																															cccctgaacaggaggagaagCcccccgagaccccggcagag																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:7247181delC	uc003mxc.2	+	11	4723	c.4333delC	c.(4333-4335)CCCfs	p.P1445fs	RREB1_uc003mxb.2_Frame_Shift_Del_p.P1500fs|RREB1_uc010jnx.2_Intron	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1445					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				GGAGGAGAAGCCCCCCGAGAC	0.746													3	4	---	---	---	---						.	-	7247181	-	-	7247181	7	5	16	1	0	1	0	1	0	0	0	0	13704	739	26	0	4532	0	RREB1	6	7247181	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	4092383	7247181	163867886	406	12081											
BMP6	654	broad.mit.edu	37	chr6	7862635	7862635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagtgagtgaggtgcacGtgcgcaccaccaggtcagcc	10	6	13	12	2	2	2	2	2	0	0	2	2	2	2	3	2	3	2	3	2	1	0	rs144134653		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:7862635G>A	uc003mxu.3	+	4	1286	c.1108G>A	c.(1108-1110)GTG>ATG	p.V370M		NM_001718	NP_001709	P22004	BMP6_HUMAN	bone morphogenetic protein 6 preproprotein	370					BMP signaling pathway|cartilage development|growth|immune response|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	BMP receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity			large_intestine(2)|ovary(1)	3	Ovarian(93;0.0721)					TGAGGTGCACGTGCGCACCAC	0.642													11	34					0	0	1	0	0		A	7862635	A	A	7862635	3	1	16	1	0	0	0	0	1	0	0	0	1465	1145	40	1	1122	1	BMP6	6	7862635	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	615454	7862635	163252432	407	12082											
JARID2	3720	broad.mit.edu	37	chr6	15496722	15496722	+	Frame_Shift_Del	DEL	G	-	-																															aagtcatgcactaaggaggtGggggggcggcagctgcggga																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:15496722delG	uc003nbj.2	+	7	1510	c.1266delG	c.(1264-1266)GTGfs	p.V422fs	JARID2_uc011diu.1_Frame_Shift_Del_p.V286fs|JARID2_uc011div.1_Frame_Shift_Del_p.V250fs|JARID2_uc011diw.1_Frame_Shift_Del_p.V384fs	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	422					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				CTAAGGAGGTGGGGGGGCGGC	0.667													10	16	---	---	---	---						.	-	15496722	-	-	15496722	7	5	16	1	0	1	0	1	0	0	0	0	7961	1335	47	0	1292	0	JARID2	6	15496722	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	7634087	15496722	155618345	408	12083											
ALDH5A1	7915	broad.mit.edu	37	chr6	24503644	24503644	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaagcagcccataggcgtgGctgcagtcatcaccccggta	9	7	11	14	2	3	0	3	0	0	0	3	0	3	0	3	3	3	4	3	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:24503644G>T	uc003neg.2	+	3	620	c.592G>T	c.(592-594)GCT>TCT	p.A198S	ALDH5A1_uc003nef.2_Missense_Mutation_p.A198S	NM_001080	NP_001071	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5A1 isoform 2 precursor	198					acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)	CATAGGCGTGGCTGCAGTCAT	0.567													13	15					2.32078e-09	2.43697e-09	1	1	0		T	24503644	T	T	24503644	3	4	16	1	0	0	0	0	1	0	0	0	502	1203	42	5	602	5	ALDH5A1	6	24503644	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	9006922	24503644	146611423	409	12084											
KIAA0319	9856	broad.mit.edu	37	chr6	24596507	24596508	+	Frame_Shift_Ins	INS	-	C	C																															tctgatatcctcaggtgagtINSccccccagatccccgagggg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:24596507_24596508insC	uc011djo.1	-	3	631_632	c.394_395insG	c.(394-396)GACfs	p.D132fs	KIAA0319_uc011djp.1_Frame_Shift_Ins_p.D87fs|KIAA0319_uc003neh.1_Frame_Shift_Ins_p.D132fs|KIAA0319_uc011djq.1_Frame_Shift_Ins_p.D123fs|KIAA0319_uc011djr.1_Frame_Shift_Ins_p.D132fs	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	132	Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						CTCAGGTGAGTCCCCCCAGATC	0.55													26	48	---	---	---	---						.	C	24596508	C	C	24596507	7	5	16	1	0	1	1	0	0	0	0	0	8184	1667	58	0	2899	0	KIAA0319	6	24596507	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	92863	24596507	146518560	410	12085											
SLC17A3	10786	broad.mit.edu	37	chr6	25862609	25862609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatgacattttgtgctatcGttgtgaaattgcagaaatgt	11	16	10	4	1	0	4	0	3	0	1	1	4	0	4	0	0	2	3	0	0	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:25862609G>A	uc003nfi.3	-	3	265	c.155C>T	c.(154-156)ACG>ATG	p.T52M	SLC17A3_uc003nfk.3_Missense_Mutation_p.T52M|SLC17A3_uc011djz.1_Missense_Mutation_p.T52M|SLC17A3_uc011dka.1_Missense_Mutation_p.T52M	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	52					glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						TTGTGCTATCGTTGTGAAATT	0.408													43	79					0	0	1	0	0		A	25862609	A	A	25862609	3	1	16	1	0	0	0	0	1	0	0	0	14443	1145	40	1	1381	1	SLC17A3	6	25862609	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1266102	25862609	145252458	411	12086											
ABT1	29777	broad.mit.edu	37	chr6	26598515	26598515	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttgcaccgtttcacctggtCccacctcagcgagcacctcg	6	9	8	18	3	2	0	2	0	0	0	4	1	3	0	5	1	3	3	5	1	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:26598515C>T	uc003nii.2	+	3	492	c.461C>T	c.(460-462)TCC>TTC	p.S154F		NM_013375	NP_037507	Q9ULW3	ABT1_HUMAN	activator of basal transcription 1	154					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleolus	DNA binding|nucleotide binding|protein binding|RNA binding|transcription coactivator activity			ovary(1)	1						TTCACCTGGTCCCACCTCAGC	0.542													28	73					0	0	1	0	0		T	26598515	T	T	26598515	3	4	16	1	0	0	0	0	1	0	0	0	101	855	30	4	471	4	ABT1	6	26598515	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	735906	26598515	144516552	412	12087											
ZNF184	7738	broad.mit.edu	37	chr6	27419587	27419587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actcattacacttgtaaggtCgttctccagtatggatcttc	9	15	7	10	1	3	0	1	0	2	0	6	1	3	1	1	2	1	3	1	2	3	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:27419587C>T	uc003njj.2	-	5	2562	c.1751G>A	c.(1750-1752)CGA>CAA	p.R584Q	ZNF184_uc010jqv.2_Missense_Mutation_p.R584Q|ZNF184_uc003nji.2_Missense_Mutation_p.R584Q	NM_007149	NP_009080	Q99676	ZN184_HUMAN	zinc finger protein 184	584					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTTGTAAGGTCGTTCTCCAGT	0.423													31	60					0	0	1	0	0		T	27419587	T	T	27419587	3	4	16	1	0	0	0	0	1	0	0	0	17776	884	31	1	508	1	ZNF184	6	27419587	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	821072	27419587	143695480	413	12088											
HIST1H3I	8354	broad.mit.edu	37	chr6	27839989	27839989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcggtggggcttcttgacGccaccggtggccggagcgct	4	8	17	12	5	1	1	0	1	1	0	1	2	1	2	3	6	2	2	3	6	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:27839989G>A	uc003njy.2	-	1	111	c.105C>T	c.(103-105)GGC>GGT	p.G35G		NM_003533	NP_003524	P68431	H31_HUMAN	histone cluster 1, H3i	35					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1						GCTTCTTGACGCCACCGGTGG	0.667													8	36					0	0	1	0	0		A	27839989	A	A	27839989	2	1	16	1	0	0	0	0	0	0	0	1	7179	1074	38	1		1	HIST1H3I	6	27839989	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	420402	27839989	143275078	414	12089											
PGBD1	84547	broad.mit.edu	37	chr6	28251732	28251732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatttgccgcctgcgctttCggcacttctgctaccaggag	6	11	11	13	3	1	1	0	0	1	1	2	2	1	2	3	2	4	3	3	2	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:28251732C>T	uc003nky.2	+	2	512	c.142C>T	c.(142-144)CGG>TGG	p.R48W	PGBD1_uc003nkz.2_Missense_Mutation_p.R48W	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	48	SCAN box.				viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						CCTGCGCTTTCGGCACTTCTG	0.582													17	49					0	0	1	0	0		T	28251732	T	T	28251732	3	4	16	1	0	0	0	0	1	0	0	0	11799	875	31	1	144	1	PGBD1	6	28251732	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	411743	28251732	142863335	415	12090											
TRIM26	7726	broad.mit.edu	37	chr6	30154048	30154048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcttcgtccgtttcccagtCgtcatatccatccccatagc	7	13	5	16	3	2	0	1	0	1	0	8	0	6	0	5	0	1	1	5	0	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:30154048C>T	uc003npr.2	-	9	1434	c.1225G>A	c.(1225-1227)GAC>AAC	p.D409N	TRIM26_uc003nps.2_Missense_Mutation_p.D409N|TRIM26_uc010jry.2_Missense_Mutation_p.D139N|TRIM26_uc003npt.2_Missense_Mutation_p.D409N	NM_003449	NP_003440	Q12899	TRI26_HUMAN	tripartite motif-containing 26	409	B30.2/SPRY.						DNA binding|zinc ion binding			ovary(2)|lung(1)	3						GTTTCCCAGTCGTCATATCCA	0.313													11	22					0	0	1	0	0		T	30154048	T	T	30154048	3	4	16	1	0	0	0	0	1	0	0	0	16526	884	31	1	398	1	TRIM26	6	30154048	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1902316	30154048	140961019	416	12091											
ABCF1	23	broad.mit.edu	37	chr6	30554313	30554313	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggattttggcatcgacAtggattcaaggagtgagttg	10	13	13	5	1	1	1	1	1	0	0	2	5	1	4	0	4	0	2	0	4	1	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:30554313A>G	uc003nql.2	+	19	2043	c.1948A>G	c.(1948-1950)ATG>GTG	p.M650V	ABCF1_uc003nqm.2_Missense_Mutation_p.M612V|ABCF1_uc010jsb.2_Intron	NM_001025091	NP_001020262	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F, member 1	650	ABC transporter 2.				inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2						TGGCATCGACATGGATTCAAG	0.483													54	114					0	0	1	0	0		G	30554313	G	G	30554313	3	3	16	1	0	0	0	0	1	0	0	0	65	217	8	3	2022	3	ABCF1	6	30554313	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	400265	30554313	140560754	417	12092											
ABCF1	23	broad.mit.edu	37	chr6	30557686	30557686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgccctaccaggatgcccGcaagtgcctgggccgcttcg	5	7	12	17	3	0	0	0	0	0	0	1	1	0	1	6	2	4	2	6	2	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:30557686G>A	uc003nql.2	+	22	2263	c.2168G>A	c.(2167-2169)CGC>CAC	p.R723H	ABCF1_uc003nqm.2_Missense_Mutation_p.R685H|ABCF1_uc010jsb.2_Missense_Mutation_p.R116H	NM_001025091	NP_001020262	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F, member 1	723	ABC transporter 2.				inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2						CAGGATGCCCGCAAGTGCCTG	0.617													49	69					0	0	1	0	0		A	30557686	A	A	30557686	3	1	16	1	0	0	0	0	1	0	0	0	65	1087	38	1	2254	1	ABCF1	6	30557686	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3373	30557686	140557381	418	12093											
MDC1	9656	broad.mit.edu	37	chr6	30675170	30675172	+	In_Frame_Del	DEL	CTT	-	-																															gtagctctcaccctggaaacCttctcagcagctctgatcct																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:30675170_30675172delCTT	uc003nrg.3	-	9	3513_3515	c.3073_3075delAAG	c.(3073-3075)AAGdel	p.K1025del	MDC1_uc003nrf.3_In_Frame_Del_p.K415del|MDC1_uc011dmp.1_In_Frame_Del_p.K632del	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1025				Missing (in Ref. 2; CAH18685).	cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						CCCTGGAAACCTTCTCAGCAGCT	0.458								Other_conserved_DNA_damage_response_genes					32	70	---	---	---	---						.	-	30675172	-	-	30675170	7	5	16	1	0	1	0	1	0	0	0	0	9421	680	24	0	3222	0	MDC1	6	30675170	In_Frame_Del	DEL	CTT	TCGA-BR-4292-01A-01D-1126-08	117484	30675170	140439897	419	12094											
BAT2	7916	broad.mit.edu	37	chr6	31590652	31590652	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttgatacgtataagggcaAgtccttagagatccagaaac	14	10	10	7	1	0	3	0	1	0	2	2	4	2	3	2	1	2	3	2	1	6	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:31590652A>C	uc003nvb.3	+	2	335	c.86A>C	c.(85-87)AAG>ACG	p.K29T	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Missense_Mutation_p.K29T|SNORA38_uc003nvd.2_5'Flank|BAT2_uc003nve.2_5'Flank	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	29						cytoplasm|nucleus	protein binding				0						TATAAGGGCAAGTCCTTAGAG	0.502													61	110					0	0	1	0	0		C	31590652	C	C	31590652	3	2	16	1	0	0	0	0	1	0	0	0	1320	72	3	5	88	5	BAT2	6	31590652	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	915482	31590652	139524415	420	12095											
BAT2	7916	broad.mit.edu	37	chr6	31597497	31597497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacccaggtgctctgggccGgcccccacccatgcccccaa	6	5	10	20	1	1	0	0	0	1	0	1	0	1	0	7	3	3	2	7	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:31597497G>A	uc003nvb.3	+	14	2378	c.2129G>A	c.(2128-2130)CGG>CAG	p.R710Q	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.R710Q	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	710	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						GCTCTGGGCCGGCCCCCACCC	0.662													5	16					0	0	1	0	0		A	31597497	A	A	31597497	3	1	16	1	0	0	0	0	1	0	0	0	1320	1116	39	1	2179	1	BAT2	6	31597497	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6845	31597497	139517570	421	12096											
C6orf26	401251	broad.mit.edu	37	chr6	31731318	31731318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcgacagcagctgcatctaGgggcccttggtgaggtatgg	8	8	16	9	1	1	1	0	1	1	0	1	2	1	1	1	5	4	4	1	5	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:31731318G>A	uc003nxa.3	+	2	300	c.241G>A	c.(241-243)GGG>AGG	p.G81R	MSH5_uc003nwz.3_RNA	NM_001039651	NP_001034740	Q5SSQ6	G7D_HUMAN	hypothetical protein LOC401251	81											0						GCTGCATCTAGGGGCCCTTGG	0.607													10	31					0	0	1	0	0		A	31731318	A	A	31731318	3	1	16	1	0	0	0	0	1	0	0	0	2364	1000	35	4	247	4	C6orf26	6	31731318	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	133821	31731318	139383749	422	12097											
SLC44A4	80736	broad.mit.edu	37	chr6	31833884	31833884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcacatcagccctgggcacGaggagttcacaaggtgggcc	9	5	14	13	2	2	0	2	0	0	0	2	2	2	1	2	4	1	3	2	4	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:31833884G>A	uc010jti.2	-	14	1319	c.1253C>T	c.(1252-1254)TCG>TTG	p.S418L		NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	418	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	CCCTGGGCACGAGGAGTTCAC	0.582													34	68					0	0	1	0	0		A	31833884	A	A	31833884	3	1	16	1	0	0	0	0	1	0	0	0	14663	1059	37	1	911	1	SLC44A4	6	31833884	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	102566	31833884	139281183	423	12098											
EGFL8	80864	broad.mit.edu	37	chr6	32135153	32135153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcggaaaaagatgagcgcGctctgaagcaggagattcac	14	5	14	8	3	2	4	1	2	1	2	2	6	2	5	0	3	2	2	0	3	3	1	rs149576421		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:32135153G>A	uc003oab.1	+	7	686	c.628G>A	c.(628-630)GCT>ACT	p.A210T	PPT2_uc003nzy.1_RNA|EGFL8_uc003oac.1_Missense_Mutation_p.A210T	NM_030652	NP_085155	Q99944	EGFL8_HUMAN	NG3 protein precursor	210	Potential.					extracellular region|integral to membrane	calcium ion binding				0						AGATGAGCGCGCTCTGAAGCA	0.652													10	17					0	0	1	0	0		A	32135153	A	A	32135153	3	1	16	1	0	0	0	0	1	0	0	0	4971	1087	38	1	650	1	EGFL8	6	32135153	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	301269	32135153	138979914	424	12099											
HLA-DRA	3122	broad.mit.edu	37	chr6	32411064	32411064	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccccaccagtggtcaatgTcacgtggcttcgaaatggaa	11	8	10	12	2	2	0	2	0	0	0	3	2	2	1	3	3	0	1	3	3	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:32411064T>C	uc003obh.2	+	3	512	c.431T>C	c.(430-432)GTC>GCC	p.V144A	HLA-DRA_uc003obi.2_Missense_Mutation_p.V119A	NM_019111	NP_061984	P01903	DRA_HUMAN	major histocompatibility complex, class II, DR	144	Ig-like C1-type.|Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|Golgi apparatus|integral to plasma membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity			ovary(1)|skin(1)	2						GTGGTCAATGTCACGTGGCTT	0.527									T-cell_Lymphoma_(Cutaneous)__Familial_Clustering_of|Kaposi_Sarcoma_Familial_Clustering_of				26	69					0	0	1	0	0		C	32411064	C	C	32411064	3	2	16	1	0	0	0	0	1	0	0	0	7223	1667	58	3	441	3	HLA-DRA	6	32411064	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	275911	32411064	138704003	425	12100											
TAP2	6891	broad.mit.edu	37	chr6	32782287	32782287	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaccacttgatcttgatatcCcctggatagaagcctgtcac	11	11	7	12	0	2	3	1	2	1	1	3	4	3	4	4	1	2	0	4	1	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:32782287C>T	uc011dqf.1	-	14	2396	c.2274G>A	c.(2272-2274)GGG>GGA	p.G758G	HLA-DOB_uc003oca.2_Silent_p.G151G|HLA-DOB_uc011dqg.1_Silent_p.G151G	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	Error:Variant_position_missing_in_Q03519_after_alignment					antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						TCTTGATATCCCCTGGATAGA	0.547													57	87					0	0	1	0	0		T	32782287	T	T	32782287	2	4	16	1	0	0	0	0	0	0	0	1	15576	610	22	4		4	TAP2	6	32782287	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	371223	32782287	138332780	426	12101											
COL11A2	1302	broad.mit.edu	37	chr6	33144778	33144778	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccactcaccgggggtccGtctgagccaggcatgccggg	5	6	15	15	3	2	1	1	1	1	0	4	1	4	1	5	4	2	1	5	4	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:33144778G>A	uc003ocx.1	-	25	2289	c.2061C>T	c.(2059-2061)GAC>GAT	p.D687D	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Silent_p.D601D|COL11A2_uc003ocz.1_Silent_p.D580D	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	687	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						CCGGGGGTCCGTCTGAGCCAG	0.607													9	10					0	0	1	0	0		A	33144778	A	A	33144778	2	1	16	1	0	0	0	0	0	0	0	1	3671	1136	40	1		1	COL11A2	6	33144778	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	362491	33144778	137970289	427	12102											
B3GALT4	8705	broad.mit.edu	37	chr6	33245751	33245751	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgtcaacgtccctgaactGgtatcagagctggtcttgcg	8	12	11	10	2	3	2	2	1	1	1	4	2	4	2	1	2	4	2	1	2	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:33245751G>A	uc003odr.2	+	1	835	c.555G>A	c.(553-555)CTG>CTA	p.L185L		NM_003782	NP_003773	O96024	B3GT4_HUMAN	UDP-Gal:betaGlcNAc beta	185	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	ganglioside galactosyltransferase activity|UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)|breast(1)	2						TCCCTGAACTGGTATCAGAGC	0.582													28	49					0	0	1	0	0		A	33245751	A	A	33245751	2	1	16	1	0	0	0	0	0	0	0	1	1250	1335	47	4		4	B3GALT4	6	33245751	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	100973	33245751	137869316	428	12103											
UHRF1BP1	54887	broad.mit.edu	37	chr6	34825149	34825149	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaaagccatctacactccTttcctgcagtcggaaacttc	12	11	5	13	1	1	0	0	0	1	0	5	1	3	1	3	1	4	1	3	1	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:34825149T>C	uc003oju.3	+	12	1709	c.1475T>C	c.(1474-1476)CTT>CCT	p.L492P	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_5'Flank	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	492										ovary(3)	3						TCTACACTCCTTTCCTGCAGT	0.443													22	60					0	0	1	0	0		C	34825149	C	C	34825149	3	2	16	1	0	0	0	0	1	0	0	0	16994	1609	56	3	1521	3	UHRF1BP1	6	34825149	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1579398	34825149	136289918	429	12104											
MDGA1	266727	broad.mit.edu	37	chr6	37619917	37619917	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctaggctgctggtgactgcGggcagctcaggatcattgcg	6	10	15	10	2	3	1	2	1	1	0	3	2	3	2	0	4	4	4	0	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:37619917G>A	uc003onu.1	-	7	2361	c.1182C>T	c.(1180-1182)CCC>CCT	p.P394P	MDGA1_uc003onw.3_RNA	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	394	Ig-like 4.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						TGGTGACTGCGGGCAGCTCAG	0.602													12	28					0	0	1	0	0		A	37619917	A	A	37619917	2	1	16	1	0	0	0	0	0	0	0	1	9424	1103	39	1		1	MDGA1	6	37619917	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2794768	37619917	133495150	430	12105											
ZFAND3	60685	broad.mit.edu	37	chr6	38120107	38120107	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagccatcatgaaaatggTgaagctggaccggaaagtgg	14	6	15	6	1	1	2	1	2	0	0	1	5	1	5	2	5	2	1	2	5	5	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:38120107T>C	uc003onx.2	+	6	1041	c.626T>C	c.(625-627)GTG>GCG	p.V209A		NM_021943	NP_068762	Q9H8U3	ZFAN3_HUMAN	zinc finger, AN1-type domain 3	209							DNA binding|zinc ion binding			ovary(1)	1						ATGAAAATGGTGAAGCTGGAC	0.597													15	41					0	0	1	0	0		C	38120107	C	C	38120107	3	2	16	1	0	0	0	0	1	0	0	0	17654	1696	59	3	648	3	ZFAND3	6	38120107	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	500190	38120107	132994960	431	12106											
DNAH8	1769	broad.mit.edu	37	chr6	38840746	38840746	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggattgagaacttaaattcCgttttggatgacaataaaac	15	13	8	5	1	0	2	0	2	0	1	1	5	1	4	1	2	2	1	1	2	6	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:38840746C>T	uc003ooe.1	+	49	7251	c.6651C>T	c.(6649-6651)TCC>TCT	p.S2217S		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ACTTAAATTCCGTTTTGGATG	0.378													21	42					0	0	1	0	0		T	38840746	T	T	38840746	2	4	16	1	0	0	0	0	0	0	0	1	4613	639	23	1		1	DNAH8	6	38840746	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	720639	38840746	132274321	432	12107											
UBR2	23304	broad.mit.edu	37	chr6	42633221	42633221	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcaaataaaagcattacAgtttcttaggaaagaagaaa	20	9	7	5	0	2	2	1	0	1	2	2	3	2	3	0	1	3	3	0	1	8	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:42633221A>G	uc011dur.1	+	33	3773	c.3773A>G	c.(3772-3774)CAG>CGG	p.Q1258R	UBR2_uc011dus.1_Missense_Mutation_p.Q903R|UBR2_uc003osh.2_RNA	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	1258					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			AAAGCATTACAGTTTCTTAGG	0.333													28	60					0	0	1	0	0		G	42633221	G	G	42633221	3	3	16	1	0	0	0	0	1	0	0	0	16928	188	7	3	4049	3	UBR2	6	42633221	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	3792475	42633221	128481846	433	12108											
KIAA0240	23506	broad.mit.edu	37	chr6	42796237	42796237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttatttttttagaatgctGatcctaagtcatccctcaaa	11	17	5	8	0	2	2	2	1	0	1	4	2	4	2	2	0	1	2	2	0	5	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:42796237G>A	uc003osn.1	+	6	317	c.166G>A	c.(166-168)GAT>AAT	p.D56N	KIAA0240_uc003osm.1_Missense_Mutation_p.D56N|KIAA0240_uc011duw.1_Missense_Mutation_p.D56N|KIAA0240_uc003oso.1_Missense_Mutation_p.D56N|KIAA0240_uc003osp.1_Missense_Mutation_p.D56N	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	56										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			TTAGAATGCTGATCCTAAGTC	0.343													19	40					0	0	1	0	0		A	42796237	A	A	42796237	3	1	16	1	0	0	0	0	1	0	0	0	8180	1290	45	4	180	4	KIAA0240	6	42796237	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	163016	42796237	128318830	434	12109											
CUL9	23113	broad.mit.edu	37	chr6	43152490	43152490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcttcacaccatccacGtgctcagtgcctacgccagc	7	9	8	17	2	2	0	2	0	0	0	3	0	3	0	4	0	5	2	4	0	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:43152490G>A	uc003ouk.2	+	2	517	c.442G>A	c.(442-444)GTG>ATG	p.V148M	CUL9_uc003ouj.1_Missense_Mutation_p.V148M|CUL9_uc003oul.2_Missense_Mutation_p.V148M|CUL9_uc010jyk.2_Translation_Start_Site|CUL9_uc003oum.1_5'Flank	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	148					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						CACCATCCACGTGCTCAGTGC	0.622													18	36					0	0	1	0	0		A	43152490	A	A	43152490	3	1	16	1	0	0	0	0	1	0	0	0	4064	1145	40	1	444	1	CUL9	6	43152490	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	356253	43152490	127962577	435	12110											
TDRD6	221400	broad.mit.edu	37	chr6	46656522	46656522	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcacagcggccactgctagCgtgggctccggggtcccggt	4	7	15	15	4	1	0	1	0	0	0	3	0	3	0	3	5	3	2	3	5	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:46656522C>T	uc003oyj.2	+	1	657	c.657C>T	c.(655-657)AGC>AGT	p.S219S	TDRD6_uc010jze.2_Silent_p.S213S	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	219					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			CCACTGCTAGCGTGGGCTCCG	0.647													3	19					0	0	1	0	0		T	46656522	T	T	46656522	2	4	16	1	0	0	0	0	0	0	0	1	15759	767	27	1		1	TDRD6	6	46656522	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3504032	46656522	124458545	436	12111											
C6orf138	442213	broad.mit.edu	37	chr6	47846191	47846191	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaataacaaaacagtgcaGaagtgtgcaacccccagtga	18	6	8	9	0	0	2	0	1	0	1	0	2	0	2	2	0	5	2	2	0	7	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:47846191G>T	uc011dwm.1	-	3	2423	c.2338C>A	c.(2338-2340)CTG>ATG	p.L780M	C6orf138_uc011dwn.1_Missense_Mutation_p.L544M	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	797	Helical; (Potential).					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						AAACAGTGCAGAAGTGTGCAA	0.448													27	67					1.55811e-20	1.6952e-20	1	1	0		T	47846191	T	T	47846191	3	4	16	1	0	0	0	0	1	0	0	0	2335	933	33	5	155	5	C6orf138	6	47846191	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1189669	47846191	123268876	437	12112											
KIAA1586	57691	broad.mit.edu	37	chr6	56919147	56919147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcagcacatgaacctacGccttttatctgacagaaacc	14	10	5	12	1	2	3	1	2	1	1	2	3	2	3	3	0	4	1	3	0	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:56919147G>A	uc003pdj.2	+	4	2020	c.1850G>A	c.(1849-1851)CGC>CAC	p.R617H	KIAA1586_uc011dxm.1_Missense_Mutation_p.R590H	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	617							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			ATGAACCTACGCCTTTTATCT	0.308													20	49					0	0	1	0	0		A	56919147	A	A	56919147	3	1	16	1	0	0	0	0	1	0	0	0	8261	1087	38	1	1864	1	KIAA1586	6	56919147	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	9072956	56919147	114195920	438	12113											
EYS	346007	broad.mit.edu	37	chr6	66045023	66045023	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcttcactcaaacaactgCatccatttgcacaaatctat	13	13	2	13	0	4	0	2	0	2	0	5	0	5	0	1	0	4	2	1	0	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:66045023C>A	uc011dxu.1	-	11	2154	c.1616G>T	c.(1615-1617)TGC>TTC	p.C539F	EYS_uc003peq.2_Missense_Mutation_p.C539F|EYS_uc003per.1_Missense_Mutation_p.C539F	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	539					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						CAAACAACTGCATCCATTTGC	0.308													25	41					4.22769e-11	4.46766e-11	1	1	0		A	66045023	A	A	66045023	3	1	16	1	0	0	0	0	1	0	0	0	5340	710	25	5	7912	5	EYS	6	66045023	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	9125876	66045023	105070044	439	12114											
COL9A1	1297	broad.mit.edu	37	chr6	71011710	71011710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actatggcccttactggggcGacgcttgacagctgcagatg	8	9	13	11	2	0	2	0	1	0	1	0	3	0	2	1	3	3	3	1	3	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:71011710G>A	uc003pfg.3	-	2	241	c.82C>T	c.(82-84)CGC>TGC	p.R28C		NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	28	Nonhelical region (NC4).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						TTACTGGGGCGACGCTTGACA	0.463													10	14					0	0	1	0	0		A	71011710	A	A	71011710	3	1	16	1	0	0	0	0	1	0	0	0	3710	1058	37	1	2907	1	COL9A1	6	71011710	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4966687	71011710	100103357	440	12115											
RIMS1	22999	broad.mit.edu	37	chr6	72678706	72678706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgttgtcagggacatggCgaagcctgctgcctgcaaaa	9	9	14	9	1	1	0	1	0	0	0	1	2	1	1	2	2	4	3	2	2	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:72678706C>T	uc003pga.2	+	2	262	c.185C>T	c.(184-186)GCG>GTG	p.A62V		NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	62	RabBD.				calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				AGGGACATGGCGAAGCCTGCT	0.453													41	70					0	0	1	0	0		T	72678706	T	T	72678706	3	4	16	1	0	0	0	0	1	0	0	0	13392	768	27	1	191	1	RIMS1	6	72678706	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1666996	72678706	98436361	441	12116											
KCNQ5	56479	broad.mit.edu	37	chr6	73902416	73902416	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcaaggttgaaaaacaggTacaactcaactacgctgggt	14	8	11	8	1	2	1	2	1	0	0	2	1	2	1	0	4	5	3	0	4	7	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:73902416T>C	uc003pgk.2	+	13	2183	c.1836_splice	c.e13+2	p.Q612_splice	KCNQ5_uc011dyh.1_Splice_Site_p.Q631_splice|KCNQ5_uc011dyi.1_Splice_Site_p.Q622_splice|KCNQ5_uc010kat.2_Splice_Site_p.Q603_splice|KCNQ5_uc011dyj.1_Splice_Site_p.Q502_splice|KCNQ5_uc011dyk.1_Splice_Site_p.Q362_splice	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like						protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		GAAAAACAGGTACAACTCAAC	0.353													7	82					0	0	1	0	0		C	73902416	C	C	73902416	5	2	16	1	0	0	0	0	0	0	1	0	8102	1652	57	3	1949	3	KCNQ5	6	73902416	Splice_Site	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1223710	73902416	97212651	442	12117											
COL12A1	1303	broad.mit.edu	37	chr6	75797321	75797321	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttgcccgttgtatgggatGctggcacactgagaagaatc	9	10	12	10	1	0	2	0	1	0	2	1	4	0	3	2	2	2	4	2	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:75797321G>T	uc003phs.2	-	65	9319	c.9153C>A	c.(9151-9153)AGC>AGA	p.S3051R	COL12A1_uc003pht.2_Missense_Mutation_p.S1887R	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	3051	Nonhelical region (NC1).				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TGTATGGGATGCTGGCACACT	0.537													23	69					2.44723e-14	2.62294e-14	1	1	0		T	75797321	T	T	75797321	3	4	16	1	0	0	0	0	1	0	0	0	3672	1310	46	5	46	5	COL12A1	6	75797321	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1894905	75797321	95317746	443	12118											
COL12A1	1303	broad.mit.edu	37	chr6	75814988	75814988	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaagaatttggaaaagcAgggcattttccctcatctct	11	12	9	9	0	2	1	1	0	1	1	4	2	3	2	1	2	2	3	1	2	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:75814988A>G	uc003phs.2	-	54	8365	c.8199T>C	c.(8197-8199)CCT>CCC	p.P2733P	COL12A1_uc003pht.2_Silent_p.P1569P	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2733	Nonhelical region (NC3).				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTGGAAAAGCAGGGCATTTTC	0.428													4	27					0	0	1	0	0		G	75814988	G	G	75814988	2	3	16	1	0	0	0	0	0	0	0	1	3672	175	7	3		3	COL12A1	6	75814988	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	17667	75814988	95300079	444	12119											
SNX14	57231	broad.mit.edu	37	chr6	86223561	86223561	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaaaagtctgttttgctccTttttgcttatcttggagaga	8	18	8	7	0	3	1	1	0	2	1	4	3	4	2	1	1	2	3	1	1	3	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:86223561T>C	uc003pkr.2	-	26	2803	c.2610A>G	c.(2608-2610)AAA>AAG	p.K870K	SNX14_uc003pkp.2_Silent_p.K733K|SNX14_uc003pkq.2_Silent_p.K476K|SNX14_uc011dzg.1_Silent_p.K818K|SNX14_uc003pks.2_Silent_p.K817K|SNX14_uc003pkt.2_Silent_p.K861K	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a	870					cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		GTTTTGCTCCTTTTTGCTTAT	0.308													21	53					0	0	1	0	0		C	86223561	C	C	86223561	2	2	16	1	0	0	0	0	0	0	0	1	14910	1606	56	3		3	SNX14	6	86223561	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	10408573	86223561	84891506	445	12120											
ANKRD6	22881	broad.mit.edu	37	chr6	90340559	90340559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttacccagtatttttttgagGctgtttctacccagatggaa	9	16	8	8	0	1	2	0	1	1	1	1	3	1	3	2	2	2	3	2	2	4	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:90340559G>A	uc003pni.3	+	16	2361	c.2020G>A	c.(2020-2022)GCT>ACT	p.A674T	ANKRD6_uc003pne.3_Missense_Mutation_p.A669T|ANKRD6_uc003pnf.3_Missense_Mutation_p.A639T|ANKRD6_uc011dzy.1_Missense_Mutation_p.A674T|ANKRD6_uc010kcd.2_Missense_Mutation_p.A610T|LYRM2_uc010kce.1_Intron|LYRM2_uc003png.2_Intron|ANKRD6_uc003pnh.3_Missense_Mutation_p.A270T|LYRM2_uc010kcf.1_Intron|ANKRD6_uc003pnj.3_Missense_Mutation_p.A270T	NM_014942	NP_055757	Q9Y2G4	ANKR6_HUMAN	ankyrin repeat domain 6	674							protein binding			ovary(2)|pancreas(1)	3		all_cancers(76;1.22e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;1.83e-05)|Lung NSC(302;0.239)		BRCA - Breast invasive adenocarcinoma(108;0.0209)		TTTTTTTGAGGCTGTTTCTAC	0.522													11	33					0	0	1	0	0		A	90340559	A	A	90340559	3	1	16	1	0	0	0	0	1	0	0	0	685	1203	42	2	2063	2	ANKRD6	6	90340559	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4116998	90340559	80774508	446	12121											
MDN1	23195	broad.mit.edu	37	chr6	90402442	90402442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaaagccagcaaggctgtgGccagggtccccagcctgtct	8	6	14	13	0	1	0	0	0	1	0	2	1	2	1	5	4	3	2	5	4	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:90402442G>A	uc003pnn.1	-	63	10423	c.10307C>T	c.(10306-10308)GCC>GTC	p.A3436V		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	3436					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CAAGGCTGTGGCCAGGGTCCC	0.567													14	36					0	0	1	0	0		A	90402442	A	A	90402442	3	1	16	1	0	0	0	0	1	0	0	0	9433	1203	42	2	6643	2	MDN1	6	90402442	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	61883	90402442	80712625	447	12122											
BACH2	60468	broad.mit.edu	37	chr6	90642584	90642584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttcagttgattcctctctGacaacagtttctctttctca	7	18	4	12	0	4	2	2	2	3	0	8	2	5	2	1	0	1	2	1	0	1	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:90642584G>A	uc011eab.1	-	9	2878	c.2069C>T	c.(2068-2070)TCA>TTA	p.S690L	BACH2_uc003pnw.2_Missense_Mutation_p.S690L	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	690	Leucine-zipper.					nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		ATTCCTCTCTGACAACAGTTT	0.493													14	40					0	0	1	0	0		A	90642584	A	A	90642584	3	1	16	1	0	0	0	0	1	0	0	0	1285	1294	45	4	460	4	BACH2	6	90642584	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	240142	90642584	80472483	448	12123											
EPHA7	2045	broad.mit.edu	37	chr6	93967182	93967182	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcactttggtacttacccTgagaaatgcatctagggctc	10	12	9	10	0	2	1	1	1	1	1	3	3	2	1	1	2	3	3	1	2	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:93967182T>C	uc003poe.2	-	12	2411	c.2170A>G	c.(2170-2172)AGG>GGG	p.R724G	EPHA7_uc003pof.2_Missense_Mutation_p.R719G|EPHA7_uc011eac.1_Missense_Mutation_p.R720G	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	724	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		GTACTTACCCTGAGAAATGCA	0.328													14	37					0	0	1	0	0		C	93967182	C	C	93967182	3	2	16	1	0	0	0	0	1	0	0	0	5180	1579	55	3	850	3	EPHA7	6	93967182	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	3324598	93967182	77147885	449	12124											
KLHL32	114792	broad.mit.edu	37	chr6	97587132	97587132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accttcaaactcttcaagtgCctcatcacaggattggcacc	11	10	6	14	0	5	0	4	0	1	0	5	1	5	1	3	2	2	1	3	2	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:97587132C>T	uc010kcm.1	+	11	2309	c.1837C>T	c.(1837-1839)CCT>TCT	p.P613S	KLHL32_uc011ead.1_Missense_Mutation_p.P577S|KLHL32_uc003poz.2_Missense_Mutation_p.P169S|KLHL32_uc011eae.1_Missense_Mutation_p.P544S|KLHL32_uc003ppa.2_RNA	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	613										ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		TCTTCAAGTGCCTCATCACAG	0.458													46	80					0	0	1	0	0		T	97587132	T	T	97587132	3	4	16	1	0	0	0	0	1	0	0	0	8402	739	26	2	1875	2	KLHL32	6	97587132	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3619950	97587132	73527935	450	12125											
C6orf167	253714	broad.mit.edu	37	chr6	97711260	97711260	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagaagatgaataagtagaAcccataattctttaatgcat	17	12	6	6	0	1	4	0	1	1	3	1	4	1	4	1	0	2	2	1	0	8	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:97711260A>G	uc003ppb.2	-	9	1159	c.893T>C	c.(892-894)GTT>GCT	p.V298A	C6orf167_uc011eaf.1_Missense_Mutation_p.V298A|C6orf167_uc010kcn.1_Missense_Mutation_p.V72A|C6orf167_uc010kco.1_Intron|C6orf167_uc003ppc.2_Missense_Mutation_p.V298A	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	298					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		AATAAGTAGAACCCATAATTC	0.313													32	75					0	0	1	0	0		G	97711260	G	G	97711260	3	3	16	1	0	0	0	0	1	0	0	0	2345	43	2	3	2906	3	C6orf167	6	97711260	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	124128	97711260	73403807	451	12126											
ARMC2	84071	broad.mit.edu	37	chr6	109294600	109294600	+	Frame_Shift_Del	DEL	A	-	-																															ggcagttttgatccagacctAaaaaactatcacaaactcca																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:109294600delA	uc003pss.3	+	18	2661	c.2487delA	c.(2485-2487)CTAfs	p.L829fs	ARMC2_uc011eao.1_Frame_Shift_Del_p.L664fs	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	829							binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)		ATCCAGACCTAAAAAACTATC	0.373													50	99	---	---	---	---						.	-	109294600	-	-	109294600	7	5	16	1	0	1	0	1	0	0	0	0	952	349	13	0	2553	0	ARMC2	6	109294600	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	11583340	109294600	61820467	452	12127											
C6orf186	728464	broad.mit.edu	37	chr6	110620298	110620298	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaggatcaaaacgatgcaCttcacatccgttgttggcca	12	10	8	11	2	2	0	2	0	0	0	3	2	3	1	2	2	2	3	2	2	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:110620298C>A	uc010kdu.1	-	4	613	c.613G>T	c.(613-615)GTG>TTG	p.V205L	C6orf186_uc003pub.2_Missense_Mutation_p.V8L	NM_001123364	NP_001116836	Q5JXM2	CF186_HUMAN	chromosome 6 open reading frame 186 precursor	205						extracellular region					0						AAACGATGCACTTCACATCCG	0.458													7	102					0.00307968	0.0031135	1	1	0		A	110620298	A	A	110620298	3	1	16	1	0	0	0	0	1	0	0	0	2350	565	20	5	495	5	C6orf186	6	110620298	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1325698	110620298	60494769	453	12128											
ROS1	6098	broad.mit.edu	37	chr6	117674208	117674208	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgcctactccttagggcCttcacctgggaaacgatggc	9	10	10	12	1	1	0	1	0	0	0	2	2	2	1	4	3	3	0	4	3	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:117674208C>A	uc003pxp.1	-	26	4465	c.4266G>T	c.(4264-4266)AAG>AAT	p.K1422N	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1422	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TCCTTAGGGCCTTCACCTGGG	0.443			T	GOPC|ROS1	glioblastoma|NSCLC								10	96					2.80697e-09	2.94377e-09	1	1	0		A	117674208	A	A	117674208	3	1	16	1	0	0	0	0	1	0	0	0	13556	680	24	5	2849	5	ROS1	6	117674208	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7053910	117674208	53440859	454	12129											
GJA1	2697	broad.mit.edu	37	chr6	121768495	121768495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaagtctatctttgaggtgGccttcttgctgatccagtgg	6	15	11	9	0	4	2	1	2	3	0	5	2	5	2	2	3	1	1	2	3	2	4	rs111717577		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:121768495G>A	uc003pyr.2	+	2	752	c.502G>A	c.(502-504)GCC>ACC	p.A168T	GJA1_uc011ebo.1_Missense_Mutation_p.A69T|GJA1_uc011ebp.1_5'UTR	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	168	Helical; (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	CTTTGAGGTGGCCTTCTTGCT	0.473													33	76					0	0	1	0	0		A	121768495	A	A	121768495	3	1	16	1	0	0	0	0	1	0	0	0	6415	1203	42	2	504	2	GJA1	6	121768495	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4094287	121768495	49346572	455	12130											
PTPRK	5796	broad.mit.edu	37	chr6	128318068	128318068	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctataatgtttccatatcgGttttttgctctattttgatc	7	21	6	7	1	1	1	0	1	1	0	4	1	2	1	1	1	1	4	1	1	4	10			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:128318068G>T	uc003qbk.2	-	17	3109	c.2742C>A	c.(2740-2742)AAC>AAA	p.N914K	PTPRK_uc003qbj.2_Missense_Mutation_p.N915K|PTPRK_uc010kfc.2_Missense_Mutation_p.N915K|PTPRK_uc011ebu.1_Missense_Mutation_p.N931K	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	914	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		TTCCATATCGGTTTTTTGCTC	0.318													5	15					1.23904e-05	1.27126e-05	1	1	0		T	128318068	T	T	128318068	3	4	16	1	0	0	0	0	1	0	0	0	12830	1252	44	5	1655	5	PTPRK	6	128318068	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6549573	128318068	42796999	456	12131											
ARHGAP18	93663	broad.mit.edu	37	chr6	129959703	129959703	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaacacaatgctttcctgtgGatctccagcagactctccga	11	10	7	13	1	2	1	0	0	2	1	5	3	3	2	3	1	3	2	3	1	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:129959703G>T	uc003qbr.2	-	3	477	c.388C>A	c.(388-390)CCA>ACA	p.P130T	ARHGAP18_uc011ebw.1_Missense_Mutation_p.P130T	NM_033515	NP_277050	Q8N392	RHG18_HUMAN	Rho GTPase activating protein 18	130					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			ovary(2)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(136;0.0621)|GBM - Glioblastoma multiforme(226;0.0638)|all cancers(137;0.074)		CTTTCCTGTGGATCTCCAGCA	0.463													19	43					1.56452e-12	1.66181e-12	1	1	0		T	129959703	T	T	129959703	3	4	16	1	0	0	0	0	1	0	0	0	868	1174	41	5	1655	5	ARHGAP18	6	129959703	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1641635	129959703	41155364	457	12132											
SHPRH	257218	broad.mit.edu	37	chr6	146262872	146262872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctggttccgtaggcgacGcccatcctcactattgctat	6	13	8	14	3	2	0	1	0	1	0	4	1	4	0	3	2	1	3	3	2	3	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:146262872G>A	uc003qlf.2	-	10	2776	c.2377C>T	c.(2377-2379)CGT>TGT	p.R793C	SHPRH_uc003qld.2_Missense_Mutation_p.R793C|SHPRH_uc003qle.2_Missense_Mutation_p.R793C|SHPRH_uc003qlg.1_Missense_Mutation_p.R349C|SHPRH_uc003qlj.1_Missense_Mutation_p.R682C	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	793	Helicase ATP-binding; second part.				DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		CGTAGGCGACGCCCATCCTCA	0.468													18	54					0	0	1	0	0		A	146262872	A	A	146262872	3	1	16	1	0	0	0	0	1	0	0	0	14316	1087	38	1	2802	1	SHPRH	6	146262872	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	16303169	146262872	24852195	458	12133											
ULBP1	80329	broad.mit.edu	37	chr6	150290280	150290280	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcccatggacacggcagaGgatcttggcagttcctcttc	9	9	11	12	1	2	1	0	0	2	1	4	3	3	3	2	4	1	3	2	4	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:150290280G>T	uc003qnp.2	+	3	452	c.409G>T	c.(409-411)GGA>TGA	p.G137*		NM_025218	NP_079494	Q9BZM6	N2DL1_HUMAN	UL16 binding protein 1 precursor	137	MHC class I alpha-2 like.				antigen processing and presentation|immune response|natural killer cell activation|regulation of immune response	anchored to membrane|endoplasmic reticulum|MHC class I protein complex	MHC class I receptor activity			pancreas(1)	1		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.14e-11)		ACACGGCAGAGGATCTTGGCA	0.512													34	68					1.07637e-12	1.14623e-12	1	1	0		T	150290280	T	T	150290280	4	4	16	1	0	0	0	0	0	1	0	0	16998	1001	35	5	419	5	ULBP1	6	150290280	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4027408	150290280	20824787	459	12134											
C6orf211	79624	broad.mit.edu	37	chr6	151785658	151785658	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatgggtcacaggaatccAtcattgctttatgtactcac	10	14	7	10	0	4	0	3	0	1	0	5	1	5	1	1	2	2	2	1	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:151785658A>T	uc003qok.1	+	4	722	c.463A>T	c.(463-465)ATC>TTC	p.I155F	C6orf211_uc011ees.1_Missense_Mutation_p.I36F	NM_024573	NP_078849	Q9H993	CF211_HUMAN	hypothetical protein LOC79624	155							protein binding				0			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)		ACAGGAATCCATCATTGCTTT	0.328													7	46					0	0	1	0	0		T	151785658	T	T	151785658	3	4	16	1	0	0	0	0	1	0	0	0	2357	217	8	5	477	5	C6orf211	6	151785658	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1495378	151785658	19329409	460	12135											
SYNE1	23345	broad.mit.edu	37	chr6	152469223	152469223	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtagaaatctttgtcatcCtgaccttcttcatcctcaga	10	14	6	11	0	5	3	3	1	2	2	7	3	7	3	3	1	0	1	3	1	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:152469223C>A	uc010kiw.2	-	137	25535	c.24933G>T	c.(24931-24933)CAG>CAT	p.Q8311H	SYNE1_uc010kiv.2_Missense_Mutation_p.Q2835H|SYNE1_uc003qos.3_Missense_Mutation_p.Q2835H|SYNE1_uc003qot.3_Missense_Mutation_p.Q8240H|SYNE1_uc003qou.3_Missense_Mutation_p.Q8311H|SYNE1_uc003qop.3_Missense_Mutation_p.Q473H|SYNE1_uc011eez.1_Missense_Mutation_p.Q513H|SYNE1_uc003qoq.3_Missense_Mutation_p.Q513H|SYNE1_uc003qor.3_Missense_Mutation_p.Q1211H	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	8311	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTTTGTCATCCTGACCTTCTT	0.512										HNSCC(10;0.0054)			21	36					5.35356e-11	5.65022e-11	1	1	0		A	152469223	A	A	152469223	3	1	16	1	0	0	0	0	1	0	0	0	15470	680	24	5	1573	5	SYNE1	6	152469223	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	683565	152469223	18645844	461	12136											
TIAM2	26230	broad.mit.edu	37	chr6	155561718	155561718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaacgacagtcaggccaacGgcatggaaggaccgcgggag	12	4	15	10	4	1	0	1	0	0	0	1	4	1	3	2	5	2	1	2	5	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:155561718G>A	uc003qqb.2	+	18	4496	c.3223G>A	c.(3223-3225)GGC>AGC	p.G1075S	TIAM2_uc003qqe.2_Missense_Mutation_p.G1075S|TIAM2_uc010kjj.2_Missense_Mutation_p.G608S|TIAM2_uc003qqf.2_Missense_Mutation_p.G451S|TIAM2_uc011efl.1_Missense_Mutation_p.G411S|TIAM2_uc003qqg.2_Missense_Mutation_p.G387S|TIAM2_uc003qqh.2_5'UTR	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1075					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		TCAGGCCAACGGCATGGAAGG	0.577													24	43					0	0	1	0	0		A	155561718	A	A	155561718	3	1	16	1	0	0	0	0	1	0	0	0	15916	1116	39	1	3273	1	TIAM2	6	155561718	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3092495	155561718	15553349	462	12137											
SYNJ2	8871	broad.mit.edu	37	chr6	158492720	158492720	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catccgcttccagttccacaGcaccagcttctgcttcatat	8	12	5	16	1	2	0	1	0	1	0	5	0	5	0	4	0	3	5	4	0	1	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:158492720G>T	uc003qqx.1	+	15	2102	c.2027G>T	c.(2026-2028)AGC>ATC	p.S676I	SYNJ2_uc003qqw.1_Missense_Mutation_p.S676I|SYNJ2_uc003qqy.1_Missense_Mutation_p.S389I|SYNJ2_uc003qqz.1_Missense_Mutation_p.S293I|SYNJ2_uc003qra.1_Missense_Mutation_p.S19I	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	676	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		CAGTTCCACAGCACCAGCTTC	0.587													12	13					4.36969e-10	4.59136e-10	1	1	0		T	158492720	T	T	158492720	3	4	16	1	0	0	0	0	1	0	0	0	15478	971	34	5	2085	5	SYNJ2	6	158492720	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2931002	158492720	12622347	463	12138											
ACAT2	39	broad.mit.edu	37	chr6	160199806	160199806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcagaagtcgtggtgttgCagccctgtgcattgggggtg	5	10	19	7	1	0	1	0	0	0	1	1	1	0	1	1	4	3	4	1	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:160199806C>T	uc010kjy.2	+	9	1270	c.1139C>T	c.(1138-1140)GCA>GTA	p.A380V	ACAT2_uc011efw.1_Missense_Mutation_p.A409V|TCP1_uc003qsr.2_3'UTR|TCP1_uc003qss.2_3'UTR|TCP1_uc010kjz.2_3'UTR|TCP1_uc003qst.2_3'UTR	NM_005891	NP_005882	Q9BWD1	THIC_HUMAN	acetyl-Coenzyme A acetyltransferase 2	380						mitochondrion|nucleolus	acetyl-CoA C-acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.51e-18)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		CGTGGTGTTGCAGCCCTGTGC	0.468													28	47					0	0	1	0	0		T	160199806	T	T	160199806	3	4	16	1	0	0	0	0	1	0	0	0	122	710	25	2	1173	2	ACAT2	6	160199806	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1707086	160199806	10915261	464	12139											
LPA	4018	broad.mit.edu	37	chr6	161027563	161027563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaatagttggaggcgcgaCggcagtcccttctgcgtctg	6	10	15	10	4	2	0	0	0	2	0	3	2	3	1	1	4	1	3	1	4	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:161027563C>T	uc003qtl.2	-	18	2851	c.2731G>A	c.(2731-2733)GTC>ATC	p.V911I		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3419	Kringle 30.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	GGAGGCGCGACGGCAGTCCCT	0.547													51	108					0	0	1	0	0		T	161027563	T	T	161027563	3	4	16	1	0	0	0	0	1	0	0	0	8921	536	19	1	3483	1	LPA	6	161027563	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	827757	161027563	10087504	465	12140											
PHF10	55274	broad.mit.edu	37	chr6	170118937	170118937	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatattcactgacttgttctTgaagcatatagtattctcct	11	17	5	8	0	3	2	1	2	2	0	4	2	3	2	1	0	1	3	1	0	6	9			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr6:170118937T>C	uc011egy.1	-	3	351	c.272A>G	c.(271-273)CAA>CGA	p.Q91R	PHF10_uc011egz.1_Missense_Mutation_p.Q91R|PHF10_uc011eha.1_5'Flank	NM_018288	NP_060758	Q8WUB8	PHF10_HUMAN	PHD finger protein 10 isoform a	91	SAY.|Essential to induce neural progenitor proliferation (By similarity).				nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	npBAF complex	zinc ion binding			urinary_tract(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.4e-21)|BRCA - Breast invasive adenocarcinoma(81;1.4e-07)|GBM - Glioblastoma multiforme(31;0.00176)		GACTTGTTCTTGAAGCATATA	0.299													26	65					0	0	1	0	0		C	170118937	C	C	170118937	3	2	16	1	0	0	0	0	1	0	0	0	11840	1812	63	3	1264	3	PHF10	6	170118937	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	9091374	170118937	996130	466	12141											
HEATR2	54919	broad.mit.edu	37	chr7	769421	769421	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtgatccattttggcaaCgggaagtccgtggacgacgt	9	9	14	9	4	0	1	0	1	0	0	2	4	2	3	2	3	1	2	2	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:769421C>T	uc010krz.1	+	2	737	c.717C>T	c.(715-717)AAC>AAT	p.N239N	PRKAR1B_uc003siw.1_5'Flank|HEATR2_uc003siz.2_Silent_p.N107N	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	239	HEAT 2.						protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		ATTTTGGCAACGGGAAGTCCG	0.567													11	22					0	0	1	0	0		T	769421	T	T	769421	2	4	16	1	0	0	0	0	0	0	0	1	7044	535	19	1		1	HEATR2	7	769421	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08		769421	158369242	467	12142											
SUN1	23353	broad.mit.edu	37	chr7	872217	872217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgtgtgccggagaacaCgggctacacgtatgcgctca	9	7	13	12	4	1	1	1	0	0	1	1	2	1	1	2	2	4	3	2	2	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:872217C>T	uc011jvp.1	+	2	135	c.56C>T	c.(55-57)ACG>ATG	p.T19M	SUN1_uc010ksa.1_Missense_Mutation_p.T40M|SUN1_uc003sje.1_Missense_Mutation_p.T19M|SUN1_uc003sjf.2_Intron|SUN1_uc011jvq.1_Missense_Mutation_p.T19M	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	19	Nuclear.|LMNA-binding.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						CCGGAGAACACGGGCTACACG	0.567													11	10					0	0	1	0	0		T	872217	T	T	872217	3	4	16	1	0	0	0	0	1	0	0	0	15416	536	19	1	125	1	SUN1	7	872217	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	102796	872217	158266446	468	12143											
EIF3B	8662	broad.mit.edu	37	chr7	2418871	2418871	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaacgagcgcctggagttgCgaggaggtaacttagagatc	13	7	14	7	3	0	1	0	0	0	1	1	6	0	3	1	3	4	2	1	3	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:2418871C>T	uc003slx.2	+	17	2418	c.2335C>T	c.(2335-2337)CGA>TGA	p.R779*	EIF3B_uc003sly.2_Nonsense_Mutation_p.R779*|EIF3B_uc003sma.2_Nonsense_Mutation_p.R507*|EIF3B_uc003smb.2_RNA	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,	779					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		CCTGGAGTTGCGAGGAGGTAA	0.592													8	25					0	0	1	0	0		T	2418871	T	T	2418871	4	4	16	1	0	0	0	0	0	1	0	0	5019	760	27	1	2401	1	EIF3B	7	2418871	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1546654	2418871	156719792	469	12144											
RNF216	54476	broad.mit.edu	37	chr7	5752364	5752364	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctgacaagctcgtcggcgTaggctgccgcaacctcctcc	7	7	10	17	4	0	1	0	1	0	0	4	1	2	1	5	2	3	4	5	2	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:5752364T>C	uc003soy.1	-	12	1983	c.1793A>G	c.(1792-1794)TAC>TGC	p.Y598C	RNF216_uc010ksz.1_Missense_Mutation_p.Y220C|RNF216_uc010kta.1_Missense_Mutation_p.Y220C|RNF216_uc011jwj.1_Missense_Mutation_p.Y220C|RNF216_uc003sox.1_Missense_Mutation_p.Y655C	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	598	IBR-type.				apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		CTCGTCGGCGTAGGCTGCCGC	0.542													3	12					0	0	1	0	0		C	5752364	C	C	5752364	3	2	16	1	0	0	0	0	1	0	0	0	13505	1638	57	3	831	3	RNF216	7	5752364	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	3333493	5752364	153386299	470	12145											
CYTH3	9265	broad.mit.edu	37	chr7	6210230	6210230	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcaggtcgttcccgtcGtcctccgggatcttaaatgg	5	12	13	11	4	2	0	1	0	1	0	7	1	5	1	3	4	0	1	3	4	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:6210230G>A	uc003spt.2	-	9	863	c.759C>T	c.(757-759)GAC>GAT	p.D253D	CYTH3_uc011jws.1_Silent_p.D168D	NM_004227	NP_004218	O43739	CYH3_HUMAN	cytohesin 3	253					regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|membrane fraction|plasma membrane	1-phosphatidylinositol binding|ARF guanyl-nucleotide exchange factor activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity				0						CGTTCCCGTCGTCCTCCGGGA	0.602													10	20					0	0	1	0	0		A	6210230	A	A	6210230	2	1	16	1	0	0	0	0	0	0	0	1	4208	1136	40	1		1	CYTH3	7	6210230	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	457866	6210230	152928433	471	12146											
SNX13	23161	broad.mit.edu	37	chr7	17855827	17855827	+	Frame_Shift_Del	DEL	T	-	-																															gcaaatatgcatttagatccTtttttctcttttctaaaaaa																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:17855827delT	uc003stw.1	-	19	2177	c.1964delA	c.(1963-1965)AAGfs	p.K655fs	SNX13_uc003stv.2_Frame_Shift_Del_p.K644fs|SNX13_uc010kuc.2_Frame_Shift_Del_p.K441fs|SNX13_uc010kub.2_Frame_Shift_Del_p.K50fs			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;	655	PX.				cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					ATTTAGATCCTTTTTTCTCTT	0.274													4	3	---	---	---	---						.	-	17855827	-	-	17855827	7	5	16	1	0	1	0	1	0	0	0	0	14909	1609	56	0	974	0	SNX13	7	17855827	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	11645597	17855827	141282836	472	12147											
DNAH11	8701	broad.mit.edu	37	chr7	21747335	21747335	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agattttgagaacactgaacCgaacatatgttaacatgaaa	18	10	7	6	1	0	4	0	3	0	2	0	6	0	4	1	0	4	1	1	0	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:21747335C>T	uc003svc.2	+	41	6617	c.6586C>T	c.(6586-6588)CGA>TGA	p.R2196*		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2196	AAA 2 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AACACTGAACCGAACATATGT	0.378									Kartagener_syndrome				15	27					0	0	1	0	0		T	21747335	T	T	21747335	4	4	16	1	0	0	0	0	0	1	0	0	4605	644	23	1	6745	1	DNAH11	7	21747335	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3891508	21747335	137391328	473	12148											
IGF2BP3	10643	broad.mit.edu	37	chr7	23509592	23509592	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttgagggcccagctctcGtccgggcagtccacgaacgc	6	6	13	16	4	1	1	0	1	1	0	4	2	3	1	4	2	2	2	4	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:23509592G>A	uc003swg.2	-	1	404	c.138C>T	c.(136-138)GAC>GAT	p.D46D	IGF2BP3_uc003swh.1_RNA	NM_006547	NP_006538	O00425	IF2B3_HUMAN	insulin-like growth factor 2 mRNA binding	46	RRM 1.				anatomical structure morphogenesis|negative regulation of translation|translation	cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			ovary(2)	2						CCCAGCTCTCGTCCGGGCAGT	0.697													16	24					0	0	1	0	0		A	23509592	A	A	23509592	2	1	16	1	0	0	0	0	0	0	0	1	7591	1136	40	1		1	IGF2BP3	7	23509592	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1762257	23509592	135629071	474	12149											
STK31	56164	broad.mit.edu	37	chr7	23811811	23811811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	taaataagagtcccagtgtgGatcacttgctatccattaag	13	12	8	8	0	1	1	1	0	0	1	3	2	3	2	2	1	1	1	2	1	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:23811811G>A	uc003sws.3	+	15	1946	c.1879G>A	c.(1879-1881)GAT>AAT	p.D627N	STK31_uc003swt.3_Missense_Mutation_p.D604N|STK31_uc011jze.1_Missense_Mutation_p.D627N|STK31_uc010kuq.2_Missense_Mutation_p.D604N	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	627							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						TCCCAGTGTGGATCACTTGCT	0.303													16	44					0	0	1	0	0		A	23811811	A	A	23811811	3	1	16	1	0	0	0	0	1	0	0	0	15321	1174	41	4	1937	4	STK31	7	23811811	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	302219	23811811	135326852	475	12150											
HOXA3	3200	broad.mit.edu	37	chr7	27149829	27149829	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgggtgagttgagcaggGggctcttggccgcgttggca	4	10	19	8	2	1	2	0	2	1	0	1	2	1	2	1	5	1	5	1	5	0	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:27149829G>T	uc011jzl.1	-	2	631	c.431C>A	c.(430-432)CCC>CAC	p.P144H	HOXA3_uc011jzk.1_5'UTR|HOXA3_uc003syk.2_Missense_Mutation_p.P144H	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	144					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						GTTGAGCAGGGGGCTCTTGGC	0.453													4	69					1	1	1	1	0		T	27149829	T	T	27149829	3	4	16	1	0	0	0	0	1	0	0	0	7309	1232	43	5	908	5	HOXA3	7	27149829	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3338018	27149829	131988834	476	12151											
C7orf41	222166	broad.mit.edu	37	chr7	30185810	30185810	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcacgtgtggagtgagagCgaggactgcctgcctttctt	7	10	14	10	2	1	1	0	1	1	1	1	5	1	3	2	2	4	1	2	2	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:30185810C>T	uc011kab.1	+	2	381	c.180C>T	c.(178-180)AGC>AGT	p.S60S	C7orf41_uc010kvr.1_RNA|C7orf41_uc003tar.1_Silent_p.S60S	NM_152793	NP_690006	Q8N3F0	CG041_HUMAN	hypothetical protein LOC222166	60											0						GGAGTGAGAGCGAGGACTGCC	0.522													12	34					0	0	1	0	0		T	30185810	T	T	30185810	2	4	16	1	0	0	0	0	0	0	0	1	2394	767	27	1		1	C7orf41	7	30185810	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3035981	30185810	128952853	477	12152											
PDE1C	5137	broad.mit.edu	37	chr7	31890296	31890296	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggtggttccggtatgctcGtagtcatggatggcagctga	6	13	15	7	2	1	1	1	1	0	0	3	2	2	2	1	5	2	6	1	5	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:31890296G>A	uc003tcm.1	-	8	1279	c.810C>T	c.(808-810)TAC>TAT	p.Y270Y	PDE1C_uc003tcn.1_Silent_p.Y270Y|PDE1C_uc003tco.1_Silent_p.Y330Y|PDE1C_uc003tcr.2_Silent_p.Y270Y|PDE1C_uc003tcs.2_Silent_p.Y270Y	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	270	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			CGGTATGCTCGTAGTCATGGA	0.443													32	68					0	0	1	0	0		A	31890296	A	A	31890296	2	1	16	1	0	0	0	0	0	0	0	1	11654	1140	40	1		1	PDE1C	7	31890296	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1704486	31890296	127248367	478	12153											
GLI3	2737	broad.mit.edu	37	chr7	42005174	42005174	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaggtcggcgcttccggagCtgacttcgttccactgaatg	7	10	12	12	4	0	2	0	2	0	0	4	3	2	3	2	3	1	3	2	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:42005174C>A	uc011kbh.1	-	15	3588	c.3497G>T	c.(3496-3498)AGC>ATC	p.S1166I	GLI3_uc011kbg.1_Missense_Mutation_p.S1107I	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1166					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GCTTCCGGAGCTGACTTCGTT	0.667									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				28	48					1.75199e-13	1.86931e-13	1	1	0		A	42005174	A	A	42005174	3	1	16	1	0	0	0	0	1	0	0	0	6454	797	28	5	1249	5	GLI3	7	42005174	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	10114878	42005174	117133489	479	12154											
GLI3	2737	broad.mit.edu	37	chr7	42012141	42012141	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtgacatgagcctctgggCcatgcactgtcttcacatgt	7	12	11	11	0	3	2	1	2	2	0	3	2	3	2	2	2	2	1	2	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:42012141C>A	uc011kbh.1	-	13	1989	c.1898G>T	c.(1897-1899)GGC>GTC	p.G633V	GLI3_uc011kbg.1_Missense_Mutation_p.G574V	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	633					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						AGCCTCTGGGCCATGCACTGT	0.577									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				17	30					3.52763e-06	3.63965e-06	1	1	0		A	42012141	A	A	42012141	3	1	16	1	0	0	0	0	1	0	0	0	6454	739	26	5	2856	5	GLI3	7	42012141	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6967	42012141	117126522	480	12155											
AEBP1	165	broad.mit.edu	37	chr7	44151800	44151800	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagggctttgacatcttTgaagatttcccggatctcaa	10	12	11	8	1	2	3	1	2	2	1	4	6	3	5	1	3	0	1	1	3	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:44151800T>C	uc003tkb.2	+	17	2402	c.2097T>C	c.(2095-2097)TTT>TTC	p.F699F	AEBP1_uc003tkc.3_Silent_p.F274F|AEBP1_uc003tkd.2_Intron	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	699	Interaction with PTEN (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTGACATCTTTGAAGATTTCC	0.587													27	41					0	0	1	0	0		C	44151800	C	C	44151800	2	2	16	1	0	0	0	0	0	0	0	1	349	1809	63	3		3	AEBP1	7	44151800	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2139659	44151800	114986863	481	12156											
OGDH	4967	broad.mit.edu	37	chr7	44747227	44747228	+	Frame_Shift_Ins	INS	-	C	C																															ctgaaggaggtgcagaagtaINSccccaatgctgagctggcct																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:44747227_44747228insC	uc003tln.2	+	22	2952_2953	c.2843_2844insC	c.(2842-2844)TACfs	p.Y948fs	OGDH_uc011kbx.1_Frame_Shift_Ins_p.Y944fs|OGDH_uc011kby.1_Frame_Shift_Ins_p.Y798fs|OGDH_uc003tlp.2_Frame_Shift_Ins_p.Y959fs|OGDH_uc011kbz.1_Frame_Shift_Ins_p.Y743fs	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	948					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	GTGCAGAAGTACCCCAATGCTG	0.564													61	130	---	---	---	---						.	C	44747228	C	C	44747227	7	5	16	1	0	1	1	0	0	0	0	0	10858	391	14	0	3098	0	OGDH	7	44747227	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	595427	44747227	114391436	482	12157											
ZMIZ2	83637	broad.mit.edu	37	chr7	44806205	44806205	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcagtcctgccacaggCgtgatggggccccccagcat	6	7	12	16	1	1	1	1	1	0	0	2	1	2	1	6	3	2	1	6	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:44806205C>T	uc003tlr.2	+	18	2721	c.2598C>T	c.(2596-2598)GGC>GGT	p.G866G	ZMIZ2_uc003tlq.2_Silent_p.G808G|ZMIZ2_uc003tls.2_Silent_p.G840G|ZMIZ2_uc003tlt.2_Silent_p.G489G|ZMIZ2_uc010kyj.2_Silent_p.G388G|ZMIZ2_uc003tlu.2_Silent_p.G147G|ZMIZ2_uc010kyk.1_5'Flank	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	866	Pro-rich.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						CTGCCACAGGCGTGATGGGGC	0.677													5	21					0	0	1	0	0		T	44806205	T	T	44806205	2	4	16	1	0	0	0	0	0	0	0	1	17722	755	27	1		1	ZMIZ2	7	44806205	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	58978	44806205	114332458	483	12158											
MYO1G	64005	broad.mit.edu	37	chr7	45016545	45016545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatagagatggggtggcCgctcatagagctcacggccc	9	6	14	12	2	2	2	2	0	0	2	2	3	2	2	2	4	2	3	2	4	2	2	rs144045009	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:45016545C>T	uc003tmh.2	-	2	365	c.221G>A	c.(220-222)CGG>CAG	p.R74Q	MYO1G_uc003tmg.2_5'Flank|MYO1G_uc010kym.2_Intron|MYO1G_uc003tmi.1_5'UTR|MYO1G_uc003tmj.2_5'UTR	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	74	Myosin head-like.					myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						ATGGGGTGGCCGCTCATAGAG	0.627													15	27					0	0	1	0	0		T	45016545	T	T	45016545	3	4	16	1	0	0	0	0	1	0	0	0	10092	652	23	1	2919	1	MYO1G	7	45016545	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	210340	45016545	114122118	484	12159											
ABCA13	154664	broad.mit.edu	37	chr7	48375117	48375117	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagtggaagtggccagatGttcaaccagctgcaggtgag	12	7	15	7	0	1	3	1	1	0	2	1	4	1	4	2	3	3	3	2	3	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:48375117G>T	uc003toq.2	+	28	10123	c.10098G>T	c.(10096-10098)ATG>ATT	p.M3366I	ABCA13_uc010kys.1_Missense_Mutation_p.M440I|ABCA13_uc003tos.1_Missense_Mutation_p.M192I	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3366					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GTGGCCAGATGTTCAACCAGC	0.483													17	49					1.02788e-11	1.08831e-11	1	1	0		T	48375117	T	T	48375117	3	4	16	1	0	0	0	0	1	0	0	0	31	1377	48	5	10037	5	ABCA13	7	48375117	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3358572	48375117	110763546	485	12160											
ABCA13	154664	broad.mit.edu	37	chr7	48411974	48411974	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctacctcttgagtgcattTttcagccaagctaatacagc	11	12	7	11	0	2	1	1	1	1	0	2	1	2	1	2	0	7	3	2	0	4	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:48411974T>G	uc003toq.2	+	33	11038	c.11013T>G	c.(11011-11013)TTT>TTG	p.F3671L	ABCA13_uc010kys.1_Missense_Mutation_p.F745L|ABCA13_uc003tos.1_Missense_Mutation_p.F497L	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3671					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TGAGTGCATTTTTCAGCCAAG	0.428													52	110					0	0	1	0	0		G	48411974	G	G	48411974	3	3	16	1	0	0	0	0	1	0	0	0	31	1838	64	5	10972	5	ABCA13	7	48411974	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	36857	48411974	110726689	486	12161											
COBL	23242	broad.mit.edu	37	chr7	51097038	51097038	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttcatggggctggctgtgCtcagcttgaagtggcgccag	5	12	15	9	1	2	1	2	1	0	0	2	1	2	1	1	4	2	4	1	4	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:51097038C>T	uc003tpr.3	-	10	1940	c.1755G>A	c.(1753-1755)GAG>GAA	p.E585E	COBL_uc003tps.2_Silent_p.E642E|COBL_uc011kcl.1_Silent_p.E585E|COBL_uc003tpp.3_Silent_p.E371E|COBL_uc003tpq.3_Silent_p.E526E|COBL_uc003tpo.3_Silent_p.E127E	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	585										skin(3)|ovary(2)	5	Glioma(55;0.08)					GCTGGCTGTGCTCAGCTTGAA	0.547													14	31					0	0	1	0	0		T	51097038	T	T	51097038	2	4	16	1	0	0	0	0	0	0	0	1	3656	796	28	2		2	COBL	7	51097038	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2685064	51097038	108041625	487	12162											
AUTS2	26053	broad.mit.edu	37	chr7	70255840	70255840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctcaacaagacccctcCgacagcagcgctgagcgcac	11	4	8	18	3	1	2	1	1	0	1	3	3	3	2	4	0	4	3	4	0	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:70255840C>T	uc003tvw.3	+	19	4381	c.3638C>T	c.(3637-3639)CCG>CTG	p.P1213L	AUTS2_uc003tvx.3_Missense_Mutation_p.P1189L|AUTS2_uc011keg.1_Missense_Mutation_p.P665L	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	1213										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		AAGACCCCTCCGACAGCAGCG	0.677													4	21					0	0	1	0	0		T	70255840	T	T	70255840	3	4	16	1	0	0	0	0	1	0	0	0	1226	652	23	1	3857	1	AUTS2	7	70255840	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	19158802	70255840	88882823	488	12163											
TBL2	26608	broad.mit.edu	37	chr7	72985121	72985121	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgggtattgtagagatgaaTactactgccactggccaagg	11	9	12	9	1	0	2	0	1	0	1	0	3	0	2	3	3	3	2	3	3	6	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:72985121T>C	uc003tyh.2	-	7	1194	c.1060A>G	c.(1060-1062)ATT>GTT	p.I354V	TBL2_uc011kex.1_Missense_Mutation_p.I318V|TBL2_uc010lbg.2_Missense_Mutation_p.I259V|TBL2_uc003tyi.2_Missense_Mutation_p.I189V|TBL2_uc011key.1_Missense_Mutation_p.I225V|TBL2_uc010lbh.2_Missense_Mutation_p.I259V	NM_012453	NP_036585	Q9Y4P3	TBL2_HUMAN	transducin (beta)-like 2	354	WD 6.										0		Lung NSC(55;0.0659)|all_lung(88;0.152)				TAGAGATGAATACTACTGCCA	0.627													5	103					0	0	1	0	0		C	72985121	C	C	72985121	3	2	16	1	0	0	0	0	1	0	0	0	15667	1406	49	3	287	3	TBL2	7	72985121	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2729281	72985121	86153542	489	12164											
MLXIPL	51085	broad.mit.edu	37	chr7	73011554	73011554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggggttgttgctccccgCagtggtggggggactggcag	4	8	20	9	1	0	0	0	0	0	0	1	1	1	1	2	7	1	6	2	7	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:73011554C>T	uc003tyn.1	-	9	1609	c.1561G>A	c.(1561-1563)GCG>ACG	p.A521T	MLXIPL_uc003tyj.1_5'UTR|MLXIPL_uc003tyk.1_Missense_Mutation_p.A521T|MLXIPL_uc003tyl.1_Missense_Mutation_p.A521T|MLXIPL_uc003tym.1_Missense_Mutation_p.A521T|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_Missense_Mutation_p.A428T|MLXIPL_uc003tyq.1_Missense_Mutation_p.A263T	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	521					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				TTGCTCCCCGCAGTGGTGGGG	0.687													3	4					0	0	1	0	0		T	73011554	T	T	73011554	3	4	16	1	0	0	0	0	1	0	0	0	9655	710	25	2	1033	2	MLXIPL	7	73011554	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	26433	73011554	86127109	490	12165											
GTF2I	2969	broad.mit.edu	37	chr7	74159243	74159243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacgacttgaaaggatcGtccgcgggagtaataaaatc	13	9	10	9	4	0	1	0	1	0	0	4	4	2	3	2	2	0	1	2	2	4	4	rs139477988		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:74159243G>A	uc003uau.2	+	21	2267	c.1897G>A	c.(1897-1899)GTC>ATC	p.V633I	GTF2I_uc003uav.2_Missense_Mutation_p.V612I|GTF2I_uc003uaw.2_Missense_Mutation_p.V613I|GTF2I_uc003uay.2_Missense_Mutation_p.V611I|GTF2I_uc003uax.2_Missense_Mutation_p.V592I	NM_032999	NP_127492	P78347	GTF2I_HUMAN	general transcription factor IIi isoform 1	633	GTF2I-like 4.				negative regulation of angiogenesis|signal transduction|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0						TGAAAGGATCGTCCGCGGGAG	0.418													21	123					0	0	1	0	0		A	74159243	A	A	74159243	3	1	16	1	0	0	0	0	1	0	0	0	6883	1145	40	1	1975	1	GTF2I	7	74159243	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1147689	74159243	84979420	491	12166											
POM121C	100101267	broad.mit.edu	37	chr7	75066870	75066870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggatgccacttgtgtaagCgcctgtcaaggagctcatgg	9	9	14	9	1	2	0	2	0	0	0	2	2	2	2	2	3	3	2	2	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:75066870C>T	uc010lde.1	-	5	1129	c.1129G>A	c.(1129-1131)GCT>ACT	p.A377T	POM121C_uc003udk.3_Missense_Mutation_p.A135T			A8CG34	P121C_HUMAN	Homo sapiens POM121-2 mRNA for nuclear pore membrane protein 121-2, partial cds.	377	Required for targeting to the nucleus and nuclear pore complex.|Pore side (Potential).|Ser-rich.				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						CTTGTGTAAGCGCCTGTCAAG	0.507													75	175					0	0	1	0	0		T	75066870	T	T	75066870	3	4	16	1	0	0	0	0	1	0	0	0	12259	768	27	1	2596	1	POM121C	7	75066870	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	907627	75066870	84071793	492	12167											
SRCRB4D	136853	broad.mit.edu	37	chr7	76029799	76029799	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagctggcgacacactacGttggcgtccaccacgtccca	8	6	9	18	4	0	0	0	0	0	0	2	1	2	0	4	2	2	2	4	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:76029799G>A	uc003ufb.2	-	4	627	c.279C>T	c.(277-279)AAC>AAT	p.N93N	ZP3_uc003ufc.3_Intron	NM_080744	NP_542782	Q8WTU2	SRB4D_HUMAN	scavenger receptor cysteine rich domain	93	SRCR 1.					extracellular region|membrane	scavenger receptor activity			pancreas(1)	1						GACACACTACGTTGGCGTCCA	0.697													4	6					0	0	1	0	0		A	76029799	A	A	76029799	2	1	16	1	0	0	0	0	0	0	0	1	15162	1136	40	1		1	SRCRB4D	7	76029799	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	962929	76029799	83108864	493	12168											
PCLO	27445	broad.mit.edu	37	chr7	82390067	82390067	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcacctttttttgggtaGaaatattcatcacatatatt	12	18	5	6	0	3	2	3	1	0	1	3	2	3	2	1	1	0	1	1	1	5	9			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:82390067G>T	uc003uhx.2	-	24	15465	c.15176C>A	c.(15175-15177)TCT>TAT	p.S5059Y		NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4982	C2 2.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTTTTGGGTAGAAATATTCAT	0.299													16	18					1.52009e-12	1.61668e-12	1	1	0		T	82390067	T	T	82390067	3	4	16	1	0	0	0	0	1	0	0	0	11602	942	33	5	260	5	PCLO	7	82390067	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6360268	82390067	76748596	494	12169											
KIAA1324L	222223	broad.mit.edu	37	chr7	86522383	86522383	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagaaattcctttaatgcAccatttaggttcattccaca	14	13	4	10	0	1	1	1	0	0	1	3	1	3	1	3	1	1	2	3	1	4	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:86522383A>G	uc011kha.1	-	20	2904	c.2719T>C	c.(2719-2721)TGC>CGC	p.C907R	KIAA1324L_uc003uif.1_Missense_Mutation_p.C667R|KIAA1324L_uc011kgz.1_Missense_Mutation_p.C793R|KIAA1324L_uc003uie.2_Missense_Mutation_p.C740R	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	907	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					CCTTTAATGCACCATTTAGGT	0.398													45	103					0	0	1	0	0		G	86522383	G	G	86522383	3	3	16	1	0	0	0	0	1	0	0	0	8240	159	6	3	382	3	KIAA1324L	7	86522383	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	4132316	86522383	72616280	495	12170											
FZD1	8321	broad.mit.edu	37	chr7	90894471	90894471	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagcaaccgccgccgccGcctcagcagcaacagagcgg	9	1	14	17	5	1	1	1	0	0	1	1	1	1	1	5	2	6	4	5	2	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:90894471G>T	uc003ula.2	+	1	689	c.276G>T	c.(274-276)CCG>CCT	p.P92P		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	92	Poly-Pro.|Extracellular (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			CGCCGCCGCCGCCTCAGCAGC	0.517													7	7					1.12685e-05	1.15831e-05	1	1	0		T	90894471	T	T	90894471	2	4	16	1	0	0	0	0	0	0	0	1	6142	1074	38	5		5	FZD1	7	90894471	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4372088	90894471	68244192	496	12171											
MTERF	7978	broad.mit.edu	37	chr7	91503750	91503750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatatgatgctagcgatcaCttctttgctagctcctttgg	7	16	9	9	1	2	2	1	2	1	0	3	3	3	2	1	1	4	3	1	1	3	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:91503750C>T	uc003ulb.1	-	2	402	c.358G>A	c.(358-360)GTG>ATG	p.V120M	MTERF_uc010let.1_Intron|MTERF_uc003ulc.1_Missense_Mutation_p.V120M|MTERF_uc011khm.1_Missense_Mutation_p.V100M|MTERF_uc010leu.1_Missense_Mutation_p.V100M	NM_006980	NP_008911	Q99551	MTERF_HUMAN	mitochondrial transcription termination factor	120					DNA geometric change|regulation of transcription, DNA-dependent|termination of mitochondrial transcription	mitochondrial nucleoid	double-stranded DNA binding				0	all_cancers(62;2.28e-09)|all_epithelial(64;1.07e-07)|Breast(17;0.00371)|all_hematologic(106;0.091)|all_lung(186;0.178)|Lung NSC(181;0.235)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.0993)|Kidney(17;0.118)|Epithelial(20;0.136)|LUSC - Lung squamous cell carcinoma(200;0.176)			CTAGCGATCACTTCTTTGCTA	0.438													49	83					0	0	1	0	0		T	91503750	T	T	91503750	3	4	16	1	0	0	0	0	1	0	0	0	9936	565	20	4	845	4	MTERF	7	91503750	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	609279	91503750	67634913	497	12172											
COL1A2	1278	broad.mit.edu	37	chr7	94054966	94054966	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtcgcgatggtcaaccCggacacaaggtcagtacact	11	6	11	13	3	2	0	2	0	0	0	3	2	2	1	2	4	2	1	2	4	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:94054966C>T	uc003ung.1	+	43	3297	c.2826C>T	c.(2824-2826)CCC>CCT	p.P942P	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	942					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	ATGGTCAACCCGGACACAAGG	0.488										HNSCC(75;0.22)			13	36					0	0	1	0	0		T	94054966	T	T	94054966	2	4	16	1	0	0	0	0	0	0	0	1	3681	639	23	1		1	COL1A2	7	94054966	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2551216	94054966	65083697	498	12173											
DLX6	1750	broad.mit.edu	37	chr7	96639132	96639132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatatggtttcagaacaaaCgctctaagtttaagaaactg	16	11	8	6	1	2	3	1	0	1	3	2	3	2	3	0	1	3	3	0	1	6	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:96639132C>T	uc003uom.2	+	4	571	c.571C>T	c.(571-573)CGC>TGC	p.R191C	DLX6AS_uc003uol.2_Intron|DLX6AS_uc010lfo.1_Intron	NM_005222	NP_005213	P56179	DLX6_HUMAN	distal-less homeobox 6	101	Homeobox.				nervous system development|skeletal system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					TCAGAACAAACGCTCTAAGTT	0.527													29	73					0	0	1	0	0		T	96639132	T	T	96639132	3	4	16	1	0	0	0	0	1	0	0	0	4581	536	19	1	665	1	DLX6	7	96639132	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2584166	96639132	62499531	499	12174											
TRRAP	8295	broad.mit.edu	37	chr7	98581030	98581030	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgactgcccatcgtgtctgaCgacttgtcccactggagcag	7	9	11	14	3	1	1	0	1	1	0	3	4	2	2	2	1	2	1	2	1	0	1	rs148646770		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:98581030C>T	uc003upp.2	+	59	9158	c.8949C>T	c.(8947-8949)GAC>GAT	p.D2983D	TRRAP_uc011kis.1_Silent_p.D2965D|TRRAP_uc003upr.2_Silent_p.D2682D	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2983	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TCGTGTCTGACGACTTGTCCC	0.408													14	44					0	0	1	0	0		T	98581030	T	T	98581030	2	4	16	1	0	0	0	0	0	0	0	1	16627	535	19	1		1	TRRAP	7	98581030	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1941898	98581030	60557633	500	12175											
ZSCAN21	7589	broad.mit.edu	37	chr7	99654966	99654966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggagcattgcccggagagcGctgaagaggctgtcactctc	9	7	14	11	2	2	3	1	1	1	2	3	5	2	4	1	3	3	3	1	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:99654966G>A	uc003uso.2	+	2	481	c.337G>A	c.(337-339)GCT>ACT	p.A113T	ZSCAN21_uc011kje.1_Missense_Mutation_p.A112T|ZSCAN21_uc003usn.1_Missense_Mutation_p.A112T	NM_145914	NP_666019	Q9Y5A6	ZSC21_HUMAN	zinc finger protein 38	113	SCAN box.				positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			CCCGGAGAGCGCTGAAGAGGC	0.592													11	28					0	0	1	0	0		A	99654966	A	A	99654966	3	1	16	1	0	0	0	0	1	0	0	0	18258	1087	38	1	339	1	ZSCAN21	7	99654966	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1073936	99654966	59483697	501	12176											
SPDYE3	441272	broad.mit.edu	37	chr7	99913460	99913460	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaagatctgagggtgtcAgacaaggtaaggttgttctc	12	10	13	6	0	3	3	1	1	2	2	4	4	3	3	0	3	0	3	0	3	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:99913460A>G	uc003uug.1	+	2	363	c.123A>G	c.(121-123)TCA>TCG	p.S41S		NM_001004351	NP_001004351	A6NKU9	SPDE3_HUMAN	speedy homolog E3	418											0						TGAGGGTGTCAGACAAGGTAA	0.522													6	204					0	0	1	0	0		G	99913460	G	G	99913460	2	3	16	1	0	0	0	0	0	0	0	1	15055	175	7	3		3	SPDYE3	7	99913460	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	258494	99913460	59225203	502	12177											
C7orf51	222950	broad.mit.edu	37	chr7	100087129	100087129	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgcaggagcaagggacCgatgggggtgcttttgccag	8	7	17	9	1	0	0	0	0	0	0	0	3	0	2	2	4	5	4	2	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:100087129C>T	uc003uvd.1	+	4	1944	c.1785C>T	c.(1783-1785)ACC>ACT	p.T595T	C7orf51_uc003uve.1_Silent_p.T377T	NM_173564	NP_775835	Q6ZVC0	CG051_HUMAN	hypothetical protein FLJ37538	595										skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AGCAAGGGACCGATGGGGGTG	0.637													11	38					0	0	1	0	0		T	100087129	T	T	100087129	2	4	16	1	0	0	0	0	0	0	0	1	2403	639	23	1		1	C7orf51	7	100087129	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	173669	100087129	59051534	503	12178											
TFR2	7036	broad.mit.edu	37	chr7	100218519	100218519	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccagacatccccgctaagCgcattggctgccccttgcag	7	9	9	16	2	0	1	0	0	0	1	2	1	2	1	5	1	3	4	5	1	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:100218519C>T	uc003uvv.1	-	18	2408	c.2367G>A	c.(2365-2367)GCG>GCA	p.A789A	TFR2_uc010lhc.1_Silent_p.A330A|TFR2_uc003uvu.1_Silent_p.A618A	NM_003227	NP_003218	Q9UP52	TFR2_HUMAN	transferrin receptor 2	789	Extracellular (Potential).				cellular iron ion homeostasis|iron ion transport|proteolysis	cytoplasm|integral to plasma membrane	peptidase activity|transferrin receptor activity			ovary(1)|pancreas(1)	2	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					CCCCGCTAAGCGCATTGGCTG	0.632													14	25					0	0	1	0	0		T	100218519	T	T	100218519	2	4	16	1	0	0	0	0	0	0	0	1	15836	755	27	1		1	TFR2	7	100218519	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	131390	100218519	58920144	504	12179											
TFR2	7036	broad.mit.edu	37	chr7	100226903	100226903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccatggaggaaaaggtccGcaccagctccaggagtatag	13	5	12	11	1	0	0	0	0	0	0	2	3	2	3	4	4	1	3	4	4	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:100226903G>A	uc003uvv.1	-	10	1404	c.1363C>T	c.(1363-1365)CGG>TGG	p.R455W	TFR2_uc010lhc.1_5'UTR|TFR2_uc003uvu.1_Missense_Mutation_p.R284W	NM_003227	NP_003218	Q9UP52	TFR2_HUMAN	transferrin receptor 2	455	Extracellular (Potential).				cellular iron ion homeostasis|iron ion transport|proteolysis	cytoplasm|integral to plasma membrane	peptidase activity|transferrin receptor activity			ovary(1)|pancreas(1)	2	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					GAAAAGGTCCGCACCAGCTCC	0.622													15	45					0	0	1	0	0		A	100226903	A	A	100226903	3	1	16	1	0	0	0	0	1	0	0	0	15836	1086	38	1	1078	1	TFR2	7	100226903	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	8384	100226903	58911760	505	12180											
TRIP6	7205	broad.mit.edu	37	chr7	100468258	100468258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggggttgtggcccttgatCgcgtctttcacgtgggctgc	2	13	15	11	3	2	1	1	1	1	0	3	1	2	1	1	4	1	2	1	4	0	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:100468258C>T	uc003uww.2	+	6	1062	c.892C>T	c.(892-894)CGC>TGC	p.R298C	TRIP6_uc010lhk.1_RNA	NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6	298	LIM zinc-binding 1.				focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)					GGCCCTTGATCGCGTCTTTCA	0.597													16	27					0	0	1	0	0		T	100468258	T	T	100468258	3	4	16	1	0	0	0	0	1	0	0	0	16585	884	31	1	914	1	TRIP6	7	100468258	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	241355	100468258	58670405	506	12181											
PIK3CG	5294	broad.mit.edu	37	chr7	106508373	106508373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagactctggactgcctgCgctactggaaggccacgcac	8	7	12	14	2	1	1	0	0	1	1	1	3	1	3	2	3	4	3	2	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:106508373C>T	uc003vdv.3	+	2	452	c.367C>T	c.(367-369)CGC>TGC	p.R123C	PIK3CG_uc003vdu.2_Missense_Mutation_p.R123C|PIK3CG_uc003vdw.2_Missense_Mutation_p.R123C	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	123					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						GGACTGCCTGCGCTACTGGAA	0.652													8	23					0	0	1	0	0		T	106508373	T	T	106508373	3	4	16	1	0	0	0	0	1	0	0	0	11935	768	27	1	369	1	PIK3CG	7	106508373	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6040115	106508373	52630290	507	12182											
PIK3CG	5294	broad.mit.edu	37	chr7	106523539	106523539	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcagcaaagcacagtgggCaacacgggagcatttaaaga	16	6	11	8	1	1	1	1	0	0	1	1	2	1	2	0	2	4	4	0	2	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:106523539C>A	uc003vdv.3	+	8	2776	c.2691C>A	c.(2689-2691)GGC>GGA	p.G897G	PIK3CG_uc003vdu.2_Silent_p.G897G|PIK3CG_uc003vdw.2_Silent_p.G897G	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	897	PI3K/PI4K.				G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						GCACAGTGGGCAACACGGGAG	0.463													78	133					7.427e-35	8.15542e-35	1	1	0		A	106523539	A	A	106523539	2	1	16	1	0	0	0	0	0	0	0	1	11935	697	25	5		5	PIK3CG	7	106523539	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	15166	106523539	52615124	508	12183											
COG5	10466	broad.mit.edu	37	chr7	107198538	107198538	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctttacatcaaagtcttcGtttaaaaagtcactataaca	15	14	4	8	1	4	0	2	0	2	0	5	0	4	0	0	0	2	1	0	0	7	7	rs138518242		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:107198538G>A	uc003ved.2	-	2	735	c.210C>T	c.(208-210)AAC>AAT	p.N70N	COG5_uc003vec.2_Silent_p.N70N|COG5_uc003vee.2_Silent_p.N70N	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	70					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						CAAAGTCTTCGTTTAAAAAGT	0.338													11	24					0	0	1	0	0		A	107198538	A	A	107198538	2	1	16	1	0	0	0	0	0	0	0	1	3664	1136	40	1		1	COG5	7	107198538	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	674999	107198538	51940125	509	12184											
DOCK4	9732	broad.mit.edu	37	chr7	111377033	111377033	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccccgtctccaatatgatTaaacagcatcctctgcaaag	12	9	7	13	1	2	1	0	1	2	0	4	1	3	1	4	1	3	2	4	1	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:111377033T>C	uc003vfx.2	-	49	5487	c.5218A>G	c.(5218-5220)AAT>GAT	p.N1740D	DOCK4_uc011kml.1_Missense_Mutation_p.N621D|DOCK4_uc011kmm.1_Missense_Mutation_p.N647D|DOCK4_uc003vfw.2_Missense_Mutation_p.N1190D|DOCK4_uc003vfy.2_Missense_Mutation_p.N1785D|DOCK4_uc003vfv.2_Missense_Mutation_p.N53D	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1740	Ser-rich.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				CCAATATGATTAAACAGCATC	0.453													3	13					0	0	1	0	0		C	111377033	C	C	111377033	3	2	16	1	0	0	0	0	1	0	0	0	4695	1754	61	3	698	3	DOCK4	7	111377033	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	4178495	111377033	47761630	510	12185											
FOXP2	93986	broad.mit.edu	37	chr7	114284763	114284763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcacatgaggagactggggCctctcacactctctatggcc	8	9	11	13	0	3	2	2	1	2	1	5	3	3	2	2	4	0	0	2	4	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:114284763C>T	uc003vhb.2	+	8	1387	c.1013C>T	c.(1012-1014)GCC>GTC	p.A338V	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Missense_Mutation_p.A363V|FOXP2_uc003vha.2_Missense_Mutation_p.A246V|FOXP2_uc011kmu.1_Missense_Mutation_p.A355V|FOXP2_uc011kmv.1_Missense_Mutation_p.A337V|FOXP2_uc010ljz.1_Missense_Mutation_p.A246V|FOXP2_uc003vgx.2_Missense_Mutation_p.A338V|FOXP2_uc003vhd.2_Missense_Mutation_p.A338V|FOXP2_uc003vhc.2_Missense_Mutation_p.A363V	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	338					camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						GAGACTGGGGCCTCTCACACT	0.438													10	31					0	0	1	0	0		T	114284763	T	T	114284763	3	4	16	1	0	0	0	0	1	0	0	0	6041	739	26	2	1173	2	FOXP2	7	114284763	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2907730	114284763	44853900	511	12186											
CTTNBP2	83992	broad.mit.edu	37	chr7	117431604	117431604	+	Frame_Shift_Del	DEL	T	-	-																															gagtttgggagagccctggcTtttttggagggataggagga																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:117431604delT	uc003vjf.2	-	4	1738	c.1646delA	c.(1645-1647)AAGfs	p.K549fs		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	549	Pro-rich.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GAGCCCTGGCTTTTTTGGAGG	0.522													42	96	---	---	---	---						.	-	117431604	-	-	117431604	7	5	16	1	0	1	0	1	0	0	0	0	4048	1609	56	0	3425	0	CTTNBP2	7	117431604	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	3146841	117431604	41707059	512	12187											
ZNF800	168850	broad.mit.edu	37	chr7	127014061	127014061	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttttctgtgctgccggTgtgttctttttttcatttga	3	24	8	6	1	3	1	1	1	2	0	3	1	3	1	1	1	2	2	1	1	1	8	rs17868513		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:127014061T>C	uc003vlx.1	-	5	1592	c.1329A>G	c.(1327-1329)ACA>ACG	p.T443T	ZNF800_uc003vlw.1_Silent_p.T346T|ZNF800_uc003vly.1_Silent_p.T443T|ZNF800_uc010lla.2_Silent_p.T443T	NM_176814	NP_789784	Q2TB10	ZN800_HUMAN	zinc finger protein 800	443					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GTGCTGCCGGTGTGTTCTTTT	0.408													5	64					0	0	1	0	0		C	127014061	C	C	127014061	2	2	16	1	0	0	0	0	0	0	0	1	18194	1683	59	3		3	ZNF800	7	127014061	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	9582457	127014061	32124602	513	12188											
LRRC4	64101	broad.mit.edu	37	chr7	127669841	127669841	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacctcagcggggtaaagaGgtcatggggcaaagaagaga	14	5	16	6	1	2	3	2	0	0	3	2	4	2	3	1	5	2	3	1	5	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:127669841G>T	uc003vmk.2	-	2	990	c.853C>A	c.(853-855)CTC>ATC	p.L285I	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	285	LRR 9.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		GGGGTAAAGAGGTCATGGGGC	0.522													21	48					7.33628e-21	7.99225e-21	1	1	0		T	127669841	T	T	127669841	3	4	16	1	0	0	0	0	1	0	0	0	9015	1000	35	5	1112	5	LRRC4	7	127669841	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	655780	127669841	31468822	514	12189											
SND1	27044	broad.mit.edu	37	chr7	127732057	127732057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttacagctgaacctgtggCgctatggagactttcgagct	8	12	11	10	2	1	2	0	1	1	1	2	4	1	2	1	2	4	3	1	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:127732057C>T	uc003vmi.2	+	24	2906	c.2680C>T	c.(2680-2682)CGC>TGC	p.R894C	SND1_uc010lle.2_Missense_Mutation_p.R547C	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	894					gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						GAACCTGTGGCGCTATGGAGA	0.572													40	99					0	0	1	0	0		T	127732057	T	T	127732057	3	4	16	1	0	0	0	0	1	0	0	0	14869	768	27	1	2774	1	SND1	7	127732057	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	62216	127732057	31406606	515	12190											
FLNC	2318	broad.mit.edu	37	chr7	128475506	128475506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggatgcccgcaaacagaCgcccaagcagcggctgcttg	10	5	13	13	3	0	2	0	1	0	1	0	3	0	3	2	2	5	4	2	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:128475506C>T	uc003vnz.3	+	2	688	c.479C>T	c.(478-480)ACG>ATG	p.T160M	FLNC_uc003voa.3_Missense_Mutation_p.T160M	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	160	CH 2.|Actin-binding.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CGCAAACAGACGCCCAAGCAG	0.597													32	54					0	0	1	0	0		T	128475506	T	T	128475506	3	4	16	1	0	0	0	0	1	0	0	0	5949	536	19	1	485	1	FLNC	7	128475506	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	743449	128475506	30663157	516	12191											
NRF1	4899	broad.mit.edu	37	chr7	129394908	129394908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactgtggtgaccagcctcGcccagggcaacggaccagtg	9	5	14	13	2	0	2	0	1	0	1	1	3	0	3	4	3	2	1	4	3	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:129394908G>A	uc003voz.2	+	11	1516	c.1399G>A	c.(1399-1401)GCC>ACC	p.A467T	NRF1_uc003vpa.2_Missense_Mutation_p.A486T|NRF1_uc011kpa.1_Missense_Mutation_p.A306T|NRF1_uc003vpb.2_Missense_Mutation_p.A467T	NM_005011	NP_005002	Q16656	NRF1_HUMAN	nuclear respiratory factor 1	467	Required for transcriptional activation.				generation of precursor metabolites and energy|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						GACCAGCCTCGCCCAGGGCAA	0.612													18	42					0	0	1	0	0		A	129394908	A	A	129394908	3	1	16	1	0	0	0	0	1	0	0	0	10665	1087	38	1	1437	1	NRF1	7	129394908	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	919402	129394908	29743755	517	12192											
CPA5	93979	broad.mit.edu	37	chr7	129986353	129986353	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacccctggaggcgggacGcgccctgggccatcccccgt	4	4	15	18	4	0	0	0	0	0	0	1	2	1	2	6	5	0	1	6	5	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:129986353G>A	uc010lmd.1	+	4	647	c.27G>A	c.(25-27)ACG>ACA	p.T9T	CPA5_uc003vps.2_Silent_p.T9T|CPA5_uc003vpt.2_Silent_p.T9T|CPA5_uc010lme.1_Silent_p.T9T|CPA5_uc003vpu.1_Silent_p.T9T	NM_001127441	NP_001120913	Q8WXQ8	CBPA5_HUMAN	carboxypeptidase A5 isoform 1	9					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2	Melanoma(18;0.0435)					GAGGCGGGACGCGCCCTGGGC	0.627													20	24					0	0	1	0	0		A	129986353	A	A	129986353	2	1	16	1	0	0	0	0	0	0	0	1	3796	1074	38	1		1	CPA5	7	129986353	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	591445	129986353	29152310	518	12193											
PLXNA4	91584	broad.mit.edu	37	chr7	131864546	131864546	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggacttgcgtttataggcAatgagcacggccacgatgaa	11	8	13	9	4	0	2	0	2	0	0	0	4	0	3	1	3	2	3	1	3	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:131864546A>G	uc003vra.3	-	20	4003	c.3774T>C	c.(3772-3774)ATT>ATC	p.I1258I		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1258	Helical; (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GTTTATAGGCAATGAGCACGG	0.607													4	10					0	0	1	0	0		G	131864546	G	G	131864546	2	3	16	1	0	0	0	0	0	0	0	1	12141	126	5	3		3	PLXNA4	7	131864546	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1878193	131864546	27274117	519	12194											
WDR91	29062	broad.mit.edu	37	chr7	134871064	134871064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagaaccttctcatcgccacCcagctgcaagaggacaggaa	13	5	9	14	1	1	2	1	0	1	2	3	4	1	4	3	2	3	2	3	2	3	1	rs141164229		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:134871064C>T	uc003vsp.2	-	15	2145	c.2083G>A	c.(2083-2085)GGT>AGT	p.G695S	WDR91_uc010lmq.2_Missense_Mutation_p.G284S|WDR91_uc010lmr.2_RNA	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91	695	WD 6.									breast(2)|ovary(1)|skin(1)	4						TCATCGCCACCCAGCTGCAAG	0.587													8	12					0	0	1	0	0		T	134871064	T	T	134871064	3	4	16	1	0	0	0	0	1	0	0	0	17364	623	22	4	164	4	WDR91	7	134871064	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3006518	134871064	24267599	520	12195											
NUP205	23165	broad.mit.edu	37	chr7	135277854	135277854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagatagtgtccagtacCgtcaccttccttcccgtggc	6	11	10	14	2	1	1	1	0	0	1	4	1	4	1	5	1	2	2	5	1	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:135277854C>T	uc003vsw.2	+	12	1775	c.1744C>T	c.(1744-1746)CGT>TGT	p.R582C		NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	582					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						TGTCCAGTACCGTCACCTTCC	0.483													38	98					0	0	1	0	0		T	135277854	T	T	135277854	3	4	16	1	0	0	0	0	1	0	0	0	10778	652	23	1	1790	1	NUP205	7	135277854	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	406790	135277854	23860809	521	12196											
NUP205	23165	broad.mit.edu	37	chr7	135301910	135301911	+	Frame_Shift_Ins	INS	-	T	T																															cctgagcctttgcagttggaINStttttttgatcgggcccaga																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:135301910_135301911insT	uc003vsw.2	+	26	3636_3637	c.3605_3606insT	c.(3604-3606)GATfs	p.D1202fs	NUP205_uc003vsx.2_5'Flank	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1202					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						TTGCAGTTGGATTTTTTTGATC	0.371													36	82	---	---	---	---						.	T	135301911	T	T	135301910	7	5	16	1	0	1	1	0	0	0	0	0	10778	333	12	0	3707	0	NUP205	7	135301910	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	24056	135301910	23836753	522	12197											
DGKI	9162	broad.mit.edu	37	chr7	137237203	137237203	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatccgaatcatagctggggCcaacctacagggctccccat	10	7	10	14	1	1	0	1	0	0	0	3	2	3	0	5	3	3	2	5	3	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:137237203C>A	uc003vtt.2	-	20	2060	c.2059G>T	c.(2059-2061)GCC>TCC	p.A687S	DGKI_uc003vtu.2_Missense_Mutation_p.A387S	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	687					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						ATAGCTGGGGCCAACCTACAG	0.517													54	108					6.176e-18	6.69302e-18	1	1	0		A	137237203	A	A	137237203	3	1	16	1	0	0	0	0	1	0	0	0	4477	739	26	5	1198	5	DGKI	7	137237203	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1935293	137237203	21901460	523	12198											
KIAA1549	57670	broad.mit.edu	37	chr7	138554434	138554434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggaactcgtagtgcccgCggcgcttggcgcgcaggcgg	4	5	18	14	8	0	0	0	0	0	0	1	1	0	1	2	5	2	3	2	5	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:138554434C>T	uc011kql.1	-	14	4674	c.4625G>A	c.(4624-4626)CGC>CAC	p.R1542H	KIAA1549_uc011kqi.1_Missense_Mutation_p.R326H|KIAA1549_uc003vuk.3_Missense_Mutation_p.R1492H|KIAA1549_uc011kqj.1_Missense_Mutation_p.R1542H|KIAA1549_uc011kqk.1_Missense_Mutation_p.R326H	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1542						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GTAGTGCCCGCGGCGCTTGGC	0.617			O	BRAF	pilocytic astrocytoma								6	18					0	0	1	0	0		T	138554434	T	T	138554434	3	4	16	1	0	0	0	0	1	0	0	0	8260	768	27	1	1255	1	KIAA1549	7	138554434	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1317231	138554434	20584229	524	12199											
KIAA1549	57670	broad.mit.edu	37	chr7	138602725	138602725	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtggtcacgctggatggCgtcacttgggtttcagcaac	7	10	14	10	2	3	0	3	0	0	0	3	1	3	1	0	4	2	4	0	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:138602725C>T	uc011kql.1	-	2	1696	c.1647G>A	c.(1645-1647)ACG>ACA	p.T549T	KIAA1549_uc003vuk.3_Silent_p.T499T|KIAA1549_uc011kqj.1_Silent_p.T549T	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	549	Ser-rich.					integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						CGCTGGATGGCGTCACTTGGG	0.542			O	BRAF	pilocytic astrocytoma								8	22					0	0	1	0	0		T	138602725	T	T	138602725	2	4	16	1	0	0	0	0	0	0	0	1	8260	755	27	1		1	KIAA1549	7	138602725	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	48291	138602725	20535938	525	12200											
UBN2	254048	broad.mit.edu	37	chr7	138968777	138968777	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaaaacttgccgcatcTcccaagcctgccacatctcc	9	8	4	20	1	2	0	0	0	2	0	5	0	3	0	7	0	4	1	7	0	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:138968777T>C	uc011kqr.1	+	15	3126	c.3126T>C	c.(3124-3126)TCT>TCC	p.S1042S		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	1042	Ser-rich.									ovary(1)|skin(1)	2						TTGCCGCATCTCCCAAGCCTG	0.527													28	53					0	0	1	0	0		C	138968777	C	C	138968777	2	2	16	1	0	0	0	0	0	0	0	1	16919	1538	54	3		3	UBN2	7	138968777	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	366052	138968777	20169886	526	12201											
MKRN1	23608	broad.mit.edu	37	chr7	140158906	140158906	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatacacacagttctccccGtatcggcactctcccactgc	9	9	6	17	2	2	1	0	0	2	1	5	1	2	1	3	1	2	3	3	1	2	3	rs1062761		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:140158906G>A	uc003vvt.2	-	4	897	c.672C>T	c.(670-672)TAC>TAT	p.Y224Y	MKRN1_uc003vvs.2_Silent_p.Y160Y|MKRN1_uc011krd.1_Intron|MKRN1_uc003vvv.3_Silent_p.Y224Y|MKRN1_uc003vvu.3_Silent_p.Y160Y	NM_013446	NP_038474	Q9UHC7	MKRN1_HUMAN	makorin ring finger protein 1 isoform 1	224	C3H1-type 3.						ligase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.00956)					AGTTCTCCCCGTATCGGCACT	0.542													53	107					0	0	1	0	0		A	140158906	A	A	140158906	2	1	16	1	0	0	0	0	0	0	0	1	9624	1140	40	1		1	MKRN1	7	140158906	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1190129	140158906	18979757	527	12202											
DENND2A	27147	broad.mit.edu	37	chr7	140273680	140273680	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgtcatcagggctgctGggagtggagggagggctgat	10	8	18	5	0	2	1	2	1	0	0	2	4	2	4	0	5	1	3	0	5	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:140273680G>T	uc010lnj.2	-	4	1519	c.1374C>A	c.(1372-1374)CCC>CCA	p.P458P	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Silent_p.P458P|DENND2A_uc003vvw.2_Silent_p.P458P|DENND2A_uc003vvx.2_Silent_p.P458P	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	458										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					CAGGGCTGCTGGGAGTGGAGG	0.507													54	122					6.05568e-20	6.57123e-20	1	1	0		T	140273680	T	T	140273680	2	4	16	1	0	0	0	0	0	0	0	1	4435	1335	47	5		5	DENND2A	7	140273680	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	114774	140273680	18864983	528	12203											
CLCN1	1180	broad.mit.edu	37	chr7	143039045	143039045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagcgctgactggtgccGtttcccacacagtctccaca	8	8	9	16	2	1	1	0	1	1	0	3	1	2	1	3	1	3	3	3	1	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:143039045G>A	uc003wcr.1	+	15	1693	c.1606G>A	c.(1606-1608)GTT>ATT	p.V536I	CLCN1_uc011ktc.1_Missense_Mutation_p.V148I	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	536					muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					GACTGGTGCCGTTTCCCACAC	0.517													12	41					0	0	1	0	0		A	143039045	A	A	143039045	3	1	16	1	0	0	0	0	1	0	0	0	3465	1145	40	1	1664	1	CLCN1	7	143039045	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2765365	143039045	16099618	529	12204											
CNTNAP2	26047	broad.mit.edu	37	chr7	147914604	147914604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacttcttggcagtcctcGtcaaacccactggtaaggac	10	9	9	13	1	2	1	1	0	1	1	4	2	3	2	2	3	1	2	2	3	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:147914604G>A	uc003weu.1	+	19	3751	c.3235G>A	c.(3235-3237)GTC>ATC	p.V1079I		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	1079	Laminin G-like 4.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GGCAGTCCTCGTCAAACCCAC	0.507										HNSCC(39;0.1)			23	48					0	0	1	0	0		A	147914604	A	A	147914604	3	1	16	1	0	0	0	0	1	0	0	0	3650	1145	40	1	3309	1	CNTNAP2	7	147914604	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4875559	147914604	11224059	530	12205											
ZNF282	8427	broad.mit.edu	37	chr7	148921287	148921287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaagccctactcgtgccccGagtgcggcaagagcttcggc	7	6	13	15	4	0	1	0	0	0	1	2	2	0	1	3	2	5	3	3	2	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:148921287G>A	uc003wfm.2	+	8	1669	c.1564G>A	c.(1564-1566)GAG>AAG	p.E522K	ZNF282_uc011kun.1_Intron|ZNF282_uc003wfo.2_Silent_p.P198P	NM_003575	NP_003566	Q9UDV7	ZN282_HUMAN	zinc finger protein 282	522	C2H2-type 1.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)	Lung(243;0.145)		CTCGTGCCCCGAGTGCGGCAA	0.582													6	10					0	0	1	0	0		A	148921287	A	A	148921287	3	1	16	1	0	0	0	0	1	0	0	0	17844	1059	37	1	1594	1	ZNF282	7	148921287	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1006683	148921287	10217376	531	12206											
ZNF212	7988	broad.mit.edu	37	chr7	148947336	148947336	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcctattttcagaccacCgagatttcactctggacggt	9	12	8	12	2	3	2	2	0	1	2	4	4	4	3	3	2	1	1	3	2	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:148947336C>T	uc003wfp.2	+	2	207	c.111C>T	c.(109-111)ACC>ACT	p.T37T		NM_012256	NP_036388	Q9UDV6	ZN212_HUMAN	zinc finger protein 212	37					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)			TTCAGACCACCGAGATTTCAC	0.537													25	46					0	0	1	0	0		T	148947336	T	T	148947336	2	4	16	1	0	0	0	0	0	0	0	1	17793	639	23	1		1	ZNF212	7	148947336	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	26049	148947336	10191327	532	12207											
ZNF212	7988	broad.mit.edu	37	chr7	148951367	148951367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcaccagcgcatccacaCgggtgagcggccctacagct	8	4	13	16	4	0	1	0	1	0	0	1	1	1	1	3	3	4	3	3	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:148951367C>T	uc003wfp.2	+	5	1445	c.1349C>T	c.(1348-1350)ACG>ATG	p.T450M		NM_012256	NP_036388	Q9UDV6	ZN212_HUMAN	zinc finger protein 212	450					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)			CGCATCCACACGGGTGAGCGG	0.597													19	44					0	0	1	0	0		T	148951367	T	T	148951367	3	4	16	1	0	0	0	0	1	0	0	0	17793	536	19	1	1367	1	ZNF212	7	148951367	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4031	148951367	10187296	533	12208											
KRBA1	84626	broad.mit.edu	37	chr7	149420936	149420936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccctcaggagtggggaaccGacggctacaggagaatccag	11	5	14	11	2	1	1	1	0	0	1	3	5	3	3	3	5	2	1	3	5	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:149420936G>A	uc003wfz.2	+	8	1283	c.884G>A	c.(883-885)CGA>CAA	p.R295Q	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_5'UTR	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	295										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GTGGGGAACCGACGGCTACAG	0.622													16	42					0	0	1	0	0		A	149420936	A	A	149420936	3	1	16	1	0	0	0	0	1	0	0	0	8455	1058	37	1	910	1	KRBA1	7	149420936	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	469569	149420936	9717727	534	12209											
SSPO	23145	broad.mit.edu	37	chr7	149501110	149501110	+	Frame_Shift_Del	DEL	G	-	-																															ctccaaccctccggcagcctGggggggtgccccgtgtgaag																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:149501110delG	uc010lpk.2	+	57	8246	c.8246delG	c.(8245-8247)TGGfs	p.W2749fs		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2749	TSP type-1 6.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCGGCAGCCTGGGGGGGTGCC	0.667													4	4	---	---	---	---						.	-	149501110	-	-	149501110	7	5	16	1	0	1	0	1	0	0	0	0	15214	1357	47	0	8464	0	SSPO	7	149501110	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	80174	149501110	9637553	535	12210											
SSPO	23145	broad.mit.edu	37	chr7	149522374	149522374	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcgtcaggttagagctgCgaggcccaagacactgtatt	9	10	13	9	2	1	2	1	0	0	2	2	3	1	2	1	3	2	3	1	3	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:149522374C>T	uc010lpk.2	+	101	14001	c.14001C>T	c.(13999-14001)TGC>TGT	p.C4667C	SSPO_uc010lpm.1_RNA|SSPO_uc003wgg.2_RNA|SSPO_uc003wgh.2_RNA|SSPO_uc003wgi.1_RNA	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	4667	TIL 6.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GTTAGAGCTGCGAGGCCCAAG	0.627													24	43					0	0	1	0	0		T	149522374	T	T	149522374	2	4	16	1	0	0	0	0	0	0	0	1	15214	760	27	1		1	SSPO	7	149522374	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	21264	149522374	9616289	536	12211											
CHPF2	54480	broad.mit.edu	37	chr7	150934480	150934480	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagatccggaacctgacCgtgctgacccccgaagggga	9	5	13	14	3	1	3	1	2	0	1	2	6	2	5	5	3	2	2	5	3	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:150934480C>T	uc003wjr.1	+	4	2545	c.1032C>T	c.(1030-1032)ACC>ACT	p.T344T	CHPF2_uc003wjq.1_Silent_p.T336T|MIR671_hsa-mir-671|MI0003760_5'Flank	NM_019015	NP_061888	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	344	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(1)	1						GGAACCTGACCGTGCTGACCC	0.567													17	34					0	0	1	0	0		T	150934480	T	T	150934480	2	4	16	1	0	0	0	0	0	0	0	1	3372	639	23	1		1	CHPF2	7	150934480	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1412106	150934480	8204183	537	12212											
CRYGN	155051	broad.mit.edu	37	chr7	151135154	151135154	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagtcggggtagtcgccGtgctccaagatgaactgctg	10	8	14	9	3	0	3	0	1	0	2	3	3	1	3	2	2	3	3	2	2	5	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:151135154G>A	uc003wke.2	-	2	294	c.198C>T	c.(196-198)CAC>CAT	p.H66H	CRYGN_uc003wkf.2_Silent_p.H66H|CRYGN_uc003wkg.2_RNA|CRYGN_uc010lqd.1_5'Flank	NM_144727	NP_653328	Q8WXF5	CRGN_HUMAN	gammaN-crystallin	66	Beta/gamma crystallin 'Greek key' 2.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00358)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGTAGTCGCCGTGCTCCAAGA	0.612													12	41					0	0	1	0	0		A	151135154	A	A	151135154	2	1	16	1	0	0	0	0	0	0	0	1	3921	1136	40	1		1	CRYGN	7	151135154	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	200674	151135154	8003509	538	12213											
GALNT11	63917	broad.mit.edu	37	chr7	151818747	151818747	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggctcctcttcacagcagtgGcatttggaaggttaaggtgg	8	11	14	8	0	2	0	1	0	1	0	3	1	3	1	1	6	1	4	1	6	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:151818747G>A	uc010lqg.1	+	12	2042	c.1812G>A	c.(1810-1812)TGG>TGA	p.W604*	GALNT11_uc011kvm.1_Nonsense_Mutation_p.W523*|GALNT11_uc003wku.2_Nonsense_Mutation_p.W604*	NM_022087	NP_071370	Q8NCW6	GLT11_HUMAN	N-acetylgalactosaminyltransferase 11	604	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.214)	OV - Ovarian serous cystadenocarcinoma(82;0.00168)	UCEC - Uterine corpus endometrioid carcinoma (81;0.177)|BRCA - Breast invasive adenocarcinoma(188;0.0932)		CACAGCAGTGGCATTTGGAAG	0.582													29	42					0	0	1	0	0		A	151818747	A	A	151818747	4	1	16	1	0	0	0	0	0	1	0	0	6224	1212	42	2	1854	2	GALNT11	7	151818747	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	683593	151818747	7319916	539	12214											
MNX1	3110	broad.mit.edu	37	chr7	156799214	156799214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaggtggccacctcgaagcGcttgggccgcgacaggtact	7	6	15	13	5	0	0	0	0	0	0	1	3	0	0	3	4	2	2	3	4	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr7:156799214G>A	uc003wnd.1	-	2	1114	c.811C>T	c.(811-813)CGC>TGC	p.R271C	MNX1_uc003wmz.2_Intron|MNX1_uc003wna.2_Intron|MNX1_uc010lqq.1_Missense_Mutation_p.R64C|MNX1_uc003wnc.1_Missense_Mutation_p.R59C|MNX1_uc010lqr.1_Intron	NM_005515	NP_005506	P50219	MNX1_HUMAN	motor neuron and pancreas homeobox 1 isoform 1	271	Homeobox.				humoral immune response|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ACCTCGAAGCGCTTGGGCCGC	0.687									Currarino_syndrome				3	8					0	0	1	0	0		A	156799214	A	A	156799214	3	1	16	1	0	0	0	0	1	0	0	0	9697	1087	38	1	402	1	MNX1	7	156799214	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4980467	156799214	2339449	540	12215											
ZNF596	169270	broad.mit.edu	37	chr8	192901	192901	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttaggattccatgaccttCgaggatatcattgtagactt	10	16	8	7	1	1	2	1	1	0	1	3	5	2	4	2	2	0	1	2	2	3	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:192901C>T	uc003wot.2	+	3	315	c.27C>T	c.(25-27)TTC>TTT	p.F9F	ZNF596_uc003wou.2_5'UTR|ZNF596_uc003wov.2_Silent_p.F9F|ZNF596_uc003wow.2_Silent_p.F9F	NM_173539	NP_775810	Q8TC21	ZN596_HUMAN	zinc finger protein 596	9	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(2;4.81e-29)|all_epithelial(2;5.03e-19)|Lung NSC(2;8.68e-08)|all_lung(2;1.52e-07)|Ovarian(12;0.00965)|Colorectal(14;0.0367)|all_neural(12;0.0837)|Myeloproliferative disorder(644;0.116)|all_hematologic(2;0.138)|Acute lymphoblastic leukemia(644;0.242)		Epithelial(5;3.77e-18)|all cancers(2;5.2e-17)|OV - Ovarian serous cystadenocarcinoma(5;5.37e-09)|BRCA - Breast invasive adenocarcinoma(11;1.7e-06)|Colorectal(2;6.51e-05)|READ - Rectum adenocarcinoma(2;0.0276)|COAD - Colon adenocarcinoma(149;0.0702)		CCATGACCTTCGAGGATATCA	0.438													15	86					0	0	1	0	0		T	192901	T	T	192901	2	4	16	1	0	0	0	0	0	0	0	1	18051	883	31	1		1	ZNF596	8	192901	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08		192901	146171121	541	12216											
FBXO25	26260	broad.mit.edu	37	chr8	400034	400034	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttaacttcattgagtggCgtggcacagaagaattactt	12	12	10	7	1	1	3	1	1	0	2	1	3	1	3	0	2	2	2	0	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:400034C>T	uc003wox.2	+	6	692	c.426C>T	c.(424-426)GGC>GGT	p.G142G	FBXO25_uc003woy.2_Silent_p.G142G|FBXO25_uc003woz.2_Silent_p.G75G|FBXO25_uc003wpa.2_5'UTR	NM_183421	NP_904357	Q8TCJ0	FBX25_HUMAN	F-box only protein 25 isoform 1	142						nucleus|SCF ubiquitin ligase complex	actin binding|ubiquitin-protein ligase activity			lung(1)	1		Ovarian(12;0.00965)|Colorectal(14;0.0815)|Myeloproliferative disorder(644;0.116)|all_neural(12;0.122)		Epithelial(5;3.14e-14)|OV - Ovarian serous cystadenocarcinoma(5;1.56e-07)|BRCA - Breast invasive adenocarcinoma(11;1.88e-06)		CATTGAGTGGCGTGGCACAGA	0.318													42	186					0	0	1	0	0		T	400034	T	T	400034	2	4	16	1	0	0	0	0	0	0	0	1	5750	755	27	1		1	FBXO25	8	400034	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	207133	400034	145963988	542	12217											
CSMD1	64478	broad.mit.edu	37	chr8	2857580	2857580	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattgcactggtaaaccacCgtgtctctgtaactgaagcc	10	10	10	11	1	1	1	0	1	1	0	2	2	1	2	3	2	4	3	3	2	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:2857580C>T	uc011kwk.1	-	53	8496	c.8106G>A	c.(8104-8106)ACG>ACA	p.T2702T	CSMD1_uc011kwj.1_Silent_p.T2031T|CSMD1_uc010lrg.2_Silent_p.T712T	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2702	Extracellular (Potential).|Sushi 18.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GGTAAACCACCGTGTCTCTGT	0.493													37	141					0	0	1	0	0		T	2857580	T	T	2857580	2	4	16	1	0	0	0	0	0	0	0	1	3947	639	23	1		1	CSMD1	8	2857580	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2457546	2857580	143506442	543	12218											
SGK223	157285	broad.mit.edu	37	chr8	8176553	8176553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgtacgcctcgggctccGcctggtggctggccgccgag	2	7	16	16	6	0	0	0	0	0	0	3	1	1	0	5	4	1	4	5	4	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:8176553G>A	uc003wsh.3	-	5	3332	c.3332C>T	c.(3331-3333)GCG>GTG	p.A1111V		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	1111	Protein kinase.		A -> T.				ATP binding|non-membrane spanning protein tyrosine kinase activity				0						CTCGGGCTCCGCCTGGTGGCT	0.682													28	73					0	0	1	0	0		A	8176553	A	A	8176553	3	1	16	1	0	0	0	0	1	0	0	0	14235	1087	38	1	880	1	SGK223	8	8176553	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	5318973	8176553	138187469	544	12219											
SGK223	157285	broad.mit.edu	37	chr8	8233918	8233918	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtggagacggtgccaggtCgtggagtttgaatggtccgt	6	10	19	6	3	0	2	0	1	0	1	2	4	1	3	2	6	1	1	2	6	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:8233918C>T	uc003wsh.3	-	2	2001	c.2001G>A	c.(1999-2001)ACG>ACA	p.T667T		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	667							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GGTGCCAGGTCGTGGAGTTTG	0.562													20	113					0	0	1	0	0		T	8233918	T	T	8233918	2	4	16	1	0	0	0	0	0	0	0	1	14235	871	31	1		1	SGK223	8	8233918	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	57365	8233918	138130104	545	12220											
MFHAS1	9258	broad.mit.edu	37	chr8	8747883	8747883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatctggacactgtagcgtgCaaacaacccaagtggaaaag	15	6	11	9	1	1	0	0	0	1	0	1	3	1	2	1	2	4	2	1	2	6	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:8747883C>T	uc003wsj.1	-	1	3249	c.2686G>A	c.(2686-2688)GCA>ACA	p.A896T		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	896											0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		CTGTAGCGTGCAAACAACCCA	0.458													29	102					0	0	1	0	0		T	8747883	T	T	8747883	3	4	16	1	0	0	0	0	1	0	0	0	9539	710	25	2	484	2	MFHAS1	8	8747883	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	513965	8747883	137616139	546	12221											
XKR6	286046	broad.mit.edu	37	chr8	11058385	11058385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtagacgtagtcccccttgCggtagtagtcgagggccagc	8	8	14	11	3	0	1	0	0	0	1	2	2	1	1	3	2	2	4	3	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:11058385C>T	uc003wtk.1	-	1	491	c.464G>A	c.(463-465)CGC>CAC	p.R155H		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	155						integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		GTCCCCCTTGCGGTAGTAGTC	0.652													11	36					0	0	1	0	0		T	11058385	T	T	11058385	3	4	16	1	0	0	0	0	1	0	0	0	17461	768	27	1	1473	1	XKR6	8	11058385	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2310502	11058385	135305637	547	12222											
MTMR9	66036	broad.mit.edu	37	chr8	11157593	11157593	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttaccgtcctatgtttgAagtgatagaagatggctggc	9	14	11	7	1	0	4	0	2	0	2	1	4	1	4	2	2	1	2	2	2	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:11157593A>G	uc003wtm.2	+	3	751	c.353A>G	c.(352-354)GAA>GGA	p.E118G	MTMR9_uc010lrx.2_Missense_Mutation_p.E11G|MTMR9_uc011kxa.1_Missense_Mutation_p.E33G	NM_015458	NP_056273	Q96QG7	MTMR9_HUMAN	myotubularin related protein 9	118						cytoplasm	phosphatase activity|protein binding				0			STAD - Stomach adenocarcinoma(15;0.215)	COAD - Colon adenocarcinoma(149;0.0678)		CCTATGTTTGAAGTGATAGAA	0.403													58	257					0	0	1	0	0		G	11157593	G	G	11157593	3	3	16	1	0	0	0	0	1	0	0	0	9968	246	9	3	363	3	MTMR9	8	11157593	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	99208	11157593	135206429	548	12223											
MTMR9	66036	broad.mit.edu	37	chr8	11172485	11172485	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaactgattccacactccAggtgacctccttggcccaga	10	8	9	14	0	0	3	0	2	0	1	3	4	3	4	5	3	1	0	5	3	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:11172485A>G	uc003wtm.2	+	7	1423	c.1025A>G	c.(1024-1026)CAG>CGG	p.Q342R	MTMR9_uc010lrx.2_Missense_Mutation_p.Q235R|MTMR9_uc011kxa.1_Missense_Mutation_p.Q257R	NM_015458	NP_056273	Q96QG7	MTMR9_HUMAN	myotubularin related protein 9	342	Myotubularin phosphatase.					cytoplasm	phosphatase activity|protein binding				0			STAD - Stomach adenocarcinoma(15;0.215)	COAD - Colon adenocarcinoma(149;0.0678)		TCCACACTCCAGGTGACCTCC	0.478													8	222					0	0	1	0	0		G	11172485	G	G	11172485	3	3	16	1	0	0	0	0	1	0	0	0	9968	188	7	3	1051	3	MTMR9	8	11172485	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	14892	11172485	135191537	549	12224											
FAM167A	83648	broad.mit.edu	37	chr8	11301555	11301555	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcaccagttccttcctgagCcaggctatagcttcatcgat	8	12	7	14	1	2	1	2	1	0	0	5	2	4	1	4	1	2	3	4	1	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:11301555C>T	uc010lry.1	-	2	986	c.366G>A	c.(364-366)TGG>TGA	p.W122*	FAM167A_uc003wtw.2_Nonsense_Mutation_p.W122*	NM_053279	NP_444509	Q96KS9	F167A_HUMAN	hypothetical protein LOC83648	122	Potential.										0						CCTTCCTGAGCCAGGCTATAG	0.488													27	109					0	0	1	0	0		T	11301555	T	T	11301555	4	4	16	1	0	0	0	0	0	1	0	0	5494	740	26	2	286	2	FAM167A	8	11301555	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	129070	11301555	135062467	550	12225											
GATA4	2626	broad.mit.edu	37	chr8	11615981	11615981	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacggggacataatcactgcGtaatcttccctcttccctcc	8	11	6	16	2	3	0	1	0	2	0	6	1	6	1	3	2	1	1	3	2	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:11615981G>A	uc003wuc.2	+	7	1880	c.1326G>A	c.(1324-1326)GCG>GCA	p.A442A	GATA4_uc003wub.1_Silent_p.A236A|GATA4_uc011kxc.1_Silent_p.A443A|uc003wud.1_5'Flank	NM_002052	NP_002043	P43694	GATA4_HUMAN	GATA binding protein 4	442					atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)		TAATCACTGCGTAATCTTCCC	0.602													19	85					0	0	1	0	0		A	11615981	A	A	11615981	2	1	16	1	0	0	0	0	0	0	0	1	6271	1132	40	1		1	GATA4	8	11615981	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	314426	11615981	134748041	551	12226											
HR	55806	broad.mit.edu	37	chr8	21985180	21985180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggcaaggattctgctgccGgccagctcccatctctccat	6	9	10	16	2	2	0	0	0	2	0	5	1	4	1	4	3	3	3	4	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:21985180G>A	uc003xas.2	-	3	1440	c.775C>T	c.(775-777)CGG>TGG	p.R259W	HR_uc003xat.2_Missense_Mutation_p.R259W	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	259							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		TTCTGCTGCCGGCCAGCTCCC	0.627													40	131					0	0	1	0	0		A	21985180	A	A	21985180	3	1	16	1	0	0	0	0	1	0	0	0	7363	1115	39	1	2862	1	HR	8	21985180	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	10369199	21985180	124378842	552	12227											
NKX3-1	4824	broad.mit.edu	37	chr8	23538896	23538896	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccgaggagagctgcttTcgcttagtcttatagcgtct	7	13	11	10	3	2	1	0	0	2	1	4	3	3	1	1	1	4	4	1	1	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:23538896T>C	uc011kzx.1	-	2	591	c.543A>G	c.(541-543)CGA>CGG	p.R181R	NKX3-1_uc003xdv.1_Intron	NM_006167	NP_006158	Q99801	NKX31_HUMAN	NK3 homeobox 1	181	Homeobox.				negative regulation of estrogen receptor binding|negative regulation of transcription, DNA-dependent|positive regulation of cell division|positive regulation of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter	nucleus	estrogen receptor activity|estrogen receptor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region sequence-specific DNA binding				0		Prostate(55;0.114)		Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)|BRCA - Breast invasive adenocarcinoma(99;0.0708)		AGAGCTGCTTTCGCTTAGTCT	0.582													28	136					0	0	1	0	0		C	23538896	C	C	23538896	2	2	16	1	0	0	0	0	0	0	0	1	10474	1770	62	3		3	NKX3-1	8	23538896	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1553716	23538896	122825126	553	12228											
ADAMDEC1	27299	broad.mit.edu	37	chr8	24256965	24256965	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaattccttgtgttcccCatcttcggttgctgttattg	5	19	7	10	1	2	0	1	0	1	0	5	0	4	0	3	1	1	4	3	1	2	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:24256965C>A	uc003xdz.2	+	10	1209	c.989C>A	c.(988-990)CCA>CAA	p.P330Q	ADAMDEC1_uc010lub.2_Missense_Mutation_p.P251Q|ADAMDEC1_uc011lab.1_Missense_Mutation_p.P251Q	NM_014479	NP_055294	O15204	ADEC1_HUMAN	ADAM-like, decysin 1 isoform 1	330	Peptidase M12B.				integrin-mediated signaling pathway|negative regulation of cell adhesion|proteolysis	extracellular region|integral to membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)	2		Prostate(55;0.0181)		Colorectal(74;0.016)|COAD - Colon adenocarcinoma(73;0.0646)|BRCA - Breast invasive adenocarcinoma(99;0.168)		TTGTGTTCCCCATCTTCGGTT	0.333													23	127					1.55795e-14	1.67197e-14	1	1	0		A	24256965	A	A	24256965	3	1	16	1	0	0	0	0	1	0	0	0	254	594	21	5	1027	5	ADAMDEC1	8	24256965	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	718069	24256965	122107057	554	12229											
NEFM	4741	broad.mit.edu	37	chr8	24771893	24771893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggaggaggcgcggttgcGcgacgacactgaggcggcca	8	4	19	10	6	0	2	0	2	0	0	0	6	0	4	1	6	1	1	1	6	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:24771893G>A	uc003xed.3	+	1	620	c.587G>A	c.(586-588)CGC>CAC	p.R196H	NEFM_uc011lac.1_Missense_Mutation_p.R196H|NEFM_uc010lue.2_5'Flank|uc010luc.1_Missense_Mutation_p.R59C	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	196	Rod.|Coil 1B.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		GCGCGGTTGCGCGACGACACT	0.632													6	28					0	0	1	0	0		A	24771893	A	A	24771893	3	1	16	1	0	0	0	0	1	0	0	0	10335	1087	38	1	589	1	NEFM	8	24771893	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	514928	24771893	121592129	555	12230											
DOCK5	80005	broad.mit.edu	37	chr8	25246735	25246735	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggggaagacatcaagtcGtcccccaagcagtgtatcct	10	8	10	13	1	1	1	1	0	0	1	4	2	3	2	4	2	1	2	4	2	4	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:25246735G>A	uc003xeg.2	+	41	4397	c.4260G>A	c.(4258-4260)TCG>TCA	p.S1420S	PPP2R2A_uc003xek.2_Silent_p.S209S|DOCK5_uc003xei.2_Silent_p.S990S|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1420	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		ACATCAAGTCGTCCCCCAAGC	0.567													26	118					0	0	1	0	0		A	25246735	A	A	25246735	2	1	16	1	0	0	0	0	0	0	0	1	4696	1132	40	1		1	DOCK5	8	25246735	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	474842	25246735	121117287	556	12231											
PNMA2	10687	broad.mit.edu	37	chr8	26365705	26365705	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccactctttgactatctcCgtggcctgttccaaccagac	7	11	8	15	1	2	2	0	1	2	1	4	2	3	2	5	2	1	1	5	2	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:26365705C>T	uc003xez.2	-	3	1337	c.567G>A	c.(565-567)ACG>ACA	p.T189T		NM_007257	NP_009188	Q9UL42	PNMA2_HUMAN	paraneoplastic antigen MA2	189					apoptosis	nucleolus	protein binding				0		all_cancers(63;0.109)|Ovarian(32;2.61e-05)|all_epithelial(46;0.105)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0196)|Epithelial(17;3.13e-11)|Colorectal(74;0.123)		tgactatctccgtggcctgtt	0													13	82					0	0	1	0	0		T	26365705	T	T	26365705	2	4	16	1	0	0	0	0	0	0	0	1	12173	639	23	1		1	PNMA2	8	26365705	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1118970	26365705	119998317	557	12232											
PTK2B	2185	broad.mit.edu	37	chr8	27297938	27297938	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaccggccccgcttcacCgagctggtgtgcagcctcag	6	7	13	15	3	2	1	2	1	0	0	2	2	2	1	5	2	3	3	5	2	0	1	rs149334019		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:27297938C>T	uc003xfn.1	+	26	2827	c.2019C>T	c.(2017-2019)ACC>ACT	p.T673T	PTK2B_uc003xfo.1_Silent_p.T673T|PTK2B_uc003xfp.1_Silent_p.T673T|PTK2B_uc003xfq.1_Silent_p.T673T|PTK2B_uc003xfr.1_Silent_p.T419T	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	673	Protein kinase.				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		CCCGCTTCACCGAGCTGGTGT	0.647													5	65					0	0	1	0	0		T	27297938	T	T	27297938	2	4	16	1	0	0	0	0	0	0	0	1	12786	639	23	1		1	PTK2B	8	27297938	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	932233	27297938	119066084	558	12233											
EPHX2	2053	broad.mit.edu	37	chr8	27362600	27362600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtcgtgtcaggtgggaatGgtcaaacctgaacctcagat	11	9	13	8	1	3	2	3	1	0	1	4	4	3	3	2	3	2	0	2	3	3	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:27362600G>A	uc003xfu.2	+	4	555	c.474G>A	c.(472-474)ATG>ATA	p.M158I	EPHX2_uc010lut.1_Missense_Mutation_p.M158I|EPHX2_uc010luu.2_Missense_Mutation_p.M158I|EPHX2_uc010luv.2_Missense_Mutation_p.M92I|EPHX2_uc003xfv.2_Missense_Mutation_p.M105I|EPHX2_uc010luw.2_Missense_Mutation_p.M92I|EPHX2_uc011lam.1_Missense_Mutation_p.M14I	NM_001979	NP_001970	P34913	HYES_HUMAN	epoxide hydrolase 2, cytoplasmic	158	Phosphatase.				aromatic compound catabolic process|cellular calcium ion homeostasis|drug metabolic process|inflammatory response|positive regulation of vasodilation|reactive oxygen species metabolic process|regulation of blood pressure|response to toxin|xenobiotic metabolic process	cytosol|focal adhesion|Golgi apparatus|nucleolus|peroxisome|soluble fraction	epoxide hydrolase activity|metal ion binding|protein homodimerization activity			ovary(1)	1		Ovarian(32;2.61e-05)|all_epithelial(46;0.207)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0226)|Epithelial(17;1.12e-09)|Colorectal(74;0.157)	Tamoxifen(DB00675)	AGGTGGGAATGGTCAAACCTG	0.542													7	50					0	0	1	0	0		A	27362600	A	A	27362600	3	1	16	1	0	0	0	0	1	0	0	0	5188	1348	47	4	488	4	EPHX2	8	27362600	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	64662	27362600	119001422	559	12234											
CCDC25	55246	broad.mit.edu	37	chr8	27606032	27606032	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccttctgcctgtgaaagcCtatctgccccacatccatgt	8	12	6	15	0	2	1	0	1	2	0	4	1	4	1	6	0	3	0	6	0	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:27606032C>A	uc003xgc.2	-	6	441	c.328G>T	c.(328-330)GGC>TGC	p.G110C	CCDC25_uc003xgd.2_Missense_Mutation_p.G42C|CCDC25_uc011lan.1_Intron|CCDC25_uc011lao.1_Intron|CCDC25_uc003xge.2_Intron|CCDC25_uc003xgf.1_RNA	NM_018246	NP_060716	Q86WR0	CCD25_HUMAN	coiled-coil domain containing 25	110											0		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0223)|KIRC - Kidney renal clear cell carcinoma(542;0.11)|Kidney(114;0.131)|Colorectal(74;0.154)		CTGTGAAAGCCTATCTGCCCC	0.473													8	216					1.76689e-08	1.83903e-08	1	1	0		A	27606032	A	A	27606032	3	1	16	1	0	0	0	0	1	0	0	0	2803	681	24	5	314	5	CCDC25	8	27606032	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	243432	27606032	118757990	560	12235											
EXTL3	2137	broad.mit.edu	37	chr8	28574843	28574843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagagcgggaggaccgcttgGaattgctgaagctctccacc	9	7	14	11	2	1	2	0	1	1	1	2	6	1	5	3	3	3	3	3	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:28574843G>A	uc003xgz.1	+	3	1860	c.1267G>A	c.(1267-1269)GAA>AAA	p.E423K		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	423	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		GGACCGCTTGGAATTGCTGAA	0.587													16	70					0	0	1	0	0		A	28574843	A	A	28574843	3	1	16	1	0	0	0	0	1	0	0	0	5335	1175	41	4	1269	4	EXTL3	8	28574843	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	968811	28574843	117789179	561	12236											
DUSP4	1846	broad.mit.edu	37	chr8	29195944	29195944	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccgtgatgcccagggcGtccagcatgtctctccgggc	6	7	14	14	3	1	2	0	1	1	1	4	2	3	2	4	2	3	1	4	2	0	0	rs111661543	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:29195944G>A	uc003xhm.2	-	3	1044	c.654C>T	c.(652-654)GAC>GAT	p.D218D	DUSP4_uc003xhl.2_Silent_p.D127D	NM_001394	NP_001385	Q13115	DUS4_HUMAN	dual specificity phosphatase 4 isoform 1	218	Tyrosine-protein phosphatase.				endoderm formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/threonine phosphatase activity			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.094)|Kidney(114;0.113)		TGCCCAGGGCGTCCAGCATGT	0.562													10	61					0	0	1	0	0		A	29195944	A	A	29195944	2	1	16	1	0	0	0	0	0	0	0	1	4833	1136	40	1		1	DUSP4	8	29195944	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	621101	29195944	117168078	562	12237											
WRN	7486	broad.mit.edu	37	chr8	30999110	30999110	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgaagatttgcgcccttacGaaaaaggtaaacggtgtagg	14	9	12	6	3	0	2	0	1	0	1	0	3	0	2	1	3	3	2	1	3	7	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:30999110G>A	uc003xio.3	+	25	3920	c.3132G>A	c.(3130-3132)ACG>ACA	p.T1044T	WRN_uc010lvk.2_Silent_p.T511T	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	1044					base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		GCGCCCTTACGAAAAAGGTAA	0.403			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				19	113					0	0	1	0	0		A	30999110	A	A	30999110	2	1	16	1	0	0	0	0	0	0	0	1	17428	1045	37	1		1	WRN	8	30999110	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1803166	30999110	115364912	563	12238											
GPR124	25960	broad.mit.edu	37	chr8	37689008	37689008	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcaccgtgtccatggccCaaggcaacgccagcaagaag	12	4	12	13	2	0	1	0	0	0	1	1	1	1	1	4	2	3	3	4	2	4	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:37689008C>T	uc003xkj.2	+	8	1363	c.1000C>T	c.(1000-1002)CAA>TAA	p.Q334*	GPR124_uc010lvy.2_Nonsense_Mutation_p.Q334*	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	334	Extracellular (Potential).|Ig-like.				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			GTCCATGGCCCAAGGCAACGC	0.647													9	59					0	0	1	0	0		T	37689008	T	T	37689008	4	4	16	1	0	0	0	0	0	1	0	0	6653	595	21	4	1009	4	GPR124	8	37689008	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6689898	37689008	108675014	564	12239											
BRF2	55290	broad.mit.edu	37	chr8	37702376	37702376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgctggagaaggtcacCgatgtgcttcaccacagacc	9	7	13	12	2	2	2	2	0	0	2	2	4	2	2	3	3	2	2	3	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:37702376C>T	uc003xkk.2	-	4	1002	c.892G>A	c.(892-894)GGT>AGT	p.G298S		NM_018310	NP_060780	Q9HAW0	BRF2_HUMAN	RNA polymerase III transcription initiation	298					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter|transcription initiation, DNA-dependent	nucleoplasm	protein binding|zinc ion binding				0		Lung NSC(58;0.118)|all_lung(54;0.195)	BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;1.81e-10)			AGAAGGTCACCGATGTGCTTC	0.622													18	72					0	0	1	0	0		T	37702376	T	T	37702376	3	4	16	1	0	0	0	0	1	0	0	0	1514	652	23	1	371	1	BRF2	8	37702376	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	13368	37702376	108661646	565	12240											
BAG4	9530	broad.mit.edu	37	chr8	38066655	38066655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtgcttatggaatgggtgGccgttatccctggccttcat	5	14	13	9	1	1	0	1	0	0	0	2	1	2	1	3	5	1	2	3	5	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:38066655G>A	uc003xky.1	+	4	1040	c.758G>A	c.(757-759)GGC>GAC	p.G253D	BAG4_uc003xkz.1_Missense_Mutation_p.G217D	NM_004874	NP_004865	O95429	BAG4_HUMAN	BCL2-associated athanogene 4	253					anti-apoptosis|apoptosis|protein folding	cytoplasm|nucleus	receptor signaling protein activity			ovary(1)	1	Colorectal(12;0.000442)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.121)				GGAATGGGTGGCCGTTATCCC	0.532													7	50					0	0	1	0	0		A	38066655	A	A	38066655	3	1	16	1	0	0	0	0	1	0	0	0	1290	1203	42	2	772	2	BAG4	8	38066655	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	364279	38066655	108297367	566	12241											
HTRA4	203100	broad.mit.edu	37	chr8	38835575	38835575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgcagaacacagctactgCaggaattgtcagcaccaaac	14	7	8	12	0	2	1	1	0	1	1	2	2	2	2	1	1	7	4	1	1	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:38835575C>T	uc003xmj.2	+	4	990	c.875C>T	c.(874-876)GCA>GTA	p.A292V		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	292	Serine protease.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			ACAGCTACTGCAGGAATTGTC	0.493													26	66					0	0	1	0	0		T	38835575	T	T	38835575	3	4	16	1	0	0	0	0	1	0	0	0	7472	710	25	2	889	2	HTRA4	8	38835575	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	768920	38835575	107528447	567	12242											
IKBKB	3551	broad.mit.edu	37	chr8	42176093	42176093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagcccaagaggaatctcGccttcttccagctgaggaag	12	7	11	11	1	2	3	0	1	2	2	4	5	3	5	3	2	2	1	3	2	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:42176093G>A	uc003xow.1	+	13	1441	c.1264G>A	c.(1264-1266)GCC>ACC	p.A422T	IKBKB_uc010lxh.1_Missense_Mutation_p.A317T|IKBKB_uc011lco.1_RNA|IKBKB_uc010lxj.1_Missense_Mutation_p.A199T|IKBKB_uc003xox.1_Missense_Mutation_p.A143T|IKBKB_uc011lcp.1_RNA|IKBKB_uc011lcq.1_Missense_Mutation_p.A420T|IKBKB_uc010lxi.1_RNA|IKBKB_uc011lcr.1_Missense_Mutation_p.A363T	NM_001556	NP_001547	O14920	IKKB_HUMAN	inhibitor of nuclear factor kappa B kinase beta	422					anti-apoptosis|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|membrane raft	ATP binding|identical protein binding|IkappaB kinase activity			breast(3)|ovary(2)|lung(1)|skin(1)	7	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;6.21e-12)|Lung NSC(13;1.04e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;1.37e-10)|Colorectal(10;0.00102)|OV - Ovarian serous cystadenocarcinoma(14;0.00168)|Lung(22;0.00467)|LUSC - Lung squamous cell carcinoma(45;0.024)|COAD - Colon adenocarcinoma(11;0.0264)		Arsenic trioxide(DB01169)|Auranofin(DB00995)	GAGGAATCTCGCCTTCTTCCA	0.522													24	101					0	0	1	0	0		A	42176093	A	A	42176093	3	1	16	1	0	0	0	0	1	0	0	0	7627	1087	38	1	1310	1	IKBKB	8	42176093	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3340518	42176093	104187929	568	12243											
HOOK3	84376	broad.mit.edu	37	chr8	42828458	42828458	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactacaaaacagattatcCgaagaatcaaagaaagcaga	22	5	7	7	1	1	4	1	0	0	4	2	6	2	4	1	0	4	1	1	0	9	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:42828458C>T	uc003xpr.2	+	12	1391	c.1149C>T	c.(1147-1149)TCC>TCT	p.S383S	HOOK3_uc010lxq.1_Silent_p.S383S	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	383	Potential.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			ACAGATTATCCGAAGAATCAA	0.294			T	RET	papillary thyroid								23	83					0	0	1	0	0		T	42828458	T	T	42828458	2	4	16	1	0	0	0	0	0	0	0	1	7300	639	23	1		1	HOOK3	8	42828458	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	652365	42828458	103535564	569	12244											
MCM4	4173	broad.mit.edu	37	chr8	48887498	48887498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatccccggactggcatcGtggacatatctattcttact	8	13	8	12	2	2	1	0	1	2	0	4	3	3	3	2	3	1	1	2	3	3	4	rs140026188		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:48887498G>A	uc003xqk.1	+	15	2436	c.2341G>A	c.(2341-2343)GTG>ATG	p.V781M	MCM4_uc003xql.1_Missense_Mutation_p.V781M|MCM4_uc011ldi.1_Missense_Mutation_p.V768M	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	781					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				GACTGGCATCGTGGACATATC	0.403													22	115					0	0	1	0	0		A	48887498	A	A	48887498	3	1	16	1	0	0	0	0	1	0	0	0	9407	1145	40	1	2395	1	MCM4	8	48887498	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6059040	48887498	97476524	570	12245											
PXDNL	137902	broad.mit.edu	37	chr8	52321164	52321164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgatgtgctgcagctccGcgcccacgatcttcctggct	5	10	12	14	3	1	1	0	1	1	0	3	2	3	1	3	2	3	4	3	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:52321164G>A	uc003xqu.3	-	17	3121	c.3020C>T	c.(3019-3021)GCG>GTG	p.A1007V	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1007					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CTGCAGCTCCGCGCCCACGAT	0.622													5	17					0	0	1	0	0		A	52321164	A	A	52321164	3	1	16	1	0	0	0	0	1	0	0	0	12873	1087	38	1	1399	1	PXDNL	8	52321164	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3433666	52321164	94042858	571	12246											
SOX17	64321	broad.mit.edu	37	chr8	55370898	55370898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgagccaagggcgagtcccGtatccggcggccgatgaacg	8	4	15	14	7	0	1	0	1	0	0	2	4	2	1	5	3	2	1	5	3	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:55370898G>A	uc003xsb.3	+	1	404	c.200G>A	c.(199-201)CGT>CAT	p.R67H		NM_022454	NP_071899	Q9H6I2	SOX17_HUMAN	SRY-box 17	67					angiogenesis|cardiac cell fate determination|endocardial cell differentiation|endocardium formation|endoderm formation|heart formation|heart looping|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|outflow tract morphogenesis|positive regulation of transcription, DNA-dependent|protein destabilization|protein stabilization|regulation of embryonic development|renal system development|vasculogenesis|Wnt receptor signaling pathway	transcription factor complex	beta-catenin binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			lung(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.176)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;1.9e-07)|Epithelial(17;1.7e-05)|all cancers(17;0.000159)			GGCGAGTCCCGTATCCGGCGG	0.682													6	30					0	0	1	0	0		A	55370898	A	A	55370898	3	1	16	1	0	0	0	0	1	0	0	0	14972	1145	40	1	202	1	SOX17	8	55370898	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3049734	55370898	90993124	572	12247											
XKR4	114786	broad.mit.edu	37	chr8	56015724	56015724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaagagcaacatcgccGcggccaacagcggcagcaac	13	1	11	16	4	0	1	0	0	0	1	1	1	0	1	3	2	7	4	3	2	4	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:56015724G>A	uc003xsf.2	+	1	708	c.676G>A	c.(676-678)GCG>ACG	p.A226T		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	226						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			CAACATCGCCGCGGCCAACAG	0.652													8	20					0	0	1	0	0		A	56015724	A	A	56015724	3	1	16	1	0	0	0	0	1	0	0	0	17459	1087	38	1	678	1	XKR4	8	56015724	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	644826	56015724	90348298	573	12248											
PDE7A	5150	broad.mit.edu	37	chr8	66639133	66639133	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctaatggcagatgtgaGaataagcctgattctctcaa	12	13	8	8	0	3	3	1	2	2	2	4	4	3	3	1	1	1	1	1	1	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:66639133G>T	uc003xvq.2	-	9	909	c.897C>A	c.(895-897)TTC>TTA	p.F299L	PDE7A_uc003xvr.2_Missense_Mutation_p.F299L|PDE7A_uc003xvp.2_Missense_Mutation_p.F273L	NM_002604	NP_002595	Q13946	PDE7A_HUMAN	phosphodiesterase 7A isoform b	299	Catalytic (By similarity).					cell fraction|cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding				0			Epithelial(68;0.0509)|BRCA - Breast invasive adenocarcinoma(89;0.111)|all cancers(69;0.168)|OV - Ovarian serous cystadenocarcinoma(28;0.238)		Dyphylline(DB00651)|Ketotifen(DB00920)	GCAGATGTGAGAATAAGCCTG	0.348													43	156					6.3008e-33	6.91419e-33	1	1	0		T	66639133	T	T	66639133	3	4	16	1	0	0	0	0	1	0	0	0	11670	933	33	5	603	5	PDE7A	8	66639133	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	10623409	66639133	79724889	574	12249											
ADHFE1	137872	broad.mit.edu	37	chr8	67361171	67361171	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccctccacatgcctgccCgagtggtcgccaacagtggc	8	6	10	17	2	0	0	0	0	0	0	2	1	1	0	5	2	3	0	5	2	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:67361171C>T	uc003xwb.3	+	8	734	c.700C>T	c.(700-702)CGA>TGA	p.R234*	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Nonsense_Mutation_p.R186*|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_RNA|ADHFE1_uc011les.1_Nonsense_Mutation_p.R164*|ADHFE1_uc011leq.1_RNA|ADHFE1_uc011ler.1_RNA	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	234					2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			CATGCCTGCCCGAGTGGTCGC	0.498													6	307					0	0	1	0	0		T	67361171	T	T	67361171	4	4	16	1	0	0	0	0	0	1	0	0	314	644	23	1	730	1	ADHFE1	8	67361171	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	722038	67361171	79002851	575	12250											
C8orf46	254778	broad.mit.edu	37	chr8	67405939	67405939	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagaagttttcaccaccgTgattccttccaagggtgagt	10	12	9	10	1	1	3	1	2	0	1	3	3	3	3	4	1	0	1	4	1	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:67405939T>C	uc003xwg.2	+	1	449	c.56T>C	c.(55-57)GTG>GCG	p.V19A	C8orf46_uc003xwh.2_RNA|C8orf46_uc011let.1_Missense_Mutation_p.V19A	NM_152765	NP_689978	Q8TAG6	CH046_HUMAN	hypothetical protein LOC254778	19										skin(2)	2			Epithelial(68;0.0224)|BRCA - Breast invasive adenocarcinoma(89;0.0508)|all cancers(69;0.0558)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			TTCACCACCGTGATTCCTTCC	0.507													20	90					0	0	1	0	0		C	67405939	C	C	67405939	3	2	16	1	0	0	0	0	1	0	0	0	2434	1696	59	3	58	3	C8orf46	8	67405939	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	44768	67405939	78958083	576	12251											
C8orf45	157777	broad.mit.edu	37	chr8	67803139	67803139	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccttgtcccccgtggtatAcgtcatctagtctctactga	8	13	7	13	2	3	1	1	1	2	0	5	1	4	1	3	1	3	1	3	1	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:67803139A>G	uc003xwz.3	+	10	1284	c.1113A>G	c.(1111-1113)ATA>ATG	p.I371M	C8orf45_uc011lev.1_Missense_Mutation_p.I371M|C8orf45_uc011lew.1_Missense_Mutation_p.I302M|C8orf45_uc011lex.1_Missense_Mutation_p.I129M|C8orf45_uc003xwy.3_Missense_Mutation_p.I371M	NM_173518	NP_775789	Q4G0Z9	CH045_HUMAN	minichromosome maintenance complex	371					DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)			CCCGTGGTATACGTCATCTAG	0.363													7	205					0	0	1	0	0		G	67803139	G	G	67803139	3	3	16	1	0	0	0	0	1	0	0	0	2433	381	14	3	1147	3	C8orf45	8	67803139	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	397200	67803139	78560883	577	12252											
CSPP1	79848	broad.mit.edu	37	chr8	67998286	67998286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacttggagaagactatgaaCggaagaaacataaattaaaa	21	7	8	5	1	0	4	0	1	0	3	0	6	0	5	0	2	2	0	0	2	9	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:67998286C>T	uc003xxi.2	+	4	383	c.352C>T	c.(352-354)CGG>TGG	p.R118W	CSPP1_uc003xxg.1_Missense_Mutation_p.R118W|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Missense_Mutation_p.R118W|CSPP1_uc003xxk.2_Translation_Start_Site	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	118	Potential.					centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			AGACTATGAACGGAAGAAACA	0.303													31	146					0	0	1	0	0		T	67998286	T	T	67998286	3	4	16	1	0	0	0	0	1	0	0	0	3965	527	19	1	366	1	CSPP1	8	67998286	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	195147	67998286	78365736	578	12253											
PREX2	80243	broad.mit.edu	37	chr8	68989660	68989660	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcaccagagaagaggcaaTgatatttggcgttggactct	11	9	12	9	2	1	3	0	1	1	2	1	5	1	4	2	3	0	3	2	3	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:68989660T>A	uc003xxv.1	+	15	1625	c.1598T>A	c.(1597-1599)ATG>AAG	p.M533K	PREX2_uc003xxu.1_Missense_Mutation_p.M533K|PREX2_uc011lez.1_Missense_Mutation_p.M468K	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	533	DEP 2.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GAAGAGGCAATGATATTTGGC	0.438													24	119					0	0	1	0	0		A	68989660	A	A	68989660	3	1	16	1	0	0	0	0	1	0	0	0	12499	1464	51	5	1656	5	PREX2	8	68989660	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	991374	68989660	77374362	579	12254											
PREX2	80243	broad.mit.edu	37	chr8	69046300	69046300	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttgatcacagatagtgAgacacagctccgtagagaca	13	9	9	10	1	2	4	1	2	1	3	3	6	3	4	1	0	1	2	1	0	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:69046300A>G	uc003xxv.1	+	32	3800	c.3773A>G	c.(3772-3774)GAG>GGG	p.E1258G		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1258					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ACAGATAGTGAGACACAGCTC	0.458													18	69					0	0	1	0	0		G	69046300	G	G	69046300	3	3	16	1	0	0	0	0	1	0	0	0	12499	304	11	3	4128	3	PREX2	8	69046300	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	56640	69046300	77317722	580	12255											
PREX2	80243	broad.mit.edu	37	chr8	69046345	69046345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttctgccagactcttgtggCcactgtctgtgccttctctg	3	16	9	13	0	4	1	0	0	4	1	5	1	4	1	3	1	2	0	3	1	0	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:69046345C>T	uc003xxv.1	+	32	3845	c.3818C>T	c.(3817-3819)GCC>GTC	p.A1273V		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1273					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ACTCTTGTGGCCACTGTCTGT	0.483													20	51					0	0	1	0	0		T	69046345	T	T	69046345	3	4	16	1	0	0	0	0	1	0	0	0	12499	739	26	2	4173	2	PREX2	8	69046345	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	45	69046345	77317677	581	12256											
C8orf34	116328	broad.mit.edu	37	chr8	69351816	69351816	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcagtctaaacaagggaAccgtggacaacttcaaagaa	16	8	8	9	1	4	1	2	0	2	1	4	3	4	3	1	2	3	0	1	2	7	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:69351816A>G	uc010lyz.2	+	2	201	c.152A>G	c.(151-153)AAC>AGC	p.N51S	C8orf34_uc010lyx.1_Missense_Mutation_p.N51S|C8orf34_uc010lyy.1_Missense_Mutation_p.N51S|C8orf34_uc003xyb.2_Missense_Mutation_p.N26S	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	51					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			AAACAAGGGAACCGTGGACAA	0.408													31	78					0	0	1	0	0		G	69351816	G	G	69351816	3	3	16	1	0	0	0	0	1	0	0	0	2425	43	2	3	79	3	C8orf34	8	69351816	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	305471	69351816	77012206	582	12257											
SULF1	23213	broad.mit.edu	37	chr8	70501233	70501233	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcacagacttaatcactaaCgagagcattaattacttcaa	16	12	4	9	1	3	2	3	0	0	2	3	3	3	2	0	0	3	1	0	0	5	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:70501233C>T	uc010lza.1	+	8	1308	c.591C>T	c.(589-591)AAC>AAT	p.N197N	SULF1_uc003xyd.2_Silent_p.N197N|SULF1_uc003xye.2_Silent_p.N197N|SULF1_uc003xyf.2_Silent_p.N197N|SULF1_uc003xyg.2_Silent_p.N197N	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	197					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			TAATCACTAACGAGAGCATTA	0.423													19	88					0	0	1	0	0		T	70501233	T	T	70501233	2	4	16	1	0	0	0	0	0	0	0	1	15395	535	19	1		1	SULF1	8	70501233	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1149417	70501233	75862789	583	12258											
SULF1	23213	broad.mit.edu	37	chr8	70517125	70517125	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaacgggtcaaagaactatgCcagcaggccaggtaccagac	14	4	12	11	1	1	2	1	0	0	2	1	3	1	2	3	3	5	2	3	3	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:70517125C>T	uc010lza.1	+	13	2052	c.1335C>T	c.(1333-1335)TGC>TGT	p.C445C	SULF1_uc003xyd.2_Silent_p.C445C|SULF1_uc003xye.2_Silent_p.C445C|SULF1_uc003xyf.2_Silent_p.C445C|SULF1_uc003xyg.2_Silent_p.C445C|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	445					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			AAGAACTATGCCAGCAGGCCA	0.458													17	108					0	0	1	0	0		T	70517125	T	T	70517125	2	4	16	1	0	0	0	0	0	0	0	1	15395	747	26	2		2	SULF1	8	70517125	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	15892	70517125	75846897	584	12259											
SULF1	23213	broad.mit.edu	37	chr8	70536319	70536319	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgctaagcgtcatgatgaAggccacaaggggccaagaga	14	6	13	8	1	1	3	1	2	0	1	1	4	1	3	2	3	2	1	2	3	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:70536319A>G	uc010lza.1	+	15	2454	c.1737A>G	c.(1735-1737)GAA>GAG	p.E579E	SULF1_uc003xyd.2_Silent_p.E579E|SULF1_uc003xye.2_Silent_p.E579E|SULF1_uc003xyf.2_Silent_p.E579E|SULF1_uc003xyg.2_Silent_p.E579E|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	579					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			GTCATGATGAAGGCCACAAGG	0.502													6	61					0	0	1	0	0		G	70536319	G	G	70536319	2	3	16	1	0	0	0	0	0	0	0	1	15395	69	3	3		3	SULF1	8	70536319	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	19194	70536319	75827703	585	12260											
EYA1	2138	broad.mit.edu	37	chr8	72229848	72229848	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtactgaagcttgtgccataGctgagaaatcctgtctgtcc	9	12	10	10	0	1	2	0	2	1	1	3	3	3	2	3	0	4	3	3	0	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:72229848G>A	uc003xys.3	-	6	782	c.495C>T	c.(493-495)AGC>AGT	p.S165S	EYA1_uc003xyr.3_Silent_p.S160S|EYA1_uc003xyt.3_Silent_p.S132S|EYA1_uc010lzf.2_Silent_p.S92S|EYA1_uc003xyu.2_Silent_p.S165S|EYA1_uc011lfe.1_Silent_p.S159S|EYA1_uc003xyv.2_Silent_p.S43S	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	165					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			TTGTGCCATAGCTGAGAAATC	0.463													51	212					0	0	1	0	0		A	72229848	A	A	72229848	2	1	16	1	0	0	0	0	0	0	0	1	5336	962	34	2		2	EYA1	8	72229848	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1693529	72229848	74134174	586	12261											
STAU2	27067	broad.mit.edu	37	chr8	74464497	74464497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagagattactttgtggCggctggcttccatctcttga	6	14	11	10	1	1	2	0	1	1	1	3	3	2	2	2	3	2	2	2	3	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:74464497C>T	uc003xzm.2	-	13	1516	c.1280G>A	c.(1279-1281)CGC>CAC	p.R427H	STAU2_uc011lfg.1_Missense_Mutation_p.R255H|STAU2_uc003xzn.2_Missense_Mutation_p.R395H|STAU2_uc011lfh.1_Missense_Mutation_p.R323H|STAU2_uc003xzo.2_Missense_Mutation_p.R427H|STAU2_uc003xzp.2_Missense_Mutation_p.R395H|STAU2_uc011lfi.1_Missense_Mutation_p.R389H|STAU2_uc003xzq.2_Missense_Mutation_p.R207H|STAU2_uc010lzk.2_Missense_Mutation_p.R395H|STAU2_uc010lzl.1_Missense_Mutation_p.R255H	NM_014393	NP_055208	Q9NUL3	STAU2_HUMAN	staufen homolog 2 isoform e	427	Required for dendritic transport (By similarity).				transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)			TACTTTGTGGCGGCTGGCTTC	0.373													18	74					0	0	1	0	0		T	74464497	T	T	74464497	3	4	16	1	0	0	0	0	1	0	0	0	15298	768	27	1	568	1	STAU2	8	74464497	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2234649	74464497	71899525	587	12262											
ZNF704	619279	broad.mit.edu	37	chr8	81555314	81555314	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggaggacaggaccgtgtgCgcatgctgtctctgctctcc	5	9	15	12	2	2	0	0	0	2	0	4	3	2	3	2	4	3	3	2	4	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:81555314C>T	uc003yby.1	-	8	1315	c.1083G>A	c.(1081-1083)GCG>GCA	p.A361A		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	361						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			GGACCGTGTGCGCATGCTGTC	0.522													6	68					0	0	1	0	0		T	81555314	T	T	81555314	2	4	16	1	0	0	0	0	0	0	0	1	18132	755	27	1		1	ZNF704	8	81555314	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7090817	81555314	64808708	588	12263											
ATP6V0D2	245972	broad.mit.edu	37	chr8	87111213	87111213	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaatctcttcccccatgctCgaaggtgcggagctgtactt	7	12	9	13	2	2	0	1	0	1	0	5	2	3	1	2	2	4	3	2	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:87111213C>T	uc003ydp.1	+	1	75	c.6C>T	c.(4-6)CTC>CTT	p.L2L		NM_152565	NP_689778	Q8N8Y2	VA0D2_HUMAN	ATPase, H+ transporting, lysosomal 38kDa, V0	2					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	apical plasma membrane|endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex	hydrogen ion transmembrane transporter activity|protein binding				0						CCCCCATGCTCGAAGGTGCGG	0.552													29	108					0	0	1	0	0		T	87111213	T	T	87111213	2	4	16	1	0	0	0	0	0	0	0	1	1175	871	31	1		1	ATP6V0D2	8	87111213	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5555899	87111213	59252809	589	12264											
RIPK2	8767	broad.mit.edu	37	chr8	90796355	90796355	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacatacctgtaaatcaTggtccacaagaggtaaaaaa	18	8	7	8	0	1	2	1	1	0	1	2	2	2	2	2	2	2	2	2	2	8	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:90796355T>C	uc003yee.2	+	8	1331	c.1017T>C	c.(1015-1017)CAT>CAC	p.H339H	RIPK2_uc003yef.2_Silent_p.H202H	NM_003821	NP_003812	O43353	RIPK2_HUMAN	receptor-interacting serine-threonine kinase 2	339					activation of MAPK activity|anti-apoptosis|apoptosis|inflammatory response|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|CARD domain binding|LIM domain binding|protein homodimerization activity|protein serine/threonine kinase activity|signal transducer activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.0474)			CTGTAAATCATGGTCCACAAG	0.239													14	51					0	0	1	0	0		C	90796355	C	C	90796355	2	2	16	1	0	0	0	0	0	0	0	1	13406	1461	51	3		3	RIPK2	8	90796355	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	3685142	90796355	55567667	590	12265											
RUNX1T1	862	broad.mit.edu	37	chr8	93088227	93088227	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttcccttttttccggcaGtcacctattactaaactcag	10	14	5	12	1	2	0	2	0	0	0	4	0	4	0	3	1	2	2	3	1	5	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:93088227G>A	uc003yfd.2	-	1	138	c.54C>T	c.(52-54)GAC>GAT	p.D18D	RUNX1T1_uc003yfe.1_Intron|RUNX1T1_uc010mao.2_5'UTR|RUNX1T1_uc011lgi.1_Intron|RUNX1T1_uc003yfh.1_Intron	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	18					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			TTTTCCGGCAGTCACCTATTA	0.363													30	149					0	0	1	0	0		A	93088227	A	A	93088227	2	1	16	1	0	0	0	0	0	0	0	1	13772	1020	36	4		4	RUNX1T1	8	93088227	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2291872	93088227	53275795	591	12266											
KIAA1429	25962	broad.mit.edu	37	chr8	95501084	95501084	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggtcccgaggacttgggcgGtaacctgtaaaagaaagaat	13	7	13	8	3	0	2	0	0	0	2	1	4	1	3	2	4	1	2	2	4	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:95501084G>T	uc003ygo.1	-	24	5302	c.5289C>A	c.(5287-5289)TAC>TAA	p.Y1763*	KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1763					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			GACTTGGGCGGTAACCTGTAA	0.453													7	89					0.00448238	0.00452608	1	1	0		T	95501084	T	T	95501084	4	4	16	1	0	0	0	0	0	1	0	0	8247	1256	44	5	153	5	KIAA1429	8	95501084	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2412857	95501084	50862938	592	12267											
KIAA1429	25962	broad.mit.edu	37	chr8	95538496	95538496	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctctctggaggtccagtaAttcgtgccatcgttgggaaa	8	11	11	11	2	1	0	0	0	1	0	5	2	2	2	3	3	1	2	3	3	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:95538496A>T	uc003ygo.1	-	8	1989	c.1976T>A	c.(1975-1977)ATT>AAT	p.I659N	KIAA1429_uc003ygp.2_Missense_Mutation_p.I659N|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	659					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			AGGTCCAGTAATTCGTGCCAT	0.393													27	108					0	0	1	0	0		T	95538496	T	T	95538496	3	4	16	1	0	0	0	0	1	0	0	0	8247	101	4	5	3584	5	KIAA1429	8	95538496	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	37412	95538496	50825526	593	12268											
UQCRB	7381	broad.mit.edu	37	chr8	97243341	97243341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaataacctctttcagatacGgttcaaggtagaaattttcc	13	13	7	8	1	3	2	2	0	1	2	4	3	4	2	2	2	2	2	2	2	6	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:97243341G>A	uc003yhq.3	-	4	382	c.278C>T	c.(277-279)CCG>CTG	p.P93L	UQCRB_uc011lgt.1_RNA|UQCRB_uc010mbc.2_RNA	NM_006294	NP_006285	P14927	QCR7_HUMAN	ubiquinol-cytochrome c reductase binding	93					aerobic respiration|mitochondrial electron transport, ubiquinol to cytochrome c	mitochondrial respiratory chain	ubiquinol-cytochrome-c reductase activity			ovary(1)	1	Breast(36;5.16e-05)					TTTCAGATACGGTTCAAGGTA	0.353													42	169					0	0	1	0	0		A	97243341	A	A	97243341	3	1	16	1	0	0	0	0	1	0	0	0	17044	1116	39	1	61	1	UQCRB	8	97243341	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1704845	97243341	49120681	594	12269											
DCAF13	25879	broad.mit.edu	37	chr8	104427572	104427572	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctccgcgagtcacgtgacTggaagtagtctgggaaaagc	10	7	14	10	4	2	1	1	1	1	0	3	4	3	3	1	2	1	2	1	2	4	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:104427572T>C	uc003yln.2	+	1	631	c.354T>C	c.(352-354)ACT>ACC	p.T118T	SLC25A32_uc003yll.2_5'Flank|SLC25A32_uc011lhr.1_5'Flank|DCAF13_uc003ylm.1_5'UTR|DCAF13_uc003ylo.2_5'UTR	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	Error:Variant_position_missing_in_Q9NV06_after_alignment					rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						GTCACGTGACTGGAAGTAGTC	0.637													14	38					0	0	1	0	0		C	104427572	C	C	104427572	2	2	16	1	0	0	0	0	0	0	0	1	4269	1567	55	3		3	DCAF13	8	104427572	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	7184231	104427572	41936450	595	12270											
RIMS2	9699	broad.mit.edu	37	chr8	104897787	104897787	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggaaagcagagatgaataCgaaaggcaaaggagagagga	19	3	16	3	1	0	3	0	1	0	2	0	9	0	6	0	4	2	2	0	4	5	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:104897787C>T	uc003yls.2	+	2	535	c.294C>T	c.(292-294)TAC>TAT	p.Y98Y	RIMS2_uc003ylp.2_Silent_p.Y320Y|RIMS2_uc003ylw.2_Silent_p.Y128Y|RIMS2_uc003ylq.2_Silent_p.Y128Y|RIMS2_uc003ylr.2_Silent_p.Y128Y	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	351					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GAGATGAATACGAAAGGCAAA	0.428										HNSCC(12;0.0054)			18	91					0	0	1	0	0		T	104897787	T	T	104897787	2	4	16	1	0	0	0	0	0	0	0	1	13393	547	19	1		1	RIMS2	8	104897787	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	470215	104897787	41466235	596	12271											
RIMS2	9699	broad.mit.edu	37	chr8	104922390	104922390	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattacaactggttggatcaTacgtcttggcatagcagtga	11	12	11	7	1	2	1	1	1	1	0	2	3	2	2	0	3	4	3	0	3	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:104922390T>G	uc003yls.2	+	3	1228	c.987T>G	c.(985-987)CAT>CAG	p.H329Q	RIMS2_uc003ylp.2_Missense_Mutation_p.H551Q|RIMS2_uc003ylw.2_Missense_Mutation_p.H359Q|RIMS2_uc003ylq.2_Missense_Mutation_p.H359Q|RIMS2_uc003ylr.2_Intron|RIMS2_uc003ylt.2_5'Flank	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GGTTGGATCATACGTCTTGGC	0.393										HNSCC(12;0.0054)			38	168					0	0	1	0	0		G	104922390	G	G	104922390	3	3	16	1	0	0	0	0	1	0	0	0	13393	1403	49	5	1797	5	RIMS2	8	104922390	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	24603	104922390	41441632	597	12272											
OXR1	55074	broad.mit.edu	37	chr8	107691480	107691480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agacaagaaagatggaagacGaatgtcttttcagaaaccta	18	8	9	6	1	2	5	1	0	1	5	2	7	2	6	1	1	1	0	1	1	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:107691480G>A	uc011lht.1	+	3	365	c.266G>A	c.(265-267)CGA>CAA	p.R89Q	OXR1_uc003ymf.2_Missense_Mutation_p.R88Q|OXR1_uc011lhu.1_Missense_Mutation_p.R81Q|OXR1_uc010mcg.2_Intron|OXR1_uc003ymg.1_Missense_Mutation_p.R21Q|OXR1_uc003ymi.1_5'UTR	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	89					cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			GATGGAAGACGAATGTCTTTT	0.338													26	160					0	0	1	0	0		A	107691480	A	A	107691480	3	1	16	1	0	0	0	0	1	0	0	0	11353	1058	37	1	476	1	OXR1	8	107691480	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2769090	107691480	38672542	598	12273											
CSMD3	114788	broad.mit.edu	37	chr8	113301668	113301668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgactggcctaaaagggaaCgctttcctgtgcaggaatag	12	9	12	8	1	0	1	0	1	0	0	1	3	1	3	2	3	2	2	2	3	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:113301668C>T	uc003ynu.2	-	57	9233	c.9074G>A	c.(9073-9075)CGT>CAT	p.R3025H	CSMD3_uc003yns.2_Missense_Mutation_p.R2227H|CSMD3_uc003ynt.2_Missense_Mutation_p.R2985H|CSMD3_uc011lhx.1_Missense_Mutation_p.R2856H	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3025	Sushi 21.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TAAAAGGGAACGCTTTCCTGT	0.468										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			16	97					0	0	1	0	0		T	113301668	T	T	113301668	3	4	16	1	0	0	0	0	1	0	0	0	3949	536	19	1	2109	1	CSMD3	8	113301668	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5610188	113301668	33062354	599	12274											
CSMD3	114788	broad.mit.edu	37	chr8	113308134	113308134	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactgaagaaccaatcaatcGaaaaccaggattacattgat	18	8	6	9	1	1	3	1	2	0	1	2	5	1	4	2	1	3	0	2	1	7	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:113308134G>A	uc003ynu.2	-	54	8701	c.8542C>T	c.(8542-8544)CGA>TGA	p.R2848*	CSMD3_uc003yns.2_Nonsense_Mutation_p.R2050*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.R2808*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.R2679*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2848	Extracellular (Potential).|Sushi 18.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCAATCAATCGAAAACCAGGA	0.403										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			4	75					0	0	1	0	0		A	113308134	A	A	113308134	4	1	16	1	0	0	0	0	0	1	0	0	3949	1066	37	1	2653	1	CSMD3	8	113308134	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6466	113308134	33055888	600	12275											
CSMD3	114788	broad.mit.edu	37	chr8	113314034	113314034	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgtacctaggcatctggTttcagattcactccaaagac	11	12	7	11	0	4	2	2	0	2	2	5	2	5	2	2	2	1	3	2	2	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:113314034T>A	uc003ynu.2	-	53	8587	c.8428A>T	c.(8428-8430)ACC>TCC	p.T2810S	CSMD3_uc003yns.2_Missense_Mutation_p.T2012S|CSMD3_uc003ynt.2_Missense_Mutation_p.T2770S|CSMD3_uc011lhx.1_Missense_Mutation_p.T2641S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2810	Extracellular (Potential).|Sushi 17.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGGCATCTGGTTTCAGATTCA	0.438										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			30	89					0	0	1	0	0		A	113314034	A	A	113314034	3	1	16	1	0	0	0	0	1	0	0	0	3949	1725	60	5	2771	5	CSMD3	8	113314034	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	5900	113314034	33049988	601	12276											
CSMD3	114788	broad.mit.edu	37	chr8	113702263	113702263	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgtaccaggatcaccacaActttctttctcaatttctgg	9	14	7	11	0	4	0	2	0	3	0	5	1	4	1	2	3	2	1	2	3	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:113702263A>C	uc003ynu.2	-	14	2148	c.1989T>G	c.(1987-1989)AGT>AGG	p.S663R	CSMD3_uc003yns.2_5'UTR|CSMD3_uc003ynt.2_Missense_Mutation_p.S623R|CSMD3_uc011lhx.1_Missense_Mutation_p.S559R	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	663	Extracellular (Potential).|Sushi 3.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GATCACCACAACTTTCTTTCT	0.363										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			9	228					0	0	1	0	0		C	113702263	C	C	113702263	3	2	16	1	0	0	0	0	1	0	0	0	3949	40	2	5	9366	5	CSMD3	8	113702263	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	388229	113702263	32661759	602	12277											
TRPS1	7227	broad.mit.edu	37	chr8	116617110	116617110	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagaaaatgttgttctaaTtcggtggatgagttgcccat	11	14	11	5	1	1	3	0	2	1	1	2	4	1	4	1	2	1	3	1	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:116617110T>C	uc003ynz.2	-	3	1506	c.1047A>G	c.(1045-1047)GAA>GAG	p.E349E	TRPS1_uc011lhy.1_Silent_p.E353E|TRPS1_uc003yny.2_Silent_p.E362E|TRPS1_uc010mcy.2_Silent_p.E349E	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	349	C2H2-type 2; atypical.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GTTGTTCTAATTCGGTGGATG	0.413									Langer-Giedion_syndrome				17	107					0	0	1	0	0		C	116617110	C	C	116617110	2	2	16	1	0	0	0	0	0	0	0	1	16619	1490	52	3		3	TRPS1	8	116617110	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2914847	116617110	29746912	603	12278											
RAD21	5885	broad.mit.edu	37	chr8	117866524	117866524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaaaggctgagcaggtaaaGaaaacagtttttctactcct	15	10	8	8	0	1	2	0	1	1	1	2	2	2	2	1	2	3	4	1	2	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:117866524G>A	uc003yod.2	-	9	1409	c.1121C>T	c.(1120-1122)TCT>TTT	p.S374F		NM_006265	NP_006256	O60216	RAD21_HUMAN	RAD21 homolog	374	Interaction with WAPAL and PDS5B.|Interaction with STAG1.				apoptosis|cell division|chromosome segregation|double-strand break repair|mitotic metaphase/anaphase transition|mitotic prometaphase|protein localization to chromatin|reciprocal meiotic recombination|regulation of transcription from RNA polymerase II promoter	chromosome, centromeric region|cohesin complex|nuclear chromosome|nucleoplasm	protein binding			lung(1)|skin(1)	2	all_cancers(13;1.21e-21)|Lung NSC(37;0.000134)|Ovarian(258;0.0172)					AGCAGGTAAAGAAAACAGTTT	0.348													19	83					0	0	1	0	0		A	117866524	A	A	117866524	3	1	16	1	0	0	0	0	1	0	0	0	13006	942	33	4	798	4	RAD21	8	117866524	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1249414	117866524	28497498	604	12279											
C8orf85	441376	broad.mit.edu	37	chr8	117950593	117950593	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtcccgcgtgcgacttcttCggggacggcaggagcacgga	6	6	16	13	7	1	0	0	0	1	0	3	4	2	3	1	5	2	2	1	5	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:117950593C>T	uc003yof.2	+	1	130	c.111C>T	c.(109-111)TTC>TTT	p.F37F		NM_001025357	NP_001020528	Q4LEZ3	AARD_HUMAN	alanine and arginine-rich domain-containing	37											0						GCGACTTCTTCGGGGACGGCA	0.687													4	19					0	0	1	0	0		T	117950593	T	T	117950593	2	4	16	1	0	0	0	0	0	0	0	1	2444	883	31	1		1	C8orf85	8	117950593	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	84069	117950593	28413429	605	12280											
ENPP2	5168	broad.mit.edu	37	chr8	120583061	120583061	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgataaagcactgcaggtcGcccatagaggaggtgtctct	10	8	12	11	2	1	1	0	0	1	1	3	3	1	2	2	3	2	2	2	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:120583061G>A	uc003yot.1	-	20	1887	c.1801C>T	c.(1801-1803)CGA>TGA	p.R601*	ENPP2_uc011lic.1_Nonsense_Mutation_p.R139*|ENPP2_uc003yor.1_Nonsense_Mutation_p.R236*|ENPP2_uc003yos.1_Nonsense_Mutation_p.R653*|ENPP2_uc010mdd.1_Nonsense_Mutation_p.R626*	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	601					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			ACTGCAGGTCGCCCATAGAGG	0.338													13	74					0	0	1	0	0		A	120583061	A	A	120583061	4	1	16	1	0	0	0	0	0	1	0	0	5138	1095	38	1	814	1	ENPP2	8	120583061	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2632468	120583061	25780961	606	12281											
TAF2	6873	broad.mit.edu	37	chr8	120754889	120754889	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagctagctggccgatatttCgagagccctaaaatgccaaa	13	8	10	10	2	0	1	0	0	0	1	1	4	0	1	3	1	4	2	3	1	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:120754889C>T	uc003you.2	-	25	3492	c.3222G>A	c.(3220-3222)TCG>TCA	p.S1074S		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	1074					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GCCGATATTTCGAGAGCCCTA	0.438													8	58					0	0	1	0	0		T	120754889	T	T	120754889	2	4	16	1	0	0	0	0	0	0	0	1	15549	871	31	1		1	TAF2	8	120754889	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	171828	120754889	25609133	607	12282											
DSCC1	79075	broad.mit.edu	37	chr8	120865444	120865444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctcgtctttatcaccaCgaatcacaagactgtagcaa	12	11	6	12	2	3	1	2	0	1	1	4	2	3	1	1	0	2	3	1	0	5	4	rs143137070		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:120865444C>T	uc003yov.2	-	2	329	c.194G>A	c.(193-195)CGT>CAT	p.R65H		NM_024094	NP_076999	Q9BVC3	DCC1_HUMAN	defective in sister chromatid cohesion 1	65					DNA replication|maintenance of mitotic sister chromatid cohesion|post-translational protein acetylation|regulation of DNA replication	chromatin|chromosome, centromeric region|nucleoplasm	DNA binding|protein binding			pancreas(1)	1	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TTTATCACCACGAATCACAAG	0.393													28	117					0	0	1	0	0		T	120865444	T	T	120865444	3	4	16	1	0	0	0	0	1	0	0	0	4776	536	19	1	1019	1	DSCC1	8	120865444	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	110555	120865444	25498578	608	12283											
ATAD2	29028	broad.mit.edu	37	chr8	124335285	124335285	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgtagttttgacttttttTaacaacagtcttcaaaagat	12	18	6	5	0	2	2	1	1	1	1	2	2	2	2	0	0	2	3	0	0	5	9	rs147415119		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:124335285T>A	uc003yqh.3	-	27	4132	c.4024A>T	c.(4024-4026)AAA>TAA	p.K1342*	ATAD2_uc011lii.1_Nonsense_Mutation_p.K1133*|ATAD2_uc003yqi.3_RNA	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	1342					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TGACTTTTTTTAACAACAGTC	0.328													9	46					0	0	1	0	0		A	124335285	A	A	124335285	4	1	16	1	0	0	0	0	0	1	0	0	1072	1763	61	5	156	5	ATAD2	8	124335285	Nonsense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	3469841	124335285	22028737	609	12284											
ANXA13	312	broad.mit.edu	37	chr8	124707927	124707927	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagaatgaaaagtcacttaCgcctttggtaggcctcttta	11	12	8	10	1	2	2	1	1	1	1	2	2	2	2	3	2	1	1	3	2	6	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:124707927C>T	uc003yqu.2	-	5	464	c.391_splice	c.e5+1	p.L131_splice	ANXA13_uc003yqt.2_Splice_Site_p.L172_splice	NM_004306	NP_004297	P27216	ANX13_HUMAN	annexin A13 isoform a						cell differentiation	plasma membrane	calcium ion binding|calcium-dependent phospholipid binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(37;2.06e-11)|Ovarian(258;0.00579)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00288)			AAGTCACTTACGCCTTTGGTA	0.363													46	228					0	0	1	0	0		T	124707927	T	T	124707927	5	4	16	1	0	0	0	0	0	0	1	0	717	550	19	1	586	1	ANXA13	8	124707927	Splice_Site	SNP	C	TCGA-BR-4292-01A-01D-1126-08	372642	124707927	21656095	610	12285											
FER1L6	654463	broad.mit.edu	37	chr8	125131185	125131185	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagcccctggccaagcccaAgtgagtggagttgctagtgg	9	7	15	10	0	0	2	0	1	0	1	0	3	0	3	4	3	3	2	4	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:125131185A>T	uc003yqw.2	+	40	5596	c.5390A>T	c.(5389-5391)AAC>ATC	p.N1797I	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1797	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			GCCAAGCCCAAGTGAGTGGAG	0.517													14	42					0	0	1	0	0		T	125131185	T	T	125131185	3	4	16	1	0	0	0	0	1	0	0	0	5829	86	3	5	5544	5	FER1L6	8	125131185	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	423258	125131185	21232837	611	12286											
KIAA0196	9897	broad.mit.edu	37	chr8	126079934	126079934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatctggtccttgatttgaCgaaggcgtttgttgtttggg	6	16	14	5	2	1	2	0	2	1	0	2	4	2	2	1	3	0	3	1	3	2	5	rs151298198	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:126079934C>T	uc003yrt.2	-	10	1507	c.1178G>A	c.(1177-1179)CGT>CAT	p.R393H	KIAA0196_uc011lir.1_Missense_Mutation_p.R245H|KIAA0196_uc003yru.1_5'UTR	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	393					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			CTTGATTTGACGAAGGCGTTT	0.373													20	140					0	0	1	0	0		T	126079934	T	T	126079934	3	4	16	1	0	0	0	0	1	0	0	0	8177	536	19	1	2381	1	KIAA0196	8	126079934	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	948749	126079934	20284088	612	12287											
ADCY8	114	broad.mit.edu	37	chr8	131797706	131797706	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttttcaatgtcttgaaatcGgtcttcaccaagcaactgaa	12	13	6	10	1	4	2	2	2	2	0	5	2	4	2	1	1	2	1	1	1	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:131797706G>A	uc003ytd.3	-	16	3332	c.3076C>T	c.(3076-3078)CGA>TGA	p.R1026*	ADCY8_uc010mds.2_Nonsense_Mutation_p.R895*	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1026	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TCTTGAAATCGGTCTTCACCA	0.502										HNSCC(32;0.087)			16	74					0	0	1	0	0		A	131797706	A	A	131797706	4	1	16	1	0	0	0	0	0	1	0	0	300	1124	39	1	691	1	ADCY8	8	131797706	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	5717772	131797706	14566316	613	12288											
ADCY8	114	broad.mit.edu	37	chr8	131848567	131848567	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taacgcagaaagaggcctgcGtagacggtctcagtgagcag	12	6	14	9	3	1	4	1	1	1	3	2	4	1	4	1	2	3	3	1	2	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:131848567G>A	uc003ytd.3	-	12	2887	c.2631C>T	c.(2629-2631)TAC>TAT	p.Y877Y	ADCY8_uc010mds.2_Silent_p.Y746Y	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	877	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			AGAGGCCTGCGTAGACGGTCT	0.542										HNSCC(32;0.087)			26	84					0	0	1	0	0		A	131848567	A	A	131848567	2	1	16	1	0	0	0	0	0	0	0	1	300	1140	40	1		1	ADCY8	8	131848567	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	50861	131848567	14515455	614	12289											
EFR3A	23167	broad.mit.edu	37	chr8	133008660	133008660	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttattttagatgaagaTcgactttctagaagaaaaag	17	14	7	3	1	1	5	0	1	1	4	2	6	1	5	0	0	0	0	0	0	8	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:133008660T>G	uc003yte.2	+	19	2274	c.2073T>G	c.(2071-2073)GAT>GAG	p.D691E		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	691						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			TAGATGAAGATCGACTTTCTA	0.308													5	41					0	0	1	0	0		G	133008660	G	G	133008660	3	3	16	1	0	0	0	0	1	0	0	0	4964	1432	50	5	2147	5	EFR3A	8	133008660	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1160093	133008660	13355362	615	12290											
TG	7038	broad.mit.edu	37	chr8	133894824	133894824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactgcagagacggttcctcGcagttcaatcagtcatctct	9	12	8	12	2	4	1	3	0	1	1	7	2	5	1	1	1	2	4	1	1	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:133894824G>A	uc003ytw.2	+	7	897	c.856G>A	c.(856-858)GCA>ACA	p.A286T		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	286	Thyroglobulin type-1 3.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		ACGGTTCCTCGCAGTTCAATC	0.473													8	138					0	0	1	0	0		A	133894824	A	A	133894824	3	1	16	1	0	0	0	0	1	0	0	0	15838	1087	38	1	882	1	TG	8	133894824	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	886164	133894824	12469198	616	12291											
WISP1	8840	broad.mit.edu	37	chr8	134237661	134237661	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaggtggaggcatggcaCaggaactgcatagcctacac	11	6	15	9	0	0	1	0	1	0	0	0	3	0	3	1	6	4	3	1	6	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:134237661C>T	uc003yub.2	+	4	715	c.639C>T	c.(637-639)CAC>CAT	p.H213H	WISP1_uc003yuc.2_Silent_p.H126H|WISP1_uc010meb.2_Silent_p.H41H|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	213					cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			AGGCATGGCACAGGAACTGCA	0.592													27	117					0	0	1	0	0		T	134237661	T	T	134237661	2	4	16	1	0	0	0	0	0	0	0	1	17398	477	17	4		4	WISP1	8	134237661	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	342837	134237661	12126361	617	12292											
COL22A1	169044	broad.mit.edu	37	chr8	139820047	139820047	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatggggccagcaactccCatttcaccctaaaagaagaa	14	6	7	14	0	1	2	1	0	0	2	2	2	2	2	4	2	2	1	4	2	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:139820047C>A	uc003yvd.2	-	10	1905	c.1458G>T	c.(1456-1458)ATG>ATT	p.M486I		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	486	Collagen-like 1.|Pro-rich.|Gly-rich.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			CAGCAACTCCCATTTCACCCT	0.448										HNSCC(7;0.00092)			37	141					1.8453e-21	2.01427e-21	1	1	0		A	139820047	A	A	139820047	3	1	16	1	0	0	0	0	1	0	0	0	3684	594	21	5	3646	5	COL22A1	8	139820047	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5582386	139820047	6543975	618	12293											
COL22A1	169044	broad.mit.edu	37	chr8	139890011	139890011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actttcacaaagacggcgccGcagcttgccccggatcttgt	8	9	10	14	4	2	1	1	0	1	1	2	2	2	2	3	2	2	2	3	2	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:139890011G>A	uc003yvd.2	-	3	1087	c.640C>T	c.(640-642)CGG>TGG	p.R214W		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	214					cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			AGACGGCGCCGCAGCTTGCCC	0.652										HNSCC(7;0.00092)			8	31					0	0	1	0	0		A	139890011	A	A	139890011	3	1	16	1	0	0	0	0	1	0	0	0	3684	1086	38	1	4492	1	COL22A1	8	139890011	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	69964	139890011	6474011	619	12294											
PTK2	5747	broad.mit.edu	37	chr8	141753359	141753359	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtactatcttccatatatcGggataatccaaagtctccta	13	13	5	10	1	2	0	0	0	2	0	6	1	4	1	3	1	1	1	3	1	7	7	rs139298046		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:141753359G>A	uc003yvu.2	-	20	1935	c.1705C>T	c.(1705-1707)CGA>TGA	p.R569*	PTK2_uc003yvo.2_Nonsense_Mutation_p.R197*|PTK2_uc011ljq.1_Nonsense_Mutation_p.R264*|PTK2_uc003yvp.2_Nonsense_Mutation_p.R237*|PTK2_uc003yvq.2_Nonsense_Mutation_p.R95*|PTK2_uc003yvr.2_Nonsense_Mutation_p.R509*|PTK2_uc003yvs.2_Nonsense_Mutation_p.R569*|PTK2_uc003yvt.2_Nonsense_Mutation_p.R591*|PTK2_uc003yvv.2_Nonsense_Mutation_p.R469*|PTK2_uc011ljr.1_Nonsense_Mutation_p.R569*	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	569	Protein kinase.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			TCCATATATCGGGATAATCCA	0.348													27	106					0	0	1	0	0		A	141753359	A	A	141753359	4	1	16	1	0	0	0	0	0	1	0	0	12785	1124	39	1	1505	1	PTK2	8	141753359	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1863348	141753359	4610663	620	12295											
DENND3	22898	broad.mit.edu	37	chr8	142176464	142176464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctccggctgacggacaccGcaggctgtaggggcagcagc	7	4	16	14	4	0	1	0	1	0	0	1	2	1	2	2	5	2	7	2	5	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:142176464G>A	uc003yvy.2	+	12	1767	c.1489G>A	c.(1489-1491)GCA>ACA	p.A497T	DENND3_uc010mep.2_Missense_Mutation_p.A458T|DENND3_uc003yvz.1_Missense_Mutation_p.A181T	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	497										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			GACGGACACCGCAGGCTGTAG	0.632													14	58					0	0	1	0	0		A	142176464	A	A	142176464	3	1	16	1	0	0	0	0	1	0	0	0	4438	1087	38	1	1531	1	DENND3	8	142176464	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	423105	142176464	4187558	621	12296											
DENND3	22898	broad.mit.edu	37	chr8	142178455	142178455	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctgatgaggctcatcagCgagatcctggacaagccgca	11	6	13	11	2	2	3	2	2	0	1	3	6	3	4	2	2	3	3	2	2	1	0	rs147231668		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:142178455C>T	uc003yvy.2	+	13	2144	c.1866C>T	c.(1864-1866)AGC>AGT	p.S622S	DENND3_uc010mep.2_Silent_p.S583S|DENND3_uc003yvz.1_Silent_p.S306S	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	622										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			GGCTCATCAGCGAGATCCTGG	0.592													17	52					0	0	1	0	0		T	142178455	T	T	142178455	2	4	16	1	0	0	0	0	0	0	0	1	4438	767	27	1		1	DENND3	8	142178455	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1991	142178455	4185567	622	12297											
FLJ43860	389690	broad.mit.edu	37	chr8	142517187	142517187	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacctggagttttgggacacGgctgacgacactctacccgt	8	9	12	12	3	1	1	0	1	1	0	1	5	1	3	2	3	1	2	2	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:142517187G>A	uc003ywi.2	-	1	144	c.63C>T	c.(61-63)GCC>GCT	p.A21A		NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	21							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			TTTGGGACACGGCTGACGACA	0.632													5	47					0	0	1	0	0		A	142517187	A	A	142517187	2	1	16	1	0	0	0	0	0	0	0	1	5944	1103	39	1		1	FLJ43860	8	142517187	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	338732	142517187	3846835	623	12298											
GPIHBP1	338328	broad.mit.edu	37	chr8	144295734	144295734	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaggaagaggaagaggaCgaggaccacgggccagatga	15	1	18	7	2	0	4	0	1	0	3	0	10	0	9	2	6	0	0	2	6	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:144295734C>A	uc003yxu.1	+	2	165	c.90C>A	c.(88-90)GAC>GAA	p.D30E		NM_178172	NP_835466	Q8IV16	HDBP1_HUMAN	glycosylphosphatidylinositol anchored high	30	Poly-Glu.				cholesterol homeostasis|intracellular protein transport|positive regulation of chylomicron remnant clearance|positive regulation of lipoprotein lipase activity|protein import|protein localization at cell surface|protein stabilization|response to heparin|triglyceride homeostasis	anchored to external side of plasma membrane|apical plasma membrane|basolateral plasma membrane|high-density lipoprotein particle|integral to membrane|intracellular	apolipoprotein binding|chylomicron binding|lipase binding|lipid binding|protein transmembrane transporter activity				0	all_cancers(97;6.49e-11)|all_epithelial(106;2.77e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					aggaagaggacgaggaccacg	0.378													9	22					1.11149e-13	1.18669e-13	1	1	0		A	144295734	A	A	144295734	3	1	16	1	0	0	0	0	1	0	0	0	6627	535	19	5	96	5	GPIHBP1	8	144295734	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1778547	144295734	2068288	624	12299											
ZNF696	79943	broad.mit.edu	37	chr8	144375210	144375210	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccacaggtgctaaagagagCagtaccctgatggagtccct	11	7	11	12	0	0	2	0	1	0	1	1	4	1	3	3	2	3	3	3	2	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:144375210C>T	uc003yxy.3	+	2	448	c.39C>T	c.(37-39)AGC>AGT	p.S13S		NM_030895	NP_112157	Q9H7X3	ZN696_HUMAN	zinc finger protein 696	13					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			CTAAAGAGAGCAGTACCCTGA	0.493													8	42					0	0	1	0	0		T	144375210	T	T	144375210	2	4	16	1	0	0	0	0	0	0	0	1	18124	709	25	2		2	ZNF696	8	144375210	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	79476	144375210	1988812	625	12300											
NRBP2	340371	broad.mit.edu	37	chr8	144919209	144919209	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcaggagaggggactcAcctttctggtctcagagtca	10	8	13	10	0	4	2	3	0	2	2	5	4	4	3	1	4	2	2	1	4	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:144919209A>G	uc011lkt.1	-	14	1403	c.1263_splice	c.e14+1	p.K421_splice	NRBP2_uc003yzv.2_Splice_Site_p.K178_splice|NRBP2_uc003yzz.1_Intron|NRBP2_uc003yzw.2_Splice_Site_p.K213_splice|NRBP2_uc010mfl.2_Splice_Site_p.K213_splice|NRBP2_uc010mfm.2_Splice_Site_p.K178_splice|NRBP2_uc011lks.1_Splice_Site_p.K178_splice|NRBP2_uc003yzy.2_Splice_Site_p.K178_splice	NM_178564	NP_848659	Q9NSY0	NRBP2_HUMAN	nuclear receptor binding protein 2						negative regulation of neuron apoptosis|neuron differentiation	cytoplasm	ATP binding|protein kinase activity			central_nervous_system(2)	2	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			GAGGGGACTCACCTTTCTGGT	0.637													4	135					0	0	1	0	0		G	144919209	G	G	144919209	5	3	16	1	0	0	0	0	0	0	1	0	10662	173	6	3	260	3	NRBP2	8	144919209	Splice_Site	SNP	A	TCGA-BR-4292-01A-01D-1126-08	543999	144919209	1444813	626	12301											
EPPK1	83481	broad.mit.edu	37	chr8	144941617	144941617	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaggaggaacccggtggcGgcctgcgcctccagcagcca	7	4	14	16	3	0	0	0	0	0	0	2	2	2	2	6	5	4	1	6	5	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:144941617G>A	uc003zaa.1	-	1	5818	c.5805C>T	c.(5803-5805)GCC>GCT	p.A1935A		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1935	Plectin 32.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ACCCGGTGGCGGCCTGCGCCT	0.657													4	12					0	0	1	0	0		A	144941617	A	A	144941617	2	1	16	1	0	0	0	0	0	0	0	1	5198	1103	39	1		1	EPPK1	8	144941617	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	22408	144941617	1422405	627	12302											
PLEC	5339	broad.mit.edu	37	chr8	144998442	144998442	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgatgtcagccttgtgttgCgcggcctgctcctccagccg	3	11	12	15	4	1	0	1	0	0	0	4	1	3	0	5	1	4	2	5	1	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:144998442C>T	uc003zaf.1	-	31	6236	c.6066G>A	c.(6064-6066)GCG>GCA	p.A2022A	PLEC_uc003zab.1_Silent_p.A1885A|PLEC_uc003zac.1_Silent_p.A1889A|PLEC_uc003zad.2_Silent_p.A1885A|PLEC_uc003zae.1_Silent_p.A1853A|PLEC_uc003zag.1_Silent_p.A1863A|PLEC_uc003zah.2_Silent_p.A1871A|PLEC_uc003zaj.2_Silent_p.A1912A	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2022	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CCTTGTGTTGCGCGGCCTGCT	0.706													7	9					0	0	1	0	0		T	144998442	T	T	144998442	2	4	16	1	0	0	0	0	0	0	0	1	12071	755	27	1		1	PLEC	8	144998442	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	56825	144998442	1365580	628	12303											
GPR172A	79581	broad.mit.edu	37	chr8	145583577	145583577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgagccacctgccacctcGcttcttacggtcattcttcc	5	13	6	17	2	3	1	1	1	2	0	5	1	4	1	5	1	3	1	5	1	1	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:145583577G>A	uc003zcc.1	+	3	582	c.425G>A	c.(424-426)CGC>CAC	p.R142H	FBXL6_uc003zbz.2_5'Flank|FBXL6_uc003zca.2_5'Flank|FBXL6_uc003zcb.2_5'Flank|FBXL6_uc010mfx.2_5'Flank|GPR172A_uc003zcd.1_Missense_Mutation_p.R142H|GPR172A_uc003zce.1_Missense_Mutation_p.R142H|GPR172A_uc010mfy.1_Missense_Mutation_p.R142H|GPR172A_uc003zcf.1_Missense_Mutation_p.R142H|GPR172A_uc011llc.1_Missense_Mutation_p.R54H	NM_024531	NP_078807	Q9HAB3	RFT3_HUMAN	G protein-coupled receptor 172A precursor	142						integral to plasma membrane	receptor activity|riboflavin transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			CTGCCACCTCGCTTCTTACGG	0.617													42	161					0	0	1	0	0		A	145583577	A	A	145583577	3	1	16	1	0	0	0	0	1	0	0	0	6684	1087	38	1	431	1	GPR172A	8	145583577	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	585135	145583577	780445	629	12304											
CPSF1	29894	broad.mit.edu	37	chr8	145621823	145621823	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctggcctacccctgagtagCcataaatatcctcgaagtag	11	9	9	12	1	0	1	0	1	0	0	2	2	1	1	5	1	2	3	5	1	7	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:145621823C>A	uc003zcj.2	-	25	2891	c.2816G>T	c.(2815-2817)GGC>GTC	p.G939V		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	939					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			CCCTGAGTAGCCATAAATATC	0.632													5	53					4.096e-09	4.2929e-09	1	1	0		A	145621823	A	A	145621823	3	1	16	1	0	0	0	0	1	0	0	0	3827	739	26	5	1571	5	CPSF1	8	145621823	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	38246	145621823	742199	630	12305											
ZNF34	80778	broad.mit.edu	37	chr8	145999196	145999196	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgagtccgacgatgtcGgataaggattgagccatcac	10	9	14	8	3	1	2	1	2	0	0	3	6	2	4	2	3	1	0	2	3	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr8:145999196G>A	uc003zdy.3	-	6	1240	c.1138C>T	c.(1138-1140)CGA>TGA	p.R380*	ZNF34_uc010mgb.2_Nonsense_Mutation_p.R277*|ZNF34_uc003zdx.3_Nonsense_Mutation_p.R359*	NM_030580	NP_085057	Q8IZ26	ZNF34_HUMAN	zinc finger protein 34	380	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.221)	OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;5.18e-38)|all cancers(56;4.41e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.0179)		CGACGATGTCGGATAAGGATT	0.453													20	79					0	0	1	0	0		A	145999196	A	A	145999196	4	1	16	1	0	0	0	0	0	1	0	0	17881	1124	39	1	548	1	ZNF34	8	145999196	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	377373	145999196	364826	631	12306											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													6	63					0	0	1	0	0		G	164038	G	G	164038	5	3	16	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-4292-01A-01D-1126-08		164038	141049393	632	12307											
C9orf66	157983	broad.mit.edu	37	chr9	214857	214857	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaatgcggaagtttccagCgccgaccgacagacgaggtt	11	6	14	10	5	0	1	0	0	0	1	1	6	1	3	3	3	2	2	3	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:214857C>T	uc003zge.3	-	1	1037	c.540G>A	c.(538-540)GCG>GCA	p.A180A	DOCK8_uc011lls.1_5'Flank|DOCK8_uc003zgf.2_5'Flank	NM_152569	NP_689782	Q5T8R8	CI066_HUMAN	hypothetical protein LOC157983	180										central_nervous_system(1)	1	all_lung(41;0.218)	all_cancers(5;2.09e-12)|all_epithelial(5;6.16e-09)|all_lung(10;1.15e-08)|Lung NSC(10;1.91e-08)|Acute lymphoblastic leukemia(5;0.00457)|all_hematologic(5;0.0332)|Breast(48;0.0646)|Prostate(43;0.137)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		AAGTTTCCAGCGCCGACCGAC	0.701													6	23					0	0	1	0	0		T	214857	T	T	214857	2	4	16	1	0	0	0	0	0	0	0	1	2493	755	27	1		1	C9orf66	9	214857	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	50819	214857	140998574	633	12308											
SMARCA2	6595	broad.mit.edu	37	chr9	2054701	2054701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtggaactaaaagcacttcGgttactcaatttccagcgtc	11	11	8	11	3	1	0	1	0	0	0	4	1	2	1	1	2	4	2	1	2	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:2054701G>A	uc003zhc.2	+	6	1250	c.1151G>A	c.(1150-1152)CGG>CAG	p.R384Q	SMARCA2_uc003zhd.2_Missense_Mutation_p.R384Q|SMARCA2_uc010mha.2_Missense_Mutation_p.R375Q	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	384					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		AAAGCACTTCGGTTACTCAAT	0.418													27	91					0	0	1	0	0		A	2054701	A	A	2054701	3	1	16	1	0	0	0	0	1	0	0	0	14794	1116	39	1	1169	1	SMARCA2	9	2054701	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1839844	2054701	139158730	634	12309											
SMARCA2	6595	broad.mit.edu	37	chr9	2123835	2123835	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatgacgctgaagtagaaagGctcacctgtgaagaagagga	15	6	14	6	1	1	6	1	3	0	3	1	8	1	7	1	2	0	3	1	2	5	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:2123835G>T	uc003zhc.2	+	27	3978	c.3879G>T	c.(3877-3879)AGG>AGT	p.R1293S	SMARCA2_uc003zhd.2_Missense_Mutation_p.R1293S|SMARCA2_uc010mha.2_Missense_Mutation_p.R1226S	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1293					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		AAGTAGAAAGGCTCACCTGTG	0.572													4	13					0.00909568	0.00917877	1	1	0		T	2123835	T	T	2123835	3	4	16	1	0	0	0	0	1	0	0	0	14794	1194	42	5	3981	5	SMARCA2	9	2123835	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	69134	2123835	139089596	635	12310											
KLHL9	55958	broad.mit.edu	37	chr9	21334793	21334793	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtaaaaaagcgtgtggtTcctgccttacaaggctgcaa	11	10	11	9	1	0	0	0	0	0	0	1	0	1	0	2	3	4	4	2	3	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:21334793T>C	uc003zoy.2	-	1	637	c.66A>G	c.(64-66)GGA>GGG	p.G22G	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	22					cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		AGCGTGTGGTTCCTGCCTTAC	0.483													24	60					0	0	1	0	0		C	21334793	C	C	21334793	2	2	16	1	0	0	0	0	0	0	0	1	8412	1770	62	3		3	KLHL9	9	21334793	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	19210958	21334793	119878638	636	12311											
TEK	7010	broad.mit.edu	37	chr9	27206739	27206739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccaagttcttaaggcgCgcatcaagaaggatgggtta	11	10	13	7	2	2	1	1	0	1	1	2	2	2	2	1	4	0	3	1	4	5	4	rs147231791	by1000genomes	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:27206739C>T	uc003zqi.3	+	15	2966	c.2524C>T	c.(2524-2526)CGC>TGC	p.R842C	TEK_uc011lno.1_Missense_Mutation_p.R799C|TEK_uc011lnp.1_Missense_Mutation_p.R694C|TEK_uc003zqj.1_Missense_Mutation_p.R776C	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	842	Protein kinase.|Cytoplasmic (Potential).				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		TCTTAAGGCGCGCATCAAGAA	0.453													19	43					0	0	1	0	0		T	27206739	T	T	27206739	3	4	16	1	0	0	0	0	1	0	0	0	15776	768	27	1	2582	1	TEK	9	27206739	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5871946	27206739	114006692	637	12312											
KIAA1161	57462	broad.mit.edu	37	chr9	34371530	34371530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtaggtgctgaagtcccgcGgcaggtagctgacctcgccc	6	7	15	13	3	0	2	0	2	0	0	2	2	1	2	3	4	2	5	3	4	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:34371530G>A	uc003zue.3	-	3	1579	c.1412C>T	c.(1411-1413)CCG>CTG	p.P471L		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	471	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		GAAGTCCCGCGGCAGGTAGCT	0.692													5	8					0	0	1	0	0		A	34371530	A	A	34371530	3	1	16	1	0	0	0	0	1	0	0	0	8227	1116	39	1	736	1	KIAA1161	9	34371530	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	7164791	34371530	106841901	638	12313											
SPAG8	26206	broad.mit.edu	37	chr9	35812118	35812118	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgcgaccgcgaccgcgaTccctccgtagactcgttggt	6	7	11	17	8	0	1	0	0	0	1	3	4	2	1	5	1	0	2	5	1	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:35812118T>C	uc003zye.2	-	1	142	c.27A>G	c.(25-27)GGA>GGG	p.G9G	SPAG8_uc003zyf.2_5'UTR|SPAG8_uc003zyg.2_Silent_p.G9G	NM_172312	NP_758516	Q99932	SPAG8_HUMAN	sperm associated antigen 8 isoform 2	9						acrosomal vesicle|membrane				ovary(1)	1	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			GCGACCGCGATCCCTCCGTAG	0.592													14	46					0	0	1	0	0		C	35812118	C	C	35812118	2	2	16	1	0	0	0	0	0	0	0	1	15009	1422	50	3		3	SPAG8	9	35812118	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1440588	35812118	105401313	639	12314											
C9orf128	392307	broad.mit.edu	37	chr9	35825359	35825359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctagcagggaacactgggcGggctgtgttacctaggatgg	8	8	16	9	1	0	0	0	0	0	0	0	2	0	2	2	5	3	3	2	5	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:35825359G>A	uc010mlc.2	-	3	895	c.610C>T	c.(610-612)CGC>TGC	p.R204C	C9orf128_uc003zyj.2_RNA|C9orf128_uc011lpg.1_Missense_Mutation_p.R204C	NM_001012446	NP_001012448	A6H8Z2	CI128_HUMAN	hypothetical protein LOC392307	204											0	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			AACACTGGGCGGGCTGTGTTA	0.527													29	87					0	0	1	0	0		A	35825359	A	A	35825359	3	1	16	1	0	0	0	0	1	0	0	0	2458	1116	39	1	618	1	C9orf128	9	35825359	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	13241	35825359	105388072	640	12315											
CCIN	881	broad.mit.edu	37	chr9	36171031	36171031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtcttgcccaacagctGccccttggatgtgtcccatg	5	11	10	15	0	1	0	0	0	1	0	2	1	2	1	5	1	4	1	5	1	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:36171031G>A	uc003zzb.3	+	1	1643	c.1532G>A	c.(1531-1533)TGC>TAC	p.C511Y		NM_005893	NP_005884	Q13939	CALI_HUMAN	calicin	511	Kelch 5.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			ovary(1)|skin(1)	2			STAD - Stomach adenocarcinoma(86;0.228)			CCCAACAGCTGCCCCTTGGAT	0.547													27	81					0	0	1	0	0		A	36171031	A	A	36171031	3	1	16	1	0	0	0	0	1	0	0	0	2881	1319	46	2	1534	2	CCIN	9	36171031	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	345672	36171031	105042400	641	12316											
ZCCHC7	84186	broad.mit.edu	37	chr9	37126308	37126308	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacaactttctcttttgcaGcttcaaggttactgactttt	8	18	6	9	0	2	1	1	1	1	0	3	1	2	1	0	1	5	4	0	1	4	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:37126308G>T	uc003zzq.2	+	2	153	c.-20_splice	c.e2-1		ZCCHC7_uc011lqh.1_Intron|ZCCHC7_uc011lqi.1_Splice_Site|ZCCHC7_uc010mlt.2_Splice_Site|ZCCHC7_uc003zzs.1_Splice_Site	NM_032226	NP_115602	Q8N3Z6	ZCHC7_HUMAN	zinc finger, CCHC domain containing 7								nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.0137)		CTCTTTTGCAGCTTCAAGGTT	0.363													26	128					3.1745e-13	3.38273e-13	1	1	0		T	37126308	T	T	37126308	5	4	16	1	0	0	0	0	0	0	1	0	17618	985	34	5		5	ZCCHC7	9	37126308	Splice_Site	SNP	G	TCGA-BR-4292-01A-01D-1126-08	955277	37126308	104087123	642	12317											
FRMPD1	22844	broad.mit.edu	37	chr9	37745690	37745690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagacagtttcaccagccGtccctccagaggggatcaag	11	6	11	13	1	2	2	2	0	0	2	4	3	4	3	4	2	2	2	4	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:37745690G>A	uc004aag.1	+	16	3705	c.3661G>A	c.(3661-3663)GTC>ATC	p.V1221I	FRMPD1_uc004aah.1_Missense_Mutation_p.V1221I	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1221						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		TTCACCAGCCGTCCCTCCAGA	0.527													24	102					0	0	1	0	0		A	37745690	A	A	37745690	3	1	16	1	0	0	0	0	1	0	0	0	6071	1145	40	1	3719	1	FRMPD1	9	37745690	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	619382	37745690	103467741	643	12318											
MCART1	92014	broad.mit.edu	37	chr9	37879071	37879071	+	RNA	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttctgatcttaatcaccGtgaaaaaaatcaaggcctgt	14	12	6	9	1	4	2	2	2	2	0	4	2	4	2	2	1	1	0	2	1	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:37879071G>A	uc004aar.1	-	4		c.2197C>T			MCART1_uc004aaq.1_RNA	NR_024873		Q9H1U9	MCAR1_HUMAN	Homo sapiens cDNA FLJ34088 fis, clone FCBBF3005698.						transport	integral to membrane|mitochondrial inner membrane				ovary(2)|breast(1)	3				GBM - Glioblastoma multiforme(29;0.00559)|Lung(182;0.0422)		CTTAATCACCGTGAAAAAAAT	0.388													3	6					0	0	1	0	0		A	37879071	A	A	37879071	1	1	16	0	1	0	0	0	0	0	0	0	9387	1160	40	1		1	MCART1	9	37879071	RNA	SNP	G	TCGA-BR-4292-01A-01D-1126-08	133381	37879071	103334360	644	12319											
PGM5	5239	broad.mit.edu	37	chr9	70993121	70993121	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggatggtttagattggaCgactgattattggacagaat	11	15	12	3	1	0	3	0	1	0	2	0	7	0	6	0	4	0	1	0	4	3	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:70993121C>T	uc004agr.2	+	2	497	c.268C>T	c.(268-270)CGA>TGA	p.R90*		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	90					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						TTAGATTGGACGACTGATTAT	0.443													7	128					0	0	1	0	0		T	70993121	T	T	70993121	4	4	16	1	0	0	0	0	0	1	0	0	11820	528	19	1	274	1	PGM5	9	70993121	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	33114050	70993121	70220310	645	12320											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													5	115					0	0	1	0	0		G	70993145	G	G	70993145	3	3	16	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	24	70993145	70220286	646	12321											
C9orf41	138199	broad.mit.edu	37	chr9	77598694	77598694	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgagaccattattgtggctTacggaccacaaacaagacac	14	9	8	10	1	0	2	0	1	0	2	0	4	0	3	2	2	2	1	2	2	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:77598694T>C	uc004ajq.2	-	8	1372	c.1219A>G	c.(1219-1221)AAG>GAG	p.K407E	uc004ajp.2_Intron	NM_152420	NP_689633	Q8N4J0	CI041_HUMAN	hypothetical protein LOC138199	407										ovary(1)|skin(1)	2						TATTGTGGCTTACGGACCACA	0.363													11	39					0	0	1	0	0		C	77598694	C	C	77598694	3	2	16	1	0	0	0	0	1	0	0	0	2485	1763	61	3	14	3	C9orf41	9	77598694	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	6605549	77598694	63614737	647	12322											
PCSK5	5125	broad.mit.edu	37	chr9	78710821	78710821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacaggggcggagaggcctcGgctctgtgtttgtttgggca	6	10	17	8	2	1	1	0	0	1	1	2	2	1	1	1	6	1	4	1	6	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:78710821G>A	uc004ajz.2	+	8	1448	c.910G>A	c.(910-912)GGC>AGC	p.G304S	PCSK5_uc004ajy.2_Missense_Mutation_p.G304S|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	304	Catalytic.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						GAGAGGCCTCGGCTCTGTGTT	0.493													25	79					0	0	1	0	0		A	78710821	A	A	78710821	3	1	16	1	0	0	0	0	1	0	0	0	11622	1116	39	1	940	1	PCSK5	9	78710821	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1112127	78710821	62502610	648	12323											
FLJ46321	389763	broad.mit.edu	37	chr9	84608469	84608469	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccacatcccttagaagaggTactacagattttcaaagcga	14	10	7	10	1	1	3	1	0	0	3	3	4	3	3	2	1	3	1	2	1	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:84608469T>C	uc004amn.2	+	4	3131	c.3084T>C	c.(3082-3084)GGT>GGC	p.G1028G		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1028						integral to membrane					0						TTAGAAGAGGTACTACAGATT	0.448													6	346					0	0	1	0	0		C	84608469	C	C	84608469	2	2	16	1	0	0	0	0	0	0	0	1	5946	1625	57	3		3	FLJ46321	9	84608469	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	5897648	84608469	56604962	649	12324											
FLJ46321	389763	broad.mit.edu	37	chr9	84609582	84609582	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagctgcctttactgggacTactgaagctcagaaaattag	13	10	10	8	0	1	3	1	1	0	2	1	4	1	4	1	1	5	2	1	1	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:84609582T>G	uc004amn.2	+	4	4244	c.4197T>G	c.(4195-4197)ACT>ACG	p.T1399T		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1399						integral to membrane					0						TTACTGGGACTACTGAAGCTC	0.453													13	45					0	0	1	0	0		G	84609582	G	G	84609582	2	3	16	1	0	0	0	0	0	0	0	1	5946	1509	53	5		5	FLJ46321	9	84609582	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1113	84609582	56603849	650	12325											
AGTPBP1	23287	broad.mit.edu	37	chr9	88248234	88248234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggaacaacaataggaccaCgtacttttccctcaaataca	16	9	5	11	1	1	0	1	0	0	0	2	2	2	2	2	2	4	1	2	2	8	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:88248234C>T	uc011ltd.1	-	13	1391	c.1358G>A	c.(1357-1359)CGT>CAT	p.R453H	AGTPBP1_uc004aod.3_Missense_Mutation_p.R79H|AGTPBP1_uc011ltc.1_Missense_Mutation_p.R351H|AGTPBP1_uc010mqc.2_Missense_Mutation_p.R413H|AGTPBP1_uc011lte.1_Missense_Mutation_p.R465H	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	453					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						AATAGGACCACGTACTTTTCC	0.333													36	81					0	0	1	0	0		T	88248234	T	T	88248234	3	4	16	1	0	0	0	0	1	0	0	0	400	536	19	1	2374	1	AGTPBP1	9	88248234	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3638652	88248234	52965197	651	12326											
SHC3	53358	broad.mit.edu	37	chr9	91680487	91680487	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacatatgcaacatagtcAgttgtgtcctgttaaagaaa	14	11	8	8	0	1	1	1	0	0	1	2	1	2	1	2	0	2	3	2	0	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:91680487A>G	uc004aqg.2	-	6	1099	c.792T>C	c.(790-792)ACT>ACC	p.T264T		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	264	PID.				central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						CAACATAGTCAGTTGTGTCCT	0.453													74	271					0	0	1	0	0		G	91680487	G	G	91680487	2	3	16	1	0	0	0	0	0	0	0	1	14297	175	7	3		3	SHC3	9	91680487	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	3432253	91680487	49532944	652	12327											
SYK	6850	broad.mit.edu	37	chr9	93606314	93606314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttatttgctgcgccagagccGcaactacctgggtggcttcg	6	11	12	12	3	0	1	0	0	0	1	1	1	0	1	3	2	5	3	3	2	3	4	rs16906862		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:93606314G>A	uc004aqz.2	+	2	339	c.134G>A	c.(133-135)CGC>CAC	p.R45H	SYK_uc004aqy.2_Missense_Mutation_p.R45H|SYK_uc004ara.2_Missense_Mutation_p.R45H|SYK_uc004arb.2_Missense_Mutation_p.R45H|SYK_uc004arc.2_Missense_Mutation_p.R45H|SYK_uc011ltr.1_RNA|SYK_uc011lts.1_RNA|SYK_uc011ltt.1_RNA	NM_003177	NP_003168	P43405	KSYK_HUMAN	spleen tyrosine kinase isoform 1	45	SH2 1.				cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						CGCCAGAGCCGCAACTACCTG	0.617			T	ETV6|ITK	MDS|peripheral T-cell lymphoma								3	15					0	0	1	0	0		A	93606314	A	A	93606314	3	1	16	1	0	0	0	0	1	0	0	0	15463	1087	38	1	136	1	SYK	9	93606314	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1925827	93606314	47607117	653	12328											
AUH	549	broad.mit.edu	37	chr9	93983200	93983200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctttggcttctttgccatCgaggactcgcgcagagaata	8	12	11	10	3	1	1	0	0	1	1	3	4	1	2	1	2	2	3	1	2	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:93983200C>T	uc004arf.3	-	7	765	c.730G>A	c.(730-732)GAT>AAT	p.D244N	AUH_uc004arg.3_Missense_Mutation_p.D215N	NM_001698	NP_001689	Q13825	AUHM_HUMAN	AU RNA binding protein/enoyl-Coenzyme A	244					branched chain family amino acid catabolic process|mRNA catabolic process	mitochondrial matrix	enoyl-CoA hydratase activity|methylglutaconyl-CoA hydratase activity|mRNA 3'-UTR binding				0						TCTTTGCCATCGAGGACTCGC	0.577													8	81					0	0	1	0	0		T	93983200	T	T	93983200	3	4	16	1	0	0	0	0	1	0	0	0	1220	884	31	1	305	1	AUH	9	93983200	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	376886	93983200	47230231	654	12329											
ROR2	4920	broad.mit.edu	37	chr9	94495598	94495598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgcggcacagctcacgcGgcttgggtgtccgggagcgc	4	6	17	14	7	1	0	1	0	0	0	3	1	2	1	1	4	2	3	1	4	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:94495598G>A	uc004arj.1	-	6	942	c.743C>T	c.(742-744)CCG>CTG	p.P248L	ROR2_uc004ari.1_Missense_Mutation_p.P108L|ROR2_uc004ark.2_Missense_Mutation_p.P248L	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	248	FZ.|Extracellular (Potential).				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						CAGCTCACGCGGCTTGGGTGT	0.647													7	18					0	0	1	0	0		A	94495598	A	A	94495598	3	1	16	1	0	0	0	0	1	0	0	0	13552	1116	39	1	2104	1	ROR2	9	94495598	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	512398	94495598	46717833	655	12330											
PHF2	5253	broad.mit.edu	37	chr9	96428129	96428129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaggaagaaaaacgcccCgaaaagggacttgtcctgtg	14	5	13	9	2	0	1	0	0	0	1	1	5	1	4	3	3	1	0	3	3	5	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:96428129C>T	uc004aub.2	+	15	2246	c.2099C>T	c.(2098-2100)CCG>CTG	p.P700L	PHF2_uc011lug.1_Missense_Mutation_p.P583L|PHF2_uc004auc.2_Missense_Mutation_p.P119L	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	700					liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		AAAAACGCCCCGAAAAGGGAC	0.612													40	141					0	0	1	0	0		T	96428129	T	T	96428129	3	4	16	1	0	0	0	0	1	0	0	0	11849	652	23	1	2157	1	PHF2	9	96428129	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1932531	96428129	44785302	656	12331											
ZNF169	169841	broad.mit.edu	37	chr9	97062823	97062823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtgtgggcgaggctttcGccagaagatagccctccttc	7	9	14	11	2	0	2	0	0	0	2	3	4	1	3	3	3	1	1	3	3	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:97062823G>A	uc004aum.1	+	5	1088	c.983G>A	c.(982-984)CGC>CAC	p.R328H		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	328	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				CGAGGCTTTCGCCAGAAGATA	0.547													15	144					0	0	1	0	0		A	97062823	A	A	97062823	3	1	16	1	0	0	0	0	1	0	0	0	17767	1087	38	1	997	1	ZNF169	9	97062823	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	634694	97062823	44150608	657	12332											
HIATL1	84641	broad.mit.edu	37	chr9	97203311	97203311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggagtcttctcggtcaCgttttctgttatatttgcct	4	19	9	9	2	5	0	1	0	4	0	6	1	5	1	1	2	1	2	1	2	2	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:97203311C>T	uc004aur.2	+	5	709	c.440C>T	c.(439-441)ACG>ATG	p.T147M	HIATL1_uc011luh.1_Missense_Mutation_p.T82M	NM_032558	NP_115947	Q5SR56	HIAL1_HUMAN	hippocampus abundant transcript-like 1	147	Helical; (Potential).				transmembrane transport	integral to membrane|plasma membrane	protein binding|transporter activity			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				TTCTCGGTCACGTTTTCTGTT	0.368													19	60					0	0	1	0	0		T	97203311	T	T	97203311	3	4	16	1	0	0	0	0	1	0	0	0	7114	536	19	1	458	1	HIATL1	9	97203311	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	140488	97203311	44010120	658	12333											
FBP1	2203	broad.mit.edu	37	chr9	97382707	97382707	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacatgttcataaccaggtcGttggagaggacgtccagctt	11	10	11	9	2	1	1	1	0	0	1	3	3	2	2	2	3	3	3	2	3	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:97382707G>A	uc004auw.3	-	2	568	c.237C>T	c.(235-237)AAC>AAT	p.N79N	FBP1_uc010mrl.2_Silent_p.N79N	NM_000507	NP_000498	P09467	F16P1_HUMAN	fructose-1,6-bisphosphatase 1	79					gluconeogenesis	cytosol	fructose 1,6-bisphosphate 1-phosphatase activity|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding|metal ion binding				0		Acute lymphoblastic leukemia(62;0.136)			Adenosine monophosphate(DB00131)	TAACCAGGTCGTTGGAGAGGA	0.458													16	62					0	0	1	0	0		A	97382707	A	A	97382707	2	1	16	1	0	0	0	0	0	0	0	1	5719	1136	40	1		1	FBP1	9	97382707	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	179396	97382707	43830724	659	12334											
ZNF510	22869	broad.mit.edu	37	chr9	99521928	99521928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatcattgagtgacttcttCggcgaactctgtgaaccgac	9	12	9	11	3	4	3	2	3	2	0	5	5	4	3	1	1	2	0	1	1	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:99521928C>T	uc004awn.1	-	6	1373	c.1184G>A	c.(1183-1185)CGA>CAA	p.R395Q	ZNF510_uc004awo.1_Missense_Mutation_p.R395Q	NM_014930	NP_055745	Q9Y2H8	ZN510_HUMAN	zinc finger protein 510	395					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				GTGACTTCTTCGGCGAACTCT	0.398													43	129					0	0	1	0	0		T	99521928	T	T	99521928	3	4	16	1	0	0	0	0	1	0	0	0	17979	884	31	1	871	1	ZNF510	9	99521928	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2139221	99521928	41691503	660	12335											
TBC1D2	55357	broad.mit.edu	37	chr9	100961787	100961787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcagctcagcctccagcCgctcccggtggaccatgcgc	5	5	11	20	4	1	0	1	0	0	0	3	1	3	1	6	2	4	3	6	2	0	0	rs145458773	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:100961787C>T	uc011lvb.1	-	13	2843	c.2663G>A	c.(2662-2664)CGG>CAG	p.R888Q	TBC1D2_uc004ayp.2_Missense_Mutation_p.R428Q|TBC1D2_uc004ayq.2_Missense_Mutation_p.R877Q|TBC1D2_uc004ayr.2_Missense_Mutation_p.R670Q|TBC1D2_uc004ayo.3_3'UTR	NM_018421	NP_060891	Q9BYX2	TBD2A_HUMAN	TBC1 domain family, member 2	888	Potential.					cell junction|cytoplasmic membrane-bounded vesicle|nucleus	Rab GTPase activator activity			ovary(3)	3		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.55e-37)		AGCCTCCAGCCGCTCCCGGTG	0.637													4	130					0	0	1	0	0		T	100961787	T	T	100961787	3	4	16	1	0	0	0	0	1	0	0	0	15633	652	23	1	127	1	TBC1D2	9	100961787	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1439859	100961787	40251644	661	12336											
GABBR2	9568	broad.mit.edu	37	chr9	101304194	101304194	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgcgtcagcgtgcccacGcgcttccactggtagtgctt	4	12	11	14	4	2	0	1	0	1	0	3	0	3	0	2	1	4	3	2	1	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:101304194G>A	uc004ays.2	-	3	747	c.591C>T	c.(589-591)CGC>CGT	p.R197R		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	197	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	GCGTGCCCACGCGCTTCCACT	0.522													18	60					0	0	1	0	0		A	101304194	A	A	101304194	2	1	16	1	0	0	0	0	0	0	0	1	6170	1074	38	1		1	GABBR2	9	101304194	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	342407	101304194	39909237	662	12337											
ANKS6	203286	broad.mit.edu	37	chr9	101536250	101536250	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccttcccgttgtgacgcGtccgggaccgatcagagctc	5	9	12	15	5	1	2	1	1	0	1	4	4	3	3	4	1	2	2	4	1	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:101536250G>A	uc004ayu.2	-	9	1751	c.1730C>T	c.(1729-1731)ACG>ATG	p.T577M	ANKS6_uc004ayt.2_Missense_Mutation_p.T276M|ANKS6_uc004ayv.1_Missense_Mutation_p.T39M|ANKS6_uc004ayw.1_Missense_Mutation_p.T159M|ANKS6_uc004ayx.1_RNA|ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	577										ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				GTTGTGACGCGTCCGGGACCG	0.632													16	41					0	0	1	0	0		A	101536250	A	A	101536250	3	1	16	1	0	0	0	0	1	0	0	0	692	1145	40	1	913	1	ANKS6	9	101536250	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	232056	101536250	39677181	663	12338											
COL15A1	1306	broad.mit.edu	37	chr9	101832036	101832036	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaagcatggcgaaccgcGgacacagcggtcacgggact	10	5	15	11	5	1	1	1	1	0	0	1	4	1	3	1	4	3	1	1	4	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:101832036G>A	uc004azb.1	+	42	4241	c.4035G>A	c.(4033-4035)GCG>GCA	p.A1345A		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1345	Nonhelical region 10 (NC10).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				GGCGAACCGCGGACACAGCGG	0.537													34	117					0	0	1	0	0		A	101832036	A	A	101832036	2	1	16	1	0	0	0	0	0	0	0	1	3675	1103	39	1		1	COL15A1	9	101832036	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	295786	101832036	39381395	664	12339											
INVS	27130	broad.mit.edu	37	chr9	103035177	103035177	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgattatgctttgcttggtGagcgccatgaagtgatccag	8	14	12	7	1	0	4	0	4	0	0	1	4	1	4	2	1	3	2	2	1	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:103035177G>T	uc004bap.1	+	12	1815	c.1603G>T	c.(1603-1605)GAG>TAG	p.E535*	INVS_uc010mta.1_Nonsense_Mutation_p.E439*|INVS_uc011lve.1_Nonsense_Mutation_p.E439*|INVS_uc004bao.1_Nonsense_Mutation_p.E535*|INVS_uc004baq.1_Nonsense_Mutation_p.E439*|INVS_uc004bar.1_Nonsense_Mutation_p.E439*|INVS_uc010mtb.1_Nonsense_Mutation_p.E209*	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	535	ANK 16.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				TTTGCTTGGTGAGCGCCATGA	0.428													82	244					2.13026e-44	2.34385e-44	1	1	0		T	103035177	T	T	103035177	4	4	16	1	0	0	0	0	0	1	0	0	7803	1291	45	5	1645	5	INVS	9	103035177	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1203141	103035177	38178254	665	12340											
SMC2	10592	broad.mit.edu	37	chr9	106876290	106876290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcgcaggcagctgtctcGtgatattggtagattgaaag	12	10	13	6	2	1	3	0	2	1	1	2	3	1	3	0	2	2	4	0	2	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:106876290G>A	uc004bbv.2	+	12	1748	c.1460G>A	c.(1459-1461)CGT>CAT	p.R487H	SMC2_uc004bbu.1_Missense_Mutation_p.R487H|SMC2_uc004bbw.2_Missense_Mutation_p.R487H|SMC2_uc011lvl.1_Missense_Mutation_p.R487H|SMC2_uc004bbx.2_Missense_Mutation_p.R487H	NM_001042551	NP_001036016	O95347	SMC2_HUMAN	structural maintenance of chromosomes 2	487	Potential.				cell division|mitotic chromosome condensation|symbiosis, encompassing mutualism through parasitism	condensin complex|cytoplasm|nuclear chromosome	ATP binding|protein heterodimerization activity			ovary(4)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|breast(1)	9						CAGCTGTCTCGTGATATTGGT	0.343													60	207					0	0	1	0	0		A	106876290	A	A	106876290	3	1	16	1	0	0	0	0	1	0	0	0	14808	1145	40	1	1502	1	SMC2	9	106876290	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3841113	106876290	34337141	666	12341											
KLF4	9314	broad.mit.edu	37	chr9	110249320	110249320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccccctacctgtgtgggttCgcaggtgtgccttgagatgg	4	12	14	11	1	0	1	0	1	0	1	2	2	1	1	4	3	2	2	4	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:110249320C>T	uc004bdh.2	-	3	1949	c.1328G>A	c.(1327-1329)CGA>CAA	p.R443Q	KLF4_uc004bdf.1_Missense_Mutation_p.R368Q|KLF4_uc004bdg.2_Missense_Mutation_p.R418Q	NM_004235	NP_004226	O43474	KLF4_HUMAN	Kruppel-like factor 4 (gut)	452	C2H2-type 1.				fat cell differentiation|mesodermal cell fate determination|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|stem cell maintenance|transcription from RNA polymerase II promoter	nucleus	RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor recruiting transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(2)|lung(1)	3						TGTGTGGGTTCGCAGGTGTGC	0.587													62	193					0	0	1	0	0		T	110249320	T	T	110249320	3	4	16	1	0	0	0	0	1	0	0	0	8364	884	31	1	194	1	KLF4	9	110249320	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3373030	110249320	30964111	667	12342											
EPB41L4B	54566	broad.mit.edu	37	chr9	112015826	112015826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagcttgatattctgtccGcccactgggaagtaaatatt	10	14	9	8	1	1	1	0	1	1	0	2	2	2	2	2	1	1	3	2	1	6	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:112015826G>A	uc004bdz.1	-	12	1469	c.1174C>T	c.(1174-1176)CGG>TGG	p.R392W	EPB41L4B_uc004bea.2_Missense_Mutation_p.R392W	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	392						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						TATTCTGTCCGCCCACTGGGA	0.423													20	74					0	0	1	0	0		A	112015826	A	A	112015826	3	1	16	1	0	0	0	0	1	0	0	0	5164	1086	38	1	1740	1	EPB41L4B	9	112015826	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1766506	112015826	29197605	668	12343											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112687354	112687354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctacagggtttctccagtaCggatggaggtaagtgctctc	8	11	12	10	1	2	0	0	0	2	0	4	2	2	2	2	4	3	4	2	4	3	4	rs150674445		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:112687354C>T	uc004bei.2	+	5	578	c.386C>T	c.(385-387)ACG>ATG	p.T129M	PALM2_uc004bef.2_Missense_Mutation_p.T131M|PALM2_uc004beg.2_Missense_Mutation_p.T131M|PALM2_uc004beh.3_Missense_Mutation_p.T129M|PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.T129M|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.T129M|PALM2-AKAP2_uc004bel.1_Translation_Start_Site	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	Error:Variant_position_missing_in_Q9Y2D5_after_alignment							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						TTCTCCAGTACGGATGGAGGT	0.458													30	88					0	0	1	0	0		T	112687354	T	T	112687354	3	4	16	1	0	0	0	0	1	0	0	0	11429	536	19	1	404	1	PALM2-AKAP2	9	112687354	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	671528	112687354	28526077	669	12344											
RGS3	5998	broad.mit.edu	37	chr9	116359161	116359161	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctcatggaaaaggactcGtaccctcgctttctccgttc	7	11	10	13	3	2	0	1	0	1	0	6	2	2	2	2	3	1	4	2	3	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:116359161G>A	uc004bhq.2	+	26	3734	c.3525G>A	c.(3523-3525)TCG>TCA	p.S1175S	RGS3_uc004bhs.2_Silent_p.S1065S|RGS3_uc004bht.2_Silent_p.S894S|RGS3_uc010muy.2_Silent_p.S568S|RGS3_uc004bhv.2_Silent_p.S496S|RGS3_uc004bhw.2_Silent_p.S145S|RGS3_uc011lxh.1_Silent_p.S485S|RGS3_uc004bhx.2_Silent_p.S496S|RGS3_uc004bhz.2_Silent_p.S517S|RGS3_uc004bia.2_Silent_p.S288S	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	1175	RGS.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						AAAAGGACTCGTACCCTCGCT	0.582													27	92					0	0	1	0	0		A	116359161	A	A	116359161	2	1	16	1	0	0	0	0	0	0	0	1	13331	1132	40	1		1	RGS3	9	116359161	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3671807	116359161	24854270	670	12345											
AMBP	259	broad.mit.edu	37	chr9	116838907	116838907	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctggtcatgctgatctcCgcctctgtagcgccctctcc	3	12	10	16	2	4	1	1	1	3	0	6	1	4	1	4	1	3	3	4	1	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:116838907C>T	uc004bie.3	-	2	494	c.231G>A	c.(229-231)GCG>GCA	p.A77A	AMBP_uc011lxk.1_Silent_p.A18A|AMBP_uc010mvc.1_RNA	NM_001633	NP_001624	P02760	AMBP_HUMAN	alpha-1-microglobulin/bikunin preproprotein	77					cell adhesion|female pregnancy|heme catabolic process|interspecies interaction between organisms|negative regulation of immune response|negative regulation of JNK cascade|protein-chromophore linkage	extracellular region|plasma membrane	calcium channel inhibitor activity|calcium oxalate binding|heme binding|IgA binding|protein homodimerization activity|serine-type endopeptidase inhibitor activity|transporter activity			skin(1)	1					Human Serum Albumin(DB00062)|Serum albumin iodonated(DB00064)	TGCTGATCTCCGCCTCTGTAG	0.607													4	84					0	0	1	0	0		T	116838907	T	T	116838907	2	4	16	1	0	0	0	0	0	0	0	1	564	639	23	1		1	AMBP	9	116838907	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	479746	116838907	24374524	671	12346											
TNFSF8	944	broad.mit.edu	37	chr9	117692480	117692480	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatagaaatagctgcggCtcgtggtccccaggtggctg	9	9	13	10	2	1	1	1	0	0	1	3	1	2	1	2	4	2	3	2	4	4	2	rs139509296		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:117692480C>A	uc004bji.1	-	1	291	c.104G>T	c.(103-105)AGC>ATC	p.S35I		NM_001244	NP_001235	P32971	TNFL8_HUMAN	tumor necrosis factor (ligand) superfamily,	35	Cytoplasmic (Potential).				cell proliferation|cell-cell signaling|immune response|induction of apoptosis|signal transduction	extracellular space|integral to plasma membrane	cytokine activity|tumor necrosis factor receptor binding			lung(3)|skin(2)|ovary(1)	6						ATAGCTGCGGCTCGTGGTCCC	0.602													24	54					7.92952e-12	8.40103e-12	1	1	0		A	117692480	A	A	117692480	3	1	16	1	0	0	0	0	1	0	0	0	16336	797	28	5	616	5	TNFSF8	9	117692480	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	853573	117692480	23520951	672	12347											
TNC	3371	broad.mit.edu	37	chr9	117853061	117853061	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcgctgggctctgaaggCggtgccaggtctttctcccc	3	12	12	14	2	3	1	0	1	3	0	5	1	3	1	3	4	1	2	3	4	1	2	rs149512169		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:117853061C>T	uc004bjj.3	-	2	599	c.237G>A	c.(235-237)CCG>CCA	p.P79P	TNC_uc010mvf.2_Silent_p.P79P	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	79					cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GCTCTGAAGGCGGTGCCAGGT	0.562													56	154					0	0	1	0	0		T	117853061	T	T	117853061	2	4	16	1	0	0	0	0	0	0	0	1	16295	755	27	1		1	TNC	9	117853061	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	160581	117853061	23360370	673	12348											
ASTN2	23245	broad.mit.edu	37	chr9	119737508	119737508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacatctgcagggtcttccGtgacgagcacatcggtcttg	7	11	12	11	3	3	2	0	2	3	0	5	3	4	2	1	2	2	2	1	2	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:119737508G>A	uc004bjs.1	-	10	1969	c.1868C>T	c.(1867-1869)ACG>ATG	p.T623M	ASTN2_uc004bjr.1_Missense_Mutation_p.T619M|ASTN2_uc004bjt.1_Missense_Mutation_p.T572M	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	623	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						AGGGTCTTCCGTGACGAGCAC	0.552													4	87					0	0	1	0	0		A	119737508	A	A	119737508	3	1	16	1	0	0	0	0	1	0	0	0	1066	1145	40	1	2439	1	ASTN2	9	119737508	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1884447	119737508	21475923	674	12349											
ASTN2	23245	broad.mit.edu	37	chr9	120053685	120053685	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgggggcggtggcttgggCcagctgcccggagctgctca	4	7	19	11	2	1	0	1	0	0	0	1	1	1	1	2	6	4	4	2	6	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:120053685C>G	uc004bjs.1	-	2	651	c.550G>C	c.(550-552)GCC>CCC	p.A184P	ASTN2_uc004bjr.1_Missense_Mutation_p.A184P|ASTN2_uc004bjt.1_Missense_Mutation_p.A184P	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	184	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GTGGCTTGGGCCAGCTGCCCG	0.602													10	35					0	0	1	0	0		G	120053685	G	G	120053685	3	3	16	1	0	0	0	0	1	0	0	0	1066	739	26	5	3632	5	ASTN2	9	120053685	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	316177	120053685	21159746	675	12350											
GOLGA1	2800	broad.mit.edu	37	chr9	127652731	127652731	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgagccatggccacgctCacaatttctctttggctcca	7	12	8	14	1	2	1	1	1	1	0	4	1	3	1	3	2	1	3	3	2	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:127652731C>A	uc004bpc.2	-	16	1776	c.1434G>T	c.(1432-1434)GTG>GTT	p.V478V	GOLGA1_uc010mws.2_RNA	NM_002077	NP_002068	Q92805	GOGA1_HUMAN	golgin 97	478	Potential.|Gln-rich.					Golgi cisterna membrane				ovary(1)	1						TGGCCACGCTCACAATTTCTC	0.532													27	56					1.22384e-17	1.32283e-17	1	1	0		A	127652731	A	A	127652731	2	1	16	1	0	0	0	0	0	0	0	1	6566	813	29	5		5	GOLGA1	9	127652731	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7599046	127652731	13560700	676	12351											
SCAI	286205	broad.mit.edu	37	chr9	127818218	127818218	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatctgtaactgttttcCtctctccctgtgggatatca	10	15	6	10	0	3	0	1	0	2	0	6	1	5	1	2	1	1	2	2	1	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:127818218C>A	uc004bpe.2	-	3	248	c.167G>T	c.(166-168)AGG>ATG	p.R56M	SCAI_uc004bpd.2_Missense_Mutation_p.R79M|SCAI_uc010mwu.2_RNA	NM_001144877	NP_001138349	Q8N9R8	SCAI_HUMAN	suppressor of cancer cell invasion isoform 2	56	Necessary to inhibit MKL1-induced SRF transcriptional activity (By similarity).				negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|integral to membrane|nucleus	protein binding|transcription corepressor activity			ovary(2)|breast(2)|central_nervous_system(1)	5						AACTGTTTTCCTCTCTCCCTG	0.378													21	56					4.35082e-09	4.5542e-09	1	1	0		A	127818218	A	A	127818218	3	1	16	1	0	0	0	0	1	0	0	0	13894	681	24	5	1717	5	SCAI	9	127818218	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	165487	127818218	13395213	677	12352											
RABEPK	10244	broad.mit.edu	37	chr9	127982827	127982827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggcccagaaaccaggaCgtggaccacgccagaagtga	12	4	12	13	2	1	3	0	1	1	2	1	5	1	5	4	3	1	0	4	3	2	0	rs144370574		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:127982827C>T	uc004bpi.2	+	6	547	c.374C>T	c.(373-375)ACG>ATG	p.T125M	RABEPK_uc004bph.1_Missense_Mutation_p.R149C|RABEPK_uc004bpj.2_Missense_Mutation_p.T74M|RABEPK_uc004bpk.2_Missense_Mutation_p.T125M|RABEPK_uc004bpl.1_Missense_Mutation_p.T74M|RABEPK_uc004bpm.2_Missense_Mutation_p.T125M	NM_005833	NP_005824	Q7Z6M1	RABEK_HUMAN	Rab9 effector protein with kelch motifs	125	Kelch 2.				receptor-mediated endocytosis|vesicle docking involved in exocytosis	endosome membrane|plasma membrane				ovary(1)	1						GAAACCAGGACGTGGACCACG	0.537													21	49					0	0	1	0	0		T	127982827	T	T	127982827	3	4	16	1	0	0	0	0	1	0	0	0	12988	536	19	1	388	1	RABEPK	9	127982827	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	164609	127982827	13230604	678	12353											
HSPA5	3309	broad.mit.edu	37	chr9	127998919	127998919	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttcaccagttgggggaggGcctgcacttccatagagttt	7	12	12	10	0	2	1	1	0	1	1	3	2	3	2	3	3	1	3	3	3	1	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:127998919G>A	uc004bpn.2	-	8	2173	c.1917C>T	c.(1915-1917)GGC>GGT	p.G639G		NM_005347	NP_005338	P11021	GRP78_HUMAN	heat shock 70kDa protein 5	639					anti-apoptosis|cellular response to glucose starvation|ER-associated protein catabolic process|platelet activation|platelet degranulation|regulation of protein folding in endoplasmic reticulum	cell surface|endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|integral to endoplasmic reticulum membrane|melanosome|midbody|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|calcium ion binding|caspase inhibitor activity|chaperone binding|misfolded protein binding|protein binding, bridging|protein domain specific binding|ubiquitin protein ligase binding|unfolded protein binding			ovary(3)|skin(1)	4					Antihemophilic Factor(DB00025)	TTGGGGGAGGGCCTGCACTTC	0.413										Prostate(1;0.17)			21	67					0	0	1	0	0		A	127998919	A	A	127998919	2	1	16	1	0	0	0	0	0	0	0	1	7430	1190	42	2		2	HSPA5	9	127998919	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	16092	127998919	13214512	679	12354											
ZBTB43	23099	broad.mit.edu	37	chr9	129595780	129595780	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttccggagagaggtcagAtgggaatctaattgggcaca	11	10	14	6	1	2	2	1	0	1	2	3	5	3	4	1	4	0	2	1	4	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:129595780A>G	uc004bql.2	+	3	1265	c.992A>G	c.(991-993)GAT>GGT	p.D331G	ZBTB43_uc010mxf.2_Missense_Mutation_p.D331G	NM_014007	NP_054726	O43298	ZBT43_HUMAN	zinc finger and BTB domain containing 43	331					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GAGAGGTCAGATGGGAATCTA	0.458													32	77					0	0	1	0	0		G	129595780	G	G	129595780	3	3	16	1	0	0	0	0	1	0	0	0	17569	333	12	3	994	3	ZBTB43	9	129595780	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1596861	129595780	11617651	680	12355											
ANGPTL2	23452	broad.mit.edu	37	chr9	129870416	129870416	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcagtgctcctcaagctGcgcgatgatctctgattggt	6	12	12	11	2	2	2	1	2	1	0	4	3	3	2	1	2	3	3	1	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:129870416G>A	uc004bqr.1	-	2	1095	c.595C>T	c.(595-597)CAG>TAG	p.Q199*	RALGPS1_uc004bqo.1_Intron|RALGPS1_uc011mab.1_Intron|RALGPS1_uc011mac.1_Intron|RALGPS1_uc004bqq.3_Intron|ANGPTL2_uc010mxg.1_Intron	NM_012098	NP_036230	Q9UKU9	ANGL2_HUMAN	angiopoietin-like 2 precursor	199	Potential.				multicellular organismal development|signal transduction	extracellular space	receptor binding				0						TCCTCAAGCTGCGCGATGATC	0.662													8	32					0	0	1	0	0		A	129870416	A	A	129870416	4	1	16	1	0	0	0	0	0	1	0	0	614	1328	46	2	902	2	ANGPTL2	9	129870416	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	274636	129870416	11343015	681	12356											
RPL12	6136	broad.mit.edu	37	chr9	130210644	130210644	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctctggctaaggatcggtgCcgcatctgtcgagcaatgtt	7	12	12	10	3	2	0	0	0	2	0	5	2	2	1	1	3	2	4	1	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:130210644C>T	uc004bqy.1	-	5	439	c.351G>A	c.(349-351)CGG>CGA	p.R117R	RPL12_uc004bqx.1_RNA|RPL12_uc004bqz.1_Silent_p.R84R	NM_000976	NP_000967	P30050	RL12_HUMAN	ribosomal protein L12	117					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	RNA binding|structural constituent of ribosome				0						AGGATCGGTGCCGCATCTGTC	0.418													59	220					0	0	1	0	0		T	130210644	T	T	130210644	2	4	16	1	0	0	0	0	0	0	0	1	13583	726	26	2		2	RPL12	9	130210644	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	340228	130210644	11002787	682	12357											
SH2D3C	10044	broad.mit.edu	37	chr9	130507045	130507045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgccccagtccccttcagggGccccattttctgacagttcc	5	11	8	17	0	2	1	1	1	1	0	4	1	4	1	7	2	1	1	7	2	0	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:130507045G>A	uc004bsc.2	-	7	1740	c.1598C>T	c.(1597-1599)GCC>GTC	p.A533V	SH2D3C_uc010mxo.2_Missense_Mutation_p.A373V|SH2D3C_uc004bry.2_Missense_Mutation_p.A375V|SH2D3C_uc004brz.3_Missense_Mutation_p.A179V|SH2D3C_uc011mak.1_Missense_Mutation_p.A179V|SH2D3C_uc004bsa.2_Missense_Mutation_p.A376V|SH2D3C_uc004bsb.2_Missense_Mutation_p.A465V	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a	533					JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						CCCTTCAGGGGCCCCATTTTC	0.607													14	254					0	0	1	0	0		A	130507045	A	A	130507045	3	1	16	1	0	0	0	0	1	0	0	0	14259	1203	42	2	1008	2	SH2D3C	9	130507045	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	296401	130507045	10706386	683	12358											
NAIF1	203245	broad.mit.edu	37	chr9	130829391	130829391	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacggccatggcctctcccCtcccctctttttaaagaaat	8	11	7	15	1	2	1	0	0	2	1	4	2	3	2	6	3	0	0	6	3	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:130829391C>A	uc004bta.2	-	1	209	c.-10G>T	c.(-12--8)GAGGG>GATGG		NAIF1_uc004bsz.2_RNA|SLC25A25_uc004btb.2_5'Flank	NM_197956	NP_931045	Q69YI7	NAIF1_HUMAN	nuclear apoptosis inducing factor 1						apoptosis|induction of apoptosis	nucleus					0						GGCCTCTCCCCTCCCCTCTTT	0.562													31	94					3.11337e-16	3.35863e-16	1	1	0		A	130829391	A	A	130829391	1	1	16	1	0	0	0	0	0	0	0	0	10164	696	24	5		5	NAIF1	9	130829391	Translation_Start_Site	SNP	C	TCGA-BR-4292-01A-01D-1126-08	322346	130829391	10384040	684	12359											
LRRC8A	56262	broad.mit.edu	37	chr9	131670129	131670129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcgtggaccgctcagagaCgggcgtgctggacaagaagg	10	6	16	9	4	1	2	1	0	0	2	2	5	1	4	1	4	1	2	1	4	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:131670129C>T	uc004bwl.3	+	3	940	c.686C>T	c.(685-687)ACG>ATG	p.T229M	LRRC8A_uc010myp.2_Missense_Mutation_p.T229M|LRRC8A_uc010myq.2_Missense_Mutation_p.T229M	NM_019594	NP_062540	Q8IWT6	LRC8A_HUMAN	leucine rich repeat containing 8 family, member	229					pre-B cell differentiation	integral to membrane					0						CGCTCAGAGACGGGCGTGCTG	0.602													20	20					0	0	1	0	0		T	131670129	T	T	131670129	3	4	16	1	0	0	0	0	1	0	0	0	9039	536	19	1	688	1	LRRC8A	9	131670129	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	840738	131670129	9543302	685	12360											
NUP188	23511	broad.mit.edu	37	chr9	131755602	131755602	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgattctagagttcctcActgttgcagtagagacccag	10	12	9	10	0	3	3	2	1	1	2	4	4	4	3	2	0	1	4	2	0	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:131755602A>G	uc004bws.1	+	26	2789	c.2767A>G	c.(2767-2769)ACT>GCT	p.T923A	NUP188_uc004bwu.2_Missense_Mutation_p.T266A	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	923					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						AGAGTTCCTCACTGTTGCAGT	0.502											OREG0019527	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	94					0	0	1	0	0		G	131755602	G	G	131755602	3	3	16	1	0	0	0	0	1	0	0	0	10777	159	6	3	2869	3	NUP188	9	131755602	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	85473	131755602	9457829	686	12361											
FAM78A	286336	broad.mit.edu	37	chr9	134136213	134136213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtggtcctggctgtcacCggtgcttgggcgggatcacc	3	9	17	12	3	2	0	2	0	0	0	3	1	3	1	3	6	1	2	3	6	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:134136213C>T	uc004cak.2	-	2	1188	c.848G>A	c.(847-849)CGG>CAG	p.R283Q	FAM78A_uc004caj.2_Missense_Mutation_p.R280Q	NM_033387	NP_203745	Q5JUQ0	FA78A_HUMAN	hypothetical protein LOC286336	283										ovary(1)	1	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.15e-05)|Epithelial(140;0.000267)		TGGCTGTCACCGGTGCTTGGG	0.567													10	38					0	0	1	0	0		T	134136213	T	T	134136213	3	4	16	1	0	0	0	0	1	0	0	0	5640	652	23	1	7	1	FAM78A	9	134136213	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2380611	134136213	7077218	687	12362											
NTNG2	84628	broad.mit.edu	37	chr9	135073517	135073517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagccaacatcaccctttcGtggaacaagaccgtggagct	12	7	10	12	2	1	1	1	0	0	1	2	4	1	3	3	2	4	1	3	2	4	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:135073517G>A	uc004cbh.2	+	3	1154	c.378G>A	c.(376-378)TCG>TCA	p.S126S		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	126	Laminin N-terminal.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		TCACCCTTTCGTGGAACAAGA	0.632													14	27					0	0	1	0	0		A	135073517	A	A	135073517	2	1	16	1	0	0	0	0	0	0	0	1	10724	1132	40	1		1	NTNG2	9	135073517	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	937304	135073517	6139914	688	12363											
SARDH	1757	broad.mit.edu	37	chr9	136536721	136536721	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggccgtgcttggcaccCgcggccatcacagcccggta	7	6	13	15	4	1	1	1	1	0	0	1	1	1	1	4	4	2	3	4	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:136536721C>T	uc004cep.3	-	18	2396	c.2262G>A	c.(2260-2262)GCG>GCA	p.A754A	SARDH_uc004ceo.2_Silent_p.A754A|SARDH_uc011mdn.1_Silent_p.A754A|SARDH_uc011mdo.1_Silent_p.A586A|SARDH_uc004cen.2_Silent_p.A182A	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	754					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		GCTTGGCACCCGCGGCCATCA	0.662													3	15					0	0	1	0	0		T	136536721	T	T	136536721	2	4	16	1	0	0	0	0	0	0	0	1	13866	639	23	1		1	SARDH	9	136536721	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1463204	136536721	4676710	689	12364											
VAV2	7410	broad.mit.edu	37	chr9	136660824	136660824	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttctttgagctgctgcCtctcaggccgttccgcagaa	5	12	11	13	2	2	2	1	1	2	1	4	2	3	2	3	1	4	5	3	1	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:136660824C>A	uc004ces.2	-	12	1113	c.1067G>T	c.(1066-1068)AGG>ATG	p.R356M	VAV2_uc004cer.2_Missense_Mutation_p.R351M	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	356	DH.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		GAGCTGCTGCCTCTCAGGCCG	0.587													28	47					4.4194e-11	4.66727e-11	1	1	0		A	136660824	A	A	136660824	3	1	16	1	0	0	0	0	1	0	0	0	17158	681	24	5	1645	5	VAV2	9	136660824	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	124103	136660824	4552607	690	12365											
COL5A1	1289	broad.mit.edu	37	chr9	137674515	137674515	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgtcccatattcagggTgaagacggctttcctgggtt	6	14	11	10	1	2	2	1	1	1	1	4	2	4	2	2	3	0	2	2	3	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:137674515T>C	uc004cfe.2	+	29	2815	c.2433T>C	c.(2431-2433)GGT>GGC	p.G811G		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	811	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		ATATTCAGGGTGAAGACGGCT	0.577													10	164					0	0	1	0	0		C	137674515	C	C	137674515	2	2	16	1	0	0	0	0	0	0	0	1	3699	1683	59	3		3	COL5A1	9	137674515	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1013691	137674515	3538916	691	12366											
FCN1	2219	broad.mit.edu	37	chr9	137803098	137803098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtccaccaggtctacaCggagctcgctgcttcctgtt	8	10	9	14	2	1	0	0	0	1	0	4	1	3	1	3	2	3	4	3	2	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:137803098C>T	uc004cfi.2	-	8	706	c.614G>A	c.(613-615)CGT>CAT	p.R205H		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	205	Fibrinogen C-terminal.				opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		CAGGTCTACACGGAGCTCGCT	0.488													68	204					0	0	1	0	0		T	137803098	T	T	137803098	3	4	16	1	0	0	0	0	1	0	0	0	5805	536	19	1	374	1	FCN1	9	137803098	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	128583	137803098	3410333	692	12367											
LHX3	8022	broad.mit.edu	37	chr9	139092502	139092502	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagtggcgtgtggcagtcGctgcacttgagacacttgct	6	10	14	11	2	0	1	0	1	0	1	1	2	0	1	1	2	2	4	1	2	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:139092502G>A	uc004cha.2	-	2	274	c.177C>T	c.(175-177)AGC>AGT	p.S59S	LHX3_uc004cgz.2_Silent_p.S64S	NM_178138	NP_835258	Q9UBR4	LHX3_HUMAN	LIM homeobox protein 3 isoform a	59	LIM zinc-binding 1.				inner ear development|organ morphogenesis|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;8.43e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.26e-07)		TGTGGCAGTCGCTGCACTTGA	0.607													5	19					0	0	1	0	0		A	139092502	A	A	139092502	2	1	16	1	0	0	0	0	0	0	0	1	8788	1078	38	1		1	LHX3	9	139092502	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1289404	139092502	2120929	693	12368											
PMPCA	23203	broad.mit.edu	37	chr9	139310805	139310805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggaggacctgaacctgcggCctgacccagagccacttctc	8	7	11	15	1	1	3	0	2	1	1	2	5	1	5	5	3	3	0	5	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:139310805C>T	uc004chl.2	+	6	600	c.595C>T	c.(595-597)CCT>TCT	p.P199S	PMPCA_uc011mdy.1_Missense_Mutation_p.P199S|PMPCA_uc010nbk.2_RNA|PMPCA_uc010nbl.2_Missense_Mutation_p.P99S|PMPCA_uc011mdz.1_Missense_Mutation_p.P68S|PMPCA_uc004chm.1_5'UTR|PMPCA_uc004chn.1_5'Flank	NM_015160	NP_055975	Q10713	MPPA_HUMAN	peptidase (mitochondrial processing) alpha	199					proteolysis	mitochondrial inner membrane|mitochondrial matrix	metalloendopeptidase activity|zinc ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;9.3e-06)|Epithelial(140;1.15e-05)		GAACCTGCGGCCTGACCCAGA	0.562													19	69					0	0	1	0	0		T	139310805	T	T	139310805	3	4	16	1	0	0	0	0	1	0	0	0	12159	739	26	2	617	2	PMPCA	9	139310805	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	218303	139310805	1902626	694	12369											
INPP5E	56623	broad.mit.edu	37	chr9	139328514	139328514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacagccctcctggacccCgatgacatacaggtcctggg	10	6	11	14	1	0	2	0	1	0	1	2	4	2	3	5	3	3	0	5	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:139328514C>T	uc004cho.2	-	3	1394	c.1009G>A	c.(1009-1011)GGG>AGG	p.G337R	INPP5E_uc010nbm.2_Missense_Mutation_p.G337R	NM_019892	NP_063945	Q9NRR6	INP5E_HUMAN	inositol polyphosphate-5-phosphatase E	337						cilium axoneme|cytoskeleton|Golgi cisterna membrane	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity			skin(1)	1		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.36e-06)|Epithelial(140;1.4e-05)		TCCTGGACCCCGATGACATAC	0.672													4	15					0	0	1	0	0		T	139328514	T	T	139328514	3	4	16	1	0	0	0	0	1	0	0	0	7773	652	23	1	957	1	INPP5E	9	139328514	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	17709	139328514	1884917	695	12370											
LCN10	414332	broad.mit.edu	37	chr9	139635288	139635288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catccgctgtgcctgctcacGgaagagcagcaggttcttgt	7	10	12	12	2	2	1	1	0	1	1	3	2	3	2	2	2	4	5	2	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:139635288G>A	uc010nbq.2	-	3	495	c.436C>T	c.(436-438)CAT>TAT	p.H146Y	LCN10_uc004civ.2_Missense_Mutation_p.H159Y|LCN10_uc011med.1_Intron|LCN10_uc011mee.1_Intron|LCN10_uc011mef.1_Intron|LCN10_uc004ciw.2_RNA			Q6JVE6	LCN10_HUMAN	SubName: Full=LCN10 protein;	146					transport	extracellular region	binding			large_intestine(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.32e-06)|Epithelial(140;7.83e-05)		GCCTGCTCACGGAAGAGCAGC	0.368													8	43					0	0	1	0	0		A	139635288	A	A	139635288	3	1	16	1	0	0	0	0	1	0	0	0	8697	1130	39	1	139	1	LCN10	9	139635288	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	306774	139635288	1578143	696	12371											
C9orf139	401563	broad.mit.edu	37	chr9	139927540	139927540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccctgcggggtcaccctgagCcccagccaaccaacacccca	9	3	8	21	1	1	1	1	1	0	0	1	1	1	1	8	2	5	0	8	2	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:139927540C>T	uc004ckp.1	+	2	1539	c.25C>T	c.(25-27)CCC>TCC	p.P9S	FUT7_uc004ckq.2_5'Flank	NM_207511	NP_997394	Q6ZV77	CI139_HUMAN	hypothetical protein LOC401563	9											0	all_cancers(76;0.0893)	Myeloproliferative disorder(178;0.0821)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.99e-05)|Epithelial(140;0.000493)		TCACCCTGAGCCCCAGCCAAC	0.652													31	105					0	0	1	0	0		T	139927540	T	T	139927540	3	4	16	1	0	0	0	0	1	0	0	0	2462	739	26	2	27	2	C9orf139	9	139927540	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	292252	139927540	1285891	697	12372											
ANAPC2	29882	broad.mit.edu	37	chr9	140079368	140079368	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccggggcaggaccacctcGgacgatgctgaagagctcct	8	5	15	13	3	0	2	0	1	0	1	2	5	1	4	4	5	2	3	4	5	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:140079368G>A	uc004clr.1	-	4	1118	c.1045C>T	c.(1045-1047)CGA>TGA	p.R349*	ANAPC2_uc004clq.1_Nonsense_Mutation_p.R208*	NM_013366	NP_037498	Q9UJX6	ANC2_HUMAN	anaphase-promoting complex subunit 2	349					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cyclin catabolic process|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of synapse maturation|positive regulation of synaptic plasticity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of cyclin-dependent protein kinase activity	anaphase-promoting complex|cytosol|nucleoplasm	ubiquitin protein ligase binding|ubiquitin-protein ligase activity			ovary(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.000858)		GGACCACCTCGGACGATGCTG	0.672													6	19					0	0	1	0	0		A	140079368	A	A	140079368	4	1	16	1	0	0	0	0	0	1	0	0	603	1124	39	1	1463	1	ANAPC2	9	140079368	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	151828	140079368	1134063	698	12373											
ENTPD8	377841	broad.mit.edu	37	chr9	140331728	140331728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggctctcaccagcctgtGcagcattagaagtgtaggag	10	8	13	10	0	1	1	1	0	1	1	2	2	1	2	2	2	3	5	2	2	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:140331728G>A	uc004cmw.2	-	4	462	c.278C>T	c.(277-279)GCA>GTA	p.A93V	C9orf167_uc011mew.1_Intron|ENTPD8_uc004cmx.2_Missense_Mutation_p.A93V|ENTPD8_uc004cmy.2_Missense_Mutation_p.A93V	NM_001033113	NP_001028285	Q5MY95	ENTP8_HUMAN	ectonucleoside triphosphate diphosphohydrolase 8	93	Extracellular (Potential).					integral to membrane|plasma membrane	ATP binding			skin(1)	1	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000224)|Epithelial(140;0.000898)		ACCAGCCTGTGCAGCATTAGA	0.642													8	51					0	0	1	0	0		A	140331728	A	A	140331728	3	1	16	1	0	0	0	0	1	0	0	0	5153	1319	46	2	1237	2	ENTPD8	9	140331728	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	252360	140331728	881703	699	12374											
NELF	26012	broad.mit.edu	37	chr9	140347017	140347017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacataccaaggatgtcctCgaaggttgcgtgctcatggt	9	10	12	10	2	1	0	1	0	0	0	3	2	2	1	2	3	3	3	2	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:140347017C>T	uc004cna.2	-	11	1385	c.1153G>A	c.(1153-1155)GAG>AAG	p.E385K	C9orf167_uc011mew.1_Intron|NELF_uc011mex.1_Missense_Mutation_p.E182K|NELF_uc010nci.2_Missense_Mutation_p.E129K|NELF_uc011mey.1_RNA|NELF_uc011mez.1_Missense_Mutation_p.E362K|NELF_uc004cmz.2_Missense_Mutation_p.E383K|NELF_uc004cnc.2_Missense_Mutation_p.E360K|NELF_uc004cnb.2_Missense_Mutation_p.E355K	NM_001130969	NP_001124441	Q6X4W1	NELF_HUMAN	nasal embryonic LHRH factor isoform a	385						nucleus|plasma membrane					0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000222)|Epithelial(140;0.000888)		AGGATGTCCTCGAAGGTTGCG	0.657													15	43					0	0	1	0	0		T	140347017	T	T	140347017	3	4	16	1	0	0	0	0	1	0	0	0	10351	893	31	1	463	1	NELF	9	140347017	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	15289	140347017	866414	700	12375											
PNPLA7	375775	broad.mit.edu	37	chr9	140392668	140392668	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagtgtgcgccacacccAggacgacggtcggctgcttc	7	6	12	16	4	0	0	0	0	0	0	2	2	0	1	3	3	2	2	3	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:140392668A>G	uc004cnf.2	-	16	2049	c.1712T>C	c.(1711-1713)CTG>CCG	p.L571P	C9orf167_uc011mew.1_Intron|PNPLA7_uc011mfa.1_Intron|PNPLA7_uc010ncj.1_Missense_Mutation_p.L596P	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	571	cNMP 2.				lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		CGCCACACCCAGGACGACGGT	0.637													13	54					0	0	1	0	0		G	140392668	G	G	140392668	3	3	16	1	0	0	0	0	1	0	0	0	12189	188	7	3	2317	3	PNPLA7	9	140392668	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	45651	140392668	820763	701	12376											
EHMT1	79813	broad.mit.edu	37	chr9	140676805	140676805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgctctccactgcacgccGcggcagaggctggacacgtg	7	5	14	15	5	1	1	0	0	1	1	2	2	1	2	2	3	2	4	2	3	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:140676805G>A	uc011mfc.1	+	15	2375	c.2338G>A	c.(2338-2340)GCG>ACG	p.A780T	EHMT1_uc004coa.2_Missense_Mutation_p.A780T|EHMT1_uc004cob.1_Missense_Mutation_p.A749T	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	780	ANK 2.				DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		ACTGCACGCCGCGGCAGAGGC	0.522													4	11					0	0	1	0	0		A	140676805	A	A	140676805	3	1	16	1	0	0	0	0	1	0	0	0	4989	1087	38	1	2396	1	EHMT1	9	140676805	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	284137	140676805	536626	702	12377											
CACNA1B	774	broad.mit.edu	37	chr9	140772539	140772539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaagcaatcgatcgcgcagCgcgcgcggaccatggcgctg	9	4	14	14	8	0	0	0	0	0	0	2	2	0	1	1	2	2	3	1	2	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr9:140772539C>T	uc004cog.2	+	1	299	c.154C>T	c.(154-156)CGC>TGC	p.R52C	uc004cof.1_Intron	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	52	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	GATCGCGCAGCGCGCGCGGAC	0.463													5	17					0	0	1	0	0		T	140772539	T	T	140772539	3	4	16	1	0	0	0	0	1	0	0	0	2542	768	27	1	156	1	CACNA1B	9	140772539	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	95734	140772539	440892	703	12378											
LARP4B	23185	broad.mit.edu	37	chr10	890939	890939	+	Frame_Shift_Del	DEL	T	-	-																															agataagcagaattccaatgTttttttaagtacttctcggg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:890939delT	uc001ifs.1	-	5	528	c.487delA	c.(487-489)ACAfs	p.T163fs		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	163	HTH La-type RNA-binding.						nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						AATTCCAATGTTTTTTTAAGT	0.353													65	28	---	---	---	---						.	-	890939	-	-	890939	7	5	16	1	0	1	0	1	0	0	0	0	8647	1725	60	0	1781	0	LARP4B	10	890939	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08		890939	134643808	704	12379											
PFKP	5214	broad.mit.edu	37	chr10	3155672	3155672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacggccacaggatgctcGccatctatgatggctttgac	8	9	11	13	3	1	2	0	2	1	0	2	4	1	3	3	3	1	2	3	3	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:3155672G>A	uc001igp.2	+	13	1369	c.1333G>A	c.(1333-1335)GCC>ACC	p.A445T	PFKP_uc001igq.2_Missense_Mutation_p.A437T|PFKP_uc009xhr.2_Missense_Mutation_p.A407T|PFKP_uc009xhs.1_Missense_Mutation_p.A229T|PFKP_uc009xht.2_Missense_Mutation_p.A183T|PFKP_uc009xhu.2_5'UTR	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	445					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		CAGGATGCTCGCCATCTATGA	0.642													12	5					0	0	1	0	0		A	3155672	A	A	3155672	3	1	16	1	0	0	0	0	1	0	0	0	11785	1087	38	1	1383	1	PFKP	10	3155672	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2264733	3155672	132379075	705	12380											
ITIH5	80760	broad.mit.edu	37	chr10	7608295	7608295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgaggatggtgatagtgCgcaagtaagtgcgctgtttc	9	12	15	5	2	0	3	0	3	0	0	1	4	0	4	0	2	2	4	0	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:7608295C>T	uc001ijq.2	-	13	2304	c.2225G>A	c.(2224-2226)CGC>CAC	p.R742H	ITIH5_uc001ijp.2_Missense_Mutation_p.R528H	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	742					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						GGTGATAGTGCGCAAGTAAGT	0.532													5	29					0	0	1	0	0		T	7608295	T	T	7608295	3	4	16	1	0	0	0	0	1	0	0	0	7923	768	27	1	653	1	ITIH5	10	7608295	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4452623	7608295	127926452	706	12381											
ITIH5	80760	broad.mit.edu	37	chr10	7627891	7627891	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtgacatatggtgaatgtAcactttcccatccctgatgc	9	12	10	10	0	0	3	0	3	0	0	2	3	2	3	2	2	2	1	2	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:7627891A>T	uc001ijq.2	-	8	1160	c.1081T>A	c.(1081-1083)TAC>AAC	p.Y361N	ITIH5_uc001ijp.2_Missense_Mutation_p.Y147N|ITIH5_uc001ijr.1_Missense_Mutation_p.Y361N	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	361	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						TGGTGAATGTACACTTTCCCA	0.383													6	49					0	0	1	0	0		T	7627891	T	T	7627891	3	4	16	1	0	0	0	0	1	0	0	0	7923	391	14	5	1898	5	ITIH5	10	7627891	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	19596	7627891	127906856	707	12382											
UPF2	26019	broad.mit.edu	37	chr10	11990443	11990443	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccccaccttcttcttcttcTtcatcctcttcaagattttc	5	18	2	16	0	7	1	2	0	5	1	9	1	8	1	4	0	0	0	4	0	1	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:11990443T>A	uc001ila.2	-	15	3573	c.3099A>T	c.(3097-3099)GAA>GAT	p.E1033D	UPF2_uc001ilb.2_Missense_Mutation_p.E1033D|UPF2_uc001ilc.2_Missense_Mutation_p.E1033D	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	1033	Glu-rich.|Sufficient for interaction with EIF4A1 and EIF1.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				cttcttcttcttcatcctctt	0.154													29	15					0	0	1	0	0		A	11990443	A	A	11990443	3	1	16	1	0	0	0	0	1	0	0	0	17030	1606	56	5	747	5	UPF2	10	11990443	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	4362552	11990443	123544304	708	12383											
UPF2	26019	broad.mit.edu	37	chr10	12070898	12070898	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcaaattaaacttctctgCagcactctttactttccttg	10	16	3	12	0	3	0	1	0	2	0	5	0	4	0	1	0	4	2	1	0	4	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:12070898C>T	uc001ila.2	-	2	1465	c.991G>A	c.(991-993)GCA>ACA	p.A331T	UPF2_uc001ilb.2_Missense_Mutation_p.A331T|UPF2_uc001ilc.2_Missense_Mutation_p.A331T|UPF2_uc009xiz.1_Missense_Mutation_p.A331T	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	331	MIF4G 1.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				AACTTCTCTGCAGCACTCTTT	0.403													5	110					0	0	1	0	0		T	12070898	T	T	12070898	3	4	16	1	0	0	0	0	1	0	0	0	17030	710	25	2	2907	2	UPF2	10	12070898	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	80455	12070898	123463849	709	12384											
CUBN	8029	broad.mit.edu	37	chr10	16893340	16893340	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtgcaattatgatccatAcacagtttaaattcttgtca	13	14	6	8	0	2	1	1	1	1	0	3	1	3	1	1	1	2	2	1	1	5	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:16893340A>G	uc001ioo.2	-	60	9609	c.9557T>C	c.(9556-9558)GTA>GCA	p.V3186A	CUBN_uc009xjq.1_RNA	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3186	CUB 24.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TATGATCCATACACAGTTTAA	0.398													8	53					0	0	1	0	0		G	16893340	G	G	16893340	3	3	16	1	0	0	0	0	1	0	0	0	4054	391	14	3	1346	3	CUBN	10	16893340	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	4822442	16893340	118641407	710	12385											
CUBN	8029	broad.mit.edu	37	chr10	17147455	17147455	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaaaaacaaaggactcaCgatgcattgtccatttagac	16	8	8	9	1	1	1	1	0	0	1	2	4	2	3	1	2	2	1	1	2	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:17147455C>T	uc001ioo.2	-	11	1282	c.1230_splice	c.e11+1	p.I410_splice		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor						cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AAAGGACTCACGATGCATTGT	0.418													35	80					0	0	1	0	0		T	17147455	T	T	17147455	5	4	16	1	0	0	0	0	0	0	1	0	4054	550	19	1	9868	1	CUBN	10	17147455	Splice_Site	SNP	C	TCGA-BR-4292-01A-01D-1126-08	254115	17147455	118387292	711	12386											
VIM	7431	broad.mit.edu	37	chr10	17278320	17278320	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggattcactccctctggTtgatacccactcaaaaagga	11	11	7	12	0	4	1	2	1	2	0	5	3	5	3	2	3	1	1	2	3	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:17278320T>C	uc001iou.2	+	9	1714	c.1301T>C	c.(1300-1302)GTT>GCT	p.V434A	VIM_uc001iov.1_Intron|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.V434A|VIM_uc001ioy.1_Missense_Mutation_p.V347A|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.V392A|VIM_uc001ipc.1_Intron	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	434	Tail.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						CTCCCTCTGGTTGATACCCAC	0.363													67	134					0	0	1	0	0		C	17278320	C	C	17278320	3	2	16	1	0	0	0	0	1	0	0	0	17192	1725	60	3	1331	3	VIM	10	17278320	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	130865	17278320	118256427	712	12387											
ARHGAP21	57584	broad.mit.edu	37	chr10	24908581	24908581	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgatgccttaaaggctgcGgtgtctggcgtccagatgga	8	10	14	9	2	1	2	0	1	1	1	2	3	2	3	2	4	2	1	2	4	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:24908581G>T	uc001isb.2	-	9	2730	c.2243C>A	c.(2242-2244)CCG>CAG	p.P748Q	ARHGAP21_uc010qdb.1_RNA|ARHGAP21_uc009xkl.1_Missense_Mutation_p.P748Q|ARHGAP21_uc010qdc.1_Missense_Mutation_p.P583Q|ARHGAP21_uc001isc.1_Missense_Mutation_p.P738Q	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	747					signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						TAAAGGCTGCGGTGTCTGGCG	0.473													42	69					1.61004e-24	1.76211e-24	1	1	0		T	24908581	T	T	24908581	3	4	16	1	0	0	0	0	1	0	0	0	871	1116	39	5	3705	5	ARHGAP21	10	24908581	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	7630261	24908581	110626166	713	12388											
GPR158	57512	broad.mit.edu	37	chr10	25887748	25887748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcagcaatccaatcagaagCgcatagataaggctgaagta	16	7	10	8	1	2	3	2	1	0	2	3	3	3	3	1	1	2	4	1	1	7	3	rs146528842		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:25887748C>T	uc001isj.2	+	11	3253	c.3193C>T	c.(3193-3195)CGC>TGC	p.R1065C	GPR158_uc001isk.2_Missense_Mutation_p.R440C	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1065	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						CAATCAGAAGCGCATAGATAA	0.458													33	74					0	0	1	0	0		T	25887748	T	T	25887748	3	4	16	1	0	0	0	0	1	0	0	0	6678	768	27	1	3235	1	GPR158	10	25887748	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	979167	25887748	109646999	714	12389											
MASTL	84930	broad.mit.edu	37	chr10	27459254	27459254	+	Frame_Shift_Del	DEL	A	-	-																															tggttgactccagtccttgtAaaaaaattatacagaataaa																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:27459254delA	uc001itm.2	+	8	2005	c.1366delA	c.(1366-1368)AAAfs	p.K456fs	MASTL_uc001itl.2_Frame_Shift_Del_p.K456fs|MASTL_uc009xkw.1_Frame_Shift_Del_p.K456fs|MASTL_uc009xkx.1_RNA	NM_032844	NP_116233	Q96GX5	GWL_HUMAN	microtubule associated serine/threonine	456	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|mitosis|negative regulation of protein phosphatase type 2A activity|regulation of cell cycle|response to DNA damage stimulus	centrosome|cleavage furrow|nucleus	ATP binding|protein phosphatase 2A binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						CAGTCCTTGTAAAAAAATTAT	0.338													18	38	---	---	---	---						.	-	27459254	-	-	27459254	7	5	16	1	0	1	0	1	0	0	0	0	9346	363	13	0	1396	0	MASTL	10	27459254	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	1571506	27459254	108075493	715	12390											
SVIL	6840	broad.mit.edu	37	chr10	29839766	29839766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatgttcagcagcacctccGggtcggaagagccgtcaccc	8	7	11	15	3	2	1	2	0	0	1	4	2	3	2	4	2	3	3	4	2	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:29839766G>A	uc001iut.1	-	6	1340	c.587C>T	c.(586-588)CCG>CTG	p.P196L	SVIL_uc001iuu.1_Missense_Mutation_p.P196L|SVIL_uc009xld.1_Missense_Mutation_p.P196L	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	196					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				CAGCACCTCCGGGTCGGAAGA	0.612													24	50					0	0	1	0	0		A	29839766	A	A	29839766	3	1	16	1	0	0	0	0	1	0	0	0	15446	1116	39	1	6189	1	SVIL	10	29839766	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2380512	29839766	105694981	716	12391											
EPC1	80314	broad.mit.edu	37	chr10	32581920	32581920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcaaattcacttacttttCgagtctgcattttttcagta	9	19	4	9	1	4	0	3	0	1	0	5	1	4	0	0	0	2	2	0	0	3	9			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:32581920C>T	uc001iwg.1	-	4	932	c.662G>A	c.(661-663)CGA>CAA	p.R221Q	EPC1_uc001iwi.3_Missense_Mutation_p.R171Q|EPC1_uc009xlt.2_Missense_Mutation_p.R171Q|EPC1_uc001iwh.1_Missense_Mutation_p.R221Q	NM_025209	NP_079485	Q9H2F5	EPC1_HUMAN	enhancer of polycomb 1	221					histone H2A acetylation|histone H4 acetylation|negative regulation of gene expression, epigenetic|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear membrane|Piccolo NuA4 histone acetyltransferase complex				ovary(3)|central_nervous_system(1)	4		Prostate(175;0.0199)				ACTTACTTTTCGAGTCTGCAT	0.289													20	22					0	0	1	0	0		T	32581920	T	T	32581920	3	4	16	1	0	0	0	0	1	0	0	0	5168	884	31	1	1896	1	EPC1	10	32581920	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2742154	32581920	102952827	717	12392											
ZNF33A	7581	broad.mit.edu	37	chr10	38344404	38344404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatgtggaaaatccttccGtgtgacttcgcaccttaaag	11	12	9	9	2	0	2	0	2	0	0	3	3	2	3	3	1	0	1	3	1	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:38344404G>A	uc001izh.2	+	5	1527	c.1349G>A	c.(1348-1350)CGT>CAT	p.R450H	ZNF33A_uc001izg.2_Missense_Mutation_p.R451H|ZNF33A_uc010qev.1_Missense_Mutation_p.R457H|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	450	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						AAATCCTTCCGTGTGACTTCG	0.408													24	47					0	0	1	0	0		A	38344404	A	A	38344404	3	1	16	1	0	0	0	0	1	0	0	0	17879	1145	40	1	1366	1	ZNF33A	10	38344404	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	5762484	38344404	97190343	718	12393											
SLC18A3	6572	broad.mit.edu	37	chr10	50819067	50819067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaatgccagcgcctacaCggccaacacctcggcgtccc	8	4	10	19	4	0	0	0	0	0	0	2	0	1	0	6	3	4	0	6	3	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:50819067C>T	uc001jhw.2	+	1	721	c.281C>T	c.(280-282)ACG>ATG	p.T94M	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	94	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						AGCGCCTACACGGCCAACACC	0.726													7	14					0	0	1	0	0		T	50819067	T	T	50819067	3	4	16	1	0	0	0	0	1	0	0	0	14452	536	19	1	283	1	SLC18A3	10	50819067	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	12474663	50819067	84715680	719	12394											
PCDH15	65217	broad.mit.edu	37	chr10	55782869	55782869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcactgctgtgtaaatgCtcccattggatgtgatacga	9	13	10	9	1	1	1	1	1	0	0	2	3	2	2	1	1	3	4	1	1	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:55782869C>T	uc001jju.1	-	19	2704	c.2309G>A	c.(2308-2310)AGC>AAC	p.S770N	PCDH15_uc010qhq.1_Missense_Mutation_p.S775N|PCDH15_uc010qhr.1_Missense_Mutation_p.S770N|PCDH15_uc010qhs.1_Missense_Mutation_p.S782N|PCDH15_uc010qht.1_Missense_Mutation_p.S777N|PCDH15_uc010qhu.1_Missense_Mutation_p.S770N|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.S770N|PCDH15_uc010qhw.1_Missense_Mutation_p.S733N|PCDH15_uc010qhx.1_Missense_Mutation_p.S699N|PCDH15_uc010qhy.1_Missense_Mutation_p.S775N|PCDH15_uc010qhz.1_Missense_Mutation_p.S770N|PCDH15_uc010qia.1_Missense_Mutation_p.S748N|PCDH15_uc010qib.1_Missense_Mutation_p.S748N|PCDH15_uc001jjw.2_Missense_Mutation_p.S770N	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	770	Extracellular (Potential).|Cadherin 7.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TGTGTAAATGCTCCCATTGGA	0.403										HNSCC(58;0.16)			24	56					0	0	1	0	0		T	55782869	T	T	55782869	3	4	16	1	0	0	0	0	1	0	0	0	11530	797	28	2	5237	2	PCDH15	10	55782869	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4963802	55782869	79751878	720	12395											
FAM13C	220965	broad.mit.edu	37	chr10	61029761	61029761	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcgtggcgacagcagtgggTtatcaccatcagtgatgtga	10	10	13	8	2	2	2	2	2	0	0	3	3	2	2	1	2	1	2	1	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:61029761T>G	uc001jkn.2	-	8	835	c.701A>C	c.(700-702)AAC>ACC	p.N234T	FAM13C_uc001jko.2_Missense_Mutation_p.N234T|FAM13C_uc010qid.1_Missense_Mutation_p.N151T|FAM13C_uc010qie.1_Missense_Mutation_p.N151T|FAM13C_uc010qif.1_Missense_Mutation_p.N256T|FAM13C_uc001jkp.2_Missense_Mutation_p.N151T	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	234										ovary(2)	2						CAGCAGTGGGTTATCACCATC	0.552													15	27					0	0	1	0	0		G	61029761	G	G	61029761	3	3	16	1	0	0	0	0	1	0	0	0	5465	1725	60	5	1088	5	FAM13C	10	61029761	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	5246892	61029761	74504986	721	12396											
ANK3	288	broad.mit.edu	37	chr10	61835974	61835974	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaactgaagatgtagttgaCgcgcctaatgtggatttgat	11	14	11	5	2	0	4	0	3	0	1	0	5	0	5	1	1	1	2	1	1	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:61835974C>T	uc001jky.2	-	37	4857	c.4665G>A	c.(4663-4665)GCG>GCA	p.A1555A	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1555	Ser-rich.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						ATGTAGTTGACGCGCCTAATG	0.418													71	148					0	0	1	0	0		T	61835974	T	T	61835974	2	4	16	1	0	0	0	0	0	0	0	1	622	523	19	1		1	ANK3	10	61835974	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	806213	61835974	73698773	722	12397											
SIRT1	23411	broad.mit.edu	37	chr10	69676036	69676036	+	Frame_Shift_Del	DEL	T	-	-																															tttcaggtaatcagtatctgTttttgccaccaaatcgttac																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:69676036delT	uc001jnd.2	+	9	1983	c.1930delT	c.(1930-1932)TTTfs	p.F644fs	SIRT1_uc010qis.1_Frame_Shift_Del_p.F349fs|SIRT1_uc009xpp.2_Frame_Shift_Del_p.F452fs|SIRT1_uc001jne.2_Frame_Shift_Del_p.F341fs	NM_012238	NP_036370	Q96EB6	SIRT1_HUMAN	sirtuin 1 isoform a	644					apoptosis|cell aging|cellular response to hydrogen peroxide|cellular response to starvation|chromatin silencing at rDNA|DNA repair|DNA replication|establishment of chromatin silencing|histone H3 deacetylation|interspecies interaction between organisms|maintenance of chromatin silencing|muscle organ development|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of fat cell differentiation|negative regulation of helicase activity|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine acetylation|peptidyl-lysine deacetylation|positive regulation of anti-apoptosis|positive regulation of chromatin silencing|positive regulation of DNA repair|regulation of apoptosis|regulation of cell proliferation|regulation of endodeoxyribonuclease activity|regulation of protein import into nucleus, translocation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|rRNA processing|transcription, DNA-dependent|triglyceride mobilization|white fat cell differentiation	chromatin silencing complex|cytoplasm|nuclear euchromatin|nuclear heterochromatin|nuclear inner membrane|nucleolus|PML body|rDNA heterochromatin	bHLH transcription factor binding|histone binding|HLH domain binding|identical protein binding|mitogen-activated protein kinase binding|NAD+ binding|NAD-dependent histone deacetylase activity (H3-K9 specific)|p53 binding|protein C-terminus binding|transcription corepressor activity|zinc ion binding				0						TCAGTATCTGTTTTTGCCACC	0.393													35	77	---	---	---	---						.	-	69676036	-	-	69676036	7	5	16	1	0	1	0	1	0	0	0	0	14362	1725	60	0	1964	0	SIRT1	10	69676036	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	7840062	69676036	65858711	723	12398											
MYPN	84665	broad.mit.edu	37	chr10	69881820	69881822	+	In_Frame_Del	DEL	TCT	-	-																															tgtcagaaagacgagaaagaTcttctgttcccatccctatc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:69881820_69881822delTCT	uc001jnm.3	+	3	810_812	c.625_627delTCT	c.(625-627)TCTdel	p.S210del	MYPN_uc001jnl.1_In_Frame_Del_p.S210del|MYPN_uc001jnn.3_Intron|MYPN_uc001jno.3_In_Frame_Del_p.S210del|MYPN_uc001jnp.1_In_Frame_Del_p.S210del|MYPN_uc009xps.2_In_Frame_Del_p.S210del|MYPN_uc009xpt.2_In_Frame_Del_p.S210del|MYPN_uc010qit.1_5'UTR|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	210	Interaction with CARP.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						ACGAGAAAGATCTTCTGTTCCCA	0.488													27	53	---	---	---	---						.	-	69881822	-	-	69881820	7	5	16	1	0	1	0	1	0	0	0	0	10116	1435	50	0	627	0	MYPN	10	69881820	In_Frame_Del	DEL	TCT	TCGA-BR-4292-01A-01D-1126-08	205784	69881820	65652927	724	12399											
TET1	80312	broad.mit.edu	37	chr10	70450964	70450964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgtgactgagccgctaaCgcctcatcagccaaaccacc	10	7	9	15	2	2	2	2	2	0	0	2	2	2	2	5	1	4	1	5	1	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:70450964C>T	uc001jok.3	+	12	6309	c.5804C>T	c.(5803-5805)ACG>ATG	p.T1935M		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1935					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						GAGCCGCTAACGCCTCATCAG	0.552													44	55					0	0	1	0	0		T	70450964	T	T	70450964	3	4	16	1	0	0	0	0	1	0	0	0	15794	536	19	1	5846	1	TET1	10	70450964	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	569144	70450964	65083783	725	12400											
SRGN	5552	broad.mit.edu	37	chr10	70856875	70856875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagccaggtaccaatgggtgCgctgcaatccagacagtaat	12	7	12	10	1	0	1	0	0	0	1	1	2	1	1	3	2	4	4	3	2	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:70856875C>T	uc001joz.2	+	2	201	c.115C>T	c.(115-117)CGC>TGC	p.R39C		NM_002727	NP_002718	P10124	SRGN_HUMAN	serglycin precursor	39					apoptosis|biomineral tissue development|maintenance of granzyme B location in T cell secretory granule|maintenance of protease location in mast cell secretory granule|negative regulation of bone mineralization|negative regulation of cytokine secretion|platelet activation|platelet degranulation|protein maturation by peptide bond cleavage	extracellular space|mast cell granule|platelet alpha granule lumen					0						CCAATGGGTGCGCTGCAATCC	0.483													20	35					0	0	1	0	0		T	70856875	T	T	70856875	3	4	16	1	0	0	0	0	1	0	0	0	15173	768	27	1	121	1	SRGN	10	70856875	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	405911	70856875	64677872	726	12401											
HK1	3098	broad.mit.edu	37	chr10	71124621	71124621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagttacctgtgggattcaCgttttcttttccttgccaac	7	16	8	10	1	2	0	1	0	1	0	3	2	3	1	3	1	3	2	3	1	3	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:71124621C>T	uc001jpl.3	+	4	559	c.458C>T	c.(457-459)ACG>ATG	p.T153M	HK1_uc001jpg.3_Missense_Mutation_p.T141M|HK1_uc001jph.3_Missense_Mutation_p.T157M|HK1_uc001jpi.3_Missense_Mutation_p.T157M|HK1_uc001jpj.3_Missense_Mutation_p.T188M|HK1_uc001jpk.3_Missense_Mutation_p.T152M|HK1_uc009xqd.2_Missense_Mutation_p.T31M	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	153	Regulatory.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						GTGGGATTCACGTTTTCTTTT	0.453													14	47					0	0	1	0	0		T	71124621	T	T	71124621	3	4	16	1	0	0	0	0	1	0	0	0	7206	536	19	1	650	1	HK1	10	71124621	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	267746	71124621	64410126	727	12402											
HK1	3098	broad.mit.edu	37	chr10	71142254	71142254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccataaggtattcccggcGtttccacaagactctaaggc	10	9	8	14	2	1	1	0	0	1	1	3	1	3	1	4	3	0	2	4	3	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:71142254G>A	uc001jpl.3	+	10	1378	c.1277G>A	c.(1276-1278)CGT>CAT	p.R426H	HK1_uc001jpg.3_Missense_Mutation_p.R414H|HK1_uc001jph.3_Missense_Mutation_p.R430H|HK1_uc001jpi.3_Missense_Mutation_p.R430H|HK1_uc001jpj.3_Missense_Mutation_p.R461H|HK1_uc001jpk.3_Missense_Mutation_p.R425H|HK1_uc009xqd.2_Missense_Mutation_p.R304H	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	426	ATP 1.|Regulatory.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						TATTCCCGGCGTTTCCACAAG	0.592													30	40					0	0	1	0	0		A	71142254	A	A	71142254	3	1	16	1	0	0	0	0	1	0	0	0	7206	1145	40	1	1493	1	HK1	10	71142254	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	17633	71142254	64392493	728	12403											
CDH23	64072	broad.mit.edu	37	chr10	73491893	73491893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgtgtcggccactgaccagGccccgcccttcaaccagggc	7	6	11	17	2	1	1	1	1	0	0	2	1	1	1	6	3	1	0	6	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:73491893G>A	uc001jrx.3	+	31	4242	c.3865G>A	c.(3865-3867)GCC>ACC	p.A1289T	CDH23_uc001jrz.2_Missense_Mutation_p.A905T|C10orf105_uc001jsb.1_Intron|CDH23_uc001jsc.1_Missense_Mutation_p.A97T	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1289	Cadherin 12.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CACTGACCAGGCCCCGCCCTT	0.552													11	33					0	0	1	0	0		A	73491893	A	A	73491893	3	1	16	1	0	0	0	0	1	0	0	0	3111	1203	42	2	4294	2	CDH23	10	73491893	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2349639	73491893	62042854	729	12404											
CDH23	64072	broad.mit.edu	37	chr10	73572286	73572286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggaacctggagctggccGcccaggcggagcatgaggat	8	5	17	11	3	0	1	0	1	0	0	1	5	0	5	3	6	3	2	3	6	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:73572286G>A	uc001jrx.3	+	65	9807	c.9430G>A	c.(9430-9432)GCC>ACC	p.A3144T	CDH23_uc001jsg.3_Missense_Mutation_p.A904T|CDH23_uc001jsh.3_Missense_Mutation_p.A904T|CDH23_uc001jsi.3_Missense_Mutation_p.A904T|CDH23_uc001jsj.3_Missense_Mutation_p.A41T|CDH23_uc010qjr.1_Missense_Mutation_p.A41T	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	3144	Cytoplasmic (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GGAGCTGGCCGCCCAGGCGGA	0.642													25	45					0	0	1	0	0		A	73572286	A	A	73572286	3	1	16	1	0	0	0	0	1	0	0	0	3111	1087	38	1	10112	1	CDH23	10	73572286	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	80393	73572286	61962461	730	12405											
ZMIZ1	57178	broad.mit.edu	37	chr10	80968205	80968205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcctgatgggctgtttgaCggtgagtctgcaccctgtcc	5	11	14	11	1	1	3	0	3	1	0	2	4	2	3	3	2	2	3	3	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:80968205C>T	uc001kaf.2	+	6	745	c.173C>T	c.(172-174)ACG>ATG	p.T58M	ZMIZ1_uc001kae.2_Missense_Mutation_p.T58M	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	58					transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			GGCTGTTTGACGGTGAGTCTG	0.622													5	10					0	0	1	0	0		T	80968205	T	T	80968205	3	4	16	1	0	0	0	0	1	0	0	0	17721	550	19	1	179	1	ZMIZ1	10	80968205	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7395919	80968205	54566542	731	12406											
CDHR1	92211	broad.mit.edu	37	chr10	85968128	85968128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatcaccgtcaatgactccGaccaggtgtgtggtcctgcc	8	9	11	13	2	2	2	2	1	0	1	4	3	4	2	5	2	1	0	5	2	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:85968128G>A	uc001kcv.2	+	11	1162	c.1162G>A	c.(1162-1164)GAC>AAC	p.D388N	CDHR1_uc001kcw.2_Missense_Mutation_p.D388N|CDHR1_uc009xst.2_Missense_Mutation_p.D147N	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	388	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						CAATGACTCCGACCAGGTGTG	0.572													14	28					0	0	1	0	0		A	85968128	A	A	85968128	3	1	16	1	0	0	0	0	1	0	0	0	3121	1058	37	1	1204	1	CDHR1	10	85968128	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4999923	85968128	49566619	732	12407											
CDHR1	92211	broad.mit.edu	37	chr10	85970853	85970853	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgacaatgtccccaagttcGactccctctactacgttgcc	9	11	6	15	2	1	1	0	1	1	0	4	2	3	1	4	0	3	2	4	0	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:85970853G>A	uc001kcv.2	+	13	1417	c.1417G>A	c.(1417-1419)GAC>AAC	p.D473N	CDHR1_uc001kcw.2_Missense_Mutation_p.D473N|CDHR1_uc009xst.2_Intron|CDHR1_uc001kcx.2_5'Flank	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	473	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						CCCCAAGTTCGACTCCCTCTA	0.592													25	70					0	0	1	0	0		A	85970853	A	A	85970853	3	1	16	1	0	0	0	0	1	0	0	0	3121	1058	37	1	1467	1	CDHR1	10	85970853	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2725	85970853	49563894	733	12408											
LDB3	11155	broad.mit.edu	37	chr10	88428474	88428474	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttacagtgtgaccctgactgGgcccgggccctggggcttcc	4	9	14	14	1	0	2	0	2	0	0	1	2	1	2	4	4	1	1	4	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:88428474G>T	uc001kdv.2	+	1	49	c.26G>T	c.(25-27)GGG>GTG	p.G9V	LDB3_uc010qml.1_Missense_Mutation_p.G9V|LDB3_uc010qmm.1_Missense_Mutation_p.G9V|LDB3_uc001kdu.2_Missense_Mutation_p.G9V|LDB3_uc009xsz.2_5'UTR|LDB3_uc001kdr.2_Missense_Mutation_p.G9V|LDB3_uc009xsy.2_Missense_Mutation_p.G9V|LDB3_uc001kds.2_Missense_Mutation_p.G9V|LDB3_uc001kdt.2_RNA	NM_007078	NP_009009	O75112	LDB3_HUMAN	LIM domain binding 3 isoform 1	9	PDZ.					cytoskeleton|perinuclear region of cytoplasm|pseudopodium	zinc ion binding			ovary(1)	1						ACCCTGACTGGGCCCGGGCCC	0.642													19	27					1.50039e-11	1.58656e-11	1	1	0		T	88428474	T	T	88428474	3	4	16	1	0	0	0	0	1	0	0	0	8713	1232	43	5	28	5	LDB3	10	88428474	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2457621	88428474	47106273	734	12409											
MMRN2	79812	broad.mit.edu	37	chr10	88703011	88703011	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccagggcacgcgtggcGtccctctggccctcccggat	3	8	12	18	4	1	0	0	0	1	0	5	1	5	1	5	4	0	1	5	4	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:88703011G>A	uc001kea.2	-	6	1657	c.1530C>T	c.(1528-1530)GAC>GAT	p.D510D	MMRN2_uc010qmn.1_Silent_p.D153D|MMRN2_uc009xtb.2_Silent_p.D467D	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	510						extracellular space				large_intestine(1)	1						CACGCGTGGCGTCCCTCTGGC	0.652													8	23					0	0	1	0	0		A	88703011	A	A	88703011	2	1	16	1	0	0	0	0	0	0	0	1	9689	1136	40	1		1	MMRN2	10	88703011	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	274537	88703011	46831736	735	12410											
AGAP11	119385	broad.mit.edu	37	chr10	88768422	88768422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgggaaatggctgaagaCatggaaaaagaaatatgtca	19	7	12	3	0	1	3	1	1	0	2	1	5	1	5	0	3	0	1	0	3	7	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:88768422C>T	uc001kee.2	+	12	1617	c.413C>T	c.(412-414)ACA>ATA	p.T138I	AGAP11_uc001kef.2_Intron	NM_133447	NP_597704	Q8TF27	AGA11_HUMAN	ankyrin repeat and GTPase domain Arf GTPase	138	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						TGGCTGAAGACATGGAAAAAG	0.448													106	261					0	0	1	0	0		T	88768422	T	T	88768422	3	4	16	1	0	0	0	0	1	0	0	0	367	478	17	4	427	4	AGAP11	10	88768422	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	65411	88768422	46766325	736	12411											
ANKRD22	118932	broad.mit.edu	37	chr10	90591679	90591679	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaagcacagatcaggggCgtgtctccattaaagccatc	11	8	10	12	1	2	1	1	0	1	1	4	1	2	1	2	2	3	2	2	2	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:90591679C>T	uc001kfj.3	-	2	494	c.126G>A	c.(124-126)ACG>ACA	p.T42T		NM_144590	NP_653191	Q5VYY1	ANR22_HUMAN	ankyrin repeat domain 22	42	ANK 1.										0		Colorectal(252;0.0163)		Colorectal(12;6.29e-05)|COAD - Colon adenocarcinoma(12;7.69e-05)		AGATCAGGGGCGTGTCTCCAT	0.483													90	169					0	0	1	0	0		T	90591679	T	T	90591679	2	4	16	1	0	0	0	0	0	0	0	1	651	755	27	1		1	ANKRD22	10	90591679	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1823257	90591679	44943068	737	12412											
ACTA2	59	broad.mit.edu	37	chr10	90701549	90701549	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagccacctaccagttgtGcgtccagaggcatagagaga	11	6	11	13	1	0	3	0	0	0	3	1	4	1	3	5	1	3	2	5	1	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:90701549G>A	uc001kfp.2	-	5	563	c.447C>T	c.(445-447)CGC>CGT	p.R149R	STAMBPL1_uc010qmx.1_Intron|ACTA2_uc010qmy.1_Silent_p.R104R|ACTA2_uc001kfq.2_Silent_p.R149R	NM_001613	NP_001604	P62736	ACTA_HUMAN	alpha 2 actin	149			R -> C (in AAT6).		response to virus	cytosol	ATP binding				0		Colorectal(252;0.0161)		Colorectal(12;0.000123)|COAD - Colon adenocarcinoma(12;0.00018)		TACCAGTTGTGCGTCCAGAGG	0.542													12	31					0	0	1	0	0		A	90701549	A	A	90701549	2	1	16	1	0	0	0	0	0	0	0	1	192	1306	46	2		2	ACTA2	10	90701549	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	109870	90701549	44833198	738	12413											
KIF20B	9585	broad.mit.edu	37	chr10	91483767	91483767	+	Frame_Shift_Del	DEL	A	-	-																															gaaaaaaaaactgataaatgAaaaaaaggaaaaattaacct																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:91483767delA	uc001kgs.1	+	14	1841	c.1769delA	c.(1768-1770)GAAfs	p.E590fs	KIF20B_uc001kgr.1_Frame_Shift_Del_p.E590fs|KIF20B_uc001kgt.1_5'UTR	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	590	Potential.				cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						CTGATAAATGAAAAAAAGGAA	0.284													31	61	---	---	---	---						.	-	91483767	-	-	91483767	7	5	16	1	0	1	0	1	0	0	0	0	8303	246	9	0	1819	0	KIF20B	10	91483767	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	782218	91483767	44050980	739	12414											
KIF20B	9585	broad.mit.edu	37	chr10	91483813	91483813	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaaaattcgagaagaagtTacacaggagtttactcagta	16	12	8	5	1	1	2	1	0	0	2	2	4	1	3	0	1	2	3	0	1	7	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:91483813T>C	uc001kgs.1	+	14	1887	c.1815T>C	c.(1813-1815)GTT>GTC	p.V605V	KIF20B_uc001kgr.1_Silent_p.V605V|KIF20B_uc001kgt.1_5'UTR	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	605					cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						GAGAAGAAGTTACACAGGAGT	0.284													40	80					0	0	1	0	0		C	91483813	C	C	91483813	2	2	16	1	0	0	0	0	0	0	0	1	8303	1741	61	3		3	KIF20B	10	91483813	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	46	91483813	44050934	740	12415											
PCGF5	84333	broad.mit.edu	37	chr10	92982626	92982626	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccagtcttcactagccaCgaatggctacccaaaggaaa	15	6	8	12	1	2	0	1	0	1	0	2	2	2	1	3	2	3	1	3	2	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:92982626C>T	uc001khh.2	+	2	245	c.-2C>T	c.(-4-0)CACGA>CATGA		PCGF5_uc001khg.2_RNA|PCGF5_uc010qnk.1_Translation_Start_Site|PCGF5_uc001khi.2_Translation_Start_Site	NM_032373	NP_115749	Q86SE9	PCGF5_HUMAN	polycomb group ring finger 5						regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|PcG protein complex	zinc ion binding			lung(1)	1						TCACTAGCCACGAATGGCTAC	0.458													17	40					0	0	1	0	0		T	92982626	T	T	92982626	1	4	16	1	0	0	0	0	0	0	0	0	11596	551	19	1		1	PCGF5	10	92982626	Translation_Start_Site	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1498813	92982626	42552121	741	12416											
BTAF1	9044	broad.mit.edu	37	chr10	93744029	93744029	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaacatttatattatgaCgaaattgccgttccattcac	13	14	5	9	2	2	2	2	1	0	1	3	3	3	2	2	0	2	1	2	0	5	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:93744029C>T	uc001khr.2	+	19	2393	c.2295C>T	c.(2293-2295)GAC>GAT	p.D765D	BTAF1_uc001khs.1_Silent_p.D435D|BTAF1_uc001kht.1_Silent_p.D203D	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	765					negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				TATATTATGACGAAATTGCCG	0.348													10	32					0	0	1	0	0		T	93744029	T	T	93744029	2	4	16	1	0	0	0	0	0	0	0	1	1539	535	19	1		1	BTAF1	10	93744029	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	761403	93744029	41790718	742	12417											
MYOF	26509	broad.mit.edu	37	chr10	95069835	95069835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggataagcaggaacagcaagCcgatgatgacccacttaaag	16	5	11	9	1	0	2	0	2	0	0	0	5	0	4	2	2	4	2	2	2	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:95069835C>T	uc001kin.2	-	53	6212	c.6089G>A	c.(6088-6090)GGC>GAC	p.G2030D	MYOF_uc001kio.2_Missense_Mutation_p.G2017D|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	2030	Helical; (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						GAACAGCAAGCCGATGATGAC	0.542													18	33					0	0	1	0	0		T	95069835	T	T	95069835	3	4	16	1	0	0	0	0	1	0	0	0	10107	739	26	2	104	2	MYOF	10	95069835	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1325806	95069835	40464912	743	12418											
PDE6C	5146	broad.mit.edu	37	chr10	95394529	95394529	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagaaaggacctgtagaCgaaactggttgggtcattaa	13	11	12	5	1	1	2	1	0	0	2	1	4	1	3	1	3	1	3	1	3	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:95394529C>T	uc001kiu.3	+	9	1272	c.1134C>T	c.(1132-1134)GAC>GAT	p.D378D		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	378	GAF 2.				visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				GACCTGTAGACGAAACTGGTT	0.303													21	31					0	0	1	0	0		T	95394529	T	T	95394529	2	4	16	1	0	0	0	0	0	0	0	1	11666	535	19	1		1	PDE6C	10	95394529	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	324694	95394529	40140218	744	12419											
SORBS1	10580	broad.mit.edu	37	chr10	97096789	97096789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactgatcgtggggtgggaCgatctgaccaactcaaatgg	10	9	13	9	2	2	2	1	2	1	0	3	4	2	3	1	4	2	0	1	4	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:97096789C>T	uc001kkp.2	-	28	3173	c.3128G>A	c.(3127-3129)CGT>CAT	p.R1043H	SORBS1_uc001kkk.2_Intron|SORBS1_uc001kkl.2_Intron|SORBS1_uc001kkn.2_Intron|SORBS1_uc001kkm.2_Intron|SORBS1_uc001kko.2_Intron|SORBS1_uc001kkq.2_Intron|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_Intron|SORBS1_uc001kku.2_Intron|SORBS1_uc001kkv.2_Intron|SORBS1_uc001kkw.2_Missense_Mutation_p.R997H|SORBS1_uc010qoe.1_Intron	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	1043					focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		TGGGGTGGGACGATCTGACCA	0.562													22	48					0	0	1	0	0		T	97096789	T	T	97096789	3	4	16	1	0	0	0	0	1	0	0	0	14952	536	19	1	830	1	SORBS1	10	97096789	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1702260	97096789	38437958	745	12420											
ALDH18A1	5832	broad.mit.edu	37	chr10	97397115	97397115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacagaaggatctcatggcGcaagcgttgtttgccaaagg	12	8	13	8	2	1	2	1	0	1	2	2	3	1	3	1	3	2	3	1	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:97397115G>A	uc001kkz.2	-	4	624	c.382C>T	c.(382-384)CGC>TGC	p.R128C	ALDH18A1_uc001kky.2_Missense_Mutation_p.R128C|ALDH18A1_uc010qog.1_Missense_Mutation_p.R17C|ALDH18A1_uc010qoh.1_Intron	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	128	Glutamate 5-kinase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)	ATCTCATGGCGCAAGCGTTGT	0.547													17	21					0	0	1	0	0		A	97397115	A	A	97397115	3	1	16	1	0	0	0	0	1	0	0	0	489	1087	38	1	2065	1	ALDH18A1	10	97397115	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	300326	97397115	38137632	746	12421											
SLIT1	6585	broad.mit.edu	37	chr10	98764573	98764573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcccattgtcctctgccGtggagacctgatgggcagtg	6	10	14	11	1	1	2	0	1	1	1	3	4	3	3	4	3	1	1	4	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:98764573G>A	uc001kmw.2	-	33	3839	c.3587C>T	c.(3586-3588)ACG>ATG	p.T1196M		NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	1196	Laminin G-like.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		GTCCTCTGCCGTGGAGACCTG	0.602													11	25					0	0	1	0	0		A	98764573	A	A	98764573	3	1	16	1	0	0	0	0	1	0	0	0	14764	1145	40	1	1037	1	SLIT1	10	98764573	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1367458	98764573	36770174	747	12422											
RRP12	23223	broad.mit.edu	37	chr10	99141494	99141494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggctctgcgtagcagcaGtcagcacttgcgagtgtggg	7	9	16	9	2	2	1	1	1	1	0	2	2	2	1	0	2	5	5	0	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:99141494G>A	uc001knf.2	-	11	1437	c.1298C>T	c.(1297-1299)ACT>ATT	p.T433I	RRP12_uc009xvm.2_Missense_Mutation_p.T151I|RRP12_uc010qou.1_Missense_Mutation_p.T372I|RRP12_uc009xvn.2_Missense_Mutation_p.T333I	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	433						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		CGTAGCAGCAGTCAGCACTTG	0.587													19	38					0	0	1	0	0		A	99141494	A	A	99141494	3	1	16	1	0	0	0	0	1	0	0	0	13711	1029	36	4	2691	4	RRP12	10	99141494	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	376921	99141494	36393253	748	12423											
DHDPSL	112817	broad.mit.edu	37	chr10	99358872	99358872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccacagtggagatgaccGtcagcatggcccaggtcggg	10	5	15	11	2	1	2	1	1	0	1	2	3	1	2	3	4	2	1	3	4	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:99358872G>A	uc001kny.2	+	3	726	c.367G>A	c.(367-369)GTC>ATC	p.V123I	DHDPSL_uc001knx.2_Missense_Mutation_p.V123I|DHDPSL_uc001knz.2_Intron|PI4K2A_uc010qoy.1_Intron	NM_138413	NP_612422	Q86XE5	HOGA1_HUMAN	DHDPS-like protein isoform 1	123					glyoxylate catabolic process	mitochondrion	4-hydroxy-2-oxoglutarate aldolase activity				0						GGAGATGACCGTCAGCATGGC	0.627													19	38					0	0	1	0	0		A	99358872	A	A	99358872	3	1	16	1	0	0	0	0	1	0	0	0	4486	1145	40	1	377	1	DHDPSL	10	99358872	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	217378	99358872	36175875	749	12424											
CRTAC1	55118	broad.mit.edu	37	chr10	99695979	99695979	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcctcccggccgtccccGtcgatgtcgcaggctgtgac	4	9	11	17	5	1	1	0	1	1	0	6	2	3	1	5	2	0	2	5	2	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:99695979G>A	uc001kou.1	-	3	725	c.369C>T	c.(367-369)GAC>GAT	p.D123D	CRTAC1_uc001kov.2_Silent_p.D112D|CRTAC1_uc001kot.1_Translation_Start_Site	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	123	FG-GAP 2; atypical.					proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		GGCCGTCCCCGTCGATGTCGC	0.637													20	29					0	0	1	0	0		A	99695979	A	A	99695979	2	1	16	1	0	0	0	0	0	0	0	1	3899	1136	40	1		1	CRTAC1	10	99695979	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	337107	99695979	35838768	750	12425											
CNNM1	26507	broad.mit.edu	37	chr10	101090324	101090324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agataagcaccttctacacgCgggagaagttgctggagacg	12	7	13	9	3	1	3	0	0	1	3	1	5	1	3	1	2	3	3	1	2	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:101090324C>T	uc001kpp.3	+	1	1469	c.1180C>T	c.(1180-1182)CGG>TGG	p.R394W	CNNM1_uc009xwe.2_Missense_Mutation_p.R394W|CNNM1_uc010qpi.1_Missense_Mutation_p.R394W|CNNM1_uc009xwf.2_Missense_Mutation_p.R394W	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	394	DUF21.				ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		CTTCTACACGCGGGAGAAGTT	0.647													4	9					0	0	1	0	0		T	101090324	T	T	101090324	3	4	16	1	0	0	0	0	1	0	0	0	3615	759	27	1	1182	1	CNNM1	10	101090324	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1394345	101090324	34444423	751	12426											
LBX1	10660	broad.mit.edu	37	chr10	102987489	102987489	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttggtgaaggccgtgcgCgactttcgccgcttcttagg	4	12	15	10	5	1	1	0	1	1	0	2	2	1	1	2	4	1	2	2	4	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:102987489C>T	uc001ksx.2	-	2	529	c.384G>A	c.(382-384)TCG>TCA	p.S128S	uc010qpy.1_5'Flank	NM_006562	NP_006553	P52954	LBX1_HUMAN	ladybird homeobox 1	128	Homeobox.				muscle organ development		sequence-specific DNA binding				0		Colorectal(252;0.234)		Epithelial(162;3.22e-09)|all cancers(201;1.79e-07)		AGGCCGTGCGCGACTTTCGCC	0.587													12	31					0	0	1	0	0		T	102987489	T	T	102987489	2	4	16	1	0	0	0	0	0	0	0	1	8669	755	27	1		1	LBX1	10	102987489	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1897165	102987489	32547258	752	12427											
POLL	27343	broad.mit.edu	37	chr10	103340084	103340084	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtgagtgatgagcacgtcGacatcaccacaggtcgcctt	9	8	13	11	3	1	3	1	3	0	0	3	4	1	3	2	2	1	1	2	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:103340084G>A	uc001ktg.1	-	7	2050	c.1284C>T	c.(1282-1284)GTC>GTT	p.V428V	DPCD_uc010qpz.1_Intron|POLL_uc001ktd.1_Silent_p.V101V|POLL_uc001kte.1_Silent_p.V120V|POLL_uc001kth.1_Silent_p.V153V|POLL_uc001kti.1_Silent_p.V428V|POLL_uc001ktj.1_Silent_p.V428V|POLL_uc001ktf.2_Silent_p.V336V|POLL_uc001ktk.1_Silent_p.V167V|POLL_uc010qqa.1_Silent_p.V167V|POLL_uc010qqb.1_RNA|POLL_uc001ktm.2_Silent_p.V428V|POLL_uc001ktl.2_Silent_p.V340V|POLL_uc010qqc.1_Silent_p.V120V	NM_013274	NP_037406	Q9UGP5	DPOLL_HUMAN	DNA-directed DNA polymerase lambda	428	Involved in primer binding (By similarity).				DNA replication|nucleotide-excision repair|somatic hypermutation of immunoglobulin genes	nucleus	DNA binding|DNA-directed DNA polymerase activity|lyase activity|metal ion binding				0		Colorectal(252;0.234)		Epithelial(162;1.55e-08)|all cancers(201;6.64e-07)		TGAGCACGTCGACATCACCAC	0.582								DNA_polymerases_(catalytic_subunits)					27	64					0	0	1	0	0		A	103340084	A	A	103340084	2	1	16	1	0	0	0	0	0	0	0	1	12224	1045	37	1		1	POLL	10	103340084	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	352595	103340084	32194663	753	12428											
LDB1	8861	broad.mit.edu	37	chr10	103871226	103871226	+	Frame_Shift_Del	DEL	G	-	-																															agcatggtgccgggatggaaGgggggaaaggcgttgccgtt																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:103871226delG	uc009xwz.2	-	2	436	c.93delC	c.(91-93)CCCfs	p.P31fs	LDB1_uc001kuk.3_5'UTR|LDB1_uc001kul.3_5'UTR	NM_001113407	NP_001106878	Q86U70	LDB1_HUMAN	LIM domain binding 1 isoform 1	31					histone H3-K4 acetylation|negative regulation of erythrocyte differentiation|negative regulation of transcription, DNA-dependent|positive regulation of hemoglobin biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription elongation, DNA-dependent|transcription, DNA-dependent|transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery	nuclear chromatin|protein complex	LIM domain binding|protein homodimerization activity|transcription corepressor activity			large_intestine(1)	1		Colorectal(252;0.122)		Epithelial(162;1.11e-07)|all cancers(201;1.82e-06)		CGGGATGGAAGGGGGGAAAGG	0.537													22	40	---	---	---	---						.	-	103871226	-	-	103871226	7	5	16	1	0	1	0	1	0	0	0	0	8711	987	35	0	1182	0	LDB1	10	103871226	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	531142	103871226	31663521	754	12429											
CNNM2	54805	broad.mit.edu	37	chr10	104679333	104679333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccaggccatctgctccCggcatggcctggctgtgggg	3	8	15	15	1	1	0	0	0	1	0	2	0	2	0	5	6	2	3	5	6	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:104679333C>T	uc001kwm.2	+	1	1220	c.1096C>T	c.(1096-1098)CGG>TGG	p.R366W	CNNM2_uc001kwn.2_Missense_Mutation_p.R366W|CNNM2_uc001kwl.2_Missense_Mutation_p.R366W	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	366	DUF21.				ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CATCTGCTCCCGGCATGGCCT	0.617													25	47					0	0	1	0	0		T	104679333	T	T	104679333	3	4	16	1	0	0	0	0	1	0	0	0	3616	643	23	1	1098	1	CNNM2	10	104679333	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	808107	104679333	30855414	755	12430											
SH3PXD2A	9644	broad.mit.edu	37	chr10	105361883	105361883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagcccgttcggccaggCggcccttggcctcggcggca	3	6	16	16	5	0	0	0	0	0	0	2	0	0	0	4	7	1	3	4	7	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:105361883C>T	uc001kxj.1	-	14	3148	c.3008G>A	c.(3007-3009)CGC>CAC	p.R1003H	SH3PXD2A_uc010qqr.1_Intron|SH3PXD2A_uc010qqs.1_Missense_Mutation_p.R838H|SH3PXD2A_uc010qqt.1_Missense_Mutation_p.R880H|SH3PXD2A_uc009xxn.1_Missense_Mutation_p.R838H|SH3PXD2A_uc010qqu.1_Missense_Mutation_p.R946H	NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	1031					cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)		TTCGGCCAGGCGGCCCTTGGC	0.682													20	36					0	0	1	0	0		T	105361883	T	T	105361883	3	4	16	1	0	0	0	0	1	0	0	0	14281	768	27	1	313	1	SH3PXD2A	10	105361883	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	682550	105361883	30172864	756	12431											
COL17A1	1308	broad.mit.edu	37	chr10	105824282	105824282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtccccatggaggaccccGcgggcagggtggaggaccac	8	3	17	13	2	0	0	0	0	0	0	1	4	1	4	5	7	0	1	5	7	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:105824282G>A	uc001kxr.2	-	10	849	c.680C>T	c.(679-681)GCG>GTG	p.A227V	COL17A1_uc010qqv.1_Missense_Mutation_p.A211V|COL17A1_uc009xxp.1_Missense_Mutation_p.A227V	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	227	Cytoplasmic (Potential).|Nonhelical region (NC16).|Necessary for interaction with DST and for the recruitment of DST to hemidesmosome.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GGAGGACCCCGCGGGCAGGGT	0.587													7	13					0	0	1	0	0		A	105824282	A	A	105824282	3	1	16	1	0	0	0	0	1	0	0	0	3677	1087	38	1	4001	1	COL17A1	10	105824282	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	462399	105824282	29710465	757	12432											
TDRD1	56165	broad.mit.edu	37	chr10	115963151	115963151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttatctttgaaagggtaCggttaccgaattcaaacacc	12	14	7	8	2	2	1	1	1	1	0	2	2	2	1	2	2	3	2	2	2	6	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:115963151C>T	uc001lbg.1	+	8	959	c.806C>T	c.(805-807)ACG>ATG	p.T269M	TDRD1_uc001lbf.2_Missense_Mutation_p.T260M|TDRD1_uc001lbh.1_Missense_Mutation_p.T260M|TDRD1_uc001lbi.1_Missense_Mutation_p.T260M|TDRD1_uc010qsc.1_Translation_Start_Site|TDRD1_uc001lbj.2_Translation_Start_Site	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	269					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		TGAAAGGGTACGGTTACCGAA	0.348													6	123					0	0	1	0	0		T	115963151	T	T	115963151	3	4	16	1	0	0	0	0	1	0	0	0	15755	536	19	1	832	1	TDRD1	10	115963151	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	10138869	115963151	19571596	758	12433											
ATRNL1	26033	broad.mit.edu	37	chr10	117045787	117045787	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcttagagtcaattccagTagagaaaactatgacaatgc	15	11	8	7	0	2	3	1	1	1	2	3	4	3	3	1	0	2	1	1	0	7	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:117045787T>A	uc001lcg.2	+	15	2681	c.2295T>A	c.(2293-2295)AGT>AGA	p.S765R		NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	765	C-type lectin.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		TCAATTCCAGTAGAGAAAACT	0.333													4	48					0	0	1	0	0		A	117045787	A	A	117045787	3	1	16	1	0	0	0	0	1	0	0	0	1208	1635	57	5	2353	5	ATRNL1	10	117045787	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1082636	117045787	18488960	759	12434											
VAX1	11023	broad.mit.edu	37	chr10	118897444	118897444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggctccttgaggaaggCggctgggaggttcccctccg	4	8	16	13	3	0	1	0	1	0	0	3	3	3	3	4	6	1	3	4	6	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:118897444C>T	uc009xyx.2	-	1	369	c.124G>A	c.(124-126)GCC>ACC	p.A42T	VAX1_uc001ldb.1_Missense_Mutation_p.A42T	NM_001112704	NP_001106175	Q5SQQ9	VAX1_HUMAN	ventral anterior homeobox 1 isoform a	42						nucleus	sequence-specific DNA binding			ovary(2)	2				all cancers(201;0.0108)		TTGAGGAAGGCGGCTGGGAGG	0.642													11	15					0	0	1	0	0		T	118897444	T	T	118897444	3	4	16	1	0	0	0	0	1	0	0	0	17160	768	27	1	1032	1	VAX1	10	118897444	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1851657	118897444	16637303	760	12435											
PRDX3	10935	broad.mit.edu	37	chr10	120936633	120936634	+	Frame_Shift_Ins	INS	-	C	C																															gggctgcagtggcagaaatgINSccccaaggaatggcactcac																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:120936633_120936634insC	uc001lec.2	-	2	111_112	c.68_69insG	c.(67-69)GGCfs	p.G23fs		NM_006793	NP_006784	P30048	PRDX3_HUMAN	peroxiredoxin 3 isoform a precursor	23					cell redox homeostasis|hydrogen peroxide catabolic process|mitochondrion organization|myeloid cell differentiation|negative regulation of kinase activity|positive regulation of cell proliferation|positive regulation of NF-kappaB transcription factor activity|regulation of mitochondrial membrane potential|response to lipopolysaccharide	early endosome|mitochondrion	alkyl hydroperoxide reductase activity|caspase inhibitor activity|peroxidase activity|peroxiredoxin activity|protein C-terminus binding|protein kinase binding				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0245)		TGGCAGAAATGCCCCAAGGAAT	0.475													18	36	---	---	---	---						.	C	120936634	C	C	120936633	7	5	16	1	0	1	1	0	0	0	0	0	12488	1306	46	0	725	0	PRDX3	10	120936633	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	2039189	120936633	14598114	761	12436											
INPP5F	22876	broad.mit.edu	37	chr10	121557041	121557041	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attatgtggagactgagcagTtgattcatgttcataatcat	12	15	9	5	0	3	3	3	2	0	1	3	4	3	3	0	1	1	3	0	1	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:121557041T>G	uc001leo.2	+	8	1103	c.937T>G	c.(937-939)TTG>GTG	p.L313V		NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	313	SAC.						phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		GACTGAGCAGTTGATTCATGT	0.413													9	15					0	0	1	0	0		G	121557041	G	G	121557041	3	3	16	1	0	0	0	0	1	0	0	0	7774	1722	60	5	967	5	INPP5F	10	121557041	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	620408	121557041	13977706	762	12437											
FGFR2	2263	broad.mit.edu	37	chr10	123325038	123325038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccggagtctctaggcgtgGcgccctttatctgcaagtac	6	10	13	12	3	2	0	0	0	2	0	3	1	2	1	2	4	2	2	2	4	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:123325038G>A	uc010qtk.1	-	3	937	c.290C>T	c.(289-291)GCC>GTC	p.A97V	FGFR2_uc010qtg.1_Missense_Mutation_p.A97V|FGFR2_uc010qth.1_Intron|FGFR2_uc010qti.1_Intron|FGFR2_uc010qtj.1_Missense_Mutation_p.A97V|FGFR2_uc010qtl.1_Missense_Mutation_p.A97V|FGFR2_uc010qtm.1_Intron|FGFR2_uc001lfl.3_Missense_Mutation_p.A97V|FGFR2_uc001lfm.2_Intron|FGFR2_uc001lfn.3_Intron|FGFR2_uc010qtn.1_Missense_Mutation_p.A116V|FGFR2_uc010qto.1_Intron|FGFR2_uc001lfo.1_Missense_Mutation_p.A116V|FGFR2_uc010qtp.1_Missense_Mutation_p.A116V|FGFR2_uc010qtq.1_Missense_Mutation_p.A116V	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	97	Ig-like C2-type 1.|Extracellular (Potential).				angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of mesenchymal cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding	p.A97T(1)		endometrium(44)|skin(28)|lung(11)|ovary(4)|cervix(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|soft_tissue(1)|central_nervous_system(1)	96		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Palifermin(DB00039)	TCTAGGCGTGGCGCCCTTTAT	0.527		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				20	66					0	0	1	0	0		A	123325038	A	A	123325038	3	1	16	1	0	0	0	0	1	0	0	0	5880	1203	42	2	2495	2	FGFR2	10	123325038	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1767997	123325038	12209709	763	12438											
HMX3	340784	broad.mit.edu	37	chr10	124896865	124896865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgccgcaagaagaagacgcGcacagtcttctcgcgcagcc	10	5	12	14	5	2	3	0	0	2	3	3	3	2	3	2	0	2	3	2	0	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:124896865G>A	uc010quc.1	+	2	692	c.692G>A	c.(691-693)CGC>CAC	p.R231H		NM_001105574	NP_001099044	A6NHT5	HMX3_HUMAN	H6 family homeobox 3	231	Homeobox.				cell differentiation	nucleus	sequence-specific DNA binding transcription factor activity				0		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.122)|COAD - Colon adenocarcinoma(40;0.141)		AAGAAGACGCGCACAGTCTTC	0.662													5	10					0	0	1	0	0		A	124896865	A	A	124896865	3	1	16	1	0	0	0	0	1	0	0	0	7264	1087	38	1	698	1	HMX3	10	124896865	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1571827	124896865	10637882	764	12439											
CTBP2	1488	broad.mit.edu	37	chr10	126727703	126727703	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaacttgcaggagtctgcGtgcatgacgccactatgaac	10	8	13	10	2	1	2	0	2	1	0	1	4	1	4	1	2	5	2	1	2	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:126727703G>A	uc009yak.2	-	3	208	c.-79C>T	c.(-81--77)CACGC>CATGC		CTBP2_uc009yal.2_Translation_Start_Site|CTBP2_uc001lif.3_Translation_Start_Site|CTBP2_uc001lih.3_Translation_Start_Site	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1						negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)		AGGAGTCTGCGTGCATGACGC	0.488													10	19					0	0	1	0	0		A	126727703	A	A	126727703	1	1	16	1	0	0	0	0	0	0	0	0	4001	1160	40	1		1	CTBP2	10	126727703	Translation_Start_Site	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1830838	126727703	8807044	765	12440											
DOCK1	1793	broad.mit.edu	37	chr10	128836060	128836060	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaggcagctgatgaaagtcGatggtggtgaagtagtgaag	12	9	17	3	1	0	5	0	5	0	0	1	6	0	5	0	3	1	3	0	3	4	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:128836060G>A	uc001ljt.2	+	19	1991	c.1927G>A	c.(1927-1929)GAT>AAT	p.D643N	DOCK1_uc010qun.1_Missense_Mutation_p.D664N	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	643	DHR-1.				apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		GATGAAAGTCGATGGTGGTGA	0.438													5	11					0	0	1	0	0		A	128836060	A	A	128836060	3	1	16	1	0	0	0	0	1	0	0	0	4690	1058	37	1	2001	1	DOCK1	10	128836060	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2108357	128836060	6698687	766	12441											
FAM196A	642938	broad.mit.edu	37	chr10	128974539	128974539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctgcagggctttgttccGttttttaatctgccggttgg	4	16	11	10	2	1	0	0	0	1	0	2	0	2	0	3	3	2	5	3	3	1	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:128974539G>A	uc001lju.1	-	1	162	c.121C>T	c.(121-123)CGG>TGG	p.R41W	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.R41W|FAM196A_uc001ljv.1_Missense_Mutation_p.R41W|FAM196A_uc009yap.1_Missense_Mutation_p.R41W	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	41										ovary(2)	2						GCTTTGTTCCGTTTTTTAATC	0.577													39	68					0	0	1	0	0		A	128974539	A	A	128974539	3	1	16	1	0	0	0	0	1	0	0	0	5539	1144	40	1	1330	1	FAM196A	10	128974539	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	138479	128974539	6560208	767	12442											
FAM196A	642938	broad.mit.edu	37	chr10	128974569	128974569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccggttggggtccagggCgtatttcatctccagggcca	5	10	14	12	2	2	0	1	0	1	0	4	0	3	0	4	5	1	2	4	5	1	3	rs150536495		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:128974569C>T	uc001lju.1	-	1	132	c.91G>A	c.(91-93)GCC>ACC	p.A31T	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.A31T|FAM196A_uc001ljv.1_Missense_Mutation_p.A31T|FAM196A_uc009yap.1_Missense_Mutation_p.A31T	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	31										ovary(2)	2						GGGTCCAGGGCGTATTTCATC	0.552													30	76					0	0	1	0	0		T	128974569	T	T	128974569	3	4	16	1	0	0	0	0	1	0	0	0	5539	768	27	1	1360	1	FAM196A	10	128974569	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	30	128974569	6560178	768	12443											
NKX6-2	84504	broad.mit.edu	37	chr10	134598438	134598438	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacaaggcgtcccccgcGccgccgccgcacgggctgac	5	3	12	21	7	1	1	1	1	0	0	2	1	2	1	6	2	0	2	6	2	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr10:134598438G>A	uc001llr.2	-	3	901	c.816C>T	c.(814-816)GGC>GGT	p.G272G		NM_177400	NP_796374	Q9C056	NKX62_HUMAN	NK6 transcription factor related, locus 2	272						nucleus	sequence-specific DNA binding transcription factor activity				0		all_cancers(35;2.79e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0584)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;4.06e-05)|Epithelial(32;5.53e-05)|all cancers(32;5.99e-05)		CGTCCCCCGCGCCGCCGCCGC	0.667													4	11					0	0	1	0	0		A	134598438	A	A	134598438	2	1	16	1	0	0	0	0	0	0	0	1	10477	1074	38	1		1	NKX6-2	10	134598438	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	5623869	134598438	936309	769	12444											
B4GALNT4	338707	broad.mit.edu	37	chr11	375665	375665	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccttgaagatggaccacGtggcgcacgtcccccagtct	8	7	11	15	3	1	2	0	1	1	1	2	3	2	3	4	2	1	1	4	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:375665G>A	uc001lpb.2	+	10	886	c.877G>A	c.(877-879)GTG>ATG	p.V293M		NM_178537	NP_848632	Q76KP1	B4GN4_HUMAN	beta	293	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			pancreas(1)	1		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GATGGACCACGTGGCGCACGT	0.652													11	25					0	0	1	0	0		A	375665	A	A	375665	3	1	16	1	0	0	0	0	1	0	0	0	1270	1145	40	1	915	1	B4GALNT4	11	375665	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08		375665	134630851	770	12445											
ANO9	338440	broad.mit.edu	37	chr11	418466	418466	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaccccacccagcctctGccttccatgccacatcttct	6	9	3	23	0	3	0	0	0	3	0	4	0	4	0	9	0	3	0	9	0	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:418466G>A	uc001lpi.2	-	23	2339	c.2254C>T	c.(2254-2256)CAG>TAG	p.Q752*	SIGIRR_uc001lpf.2_5'Flank|SIGIRR_uc001lpe.1_5'Flank|ANO9_uc001lph.2_Nonsense_Mutation_p.Q445*|ANO9_uc010qvv.1_Nonsense_Mutation_p.Q608*	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	752	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						CCCAGCCTCTGCCTTCCATGC	0.627													19	35					0	0	1	0	0		A	418466	A	A	418466	4	1	16	1	0	0	0	0	0	1	0	0	704	1328	46	2	98	2	ANO9	11	418466	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	42801	418466	134588050	771	12446											
PTDSS2	81490	broad.mit.edu	37	chr11	479107	479107	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactggaggttttggctctgCgtgagtgtggtctacgagct	5	14	15	7	2	2	1	0	1	2	0	2	3	2	2	0	4	4	3	0	4	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:479107C>T	uc001lpj.2	+	4	566	c.390C>T	c.(388-390)TGC>TGT	p.C130C	PTDSS2_uc009ybv.1_Silent_p.C130C	NM_030783	NP_110410	Q9BVG9	PTSS2_HUMAN	phosphatidylserine synthase 2	130	Helical; (Potential).					integral to membrane					0		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;2.76e-26)|Epithelial(43;2.56e-25)|OV - Ovarian serous cystadenocarcinoma(40;7.54e-20)|BRCA - Breast invasive adenocarcinoma(625;8.76e-05)|Lung(200;0.0407)|LUSC - Lung squamous cell carcinoma(625;0.0735)	Phosphatidylserine(DB00144)	TTTGGCTCTGCGTGAGTGTGG	0.562													52	118					0	0	1	0	0		T	479107	T	T	479107	2	4	16	1	0	0	0	0	0	0	0	1	12759	776	27	1		1	PTDSS2	11	479107	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	60641	479107	134527409	772	12447											
PHRF1	57661	broad.mit.edu	37	chr11	598418	598418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgctggatgaagccatcGaggctgtggcgactggcctg	6	8	15	12	2	0	1	0	1	0	0	1	4	0	2	3	4	2	2	3	4	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:598418G>A	uc001lqe.2	+	9	1071	c.940G>A	c.(940-942)GAG>AAG	p.E314K	PHRF1_uc010qwc.1_Missense_Mutation_p.E314K|PHRF1_uc010qwd.1_Missense_Mutation_p.E313K|PHRF1_uc010qwe.1_Missense_Mutation_p.E310K|PHRF1_uc009ybz.1_Missense_Mutation_p.E105K	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	314	Arg-rich.						RNA polymerase binding|zinc ion binding				0						TGAAGCCATCGAGGCTGTGGC	0.657													4	11					0	0	1	0	0		A	598418	A	A	598418	3	1	16	1	0	0	0	0	1	0	0	0	11880	1059	37	1	970	1	PHRF1	11	598418	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	119311	598418	134408098	773	12448											
PHRF1	57661	broad.mit.edu	37	chr11	608437	608437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcccccttcccggtcccGctccacatccagctcccgca	5	6	7	23	3	0	0	0	0	0	0	5	0	5	0	7	2	1	3	7	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:608437G>A	uc001lqe.2	+	14	3112	c.2981G>A	c.(2980-2982)CGC>CAC	p.R994H	PHRF1_uc010qwc.1_Missense_Mutation_p.R993H|PHRF1_uc010qwd.1_Missense_Mutation_p.R992H|PHRF1_uc010qwe.1_Missense_Mutation_p.R990H|PHRF1_uc009ybz.1_Missense_Mutation_p.R784H|PHRF1_uc009yca.1_RNA	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	994	Arg-rich.						RNA polymerase binding|zinc ion binding				0						TCCCGGTCCCGCTCCACATCC	0.677													3	11					0	0	1	0	0		A	608437	A	A	608437	3	1	16	1	0	0	0	0	1	0	0	0	11880	1087	38	1	3028	1	PHRF1	11	608437	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	10019	608437	134398079	774	12449											
DEAF1	10522	broad.mit.edu	37	chr11	686948	686948	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgccatggcctcaaactcGgtgggactgtaccagttctc	7	10	10	14	1	2	0	1	0	1	0	4	1	2	1	4	3	3	2	4	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:686948G>A	uc001lqq.1	-	5	1407	c.714C>T	c.(712-714)ACC>ACT	p.T238T	DEAF1_uc009ycf.1_RNA	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	238	SAND.				embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		CCTCAAACTCGGTGGGACTGT	0.602													4	34					0	0	1	0	0		A	686948	A	A	686948	2	1	16	1	0	0	0	0	0	0	0	1	4383	1103	39	1		1	DEAF1	11	686948	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	78511	686948	134319568	775	12450											
MUC6	4588	broad.mit.edu	37	chr11	1017547	1017547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgtgtggaggaagtgtGtgaatgtagggatgtagagg	10	11	20	0	0	0	2	0	1	0	1	0	5	0	5	0	5	0	2	0	5	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:1017547G>A	uc001lsw.2	-	31	5305	c.5254C>T	c.(5254-5256)CAC>TAC	p.H1752Y		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1752	Thr-rich.|Approximate repeats.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GAGGAAGTGTGTGAATGTAGG	0.552													70	608					0	0	1	0	0		A	1017547	A	A	1017547	3	1	16	1	0	0	0	0	1	0	0	0	9998	1377	48	4	2077	4	MUC6	11	1017547	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	330599	1017547	133988969	776	12451											
MUC5B	727897	broad.mit.edu	37	chr11	1154250	1154250	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcccaggatggctcctcCgaatccagctacaagcacca	11	6	8	16	1	0	0	0	0	0	0	3	2	3	1	5	2	4	3	5	2	3	1	rs79836765		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:1154250C>T	uc009ycr.1	+	3	222	c.96C>T	c.(94-96)TCC>TCT	p.S32S		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ATGGCTCCTCCGAATCCAGCT	0.657													5	15					0	0	1	0	0		T	1154250	T	T	1154250	2	4	16	1	0	0	0	0	0	0	0	1	9997	667	23	1		1	MUC5B	11	1154250	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	136703	1154250	133852266	777	12452											
CARS	833	broad.mit.edu	37	chr11	3062131	3062131	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcggtggacctacctggcGtgccccatgtgagatgcgtc	5	8	14	14	4	0	1	0	1	0	1	1	3	0	2	5	3	3	0	5	3	1	1	rs61737270	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:3062131G>A	uc001lxh.2	-	3	275	c.201C>T	c.(199-201)CAC>CAT	p.H67H	CARS_uc001lxe.2_Silent_p.H57H|CARS_uc001lxf.2_Silent_p.H150H|CARS_uc001lxg.2_Silent_p.H67H|CARS_uc010qxo.1_Silent_p.H150H|CARS_uc010qxp.1_Silent_p.H80H|uc001lxi.1_RNA	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	67	HIGH region.				cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	CCTACCTGGCGTGCCCCATGT	0.537			T	ALK	ALCL								26	57					0	0	1	0	0		A	3062131	A	A	3062131	2	1	16	1	0	0	0	0	0	0	0	1	2660	1136	40	1		1	CARS	11	3062131	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1907881	3062131	131944385	778	12453											
OSBPL5	114879	broad.mit.edu	37	chr11	3140844	3140844	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgtgtgatggagcccacGctctcacctttggggccctg	4	10	14	13	1	1	1	1	1	1	0	2	2	1	2	3	4	1	2	3	4	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:3140844G>A	uc001lxk.2	-	7	782	c.624C>T	c.(622-624)AGC>AGT	p.S208S	OSBPL5_uc010qxq.1_Silent_p.S119S|OSBPL5_uc009ydw.2_Silent_p.S140S|OSBPL5_uc001lxl.2_Silent_p.S140S|OSBPL5_uc009ydx.2_Silent_p.S232S	NM_020896	NP_065947	Q9H0X9	OSBL5_HUMAN	oxysterol-binding protein-like protein 5 isoform	208	PH.				cholesterol metabolic process|cholesterol transport|Golgi to plasma membrane transport	cytosol	oxysterol binding|protein binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		TGGAGCCCACGCTCTCACCTT	0.627													11	22					0	0	1	0	0		A	3140844	A	A	3140844	2	1	16	1	0	0	0	0	0	0	0	1	11299	1078	38	1		1	OSBPL5	11	3140844	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	78713	3140844	131865672	779	12454											
NUP98	4928	broad.mit.edu	37	chr11	3697469	3697469	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggcatagtcctcaggcaTgggaagccggccaatgtggg	9	7	15	10	1	1	0	1	0	0	0	2	1	2	1	3	5	1	2	3	5	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:3697469T>C	uc001lyh.2	-	33	5614	c.5323A>G	c.(5323-5325)ATG>GTG	p.M1775V	NUP98_uc001lyi.2_Missense_Mutation_p.M1701V|NUP98_uc001lyg.2_Missense_Mutation_p.M740V	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1792					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		TCCTCAGGCATGGGAAGCCGG	0.587			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								16	56					0	0	1	0	0		C	3697469	C	C	3697469	3	2	16	1	0	0	0	0	1	0	0	0	10792	1464	51	3	83	3	NUP98	11	3697469	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	556625	3697469	131309047	780	12455											
OR51F1	256892	broad.mit.edu	37	chr11	4790804	4790804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggctgtagccaccagcactCcagattccataaaagtgaat	14	8	8	11	0	0	2	0	1	0	1	2	2	2	2	4	1	2	3	4	1	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:4790804C>T	uc010qyl.1	-	1	344	c.344G>A	c.(343-345)GGA>GAA	p.G115E		NM_001004752	NP_001004752	A6NLW9	A6NLW9_HUMAN	olfactory receptor, family 51, subfamily F,	115						integral to membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.87e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0045)|LUSC - Lung squamous cell carcinoma(625;0.192)		CACCAGCACTCCAGATTCCAT	0.428													7	37					0	0	1	0	0		T	4790804	T	T	4790804	3	4	16	1	0	0	0	0	1	0	0	0	11115	855	30	4	597	4	OR51F1	11	4790804	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1093335	4790804	130215712	781	12456											
OR51G1	79324	broad.mit.edu	37	chr11	4945161	4945161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacatgcaggtgtcaggaCggtggagtcatgcagtgggt	10	9	16	6	1	2	0	2	0	0	0	2	2	2	2	0	5	3	2	0	5	2	1	rs145607331	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:4945161C>T	uc010qyr.1	-	1	409	c.409G>A	c.(409-411)GTC>ATC	p.V137I		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGTGTCAGGACGGTGGAGTCA	0.512													27	56					0	0	1	0	0		T	4945161	T	T	4945161	3	4	16	1	0	0	0	0	1	0	0	0	11117	536	19	1	558	1	OR51G1	11	4945161	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	154357	4945161	130061355	782	12457											
OR51V1	283111	broad.mit.edu	37	chr11	5221347	5221347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgtctgaacaggctaagCggagaagatcctggtgcagg	11	7	16	7	1	1	3	0	1	1	2	2	5	2	4	1	5	3	2	1	5	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:5221347C>T	uc010qyz.1	-	1	584	c.584G>A	c.(583-585)CGC>CAC	p.R195H		NM_001004760	NP_001004760	Q9H2C8	O51V1_HUMAN	olfactory receptor, family 51, subfamily V,	195	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.83e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACAGGCTAAGCGGAGAAGATC	0.403													22	51					0	0	1	0	0		T	5221347	T	T	5221347	3	4	16	1	0	0	0	0	1	0	0	0	11126	768	27	1	384	1	OR51V1	11	5221347	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	276186	5221347	129785169	783	12458											
OR52H1	390067	broad.mit.edu	37	chr11	5565960	5565960	+	Frame_Shift_Del	DEL	A	-	-																															agcgatgggcgaggatggagAaaaaggcaggtgtataaaac																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:5565960delA	uc010qzh.1	-	1	794	c.794delT	c.(793-795)TTCfs	p.F265fs	HBG2_uc001mak.1_Intron	NM_001005289	NP_001005289	Q8NGJ2	O52H1_HUMAN	olfactory receptor, family 52, subfamily H,	265	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;5.33e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAGGATGGAGAAAAAGGCAGG	0.507													34	77	---	---	---	---						.	-	5565960	-	-	5565960	7	5	16	1	0	1	0	1	0	0	0	0	11138	246	9	0	171	0	OR52H1	11	5565960	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	344613	5565960	129440556	784	12459											
FAM160A2	84067	broad.mit.edu	37	chr11	6244371	6244371	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaagggctggcactcccAgccagtcttcccgtcgcaga	7	7	12	15	2	1	1	0	0	1	1	4	1	3	1	3	2	2	4	3	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:6244371A>G	uc001mcl.3	-	4	1234	c.875T>C	c.(874-876)CTG>CCG	p.L292P	FAM160A2_uc001mck.3_Missense_Mutation_p.L292P|FAM160A2_uc001mcm.2_Missense_Mutation_p.L292P	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	292					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						TGGCACTCCCAGCCAGTCTTC	0.542													54	98					0	0	1	0	0		G	6244371	G	G	6244371	3	3	16	1	0	0	0	0	1	0	0	0	5480	188	7	3	2121	3	FAM160A2	11	6244371	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	678411	6244371	128762145	785	12460											
SMPD1	6609	broad.mit.edu	37	chr11	6413002	6413002	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccggggttctggcctgcCgcccgcatcccggccaggtg	2	6	15	18	5	1	0	0	0	1	0	2	0	2	0	7	5	1	2	7	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:6413002C>T	uc001mcw.2	+	2	881	c.707C>T	c.(706-708)CCG>CTG	p.P236L	SMPD1_uc001mcv.1_Intron|SMPD1_uc009yex.2_RNA|SMPD1_uc001mcx.2_Missense_Mutation_p.P236L|SMPD1_uc009yew.2_Missense_Mutation_p.P235L	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	234					cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)	TCTGGCCTGCCGCCCGCATCC	0.657													13	17					0	0	1	0	0		T	6413002	T	T	6413002	3	4	16	1	0	0	0	0	1	0	0	0	14829	652	23	1	713	1	SMPD1	11	6413002	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	168631	6413002	128593514	786	12461											
APBB1	322	broad.mit.edu	37	chr11	6432180	6432180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatgatcaggccaggtcctCgtaggcctcggttggctgcg	5	10	15	11	3	1	2	1	2	0	0	4	2	2	2	3	5	1	3	3	5	1	2	rs139345068		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:6432180C>T	uc001mdb.1	-	2	498	c.398G>A	c.(397-399)CGA>CAA	p.R133Q	APBB1_uc001mdc.1_Missense_Mutation_p.R133Q|APBB1_uc010rah.1_Intron	NM_001164	NP_001155	O00213	APBB1_HUMAN	amyloid beta A4 precursor protein-binding,	133					apoptosis|axonogenesis|cell cycle arrest|histone H4 acetylation|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of thymidylate synthase biosynthetic process|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|signal transduction|transcription, DNA-dependent	cytoplasm|growth cone|lamellipodium|nucleus|plasma membrane|synapse	beta-amyloid binding|chromatin binding|histone binding|proline-rich region binding|transcription factor binding			breast(2)	2		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;6.49e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		GCCAGGTCCTCGTAGGCCTCG	0.433													32	95					0	0	1	0	0		T	6432180	T	T	6432180	3	4	16	1	0	0	0	0	1	0	0	0	759	884	31	1	1786	1	APBB1	11	6432180	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	19178	6432180	128574336	787	12462											
DNHD1	144132	broad.mit.edu	37	chr11	6585775	6585775	+	Frame_Shift_Del	DEL	C	-	-																															gtcagcataccaccaaagaaCcccctgctggctacacactc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:6585775delC	uc001mdw.3	+	32	11061	c.10497delC	c.(10495-10497)AACfs	p.N3499fs	DNHD1_uc001mea.3_5'UTR|DNHD1_uc001meb.2_5'UTR|DNHD1_uc001mec.2_5'Flank|DNHD1_uc010rao.1_5'Flank	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	3499					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		CACCAAAGAACCCCCTGCTGG	0.537													3	6	---	---	---	---						.	-	6585775	-	-	6585775	7	5	16	1	0	1	0	1	0	0	0	0	4674	506	18	0	10624	0	DNHD1	11	6585775	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	153595	6585775	128420741	788	12463											
OR10A2	341276	broad.mit.edu	37	chr11	6891003	6891003	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatgagcttctcttccctGcctactgaaatacagtcatt	9	14	5	13	0	3	2	2	2	1	0	5	2	4	2	2	0	4	1	2	0	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:6891003G>A	uc001meu.1	+	1	18	c.18G>A	c.(16-18)CTG>CTA	p.L6L		NM_001004460	NP_001004460	Q9H208	O10A2_HUMAN	olfactory receptor, family 10, subfamily A,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.89e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		TCTCTTCCCTGCCTACTGAAA	0.453													16	243					0	0	1	0	0		A	6891003	A	A	6891003	2	1	16	1	0	0	0	0	0	0	0	1	10909	1306	46	2		2	OR10A2	11	6891003	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	305228	6891003	128115513	789	12464											
OR10A2	341276	broad.mit.edu	37	chr11	6891024	6891024	+	Silent	SNP	A	G	G																															cctactgaaatacagtcattActctttctgacatttctaac																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:6891024A>G	uc001meu.1	+	1	39	c.39A>G	c.(37-39)TTA>TTG	p.L13L		NM_001004460	NP_001004460	Q9H208	O10A2_HUMAN	olfactory receptor, family 10, subfamily A,	13	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.89e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		TACAGTCATTACTCTTTCTGA	0.468													26	271					0	0	1	0	0		G	6891024	G	G	6891024	2	3	16	1	0	0	0	0	0	0	0	1	10909	388	14	3		3	OR10A2	11	6891024	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	21	6891024	128115492	790	12465	19	2									
OR10A2	341276	broad.mit.edu	37	chr11	6891030	6891030	+	Silent	SNP	T	C	C																															gaaatacagtcattactcttTctgacatttctaaccatcta																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:6891030T>C	uc001meu.1	+	1	45	c.45T>C	c.(43-45)TTT>TTC	p.F15F		NM_001004460	NP_001004460	Q9H208	O10A2_HUMAN	olfactory receptor, family 10, subfamily A,	15	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.89e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		CATTACTCTTTCTGACATTTC	0.453													37	273					0	0	1	0	0		C	6891030	C	C	6891030	2	2	16	1	0	0	0	0	0	0	0	1	10909	1780	62	3		3	OR10A2	11	6891030	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	6	6891030	128115486	791	12466	19	2									
OVCH2	341277	broad.mit.edu	37	chr11	7716409	7716409	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaggacagttaagtaactGcaacctgaatctgaaacgta	18	8	8	7	1	1	2	0	2	1	0	1	3	1	3	1	1	4	4	1	1	8	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:7716409G>T	uc010rbf.1	-	13	1293	c.1293C>A	c.(1291-1293)TGC>TGA	p.C431*		NM_198185	NP_937828			ovochymase 2 precursor												0				Epithelial(150;7.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.197)		TTAAGTAACTGCAACCTGAAT	0.398											OREG0020725	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	11					0.150653	0.151018	1	1	0		T	7716409	T	T	7716409	4	4	16	1	0	0	0	0	0	1	0	0	11343	1311	46	5	412	5	OVCH2	11	7716409	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	825379	7716409	127290107	792	12467											
NRIP3	56675	broad.mit.edu	37	chr11	9009687	9009687	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagaaaccaaaatcatgTcatcctcctcagacttcttt	13	11	5	12	0	4	2	3	0	1	2	6	2	6	2	3	1	1	1	3	1	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:9009687T>C	uc001mhg.2	-	2	431	c.317A>G	c.(316-318)GAC>GGC	p.D106G	NRIP3_uc010rbu.1_Missense_Mutation_p.D106G	NM_020645	NP_065696	Q9NQ35	NRIP3_HUMAN	nuclear receptor interacting protein 3	106					proteolysis		aspartic-type endopeptidase activity				0				Epithelial(150;4.77e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0241)		CAAAATCATGTCATCCTCCTC	0.493													52	97					0	0	1	0	0		C	9009687	C	C	9009687	3	2	16	1	0	0	0	0	1	0	0	0	10673	1667	58	3	432	3	NRIP3	11	9009687	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1293278	9009687	125996829	793	12468											
DENND5A	23258	broad.mit.edu	37	chr11	9191462	9191462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttctgccgatctttccGcctccactgggcaggggcat	4	11	11	15	2	2	0	0	0	2	0	4	1	4	0	4	3	2	3	4	3	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:9191462G>A	uc001mhl.2	-	10	2347	c.2092C>T	c.(2092-2094)CGG>TGG	p.R698W	DENND5A_uc001mhk.2_Missense_Mutation_p.R41W|DENND5A_uc010rbw.1_Missense_Mutation_p.R698W|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	698										liver(1)	1						CGATCTTTCCGCCTCCACTGG	0.438													29	135					0	0	1	0	0		A	9191462	A	A	9191462	3	1	16	1	0	0	0	0	1	0	0	0	4442	1086	38	1	1827	1	DENND5A	11	9191462	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	181775	9191462	125815054	794	12469											
RPS13	6207	broad.mit.edu	37	chr11	17098745	17098745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggagtaaggcccttcttggCcagtttgtaaatctgctcct	8	13	10	10	0	2	0	0	0	2	0	3	1	3	1	3	3	1	4	3	3	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:17098745C>T	uc001mmp.2	-	3	153	c.121G>A	c.(121-123)GCC>ACC	p.A41T		NM_001017	NP_001008	P62277	RS13_HUMAN	ribosomal protein S13	41					endocrine pancreas development|negative regulation of RNA splicing|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	mRNA binding|protein binding|structural constituent of ribosome				0						CCCTTCTTGGCCAGTTTGTAA	0.483													67	146					0	0	1	0	0		T	17098745	T	T	17098745	3	4	16	1	0	0	0	0	1	0	0	0	13648	739	26	2	350	2	RPS13	11	17098745	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7907283	17098745	117907771	795	12470											
MYOD1	4654	broad.mit.edu	37	chr11	17742486	17742486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgagcggcgcccggcggcGgaactgctacgaaggcgcct	6	3	16	16	8	0	0	0	0	0	0	0	3	0	1	3	5	4	1	3	5	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:17742486G>A	uc001mni.2	+	2	888	c.668G>A	c.(667-669)CGG>CAG	p.R223Q		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	223					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						gcccggcggcggAACTGCTAC	0.537													3	1					0	0	1	0	0		A	17742486	A	A	17742486	3	1	16	1	0	0	0	0	1	0	0	0	10106	1116	39	1	674	1	MYOD1	11	17742486	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	643741	17742486	117264030	796	12471											
SPTY2D1	144108	broad.mit.edu	37	chr11	18633072	18633072	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaactactttccatgtaaCgtaaggcataatcactttca	13	13	4	11	1	2	0	2	0	0	0	4	0	4	0	2	1	3	3	2	1	5	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:18633072C>T	uc001moy.2	-	5	2132	c.1916G>A	c.(1915-1917)CGT>CAT	p.R639H		NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	639										breast(1)	1						TTCCATGTAACGTAAGGCATA	0.323													26	47					0	0	1	0	0		T	18633072	T	T	18633072	3	4	16	1	0	0	0	0	1	0	0	0	15151	536	19	1	149	1	SPTY2D1	11	18633072	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	890586	18633072	116373444	797	12472											
MRGPRX1	259249	broad.mit.edu	37	chr11	18955510	18955510	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctgcctaaaggagcccacGaagaagtaaatgatggggtt	13	7	13	8	2	0	2	0	1	0	1	0	4	0	3	2	3	2	3	2	3	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:18955510G>A	uc001mpg.2	-	1	1040	c.822C>T	c.(820-822)TTC>TTT	p.F274F		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	274	Helical; Name=7; (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						AGGAGCCCACGAAGAAGTAAA	0.512													37	103					0	0	1	0	0		A	18955510	A	A	18955510	2	1	16	1	0	0	0	0	0	0	0	1	9784	1049	37	1		1	MRGPRX1	11	18955510	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	322438	18955510	116051006	798	12473											
PAMR1	25891	broad.mit.edu	37	chr11	35456304	35456304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctgcctgccacggccagCgcaacccttgggtctttgga	5	9	13	14	2	1	0	0	0	1	0	1	1	1	1	4	4	4	2	4	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:35456304C>T	uc001mwg.2	-	10	1425	c.1382G>A	c.(1381-1383)CGC>CAC	p.R461H	PAMR1_uc001mwf.2_Missense_Mutation_p.R478H|PAMR1_uc010rew.1_Missense_Mutation_p.R350H|PAMR1_uc010rex.1_Missense_Mutation_p.R421H	NM_001001991	NP_001001991	Q6UXH9	PAMR1_HUMAN	regeneration associated muscle protease isoform	461	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						CCACGGCCAGCGCAACCCTTG	0.552													16	41					0	0	1	0	0		T	35456304	T	T	35456304	3	4	16	1	0	0	0	0	1	0	0	0	11432	768	27	1	788	1	PAMR1	11	35456304	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	16500794	35456304	99550212	799	12474											
API5	8539	broad.mit.edu	37	chr11	43351532	43351532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggctgcagtactttgcacGgggcctgcaagtttatatca	9	12	11	9	1	1	0	1	0	0	0	1	0	1	0	1	3	4	6	1	3	5	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:43351532G>A	uc010rfh.1	+	10	1318	c.1145G>A	c.(1144-1146)CGG>CAG	p.R382Q	API5_uc010rfg.1_Missense_Mutation_p.R371Q|API5_uc001mxf.2_Missense_Mutation_p.R382Q|API5_uc010rfi.1_Missense_Mutation_p.R328Q|API5_uc001mxg.2_Missense_Mutation_p.R256Q	NM_001142930	NP_001136402	Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5 isoform a	382	Leucine-zipper.				anti-apoptosis|apoptosis	cytoplasm|spliceosomal complex	fibroblast growth factor binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						TACTTTGCACGGGGCCTGCAA	0.368													13	49					0	0	1	0	0		A	43351532	A	A	43351532	3	1	16	1	0	0	0	0	1	0	0	0	773	1116	39	1	1183	1	API5	11	43351532	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	7895228	43351532	91654984	800	12475											
ACCS	84680	broad.mit.edu	37	chr11	44102762	44102762	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggctccgctttggcacgCtgtacacagaaaaccaggat	10	8	11	12	2	0	1	0	0	0	1	1	2	1	2	2	3	2	5	2	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:44102762C>A	uc009yks.1	+	12	1147	c.1003C>A	c.(1003-1005)CTG>ATG	p.L335M	EXT2_uc010rfo.1_Intron|ACCS_uc001mxx.2_Missense_Mutation_p.L335M	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	335							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						CTTTGGCACGCTGTACACAGA	0.627													19	40					1.96895e-08	2.04805e-08	1	1	0		A	44102762	A	A	44102762	3	1	16	1	0	0	0	0	1	0	0	0	133	796	28	5	1045	5	ACCS	11	44102762	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	751230	44102762	90903754	801	12476											
ALX4	60529	broad.mit.edu	37	chr11	44286624	44286624	+	Frame_Shift_Del	DEL	G	-	-																															cgctgctggccccagagccaGgggggtgggcatgaggggac																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:44286624delG	uc001myb.2	-	4	1120	c.1016delC	c.(1015-1017)CCTfs	p.P339fs		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	339					hair follicle development						0						CCCAGAGCCAGGGGGGTGGGC	0.692													8	17	---	---	---	---						.	-	44286624	-	-	44286624	7	5	16	1	0	1	0	1	0	0	0	0	558	1000	35	0	223	0	ALX4	11	44286624	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	183862	44286624	90719892	802	12477											
CHST1	8534	broad.mit.edu	37	chr11	45671251	45671251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgggtcacgagaaggggCggaagtcccgctcctccacc	7	4	14	16	4	1	1	1	0	0	1	4	3	4	2	5	4	0	1	5	4	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:45671251C>T	uc001mys.1	-	4	1894	c.1223G>A	c.(1222-1224)CGC>CAC	p.R408H		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	408	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CGAGAAGGGGCGGAAGTCCCG	0.632													11	24					0	0	1	0	0		T	45671251	T	T	45671251	3	4	16	1	0	0	0	0	1	0	0	0	3400	768	27	1	16	1	CHST1	11	45671251	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1384627	45671251	89335265	803	12478											
AMBRA1	55626	broad.mit.edu	37	chr11	46564257	46564257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaggcactggttctgggcGggggcatggattccgcctca	7	8	16	10	2	2	1	1	0	1	1	3	2	3	2	2	6	0	3	2	6	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:46564257G>A	uc010rgu.1	-	7	1670	c.1310C>T	c.(1309-1311)CCG>CTG	p.P437L	AMBRA1_uc010rgt.1_Missense_Mutation_p.P3L|AMBRA1_uc009ylc.1_Missense_Mutation_p.P437L|AMBRA1_uc001ncu.1_Missense_Mutation_p.P347L|AMBRA1_uc001ncv.2_Missense_Mutation_p.P347L|AMBRA1_uc001ncw.2_Missense_Mutation_p.P347L|AMBRA1_uc001ncx.2_Missense_Mutation_p.P437L	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	437					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		GGTTCTGGGCGGGGGCATGGA	0.567													27	46					0	0	1	0	0		A	46564257	A	A	46564257	3	1	16	1	0	0	0	0	1	0	0	0	565	1116	39	1	2634	1	AMBRA1	11	46564257	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	893006	46564257	88442259	804	12479											
AMBRA1	55626	broad.mit.edu	37	chr11	46568814	46568814	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacctccgtaatatagataTtatggttcacatgggtggag	11	13	10	7	1	2	1	2	0	0	1	3	2	3	2	2	3	0	2	2	3	5	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:46568814T>G	uc010rgu.1	-	4	587	c.227A>C	c.(226-228)AAT>ACT	p.N76T	AMBRA1_uc009ylc.1_Missense_Mutation_p.N76T|AMBRA1_uc001ncu.1_Missense_Mutation_p.N76T|AMBRA1_uc001ncv.2_Missense_Mutation_p.N76T|AMBRA1_uc001ncw.2_Missense_Mutation_p.N76T|AMBRA1_uc001ncx.2_Missense_Mutation_p.N76T	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	76	WD 1.				autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		AATATAGATATTATGGTTCAC	0.448													35	96					0	0	1	0	0		G	46568814	G	G	46568814	3	3	16	1	0	0	0	0	1	0	0	0	565	1493	52	5	3463	5	AMBRA1	11	46568814	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	4557	46568814	88437702	805	12480											
OR4B1	119765	broad.mit.edu	37	chr11	48238681	48238681	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcttccacttctttggggTtgctgagatccttttgattg	4	19	9	9	0	2	2	0	2	2	1	4	3	4	2	2	2	1	2	2	2	0	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:48238681T>C	uc010rhs.1	+	1	320	c.320T>C	c.(319-321)GTT>GCT	p.V107A		NM_001005470	NP_001005470	Q8NGF8	OR4B1_HUMAN	olfactory receptor, family 4, subfamily B,	107	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|pancreas(1)	4						TTCTTTGGGGTTGCTGAGATC	0.423													60	111					0	0	1	0	0		C	48238681	C	C	48238681	3	2	16	1	0	0	0	0	1	0	0	0	11063	1725	60	3	322	3	OR4B1	11	48238681	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1669867	48238681	86767835	806	12481											
OR4X1	390113	broad.mit.edu	37	chr11	48286043	48286043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccgtagtcagtttcttcGtgctgatggcttcctacctg	4	16	9	12	2	3	1	1	1	2	0	6	1	4	1	3	1	2	4	3	1	2	5	rs61915300		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:48286043G>A	uc010rht.1	+	1	631	c.631G>A	c.(631-633)GTG>ATG	p.V211M		NM_001004726	NP_001004726	Q8NH49	OR4X1_HUMAN	olfactory receptor, family 4, subfamily X,	211	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3						CAGTTTCTTCGTGCTGATGGC	0.557													8	18					0	0	1	0	0		A	48286043	A	A	48286043	3	1	16	1	0	0	0	0	1	0	0	0	11103	1145	40	1	633	1	OR4X1	11	48286043	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	47362	48286043	86720473	807	12482											
OR4A16	81327	broad.mit.edu	37	chr11	55111418	55111419	+	Frame_Shift_Ins	INS	-	T	T																															catcattgtggttgccctcgINStttttgttccctgtattttt																								rs141537673		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:55111418_55111419insT	uc010rie.1	+	1	742_743	c.742_743insT	c.(742-744)GTTfs	p.V248fs		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						GGTTGCCCTCGTTTTTGTTCCC	0.396													19	44	---	---	---	---						.	T	55111419	T	T	55111418	7	5	16	1	0	1	1	0	0	0	0	0	11060	1145	40	0	744	0	OR4A16	11	55111418	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	6825375	55111418	79895098	808	12483											
OR8K5	219453	broad.mit.edu	37	chr11	55927379	55927379	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccagtacatgacacagtcGctgagacataataacataat	17	8	6	10	1	0	2	0	2	0	1	1	3	0	2	1	0	2	2	1	0	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:55927379G>A	uc010rja.1	-	1	415	c.415C>T	c.(415-417)CGA>TGA	p.R139*		NM_001004058	NP_001004058	Q8NH50	OR8K5_HUMAN	olfactory receptor, family 8, subfamily K,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(21;0.00693)	Lung NSC(402;0.197)|all_epithelial(135;0.236)				TGACACAGTCGCTGAGACATA	0.403													32	96					0	0	1	0	0		A	55927379	A	A	55927379	4	1	16	1	0	0	0	0	0	1	0	0	11264	1095	38	1	511	1	OR8K5	11	55927379	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	815961	55927379	79079137	809	12484											
OR8H1	219469	broad.mit.edu	37	chr11	56058017	56058017	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtgtcgcagaaaaagtgAcgaactacatttgagtcgca	14	8	11	8	4	0	3	0	2	0	1	2	5	0	3	0	0	2	2	0	0	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:56058017A>T	uc010rje.1	-	1	522	c.522T>A	c.(520-522)CGT>CGA	p.R174R		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	174	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					AGAAAAAGTGACGAACTACAT	0.448													12	88					0	0	1	0	0		T	56058017	T	T	56058017	2	4	16	1	0	0	0	0	0	0	0	1	11256	262	10	5		5	OR8H1	11	56058017	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	130638	56058017	78948499	810	12485											
GLYATL1	92292	broad.mit.edu	37	chr11	58723451	58723451	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtttctttgaggcctcctGtgagtggcaccaatggactt	6	14	12	9	0	1	2	0	2	1	0	2	3	2	3	3	4	0	2	3	4	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:58723451G>A	uc001nnf.2	+	8	1236	c.860G>A	c.(859-861)TGT>TAT	p.C287Y	uc001nng.1_Intron|GLYATL1_uc001nnh.1_Missense_Mutation_p.C318Y|GLYATL1_uc001nni.1_Missense_Mutation_p.C287Y|GLYATL1_uc001nnj.1_Missense_Mutation_p.C287Y			Q969I3	GLYL1_HUMAN	SubName: Full=Glycine acyltransferase family-C; SubName: Full=Glycine-N-acyltransferase-like 1, isoform CRA_a;	287						mitochondrion	glycine N-acyltransferase activity			ovary(1)	1					Glycine(DB00145)	GAGGCCTCCTGTGAGTGGCAC	0.423													32	45					0	0	1	0	0		A	58723451	A	A	58723451	3	1	16	1	0	0	0	0	1	0	0	0	6495	1377	48	4	979	4	GLYATL1	11	58723451	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2665434	58723451	76283065	811	12486											
FAM111A	63901	broad.mit.edu	37	chr11	58920101	58920101	+	Frame_Shift_Del	DEL	A	-	-																															ttcaagaaaaaaatgaaagtAaaaaatggggaaacattatt																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:58920101delA	uc010rkp.1	+	5	1187	c.960delA	c.(958-960)GTAfs	p.V320fs	FAM111A_uc010rkq.1_Frame_Shift_Del_p.V320fs|FAM111A_uc010rkr.1_Frame_Shift_Del_p.V320fs|FAM111A_uc001nno.2_Frame_Shift_Del_p.V320fs|FAM111A_uc001nnp.2_Frame_Shift_Del_p.V320fs|FAM111A_uc001nnq.2_Frame_Shift_Del_p.V320fs	NM_001142521	NP_001135993	Q96PZ2	F111A_HUMAN	hypothetical protein LOC63901	320					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_epithelial(135;0.139)				AAATGAAAGTAAAAAATGGGG	0.328													32	42	---	---	---	---						.	-	58920101	-	-	58920101	7	5	16	1	0	1	0	1	0	0	0	0	5410	349	13	0	966	0	FAM111A	11	58920101	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	196650	58920101	76086415	812	12487											
PATL1	219988	broad.mit.edu	37	chr11	59406604	59406604	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtttgtaggtatagagatTggcttggccagggctgcttg	7	13	16	5	0	0	1	0	0	0	1	0	2	0	1	1	5	1	6	1	5	3	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:59406604T>C	uc001noe.3	-	18	2351	c.2208A>G	c.(2206-2208)CCA>CCG	p.P736P		NM_152716	NP_689929	Q86TB9	PATL1_HUMAN	protein associated with topoisomerase II homolog	736	Region C.				cytoplasmic mRNA processing body assembly|deadenylation-dependent decapping of nuclear-transcribed mRNA	cytoplasmic mRNA processing body	protein binding|RNA binding			ovary(1)	1						GTATAGAGATTGGCTTGGCCA	0.478													22	41					0	0	1	0	0		C	59406604	C	C	59406604	2	2	16	1	0	0	0	0	0	0	0	1	11494	1799	63	3		3	PATL1	11	59406604	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	486503	59406604	75599912	813	12488											
MS4A15	219995	broad.mit.edu	37	chr11	60543097	60543097	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctgtgatcttcctgccaaAcgccttcagcgcagacttca	8	10	8	15	2	3	2	2	1	1	1	4	2	4	2	4	0	3	1	4	0	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:60543097A>C	uc009ynf.1	+	7	852	c.632A>C	c.(631-633)AAC>ACC	p.N211T	MS4A15_uc001npx.2_Missense_Mutation_p.N118T|MS4A15_uc001npy.2_RNA|MS4A15_uc009yng.1_Missense_Mutation_p.N170T	NM_001098835	NP_001092305	Q8N5U1	M4A15_HUMAN	membrane-spanning 4-domains, subfamily A, member	211						integral to membrane	receptor activity			lung(1)	1						TTCCTGCCAAACGCCTTCAGC	0.567											OREG0020991	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	46	97					0	0	1	0	0		C	60543097	C	C	60543097	3	2	16	1	0	0	0	0	1	0	0	0	9877	43	2	5	654	5	MS4A15	11	60543097	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1136493	60543097	74463419	814	12489											
INCENP	3619	broad.mit.edu	37	chr11	61912525	61912527	+	In_Frame_Del	DEL	GGA	-	-																															cagctgcgcaggcagaaggtGgaggaggacaagcggcggcg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:61912525_61912527delGGA	uc001nsw.1	+	12	1879_1881	c.1677_1679delGGA	c.(1675-1680)GTGGAG>GTG	p.E561del	INCENP_uc009ynw.1_In_Frame_Del_p.E561del|INCENP_uc001nsx.1_In_Frame_Del_p.E557del|INCENP_uc001nsy.1_5'UTR	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	561	Potential.				chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						GGCAGAAGGTGGAGGAGGACAAG	0.675													14	28	---	---	---	---						.	-	61912527	-	-	61912525	7	5	16	1	0	1	0	1	0	0	0	0	7749	1335	47	0	1719	0	INCENP	11	61912525	In_Frame_Del	DEL	GGA	TCGA-BR-4292-01A-01D-1126-08	1369428	61912525	73093991	815	12490											
AHNAK	79026	broad.mit.edu	37	chr11	62285596	62285596	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacctggccccttcagttcGccagaaacctgtggcccctt	7	9	8	17	1	1	1	1	0	0	1	2	1	1	1	7	2	1	1	7	2	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:62285596G>A	uc001ntl.2	-	5	16593	c.16293C>T	c.(16291-16293)GGC>GGT	p.G5431G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	5431					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CCTTCAGTTCGCCAGAAACCT	0.527													22	61					0	0	1	0	0		A	62285596	A	A	62285596	2	1	16	1	0	0	0	0	0	0	0	1	414	1074	38	1		1	AHNAK	11	62285596	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	373071	62285596	72720920	816	12491											
TUT1	64852	broad.mit.edu	37	chr11	62349015	62349015	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggccagctggtgactgtcGggggccgctcctttggggga	3	10	18	10	2	0	1	0	1	0	0	2	2	1	2	3	6	1	2	3	6	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:62349015G>A	uc001nto.2	-	3	584	c.546C>T	c.(544-546)CCC>CCT	p.P182P		NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	144					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						GGTGACTGTCGGGGGCCGCTC	0.652													11	14					0	0	1	0	0		A	62349015	A	A	62349015	2	1	16	1	0	0	0	0	0	0	0	1	16806	1103	39	1		1	TUT1	11	62349015	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	63419	62349015	72657501	817	12492											
TTC9C	283237	broad.mit.edu	37	chr11	62496491	62496491	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatctcggacctcagggcccGgccctcacgcctgaacaaga	10	5	10	16	3	3	2	2	1	1	1	4	3	3	3	4	3	1	0	4	3	3	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:62496491G>C	uc001nuy.2	+	1	540	c.171G>C	c.(169-171)CCG>CCC	p.P57P	HNRNPUL2_uc001nuu.1_5'Flank|HNRNPUL2_uc001nuw.2_5'Flank|TTC9C_uc001nux.2_Silent_p.P190P	NM_173810	NP_776171	Q8N5M4	TTC9C_HUMAN	tetratricopeptide repeat domain 9C	57							binding			ovary(1)|pancreas(1)	2						CTCAGGGCCCGGCCCTCACGC	0.547													36	53					0	0	1	0	0		C	62496491	C	C	62496491	2	2	16	1	0	0	0	0	0	0	0	1	16743	1103	39	5		5	TTC9C	11	62496491	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	147476	62496491	72510025	818	12493											
MARK2	2011	broad.mit.edu	37	chr11	63676573	63676573	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcacgccgggccacgaggActtcgtgcagtgggagatgg	7	5	18	11	5	0	1	0	0	0	1	1	4	0	2	2	5	1	2	2	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:63676573A>G	uc001nxw.2	+	19	2810	c.2231A>G	c.(2230-2232)GAC>GGC	p.D744G	MARK2_uc001nxx.2_Missense_Mutation_p.D675G|MARK2_uc001nxy.2_Missense_Mutation_p.D665G|MARK2_uc001nxv.3_Missense_Mutation_p.D680G|MARK2_uc001nxz.3_Missense_Mutation_p.D701G|MARK2_uc009yoy.2_Missense_Mutation_p.D655G	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	744	KA1.				cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						GGCCACGAGGACTTCGTGCAG	0.597													3	70					0	0	1	0	0		G	63676573	G	G	63676573	3	3	16	1	0	0	0	0	1	0	0	0	9331	275	10	3	2305	3	MARK2	11	63676573	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1180082	63676573	71329943	819	12494											
NAALADL1	10004	broad.mit.edu	37	chr11	64813303	64813303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacagactcacctgtagtagCgttcctctgggaaggctcta	9	10	11	11	1	3	1	1	0	2	1	4	3	4	2	2	2	1	4	2	2	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:64813303C>T	uc001ocn.2	-	17	2043	c.2027G>A	c.(2026-2028)CGC>CAC	p.R676H	NAALADL1_uc010rnw.1_Missense_Mutation_p.R152H|NAALADL1_uc009ypz.2_RNA	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	676	Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						CCTGTAGTAGCGTTCCTCTGG	0.612													11	26					0	0	1	0	0		T	64813303	T	T	64813303	3	4	16	1	0	0	0	0	1	0	0	0	10147	768	27	1	203	1	NAALADL1	11	64813303	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1136730	64813303	70193213	820	12495											
PCNXL3	399909	broad.mit.edu	37	chr11	65392970	65392970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accccttgccggacaagatgCgccagtcggtggtgaggggg	7	6	17	11	3	0	2	0	1	0	1	1	3	0	3	4	5	2	0	4	5	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:65392970C>T	uc001oey.2	+	18	3124	c.3124C>T	c.(3124-3126)CGC>TGC	p.R1042C	PCNXL3_uc009yqn.2_Missense_Mutation_p.R2C|PCNXL3_uc001oez.2_5'Flank	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1042						integral to membrane					0						GGACAAGATGCGCCAGTCGGT	0.701													4	18					0	0	1	0	0		T	65392970	T	T	65392970	3	4	16	1	0	0	0	0	1	0	0	0	11612	768	27	1	3194	1	PCNXL3	11	65392970	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	579667	65392970	69613546	821	12496											
DKFZp761E198	91056	broad.mit.edu	37	chr11	65547392	65547392	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggtgttgcgcaaagcgAgggccagcaacaggctgagt	11	5	15	10	2	0	1	0	1	0	0	0	2	0	1	2	3	4	4	2	3	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:65547392A>G	uc001ofo.3	-	1	431	c.401T>C	c.(400-402)CTC>CCC	p.L134P		NM_138368	NP_612377	Q2VPB7	YK046_HUMAN	hypothetical protein LOC91056	134	Leu-rich.						protein binding				0				READ - Rectum adenocarcinoma(159;0.167)		GCGCAAAGCGAGGGCCAGCAA	0.692													7	12					0	0	1	0	0		G	65547392	G	G	65547392	3	3	16	1	0	0	0	0	1	0	0	0	4549	304	11	3	2068	3	DKFZp761E198	11	65547392	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	154422	65547392	69459124	822	12497											
GAL3ST3	89792	broad.mit.edu	37	chr11	65810630	65810630	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcgtcgtcgcgcgggctgCgctcattgtcgccgcccagg	2	7	16	16	9	1	0	1	0	0	0	4	0	1	0	2	3	1	2	2	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:65810630C>T	uc001ogv.2	-	2	804	c.644G>A	c.(643-645)CGC>CAC	p.R215H	GAL3ST3_uc001ogw.2_Missense_Mutation_p.R215H	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	215	Lumenal (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						GCGCGGGCTGCGCTCATTGTC	0.667													5	11					0	0	1	0	0		T	65810630	T	T	65810630	3	4	16	1	0	0	0	0	1	0	0	0	6214	768	27	1	655	1	GAL3ST3	11	65810630	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	263238	65810630	69195886	823	12498											
PACS1	55690	broad.mit.edu	37	chr11	65998373	65998373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgagaggaccaacagttccGacagcgagcgctccccagat	11	5	12	13	3	0	2	0	1	0	2	2	6	2	3	4	1	3	2	4	1	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:65998373G>A	uc001oha.1	+	13	1722	c.1588G>A	c.(1588-1590)GAC>AAC	p.D530N	PACS1_uc010rou.1_Missense_Mutation_p.D66N	NM_018026	NP_060496	Q6VY07	PACS1_HUMAN	phosphofurin acidic cluster sorting protein 1	530					interspecies interaction between organisms|regulation of defense response to virus by virus|viral reproduction	cytosol	protein binding			ovary(6)	6						CAACAGTTCCGACAGCGAGCG	0.617													16	17					0	0	1	0	0		A	65998373	A	A	65998373	3	1	16	1	0	0	0	0	1	0	0	0	11391	1058	37	1	1638	1	PACS1	11	65998373	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	187743	65998373	69008143	824	12499											
RIN1	9610	broad.mit.edu	37	chr11	66099763	66099763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctactcctctgctgccCggcttccctctgcctctggt	3	12	8	18	1	3	0	0	0	3	0	5	0	5	0	4	2	5	3	4	2	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:66099763C>T	uc001ohn.1	-	10	2463	c.2336G>A	c.(2335-2337)CGG>CAG	p.R779Q	RIN1_uc010roy.1_Missense_Mutation_p.R410Q|RIN1_uc009yrd.1_Missense_Mutation_p.R472Q|RIN1_uc010roz.1_Missense_Mutation_p.R674Q|RIN1_uc010rpa.1_Missense_Mutation_p.R613Q	NM_004292	NP_004283	Q13671	RIN1_HUMAN	ras inhibitor RIN1	779					endocytosis|signal transduction	cytoplasm|cytoskeleton|plasma membrane	GTPase activator activity|protein binding			lung(2)|breast(1)	3						CTCTGCTGCCCGGCTTCCCTC	0.622													45	60					0	0	1	0	0		T	66099763	T	T	66099763	3	4	16	1	0	0	0	0	1	0	0	0	13396	652	23	1	19	1	RIN1	11	66099763	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	101390	66099763	68906753	825	12500											
DPP3	10072	broad.mit.edu	37	chr11	66249741	66249741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggactgccgtgaggccttcCgcctgctgtcacccacagag	6	8	12	15	2	1	2	1	1	0	1	2	3	2	3	5	2	2	1	5	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:66249741C>T	uc001oig.1	+	2	132	c.70C>T	c.(70-72)CGC>TGC	p.R24C	DPP3_uc001oif.1_Missense_Mutation_p.R24C|DPP3_uc010rpe.1_Missense_Mutation_p.R43C	NM_005700	NP_005691	Q9NY33	DPP3_HUMAN	dipeptidyl peptidase III	24					proteolysis	cytoplasm	aminopeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity			ovary(1)|skin(1)	2						TGAGGCCTTCCGCCTGCTGTC	0.642													10	27					0	0	1	0	0		T	66249741	T	T	66249741	3	4	16	1	0	0	0	0	1	0	0	0	4734	652	23	1	72	1	DPP3	11	66249741	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	149978	66249741	68756775	826	12501											
RBM14	10432	broad.mit.edu	37	chr11	66393068	66393068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgccaacagcaccccgcCgccctatgagcgtacccgcc	9	3	8	21	5	0	1	0	1	0	0	0	1	0	1	7	0	5	2	7	0	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:66393068C>T	uc001oit.2	+	2	1860	c.1721C>T	c.(1720-1722)CCG>CTG	p.P574L	RBM14_uc009yrh.2_Intron|RBM14_uc009yri.2_Intron|RBM4_uc009yrj.2_Intron|RBM4_uc009yrk.2_Intron	NM_006328	NP_006319	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	574					DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|histone deacetylation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus	mediator complex|ribonucleoprotein complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|protein binding, bridging|RNA binding|RNA polymerase II transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						AGCACCCCGCCGCCCTATGAG	0.662													4	12					0	0	1	0	0		T	66393068	T	T	66393068	3	4	16	1	0	0	0	0	1	0	0	0	13140	652	23	1	1727	1	RBM14	11	66393068	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	143327	66393068	68613448	827	12502											
KDM2A	22992	broad.mit.edu	37	chr11	67017609	67017609	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcaagccaaagtcctgcGgcccctgcggagctgcgatg	7	7	14	13	3	0	0	0	0	0	0	1	2	1	1	4	2	6	2	4	2	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:67017609G>T	uc001ojw.2	+	17	2972	c.2108G>T	c.(2107-2109)CGG>CTG	p.R703L	KDM2A_uc001ojx.2_RNA|KDM2A_uc001ojy.2_Missense_Mutation_p.R397L|KDM2A_uc010rpn.1_Missense_Mutation_p.R264L|KDM2A_uc001ojz.1_Missense_Mutation_p.R161L|KDM2A_uc001oka.2_5'Flank	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	703					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						AAAGTCCTGCGGCCCCTGCGG	0.572													3	14					0.0293803	0.0295587	1	1	0		T	67017609	T	T	67017609	3	4	16	1	0	0	0	0	1	0	0	0	8140	1116	39	5	2170	5	KDM2A	11	67017609	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	624541	67017609	67988907	828	12503											
ADRBK1	156	broad.mit.edu	37	chr11	67051736	67051736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccccctcaccatctcggagCggtggcagcaggaggtggca	7	6	14	14	2	2	0	1	0	1	0	4	2	3	2	3	6	2	3	3	6	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:67051736C>T	uc009yrn.1	+	18	1812	c.1546C>T	c.(1546-1548)CGG>TGG	p.R516W	ADRBK1_uc009yrm.1_Intron	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	516	AGC-kinase C-terminal.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	CATCTCGGAGCGGTGGCAGCA	0.592													21	34					0	0	1	0	0		T	67051736	T	T	67051736	3	4	16	1	0	0	0	0	1	0	0	0	343	759	27	1	1616	1	ADRBK1	11	67051736	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	34127	67051736	67954780	829	12504											
LRP5	4041	broad.mit.edu	37	chr11	68205952	68205952	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacgacagcccggcccacAgcagtgccatcgggcccgtc	8	3	12	18	4	0	1	0	0	0	1	2	2	0	1	4	2	3	1	4	2	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:68205952A>C	uc001ont.2	+	20	4225	c.4150A>C	c.(4150-4152)AGC>CGC	p.S1384R	LRP5_uc009ysg.2_Missense_Mutation_p.S794R	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1384	Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CCCGGCCCACAGCAGTGCCAT	0.592													10	30					0	0	1	0	0		C	68205952	C	C	68205952	3	2	16	1	0	0	0	0	1	0	0	0	8978	188	7	5	4228	5	LRP5	11	68205952	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1154216	68205952	66800564	830	12505											
MYEOV	26579	broad.mit.edu	37	chr11	69063312	69063312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagacgtggacgtgtcccGggccaggagggtcacagatg	10	5	17	9	3	1	3	1	0	0	3	2	5	2	5	2	4	0	0	2	4	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:69063312G>A	uc001oov.2	+	3	845	c.395G>A	c.(394-396)CGG>CAG	p.R132Q	MYEOV_uc001oox.2_Intron|MYEOV_uc009ysl.2_Missense_Mutation_p.R132Q|MYEOV_uc001oow.2_Missense_Mutation_p.R74Q	NM_138768	NP_620123	Q96EZ4	MYEOV_HUMAN	myeloma overexpressed	132											0	all_lung(4;2.21e-19)|Lung NSC(4;6.13e-19)|Melanoma(5;0.00128)		LUSC - Lung squamous cell carcinoma(11;3.33e-11)|STAD - Stomach adenocarcinoma(18;0.00654)|LUAD - Lung adenocarcinoma(13;0.0713)	Kidney(183;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.00361)|LUSC - Lung squamous cell carcinoma(976;0.0153)		GACGTGTCCCGGGCCAGGAGG	0.617													27	111					0	0	1	0	0		A	69063312	A	A	69063312	3	1	16	1	0	0	0	0	1	0	0	0	10043	1116	39	1	401	1	MYEOV	11	69063312	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	857360	69063312	65943204	831	12506											
LRTOMT	220074	broad.mit.edu	37	chr11	71806464	71806464	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtcccgtatcaccacgttCgacttcagtggggtcaccaa	8	10	9	14	3	3	0	3	0	0	0	5	1	4	0	3	2	0	2	3	2	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:71806464C>T	uc001orr.2	+	6	855	c.477C>T	c.(475-477)TTC>TTT	p.F159F	LRTOMT_uc009ysz.2_RNA|LRTOMT_uc010rqt.1_3'UTR|LRTOMT_uc010rqu.1_Silent_p.F141F|LRTOMT_uc009yta.2_RNA|LRTOMT_uc010rqv.1_Intron|LRTOMT_uc010rqw.1_Intron|LRTOMT_uc001ors.3_Intron|LRTOMT_uc010rqs.1_Intron	NM_145309	NP_660352	Q96E66	LRC51_HUMAN	leucine rich transmembrane and	159	LRRCT.					cytoplasm					0						TCACCACGTTCGACTTCAGTG	0.567													18	47					0	0	1	0	0		T	71806464	T	T	71806464	2	4	16	1	0	0	0	0	0	0	0	1	9064	883	31	1		1	LRTOMT	11	71806464	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2743152	71806464	63200052	832	12507											
FOLR2	2350	broad.mit.edu	37	chr11	71931995	71931995	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacctcccgcctgtacaacTttaactgggaccactgcggc	9	8	8	16	2	0	0	0	0	0	0	1	1	1	1	4	2	4	1	4	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:71931995T>G	uc009ytd.2	+	3	401	c.232T>G	c.(232-234)TTT>GTT	p.F78V	FOLR2_uc009yte.2_Missense_Mutation_p.F78V|FOLR2_uc001ose.3_Missense_Mutation_p.F78V|FOLR2_uc009ytf.2_Missense_Mutation_p.F78V	NM_001113534	NP_001107006	P14207	FOLR2_HUMAN	folate receptor 2 precursor	78					folic acid transport	anchored to membrane|extracellular region|membrane fraction|plasma membrane	folic acid binding|receptor activity			breast(2)|ovary(1)	3					Folic Acid(DB00158)	CCTGTACAACTTTAACTGGGA	0.602													5	19					0	0	1	0	0		G	71931995	G	G	71931995	3	3	16	1	0	0	0	0	1	0	0	0	5996	1609	56	5	238	5	FOLR2	11	71931995	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	125531	71931995	63074521	833	12508											
C2CD3	26005	broad.mit.edu	37	chr11	73785348	73785348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaggatgctgactgcaaacGttccatccaaatcagcaggg	12	8	10	11	1	1	1	1	1	0	0	3	2	3	2	2	2	4	4	2	2	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:73785348G>A	uc001ouu.2	-	24	5128	c.4901C>T	c.(4900-4902)ACG>ATG	p.T1634M	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1634	C2 2.					centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					GACTGCAAACGTTCCATCCAA	0.562													14	28					0	0	1	0	0		A	73785348	A	A	73785348	3	1	16	1	0	0	0	0	1	0	0	0	2157	1145	40	1	1022	1	C2CD3	11	73785348	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1853353	73785348	61221168	834	12509											
GDPD5	81544	broad.mit.edu	37	chr11	75146602	75146602	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtggctgccaccccctcGggggcccacaggggtggcgg	3	5	19	14	2	0	0	0	0	0	0	1	0	0	0	4	8	1	1	4	8	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:75146602G>A	uc001owo.3	-	18	2305	c.1768C>T	c.(1768-1770)CGA>TGA	p.R590*	GDPD5_uc001owp.3_Nonsense_Mutation_p.R590*|GDPD5_uc001own.3_Nonsense_Mutation_p.R345*|GDPD5_uc009yuc.2_Nonsense_Mutation_p.R452*|GDPD5_uc009yud.2_Nonsense_Mutation_p.R471*	NM_030792	NP_110419	Q8WTR4	GDPD5_HUMAN	glycerophosphodiester phosphodiesterase domain	590	Cytoplasmic (Potential).				glycerol metabolic process|lipid metabolic process|nervous system development	endomembrane system|growth cone|integral to membrane|perinuclear region of cytoplasm	glycerophosphodiester phosphodiesterase activity			ovary(1)	1						CCACCCCCTCGGGGGCCCACA	0.577													19	36					0	0	1	0	0		A	75146602	A	A	75146602	4	1	16	1	0	0	0	0	0	1	0	0	6342	1124	39	1	53	1	GDPD5	11	75146602	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1361254	75146602	59859914	835	12510											
CCDC81	60494	broad.mit.edu	37	chr11	86133684	86133684	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcaagcaatgccagaggcGcacctccaacgtgggcgaga	11	4	13	13	3	0	2	0	0	0	2	1	3	1	2	3	2	4	3	3	2	3	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:86133684G>A	uc001pbx.1	+	15	2314	c.1886G>A	c.(1885-1887)CGC>CAC	p.R629H	CCDC81_uc001pbw.1_Missense_Mutation_p.R539H|CCDC81_uc010rtq.1_Missense_Mutation_p.R412H|CCDC81_uc001pby.1_Missense_Mutation_p.R364H	NM_001156474	NP_001149946	Q6ZN84	CCD81_HUMAN	coiled-coil domain containing 81 isoform 1	629										skin(1)	1		Acute lymphoblastic leukemia(157;5.51e-06)|all_hematologic(158;0.00535)				TGCCAGAGGCGCACCTCCAAC	0.557													23	31					0	0	1	0	0		A	86133684	A	A	86133684	3	1	16	1	0	0	0	0	1	0	0	0	2858	1087	38	1	1944	1	CCDC81	11	86133684	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	10987082	86133684	48872832	836	12511											
ME3	10873	broad.mit.edu	37	chr11	86270753	86270753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccaggtcactctgctgcCgctcgtaatatctcatgatt	7	14	8	12	2	3	1	2	1	2	0	6	1	4	1	2	1	2	3	2	1	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:86270753C>T	uc001pbz.2	-	2	550	c.296G>A	c.(295-297)CGG>CAG	p.R99Q	ME3_uc001pca.2_Missense_Mutation_p.R99Q|ME3_uc009yvk.2_Missense_Mutation_p.R99Q|ME3_uc010rtr.1_RNA	NM_001014811	NP_001014811	Q16798	MAON_HUMAN	mitochondrial malic enzyme 3 precursor	99					aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)	ACTCTGCTGCCGCTCGTAATA	0.537													48	72					0	0	1	0	0		T	86270753	T	T	86270753	3	4	16	1	0	0	0	0	1	0	0	0	9437	652	23	1	1570	1	ME3	11	86270753	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	137069	86270753	48735763	837	12512											
GRM5	2915	broad.mit.edu	37	chr11	88780385	88780385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaggaaacttaccttctGtgtgcacggctgatacatag	12	10	10	9	1	1	1	0	1	1	0	1	2	1	2	1	2	4	3	1	2	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:88780385G>A	uc001pcq.2	-	1	856	c.656C>T	c.(655-657)ACA>ATA	p.T219I	GRM5_uc009yvm.2_Missense_Mutation_p.T219I|GRM5_uc009yvn.1_Missense_Mutation_p.T219I	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	219	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CTTACCTTCTGTGTGCACGGC	0.403													20	54					0	0	1	0	0		A	88780385	A	A	88780385	3	1	16	1	0	0	0	0	1	0	0	0	6816	1377	48	4	3018	4	GRM5	11	88780385	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2509632	88780385	46226131	838	12513											
FAT3	120114	broad.mit.edu	37	chr11	92088438	92088438	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctgttgttggatctgtaaagGaaaactcacgcattggaaca	13	11	10	7	1	2	0	1	0	1	0	2	3	2	3	0	3	2	4	0	3	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:92088438G>C	uc001pdj.3	+	1	3177	c.3160G>C	c.(3160-3162)GAA>CAA	p.E1054Q		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1054	Cadherin 10.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ATCTGTAAAGGAAAACTCACG	0.493										TCGA Ovarian(4;0.039)			20	47					0	0	1	0	0		C	92088438	C	C	92088438	3	2	16	1	0	0	0	0	1	0	0	0	5705	1175	41	5	3162	5	FAT3	11	92088438	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3308053	92088438	42918078	839	12514											
CWC15	51503	broad.mit.edu	37	chr11	94704653	94704653	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcatcctgagtagtctgtcTaaagtagaaacaaaccaggg	14	8	11	8	0	2	2	0	1	2	1	3	2	3	2	2	2	2	3	2	2	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:94704653T>C	uc001pfd.3	-	3	255	c.132_splice	c.e3-1	p.R44_splice	CWC15_uc009ywl.1_Intron|KDM4D_uc001pfe.2_5'Flank	NM_016403	NP_057487	Q9P013	CWC15_HUMAN	CWC15 homolog						nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome	protein binding|RNA binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GTAGTCTGTCTAAAGTAGAAA	0.383													10	19					0	0	1	0	0		C	94704653	C	C	94704653	5	2	16	1	0	0	0	0	0	0	1	0	4070	1536	53	3	578	3	CWC15	11	94704653	Splice_Site	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2616215	94704653	40301863	840	12515											
CCDC82	79780	broad.mit.edu	37	chr11	96086838	96086838	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaacttctcttcttgaaagTaatccgcaaaattgagatat	15	13	5	8	1	2	2	0	2	2	1	4	3	3	2	1	0	1	2	1	0	6	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:96086838T>C	uc009ywp.2	-	7	1850	c.1607A>G	c.(1606-1608)TAC>TGC	p.Y536C	CCDC82_uc009ywq.2_Missense_Mutation_p.Y536C|CCDC82_uc001pfx.3_Missense_Mutation_p.Y536C|CCDC82_uc009ywr.2_Missense_Mutation_p.Y536C	NM_024725	NP_079001	Q8N4S0	CCD82_HUMAN	coiled-coil domain containing 82	536							protein binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.154)		TTCTTGAAAGTAATCCGCAAA	0.313													27	63					0	0	1	0	0		C	96086838	C	C	96086838	3	2	16	1	0	0	0	0	1	0	0	0	2859	1638	57	3	31	3	CCDC82	11	96086838	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1382185	96086838	38919678	841	12516											
KIAA1377	57562	broad.mit.edu	37	chr11	101834523	101834523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgtgaagaaagttatccGtctgtgactctaagaactgc	11	13	10	7	1	2	4	0	2	2	2	3	4	3	4	1	0	2	2	1	0	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:101834523G>A	uc001pgm.2	+	6	3027	c.2757G>A	c.(2755-2757)CCG>CCA	p.P919P	KIAA1377_uc001pgn.2_Silent_p.P875P|KIAA1377_uc010run.1_Silent_p.P720P|KIAA1377_uc009yxa.1_Silent_p.P720P	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	919							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		AAAGTTATCCGTCTGTGACTC	0.403													14	143					0	0	1	0	0		A	101834523	A	A	101834523	2	1	16	1	0	0	0	0	0	0	0	1	8243	1132	40	1		1	KIAA1377	11	101834523	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	5747685	101834523	33171993	842	12517											
DYNC2H1	79659	broad.mit.edu	37	chr11	103058206	103058206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcagtactaatactggtcGtgtatacagaccaaaagact	16	10	7	8	1	1	2	1	0	0	2	2	2	1	2	1	1	3	2	1	1	8	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:103058206G>A	uc001pho.2	+	43	7175	c.7031G>A	c.(7030-7032)CGT>CAT	p.R2344H	DYNC2H1_uc001phn.1_Missense_Mutation_p.R2344H|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2344	AAA 3 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AATACTGGTCGTGTATACAGA	0.408													12	142					0	0	1	0	0		A	103058206	A	A	103058206	3	1	16	1	0	0	0	0	1	0	0	0	4852	1145	40	1	7201	1	DYNC2H1	11	103058206	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1223683	103058206	31948310	843	12518											
CARD16	114769	broad.mit.edu	37	chr11	104916053	104916053	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctcctacccttcttgtgtgGgctgaaactgaaagtatgtt	8	15	9	9	0	2	2	0	2	2	0	3	2	2	2	2	1	2	3	2	1	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:104916053G>T	uc001pip.1	-	1	1	c.-26_splice	c.e1-1		CASP1_uc010rve.1_Intron|CASP1_uc010rvf.1_Intron|CASP1_uc010rvg.1_Intron|CASP1_uc010rvh.1_Intron|CASP1_uc010rvi.1_Intron|CARD16_uc001pio.1_Splice_Site	NM_001017534	NP_001017534	Q5EG05	CAR16_HUMAN	caspase-1 dominant-negative inhibitor pseudo-ICE						regulation of apoptosis	intracellular	cysteine-type endopeptidase inhibitor activity			skin(1)	1						TTCTTGTGTGGGCTGAAACTG	0.458													6	96					3.59834e-05	3.68052e-05	1	1	0		T	104916053	T	T	104916053	5	4	16	1	0	0	0	0	0	0	1	0	2650	1247	43	5		5	CARD16	11	104916053	Splice_Site	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1857847	104916053	30090463	844	12519											
ATM	472	broad.mit.edu	37	chr11	108098419	108098419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatgatagagctacagaacGaaaggtagtaaattacttaa	19	9	8	5	1	0	3	0	1	0	2	0	4	0	3	0	1	4	3	0	1	9	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:108098419G>A	uc001pkb.1	+	2	453	c.68G>A	c.(67-69)CGA>CAA	p.R23Q	ATM_uc009yxr.1_Missense_Mutation_p.R23Q|ATM_uc001pkc.1_Missense_Mutation_p.R23Q	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	23			R -> Q (in a colorectal adenocarcinoma sample; somatic mutation).		cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding	p.R23Q(1)		haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		GCTACAGAACGAAAGGTAGTA	0.323			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			28	51					0	0	1	0	0		A	108098419	A	A	108098419	3	1	16	1	0	0	0	0	1	0	0	0	1110	1058	37	1	70	1	ATM	11	108098419	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3182366	108098419	26908097	845	12520											
EXPH5	23086	broad.mit.edu	37	chr11	108385068	108385068	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattggtgatggtgccctcAggaactcttcctggttctcc	5	13	10	13	0	3	1	1	1	2	0	5	2	4	2	4	4	2	1	4	4	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:108385068A>C	uc001pkk.2	-	6	1277	c.1166T>G	c.(1165-1167)CTG>CGG	p.L389R	EXPH5_uc010rvy.1_Missense_Mutation_p.L201R|EXPH5_uc010rvz.1_Missense_Mutation_p.L233R|EXPH5_uc010rwa.1_Missense_Mutation_p.L313R	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	389					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		TGGTGCCCTCAGGAACTCTTC	0.458													64	142					0	0	1	0	0		C	108385068	C	C	108385068	3	2	16	1	0	0	0	0	1	0	0	0	5330	188	7	5	4807	5	EXPH5	11	108385068	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	286649	108385068	26621448	846	12521											
RDX	5962	broad.mit.edu	37	chr11	110108291	110108291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcctcttcagcagctcgacGctccttttcaagtcgttctg	5	14	8	14	3	4	0	2	0	2	0	7	1	5	0	2	0	3	4	2	0	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:110108291G>A	uc001pku.2	-	11	1487	c.1177C>T	c.(1177-1179)CGT>TGT	p.R393C	RDX_uc009yxx.1_RNA|RDX_uc009yxy.2_Missense_Mutation_p.R393C|RDX_uc009yxz.2_Missense_Mutation_p.R46C|RDX_uc009yya.2_Intron|RDX_uc001pks.2_5'Flank|RDX_uc001pkt.2_Missense_Mutation_p.R47C|RDX_uc010rwe.1_Missense_Mutation_p.R257C	NM_002906	NP_002897	P35241	RADI_HUMAN	radixin	393	Glu-rich.				actin filament capping	cleavage furrow|cytoskeleton|extrinsic to membrane|Golgi apparatus|nucleolus|plasma membrane	actin binding				0		all_cancers(61;7.18e-13)|all_epithelial(67;2.61e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.13e-06)|BRCA - Breast invasive adenocarcinoma(274;9.75e-06)|all cancers(92;5.9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0248)		GCAGCTCGACGCTCCTTTTCA	0.433													22	41					0	0	1	0	0		A	110108291	A	A	110108291	3	1	16	1	0	0	0	0	1	0	0	0	13223	1087	38	1	590	1	RDX	11	110108291	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1723223	110108291	24898225	847	12522											
HTR3B	9177	broad.mit.edu	37	chr11	113803030	113803030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtggacattgaaagatacCctgaccttccctatgtttat	10	14	8	9	0	0	3	0	2	0	1	1	4	1	4	3	1	1	1	3	1	4	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:113803030C>T	uc001pok.2	+	5	455	c.388C>T	c.(388-390)CCT>TCT	p.P130S	HTR3B_uc001pol.2_Missense_Mutation_p.P119S	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	130	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		TGAAAGATACCCTGACCTTCC	0.423													35	96					0	0	1	0	0		T	113803030	T	T	113803030	3	4	16	1	0	0	0	0	1	0	0	0	7461	623	22	4	406	4	HTR3B	11	113803030	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3694739	113803030	21203486	848	12523											
CADM1	23705	broad.mit.edu	37	chr11	115088648	115088648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacatgttaactcaagcGcgtccccttcccgggttaag	8	11	8	14	3	2	0	2	0	0	0	4	0	4	0	3	1	2	2	3	1	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:115088648G>A	uc001ppi.3	-	6	914	c.785C>T	c.(784-786)GCG>GTG	p.A262V	CADM1_uc001ppf.3_Missense_Mutation_p.A262V|CADM1_uc001ppk.3_Missense_Mutation_p.A262V|CADM1_uc001ppj.3_Missense_Mutation_p.A262V|CADM1_uc001ppl.2_Missense_Mutation_p.A262V|CADM1_uc001pph.3_Missense_Mutation_p.A14V	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	262	Ig-like C2-type 2.|Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		TAACTCAAGCGCGTCCCCTTC	0.458													21	53					0	0	1	0	0		A	115088648	A	A	115088648	3	1	16	1	0	0	0	0	1	0	0	0	2569	1087	38	1	563	1	CADM1	11	115088648	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1285618	115088648	19917868	849	12524											
DSCAML1	57453	broad.mit.edu	37	chr11	117335741	117335741	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggaccaccaccccatacTgggcgaacttcttgaggttg	8	10	10	13	1	1	1	0	1	1	0	1	3	1	2	4	3	2	1	4	3	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:117335741T>C	uc001prh.1	-	17	3364	c.3362A>G	c.(3361-3363)CAG>CGG	p.Q1121R		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1061	Extracellular (Potential).|Fibronectin type-III 2.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CACCCCATACTGGGCGAACTT	0.622													24	55					0	0	1	0	0		C	117335741	C	C	117335741	3	2	16	1	0	0	0	0	1	0	0	0	4775	1580	55	3	3047	3	DSCAML1	11	117335741	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2247093	117335741	17670775	850	12525											
CXCR5	643	broad.mit.edu	37	chr11	118764511	118764511	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcagacacgcagttccacGgagaccttcctgttccacct	8	8	9	16	3	0	2	0	0	0	2	3	3	3	2	5	2	0	4	5	2	0	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:118764511G>A	uc001pue.3	+	2	368	c.258G>A	c.(256-258)ACG>ACA	p.T86T	CXCR5_uc001puf.2_Silent_p.T41T	NM_001716	NP_001707	P32302	CXCR5_HUMAN	Burkitt lymphoma receptor 1 isoform 1	86	Cytoplasmic (Potential).				B cell activation|cellular component movement	integral to plasma membrane	C-X-C chemokine receptor activity			breast(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.62e-05)		GCAGTTCCACGGAGACCTTCC	0.657													17	32					0	0	1	0	0		A	118764511	A	A	118764511	2	1	16	1	0	0	0	0	0	0	0	1	4097	1103	39	1		1	CXCR5	11	118764511	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1428770	118764511	16242005	851	12526											
HYOU1	10525	broad.mit.edu	37	chr11	118920545	118920545	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgtctcaaatacagacTccacctgaaaacaggttcaa	15	8	6	12	0	2	2	2	1	1	1	4	2	3	2	3	1	2	1	3	1	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:118920545T>G	uc001puu.2	-	15	1863	c.1670A>C	c.(1669-1671)GAG>GCG	p.E557A	HYOU1_uc001put.2_Missense_Mutation_p.E522A|HYOU1_uc010ryu.1_Missense_Mutation_p.E577A|HYOU1_uc010ryv.1_Missense_Mutation_p.E446A|HYOU1_uc001pux.3_Missense_Mutation_p.E557A|HYOU1_uc010ryw.1_RNA|HYOU1_uc001puw.1_Missense_Mutation_p.E557A	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	557						endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)		AAATACAGACTCCACCTGAAA	0.433													13	237					0	0	1	0	0		G	118920545	G	G	118920545	3	3	16	1	0	0	0	0	1	0	0	0	7486	1551	54	5	1377	5	HYOU1	11	118920545	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	156034	118920545	16085971	852	12527											
TRIM29	23650	broad.mit.edu	37	chr11	119993703	119993703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtatctcttcatggtgtccGgtgcactccactcacccccg	6	11	8	16	2	3	0	2	0	1	0	6	0	5	0	4	2	1	2	4	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:119993703G>A	uc001pwz.2	-	5	1518	c.1394C>T	c.(1393-1395)CCG>CTG	p.P465L	TRIM29_uc001pwx.2_5'Flank|TRIM29_uc001pwy.2_5'UTR|TRIM29_uc010rzi.1_Missense_Mutation_p.P204L|TRIM29_uc010rzj.1_Missense_Mutation_p.P198L|TRIM29_uc001pxa.2_RNA	NM_012101	NP_036233	Q14134	TRI29_HUMAN	tripartite motif protein TRIM29	465					transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(109;0.00117)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)		CATGGTGTCCGGTGCACTCCA	0.592													21	61					0	0	1	0	0		A	119993703	A	A	119993703	3	1	16	1	0	0	0	0	1	0	0	0	16529	1116	39	1	392	1	TRIM29	11	119993703	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1073158	119993703	15012813	853	12528											
TRIM29	23650	broad.mit.edu	37	chr11	120008291	120008291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcccgggggtagctgttcCgccgggtctccccgggctcc	1	7	16	17	5	1	0	0	0	1	0	4	0	3	0	6	5	1	4	6	5	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:120008291C>T	uc001pwz.2	-	1	573	c.449G>A	c.(448-450)CGG>CAG	p.R150Q	TRIM29_uc001pxa.2_RNA	NM_012101	NP_036233	Q14134	TRI29_HUMAN	tripartite motif protein TRIM29	150					transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(109;0.00117)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)		GTAGCTGTTCCGCCGGGTCTC	0.642													29	52					0	0	1	0	0		T	120008291	T	T	120008291	3	4	16	1	0	0	0	0	1	0	0	0	16529	652	23	1	1353	1	TRIM29	11	120008291	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	14588	120008291	14998225	854	12529											
ZNF202	7753	broad.mit.edu	37	chr11	123596771	123596771	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcctctgctgaagcttttTccacaggtagggcacgtgaa	9	12	10	10	1	1	2	0	2	1	0	3	2	3	2	2	2	2	4	2	2	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:123596771T>C	uc001pzd.1	-	9	2281	c.1881A>G	c.(1879-1881)GGA>GGG	p.G627G	ZNF202_uc001pzc.1_Silent_p.G403G|ZNF202_uc001pze.1_Silent_p.G627G|ZNF202_uc001pzf.1_Silent_p.G627G	NM_003455	NP_003446	O95125	ZN202_HUMAN	zinc finger protein 202	627	C2H2-type 8.				lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.03)		TGAAGCTTTTTCCACAGGTAG	0.517													30	71					0	0	1	0	0		C	123596771	C	C	123596771	2	2	16	1	0	0	0	0	0	0	0	1	17788	1770	62	3		3	ZNF202	11	123596771	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	3588480	123596771	11409745	855	12530											
OR10G4	390264	broad.mit.edu	37	chr11	123887208	123887208	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaagtagcacatcctcaGaggaaataaatactaggaag	19	6	9	7	0	1	1	1	0	0	1	2	4	2	3	1	2	2	2	1	2	8	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:123887208G>T	uc010sac.1	+	1	927	c.927G>T	c.(925-927)CAG>CAT	p.Q309H		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	309	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		CACATCCTCAGAGGAAATAAA	0.358													9	50					4.7546e-09	4.97372e-09	1	1	0		T	123887208	T	T	123887208	3	4	16	1	0	0	0	0	1	0	0	0	10920	933	33	5	929	5	OR10G4	11	123887208	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	290437	123887208	11119308	856	12531											
OR10G7	390265	broad.mit.edu	37	chr11	123909240	123909240	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtcaatatggtctggaCagcagagtgcagagagccac	14	6	13	8	0	2	2	1	0	1	2	2	5	2	3	1	2	3	2	1	2	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:123909240C>A	uc001pzq.1	-	1	469	c.469G>T	c.(469-471)GTC>TTC	p.V157F		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		ATGGTCTGGACAGCAGAGTGC	0.577													51	134					1.93348e-29	2.1203e-29	1	1	0		A	123909240	A	A	123909240	3	1	16	1	0	0	0	0	1	0	0	0	10921	478	17	5	470	5	OR10G7	11	123909240	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	22032	123909240	11097276	857	12532											
VSIG2	23584	broad.mit.edu	37	chr11	124619649	124619649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtaggaaaagttccaagacGcacccagttgtacactggct	12	9	10	10	1	0	1	0	0	0	1	1	2	1	2	2	2	1	6	2	2	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:124619649G>A	uc001qas.2	-	4	617	c.541C>T	c.(541-543)CGT>TGT	p.R181C	VSIG2_uc001qat.2_Missense_Mutation_p.R181C	NM_014312	NP_055127	Q96IQ7	VSIG2_HUMAN	V-set and immunoglobulin domain containing 2	181	Extracellular (Potential).|Ig-like C2-type.					integral to plasma membrane|membrane fraction				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.215)	Breast(109;0.00663)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0215)		GTTCCAAGACGCACCCAGTTG	0.552													51	85					0	0	1	0	0		A	124619649	A	A	124619649	3	1	16	1	0	0	0	0	1	0	0	0	17250	1087	38	1	458	1	VSIG2	11	124619649	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	710409	124619649	10386867	858	12533											
ARHGAP32	9743	broad.mit.edu	37	chr11	128840874	128840874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcagggacagactcggcgcGcaggtgcagcagcgggaccc	8	2	17	14	5	0	1	0	0	0	1	1	3	0	3	1	4	3	4	1	4	0	0	rs112097648		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:128840874G>A	uc009zcp.2	-	22	4192	c.4192C>T	c.(4192-4194)CGC>TGC	p.R1398C	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.R357C|ARHGAP32_uc001qez.2_Missense_Mutation_p.R1049C	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1398	Interaction with GAB2.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						GACTCGGCGCGCAGGTGCAGC	0.637													9	18					0	0	1	0	0		A	128840874	A	A	128840874	3	1	16	1	0	0	0	0	1	0	0	0	881	1087	38	1	2075	1	ARHGAP32	11	128840874	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4221225	128840874	6165642	859	12534											
OPCML	4978	broad.mit.edu	37	chr11	132307147	132307147	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atttttactttccgcacatcGggcgcagcgacatcgttcaa	9	12	8	12	5	1	0	1	0	0	0	4	1	2	0	1	1	2	3	1	1	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr11:132307147G>A	uc001qgs.2	-	4	683	c.633C>T	c.(631-633)CCC>CCT	p.P211P	OPCML_uc001qgu.2_Silent_p.P204P|OPCML_uc010sck.1_Silent_p.P211P|OPCML_uc001qgt.2_Silent_p.P210P|OPCML_uc010scl.1_Silent_p.P170P	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	211	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		TCCGCACATCGGGCGCAGCGA	0.537													12	49					0	0	1	0	0		A	132307147	A	A	132307147	2	1	16	1	0	0	0	0	0	0	0	1	10893	1103	39	1		1	OPCML	11	132307147	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3466273	132307147	2699369	860	12535											
IQSEC3	440073	broad.mit.edu	37	chr12	280307	280307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagccgcgctcagggagaggCcggcggagagcacggtggag	9	2	20	10	5	1	2	1	0	0	2	1	5	1	3	2	6	2	2	2	6	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:280307C>T	uc001qhw.1	+	10	2191	c.2185C>T	c.(2185-2187)CCG>TCG	p.P729S	IQSEC3_uc001qhu.1_Missense_Mutation_p.P729S	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	1032					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		CAGGGAGAGGCCGGCGGAGAG	0.612													8	18					0	0	1	0	0		T	280307	T	T	280307	3	4	16	1	0	0	0	0	1	0	0	0	7835	739	26	2	3144	2	IQSEC3	12	280307	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08		280307	133571588	861	12536											
ERC1	23085	broad.mit.edu	37	chr12	1481092	1481092	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaagacccaagaggaagtGgctgccctgaagcgggagaa	15	3	15	8	1	0	5	0	1	0	4	0	7	0	6	2	3	2	1	2	3	6	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:1481092G>T	uc001qjb.2	+	16	3115	c.2874G>T	c.(2872-2874)GTG>GTT	p.V958V	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Silent_p.V930V|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Silent_p.V958V|ERC1_uc010sdv.1_Silent_p.V666V|ERC1_uc001qje.2_RNA	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	958	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			AAGAGGAAGTGGCTGCCCTGA	0.507													5	18					0.000274275	0.000279161	1	1	0		T	1481092	T	T	1481092	2	4	16	1	0	0	0	0	0	0	0	1	5218	1335	47	5		5	ERC1	12	1481092	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1200785	1481092	132370803	862	12537											
WNT5B	81029	broad.mit.edu	37	chr12	1755092	1755092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggagaagtacgacagcGcggccgccatgcgcgtcacc	10	4	14	13	6	1	2	1	1	0	1	1	4	1	2	3	2	3	1	3	2	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:1755092G>A	uc009zdq.2	+	5	996	c.754G>A	c.(754-756)GCG>ACG	p.A252T	WNT5B_uc001qjj.2_Missense_Mutation_p.A252T|WNT5B_uc001qjk.2_Missense_Mutation_p.A252T|WNT5B_uc001qjl.2_Missense_Mutation_p.A252T	NM_032642	NP_116031	Q9H1J7	WNT5B_HUMAN	wingless-type MMTV integration site family,	252					angiogenesis|anterior/posterior pattern formation|cell migration involved in gastrulation|cellular response to retinoic acid|chondrocyte differentiation|convergent extension involved in axis elongation|convergent extension involved in gastrulation|dorsal/ventral axis specification|endocrine pancreas development|fat cell differentiation|lens fiber cell development|negative regulation of canonical Wnt receptor signaling pathway|neuron differentiation|positive regulation of cell migration|positive regulation of fat cell differentiation|respiratory system development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding			skin(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00109)			GTACGACAGCGCGGCCGCCAT	0.692													7	9					0	0	1	0	0		A	1755092	A	A	1755092	3	1	16	1	0	0	0	0	1	0	0	0	17418	1087	38	1	768	1	WNT5B	12	1755092	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	274000	1755092	132096803	863	12538											
TEAD4	7004	broad.mit.edu	37	chr12	3128323	3128323	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctatgctgtccagcctccGctgcctctgccaggtgggtg	4	10	12	15	1	1	0	0	0	1	0	3	0	3	0	6	2	4	2	6	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:3128323G>A	uc010sej.1	+	8	844	c.567G>A	c.(565-567)CCG>CCA	p.P189P	TEAD4_uc010sek.1_Silent_p.P146P|TEAD4_uc001qln.2_Silent_p.P61P	NM_003213	NP_003204	Q15561	TEAD4_HUMAN	TEA domain family member 4 isoform 1	190					hippo signaling cascade|muscle organ development|skeletal system development		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(42;0.211)		OV - Ovarian serous cystadenocarcinoma(31;0.000563)|COAD - Colon adenocarcinoma(12;0.0831)			TCCAGCCTCCGCTGCCTCTGC	0.687													7	18					0	0	1	0	0		A	3128323	A	A	3128323	2	1	16	1	0	0	0	0	0	0	0	1	15766	1074	38	1		1	TEAD4	12	3128323	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1373231	3128323	130723572	864	12539											
PEX5	5830	broad.mit.edu	37	chr12	7362774	7362774	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctatggggcagccgacgcGcgggatctgtccaccctcct	5	7	13	16	4	1	0	0	0	1	0	3	2	3	1	5	3	1	1	5	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:7362774G>A	uc009zfu.1	+	17	2455	c.1875G>A	c.(1873-1875)GCG>GCA	p.A625A	PEX5_uc001qsw.2_Silent_p.A625A|PEX5_uc010sgc.1_Silent_p.A640A|PEX5_uc001qsu.2_Silent_p.A588A|PEX5_uc010sgd.1_Silent_p.A646A|PEX5_uc001qsv.2_Silent_p.A617A	NM_001131026	NP_001124498	P50542	PEX5_HUMAN	peroxisomal biogenesis factor 5 isoform d	625					protein import into peroxisome matrix, translocation|protein targeting to peroxisome|protein tetramerization|protein transport	cytosol|peroxisomal matrix|peroxisomal membrane	peroxisome matrix targeting signal-1 binding|protein C-terminus binding|protein N-terminus binding			ovary(1)	1						CAGCCGACGCGCGGGATCTGT	0.617													17	29					0	0	1	0	0		A	7362774	A	A	7362774	2	1	16	1	0	0	0	0	0	0	0	1	11767	1074	38	1		1	PEX5	12	7362774	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4234451	7362774	126489121	865	12540											
ACSM4	341392	broad.mit.edu	37	chr12	7475033	7475033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatataaattcaagagtctgCggcactgcttgaccggaggg	11	9	13	8	2	2	2	1	1	1	1	2	4	2	3	1	3	2	2	1	3	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:7475033C>T	uc001qsx.1	+	7	1021	c.1021C>T	c.(1021-1023)CGG>TGG	p.R341W		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	341					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						CAAGAGTCTGCGGCACTGCTT	0.512													7	49					0	0	1	0	0		T	7475033	T	T	7475033	3	4	16	1	0	0	0	0	1	0	0	0	186	759	27	1	1047	1	ACSM4	12	7475033	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	112259	7475033	126376862	866	12541											
CD163	9332	broad.mit.edu	37	chr12	7649629	7649629	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcgtaactgtcccagccGtcatcacatattgtccccca	9	10	6	16	2	2	0	2	0	0	0	5	0	4	0	4	0	2	2	4	0	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:7649629G>A	uc001qsz.3	-	5	1007	c.879C>T	c.(877-879)GAC>GAT	p.D293D	CD163_uc001qta.3_Silent_p.D293D|CD163_uc009zfw.2_Silent_p.D293D	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	293	SRCR 3.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						TGTCCCAGCCGTCATCACATA	0.507													22	40					0	0	1	0	0		A	7649629	A	A	7649629	2	1	16	1	0	0	0	0	0	0	0	1	2970	1136	40	1		1	CD163	12	7649629	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	174596	7649629	126202266	867	12542											
KLRG1	10219	broad.mit.edu	37	chr12	9144878	9144878	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgcagttcttctgagtgtGctgctataccagtggatcct	7	14	10	10	0	2	1	0	1	2	0	3	2	3	2	2	1	4	4	2	1	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:9144878G>A	uc001qvh.2	+	2	170	c.159G>A	c.(157-159)GTG>GTA	p.V53V	KLRG1_uc001qvg.2_Silent_p.V53V	NM_005810	NP_005801	Q96E93	KLRG1_HUMAN	killer cell lectin-like receptor subfamily G,	53	Helical; Signal-anchor for type II membrane protein; (Potential).				cell surface receptor linked signaling pathway|cellular defense response|inflammatory response|regulation of immune response	integral to membrane	receptor activity|sugar binding			central_nervous_system(1)	1						TTCTGAGTGTGCTGCTATACC	0.413													46	115					0	0	1	0	0		A	9144878	A	A	9144878	2	1	16	1	0	0	0	0	0	0	0	1	8437	1306	46	2		2	KLRG1	12	9144878	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1495249	9144878	124707017	868	12543											
A2M	2	broad.mit.edu	37	chr12	9231878	9231878	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgccatatcgctccccaaaGgtgctgtaggagccatcata	10	9	9	13	1	1	0	1	0	0	0	3	1	2	1	4	2	3	3	4	2	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:9231878G>T	uc001qvk.1	-	25	3194	c.3081C>A	c.(3079-3081)ACC>ACA	p.T1027T	A2M_uc001qvj.1_Silent_p.T69T|A2M_uc009zgk.1_Silent_p.T877T	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1027					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GCTCCCCAAAGGTGCTGTAGG	0.348													11	27					3.27435e-08	3.3995e-08	1	1	0		T	9231878	T	T	9231878	2	4	16	1	0	0	0	0	0	0	0	1	4	987	35	5		5	A2M	12	9231878	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	87000	9231878	124620017	869	12544											
A2M	2	broad.mit.edu	37	chr12	9246145	9246145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcttcaacatgcaccaggCgtgcatggcctcttcccatt	7	11	8	15	1	3	0	1	0	2	0	4	0	4	0	3	2	3	3	3	2	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:9246145C>T	uc001qvk.1	-	18	2269	c.2156G>A	c.(2155-2157)CGC>CAC	p.R719H	A2M_uc009zgk.1_Missense_Mutation_p.R569H	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	719	Bait region.|Inhibitory.				blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	ATGCACCAGGCGTGCATGGCC	0.443													14	32					0	0	1	0	0		T	9246145	T	T	9246145	3	4	16	1	0	0	0	0	1	0	0	0	4	768	27	1	2344	1	A2M	12	9246145	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	14267	9246145	124605750	870	12545											
PZP	5858	broad.mit.edu	37	chr12	9318694	9318694	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtctcaggaaaatagcttcGcaccgtttcagggactggcc	10	9	11	11	2	2	0	2	0	1	0	4	2	2	2	2	3	1	3	2	3	3	3	rs150067154		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:9318694G>A	uc001qvl.2	-	18	2241	c.2212C>T	c.(2212-2214)CGA>TGA	p.R738*	PZP_uc009zgl.2_Nonsense_Mutation_p.R607*|PZP_uc010sgo.1_RNA|PZP_uc009zgm.1_Nonsense_Mutation_p.R70*	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						AAATAGCTTCGCACCGTTTCA	0.448													61	97					0	0	1	0	0		A	9318694	A	A	9318694	4	1	16	1	0	0	0	0	0	1	0	0	12894	1095	38	1	2312	1	PZP	12	9318694	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	72549	9318694	124533201	871	12546											
PZP	5858	broad.mit.edu	37	chr12	9353635	9353635	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgagactctgccattgtgCaattcgatttcttcttgggt	6	17	9	9	1	3	1	0	1	3	1	4	3	3	1	1	1	2	1	1	1	1	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:9353635C>A	uc001qvl.2	-	6	552	c.523G>T	c.(523-525)GCA>TCA	p.A175S	PZP_uc009zgl.2_Missense_Mutation_p.A44S	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						TGCCATTGTGCAATTCGATTT	0.458													21	71					2.39556e-15	2.57924e-15	1	1	0		A	9353635	A	A	9353635	3	1	16	1	0	0	0	0	1	0	0	0	12894	710	25	5	4049	5	PZP	12	9353635	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	34941	9353635	124498260	872	12547											
MAGOHB	55110	broad.mit.edu	37	chr12	10762434	10762434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcactaaatacaaacctgtCggccaaccctatcaggggga	14	7	8	12	1	2	0	2	0	0	0	3	1	2	1	3	3	3	0	3	3	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:10762434C>T	uc001qyq.1	-	3	312	c.260G>A	c.(259-261)CGA>CAA	p.R87Q	MAGOHB_uc001qyr.1_RNA	NM_018048	NP_060518	Q96A72	MGN2_HUMAN	mago-nashi homolog B	87					mRNA processing|mRNA transport|RNA splicing	nucleus	RNA binding			breast(1)	1						ACAAACCTGTCGGCCAACCCT	0.338													8	20					0	0	1	0	0		T	10762434	T	T	10762434	3	4	16	1	0	0	0	0	1	0	0	0	9213	884	31	1	198	1	MAGOHB	12	10762434	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1408799	10762434	123089461	873	12548											
DUSP16	80824	broad.mit.edu	37	chr12	12630345	12630345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctgtctgaaggcctggCggtctgcagcttcttgggga	4	11	16	10	1	3	1	0	1	3	0	3	2	3	2	1	6	2	3	1	6	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:12630345C>T	uc001rao.1	-	7	2052	c.1420G>A	c.(1420-1422)GCC>ACC	p.A474T	DUSP16_uc001ram.1_5'Flank|DUSP16_uc001ran.1_Missense_Mutation_p.A326T	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	474					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		GAAGGCCTGGCGGTCTGCAGC	0.567													11	92					0	0	1	0	0		T	12630345	T	T	12630345	3	4	16	1	0	0	0	0	1	0	0	0	4822	768	27	1	581	1	DUSP16	12	12630345	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1867911	12630345	121221550	874	12549											
PLCZ1	89869	broad.mit.edu	37	chr12	18889158	18889158	+	Frame_Shift_Del	DEL	A	-	-																															ggtggatgtcatcttaccttAaaaatctgtttcacatgaat																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:18889158delA	uc010sid.1	-	3	323	c.132delT	c.(130-132)TTTfs	p.F44fs	PLCZ1_uc001rdv.3_5'UTR|PLCZ1_uc001rdw.3_5'UTR|CAPZA3_uc001rdy.2_5'Flank	NM_033123	NP_149114	Q86YW0	PLCZ1_HUMAN	phospholipase C, zeta 1	44	EF-hand.				intracellular signal transduction|lipid catabolic process|multicellular organismal development	nucleus|perinuclear region of cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)					ATCTTACCTTAAAAATCTGTT	0.353													19	34	---	---	---	---						.	-	18889158	-	-	18889158	7	5	16	1	0	1	0	1	0	0	0	0	12063	359	13	0	1746	0	PLCZ1	12	18889158	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	6258813	18889158	114962737	875	12550											
PDE3A	5139	broad.mit.edu	37	chr12	20806894	20806894	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttctagggtgatgaagaggCcagccttggattacccataa	11	11	11	8	0	1	3	0	2	1	1	1	4	1	4	3	3	2	0	3	3	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:20806894C>A	uc001reh.1	+	15	2961	c.2939C>A	c.(2938-2940)GCC>GAC	p.A980D		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	980	Catalytic (By similarity).				lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	GATGAAGAGGCCAGCCTTGGA	0.453													21	51					6.33239e-15	6.81348e-15	1	1	0		A	20806894	A	A	20806894	3	1	16	1	0	0	0	0	1	0	0	0	11656	739	26	5	2997	5	PDE3A	12	20806894	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1917736	20806894	113045001	876	12551											
ABCC9	10060	broad.mit.edu	37	chr12	22005053	22005053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctaattcttgatcttgcCgattcataagtgttttccag	8	19	6	8	1	4	1	1	1	3	0	5	2	5	1	2	0	1	1	2	0	2	9			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:22005053C>T	uc001rfi.1	-	22	2767	c.2747G>A	c.(2746-2748)CGG>CAG	p.R916Q	ABCC9_uc001rfh.2_Missense_Mutation_p.R916Q|ABCC9_uc001rfj.1_Missense_Mutation_p.R880Q	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	916	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TTGATCTTGCCGATTCATAAG	0.353													12	22					0	0	1	0	0		T	22005053	T	T	22005053	3	4	16	1	0	0	0	0	1	0	0	0	59	652	23	1	2112	1	ABCC9	12	22005053	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1198159	22005053	111846842	877	12552											
SOX5	6660	broad.mit.edu	37	chr12	23999074	23999074	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttctgccttctgaggtgaGgtagatgagttgtgtggggc	5	14	16	6	0	3	4	0	3	3	1	3	4	3	4	1	4	1	2	1	4	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:23999074G>T	uc001rfw.2	-	3	426	c.324C>A	c.(322-324)ACC>ACA	p.T108T	SOX5_uc001rfx.2_Silent_p.T95T|SOX5_uc001rfy.2_Silent_p.T95T|SOX5_uc010siv.1_Silent_p.T95T|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Silent_p.T60T|SOX5_uc001rga.2_Silent_p.T73T	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	108					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TCTGAGGTGAGGTAGATGAGT	0.468													23	72					9.04412e-07	9.34296e-07	1	1	0		T	23999074	T	T	23999074	2	4	16	1	0	0	0	0	0	0	0	1	14979	987	35	5		5	SOX5	12	23999074	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1994021	23999074	109852821	878	12553											
RASSF8	11228	broad.mit.edu	37	chr12	26217838	26217838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagttgaagaagctaatcCgtctgcagacagagaagctt	14	9	11	7	1	1	5	0	2	1	3	2	6	2	5	1	0	3	4	1	0	4	3	rs146204306	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:26217838C>T	uc001rgx.2	+	3	732	c.511C>T	c.(511-513)CGT>TGT	p.R171C	RASSF8_uc001rgy.2_Missense_Mutation_p.R171C|RASSF8_uc001rgz.2_Missense_Mutation_p.R171C|RASSF8_uc009zjd.1_Missense_Mutation_p.R171C|RASSF8_uc009zje.1_Missense_Mutation_p.R171C	NM_007211	NP_009142	Q8NHQ8	RASF8_HUMAN	Ras association (RalGDS/AF-6) domain family	171					signal transduction						0	Colorectal(261;0.0847)					GAAGCTAATCCGTCTGCAGAC	0.358													34	81					0	0	1	0	0		T	26217838	T	T	26217838	3	4	16	1	0	0	0	0	1	0	0	0	13117	652	23	1	517	1	RASSF8	12	26217838	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2218764	26217838	107634057	879	12554											
ITPR2	3709	broad.mit.edu	37	chr12	26752167	26752167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcaggtactccacgtggcGgccatgtgtctcaatgcagt	7	10	11	13	2	2	0	2	0	1	0	4	0	3	0	3	3	2	2	3	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:26752167G>A	uc001rhg.2	-	30	4330	c.3913C>T	c.(3913-3915)CGC>TGC	p.R1305C		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1305	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					TCCACGTGGCGGCCATGTGTC	0.423													59	117					0	0	1	0	0		A	26752167	A	A	26752167	3	1	16	1	0	0	0	0	1	0	0	0	7937	1116	39	1	4304	1	ITPR2	12	26752167	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	534329	26752167	107099728	880	12555											
KLHDC5	57542	broad.mit.edu	37	chr12	27950929	27950929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgtgcgctccataacgacGgcatctacatcatgagcaga	11	9	9	12	3	2	2	1	1	1	1	3	3	3	2	1	1	4	3	1	1	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:27950929G>A	uc001rij.2	+	3	1425	c.1348G>A	c.(1348-1350)GGC>AGC	p.G450S	KLHDC5_uc009zjj.2_RNA	NM_020782	NP_065833	Q9P2K6	KLDC5_HUMAN	kelch domain containing 5	450	Kelch 6.									ovary(1)|central_nervous_system(1)	2	Lung SC(9;0.0873)					CCATAACGACGGCATCTACAT	0.517													17	31					0	0	1	0	0		A	27950929	A	A	27950929	3	1	16	1	0	0	0	0	1	0	0	0	8375	1116	39	1	1358	1	KLHDC5	12	27950929	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1198762	27950929	105900966	881	12556											
FAR2	55711	broad.mit.edu	37	chr12	29423430	29423430	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagtccattctcatcacGggggccacaggctttctggg	7	9	13	12	1	3	0	2	0	2	0	5	0	4	0	2	5	0	2	2	5	1	2	rs149661674		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:29423430G>A	uc001ris.3	+	2	195	c.48G>A	c.(46-48)ACG>ACA	p.T16T	FAR2_uc001rit.2_Silent_p.T16T|FAR2_uc009zjm.2_Intron	NM_018099	NP_060569	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	16					ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0						TTCTCATCACGGGGGCCACAG	0.507													17	23					0	0	1	0	0		A	29423430	A	A	29423430	2	1	16	1	0	0	0	0	0	0	0	1	5689	1103	39	1		1	FAR2	12	29423430	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1472501	29423430	104428465	882	12557											
DDX11	1663	broad.mit.edu	37	chr12	31249595	31249595	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggattcactgaacggtacGgagcagtgttctcatcccgg	8	11	12	10	3	2	1	2	1	1	0	4	3	3	3	1	4	3	3	1	4	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:31249595G>A	uc001rjt.1	+	16	1797	c.1546G>A	c.(1546-1548)GGA>AGA	p.G516R	DDX11_uc001rjr.1_Missense_Mutation_p.G516R|DDX11_uc001rjs.1_Missense_Mutation_p.G516R|DDX11_uc001rju.1_Missense_Mutation_p.G194R|DDX11_uc001rjv.1_Missense_Mutation_p.G516R|DDX11_uc001rjw.1_Missense_Mutation_p.G490R|DDX11_uc009zjn.1_RNA	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	516					G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					TGAACGGTACGGAGCAGTGTT	0.592										Multiple Myeloma(12;0.14)			22	40					0	0	1	0	0		A	31249595	A	A	31249595	3	1	16	1	0	0	0	0	1	0	0	0	4346	1117	39	1	1604	1	DDX11	12	31249595	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1826165	31249595	102602300	883	12558											
CPNE8	144402	broad.mit.edu	37	chr12	39223184	39223184	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattaaaaaatacttacactAttggtttttccaggcgactt	14	15	5	7	1	0	0	0	0	0	0	1	1	1	0	1	2	2	1	1	2	7	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:39223184A>G	uc001rls.1	-	6	488	c.404T>C	c.(403-405)ATA>ACA	p.I135T		NM_153634	NP_705898	Q86YQ8	CPNE8_HUMAN	copine VIII	135										pancreas(1)	1	Esophageal squamous(101;0.187)	Lung NSC(34;0.137)|Melanoma(24;0.152)|all_lung(34;0.157)				TACTTACACTATTGGTTTTTC	0.368													4	192					0	0	1	0	0		G	39223184	G	G	39223184	3	3	16	1	0	0	0	0	1	0	0	0	3821	449	16	3	1350	3	CPNE8	12	39223184	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	7973589	39223184	94628711	884	12559											
PRICKLE1	144165	broad.mit.edu	37	chr12	42859016	42859016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaagcaggcttccgtggCgtgccagtgctgcccgtcat	8	8	13	12	3	1	1	1	0	0	1	2	1	2	1	3	2	4	3	3	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:42859016C>T	uc010skv.1	-	7	1107	c.820G>A	c.(820-822)GCC>ACC	p.A274T	PRICKLE1_uc001rnl.2_Missense_Mutation_p.A274T|PRICKLE1_uc010skw.1_Missense_Mutation_p.A274T|PRICKLE1_uc001rnm.2_Missense_Mutation_p.A274T	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	274	LIM zinc-binding 3.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		GCTTCCGTGGCGTGCCAGTGC	0.473													15	51					0	0	1	0	0		T	42859016	T	T	42859016	3	4	16	1	0	0	0	0	1	0	0	0	12508	768	27	1	1683	1	PRICKLE1	12	42859016	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3635832	42859016	90992879	885	12560											
ARID2	196528	broad.mit.edu	37	chr12	46246296	46246296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcagatgtgcctcagcaaCgcccaagtgtagttgtctca	10	11	9	11	1	3	1	3	0	1	1	4	1	3	1	2	0	3	3	2	0	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:46246296C>T	uc001ros.1	+	15	4390	c.4390C>T	c.(4390-4392)CGC>TGC	p.R1464C	ARID2_uc001ror.2_Missense_Mutation_p.R1464C|ARID2_uc009zkg.1_Missense_Mutation_p.R920C|ARID2_uc009zkh.1_Missense_Mutation_p.R1091C|ARID2_uc001rou.1_Missense_Mutation_p.R798C	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1464					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		GCCTCAGCAACGCCCAAGTGT	0.438													56	98					0	0	1	0	0		T	46246296	T	T	46246296	3	4	16	1	0	0	0	0	1	0	0	0	915	536	19	1	4448	1	ARID2	12	46246296	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3387280	46246296	87605599	886	12561											
ZNF641	121274	broad.mit.edu	37	chr12	48737355	48737355	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcttcctgaagaaaaggggGccccaggagcattcctctgg	10	8	12	11	0	2	2	0	1	2	1	4	3	4	3	4	4	1	1	4	4	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:48737355G>C	uc001rrn.1	-	6	883	c.718C>G	c.(718-720)CCC>GCC	p.P240A	ZNF641_uc001rro.1_Missense_Mutation_p.P226A|ZNF641_uc010sls.1_Missense_Mutation_p.P217A	NM_152320	NP_689533	Q96N77	ZN641_HUMAN	zinc finger protein 641	240	Transactivation.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						AGAAAAGGGGGCCCCAGGAGC	0.517													3	41					0	0	1	0	0		C	48737355	C	C	48737355	3	2	16	1	0	0	0	0	1	0	0	0	18082	1203	42	5	602	5	ZNF641	12	48737355	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2491059	48737355	85114540	887	12562											
PRPF40B	25766	broad.mit.edu	37	chr12	50025223	50025223	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccccaccctttcctccgatgGggctaccccccatgagtcag	6	8	8	19	1	1	1	1	1	0	0	3	2	3	1	8	2	1	1	8	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:50025223G>T	uc001rur.1	+	2	122	c.58G>T	c.(58-60)GGG>TGG	p.G20W	PRPF40B_uc001rup.1_Missense_Mutation_p.G42W|PRPF40B_uc001ruq.1_Missense_Mutation_p.G14W|PRPF40B_uc001rus.1_5'Flank	NM_001031698	NP_001026868	Q6NWY9	PR40B_HUMAN	Huntingtin interacting protein C isoform 1	20	Pro-rich.				mRNA processing|RNA splicing	nuclear speck				skin(2)|ovary(1)|pancreas(1)|kidney(1)	5						TCCTCCGATGGGGCTACCCCC	0.602													23	74					8.58068e-18	9.2808e-18	1	1	0		T	50025223	T	T	50025223	3	4	16	1	0	0	0	0	1	0	0	0	12594	1232	43	5	64	5	PRPF40B	12	50025223	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1287868	50025223	83826672	888	12563											
RACGAP1	29127	broad.mit.edu	37	chr12	50386088	50386088	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctggattgggcacagcatgGgccactattgtagggccaaa	10	9	13	9	0	1	0	0	0	1	0	1	1	1	1	2	4	1	3	2	4	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:50386088G>C	uc001rvt.2	-	16	1828	c.1518C>G	c.(1516-1518)GCC>GCG	p.A506A	RACGAP1_uc009zlm.1_Silent_p.A506A|RACGAP1_uc001rvs.2_Silent_p.A506A|RACGAP1_uc001rvu.2_Silent_p.A506A	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1	506	Rho-GAP.				blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						GCACAGCATGGGCCACTATTG	0.448													31	75					0	0	1	0	0		C	50386088	C	C	50386088	2	2	16	1	0	0	0	0	0	0	0	1	13002	1219	43	5		5	RACGAP1	12	50386088	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	360865	50386088	83465807	889	12564											
SLC11A2	4891	broad.mit.edu	37	chr12	51394196	51394196	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagccacaggatgactcGtgggacctaaacatcaaaca	15	6	8	12	1	2	1	2	1	0	0	3	3	2	3	2	2	3	0	2	2	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:51394196G>A	uc001rxe.3	-	6	533	c.436C>T	c.(436-438)CGA>TGA	p.R146*	SLC11A2_uc001rxd.3_Translation_Start_Site|SLC11A2_uc001rxc.3_Nonsense_Mutation_p.R146*|SLC11A2_uc001rxf.2_RNA|SLC11A2_uc010smx.1_Nonsense_Mutation_p.R142*|SLC11A2_uc001rxh.1_Nonsense_Mutation_p.R146*|SLC11A2_uc001rxj.1_Nonsense_Mutation_p.R146*|SLC11A2_uc001rxi.2_Nonsense_Mutation_p.R146*|SLC11A2_uc001rxk.1_Nonsense_Mutation_p.R175*|SLC11A2_uc010smy.1_Nonsense_Mutation_p.R109*	NM_000617	NP_000608	P49281	NRAM2_HUMAN	solute carrier family 11 (proton-coupled	146	Cytoplasmic (Potential).				activation of caspase activity|cellular iron ion homeostasis|cellular response to oxidative stress|detection of oxygen|ferrous iron import|multicellular organismal iron ion homeostasis|response to hypoxia|response to iron ion	apical plasma membrane|basal part of cell|cell surface|cytoplasmic vesicle|early endosome|late endosome|late endosome membrane|lysosomal membrane|lysosome|nucleus|paraferritin complex|perinuclear region of cytoplasm|perinuclear region of cytoplasm|plasma membrane|recycling endosome|trans-Golgi network	cadmium ion transmembrane transporter activity|cadmium ion transmembrane transporter activity|cobalt ion transmembrane transporter activity|copper ion transmembrane transporter activity|ferrous iron transmembrane transporter activity|ferrous iron transmembrane transporter activity|lead ion transmembrane transporter activity|lead ion transmembrane transporter activity|manganese ion transmembrane transporter activity|manganese ion transmembrane transporter activity|nickel ion transmembrane transporter activity|protein binding|solute:hydrogen symporter activity|vanadium ion transmembrane transporter activity|zinc ion transmembrane transporter activity			large_intestine(1)	1						AGGATGACTCGTGGGACCTAA	0.418													15	33					0	0	1	0	0		A	51394196	A	A	51394196	4	1	16	1	0	0	0	0	0	1	0	0	14406	1153	40	1	1375	1	SLC11A2	12	51394196	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1008108	51394196	82457699	890	12565											
SLC4A8	9498	broad.mit.edu	37	chr12	51844775	51844775	+	Frame_Shift_Del	DEL	G	-	-																															cggggcaaaggagccagccaGggggaggaaggcctggaagc																								rs139949142		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:51844775delG	uc001rys.1	+	3	424	c.246delG	c.(244-246)CAGfs	p.Q82fs	SLC4A8_uc010sni.1_Frame_Shift_Del_p.Q29fs|SLC4A8_uc001rym.2_Frame_Shift_Del_p.Q29fs|SLC4A8_uc001ryn.2_Frame_Shift_Del_p.Q29fs|SLC4A8_uc001ryo.2_Frame_Shift_Del_p.Q29fs|SLC4A8_uc001ryp.1_Frame_Shift_Del_p.Q29fs|SLC4A8_uc010snj.1_Frame_Shift_Del_p.Q109fs|SLC4A8_uc001ryq.3_Frame_Shift_Del_p.Q82fs|SLC4A8_uc001ryr.2_Frame_Shift_Del_p.Q82fs|SLC4A8_uc010snk.1_Frame_Shift_Del_p.Q29fs	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	82	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		GAGCCAGCCAGGGGGAGGAAG	0.672													7	2	---	---	---	---						.	-	51844775	-	-	51844775	7	5	16	1	0	1	0	1	0	0	0	0	14684	991	35	0	256	0	SLC4A8	12	51844775	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	450579	51844775	82007120	891	12566											
KRT85	3891	broad.mit.edu	37	chr12	52761184	52761184	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatcctgtaggagcggcaCgacatcgtgtgaggctgagc	8	8	15	10	3	0	3	0	3	0	0	2	5	1	4	1	3	2	3	1	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:52761184C>T	uc001sag.2	-	1	126	c.6G>A	c.(4-6)TCG>TCA	p.S2S		NM_002283	NP_002274	P78386	KRT85_HUMAN	keratin 85	2	Head.				epidermis development	keratin filament	protein binding|structural molecule activity			ovary(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		AGGAGCGGCACGACATCGTGT	0.622													7	16					0	0	1	0	0		T	52761184	T	T	52761184	2	4	16	1	0	0	0	0	0	0	0	1	8515	523	19	1		1	KRT85	12	52761184	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	916409	52761184	81090711	892	12567											
CALCOCO1	57658	broad.mit.edu	37	chr12	54107930	54107930	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacggactcagccccacagcGgcctcctcatcctctgtggt	6	8	9	18	2	3	0	2	0	1	0	5	1	5	1	5	3	2	0	5	3	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:54107930G>A	uc001sef.2	-	12	1722	c.1578C>T	c.(1576-1578)GCC>GCT	p.A526A	CALCOCO1_uc001see.2_Silent_p.A27A|CALCOCO1_uc010som.1_Silent_p.A441A|CALCOCO1_uc010son.1_Silent_p.A403A|CALCOCO1_uc001seh.2_Silent_p.A526A|CALCOCO1_uc009znd.2_Silent_p.A526A|CALCOCO1_uc001seg.2_Silent_p.A351A|CALCOCO1_uc010soo.1_Silent_p.A519A	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	526	C-terminal AD (CTNNB1 binding site) (By similarity).				steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						GCCCCACAGCGGCCTCCTCAT	0.562													12	24					0	0	1	0	0		A	54107930	A	A	54107930	2	1	16	1	0	0	0	0	0	0	0	1	2580	1103	39	1		1	CALCOCO1	12	54107930	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1346746	54107930	79743965	893	12568											
HOXC13	3229	broad.mit.edu	37	chr12	54338837	54338837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accggcgcgggcgcaagaaaCgcgtgccctacactaaggtg	10	4	14	13	6	0	1	0	0	0	1	0	1	0	1	2	3	3	1	2	3	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:54338837C>T	uc001sei.2	+	2	905	c.790C>T	c.(790-792)CGC>TGC	p.R264C	HOXC13_uc010sop.1_RNA	NM_017410	NP_059106	P31276	HXC13_HUMAN	homeobox C13	264	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						GCGCAAGAAACGCGTGCCCTA	0.617			T	NUP98	AML								34	47					0	0	1	0	0		T	54338837	T	T	54338837	3	4	16	1	0	0	0	0	1	0	0	0	7328	536	19	1	796	1	HOXC13	12	54338837	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	230907	54338837	79513058	894	12569											
HOXC12	3228	broad.mit.edu	37	chr12	54350327	54350327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agaaaagacttctgttgaggGagcaagctctctccttcttt	10	13	9	9	0	3	3	0	1	3	2	5	4	4	4	1	1	2	3	1	1	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:54350327G>A	uc010soq.1	+	2	826	c.826G>A	c.(826-828)GAG>AAG	p.E276K		NM_173860	NP_776272	P31275	HXC12_HUMAN	homeobox C12	276					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						TCTGTTGAGGGAGCAAGCTCT	0.547													24	74					0	0	1	0	0		A	54350327	A	A	54350327	3	1	16	1	0	0	0	0	1	0	0	0	7327	1175	41	4	832	4	HOXC12	12	54350327	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	11490	54350327	79501568	895	12570											
CDK2	1017	broad.mit.edu	37	chr12	56362650	56362650	+	Frame_Shift_Del	DEL	T	-	-																															taaacctcagaatctgcttaTtaacacagagggggccatca																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:56362650delT	uc001sit.3	+	4	641	c.404delT	c.(403-405)ATTfs	p.I135fs	CDK2_uc001siu.3_Frame_Shift_Del_p.I135fs|CDK2_uc010spy.1_Frame_Shift_Del_p.I109fs	NM_001798	NP_001789	P24941	CDK2_HUMAN	cyclin-dependent kinase 2 isoform 1	135	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|blood coagulation|cell division|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA replication|G1/S transition of mitotic cell cycle|G2 phase of mitotic cell cycle|G2/M transition of mitotic cell cycle|histone phosphorylation|M/G1 transition of mitotic cell cycle|mitosis|positive regulation of cell proliferation|Ras protein signal transduction|regulation of DNA replication|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cyclin-dependent protein kinase holoenzyme complex|cytosol	ATP binding|cyclin-dependent protein kinase activity|identical protein binding			stomach(1)|central_nervous_system(1)	2			UCEC - Uterine corpus endometrioid carcinoma (6;0.123)|OV - Ovarian serous cystadenocarcinoma(18;0.235)			AATCTGCTTATTAACACAGAG	0.507													52	94	---	---	---	---						.	-	56362650	-	-	56362650	7	5	16	1	0	1	0	1	0	0	0	0	3139	1493	52	0	418	0	CDK2	12	56362650	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	2012323	56362650	77489245	896	12571											
PA2G4	5036	broad.mit.edu	37	chr12	56504448	56504448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcagtgaggtggaaaggCgttttgatgccatgccgttt	7	14	13	7	2	2	2	1	2	1	0	2	3	2	3	2	3	2	2	2	3	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:56504448C>T	uc001sjm.2	+	9	1233	c.814C>T	c.(814-816)CGT>TGT	p.R272C	PA2G4_uc009zol.2_Missense_Mutation_p.R272C|PA2G4_uc009zom.2_Missense_Mutation_p.R272C	NM_006191	NP_006182	Q9UQ80	PA2G4_HUMAN	ErbB3-binding protein 1	272					cell cycle arrest|cell proliferation|negative regulation of transcription, DNA-dependent|regulation of translation|rRNA processing	cytoplasm|nucleolus|ribonucleoprotein complex	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|ubiquitin protein ligase binding				0			OV - Ovarian serous cystadenocarcinoma(18;0.0739)			GGTGGAAAGGCGTTTTGATGC	0.443													8	65					0	0	1	0	0		T	56504448	T	T	56504448	3	4	16	1	0	0	0	0	1	0	0	0	11380	768	27	1	848	1	PA2G4	12	56504448	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	141798	56504448	77347447	897	12572											
SMARCC2	6601	broad.mit.edu	37	chr12	56563355	56563355	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagggcggcggcagcagcGgtggagaggttgccctcgcc	5	4	19	13	4	0	1	0	0	0	1	1	2	0	1	3	6	3	3	3	6	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:56563355G>A	uc001skb.2	-	24	2686	c.2580C>T	c.(2578-2580)ACC>ACT	p.T860T	SMARCC2_uc001skd.2_Silent_p.T891T|SMARCC2_uc001ska.2_Silent_p.T891T|SMARCC2_uc001skc.2_Silent_p.T890T|SMARCC2_uc010sqf.1_Silent_p.T780T	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	860					chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			cggcagcagcggtggAGAGGT	0.219													12	18					0	0	1	0	0		A	56563355	A	A	56563355	2	1	16	1	0	0	0	0	0	0	0	1	14801	1103	39	1		1	SMARCC2	12	56563355	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	58907	56563355	77288540	898	12573											
OBFC2B	79035	broad.mit.edu	37	chr12	56622977	56622977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtaacggcaaagaaaccCggaggagcagcaagagatag	17	4	13	7	2	0	2	0	0	0	2	0	5	0	4	1	3	4	4	1	3	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:56622977C>T	uc001ski.2	+	7	740	c.616C>T	c.(616-618)CGG>TGG	p.R206W	OBFC2B_uc001skk.2_Missense_Mutation_p.R231W|OBFC2B_uc001skj.2_Missense_Mutation_p.R222W	NM_024068	NP_076973	Q9BQ15	SOSB1_HUMAN	oligonucleotide/oligosaccharide-binding fold	206					double-strand break repair via homologous recombination|G2/M transition checkpoint|response to ionizing radiation	SOSS complex	protein binding|single-stranded DNA binding			ovary(1)	1						CAAAGAAACCCGGAGGAGCAG	0.577								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					21	48					0	0	1	0	0		T	56622977	T	T	56622977	3	4	16	1	0	0	0	0	1	0	0	0	10828	643	23	1	638	1	OBFC2B	12	56622977	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	59622	56622977	77228918	899	12574											
PAN2	9924	broad.mit.edu	37	chr12	56718087	56718087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatttcatacctgcctccaGcacctcgataagcctgtggt	8	12	8	13	1	1	1	1	1	0	0	3	2	2	1	5	1	4	1	5	1	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:56718087G>A	uc001skx.2	-	12	2292	c.1919C>T	c.(1918-1920)GCT>GTT	p.A640V	PAN2_uc001skw.2_5'Flank|PAN2_uc001skz.2_Missense_Mutation_p.A640V|PAN2_uc001sky.2_Missense_Mutation_p.A640V	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	640					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						CCTGCCTCCAGCACCTCGATA	0.458													29	86					0	0	1	0	0		A	56718087	A	A	56718087	3	1	16	1	0	0	0	0	1	0	0	0	11433	971	34	2	1749	2	PAN2	12	56718087	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	95110	56718087	77133808	900	12575											
BAZ2A	11176	broad.mit.edu	37	chr12	56995134	56995134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccaacccagccaagggcGtggaagagaactgcactgga	12	3	15	11	1	0	1	0	0	0	1	0	4	0	3	3	4	4	1	3	4	4	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:56995134G>A	uc001slq.1	-	21	4324	c.4130C>T	c.(4129-4131)ACG>ATG	p.T1377M	BAZ2A_uc001slp.1_Missense_Mutation_p.T1375M|BAZ2A_uc001slo.1_Missense_Mutation_p.T205M|BAZ2A_uc009zov.1_Missense_Mutation_p.T347M|BAZ2A_uc009zow.1_Missense_Mutation_p.T1345M	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1377	Pro-rich.				chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						AGCCAAGGGCGTGGAAGAGAA	0.517													17	23					0	0	1	0	0		A	56995134	A	A	56995134	3	1	16	1	0	0	0	0	1	0	0	0	1332	1145	40	1	1623	1	BAZ2A	12	56995134	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	277047	56995134	76856761	901	12576											
LRP1	4035	broad.mit.edu	37	chr12	57578171	57578171	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtctcggctagatggcaCggagcgtgtggtgctggtca	5	9	18	9	4	2	1	1	0	1	1	3	2	2	2	0	6	2	3	0	6	1	1	rs148823753	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:57578171C>T	uc001snd.2	+	38	6588	c.6122C>T	c.(6121-6123)ACG>ATG	p.T2041M		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	2041	LDL-receptor class B 19.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CTAGATGGCACGGAGCGTGTG	0.592													17	44					0	0	1	0	0		T	57578171	T	T	57578171	3	4	16	1	0	0	0	0	1	0	0	0	8969	536	19	1	6272	1	LRP1	12	57578171	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	583037	57578171	76273724	902	12577											
SHMT2	6472	broad.mit.edu	37	chr12	57625344	57625344	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagggttatcctggcaagagGtgagggctggagggcagtgt	8	8	20	5	0	0	2	0	1	0	1	1	4	1	3	1	6	0	4	1	6	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:57625344G>A	uc001snf.1	+	3	321	c.311_splice	c.e3+1	p.R104_splice	SHMT2_uc001sng.1_Splice_Site|SHMT2_uc001snh.1_Intron|SHMT2_uc009zpk.1_Splice_Site_p.R104_splice|SHMT2_uc001sni.1_Splice_Site_p.R83_splice|SHMT2_uc010srg.1_Intron|SHMT2_uc001snj.1_Intron|SHMT2_uc010srh.1_Splice_Site_p.R83_splice|SHMT2_uc001snk.1_Intron|SHMT2_uc010sri.1_Splice_Site_p.R83_splice|SHMT2_uc001snl.2_Splice_Site|SHMT2_uc010srj.1_5'Flank	NM_005412	NP_005403	P34897	GLYM_HUMAN	serine hydroxymethyltransferase 2							microtubule cytoskeleton|mitochondrial nucleoid	glycine hydroxymethyltransferase activity|methyltransferase activity			ovary(1)|central_nervous_system(1)	2					Glycine(DB00145)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CTGGCAAGAGGTGAGGGCTGG	0.597													12	24					0	0	1	0	0		A	57625344	A	A	57625344	5	1	16	1	0	0	0	0	0	0	1	0	14311	1275	44	4	322	4	SHMT2	12	57625344	Splice_Site	SNP	G	TCGA-BR-4292-01A-01D-1126-08	47173	57625344	76226551	903	12578											
ARHGAP9	64333	broad.mit.edu	37	chr12	57867953	57867953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtactgtccaaatctaacCgaccttctggagggagaagg	12	8	11	10	1	2	1	0	0	2	1	3	4	3	2	3	3	2	1	3	3	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:57867953C>T	uc001sod.2	-	19	2253	c.2060G>A	c.(2059-2061)CGG>CAG	p.R687Q	ARHGAP9_uc001sny.2_Intron|ARHGAP9_uc001snz.2_Missense_Mutation_p.R413Q|ARHGAP9_uc001soa.2_Missense_Mutation_p.R286Q|ARHGAP9_uc001sob.2_Missense_Mutation_p.R597Q|ARHGAP9_uc001soc.2_Missense_Mutation_p.R597Q|ARHGAP9_uc001soe.1_Missense_Mutation_p.R676Q	NM_032496	NP_115885	Q9BRR9	RHG09_HUMAN	Rho GTPase activating protein 9 isoform 1	616	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			lung(1)	1			GBM - Glioblastoma multiforme(3;3.37e-34)			CAAATCTAACCGACCTTCTGG	0.517													16	31					0	0	1	0	0		T	57867953	T	T	57867953	3	4	16	1	0	0	0	0	1	0	0	0	889	652	23	1	417	1	ARHGAP9	12	57867953	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	242609	57867953	75983942	904	12579											
C12orf66	144577	broad.mit.edu	37	chr12	64609628	64609628	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaaaggagttcttccacGtgaggagcagtcccacccag	10	7	13	11	1	1	1	0	1	1	0	3	4	3	4	3	3	1	2	3	3	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:64609628G>A	uc001srw.3	-	2	410	c.351C>T	c.(349-351)CAC>CAT	p.H117H	C12orf66_uc009zql.2_Silent_p.H64H	NM_152440	NP_689653	Q96MD2	CL066_HUMAN	hypothetical protein LOC144577	117										ovary(1)	1						GTTCTTCCACGTGAGGAGCAG	0.527													6	11					0	0	1	0	0		A	64609628	A	A	64609628	2	1	16	1	0	0	0	0	0	0	0	1	1712	1136	40	1		1	C12orf66	12	64609628	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6741675	64609628	69242267	905	12580											
TMBIM4	51643	broad.mit.edu	37	chr12	66546105	66546105	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatgtctgtttaaaatcaaCgcaaaaatcaaacccagaga	18	10	5	8	1	3	1	2	0	1	1	3	2	3	1	1	0	2	2	1	0	7	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:66546105C>T	uc001stc.2	-	3	334	c.258G>A	c.(256-258)GCG>GCA	p.A86A	LLPH_uc010ssx.1_RNA|TMBIM4_uc001std.2_Silent_p.A55A|TMBIM4_uc009zqr.2_Silent_p.A133A|TMBIM4_uc001ste.2_RNA|TMBIM4_uc001stf.2_Silent_p.A86A|TMBIM4_uc009zqs.2_Silent_p.A86A	NM_016056	NP_057140	Q9HC24	TMBI4_HUMAN	transmembrane BAX inhibitor motif containing 4	86	Helical; (Potential).					integral to membrane	protein binding			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(28;0.0745)		TTAAAATCAACGCAAAAATCA	0.348													14	53					0	0	1	0	0		T	66546105	T	T	66546105	2	4	16	1	0	0	0	0	0	0	0	1	16007	523	19	1		1	TMBIM4	12	66546105	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1936477	66546105	67305790	906	12581											
GRIP1	23426	broad.mit.edu	37	chr12	66771012	66771012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaaatcctccagcgcttgaGaccagaagttctcctcttgt	9	11	7	14	1	2	2	0	1	2	2	5	3	4	2	5	0	1	2	5	0	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:66771012G>A	uc001stk.2	-	20	2760	c.2519C>T	c.(2518-2520)TCT>TTT	p.S840F	GRIP1_uc010sta.1_Missense_Mutation_p.S784F|GRIP1_uc001stj.2_Missense_Mutation_p.S622F|GRIP1_uc001stl.1_Missense_Mutation_p.S732F|GRIP1_uc001stm.2_Missense_Mutation_p.S840F	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	892					androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		CAGCGCTTGAGACCAGAAGTT	0.473													68	140					0	0	1	0	0		A	66771012	A	A	66771012	3	1	16	1	0	0	0	0	1	0	0	0	6803	942	33	4	731	4	GRIP1	12	66771012	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	224907	66771012	67080883	907	12582											
LGR5	8549	broad.mit.edu	37	chr12	71974201	71974201	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggaatgtttcaggctcAaggtaggacttgctatgcca	9	12	12	8	0	2	0	2	0	0	0	2	2	2	2	1	4	3	5	1	4	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:71974201A>G	uc001swl.2	+	16	1598	c.1550A>G	c.(1549-1551)CAA>CGA	p.Q517R	LGR5_uc001swm.2_Missense_Mutation_p.Q493R|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	517	Extracellular (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						TTTCAGGCTCAAGGTAGGACT	0.368													74	133					0	0	1	0	0		G	71974201	G	G	71974201	3	3	16	1	0	0	0	0	1	0	0	0	8773	130	5	3	1612	3	LGR5	12	71974201	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	5203189	71974201	61877694	908	12583											
NAP1L1	4673	broad.mit.edu	37	chr12	76461164	76461164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtacctttcaatgtatcCtgttggtgtttctaccagac	7	16	8	10	0	2	1	1	0	1	1	3	1	3	1	3	1	2	5	3	1	4	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:76461164C>T	uc001sxw.2	-	4	605	c.193G>A	c.(193-195)GGA>AGA	p.G65R	NAP1L1_uc001sxv.2_Missense_Mutation_p.G23R|NAP1L1_uc001sxz.2_Missense_Mutation_p.G23R|NAP1L1_uc001sxx.2_Missense_Mutation_p.G65R|NAP1L1_uc001sxy.2_Intron|NAP1L1_uc010sty.1_Missense_Mutation_p.G23R|NAP1L1_uc010stz.1_Intron|NAP1L1_uc010sua.1_Missense_Mutation_p.G65R|NAP1L1_uc001syb.2_Missense_Mutation_p.G65R|NAP1L1_uc001sya.2_Missense_Mutation_p.G23R|NAP1L1_uc001syc.2_Missense_Mutation_p.G65R	NM_139207	NP_631946	P55209	NP1L1_HUMAN	nucleosome assembly protein 1-like 1	65					DNA replication|nucleosome assembly|positive regulation of cell proliferation	chromatin assembly complex|melanosome	protein binding			ovary(1)|skin(1)	2		Colorectal(145;0.09)				TCAATGTATCCTGTTGGTGTT	0.363													28	62					0	0	1	0	0		T	76461164	T	T	76461164	3	4	16	1	0	0	0	0	1	0	0	0	10174	690	24	4	1030	4	NAP1L1	12	76461164	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4486963	76461164	57390731	909	12584											
E2F7	144455	broad.mit.edu	37	chr12	77440093	77440093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catttacaatgtcatagatgCgtctcctttccacacctgtt	9	15	5	12	1	2	1	1	0	1	1	4	1	3	1	3	0	2	1	3	0	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:77440093C>T	uc001sym.3	-	5	790	c.554G>A	c.(553-555)CGC>CAC	p.R185H	E2F7_uc001syn.2_Missense_Mutation_p.R185H	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	185	Potential.			R->A: Loss of DNA-binding and inhibition of E2F1-dependent activation.	cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						GTCATAGATGCGTCTCCTTTC	0.488													18	43					0	0	1	0	0		T	77440093	T	T	77440093	3	4	16	1	0	0	0	0	1	0	0	0	4878	768	27	1	2217	1	E2F7	12	77440093	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	978929	77440093	56411802	910	12585											
LIN7A	8825	broad.mit.edu	37	chr12	81283062	81283062	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtacaaaactcactctgaaGcacttttttgagggattgta	12	14	8	7	0	2	2	1	2	1	0	2	3	2	3	0	1	3	3	0	1	5	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:81283062G>T	uc001szj.1	-	2	362	c.169C>A	c.(169-171)CTT>ATT	p.L57I	LIN7A_uc001szk.1_RNA	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	57	L27.				exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						TCACTCTGAAGCACTTTTTTG	0.353													7	48					5.18039e-06	5.33825e-06	1	1	0		T	81283062	T	T	81283062	3	4	16	1	0	0	0	0	1	0	0	0	8827	971	34	5	548	5	LIN7A	12	81283062	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3842969	81283062	52568833	911	12586											
TMTC2	160335	broad.mit.edu	37	chr12	83324294	83324294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaaatgctttgtactaccGcagcaacatggctgacatgc	12	10	9	10	1	0	2	0	1	0	1	0	2	0	2	1	1	6	5	1	1	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:83324294G>A	uc001szt.2	+	4	2000	c.1568G>A	c.(1567-1569)CGC>CAC	p.R523H	TMTC2_uc001szr.1_Missense_Mutation_p.R523H|TMTC2_uc001szs.1_Missense_Mutation_p.R523H|TMTC2_uc010suk.1_Missense_Mutation_p.R278H	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	523	TPR 2.					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						TTGTACTACCGCAGCAACATG	0.418													16	35					0	0	1	0	0		A	83324294	A	A	83324294	3	1	16	1	0	0	0	0	1	0	0	0	16286	1087	38	1	1582	1	TMTC2	12	83324294	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2041232	83324294	50527601	912	12587											
SLC6A15	55117	broad.mit.edu	37	chr12	85266867	85266867	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaattaatattcatactGtgtaatgcatttctcattta	13	18	5	5	0	2	0	2	0	1	0	3	1	2	1	0	1	2	2	0	1	6	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:85266867G>A	uc001szv.2	-	7	1601	c.1108C>T	c.(1108-1110)CAA>TAA	p.Q370*	SLC6A15_uc010sul.1_Nonsense_Mutation_p.Q263*|SLC6A15_uc001szw.1_Nonsense_Mutation_p.Q78*	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	370	Extracellular (Potential).				cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						TATTCATACTGTGTAATGCAT	0.264													7	49					0	0	1	0	0		A	85266867	A	A	85266867	4	1	16	1	0	0	0	0	0	1	0	0	14703	1391	48	4	1108	4	SLC6A15	12	85266867	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1942573	85266867	48585028	913	12588											
LRRIQ1	84125	broad.mit.edu	37	chr12	85547850	85547850	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggcacagaaaatgaaatcGaagaaactaaagaaaaaaat	25	4	8	4	1	0	4	0	1	0	3	1	5	0	4	0	1	1	1	0	1	10	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:85547850G>A	uc001tac.2	+	23	4809	c.4698G>A	c.(4696-4698)TCG>TCA	p.S1566S		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1566										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		AAATGAAATCGAAGAAACTAA	0.264													11	18					0	0	1	0	0		A	85547850	A	A	85547850	2	1	16	1	0	0	0	0	0	0	0	1	9047	1045	37	1		1	LRRIQ1	12	85547850	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	280983	85547850	48304045	914	12589											
KERA	11081	broad.mit.edu	37	chr12	91449951	91449951	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacactcgaagtcatgaatAgtccaatcatctgaatcatg	14	10	8	9	1	4	2	3	2	1	0	6	4	5	3	1	1	0	0	1	1	5	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:91449951A>G	uc001tbl.2	-	2	727	c.108T>C	c.(106-108)ACT>ACC	p.T36T		NM_007035	NP_008966	O60938	KERA_HUMAN	keratocan precursor	36	LRRNT.				response to stimulus|visual perception	proteinaceous extracellular matrix				skin(1)	1						AGTCATGAATAGTCCAATCAT	0.408													5	69					0	0	1	0	0		G	91449951	G	G	91449951	2	3	16	1	0	0	0	0	0	0	0	1	8159	407	15	3		3	KERA	12	91449951	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	5902101	91449951	42401944	915	12590											
STAB2	55576	broad.mit.edu	37	chr12	104030991	104030991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaatgccttcccaattaccGaggcgatggcaaatactgcg	12	8	9	12	3	0	0	0	0	0	0	1	2	1	0	3	2	4	1	3	2	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:104030991G>A	uc001tjw.2	+	7	872	c.686G>A	c.(685-687)CGA>CAA	p.R229Q		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	229	Extracellular (Potential).|EGF-like 3.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CCCAATTACCGAGGCGATGGC	0.408													46	98					0	0	1	0	0		A	104030991	A	A	104030991	3	1	16	1	0	0	0	0	1	0	0	0	15263	1058	37	1	712	1	STAB2	12	104030991	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	12581040	104030991	29820904	916	12591											
TXNRD1	7296	broad.mit.edu	37	chr12	104733053	104733053	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccctgtctgtgcagaggTgggtcatctacacttataca	9	11	9	12	0	3	1	1	0	2	1	3	1	3	1	2	2	3	1	2	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:104733053T>C	uc010swk.1	+	16	1903	c.1881_splice	c.e16+2	p.E627_splice	TXNRD1_uc010swl.1_Splice_Site_p.E477_splice|TXNRD1_uc010swm.1_Splice_Site_p.E529_splice|TXNRD1_uc010swn.1_Splice_Site_p.E477_splice|TXNRD1_uc010swo.1_Splice_Site_p.E477_splice|TXNRD1_uc010swp.1_Splice_Site_p.E439_splice|TXNRD1_uc010swq.1_Splice_Site_p.E527_splice|TXNRD1_uc001tku.2_Splice_Site|TXNRD1_uc009zun.2_Splice_Site_p.E543_splice	NM_001093771	NP_001087240	Q16881	TRXR1_HUMAN	thioredoxin reductase 1 isoform 3						cell redox homeostasis|cellular lipid metabolic process|electron transport chain|nucleobase, nucleoside and nucleotide interconversion|signal transduction|transport	cytosol|nucleolus	electron carrier activity|flavin adenine dinucleotide binding|NADP binding|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity				0						TGTGCAGAGGTGGGTCATCTA	0.463													6	44					0	0	1	0	0		C	104733053	C	C	104733053	5	2	16	1	0	0	0	0	0	0	1	0	16833	1710	59	3	1959	3	TXNRD1	12	104733053	Splice_Site	SNP	T	TCGA-BR-4292-01A-01D-1126-08	702062	104733053	29118842	917	12592											
USP30	84749	broad.mit.edu	37	chr12	109509471	109509471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattggaagatgagcgagacCgccagcctcgggtcacacat	11	6	12	12	3	1	3	1	1	0	2	2	5	1	4	3	2	2	0	3	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:109509471C>T	uc010sxi.1	+	5	639	c.535C>T	c.(535-537)CGC>TGC	p.R179C	USP30_uc001tnu.3_Missense_Mutation_p.R148C	NM_032663	NP_116052	Q70CQ3	UBP30_HUMAN	ubiquitin specific peptidase 30	179	Cytoplasmic (Potential).				ubiquitin-dependent protein catabolic process	integral to membrane|mitochondrial outer membrane	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(1)	1						TGAGCGAGACCGCCAGCCTCG	0.438													17	20					0	0	1	0	0		T	109509471	T	T	109509471	3	4	16	1	0	0	0	0	1	0	0	0	17087	652	23	1	553	1	USP30	12	109509471	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4776418	109509471	24342424	918	12593											
MVK	4598	broad.mit.edu	37	chr12	110019240	110019240	+	Frame_Shift_Del	DEL	C	-	-																															tcgtagtgtggtcggagctgCcccccggggcgggcttgggc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:110019240delC	uc001toy.3	+	5	596	c.412delC	c.(412-414)CCCfs	p.P138fs	MVK_uc009zvk.2_Frame_Shift_Del_p.P138fs|MVK_uc010sxr.1_Intron|MVK_uc001toz.3_Intron|MVK_uc001tpc.3_RNA	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase	138	ATP (By similarity).				cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0						GTCGGAGCTGCCCCCCGGGGC	0.667													22	48	---	---	---	---						.	-	110019240	-	-	110019240	7	5	16	1	0	1	0	1	0	0	0	0	10013	739	26	0	426	0	MVK	12	110019240	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	509769	110019240	23832655	919	12594											
C12orf34	84915	broad.mit.edu	37	chr12	110206924	110206924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgcccagcaagagtgtgtGcaacacatcggtgctgagca	10	7	12	12	1	0	2	0	1	0	1	1	2	0	2	2	1	6	4	2	1	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:110206924G>A	uc001tpd.1	+	3	1749	c.1190G>A	c.(1189-1191)TGC>TAC	p.C397Y	MGC14436_uc010sxs.1_Intron|MGC14436_uc001tpe.2_Intron|C12orf34_uc001tpf.1_Missense_Mutation_p.C397Y	NM_032829	NP_116218	Q5U5X8	CL034_HUMAN	hypothetical protein LOC84915	397										ovary(1)	1						AAGAGTGTGTGCAACACATCG	0.672													7	6					0	0	1	0	0		A	110206924	A	A	110206924	3	1	16	1	0	0	0	0	1	0	0	0	1684	1319	46	2	1196	2	C12orf34	12	110206924	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	187684	110206924	23644971	920	12595											
C12orf51	283450	broad.mit.edu	37	chr12	112696395	112696395	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgggttttaagcagcaaCgccgtctgaaacacaaaacc	14	7	8	12	2	1	1	0	1	1	0	1	1	1	1	2	1	5	3	2	1	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:112696395C>T	uc009zwc.2	-	13	1755	c.1737G>A	c.(1735-1737)GCG>GCA	p.A579A	C12orf51_uc010syk.1_Silent_p.A402A|C12orf51_uc001tts.2_Silent_p.A402A|C12orf51_uc001ttt.3_Silent_p.A400A	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TAAGCAGCAACGCCGTCTGAA	0.478													27	56					0	0	1	0	0		T	112696395	T	T	112696395	2	4	16	1	0	0	0	0	0	0	0	1	1699	523	19	1		1	C12orf51	12	112696395	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2489471	112696395	21155500	921	12596											
TBX5	6910	broad.mit.edu	37	chr12	114793517	114793517	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaggctggtgggccacggaGgtctggtgctggaacattcc	7	8	16	10	1	1	0	0	0	1	0	2	2	2	2	2	7	2	2	2	7	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:114793517G>T	uc001tvo.2	-	9	1872	c.1377C>A	c.(1375-1377)ACC>ACA	p.T459T	TBX5_uc001tvp.2_Silent_p.T459T|TBX5_uc001tvq.2_Silent_p.T409T	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	459				MDRLPYQHFSAHFTSGPLVPRLAGMANHGSPQLGEGMFQHQ TS -> WTGYPTSTSPLTSPRGPWSLGWLAWQPWLPTAGRG NVPSTRPP (in Ref. 1; CAA70592).	cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		GGGCCACGGAGGTCTGGTGCT	0.662													8	6					7.48243e-07	7.74415e-07	1	1	0		T	114793517	T	T	114793517	2	4	16	1	0	0	0	0	0	0	0	1	15686	987	35	5		5	TBX5	12	114793517	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2097122	114793517	19058378	922	12597											
NOS1	4842	broad.mit.edu	37	chr12	117672425	117672425	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccatctggttgacaggCggcgcgtcctccagccgctc	5	9	11	16	4	2	1	1	1	1	0	5	1	4	1	4	3	1	2	4	3	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:117672425C>T	uc001twm.1	-	21	3866	c.3180G>A	c.(3178-3180)CCG>CCA	p.P1060P		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1060	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GGTTGACAGGCGGCGCGTCCT	0.627													11	22					0	0	1	0	0		T	117672425	T	T	117672425	2	4	16	1	0	0	0	0	0	0	0	1	10560	755	27	1		1	NOS1	12	117672425	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2878908	117672425	16179470	923	12598											
NOS1	4842	broad.mit.edu	37	chr12	117728174	117728174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttgaccttgaggaagcGtggacacttggaggggctgc	7	10	16	8	1	1	2	0	2	1	0	1	5	1	5	1	5	2	2	1	5	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:117728174G>A	uc001twm.1	-	4	1596	c.910C>T	c.(910-912)CGC>TGC	p.R304C		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	304					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	TTGAGGAAGCGTGGACACTTG	0.547													8	20					0	0	1	0	0		A	117728174	A	A	117728174	3	1	16	1	0	0	0	0	1	0	0	0	10560	1145	40	1	3498	1	NOS1	12	117728174	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	55749	117728174	16123721	924	12599											
PRKAB1	5564	broad.mit.edu	37	chr12	120110208	120110208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcgatggacggggggcGgaaaggaagtttacttatct	9	12	15	5	3	1	0	0	0	1	0	2	4	1	3	0	6	1	2	0	6	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:120110208G>A	uc009zwu.2	+	3	365	c.262G>A	c.(262-264)GGA>AGA	p.G88R	PRKAB1_uc001txg.2_Missense_Mutation_p.G88R	NM_006253	NP_006244	Q9Y478	AAKB1_HUMAN	AMP-activated protein kinase beta 1	88					cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol					0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.166)	Adenosine monophosphate(DB00131)|Metformin(DB00331)	GACGGGGGGCGGAAAGGAAGT	0.507													5	136					0	0	1	0	0		A	120110208	A	A	120110208	3	1	16	1	0	0	0	0	1	0	0	0	12517	1117	39	1	268	1	PRKAB1	12	120110208	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2382034	120110208	13741687	925	12600											
GCN1L1	10985	broad.mit.edu	37	chr12	120585995	120585995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatctccgggttcctgataaCggagccgatctgcctgagcg	7	9	13	12	4	2	2	0	2	2	0	4	5	3	3	4	2	4	1	4	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:120585995C>T	uc001txo.2	-	37	4715	c.4702G>A	c.(4702-4704)GTT>ATT	p.V1568I		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	1568	HEAT 9.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TTCCTGATAACGGAGCCGATC	0.602													11	33					0	0	1	0	0		T	120585995	T	T	120585995	3	4	16	1	0	0	0	0	1	0	0	0	6314	536	19	1	3401	1	GCN1L1	12	120585995	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	475787	120585995	13265900	926	12601											
PXN	5829	broad.mit.edu	37	chr12	120651713	120651713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagttctccaggatggcccGggcgcagccgccacacttgg	7	7	13	14	3	1	0	0	0	1	0	2	1	1	1	4	4	1	2	4	4	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:120651713G>A	uc001txt.2	-	11	1572	c.1441C>T	c.(1441-1443)CGG>TGG	p.R481W	PXN_uc001txu.2_Missense_Mutation_p.R293W|PXN_uc001txv.2_Missense_Mutation_p.R362W|PXN_uc001txx.2_Missense_Mutation_p.R314W|PXN_uc001txy.2_Missense_Mutation_p.R447W|PXN_uc001txz.2_RNA	NM_001080855	NP_001074324	P49023	PAXI_HUMAN	paxillin isoform 1	481	LIM zinc-binding 3.				cell junction assembly|cell-matrix adhesion|cellular response to reactive oxygen species|epidermal growth factor receptor signaling pathway|growth hormone receptor signaling pathway|muscle contraction|signal complex assembly	cytoplasm|focal adhesion|lamellipodium|microtubule associated complex	beta-catenin binding|vinculin binding|zinc ion binding			ovary(1)|breast(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AGGATGGCCCGGGCGCAGCCG	0.617													6	4					0	0	1	0	0		A	120651713	A	A	120651713	3	1	16	1	0	0	0	0	1	0	0	0	12877	1115	39	1	342	1	PXN	12	120651713	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	65718	120651713	13200182	927	12602											
OASL	8638	broad.mit.edu	37	chr12	121458651	121458651	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatagatgtgagtgtgggAgaagatcccatatttggcta	12	11	13	5	0	0	5	0	1	0	4	1	6	1	5	1	2	0	1	1	2	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:121458651A>C	uc001tzj.1	-	6	1264	c.1258T>G	c.(1258-1260)TCC>GCC	p.S420A	OASL_uc001tzk.1_3'UTR	NM_003733	NP_003724	Q15646	OASL_HUMAN	2'-5'-oligoadenylate synthetase-like isoform a	420	Ubiquitin-like 1.				interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoplasm|nucleolus	ATP binding|DNA binding|double-stranded RNA binding|thyroid hormone receptor binding|transferase activity			skin(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TGAGTGTGGGAGAAGATCCCA	0.562													25	31					0	0	1	0	0		C	121458651	C	C	121458651	3	2	16	1	0	0	0	0	1	0	0	0	10821	304	11	5	290	5	OASL	12	121458651	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	806938	121458651	12393244	928	12603											
KDM2B	84678	broad.mit.edu	37	chr12	121878950	121878950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcgagggagacgggctgtCgccggatgatgccactcagc	7	6	17	11	4	1	2	1	1	0	1	3	5	1	3	2	4	2	1	2	4	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:121878950C>T	uc001uat.2	-	20	3475	c.3371G>A	c.(3370-3372)CGA>CAA	p.R1124Q	KDM2B_uc001uaq.2_Missense_Mutation_p.R564Q|KDM2B_uc010szy.1_Missense_Mutation_p.R564Q|KDM2B_uc001uar.2_Missense_Mutation_p.R715Q|KDM2B_uc001uas.2_Missense_Mutation_p.R1055Q|KDM2B_uc001uau.2_Intron|KDM2B_uc001uao.2_Missense_Mutation_p.R372Q|KDM2B_uc010szx.1_Missense_Mutation_p.R372Q|KDM2B_uc001uap.2_RNA	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	1124					embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						GACGGGCTGTCGCCGGATGAT	0.627													13	26					0	0	1	0	0		T	121878950	T	T	121878950	3	4	16	1	0	0	0	0	1	0	0	0	8141	884	31	1	707	1	KDM2B	12	121878950	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	420299	121878950	11972945	929	12604											
HIP1R	9026	broad.mit.edu	37	chr12	123344320	123344320	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgttcttgggtgcaggAcatgatgaaccaggcacgcc	8	9	13	11	1	2	2	0	2	2	0	2	3	2	3	2	3	2	4	2	3	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:123344320A>G	uc001udj.1	+	24	2467	c.2408A>G	c.(2407-2409)GAC>GGC	p.D803G	HIP1R_uc001udk.1_Missense_Mutation_p.D68G	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	803	I/LWEQ.				receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		TGGGTGCAGGACATGATGAAC	0.667													11	25					0	0	1	0	0		G	123344320	G	G	123344320	3	3	16	1	0	0	0	0	1	0	0	0	7131	289	10	3	2502	3	HIP1R	12	123344320	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1465370	123344320	10507575	930	12605											
PITPNM2	57605	broad.mit.edu	37	chr12	123481982	123481982	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcatgacggtgtcgaacacGttggcgatggtgttagcatc	8	10	14	9	5	0	1	0	1	0	0	2	3	0	1	0	3	2	4	0	3	2	2	rs142848891		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:123481982G>A	uc001uej.1	-	10	1501	c.1362C>T	c.(1360-1362)AAC>AAT	p.N454N	PITPNM2_uc001uek.1_Silent_p.N454N	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	454					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)		TGTCGAACACGTTGGCGATGG	0.672													19	29					0	0	1	0	0		A	123481982	A	A	123481982	2	1	16	1	0	0	0	0	0	0	0	1	11970	1136	40	1		1	PITPNM2	12	123481982	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	137662	123481982	10369913	931	12606											
MPHOSPH9	10198	broad.mit.edu	37	chr12	123687585	123687585	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgaggttgaatccctgaaAtctgctgctttggcttcatg	7	14	11	9	1	2	3	1	3	1	0	3	3	3	3	1	2	2	4	1	2	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:123687585A>C	uc001uel.2	-	6	1018	c.911T>G	c.(910-912)ATT>AGT	p.I304S	MPHOSPH9_uc010tal.1_Intron|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Intron	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	304					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		AATCCCTGAAATCTGCTGCTT	0.483													6	140					0	0	1	0	0		C	123687585	C	C	123687585	3	2	16	1	0	0	0	0	1	0	0	0	9746	101	4	5	2244	5	MPHOSPH9	12	123687585	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	205603	123687585	10164310	932	12607											
NCOR2	9612	broad.mit.edu	37	chr12	124887004	124887004	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctcctcctccttctccGcctccttttccttctccttc	0	18	2	21	1	3	0	0	0	3	0	11	0	7	0	8	0	0	1	8	0	0	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:124887004G>T	uc010tba.1	-	14	1703	c.1586C>A	c.(1585-1587)GCG>GAG	p.A529E	NCOR2_uc010tay.1_Missense_Mutation_p.A529E|NCOR2_uc010taz.1_Missense_Mutation_p.A529E|NCOR2_uc010tbb.1_Missense_Mutation_p.A529E|NCOR2_uc010tbc.1_Missense_Mutation_p.A528E|NCOR2_uc001ugj.1_Missense_Mutation_p.A529E	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	529	Potential.				cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		ctccttctccgcctccttttc	0.333													9	17					3.09899e-07	3.21139e-07	1	1	0		T	124887004	T	T	124887004	3	4	16	1	0	0	0	0	1	0	0	0	10255	1087	38	5	6118	5	NCOR2	12	124887004	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1199419	124887004	8964891	933	12608											
TMEM132D	121256	broad.mit.edu	37	chr12	130184470	130184470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccacgctgttgtccagacGcagttctctcagggagggtt	6	10	14	11	2	2	1	1	0	1	1	4	2	3	2	2	3	0	5	2	3	0	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:130184470G>A	uc009zyl.1	-	2	1181	c.853C>T	c.(853-855)CGT>TGT	p.R285C		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	285	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TTGTCCAGACGCAGTTCTCTC	0.527													15	35					0	0	1	0	0		A	130184470	A	A	130184470	3	1	16	1	0	0	0	0	1	0	0	0	16072	1087	38	1	2478	1	TMEM132D	12	130184470	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	5297466	130184470	3667425	934	12609											
EP400	57634	broad.mit.edu	37	chr12	132504627	132504627	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagtatggccagaagccCgagggtcgcaccgtggcttt	7	8	15	11	3	0	1	0	0	0	1	1	2	0	1	3	3	2	4	3	3	2	2	rs113843264		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:132504627C>T	uc001ujn.2	+	21	4346	c.4311C>T	c.(4309-4311)CCC>CCT	p.P1437P	EP400_uc001ujl.2_Silent_p.P1436P|EP400_uc001ujm.2_Silent_p.P1437P	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1473					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		GCCAGAAGCCCGAGGGTCGCA	0.647													7	37					0	0	1	0	0		T	132504627	T	T	132504627	2	4	16	1	0	0	0	0	0	0	0	1	5157	639	23	1		1	EP400	12	132504627	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2320157	132504627	1347268	935	12610											
EP400	57634	broad.mit.edu	37	chr12	132538120	132538121	+	Frame_Shift_Ins	INS	-	G	G																															gcgcagcccgcaatcacgacINSggggggcagtgcagccgtac																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:132538120_132538121insG	uc001ujn.2	+	42	7741_7742	c.7706_7707insG	c.(7705-7707)ACGfs	p.T2569fs	EP400_uc001ujl.2_Frame_Shift_Ins_p.T2568fs|EP400_uc001ujm.2_Frame_Shift_Ins_p.T2488fs	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2605	Interaction with ZNF42 (By similarity).				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		GCAATCACGACGGGGGGCAGTG	0.515													2	4	---	---	---	---						.	G	132538121	G	G	132538120	7	5	16	1	0	1	1	0	0	0	0	0	5157	536	19	0	7869	0	EP400	12	132538120	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	33493	132538120	1313775	936	12611											
GOLGA3	2802	broad.mit.edu	37	chr12	133350862	133350862	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtccgggatcttgatgggCgtggcagggttggaagagct	7	9	18	7	2	1	2	0	1	1	1	2	4	2	4	1	5	1	3	1	5	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr12:133350862C>T	uc001ukz.1	-	23	4747	c.4188G>A	c.(4186-4188)ACG>ACA	p.T1396T		NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1396	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		TCTTGATGGGCGTGGCAGGGT	0.607													17	25					0	0	1	0	0		T	133350862	T	T	133350862	2	4	16	1	0	0	0	0	0	0	0	1	6569	755	27	1		1	GOLGA3	12	133350862	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	812742	133350862	501033	937	12612											
MPHOSPH8	54737	broad.mit.edu	37	chr13	20235889	20235889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgccgccggagggcaggacGacctcctgcgactcctcatc	6	5	12	18	5	1	0	1	0	0	0	4	4	3	2	6	3	1	1	6	3	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:20235889G>A	uc001umh.2	+	8	1852	c.1843G>A	c.(1843-1845)GAC>AAC	p.D615N	MPHOSPH8_uc001umg.2_Missense_Mutation_p.D615N	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	615	ANK 1.				cell cycle	cytoplasm|nucleus					0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		AGGGCAGGACGACCTCCTGCG	0.512													45	105					0	0	1	0	0		A	20235889	A	A	20235889	3	1	16	1	0	0	0	0	1	0	0	0	9745	1058	37	1	1873	1	MPHOSPH8	13	20235889	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08		20235889	94933989	938	12613											
ZMYM5	9205	broad.mit.edu	37	chr13	20426206	20426206	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctactgactaaaggacaagCtggatgaccaaatgaatccc	15	8	8	10	0	1	3	0	3	1	0	2	5	2	5	2	2	2	1	2	2	6	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:20426206C>A	uc010tcn.1	-	3	380	c.115G>T	c.(115-117)GCT>TCT	p.A39S	ZMYM5_uc001umm.1_5'UTR|ZMYM5_uc001umn.2_Missense_Mutation_p.A39S|ZMYM5_uc001umo.2_Missense_Mutation_p.A39S	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	39						nucleus	zinc ion binding				0		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		AAAGGACAAGCTGGATGACCA	0.373													4	176					1	1	1	1	0		A	20426206	A	A	20426206	3	1	16	1	0	0	0	0	1	0	0	0	17728	797	28	5	2029	5	ZMYM5	13	20426206	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	190317	20426206	94743672	939	12614											
ZDHHC20	253832	broad.mit.edu	37	chr13	21976959	21976959	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacaggctgagcagtgatgCgcccgatcaggtttaatcag	10	9	12	10	2	3	2	3	2	0	0	3	3	3	2	1	2	2	3	1	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:21976959C>T	uc001uob.2	-	5	530	c.417G>A	c.(415-417)GCG>GCA	p.A139A	ZDHHC20_uc001uod.2_RNA|ZDHHC20_uc001uoc.2_RNA|ZDHHC20_uc001uoe.2_RNA|ZDHHC20_uc010tcs.1_Silent_p.A76A	NM_153251	NP_694983	Q5W0Z9	ZDH20_HUMAN	zinc finger, DHHC-type containing 20	139	DHHC-type.					integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1		all_cancers(29;8.1e-16)|all_epithelial(30;3.63e-14)|all_lung(29;2.04e-13)|Lung SC(185;0.0367)		all cancers(112;0.000268)|Epithelial(112;0.000735)|OV - Ovarian serous cystadenocarcinoma(117;0.00517)|Lung(94;0.171)		AGCAGTGATGCGCCCGATCAG	0.398													6	24					0	0	1	0	0		T	21976959	T	T	21976959	2	4	16	1	0	0	0	0	0	0	0	1	17636	755	27	1		1	ZDHHC20	13	21976959	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1550753	21976959	93192919	940	12615											
ATP8A2	51761	broad.mit.edu	37	chr13	26151257	26151257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactccttcaggacgacttcGgctttactgtaaaggggctg	9	11	11	10	2	1	0	1	0	0	0	3	2	2	1	1	4	2	3	1	4	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:26151257G>A	uc001uqk.2	+	20	1905	c.1763G>A	c.(1762-1764)CGG>CAG	p.R588Q	ATP8A2_uc010tdi.1_Missense_Mutation_p.R548Q|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.R98Q	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	548	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		GGACGACTTCGGCTTTACTGT	0.443													33	83					0	0	1	0	0		A	26151257	A	A	26151257	3	1	16	1	0	0	0	0	1	0	0	0	1194	1116	39	1	1841	1	ATP8A2	13	26151257	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4174298	26151257	89018621	941	12616											
HSPH1	10808	broad.mit.edu	37	chr13	31729764	31729764	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaatcttttgaagttagAcaccgtattgtttgcatgag	12	15	9	5	1	1	4	0	3	1	1	1	4	1	4	1	0	1	4	1	0	4	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:31729764A>T	uc001utj.2	-	3	591	c.193T>A	c.(193-195)TCT>ACT	p.S65T	HSPH1_uc001utk.2_Missense_Mutation_p.S65T|HSPH1_uc010aaw.2_Missense_Mutation_p.S65T|HSPH1_uc001utl.2_Missense_Mutation_p.S67T|HSPH1_uc010tds.1_Missense_Mutation_p.S67T|HSPH1_uc010tdt.1_RNA|HSPH1_uc010aax.1_Missense_Mutation_p.S67T|HSPH1_uc010aay.1_Missense_Mutation_p.S67T	NM_006644	NP_006635	Q92598	HS105_HUMAN	heat shock 105kD	65					positive regulation of MHC class I biosynthetic process|positive regulation of NK T cell activation|response to unfolded protein	cytoplasm|extracellular region	ATP binding				0		Lung SC(185;0.0257)		all cancers(112;0.00385)|Epithelial(112;0.0328)|OV - Ovarian serous cystadenocarcinoma(117;0.0375)|GBM - Glioblastoma multiforme(144;0.125)		TTGAAGTTAGACACCGTATTG	0.333													28	87					0	0	1	0	0		T	31729764	T	T	31729764	3	4	16	1	0	0	0	0	1	0	0	0	7447	275	10	5	2447	5	HSPH1	13	31729764	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	5578507	31729764	83440114	942	12617											
N4BP2L2	10443	broad.mit.edu	37	chr13	33092117	33092117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatctgagcaatcttctttCgagacacaccatgtttattc	11	14	5	11	1	3	2	0	1	3	1	5	3	3	2	1	0	1	2	1	0	2	5	rs117678407	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:33092117C>T	uc001uuk.3	-	6	1752	c.1574G>A	c.(1573-1575)CGA>CAA	p.R525Q	N4BP2L2_uc001uuj.2_Missense_Mutation_p.R41Q|N4BP2L2_uc010abe.1_Missense_Mutation_p.R96Q|N4BP2L2_uc010tdz.1_Missense_Mutation_p.R81Q	NM_014887	NP_055702	Q92802	N42L2_HUMAN	phosphonoformate immuno-associated protein 5	525											0		Lung SC(185;0.0262)		all cancers(112;9.5e-07)|Epithelial(112;5.07e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00196)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.243)		AATCTTCTTTCGAGACACACC	0.343													15	25					0	0	1	0	0		T	33092117	T	T	33092117	3	4	16	1	0	0	0	0	1	0	0	0	10130	884	31	1	2042	1	N4BP2L2	13	33092117	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1362353	33092117	82077761	943	12618											
PDS5B	23047	broad.mit.edu	37	chr13	33347331	33347331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtgttttactctagccgtGtaggacgctccaaacaagca	11	11	9	10	2	1	0	0	0	1	0	2	1	2	1	2	1	4	4	2	1	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:33347331G>A	uc010abf.2	+	34	4335	c.4177G>A	c.(4177-4179)GTA>ATA	p.V1393I	PDS5B_uc010abg.2_Intron	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1393					cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		CTCTAGCCGTGTAGGACGCTC	0.393													10	55					0	0	1	0	0		A	33347331	A	A	33347331	3	1	16	1	0	0	0	0	1	0	0	0	11711	1377	48	4	4307	4	PDS5B	13	33347331	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	255214	33347331	81822547	944	12619											
TRPC4	7223	broad.mit.edu	37	chr13	38266432	38266432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggaaactcatcgtaccagCgagatgccagcagctgttga	11	8	11	11	2	1	2	1	1	0	1	2	4	1	3	2	1	6	4	2	1	2	2	rs147415849		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:38266432C>T	uc001uws.2	-	4	1173	c.938G>A	c.(937-939)CGC>CAC	p.R313H	TRPC4_uc010abv.2_Intron|TRPC4_uc001uwt.2_Missense_Mutation_p.R313H|TRPC4_uc010tey.1_Missense_Mutation_p.R313H|TRPC4_uc010abw.2_Missense_Mutation_p.R140H|TRPC4_uc010abx.2_Missense_Mutation_p.R313H|TRPC4_uc010aby.2_Missense_Mutation_p.R313H	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	313	Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		ATCGTACCAGCGAGATGCCAG	0.458													5	21					0	0	1	0	0		T	38266432	T	T	38266432	3	4	16	1	0	0	0	0	1	0	0	0	16606	768	27	1	2042	1	TRPC4	13	38266432	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4919101	38266432	76903446	945	12620											
FREM2	341640	broad.mit.edu	37	chr13	39262147	39262147	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgcgtgggcatcctgtcCggcttgggcgcgctgcctcg	1	9	16	15	6	0	0	0	0	0	0	3	0	2	0	4	3	2	3	4	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:39262147C>T	uc001uwv.2	+	1	975	c.666C>T	c.(664-666)TCC>TCT	p.S222S		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	222	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GCATCCTGTCCGGCTTGGGCG	0.672													3	12					0	0	1	0	0		T	39262147	T	T	39262147	2	4	16	1	0	0	0	0	0	0	0	1	6059	639	23	1		1	FREM2	13	39262147	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	995715	39262147	75907731	946	12621											
FREM2	341640	broad.mit.edu	37	chr13	39422774	39422774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttggcgagcccagcaaaGccacagtgtccataaatgac	12	6	9	14	1	0	1	0	1	0	0	1	2	1	1	4	1	3	1	4	1	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:39422774G>A	uc001uwv.2	+	8	6655	c.6346G>A	c.(6346-6348)GCC>ACC	p.A2116T	FREM2_uc001uww.2_Missense_Mutation_p.A202T	NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2116	Extracellular (Potential).			A -> T (in Ref. 3; BAC87040).	cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GCCCAGCAAAGCCACAGTGTC	0.408													13	19					0	0	1	0	0		A	39422774	A	A	39422774	3	1	16	1	0	0	0	0	1	0	0	0	6059	971	34	2	6376	2	FREM2	13	39422774	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	160627	39422774	75747104	947	12622											
KIAA0564	23078	broad.mit.edu	37	chr13	42277527	42277527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtccagtagcccatgaacGtttgttctggcagagtcaac	9	12	10	10	1	2	2	1	1	1	1	3	2	3	2	2	1	3	4	2	1	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:42277527G>A	uc001uyj.2	-	27	3207	c.3137C>T	c.(3136-3138)ACG>ATG	p.T1046M		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1046						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		GCCCATGAACGTTTGTTCTGG	0.373													21	39					0	0	1	0	0		A	42277527	A	A	42277527	3	1	16	1	0	0	0	0	1	0	0	0	8201	1145	40	1	2656	1	KIAA0564	13	42277527	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2854753	42277527	72892351	948	12623											
DGKH	160851	broad.mit.edu	37	chr13	42742861	42742861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacaggaaatgaccttgcccGagttcttggctggggaggtt	8	11	14	8	1	1	1	0	1	1	0	1	4	1	3	2	5	2	3	2	5	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:42742861G>A	uc001uyl.1	+	11	1295	c.1274G>A	c.(1273-1275)CGA>CAA	p.R425Q	DGKH_uc010tfh.1_Missense_Mutation_p.R425Q|DGKH_uc001uym.1_Missense_Mutation_p.R425Q|DGKH_uc010tfi.1_Missense_Mutation_p.R180Q|DGKH_uc010tfj.1_Missense_Mutation_p.R280Q|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Missense_Mutation_p.R280Q|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	425	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		GACCTTGCCCGAGTTCTTGGC	0.483													53	96					0	0	1	0	0		A	42742861	A	A	42742861	3	1	16	1	0	0	0	0	1	0	0	0	4476	1058	37	1	1316	1	DGKH	13	42742861	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	465334	42742861	72427017	949	12624											
ZC3H13	23091	broad.mit.edu	37	chr13	46543351	46543351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcacagttgtagcagtggCagtagccacaggcggtggag	10	6	17	8	1	0	0	0	0	0	0	0	1	0	1	1	5	2	6	1	5	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:46543351C>T	uc010tfw.1	-	13	3334	c.3328G>A	c.(3328-3330)GCC>ACC	p.A1110T	ZC3H13_uc001vaq.2_5'Flank|ZC3H13_uc001vas.1_Missense_Mutation_p.A1110T|ZC3H13_uc001vat.1_Missense_Mutation_p.A1110T	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	1110							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		gtagcagtggcagtagccaca	0.249													6	3					0	0	1	0	0		T	46543351	T	T	46543351	3	4	16	1	0	0	0	0	1	0	0	0	17590	710	25	2	1382	2	ZC3H13	13	46543351	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3800490	46543351	68626527	950	12625											
ZC3H13	23091	broad.mit.edu	37	chr13	46559533	46559533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcattccttatttccgtaCgagaactttcttctctcaaa	10	16	3	12	2	4	1	2	0	2	1	7	2	6	1	2	0	2	1	2	0	4	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:46559533C>T	uc010tfw.1	-	9	1625	c.1619G>A	c.(1618-1620)CGT>CAT	p.R540H	ZC3H13_uc001vas.1_Missense_Mutation_p.R540H|ZC3H13_uc001vat.1_Missense_Mutation_p.R540H	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	540	Arg/Ser-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		TATTTCCGTACGAGAACTTTC	0.458													25	55					0	0	1	0	0		T	46559533	T	T	46559533	3	4	16	1	0	0	0	0	1	0	0	0	17590	536	19	1	3107	1	ZC3H13	13	46559533	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	16182	46559533	68610345	951	12626											
ZC3H13	23091	broad.mit.edu	37	chr13	46616316	46616316	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccctaacaggtgaggatgActcctctgtatttcgtttct	8	15	8	10	1	2	2	0	2	2	0	4	3	3	3	2	2	2	2	2	2	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:46616316A>G	uc010tfw.1	-	3	328	c.322T>C	c.(322-324)TCA>CCA	p.S108P	ZC3H13_uc001vas.1_Missense_Mutation_p.S108P|ZC3H13_uc001vat.1_Missense_Mutation_p.S108P	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	108							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		GGTGAGGATGACTCCTCTGTA	0.398													20	57					0	0	1	0	0		G	46616316	G	G	46616316	3	3	16	1	0	0	0	0	1	0	0	0	17590	275	10	3	4428	3	ZC3H13	13	46616316	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	56783	46616316	68553562	952	12627											
RCBTB1	55213	broad.mit.edu	37	chr13	50125518	50125518	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttatttttattgccagtTcccagctgcccatatgtgtt	7	17	8	9	0	0	0	0	0	0	0	1	0	1	0	3	1	3	4	3	1	3	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:50125518T>C	uc001vde.1	-	8	1059	c.798A>G	c.(796-798)GGA>GGG	p.G266G		NM_018191	NP_060661	Q8NDN9	RCBT1_HUMAN	regulator of chromosome condensation (RCC1) and	266	RCC1 5.				cell cycle|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(1)	1		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)		TATTGCCAGTTCCCAGCTGCC	0.493													36	56					0	0	1	0	0		C	50125518	C	C	50125518	2	2	16	1	0	0	0	0	0	0	0	1	13196	1770	62	3		3	RCBTB1	13	50125518	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	3509202	50125518	65044360	953	12628											
TDRD3	81550	broad.mit.edu	37	chr13	61102603	61102603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatctgagacatcctcctcGaaatgataccaggcagccaa	13	8	7	13	1	2	2	1	2	1	1	5	4	4	2	4	1	2	1	4	1	3	1	rs140988326	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:61102603G>A	uc001via.2	+	11	1753	c.965G>A	c.(964-966)CGA>CAA	p.R322Q	TDRD3_uc010aef.2_Missense_Mutation_p.R147Q|TDRD3_uc001vhz.3_Missense_Mutation_p.R322Q|TDRD3_uc010aeg.2_Missense_Mutation_p.R415Q|TDRD3_uc001vib.3_Missense_Mutation_p.R321Q	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	322					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		CATCCTCCTCGAAATGATACC	0.398													35	90					0	0	1	0	0		A	61102603	A	A	61102603	3	1	16	1	0	0	0	0	1	0	0	0	15757	1058	37	1	1286	1	TDRD3	13	61102603	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	10977085	61102603	54067275	954	12629											
C13orf34	79866	broad.mit.edu	37	chr13	73320743	73320743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttatatagatggctgctcgCcaattaaaaattggtctcct	11	14	7	9	1	1	1	0	0	1	1	3	1	1	1	2	2	1	2	2	2	7	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:73320743C>T	uc001viv.1	+	10	1095	c.976C>T	c.(976-978)CCA>TCA	p.P326S	C13orf34_uc010thq.1_Missense_Mutation_p.P101S|C13orf34_uc010aen.1_Missense_Mutation_p.P401S|C13orf34_uc010thr.1_Missense_Mutation_p.P256S|C13orf34_uc001viw.1_Missense_Mutation_p.P275S	NM_024808	NP_079084	Q6PGQ7	BORA_HUMAN	aurora borealis	326					cell division|mitosis|regulation of mitosis|regulation of mitotic spindle organization|regulation of protein localization		protein kinase binding				0		Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.000227)		TGGCTGCTCGCCAATTAAAAA	0.398													34	66					0	0	1	0	0		T	73320743	T	T	73320743	3	4	16	1	0	0	0	0	1	0	0	0	1731	739	26	2	1010	2	C13orf34	13	73320743	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	12218140	73320743	41849135	955	12630											
EDNRB	1910	broad.mit.edu	37	chr13	78475267	78475267	+	Frame_Shift_Del	DEL	A	-	-																															ttcacaggtcattagtgtatAaaaaaatgcagtgatggcca																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:78475267delA	uc001vko.2	-	4	1135	c.877delT	c.(877-879)TATfs	p.Y293fs	EDNRB_uc001vkq.1_Frame_Shift_Del_p.Y293fs|uc001vkn.1_Intron|EDNRB_uc010aez.1_Frame_Shift_Del_p.Y293fs|EDNRB_uc001vkp.1_Frame_Shift_Del_p.Y376fs	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	293	Helical; Name=5; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	ATTAGTGTATAAAAAAATGCA	0.343													35	54	---	---	---	---						.	-	78475267	-	-	78475267	7	5	16	1	0	1	0	1	0	0	0	0	4926	362	13	0	588	0	EDNRB	13	78475267	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	5154524	78475267	36694611	956	12631											
GPR180	160897	broad.mit.edu	37	chr13	95279412	95279412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatctggacacaaaagtcGccctcatttctgatacttga	12	12	6	11	1	4	2	2	2	2	0	5	3	4	3	1	1	1	0	1	1	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:95279412G>A	uc001vly.2	+	9	1388	c.1310G>A	c.(1309-1311)CGC>CAC	p.R437H	GPR180_uc001vlz.2_Missense_Mutation_p.R336H|GPR180_uc010afi.2_Missense_Mutation_p.R198H	NM_180989	NP_851320	Q86V85	GP180_HUMAN	G protein-coupled receptor 180 precursor	437						integral to membrane				breast(1)	1	all_neural(89;0.0684)|Medulloblastoma(90;0.163)					CACAAAAGTCGCCCTCATTTC	0.358													16	37					0	0	1	0	0		A	95279412	A	A	95279412	3	1	16	1	0	0	0	0	1	0	0	0	6691	1087	38	1	1344	1	GPR180	13	95279412	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	16804145	95279412	19890466	957	12632											
HS6ST3	266722	broad.mit.edu	37	chr13	96743551	96743551	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttcaacatcaaagggcgCgacgtgatcgtgttcctcca	10	10	10	11	4	2	1	2	1	0	0	5	3	4	1	2	1	1	1	2	1	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:96743551C>T	uc001vmw.2	+	1	459	c.435C>T	c.(433-435)CGC>CGT	p.R145R		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	145	Lumenal (Potential).					integral to membrane	sulfotransferase activity	p.R145C(1)		ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					TCAAAGGGCGCGACGTGATCG	0.612													7	14					0	0	1	0	0		T	96743551	T	T	96743551	2	4	16	1	0	0	0	0	0	0	0	1	7388	755	27	1		1	HS6ST3	13	96743551	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1464139	96743551	18426327	958	12633											
FARP1	10160	broad.mit.edu	37	chr13	99092253	99092253	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagtggggggtgccccactgCctgaccctccggggccagcg	4	5	17	15	2	0	1	0	1	0	0	1	2	1	1	6	5	3	0	6	5	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:99092253C>A	uc001vnj.2	+	22	2808	c.2472C>A	c.(2470-2472)TGC>TGA	p.C824*	FARP1_uc001vnh.2_Nonsense_Mutation_p.C855*	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	824	PH 1.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			TGCCCCACTGCCTGACCCTCC	0.612													9	99					2.17888e-05	2.2314e-05	1	1	0		A	99092253	A	A	99092253	4	1	16	1	0	0	0	0	0	1	0	0	5690	747	26	5	2777	5	FARP1	13	99092253	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2348702	99092253	16077625	959	12634											
DOCK9	23348	broad.mit.edu	37	chr13	99502312	99502312	+	Frame_Shift_Del	DEL	A	-	-																															gctacttactcagatattgtAaaaaaatccataagttcaga																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:99502312delA	uc001vnt.2	-	36	4060	c.4005delT	c.(4003-4005)TTTfs	p.F1335fs	DOCK9_uc001vnw.2_Frame_Shift_Del_p.F1334fs|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Frame_Shift_Del_p.F1335fs|DOCK9_uc001vnr.2_5'Flank|DOCK9_uc010tin.1_5'Flank|DOCK9_uc001vns.2_5'Flank|DOCK9_uc010tio.1_Frame_Shift_Del_p.F4fs|DOCK9_uc010tip.1_Frame_Shift_Del_p.F22fs|DOCK9_uc001vnu.1_5'Flank|DOCK9_uc010tiq.1_Frame_Shift_Del_p.F313fs	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1335					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CAGATATTGTAAAAAAATCCA	0.318													7	9	---	---	---	---						.	-	99502312	-	-	99502312	7	5	16	1	0	1	0	1	0	0	0	0	4700	359	13	0	2284	0	DOCK9	13	99502312	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	410059	99502312	15667566	960	12635											
NALCN	259232	broad.mit.edu	37	chr13	101710303	101710303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctacctgagggcagacGccactgcccaaatttcctct	9	8	9	15	1	1	2	0	1	1	1	2	3	2	3	5	2	2	1	5	2	2	2	rs143587652		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:101710303G>A	uc001vox.1	-	43	5200	c.5011C>T	c.(5011-5013)CGT>TGT	p.R1671C		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1671	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GAGGGCAGACGCCACTGCCCA	0.542													11	67					0	0	1	0	0		A	101710303	A	A	101710303	3	1	16	1	0	0	0	0	1	0	0	0	10166	1087	38	1	213	1	NALCN	13	101710303	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2207991	101710303	13459575	961	12636											
MYO16	23026	broad.mit.edu	37	chr13	109459100	109459100	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatggtggagacctcaacaTagtagatgatcagtactgga	14	9	11	7	0	2	3	2	1	0	2	2	5	2	4	1	3	2	2	1	3	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:109459100T>C	uc001vqt.1	+	7	875	c.749T>C	c.(748-750)ATA>ACA	p.I250T	MYO16_uc010agk.1_Missense_Mutation_p.I272T|MYO16_uc001vqu.1_Missense_Mutation_p.I50T	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	250	ANK 6.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			GACCTCAACATAGTAGATGAT	0.418													4	56					0	0	1	0	0		C	109459100	C	C	109459100	3	2	16	1	0	0	0	0	1	0	0	0	10082	1406	49	3	771	3	MYO16	13	109459100	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	7748797	109459100	5710778	962	12637											
SOX1	6656	broad.mit.edu	37	chr13	112722004	112722004	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatggagaccgacctgcActcgcccggcggcgcccagg	7	4	15	15	5	0	2	0	1	0	1	1	5	0	2	4	4	1	1	4	4	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:112722004A>G	uc001vsb.1	+	1	92	c.32A>G	c.(31-33)CAC>CGC	p.H11R		NM_005986	NP_005977	O00570	SOX1_HUMAN	SRY (sex determining region Y)-box 1	11					chromatin organization	nucleus	core promoter sequence-specific DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	all_lung(23;0.000652)|Lung NSC(43;0.017)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	all_cancers(25;0.000331)|Lung NSC(25;0.0496)|all_lung(25;0.0831)|all_epithelial(44;0.0868)|Breast(118;0.231)		OV - Ovarian serous cystadenocarcinoma(48;0.132)		ACCGACCTGCACTCGCCCGGC	0.572													3	5					0	0	1	0	0		G	112722004	G	G	112722004	3	3	16	1	0	0	0	0	1	0	0	0	14965	159	6	3	34	3	SOX1	13	112722004	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	3262904	112722004	2447874	963	12638											
TMCO3	55002	broad.mit.edu	37	chr13	114174950	114174950	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgacattgactacagcacCgtgctcctcggcatgctggt	7	9	12	13	3	0	1	0	1	0	0	2	2	1	1	2	3	4	4	2	3	1	2	rs150929637		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr13:114174950C>T	uc001vtu.3	+	8	1606	c.1245C>T	c.(1243-1245)ACC>ACT	p.T415T	TMCO3_uc001vtt.3_Silent_p.T415T	NM_017905	NP_060375	Q6UWJ1	TMCO3_HUMAN	transmembrane and coiled-coil domains 3	415						integral to membrane	solute:hydrogen antiporter activity				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0145)|all_epithelial(44;0.00286)|all_lung(25;0.0273)|Breast(118;0.0411)|Lung NSC(25;0.0983)	all cancers(43;0.0317)			ACTACAGCACCGTGCTCCTCG	0.537													23	38					0	0	1	0	0		T	114174950	T	T	114174950	2	4	16	1	0	0	0	0	0	0	0	1	16022	639	23	1		1	TMCO3	13	114174950	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1452946	114174950	994928	964	12639											
TEP1	7011	broad.mit.edu	37	chr14	20854765	20854765	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaagtggatgaaatgaaaAgccggatgctgcgccatctg	13	7	14	7	2	1	2	0	2	1	0	1	5	1	5	2	3	3	1	2	3	4	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:20854765A>C	uc001vxe.2	-	19	2742	c.2702T>G	c.(2701-2703)CTT>CGT	p.L901R	TEP1_uc010ahk.2_Missense_Mutation_p.L251R|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.L793R	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	901					telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		TGAAATGAAAAGCCGGATGCT	0.592													11	19					0	0	1	0	0		C	20854765	C	C	20854765	3	2	16	1	0	0	0	0	1	0	0	0	15784	72	3	5	5329	5	TEP1	14	20854765	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08		20854765	86494775	965	12640											
OSGEP	55644	broad.mit.edu	37	chr14	20916315	20916315	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactcgcctgtggccagcaTccgatgggctacatcctaca	9	8	9	15	2	0	0	0	0	0	0	3	1	2	0	4	2	3	2	4	2	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:20916315T>C	uc001vxf.2	-	7	1008	c.652A>G	c.(652-654)ATG>GTG	p.M218V		NM_017807	NP_060277	Q9NPF4	OSGEP_HUMAN	O-sialoglycoprotein endopeptidase	218					proteolysis|tRNA processing		metal ion binding|metalloendopeptidase activity|protein binding				0	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;1.09e-07)|all cancers(55;1.19e-06)	GBM - Glioblastoma multiforme(265;0.0231)|READ - Rectum adenocarcinoma(17;0.196)		GTGGCCAGCATCCGATGGGCT	0.433													47	66					0	0	1	0	0		C	20916315	C	C	20916315	3	2	16	1	0	0	0	0	1	0	0	0	11306	1435	50	3	375	3	OSGEP	14	20916315	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	61550	20916315	86433225	966	12641											
EDDM3B	64184	broad.mit.edu	37	chr14	21238745	21238745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaagatggtagaacctatcGgcaactagaaagtctatgca	16	9	9	7	1	1	3	0	0	1	3	2	3	1	3	1	2	3	3	1	2	9	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:21238745G>A	uc001vyd.2	+	2	534	c.436G>A	c.(436-438)GGC>AGC	p.G146S		NM_022360	NP_071755	P56851	EP3B_HUMAN	human epididymis-specific 3 beta precursor	146					spermatid development	extracellular region				ovary(1)	1						AGAACCTATCGGCAACTAGAA	0.453													27	39					0	0	1	0	0		A	21238745	A	A	21238745	3	1	16	1	0	0	0	0	1	0	0	0	4916	1116	39	1	438	1	EDDM3B	14	21238745	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	322430	21238745	86110795	967	12642											
RAB2B	84932	broad.mit.edu	37	chr14	21936840	21936840	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggctcaccttgtaatgtcGtacaccagcagtgctccagc	8	10	9	14	1	1	0	1	0	0	0	3	0	2	0	3	1	4	5	3	1	2	3	rs150391208	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:21936840G>A	uc010tlt.1	-	4	359	c.258C>T	c.(256-258)TAC>TAT	p.Y86Y	RAB2B_uc010tls.1_Silent_p.Y40Y|RAB2B_uc001wax.2_Silent_p.Y21Y|RAB2B_uc010ain.2_Intron	NM_032846	NP_116235	Q8WUD1	RAB2B_HUMAN	RAB2B protein isoform 1	86					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane|plasma membrane	GTP binding			ovary(1)	1	all_cancers(95;0.000858)		Epithelial(56;1.53e-06)|all cancers(55;1.44e-05)	GBM - Glioblastoma multiforme(265;0.00391)		TTGTAATGTCGTACACCAGCA	0.458													7	95					0	0	1	0	0		A	21936840	A	A	21936840	2	1	16	1	0	0	0	0	0	0	0	1	12943	1140	40	1		1	RAB2B	14	21936840	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	698095	21936840	85412700	968	12643											
HOMEZ	57594	broad.mit.edu	37	chr14	23745054	23745054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccaagggttgtatatcCggtgggggtggagggatcgg	6	10	18	7	2	1	0	0	0	1	0	4	2	2	2	2	7	0	2	2	7	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:23745054C>T	uc001wja.2	-	2	1531	c.1383G>A	c.(1381-1383)CCG>CCA	p.P461P	HOMEZ_uc001wjb.2_Silent_p.P463P	NM_020834	NP_065885	Q8IX15	HOMEZ_HUMAN	homeodomain leucine zipper protein	461	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		GTTGTATATCCGGTGGGGGTG	0.557													8	34					0	0	1	0	0		T	23745054	T	T	23745054	2	4	16	1	0	0	0	0	0	0	0	1	7297	639	23	1		1	HOMEZ	14	23745054	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1808214	23745054	83604486	969	12644											
MYH7	4625	broad.mit.edu	37	chr14	23887443	23887443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcgagctcctcagtcCgctgaatggcgtccgtctca	5	10	9	17	4	2	1	2	1	1	0	8	2	6	1	5	1	1	2	5	1	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:23887443C>T	uc001wjx.2	-	30	4251	c.4145G>A	c.(4144-4146)CGG>CAG	p.R1382Q	MIR208B_hsa-mir-208b|MI0005570_5'Flank	NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1382	Potential.		R -> W (in CMH1).		adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CTCCTCAGTCCGCTGAATGGC	0.637													50	75					0	0	1	0	0		T	23887443	T	T	23887443	3	4	16	1	0	0	0	0	1	0	0	0	10057	652	23	1	1706	1	MYH7	14	23887443	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	142389	23887443	83462097	970	12645											
LRRC16B	90668	broad.mit.edu	37	chr14	24525864	24525864	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccagcagctcctctgctTcccctctggcctcaccaaac	7	8	7	19	0	3	0	1	0	2	0	5	1	5	0	6	1	5	3	6	1	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:24525864T>C	uc001wlj.2	+	12	1056	c.899T>C	c.(898-900)TTC>TCC	p.F300S		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	300										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		CTCCTCTGCTTCCCCTCTGGC	0.622													17	36					0	0	1	0	0		C	24525864	C	C	24525864	3	2	16	1	0	0	0	0	1	0	0	0	8990	1783	62	3	945	3	LRRC16B	14	24525864	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	638421	24525864	82823676	971	12646											
TGM1	7051	broad.mit.edu	37	chr14	24729876	24729876	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccactgggatgatcacgtgCgtgcccttgcccacctcggg	5	8	12	16	3	1	1	1	1	0	0	2	2	1	2	4	2	3	0	4	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:24729876C>T	uc001wod.2	-	4	661	c.537G>A	c.(535-537)ACG>ACA	p.T179T	TGM1_uc010tog.1_Intron	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	179					cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	TGATCACGTGCGTGCCCTTGC	0.612													28	53					0	0	1	0	0		T	24729876	T	T	24729876	2	4	16	1	0	0	0	0	0	0	0	1	15854	755	27	1		1	TGM1	14	24729876	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	204012	24729876	82619664	972	12647											
LTB4R2	56413	broad.mit.edu	37	chr14	24780931	24780931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggatggagaaggacggtcCggaatgggacctttgacagc	10	7	17	7	2	0	2	0	1	0	1	1	7	1	6	2	6	1	0	2	6	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:24780931C>T	uc001woq.1	+	1	2771	c.1154C>T	c.(1153-1155)CCG>CTG	p.P385L	CIDEB_uc001woo.2_5'Flank|CIDEB_uc001wop.2_5'Flank|LTB4R2_uc001wor.2_Missense_Mutation_p.P354L|LTB4R_uc001wos.2_5'UTR|LTB4R_uc010alp.2_5'Flank|LTB4R_uc001wou.2_5'Flank	NM_019839	NP_062813	Q9NPC1	LT4R2_HUMAN	leukotriene B4 receptor 2	385	Cytoplasmic (Potential).				chemotaxis|negative regulation of adenylate cyclase activity	integral to plasma membrane					0				GBM - Glioblastoma multiforme(265;0.018)		AAGGACGGTCCGGAATGGGAC	0.627													13	13					0	0	1	0	0		T	24780931	T	T	24780931	3	4	16	1	0	0	0	0	1	0	0	0	9090	652	23	1	1063	1	LTB4R2	14	24780931	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	51055	24780931	82568609	973	12648											
NYNRIN	57523	broad.mit.edu	37	chr14	24880323	24880323	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgccgaggaattgccaTggcagtgcagtttttctgga	7	12	12	10	1	1	0	0	0	1	0	2	3	2	2	3	3	3	3	3	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:24880323T>C	uc001wpf.3	+	5	2774	c.2456T>C	c.(2455-2457)ATG>ACG	p.M819T		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	819					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						GGAATTGCCATGGCAGTGCAG	0.597											OREG0022626	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	52					0	0	1	0	0		C	24880323	C	C	24880323	3	2	16	1	0	0	0	0	1	0	0	0	10815	1464	51	3	2470	3	NYNRIN	14	24880323	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	99392	24880323	82469217	974	12649											
NYNRIN	57523	broad.mit.edu	37	chr14	24884436	24884436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactcccagctgcccttcCgcctggaggtgaccgtgagc	6	7	11	17	2	0	2	0	2	0	0	2	3	2	3	6	2	4	1	6	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:24884436C>T	uc001wpf.3	+	9	3799	c.3481C>T	c.(3481-3483)CGC>TGC	p.R1161C		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	1161					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						GCTGCCCTTCCGCCTGGAGGT	0.647													15	24					0	0	1	0	0		T	24884436	T	T	24884436	3	4	16	1	0	0	0	0	1	0	0	0	10815	652	23	1	3511	1	NYNRIN	14	24884436	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4113	24884436	82465104	975	12650											
G2E3	55632	broad.mit.edu	37	chr14	31071214	31071214	+	Frame_Shift_Del	DEL	A	-	-																															taaatctgtaggagagttccAaaaagccaaaaaacatgtat																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:31071214delA	uc001wqk.2	+	10	1041	c.887delA	c.(886-888)CAAfs	p.Q296fs	G2E3_uc010tpe.1_Frame_Shift_Del_p.Q211fs|G2E3_uc010tpf.1_Frame_Shift_Del_p.Q250fs	NM_017769	NP_060239	Q7L622	G2E3_HUMAN	G2/M-phase specific E3 ubiquitin ligase	296					apoptosis|multicellular organismal development|protein modification process	Golgi apparatus|nucleolus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						GGAGAGTTCCAAAAAGCCAAA	0.299													19	37	---	---	---	---						.	-	31071214	-	-	31071214	7	5	16	1	0	1	0	1	0	0	0	0	6154	130	5	0	921	0	G2E3	14	31071214	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	6186778	31071214	76278326	976	12651											
STRN3	29966	broad.mit.edu	37	chr14	31424869	31424869	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcaccttggttcagttcCgtgccatattttaatttgtg	8	17	8	8	1	2	0	2	0	0	0	3	0	3	0	3	1	1	2	3	1	3	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:31424869C>T	uc001wqu.2	-	3	633	c.417G>A	c.(415-417)ACG>ACA	p.T139T	STRN3_uc001wqv.2_Silent_p.T139T|STRN3_uc010tpj.1_RNA	NM_001083893	NP_001077362	Q13033	STRN3_HUMAN	nuclear autoantigen isoform 1	139					negative regulation of estrogen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|response to estradiol stimulus	cytoplasm|dendrite|Golgi apparatus|neuronal cell body|nucleoplasm|nucleus|plasma membrane|protein complex	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.0124)		GGTTCAGTTCCGTGCCATATT	0.299													14	50					0	0	1	0	0		T	31424869	T	T	31424869	2	4	16	1	0	0	0	0	0	0	0	1	15355	639	23	1		1	STRN3	14	31424869	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	353655	31424869	75924671	977	12652											
HECTD1	25831	broad.mit.edu	37	chr14	31575978	31575978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatttggcgcctcttgataGcaaggtctttaatttctttt	9	18	7	7	1	3	1	0	1	3	0	3	1	3	1	1	2	1	1	1	2	4	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:31575978G>A	uc001wrc.1	-	38	7589	c.7100C>T	c.(7099-7101)GCT>GTT	p.A2367V	HECTD1_uc001wra.1_Missense_Mutation_p.A493V|HECTD1_uc001wrb.1_Missense_Mutation_p.A493V	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	2367	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		CCTCTTGATAGCAAGGTCTTT	0.388													4	66					0	0	1	0	0		A	31575978	A	A	31575978	3	1	16	1	0	0	0	0	1	0	0	0	7055	971	34	2	756	2	HECTD1	14	31575978	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	151109	31575978	75773562	978	12653											
AKAP6	9472	broad.mit.edu	37	chr14	33292305	33292305	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccagctctacccttacCttgactgaagaagagctgtg	9	11	8	13	0	2	4	0	2	2	2	3	4	2	4	3	0	4	2	3	0	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:33292305C>A	uc001wrq.2	+	13	5456	c.5286C>A	c.(5284-5286)ACC>ACA	p.T1762T		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1762					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CTACCCTTACCTTGACTGAAG	0.453													4	75					0.150653	0.151018	1	1	0		A	33292305	A	A	33292305	2	1	16	1	0	0	0	0	0	0	0	1	455	668	24	5		5	AKAP6	14	33292305	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1716327	33292305	74057235	979	12654											
EAPP	55837	broad.mit.edu	37	chr14	34985626	34985626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgatagatttcttccaCatctgtctctgccttctcgg	5	16	9	11	1	4	2	0	1	4	1	7	2	5	2	2	2	1	0	2	2	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:34985626C>T	uc001wsd.1	-	6	857	c.748G>A	c.(748-750)GTG>ATG	p.V250M		NM_018453	NP_060923	Q56P03	EAPP_HUMAN	E2F-associated phosphoprotein	250					negative regulation of transcription elongation from RNA polymerase II promoter|positive regulation of cell proliferation|positive regulation of transcription elongation from RNA polymerase II promoter	Golgi apparatus|nucleus|plasma membrane				ovary(1)	1	Breast(36;0.0473)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00342)|Epithelial(34;0.18)	GBM - Glioblastoma multiforme(112;0.0196)		ATTTCTTCCACATCTGTCTCT	0.443													64	118					0	0	1	0	0		T	34985626	T	T	34985626	3	4	16	1	0	0	0	0	1	0	0	0	4883	478	17	4	113	4	EAPP	14	34985626	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1693321	34985626	72363914	980	12655											
NKX2-1	7080	broad.mit.edu	37	chr14	36987203	36987203	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgctcatgttcatgccgctCgccgggcccatgaagcggga	6	7	13	15	5	2	1	2	1	0	0	3	2	2	2	4	2	2	3	4	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:36987203C>T	uc001wtt.2	-	2	737	c.396G>A	c.(394-396)GCG>GCA	p.A132A	SFTA3_uc001wts.2_Intron|NKX2-1_uc001wtu.2_Silent_p.A162A|NKX2-1_uc001wtv.2_Silent_p.A132A|uc001wtw.1_5'Flank	NM_003317	NP_003308	P43699	NKX21_HUMAN	thyroid transcription factor 1 isoform 2	132					epithelial tube branching involved in lung morphogenesis|globus pallidus development|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|thyroid gland development		protein binding|transcription regulatory region DNA binding			skin(1)	1	all_cancers(3;4.47e-51)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.165)		Lung(8;1.8e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.014)|all cancers(34;0.0366)|LUSC - Lung squamous cell carcinoma(13;0.132)	GBM - Glioblastoma multiforme(112;0.0171)		TCATGCCGCTCGCCGGGCCCA	0.716			A		NSCLC								4	8					0	0	1	0	0		T	36987203	T	T	36987203	2	4	16	1	0	0	0	0	0	0	0	1	10468	871	31	1		1	NKX2-1	14	36987203	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2001577	36987203	70362337	981	12656											
FSCB	84075	broad.mit.edu	37	chr14	44974717	44974717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctcagatagtggagaccGagcttcggcaggagtttcat	9	10	12	10	2	2	2	2	0	0	2	4	5	3	3	2	3	1	3	2	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:44974717G>A	uc001wvn.2	-	1	1783	c.1474C>T	c.(1474-1476)CGG>TGG	p.R492W		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	492	Ala-rich.					cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		AGTGGAGACCGAGCTTCGGCA	0.507													14	21					0	0	1	0	0		A	44974717	A	A	44974717	3	1	16	1	0	0	0	0	1	0	0	0	6080	1057	37	1	1007	1	FSCB	14	44974717	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	7987514	44974717	62374823	982	12657											
FAM179B	23116	broad.mit.edu	37	chr14	45478141	45478141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagctctcttaggtcccttcGtaatagtgcagctaagaaaa	12	12	8	9	1	1	1	0	0	1	1	4	1	2	1	1	1	3	4	1	1	7	6	rs145931350		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:45478141G>A	uc001wvv.2	+	6	3139	c.2930G>A	c.(2929-2931)CGT>CAT	p.R977H	FAM179B_uc001wvw.2_Missense_Mutation_p.R977H|FAM179B_uc010anc.2_Intron	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	977	Ser-rich.						binding			skin(2)|upper_aerodigestive_tract(1)	3						AGGTCCCTTCGTAATAGTGCA	0.358													32	73					0	0	1	0	0		A	45478141	A	A	45478141	3	1	16	1	0	0	0	0	1	0	0	0	5517	1145	40	1	2952	1	FAM179B	14	45478141	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	503424	45478141	61871399	983	12658											
TMX1	81542	broad.mit.edu	37	chr14	51710663	51710663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatcttgaggttaatattgCgaaagtagatgtcacagagc	14	11	11	5	1	2	4	1	1	1	3	2	5	2	4	0	1	2	2	0	1	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:51710663C>T	uc001wza.3	+	2	367	c.242C>T	c.(241-243)GCG>GTG	p.A81V	TMX1_uc010tqr.1_Missense_Mutation_p.A81V|TMX1_uc010aoa.2_5'UTR	NM_030755	NP_110382	Q9H3N1	TMX1_HUMAN	thioredoxin domain containing 1 precursor	81	Thioredoxin.|Extracellular (Potential).				anti-apoptosis|cell proliferation|cell redox homeostasis|DNA replication|electron transport chain|ER to Golgi vesicle-mediated transport|leukocyte activation|positive regulation of growth|positive regulation of transcription, DNA-dependent|response to stress|signal transduction	endoplasmic reticulum membrane|integral to membrane|membrane fraction	arsenate reductase (thioredoxin) activity|disulfide oxidoreductase activity				0						GTTAATATTGCGAAAGTAGAT	0.398													15	34					0	0	1	0	0		T	51710663	T	T	51710663	3	4	16	1	0	0	0	0	1	0	0	0	16291	768	27	1	248	1	TMX1	14	51710663	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6232522	51710663	55638877	984	12659											
KIAA0831	22863	broad.mit.edu	37	chr14	55836420	55836420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacctgcactgctgctcgCgatgggtggggacgcctggg	4	7	16	14	3	0	0	0	0	0	0	1	2	0	1	3	4	3	3	3	4	0	0	rs144919020		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:55836420C>T	uc001xbx.1	-	10	1432	c.1396G>A	c.(1396-1398)GCG>ACG	p.A466T	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbw.1_Missense_Mutation_p.A353T	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	466					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0						CTGCTGCTCGCGATGGGTGGG	0.567													20	48					0	0	1	0	0		T	55836420	T	T	55836420	3	4	16	1	0	0	0	0	1	0	0	0	8211	768	27	1	86	1	KIAA0831	14	55836420	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4125757	55836420	51513120	985	12660											
SYT16	83851	broad.mit.edu	37	chr14	62547711	62547711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagataaggaccgaagtggtGtcaactcctggcaagttcat	12	9	11	9	1	2	1	2	0	0	1	3	3	3	2	2	3	1	2	2	3	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:62547711G>A	uc001xfu.1	+	4	1350	c.1153G>A	c.(1153-1155)GTC>ATC	p.V385I	SYT16_uc010tsd.1_3'UTR|SYT16_uc010tse.1_5'UTR	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	385	C2 1.									central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		CCGAAGTGGTGTCAACTCCTG	0.542													3	15					0	0	1	0	0		A	62547711	A	A	62547711	3	1	16	1	0	0	0	0	1	0	0	0	15497	1377	48	4	1167	4	SYT16	14	62547711	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6711291	62547711	44801829	986	12661											
SYNE2	23224	broad.mit.edu	37	chr14	64634309	64634309	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaagcactcaaagtggaTgtggctaacagccttcctga	13	8	11	9	0	1	2	1	1	0	1	2	4	2	3	2	2	3	2	2	2	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:64634309T>C	uc001xgm.2	+	92	17087	c.16857T>C	c.(16855-16857)GAT>GAC	p.D5619D	SYNE2_uc001xgl.2_Silent_p.D5619D|SYNE2_uc010apy.2_Silent_p.D2004D|SYNE2_uc001xgn.2_Silent_p.D581D|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_5'UTR|SYNE2_uc001xgq.2_5'UTR	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5619	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TCAAAGTGGATGTGGCTAACA	0.458													30	61					0	0	1	0	0		C	64634309	C	C	64634309	2	2	16	1	0	0	0	0	0	0	0	1	15471	1461	51	3		3	SYNE2	14	64634309	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2086598	64634309	42715231	987	12662											
PLEK2	26499	broad.mit.edu	37	chr14	67862133	67862133	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcactgcaggctgatgtgCgggggcagcttgaaggagtt	8	9	16	8	1	1	2	1	2	0	0	1	3	1	3	0	4	3	5	0	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:67862133C>T	uc001xjh.1	-	3	427	c.375G>A	c.(373-375)CCG>CCA	p.P125P		NM_016445	NP_057529	Q9NYT0	PLEK2_HUMAN	pleckstrin 2	125					actin cytoskeleton organization|intracellular signal transduction	cytoplasm|cytoskeleton|lamellipodium membrane				ovary(1)|pancreas(1)	2				all cancers(60;0.000728)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.00953)		GGCTGATGTGCGGGGGCAGCT	0.662													10	27					0	0	1	0	0		T	67862133	T	T	67862133	2	4	16	1	0	0	0	0	0	0	0	1	12073	755	27	1		1	PLEK2	14	67862133	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3227824	67862133	39487407	988	12663											
PCNX	22990	broad.mit.edu	37	chr14	71542931	71542931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catttattatgttacgacctCgtctaagctagaggagtggc	10	13	10	8	2	1	1	0	0	1	1	2	3	1	2	1	2	2	2	1	2	5	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:71542931C>T	uc001xmo.2	+	28	5578	c.5132C>T	c.(5131-5133)TCG>TTG	p.S1711L	PCNX_uc010are.1_Missense_Mutation_p.S1600L|PCNX_uc010arf.1_Missense_Mutation_p.S499L	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1711						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		GTTACGACCTCGTCTAAGCTA	0.368													10	44					0	0	1	0	0		T	71542931	T	T	71542931	3	4	16	1	0	0	0	0	1	0	0	0	11610	893	31	1	5242	1	PCNX	14	71542931	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3680798	71542931	35806609	989	12664											
SIPA1L1	26037	broad.mit.edu	37	chr14	72205804	72205804	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggacaacctgaggctacagGaggagtcccagaacgcctcg	12	4	13	12	2	0	2	0	1	0	1	2	5	1	5	3	4	3	1	3	4	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:72205804G>T	uc001xms.2	+	22	5689	c.5341G>T	c.(5341-5343)GAG>TAG	p.E1781*	SIPA1L1_uc001xmt.2_Nonsense_Mutation_p.E1760*|SIPA1L1_uc001xmu.2_Nonsense_Mutation_p.E1759*|SIPA1L1_uc001xmv.2_Nonsense_Mutation_p.E1780*|SIPA1L1_uc010ttm.1_Nonsense_Mutation_p.E1234*|SIPA1L1_uc001xmw.2_Nonsense_Mutation_p.E546*	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1781	Potential.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		GAGGCTACAGGAGGAGTCCCA	0.532													4	88					1.23904e-05	1.27126e-05	1	1	0		T	72205804	T	T	72205804	4	4	16	1	0	0	0	0	0	1	0	0	14354	1175	41	5	5423	5	SIPA1L1	14	72205804	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	662873	72205804	35143736	990	12665											
PAPLN	89932	broad.mit.edu	37	chr14	73718481	73718481	+	Frame_Shift_Del	DEL	G	-	-																															cattacgagcggggtgctgaGggggacctggcccctgagcg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:73718481delG	uc010ttx.1	+	8	943	c.780delG	c.(778-780)GAGfs	p.E260fs	PAPLN_uc001xnw.3_Frame_Shift_Del_p.E233fs|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Frame_Shift_Del_p.E260fs	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	260						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GGGGTGCTGAGGGGGACCTGG	0.672													11	24	---	---	---	---						.	-	73718481	-	-	73718481	7	5	16	1	0	1	0	1	0	0	0	0	11447	991	35	0	725	0	PAPLN	14	73718481	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	1512677	73718481	33631059	991	12666											
PAPLN	89932	broad.mit.edu	37	chr14	73729153	73729153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgtgggccaatgtaacCgcttctggtatggcggctgc	5	11	13	12	2	2	0	0	0	2	0	2	0	2	0	3	4	2	4	3	4	3	3	rs150310890	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:73729153C>T	uc010ttx.1	+	18	2504	c.2341C>T	c.(2341-2343)CGC>TGC	p.R781C	PAPLN_uc001xnw.3_Missense_Mutation_p.R754C|PAPLN_uc010arl.2_Intron|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.R765C|PAPLN_uc010arm.2_5'UTR|PAPLN_uc010arn.2_5'UTR	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	781	BPTI/Kunitz inhibitor.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		CCAATGTAACCGCTTCTGGTA	0.627													5	6					0	0	1	0	0		T	73729153	T	T	73729153	3	4	16	1	0	0	0	0	1	0	0	0	11447	652	23	1	2326	1	PAPLN	14	73729153	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	10672	73729153	33620387	992	12667											
C14orf43	91748	broad.mit.edu	37	chr14	74205773	74205773	+	Frame_Shift_Del	DEL	G	-	-																															tctgggttcatatctgggttGggggggaaggggtagggtgc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:74205773delG	uc001xot.2	-	2	1722	c.939delC	c.(937-939)CCCfs	p.P313fs	C14orf43_uc001xou.2_Frame_Shift_Del_p.P313fs|C14orf43_uc010tud.1_Frame_Shift_Del_p.P313fs|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	313	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		TATCTGGGTTGGGGGGGAAGG	0.662													9	14	---	---	---	---						.	-	74205773	-	-	74205773	7	5	16	1	0	1	0	1	0	0	0	0	1777	1335	47	0	2242	0	C14orf43	14	74205773	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	476620	74205773	33143767	993	12668											
FAM161B	145483	broad.mit.edu	37	chr14	74413287	74413287	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctcctgcctctgtgtctgCgaaggactcggggggaaata	7	10	13	11	2	3	0	0	0	3	0	5	3	3	2	2	4	2	0	2	4	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:74413287C>T	uc001xpd.1	-	2	182	c.76G>A	c.(76-78)GCA>ACA	p.A26T		NM_152445	NP_689658			hypothetical protein LOC145483											ovary(1)	1						TCTGTGTCTGCGAAGGACTCG	0.463													21	46					0	0	1	0	0		T	74413287	T	T	74413287	3	4	16	1	0	0	0	0	1	0	0	0	5484	768	27	1	1899	1	FAM161B	14	74413287	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	207514	74413287	32936253	994	12669											
YLPM1	56252	broad.mit.edu	37	chr14	75265533	75265533	+	Frame_Shift_Del	DEL	A	-	-																															agaaccaggagatggtggggAaaaaatgtatccatatcacc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:75265533delA	uc001xqj.3	+	5	3657	c.3533delA	c.(3532-3534)GAAfs	p.E1178fs	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	983	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		GATGGTGGGGAAAAAATGTAT	0.517													33	72	---	---	---	---						.	-	75265533	-	-	75265533	7	5	16	1	0	1	0	1	0	0	0	0	17512	246	9	0	3551	0	YLPM1	14	75265533	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	852246	75265533	32084007	995	12670											
YLPM1	56252	broad.mit.edu	37	chr14	75296006	75296006	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattatcttcagctccccgAtgattatgatactcgtgctt	8	15	8	10	2	2	2	1	2	1	0	4	4	3	3	2	1	3	2	2	1	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:75296006A>G	uc001xqj.3	+	19	6378	c.6254A>G	c.(6253-6255)GAT>GGT	p.D2085G	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1890					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		CAGCTCCCCGATGATTATGAT	0.473													33	80					0	0	1	0	0		G	75296006	G	G	75296006	3	3	16	1	0	0	0	0	1	0	0	0	17512	333	12	3	6328	3	YLPM1	14	75296006	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	30473	75296006	32053534	996	12671											
DLST	1743	broad.mit.edu	37	chr14	75367834	75367834	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccattagcaatggaggCgtttttggctcgctctttgg	6	15	11	9	2	2	0	1	0	1	0	3	1	2	1	1	4	1	4	1	4	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:75367834C>T	uc001xqv.2	+	14	1188	c.1125C>T	c.(1123-1125)GGC>GGT	p.G375G	DLST_uc001xqu.2_Silent_p.G287G|DLST_uc001xqt.2_Silent_p.G291G|DLST_uc010tuw.1_Silent_p.G289G	NM_001933	NP_001924	P36957	ODO2_HUMAN	dihydrolipoamide S-succinyltransferase (E2	375					lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	dihydrolipoyllysine-residue succinyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00698)		GCAATGGAGGCGTTTTTGGCT	0.473													25	41					0	0	1	0	0		T	75367834	T	T	75367834	2	4	16	1	0	0	0	0	0	0	0	1	4575	755	27	1		1	DLST	14	75367834	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	71828	75367834	31981706	997	12672											
TTLL5	23093	broad.mit.edu	37	chr14	76368503	76368503	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agagggtcctccgcggaaggGcagctgaatggactccagag	10	5	16	10	2	0	3	0	1	0	2	3	5	3	5	3	4	1	2	3	4	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:76368503G>A	uc001xrx.2	+	31	3964	c.3759G>A	c.(3757-3759)GGG>GGA	p.G1253G	TTLL5_uc001xsa.2_Silent_p.G327G	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	1253					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		CCGCGGAAGGGCAGCTGAATG	0.567													23	37					0	0	1	0	0		A	76368503	A	A	76368503	2	1	16	1	0	0	0	0	0	0	0	1	16756	1190	42	2		2	TTLL5	14	76368503	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1000669	76368503	30981037	998	12673											
ESRRB	2103	broad.mit.edu	37	chr14	76928920	76928920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagctgcccggccaccaacGagtgcgagatcaccaaacgg	12	3	11	15	4	1	1	1	0	0	1	1	3	1	1	4	2	5	1	4	2	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:76928920G>A	uc001xsq.1	+	3	497	c.430G>A	c.(430-432)GAG>AAG	p.E144K	ESRRB_uc001xsr.2_Missense_Mutation_p.E144K|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	144						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		GGCCACCAACGAGTGCGAGAT	0.637													14	31					0	0	1	0	0		A	76928920	A	A	76928920	3	1	16	1	0	0	0	0	1	0	0	0	5269	1059	37	1	436	1	ESRRB	14	76928920	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	560417	76928920	30420620	999	12674											
ISM2	145501	broad.mit.edu	37	chr14	77942189	77942189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatagcagcagtgctgggCggccagtgtgctgctctccc	5	9	14	13	1	2	0	1	0	1	0	3	0	2	0	2	2	5	5	2	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:77942189C>T	uc001xtz.2	-	7	1539	c.1465G>A	c.(1465-1467)GCC>ACC	p.A489T	ISM2_uc001xua.2_3'UTR|ISM2_uc001xty.2_Missense_Mutation_p.A401T|ISM2_uc010tvl.1_Missense_Mutation_p.A408T	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	489	AMOP.					extracellular region				skin(1)	1						CAGTGCTGGGCGGCCAGTGTG	0.662													5	12					0	0	1	0	0		T	77942189	T	T	77942189	3	4	16	1	0	0	0	0	1	0	0	0	7877	768	27	1	254	1	ISM2	14	77942189	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1013269	77942189	29407351	1000	12675											
KCNK10	54207	broad.mit.edu	37	chr14	88729810	88729810	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaggaaatggacaggcgCggagttggagtcggagccgg	9	4	21	7	5	0	0	0	0	0	0	1	6	0	6	1	8	1	1	1	8	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:88729810C>T	uc001xwo.2	-	2	580	c.123G>A	c.(121-123)CCG>CCA	p.P41P	KCNK10_uc001xwm.2_Silent_p.P46P|KCNK10_uc001xwn.2_Silent_p.P46P	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	41	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						TGGACAGGCGCGGAGTTGGAG	0.652													13	44					0	0	1	0	0		T	88729810	T	T	88729810	2	4	16	1	0	0	0	0	0	0	0	1	8075	755	27	1		1	KCNK10	14	88729810	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	10787621	88729810	18619730	1001	12676											
TTC7B	145567	broad.mit.edu	37	chr14	91247111	91247111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaggcttctgcgatcaccCgcagcctgtagggcgggaca	7	7	14	13	4	2	0	1	0	1	0	2	2	2	1	2	3	2	4	2	3	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:91247111C>T	uc001xyp.2	-	3	538	c.416G>A	c.(415-417)CGG>CAG	p.R139Q		NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	139							binding			ovary(2)	2		Melanoma(154;0.222)				TGCGATCACCCGCAGCCTGTA	0.567													17	34					0	0	1	0	0		T	91247111	T	T	91247111	3	4	16	1	0	0	0	0	1	0	0	0	16739	652	23	1	2187	1	TTC7B	14	91247111	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2517301	91247111	16102429	1002	12677											
KIAA1409	57578	broad.mit.edu	37	chr14	94087971	94087971	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctgttttgatcaggtgaAatagaactggctgaatatag	12	15	10	4	0	2	4	1	3	1	1	2	4	2	4	0	2	1	2	0	2	6	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:94087971A>G	uc001ybv.1	+	28	4010	c.3927A>G	c.(3925-3927)GAA>GAG	p.E1309E	KIAA1409_uc001ybs.1_Silent_p.E1287E	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1464						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GATCAGGTGAAATAGAACTGG	0.393													25	49					0	0	1	0	0		G	94087971	G	G	94087971	2	3	16	1	0	0	0	0	0	0	0	1	8246	11	1	3		3	KIAA1409	14	94087971	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	2840860	94087971	13261569	1003	12678											
PPP4R4	57718	broad.mit.edu	37	chr14	94674876	94674876	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgacagaatcccactgagacGcttcggagagtgttgccaaa	12	7	11	11	3	0	3	0	1	0	3	2	6	1	3	2	1	1	2	2	1	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:94674876G>A	uc001ycs.1	+	3	421	c.267G>A	c.(265-267)ACG>ACA	p.T89T	PPP4R4_uc001ycr.2_Silent_p.T89T	NM_058237	NP_478144	Q6NUP7	PP4R4_HUMAN	HEAT-like repeat-containing protein isoform 1	89						cytoplasm|protein serine/threonine phosphatase complex	protein binding	p.T89M(1)		skin(3)|upper_aerodigestive_tract(1)	4						CCACTGAGACGCTTCGGAGAG	0.388													13	33					0	0	1	0	0		A	94674876	A	A	94674876	2	1	16	1	0	0	0	0	0	0	0	1	12427	1074	38	1		1	PPP4R4	14	94674876	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	586905	94674876	12674664	1004	12679											
SERPINA12	145264	broad.mit.edu	37	chr14	94964713	94964713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagaacagccagaaaaatggCcaggcctagtgtggggttca	13	6	14	8	0	1	2	1	0	0	2	1	3	1	2	3	4	2	1	3	4	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:94964713C>T	uc001ydj.2	-	3	818	c.22G>A	c.(22-24)GCC>ACC	p.A8T		NM_173850	NP_776249	Q8IW75	SPA12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	8					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			central_nervous_system(2)|ovary(1)|lung(1)	4				COAD - Colon adenocarcinoma(157;0.235)		AGAAAAATGGCCAGGCCTAGT	0.453													32	69					0	0	1	0	0		T	94964713	T	T	94964713	3	4	16	1	0	0	0	0	1	0	0	0	14114	739	26	2	1238	2	SERPINA12	14	94964713	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	289837	94964713	12384827	1005	12680											
SERPINA5	5104	broad.mit.edu	37	chr14	95053815	95053815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctccatgtaggtgccaCggtggcccccagcagcagaa	9	5	13	14	1	0	1	0	0	0	1	1	2	1	2	5	4	3	3	5	4	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:95053815C>T	uc001ydm.2	+	3	326	c.116C>T	c.(115-117)ACG>ATG	p.T39M	SERPINA5_uc010ave.2_Missense_Mutation_p.T39M|SERPINA5_uc001ydn.1_Missense_Mutation_p.T39M	NM_000624	NP_000615	P05154	IPSP_HUMAN	serine (or cysteine) proteinase inhibitor, clade	39					fusion of sperm to egg plasma membrane|regulation of proteolysis|spermatogenesis	extracellular region|membrane|protein complex	acrosin binding|heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(2)	2				COAD - Colon adenocarcinoma(157;0.21)	Drotrecogin alfa(DB00055)|Urokinase(DB00013)	GTAGGTGCCACGGTGGCCCCC	0.622													12	25					0	0	1	0	0		T	95053815	T	T	95053815	3	4	16	1	0	0	0	0	1	0	0	0	14117	536	19	1	118	1	SERPINA5	14	95053815	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	89102	95053815	12295725	1006	12681											
DYNC1H1	1778	broad.mit.edu	37	chr14	102449771	102449771	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgggatgatgagtatgagaAacttcaggtattgttgagag	12	13	14	2	0	1	4	1	4	0	2	1	7	1	5	0	2	1	3	0	2	3	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:102449771A>G	uc001yks.2	+	7	1450	c.1286A>G	c.(1285-1287)AAA>AGA	p.K429R		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	429	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						GAGTATGAGAAACTTCAGGTA	0.403													4	61					0	0	1	0	0		G	102449771	G	G	102449771	3	3	16	1	0	0	0	0	1	0	0	0	4847	14	1	3	1312	3	DYNC1H1	14	102449771	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	7395956	102449771	4899769	1007	12682											
KIAA0284	283638	broad.mit.edu	37	chr14	105346747	105346747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggccggagaagggggacCggagaccaggaacaggtagg	12	1	19	9	2	0	2	0	0	0	2	0	6	0	4	4	8	1	1	4	8	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:105346747C>T	uc010axb.2	+	6	681	c.457C>T	c.(457-459)CGG>TGG	p.R153W	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Missense_Mutation_p.R83W|KIAA0284_uc001yps.2_Missense_Mutation_p.R59W	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	153						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		GAAGGGGGACCGGAGACCAGG	0.667													7	19					0	0	1	0	0		T	105346747	T	T	105346747	3	4	16	1	0	0	0	0	1	0	0	0	8182	643	23	1	475	1	KIAA0284	14	105346747	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2896976	105346747	2002793	1008	12683											
AHNAK2	113146	broad.mit.edu	37	chr14	105406444	105406444	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcaggtcagcttcaggcTggctcacctccaccttggcc	6	8	12	15	0	3	0	3	0	0	0	4	1	4	0	4	5	1	4	4	5	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr14:105406444T>C	uc010axc.1	-	7	15464	c.15344A>G	c.(15343-15345)CAG>CGG	p.Q5115R	AHNAK2_uc001ypx.2_Missense_Mutation_p.Q5015R	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5115						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			AGCTTCAGGCTGGCTCACCTC	0.582													4	60					0	0	1	0	0		C	105406444	C	C	105406444	3	2	16	1	0	0	0	0	1	0	0	0	415	1580	55	3	2047	3	AHNAK2	14	105406444	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	59697	105406444	1943096	1009	12684											
RYR3	6263	broad.mit.edu	37	chr15	34113561	34113561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtccttcagatgataagcGctagcaaaggtgatttccct	10	12	10	9	1	1	3	1	2	0	1	3	3	3	3	2	2	2	2	2	2	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:34113561G>A	uc001zhi.2	+	79	10976	c.10906G>A	c.(10906-10908)GCT>ACT	p.A3636T	RYR3_uc010bar.2_Missense_Mutation_p.A3631T	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3636					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GATGATAAGCGCTAGCAAAGG	0.473													16	26					0	0	1	0	0		A	34113561	A	A	34113561	3	1	16	1	0	0	0	0	1	0	0	0	13795	1087	38	1	11220	1	RYR3	15	34113561	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08		34113561	68417831	1010	12685											
RYR3	6263	broad.mit.edu	37	chr15	34145278	34145278	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taactactgggacaagtttgTaaagagaaaggtatgccttg	14	11	11	5	0	0	1	0	0	0	1	0	3	0	2	1	2	3	3	1	2	7	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:34145278T>C	uc001zhi.2	+	95	13731	c.13661T>C	c.(13660-13662)GTA>GCA	p.V4554A	RYR3_uc010bar.2_Missense_Mutation_p.V4549A	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4554					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GACAAGTTTGTAAAGAGAAAG	0.353													16	17					0	0	1	0	0		C	34145278	C	C	34145278	3	2	16	1	0	0	0	0	1	0	0	0	13795	1638	57	3	14039	3	RYR3	15	34145278	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	31717	34145278	68386114	1011	12686											
C15orf55	256646	broad.mit.edu	37	chr15	34649679	34649679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagaaggaagaaacgacGtcgtagccagtagggagcag	14	3	17	7	3	0	2	0	0	0	2	1	5	0	4	1	3	3	4	1	3	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:34649679G>A	uc001zif.2	+	7	3541	c.3386G>A	c.(3385-3387)CGT>CAT	p.R1129H	C15orf55_uc010ucc.1_Missense_Mutation_p.R1157H|C15orf55_uc010ucd.1_Missense_Mutation_p.R1147H	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	1129						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		AAGAAACGACGTCGTAGCCAG	0.587			T	BRD3|BRD4	lethal midline carcinoma								20	60					0	0	1	0	0		A	34649679	A	A	34649679	3	1	16	1	0	0	0	0	1	0	0	0	1806	1145	40	1	3412	1	C15orf55	15	34649679	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	504401	34649679	67881713	1012	12687											
LPCAT4	254531	broad.mit.edu	37	chr15	34655878	34655878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccagactgttggggtagCggatgaggacaggctgcaca	10	7	15	9	1	1	2	1	1	0	1	1	4	1	4	1	5	2	4	1	5	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:34655878C>T	uc001zig.2	-	6	789	c.695G>A	c.(694-696)CGC>CAC	p.R232H		NM_153613	NP_705841	Q643R3	LPCT4_HUMAN	lysophosphatidylcholine acyltransferase 4	232					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|calcium ion binding				0						GTTGGGGTAGCGGATGAGGAC	0.512													18	32					0	0	1	0	0		T	34655878	T	T	34655878	3	4	16	1	0	0	0	0	1	0	0	0	8931	768	27	1	915	1	LPCAT4	15	34655878	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6199	34655878	67875514	1013	12688											
MEIS2	4212	broad.mit.edu	37	chr15	37329090	37329090	+	Frame_Shift_Del	DEL	T	-	-																															atgcctcttttcttctggcgTtttttgtccttatccggatc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:37329090delT	uc001zjr.2	-	8	1862	c.825delA	c.(823-825)AAAfs	p.K275fs	MEIS2_uc001zjl.2_Frame_Shift_Del_p.K262fs|MEIS2_uc010ucj.1_Frame_Shift_Del_p.K262fs|MEIS2_uc001zjm.2_Frame_Shift_Del_p.K187fs|MEIS2_uc001zjn.2_Frame_Shift_Del_p.K129fs|MEIS2_uc001zjo.2_Frame_Shift_Del_p.K275fs|MEIS2_uc001zjp.2_Frame_Shift_Del_p.K275fs|MEIS2_uc001zjs.2_Frame_Shift_Del_p.K275fs|MEIS2_uc001zju.2_Frame_Shift_Del_p.K262fs|MEIS2_uc001zjt.2_Frame_Shift_Del_p.K275fs	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	275					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		TCTTCTGGCGTTTTTTGTCCT	0.398													37	74	---	---	---	---						.	-	37329090	-	-	37329090	7	5	16	1	0	1	0	1	0	0	0	0	9486	1722	60	0	691	0	MEIS2	15	37329090	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	2673212	37329090	65202302	1014	12689											
INO80	54617	broad.mit.edu	37	chr15	41366688	41366688	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accatcatgacccatatctcGtttgcgactcatgaaatggg	11	11	8	11	2	3	2	2	2	1	0	4	3	3	2	2	1	1	1	2	1	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:41366688G>A	uc001zni.2	-	10	1420	c.1207C>T	c.(1207-1209)CGA>TGA	p.R403*	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	403	Assembles INO80 complex module consisting of conserved components ACTR8, ACTL6A and YY1.|DBINO.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						CCCATATCTCGTTTGCGACTC	0.423													29	67					0	0	1	0	0		A	41366688	A	A	41366688	4	1	16	1	0	0	0	0	0	1	0	0	7762	1153	40	1	3571	1	INO80	15	41366688	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4037598	41366688	61164704	1015	12690											
LTK	4058	broad.mit.edu	37	chr15	41800405	41800405	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcggatctctacctctcCgtggttctcggtgactgtga	4	14	10	13	3	3	2	0	2	3	0	7	3	3	3	3	3	1	1	3	3	1	3	rs141049740		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:41800405C>A	uc001zoa.3	-	9	1289	c.1111G>T	c.(1111-1113)GGA>TGA	p.G371*	LTK_uc001zob.3_Nonsense_Mutation_p.G310*|LTK_uc010ucx.1_Nonsense_Mutation_p.G310*|LTK_uc010bcg.2_Nonsense_Mutation_p.G53*	NM_002344	NP_002335	P29376	LTK_HUMAN	leukocyte receptor tyrosine kinase isoform 1	371	Extracellular (Potential).				apoptosis|cell proliferation|phosphatidylinositol 3-kinase cascade|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|central_nervous_system(1)	7		all_cancers(109;1.89e-19)|all_epithelial(112;2.28e-16)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.172)		OV - Ovarian serous cystadenocarcinoma(18;2.1e-17)|GBM - Glioblastoma multiforme(113;1.34e-06)|Colorectal(105;0.0148)|BRCA - Breast invasive adenocarcinoma(123;0.113)		TCTACCTCTCCGTGGTTCTCG	0.458										TSP Lung(18;0.14)			32	73					1.26612e-14	1.36054e-14	1	1	0		A	41800405	A	A	41800405	4	1	16	1	0	0	0	0	0	1	0	0	9098	661	23	5	1531	5	LTK	15	41800405	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	433717	41800405	60730987	1016	12691											
LTK	4058	broad.mit.edu	37	chr15	41804949	41804949	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgccacagctgcacgcctctCagctgcccggcggcccccac	5	4	10	22	4	1	0	1	0	1	0	2	0	1	0	5	2	4	3	5	2	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:41804949C>T	uc001zoa.3	-	3	493	c.315G>A	c.(313-315)CTG>CTA	p.L105L	LTK_uc001zob.3_Silent_p.L105L|LTK_uc010ucx.1_Silent_p.L105L|LTK_uc010bcg.2_Intron	NM_002344	NP_002335	P29376	LTK_HUMAN	leukocyte receptor tyrosine kinase isoform 1	105	Extracellular (Potential).				apoptosis|cell proliferation|phosphatidylinositol 3-kinase cascade|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|central_nervous_system(1)	7		all_cancers(109;1.89e-19)|all_epithelial(112;2.28e-16)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.172)		OV - Ovarian serous cystadenocarcinoma(18;2.1e-17)|GBM - Glioblastoma multiforme(113;1.34e-06)|Colorectal(105;0.0148)|BRCA - Breast invasive adenocarcinoma(123;0.113)		GCACGCCTCTCAGCTGCCCGG	0.697										TSP Lung(18;0.14)			5	5					0	0	1	0	0		T	41804949	T	T	41804949	2	4	16	1	0	0	0	0	0	0	0	1	9098	813	29	4		4	LTK	15	41804949	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4544	41804949	60726443	1017	12692											
MAPKBP1	23005	broad.mit.edu	37	chr15	42105236	42105236	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagtaccttctgcatcacGtcctcagggctgctgtgcga	7	10	11	13	2	3	0	2	0	1	0	4	2	4	0	2	1	4	4	2	1	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:42105236G>A	uc001zok.3	+	8	1042	c.756G>A	c.(754-756)ACG>ACA	p.T252T	MAPKBP1_uc001zoj.3_Silent_p.T252T|MAPKBP1_uc010bcj.2_5'UTR|MAPKBP1_uc010bci.2_Silent_p.T252T|MAPKBP1_uc010udb.1_Silent_p.T140T|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_5'UTR	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	252										central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		TCTGCATCACGTCCTCAGGGC	0.577													31	91					0	0	1	0	0		A	42105236	A	A	42105236	2	1	16	1	0	0	0	0	0	0	0	1	9310	1132	40	1		1	MAPKBP1	15	42105236	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	300287	42105236	60426156	1018	12693											
CDAN1	146059	broad.mit.edu	37	chr15	43021275	43021275	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccacgaactctacggtcCggcgcaaggagggcggctgg	7	5	16	13	5	1	0	0	0	1	0	2	2	2	1	2	6	3	2	2	6	3	1	rs145082607		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:43021275C>A	uc001zql.2	-	19	2708	c.2591G>T	c.(2590-2592)CGG>CTG	p.R864L	CDAN1_uc001zqj.2_RNA|CDAN1_uc001zqk.2_Missense_Mutation_p.R190L	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	864						integral to membrane	protein binding			ovary(2)	2		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		CTCTACGGTCCGGCGCAAGGA	0.562													18	31					0.00121646	0.00123283	1	1	0		A	43021275	A	A	43021275	3	1	16	1	0	0	0	0	1	0	0	0	3057	652	23	5	1132	5	CDAN1	15	43021275	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	916039	43021275	59510117	1019	12694											
LCMT2	9836	broad.mit.edu	37	chr15	43622232	43622232	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaggatgcagtagtctgcGctctcaaagcacagcgcgga	10	6	12	13	3	2	0	1	0	2	0	3	2	2	2	1	2	4	4	1	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:43622232G>T	uc001zrg.2	-	1	660	c.456C>A	c.(454-456)AGC>AGA	p.S152R	LCMT2_uc010udn.1_Intron|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	152					tRNA processing		methyltransferase activity|protein binding				0		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.1e-07)	L-Leucine(DB00149)	AGTAGTCTGCGCTCTCAAAGC	0.677													4	29					0.00198382	0.00200928	1	1	0		T	43622232	T	T	43622232	3	4	16	1	0	0	0	0	1	0	0	0	8695	1078	38	5	1608	5	LCMT2	15	43622232	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	600957	43622232	58909160	1020	12695											
CKMT1B	1159	broad.mit.edu	37	chr15	43891410	43891410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatttgattgattgtgaacGgcgtctggagagaggccagg	9	11	15	6	2	1	4	0	3	1	1	1	6	1	5	1	4	1	0	1	4	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:43891410G>A	uc001zsc.2	+	10	1585	c.1193G>A	c.(1192-1194)CGG>CAG	p.R398Q	CKMT1B_uc010uds.1_Missense_Mutation_p.R429Q|CKMT1B_uc001zsd.3_Missense_Mutation_p.R398Q|CKMT1B_uc010bdj.2_RNA	NM_020990	NP_066270	P12532	KCRU_HUMAN	creatine kinase, mitochondrial 1B precursor	398	Phosphagen kinase C-terminal.				creatine metabolic process	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)	Creatine(DB00148)	GATTGTGAACGGCGTCTGGAG	0.493													36	86					0	0	1	0	0		A	43891410	A	A	43891410	3	1	16	1	0	0	0	0	1	0	0	0	3453	1116	39	1	1227	1	CKMT1B	15	43891410	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	269178	43891410	58639982	1021	12696											
WDR76	79968	broad.mit.edu	37	chr15	44131849	44131849	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggatgtagaaggtcaatgCgattactaaaagttgatcct	13	13	10	5	1	1	2	1	1	0	1	2	4	2	3	1	2	2	2	1	2	6	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:44131849C>T	uc001zti.1	+	5	678	c.655C>T	c.(655-657)CGA>TGA	p.R219*		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	219											0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)		AAGGTCAATGCGATTACTAAA	0.373													18	126					0	0	1	0	0		T	44131849	T	T	44131849	4	4	16	1	0	0	0	0	0	1	0	0	17352	760	27	1	673	1	WDR76	15	44131849	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	240439	44131849	58399543	1022	12697											
USP8	9101	broad.mit.edu	37	chr15	50774185	50774185	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagatagggggaaaaggtgtCcaaccccagaaatacagaaa	19	4	11	7	0	0	3	0	0	0	3	1	4	1	4	3	3	2	0	3	3	8	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:50774185C>A	uc001zym.3	+	12	2226	c.1726C>A	c.(1726-1728)CCA>ACA	p.P576T	USP8_uc001zyk.1_Missense_Mutation_p.P277T|USP8_uc001zyl.3_Missense_Mutation_p.P576T|USP8_uc001zyn.3_Missense_Mutation_p.P576T|USP8_uc010ufh.1_Missense_Mutation_p.P499T|USP8_uc010bev.1_Missense_Mutation_p.P205T	NM_001128611	NP_001122083	P40818	UBP8_HUMAN	ubiquitin specific peptidase 8	576					cell cycle|cell proliferation|endosome organization|protein K48-linked deubiquitination|protein K63-linked deubiquitination|ubiquitin-dependent protein catabolic process	cytosol|early endosome|extrinsic to plasma membrane|nucleus	cysteine-type endopeptidase activity|SH3 domain binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)|central_nervous_system(1)	2				all cancers(107;0.000225)|GBM - Glioblastoma multiforme(94;0.000771)		GAAAAGGTGTCCAACCCCAGA	0.343													4	99					0.000602214	0.00061219	1	1	0		A	50774185	A	A	50774185	3	1	16	1	0	0	0	0	1	0	0	0	17115	855	30	5	1764	5	USP8	15	50774185	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6642336	50774185	51757207	1023	12698											
TRPM7	54822	broad.mit.edu	37	chr15	50901830	50901830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gataaaaggcataaaactttCgcgtaattggaagctttttt	14	14	8	5	2	0	0	0	0	0	0	1	2	0	1	0	2	2	3	0	2	6	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:50901830C>T	uc001zyt.3	-	19	2792	c.2528G>A	c.(2527-2529)CGA>CAA	p.R843Q	TRPM7_uc010bew.1_Missense_Mutation_p.R843Q|TRPM7_uc001zyu.2_Missense_Mutation_p.R401Q	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	843	Extracellular (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		ATAAAACTTTCGCGTAATTGG	0.299													10	34					0	0	1	0	0		T	50901830	T	T	50901830	3	4	16	1	0	0	0	0	1	0	0	0	16617	884	31	1	3153	1	TRPM7	15	50901830	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	127645	50901830	51629562	1024	12699											
GLDN	342035	broad.mit.edu	37	chr15	51634199	51634199	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcgccgcatatccgcgcCgagagccatgacatgctgat	8	6	11	16	6	0	3	0	2	0	1	1	4	1	3	5	0	2	2	5	0	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:51634199C>T	uc002aba.2	+	1	487	c.318C>T	c.(316-318)GCC>GCT	p.A106A	GLDN_uc010bez.1_Silent_p.A106A	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	106	Extracellular (Potential).				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		ATATCCGCGCCGAGAGCCATG	0.726													13	26					0	0	1	0	0		T	51634199	T	T	51634199	2	4	16	1	0	0	0	0	0	0	0	1	6449	639	23	1		1	GLDN	15	51634199	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	732369	51634199	50897193	1025	12700											
UNC13C	440279	broad.mit.edu	37	chr15	54793039	54793039	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctctccccacagttccagCagacatctgagcatgctctc	8	10	6	17	0	3	2	0	1	3	1	7	2	5	2	4	0	3	4	4	0	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:54793039C>T	uc002ack.2	+	20	5164	c.5164C>T	c.(5164-5166)CAG>TAG	p.Q1722*		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1722	MHD1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ACAGTTCCAGCAGACATCTGA	0.448													13	32					0	0	1	0	0		T	54793039	T	T	54793039	4	4	16	1	0	0	0	0	0	1	0	0	17012	711	25	2	5242	2	UNC13C	15	54793039	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3158840	54793039	47738353	1026	12701											
PIGB	9488	broad.mit.edu	37	chr15	55626105	55626105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcacttgccttcataattCgtcccacagctgtcattctg	7	14	7	13	1	3	0	2	0	1	0	5	0	4	0	2	1	2	2	2	1	1	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:55626105C>T	uc002act.2	+	6	1010	c.694C>T	c.(694-696)CGT>TGT	p.R232C	PIGB_uc010ugg.1_Missense_Mutation_p.R37C	NM_004855	NP_004846	Q92521	PIGB_HUMAN	phosphatidylinositol glycan, class B	232	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	integral to membrane|intrinsic to endoplasmic reticulum membrane	glycolipid mannosyltransferase activity				0				all cancers(107;0.0255)		CTTCATAATTCGTCCCACAGC	0.383													3	23					0	0	1	0	0		T	55626105	T	T	55626105	3	4	16	1	0	0	0	0	1	0	0	0	11904	884	31	1	716	1	PIGB	15	55626105	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	833066	55626105	46905287	1027	12702											
DYX1C1	161582	broad.mit.edu	37	chr15	55759182	55759182	+	Frame_Shift_Del	DEL	T	-	-																															agtaagactcttatattttaTtttttttctttcttctttaa																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:55759182delT	uc002adc.2	-	5	951	c.583delA	c.(583-585)ATAfs	p.I195fs	CCPG1_uc002acy.2_5'UTR|DYX1C1_uc010ugh.1_RNA|DYX1C1_uc010ugi.1_Intron|DYX1C1_uc002adb.2_Frame_Shift_Del_p.I195fs|DYX1C1_uc002add.2_Frame_Shift_Del_p.I195fs	NM_130810	NP_570722	Q8WXU2	DYXC1_HUMAN	dyslexia susceptibility 1 candidate 1 isoform a	195					neuron migration|regulation of estrogen receptor signaling pathway|regulation of proteasomal protein catabolic process	cytoplasm|nucleus	estrogen receptor binding			skin(1)	1				all cancers(107;0.0118)|GBM - Glioblastoma multiforme(80;0.171)		ttatattttattttttttctt	0.154													11	24	---	---	---	---						.	-	55759182	-	-	55759182	7	5	16	1	0	1	0	1	0	0	0	0	4868	1493	52	0	806	0	DYX1C1	15	55759182	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	133077	55759182	46772210	1028	12703											
CGNL1	84952	broad.mit.edu	37	chr15	57810601	57810601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcattgtagggagaaatacGacagttagaggaggcccttg	12	10	13	6	1	1	2	1	0	0	2	1	5	1	3	1	3	1	2	1	3	4	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:57810601G>A	uc002aeg.2	+	10	2697	c.2621G>A	c.(2620-2622)CGA>CAA	p.R874Q	CGNL1_uc010bfw.2_Missense_Mutation_p.R874Q	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	874	Potential.					myosin complex|tight junction	motor activity	p.R874R(1)		skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		GGAGAAATACGACAGTTAGAG	0.478													11	23					0	0	1	0	0		A	57810601	A	A	57810601	3	1	16	1	0	0	0	0	1	0	0	0	3307	1058	37	1	2655	1	CGNL1	15	57810601	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2051419	57810601	44720791	1029	12704											
VPS13C	54832	broad.mit.edu	37	chr15	62148607	62148607	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctttatacacaacactcGcctattttgcaaaagaaaac	15	12	3	11	1	0	1	0	0	0	1	2	1	1	1	2	0	4	1	2	0	8	7	rs138846118		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:62148607G>A	uc002agz.2	-	83	11028	c.10954C>T	c.(10954-10956)CGA>TGA	p.R3652*	VPS13C_uc002aha.2_Nonsense_Mutation_p.R3609*	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	3652					protein localization					ovary(2)	2						CACAACACTCGCCTATTTTGC	0.378													18	40					0	0	1	0	0		A	62148607	A	A	62148607	4	1	16	1	0	0	0	0	0	1	0	0	17217	1101	38	1	319	1	VPS13C	15	62148607	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4338006	62148607	40382785	1030	12705											
TLN2	83660	broad.mit.edu	37	chr15	63054564	63054564	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacgctctctggccatcAaccccaaagacccacccacc	10	5	5	21	1	2	1	1	0	1	1	3	1	2	1	6	1	2	2	6	1	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:63054564A>G	uc002alb.3	+	36	4873	c.4873A>G	c.(4873-4875)AAC>GAC	p.N1625D	TLN2_uc002alc.3_Missense_Mutation_p.N18D|TLN2_uc002ald.2_Missense_Mutation_p.N18D	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1625					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						TCTGGCCATCAACCCCAAAGA	0.542													43	124					0	0	1	0	0		G	63054564	G	G	63054564	3	3	16	1	0	0	0	0	1	0	0	0	15973	130	5	3	5015	3	TLN2	15	63054564	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	905957	63054564	39476828	1031	12706											
TRIP4	9325	broad.mit.edu	37	chr15	64686305	64686305	+	Frame_Shift_Del	DEL	A	-	-																															atcctttgcagcagtgcttcAaaaaagatggtaagttaatg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:64686305delA	uc002anm.2	+	2	305	c.262delA	c.(262-264)AAAfs	p.K88fs		NM_016213	NP_057297	Q15650	TRIP4_HUMAN	thyroid hormone receptor interactor 4	88					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ligand-dependent nuclear receptor binding|transcription coactivator activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3						GCAGTGCTTCAAAAAAGATGG	0.318													17	30	---	---	---	---						.	-	64686305	-	-	64686305	7	5	16	1	0	1	0	1	0	0	0	0	16584	131	5	0	268	0	TRIP4	15	64686305	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	1631741	64686305	37845087	1032	12707											
ZNF609	23060	broad.mit.edu	37	chr15	64966762	64966762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcagctacccccaaagttcGacttgtagagccccatagcc	10	8	7	16	1	1	1	1	0	0	1	2	2	1	1	5	0	4	3	5	0	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:64966762G>A	uc002ann.2	+	4	1709	c.1709G>A	c.(1708-1710)CGA>CAA	p.R570Q		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	570						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CCCAAAGTTCGACTTGTAGAG	0.527													34	67					0	0	1	0	0		A	64966762	A	A	64966762	3	1	16	1	0	0	0	0	1	0	0	0	18060	1058	37	1	1723	1	ZNF609	15	64966762	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	280457	64966762	37564630	1033	12708											
IGDCC4	57722	broad.mit.edu	37	chr15	65678319	65678319	+	Frame_Shift_Del	DEL	G	-	-																															tcatgggcagctggggggctGggggggccaagccgagctct																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:65678319delG	uc002aou.1	-	18	3240	c.3030delC	c.(3028-3030)CCCfs	p.P1010fs	IGDCC4_uc002aot.1_Frame_Shift_Del_p.P598fs	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	1010	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						CTGGGGGGCTGGGGGGGCCAA	0.662											OREG0023195	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	10	---	---	---	---						.	-	65678319	-	-	65678319	7	5	16	1	0	1	0	1	0	0	0	0	7585	1335	47	0	734	0	IGDCC4	15	65678319	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	711557	65678319	36853073	1034	12709											
ITGA11	22801	broad.mit.edu	37	chr15	68623337	68623337	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accacagaatcacagcgttgCcaagggctcccactgccagg	11	5	10	15	1	1	1	1	0	0	1	2	1	2	1	4	2	3	2	4	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:68623337C>A	uc002ari.2	-	15	1970	c.1883G>T	c.(1882-1884)GGC>GTC	p.G628V	ITGA11_uc010bib.2_Missense_Mutation_p.G628V	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	628	FG-GAP 7.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	CACAGCGTTGCCAAGGGCTCC	0.557													5	7					5.9392e-07	6.15078e-07	1	1	0		A	68623337	A	A	68623337	3	1	16	1	0	0	0	0	1	0	0	0	7890	739	26	5	1747	5	ITGA11	15	68623337	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2945018	68623337	33908055	1035	12710											
MYO9A	4649	broad.mit.edu	37	chr15	72170488	72170488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agattcacccagtgaatcacGctgctcaagcctcatcgtct	10	10	7	14	2	5	2	4	1	1	1	6	2	5	2	2	0	2	2	2	0	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:72170488G>A	uc002atl.3	-	31	6297	c.5824C>T	c.(5824-5826)CGT>TGT	p.R1942C	MYO9A_uc002atk.2_Missense_Mutation_p.R737C|MYO9A_uc002atm.1_Missense_Mutation_p.R738C	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	1942	Tail.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						AGTGAATCACGCTGCTCAAGC	0.383													6	74					0	0	1	0	0		A	72170488	A	A	72170488	3	1	16	1	0	0	0	0	1	0	0	0	10102	1087	38	1	1870	1	MYO9A	15	72170488	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3547151	72170488	30360904	1036	12711											
PKM2	5315	broad.mit.edu	37	chr15	72502148	72502148	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccatgtaggcgttatccAgcgtgattttgagagtggct	7	15	12	7	2	0	2	0	2	0	1	2	3	2	2	2	2	1	3	2	2	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:72502148A>G	uc002atx.1	-	5	672	c.431T>C	c.(430-432)CTG>CCG	p.L144P	PKM2_uc002ats.1_5'Flank|PKM2_uc002att.1_5'Flank|PKM2_uc002atu.1_5'UTR|PKM2_uc010bit.1_Missense_Mutation_p.L149P|PKM2_uc010uki.1_Missense_Mutation_p.L218P|PKM2_uc002atv.1_Missense_Mutation_p.L179P|PKM2_uc002atw.1_Missense_Mutation_p.L144P|PKM2_uc002aty.1_Missense_Mutation_p.L144P|PKM2_uc010ukj.1_Missense_Mutation_p.L129P|PKM2_uc010ukk.1_Missense_Mutation_p.L70P|PKM2_uc010biu.1_Missense_Mutation_p.L165P|PKM2_uc002atz.1_RNA	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	144					glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	GGCGTTATCCAGCGTGATTTT	0.517													9	124					0	0	1	0	0		G	72502148	G	G	72502148	3	3	16	1	0	0	0	0	1	0	0	0	11996	188	7	3	1363	3	PKM2	15	72502148	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	331660	72502148	30029244	1037	12712											
PML	5371	broad.mit.edu	37	chr15	74315711	74315711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgacgagttcaaggtgcGcctgcaggacctcagctctt	7	10	11	13	3	3	0	2	0	1	0	4	3	3	1	2	2	3	3	2	2	1	3	rs149871195		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:74315711G>A	uc002awv.2	+	3	1285	c.1145G>A	c.(1144-1146)CGC>CAC	p.R382H	PML_uc002awm.2_Missense_Mutation_p.R382H|PML_uc002awl.2_Missense_Mutation_p.R382H|PML_uc002awj.1_Missense_Mutation_p.R382H|PML_uc002awk.2_Missense_Mutation_p.R382H|PML_uc002awn.2_Missense_Mutation_p.R382H|PML_uc002awo.2_Missense_Mutation_p.R382H|PML_uc002awp.2_Missense_Mutation_p.R382H|PML_uc002awq.2_Missense_Mutation_p.R382H|PML_uc002awr.2_Missense_Mutation_p.R382H|PML_uc002aws.2_Missense_Mutation_p.R382H|PML_uc002awt.2_Missense_Mutation_p.R382H|PML_uc002awu.2_Missense_Mutation_p.R382H|PML_uc010ule.1_Intron|PML_uc002aww.1_Missense_Mutation_p.R297H|PML_uc002awx.2_Missense_Mutation_p.R140H|PML_uc002awy.2_5'Flank	NM_033238	NP_150241	P29590	PML_HUMAN	promyelocytic leukemia protein isoform 1	382					cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction resulting in induction of apoptosis|endoplasmic reticulum calcium ion homeostasis|induction of apoptosis|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|maintenance of protein location in nucleus|negative regulation of angiogenesis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of mitotic cell cycle|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of telomerase activity|negative regulation of telomere maintenance via telomerase|negative regulation of transcription, DNA-dependent|negative regulation of translation in response to oxidative stress|PML body organization|PML body organization|positive regulation of defense response to virus by host|positive regulation of histone deacetylation|protein complex assembly|protein stabilization|protein targeting|regulation of calcium ion transport into cytosol|regulation of protein phosphorylation|response to hypoxia|response to virus|transcription, DNA-dependent	cytoplasm|cytosol|early endosome membrane|extrinsic to endoplasmic reticulum membrane|insoluble fraction|nuclear matrix|nuclear membrane|nucleolus|nucleus|PML body	cobalt ion binding|DNA binding|protein binding|protein binding|protein heterodimerization activity|protein homodimerization activity|SUMO binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding|zinc ion binding			central_nervous_system(2)|kidney(2)|breast(1)	5						TTCAAGGTGCGCCTGCAGGAC	0.672			T	RARA|PAX5	APL|ALL								7	23					0	0	1	0	0		A	74315711	A	A	74315711	3	1	16	1	0	0	0	0	1	0	0	0	12154	1087	38	1	1155	1	PML	15	74315711	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1813563	74315711	28215681	1038	12713											
ISLR2	57611	broad.mit.edu	37	chr15	74425791	74425791	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccctgccctgtgcaccGcccagcgtgcatctgagtgc	4	7	11	19	3	1	1	0	1	1	0	1	1	1	1	5	0	5	2	5	0	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:74425791G>A	uc002axd.2	+	4	1465	c.696G>A	c.(694-696)CCG>CCA	p.P232P	ISLR2_uc002axe.2_Silent_p.P232P|ISLR2_uc010bjg.2_Silent_p.P232P|ISLR2_uc010bjf.2_Silent_p.P232P	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	232	Extracellular (Potential).|LRRCT.				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CCTGTGCACCGCCCAGCGTGC	0.706													11	19					0	0	1	0	0		A	74425791	A	A	74425791	2	1	16	1	0	0	0	0	0	0	0	1	7875	1074	38	1		1	ISLR2	15	74425791	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	110080	74425791	28105601	1039	12714											
SIN3A	25942	broad.mit.edu	37	chr15	75692403	75692403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaagcgttcatcttcacaaCgataaatatgttcttcatat	14	14	4	9	2	5	0	3	0	2	0	5	1	5	0	0	0	2	2	0	0	6	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:75692403C>T	uc002bai.2	-	12	2091	c.1832G>A	c.(1831-1833)CGT>CAT	p.R611H	SIN3A_uc002baj.2_Missense_Mutation_p.R611H|SIN3A_uc010uml.1_Missense_Mutation_p.R611H	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	611	Interactions with SUDS3 and SAP130.|Interaction with NCOR1 (By similarity).				blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						ATCTTCACAACGATAAATATG	0.433													40	91					0	0	1	0	0		T	75692403	T	T	75692403	3	4	16	1	0	0	0	0	1	0	0	0	14350	536	19	1	2029	1	SIN3A	15	75692403	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1266612	75692403	26838989	1040	12715											
IREB2	3658	broad.mit.edu	37	chr15	78780136	78780136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacagcacccttatcagacGcagttttaaatgcagtaaaa	16	10	6	9	1	1	1	1	0	0	1	1	1	1	1	1	0	3	5	1	0	6	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:78780136G>A	uc002bdr.2	+	14	1933	c.1771G>A	c.(1771-1773)GCA>ACA	p.A591T	IREB2_uc010unb.1_Missense_Mutation_p.A341T	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	591							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		CTTATCAGACGCAGTTTTAAA	0.313													5	31					0	0	1	0	0		A	78780136	A	A	78780136	3	1	16	1	0	0	0	0	1	0	0	0	7842	1087	38	1	1825	1	IREB2	15	78780136	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3087733	78780136	23751256	1041	12716											
RASGRF1	5923	broad.mit.edu	37	chr15	79356791	79356791	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatggctgccacccattcGtcacaatcttttgcgtcctc	7	12	7	15	2	2	0	1	0	1	0	5	0	3	0	3	1	2	2	3	1	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:79356791G>A	uc002beq.2	-	2	729	c.354C>T	c.(352-354)GAC>GAT	p.D118D	RASGRF1_uc002bep.2_Silent_p.D118D|RASGRF1_uc010blm.1_Silent_p.D40D|RASGRF1_uc002ber.3_Silent_p.D118D	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	118	PH 1.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						CCACCCATTCGTCACAATCTT	0.532													35	66					0	0	1	0	0		A	79356791	A	A	79356791	2	1	16	1	0	0	0	0	0	0	0	1	13097	1136	40	1		1	RASGRF1	15	79356791	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	576655	79356791	23174601	1042	12717											
FAH	2184	broad.mit.edu	37	chr15	80452206	80452206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggctcagagatgacaccGaacttcggaagtggtgagaa	13	6	13	9	2	1	3	1	2	0	2	2	7	1	4	2	3	1	1	2	3	3	1	rs11555097		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:80452206G>A	uc002bfj.2	+	4	383	c.301G>A	c.(301-303)GAA>AAA	p.E101K	FAH_uc002bfk.1_Missense_Mutation_p.E101K|FAH_uc002bfm.1_Missense_Mutation_p.E101K|FAH_uc002bfn.1_Missense_Mutation_p.E31K|FAH_uc010unl.1_Missense_Mutation_p.E101K|FAH_uc002bfl.1_Missense_Mutation_p.E101K	NM_000137	NP_000128	P16930	FAAA_HUMAN	fumarylacetoacetase	101					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	fumarylacetoacetase activity|metal ion binding				0						AGATGACACCGAACTTCGGAA	0.572									Tyrosinemia_type_1				11	18					0	0	1	0	0		A	80452206	A	A	80452206	3	1	16	1	0	0	0	0	1	0	0	0	5382	1059	37	1	311	1	FAH	15	80452206	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1095415	80452206	22079186	1043	12718											
FSD2	123722	broad.mit.edu	37	chr15	83434691	83434691	+	Frame_Shift_Del	DEL	C	-	-																															gctcgctcctcacgctggggCcccccatattgagggctcgc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:83434691delC	uc002bjd.2	-	10	1813	c.1646delG	c.(1645-1647)GGCfs	p.G549fs	FSD2_uc010uol.1_Frame_Shift_Del_p.G504fs|FSD2_uc010uom.1_Frame_Shift_Del_p.G504fs	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	549	Fibronectin type-III 2.|B30.2/SPRY.									central_nervous_system(1)	1						CACGCTGGGGCCCCCCATATT	0.617													8	9	---	---	---	---						.	-	83434691	-	-	83434691	7	5	16	1	0	1	0	1	0	0	0	0	6085	739	26	0	619	0	FSD2	15	83434691	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	2982485	83434691	19096701	1044	12719											
ALPK3	57538	broad.mit.edu	37	chr15	85410563	85410563	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggggttgactggaagaTgactgatgtgcagattgcta	10	12	14	5	0	1	5	1	3	0	2	1	6	1	6	0	3	2	3	0	3	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:85410563T>A	uc002ble.2	+	13	5512	c.5345T>A	c.(5344-5346)ATG>AAG	p.M1782K	ALPK3_uc010upc.1_Missense_Mutation_p.M83K	NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1782	Alpha-type protein kinase.				heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GACTGGAAGATGACTGATGTG	0.527													24	48					0	0	1	0	0		A	85410563	A	A	85410563	3	1	16	1	0	0	0	0	1	0	0	0	546	1464	51	5	5395	5	ALPK3	15	85410563	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1975872	85410563	17120829	1045	12720											
PDE8A	5151	broad.mit.edu	37	chr15	85634360	85634360	+	Frame_Shift_Del	DEL	A	-	-																															aggagaagtgcctataaatgAaaaaaaggctgacttgctcg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:85634360delA	uc002blh.2	+	8	989	c.800delA	c.(799-801)GAAfs	p.E267fs	PDE8A_uc002bli.2_Intron|PDE8A_uc010bnc.2_Frame_Shift_Del_p.E20fs|PDE8A_uc010bnd.2_Frame_Shift_Del_p.E20fs|PDE8A_uc002blj.2_Intron|PDE8A_uc002blk.2_Intron	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	267	PAS.				cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			CCTATAAATGAAAAAAAGGCT	0.388													30	56	---	---	---	---						.	-	85634360	-	-	85634360	7	5	16	1	0	1	0	1	0	0	0	0	11672	246	9	0	830	0	PDE8A	15	85634360	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	223797	85634360	16897032	1046	12721											
AKAP13	11214	broad.mit.edu	37	chr15	86189060	86189060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttttcagaatgtgagaacTtcctggatgttggactgggc	8	14	12	7	0	1	2	1	1	0	2	2	5	2	4	1	3	1	1	1	3	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:86189060T>C	uc002blv.1	+	10	4419	c.4249T>C	c.(4249-4251)TTC>CTC	p.F1417L	AKAP13_uc002blt.1_Missense_Mutation_p.F1417L|AKAP13_uc002blu.1_Missense_Mutation_p.F1417L|AKAP13_uc010bnf.1_Missense_Mutation_p.F57L|AKAP13_uc010bne.1_Missense_Mutation_p.F70L	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1417					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						ATGTGAGAACTTCCTGGATGT	0.348													23	65					0	0	1	0	0		C	86189060	C	C	86189060	3	2	16	1	0	0	0	0	1	0	0	0	449	1609	56	3	4283	3	AKAP13	15	86189060	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	554700	86189060	16342332	1047	12722											
FES	2242	broad.mit.edu	37	chr15	91428314	91428314	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcagcccccagggccaCggggtcctgcagcaaatgca	8	5	13	15	1	0	0	0	0	0	0	1	0	1	0	4	3	5	4	4	3	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:91428314C>T	uc002bpv.2	+	2	135	c.39C>T	c.(37-39)CAC>CAT	p.H13H	FES_uc010uqj.1_Silent_p.H13H|FES_uc010uqk.1_Silent_p.H13H|FES_uc002bpw.2_RNA|FES_uc010bny.2_Silent_p.H13H|FES_uc002bpx.2_Silent_p.H13H|FES_uc002bpy.2_Silent_p.H13H	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	13	FCH.|Important for interaction with membranes containing phosphoinositides.				axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			CCCAGGGCCACGGGGTCCTGC	0.617													48	95					0	0	1	0	0		T	91428314	T	T	91428314	2	4	16	1	0	0	0	0	0	0	0	1	5834	535	19	1		1	FES	15	91428314	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5239254	91428314	11103078	1048	12723											
ADAMTS17	170691	broad.mit.edu	37	chr15	100695507	100695507	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcaagatgagtggtcatcGtcgtggttcatgcccaagct	8	10	13	10	3	2	2	2	1	0	1	4	2	2	2	1	2	2	3	1	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:100695507G>A	uc002bvv.1	-	9	1279	c.1200C>T	c.(1198-1200)GAC>GAT	p.D400D	ADAMTS17_uc002bvx.1_Silent_p.D157D	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	400	Peptidase M12B.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		AGTGGTCATCGTCGTGGTTCA	0.557													6	19					0	0	1	0	0		A	100695507	A	A	100695507	2	1	16	1	0	0	0	0	0	0	0	1	262	1136	40	1		1	ADAMTS17	15	100695507	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	9267193	100695507	1835885	1049	12724											
ADAMTS17	170691	broad.mit.edu	37	chr15	100821466	100821466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaggatgaacctctgggCggcctcggccccgtggtact	5	8	15	13	3	2	1	1	1	1	0	3	2	2	2	4	6	2	1	4	6	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:100821466C>T	uc002bvv.1	-	4	836	c.757G>A	c.(757-759)GCC>ACC	p.A253T	ADAMTS17_uc002bvx.1_Missense_Mutation_p.A10T	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	253	Peptidase M12B.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		AACCTCTGGGCGGCCTCGGCC	0.642													17	35					0	0	1	0	0		T	100821466	T	T	100821466	3	4	16	1	0	0	0	0	1	0	0	0	262	768	27	1	2606	1	ADAMTS17	15	100821466	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	125959	100821466	1709926	1050	12725											
LRRK1	79705	broad.mit.edu	37	chr15	101588759	101588759	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtcaccatttacagttttAcaggaaaccagagaaatcgc	16	9	7	9	1	1	1	1	0	0	1	2	3	1	2	2	1	3	1	2	1	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr15:101588759A>C	uc002bwr.2	+	22	3515	c.3196A>C	c.(3196-3198)ACA>CCA	p.T1066P	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_Intron	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	1066					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TTACAGTTTTACAGGAAACCA	0.423													56	105					0	0	1	0	0		C	101588759	C	C	101588759	3	2	16	1	0	0	0	0	1	0	0	0	9050	391	14	5	3278	5	LRRK1	15	101588759	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	767293	101588759	942633	1051	12726											
LUC7L	55692	broad.mit.edu	37	chr16	239997	239997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcggtcccgggaagccCgacgatgtccccggctgtgg	5	7	14	15	5	0	0	0	0	0	0	3	3	2	1	4	4	1	1	4	4	1	1	rs146490197		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:239997C>T	uc002cgc.1	-	9	1055	c.944G>A	c.(943-945)CGG>CAG	p.R315Q	LUC7L_uc002cga.1_Missense_Mutation_p.R315Q|LUC7L_uc002cgd.1_RNA|LUC7L_uc002cge.1_Missense_Mutation_p.R315Q|LUC7L_uc002cgb.1_Missense_Mutation_p.R229Q	NM_201412	NP_958815	Q9NQ29	LUC7L_HUMAN	LUC7-like isoform b	315	Arg/Ser-rich.						metal ion binding			central_nervous_system(1)	1		all_cancers(16;1.1e-06)|all_epithelial(16;2.71e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.0138)|all_lung(18;0.0306)				CCGGGAAGCCCGACGATGTCC	0.617													49	109					0	0	1	0	0		T	239997	T	T	239997	3	4	16	1	0	0	0	0	1	0	0	0	9100	652	23	1	183	1	LUC7L	16	239997	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08		239997	90114756	1052	12727											
UBE2I	7329	broad.mit.edu	37	chr16	1370217	1370217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcacccgaatgtgtacccttCggggacagtgtgcctgtcca	7	10	11	13	2	1	0	1	0	0	0	3	2	2	1	4	2	2	1	4	2	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:1370217C>T	uc002clc.1	+	5	370	c.266C>T	c.(265-267)TCG>TTG	p.S89L	UBE2I_uc002cld.1_Missense_Mutation_p.S89L|UBE2I_uc002clf.1_Missense_Mutation_p.S89L|UBE2I_uc002clg.1_Missense_Mutation_p.S89L|UBE2I_uc002clh.1_Missense_Mutation_p.S89L|UBE2I_uc002cli.1_Missense_Mutation_p.S89L	NM_194261	NP_919237	P63279	UBC9_HUMAN	ubiquitin-conjugating enzyme E2I	89				VYPS -> GVPF (in Ref. 6; AAC50603).	cell division|chromosome segregation|interspecies interaction between organisms|mitosis|negative regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|protein sumoylation	cytoplasm|PML body|synaptonemal complex	ATP binding|enzyme binding|ubiquitin-protein ligase activity			breast(1)|skin(1)	2		Hepatocellular(780;0.00369)				GTGTACCCTTCGGGGACAGTG	0.557													13	36					0	0	1	0	0		T	1370217	T	T	1370217	3	4	16	1	0	0	0	0	1	0	0	0	16885	893	31	1	280	1	UBE2I	16	1370217	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1130220	1370217	88984536	1053	12728											
GNPTG	84572	broad.mit.edu	37	chr16	1412640	1412640	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagttgctgaggacactttTtgaggatgctggctacttaa	10	13	12	6	0	0	2	0	2	0	0	0	5	0	4	0	3	3	4	0	3	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:1412640T>G	uc002clm.2	+	9	673	c.638T>G	c.(637-639)TTT>TGT	p.F213C		NM_032520	NP_115909	Q9UJJ9	GNPTG_HUMAN	N-acetylglucosamine-1-phosphotransferase, gamma	213						extracellular region|Golgi apparatus	protein binding			central_nervous_system(1)	1		Hepatocellular(780;0.0893)				AGGACACTTTTTGAGGATGCT	0.602													15	28					0	0	1	0	0		G	1412640	G	G	1412640	3	3	16	1	0	0	0	0	1	0	0	0	6561	1841	64	5	672	5	GNPTG	16	1412640	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	42423	1412640	88942113	1054	12729											
UNKL	64718	broad.mit.edu	37	chr16	1417261	1417263	+	In_Frame_Del	DEL	CTT	-	-																															acctgtgcctccacctcctcCttcttctgcagcgccagctg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:1417261_1417263delCTT	uc010brn.1	-	8	1015_1017	c.997_999delAAG	c.(997-999)AAGdel	p.K333del	UNKL_uc002cln.2_In_Frame_Del_p.K125del|UNKL_uc002clo.2_In_Frame_Del_p.K122del|UNKL_uc002clp.2_In_Frame_Del_p.K125del			Q9H9P5	UNKL_HUMAN	SubName: Full=Putative ubiquitin-protein ligase;          EC=6.3.2.19; Flags: Fragment;	623						cytoplasm|nucleus	ligase activity|nucleic acid binding|zinc ion binding				0		Hepatocellular(780;0.0893)				CCACCTCCTCCTTCTTCTGCAGC	0.69													3	4	---	---	---	---						.	-	1417263	-	-	1417261	7	5	16	1	0	1	0	1	0	0	0	0	17027	680	24	0	331	0	UNKL	16	1417261	In_Frame_Del	DEL	CTT	TCGA-BR-4292-01A-01D-1126-08	4621	1417261	88937492	1055	12730											
IFT140	9742	broad.mit.edu	37	chr16	1574907	1574907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtactgcgcccaccaccGccacagggtcctgcgggcag	7	4	13	17	3	0	0	0	0	0	0	1	0	1	0	5	3	3	2	5	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:1574907G>A	uc002cmb.2	-	23	3237	c.2875C>T	c.(2875-2877)CGG>TGG	p.R959W	IFT140_uc002clz.2_Missense_Mutation_p.R572W	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	959	TPR 4.									ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				GCCCACCACCGCCACAGGGTC	0.697													3	7					0	0	1	0	0		A	1574907	A	A	1574907	3	1	16	1	0	0	0	0	1	0	0	0	7572	1086	38	1	1549	1	IFT140	16	1574907	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	157646	1574907	88779846	1056	12731											
NUBP2	10101	broad.mit.edu	37	chr16	1837726	1837726	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctggggggagctggactAcctggtggtggacacgcccc	5	6	18	12	1	0	0	0	0	0	0	0	3	0	3	4	8	2	1	4	8	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:1837726A>G	uc002cmw.3	+	4	472	c.383A>G	c.(382-384)TAC>TGC	p.Y128C	NUBP2_uc002cmx.3_5'UTR|NUBP2_uc010brx.2_Missense_Mutation_p.Y68C	NM_012225	NP_036357	Q9Y5Y2	NUBP2_HUMAN	nucleotide binding protein 2 (MinD homolog, E.	128						microtubule organizing center|nucleus	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding|protein binding				0						GAGCTGGACTACCTGGTGGTG	0.672													13	34					0	0	1	0	0		G	1837726	G	G	1837726	3	3	16	1	0	0	0	0	1	0	0	0	10735	391	14	3	397	3	NUBP2	16	1837726	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	262819	1837726	88517027	1057	12732											
SLC9A3R2	9351	broad.mit.edu	37	chr16	2086453	2086453	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacatccgctctgtggacccGggctcacctgccgcccgctc	4	8	10	19	4	2	0	1	0	1	0	4	1	3	1	5	2	2	3	5	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:2086453G>A	uc002coi.2	+	3	662	c.543G>A	c.(541-543)CCG>CCA	p.P181P	SLC9A3R2_uc002coj.2_Silent_p.P181P|SLC9A3R2_uc002cok.2_Silent_p.P70P	NM_001130012	NP_001123484	Q15599	NHRF2_HUMAN	solute carrier family 9 isoform 3 regulator 2	181	PDZ 2.				protein complex assembly	apical plasma membrane|endomembrane system|nucleus	beta-catenin binding|phosphatase binding|protein C-terminus binding|receptor binding			central_nervous_system(1)	1						CTGTGGACCCGGGCTCACCTG	0.697													3	2					0	0	1	0	0		A	2086453	A	A	2086453	2	1	16	1	0	0	0	0	0	0	0	1	14740	1103	39	1		1	SLC9A3R2	16	2086453	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	248727	2086453	88268300	1058	12733											
PKD1	5310	broad.mit.edu	37	chr16	2166583	2166583	+	Frame_Shift_Del	DEL	G	-	-																															ctgctgtgccagaggcgtcaGgggtccctgcaggtccccac																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:2166583delG	uc002cos.1	-	8	1878	c.1669delC	c.(1669-1671)CTGfs	p.L557fs	PKD1_uc002cot.1_Frame_Shift_Del_p.L557fs	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	557	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AGAGGCGTCAGGGGTCCCTGC	0.716													3	6	---	---	---	---						.	-	2166583	-	-	2166583	7	5	16	1	0	1	0	1	0	0	0	0	11982	991	35	0	11398	0	PKD1	16	2166583	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	80130	2166583	88188170	1059	12734											
DNASE1	1773	broad.mit.edu	37	chr16	3706167	3706167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacggaacagctataaggagCgctacctgttcgtgtacagg	11	8	13	9	3	0	0	0	0	0	0	1	3	0	2	1	3	5	4	1	3	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:3706167C>T	uc002cvr.2	+	4	2408	c.301C>T	c.(301-303)CGC>TGC	p.R101C		NM_005223	NP_005214	P24855	DNAS1_HUMAN	deoxyribonuclease I precursor	101					apoptosis|DNA catabolic process	extracellular region|nuclear envelope	actin binding|deoxyribonuclease I activity				0		Ovarian(90;0.0261)		Kidney(780;0.0556)	Dornase Alfa(DB00003)	CTATAAGGAGCGCTACCTGTT	0.562								Direct_reversal_of_damage					15	31					0	0	1	0	0		T	3706167	T	T	3706167	3	4	16	1	0	0	0	0	1	0	0	0	4666	768	27	1	311	1	DNASE1	16	3706167	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1539584	3706167	86648586	1060	12735											
GLIS2	84662	broad.mit.edu	37	chr16	4384878	4384878	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccctcggctccgggggggCcctgcacctgcctgcctcct	1	7	13	20	2	0	0	0	0	0	0	3	0	2	0	8	4	3	2	8	4	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:4384878C>G	uc002cwc.1	+	3	479	c.422C>G	c.(421-423)GCC>GGC	p.A141G		NM_032575	NP_115964	Q9BZE0	GLIS2_HUMAN	GLIS family zinc finger 2	141	Interaction with CTNND1 (By similarity).				cell differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development	cytoplasm|nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|transcription regulatory region DNA binding|zinc ion binding				0						TCCGGGGGGGCCCTGCACCTG	0.662													14	16					0	0	1	0	0		G	4384878	G	G	4384878	3	3	16	1	0	0	0	0	1	0	0	0	6461	739	26	5	432	5	GLIS2	16	4384878	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	678711	4384878	85969875	1061	12736											
CORO7	79585	broad.mit.edu	37	chr16	4409582	4409582	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccaagggtccgccggccaGggcctcagcttcatatagga	8	7	13	13	2	2	0	2	0	0	0	3	1	3	1	5	4	2	1	5	4	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:4409582G>T	uc002cwh.3	-	22	2269	c.2149C>A	c.(2149-2151)CTG>ATG	p.L717M	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Missense_Mutation_p.L717M|CORO7_uc002cwg.3_Missense_Mutation_p.L497M|CORO7_uc010uxh.1_Missense_Mutation_p.L699M|CORO7_uc010uxi.1_Missense_Mutation_p.L632M|CORO7_uc002cwi.1_Missense_Mutation_p.L497M	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	717						cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						CCGCCGGCCAGGGCCTCAGCT	0.652											OREG0023580	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	9					0.000673444	0.00068376	1	1	0		T	4409582	T	T	4409582	3	4	16	1	0	0	0	0	1	0	0	0	3762	991	35	5	656	5	CORO7	16	4409582	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	24704	4409582	85945171	1062	12737											
PPL	5493	broad.mit.edu	37	chr16	4933690	4933690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggatgactacgatggagcGccgcaggtggttctcccgct	6	9	15	11	4	1	1	0	1	1	0	2	4	1	3	2	4	2	3	2	4	1	2	rs140094738	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:4933690G>A	uc002cyd.1	-	22	5056	c.4966C>T	c.(4966-4968)CGC>TGC	p.R1656C		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1656	Plectin 1.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						ACGATGGAGCGCCGCAGGTGG	0.632													9	9					0	0	1	0	0		A	4933690	A	A	4933690	3	1	16	1	0	0	0	0	1	0	0	0	12356	1087	38	1	308	1	PPL	16	4933690	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	524108	4933690	85421063	1063	12738											
ATF7IP2	80063	broad.mit.edu	37	chr16	10575765	10575765	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacctgaattagtagacaaaAcccgagacacacttcctccc	14	8	5	14	1	0	3	0	1	0	2	2	4	2	3	4	0	2	1	4	0	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:10575765A>C	uc002czu.2	+	12	1935	c.1708A>C	c.(1708-1710)ACC>CCC	p.T570P	ATF7IP2_uc002czv.2_3'UTR|ATF7IP2_uc010uyo.1_RNA|ATF7IP2_uc010uyp.1_Missense_Mutation_p.T114P|ATF7IP2_uc002czw.2_Missense_Mutation_p.T570P|ATF7IP2_uc010uyq.1_RNA	NM_024997	NP_079273	Q5U623	MCAF2_HUMAN	activating transcription factor 7 interacting	570					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						AGTAGACAAAACCCGAGACAC	0.458													26	65					0	0	1	0	0		C	10575765	C	C	10575765	3	2	16	1	0	0	0	0	1	0	0	0	1089	43	2	5	1746	5	ATF7IP2	16	10575765	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	5642075	10575765	79778988	1064	12739											
ZC3H7A	29066	broad.mit.edu	37	chr16	11868230	11868230	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgccagcactgcagatggCagagcgctctcttccacttg	7	11	10	13	1	1	2	0	0	1	2	3	2	2	2	2	1	4	4	2	1	0	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:11868230C>T	uc002dbk.2	-	8	963	c.765G>A	c.(763-765)CTG>CTA	p.L255L	ZC3H7A_uc002dbl.2_Silent_p.L255L|ZC3H7A_uc002dbm.1_Silent_p.L255L	NM_014153	NP_054872	Q8IWR0	Z3H7A_HUMAN	zinc finger CCCH-type containing 7A	255						nucleus	nucleic acid binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						CTGCAGATGGCAGAGCGCTCT	0.478													26	48					0	0	1	0	0		T	11868230	T	T	11868230	2	4	16	1	0	0	0	0	0	0	0	1	17597	697	25	2		2	ZC3H7A	16	11868230	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1292465	11868230	78486523	1065	12740											
MKL2	57496	broad.mit.edu	37	chr16	14234605	14234605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaacttaccccctctgaacGaaaggaaaaatggtgagttc	16	8	8	9	1	1	2	0	2	1	0	2	4	1	3	2	2	3	1	2	2	7	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:14234605G>A	uc010uza.1	+	3	297	c.142G>A	c.(142-144)GAA>AAA	p.E48K	MKL2_uc002dcg.2_Missense_Mutation_p.E48K	NM_014048	NP_054767	Q9ULH7	MKL2_HUMAN	megakaryoblastic leukemia 2 protein	Error:Variant_position_missing_in_Q9ULH7_after_alignment					cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5						CCCTCTGAACGAAAGGAAAAA	0.438													4	87					0	0	1	0	0		A	14234605	A	A	14234605	3	1	16	1	0	0	0	0	1	0	0	0	9620	1059	37	1	144	1	MKL2	16	14234605	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2366375	14234605	76120148	1066	12741											
PARN	5073	broad.mit.edu	37	chr16	14540788	14540788	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attctttttaatttcttggcCtttttccttccctctgagag	5	21	5	10	0	3	1	0	1	3	1	5	2	5	1	3	1	0	0	3	1	1	9			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:14540788C>A	uc010uzd.1	-	23	1963	c.1821G>T	c.(1819-1821)AAG>AAT	p.K607N	PARN_uc010uzc.1_Missense_Mutation_p.K546N|PARN_uc010uze.1_Missense_Mutation_p.K561N|PARN_uc010uzf.1_Missense_Mutation_p.K432N	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation	607					female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2						ATTTCTTGGCCTTTTTCCTTC	0.498													36	60					9.8876e-21	1.07646e-20	1	1	0		A	14540788	A	A	14540788	3	1	16	1	0	0	0	0	1	0	0	0	11472	680	24	5	106	5	PARN	16	14540788	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	306183	14540788	75813965	1067	12742											
C16orf62	57020	broad.mit.edu	37	chr16	19710946	19710946	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcacctggcacagaggcaCggctgtgcagacaccaggac	10	4	14	13	1	0	2	0	0	0	2	0	3	0	3	2	5	1	5	2	5	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:19710946C>T	uc002dgn.1	+	30	2781	c.2769C>T	c.(2767-2769)CAC>CAT	p.H923H	C16orf62_uc002dgo.1_Silent_p.H830H|C16orf62_uc002dgp.1_Silent_p.H672H	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	923						integral to membrane				ovary(1)	1						CACAGAGGCACGGCTGTGCAG	0.597													22	41					0	0	1	0	0		T	19710946	T	T	19710946	2	4	16	1	0	0	0	0	0	0	0	1	1828	535	19	1		1	C16orf62	16	19710946	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5170158	19710946	70643807	1068	12743											
PDILT	204474	broad.mit.edu	37	chr16	20373737	20373737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctcacttgttgagagcCgctggggaacagcctgaaga	9	7	13	12	1	1	3	1	2	0	2	1	5	1	4	4	2	3	2	4	2	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:20373737C>T	uc002dhc.1	-	10	1628	c.1405G>A	c.(1405-1407)GGC>AGC	p.G469S		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	469					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						TGTTGAGAGCCGCTGGGGAAC	0.488													13	19					0	0	1	0	0		T	20373737	T	T	20373737	3	4	16	1	0	0	0	0	1	0	0	0	11693	652	23	1	361	1	PDILT	16	20373737	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	662791	20373737	69981016	1069	12744											
IGSF6	10261	broad.mit.edu	37	chr16	21663892	21663892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attggtttgcagatggcgagCgatgttgcttctgctcgcag	6	13	14	8	3	1	1	0	0	1	1	2	3	1	1	0	2	4	6	0	2	0	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:21663892C>T	uc002djg.1	-	1	81	c.28G>A	c.(28-30)GCT>ACT	p.A10T	uc002diq.3_Intron|METTL9_uc002dje.2_Intron|METTL9_uc002djf.2_Intron|IGSF6_uc010vbi.1_Missense_Mutation_p.A10T	NM_005849	NP_005840	O95976	IGSF6_HUMAN	immunoglobulin superfamily, member 6 precursor	10					cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0				GBM - Glioblastoma multiforme(48;0.066)		AGATGGCGAGCGATGTTGCTT	0.423													42	66					0	0	1	0	0		T	21663892	T	T	21663892	3	4	16	1	0	0	0	0	1	0	0	0	7619	768	27	1	721	1	IGSF6	16	21663892	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1290155	21663892	68690861	1070	12745											
TNRC6A	27327	broad.mit.edu	37	chr16	24817959	24817959	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacttgatccaaacctgtTggtgaagcagcagactccac	12	9	8	12	0	1	3	1	2	0	1	3	3	3	3	3	1	4	3	3	1	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:24817959T>C	uc002dmm.2	+	17	4508	c.4394T>C	c.(4393-4395)TTG>TCG	p.L1465S	TNRC6A_uc010bxs.2_Missense_Mutation_p.L1212S|TNRC6A_uc002dmn.2_Missense_Mutation_p.L1163S|TNRC6A_uc002dmo.2_Missense_Mutation_p.L1104S|TNRC6A_uc002dmp.2_Missense_Mutation_p.L66S|TNRC6A_uc002dmq.2_Missense_Mutation_p.L132S	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1465					negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		CCAAACCTGTTGGTGAAGCAG	0.473													33	58					0	0	1	0	0		C	24817959	C	C	24817959	3	2	16	1	0	0	0	0	1	0	0	0	16365	1821	63	3	4460	3	TNRC6A	16	24817959	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	3154067	24817959	65536794	1071	12746											
GTF3C1	2975	broad.mit.edu	37	chr16	27475926	27475926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactggcccagctggcgcGcctcttggtgccccgggggc	2	7	15	17	3	2	0	1	0	1	0	2	0	2	0	4	5	2	1	4	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:27475926G>A	uc002dov.1	-	34	5627	c.5587C>T	c.(5587-5589)CGC>TGC	p.R1863C	GTF3C1_uc002dou.2_Missense_Mutation_p.R1863C	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1863						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CAGCTGGCGCGCCTCTTGGTG	0.687													11	32					0	0	1	0	0		A	27475926	A	A	27475926	3	1	16	1	0	0	0	0	1	0	0	0	6888	1087	38	1	758	1	GTF3C1	16	27475926	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2657967	27475926	62878827	1072	12747											
ATXN2L	11273	broad.mit.edu	37	chr16	28846629	28846629	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccagtcctacccacaccatgCcacacagctccatgcccacc	10	5	4	22	0	0	0	0	0	0	0	2	0	2	0	8	0	4	1	8	0	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:28846629C>G	uc002drc.2	+	20	2762	c.2594C>G	c.(2593-2595)GCC>GGC	p.A865G	uc010vct.1_Intron|ATXN2L_uc002drb.2_Missense_Mutation_p.A865G|ATXN2L_uc002dqy.2_Missense_Mutation_p.A865G|ATXN2L_uc002dra.2_Missense_Mutation_p.A865G|ATXN2L_uc002dqz.2_Missense_Mutation_p.A865G|ATXN2L_uc010vdb.1_Missense_Mutation_p.A871G|ATXN2L_uc002dre.2_Missense_Mutation_p.A865G|ATXN2L_uc002drf.2_Missense_Mutation_p.A274G|ATXN2L_uc002drg.2_Missense_Mutation_p.A147G	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	865						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						CCACACCATGCCACACAGCTC	0.657													4	11					0	0	1	0	0		G	28846629	G	G	28846629	3	3	16	1	0	0	0	0	1	0	0	0	1213	739	26	5	2672	5	ATXN2L	16	28846629	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1370703	28846629	61508124	1073	12748											
SH2B1	25970	broad.mit.edu	37	chr16	28878130	28878130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcagtcggggagggggcGccttgaaggatggagcaggg	8	5	21	7	2	1	1	1	1	0	0	2	5	1	4	1	7	1	1	1	7	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:28878130G>A	uc002dri.2	+	4	1154	c.715G>A	c.(715-717)GCC>ACC	p.A239T	uc010vct.1_Intron|SH2B1_uc010vdc.1_Intron|SH2B1_uc002drj.2_Missense_Mutation_p.A239T|SH2B1_uc002drk.2_Missense_Mutation_p.A239T|SH2B1_uc002drl.2_Missense_Mutation_p.A239T|SH2B1_uc010vdd.1_Intron|SH2B1_uc010vde.1_Missense_Mutation_p.A239T|SH2B1_uc002drm.2_Missense_Mutation_p.A239T	NM_001145795	NP_001139267	Q9NRF2	SH2B1_HUMAN	SH2B adaptor protein 1 isoform 1	239	Interaction with JAK2 (low-affinity binding; independent of JAK2 phosphorylation) (By similarity).|Required for NGF signaling (By similarity).				blood coagulation|intracellular signal transduction	cytosol|membrane|nucleus	signal transducer activity			ovary(2)	2						GGGAGGGGGCGCCTTGAAGGA	0.642													8	9					0	0	1	0	0		A	28878130	A	A	28878130	3	1	16	1	0	0	0	0	1	0	0	0	14252	1087	38	1	717	1	SH2B1	16	28878130	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	31501	28878130	61476623	1074	12749											
RABEP2	79874	broad.mit.edu	37	chr16	28925566	28925566	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaacactcacctctgtctgCagctgctcccactgagtgtc	8	10	7	16	0	3	1	1	1	2	0	5	1	4	1	2	0	4	3	2	0	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:28925566C>T	uc002drq.2	-	5	933	c.885G>A	c.(883-885)CTG>CTA	p.L295L	uc010vct.1_Intron|RABEP2_uc010vdf.1_Silent_p.L224L|RABEP2_uc010byn.2_Silent_p.L295L|RABEP2_uc002drr.2_Silent_p.L295L	NM_024816	NP_079092	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	295	Potential.				endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3						CCTCTGTCTGCAGCTGCTCCC	0.637													3	9					0	0	1	0	0		T	28925566	T	T	28925566	2	4	16	1	0	0	0	0	0	0	0	1	12987	697	25	2		2	RABEP2	16	28925566	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	47436	28925566	61429187	1075	12750											
NFATC2IP	84901	broad.mit.edu	37	chr16	28970351	28970351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccagaggccacagagaCgtcccaacagctccagctcc	10	6	8	17	1	1	2	0	0	1	2	5	3	4	2	5	1	3	2	5	1	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:28970351C>T	uc002dru.2	+	7	1046	c.1031C>T	c.(1030-1032)ACG>ATG	p.T344M	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Missense_Mutation_p.T65M|NFATC2IP_uc002drv.2_Missense_Mutation_p.T63M|NFATC2IP_uc010vdh.1_Missense_Mutation_p.T52M	NM_032815	NP_116204	Q8NCF5	NF2IP_HUMAN	nuclear factor of activated T-cells,	344						cytoplasm|nucleus				ovary(1)	1						GCCACAGAGACGTCCCAACAG	0.592													6	36					0	0	1	0	0		T	28970351	T	T	28970351	3	4	16	1	0	0	0	0	1	0	0	0	10382	536	19	1	1057	1	NFATC2IP	16	28970351	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	44785	28970351	61384402	1076	12751											
ZNF48	197407	broad.mit.edu	37	chr16	30409310	30409310	+	Frame_Shift_Del	DEL	C	-	-																															ggacacaccggggggagcagCccccccgaccagtggtgccc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:30409310delC	uc002dya.1	+	2	798	c.739delC	c.(739-741)CCCfs	p.P247fs	ZNF48_uc002dxz.1_Frame_Shift_Del_p.P124fs	NM_152652	NP_689865	Q96MX3	ZNF48_HUMAN	zinc finger protein 48	247					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGGGGAGCAGCCCCCCCGACC	0.637													19	28	---	---	---	---						.	-	30409310	-	-	30409310	7	5	16	1	0	1	0	1	0	0	0	0	17959	739	26	0	745	0	ZNF48	16	30409310	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	1438959	30409310	59945443	1077	12752											
ITGAL	3683	broad.mit.edu	37	chr16	30507880	30507880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgagagccagatgatcGtgctgaggtgagatgggtct	8	9	18	6	1	1	5	0	4	1	3	2	7	1	5	1	3	2	2	1	3	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:30507880G>A	uc002dyi.3	+	15	2001	c.1825G>A	c.(1825-1827)GTG>ATG	p.V609M	ITGAL_uc002dyj.3_Missense_Mutation_p.V526M|ITGAL_uc010vev.1_Intron	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	609	FG-GAP 7.|Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	CCAGATGATCGTGCTGAGGTG	0.453													19	31					0	0	1	0	0		A	30507880	A	A	30507880	3	1	16	1	0	0	0	0	1	0	0	0	7902	1145	40	1	1883	1	ITGAL	16	30507880	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	98570	30507880	59846873	1078	12753											
ZNF689	115509	broad.mit.edu	37	chr16	30616641	30616641	+	Frame_Shift_Del	DEL	G	-	-																															cagccgcagtcagggcagatGgggcccccggacgtctgcct																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:30616641delG	uc002dyx.2	-	3	767	c.447delC	c.(445-447)CCCfs	p.P149fs	ZNF689_uc010bzy.2_5'UTR	NM_138447	NP_612456	Q96CS4	ZN689_HUMAN	zinc finger protein HIT-39	149	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			CAGGGCAGATGGGGCCCCCGG	0.607													39	67	---	---	---	---						.	-	30616641	-	-	30616641	7	5	16	1	0	1	0	1	0	0	0	0	18119	1335	47	0	1059	0	ZNF689	16	30616641	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	108761	30616641	59738112	1079	12754											
SRCAP	10847	broad.mit.edu	37	chr16	30732518	30732518	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgtctgcagtgttgccaTcccccctgggggtcctgagt	3	13	13	12	0	1	1	0	1	1	0	3	1	3	1	5	2	2	2	5	2	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:30732518T>C	uc002dze.1	+	21	3647	c.3262T>C	c.(3262-3264)TCC>CCC	p.S1088P	SRCAP_uc002dzf.2_Intron|SRCAP_uc002dzg.1_Missense_Mutation_p.S945P|SRCAP_uc010bzz.1_Missense_Mutation_p.S658P	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1088	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			AGTGTTGCCATCCCCCCTGGG	0.592													30	43					0	0	1	0	0		C	30732518	C	C	30732518	3	2	16	1	0	0	0	0	1	0	0	0	15160	1435	50	3	3336	3	SRCAP	16	30732518	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	115877	30732518	59622235	1080	12755											
SRCAP	10847	broad.mit.edu	37	chr16	30744953	30744953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacggttcaatgcagacaaaCgcatattctgcttcatcctt	12	12	6	11	2	3	1	2	0	1	1	4	1	4	1	1	1	4	4	1	1	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:30744953C>T	uc002dze.1	+	29	6713	c.6328C>T	c.(6328-6330)CGC>TGC	p.R2110C	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.R1905C	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2110	Helicase C-terminal.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			TGCAGACAAACGCATATTCTG	0.478													25	50					0	0	1	0	0		T	30744953	T	T	30744953	3	4	16	1	0	0	0	0	1	0	0	0	15160	536	19	1	6434	1	SRCAP	16	30744953	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	12435	30744953	59609800	1081	12756											
ZNF646	9726	broad.mit.edu	37	chr16	31088883	31088883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctaagcagctgttcaatgCggctgccctcaaaaaccatg	11	10	8	12	1	3	0	2	0	1	0	3	0	3	0	2	1	5	4	2	1	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:31088883C>T	uc002eap.2	+	2	1527	c.1238C>T	c.(1237-1239)GCG>GTG	p.A413V		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	413	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						CTGTTCAATGCGGCTGCCCTC	0.587													6	17					0	0	1	0	0		T	31088883	T	T	31088883	3	4	16	1	0	0	0	0	1	0	0	0	18087	768	27	1	1240	1	ZNF646	16	31088883	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	343930	31088883	59265870	1082	12757											
ITGAX	3687	broad.mit.edu	37	chr16	31371765	31371765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggctgatgcagcaggcaTcatccgctatgcaattgggg	9	9	13	10	1	1	1	1	1	0	0	2	1	2	1	1	4	3	6	1	4	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:31371765T>C	uc002ebu.1	+	8	909	c.842T>C	c.(841-843)ATC>ACC	p.I281T	ITGAX_uc002ebt.2_Missense_Mutation_p.I281T|ITGAX_uc010vfk.1_5'Flank	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	281	VWFA.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCAGCAGGCATCATCCGCTAT	0.502													18	42					0	0	1	0	0		C	31371765	C	C	31371765	3	2	16	1	0	0	0	0	1	0	0	0	7905	1435	50	3	872	3	ITGAX	16	31371765	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	282882	31371765	58982988	1083	12758											
ITGAX	3687	broad.mit.edu	37	chr16	31391664	31391664	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggaggagctggatttcacCctgaagggcaacctcagctt	10	8	12	11	0	2	1	2	1	0	0	2	4	2	4	2	4	3	3	2	4	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:31391664C>A	uc002ebu.1	+	27	3205	c.3138C>A	c.(3136-3138)ACC>ACA	p.T1046T	ITGAX_uc002ebt.2_Silent_p.T1046T	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	1046	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGGATTTCACCCTGAAGGGCA	0.632													12	27					1.49906e-05	1.53709e-05	1	1	0		A	31391664	A	A	31391664	2	1	16	1	0	0	0	0	0	0	0	1	7905	610	22	5		5	ITGAX	16	31391664	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	19899	31391664	58963089	1084	12759											
ORC6L	23594	broad.mit.edu	37	chr16	46731427	46731427	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagatgaagatctgacacAggattatgaagaatggaaaa	20	7	11	3	0	1	6	0	3	1	3	1	9	1	8	0	2	0	0	0	2	7	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:46731427A>G	uc002eeh.2	+	7	749	c.689A>G	c.(688-690)CAG>CGG	p.Q230R		NM_014321	NP_055136	Q9Y5N6	ORC6_HUMAN	origin recognition complex subunit 6	230					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA binding|protein binding				0		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				GATCTGACACAGGATTATGAA	0.363													15	62					0	0	1	0	0		G	46731427	G	G	46731427	3	3	16	1	0	0	0	0	1	0	0	0	11285	188	7	3	715	3	ORC6L	16	46731427	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	15339763	46731427	43623326	1085	12760											
ABCC12	94160	broad.mit.edu	37	chr16	48119514	48119514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttttcttacctttgaattaCggagaagagctcgggccaca	10	12	10	9	2	1	3	0	1	1	2	2	4	1	3	2	2	3	2	2	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:48119514C>T	uc002efc.1	-	27	4164	c.3818G>A	c.(3817-3819)CGT>CAT	p.R1273H	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1273	ABC transporter 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CTTTGAATTACGGAGAAGAGC	0.453													32	72					0	0	1	0	0		T	48119514	T	T	48119514	3	4	16	1	0	0	0	0	1	0	0	0	52	536	19	1	273	1	ABCC12	16	48119514	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1388087	48119514	42235239	1086	12761											
ABCC12	94160	broad.mit.edu	37	chr16	48120729	48120729	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaaagggatccaagttgtAcctgcaatgaaggagaggag	14	7	13	7	0	1	2	1	1	0	1	2	5	2	4	2	3	2	3	2	3	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:48120729A>G	uc002efc.1	-	26	3983	c.3637T>C	c.(3637-3639)TAC>CAC	p.Y1213H	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_Intron|ABCC12_uc002efa.1_Intron|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_Intron	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1213	ABC transporter 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TCCAAGTTGTACCTGCAATGA	0.532													7	185					0	0	1	0	0		G	48120729	G	G	48120729	3	3	16	1	0	0	0	0	1	0	0	0	52	405	14	3	458	3	ABCC12	16	48120729	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1215	48120729	42234024	1087	12762											
CBLN1	869	broad.mit.edu	37	chr16	49315194	49315194	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggcagagaaagccacCttggcgctgccagagcgcac	10	5	13	13	2	0	3	0	1	0	2	0	4	0	3	3	2	3	3	3	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:49315194C>A	uc002efq.2	-	1	522	c.183G>T	c.(181-183)AAG>AAT	p.K61N		NM_004352	NP_004343	P23435	CBLN1_HUMAN	cerebellin 1 precursor	61	C1q.				nervous system development|synaptic transmission	cell junction|extracellular region|synapse					0		all_cancers(37;0.0766)|all_lung(18;0.24)				AGAAAGCCACCTTGGCGCTGC	0.617													7	18					0.00307968	0.0031135	1	1	0		A	49315194	A	A	49315194	3	1	16	1	0	0	0	0	1	0	0	0	2707	680	24	5	410	5	CBLN1	16	49315194	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1194465	49315194	41039559	1088	12763											
CYLD	1540	broad.mit.edu	37	chr16	50815288	50815288	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtttgcatcattgcagccGgtttccaatcagattgagcg	9	12	11	9	2	2	2	2	1	0	1	3	2	3	2	2	2	4	4	2	2	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:50815288G>A	uc002egp.1	+	10	2065	c.1650G>A	c.(1648-1650)CCG>CCA	p.P550P	CYLD_uc002ego.2_Silent_p.P547P|CYLD_uc010cbs.1_Silent_p.P547P|CYLD_uc002egq.1_Silent_p.P547P|CYLD_uc002egr.1_Silent_p.P547P|CYLD_uc002egs.1_Silent_p.P547P	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	550	Interaction with TRIP.|Interaction with IKBKG/NEMO.				cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				CATTGCAGCCGGTTTCCAATC	0.438			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				16	35					0	0	1	0	0		A	50815288	A	A	50815288	2	1	16	1	0	0	0	0	0	0	0	1	4146	1103	39	1		1	CYLD	16	50815288	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1500094	50815288	39539465	1089	12764											
RPGRIP1L	23322	broad.mit.edu	37	chr16	53682940	53682940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaaagcctttgccctttctCgataaagtcgaattgcttga	10	13	7	11	2	1	1	0	1	1	0	3	3	1	1	3	0	3	1	3	0	4	5	rs142349647	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:53682940C>T	uc002ehp.2	-	16	2304	c.2240G>A	c.(2239-2241)CGA>CAA	p.R747Q	RPGRIP1L_uc002eho.3_Missense_Mutation_p.R747Q|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.R747Q|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.R747Q|RPGRIP1L_uc010vgz.1_Missense_Mutation_p.R747Q	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	747					negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				TGCCCTTTCTCGATAAAGTCG	0.408													36	60					0	0	1	0	0		T	53682940	T	T	53682940	3	4	16	1	0	0	0	0	1	0	0	0	13575	884	31	1	1755	1	RPGRIP1L	16	53682940	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2867652	53682940	36671813	1090	12765											
IRX3	79191	broad.mit.edu	37	chr16	54318212	54318212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actttttctccacttccaagGcactacagcgatctaaggga	11	11	7	12	1	2	0	0	0	2	0	4	2	3	1	2	2	2	1	2	2	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:54318212G>A	uc002eht.1	-	3	1813	c.1397C>T	c.(1396-1398)GCC>GTC	p.A466V		NM_024336	NP_077312	P78415	IRX3_HUMAN	iroquois homeobox 3	466					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CACTTCCAAGGCACTACAGCG	0.622													7	30					0	0	1	0	0		A	54318212	A	A	54318212	3	1	16	1	0	0	0	0	1	0	0	0	7861	1203	42	2	116	2	IRX3	16	54318212	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	635272	54318212	36036541	1091	12766											
NLRC5	84166	broad.mit.edu	37	chr16	57060011	57060011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcagcgcccagccatcgCgggagggggccctggtggag	5	6	17	13	3	2	0	1	0	1	0	3	2	2	2	3	5	2	0	3	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:57060011C>T	uc002ekk.1	+	6	1381	c.1156C>T	c.(1156-1158)CGG>TGG	p.R386W	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.R191W|NLRC5_uc002ekl.2_Missense_Mutation_p.R191W|NLRC5_uc002ekm.2_Missense_Mutation_p.R191W|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	386	NACHT.				defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				CCAGCCATCGCGGGAGGGGGC	0.552													36	70					0	0	1	0	0		T	57060011	T	T	57060011	3	4	16	1	0	0	0	0	1	0	0	0	10489	759	27	1	1170	1	NLRC5	16	57060011	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2741799	57060011	33294742	1092	12767											
NLRC5	84166	broad.mit.edu	37	chr16	57060522	57060522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcggaccaaagctagactggGcctctcagaccacctcccca	10	5	9	17	1	1	2	1	0	1	2	3	3	2	3	6	2	1	1	6	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:57060522G>A	uc002ekk.1	+	6	1892	c.1667G>A	c.(1666-1668)GGC>GAC	p.G556D	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.G361D|NLRC5_uc002ekl.2_Missense_Mutation_p.G361D|NLRC5_uc002ekm.2_Missense_Mutation_p.G361D|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	556					defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				GCTAGACTGGGCCTCTCAGAC	0.622													24	55					0	0	1	0	0		A	57060522	A	A	57060522	3	1	16	1	0	0	0	0	1	0	0	0	10489	1203	42	2	1681	2	NLRC5	16	57060522	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	511	57060522	33294231	1093	12768											
CPNE2	221184	broad.mit.edu	37	chr16	57181521	57181521	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccccaacaagttgtgcAgtatttcaagcataaaaacc	14	9	7	11	0	1	0	1	0	0	0	1	0	1	0	3	0	5	5	3	0	7	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:57181521A>G	uc002eks.1	+	16	1827	c.1598A>G	c.(1597-1599)CAG>CGG	p.Q533R	CPNE2_uc010cct.1_Missense_Mutation_p.Q559R|CPNE2_uc010ccu.1_Missense_Mutation_p.Q533R|CPNE2_uc002ekt.1_3'UTR	NM_152727	NP_689940	Q96FN4	CPNE2_HUMAN	copine II	533										central_nervous_system(1)|skin(1)	2		all_neural(199;0.224)				CAAGTTGTGCAGTATTTCAAG	0.602													5	65					0	0	1	0	0		G	57181521	G	G	57181521	3	3	16	1	0	0	0	0	1	0	0	0	3815	188	7	3	1656	3	CPNE2	16	57181521	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	120999	57181521	33173232	1094	12769											
CCDC135	84229	broad.mit.edu	37	chr16	57760011	57760011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggttcttccgcaacccagCgaagcccgcggaggaggacg	8	4	15	14	6	1	0	0	0	1	0	2	4	2	3	3	4	3	2	3	4	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:57760011C>T	uc002emi.2	+	13	1879	c.1790C>T	c.(1789-1791)GCG>GTG	p.A597V	CCDC135_uc002emj.2_Missense_Mutation_p.A597V|CCDC135_uc002emk.2_Missense_Mutation_p.A532V	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	597						cytoplasm				central_nervous_system(1)	1						CGCAACCCAGCGAAGCCCGCG	0.607													4	10					0	0	1	0	0		T	57760011	T	T	57760011	3	4	16	1	0	0	0	0	1	0	0	0	2772	768	27	1	1836	1	CCDC135	16	57760011	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	578490	57760011	32594742	1095	12770											
PRSS54	221191	broad.mit.edu	37	chr16	58324964	58324964	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcagcgacaccacccaCgggaactccatgctgctgac	9	6	9	17	2	0	1	0	1	0	0	2	3	2	2	4	1	5	3	4	1	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:58324964C>T	uc002enf.2	-	4	557	c.162G>A	c.(160-162)CCG>CCA	p.P54P	PRSS54_uc002eng.2_Silent_p.P54P|PRSS54_uc010vie.1_Intron	NM_001080492	NP_001073961	Q6PEW0	PRS54_HUMAN	plasma kallikrein-like protein 4 precursor	54	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						ACACCACCCACGGGAACTCCA	0.607													7	36					0	0	1	0	0		T	58324964	T	T	58324964	2	4	16	1	0	0	0	0	0	0	0	1	12655	523	19	1		1	PRSS54	16	58324964	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	564953	58324964	32029789	1096	12771											
CNOT1	23019	broad.mit.edu	37	chr16	58555109	58555110	+	In_Frame_Ins	INS	-	TAC	TAC																															tcgatttctggggcacagtgINStacaaattcatggttccaga																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:58555109_58555110insTAC	uc002env.2	-	48	7322_7323	c.7029_7030insGTA	c.(7027-7032)insGTA	p.2343_2344insV	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_In_Frame_Ins_p.2338_2339insV|CNOT1_uc002ent.2_In_Frame_Ins_p.281_282insV|CNOT1_uc010vik.1_In_Frame_Ins_p.1300_1301insV	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	2343_2344					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		GGGGCACAGTGTACAAATTCAT	0.401													44	74	---	---	---	---						.	TAC	58555110	TAC	TAC	58555109	7	5	16	1	0	1	1	0	0	0	0	0	3620	1377	48	0	108	0	CNOT1	16	58555109	In_Frame_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	230145	58555109	31799644	1097	12772											
CNOT1	23019	broad.mit.edu	37	chr16	58581500	58581500	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggtttgtttttagctaaTgtgatcattcctagccaatg	9	17	9	6	0	1	1	1	1	0	0	2	1	2	1	2	1	2	3	2	1	4	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:58581500T>C	uc002env.2	-	26	3902	c.3609A>G	c.(3607-3609)ACA>ACG	p.T1203T	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Silent_p.T1198T|CNOT1_uc002enx.2_Silent_p.T1203T|CNOT1_uc010vik.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1203					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TTTTAGCTAATGTGATCATTC	0.378													15	46					0	0	1	0	0		C	58581500	C	C	58581500	2	2	16	1	0	0	0	0	0	0	0	1	3620	1451	51	3		3	CNOT1	16	58581500	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	26391	58581500	31773253	1098	12773											
CNOT1	23019	broad.mit.edu	37	chr16	58581512	58581512	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagctaatgtgatcattccTagccaatgtcccaagttctt	10	15	6	10	0	2	1	1	1	1	0	4	1	4	1	3	0	2	2	3	0	5	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:58581512T>C	uc002env.2	-	26	3890	c.3597A>G	c.(3595-3597)CTA>CTG	p.L1199L	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Silent_p.L1194L|CNOT1_uc002enx.2_Silent_p.L1199L|CNOT1_uc010vik.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1199					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TGATCATTCCTAGCCAATGTC	0.368													12	41					0	0	1	0	0		C	58581512	C	C	58581512	2	2	16	1	0	0	0	0	0	0	0	1	3620	1509	53	3		3	CNOT1	16	58581512	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	12	58581512	31773241	1099	12774											
CDH5	1003	broad.mit.edu	37	chr16	66436800	66436800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagaagccaccgaggcacGcgcctggggcacacggaggg	9	2	17	13	4	0	1	0	0	0	1	0	3	0	2	3	5	2	3	3	5	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:66436800G>A	uc002eom.3	+	12	2239	c.2083G>A	c.(2083-2085)GCG>ACG	p.A695T		NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	695	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		ACCGAGGCACGCGCCTGGGGC	0.572													3	4					0	0	1	0	0		A	66436800	A	A	66436800	3	1	16	1	0	0	0	0	1	0	0	0	3116	1087	38	1	2125	1	CDH5	16	66436800	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	7855288	66436800	23917953	1100	12775											
NAE1	8883	broad.mit.edu	37	chr16	66847501	66847501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatatatttgcctgaatctgCaatcatatcaggaattgtgc	12	15	7	7	0	3	1	2	1	1	0	3	2	3	2	1	1	3	1	1	1	7	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:66847501C>T	uc002eqf.2	-	13	1077	c.1000G>A	c.(1000-1002)GCA>ACA	p.A334T	NAE1_uc002eqe.2_Missense_Mutation_p.A328T|NAE1_uc002eqg.2_Missense_Mutation_p.A245T|NAE1_uc010cdv.2_Missense_Mutation_p.A337T	NM_003905	NP_003896	Q13564	ULA1_HUMAN	NEDD8 activating enzyme E1 subunit 1 isoform a	334	Interaction with UBA3.				apoptosis|cell cycle|DNA replication|mitotic cell cycle DNA replication checkpoint|protein neddylation|signal transduction	cytoplasm|insoluble fraction|plasma membrane	catalytic activity|protein heterodimerization activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0914)|Epithelial(162;0.214)	Adenosine triphosphate(DB00171)	CCTGAATCTGCAATCATATCA	0.343													13	33					0	0	1	0	0		T	66847501	T	T	66847501	3	4	16	1	0	0	0	0	1	0	0	0	10157	710	25	2	636	2	NAE1	16	66847501	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	410701	66847501	23507252	1101	12776											
FHOD1	29109	broad.mit.edu	37	chr16	67268086	67268086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggtgcaaggcttcgctggGcccggagcaggacacagggg	7	5	18	11	2	0	0	0	0	0	0	1	2	0	2	1	7	2	4	1	7	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:67268086G>A	uc002esl.2	-	13	1632	c.1520C>T	c.(1519-1521)GCC>GTC	p.A507V	FHOD1_uc010ced.2_Missense_Mutation_p.A314V|FHOD1_uc010vjh.1_Missense_Mutation_p.A167V	NM_013241	NP_037373	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	507	FH1.				actin cytoskeleton organization	cytoplasm|cytoskeleton|nucleus	actin binding			breast(2)|ovary(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		GCTTCGCTGGGCCCGGAGCAG	0.647													11	34					0	0	1	0	0		A	67268086	A	A	67268086	3	1	16	1	0	0	0	0	1	0	0	0	5896	1203	42	2	2014	2	FHOD1	16	67268086	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	420585	67268086	23086667	1102	12777											
GFOD2	81577	broad.mit.edu	37	chr16	67719395	67719395	+	Frame_Shift_Del	DEL	G	-	-																															atatctgccgggtgagtggaGgggggatgctgatgcacacc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:67719395delG	uc002eub.2	-	2	519	c.224delC	c.(223-225)CCTfs	p.P75fs	GFOD2_uc002euc.2_Intron|GFOD2_uc010cen.2_Frame_Shift_Del_p.P75fs	NM_030819	NP_110446	Q3B7J2	GFOD2_HUMAN	glucose-fructose oxidoreductase domain	75						proteinaceous extracellular matrix	binding|oxidoreductase activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0151)|Epithelial(162;0.0505)|all cancers(182;0.242)		GGTGAGTGGAGGGGGGATGCT	0.582													15	32	---	---	---	---						.	-	67719395	-	-	67719395	7	5	16	1	0	1	0	1	0	0	0	0	6359	1000	35	0	941	0	GFOD2	16	67719395	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	451309	67719395	22635358	1103	12778											
CDH1	999	broad.mit.edu	37	chr16	68835713	68835713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccatttcttggtctacGcctgggactccacctacaga	9	11	8	13	1	2	2	0	0	2	2	4	3	4	3	4	2	2	0	4	2	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:68835713G>A	uc002ewg.1	+	3	428	c.304G>A	c.(304-306)GCC>ACC	p.A102T	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.A102T	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	102					adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding			breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		CTTGGTCTACGCCTGGGACTC	0.512			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				24	53					0	0	1	0	0		A	68835713	A	A	68835713	3	1	16	1	0	0	0	0	1	0	0	0	3098	1087	38	1	314	1	CDH1	16	68835713	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1116318	68835713	21519040	1104	12779											
ZNF19	7567	broad.mit.edu	37	chr16	71509780	71509780	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcattatcattaaaggctcGcccacactcctcacactgat	11	11	5	14	1	2	1	2	1	0	0	4	1	3	1	2	1	1	2	2	1	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:71509780G>A	uc010cgc.1	-	6	1176	c.670C>T	c.(670-672)CGA>TGA	p.R224*	ZNF23_uc002fai.2_Intron|ZNF19_uc002fak.1_Nonsense_Mutation_p.R212*|ZNF19_uc002fal.1_Nonsense_Mutation_p.R212*|ZNF19_uc002fam.1_Nonsense_Mutation_p.R224*	NM_006961	NP_008892	P17023	ZNF19_HUMAN	zinc finger protein 19	224	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(137;0.00965)		BRCA - Breast invasive adenocarcinoma(221;0.0161)|Kidney(780;0.0598)		TTAAAGGCTCGCCCACACTCC	0.458													14	29					0	0	1	0	0		A	71509780	A	A	71509780	4	1	16	1	0	0	0	0	0	1	0	0	17780	1095	38	1	710	1	ZNF19	16	71509780	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2674067	71509780	18844973	1105	12780											
ZFHX3	463	broad.mit.edu	37	chr16	72830135	72830135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcatctgtgatcctggtgCgaggcctcttgttctgctgc	4	14	12	11	1	4	1	1	1	3	0	5	3	5	1	2	2	3	2	2	2	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:72830135C>T	uc002fck.2	-	9	7119	c.6446G>A	c.(6445-6447)CGC>CAC	p.R2149H	ZFHX3_uc002fcl.2_Missense_Mutation_p.R1235H	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2149	Homeobox 1.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GATCCTGGTGCGAGGCCTCTT	0.547													17	37					0	0	1	0	0		T	72830135	T	T	72830135	3	4	16	1	0	0	0	0	1	0	0	0	17659	768	27	1	4673	1	ZFHX3	16	72830135	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1320355	72830135	17524618	1106	12781											
ZFHX3	463	broad.mit.edu	37	chr16	72984509	72984509	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacacttgagcctccactcGttggccttgccgccctcctt	5	11	7	18	2	0	1	0	1	0	0	3	1	2	1	6	1	2	1	6	1	0	4	rs137984545	by1000genomes	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:72984509G>A	uc002fck.2	-	3	3748	c.3075C>T	c.(3073-3075)AAC>AAT	p.N1025N	ZFHX3_uc002fcl.2_Silent_p.N111N	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1025					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GCCTCCACTCGTTGGCCTTGC	0.597													12	21					0	0	1	0	0		A	72984509	A	A	72984509	2	1	16	1	0	0	0	0	0	0	0	1	17659	1136	40	1		1	ZFHX3	16	72984509	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	154374	72984509	17370244	1107	12782											
ZFHX3	463	broad.mit.edu	37	chr16	72993351	72993351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcgcacgtcaaacacgcGgaagctgtgcaggacggggc	9	5	16	11	5	1	0	1	0	0	0	2	2	1	2	0	4	3	3	0	4	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:72993351G>A	uc002fck.2	-	2	1367	c.694C>T	c.(694-696)CGC>TGC	p.R232C	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	232					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TCAAACACGCGGAAGCTGTGC	0.557													47	88					0	0	1	0	0		A	72993351	A	A	72993351	3	1	16	1	0	0	0	0	1	0	0	0	17659	1116	39	1	10453	1	ZFHX3	16	72993351	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	8842	72993351	17361402	1108	12783											
CHST5	23563	broad.mit.edu	37	chr16	75563418	75563418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagcgcaccaggcggtagcGgccgcgcaggaagggtggcg	8	2	20	11	6	0	0	0	0	0	0	0	2	0	1	2	6	2	3	2	6	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:75563418G>A	uc002fei.2	-	3	2260	c.865C>T	c.(865-867)CGC>TGC	p.R289C	CHST5_uc002fej.1_Missense_Mutation_p.R295C	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	289	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						AGGCGGTAGCGGCCGCGCAGG	0.716													6	19					0	0	1	0	0		A	75563418	A	A	75563418	3	1	16	1	0	0	0	0	1	0	0	0	3410	1116	39	1	374	1	CHST5	16	75563418	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2570067	75563418	14791335	1109	12784											
KARS	3735	broad.mit.edu	37	chr16	75669691	75669691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagtccaagtatctctggcGataccttgtttcctaaacca	11	12	6	12	1	1	0	0	0	1	0	4	1	3	0	4	1	2	2	4	1	6	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:75669691G>A	uc002feq.2	-	6	730	c.682C>T	c.(682-684)CGC>TGC	p.R228C	KARS_uc002fer.2_Missense_Mutation_p.R256C|KARS_uc002fes.2_Missense_Mutation_p.R72C|KARS_uc010cgz.2_Missense_Mutation_p.R72C	NM_005548	NP_005539	Q15046	SYK_HUMAN	lysyl-tRNA synthetase isoform 2	228					interspecies interaction between organisms|lysyl-tRNA aminoacylation|tRNA processing	cytosol|extracellular region|mitochondrial matrix|nucleus|plasma membrane|soluble fraction	ATP binding|lysine-tRNA ligase activity|metal ion binding|tRNA binding			ovary(2)	2					L-Lysine(DB00123)	TATCTCTGGCGATACCTTGTT	0.393													31	52					0	0	1	0	0		A	75669691	A	A	75669691	3	1	16	1	0	0	0	0	1	0	0	0	7996	1058	37	1	1147	1	KARS	16	75669691	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	106273	75669691	14685062	1110	12785											
TERF2IP	54386	broad.mit.edu	37	chr16	75690320	75690320	+	Frame_Shift_Del	DEL	A	-	-																															acagttacacaggccttcctAaaaaatagtggtgagctgga																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:75690320delA	uc002fet.1	+	3	1108	c.1011delA	c.(1009-1011)CTAfs	p.L337fs		NM_018975	NP_061848	Q9NYB0	TE2IP_HUMAN	telomeric repeat binding factor 2, interacting	337					negative regulation of DNA recombination at telomere|negative regulation of telomere maintenance|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of double-strand break repair via homologous recombination|telomere maintenance via telomerase|transcription, DNA-dependent	cytoplasm|nuclear telomere cap complex|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1						AGGCCTTCCTAAAAAATAGTG	0.443													122	212	---	---	---	---						.	-	75690320	-	-	75690320	7	5	16	1	0	1	0	1	0	0	0	0	15788	349	13	0	1021	0	TERF2IP	16	75690320	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	20629	75690320	14664433	1111	12786											
ADAMTS18	170692	broad.mit.edu	37	chr16	77369762	77369762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtggatgggccggggccCgagctccccaaactttacgc	6	6	14	15	4	0	0	0	0	0	0	1	2	1	1	5	4	3	1	5	4	2	2	rs149189203	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:77369762C>T	uc002ffc.3	-	12	2169	c.1750G>A	c.(1750-1752)GGG>AGG	p.G584R	ADAMTS18_uc010chc.1_Missense_Mutation_p.G172R|ADAMTS18_uc002ffe.1_Missense_Mutation_p.G280R	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	584					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						GGCCGGGGCCCGAGCTCCCCA	0.587													43	51					0	0	1	0	0		T	77369762	T	T	77369762	3	4	16	1	0	0	0	0	1	0	0	0	263	652	23	1	1963	1	ADAMTS18	16	77369762	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1679442	77369762	12984991	1112	12787											
OSGIN1	29948	broad.mit.edu	37	chr16	83994222	83994222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggccgatcccaaagccccGtggccctgctctttgatgcc	7	8	10	16	2	1	1	0	1	1	0	2	2	2	1	6	2	3	1	6	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:83994222G>A	uc002fha.2	+	5	885	c.502G>A	c.(502-504)GTG>ATG	p.V168M	OSGIN1_uc002fhb.2_Missense_Mutation_p.V85M|OSGIN1_uc002fhc.2_Missense_Mutation_p.V85M	NM_013370	NP_037502	Q9UJX0	OSGI1_HUMAN	oxidative stress induced growth inhibitor 1	168					cell differentiation|multicellular organismal development|negative regulation of cell growth		growth factor activity				0						CCAAAGCCCCGTGGCCCTGCT	0.632													18	33					0	0	1	0	0		A	83994222	A	A	83994222	3	1	16	1	0	0	0	0	1	0	0	0	11308	1145	40	1	520	1	OSGIN1	16	83994222	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6624460	83994222	6360531	1113	12788											
MBTPS1	8720	broad.mit.edu	37	chr16	84088130	84088130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgggcttcctccgcttcGgcctgctcttggccttgttg	0	14	11	16	2	1	0	0	0	1	0	4	0	3	0	5	3	1	4	5	3	0	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:84088130G>A	uc002fhi.2	-	23	3585	c.3083C>T	c.(3082-3084)CCG>CTG	p.P1028L	MBTPS1_uc002fhh.2_Missense_Mutation_p.P532L	NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	1028	Arg/Lys/Pro-rich (basic).|Cytoplasmic (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						CCTCCGCTTCGGCCTGCTCTT	0.617													10	26					0	0	1	0	0		A	84088130	A	A	84088130	3	1	16	1	0	0	0	0	1	0	0	0	9379	1116	39	1	79	1	MBTPS1	16	84088130	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	93908	84088130	6266623	1114	12789											
MBTPS1	8720	broad.mit.edu	37	chr16	84100196	84100196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgggatgttagctcctcCggtatccggcatccaccact	7	10	10	14	2	0	0	0	0	0	0	4	1	4	1	5	3	2	5	5	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:84100196C>T	uc002fhi.2	-	17	2753	c.2251G>A	c.(2251-2253)GGA>AGA	p.G751R	MBTPS1_uc002fhh.2_Missense_Mutation_p.G255R	NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	751	Lumenal (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						TTAGCTCCTCCGGTATCCGGC	0.517													14	34					0	0	1	0	0		T	84100196	T	T	84100196	3	4	16	1	0	0	0	0	1	0	0	0	9379	661	23	1	935	1	MBTPS1	16	84100196	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	12066	84100196	6254557	1115	12790											
FOXF1	2294	broad.mit.edu	37	chr16	86544392	86544392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagcgcctgacgctgagcGagatctaccagttcctgcag	9	7	11	14	3	1	3	0	2	1	1	2	4	2	3	4	0	4	3	4	0	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:86544392G>A	uc002fjl.2	+	1	260	c.217G>A	c.(217-219)GAG>AAG	p.E73K	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	73	Fork-head.				branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						GACGCTGAGCGAGATCTACCA	0.627													27	31					0	0	1	0	0		A	86544392	A	A	86544392	3	1	16	1	0	0	0	0	1	0	0	0	6019	1059	37	1	219	1	FOXF1	16	86544392	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2444196	86544392	3810361	1116	12791											
ANKRD11	29123	broad.mit.edu	37	chr16	89351372	89351372	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgggcggcagagctcccGtgagacgaggtggaggaggc	7	6	19	9	3	1	2	0	1	1	2	2	6	2	4	1	6	1	2	1	6	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr16:89351372G>A	uc002fmx.1	-	9	2039	c.1578C>T	c.(1576-1578)CAC>CAT	p.H526H	ANKRD11_uc002fmy.1_Silent_p.H526H|ANKRD11_uc002fnc.1_Silent_p.H526H|ANKRD11_uc002fnb.1_Silent_p.H483H	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	526	Ser-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CAGAGCTCCCGTGAGACGAGG	0.627													10	32					0	0	1	0	0		A	89351372	A	A	89351372	2	1	16	1	0	0	0	0	0	0	0	1	639	1136	40	1		1	ANKRD11	16	89351372	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2806980	89351372	1003381	1117	12792											
TRPV3	162514	broad.mit.edu	37	chr17	3431412	3431412	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgtcagggccaaggggtgCgggatggcctgcagggaaag	8	5	20	8	2	1	0	1	0	0	0	1	2	1	2	2	6	3	1	2	6	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:3431412C>T	uc002fvt.1	-	11	1732	c.1410G>A	c.(1408-1410)CCG>CCA	p.P470P	TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Silent_p.P454P|TRPV3_uc010vri.1_Silent_p.P425P|TRPV3_uc010vrj.1_Silent_p.P454P|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Silent_p.P454P|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Silent_p.P470P|TRPV3_uc002fvu.2_Silent_p.P470P|TRPV3_uc010vrn.1_Silent_p.P52P	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	470	Extracellular (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	CCAAGGGGTGCGGGATGGCCT	0.567													9	20					0	0	1	0	0		T	3431412	T	T	3431412	2	4	16	1	0	0	0	0	0	0	0	1	16623	755	27	1		1	TRPV3	17	3431412	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08		3431412	77763798	1118	12793											
CAMKK1	84254	broad.mit.edu	37	chr17	3786397	3786397	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggcaatctcctggtacAcccgctccaggggcagcagc	8	6	13	14	1	1	0	0	0	1	0	3	1	2	1	3	5	3	5	3	5	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:3786397A>G	uc002fwt.2	-	6	681	c.587T>C	c.(586-588)GTG>GCG	p.V196A	CAMKK1_uc002fwu.2_Missense_Mutation_p.V196A|CAMKK1_uc002fwv.2_Missense_Mutation_p.V196A	NM_172206	NP_757343	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase 1	196	Protein kinase.				synaptic transmission	cytosol|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1				LUAD - Lung adenocarcinoma(2;2.11e-05)|Lung(3;0.0176)		CTCCTGGTACACCCGCTCCAG	0.617													12	22					0	0	1	0	0		G	3786397	G	G	3786397	3	3	16	1	0	0	0	0	1	0	0	0	2609	159	6	3	1096	3	CAMKK1	17	3786397	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	354985	3786397	77408813	1119	12794											
ZZEF1	23140	broad.mit.edu	37	chr17	3926101	3926101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgaaggaaagtagcacGgatctcctcaaaaccgtgag	13	7	12	9	2	3	2	1	2	2	0	4	4	3	4	2	3	2	2	2	3	5	1	rs149535137		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:3926101G>A	uc002fxe.2	-	44	7178	c.7114C>T	c.(7114-7116)CGT>TGT	p.R2372C	ZZEF1_uc002fxh.2_Missense_Mutation_p.R686C|ZZEF1_uc002fxi.2_Missense_Mutation_p.R607C	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	2372							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						AAAGTAGCACGGATCTCCTCA	0.483													18	46					0	0	1	0	0		A	3926101	A	A	3926101	3	1	16	1	0	0	0	0	1	0	0	0	18280	1116	39	1	1819	1	ZZEF1	17	3926101	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	139704	3926101	77269109	1120	12795											
MYBBP1A	10514	broad.mit.edu	37	chr17	4448573	4448573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgcacccttcagccgcCgctcatcagaatcgtccgtc	6	9	7	19	4	4	1	3	0	1	1	7	1	5	1	5	0	2	2	5	0	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:4448573C>T	uc002fyb.3	-	16	2203	c.2141G>A	c.(2140-2142)CGG>CAG	p.R714Q	MYBBP1A_uc002fxz.3_Missense_Mutation_p.R714Q|MYBBP1A_uc002fya.3_5'Flank|MYBBP1A_uc010vsa.1_5'Flank	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	714					nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						CTTCAGCCGCCGCTCATCAGA	0.657													17	30					0	0	1	0	0		T	4448573	T	T	4448573	3	4	16	1	0	0	0	0	1	0	0	0	10026	652	23	1	1929	1	MYBBP1A	17	4448573	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	522472	4448573	76746637	1121	12796											
USP6	9098	broad.mit.edu	37	chr17	5041042	5041042	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcattgctcttaaggttcagCagagtaagtctacgtgtgcc	9	12	11	9	1	3	1	1	0	2	1	3	1	3	1	1	1	4	5	1	1	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:5041042C>T	uc002gau.1	+	20	3152	c.922C>T	c.(922-924)CAG>TAG	p.Q308*	USP6_uc002gav.1_Nonsense_Mutation_p.Q308*|USP6_uc010ckz.1_5'UTR|uc002gbd.2_5'Flank	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	308					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						TAAGGTTCAGCAGAGTAAGTC	0.572			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								32	73					0	0	1	0	0		T	5041042	T	T	5041042	4	4	16	1	0	0	0	0	0	1	0	0	17112	711	25	2	964	2	USP6	17	5041042	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	592469	5041042	76154168	1122	12797											
TXNDC17	84817	broad.mit.edu	37	chr17	6544520	6544520	+	Frame_Shift_Del	DEL	A	-	-																															gttctaaggacgccggggggAaaagctggtgccccgactgc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:6544520delA	uc002gdf.3	+	1	299	c.118delA	c.(118-120)AAAfs	p.K40fs	KIAA0753_uc002gde.3_5'Flank|KIAA0753_uc010vte.1_5'Flank	NM_032731	NP_116120	Q9BRA2	TXD17_HUMAN	thioredoxin-like 5	40					tumor necrosis factor-mediated signaling pathway	cytosol	electron carrier activity|peroxidase activity|protein binding|protein-disulfide reductase activity			ovary(1)	1						CGCCGGGGGGAAAAGCTGGTG	0.632													22	37	---	---	---	---						.	-	6544520	-	-	6544520	7	5	16	1	0	1	0	1	0	0	0	0	16822	247	9	0	120	0	TXNDC17	17	6544520	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	1503478	6544520	74650690	1123	12798											
CLEC10A	10462	broad.mit.edu	37	chr17	6978516	6978516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcccgtgcccctgccagtCgtctggctggcctggcttcc	2	9	12	18	2	1	0	0	0	1	0	3	0	2	0	6	3	3	2	6	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:6978516C>T	uc002gek.2	-	9	1111	c.808G>A	c.(808-810)GAC>AAC	p.D270N	CLEC10A_uc002gej.2_Missense_Mutation_p.D246N|CLEC10A_uc002gel.2_Missense_Mutation_p.D243N|CLEC10A_uc010clv.1_3'UTR	NM_182906	NP_878910	Q8IUN9	CLC10_HUMAN	C-type lectin, superfamily member 14 isoform 1	270	C-type lectin.|Extracellular (Potential).				endocytosis|innate immune response	integral to membrane|plasma membrane	sugar binding				0						CCCTGCCAGTCGTCTGGCTGG	0.597													11	13					0	0	1	0	0		T	6978516	T	T	6978516	3	4	16	1	0	0	0	0	1	0	0	0	3498	884	31	1	146	1	CLEC10A	17	6978516	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	433996	6978516	74216694	1124	12799											
DLG4	1742	broad.mit.edu	37	chr17	7106649	7106649	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgatgctgaagccaagacCtggatggaggggaggccaga	11	5	17	8	1	0	3	0	1	0	2	0	7	0	6	3	5	3	1	3	5	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:7106649C>T	uc002get.3	-	9	1836	c.635_splice	c.e9-1	p.G212_splice	DLG4_uc010vtm.1_Splice_Site|DLG4_uc010vtn.1_Splice_Site_p.G109_splice|DLG4_uc010cly.2_Splice_Site_p.G166_splice|DLG4_uc010vto.1_Splice_Site_p.G209_splice|DLG4_uc002geu.2_Splice_Site_p.G166_splice	NM_001365	NP_001356	P78352	DLG4_HUMAN	post-synaptic density protein 95 isoform 1						axon guidance|learning|protein complex assembly|protein localization to synapse|signal transduction|synaptic transmission	cell junction|cortical cytoskeleton|endocytic vesicle membrane|neuron spine|postsynaptic density|postsynaptic membrane|synaptosome	protein binding|protein C-terminus binding			ovary(1)|breast(1)	2						AAGCCAAGACCTGGATGGAGG	0.562													12	20					0	0	1	0	0		T	7106649	T	T	7106649	5	4	16	1	0	0	0	0	0	0	1	0	4563	695	24	4	1725	4	DLG4	17	7106649	Splice_Site	SNP	C	TCGA-BR-4292-01A-01D-1126-08	128133	7106649	74088561	1125	12800											
AMAC1L3	643664	broad.mit.edu	37	chr17	7386241	7386241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttctgacatcgtgggggCaggggttgtgctgggcagca	6	9	17	9	1	1	1	0	1	1	0	2	1	1	1	1	5	2	5	1	5	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:7386241C>T	uc010cmj.1	+	2	1053	c.938C>T	c.(937-939)GCA>GTA	p.A313V	ZBTB4_uc002ghd.3_Intron|POLR2A_uc002ghe.2_5'Flank|POLR2A_uc002ghf.3_5'Flank	NM_001102614	NP_001096084	P0C7Q6	AMCL3_HUMAN	acyl-malonyl condensing enzyme 1-like 3	313	DUF6 2.|Helical; (Potential).					integral to membrane					0		Prostate(122;0.173)				ATCGTGGGGGCAGGGGTTGTG	0.582													4	107					0	0	1	0	0		T	7386241	T	T	7386241	3	4	16	1	0	0	0	0	1	0	0	0	561	710	25	2	944	2	AMAC1L3	17	7386241	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	279592	7386241	73808969	1126	12801											
TP53	7157	broad.mit.edu	37	chr17	7577121	7577121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaggacaggcacaaacacGcacctcaaagctgttccgtc	12	5	8	16	2	1	0	1	0	0	0	3	1	2	1	3	2	2	4	3	2	2	1	rs121913343		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:7577121G>A	uc002gim.2	-	8	1011	c.817C>T	c.(817-819)CGT>TGT	p.R273C	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141C|TP53_uc010cng.1_Missense_Mutation_p.R141C|TP53_uc002gii.1_Missense_Mutation_p.R141C|TP53_uc010cnh.1_Missense_Mutation_p.R273C|TP53_uc010cni.1_Missense_Mutation_p.R273C|TP53_uc002gij.2_Missense_Mutation_p.R273C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(467)|p.R273C(396)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.F270fs*72(1)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCACAAACACGCACCTCAAAG	0.542	R273C(SH10TC_STOMACH)|R273C(SUDHL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(8MGBA_CENTRAL_NERVOUS_SYSTEM)|R273C(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273C(BL70_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(SW1710_URINARY_TRACT)|R273C(RH30_SOFT_TISSUE)|R273C(PANC0213_PANCREAS)|R273C(SJRH30_SOFT_TISSUE)|R273C(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(RDES_BONE)|R273C(TT2609C02_THYROID)|R273C(MFE319_ENDOMETRIUM)|R273C(RPMI8402_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(EFO27_OVARY)|R273C(NCIH1048_LUNG)|R273C(KARPAS299_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			3	16					0	0	1	0	0		A	7577121	A	A	7577121	3	1	16	1	0	0	0	0	1	0	0	0	16407	1087	38	1	469	1	TP53	17	7577121	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	190880	7577121	73618089	1127	12802											
CHD3	1107	broad.mit.edu	37	chr17	7810789	7810789	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctgaacctgggtaccgtgGggacagagagaagtcaggtg	10	6	17	8	1	1	3	1	1	0	2	1	5	1	4	3	4	2	1	3	4	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:7810789G>T	uc002gje.2	+	32	5057	c.4907G>T	c.(4906-4908)GGG>GTG	p.G1636V	CHD3_uc002gjd.2_Missense_Mutation_p.G1695V|CHD3_uc002gjf.2_Missense_Mutation_p.G1636V|CHD3_uc002gjh.2_Missense_Mutation_p.G212V|CHD3_uc002gjj.2_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1636	Required for interaction with PCNT.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GGGTACCGTGGGGACAGAGAG	0.577													4	26					0.00116845	0.00118489	1	1	0		T	7810789	T	T	7810789	3	4	16	1	0	0	0	0	1	0	0	0	3329	1232	43	5	5314	5	CHD3	17	7810789	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	233668	7810789	73384421	1128	12803											
ALOX12B	242	broad.mit.edu	37	chr17	7978911	7978911	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccaggtgtccaggcccatAcctgagctctcccgccccag	6	6	10	19	1	1	1	0	1	1	0	3	1	2	1	7	2	2	1	7	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:7978911A>G	uc002gjy.1	-	12	1915	c.1654_splice	c.e12+1	p.G552_splice		NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type						epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						CCAGGCCCATACCTGAGCTCT	0.587										Multiple Myeloma(8;0.094)			37	85					0	0	1	0	0		G	7978911	G	G	7978911	5	3	16	1	0	0	0	0	0	0	1	0	537	405	14	3	465	3	ALOX12B	17	7978911	Splice_Site	SNP	A	TCGA-BR-4292-01A-01D-1126-08	168122	7978911	73216299	1129	12804											
TMEM107	84314	broad.mit.edu	37	chr17	8077915	8077915	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacagggccacggatgcActacagtgagccccaatggc	12	4	13	12	1	0	1	0	1	0	0	0	3	0	3	3	4	3	1	3	4	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:8077915A>G	uc002gkg.3	-	4	386	c.276T>C	c.(274-276)AGT>AGC	p.S92S	TMEM107_uc002gkh.3_Silent_p.S98S|TMEM107_uc002gki.3_Silent_p.S98S|TMEM107_uc002gkj.3_Intron|TMEM107_uc002gkk.2_3'UTR	NM_183065	NP_898888	Q6UX40	TM107_HUMAN	transmembrane protein 107 isoform 2	92	Helical; (Potential).					integral to membrane					0						CCACGGATGCACTACAGTGAG	0.507													99	176					0	0	1	0	0		G	8077915	G	G	8077915	2	3	16	1	0	0	0	0	0	0	0	1	16048	156	6	3		3	TMEM107	17	8077915	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	99004	8077915	73117295	1130	12805											
MYH10	4628	broad.mit.edu	37	chr17	8393780	8393780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcttggcatcttccgtggCctggagttcgtcttccagct	5	13	11	12	2	2	0	0	0	2	0	5	1	4	1	3	3	2	4	3	3	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:8393780C>T	uc002gll.2	-	33	4765	c.4669G>A	c.(4669-4671)GCC>ACC	p.A1557T	MYH10_uc002glm.2_Missense_Mutation_p.A1588T|MYH10_uc010cnx.2_Missense_Mutation_p.A1566T	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1557	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TCTTCCGTGGCCTGGAGTTCG	0.542													35	84					0	0	1	0	0		T	8393780	T	T	8393780	3	4	16	1	0	0	0	0	1	0	0	0	10048	739	26	2	1297	2	MYH10	17	8393780	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	315865	8393780	72801430	1131	12806											
WDR16	146845	broad.mit.edu	37	chr17	9515631	9515631	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttctccctaaaggaagaTtcagttacaaggcggcatca	12	10	9	10	1	3	1	2	0	1	1	4	2	3	2	1	3	2	3	1	3	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:9515631T>A	uc002gly.2	+	8	929	c.860T>A	c.(859-861)ATT>AAT	p.I287N	WDR16_uc002glz.2_Missense_Mutation_p.I219N|WDR16_uc010coc.2_Missense_Mutation_p.I297N	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	287						cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						TAAAGGAAGATTCAGTTACAA	0.428													26	50					0	0	1	0	0		A	9515631	A	A	9515631	3	1	16	1	0	0	0	0	1	0	0	0	17302	1493	52	5	890	5	WDR16	17	9515631	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1121851	9515631	71679579	1132	12807											
MYH8	4626	broad.mit.edu	37	chr17	10303844	10303844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagctcagccatactgtctgCgtgcttcttccgaagagcag	9	10	10	12	2	3	1	1	0	2	1	4	2	4	1	2	0	6	3	2	0	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:10303844C>T	uc002gmm.2	-	27	3693	c.3598G>A	c.(3598-3600)GCA>ACA	p.A1200T	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1200	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						ATACTGTCTGCGTGCTTCTTC	0.547									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				27	55					0	0	1	0	0		T	10303844	T	T	10303844	3	4	16	1	0	0	0	0	1	0	0	0	10059	768	27	1	2271	1	MYH8	17	10303844	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	788213	10303844	70891366	1133	12808											
MYH4	4622	broad.mit.edu	37	chr17	10355428	10355428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagagcagctgccgtggcttCgtgctgcagggtggactctt	6	10	15	10	2	1	1	0	0	1	1	2	2	1	2	1	3	5	5	1	3	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:10355428C>T	uc002gmn.2	-	27	3679	c.3568G>A	c.(3568-3570)GAA>AAA	p.E1190K	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1190	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						GCCGTGGCTTCGTGCTGCAGG	0.582													5	50					0	0	1	0	0		T	10355428	T	T	10355428	3	4	16	1	0	0	0	0	1	0	0	0	10055	893	31	1	2307	1	MYH4	17	10355428	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	51584	10355428	70839782	1134	12809											
DNAH9	1770	broad.mit.edu	37	chr17	11713626	11713626	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacacagtgtttctcatgActgatgcccaagtggctgat	10	12	9	10	0	2	3	2	3	1	0	3	3	2	3	1	1	2	2	1	1	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:11713626A>G	uc002gne.2	+	45	8715	c.8647A>G	c.(8647-8649)ACT>GCT	p.T2883A	DNAH9_uc010coo.2_Missense_Mutation_p.T2177A	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2883	AAA 4 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GTTTCTCATGACTGATGCCCA	0.448													20	48					0	0	1	0	0		G	11713626	G	G	11713626	3	3	16	1	0	0	0	0	1	0	0	0	4614	275	10	3	8825	3	DNAH9	17	11713626	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1358198	11713626	69481584	1135	12810											
MPRIP	23164	broad.mit.edu	37	chr17	17046886	17046886	+	Frame_Shift_Del	DEL	C	-	-																															acaggacttcaccaatgaagCccccccagctcctctcccag																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:17046886delC	uc002gqu.1	+	9	1108	c.1052delC	c.(1051-1053)GCCfs	p.A351fs	MPRIP_uc002gqv.1_Frame_Shift_Del_p.A351fs|MPRIP_uc002gqw.1_Intron	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	351	Interaction with F-actin (By similarity).					cytoplasm|cytoskeleton	actin binding				0						ACCAATGAAGCCCCCCCAGCT	0.652													10	21	---	---	---	---						.	-	17046886	-	-	17046886	7	5	16	1	0	1	0	1	0	0	0	0	9761	739	26	0	1086	0	MPRIP	17	17046886	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	5333260	17046886	64148324	1136	12811											
RAI1	10743	broad.mit.edu	37	chr17	17696624	17696624	+	Frame_Shift_Del	DEL	G	-	-																															tgaggagagccttcaggcttGgggggccccacagccaccac																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:17696624delG	uc002grm.2	+	3	831	c.362delG	c.(361-363)TGGfs	p.W121fs	RAI1_uc002grn.1_Frame_Shift_Del_p.W121fs	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	121						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CTTCAGGCTTGGGGGGCCCCA	0.652													8	15	---	---	---	---						.	-	17696624	-	-	17696624	7	5	16	1	0	1	0	1	0	0	0	0	13032	1357	47	0	364	0	RAI1	17	17696624	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	649738	17696624	63498586	1137	12812											
LLGL1	3996	broad.mit.edu	37	chr17	18140896	18140896	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcacatggaagggccaCgagcggctgagcccacgcac	9	4	14	14	3	1	1	1	1	0	0	1	3	1	2	2	4	2	3	2	4	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:18140896C>T	uc002gsp.2	+	14	1774	c.1713C>T	c.(1711-1713)CAC>CAT	p.H571H		NM_004140	NP_004131	Q15334	L2GL1_HUMAN	lethal giant larvae homolog 1	571	WD 9.				cortical actin cytoskeleton organization|exocytosis|protein complex assembly	cortical actin cytoskeleton	protein kinase binding|structural molecule activity			breast(2)|skin(2)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)	6	all_neural(463;0.228)					GGAAGGGCCACGAGCGGCTGA	0.672													11	22					0	0	1	0	0		T	18140896	T	T	18140896	2	4	16	1	0	0	0	0	0	0	0	1	8850	535	19	1		1	LLGL1	17	18140896	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	444272	18140896	63054314	1138	12813											
LLGL1	3996	broad.mit.edu	37	chr17	18140961	18140961	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccagccccgtgtcctggTgcagtgcctgccgccagctg	3	9	12	17	2	0	0	0	0	0	0	2	0	2	0	7	1	5	2	7	1	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:18140961T>C	uc002gsp.2	+	14	1839	c.1778T>C	c.(1777-1779)GTG>GCG	p.V593A		NM_004140	NP_004131	Q15334	L2GL1_HUMAN	lethal giant larvae homolog 1	593	WD 9.				cortical actin cytoskeleton organization|exocytosis|protein complex assembly	cortical actin cytoskeleton	protein kinase binding|structural molecule activity			breast(2)|skin(2)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)	6	all_neural(463;0.228)					CGTGTCCTGGTGCAGTGCCTG	0.667													3	11					0	0	1	0	0		C	18140961	C	C	18140961	3	2	16	1	0	0	0	0	1	0	0	0	8850	1696	59	3	1832	3	LLGL1	17	18140961	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	65	18140961	63054249	1139	12814											
EVPLL	645027	broad.mit.edu	37	chr17	18286145	18286145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggtcaaggcaggatgcCgccaccatccggagccaata	10	6	11	14	2	1	0	1	0	0	0	2	2	2	2	6	4	2	1	6	4	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:18286145C>T	uc002gte.2	+	6	733	c.478C>T	c.(478-480)CGC>TGC	p.R160C		NM_001145127	NP_001138599	A8MZ36	EVPLL_HUMAN	envoplakin-like	160											0						GGCAGGATGCCGCCACCATCC	0.677													4	5					0	0	1	0	0		T	18286145	T	T	18286145	3	4	16	1	0	0	0	0	1	0	0	0	5301	652	23	1	496	1	EVPLL	17	18286145	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	145184	18286145	62909065	1140	12815											
FBXW10	10517	broad.mit.edu	37	chr17	18675757	18675757	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagagagcaatgttctcaTgttccagtttgagcacataa	13	11	8	9	0	1	2	1	1	1	1	3	3	2	2	1	0	2	5	1	0	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:18675757T>C	uc002guk.2	+	12	2271	c.2039T>C	c.(2038-2040)ATG>ACG	p.M680T	FBXW10_uc002guj.2_Missense_Mutation_p.M680T|FBXW10_uc002gul.2_Missense_Mutation_p.M709T|FBXW10_uc010cqh.1_Missense_Mutation_p.M627T	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	680										ovary(1)	1						AATGTTCTCATGTTCCAGTTT	0.353													4	162					0	0	1	0	0		C	18675757	C	C	18675757	3	2	16	1	0	0	0	0	1	0	0	0	5777	1464	51	3	2085	3	FBXW10	17	18675757	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	389612	18675757	62519453	1141	12816											
ALDOC	230	broad.mit.edu	37	chr17	26902512	26902512	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaatgtcagacaactccttCttctgctcagcagaaagggc	11	9	9	12	0	4	2	2	0	2	2	5	2	5	2	1	1	3	3	1	1	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:26902512C>T	uc002hbp.2	-	2	184	c.39G>A	c.(37-39)AAG>AAA	p.K13K	ALDOC_uc010cro.2_Silent_p.K13K	NM_005165	NP_005156	P09972	ALDOC_HUMAN	fructose-bisphosphate aldolase C	13					fructose 1,6-bisphosphate metabolic process|gluconeogenesis|glycolysis	cytosol	cytoskeletal protein binding|fructose-bisphosphate aldolase activity			ovary(1)	1	Lung NSC(42;0.00431)					ACAACTCCTTCTTCTGCTCAG	0.552											OREG0024278	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	41					0	0	1	0	0		T	26902512	T	T	26902512	2	4	16	1	0	0	0	0	0	0	0	1	509	912	32	4		4	ALDOC	17	26902512	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	8226755	26902512	54292698	1142	12817											
KIAA0100	9703	broad.mit.edu	37	chr17	26958520	26958520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagctgtgcgattgctatGccgttggtaggtgagggagg	6	11	17	7	2	1	1	1	1	0	0	1	3	1	2	1	4	4	4	1	4	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:26958520G>A	uc002hbu.2	-	23	4375	c.4276C>T	c.(4276-4278)CAT>TAT	p.H1426Y		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	1426						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					CGATTGCTATGCCGTTGGTAG	0.408													11	29					0	0	1	0	0		A	26958520	A	A	26958520	3	1	16	1	0	0	0	0	1	0	0	0	8170	1319	46	2	2499	2	KIAA0100	17	26958520	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	56008	26958520	54236690	1143	12818											
FLOT2	2319	broad.mit.edu	37	chr17	27209367	27209367	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatacccggatgcctgcGtcccgttcagcctcggccac	6	7	9	19	4	1	0	1	0	0	0	3	1	2	1	6	2	4	1	6	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:27209367G>A	uc002hdc.2	-	6	690	c.567C>T	c.(565-567)GAC>GAT	p.D189D		NM_004475	NP_004466	Q14254	FLOT2_HUMAN	flotillin 2	189					cell adhesion|epidermis development	cell surface|endocytic vesicle|endosome|membrane fraction					0	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;3.26e-06)|all cancers(11;1.76e-05)|BRCA - Breast invasive adenocarcinoma(11;0.00015)|OV - Ovarian serous cystadenocarcinoma(11;0.0602)			GGATGCCTGCGTCCCGTTCAG	0.582													14	33					0	0	1	0	0		A	27209367	A	A	27209367	2	1	16	1	0	0	0	0	0	0	0	1	5951	1136	40	1		1	FLOT2	17	27209367	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	250847	27209367	53985843	1144	12819											
NF1	4763	broad.mit.edu	37	chr17	29556992	29556992	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgatgttaaatctggtcaGgtaagcattctactgaaatg	14	13	9	5	0	3	2	1	2	2	0	3	2	3	2	0	2	2	3	0	2	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:29556992G>T	uc002hgg.2	+	22	3323	c.2990G>T	c.(2989-2991)AGG>ATG	p.R997M	NF1_uc002hgh.2_Missense_Mutation_p.R997M|NF1_uc010csn.1_Missense_Mutation_p.R857M|NF1_uc002hgi.1_Missense_Mutation_p.R30M	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	997					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)|p.R997fs*16(1)|p.R997K(1)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		AATCTGGTCAGGTAAGCATTC	0.353			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			31	92					1.39806e-14	1.50135e-14	1	1	0		T	29556992	T	T	29556992	3	4	16	1	0	0	0	0	1	0	0	0	10375	1014	35	5	3137	5	NF1	17	29556992	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2347625	29556992	51638218	1145	12820											
NF1	4763	broad.mit.edu	37	chr17	29684298	29684298	+	Frame_Shift_Del	DEL	A	-	-																															tcttggcaggctacactggtAaaatataccacagatgagtt																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:29684298delA	uc002hgg.2	+	54	8214	c.7881delA	c.(7879-7881)GTAfs	p.V2627fs	NF1_uc002hgh.2_Frame_Shift_Del_p.V2606fs|NF1_uc010cso.2_Frame_Shift_Del_p.V815fs|NF1_uc010wbt.1_Frame_Shift_Del_p.V105fs|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2627					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		CTACACTGGTAAAATATACCA	0.378			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			18	32	---	---	---	---						.	-	29684298	-	-	29684298	7	5	16	1	0	1	0	1	0	0	0	0	10375	349	13	0	8156	0	NF1	17	29684298	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	127306	29684298	51510912	1146	12821											
TMEM132E	124842	broad.mit.edu	37	chr17	32956140	32956140	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acattgactaccgtggccacGgcgccctgcctgacctggag	7	7	12	15	3	0	2	0	2	0	0	0	3	0	3	5	3	2	0	5	3	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:32956140G>T	uc002hif.2	+	5	1313	c.985G>T	c.(985-987)GGC>TGC	p.G329C		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	329	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		CCGTGGCCACGGCGCCCTGCC	0.607													15	30					3.70931e-20	4.03303e-20	1	1	0		T	32956140	T	T	32956140	3	4	16	1	0	0	0	0	1	0	0	0	16073	1116	39	5	1003	5	TMEM132E	17	32956140	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3271842	32956140	48239070	1147	12822											
SLFN5	162394	broad.mit.edu	37	chr17	33586176	33586176	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaattcattaggtccacAggcagctcagggtagtgtac	10	11	10	10	0	2	0	2	0	0	0	4	0	4	0	2	3	2	4	2	3	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:33586176A>C	uc002hjf.3	+	2	584	c.467A>C	c.(466-468)CAG>CCG	p.Q156P	SLFN5_uc002hje.2_Missense_Mutation_p.Q156P|SLFN5_uc010wcg.1_Missense_Mutation_p.Q156P	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	156					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		TTAGGTCCACAGGCAGCTCAG	0.423													30	80					0	0	1	0	0		C	33586176	C	C	33586176	3	2	16	1	0	0	0	0	1	0	0	0	14762	188	7	5	469	5	SLFN5	17	33586176	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	630036	33586176	47609034	1148	12823											
CCL15	6359	broad.mit.edu	37	chr17	34324855	34324855	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcctgaactcccggaccaCtgggtttggcacagacttgc	9	9	10	13	1	0	2	0	1	0	1	2	3	2	3	3	3	2	2	3	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:34324855C>A	uc010wcu.1	-	4	859	c.290G>T	c.(289-291)AGT>ATT	p.S97I	CCL14-CCL15_uc010wcs.1_RNA|CCL14-CCL15_uc010wct.1_RNA	NM_032965	NP_116741	Q16663	CCL15_HUMAN	chemokine (C-C motif) ligand 15 precursor	97					cell-cell signaling|cellular calcium ion homeostasis|immune response	extracellular space	chemoattractant activity|chemokine activity|heparin binding|signal transducer activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TCCCGGACCACTGGGTTTGGC	0.512													12	27					7.03913e-09	7.35425e-09	1	1	0		A	34324855	A	A	34324855	3	1	16	1	0	0	0	0	1	0	0	0	2889	565	20	5	55	5	CCL15	17	34324855	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	738679	34324855	46870355	1149	12824											
SYNRG	11276	broad.mit.edu	37	chr17	35902366	35902366	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctcactggtctgaggaatCgtgtctttaaaactggcaag	10	12	11	8	1	3	1	1	1	2	0	4	2	3	2	0	3	2	2	0	3	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:35902366C>T	uc002hoa.2	-	15	2993	c.2910G>A	c.(2908-2910)ACG>ACA	p.T970T	SYNRG_uc010wde.1_Silent_p.T892T|SYNRG_uc010wdf.1_Silent_p.T892T|SYNRG_uc002hoc.2_Silent_p.T891T|SYNRG_uc002hoe.2_Silent_p.T892T|SYNRG_uc002hod.2_Silent_p.T847T|SYNRG_uc010wdg.1_Silent_p.T764T|SYNRG_uc002hob.2_Silent_p.T970T|SYNRG_uc002hof.2_Silent_p.T636T	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	970					endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						TCTGAGGAATCGTGTCTTTAA	0.458													23	54					0	0	1	0	0		T	35902366	T	T	35902366	2	4	16	1	0	0	0	0	0	0	0	1	15485	871	31	1		1	SYNRG	17	35902366	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1577511	35902366	45292844	1150	12825											
C17orf98	388381	broad.mit.edu	37	chr17	36997563	36997563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctagagcgcccataagcgCgggcagcggtgctcacagcc	8	4	14	15	4	1	1	1	0	0	1	1	1	1	1	3	2	5	2	3	2	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:36997563C>T	uc002hqv.2	-	1	80	c.80G>A	c.(79-81)CGC>CAC	p.R27H		NM_001080465	NP_001073934	A8MV24	CQ098_HUMAN	hypothetical protein LOC388381	27											0						CCCATAAGCGCGGGCAGCGGT	0.632													11	19					0	0	1	0	0		T	36997563	T	T	36997563	3	4	16	1	0	0	0	0	1	0	0	0	1896	768	27	1	396	1	C17orf98	17	36997563	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1095197	36997563	44197647	1151	12826											
NR1D1	9572	broad.mit.edu	37	chr17	38253490	38253490	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggaatgctcccaaaggaGcgagccgggtcttgggtgag	8	7	18	8	2	1	1	0	1	1	0	2	4	2	3	2	5	3	1	2	5	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:38253490G>A	uc002htz.1	-	2	824	c.198C>T	c.(196-198)CGC>CGT	p.R66R	NR1D1_uc010cwq.1_RNA|NR1D1_uc010cwr.1_5'Flank	NM_021724	NP_068370	P20393	NR1D1_HUMAN	nuclear receptor subfamily 1, group D, member 1	66					cellular response to lipopolysaccharide|negative regulation of receptor biosynthetic process|negative regulation of toll-like receptor 4 signaling pathway|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			skin(1)	1	Colorectal(19;0.000442)					TCCCAAAGGAGCGAGCCGGGT	0.463													3	27					0	0	1	0	0		A	38253490	A	A	38253490	2	1	16	1	0	0	0	0	0	0	0	1	10634	958	34	2		2	NR1D1	17	38253490	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1255927	38253490	42941720	1152	12827											
KRT27	342574	broad.mit.edu	37	chr17	38936090	38936090	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgttcacgttgcctccagcCgcgcactgaagagctttcat	8	10	9	14	4	2	2	2	1	0	1	3	2	3	2	3	0	3	4	3	0	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:38936090C>A	uc002hvg.2	-	4	749	c.708G>T	c.(706-708)GCG>GCT	p.A236A		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	236	Rod.|Linker 12.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				TGCCTCCAGCCGCGCACTGAA	0.433													12	26					0.000151284	0.000154264	1	1	0		A	38936090	A	A	38936090	2	1	16	1	0	0	0	0	0	0	0	1	8480	639	23	5		5	KRT27	17	38936090	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	682600	38936090	42259120	1153	12828											
KRT12	3859	broad.mit.edu	37	chr17	39021080	39021080	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcgtggttcttcttcatgTaggccagctcctcgttcagg	4	14	10	13	2	4	0	2	0	2	0	7	0	5	0	3	3	1	4	3	3	1	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:39021080T>C	uc002hvk.2	-	3	809	c.785A>G	c.(784-786)TAC>TGC	p.Y262C		NM_000223	NP_000214	Q99456	K1C12_HUMAN	keratin 12	262	Rod.|Coil 1B.				visual perception	intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				CTTCTTCATGTAGGCCAGCTC	0.522													35	78					0	0	1	0	0		C	39021080	C	C	39021080	3	2	16	1	0	0	0	0	1	0	0	0	8465	1638	57	3	723	3	KRT12	17	39021080	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	84990	39021080	42174130	1154	12829											
KRT17	3872	broad.mit.edu	37	chr17	39776936	39776936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcctctccctccagcaggcGgcggtaggtggcaatctcct	6	9	11	15	2	2	0	0	0	2	0	6	0	4	0	4	5	1	3	4	5	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:39776936G>A	uc002hxh.2	-	6	1277	c.1156C>T	c.(1156-1158)CGC>TGC	p.R386C	JUP_uc010wfs.1_Intron	NM_000422	NP_000413	Q04695	K1C17_HUMAN	keratin 17	386	Coil 2.|Rod.				epidermis development	cytoplasm|intermediate filament	protein binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2		Breast(137;0.000307)				TCCAGCAGGCGGCGGTAGGTG	0.627									Steatocystoma_Multiplex				12	24					0	0	1	0	0		A	39776936	A	A	39776936	3	1	16	1	0	0	0	0	1	0	0	0	8470	1116	39	1	154	1	KRT17	17	39776936	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	755856	39776936	41418274	1155	12830											
NAGLU	4669	broad.mit.edu	37	chr17	40695811	40695811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccctgttgagggctggagGcgtcctggcctatgagctgc	4	10	15	12	1	0	2	0	2	0	0	2	3	2	3	3	4	2	3	3	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:40695811G>A	uc002hzv.2	+	6	2127	c.1787G>A	c.(1786-1788)GGC>GAC	p.G596D		NM_000263	NP_000254	P54802	ANAG_HUMAN	alpha-N-acetylglucosaminidase precursor	596						lysosome	alpha-N-acetylglucosaminidase activity				0		all_cancers(22;1.58e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)	N-Acetyl-D-glucosamine(DB00141)	AGGGCTGGAGGCGTCCTGGCC	0.642													4	11					0	0	1	0	0		A	40695811	A	A	40695811	3	1	16	1	0	0	0	0	1	0	0	0	10161	1203	42	2	1809	2	NAGLU	17	40695811	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	918875	40695811	40499399	1156	12831											
HSD17B1	3292	broad.mit.edu	37	chr17	40706500	40706500	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccagaggaggtgctggAccgcacggacatccacacct	10	4	12	15	2	0	1	0	0	0	1	1	4	1	4	4	4	2	2	4	4	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:40706500A>C	uc002hzw.2	+	5	1585	c.617A>C	c.(616-618)GAC>GCC	p.D206A	HSD17B1_uc002hzx.2_Missense_Mutation_p.D207A|HSD17B1_uc010wgm.1_RNA|uc002hzy.2_5'UTR|HSD17B1_uc010cyi.2_Missense_Mutation_p.D237A	NM_000413	NP_000404	P14061	DHB1_HUMAN	hydroxysteroid (17-beta) dehydrogenase 1	206					estrogen biosynthetic process	cytosol	binding|estradiol 17-beta-dehydrogenase activity				0		all_cancers(22;5.59e-08)|all_epithelial(22;7e-07)|Ovarian(249;0.0261)		BRCA - Breast invasive adenocarcinoma(366;0.129)	NADH(DB00157)	GAGGTGCTGGACCGCACGGAC	0.632													6	8					0	0	1	0	0		C	40706500	C	C	40706500	3	2	16	1	0	0	0	0	1	0	0	0	7394	275	10	5	635	5	HSD17B1	17	40706500	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	10689	40706500	40488710	1157	12832											
PSMC3IP	29893	broad.mit.edu	37	chr17	40725006	40725006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggggtctgggagtgtgaCgttgtaatcttcatccgtct	6	14	13	8	2	5	1	2	1	3	0	6	2	6	2	1	3	0	2	1	3	1	3	rs149230650		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:40725006C>T	uc002iai.2	-	8	677	c.634G>A	c.(634-636)GTC>ATC	p.V212I	MLX_uc002iaf.2_3'UTR|MLX_uc002iag.2_3'UTR|MLX_uc002iah.2_3'UTR|PSMC3IP_uc002iaj.2_Missense_Mutation_p.V149I|PSMC3IP_uc002iak.2_Missense_Mutation_p.V200I|PSMC3IP_uc010wgn.1_Missense_Mutation_p.V133I|PSMC3IP_uc010wgo.1_RNA|PSMC3IP_uc010wgp.1_RNA	NM_016556	NP_057640	Q9P2W1	HOP2_HUMAN	PSMC3 interacting protein isoform 2	212					DNA recombination|meiosis	nucleus	DNA binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(22;0.00426)|Breast(137;0.00116)|all_epithelial(22;0.0395)		BRCA - Breast invasive adenocarcinoma(366;0.13)		GGGAGTGTGACGTTGTAATCT	0.522													29	50					0	0	1	0	0		T	40725006	T	T	40725006	3	4	16	1	0	0	0	0	1	0	0	0	12710	536	19	1	23	1	PSMC3IP	17	40725006	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	18506	40725006	40470204	1158	12833											
AOC3	8639	broad.mit.edu	37	chr17	41003976	41003976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctacaagcaccggggaCggaacctggtgacaatgacc	11	6	12	12	2	1	2	0	2	1	0	1	4	1	4	3	4	3	2	3	4	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:41003976C>T	uc002ibv.2	+	1	776	c.616C>T	c.(616-618)CGG>TGG	p.R206W		NM_003734	NP_003725	Q16853	AOC3_HUMAN	amine oxidase, copper containing 3 precursor	206	Extracellular (Potential).				amine metabolic process|cell adhesion|inflammatory response	cell surface|integral to membrane|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|protein homodimerization activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)	Hydralazine(DB01275)|Phenelzine(DB00780)	GCACCGGGGACGGAACCTGGT	0.577													9	17					0	0	1	0	0		T	41003976	T	T	41003976	3	4	16	1	0	0	0	0	1	0	0	0	728	527	19	1	618	1	AOC3	17	41003976	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	278970	41003976	40191234	1159	12834											
MPP2	4355	broad.mit.edu	37	chr17	41959741	41959741	+	Frame_Shift_Del	DEL	G	-	-																															caggagctcctgcagtgcgcGggggtcactgcccactggct																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:41959741delG	uc010wip.1	-	6	784	c.727delC	c.(727-729)CGCfs	p.R243fs	MPP2_uc002ien.1_Frame_Shift_Del_p.R215fs|MPP2_uc010wim.1_Frame_Shift_Del_p.R187fs|MPP2_uc002ieo.1_Frame_Shift_Del_p.R198fs|MPP2_uc010win.1_Frame_Shift_Del_p.R59fs|MPP2_uc010wio.1_Frame_Shift_Del_p.R187fs|MPP2_uc010czm.1_Frame_Shift_Del_p.R181fs	NM_005374	NP_005365	Q14168	MPP2_HUMAN	palmitoylated membrane protein 2	222	PDZ.				signal transduction	cell surface|integral to plasma membrane|membrane fraction	guanylate kinase activity				0		Breast(137;0.00314)		BRCA - Breast invasive adenocarcinoma(366;0.12)		TGCAGTGCGCGGGGGTCACTG	0.652													19	44	---	---	---	---						.	-	41959741	-	-	41959741	7	5	16	1	0	1	0	1	0	0	0	0	9752	1116	39	0	1098	0	MPP2	17	41959741	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	955765	41959741	39235469	1160	12835											
MPP2	4355	broad.mit.edu	37	chr17	41959879	41959879	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccacgcggaacgttacacCctggaggtcagagggagtgt	9	7	14	11	3	1	1	1	0	0	1	2	4	2	4	2	4	2	1	2	4	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:41959879C>A	uc010wip.1	-	6	646	c.589G>T	c.(589-591)GGT>TGT	p.G197C	MPP2_uc002ien.1_Missense_Mutation_p.G169C|MPP2_uc010wim.1_Missense_Mutation_p.G141C|MPP2_uc002ieo.1_Missense_Mutation_p.G152C|MPP2_uc010win.1_Missense_Mutation_p.G13C|MPP2_uc010wio.1_Missense_Mutation_p.G141C|MPP2_uc010czm.1_Missense_Mutation_p.G135C	NM_005374	NP_005365	Q14168	MPP2_HUMAN	palmitoylated membrane protein 2	176					signal transduction	cell surface|integral to plasma membrane|membrane fraction	guanylate kinase activity				0		Breast(137;0.00314)		BRCA - Breast invasive adenocarcinoma(366;0.12)		AACGTTACACCCTGGAGGTCA	0.567													13	20					3.27435e-08	3.3995e-08	1	1	0		A	41959879	A	A	41959879	3	1	16	1	0	0	0	0	1	0	0	0	9752	637	22	5	1236	5	MPP2	17	41959879	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	138	41959879	39235331	1161	12836											
MPP2	4355	broad.mit.edu	37	chr17	41975706	41975706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagctctgcagcccccgtgGcactggggagggatcccaag	7	5	14	15	1	1	0	0	0	1	0	2	2	2	2	4	4	3	3	4	4	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:41975706G>A	uc010wip.1	-	3	266	c.209C>T	c.(208-210)GCC>GTC	p.A70V	MPP2_uc002ien.1_Missense_Mutation_p.A42V|MPP2_uc010wim.1_Missense_Mutation_p.A14V|MPP2_uc002ieo.1_Missense_Mutation_p.A25V|MPP2_uc010win.1_Intron|MPP2_uc010wio.1_Missense_Mutation_p.A14V|MPP2_uc010czm.1_Missense_Mutation_p.A14V	NM_005374	NP_005365	Q14168	MPP2_HUMAN	palmitoylated membrane protein 2	25	L27 1.				signal transduction	cell surface|integral to plasma membrane|membrane fraction	guanylate kinase activity				0		Breast(137;0.00314)		BRCA - Breast invasive adenocarcinoma(366;0.12)		AGCCCCCGTGGCACTGGGGAG	0.577													19	30					0	0	1	0	0		A	41975706	A	A	41975706	3	1	16	1	0	0	0	0	1	0	0	0	9752	1203	42	2	1628	2	MPP2	17	41975706	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	15827	41975706	39219504	1162	12837											
HDAC5	10014	broad.mit.edu	37	chr17	42170162	42170162	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactctggtccaaagaagcAtggtgggctcccctggggtg	8	8	15	10	0	1	1	0	0	1	1	3	2	3	1	3	5	2	2	3	5	3	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:42170162A>G	uc002ifd.1	-	7	865	c.654T>C	c.(652-654)CAT>CAC	p.H218H	HDAC5_uc002ife.1_Silent_p.H218H|HDAC5_uc002iff.1_Silent_p.H219H|HDAC5_uc010czp.1_Silent_p.H218H|HDAC5_uc002ifh.2_Silent_p.H218H	NM_005474	NP_005465	Q9UQL6	HDAC5_HUMAN	histone deacetylase 5 isoform 1	218					B cell differentiation|cellular response to insulin stimulus|chromatin remodeling|chromatin silencing|inflammatory response|negative regulation of cell migration involved in sprouting angiogenesis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			ovary(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.118)		CCAAAGAAGCATGGTGGGCTC	0.612													7	4					0	0	1	0	0		G	42170162	G	G	42170162	2	3	16	1	0	0	0	0	0	0	0	1	7026	214	8	3		3	HDAC5	17	42170162	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	194456	42170162	39025048	1163	12838											
GPATCH8	23131	broad.mit.edu	37	chr17	42475277	42475277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagggtgaatgccgatggCggcagcagctgcggcagcat	8	6	18	9	3	0	2	0	2	0	0	0	3	0	2	1	4	5	5	1	4	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:42475277C>T	uc002igw.1	-	8	4232	c.4168G>A	c.(4168-4170)GCC>ACC	p.A1390T	GPATCH8_uc002igv.1_Missense_Mutation_p.A1312T|GPATCH8_uc010wiz.1_Missense_Mutation_p.A1312T	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	1390	Poly-Ala.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		ATGCCGATGGCGGCAGCAGCT	0.577													10	12					0	0	1	0	0		T	42475277	T	T	42475277	3	4	16	1	0	0	0	0	1	0	0	0	6609	768	27	1	344	1	GPATCH8	17	42475277	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	305115	42475277	38719933	1164	12839											
PLEKHM1	9842	broad.mit.edu	37	chr17	43531023	43531023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtctggcaggatgtccCggatggtctccacgccgtgg	4	10	16	11	3	2	0	0	0	2	0	4	2	3	2	3	6	0	1	3	6	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:43531023C>T	uc002ija.2	-	7	2365	c.2195G>A	c.(2194-2196)CGG>CAG	p.R732Q	PLEKHM1_uc010wjm.1_Missense_Mutation_p.R704Q|PLEKHM1_uc002ijb.2_Missense_Mutation_p.R207Q|PLEKHM1_uc010wjn.1_Missense_Mutation_p.R681Q|PLEKHM1_uc002ijc.2_Missense_Mutation_p.R186Q	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	732	PH 2.				intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					CAGGATGTCCCGGATGGTCTC	0.552													5	13					0	0	1	0	0		T	43531023	T	T	43531023	3	4	16	1	0	0	0	0	1	0	0	0	12099	652	23	1	999	1	PLEKHM1	17	43531023	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1055746	43531023	37664187	1165	12840											
NFE2L1	4779	broad.mit.edu	37	chr17	46136768	46136768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagcgtgacaaagcccGgctgctgcgggagaaagtgg	9	5	16	11	3	0	2	0	1	0	1	0	3	0	2	2	3	5	3	2	3	2	0	rs144484468		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:46136768G>A	uc002imz.3	+	6	2735	c.2084G>A	c.(2083-2085)CGG>CAG	p.R695Q	NFE2L1_uc002ina.3_Missense_Mutation_p.R665Q|NFE2L1_uc002inb.3_Missense_Mutation_p.R665Q|NFE2L1_uc010wle.1_Missense_Mutation_p.R507Q|NFE2L1_uc010wlf.1_Missense_Mutation_p.R539Q	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	695	Leucine-zipper.				anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						GACAAAGCCCGGCTGCTGCGG	0.607													23	32					0	0	1	0	0		A	46136768	A	A	46136768	3	1	16	1	0	0	0	0	1	0	0	0	10386	1116	39	1	2102	1	NFE2L1	17	46136768	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2605745	46136768	35058442	1166	12841											
HOXB13	10481	broad.mit.edu	37	chr17	46805700	46805700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcggcaggagtagtaccCgcctccaaagtaaccataag	13	6	9	13	2	0	0	0	0	0	0	2	1	1	1	4	2	2	4	4	2	5	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:46805700C>T	uc002ioa.2	-	1	412	c.256G>A	c.(256-258)GGG>AGG	p.G86R		NM_006361	NP_006352	Q92826	HXB13_HUMAN	homeobox B13	86					angiogenesis|epidermis development|response to wounding		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GAGTAGTACCCGCCTCCAAAG	0.687													11	19					0	0	1	0	0		T	46805700	T	T	46805700	3	4	16	1	0	0	0	0	1	0	0	0	7316	652	23	1	606	1	HOXB13	17	46805700	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	668932	46805700	34389510	1167	12842											
NGFR	4804	broad.mit.edu	37	chr17	47583941	47583941	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggccaaccacgtggacccGtgcctgccctgcaccgtgtg	6	6	13	16	3	0	0	0	0	0	0	0	2	0	1	6	2	4	1	6	2	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:47583941G>A	uc002ioz.3	+	3	614	c.489G>A	c.(487-489)CCG>CCA	p.P163P		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	163	Extracellular (Potential).|TNFR-Cys 4.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					ACGTGGACCCGTGCCTGCCCT	0.706													11	7					0	0	1	0	0		A	47583941	A	A	47583941	2	1	16	1	0	0	0	0	0	0	0	1	10415	1132	40	1		1	NGFR	17	47583941	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	778241	47583941	33611269	1168	12843											
MYST2	11143	broad.mit.edu	37	chr17	47869286	47869286	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagatggaaccgaagattcCgatttttctacagatctcga	12	12	8	9	3	3	3	1	0	2	3	5	7	4	4	2	1	2	0	2	1	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:47869286C>T	uc002ipm.2	+	2	180	c.54C>T	c.(52-54)TCC>TCT	p.S18S	MYST2_uc002ipl.1_Silent_p.S18S|MYST2_uc010wma.1_Silent_p.S18S|MYST2_uc010wmb.1_Silent_p.S18S|MYST2_uc010wmc.1_Silent_p.S18S|MYST2_uc010wmd.1_5'UTR|MYST2_uc010wme.1_5'UTR	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2	18	Ser-rich.				DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						CCGAAGATTCCGATTTTTCTA	0.473													50	95					0	0	1	0	0		T	47869286	T	T	47869286	2	4	16	1	0	0	0	0	0	0	0	1	10121	639	23	1		1	MYST2	17	47869286	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	285345	47869286	33325924	1169	12844											
CACNA1G	8913	broad.mit.edu	37	chr17	48668860	48668860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcggaccttccgcctgatgCgtgtgctgaagctggtgcgc	4	10	15	12	4	0	2	0	2	0	0	1	3	1	3	3	2	5	2	3	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:48668860C>T	uc002irk.1	+	11	2890	c.2518C>T	c.(2518-2520)CGT>TGT	p.R840C	CACNA1G_uc002iri.1_Missense_Mutation_p.R840C|CACNA1G_uc002irj.1_Missense_Mutation_p.R840C|CACNA1G_uc002irl.1_Missense_Mutation_p.R840C|CACNA1G_uc002irm.1_Missense_Mutation_p.R840C|CACNA1G_uc002irn.1_Missense_Mutation_p.R840C|CACNA1G_uc002iro.1_Missense_Mutation_p.R840C|CACNA1G_uc002irp.1_Missense_Mutation_p.R840C|CACNA1G_uc002irq.1_Missense_Mutation_p.R840C|CACNA1G_uc002irr.1_Missense_Mutation_p.R840C|CACNA1G_uc002irs.1_Missense_Mutation_p.R840C|CACNA1G_uc002irt.1_Missense_Mutation_p.R840C|CACNA1G_uc002irv.1_Missense_Mutation_p.R840C|CACNA1G_uc002irw.1_Missense_Mutation_p.R840C|CACNA1G_uc002iru.1_Missense_Mutation_p.R840C|CACNA1G_uc002irx.1_Missense_Mutation_p.R753C|CACNA1G_uc002iry.1_Missense_Mutation_p.R753C|CACNA1G_uc002irz.1_Missense_Mutation_p.R753C|CACNA1G_uc002isa.1_Missense_Mutation_p.R753C|CACNA1G_uc002isb.1_Missense_Mutation_p.R753C|CACNA1G_uc002isc.1_Missense_Mutation_p.R753C|CACNA1G_uc002isd.1_Missense_Mutation_p.R753C|CACNA1G_uc002ise.1_Missense_Mutation_p.R753C|CACNA1G_uc002isf.1_Missense_Mutation_p.R753C|CACNA1G_uc002isg.1_Missense_Mutation_p.R753C|CACNA1G_uc002ish.1_Missense_Mutation_p.R753C|CACNA1G_uc002isi.1_Missense_Mutation_p.R753C	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	840	Helical; Name=S4 of repeat II; (Potential).|II.				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	CCGCCTGATGCGTGTGCTGAA	0.667													4	12					0	0	1	0	0		T	48668860	T	T	48668860	3	4	16	1	0	0	0	0	1	0	0	0	2547	768	27	1	2560	1	CACNA1G	17	48668860	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	799574	48668860	32526350	1170	12845											
MTMR4	9110	broad.mit.edu	37	chr17	56590291	56590291	+	Frame_Shift_Del	DEL	C	-	-																															atgtactccaggctggggggCccctcctcaccctgtaggaa																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:56590291delC	uc002iwj.2	-	3	125	c.15delG	c.(13-15)GGGfs	p.G5fs	MTMR4_uc010dcx.1_Frame_Shift_Del_p.G19fs	NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	5						cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GGCTGGGGGGCCCCTCCTCAC	0.562													21	34	---	---	---	---						.	-	56590291	-	-	56590291	7	5	16	1	0	1	0	1	0	0	0	0	9964	726	26	0	3640	0	MTMR4	17	56590291	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	7921431	56590291	24604919	1171	12846											
GDPD1	284161	broad.mit.edu	37	chr17	57351092	57351092	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggggtgatgacagactaTccaacaaagcttagggattt	13	10	11	7	0	0	3	0	2	0	1	1	4	1	4	1	3	2	1	1	3	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:57351092T>A	uc002ixk.1	+	10	1040	c.903T>A	c.(901-903)TAT>TAA	p.Y301*		NM_182569	NP_872375	Q8N9F7	GDPD1_HUMAN	glycerophosphodiester phosphodiesterase domain	301	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	cytoplasm|integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					TGACAGACTATCCAACAAAGC	0.318													15	32					0	0	1	0	0		A	57351092	A	A	57351092	4	1	16	1	0	0	0	0	0	1	0	0	6338	1442	50	5	992	5	GDPD1	17	57351092	Nonsense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	760801	57351092	23844118	1172	12847											
KCNH6	81033	broad.mit.edu	37	chr17	61615460	61615460	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatcttcgggaacgtgtcCgcgatcatccagcgcctgta	8	9	11	13	5	2	0	1	0	1	0	5	2	4	1	3	1	3	2	3	1	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:61615460C>T	uc002jay.2	+	7	1616	c.1536C>T	c.(1534-1536)TCC>TCT	p.S512S	KCNH6_uc010wpl.1_Silent_p.S389S|KCNH6_uc010wpm.1_Silent_p.S512S|KCNH6_uc002jaz.1_Silent_p.S459S	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	512	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	GGAACGTGTCCGCGATCATCC	0.662													12	15					0	0	1	0	0		T	61615460	T	T	61615460	2	4	16	1	0	0	0	0	0	0	0	1	8052	639	23	1		1	KCNH6	17	61615460	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4264368	61615460	19579750	1173	12848											
TACO1	51204	broad.mit.edu	37	chr17	61685281	61685281	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgcagctggctgagccCgacctggaacaggccgcaca	10	4	14	13	2	0	1	0	1	0	0	0	3	0	2	3	4	4	4	3	4	2	0	rs151139810	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:61685281C>T	uc002jbd.2	+	5	1013	c.813C>T	c.(811-813)CCC>CCT	p.P271P		NM_016360	NP_057444	Q9BSH4	TACO1_HUMAN	translational activator of mitochondrially	271					regulation of translation	mitochondrion					0						TGGCTGAGCCCGACCTGGAAC	0.542													17	49					0	0	1	0	0		T	61685281	T	T	61685281	2	4	16	1	0	0	0	0	0	0	0	1	15529	639	23	1		1	TACO1	17	61685281	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	69821	61685281	19509929	1174	12849											
FTSJ3	117246	broad.mit.edu	37	chr17	61897300	61897300	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggcccacaccttttttggcTacaacgtaggtgacatggcg	8	10	11	12	3	0	1	0	1	0	0	0	1	0	1	2	4	2	2	2	4	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:61897300T>A	uc002jbz.2	-	20	2484	c.2406A>T	c.(2404-2406)GTA>GTT	p.V802V	FTSJ3_uc002jca.2_Silent_p.V802V	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	802					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						CTTTTTTGGCTACAACGTAGG	0.542													27	51					0	0	1	0	0		A	61897300	A	A	61897300	2	1	16	1	0	0	0	0	0	0	0	1	6103	1509	53	5		5	FTSJ3	17	61897300	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	212019	61897300	19297910	1175	12850											
POLG2	11232	broad.mit.edu	37	chr17	62492629	62492630	+	Frame_Shift_Del	DEL	AG	-	-																															tgtcttgcaagatttcgcgtAgagtttctgcagaaactaac																								rs149446102		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:62492629_62492630delAG	uc002jei.2	-	1	540_541	c.457_458delCT	c.(457-459)CTAfs	p.L153fs	POLG2_uc010deg.1_Frame_Shift_Del_p.L153fs	NM_007215	NP_009146	Q9UHN1	DPOG2_HUMAN	DNA polymerase subunit gamma-2, mitochondrial	153					DNA repair|DNA-dependent DNA replication|glycyl-tRNA aminoacylation	mitochondrial chromosome	ATP binding|DNA-directed DNA polymerase activity|glycine-tRNA ligase activity|identical protein binding|single-stranded DNA binding			central_nervous_system(1)	1	Breast(5;2.15e-14)		BRCA - Breast invasive adenocarcinoma(8;4.97e-11)			GATTTCGCGTAGAGTTTCTGCA	0.495													50	97	---	---	---	---						.	-	62492630	-	-	62492629	7	5	16	1	0	1	0	1	0	0	0	0	12220	420	15	0	1031	0	POLG2	17	62492629	Frame_Shift_Del	DEL	AG	TCGA-BR-4292-01A-01D-1126-08	595329	62492629	18702581	1176	12851											
CCDC45	90799	broad.mit.edu	37	chr17	62527046	62527046	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaccttttcccctttaggcGtttactgaagcatttgaaag	9	15	8	9	1	0	3	0	3	0	0	1	3	1	3	3	1	2	2	3	1	4	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:62527046G>A	uc002jem.2	+	13	1507	c.1449G>A	c.(1447-1449)GCG>GCA	p.A483A	CCDC45_uc002jen.2_RNA|CCDC45_uc010wqb.1_Silent_p.A319A|CCDC45_uc002jeo.1_5'Flank	NM_138363	NP_612372	Q96GE4	CEP95_HUMAN	coiled-coil domain containing 45	483						centrosome|spindle pole	protein binding				0	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			CCCTTTAGGCGTTTACTGAAG	0.284													5	4					0	0	1	0	0		A	62527046	A	A	62527046	2	1	16	1	0	0	0	0	0	0	0	1	2819	1132	40	1		1	CCDC45	17	62527046	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	34417	62527046	18668164	1177	12852											
CACNG4	27092	broad.mit.edu	37	chr17	65020985	65020985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccccggccaggcatcgtgcGagcctccagcgtcttcccca	5	7	10	19	4	1	0	0	0	1	0	5	1	4	0	7	2	3	1	7	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:65020985G>A	uc002jft.1	+	3	329	c.314G>A	c.(313-315)CGA>CAA	p.R105Q		NM_014405	NP_055220	Q9UBN1	CCG4_HUMAN	voltage-dependent calcium channel gamma-4	105	Extracellular (Potential).				membrane depolarization|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane	voltage-gated calcium channel activity			central_nervous_system(1)	1	all_cancers(12;9.86e-11)		BRCA - Breast invasive adenocarcinoma(6;1.35e-07)			GGCATCGTGCGAGCCTCCAGC	0.637													15	28					0	0	1	0	0		A	65020985	A	A	65020985	3	1	16	1	0	0	0	0	1	0	0	0	2562	1058	37	1	324	1	CACNG4	17	65020985	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2493939	65020985	16174225	1178	12853											
CACNG4	27092	broad.mit.edu	37	chr17	65027085	65027085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgaaggaaggtttccacGtcagcatgctgaaccgacgg	11	7	12	11	3	1	2	1	2	0	0	2	4	2	3	3	3	3	3	3	3	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:65027085G>A	uc002jft.1	+	4	964	c.949G>A	c.(949-951)GTC>ATC	p.V317I		NM_014405	NP_055220	Q9UBN1	CCG4_HUMAN	voltage-dependent calcium channel gamma-4	317	Cytoplasmic (Potential).				membrane depolarization|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane	voltage-gated calcium channel activity			central_nervous_system(1)	1	all_cancers(12;9.86e-11)		BRCA - Breast invasive adenocarcinoma(6;1.35e-07)			AGGTTTCCACGTCAGCATGCT	0.607													21	34					0	0	1	0	0		A	65027085	A	A	65027085	3	1	16	1	0	0	0	0	1	0	0	0	2562	1145	40	1	963	1	CACNG4	17	65027085	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6100	65027085	16168125	1179	12854											
ARSG	22901	broad.mit.edu	37	chr17	66391298	66391298	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgatggtgtggacgtctcCgaggtgctctttggccggtc	3	14	15	9	3	2	1	0	1	2	0	4	3	2	2	2	5	1	1	2	5	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:66391298C>T	uc002jhc.2	+	10	1972	c.1176C>T	c.(1174-1176)TCC>TCT	p.S392S	ARSG_uc002jhb.1_Silent_p.S228S	NM_014960	NP_055775	Q96EG1	ARSG_HUMAN	Arylsulfatase G precursor	392					sulfur compound metabolic process	endoplasmic reticulum|extracellular space|lysosome	arylsulfatase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;5.34e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			TGGACGTCTCCGAGGTGCTCT	0.582													7	56					0	0	1	0	0		T	66391298	T	T	66391298	2	4	16	1	0	0	0	0	0	0	0	1	993	639	23	1		1	ARSG	17	66391298	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1364213	66391298	14803912	1180	12855											
CD300E	342510	broad.mit.edu	37	chr17	72613483	72613483	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgctctcacatgacgtgtcGtactgtcctcggcaccagta	8	11	9	13	3	1	1	1	1	1	0	5	1	2	1	2	1	2	4	2	1	2	2	rs111412583	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:72613483G>A	uc002jlb.1	-	2	203	c.162C>T	c.(160-162)TAC>TAT	p.Y54Y		NM_181449	NP_852114	Q496F6	CLM2_HUMAN	CD300e molecule precursor	54	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						ATGACGTGTCGTACTGTCCTC	0.562													25	57					0	0	1	0	0		A	72613483	A	A	72613483	2	1	16	1	0	0	0	0	0	0	0	1	3001	1140	40	1		1	CD300E	17	72613483	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6222185	72613483	8581727	1181	12856											
TMEM104	54868	broad.mit.edu	37	chr17	72832455	72832455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacttccccatcattgccGtgaccctgcgcaacaactgg	9	8	7	17	2	1	1	1	1	0	0	2	1	2	1	5	1	5	1	5	1	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:72832455G>A	uc002jls.3	+	10	1282	c.1120G>A	c.(1120-1122)GTG>ATG	p.V374M	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Missense_Mutation_p.V374M	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	374	Helical; (Potential).					integral to membrane					0	all_lung(278;0.23)					CATCATTGCCGTGACCCTGCG	0.637													59	97					0	0	1	0	0		A	72832455	A	A	72832455	3	1	16	1	0	0	0	0	1	0	0	0	16043	1145	40	1	1154	1	TMEM104	17	72832455	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	218972	72832455	8362755	1182	12857											
GGA3	23163	broad.mit.edu	37	chr17	73239539	73239539	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacgtaccctgtctcttcAgcatgtggtaggcgtctttg	6	13	11	11	2	3	0	1	0	2	0	4	1	3	0	1	2	2	3	1	2	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:73239539A>G	uc002jni.1	-	5	422	c.413T>C	c.(412-414)CTG>CCG	p.L138P	GGA3_uc002jnj.1_Missense_Mutation_p.L105P|GGA3_uc010wrw.1_Missense_Mutation_p.L16P|GGA3_uc002jnk.1_Missense_Mutation_p.L66P|GGA3_uc010wrx.1_Missense_Mutation_p.L16P|GGA3_uc010wry.1_Missense_Mutation_p.L66P|GGA3_uc010wrz.1_Missense_Mutation_p.L105P	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	138	VHS.|Binds to ARF1 (in long isoform).				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			CTGTCTCTTCAGCATGTGGTA	0.572													34	67					0	0	1	0	0		G	73239539	G	G	73239539	3	3	16	1	0	0	0	0	1	0	0	0	6369	188	7	3	1898	3	GGA3	17	73239539	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	407084	73239539	7955671	1183	12858											
EVPL	2125	broad.mit.edu	37	chr17	74005351	74005351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccacctccttgctcaccGtcttggtctccaccttggcc	4	11	7	19	1	3	0	1	0	2	0	5	0	4	0	7	2	1	2	7	2	0	3	rs145535523		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:74005351G>A	uc002jqi.2	-	22	4163	c.3935C>T	c.(3934-3936)ACG>ATG	p.T1312M	EVPL_uc010wss.1_Missense_Mutation_p.T1334M|EVPL_uc010wst.1_Missense_Mutation_p.T782M	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1312	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CTTGCTCACCGTCTTGGTCTC	0.692													39	89					0	0	1	0	0		A	74005351	A	A	74005351	3	1	16	1	0	0	0	0	1	0	0	0	5300	1145	40	1	2170	1	EVPL	17	74005351	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	765812	74005351	7189859	1184	12859											
EVPL	2125	broad.mit.edu	37	chr17	74005498	74005498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacgcagcacctcggggCtcctctcatgcctcaccacc	6	8	7	20	2	3	0	3	0	2	0	7	0	4	0	5	2	2	3	5	2	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:74005498C>T	uc002jqi.2	-	22	4016	c.3788G>A	c.(3787-3789)AGC>AAC	p.S1263N	EVPL_uc010wss.1_Missense_Mutation_p.S1285N|EVPL_uc010wst.1_Missense_Mutation_p.S733N	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1263	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CACCTCGGGGCTCCTCTCATG	0.662													23	48					0	0	1	0	0		T	74005498	T	T	74005498	3	4	16	1	0	0	0	0	1	0	0	0	5300	797	28	2	2317	2	EVPL	17	74005498	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	147	74005498	7189712	1185	12860											
RNF213	57674	broad.mit.edu	37	chr17	78313974	78313974	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgatggggactgggagcActgctacctcccctctgcct	5	10	12	14	0	1	1	0	1	1	0	2	3	2	3	4	3	4	2	4	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:78313974A>G	uc002jyh.1	+	1	249	c.26A>G	c.(25-27)CAC>CGC	p.H9R		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GACTGGGAGCACTGCTACCTC	0.622													7	22					0	0	1	0	0		G	78313974	G	G	78313974	3	3	16	1	0	0	0	0	1	0	0	0	13502	159	6	3	6224	3	RNF213	17	78313974	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	4308476	78313974	2881236	1186	12861											
BAIAP2	10458	broad.mit.edu	37	chr17	79077502	79077502	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccctgccggtgcccccCgagctggcaccgttcgtggg	4	6	14	17	4	0	0	0	0	0	0	1	1	0	0	7	3	4	3	7	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:79077502C>T	uc002jzg.2	+	8	951	c.843C>T	c.(841-843)CCC>CCT	p.P281P	BAIAP2_uc002jyz.3_Silent_p.P281P|BAIAP2_uc002jza.2_Silent_p.P281P|BAIAP2_uc002jzc.2_Silent_p.P281P|BAIAP2_uc002jzb.2_Silent_p.P38P|BAIAP2_uc002jzd.2_Silent_p.P281P|BAIAP2_uc002jzf.2_Silent_p.P281P|BAIAP2_uc002jze.2_Silent_p.P314P|BAIAP2_uc010wuh.1_Silent_p.P203P|BAIAP2_uc002jzh.2_Silent_p.P282P|BAIAP2_uc010wui.1_Silent_p.P144P	NM_017451	NP_059345	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2 isoform 2	281					axonogenesis|filopodium assembly|insulin receptor signaling pathway|regulation of actin cytoskeleton organization|response to bacterium	cell junction|cytoskeleton|cytosol|filopodium|nucleus|ruffle	cytoskeletal adaptor activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding				0	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CGGTGCCCCCCGAGCTGGCAC	0.701													4	9					0	0	1	0	0		T	79077502	T	T	79077502	2	4	16	1	0	0	0	0	0	0	0	1	1302	639	23	1		1	BAIAP2	17	79077502	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	763528	79077502	2117708	1187	12862											
HEXDC	284004	broad.mit.edu	37	chr17	80400207	80400208	+	Frame_Shift_Ins	INS	-	C	C																															ggacctcagcgaggtgtctgINScccccccgctgccacccacc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:80400207_80400208insC	uc002kew.2	+	12	1459_1460	c.1408_1409insC	c.(1408-1410)GCCfs	p.A470fs	HEXDC_uc002kev.3_Frame_Shift_Ins_p.L499fs|HEXDC_uc010diq.2_Frame_Shift_Ins_p.C472fs|HEXDC_uc010wvm.1_RNA			Q8WVB3	HEXDC_HUMAN	SubName: Full=Hexosaminidase (Glycosyl hydrolase family 20, catalytic domain) containing, isoform CRA_c; SubName: Full=Hexosaminidase D;	470					carbohydrate metabolic process	cytoplasm|nucleus	beta-N-acetylhexosaminidase activity|cation binding			ovary(1)|skin(1)	2	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			CGAGGTGTCTGCCCCCCCGCTG	0.688													9	18	---	---	---	---						.	C	80400208	C	C	80400207	7	5	16	1	0	1	1	0	0	0	0	0	7091	1306	46	0	1539	0	HEXDC	17	80400207	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	1322705	80400207	795003	1188	12863											
FOXK2	3607	broad.mit.edu	37	chr17	80521332	80521332	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgagtctccagtgaaggcCgtacagccacacatctcgcc	9	8	9	15	2	3	2	0	2	3	0	5	2	3	2	4	1	2	1	4	1	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:80521332C>T	uc002kfn.2	+	2	693	c.522C>T	c.(520-522)GCC>GCT	p.A174A	FOXK2_uc002kfm.1_Silent_p.A174A|FOXK2_uc010diu.2_Silent_p.A174A	NM_004514	NP_004505	Q01167	FOXK2_HUMAN	forkhead box K2	174					embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0	Breast(20;0.00106)|all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.0371)|BRCA - Breast invasive adenocarcinoma(99;0.0415)			CAGTGAAGGCCGTACAGCCAC	0.587													12	42					0	0	1	0	0		T	80521332	T	T	80521332	2	4	16	1	0	0	0	0	0	0	0	1	6029	639	23	1		1	FOXK2	17	80521332	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	121125	80521332	673878	1189	12864											
FN3K	64122	broad.mit.edu	37	chr17	80708606	80708606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtacaggagcccttccttggGcaccatgcgaaggctgctca	8	8	12	13	1	1	0	1	0	0	0	2	2	2	1	3	3	4	4	3	3	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr17:80708606G>A	uc010wvs.1	+	6	966	c.905G>A	c.(904-906)GGC>GAC	p.G302D	TBCD_uc002kfx.1_5'Flank|TBCD_uc002kfy.1_5'Flank|TBCD_uc002kfz.2_5'Flank	NM_022158	NP_071441	Q9H479	FN3K_HUMAN	fructosamine 3 kinase	302					fructoselysine metabolic process		fructosamine-3-kinase activity				0	Breast(20;0.000523)|all_neural(118;0.0952)		BRCA - Breast invasive adenocarcinoma(99;0.0344)|OV - Ovarian serous cystadenocarcinoma(97;0.061)			CCTTCCTTGGGCACCATGCGA	0.413													26	33					0	0	1	0	0		A	80708606	A	A	80708606	3	1	16	1	0	0	0	0	1	0	0	0	5977	1203	42	2	927	2	FN3K	17	80708606	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	187274	80708606	486604	1190	12865											
DLGAP1	9229	broad.mit.edu	37	chr18	3879216	3879216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctcccgggcccggctcaCggtgagcgtggaggaccagg	7	4	16	14	4	1	1	1	1	0	0	2	3	2	3	4	6	2	1	4	6	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:3879216C>T	uc002kmf.2	-	1	920	c.853G>A	c.(853-855)GTG>ATG	p.V285M	DLGAP1_uc010wyz.1_Missense_Mutation_p.V285M|DLGAP1_uc002kmk.2_Missense_Mutation_p.V285M|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	285					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				GCCCGGCTCACGGTGAGCGTG	0.637													23	32					0	0	1	0	0		T	3879216	T	T	3879216	3	4	16	1	0	0	0	0	1	0	0	0	4565	536	19	1	2175	1	DLGAP1	18	3879216	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08		3879216	74198032	1191	12866											
TXNDC2	84203	broad.mit.edu	37	chr18	9887885	9887885	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggaggccggggagaggcTggtggctgtggacttctcgg	6	7	21	7	2	1	1	0	0	1	1	2	5	1	3	1	9	0	2	1	9	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:9887885T>C	uc002koi.3	+	2	1858	c.1409T>C	c.(1408-1410)CTG>CCG	p.L470P	TXNDC2_uc010wzq.1_RNA|TXNDC2_uc002koh.3_Missense_Mutation_p.L403P	NM_001098529	NP_001091999	Q86VQ3	TXND2_HUMAN	thioredoxin domain-containing 2 isoform 2	470	Thioredoxin.				cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	cytoplasm	electron carrier activity|nutrient reservoir activity|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity			ovary(1)|pancreas(1)	2						GGGGAGAGGCTGGTGGCTGTG	0.572													17	21					0	0	1	0	0		C	9887885	C	C	9887885	3	2	16	1	0	0	0	0	1	0	0	0	16823	1580	55	3	1415	3	TXNDC2	18	9887885	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	6008669	9887885	68189363	1192	12867											
NAPG	8774	broad.mit.edu	37	chr18	10532792	10532792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccatgaaaataatagggCgtatctttttcaacttttaa	13	15	6	7	1	2	1	1	1	1	0	2	1	2	1	1	1	2	1	1	1	7	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:10532792C>T	uc002kon.2	+	3	436	c.209C>T	c.(208-210)GCT>GTT	p.A70V	NAPG_uc010wzr.1_5'UTR|NAPG_uc002koo.2_Intron	NM_003826	NP_003817	Q99747	SNAG_HUMAN	N-ethylmaleimide-sensitive factor attachment	70					cellular membrane fusion|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein complex assembly|protein stabilization	membrane|membrane fraction|mitochondrion	protein binding				0						AATAATAGGGCGTATCTTTTT	0.323													5	7					0	0	1	0	0		T	10532792	T	T	10532792	3	4	16	1	0	0	0	0	1	0	0	0	10182	782	27	1	219	1	NAPG	18	10532792	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	644907	10532792	67544456	1193	12868											
IMPA2	3613	broad.mit.edu	37	chr18	12028085	12028085	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaaattggccccaaacgTgaccctgcgaccctgaagct	12	6	9	14	2	0	3	0	2	0	1	0	4	0	3	4	1	3	1	4	1	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:12028085T>C	uc002kqp.1	+	6	748	c.534T>C	c.(532-534)CGT>CGC	p.R178R	IMPA2_uc002kqo.1_5'UTR|IMPA2_uc002kqq.1_Silent_p.R58R	NM_014214	NP_055029	O14732	IMPA2_HUMAN	inositol(myo)-1(or 4)-monophosphatase 2	178					inositol phosphate dephosphorylation|signal transduction	cytoplasm	inositol-1(or 4)-monophosphatase activity|metal ion binding|protein homodimerization activity			skin(2)	2					Lithium(DB01356)	GCCCCAAACGTGACCCTGCGA	0.512													9	90					0	0	1	0	0		C	12028085	C	C	12028085	2	2	16	1	0	0	0	0	0	0	0	1	7739	1683	59	3		3	IMPA2	18	12028085	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1495293	12028085	66049163	1194	12869											
SNRPD1	6632	broad.mit.edu	37	chr18	19203788	19203788	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacctgtacagctggaaacGctgagtattcgaggaaataa	15	8	11	7	2	0	1	0	1	0	0	1	5	0	3	1	2	4	4	1	2	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:19203788G>A	uc002ktj.1	+	3	302	c.171G>A	c.(169-171)ACG>ACA	p.T57T		NM_006938	NP_008869	P62314	SMD1_HUMAN	small nuclear ribonucleoprotein D1 polypeptide	57					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding|RNA binding				0						AGCTGGAAACGCTGAGTATTC	0.388													30	50					0	0	1	0	0		A	19203788	A	A	19203788	2	1	16	1	0	0	0	0	0	0	0	1	14889	1074	38	1		1	SNRPD1	18	19203788	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	7175703	19203788	58873460	1195	12870											
CHST9	83539	broad.mit.edu	37	chr18	24524315	24524316	+	Frame_Shift_Ins	INS	-	T	T																															gttggtgatatgttcctggaINSttttttctgtactcactgaa																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:24524315_24524316insT	uc002kwd.2	-	4	415_416	c.217_218insA	c.(217-219)ATCfs	p.I73fs	C18orf16_uc010xbm.1_Intron|CHST9_uc002kwc.2_Intron|CHST9_uc002kwe.2_Frame_Shift_Ins_p.I73fs	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	73	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					ATGTTCCTGGATTTTTTCTGTA	0.302													22	30	---	---	---	---						.	T	24524316	T	T	24524315	7	5	16	1	0	1	1	0	0	0	0	0	3414	333	12	0	1121	0	CHST9	18	24524315	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	5320527	24524315	53552933	1196	12871											
ASXL3	80816	broad.mit.edu	37	chr18	31323629	31323629	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgttgacagtgcaaacactAcaatttctgcttgtaatata	13	14	6	8	0	1	1	0	1	1	0	1	1	1	1	0	0	4	4	0	0	6	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:31323629A>G	uc010dmg.1	+	12	3872	c.3817A>G	c.(3817-3819)ACA>GCA	p.T1273A	ASXL3_uc002kxq.2_Missense_Mutation_p.T980A	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1273	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TGCAAACACTACAATTTCTGC	0.388													18	52					0	0	1	0	0		G	31323629	G	G	31323629	3	3	16	1	0	0	0	0	1	0	0	0	1069	391	14	3	3863	3	ASXL3	18	31323629	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	6799314	31323629	46753619	1197	12872											
ASXL3	80816	broad.mit.edu	37	chr18	31325578	31325578	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggcggcttccacactgaCgctggtacctcacacagaca	11	7	9	14	2	1	2	1	1	0	1	2	2	2	2	2	3	1	3	2	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:31325578C>T	uc010dmg.1	+	12	5821	c.5766C>T	c.(5764-5766)GAC>GAT	p.D1922D	ASXL3_uc002kxq.2_Silent_p.D1629D	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1922					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TCCACACTGACGCTGGTACCT	0.547													42	59					0	0	1	0	0		T	31325578	T	T	31325578	2	4	16	1	0	0	0	0	0	0	0	1	1069	535	19	1		1	ASXL3	18	31325578	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1949	31325578	46751670	1198	12873											
FHOD3	80206	broad.mit.edu	37	chr18	34174816	34174816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagagtactcggagtccaacGcacctctcctaattcaggct	10	10	8	13	2	2	1	1	0	1	1	5	2	3	2	3	2	2	3	3	2	4	4	rs144223411		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:34174816G>A	uc002kzt.1	+	7	770	c.673G>A	c.(673-675)GCA>ACA	p.A225T	FHOD3_uc002kzr.1_Missense_Mutation_p.A225T|FHOD3_uc002kzs.1_Missense_Mutation_p.A225T|FHOD3_uc002kzu.1_Missense_Mutation_p.A50T|FHOD3_uc010dmz.1_5'UTR	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	225	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				GGAGTCCAACGCACCTCTCCT	0.517													10	31					0	0	1	0	0		A	34174816	A	A	34174816	3	1	16	1	0	0	0	0	1	0	0	0	5897	1087	38	1	699	1	FHOD3	18	34174816	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2849238	34174816	43902432	1199	12874											
KIAA1632	57724	broad.mit.edu	37	chr18	43446902	43446902	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataacttagcacactctggTacgacacaatatccacaaga	17	8	5	11	1	1	1	0	0	1	1	2	2	2	1	1	1	3	2	1	1	7	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:43446902T>C	uc002lbm.2	-	38	6582	c.6482A>G	c.(6481-6483)TAC>TGC	p.Y2161C	KIAA1632_uc010xcq.1_Missense_Mutation_p.Y715C|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.Y1036C	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	2161					autophagy						0						CACACTCTGGTACGACACAAT	0.398													34	65					0	0	1	0	0		C	43446902	C	C	43446902	3	2	16	1	0	0	0	0	1	0	0	0	8265	1638	57	3	1285	3	KIAA1632	18	43446902	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	9272086	43446902	34630346	1200	12875											
ST8SIA5	29906	broad.mit.edu	37	chr18	44336460	44336460	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccggttggccgaggggtcCgcgtagcgcatcctggctac	4	8	15	14	5	0	0	0	0	0	0	3	1	3	0	4	5	2	4	4	5	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:44336460C>T	uc002lcj.1	-	1	580	c.12G>A	c.(10-12)GCG>GCA	p.A4A	ST8SIA5_uc010xcy.1_Silent_p.A4A|ST8SIA5_uc010xcz.1_Silent_p.A4A|ST8SIA5_uc010dno.1_Silent_p.A4A	NM_013305	NP_037437	O15466	SIA8E_HUMAN	ST8 alpha-N-acetyl-neuraminide	4	Cytoplasmic (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						CCGAGGGGTCCGCGTAGCGCA	0.453													6	27					0	0	1	0	0		T	44336460	T	T	44336460	2	4	16	1	0	0	0	0	0	0	0	1	15260	639	23	1		1	ST8SIA5	18	44336460	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	889558	44336460	33740788	1201	12876											
POLI	11201	broad.mit.edu	37	chr18	51820306	51820306	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagttgtccattacatgcCtctagaggagtattatcttt	9	16	9	7	0	2	2	0	1	2	1	3	3	3	3	2	1	2	2	2	1	4	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:51820306C>A	uc002lfj.3	+	10	1760	c.1692C>A	c.(1690-1692)GCC>GCA	p.A564A	POLI_uc010xds.1_Silent_p.A485A|POLI_uc002lfk.3_Silent_p.A461A|POLI_uc010dpg.2_Silent_p.A160A	NM_007195	NP_009126	Q9UNA4	POLI_HUMAN	DNA polymerase iota	564					DNA repair|DNA replication	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding|protein binding			ovary(2)|kidney(1)	3				Colorectal(16;0.0234)|READ - Rectum adenocarcinoma(59;0.197)		CATTACATGCCTCTAGAGGAG	0.353								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					20	28					7.45023e-12	7.89829e-12	1	1	0		A	51820306	A	A	51820306	2	1	16	1	0	0	0	0	0	0	0	1	12222	668	24	5		5	POLI	18	51820306	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	7483846	51820306	26256942	1202	12877											
WDR7	23335	broad.mit.edu	37	chr18	54339760	54339760	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacacaatggcaggaaacaGccttgttctacccattgttc	13	10	7	11	0	1	0	0	0	1	0	2	1	1	1	2	2	4	3	2	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:54339760G>T	uc002lgk.1	+	2	225	c.14G>T	c.(13-15)AGC>ATC	p.S5I	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.S5I	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	5										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		GCAGGAAACAGCCTTGTTCTA	0.378													22	30					9.90768e-06	1.01969e-05	1	1	0		T	54339760	T	T	54339760	3	4	16	1	0	0	0	0	1	0	0	0	17346	971	34	5	16	5	WDR7	18	54339760	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2519454	54339760	23737488	1203	12878											
WDR7	23335	broad.mit.edu	37	chr18	54358513	54358513	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaatggacagacatggaccGggggggactttgtctcatca	12	8	13	8	1	2	1	2	0	1	1	3	4	2	4	1	5	0	0	1	5	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:54358513G>T	uc002lgk.1	+	8	995	c.784G>T	c.(784-786)GGG>TGG	p.G262W	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.G262W	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	262										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		GACATGGACCGGGGGGGACTT	0.418													31	69					4.74835e-14	5.07942e-14	1	1	0		T	54358513	T	T	54358513	3	4	16	1	0	0	0	0	1	0	0	0	17346	1116	39	5	810	5	WDR7	18	54358513	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	18753	54358513	23718735	1204	12879											
WDR7	23335	broad.mit.edu	37	chr18	54424292	54424292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgaagtttgcctggatcGccttggaatgctgaaacccc	9	10	12	10	1	0	2	0	2	0	0	1	5	0	5	4	3	3	2	4	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:54424292G>A	uc002lgk.1	+	15	2679	c.2468G>A	c.(2467-2469)CGC>CAC	p.R823H	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.R823H	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	823										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		TGCCTGGATCGCCTTGGAATG	0.468													22	157					0	0	1	0	0		A	54424292	A	A	54424292	3	1	16	1	0	0	0	0	1	0	0	0	17346	1087	38	1	2522	1	WDR7	18	54424292	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	65779	54424292	23652956	1205	12880											
WDR7	23335	broad.mit.edu	37	chr18	54424475	54424475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaacttacggagtgtcccGtgccgtcaccacacagcatc	9	7	11	14	3	1	0	1	0	0	0	3	2	2	2	3	2	4	1	3	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:54424475G>A	uc002lgk.1	+	15	2862	c.2651G>A	c.(2650-2652)CGT>CAT	p.R884H	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.R884H	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	884										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		GGAGTGTCCCGTGCCGTCACC	0.443													9	61					0	0	1	0	0		A	54424475	A	A	54424475	3	1	16	1	0	0	0	0	1	0	0	0	17346	1145	40	1	2705	1	WDR7	18	54424475	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	183	54424475	23652773	1206	12881											
ONECUT2	9480	broad.mit.edu	37	chr18	55104001	55104001	+	Frame_Shift_Del	DEL	C	-	-																															gagctgaagcgctacagtatCccccaggcgatctttgcgca																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:55104001delC	uc002lgo.2	+	1	1085	c.1053delC	c.(1051-1053)ATCfs	p.I351fs		NM_004852	NP_004843	O95948	ONEC2_HUMAN	one cut domain, family member 2	351	CUT.				organ morphogenesis	nucleus	sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3		Colorectal(73;0.234)		READ - Rectum adenocarcinoma(59;0.227)|Colorectal(16;0.245)		GCTACAGTATCCCCCAGGCGA	0.602													24	40	---	---	---	---						.	-	55104001	-	-	55104001	7	5	16	1	0	1	0	1	0	0	0	0	10888	845	30	0	1055	0	ONECUT2	18	55104001	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	679526	55104001	22973247	1207	12882											
ATP8B1	5205	broad.mit.edu	37	chr18	55371796	55371798	+	In_Frame_Del	DEL	AAG	-	-																															aagggcattacctgtaagatAagaagagccaggaaatataa																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:55371796_55371798delAAG	uc002lgw.2	-	3	382_384	c.382_384delCTT	c.(382-384)CTTdel	p.L128del	uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	128	Helical; (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				CCTGTAAGATAAGAAGAGCCAGG	0.315									Byler_disease				13	29	---	---	---	---						.	-	55371798	-	-	55371796	7	5	16	1	0	1	0	1	0	0	0	0	1195	349	13	0	3471	0	ATP8B1	18	55371796	In_Frame_Del	DEL	AAG	TCGA-BR-4292-01A-01D-1126-08	267795	55371796	22705452	1208	12883											
ALPK2	115701	broad.mit.edu	37	chr18	56246941	56246941	+	Frame_Shift_Del	DEL	A	-	-																															cttcgtcatcgctttctaatAaaaaaacatgctcagtcccc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:56246941delA	uc002lhj.3	-	4	1281	c.1067delT	c.(1066-1068)TTAfs	p.L356fs		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	356							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						GCTTTCTAATAAAAAAACATG	0.478											OREG0025011	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	72	---	---	---	---						.	-	56246941	-	-	56246941	7	5	16	1	0	1	0	1	0	0	0	0	545	372	13	0	5485	0	ALPK2	18	56246941	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	875145	56246941	21830307	1209	12884											
CDH20	28316	broad.mit.edu	37	chr18	59221656	59221656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagagcctctcccgctacGtgcctcagacgtgcgcagtg	6	8	12	15	5	2	2	1	0	1	2	4	3	2	2	3	0	4	2	3	0	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:59221656G>A	uc010dps.1	+	11	2146	c.2134G>A	c.(2134-2136)GTG>ATG	p.V712M	CDH20_uc002lif.2_Missense_Mutation_p.V706M	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	712	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				CTCCCGCTACGTGCCTCAGAC	0.682													6	18					0	0	1	0	0		A	59221656	A	A	59221656	3	1	16	1	0	0	0	0	1	0	0	0	3109	1145	40	1	2176	1	CDH20	18	59221656	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2974715	59221656	18855592	1210	12885											
RNF152	220441	broad.mit.edu	37	chr18	59483442	59483442	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaagaccggggtgtgttcGgaagtgtgtggaatggcgat	9	10	18	4	3	0	2	0	1	0	1	1	5	0	4	1	5	0	1	1	5	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:59483442G>A	uc002lih.1	-	2	667	c.255C>T	c.(253-255)TCC>TCT	p.S85S		NM_173557	NP_775828	Q8N8N0	RN152_HUMAN	ring finger protein 152	85					apoptosis|protein K48-linked ubiquitination	integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			breast(1)	1		Colorectal(73;0.186)				GGGTGTGTTCGGAAGTGTGTG	0.642													14	28					0	0	1	0	0		A	59483442	A	A	59483442	2	1	16	1	0	0	0	0	0	0	0	1	13478	1103	39	1		1	RNF152	18	59483442	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	261786	59483442	18593806	1211	12886											
PHLPP1	23239	broad.mit.edu	37	chr18	60645690	60645690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagccgtgcgcaacgtgcccGatgccctggctgctgccaag	7	6	13	15	4	0	0	0	0	0	0	0	1	0	0	4	1	7	3	4	1	3	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:60645690G>A	uc002lis.2	+	18	2822	c.2644G>A	c.(2644-2646)GAT>AAT	p.D882N		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	1394	PP2C-like.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						CAACGTGCCCGATGCCCTGGC	0.627													6	6					0	0	1	0	0		A	60645690	A	A	60645690	3	1	16	1	0	0	0	0	1	0	0	0	11873	1058	37	1	4246	1	PHLPP1	18	60645690	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1162248	60645690	17431558	1212	12887											
TSHZ1	10194	broad.mit.edu	37	chr18	72999537	72999537	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaaagcaaaggtcaccaaCggctgtaacaacctggggat	14	6	10	11	1	2	0	2	0	0	0	2	1	2	1	2	4	4	3	2	4	5	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr18:72999537C>T	uc002lly.2	+	2	2603	c.2040C>T	c.(2038-2040)AAC>AAT	p.N680N		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	725						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		AGGTCACCAACGGCTGTAACA	0.577													22	48					0	0	1	0	0		T	72999537	T	T	72999537	2	4	16	1	0	0	0	0	0	0	0	1	16649	535	19	1		1	TSHZ1	18	72999537	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	12353847	72999537	5077711	1213	12888											
PTBP1	5725	broad.mit.edu	37	chr19	804843	804843	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcagattttctccaagttCggcacagtgttgaagatcat	10	13	9	9	1	2	3	1	1	1	2	4	3	2	3	1	1	1	4	1	1	2	4	rs147803014		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:804843C>T	uc002lpr.2	+	7	727	c.621C>T	c.(619-621)TTC>TTT	p.F207F	PTBP1_uc002lpp.2_Silent_p.F207F|PTBP1_uc002lpq.2_Silent_p.F207F|PTBP1_uc002lps.2_Intron|PTBP1_uc002lpt.2_RNA|PTBP1_uc002lpu.1_Silent_p.F177F	NM_031991	NP_114368	P26599	PTBP1_HUMAN	polypyrimidine tract-binding protein 1 isoform	207	RRM 2.				negative regulation of muscle cell differentiation|nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	mRNA binding|nucleotide binding|poly-pyrimidine tract binding|protein binding			kidney(1)|skin(1)	2		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCTCCAAGTTCGGCACAGTGT	0.627													19	53					0	0	1	0	0		T	804843	T	T	804843	2	4	16	1	0	0	0	0	0	0	0	1	12747	883	31	1		1	PTBP1	19	804843	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08		804843	58324140	1214	12889											
C19orf6	91304	broad.mit.edu	37	chr19	1010455	1010455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaagctgcggagtcactcGgggggacactgtcctggggg	7	6	18	10	2	1	1	1	0	0	1	3	3	2	3	1	6	2	1	1	6	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:1010455G>A	uc002lqr.1	-	11	1903	c.1757C>T	c.(1756-1758)CCG>CTG	p.P586L	uc002lqp.1_5'Flank|C19orf6_uc002lqq.1_RNA|C19orf6_uc002lqs.1_3'UTR	NM_001033026	NP_001028198	Q4ZIN3	MBRL_HUMAN	membralin isoform 1	586						cytoplasm|integral to membrane				pancreas(2)|breast(1)	3		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.0252)|STAD - Stomach adenocarcinoma(1328;0.18)		GGAGTCACTCGGGGGGACACT	0.746													3	4					0	0	1	0	0		A	1010455	A	A	1010455	3	1	16	1	0	0	0	0	1	0	0	0	1944	1116	39	1	109	1	C19orf6	19	1010455	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	205612	1010455	58118528	1215	12890											
DAZAP1	26528	broad.mit.edu	37	chr19	1428885	1428885	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggacagcaagagccaagcGccgggacagccaggtgccag	11	1	16	13	3	0	1	0	0	0	1	0	3	0	3	4	3	5	1	4	3	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:1428885G>A	uc002lsn.2	+	8	780	c.591G>A	c.(589-591)GCG>GCA	p.A197A	DAZAP1_uc002lsm.2_Silent_p.A197A|DAZAP1_uc002lso.2_Silent_p.A196A|DAZAP1_uc002lsl.1_Silent_p.A197A	NM_018959	NP_061832	Q96EP5	DAZP1_HUMAN	DAZ associated protein 1 isoform b	197					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleotide binding|RNA binding			breast(1)	1		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGAGCCAAGCGCCGGGACAGC	0.657													9	15					0	0	1	0	0		A	1428885	A	A	1428885	2	1	16	1	0	0	0	0	0	0	0	1	4247	1074	38	1		1	DAZAP1	19	1428885	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	418430	1428885	57700098	1216	12891											
APC2	10297	broad.mit.edu	37	chr19	1466805	1466805	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcagctctgtgagctcgctgGgcagcttcgagagcccgtcc	5	8	14	14	3	1	2	0	1	1	1	4	3	2	2	2	1	4	6	2	1	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:1466805G>T	uc002lsr.1	+	15	3713	c.3505G>T	c.(3505-3507)GGC>TGC	p.G1169C	APC2_uc002lss.1_Missense_Mutation_p.G751C|APC2_uc002lst.1_Missense_Mutation_p.G1169C|APC2_uc002lsu.1_Missense_Mutation_p.G1168C|C19orf25_uc010xgn.1_Intron	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	1169	Interaction with CTNNB1.|2.|Ser-rich.|5 X 20 AA approximate repeat of F-X-V-E- X-T-P-X-C-F-S-R-X-S-S-L-S-S-L-S.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAGCTCGCTGGGCAGCTTCGA	0.682													3	3					0.115264	0.115683	1	1	0		T	1466805	T	T	1466805	3	4	16	1	0	0	0	0	1	0	0	0	764	1232	43	5	3559	5	APC2	19	1466805	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	37920	1466805	57662178	1217	12892											
MOBKL2A	126308	broad.mit.edu	37	chr19	2076887	2076887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttgtagcaggtgttcaCgtgggcctcggagcccatct	5	11	14	11	2	2	0	1	0	1	0	3	1	2	1	2	3	3	4	2	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:2076887C>T	uc002luu.2	-	2	706	c.547G>A	c.(547-549)GTG>ATG	p.V183M	MOBKL2A_uc002luv.2_Missense_Mutation_p.V183M	NM_130807	NP_570719	Q96BX8	MOL2A_HUMAN	MOB-LAK	183						intracellular	metal ion binding			lung(1)	1		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGGTGTTCACGTGGGCCTCG	0.612													21	43					0	0	1	0	0		T	2076887	T	T	2076887	3	4	16	1	0	0	0	0	1	0	0	0	9702	536	19	1	114	1	MOBKL2A	19	2076887	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	610082	2076887	57052096	1218	12893											
C19orf29	58509	broad.mit.edu	37	chr19	3612132	3612132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagtactcgggcgtggagCgcttgtcgatgaggtcgggg	6	8	20	7	5	0	1	0	1	0	0	3	4	0	3	0	6	2	2	0	6	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:3612132C>T	uc002lyh.2	-	10	2119	c.2066G>A	c.(2065-2067)CGC>CAC	p.R689H	C19orf29_uc010xho.1_Missense_Mutation_p.R148H|C19orf29_uc010dtn.2_Missense_Mutation_p.R537H|C19orf29_uc002lyi.3_Missense_Mutation_p.R689H|C19orf29_uc010dto.2_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	689						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGCGTGGAGCGCTTGTCGAT	0.577													45	81					0	0	1	0	0		T	3612132	T	T	3612132	3	4	16	1	0	0	0	0	1	0	0	0	1921	768	27	1	214	1	C19orf29	19	3612132	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1535245	3612132	55516851	1219	12894											
PIP5K1C	23396	broad.mit.edu	37	chr19	3641788	3641788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcagatcctcttccgCgggtggctcctcctgcggcc	2	10	12	17	3	1	1	0	0	1	1	5	1	5	1	5	3	3	3	5	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:3641788C>T	uc002lyj.1	-	15	1759	c.1702G>A	c.(1702-1704)GCG>ACG	p.A568T	PIP5K1C_uc010xhq.1_Missense_Mutation_p.A568T|PIP5K1C_uc010xhr.1_Missense_Mutation_p.A568T	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	568					axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		TCCTCTTCCGCGGGTGGCTCC	0.637													11	16					0	0	1	0	0		T	3641788	T	T	3641788	3	4	16	1	0	0	0	0	1	0	0	0	11960	768	27	1	320	1	PIP5K1C	19	3641788	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	29656	3641788	55487195	1220	12895											
PIP5K1C	23396	broad.mit.edu	37	chr19	3653507	3653507	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttgttcatgaccacgacGcggatgttcttgccccccga	7	11	10	13	4	2	1	1	1	1	0	2	4	2	2	4	1	1	3	4	1	0	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:3653507G>A	uc002lyj.1	-	7	759	c.702C>T	c.(700-702)CGC>CGT	p.R234R	PIP5K1C_uc010xhq.1_Silent_p.R234R|PIP5K1C_uc010xhr.1_Silent_p.R234R	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	234	PIPK.				axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		TGACCACGACGCGGATGTTCT	0.612													18	31					0	0	1	0	0		A	3653507	A	A	3653507	2	1	16	1	0	0	0	0	0	0	0	1	11960	1074	38	1		1	PIP5K1C	19	3653507	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	11719	3653507	55475476	1221	12896											
TJP3	27134	broad.mit.edu	37	chr19	3736172	3736172	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccttgcaggtacagcccCgacacgcgtgtggtccgctt	5	9	11	16	4	0	0	0	0	0	0	2	1	2	0	5	2	3	3	5	2	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:3736172C>T	uc010xhv.1	+	10	1236	c.1236C>T	c.(1234-1236)CCC>CCT	p.P412P	TJP3_uc010xhs.1_Silent_p.P379P|TJP3_uc010xht.1_Silent_p.P343P|TJP3_uc010xhu.1_Silent_p.P388P|TJP3_uc010xhw.1_Silent_p.P398P	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	393						tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		GGTACAGCCCCGACACGCGTG	0.662													8	34					0	0	1	0	0		T	3736172	T	T	3736172	2	4	16	1	0	0	0	0	0	0	0	1	15956	639	23	1		1	TJP3	19	3736172	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	82665	3736172	55392811	1222	12897											
APBA3	9546	broad.mit.edu	37	chr19	3752611	3752611	+	Frame_Shift_Del	DEL	C	-	-																															gcccccgagcgctcagcaggCcccccgtgcagcaggttggc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:3752611delC	uc002lyp.1	-	8	1467	c.1290delG	c.(1288-1290)GGGfs	p.G430fs	APBA3_uc002lyo.1_Frame_Shift_Del_p.G188fs	NM_004886	NP_004877	O96018	APBA3_HUMAN	amyloid beta (A4) precursor protein-binding,	430	PDZ 1.				intracellular signal transduction|protein transport	intracellular|membrane	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00467)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTCAGCAGGCCCCCCGTGCA	0.746													5	7	---	---	---	---						.	-	3752611	-	-	3752611	7	5	16	1	0	1	0	1	0	0	0	0	758	726	26	0	453	0	APBA3	19	3752611	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	16439	3752611	55376372	1223	12898											
ZFR2	23217	broad.mit.edu	37	chr19	3831668	3831668	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcttacccgtgtaggcGgtgcaggtggggttgtagga	5	11	18	7	2	1	0	0	0	1	0	1	1	1	1	1	7	2	4	1	7	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:3831668G>A	uc002lyw.2	-	4	600	c.588C>T	c.(586-588)ACC>ACT	p.T196T	ZFR2_uc010xhx.1_RNA	NM_015174	NP_055989	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2 isoform 1	196	Pro-rich.					intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		CCGTGTAGGCGGTGCAGGTGG	0.627													6	3					0	0	1	0	0		A	3831668	A	A	3831668	2	1	16	1	0	0	0	0	0	0	0	1	17685	1103	39	1		1	ZFR2	19	3831668	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	79057	3831668	55297315	1224	12899											
PLIN4	729359	broad.mit.edu	37	chr19	4512339	4512339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacggcccctttggccaCgttcacagcactggtcaccc	6	8	10	17	2	2	0	2	0	0	0	2	1	2	1	4	4	1	2	4	4	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:4512339C>T	uc002mar.1	-	3	1591	c.1591G>A	c.(1591-1593)GTG>ATG	p.V531M	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	531	27 X 33 AA approximate tandem repeat.|14.					lipid particle|plasma membrane					0						CCTTTGGCCACGTTCACAGCA	0.617													42	73					0	0	1	0	0		T	4512339	T	T	4512339	3	4	16	1	0	0	0	0	1	0	0	0	12111	536	19	1	2498	1	PLIN4	19	4512339	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	680671	4512339	54616644	1225	12900											
SEMA6B	10501	broad.mit.edu	37	chr19	4550844	4550844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatcctccggcaccggcGtccagatggactcgggggac	6	6	14	15	4	0	2	0	1	0	1	4	4	3	4	5	5	0	1	5	5	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:4550844G>A	uc010duc.1	-	10	1126	c.1088C>T	c.(1087-1089)ACG>ATG	p.T363M	SEMA6B_uc010dud.2_Missense_Mutation_p.T363M|SEMA6B_uc010xih.1_Missense_Mutation_p.T363M	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	363	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGCACCGGCGTCCAGATGGA	0.652													18	29					0	0	1	0	0		A	4550844	A	A	4550844	3	1	16	1	0	0	0	0	1	0	0	0	14065	1145	40	1	1606	1	SEMA6B	19	4550844	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	38505	4550844	54578139	1226	12901											
SEMA6B	10501	broad.mit.edu	37	chr19	4554436	4554436	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aactccatcgcaatctcccgGaagaagaagtagacatggct	14	7	9	11	2	1	3	0	0	1	3	4	4	2	4	2	2	1	3	2	2	6	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:4554436G>T	uc010duc.1	-	8	773	c.735C>A	c.(733-735)TTC>TTA	p.F245L	SEMA6B_uc010dud.2_Missense_Mutation_p.F245L|SEMA6B_uc010xih.1_Missense_Mutation_p.F245L	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	245	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		CAATCTCCCGGAAGAAGAAGT	0.567													17	37					1.01871e-10	1.0738e-10	1	1	0		T	4554436	T	T	4554436	3	4	16	1	0	0	0	0	1	0	0	0	14065	1165	41	5	1967	5	SEMA6B	19	4554436	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3592	4554436	54574547	1227	12902											
PLIN3	10226	broad.mit.edu	37	chr19	4859941	4859941	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgcagacagtcttgatgtgCgggtagctctccttggtgga	6	12	14	9	2	2	2	0	1	2	1	4	3	2	3	1	3	2	3	1	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:4859941C>T	uc002mbj.2	-	3	339	c.162G>A	c.(160-162)CCG>CCA	p.P54P	PLIN3_uc002mbk.2_Silent_p.P54P|PLIN3_uc002mbl.3_Silent_p.P54P	NM_005817	NP_005808	O60664	PLIN3_HUMAN	mannose 6 phosphate receptor binding protein 1	54					vesicle-mediated transport	endosome membrane|Golgi apparatus|lipid particle	protein binding				0					Galsulfase(DB01279)|Idursulfase(DB01271)	TCTTGATGTGCGGGTAGCTCT	0.637													3	14					0	0	1	0	0		T	4859941	T	T	4859941	2	4	16	1	0	0	0	0	0	0	0	1	12110	755	27	1		1	PLIN3	19	4859941	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	305505	4859941	54269042	1228	12903											
UHRF1	29128	broad.mit.edu	37	chr19	4954817	4954817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtcactcaaggaccggcCggcgagcggcagcccggtag	7	3	17	14	6	2	0	2	0	0	0	2	2	2	1	3	6	2	2	3	6	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:4954817C>T	uc002mbo.2	+	17	2282	c.2114C>T	c.(2113-2115)CCG>CTG	p.P705L	UHRF1_uc010xik.1_RNA|UHRF1_uc010duf.2_RNA|UHRF1_uc002mbp.2_Missense_Mutation_p.P718L	NM_001048201	NP_001041666	Q96T88	UHRF1_HUMAN	ubiquitin-like with PHD and ring finger domains	705					cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)		AAGGACCGGCCGGCGAGCGGC	0.498													8	20					0	0	1	0	0		T	4954817	T	T	4954817	3	4	16	1	0	0	0	0	1	0	0	0	16993	643	23	1	2206	1	UHRF1	19	4954817	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	94876	4954817	54174166	1229	12904											
KDM4B	23030	broad.mit.edu	37	chr19	5119686	5119686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcaccggaaacggagccagCccaagaagccgaagcccgaa	14	1	11	15	4	1	1	1	0	0	1	1	5	1	3	5	2	5	0	5	2	5	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:5119686C>T	uc002mbq.3	+	11	1364	c.1138C>T	c.(1138-1140)CCC>TCC	p.P380S	KDM4B_uc010xim.1_Missense_Mutation_p.P414S|KDM4B_uc002mbr.3_Missense_Mutation_p.P138S	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	380					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						ACGGAGCCAGCCCAAGAAGCC	0.657													3	3					0	0	1	0	0		T	5119686	T	T	5119686	3	4	16	1	0	0	0	0	1	0	0	0	8145	739	26	2	1172	2	KDM4B	19	5119686	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	164869	5119686	54009297	1230	12905											
KDM4B	23030	broad.mit.edu	37	chr19	5131158	5131158	+	Frame_Shift_Del	DEL	C	-	-																															agaagagcttcggcctgctgCccccacagctgccgcccccg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:5131158delC	uc002mbq.3	+	12	1613	c.1387delC	c.(1387-1389)CCCfs	p.P463fs	KDM4B_uc010xim.1_Frame_Shift_Del_p.P497fs|KDM4B_uc002mbr.3_Frame_Shift_Del_p.P221fs	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	463	Pro-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						CGGCCTGCTGCCCCCACAGCT	0.697													8	8	---	---	---	---						.	-	5131158	-	-	5131158	7	5	16	1	0	1	0	1	0	0	0	0	8145	739	26	0	1425	0	KDM4B	19	5131158	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	11472	5131158	53997825	1231	12906											
INSR	3643	broad.mit.edu	37	chr19	7122772	7122772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagggtagggggagggcGgccaggattattctaaaaca	12	8	16	5	1	1	1	0	1	1	0	1	3	1	3	1	6	1	1	1	6	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:7122772G>A	uc002mgd.1	-	19	3491	c.3382C>T	c.(3382-3384)CGC>TGC	p.R1128C	INSR_uc002mge.1_Missense_Mutation_p.R1116C	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	1128	Protein kinase.|Cytoplasmic (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GGGGGAGGGCGGCCAGGATTA	0.587													9	12					0	0	1	0	0		A	7122772	A	A	7122772	3	1	16	1	0	0	0	0	1	0	0	0	7789	1116	39	1	782	1	INSR	19	7122772	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1991614	7122772	52006211	1232	12907											
ZNF358	140467	broad.mit.edu	37	chr19	7585781	7585781	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccagccctccctaccggCgagagtccagagtgggtaca	9	5	12	15	2	0	2	0	0	0	2	2	3	2	2	5	2	4	1	5	2	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:7585781C>T	uc002mgn.2	+	2	1823	c.1653C>T	c.(1651-1653)GGC>GGT	p.G551G	MCOLN1_uc010dvh.1_5'Flank|MCOLN1_uc002mgo.2_5'Flank|MCOLN1_uc002mgp.2_5'Flank	NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	551					embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						TCCCTACCGGCGAGAGTCCAG	0.652													18	27					0	0	1	0	0		T	7585781	T	T	7585781	2	4	16	1	0	0	0	0	0	0	0	1	17892	755	27	1		1	ZNF358	19	7585781	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	463009	7585781	51543202	1233	12908											
KIAA1543	57662	broad.mit.edu	37	chr19	7682715	7682715	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagttccgggcgctctacacGctgtcgggggagacagagga	8	6	16	11	4	1	2	0	0	1	2	3	4	2	3	1	4	1	3	1	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:7682715G>A	uc002mgv.3	+	17	3623	c.3522G>A	c.(3520-3522)ACG>ACA	p.T1174T	KIAA1543_uc002mgu.3_Silent_p.T1201T|KIAA1543_uc002mgw.2_Silent_p.T304T	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	1174	CKK.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						CGCTCTACACGCTGTCGGGGG	0.612													9	7					0	0	1	0	0		A	7682715	A	A	7682715	2	1	16	1	0	0	0	0	0	0	0	1	8259	1074	38	1		1	KIAA1543	19	7682715	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	96934	7682715	51446268	1234	12909											
MAP2K7	5609	broad.mit.edu	37	chr19	7975196	7975196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttgggcgagatgggcagcGgcacctgcggccaggtgtgg	6	6	19	10	3	0	1	0	0	0	1	0	2	0	1	2	6	2	2	2	6	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:7975196G>A	uc002mit.2	+	4	450	c.385G>A	c.(385-387)GGC>AGC	p.G129S	MAP2K7_uc002miv.2_Missense_Mutation_p.G129S|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.G129S|MAP2K7_uc010dvv.2_Missense_Mutation_p.G4S	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	129	Protein kinase.|ATP (By similarity).				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	GATGGGCAGCGGCACCTGCGG	0.672													8	15					0	0	1	0	0		A	7975196	A	A	7975196	3	1	16	1	0	0	0	0	1	0	0	0	9260	1116	39	1	399	1	MAP2K7	19	7975196	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	292481	7975196	51153787	1235	12910											
MAP2K7	5609	broad.mit.edu	37	chr19	7975348	7975348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctgtgcagcaaatgcggcGctccgggaacaaggaggaga	11	4	16	10	3	0	1	0	0	0	1	1	4	1	3	2	4	4	3	2	4	3	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:7975348G>A	uc002mit.2	+	5	523	c.458G>A	c.(457-459)CGC>CAC	p.R153H	MAP2K7_uc002miv.2_Missense_Mutation_p.R153H|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.R153H|MAP2K7_uc010dvv.2_Missense_Mutation_p.R28H	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	153	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	CAAATGCGGCGCTCCGGGAAC	0.637													6	12					0	0	1	0	0		A	7975348	A	A	7975348	3	1	16	1	0	0	0	0	1	0	0	0	9260	1087	38	1	476	1	MAP2K7	19	7975348	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	152	7975348	51153635	1236	12911											
MAP2K7	5609	broad.mit.edu	37	chr19	7976201	7976201	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgggccgacgtatggagcCtgggcatctcgttggtgagt	5	10	16	10	4	1	1	0	1	1	0	3	3	2	2	3	4	1	3	3	4	1	2	rs56278855		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:7976201C>A	uc002mit.2	+	8	987	c.922C>A	c.(922-924)CTG>ATG	p.L308M	MAP2K7_uc002miv.2_Missense_Mutation_p.L308M|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.L308M|MAP2K7_uc010dvv.2_Missense_Mutation_p.L183M	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	308	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	CGTATGGAGCCTGGGCATCTC	0.637													16	31					1.55469e-16	1.67935e-16	1	1	0		A	7976201	A	A	7976201	3	1	16	1	0	0	0	0	1	0	0	0	9260	680	24	5	952	5	MAP2K7	19	7976201	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	853	7976201	51152782	1237	12912											
FBN3	84467	broad.mit.edu	37	chr19	8176641	8176641	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccggtgctcctgggagacGcattcatccaggtctgcagg	7	8	13	13	2	2	1	1	0	1	1	4	2	4	1	3	4	2	3	3	4	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:8176641G>A	uc002mjf.2	-	31	3996	c.3975C>T	c.(3973-3975)TGC>TGT	p.C1325C		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1325	EGF-like 20; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CCTGGGAGACGCATTCATCCA	0.627													8	29					0	0	1	0	0		A	8176641	A	A	8176641	2	1	16	1	0	0	0	0	0	0	0	1	5718	1079	38	1		1	FBN3	19	8176641	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	200440	8176641	50952342	1238	12913											
LASS4	79603	broad.mit.edu	37	chr19	8320601	8320601	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgaccaagaagttctgTgaggccaggtaagcccagga	12	6	13	10	0	1	3	0	2	1	1	1	4	1	4	3	3	2	3	3	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:8320601T>C	uc002mjg.2	+	5	722	c.402T>C	c.(400-402)TGT>TGC	p.C134C	LASS4_uc002mjh.2_Silent_p.C83C|LASS4_uc002mji.2_5'UTR|LASS4_uc010dvz.2_Silent_p.C134C	NM_024552	NP_078828	Q9HA82	CERS4_HUMAN	LAG1 homolog, ceramide synthase 4	134	TLC.					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(1)	1						AGAAGTTCTGTGAGGCCAGGT	0.667													4	11					0	0	1	0	0		C	8320601	C	C	8320601	2	2	16	1	0	0	0	0	0	0	0	1	8657	1702	59	3		3	LASS4	19	8320601	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	143960	8320601	50808382	1239	12914											
HNRNPM	4670	broad.mit.edu	37	chr19	8533719	8533719	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtccacaacaacttccccGtaagtgtttcagtgattagg	10	11	9	11	2	1	1	1	1	0	0	3	1	3	1	3	1	2	2	3	1	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:8533719G>A	uc010dwe.2	+	9	975	c.895_splice	c.e9+1	p.H299_splice	HNRNPM_uc010dwc.1_Splice_Site_p.H299_splice|HNRNPM_uc010xke.1_Splice_Site_p.H260_splice|HNRNPM_uc010dwd.2_Splice_Site_p.H260_splice|HNRNPM_uc002mka.2_Splice_Site_p.H179_splice	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M						alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						CAACTTCCCCGTAAGTGTTTC	0.408													11	38					0	0	1	0	0		A	8533719	A	A	8533719	5	1	16	1	0	0	0	0	0	0	1	0	7287	1159	40	1	930	1	HNRNPM	19	8533719	Splice_Site	SNP	G	TCGA-BR-4292-01A-01D-1126-08	213118	8533719	50595264	1240	12915											
MUC16	94025	broad.mit.edu	37	chr19	9069699	9069699	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccacagagggagggcttTgccatgacacgcccttagta	9	9	11	12	1	0	2	0	1	0	1	1	3	1	3	3	2	1	2	3	2	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:9069699T>C	uc002mkp.2	-	3	17951	c.17747A>G	c.(17746-17748)CAA>CGA	p.Q5916R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5918	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGGAGGGCTTTGCCATGACAC	0.493													29	67					0	0	1	0	0		C	9069699	C	C	9069699	3	2	16	1	0	0	0	0	1	0	0	0	9991	1812	63	3	26104	3	MUC16	19	9069699	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	535980	9069699	50059284	1241	12916											
ZNF560	147741	broad.mit.edu	37	chr19	9578164	9578164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acactggtcacaatcaaagcGtttctgtcctgtgttacttc	9	14	7	11	1	3	0	2	0	1	0	5	0	4	0	1	1	2	2	1	1	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:9578164G>A	uc002mlp.1	-	10	1669	c.1459C>T	c.(1459-1461)CGC>TGC	p.R487C	ZNF560_uc010dwr.1_Missense_Mutation_p.R381C	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	487					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						CAATCAAAGCGTTTCTGTCCT	0.403													54	130					0	0	1	0	0		A	9578164	A	A	9578164	3	1	16	1	0	0	0	0	1	0	0	0	18016	1145	40	1	917	1	ZNF560	19	9578164	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	508465	9578164	49550819	1242	12917											
COL5A3	50509	broad.mit.edu	37	chr19	10114729	10114729	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactcaccactgtggctgcCggtgccaggttgtcacagtc	6	10	11	14	1	3	0	3	0	0	0	4	0	3	0	3	3	2	2	3	3	0	1	rs140294240	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:10114729C>T	uc002mmq.1	-	5	773	c.687G>A	c.(685-687)CCG>CCA	p.P229P		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	229	Nonhelical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			CTGTGGCTGCCGGTGCCAGGT	0.577													21	21					0	0	1	0	0		T	10114729	T	T	10114729	2	4	16	1	0	0	0	0	0	0	0	1	3701	639	23	1		1	COL5A3	19	10114729	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	536565	10114729	49014254	1243	12918											
ILF3	3609	broad.mit.edu	37	chr19	10793819	10793819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaacgtaaaacagcaggggCcgatcctgacaaagcacggc	15	3	12	11	3	0	2	0	1	0	1	1	3	1	2	2	3	4	3	2	3	4	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:10793819C>T	uc002mpn.2	+	14	1872	c.1555C>T	c.(1555-1557)CCG>TCG	p.P519S	ILF3_uc002mpm.2_Missense_Mutation_p.P523S|ILF3_uc002mpl.2_Missense_Mutation_p.P519S|ILF3_uc002mpk.2_Missense_Mutation_p.P519S|ILF3_uc010xli.1_Missense_Mutation_p.P117S|ILF3_uc002mpo.2_Missense_Mutation_p.P523S|ILF3_uc002mpp.2_Missense_Mutation_p.P344S|ILF3_uc002mpq.2_5'Flank	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	519					M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			ACAGCAGGGGCCGATCCTGAC	0.562													5	116					0	0	1	0	0		T	10793819	T	T	10793819	3	4	16	1	0	0	0	0	1	0	0	0	7728	739	26	2	1617	2	ILF3	19	10793819	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	679090	10793819	48335164	1244	12919											
TMED1	11018	broad.mit.edu	37	chr19	10943787	10943787	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagaagttgacccgctccaAgttgccctcttgcaggttgc	7	10	10	14	1	1	2	0	1	1	1	2	2	2	2	4	1	3	5	4	1	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:10943787A>C	uc002mpy.2	-	4	684	c.568T>G	c.(568-570)TTG>GTG	p.L190V	DNM2_uc002mpx.1_3'UTR	NM_006858	NP_006849	Q13445	TMED1_HUMAN	interleukin 1 receptor-like 1 ligand precursor	190	Extracellular (Potential).				cell-cell signaling|signal transduction|transport	integral to membrane|plasma membrane	receptor binding			ovary(2)|breast(1)|central_nervous_system(1)	4						ACCCGCTCCAAGTTGCCCTCT	0.627													15	31					0	0	1	0	0		C	10943787	C	C	10943787	3	2	16	1	0	0	0	0	1	0	0	0	16027	69	3	5	119	5	TMED1	19	10943787	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	149968	10943787	48185196	1245	12920											
ZNF440	126070	broad.mit.edu	37	chr19	11942182	11942182	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgcttctcatttttgacaGgagtctcatagaagaaaaag	14	13	8	6	0	2	3	2	1	2	2	4	4	2	4	0	1	1	1	0	1	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:11942182G>A	uc002msp.1	+	4	348	c.192_splice	c.e4-1	p.R64_splice		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATTTTTGACAGGAGTCTCATA	0.343													28	65					0	0	1	0	0		A	11942182	A	A	11942182	5	1	16	1	0	0	0	0	0	0	1	0	17938	1014	35	4	205	4	ZNF440	19	11942182	Splice_Site	SNP	G	TCGA-BR-4292-01A-01D-1126-08	998395	11942182	47186801	1246	12921											
ZNF709	163051	broad.mit.edu	37	chr19	12574828	12574828	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttactctccactatgaacTctttcatgtattcgaaagga	11	14	7	9	1	3	1	1	1	2	0	5	3	3	2	1	2	2	2	1	2	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:12574828T>A	uc002mtv.3	-	4	2069	c.1908A>T	c.(1906-1908)AGA>AGT	p.R636S	ZNF709_uc002mtw.3_Missense_Mutation_p.R604S|ZNF709_uc002mtx.3_Missense_Mutation_p.R636S	NM_152601	NP_689814	Q8N972	ZN709_HUMAN	zinc finger protein 709 isoform a	636	C2H2-type 19.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACTATGAACTCTTTCATGTA	0.323													51	96					0	0	1	0	0		A	12574828	A	A	12574828	3	1	16	1	0	0	0	0	1	0	0	0	18138	1548	54	5	21	5	ZNF709	19	12574828	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	632646	12574828	46554155	1247	12922											
MAST1	22983	broad.mit.edu	37	chr19	12963047	12963047	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccagctgggcctcacccGtgacccctttccaggtgccg	4	7	11	19	3	1	1	1	1	0	0	2	1	2	1	8	2	2	1	8	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:12963047G>A	uc002mvm.2	+	9	1123	c.995G>A	c.(994-996)CGT>CAT	p.R332H	MAST1_uc002mvk.2_Missense_Mutation_p.R328H	NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	332					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						GGCCTCACCCGTGACCCCTTT	0.662													14	33					0	0	1	0	0		A	12963047	A	A	12963047	3	1	16	1	0	0	0	0	1	0	0	0	9342	1145	40	1	1029	1	MAST1	19	12963047	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	388219	12963047	46165936	1248	12923											
NFIX	4784	broad.mit.edu	37	chr19	13192651	13192651	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgtgctcggatggctcGggccaggccaccggacaggt	5	9	16	11	3	0	0	0	0	0	0	2	2	0	2	3	6	1	2	3	6	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:13192651G>A	uc010xmx.1	+	8	1313	c.1260G>A	c.(1258-1260)TCG>TCA	p.S420S	NFIX_uc002mwd.2_Silent_p.S412S|NFIX_uc002mwe.2_Silent_p.S404S|NFIX_uc002mwf.2_Silent_p.S374S|NFIX_uc002mwg.1_Silent_p.S411S			Q14938	NFIX_HUMAN	RecName: Full=Nuclear factor 1;	412					DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			breast(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(19;8.2e-22)			CGGATGGCTCGGGCCAGGCCA	0.622											OREG0025286	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	17					0	0	1	0	0		A	13192651	A	A	13192651	2	1	16	1	0	0	0	0	0	0	0	1	10393	1103	39	1		1	NFIX	19	13192651	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	229604	13192651	45936332	1249	12924											
TRMT1	55621	broad.mit.edu	37	chr19	13223783	13223783	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggggtccagatcgatgacGtcaaacctctccgacaccct	10	8	9	14	3	2	2	1	1	1	1	5	4	3	2	4	2	1	0	4	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:13223783G>A	uc002mwj.2	-	5	934	c.684C>T	c.(682-684)GAC>GAT	p.D228D	TRMT1_uc002mwk.2_Silent_p.D228D|TRMT1_uc002mwl.3_Silent_p.D228D|TRMT1_uc010xmz.1_Silent_p.D14D	NM_017722	NP_060192	Q9NXH9	TRM1_HUMAN	tRNA methyltransferase 1 isoform 1	228							RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.08e-22)	GBM - Glioblastoma multiforme(1328;0.0356)		GATCGATGACGTCAAACCTCT	0.622													5	37					0	0	1	0	0		A	13223783	A	A	13223783	2	1	16	1	0	0	0	0	0	0	0	1	16587	1136	40	1		1	TRMT1	19	13223783	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	31132	13223783	45905200	1250	12925											
OR1I1	126370	broad.mit.edu	37	chr19	15198125	15198125	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgtccccaagatgctagcGaacatccaggctcagagcag	12	5	10	14	2	1	2	1	0	0	2	3	3	3	2	4	1	4	3	4	1	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:15198125G>A	uc010xoe.1	+	1	249	c.249G>A	c.(247-249)GCG>GCA	p.A83A		NM_001004713	NP_001004713	O60431	OR1I1_HUMAN	olfactory receptor, family 1, subfamily I,	83	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3						AGATGCTAGCGAACATCCAGG	0.552													18	39					0	0	1	0	0		A	15198125	A	A	15198125	2	1	16	1	0	0	0	0	0	0	0	1	10977	1045	37	1		1	OR1I1	19	15198125	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1974342	15198125	43930858	1251	12926											
CYP4F12	66002	broad.mit.edu	37	chr19	15806782	15806782	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcccttcctgaccatgtgCgtgaaggagagcctgaggtt	7	10	13	11	1	0	4	0	3	0	1	1	5	1	4	4	2	3	1	4	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:15806782C>T	uc002nbl.2	+	10	1213	c.1152C>T	c.(1150-1152)TGC>TGT	p.C384C		NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,									p.C384C(1)		skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					TGACCATGTGCGTGAAGGAGA	0.557													36	53					0	0	1	0	0		T	15806782	T	T	15806782	2	4	16	1	0	0	0	0	0	0	0	1	4190	776	27	1		1	CYP4F12	19	15806782	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	608657	15806782	43322201	1252	12927											
EPS15L1	58513	broad.mit.edu	37	chr19	16535966	16535966	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgacgctgccgtgggaCggcgtggagcggaggctgtc	4	7	19	11	5	0	1	0	1	0	0	1	4	0	4	1	5	3	3	1	5	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:16535966C>T	uc002ndz.1	-	9	726	c.720G>A	c.(718-720)CCG>CCA	p.P240P	EPS15L1_uc002ndx.2_Silent_p.P240P|EPS15L1_uc002ndy.2_RNA|EPS15L1_uc010xpe.1_Silent_p.P130P|EPS15L1_uc010xpf.1_Silent_p.P143P|EPS15L1_uc002nea.1_Silent_p.P240P|EPS15L1_uc010eah.1_Silent_p.P240P|EPS15L1_uc002neb.1_Silent_p.P86P|EPS15L1_uc002nec.1_Silent_p.P240P	NM_021235	NP_067058	Q9UBC2	EP15R_HUMAN	epidermal growth factor receptor pathway	240					endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|nucleus|plasma membrane	calcium ion binding			ovary(3)|skin(2)	5						TGCCGTGGGACGGCGTGGAGC	0.662													10	13					0	0	1	0	0		T	16535966	T	T	16535966	2	4	16	1	0	0	0	0	0	0	0	1	5201	523	19	1		1	EPS15L1	19	16535966	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	729184	16535966	42593017	1253	12928											
NWD1	284434	broad.mit.edu	37	chr19	16918583	16918583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcaactgcatgtccctgaGcaagtgcgaggaccgcctgg	10	7	12	12	2	1	1	1	1	0	0	2	3	2	2	3	2	4	2	3	2	3	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:16918583G>A	uc002neu.3	+	18	4345	c.3923G>A	c.(3922-3924)AGC>AAC	p.S1308N	NWD1_uc002net.3_Missense_Mutation_p.S1173N|NWD1_uc002nev.3_Missense_Mutation_p.S1102N			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1308							ATP binding			skin(3)|ovary(2)|pancreas(2)	7						ATGTCCCTGAGCAAGTGCGAG	0.612													15	41					0	0	1	0	0		A	16918583	A	A	16918583	3	1	16	1	0	0	0	0	1	0	0	0	10800	971	34	2	3572	2	NWD1	19	16918583	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	382617	16918583	42210400	1254	12929											
FCHO1	23149	broad.mit.edu	37	chr19	17893892	17893892	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcatcgtgcgtgtgttcagCgggaccccaccaccacctgt	6	8	12	15	3	1	0	1	0	0	0	2	1	1	1	5	2	2	2	5	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:17893892C>T	uc010ebb.2	+	23	2193	c.2004C>T	c.(2002-2004)AGC>AGT	p.S668S	FCHO1_uc002nhg.3_Silent_p.S668S|FCHO1_uc002nhh.2_Silent_p.S668S|FCHO1_uc010xpw.1_Silent_p.S618S|FCHO1_uc002nhi.2_Silent_p.S124S|FCHO1_uc002nhj.2_Silent_p.S12S	NM_001161358	NP_001154830	O14526	FCHO1_HUMAN	FCH domain only 1 isoform b	668										breast(1)	1						GTGTGTTCAGCGGGACCCCAC	0.592													6	50					0	0	1	0	0		T	17893892	T	T	17893892	2	4	16	1	0	0	0	0	0	0	0	1	5801	767	27	1		1	FCHO1	19	17893892	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	975309	17893892	41235091	1255	12930											
LSM4	25804	broad.mit.edu	37	chr19	18420588	18420588	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctcctccttgaccatgtcGatgatctcgtcggggatgcg	6	11	11	13	4	1	2	0	2	1	0	6	4	3	3	4	2	1	0	4	2	0	1	rs138296949	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:18420588G>A	uc002niq.2	-	4	399	c.228C>T	c.(226-228)ATC>ATT	p.I76I		NM_012321	NP_036453	Q9Y4Z0	LSM4_HUMAN	U6 snRNA-associated Sm-like protein 4	76					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|mRNA processing|RNA splicing	cytosol|U6 snRNP	protein binding|RNA binding				0						TGACCATGTCGATGATCTCGT	0.677													4	17					0	0	1	0	0		A	18420588	A	A	18420588	2	1	16	1	0	0	0	0	0	0	0	1	9076	1048	37	1		1	LSM4	19	18420588	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	526696	18420588	40708395	1256	12931											
TMEM161A	54929	broad.mit.edu	37	chr19	19240983	19240983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaggctccaggcccagctCgagggtctcctcccgcacca	7	5	10	19	2	1	0	0	0	1	0	5	1	3	0	6	3	1	3	6	3	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:19240983C>T	uc002nlg.2	-	6	607	c.577G>A	c.(577-579)GAG>AAG	p.E193K	TMEM161A_uc010eca.2_RNA|TMEM161A_uc002nlh.2_Missense_Mutation_p.E168K|TMEM161A_uc002nli.2_Intron|TMEM161A_uc002nlj.2_Missense_Mutation_p.E68K	NM_017814	NP_060284	Q9NX61	T161A_HUMAN	transmembrane protein 161A precursor	193	Cytoplasmic (Potential).				cellular response to oxidative stress|cellular response to UV|negative regulation of apoptosis|positive regulation of DNA repair|response to retinoic acid	integral to membrane				breast(2)	2			OV - Ovarian serous cystadenocarcinoma(5;1.19e-05)|Epithelial(12;0.0011)			AGGCCCAGCTCGAGGGTCTCC	0.632													4	31					0	0	1	0	0		T	19240983	T	T	19240983	3	4	16	1	0	0	0	0	1	0	0	0	16101	893	31	1	890	1	TMEM161A	19	19240983	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	820395	19240983	39888000	1257	12932											
SF4	57794	broad.mit.edu	37	chr19	19391027	19391027	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagctgcttcttctgggcGtctgaaagctctgtgacgcc	5	13	11	12	2	5	2	1	2	4	0	5	2	5	2	1	1	3	3	1	1	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:19391027G>A	uc002nmh.2	-	9	1319	c.1317C>T	c.(1315-1317)GAC>GAT	p.D439D	SF4_uc002nmf.2_Translation_Start_Site|SF4_uc002nmg.2_Translation_Start_Site|SF4_uc002nmi.2_Silent_p.D229D|SF4_uc002nmj.2_Silent_p.D229D|SF4_uc002nme.2_Translation_Start_Site	NM_172231	NP_757386	Q8IWZ8	SUGP1_HUMAN	splicing factor 4	439					nuclear mRNA splicing, via spliceosome	nucleoplasm|spliceosomal complex	RNA binding				0						TCTTCTGGGCGTCTGAAAGCT	0.592													26	46					0	0	1	0	0		A	19391027	A	A	19391027	2	1	16	1	0	0	0	0	0	0	0	1	14180	1136	40	1		1	SF4	19	19391027	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	150044	19391027	39737956	1258	12933											
ZNF90	7643	broad.mit.edu	37	chr19	20236361	20236362	+	RNA	DEL	AA	-	-																															gggattttaaagtttccaggAaaaaaaaagttcattagctt																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:20236361_20236362delAA	uc002nos.1	+	5		c.1037_1038delAA			ZNF90_uc002not.1_RNA			Q03938	ZNF90_HUMAN	Synthetic construct DNA, clone: pF1KB9685, Homo sapiens ZNF90 gene for zinc finger protein 90, without stop codon, in Flexi system.							Golgi apparatus|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						AGTTTCCAGGAAAAAAAAAGTT	0.376													4	5	---	---	---	---						.	-	20236362	-	-	20236361	6	5	16	0	1	1	0	1	0	0	0	0	18224	261	9	0		0	ZNF90	19	20236361	RNA	DEL	AA	TCGA-BR-4292-01A-01D-1126-08	845334	20236361	38892622	1259	12934											
ZNF208	7757	broad.mit.edu	37	chr19	22154680	22154680	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttgtagggtttttctccAgcatgagttgccttatgttc	6	18	9	8	0	1	1	0	1	1	0	3	1	1	1	2	1	2	5	2	1	2	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:22154680A>C	uc002nqp.2	-	6	2921	c.2772T>G	c.(2770-2772)GCT>GCG	p.A924A	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GTTTTTCTCCAGCATGAGTTG	0.453													51	105					0	0	1	0	0		C	22154680	C	C	22154680	2	2	16	1	0	0	0	0	0	0	0	1	17791	175	7	5		5	ZNF208	19	22154680	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	1918319	22154680	36974303	1260	12935											
ZNF676	163223	broad.mit.edu	37	chr19	22363176	22363176	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacattcttcacatttgtagGgtttctctccagcatgaatt	9	16	6	10	0	3	1	1	1	2	0	5	1	4	1	1	1	1	3	1	1	2	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:22363176G>C	uc002nqs.1	-	3	1661	c.1343C>G	c.(1342-1344)CCC>CGC	p.P448R		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	448					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				ACATTTGTAGGGTTTCTCTCC	0.433													28	90					0	0	1	0	0		C	22363176	C	C	22363176	3	2	16	1	0	0	0	0	1	0	0	0	18108	1232	43	5	427	5	ZNF676	19	22363176	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	208496	22363176	36765807	1261	12936											
TSHZ3	57616	broad.mit.edu	37	chr19	31769550	31769550	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccatgcacttcaggatctgCgacttccgggcctcaaagtg	8	10	10	13	2	3	0	2	0	1	0	5	2	5	1	3	2	2	1	3	2	1	2	rs148943651		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:31769550C>T	uc002nsy.3	-	2	1214	c.1149G>A	c.(1147-1149)TCG>TCA	p.S383S		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	383					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TCAGGATCTGCGACTTCCGGG	0.547													32	77					0	0	1	0	0		T	31769550	T	T	31769550	2	4	16	1	0	0	0	0	0	0	0	1	16651	755	27	1		1	TSHZ3	19	31769550	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	9406374	31769550	27359433	1262	12937											
RHPN2	85415	broad.mit.edu	37	chr19	33482843	33482843	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgcttcgaggaggcgtccaCcgcttgttagccgaaaacac	10	8	11	12	4	0	0	0	0	0	0	2	3	1	1	3	2	3	3	3	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:33482843C>T	uc002nuf.2	-	13	1596	c.1530G>A	c.(1528-1530)CGG>CGA	p.R510R	RHPN2_uc010xro.1_Silent_p.R359R|RHPN2_uc002nue.2_Silent_p.R240R	NM_033103	NP_149094	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	510					signal transduction	perinuclear region of cytoplasm	protein binding			central_nervous_system(5)|ovary(1)	6	Esophageal squamous(110;0.137)					GAGGCGTCCACCGCTTGTTAG	0.532													9	65					0	0	1	0	0		T	33482843	T	T	33482843	2	4	16	1	0	0	0	0	0	0	0	1	13376	494	18	4		4	RHPN2	19	33482843	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1713293	33482843	25646140	1263	12938											
PEPD	5184	broad.mit.edu	37	chr19	33968960	33968960	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccgtactcaccactcaacGatctctgggtgaagaatggt	10	9	11	11	2	3	2	2	1	1	1	4	3	3	2	2	3	2	1	2	3	4	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:33968960G>A	uc002nur.3	-	7	675	c.540C>T	c.(538-540)ATC>ATT	p.I180I	PEPD_uc010xrr.1_Silent_p.I180I|PEPD_uc010xrs.1_Silent_p.I116I	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	180					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)					ACCACTCAACGATCTCTGGGT	0.512													8	26					0	0	1	0	0		A	33968960	A	A	33968960	2	1	16	1	0	0	0	0	0	0	0	1	11747	1048	37	1		1	PEPD	19	33968960	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	486117	33968960	25160023	1264	12939											
GPI	2821	broad.mit.edu	37	chr19	34890536	34890536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatgcttggagccttggtcGgtgagtgagtaggggaaagg	8	10	18	5	1	1	2	1	2	0	0	2	4	1	4	1	6	2	2	1	6	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:34890536G>A	uc002nvg.1	+	16	1577	c.1474G>A	c.(1474-1476)GCC>ACC	p.A492T	GPI_uc002nvf.2_Missense_Mutation_p.A531T|GPI_uc010xrv.1_Missense_Mutation_p.A503T|GPI_uc010xrw.1_Missense_Mutation_p.A464T|GPI_uc010edl.1_Intron|GPI_uc002nvi.1_Missense_Mutation_p.A155T	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	492					angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					AGCCTTGGTCGGTGAGTGAGT	0.517													35	83					0	0	1	0	0		A	34890536	A	A	34890536	3	1	16	1	0	0	0	0	1	0	0	0	6626	1130	39	1	1657	1	GPI	19	34890536	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	921576	34890536	24238447	1265	12940											
GRAMD1A	57655	broad.mit.edu	37	chr19	35514240	35514240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctggcacagcctggccctgGccaaggggtgagtgggtagc	6	6	17	12	0	0	1	0	1	0	0	0	1	0	1	4	6	2	2	4	6	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:35514240G>A	uc010xse.1	+	18	2091	c.1954G>A	c.(1954-1956)GCC>ACC	p.A652T	GRAMD1A_uc002nxk.2_Missense_Mutation_p.A641T|GRAMD1A_uc002nxl.2_Missense_Mutation_p.A414T|GRAMD1A_uc010xsf.1_Missense_Mutation_p.A653T|GRAMD1A_uc002nxm.1_RNA|GRAMD1A_uc002nxn.1_Missense_Mutation_p.A263T	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	652						integral to membrane					0	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			CCTGGCCCTGGCCAAGGGGTG	0.642													64	159					0	0	1	0	0		A	35514240	A	A	35514240	3	1	16	1	0	0	0	0	1	0	0	0	6763	1203	42	2	2024	2	GRAMD1A	19	35514240	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	623704	35514240	23614743	1266	12941											
USF2	7392	broad.mit.edu	37	chr19	35761384	35761384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccttcagcaatggtggcaGtccggcggccgaggctgtca	6	8	14	13	3	2	0	2	0	0	0	4	1	4	0	3	5	1	3	3	5	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:35761384G>A	uc002nyq.1	+	5	573	c.464G>A	c.(463-465)AGT>AAT	p.S155N	USF2_uc010xss.1_Missense_Mutation_p.S155N|USF2_uc002nyr.1_Missense_Mutation_p.S88N|USF2_uc002nys.1_5'UTR|USF2_uc002nyt.1_Intron|USF2_uc002nyu.1_5'UTR|USF2_uc002nyv.1_5'UTR	NM_003367	NP_003358	Q15853	USF2_HUMAN	upstream stimulatory factor 2 isoform 1	155					lipid homeostasis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter by glucose	nucleus	bHLH transcription factor binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity				0	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)		Epithelial(14;7.4e-20)|OV - Ovarian serous cystadenocarcinoma(14;6.47e-19)|all cancers(14;4.17e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			AATGGTGGCAGTCCGGCGGCC	0.592													3	37					0	0	1	0	0		A	35761384	A	A	35761384	3	1	16	1	0	0	0	0	1	0	0	0	17059	1029	36	4	482	4	USF2	19	35761384	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	247144	35761384	23367599	1267	12942											
USF2	7392	broad.mit.edu	37	chr19	35761690	35761690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagaggacgatcgccccccGgacacacccttactctccgt	9	6	8	18	4	1	1	0	0	1	1	3	4	1	3	5	2	1	0	5	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:35761690G>A	uc002nyq.1	+	6	759	c.650G>A	c.(649-651)CGG>CAG	p.R217Q	USF2_uc010xss.1_Missense_Mutation_p.R217Q|USF2_uc002nyr.1_Missense_Mutation_p.R150Q|USF2_uc002nys.1_Missense_Mutation_p.R19Q|USF2_uc002nyt.1_Missense_Mutation_p.R86Q|USF2_uc002nyu.1_Missense_Mutation_p.R19Q|USF2_uc002nyv.1_Missense_Mutation_p.R19Q	NM_003367	NP_003358	Q15853	USF2_HUMAN	upstream stimulatory factor 2 isoform 1	217					lipid homeostasis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter by glucose	nucleus	bHLH transcription factor binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity				0	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)		Epithelial(14;7.4e-20)|OV - Ovarian serous cystadenocarcinoma(14;6.47e-19)|all cancers(14;4.17e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			ATCGCCCCCCGGACACACCCT	0.582													16	73					0	0	1	0	0		A	35761690	A	A	35761690	3	1	16	1	0	0	0	0	1	0	0	0	17059	1116	39	1	672	1	USF2	19	35761690	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	306	35761690	23367293	1268	12943											
CD22	933	broad.mit.edu	37	chr19	35828791	35828791	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggctcaaggatgggacCtcgctgaagaagcagaatac	12	7	12	10	1	1	3	1	1	0	2	3	5	2	5	2	3	2	3	2	3	5	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:35828791C>A	uc010edt.2	+	5	929	c.852C>A	c.(850-852)ACC>ACA	p.T284T	CD22_uc010xst.1_Silent_p.T112T|CD22_uc010edu.2_Silent_p.T284T|CD22_uc010edv.2_Silent_p.T284T|CD22_uc002nzb.3_Intron|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	284	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion		protein binding|sugar binding			ovary(5)|lung(3)|breast(1)	9	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.83e-19)|OV - Ovarian serous cystadenocarcinoma(14;3.19e-18)|all cancers(14;3.41e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)		OspA lipoprotein(DB00045)	AGGATGGGACCTCGCTGAAGA	0.577													12	36					0.000219431	0.000223615	1	1	0		A	35828791	A	A	35828791	2	1	16	1	0	0	0	0	0	0	0	1	2988	668	24	5		5	CD22	19	35828791	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	67101	35828791	23300192	1269	12944											
MLL4	9757	broad.mit.edu	37	chr19	36223276	36223276	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccctcagctcagggtgccCcctcctacctcagtcgtcac	5	9	7	20	1	4	0	4	0	0	0	7	0	6	0	6	1	3	1	6	1	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:36223276C>A	uc010eei.2	+	29	5826	c.5826C>A	c.(5824-5826)CCC>CCA	p.P1942P		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1942					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TCAGGGTGCCCCCTCCTACCT	0.687													8	10					5.18039e-06	5.33825e-06	1	1	0		A	36223276	A	A	36223276	2	1	16	1	0	0	0	0	0	0	0	1	9641	610	22	5		5	MLL4	19	36223276	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	394485	36223276	22905707	1270	12945											
NFKBID	84807	broad.mit.edu	37	chr19	36387021	36387021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggatggccgtgtggagcGgggtgaggcctgcagaatgg	7	6	20	8	2	0	2	0	1	0	1	0	4	0	4	3	7	2	1	3	7	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:36387021G>A	uc002oci.1	-	9	1041	c.467C>T	c.(466-468)CCG>CTG	p.P156L	NFKBID_uc002och.1_5'UTR|NFKBID_uc002ocj.1_Missense_Mutation_p.P171L	NM_139239	NP_640332	Q8NI38	IKBD_HUMAN	nuclear factor of kappa light polypeptide gene	156	ANK 4.				inflammatory response	nucleus					0						CGTGTGGAGCGGGGTGAGGCC	0.647													11	30					0	0	1	0	0		A	36387021	A	A	36387021	3	1	16	1	0	0	0	0	1	0	0	0	10398	1116	39	1	490	1	NFKBID	19	36387021	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	163745	36387021	22741962	1271	12946											
CLIP3	25999	broad.mit.edu	37	chr19	36508783	36508783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttcccgtagaagcgcaCgatcccctgcttctggcccg	5	10	10	16	4	2	1	0	0	2	1	4	2	4	1	4	1	2	3	4	1	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:36508783C>T	uc010eeq.1	-	9	1576	c.1294G>A	c.(1294-1296)GTG>ATG	p.V432M	uc002ocy.2_Intron|CLIP3_uc002ocz.1_Missense_Mutation_p.V432M	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	432					chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TAGAAGCGCACGATCCCCTGC	0.642													28	49					0	0	1	0	0		T	36508783	T	T	36508783	3	4	16	1	0	0	0	0	1	0	0	0	3537	536	19	1	369	1	CLIP3	19	36508783	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	121762	36508783	22620200	1272	12947											
ZNF568	374900	broad.mit.edu	37	chr19	37441545	37441545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgacaccagagaattcataCgggtgagaaaccctatgcat	14	8	9	10	2	1	2	1	1	0	2	2	5	1	2	2	1	3	1	2	1	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:37441545C>T	uc002ofc.2	+	7	2005	c.1490C>T	c.(1489-1491)ACG>ATG	p.T497M	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Missense_Mutation_p.T421M|ZNF568_uc010efe.2_Missense_Mutation_p.T421M|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	497					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGAATTCATACGGGTGAGAAA	0.388													31	56					0	0	1	0	0		T	37441545	T	T	37441545	3	4	16	1	0	0	0	0	1	0	0	0	18024	536	19	1	1508	1	ZNF568	19	37441545	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	932762	37441545	21687438	1273	12948											
ZNF420	147923	broad.mit.edu	37	chr19	37618976	37618976	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggattcatactggtgaaaaAccctataaatgtgaagaatg	17	10	9	5	0	1	3	1	2	0	1	1	4	1	4	1	2	2	0	1	2	8	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:37618976A>C	uc002ofl.2	+	5	1298	c.1083A>C	c.(1081-1083)AAA>AAC	p.K361N		NM_144689	NP_653290	Q8TAQ5	ZN420_HUMAN	zinc finger protein 420	361					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTGGTGAAAAACCCTATAAAT	0.418													25	68					0	0	1	0	0		C	37618976	C	C	37618976	3	2	16	1	0	0	0	0	1	0	0	0	17922	40	2	5	1093	5	ZNF420	19	37618976	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	177431	37618976	21510007	1274	12949											
ZNF527	84503	broad.mit.edu	37	chr19	37879380	37879380	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctacatcagggaaatgcGgagaggcatttcatgcaagt	13	8	13	7	1	2	1	2	0	0	1	2	4	2	2	0	3	4	3	0	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:37879380G>A	uc010efk.1	+	5	540	c.429G>A	c.(427-429)GCG>GCA	p.A143A	ZNF527_uc002ogf.3_Silent_p.A111A|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	143					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGGGAAATGCGGAGAGGCATT	0.428													15	59					0	0	1	0	0		A	37879380	A	A	37879380	2	1	16	1	0	0	0	0	0	0	0	1	17993	1103	39	1		1	ZNF527	19	37879380	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	260404	37879380	21249603	1275	12950											
YIF1B	90522	broad.mit.edu	37	chr19	38798088	38798088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgaacacaaagatggctaCgcagcaccagcccagcacca	15	3	8	15	1	0	2	0	1	0	1	0	2	0	2	3	1	5	4	3	1	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:38798088C>T	uc002ohz.2	-	7	818	c.769G>A	c.(769-771)GTA>ATA	p.V257I	YIF1B_uc002ohw.2_Missense_Mutation_p.V226I|YIF1B_uc002ohx.2_Missense_Mutation_p.V242I|YIF1B_uc010xtx.1_Missense_Mutation_p.V240I|YIF1B_uc010xty.1_Missense_Mutation_p.V226I|YIF1B_uc002oia.2_Missense_Mutation_p.V254I|YIF1B_uc002ohy.2_Missense_Mutation_p.V254I|YIF1B_uc002oib.2_Missense_Mutation_p.V254I	NM_001039672	NP_001034761	Q5BJH7	YIF1B_HUMAN	Yip1 interacting factor homolog B isoform 5	257	Helical; (Potential).					integral to membrane					0	all_cancers(60;1.07e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			AAGATGGCTACGCAGCACCAG	0.622													16	26					0	0	1	0	0		T	38798088	T	T	38798088	3	4	16	1	0	0	0	0	1	0	0	0	17502	536	19	1	264	1	YIF1B	19	38798088	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	918708	38798088	20330895	1276	12951											
PSMD8	5714	broad.mit.edu	37	chr19	38873894	38873894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatccctcctttcctgcagcGagggtgggtcctgggcccca	5	9	12	15	1	0	0	0	0	0	0	4	1	4	0	6	3	2	1	6	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:38873894G>A	uc002oii.3	+	7	969	c.917G>A	c.(916-918)CGA>CAA	p.R306Q		NM_002812	NP_002803	P48556	PSMD8_HUMAN	proteasome 26S non-ATPase subunit 8	306					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome regulatory particle	protein binding			central_nervous_system(1)	1	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TTCCTGCAGCGAGGGTGGGTC	0.567													7	18					0	0	1	0	0		A	38873894	A	A	38873894	3	1	16	1	0	0	0	0	1	0	0	0	12726	1072	37	1	943	1	PSMD8	19	38873894	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	75806	38873894	20255089	1277	12952											
RYR1	6261	broad.mit.edu	37	chr19	39068584	39068584	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacaaacatggggacatctaCgggcgggagcggattgctga	11	6	16	8	3	1	1	0	1	1	0	1	5	1	4	0	5	4	1	0	5	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:39068584C>T	uc002oit.2	+	98	14329	c.14199C>T	c.(14197-14199)TAC>TAT	p.Y4733Y	RYR1_uc002oiu.2_Silent_p.Y4728Y	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4733					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GGGACATCTACGGGCGGGAGC	0.607													25	35					0	0	1	0	0		T	39068584	T	T	39068584	2	4	16	1	0	0	0	0	0	0	0	1	13793	547	19	1		1	RYR1	19	39068584	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	194690	39068584	20060399	1278	12953											
PLEKHG2	64857	broad.mit.edu	37	chr19	39913533	39913533	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggggccttccccactccaCgtcctggaagggctcgaaag	7	6	13	15	3	0	0	0	0	0	0	4	2	3	1	5	4	0	1	5	4	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:39913533C>T	uc010xuz.1	+	18	2164	c.1839C>T	c.(1837-1839)CAC>CAT	p.H613H	PLEKHG2_uc010xuy.1_Silent_p.H554H|PLEKHG2_uc002olj.2_Intron|PLEKHG2_uc010xva.1_Silent_p.H391H	NM_022835	NP_073746	Q9H7P9	PKHG2_HUMAN	common-site lymphoma/leukemia guanine nucleotide	613					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			skin(2)|pancreas(1)|breast(1)	4	all_cancers(60;3.08e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;6.57e-07)|Ovarian(47;0.0569)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			CCCCACTCCACGTCCTGGAAG	0.577													16	26					0	0	1	0	0		T	39913533	T	T	39913533	2	4	16	1	0	0	0	0	0	0	0	1	12088	535	19	1		1	PLEKHG2	19	39913533	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	844949	39913533	19215450	1279	12954											
PSMC4	5704	broad.mit.edu	37	chr19	40485741	40485741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgcattcatccgggtcGtgggctcggagtttgtacag	6	11	14	10	3	1	0	1	0	0	0	4	1	2	1	1	3	3	5	1	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:40485741G>A	uc002omq.2	+	7	728	c.691G>A	c.(691-693)GTG>ATG	p.V231M	PSMC4_uc002omr.2_Missense_Mutation_p.V200M	NM_006503	NP_006494	P43686	PRS6B_HUMAN	proteasome 26S ATPase subunit 4 isoform 1	231					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding			ovary(1)	1	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					CATCCGGGTCGTGGGCTCGGA	0.552													24	56					0	0	1	0	0		A	40485741	A	A	40485741	3	1	16	1	0	0	0	0	1	0	0	0	12711	1145	40	1	717	1	PSMC4	19	40485741	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	572208	40485741	18643242	1280	12955											
AKT2	208	broad.mit.edu	37	chr19	40747883	40747883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccgcaggatcttcatggCgtagtagcggccagtggcct	6	10	13	12	3	2	0	1	0	1	0	3	1	3	1	3	4	1	3	3	4	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:40747883C>T	uc002onf.2	-	6	797	c.535G>A	c.(535-537)GCC>ACC	p.A179T	AKT2_uc010egs.2_Missense_Mutation_p.A179T|AKT2_uc010egt.2_Missense_Mutation_p.A117T|AKT2_uc010xvj.1_Missense_Mutation_p.A117T|AKT2_uc010egu.1_Missense_Mutation_p.A117T|AKT2_uc010xvk.1_Missense_Mutation_p.A179T|AKT2_uc002one.2_Missense_Mutation_p.A75T	NM_001626	NP_001617	P31751	AKT2_HUMAN	AKT2 kinase	179	Protein kinase.				insulin receptor signaling pathway|negative regulation of plasma membrane long-chain fatty acid transport|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2			Lung(22;0.000499)			ATCTTCATGGCGTAGTAGCGG	0.592			A		ovarian|pancreatic 								10	31					0	0	1	0	0		T	40747883	T	T	40747883	3	4	16	1	0	0	0	0	1	0	0	0	480	768	27	1	946	1	AKT2	19	40747883	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	262142	40747883	18381100	1281	12956											
C19orf47	126526	broad.mit.edu	37	chr19	40834366	40834366	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttgttggacacagtgacCgagatcttggaggtgctggt	8	12	14	7	1	2	2	0	1	2	1	2	5	2	4	1	4	1	2	1	4	0	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:40834366C>T	uc002oni.3	-	6	505	c.504G>A	c.(502-504)TCG>TCA	p.S168S	C19orf47_uc002ong.2_Silent_p.S27S|C19orf47_uc002onh.2_Silent_p.S101S	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526	168										ovary(1)|skin(1)	2			Lung(22;0.000636)			ACACAGTGACCGAGATCTTGG	0.607													23	134					0	0	1	0	0		T	40834366	T	T	40834366	2	4	16	1	0	0	0	0	0	0	0	1	1933	639	23	1		1	C19orf47	19	40834366	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	86483	40834366	18294617	1282	12957											
LTBP4	8425	broad.mit.edu	37	chr19	41135394	41135394	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttccgctgcatctgccGcccgggattcgcacccacgc	4	8	9	20	5	1	0	0	0	1	0	4	1	3	1	5	1	2	3	5	1	0	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:41135394G>A	uc002ooh.1	+	34	4814	c.4814G>A	c.(4813-4815)CGC>CAC	p.R1605H	LTBP4_uc002oog.1_Missense_Mutation_p.R1568H|LTBP4_uc002ooi.1_Missense_Mutation_p.R1538H|LTBP4_uc002ooj.1_Missense_Mutation_p.R478H|LTBP4_uc002ool.1_Missense_Mutation_p.R617H|LTBP4_uc010xvp.1_Missense_Mutation_p.R365H	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1605	EGF-like 16.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TGCATCTGCCGCCCGGGATTC	0.721													6	4					0	0	1	0	0		A	41135394	A	A	41135394	3	1	16	1	0	0	0	0	1	0	0	0	9094	1087	38	1	5236	1	LTBP4	19	41135394	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	301028	41135394	17993589	1283	12958											
CYP2S1	29785	broad.mit.edu	37	chr19	41709424	41709424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctaggggaccgtacccGcctcccttacaccgacgcgg	8	5	11	17	5	0	0	0	0	0	0	1	2	1	1	6	3	3	1	6	3	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:41709424G>A	uc002opw.2	+	7	1101	c.1046G>A	c.(1045-1047)CGC>CAC	p.R349H	CYP2F1_uc010xvw.1_Intron|CYP2S1_uc010xvx.1_Missense_Mutation_p.R74H	NM_030622	NP_085125	Q96SQ9	CP2S1_HUMAN	cytochrome P450, family 2, subfamily S,	349					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity			skin(1)	1						GACCGTACCCGCCTCCCTTAC	0.667													3	3					0	0	1	0	0		A	41709424	A	A	41709424	3	1	16	1	0	0	0	0	1	0	0	0	4177	1087	38	1	1072	1	CYP2S1	19	41709424	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	574030	41709424	17419559	1284	12959											
CCDC97	90324	broad.mit.edu	37	chr19	41822537	41822537	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtggccatcctggcccagCtgtaccacgagaagccactg	10	6	11	14	1	0	1	0	0	0	1	1	2	1	1	5	2	3	2	5	2	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:41822537C>T	uc002oqg.2	+	2	417	c.295C>T	c.(295-297)CTG>TTG	p.L99L	CYP2F1_uc010xvw.1_Intron	NM_052848	NP_443080	Q96F63	CCD97_HUMAN	coiled-coil domain containing 97	99											0						CCTGGCCCAGCTGTACCACGA	0.637													10	19					0	0	1	0	0		T	41822537	T	T	41822537	2	4	16	1	0	0	0	0	0	0	0	1	2878	796	28	2		2	CCDC97	19	41822537	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	113113	41822537	17306446	1285	12960											
CCDC97	90324	broad.mit.edu	37	chr19	41828552	41828554	+	In_Frame_Del	DEL	GAG	-	-																															tcgacatcgtggcacgggatGaggaggagaggtactttgat																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:41828552_41828554delGAG	uc002oqg.2	+	5	1086_1088	c.964_966delGAG	c.(964-966)GAGdel	p.E324del	CYP2F1_uc010xvw.1_Intron	NM_052848	NP_443080	Q96F63	CCD97_HUMAN	coiled-coil domain containing 97	324											0						GGCACGGGATGAGGAGGAGAGGT	0.631													44	83	---	---	---	---						.	-	41828554	-	-	41828552	7	5	16	1	0	1	0	1	0	0	0	0	2878	1291	45	0	982	0	CCDC97	19	41828552	In_Frame_Del	DEL	GAG	TCGA-BR-4292-01A-01D-1126-08	6015	41828552	17300431	1286	12961											
ZNF574	64763	broad.mit.edu	37	chr19	42583781	42583781	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctttaagtgccccctgtgCagtcgtgtcttccctagccc	4	13	9	15	1	2	0	0	0	2	0	4	0	3	0	4	0	3	1	4	0	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:42583781C>T	uc002osm.3	+	2	1192	c.1023C>T	c.(1021-1023)TGC>TGT	p.C341C	ZNF574_uc002osk.3_Silent_p.C431C	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	341	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				GCCCCCTGTGCAGTCGTGTCT	0.597													18	42					0	0	1	0	0		T	42583781	T	T	42583781	2	4	16	1	0	0	0	0	0	0	0	1	18031	718	25	2		2	ZNF574	19	42583781	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	755229	42583781	16545202	1287	12962											
ERF	2077	broad.mit.edu	37	chr19	42752741	42752741	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgcaccttcttgtcctcaCcctcatcctcaaagccccca	8	9	3	21	1	4	0	3	0	1	0	6	0	6	0	6	0	1	1	6	0	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:42752741C>A	uc002ote.3	-	4	1681	c.1523G>T	c.(1522-1524)GGT>GTT	p.G508V	ERF_uc002otd.3_Missense_Mutation_p.G239V	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	508					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				CTTGTCCTCACCCTCATCCTC	0.682													12	18					7.03913e-09	7.35425e-09	1	1	0		A	42752741	A	A	42752741	3	1	16	1	0	0	0	0	1	0	0	0	5229	507	18	5	127	5	ERF	19	42752741	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	168960	42752741	16376242	1288	12963											
PSG5	5673	broad.mit.edu	37	chr19	43680089	43680089	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccgtatttcacattcataGggtcctgtttcatttctcgt	6	18	6	11	2	4	0	3	0	1	0	7	0	6	0	2	1	0	2	2	1	2	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:43680089G>T	uc002ovu.2	-	3	773	c.642C>A	c.(640-642)CCC>CCA	p.P214P	PSG6_uc010xwk.1_Intron|PSG5_uc010eir.2_Intron|PSG5_uc002ovx.2_Silent_p.P214P|PSG5_uc002ovv.2_Silent_p.P307P|PSG5_uc002ovw.2_Intron	NM_002781	NP_002772	Q15238	PSG5_HUMAN	pregnancy specific beta-1-glycoprotein 5	214	Ig-like C2-type 1.				female pregnancy	extracellular region				skin(3)	3		Prostate(69;0.00899)				CACATTCATAGGGTCCTGTTT	0.522													73	122					1.72036e-36	1.8916e-36	1	1	0		T	43680089	T	T	43680089	2	4	16	1	0	0	0	0	0	0	0	1	12680	987	35	5		5	PSG5	19	43680089	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	927348	43680089	15448894	1289	12964											
XRCC1	7515	broad.mit.edu	37	chr19	44048331	44048331	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgtatcggatgagtttccgCcgctcgtccccagggaactc	7	9	11	14	5	0	1	0	1	0	0	5	3	2	3	4	2	1	3	4	2	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:44048331C>T	uc002owt.2	-	15	1797	c.1677G>A	c.(1675-1677)CGG>CGA	p.R559R	XRCC1_uc010xwp.1_Silent_p.R528R	NM_006297	NP_006288	P18887	XRCC1_HUMAN	X-ray repair cross complementing protein 1	559	BRCT 2.				base-excision repair|single strand break repair	nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(2)|large_intestine(1)|prostate(1)|breast(1)	7		Prostate(69;0.0153)				TGAGTTTCCGCCGCTCGTCCC	0.582								Other_BER_factors					8	15					0	0	1	0	0		T	44048331	T	T	44048331	2	4	16	1	0	0	0	0	0	0	0	1	17478	726	26	2		2	XRCC1	19	44048331	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	368242	44048331	15080652	1290	12965											
CADM4	199731	broad.mit.edu	37	chr19	44131398	44131398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccccctcgtcctccaggCgggcatctgagagccggatc	6	6	12	17	3	1	1	0	1	1	1	5	3	3	2	6	3	2	1	6	3	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:44131398C>T	uc002oxc.1	-	3	333	c.284G>A	c.(283-285)CGC>CAC	p.R95H		NM_145296	NP_660339	Q8NFZ8	CADM4_HUMAN	cell adhesion molecule 4 precursor	95	Ig-like V-type.|Extracellular (Potential).				cell adhesion	integral to membrane					0		Prostate(69;0.0199)				GTCCTCCAGGCGGGCATCTGA	0.602													25	31					0	0	1	0	0		T	44131398	T	T	44131398	3	4	16	1	0	0	0	0	1	0	0	0	2572	768	27	1	910	1	CADM4	19	44131398	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	83067	44131398	14997585	1291	12966											
IRGC	56269	broad.mit.edu	37	chr19	44223276	44223276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgggcttcagagaggccgCtgtcctgcaggagatccgag	7	7	16	11	3	1	2	1	0	0	2	4	5	3	2	3	3	1	3	3	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:44223276C>T	uc002oxh.2	+	2	713	c.566C>T	c.(565-567)GCT>GTT	p.A189V		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	189						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				AGAGAGGCCGCTGTCCTGCAG	0.682													5	7					0	0	1	0	0		T	44223276	T	T	44223276	3	4	16	1	0	0	0	0	1	0	0	0	7854	797	28	2	568	2	IRGC	19	44223276	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	91878	44223276	14905707	1292	12967											
ZNF226	7769	broad.mit.edu	37	chr19	44676240	44676240	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcatttgtttttgtcgtaGgaagcagtgaccttcaagga	9	14	12	6	1	2	1	2	1	0	0	3	3	2	3	1	3	1	3	1	3	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:44676240G>T	uc002oyp.2	+	4	160	c.16_splice	c.e4-1	p.E6_splice	ZNF226_uc002oyn.2_Splice_Site_p.E6_splice|ZNF226_uc002oyo.2_Splice_Site_p.E6_splice|ZNF226_uc002oyq.2_Splice_Site|ZNF226_uc002oyr.2_Splice_Site|ZNF226_uc010ejg.2_Splice_Site_p.E6_splice|ZNF226_uc002oys.2_Splice_Site_p.E6_splice|ZNF226_uc002oyt.2_Splice_Site_p.E6_splice	NM_001032373	NP_001027545	Q9NYT6	ZN226_HUMAN	zinc finger protein 226 isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				TTTTGTCGTAGGAAGCAGTGA	0.522													31	68					4.14481e-20	4.50062e-20	1	1	0		T	44676240	T	T	44676240	5	4	16	1	0	0	0	0	0	0	1	0	17805	1014	35	5	21	5	ZNF226	19	44676240	Splice_Site	SNP	G	TCGA-BR-4292-01A-01D-1126-08	452964	44676240	14452743	1293	12968											
CLPTM1	1209	broad.mit.edu	37	chr19	45490450	45490450	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagatgtgaagttcgaCgccgtgagcggtgactacta	9	9	14	9	4	0	4	0	3	0	1	1	5	0	4	1	1	3	3	1	1	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:45490450C>T	uc002pai.2	+	8	822	c.807C>T	c.(805-807)GAC>GAT	p.D269D	CLPTM1_uc010ejv.1_Silent_p.D167D|CLPTM1_uc010xxf.1_Silent_p.D167D|CLPTM1_uc010xxg.1_Silent_p.D255D	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane	269	Extracellular (Potential).				cell differentiation|multicellular organismal development|regulation of T cell differentiation in thymus	external side of plasma membrane|integral to plasma membrane				ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00354)|Epithelial(262;0.187)		TGAAGTTCGACGCCGTGAGCG	0.602													30	81					0	0	1	0	0		T	45490450	T	T	45490450	2	4	16	1	0	0	0	0	0	0	0	1	3557	535	19	1		1	CLPTM1	19	45490450	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	814210	45490450	13638533	1294	12969											
ERCC2	2068	broad.mit.edu	37	chr19	45855905	45855905	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgcaggtattccagccgCgcctgcagatacggaggatg	8	7	13	13	4	0	1	0	0	0	1	2	3	2	3	4	3	3	3	4	3	2	3	rs145835916		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:45855905C>T	uc002pbj.2	-	21	1952	c.1905G>A	c.(1903-1905)GCG>GCA	p.A635A	ERCC2_uc002pbh.2_Silent_p.A198A|ERCC2_uc002pbi.2_Silent_p.A328A|ERCC2_uc010ejz.2_Silent_p.A557A|ERCC2_uc002pbk.2_Silent_p.A611A	NM_000400	NP_000391	P18074	ERCC2_HUMAN	excision repair cross-complementing rodent	635	Mediates interaction with MMS19.				cell cycle checkpoint|chromosome segregation|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|UV protection|viral reproduction	cytoplasm|holo TFIIH complex|MMXD complex	5'-3' DNA helicase activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding|protein C-terminus binding|protein N-terminus binding			lung(2)|pancreas(1)	3		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		ATTCCAGCCGCGCCTGCAGAT	0.597			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				14	20					0	0	1	0	0		T	45855905	T	T	45855905	2	4	16	1	0	0	0	0	0	0	0	1	5221	755	27	1		1	ERCC2	19	45855905	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	365455	45855905	13273078	1295	12970											
FOXA3	3171	broad.mit.edu	37	chr19	46376101	46376101	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggctcacccgcttcctccAcaccctatttcactggcctg	5	11	7	18	1	2	0	2	0	0	0	4	0	4	0	5	2	0	2	5	2	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:46376101A>G	uc002pdr.2	+	2	1035	c.838A>G	c.(838-840)ACA>GCA	p.T280A		NM_004497	NP_004488	P55318	FOXA3_HUMAN	forkhead box A3	280					brain development|cellular glucose homeostasis|cellular response to starvation|chromatin modification|embryo development|endocrine pancreas development|negative regulation of cell proliferation|neural plate anterior/posterior regionalization|neuron fate specification|positive regulation of hepatocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|spermatogenesis	transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(1)	1		Ovarian(192;0.0308)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00453)|GBM - Glioblastoma multiforme(486;0.0518)|Epithelial(262;0.236)		CGCTTCCTCCACACCCTATTT	0.632													8	11					0	0	1	0	0		G	46376101	G	G	46376101	3	3	16	1	0	0	0	0	1	0	0	0	6005	159	6	3	844	3	FOXA3	19	46376101	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	520196	46376101	12752882	1296	12971											
IGFL4	444882	broad.mit.edu	37	chr19	46543646	46543646	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccactccccgcacctgggCgctggctggcatagccacag	6	6	12	17	2	0	0	0	0	0	0	2	0	2	0	5	3	1	4	5	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:46543646C>T	uc002pdy.1	-	3	153	c.99G>A	c.(97-99)GCG>GCA	p.A33A		NM_001002923	NP_001002923	Q6B9Z1	IGFL4_HUMAN	IGF-like family member 4 precursor	33						extracellular region					0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.0036)|GBM - Glioblastoma multiforme(486;0.022)|Epithelial(262;0.208)		CGCACCTGGGCGCTGGCTGGC	0.602													8	38					0	0	1	0	0		T	46543646	T	T	46543646	2	4	16	1	0	0	0	0	0	0	0	1	7605	755	27	1		1	IGFL4	19	46543646	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	167545	46543646	12585337	1297	12972											
PPP5C	5536	broad.mit.edu	37	chr19	46857048	46857048	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagttctacagccaggccatCgagctgaaccccagcaatgc	12	6	9	14	1	1	1	0	1	1	0	2	2	1	1	4	1	6	3	4	1	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:46857048C>T	uc002pem.2	+	2	225	c.165C>T	c.(163-165)ATC>ATT	p.I55I	PPP5C_uc010xya.1_5'UTR|PPP5C_uc002pen.2_Silent_p.I55I	NM_006247	NP_006238	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	55	TPR 1.				mitosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein dephosphorylation|transcription, DNA-dependent	Golgi apparatus|nucleus	metal ion binding|protein binding|protein serine/threonine phosphatase activity|signal transducer activity			lung(1)|pancreas(1)	2		Ovarian(192;0.0731)|all_neural(266;0.196)		OV - Ovarian serous cystadenocarcinoma(262;0.000196)|all cancers(93;0.00192)|GBM - Glioblastoma multiforme(486;0.0499)|Epithelial(262;0.0504)		GCCAGGCCATCGAGCTGAACC	0.617													13	24					0	0	1	0	0		T	46857048	T	T	46857048	2	4	16	1	0	0	0	0	0	0	0	1	12428	874	31	1		1	PPP5C	19	46857048	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	313402	46857048	12271935	1298	12973											
PNMAL1	55228	broad.mit.edu	37	chr19	46973945	46973945	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcccaggtgcgcccctcGgcatccaggaattcattcag	7	9	9	16	2	2	0	2	0	0	0	6	1	5	1	5	3	1	1	5	3	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:46973945G>A	uc002peq.3	-	2	654	c.348C>T	c.(346-348)GCC>GCT	p.A116A	PNMAL1_uc002per.3_Silent_p.A116A	NM_018215	NP_060685	Q86V59	PNML1_HUMAN	PNMA-like 1 isoform a	116											0		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000166)|all cancers(93;0.0014)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		tgcgcccctcggcatccagga	0													15	43					0	0	1	0	0		A	46973945	A	A	46973945	2	1	16	1	0	0	0	0	0	0	0	1	12176	1103	39	1		1	PNMAL1	19	46973945	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	116897	46973945	12155038	1299	12974											
SLC8A2	6543	broad.mit.edu	37	chr19	47951332	47951332	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgccccttgggccgcccGccgccgtccggctcgaacat	4	5	12	20	7	0	0	0	0	0	0	2	1	1	0	8	2	2	1	8	2	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:47951332G>A	uc002pgx.2	-	4	1775	c.1497C>T	c.(1495-1497)GGC>GGT	p.G499G	SLC8A2_uc010xyq.1_Silent_p.G255G|SLC8A2_uc010xyr.1_Intron|SLC8A2_uc010ele.2_Silent_p.G499G	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	499	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		TGGGCCGCCCGCCGCCGTCCG	0.687													3	4					0	0	1	0	0		A	47951332	A	A	47951332	2	1	16	1	0	0	0	0	0	0	0	1	14732	1074	38	1		1	SLC8A2	19	47951332	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	977387	47951332	11177651	1300	12975											
FAM83E	54854	broad.mit.edu	37	chr19	49107038	49107038	+	Frame_Shift_Del	DEL	G	-	-																															acctatgaccgagggtttctGggggggcgcaggtgggagcg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:49107038delG	uc002pjn.2	-	4	954	c.889delC	c.(889-891)CAGfs	p.Q297fs	SPACA4_uc002pjo.2_5'Flank	NM_017708	NP_060178	Q2M2I3	FA83E_HUMAN	hypothetical protein LOC54854	297										ovary(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		GAGGGTTTCTGGGGGGGCGCA	0.721													9	16	---	---	---	---						.	-	49107038	-	-	49107038	7	5	16	1	0	1	0	1	0	0	0	0	5651	1357	47	0	555	0	FAM83E	19	49107038	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	1155706	49107038	10021945	1301	12976											
PLEKHA4	57664	broad.mit.edu	37	chr19	49362226	49362226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtcgggagagggtctggCgttgggggccccaatccaga	6	6	20	9	2	1	2	0	0	1	2	3	3	2	2	3	7	0	1	3	7	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:49362226C>T	uc002pkx.2	-	8	1414	c.863G>A	c.(862-864)CGC>CAC	p.R288H	PLEKHA4_uc002pkw.1_Intron|PLEKHA4_uc010eml.2_Missense_Mutation_p.R288H	NM_020904	NP_065955	Q9H4M7	PKHA4_HUMAN	pleckstrin homology domain containing family A	288	Pro-rich.					cytoplasm|membrane	1-phosphatidylinositol binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;0.000108)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.00027)|all cancers(93;0.00084)|GBM - Glioblastoma multiforme(486;0.0244)|Epithelial(262;0.0364)		GAGGGTCTGGCGTTGGGGGCC	0.692													14	22					0	0	1	0	0		T	49362226	T	T	49362226	3	4	16	1	0	0	0	0	1	0	0	0	12077	768	27	1	1528	1	PLEKHA4	19	49362226	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	255188	49362226	9766757	1302	12977											
PLEKHA4	57664	broad.mit.edu	37	chr19	49368837	49368837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcctctcttcccaaaggCgtggatcttgtttactgccc	6	14	8	13	1	2	0	0	0	2	0	4	1	3	1	3	2	3	1	3	2	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:49368837C>T	uc002pkx.2	-	3	666	c.115G>A	c.(115-117)GCC>ACC	p.A39T	PLEKHA4_uc010eml.2_Missense_Mutation_p.A39T	NM_020904	NP_065955	Q9H4M7	PKHA4_HUMAN	pleckstrin homology domain containing family A	39						cytoplasm|membrane	1-phosphatidylinositol binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;0.000108)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.00027)|all cancers(93;0.00084)|GBM - Glioblastoma multiforme(486;0.0244)|Epithelial(262;0.0364)		TTCCCAAAGGCGTGGATCTTG	0.587													12	30					0	0	1	0	0		T	49368837	T	T	49368837	3	4	16	1	0	0	0	0	1	0	0	0	12077	768	27	1	2296	1	PLEKHA4	19	49368837	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6611	49368837	9760146	1303	12978											
RUVBL2	10856	broad.mit.edu	37	chr19	49510397	49510397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccggcggtccatcggcgttCgcatcaagtaagcgggggac	7	7	15	12	6	1	0	1	0	0	0	5	1	3	1	2	5	1	3	2	5	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:49510397C>T	uc002plr.1	+	5	401	c.388C>T	c.(388-390)CGC>TGC	p.R130C	RUVBL2_uc002plq.1_Missense_Mutation_p.R85C|RUVBL2_uc010yab.1_Missense_Mutation_p.R130C|RUVBL2_uc002pls.1_RNA|RUVBL2_uc010emn.1_Missense_Mutation_p.R85C|RUVBL2_uc010yac.1_Missense_Mutation_p.R85C	NM_006666	NP_006657	Q9Y230	RUVB2_HUMAN	RuvB-like 2	130					cellular response to UV|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|protein folding|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|membrane|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|ATP-dependent DNA helicase activity|damaged DNA binding|identical protein binding|unfolded protein binding				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000449)|OV - Ovarian serous cystadenocarcinoma(262;0.000555)|GBM - Glioblastoma multiforme(486;0.00585)|Epithelial(262;0.047)		CATCGGCGTTCGCATCAAGTA	0.657													14	25					0	0	1	0	0		T	49510397	T	T	49510397	3	4	16	1	0	0	0	0	1	0	0	0	13778	884	31	1	406	1	RUVBL2	19	49510397	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	141560	49510397	9618586	1304	12979											
KCNA7	3743	broad.mit.edu	37	chr19	49573446	49573446	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaaggctgcatgtccacAtggctgaacatcccagcctc	10	7	8	16	0	0	1	0	1	0	0	3	1	2	1	4	2	3	3	4	2	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:49573446A>G	uc002pmg.2	-	2	1601	c.1245T>C	c.(1243-1245)CAT>CAC	p.H415H		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	415						voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)		GCATGTCCACATGGCTGAACA	0.602													10	27					0	0	1	0	0		G	49573446	G	G	49573446	2	3	16	1	0	0	0	0	0	0	0	1	8024	214	8	3		3	KCNA7	19	49573446	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	63049	49573446	9555537	1305	12980											
PRMT1	3276	broad.mit.edu	37	chr19	50189896	50189896	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacacgcactggaagcagacGgtgttctacatggaggacta	12	8	12	9	2	1	1	0	0	1	1	1	4	1	4	0	4	3	3	0	4	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:50189896G>A	uc010enf.1	+	10	987	c.945G>A	c.(943-945)ACG>ACA	p.T315T	PRMT1_uc002ppc.1_RNA|PRMT1_uc002ppd.2_Silent_p.T291T|PRMT1_uc002ppe.2_Silent_p.T297T|PRMT1_uc002ppf.2_RNA|PRMT1_uc002ppg.2_Silent_p.T262T|PRMT1_uc010ybb.1_5'Flank|C19orf76_uc002pph.2_5'Flank	NM_001536	NP_001527	Q8WUW5	Q8WUW5_HUMAN	HMT1 hnRNP methyltransferase-like 2 isoform 1	296						cytoplasm	protein methyltransferase activity			ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00103)|GBM - Glioblastoma multiforme(134;0.012)		GGAAGCAGACGGTGTTCTACA	0.687													12	24					0	0	1	0	0		A	50189896	A	A	50189896	2	1	16	1	0	0	0	0	0	0	0	1	12557	1103	39	1		1	PRMT1	19	50189896	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	616450	50189896	8939087	1306	12981											
ZNF473	25888	broad.mit.edu	37	chr19	50542512	50542512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacacgttctgggacacagCgttggacaattgccaggacc	10	7	13	11	2	1	0	0	0	1	0	1	4	1	4	2	4	2	2	2	4	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:50542512C>T	uc002prn.2	+	3	341	c.104C>T	c.(103-105)GCG>GTG	p.A35V	ZNF473_uc002prm.2_Missense_Mutation_p.A35V|ZNF473_uc010ybo.1_Missense_Mutation_p.A23V	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	35	KRAB.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		TGGGACACAGCGTTGGACAAT	0.582													18	66					0	0	1	0	0		T	50542512	T	T	50542512	3	4	16	1	0	0	0	0	1	0	0	0	17956	768	27	1	110	1	ZNF473	19	50542512	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	352616	50542512	8586471	1307	12982											
ZNF473	25888	broad.mit.edu	37	chr19	50545072	50545072	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaagcccagaagcaacaagCcctggtgagtggatggagag	13	4	16	8	0	0	3	0	1	0	2	0	6	0	5	2	4	4	1	2	4	4	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:50545072C>T	uc002prn.2	+	4	459	c.222C>T	c.(220-222)AGC>AGT	p.S74S	ZNF473_uc002prm.2_Silent_p.S74S|ZNF473_uc010ybo.1_Silent_p.S62S	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	74	KRAB.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		AAGCAACAAGCCCTGGTGAGT	0.587													11	31					0	0	1	0	0		T	50545072	T	T	50545072	2	4	16	1	0	0	0	0	0	0	0	1	17956	738	26	2		2	ZNF473	19	50545072	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2560	50545072	8583911	1308	12983											
GPR32	2854	broad.mit.edu	37	chr19	51274765	51274765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catcctccaggctagctttgCcttgggctgtgtcaacagca	7	11	10	13	0	1	0	1	0	0	0	3	0	3	0	3	2	4	4	3	2	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:51274765C>T	uc010ycf.1	+	1	908	c.908C>T	c.(907-909)GCC>GTC	p.A303V		NM_001506	NP_001497	O75388	GPR32_HUMAN	G protein-coupled receptor 32	303	Helical; Name=7; (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		GCTAGCTTTGCCTTGGGCTGT	0.542													19	42					0	0	1	0	0		T	51274765	T	T	51274765	3	4	16	1	0	0	0	0	1	0	0	0	6703	739	26	2	910	2	GPR32	19	51274765	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	729693	51274765	7854218	1309	12984											
ZNF761	388561	broad.mit.edu	37	chr19	53950474	53950474	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttctaaagactcttggtaCgtgaggaagaaacccggaag	14	8	11	8	2	2	3	0	1	2	2	2	5	2	5	1	3	2	1	1	3	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:53950474C>T	uc010eqp.2	+	4	411	c.-47C>T	c.(-49--45)TACGT>TATGT		ZNF761_uc002qbr.2_RNA|ZNF761_uc010ydy.1_Translation_Start_Site|ZNF761_uc002qbs.2_RNA|ZNF761_uc002qbt.1_5'Flank	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		ACTCTTGGTACGTGAGGAAGA	0.433													29	70					0	0	1	0	0		T	53950474	T	T	53950474	1	4	16	1	0	0	0	0	0	0	0	0	18161	551	19	1		1	ZNF761	19	53950474	Translation_Start_Site	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2675709	53950474	5178509	1310	12985											
MBOAT7	79143	broad.mit.edu	37	chr19	54682578	54682578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgcatgccatcgcgcaccCgcacgcagaaatctgtgctg	9	6	10	16	5	1	1	0	0	1	1	2	1	1	1	3	0	2	5	3	0	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:54682578C>T	uc002qdq.2	-	8	1201	c.935G>A	c.(934-936)CGG>CAG	p.R312Q	MBOAT7_uc010erg.2_5'UTR|MBOAT7_uc010yem.1_Missense_Mutation_p.R294Q|MBOAT7_uc002qdr.2_Missense_Mutation_p.R312Q|MBOAT7_uc002qds.2_Missense_Mutation_p.R239Q|MBOAT7_uc010yen.1_Missense_Mutation_p.R239Q|MBOAT7_uc002qdt.3_Missense_Mutation_p.R312Q	NM_024298	NP_077274	Q96N66	MBOA7_HUMAN	membrane bound O-acyltransferase domain	312					phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					ATCGCGCACCCGCACGCAGAA	0.587													14	19					0	0	1	0	0		T	54682578	T	T	54682578	3	4	16	1	0	0	0	0	1	0	0	0	9376	652	23	1	495	1	MBOAT7	19	54682578	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	732104	54682578	4446405	1311	12986											
LILRB3	11025	broad.mit.edu	37	chr19	54720983	54720983	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagtggatggccagagtggcGtagatgctgggctcagctgg	7	9	18	7	1	1	2	1	0	0	2	1	3	1	3	1	5	2	4	1	5	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:54720983G>A	uc002qef.1	-	13	1986	c.1875C>T	c.(1873-1875)TAC>TAT	p.Y625Y	LILRB3_uc002qee.1_Silent_p.Y626Y|LILRB3_uc002qeh.1_Silent_p.Y625Y|LILRB3_uc002qeg.1_RNA|LILRB3_uc002qei.1_Silent_p.Y625Y|LILRA6_uc002qek.1_Silent_p.Y626Y|LILRB3_uc010erh.1_Silent_p.Y642Y|LILRB3_uc002qej.1_RNA|LILRA6_uc002qel.1_Silent_p.Y625Y|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Silent_p.Y626Y|LILRB3_uc002qep.1_Silent_p.Y626Y|LILRB3_uc002qeq.1_Silent_p.Y625Y|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Silent_p.Y626Y	NM_006864	NP_006855	O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor,	625	ITIM motif 3.|Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	transmembrane receptor activity			skin(2)|ovary(1)	3	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CCAGAGTGGCGTAGATGCTGG	0.627													21	44					0	0	1	0	0		A	54720983	A	A	54720983	2	1	16	1	0	0	0	0	0	0	0	1	8808	1140	40	1		1	LILRB3	19	54720983	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	38405	54720983	4408000	1312	12987											
LILRA5	353514	broad.mit.edu	37	chr19	54822823	54822823	+	Frame_Shift_Del	DEL	G	-	-																															agggcctggaactgcccactGggggtcagctgtgagtccaa																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:54822823delG	uc002qfe.2	-	5	693	c.573delC	c.(571-573)CCCfs	p.P191fs	LILRA5_uc002qff.2_Frame_Shift_Del_p.P179fs|LILRA5_uc010yev.1_Frame_Shift_Del_p.P191fs|LILRA5_uc010yew.1_Frame_Shift_Del_p.P179fs|LILRA5_uc002qfh.1_Frame_Shift_Del_p.P179fs|LILRA5_uc002qfg.1_Frame_Shift_Del_p.P191fs	NM_021250	NP_067073	A6NI73	LIRA5_HUMAN	leukocyte immunoglobulin-like receptor subfamily	191	Extracellular (Potential).|Ig-like C2-type 2.				innate immune response	extracellular region|integral to membrane	receptor activity			upper_aerodigestive_tract(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		ACTGCCCACTGGGGGTCAGCT	0.592													18	37	---	---	---	---						.	-	54822823	-	-	54822823	7	5	16	1	0	1	0	1	0	0	0	0	8804	1335	47	0	424	0	LILRA5	19	54822823	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	101840	54822823	4306160	1313	12988											
NCR1	9437	broad.mit.edu	37	chr19	55420752	55420752	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccacgtacagcgcggataCgggaaggtccaggcggagtt	10	5	16	10	5	0	0	0	0	0	0	1	3	1	3	2	5	4	2	2	5	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:55420752C>T	uc002qib.2	+	4	542	c.504C>T	c.(502-504)TAC>TAT	p.Y168Y	NCR1_uc002qic.2_Silent_p.Y168Y|NCR1_uc002qie.2_Silent_p.Y168Y|NCR1_uc002qid.2_Silent_p.Y73Y|NCR1_uc002qif.2_Silent_p.Y73Y|NCR1_uc010esj.2_Silent_p.Y61Y	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1	168	Extracellular (Potential).|Ig-like 2.				cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		AGCGCGGATACGGGAAGGTCC	0.567													20	50					0	0	1	0	0		T	55420752	T	T	55420752	2	4	16	1	0	0	0	0	0	0	0	1	10256	547	19	1		1	NCR1	19	55420752	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	597929	55420752	3708231	1314	12989											
NLRP2	55655	broad.mit.edu	37	chr19	55494974	55494974	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacttaaatgcagtagaCgttgtgccatcttcattctg	9	14	8	10	1	3	1	1	0	2	1	3	1	3	1	1	0	3	4	1	0	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:55494974C>T	uc002qij.2	+	6	1994	c.1908C>T	c.(1906-1908)GAC>GAT	p.D636D	NLRP2_uc010yfp.1_Silent_p.D613D|NLRP2_uc010esn.2_Silent_p.D612D|NLRP2_uc010eso.2_Silent_p.D633D|NLRP2_uc010esp.2_Silent_p.D614D	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	636					apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		ATGCAGTAGACGTTGTGCCAT	0.498													19	27					0	0	1	0	0		T	55494974	T	T	55494974	2	4	16	1	0	0	0	0	0	0	0	1	10496	535	19	1		1	NLRP2	19	55494974	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	74222	55494974	3634009	1315	12990											
NLRP9	338321	broad.mit.edu	37	chr19	56243922	56243922	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatacccacccacatcacGccctcagactcagataaccc	12	6	3	20	1	4	2	4	0	0	2	4	2	4	2	4	0	2	0	4	0	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:56243922G>A	uc002qly.2	-	2	1303	c.1275C>T	c.(1273-1275)GGC>GGT	p.G425G		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	425	NACHT.		G -> D (in a breast cancer sample; somatic mutation).			cytoplasm	ATP binding	p.G425D(1)		skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		CCCACATCACGCCCTCAGACT	0.473													45	115					0	0	1	0	0		A	56243922	A	A	56243922	2	1	16	1	0	0	0	0	0	0	0	1	10503	1074	38	1		1	NLRP9	19	56243922	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	748948	56243922	2885061	1316	12991											
PEG3	5178	broad.mit.edu	37	chr19	57333110	57333110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaggaagggaaagatccCgcggaggcatccctgggaag	12	3	15	11	2	0	1	0	0	0	1	2	5	2	5	3	5	0	1	3	5	3	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:57333110C>T	uc002qnu.2	-	4	929	c.578G>A	c.(577-579)CGG>CAG	p.R193Q	ZIM2_uc010ygq.1_5'UTR|ZIM2_uc010ygr.1_5'UTR|ZIM2_uc002qnr.2_Missense_Mutation_p.R68Q|ZIM2_uc002qnq.2_Missense_Mutation_p.R68Q|ZIM2_uc010etp.2_Missense_Mutation_p.R68Q|ZIM2_uc010ygs.1_Missense_Mutation_p.R68Q|PEG3_uc002qnt.2_Missense_Mutation_p.R194Q|PEG3_uc002qnv.2_Missense_Mutation_p.R193Q|PEG3_uc002qnw.2_Missense_Mutation_p.R68Q|PEG3_uc002qnx.2_Missense_Mutation_p.R67Q|PEG3_uc010etr.2_Missense_Mutation_p.R193Q	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	193					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.R193W(1)		ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GGAAAGATCCCGCGGAGGCAT	0.542													41	100					0	0	1	0	0		T	57333110	T	T	57333110	3	4	16	1	0	0	0	0	1	0	0	0	11739	652	23	1	4207	1	PEG3	19	57333110	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1089188	57333110	1795873	1317	12992											
ZNF543	125919	broad.mit.edu	37	chr19	57839932	57839932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acactggagtgaaaccctttGaatgcaacgagtgtggaaaa	15	8	11	7	1	0	2	0	2	0	0	0	5	0	4	1	2	3	1	1	2	5	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:57839932G>A	uc002qoi.1	+	4	1447	c.1102G>A	c.(1102-1104)GAA>AAA	p.E368K		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	368	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GAAACCCTTTGAATGCAACGA	0.507													31	60					0	0	1	0	0		A	57839932	A	A	57839932	3	1	16	1	0	0	0	0	1	0	0	0	18001	1291	45	4	1116	4	ZNF543	19	57839932	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	506822	57839932	1289051	1318	12993											
ZNF17	7565	broad.mit.edu	37	chr19	57931842	57931842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaaattcatactggagaaCggccttatggatgcaatgaa	16	9	10	6	1	1	3	1	1	0	2	1	5	1	4	1	3	3	1	1	3	7	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:57931842C>T	uc002qoo.1	+	3	1213	c.982C>T	c.(982-984)CGG>TGG	p.R328W	ZNF547_uc002qpm.3_Intron|ZNF17_uc002qop.1_Missense_Mutation_p.R330W	NM_006959	NP_008890	P17021	ZNF17_HUMAN	zinc finger protein 17	328					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0234)|GBM - Glioblastoma multiforme(193;0.000426)|Lung(386;0.176)		TACTGGAGAACGGCCTTATGG	0.443													32	40					0	0	1	0	0		T	57931842	T	T	57931842	3	4	16	1	0	0	0	0	1	0	0	0	17768	527	19	1	992	1	ZNF17	19	57931842	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	91910	57931842	1197141	1319	12994											
ZNF549	256051	broad.mit.edu	37	chr19	58048866	58048866	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacatcagaaaggaggagaGcagtgccttgcttctgaata	14	8	11	8	0	2	3	1	1	1	2	2	5	2	4	1	2	3	2	1	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:58048866G>T	uc002qpb.1	+	4	743	c.494G>T	c.(493-495)AGC>ATC	p.S165I	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF549_uc002qpa.1_Missense_Mutation_p.S152I	NM_153263	NP_694995	Q6P9A3	ZN549_HUMAN	zinc finger protein 549	165					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AAGGAGGAGAGCAGTGCCTTG	0.463													31	53					3.80469e-20	4.13402e-20	1	1	0		T	58048866	T	T	58048866	3	4	16	1	0	0	0	0	1	0	0	0	18006	971	34	5	465	5	ZNF549	19	58048866	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	117024	58048866	1080117	1320	12995											
ZNF416	55659	broad.mit.edu	37	chr19	58083691	58083691	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttggataaaggatttcccGcactgtccacagtcgtaagg	10	12	10	9	2	0	0	0	0	0	0	3	2	2	2	2	3	0	2	2	3	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:58083691G>A	uc002qpf.2	-	4	1752	c.1581C>T	c.(1579-1581)TGC>TGT	p.C527C	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	527	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		AGGATTTCCCGCACTGTCCAC	0.438													33	64					0	0	1	0	0		A	58083691	A	A	58083691	2	1	16	1	0	0	0	0	0	0	0	1	17918	1079	38	1		1	ZNF416	19	58083691	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	34825	58083691	1045292	1321	12996											
SLC27A5	10998	broad.mit.edu	37	chr19	59011792	59011792	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccagctcaaagggggacAgcatctggggtggagggtgg	9	5	19	8	0	2	0	1	0	1	0	2	2	2	2	1	7	2	3	1	7	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr19:59011792A>G	uc002qtc.2	-	6	1492	c.1382T>C	c.(1381-1383)CTG>CCG	p.L461P	SLC27A5_uc002qtb.2_5'Flank	NM_012254	NP_036386	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid	461	Cytoplasmic (Probable).				bile acid and bile salt transport|bile acid biosynthetic process|very long-chain fatty acid metabolic process	endoplasmic reticulum membrane|integral to membrane	ATP binding|cholate-CoA ligase activity|long-chain fatty acid-CoA ligase activity				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.181)		AAAGGGGGACAGCATCTGGGG	0.622													13	41					0	0	1	0	0		G	59011792	G	G	59011792	3	3	16	1	0	0	0	0	1	0	0	0	14554	188	7	3	710	3	SLC27A5	19	59011792	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	928101	59011792	117191	1322	12997											
RBCK1	10616	broad.mit.edu	37	chr20	409650	409652	+	In_Frame_Del	DEL	AGA	-	-																															ccagtgccagatcgtggtacAgaagaaggacggctgcgact																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:409650_409652delAGA	uc002wdp.3	+	11	2057_2059	c.1364_1366delAGA	c.(1363-1368)CAGAAG>CAG	p.K457del	RBCK1_uc002wdq.3_In_Frame_Del_p.K415del|RBCK1_uc010fzy.2_RNA|RBCK1_uc002wdr.3_In_Frame_Del_p.K287del	NM_031229	NP_112506	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing	457	IBR-type 2.				interspecies interaction between organisms|negative regulation of NF-kappaB transcription factor activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|proteasomal ubiquitin-dependent protein catabolic process|protein linear polyubiquitination|T cell receptor signaling pathway	LUBAC complex	protein binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)				ATCGTGGTACAGAAGAAGGACGG	0.685													10	19	---	---	---	---						.	-	409652	-	-	409650	7	5	16	1	0	1	0	1	0	0	0	0	13132	188	7	0	1425	0	RBCK1	20	409650	In_Frame_Del	DEL	AGA	TCGA-BR-4292-01A-01D-1126-08		409650	62615870	1323	12998											
PSMF1	9491	broad.mit.edu	37	chr20	1106263	1106263	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttgtgaaagccatcacCgtggagagcagcatgatcct	10	9	10	12	1	1	3	1	2	0	1	3	4	3	3	4	1	3	2	4	1	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:1106263C>T	uc002wel.3	+	3	420	c.252C>T	c.(250-252)ACC>ACT	p.T84T	PSMF1_uc010zpo.1_5'UTR|PSMF1_uc002wem.3_Silent_p.T84T|PSMF1_uc010zpp.1_Silent_p.T84T|PSMF1_uc002wen.3_Silent_p.T84T	NM_178578	NP_848693	Q92530	PSMF1_HUMAN	proteasome inhibitor subunit 1	84					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome core complex	endopeptidase inhibitor activity|protein binding				0						AAGCCATCACCGTGGAGAGCA	0.493													13	40					0	0	1	0	0		T	1106263	T	T	1106263	2	4	16	1	0	0	0	0	0	0	0	1	12732	639	23	1		1	PSMF1	20	1106263	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	696613	1106263	61919257	1324	12999											
VPS16	64601	broad.mit.edu	37	chr20	2840378	2840378	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggcaggaaatatgagctgTacagcatggactgggacctg	11	8	15	7	0	0	1	0	1	0	0	0	4	0	4	1	4	3	4	1	4	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:2840378T>C	uc002whe.2	+	2	115	c.67T>C	c.(67-69)TAC>CAC	p.Y23H	VPS16_uc002whf.2_Missense_Mutation_p.Y23H|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	23					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						ATATGAGCTGTACAGCATGGA	0.542													8	320					0	0	1	0	0		C	2840378	C	C	2840378	3	2	16	1	0	0	0	0	1	0	0	0	17219	1638	57	3	73	3	VPS16	20	2840378	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1734115	2840378	60185142	1325	13000											
ProSAPiP1	9762	broad.mit.edu	37	chr20	3146842	3146842	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactcccactcccacccgcTggagtcatggtccgagactt	7	8	8	18	2	1	1	1	0	0	1	4	3	4	2	5	2	0	1	5	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:3146842T>C	uc002wia.1	-	2	2022	c.624A>G	c.(622-624)CCA>CCG	p.P208P	ProSAPiP1_uc002wib.1_Silent_p.P208P	NM_014731	NP_055546	O60299	PRIP1_HUMAN	ProSAPiP1 protein	208						cell junction|cytoplasm|postsynaptic density|postsynaptic membrane				pancreas(1)	1						TCCCACCCGCTGGAGTCATGG	0.642													4	3					0	0	1	0	0		C	3146842	C	C	3146842	2	2	16	1	0	0	0	0	0	0	0	1	12895	1567	55	3		3	ProSAPiP1	20	3146842	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	306464	3146842	59878678	1326	13001											
ATRN	8455	broad.mit.edu	37	chr20	3565398	3565398	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcaaagggaaatgcatagagGgttcctataaaggaccagtg	15	7	13	6	0	0	1	0	0	0	1	1	3	1	3	2	3	1	3	2	3	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:3565398G>T	uc002wim.2	+	18	3145	c.3055G>T	c.(3055-3057)GGT>TGT	p.G1019C	ATRN_uc002wil.2_Missense_Mutation_p.G1019C	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	1019	Extracellular (Potential).|PSI 4.				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						ATGCATAGAGGGTTCCTATAA	0.493													23	45					7.41877e-09	7.746e-09	1	1	0		T	3565398	T	T	3565398	3	4	16	1	0	0	0	0	1	0	0	0	1207	1232	43	5	3125	5	ATRN	20	3565398	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	418556	3565398	59460122	1327	13002											
SMOX	54498	broad.mit.edu	37	chr20	4164164	4164164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accccaacattccaaaacctCggcgaatcttgcgctcggcc	10	7	7	17	4	1	0	0	0	1	0	4	1	2	0	5	2	3	1	5	2	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:4164164C>T	uc002wkm.1	+	6	1594	c.1393C>T	c.(1393-1395)CGG>TGG	p.R465W	SMOX_uc002wkk.1_Missense_Mutation_p.R412W|SMOX_uc002wkl.1_Missense_Mutation_p.R412W|SMOX_uc002wkn.1_Intron|SMOX_uc002wkp.2_Missense_Mutation_p.R465W|SMOX_uc010zqo.1_Missense_Mutation_p.R389W|SMOX_uc002wko.1_Missense_Mutation_p.R465W	NM_175839	NP_787033	Q9NWM0	SMOX_HUMAN	spermine oxidase isoform 1	465					polyamine biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	polyamine oxidase activity			breast(1)	1					Spermine(DB00127)	TCCAAAACCTCGGCGAATCTT	0.567													12	99					0	0	1	0	0		T	4164164	T	T	4164164	3	4	16	1	0	0	0	0	1	0	0	0	14828	875	31	1	1411	1	SMOX	20	4164164	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	598766	4164164	58861356	1328	13003											
SLC23A2	9962	broad.mit.edu	37	chr20	4843454	4843454	+	Frame_Shift_Del	DEL	C	-	-																															gcagaacagggctcccagcaCaggatccggaagggacgcaa																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:4843454delC	uc002wlg.1	-	14	1831	c.1456delG	c.(1456-1458)GTGfs	p.V486fs	SLC23A2_uc010zqr.1_Frame_Shift_Del_p.V371fs|SLC23A2_uc002wlh.1_Frame_Shift_Del_p.V486fs	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	486	Helical; (Potential).				L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						GCTCCCAGCACAGGATCCGGA	0.552													40	64	---	---	---	---						.	-	4843454	-	-	4843454	7	5	16	1	0	1	0	1	0	0	0	0	14488	478	17	0	512	0	SLC23A2	20	4843454	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	679290	4843454	58182066	1329	13004											
SNAP25	6616	broad.mit.edu	37	chr20	10277684	10277684	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagatggccatcagtggCggcttcatccgcaggtgagc	8	7	15	11	2	2	2	2	1	0	1	3	3	3	2	2	4	2	3	2	4	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:10277684C>T	uc002wnq.1	+	6	605	c.393C>T	c.(391-393)GGC>GGT	p.G131G	SNAP25_uc002wnr.1_Silent_p.G131G|SNAP25_uc002wns.1_Silent_p.G68G|SNAP25_uc010gca.1_Silent_p.G131G|SNAP25_uc010gcb.1_Silent_p.G68G|SNAP25_uc010gcc.1_Intron	NM_130811	NP_570824	P60880	SNP25_HUMAN	synaptosomal-associated protein 25 isoform	131					energy reserve metabolic process|glutamate secretion|neurotransmitter uptake|synaptic vesicle docking involved in exocytosis	cell junction|growth cone|perinuclear region of cytoplasm|synapse|synaptosome				skin(2)	2					Botulinum Toxin Type A(DB00083)	CCATCAGTGGCGGCTTCATCC	0.403													6	17					0	0	1	0	0		T	10277684	T	T	10277684	2	4	16	1	0	0	0	0	0	0	0	1	14855	755	27	1		1	SNAP25	20	10277684	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5434230	10277684	52747836	1330	13005											
JAG1	182	broad.mit.edu	37	chr20	10622442	10622442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcctacctttgagcaggCgatccgtccattcaggcact	8	11	9	13	2	1	1	1	1	0	0	4	2	4	1	4	2	2	2	4	2	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:10622442C>T	uc002wnw.2	-	22	3187	c.2671G>A	c.(2671-2673)GCC>ACC	p.A891T	JAG1_uc010gcd.1_Missense_Mutation_p.A449T	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	891	Extracellular (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						TTTGAGCAGGCGATCCGTCCA	0.527									Alagille_Syndrome				46	105					0	0	1	0	0		T	10622442	T	T	10622442	3	4	16	1	0	0	0	0	1	0	0	0	7950	768	27	1	1005	1	JAG1	20	10622442	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	344758	10622442	52403078	1331	13006											
ISM1	140862	broad.mit.edu	37	chr20	13260483	13260483	+	Frame_Shift_Del	DEL	G	-	-																															caacttcctcaacccccccaGggggtgggaccatacagccc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:13260483delG	uc010gce.1	+	3	587	c.581delG	c.(580-582)AGGfs	p.R194fs	TASP1_uc010zri.1_Intron	NM_080826	NP_543016	B1AKI9	ISM1_HUMAN	isthmin 1 homolog precursor	194						extracellular region					0						AACCCCCCCAGGGGGTGGGAC	0.542													20	37	---	---	---	---						.	-	13260483	-	-	13260483	7	5	16	1	0	1	0	1	0	0	0	0	7876	1000	35	0	591	0	ISM1	20	13260483	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	2638041	13260483	49765037	1332	13007											
FLRT3	23767	broad.mit.edu	37	chr20	14308191	14308191	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttatacaaggtagcttccGttacttcagaaccctaaaat	13	13	5	10	1	1	1	1	0	0	1	2	1	2	1	2	1	4	3	2	1	8	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:14308191G>A	uc002wov.1	-	3	429	c.-38C>T	c.(-40--36)AACGG>AATGG		MACROD2_uc002wot.2_Intron|MACROD2_uc002wou.2_Intron|FLRT3_uc002wow.1_Translation_Start_Site	NM_198391	NP_938205	Q9NZU0	FLRT3_HUMAN	fibronectin leucine rich transmembrane protein 3						cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			kidney(1)	1		Colorectal(1;0.0464)	COAD - Colon adenocarcinoma(2;0.129)	Colorectal(1;0.0393)		GGTAGCTTCCGTTACTTCAGA	0.388													4	16					0	0	1	0	0		A	14308191	A	A	14308191	1	1	16	1	0	0	0	0	0	0	0	0	5954	1160	40	1		1	FLRT3	20	14308191	Translation_Start_Site	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1047708	14308191	48717329	1333	13008											
OTOR	56914	broad.mit.edu	37	chr20	16729527	16729527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagatactatttctctggCtagtgctcaagaagattata	12	14	7	8	0	2	3	1	0	1	3	4	3	3	3	1	1	2	2	1	1	7	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:16729527C>T	uc002wpj.2	+	2	175	c.131C>T	c.(130-132)GCT>GTT	p.A44V	OTOR_uc002wpk.2_5'Flank	NM_020157	NP_064542	Q9NRC9	OTOR_HUMAN	otoraplin precursor	44	SH3.				sensory perception of sound	extracellular region				ovary(1)|central_nervous_system(1)	2						ATTTCTCTGGCTAGTGCTCAA	0.323													7	27					0	0	1	0	0		T	16729527	T	T	16729527	3	4	16	1	0	0	0	0	1	0	0	0	11327	797	28	2	137	2	OTOR	20	16729527	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2421336	16729527	46295993	1334	13009											
PCSK2	5126	broad.mit.edu	37	chr20	17462676	17462676	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagagctggacgaagcCgtggagagaagcctgaaaag	15	3	17	6	2	0	3	0	1	0	2	0	9	0	6	2	3	3	1	2	3	5	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:17462676C>T	uc002wpm.2	+	12	2198	c.1878C>T	c.(1876-1878)GCC>GCT	p.A626A	PCSK2_uc002wpl.2_Silent_p.A607A|PCSK2_uc010zrm.1_Silent_p.A591A|PCSK2_uc002wpn.2_Silent_p.A280A	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	626					enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TGGACGAAGCCGTGGAGAGAA	0.592													13	33					0	0	1	0	0		T	17462676	T	T	17462676	2	4	16	1	0	0	0	0	0	0	0	1	11620	639	23	1		1	PCSK2	20	17462676	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	733149	17462676	45562844	1335	13010											
CSRP2BP	57325	broad.mit.edu	37	chr20	18143418	18143418	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaactgattgtcagacaagcGaaaagggataggggattacc	16	7	12	6	1	1	2	1	1	0	1	1	5	1	4	1	3	3	0	1	3	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:18143418G>A	uc002wqj.2	+	7	2122	c.1500G>A	c.(1498-1500)GCG>GCA	p.A500A	CSRP2BP_uc002wqk.2_Silent_p.A372A|CSRP2BP_uc010zru.1_Silent_p.A371A	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	500					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						TCAGACAAGCGAAAAGGGATA	0.468													55	113					0	0	1	0	0		A	18143418	A	A	18143418	2	1	16	1	0	0	0	0	0	0	0	1	3971	1045	37	1		1	CSRP2BP	20	18143418	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	680742	18143418	44882102	1336	13011											
ZNF133	7692	broad.mit.edu	37	chr20	18296783	18296783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccctcatctctcacaggCggacacacactggggagaag	12	5	10	14	1	3	1	2	0	1	1	4	3	3	2	1	4	1	0	1	4	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:18296783C>T	uc010gcq.2	+	5	1593	c.1288C>T	c.(1288-1290)CGG>TGG	p.R430W	ZNF133_uc010zrv.1_Missense_Mutation_p.R433W|ZNF133_uc010zrw.1_Missense_Mutation_p.R367W|ZNF133_uc010gcr.2_Missense_Mutation_p.R430W|ZNF133_uc010zrx.1_Missense_Mutation_p.R335W|ZNF133_uc002wql.3_Missense_Mutation_p.R429W|ZNF133_uc010gcs.2_Missense_Mutation_p.R429W|ZNF133_uc010zry.1_Missense_Mutation_p.R335W|ZNF133_uc002wqm.2_Missense_Mutation_p.R430W	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	430	C2H2-type 8.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2						CTCTCACAGGCGGACACACAC	0.542													15	53					0	0	1	0	0		T	18296783	T	T	18296783	3	4	16	1	0	0	0	0	1	0	0	0	17748	759	27	1	1295	1	ZNF133	20	18296783	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	153365	18296783	44728737	1337	13012											
PAX1	5075	broad.mit.edu	37	chr20	21687147	21687147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccctgcccaacgccatcCgcttgcgcattgtggagctg	5	8	11	17	3	0	0	0	0	0	0	1	1	1	1	5	1	4	3	5	1	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:21687147C>T	uc002wsj.2	+	2	412	c.358C>T	c.(358-360)CGC>TGC	p.R120C	PAX1_uc010zsl.1_Missense_Mutation_p.R120C|PAX1_uc010zsm.1_Missense_Mutation_p.R96C	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	120	Paired.				regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						CAACGCCATCCGCTTGCGCAT	0.662													10	14					0	0	1	0	0		T	21687147	T	T	21687147	3	4	16	1	0	0	0	0	1	0	0	0	11497	652	23	1	364	1	PAX1	20	21687147	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3390364	21687147	41338373	1338	13013											
PAX1	5075	broad.mit.edu	37	chr20	21687491	21687491	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggcgcagcccggaccgtaCgaggcaagtaagcagccgcc	9	3	14	15	5	0	0	0	0	0	0	0	2	0	1	4	3	4	5	4	3	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:21687491C>T	uc002wsj.2	+	2	756	c.702C>T	c.(700-702)TAC>TAT	p.Y234Y	PAX1_uc010zsl.1_Silent_p.Y234Y|PAX1_uc010zsm.1_Silent_p.Y210Y	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	234					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						CCGGACCGTACGAGGCAAGTA	0.642													7	13					0	0	1	0	0		T	21687491	T	T	21687491	2	4	16	1	0	0	0	0	0	0	0	1	11497	547	19	1		1	PAX1	20	21687491	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	344	21687491	41338029	1339	13014											
ACSS1	84532	broad.mit.edu	37	chr20	25011401	25011401	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacctcctcaccatcatTgatcctcccagccaaggact	9	8	5	19	0	2	1	2	1	0	0	5	2	5	2	7	1	1	0	7	1	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:25011401T>C	uc002wub.2	-	3	1503	c.625A>G	c.(625-627)AAT>GAT	p.N209D	ACSS1_uc002wuc.2_Missense_Mutation_p.N209D|ACSS1_uc010gdc.2_Missense_Mutation_p.N209D|ACSS1_uc002wua.2_Missense_Mutation_p.N126D	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	209					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TCACCATCATTGATCCTCCCA	0.587													33	33					0	0	1	0	0		C	25011401	C	C	25011401	3	2	16	1	0	0	0	0	1	0	0	0	188	1812	63	3	1492	3	ACSS1	20	25011401	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	3323910	25011401	38014119	1340	13015											
MAPRE1	22919	broad.mit.edu	37	chr20	31427543	31427543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgtgctctctttttcagctCcccagaggcccatctcaaca	7	12	6	16	0	3	1	2	0	2	1	6	1	4	1	3	1	3	2	3	1	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:31427543C>T	uc002wyh.2	+	5	617	c.478C>T	c.(478-480)CCC>TCC	p.P160S		NM_012325	NP_036457	Q15691	MARE1_HUMAN	microtubule-associated protein, RP/EB family,	160	Interaction with MTUS2/TIP150.				cell division|cell proliferation|G2/M transition of mitotic cell cycle|mitotic prometaphase|negative regulation of microtubule polymerization|protein localization to microtubule	centrosome|cortical microtubule cytoskeleton|cytosol	microtubule plus-end binding|protein C-terminus binding				0						TTTTTCAGCTCCCCAGAGGCC	0.527													54	314					0	0	1	0	0		T	31427543	T	T	31427543	3	4	16	1	0	0	0	0	1	0	0	0	9312	855	30	4	492	4	MAPRE1	20	31427543	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6416142	31427543	31597977	1341	13016											
CDK5RAP1	51654	broad.mit.edu	37	chr20	31967484	31967484	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctgaccaagaagtgtcActtctttcagcccctaaaca	12	11	5	13	0	4	2	2	1	2	1	4	2	4	2	3	0	2	0	3	0	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:31967484A>G	uc010gek.2	-	9	1056	c.932T>C	c.(931-933)GTG>GCG	p.V311A	CDK5RAP1_uc002wyy.2_Missense_Mutation_p.V207A|CDK5RAP1_uc002wyz.2_Missense_Mutation_p.V297A|CDK5RAP1_uc002wza.2_Missense_Mutation_p.V297A|CDK5RAP1_uc010gel.2_Missense_Mutation_p.V206A|CDK5RAP1_uc010gem.2_Intron|CDK5RAP1_uc002wzc.1_Missense_Mutation_p.V297A	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	311					brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5						AAGAAGTGTCACTTCTTTCAG	0.368													14	35					0	0	1	0	0		G	31967484	G	G	31967484	3	3	16	1	0	0	0	0	1	0	0	0	3148	159	6	3	901	3	CDK5RAP1	20	31967484	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	539941	31967484	31058036	1342	13017											
TP53INP2	58476	broad.mit.edu	37	chr20	33296578	33296578	+	Frame_Shift_Del	DEL	C	-	-																															ctccagcctcttcttcagcaCcccctcgccccccgaagacc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:33296578delC	uc002xau.1	+	3	370	c.35delC	c.(34-36)ACCfs	p.T12fs		NM_021202	NP_067025	Q8IXH6	T53I2_HUMAN	tumor protein p53 inducible nuclear protein 2	12						nucleus					0						TTCTTCAGCACCCCCTCGCCC	0.662													4	9	---	---	---	---						.	-	33296578	-	-	33296578	7	5	16	1	0	1	0	1	0	0	0	0	16415	507	18	0	37	0	TP53INP2	20	33296578	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	1329094	33296578	29728942	1343	13018											
CEP250	11190	broad.mit.edu	37	chr20	34053898	34053898	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaggtgaacacccagcttCgactgcacatggaaaaagct	14	6	10	11	1	0	2	0	1	0	1	1	4	0	3	1	2	4	3	1	2	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:34053898C>T	uc002xcm.2	+	8	1032	c.361C>T	c.(361-363)CGA>TGA	p.R121*	CEP250_uc010zve.1_5'UTR|CEP250_uc010gfe.1_RNA|CEP250_uc010zvd.1_RNA|CEP250_uc002xco.2_5'Flank	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	121	Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			CACCCAGCTTCGACTGCACAT	0.532													12	50					0	0	1	0	0		T	34053898	T	T	34053898	4	4	16	1	0	0	0	0	0	1	0	0	3255	876	31	1	375	1	CEP250	20	34053898	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	757320	34053898	28971622	1344	13019											
RBM12	10137	broad.mit.edu	37	chr20	34241967	34241967	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacacaaaaaccagcctcAtgtggtgatcttgaccttga	14	10	7	10	0	2	3	1	3	1	0	2	3	2	3	3	1	3	0	3	1	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:34241967A>G	uc002xdq.2	-	3	1510	c.1278T>C	c.(1276-1278)CAT>CAC	p.H426H	CPNE1_uc010zvj.1_5'Flank|CPNE1_uc002xde.2_Intron|CPNE1_uc002xdf.2_Intron|CPNE1_uc002xdg.2_Intron|CPNE1_uc010gfi.2_Intron|CPNE1_uc010gfj.2_Intron|CPNE1_uc002xdh.2_Intron|CPNE1_uc002xdi.2_Intron|CPNE1_uc002xdj.2_Intron|CPNE1_uc002xdk.2_Intron|CPNE1_uc002xdl.2_Intron|CPNE1_uc002xdm.2_Intron|CPNE1_uc010gfk.1_Intron|CPNE1_uc002xdn.1_Intron|CPNE1_uc002xdo.1_Intron|CPNE1_uc002xdp.1_Intron|RBM12_uc002xdr.2_Silent_p.H426H|RBM12_uc002xds.2_Silent_p.H426H	NM_152838	NP_690051	Q9NTZ6	RBM12_HUMAN	RNA binding motif protein 12	426						nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			AACCAGCCTCATGTGGTGATC	0.413											OREG0004044	type=REGULATORY REGION|Gene=CPNE1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	30	54					0	0	1	0	0		G	34241967	G	G	34241967	2	3	16	1	0	0	0	0	0	0	0	1	13138	214	8	3		3	RBM12	20	34241967	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	188069	34241967	28783553	1345	13020											
RBL1	5933	broad.mit.edu	37	chr20	35663858	35663858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttctcttagcactccctgCggtaggagaactgtagcgtt	7	13	10	11	2	2	1	0	0	2	1	4	2	3	1	1	2	4	4	1	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:35663858C>T	uc002xgi.2	-	15	2036	c.1957G>A	c.(1957-1959)GCA>ACA	p.A653T	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.A653T	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	653	Pocket; binds T and E1A.|Spacer.				cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				GCACTCCCTGCGGTAGGAGAA	0.368													16	22					0	0	1	0	0		T	35663858	T	T	35663858	3	4	16	1	0	0	0	0	1	0	0	0	13134	768	27	1	1290	1	RBL1	20	35663858	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1421891	35663858	27361662	1346	13021											
RPN2	6185	broad.mit.edu	37	chr20	35835788	35835788	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctcgcataatcgctaccAcgtgccagttgtggttgtgc	6	12	11	12	3	1	0	0	0	1	0	3	0	1	0	2	1	3	5	2	1	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:35835788A>G	uc002xgp.2	+	7	1107	c.803A>G	c.(802-804)CAC>CGC	p.H268R	RPN2_uc002xgo.3_Missense_Mutation_p.H268R|RPN2_uc010gfw.2_Missense_Mutation_p.H111R|RPN2_uc002xgq.2_Missense_Mutation_p.H236R	NM_002951	NP_002942	P04844	RPN2_HUMAN	ribophorin II isoform 1 precursor	268	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|nucleus|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AATCGCTACCACGTGCCAGTT	0.547													10	75					0	0	1	0	0		G	35835788	G	G	35835788	3	3	16	1	0	0	0	0	1	0	0	0	13633	159	6	3	829	3	RPN2	20	35835788	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	171930	35835788	27189732	1347	13022											
SLC32A1	140679	broad.mit.edu	37	chr20	37357184	37357184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccaagtcttcttcgacGtcgccatcttcgtcatcggc	6	11	9	15	5	4	0	1	0	3	0	8	1	4	0	2	2	0	1	2	2	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:37357184G>A	uc002xjc.2	+	2	1743	c.1480G>A	c.(1480-1482)GTC>ATC	p.V494I		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	494	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CTTCTTCGACGTCGCCATCTT	0.647													4	13					0	0	1	0	0		A	37357184	A	A	37357184	3	1	16	1	0	0	0	0	1	0	0	0	14590	1145	40	1	1486	1	SLC32A1	20	37357184	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1521396	37357184	25668336	1348	13023											
DHX35	60625	broad.mit.edu	37	chr20	37662959	37662959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacttttatcaacaaggaaCggtaggaatgaactgagtct	15	10	9	7	1	2	2	1	2	1	0	2	4	2	4	0	3	3	1	0	3	7	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:37662959C>T	uc002xjh.2	+	21	2077	c.2066C>T	c.(2065-2067)ACG>ATG	p.T689M	DHX35_uc010zwa.1_Missense_Mutation_p.T534M|DHX35_uc010zwb.1_Missense_Mutation_p.T534M|DHX35_uc010zwc.1_Missense_Mutation_p.T658M	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	689						catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CAACAAGGAACGGTAGGAATG	0.448													13	34					0	0	1	0	0		T	37662959	T	T	37662959	3	4	16	1	0	0	0	0	1	0	0	0	4514	550	19	1	2148	1	DHX35	20	37662959	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	305775	37662959	25362561	1349	13024											
HNF4A	3172	broad.mit.edu	37	chr20	43034816	43034816	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacggtgcctcgagctgtgaCggctgcaagggcttcttccg	5	10	14	12	4	1	1	0	1	1	0	3	2	2	1	2	3	4	4	2	3	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:43034816C>T	uc002xma.2	+	2	323	c.234C>T	c.(232-234)GAC>GAT	p.D78D	HNF4A_uc010zwo.1_Missense_Mutation_p.T69M|HNF4A_uc002xlt.2_Silent_p.D56D|HNF4A_uc002xlu.2_Silent_p.D56D|HNF4A_uc002xlv.2_Silent_p.D56D|HNF4A_uc002xly.2_Silent_p.D78D|HNF4A_uc002xlz.2_Silent_p.D78D|HNF4A_uc010ggq.2_Silent_p.D71D	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	78	Nuclear receptor.|NR C4-type.				blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			CGAGCTGTGACGGCTGCAAGG	0.547													13	28					0	0	1	0	0		T	43034816	T	T	43034816	2	4	16	1	0	0	0	0	0	0	0	1	7269	535	19	1		1	HNF4A	20	43034816	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5371857	43034816	19990704	1350	13025											
WFDC8	90199	broad.mit.edu	37	chr20	44184357	44184357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccaattaacatgcaggccGttctgcaggcatcctcattt	10	11	7	13	1	2	0	1	0	1	0	3	0	3	0	3	2	3	4	3	2	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:44184357G>A	uc002xow.2	-	4	507	c.428C>T	c.(427-429)ACG>ATG	p.T143M	WFDC8_uc002xox.2_Missense_Mutation_p.T143M	NM_181510	NP_852611	Q8IUA0	WFDC8_HUMAN	WAP four-disulfide core domain 8 precursor	143	BPTI/Kunitz inhibitor.					extracellular region	serine-type endopeptidase inhibitor activity				0		Myeloproliferative disorder(115;0.0122)				CATGCAGGCCGTTCTGCAGGC	0.368													27	51					0	0	1	0	0		A	44184357	A	A	44184357	3	1	16	1	0	0	0	0	1	0	0	0	17382	1145	40	1	309	1	WFDC8	20	44184357	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1149541	44184357	18841163	1351	13026											
MMP9	4318	broad.mit.edu	37	chr20	44641107	44641107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgcatgagttcggccacGcgctgggcttagatcattcc	6	9	13	13	5	1	2	1	1	0	1	3	2	2	2	2	3	0	4	2	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:44641107G>A	uc002xqz.2	+	8	1235	c.1216G>A	c.(1216-1218)GCG>ACG	p.A406T		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	406					collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	GTTCGGCCACGCGCTGGGCTT	0.637													16	32					0	0	1	0	0		A	44641107	A	A	44641107	3	1	16	1	0	0	0	0	1	0	0	0	9687	1087	38	1	1246	1	MMP9	20	44641107	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	456750	44641107	18384413	1352	13027											
SLC12A5	57468	broad.mit.edu	37	chr20	44685876	44685876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcatcgtgaagaaatccCgggacgccaagcttgttttg	10	10	12	9	3	1	2	1	1	0	1	3	3	2	3	2	2	1	2	2	2	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:44685876C>T	uc010zxl.1	+	25	3338	c.3262C>T	c.(3262-3264)CGG>TGG	p.R1088W	SLC12A5_uc002xrb.2_Missense_Mutation_p.R1065W	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	1088	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	GAAGAAATCCCGGGACGCCAA	0.577													36	54					0	0	1	0	0		T	44685876	T	T	44685876	3	4	16	1	0	0	0	0	1	0	0	0	14411	643	23	1	3416	1	SLC12A5	20	44685876	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	44769	44685876	18339644	1353	13028											
CDH22	64405	broad.mit.edu	37	chr20	44815281	44815281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggagcttcaggcaccaggcGgaaatagaagcggtgcccgc	10	4	16	11	3	1	1	1	0	0	1	1	3	1	3	2	5	3	2	2	5	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:44815281G>A	uc002xrm.2	-	9	2010	c.1609C>T	c.(1609-1611)CGC>TGC	p.R537C	CDH22_uc010ghk.1_Missense_Mutation_p.R537C	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	537	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				GGCACCAGGCGGAAATAGAAG	0.587													13	36					0	0	1	0	0		A	44815281	A	A	44815281	3	1	16	1	0	0	0	0	1	0	0	0	3110	1116	39	1	889	1	CDH22	20	44815281	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	129405	44815281	18210239	1354	13029											
ARFGEF2	10564	broad.mit.edu	37	chr20	47605849	47605849	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgaaaagcagcggcggcTgctgtacaacttagagatgg	12	8	14	7	2	0	2	0	1	0	1	0	3	0	2	0	3	5	4	0	3	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:47605849T>G	uc002xtx.3	+	19	2713	c.2561T>G	c.(2560-2562)CTG>CGG	p.L854R	ARFGEF2_uc010zyf.1_Missense_Mutation_p.L147R	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	854					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			CAGCGGCGGCTGCTGTACAAC	0.393													10	16					0	0	1	0	0		G	47605849	G	G	47605849	3	3	16	1	0	0	0	0	1	0	0	0	853	1580	55	5	2635	5	ARFGEF2	20	47605849	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2790568	47605849	15419671	1355	13030											
ARFGEF2	10564	broad.mit.edu	37	chr20	47611069	47611069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacctgtctggatctgggCgtgaaagagaagggagcctg	9	8	16	8	1	2	2	0	1	2	1	2	5	2	4	2	3	2	1	2	3	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:47611069C>T	uc002xtx.3	+	22	3207	c.3055C>T	c.(3055-3057)CGT>TGT	p.R1019C	ARFGEF2_uc010zyf.1_Missense_Mutation_p.R312C	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1019					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			TGGATCTGGGCGTGAAAGAGA	0.557													19	34					0	0	1	0	0		T	47611069	T	T	47611069	3	4	16	1	0	0	0	0	1	0	0	0	853	768	27	1	3141	1	ARFGEF2	20	47611069	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5220	47611069	15414451	1356	13031											
SNAI1	6615	broad.mit.edu	37	chr20	48604589	48604589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggctgctcaggatgtccccGctgaccctcgaggctccctc	4	8	11	18	3	1	1	1	1	0	0	5	3	3	2	4	3	1	4	4	3	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:48604589G>A	uc002xuz.2	+	3	861	c.791G>A	c.(790-792)CGC>CAC	p.R264H		NM_005985	NP_005976	O95863	SNAI1_HUMAN	snail 1 homolog	264					epithelial to mesenchymal transition|mesoderm formation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|zinc ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			GGATGTCCCCGCTGACCCTCG	0.612													11	15					0	0	1	0	0		A	48604589	A	A	48604589	3	1	16	1	0	0	0	0	1	0	0	0	14851	1087	38	1	801	1	SNAI1	20	48604589	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	993520	48604589	14420931	1357	13032											
ADNP	23394	broad.mit.edu	37	chr20	49508895	49508895	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actggctgctagcttctcaaTttctctcctggtgggatagg	6	14	11	10	0	2	0	1	0	2	0	5	1	3	1	1	4	2	3	1	4	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:49508895T>G	uc002xvt.1	-	5	2701	c.2356A>C	c.(2356-2358)ATT>CTT	p.I786L	ADNP_uc002xvu.1_Missense_Mutation_p.I786L	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	786	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						AGCTTCTCAATTTCTCTCCTG	0.413													13	37					0	0	1	0	0		G	49508895	G	G	49508895	3	3	16	1	0	0	0	0	1	0	0	0	323	1493	52	5	956	5	ADNP	20	49508895	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	904306	49508895	13516625	1358	13033											
ZNF217	7764	broad.mit.edu	37	chr20	52193292	52193292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtatctgcagtcagctgCggtctccgtttgcttctctt	3	16	9	13	2	4	0	1	0	3	0	6	0	4	0	2	1	4	5	2	1	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:52193292C>T	uc002xwq.3	-	3	2282	c.2011G>A	c.(2011-2013)GCA>ACA	p.A671T	ZNF217_uc010gij.1_Missense_Mutation_p.A663T	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	671					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			CAGTCAGCTGCGGTCTCCGTT	0.483													43	107					0	0	1	0	0		T	52193292	T	T	52193292	3	4	16	1	0	0	0	0	1	0	0	0	17797	768	27	1	1143	1	ZNF217	20	52193292	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2684397	52193292	10832228	1359	13034											
NPEPL1	79716	broad.mit.edu	37	chr20	57269569	57269569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgctcaggtgcctctcggcGcttggagaagaagacggtca	8	7	14	12	4	3	3	2	0	1	3	4	4	3	3	2	4	1	2	2	4	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:57269569G>A	uc010zzs.1	+	3	523	c.428G>A	c.(427-429)CGC>CAC	p.R143H	NPEPL1_uc010zzr.1_Missense_Mutation_p.R95H|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Missense_Mutation_p.R115H|NPEPL1_uc002xzp.2_Missense_Mutation_p.R31H	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	143					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			GCCTCTCGGCGCTTGGAGAAG	0.637													13	21					0	0	1	0	0		A	57269569	A	A	57269569	3	1	16	1	0	0	0	0	1	0	0	0	10593	1087	38	1	284	1	NPEPL1	20	57269569	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	5076277	57269569	5755951	1360	13035											
ZNF831	128611	broad.mit.edu	37	chr20	57768886	57768886	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggcagataatgcctttTcccccaagtacctcctcagg	8	10	7	16	0	1	1	1	0	0	1	3	1	3	1	6	2	2	2	6	2	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:57768886T>C	uc002yan.2	+	1	2812	c.2812T>C	c.(2812-2814)TCC>CCC	p.S938P		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	938						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					TAATGCCTTTTCCCCCAAGTA	0.637													27	50					0	0	1	0	0		C	57768886	C	C	57768886	3	2	16	1	0	0	0	0	1	0	0	0	18210	1783	62	3	2814	3	ZNF831	20	57768886	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	499317	57768886	5256634	1361	13036											
CDH26	60437	broad.mit.edu	37	chr20	58563985	58563985	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattatgagactcgcccagcGcaaagcctcatcattgtcgt	10	10	9	12	3	2	1	2	1	0	1	4	3	2	1	2	0	2	1	2	0	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:58563985G>A	uc002ybe.2	+	9	1350	c.1050G>A	c.(1048-1050)GCG>GCA	p.A350A	CDH26_uc002ybf.1_5'UTR|CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	350	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			CTCGCCCAGCGCAAAGCCTCA	0.572													9	21					0	0	1	0	0		A	58563985	A	A	58563985	2	1	16	1	0	0	0	0	0	0	0	1	3113	1074	38	1		1	CDH26	20	58563985	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	795099	58563985	4461535	1362	13037											
NTSR1	4923	broad.mit.edu	37	chr20	61341143	61341143	+	Frame_Shift_Del	DEL	C	-	-																															catcagcgccatctggctcgCctcggccctgctggcggtgc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:61341143delC	uc002ydf.2	+	1	955	c.584delC	c.(583-585)GCCfs	p.A195fs		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1	195	Helical; Name=4; (Potential).					endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			ATCTGGCTCGCCTCGGCCCTG	0.667													22	45	---	---	---	---						.	-	61341143	-	-	61341143	7	5	16	1	0	1	0	1	0	0	0	0	10729	739	26	0	586	0	NTSR1	20	61341143	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	2777158	61341143	1684377	1363	13038											
NTSR1	4923	broad.mit.edu	37	chr20	61391505	61391505	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcctggccacactggcctgCctctgcccggtgtggcggcg	2	9	14	16	3	1	0	0	0	1	0	2	0	2	0	5	5	2	0	5	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:61391505C>G	uc002ydf.2	+	4	1514	c.1143C>G	c.(1141-1143)TGC>TGG	p.C381W		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1	381	Cytoplasmic (Potential).					endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			CACTGGCCTGCCTCTGCCCGG	0.627													12	16					0	0	1	0	0		G	61391505	G	G	61391505	3	3	16	1	0	0	0	0	1	0	0	0	10729	747	26	5	1157	5	NTSR1	20	61391505	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	50362	61391505	1634015	1364	13039											
YTHDF1	54915	broad.mit.edu	37	chr20	61834535	61834535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaccccccatgacaggccCgctctttgttttcattttag	6	13	6	16	1	2	1	1	1	1	0	2	1	2	1	5	1	0	2	5	1	1	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:61834535C>T	uc002yeh.2	-	4	1051	c.757G>A	c.(757-759)GGG>AGG	p.G253R	YTHDF1_uc011aaq.1_Missense_Mutation_p.G203R	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	253	Gln/Pro-rich.									ovary(2)	2						ATGACAGGCCCGCTCTTTGTT	0.572													21	45					0	0	1	0	0		T	61834535	T	T	61834535	3	4	16	1	0	0	0	0	1	0	0	0	17524	652	23	1	930	1	YTHDF1	20	61834535	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	443030	61834535	1190985	1365	13040											
KCNQ2	3785	broad.mit.edu	37	chr20	62070960	62070960	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggacttactgcaggcagCgcgaagaaggagacaccgat	12	5	14	10	3	0	2	0	0	0	2	0	6	0	3	1	3	3	3	1	3	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:62070960C>T	uc002yey.1	-	6	1095	c.918G>A	c.(916-918)GCG>GCA	p.A306A	KCNQ2_uc002yez.1_Silent_p.A306A|KCNQ2_uc002yfa.1_Silent_p.A306A|KCNQ2_uc002yfb.1_Silent_p.A306A|KCNQ2_uc011aax.1_Silent_p.A306A|KCNQ2_uc002yfc.1_Silent_p.A306A	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	306	Helical; Name=Segment S6; (Potential).		A -> T (in EBN1; 20%-40% reduction of wt heteromeric current. Ratio of 1:1:2).		axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	CTGCAGGCAGCGCGAAGAAGG	0.637													8	24					0	0	1	0	0		T	62070960	T	T	62070960	2	4	16	1	0	0	0	0	0	0	0	1	8099	755	27	1		1	KCNQ2	20	62070960	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	236425	62070960	954560	1366	13041											
SRMS	6725	broad.mit.edu	37	chr20	62178751	62178751	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggtccggctcgccgccCgccggccagatcttgtccca	4	7	11	19	5	1	1	0	0	1	1	4	1	3	1	7	3	0	1	7	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:62178751C>T	uc002yfi.1	-	1	107	c.66G>A	c.(64-66)GCG>GCA	p.A22A		NM_080823	NP_543013	Q9H3Y6	SRMS_HUMAN	src-related kinase lacking C-terminal regulatory	22							ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|lung(1)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;9.69e-09)|all cancers(9;5.84e-08)|BRCA - Breast invasive adenocarcinoma(10;3.63e-06)			GCTCGCCGCCCGCCGGCCAGA	0.711													12	11					0	0	1	0	0		T	62178751	T	T	62178751	2	4	16	1	0	0	0	0	0	0	0	1	15177	639	23	1		1	SRMS	20	62178751	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	107791	62178751	846769	1367	13042											
PRIC285	85441	broad.mit.edu	37	chr20	62196899	62196899	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacagtgtccagcagcccGtcctccccgacggtcaccat	7	6	10	18	4	1	0	1	0	0	0	4	2	4	0	6	1	2	1	6	1	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:62196899G>A	uc002yfm.2	-	9	4168	c.3276C>T	c.(3274-3276)GAC>GAT	p.D1092D	PRIC285_uc002yfl.1_Silent_p.D523D	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1092					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CCAGCAGCCCGTCCTCCCCGA	0.682													8	16					0	0	1	0	0		A	62196899	A	A	62196899	2	1	16	1	0	0	0	0	0	0	0	1	12507	1136	40	1		1	PRIC285	20	62196899	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	18148	62196899	828621	1368	13043											
UCKL1	54963	broad.mit.edu	37	chr20	62577179	62577179	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtccttcttccggctgtgCgtggtgaagtcataaatggg	7	12	13	9	2	2	1	1	1	1	0	4	1	4	1	2	3	1	1	2	3	3	3	rs61743506	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:62577179C>T	uc010gkn.2	-	4	604	c.561G>A	c.(559-561)ACG>ACA	p.T187T	UCKL1_uc011abm.1_Silent_p.T172T|UCKL1_uc011abn.1_RNA|UCKL1_uc011abo.1_RNA	NM_017859	NP_060329	Q9NWZ5	UCKL1_HUMAN	uridine-cytidine kinase 1-like 1	187					interspecies interaction between organisms	endoplasmic reticulum|nucleus	ATP binding|phosphotransferase activity, alcohol group as acceptor|protein binding|uridine kinase activity				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					TCCGGCTGTGCGTGGTGAAGT	0.592													40	102					0	0	1	0	0		T	62577179	T	T	62577179	2	4	16	1	0	0	0	0	0	0	0	1	16951	755	27	1		1	UCKL1	20	62577179	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	380280	62577179	448341	1369	13044											
ZNF512B	57473	broad.mit.edu	37	chr20	62598745	62598745	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagctcacaggaatgtctcGgagggcctggttctcggctt	6	10	15	10	2	3	0	1	0	2	0	5	3	3	3	1	6	1	3	1	6	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:62598745G>A	uc002yhl.1	-	3	307	c.253C>T	c.(253-255)CGA>TGA	p.R85*		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	85					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					GGAATGTCTCGGAGGGCCTGG	0.622													27	45					0	0	1	0	0		A	62598745	A	A	62598745	4	1	16	1	0	0	0	0	0	1	0	0	17982	1124	39	1	2485	1	ZNF512B	20	62598745	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	21566	62598745	426775	1370	13045											
OPRL1	4987	broad.mit.edu	37	chr20	62729786	62729786	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtggagtccgcctgctctcGggctcccgagagaaggaccg	6	6	15	14	5	1	1	0	0	1	1	4	5	3	3	4	3	1	2	4	3	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr20:62729786G>A	uc002yic.2	+	5	1149	c.747G>A	c.(745-747)TCG>TCA	p.S249S	OPRL1_uc002yid.2_Silent_p.S249S|OPRL1_uc002yif.3_Silent_p.S244S	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	249	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					GCCTGCTCTCGGGCTCCCGAG	0.632													18	35					0	0	1	0	0		A	62729786	A	A	62729786	2	1	16	1	0	0	0	0	0	0	0	1	10905	1103	39	1		1	OPRL1	20	62729786	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	131041	62729786	295734	1371	13046											
NRIP1	8204	broad.mit.edu	37	chr21	16338141	16338141	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacactggtaaggcaggtgcGcttctctgcacagcaggagc	9	7	14	11	1	1	0	0	0	1	0	2	2	1	1	0	4	4	5	0	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:16338141G>A	uc002yjx.2	-	4	2971	c.2373C>T	c.(2371-2373)AGC>AGT	p.S791S		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	791	Repression domain 3.				androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		AGGCAGGTGCGCTTCTCTGCA	0.468													10	14					0	0	1	0	0		A	16338141	A	A	16338141	2	1	16	1	0	0	0	0	0	0	0	1	10671	1078	38	1		1	NRIP1	21	16338141	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08		16338141	31791754	1372	13047											
GRIK1	2897	broad.mit.edu	37	chr21	30949413	30949413	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaggcagccagattggcCgtgtaggatgaaatgatgat	14	8	14	5	1	0	5	0	3	0	2	0	6	0	6	2	3	1	2	2	3	4	2	rs142518822	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:30949413C>T	uc002yno.1	-	14	2465	c.2001G>A	c.(1999-2001)ACG>ACA	p.T667T	GRIK1_uc002ynn.2_Silent_p.T652T|GRIK1_uc011acs.1_Silent_p.T667T|GRIK1_uc011act.1_Silent_p.T528T	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	667	Helical; (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	CCAGATTGGCCGTGTAGGATG	0.463													35	78					0	0	1	0	0		T	30949413	T	T	30949413	2	4	16	1	0	0	0	0	0	0	0	1	6789	639	23	1		1	GRIK1	21	30949413	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	14611272	30949413	17180482	1373	13048											
KRTAP15-1	254950	broad.mit.edu	37	chr21	31812904	31812904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attccatcttctgcagtcccCgccagactaactacataaga	12	10	5	14	1	2	2	0	0	2	2	4	2	4	2	4	0	3	1	4	0	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:31812904C>T	uc002yod.2	+	1	259	c.259C>T	c.(259-261)CGC>TGC	p.R87C		NM_181623	NP_853654	Q3LI76	KR151_HUMAN	keratin associated protein 15-1	87						intermediate filament					0						CTGCAGTCCCCGCCAGACTAA	0.522													37	90					0	0	1	0	0		T	31812904	T	T	31812904	3	4	16	1	0	0	0	0	1	0	0	0	8542	652	23	1	261	1	KRTAP15-1	21	31812904	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	863491	31812904	16316991	1374	13049											
TIAM1	7074	broad.mit.edu	37	chr21	32493037	32493037	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtcagtgtccccaccaccGgggggctgctgggactcttt	4	9	14	14	2	2	0	1	0	1	0	3	1	3	1	4	5	1	2	4	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:32493037G>A	uc002yow.1	-	29	4897	c.4425C>T	c.(4423-4425)CCC>CCT	p.P1475P	TIAM1_uc011adk.1_3'UTR|TIAM1_uc011adl.1_Silent_p.P1415P	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1475					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CCCCACCACCGGGGGGCTGCT	0.572													3	56					0	0	1	0	0		A	32493037	A	A	32493037	2	1	16	1	0	0	0	0	0	0	0	1	15915	1103	39	1		1	TIAM1	21	32493037	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	680133	32493037	15636858	1375	13050											
GART	2618	broad.mit.edu	37	chr21	34903066	34903066	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtcttcgggaagtaccTgaggggctggacaataggct	10	8	15	8	1	1	2	0	1	1	1	2	4	1	4	1	5	1	3	1	5	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:34903066T>C	uc002yrx.2	-	7	857	c.722A>G	c.(721-723)CAG>CGG	p.Q241R	GART_uc002yrz.2_Missense_Mutation_p.Q241R|GART_uc010gmd.2_5'UTR|GART_uc002yry.2_Missense_Mutation_p.Q241R|GART_uc002ysa.2_Missense_Mutation_p.Q241R	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	241	ATP-grasp.				'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	GGGAAGTACCTGAGGGGCTGG	0.483													11	35					0	0	1	0	0		C	34903066	C	C	34903066	3	2	16	1	0	0	0	0	1	0	0	0	6258	1594	55	3	2378	3	GART	21	34903066	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2410029	34903066	13226829	1376	13051											
SIM2	6493	broad.mit.edu	37	chr21	38115733	38115733	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccctggagcaggtgtcCactgccaagtcccaggactc	7	8	11	15	0	0	0	0	0	0	0	4	2	3	2	4	3	2	1	4	3	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:38115733C>A	uc002yvr.2	+	9	1100	c.1044C>A	c.(1042-1044)TCC>TCA	p.S348S	SIM2_uc002yvq.2_Silent_p.S348S	NM_005069	NP_005060	Q14190	SIM2_HUMAN	single-minded homolog 2 long isoform	348	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(1)	1						AGCAGGTGTCCACTGCCAAGT	0.537													59	111					3.56336e-21	3.88709e-21	1	1	0		A	38115733	A	A	38115733	2	1	16	1	0	0	0	0	0	0	0	1	14349	581	21	5		5	SIM2	21	38115733	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3212667	38115733	10014162	1377	13052											
TTC3	7267	broad.mit.edu	37	chr21	38498385	38498385	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taatttcattggcaggtggcGgatgaggcgttgaaggtaga	10	11	16	4	2	1	3	1	2	0	1	1	4	1	4	0	6	0	3	0	6	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:38498385G>A	uc002yvz.2	+	15	1344	c.1239G>A	c.(1237-1239)GCG>GCA	p.A413A	TTC3_uc011aee.1_Silent_p.A103A|TTC3_uc002ywa.2_Silent_p.A413A|TTC3_uc002ywb.2_Silent_p.A413A|TTC3_uc010gnf.2_Silent_p.A178A|TTC3_uc002ywc.2_Silent_p.A103A|TTC3_uc011aed.1_Silent_p.A103A|TTC3_uc010gne.1_Silent_p.A413A	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	413					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				GGCAGGTGGCGGATGAGGCGT	0.328													10	19					0	0	1	0	0		A	38498385	A	A	38498385	2	1	16	1	0	0	0	0	0	0	0	1	16723	1103	39	1		1	TTC3	21	38498385	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	382652	38498385	9631510	1378	13053											
DSCR3	10311	broad.mit.edu	37	chr21	38600102	38600102	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgcgggcatagccttctgCacaccctgcgggagggaggc	6	6	16	13	3	1	0	0	0	1	0	2	2	1	2	2	4	3	2	2	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:38600102C>T	uc002ywf.1	-	8	903	c.664G>A	c.(664-666)GCA>ACA	p.A222T	DSCR3_uc010gnm.1_RNA|DSCR3_uc010gnn.1_Missense_Mutation_p.A180T|DSCR3_uc010gnl.2_Missense_Mutation_p.A195T|DSCR3_uc011aeg.1_Missense_Mutation_p.A145T|DSCR3_uc011aeh.1_Missense_Mutation_p.A97T	NM_006052	NP_006043	O14972	DSCR3_HUMAN	Down syndrome critical region protein 3	222					vacuolar transport	nucleus|retromer complex					0						TAGCCTTCTGCACACCCTGCG	0.642													4	27					0	0	1	0	0		T	38600102	T	T	38600102	3	4	16	1	0	0	0	0	1	0	0	0	4777	710	25	2	237	2	DSCR3	21	38600102	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	101717	38600102	9529793	1379	13054											
RIPK4	54101	broad.mit.edu	37	chr21	43161498	43161498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgatgaggatgcgggccaCgcggtagtgcccgcgctgtg	5	7	18	11	6	0	1	0	1	0	0	1	3	0	2	2	3	2	2	2	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:43161498C>T	uc002yzn.1	-	8	1903	c.1855G>A	c.(1855-1857)GTG>ATG	p.V619M		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	619						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						ATGCGGGCCACGCGGTAGTGC	0.687													10	38					0	0	1	0	0		T	43161498	T	T	43161498	3	4	16	1	0	0	0	0	1	0	0	0	13408	536	19	1	503	1	RIPK4	21	43161498	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4561396	43161498	4968397	1380	13055											
UMODL1	89766	broad.mit.edu	37	chr21	43531694	43531694	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggccacttcctgtggcatGccacccgttccacccgggaa	6	7	10	18	3	0	0	0	0	0	0	2	1	2	1	7	3	1	2	7	3	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:43531694G>T	uc002zaf.1	+	12	1978	c.1978G>T	c.(1978-1980)GCC>TCC	p.A660S	UMODL1_uc002zad.1_Missense_Mutation_p.A588S|UMODL1_uc002zae.1_Missense_Mutation_p.A716S|UMODL1_uc002zag.1_Missense_Mutation_p.A788S	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	660	Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						CCTGTGGCATGCCACCCGTTC	0.617													9	18					2.17888e-05	2.2314e-05	1	1	0		T	43531694	T	T	43531694	3	4	16	1	0	0	0	0	1	0	0	0	17006	1319	46	5	2404	5	UMODL1	21	43531694	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	370196	43531694	4598201	1381	13056											
CBS	875	broad.mit.edu	37	chr21	44480625	44480625	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctcctgcgcggccttcacGgccaccgccaccgtgctgcc	4	6	11	20	5	1	0	1	0	0	0	2	0	2	0	7	2	4	2	7	2	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:44480625G>A	uc002zcu.2	-	12	1316	c.1071C>T	c.(1069-1071)GCC>GCT	p.A357A	CBS_uc002zcs.1_Silent_p.A252A|CBS_uc002zct.2_Silent_p.A357A|CBS_uc002zcw.3_Silent_p.A357A|CBS_uc002zcv.2_Silent_p.A357A|CBS_uc002zcx.2_5'UTR	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	357					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	CGGCCTTCACGGCCACCGCCA	0.652													4	7					0	0	1	0	0		A	44480625	A	A	44480625	2	1	16	1	0	0	0	0	0	0	0	1	2714	1103	39	1		1	CBS	21	44480625	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	948931	44480625	3649270	1382	13057											
RRP1	8568	broad.mit.edu	37	chr21	45219516	45219516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgacgacagggacagtggcGgccccgttctccaggtgggt	6	7	17	11	3	1	1	0	1	1	0	2	3	1	2	3	5	0	1	3	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:45219516G>A	uc002zds.2	+	9	970	c.877G>A	c.(877-879)GGC>AGC	p.G293S	RRP1_uc011aez.1_Missense_Mutation_p.G293S|RRP1_uc010gpk.1_Missense_Mutation_p.G143S|RRP1_uc010gpl.1_Missense_Mutation_p.G191S|RRP1_uc010gpm.1_Missense_Mutation_p.G160S	NM_003683	NP_003674	P56182	RRP1_HUMAN	ribosomal RNA processing 1 homolog	293					rRNA processing	nucleolus|preribosome, small subunit precursor					0				COAD - Colon adenocarcinoma(84;0.00753)|Colorectal(79;0.0157)|STAD - Stomach adenocarcinoma(101;0.171)		GGACAGTGGCGGCCCCGTTCT	0.637													3	11					0	0	1	0	0		A	45219516	A	A	45219516	3	1	16	1	0	0	0	0	1	0	0	0	13710	1116	39	1	911	1	RRP1	21	45219516	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	738891	45219516	2910379	1383	13058											
PWP2	5822	broad.mit.edu	37	chr21	45535691	45535691	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgttgcagcgggaggaggaAgaggaggaggaggaggacca	12	3	21	5	1	0	1	0	0	0	1	0	9	0	9	1	8	2	2	1	8	1	1	rs145366296		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:45535691A>G	uc002zeb.2	+	7	816	c.726A>G	c.(724-726)GAA>GAG	p.E242E		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	242	Poly-Glu.					cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		Gggaggaggaagaggaggagg	0.517													12	20					0	0	1	0	0		G	45535691	G	G	45535691	2	3	16	1	0	0	0	0	0	0	0	1	12869	69	3	3		3	PWP2	21	45535691	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	316175	45535691	2594204	1384	13059											
TRPM2	7226	broad.mit.edu	37	chr21	45798982	45798982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggccaacctgcctgtctcgGacatcactatctccctgatc	7	11	7	16	1	3	1	1	1	2	0	6	2	3	2	4	2	2	0	4	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:45798982G>A	uc002zet.1	+	9	1330	c.1117G>A	c.(1117-1119)GAC>AAC	p.D373N	TRPM2_uc002zeu.1_Missense_Mutation_p.D373N|TRPM2_uc002zew.1_Missense_Mutation_p.D373N|TRPM2_uc010gpt.1_Missense_Mutation_p.D373N|TRPM2_uc002zex.1_Missense_Mutation_p.D159N	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	373	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GCCTGTCTCGGACATCACTAT	0.582													18	41					0	0	1	0	0		A	45798982	A	A	45798982	3	1	16	1	0	0	0	0	1	0	0	0	16612	1174	41	4	1147	4	TRPM2	21	45798982	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	263291	45798982	2330913	1385	13060											
TRPM2	7226	broad.mit.edu	37	chr21	45825802	45825802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggctcatcccggcgaCgctgtaccccgggcgcgtca	5	5	14	17	6	2	0	2	0	0	0	3	1	3	0	4	4	1	3	4	4	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:45825802C>T	uc002zet.1	+	19	2885	c.2672C>T	c.(2671-2673)ACG>ATG	p.T891M	TRPM2_uc002zeu.1_Missense_Mutation_p.T891M|TRPM2_uc002zew.1_Missense_Mutation_p.T891M|TRPM2_uc010gpt.1_Missense_Mutation_p.T891M|TRPM2_uc002zex.1_Missense_Mutation_p.T677M|TRPM2_uc002zey.1_Missense_Mutation_p.T404M	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	891	Helical; (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						ATCCCGGCGACGCTGTACCCC	0.637													17	34					0	0	1	0	0		T	45825802	T	T	45825802	3	4	16	1	0	0	0	0	1	0	0	0	16612	536	19	1	2742	1	TRPM2	21	45825802	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	26820	45825802	2304093	1386	13061											
LRRC3	81543	broad.mit.edu	37	chr21	45876853	45876853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcggctccgccaccttcgCgggcctggccgggggcctgc	2	6	15	18	5	0	0	0	0	0	0	3	0	1	0	6	5	1	1	6	5	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:45876853C>T	uc002zfa.2	+	2	619	c.326C>T	c.(325-327)GCG>GTG	p.A109V		NM_030891	NP_112153	Q9BY71	LRRC3_HUMAN	leucine-rich repeat-containing 3 precursor	109	LRR 2.					integral to membrane	protein binding				0		Breast(209;0.00908)		COAD - Colon adenocarcinoma(84;0.148)|Lung(125;0.195)		GCCACCTTCGCGGGCCTGGCC	0.672													3	7					0	0	1	0	0		T	45876853	T	T	45876853	3	4	16	1	0	0	0	0	1	0	0	0	9002	768	27	1	328	1	LRRC3	21	45876853	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	51051	45876853	2253042	1387	13062											
ADARB1	104	broad.mit.edu	37	chr21	46596311	46596311	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaccattcccacccccgaGtgggaagaatcccgtgatga	11	6	9	15	2	0	3	0	2	0	1	2	5	2	4	6	1	0	0	6	1	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:46596311G>T	uc002zgy.2	+	4	1130	c.695G>T	c.(694-696)AGT>ATT	p.S232I	ADARB1_uc002zgr.2_Missense_Mutation_p.S232I|ADARB1_uc002zgs.2_RNA|ADARB1_uc002zgw.2_Missense_Mutation_p.S232I|ADARB1_uc002zgv.2_RNA|ADARB1_uc002zgt.2_Missense_Mutation_p.S232I|ADARB1_uc010gpx.2_Intron|ADARB1_uc002zgq.2_RNA|ADARB1_uc002zgu.2_RNA|ADARB1_uc011afo.1_Missense_Mutation_p.S281I	NM_015833	NP_056648	P78563	RED1_HUMAN	RNA-specific adenosine deaminase B1 isoform 2	232	DRBM 2.				adenosine to inosine editing|mRNA modification|mRNA processing|RNA processing	nucleoplasm|nucleus	double-stranded RNA adenosine deaminase activity|double-stranded RNA adenosine deaminase activity|double-stranded RNA binding|double-stranded RNA binding|metal ion binding|mRNA binding|RNA binding			skin(1)	1				Colorectal(79;0.115)		CCACCCCCGAGTGGGAAGAAT	0.597													22	37					1.1804e-14	1.26925e-14	1	1	0		T	46596311	T	T	46596311	3	4	16	1	0	0	0	0	1	0	0	0	282	1029	36	5	701	5	ADARB1	21	46596311	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	719458	46596311	1533584	1388	13063											
PCBP3	54039	broad.mit.edu	37	chr21	47360075	47360075	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcaccatcacggggaccccGgccaacatcagccttgccca	10	5	8	18	2	3	0	3	0	0	0	3	1	3	1	6	3	3	0	6	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr21:47360075G>A	uc002zhq.1	+	13	1166	c.1041G>A	c.(1039-1041)CCG>CCA	p.P347P	PCBP3_uc002zhp.1_Silent_p.P327P|PCBP3_uc002zhs.1_Silent_p.P321P|PCBP3_uc002zhr.1_Silent_p.P346P|PCBP3_uc002zht.1_Silent_p.P337P	NM_020528	NP_065389	P57721	PCBP3_HUMAN	poly(rC) binding protein 3 isoform 1	347	KH 3.				mRNA metabolic process	cytosol|mitochondrion|nucleus|ribonucleoprotein complex	DNA binding|RNA binding			skin(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0411)|READ - Rectum adenocarcinoma(84;0.0649)		CGGGGACCCCGGCCAACATCA	0.572													11	28					0	0	1	0	0		A	47360075	A	A	47360075	2	1	16	1	0	0	0	0	0	0	0	1	11521	1103	39	1		1	PCBP3	21	47360075	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	763764	47360075	769820	1389	13064											
CCT8L2	150160	broad.mit.edu	37	chr22	17072267	17072267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcaatgccgtggtagaCggcctgctctgcactccgca	7	8	12	14	3	2	1	1	0	1	1	3	1	3	1	3	3	3	5	3	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:17072267C>T	uc002zlp.1	-	1	1434	c.1174G>A	c.(1174-1176)GTC>ATC	p.V392I		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	392					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				CCGTGGTAGACGGCCTGCTCT	0.542													20	33					0	0	1	0	0		T	17072267	T	T	17072267	3	4	16	1	0	0	0	0	1	0	0	0	2964	536	19	1	503	1	CCT8L2	22	17072267	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08		17072267	34232299	1390	13065											
CCT8L2	150160	broad.mit.edu	37	chr22	17072678	17072678	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagacgggccgttgctggtgCatttggatgggcaggaccaa	9	8	16	8	2	0	1	0	0	0	1	0	3	0	3	2	5	2	4	2	5	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:17072678C>A	uc002zlp.1	-	1	1023	c.763G>T	c.(763-765)GCA>TCA	p.A255S		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	255					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				GTTGCTGGTGCATTTGGATGG	0.507													23	50					2.79863e-10	2.94434e-10	1	1	0		A	17072678	A	A	17072678	3	1	16	1	0	0	0	0	1	0	0	0	2964	710	25	5	914	5	CCT8L2	22	17072678	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	411	17072678	34231888	1391	13066											
DGCR2	9993	broad.mit.edu	37	chr22	19055664	19055664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcgtggaagtgcgaagggtCgcctcctctggcccgcccct	4	7	14	16	5	1	0	0	0	1	0	3	2	2	1	5	3	1	0	5	3	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:19055664C>T	uc002zoq.1	-	3	525	c.277G>A	c.(277-279)GAC>AAC	p.D93N	DGCR2_uc002zor.1_5'UTR|DGCR2_uc011agr.1_Missense_Mutation_p.D52N	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	93	Extracellular (Potential).				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					TGCGAAGGGTCGCCTCCTCTG	0.627													9	14					0	0	1	0	0		T	19055664	T	T	19055664	3	4	16	1	0	0	0	0	1	0	0	0	4467	884	31	1	1407	1	DGCR2	22	19055664	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1982986	19055664	32248902	1392	13067											
HIRA	7290	broad.mit.edu	37	chr22	19379688	19379688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtacgggcagctaggcttcGcagaactcccattcttctgc	8	10	10	13	2	2	1	0	0	2	1	4	1	3	1	1	2	4	5	1	2	3	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:19379688G>A	uc002zpf.1	-	9	1092	c.872C>T	c.(871-873)GCG>GTG	p.A291V	HIRA_uc011agx.1_Missense_Mutation_p.A157V|HIRA_uc010grn.1_Missense_Mutation_p.A291V|HIRA_uc010gro.1_Missense_Mutation_p.A247V|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	291	WD 6.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					GCTAGGCTTCGCAGAACTCCC	0.458													13	33					0	0	1	0	0		A	19379688	A	A	19379688	3	1	16	1	0	0	0	0	1	0	0	0	7136	1087	38	1	2249	1	HIRA	22	19379688	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	324024	19379688	31924878	1393	13068											
KLHL22	84861	broad.mit.edu	37	chr22	20819360	20819360	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcccccgaagcccacaacGcactggaagtccgaccgcag	11	3	10	17	4	0	0	0	0	0	0	1	3	1	1	5	1	3	2	5	1	3	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:20819360G>A	uc002zsl.1	-	4	1006	c.897C>T	c.(895-897)TGC>TGT	p.C299C	KLHL22_uc011ahr.1_Silent_p.C156C|KLHL22_uc002zsm.1_Silent_p.C299C	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	299	Kelch 1.				cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			AGCCCACAACGCACTGGAAGT	0.617													13	22					0	0	1	0	0		A	20819360	A	A	20819360	2	1	16	1	0	0	0	0	0	0	0	1	8393	1079	38	1		1	KLHL22	22	20819360	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1439672	20819360	30485206	1394	13069											
LZTR1	8216	broad.mit.edu	37	chr22	21351217	21351217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaggcactggacatgaagCggcactgcctgcacatcatt	10	7	11	13	2	1	1	1	1	0	0	1	2	1	2	1	3	3	4	1	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:21351217C>T	uc002zto.2	+	20	2471	c.2368C>T	c.(2368-2370)CGG>TGG	p.R790W	LZTR1_uc002ztn.2_Missense_Mutation_p.R749W|LZTR1_uc011ahy.1_Missense_Mutation_p.R771W|LZTR1_uc002ztp.2_Missense_Mutation_p.R96W	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	790					anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			GGACATGAAGCGGCACTGCCT	0.617													11	38					0	0	1	0	0		T	21351217	T	T	21351217	3	4	16	1	0	0	0	0	1	0	0	0	9155	759	27	1	2446	1	LZTR1	22	21351217	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	531857	21351217	29953349	1395	13070											
PIWIL3	440822	broad.mit.edu	37	chr22	25145382	25145382	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcacttactcttgtagagtAttgatgaattcttttaatgt	11	18	7	5	0	2	3	0	2	2	1	2	3	2	3	0	0	2	3	0	0	5	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:25145382A>G	uc003abd.1	-	11	1740	c.1323T>C	c.(1321-1323)AAT>AAC	p.N441N	PIWIL3_uc011ajx.1_Silent_p.N332N|PIWIL3_uc011ajy.1_Silent_p.N332N|PIWIL3_uc010gut.1_Silent_p.N441N	NM_001008496	NP_001008496	Q7Z3Z3	PIWL3_HUMAN	piwi-like 3	441					cell differentiation|gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatogenesis	cytoplasm	RNA binding			ovary(3)|central_nervous_system(1)	4						CTTGTAGAGTATTGATGAATT	0.398													37	81					0	0	1	0	0		G	25145382	G	G	25145382	2	3	16	1	0	0	0	0	0	0	0	1	11978	446	16	3		3	PIWIL3	22	25145382	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	3794165	25145382	26159184	1396	13071											
HPS4	89781	broad.mit.edu	37	chr22	26861510	26861510	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctggacattcgggggcaaTgccgctcctggaattgcaaa	10	9	12	10	2	1	0	0	0	1	0	3	2	2	2	2	4	2	3	2	4	3	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:26861510T>C	uc003acl.2	-	10	1373	c.714A>G	c.(712-714)GCA>GCG	p.A238A	HPS4_uc003aci.2_Silent_p.A233A|HPS4_uc003acj.2_Silent_p.A102A|HPS4_uc003ack.2_Silent_p.A29A|HPS4_uc003acn.2_Silent_p.A84A|HPS4_uc010gvd.1_Silent_p.A256A|HPS4_uc003ach.2_5'UTR	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	238					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						TCGGGGGCAATGCCGCTCCTG	0.527									Hermansky-Pudlak_syndrome				8	71					0	0	1	0	0		C	26861510	C	C	26861510	2	2	16	1	0	0	0	0	0	0	0	1	7357	1451	51	3		3	HPS4	22	26861510	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1716128	26861510	24443056	1397	13072											
HPS4	89781	broad.mit.edu	37	chr22	26868359	26868359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgaaggtgtcccactccGtgctcagttcttcctgagaa	8	11	10	12	2	2	2	1	2	1	1	5	4	5	2	3	1	1	2	3	1	2	2	rs150403254	by1000genomes	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:26868359G>A	uc003acl.2	-	6	1069	c.410C>T	c.(409-411)ACG>ATG	p.T137M	HPS4_uc003aci.2_Missense_Mutation_p.T132M|HPS4_uc003acj.2_Translation_Start_Site|HPS4_uc003ack.2_Translation_Start_Site|HPS4_uc003acn.2_Translation_Start_Site|HPS4_uc010gvd.1_Missense_Mutation_p.T137M|HPS4_uc003ach.2_Translation_Start_Site	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	137					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						GTCCCACTCCGTGCTCAGTTC	0.423									Hermansky-Pudlak_syndrome				44	69					0	0	1	0	0		A	26868359	A	A	26868359	3	1	16	1	0	0	0	0	1	0	0	0	7357	1145	40	1	1752	1	HPS4	22	26868359	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6849	26868359	24436207	1398	13073											
CRYBB1	1414	broad.mit.edu	37	chr22	27012211	27012211	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgttcctgcaggtggggcccCcttccccttggtgtcaggcc	2	11	13	15	0	1	0	1	0	0	0	3	0	3	0	6	5	1	2	6	5	0	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:27012211C>A	uc003acy.1	-	2	143	c.73G>T	c.(73-75)GGG>TGG	p.G25W		NM_001887	NP_001878	P53674	CRBB1_HUMAN	crystallin, beta B1	25	N-terminal arm.				visual perception		structural constituent of eye lens			ovary(1)	1						GGTGGGGCCCCCTTCCCCTTG	0.637													18	41					1.67942e-08	1.74908e-08	1	1	0		A	27012211	A	A	27012211	3	1	16	1	0	0	0	0	1	0	0	0	3913	623	22	5	705	5	CRYBB1	22	27012211	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	143852	27012211	24292355	1399	13074											
AP1B1	162	broad.mit.edu	37	chr22	29755831	29755831	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accttcacaaaggtgttgacGgccataatggccatgtcagg	11	9	11	10	1	2	1	2	1	0	0	2	1	2	1	3	4	0	1	3	4	2	3	rs143484030	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:29755831G>A	uc003afj.2	-	4	445	c.261C>T	c.(259-261)GCC>GCT	p.A87A	AP1B1_uc003afi.2_Silent_p.A87A|AP1B1_uc003afk.2_Silent_p.A87A|AP1B1_uc003afl.2_Silent_p.A87A	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	87					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						AGGTGTTGACGGCCATAATGG	0.547											OREG0026449	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	47					0	0	1	0	0		A	29755831	A	A	29755831	2	1	16	1	0	0	0	0	0	0	0	1	731	1103	39	1		1	AP1B1	22	29755831	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2743620	29755831	21548735	1400	13075											
MYH9	4627	broad.mit.edu	37	chr22	36702620	36702620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcagtgcggtctccgacatgCcggccacctggtccaggccg	5	6	14	16	4	1	0	0	0	1	0	3	1	2	0	6	4	2	1	6	4	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:36702620C>T	uc003apg.2	-	16	2108	c.1877G>A	c.(1876-1878)GGC>GAC	p.G626D	MYH9_uc003aph.1_Missense_Mutation_p.G490D	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	626	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CTCCGACATGCCGGCCACCTG	0.637			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				3	26					0	0	1	0	0		T	36702620	T	T	36702620	3	4	16	1	0	0	0	0	1	0	0	0	10060	739	26	2	4109	2	MYH9	22	36702620	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6946789	36702620	14601946	1401	13076											
MYH9	4627	broad.mit.edu	37	chr22	36708256	36708256	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcagggccagaatgccCggggggcctgcctggaggaa	8	4	17	12	1	0	1	0	0	0	1	1	3	1	3	5	6	3	1	5	6	2	0	rs145517108	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:36708256C>T	uc003apg.2	-	14	1797	c.1566G>A	c.(1564-1566)CCG>CCA	p.P522P	MYH9_uc003aph.1_Silent_p.P386P	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	522	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CCAGAATGCCCGGGGGGCCTG	0.637			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				15	32					0	0	1	0	0		T	36708256	T	T	36708256	2	4	16	1	0	0	0	0	0	0	0	1	10060	639	23	1		1	MYH9	22	36708256	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5636	36708256	14596310	1402	13077											
PLA2G6	8398	broad.mit.edu	37	chr22	38525530	38525530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggtgtccacttctgctcCgaacacgatgagggccttga	7	9	13	12	3	1	2	0	2	1	0	3	4	3	2	3	3	2	1	3	3	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:38525530C>T	uc003auy.1	-	8	1253	c.1117G>A	c.(1117-1119)GGA>AGA	p.G373R	PLA2G6_uc003auz.1_Missense_Mutation_p.G373R|PLA2G6_uc003ava.1_Missense_Mutation_p.G373R|PLA2G6_uc003avb.2_Missense_Mutation_p.G373R|PLA2G6_uc010gxk.1_RNA|PLA2G6_uc011ano.1_Missense_Mutation_p.G338R	NM_003560	NP_003551	O60733	PA2G6_HUMAN	phospholipase A2, group VI isoform a	373	ANK 7.				cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)	ACTTCTGCTCCGAACACGATG	0.542													31	56					0	0	1	0	0		T	38525530	T	T	38525530	3	4	16	1	0	0	0	0	1	0	0	0	12027	661	23	1	1343	1	PLA2G6	22	38525530	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1817274	38525530	12779036	1403	13078											
KCNJ4	3761	broad.mit.edu	37	chr22	38823343	38823343	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaagcgggctgtcctcgtcGatctcgtggacaatgatgat	9	11	12	9	4	1	2	0	2	1	0	5	4	2	3	1	2	1	1	1	2	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:38823343G>A	uc003avs.1	-	2	892	c.795C>T	c.(793-795)ATC>ATT	p.I265I	KCNJ4_uc003avt.1_Silent_p.I265I	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	265	Cytoplasmic (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					TGTCCTCGTCGATCTCGTGGA	0.617													14	38					0	0	1	0	0		A	38823343	A	A	38823343	2	1	16	1	0	0	0	0	0	0	0	1	8069	1048	37	1		1	KCNJ4	22	38823343	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	297813	38823343	12481223	1404	13079											
PDGFB	5155	broad.mit.edu	37	chr22	39621797	39621797	+	Frame_Shift_Del	DEL	G	-	-																															aatttccggtgcttgcccttGgggggccggcggactcgcac																								rs67510150		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:39621797delG	uc003axf.2	-	6	1646	c.657delC	c.(655-657)CCCfs	p.P219fs	PDGFB_uc003axe.2_Frame_Shift_Del_p.P204fs	NM_002608	NP_002599	P01127	PDGFB_HUMAN	platelet-derived growth factor beta isoform 1	219					activation of protein kinase B activity|cellular response to mycophenolic acid|embryonic placenta development|heart development|hemopoiesis|metanephric glomerular mesangial cell development|monocyte chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|negative regulation of transcription, DNA-dependent|paracrine signaling|peptidyl-serine phosphorylation|peptidyl-tyrosine phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of calcium ion import|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of cyclin-dependent protein kinase activity|positive regulation of DNA biosynthetic process|positive regulation of DNA replication|positive regulation of endothelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of glomerular filtration|positive regulation of glomerular mesangial cell proliferation|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent|reactive oxygen species metabolic process|transforming growth factor beta receptor signaling pathway	basolateral plasma membrane|cell surface|endoplasmic reticulum lumen|extracellular region|Golgi membrane|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|superoxide-generating NADPH oxidase activator activity	p.P219P(1)	COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(1)	373	Melanoma(58;0.04)				Becaplermin(DB00102)	GCTTGCCCTTGGGGGGCCGGC	0.597			T	COL1A1	DFSP								14	32	---	---	---	---						.	-	39621797	-	-	39621797	7	5	16	1	0	1	0	1	0	0	0	0	11677	1335	47	0	72	0	PDGFB	22	39621797	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	798454	39621797	11682769	1405	13080											
TAB1	10454	broad.mit.edu	37	chr22	39826041	39826041	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagcccgaccttaaccctGcagtccaccaacacgcacac	13	4	5	19	2	0	0	0	0	0	0	1	1	1	0	5	0	4	2	5	0	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:39826041G>T	uc003axt.2	+	11	1378	c.1329G>T	c.(1327-1329)CTG>CTT	p.L443L	TAB1_uc003axr.2_Silent_p.L519L|TAB1_uc011aok.1_Silent_p.L277L|TAB1_uc003axu.1_Intron	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	443					activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1						CCTTAACCCTGCAGTCCACCA	0.672													24	46					3.1745e-13	3.38273e-13	1	1	0		T	39826041	T	T	39826041	2	4	16	1	0	0	0	0	0	0	0	1	15520	1306	46	5		5	TAB1	22	39826041	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	204244	39826041	11478525	1406	13081											
EP300	2033	broad.mit.edu	37	chr22	41564766	41564766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagaatcctttccataccGaaccaaagccctctttgcct	10	10	6	15	1	1	1	0	0	1	1	3	2	3	1	6	1	4	1	6	1	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:41564766G>A	uc003azl.3	+	25	4462	c.4067G>A	c.(4066-4068)CGA>CAA	p.R1356Q		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1356					apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						TTTCCATACCGAACCAAAGCC	0.468			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				15	61					0	0	1	0	0		A	41564766	A	A	41564766	3	1	16	1	0	0	0	0	1	0	0	0	5156	1058	37	1	4165	1	EP300	22	41564766	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1738725	41564766	9739800	1407	13082											
RANGAP1	5905	broad.mit.edu	37	chr22	41652106	41652106	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccttcttctcccagggtgTtgcctgctcaaggggaggga	6	10	14	11	0	3	0	1	0	2	0	4	2	3	2	3	4	3	2	3	4	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:41652106T>C	uc003azs.2	-	9	2462	c.992A>G	c.(991-993)AAC>AGC	p.N331S	RANGAP1_uc003azt.2_Missense_Mutation_p.N331S|RANGAP1_uc003azu.2_Missense_Mutation_p.N331S|RANGAP1_uc011aoz.1_Missense_Mutation_p.N276S	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	331	LRR 6.				mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						TCCCAGGGTGTTGCCTGCTCA	0.632													15	28					0	0	1	0	0		C	41652106	C	C	41652106	3	2	16	1	0	0	0	0	1	0	0	0	13058	1725	60	3	799	3	RANGAP1	22	41652106	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	87340	41652106	9652460	1408	13083											
A4GALT	53947	broad.mit.edu	37	chr22	43089153	43089153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgcggcaggcgcggctctCggccaggctgcggatggaac	5	4	18	14	6	1	0	0	0	1	0	2	2	1	2	2	7	2	3	2	7	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:43089153C>T	uc003bdb.2	-	3	1066	c.805G>A	c.(805-807)GAG>AAG	p.E269K	A4GALT_uc010gzd.2_Missense_Mutation_p.E269K	NM_017436	NP_059132	Q9NPC4	A4GAT_HUMAN	alpha 1,4-galactosyltransferase	269	Lumenal (Potential).				glycosphingolipid biosynthetic process|plasma membrane organization	Golgi stack|integral to Golgi membrane|membrane fraction	lactosylceramide 4-alpha-galactosyltransferase activity			central_nervous_system(2)	2						GCGCGGCTCTCGGCCAGGCTG	0.647													7	1					0	0	1	0	0		T	43089153	T	T	43089153	3	4	16	1	0	0	0	0	1	0	0	0	6	893	31	1	260	1	A4GALT	22	43089153	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1437047	43089153	8215413	1409	13084											
SCUBE1	80274	broad.mit.edu	37	chr22	43604220	43604220	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcataggtggtgatggaCgtgggagaggctgcgggtga	7	9	20	5	2	1	3	1	2	1	1	2	5	1	4	0	6	1	1	0	6	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:43604220C>A	uc003bdt.1	-	20	2680	c.2592G>T	c.(2590-2592)ACG>ACT	p.T864T		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	864	CUB.				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				TGGTGATGGACGTGGGAGAGG	0.453													22	34					2.21704e-12	2.35338e-12	1	1	0		A	43604220	A	A	43604220	2	1	16	1	0	0	0	0	0	0	0	1	13969	523	19	5		5	SCUBE1	22	43604220	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	515067	43604220	7700346	1410	13085											
FBLN1	2192	broad.mit.edu	37	chr22	45972965	45972965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttttgacatcatcaagcGttacatggacggcatgaccg	10	11	9	11	3	3	2	2	2	1	0	3	3	3	3	1	2	2	2	1	2	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:45972965G>A	uc003bgj.1	+	16	2096	c.1949G>A	c.(1948-1950)CGT>CAT	p.R650H		NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	650					interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		ATCATCAAGCGTTACATGGAC	0.597													18	36					0	0	1	0	0		A	45972965	A	A	45972965	3	1	16	1	0	0	0	0	1	0	0	0	5712	1145	40	1	2491	1	FBLN1	22	45972965	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2368745	45972965	5331601	1411	13086											
C22orf40	150383	broad.mit.edu	37	chr22	46643046	46643046	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcacaaactgcagcaCgagccgaggaccaggaatct	12	5	11	13	2	1	0	0	0	1	0	1	4	1	2	2	2	6	4	2	2	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:46643046C>T	uc003bhe.2	-	3	227	c.186G>A	c.(184-186)TCG>TCA	p.S62S	C22orf40_uc003bhc.2_Silent_p.S62S|C22orf40_uc003bhd.2_Silent_p.S62S|C22orf40_uc003bhf.2_RNA	NM_207327	NP_997210	Q6NVV7	CV040_HUMAN	hypothetical protein LOC150383	62											0						AACTGCAGCACGAGCCGAGGA	0.597													8	11					0	0	1	0	0		T	46643046	T	T	46643046	2	4	16	1	0	0	0	0	0	0	0	1	2151	523	19	1		1	C22orf40	22	46643046	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	670081	46643046	4661520	1412	13087											
PKDREJ	10343	broad.mit.edu	37	chr22	46658051	46658051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttgctccccaggattattCgatccccaccgtagtttctg	6	13	7	15	2	1	0	0	0	1	0	4	2	3	1	6	1	1	3	6	1	2	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:46658051C>T	uc003bhh.2	-	1	1169	c.1169G>A	c.(1168-1170)CGA>CAA	p.R390Q		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	390	Extracellular (Potential).|REJ.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		CAGGATTATTCGATCCCCACC	0.567													13	112					0	0	1	0	0		T	46658051	T	T	46658051	3	4	16	1	0	0	0	0	1	0	0	0	11989	884	31	1	5596	1	PKDREJ	22	46658051	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	15005	46658051	4646515	1413	13088											
CELSR1	9620	broad.mit.edu	37	chr22	46931227	46931227	+	Frame_Shift_Del	DEL	C	-	-																															tcttaggcccagcgctgccgCcccccagaaaggtggaggcc																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:46931227delC	uc003bhw.1	-	1	1841	c.1841delG	c.(1840-1842)GGCfs	p.G614fs		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	614	Extracellular (Potential).|Cadherin 4.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		AGCGCTGCCGCCCCCCAGAAA	0.657													8	17	---	---	---	---						.	-	46931227	-	-	46931227	7	5	16	1	0	1	0	1	0	0	0	0	3224	739	26	0	7343	0	CELSR1	22	46931227	Frame_Shift_Del	DEL	C	TCGA-BR-4292-01A-01D-1126-08	273176	46931227	4373339	1414	13089											
GRAMD4	23151	broad.mit.edu	37	chr22	47064782	47064782	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctcctgcttcttcccctAccgcctggtggggcttgccg	1	11	12	17	2	1	0	0	0	1	0	3	0	3	0	7	4	3	2	7	4	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:47064782A>T	uc003bhx.2	+	12	1100	c.1061A>T	c.(1060-1062)TAC>TTC	p.Y354F	GRAMD4_uc010had.2_Missense_Mutation_p.Y293F	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	354	Helical; (Potential).				apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		TTCTTCCCCTACCGCCTGGTG	0.617													19	31					0	0	1	0	0		T	47064782	T	T	47064782	3	4	16	1	0	0	0	0	1	0	0	0	6768	391	14	5	1107	5	GRAMD4	22	47064782	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	133555	47064782	4239784	1415	13090											
TUBGCP6	85378	broad.mit.edu	37	chr22	50663014	50663014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgttttgcaatttccataCgtaattcctgagaaagacaa	13	14	6	8	1	0	2	0	1	0	2	2	3	2	2	2	0	2	3	2	0	5	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:50663014C>T	uc003bkb.1	-	11	2503	c.1991G>A	c.(1990-1992)CGT>CAT	p.R664H	TUBGCP6_uc003bka.1_5'Flank|TUBGCP6_uc010har.1_Missense_Mutation_p.R664H|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hat.1_5'UTR|TUBGCP6_uc003bkd.1_Missense_Mutation_p.R18H	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	664					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		AATTTCCATACGTAATTCCTG	0.338													21	31					0	0	1	0	0		T	50663014	T	T	50663014	3	4	16	1	0	0	0	0	1	0	0	0	16796	536	19	1	3528	1	TUBGCP6	22	50663014	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3598232	50663014	641552	1416	13091											
PLXNB2	23654	broad.mit.edu	37	chr22	50716155	50716155	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgaggatgttcacccagaaCcggagcggtaagctgaggca	11	7	14	9	2	1	3	1	2	0	1	1	5	1	5	2	4	3	4	2	4	2	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:50716155C>T	uc003bkv.3	-	33	5167	c.5061G>A	c.(5059-5061)CGG>CGA	p.R1687R	PLXNB2_uc003bkt.1_Silent_p.R479R|PLXNB2_uc003bku.1_Silent_p.R672R	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1687	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TCACCCAGAACCGGAGCGGTA	0.642													26	59					0	0	1	0	0		T	50716155	T	T	50716155	2	4	16	1	0	0	0	0	0	0	0	1	12143	494	18	4		4	PLXNB2	22	50716155	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	53141	50716155	588411	1417	13092											
PLXNB2	23654	broad.mit.edu	37	chr22	50728968	50728968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcctcaggctggcacctgCgcccagcaggcccagcaggg	6	3	16	16	1	1	0	1	0	0	0	1	0	1	0	4	5	3	4	4	5	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:50728968C>T	uc003bkv.3	-	3	152	c.46G>A	c.(46-48)GCA>ACA	p.A16T		NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	16					regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CTGGCACCTGCGCCCAGCAGG	0.677													7	12					0	0	1	0	0		T	50728968	T	T	50728968	3	4	16	1	0	0	0	0	1	0	0	0	12143	768	27	1	5610	1	PLXNB2	22	50728968	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	12813	50728968	575598	1418	13093											
SCO2	9997	broad.mit.edu	37	chr22	50962178	50962178	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggcaatggagtggtccacGatgtagtcctggtcctcatc	8	11	12	10	1	1	0	1	0	0	0	5	2	4	1	3	4	0	2	3	4	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:50962178G>A	uc003bma.2	-	2	839	c.663C>T	c.(661-663)ATC>ATT	p.I221I	SCO2_uc003blz.3_Silent_p.I221I	NM_005138	NP_005129	O43819	SCO2_HUMAN	cytochrome oxidase deficient homolog 2	221	Thioredoxin.				cell redox homeostasis|cellular copper ion homeostasis|copper ion transport|oxidation-reduction process|respiratory chain complex IV assembly	mitochondrial inner membrane	copper ion binding				0		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		AGTGGTCCACGATGTAGTCCT	0.572													54	105					0	0	1	0	0		A	50962178	A	A	50962178	2	1	16	1	0	0	0	0	0	0	0	1	13957	1048	37	1		1	SCO2	22	50962178	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	233210	50962178	342388	1419	13094											
SHANK3	85358	broad.mit.edu	37	chr22	51160465	51160465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccacacctccttcgctgacGgacacacttttctactcgag	8	10	6	17	3	1	1	0	1	1	0	4	3	2	2	3	1	1	1	3	1	1	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chr22:51160465G>A	uc003bne.1	+	22	4252	c.4252G>A	c.(4252-4254)GGA>AGA	p.G1418R	SHANK3_uc003bnf.1_Missense_Mutation_p.G865R|SHANK3_uc010hbg.1_Missense_Mutation_p.G600R	NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	1418										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		CTTCGCTGACGGACACACTTT	0.617													7	16					0	0	1	0	0		A	51160465	A	A	51160465	3	1	16	1	0	0	0	0	1	0	0	0	14291	1117	39	1	4338	1	SHANK3	22	51160465	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	198287	51160465	144101	1420	13095											
IL3RA	3563	broad.mit.edu	37	chrX	1471117	1471117	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtacgacctgtacttgaaCgttgccaagtaggtgtgccc	9	10	11	11	2	0	1	0	1	0	0	0	2	0	1	3	1	5	4	3	1	5	5	rs142385163	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:1471117C>T	uc004cps.2	+	5	772	c.423C>T	c.(421-423)AAC>AAT	p.N141N	IL3RA_uc011mhd.1_Silent_p.N63N	NM_002183	NP_002174	P26951	IL3RA_HUMAN	interleukin 3 receptor, alpha precursor	141	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-3 receptor activity			skin(2)|lung(1)	3		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	TGTACTTGAACGTTGCCAAGT	0.647													17	28					0	0	1	0	0		T	1471117	T	T	1471117	2	4	16	1	0	0	0	0	0	0	0	1	7711	535	19	1		1	IL3RA	23	1471117	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08		1471117	153799443	1421	13096											
SFRS17A	8227	broad.mit.edu	37	chrX	1712726	1712726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagatcgacttccccacccGccacgactgggactccttct	8	8	7	18	3	1	1	0	0	1	1	4	4	3	2	5	1	0	0	5	1	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:1712726G>A	uc004cqa.2	+	2	567	c.371G>A	c.(370-372)CGC>CAC	p.R124H	SFRS17A_uc010ncx.1_Missense_Mutation_p.R124H|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'Flank	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	124					B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TTCCCCACCCGCCACGACTGG	0.647													55	51					0	0	1	0	0		A	1712726	A	A	1712726	3	1	16	1	0	0	0	0	1	0	0	0	14198	1087	38	1	373	1	SFRS17A	23	1712726	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	241609	1712726	153557834	1422	13097											
ARSD	414	broad.mit.edu	37	chrX	2825515	2825515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcgggggtcaggggccGtgcctcggaggggtccctgg	3	6	22	10	3	1	0	1	0	0	0	4	2	2	2	3	9	1	0	3	9	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:2825515G>A	uc004cqy.2	-	10	1655	c.1579C>T	c.(1579-1581)CGG>TGG	p.R527W	ARSD_uc004cqz.1_RNA	NM_001669	NP_001660	P51689	ARSD_HUMAN	arylsulfatase D isoform a precursor	527						lysosome	arylsulfatase activity|metal ion binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GTCAGGGGCCGTGCCTCGGAG	0.687													6	7					0	0	1	0	0		A	2825515	A	A	2825515	3	1	16	1	0	0	0	0	1	0	0	0	990	1144	40	1	206	1	ARSD	23	2825515	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1112789	2825515	152445045	1423	13098											
MXRA5	25878	broad.mit.edu	37	chrX	3240641	3240641	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgtagatgtgattggcctgGgacacctggttcccctatag	7	13	12	9	0	0	2	0	1	0	1	1	3	1	3	4	3	0	2	4	3	3	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:3240641G>T	uc004crg.3	-	5	3242	c.3085C>A	c.(3085-3087)CCA>ACA	p.P1029T		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1029						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GATTGGCCTGGGACACCTGGT	0.443													46	93					5.73435e-26	6.28012e-26	1	1	0		T	3240641	T	T	3240641	3	4	16	1	0	0	0	0	1	0	0	0	10021	1232	43	5	5413	5	MXRA5	23	3240641	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	415126	3240641	152029919	1424	13099											
SHROOM2	357	broad.mit.edu	37	chrX	9914758	9914758	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatccagcagcacgaggaCgccaaggagctcaaggagaa	14	3	13	11	2	1	2	1	1	0	1	2	6	2	4	2	3	3	3	2	3	3	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:9914758C>T	uc004csu.1	+	10	4722	c.4632C>T	c.(4630-4632)GAC>GAT	p.D1544D	SHROOM2_uc004csv.2_Silent_p.D378D|SHROOM2_uc011mic.1_Silent_p.D379D|SHROOM2_uc004csw.1_Silent_p.D379D	NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	1544	ASD2.				apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				AGCACGAGGACGCCAAGGAGC	0.557													7	15					0	0	1	0	0		T	9914758	T	T	9914758	2	4	16	1	0	0	0	0	0	0	0	1	14319	535	19	1		1	SHROOM2	23	9914758	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	6674117	9914758	145355802	1425	13100											
FRMPD4	9758	broad.mit.edu	37	chrX	12722594	12722594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcaaaacttggtaccacCgggtaaaaaggtatcacatt	17	9	7	8	1	2	0	2	0	0	0	2	0	2	0	2	3	2	3	2	3	8	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:12722594C>T	uc004cuz.1	+	11	1693	c.1187C>T	c.(1186-1188)CCG>CTG	p.P396L	FRMPD4_uc011mij.1_Missense_Mutation_p.P388L	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	396	FERM.				positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						TTGGTACCACCGGGTAAAAAG	0.338													38	107					0	0	1	0	0		T	12722594	T	T	12722594	3	4	16	1	0	0	0	0	1	0	0	0	6073	652	23	1	1229	1	FRMPD4	23	12722594	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2807836	12722594	142547966	1426	13101											
TLR8	51311	broad.mit.edu	37	chrX	12939203	12939203	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaaagttttttaactggAcattactccagcagtttcct	10	17	6	8	0	0	0	0	0	0	0	2	1	2	1	2	1	3	4	2	1	4	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:12939203A>G	uc004cve.2	+	2	2112	c.2044A>G	c.(2044-2046)ACA>GCA	p.T682A	TLR8_uc004cvd.2_Missense_Mutation_p.T700A	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	682	Extracellular (Potential).|LRR 20.				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						TTTTAACTGGACATTACTCCA	0.378													33	68					0	0	1	0	0		G	12939203	G	G	12939203	3	3	16	1	0	0	0	0	1	0	0	0	15982	275	10	3	2050	3	TLR8	23	12939203	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	216609	12939203	142331357	1427	13102											
TLR8	51311	broad.mit.edu	37	chrX	12939876	12939876	+	Frame_Shift_Del	DEL	A	-	-																															tgagctgcgctaccaccttgAagagagccgagacaaaaacg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:12939876delA	uc004cve.2	+	2	2785	c.2717delA	c.(2716-2718)GAAfs	p.E906fs	TLR8_uc004cvd.2_Frame_Shift_Del_p.E924fs	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	906	Cytoplasmic (Potential).|TIR.				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						TACCACCTTGAAGAGAGCCGA	0.468													63	143	---	---	---	---						.	-	12939876	-	-	12939876	7	5	16	1	0	1	0	1	0	0	0	0	15982	246	9	0	2723	0	TLR8	23	12939876	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	673	12939876	142330684	1428	13103											
ACE2	59272	broad.mit.edu	37	chrX	15607507	15607507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttcaatcaactggccgCggctgtagtcatagccatct	9	11	8	13	2	5	0	3	0	2	0	5	0	5	0	2	2	2	2	2	2	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:15607507C>T	uc004cxa.1	-	5	824	c.656G>A	c.(655-657)CGC>CAC	p.R219H	ACE2_uc004cxb.2_Missense_Mutation_p.R219H	NM_021804	NP_068576	Q9BYF1	ACE2_HUMAN	angiotensin I converting enzyme 2 precursor	219	Extracellular (Potential).			R->D: No effect on interaction with SARS- CoV spike glycoprotein.	angiotensin-mediated drinking behavior|proteolysis|receptor biosynthetic process|regulation of cell proliferation|virion attachment, binding of host cell surface receptor	cell surface|extracellular space|integral to membrane|membrane raft|plasma membrane	carboxypeptidase activity|glycoprotein binding|metallopeptidase activity|peptidyl-dipeptidase activity|viral receptor activity|zinc ion binding			ovary(3)	3	Hepatocellular(33;0.183)				Moexipril(DB00691)	CAACTGGCCGCGGCTGTAGTC	0.423													48	139					0	0	1	0	0		T	15607507	T	T	15607507	3	4	16	1	0	0	0	0	1	0	0	0	137	768	27	1	1817	1	ACE2	23	15607507	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2667631	15607507	139663053	1429	13104											
CTPS2	56474	broad.mit.edu	37	chrX	16720886	16720886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cataaggtgaaaaagtgccaGcatcgatgttaatatagggg	15	9	12	5	1	0	1	0	1	0	0	1	2	0	1	1	3	2	2	1	3	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:16720886G>A	uc004cxk.2	-	2	884	c.140C>T	c.(139-141)GCT>GTT	p.A47V	CTPS2_uc004cxl.2_Missense_Mutation_p.A47V|CTPS2_uc004cxm.2_Missense_Mutation_p.A47V	NM_001144002	NP_001137474	Q9NRF8	PYRG2_HUMAN	cytidine triphosphate synthase II	47					glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine nucleotide biosynthetic process	cytosol	ATP binding|CTP synthase activity			ovary(1)	1	Hepatocellular(33;0.0997)					AAAAGTGCCAGCATCGATGTT	0.418													5	171					0	0	1	0	0		A	16720886	A	A	16720886	3	1	16	1	0	0	0	0	1	0	0	0	4026	971	34	2	1688	2	CTPS2	23	16720886	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1113379	16720886	138549674	1430	13105											
CDKL5	6792	broad.mit.edu	37	chrX	18622107	18622107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgagtgtaggcctgcccCgggctgacgaaggtctccct	6	8	13	14	2	1	2	0	2	1	0	2	3	1	2	5	3	1	2	5	3	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:18622107C>T	uc004cym.2	+	12	1316	c.1063C>T	c.(1063-1065)CGG>TGG	p.R355W	CDKL5_uc004cyn.2_Missense_Mutation_p.R355W	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	355					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					AGGCCTGCCCCGGGCTGACGA	0.493													15	163					0	0	1	0	0		T	18622107	T	T	18622107	3	4	16	1	0	0	0	0	1	0	0	0	3160	643	23	1	1105	1	CDKL5	23	18622107	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1901221	18622107	136648453	1431	13106											
GPR64	10149	broad.mit.edu	37	chrX	19046358	19046359	+	Splice_Site	INS	-	A	A																															tctcacctctaaaaaatgctINSaaaaataaattttcaaaaag																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:19046358_19046359insA	uc004cyx.2	-	10	523	c.359_splice	c.e10-1	p.A120_splice	GPR64_uc004cyy.2_Splice_Site_p.A117_splice|GPR64_uc004cyz.2_Splice_Site_p.A106_splice|GPR64_uc004czb.2_Splice_Site_p.A120_splice|GPR64_uc004czc.2_Splice_Site_p.A104_splice|GPR64_uc004czd.2_Splice_Site_p.A96_splice|GPR64_uc004cze.2_Splice_Site_p.A90_splice|GPR64_uc004czf.2_Splice_Site_p.A82_splice|GPR64_uc004cza.2_Splice_Site_p.A98_splice|GPR64_uc004cyw.2_Splice_Site_p.A104_splice|GPR64_uc010nfj.2_Splice_Site_p.A90_splice	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1						neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					TAAAAAATGCTAAAAATAAATT	0.262													17	37	---	---	---	---						.	A	19046359	A	A	19046358	8	5	16	1	0	1	1	0	0	0	1	0	6720	1536	53	0	2776	0	GPR64	23	19046358	Splice_Site	INS	-	TCGA-BR-4292-01A-01D-1126-08	424251	19046358	136224202	1432	13107											
KLHL34	257240	broad.mit.edu	37	chrX	21674083	21674083	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgctccaggcccagggcaaCgcgcagccgatgtcctccca	7	4	11	19	4	0	0	0	0	0	0	3	1	3	0	6	2	2	3	6	2	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:21674083C>T	uc004czz.1	-	1	2366	c.1824G>A	c.(1822-1824)GCG>GCA	p.A608A		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	608	Kelch 6.									ovary(1)	1						CCCAGGGCAACGCGCAGCCGA	0.692													3	10					0	0	1	0	0		T	21674083	T	T	21674083	2	4	16	1	0	0	0	0	0	0	0	1	8403	523	19	1		1	KLHL34	23	21674083	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2627725	21674083	133596477	1433	13108											
YY2	404281	broad.mit.edu	37	chrX	21863335	21863335	+	Frame_Shift_Del	DEL	T	-	-																															taattgccatgtttagctcaTtttttctccttggaaaaacg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:21863335delT	uc010nfq.2	+	3	468	c.271delT	c.(271-273)TTTfs	p.F91fs	MBTPS2_uc004dae.2_Frame_Shift_Del_p.F91fs|MBTPS2_uc004dab.2_Frame_Shift_Del_p.F91fs	NM_206923	NP_996806	O15391	TYY2_HUMAN	YY2 transcription factor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|plasma membrane	DNA binding|zinc ion binding			breast(1)|skin(1)	2						GTTTAGCTCATTTTTTCTCCT	0.284													51	116	---	---	---	---						.	-	21863335	-	-	21863335	7	5	16	1	0	1	0	1	0	0	0	0	17535	1493	52	0		0	YY2	23	21863335	Frame_Shift_Del	DEL	T	TCGA-BR-4292-01A-01D-1126-08	189252	21863335	133407225	1434	13109											
MAGEB6	158809	broad.mit.edu	37	chrX	26212473	26212473	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaatatgatgtggctgcCgagggtgaagatgaggaaag	14	8	15	4	1	1	4	1	3	0	1	1	6	1	5	1	3	1	1	1	3	5	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:26212473C>T	uc004dbr.2	+	2	659	c.510C>T	c.(508-510)GCC>GCT	p.A170A	MAGEB6_uc010ngc.1_5'UTR	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	170										ovary(3)	3						ATGTGGCTGCCGAGGGTGAAG	0.517													18	51					0	0	1	0	0		T	26212473	T	T	26212473	2	4	16	1	0	0	0	0	0	0	0	1	9197	639	23	1		1	MAGEB6	23	26212473	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	4349138	26212473	129058087	1435	13110											
DCAF8L2	347442	broad.mit.edu	37	chrX	27766493	27766495	+	In_Frame_Del	DEL	TCT	-	-																															cggtagtgattgcgggcacaTcttcttctgggagaaatcat																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:27766493_27766495delTCT	uc011mjy.1	+	1	1568_1570	c.1481_1483delTCT	c.(1480-1485)ATCTTC>ATC	p.F496del		NM_001136533	NP_001130005			DDB1 and CUL4 associated factor 8-like 2											central_nervous_system(1)|pancreas(1)	2						TGCGGGCACATCTTCTTCTGGGA	0.448													12	13	---	---	---	---						.	-	27766495	-	-	27766493	7	5	16	1	0	1	0	1	0	0	0	0	4281	1435	50	0	1483	0	DCAF8L2	23	27766493	In_Frame_Del	DEL	TCT	TCGA-BR-4292-01A-01D-1126-08	1554020	27766493	127504067	1436	13111											
FAM47A	158724	broad.mit.edu	37	chrX	34149285	34149285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcgtggagactggacccccGacgagtcttgggaggcgcta	7	6	16	12	5	1	1	0	0	1	1	1	6	1	3	2	4	0	1	2	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:34149285G>A	uc004ddg.2	-	1	1144	c.1111C>T	c.(1111-1113)CGG>TGG	p.R371W		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	371										ovary(4)|central_nervous_system(1)	5						CTGGACCCCCGACGAGTCTTG	0.642													25	40					0	0	1	0	0		A	34149285	A	A	34149285	3	1	16	1	0	0	0	0	1	0	0	0	5583	1057	37	1	1268	1	FAM47A	23	34149285	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	6382792	34149285	121121275	1437	13112											
FAM47B	170062	broad.mit.edu	37	chrX	34962859	34962859	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttacaagtacaaagaagaCgtcacagatgcatcaaaaga	19	7	8	7	1	2	4	2	0	0	4	2	4	2	4	0	0	3	3	0	0	7	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:34962859C>T	uc004ddi.1	+	1	1929	c.1911C>T	c.(1909-1911)GAC>GAT	p.D637D		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	637										ovary(3)|breast(1)	4						ACAAAGAAGACGTCACAGATG	0.378													68	148					0	0	1	0	0		T	34962859	T	T	34962859	2	4	16	1	0	0	0	0	0	0	0	1	5584	535	19	1		1	FAM47B	23	34962859	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	813574	34962859	120307701	1438	13113											
USP9X	8239	broad.mit.edu	37	chrX	40996215	40996215	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtgaatcagtttcctcAagtgttcagttgcctgaaga	10	13	9	9	0	3	3	3	2	0	1	4	3	4	3	3	0	1	3	3	0	3	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:40996215A>G	uc004dfb.2	+	6	1227	c.594A>G	c.(592-594)TCA>TCG	p.S198S	USP9X_uc004dfc.2_Silent_p.S198S	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	198					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						CAGTTTCCTCAAGTGTTCAGT	0.378													23	41					0	0	1	0	0		G	40996215	G	G	40996215	2	3	16	1	0	0	0	0	0	0	0	1	17116	117	5	3		3	USP9X	23	40996215	Silent	SNP	A	TCGA-BR-4292-01A-01D-1126-08	6033356	40996215	114274345	1439	13114											
RGN	9104	broad.mit.edu	37	chrX	46943850	46943850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccgtggctcttcgccagtCgggaggctatgttgccacca	5	10	12	14	3	1	0	0	0	1	0	4	1	2	1	4	3	1	3	4	3	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:46943850C>T	uc004dgz.1	+	4	1166	c.197C>T	c.(196-198)TCG>TTG	p.S66L	RGN_uc004dha.1_Missense_Mutation_p.S66L|RGN_uc010nho.1_Missense_Mutation_p.S13L|RGN_uc010nhp.1_Missense_Mutation_p.S66L	NM_152869	NP_690608	Q15493	RGN_HUMAN	regucalcin	66					cellular calcium ion homeostasis|positive regulation of ATPase activity|regulation of calcium-mediated signaling	cytoplasm|nucleus	calcium ion binding|enzyme regulator activity|gluconolactonase activity|zinc ion binding				0						CTTCGCCAGTCGGGAGGCTAT	0.483													3	18					0	0	1	0	0		T	46943850	T	T	46943850	3	4	16	1	0	0	0	0	1	0	0	0	13307	893	31	1	203	1	RGN	23	46943850	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	5947635	46943850	108326710	1440	13115											
RBM10	8241	broad.mit.edu	37	chrX	47030582	47030582	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggaggaggaggaggaGgatgaggaggaggaggagaa	15	1	25	0	0	0	2	0	1	0	1	0	14	0	12	0	11	0	0	0	11	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:47030582G>T	uc004dhf.2	+	4	736	c.357G>T	c.(355-357)GAG>GAT	p.E119D	RBM10_uc004dhe.1_Missense_Mutation_p.E109D|RBM10_uc004dhg.2_Intron|RBM10_uc004dhh.2_Missense_Mutation_p.E119D|RBM10_uc010nhq.2_Intron|RBM10_uc004dhi.2_Missense_Mutation_p.E184D	NM_005676	NP_005667	P98175	RBM10_HUMAN	RNA binding motif protein 10 isoform 1	119	Poly-Glu.				mRNA processing|RNA splicing	chromatin remodeling complex	nucleotide binding|RNA binding|zinc ion binding			ovary(1)|large_intestine(1)|prostate(1)|breast(1)|pancreas(1)	5						aggaggaggaggatgaggagg	0.522													3	21					0.115264	0.115683	1	1	0		T	47030582	T	T	47030582	3	4	16	1	0	0	0	0	1	0	0	0	13136	991	35	5	367	5	RBM10	23	47030582	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	86732	47030582	108239978	1441	13116											
SSX5	6758	broad.mit.edu	37	chrX	48053565	48053565	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccccttcccatctactcacCctgattcccacggttagggt	6	11	7	17	1	2	1	1	1	1	0	4	1	4	1	5	2	1	1	5	2	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:48053565C>A	uc004dja.1	-	4	333	c.280G>T	c.(280-282)GTT>TTT	p.V94F	SSX5_uc004diz.1_Missense_Mutation_p.V135F	NM_175723	NP_783729	O60225	SSX5_HUMAN	synovial sarcoma, X breakpoint 5 isoform b	94					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding				0						ATCTACTCACCCTGATTCCCA	0.493													16	96					1.56452e-12	1.66181e-12	1	1	0		A	48053565	A	A	48053565	3	1	16	1	0	0	0	0	1	0	0	0	15233	637	22	5	302	5	SSX5	23	48053565	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1022983	48053565	107216995	1442	13117											
SSX1	6756	broad.mit.edu	37	chrX	48123279	48123279	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagtgtcagaagcatctggCccacaaaacgatgggaaaca	15	5	12	9	1	2	1	1	0	1	1	2	4	2	3	1	3	3	1	1	3	4	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:48123279C>T	uc004djb.1	+	6	484	c.393C>T	c.(391-393)GGC>GGT	p.G131G		NM_005635	NP_005626	Q16384	SSX1_HUMAN	synovial sarcoma, X breakpoint 1	131					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|transcription corepressor activity		SS18/SSX1(1169)	soft_tissue(1169)	1169						AAGCATCTGGCCCACAAAACG	0.418													4	204					0	0	1	0	0		T	48123279	T	T	48123279	2	4	16	1	0	0	0	0	0	0	0	1	15228	726	26	2		2	SSX1	23	48123279	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	69714	48123279	107147281	1443	13118											
TBC1D25	4943	broad.mit.edu	37	chrX	48399811	48399811	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgcagcacatcctcatcCgagcctttgatttgagtggg	7	13	11	10	1	1	2	1	2	0	0	3	3	3	2	3	1	3	3	3	1	0	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:48399811C>T	uc004dka.1	+	2	325	c.214C>T	c.(214-216)CGA>TGA	p.R72*	TBC1D25_uc011mly.1_5'UTR|TBC1D25_uc004dkb.1_5'UTR|TBC1D25_uc011mlz.1_Intron|TBC1D25_uc011mma.1_5'UTR|TBC1D25_uc004dkc.1_5'UTR|TBC1D25_uc011mmb.1_Nonsense_Mutation_p.R76*|TBC1D25_uc011mmc.1_5'UTR|TBC1D25_uc011mmd.1_5'UTR	NM_002536	NP_002527	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	72						intracellular	Rab GTPase activator activity			ovary(1)	1						CATCCTCATCCGAGCCTTTGA	0.552													49	87					0	0	1	0	0		T	48399811	T	T	48399811	4	4	16	1	0	0	0	0	0	1	0	0	15640	644	23	1	220	1	TBC1D25	23	48399811	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	276532	48399811	106870749	1444	13119											
PQBP1	10084	broad.mit.edu	37	chrX	48759706	48759706	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaacgggatcgggaccgCgggtatgacaaggcagaccg	11	3	18	9	5	0	2	0	1	0	1	1	5	0	5	2	5	1	2	2	5	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:48759706C>T	uc004dle.2	+	5	678	c.489C>T	c.(487-489)CGC>CGT	p.R163R	PQBP1_uc004dlf.2_Silent_p.R163R|PQBP1_uc004dlg.2_Silent_p.R163R|PQBP1_uc004dld.2_Intron|PQBP1_uc004dlh.2_Silent_p.R163R|PQBP1_uc004dli.2_Silent_p.R163R|PQBP1_uc004dlj.1_Silent_p.R163R|PQBP1_uc004dln.2_Silent_p.R163R|PQBP1_uc010nih.2_RNA|PQBP1_uc010nii.2_Silent_p.R121R|PQBP1_uc004dlk.2_Intron|PQBP1_uc004dll.2_Intron|PQBP1_uc004dlm.2_Silent_p.R121R|PQBP1_uc010nij.2_Intron	NM_001032382	NP_001027554	O60828	PQBP1_HUMAN	polyglutamine binding protein 1	163	Arg-rich.|3-7.|7 X 2 AA tandem repeats of [DE]-R.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|transcription coactivator activity			large_intestine(1)	1						ATCGGGACCGCGGGTATGACA	0.612													5	14					0	0	1	0	0		T	48759706	T	T	48759706	2	4	16	1	0	0	0	0	0	0	0	1	12439	755	27	1		1	PQBP1	23	48759706	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	359895	48759706	106510854	1445	13120											
SYP	6855	broad.mit.edu	37	chrX	49049793	49049793	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatgtgttccctgtctggCggcagacaggcatctccttg	5	12	12	12	1	2	1	0	0	2	1	4	1	3	1	2	3	1	4	2	3	0	2	rs150959416		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:49049793C>T	uc004dmz.1	-	5	567	c.551G>A	c.(550-552)CGC>CAC	p.R184H	SYP_uc011mmz.1_Missense_Mutation_p.R66H|SYP_uc004dna.1_Missense_Mutation_p.R178H	NM_003179	NP_003170	P08247	SYPH_HUMAN	synaptophysin	184	Vesicular (Potential).|MARVEL.				regulation of long-term neuronal synaptic plasticity|regulation of short-term neuronal synaptic plasticity|synaptic vesicle maturation|synaptic vesicle membrane organization	cell junction|integral to synaptic vesicle membrane|synaptosome	calcium ion binding|cholesterol binding|transporter activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(315;0.00016)				CCCTGTCTGGCGGCAGACAGG	0.577													10	28					0	0	1	0	0		T	49049793	T	T	49049793	3	4	16	1	0	0	0	0	1	0	0	0	15486	768	27	1	398	1	SYP	23	49049793	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	290087	49049793	106220767	1446	13121											
GPR173	54328	broad.mit.edu	37	chrX	53106173	53106173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcagcgtcacccgctacatgGccatcgcccaccaccgcttc	7	7	7	20	4	2	0	2	0	0	0	4	0	2	0	5	1	2	2	5	1	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:53106173G>A	uc004dru.2	+	2	628	c.370G>A	c.(370-372)GCC>ACC	p.A124T		NM_018969	NP_061842	Q9NS66	GP173_HUMAN	G protein-coupled receptor 173	124	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						CCGCTACATGGCCATCGCCCA	0.592													12	47					0	0	1	0	0		A	53106173	A	A	53106173	3	1	16	1	0	0	0	0	1	0	0	0	6686	1203	42	2	372	2	GPR173	23	53106173	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4056380	53106173	102164387	1447	13122											
TSPYL2	64061	broad.mit.edu	37	chrX	53112052	53112052	+	Frame_Shift_Del	DEL	G	-	-																															ctccccactcctgaggcctcGggggggagcctggaaatcga																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:53112052delG	uc004drw.2	+	1	504	c.372delG	c.(370-372)TCGfs	p.S124fs	TSPYL2_uc004drv.2_Frame_Shift_Del_p.S124fs|TSPYL2_uc004drx.1_5'Flank	NM_022117	NP_071400	Q9H2G4	TSYL2_HUMAN	TSPY-like 2	124					cell cycle|chromatin modification|negative regulation of cell cycle|negative regulation of cell growth|negative regulation of DNA replication|nucleosome assembly|regulation of protein kinase activity|regulation of signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|rDNA binding				0						CTGAGGCCTCGGGGGGGAGCC	0.642													8	7	---	---	---	---						.	-	53112052	-	-	53112052	7	5	16	1	0	1	0	1	0	0	0	0	16686	1103	39	0	374	0	TSPYL2	23	53112052	Frame_Shift_Del	DEL	G	TCGA-BR-4292-01A-01D-1126-08	5879	53112052	102158508	1448	13123											
HUWE1	10075	broad.mit.edu	37	chrX	53587313	53587313	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccagtgtcagagaactgtgGtctgcatggcgcaccatcag	9	8	12	12	1	3	1	2	0	1	1	3	2	3	1	2	2	2	2	2	2	1	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:53587313G>A	uc004dsp.2	-	56	7974	c.7572C>T	c.(7570-7572)GAC>GAT	p.D2524D	HUWE1_uc004dsn.2_Silent_p.D1348D	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2524					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GAGAACTGTGGTCTGCATGGC	0.552													11	47					0	0	1	0	0		A	53587313	A	A	53587313	2	1	16	1	0	0	0	0	0	0	0	1	7477	1252	44	4		4	HUWE1	23	53587313	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	475261	53587313	101683247	1449	13124											
HUWE1	10075	broad.mit.edu	37	chrX	53589102	53589102	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcatcttcctcctcctcCtcctcttcatcctgactatc	4	16	1	20	0	4	1	2	1	2	0	12	1	11	1	7	0	0	0	7	0	1	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:53589102C>T	uc004dsp.2	-	54	7710	c.7308G>A	c.(7306-7308)GAG>GAA	p.E2436E	HUWE1_uc004dsn.2_Silent_p.E1260E	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2436	Asp-rich.|Glu-rich.				base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						cctcctcctcctcctcttcat	0.428													25	36					0	0	1	0	0		T	53589102	T	T	53589102	2	4	16	1	0	0	0	0	0	0	0	1	7477	680	24	4		4	HUWE1	23	53589102	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1789	53589102	101681458	1450	13125											
MAGED2	10916	broad.mit.edu	37	chrX	54841883	54841883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggaccctgggccaaagcccGgatccaggcgggagcagaag	10	2	16	13	3	0	1	0	0	0	1	1	4	1	4	4	5	2	1	4	5	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:54841883G>A	uc004dtk.1	+	12	1683	c.1589G>A	c.(1588-1590)CGG>CAG	p.R530Q	MAGED2_uc004dtl.1_Missense_Mutation_p.R530Q|MAGED2_uc004dtm.1_Missense_Mutation_p.R445Q|MAGED2_uc010nkc.1_Intron|MAGED2_uc004dtn.1_Missense_Mutation_p.R530Q|MAGED2_uc004dto.1_Missense_Mutation_p.R504Q	NM_177433	NP_803182	Q9UNF1	MAGD2_HUMAN	melanoma antigen family D, 2	530										ovary(2)|breast(1)	3						GCCAAAGCCCGGATCCAGGCG	0.448													4	10					0	0	1	0	0		A	54841883	A	A	54841883	3	1	16	1	0	0	0	0	1	0	0	0	9202	1116	39	1	1631	1	MAGED2	23	54841883	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1252781	54841883	100428677	1451	13126											
TRO	7216	broad.mit.edu	37	chrX	54957360	54957360	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcttcggcggtggaccaaaCactggtgctggctttggtgg	5	10	17	9	2	0	0	0	0	0	0	1	1	0	1	1	8	2	3	1	8	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:54957360C>T	uc004dtq.2	+	12	4310	c.4203C>T	c.(4201-4203)AAC>AAT	p.N1401N	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_RNA|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Silent_p.N932N|TRO_uc004dtw.2_Silent_p.N1004N|TRO_uc004dtx.2_Silent_p.N784N	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	1401	60; approximate.|62 X 10 AA approximate tandem repeats.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GTGGACCAAACACTGGTGCTG	0.617													14	22					0	0	1	0	0		T	54957360	T	T	54957360	2	4	16	1	0	0	0	0	0	0	0	1	16600	477	17	4		4	TRO	23	54957360	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	115477	54957360	100313200	1452	13127											
USP51	158880	broad.mit.edu	37	chrX	55514444	55514444	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgaggtggaagttaataatCtcaaaattttttcttttgtt	11	20	7	3	0	2	1	1	1	2	0	3	2	2	2	0	2	0	2	0	2	5	9			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:55514444C>G	uc004dun.1	-	2	1008	c.929G>C	c.(928-930)AGA>ACA	p.R310T	USP51_uc011moo.1_Intron	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	310					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						AGTTAATAATCTCAAAATTTT	0.358													31	78					0	0	1	0	0		G	55514444	G	G	55514444	3	3	16	1	0	0	0	0	1	0	0	0	17109	913	32	5	1210	5	USP51	23	55514444	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	557084	55514444	99756116	1453	13128											
OPHN1	4983	broad.mit.edu	37	chrX	67293039	67293039	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagaaaaccgtcctttctcGcagcaagcgctttgaaatcg	12	10	8	11	4	1	2	0	1	1	1	4	2	2	2	2	0	3	3	2	0	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:67293039G>A	uc004dww.3	-	20	2083	c.1789C>T	c.(1789-1791)CGA>TGA	p.R597*	OPHN1_uc011mpg.1_Nonsense_Mutation_p.R597*	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	597					axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						GTCCTTTCTCGCAGCAAGCGC	0.498													15	18					0	0	1	0	0		A	67293039	A	A	67293039	4	1	16	1	0	0	0	0	0	1	0	0	10894	1095	38	1	639	1	OPHN1	23	67293039	Nonsense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	11778595	67293039	87977521	1454	13129											
NLGN3	54413	broad.mit.edu	37	chrX	70389754	70389754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccccccatgacacgctgcGcctcactgcattgcccgact	6	8	7	20	3	1	1	1	1	0	0	2	2	2	1	5	0	3	2	5	0	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:70389754G>A	uc004dzb.2	+	7	2598	c.2294G>A	c.(2293-2295)CGC>CAC	p.R765H	NLGN3_uc004dzc.2_Missense_Mutation_p.R648H|NLGN3_uc011mps.1_Missense_Mutation_p.R745H|NLGN3_uc004dze.2_Missense_Mutation_p.R583H	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	785	Cytoplasmic (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					GACACGCTGCGCCTCACTGCA	0.647													4	3					0	0	1	0	0		A	70389754	A	A	70389754	3	1	16	1	0	0	0	0	1	0	0	0	10482	1087	38	1	2380	1	NLGN3	23	70389754	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	3096715	70389754	84880806	1455	13130											
ACRC	93953	broad.mit.edu	37	chrX	70823624	70823624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacgacaacagtgatgattCggaagctcccgacgacaaca	14	6	10	11	4	0	3	0	3	0	0	2	7	1	4	1	1	3	1	1	1	3	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:70823624C>T	uc004eae.2	+	8	998	c.497C>T	c.(496-498)TCG>TTG	p.S166L	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	166	Asp/Ser-rich.					nucleus				ovary(3)	3	Renal(35;0.156)					AGTGATGATTCGGAAGCTCCC	0.498													6	317					0	0	1	0	0		T	70823624	T	T	70823624	3	4	16	1	0	0	0	0	1	0	0	0	171	893	31	1	523	1	ACRC	23	70823624	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	433870	70823624	84446936	1456	13131											
HDAC8	55869	broad.mit.edu	37	chrX	71681927	71681927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatgtccagcatcgagccGtgttggcaaggttatagcct	9	11	12	9	2	0	0	0	0	0	0	2	1	1	0	3	2	3	5	3	2	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:71681927G>A	uc004eau.2	-	9	974	c.932C>T	c.(931-933)ACG>ATG	p.T311M	HDAC8_uc011mqe.1_Missense_Mutation_p.T168M|HDAC8_uc011mqf.1_Missense_Mutation_p.T116M|HDAC8_uc011mqg.1_Missense_Mutation_p.T220M	NM_018486	NP_060956	Q9BY41	HDAC8_HUMAN	histone deacetylase 8	311	Histone deacetylase.				chromatin assembly or disassembly|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nuclear chromosome	histone deacetylase activity (H3-K16 specific)|metal ion binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding				0	Renal(35;0.156)				Vorinostat(DB02546)	GCATCGAGCCGTGTTGGCAAG	0.478													16	46					0	0	1	0	0		A	71681927	A	A	71681927	3	1	16	1	0	0	0	0	1	0	0	0	7029	1145	40	1	213	1	HDAC8	23	71681927	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	858303	71681927	83588633	1457	13132											
ZCCHC13	389874	broad.mit.edu	37	chrX	73524363	73524363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatcctaaacgagagagaCgccaacactgttatacctgc	14	7	9	11	2	0	2	0	0	0	2	1	5	1	3	3	1	4	1	3	1	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:73524363C>T	uc004ebs.3	+	1	339	c.262C>T	c.(262-264)CGC>TGC	p.R88C		NM_203303	NP_976048	Q8WW36	ZCH13_HUMAN	zinc finger, CCHC domain containing 13	88							nucleic acid binding|zinc ion binding				0						ACGAGAGAGACGCCAACACTG	0.498													22	67					0	0	1	0	0		T	73524363	T	T	73524363	3	4	16	1	0	0	0	0	1	0	0	0	17607	536	19	1	264	1	ZCCHC13	23	73524363	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1842436	73524363	81746197	1458	13133											
KIAA2022	340533	broad.mit.edu	37	chrX	73961202	73961202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaaagggaagagtggcGgaatttgtcaggggtgaagt	11	9	17	4	1	2	3	1	2	1	1	2	5	2	5	0	5	0	0	0	5	4	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:73961202G>A	uc004eby.2	-	3	3807	c.3190C>T	c.(3190-3192)CGC>TGC	p.R1064C		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1064					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GAAGAGTGGCGGAATTTGTCA	0.493													30	59					0	0	1	0	0		A	73961202	A	A	73961202	3	1	16	1	0	0	0	0	1	0	0	0	8285	1116	39	1	1368	1	KIAA2022	23	73961202	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	436839	73961202	81309358	1459	13134											
MAGEE1	57692	broad.mit.edu	37	chrX	75650737	75650737	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggacagaactagtggtacTtgatcccaggaatcactcct	11	10	10	10	0	1	2	1	1	0	1	3	4	3	4	2	3	2	1	2	3	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:75650737T>G	uc004ecm.1	+	1	2621	c.2414T>G	c.(2413-2415)CTT>CGT	p.L805R		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	805	Interaction with DTNA (By similarity).|MAGE 2.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						CTAGTGGTACTTGATCCCAGG	0.502													21	59					0	0	1	0	0		G	75650737	G	G	75650737	3	3	16	1	0	0	0	0	1	0	0	0	9203	1609	56	5	2416	5	MAGEE1	23	75650737	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1689535	75650737	79619823	1460	13135											
TBX22	50945	broad.mit.edu	37	chrX	79279656	79279656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgccggtggattccaaaCgctataggtaatgggcccca	9	9	13	10	2	0	0	0	0	0	0	1	1	1	1	4	5	2	2	4	5	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:79279656C>T	uc010nmg.1	+	4	585	c.451C>T	c.(451-453)CGC>TGC	p.R151C	TBX22_uc004edi.1_Missense_Mutation_p.R31C|TBX22_uc004edj.1_Missense_Mutation_p.R151C	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	151	T-box.				multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						GGATTCCAAACGCTATAGGTA	0.527													17	50					0	0	1	0	0		T	79279656	T	T	79279656	3	4	16	1	0	0	0	0	1	0	0	0	15683	536	19	1	461	1	TBX22	23	79279656	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3628919	79279656	75990904	1461	13136											
BRWD3	254065	broad.mit.edu	37	chrX	79980463	79980463	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattccgaattttggtccccCggtcaaggtcccaaataaaa	13	10	7	11	2	1	0	1	0	0	0	4	1	4	0	4	3	0	0	4	3	6	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:79980463C>T	uc004edt.2	-	15	1753	c.1490G>A	c.(1489-1491)CGG>CAG	p.R497Q	BRWD3_uc004edo.2_Missense_Mutation_p.R93Q|BRWD3_uc004edp.2_Missense_Mutation_p.R326Q|BRWD3_uc004edq.2_Missense_Mutation_p.R93Q|BRWD3_uc010nmj.1_Missense_Mutation_p.R93Q|BRWD3_uc004edr.2_Missense_Mutation_p.R167Q|BRWD3_uc004eds.2_Missense_Mutation_p.R93Q|BRWD3_uc004edu.2_Missense_Mutation_p.R167Q|BRWD3_uc004edv.2_Missense_Mutation_p.R93Q|BRWD3_uc004edw.2_Missense_Mutation_p.R93Q|BRWD3_uc004edx.2_Missense_Mutation_p.R93Q|BRWD3_uc004edy.2_Missense_Mutation_p.R93Q|BRWD3_uc004edz.2_Missense_Mutation_p.R167Q|BRWD3_uc004eea.2_Missense_Mutation_p.R167Q|BRWD3_uc004eeb.2_Missense_Mutation_p.R93Q	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	497	WD 8.									ovary(4)	4						TTTGGTCCCCCGGTCAAGGTC	0.373													27	46					0	0	1	0	0		T	79980463	T	T	79980463	3	4	16	1	0	0	0	0	1	0	0	0	1529	652	23	1	4026	1	BRWD3	23	79980463	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	700807	79980463	75290097	1462	13137											
POU3F4	5456	broad.mit.edu	37	chrX	82764299	82764299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttggagaaggaagtggtgCgtgtctggttctgtaatcga	9	12	16	4	2	2	1	0	0	2	1	3	4	2	2	0	4	1	3	0	4	3	3	rs104894924		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:82764299C>T	uc004eeg.2	+	1	1031	c.967C>T	c.(967-969)CGT>TGT	p.R323C		NM_000307	NP_000298	P49335	PO3F4_HUMAN	POU domain, class 3, transcription factor 4	323	Homeobox.		R -> G (in DFNX2; somatic mosaicism in 50% of the peripheral blood lymphocytes).		sensory perception of sound	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGAAGTGGTGCGTGTCTGGTT	0.542													10	18					0	0	1	0	0		T	82764299	T	T	82764299	3	4	16	1	0	0	0	0	1	0	0	0	12296	768	27	1	969	1	POU3F4	23	82764299	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	2783836	82764299	72506261	1463	13138											
NAP1L3	4675	broad.mit.edu	37	chrX	92927271	92927271	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaggttttgagaacttcaGgctaacatccgacaagaact	13	9	9	10	1	1	2	1	1	0	2	2	4	2	2	2	2	3	2	2	2	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:92927271G>T	uc004efq.2	-	1	1338	c.1033C>A	c.(1033-1035)CTG>ATG	p.L345M	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	345					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						GAGAACTTCAGGCTAACATCC	0.413													14	46					2.31682e-05	2.3712e-05	1	1	0		T	92927271	T	T	92927271	3	4	16	1	0	0	0	0	1	0	0	0	10176	991	35	5	491	5	NAP1L3	23	92927271	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	10162972	92927271	62343289	1464	13139											
DIAPH2	1730	broad.mit.edu	37	chrX	96854260	96854260	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtcttacagataacagaCgagtacctttggaaaggtca	13	12	9	7	1	2	2	1	0	1	2	2	4	2	3	1	2	3	1	1	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:96854260C>T	uc004efu.3	+	27	3646	c.3250C>T	c.(3250-3252)CGA>TGA	p.R1084*		NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	1084					cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						AGATAACAGACGAGTACCTTT	0.348													7	16					0	0	1	0	0		T	96854260	T	T	96854260	4	4	16	1	0	0	0	0	0	1	0	0	4525	528	19	1	3410	1	DIAPH2	23	96854260	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3926989	96854260	58416300	1465	13140											
PCDH19	57526	broad.mit.edu	37	chrX	99551449	99551449	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acatactgctccagatcacgGgctgggggagccagggcaat	10	6	14	11	1	1	1	1	0	0	1	2	2	2	2	2	4	3	3	2	4	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:99551449G>T	uc010nmz.2	-	6	4949	c.3273C>A	c.(3271-3273)GCC>GCA	p.A1091A	PCDH19_uc004efw.3_Silent_p.A1043A|PCDH19_uc004efx.3_Silent_p.A1044A	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	1091	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CCAGATCACGGGCTGGGGGAG	0.582													25	65					8.58068e-18	9.2808e-18	1	1	0		T	99551449	T	T	99551449	2	4	16	1	0	0	0	0	0	0	0	1	11533	1219	43	5		5	PCDH19	23	99551449	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2697189	99551449	55719111	1466	13141											
XKRX	402415	broad.mit.edu	37	chrX	100169452	100169452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attatgggtgaagagtgagcGcaatggatgcaagtactgga	13	9	15	4	1	0	3	0	2	0	1	0	5	0	5	0	3	3	3	0	3	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:100169452G>A	uc004egn.2	-	3	1830	c.1225C>T	c.(1225-1227)CGC>TGC	p.R409C	XKRX_uc011mre.1_Missense_Mutation_p.R205C	NM_212559	NP_997724	Q6PP77	XKR2_HUMAN	XK, Kell blood group complex subunit-related,	409						integral to membrane|plasma membrane				breast(1)	1						AAGAGTGAGCGCAATGGATGC	0.468													50	157					0	0	1	0	0		A	100169452	A	A	100169452	3	1	16	1	0	0	0	0	1	0	0	0	17465	1087	38	1	128	1	XKRX	23	100169452	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	618003	100169452	55101108	1467	13142											
CENPI	2491	broad.mit.edu	37	chrX	100387216	100387216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagcattcctgtataagaGccttcctctctgggatggcc	8	12	10	11	0	1	2	0	1	1	1	4	3	3	3	4	2	2	2	4	2	3	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:100387216G>A	uc004egx.2	+	13	1595	c.1325G>A	c.(1324-1326)AGC>AAC	p.S442N	CENPI_uc011mrg.1_Missense_Mutation_p.S442N|CENPI_uc004egy.2_Missense_Mutation_p.S442N	NM_006733	NP_006724	Q92674	CENPI_HUMAN	centromere protein I	442					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	cytosol|kinetochore|nucleoplasm	protein binding			skin(1)	1						CTGTATAAGAGCCTTCCTCTC	0.398													72	148					0	0	1	0	0		A	100387216	A	A	100387216	3	1	16	1	0	0	0	0	1	0	0	0	3236	971	34	2	1371	2	CENPI	23	100387216	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	217764	100387216	54883344	1468	13143											
HNRNPH2	3188	broad.mit.edu	37	chrX	100667790	100667790	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attactgtttttcaggaatgTctgatcatagatacggagat	12	15	9	5	1	3	3	2	1	1	2	3	5	3	4	0	2	2	1	0	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:100667790T>G	uc004ehm.2	+	2	984	c.814T>G	c.(814-816)TCT>GCT	p.S272A	HNRNPH2_uc004ehn.2_Missense_Mutation_p.S272A	NM_019597	NP_062543	P55795	HNRH2_HUMAN	heterogeneous nuclear ribonucleoprotein H2	272	2 X 16 AA Gly-rich approximate repeats.				nuclear mRNA splicing, via spliceosome	actin cytoskeleton|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						TTCAGGAATGTCTGATCATAG	0.453													9	69					0	0	1	0	0		G	100667790	G	G	100667790	3	3	16	1	0	0	0	0	1	0	0	0	7283	1667	58	5	816	5	HNRNPH2	23	100667790	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	280574	100667790	54602770	1469	13144											
NXF5	55998	broad.mit.edu	37	chrX	101095488	101095488	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaccttacataggcagactgGtccgagaaggtgctgcacaa	12	7	12	10	1	0	2	0	0	0	2	1	4	1	2	2	3	3	3	2	3	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:101095488G>A	uc011mrk.1	-	10	1041	c.681C>T	c.(679-681)GAC>GAT	p.D227D	NXF5_uc004eih.1_RNA|NXF5_uc004eii.1_RNA|NXF5_uc004eij.1_RNA|NXF5_uc004eik.1_RNA|NXF5_uc004eil.1_RNA	NM_032946	NP_116564	Q9H1B4	NXF5_HUMAN	nuclear RNA export factor 5	227	LRR 3.				mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nucleus	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						AGGCAGACTGGTCCGAGAAGG	0.577													28	52					0	0	1	0	0		A	101095488	A	A	101095488	2	1	16	1	0	0	0	0	0	0	0	1	10805	1252	44	4		4	NXF5	23	101095488	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	427698	101095488	54175072	1470	13145											
ZMAT1	84460	broad.mit.edu	37	chrX	101138866	101138866	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaacttcagattctacactGtatgagccagagttattttc	12	15	6	8	0	2	3	1	1	1	2	3	3	2	3	1	0	3	2	1	0	5	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:101138866G>A	uc004eim.2	-	2	4518	c.1020C>T	c.(1018-1020)TAC>TAT	p.Y340Y	ZMAT1_uc011mrl.1_Silent_p.Y511Y|ZMAT1_uc004ein.2_Silent_p.Y340Y|ZMAT1_uc011mrm.1_Silent_p.Y340Y	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	340						nucleus	zinc ion binding			ovary(1)	1						ATTCTACACTGTATGAGCCAG	0.408													15	37					0	0	1	0	0		A	101138866	A	A	101138866	2	1	16	1	0	0	0	0	0	0	0	1	17716	1372	48	4		4	ZMAT1	23	101138866	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	43378	101138866	54131694	1471	13146											
FAM199X	139231	broad.mit.edu	37	chrX	103434329	103434329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttacagcagaaggccttccGcaagaggcagctgaaggagc	12	5	14	10	1	0	3	0	1	0	2	1	4	1	4	2	3	4	5	2	3	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:103434329G>A	uc004elw.2	+	6	1203	c.1037G>A	c.(1036-1038)CGC>CAC	p.R346H	FAM199X_uc004elx.2_Missense_Mutation_p.R120H	NM_207318	NP_997201	Q6PEV8	F199X_HUMAN	hypothetical protein LOC139231	346										ovary(1)	1						AAGGCCTTCCGCAAGAGGCAG	0.488													43	89					0	0	1	0	0		A	103434329	A	A	103434329	3	1	16	1	0	0	0	0	1	0	0	0	5541	1087	38	1	1059	1	FAM199X	23	103434329	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2295463	103434329	51836231	1472	13147											
NRK	203447	broad.mit.edu	37	chrX	105153047	105153047	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaaggcacctccacgactaCggagggcagccagggtgctc	9	6	13	13	2	0	0	0	0	0	0	2	2	1	1	3	4	3	3	3	4	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:105153047C>T	uc004emd.2	+	13	1717	c.1414C>T	c.(1414-1416)CGG>TGG	p.R472W	NRK_uc010npc.1_Missense_Mutation_p.R140W	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	472	Gln-rich.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						TCCACGACTACGGAGGGCAGC	0.557										HNSCC(51;0.14)			14	30					0	0	1	0	0		T	105153047	T	T	105153047	3	4	16	1	0	0	0	0	1	0	0	0	10674	527	19	1	1464	1	NRK	23	105153047	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1718718	105153047	50117513	1473	13148											
NRK	203447	broad.mit.edu	37	chrX	105156736	105156736	+	Frame_Shift_Del	DEL	A	-	-																															agccatacatttcaaatcctAaaaaaattgaggtaaatttt																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:105156736delA	uc004emd.2	+	14	2641	c.2338delA	c.(2338-2340)AAAfs	p.K780fs	NRK_uc010npc.1_Frame_Shift_Del_p.K448fs	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	780							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						TTCAAATCCTAAAAAAATTGA	0.264										HNSCC(51;0.14)			6	11	---	---	---	---						.	-	105156736	-	-	105156736	7	5	16	1	0	1	0	1	0	0	0	0	10674	363	13	0	2392	0	NRK	23	105156736	Frame_Shift_Del	DEL	A	TCGA-BR-4292-01A-01D-1126-08	3689	105156736	50113824	1474	13149											
CXorf57	55086	broad.mit.edu	37	chrX	105865880	105865880	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcctcttttttatattctaGataccaaaataatttccctt	11	20	1	9	0	2	1	0	0	2	1	4	1	4	1	3	0	1	0	3	0	7	11			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:105865880G>C	uc004emi.3	+	2	795	c.644_splice	c.e2-1	p.D215_splice	CXorf57_uc004emj.3_Splice_Site_p.D215_splice|CXorf57_uc004emh.2_Splice_Site_p.D215_splice	NM_018015	NP_060485	Q6NSI4	CX057_HUMAN	hypothetical protein LOC55086											ovary(1)|lung(1)|breast(1)	3						TTATATTCTAGATACCAAAAT	0.308													18	42					0	0	1	0	0		C	105865880	C	C	105865880	5	2	16	1	0	0	0	0	0	0	1	0	4116	956	33	5	649	5	CXorf57	23	105865880	Splice_Site	SNP	G	TCGA-BR-4292-01A-01D-1126-08	709144	105865880	49404680	1475	13150											
TEX13B	56156	broad.mit.edu	37	chrX	107224932	107224933	+	Frame_Shift_Del	DEL	CT	-	-																															ttccatctcagcatgtcccgCtctctctgcacctccgcaag																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:107224932_107224933delCT	uc004enn.1	-	2	518_519	c.425_426delAG	c.(424-426)GAGfs	p.E142fs		NM_031273	NP_112563	Q9BXU2	TX13B_HUMAN	testis expressed 13B	142										ovary(1)	1						GCATGTCCCGCTCTCTCTGCAC	0.589													53	121	---	---	---	---						.	-	107224933	-	-	107224932	7	5	16	1	0	1	0	1	0	0	0	0	15802	796	28	0	520	0	TEX13B	23	107224932	Frame_Shift_Del	DEL	CT	TCGA-BR-4292-01A-01D-1126-08	1359052	107224932	48045628	1476	13151											
IRS4	8471	broad.mit.edu	37	chrX	107978724	107978724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgctccgagtgtccacagCgacggatgctcaggagctgg	8	7	14	12	3	1	0	1	0	0	0	3	4	3	2	2	3	4	3	2	3	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:107978724C>T	uc004eoc.2	-	1	884	c.851G>A	c.(850-852)CGC>CAC	p.R284H		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	284	IRS-type PTB.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						GTGTCCACAGCGACGGATGCT	0.592													43	73					0	0	1	0	0		T	107978724	T	T	107978724	3	4	16	1	0	0	0	0	1	0	0	0	7858	768	27	1	2926	1	IRS4	23	107978724	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	753792	107978724	47291836	1477	13152											
CHRDL1	91851	broad.mit.edu	37	chrX	109964646	109964646	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgggtgcattgattgggttgCcgattctgaaagagcccttc	7	13	13	8	1	1	3	0	2	1	1	2	4	1	3	2	2	3	2	2	2	1	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:109964646C>T	uc004eou.3	-	5	763	c.414G>A	c.(412-414)CGG>CGA	p.R138R	CHRDL1_uc004eov.2_Silent_p.R132R|CHRDL1_uc004eow.2_Silent_p.R137R|CHRDL1_uc010nps.2_Silent_p.R137R|CHRDL1_uc004eot.2_Intron|CHRDL1_uc011mss.1_Intron|CHRDL1_uc004eox.3_Silent_p.R131R	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	131	VWFC 2.				BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						GATTGGGTTGCCGATTCTGAA	0.483													61	312					0	0	1	0	0		T	109964646	T	T	109964646	2	4	16	1	0	0	0	0	0	0	0	1	3376	726	26	2		2	CHRDL1	23	109964646	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1985922	109964646	45305914	1478	13153											
ALG13	79868	broad.mit.edu	37	chrX	110954936	110954936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttgagaaatacctggaaCggttgggagatcccaaggta	12	10	12	7	1	0	2	0	1	0	2	1	5	1	3	2	4	2	2	2	4	5	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:110954936C>T	uc011msy.1	+	6	902	c.868C>T	c.(868-870)CGG>TGG	p.R290W	ALG13_uc011msw.1_Missense_Mutation_p.R212W|ALG13_uc011msx.1_Missense_Mutation_p.R186W|ALG13_uc011msz.1_Missense_Mutation_p.R212W|ALG13_uc011mta.1_Missense_Mutation_p.R186W|ALG13_uc011mtb.1_Missense_Mutation_p.R186W			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	290	OTU.				dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						ATACCTGGAACGGTTGGGAGA	0.308													17	25					0	0	1	0	0		T	110954936	T	T	110954936	3	4	16	1	0	0	0	0	1	0	0	0	515	527	19	1	1032	1	ALG13	23	110954936	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	990290	110954936	44315624	1479	13154											
TRPC5	7224	broad.mit.edu	37	chrX	111090440	111090440	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaagtaaagctggttcagTccattggcaaaagctagtag	14	10	11	6	0	1	1	1	0	0	1	2	1	2	1	1	2	2	6	1	2	8	6			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:111090440T>C	uc004epl.1	-	6	2521	c.1602A>G	c.(1600-1602)GGA>GGG	p.G534G	TRPC5_uc004epm.1_Silent_p.G534G	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	534	Extracellular (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						GCTGGTTCAGTCCATTGGCAA	0.458													55	136					0	0	1	0	0		C	111090440	C	C	111090440	2	2	16	1	0	0	0	0	0	0	0	1	16608	1654	58	3		3	TRPC5	23	111090440	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	135504	111090440	44180120	1480	13155											
HTR2C	3358	broad.mit.edu	37	chrX	113965896	113965896	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaacatccttgtgatcatgGcagtaagcatggaaaagaaa	16	8	10	7	0	1	2	1	1	0	1	2	3	2	3	1	2	2	4	1	2	5	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:113965896G>T	uc004epu.1	+	4	957	c.229G>T	c.(229-231)GCA>TCA	p.A77S	HTR2C_uc010nqc.1_Missense_Mutation_p.A77S|HTR2C_uc004epv.1_Missense_Mutation_p.A77S	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	77	Helical; Name=1; (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	TGTGATCATGGCAGTAAGCAT	0.448													40	74					6.2361e-21	6.79817e-21	1	1	0		T	113965896	T	T	113965896	3	4	16	1	0	0	0	0	1	0	0	0	7459	1203	42	5	235	5	HTR2C	23	113965896	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2875456	113965896	41304664	1481	13156											
LRCH2	57631	broad.mit.edu	37	chrX	114419019	114419019	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaatttcttctggaatggaTaccagtttattattactgac	11	16	6	8	0	2	1	0	1	2	0	2	3	2	3	2	2	2	1	2	2	6	7			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:114419019T>A	uc010nqe.2	-	3	607	c.576A>T	c.(574-576)GTA>GTT	p.V192V	LRCH2_uc004epz.2_Silent_p.V192V	NM_020871	NP_065922	Q5VUJ6	LRCH2_HUMAN	leucine-rich repeats and calponin homology (CH)	192	LRR 5.									ovary(1)	1						CTGGAATGGATACCAGTTTAT	0.303													4	27					0	0	1	0	0		A	114419019	A	A	114419019	2	1	16	1	0	0	0	0	0	0	0	1	8951	1393	49	5		5	LRCH2	23	114419019	Silent	SNP	T	TCGA-BR-4292-01A-01D-1126-08	453123	114419019	40851541	1482	13157											
LRCH2	57631	broad.mit.edu	37	chrX	114422934	114422934	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaacgatttctggaaagatCtgaaaagaaaatagtgagta	20	9	9	3	1	2	4	0	2	2	2	2	6	2	5	0	1	1	1	0	1	9	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:114422934C>T	uc010nqe.2	-	2	381	c.350_splice	c.e2-1	p.D117_splice	LRCH2_uc004epz.2_Splice_Site_p.D117_splice|RBMXL3_uc011mte.1_5'Flank	NM_020871	NP_065922	Q5VUJ6	LRCH2_HUMAN	leucine-rich repeats and calponin homology (CH)											ovary(1)	1						CTGGAAAGATCTGAAAAGAAA	0.299													6	14					0	0	1	0	0		T	114422934	T	T	114422934	5	4	16	1	0	0	0	0	0	0	1	0	8951	927	32	4	2028	4	LRCH2	23	114422934	Splice_Site	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3915	114422934	40847626	1483	13158											
FAM70A	55026	broad.mit.edu	37	chrX	119419025	119419025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagaagcaggtgttgccccGgatgcgaggtgtgcagaatt	9	8	16	8	2	0	2	0	0	0	2	0	4	0	3	2	3	4	4	2	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:119419025G>A	uc004eso.3	-	7	768	c.541C>T	c.(541-543)CGG>TGG	p.R181W	FAM70A_uc004esp.3_Missense_Mutation_p.R157W|FAM70A_uc010nqo.2_Intron	NM_017938	NP_060408	Q5JRV8	FA70A_HUMAN	hypothetical protein LOC55026 isoform 1	181						integral to membrane				lung(1)|breast(1)	2						GTGTTGCCCCGGATGCGAGGT	0.527													47	140					0	0	1	0	0		A	119419025	A	A	119419025	3	1	16	1	0	0	0	0	1	0	0	0	5619	1115	39	1	524	1	FAM70A	23	119419025	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	4996091	119419025	35851535	1484	13159											
CT47B1	643311	broad.mit.edu	37	chrX	120009111	120009111	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcgctatctggatgtggtcGttgtgatagaggcggcggag	6	12	17	6	4	1	2	0	1	1	1	3	4	1	4	0	5	0	2	0	5	2	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:120009111G>A	uc011muc.1	-	1	669	c.414C>T	c.(412-414)AAC>AAT	p.N138N		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	138											0						GGATGTGGTCGTTGTGATAGA	0.647													21	56					0	0	1	0	0		A	120009111	A	A	120009111	2	1	16	1	0	0	0	0	0	0	0	1	3992	1136	40	1		1	CT47B1	23	120009111	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	590086	120009111	35261449	1485	13160											
SASH3	54440	broad.mit.edu	37	chrX	128924995	128924995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggccctgagaagatggCgctggccttttctgagcaag	7	9	13	12	1	1	3	0	2	1	2	1	4	1	3	3	3	1	2	3	3	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:128924995C>T	uc011mun.1	+	4	562	c.380C>T	c.(379-381)GCG>GTG	p.A127V	SASH3_uc004euu.2_Missense_Mutation_p.A127V|SASH3_uc011muo.1_Missense_Mutation_p.A44V	NM_018990	NP_061863	O75995	SASH3_HUMAN	SAM and SH3 domain containing 3	127										ovary(2)|pancreas(1)	3						GAGAAGATGGCGCTGGCCTTT	0.627													37	51					0	0	1	0	0		T	128924995	T	T	128924995	3	4	16	1	0	0	0	0	1	0	0	0	13874	768	27	1	394	1	SASH3	23	128924995	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	8915884	128924995	26345565	1486	13161											
ARHGAP36	158763	broad.mit.edu	37	chrX	130222706	130222706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaagaccgcccattgctcCgtgtgccccgggagaaggag	9	5	14	13	3	0	2	0	0	0	2	1	4	1	3	5	2	3	2	5	2	2	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:130222706C>T	uc004evz.2	+	12	1936	c.1591C>T	c.(1591-1593)CGT>TGT	p.R531C	ARHGAP36_uc004ewa.2_Missense_Mutation_p.R519C|ARHGAP36_uc004ewb.2_Missense_Mutation_p.R500C|ARHGAP36_uc004ewc.2_Missense_Mutation_p.R395C	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	531					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						CCCATTGCTCCGTGTGCCCCG	0.582													11	18					0	0	1	0	0		T	130222706	T	T	130222706	3	4	16	1	0	0	0	0	1	0	0	0	883	652	23	1	1633	1	ARHGAP36	23	130222706	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	1297711	130222706	25047854	1487	13162											
GPC4	2239	broad.mit.edu	37	chrX	132445391	132445391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcacagtcacgagaccccGgcagtgggagcagtagatca	11	6	12	12	2	3	2	3	0	0	2	3	4	3	3	2	2	1	3	2	2	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:132445391G>A	uc004exc.1	-	4	984	c.772C>T	c.(772-774)CGG>TGG	p.R258W	GPC4_uc011mvg.1_Missense_Mutation_p.R188W	NM_001448	NP_001439	O75487	GPC4_HUMAN	glypican 4 precursor	258					anatomical structure morphogenesis|cell proliferation	anchored to membrane|external side of plasma membrane|extracellular space|insoluble fraction|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	Acute lymphoblastic leukemia(192;0.000127)					ACGAGACCCCGGCAGTGGGAG	0.483													48	89					0	0	1	0	0		A	132445391	A	A	132445391	3	1	16	1	0	0	0	0	1	0	0	0	6615	1115	39	1	922	1	GPC4	23	132445391	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2222685	132445391	22825169	1488	13163											
FAM127A	8933	broad.mit.edu	37	chrX	134166473	134166473	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccgatccggcctgcgacGcgtcgctggaggaacccgat	6	7	14	14	7	0	0	0	0	0	0	2	5	1	2	4	3	3	1	4	3	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:134166473G>A	uc004eyd.2	+	1	141	c.60G>A	c.(58-60)ACG>ACA	p.T20T	uc004eye.1_RNA	NM_001078171	NP_001071639	A6ZKI3	F127A_HUMAN	family with sequence similarity 127, member A	20											0	Acute lymphoblastic leukemia(192;0.000127)					GGCCTGCGACGCGTCGCTGGA	0.642													32	51					0	0	1	0	0		A	134166473	A	A	134166473	2	1	16	1	0	0	0	0	0	0	0	1	5442	1074	38	1		1	FAM127A	23	134166473	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	1721082	134166473	21104087	1489	13164											
SAGE1	55511	broad.mit.edu	37	chrX	134989148	134989148	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggccaaccccaacctgataAcatcttgtcaactgcttcaa	12	9	6	14	0	3	1	2	1	1	0	3	1	3	1	4	1	5	1	4	1	5	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:134989148A>C	uc004ezh.2	+	8	967	c.800A>C	c.(799-801)AAC>ACC	p.N267T	SAGE1_uc010nry.1_Missense_Mutation_p.N236T|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	267										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CAACCTGATAACATCTTGTCA	0.463													36	98					0	0	1	0	0		C	134989148	C	C	134989148	3	2	16	1	0	0	0	0	1	0	0	0	13834	43	2	5	826	5	SAGE1	23	134989148	Missense_Mutation	SNP	A	TCGA-BR-4292-01A-01D-1126-08	822675	134989148	20281412	1490	13165											
MMGT1	93380	broad.mit.edu	37	chrX	135047268	135047268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaagaatttgctgtatccGaaggccggaaaagtactcga	13	10	11	7	3	0	2	0	1	0	1	2	5	1	3	2	2	2	3	2	2	7	4	rs150859420		TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:135047268G>A	uc004ezi.1	-	4	611	c.311C>T	c.(310-312)TCG>TTG	p.S104L	MMGT1_uc011mvw.1_Missense_Mutation_p.S169L	NM_173470	NP_775741	Q8N4V1	MMGT1_HUMAN	membrane magnesium transporter 1 precursor	104	Cytoplasmic (Potential).					early endosome membrane|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	magnesium ion transmembrane transporter activity				0						TGCTGTATCCGAAGGCCGGAA	0.358													68	156					0	0	1	0	0		A	135047268	A	A	135047268	3	1	16	1	0	0	0	0	1	0	0	0	9665	1059	37	1	88	1	MMGT1	23	135047268	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	58120	135047268	20223292	1491	13166											
ARHGEF6	9459	broad.mit.edu	37	chrX	135751673	135751673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgacctcgtccttcaaggCgtaaacagtatcaacaaggc	12	9	8	12	2	3	1	2	1	1	0	5	1	4	1	2	2	2	2	2	2	6	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:135751673C>T	uc004fab.2	-	21	2620	c.2158G>A	c.(2158-2160)GCC>ACC	p.A720T	ARHGEF6_uc011mwd.1_Missense_Mutation_p.A593T|ARHGEF6_uc011mwe.1_Missense_Mutation_p.A566T	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	720					apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					TCCTTCAAGGCGTAAACAGTA	0.368													34	76					0	0	1	0	0		T	135751673	T	T	135751673	3	4	16	1	0	0	0	0	1	0	0	0	910	768	27	1	180	1	ARHGEF6	23	135751673	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	704405	135751673	19518887	1492	13167											
FGF13	2258	broad.mit.edu	37	chrX	137793063	137793063	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttgtcgcagctggtctTgcctttgctggggctgctga	2	16	14	9	1	1	1	0	1	1	0	2	1	1	1	1	3	4	6	1	3	0	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:137793063T>C	uc004fam.2	-	1	765	c.103A>G	c.(103-105)AAG>GAG	p.K35E	FGF13_uc004fan.2_Intron|FGF13_uc011mwi.1_Intron|FGF13_uc004faq.2_Intron|FGF13_uc004far.2_Intron|FGF13_uc011mwj.1_Intron|FGF13_uc011mwk.1_Intron|uc004fao.2_5'Flank	NM_004114	NP_004105	Q92913	FGF13_HUMAN	fibroblast growth factor 13 isoform 1	35					cell-cell signaling|MAPKKK cascade|nervous system development	cytoplasm|nucleus	growth factor activity|protein kinase activator activity			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CAGCTGGTCTTGCCTTTGCTG	0.567													30	65					0	0	1	0	0		C	137793063	C	C	137793063	3	2	16	1	0	0	0	0	1	0	0	0	5856	1821	63	3	654	3	FGF13	23	137793063	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2041390	137793063	17477497	1493	13168											
SPANXC	64663	broad.mit.edu	37	chrX	140335784	140335784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcacgttcctcctgtagcGaaccactagtatggtcgagg	8	12	10	11	3	1	0	1	0	0	0	4	2	3	0	3	2	2	3	3	2	4	5			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:140335784G>A	uc004fbk.2	-	2	216	c.160C>T	c.(160-162)CGC>TGC	p.R54C	SPANXC_uc004fbl.2_RNA	NM_022661	NP_073152	Q9NY87	SPNXC_HUMAN	sperm protein associated with the nucleus, X	54						cytoplasm|nucleus					0	Acute lymphoblastic leukemia(192;7.65e-05)					CTCCTGTAGCGAACCACTAGT	0.498													58	164					0	0	1	0	0		A	140335784	A	A	140335784	3	1	16	1	0	0	0	0	1	0	0	0	15012	1058	37	1	137	1	SPANXC	23	140335784	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	2542721	140335784	14934776	1494	13169											
MAGEC1	9947	broad.mit.edu	37	chrX	140994946	140994946	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actttcctcagagccctcagGgggaggactccctgtctcct	6	10	10	15	0	3	1	2	0	1	1	6	3	5	3	4	3	1	0	4	3	0	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:140994946G>T	uc004fbt.2	+	4	2042	c.1756G>T	c.(1756-1758)GGG>TGG	p.G586W	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	586							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GAGCCCTCAGGGGGAGGACTC	0.587										HNSCC(15;0.026)			7	430					0.0293803	0.0295587	1	1	0		T	140994946	T	T	140994946	3	4	16	1	0	0	0	0	1	0	0	0	9198	1232	43	5	1762	5	MAGEC1	23	140994946	Missense_Mutation	SNP	G	TCGA-BR-4292-01A-01D-1126-08	659162	140994946	14275614	1495	13170											
SPANXN3	139067	broad.mit.edu	37	chrX	142605183	142605183	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattcacaggggctcttcgTcttctccccattggtgctgg	4	13	12	12	1	4	0	1	0	3	0	6	1	4	1	2	5	1	2	2	5	0	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:142605183T>A	uc004fbw.2	-	1	125	c.37A>T	c.(37-39)ACG>TCG	p.T13S		NM_001009609	NP_001009609	Q5MJ09	SPXN3_HUMAN	SPANX-N3 protein	13										ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GGGCTCTTCGTCTTCTCCCCA	0.328													63	99					0	0	1	0	0		A	142605183	A	A	142605183	3	1	16	1	0	0	0	0	1	0	0	0	15017	1667	58	5	396	5	SPANXN3	23	142605183	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	1610237	142605183	12665377	1496	13171											
CXorf1	9142	broad.mit.edu	37	chrX	144909328	144909328	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactatattctgttttgctTtatctgctcaagcactttcg	7	19	6	9	1	3	1	1	1	2	0	4	1	3	1	0	0	3	4	0	0	4	8			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:144909328T>G	uc004fch.2	+	1	401	c.133T>G	c.(133-135)TTA>GTA	p.L45V		NM_004709	NP_004700	O96002	CX001_HUMAN	hypothetical protein LOC9142	45											0	Acute lymphoblastic leukemia(192;6.56e-05)					CTGTTTTGCTTTATCTGCTCA	0.294													5	91					0	0	1	0	0		G	144909328	G	G	144909328	3	3	16	1	0	0	0	0	1	0	0	0	4103	1838	64	5	135	5	CXorf1	23	144909328	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	2304145	144909328	10361232	1497	13172											
MAGEA8	4107	broad.mit.edu	37	chrX	149013887	149013888	+	Frame_Shift_Ins	INS	-	T	T																															cctgtggggtccaagggcccINSttgctgaaaccagctatgtg																										TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:149013887_149013888insT	uc004fdw.1	+	3	1056_1057	c.841_842insT	c.(841-843)CTTfs	p.L281fs		NM_005364	NP_005355	P43361	MAGA8_HUMAN	melanoma antigen family A, 8	281	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					TCCAAGGGCCCTTGCTGAAACC	0.579													113	218	---	---	---	---						.	T	149013888	T	T	149013887	7	5	16	1	0	1	1	0	0	0	0	0	9189	681	24	0	843	0	MAGEA8	23	149013887	Frame_Shift_Ins	INS	-	TCGA-BR-4292-01A-01D-1126-08	4104559	149013887	6256673	1498	13173											
ATP2B3	492	broad.mit.edu	37	chrX	152813442	152813442	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctcacaaagctagccgtgCagatcgggaaagcaggtagg	13	5	14	9	2	1	1	1	0	0	1	2	2	1	2	1	3	5	5	1	3	4	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:152813442C>T	uc004fht.1	+	7	1234	c.1108C>T	c.(1108-1110)CAG>TAG	p.Q370*	ATP2B3_uc004fhs.1_Nonsense_Mutation_p.Q370*	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	370	Helical; (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCTAGCCGTGCAGATCGGGAA	0.607													34	81					0	0	1	0	0		T	152813442	T	T	152813442	4	4	16	1	0	0	0	0	0	1	0	0	1142	711	25	2	1134	2	ATP2B3	23	152813442	Nonsense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	3799555	152813442	2457118	1499	13174											
SRPK3	26576	broad.mit.edu	37	chrX	153047269	153047269	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagacagctgtggatgagaTcaagctcctgaaatgtgtga	12	9	14	6	0	1	4	1	3	0	2	2	7	2	5	1	2	2	2	1	2	2	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:153047269T>A	uc004fil.2	+	4	403	c.371T>A	c.(370-372)ATC>AAC	p.I124N	SRPK3_uc004fik.2_Missense_Mutation_p.I190N|SRPK3_uc010nul.2_Missense_Mutation_p.I82N|SRPK3_uc004fin.2_Missense_Mutation_p.I124N|SRPK3_uc004fim.2_Missense_Mutation_p.I124N	NM_014370	NP_055185	Q9UPE1	SRPK3_HUMAN	serine arginine rich protein-specific kinase 3	124	Protein kinase.				cell differentiation|muscle organ development|muscle tissue development		ATP binding|protein serine/threonine kinase activity			pancreas(2)|lung(1)	3	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					GTGGATGAGATCAAGCTCCTG	0.617													21	52					0	0	1	0	0		A	153047269	A	A	153047269	3	1	16	1	0	0	0	0	1	0	0	0	15186	1435	50	5	385	5	SRPK3	23	153047269	Missense_Mutation	SNP	T	TCGA-BR-4292-01A-01D-1126-08	233827	153047269	2223291	1500	13175											
L1CAM	3897	broad.mit.edu	37	chrX	153128277	153128277	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccataatcggccaggctgtcGtcactgcccaggggcttgat	7	9	12	13	2	1	1	1	1	0	0	3	1	1	1	3	4	1	2	3	4	1	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:153128277G>A	uc004fjb.2	-	28	3723	c.3615C>T	c.(3613-3615)GAC>GAT	p.D1205D	L1CAM_uc004fjc.2_Silent_p.D1201D|L1CAM_uc010nuo.2_Silent_p.D1196D	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	1205	Cytoplasmic (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCAGGCTGTCGTCACTGCCCA	0.602													20	21					0	0	1	0	0		A	153128277	A	A	153128277	2	1	16	1	0	0	0	0	0	0	0	1	8604	1136	40	1		1	L1CAM	23	153128277	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	81008	153128277	2142283	1501	13176											
RENBP	5973	broad.mit.edu	37	chrX	153207102	153207102	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagccggcttccagcgtGtggcctggtgaggggtggag	6	7	18	10	2	0	1	0	1	0	0	1	2	1	2	4	6	3	1	4	6	1	1			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:153207102G>A	uc004fjo.1	-	8	944	c.774C>T	c.(772-774)CAC>CAT	p.H258H	RENBP_uc011mzh.1_Missense_Mutation_p.T231I	NM_002910	NP_002901	P51606	RENBP_HUMAN	renin binding protein	258					mannose metabolic process|regulation of blood pressure		endopeptidase inhibitor activity|mannose-6-phosphate isomerase activity|N-acylglucosamine 2-epimerase activity			ovary(1)|pancreas(1)	2	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				N-Acetyl-D-glucosamine(DB00141)	CTTCCAGCGTGTGGCCTGGTG	0.627													16	32					0	0	1	0	0		A	153207102	A	A	153207102	2	1	16	1	0	0	0	0	0	0	0	1	13250	1368	48	4		4	RENBP	23	153207102	Silent	SNP	G	TCGA-BR-4292-01A-01D-1126-08	78825	153207102	2063458	1502	13177											
FLNA	2316	broad.mit.edu	37	chrX	153581719	153581719	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcctcccggcccgagggCgggaccacagtggccgtcag	5	4	16	16	4	1	0	1	0	0	0	3	2	3	1	5	5	0	1	5	5	0	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:153581719C>T	uc004fkk.2	-	37	6216	c.5967G>A	c.(5965-5967)CCG>CCA	p.P1989P	FLNA_uc004fki.2_Silent_p.P32P|FLNA_uc011mzn.1_Silent_p.P122P|FLNA_uc010nuu.1_Silent_p.P1981P	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1989	Filamin 18.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGCCCGAGGGCGGGACCACAG	0.627													17	31					0	0	1	0	0		T	153581719	T	T	153581719	2	4	16	1	0	0	0	0	0	0	0	1	5947	755	27	1		1	FLNA	23	153581719	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	374617	153581719	1688841	1503	13178											
GDI1	2664	broad.mit.edu	37	chrX	153669509	153669509	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgacatcatcatggagaaCggcaaggtggtgggcgtgaa	12	7	16	6	2	2	3	2	2	0	1	2	5	2	3	0	5	1	1	0	5	3	0			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:153669509C>T	uc004fli.3	+	7	1128	c.786C>T	c.(784-786)AAC>AAT	p.N262N	GDI1_uc011mzo.1_3'UTR|GDI1_uc004flj.2_5'Flank|FAM50A_uc004fll.3_5'Flank	NM_001493	NP_001484	P31150	GDIA_HUMAN	GDP dissociation inhibitor 1	262					protein transport|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|midbody	GTPase activator activity|protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TCATGGAGAACGGCAAGGTGG	0.572													17	129					0	0	1	0	0		T	153669509	T	T	153669509	2	4	16	1	0	0	0	0	0	0	0	1	6335	535	19	1		1	GDI1	23	153669509	Silent	SNP	C	TCGA-BR-4292-01A-01D-1126-08	87790	153669509	1601051	1504	13179											
FAM50A	9130	broad.mit.edu	37	chrX	153678623	153678623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacatctttcccgccagcCgctgggaaccctacgaccct	8	7	8	18	3	1	0	0	0	1	0	2	2	2	1	5	1	4	2	5	1	2	2			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:153678623C>T	uc004fll.3	+	12	1065	c.967C>T	c.(967-969)CGC>TGC	p.R323C		NM_004699	NP_004690	Q14320	FA50A_HUMAN	XAP-5 protein	323					spermatogenesis	nucleus				ovary(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TCCCGCCAGCCGCTGGGAACC	0.627													25	52					0	0	1	0	0		T	153678623	T	T	153678623	3	4	16	1	0	0	0	0	1	0	0	0	5591	652	23	1	1013	1	FAM50A	23	153678623	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	9114	153678623	1591937	1505	13180											
PLXNA3	55558	broad.mit.edu	37	chrX	153689602	153689602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagacgctgttggacacagCgggcgagaaatttttcacgt	10	9	13	9	4	1	2	1	0	0	2	1	4	1	3	0	2	1	3	0	2	1	3	rs147390702	byFrequency	TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:153689602C>T	uc004flm.2	+	3	931	c.758C>T	c.(757-759)GCG>GTG	p.A253V		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	253	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TTGGACACAGCGGGCGAGAAA	0.577													9	94					0	0	1	0	0		T	153689602	T	T	153689602	3	4	16	1	0	0	0	0	1	0	0	0	12140	768	27	1	764	1	PLXNA3	23	153689602	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	10979	153689602	1580958	1506	13181											
LAGE3	8270	broad.mit.edu	37	chrX	153706395	153706395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacagtcttcagctttccagCggctaaaagtgaggggaaaa	13	8	12	8	1	2	1	1	1	1	0	3	3	3	2	1	3	2	2	1	3	4	3			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:153706395C>T	uc004fln.1	-	3	662	c.320G>A	c.(319-321)CGC>CAC	p.R107H		NM_006014	NP_006005	Q14657	LAGE3_HUMAN	L antigen family, member 3	107							protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AGCTTTCCAGCGGCTAAAAGT	0.562													17	26					0	0	1	0	0		T	153706395	T	T	153706395	3	4	16	1	0	0	0	0	1	0	0	0	8617	768	27	1	115	1	LAGE3	23	153706395	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	16793	153706395	1564165	1507	13182											
RAB39B	116442	broad.mit.edu	37	chrX	154490449	154490449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacattctggaaggacctgCggttggtaatgtcaaataag	12	10	13	6	1	2	0	1	0	1	0	2	3	2	3	1	5	1	2	1	5	4	4			TCGA-BR-4292-01A-01D-1126-08	TCGA-BR-4292-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7fafe9d-132f-4939-b049-9cc998ec1bc6	126ae43a-7a3b-4037-a5dc-9ad55b2f24bc	g.chrX:154490449C>T	uc004fne.2	-	2	560	c.281G>A	c.(280-282)CGC>CAC	p.R94H		NM_171998	NP_741995	Q96DA2	RB39B_HUMAN	RAB39B, member RAS oncogene family	94					protein transport|small GTPase mediated signal transduction|synapse organization|vesicle-mediated transport	Golgi apparatus|plasma membrane	GTP binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GAAGGACCTGCGGTTGGTAAT	0.448													130	257					0	0	1	0	0		T	154490449	T	T	154490449	3	4	16	1	0	0	0	0	1	0	0	0	12955	768	27	1	364	1	RAB39B	23	154490449	Missense_Mutation	SNP	C	TCGA-BR-4292-01A-01D-1126-08	784054	154490449	780111	1508	13183											
CAMTA1	23261	broad.mit.edu	37	chr1	7725006	7725006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagctggtgtcgggggacaGcacggcgctctcacagtcag	7	6	15	13	3	2	0	2	0	1	0	4	1	2	1	1	4	2	3	1	4	0	0			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr1:7725006G>A	uc001aoi.2	+	9	2606	c.2399G>A	c.(2398-2400)AGC>AAC	p.S800N		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	800					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		TCGGGGGACAGCACGGCGCTC	0.647													51	5					0	0	0.139131	0	0		A	7725006	A	A	7725006	3	1	17	1	0	0	0	0	1	0	0	0	2616	971	34	2	2433	2	CAMTA1	1	7725006	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08		7725006	241525615	1	13184											
KIRREL	55243	broad.mit.edu	37	chr1	158045982	158045982	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgtgctcccctgtgtgctGctcaactactctggaattgt	5	13	10	13	1	2	0	1	0	1	0	3	1	3	1	3	1	5	3	3	1	3	2			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr1:158045982G>A	uc001frn.3	+	2	536	c.132G>A	c.(130-132)CTG>CTA	p.L44L	KIRREL_uc010pib.1_Intron|KIRREL_uc009wsq.2_5'UTR	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	44	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					CCTGTGTGCTGCTCAACTACT	0.632													20	40					0	0	0.083992	0	0		A	158045982	A	A	158045982	2	1	17	1	0	0	0	0	0	0	0	1	8340	1306	46	2		2	KIRREL	1	158045982	Silent	SNP	G	TCGA-BR-4294-01A-01D-1126-08	150320976	158045982	91204639	2	13185											
PLXNA2	5362	broad.mit.edu	37	chr1	208216499	208216499	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtaagggattcctgagcgGtccaggtcactggtcaactc	9	9	13	10	1	2	1	2	1	0	0	5	2	4	2	2	5	2	1	2	5	2	2			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr1:208216499G>C	uc001hgz.2	-	21	4682	c.3924C>G	c.(3922-3924)GAC>GAG	p.D1308E		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1308	Potential.|Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		TTCCTGAGCGGTCCAGGTCAC	0.582													21	69					0	0	0.069288	0	0		C	208216499	C	C	208216499	3	2	17	1	0	0	0	0	1	0	0	0	12139	1252	44	5	1808	5	PLXNA2	1	208216499	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08	50170517	208216499	41034122	3	13186											
ST3GAL5	8869	broad.mit.edu	37	chr2	86075089	86075089	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggtcttggctttcaagTgttcagggaggtcgtgctct	6	13	14	8	1	4	0	2	0	2	0	5	2	4	1	0	4	1	3	0	4	1	3			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr2:86075089T>C	uc002sqq.1	-	4	686	c.557A>G	c.(556-558)CAC>CGC	p.H186R	ST3GAL5_uc010fgq.1_Missense_Mutation_p.H58R|ST3GAL5_uc002sqp.1_Missense_Mutation_p.H163R	NM_003896	NP_003887	Q9UNP4	SIAT9_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	186	Lumenal (Potential).				ganglioside biosynthetic process|protein glycosylation	integral to Golgi membrane|integral to plasma membrane	lactosylceramide alpha-2,3-sialyltransferase activity|neolactotetraosylceramide alpha-2,3-sialyltransferase activity				0						GGCTTTCAAGTGTTCAGGGAG	0.527													38	98					0	0	0.09836	0	0		C	86075089	C	C	86075089	3	2	17	1	0	0	0	0	1	0	0	0	15243	1696	59	3	715	3	ST3GAL5	2	86075089	Missense_Mutation	SNP	T	TCGA-BR-4294-01A-01D-1126-08		86075089	157124284	4	13187											
BUB1	699	broad.mit.edu	37	chr2	111419292	111419292	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatttgccaaaggaggaaCaacaggaggtgcctctcttg	12	8	12	9	0	1	0	0	0	1	0	2	3	1	3	2	4	5	1	2	4	3	2			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr2:111419292C>A	uc002tgc.2	-	10	1196	c.1084G>T	c.(1084-1086)GTT>TTT	p.V362F	BUB1_uc010yxh.1_Missense_Mutation_p.V342F|BUB1_uc010fkb.2_Missense_Mutation_p.V362F|BUB1_uc002tgd.2_Missense_Mutation_p.V362F	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	362					apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		AAAGGAGGAACAACAGGAGGT	0.517													36	45					3.76114e-14	4.27402e-14	0.069456	1	0		A	111419292	A	A	111419292	3	1	17	1	0	0	0	0	1	0	0	0	1573	478	17	5	2237	5	BUB1	2	111419292	Missense_Mutation	SNP	C	TCGA-BR-4294-01A-01D-1126-08	25344203	111419292	131780081	5	13188											
LMOD3	56203	broad.mit.edu	37	chr3	69168779	69168779	+	Missense_Mutation	SNP	C	A	A																															cctaactctcctcaagctccCatccaggtctgtctggtttc																										TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr3:69168779C>A	uc003dns.2	-	2	936	c.727G>T	c.(727-729)GGG>TGG	p.G243W	LMOD3_uc003dnt.2_Missense_Mutation_p.G243W	NM_198271	NP_938012	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	243						cytoplasm|cytoskeleton	tropomyosin binding			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		CTCAAGCTCCCATCCAGGTCT	0.398													5	109					1.26484e-09	1.39505e-09	0.038147	1	0		A	69168779	A	A	69168779	3	1	17	1	0	0	0	0	1	0	0	0	8875	594	21	5	963	5	LMOD3	3	69168779	Missense_Mutation	SNP	C	TCGA-BR-4294-01A-01D-1126-08		69168779	128853651	6	13189	20	3									
LMOD3	56203	broad.mit.edu	37	chr3	69168781	69168781	+	Missense_Mutation	SNP	T	A	A																															taactctcctcaagctcccaTccaggtctgtctggtttcct																										TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr3:69168781T>A	uc003dns.2	-	2	934	c.725A>T	c.(724-726)GAT>GTT	p.D242V	LMOD3_uc003dnt.2_Missense_Mutation_p.D242V	NM_198271	NP_938012	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	242						cytoplasm|cytoskeleton	tropomyosin binding			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		CAAGCTCCCATCCAGGTCTGT	0.403													5	108					0	0	0.038147	0	0		A	69168781	A	A	69168781	3	1	17	1	0	0	0	0	1	0	0	0	8875	1435	50	5	965	5	LMOD3	3	69168781	Missense_Mutation	SNP	T	TCGA-BR-4294-01A-01D-1126-08	2	69168781	128853649	7	13190	20	3									
LMOD3	56203	broad.mit.edu	37	chr3	69168783	69168783	+	Silent	SNP	C	A	A																															actctcctcaagctcccatcCaggtctgtctggtttcctga																										TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr3:69168783C>A	uc003dns.2	-	2	932	c.723G>T	c.(721-723)CTG>CTT	p.L241L	LMOD3_uc003dnt.2_Silent_p.L241L	NM_198271	NP_938012	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	241						cytoplasm|cytoskeleton	tropomyosin binding			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		AGCTCCCATCCAGGTCTGTCT	0.398													4	109					1.6384e-10	1.83403e-10	0.02938	1	0		A	69168783	A	A	69168783	2	1	17	1	0	0	0	0	0	0	0	1	8875	581	21	5		5	LMOD3	3	69168783	Silent	SNP	C	TCGA-BR-4294-01A-01D-1126-08	2	69168783	128853647	8	13191	20	3									
MUC4	4585	broad.mit.edu	37	chr3	195505787	195505787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacaggaagaggggtggCgtgacctgtggatgctgagg	8	7	21	5	1	0	4	0	3	0	1	0	6	0	6	1	7	1	1	1	7	1	0	rs11915935		TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr3:195505787C>T	uc011bto.1	-	3	12740	c.12280G>A	c.(12280-12282)GCC>ACC	p.A4094T	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_Intron|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Intron|MUC4_uc011bti.1_Intron|MUC4_uc011btj.1_Intron|MUC4_uc011btk.1_Intron|MUC4_uc011btl.1_Intron|MUC4_uc011btm.1_Intron|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	979	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGAGGGGTGGCGTGACCTGTG	0.587													4	27					0	0	0.014758	0	0		T	195505787	T	T	195505787	3	4	17	1	0	0	0	0	1	0	0	0	9996	768	27	1		1	MUC4	3	195505787	Missense_Mutation	SNP	C	TCGA-BR-4294-01A-01D-1126-08	126337004	195505787	2516643	9	13192											
MUC4	4585	broad.mit.edu	37	chr3	195511743	195511743	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggaagaggggtggcctgTcctgtggatgctgaggaagt	9	8	18	6	0	0	2	0	1	0	1	1	5	1	5	2	6	1	1	2	6	2	0	rs67146868	by1000genomes	TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr3:195511743T>A	uc011bto.1	-	2	7168	c.6708A>T	c.(6706-6708)GGA>GGT	p.G2236G	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGGTGGCCTGTCCTGTGGATG	0.602													4	36					0	0	0.047766	0	0		A	195511743	A	A	195511743	2	1	17	1	0	0	0	0	0	0	0	1	9996	1654	58	5		5	MUC4	3	195511743	Silent	SNP	T	TCGA-BR-4294-01A-01D-1126-08	5956	195511743	2510687	10	13193											
PCDHGB4	8641	broad.mit.edu	37	chr5	140768698	140768698	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgcgagcagaatccagagtAcaatataaccgttacggcaa	15	6	9	11	4	0	2	0	0	0	2	1	3	1	2	3	1	4	4	3	1	7	4			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr5:140768698A>G	uc003lkc.1	+	1	1247	c.1247A>G	c.(1246-1248)TAC>TGC	p.Y416C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.Y416C	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	416	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATCCAGAGTACAATATAACC	0.443													50	81					0	0	0.139131	0	0		G	140768698	G	G	140768698	3	3	17	1	0	0	0	0	1	0	0	0	11584	391	14	3	1249	3	PCDHGB4	5	140768698	Missense_Mutation	SNP	A	TCGA-BR-4294-01A-01D-1126-08		140768698	40146562	11	13194											
BAI3	577	broad.mit.edu	37	chr6	70064152	70064152	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcatttagatgccgattgAgaaactgtcaggatcccatc	12	11	9	9	1	1	2	1	1	0	2	3	5	2	3	2	1	3	1	2	1	2	3			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr6:70064152A>C	uc003pev.3	+	27	3935	c.3487A>C	c.(3487-3489)AGA>CGA	p.R1163R	BAI3_uc010kak.2_Silent_p.R1163R|BAI3_uc011dxx.1_Silent_p.R369R	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1163	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				ATGCCGATTGAGAAACTGTCA	0.398													29	15					0	0	0.045705	0	0		C	70064152	C	C	70064152	2	2	17	1	0	0	0	0	0	0	0	1	1301	296	11	5		5	BAI3	6	70064152	Silent	SNP	A	TCGA-BR-4294-01A-01D-1126-08		70064152	101050915	12	13195											
NCOA2	10499	broad.mit.edu	37	chr8	71071839	71071839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagcaacaagagtgccatcaGacaaggaaaaacgatagatt	19	5	9	8	1	1	3	1	0	0	3	1	5	1	4	1	1	4	1	1	1	6	2			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr8:71071839G>A	uc003xyn.1	-	10	1187	c.1025C>T	c.(1024-1026)TCT>TTT	p.S342F		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	342					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			AGTGCCATCAGACAAGGAAAA	0.413			T	RUNXBP2	AML								40	2					0	0	0.092188	0	0		A	71071839	A	A	71071839	3	1	17	1	0	0	0	0	1	0	0	0	10248	942	33	4	3425	4	NCOA2	8	71071839	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08		71071839	75292183	13	13196											
KIAA2026	158358	broad.mit.edu	37	chr9	5922218	5922218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgcttcagaagaatcagCagtctgttgtgcaaaacagt	12	12	9	8	0	3	2	2	0	1	2	3	2	3	2	0	0	4	4	0	0	4	3			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr9:5922218C>T	uc003zjq.3	-	8	3994	c.3778G>A	c.(3778-3780)GCT>ACT	p.A1260T	KIAA2026_uc010mht.2_Missense_Mutation_p.A435T	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	1260										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		GAAGAATCAGCAGTCTGTTGT	0.438													7	40					0	0	0.038147	0	0		T	5922218	T	T	5922218	3	4	17	1	0	0	0	0	1	0	0	0	8286	710	25	2	2537	2	KIAA2026	9	5922218	Missense_Mutation	SNP	C	TCGA-BR-4294-01A-01D-1126-08		5922218	135291213	14	13197											
TAF1L	138474	broad.mit.edu	37	chr9	32631710	32631710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgttagtcctcatatgtcCaatggcaccacatgccccac	9	12	6	14	0	1	0	1	0	0	0	3	0	3	0	5	1	1	2	5	1	3	3			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr9:32631710C>T	uc003zrg.1	-	1	3958	c.3868G>A	c.(3868-3870)GGA>AGA	p.G1290R	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1290					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CTCATATGTCCAATGGCACCA	0.473													61	79					0	0	0.139131	0	0		T	32631710	T	T	32631710	3	4	17	1	0	0	0	0	1	0	0	0	15548	603	21	4	1616	4	TAF1L	9	32631710	Missense_Mutation	SNP	C	TCGA-BR-4294-01A-01D-1126-08	26709492	32631710	108581721	15	13198											
ITIH5	80760	broad.mit.edu	37	chr10	7608308	7608308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatagtgcgcaagtaagtgcGctgtttcttgtggccatttg	7	14	13	7	2	1	0	0	0	1	0	1	1	1	0	1	1	2	4	1	1	3	5			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr10:7608308G>A	uc001ijq.2	-	13	2291	c.2212C>T	c.(2212-2214)CGC>TGC	p.R738C	ITIH5_uc001ijp.2_Missense_Mutation_p.R524C	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	738					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						AAGTAAGTGCGCTGTTTCTTG	0.502													19	23					0	0	0.0918	0	0		A	7608308	A	A	7608308	3	1	17	1	0	0	0	0	1	0	0	0	7923	1087	38	1	666	1	ITIH5	10	7608308	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08		7608308	127926439	16	13199											
C10orf54	64115	broad.mit.edu	37	chr10	73521610	73521610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggttgcggatgggccggcGctctgagcaggtctgcacct	5	8	17	11	3	2	1	0	1	2	0	2	3	2	2	2	5	3	4	2	5	0	1			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr10:73521610G>A	uc001jsd.2	-	2	397	c.256C>T	c.(256-258)CGC>TGC	p.R86C	CDH23_uc001jrx.3_Intron|C10orf54_uc001jse.2_5'UTR|C10orf54_uc009xqm.2_Intron|C10orf54_uc001jsf.1_Missense_Mutation_p.R86C	NM_022153	NP_071436	Q9H7M9	GI24_HUMAN	platelet receptor Gi24 precursor	86	Ig-like.|Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)|central_nervous_system(1)	3						ATGGGCCGGCGCTCTGAGCAG	0.652													6	40					0	0	0.038147	0	0		A	73521610	A	A	73521610	3	1	17	1	0	0	0	0	1	0	0	0	1610	1087	38	1	703	1	C10orf54	10	73521610	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08	65913302	73521610	62013137	17	13200											
RNLS	55328	broad.mit.edu	37	chr10	90341418	90341418	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaccattccttcaataggCgagcttagaggcctcaaaac	13	9	7	12	1	3	1	3	0	0	1	4	2	4	1	3	2	2	1	3	2	5	4	rs148977593		TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr10:90341418C>T	uc001kfe.2	-	3	408	c.273G>A	c.(271-273)TCG>TCA	p.S91S	RNLS_uc010qms.1_Intron|RNLS_uc001kfd.2_Silent_p.S91S	NM_001031709	NP_001026879	Q5VYX0	RNLS_HUMAN	renalase isoform 1	91						extracellular region	oxidoreductase activity			ovary(1)	1						CTTCAATAGGCGAGCTTAGAG	0.348													9	21					0	0	0.069234	0	0		T	90341418	T	T	90341418	2	4	17	1	0	0	0	0	0	0	0	1	13530	755	27	1		1	RNLS	10	90341418	Silent	SNP	C	TCGA-BR-4294-01A-01D-1126-08	16819808	90341418	45193329	18	13201											
CWF19L1	55280	broad.mit.edu	37	chr10	102006563	102006563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaacataccacaggggcaaGaatttgctttcctatggatg	13	10	10	8	0	0	2	0	0	0	2	1	3	1	3	2	3	3	2	2	3	5	4			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr10:102006563G>A	uc001kqq.1	-	8	925	c.838C>T	c.(838-840)CTT>TTT	p.L280F	CWF19L1_uc001kqs.1_Missense_Mutation_p.L32F|CWF19L1_uc001kqr.1_Missense_Mutation_p.L280F|CWF19L1_uc001kqt.1_5'UTR|CWF19L1_uc010qpn.1_Missense_Mutation_p.L143F	NM_018294	NP_060764	Q69YN2	C19L1_HUMAN	CWF19-like 1, cell cycle control	280							catalytic activity				0		Colorectal(252;0.117)		Epithelial(162;3.78e-10)|all cancers(201;3.1e-08)		ACAGGGGCAAGAATTTGCTTT	0.398													21	24					0	0	0.049695	0	0		A	102006563	A	A	102006563	3	1	17	1	0	0	0	0	1	0	0	0	4074	942	33	4	806	4	CWF19L1	10	102006563	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08	11665145	102006563	33528184	19	13202											
PHLDA2	7262	broad.mit.edu	37	chr11	2950367	2950367	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggaagtcgatctccttgtgGtcggtggtgacgatggtgaa	7	11	16	7	4	1	2	0	2	1	0	4	5	1	3	1	5	0	0	1	5	2	1			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr11:2950367G>T	uc001lxa.1	-	1	284	c.228C>A	c.(226-228)GAC>GAA	p.D76E		NM_003311	NP_003302	Q53GA4	PHLA2_HUMAN	pleckstrin homology-like domain family A member	76	PH.				apoptosis	cytoplasm|membrane					0		all_epithelial(84;0.000124)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)|all_lung(207;0.198)		BRCA - Breast invasive adenocarcinoma(625;0.0025)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCTCCTTGTGGTCGGTGGTGA	0.662													9	1					0.00185496	0.00193225	0.105934	1	0		T	2950367	T	T	2950367	3	4	17	1	0	0	0	0	1	0	0	0	11868	1252	44	5	234	5	PHLDA2	11	2950367	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08		2950367	132056149	20	13203											
PAMR1	25891	broad.mit.edu	37	chr11	35513643	35513643	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcactctgcacagtagaacCccttcacatagaagtcatcc	12	8	7	14	0	3	2	2	0	1	2	4	2	4	2	3	1	2	3	3	1	4	3			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr11:35513643C>G	uc001mwg.2	-	3	372	c.329G>C	c.(328-330)GGG>GCG	p.G110A	PAMR1_uc001mwf.2_Missense_Mutation_p.G110A|PAMR1_uc010rew.1_Missense_Mutation_p.G110A|PAMR1_uc010rex.1_Missense_Mutation_p.G70A	NM_001001991	NP_001001991	Q6UXH9	PAMR1_HUMAN	regeneration associated muscle protease isoform	110					proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						ACAGTAGAACCCCTTCACATA	0.502													68	45					0	0	0.139131	0	0		G	35513643	G	G	35513643	3	3	17	1	0	0	0	0	1	0	0	0	11432	623	22	5	1924	5	PAMR1	11	35513643	Missense_Mutation	SNP	C	TCGA-BR-4294-01A-01D-1126-08	32563276	35513643	99492873	21	13204											
TMEM126B	55863	broad.mit.edu	37	chr11	85347202	85347202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagtctttcagattatgtttGgaatattaaatggtctatac	12	18	7	4	0	3	1	1	0	2	1	3	2	3	2	0	2	1	1	0	2	8	8			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr11:85347202G>A	uc001pao.2	+	6	784	c.532G>A	c.(532-534)GGA>AGA	p.G178R	TMEM126B_uc001pap.2_Missense_Mutation_p.G178R|TMEM126B_uc001paq.1_3'UTR	NM_018480	NP_060950	Q8IUX1	T126B_HUMAN	transmembrane protein 126B	208	Helical; (Potential).					integral to membrane					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				GATTATGTTTGGAATATTAAA	0.348													18	2					0	0	0.0333	0	0		A	85347202	A	A	85347202	3	1	17	1	0	0	0	0	1	0	0	0	16064	1349	47	4	546	4	TMEM126B	11	85347202	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08	49833559	85347202	49659314	22	13205											
ZBTB39	9880	broad.mit.edu	37	chr12	57397688	57397688	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagggcatggccttattctcCcgattgtcattctctccaaa	8	13	7	13	1	3	0	1	0	2	0	6	1	4	0	3	2	0	1	3	2	2	4			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr12:57397688C>T	uc001sml.1	-	2	1100	c.1014G>A	c.(1012-1014)CGG>CGA	p.R338R	RDH16_uc010sqx.1_5'Flank	NM_014830	NP_055645	O15060	ZBT39_HUMAN	zinc finger and BTB domain containing 39	338					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						CCTTATTCTCCCGATTGTCAT	0.517													59	78					0	0	0.139131	0	0		T	57397688	T	T	57397688	2	4	17	1	0	0	0	0	0	0	0	1	17565	610	22	4		4	ZBTB39	12	57397688	Silent	SNP	C	TCGA-BR-4294-01A-01D-1126-08		57397688	76454207	23	13206											
BTBD11	121551	broad.mit.edu	37	chr12	108004034	108004034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcgaagccaagtttaagcagGacctgggtttccggatgctg	9	10	13	9	2	0	0	0	0	0	0	2	3	1	2	3	3	3	4	3	3	3	3			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr12:108004034G>A	uc001tmk.1	+	5	2232	c.1711G>A	c.(1711-1713)GAC>AAC	p.D571N	BTBD11_uc009zut.1_Missense_Mutation_p.D571N|BTBD11_uc001tmj.2_Missense_Mutation_p.D571N|BTBD11_uc001tml.1_Missense_Mutation_p.D108N	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	571						integral to membrane	DNA binding			skin(2)|ovary(1)	3						GTTTAAGCAGGACCTGGGTTT	0.562											OREG0022090	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	99					0	0	0.080935	0	0		A	108004034	A	A	108004034	3	1	17	1	0	0	0	0	1	0	0	0	1542	1174	41	4	1834	4	BTBD11	12	108004034	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08	50606346	108004034	25847861	24	13207											
SPRED1	161742	broad.mit.edu	37	chr15	38643405	38643405	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacagtaaaaaatcagactAtctgtactcttgtggggatg	14	11	10	6	0	3	2	1	0	2	2	3	3	3	3	0	2	1	2	0	2	5	4			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr15:38643405A>T	uc001zka.3	+	7	1210	c.875A>T	c.(874-876)TAT>TTT	p.Y292F		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	292					inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		AAATCAGACTATCTGTACTCT	0.383									Legius_syndrome				27	10					0	0	0.059317	0	0		T	38643405	T	T	38643405	3	4	17	1	0	0	0	0	1	0	0	0	15117	449	16	5	901	5	SPRED1	15	38643405	Missense_Mutation	SNP	A	TCGA-BR-4294-01A-01D-1126-08		38643405	63887987	25	13208											
FSIP1	161835	broad.mit.edu	37	chr15	40018838	40018838	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaaaaactggaaattgtaggGgaggctgcagagagttcttg	13	9	15	4	0	1	1	0	0	1	1	1	5	1	3	0	4	2	4	0	4	4	4			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr15:40018838G>A	uc001zki.2	-	9	1220	c.1002C>T	c.(1000-1002)TCC>TCT	p.S334S		NM_152597	NP_689810	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1	334										ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		AAATTGTAGGGGAGGCTGCAG	0.423													6	38					0	0	0.038147	0	0		A	40018838	A	A	40018838	2	1	17	1	0	0	0	0	0	0	0	1	6088	1219	43	4		4	FSIP1	15	40018838	Silent	SNP	G	TCGA-BR-4294-01A-01D-1126-08	1375433	40018838	62512554	26	13209											
USP7	7874	broad.mit.edu	37	chr16	9009114	9009114	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacacacaacacttactatTtttctttcctttgatactta	12	18	1	10	0	1	1	0	1	1	0	2	1	2	1	1	0	4	0	1	0	6	9			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr16:9009114T>A	uc002czl.2	-	10	1274	c.1075A>T	c.(1075-1077)AAT>TAT	p.N359Y	USP7_uc010uyk.1_Missense_Mutation_p.N260Y|USP7_uc010uyj.1_Missense_Mutation_p.N260Y|USP7_uc002czk.2_Missense_Mutation_p.N343Y|USP7_uc010uyl.1_RNA	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	359					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						CACTTACTATTTTTCTTTCCT	0.294													4	26					0	0	0.014758	0	0		A	9009114	A	A	9009114	3	1	17	1	0	0	0	0	1	0	0	0	17114	1841	64	5	2321	5	USP7	16	9009114	Missense_Mutation	SNP	T	TCGA-BR-4294-01A-01D-1126-08		9009114	81345639	27	13210											
STX4	6810	broad.mit.edu	37	chr16	31051116	31051116	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcatcattggcgtcacagtgGttggataatgtcgcacattg	9	13	11	8	2	3	0	3	0	0	0	4	1	3	1	0	3	0	2	0	3	1	4			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr16:31051116G>T	uc002eal.2	+	10	1110	c.886G>T	c.(886-888)GTT>TTT	p.V296F	STX4_uc002eak.2_Missense_Mutation_p.V294F|STX4_uc002eam.2_Missense_Mutation_p.V218F|uc002ean.1_5'Flank	NM_004604	NP_004595	Q12846	STX4_HUMAN	syntaxin 4	296	Helical; Anchor for type IV membrane protein; (Potential).|Interaction with CENPF (By similarity).				intracellular protein transport|platelet activation|post-Golgi vesicle-mediated transport	basolateral plasma membrane|cell surface|cytosol|integral to membrane|plasma membrane enriched fraction|specific granule|vacuole	SNAP receptor activity				0						CGTCACAGTGGTTGGATAATG	0.587													5	82					3.59834e-05	3.85536e-05	0.021553	1	0		T	31051116	T	T	31051116	3	4	17	1	0	0	0	0	1	0	0	0	15372	1261	44	5	924	5	STX4	16	31051116	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08	22042002	31051116	59303637	28	13211											
FTO	79068	broad.mit.edu	37	chr16	53913791	53913791	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggattatattttacaacgCtgtcagttggctctgcagaa	10	15	9	7	1	2	1	1	0	1	1	2	2	2	2	0	2	3	4	0	2	5	6			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr16:53913791C>T	uc002ehr.2	+	6	1233	c.1011C>T	c.(1009-1011)CGC>CGT	p.R337R	FTO_uc010vha.1_Silent_p.R41R	NM_001080432	NP_001073901	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	337					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TTTTACAACGCTGTCAGTTGG	0.408													33	1					0	0	0.069456	0	0		T	53913791	T	T	53913791	2	4	17	1	0	0	0	0	0	0	0	1	6100	784	28	2		2	FTO	16	53913791	Silent	SNP	C	TCGA-BR-4294-01A-01D-1126-08	22862675	53913791	36440962	29	13212											
LRRC46	90506	broad.mit.edu	37	chr17	45913414	45913414	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagatgagttcccccagaGccttctcatcctcaacctgt	8	11	7	15	0	2	3	2	1	1	2	5	3	4	3	5	0	3	2	5	0	1	2			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr17:45913414G>C	uc002ima.2	+	6	654	c.398G>C	c.(397-399)AGC>ACC	p.S133T	LRRC46_uc002imb.2_Missense_Mutation_p.S86T	NM_033413	NP_219481	Q96FV0	LRC46_HUMAN	leucine rich repeat containing 46	133										ovary(1)	1						TTCCCCCAGAGCCTTCTCATC	0.448													10	15					0	0	0.069234	0	0		C	45913414	C	C	45913414	3	2	17	1	0	0	0	0	1	0	0	0	9021	971	34	5	420	5	LRRC46	17	45913414	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08		45913414	35281796	30	13213											
MED13	9969	broad.mit.edu	37	chr17	60140634	60140634	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggccttgccatacatatTttttccacttaattcctgtc	7	18	5	11	0	0	0	0	0	0	0	3	0	2	0	4	1	2	0	4	1	3	9			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr17:60140634T>A	uc002izo.2	-	2	172	c.95A>T	c.(94-96)AAA>ATA	p.K32I		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	32					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						CCATACATATTTTTTCCACTT	0.393													44	39					0	0	0.131918	0	0		A	60140634	A	A	60140634	3	1	17	1	0	0	0	0	1	0	0	0	9448	1841	64	5	6545	5	MED13	17	60140634	Missense_Mutation	SNP	T	TCGA-BR-4294-01A-01D-1126-08	14227220	60140634	21054576	31	13214											
MUC16	94025	broad.mit.edu	37	chr19	9085666	9085666	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tagtgaggtcccatagccagGaagtgattgcattcctccta	10	11	10	10	0	0	2	0	2	0	0	3	3	3	3	4	2	2	1	4	2	4	5	rs34029599		TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr19:9085666G>T	uc002mkp.2	-	1	6353	c.6149C>A	c.(6148-6150)TCC>TAC	p.S2050Y		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2050	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCATAGCCAGGAAGTGATTGC	0.483													57	88					1.38814e-16	1.60169e-16	0.139131	1	0		T	9085666	T	T	9085666	3	4	17	1	0	0	0	0	1	0	0	0	9991	1174	41	5	37710	5	MUC16	19	9085666	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08		9085666	50043317	32	13215											
NCAN	1463	broad.mit.edu	37	chr19	19338422	19338422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcacatggtgaggccaccGccacggctccaccctcccct	7	5	10	19	2	0	1	0	1	0	0	2	1	2	1	7	4	0	2	7	4	0	0			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr19:19338422G>A	uc002nlz.2	+	8	2092	c.1993G>A	c.(1993-1995)GCC>ACC	p.A665T	NCAN_uc010ecc.1_Missense_Mutation_p.A229T	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	665					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			TGAGGCCACCGCCACGGCTCC	0.607													41	33					0	0	0.139131	0	0		A	19338422	A	A	19338422	3	1	17	1	0	0	0	0	1	0	0	0	10223	1087	38	1	2019	1	NCAN	19	19338422	Missense_Mutation	SNP	G	TCGA-BR-4294-01A-01D-1126-08	10252756	19338422	39790561	33	13216											
RBM42	79171	broad.mit.edu	37	chr19	36128233	36128233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaccccagcgactacgtgCgcgccatgcgtgagatgaat	10	6	13	12	5	0	2	0	2	0	1	0	5	0	3	3	1	4	0	3	1	2	1			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr19:36128233C>T	uc002oan.2	+	9	1385	c.1309C>T	c.(1309-1311)CGC>TGC	p.R437C	RBM42_uc010eef.2_Missense_Mutation_p.R383C|RBM42_uc002oao.2_Missense_Mutation_p.R415C|RBM42_uc002oap.2_Missense_Mutation_p.R407C|RBM42_uc002oaq.2_Missense_Mutation_p.R408C|RBM42_uc010eeg.2_Intron	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	437	Necessary for interaction with HNRNPK (By similarity).|RRM.					cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CGACTACGTGCGCGCCATGCG	0.632													4	65					0	0	0.009096	0	0		T	36128233	T	T	36128233	3	4	17	1	0	0	0	0	1	0	0	0	13161	768	27	1	1343	1	RBM42	19	36128233	Missense_Mutation	SNP	C	TCGA-BR-4294-01A-01D-1126-08	16789811	36128233	23000750	34	13217											
ZNF534	147658	broad.mit.edu	37	chr19	52941686	52941686	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taatccatactggagagaaaCcttatgattgtaaggaatgt	15	12	9	5	0	0	2	0	1	0	1	1	5	1	4	2	2	2	1	2	2	6	5			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr19:52941686C>A	uc002pzk.2	+	4	1073	c.1012C>A	c.(1012-1014)CCT>ACT	p.P338T	ZNF534_uc002pzj.1_Intron|ZNF534_uc010epo.1_Intron|ZNF534_uc002pzl.2_Missense_Mutation_p.P325T	NM_001143939	NP_001137411	Q76KX8	ZN534_HUMAN	zinc finger protein 534 isoform 2	338					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGGAGAGAAACCTTATGATTG	0.408													10	14					7.48243e-07	8.13307e-07	0.058154	1	0		A	52941686	A	A	52941686	3	1	17	1	0	0	0	0	1	0	0	0	17998	507	18	5	1026	5	ZNF534	19	52941686	Missense_Mutation	SNP	C	TCGA-BR-4294-01A-01D-1126-08	16813453	52941686	6187297	35	13218											
NINL	22981	broad.mit.edu	37	chr20	25470531	25470531	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cttgtccttcagcacaaactCcaggtccttctgcagcttca	8	12	6	15	0	3	0	2	0	1	0	6	0	6	0	3	1	4	3	3	1	1	4			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chr20:25470531C>G	uc002wux.1	-	12	1650	c.1576G>C	c.(1576-1578)GAG>CAG	p.E526Q	NINL_uc010gdn.1_Missense_Mutation_p.E526Q|NINL_uc010gdo.1_Missense_Mutation_p.E309Q	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	526	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						AGCACAAACTCCAGGTCCTTC	0.597													7	137					0	0	0.02938	0	0		G	25470531	G	G	25470531	3	3	17	1	0	0	0	0	1	0	0	0	10439	864	30	5	2624	5	NINL	20	25470531	Missense_Mutation	SNP	C	TCGA-BR-4294-01A-01D-1126-08		25470531	37554989	36	13219											
MED12	9968	broad.mit.edu	37	chrX	70349258	70349258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atggagccgtgtttgctgttCtcaaggctgtgtttgtactt	5	17	12	7	1	1	0	1	0	1	0	2	1	1	1	1	2	3	6	1	2	2	5			TCGA-BR-4294-01A-01D-1126-08	TCGA-BR-4294-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	cb82319e-a676-4d80-b3e6-95f29d9266b3	5afac6e7-55d3-49a2-89e4-6509ed424a83	g.chrX:70349258C>T	uc004dyy.2	+	26	3869	c.3670C>T	c.(3670-3672)CTC>TTC	p.L1224F	MED12_uc011mpq.1_Missense_Mutation_p.L1224F|MED12_uc004dyz.2_Missense_Mutation_p.L1224F|MED12_uc004dza.2_Missense_Mutation_p.L1071F|MED12_uc010nla.2_5'Flank	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1224					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					GTTTGCTGTTCTCAAGGCTGT	0.562											OREG0019857	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	1					0	0	0.132662	0	0		T	70349258	T	T	70349258	3	4	17	1	0	0	0	0	1	0	0	0	9446	913	32	4	3772	4	MED12	23	70349258	Missense_Mutation	SNP	C	TCGA-BR-4294-01A-01D-1126-08		70349258	84921302	37	13220											
AJAP1	55966	broad.mit.edu	37	chr1	4772679	4772679	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaaggatcccaggtggggTtagcacaacggagccttcca	11	6	14	10	1	0	1	0	0	0	1	2	4	2	3	3	5	3	2	3	5	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:4772679T>G	uc001alm.1	+	2	1130	c.749T>G	c.(748-750)GTT>GGT	p.V250G	AJAP1_uc001aln.2_Missense_Mutation_p.V250G	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	250	Extracellular (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		CCAGGTGGGGTTAGCACAACG	0.498													48	202					0	0	0.013114	0	0		G	4772679	G	G	4772679	3	3	18	1	0	0	0	0	1	0	0	0	438	1725	60	5	755	5	AJAP1	1	4772679	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08		4772679	244477942	1	13221											
DNAJC11	55735	broad.mit.edu	37	chr1	6706032	6706032	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcagagcacagtttgttgtCacaaagctggagagacacag	13	8	12	8	0	1	2	1	0	0	2	1	4	1	3	0	1	3	5	0	1	1	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:6706032C>T	uc001aof.2	-	8	817	c.711G>A	c.(709-711)GTG>GTA	p.V237V	DNAJC11_uc010nzt.1_Silent_p.V199V|DNAJC11_uc001aog.2_Silent_p.V237V|DNAJC11_uc010nzu.1_Silent_p.V147V	NM_018198	NP_060668	Q9NVH1	DJC11_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 11	237					protein folding		heat shock protein binding|unfolded protein binding			ovary(1)|skin(1)	2	Ovarian(185;0.0265)|all_lung(157;0.154)	all_cancers(23;1.97e-27)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;2.34e-07)|COAD - Colon adenocarcinoma(227;2.05e-05)|Kidney(185;7.67e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000639)|KIRC - Kidney renal clear cell carcinoma(229;0.00128)|STAD - Stomach adenocarcinoma(132;0.00179)|READ - Rectum adenocarcinoma(331;0.0649)		AGTTTGTTGTCACAAAGCTGG	0.532													79	270					0	0	0.01441	0	0		T	6706032	T	T	6706032	2	4	18	1	0	0	0	0	0	0	0	1	4636	813	29	4		4	DNAJC11	1	6706032	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	1933353	6706032	242544589	2	13222											
PER3	8863	broad.mit.edu	37	chr1	7848192	7848192	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgatcctgaatcgtaagaaaGatgtcctggcgtcttctcac	10	12	9	10	2	2	4	1	2	2	2	6	4	4	4	2	1	0	1	2	1	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:7848192G>C	uc001aoo.2	+	4	653	c.478G>C	c.(478-480)GAT>CAT	p.D160H	PER3_uc009vmg.1_Missense_Mutation_p.D160H|PER3_uc009vmh.1_Missense_Mutation_p.D160H|PER3_uc001aop.2_Missense_Mutation_p.D160H|PER3_uc010nzw.1_5'UTR|PER3_uc001aon.2_Missense_Mutation_p.D160H	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	160	PAS 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		TCGTAAGAAAGATGTCCTGGC	0.448													50	268					0	0	0.01441	0	0		C	7848192	C	C	7848192	3	2	18	1	0	0	0	0	1	0	0	0	11750	942	33	5	492	5	PER3	1	7848192	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	1142160	7848192	241402429	3	13223											
ENO1	2023	broad.mit.edu	37	chr1	8925441	8925441	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacttgaagtccaggtcataCttcccagacctgaagaactc	12	9	8	12	0	1	4	1	2	0	2	4	5	3	4	3	1	2	0	3	1	4	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:8925441C>A	uc001apj.1	-	8	919	c.768G>T	c.(766-768)AAG>AAT	p.K256N	ENO1_uc001api.1_Missense_Mutation_p.K160N|ENO1_uc001apk.1_Missense_Mutation_p.K201N|ENO1_uc001apl.1_Missense_Mutation_p.K256N|ENO1_uc009vmi.1_Missense_Mutation_p.K213N|ENO1_uc009vmj.1_Missense_Mutation_p.K256N|ENO1_uc009vmk.1_Missense_Mutation_p.K130N|ENO1_uc009vml.1_Missense_Mutation_p.K256N	NM_001428	NP_001419	P06733	ENOA_HUMAN	enolase 1	256					gluconeogenesis|glycolysis|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|response to virus	phosphopyruvate hydratase complex|plasma membrane|sarcomere	DNA binding|magnesium ion binding|phosphopyruvate hydratase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|kidney(1)|central_nervous_system(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;2.54e-20)|all_lung(118;2.99e-06)|Lung NSC(185;6.25e-06)|Renal(390;0.000147)|Breast(348;0.00086)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;2.42e-07)|COAD - Colon adenocarcinoma(227;2.78e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		CCAGGTCATACTTCCCAGACC	0.557													8	154					5.18039e-06	5.81658e-06	0.00308	1	0		A	8925441	A	A	8925441	3	1	18	1	0	0	0	0	1	0	0	0	5129	564	20	5	556	5	ENO1	1	8925441	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	1077249	8925441	240325180	4	13224											
CASZ1	54897	broad.mit.edu	37	chr1	10713947	10713947	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagtcaacaaggtcgtCgttgctggactcctcgtgct	8	10	13	10	3	1	1	1	0	0	1	5	3	2	2	1	3	3	3	1	3	3	1	rs139467760		TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:10713947C>A	uc001aro.2	-	11	2487	c.2167G>T	c.(2167-2169)GAC>TAC	p.D723Y	CASZ1_uc001arp.1_Missense_Mutation_p.D723Y|CASZ1_uc009vmx.2_Missense_Mutation_p.D747Y	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	723					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		ACAAGGTCGTCGTTGCTGGAC	0.692													135	248					6.8322e-46	8.60185e-46	0.01441	1	0		A	10713947	A	A	10713947	3	1	18	1	0	0	0	0	1	0	0	0	2688	884	31	5	3160	5	CASZ1	1	10713947	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	1788506	10713947	238536674	5	13225											
VPS13D	55187	broad.mit.edu	37	chr1	12418626	12418626	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctttgaaagtcatccagcaAggaaaccgcccagggctgat	12	7	11	11	1	1	2	1	2	0	0	2	3	2	3	3	2	2	3	3	2	3	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:12418626A>G	uc001atv.2	+	50	10251	c.10110A>G	c.(10108-10110)CAA>CAG	p.Q3370Q	VPS13D_uc001atw.2_Silent_p.Q3345Q|VPS13D_uc001atx.2_Silent_p.Q2557Q	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3369					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TCATCCAGCAAGGAAACCGCC	0.547													22	114					0	0	0.010504	0	0		G	12418626	G	G	12418626	2	3	18	1	0	0	0	0	0	0	0	1	17218	69	3	3		3	VPS13D	1	12418626	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	1704679	12418626	236831995	6	13226											
PRAMEF11	440560	broad.mit.edu	37	chr1	12887510	12887510	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcatccagagtcctgttcTtgagccaaagttctacaaac	12	12	6	11	0	3	2	1	1	2	1	5	2	5	2	3	0	3	2	3	0	3	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:12887510T>C	uc001auk.2	-	3	543	c.347A>G	c.(346-348)AAG>AGG	p.K116R		NM_001146344	NP_001139816	O60813	PRA11_HUMAN	PRAME family member 11	116											0						AGTCCTGTTCTTGAGCCAAAG	0.483													16	754					0	0	0.012319	0	0		C	12887510	C	C	12887510	3	2	18	1	0	0	0	0	1	0	0	0	12449	1609	56	3	971	3	PRAMEF11	1	12887510	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	468884	12887510	236363111	7	13227											
SPEN	23013	broad.mit.edu	37	chr1	16260874	16260874	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccactccagtgaacgcCacggtgggcacagtgaatgc	10	6	11	14	2	1	2	1	2	0	0	2	2	2	2	3	2	2	1	3	2	2	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:16260874C>A	uc001axk.1	+	11	8343	c.8139C>A	c.(8137-8139)GCC>GCA	p.A2713A	SPEN_uc010obp.1_Silent_p.A2672A	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2713	Interaction with RBPSUH (By similarity).				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CAGTGAACGCCACGGTGGGCA	0.592													42	133					1.06522e-23	1.29855e-23	0.013114	1	0		A	16260874	A	A	16260874	2	1	18	1	0	0	0	0	0	0	0	1	15063	581	21	5		5	SPEN	1	16260874	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	3373364	16260874	232989747	8	13228											
NBPF1	55672	broad.mit.edu	37	chr1	16914255	16914255	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtactttctcagcctcCtcaacttgaacatcttcatc	9	14	3	15	0	4	1	3	1	2	0	8	1	6	1	3	0	4	1	3	0	3	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:16914255C>T	uc009vos.1	-	10	1419	c.531G>A	c.(529-531)GAG>GAA	p.E177E	NBPF1_uc009vot.1_5'Flank|NBPF1_uc001ayz.1_5'Flank|NBPF1_uc010oce.1_Intron	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	177	NBPF 1.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TCTCAGCCTCCTCAACTTGAA	0.438													49	606					0	0	0.01441	0	0		T	16914255	T	T	16914255	2	4	18	1	0	0	0	0	0	0	0	1	10210	680	24	4		4	NBPF1	1	16914255	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	653381	16914255	232336366	9	13229											
CELA3A	10136	broad.mit.edu	37	chr1	22329520	22329520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggctatggcccaccttcctCtcactcttccagccgcgttg	5	11	8	17	2	2	0	1	0	2	0	5	0	4	0	5	2	1	2	5	2	1	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:22329520C>T	uc001bfl.2	+	2	87	c.68C>T	c.(67-69)TCT>TTT	p.S23F	CELA3B_uc009vqf.2_Intron	NM_005747	NP_005738	P09093	CEL3A_HUMAN	elastase 3A, pancreatic preproprotein	23					cholesterol metabolic process|digestion|proteolysis		serine-type endopeptidase activity			haematopoietic_and_lymphoid_tissue(1)	1						CCACCTTCCTCTCACTCTTCC	0.532													61	498					0	0	0.01441	0	0		T	22329520	T	T	22329520	3	4	18	1	0	0	0	0	1	0	0	0	3216	913	32	4	74	4	CELA3A	1	22329520	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	5415265	22329520	226921101	10	13230											
EIF2C4	192670	broad.mit.edu	37	chr1	36297664	36297664	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgttctttaggtgaagAgcaacagtatggtgggtgga	9	13	14	5	0	1	2	0	1	1	1	2	3	2	3	1	4	2	3	1	4	4	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:36297664A>C	uc001bzj.1	+	10	1313	c.1123A>C	c.(1123-1125)AGC>CGC	p.S375R		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4	375					mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TTAGGTGAAGAGCAACAGTAT	0.423													71	235					0	0	0.01441	0	0		C	36297664	C	C	36297664	3	2	18	1	0	0	0	0	1	0	0	0	5014	304	11	5	1161	5	EIF2C4	1	36297664	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	13968144	36297664	212952957	11	13231											
B4GALT2	8704	broad.mit.edu	37	chr1	44450633	44450633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgactgcttcatcttcagcGatgtggacctggtccccatg	7	12	10	12	1	3	1	2	1	1	0	4	3	4	2	3	2	2	1	3	2	0	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:44450633G>A	uc001clg.2	+	4	1016	c.646G>A	c.(646-648)GAT>AAT	p.D216N	B4GALT2_uc001clh.2_Missense_Mutation_p.D150N|B4GALT2_uc010okl.1_Missense_Mutation_p.D245N|B4GALT2_uc001cli.2_Missense_Mutation_p.D216N	NM_003780	NP_003771	O60909	B4GT2_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	216	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			N-Acetyl-D-glucosamine(DB00141)	CATCTTCAGCGATGTGGACCT	0.592													20	72					0	0	0.012319	0	0		A	44450633	A	A	44450633	3	1	18	1	0	0	0	0	1	0	0	0	1272	1058	37	1	656	1	B4GALT2	1	44450633	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	8152969	44450633	204799988	12	13232											
GPR61	83873	broad.mit.edu	37	chr1	110085853	110085853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggccgtgatcgccaagaCgcctgccctccgaaaatttg	9	8	11	13	4	0	2	0	1	0	1	2	4	1	2	5	1	1	0	5	1	3	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:110085853C>T	uc001dxy.2	+	2	892	c.209C>T	c.(208-210)ACG>ATG	p.T70M		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	70	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		ATCGCCAAGACGCCTGCCCTC	0.607													47	161					0	0	0.01441	0	0		T	110085853	T	T	110085853	3	4	18	1	0	0	0	0	1	0	0	0	6717	536	19	1	211	1	GPR61	1	110085853	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	65635220	110085853	139164768	13	13233											
CHI3L2	1117	broad.mit.edu	37	chr1	111773550	111773550	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgctctaccagaccatcaAcagtctcaaaaccaagtgag	15	7	7	12	0	3	2	2	1	2	1	4	3	3	2	3	0	4	1	3	0	5	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:111773550A>G	uc001eam.2	+	3	328	c.257A>G	c.(256-258)AAC>AGC	p.N86S	CHI3L2_uc001ean.2_Missense_Mutation_p.N76S|CHI3L2_uc001eao.2_Missense_Mutation_p.N7S|CHI3L2_uc009wga.2_Missense_Mutation_p.N7S	NM_004000	NP_003991	Q15782	CH3L2_HUMAN	chitinase 3-like 2 isoform a	86					chitin catabolic process	extracellular space	cation binding|chitinase activity			central_nervous_system(1)	1		all_cancers(81;1.89e-05)|all_epithelial(167;7.36e-06)|all_lung(203;0.00018)|Lung NSC(277;0.000359)		Lung(183;0.0171)|Colorectal(144;0.0387)|all cancers(265;0.0464)|LUSC - Lung squamous cell carcinoma(189;0.0872)|Epithelial(280;0.0994)|COAD - Colon adenocarcinoma(174;0.141)		CAGACCATCAACAGTCTCAAA	0.448													14	31					0	0	0.003163	0	0		G	111773550	G	G	111773550	3	3	18	1	0	0	0	0	1	0	0	0	3344	43	2	3	267	3	CHI3L2	1	111773550	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	1687697	111773550	137477071	14	13234											
LCE3D	84648	broad.mit.edu	37	chr1	152552306	152552306	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccccagagcttggggcacagCcagaggaagctggaggcaga	11	3	16	11	0	0	3	0	0	0	3	0	5	0	5	3	5	3	4	3	5	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:152552306C>A	uc001fab.2	-	2	164	c.107G>T	c.(106-108)GGC>GTC	p.G36V		NM_032563	NP_115952	Q9BYE3	LCE3D_HUMAN	late cornified envelope 3D	36					keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)	UCEC - Uterine corpus endometrioid carcinoma (5;0.153)|KIRC - Kidney renal clear cell carcinoma(4;0.0323)|Kidney(5;0.0378)		TGGGGCACAGCCAGAGGAAGC	0.662													38	188					1.49673e-21	1.81881e-21	0.00623	1	0		A	152552306	A	A	152552306	3	1	18	1	0	0	0	0	1	0	0	0	8688	739	26	5	175	5	LCE3D	1	152552306	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	40778756	152552306	96698315	15	13235											
RAB13	5872	broad.mit.edu	37	chr1	153958684	153958684	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtccccgatcagcagcaacTtgaagaggtggtcgtaggct	10	8	13	10	2	1	2	1	1	0	1	3	3	2	2	2	3	3	4	2	3	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:153958684T>G	uc001fdt.1	-	1	123	c.29A>C	c.(28-30)AAG>ACG	p.K10T	RAB13_uc001fdu.1_Missense_Mutation_p.K10T	NM_002870	NP_002861	P51153	RAB13_HUMAN	RAB13, member RAS oncogene family	10					cell adhesion|protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	cytoplasmic vesicle membrane|tight junction	GTP binding|GTPase activity				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			CAGCAGCAACTTGAAGAGGTG	0.617													4	24					0	0	0.001984	0	0		G	153958684	G	G	153958684	3	3	18	1	0	0	0	0	1	0	0	0	12924	1609	56	5	614	5	RAB13	1	153958684	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	1406378	153958684	95291937	16	13236											
ASH1L	55870	broad.mit.edu	37	chr1	155448757	155448757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgacttcgatgagtgatccGaatttcacttaggcgactta	11	13	9	8	3	1	3	1	3	0	0	3	6	2	3	1	1	0	0	1	1	3	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:155448757G>A	uc009wqq.2	-	3	4384	c.3904C>T	c.(3904-3906)CGG>TGG	p.R1302W	ASH1L_uc001fkt.2_Missense_Mutation_p.R1302W|ASH1L_uc009wqr.1_Missense_Mutation_p.R1302W	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1302					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TGAGTGATCCGAATTTCACTT	0.398													52	197					0	0	0.01441	0	0		A	155448757	A	A	155448757	3	1	18	1	0	0	0	0	1	0	0	0	1042	1057	37	1	5094	1	ASH1L	1	155448757	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	1490073	155448757	93801864	17	13237											
GPATCH4	54865	broad.mit.edu	37	chr1	156567853	156567853	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttctgatacagcaagtTgggcttgggatgattataac	13	12	10	6	0	1	2	0	2	1	0	1	3	1	3	0	2	4	3	0	2	5	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:156567853T>G	uc001fpm.2	-	5	361	c.322A>C	c.(322-324)AAC>CAC	p.N108H	GPATCH4_uc001fpl.2_Missense_Mutation_p.N103H	NM_015590	NP_056405	Q5T3I0	GPTC4_HUMAN	G patch domain containing 4 isoform 1	103						intracellular	nucleic acid binding			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TACAGCAAGTTGGGCTTGGGA	0.463													20	303					0	0	0.004656	0	0		G	156567853	G	G	156567853	3	3	18	1	0	0	0	0	1	0	0	0	6608	1812	63	5	821	5	GPATCH4	1	156567853	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	1119096	156567853	92682768	18	13238											
FCRL4	83417	broad.mit.edu	37	chr1	157557239	157557239	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgaagaagttgaagtgaAgtggggtgtctgaccgctct	9	11	14	7	1	3	5	0	4	3	1	3	5	3	5	1	2	0	2	1	2	4	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:157557239A>C	uc001fqw.2	-	5	810	c.674T>G	c.(673-675)CTT>CGT	p.L225R	FCRL4_uc010phy.1_RNA	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	225	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				GTTGAAGTGAAGTGGGGTGTC	0.532													14	534					0	0	0.003163	0	0		C	157557239	C	C	157557239	3	2	18	1	0	0	0	0	1	0	0	0	5811	72	3	5	905	5	FCRL4	1	157557239	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	989386	157557239	91693382	19	13239											
SPTA1	6708	broad.mit.edu	37	chr1	158590112	158590112	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccctagccagggaggccaAgaagtcctcatggtctttct	9	9	11	12	0	3	1	1	0	2	1	4	2	4	2	4	3	2	0	4	3	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:158590112A>T	uc001fst.1	-	44	6464	c.6265T>A	c.(6265-6267)TTG>ATG	p.L2089M		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2089	Spectrin 20.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					AGGGAGGCCAAGAAGTCCTCA	0.493													15	106					0	0	0.003163	0	0		T	158590112	T	T	158590112	3	4	18	1	0	0	0	0	1	0	0	0	15141	69	3	5	1030	5	SPTA1	1	158590112	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	1032873	158590112	90660509	20	13240											
PPOX	5498	broad.mit.edu	37	chr1	161140706	161140706	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctcttctcagaactgcattCcccagtatacactaggtcac	10	12	5	14	0	3	1	2	0	2	1	6	1	4	1	2	1	3	2	2	1	4	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:161140706C>A	uc001fyj.2	+	12	1548	c.1258C>A	c.(1258-1260)CCC>ACC	p.P420T	PPOX_uc001fyn.2_Missense_Mutation_p.P128T|PPOX_uc001fyg.2_Missense_Mutation_p.P420T|PPOX_uc001fyl.2_Missense_Mutation_p.P386T|PPOX_uc001fym.2_RNA|PPOX_uc001fyk.2_Missense_Mutation_p.P258T|PPOX_uc001fyh.2_Missense_Mutation_p.P258T|PPOX_uc010pkg.1_Missense_Mutation_p.P258T|PPOX_uc009wuc.1_Missense_Mutation_p.P221T|PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_Intron	NM_001122764	NP_001116236	P50336	PPOX_HUMAN	protoporphyrinogen oxidase	420					heme biosynthetic process	intrinsic to mitochondrial inner membrane|mitochondrial intermembrane space	flavin adenine dinucleotide binding|oxygen-dependent protoporphyrinogen oxidase activity			ovary(1)	1	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GAACTGCATTCCCCAGTATAC	0.473									Porphyria_Variegata				71	275					4.75426e-39	5.92738e-39	0.01441	1	0		A	161140706	A	A	161140706	3	1	18	1	0	0	0	0	1	0	0	0	12370	855	30	5	1300	5	PPOX	1	161140706	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	2550594	161140706	88109915	21	13241											
OLFML2B	25903	broad.mit.edu	37	chr1	161967729	161967729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtctgttctgactgtggtggGaggcactgggactgtgtgca	5	12	17	7	0	2	1	0	1	2	0	2	3	2	3	0	4	1	3	0	4	0	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:161967729G>A	uc001gbu.2	-	6	1784	c.1360C>T	c.(1360-1362)CCC>TCC	p.P454S	OLFML2B_uc010pkq.1_Missense_Mutation_p.P455S	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	454										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			ACTGTGGTGGGAGGCACTGGG	0.617													39	168					0	0	0.009718	0	0		A	161967729	A	A	161967729	3	1	18	1	0	0	0	0	1	0	0	0	10877	1174	41	4	904	4	OLFML2B	1	161967729	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	827023	161967729	87282892	22	13242											
BLZF1	8548	broad.mit.edu	37	chr1	169349731	169349731	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcagggtaatggcagaTgagttaaccaactcaagagc	13	11	10	7	0	2	3	2	1	0	2	2	3	2	3	1	2	3	3	1	2	4	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:169349731T>A	uc001gfx.1	+	5	1118	c.681T>A	c.(679-681)GAT>GAA	p.D227E	BLZF1_uc001gfy.2_Missense_Mutation_p.D227E|BLZF1_uc009wvp.1_Missense_Mutation_p.D204E	NM_003666	NP_003657	Q9H2G9	GO45_HUMAN	basic leucine zipper nuclear factor 1	227					cell proliferation|Golgi organization|Golgi to plasma membrane protein transport|regulation of cell growth|regulation of transcription from RNA polymerase II promoter	Golgi lumen|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|ubiquitin protein ligase binding			skin(1)	1	all_hematologic(923;0.208)					TAATGGCAGATGAGTTAACCA	0.368													38	81					0	0	0.006999	0	0		A	169349731	A	A	169349731	3	1	18	1	0	0	0	0	1	0	0	0	1454	1461	51	5	695	5	BLZF1	1	169349731	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	7382002	169349731	79900890	23	13243											
PAPPA2	60676	broad.mit.edu	37	chr1	176661333	176661333	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctatttggacctagtctatCagcagtggactgaaagcaga	12	10	11	8	0	2	2	1	1	1	1	2	4	2	4	1	2	2	3	1	2	4	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:176661333C>T	uc001gkz.2	+	6	3667	c.2503C>T	c.(2503-2505)CAG>TAG	p.Q835*	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	835					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CCTAGTCTATCAGCAGTGGAC	0.502													72	300					0	0	0.01441	0	0		T	176661333	T	T	176661333	4	4	18	1	0	0	0	0	0	1	0	0	11452	827	29	4	2574	4	PAPPA2	1	176661333	Nonsense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	7311602	176661333	72589288	24	13244											
FAM5C	339479	broad.mit.edu	37	chr1	190067498	190067498	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttccgggaagggtcaataaActccagaggttcatagtaaa	14	9	11	7	1	2	1	2	0	0	1	4	2	4	2	2	3	1	3	2	3	7	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:190067498A>C	uc001gse.1	-	8	2183	c.1951T>G	c.(1951-1953)TTT>GTT	p.F651V	FAM5C_uc010pot.1_Missense_Mutation_p.F549V	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	651						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					GGGTCAATAAACTCCAGAGGT	0.428													58	202					0	0	0.01441	0	0		C	190067498	C	C	190067498	3	2	18	1	0	0	0	0	1	0	0	0	5608	43	2	5	353	5	FAM5C	1	190067498	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	13406165	190067498	59183123	25	13245											
NR5A2	2494	broad.mit.edu	37	chr1	200008793	200008793	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcccgtgtccaggtgctggGcttccggaccgacacggatc	5	8	14	14	4	0	0	0	0	0	0	3	3	2	2	4	4	2	2	4	4	0	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:200008793G>C	uc001gvb.2	+	2	278	c.72G>C	c.(70-72)GGG>GGC	p.G24G	NR5A2_uc001gvc.2_Intron|NR5A2_uc009wzh.2_5'UTR|NR5A2_uc010pph.1_5'Flank|NR5A2_uc009wzg.1_RNA	NM_205860	NP_995582	O00482	NR5A2_HUMAN	nuclear receptor subfamily 5, group A, member 2	24					embryo development|positive regulation of viral genome replication|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	lipid binding|protein binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Prostate(682;0.19)					CAGGTGCTGGGCTTCCGGACC	0.667													6	214					0	0	0.001984	0	0		C	200008793	C	C	200008793	2	2	18	1	0	0	0	0	0	0	0	1	10655	1190	42	5		5	NR5A2	1	200008793	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	9941295	200008793	49241828	26	13246											
SUSD4	55061	broad.mit.edu	37	chr1	223438057	223438057	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagacccatcaagtttaaaTccgggaaagcagcgatagga	15	6	11	9	2	1	1	1	0	0	1	2	4	2	3	2	2	2	3	2	2	5	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:223438057T>C	uc001hnx.2	-	4	1273	c.639A>G	c.(637-639)GGA>GGG	p.G213G	SUSD4_uc001hny.3_Silent_p.G213G|SUSD4_uc010puw.1_Silent_p.G53G|SUSD4_uc001hnz.2_Silent_p.G213G|SUSD4_uc010pux.1_Silent_p.G142G	NM_017982	NP_060452	Q5VX71	SUSD4_HUMAN	sushi domain containing 4 isoform a	213	Sushi 3.|Extracellular (Potential).					integral to membrane					0				GBM - Glioblastoma multiforme(131;0.0611)		CAAGTTTAAATCCGGGAAAGC	0.512													47	246					0	0	0.01441	0	0		C	223438057	C	C	223438057	2	2	18	1	0	0	0	0	0	0	0	1	15435	1422	50	3		3	SUSD4	1	223438057	Silent	SNP	T	TCGA-BR-4357-01A-01D-1158-08	23429264	223438057	25812564	27	13247											
LBR	3930	broad.mit.edu	37	chr1	225594439	225594439	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctgactaaataaaaggcttgGaagctgtaaataaagggaac	18	8	10	5	0	0	1	0	1	0	0	0	3	0	3	0	3	2	3	0	3	10	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:225594439G>C	uc001hoy.2	-	11	1553	c.1410C>G	c.(1408-1410)TTC>TTG	p.F470L	LBR_uc001hoz.2_Missense_Mutation_p.F470L|LBR_uc001hpa.1_Missense_Mutation_p.F470L	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	470					cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		AAAAGGCTTGGAAGCTGTAAA	0.398													46	125					0	0	0.01441	0	0		C	225594439	C	C	225594439	3	2	18	1	0	0	0	0	1	0	0	0	8668	1165	41	5	453	5	LBR	1	225594439	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	2156382	225594439	23656182	28	13248											
OR2T6	254879	broad.mit.edu	37	chr1	248551054	248551054	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggggtcatgatcttcctgAttaacatagaccctcatctc	10	13	7	11	0	4	3	2	2	2	1	6	3	5	3	2	2	1	0	2	2	2	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:248551054A>T	uc001iei.1	+	1	145	c.145A>T	c.(145-147)ATT>TTT	p.I49F		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	49	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GATCTTCCTGATTAACATAGA	0.473													7	185					0	0	0.00308	0	0		T	248551054	T	T	248551054	3	4	18	1	0	0	0	0	1	0	0	0	11048	333	12	5	147	5	OR2T6	1	248551054	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	22956615	248551054	699567	29	13249											
OR2T3	343173	broad.mit.edu	37	chr1	248637452	248637452	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctacacctacatgctcccGagttcctaccacacagctga	10	10	5	16	1	1	1	0	1	1	0	3	2	3	1	4	0	5	3	4	0	3	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr1:248637452G>A	uc001iel.1	+	1	801	c.801G>A	c.(799-801)CCG>CCA	p.P267P		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ACATGCTCCCGAGTTCCTACC	0.547													58	836					0	0	0.01441	0	0		A	248637452	A	A	248637452	2	1	18	1	0	0	0	0	0	0	0	1	11042	1045	37	1		1	OR2T3	1	248637452	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	86398	248637452	613169	30	13250											
LHCGR	3973	broad.mit.edu	37	chr2	48925758	48925758	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggtttctacttactcttTtgttggcaagtttctaaaag	8	20	7	6	0	3	0	0	0	3	0	3	0	3	0	0	2	2	4	0	2	5	9			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:48925758T>C	uc002rwu.3	-	9	932	c.862A>G	c.(862-864)AAA>GAA	p.K288E	GTF2A1L_uc002rwt.2_Intron|LHCGR_uc002rwv.2_RNA	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	288	Extracellular (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	ACTTACTCTTTTGTTGGCAAG	0.423									Familial_Male-Limited_Precocious_Puberty				42	97					0	0	0.00874	0	0		C	48925758	C	C	48925758	3	2	18	1	0	0	0	0	1	0	0	0	8778	1850	64	3	1249	3	LHCGR	2	48925758	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08		48925758	194273615	31	13251											
REG1A	5967	broad.mit.edu	37	chr2	79349196	79349196	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgtggcctcactgattaAggagagtggcactgatgact	9	12	12	8	0	1	4	1	3	0	1	1	5	1	4	1	3	0	1	1	3	1	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:79349196A>C	uc002snz.2	+	4	369	c.266A>C	c.(265-267)AAG>ACG	p.K89T	REG1A_uc010ffx.1_3'UTR|REG1A_uc010ysd.1_Missense_Mutation_p.K89T	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	89	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						TCACTGATTAAGGAGAGTGGC	0.498													26	102					0	0	0.00632	0	0		C	79349196	C	C	79349196	3	2	18	1	0	0	0	0	1	0	0	0	13235	72	3	5	276	5	REG1A	2	79349196	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	30423438	79349196	163850177	32	13252											
KDM3A	55818	broad.mit.edu	37	chr2	86669284	86669284	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctgggacgtggagcgcgtCgccgagtggccctggctctc	4	7	17	13	5	1	0	0	0	1	0	3	3	1	2	2	4	2	2	2	4	0	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:86669284C>T	uc002sri.3	+	2	441	c.114C>T	c.(112-114)GTC>GTT	p.V38V	KDM3A_uc010ytj.1_Silent_p.V38V|KDM3A_uc010ytk.1_Silent_p.V38V	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	38					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						TGGAGCGCGTCGCCGAGTGGC	0.642													14	48					0	0	0.012319	0	0		T	86669284	T	T	86669284	2	4	18	1	0	0	0	0	0	0	0	1	8142	871	31	1		1	KDM3A	2	86669284	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	7320088	86669284	156530089	33	13253											
FOXD4L1	200350	broad.mit.edu	37	chr2	114256921	114256921	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacggtaaaatcgatgtcCtgggagaggaggaagatgaa	16	6	15	4	2	0	4	0	1	0	3	2	8	1	6	1	4	0	1	1	4	5	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:114256921C>T	uc002tjw.3	+	1	261	c.88C>T	c.(88-90)CTG>TTG	p.L30L		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	30					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						AATCGATGTCCTGGGAgagga	0.517													5	117					0	0	0.003163	0	0		T	114256921	T	T	114256921	2	4	18	1	0	0	0	0	0	0	0	1	6014	680	24	4		4	FOXD4L1	2	114256921	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	27587637	114256921	128942452	34	13254											
ZEB2	9839	broad.mit.edu	37	chr2	145157322	145157322	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaatttcttcagccttgcAgtccattttttgcctggaaa	9	16	7	9	0	2	1	1	1	1	0	3	2	3	2	3	1	3	1	3	1	2	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:145157322A>C	uc002tvu.2	-	8	1912	c.1432T>G	c.(1432-1434)TGC>GGC	p.C478G	ZEB2_uc002tvv.2_Missense_Mutation_p.C472G|ZEB2_uc010zbm.1_Missense_Mutation_p.C449G|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.C507G	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	478	SMAD-MH2 binding domain (By similarity).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TCAGCCTTGCAGTCCATTTTT	0.408													82	132					0	0	0.01441	0	0		C	145157322	C	C	145157322	3	2	18	1	0	0	0	0	1	0	0	0	17649	188	7	5	2224	5	ZEB2	2	145157322	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	30900401	145157322	98042051	35	13255											
LY75	4065	broad.mit.edu	37	chr2	160708776	160708776	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcagaatctgggctgtatTtctctaacgaagaaacatta	13	12	8	8	1	2	2	0	0	2	2	3	3	2	2	0	1	3	3	0	1	6	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:160708776T>G	uc002ubc.3	-	21	2888	c.2819A>C	c.(2818-2820)AAA>ACA	p.K940T	LY75_uc002ubb.3_Missense_Mutation_p.K940T|LY75_uc010fos.2_Missense_Mutation_p.K940T	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	940	Extracellular (Potential).				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		TGGGCTGTATTTCTCTAACGA	0.363													29	134					0	0	0.008361	0	0		G	160708776	G	G	160708776	3	3	18	1	0	0	0	0	1	0	0	0	9117	1841	64	5	2409	5	LY75	2	160708776	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	15551454	160708776	82490597	36	13256											
XIRP2	129446	broad.mit.edu	37	chr2	168096364	168096364	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgtctgtgtgctttcaGgaggcaattcatagcagcca	8	13	11	9	0	4	0	2	0	2	0	4	1	4	1	1	2	3	3	1	2	2	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:168096364G>T	uc002udx.2	+	5	877	c.859_splice	c.e5-1	p.E287_splice	XIRP2_uc010fpn.2_Splice_Site_p.E320_splice|XIRP2_uc010fpo.2_Splice_Site_p.E287_splice|XIRP2_uc010fpp.2_Splice_Site_p.E287_splice|XIRP2_uc002udy.2_Splice_Site_p.E112_splice|XIRP2_uc010fpq.2_Splice_Site_p.E65_splice|XIRP2_uc010fpr.2_Splice_Site_p.E65_splice	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1						actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TGTGCTTTCAGGAGGCAATTC	0.363													12	84					2.80697e-09	3.25643e-09	0.010729	1	0		T	168096364	T	T	168096364	5	4	18	1	0	0	0	0	0	0	1	0	17456	1014	35	5	876	5	XIRP2	2	168096364	Splice_Site	SNP	G	TCGA-BR-4357-01A-01D-1158-08	7387588	168096364	75103009	37	13257											
XIRP2	129446	broad.mit.edu	37	chr2	168105231	168105231	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaacgatttttcccccaaAgttgaactggcaacctccct	12	10	6	13	1	0	2	0	1	0	1	2	3	2	2	4	1	3	2	4	1	5	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:168105231A>C	uc002udx.2	+	8	7347	c.7329A>C	c.(7327-7329)AAA>AAC	p.K2443N	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.K2268N|XIRP2_uc010fpq.2_Missense_Mutation_p.K2221N|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2268					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TTTCCCCCAAAGTTGAACTGG	0.413													45	186					0	0	0.01441	0	0		C	168105231	C	C	168105231	3	2	18	1	0	0	0	0	1	0	0	0	17456	69	3	5	7359	5	XIRP2	2	168105231	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	8867	168105231	75094142	38	13258											
DHRS9	10170	broad.mit.edu	37	chr2	169938295	169938295	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgaatcaggatcaacagcTttaaaggcagaaacctcaga	17	7	8	9	0	3	3	3	1	0	2	3	4	3	4	1	2	3	2	1	2	5	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:169938295T>C	uc002uep.2	+	5	1708	c.204T>C	c.(202-204)GCT>GCC	p.A68A	DHRS9_uc002ueq.2_Silent_p.A68A|DHRS9_uc010zdc.1_Silent_p.A128A|DHRS9_uc002uer.1_Silent_p.A68A|DHRS9_uc010zdd.1_Silent_p.A68A|DHRS9_uc010zde.1_Silent_p.A68A	NM_005771	NP_005762	Q9BPW9	DHRS9_HUMAN	NADP-dependent retinol dehydrogenase/reductase	68					9-cis-retinoic acid biosynthetic process|androgen metabolic process|epithelial cell differentiation|progesterone metabolic process|retinol metabolic process	integral to endoplasmic reticulum membrane|microsome	alcohol dehydrogenase (NAD) activity|binding|racemase and epimerase activity|retinol dehydrogenase activity|testosterone dehydrogenase (NAD+) activity				0						GATCAACAGCTTTAAAGGCAG	0.478													14	165					0	0	0.003163	0	0		C	169938295	C	C	169938295	2	2	18	1	0	0	0	0	0	0	0	1	4504	1596	56	3		3	DHRS9	2	169938295	Silent	SNP	T	TCGA-BR-4357-01A-01D-1158-08	1833064	169938295	73261078	39	13259											
TTN	7273	broad.mit.edu	37	chr2	179403391	179403391	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctattgtgaattgcttGtccttaatacgttccttatt	7	19	5	10	1	0	1	0	1	0	0	3	1	3	1	4	0	2	2	4	0	5	9			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:179403391G>T	uc010zfg.1	-	303	91685	c.91461C>A	c.(91459-91461)GAC>GAA	p.D30487E	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D24182E|TTN_uc010zfi.1_Missense_Mutation_p.D24115E|TTN_uc010zfj.1_Missense_Mutation_p.D23990E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31414							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGAATTGCTTGTCCTTAATAC	0.438													82	349					3.77845e-26	4.63554e-26	0.01441	1	0		T	179403391	T	T	179403391	3	4	18	1	0	0	0	0	1	0	0	0	16761	1368	48	5	8850	5	TTN	2	179403391	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	9465096	179403391	63795982	40	13260											
TTN	7273	broad.mit.edu	37	chr2	179435132	179435132	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gcggctggtttctctcctttCcacaatataatttatgatgt	8	17	7	9	1	1	1	0	1	1	0	4	1	3	1	2	2	0	2	2	2	4	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:179435132C>G	uc010zfg.1	-	275	68247	c.68023G>C	c.(68023-68025)GAA>CAA	p.E22675Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E16370Q|TTN_uc010zfi.1_Missense_Mutation_p.E16303Q|TTN_uc010zfj.1_Missense_Mutation_p.E16178Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23602							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTCTCCTTTCCACAATATAA	0.443													17	50					0	0	0.00499	0	0		G	179435132	G	G	179435132	3	3	18	1	0	0	0	0	1	0	0	0	16761	864	30	5	32400	5	TTN	2	179435132	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	31741	179435132	63764241	41	13261											
TTN	7273	broad.mit.edu	37	chr2	179577811	179577811	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttactgttttgtaaactgaCctctcacagtcaaaggagca	12	13	7	9	0	2	1	2	1	1	0	3	2	2	2	1	1	3	3	1	1	4	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:179577811C>A	uc010zfg.1	-	90	23541	c.23317_splice	c.e90+1	p.E7773_splice	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Splice_Site_p.E4434_splice	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A								ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGTAAACTGACCTCTCACAGT	0.348													3	78					0.004672	0.00512585	0.004672	1	0		A	179577811	A	A	179577811	5	1	18	1	0	0	0	0	0	0	1	0	16761	521	18	5	77559	5	TTN	2	179577811	Splice_Site	SNP	C	TCGA-BR-4357-01A-01D-1158-08	142679	179577811	63621562	42	13262											
TTN	7273	broad.mit.edu	37	chr2	179578671	179578671	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctttgccaacagggttcTgcacctcaaaactgtatacc	10	12	7	12	0	3	0	1	0	2	0	3	0	3	0	3	1	5	3	3	1	5	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:179578671T>G	uc010zfg.1	-	89	23206	c.22982A>C	c.(22981-22983)CAG>CCG	p.Q7661P	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.Q4322P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8588							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AACAGGGTTCTGCACCTCAAA	0.413													16	61					0	0	0.00499	0	0		G	179578671	G	G	179578671	3	3	18	1	0	0	0	0	1	0	0	0	16761	1580	55	5	77899	5	TTN	2	179578671	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	860	179578671	63620702	43	13263											
ZNF804A	91752	broad.mit.edu	37	chr2	185800895	185800895	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttgtccccagtgcttgtCatcttcaacaatcttcacca	9	14	5	13	0	5	0	3	0	2	0	6	1	6	0	3	0	2	1	3	0	2	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:185800895C>A	uc002uph.2	+	4	1366	c.772C>A	c.(772-774)CAT>AAT	p.H258N		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	258						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						CAGTGCTTGTCATCTTCAACA	0.433													42	216					4.14194e-30	5.14726e-30	0.011902	1	0		A	185800895	A	A	185800895	3	1	18	1	0	0	0	0	1	0	0	0	18195	826	29	5	786	5	ZNF804A	2	185800895	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	6222224	185800895	57398478	44	13264											
BARD1	580	broad.mit.edu	37	chr2	215593709	215593709	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttccccacaaatagaagtaGcatccatcaaacagctttgg	14	9	7	11	0	1	1	1	0	0	1	3	1	3	1	3	1	3	4	3	1	5	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:215593709G>A	uc002veu.2	-	11	2160	c.2025C>T	c.(2023-2025)TGC>TGT	p.C675C	BARD1_uc010zjm.1_Missense_Mutation_p.A530V	NM_000465	NP_000456	Q99728	BARD1_HUMAN	BRCA1 associated RING domain 1	675	BRCT 2.				cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		AATAGAAGTAGCATCCATCAA	0.403									Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				27	51					0	0	0.008361	0	0		A	215593709	A	A	215593709	2	1	18	1	0	0	0	0	0	0	0	1	1313	963	34	2		2	BARD1	2	215593709	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	29792814	215593709	27605664	45	13265											
CXCR1	3577	broad.mit.edu	37	chr2	219029003	219029003	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggaatccatggcgaaaaTtttggccgatgaaggcgtag	12	9	14	6	3	0	2	0	2	0	0	1	5	1	3	2	4	0	1	2	4	5	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:219029003T>G	uc002vhc.2	-	2	1051	c.932A>C	c.(931-933)AAT>ACT	p.N311T		NM_000634	NP_000625	P25024	CXCR1_HUMAN	interleukin 8 receptor alpha	311	Cytoplasmic (Potential).				dendritic cell chemotaxis|inflammatory response	integral to membrane|plasma membrane	interleukin-8 receptor activity			lung(2)	2						ATGGCGAAAATTTTGGCCGAT	0.542													7	136					0	0	0.00308	0	0		G	219029003	G	G	219029003	3	3	18	1	0	0	0	0	1	0	0	0	4093	1493	52	5	124	5	CXCR1	2	219029003	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	3435294	219029003	24170370	46	13266											
PAX3	5077	broad.mit.edu	37	chr2	223066852	223066852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggtgagaggggagagcgCgtaatcagtctggggctgat	8	7	18	8	3	2	3	1	2	1	2	2	5	2	3	1	5	1	2	1	5	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:223066852C>T	uc010fwo.2	-	8	1597	c.1231G>A	c.(1231-1233)GCG>ACG	p.A411T	PAX3_uc002vmt.1_Missense_Mutation_p.A411T|PAX3_uc002vmy.1_Missense_Mutation_p.A410T|PAX3_uc002vmv.1_Missense_Mutation_p.A411T|PAX3_uc002vmw.1_Intron|PAX3_uc002vmx.1_Intron	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	411					apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGGGAGAGCGCGTAATCAGTC	0.547			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						6	24					0	0	0.001984	0	0		T	223066852	T	T	223066852	3	4	18	1	0	0	0	0	1	0	0	0	11499	768	27	1	326	1	PAX3	2	223066852	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	4037849	223066852	20132521	47	13267											
PID1	55022	broad.mit.edu	37	chr2	229890734	229890734	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcctctcgggctagcgTgtgcttcttccagagctcaa	7	11	10	13	2	3	1	1	0	2	1	6	2	5	1	2	1	3	3	2	1	2	3	rs138008399	byFrequency	TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:229890734T>C	uc002vpr.3	-	3	405	c.367A>G	c.(367-369)ACG>GCG	p.T123A	PID1_uc002vps.3_Missense_Mutation_p.T121A|PID1_uc002vpt.3_Missense_Mutation_p.T90A|PID1_uc002vpu.3_Missense_Mutation_p.T41A	NM_001100818	NP_001094288	Q7Z2X4	PCLI1_HUMAN	phosphotyrosine interaction domain containing 1	123	PID.					cytoplasm				breast(3)|skin(1)	4		Renal(207;0.0112)|all_lung(227;0.0191)|Lung NSC(271;0.0851)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.171)		Epithelial(121;3.08e-11)|all cancers(144;2.28e-08)|LUSC - Lung squamous cell carcinoma(224;0.0145)|Lung(261;0.0189)		CGGGCTAGCGTGTGCTTCTTC	0.547													12	109					0	0	0.013537	0	0		C	229890734	C	C	229890734	3	2	18	1	0	0	0	0	1	0	0	0	11901	1696	59	3	389	3	PID1	2	229890734	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	6823882	229890734	13308639	48	13268											
RBM44	375316	broad.mit.edu	37	chr2	238725997	238725997	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaaagaggaggtttttttTaatattttggaacatcaaga	17	14	8	2	0	1	2	1	0	0	2	1	4	1	4	0	3	1	1	0	3	7	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:238725997T>A	uc002vxi.3	+	3	570	c.438T>A	c.(436-438)TTT>TTA	p.F146L		NM_001080504	NP_001073973	Q6ZP01	RBM44_HUMAN	RNA binding motif protein 44	145							nucleotide binding|RNA binding			ovary(4)	4		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;3.74e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.3e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000118)|Lung(119;0.0112)|LUSC - Lung squamous cell carcinoma(224;0.0266)		AGGTTTTTTTTAATATTTTGG	0.318													6	20					0	0	0.001984	0	0		A	238725997	A	A	238725997	3	1	18	1	0	0	0	0	1	0	0	0	13163	1751	61	5	444	5	RBM44	2	238725997	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	8835263	238725997	4473376	49	13269											
PER2	8864	broad.mit.edu	37	chr2	239176732	239176732	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcactctctctgccagcagaAggcagcaaagctgactctca	11	7	9	14	0	3	2	1	1	3	1	5	2	3	2	1	1	4	5	1	1	2	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr2:239176732A>C	uc002vyc.2	-	8	1169	c.932T>G	c.(931-933)CTT>CGT	p.L311R	PER2_uc010znv.1_Missense_Mutation_p.L311R|PER2_uc010znw.1_Missense_Mutation_p.L311R|PER2_uc010fyx.1_Missense_Mutation_p.L311R	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	311					circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		TGCCAGCAGAAGGCAGCAAAG	0.567													7	47					0	0	0.00308	0	0		C	239176732	C	C	239176732	3	2	18	1	0	0	0	0	1	0	0	0	11749	72	3	5	2899	5	PER2	2	239176732	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	450735	239176732	4022641	50	13270											
SCN5A	6331	broad.mit.edu	37	chr3	38597190	38597190	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggcttcttggagcccagcTtcttcatggcattgtagtac	6	13	12	10	0	3	0	1	0	2	0	3	1	3	1	1	4	3	5	1	4	2	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr3:38597190T>G	uc003cio.2	-	26	4693	c.4499A>C	c.(4498-4500)AAG>ACG	p.K1500T	SCN5A_uc003cin.2_Missense_Mutation_p.K1499T|SCN5A_uc003cil.3_Missense_Mutation_p.K1500T|SCN5A_uc010hhi.2_Missense_Mutation_p.K1482T|SCN5A_uc010hhk.2_Missense_Mutation_p.K1499T|SCN5A_uc011ayr.1_Missense_Mutation_p.K1446T	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1500			K -> N.|Missing (in BRS1).		blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	GGAGCCCAGCTTCTTCATGGC	0.567													10	112					0	0	0.010729	0	0		G	38597190	G	G	38597190	3	3	18	1	0	0	0	0	1	0	0	0	13947	1609	56	5	1563	5	SCN5A	3	38597190	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08		38597190	159425240	51	13271											
CELSR3	1951	broad.mit.edu	37	chr3	48697355	48697355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgagtctgcatcaatgcGgaactggggcaggttgtcct	7	11	13	10	1	2	1	1	1	1	0	4	2	4	2	2	4	3	3	2	4	2	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr3:48697355G>A	uc003cul.2	-	1	2994	c.2713C>T	c.(2713-2715)CGC>TGC	p.R905C	CELSR3_uc003cuf.1_Missense_Mutation_p.R975C	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	905	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GCATCAATGCGGAACTGGGGC	0.423													22	91					0	0	0.012319	0	0		A	48697355	A	A	48697355	3	1	18	1	0	0	0	0	1	0	0	0	3226	1116	39	1	7365	1	CELSR3	3	48697355	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	10100165	48697355	149325075	52	13272											
WDR6	11180	broad.mit.edu	37	chr3	49044890	49044890	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctctcgaggactacgtttGgccgcgggcaacctcggagc	6	7	14	14	6	1	0	0	0	1	0	3	3	1	2	2	4	3	3	2	4	2	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr3:49044890G>A	uc003cvj.2	+	1	254	c.116G>A	c.(115-117)TGG>TAG	p.W39*	WDR6_uc011bbx.1_Nonsense_Mutation_p.W39*|WDR6_uc011bby.1_Nonsense_Mutation_p.W39*|WDR6_uc010hkn.2_5'UTR|WDR6_uc011bbz.1_5'Flank	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	9					cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		GACTACGTTTGGCCGCGGGCA	0.642													10	38					0	0	0.010729	0	0		A	49044890	A	A	49044890	4	1	18	1	0	0	0	0	0	1	0	0	17336	1357	47	4	118	4	WDR6	3	49044890	Nonsense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	347535	49044890	148977540	53	13273											
CAMKV	79012	broad.mit.edu	37	chr3	49897278	49897278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggactgctctggtgcccGgagccgtttcatgagggtgg	4	10	17	10	2	2	1	1	1	1	0	2	3	2	3	2	5	3	3	2	5	0	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr3:49897278G>A	uc003cxt.1	-	11	1172	c.979C>T	c.(979-981)CGG>TGG	p.R327W	CAMKV_uc011bcy.1_Missense_Mutation_p.R252W|CAMKV_uc003cxv.1_Missense_Mutation_p.R299W|CAMKV_uc003cxw.1_Missense_Mutation_p.R159W|CAMKV_uc003cxx.1_Missense_Mutation_p.R159W|CAMKV_uc003cxu.2_Missense_Mutation_p.R327W|CAMKV_uc011bcz.1_Missense_Mutation_p.R290W|CAMKV_uc011bda.1_Missense_Mutation_p.R284W	NM_024046	NP_076951	Q8NCB2	CAMKV_HUMAN	CaM kinase-like vesicle-associated	327						cytoplasmic vesicle membrane|plasma membrane	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|large_intestine(2)|central_nervous_system(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		TCTGGTGCCCGGAGCCGTTTC	0.637													11	33					0	0	0.013537	0	0		A	49897278	A	A	49897278	3	1	18	1	0	0	0	0	1	0	0	0	2611	1115	39	1	530	1	CAMKV	3	49897278	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	852388	49897278	148125152	54	13274											
SEMA3B	7869	broad.mit.edu	37	chr3	50311057	50311057	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcccggcgtcgagggcgAcacccacttcgatcagctcc	6	6	13	16	5	1	0	1	0	0	0	4	3	2	0	3	3	2	1	3	3	0	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr3:50311057A>G	uc003cyu.2	+	10	1144	c.902A>G	c.(901-903)GAC>GGC	p.D301G	SEMA3B_uc003cyt.2_Missense_Mutation_p.D301G|SEMA3B_uc003cyv.2_Missense_Mutation_p.D188G|SEMA3B_uc003cyw.2_5'UTR|SEMA3B_uc010hli.2_Missense_Mutation_p.D188G|SEMA3B_uc003cyx.2_Missense_Mutation_p.D188G|SEMA3B_uc003cyy.2_5'UTR|SEMA3B_uc011bdo.1_5'UTR	NM_004636	NP_004627	Q13214	SEM3B_HUMAN	semaphorin 3B isoform 1 precursor	301	Sema.				axon guidance|cell-cell signaling	endoplasmic reticulum|extracellular region|membrane	receptor activity			lung(2)|central_nervous_system(2)|kidney(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		GTCGAGGGCGACACCCACTTC	0.716											OREG0015583	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	66					0	0	0.007291	0	0		G	50311057	G	G	50311057	3	3	18	1	0	0	0	0	1	0	0	0	14050	275	10	3	931	3	SEMA3B	3	50311057	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	413779	50311057	147711373	55	13275											
PXK	54899	broad.mit.edu	37	chr3	58376310	58376310	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaaaatgtctttgcagaGattgccttgcaacaggtttc	10	15	8	8	0	2	1	0	0	2	1	3	2	2	1	1	1	4	3	1	1	3	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr3:58376310G>T	uc003djz.1	+	5	489	c.390G>T	c.(388-390)GAG>GAT	p.E130D	PXK_uc003djx.1_Missense_Mutation_p.E130D|PXK_uc003djy.1_Missense_Mutation_p.E113D|PXK_uc003dka.1_Missense_Mutation_p.E130D|PXK_uc003dkb.1_Missense_Mutation_p.E47D|PXK_uc003dkc.1_Missense_Mutation_p.E113D|PXK_uc011bfe.1_Missense_Mutation_p.E97D|PXK_uc010hnj.1_Missense_Mutation_p.E97D|PXK_uc003dkd.1_5'UTR|PXK_uc010hnk.1_Intron	NM_017771	NP_060241	Q7Z7A4	PXK_HUMAN	PX domain containing serine/threonine kinase	130	Protein kinase.				cell communication|inflammatory response|negative regulation of ATPase activity|negative regulation of ion transport|regulation of synaptic transmission	centrosome|cytoplasm|nucleus|plasma membrane	actin binding|ATP binding|phosphatidylinositol binding|phosphatidylinositol binding|protein C-terminus binding|protein kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000249)|KIRC - Kidney renal clear cell carcinoma(10;0.00346)|Kidney(10;0.00368)|OV - Ovarian serous cystadenocarcinoma(275;0.22)		TCTTTGCAGAGATTGCCTTGC	0.413													9	52					1.58986e-06	1.80091e-06	0.008291	1	0		T	58376310	T	T	58376310	3	4	18	1	0	0	0	0	1	0	0	0	12874	956	33	5	408	5	PXK	3	58376310	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	8065253	58376310	139646120	56	13276											
ROBO2	6092	broad.mit.edu	37	chr3	77657104	77657104	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtggaacaacaagaaaatGggtaaagatattttatatac	19	10	8	4	0	0	2	0	0	0	2	0	3	0	3	0	2	3	1	0	2	11	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr3:77657104G>T	uc003dpy.3	+	21	3935	c.3292G>T	c.(3292-3294)GGC>TGC	p.G1098C	ROBO2_uc003dpz.2_Missense_Mutation_p.G1102C|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.G1102C|ROBO2_uc003dqa.2_Missense_Mutation_p.G225C	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1098	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		ACAAGAAAATGGGTAAAGATA	0.478													16	44					3.52763e-06	3.98415e-06	0.00499	1	0		T	77657104	T	T	77657104	3	4	18	1	0	0	0	0	1	0	0	0	13539	1362	47	5	3376	5	ROBO2	3	77657104	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	19280794	77657104	120365326	57	13277											
PARP14	54625	broad.mit.edu	37	chr3	122422676	122422676	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcttggaaaaagctggaccaGagctccaggaggaattggac	13	7	13	8	0	1	1	0	0	1	1	2	6	2	6	2	5	2	2	2	5	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr3:122422676G>C	uc003efq.3	+	7	3228	c.3169G>C	c.(3169-3171)GAG>CAG	p.E1057Q	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Missense_Mutation_p.E774Q|PARP14_uc003efs.1_Missense_Mutation_p.E774Q	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	1057	Macro 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		AGCTGGACCAGAGCTCCAGGA	0.507													25	86					0	0	0.003954	0	0		C	122422676	C	C	122422676	3	2	18	1	0	0	0	0	1	0	0	0	11477	943	33	5	3195	5	PARP14	3	122422676	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	44765572	122422676	75599754	58	13278											
TMEM22	80723	broad.mit.edu	37	chr3	136573735	136573735	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttatccgttctgtttttcagGtcttatctgtgttagttgtg	4	22	9	6	1	4	0	1	0	3	0	5	0	5	0	1	1	0	4	1	1	3	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr3:136573735G>T	uc003erf.3	+	2	647	c.433G>T	c.(433-435)GTC>TTC	p.V145F	TMEM22_uc003erg.3_Missense_Mutation_p.V145F|TMEM22_uc010hub.2_Missense_Mutation_p.V145F	NM_001097600	NP_001091069	Q8TBE7	TMM22_HUMAN	transmembrane protein 22	145	DUF6 1.|Helical; (Potential).					Golgi apparatus|integral to membrane				ovary(1)	1						TGTTTTTCAGGTCTTATCTGT	0.413													103	321					1.7666e-45	2.21691e-45	0.01441	1	0		T	136573735	T	T	136573735	3	4	18	1	0	0	0	0	1	0	0	0	16168	1261	44	5	435	5	TMEM22	3	136573735	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	14151059	136573735	61448695	59	13279											
PRR23B	389151	broad.mit.edu	37	chr3	138739163	138739163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcagacgagtcgtgctgcGctcctgagcgttcgtcgacg	5	8	15	13	8	0	2	0	1	0	1	4	4	1	2	1	1	3	4	1	1	0	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr3:138739163G>A	uc003esy.1	-	1	606	c.341C>T	c.(340-342)GCG>GTG	p.A114V		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	114										breast(1)	1						GTCGTGCTGCGCTCCTGAGCG	0.632													138	104					0	0	0.01441	0	0		A	138739163	A	A	138739163	3	1	18	1	0	0	0	0	1	0	0	0	12617	1087	38	1	460	1	PRR23B	3	138739163	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	2165428	138739163	59283267	60	13280											
XRN1	54464	broad.mit.edu	37	chr3	142102207	142102207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acttctcagaggaaacaaatCatccaatgttttgatattgg	14	13	7	7	0	2	2	2	1	1	1	4	3	3	3	1	2	1	1	1	2	4	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr3:142102207C>T	uc003eus.2	-	22	2618	c.2551G>A	c.(2551-2553)GAT>AAT	p.D851N	XRN1_uc010huu.2_Missense_Mutation_p.D317N|XRN1_uc003eut.2_Missense_Mutation_p.D851N|XRN1_uc003euu.2_Missense_Mutation_p.D851N|XRN1_uc003euv.1_Missense_Mutation_p.D712N	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	851					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						GGAAACAAATCATCCAATGTT	0.348													30	141					0	0	0.003755	0	0		T	142102207	T	T	142102207	3	4	18	1	0	0	0	0	1	0	0	0	17485	826	29	4	2653	4	XRN1	3	142102207	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	3363044	142102207	55920223	61	13281											
AHSG	197	broad.mit.edu	37	chr3	186335007	186335007	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacgtgcgcaaggtgtgccaAgactgccccctgctggcccc	6	6	13	16	2	0	1	0	0	0	1	0	2	0	1	5	2	4	2	5	2	2	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr3:186335007A>G	uc003fqk.3	+	4	522	c.441A>G	c.(439-441)CAA>CAG	p.Q147Q	AHSG_uc003fqj.2_Silent_p.Q147Q|AHSG_uc003fql.3_Silent_p.Q148Q|AHSG_uc003fqm.3_Silent_p.Q146Q|AHSG_uc010hyp.2_Silent_p.Q110Q	NM_001622	NP_001613	P02765	FETUA_HUMAN	alpha-2-HS-glycoprotein	147	Cystatin fetuin-A-type 2.				acute-phase response|negative regulation of bone mineralization|negative regulation of insulin receptor signaling pathway|pinocytosis|positive regulation of phagocytosis|regulation of inflammatory response|skeletal system development	extracellular space	cysteine-type endopeptidase inhibitor activity|protein binding				0	all_cancers(143;3.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.27e-20)	GBM - Glioblastoma multiforme(93;0.0463)		AGGTGTGCCAAGACTGCCCCC	0.637											OREG0015968	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	151					0	0	0.00333	0	0		G	186335007	G	G	186335007	2	3	18	1	0	0	0	0	0	0	0	1	420	69	3	3		3	AHSG	3	186335007	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	44232800	186335007	11687423	62	13282											
STK32B	55351	broad.mit.edu	37	chr4	5468493	5468493	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattctagaatccaagccaCttcacaaaaagaagaagcga	18	7	7	9	1	2	4	1	1	1	3	3	5	3	4	2	0	2	0	2	0	7	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr4:5468493C>A	uc003gih.1	+	10	1037	c.973C>A	c.(973-975)CTT>ATT	p.L325I	STK32B_uc010ida.1_Missense_Mutation_p.L278I	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	325							ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						ATCCAAGCCACTTCACAAAAA	0.498													16	41					6.44725e-10	7.57108e-10	0.014323	1	0		A	5468493	A	A	5468493	3	1	18	1	0	0	0	0	1	0	0	0	15323	565	20	5	1011	5	STK32B	4	5468493	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08		5468493	185685783	63	13283											
DRD5	1816	broad.mit.edu	37	chr4	9784423	9784423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcgcccaggtgcagatccGcaggatttcctccctggaga	8	8	11	14	2	0	2	0	0	0	2	4	4	3	3	4	3	1	2	4	3	0	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr4:9784423G>A	uc003gmb.3	+	1	1166	c.770G>A	c.(769-771)CGC>CAC	p.R257H		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	257	Cytoplasmic (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	GTGCAGATCCGCAGGATTTCC	0.632													13	30					0	0	0.00245	0	0		A	9784423	A	A	9784423	3	1	18	1	0	0	0	0	1	0	0	0	4766	1087	38	1	772	1	DRD5	4	9784423	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	4315930	9784423	181369853	64	13284											
SLC34A2	10568	broad.mit.edu	37	chr4	25678198	25678198	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcgcgtgctgcttgctgtgtGactgccccaagtgctgccgc	3	10	14	14	3	0	1	0	1	0	0	0	1	0	1	3	0	6	4	3	0	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr4:25678198G>C	uc003grr.2	+	13	1981	c.1900G>C	c.(1900-1902)GGC>CGC	p.G634R	SLC34A2_uc003grs.2_Missense_Mutation_p.D633H|SLC34A2_uc010iev.2_Missense_Mutation_p.D633H	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	634	Cys-rich.|Cytoplasmic (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				cttgctgtgtgactgccccaa	0.343													11	21					0	0	0.003163	0	0		C	25678198	C	C	25678198	3	2	18	1	0	0	0	0	1	0	0	0	14593	1290	45	5	1946	5	SLC34A2	4	25678198	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	15893775	25678198	165476078	65	13285											
COX18	285521	broad.mit.edu	37	chr4	73927606	73927606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtaatatacgtctgaaaaCgagacattccaattttttgt	14	14	6	7	3	1	2	0	1	1	1	2	3	2	2	1	0	2	1	1	0	6	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr4:73927606C>T	uc003hgm.1	-	5	858	c.752G>A	c.(751-753)CGT>CAT	p.R251H	COX18_uc003hgn.1_Missense_Mutation_p.R100H|COX18_uc011cbc.1_Missense_Mutation_p.R252H|COX18_uc010iih.1_Missense_Mutation_p.R251H	NM_173827	NP_776188	Q8N8Q8	COX18_HUMAN	mitochondrial COX18 precursor	251					protein insertion into mitochondrial membrane|respiratory chain complex IV assembly	integral to mitochondrial inner membrane	protein transporter activity				0	Breast(15;0.00096)		Epithelial(6;1.26e-06)|OV - Ovarian serous cystadenocarcinoma(6;9.45e-06)|all cancers(17;2.05e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CGTCTGAAAACGAGACATTCC	0.368													12	48					0	0	0.013537	0	0		T	73927606	T	T	73927606	3	4	18	1	0	0	0	0	1	0	0	0	3770	536	19	1	257	1	COX18	4	73927606	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	48249408	73927606	117226670	66	13286											
UNC5C	8633	broad.mit.edu	37	chr4	96091445	96091445	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaccgtggtgatggtgttCgcaggatccagcagcggcaa	8	8	16	9	3	0	2	0	2	0	0	2	3	1	3	2	4	2	4	2	4	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr4:96091445C>T	uc003htp.1	-	15	2644	c.2490G>A	c.(2488-2490)GCG>GCA	p.A830A	uc003hto.2_5'Flank	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	830	Cytoplasmic (Potential).				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		TGATGGTGTTCGCAGGATCCA	0.552													26	328					0	0	0.00632	0	0		T	96091445	T	T	96091445	2	4	18	1	0	0	0	0	0	0	0	1	17019	871	31	1		1	UNC5C	4	96091445	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	22163839	96091445	95062831	67	13287											
C4orf21	55345	broad.mit.edu	37	chr4	113539455	113539455	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcaccctcaatctcttcAcagtttgtattctcagacct	8	16	4	13	0	5	1	4	0	2	1	7	1	5	1	2	0	0	3	2	0	2	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr4:113539455A>G	uc003iau.2	-	6	1954	c.1743T>C	c.(1741-1743)TGT>TGC	p.C581C	C4orf21_uc003iaw.2_Silent_p.C581C	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		CAATCTCTTCACAGTTTGTAT	0.378													49	138					0	0	0.01441	0	0		G	113539455	G	G	113539455	2	3	18	1	0	0	0	0	0	0	0	1	2257	157	6	3		3	C4orf21	4	113539455	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	17448010	113539455	77614821	68	13288											
LRBA	987	broad.mit.edu	37	chr4	151836777	151836777	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacatcgctagtgttgacaaAccatgttatctctccatagg	11	13	7	10	1	1	1	0	1	1	0	4	1	2	1	2	1	2	3	2	1	5	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr4:151836777A>C	uc010ipj.2	-	8	1471	c.997T>G	c.(997-999)TTT>GTT	p.F333V	LRBA_uc003ilu.3_Missense_Mutation_p.F333V|LRBA_uc010ipk.1_Missense_Mutation_p.F252V	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	333						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					GTGTTGACAAACCATGTTATC	0.338													8	61					0	0	0.00308	0	0		C	151836777	C	C	151836777	3	2	18	1	0	0	0	0	1	0	0	0	8949	43	2	5	7798	5	LRBA	4	151836777	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	38297322	151836777	39317499	69	13289											
FGB	2244	broad.mit.edu	37	chr4	155487704	155487704	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaacaggaaaggccaatcAgaaatagtgttgatgagtta	17	9	10	5	0	1	3	1	2	0	1	1	4	1	4	1	2	2	2	1	2	7	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr4:155487704A>G	uc003ioa.3	+	3	409	c.370A>G	c.(370-372)AGA>GGA	p.R124G	FGB_uc010ipu.1_RNA|FGB_uc003iob.3_Missense_Mutation_p.R121G|FGB_uc010ipv.2_Missense_Mutation_p.R62G|FGB_uc010ipw.2_Missense_Mutation_p.R121G|FGB_uc003ioc.3_Intron	NM_005141	NP_005132	P02675	FIBB_HUMAN	fibrinogen, beta chain preproprotein	124					platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen|soluble fraction	chaperone binding|eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	AAGGCCAATCAGAAATAGTGT	0.413													12	199					0	0	0.00245	0	0		G	155487704	G	G	155487704	3	3	18	1	0	0	0	0	1	0	0	0	5845	180	7	3	380	3	FGB	4	155487704	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	3650927	155487704	35666572	70	13290											
FNIP2	57600	broad.mit.edu	37	chr4	159825674	159825674	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccagtactcattctccttAtgtggctcaaatactcttat	9	16	5	11	0	4	0	2	0	2	0	5	0	4	0	2	1	3	2	2	1	5	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr4:159825674A>T	uc003iqe.3	+	17	3506	c.3323A>T	c.(3322-3324)TAT>TTT	p.Y1108F	C4orf45_uc003iqf.1_Intron|C4orf45_uc010iqt.1_Intron	NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	1108					DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		CATTCTCCTTATGTGGCTCAA	0.368													14	207					0	0	0.00499	0	0		T	159825674	T	T	159825674	3	4	18	1	0	0	0	0	1	0	0	0	5990	449	16	5	3389	5	FNIP2	4	159825674	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	4337970	159825674	31328602	71	13291											
FSTL5	56884	broad.mit.edu	37	chr4	162307171	162307171	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgtgtgcttgaactacCgtagatgttatattggtggg	8	16	13	4	1	0	2	0	1	0	1	0	2	0	2	1	2	3	4	1	2	5	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr4:162307171C>T	uc003iqh.2	-	16	2708	c.2272G>A	c.(2272-2274)GGT>AGT	p.G758S	FSTL5_uc003iqi.2_Missense_Mutation_p.G757S|FSTL5_uc010iqv.2_Missense_Mutation_p.G748S|uc010iqu.1_RNA	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	758						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CTTGAACTACCGTAGATGTTA	0.418													29	114					0	0	0.008361	0	0		T	162307171	T	T	162307171	3	4	18	1	0	0	0	0	1	0	0	0	6094	652	23	1	275	1	FSTL5	4	162307171	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	2481497	162307171	28847105	72	13292											
UFSP2	55325	broad.mit.edu	37	chr4	186336377	186336377	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgttacaagatttttttTccctggtaataaaaagtgca	14	16	6	5	0	0	1	0	0	0	1	1	1	1	1	1	1	2	3	1	1	7	8			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr4:186336377T>A	uc003ixo.2	-	6	733	c.616A>T	c.(616-618)AAA>TAA	p.K206*	UFSP2_uc003ixn.2_Nonsense_Mutation_p.K96*|UFSP2_uc003ixq.2_Nonsense_Mutation_p.K96*|UFSP2_uc003ixp.2_RNA	NM_018359	NP_060829	Q9NUQ7	UFSP2_HUMAN	UFM1-specific peptidase 2	206						endoplasmic reticulum|nucleus	small conjugating protein-specific protease activity				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;3.4e-25)|Epithelial(43;2.23e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;8.1e-05)|GBM - Glioblastoma multiforme(59;0.000148)|STAD - Stomach adenocarcinoma(60;0.000782)|LUSC - Lung squamous cell carcinoma(40;0.00939)|COAD - Colon adenocarcinoma(29;0.0108)|READ - Rectum adenocarcinoma(43;0.166)		AGATTTTTTTTCCCTGGTAAT	0.343													26	73					0	0	0.00632	0	0		A	186336377	A	A	186336377	4	1	18	1	0	0	0	0	0	1	0	0	16964	1792	62	5	821	5	UFSP2	4	186336377	Nonsense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	24029206	186336377	4817899	73	13293											
PDLIM3	27295	broad.mit.edu	37	chr4	186423589	186423589	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggttgcagtcggcacacacGaagcactcagggtgccggta	10	6	14	11	3	1	0	1	0	0	0	2	1	1	0	1	4	3	5	1	4	2	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr4:186423589G>A	uc003ixw.3	-	8	1078	c.954C>T	c.(952-954)TTC>TTT	p.F318F	PDLIM3_uc003ixx.3_Silent_p.F270F|PDLIM3_uc010isi.2_RNA	NM_014476	NP_055291	Q53GG5	PDLI3_HUMAN	PDZ and LIM domain protein 3 isoform a	318	LIM zinc-binding.					sarcomere	zinc ion binding			ovary(2)	2		all_lung(41;1.03e-13)|Lung NSC(41;2.49e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.00996)|Colorectal(36;0.0161)|all_hematologic(60;0.0592)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.4e-10)|BRCA - Breast invasive adenocarcinoma(30;8.64e-05)|GBM - Glioblastoma multiforme(59;0.000167)|STAD - Stomach adenocarcinoma(60;0.000828)|LUSC - Lung squamous cell carcinoma(40;0.00984)|COAD - Colon adenocarcinoma(29;0.0115)|READ - Rectum adenocarcinoma(43;0.171)		CGGCACACACGAAGCACTCAG	0.532													48	143					0	0	0.01441	0	0		A	186423589	A	A	186423589	2	1	18	1	0	0	0	0	0	0	0	1	11700	1049	37	1		1	PDLIM3	4	186423589	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	87212	186423589	4730687	74	13294											
ADCY2	108	broad.mit.edu	37	chr5	7707834	7707834	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagacgtgttcacatttcTtctgtcaccctggagcactt	7	15	7	12	1	5	1	3	0	2	1	5	2	5	2	1	1	1	2	1	1	0	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:7707834T>C	uc003jdz.1	+	9	1351	c.1284T>C	c.(1282-1284)TCT>TCC	p.S428S	ADCY2_uc011cmo.1_Silent_p.S248S	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	428	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						TTCACATTTCTTCTGTCACCC	0.388													79	169					0	0	0.01441	0	0		C	7707834	C	C	7707834	2	2	18	1	0	0	0	0	0	0	0	1	294	1596	56	3		3	ADCY2	5	7707834	Silent	SNP	T	TCGA-BR-4357-01A-01D-1158-08		7707834	173207426	75	13295											
SEMA5A	9037	broad.mit.edu	37	chr5	9066581	9066581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctagaacagtaccgcatttCgattctctgtcttcccactt	8	14	6	13	2	2	1	0	0	2	1	5	2	3	1	2	0	2	3	2	0	3	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:9066581C>T	uc003jek.2	-	17	2963	c.2251G>A	c.(2251-2253)GAA>AAA	p.E751K		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	751	TSP type-1 4.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						TACCGCATTTCGATTCTCTGT	0.542													75	272					0	0	0.01441	0	0		T	9066581	T	T	9066581	3	4	18	1	0	0	0	0	1	0	0	0	14062	893	31	1	1001	1	SEMA5A	5	9066581	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	1358747	9066581	171848679	76	13296											
DNAH5	1767	broad.mit.edu	37	chr5	13708305	13708305	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagattttcgctcatgatgAtggtgccatcaatagcaagt	11	12	10	8	1	2	3	2	2	0	1	3	3	2	3	1	1	2	3	1	1	3	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:13708305A>G	uc003jfd.2	-	76	13307	c.13265T>C	c.(13264-13266)ATC>ACC	p.I4422T	DNAH5_uc003jfc.2_Missense_Mutation_p.I590T	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4422					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GCTCATGATGATGGTGCCATC	0.453									Kartagener_syndrome				177	229					0	0	0.01441	0	0		G	13708305	G	G	13708305	3	3	18	1	0	0	0	0	1	0	0	0	4610	333	12	3	625	3	DNAH5	5	13708305	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	4641724	13708305	167206955	77	13297											
FBXL7	23194	broad.mit.edu	37	chr5	15936809	15936809	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctccatcaaggagctgagCgtcagcgactgccgcttcgt	7	8	12	14	4	2	1	2	1	0	0	4	3	3	2	3	1	4	2	3	1	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:15936809C>T	uc003jfn.1	+	4	1471	c.990C>T	c.(988-990)AGC>AGT	p.S330S		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	330	LRR 6.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						AGGAGCTGAGCGTCAGCGACT	0.677													4	12					0	0	0.000602	0	0		T	15936809	T	T	15936809	2	4	18	1	0	0	0	0	0	0	0	1	5738	767	27	1		1	FBXL7	5	15936809	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	2228504	15936809	164978451	78	13298											
C5orf23	79614	broad.mit.edu	37	chr5	32789806	32789806	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcatcactttccttttagTtatggctgattttgggtgtg	6	19	10	6	0	1	1	1	1	0	0	2	1	2	1	1	2	1	3	1	2	2	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:32789806T>G	uc003jhw.1	+	1	862	c.299T>G	c.(298-300)GTT>GGT	p.V100G		NM_024563	NP_078839			hypothetical protein LOC79614												0						TTCCTTTTAGTTATGGCTGAT	0.413													41	151					0	0	0.011902	0	0		G	32789806	G	G	32789806	3	3	18	1	0	0	0	0	1	0	0	0	2289	1725	60	5	301	5	C5orf23	5	32789806	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	16852997	32789806	148125454	79	13299											
AGXT2	64902	broad.mit.edu	37	chr5	34998853	34998853	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttctttccatgtgttgggTtaaggcagaacgaaatactt	10	15	9	7	1	2	1	0	0	2	1	3	2	3	1	1	2	2	3	1	2	4	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:34998853T>G	uc003jjf.2	-	14	1595	c.1516A>C	c.(1516-1518)ACC>CCC	p.T506P	AGXT2_uc003jje.1_Missense_Mutation_p.T159P|AGXT2_uc011com.1_Missense_Mutation_p.T431P	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	506					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	ATGTGTTGGGTTAAGGCAGAA	0.378													49	73					0	0	0.01441	0	0		G	34998853	G	G	34998853	3	3	18	1	0	0	0	0	1	0	0	0	405	1725	60	5	32	5	AGXT2	5	34998853	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	2209047	34998853	145916407	80	13300											
AGXT2	64902	broad.mit.edu	37	chr5	35035336	35035336	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgtgattacctgaaagaaAtgatgtctatgttgtttgag	11	16	11	3	0	1	5	0	4	1	1	1	5	1	5	1	0	1	3	1	0	4	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:35035336A>T	uc003jjf.2	-	5	651	c.572T>A	c.(571-573)ATT>AAT	p.I191N	AGXT2_uc011com.1_Missense_Mutation_p.I191N|AGXT2_uc011con.1_Missense_Mutation_p.I99N	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	191					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	CCTGAAAGAAATGATGTCTAT	0.448													41	169					0	0	0.009718	0	0		T	35035336	T	T	35035336	3	4	18	1	0	0	0	0	1	0	0	0	405	101	4	5	1012	5	AGXT2	5	35035336	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	36483	35035336	145879924	81	13301											
IL7R	3575	broad.mit.edu	37	chr5	35861002	35861002	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactcattctcatgctataGccagttggaagtgaatggat	11	13	9	8	0	2	1	2	1	1	0	3	3	2	3	1	2	3	2	1	2	5	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:35861002G>T	uc003jjs.2	+	2	220	c.131G>T	c.(130-132)AGC>ATC	p.S44I	IL7R_uc011coo.1_Missense_Mutation_p.S44I|IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	44	Extracellular (Potential).				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			TCATGCTATAGCCAGTTGGAA	0.438													86	210					1.52795e-29	1.89268e-29	0.01441	1	0		T	35861002	T	T	35861002	3	4	18	1	0	0	0	0	1	0	0	0	7721	971	34	5	137	5	IL7R	5	35861002	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	825666	35861002	145054258	82	13302											
NIPBL	25836	broad.mit.edu	37	chr5	36984938	36984938	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaggcaggaagagtggaCtctcaggcttctataactca	12	9	10	10	0	4	1	3	0	2	1	5	3	4	3	0	4	1	2	0	4	3	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:36984938C>T	uc003jkl.3	+	10	2155	c.1656C>T	c.(1654-1656)GAC>GAT	p.D552D	NIPBL_uc003jkk.3_Silent_p.D552D|NIPBL_uc003jkm.1_Silent_p.D431D	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	552					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GAAGAGTGGACTCTCAGGCTT	0.433													368	413					0	0	0.01441	0	0		T	36984938	T	T	36984938	2	4	18	1	0	0	0	0	0	0	0	1	10447	564	20	4		4	NIPBL	5	36984938	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	1123936	36984938	143930322	83	13303											
VCAN	1462	broad.mit.edu	37	chr5	82816513	82816513	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggtactttaagtgttgaAgcagccactgtatcaaaatg	13	12	9	7	0	1	1	1	1	0	0	1	1	1	1	1	1	3	4	1	1	6	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:82816513A>T	uc003kii.3	+	7	2744	c.2388A>T	c.(2386-2388)GAA>GAT	p.E796D	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.E796D|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	796	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TAAGTGTTGAAGCAGCCACTG	0.403													6	113					0	0	0.00308	0	0		T	82816513	T	T	82816513	3	4	18	1	0	0	0	0	1	0	0	0	17164	69	3	5	2410	5	VCAN	5	82816513	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	45831575	82816513	98098747	84	13304											
MCTP1	79772	broad.mit.edu	37	chr5	94114844	94114844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgtcatcttcttcttcctCgtcctctagcatgtcctcca	4	18	4	15	1	5	0	1	0	4	0	10	0	9	0	4	0	1	1	4	0	1	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:94114844C>T	uc003kkx.2	-	19	2581	c.2581G>A	c.(2581-2583)GAG>AAG	p.E861K	MCTP1_uc003kkv.2_Missense_Mutation_p.E640K|MCTP1_uc003kkw.2_Missense_Mutation_p.E554K|MCTP1_uc003kku.2_Missense_Mutation_p.E377K	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L	861					calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		TCTTCTTCCTCGTCCTCTAGC	0.423													6	114					0	0	0.001168	0	0		T	94114844	T	T	94114844	3	4	18	1	0	0	0	0	1	0	0	0	9418	893	31	1	438	1	MCTP1	5	94114844	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	11298331	94114844	86800416	85	13305											
DMXL1	1657	broad.mit.edu	37	chr5	118484729	118484729	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctgcatctaatagtagAtcttcccaggactttgtgat	10	13	8	10	0	2	2	0	1	2	1	3	3	3	3	2	1	2	2	2	1	3	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:118484729A>G	uc003ksd.2	+	18	3388	c.3207A>G	c.(3205-3207)AGA>AGG	p.R1069R	DMXL1_uc010jcl.1_Silent_p.R1069R	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1069										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		CTAATAGTAGATCTTCCCAGG	0.398													169	187					0	0	0.01441	0	0		G	118484729	G	G	118484729	2	3	18	1	0	0	0	0	0	0	0	1	4600	330	12	3		3	DMXL1	5	118484729	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	24369885	118484729	62430531	86	13306											
FTMT	94033	broad.mit.edu	37	chr5	121188128	121188128	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgactgggaaagcgggcTgcatgccatggagtgtgctc	8	7	17	9	2	0	0	0	0	0	0	1	4	0	3	1	4	4	3	1	4	1	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:121188128T>G	uc003kss.2	+	1	479	c.470T>G	c.(469-471)CTG>CGG	p.L157R		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	157	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		GAAAGCGGGCTGCATGCCATG	0.572													7	158					0	0	0.00308	0	0		G	121188128	G	G	121188128	3	3	18	1	0	0	0	0	1	0	0	0	6099	1580	55	5	472	5	FTMT	5	121188128	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	2703399	121188128	59727132	87	13307											
FBN2	2201	broad.mit.edu	37	chr5	127607789	127607789	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccgtgttggcacctgtggTtcccatcacattcatcaaca	9	11	8	13	1	3	0	3	0	0	0	4	0	4	0	3	2	2	3	3	2	1	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:127607789T>G	uc003kuu.2	-	62	8301	c.7862A>C	c.(7861-7863)AAC>ACC	p.N2621T		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	2621	EGF-like 45; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GCACCTGTGGTTCCCATCACA	0.498													37	91					0	0	0.007835	0	0		G	127607789	G	G	127607789	3	3	18	1	0	0	0	0	1	0	0	0	5717	1725	60	5	892	5	FBN2	5	127607789	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	6419661	127607789	53307471	88	13308											
PCDHA6	56142	broad.mit.edu	37	chr5	140209209	140209209	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagctacatttcggtgcaCgcggagagcggcaaggtgta	9	8	15	9	5	0	1	0	0	0	1	2	3	0	1	0	4	4	4	0	4	3	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:140209209C>T	uc003lho.2	+	1	1560	c.1533C>T	c.(1531-1533)CAC>CAT	p.H511H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.H511H|PCDHA6_uc011dab.1_Silent_p.H511H	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	511	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTCGGTGCACGCGGAGAGCG	0.701													85	98					0	0	0.01441	0	0		T	140209209	T	T	140209209	2	4	18	1	0	0	0	0	0	0	0	1	11547	535	19	1		1	PCDHA6	5	140209209	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	12601420	140209209	40706051	89	13309											
PCDHAC1	56135	broad.mit.edu	37	chr5	140308755	140308755	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttatctctatcgggcctctCtgggacttggttctgataat	6	16	9	10	1	3	1	0	1	3	0	6	2	3	2	1	3	0	1	1	3	3	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:140308755C>G	uc003lih.2	+	1	2454	c.2278C>G	c.(2278-2280)CTG>GTG	p.L760V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.L760V	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	760	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGGGCCTCTCTGGGACTTGG	0.463													5	153					0	0	0.000602	0	0		G	140308755	G	G	140308755	3	3	18	1	0	0	0	0	1	0	0	0	11551	912	32	5	2280	5	PCDHAC1	5	140308755	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	99546	140308755	40606505	90	13310											
PCDHGA4	56111	broad.mit.edu	37	chr5	140734941	140734941	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggggttggcgccccgggaGctggcggagcgcggagtccg	3	5	21	12	6	0	0	0	0	0	0	1	3	1	3	3	7	2	2	3	7	0	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:140734941G>A	uc003ljq.1	+	1	174	c.174G>A	c.(172-174)GAG>GAA	p.E58E	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Silent_p.E58E	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	58	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCCCCGGGAGCTGGCGGAGC	0.627													14	121					0	0	0.00499	0	0		A	140734941	A	A	140734941	2	1	18	1	0	0	0	0	0	0	0	1	11575	962	34	2		2	PCDHGA4	5	140734941	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	426186	140734941	40180319	91	13311											
PCDHGB3	56102	broad.mit.edu	37	chr5	140752271	140752271	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtttaaatttctcaatatAaaggctgaaaatgctgcacc	15	12	7	7	0	1	1	1	1	1	0	2	2	1	1	1	1	2	4	1	1	8	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:140752271A>C	uc003ljw.1	+	1	2310	c.2310A>C	c.(2308-2310)ATA>ATC	p.I770I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Silent_p.I770I|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	770	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCTCAATATAAAGGCTGAAA	0.423													41	35					0	0	0.009718	0	0		C	140752271	C	C	140752271	2	2	18	1	0	0	0	0	0	0	0	1	11583	352	13	5		5	PCDHGB3	5	140752271	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	17330	140752271	40162989	92	13312											
LARS	51520	broad.mit.edu	37	chr5	145529216	145529216	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttttctgaatagtcttcTttacatcttgaaccttctgt	7	21	4	9	0	6	2	0	2	6	0	6	2	6	2	1	0	2	0	1	0	4	8			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:145529216T>C	uc003lnx.1	-	15	1710	c.1472A>G	c.(1471-1473)AAG>AGG	p.K491R	LARS_uc011dbq.1_Missense_Mutation_p.K445R|LARS_uc011dbr.1_Missense_Mutation_p.K437R|LARS_uc011dbs.1_Missense_Mutation_p.K464R	NM_020117	NP_064502	Q9P2J5	SYLC_HUMAN	leucyl-tRNA synthetase	491	Editing domain.				leucyl-tRNA aminoacylation	cytosol	ATP binding|leucine-tRNA ligase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Leucine(DB00149)	AATAGTCTTCTTTACATCTTG	0.373													142	172					0	0	0.01441	0	0		C	145529216	C	C	145529216	3	2	18	1	0	0	0	0	1	0	0	0	8650	1609	56	3	2130	3	LARS	5	145529216	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	4776945	145529216	35386044	93	13313											
TCERG1	10915	broad.mit.edu	37	chr5	145859463	145859463	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatccaaaagtggcaattctCtatgagtgcaagtgagtgaa	14	10	11	6	0	1	3	0	3	1	0	3	4	2	3	1	1	1	2	1	1	6	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:145859463C>G	uc003lob.2	+	11	1848	c.1808C>G	c.(1807-1809)TCT>TGT	p.S603C	TCERG1_uc003loc.2_Missense_Mutation_p.S582C|TCERG1_uc011dbt.1_Missense_Mutation_p.S582C	NM_006706	NP_006697	O14776	TCRG1_HUMAN	transcription elongation regulator 1 isoform 1	603					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			ovary(1)|skin(1)	2		Lung NSC(249;0.00188)|all_lung(500;0.00307)|all_neural(839;0.0424)|Breast(839;0.0743)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGGCAATTCTCTATGAGTGCA	0.363													17	52					0	0	0.006122	0	0		G	145859463	G	G	145859463	3	3	18	1	0	0	0	0	1	0	0	0	15710	913	32	5	1850	5	TCERG1	5	145859463	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	330247	145859463	35055797	94	13314											
TTC1	7265	broad.mit.edu	37	chr5	159478161	159478161	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctaagcaaattgaagaacGtaatgaaagactaaaagaag	22	6	8	5	1	0	5	0	2	0	3	0	5	0	5	1	0	2	2	1	0	9	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:159478161G>T	uc003lxu.2	+	7	766	c.716G>T	c.(715-717)CGT>CTT	p.R239L		NM_003314	NP_003305	Q99614	TTC1_HUMAN	tetratricopeptide repeat domain 1	239					protein folding		unfolded protein binding			skin(1)	1	Renal(175;0.00196)	all_hematologic(541;0.00014)|Breast(839;0.0101)|all_neural(177;0.0281)|Medulloblastoma(196;0.0425)|Lung NSC(249;0.119)|all_lung(500;0.163)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	Epithelial(171;8.37e-05)|all cancers(165;0.000694)|OV - Ovarian serous cystadenocarcinoma(192;0.0402)		ATTGAAGAACGTAATGAAAGA	0.348													9	149					1.12685e-05	1.26155e-05	0.004482	1	0		T	159478161	T	T	159478161	3	4	18	1	0	0	0	0	1	0	0	0	16704	1145	40	5	738	5	TTC1	5	159478161	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	13618698	159478161	21437099	95	13315											
MAML1	9794	broad.mit.edu	37	chr5	179193287	179193287	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccggcaccagccccgggcCagatgtccacatggcagcag	8	3	12	18	2	0	1	0	0	0	1	1	1	1	1	7	3	2	3	7	3	0	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:179193287C>A	uc003mkm.2	+	2	1539	c.1276C>A	c.(1276-1278)CAG>AAG	p.Q426K	MAML1_uc003mkn.1_Missense_Mutation_p.Q426K	NM_014757	NP_055572	Q92585	MAML1_HUMAN	mastermind-like 1	426					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	peptide antigen binding|protein kinase binding|transcription coactivator activity			lung(4)|ovary(2)	6	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGCCCCGGGCCAGATGTCCAC	0.632													30	243					9.62906e-15	1.15189e-14	0.00623	1	0		A	179193287	A	A	179193287	3	1	18	1	0	0	0	0	1	0	0	0	9223	595	21	5	1282	5	MAML1	5	179193287	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	19715126	179193287	1721973	96	13316											
BTNL9	153579	broad.mit.edu	37	chr5	180477150	180477150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaggcattcagctgaggCtcagatccagtggctggtac	10	8	14	9	0	2	2	2	1	0	1	3	3	3	3	1	5	2	5	1	5	2	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr5:180477150C>T	uc003mmt.2	+	4	748	c.517C>T	c.(517-519)CTC>TTC	p.L173F	BTNL9_uc011dhi.1_Missense_Mutation_p.L104F	NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	173	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCAGCTGAGGCTCAGATCCAG	0.597													64	46					0	0	0.01441	0	0		T	180477150	T	T	180477150	3	4	18	1	0	0	0	0	1	0	0	0	1571	797	28	2	527	2	BTNL9	5	180477150	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	1283863	180477150	438110	97	13317											
HIST1H2AD	3013	broad.mit.edu	37	chr6	26199112	26199112	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccttgtggtgactctcagtCttcttggggagcagtacagc	6	12	13	10	0	3	1	1	1	3	0	4	2	3	2	1	3	3	2	1	3	1	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:26199112C>G	uc003ngw.2	-	1	360	c.360G>C	c.(358-360)AAG>AAC	p.K120N	HIST1H3D_uc003ngv.2_5'UTR|HIST1H2BF_uc003ngx.2_5'Flank	NM_021065	NP_066409	P20671	H2A1D_HUMAN	histone cluster 1, H2ad	120					nucleosome assembly	nucleosome|nucleus	DNA binding				0		all_hematologic(11;0.196)				GACTCTCAGTCTTCTTGGGGA	0.493													26	104					0	0	0.00632	0	0		G	26199112	G	G	26199112	3	3	18	1	0	0	0	0	1	0	0	0	7147	912	32	5	36	5	HIST1H2AD	6	26199112	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08		26199112	144915955	98	13318											
ABT1	29777	broad.mit.edu	37	chr6	26598628	26598628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atcttcaaagtgtggaacggGgacaacgctttcttgcggcc	9	10	12	10	3	3	0	1	0	2	0	3	2	3	2	1	4	3	1	1	4	3	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:26598628G>A	uc003nii.2	+	3	605	c.574G>A	c.(574-576)GGA>AGA	p.G192R		NM_013375	NP_037507	Q9ULW3	ABT1_HUMAN	activator of basal transcription 1	192					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleolus	DNA binding|nucleotide binding|protein binding|RNA binding|transcription coactivator activity			ovary(1)	1						TGTGGAACGGGGACAACGCTT	0.612													22	78					0	0	0.00333	0	0		A	26598628	A	A	26598628	3	1	18	1	0	0	0	0	1	0	0	0	101	1233	43	4	584	4	ABT1	6	26598628	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	399516	26598628	144516439	99	13319											
CYP21A2	1589	broad.mit.edu	37	chr6	32007956	32007956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacaccctctcctgggccGtggtttttttgcttcaccac	6	13	7	15	1	2	0	1	0	1	0	3	0	2	0	4	2	2	2	4	2	1	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:32007956G>A	uc003nze.1	+	7	1031	c.913G>A	c.(913-915)GTG>ATG	p.V305M	CYP21A2_uc003nzf.1_Missense_Mutation_p.V275M	NM_000500	NP_000491	P08686	CP21A_HUMAN	cytochrome P450, family 21, subfamily A,	304			V -> M (in hyperandrogenism; due to 21- hydroxylase deficiency; non-classic type; residual activity of 46% for conversion of 17-hydroxyprogesterone and 26% for conversion of progesterone compared with the normal enzyme).		glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|steroid 21-monooxygenase activity|steroid binding				0						CTCCTGGGCCGTGGTTTTTTT	0.617													167	282					0	0	0.01441	0	0		A	32007956	A	A	32007956	3	1	18	1	0	0	0	0	1	0	0	0	4156	1145	40	1	2460	1	CYP21A2	6	32007956	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	5409328	32007956	139107111	100	13320											
NOTCH4	4855	broad.mit.edu	37	chr6	32168997	32168997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctagcttttcttcagcccGggccccaggataggggtaca	7	10	11	13	1	2	0	1	0	1	0	3	1	3	1	4	4	3	2	4	4	3	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:32168997G>A	uc003obb.2	-	22	4175	c.4036C>T	c.(4036-4038)CGG>TGG	p.R1346W	NOTCH4_uc003oba.2_Missense_Mutation_p.R9W|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1346	Extracellular (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						TCTTCAGCCCGGGCCCCAGGA	0.622													8	151					0	0	0.004482	0	0		A	32168997	A	A	32168997	3	1	18	1	0	0	0	0	1	0	0	0	10570	1115	39	1	2011	1	NOTCH4	6	32168997	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	161041	32168997	138946070	101	13321											
DNAH8	1769	broad.mit.edu	37	chr6	38850763	38850763	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccggaatattcatcaattTtggttccaaatgttgacaat	12	16	6	7	1	2	1	2	1	0	0	4	2	4	2	2	2	0	2	2	2	5	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:38850763T>G	uc003ooe.1	+	52	7885	c.7285T>G	c.(7285-7287)TTG>GTG	p.L2429V		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTCATCAATTTTGGTTCCAAA	0.289													8	226					0	0	0.00308	0	0		G	38850763	G	G	38850763	3	3	18	1	0	0	0	0	1	0	0	0	4613	1838	64	5	7483	5	DNAH8	6	38850763	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	6681766	38850763	132264304	102	13322											
CDC5L	988	broad.mit.edu	37	chr6	44371709	44371709	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgaggaaaactaccaagctCttgacgcagatttcaggaaa	15	8	9	9	1	2	3	1	2	1	1	2	5	2	5	1	2	3	2	1	2	5	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:44371709C>G	uc003oxl.2	+	6	962	c.703C>G	c.(703-705)CTT>GTT	p.L235V		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	235	Potential.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CTACCAAGCTCTTGACGCAGA	0.388													110	100					0	0	0.01441	0	0		G	44371709	G	G	44371709	3	3	18	1	0	0	0	0	1	0	0	0	3085	913	32	5	725	5	CDC5L	6	44371709	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	5520946	44371709	126743358	103	13323											
DEFB112	245915	broad.mit.edu	37	chr6	50016282	50016282	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctgtcccatgtcgggccTtttcaaatattgtggaagat	8	15	9	9	1	2	1	1	0	1	1	5	2	3	2	2	2	0	0	2	2	3	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:50016282T>G	uc011dws.1	-	1	83	c.83A>C	c.(82-84)AAG>ACG	p.K28T		NM_001037498	NP_001032587	Q30KQ8	DB112_HUMAN	beta-defensin 112 precursor	28					defense response to bacterium	extracellular region				central_nervous_system(1)	1	Lung NSC(77;0.042)					ATGTCGGGCCTTTTCAAATAT	0.323													12	98					0	0	0.004007	0	0		G	50016282	G	G	50016282	3	3	18	1	0	0	0	0	1	0	0	0	4406	1609	56	5	265	5	DEFB112	6	50016282	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	5644573	50016282	121098785	104	13324											
DST	667	broad.mit.edu	37	chr6	56417119	56417119	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaattcttcaaggcgcttaaTtgtcccttcaacctgctctt	9	15	5	12	1	4	0	2	0	2	0	5	0	5	0	2	1	2	2	2	1	4	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:56417119T>C	uc003pdf.2	-	55	10142	c.10114A>G	c.(10114-10116)ATT>GTT	p.I3372V	DST_uc003pcz.3_Missense_Mutation_p.I3194V|DST_uc011dxj.1_Missense_Mutation_p.I3223V|DST_uc011dxk.1_Missense_Mutation_p.I3234V|DST_uc003pcy.3_Missense_Mutation_p.I2868V	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5280					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			AGGCGCTTAATTGTCCCTTCA	0.438													31	88					0	0	0.004289	0	0		C	56417119	C	C	56417119	3	2	18	1	0	0	0	0	1	0	0	0	4789	1493	52	3	7085	3	DST	6	56417119	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	6400837	56417119	114697948	105	13325											
FAM135A	57579	broad.mit.edu	37	chr6	71185403	71185403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggaaatgaattttctattatCcttggatctacacttcacag	12	15	6	8	0	3	1	1	1	2	0	4	3	4	3	1	2	1	0	1	2	5	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:71185403C>T	uc003pfj.2	+	5	468	c.335C>T	c.(334-336)TCC>TTC	p.S112F	FAM135A_uc003pfi.2_Missense_Mutation_p.S112F|FAM135A_uc003pfh.2_Missense_Mutation_p.S69F|FAM135A_uc003pfk.2_Missense_Mutation_p.S112F|FAM135A_uc003pfl.2_5'UTR	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	112										central_nervous_system(1)	1						TTTCTATTATCCTTGGATCTA	0.284													29	41					0	0	0.003755	0	0		T	71185403	T	T	71185403	3	4	18	1	0	0	0	0	1	0	0	0	5459	855	30	4	349	4	FAM135A	6	71185403	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	14768284	71185403	99929664	106	13326											
AIM1	202	broad.mit.edu	37	chr6	106987348	106987348	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacctggtgaataccctgacTtgtccttctgggatacagaa	11	11	9	10	0	1	3	0	2	1	1	2	4	2	4	3	2	3	0	3	2	5	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:106987348T>C	uc003prh.2	+	7	4052	c.3565T>C	c.(3565-3567)TTG>CTG	p.L1189L	AIM1_uc003pri.2_5'Flank	NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	1189	Beta/gamma crystallin 'Greek key' 4.						sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		ATACCCTGACTTGTCCTTCTG	0.443													8	222					0	0	0.004482	0	0		C	106987348	C	C	106987348	2	2	18	1	0	0	0	0	0	0	0	1	430	1606	56	3		3	AIM1	6	106987348	Silent	SNP	T	TCGA-BR-4357-01A-01D-1158-08	35801945	106987348	64127719	107	13327											
LAMA4	3910	broad.mit.edu	37	chr6	112441542	112441542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctaatcttcagttttttgtGaccaacattaaacatgtaaa	14	16	4	7	0	3	1	1	1	2	0	3	1	3	1	1	0	2	2	1	0	6	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:112441542G>A	uc003pvu.2	-	33	4918	c.4609C>T	c.(4609-4611)CAC>TAC	p.H1537Y	LAMA4_uc003pvv.2_Missense_Mutation_p.H1530Y|LAMA4_uc003pvt.2_Missense_Mutation_p.H1530Y	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1537	Laminin G-like 4.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		AGTTTTTTGTGACCAACATTA	0.418													15	141					0	0	0.00499	0	0		A	112441542	A	A	112441542	3	1	18	1	0	0	0	0	1	0	0	0	8624	1290	45	4	890	4	LAMA4	6	112441542	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	5454194	112441542	58673525	108	13328											
RBM16	22828	broad.mit.edu	37	chr6	155153435	155153435	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccagctggacctcaaaacTtaccccctttaagtatccct	11	10	4	16	0	1	0	1	0	0	0	2	1	2	1	5	1	3	2	5	1	5	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:155153435T>G	uc003qqa.2	+	21	2954	c.2722T>G	c.(2722-2724)TTA>GTA	p.L908V	TIAM2_uc003qqb.2_5'Flank|RBM16_uc011efj.1_Missense_Mutation_p.L974V|RBM16_uc011efk.1_Missense_Mutation_p.L953V|RBM16_uc003qpz.2_Missense_Mutation_p.L908V|RBM16_uc010kji.2_Intron	NM_014892	NP_055707	Q9UPN6	SCAF8_HUMAN	RNA-binding motif protein 16	908	Pro-rich.				mRNA processing|RNA splicing	nuclear matrix|spliceosomal complex	nucleotide binding|RNA binding|RNA polymerase core enzyme binding				0		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;2.33e-15)|BRCA - Breast invasive adenocarcinoma(81;0.00524)		ACCTCAAAACTTACCCCCTTT	0.463													12	500					0	0	0.013537	0	0		G	155153435	G	G	155153435	3	3	18	1	0	0	0	0	1	0	0	0	13143	1606	56	5	2800	5	RBM16	6	155153435	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	42711893	155153435	15961632	109	13329											
AGPAT4	56895	broad.mit.edu	37	chr6	161653179	161653179	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgatgattagccctgaggCaataaagacgtagcagaaga	15	8	12	6	1	0	6	0	3	0	3	0	6	0	6	1	1	2	4	1	1	6	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr6:161653179C>A	uc003qtr.1	-	2	294	c.67G>T	c.(67-69)GCC>TCC	p.A23S	AGPAT4_uc003qts.1_5'UTR|AGPAT4_uc011egb.1_Missense_Mutation_p.A23S|AGPAT4_uc003qtt.1_RNA|AGPAT4_uc011egc.1_Missense_Mutation_p.A23S|AGPAT4_uc011egd.1_Intron|AGPAT4_uc011ege.1_Missense_Mutation_p.A23S	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	23	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		AGCCCTGAGGCAATAAAGACG	0.493													46	76					2.64894e-19	3.20881e-19	0.01441	1	0		A	161653179	A	A	161653179	3	1	18	1	0	0	0	0	1	0	0	0	389	710	25	5	1101	5	AGPAT4	6	161653179	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	6499744	161653179	9461888	110	13330											
SDK1	221935	broad.mit.edu	37	chr7	3678640	3678640	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgctattcaacaggtacAttattccatctttgcagaag	11	16	6	8	0	2	1	1	0	1	1	3	1	3	1	1	1	4	3	1	1	5	8	rs150477138		TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:3678640A>G	uc003smx.2	+	3	602	c.463A>G	c.(463-465)ATT>GTT	p.I155V		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	155	Ig-like C2-type 1.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CAACAGGTACATTATTCCATC	0.413													3	27					0	0	0.004672	0	0		G	3678640	G	G	3678640	3	3	18	1	0	0	0	0	1	0	0	0	13993	217	8	3	473	3	SDK1	7	3678640	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08		3678640	155460023	111	13331											
ITGB8	3696	broad.mit.edu	37	chr7	20438557	20438557	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaacattaccgccatctgTccagatgggtccagaaagcc	11	10	8	12	1	1	2	0	0	1	2	3	2	3	2	5	1	3	0	5	1	3	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:20438557T>C	uc003suu.2	+	9	1926	c.1221T>C	c.(1219-1221)TGT>TGC	p.C407C	ITGB8_uc011jyh.1_Silent_p.C272C|ITGB8_uc003sut.2_Silent_p.C407C	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	407	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						CCGCCATCTGTCCAGATGGGT	0.403													3	87					0	0	0.004672	0	0		C	20438557	C	C	20438557	2	2	18	1	0	0	0	0	0	0	0	1	7917	1673	58	3		3	ITGB8	7	20438557	Silent	SNP	T	TCGA-BR-4357-01A-01D-1158-08	16759917	20438557	138700106	112	13332											
CCDC129	223075	broad.mit.edu	37	chr7	31611789	31611789	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcttgctattctactgcaAgtgtaccacaaaggtatgta	12	13	7	9	0	2	0	0	0	2	0	2	0	2	0	1	1	4	5	1	1	7	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:31611789A>C	uc003tcj.1	+	6	1375	c.382A>C	c.(382-384)AGT>CGT	p.S128R	CCDC129_uc011kad.1_Missense_Mutation_p.S138R|CCDC129_uc003tci.1_Missense_Mutation_p.S127R|CCDC129_uc011kae.1_Missense_Mutation_p.S154R|CCDC129_uc003tck.1_Missense_Mutation_p.S36R	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	128											0						TTCTACTGCAAGTGTACCACA	0.373													8	21					0	0	0.00308	0	0		C	31611789	C	C	31611789	3	2	18	1	0	0	0	0	1	0	0	0	2767	72	3	5	400	5	CCDC129	7	31611789	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	11173232	31611789	127526874	113	13333											
TXNDC3	51314	broad.mit.edu	37	chr7	37890302	37890302	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcagaaaattgaaaaatGaactgaacgaagacgaaatt	21	9	7	4	2	1	5	1	3	0	2	1	7	1	5	0	0	2	0	0	0	9	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:37890302G>T	uc003tfn.2	+	5	535	c.163G>T	c.(163-165)GAA>TAA	p.E55*		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	55	Thioredoxin.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						ATTGAAAAATGAACTGAACGA	0.318									Kartagener_syndrome				27	60					3.65163e-15	4.38195e-15	0.00632	1	0		T	37890302	T	T	37890302	4	4	18	1	0	0	0	0	0	1	0	0	16824	1291	45	5	173	5	TXNDC3	7	37890302	Nonsense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	6278513	37890302	121248361	114	13334											
TXNDC3	51314	broad.mit.edu	37	chr7	37890313	37890313	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaaaaatgaactgaacgaAgacgaaattctgcattttgc	16	11	8	6	2	1	4	0	3	1	1	1	6	1	4	0	0	4	1	0	0	6	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:37890313A>G	uc003tfn.2	+	5	546	c.174A>G	c.(172-174)GAA>GAG	p.E58E		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	58	Thioredoxin.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						AACTGAACGAAGACGAAATTC	0.318									Kartagener_syndrome				25	53					0	0	0.003954	0	0		G	37890313	G	G	37890313	2	3	18	1	0	0	0	0	0	0	0	1	16824	69	3	3		3	TXNDC3	7	37890313	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	11	37890313	121248350	115	13335											
TXNDC3	51314	broad.mit.edu	37	chr7	37936592	37936592	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgactccatccgagcccaGtttggaataagtaaattgaa	13	10	8	10	1	0	2	0	2	0	0	2	4	2	3	4	1	1	2	4	1	5	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:37936592G>T	uc003tfn.2	+	17	2037	c.1665G>T	c.(1663-1665)CAG>CAT	p.Q555H		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	555	NDK 3.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						TCCGAGCCCAGTTTGGAATAA	0.433									Kartagener_syndrome				46	68					1.35964e-18	1.64183e-18	0.01441	1	0		T	37936592	T	T	37936592	3	4	18	1	0	0	0	0	1	0	0	0	16824	1020	36	5	1723	5	TXNDC3	7	37936592	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	46279	37936592	121202071	116	13336											
HECW1	23072	broad.mit.edu	37	chr7	43477736	43477736	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagactcctggagagacaCgccatagggtaaacctgtga	14	6	11	10	1	0	3	0	1	0	2	1	5	1	4	3	2	1	1	3	2	4	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:43477736C>T	uc003tid.1	+	9	1541	c.936C>T	c.(934-936)CAC>CAT	p.H312H	HECW1_uc011kbi.1_Silent_p.H312H|HECW1_uc003tie.1_Silent_p.H344H	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	312					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						TGGAGAGACACGCCATAGGGT	0.512													16	73					0	0	0.007413	0	0		T	43477736	T	T	43477736	2	4	18	1	0	0	0	0	0	0	0	1	7058	535	19	1		1	HECW1	7	43477736	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	5541144	43477736	115660927	117	13337											
ZNF479	90827	broad.mit.edu	37	chr7	57188491	57188492	+	Missense_Mutation	DNP	TC	GA	GA																															ttctttgcatttgtaggactTctccctagtatgaattacct																										TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:57188491_57188492TC>GA	uc010kzo.2	-	5	901_902	c.630_631GA>TC	c.(628-633)GAGAAG>GATCAG	p.210_211EK>DQ		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	210_211	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TTGTAGGACTTCTCCCTAGTAT	0.332													19	22					0	0	0.004672	0	0		GA	57188492	GA	GA	57188491	3	3	18	1	0	0	0	0	1	0	0	0	17958	1792	62	5	947	5	ZNF479	7	57188491	Missense_Mutation	DNP	TC	TCGA-BR-4357-01A-01D-1158-08	13710755	57188491	101950172	118	13338											
ZNF107	51427	broad.mit.edu	37	chr7	64167982	64167982	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactagacataagaaaattCatactggagagaaaccctac	18	9	6	8	0	1	3	1	0	0	3	1	5	1	4	1	1	4	0	1	1	8	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:64167982C>A	uc003ttd.2	+	7	2086	c.1300C>A	c.(1300-1302)CAT>AAT	p.H434N	ZNF107_uc003tte.2_Missense_Mutation_p.H434N	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	434	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				TAAGAAAATTCATACTGGAGA	0.353													5	66					0.000602214	0.000666427	0.000602	1	0		A	64167982	A	A	64167982	3	1	18	1	0	0	0	0	1	0	0	0	17740	826	29	5	1306	5	ZNF107	7	64167982	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	6979491	64167982	94970681	119	13339											
AUTS2	26053	broad.mit.edu	37	chr7	69364285	69364285	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctacagaaagatgtagcacTtaagcctcaggaacgtgtgg	13	9	11	8	1	2	2	1	0	1	2	2	3	2	3	1	2	4	2	1	2	5	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:69364285T>G	uc003tvw.3	+	2	1066	c.323T>G	c.(322-324)CTT>CGT	p.L108R	AUTS2_uc003tvv.3_Missense_Mutation_p.L108R|AUTS2_uc003tvx.3_Missense_Mutation_p.L108R	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	108										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		GATGTAGCACTTAAGCCTCAG	0.443													36	93					0	0	0.003271	0	0		G	69364285	G	G	69364285	3	3	18	1	0	0	0	0	1	0	0	0	1226	1609	56	5	329	5	AUTS2	7	69364285	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	5196303	69364285	89774378	120	13340											
ABCB4	5244	broad.mit.edu	37	chr7	87035760	87035760	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagacacgattccgagttgAgctctgagccactggacatt	10	10	11	10	2	1	3	0	3	1	1	2	7	2	4	2	1	2	2	2	1	0	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:87035760A>G	uc003uiv.1	-	26	3427	c.3351T>C	c.(3349-3351)GCT>GCC	p.A1117A	ABCB4_uc003uiw.1_Silent_p.A1110A|ABCB4_uc003uix.1_Silent_p.A1063A	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	1117	ABC transporter 2.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					TTCCGAGTTGAGCTCTGAGCC	0.428													22	82					0	0	0.014323	0	0		G	87035760	G	G	87035760	2	3	18	1	0	0	0	0	0	0	0	1	43	291	11	3		3	ABCB4	7	87035760	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	17671475	87035760	72102903	121	13341											
ZNF804B	219578	broad.mit.edu	37	chr7	88964302	88964302	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagggggtcacagtgaccAtgggaaagacttcagtgtaa	13	8	14	6	0	2	2	2	1	0	1	2	3	2	3	1	3	0	2	1	3	3	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:88964302A>T	uc011khi.1	+	4	2544	c.2006A>T	c.(2005-2007)CAT>CTT	p.H669L		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	669						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CACAGTGACCATGGGAAAGAC	0.428										HNSCC(36;0.09)			30	99					0	0	0.008361	0	0		T	88964302	T	T	88964302	3	4	18	1	0	0	0	0	1	0	0	0	18196	217	8	5	2020	5	ZNF804B	7	88964302	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	1928542	88964302	70174361	122	13342											
STEAP1	26872	broad.mit.edu	37	chr7	89790313	89790313	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttacactcttctgagggaAgtaattcaccctttagcaac	11	13	6	11	0	3	1	1	1	2	0	3	2	3	2	1	1	3	2	1	1	5	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:89790313A>C	uc003ujx.2	+	3	479	c.279A>C	c.(277-279)GAA>GAC	p.E93D	STEAP1_uc010lem.2_Missense_Mutation_p.E93D	NM_012449	NP_036581	Q9UHE8	STEA1_HUMAN	six transmembrane epithelial antigen of the	93					electron transport chain|ion transport|iron ion homeostasis	cell-cell junction|endosome membrane|integral to plasma membrane	channel activity|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	all_hematologic(106;0.112)					TTCTGAGGGAAGTAATTCACC	0.388													19	194					0	0	0.010504	0	0		C	89790313	C	C	89790313	3	2	18	1	0	0	0	0	1	0	0	0	15302	69	3	5	285	5	STEAP1	7	89790313	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	826011	89790313	69348350	123	13343											
GATS	352954	broad.mit.edu	37	chr7	99831243	99831243	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctaggaatccttcctcAtcgacaatgatagtgtaatc	12	13	6	10	1	1	1	1	1	0	0	5	3	3	2	3	1	1	1	3	1	6	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:99831243A>G	uc003uua.3	-	2	450	c.201T>C	c.(199-201)GAT>GAC	p.D67D	GATS_uc003uty.3_RNA|GATS_uc003utz.3_RNA|GATS_uc010lgt.2_RNA|GATS_uc010lgu.2_RNA	NM_178831	NP_849153	Q8NAP1	GATS_HUMAN	GATS, stromal antigen 3 opposite strand	67											0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					ATCCTTCCTCATCGACAATGA	0.517													83	154					0	0	0.01441	0	0		G	99831243	G	G	99831243	2	3	18	1	0	0	0	0	0	0	0	1	6279	214	8	3		3	GATS	7	99831243	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	10040930	99831243	59307420	124	13344											
PLOD3	8985	broad.mit.edu	37	chr7	100853950	100853950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtatggtacattccacaCacccctggaggcaccgacac	11	7	9	14	1	0	0	0	0	0	0	1	3	1	1	4	3	1	3	4	3	2	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:100853950C>T	uc003uyd.2	-	13	1819	c.1363G>A	c.(1363-1365)GTG>ATG	p.V455M	PLOD3_uc010lhs.2_Missense_Mutation_p.V20M	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	455					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	ACATTCCACACACCCCTGGAG	0.607													23	65					0	0	0.005443	0	0		T	100853950	T	T	100853950	3	4	18	1	0	0	0	0	1	0	0	0	12122	478	17	4	881	4	PLOD3	7	100853950	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	1022707	100853950	58284713	125	13345											
ARMC10	83787	broad.mit.edu	37	chr7	102715814	102715814	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggctgacccggggtcggcGgcggggcgaccgcgagctcg	4	3	20	14	8	0	1	0	1	0	0	2	3	0	1	2	7	1	2	2	7	0	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:102715814G>C	uc003vaw.1	+	1	487	c.95G>C	c.(94-96)CGG>CCG	p.R32P	FBXL13_uc003vaq.2_5'Flank|FBXL13_uc010lir.1_5'Flank|FBXL13_uc003var.2_5'Flank|FBXL13_uc003vas.2_5'Flank|FBXL13_uc003vav.2_5'Flank|ARMC10_uc003vay.1_Missense_Mutation_p.R32P|ARMC10_uc003vax.1_Missense_Mutation_p.R32P|ARMC10_uc003vbb.1_Missense_Mutation_p.R32P|ARMC10_uc011kli.1_Missense_Mutation_p.R32P|ARMC10_uc010lis.1_Missense_Mutation_p.R32P|ARMC10_uc003vba.1_RNA|ARMC10_uc003vaz.1_5'UTR	NM_031905	NP_114111	Q8N2F6	ARM10_HUMAN	SVH protein isoform a	32					regulation of growth	endoplasmic reticulum membrane|integral to membrane	binding			ovary(1)	1						CGGGGTCGGCGGCGGGGCGAC	0.766													2	5					0	0	0.004672	0	0		C	102715814	C	C	102715814	3	2	18	1	0	0	0	0	1	0	0	0	951	1116	39	5	97	5	ARMC10	7	102715814	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	1861864	102715814	56422849	126	13346											
PRKAR2B	5577	broad.mit.edu	37	chr7	106786820	106786820	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggtaactatgataatcgtGggagtttcggcgaactggcc	9	12	13	7	3	0	1	0	1	0	0	2	3	0	2	1	4	2	2	1	4	4	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:106786820G>T	uc003vdx.2	+	6	830	c.655G>T	c.(655-657)GGG>TGG	p.G219W		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	219	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						TGATAATCGTGGGAGTTTCGG	0.423													50	87					8.72198e-27	1.07347e-26	0.01441	1	0		T	106786820	T	T	106786820	3	4	18	1	0	0	0	0	1	0	0	0	12528	1348	47	5	677	5	PRKAR2B	7	106786820	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	4071006	106786820	52351843	127	13347											
SLC35B4	84912	broad.mit.edu	37	chr7	133994182	133994182	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggaagccttccacagcaaTaaataaaaattgtgcaaatg	18	8	8	7	0	0	0	0	0	0	0	1	2	1	1	2	1	3	2	2	1	8	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:133994182T>A	uc003vrn.2	-	2	451	c.127A>T	c.(127-129)ATT>TTT	p.I43F	SLC35B4_uc010lmk.2_5'UTR|SLC35B4_uc010lml.1_5'UTR|SLC35B4_uc003vro.3_Missense_Mutation_p.I43F	NM_032826	NP_116215	Q969S0	S35B4_HUMAN	solute carrier family 35, member B4	43	Helical; (Potential).					Golgi membrane|integral to membrane	UDP-N-acetylglucosamine transmembrane transporter activity|UDP-xylose transmembrane transporter activity			skin(1)	1						TCCACAGCAATAAATAAAAAT	0.398													7	61					0	0	0.004482	0	0		A	133994182	A	A	133994182	3	1	18	1	0	0	0	0	1	0	0	0	14603	1406	49	5	904	5	SLC35B4	7	133994182	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	27207362	133994182	25144481	128	13348											
DGKI	9162	broad.mit.edu	37	chr7	137257570	137257570	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgaatctttggggtgagAtctgttccatcacactgaaa	10	13	9	9	0	3	3	1	3	2	1	5	4	5	3	2	2	0	1	2	2	2	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr7:137257570A>G	uc003vtt.2	-	18	1777	c.1776T>C	c.(1774-1776)GAT>GAC	p.D592D	DGKI_uc003vtu.2_Silent_p.D292D	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	592					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						TTGGGGTGAGATCTGTTCCAT	0.363													5	139					0	0	0.001168	0	0		G	137257570	G	G	137257570	2	3	18	1	0	0	0	0	0	0	0	1	4477	330	12	3		3	DGKI	7	137257570	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	3263388	137257570	21881093	129	13349											
DLC1	10395	broad.mit.edu	37	chr8	12957933	12957933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttgggagagggcaggctgCcgaaagagtcgtcattgcct	8	8	15	10	2	1	2	1	0	0	2	2	4	1	2	3	3	2	2	3	3	1	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:12957933C>T	uc003wwm.2	-	9	2357	c.1913G>A	c.(1912-1914)GGC>GAC	p.G638D	DLC1_uc003wwk.1_Missense_Mutation_p.G201D|DLC1_uc003wwl.1_Missense_Mutation_p.G235D|DLC1_uc011kxx.1_Missense_Mutation_p.G127D	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	638					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GGGCAGGCTGCCGAAAGAGTC	0.592													39	130					0	0	0.013114	0	0		T	12957933	T	T	12957933	3	4	18	1	0	0	0	0	1	0	0	0	4556	739	26	2	2713	2	DLC1	8	12957933	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08		12957933	133406089	130	13350											
DLC1	10395	broad.mit.edu	37	chr8	12958076	12958076	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgcggacggaagacacCtcctggcgctcgctgaggtc	7	6	15	13	4	0	2	0	1	0	1	3	4	1	4	2	5	1	3	2	5	1	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:12958076C>A	uc003wwm.2	-	9	2214	c.1770G>T	c.(1768-1770)GAG>GAT	p.E590D	DLC1_uc003wwk.1_Missense_Mutation_p.E153D|DLC1_uc003wwl.1_Missense_Mutation_p.E187D|DLC1_uc011kxx.1_Missense_Mutation_p.E79D	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	590					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CGGAAGACACCTCCTGGCGCT	0.692													15	70					5.35356e-11	6.32543e-11	0.00278	1	0		A	12958076	A	A	12958076	3	1	18	1	0	0	0	0	1	0	0	0	4556	680	24	5	2856	5	DLC1	8	12958076	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	143	12958076	133405946	131	13351											
NRG1	3084	broad.mit.edu	37	chr8	32621751	32621751	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgaaagagtaggtgaagAtacgcctttcctgggcatac	13	9	12	7	1	0	5	0	2	0	3	1	5	1	5	2	2	2	2	2	2	5	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:32621751A>G	uc003xiv.2	+	12	2271	c.1754A>G	c.(1753-1755)GAT>GGT	p.D585G	NRG1_uc010lvo.2_3'UTR|NRG1_uc003xiu.2_Missense_Mutation_p.D590G|NRG1_uc003xiw.2_Missense_Mutation_p.D582G|NRG1_uc003xit.2_3'UTR|NRG1_uc010lvr.2_Missense_Mutation_p.D327G|NRG1_uc010lvs.2_Missense_Mutation_p.D327G|NRG1_uc010lvp.2_Missense_Mutation_p.D539G|NRG1_uc010lvq.2_Missense_Mutation_p.D522G|NRG1_uc011lbg.1_3'UTR|NRG1_uc011lbh.1_Missense_Mutation_p.D428G|NRG1_uc003xja.2_Missense_Mutation_p.D396G	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	585	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		GTAGGTGAAGATACGCCTTTC	0.542													7	73					0	0	0.001984	0	0		G	32621751	G	G	32621751	3	3	18	1	0	0	0	0	1	0	0	0	10666	333	12	3	3525	3	NRG1	8	32621751	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	19663675	32621751	113742271	132	13352											
PRDM14	63978	broad.mit.edu	37	chr8	70981815	70981815	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtggcagcttgctgtacCagggcagatcgtagagaggc	9	7	16	9	2	0	2	0	0	0	2	1	3	0	2	1	4	3	6	1	4	2	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:70981815C>T	uc003xym.2	-	2	483	c.281G>A	c.(280-282)TGG>TAG	p.W94*		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	94					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			CTTGCTGTACCAGGGCAGATC	0.667													5	15					0	0	0.000602	0	0		T	70981815	T	T	70981815	4	4	18	1	0	0	0	0	0	1	0	0	12477	595	21	4	1462	4	PRDM14	8	70981815	Nonsense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	38360064	70981815	75382207	133	13353											
RUNX1T1	862	broad.mit.edu	37	chr8	93004118	93004118	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaagccattttctttggttCtaaagggggaaaaaacaaga	16	10	9	6	0	2	1	0	0	2	1	2	2	2	2	1	3	2	1	1	3	7	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:93004118C>T	uc003yfd.2	-	6	825	c.741_splice	c.e6-1	p.R247_splice	RUNX1T1_uc003yfc.1_Splice_Site_p.R220_splice|RUNX1T1_uc003yfe.1_Splice_Site_p.R210_splice|RUNX1T1_uc010mao.2_Splice_Site_p.R220_splice|RUNX1T1_uc011lgi.1_Splice_Site_p.R258_splice|RUNX1T1_uc010man.1_Splice_Site|RUNX1T1_uc003yfb.1_Splice_Site_p.R210_splice	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1						generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			TTCTTTGGTTCTAAAGGGGGA	0.403													30	68					0	0	0.009535	0	0		T	93004118	T	T	93004118	5	4	18	1	0	0	0	0	0	0	1	0	13772	927	32	4	1098	4	RUNX1T1	8	93004118	Splice_Site	SNP	C	TCGA-BR-4357-01A-01D-1158-08	22022303	93004118	53359904	134	13354											
RUNX1T1	862	broad.mit.edu	37	chr8	93023265	93023265	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaaaaggtctcagtgggaAgttagtagcttcttgcagtt	11	12	12	6	0	2	0	1	0	2	0	3	2	2	1	0	2	2	5	0	2	5	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:93023265A>C	uc003yfd.2	-	4	607	c.523T>G	c.(523-525)TTC>GTC	p.F175V	RUNX1T1_uc003yfc.1_Missense_Mutation_p.F148V|RUNX1T1_uc003yfe.1_Missense_Mutation_p.F138V|RUNX1T1_uc010mao.2_Missense_Mutation_p.F148V|RUNX1T1_uc011lgi.1_Missense_Mutation_p.F186V|RUNX1T1_uc003yfh.1_Missense_Mutation_p.F138V|RUNX1T1_uc003yfb.1_Missense_Mutation_p.F138V|RUNX1T1_uc003yff.1_Missense_Mutation_p.F138V|RUNX1T1_uc003yfg.1_Missense_Mutation_p.F138V	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	175	TAFH.			F->A: Abolishes interaction with corepressor.	generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			CTCAGTGGGAAGTTAGTAGCT	0.348													37	109					0	0	0.007835	0	0		C	93023265	C	C	93023265	3	2	18	1	0	0	0	0	1	0	0	0	13772	72	3	5	1323	5	RUNX1T1	8	93023265	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	19147	93023265	53340757	135	13355											
POP1	10940	broad.mit.edu	37	chr8	99139913	99139913	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatgagcagtcttcctccaAagggatgtttagaaaaaagg	15	9	11	6	0	1	2	0	1	1	1	3	4	3	3	2	2	1	2	2	2	6	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:99139913A>G	uc003yij.3	+	3	333	c.233A>G	c.(232-234)AAA>AGA	p.K78R	POP1_uc011lgv.1_Missense_Mutation_p.K78R|POP1_uc003yik.2_Missense_Mutation_p.K78R	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	78					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			TCTTCCTCCAAAGGGATGTTT	0.498													53	263					0	0	0.01441	0	0		G	99139913	G	G	99139913	3	3	18	1	0	0	0	0	1	0	0	0	12270	14	1	3	239	3	POP1	8	99139913	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	6116648	99139913	47224109	136	13356											
YWHAZ	7534	broad.mit.edu	37	chr8	101932970	101932970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcgtctccttgggtatccGatgtccacaactggtaaaag	9	12	9	11	2	1	0	0	0	1	0	5	1	3	0	3	2	1	2	3	2	4	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:101932970G>A	uc011lhe.1	-	6	866	c.689C>T	c.(688-690)TCG>TTG	p.S230L	YWHAZ_uc003yjv.2_Missense_Mutation_p.S230L|YWHAZ_uc011lhf.1_Missense_Mutation_p.S230L|YWHAZ_uc003yjw.2_Missense_Mutation_p.S230L|YWHAZ_uc010mbq.2_Missense_Mutation_p.S153L|YWHAZ_uc011lhg.1_Missense_Mutation_p.S110L|YWHAZ_uc010mbr.2_Missense_Mutation_p.S230L|YWHAZ_uc003yjx.2_Missense_Mutation_p.S230L	NM_001135702	NP_001129174	P63104	1433Z_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	230					anti-apoptosis|mRNA metabolic process|platelet activation|signal transduction	cytosol|melanosome	transcription factor binding				0	all_cancers(14;7.43e-06)|all_epithelial(15;2.77e-08)|Lung NSC(17;6.08e-05)|all_lung(17;0.000197)		Epithelial(11;2.79e-11)|all cancers(13;5.45e-09)|OV - Ovarian serous cystadenocarcinoma(57;4.75e-05)		Ginkgo biloba(DB01381)	TTGGGTATCCGATGTCCACAA	0.458													42	156					0	0	0.01441	0	0		A	101932970	A	A	101932970	3	1	18	1	0	0	0	0	1	0	0	0	17532	1059	37	1	52	1	YWHAZ	8	101932970	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	2793057	101932970	44431052	137	13357											
PKHD1L1	93035	broad.mit.edu	37	chr8	110424511	110424511	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taggaacatattaacagaggGcagaagacagctgaaaccga	18	5	11	7	1	0	4	0	1	0	3	0	6	0	5	1	2	4	2	1	2	6	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:110424511G>A	uc003yne.2	+	20	2207	c.2103G>A	c.(2101-2103)GGG>GGA	p.G701G		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	701	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTAACAGAGGGCAGAAGACAG	0.413										HNSCC(38;0.096)			10	129					0	0	0.00245	0	0		A	110424511	A	A	110424511	2	1	18	1	0	0	0	0	0	0	0	1	11991	1190	42	2		2	PKHD1L1	8	110424511	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	8491541	110424511	35939511	138	13358											
PKHD1L1	93035	broad.mit.edu	37	chr8	110527434	110527434	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttcttttccacacttcaAcgtttggatgtctatgtgaa	9	18	6	8	1	3	1	1	1	2	0	4	2	4	2	1	1	1	1	1	1	3	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:110527434A>C	uc003yne.2	+	72	11693	c.11589A>C	c.(11587-11589)CAA>CAC	p.Q3863H		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3863	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CCACACTTCAACGTTTGGATG	0.318										HNSCC(38;0.096)			4	27					0	0	0.009096	0	0		C	110527434	C	C	110527434	3	2	18	1	0	0	0	0	1	0	0	0	11991	40	2	5	11875	5	PKHD1L1	8	110527434	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	102923	110527434	35836588	139	13359											
CSMD3	114788	broad.mit.edu	37	chr8	113529404	113529404	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcttccatccccatttcGagtcccattcatggggaccc	6	13	6	16	1	2	0	1	0	1	0	7	2	5	1	5	2	0	0	5	2	0	4	rs149308903		TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:113529404G>T	uc003ynu.2	-	28	4774	c.4615C>A	c.(4615-4617)CGA>AGA	p.R1539R	CSMD3_uc003yns.2_Silent_p.R811R|CSMD3_uc003ynt.2_Silent_p.R1499R|CSMD3_uc011lhx.1_Silent_p.R1435R	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1539	Extracellular (Potential).|Sushi 8.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TCCCCATTTCGAGTCCCATTC	0.438										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			16	116					9.16793e-09	1.06039e-08	0.00499	1	0		T	113529404	T	T	113529404	2	4	18	1	0	0	0	0	0	0	0	1	3949	1066	37	5		5	CSMD3	8	113529404	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	3001970	113529404	32834618	140	13360											
TRPS1	7227	broad.mit.edu	37	chr8	116617098	116617098	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgggtgagtctgaagaaaAtgttgttctaattcggtgga	10	15	13	3	1	2	3	0	2	2	1	3	4	2	4	0	3	0	2	0	3	4	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:116617098A>G	uc003ynz.2	-	3	1518	c.1059T>C	c.(1057-1059)CAT>CAC	p.H353H	TRPS1_uc011lhy.1_Silent_p.H357H|TRPS1_uc003yny.2_Silent_p.H366H|TRPS1_uc010mcy.2_Silent_p.H353H	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	353	C2H2-type 2; atypical.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TCTGAAGAAAATGTTGTTCTA	0.423									Langer-Giedion_syndrome				5	236					0	0	0.001984	0	0		G	116617098	G	G	116617098	2	3	18	1	0	0	0	0	0	0	0	1	16619	98	4	3		3	TRPS1	8	116617098	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	3087694	116617098	29746924	141	13361											
TMEM65	157378	broad.mit.edu	37	chr8	125334366	125334366	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagtccagctagatctgaCacaagatttcccaaagcagc	14	7	7	13	0	1	3	0	1	1	2	3	3	3	3	3	0	3	2	3	0	4	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:125334366C>A	uc010mdl.2	-	5	1037	c.495G>T	c.(493-495)GTG>GTT	p.V165V		NM_194291	NP_919267	Q6PI78	TMM65_HUMAN	transmembrane protein 65	165	Helical; (Potential).					integral to membrane					0	Lung NSC(37;1.18e-11)|Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			CTAGATCTGACACAAGATTTC	0.294													19	168					1.40151e-16	1.68708e-16	0.010504	1	0		A	125334366	A	A	125334366	2	1	18	1	0	0	0	0	0	0	0	1	16219	465	17	5		5	TMEM65	8	125334366	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	8717268	125334366	21029656	142	13362											
ADCY8	114	broad.mit.edu	37	chr8	131916177	131916177	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggctgcttaattaagtaAgtttcgatattatgcttcct	10	17	7	7	1	1	0	1	0	0	0	3	1	2	0	1	1	2	5	1	1	5	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:131916177A>C	uc003ytd.3	-	7	2008	c.1752T>G	c.(1750-1752)ACT>ACG	p.T584T	ADCY8_uc010mds.2_Silent_p.T584T	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	584	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TAATTAAGTAAGTTTCGATAT	0.483										HNSCC(32;0.087)			7	394					0	0	0.00308	0	0		C	131916177	C	C	131916177	2	2	18	1	0	0	0	0	0	0	0	1	300	59	3	5		5	ADCY8	8	131916177	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	6581811	131916177	14447845	143	13363											
EFR3A	23167	broad.mit.edu	37	chr8	132962265	132962265	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaccatcctatcacagacGttatgacttttttgtgtctc	9	15	5	12	1	2	2	1	1	1	1	4	2	3	2	2	0	0	1	2	0	2	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:132962265G>T	uc003yte.2	+	5	617	c.416G>T	c.(415-417)CGT>CTT	p.R139L		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	139						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			TATCACAGACGTTATGACTTT	0.328													7	45					1.26484e-09	1.47629e-09	0.00308	1	0		T	132962265	T	T	132962265	3	4	18	1	0	0	0	0	1	0	0	0	4964	1145	40	5	434	5	EFR3A	8	132962265	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	1046088	132962265	13401757	144	13364											
PLEC	5339	broad.mit.edu	37	chr8	144993129	144993129	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcaatgatctcgatgatgatGatgatcatgcgttccttggt	9	15	10	7	2	3	5	2	5	1	0	5	6	4	5	1	1	1	1	1	1	1	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:144993129G>C	uc003zaf.1	-	32	11441	c.11271C>G	c.(11269-11271)ATC>ATG	p.I3757M	PLEC_uc003zab.1_Missense_Mutation_p.I3620M|PLEC_uc003zac.1_Missense_Mutation_p.I3624M|PLEC_uc003zad.2_Missense_Mutation_p.I3620M|PLEC_uc003zae.1_Missense_Mutation_p.I3588M|PLEC_uc003zag.1_Missense_Mutation_p.I3598M|PLEC_uc003zah.2_Missense_Mutation_p.I3606M|PLEC_uc003zaj.2_Missense_Mutation_p.I3647M	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3757	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CGATGATGATGATGATCATGC	0.617													23	232					0	0	0.00632	0	0		C	144993129	C	C	144993129	3	2	18	1	0	0	0	0	1	0	0	0	12071	1280	45	5	2787	5	PLEC	8	144993129	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	12030864	144993129	1370893	145	13365											
PLEC	5339	broad.mit.edu	37	chr8	144993332	144993332	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agtgtacacctgcgtggtctCcaccacctcagccttctccg	6	10	8	17	2	3	0	1	0	2	0	5	0	3	0	6	1	3	1	6	1	1	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr8:144993332C>G	uc003zaf.1	-	32	11238	c.11068G>C	c.(11068-11070)GAG>CAG	p.E3690Q	PLEC_uc003zab.1_Missense_Mutation_p.E3553Q|PLEC_uc003zac.1_Missense_Mutation_p.E3557Q|PLEC_uc003zad.2_Missense_Mutation_p.E3553Q|PLEC_uc003zae.1_Missense_Mutation_p.E3521Q|PLEC_uc003zag.1_Missense_Mutation_p.E3531Q|PLEC_uc003zah.2_Missense_Mutation_p.E3539Q|PLEC_uc003zaj.2_Missense_Mutation_p.E3580Q	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3690	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TGCGTGGTCTCCACCACCTCA	0.632													24	481					0	0	0.007291	0	0		G	144993332	G	G	144993332	3	3	18	1	0	0	0	0	1	0	0	0	12071	864	30	5	2990	5	PLEC	8	144993332	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	203	144993332	1370690	146	13366											
KCNV2	169522	broad.mit.edu	37	chr9	2718317	2718317	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctactggggcgtgcggctcaAgtacacgccacgctgctgcc	6	7	13	15	4	1	0	1	0	0	0	1	0	1	0	2	3	5	4	2	3	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr9:2718317A>G	uc003zho.1	+	1	792	c.578A>G	c.(577-579)AAG>AGG	p.K193R		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	193	Extracellular (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		GTGCGGCTCAAGTACACGCCA	0.672													9	20					0	0	0.008291	0	0		G	2718317	G	G	2718317	3	3	18	1	0	0	0	0	1	0	0	0	8111	72	3	3	580	3	KCNV2	9	2718317	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08		2718317	138495114	147	13367											
MPDZ	8777	broad.mit.edu	37	chr9	13217225	13217225	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaatggtaattcctaatccTtggacatttttagtgagttc	10	16	8	7	0	0	1	0	1	0	0	3	2	2	2	2	2	0	3	2	2	4	8			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr9:13217225T>G	uc010mia.1	-	8	1212	c.1155A>C	c.(1153-1155)CAA>CAC	p.Q385H	MPDZ_uc010mhy.2_Missense_Mutation_p.Q385H|MPDZ_uc010mhz.2_Missense_Mutation_p.Q385H|MPDZ_uc011lmn.1_Missense_Mutation_p.Q385H|MPDZ_uc003zlb.3_Missense_Mutation_p.Q385H	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	385	PDZ 3.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		TTCCTAATCCTTGGACATTTT	0.294													4	12					0	0	0.009096	0	0		G	13217225	G	G	13217225	3	3	18	1	0	0	0	0	1	0	0	0	9740	1606	56	5	5122	5	MPDZ	9	13217225	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	10498908	13217225	127996206	148	13368											
HEMGN	55363	broad.mit.edu	37	chr9	100692752	100692752	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtttttgtagaaaggtCtttaggctcagctatttctt	7	19	10	5	0	3	1	1	0	2	1	3	1	3	1	0	2	1	4	0	2	4	8			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr9:100692752C>A	uc004axy.2	-	3	1033	c.925G>T	c.(925-927)GAC>TAC	p.D309Y	HEMGN_uc004axz.2_Missense_Mutation_p.D309Y	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	309					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				GTAGAAAGGTCTTTAGGCTCA	0.383													10	416					1.58986e-06	1.80091e-06	0.008291	1	0		A	100692752	A	A	100692752	3	1	18	1	0	0	0	0	1	0	0	0	7066	913	32	5	537	5	HEMGN	9	100692752	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	87475527	100692752	40520679	149	13369											
OR13C2	392376	broad.mit.edu	37	chr9	107367876	107367876	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagtcccttcagaaaaaaTtccaccagaatggtgtggtt	14	10	9	8	0	1	2	1	0	0	2	3	3	3	2	3	2	0	1	3	2	5	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr9:107367876T>A	uc011lvq.1	-	1	33	c.33A>T	c.(31-33)GAA>GAT	p.E11D		NM_001004481	NP_001004481	Q8NGS9	O13C2_HUMAN	olfactory receptor, family 13, subfamily C,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TCAGAAAAAATTCCACCAGAA	0.373													19	110					0	0	0.005443	0	0		A	107367876	A	A	107367876	3	1	18	1	0	0	0	0	1	0	0	0	10953	1490	52	5	926	5	OR13C2	9	107367876	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	6675124	107367876	33845555	150	13370											
PTGR1	22949	broad.mit.edu	37	chr9	114325440	114325440	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttccccaaattatctcctttCagcattcccataaatgcagc	11	13	3	14	0	2	0	1	0	1	0	5	0	4	0	4	0	3	2	4	0	4	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr9:114325440C>G	uc004bfh.2	-	10	1054	c.951G>C	c.(949-951)CTG>CTC	p.L317L	ZNF483_uc004bfg.2_Intron|PTGR1_uc011lwr.1_Intron|PTGR1_uc004bfi.3_Silent_p.L317L|PTGR1_uc004bfj.3_3'UTR	NM_012212	NP_036344	Q14914	PTGR1_HUMAN	prostaglandin reductase 1 isoform 1	317					leukotriene metabolic process	cytoplasm	15-oxoprostaglandin 13-oxidase activity|2-alkenal reductase activity|alcohol dehydrogenase (NAD) activity|zinc ion binding				0						TATCTCCTTTCAGCATTCCCA	0.343													26	81					0	0	0.007291	0	0		G	114325440	G	G	114325440	2	3	18	1	0	0	0	0	0	0	0	1	12776	813	29	5		5	PTGR1	9	114325440	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	6957564	114325440	26887991	151	13371											
COL27A1	85301	broad.mit.edu	37	chr9	116930585	116930585	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccactgggacctctcttCtcccaagactctggcagacc	7	9	7	18	0	3	2	0	0	3	2	6	3	4	3	5	2	0	1	5	2	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr9:116930585C>A	uc011lxl.1	+	3	750	c.750C>A	c.(748-750)TTC>TTA	p.F250L	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Missense_Mutation_p.F100L	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	250					cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GACCTCTCTTCTCCCAAGACT	0.587													15	116					1.3612e-06	1.55104e-06	0.003163	1	0		A	116930585	A	A	116930585	3	1	18	1	0	0	0	0	1	0	0	0	3688	912	32	5	760	5	COL27A1	9	116930585	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	2605145	116930585	24282846	152	13372											
HSPA5	3309	broad.mit.edu	37	chr9	127999057	127999057	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttctacagctttttccatGgtctccttatcttcagagga	7	17	6	11	0	5	1	1	0	4	1	7	2	6	2	2	2	2	1	2	2	2	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr9:127999057G>C	uc004bpn.2	-	8	2035	c.1779C>G	c.(1777-1779)ACC>ACG	p.T593T		NM_005347	NP_005338	P11021	GRP78_HUMAN	heat shock 70kDa protein 5	593					anti-apoptosis|cellular response to glucose starvation|ER-associated protein catabolic process|platelet activation|platelet degranulation|regulation of protein folding in endoplasmic reticulum	cell surface|endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|integral to endoplasmic reticulum membrane|melanosome|midbody|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|calcium ion binding|caspase inhibitor activity|chaperone binding|misfolded protein binding|protein binding, bridging|protein domain specific binding|ubiquitin protein ligase binding|unfolded protein binding			ovary(3)|skin(1)	4					Antihemophilic Factor(DB00025)	CTTTTTCCATGGTCTCCTTAT	0.383										Prostate(1;0.17)			42	252					0	0	0.011902	0	0		C	127999057	C	C	127999057	2	2	18	1	0	0	0	0	0	0	0	1	7430	1335	47	5		5	HSPA5	9	127999057	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	11068472	127999057	13214374	153	13373											
C9orf119	375757	broad.mit.edu	37	chr9	131038446	131038446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcagcggcgtggccagaggGacctgtggcgtcacaacaaa	10	5	15	11	3	1	1	1	0	0	1	1	2	1	2	2	4	3	1	2	4	2	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr9:131038446G>A	uc004bup.2	+	1	22	c.22G>A	c.(22-24)GAC>AAC	p.D8N	GOLGA2_uc011maw.1_5'Flank|GOLGA2_uc010mxw.2_5'Flank|GOLGA2_uc004bul.1_5'Flank|C9orf119_uc010mxx.1_Missense_Mutation_p.D8N	NM_001040011	NP_001035100	Q1ZZU3	SWI5_HUMAN	hypothetical protein LOC375757	8					double-strand break repair via homologous recombination	Swi5-Sfr1 complex	protein binding				0						TGGCCAGAGGGACCTGTGGCG	0.642													22	153					0	0	0.00278	0	0		A	131038446	A	A	131038446	3	1	18	1	0	0	0	0	1	0	0	0	2455	1174	41	4	24	4	C9orf119	9	131038446	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	3039389	131038446	10174985	154	13374											
TTF1	7270	broad.mit.edu	37	chr9	135278082	135278082	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatttgagactgttcattcaCcagggaggagtctctgaaaa	12	12	10	7	0	3	2	2	2	1	1	4	5	3	4	1	2	0	1	1	2	3	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr9:135278082C>A	uc004cbl.2	-	2	179	c.127G>T	c.(127-129)GTG>TTG	p.V43L	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Intron	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	43	N-terminal region (NRD) (By similarity).				negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		TGTTCATTCACCAGGGAGGAG	0.373													27	129					1.7881e-09	2.0807e-09	0.008361	1	0		A	135278082	A	A	135278082	3	1	18	1	0	0	0	0	1	0	0	0	16744	507	18	5	2630	5	TTF1	9	135278082	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	4239636	135278082	5935349	155	13375											
EHMT1	79813	broad.mit.edu	37	chr9	140711934	140711934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgggacatgggctggggcGtgcggtccctgcaggacatc	5	6	18	12	4	0	0	0	0	0	0	2	2	1	2	1	6	2	2	1	6	0	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr9:140711934G>A	uc011mfc.1	+	24	3455	c.3418G>A	c.(3418-3420)GTG>ATG	p.V1140M	EHMT1_uc004coe.2_Missense_Mutation_p.V45M	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	1140	SET.				DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		GGGCTGGGGCGTGCGGTCCCT	0.612													28	94					0	0	0.003271	0	0		A	140711934	A	A	140711934	3	1	18	1	0	0	0	0	1	0	0	0	4989	1145	40	1	3561	1	EHMT1	9	140711934	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	5433852	140711934	501497	156	13376											
CUBN	8029	broad.mit.edu	37	chr10	16911646	16911646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcttacccaatgtctgcCggaaagacatcttccagcct	11	11	6	13	1	3	1	0	0	3	1	4	2	4	2	4	1	3	0	4	1	4	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:16911646C>T	uc001ioo.2	-	59	9495	c.9443G>A	c.(9442-9444)CGG>CAG	p.R3148Q	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Missense_Mutation_p.R504Q	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3148	CUB 23.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CAATGTCTGCCGGAAAGACAT	0.468													21	465					0	0	0.010504	0	0		T	16911646	T	T	16911646	3	4	18	1	0	0	0	0	1	0	0	0	4054	652	23	1	1464	1	CUBN	10	16911646	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08		16911646	118623101	157	13377											
MRC1	4360	broad.mit.edu	37	chr10	18196558	18196558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgattgtgtagctttacatGcgtcttctgggttttggagt	6	18	12	5	1	2	1	0	1	2	0	2	2	2	2	0	2	3	3	0	2	2	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:18196558G>A	uc001ipm.2	+	28	4112	c.4009G>A	c.(4009-4011)GCG>ACG	p.A1337T		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	1337	Extracellular (Potential).|C-type lectin 8.				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						AGCTTTACATGCGTCTTCTGG	0.413													51	145					0	0	0.01441	0	0		A	18196558	A	A	18196558	3	1	18	1	0	0	0	0	1	0	0	0	9774	1319	46	2	8610	2	MRC1	10	18196558	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	1284912	18196558	117338189	158	13378											
SLC39A12	221074	broad.mit.edu	37	chr10	18270258	18270258	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagacctgcttctctgctagGcagctggtggagatatttct	7	13	11	10	0	2	2	0	0	2	2	3	3	2	2	1	3	3	4	1	3	2	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:18270258G>T	uc001ipo.2	+	6	1215	c.942G>T	c.(940-942)AGG>AGT	p.R314S	SLC39A12_uc001ipn.2_Missense_Mutation_p.R314S|SLC39A12_uc001ipp.2_Missense_Mutation_p.R314S|SLC39A12_uc010qck.1_Missense_Mutation_p.R180S	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	314	Cytoplasmic (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						TCTCTGCTAGGCAGCTGGTGG	0.448													25	121					6.32553e-13	7.54349e-13	0.004656	1	0		T	18270258	T	T	18270258	3	4	18	1	0	0	0	0	1	0	0	0	14640	1194	42	5	960	5	SLC39A12	10	18270258	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	73700	18270258	117264489	159	13379											
MLLT10	8028	broad.mit.edu	37	chr10	22002749	22002749	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcgtttccaaatgtagtatCtggctcgggatctagtactc	9	14	9	9	2	2	0	0	0	2	0	6	1	3	1	1	2	1	5	1	2	5	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:22002749C>T	uc001iqs.2	+	15	2144	c.1796C>T	c.(1795-1797)TCT>TTT	p.S599F	MLLT10_uc001iqt.2_Missense_Mutation_p.S583F|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Missense_Mutation_p.S583F|MLLT10_uc001ira.2_Missense_Mutation_p.S40F|MLLT10_uc001irb.2_RNA	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	599	DNA-binding.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						AATGTAGTATCTGGCTCGGGA	0.413			T	MLL|PICALM|CDK6	AL								7	288					0	0	0.00308	0	0		T	22002749	T	T	22002749	3	4	18	1	0	0	0	0	1	0	0	0	9644	913	32	4	1850	4	MLLT10	10	22002749	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	3732491	22002749	113531998	160	13380											
ANKRD30A	91074	broad.mit.edu	37	chr10	37421247	37421247	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgctgataaaaaatgcaaAtgcgaatgcagttaataagt	17	12	8	4	1	0	1	0	1	0	0	0	2	0	1	0	0	4	4	0	0	7	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:37421247A>C	uc001iza.1	+	4	521	c.422A>C	c.(421-423)AAT>ACT	p.N141T		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	197	ANK 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AAAAATGCAAATGCGAATGCA	0.299													4	100					0	0	0.009096	0	0		C	37421247	C	C	37421247	3	2	18	1	0	0	0	0	1	0	0	0	658	101	4	5	436	5	ANKRD30A	10	37421247	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	15418498	37421247	98113500	161	13381											
ZNF37A	7587	broad.mit.edu	37	chr10	38407159	38407159	+	Missense_Mutation	SNP	T	G	G																															ccatatgaatgtcatgaatgTgggaaaaccttctcatttaa																										TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:38407159T>G	uc001izk.2	+	8	1899	c.1080T>G	c.(1078-1080)TGT>TGG	p.C360W	ZNF37A_uc001izl.2_Missense_Mutation_p.C360W|ZNF37A_uc001izm.2_Missense_Mutation_p.C360W	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	360	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						GTCATGAATGTGGGAAAACCT	0.428													30	162					0	0	0.010818	0	0		G	38407159	G	G	38407159	3	3	18	1	0	0	0	0	1	0	0	0	17897	1702	59	5	1094	5	ZNF37A	10	38407159	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	985912	38407159	97127588	162	13382	21	2									
ZNF37A	7587	broad.mit.edu	37	chr10	38407163	38407163	+	Missense_Mutation	SNP	A	G	G																															atgaatgtcatgaatgtgggAaaaccttctcatttaagtca																										TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:38407163A>G	uc001izk.2	+	8	1903	c.1084A>G	c.(1084-1086)AAA>GAA	p.K362E	ZNF37A_uc001izl.2_Missense_Mutation_p.K362E|ZNF37A_uc001izm.2_Missense_Mutation_p.K362E	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	362	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						TGAATGTGGGAAAACCTTCTC	0.423													28	157					0	0	0.007291	0	0		G	38407163	G	G	38407163	3	3	18	1	0	0	0	0	1	0	0	0	17897	247	9	3	1098	3	ZNF37A	10	38407163	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	4	38407163	97127584	163	13383	21	2									
MYST4	23522	broad.mit.edu	37	chr10	76788893	76788893	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagccacatggagtctgcCgaagtggagaaggaagagct	13	5	15	8	1	1	2	0	0	1	2	1	7	1	4	2	3	3	1	2	3	3	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:76788893C>A	uc001jwn.1	+	18	4804	c.4311C>A	c.(4309-4311)GCC>GCA	p.A1437A	MYST4_uc001jwo.1_Silent_p.A1145A|MYST4_uc001jwp.1_Silent_p.A1254A	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1437					histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					TGGAGTCTGCCGAAGTGGAGA	0.507			T	CREBBP	AML								4	105					0.00024832	0.000275592	0.009096	1	0		A	76788893	A	A	76788893	2	1	18	1	0	0	0	0	0	0	0	1	10123	639	23	5		5	MYST4	10	76788893	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	38381730	76788893	58745854	164	13384											
DLG5	9231	broad.mit.edu	37	chr10	79566548	79566548	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggaatctgcccgcgctggatCttctgggcattctcgtccag	5	11	12	13	3	4	0	0	0	4	0	6	2	5	2	2	3	1	2	2	3	1	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:79566548C>G	uc001jzk.2	-	26	5005	c.4935G>C	c.(4933-4935)AAG>AAC	p.K1645N	DLG5_uc001jzi.2_Missense_Mutation_p.K400N|DLG5_uc001jzj.2_Missense_Mutation_p.K1060N|DLG5_uc009xru.1_RNA	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1645	SH3.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			CGCGCTGGATCTTCTGGGCAT	0.607													44	115					0	0	0.01441	0	0		G	79566548	G	G	79566548	3	3	18	1	0	0	0	0	1	0	0	0	4564	912	32	5	852	5	DLG5	10	79566548	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	2777655	79566548	55968199	165	13385											
MINPP1	9562	broad.mit.edu	37	chr10	89272968	89272968	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgatgtttttgacatagAtgatgcaaaggtaagtatta	13	15	11	2	0	0	4	0	3	0	1	0	4	0	4	0	1	1	4	0	1	5	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:89272968A>T	uc001keu.2	+	3	1373	c.923A>T	c.(922-924)GAT>GTT	p.D308V	MINPP1_uc009xtf.1_Intron|MINPP1_uc001kev.2_Intron	NM_004897	NP_004888	Q9UNW1	MINP1_HUMAN	multiple inositol polyphosphate histidine	308					bone mineralization|polyphosphate metabolic process	endoplasmic reticulum lumen	acid phosphatase activity|bisphosphoglycerate 3-phosphatase activity|multiple inositol-polyphosphate phosphatase activity|phosphohistidine phosphatase activity			urinary_tract(1)	1		Colorectal(252;0.122)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00123)		TTTGACATAGATGATGCAAAG	0.328													44	115					0	0	0.009718	0	0		T	89272968	T	T	89272968	3	4	18	1	0	0	0	0	1	0	0	0	9606	333	12	5	971	5	MINPP1	10	89272968	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	9706420	89272968	46261779	166	13386											
PPP1R3C	5507	broad.mit.edu	37	chr10	93389974	93389974	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttggaatgacagggggtaAgtcaatggcaaatgagaagg	15	7	16	3	0	1	2	1	2	0	1	1	4	1	3	0	5	0	3	0	5	5	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:93389974A>G	uc001kho.2	-	2	796	c.664T>C	c.(664-666)TTA>CTA	p.L222L		NM_005398	NP_005389	Q9UQK1	PPR3C_HUMAN	protein phosphatase 1, regulatory (inhibitor)	222	Interaction with EPM2A.|CBM21.						protein serine/threonine phosphatase activity			breast(1)	1		Colorectal(252;0.235)				ACAGGGGGTAAGTCAATGGCA	0.398													42	151					0	0	0.01441	0	0		G	93389974	G	G	93389974	2	3	18	1	0	0	0	0	0	0	0	1	12395	69	3	3		3	PPP1R3C	10	93389974	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	4117006	93389974	42144773	167	13387											
SLIT1	6585	broad.mit.edu	37	chr10	98806446	98806446	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagaccccggaacatgccGctccggatggactccagctg	8	6	11	16	3	0	1	0	0	0	1	3	4	3	4	6	3	3	2	6	3	1	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:98806446G>A	uc001kmw.2	-	18	2070	c.1818C>T	c.(1816-1818)AGC>AGT	p.S606S	SLIT1_uc009xvh.1_Silent_p.S616S	NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	606	LRR 14.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		GGAACATGCCGCTCCGGATGG	0.617													16	32					0	0	0.007413	0	0		A	98806446	A	A	98806446	2	1	18	1	0	0	0	0	0	0	0	1	14764	1078	38	1		1	SLIT1	10	98806446	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	5416472	98806446	36728301	168	13388											
TMEM180	79847	broad.mit.edu	37	chr10	104230737	104230737	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttggaacaaggaggatttCtcctccttccgcgctttctg	6	15	9	11	2	2	0	0	0	2	0	5	3	4	3	3	3	1	1	3	3	2	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:104230737C>G	uc001kvt.2	+	5	786	c.567C>G	c.(565-567)TTC>TTG	p.F189L	TMEM180_uc001kvs.2_Intron|TMEM180_uc010qql.1_Intron|TMEM180_uc010qqm.1_Intron|TMEM180_uc001kvu.2_Missense_Mutation_p.F189L	NM_024789	NP_079065	Q14CX5	TM180_HUMAN	transmembrane protein 180	189						integral to membrane				ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		AGGAGGATTTCTCCTCCTTCC	0.622													55	179					0	0	0.01441	0	0		G	104230737	G	G	104230737	3	3	18	1	0	0	0	0	1	0	0	0	16124	912	32	5	577	5	TMEM180	10	104230737	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	5424291	104230737	31304010	169	13389											
TAF5	6877	broad.mit.edu	37	chr10	105146935	105146935	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caataactttataaaaggctCtgggctacagaccactatca	15	10	6	10	0	2	1	1	0	1	1	2	1	2	1	1	2	2	2	1	2	7	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:105146935C>G	uc001kwv.2	+	9	1856	c.1833C>G	c.(1831-1833)CTC>CTG	p.L611L	TAF5_uc010qqq.1_Silent_p.L556L	NM_006951	NP_008882	Q15542	TAF5_HUMAN	TBP-associated factor 5	611	WD 3.				histone acetylation|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	actin cytoskeleton|transcription factor TFIID complex|transcription factor TFTC complex	protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;1.83e-09)|all cancers(201;1.4e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		ATAAAAGGCTCTGGGCTACAG	0.353													19	78					0	0	0.012319	0	0		G	105146935	G	G	105146935	2	3	18	1	0	0	0	0	0	0	0	1	15553	900	32	5		5	TAF5	10	105146935	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	916198	105146935	30387812	170	13390											
ZDHHC6	64429	broad.mit.edu	37	chr10	114205154	114205154	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacagtctctttaattctTgtagattttcaaacttgata	12	17	5	7	0	3	2	1	1	2	1	4	3	3	2	0	0	1	1	0	0	4	9			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:114205154T>C	uc001kzv.2	-	2	465	c.41A>G	c.(40-42)CAA>CGA	p.Q14R	VTI1A_uc001kzy.2_5'Flank|VTI1A_uc001kzz.2_5'Flank|ZDHHC6_uc001kzw.2_Missense_Mutation_p.Q14R|ZDHHC6_uc009xya.1_Missense_Mutation_p.Q14R|VTI1A_uc001kzx.2_5'Flank	NM_022494	NP_071939	Q9H6R6	ZDHC6_HUMAN	zinc finger, DHHC-type containing 6	14						integral to membrane	acyltransferase activity|zinc ion binding				0		Colorectal(252;0.198)		Epithelial(162;0.0291)|all cancers(201;0.117)		CTTTAATTCTTGTAGATTTTC	0.393													24	136					0	0	0.003954	0	0		C	114205154	C	C	114205154	3	2	18	1	0	0	0	0	1	0	0	0	17644	1812	63	3	1240	3	ZDHHC6	10	114205154	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	9058219	114205154	21329593	171	13391											
TRUB1	142940	broad.mit.edu	37	chr10	116735016	116735016	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcttgagcattgctcatctCttttcccagcagagttggca	7	14	8	12	0	3	2	1	1	2	1	5	2	4	2	1	1	3	5	1	1	0	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:116735016C>G	uc001lcd.2	+	8	989	c.928C>G	c.(928-930)CTT>GTT	p.L310V	TRUB1_uc010qsl.1_Missense_Mutation_p.L212V	NM_139169	NP_631908	Q8WWH5	TRUB1_HUMAN	TruB pseudouridine (psi) synthase homolog 1	310					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding				0		Colorectal(252;0.09)|Breast(234;0.174)|Lung NSC(174;0.245)		Epithelial(162;0.00879)|all cancers(201;0.0243)		TTGCTCATCTCTTTTCCCAGC	0.408													78	208					0	0	0.01441	0	0		G	116735016	G	G	116735016	3	3	18	1	0	0	0	0	1	0	0	0	16628	913	32	5	958	5	TRUB1	10	116735016	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	2529862	116735016	18799731	172	13392											
PTPRE	5791	broad.mit.edu	37	chr10	129868079	129868079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtaatcagcgccctcagatGgttcaaacggatgtgagtca	11	9	11	10	3	4	2	4	1	0	1	4	3	4	3	1	2	2	2	1	2	2	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr10:129868079G>A	uc001lkb.2	+	13	1410	c.1131G>A	c.(1129-1131)ATG>ATA	p.M377I	PTPRE_uc009yat.2_Missense_Mutation_p.M388I|PTPRE_uc009yau.2_Missense_Mutation_p.M377I|PTPRE_uc001lkd.2_Missense_Mutation_p.M319I|PTPRE_uc010quq.1_Missense_Mutation_p.M278I	NM_006504	NP_006495	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E	377	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)				GCCCTCAGATGGTTCAAACGG	0.537											OREG0020623	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	101					0	0	0.004289	0	0		A	129868079	A	A	129868079	3	1	18	1	0	0	0	0	1	0	0	0	12825	1348	47	4	1212	4	PTPRE	10	129868079	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	13133063	129868079	5666668	173	13393											
RNH1	6050	broad.mit.edu	37	chr11	500634	500634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccttgcaccgtgcttccGtgaggccacagtcgtccagc	5	10	11	15	3	0	1	0	1	0	0	4	1	3	1	5	1	3	2	5	1	0	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:500634G>A	uc001lpk.1	-	2	1530	c.122C>T	c.(121-123)ACG>ATG	p.T41M	RNH1_uc001lpl.1_Missense_Mutation_p.T41M|RNH1_uc001lpm.1_Missense_Mutation_p.T41M|RNH1_uc001lpn.1_Missense_Mutation_p.T41M|RNH1_uc001lpo.1_Missense_Mutation_p.T41M|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Missense_Mutation_p.T41M|RNH1_uc001lpt.1_Translation_Start_Site|RNH1_uc001lpq.1_Missense_Mutation_p.T41M|RNH1_uc001lpr.1_Missense_Mutation_p.T41M|RNH1_uc001lps.1_Missense_Mutation_p.T41M|RNH1_uc009ybx.1_Missense_Mutation_p.T41M	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	41	LRR 1.				mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCGTGCTTCCGTGAGGCCACA	0.627													20	43					0	0	0.00333	0	0		A	500634	A	A	500634	3	1	18	1	0	0	0	0	1	0	0	0	13529	1145	40	1	1295	1	RNH1	11	500634	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08		500634	134505882	174	13394											
OR10A2	341276	broad.mit.edu	37	chr11	6891165	6891165	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctttcctggagattggcttCaacctagtcattgtgcccaa	8	14	8	11	0	3	1	2	0	1	1	4	2	4	1	3	2	2	1	3	2	3	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:6891165C>G	uc001meu.1	+	1	180	c.180C>G	c.(178-180)TTC>TTG	p.F60L		NM_001004460	NP_001004460	Q9H208	O10A2_HUMAN	olfactory receptor, family 10, subfamily A,	60	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.89e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		AGATTGGCTTCAACCTAGTCA	0.493													62	217					0	0	0.01441	0	0		G	6891165	G	G	6891165	3	3	18	1	0	0	0	0	1	0	0	0	10909	825	29	5	182	5	OR10A2	11	6891165	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	6390531	6891165	128115351	175	13395											
EIF4G2	1982	broad.mit.edu	37	chr11	10822090	10822090	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgacaggatgattactttGcttaacatctcaggaagaaa	15	11	9	6	0	1	3	1	2	1	1	2	5	1	5	0	2	3	1	0	2	4	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:10822090G>C	uc001mjc.2	-	17	2166	c.1749C>G	c.(1747-1749)AGC>AGG	p.S583R	EIF4G2_uc001mjb.2_Missense_Mutation_p.S377R|EIF4G2_uc009ygf.2_Missense_Mutation_p.S377R|EIF4G2_uc001mjd.2_Missense_Mutation_p.S545R	NM_001418	NP_001409	P78344	IF4G2_HUMAN	eukaryotic translation initiation factor 4	583	MI.				cell cycle arrest|cell death|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		TGATTACTTTGCTTAACATCT	0.383													70	233					0	0	0.01441	0	0		C	10822090	C	C	10822090	3	2	18	1	0	0	0	0	1	0	0	0	5045	1310	46	5	998	5	EIF4G2	11	10822090	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	3930925	10822090	124184426	176	13396											
NAT10	55226	broad.mit.edu	37	chr11	34160817	34160817	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgaccagggaggctggcTtgcagccttctggaaaggtg	7	8	17	9	0	1	1	0	1	1	0	1	3	1	3	2	6	2	4	2	6	1	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:34160817T>C	uc001mvk.2	+	22	2535	c.2291T>C	c.(2290-2292)CTT>CCT	p.L764P	NAT10_uc010ren.1_Missense_Mutation_p.L692P	NM_024662	NP_078938	Q9H0A0	NAT10_HUMAN	N-acetyltransferase 10 isoform a	764	Required for localization to the nucleolus and midbody.					nucleolus	ATP binding|N-acetyltransferase activity|protein binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0119)|all_hematologic(20;0.0231)				GGAGGCTGGCTTGCAGCCTTC	0.572													6	148					0	0	0.00308	0	0		C	34160817	C	C	34160817	3	2	18	1	0	0	0	0	1	0	0	0	10192	1609	56	3	2373	3	NAT10	11	34160817	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	23338727	34160817	100845699	177	13397											
CAT	847	broad.mit.edu	37	chr11	34477709	34477709	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtcatgacatttaatcAggcagaaacttttccattta	13	13	6	9	0	2	2	2	1	0	1	3	2	3	2	2	2	1	1	2	2	3	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:34477709A>G	uc001mvm.2	+	7	946	c.863A>G	c.(862-864)CAG>CGG	p.Q288R	CAT_uc009ykc.1_RNA	NM_001752	NP_001743	P04040	CATA_HUMAN	catalase	288					hydrogen peroxide catabolic process|negative regulation of apoptosis|positive regulation of cell division|protein tetramerization|purine base metabolic process|purine nucleotide catabolic process|UV protection	peroxisomal matrix|peroxisomal membrane	catalase activity|heme binding|NADP binding|protein homodimerization activity			ovary(2)|pancreas(1)	3		Lung NSC(402;2.76e-08)|Acute lymphoblastic leukemia(5;0.00143)|all_hematologic(20;0.0116)|Melanoma(852;0.027)		BRCA - Breast invasive adenocarcinoma(625;0.000995)	Fomepizole(DB01213)	ACATTTAATCAGGCAGAAACT	0.388													12	422					0	0	0.003163	0	0		G	34477709	G	G	34477709	3	3	18	1	0	0	0	0	1	0	0	0	2689	188	7	3	889	3	CAT	11	34477709	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	316892	34477709	100528807	178	13398											
EXT2	2132	broad.mit.edu	37	chr11	44148397	44148397	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgtggttcttcgtggagCtcggctgggccaggcagtat	4	12	16	9	2	1	0	0	0	1	0	3	1	1	1	1	5	1	5	1	5	1	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:44148397C>A	uc001mxz.2	+	6	1305	c.971C>A	c.(970-972)GCT>GAT	p.A324D	EXT2_uc010rfo.1_Missense_Mutation_p.A352D|EXT2_uc001mxy.2_Missense_Mutation_p.A337D|EXT2_uc009ykt.2_Missense_Mutation_p.A324D|EXT2_uc001mya.2_Missense_Mutation_p.A357D	NM_207122	NP_997005	Q93063	EXT2_HUMAN	exostosin 2 isoform 2	324	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity			lung(2)|breast(2)|skin(1)	5						CTTCGTGGAGCTCGGCTGGGC	0.478			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses				56	216					6.21051e-42	7.76819e-42	0.01441	1	0		A	44148397	A	A	44148397	3	1	18	1	0	0	0	0	1	0	0	0	5332	797	28	5	1092	5	EXT2	11	44148397	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	9670688	44148397	90858119	179	13399											
OR5M10	390167	broad.mit.edu	37	chr11	56345186	56345186	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtcactatggtgtggttTggggacaacatcttcttatt	7	17	10	7	0	4	0	1	0	3	0	4	1	4	1	0	4	1	1	0	4	3	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:56345186T>C	uc001niz.1	-	1	12	c.12A>G	c.(10-12)CCA>CCG	p.P4P		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	4	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGGTGTGGTTTGGGGACAACA	0.388													25	74					0	0	0.003954	0	0		C	56345186	C	C	56345186	2	2	18	1	0	0	0	0	0	0	0	1	11192	1799	63	3		3	OR5M10	11	56345186	Silent	SNP	T	TCGA-BR-4357-01A-01D-1158-08	12196789	56345186	78661330	180	13400											
DDB1	1642	broad.mit.edu	37	chr11	61097044	61097044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgccggtctctgaggggcGgccaatgcggtcctgagaaa	9	7	15	10	3	1	2	0	2	1	1	3	3	2	2	3	5	2	0	3	5	3	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:61097044G>A	uc001nrc.3	-	4	566	c.340C>T	c.(340-342)CGC>TGC	p.R114C	DDB1_uc010rle.1_Intron|DDB1_uc010rlf.1_Missense_Mutation_p.R114C|DDB1_uc010rlg.1_5'Flank|DDB1_uc001nrd.2_Missense_Mutation_p.R114C|DDB1_uc009ynl.1_Intron	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	114	Interaction with CDT1.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						TCTGAGGGGCGGCCAATGCGG	0.502								NER					7	20					0	0	0.008291	0	0		A	61097044	A	A	61097044	3	1	18	1	0	0	0	0	1	0	0	0	4326	1116	39	1	3178	1	DDB1	11	61097044	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	4751858	61097044	73909472	181	13401											
SLC22A25	387601	broad.mit.edu	37	chr11	62933697	62933697	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagatgctggaggtgcaaAgtaaggccccaaaaagggat	14	5	13	9	0	0	1	0	0	0	1	0	3	0	3	3	4	2	3	3	4	4	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:62933697A>C	uc001nwr.1	-	7	1104	c.1104T>G	c.(1102-1104)ACT>ACG	p.T368T	SLC22A10_uc010rmo.1_Intron|SLC22A25_uc009yoq.1_RNA|SLC22A25_uc001nws.1_RNA|SLC22A25_uc001nwt.1_3'UTR	NM_199352	NP_955384	Q6T423	S22AP_HUMAN	putative UST1-like organic anion transporter	368	Helical; Name=7; (Potential).				transmembrane transport	integral to membrane				ovary(3)|skin(1)	4						GGAGGTGCAAAGTAAGGCCCC	0.448													10	48					0	0	0.008291	0	0		C	62933697	C	C	62933697	2	2	18	1	0	0	0	0	0	0	0	1	14479	59	3	5		5	SLC22A25	11	62933697	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	1836653	62933697	72072819	182	13402											
SLC22A10	387775	broad.mit.edu	37	chr11	63058038	63058038	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccttcgaccattgtgactaAggtaaagggtcctgttaacc	10	11	9	11	1	0	1	0	1	0	0	2	2	1	1	4	2	1	2	4	2	4	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:63058038A>C	uc009yor.2	+	1	609	c.401A>C	c.(400-402)AAG>ACG	p.K134T	SLC22A10_uc010rmo.1_Intron|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_Missense_Mutation_p.K82T	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	134	Extracellular (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						ATTGTGACTAAGGTAAAGGGT	0.433													19	107					0	0	0.00333	0	0		C	63058038	C	C	63058038	3	2	18	1	0	0	0	0	1	0	0	0	14466	86	3	5	403	5	SLC22A10	11	63058038	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	124341	63058038	71948478	183	13403											
PCNXL3	399909	broad.mit.edu	37	chr11	65385537	65385537	+	Missense_Mutation	SNP	C	T	T																															tgggagcagcatggctgacaCtcccatgagccccctgctga																										TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:65385537C>T	uc001oey.2	+	6	704	c.704C>T	c.(703-705)ACT>ATT	p.T235I		NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	235						integral to membrane					0						ATGGCTGACACTCCCATGAGC	0.647													8	10					0	0	0.00308	0	0		T	65385537	T	T	65385537	3	4	18	1	0	0	0	0	1	0	0	0	11612	565	20	4	726	4	PCNXL3	11	65385537	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	2327499	65385537	69620979	184	13404	22	2									
PCNXL3	399909	broad.mit.edu	37	chr11	65385540	65385540	+	Missense_Mutation	SNP	C	A	A																															gagcagcatggctgacactcCcatgagccccctgctgaagg																										TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:65385540C>A	uc001oey.2	+	6	707	c.707C>A	c.(706-708)CCC>CAC	p.P236H		NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	236						integral to membrane					0						GCTGACACTCCCATGAGCCCC	0.642													7	11					2.7689e-08	3.1834e-08	0.001984	1	0		A	65385540	A	A	65385540	3	1	18	1	0	0	0	0	1	0	0	0	11612	623	22	5	729	5	PCNXL3	11	65385540	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	3	65385540	69620976	185	13405	22	2									
CLCF1	23529	broad.mit.edu	37	chr11	67132822	67132822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggctggggcagtgggtagcCcagagctgccatgacgcccg	6	5	17	13	3	0	2	0	1	0	1	0	2	0	2	3	4	3	4	3	4	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:67132822C>T	uc001okq.2	-	3	659	c.463G>A	c.(463-465)GGC>AGC	p.G155S	LOC100130987_uc010rpo.1_Intron|CLCF1_uc010rpp.1_Missense_Mutation_p.G145S	NM_013246	NP_037378	Q9UBD9	CLCF1_HUMAN	cardiotrophin-like cytokine factor 1 precursor	155					B cell differentiation|cytokine-mediated signaling pathway|JAK-STAT cascade|negative regulation of neuron apoptosis|positive regulation of astrocyte differentiation|positive regulation of B cell proliferation|positive regulation of immunoglobulin production|positive regulation of isotype switching to IgE isotypes|positive regulation of tyrosine phosphorylation of Stat3 protein	extracellular space	ciliary neurotrophic factor receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity				0			BRCA - Breast invasive adenocarcinoma(15;2.39e-06)			AGTGGGTAGCCCAGAGCTGCC	0.667													12	11					0	0	0.004007	0	0		T	67132822	T	T	67132822	3	4	18	1	0	0	0	0	1	0	0	0	3464	623	22	4	218	4	CLCF1	11	67132822	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	1747282	67132822	67873694	186	13406											
ME3	10873	broad.mit.edu	37	chr11	86158244	86158244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaggctcctgcgatggcagCaacacctacagggaaaaggc	13	4	13	11	1	0	0	0	0	0	0	1	3	1	1	2	4	4	3	2	4	5	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:86158244C>T	uc001pbz.2	-	11	1497	c.1243G>A	c.(1243-1245)GCT>ACT	p.A415T	ME3_uc001pca.2_Missense_Mutation_p.A415T|ME3_uc009yvk.2_Missense_Mutation_p.A415T	NM_001014811	NP_001014811	Q16798	MAON_HUMAN	mitochondrial malic enzyme 3 precursor	415					aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)	GCGATGGCAGCAACACCTACA	0.567													25	96					0	0	0.00632	0	0		T	86158244	T	T	86158244	3	4	18	1	0	0	0	0	1	0	0	0	9437	710	25	2	587	2	ME3	11	86158244	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	19025422	86158244	48848272	187	13407											
TYR	7299	broad.mit.edu	37	chr11	88911583	88911583	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gactatgtcatccccataggGacctatggccaaatgaaaaa	15	8	8	10	0	1	1	1	1	0	0	2	3	2	2	4	2	0	0	4	2	6	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:88911583G>A	uc001pcs.2	+	1	544	c.462G>A	c.(460-462)GGG>GGA	p.G154G		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	154	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	TCCCCATAGGGACCTATGGCC	0.408									Oculocutaneous_Albinism				55	274					0	0	0.01441	0	0		A	88911583	A	A	88911583	2	1	18	1	0	0	0	0	0	0	0	1	16839	1161	41	4		4	TYR	11	88911583	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	2753339	88911583	46094933	188	13408											
DYNC2H1	79659	broad.mit.edu	37	chr11	103027360	103027360	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaagtatcaatttgggaaAgaaaacttgcagagttagat	18	11	9	3	0	1	3	1	0	0	3	1	4	1	4	0	1	2	3	0	1	8	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:103027360A>G	uc001pho.2	+	26	4132	c.3988A>G	c.(3988-3990)AGA>GGA	p.R1330G	DYNC2H1_uc001phn.1_Missense_Mutation_p.R1330G|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	1330	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AATTTGGGAAAGAAAACTTGC	0.353													21	53					0	0	0.010504	0	0		G	103027360	G	G	103027360	3	3	18	1	0	0	0	0	1	0	0	0	4852	64	3	3	4090	3	DYNC2H1	11	103027360	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	14115777	103027360	31979156	189	13409											
AMICA1	120425	broad.mit.edu	37	chr11	118071269	118071269	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcacagacaattcccacaatGatcaccaactgattaccacc	15	7	4	15	0	1	3	1	2	0	1	2	3	2	3	4	0	2	1	4	0	4	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:118071269G>C	uc001psk.2	-	7	1005	c.831C>G	c.(829-831)ATC>ATG	p.I277M	AMICA1_uc001psg.2_Missense_Mutation_p.I87M|AMICA1_uc001psh.2_Missense_Mutation_p.I238M|AMICA1_uc009yzw.1_RNA|AMICA1_uc001psi.2_Missense_Mutation_p.I267M|AMICA1_uc001psj.2_Missense_Mutation_p.I266M|AMICA1_uc010rxw.1_Missense_Mutation_p.I238M|AMICA1_uc010rxx.1_Missense_Mutation_p.I277M|AMICA1_uc001psl.1_Missense_Mutation_p.I233M	NM_001098526	NP_001091996	Q86YT9	JAML1_HUMAN	adhesion molecule, interacts with CXADR antigen	277	Helical; (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	cell junction|integral to membrane				ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		TTCCCACAATGATCACCAACT	0.512													16	151					0	0	0.004007	0	0		C	118071269	C	C	118071269	3	2	18	1	0	0	0	0	1	0	0	0	574	1280	45	5	369	5	AMICA1	11	118071269	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	15043909	118071269	16935247	190	13410											
FOXRED1	55572	broad.mit.edu	37	chr11	126147540	126147540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagccccttcctctttaccCgcttttacttgggagagaag	7	13	9	12	1	1	2	0	1	1	1	2	4	2	3	4	1	3	1	4	1	3	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:126147540C>T	uc001qdi.2	+	11	1464	c.1417C>T	c.(1417-1419)CGC>TGC	p.R473C	FOXRED1_uc010sbn.1_Missense_Mutation_p.R303C|FOXRED1_uc010sbo.1_RNA|FOXRED1_uc010sbp.1_Missense_Mutation_p.R286C|FOXRED1_uc010sbq.1_Missense_Mutation_p.R340C|FOXRED1_uc001qdj.2_Missense_Mutation_p.R262C|FOXRED1_uc010sbr.1_Missense_Mutation_p.R459C|FOXRED1_uc001qdk.2_Missense_Mutation_p.R262C	NM_017547	NP_060017	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing	473						integral to membrane|mitochondrion	oxidoreductase activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)		CCTCTTTACCCGCTTTTACTT	0.567													30	81					0	0	0.012213	0	0		T	126147540	T	T	126147540	3	4	18	1	0	0	0	0	1	0	0	0	6047	652	23	1	1459	1	FOXRED1	11	126147540	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	8076271	126147540	8858976	191	13411											
KIRREL3	84623	broad.mit.edu	37	chr11	126396494	126396494	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccacagaacgaagccatcGtattcggggatggcgcaaag	13	6	12	10	4	0	1	0	0	0	1	3	3	1	2	2	3	2	2	2	3	4	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr11:126396494G>A	uc001qea.2	-	3	583	c.222C>T	c.(220-222)TAC>TAT	p.Y74Y	KIRREL3_uc001qeb.2_Silent_p.Y74Y|KIRREL3_uc001qec.1_Silent_p.Y74Y	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	74	Ig-like C2-type 1.|Extracellular (Potential).				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		CGAAGCCATCGTATTCGGGGA	0.617													5	13					0	0	0.001984	0	0		A	126396494	A	A	126396494	2	1	18	1	0	0	0	0	0	0	0	1	8342	1140	40	1		1	KIRREL3	11	126396494	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	248954	126396494	8610022	192	13412											
WNK1	65125	broad.mit.edu	37	chr12	994221	994221	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtagtttcaagtatcacAatacctgcagttgtctcaat	12	13	7	9	1	3	0	3	0	1	0	4	0	3	0	1	0	3	5	1	0	6	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:994221A>G	uc001qio.3	+	19	4758	c.4251A>G	c.(4249-4251)ACA>ACG	p.T1417T	WNK1_uc001qip.3_Silent_p.T1170T|WNK1_uc001qir.3_Silent_p.T590T	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1417					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CAAGTATCACAATACCTGCAG	0.478													28	274					0	0	0.005443	0	0		G	994221	G	G	994221	2	3	18	1	0	0	0	0	0	0	0	1	17403	117	5	3		3	WNK1	12	994221	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08		994221	132857674	193	13413											
CACNA1C	775	broad.mit.edu	37	chr12	2558191	2558191	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttacggtggaagcgttttTaaaagtaatcgcctatggac	11	14	10	6	3	0	0	0	0	0	0	1	2	0	2	1	3	2	2	1	3	6	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:2558191T>A	uc009zdu.1	+	4	840	c.527T>A	c.(526-528)TTA>TAA	p.L176*	CACNA1C_uc009zdv.1_Nonsense_Mutation_p.L176*|CACNA1C_uc001qkb.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qkc.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qke.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qkf.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qjz.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qkd.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qkg.2_Nonsense_Mutation_p.L176*|CACNA1C_uc009zdw.1_Nonsense_Mutation_p.L176*|CACNA1C_uc001qkh.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qkl.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qkn.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qko.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qkp.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qkr.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qku.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qkq.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qks.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qkt.2_Nonsense_Mutation_p.L176*|CACNA1C_uc001qka.1_5'UTR|CACNA1C_uc001qki.1_5'UTR|CACNA1C_uc001qkj.1_5'UTR|CACNA1C_uc001qkk.1_5'UTR|CACNA1C_uc001qkm.1_5'UTR	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	176	I.|Helical; Name=S2 of repeat I; (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GAAGCGTTTTTAAAAGTAATC	0.398													6	33					0	0	0.001984	0	0		A	2558191	A	A	2558191	4	1	18	1	0	0	0	0	0	1	0	0	2543	1764	61	5	541	5	CACNA1C	12	2558191	Nonsense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	1563970	2558191	131293704	194	13414											
IFFO1	25900	broad.mit.edu	37	chr12	6658964	6658964	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcagttgcgctgctgagcCacatcgcagagcttggcggt	6	9	14	12	4	0	2	0	1	0	1	2	2	0	2	1	2	4	6	1	2	0	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:6658964C>A	uc001qpd.1	-	4	1063	c.1029G>T	c.(1027-1029)GTG>GTT	p.V343V	IFFO1_uc001qoy.2_RNA|IFFO1_uc001qpa.1_5'Flank|IFFO1_uc001qpb.1_Silent_p.V20V|IFFO1_uc001qpe.1_RNA|IFFO1_uc010sfe.1_Silent_p.V343V|IFFO1_uc001qpf.1_Silent_p.V343V|IFFO1_uc001qoz.1_5'Flank|IFFO1_uc001qpc.1_Silent_p.V343V|IFFO1_uc001qpg.2_5'Flank	NM_080730	NP_542768	Q0D2I5	IFFO1_HUMAN	intermediate filament family orphan isoform 2	343						intermediate filament					0						GCTGCTGAGCCACATCGCAGA	0.597													12	50					1.52009e-12	1.80717e-12	0.003163	1	0		A	6658964	A	A	6658964	2	1	18	1	0	0	0	0	0	0	0	1	7526	581	21	5		5	IFFO1	12	6658964	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	4100773	6658964	127192931	195	13415											
NANOG	79923	broad.mit.edu	37	chr12	7945604	7945604	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagccctgattcttccacCagtcccaaaggcaaacaacc	13	6	6	16	0	1	1	0	1	1	0	3	2	3	1	5	1	3	1	5	1	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:7945604C>G	uc009zfy.1	+	2	426	c.210C>G	c.(208-210)ACC>ACG	p.T70T		NM_024865	NP_079141	Q9H9S0	NANOG_HUMAN	Nanog homeobox	70					cell proliferation|embryo development|somatic stem cell maintenance	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				Kidney(36;0.0872)		ATTCTTCCACCAGTCCCAAAG	0.443													9	258					0	0	0.001855	0	0		G	7945604	G	G	7945604	2	3	18	1	0	0	0	0	0	0	0	1	10168	581	21	5		5	NANOG	12	7945604	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	1286640	7945604	125906291	196	13416											
CLEC1B	51266	broad.mit.edu	37	chr12	10150965	10150965	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcacacgccaccaggaggAggatgcagagccaactgtag	13	4	12	12	1	1	1	1	0	0	1	1	4	1	4	3	3	3	2	3	3	2	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:10150965A>C	uc001qwu.2	-	2	279	c.79T>G	c.(79-81)TCC>GCC	p.S27A	CLEC1B_uc009zhd.2_Intron	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform	27	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0						CACCAGGAGGAGGATGCAGAG	0.557													8	180					0	0	0.00308	0	0		C	10150965	C	C	10150965	3	2	18	1	0	0	0	0	1	0	0	0	3509	304	11	5	630	5	CLEC1B	12	10150965	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	2205361	10150965	123700930	197	13417											
KIAA1467	57613	broad.mit.edu	37	chr12	13221366	13221366	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accttactgggcattgagacTtcaaggcctgcgcaggtttg	8	11	12	10	1	1	1	1	1	0	1	1	2	1	1	2	3	2	3	2	3	2	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:13221366T>G	uc001rbi.2	+	8	1294	c.1271T>G	c.(1270-1272)CTT>CGT	p.L424R	KIAA1467_uc009zhx.1_RNA	NM_020853	NP_065904	A2RU67	K1467_HUMAN	hypothetical protein LOC57613	424						integral to membrane				central_nervous_system(2)|skin(1)	3		Prostate(47;0.184)		BRCA - Breast invasive adenocarcinoma(232;0.157)		GCATTGAGACTTCAAGGCCTG	0.458													67	199					0	0	0.01441	0	0		G	13221366	G	G	13221366	3	3	18	1	0	0	0	0	1	0	0	0	8251	1609	56	5	1301	5	KIAA1467	12	13221366	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	3070401	13221366	120630529	198	13418											
ABCC9	10060	broad.mit.edu	37	chr12	21962818	21962818	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagagatttgaccatattcTtcagctgagcaatttctaag	12	14	8	7	0	3	3	1	2	2	1	3	4	3	3	1	0	2	3	1	0	4	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:21962818T>A	uc001rfi.1	-	35	4303	c.4283A>T	c.(4282-4284)AAG>ATG	p.K1428M	ABCC9_uc001rfh.2_Missense_Mutation_p.K1428M|ABCC9_uc001rfj.1_Missense_Mutation_p.K1392M|ABCC9_uc001rfg.2_5'Flank	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1428	Cytoplasmic (Potential).|ABC transporter 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GACCATATTCTTCAGCTGAGC	0.333													52	161					0	0	0.01441	0	0		A	21962818	A	A	21962818	3	1	18	1	0	0	0	0	1	0	0	0	59	1609	56	5	524	5	ABCC9	12	21962818	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	8741452	21962818	111889077	199	13419											
ABCC9	10060	broad.mit.edu	37	chr12	21970208	21970208	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggacctccaggtcagccaAgttcctcacaacccaattca	11	8	6	16	0	3	0	3	0	0	0	5	1	5	1	5	2	2	1	5	2	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:21970208A>T	uc001rfi.1	-	31	3825	c.3805T>A	c.(3805-3807)TTG>ATG	p.L1269M	ABCC9_uc001rfh.2_Missense_Mutation_p.L1269M|ABCC9_uc001rfj.1_Missense_Mutation_p.L1233M	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1269	Cytoplasmic (Potential).|ABC transmembrane type-1 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AGGTCAGCCAAGTTCCTCACA	0.383													49	179					0	0	0.01441	0	0		T	21970208	T	T	21970208	3	4	18	1	0	0	0	0	1	0	0	0	59	69	3	5	1018	5	ABCC9	12	21970208	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	7390	21970208	111881687	200	13420											
CNTN1	1272	broad.mit.edu	37	chr12	41333276	41333276	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaagggacagagtggcttgtCaatagcagcaggtcagtgct	12	8	14	7	0	2	1	2	0	0	1	2	2	2	2	0	3	3	4	0	3	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:41333276C>G	uc001rmm.1	+	12	1481	c.1368C>G	c.(1366-1368)GTC>GTG	p.V456V	CNTN1_uc009zjy.1_Silent_p.V456V|CNTN1_uc001rmn.1_Silent_p.V445V|CNTN1_uc001rmo.2_Silent_p.V456V	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	456	Ig-like C2-type 5.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				AGTGGCTTGTCAATAGCAGCA	0.363													24	52					0	0	0.00278	0	0		G	41333276	G	G	41333276	2	3	18	1	0	0	0	0	0	0	0	1	3643	813	29	5		5	CNTN1	12	41333276	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	19363068	41333276	92518619	201	13421											
PDZRN4	29951	broad.mit.edu	37	chr12	41900462	41900462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatggctctggccaagcttCgtccacctacccctccagtg	6	10	8	17	1	2	0	1	0	1	0	5	0	4	0	6	2	2	2	6	2	2	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:41900462C>T	uc010skn.1	+	4	519	c.451C>T	c.(451-453)CGT>TGT	p.R151C	PDZRN4_uc001rmq.3_Missense_Mutation_p.R92C|PDZRN4_uc009zjz.2_Missense_Mutation_p.R90C|PDZRN4_uc001rmr.2_5'Flank	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	350							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				GGCCAAGCTTCGTCCACCTAC	0.488													9	127					0	0	0.006214	0	0		T	41900462	T	T	41900462	3	4	18	1	0	0	0	0	1	0	0	0	11729	884	31	1	1135	1	PDZRN4	12	41900462	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	567186	41900462	91951433	202	13422											
SLC38A4	55089	broad.mit.edu	37	chr12	47172136	47172136	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aaaagcaaatactaggatagGaattgcataggccgtctgaa	17	8	10	6	1	1	1	0	1	1	0	1	3	1	3	1	3	3	2	1	3	9	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:47172136G>C	uc001rpi.2	-	12	1408	c.1009C>G	c.(1009-1011)CCT>GCT	p.P337A	SLC38A4_uc001rpj.2_Missense_Mutation_p.P337A	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	337	Helical; (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Lung SC(27;0.192)|Renal(347;0.236)					ACTAGGATAGGAATTGCATAG	0.393													21	94					0	0	0.010504	0	0		C	47172136	C	C	47172136	3	2	18	1	0	0	0	0	1	0	0	0	14631	1174	41	5	658	5	SLC38A4	12	47172136	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	5271674	47172136	86679759	203	13423											
TMEM106C	79022	broad.mit.edu	37	chr12	48361948	48361948	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttcatacattggcctcaTgacccagagctccttggaga	10	11	9	11	0	2	3	2	1	0	2	3	5	3	3	3	2	2	1	3	2	1	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:48361948T>A	uc001rqp.2	+	8	804	c.689T>A	c.(688-690)ATG>AAG	p.M230K	TMEM106C_uc001rqo.2_Missense_Mutation_p.M211K|TMEM106C_uc001rqr.2_Missense_Mutation_p.M230K|TMEM106C_uc001rqq.2_Missense_Mutation_p.M211K	NM_024056	NP_076961	Q9BVX2	T106C_HUMAN	transmembrane protein 106C isoform a	230						endoplasmic reticulum membrane|integral to membrane					0		Acute lymphoblastic leukemia(13;0.11)		GBM - Glioblastoma multiforme(48;0.241)		ATTGGCCTCATGACCCAGAGC	0.413													39	358					0	0	0.01441	0	0		A	48361948	A	A	48361948	3	1	18	1	0	0	0	0	1	0	0	0	16047	1464	51	5	715	5	TMEM106C	12	48361948	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	1189812	48361948	85489947	204	13424											
KRT72	140807	broad.mit.edu	37	chr12	52981470	52981470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcgatctccatatccagggCcagcttcaggctcacgagct	8	8	11	14	2	3	0	2	0	1	0	5	2	4	0	3	3	2	3	3	3	1	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:52981470C>T	uc001sar.2	-	7	1341	c.1255G>A	c.(1255-1257)GCC>ACC	p.A419T	KRT72_uc001saq.2_Missense_Mutation_p.A419T|KRT72_uc010sns.1_Missense_Mutation_p.A377T|KRT72_uc010snt.1_Missense_Mutation_p.A231T	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	419	Coil 2.|Rod.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		ATATCCAGGGCCAGCTTCAGG	0.642													56	87					0	0	0.01441	0	0		T	52981470	T	T	52981470	3	4	18	1	0	0	0	0	1	0	0	0	8501	739	26	2	292	2	KRT72	12	52981470	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	4619522	52981470	80870425	205	13425											
KRT18	3875	broad.mit.edu	37	chr12	53346603	53346603	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggtgtctgagaccaatGacaccaaagttctgaggcat	13	9	11	8	0	2	3	0	3	2	1	2	4	2	3	2	2	0	2	2	2	3	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:53346603G>T	uc001sbe.2	+	8	1339	c.1270G>T	c.(1270-1272)GAC>TAC	p.D424Y	KRT18_uc009zmn.1_3'UTR|KRT18_uc001sbf.1_3'UTR|KRT18_uc001sbg.2_Missense_Mutation_p.D424Y|KRT18_uc009zmo.2_3'UTR	NM_199187	NP_954657	P05783	K1C18_HUMAN	keratin 18	424	Tail.				anatomical structure morphogenesis|cell cycle|Golgi to plasma membrane CFTR protein transport|interspecies interaction between organisms|negative regulation of apoptosis	centriolar satellite|keratin filament|perinuclear region of cytoplasm	protein binding|structural molecule activity			skin(1)	1						TGAGACCAATGACACCAAAGT	0.502													7	66					1.6384e-10	1.92989e-10	0.001984	1	0		T	53346603	T	T	53346603	3	4	18	1	0	0	0	0	1	0	0	0	8471	1290	45	5	1296	5	KRT18	12	53346603	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	365133	53346603	80505292	206	13426											
ERBB3	2065	broad.mit.edu	37	chr12	56492652	56492652	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagcggttggcacagccccaGatctgcacaattgatgtcta	10	9	11	11	1	2	2	0	1	2	1	2	3	2	2	2	2	3	3	2	2	2	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:56492652G>C	uc001sjh.2	+	23	2995	c.2802G>C	c.(2800-2802)CAG>CAC	p.Q934H	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Missense_Mutation_p.Q291H|ERBB3_uc010sqc.1_Missense_Mutation_p.Q875H|ERBB3_uc009zok.2_Missense_Mutation_p.Q199H|ERBB3_uc001sjk.2_Missense_Mutation_p.Q175H|ERBB3_uc001sjl.2_Missense_Mutation_p.Q54H	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	934	Cytoplasmic (Potential).|Protein kinase.				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CACAGCCCCAGATCTGCACAA	0.453													10	181					0	0	0.006214	0	0		C	56492652	C	C	56492652	3	2	18	1	0	0	0	0	1	0	0	0	5216	933	33	5	3023	5	ERBB3	12	56492652	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	3146049	56492652	77359243	207	13427											
C12orf12	196477	broad.mit.edu	37	chr12	91348107	91348107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccccagcgcttcttcctgCctgggggcttcacccagcca	4	8	11	18	1	2	0	1	0	1	0	3	0	3	0	6	3	3	2	6	3	0	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:91348107C>T	uc001tbj.2	-	1	847	c.413G>A	c.(412-414)GGC>GAC	p.G138D		NM_152638	NP_689851	Q8TC90	CL012_HUMAN	hypothetical protein LOC196477	138										central_nervous_system(1)|pancreas(1)	2						CTTCTTCCTGCCTGGGGGCTT	0.701													15	34					0	0	0.003163	0	0		T	91348107	T	T	91348107	3	4	18	1	0	0	0	0	1	0	0	0	1679	739	26	2	811	2	C12orf12	12	91348107	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	34855455	91348107	42503788	208	13428											
NUP37	79023	broad.mit.edu	37	chr12	102471233	102471233	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agataaaatagcctgttgggCcaaaagatcataaaaccgga	18	7	9	7	1	1	2	1	0	0	2	1	3	1	3	3	2	2	1	3	2	7	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:102471233C>G	uc001tjc.2	-	6	654	c.589G>C	c.(589-591)GCC>CCC	p.A197P	NUP37_uc009zub.1_Missense_Mutation_p.A197P	NM_024057	NP_076962	Q8NFH4	NUP37_HUMAN	nucleoporin 37kDa	197	WD 3.				carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			ovary(1)	1						GCCTGTTGGGCCAAAAGATCA	0.373													5	183					0	0	0.000602	0	0		G	102471233	G	G	102471233	3	3	18	1	0	0	0	0	1	0	0	0	10783	739	26	5	407	5	NUP37	12	102471233	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	11123126	102471233	31380662	209	13429											
DDX54	79039	broad.mit.edu	37	chr12	113617046	113617046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgtgggtcttgagccgctCgaacattgggaggaggaagc	9	8	16	8	2	1	1	0	1	1	0	2	5	1	4	1	4	3	1	1	4	2	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:113617046C>T	uc001tup.2	-	4	494	c.466G>A	c.(466-468)GAG>AAG	p.E156K	DDX54_uc001tuq.3_Missense_Mutation_p.E156K	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	156	Helicase ATP-binding.				estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						TTGAGCCGCTCGAACATTGGG	0.652													16	44					0	0	0.00499	0	0		T	113617046	T	T	113617046	3	4	18	1	0	0	0	0	1	0	0	0	4375	893	31	1	2250	1	DDX54	12	113617046	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	11145813	113617046	20234849	210	13430											
ZNF268	10795	broad.mit.edu	37	chr12	133780428	133780428	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatacatatgagaactcataCaggagagaaaccacatgagt	18	8	8	7	0	1	3	1	2	0	2	1	6	1	4	1	1	4	0	1	1	6	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr12:133780428C>A	uc010tcf.1	+	6	2486	c.2156C>A	c.(2155-2157)ACA>AAA	p.T719K	ZNF268_uc010tbv.1_Missense_Mutation_p.T558K|ZNF268_uc010tbw.1_Missense_Mutation_p.T558K|ZNF268_uc010tbx.1_Missense_Mutation_p.T579K|ZNF268_uc010tby.1_Missense_Mutation_p.T558K|ZNF268_uc010tbz.1_Missense_Mutation_p.T558K|ZNF268_uc010tca.1_Missense_Mutation_p.T558K|ZNF268_uc010tcb.1_Missense_Mutation_p.T579K|ZNF268_uc010tcc.1_Missense_Mutation_p.T558K|ZNF268_uc010tcd.1_Missense_Mutation_p.T558K|ZNF268_uc010tce.1_Missense_Mutation_p.T558K|ZNF268_uc010tcg.1_Missense_Mutation_p.T558K|ZNF268_uc010tch.1_Missense_Mutation_p.T719K	NM_003415	NP_003406	Q14587	ZN268_HUMAN	zinc finger protein 268 isoform a	719						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.000215)|all_epithelial(31;0.096)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		AGAACTCATACAGGAGAGAAA	0.418													6	7					0.00116845	0.00128932	0.001168	1	0		A	133780428	A	A	133780428	3	1	18	1	0	0	0	0	1	0	0	0	17832	478	17	5		5	ZNF268	12	133780428	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	20163382	133780428	71467	211	13431											
MTUS2	23281	broad.mit.edu	37	chr13	29600629	29600629	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgccccagtgggatcccCaagcctgtcttcacacattc	8	10	7	16	0	2	0	1	0	1	0	4	1	3	1	5	1	2	0	5	1	1	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr13:29600629C>A	uc001usl.3	+	1	1882	c.1824C>A	c.(1822-1824)CCC>CCA	p.P608P		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	598						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						GTGGGATCCCCAAGCCTGTCT	0.537													6	55					5.18039e-06	5.81658e-06	0.00308	1	0		A	29600629	A	A	29600629	2	1	18	1	0	0	0	0	0	0	0	1	9984	581	21	5		5	MTUS2	13	29600629	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08		29600629	85569249	212	13432											
STARD13	90627	broad.mit.edu	37	chr13	33700296	33700296	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtcccgttctttggacGtggactatgagaggaacgcc	7	10	14	10	3	1	1	0	1	1	1	2	5	2	4	2	4	1	2	2	4	2	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr13:33700296G>C	uc001uuw.2	-	7	2130	c.2004C>G	c.(2002-2004)CAC>CAG	p.H668Q	STARD13_uc001uuu.2_Missense_Mutation_p.H660Q|STARD13_uc001uuv.2_Missense_Mutation_p.H550Q|STARD13_uc001uux.2_Missense_Mutation_p.H633Q|STARD13_uc010tec.1_RNA	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	668	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		TTCTTTGGACGTGGACTATGA	0.498													104	164					0	0	0.01441	0	0		C	33700296	C	C	33700296	3	2	18	1	0	0	0	0	1	0	0	0	15281	1136	40	5	1369	5	STARD13	13	33700296	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	4099667	33700296	81469582	213	13433											
ZC3H13	23091	broad.mit.edu	37	chr13	46542897	46542897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattacctgaagaagtacttCgactgggttctccacgcttt	9	14	8	10	2	1	2	0	1	1	1	3	3	1	2	2	1	2	3	2	1	5	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr13:46542897C>T	uc010tfw.1	-	13	3788	c.3782G>A	c.(3781-3783)CGA>CAA	p.R1261Q	ZC3H13_uc001vaq.2_5'Flank|ZC3H13_uc001vas.1_Missense_Mutation_p.R1261Q|ZC3H13_uc001vat.1_Missense_Mutation_p.R1261Q	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	1261	Ser-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		AGAAGTACTTCGACTGGGTTC	0.348													66	269					0	0	0.01441	0	0		T	46542897	T	T	46542897	3	4	18	1	0	0	0	0	1	0	0	0	17590	884	31	1	928	1	ZC3H13	13	46542897	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	12842601	46542897	68626981	214	13434											
LMO7	4008	broad.mit.edu	37	chr13	76417012	76417012	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgattcctatgatataccaAagacagaagaagcatcttca	16	11	6	8	0	2	5	1	2	1	3	3	5	3	5	2	0	2	1	2	0	6	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr13:76417012A>G	uc001vjv.2	+	22	4118	c.3358A>G	c.(3358-3360)AAG>GAG	p.K1120E	LMO7_uc010thv.1_Missense_Mutation_p.K1071E|LMO7_uc001vjt.1_Missense_Mutation_p.K1019E|LMO7_uc010thw.1_Missense_Mutation_p.K997E|LMO7_uc001vjw.1_Missense_Mutation_p.K1026E	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	1405						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		TGATATACCAAAGACAGAAGA	0.343													76	160					0	0	0.01441	0	0		G	76417012	G	G	76417012	3	3	18	1	0	0	0	0	1	0	0	0	8872	15	1	3	4315	3	LMO7	13	76417012	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	29874115	76417012	38752866	215	13435											
RNF219	79596	broad.mit.edu	37	chr13	79190393	79190393	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gataaacataagcctgatttCtcactcaattttgaagatat	15	14	5	7	0	2	3	2	2	1	1	3	4	2	3	1	0	2	0	1	0	6	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr13:79190393C>T	uc001vkw.1	-	6	1562	c.1503G>A	c.(1501-1503)GAG>GAA	p.E501E	uc001vku.1_RNA|RNF219_uc010afb.1_Silent_p.E311E|RNF219_uc010afc.2_Intron	NM_024546	NP_078822	Q5W0B1	RN219_HUMAN	ring finger protein 219	501	Ser-rich.						zinc ion binding			large_intestine(2)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.0414)		AGCCTGATTTCTCACTCAATT	0.388													11	163					0	0	0.008291	0	0		T	79190393	T	T	79190393	2	4	18	1	0	0	0	0	0	0	0	1	13507	912	32	4		4	RNF219	13	79190393	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	2773381	79190393	35979485	216	13436											
ABCC4	10257	broad.mit.edu	37	chr13	95861791	95861791	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctatctccatccagagtaGggcagtcactgcaatcgcct	9	10	8	14	1	2	1	1	0	1	1	6	1	4	1	4	1	1	3	4	1	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr13:95861791G>T	uc001vmd.3	-	6	801	c.682C>A	c.(682-684)CTA>ATA	p.L228I	ABCC4_uc010afk.2_Missense_Mutation_p.L228I|ABCC4_uc001vme.2_Missense_Mutation_p.L228I|ABCC4_uc010tih.1_Missense_Mutation_p.L153I|ABCC4_uc001vmf.2_Missense_Mutation_p.L185I|ABCC4_uc010afl.1_Missense_Mutation_p.L185I|ABCC4_uc010afm.1_Missense_Mutation_p.L241I	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	228	Helical; (Potential).|ABC transmembrane type-1 1.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	ATCCAGAGTAGGGCAGTCACT	0.478													14	103					1.05317e-09	1.23298e-09	0.00245	1	0		T	95861791	T	T	95861791	3	4	18	1	0	0	0	0	1	0	0	0	55	991	35	5	3448	5	ABCC4	13	95861791	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	16671398	95861791	19308087	217	13437											
MYO16	23026	broad.mit.edu	37	chr13	109753232	109753233	+	Nonsense_Mutation	DNP	GC	AG	AG																															cagtgtaaattacaaggctgGcaggttggtgacctacaagc																										TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr13:109753232_109753233GC>AG	uc001vqt.1	+	28	3495_3496	c.3369_3370GC>AG	c.(3367-3372)TGGCAG>TGAGAG	p.1123_1124WQ>*E	MYO16_uc010agk.1_Nonsense_Mutation_p.1145_1146WQ>*E|MYO16_uc010tjh.1_Nonsense_Mutation_p.635_636WQ>*E	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1123_1124	Myosin head-like 2.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			TACAAGGCTGGCAGGTTGGTGA	0.446													20	44					0	0	0.004672	0	0		AG	109753233	AG	AG	109753232	4	1	18	1	0	0	0	0	0	1	0	0	10082	1212	42	2	3475	2	MYO16	13	109753232	Nonsense_Mutation	DNP	GC	TCGA-BR-4357-01A-01D-1158-08	13891441	109753232	5416646	218	13438											
C13orf28	122258	broad.mit.edu	37	chr13	113030779	113030779	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaactgagctccggccgaGaaccgtgattccaggtaggg	11	6	14	10	3	0	4	0	2	0	2	2	5	2	4	4	3	3	2	4	3	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr13:113030779G>T	uc001vsd.1	+	1	111	c.80G>T	c.(79-81)AGA>ATA	p.R27I		NM_145248	NP_660291	Q96KW9	SPAC7_HUMAN	hypothetical protein LOC122258 precursor	27						extracellular region					0	all_lung(23;0.000633)|Lung NSC(43;0.0161)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0997)|Medulloblastoma(90;0.163)					CTCCGGCCGAGAACCGTGATT	0.592													7	37					0.00198382	0.00218277	0.001984	1	0		T	113030779	T	T	113030779	3	4	18	1	0	0	0	0	1	0	0	0	1727	942	33	5	82	5	C13orf28	13	113030779	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	3277547	113030779	2139099	219	13439											
OR4K1	79544	broad.mit.edu	37	chr14	20404092	20404092	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagacttttttattgagcgCaagactatctcctttgaggg	9	15	10	7	1	1	4	0	2	1	2	2	4	1	4	1	1	1	2	1	1	4	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr14:20404092C>A	uc001vwj.1	+	1	267	c.267C>A	c.(265-267)CGC>CGA	p.R89R		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		TTATTGAGCGCAAGACTATCT	0.413													38	186					3.93418e-24	4.81123e-24	0.004289	1	0		A	20404092	A	A	20404092	2	1	18	1	0	0	0	0	0	0	0	1	11086	697	25	5		5	OR4K1	14	20404092	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08		20404092	86945448	220	13440											
TOX4	9878	broad.mit.edu	37	chr14	21960502	21960502	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaagagtatctgaaggcActggctgcttacaaagacaa	17	7	10	7	0	1	4	0	1	1	3	1	4	1	4	0	2	2	4	0	2	7	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr14:21960502A>C	uc001waz.2	+	6	961	c.858A>C	c.(856-858)GCA>GCC	p.A286A	TOX4_uc001way.2_Silent_p.A156A|TOX4_uc001wba.2_RNA|TOX4_uc010tlu.1_Silent_p.A263A|TOX4_uc010tlv.1_Silent_p.A156A	NM_014828	NP_055643	O94842	TOX4_HUMAN	epidermal Langerhans cell protein LCP1	286	HMG box.					chromatin|nucleus|PTW/PP1 phosphatase complex	DNA binding|protein binding			ovary(1)	1	all_cancers(95;0.000465)		Epithelial(56;6.61e-06)|all cancers(55;5.15e-05)	GBM - Glioblastoma multiforme(265;0.0149)		ATCTGAAGGCACTGGCTGCTT	0.373													81	133					0	0	0.01441	0	0		C	21960502	C	C	21960502	2	2	18	1	0	0	0	0	0	0	0	1	16406	146	6	5		5	TOX4	14	21960502	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	1556410	21960502	85389038	221	13441											
OR4E2	26686	broad.mit.edu	37	chr14	22133415	22133415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catttatatgctaacgctttCagggaacattctcatcatca	12	14	5	10	1	4	0	4	0	1	0	5	1	4	1	0	1	3	2	0	1	4	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr14:22133415C>T	uc010tmd.1	+	1	119	c.119C>T	c.(118-120)TCA>TTA	p.S40L		NM_001001912	NP_001001912	Q8NGC2	OR4E2_HUMAN	olfactory receptor, family 4, subfamily E,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	all_cancers(95;0.00113)	Acute lymphoblastic leukemia(2;0.0279)		GBM - Glioblastoma multiforme(265;0.0137)		CTAACGCTTTCAGGGAACATT	0.433													101	343					0	0	0.01441	0	0		T	22133415	T	T	22133415	3	4	18	1	0	0	0	0	1	0	0	0	11079	838	29	4	121	4	OR4E2	14	22133415	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	172913	22133415	85216125	222	13442											
FERMT2	10979	broad.mit.edu	37	chr14	53360060	53360060	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcaagtgcctcatcttcAgactggtcatctagcttctt	9	15	6	11	0	7	1	4	0	3	1	7	1	7	1	1	1	2	1	1	1	3	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr14:53360060A>G	uc001xad.2	-	4	532	c.477T>C	c.(475-477)TCT>TCC	p.S159S	FERMT2_uc001xac.2_Silent_p.S159S|FERMT2_uc001xae.2_Silent_p.S159S|FERMT2_uc001xaf.2_Silent_p.S159S	NM_006832	NP_006823	Q96AC1	FERM2_HUMAN	fermitin family homolog 2 isoform 1	159					actin cytoskeleton organization|cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytosol|focal adhesion|stress fiber	binding				0	Breast(41;0.0342)					CCTCATCTTCAGACTGGTCAT	0.398													6	167					0	0	0.00308	0	0		G	53360060	G	G	53360060	2	3	18	1	0	0	0	0	0	0	0	1	5832	175	7	3		3	FERMT2	14	53360060	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	31226645	53360060	53989480	223	13443											
EIF2S1	1965	broad.mit.edu	37	chr14	67831719	67831719	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgtcattagggtggacaaaGaaaaaggtaagtgagaaaaa	19	8	12	2	0	1	2	1	1	0	2	1	4	1	3	0	3	0	1	0	3	7	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr14:67831719G>C	uc001xjg.2	+	2	376	c.235G>C	c.(235-237)GAA>CAA	p.E79Q		NM_004094	NP_004085	P05198	IF2A_HUMAN	eukaryotic translation initiation factor 2,	79	S1 motif.					cytosol|eukaryotic translation initiation factor 2 complex|polysome|stress granule	protein binding|ribosome binding|translation initiation factor activity			ovary(1)	1				all cancers(60;0.000683)|OV - Ovarian serous cystadenocarcinoma(108;0.00579)|BRCA - Breast invasive adenocarcinoma(234;0.00937)		GGTGGACAAAGAAAAAGGTAA	0.318													26	108					0	0	0.003954	0	0		C	67831719	C	C	67831719	3	2	18	1	0	0	0	0	1	0	0	0	5015	943	33	5	237	5	EIF2S1	14	67831719	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	14471659	67831719	39517821	224	13444											
PCNX	22990	broad.mit.edu	37	chr14	71495432	71495432	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctagccactacaagcctgcTtgcagcactttacagtttta	10	13	6	12	0	1	0	0	0	1	0	1	0	1	0	2	0	7	4	2	0	5	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr14:71495432T>A	uc001xmo.2	+	16	3928	c.3482T>A	c.(3481-3483)CTT>CAT	p.L1161H	PCNX_uc010are.1_Missense_Mutation_p.L1050H|PCNX_uc010arf.1_Missense_Mutation_p.L21H	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1161	Helical; (Potential).					integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		ACAAGCCTGCTTGCAGCACTT	0.303													12	64					0	0	0.00245	0	0		A	71495432	A	A	71495432	3	1	18	1	0	0	0	0	1	0	0	0	11610	1609	56	5	3544	5	PCNX	14	71495432	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	3663713	71495432	35854108	225	13445											
KIAA1409	57578	broad.mit.edu	37	chr14	94060180	94060180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actggaagatgaggtttgaaGcaggtacctctgtgttagct	10	12	13	6	0	1	3	0	2	1	1	1	4	1	4	1	3	3	5	1	3	4	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr14:94060180G>A	uc001ybv.1	+	20	2739	c.2656G>A	c.(2656-2658)GCA>ACA	p.A886T	KIAA1409_uc001ybs.1_Missense_Mutation_p.A886T	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1063						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GAGGTTTGAAGCAGGTACCTC	0.463													37	105					0	0	0.006999	0	0		A	94060180	A	A	94060180	3	1	18	1	0	0	0	0	1	0	0	0	8246	971	34	2	2734	2	KIAA1409	14	94060180	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	22564748	94060180	13289360	226	13446											
ATG2B	55102	broad.mit.edu	37	chr14	96797882	96797882	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggagataaaggatcaaTgtgaagcacagagattgaaa	18	7	13	3	0	1	4	1	2	0	2	1	7	1	5	0	3	1	1	0	3	5	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr14:96797882T>C	uc001yfi.2	-	11	1926	c.1561A>G	c.(1561-1563)ATT>GTT	p.I521V		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	521										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		AAAGGATCAATGTGAAGCACA	0.388													7	136					0	0	0.001984	0	0		C	96797882	C	C	96797882	3	2	18	1	0	0	0	0	1	0	0	0	1095	1464	51	3	4803	3	ATG2B	14	96797882	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	2737702	96797882	10551658	227	13447											
GABRB3	2562	broad.mit.edu	37	chr15	26793220	26793220	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcgccaatgccgcctgagAcctcattcatttcattgtga	9	13	7	12	2	3	2	3	2	0	1	4	3	3	2	4	0	1	0	4	0	2	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr15:26793220A>T	uc001zaz.2	-	9	1284	c.1142T>A	c.(1141-1143)GTC>GAC	p.V381D	GABRB3_uc010uae.1_Missense_Mutation_p.V296D|GABRB3_uc001zba.2_Missense_Mutation_p.V381D|GABRB3_uc001zbb.2_Missense_Mutation_p.V437D	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	381	Cytoplasmic (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	GCCGCCTGAGACCTCATTCAT	0.473													52	200					0	0	0.01441	0	0		T	26793220	T	T	26793220	3	4	18	1	0	0	0	0	1	0	0	0	6182	275	10	5	283	5	GABRB3	15	26793220	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08		26793220	75738172	228	13448											
RYR3	6263	broad.mit.edu	37	chr15	34049680	34049680	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgcgtttcccaggttcTcctcccgctggttgaccagt	3	13	11	14	2	1	1	0	1	1	0	4	1	3	1	4	3	1	4	4	3	0	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr15:34049680T>C	uc001zhi.2	+	60	8658	c.8588T>C	c.(8587-8589)CTC>CCC	p.L2863P	RYR3_uc010bar.2_Missense_Mutation_p.L2863P	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2863	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TCCCAGGTTCTCCTCCCGCTG	0.463													9	4					0	0	0.004482	0	0		C	34049680	C	C	34049680	3	2	18	1	0	0	0	0	1	0	0	0	13795	1551	54	3	8826	3	RYR3	15	34049680	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	7256460	34049680	68481712	229	13449											
TTBK2	146057	broad.mit.edu	37	chr15	43045268	43045268	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagccccaaatctgttctgcTtcctccactaggaggttcac	9	11	7	14	0	3	0	1	0	2	0	5	1	5	1	4	2	2	3	4	2	3	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr15:43045268T>C	uc001zqo.2	-	14	2615	c.2176A>G	c.(2176-2178)AGC>GGC	p.S726G	TTBK2_uc010bcy.2_Missense_Mutation_p.S657G	NM_173500	NP_775771	Q6IQ55	TTBK2_HUMAN	tau tubulin kinase 2	726					cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)		TCTGTTCTGCTTCCTCCACTA	0.458													11	242					0	0	0.010729	0	0		C	43045268	C	C	43045268	3	2	18	1	0	0	0	0	1	0	0	0	16703	1609	56	3	1566	3	TTBK2	15	43045268	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	8995588	43045268	59486124	230	13450											
SEMA6D	80031	broad.mit.edu	37	chr15	48062707	48062707	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcaggtgtacgatgggaAgtccagtctggagagtccaa	11	10	13	7	1	2	1	1	0	1	1	4	4	4	2	2	3	1	1	2	3	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr15:48062707A>G	uc010bek.2	+	19	2307	c.1947A>G	c.(1945-1947)GAA>GAG	p.E649E	SEMA6D_uc001zvw.2_Silent_p.E587E|SEMA6D_uc001zvy.2_Silent_p.E649E|SEMA6D_uc001zvz.2_Silent_p.E593E|SEMA6D_uc001zwa.2_Missense_Mutation_p.K586R|SEMA6D_uc001zwb.2_Silent_p.E587E|SEMA6D_uc001zwc.2_Silent_p.E574E	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	649	Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		TACGATGGGAAGTCCAGTCTG	0.438													45	146					0	0	0.01441	0	0		G	48062707	G	G	48062707	2	3	18	1	0	0	0	0	0	0	0	1	14067	72	3	3		3	SEMA6D	15	48062707	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	5017439	48062707	54468685	231	13451											
KIAA1199	57214	broad.mit.edu	37	chr15	81176529	81176529	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttaggtttgacacctatAgatccaagaaagagagtgaa	15	12	9	5	0	0	5	0	2	0	3	1	6	1	5	2	1	0	1	2	1	6	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr15:81176529A>G	uc002bfw.1	+	6	891	c.631A>G	c.(631-633)AGA>GGA	p.R211G	KIAA1199_uc010unn.1_Missense_Mutation_p.R211G	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	211										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						TGACACCTATAGATCCAAGAA	0.473													102	121					0	0	0.01441	0	0		G	81176529	G	G	81176529	3	3	18	1	0	0	0	0	1	0	0	0	8229	412	15	3	649	3	KIAA1199	15	81176529	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	33113822	81176529	21354863	232	13452											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84488751	84488751	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaaggtactggatggaacTcgttgcaacacggactcctt	10	10	10	11	2	0	0	0	0	0	0	2	3	1	3	2	4	4	3	2	4	4	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr15:84488751T>G	uc002bjz.3	+	6	776	c.552T>G	c.(550-552)ACT>ACG	p.T184T	ADAMTSL3_uc002bjy.1_Silent_p.T184T|ADAMTSL3_uc010bmt.1_Silent_p.T184T|ADAMTSL3_uc010bmu.1_Silent_p.T184T	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	184						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			TGGATGGAACTCGTTGCAACA	0.522													14	66					0	0	0.004007	0	0		G	84488751	G	G	84488751	2	3	18	1	0	0	0	0	0	0	0	1	276	1538	54	5		5	ADAMTSL3	15	84488751	Silent	SNP	T	TCGA-BR-4357-01A-01D-1158-08	3312222	84488751	18042641	233	13453											
SPATA8	145946	broad.mit.edu	37	chr15	97327407	97327407	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtcgcgacatttctcagaAgccatgacatgtccctgcgg	8	10	10	13	4	1	2	1	1	1	1	5	3	2	2	2	1	2	0	2	1	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr15:97327407A>C	uc002bue.2	+	2	324	c.114A>C	c.(112-114)GAA>GAC	p.E38D	uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8	38										ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			ATTTCTCAGAAGCCATGACAT	0.592													5	131					0	0	0.000602	0	0		C	97327407	C	C	97327407	3	2	18	1	0	0	0	0	1	0	0	0	15040	69	3	5	120	5	SPATA8	15	97327407	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	12838656	97327407	5203985	234	13454											
ABCA3	21	broad.mit.edu	37	chr16	2347452	2347452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtggtcagcacgatggtgCggtcacttttctgccgctga	5	11	15	10	3	3	1	2	1	1	0	3	2	3	1	1	4	3	2	1	4	0	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr16:2347452C>T	uc002cpy.1	-	17	2853	c.2141G>A	c.(2140-2142)CGC>CAC	p.R714H	ABCA3_uc010bsk.1_Missense_Mutation_p.R656H|ABCA3_uc010bsl.1_Missense_Mutation_p.R714H	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	714	ABC transporter 1.				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				CACGATGGTGCGGTCACTTTT	0.632													105	128					0	0	0.01441	0	0		T	2347452	T	T	2347452	3	4	18	1	0	0	0	0	1	0	0	0	33	768	27	1	3041	1	ABCA3	16	2347452	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08		2347452	88007301	235	13455											
CLEC16A	23274	broad.mit.edu	37	chr16	11114066	11114066	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagagatcgagatggtgatCatggagcgtagcaagctctc	11	8	13	9	2	2	3	1	1	1	2	4	6	2	4	1	2	3	3	1	2	2	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr16:11114066C>T	uc002dao.2	+	12	1550	c.1320C>T	c.(1318-1320)ATC>ATT	p.I440I	CLEC16A_uc002dan.3_Silent_p.I422I	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	440								p.0?(1)		ovary(1)|central_nervous_system(1)	2						AGATGGTGATCATGGAGCGTA	0.537													17	139					0	0	0.008871	0	0		T	11114066	T	T	11114066	2	4	18	1	0	0	0	0	0	0	0	1	3503	816	29	4		4	CLEC16A	16	11114066	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	8766614	11114066	79240687	236	13456											
LDHD	197257	broad.mit.edu	37	chr16	75148041	75148041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccacgaagagccccgtgaGgttgtagccggctgcactct	7	7	13	14	3	1	2	0	1	1	1	1	3	1	2	4	2	3	4	4	2	2	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr16:75148041G>A	uc002fdm.2	-	6	768	c.721C>T	c.(721-723)CTC>TTC	p.L241F	LDHD_uc002fdn.2_Missense_Mutation_p.L218F	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	241	FAD-binding PCMH-type.						D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						AGCCCCGTGAGGTTGTAGCCG	0.652													16	375					0	0	0.008871	0	0		A	75148041	A	A	75148041	3	1	18	1	0	0	0	0	1	0	0	0	8719	1000	35	4	826	4	LDHD	16	75148041	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	64033975	75148041	15206712	237	13457											
C17orf81	23587	broad.mit.edu	37	chr17	7160303	7160303	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accctgggcggtaccatgggCcaggcctcggcccacatcct	6	6	12	17	2	0	0	0	0	0	0	2	0	1	0	6	5	1	1	6	5	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:7160303C>A	uc002gfg.1	+	6	692	c.585C>A	c.(583-585)GGC>GGA	p.G195G	C17orf81_uc002gfj.2_Silent_p.G195G|C17orf81_uc010cmb.2_Silent_p.G195G|C17orf81_uc002gfh.1_Silent_p.G195G|C17orf81_uc002gfi.1_Silent_p.G195G|C17orf81_uc002gfl.1_Silent_p.G195G	NM_203415	NP_981960	Q8TE02	DERP6_HUMAN	S-phase 2 protein isoform 4	195					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding				0						GTACCATGGGCCAGGCCTCGG	0.612													31	25					1.06801e-11	1.26579e-11	0.009535	1	0		A	7160303	A	A	7160303	2	1	18	1	0	0	0	0	0	0	0	1	1889	726	26	5		5	C17orf81	17	7160303	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08		7160303	74034907	238	13458											
TP53	7157	broad.mit.edu	37	chr17	7577538	7577538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggtgaggatgggcctcCggttcatgccgcccatgcag	6	9	15	11	2	1	2	1	2	0	0	2	3	2	3	4	4	2	2	4	4	0	1	rs11540652		TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:7577538C>T	uc002gim.2	-	7	937	c.743G>A	c.(742-744)CGG>CAG	p.R248Q	TP53_uc002gig.1_Missense_Mutation_p.R248Q|TP53_uc002gih.2_Missense_Mutation_p.R248Q|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R116Q|TP53_uc010cng.1_Missense_Mutation_p.R116Q|TP53_uc002gii.1_Missense_Mutation_p.R116Q|TP53_uc010cnh.1_Missense_Mutation_p.R248Q|TP53_uc010cni.1_Missense_Mutation_p.R248Q|TP53_uc002gij.2_Missense_Mutation_p.R248Q|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R155Q|TP53_uc002gio.2_Missense_Mutation_p.R116Q	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	248	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		R -> W (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|NR -> KW (in sporadic cancers; somatic mutation).|R -> C (in a sporadic cancer; somatic mutation).|NR -> IP (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R248Q(523)|p.R248W(443)|p.R248L(63)|p.R248P(12)|p.R248G(11)|p.R248R(10)|p.0?(7)|p.R155Q(4)|p.N247_R248delNR(2)|p.N247_R248>KW(2)|p.M246_P250delMNRRP(2)|p.R248fs*97(2)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.N247_P250delNRRP(1)|p.R249fs*96(1)|p.R248C(1)|p.G245fs*14(1)|p.N247_R248>IP(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GATGGGCCTCCGGTTCATGCC	0.572	R248Q(KASUMI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HS683_CENTRAL_NERVOUS_SYSTEM)|R248Q(NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HCC1143_BREAST)|R248Q(BL41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SKUT1_SOFT_TISSUE)|R248Q(HSC4_UPPER_AERODIGESTIVE_TRACT)|R248Q(HEC1A_ENDOMETRIUM)|R248Q(SF295_CENTRAL_NERVOUS_SYSTEM)|R248Q(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(WSUDLCL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIN87_STOMACH)|R248Q(P12ICHIKAWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(RT112_URINARY_TRACT)|R248Q(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PANC0203_PANCREAS)|R248Q(EM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(CI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(MOLM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NIHOVCAR3_OVARY)|R248Q(CA46_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SW1463_LARGE_INTESTINE)|R248Q(HCC70_BREAST)|R248Q(KYSE150_OESOPHAGUS)|R248Q(NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIH211_LUNG)|R248Q(KYO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PC14_LUNG)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			77	38					0	0	0.01441	0	0		T	7577538	T	T	7577538	3	4	18	1	0	0	0	0	1	0	0	0	16407	652	23	1	547	1	TP53	17	7577538	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	417235	7577538	73617672	239	13459											
DNAH9	1770	broad.mit.edu	37	chr17	11684396	11684396	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccagggaacaagaaactcatCtatttcattgatgacatgaa	16	10	7	8	0	3	4	2	3	1	1	3	5	3	5	1	1	2	0	1	1	5	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:11684396C>G	uc002gne.2	+	39	7691	c.7623C>G	c.(7621-7623)ATC>ATG	p.I2541M	DNAH9_uc010coo.2_Missense_Mutation_p.I1835M	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2541	AAA 3 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AGAAACTCATCTATTTCATTG	0.552													4	49					0	0	0.000602	0	0		G	11684396	G	G	11684396	3	3	18	1	0	0	0	0	1	0	0	0	4614	903	32	5	7777	5	DNAH9	17	11684396	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	4106858	11684396	69510814	240	13460											
NCOR1	9611	broad.mit.edu	37	chr17	16068476	16068476	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctccgaatgctggatcCtttagagaataaaaccaaga	14	10	8	9	1	0	2	0	0	0	2	2	5	2	3	4	1	3	1	4	1	6	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:16068476C>A	uc002gpo.2	-	5	676	c.436_splice	c.e5-1	p.D146_splice	NCOR1_uc002gpn.2_Splice_Site_p.D146_splice|NCOR1_uc002gpp.1_Splice_Site_p.D37_splice|NCOR1_uc002gpr.2_Splice_Site_p.D37_splice|NCOR1_uc002gps.1_Splice_Site_p.D146_splice|NCOR1_uc010coz.1_Splice_Site|NCOR1_uc010cpb.1_Splice_Site_p.D146_splice|NCOR1_uc010cpa.1_Splice_Site_p.D146_splice|NCOR1_uc002gpu.2_Intron	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1						cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		ATGCTGGATCCTTTAGAGAAT	0.398													16	212					1.22574e-08	1.41346e-08	0.014323	1	0		A	16068476	A	A	16068476	5	1	18	1	0	0	0	0	0	0	1	0	10254	695	24	5	7055	5	NCOR1	17	16068476	Splice_Site	SNP	C	TCGA-BR-4357-01A-01D-1158-08	4384080	16068476	65126734	241	13461											
PHF12	57649	broad.mit.edu	37	chr17	27233875	27233875	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatctctgctccaacttactGatgacactctgcactttggc	8	13	7	13	0	2	2	0	2	2	0	4	3	3	2	1	1	4	2	1	1	2	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:27233875G>A	uc002hdg.1	-	14	3209	c.2679C>T	c.(2677-2679)ATC>ATT	p.I893I	PHF12_uc010wbb.1_Silent_p.I875I	NM_001033561	NP_001028733	Q96QT6	PHF12_HUMAN	PHD finger protein 12 isoform 1	893					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	protein binding|zinc ion binding			ovary(1)	1	all_cancers(5;1.95e-14)|all_epithelial(6;5e-18)|Lung NSC(42;0.01)		Epithelial(11;1.64e-05)|all cancers(11;7.47e-05)|BRCA - Breast invasive adenocarcinoma(11;9.79e-05)			CCAACTTACTGATGACACTCT	0.537													38	125					0	0	0.009718	0	0		A	27233875	A	A	27233875	2	1	18	1	0	0	0	0	0	0	0	1	11842	1304	45	4		4	PHF12	17	27233875	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	11165399	27233875	53961335	242	13462											
ADAP2	55803	broad.mit.edu	37	chr17	29281541	29281541	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggttcgccctggattgccatGagcggaggctgctctattac	6	11	13	11	2	1	1	0	1	1	0	2	3	1	3	2	4	4	3	2	4	2	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:29281541G>C	uc002hfx.2	+	9	1129	c.850G>C	c.(850-852)GAG>CAG	p.E284Q	ADAP2_uc010csk.2_Missense_Mutation_p.E290Q|ADAP2_uc002hfy.2_Missense_Mutation_p.E283Q|ADAP2_uc010csl.2_RNA	NM_018404	NP_060874	Q9NPF8	ADAP2_HUMAN	centaurin-alpha 2 protein	284	PH 2.				heart development|regulation of ARF GTPase activity	mitochondrial envelope|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding, bridging|zinc ion binding	p.?(1)		ovary(1)	1						GGATTGCCATGAGCGGAGGCT	0.512													80	312					0	0	0.01441	0	0		C	29281541	C	C	29281541	3	2	18	1	0	0	0	0	1	0	0	0	280	1291	45	5	884	5	ADAP2	17	29281541	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	2047666	29281541	51913669	243	13463											
NF1	4763	broad.mit.edu	37	chr17	29657378	29657378	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttaaaaatcgagggccagTtactagagacatcaggttta	15	11	9	6	1	1	1	1	0	0	1	2	3	1	1	1	2	1	2	1	2	6	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:29657378T>G	uc002hgg.2	+	39	6007	c.5674T>G	c.(5674-5676)TTA>GTA	p.L1892V	NF1_uc002hgh.2_Missense_Mutation_p.L1871V|NF1_uc002hgi.1_Missense_Mutation_p.L904V|NF1_uc010cso.2_Missense_Mutation_p.L80V	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	1892					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		CGAGGGCCAGTTACTAGAGAC	0.403			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			76	100					0	0	0.01441	0	0		G	29657378	G	G	29657378	3	3	18	1	0	0	0	0	1	0	0	0	10375	1722	60	5	5889	5	NF1	17	29657378	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	375837	29657378	51537832	244	13464											
LIG3	3980	broad.mit.edu	37	chr17	33331399	33331399	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgacggggacctggtacaGgaatttgatatgacttcagc	10	11	12	8	2	1	2	1	2	0	0	2	5	1	4	1	4	2	1	1	4	3	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:33331399G>A	uc002hik.1	+	20	3012	c.2904G>A	c.(2902-2904)CAG>CAA	p.Q968Q	uc002hil.2_5'Flank	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	968	BRCT.				base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	ACCTGGTACAGGAATTTGATA	0.572								Other_BER_factors					63	62					0	0	0.01441	0	0		A	33331399	A	A	33331399	2	1	18	1	0	0	0	0	0	0	0	1	8798	991	35	4		4	LIG3	17	33331399	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	3674021	33331399	47863811	245	13465											
CCL18	6362	broad.mit.edu	37	chr17	34391748	34391748	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgtcctcgtctgcaccatgGccctctgctcctgtgcacaa	5	12	8	16	1	2	0	0	0	2	0	5	0	4	0	4	1	3	3	4	1	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:34391748G>T	uc002hku.2	+	1	106	c.46G>T	c.(46-48)GCC>TCC	p.A16S		NM_002988	NP_002979	P55774	CCL18_HUMAN	small inducible cytokine A18 precursor	16					cell-cell signaling|chemotaxis|immune response|inflammatory response|response to biotic stimulus|signal transduction	extracellular space	chemokine activity				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		CTGCACCATGGCCCTCTGCTC	0.567													55	178					1.93748e-29	2.39226e-29	0.01441	1	0		T	34391748	T	T	34391748	3	4	18	1	0	0	0	0	1	0	0	0	2892	1203	42	5	48	5	CCL18	17	34391748	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	1060349	34391748	46803462	246	13466											
MED1	5469	broad.mit.edu	37	chr17	37564295	37564295	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctccatcatgcttactgatGataatttttgccacacctgt	9	15	5	12	0	1	2	1	2	0	0	2	2	2	2	4	0	3	1	4	0	2	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:37564295G>A	uc002hrv.3	-	17	4391	c.4179C>T	c.(4177-4179)ATC>ATT	p.I1393I	MED1_uc010wee.1_Silent_p.I1221I|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1393	Ser-rich.|Interaction with TP53.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		GCTTACTGATGATAATTTTTG	0.458										HNSCC(31;0.082)			43	408					0	0	0.009718	0	0		A	37564295	A	A	37564295	2	1	18	1	0	0	0	0	0	0	0	1	9443	1280	45	4		4	MED1	17	37564295	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	3172547	37564295	43630915	247	13467											
PGAP3	93210	broad.mit.edu	37	chr17	37830295	37830295	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgacagtggaggcacagaAgtagtccattttctgaggac	12	9	13	7	0	1	3	0	2	1	1	2	6	2	5	1	3	0	2	1	3	2	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:37830295A>G	uc002hsj.2	-	5	551	c.508T>C	c.(508-510)TTC>CTC	p.F170L	PGAP3_uc010cvy.2_RNA|PGAP3_uc010wej.1_Missense_Mutation_p.F149L|PGAP3_uc002hsk.2_Missense_Mutation_p.F119L|PGAP3_uc010cvz.2_Intron	NM_033419	NP_219487	Q96FM1	PGAP3_HUMAN	per1-like domain containing 1 precursor	170	Helical; (Potential).				GPI anchor biosynthetic process	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	hydrolase activity, acting on ester bonds			upper_aerodigestive_tract(1)	1						GAGGCACAGAAGTAGTCCATT	0.602													42	599					0	0	0.00874	0	0		G	37830295	G	G	37830295	3	3	18	1	0	0	0	0	1	0	0	0	11798	72	3	3	470	3	PGAP3	17	37830295	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	266000	37830295	43364915	248	13468											
ETV4	2118	broad.mit.edu	37	chr17	41610164	41610164	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttcatacaggggatcaTggtattcttgcttaaagctc	9	14	9	9	0	3	0	2	0	1	0	4	1	3	1	1	3	3	4	1	3	4	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:41610164T>C	uc002idw.2	-	8	817	c.689A>G	c.(688-690)CAT>CGT	p.H230R	ETV4_uc002idv.2_5'Flank|ETV4_uc010wih.1_Missense_Mutation_p.H176R|ETV4_uc010czh.2_Missense_Mutation_p.H229R|ETV4_uc010wii.1_Missense_Mutation_p.H191R|ETV4_uc002idx.2_Missense_Mutation_p.H230R|ETV4_uc010wij.1_Missense_Mutation_p.H191R	NM_001986	NP_001977	P43268	ETV4_HUMAN	ets variant gene 4 (E1A enhancer binding	230	Gln-rich.				positive regulation of transcription, DNA-dependent	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/ETV4(6)	bone(4)|soft_tissue(2)|ovary(1)	7		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.0798)		CAGGGGATCATGGTATTCTTG	0.637			T	EWSR1|TMPRSS2|DDX5|KLK2|CANT1	Ewing sarcoma|Prostate carcinoma								4	102					0	0	0.009096	0	0		C	41610164	C	C	41610164	3	2	18	1	0	0	0	0	1	0	0	0	5289	1464	51	3	789	3	ETV4	17	41610164	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	3779869	41610164	39585046	249	13469											
FMNL1	752	broad.mit.edu	37	chr17	43309736	43309736	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccattccatctccccaggaGcggtttcaagtcaagaatcc	10	9	7	15	1	3	1	2	0	1	1	6	2	5	2	5	2	1	1	5	2	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:43309736G>T	uc002iin.2	+	3	416	c.216G>T	c.(214-216)GAG>GAT	p.E72D	FMNL1_uc002iio.2_Missense_Mutation_p.E27D|FMNL1_uc002iip.1_5'Flank	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	72	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						CTCCCCAGGAGCGGTTTCAAG	0.547													13	207					3.27435e-08	3.74212e-08	0.00245	1	0		T	43309736	T	T	43309736	3	4	18	1	0	0	0	0	1	0	0	0	5965	962	34	5	226	5	FMNL1	17	43309736	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	1699572	43309736	37885474	250	13470											
MAPT	4137	broad.mit.edu	37	chr17	44061042	44061042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgacgggcccagtgtagggcGggccaaagggcaggatgccc	8	3	18	12	3	0	0	0	0	0	0	0	2	0	1	3	5	1	2	3	5	2	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:44061042G>A	uc002ijr.3	+	6	1192	c.872G>A	c.(871-873)CGG>CAG	p.R291Q	MAPT_uc010dau.2_Missense_Mutation_p.R291Q|MAPT_uc002ijs.3_Intron|MAPT_uc002ijx.3_Intron|MAPT_uc002ijt.3_Intron|MAPT_uc002iju.3_Intron|MAPT_uc002ijv.3_Intron	NM_016835	NP_058519	P10636	TAU_HUMAN	microtubule-associated protein tau isoform 1	291					cellular component disassembly involved in apoptosis|microtubule cytoskeleton organization|negative regulation of microtubule depolymerization|positive regulation of axon extension|positive regulation of microtubule polymerization|regulation of autophagy	axon|cytosol|growth cone|microtubule|microtubule associated complex|nuclear periphery|plasma membrane|tubulin complex	apolipoprotein E binding|enzyme binding|identical protein binding|lipoprotein particle binding|microtubule binding|protein binding|SH3 domain binding|structural constituent of cytoskeleton			pancreas(1)	1		Melanoma(429;0.216)				AGTGTAGGGCGGGCCAAAGGG	0.622													78	54					0	0	0.01441	0	0		A	44061042	A	A	44061042	3	1	18	1	0	0	0	0	1	0	0	0	9315	1116	39	1	890	1	MAPT	17	44061042	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	751306	44061042	37134168	251	13471											
MPO	4353	broad.mit.edu	37	chr17	56350797	56350797	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagcacgaccctccaggaGgcaaaaaagaccctgctgag	13	4	10	14	1	0	2	0	1	0	1	2	4	2	3	4	2	2	3	4	2	3	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:56350797G>A	uc002ivu.1	-	9	1776	c.1599C>T	c.(1597-1599)GCC>GCT	p.A533A		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	533					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	CCCTCCAGGAGGCAAAAAAGA	0.602													56	240					0	0	0.01441	0	0		A	56350797	A	A	56350797	2	1	18	1	0	0	0	0	0	0	0	1	9750	987	35	4		4	MPO	17	56350797	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	12289755	56350797	24844413	252	13472											
ABCA8	10351	broad.mit.edu	37	chr17	66920887	66920887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggaggcgcttgttcaaaaGagtcatgaaatgaaggatcg	13	9	13	6	2	2	3	2	2	0	1	3	5	2	5	0	3	0	2	0	3	4	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr17:66920887G>A	uc002jhp.2	-	10	1576	c.1397C>T	c.(1396-1398)TCT>TTT	p.S466F	ABCA8_uc002jhq.2_Missense_Mutation_p.S466F|ABCA8_uc010wqq.1_Missense_Mutation_p.S466F|ABCA8_uc010wqr.1_Missense_Mutation_p.S405F|ABCA8_uc002jhr.2_Missense_Mutation_p.S466F	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	466						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					TTGTTCAAAAGAGTCATGAAA	0.453													34	164					0	0	0.004289	0	0		A	66920887	A	A	66920887	3	1	18	1	0	0	0	0	1	0	0	0	38	942	33	4	3464	4	ABCA8	17	66920887	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	10570090	66920887	14274323	253	13473											
PIAS2	9063	broad.mit.edu	37	chr18	44407934	44407934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacaaaccctttggttgggCtgctttgtgtttctgacata	8	16	9	8	0	1	1	0	1	1	0	1	1	1	1	1	2	3	4	1	2	3	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr18:44407934C>T	uc002lck.2	-	11	1654	c.1496G>A	c.(1495-1497)AGC>AAC	p.S499N	PIAS2_uc010dnp.2_Missense_Mutation_p.S197N|PIAS2_uc002lcl.2_Missense_Mutation_p.S499N|PIAS2_uc010xda.1_Missense_Mutation_p.S197N|PIAS2_uc002lcm.2_Missense_Mutation_p.S499N	NM_004671	NP_004662	O75928	PIAS2_HUMAN	protein inhibitor of activated STAT X isoform	499					androgen receptor signaling pathway|negative regulation of androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|PML body	androgen receptor binding|DNA binding|protein binding|SUMO ligase activity|transcription coactivator activity|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						TTTGGTTGGGCTGCTTTGTGT	0.368													30	135					0	0	0.004289	0	0		T	44407934	T	T	44407934	3	4	18	1	0	0	0	0	1	0	0	0	11895	797	28	2	460	2	PIAS2	18	44407934	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08		44407934	33669314	254	13474											
PQLC1	80148	broad.mit.edu	37	chr18	77679186	77679186	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcggcatccccggcctacctCatgccctccgtggactggtg	4	8	12	17	3	1	0	1	0	0	0	3	1	3	1	6	4	2	1	6	4	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr18:77679186C>G	uc002lnl.2	-	5	778	c.606G>C	c.(604-606)ATG>ATC	p.M202I	PQLC1_uc010dre.2_Missense_Mutation_p.M119I|PQLC1_uc002lnk.2_Missense_Mutation_p.M184I|PQLC1_uc010xfm.1_Intron	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	202	PQ-loop 2.					integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		CGGCCTACCTCATGCCCTCCG	0.602													15	36					0	0	0.010504	0	0		G	77679186	G	G	77679186	3	3	18	1	0	0	0	0	1	0	0	0	12440	826	29	5	217	5	PQLC1	18	77679186	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	33271252	77679186	398062	255	13475											
OR2Z1	284383	broad.mit.edu	37	chr19	8841802	8841802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatcctgtacttatgagaCgccaggtatgtctgctgatg	9	13	11	8	1	1	2	0	2	1	1	2	3	2	2	2	1	2	4	2	1	4	4	rs58741481	byFrequency	TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr19:8841802C>T	uc010xkg.1	+	1	412	c.412C>T	c.(412-414)CGC>TGC	p.R138C		NM_001004699	NP_001004699	Q8NG97	OR2Z1_HUMAN	olfactory receptor, family 2, subfamily Z,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2						ACTTATGAGACGCCAGGTATG	0.557													87	74					0	0	0.01441	0	0		T	8841802	T	T	8841802	3	4	18	1	0	0	0	0	1	0	0	0	11055	536	19	1	414	1	OR2Z1	19	8841802	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08		8841802	50287181	256	13476											
MUC16	94025	broad.mit.edu	37	chr19	9076652	9076652	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgcaactttcaagtttgaAgtcatgtctgtgacagtcca	10	14	8	9	0	3	2	2	2	1	0	4	2	4	2	1	0	2	2	1	0	3	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr19:9076652A>G	uc002mkp.2	-	3	10998	c.10794T>C	c.(10792-10794)ACT>ACC	p.T3598T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3599	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCAAGTTTGAAGTCATGTCTG	0.483													47	124					0	0	0.01441	0	0		G	9076652	G	G	9076652	2	3	18	1	0	0	0	0	0	0	0	1	9991	59	3	3		3	MUC16	19	9076652	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	234850	9076652	50052331	257	13477											
CACNA1A	773	broad.mit.edu	37	chr19	13346476	13346476	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgcggatggtgtaaccCtgacggagaagtttgatgag	12	9	15	5	2	0	5	0	3	0	2	0	7	0	6	1	3	2	2	1	3	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr19:13346476C>G	uc010dze.2	-	32	5258	c.5022G>C	c.(5020-5022)CAG>CAC	p.Q1674H	CACNA1A_uc010xnd.1_Missense_Mutation_p.Q379H|CACNA1A_uc002mwx.3_Missense_Mutation_p.Q379H|CACNA1A_uc010dzc.2_Missense_Mutation_p.Q1199H|CACNA1A_uc002mwy.3_Missense_Mutation_p.Q1673H|CACNA1A_uc002mwv.3_Missense_Mutation_p.Q190H	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1674	IV.|Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	TGGTGTAACCCTGACGGAGAA	0.567											OREG0025293	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	90					0	0	0.006214	0	0		G	13346476	G	G	13346476	3	3	18	1	0	0	0	0	1	0	0	0	2541	680	24	5	2666	5	CACNA1A	19	13346476	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	4269824	13346476	45782507	258	13478											
USHBP1	83878	broad.mit.edu	37	chr19	17370149	17370149	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcagcctcccgctggcctAgctgcatgctgaggccttca	5	9	10	17	1	2	1	2	1	0	0	3	1	3	1	5	2	4	4	5	2	1	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr19:17370149A>G	uc002nfs.1	-	7	1108	c.995T>C	c.(994-996)CTA>CCA	p.L332P	USHBP1_uc002nfr.1_5'Flank|USHBP1_uc002nft.1_RNA|USHBP1_uc010xpk.1_Missense_Mutation_p.L268P|USHBP1_uc010eam.1_Missense_Mutation_p.L260P	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	332							PDZ domain binding			ovary(1)	1						CCGCTGGCCTAGCTGCATGCT	0.572													3	77					0	0	0.004672	0	0		G	17370149	G	G	17370149	3	3	18	1	0	0	0	0	1	0	0	0	17063	420	15	3	1144	3	USHBP1	19	17370149	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	4023673	17370149	41758834	259	13479											
C19orf61	56006	broad.mit.edu	37	chr19	44237015	44237015	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaaagagctcttaccagttCttctcggtgaggatcgtgtg	8	12	12	9	2	3	2	0	1	3	1	5	3	3	3	1	2	2	3	1	2	2	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr19:44237015C>T	uc002oxj.2	-	13	1822	c.1479G>A	c.(1477-1479)AAG>AAA	p.K493K	C19orf61_uc002oxk.2_Silent_p.K493K	NM_019108	NP_061981	Q9H0W8	SMG9_HUMAN	SMG9 protein	493					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	intracellular	protein binding				0		Prostate(69;0.0352)				CTTACCAGTTCTTCTCGGTGA	0.582													30	93					0	0	0.009535	0	0		T	44237015	T	T	44237015	2	4	18	1	0	0	0	0	0	0	0	1	1946	912	32	4		4	C19orf61	19	44237015	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	26866866	44237015	14891968	260	13480											
ZNF284	342909	broad.mit.edu	37	chr19	44590983	44590984	+	Frame_Shift_Del	DEL	GA	-	-																															gcaccagagggtccacacggGagagagaccttataattgta																										TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr19:44590983_44590984delGA	uc002oyg.1	+	5	1568_1569	c.1352_1353delGA	c.(1351-1353)GGAfs	p.G451fs	ZNF284_uc010ejd.2_RNA	NM_001037813	NP_001032902	Q2VY69	ZN284_HUMAN	zinc finger protein 284	451					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				GTCCACACGGGAGAGAGACCTT	0.421													72	121	---	---	---	---						.	-	44590984	-	-	44590983	7	5	18	1	0	1	0	1	0	0	0	0	17846	1174	41	0	1366	0	ZNF284	19	44590983	Frame_Shift_Del	DEL	GA	TCGA-BR-4357-01A-01D-1158-08	353968	44590983	14538000	261	13481											
PVR	5817	broad.mit.edu	37	chr19	45165008	45165008	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaaaccctcttctagcAtgtctcctattcagctgtga	9	15	6	11	0	4	2	1	2	3	0	5	2	4	2	2	0	3	2	2	0	4	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr19:45165008A>T	uc002ozm.2	+	8	1483	c.1184A>T	c.(1183-1185)CAT>CTT	p.H395L	PVR_uc010xxb.1_Missense_Mutation_p.H342L|PVR_uc010xxc.1_Missense_Mutation_p.H350L|PVR_uc002ozn.2_Missense_Mutation_p.H340L	NM_006505	NP_006496	P15151	PVR_HUMAN	poliovirus receptor isoform alpha	395	Cytoplasmic (Potential).				adherens junction organization|cell adhesion|cell junction assembly|interspecies interaction between organisms|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|susceptibility to natural killer cell mediated cytotoxicity|susceptibility to T cell mediated cytotoxicity	cell junction|cell surface|cytoplasm|extracellular space|integral to membrane|nucleus	cell adhesion molecule binding|receptor activity				0	Lung NSC(12;0.00608)|all_lung(12;0.0148)	Medulloblastoma(540;0.0425)|Ovarian(192;0.0728)|Prostate(69;0.081)|all_neural(266;0.112)		Epithelial(262;0.000601)		CTCTTCTAGCATGTCTCCTAT	0.512													7	159					0	0	0.00308	0	0		T	45165008	T	T	45165008	3	4	18	1	0	0	0	0	1	0	0	0	12862	231	8	5	1243	5	PVR	19	45165008	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	574025	45165008	13963975	262	13482											
TRPM4	54795	broad.mit.edu	37	chr19	49671880	49671880	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagtttcccctggactacaActactcggccttcttcctgg	6	12	7	16	1	1	0	0	0	1	0	4	1	3	1	5	3	3	1	5	3	3	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr19:49671880A>T	uc002pmw.2	+	6	755	c.683A>T	c.(682-684)AAC>ATC	p.N228I	TRPM4_uc010emu.2_Missense_Mutation_p.N228I|TRPM4_uc010yak.1_5'UTR|TRPM4_uc002pmx.2_Missense_Mutation_p.N54I|TRPM4_uc010emv.2_Missense_Mutation_p.N113I|TRPM4_uc010yal.1_5'UTR	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	228	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		CTGGACTACAACTACTCGGCC	0.627													4	74					0	0	0.009096	0	0		T	49671880	T	T	49671880	3	4	18	1	0	0	0	0	1	0	0	0	16614	43	2	5	705	5	TRPM4	19	49671880	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	4506872	49671880	9457103	263	13483											
CEACAM18	729767	broad.mit.edu	37	chr19	51986375	51986375	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagtgtatctgctattccTtcctggatctcaagtaccac	8	14	8	11	0	2	0	1	0	2	0	5	2	4	2	3	2	2	3	3	2	4	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr19:51986375T>G	uc002pwv.1	+	5	961	c.961T>G	c.(961-963)TTC>GTC	p.F321V		NM_001080405	NP_001073874	A8MTB9	CEA18_HUMAN	carcinoembryonic antigen-related cell adhesion	321	Ig-like C2-type.					integral to membrane				skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		CTGCTATTCCTTCCTGGATCT	0.522													76	245					0	0	0.01441	0	0		G	51986375	G	G	51986375	3	3	18	1	0	0	0	0	1	0	0	0	3192	1609	56	5	979	5	CEACAM18	19	51986375	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	2314495	51986375	7142608	264	13484											
TMC2	117532	broad.mit.edu	37	chr20	2621798	2621798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agagaccactcctccctctgCcagccaaagccaggccatgg	10	5	9	17	0	1	1	0	0	1	1	3	2	3	1	7	2	3	0	7	2	1	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:2621798C>T	uc002wgf.1	+	20	2537	c.2522C>T	c.(2521-2523)GCC>GTC	p.A841V	TMC2_uc002wgg.1_Missense_Mutation_p.A825V	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	841	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						CCTCCCTCTGCCAGCCAAAGC	0.567													106	183					0	0	0.01441	0	0		T	2621798	T	T	2621798	3	4	18	1	0	0	0	0	1	0	0	0	16010	739	26	2	2600	2	TMC2	20	2621798	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08		2621798	60403722	265	13485											
PLCB4	5332	broad.mit.edu	37	chr20	9459579	9459579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgttataggcgaaggagatGcagcagatggtgaaattgga	14	9	15	3	1	0	3	0	1	0	2	0	6	0	4	0	4	2	3	0	4	4	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:9459579G>A	uc002wnf.2	+	37	3607	c.3471G>A	c.(3469-3471)ATG>ATA	p.M1157I	PLCB4_uc010gbx.2_Missense_Mutation_p.M1169I|PLCB4_uc002wne.2_Missense_Mutation_p.A1170T|PLCB4_uc002wnh.2_Missense_Mutation_p.M1004I	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	1157					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						CGAAGGAGATGCAGCAGATGG	0.453													11	41					0	0	0.00245	0	0		A	9459579	A	A	9459579	3	1	18	1	0	0	0	0	1	0	0	0	12049	1319	46	2	3690	2	PLCB4	20	9459579	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	6837781	9459579	53565941	266	13486											
TMEM90B	79953	broad.mit.edu	37	chr20	24523880	24523880	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacccagcgccccagtaccaGagccaccgggtgggggccag	8	3	14	16	2	0	1	0	0	0	1	0	1	0	1	7	3	4	1	7	3	2	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:24523880G>A	uc002wtw.1	+	2	780	c.147G>A	c.(145-147)CAG>CAA	p.Q49Q		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	49	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						CCCAGTACCAGAGCCACCGGG	0.597													11	151					0	0	0.008291	0	0		A	24523880	A	A	24523880	2	1	18	1	0	0	0	0	0	0	0	1	16244	933	33	4		4	TMEM90B	20	24523880	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	15064301	24523880	38501640	267	13487											
PXMP4	11264	broad.mit.edu	37	chr20	32295542	32295542	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacggctcttgttatagacGaggaagtctgagatgtcgtg	9	11	15	6	3	2	2	0	1	2	2	3	6	2	4	0	3	0	2	0	3	3	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:32295542G>A	uc002wzv.2	-	4	732	c.609C>T	c.(607-609)CTC>CTT	p.L203L	PXMP4_uc002wzw.2_3'UTR|PXMP4_uc010zuh.1_3'UTR	NM_007238	NP_009169	Q9Y6I8	PXMP4_HUMAN	peroxisomal membrane protein 4 isoform a	203						integral to membrane|membrane fraction|mitochondrial inner membrane|peroxisomal membrane	protein transporter activity				0						TGTTATAGACGAGGAAGTCTG	0.537													8	244					0	0	0.004482	0	0		A	32295542	A	A	32295542	2	1	18	1	0	0	0	0	0	0	0	1	12876	1045	37	1		1	PXMP4	20	32295542	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	7771662	32295542	30729978	268	13488											
NCOA6	23054	broad.mit.edu	37	chr20	33330312	33330312	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctgtggagggaagagtcCtgctatggaggcattgagtc	10	10	15	6	0	1	2	0	1	1	1	3	5	2	5	1	4	1	2	1	4	3	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:33330312C>A	uc002xav.2	-	12	6319	c.3748G>T	c.(3748-3750)GGA>TGA	p.G1250*	NCOA6_uc002xaw.2_Nonsense_Mutation_p.G1250*	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1250	NCOA1-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						GGGAAGAGTCCTGCTATGGAG	0.473													18	403					7.07596e-05	7.87585e-05	0.006122	1	0		A	33330312	A	A	33330312	4	1	18	1	0	0	0	0	0	1	0	0	10252	690	24	5	2463	5	NCOA6	20	33330312	Nonsense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	1034770	33330312	29695208	269	13489											
RALGAPB	57148	broad.mit.edu	37	chr20	37121694	37121694	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttagtgttgccaaaagattCtattccattgccagttatta	11	17	6	7	0	1	1	0	0	1	1	2	1	2	1	3	0	2	2	3	0	6	9			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:37121694C>G	uc002xiw.2	+	3	565	c.308C>G	c.(307-309)TCT>TGT	p.S103C	RALGAPB_uc010zvz.1_Missense_Mutation_p.S103C|RALGAPB_uc002xix.2_Missense_Mutation_p.S103C|RALGAPB_uc002xiy.1_Missense_Mutation_p.S103C|RALGAPB_uc002xiz.2_5'UTR	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	103					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						CCAAAAGATTCTATTCCATTG	0.353													49	200					0	0	0.01441	0	0		G	37121694	G	G	37121694	3	3	18	1	0	0	0	0	1	0	0	0	13040	913	32	5	314	5	RALGAPB	20	37121694	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	3791382	37121694	25903826	270	13490											
PPP1R16B	26051	broad.mit.edu	37	chr20	37529251	37529251	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacttgcttgctgtcaactcGgatgggaacatgccatatga	10	11	11	9	1	1	1	1	1	0	0	2	4	1	3	1	2	5	2	1	2	3	3	rs34142152	byFrequency	TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:37529251G>A	uc002xje.2	+	5	684	c.495G>A	c.(493-495)TCG>TCA	p.S165S	PPP1R16B_uc010ggc.2_Silent_p.S165S	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	165					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CTGTCAACTCGGATGGGAACA	0.587													30	133					0	0	0.012213	0	0		A	37529251	A	A	37529251	2	1	18	1	0	0	0	0	0	0	0	1	12388	1103	39	1		1	PPP1R16B	20	37529251	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	407557	37529251	25496269	271	13491											
TOP1	7150	broad.mit.edu	37	chr20	39750719	39750719	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agctggaagttcaagccacaGaccgagaggaaaataaacag	18	4	11	8	1	1	2	1	0	0	2	1	5	1	4	2	2	3	2	2	2	6	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:39750719G>C	uc002xjl.2	+	20	2365	c.2119G>C	c.(2119-2121)GAC>CAC	p.D707H	uc002xjn.1_Intron	NM_003286	NP_003277	P11387	TOP1_HUMAN	DNA topoisomerase I	707					DNA topological change|interspecies interaction between organisms|phosphorylation|programmed cell death|response to drug	chromosome|nucleolus|nucleoplasm	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity|protein binding			breast(3)|ovary(2)|central_nervous_system(1)|kidney(1)	7		Myeloproliferative disorder(115;0.00878)			Irinotecan(DB00762)|Lucanthone(DB04967)|Topotecan(DB01030)	TCAAGCCACAGACCGAGAGGA	0.468			T	NUP98	AML*								7	155					0	0	0.001984	0	0		C	39750719	C	C	39750719	3	2	18	1	0	0	0	0	1	0	0	0	16389	942	33	5	2197	5	TOP1	20	39750719	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	2221468	39750719	23274801	272	13492											
PTPRT	11122	broad.mit.edu	37	chr20	41514542	41514542	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagccacactataaccacagTtgctgtagtgctcatcaaag	13	9	8	11	0	2	0	2	0	0	0	2	1	2	0	2	0	4	4	2	0	4	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:41514542T>C	uc002xkg.2	-	2	303	c.119A>G	c.(118-120)AAC>AGC	p.N40S	PTPRT_uc010ggj.2_Missense_Mutation_p.N40S	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	40	Extracellular (Potential).|MAM.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				ATAACCACAGTTGCTGTAGTG	0.498													14	177					0	0	0.004007	0	0		C	41514542	C	C	41514542	3	2	18	1	0	0	0	0	1	0	0	0	12837	1725	60	3	4387	3	PTPRT	20	41514542	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	1763823	41514542	21510978	273	13493											
JPH2	57158	broad.mit.edu	37	chr20	42788489	42788489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagccactcgccctcgtagCggaggccactggagcgttcg	6	6	13	16	5	0	0	0	0	0	0	3	2	0	2	4	3	3	2	4	3	1	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:42788489C>T	uc002xli.1	-	2	1811	c.938G>A	c.(937-939)CGC>CAC	p.R313H		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	313	MORN 7.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			GCCCTCGTAGCGGAGGCCACT	0.667													28	22					0	0	0.01441	0	0		T	42788489	T	T	42788489	3	4	18	1	0	0	0	0	1	0	0	0	7977	768	27	1	1168	1	JPH2	20	42788489	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	1273947	42788489	20237031	274	13494											
SEMG2	6407	broad.mit.edu	37	chr20	43850999	43850999	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcactccatcctgcacaTcaagacagactccaacatgg	13	8	5	15	0	2	2	2	0	0	2	5	2	5	2	3	1	2	1	3	1	2	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:43850999T>A	uc010ggz.2	+	2	783	c.726T>A	c.(724-726)CAT>CAA	p.H242Q	SEMG2_uc002xnk.2_Missense_Mutation_p.H242Q|SEMG2_uc002xnl.2_Missense_Mutation_p.H242Q	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	242	2-2.|Repeat-rich region.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				ATCCTGCACATCAAGACAGAC	0.378													212	265					0	0	0.01441	0	0		A	43850999	A	A	43850999	3	1	18	1	0	0	0	0	1	0	0	0	14070	1432	50	5	732	5	SEMG2	20	43850999	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	1062510	43850999	19174521	275	13495											
KCNB1	3745	broad.mit.edu	37	chr20	47989743	47989743	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttgtccccgtgctgaacTtcggactggtgctcccaggg	5	11	12	13	2	1	1	0	1	1	0	4	2	3	2	3	3	3	2	3	3	1	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:47989743T>C	uc002xur.1	-	2	2518	c.2354A>G	c.(2353-2355)AAG>AGG	p.K785R	KCNB1_uc002xus.1_Missense_Mutation_p.K785R	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	785	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CGTGCTGAACTTCGGACTGGT	0.527													12	900					0	0	0.00308	0	0		C	47989743	C	C	47989743	3	2	18	1	0	0	0	0	1	0	0	0	8028	1609	56	3	226	3	KCNB1	20	47989743	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	4138744	47989743	15035777	276	13496											
KCNB1	3745	broad.mit.edu	37	chr20	47989961	47989961	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacagccttgtccaaaagCgtggcacactccagtccagc	11	6	9	15	1	0	0	0	0	0	0	3	0	3	0	4	1	4	2	4	1	2	1	rs139458439		TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:47989961C>T	uc002xur.1	-	2	2300	c.2136G>A	c.(2134-2136)ACG>ACA	p.T712T	KCNB1_uc002xus.1_Silent_p.T712T	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	712	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TGTCCAAAAGCGTGGCACACT	0.597													20	180					0	0	0.012319	0	0		T	47989961	T	T	47989961	2	4	18	1	0	0	0	0	0	0	0	1	8028	755	27	1		1	KCNB1	20	47989961	Silent	SNP	C	TCGA-BR-4357-01A-01D-1158-08	218	47989961	15035559	277	13497											
KCNQ2	3785	broad.mit.edu	37	chr20	62070073	62070073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaacccagaccccaagatgcCctgcaattcatcagggtcag	13	6	8	14	0	3	2	3	0	0	2	3	2	3	2	4	1	3	1	4	1	3	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr20:62070073C>T	uc002yey.1	-	7	1105	c.928G>A	c.(928-930)GGC>AGC	p.G310S	KCNQ2_uc002yez.1_Missense_Mutation_p.G310S|KCNQ2_uc002yfa.1_Missense_Mutation_p.G310S|KCNQ2_uc002yfb.1_Missense_Mutation_p.G310S|KCNQ2_uc011aax.1_Missense_Mutation_p.G310S|KCNQ2_uc002yfc.1_Missense_Mutation_p.G310S	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	310	Helical; Name=Segment S6; (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	CCCAAGATGCCCTGCAATTCA	0.607													93	30					0	0	0.01441	0	0		T	62070073	T	T	62070073	3	4	18	1	0	0	0	0	1	0	0	0	8099	637	22	4	1798	4	KCNQ2	20	62070073	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	14080112	62070073	955447	278	13498											
SAMSN1	64092	broad.mit.edu	37	chr21	15889299	15889299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatttttttacccaaacCgcctccattatttgaagttt	9	18	3	11	1	1	1	1	1	1	0	3	1	2	1	4	0	2	1	4	0	4	7			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr21:15889299C>T	uc002yju.1	-	3	275	c.193G>A	c.(193-195)GGT>AGT	p.G65S	SAMSN1_uc010gky.1_Intron|SAMSN1_uc002yjv.1_Missense_Mutation_p.G133S	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	65					negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		TTACCCAAACCGCCTCCATTA	0.338													24	29					0	0	0.00278	0	0		T	15889299	T	T	15889299	3	4	18	1	0	0	0	0	1	0	0	0	13855	652	23	1	952	1	SAMSN1	21	15889299	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08		15889299	32240596	279	13499											
TIMP3	7078	broad.mit.edu	37	chr22	33245467	33245467	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaaggtggtggggaagaaGctggtaaaggaggggccctt	10	6	19	6	0	0	1	0	0	0	1	0	3	0	3	2	8	1	2	2	8	5	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chr22:33245467G>C	uc003anb.2	+	2	1336	c.150G>C	c.(148-150)AAG>AAC	p.K50N	SYN3_uc003amx.2_Intron|SYN3_uc003amy.2_Intron|SYN3_uc003amz.2_Intron	NM_000362	NP_000353	P35625	TIMP3_HUMAN	tissue inhibitor of metalloproteinase 3	50	NTR.				negative regulation of membrane protein ectodomain proteolysis|visual perception		metal ion binding|metalloendopeptidase inhibitor activity|protein binding			lung(1)	1						TGGGGAAGAAGCTGGTAAAGG	0.542													14	28					0	0	0.003163	0	0		C	33245467	C	C	33245467	3	2	18	1	0	0	0	0	1	0	0	0	15944	962	34	5	156	5	TIMP3	22	33245467	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08		33245467	18059099	280	13500											
WWC3	55841	broad.mit.edu	37	chrX	10046905	10046905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagcagaaatagcaagtcGtcgggatagggtgagtaaaa	17	7	13	4	2	0	2	0	1	0	1	2	3	0	3	0	2	2	3	0	2	8	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:10046905G>A	uc004csx.3	+	4	485	c.287G>A	c.(286-288)CGT>CAT	p.R96H	WWC3_uc010nds.2_5'UTR|WWC3_uc010ndt.2_5'Flank	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	96	Potential.									ovary(4)	4						ATAGCAAGTCGTCGGGATAGG	0.413													134	93					0	0	0.01441	0	0		A	10046905	A	A	10046905	3	1	18	1	0	0	0	0	1	0	0	0	17439	1145	40	1	297	1	WWC3	23	10046905	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08		10046905	145223655	281	13501											
FANCB	2187	broad.mit.edu	37	chrX	14862735	14862735	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacacttctggaaattctttGattatttcacatttcatatg	11	19	4	7	0	4	1	2	1	2	0	4	2	4	2	0	1	1	0	0	1	4	8			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:14862735G>C	uc004cwg.1	-	9	2323	c.2055C>G	c.(2053-2055)ATC>ATG	p.I685M	FANCB_uc004cwh.1_Missense_Mutation_p.I685M	NM_001018113	NP_001018123	Q8NB91	FANCB_HUMAN	Fanconi anemia complementation group B	685					DNA repair	nucleoplasm				lung(1)	1	Hepatocellular(33;0.183)					GAAATTCTTTGATTATTTCAC	0.378								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				71	43					0	0	0.01441	0	0		C	14862735	C	C	14862735	3	2	18	1	0	0	0	0	1	0	0	0	5677	1280	45	5	532	5	FANCB	23	14862735	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	4815830	14862735	140407825	282	13502											
DMD	1756	broad.mit.edu	37	chrX	32429933	32429933	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataagctgccaactgcttgTcaatgaatgtgagggactcc	11	11	10	9	0	1	2	1	2	0	0	2	3	2	3	2	1	4	2	2	1	5	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:32429933T>A	uc004dda.1	-	30	4413	c.4169A>T	c.(4168-4170)GAC>GTC	p.D1390V	DMD_uc004dcw.2_Missense_Mutation_p.D46V|DMD_uc004dcx.2_Missense_Mutation_p.D49V|DMD_uc004dcz.2_Missense_Mutation_p.D1267V|DMD_uc004dcy.1_Missense_Mutation_p.D1386V|DMD_uc004ddb.1_Missense_Mutation_p.D1382V|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1390					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CAACTGCTTGTCAATGAATGT	0.473													20	22					0	0	0.012319	0	0		A	32429933	A	A	32429933	3	1	18	1	0	0	0	0	1	0	0	0	4586	1667	58	5	7236	5	DMD	23	32429933	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	17567198	32429933	122840627	283	13503											
ZNF630	57232	broad.mit.edu	37	chrX	47919190	47919190	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaacaggaagcattatacTtaggtggtctcccacatcta	13	10	8	10	0	2	1	0	0	2	1	3	2	2	2	1	3	3	1	1	3	6	4			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:47919190T>G	uc004div.3	-	5	893	c.641A>C	c.(640-642)AAG>ACG	p.K214T	ZNF630_uc010nhz.1_Intron|ZNF630_uc004diw.2_Missense_Mutation_p.K90T	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	214					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2						AGCATTATACTTAGGTGGTCT	0.393													6	135					0	0	0.001984	0	0		G	47919190	G	G	47919190	3	3	18	1	0	0	0	0	1	0	0	0	18079	1609	56	5	1336	5	ZNF630	23	47919190	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	15489257	47919190	107351370	284	13504											
HUWE1	10075	broad.mit.edu	37	chrX	53655775	53655775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaggcagttccagtacagtCaataatactgctgagtttgg	11	11	12	7	0	1	1	1	1	0	0	2	2	2	2	1	3	3	5	1	3	4	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:53655775C>T	uc004dsp.2	-	14	1444	c.1042G>A	c.(1042-1044)GAC>AAC	p.D348N		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	348					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CCAGTACAGTCAATAATACTG	0.393													32	52					0	0	0.009535	0	0		T	53655775	T	T	53655775	3	4	18	1	0	0	0	0	1	0	0	0	7477	826	29	4	12366	4	HUWE1	23	53655775	Missense_Mutation	SNP	C	TCGA-BR-4357-01A-01D-1158-08	5736585	53655775	101614785	285	13505											
TRMT2B	79979	broad.mit.edu	37	chrX	100278521	100278521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcccttggctattggtgcGgactgtgagctcacgccagt	5	11	14	11	2	1	1	1	1	0	0	1	2	1	2	2	3	3	2	2	3	1	3			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:100278521G>A	uc004egq.2	-	7	993	c.694C>T	c.(694-696)CGC>TGC	p.R232C	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Missense_Mutation_p.R232C|TRMT2B_uc004egs.2_Missense_Mutation_p.R232C|TRMT2B_uc004egt.2_Missense_Mutation_p.R232C|TRMT2B_uc004egu.2_Missense_Mutation_p.R113C|TRMT2B_uc004egv.2_Missense_Mutation_p.R187C	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	232							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						CTATTGGTGCGGACTGTGAGC	0.463													63	123					0	0	0.01441	0	0		A	100278521	A	A	100278521	3	1	18	1	0	0	0	0	1	0	0	0	16592	1116	39	1	848	1	TRMT2B	23	100278521	Missense_Mutation	SNP	G	TCGA-BR-4357-01A-01D-1158-08	46622746	100278521	54992039	286	13506											
NRK	203447	broad.mit.edu	37	chrX	105142676	105142676	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgaggtgattgactgtgAtgaggacccaagacgctcct	10	9	12	10	1	0	6	0	5	0	1	1	7	1	7	3	2	0	1	3	2	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:105142676A>G	uc004emd.2	+	8	983	c.680A>G	c.(679-681)GAT>GGT	p.D227G	NRK_uc010npc.1_5'UTR	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	227	Protein kinase.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						ATTGACTGTGATGAGGACCCA	0.408										HNSCC(51;0.14)			10	15					0	0	0.008291	0	0		G	105142676	G	G	105142676	3	3	18	1	0	0	0	0	1	0	0	0	10674	333	12	3	710	3	NRK	23	105142676	Missense_Mutation	SNP	A	TCGA-BR-4357-01A-01D-1158-08	4864155	105142676	50127884	287	13507											
NRK	203447	broad.mit.edu	37	chrX	105193615	105193615	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcattttacctgattgcTtgggaattggcatgatgctc	8	16	9	8	0	2	2	2	2	0	0	3	3	2	3	1	2	3	3	1	2	2	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:105193615T>A	uc004emd.2	+	27	4705	c.4402T>A	c.(4402-4404)TTG>ATG	p.L1468M	NRK_uc011msi.1_Missense_Mutation_p.L49M	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1468	CNH.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						ACCTGATTGCTTGGGAATTGG	0.373										HNSCC(51;0.14)			23	60					0	0	0.004656	0	0		A	105193615	A	A	105193615	3	1	18	1	0	0	0	0	1	0	0	0	10674	1606	56	5	4508	5	NRK	23	105193615	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	50939	105193615	50076945	288	13508											
RGAG1	57529	broad.mit.edu	37	chrX	109696362	109696362	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgccacaagtgaaggcTcccatctctggagcaatgtc	10	9	9	13	0	1	1	0	1	1	0	5	2	3	2	3	2	2	2	3	2	3	0			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:109696362T>G	uc004eor.1	+	3	2763	c.2517T>G	c.(2515-2517)GCT>GCG	p.A839A	RGAG1_uc011msr.1_Silent_p.A839A	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	839										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						AAGTGAAGGCTCCCATCTCTG	0.537													12	249					0	0	0.001855	0	0		G	109696362	G	G	109696362	2	3	18	1	0	0	0	0	0	0	0	1	13299	1538	54	5		5	RGAG1	23	109696362	Silent	SNP	T	TCGA-BR-4357-01A-01D-1158-08	4502747	109696362	45574198	289	13509											
RGAG1	57529	broad.mit.edu	37	chrX	109697340	109697340	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggggctcatgctctgtggaGgaagagatggagattgatga	10	9	17	5	1	2	4	1	2	1	2	2	8	2	6	0	5	1	2	0	5	1	1			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:109697340G>A	uc004eor.1	+	3	3741	c.3495G>A	c.(3493-3495)GAG>GAA	p.E1165E	RGAG1_uc011msr.1_Silent_p.E1165E	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	1165										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GCTCTGTGGAGGAAGAGATGG	0.507													41	84					0	0	0.00623	0	0		A	109697340	A	A	109697340	2	1	18	1	0	0	0	0	0	0	0	1	13299	991	35	4		4	RGAG1	23	109697340	Silent	SNP	G	TCGA-BR-4357-01A-01D-1158-08	978	109697340	45573220	290	13510											
PAK3	5063	broad.mit.edu	37	chrX	110435361	110435361	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaccttcacagggcatcAggtactgtttatacagcact	10	13	7	11	0	3	0	3	0	0	0	3	0	3	0	1	2	3	4	1	2	3	6			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:110435361A>C	uc004epa.2	+	9	909	c.882A>C	c.(880-882)TCA>TCC	p.S294S	PAK3_uc010npt.1_Silent_p.S279S|PAK3_uc010npu.1_Silent_p.S279S|PAK3_uc004eoy.1_Silent_p.S34S|PAK3_uc004eoz.2_Silent_p.S279S|PAK3_uc011mst.1_RNA|PAK3_uc010npv.1_Silent_p.S315S|PAK3_uc010npw.1_Silent_p.S300S	NM_001128173	NP_001121645	O75914	PAK3_HUMAN	p21-activated kinase 3 isoform d	294	ATP (By similarity).|Protein kinase.				multicellular organismal development		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding			lung(6)|ovary(3)|large_intestine(1)	10						ACAGGGCATCAGGTACTGTTT	0.308										TSP Lung(19;0.15)			94	72					0	0	0.01441	0	0		C	110435361	C	C	110435361	2	2	18	1	0	0	0	0	0	0	0	1	11421	175	7	5		5	PAK3	23	110435361	Silent	SNP	A	TCGA-BR-4357-01A-01D-1158-08	738021	110435361	44835199	291	13511											
GPR112	139378	broad.mit.edu	37	chrX	135430266	135430266	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttccctgagtccttgtcTctttccacagctggactata	7	15	6	13	0	1	1	0	1	1	0	5	2	4	2	3	1	1	1	3	1	2	5			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:135430266T>G	uc004ezu.1	+	6	4692	c.4401T>G	c.(4399-4401)TCT>TCG	p.S1467S	GPR112_uc010nsb.1_Silent_p.S1262S|GPR112_uc010nsc.1_Silent_p.S1234S	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1467	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					AGTCCTTGTCTCTTTCCACAG	0.433													6	133					0	0	0.001984	0	0		G	135430266	G	G	135430266	2	3	18	1	0	0	0	0	0	0	0	1	6644	1538	54	5		5	GPR112	23	135430266	Silent	SNP	T	TCGA-BR-4357-01A-01D-1158-08	24994905	135430266	19840294	292	13512											
SPRY3	10251	broad.mit.edu	37	chrX	155004392	155004392	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaaggcccaggaaaagTctgtatgaccttccaacaag	13	7	8	13	0	1	1	0	1	1	0	3	2	3	2	5	2	1	1	5	2	6	2			TCGA-BR-4357-01A-01D-1158-08	TCGA-BR-4357-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bec6b643-3173-415d-8d12-b585c869018c	ec09774d-f21b-4b96-b757-f534d4e4375c	g.chrX:155004392T>A	uc004fnq.1	+	2	1313	c.859T>A	c.(859-861)TCT>ACT	p.S287T	SPRY3_uc010nvl.1_Missense_Mutation_p.S188T	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	287					multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CCAGGAAAAGTCTGTATGACC	0.542													50	90					0	0	0.01441	0	0		A	155004392	A	A	155004392	3	1	18	1	0	0	0	0	1	0	0	0	15132	1667	58	5	861	5	SPRY3	23	155004392	Missense_Mutation	SNP	T	TCGA-BR-4357-01A-01D-1158-08	19574126	155004392	266168	293	13513											
KLHL17	339451	broad.mit.edu	37	chr1	898538	898538	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgtgaggcctacgacacGcgcaccgaccgctggcacgt	8	5	13	15	6	0	1	0	1	0	0	0	4	0	1	3	2	1	3	3	2	1	1	rs141603895	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:898538G>A	uc001aca.1	+	7	1199	c.1092G>A	c.(1090-1092)ACG>ACA	p.T364T	KLHL17_uc001acc.1_RNA|KLHL17_uc010nyb.1_Missense_Mutation_p.R113H	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	364	Interaction with F-actin (By similarity).|Kelch 1.				actin cytoskeleton organization	actin cytoskeleton|cell junction|postsynaptic density|postsynaptic membrane	protein complex scaffold				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.52e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.59e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000469)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CCTACGACACGCGCACCGACC	0.701													8	14					0	0	0.004482	0	0		A	898538	A	A	898538	2	1	19	1	0	0	0	0	0	0	0	1	8388	1074	38	1		1	KLHL17	1	898538	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08		898538	248352083	1	13514											
AGRN	375790	broad.mit.edu	37	chr1	978991	978991	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgtgtgcccctctgaatgCgtggctttggcccagcccgt	3	11	13	14	3	1	1	0	1	1	0	1	1	1	1	4	2	4	1	4	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:978991C>T	uc001ack.1	+	9	1727	c.1677C>T	c.(1675-1677)TGC>TGT	p.C559C		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	559	Kazal-like 6.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		CCTCTGAATGCGTGGCTTTGG	0.687													30	82					0	0	0.005524	0	0		T	978991	T	T	978991	2	4	19	1	0	0	0	0	0	0	0	1	397	776	27	1		1	AGRN	1	978991	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	80453	978991	248271630	2	13515											
SDF4	51150	broad.mit.edu	37	chr1	1154242	1154242	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactcctcctccgtcagcaGcaggtctgcaggggggctgt	6	8	14	13	1	2	0	1	0	1	0	5	1	5	0	3	4	4	4	3	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:1154242G>A	uc001adh.3	-	5	972	c.643C>T	c.(643-645)CTG>TTG	p.L215L	SDF4_uc001adg.2_RNA|SDF4_uc001adi.3_Silent_p.L215L|SDF4_uc009vjv.2_Silent_p.L93L|SDF4_uc009vjw.2_RNA	NM_016176	NP_057260	Q9BRK5	CAB45_HUMAN	stromal cell derived factor 4 isoform 2	215	EF-hand 3.|3 (Potential).				cerebellum development|fat cell differentiation|response to ethanol|UV protection|zymogen granule exocytosis	bleb|Golgi lumen|late endosome|soluble fraction	calcium ion binding|calcium ion binding|identical protein binding|protein binding			upper_aerodigestive_tract(1)|large_intestine(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;7.85e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.42e-21)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;4.83e-05)|Kidney(185;0.00252)|BRCA - Breast invasive adenocarcinoma(365;0.00263)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0368)|Lung(427;0.204)		TCCGTCAGCAGCAGGTCTGCA	0.647													13	188					0	0	0.003163	0	0		A	1154242	A	A	1154242	2	1	19	1	0	0	0	0	0	0	0	1	13987	962	34	2		2	SDF4	1	1154242	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	175251	1154242	248096379	3	13516											
ATAD3B	83858	broad.mit.edu	37	chr1	1421557	1421557	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaagaagaaccggggccTgtacaggcacatcctgctgt	11	6	11	13	1	0	2	0	0	0	2	1	2	1	2	4	3	3	3	4	3	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:1421557T>C	uc001afv.2	+	10	1132	c.1031T>C	c.(1030-1032)CTG>CCG	p.L344P	ATAD3B_uc001afx.2_Missense_Mutation_p.L298P	NM_031921	NP_114127	Q5T9A4	ATD3B_HUMAN	AAA-ATPase  TOB3	344							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		AACCGGGGCCTGTACAGGCAC	0.657													7	131					0	0	0.004482	0	0		C	1421557	C	C	1421557	3	2	19	1	0	0	0	0	1	0	0	0	1075	1580	55	3	1069	3	ATAD3B	1	1421557	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	267315	1421557	247829064	4	13517											
WDR8	49856	broad.mit.edu	37	chr1	3564057	3564057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggatctggtctaggcacGtgtacagctgaaggatctga	9	10	14	8	1	3	2	0	2	3	0	3	4	3	4	0	4	2	4	0	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:3564057G>A	uc001ako.2	-	2	245	c.137C>T	c.(136-138)ACG>ATG	p.T46M	WDR8_uc001akn.3_Missense_Mutation_p.T46M|WDR8_uc010nzi.1_Missense_Mutation_p.T46M	NM_017818	NP_060288	Q9P2S5	WRP73_HUMAN	WD repeat domain 8	46	WD 1.					centrosome	protein binding				0	all_cancers(77;0.0128)|all_epithelial(69;0.00526)|Ovarian(185;0.0634)|Lung NSC(156;0.162)|all_lung(157;0.172)	all_epithelial(116;7.37e-22)|all_lung(118;8.23e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;4.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;4.16e-22)|GBM - Glioblastoma multiforme(42;1.05e-14)|Colorectal(212;1.19e-05)|BRCA - Breast invasive adenocarcinoma(365;2.67e-05)|COAD - Colon adenocarcinoma(227;5.82e-05)|Kidney(185;0.000364)|KIRC - Kidney renal clear cell carcinoma(229;0.00223)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		GTCTAGGCACGTGTACAGCTG	0.542													6	52					0	0	0.001168	0	0		A	3564057	A	A	3564057	3	1	19	1	0	0	0	0	1	0	0	0	17355	1145	40	1	1289	1	WDR8	1	3564057	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2142500	3564057	245686564	5	13518											
LRRC47	57470	broad.mit.edu	37	chr1	3697778	3697778	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagaagggagggcccgtcCtttccagcactgggattcgt	8	8	13	12	2	0	1	0	0	0	1	3	3	2	3	4	3	1	1	4	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:3697778C>A	uc001akx.1	-	7	1654	c.1626G>T	c.(1624-1626)AAG>AAT	p.K542N		NM_020710	NP_065761	Q8N1G4	LRC47_HUMAN	leucine rich repeat containing 47	542					translation		phenylalanine-tRNA ligase activity|RNA binding			large_intestine(1)|ovary(1)	2	all_cancers(77;0.0375)|Ovarian(185;0.0634)|all_lung(157;0.208)|Lung NSC(156;0.21)	all_epithelial(116;1.34e-16)|all_lung(118;2.53e-06)|Lung NSC(185;0.00028)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;5.49e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.43e-22)|GBM - Glioblastoma multiforme(42;3.69e-16)|Colorectal(212;1.21e-05)|COAD - Colon adenocarcinoma(227;5.87e-05)|Kidney(185;0.000367)|BRCA - Breast invasive adenocarcinoma(365;0.000704)|KIRC - Kidney renal clear cell carcinoma(229;0.00567)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		AGGGCCCGTCCTTTCCAGCAC	0.567													32	94					6.70999e-13	7.05906e-13	0.004289	1	0		A	3697778	A	A	3697778	3	1	19	1	0	0	0	0	1	0	0	0	9022	680	24	5	129	5	LRRC47	1	3697778	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	133721	3697778	245552843	6	13519											
KIAA0562	9731	broad.mit.edu	37	chr1	3768907	3768907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgtggatcatgagctccCgggcactgaagccgtcttcg	6	8	14	13	5	2	2	1	2	1	0	4	3	3	3	2	2	2	2	2	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:3768907C>T	uc001aky.2	-	2	424	c.65G>A	c.(64-66)CGG>CAG	p.R22Q	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Missense_Mutation_p.R22Q	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	22						centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		CATGAGCTCCCGGGCACTGAA	0.592													11	41					0	0	0.010729	0	0		T	3768907	T	T	3768907	3	4	19	1	0	0	0	0	1	0	0	0	8200	652	23	1	2796	1	KIAA0562	1	3768907	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	71129	3768907	245481714	7	13520											
AJAP1	55966	broad.mit.edu	37	chr1	4772104	4772104	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctgccgcggtcgccgccCcggccgccccggctgtggag	1	5	15	20	7	0	0	0	0	0	0	2	1	1	1	8	4	1	1	8	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:4772104C>T	uc001alm.1	+	2	555	c.174C>T	c.(172-174)CCC>CCT	p.P58P	AJAP1_uc001aln.2_Silent_p.P58P	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	58	Extracellular (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		ggtcgccgccccggccgcccc	0.602													4	78					0	0	0.004482	0	0		T	4772104	T	T	4772104	2	4	19	1	0	0	0	0	0	0	0	1	438	610	22	4		4	AJAP1	1	4772104	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1003197	4772104	244478517	8	13521											
NPHP4	261734	broad.mit.edu	37	chr1	5925274	5925274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgcaggagacatccacgCgctgcagggagtggaggtag	10	4	17	10	4	0	1	0	0	0	1	1	5	1	3	1	4	1	4	1	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:5925274C>T	uc001alq.1	-	27	3970	c.3704G>A	c.(3703-3705)CGC>CAC	p.R1235H	NPHP4_uc001alr.1_3'UTR	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	1235					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity	p.R1235R(1)		pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		GACATCCACGCGCTGCAGGGA	0.632													3	6					0	0	0.004672	0	0		T	5925274	T	T	5925274	3	4	19	1	0	0	0	0	1	0	0	0	10600	768	27	1	592	1	NPHP4	1	5925274	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1153170	5925274	243325347	9	13522											
ACOT7	11332	broad.mit.edu	37	chr1	6341163	6341163	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaggatgcgcactcaccAccagctggggcacaggcagc	10	4	12	15	1	1	0	1	0	0	0	2	1	2	1	3	4	3	4	3	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:6341163A>G	uc001ams.2	-	8	1200	c.1043T>C	c.(1042-1044)GTG>GCG	p.V348A	ACOT7_uc010nzq.1_Missense_Mutation_p.V233A|ACOT7_uc001amt.2_Missense_Mutation_p.V338A|ACOT7_uc001amu.2_RNA|ACOT7_uc001amv.2_RNA|ACOT7_uc001amq.2_Missense_Mutation_p.V297A|ACOT7_uc001amr.2_Missense_Mutation_p.V318A	NM_181864	NP_863654	O00154	BACH_HUMAN	acyl-CoA thioesterase 7 isoform hBACHb	348						mitochondrion|nucleus	carboxylesterase activity|fatty-acyl-CoA binding|palmitoyl-CoA hydrolase activity				0	Ovarian(185;0.0634)|all_lung(157;0.175)	all_cancers(23;1.42e-38)|all_epithelial(116;3.96e-23)|all_lung(118;3.69e-08)|Lung NSC(185;8.52e-07)|all_hematologic(16;6.92e-06)|Colorectal(325;4.53e-05)|Acute lymphoblastic leukemia(12;5e-05)|all_neural(13;0.000164)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0393)|Medulloblastoma(700;0.211)		Epithelial(90;9.16e-37)|GBM - Glioblastoma multiforme(13;5.89e-29)|OV - Ovarian serous cystadenocarcinoma(86;7.63e-19)|Colorectal(212;1.27e-07)|COAD - Colon adenocarcinoma(227;2.06e-05)|Kidney(185;7.74e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00129)|BRCA - Breast invasive adenocarcinoma(365;0.00132)|STAD - Stomach adenocarcinoma(132;0.00195)|READ - Rectum adenocarcinoma(331;0.0481)		CGCACTCACCACCAGCTGGGG	0.652											OREG0013034	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	24					0	0	0.001984	0	0		G	6341163	G	G	6341163	3	3	19	1	0	0	0	0	1	0	0	0	155	173	6	3	107	3	ACOT7	1	6341163	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	415889	6341163	242909458	10	13523											
CAMTA1	23261	broad.mit.edu	37	chr1	7724391	7724391	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcgactccaacaaggactAcacgtccagcttcagccaga	13	6	7	15	2	1	1	1	0	0	1	4	3	3	2	3	1	4	1	3	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:7724391A>G	uc001aoi.2	+	9	1991	c.1784A>G	c.(1783-1785)TAC>TGC	p.Y595C		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	595					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		AACAAGGACTACACGTCCAGC	0.677													4	140					0	0	0.009096	0	0		G	7724391	G	G	7724391	3	3	19	1	0	0	0	0	1	0	0	0	2616	391	14	3	1818	3	CAMTA1	1	7724391	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1383228	7724391	241526230	11	13524											
SLC45A1	50651	broad.mit.edu	37	chr1	8384399	8384399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctccccacgatgatccccGcagccagcagcaccccgccg	7	3	8	23	4	0	1	0	1	0	0	2	2	2	1	9	0	3	3	9	0	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:8384399G>A	uc001apb.2	+	1	10	c.10G>A	c.(10-12)GCA>ACA	p.A4T		NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	4					carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		GATGATCCCCGCAGCCAGCAG	0.662													44	103					0	0	0.01441	0	0		A	8384399	A	A	8384399	3	1	19	1	0	0	0	0	1	0	0	0	14665	1087	38	1	12	1	SLC45A1	1	8384399	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	660008	8384399	240866222	12	13525											
PIK3CD	5293	broad.mit.edu	37	chr1	9777080	9777080	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggtccattcctcctccAtcctcgccatgcgggatgag	6	10	9	16	2	0	1	0	1	0	0	6	2	5	2	7	2	1	0	7	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:9777080A>G	uc001aqb.3	+	7	1052	c.844A>G	c.(844-846)ATC>GTC	p.I282V	PIK3CD_uc010oaf.1_Missense_Mutation_p.I282V|PIK3CD_uc001aqe.3_Intron	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	282					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		TTCCTCCTCCATCCTCGCCAT	0.637													20	157					0	0	0.008871	0	0		G	9777080	G	G	9777080	3	3	19	1	0	0	0	0	1	0	0	0	11934	217	8	3	862	3	PIK3CD	1	9777080	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1392681	9777080	239473541	13	13526											
CLSTN1	22883	broad.mit.edu	37	chr1	9795179	9795179	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctcgggctgtaaaaccAtcacgtagccatctaccggg	9	8	10	14	3	2	0	1	0	1	0	4	0	3	0	4	2	3	4	4	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:9795179A>G	uc001aqh.2	-	14	2696	c.1937T>C	c.(1936-1938)ATG>ACG	p.M646T	CLSTN1_uc001aqi.2_Missense_Mutation_p.M636T|CLSTN1_uc010oag.1_Missense_Mutation_p.M627T|CLSTN1_uc001aqf.2_5'Flank	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	646	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		CTGTAAAACCATCACGTAGCC	0.547													12	272					0	0	0.00245	0	0		G	9795179	G	G	9795179	3	3	19	1	0	0	0	0	1	0	0	0	3564	217	8	3	1032	3	CLSTN1	1	9795179	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	18099	9795179	239455442	14	13527											
UBE4B	10277	broad.mit.edu	37	chr1	10211616	10211616	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttccctgatgaagttttatAcaggtaggttgctggaacac	10	13	10	8	0	0	2	0	2	0	0	1	3	1	3	1	3	3	4	1	3	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:10211616A>G	uc001aqs.3	+	21	3636	c.2923A>G	c.(2923-2925)ACA>GCA	p.T975A	UBE4B_uc001aqr.3_Missense_Mutation_p.T846A|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Missense_Mutation_p.T430A|UBE4B_uc001aqt.1_Missense_Mutation_p.T315A	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	975					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		GAAGTTTTATACAGGTAGGTT	0.458													17	128					0	0	0.004007	0	0		G	10211616	G	G	10211616	3	3	19	1	0	0	0	0	1	0	0	0	16909	391	14	3	3005	3	UBE4B	1	10211616	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	416437	10211616	239039005	15	13528											
KIF1B	23095	broad.mit.edu	37	chr1	10381811	10381811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggcccaatgggccttcCggaaatggaagtctcatcag	10	9	12	10	1	2	0	2	0	1	0	4	2	3	2	3	4	0	1	3	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:10381811C>T	uc001aqx.3	+	24	2456	c.2254C>T	c.(2254-2256)CGG>TGG	p.R752W	KIF1B_uc001aqw.3_Missense_Mutation_p.R706W|KIF1B_uc001aqy.2_Missense_Mutation_p.R726W|KIF1B_uc001aqz.2_Missense_Mutation_p.R752W|KIF1B_uc001ara.2_Missense_Mutation_p.R712W|KIF1B_uc001arb.2_Missense_Mutation_p.R738W	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	752					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		ATGGGCCTTCCGGAAATGGAA	0.413													31	72					0	0	0.010818	0	0		T	10381811	T	T	10381811	3	4	19	1	0	0	0	0	1	0	0	0	8300	643	23	1	3687	1	KIF1B	1	10381811	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	170195	10381811	238868810	16	13529											
KIF1B	23095	broad.mit.edu	37	chr1	10397153	10397153	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgacttttcgtctgttgcaAtgactcgttctggtctgtcc	4	17	10	10	2	3	2	0	2	3	0	6	2	4	2	1	1	1	3	1	1	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:10397153A>G	uc001aqx.3	+	30	3353	c.3151A>G	c.(3151-3153)ATG>GTG	p.M1051V	KIF1B_uc001aqw.3_Missense_Mutation_p.M1005V|KIF1B_uc001aqy.2_Missense_Mutation_p.M1025V|KIF1B_uc001aqz.2_Missense_Mutation_p.M1051V|KIF1B_uc001ara.2_Missense_Mutation_p.M1011V|KIF1B_uc001arb.2_Missense_Mutation_p.M1037V	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1051					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		GTCTGTTGCAATGACTCGTTC	0.428													5	443					0	0	0.000602	0	0		G	10397153	G	G	10397153	3	3	19	1	0	0	0	0	1	0	0	0	8300	101	4	3	4608	3	KIF1B	1	10397153	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	15342	10397153	238853468	17	13530											
MASP2	10747	broad.mit.edu	37	chr1	11105575	11105575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtgggcgcctctcccgggGccacctggcactcgtcaatg	5	7	14	15	3	2	0	1	0	1	0	4	0	2	0	4	5	0	1	4	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:11105575G>A	uc001aru.2	-	4	455	c.434C>T	c.(433-435)GCC>GTC	p.A145V	MASP2_uc001arv.2_Missense_Mutation_p.A145V|MASP2_uc001arw.2_3'UTR|MASP2_uc001arx.1_Missense_Mutation_p.A145V	NM_006610	NP_006601	O00187	MASP2_HUMAN	mannan-binding lectin serine protease 2 isoform	145	EGF-like; calcium-binding.				complement activation, classical pathway|complement activation, lectin pathway|proteolysis	extracellular region	calcium ion binding|calcium-dependent protein binding|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.071)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.12e-07)|COAD - Colon adenocarcinoma(227;7.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)|STAD - Stomach adenocarcinoma(313;0.192)		CTCTCCCGGGGCCACCTGGCA	0.672													9	22					0	0	0.006214	0	0		A	11105575	A	A	11105575	3	1	19	1	0	0	0	0	1	0	0	0	9341	1203	42	2	1676	2	MASP2	1	11105575	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	708422	11105575	238145046	18	13531											
C1orf187	374946	broad.mit.edu	37	chr1	11766661	11766661	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggacctgctcctgggactgGcattgccctaccccgagaag	8	7	12	14	1	0	1	0	0	0	1	1	4	1	3	5	3	3	2	5	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:11766661G>C	uc001asr.1	+	2	486	c.346G>C	c.(346-348)GCA>CCA	p.A116P		NM_198545	NP_940947	Q8NBI3	DRAXI_HUMAN	chromosome 1 open reading frame 187 precursor	116					axon guidance|commissural neuron differentiation in spinal cord|dorsal spinal cord development|forebrain development|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region					0	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.48e-06)|COAD - Colon adenocarcinoma(227;0.000283)|BRCA - Breast invasive adenocarcinoma(304;0.000316)|Kidney(185;0.000841)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|STAD - Stomach adenocarcinoma(313;0.00754)|READ - Rectum adenocarcinoma(331;0.0651)		CCTGGGACTGGCATTGCCCTA	0.652													11	19					0	0	0.003163	0	0		C	11766661	C	C	11766661	3	2	19	1	0	0	0	0	1	0	0	0	2024	1203	42	5	348	5	C1orf187	1	11766661	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	661086	11766661	237483960	19	13532											
PRDM2	7799	broad.mit.edu	37	chr1	14108285	14108285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccacagactttcactaccgCcattcgctgcacaaagtgtg	10	10	7	14	2	1	1	1	0	0	1	3	1	2	1	3	0	2	2	3	0	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:14108285C>T	uc001avi.2	+	8	4851	c.3995C>T	c.(3994-3996)GCC>GTC	p.A1332V	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.A1332V|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.A1131V|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1332						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		TTCACTACCGCCATTCGCTGC	0.473													5	207					0	0	0.001984	0	0		T	14108285	T	T	14108285	3	4	19	1	0	0	0	0	1	0	0	0	12480	739	26	2	4021	2	PRDM2	1	14108285	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2341624	14108285	235142336	20	13533											
PRDM2	7799	broad.mit.edu	37	chr1	14108339	14108339	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatatgccggagttgcacaAacatatcctggcttgtgctt	10	12	9	10	1	0	0	0	0	0	0	1	1	1	1	2	2	4	4	2	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:14108339A>G	uc001avi.2	+	8	4905	c.4049A>G	c.(4048-4050)AAA>AGA	p.K1350R	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.K1350R|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.K1149R|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1350	C2H2-type 7; atypical.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GAGTTGCACAAACATATCCTG	0.448													9	171					0	0	0.006214	0	0		G	14108339	G	G	14108339	3	3	19	1	0	0	0	0	1	0	0	0	12480	14	1	3	4075	3	PRDM2	1	14108339	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	54	14108339	235142282	21	13534											
TMEM51	55092	broad.mit.edu	37	chr1	15541903	15541903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccagcacccgacaggcgctgGgcctcacgcccaggaggaag	9	2	14	16	3	1	0	1	0	0	0	1	3	1	2	4	4	1	2	4	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:15541903G>A	uc001avw.3	+	3	839	c.320G>A	c.(319-321)GGG>GAG	p.G107E	TMEM51_uc010obk.1_Missense_Mutation_p.G107E|TMEM51_uc001avz.2_Missense_Mutation_p.G107E|TMEM51_uc001avy.2_Missense_Mutation_p.G107E|TMEM51_uc001avx.2_Missense_Mutation_p.G107E	NM_001136216	NP_001129688	Q9NW97	TMM51_HUMAN	transmembrane protein 51	107						integral to membrane					0		Renal(390;0.00145)|Breast(348;0.00186)|Colorectal(325;0.00215)|all_lung(284;0.00459)|Lung NSC(340;0.0104)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;2.07e-06)|COAD - Colon adenocarcinoma(227;7.14e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000175)|KIRC - Kidney renal clear cell carcinoma(229;0.00141)|STAD - Stomach adenocarcinoma(313;0.00644)|READ - Rectum adenocarcinoma(331;0.0751)		ACAGGCGCTGGGCCTCACGCC	0.622													10	15					0	0	0.004007	0	0		A	15541903	A	A	15541903	3	1	19	1	0	0	0	0	1	0	0	0	16202	1232	43	4	322	4	TMEM51	1	15541903	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1433564	15541903	233708718	22	13535											
SPEN	23013	broad.mit.edu	37	chr1	16199578	16199578	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggagggcctgcttatggTcccccaccgtcacttcatgc	5	10	12	14	1	2	0	2	0	0	0	3	1	3	1	4	4	2	1	4	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:16199578T>C	uc001axk.1	+	2	555	c.351T>C	c.(349-351)GGT>GGC	p.G117G	SPEN_uc010obp.1_5'Flank	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	117	By similarity.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CTGCTTATGGTCCCCCACCGT	0.502													26	53					0	0	0.003271	0	0		C	16199578	C	C	16199578	2	2	19	1	0	0	0	0	0	0	0	1	15063	1654	58	3		3	SPEN	1	16199578	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	657675	16199578	233051043	23	13536											
SPEN	23013	broad.mit.edu	37	chr1	16255224	16255224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acgcaaaggaaaggttcactCccctagttctcagtcttcag	11	10	8	12	1	4	0	3	0	2	0	6	1	5	1	2	2	0	3	2	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:16255224C>T	uc001axk.1	+	11	2693	c.2489C>T	c.(2488-2490)TCC>TTC	p.S830F	SPEN_uc010obp.1_Missense_Mutation_p.S789F	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	830					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AAGGTTCACTCCCCTAGTTCT	0.458													37	73					0	0	0.005524	0	0		T	16255224	T	T	16255224	3	4	19	1	0	0	0	0	1	0	0	0	15063	855	30	4	2531	4	SPEN	1	16255224	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	55646	16255224	232995397	24	13537											
CLCNKA	1187	broad.mit.edu	37	chr1	16355671	16355671	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcgacaaccactcctgggcGctgatgacccagaactccag	10	7	9	15	2	0	3	0	2	0	1	3	4	2	3	4	1	2	1	4	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:16355671G>A	uc001axu.2	+	12	1184	c.1104G>A	c.(1102-1104)GCG>GCA	p.A368A	CLCNKA_uc001axt.2_RNA|CLCNKA_uc001axv.2_Silent_p.A368A|CLCNKA_uc010obw.1_Silent_p.A325A|CLCNKB_uc001axw.3_Intron|CLCNKA_uc010obx.1_Silent_p.A15A|CLCNKA_uc010oby.1_Missense_Mutation_p.A98T	NM_004070	NP_004061	P51800	CLCKA_HUMAN	chloride channel Ka isoform 1	368					excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)	Niflumic Acid(DB04552)	ACTCCTGGGCGCTGATGACCC	0.652													12	39					0	0	0.001855	0	0		A	16355671	A	A	16355671	2	1	19	1	0	0	0	0	0	0	0	1	3472	1074	38	1		1	CLCNKA	1	16355671	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	100447	16355671	232894950	25	13538											
EPHA2	1969	broad.mit.edu	37	chr1	16475193	16475193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgagcggccccacggagCgctcctccacgttcagcttc	5	7	13	16	4	1	1	1	1	0	0	4	2	3	2	4	3	3	3	4	3	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:16475193C>T	uc001aya.1	-	3	640	c.503G>A	c.(502-504)CGC>CAC	p.R168H	EPHA2_uc010oca.1_Missense_Mutation_p.R168H	NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	168	Extracellular (Potential).				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	CCCCACGGAGCGCTCCTCCAC	0.607													23	30					0	0	0.014323	0	0		T	16475193	T	T	16475193	3	4	19	1	0	0	0	0	1	0	0	0	5175	768	27	1	2487	1	EPHA2	1	16475193	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	119522	16475193	232775428	26	13539											
NECAP2	55707	broad.mit.edu	37	chr1	16767271	16767271	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcgcgatggaggagagcggGtacgagtcggtgctctgtgt	6	9	19	7	5	1	1	0	0	1	1	3	5	1	2	0	4	3	2	0	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:16767271G>A	uc001ayo.2	+	1	105	c.15G>A	c.(13-15)GGG>GGA	p.G5G	NECAP2_uc001ayp.3_RNA|NECAP2_uc010ocd.1_Splice_Site_p.G5_splice|NECAP2_uc001ayq.2_Silent_p.G5G	NM_018090	NP_060560	Q9NVZ3	NECP2_HUMAN	NECAP endocytosis associated 2 isoform 1	5					endocytosis|protein transport	clathrin vesicle coat|coated pit|plasma membrane					0		Colorectal(325;0.000147)|Renal(390;0.00145)|Lung NSC(340;0.00215)|Breast(348;0.00224)|all_lung(284;0.00351)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(227;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|Kidney(64;0.000181)|KIRC - Kidney renal clear cell carcinoma(64;0.00268)|STAD - Stomach adenocarcinoma(196;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		AGGAGAGCGGGTACGAGTCGG	0.652											OREG0013136	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	45					0	0	0.003163	0	0		A	16767271	A	A	16767271	2	1	19	1	0	0	0	0	0	0	0	1	10327	1275	44	4		4	NECAP2	1	16767271	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	292078	16767271	232483350	27	13540											
NBPF1	55672	broad.mit.edu	37	chr1	16913558	16913558	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctacctgggagaatgttTacagcatcctgacattcatc	11	11	9	10	0	1	2	1	1	0	1	3	3	2	2	2	2	3	3	2	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:16913558T>C	uc009vos.1	-	11	1653	c.765A>G	c.(763-765)GTA>GTG	p.V255V	NBPF1_uc009vot.1_5'UTR|NBPF1_uc001ayz.1_5'UTR|NBPF1_uc010oce.1_Intron	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	255	NBPF 1.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		GGAGAATGTTTACAGCATCCT	0.418													8	719					0	0	0.001168	0	0		C	16913558	C	C	16913558	2	2	19	1	0	0	0	0	0	0	0	1	10210	1741	61	3		3	NBPF1	1	16913558	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	146287	16913558	232337063	28	13541											
PADI2	11240	broad.mit.edu	37	chr1	17418998	17418998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggtcggggcctttggtcCgcaggatcatctgggacatg	5	9	17	10	3	2	0	1	0	1	0	4	2	3	2	2	7	0	1	2	7	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:17418998C>T	uc001baf.2	-	6	642	c.560G>A	c.(559-561)CGG>CAG	p.R187Q	PADI2_uc010ocm.1_Intron|PADI2_uc001bag.1_Missense_Mutation_p.R187Q	NM_007365	NP_031391	Q9Y2J8	PADI2_HUMAN	peptidyl arginine deiminase, type II	187					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(3)|pancreas(1)|central_nervous_system(1)|skin(1)	6		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000422)|Renal(390;0.000518)|all_lung(284;0.000546)|Ovarian(437;0.00671)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;1.49e-05)|COAD - Colon adenocarcinoma(227;1.54e-05)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)	L-Citrulline(DB00155)	GCCTTTGGTCCGCAGGATCAT	0.527													22	50					0	0	0.014323	0	0		T	17418998	T	T	17418998	3	4	19	1	0	0	0	0	1	0	0	0	11397	652	23	1	1481	1	PADI2	1	17418998	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	505440	17418998	231831623	29	13542											
UBR4	23352	broad.mit.edu	37	chr1	19473418	19473418	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcactagcctctggaacAcctcagggtccaaatccttg	10	10	8	13	0	3	1	2	1	1	0	5	2	5	2	4	2	2	0	4	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:19473418A>G	uc001bbi.2	-	52	7710	c.7706T>C	c.(7705-7707)GTG>GCG	p.V2569A	UBR4_uc001bbk.1_Missense_Mutation_p.V223A	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2569					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CCTCTGGAACACCTCAGGGTC	0.522													22	273					0	0	0.004656	0	0		G	19473418	G	G	19473418	3	3	19	1	0	0	0	0	1	0	0	0	16930	159	6	3	8065	3	UBR4	1	19473418	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2054420	19473418	229777203	30	13543											
AKR7A2	8574	broad.mit.edu	37	chr1	19632510	19632510	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcacccagggtcgctggttAcctgcagctgtgagtggtgg	6	9	16	10	1	0	1	0	1	0	0	1	1	0	1	2	4	4	5	2	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:19632510A>G	uc001bbw.2	-	6	940	c.918_splice	c.e6+1	p.Q306_splice	AKR7A2_uc001bbx.2_Splice_Site_p.Q271_splice	NM_003689	NP_003680	O43488	ARK72_HUMAN	aldo-keto reductase family 7, member A2						carbohydrate metabolic process|cellular aldehyde metabolic process	Golgi apparatus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00461)|BRCA - Breast invasive adenocarcinoma(304;1.83e-05)|Kidney(64;0.000167)|GBM - Glioblastoma multiforme(114;0.00115)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GTCGCTGGTTACCTGCAGCTG	0.592													19	75					0	0	0.00278	0	0		G	19632510	G	G	19632510	5	3	19	1	0	0	0	0	0	0	1	0	475	405	14	3	167	3	AKR7A2	1	19632510	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	159092	19632510	229618111	31	13544											
MUL1	79594	broad.mit.edu	37	chr1	20827485	20827485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaatgaagaagagggtggCacatgtggcaaagccaaaaa	18	4	14	5	0	0	4	0	1	0	3	0	5	0	4	1	3	1	2	1	3	6	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:20827485C>T	uc001bdi.3	-	4	914	c.757G>A	c.(757-759)GCC>ACC	p.A253T		NM_024544	NP_078820	Q969V5	MUL1_HUMAN	mitochondrial ubiquitin ligase activator of NFKB	253	Helical; (Potential).				activation of caspase activity|activation of JUN kinase activity|induction of apoptosis|mitochondrial fission|mitochondrion localization|negative regulation of cell growth|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to mitochondrial outer membrane|nucleus|peroxisome	identical protein binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00748)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000137)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)		AAGAGGGTGGCACATGTGGCA	0.597													24	50					0	0	0.004656	0	0		T	20827485	T	T	20827485	3	4	19	1	0	0	0	0	1	0	0	0	10002	710	25	2	305	2	MUL1	1	20827485	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1194975	20827485	228423136	32	13545											
PINK1	65018	broad.mit.edu	37	chr1	20971106	20971106	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactaccctgatgtgctgccCtcacgcctccaccctgaagg	7	8	9	17	1	1	2	1	2	0	0	2	3	2	2	5	1	3	1	5	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:20971106C>A	uc001bdm.2	+	4	994	c.900C>A	c.(898-900)CCC>CCA	p.P300P		NM_032409	NP_115785	Q9BXM7	PINK1_HUMAN	PTEN induced putative kinase 1 precursor	300	Protein kinase.|Cytoplasmic (Potential).				cell death|intracellular protein kinase cascade|mitochondrion degradation|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of release of cytochrome c from mitochondria|regulation of protein complex assembly|regulation of protein ubiquitination|response to stress	cytosol|integral to membrane|mitochondrial outer membrane	ATP binding|C3HC4-type RING finger domain binding|calcium-dependent protein kinase activity|magnesium ion binding|protein serine/threonine kinase activity|ubiquitin protein ligase binding			ovary(2)|central_nervous_system(1)	3		all_lung(284;2.72e-05)|Lung NSC(340;2.94e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.21e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000146)|Kidney(64;0.000182)|GBM - Glioblastoma multiforme(114;0.000497)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		ATGTGCTGCCCTCACGCCTCC	0.632													5	135					0.00198382	0.00202215	0.001984	1	0		A	20971106	A	A	20971106	2	1	19	1	0	0	0	0	0	0	0	1	11951	668	24	5		5	PINK1	1	20971106	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	143621	20971106	228279515	33	13546											
HSPG2	3339	broad.mit.edu	37	chr1	22158013	22158013	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accatagtcaggatagccacCcaggtagagttcctcgttca	11	9	9	12	1	2	1	2	0	0	1	4	2	3	2	4	2	1	3	4	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:22158013C>A	uc001bfj.2	-	83	11435	c.11395G>T	c.(11395-11397)GGT>TGT	p.G3799C	HSPG2_uc001bfi.2_5'Flank|HSPG2_uc009vqd.2_Missense_Mutation_p.G3800C	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3799	Laminin G-like 1.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GGATAGCCACCCAGGTAGAGT	0.637													7	102					8.12818e-05	8.32487e-05	0.001984	1	0		A	22158013	A	A	22158013	3	1	19	1	0	0	0	0	1	0	0	0	7446	623	22	5	1840	5	HSPG2	1	22158013	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1186907	22158013	227092608	34	13547											
CDC42	998	broad.mit.edu	37	chr1	22417930	22417930	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccttttcagaaaggcctaAagaatgtatttgacgaagca	14	10	8	9	1	1	3	1	1	0	2	1	4	1	3	3	1	1	2	3	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:22417930A>G	uc001bfq.2	+	7	788	c.496A>G	c.(496-498)AAG>GAG	p.K166E	CDC42_uc001bfr.2_Missense_Mutation_p.K166E|CDC42_uc010odr.1_Missense_Mutation_p.K211E|CDC42_uc010ods.1_Missense_Mutation_p.K208E|CDC42_uc009vqh.2_Missense_Mutation_p.K125E	NM_001039802	NP_001034891	P60953	CDC42_HUMAN	cell division cycle 42 isoform 1	166					actin cytoskeleton organization|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|establishment or maintenance of cell polarity|macrophage differentiation|muscle cell differentiation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of protein complex assembly|positive regulation of muscle cell differentiation|positive regulation of pseudopodium assembly|regulation of filopodium assembly|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|filopodium|plasma membrane	GTP binding|GTPase activity|protein binding|thioesterase binding			haematopoietic_and_lymphoid_tissue(1)	1		Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;6.55e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)|Prostate(1639;0.0792)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0452)|OV - Ovarian serous cystadenocarcinoma(117;7.32e-26)|Colorectal(126;1.35e-07)|COAD - Colon adenocarcinoma(152;7.73e-06)|GBM - Glioblastoma multiforme(114;8.62e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000649)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00767)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.207)		GAAAGGCCTAAAGAATGTATT	0.433													26	66					0	0	0.012213	0	0		G	22417930	G	G	22417930	3	3	19	1	0	0	0	0	1	0	0	0	3074	15	1	3	608	3	CDC42	1	22417930	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	259917	22417930	226832691	35	13548											
EPHB2	2048	broad.mit.edu	37	chr1	23111412	23111412	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgggggctgagagcacatcGctggtggctgcccggggcag	5	6	19	11	3	0	1	0	1	0	1	2	2	0	1	1	6	2	5	1	6	0	0	rs149351655	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:23111412G>A	uc009vqj.1	+	3	799	c.654G>A	c.(652-654)TCG>TCA	p.S218S	EPHB2_uc001bge.2_Silent_p.S218S|EPHB2_uc001bgf.2_Silent_p.S218S|EPHB2_uc010odu.1_Silent_p.S218S	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	218	Extracellular (Potential).|Cys-rich.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		AGAGCACATCGCTGGTGGCTG	0.627									Hereditary_Prostate_Cancer				13	42					0	0	0.005443	0	0		A	23111412	A	A	23111412	2	1	19	1	0	0	0	0	0	0	0	1	5183	1074	38	1		1	EPHB2	1	23111412	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	693482	23111412	226139209	36	13549											
KDM1A	23028	broad.mit.edu	37	chr1	23376978	23376978	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatcagtggaccacaacagAcccagaaggtttttcttttc	11	13	7	10	0	2	2	1	0	1	2	3	3	2	3	2	2	1	1	2	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:23376978A>G	uc001bgi.2	+	3	765	c.616A>G	c.(616-618)ACC>GCC	p.T206A	KDM1A_uc001bgj.2_Missense_Mutation_p.T226A	NM_015013	NP_055828	O60341	KDM1A_HUMAN	lysine-specific histone demethylase 1 isoform b	206	SWIRM.				blood coagulation|muscle cell development|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of protein binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin	androgen receptor binding|chromatin binding|enzyme binding|flavin adenine dinucleotide binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-K9 specific)|ligand-dependent nuclear receptor transcription coactivator activity|MyoD binding|oxidoreductase activity|p53 binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2						ACCACAACAGACCCAGAAGGT	0.363													4	187					0	0	0.000602	0	0		G	23376978	G	G	23376978	3	3	19	1	0	0	0	0	1	0	0	0	8138	275	10	3	690	3	KDM1A	1	23376978	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	265566	23376978	225873643	37	13550											
KDM1A	23028	broad.mit.edu	37	chr1	23399803	23399803	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgatgtatatctctcatcAagagacagacaaatacttga	16	11	7	7	0	3	4	2	2	1	2	4	5	3	4	0	0	1	1	0	0	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:23399803A>G	uc001bgi.2	+	13	1718	c.1569A>G	c.(1567-1569)TCA>TCG	p.S523S	KDM1A_uc001bgj.2_Silent_p.S547S	NM_015013	NP_055828	O60341	KDM1A_HUMAN	lysine-specific histone demethylase 1 isoform b	523	Demethylase activity.				blood coagulation|muscle cell development|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of protein binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin	androgen receptor binding|chromatin binding|enzyme binding|flavin adenine dinucleotide binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-K9 specific)|ligand-dependent nuclear receptor transcription coactivator activity|MyoD binding|oxidoreductase activity|p53 binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2						ATCTCTCATCAAGAGACAGAC	0.383													13	125					0	0	0.013537	0	0		G	23399803	G	G	23399803	2	3	19	1	0	0	0	0	0	0	0	1	8138	117	5	3		3	KDM1A	1	23399803	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	22825	23399803	225850818	38	13551											
TCEA3	6920	broad.mit.edu	37	chr1	23751214	23751214	+	Translation_Start_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgaaggcggagggcgcgcaAcccgcgcgggccccaaacac	9	0	16	16	7	0	0	0	0	0	0	0	2	0	1	3	4	2	1	3	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:23751214A>T	uc001bgx.1	-	1	48	c.-87T>A	c.(-89--85)GGTTG>GGATG		TCEA3_uc009vqn.1_Translation_Start_Site|TCEA3_uc010ody.1_Translation_Start_Site	NM_003196	NP_003187	O75764	TCEA3_HUMAN	transcription elongation factor A (SII), 3						regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation, DNA-dependent	nucleus	DNA binding|translation elongation factor activity|zinc ion binding				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.16e-05)|all_lung(284;6.68e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.0054)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.6e-25)|Colorectal(126;8.32e-08)|COAD - Colon adenocarcinoma(152;4.29e-06)|GBM - Glioblastoma multiforme(114;9e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00424)|STAD - Stomach adenocarcinoma(196;0.0145)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0963)|LUSC - Lung squamous cell carcinoma(448;0.198)		AGGGCGCGCAACCCGCGCGGG	0.781													4	21					0	0	0.000602	0	0		T	23751214	T	T	23751214	1	4	19	1	0	0	0	0	0	0	0	0	15694	58	2	5		5	TCEA3	1	23751214	Translation_Start_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	351411	23751214	225499407	39	13552											
C1orf128	57095	broad.mit.edu	37	chr1	24113776	24113776	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgcagcttcgccgacaCgaggtgaccatctgcaatta	9	11	9	12	3	2	1	0	1	2	0	3	3	2	1	2	1	3	3	2	1	2	4	rs145680822	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:24113776C>T	uc001bhq.2	+	6	676	c.546C>T	c.(544-546)CAC>CAT	p.H182H	C1orf128_uc010oeb.1_Silent_p.H89H	NM_020362	NP_065095	Q9GZP4	PITH1_HUMAN	chromosome 1 open reading frame 128	182	PITH.										0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.0034)|all_lung(284;0.00519)|Breast(348;0.0222)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0561)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;1.97e-24)|Colorectal(126;5.06e-08)|COAD - Colon adenocarcinoma(152;2.92e-06)|GBM - Glioblastoma multiforme(114;4.4e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|KIRC - Kidney renal clear cell carcinoma(1967;0.00322)|STAD - Stomach adenocarcinoma(196;0.0124)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0837)|LUSC - Lung squamous cell carcinoma(448;0.185)		TTCGCCGACACGAGGTGACCA	0.507													14	35					0	0	0.00245	0	0		T	24113776	T	T	24113776	2	4	19	1	0	0	0	0	0	0	0	1	1998	535	19	1		1	C1orf128	1	24113776	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	362562	24113776	225136845	40	13553											
MYOM3	127294	broad.mit.edu	37	chr1	24397622	24397624	+	In_Frame_Del	DEL	CTC	-	-																															attaccggcgagctgaagatCtccttgttgttgaagattag																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:24397622_24397624delCTC	uc001bin.3	-	25	3296_3298	c.3133_3135delGAG	c.(3133-3135)GAGdel	p.E1045del	MYOM3_uc001bim.3_In_Frame_Del_p.E702del|MYOM3_uc001bio.2_In_Frame_Del_p.E1045del	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	1045										skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		AGCTGAAGATCTCCTTGTTGTTG	0.532											OREG0013235	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	54	---	---	---	---						.	-	24397624	-	-	24397622	7	5	19	1	0	1	0	1	0	0	0	0	10111	912	32	0	1230	0	MYOM3	1	24397622	In_Frame_Del	DEL	CTC	TCGA-BR-4361-01A-01D-1158-08	283846	24397622	224852999	41	13554											
MYOM3	127294	broad.mit.edu	37	chr1	24421461	24421461	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaccgaggtgaattccacGctggggccaaacgtcgatcc	10	6	12	13	4	0	1	0	1	0	0	3	3	2	1	4	3	2	2	4	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:24421461G>A	uc001bin.3	-	9	973	c.810C>T	c.(808-810)AGC>AGT	p.S270S	MYOM3_uc001bim.3_5'UTR|MYOM3_uc001bio.2_Silent_p.S270S|MYOM3_uc001bip.1_5'UTR	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	270	Ig-like C2-type 2.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		TGAATTCCACGCTGGGGCCAA	0.527													12	23					0	0	0.003163	0	0		A	24421461	A	A	24421461	2	1	19	1	0	0	0	0	0	0	0	1	10111	1078	38	1		1	MYOM3	1	24421461	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	23839	24421461	224829160	42	13555											
GRHL3	57822	broad.mit.edu	37	chr1	24664485	24664485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaactgtgcttgcagagtGtggtgatggttgtcttcgac	7	13	13	8	1	1	2	0	1	1	1	2	3	1	2	1	2	3	3	1	2	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:24664485G>A	uc001biy.2	+	7	905	c.859G>A	c.(859-861)GTG>ATG	p.V287M	GRHL3_uc001bix.2_Missense_Mutation_p.V282M|GRHL3_uc001biz.2_Missense_Mutation_p.V189M	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	282					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		CTTGCAGAGTGTGGTGATGGT	0.572													21	67					0	0	0.012319	0	0		A	24664485	A	A	24664485	3	1	19	1	0	0	0	0	1	0	0	0	6781	1377	48	4	906	4	GRHL3	1	24664485	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	243024	24664485	224586136	43	13556											
MAN1C1	57134	broad.mit.edu	37	chr1	26013011	26013011	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccactaacaaaagatggctaCgagggtaacatgttcggtga	14	8	11	8	2	0	2	0	1	0	1	1	3	0	2	1	3	3	3	1	3	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:26013011C>T	uc001bkm.2	+	2	951	c.621C>T	c.(619-621)TAC>TAT	p.Y207Y	MAN1C1_uc009vry.1_Silent_p.Y27Y	NM_020379	NP_065112	Q9NR34	MA1C1_HUMAN	mannosidase, alpha, class 1C, member 1	207	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(1)	1		Colorectal(325;3.78e-05)|Lung NSC(340;0.000181)|all_lung(284;0.000245)|Renal(390;0.000714)|Ovarian(437;0.00159)|Breast(348;0.0156)|Myeloproliferative disorder(586;0.0257)|all_neural(195;0.0515)|Esophageal squamous(538;0.232)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0574)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.15e-07)|COAD - Colon adenocarcinoma(152;4.31e-06)|STAD - Stomach adenocarcinoma(196;0.00125)|BRCA - Breast invasive adenocarcinoma(304;0.00141)|KIRC - Kidney renal clear cell carcinoma(1967;0.00146)|GBM - Glioblastoma multiforme(114;0.0149)|READ - Rectum adenocarcinoma(331;0.0803)		AAGATGGCTACGAGGGTAACA	0.473													37	106					0	0	0.00623	0	0		T	26013011	T	T	26013011	2	4	19	1	0	0	0	0	0	0	0	1	9231	547	19	1		1	MAN1C1	1	26013011	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1348526	26013011	223237610	44	13557											
C1orf135	79000	broad.mit.edu	37	chr1	26164013	26164013	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttctccaggaaggagtgtTagcattttggtgcctggttt	6	16	12	7	0	1	0	0	0	1	0	2	2	1	2	2	4	2	3	2	4	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:26164013T>C	uc001bkw.1	-	2	111	c.111A>G	c.(109-111)CTA>CTG	p.L37L		NM_024037	NP_076942	Q9H7T9	CA135_HUMAN	aurora A-binding protein	37											0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00521)|all_lung(284;0.00764)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.117)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0429)|OV - Ovarian serous cystadenocarcinoma(117;3.28e-25)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;1.75e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000787)|BRCA - Breast invasive adenocarcinoma(304;0.00102)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.015)|READ - Rectum adenocarcinoma(331;0.0649)		GAAGGAGTGTTAGCATTTTGG	0.363													7	129					0	0	0.00308	0	0		C	26164013	C	C	26164013	2	2	19	1	0	0	0	0	0	0	0	1	2002	1741	61	3		3	C1orf135	1	26164013	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	151002	26164013	223086608	45	13558											
ARID1A	8289	broad.mit.edu	37	chr1	27087503	27087503	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctcacctgcctggcatcCgaggcccttccccgtcccct	3	8	7	23	2	1	0	1	0	0	0	4	1	4	0	10	2	1	1	10	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:27087503C>T	uc001bmv.1	+	5	2450	c.2077C>T	c.(2077-2079)CGA>TGA	p.R693*	ARID1A_uc001bmt.1_Nonsense_Mutation_p.R693*|ARID1A_uc001bmu.1_Nonsense_Mutation_p.R693*|ARID1A_uc001bmw.1_Nonsense_Mutation_p.R310*	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	693					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		GCCTGGCATCCGAGGCCCTTC	0.602			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								24	62					0	0	0.00333	0	0		T	27087503	T	T	27087503	4	4	19	1	0	0	0	0	0	1	0	0	913	644	23	1	2095	1	ARID1A	1	27087503	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	923490	27087503	222163118	46	13559											
PIGV	55650	broad.mit.edu	37	chr1	27121133	27121133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcctttgccactggggtacGctccaacgggctggtcagtg	5	10	14	12	2	1	0	1	0	0	0	2	0	2	0	3	4	4	3	3	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:27121133G>A	uc001bmz.2	+	3	939	c.608G>A	c.(607-609)CGC>CAC	p.R203H	PIGV_uc001bmy.2_Intron|PIGV_uc009vso.2_Missense_Mutation_p.R203H|PIGV_uc010ofg.1_Intron|PIGV_uc001bna.2_Missense_Mutation_p.R203H	NM_017837	NP_060307	Q9NUD9	PIGV_HUMAN	phosphatidylinositol glycan class V	203	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	glycolipid mannosyltransferase activity			ovary(1)	1		all_cancers(24;3.93e-26)|all_epithelial(13;3.96e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.26e-54)|Epithelial(14;2.85e-53)|OV - Ovarian serous cystadenocarcinoma(117;1.91e-30)|Colorectal(126;1.31e-09)|COAD - Colon adenocarcinoma(152;3.45e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000504)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.0222)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.153)|LUSC - Lung squamous cell carcinoma(448;0.227)		ACTGGGGTACGCTCCAACGGG	0.527													27	75					0	0	0.008361	0	0		A	27121133	A	A	27121133	3	1	19	1	0	0	0	0	1	0	0	0	11920	1087	38	1	614	1	PIGV	1	27121133	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	33630	27121133	222129488	47	13560											
MAP3K6	9064	broad.mit.edu	37	chr1	27688286	27688286	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagtgggcacggcgtggtggCcctccagggggctctggcgt	4	7	19	11	3	1	0	0	0	1	0	2	0	2	0	2	7	0	2	2	7	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:27688286C>T	uc001bny.1	-	10	1737	c.1488G>A	c.(1486-1488)GGG>GGA	p.G496G	MAP3K6_uc009vsw.1_Silent_p.G488G|MAP3K6_uc001bnz.1_Silent_p.G19G	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	496					activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		GGCGTGGTGGCCCTCCAGGGG	0.612													4	11					0	0	0.000602	0	0		T	27688286	T	T	27688286	2	4	19	1	0	0	0	0	0	0	0	1	9272	726	26	2		2	MAP3K6	1	27688286	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	567153	27688286	221562335	48	13561											
GPR3	2827	broad.mit.edu	37	chr1	27721144	27721144	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccacctctctacacctatcTtaccttgctccctgccacct	6	13	2	20	0	2	0	0	0	2	0	5	0	4	0	7	0	4	1	7	0	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:27721144T>C	uc001bod.2	+	2	937	c.842T>C	c.(841-843)CTT>CCT	p.L281P		NM_005281	NP_005272	P46089	GPR3_HUMAN	G protein-coupled receptor 3	281	Helical; Name=7; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane				ovary(1)	1		Breast(348;1.53e-05)|Ovarian(437;0.0606)|all_lung(284;0.157)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;2.81e-26)|Colorectal(126;1.24e-08)|KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;4.45e-06)|Lung(427;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|LUSC - Lung squamous cell carcinoma(448;0.008)|READ - Rectum adenocarcinoma(331;0.0419)		TACACCTATCTTACCTTGCTC	0.572													12	195					0	0	0.010729	0	0		C	27721144	C	C	27721144	3	2	19	1	0	0	0	0	1	0	0	0	6701	1609	56	3	844	3	GPR3	1	27721144	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	32858	27721144	221529477	49	13562											
AHDC1	27245	broad.mit.edu	37	chr1	27875576	27875576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcggtggggcatagccggcGctgtgggcgctgctgggtga	3	7	22	9	4	0	1	0	1	0	0	0	1	0	1	1	7	2	4	1	7	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:27875576G>A	uc009vsy.2	-	6	4020	c.3051C>T	c.(3049-3051)AGC>AGT	p.S1017S	AHDC1_uc009vsz.1_Silent_p.S1017S	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	1017							DNA binding			central_nervous_system(1)	1		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		CATAGCCGGCGCTGTGGGCGC	0.662													14	13					0	0	0.004007	0	0		A	27875576	A	A	27875576	2	1	19	1	0	0	0	0	0	0	0	1	412	1078	38	1		1	AHDC1	1	27875576	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	154432	27875576	221375045	50	13563											
PTAFR	5724	broad.mit.edu	37	chr1	28477221	28477221	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacgcccaggaaggccacAgagcagtaggtgttgatgaa	13	6	14	8	1	0	4	0	3	0	1	0	5	0	5	2	3	1	3	2	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:28477221A>G	uc001bpl.2	-	2	439	c.312T>C	c.(310-312)TCT>TCC	p.S104S	PTAFR_uc001bpm.3_Silent_p.S104S|PTAFR_uc009vte.2_Silent_p.S104S	NM_000952	NP_000943	P25105	PTAFR_HUMAN	platelet-activating factor receptor	104	Helical; Name=3; (Potential).				chemotaxis|inflammatory response|interferon-gamma-mediated signaling pathway|phosphatidylinositol-mediated signaling	integral to plasma membrane|nucleus	phospholipid binding|platelet activating factor receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00715)|all_lung(284;0.00732)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.215)|OV - Ovarian serous cystadenocarcinoma(117;6e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|STAD - Stomach adenocarcinoma(196;0.00678)|READ - Rectum adenocarcinoma(331;0.0649)		GGAAGGCCACAGAGCAGTAGG	0.527													5	135					0	0	0.001168	0	0		G	28477221	G	G	28477221	2	3	19	1	0	0	0	0	0	0	0	1	12745	175	7	3		3	PTAFR	1	28477221	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	601645	28477221	220773400	51	13564											
GMEB1	10691	broad.mit.edu	37	chr1	29016643	29016643	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagctgggtcggagaacaaCacggcagttgtagcagtaga	13	6	15	7	2	0	2	0	0	0	2	1	4	0	2	0	3	4	6	0	3	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:29016643C>A	uc001bra.2	+	3	324	c.186C>A	c.(184-186)AAC>AAA	p.N62K	GMEB1_uc001bqz.2_Missense_Mutation_p.N52K|GMEB1_uc001brb.2_Missense_Mutation_p.N52K	NM_006582	NP_006573	Q9Y692	GMEB1_HUMAN	glucocorticoid modulatory element binding	62					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|metal ion binding|transcription coactivator activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;0.000451)|all_lung(284;0.00063)|Breast(348;0.00502)|Renal(390;0.00555)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0221)|KIRC - Kidney renal clear cell carcinoma(1967;0.0296)|READ - Rectum adenocarcinoma(331;0.0649)		CGGAGAACAACACGGCAGTTG	0.323													18	48					5.26018e-13	5.53863e-13	0.012319	1	0		A	29016643	A	A	29016643	3	1	19	1	0	0	0	0	1	0	0	0	6502	477	17	5	192	5	GMEB1	1	29016643	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	539422	29016643	220233978	52	13565											
SFRS4	6429	broad.mit.edu	37	chr1	29475692	29475692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctttcttgctccggctccGactctggctccggctccggc	1	12	10	18	4	3	0	0	0	3	0	7	1	7	0	4	4	1	4	4	4	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:29475692G>A	uc001bro.2	-	6	1088	c.715C>T	c.(715-717)CGG>TGG	p.R239W	SFRS4_uc010ofy.1_Missense_Mutation_p.S137L	NM_005626	NP_005617	Q08170	SRSF4_HUMAN	splicing factor, arginine/serine-rich 4	239	Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|RNA binding				0		Colorectal(325;0.00161)|Breast(348;0.0364)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0529)|Lung NSC(340;0.0654)|all_lung(284;0.074)|Ovarian(437;0.104)|Medulloblastoma(700;0.151)		Colorectal(126;1.01e-07)|COAD - Colon adenocarcinoma(152;6.21e-06)|STAD - Stomach adenocarcinoma(196;0.0196)|BRCA - Breast invasive adenocarcinoma(304;0.0531)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.138)		ctccggctccgactctggctc	0.463													7	142					0	0	0.001984	0	0		A	29475692	A	A	29475692	3	1	19	1	0	0	0	0	1	0	0	0	14204	1057	37	1	773	1	SFRS4	1	29475692	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	459049	29475692	219774929	53	13566											
PTPRU	10076	broad.mit.edu	37	chr1	29639170	29639170	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggctttcatccggcgcgTgaaggcctccaccccacctg	5	8	11	17	3	1	1	1	1	0	0	3	1	3	1	6	3	0	2	6	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:29639170T>C	uc001bru.2	+	23	3319	c.3209T>C	c.(3208-3210)GTG>GCG	p.V1070A	PTPRU_uc001brv.2_Missense_Mutation_p.V1066A|PTPRU_uc001brw.2_Missense_Mutation_p.V1060A|PTPRU_uc009vtq.2_Missense_Mutation_p.V1066A|PTPRU_uc009vtr.2_Missense_Mutation_p.V1057A	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	1070	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		ATCCGGCGCGTGAAGGCCTCC	0.647													8	21					0	0	0.006214	0	0		C	29639170	C	C	29639170	3	2	19	1	0	0	0	0	1	0	0	0	12838	1696	59	3	3321	3	PTPRU	1	29639170	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	163478	29639170	219611451	54	13567											
MATN1	4146	broad.mit.edu	37	chr1	31189044	31189044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggccagcttgtctgacaCgtccagcgtatccacgatct	7	10	10	14	3	2	1	0	1	2	0	4	2	4	1	3	1	2	2	3	1	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:31189044C>T	uc001brz.2	-	5	953	c.919G>A	c.(919-921)GTG>ATG	p.V307M	uc001bsb.1_5'Flank|MATN1_uc001bsa.1_Missense_Mutation_p.V225M	NM_002379	NP_002370	P21941	MATN1_HUMAN	matrilin 1, cartilage matrix protein precursor	307	VWFA 2.				protein complex assembly	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			central_nervous_system(1)	1		Colorectal(325;0.00792)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)|Ovarian(437;0.0563)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-05)|COAD - Colon adenocarcinoma(152;0.000726)|STAD - Stomach adenocarcinoma(196;0.0183)|READ - Rectum adenocarcinoma(331;0.0649)		TTGTCTGACACGTCCAGCGTA	0.562													34	64					0	0	0.007835	0	0		T	31189044	T	T	31189044	3	4	19	1	0	0	0	0	1	0	0	0	9351	536	19	1	587	1	MATN1	1	31189044	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1549874	31189044	218061577	55	13568											
MATN1	4146	broad.mit.edu	37	chr1	31194406	31194406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccttggagacatgagccCgcagcgagaactcctgcttc	8	7	12	14	3	0	3	0	1	0	2	2	5	1	3	3	2	4	2	3	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:31194406C>T	uc001brz.2	-	2	321	c.287G>A	c.(286-288)CGG>CAG	p.R96Q	uc001bsb.1_RNA|MATN1_uc001bsa.1_5'Flank	NM_002379	NP_002370	P21941	MATN1_HUMAN	matrilin 1, cartilage matrix protein precursor	96	VWFA 1.				protein complex assembly	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			central_nervous_system(1)	1		Colorectal(325;0.00792)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)|Ovarian(437;0.0563)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-05)|COAD - Colon adenocarcinoma(152;0.000726)|STAD - Stomach adenocarcinoma(196;0.0183)|READ - Rectum adenocarcinoma(331;0.0649)		GACATGAGCCCGCAGCGAGAA	0.642													47	132					0	0	0.01441	0	0		T	31194406	T	T	31194406	3	4	19	1	0	0	0	0	1	0	0	0	9351	652	23	1	1231	1	MATN1	1	31194406	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5362	31194406	218056215	56	13569											
SDC3	9672	broad.mit.edu	37	chr1	31349583	31349583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggtgggcggggagggcGcctcgggggtagtggcccgt	2	6	23	10	5	0	0	0	0	0	0	1	1	0	1	3	8	0	1	3	8	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:31349583G>A	uc001bse.2	-	3	733	c.686C>T	c.(685-687)GCG>GTG	p.A229V	SDC3_uc001bsd.2_Missense_Mutation_p.A171V	NM_014654	NP_055469	O75056	SDC3_HUMAN	syndecan 3	229	Extracellular (Potential).|Ser/Thr-rich (mucin-like).					integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)|Colorectal(325;0.0466)|all_neural(195;0.0966)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)		STAD - Stomach adenocarcinoma(196;0.0197)|READ - Rectum adenocarcinoma(331;0.0649)		CGGGGAGGGCGCCTCGGGGGT	0.672													6	13					0	0	0.006214	0	0		A	31349583	A	A	31349583	3	1	19	1	0	0	0	0	1	0	0	0	13978	1087	38	1	654	1	SDC3	1	31349583	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	155177	31349583	217901038	57	13570											
SNRNP40	9410	broad.mit.edu	37	chr1	31769597	31769597	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgcttctgctgttctatcAtggcggcaaccggtctcttc	5	14	9	13	3	4	0	1	0	3	0	6	0	4	0	1	3	3	4	1	3	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:31769597A>G	uc001bso.2	-	1	48	c.2T>C	c.(1-3)ATG>ACG	p.M1T	SNRNP40_uc010oge.1_Missense_Mutation_p.M1T|ZCCHC17_uc001bsp.1_5'Flank|ZCCHC17_uc001bsq.1_5'Flank|ZCCHC17_uc010ogf.1_5'Flank|ZCCHC17_uc009vtu.1_5'Flank|ZCCHC17_uc001bsr.1_5'Flank|ZCCHC17_uc009vtv.1_5'Flank	NM_004814	NP_004805	Q96DI7	SNR40_HUMAN	WD repeat domain 57 (U5 snRNP specific)	1						catalytic step 2 spliceosome|cytoplasm|nucleoplasm|small nucleolar ribonucleoprotein complex|U5 snRNP	protein binding				0						CTGTTCTATCATGGCGGCAAC	0.622													19	47					0	0	0.00278	0	0		G	31769597	G	G	31769597	3	3	19	1	0	0	0	0	1	0	0	0	14881	217	8	3	1111	3	SNRNP40	1	31769597	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	420014	31769597	217481024	58	13571											
ZCCHC17	51538	broad.mit.edu	37	chr1	31821730	31821730	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggactaaatactctctgaTacctgatgaggaagaggaaa	15	9	11	6	0	1	4	0	3	1	1	2	7	1	7	1	3	2	0	1	3	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:31821730T>A	uc001bsp.1	+	7	609	c.473T>A	c.(472-474)ATA>AAA	p.I158K	ZCCHC17_uc001bsq.1_Missense_Mutation_p.I150K|ZCCHC17_uc010ogf.1_Missense_Mutation_p.I160K|ZCCHC17_uc009vtu.1_Missense_Mutation_p.I134K|ZCCHC17_uc001bsr.1_Missense_Mutation_p.I158K|ZCCHC17_uc009vtv.1_Missense_Mutation_p.I134K	NM_016505	NP_057589	Q9NP64	NO40_HUMAN	zinc finger, CCHC domain containing 17	158						nucleolus	RNA binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)|all_neural(195;0.146)|Medulloblastoma(700;0.151)|Breast(348;0.222)		STAD - Stomach adenocarcinoma(196;0.0215)|READ - Rectum adenocarcinoma(331;0.168)		TACTCTCTGATACCTGATGAG	0.413													8	158					0	0	0.008291	0	0		A	31821730	A	A	31821730	3	1	19	1	0	0	0	0	1	0	0	0	17610	1406	49	5	495	5	ZCCHC17	1	31821730	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	52133	31821730	217428891	59	13572											
HCRTR1	3061	broad.mit.edu	37	chr1	32087173	32087173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctatttccagatattcCgcaagctctggggccgccag	7	10	11	13	2	1	1	0	0	1	1	3	1	3	1	5	3	1	2	5	3	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:32087173C>T	uc009vtx.2	+	6	1103	c.718C>T	c.(718-720)CGC>TGC	p.R240C	HCRTR1_uc001btb.2_Missense_Mutation_p.R65C|HCRTR1_uc001btc.3_Missense_Mutation_p.R154C|HCRTR1_uc001btd.2_Missense_Mutation_p.R240C|HCRTR1_uc010ogl.1_Missense_Mutation_p.R240C	NM_001525	NP_001516	O43613	OX1R_HUMAN	orexin receptor 1	240	Cytoplasmic (Potential).				feeding behavior|neuropeptide signaling pathway|synaptic transmission	integral to plasma membrane				ovary(1)	1		Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.053)		CCAGATATTCCGCAAGCTCTG	0.587													51	166					0	0	0.01441	0	0		T	32087173	T	T	32087173	3	4	19	1	0	0	0	0	1	0	0	0	7017	652	23	1	732	1	HCRTR1	1	32087173	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	265443	32087173	217163448	60	13573											
COL16A1	1307	broad.mit.edu	37	chr1	32131193	32131193	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcactcaccggtgggccCggaaagcctggctggccttg	5	9	13	14	2	3	0	2	0	1	0	3	1	3	1	4	5	1	1	4	5	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:32131193C>T	uc001btk.1	-	55	3848	c.3483G>A	c.(3481-3483)CCG>CCA	p.P1161P	COL16A1_uc001bti.1_5'UTR|COL16A1_uc001btj.1_Silent_p.P959P	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	1161	Triple-helical region 2 (COL2) with 2 imperfections.			P -> T (in Ref. 1; AAA58427).	cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		CCGGTGGGCCCGGAAAGCCTG	0.627													26	69					0	0	0.00632	0	0		T	32131193	T	T	32131193	2	4	19	1	0	0	0	0	0	0	0	1	3676	639	23	1		1	COL16A1	1	32131193	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	44020	32131193	217119428	61	13574											
KHDRBS1	10657	broad.mit.edu	37	chr1	32502514	32502514	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatctttcgttcccaggatAtgatggatgatatctgtcag	9	15	10	7	1	3	2	1	2	2	0	5	4	4	4	1	2	0	2	1	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:32502514A>G	uc001bub.2	+	5	881	c.775A>G	c.(775-777)ATG>GTG	p.M259V	KHDRBS1_uc001bua.1_Missense_Mutation_p.M220V|KHDRBS1_uc001buc.1_RNA	NM_006559	NP_006550	Q07666	KHDR1_HUMAN	KH domain containing, RNA binding, signal	259					cell cycle arrest|cell proliferation|cell surface receptor linked signaling pathway|G2/M transition of mitotic cell cycle|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of RNA export from nucleus|transcription, DNA-dependent	membrane|nucleus	DNA binding|RNA binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				TTCCCAGGATATGATGGATGA	0.478													25	233					0	0	0.007291	0	0		G	32502514	G	G	32502514	3	3	19	1	0	0	0	0	1	0	0	0	8162	449	16	3	793	3	KHDRBS1	1	32502514	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	371321	32502514	216748107	62	13575											
ZBTB8A	653121	broad.mit.edu	37	chr1	33060697	33060697	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtgcccgtactgcacacAtgtggtgaagcggaaggcag	11	6	14	10	2	0	1	0	1	0	0	0	2	0	2	1	3	4	3	1	3	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:33060697A>C	uc001bvn.2	+	4	1351	c.866A>C	c.(865-867)CAT>CCT	p.H289P	ZBTB8A_uc001bvk.2_RNA|ZBTB8A_uc001bvm.2_Missense_Mutation_p.H289P	NM_001040441	NP_001035531	Q96BR9	ZBT8A_HUMAN	zinc finger and BTB domain containing 8A	289	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TACTGCACACATGTGGTGAAG	0.453													33	59					0	0	0.012213	0	0		C	33060697	C	C	33060697	3	2	19	1	0	0	0	0	1	0	0	0	17581	217	8	5	872	5	ZBTB8A	1	33060697	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	558183	33060697	216189924	63	13576											
TMEM54	113452	broad.mit.edu	37	chr1	33363782	33363782	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcagtactgcagagccaccGcatcttgaggggtgcccacg	8	6	13	14	3	1	2	0	1	1	1	1	2	1	2	3	2	4	4	3	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:33363782G>A	uc001bwi.1	-	2	269	c.155C>T	c.(154-156)GCG>GTG	p.A52V	TMEM54_uc001bwj.1_Missense_Mutation_p.A52V|TMEM54_uc001bwk.1_Missense_Mutation_p.A52V	NM_033504	NP_277039	Q969K7	TMM54_HUMAN	transmembrane protein 54	52						integral to membrane					0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CAGAGCCACCGCATCTTGAGG	0.622													30	48					0	0	0.010818	0	0		A	33363782	A	A	33363782	3	1	19	1	0	0	0	0	1	0	0	0	16205	1087	38	1	533	1	TMEM54	1	33363782	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	303085	33363782	215886839	64	13577											
TRIM62	55223	broad.mit.edu	37	chr1	33612784	33612784	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttctgcctggactagatGcggacggtgttgatccgcag	6	11	13	11	3	1	2	0	1	1	1	3	4	3	4	3	3	2	2	3	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:33612784G>A	uc001bxb.2	-	5	2060	c.1422C>T	c.(1420-1422)CGC>CGT	p.R474R		NM_018207	NP_060677	Q9BVG3	TRI62_HUMAN	tripartite motif-containing 62	474	B30.2/SPRY.			R -> L (in Ref. 1; BAA91792).		intracellular	zinc ion binding				0		Myeloproliferative disorder(586;0.0393)				TGGACTAGATGCGGACGGTGT	0.463													36	53					0	0	0.013114	0	0		A	33612784	A	A	33612784	2	1	19	1	0	0	0	0	0	0	0	1	16563	1306	46	2		2	TRIM62	1	33612784	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	249002	33612784	215637837	65	13578											
PHC2	1912	broad.mit.edu	37	chr1	33836082	33836082	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctggggaagacgtgttGcccaagagcacagcctgctg	9	6	16	10	1	0	2	0	0	0	2	0	3	0	3	2	3	4	4	2	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:33836082G>A	uc001bxg.1	-	4	570	c.516C>T	c.(514-516)GGC>GGT	p.G172G	PHC2_uc001bxh.1_Silent_p.G172G|PHC2_uc009vuh.1_Silent_p.G172G|PHC2_uc001bxi.1_Silent_p.G172G	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	172					multicellular organismal development	PcG protein complex	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AAGACGTGTTGCCCAAGAGCA	0.627													25	50					0	0	0.00278	0	0		A	33836082	A	A	33836082	2	1	19	1	0	0	0	0	0	0	0	1	11836	1306	46	2		2	PHC2	1	33836082	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	223298	33836082	215414539	66	13579											
HMGB4	127540	broad.mit.edu	37	chr1	34329879	34329879	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacagaaacaaattcaaggaGcagcagccaaatacctatgt	18	7	7	9	0	1	1	1	0	0	1	1	2	1	2	2	1	6	2	2	1	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:34329879G>A	uc001bxp.2	+	2	1830	c.87G>A	c.(85-87)GAG>GAA	p.E29E	CSMD2_uc001bxm.1_Intron|CSMD2_uc001bxn.1_Intron|HMGB4_uc001bxq.2_5'UTR	NM_145205	NP_660206	Q8WW32	HMGB4_HUMAN	HMG2 like isoform 1	29						nucleus	DNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AATTCAAGGAGCAGCAGCCAA	0.393													4	124					0	0	0.009096	0	0		A	34329879	A	A	34329879	2	1	19	1	0	0	0	0	0	0	0	1	7244	962	34	2		2	HMGB4	1	34329879	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	493797	34329879	214920742	67	13580											
CSMD2	114784	broad.mit.edu	37	chr1	34401359	34401359	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaccccttgctggccacctAcctctgcaggaaggcagggg	8	6	13	14	0	1	1	0	0	1	1	1	2	1	2	5	5	3	3	5	5	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:34401359A>T	uc001bxn.1	-	4	621	c.592_splice	c.e4+1	p.A198_splice	CSMD2_uc001bxm.1_Splice_Site_p.A238_splice	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2							integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CTGGCCACCTACCTCTGCAGG	0.627													6	44					0	0	0.001984	0	0		T	34401359	T	T	34401359	5	4	19	1	0	0	0	0	0	0	1	0	3948	405	14	5	10133	5	CSMD2	1	34401359	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	71480	34401359	214849262	68	13581											
GJA4	2701	broad.mit.edu	37	chr1	35260745	35260745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccccctctcttcctggacCcaccccctcagaatggccaa	7	7	7	20	0	2	1	1	0	1	1	4	2	3	2	7	3	0	0	7	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:35260745C>T	uc001bya.2	+	2	1019	c.931C>T	c.(931-933)CCA>TCA	p.P311S	GJA4_uc009vul.2_Missense_Mutation_p.P387S|GJA4_uc009vum.1_Missense_Mutation_p.P311S	NM_002060	NP_002051	P35212	CXA4_HUMAN	connexin 37	311	Cytoplasmic (Potential).				cell-cell junction assembly	integral to plasma membrane				central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				CTTCCTGGACCCACCCCCTCA	0.572													3	25					0	0	0.004672	0	0		T	35260745	T	T	35260745	3	4	19	1	0	0	0	0	1	0	0	0	6418	623	22	4	933	4	GJA4	1	35260745	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	859386	35260745	213989876	69	13582											
KIAA0319L	79932	broad.mit.edu	37	chr1	35916003	35916003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagtccagaggtagctgaCtattcccttgtcatctgagg	8	12	11	10	1	2	3	1	2	1	1	5	4	4	3	2	2	1	2	2	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:35916003C>T	uc001byx.2	-	14	2428	c.2170G>A	c.(2170-2172)GTC>ATC	p.V724I	KIAA0319L_uc001byw.2_Missense_Mutation_p.V166I|KIAA0319L_uc010ohv.1_Missense_Mutation_p.V366I	NM_024874	NP_079150	Q8IZA0	K319L_HUMAN	dyslexia susceptibility 2-like	724	PKD 5.|Extracellular (Potential).					cytoplasmic vesicle part|integral to membrane	protein binding			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				AGGTAGCTGACTATTCCCTTG	0.557													37	107					0	0	0.00874	0	0		T	35916003	T	T	35916003	3	4	19	1	0	0	0	0	1	0	0	0	8185	565	20	4	1011	4	KIAA0319L	1	35916003	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	655258	35916003	213334618	70	13583											
EIF2C1	26523	broad.mit.edu	37	chr1	36379873	36379873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaaaaaccttctatcacaGcagtgagtgatattctgtag	14	11	9	7	0	3	2	1	2	2	0	3	3	3	3	1	1	2	2	1	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:36379873G>A	uc001bzl.2	+	14	2044	c.1831G>A	c.(1831-1833)GCA>ACA	p.A611T	EIF2C1_uc001bzk.2_Missense_Mutation_p.A536T|EIF2C1_uc009vuy.2_RNA	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	611	Piwi.				negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TTCTATCACAGCAGTGAGTGA	0.502													23	56					0	0	0.014323	0	0		A	36379873	A	A	36379873	3	1	19	1	0	0	0	0	1	0	0	0	5011	971	34	2	1885	2	EIF2C1	1	36379873	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	463870	36379873	212870748	71	13584											
EIF2C1	26523	broad.mit.edu	37	chr1	36383300	36383300	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaaacgccatcacacccGccttttctgtgctgacaaga	11	8	8	14	2	2	3	1	1	1	2	2	3	2	3	3	0	2	2	3	0	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:36383300G>A	uc001bzl.2	+	16	2348	c.2135G>A	c.(2134-2136)CGC>CAC	p.R712H	EIF2C1_uc001bzk.2_Missense_Mutation_p.R637H|EIF2C1_uc009vuy.2_RNA	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	712	Piwi.				negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CATCACACCCGCCTTTTCTGT	0.507													48	200					0	0	0.01441	0	0		A	36383300	A	A	36383300	3	1	19	1	0	0	0	0	1	0	0	0	5011	1087	38	1	2197	1	EIF2C1	1	36383300	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3427	36383300	212867321	72	13585											
COL8A2	1296	broad.mit.edu	37	chr1	36564002	36564002	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacccgtgaaacccggctcaCccttgggcccagttggtcca	7	7	11	16	2	1	1	1	1	0	0	2	2	2	1	5	3	1	2	5	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:36564002C>T	uc001bzv.1	-	2	1287	c.1280G>A	c.(1279-1281)GGT>GAT	p.G427D	COL8A2_uc001bzw.1_Missense_Mutation_p.G362D	NM_005202	NP_005193	P25067	CO8A2_HUMAN	collagen, type VIII, alpha 2 precursor	427	Triple-helical region.				angiogenesis|cell-cell adhesion|extracellular matrix organization	basement membrane|collagen	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				ACCCGGCTCACCCTTGGGCCC	0.697													3	8					0	0	0.004672	0	0		T	36564002	T	T	36564002	3	4	19	1	0	0	0	0	1	0	0	0	3709	507	18	4	835	4	COL8A2	1	36564002	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	180702	36564002	212686619	73	13586											
C1orf113	79729	broad.mit.edu	37	chr1	36786335	36786335	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatgaaggagttgatgtaAcgtcgctgaggggcgaggtg	11	8	18	4	3	0	4	0	3	0	1	1	6	0	5	0	4	1	3	0	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:36786335A>T	uc010oia.1	+	14	2099	c.2071A>T	c.(2071-2073)ACG>TCG	p.T691S	C1orf113_uc010oib.1_Missense_Mutation_p.T580S|C1orf113_uc010oic.1_RNA|C1orf113_uc009vuz.1_Missense_Mutation_p.T337S	NM_001162530	NP_001156002	A4FU49	SH321_HUMAN	SH3 domain-containing protein C1orf113 isoform	575	Potential.										0		Myeloproliferative disorder(586;0.0393)				AGTTGATGTAACGTCGCTGAG	0.602													3	18					0	0	0.004672	0	0		T	36786335	T	T	36786335	3	4	19	1	0	0	0	0	1	0	0	0	1989	43	2	5	2125	5	C1orf113	1	36786335	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	222333	36786335	212464286	74	13587											
CSF3R	1441	broad.mit.edu	37	chr1	36935310	36935310	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcctccaggtcttgttgcTattgctcgcgctgggggggc	3	12	14	12	2	1	0	0	0	1	0	4	0	3	0	2	4	2	4	2	4	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:36935310T>C	uc001caw.1	-	11	1595	c.1417A>G	c.(1417-1419)AGC>GGC	p.S473G	CSF3R_uc001cat.1_Missense_Mutation_p.S36G|CSF3R_uc009vvc.1_Missense_Mutation_p.S36G|CSF3R_uc001cau.1_Translation_Start_Site|CSF3R_uc001cav.1_Missense_Mutation_p.S473G|CSF3R_uc001cax.1_Missense_Mutation_p.S473G|CSF3R_uc001cay.1_Missense_Mutation_p.S473G	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	473	Extracellular (Potential).|Fibronectin type-III 4.				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	GTCTTGTTGCTATTGCTCGCG	0.632													4	166					0	0	0.001984	0	0		C	36935310	C	C	36935310	3	2	19	1	0	0	0	0	1	0	0	0	3940	1522	53	3	1311	3	CSF3R	1	36935310	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	148975	36935310	212315311	75	13588											
SNIP1	79753	broad.mit.edu	37	chr1	38006327	38006327	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccctgtgctgccgatcctcCcgtcctctccggggatgatc	3	11	10	17	3	1	1	0	1	1	0	7	3	5	2	6	2	2	1	6	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:38006327C>T	uc001cbi.2	-	3	430	c.357G>A	c.(355-357)CGG>CGA	p.R119R	SNIP1_uc010oid.1_Intron	NM_024700	NP_078976	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein	119	Arg-rich.				production of miRNAs involved in gene silencing by miRNA	nucleus	protein binding			upper_aerodigestive_tract(1)|lung(1)	2		Myeloproliferative disorder(586;0.0393)				GCCGATCCTCCCGTCCTCTCC	0.507													38	67					0	0	0.01441	0	0		T	38006327	T	T	38006327	2	4	19	1	0	0	0	0	0	0	0	1	14873	610	22	4		4	SNIP1	1	38006327	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1071017	38006327	211244294	76	13589											
DNALI1	7802	broad.mit.edu	37	chr1	38027281	38027281	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacgagagcagcgtggcgtTtggcatgaggaaggcactgc	9	7	17	8	3	0	2	0	1	0	1	0	4	0	3	0	4	4	5	0	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:38027281T>C	uc001cbj.2	+	4	597	c.587T>C	c.(586-588)TTT>TCT	p.F196S	DNALI1_uc010oie.1_RNA	NM_003462	NP_003453	O14645	IDLC_HUMAN	dynein, axonemal, light intermediate chain 1	174					cellular component movement|single fertilization	axonemal dynein complex	microtubule motor activity			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				AGCGTGGCGTTTGGCATGAGG	0.587											OREG0013380	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	35					0	0	0.010729	0	0		C	38027281	C	C	38027281	3	2	19	1	0	0	0	0	1	0	0	0	4665	1841	64	3	601	3	DNALI1	1	38027281	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	20954	38027281	211223340	77	13590											
EPHA10	284656	broad.mit.edu	37	chr1	38185714	38185714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcgggagcggcccatagcGctgggctccggccactctgt	4	8	14	15	4	2	0	0	0	2	0	4	1	3	1	3	4	2	2	3	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:38185714G>A	uc009vvi.2	-	14	2515	c.2429C>T	c.(2428-2430)GCG>GTG	p.A810V	EPHA10_uc001cbt.2_RNA|EPHA10_uc009vvh.1_RNA|EPHA10_uc001cbu.2_RNA|EPHA10_uc001cbv.1_RNA	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	810	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GGCCCATAGCGCTGGGCTCCG	0.632													5	22					0	0	0.00308	0	0		A	38185714	A	A	38185714	3	1	19	1	0	0	0	0	1	0	0	0	5174	1087	38	1	613	1	EPHA10	1	38185714	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	158433	38185714	211064907	78	13591											
SF3A3	10946	broad.mit.edu	37	chr1	38453481	38453481	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatcatcatacaaatcccTcaggttcccactgacctcca	11	11	3	16	0	3	1	3	1	0	0	6	1	6	1	4	1	1	1	4	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:38453481T>C	uc001cci.2	-	3	296	c.172A>G	c.(172-174)AGG>GGG	p.R58G	SF3A3_uc010oik.1_Intron	NM_006802	NP_006793	Q12874	SF3A3_HUMAN	splicing factor 3a, subunit 3	58					nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nuclear speck	nucleic acid binding|protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TACAAATCCCTCAGGTTCCCA	0.438													58	118					0	0	0.01441	0	0		C	38453481	C	C	38453481	3	2	19	1	0	0	0	0	1	0	0	0	14173	1550	54	3	1393	3	SF3A3	1	38453481	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	267767	38453481	210797140	79	13592											
MACF1	23499	broad.mit.edu	37	chr1	39549962	39549962	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcttgtcggagtgagcgAtcttacaggagcgagcggtc	7	9	16	9	5	2	1	0	1	2	0	4	5	2	3	0	4	4	0	0	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:39549962A>T	uc010oir.1	+	2	222	c.59A>T	c.(58-60)GAT>GTT	p.D20V	MACF1_uc010ois.1_Silent_p.R24R			Q9UPN3	MACF1_HUMAN	Homo sapiens mRNA for actin binding protein ABP620, complete cds.	Error:Variant_position_missing_in_Q9UPN3_after_alignment					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GGAGTGAGCGATCTTACAGGA	0.627													18	52					0	0	0.008871	0	0		T	39549962	T	T	39549962	3	4	19	1	0	0	0	0	1	0	0	0	9162	320	12	5	74	5	MACF1	1	39549962	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1096481	39549962	209700659	80	13593											
MACF1	23499	broad.mit.edu	37	chr1	39750009	39750009	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatattaattttataggcacTttataaccaatatatacact	17	16	2	6	0	0	0	0	0	0	0	0	0	0	0	1	1	2	1	1	1	11	11			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:39750009T>C	uc010ois.1	+	12	1260	c.1055T>C	c.(1054-1056)CTT>CCT	p.L352P	MACF1_uc001cda.1_Missense_Mutation_p.L260P	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	352					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TTATAGGCACTTTATAACCAA	0.343													8	53					0	0	0.004482	0	0		C	39750009	C	C	39750009	3	2	19	1	0	0	0	0	1	0	0	0	9162	1609	56	3	1093	3	MACF1	1	39750009	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	200047	39750009	209500612	81	13594											
MACF1	23499	broad.mit.edu	37	chr1	39853184	39853184	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggaagagcttagtaaaaaAactgcagacagacaatccag	18	6	10	7	0	0	3	0	0	0	3	1	4	1	4	1	1	3	3	1	1	7	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:39853184A>C	uc010oiu.1	+	22	10121	c.9990A>C	c.(9988-9990)AAA>AAC	p.K3330N	MACF1_uc010ois.1_Missense_Mutation_p.K2828N|MACF1_uc001cda.1_Missense_Mutation_p.K2715N|MACF1_uc001cdc.1_Missense_Mutation_p.K1894N	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	4895	Spectrin 4.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TTAGTAAAAAAACTGCAGACA	0.423													49	104					0	0	0.01441	0	0		C	39853184	C	C	39853184	3	2	19	1	0	0	0	0	1	0	0	0	9162	11	1	5	14845	5	MACF1	1	39853184	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	103175	39853184	209397437	82	13595											
HPCAL4	51440	broad.mit.edu	37	chr1	40149793	40149793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgcggaaagcgtgctgcGcgaacttggaggcgtcgccg	7	6	18	10	7	0	0	0	0	0	0	1	3	0	2	1	4	5	1	1	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:40149793G>A	uc001cdr.2	-	3	314	c.194C>T	c.(193-195)GCG>GTG	p.A65V	HPCAL4_uc010oix.1_Intron	NM_016257	NP_057341	Q9UM19	HPCL4_HUMAN	hippocalcin-like protein 4	65	EF-hand 2.				central nervous system development	intracellular	calcium ion binding			central_nervous_system(1)	1	all_cancers(7;4.65e-13)|Lung NSC(20;2.88e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			AGCGTGCTGCGCGAACTTGGA	0.682													14	23					0	0	0.004007	0	0		A	40149793	A	A	40149793	3	1	19	1	0	0	0	0	1	0	0	0	7347	1087	38	1	389	1	HPCAL4	1	40149793	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	296609	40149793	209100828	83	13596											
PPT1	5538	broad.mit.edu	37	chr1	40546147	40546147	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggggtcatgccagtattcGgcttgcacgaggctgtagga	8	10	15	8	2	1	0	1	0	0	0	2	2	1	1	1	5	2	5	1	5	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:40546147G>A	uc001cfb.2	-	6	781	c.549C>T	c.(547-549)GCC>GCT	p.A183A	PPT1_uc010ojf.1_Silent_p.A133A|PPT1_uc010ojg.1_Silent_p.A80A|PPT1_uc009vwa.2_RNA	NM_000310	NP_000301	P50897	PPT1_HUMAN	palmitoyl-protein thioesterase 1 isoform 1	183					brain development|cofactor metabolic process|cofactor transport|DNA fragmentation involved in apoptotic nuclear change|lysosomal lumen acidification|membrane raft organization|negative regulation of cell growth|negative regulation of neuron apoptosis|neuron development|pinocytosis|positive regulation of pinocytosis|positive regulation of receptor-mediated endocytosis|protein depalmitoylation|protein transport|receptor-mediated endocytosis|regulation of synapse structure and activity|sphingolipid catabolic process|visual perception	axon|cytosol|Golgi apparatus|lysosome|membrane fraction|membrane raft|nucleus|synaptic vesicle	palmitoyl-(protein) hydrolase activity|palmitoyl-CoA hydrolase activity			ovary(1)	1	Lung NSC(20;3.43e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1e-18)|Epithelial(16;3.6e-17)|all cancers(16;1.1e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GCCAGTATTCGGCTTGCACGA	0.512													117	257					0	0	0.01441	0	0		A	40546147	A	A	40546147	2	1	19	1	0	0	0	0	0	0	0	1	12433	1103	39	1		1	PPT1	1	40546147	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	396354	40546147	208704474	84	13597											
DEM1	64789	broad.mit.edu	37	chr1	40981063	40981063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttgtctctaacactgtcaGacctcccagttattgatatc	9	15	5	12	0	3	2	1	1	2	1	6	2	4	2	2	0	1	1	2	0	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:40981063G>A	uc001cfp.2	+	3	1052	c.847G>A	c.(847-849)GAC>AAC	p.D283N	DEM1_uc001cfq.2_Missense_Mutation_p.D283N|DEM1_uc001cfr.2_Missense_Mutation_p.D283N|DEM1_uc001cfs.2_Missense_Mutation_p.D283N	NM_022774	NP_073611	Q9H790	EXO5_HUMAN	defects in morphology 1 homolog	283							DNA binding|exonuclease activity				0						AACACTGTCAGACCTCCCAGT	0.493													13	213					0	0	0.001855	0	0		A	40981063	A	A	40981063	3	1	19	1	0	0	0	0	1	0	0	0	4431	942	33	4	849	4	DEM1	1	40981063	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	434916	40981063	208269558	85	13598											
SLC2A1	6513	broad.mit.edu	37	chr1	43393358	43393358	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcaatggcagctggacgtGgaccctggctgaagagttca	9	7	15	10	2	1	2	1	1	0	1	1	4	1	4	1	5	1	5	1	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:43393358G>T	uc001cik.2	-	9	1721	c.1196C>A	c.(1195-1197)CCA>CAA	p.P399Q		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	399	Cytoplasmic (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	AGCTGGACGTGGACCCTGGCT	0.547													12	28					1.5842e-08	1.65134e-08	0.001855	1	0		T	43393358	T	T	43393358	3	4	19	1	0	0	0	0	1	0	0	0	14563	1348	47	5	290	5	SLC2A1	1	43393358	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2412295	43393358	205857263	86	13599											
WDR65	149465	broad.mit.edu	37	chr1	43647224	43647224	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcagagaagagtcagggCatgttggccttgtccatcag	9	9	14	9	0	3	2	3	0	0	2	4	3	4	2	2	3	0	3	2	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:43647224C>T	uc001cip.1	+	3	298	c.177C>T	c.(175-177)GGC>GGT	p.G59G	EBNA1BP2_uc001cio.2_Intron|WDR65_uc010ojz.1_Silent_p.G48G|WDR65_uc001ciq.1_Silent_p.G59G	NM_152498	NP_689711	Q96MR6	WDR65_HUMAN	WD repeat domain 65	59										skin(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AGAGTCAGGGCATGTTGGCCT	0.493													13	68					0	0	0.013537	0	0		T	43647224	T	T	43647224	2	4	19	1	0	0	0	0	0	0	0	1	17342	697	25	2		2	WDR65	1	43647224	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	253866	43647224	205603397	87	13600											
KIAA0467	23334	broad.mit.edu	37	chr1	43906258	43906258	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtagcttctgggatatgctgGtaatggaagaagtggtgaag	11	11	16	3	0	1	2	0	1	1	1	1	4	1	4	0	4	2	4	0	4	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:43906258G>A	uc001cjk.1	+	37	5109	c.4647_splice	c.e37+1	p.L1549_splice		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334							peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GGATATGCTGGTAATGGAAGA	0.617													27	69					0	0	0.005443	0	0		A	43906258	A	A	43906258	5	1	19	1	0	0	0	0	0	0	1	0	8194	1275	44	4	4786	4	KIAA0467	1	43906258	Splice_Site	SNP	G	TCGA-BR-4361-01A-01D-1158-08	259034	43906258	205344363	88	13601											
PTPRF	5792	broad.mit.edu	37	chr1	44054460	44054460	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaggaggtgatgccaggCggcagcgtgaacctgacatg	10	5	16	10	2	0	3	0	3	0	0	0	4	0	4	3	4	4	1	3	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:44054460C>T	uc001cjr.2	+	8	1078	c.738C>T	c.(736-738)GGC>GGT	p.G246G	PTPRF_uc001cjs.2_Silent_p.G246G|PTPRF_uc001cju.2_5'Flank|PTPRF_uc009vwt.2_5'Flank|PTPRF_uc001cjv.2_5'Flank	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	246	Extracellular (Potential).|Ig-like C2-type 3.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				TGATGCCAGGCGGCAGCGTGA	0.652													17	22					0	0	0.00499	0	0		T	44054460	T	T	44054460	2	4	19	1	0	0	0	0	0	0	0	1	12826	755	27	1		1	PTPRF	1	44054460	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	148202	44054460	205196161	89	13602											
RPS8	6202	broad.mit.edu	37	chr1	45244276	45244276	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaaggccgggacagtgTggccgagcagatggctatgt	8	8	16	9	2	1	1	1	0	0	1	1	3	1	2	2	4	1	3	2	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:45244276T>C	uc001cmi.2	+	6	569	c.546T>C	c.(544-546)TGT>TGC	p.C182C		NM_001012	NP_001003	P62241	RS8_HUMAN	ribosomal protein S8	182					endocrine pancreas development|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CGGGACAGTGTGGCCGAGCAG	0.507													15	37					0	0	0.00499	0	0		C	45244276	C	C	45244276	2	2	19	1	0	0	0	0	0	0	0	1	13686	1702	59	3		3	RPS8	1	45244276	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1189816	45244276	204006345	90	13603											
PLK3	1263	broad.mit.edu	37	chr1	45271337	45271337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcgcctgctccgggaccGcagcccagcctaggacccaa	7	5	11	18	3	1	0	0	0	1	0	2	2	2	2	6	2	4	2	6	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:45271337G>A	uc001cmn.2	+	15	2028	c.1928G>A	c.(1927-1929)CGC>CAC	p.R643H	PLK3_uc001cmo.2_RNA|BTBD19_uc010old.1_5'Flank|BTBD19_uc010ole.1_5'Flank	NM_004073	NP_004064	Q9H4B4	PLK3_HUMAN	polo-like kinase 3	643						membrane	ATP binding|protein binding|protein serine/threonine kinase activity				0	Acute lymphoblastic leukemia(166;0.155)					CTCCGGGACCGCAGCCCAGCC	0.652													6	70					0	0	0.00308	0	0		A	45271337	A	A	45271337	3	1	19	1	0	0	0	0	1	0	0	0	12116	1087	38	1	1986	1	PLK3	1	45271337	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	27061	45271337	203979284	91	13604											
EIF2B3	8891	broad.mit.edu	37	chr1	45345614	45345614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccacctgtctcctcgacagGcattccagcaggcatcatag	9	8	8	16	1	2	0	1	0	1	0	5	1	3	0	4	2	1	3	4	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:45345614G>A	uc001cmt.1	-	8	978	c.851C>T	c.(850-852)GCC>GTC	p.A284V	EIF2B3_uc001cmu.1_Missense_Mutation_p.A284V|EIF2B3_uc001cmv.1_Missense_Mutation_p.A284V|EIF2B3_uc001cmw.2_Missense_Mutation_p.A284V	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,	284					negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TCCTCGACAGGCATTCCAGCA	0.483													32	42					0	0	0.003271	0	0		A	45345614	A	A	45345614	3	1	19	1	0	0	0	0	1	0	0	0	5008	1203	42	2	564	2	EIF2B3	1	45345614	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	74277	45345614	203905007	92	13605											
HECTD3	79654	broad.mit.edu	37	chr1	45472378	45472378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattacctggttggctgtgcGtacaaagaagggcaggggca	10	8	16	7	1	0	1	0	0	0	1	0	2	0	1	1	5	3	5	1	5	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:45472378G>A	uc009vxk.2	-	13	1809	c.1711C>T	c.(1711-1713)CGC>TGC	p.R571C	HECTD3_uc001cmx.3_5'Flank|HECTD3_uc001cmy.3_Missense_Mutation_p.R181C|HECTD3_uc010olh.1_Missense_Mutation_p.R287C	NM_024602	NP_078878	Q5T447	HECD3_HUMAN	HECT domain containing 3	571	HECT.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	ubiquitin-protein ligase activity				0	Acute lymphoblastic leukemia(166;0.155)					TTGGCTGTGCGTACAAAGAAG	0.572													25	74					0	0	0.00632	0	0		A	45472378	A	A	45472378	3	1	19	1	0	0	0	0	1	0	0	0	7057	1145	40	1	910	1	HECTD3	1	45472378	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	126764	45472378	203778243	93	13606											
ZSWIM5	57643	broad.mit.edu	37	chr1	45484973	45484973	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagctctgcaagatgctcAccagggcccgcacacctgtc	9	6	9	17	1	2	1	1	0	1	1	3	1	2	1	4	1	3	4	4	1	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:45484973A>G	uc001cnd.2	-	14	2939	c.2711T>C	c.(2710-2712)GTG>GCG	p.V904A		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	904							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					CAAGATGCTCACCAGGGCCCG	0.567											OREG0013450	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	96					0	0	0.009096	0	0		G	45484973	G	G	45484973	3	3	19	1	0	0	0	0	1	0	0	0	18269	159	6	3	850	3	ZSWIM5	1	45484973	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	12595	45484973	203765648	94	13607											
ZSWIM5	57643	broad.mit.edu	37	chr1	45506099	45506099	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagatttccagttgccgcTgctgctgcaacctcagagta	8	12	10	11	1	1	2	1	0	0	2	2	2	2	2	3	0	5	7	3	0	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:45506099T>C	uc001cnd.2	-	7	1949	c.1721A>G	c.(1720-1722)CAG>CGG	p.Q574R		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	574							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					CAGTTGCCGCTGCTGCTGCAA	0.502													4	107					0	0	0.009096	0	0		C	45506099	C	C	45506099	3	2	19	1	0	0	0	0	1	0	0	0	18269	1580	55	3	1868	3	ZSWIM5	1	45506099	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	21126	45506099	203744522	95	13608											
TOE1	114034	broad.mit.edu	37	chr1	45808127	45808127	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagcccgccggcccctggtGctacacaatggccttataga	8	7	11	15	3	0	1	0	0	0	1	0	2	0	1	5	3	3	1	5	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:45808127G>A	uc009vxq.2	+	6	1147	c.564G>A	c.(562-564)GTG>GTA	p.V188V	MUTYH_uc001cnf.2_5'Flank|MUTYH_uc009vxo.2_5'Flank|MUTYH_uc001cng.2_5'Flank|MUTYH_uc001cnj.2_5'Flank|MUTYH_uc001cni.2_5'Flank|MUTYH_uc001cnh.2_5'Flank|MUTYH_uc001cno.2_5'Flank|MUTYH_uc001cnk.2_5'Flank|MUTYH_uc010oll.1_5'Flank|MUTYH_uc001cnm.2_5'Flank|MUTYH_uc001cnl.2_5'Flank|MUTYH_uc009vxp.2_5'Flank|MUTYH_uc001cnn.2_5'Flank|TOE1_uc001cnq.3_RNA|TOE1_uc010olm.1_Silent_p.V108V|TOE1_uc010oln.1_Silent_p.V194V|TOE1_uc001cnr.3_RNA	NM_025077	NP_079353	Q96GM8	TOE1_HUMAN	target of EGR1, member 1 (nuclear)	188						nuclear speck|nucleolus	nucleic acid binding|zinc ion binding			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)					GGCCCCTGGTGCTACACAATG	0.537													53	126					0	0	0.01441	0	0		A	45808127	A	A	45808127	2	1	19	1	0	0	0	0	0	0	0	1	16374	1306	46	2		2	TOE1	1	45808127	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	302028	45808127	203442494	96	13609											
MAST2	23139	broad.mit.edu	37	chr1	46489481	46489481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacaagtccacccggcagCgctttgccatgaagaagatc	11	6	11	13	2	0	3	0	1	0	2	2	3	1	3	3	2	2	3	3	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:46489481C>T	uc001cov.2	+	15	1892	c.1609C>T	c.(1609-1611)CGC>TGC	p.R537C	MAST2_uc001cow.2_Missense_Mutation_p.R537C|MAST2_uc001coy.1_Missense_Mutation_p.R211C|MAST2_uc001coz.1_Missense_Mutation_p.R422C|MAST2_uc009vya.2_Missense_Mutation_p.R459C|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	537	Protein kinase.				regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity	p.R537H(1)		ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					CACCCGGCAGCGCTTTGCCAT	0.572													17	23					0	0	0.006122	0	0		T	46489481	T	T	46489481	3	4	19	1	0	0	0	0	1	0	0	0	9343	768	27	1	1667	1	MAST2	1	46489481	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	681354	46489481	202761140	97	13610											
FAAH	2166	broad.mit.edu	37	chr1	46874214	46874214	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccggccatgaggcgggcCgtgctggagaccaaacagag	9	4	15	13	3	0	3	0	1	0	2	1	4	1	3	5	4	2	1	5	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:46874214C>T	uc001cpu.2	+	8	1117	c.1035C>T	c.(1033-1035)GCC>GCT	p.A345A	FAAH_uc001cpv.2_RNA	NM_001441	NP_001432	O00519	FAAH1_HUMAN	fatty acid amide hydrolase	345	Cytoplasmic (By similarity).		A -> D (in a breast cancer sample; somatic mutation).		fatty acid catabolic process	cytoplasm|cytoskeleton|endomembrane system|integral to membrane|organelle membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|fatty acid amide hydrolase activity	p.A345D(1)		ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(166;0.155)				Propofol(DB00818)|Thiopental(DB00599)	TGAGGCGGGCCGTGCTGGAGA	0.607													8	482					0	0	0.00308	0	0		T	46874214	T	T	46874214	2	4	19	1	0	0	0	0	0	0	0	1	5364	639	23	1		1	FAAH	1	46874214	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	384733	46874214	202376407	98	13611											
KIAA0494	9813	broad.mit.edu	37	chr1	47155282	47155282	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcaaattctcactgtgggTtttattgtcaagttctgatg	8	19	8	6	0	4	1	3	1	2	0	5	1	4	1	0	1	0	2	0	1	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:47155282T>C	uc001cqk.3	-	6	1749	c.772A>G	c.(772-774)ACC>GCC	p.T258A	KIAA0494_uc010omh.1_Missense_Mutation_p.T258A|KIAA0494_uc010omj.1_Missense_Mutation_p.T114A|KIAA0494_uc001cql.1_Missense_Mutation_p.T258A	NM_014774	NP_055589	O75071	K0494_HUMAN	hypothetical protein LOC9813	258							calcium ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TCACTGTGGGTTTTATTGTCA	0.448													10	174					0	0	0.013537	0	0		C	47155282	C	C	47155282	3	2	19	1	0	0	0	0	1	0	0	0	8195	1725	60	3	739	3	KIAA0494	1	47155282	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	281068	47155282	202095339	99	13612											
SLC5A9	200010	broad.mit.edu	37	chr1	48701407	48701407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtctctccccaggtctgcGggggctgatgattgccgtga	4	11	14	12	3	2	3	0	3	2	0	5	3	3	3	3	3	2	1	3	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:48701407G>A	uc001cro.2	+	10	1200	c.1148G>A	c.(1147-1149)CGG>CAG	p.R383Q	SLC5A9_uc010oms.1_RNA|SLC5A9_uc001crn.2_Missense_Mutation_p.R408Q|SLC5A9_uc010omt.1_Missense_Mutation_p.R397Q|SLC5A9_uc001crp.2_Missense_Mutation_p.R50Q|SLC5A9_uc010omu.1_Missense_Mutation_p.R50Q	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	383	Extracellular (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						CCAGGTCTGCGGGGGCTGATG	0.582													22	38					0	0	0.00278	0	0		A	48701407	A	A	48701407	3	1	19	1	0	0	0	0	1	0	0	0	14697	1116	39	1	1265	1	SLC5A9	1	48701407	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1546125	48701407	200549214	100	13613											
FAF1	11124	broad.mit.edu	37	chr1	51425455	51425455	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctgaaaatccgccaggAtcatctcccggtccatgttg	9	10	8	14	2	3	1	2	1	1	0	6	2	5	2	5	2	0	1	5	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:51425455A>C	uc009vyx.1	-	2	92	c.29T>G	c.(28-30)ATC>AGC	p.I10S	FAF1_uc009vyw.1_RNA|FAF1_uc001cse.1_Missense_Mutation_p.I10S	NM_007051	NP_008982	Q9UNN5	FAF1_HUMAN	FAS-associated factor 1	10					apoptosis|cytoplasmic sequestering of NF-kappaB|positive regulation of apoptosis|positive regulation of protein complex assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of protein catabolic process	CD95 death-inducing signaling complex|cytosol|perinuclear region of cytoplasm	heat shock protein binding|NF-kappaB binding|protein kinase binding|protein kinase regulator activity	p.0?(3)		ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)		ATCCGCCAGGATCATCTCCCG	0.627													22	75					0	0	0.003954	0	0		C	51425455	C	C	51425455	3	2	19	1	0	0	0	0	1	0	0	0	5380	333	12	5	1999	5	FAF1	1	51425455	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2724048	51425455	197825166	101	13614											
RAB3B	5865	broad.mit.edu	37	chr1	52403029	52403029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acatcagaatgaagcccatgGccccacggtaataggctgtt	12	8	10	11	1	1	2	1	1	0	1	1	2	1	2	3	3	1	3	3	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:52403029G>A	uc001cth.2	-	3	409	c.284C>T	c.(283-285)GCC>GTC	p.A95V		NM_002867	NP_002858	P20337	RAB3B_HUMAN	RAB3B, member RAS oncogene family	95					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(1)	1						GAAGCCCATGGCCCCACGGTA	0.433													81	147					0	0	0.01441	0	0		A	52403029	A	A	52403029	3	1	19	1	0	0	0	0	1	0	0	0	12957	1203	42	2	387	2	RAB3B	1	52403029	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	977574	52403029	196847592	102	13615											
PRPF38A	84950	broad.mit.edu	37	chr1	52870494	52870494	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatctggtggagaagatcAttcgaacgcgaatctatgag	14	10	11	6	3	3	3	1	1	2	2	4	6	3	3	0	2	1	0	0	2	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:52870494A>G	uc001ctv.3	+	1	276	c.73A>G	c.(73-75)ATT>GTT	p.I25V	ORC1L_uc001ctt.2_5'Flank|ORC1L_uc010oni.1_5'Flank|ORC1L_uc001ctu.2_5'Flank|ORC1L_uc009vzd.2_5'Flank|PRPF38A_uc001ctw.3_5'UTR	NM_032864	NP_116253	Q8NAV1	PR38A_HUMAN	PRP38 pre-mRNA processing factor 38 (yeast)	25					mRNA processing|RNA splicing	spliceosomal complex					0						GGAGAAGATCATTCGAACGCG	0.507											OREG0013487	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	54	135					0	0	0.01441	0	0		G	52870494	G	G	52870494	3	3	19	1	0	0	0	0	1	0	0	0	12589	217	8	3	75	3	PRPF38A	1	52870494	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	467465	52870494	196380127	103	13616											
ACOT11	26027	broad.mit.edu	37	chr1	55067074	55067074	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagttgctgccctggattcgGccccagcccggcgtaagtgg	5	8	14	14	3	0	0	0	0	0	0	1	1	0	1	4	4	3	3	4	4	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:55067074G>A	uc001cxm.1	+	9	1099	c.1017G>A	c.(1015-1017)CGG>CGA	p.R339R	ACOT11_uc001cxj.1_Silent_p.R217R|ACOT11_uc001cxl.1_Silent_p.R339R	NM_015547	NP_056362	Q8WXI4	ACO11_HUMAN	thioesterase, adipose associated isoform BFIT1	339					fatty acid metabolic process|intracellular signal transduction|response to cold		acyl-CoA thioesterase activity|carboxylesterase activity			central_nervous_system(1)	1						CCTGGATTCGGCCCCAGCCCG	0.667													27	79					0	0	0.010818	0	0		A	55067074	A	A	55067074	2	1	19	1	0	0	0	0	0	0	0	1	149	1190	42	2		2	ACOT11	1	55067074	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2196580	55067074	194183547	104	13617											
FAM151A	338094	broad.mit.edu	37	chr1	55075118	55075118	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggggggaggatgccagcagCctgcctatggctccagctgt	6	7	16	12	1	0	0	0	0	0	0	1	2	1	2	4	5	5	3	4	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:55075118C>T	uc001cxn.2	-	8	1713	c.1581G>A	c.(1579-1581)AGG>AGA	p.R527R	ACOT11_uc001cxj.1_3'UTR|ACOT11_uc001cxl.1_3'UTR|ACOT11_uc001cxm.1_Intron	NM_176782	NP_788954	Q8WW52	F151A_HUMAN	hypothetical protein LOC338094	527						integral to membrane					0						ATGCCAGCAGCCTGCCTATGG	0.627													24	45					0	0	0.009718	0	0		T	55075118	T	T	55075118	2	4	19	1	0	0	0	0	0	0	0	1	5469	738	26	2		2	FAM151A	1	55075118	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	8044	55075118	194175503	105	13618											
C1orf175	374977	broad.mit.edu	37	chr1	55118738	55118738	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatggctcaggtgcctatgTtgaatctgctcccaagtcct	8	12	9	12	0	2	1	1	1	1	0	4	1	4	1	3	2	2	3	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:55118738T>C	uc010ooe.1	+	3	463	c.139T>C	c.(139-141)TTG>CTG	p.L47L	C1orf175_uc001cxq.2_RNA|C1orf175_uc001cxo.2_Silent_p.L47L|C1orf175_uc010ooc.1_Intron|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Intron|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc010oog.1_Silent_p.L47L|C1orf175_uc010ooh.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	47						integral to membrane	binding				0						GGTGCCTATGTTGAATCTGCT	0.567													3	114					0	0	0.009096	0	0		C	55118738	C	C	55118738	2	2	19	1	0	0	0	0	0	0	0	1	2019	1722	60	3		3	C1orf175	1	55118738	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	43620	55118738	194131883	106	13619											
TTC4	7268	broad.mit.edu	37	chr1	55182282	55182282	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accatttacaggaatttgaaAaggtccccctatttatgtcg	12	13	7	9	1	0	1	0	1	0	0	2	2	1	2	3	2	1	0	3	2	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:55182282A>G	uc001cxx.3	+	2	174	c.121A>G	c.(121-123)AAG>GAG	p.K41E	C1orf175_uc001cxq.2_RNA|TTC4_uc001cxw.3_Missense_Mutation_p.K41E|TTC4_uc001cxv.2_Missense_Mutation_p.K52E	NM_004623	NP_004614	O95801	TTC4_HUMAN	tetratricopeptide repeat domain 4	41							binding				0						GGAATTTGAAAAGGTCCCCCT	0.393													9	114					0	0	0.006214	0	0		G	55182282	G	G	55182282	3	3	19	1	0	0	0	0	1	0	0	0	16736	15	1	3	127	3	TTC4	1	55182282	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	63544	55182282	194068339	107	13620											
PRKAA2	5563	broad.mit.edu	37	chr1	57169936	57169936	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atagtgccatgcatattcccCcaggcctgaaacctcatcca	11	9	6	15	0	1	1	1	1	0	0	3	1	3	1	6	1	3	1	6	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:57169936C>A	uc001cyk.3	+	7	1152	c.1081C>A	c.(1081-1083)CCA>ACA	p.P361T		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	361					carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						GCATATTCCCCCAGGCCTGAA	0.473													36	62					4.65686e-17	4.94054e-17	0.003755	1	0		A	57169936	A	A	57169936	3	1	19	1	0	0	0	0	1	0	0	0	12516	623	22	5	1107	5	PRKAA2	1	57169936	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1987654	57169936	192080685	108	13621											
MYSM1	114803	broad.mit.edu	37	chr1	59139300	59139300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accagtttccccatgggtctCggaccctacgtctccttgta	6	12	8	15	2	2	0	0	0	2	0	5	1	3	1	5	2	1	2	5	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:59139300C>T	uc009wab.1	-	11	1540	c.1517G>A	c.(1516-1518)CGA>CAA	p.R506Q	MYSM1_uc001czc.2_RNA	NM_001085487	NP_001078956	Q5VVJ2	MYSM1_HUMAN	Myb-like, SWIRM and MPN domains 1	506					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin remodeling complex	DNA binding|histone binding|metal ion binding|metallopeptidase activity|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(1)	1	all_cancers(7;9.36e-06)					CCATGGGTCTCGGACCCTACG	0.398													19	36					0	0	0.008871	0	0		T	59139300	T	T	59139300	3	4	19	1	0	0	0	0	1	0	0	0	10119	884	31	1	1009	1	MYSM1	1	59139300	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1969364	59139300	190111321	109	13622											
HOOK1	51361	broad.mit.edu	37	chr1	60309201	60309201	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctcttttgatgatccaaAcacagtggttgcaaaaaagt	13	12	9	7	0	1	2	0	2	1	0	2	2	2	2	1	2	2	3	1	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:60309201A>G	uc009wad.2	+	10	821	c.719A>G	c.(718-720)AAC>AGC	p.N240S	HOOK1_uc001czo.2_Missense_Mutation_p.N240S|HOOK1_uc001czp.2_RNA|HOOK1_uc010oor.1_Missense_Mutation_p.N198S	NM_015888	NP_056972	Q9UJC3	HOOK1_HUMAN	hook homolog 1	240	Potential.|Sufficient for interaction with microtubules.				early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|multicellular organismal development|protein transport	FHF complex|microtubule	identical protein binding			ovary(1)|breast(1)	2	all_cancers(7;0.000129)					GATGATCCAAACACAGTGGTT	0.333													9	71					0	0	0.006214	0	0		G	60309201	G	G	60309201	3	3	19	1	0	0	0	0	1	0	0	0	7298	43	2	3	753	3	HOOK1	1	60309201	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1169901	60309201	188941420	110	13623											
HOOK1	51361	broad.mit.edu	37	chr1	60331559	60331559	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagtacaaaagatcaatgAacttgaagctgctcttcaga	17	10	7	7	0	3	4	2	2	1	2	3	4	3	4	0	0	4	3	0	0	8	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:60331559A>G	uc009wad.2	+	20	1862	c.1760A>G	c.(1759-1761)GAA>GGA	p.E587G	HOOK1_uc001czo.2_Missense_Mutation_p.E587G|HOOK1_uc001czp.2_RNA|HOOK1_uc010oor.1_Missense_Mutation_p.E545G	NM_015888	NP_056972	Q9UJC3	HOOK1_HUMAN	hook homolog 1	587	Potential.				early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|multicellular organismal development|protein transport	FHF complex|microtubule	identical protein binding			ovary(1)|breast(1)	2	all_cancers(7;0.000129)					AAGATCAATGAACTTGAAGCT	0.279													4	61					0	0	0.009096	0	0		G	60331559	G	G	60331559	3	3	19	1	0	0	0	0	1	0	0	0	7298	246	9	3	1834	3	HOOK1	1	60331559	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	22358	60331559	188919062	111	13624											
INADL	10207	broad.mit.edu	37	chr1	62228824	62228824	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccagatactcacacttcaGcagtccatcaagcaactgaa	16	7	5	13	0	3	2	3	1	0	1	4	2	4	2	2	0	5	2	2	0	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:62228824G>A	uc001dab.2	+	3	276	c.162G>A	c.(160-162)CAG>CAA	p.Q54Q	INADL_uc009waf.1_Silent_p.Q54Q|INADL_uc001daa.2_Silent_p.Q54Q	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	54	L27.				intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						TCACACTTCAGCAGTCCATCA	0.363													6	75					0	0	0.00308	0	0		A	62228824	A	A	62228824	2	1	19	1	0	0	0	0	0	0	0	1	7747	962	34	2		2	INADL	1	62228824	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1897265	62228824	187021797	112	13625											
KANK4	163782	broad.mit.edu	37	chr1	62728927	62728927	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccacggcggggctagaCgacttccggctggagacgcg	7	4	16	14	6	0	2	0	0	0	2	1	4	1	2	3	5	0	2	3	5	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:62728927C>T	uc001dah.3	-	7	2753	c.2376G>A	c.(2374-2376)TCG>TCA	p.S792S	KANK4_uc001dai.3_Silent_p.S164S|KANK4_uc001daf.3_5'UTR|KANK4_uc001dag.3_Silent_p.S148S	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	792								p.S792L(1)		ovary(3)|skin(2)|lung(1)	6						CGGGGCTAGACGACTTCCGGC	0.572													7	14					0	0	0.00308	0	0		T	62728927	T	T	62728927	2	4	19	1	0	0	0	0	0	0	0	1	7995	523	19	1		1	KANK4	1	62728927	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	500103	62728927	186521694	113	13626											
DOCK7	85440	broad.mit.edu	37	chr1	62979473	62979473	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagatctgtaaaccacttctGtagaactgtttcatctgcat	11	14	7	9	0	4	2	1	0	3	2	4	3	4	2	1	0	3	4	1	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:62979473G>A	uc001daq.2	-	32	4067	c.4033C>T	c.(4033-4035)CAG>TAG	p.Q1345*	DOCK7_uc001dan.2_Nonsense_Mutation_p.Q1206*|DOCK7_uc001dao.2_Nonsense_Mutation_p.Q1206*|DOCK7_uc001dap.2_Nonsense_Mutation_p.Q1314*|DOCK7_uc001dam.2_Nonsense_Mutation_p.Q525*|DOCK7_uc010oov.1_Intron	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1345					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						AACCACTTCTGTAGAACTGTT	0.413													60	148					0	0	0.01441	0	0		A	62979473	A	A	62979473	4	1	19	1	0	0	0	0	0	1	0	0	4698	1386	48	4	2465	4	DOCK7	1	62979473	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	250546	62979473	186271148	114	13627											
LEPR	3953	broad.mit.edu	37	chr1	66081718	66081718	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaaatgactcattgtgcAgtgttcagagatatgtgata	14	13	10	4	0	2	4	2	3	0	1	2	5	2	4	0	0	1	2	0	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:66081718A>T	uc001dci.2	+	15	2225	c.2023A>T	c.(2023-2025)AGT>TGT	p.S675C	LEPR_uc001dcg.2_Missense_Mutation_p.S675C|LEPR_uc001dch.2_Missense_Mutation_p.S675C|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Missense_Mutation_p.S675C|LEPR_uc001dck.2_Missense_Mutation_p.S675C	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	675	Extracellular (Potential).|Fibronectin type-III 3.		S -> T.		energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		CTCATTGTGCAGTGTTCAGAG	0.388													30	78					0	0	0.004878	0	0		T	66081718	T	T	66081718	3	4	19	1	0	0	0	0	1	0	0	0	8744	188	7	5	2073	5	LEPR	1	66081718	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3102245	66081718	183168903	115	13628											
MIER1	57708	broad.mit.edu	37	chr1	67437384	67437384	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgatacagaagaagcatTgagaagattaagatttaatg	17	13	9	2	0	0	6	0	2	0	5	0	7	0	6	0	0	2	1	0	0	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:67437384T>C	uc001dde.2	+	10	1105	c.971T>C	c.(970-972)TTG>TCG	p.L324S	MIER1_uc010opf.1_Missense_Mutation_p.L288S|MIER1_uc009way.2_Missense_Mutation_p.L288S|MIER1_uc001ddc.2_Missense_Mutation_p.L324S|MIER1_uc001ddh.2_Missense_Mutation_p.L208S|MIER1_uc001ddf.2_Missense_Mutation_p.L288S|MIER1_uc001ddg.2_Missense_Mutation_p.L244S|MIER1_uc010opg.1_Missense_Mutation_p.L288S|MIER1_uc001ddj.1_Missense_Mutation_p.L271S|MIER1_uc001ddi.2_Missense_Mutation_p.L271S	NM_001077700	NP_001071168	Q8N108	MIER1_HUMAN	mesoderm induction early response 1 isoform b	295	ELM2.|Interaction with HDAC1.				positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)	1						GAAGAAGCATTGAGAAGATTA	0.274													18	65					0	0	0.007413	0	0		C	67437384	C	C	67437384	3	2	19	1	0	0	0	0	1	0	0	0	9598	1821	63	3	1086	3	MIER1	1	67437384	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1355666	67437384	181813237	116	13629											
IL23R	149233	broad.mit.edu	37	chr1	67635241	67635241	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaaactttctggaaccacAtgcttctatgtactgcactg	12	13	6	10	0	2	0	0	0	2	0	2	1	2	1	1	1	5	3	1	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:67635241A>G	uc001ddo.2	+	3	372	c.287A>G	c.(286-288)CAT>CGT	p.H96R	IL23R_uc009waz.2_5'UTR|IL23R_uc001ddp.2_RNA|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_5'UTR|IL23R_uc010opk.1_Missense_Mutation_p.H53R|IL23R_uc010opl.1_5'UTR|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_5'UTR|IL23R_uc010opn.1_5'UTR|IL23R_uc001ddr.2_RNA	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	96	Extracellular (Potential).				inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						CTGGAACCACATGCTTCTATG	0.348													55	124					0	0	0.01441	0	0		G	67635241	G	G	67635241	3	3	19	1	0	0	0	0	1	0	0	0	7692	217	8	3	293	3	IL23R	1	67635241	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	197857	67635241	181615380	117	13630											
IL12RB2	3595	broad.mit.edu	37	chr1	67861635	67861635	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggcacctctcgctgacTctctggaagaactggagcct	9	9	11	12	1	2	3	0	2	2	1	4	5	2	5	2	3	2	2	2	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:67861635T>A	uc001ddu.2	+	16	3092	c.2452T>A	c.(2452-2454)TCT>ACT	p.S818T	IL12RB2_uc010oqi.1_3'UTR|IL12RB2_uc010oqj.1_3'UTR|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Missense_Mutation_p.S732T|IL12RB2_uc010oqm.1_3'UTR|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	818	Cytoplasmic (Potential).				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						TCTCGCTGACTCTCTGGAAGA	0.547													180	364					0	0	0.01441	0	0		A	67861635	A	A	67861635	3	1	19	1	0	0	0	0	1	0	0	0	7643	1551	54	5	2510	5	IL12RB2	1	67861635	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	226394	67861635	181388986	118	13631											
WLS	79971	broad.mit.edu	37	chr1	68564361	68564361	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaaggaatatttcgaaGcgctgaacaattcttgataa	15	12	9	5	2	1	4	0	4	1	0	2	6	1	5	0	1	2	1	0	1	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:68564361G>A	uc001dee.2	-	12	1857	c.1586C>T	c.(1585-1587)GCT>GTT	p.A529V	uc001deb.1_RNA|uc001dec.1_RNA	NM_001002292	NP_001002292	Q5T9L3	WLS_HUMAN	G protein-coupled receptor 177 isoform 2	Error:Variant_position_missing_in_Q5T9L3_after_alignment					multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0						atatttcgaagcgctgaacaa	0													4	79					0	0	0.001168	0	0		A	68564361	A	A	68564361	3	1	19	1	0	0	0	0	1	0	0	0	17402	971	34	2	49	2	WLS	1	68564361	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	702726	68564361	180686260	119	13632											
FPGT	8790	broad.mit.edu	37	chr1	74671452	74671452	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttatctacaaagatgtagAagatatgataacttacaggg	16	11	9	5	0	1	4	0	1	1	3	1	4	1	4	0	1	3	2	0	1	8	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:74671452A>G	uc001dgb.1	+	4	1758	c.1721A>G	c.(1720-1722)GAA>GGA	p.E574G	TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron|FPGT_uc010oqt.1_Missense_Mutation_p.E199G|FPGT_uc010oqu.1_Missense_Mutation_p.E320G|FPGT_uc010oqv.1_Intron	NM_003838	NP_003829	O14772	FPGT_HUMAN	fucose-1-phosphate guanyltransferase	574					fucose metabolic process	cytoplasm	fucose-1-phosphate guanylyltransferase activity|GTP binding			skin(1)	1						AAAGATGTAGAAGATATGATA	0.313													6	51					0	0	0.001984	0	0		G	74671452	G	G	74671452	3	3	19	1	0	0	0	0	1	0	0	0	6051	246	9	3	1735	3	FPGT	1	74671452	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	6107091	74671452	174579169	120	13633											
C1orf173	127254	broad.mit.edu	37	chr1	75038657	75038657	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacttcatgaagatgctccaAgttcagggctgctgcttcat	9	13	9	10	0	3	2	3	1	0	1	4	2	4	2	1	1	4	5	1	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:75038657A>C	uc001dgg.2	-	14	2956	c.2737T>G	c.(2737-2739)TTG>GTG	p.L913V		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	913	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						AGATGCTCCAAGTTCAGGGCT	0.542													6	305					0	0	0.004482	0	0		C	75038657	C	C	75038657	3	2	19	1	0	0	0	0	1	0	0	0	2017	69	3	5	1859	5	C1orf173	1	75038657	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	367205	75038657	174211964	121	13634											
ASB17	127247	broad.mit.edu	37	chr1	76387916	76387916	+	Frame_Shift_Del	DEL	T	-	-																															ttaagacaatgttgatagggTttttttctctttctaagatt																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:76387916delT	uc001dhe.1	-	2	670	c.530delA	c.(529-531)AACfs	p.N177fs	ASB17_uc001dhf.1_RNA	NM_080868	NP_543144	Q8WXJ9	ASB17_HUMAN	ankyrin repeat and SOCS box-containing 17	177					intracellular signal transduction					ovary(1)	1						GTTGATAGGGTTTTTTTCTCT	0.368													22	34	---	---	---	---						.	-	76387916	-	-	76387916	7	5	19	1	0	1	0	1	0	0	0	0	1022	1725	60	0	365	0	ASB17	1	76387916	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	1349259	76387916	172862705	122	13635											
ZZZ3	26009	broad.mit.edu	37	chr1	78050227	78050227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctggagtttttccacaaatCcaatgggatttttcagtgct	9	16	8	8	0	2	0	1	0	1	0	4	2	4	2	2	2	1	2	2	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:78050227C>T	uc001dhq.2	-	6	2095	c.1619G>A	c.(1618-1620)GGA>GAA	p.G540E	ZZZ3_uc001dhr.2_Missense_Mutation_p.G46E|ZZZ3_uc009wbz.1_3'UTR|ZZZ3_uc001dhp.2_Missense_Mutation_p.G540E	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	540					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						TTCCACAAATCCAATGGGATT	0.383													7	119					0	0	0.00308	0	0		T	78050227	T	T	78050227	3	4	19	1	0	0	0	0	1	0	0	0	18281	855	30	4	1132	4	ZZZ3	1	78050227	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1662311	78050227	171200394	123	13636											
ZZZ3	26009	broad.mit.edu	37	chr1	78097960	78097960	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcatttgagctgaaacAcagtctagaacaggagatgg	15	8	11	7	0	2	4	1	2	1	2	2	6	2	4	0	2	3	1	0	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:78097960A>G	uc001dhq.2	-	5	1556	c.1080T>C	c.(1078-1080)TGT>TGC	p.C360C	ZZZ3_uc001dhr.2_Intron|ZZZ3_uc009wbz.1_Silent_p.C360C|ZZZ3_uc001dhp.2_Silent_p.C360C	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	360					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						GAGCTGAAACACAGTCTAGAA	0.463													52	124					0	0	0.01441	0	0		G	78097960	G	G	78097960	2	3	19	1	0	0	0	0	0	0	0	1	18281	157	6	3		3	ZZZ3	1	78097960	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	47733	78097960	171152661	124	13637											
WDR63	126820	broad.mit.edu	37	chr1	85563328	85563328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggtagtagaagtaaaagagCcacactgaaggtaagctttt	15	10	11	5	0	0	3	0	1	0	2	0	3	0	3	1	2	2	5	1	2	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:85563328C>T	uc001dkt.2	+	12	1531	c.1340C>T	c.(1339-1341)GCC>GTC	p.A447V	WDR63_uc009wcl.2_Missense_Mutation_p.A408V	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	447										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		AGTAAAAGAGCCACACTGAAG	0.343													4	35					0	0	0.009096	0	0		T	85563328	T	T	85563328	3	4	19	1	0	0	0	0	1	0	0	0	17340	739	26	2	1382	2	WDR63	1	85563328	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	7465368	85563328	163687293	125	13638											
COL24A1	255631	broad.mit.edu	37	chr1	86591704	86591704	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacccagttaatattgtaaaCggctgccccaagttgactgg	12	10	9	10	1	0	1	0	1	0	0	0	1	0	1	3	2	3	4	3	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:86591704C>T	uc001dlj.2	-	3	357	c.315G>A	c.(313-315)CCG>CCA	p.P105P	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Silent_p.P105P	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	105	TSP N-terminal.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		ATATTGTAAACGGCTGCCCCA	0.373													25	71					0	0	0.004656	0	0		T	86591704	T	T	86591704	2	4	19	1	0	0	0	0	0	0	0	1	3686	523	19	1		1	COL24A1	1	86591704	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1028376	86591704	162658917	126	13639											
CLCA1	1179	broad.mit.edu	37	chr1	86947904	86947904	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagatgttcagcaggtattActggtacaaatgtagtaaag	14	12	10	5	0	2	1	2	0	0	1	2	1	2	1	0	2	3	6	0	2	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:86947904A>G	uc001dlt.2	+	5	703	c.574A>G	c.(574-576)ACT>GCT	p.T192A	CLCA1_uc001dls.1_Missense_Mutation_p.T131A	NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	192					calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		AGCAGGTATTACTGGTACAAA	0.393													23	30					0	0	0.014323	0	0		G	86947904	G	G	86947904	3	3	19	1	0	0	0	0	1	0	0	0	3460	391	14	3	592	3	CLCA1	1	86947904	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	356200	86947904	162302717	127	13640											
RBMXL1	494115	broad.mit.edu	37	chr1	89449460	89449460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctttctcatttgtttccGtattaagcccaccaatgaag	10	14	7	10	1	1	1	1	1	1	0	3	2	2	1	3	0	2	3	3	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:89449460G>A	uc009wcx.2	-	3	766	c.50C>T	c.(49-51)ACG>ATG	p.T17M	CCBL2_uc001dmp.2_Intron|CCBL2_uc001dmq.2_Intron|CCBL2_uc001dmr.2_Intron|RBMXL1_uc001dms.2_Missense_Mutation_p.T17M	NM_001162536	NP_001156008	Q96E39	RBMXL_HUMAN	RNA binding motif protein, X-linked-like 1	17	RRM.						nucleotide binding|RNA binding				0						ATTTGTTTCCGTATTAAGCCC	0.433											OREG0013593	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	479					0	0	0.01441	0	0		A	89449460	A	A	89449460	3	1	19	1	0	0	0	0	1	0	0	0	13178	1145	40	1	1126	1	RBMXL1	1	89449460	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2501556	89449460	159801161	128	13641											
GBP1	2633	broad.mit.edu	37	chr1	89519089	89519089	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attttcgtctggagatcctgTatctcatttttcattattct	7	21	5	8	1	4	1	2	0	3	1	7	2	5	1	1	1	0	1	1	1	2	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:89519089T>C	uc001dmx.2	-	11	1948	c.1728A>G	c.(1726-1728)ATA>ATG	p.I576M		NM_002053	NP_002044	P32455	GBP1_HUMAN	guanylate binding protein 1,	576					interferon-gamma-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0156)|Epithelial(280;0.0291)		GGAGATCCTGTATCTCATTTT	0.403													9	206					0	0	0.008291	0	0		C	89519089	C	C	89519089	3	2	19	1	0	0	0	0	1	0	0	0	6288	1628	57	3	54	3	GBP1	1	89519089	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	69629	89519089	159731532	129	13642											
GBP2	2634	broad.mit.edu	37	chr1	89582734	89582734	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattggaatggctgaggatgTaggaacaaaattctgcaact	14	10	11	6	0	1	1	0	1	1	0	1	4	1	4	0	4	3	3	0	4	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:89582734T>C	uc001dmz.1	-	6	1080	c.809A>G	c.(808-810)TAC>TGC	p.Y270C	GBP2_uc001dmy.1_RNA	NM_004120	NP_004111	P32456	GBP2_HUMAN	guanylate binding protein 2,	270					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)	1		Lung NSC(277;0.0908)		all cancers(265;0.0151)|Epithelial(280;0.0284)		GCTGAGGATGTAGGAACAAAA	0.483													4	64					0	0	0.000602	0	0		C	89582734	C	C	89582734	3	2	19	1	0	0	0	0	1	0	0	0	6289	1638	57	3	990	3	GBP2	1	89582734	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	63645	89582734	159667887	130	13643											
LRRC8B	23507	broad.mit.edu	37	chr1	90050223	90050223	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ataataatattgagaatctgCccttgcagcttttcctatgc	11	15	6	9	0	1	1	0	1	1	1	2	2	2	1	2	0	4	2	2	0	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:90050223C>A	uc001dni.2	+	7	2521	c.2014C>A	c.(2014-2016)CCC>ACC	p.P672T	LRRC8B_uc001dnh.2_Missense_Mutation_p.P672T|LRRC8B_uc001dnj.2_Missense_Mutation_p.P672T	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	672	LRR 9.					integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		TGAGAATCTGCCCTTGCAGCT	0.378													18	149					2.4624e-09	2.57191e-09	0.008871	1	0		A	90050223	A	A	90050223	3	1	19	1	0	0	0	0	1	0	0	0	9040	739	26	5	2016	5	LRRC8B	1	90050223	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	467489	90050223	159200398	131	13644											
ZNF326	284695	broad.mit.edu	37	chr1	90478719	90478719	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatgaagaggaagaaaaGcggcgaattgaggctcggcg	17	4	15	5	4	0	4	0	2	0	2	1	6	0	5	0	4	1	1	0	4	7	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:90478719G>A	uc001dnq.2	+	7	988	c.849G>A	c.(847-849)AAG>AAA	p.K283K	ZNF326_uc009wda.1_Silent_p.K194K|ZNF326_uc001dnr.2_Silent_p.K77K	NM_182976	NP_892021	Q5BKZ1	ZN326_HUMAN	zinc finger protein 326 isoform 1	283					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	DNA binding			ovary(1)	1		all_lung(203;0.0116)|Lung NSC(277;0.0417)		all cancers(265;0.00728)|Epithelial(280;0.0265)		AGGAAGAAAAGCGGCGAATTG	0.368													5	28					0	0	0.006214	0	0		A	90478719	A	A	90478719	2	1	19	1	0	0	0	0	0	0	0	1	17871	962	34	2		2	ZNF326	1	90478719	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	428496	90478719	158771902	132	13645											
ZNF644	84146	broad.mit.edu	37	chr1	91405022	91405022	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctacaggttcttcaaggAtgtcattttttcttttatca	9	20	5	7	0	6	0	3	0	3	0	6	1	6	1	0	2	1	1	0	2	4	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:91405022A>T	uc001dnw.2	-	3	2031	c.1889T>A	c.(1888-1890)ATC>AAC	p.I630N	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.I630N	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	630					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		TTCTTCAAGGATGTCATTTTT	0.353													37	107					0	0	0.004289	0	0		T	91405022	T	T	91405022	3	4	19	1	0	0	0	0	1	0	0	0	18085	333	12	5	2110	5	ZNF644	1	91405022	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	926303	91405022	157845599	133	13646											
ZNF644	84146	broad.mit.edu	37	chr1	91405907	91405907	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcatatttctgtgagtctActgcttgtagctcttcattt	7	19	7	8	0	4	1	1	1	3	0	4	1	4	1	0	0	4	4	0	0	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:91405907A>G	uc001dnw.2	-	3	1146	c.1004T>C	c.(1003-1005)GTA>GCA	p.V335A	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.V335A	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	335					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		CTGTGAGTCTACTGCTTGTAG	0.353													5	126					0	0	0.000602	0	0		G	91405907	G	G	91405907	3	3	19	1	0	0	0	0	1	0	0	0	18085	391	14	3	2995	3	ZNF644	1	91405907	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	885	91405907	157844714	134	13647											
ZNF644	84146	broad.mit.edu	37	chr1	91406587	91406587	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagctcctttaggcaagatAaagttttcactagaaacagt	14	11	8	8	0	1	2	1	0	0	2	2	2	2	2	1	1	2	4	1	1	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:91406587A>G	uc001dnw.2	-	3	466	c.324T>C	c.(322-324)TTT>TTC	p.F108F	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Silent_p.F108F	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		TAGGCAAGATAAAGTTTTCAC	0.408													11	78					0	0	0.008291	0	0		G	91406587	G	G	91406587	2	3	19	1	0	0	0	0	0	0	0	1	18085	359	13	3		3	ZNF644	1	91406587	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	680	91406587	157844034	135	13648											
EVI5	7813	broad.mit.edu	37	chr1	92979436	92979436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcatcggaggaatggaatGattcatcatctcctattaaa	13	13	7	8	1	4	1	3	1	1	0	6	4	4	4	1	3	0	0	1	3	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:92979436G>A	uc001dox.2	-	18	2220	c.2210C>T	c.(2209-2211)TCA>TTA	p.S737L	EVI5_uc010otf.1_Missense_Mutation_p.S748L	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	737	Targeting to the centrosomes.|Interaction with AURKB and INCENP.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		GGAATGGAATGATTCATCATC	0.428													4	85					0	0	0.009096	0	0		A	92979436	A	A	92979436	3	1	19	1	0	0	0	0	1	0	0	0	5297	1294	45	4	226	4	EVI5	1	92979436	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1572849	92979436	156271185	136	13649											
DNTTIP2	30836	broad.mit.edu	37	chr1	94335492	94335492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatctctgagtacttccttCggttgtatctgaaaaagaaa	12	14	8	7	1	2	4	0	3	2	1	5	4	3	4	1	1	1	3	1	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:94335492C>T	uc001dqf.2	-	7	2224	c.2186G>A	c.(2185-2187)CGA>CAA	p.R729Q	DNTTIP2_uc010otm.1_RNA	NM_014597	NP_055412	Q5QJE6	TDIF2_HUMAN	deoxynucleotidyltransferase, terminal,	729					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_lung(203;0.0111)|Lung NSC(277;0.0347)		all cancers(265;0.00679)|GBM - Glioblastoma multiforme(16;0.0278)|Epithelial(280;0.128)		GTACTTCCTTCGGTTGTATCT	0.294													11	38					0	0	0.013537	0	0		T	94335492	T	T	94335492	3	4	19	1	0	0	0	0	1	0	0	0	4688	884	31	1	88	1	DNTTIP2	1	94335492	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1356056	94335492	154915129	137	13650											
ABCA4	24	broad.mit.edu	37	chr1	94528845	94528845	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagctgagtttcatcattgTagctttcaaacttatccagg	10	15	8	8	0	3	2	3	2	0	0	4	2	4	2	1	1	3	4	1	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:94528845T>C	uc001dqh.2	-	12	1687	c.1583A>G	c.(1582-1584)TAC>TGC	p.Y528C	ABCA4_uc010otn.1_Missense_Mutation_p.Y528C	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	528	Extracellular.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		TTCATCATTGTAGCTTTCAAA	0.493													6	145					0	0	0.004482	0	0		C	94528845	C	C	94528845	3	2	19	1	0	0	0	0	1	0	0	0	34	1638	57	3	5394	3	ABCA4	1	94528845	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	193353	94528845	154721776	138	13651											
RWDD3	25950	broad.mit.edu	37	chr1	95710198	95710198	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggctgacaggaagactgAtgttcatgggtaaaataata	16	10	11	4	0	1	3	1	2	0	1	1	4	1	4	0	3	0	3	0	3	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:95710198A>G	uc009wdu.2	+	2	593	c.517A>G	c.(517-519)ATG>GTG	p.M173V	RWDD3_uc001drd.3_3'UTR|RWDD3_uc010oty.1_Missense_Mutation_p.M158V|RWDD3_uc009wdt.2_Missense_Mutation_p.M173V|RWDD3_uc001drf.3_Missense_Mutation_p.M173V|RWDD3_uc001drh.3_Missense_Mutation_p.M158V|RWDD3_uc009wdv.2_RNA|RWDD3_uc001drg.3_RNA|RWDD3_uc001dri.3_Missense_Mutation_p.M173V	NM_015485	NP_056300	Q9Y3V2	RWDD3_HUMAN	RWD domain containing 3 isoform a	173						cytoplasm|nucleus	protein binding			ovary(1)	1		all_epithelial(167;5.99e-05)|all_lung(203;0.00168)|Lung NSC(277;0.00769)		all cancers(265;0.112)|Epithelial(280;0.229)		AGGAAGACTGATGTTCATGGG	0.368													15	173					0	0	0.00499	0	0		G	95710198	G	G	95710198	3	3	19	1	0	0	0	0	1	0	0	0	13782	333	12	3	523	3	RWDD3	1	95710198	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1181353	95710198	153540423	139	13652											
DPYD	1806	broad.mit.edu	37	chr1	98206022	98206022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctgacacggggcatctgCacatttcaggcatctaggaa	10	10	10	11	1	4	1	1	1	3	0	4	2	4	2	0	4	1	3	0	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:98206022C>T	uc001drv.2	-	4	384	c.247G>A	c.(247-249)GCA>ACA	p.A83T	DPYD_uc010oub.1_RNA|DPYD_uc001drw.2_Missense_Mutation_p.A83T	NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	83	4Fe-4S ferredoxin-type 1.				'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	GGGGCATCTGCACATTTCAGG	0.338													5	139					0	0	0.001168	0	0		T	98206022	T	T	98206022	3	4	19	1	0	0	0	0	1	0	0	0	4751	710	25	2	2953	2	DPYD	1	98206022	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2495824	98206022	151044599	140	13653											
LPPR5	163404	broad.mit.edu	37	chr1	99380342	99380342	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatttaaattgtgagtcacCtgtacagatgttaccttttc	11	16	7	7	0	1	2	1	1	0	1	2	3	1	2	2	0	2	2	2	0	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:99380342C>A	uc001dsb.2	-	5	1155	c.933G>T	c.(931-933)CAG>CAT	p.Q311H	LPPR5_uc001dsc.2_Intron	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	311						integral to membrane	hydrolase activity				0						TGTGAGTCACCTGTACAGATG	0.348													18	68					1.56452e-12	1.64496e-12	0.007413	1	0		A	99380342	A	A	99380342	3	1	19	1	0	0	0	0	1	0	0	0	8946	695	24	5	40	5	LPPR5	1	99380342	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1174320	99380342	149870279	141	13654											
AGL	178	broad.mit.edu	37	chr1	100366349	100366349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttccaaatggtctagacAttctcaagtgcccagtttcc	9	13	8	11	0	2	1	1	0	2	1	5	1	4	1	3	2	1	2	3	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:100366349A>G	uc001dsi.1	+	26	3920	c.3520A>G	c.(3520-3522)ATT>GTT	p.I1174V	AGL_uc001dsj.1_Missense_Mutation_p.I1174V|AGL_uc001dsk.1_Missense_Mutation_p.I1174V|AGL_uc001dsl.1_Missense_Mutation_p.I1174V|AGL_uc001dsm.1_Missense_Mutation_p.I1158V|AGL_uc001dsn.1_Missense_Mutation_p.I1157V	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	1174	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		TGGTCTAGACATTCTCAAGTG	0.418													8	279					0	0	0.00308	0	0		G	100366349	G	G	100366349	3	3	19	1	0	0	0	0	1	0	0	0	384	217	8	3	3687	3	AGL	1	100366349	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	986007	100366349	148884272	142	13655											
HIAT1	64645	broad.mit.edu	37	chr1	100515493	100515493	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataggttctcctagtgtctAtcatgcagttatcgtcatct	9	16	7	9	1	5	0	2	0	3	0	7	0	5	0	1	1	1	3	1	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:100515493A>G	uc001dst.2	+	2	113	c.113A>G	c.(112-114)TAT>TGT	p.Y38C		NM_033055	NP_149044	Q96MC6	HIAT1_HUMAN	hippocampus abundant transcript 1	38	Extracellular (Potential).				transmembrane transport	integral to membrane|plasma membrane	transporter activity				0		all_epithelial(167;2.96e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0832)|all cancers(265;0.136)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.195)		CCTAGTGTCTATCATGCAGTT	0.303													23	89					0	0	0.010818	0	0		G	100515493	G	G	100515493	3	3	19	1	0	0	0	0	1	0	0	0	7113	449	16	3	119	3	HIAT1	1	100515493	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	149144	100515493	148735128	143	13656											
RTCD1	8634	broad.mit.edu	37	chr1	100736176	100736176	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgctgcttctccatcagaActtcatttgaaaggtggaac	10	14	8	9	0	3	2	2	1	1	1	4	3	3	3	1	2	4	2	1	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:100736176A>G	uc001dtc.2	+	4	572	c.354A>G	c.(352-354)GAA>GAG	p.E118E	RTCD1_uc010ouh.1_Silent_p.E118E|RTCD1_uc001dtd.2_Silent_p.E131E	NM_003729	NP_003720	O00442	RTC1_HUMAN	RNA terminal phosphate cyclase domain 1 isoform	118					RNA processing	mitochondrion|nucleoplasm	ATP binding|protein binding|RNA binding|RNA-3'-phosphate cyclase activity				0		all_epithelial(167;0.000686)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0513)|all cancers(265;0.0902)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)		CTCCATCAGAACTTCATTTGA	0.423													103	211					0	0	0.01441	0	0		G	100736176	G	G	100736176	2	3	19	1	0	0	0	0	0	0	0	1	13743	40	2	3		3	RTCD1	1	100736176	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	220683	100736176	148514445	144	13657											
CDC14A	8556	broad.mit.edu	37	chr1	100928305	100928305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaagatttatgaggcaaagCgcttcacagacgctggcttc	13	9	10	9	2	1	3	1	1	0	2	2	3	1	3	0	2	1	4	0	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:100928305C>T	uc001dtg.3	+	9	1194	c.706C>T	c.(706-708)CGC>TGC	p.R236C	CDC14A_uc009web.2_RNA|CDC14A_uc010oui.1_Missense_Mutation_p.R178C|CDC14A_uc001dte.3_Missense_Mutation_p.R236C|CDC14A_uc001dtf.2_Missense_Mutation_p.R236C|CDC14A_uc009wed.1_5'UTR|CDC14A_uc009wee.2_Missense_Mutation_p.R236C	NM_003672	NP_003663	Q9UNH5	CC14A_HUMAN	CDC14 homolog A isoform 1	236	B.				cell cycle|cell division|cell proliferation	centrosome|nucleus|spindle	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			large_intestine(1)	1		all_epithelial(167;3.71e-06)|all_lung(203;0.00097)|Lung NSC(277;0.001)		Epithelial(280;0.0676)|all cancers(265;0.127)|COAD - Colon adenocarcinoma(174;0.201)|Lung(183;0.227)|Colorectal(144;0.241)		TGAGGCAAAGCGCTTCACAGA	0.458													30	70					0	0	0.008361	0	0		T	100928305	T	T	100928305	3	4	19	1	0	0	0	0	1	0	0	0	3059	768	27	1	740	1	CDC14A	1	100928305	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	192129	100928305	148322316	145	13658											
SLC30A7	148867	broad.mit.edu	37	chr1	101431476	101431476	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acataatatttttactcaggTatgtcttttttactaacttc	11	20	3	7	0	2	0	1	0	1	0	3	0	2	0	0	1	3	1	0	1	6	11			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:101431476T>C	uc001dtn.2	+	10	1270	c.1083_splice	c.e10+2	p.Q361_splice	SLC30A7_uc001dto.2_Splice_Site_p.Q361_splice	NM_001144884	NP_001138356	Q8NEW0	ZNT7_HUMAN	zinc transporter like 2						zinc ion transport	Golgi apparatus|integral to membrane	cation transmembrane transporter activity|protein binding				0		all_epithelial(167;0.000445)|all_lung(203;0.00645)|Lung NSC(277;0.0119)		Epithelial(280;0.0437)|all cancers(265;0.0498)|COAD - Colon adenocarcinoma(174;0.162)|Colorectal(144;0.19)|Lung(183;0.201)		TTTACTCAGGTATGTCTTTTT	0.254													6	76					0	0	0.001168	0	0		C	101431476	C	C	101431476	5	2	19	1	0	0	0	0	0	0	1	0	14585	1652	57	3	1123	3	SLC30A7	1	101431476	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	503171	101431476	147819145	146	13659											
DPH5	51611	broad.mit.edu	37	chr1	101458257	101458257	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgctgggctgcttggttTacactcatataccgtggagg	7	12	13	9	1	1	0	1	0	0	0	1	1	1	1	1	4	5	5	1	4	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:101458257T>C	uc001dts.2	-	7	717	c.570A>G	c.(568-570)GTA>GTG	p.V190V	DPH5_uc001dtr.2_Silent_p.V190V|DPH5_uc001dtq.2_Intron|DPH5_uc001dtt.2_Silent_p.V190V|DPH5_uc001dtu.2_RNA|DPH5_uc001dtv.2_RNA|DPH5_uc001dtw.2_RNA|DPH5_uc001dtx.2_Intron|DPH5_uc001dty.2_Silent_p.V69V|DPH5_uc001dtz.2_RNA	NM_015958	NP_057042	Q9H2P9	DPH5_HUMAN	diphthine synthase isoform a	190					peptidyl-diphthamide biosynthetic process from peptidyl-histidine		diphthine synthase activity				0		all_epithelial(167;3.1e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0385)|all cancers(265;0.043)|COAD - Colon adenocarcinoma(174;0.151)|Colorectal(144;0.173)|Lung(183;0.198)		CTGCTTGGTTTACACTCATAT	0.408													65	122					0	0	0.01441	0	0		C	101458257	C	C	101458257	2	2	19	1	0	0	0	0	0	0	0	1	4729	1741	61	3		3	DPH5	1	101458257	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	26781	101458257	147792364	147	13660											
STXBP3	6814	broad.mit.edu	37	chr1	109342883	109342885	+	In_Frame_Del	DEL	TTG	-	-																															gattcaaaagaatggccataTtgttcccagtgtccagcagt																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:109342883_109342885delTTG	uc001dvy.2	+	17	1566_1568	c.1491_1493delTTG	c.(1489-1494)TATTGT>TAT	p.C498del	STXBP3_uc001dvz.2_RNA	NM_007269	NP_009200	O00186	STXB3_HUMAN	syntaxin binding protein 3	498					negative regulation of calcium ion-dependent exocytosis|neutrophil degranulation|platelet aggregation|protein transport|vesicle docking involved in exocytosis	cytosol|nucleus|platelet alpha granule|specific granule|tertiary granule	syntaxin-2 binding			ovary(3)|central_nervous_system(1)	4		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0386)|Lung(183;0.104)|COAD - Colon adenocarcinoma(174;0.137)|Epithelial(280;0.231)		AATGGCCATATTGTTCCCAGTGT	0.325													43	88	---	---	---	---						.	-	109342885	-	-	109342883	7	5	19	1	0	1	0	1	0	0	0	0	15379	1500	52	0	1557	0	STXBP3	1	109342883	In_Frame_Del	DEL	TTG	TCGA-BR-4361-01A-01D-1158-08	7884626	109342883	139907738	148	13661											
C1orf194	127003	broad.mit.edu	37	chr1	109649218	109649218	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgatccagtgtctgatgttAgccaggaaagtgatgggtgg	9	12	15	5	0	1	3	0	3	1	0	2	4	2	4	2	3	1	1	2	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:109649218A>G	uc009wev.2	-	4	446	c.378T>C	c.(376-378)GCT>GCC	p.A126A	C1orf194_uc001dwp.3_RNA|C1orf194_uc009wew.2_Silent_p.A114A	NM_001122961	NP_001116433	Q5T5A4	CA194_HUMAN	hypothetical protein LOC127003	126										ovary(1)	1						GTCTGATGTTAGCCAGGAAAG	0.483													34	214					0	0	0.013726	0	0		G	109649218	G	G	109649218	2	3	19	1	0	0	0	0	0	0	0	1	2028	407	15	3		3	C1orf194	1	109649218	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	306335	109649218	139601403	149	13662											
CELSR2	1952	broad.mit.edu	37	chr1	109813589	109813589	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgagggctacgggaacccTgacttctgctggctctccat	6	9	11	15	2	2	1	0	1	2	0	3	3	2	2	3	3	3	3	3	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:109813589T>G	uc001dxa.3	+	25	7585	c.7524T>G	c.(7522-7524)CCT>CCG	p.P2508P		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2508	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		ACGGGAACCCTGACTTCTGCT	0.637													95	295					0	0	0.01441	0	0		G	109813589	G	G	109813589	2	3	19	1	0	0	0	0	0	0	0	1	3225	1567	55	5		5	CELSR2	1	109813589	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	164371	109813589	139437032	150	13663											
AMPD2	271	broad.mit.edu	37	chr1	110172064	110172064	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacccaccctatgcctactAcctgtactacacctttgcca	10	10	3	18	0	0	0	0	0	0	0	0	0	0	0	6	0	7	1	6	0	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:110172064A>G	uc009wfh.1	+	15	2518	c.1976A>G	c.(1975-1977)TAC>TGC	p.Y659C	AMPD2_uc009wfg.1_RNA|AMPD2_uc001dyb.1_Missense_Mutation_p.Y578C|AMPD2_uc001dyc.1_Missense_Mutation_p.Y659C|AMPD2_uc010ovr.1_Missense_Mutation_p.Y584C|AMPD2_uc001dyd.1_Missense_Mutation_p.Y540C|AMPD2_uc001dye.1_5'UTR	NM_004037	NP_004028	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2 (isoform L)	659					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|breast(1)	3		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		TATGCCTACTACCTGTACTAC	0.567													38	365					0	0	0.01441	0	0		G	110172064	G	G	110172064	3	3	19	1	0	0	0	0	1	0	0	0	586	391	14	3	2071	3	AMPD2	1	110172064	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	358475	110172064	139078557	151	13664											
EPS8L3	79574	broad.mit.edu	37	chr1	110301240	110301240	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcggcctttccatagcaggCcccctccatctgtcctggcc	5	9	9	18	1	1	0	0	0	1	0	4	0	4	0	7	3	2	1	7	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:110301240C>A	uc001dyr.1	-	7	652	c.507G>T	c.(505-507)GGG>GGT	p.G169G	EPS8L3_uc001dys.1_Silent_p.G169G|EPS8L3_uc001dyq.1_Silent_p.G170G|EPS8L3_uc009wfm.1_Silent_p.G136G|EPS8L3_uc009wfn.1_Silent_p.G136G|EPS8L3_uc009wfo.1_Silent_p.G116G	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	169						cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		CCATAGCAGGCCCCCTCCATC	0.602													13	50					5.35267e-07	5.54302e-07	0.007413	1	0		A	110301240	A	A	110301240	2	1	19	1	0	0	0	0	0	0	0	1	5205	726	26	5		5	EPS8L3	1	110301240	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	129176	110301240	138949381	152	13665											
AHCYL1	10768	broad.mit.edu	37	chr1	110558120	110558120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtgtttaagaagatccgagGcattgtggaagagagcgtga	12	9	15	5	3	0	4	0	1	0	3	1	7	1	5	1	2	1	2	1	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:110558120G>A	uc001dyx.2	+	7	1116	c.749G>A	c.(748-750)GGC>GAC	p.G250D	AHCYL1_uc010ovw.1_Missense_Mutation_p.G203D|AHCYL1_uc001dyy.2_Missense_Mutation_p.G203D|AHCYL1_uc010ovx.1_Missense_Mutation_p.G203D	NM_006621	NP_006612	O43865	SAHH2_HUMAN	S-adenosylhomocysteine hydrolase-like 1	250					one-carbon metabolic process	endoplasmic reticulum	adenosylhomocysteinase activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0259)|Colorectal(144;0.123)|all cancers(265;0.134)|Epithelial(280;0.141)|LUSC - Lung squamous cell carcinoma(189;0.143)		AAGATCCGAGGCATTGTGGAA	0.478													5	144					0	0	0.000602	0	0		A	110558120	A	A	110558120	3	1	19	1	0	0	0	0	1	0	0	0	410	1203	42	2	775	2	AHCYL1	1	110558120	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	256880	110558120	138692501	153	13666											
SLC16A4	9122	broad.mit.edu	37	chr1	110925584	110925584	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatccccatcacaaacacaTtcacctaaatcaaagcagac	17	7	2	15	0	4	1	4	0	0	1	5	1	5	1	3	0	2	1	3	0	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:110925584T>C	uc001dzo.1	-	3	274	c.92A>G	c.(91-93)AAT>AGT	p.N31S	SLC16A4_uc009wfs.1_Missense_Mutation_p.N31S|SLC16A4_uc001dzp.1_Missense_Mutation_p.N31S|SLC16A4_uc010ovy.1_Intron|SLC16A4_uc001dzq.1_Intron|SLC16A4_uc010ovz.1_Intron	NM_004696	NP_004687	O15374	MOT5_HUMAN	solute carrier family 16, member 4	31	Helical; (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			ovary(3)	3		all_cancers(81;0.000476)|all_epithelial(167;0.000401)|all_lung(203;0.00277)|Lung NSC(277;0.0043)		Lung(183;0.0251)|all cancers(265;0.0766)|Epithelial(280;0.0807)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.14)	Pyruvic acid(DB00119)	CACAAACACATTCACCTAAAT	0.428													30	76					0	0	0.009535	0	0		C	110925584	C	C	110925584	3	2	19	1	0	0	0	0	1	0	0	0	14435	1493	52	3	1399	3	SLC16A4	1	110925584	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	367464	110925584	138325037	154	13667											
PROK1	84432	broad.mit.edu	37	chr1	110996681	110996681	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccgctggggcgggaaggCgaggagtgccaccccggcag	7	2	18	14	4	0	0	0	0	0	0	0	3	0	2	5	6	1	2	5	6	1	0	rs138146720		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:110996681C>T	uc001dzs.2	+	2	222	c.171C>T	c.(169-171)GGC>GGT	p.G57G		NM_032414	NP_115790	P58294	PROK1_HUMAN	prokineticin 1 precursor	57					angiogenesis|positive regulation of cell division	extracellular region	growth factor activity				0		all_cancers(81;6.23e-06)|all_epithelial(167;2.12e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0239)|all cancers(265;0.0699)|Epithelial(280;0.0753)|Colorectal(144;0.105)|LUSC - Lung squamous cell carcinoma(189;0.135)		GGCGGGAAGGCGAGGAGTGCC	0.662													14	22					0	0	0.001855	0	0		T	110996681	T	T	110996681	2	4	19	1	0	0	0	0	0	0	0	1	12572	755	27	1		1	PROK1	1	110996681	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	71097	110996681	138253940	155	13668											
DENND2D	79961	broad.mit.edu	37	chr1	111738536	111738536	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacccattttgctaacccAcctcagtgcctgagtcgggg	7	10	9	15	1	2	1	2	1	0	0	3	1	2	1	4	2	3	1	4	2	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:111738536A>G	uc001eak.1	-	6	845	c.645_splice	c.e6+1	p.E215_splice	DENND2D_uc001eal.1_Splice_Site_p.E212_splice	NM_024901	NP_079177	Q9H6A0	DEN2D_HUMAN	DENN/MADD domain containing 2D											ovary(1)	1		all_cancers(81;0.00198)|all_epithelial(167;0.000686)|all_lung(203;0.00318)|Lung NSC(277;0.00499)		Lung(183;0.0162)|Colorectal(144;0.069)|all cancers(265;0.0757)|LUSC - Lung squamous cell carcinoma(189;0.0845)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.14)		TTGCTAACCCACCTCAGTGCC	0.547													5	203					0	0	0.001984	0	0		G	111738536	G	G	111738536	5	3	19	1	0	0	0	0	0	0	1	0	4437	173	6	3	796	3	DENND2D	1	111738536	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	741855	111738536	137512085	156	13669											
ADORA3	140	broad.mit.edu	37	chr1	112045959	112045959	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattggccaatgacagagcAgtgctgttgttgggcatctt	9	12	12	8	0	1	2	0	1	1	1	1	2	1	2	1	2	2	5	1	2	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:112045959A>G	uc001ebh.3	-	1	785	c.18T>C	c.(16-18)ACT>ACC	p.T6T	ADORA3_uc001ebg.3_Intron|ADORA3_uc001ebf.2_Silent_p.T6T	NM_000677	NP_000668	P33765	AA3R_HUMAN	adenosine A3 receptor isoform 2	6	Extracellular (By similarity).				activation of adenylate cyclase activity|inflammatory response|regulation of heart contraction	integral to plasma membrane	adenosine receptor activity, G-protein coupled			ovary(2)|large_intestine(1)|skin(1)	4		all_cancers(81;1.63e-06)|all_epithelial(167;5.01e-06)|all_lung(203;8.02e-05)|Lung NSC(277;0.000156)		all cancers(265;0.0185)|Colorectal(144;0.0186)|Lung(183;0.0238)|COAD - Colon adenocarcinoma(174;0.0644)|Epithelial(280;0.0872)|LUSC - Lung squamous cell carcinoma(189;0.134)	Adenosine(DB00640)|Aminophylline(DB01223)	ATGACAGAGCAGTGCTGTTGT	0.557													9	17					0	0	0.006214	0	0		G	112045959	G	G	112045959	2	3	19	1	0	0	0	0	0	0	0	1	329	175	7	3		3	ADORA3	1	112045959	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	307423	112045959	137204662	157	13670											
DDX20	11218	broad.mit.edu	37	chr1	112299330	112299330	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgttctccaccatagctttgGactctcttgttcttgaaaac	8	16	6	11	0	3	1	0	1	3	0	5	2	3	2	2	1	2	3	2	1	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:112299330G>C	uc001ebs.2	+	2	721	c.364G>C	c.(364-366)GAC>CAC	p.D122H	C1orf183_uc001ebp.1_5'Flank|uc001ebr.2_5'Flank|DDX20_uc010owf.1_5'UTR	NM_007204	NP_009135	Q9UHI6	DDX20_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 20	122	Helicase ATP-binding.				assembly of spliceosomal tri-snRNP|ncRNA metabolic process	Cajal body|cytoskeleton|cytosol|spliceosomal complex	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding			lung(1)|kidney(1)	2		all_cancers(81;1.06e-05)|all_epithelial(167;7.36e-06)|all_lung(203;2.44e-05)|Lung NSC(69;4.15e-05)		Lung(183;0.0234)|Colorectal(144;0.0282)|all cancers(265;0.0614)|Epithelial(280;0.0999)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CATAGCTTTGGACTCTCTTGT	0.428													20	53					0	0	0.010504	0	0		C	112299330	C	C	112299330	3	2	19	1	0	0	0	0	1	0	0	0	4351	1174	41	5	370	5	DDX20	1	112299330	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	253371	112299330	136951291	158	13671											
KCND3	3752	broad.mit.edu	37	chr1	112329582	112329582	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaccttttgtgccctgcgtTtatcagctctctgattctgg	4	18	8	11	1	3	1	1	1	2	0	4	1	3	1	2	1	4	2	2	1	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:112329582T>C	uc001ebu.1	-	3	1733	c.1253A>G	c.(1252-1254)AAA>AGA	p.K418R	KCND3_uc001ebv.1_Missense_Mutation_p.K418R	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	418	Cytoplasmic (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		TGCCCTGCGTTTATCAGCTCT	0.562													4	101					0	0	0.009096	0	0		C	112329582	C	C	112329582	3	2	19	1	0	0	0	0	1	0	0	0	8036	1841	64	3	738	3	KCND3	1	112329582	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	30252	112329582	136921039	159	13672											
CAPZA1	829	broad.mit.edu	37	chr1	113192040	113192040	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaacatttttcctcctcagAcgttcggctactacttaata	10	15	5	11	2	1	1	1	0	0	1	4	1	3	1	2	1	3	3	2	1	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:113192040A>G	uc001ecj.1	+	3	496	c.104A>G	c.(103-105)GAC>GGC	p.D35G		NM_006135	NP_006126	P52907	CAZA1_HUMAN	F-actin capping protein alpha-1 subunit	35					actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement|innate immune response|protein complex assembly	cytosol|extracellular region|F-actin capping protein complex|WASH complex	actin binding				0	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCCTCCTCAGACGTTCGGCTA	0.343													3	104					0	0	0.009096	0	0		G	113192040	G	G	113192040	3	3	19	1	0	0	0	0	1	0	0	0	2643	289	10	3	114	3	CAPZA1	1	113192040	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	862458	113192040	136058581	160	13673											
SLC16A1	6566	broad.mit.edu	37	chr1	113460498	113460498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccccaagaattagaaagCttcctctccatccaaagata	15	8	5	13	0	1	3	0	0	1	3	4	3	3	3	5	0	2	1	5	0	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:113460498C>T	uc001ecx.2	-	4	1362	c.530G>A	c.(529-531)AGC>AAC	p.S177N	SLC16A1_uc001ecy.2_Missense_Mutation_p.S177N|SLC16A1_uc001ecz.2_Missense_Mutation_p.S177N	NM_003051	NP_003042	P53985	MOT1_HUMAN	solute carrier family 16, member 1	177	Helical; (Potential).				blood coagulation|leukocyte migration|organic anion transport|pyruvate metabolic process	integral to membrane|membrane fraction|plasma membrane	mevalonate transmembrane transporter activity|protein binding|secondary active monocarboxylate transmembrane transporter activity|symporter activity			central_nervous_system(1)	1	Lung SC(450;0.246)	all_cancers(81;7.6e-08)|all_epithelial(167;3.82e-07)|all_lung(203;3.07e-05)|Lung NSC(69;5.51e-05)|Prostate(1639;0.00232)		Epithelial(280;7.31e-13)|all cancers(265;5.1e-10)|Kidney(133;5.29e-07)|KIRC - Kidney renal clear cell carcinoma(1967;8.63e-06)|OV - Ovarian serous cystadenocarcinoma(397;1.48e-05)|BRCA - Breast invasive adenocarcinoma(282;0.003)|LUSC - Lung squamous cell carcinoma(189;0.008)|Lung(183;0.00948)|Colorectal(144;0.0325)|COAD - Colon adenocarcinoma(174;0.0643)	Pyruvic acid(DB00119)	AATTAGAAAGCTTCCTCTCCA	0.542													4	77					0	0	0.000602	0	0		T	113460498	T	T	113460498	3	4	19	1	0	0	0	0	1	0	0	0	14427	797	28	2	980	2	SLC16A1	1	113460498	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	268458	113460498	135790123	161	13674											
LRIG2	9860	broad.mit.edu	37	chr1	113653136	113653136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatatcagtgtattgttactAatcactttggttctaattat	12	19	5	5	0	3	0	2	0	1	0	3	0	3	0	0	1	1	3	0	1	7	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:113653136A>G	uc001edf.1	+	13	1948	c.1750A>G	c.(1750-1752)AAT>GAT	p.N584D	LRIG2_uc009wgn.1_Missense_Mutation_p.N481D	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	584	Ig-like C2-type 1.|Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		TATTGTTACTAATCACTTTGG	0.318													25	60					0	0	0.003954	0	0		G	113653136	G	G	113653136	3	3	19	1	0	0	0	0	1	0	0	0	8963	362	13	3	1800	3	LRIG2	1	113653136	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	192638	113653136	135597485	162	13675											
LRIG2	9860	broad.mit.edu	37	chr1	113657106	113657106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtaacacgaggtgaaactgCggtgttacagtgcatagctg	12	9	13	7	2	0	1	0	1	0	0	0	2	0	1	0	2	6	4	0	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:113657106C>T	uc001edf.1	+	15	2336	c.2138C>T	c.(2137-2139)GCG>GTG	p.A713V	LRIG2_uc009wgn.1_Missense_Mutation_p.A610V	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	713	Ig-like C2-type 3.|Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		GGTGAAACTGCGGTGTTACAG	0.443													31	64					0	0	0.004878	0	0		T	113657106	T	T	113657106	3	4	19	1	0	0	0	0	1	0	0	0	8963	768	27	1	2196	1	LRIG2	1	113657106	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3970	113657106	135593515	163	13676											
OLFML3	56944	broad.mit.edu	37	chr1	114524259	114524259	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgaacgggcagcactcccTtattttccccgcagatatgg	8	10	9	14	2	0	2	0	1	0	1	2	2	2	2	4	2	2	3	4	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:114524259T>C	uc001eer.1	+	3	1198	c.1089T>C	c.(1087-1089)CCT>CCC	p.P363P	OLFML3_uc001ees.1_Silent_p.P343P|OLFML3_uc001eet.1_Silent_p.P219P	NM_020190	NP_064575	Q9NRN5	OLFL3_HUMAN	olfactomedin-like 3 precursor	363	Olfactomedin-like.				multicellular organismal development	extracellular region					0	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CAGCACTCCCTTATTTTCCCC	0.587													6	79					0	0	0.001984	0	0		C	114524259	C	C	114524259	2	2	19	1	0	0	0	0	0	0	0	1	10878	1596	56	3		3	OLFML3	1	114524259	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	867153	114524259	134726362	164	13677											
AMPD1	270	broad.mit.edu	37	chr1	115226954	115226954	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atagtgcccgatacagacctTtgcaaacaatttcaaaatct	15	11	5	10	1	2	1	1	0	1	1	2	2	2	1	2	0	4	1	2	0	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:115226954T>C	uc001efe.1	-	5	497	c.413A>G	c.(412-414)AAA>AGA	p.K138R	AMPD1_uc001eff.1_Missense_Mutation_p.K134R	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	138					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	ATACAGACCTTTGCAAACAAT	0.393													22	52					0	0	0.004656	0	0		C	115226954	C	C	115226954	3	2	19	1	0	0	0	0	1	0	0	0	585	1841	64	3	1878	3	AMPD1	1	115226954	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	702695	115226954	134023667	165	13678											
NBPF9	400818	broad.mit.edu	37	chr1	144828665	144828665	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagcactacagaagtgtgTtttactcatttgaggaacag	12	12	9	8	0	1	2	1	1	0	1	2	3	2	3	1	1	4	2	1	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:144828665T>C	uc009wig.1	+	23	2786	c.2710T>C	c.(2710-2712)TTT>CTT	p.F904L	NBPF9_uc010oxn.1_Missense_Mutation_p.F802L|NBPF9_uc010oxo.1_Missense_Mutation_p.F829L|NBPF9_uc010oxr.1_Missense_Mutation_p.F931L|NBPF9_uc010oxt.1_Missense_Mutation_p.F719L|NBPF9_uc001ekg.1_Missense_Mutation_p.F231L|NBPF9_uc001ekk.1_Missense_Mutation_p.F475L|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Missense_Mutation_p.F231L|NBPF9_uc010oye.1_Intron|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Missense_Mutation_p.F564L|uc001elr.3_5'Flank	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	904	NBPF 7.					cytoplasm					0						CAGAAGTGTGTTTTACTCATT	0.453													96	287					0	0	0.01441	0	0		C	144828665	C	C	144828665	3	2	19	1	0	0	0	0	1	0	0	0	10218	1725	60	3	2786	3	NBPF9	1	144828665	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	29601711	144828665	104421956	166	13679											
ANKRD35	148741	broad.mit.edu	37	chr1	145560171	145560171	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggggctgtggacagcacaggGcatgatgctctgcactatgc	8	8	15	10	0	1	1	0	1	1	0	1	2	1	2	0	4	4	5	0	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:145560171G>T	uc001eob.1	+	8	765	c.657G>T	c.(655-657)GGG>GGT	p.G219G	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Silent_p.G62G	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	219	ANK 6.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					ACAGCACAGGGCATGATGCTC	0.632													5	118					0.000602214	0.000615229	0.000602	1	0		T	145560171	T	T	145560171	2	4	19	1	0	0	0	0	0	0	0	1	664	1190	42	5		5	ANKRD35	1	145560171	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	731506	145560171	103690450	167	13680											
ANKRD35	148741	broad.mit.edu	37	chr1	145562258	145562258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggagctacagtccctgaGccagcggctgcagcgggagt	8	5	17	11	2	0	1	0	1	0	0	1	4	1	3	2	3	6	3	2	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:145562258G>A	uc001eob.1	+	10	2054	c.1946G>A	c.(1945-1947)AGC>AAC	p.S649N	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Missense_Mutation_p.S492N	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	649	Potential.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CAGTCCCTGAGCCAGCGGCTG	0.597													16	28					0	0	0.003271	0	0		A	145562258	A	A	145562258	3	1	19	1	0	0	0	0	1	0	0	0	664	971	34	2	1984	2	ANKRD35	1	145562258	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2087	145562258	103688363	168	13681											
HIST2H2AC	8338	broad.mit.edu	37	chr1	149858676	149858676	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggggccggcgcgcccgtctAcatggcggcggtcctcgagt	3	6	18	14	7	1	0	0	0	1	0	3	1	2	0	3	6	1	0	3	6	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:149858676A>G	uc001etd.2	+	1	152	c.152A>G	c.(151-153)TAC>TGC	p.Y51C	HIST2H2BE_uc001etc.2_5'Flank	NM_003517	NP_003508	Q16777	H2A2C_HUMAN	histone cluster 2, H2ac	51					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			GCGCCCGTCTACATGGCGGCG	0.697													17	25					0	0	0.003954	0	0		G	149858676	G	G	149858676	3	3	19	1	0	0	0	0	1	0	0	0	7194	391	14	3	154	3	HIST2H2AC	1	149858676	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4296418	149858676	99391945	169	13682											
HIST2H2AB	317772	broad.mit.edu	37	chr1	149859112	149859112	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtgactctccgttttctTgggcaacaggacagcctgga	7	12	11	11	1	2	1	0	1	2	0	3	3	2	3	2	3	2	2	2	3	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:149859112T>C	uc001ete.2	-	1	355	c.355A>G	c.(355-357)AAG>GAG	p.K119E	HIST2H2BE_uc001etc.2_5'Flank	NM_175065	NP_778235	Q8IUE6	H2A2B_HUMAN	histone cluster 2, H2ab	119					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|breast(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			TCCGTTTTCTTGGGCAACAGG	0.512													6	133					0	0	0.001168	0	0		C	149859112	C	C	149859112	3	2	19	1	0	0	0	0	1	0	0	0	7193	1821	63	3	41	3	HIST2H2AB	1	149859112	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	436	149859112	99391509	170	13683											
ECM1	1893	broad.mit.edu	37	chr1	150483672	150483672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctagagtgtgccaaacttGtggtaaggttgggttcttga	8	13	14	6	0	1	2	0	1	1	1	1	2	1	2	2	3	2	3	2	3	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:150483672G>A	uc001eus.2	+	6	905	c.706G>A	c.(706-708)GTG>ATG	p.V236M	ECM1_uc010pce.1_Missense_Mutation_p.V165M|ECM1_uc010pcf.1_Missense_Mutation_p.V158M|ECM1_uc001eut.2_Missense_Mutation_p.V236M|ECM1_uc001euu.2_Missense_Mutation_p.V265M|ECM1_uc001euv.2_Missense_Mutation_p.V263M|ECM1_uc009wlu.2_Translation_Start_Site	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	236	2 X approximate repeats.|1.				angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			TGCCAAACTTGTGGTAAGGTT	0.552													4	108					0	0	0.009096	0	0		A	150483672	A	A	150483672	3	1	19	1	0	0	0	0	1	0	0	0	4903	1377	48	4	728	4	ECM1	1	150483672	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	624560	150483672	98766949	171	13684											
CTSS	1520	broad.mit.edu	37	chr1	150724313	150724313	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccttgttatcaatgatgtActggaaagccgttgtcatga	10	13	10	8	1	2	2	2	2	0	0	2	3	2	3	2	1	2	3	2	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:150724313A>G	uc001evn.2	-	5	704	c.571T>C	c.(571-573)TAC>CAC	p.Y191H	CTSS_uc010pcj.1_Missense_Mutation_p.Y141H|CTSS_uc001evo.1_Missense_Mutation_p.Y191H	NM_004079	NP_004070	P25774	CATS_HUMAN	cathepsin S preproprotein	191					immune response|proteolysis	extracellular region|lysosome	cysteine-type endopeptidase activity				0	all_cancers(9;6.17e-52)|all_epithelial(9;9.7e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.00146)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0485)|Epithelial(6;5.02e-21)|all cancers(9;1.28e-20)|OV - Ovarian serous cystadenocarcinoma(6;1.09e-14)|BRCA - Breast invasive adenocarcinoma(12;0.00501)|LUSC - Lung squamous cell carcinoma(543;0.171)			TCAATGATGTACTGGAAAGCC	0.468													40	80					0	0	0.010771	0	0		G	150724313	G	G	150724313	3	3	19	1	0	0	0	0	1	0	0	0	4044	391	14	3	440	3	CTSS	1	150724313	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	240641	150724313	98526308	172	13685											
SETDB1	9869	broad.mit.edu	37	chr1	150915397	150915397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actgtcggggaaccatattgCctatgattaccaccctcctg	9	11	8	13	1	0	1	0	1	0	0	2	2	1	2	5	2	3	0	5	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:150915397C>T	uc001evu.2	+	7	933	c.743C>T	c.(742-744)GCC>GTC	p.A248V	SETDB1_uc009wmf.2_Missense_Mutation_p.A248V|SETDB1_uc001evv.2_Missense_Mutation_p.A248V|SETDB1_uc001evw.3_Missense_Mutation_p.A248V|SETDB1_uc009wmg.1_Missense_Mutation_p.A248V	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	248					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			AACCATATTGCCTATGATTAC	0.448													13	95					0	0	0.001855	0	0		T	150915397	T	T	150915397	3	4	19	1	0	0	0	0	1	0	0	0	14163	739	26	2	765	2	SETDB1	1	150915397	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	191084	150915397	98335224	173	13686											
GABPB2	126626	broad.mit.edu	37	chr1	151062940	151062940	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattattccacagcagaagTactccttcgagcaggtgtta	11	12	8	10	1	1	1	1	0	0	1	4	2	3	1	2	1	3	4	2	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:151062940T>C	uc001ewr.2	+	3	498	c.167T>C	c.(166-168)GTA>GCA	p.V56A	GABPB2_uc010pcp.1_Missense_Mutation_p.V72A|GABPB2_uc001ews.2_Intron|GABPB2_uc001ewt.2_5'Flank	NM_144618	NP_653219	Q8TAK5	GABP2_HUMAN	GA repeat binding protein, beta 2	56	ANK 2.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	protein heterodimerization activity|transcription regulatory region DNA binding				0				all cancers(107;7.17e-05)|GBM - Glioblastoma multiforme(94;0.000662)		ACAGCAGAAGTACTCCTTCGA	0.448													18	95					0	0	0.007413	0	0		C	151062940	C	C	151062940	3	2	19	1	0	0	0	0	1	0	0	0	6173	1638	57	3	173	3	GABPB2	1	151062940	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	147543	151062940	98187681	174	13687											
SELENBP1	8991	broad.mit.edu	37	chr1	151339310	151339310	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagtcatagcccaacggTgcagcacccccaggtctctc	10	6	9	16	1	2	1	1	0	1	1	4	1	2	1	3	2	4	2	3	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:151339310T>C	uc001exx.2	-	6	599	c.552A>G	c.(550-552)GCA>GCG	p.A184A	SELENBP1_uc010pcy.1_Silent_p.A226A|SELENBP1_uc001exy.2_Silent_p.A81A|SELENBP1_uc001exz.2_Silent_p.A81A|SELENBP1_uc010pcz.1_Silent_p.A122A|SELENBP1_uc009wms.2_Intron|SELENBP1_uc009wmt.2_Silent_p.A81A|SELENBP1_uc001eya.2_Silent_p.A120A|SELENBP1_uc009wmu.2_Silent_p.A81A	NM_003944	NP_003935	Q13228	SBP1_HUMAN	selenium binding protein 1	184					protein transport	cytosol|membrane|nucleolus	protein binding|selenium binding				0	Lung SC(34;0.00471)|Ovarian(49;0.00871)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			AGCCCAACGGTGCAGCACCCC	0.582													10	291					0	0	0.006214	0	0		C	151339310	C	C	151339310	2	2	19	1	0	0	0	0	0	0	0	1	14039	1683	59	3		3	SELENBP1	1	151339310	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	276370	151339310	97911311	175	13688											
POGZ	23126	broad.mit.edu	37	chr1	151378275	151378275	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcatggggagtcaggtggTgccgcagcatgaaacgcaca	10	5	17	9	2	1	1	1	1	0	0	1	2	1	2	1	5	3	4	1	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:151378275T>C	uc001eyd.1	-	19	3542	c.3236A>G	c.(3235-3237)CAC>CGC	p.H1079R	POGZ_uc001eye.1_Missense_Mutation_p.H1026R|POGZ_uc010pdb.1_Missense_Mutation_p.H1070R|POGZ_uc001eyf.1_Missense_Mutation_p.H1035R|POGZ_uc010pdc.1_Missense_Mutation_p.H1017R|POGZ_uc009wmv.1_Missense_Mutation_p.H984R|POGZ_uc010pdd.1_Missense_Mutation_p.H570R	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1079	HTH CENPB-type.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			AGTCAGGTGGTGCCGCAGCAT	0.522													52	85					0	0	0.01441	0	0		C	151378275	C	C	151378275	3	2	19	1	0	0	0	0	1	0	0	0	12205	1696	59	3	1000	3	POGZ	1	151378275	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	38965	151378275	97872346	176	13689											
CGN	57530	broad.mit.edu	37	chr1	151491656	151491656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggacagccgcctcccaCgggacacctttgaggaacgg	8	5	13	15	3	0	1	0	1	0	0	1	4	1	4	5	4	2	0	5	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:151491656C>T	uc009wmw.2	+	2	805	c.661C>T	c.(661-663)CGG>TGG	p.R221W		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	215	Interacts with ZO-2.|Head.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			CCGCCTCCCACGGGACACCTT	0.622													48	104					0	0	0.01441	0	0		T	151491656	T	T	151491656	3	4	19	1	0	0	0	0	1	0	0	0	3306	527	19	1	663	1	CGN	1	151491656	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	113381	151491656	97758965	177	13690											
CGN	57530	broad.mit.edu	37	chr1	151502450	151502450	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggccgcagtggagacgacGcttcgggagacccaggagga	9	3	18	11	5	0	2	0	0	0	2	1	7	0	4	2	5	0	2	2	5	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:151502450G>A	uc009wmw.2	+	12	2316	c.2172G>A	c.(2170-2172)ACG>ACA	p.T724T		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	718	Glu-rich.|Potential.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			TGGAGACGACGCTTCGGGAGA	0.642													25	42					0	0	0.005443	0	0		A	151502450	A	A	151502450	2	1	19	1	0	0	0	0	0	0	0	1	3306	1074	38	1		1	CGN	1	151502450	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	10794	151502450	97748171	178	13691											
CGN	57530	broad.mit.edu	37	chr1	151502999	151502999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggaggaggccctgaatgCgtcccaggaagaggagggga	10	4	19	8	1	0	2	0	1	0	1	1	7	1	7	2	7	1	1	2	7	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:151502999C>T	uc009wmw.2	+	13	2492	c.2348C>T	c.(2347-2349)GCG>GTG	p.A783V		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	777	Glu-rich.|Potential.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			GCCCTGAATGCGTCCCAGGAA	0.622													23	59					0	0	0.00632	0	0		T	151502999	T	T	151502999	3	4	19	1	0	0	0	0	1	0	0	0	3306	768	27	1	2394	1	CGN	1	151502999	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	549	151502999	97747622	179	13692											
SNX27	81609	broad.mit.edu	37	chr1	151664929	151664929	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacctcaacatgctaaggActtgtgagggctacaatgaa	14	9	10	8	0	1	2	1	2	0	0	1	3	1	3	1	2	4	3	1	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:151664929A>G	uc001eyn.1	+	9	1274	c.1258A>G	c.(1258-1260)ACT>GCT	p.T420A	SNX27_uc001eyo.2_Missense_Mutation_p.T327A|SNX27_uc001eyp.2_Missense_Mutation_p.T234A	NM_030918	NP_112180	Q96L92	SNX27_HUMAN	sorting nexin family member 27	420					cell communication|protein transport|signal transduction	cytosol|early endosome	phosphatidylinositol binding|protein binding			ovary(2)|central_nervous_system(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			CATGCTAAGGACTTGTGAGGG	0.393													8	50					0	0	0.00308	0	0		G	151664929	G	G	151664929	3	3	19	1	0	0	0	0	1	0	0	0	14922	275	10	3	1292	3	SNX27	1	151664929	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	161930	151664929	97585692	180	13693											
FLG	2312	broad.mit.edu	37	chr1	152286065	152286065	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgacactgattgtgtgtCtgagttttctgaatgtccct	6	16	10	9	0	2	4	0	4	2	0	3	4	3	4	2	0	0	1	2	0	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:152286065C>A	uc001ezu.1	-	3	1333	c.1297G>T	c.(1297-1299)GAC>TAC	p.D433Y	uc001ezv.2_RNA	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	433	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GATTGTGTGTCTGAGTTTTCT	0.602									Ichthyosis				128	274					6.51928e-57	7.02285e-57	0.01441	1	0		A	152286065	A	A	152286065	3	1	19	1	0	0	0	0	1	0	0	0	5936	913	32	5	10892	5	FLG	1	152286065	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	621136	152286065	96964556	181	13694											
JTB	10899	broad.mit.edu	37	chr1	153947257	153947257	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagatcagggccacacacacGacagccccttcgaacttcca	13	5	7	16	2	1	1	1	0	0	1	3	3	2	1	4	1	2	0	4	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:153947257G>A	uc001fds.2	-	5	1062	c.339C>T	c.(337-339)GTC>GTT	p.V113V		NM_006694	NP_006685	O76095	JTB_HUMAN	jumping translocation breakpoint precursor	113	Helical; (Potential).				apoptosis|cell cycle cytokinesis|mitosis|positive regulation of protein kinase activity	integral to plasma membrane|membrane fraction|microtubule organizing center|midbody|mitochondrion|spindle	protein kinase binding				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			CCACACACACGACAGCCCCTT	0.502													38	67					0	0	0.007835	0	0		A	153947257	A	A	153947257	2	1	19	1	0	0	0	0	0	0	0	1	7983	1045	37	1		1	JTB	1	153947257	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1661192	153947257	95303364	182	13695											
JTB	10899	broad.mit.edu	37	chr1	153949675	153949675	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggtgaaagcacagagcaaCcagcagaggtggcggccctg	13	3	15	10	1	0	3	0	1	0	2	0	3	0	3	2	4	4	3	2	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:153949675C>T	uc001fds.2	-	1	777	c.54G>A	c.(52-54)TGG>TGA	p.W18*		NM_006694	NP_006685	O76095	JTB_HUMAN	jumping translocation breakpoint precursor	18					apoptosis|cell cycle cytokinesis|mitosis|positive regulation of protein kinase activity	integral to plasma membrane|membrane fraction|microtubule organizing center|midbody|mitochondrion|spindle	protein kinase binding				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			CACAGAGCAACCAGCAGAGGT	0.637													20	195					0	0	0.00333	0	0		T	153949675	T	T	153949675	4	4	19	1	0	0	0	0	0	1	0	0	7983	508	18	4	406	4	JTB	1	153949675	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2418	153949675	95300946	183	13696											
UBAP2L	9898	broad.mit.edu	37	chr1	154227697	154227697	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccccctctcaatgaaacggTatctgcagcttccttactga	9	11	6	15	1	2	2	1	2	2	0	4	2	3	2	4	1	4	3	4	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:154227697T>C	uc001fep.3	+	17	2146	c.1979T>C	c.(1978-1980)GTA>GCA	p.V660A	UBAP2L_uc009wot.2_Missense_Mutation_p.V660A|UBAP2L_uc010pek.1_Missense_Mutation_p.V652A|UBAP2L_uc010pel.1_Missense_Mutation_p.V670A|UBAP2L_uc010pen.1_Missense_Mutation_p.V574A|UBAP2L_uc001feq.2_5'UTR|UBAP2L_uc001fer.2_5'Flank	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	660					binding of sperm to zona pellucida		protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AATGAAACGGTATCTGCAGCT	0.468													9	123					0	0	0.006214	0	0		C	154227697	C	C	154227697	3	2	19	1	0	0	0	0	1	0	0	0	16864	1638	57	3	2041	3	UBAP2L	1	154227697	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	278022	154227697	95022924	184	13697											
ATP8B2	57198	broad.mit.edu	37	chr1	154315770	154315770	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacatccgcaagcggatgtcGgtcataggtgaggccaggcc	10	6	14	11	3	1	1	1	1	0	0	3	2	2	2	3	5	2	1	3	5	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:154315770G>A	uc001fex.2	+	16	1734	c.1734G>A	c.(1732-1734)TCG>TCA	p.S578S		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	564	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGCGGATGTCGGTCATAGGTG	0.577													6	20					0	0	0.003163	0	0		A	154315770	A	A	154315770	2	1	19	1	0	0	0	0	0	0	0	1	1196	1103	39	1		1	ATP8B2	1	154315770	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	88073	154315770	94934851	185	13698											
ATP8B2	57198	broad.mit.edu	37	chr1	154317917	154317917	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggtgcatgggcgctggTcctacctgcgaatgtgcaag	6	10	15	10	2	0	0	0	0	0	0	1	1	1	0	2	3	5	4	2	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:154317917T>C	uc001fex.2	+	23	2689	c.2689T>C	c.(2689-2691)TCC>CCC	p.S897P		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	883	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TGGGCGCTGGTCCTACCTGCG	0.522											OREG0013835	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	242	476					0	0	0.01441	0	0		C	154317917	C	C	154317917	3	2	19	1	0	0	0	0	1	0	0	0	1196	1667	58	3	2909	3	ATP8B2	1	154317917	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2147	154317917	94932704	186	13699											
SHC1	6464	broad.mit.edu	37	chr1	154938847	154938847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattgggtgcagtgggtcgaGcagcccctggagcggctcct	5	8	16	12	2	0	0	0	0	0	0	2	2	1	1	3	4	4	3	3	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:154938847G>A	uc001ffv.2	-	8	1351	c.1130C>T	c.(1129-1131)GCT>GTT	p.A377V	SHC1_uc001ffu.2_5'Flank|SHC1_uc001ffz.1_Missense_Mutation_p.A148V|SHC1_uc001ffw.2_Missense_Mutation_p.A377V|SHC1_uc001ffx.2_Missense_Mutation_p.A267V|SHC1_uc001ffy.2_Missense_Mutation_p.A267V	NM_183001	NP_892113	P29353	SHC1_HUMAN	SHC-transforming protein 1 isoform 1	377	CH1.				activation of MAPK activity|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|positive regulation of DNA replication|Ras protein signal transduction|regulation of epidermal growth factor receptor activity|regulation of growth	cytosol|mitochondrial matrix|Shc-EGFR complex	epidermal growth factor receptor binding|insulin receptor binding|insulin-like growth factor receptor binding|phospholipid binding|protein binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(1)|skin(1)	2	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			AGTGGGTCGAGCAGCCCCTGG	0.622													4	28					0	0	0.009096	0	0		A	154938847	A	A	154938847	3	1	19	1	0	0	0	0	1	0	0	0	14295	971	34	2	644	2	SHC1	1	154938847	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	620930	154938847	94311774	187	13700											
HCN3	57657	broad.mit.edu	37	chr1	155252316	155252316	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttggatcgtcttcaacgtAttgtctgatactttcttcct	6	18	6	11	2	4	1	1	1	3	0	6	2	5	2	2	1	2	1	2	1	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:155252316A>G	uc001fjz.1	+	2	401	c.393A>G	c.(391-393)GTA>GTG	p.V131V	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_5'UTR	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	131	Helical; Name=Segment S2; (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			TCTTCAACGTATTGTCTGATA	0.567													3	106					0	0	0.004672	0	0		G	155252316	G	G	155252316	2	3	19	1	0	0	0	0	0	0	0	1	7014	436	16	3		3	HCN3	1	155252316	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	313469	155252316	93998305	188	13701											
HCN3	57657	broad.mit.edu	37	chr1	155257627	155257627	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccaagtccaggcagcagTggtggcatcatggagcagca	11	5	15	10	0	1	0	1	0	0	0	2	2	2	1	2	4	4	5	2	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:155257627T>C	uc001fjz.1	+	8	1706	c.1698T>C	c.(1696-1698)AGT>AGC	p.S566S	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_Silent_p.S261S	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	566	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CAGGCAGCAGTGGTGGCATCA	0.567													9	84					0	0	0.00245	0	0		C	155257627	C	C	155257627	2	2	19	1	0	0	0	0	0	0	0	1	7014	1693	59	3		3	HCN3	1	155257627	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	5311	155257627	93992994	189	13702											
ARHGEF2	9181	broad.mit.edu	37	chr1	155920975	155920975	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgccagcctccccatccCgagagttggctcggcacagc	6	6	10	19	2	0	1	0	0	0	1	3	2	2	1	6	2	3	3	6	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:155920975C>T	uc001fmt.2	-	20	2466	c.2348G>A	c.(2347-2349)CGG>CAG	p.R783Q	ARHGEF2_uc001fmq.2_Missense_Mutation_p.R21Q|ARHGEF2_uc001fmr.2_Missense_Mutation_p.R755Q|ARHGEF2_uc001fms.2_Missense_Mutation_p.R782Q|ARHGEF2_uc001fmu.2_Missense_Mutation_p.R827Q	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	783					actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					CTCCCCATCCCGAGAGTTGGC	0.662													8	6					0	0	0.00308	0	0		T	155920975	T	T	155920975	3	4	19	1	0	0	0	0	1	0	0	0	903	652	23	1	624	1	ARHGEF2	1	155920975	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	663348	155920975	93329646	190	13703											
ARHGEF2	9181	broad.mit.edu	37	chr1	155932848	155932848	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggatgtcactgagctcgTccacgcaggggaacaggccc	9	7	13	12	2	1	1	1	1	0	0	3	3	2	3	2	4	2	2	2	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:155932848T>C	uc001fmt.2	-	8	969	c.851A>G	c.(850-852)GAC>GGC	p.D284G	ARHGEF2_uc001fmr.2_Missense_Mutation_p.D256G|ARHGEF2_uc001fms.2_Missense_Mutation_p.D283G|ARHGEF2_uc001fmu.2_Missense_Mutation_p.D328G|ARHGEF2_uc010pgt.1_Missense_Mutation_p.D257G|ARHGEF2_uc010pgu.1_Missense_Mutation_p.D329G	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	284	DH.				actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					ACTGAGCTCGTCCACGCAGGG	0.607													6	69					0	0	0.001984	0	0		C	155932848	C	C	155932848	3	2	19	1	0	0	0	0	1	0	0	0	903	1667	58	3	2169	3	ARHGEF2	1	155932848	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	11873	155932848	93317773	191	13704											
TMEM79	84283	broad.mit.edu	37	chr1	156256064	156256064	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacccagggatcctggtgtaCgggctgagcctgttatgctt	6	11	13	11	1	0	1	0	1	0	0	1	2	1	2	3	3	3	4	3	3	2	3	rs6663955	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:156256064C>T	uc010phi.1	+	3	967	c.771C>T	c.(769-771)TAC>TAT	p.Y257Y	TMEM79_uc001fod.2_Silent_p.Y98Y|TMEM79_uc009wrw.2_Silent_p.Y257Y	NM_032323	NP_115699	Q9BSE2	TMM79_HUMAN	transmembrane protein 79	257	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1	Hepatocellular(266;0.158)					TCCTGGTGTACGGGCTGAGCC	0.612													7	83					0	0	0.001984	0	0		T	156256064	T	T	156256064	2	4	19	1	0	0	0	0	0	0	0	1	16228	547	19	1		1	TMEM79	1	156256064	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	323216	156256064	92994557	192	13705											
RHBG	57127	broad.mit.edu	37	chr1	156352561	156352561	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagagtgtgtttccactcAtagccgagggccagcgcagt	8	9	14	10	2	1	1	1	0	0	1	2	3	2	1	3	2	2	2	3	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:156352561A>G	uc010pho.1	+	8	1173	c.1135A>G	c.(1135-1137)ATA>GTA	p.I379V	RHBG_uc010phm.1_3'UTR|RHBG_uc010phn.1_RNA|RHBG_uc001fos.2_Missense_Mutation_p.I310V|RHBG_uc009wrz.2_Missense_Mutation_p.I347V|RHBG_uc001for.2_Missense_Mutation_p.I349V	NM_020407	NP_065140	Q9H310	RHBG_HUMAN	Rhesus blood group, B glycoprotein	379	Extracellular (Potential).				transepithelial ammonium transport	anchored to plasma membrane|basolateral plasma membrane|cytoplasmic vesicle membrane|integral to plasma membrane|spectrin-associated cytoskeleton	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			ovary(2)	2	Hepatocellular(266;0.158)					GTTTCCACTCATAGCCGAGGG	0.632											OREG0013870	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	192					0	0	0.013726	0	0		G	156352561	G	G	156352561	3	3	19	1	0	0	0	0	1	0	0	0	13349	217	8	3	1165	3	RHBG	1	156352561	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	96497	156352561	92898060	193	13706											
BCAN	63827	broad.mit.edu	37	chr1	156621381	156621381	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaggaagccacagagagTgaatcccgtggggccatcta	11	6	12	12	1	2	2	1	1	1	1	3	4	3	3	4	3	1	0	4	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:156621381T>C	uc001fpp.2	+	7	1533	c.1197T>C	c.(1195-1197)AGT>AGC	p.S399S	BCAN_uc001fpo.2_Silent_p.S399S	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	399	Glu-rich.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCACAGAGAGTGAATCCCGTG	0.517													39	63					0	0	0.013114	0	0		C	156621381	C	C	156621381	2	2	19	1	0	0	0	0	0	0	0	1	1346	1693	59	3		3	BCAN	1	156621381	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	268820	156621381	92629240	194	13707											
ARHGEF11	9826	broad.mit.edu	37	chr1	156917590	156917590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttgccggtcaatctccCgctgggttagcccagccacc	5	9	9	18	2	3	0	1	0	2	0	4	0	3	0	6	2	3	2	6	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:156917590C>T	uc001fqo.2	-	24	3232	c.2192G>A	c.(2191-2193)CGG>CAG	p.R731Q	ARHGEF11_uc010phu.1_Missense_Mutation_p.R147Q|ARHGEF11_uc001fqn.2_Missense_Mutation_p.R771Q	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	731					actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GTCAATCTCCCGCTGGGTTAG	0.577													11	21					0	0	0.013537	0	0		T	156917590	T	T	156917590	3	4	19	1	0	0	0	0	1	0	0	0	896	652	23	1	2444	1	ARHGEF11	1	156917590	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	296209	156917590	92333031	195	13708											
FCRL2	79368	broad.mit.edu	37	chr1	157738348	157738348	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggttttctttcccatacTggttcctgtggcctctctgt	2	18	9	12	0	2	0	0	0	2	0	5	0	4	0	3	3	1	2	3	3	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:157738348T>C	uc001fre.2	-	5	798	c.739A>G	c.(739-741)AGT>GGT	p.S247G	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Missense_Mutation_p.S247G|FCRL2_uc009wsp.2_Intron	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	247	Ig-like C2-type 3.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TTTCCCATACTGGTTCCTGTG	0.522													69	183					0	0	0.01441	0	0		C	157738348	C	C	157738348	3	2	19	1	0	0	0	0	1	0	0	0	5809	1580	55	3	819	3	FCRL2	1	157738348	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	820758	157738348	91512273	196	13709											
OR6Y1	391112	broad.mit.edu	37	chr1	158517519	158517519	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaaatggctacatagcggTcaaaggccatgatagcaaga	16	7	10	8	1	1	2	1	1	0	1	1	2	1	2	1	3	4	2	1	3	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:158517519T>C	uc010pil.1	-	1	377	c.377A>G	c.(376-378)GAC>GGC	p.D126G		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TACATAGCGGTCAAAGGCCAT	0.468													16	54					0	0	0.003163	0	0		C	158517519	C	C	158517519	3	2	19	1	0	0	0	0	1	0	0	0	11232	1667	58	3	602	3	OR6Y1	1	158517519	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	779171	158517519	90733102	197	13710											
IGSF9	57549	broad.mit.edu	37	chr1	159902365	159902365	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agactgttgtagggggtgcaGgagtattctcccagggcatc	8	10	15	8	0	1	1	0	0	1	1	3	2	1	2	1	4	1	5	1	4	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:159902365G>T	uc001fur.2	-	10	1380	c.1182C>A	c.(1180-1182)TCC>TCA	p.S394S	IGSF9_uc001fuq.2_Silent_p.S378S|IGSF9_uc001fup.2_5'Flank	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	394	Ig-like 4.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			AGGGGGTGCAGGAGTATTCTC	0.632													38	65					3.66854e-30	3.93676e-30	0.007835	1	0		T	159902365	T	T	159902365	2	4	19	1	0	0	0	0	0	0	0	1	7621	987	35	5		5	IGSF9	1	159902365	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1384846	159902365	89348256	198	13711											
PIGM	93183	broad.mit.edu	37	chr1	160000350	160000350	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgataagaagaaagaacaAaccagctaaccaaataaaca	24	5	5	7	0	0	4	0	1	0	3	0	4	0	4	2	0	5	1	2	0	9	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:160000350A>G	uc001fuv.1	-	1	1434	c.1180T>C	c.(1180-1182)TTG>CTG	p.L394L		NM_145167	NP_660150	Q9H3S5	PIGM_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	394	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AGAAAGAACAAACCAGCTAAC	0.383													9	155					0	0	0.004482	0	0		G	160000350	G	G	160000350	2	3	19	1	0	0	0	0	0	0	0	1	11911	11	1	3		3	PIGM	1	160000350	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	97985	160000350	89250271	199	13712											
ATP1A2	477	broad.mit.edu	37	chr1	160099084	160099084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctggtgatgcctctgagtCagctctgctcaagtgcattg	7	12	12	10	0	4	2	2	2	2	0	4	2	4	2	1	1	5	4	1	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:160099084C>T	uc001fvc.2	+	11	1487	c.1355C>T	c.(1354-1356)TCA>TTA	p.S452L	ATP1A2_uc001fvb.2_Missense_Mutation_p.S452L|ATP1A2_uc001fvd.2_Missense_Mutation_p.S188L|ATP1A2_uc009wtg.1_Missense_Mutation_p.S140L	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	452	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GCCTCTGAGTCAGCTCTGCTC	0.532													29	261					0	0	0.009535	0	0		T	160099084	T	T	160099084	3	4	19	1	0	0	0	0	1	0	0	0	1130	838	29	4	1397	4	ATP1A2	1	160099084	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	98734	160099084	89151537	200	13713											
ATP1A2	477	broad.mit.edu	37	chr1	160099153	160099153	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagacagaaaccccaaggTggcagagattcctttcaact	14	7	10	10	0	1	3	1	0	0	3	2	6	2	3	3	2	2	1	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:160099153T>C	uc001fvc.2	+	11	1556	c.1424T>C	c.(1423-1425)GTG>GCG	p.V475A	ATP1A2_uc001fvb.2_Missense_Mutation_p.V475A|ATP1A2_uc001fvd.2_Missense_Mutation_p.V211A|ATP1A2_uc009wtg.1_Missense_Mutation_p.V163A	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	475	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			AACCCCAAGGTGGCAGAGATT	0.522													9	252					0	0	0.008291	0	0		C	160099153	C	C	160099153	3	2	19	1	0	0	0	0	1	0	0	0	1130	1696	59	3	1466	3	ATP1A2	1	160099153	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	69	160099153	89151468	201	13714											
USF1	7391	broad.mit.edu	37	chr1	161011634	161011634	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaagcaccctggatcacCgcctgggaaggggagcaaga	12	4	15	10	1	1	2	1	1	0	1	1	5	1	5	3	4	2	2	3	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:161011634C>T	uc001fxi.2	-	6	474	c.279G>A	c.(277-279)GCG>GCA	p.A93A	F11R_uc010pjw.1_5'Flank|F11R_uc001fxf.3_5'Flank|TSTD1_uc010pjx.1_5'Flank|TSTD1_uc009wtw.2_5'Flank|TSTD1_uc001fxh.3_5'Flank|USF1_uc001fxj.2_Silent_p.A34A	NM_007122	NP_009053	P22415	USF1_HUMAN	upstream stimulatory factor 1 isoform 1	93					cellular response to insulin stimulus|glucose homeostasis|late viral mRNA transcription|lipid homeostasis|positive regulation of transcription from RNA polymerase II promoter by glucose|response to hypoxia|response to UV	transcription factor complex	bHLH transcription factor binding|histone deacetylase binding|protein heterodimerization activity|protein homodimerization activity|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(52;6.73e-18)|Breast(13;0.012)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			CCTGGATCACCGCCTGGGAAG	0.537													27	64					0	0	0.005443	0	0		T	161011634	T	T	161011634	2	4	19	1	0	0	0	0	0	0	0	1	17058	639	23	1		1	USF1	1	161011634	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	912481	161011634	88238987	202	13715											
DEDD	9191	broad.mit.edu	37	chr1	161092087	161092087	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagacacctttaagtgcctcTaataaagagccattgatgta	15	11	7	8	0	1	3	0	1	1	2	1	3	1	3	3	0	2	1	3	0	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:161092087T>C	uc001fxz.2	-	6	980	c.807A>G	c.(805-807)TTA>TTG	p.L269L	NIT1_uc001fxw.2_Intron|DEDD_uc009wty.2_Silent_p.L299L|DEDD_uc001fya.2_Silent_p.L269L|DEDD_uc001fyb.2_Silent_p.L269L|DEDD_uc010pkb.1_Silent_p.L226L|DEDD_uc001fyc.2_Silent_p.L109L	NM_001039712	NP_001034801	O75618	DEDD_HUMAN	death effector domain-containing protein	269					apoptosis|induction of apoptosis via death domain receptors|negative regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding				0	all_cancers(52;3.39e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			TAAGTGCCTCTAATAAAGAGC	0.502													27	50					0	0	0.003954	0	0		C	161092087	C	C	161092087	2	2	19	1	0	0	0	0	0	0	0	1	4387	1519	53	3		3	DEDD	1	161092087	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	80453	161092087	88158534	203	13716											
NR1I3	9970	broad.mit.edu	37	chr1	161203070	161203070	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgcacaggtgtttgctgTgcccgccgctgggcctgctt	3	12	14	12	2	0	0	0	0	0	0	0	0	0	0	3	2	4	6	3	2	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:161203070T>G	uc001fzx.2	-	4	500	c.297A>C	c.(295-297)GCA>GCC	p.A99A	TOMM40L_uc009wuf.1_Intron|NR1I3_uc001fzf.2_Silent_p.A99A|NR1I3_uc001fzg.2_Silent_p.A70A|NR1I3_uc001fzh.2_Silent_p.A70A|NR1I3_uc001fzi.2_Silent_p.A70A|NR1I3_uc001fzj.2_Silent_p.A70A|NR1I3_uc001fzk.2_Silent_p.A70A|NR1I3_uc001fzl.2_Silent_p.A70A|NR1I3_uc001fzm.2_Silent_p.A24A|NR1I3_uc001fzn.2_Intron|NR1I3_uc009wug.2_5'UTR|NR1I3_uc001fzp.2_Silent_p.A99A|NR1I3_uc001fzo.2_Intron|NR1I3_uc001fzq.2_Intron|NR1I3_uc001fzr.2_Intron|NR1I3_uc001fzs.2_Intron|NR1I3_uc001fzt.2_Intron|NR1I3_uc001fzu.2_Intron|NR1I3_uc001fzv.2_Intron|NR1I3_uc001fzw.2_Silent_p.A99A|NR1I3_uc001fzy.2_Silent_p.A99A|NR1I3_uc001fzz.2_Silent_p.A99A|NR1I3_uc001gaa.2_Silent_p.A99A|NR1I3_uc001gab.2_Silent_p.A99A|NR1I3_uc001gac.2_Silent_p.A70A|NR1I3_uc010pkm.1_Silent_p.A70A|NR1I3_uc010pkn.1_Silent_p.A99A	NM_001077480	NP_001070948	Q14994	NR1I3_HUMAN	constitutive androstane receptor isoform 2	99					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	androgen receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(1)|skin(1)	2	all_cancers(52;1.86e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			GTGTTTGCTGTGCCCGCCGCT	0.582													47	97					0	0	0.01441	0	0		G	161203070	G	G	161203070	2	3	19	1	0	0	0	0	0	0	0	1	10640	1683	59	5		5	NR1I3	1	161203070	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	110983	161203070	88047551	204	13717											
FCGR2A	2212	broad.mit.edu	37	chr1	161487831	161487831	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccaacaatgactatgaaAcagctgacggcggctacatg	16	6	9	10	2	0	3	0	3	0	0	0	3	0	3	1	2	5	2	1	2	6	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:161487831A>G	uc001gan.2	+	7	900	c.847A>G	c.(847-849)ACA>GCA	p.T283A	FCGR2A_uc001gam.2_Missense_Mutation_p.T282A|FCGR2A_uc001gao.2_RNA	NM_001136219	NP_001129691	P12318	FCG2A_HUMAN	Fc fragment of IgG, low affinity IIa, receptor	283	Cytoplasmic (Potential).					integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TGACTATGAAACAGCTGACGG	0.284													22	36					0	0	0.004878	0	0		G	161487831	G	G	161487831	3	3	19	1	0	0	0	0	1	0	0	0	5795	43	2	3	873	3	FCGR2A	1	161487831	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	284761	161487831	87762790	205	13718											
HSPA6	3310	broad.mit.edu	37	chr1	161495044	161495044	+	Frame_Shift_Del	DEL	T	-	-																															gggagagcgcaacgtgctcaTttttgacctgggtgggggca																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:161495044delT	uc001gap.2	+	2	1256	c.596delT	c.(595-597)ATTfs	p.I199fs	HSPA6_uc001gaq.2_Frame_Shift_Del_p.I199fs	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	199					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			AACGTGCTCATTTTTGACCTG	0.612													25	45	---	---	---	---						.	-	161495044	-	-	161495044	7	5	19	1	0	1	0	1	0	0	0	0	7431	1493	52	0	598	0	HSPA6	1	161495044	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	7213	161495044	87755577	206	13719											
UHMK1	127933	broad.mit.edu	37	chr1	162467856	162467856	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaggccttcgggcggctGtggcaggtacagagccgtct	5	8	17	11	3	1	1	0	0	1	1	2	2	1	2	2	6	2	3	2	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:162467856G>A	uc001gcc.1	+	1	202	c.66G>A	c.(64-66)CTG>CTA	p.L22L	UHMK1_uc001gcb.1_Intron|UHMK1_uc009wuu.1_Silent_p.L22L	NM_175866	NP_787062	Q8TAS1	UHMK1_HUMAN	kinase interacting stathmin	22					cell cycle arrest|neuron projection development|peptidyl-serine phosphorylation|positive regulation of translational initiation|protein autophosphorylation|regulation of protein export from nucleus	axon|dendrite cytoplasm|neuronal RNA granule|nucleus	protein binding|protein serine/threonine kinase activity|ribonucleoprotein binding|RNA binding				0	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			TCGGGCGGCTGTGGCAGGTAC	0.711													6	20					0	0	0.004007	0	0		A	162467856	A	A	162467856	2	1	19	1	0	0	0	0	0	0	0	1	16992	1364	48	4		4	UHMK1	1	162467856	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	972812	162467856	86782765	207	13720											
DDR2	4921	broad.mit.edu	37	chr1	162731167	162731167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacggtgcctctccaccaccGaatggccagtgccatcaagt	9	7	9	16	2	2	0	1	0	1	0	3	1	2	0	6	2	2	0	6	2	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:162731167G>A	uc001gcf.2	+	10	1487	c.1022G>A	c.(1021-1023)CGA>CAA	p.R341Q	DDR2_uc001gcg.2_Missense_Mutation_p.R341Q	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	341	Extracellular (Potential).				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			CTCCACCACCGAATGGCCAGT	0.522													16	46					0	0	0.004007	0	0		A	162731167	A	A	162731167	3	1	19	1	0	0	0	0	1	0	0	0	4340	1058	37	1	1048	1	DDR2	1	162731167	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	263311	162731167	86519454	208	13721											
RXRG	6258	broad.mit.edu	37	chr1	165398092	165398092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccactgcactcagagtcCgtggggcactcactggggta	7	8	12	14	1	2	1	2	0	0	1	4	1	4	1	3	4	1	3	3	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:165398092C>T	uc001gda.2	-	2	461	c.161G>A	c.(160-162)CGG>CAG	p.R54Q		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	54	Modulating (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	ACTCAGAGTCCGTGGGGCACT	0.612													19	45					0	0	0.006122	0	0		T	165398092	T	T	165398092	3	4	19	1	0	0	0	0	1	0	0	0	13790	652	23	1	1266	1	RXRG	1	165398092	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2666925	165398092	83852529	209	13722											
ADCY10	55811	broad.mit.edu	37	chr1	167825464	167825464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagatcttgttggagatgtCgttaggctgtactgcaccaa	10	12	11	8	1	1	2	0	0	1	2	2	3	1	2	1	2	2	5	1	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:167825464C>T	uc001ger.2	-	17	2408	c.2110G>A	c.(2110-2112)GAC>AAC	p.D704N	ADCY10_uc009wvk.2_Missense_Mutation_p.D612N|ADCY10_uc010plj.1_Missense_Mutation_p.D551N|ADCY10_uc009wvl.2_Missense_Mutation_p.D703N	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	704					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						TTGGAGATGTCGTTAGGCTGT	0.478													21	192					0	0	0.012319	0	0		T	167825464	T	T	167825464	3	4	19	1	0	0	0	0	1	0	0	0	293	884	31	1	2790	1	ADCY10	1	167825464	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2427372	167825464	81425157	210	13723											
F5	2153	broad.mit.edu	37	chr1	169510030	169510030	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagagagtcacctggctgAggtctggggaaagggacatc	11	6	17	7	0	2	3	1	1	1	2	3	7	2	5	1	5	0	1	1	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:169510030A>G	uc001ggg.1	-	13	4443	c.4298T>C	c.(4297-4299)CTC>CCC	p.L1433P		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1433	2-28.|35 X 9 AA approximate tandem repeats of [TNP]-L-S-P-D-L-S-Q-T.|B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	CACCTGGCTGAGGTCTGGGGA	0.522													26	79					0	0	0.00333	0	0		G	169510030	G	G	169510030	3	3	19	1	0	0	0	0	1	0	0	0	5356	304	11	3	2428	3	F5	1	169510030	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1684566	169510030	79740591	211	13724											
C1orf129	80133	broad.mit.edu	37	chr1	170940930	170940930	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgggtctcctggcagcagaGctgtctcttttgtgttccca	4	15	11	11	0	2	1	0	0	2	1	5	1	3	1	2	2	2	4	2	2	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:170940930G>A	uc001ghg.2	+	8	652	c.522G>A	c.(520-522)GAG>GAA	p.E174E	C1orf129_uc009wvy.2_5'UTR|C1orf129_uc010plz.1_Silent_p.E174E	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	174							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TGGCAGCAGAGCTGTCTCTTT	0.433													107	302					0	0	0.01441	0	0		A	170940930	A	A	170940930	2	1	19	1	0	0	0	0	0	0	0	1	1999	962	34	2		2	C1orf129	1	170940930	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1430900	170940930	78309691	212	13725											
BAT2L2	23215	broad.mit.edu	37	chr1	171505354	171505354	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggtggctcatgatgcagTcctacatggatcctcgaatg	10	10	11	10	1	1	1	1	1	0	0	4	3	3	2	2	3	2	2	2	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:171505354T>C	uc010pmg.1	+	14	2490	c.2224T>C	c.(2224-2226)TCC>CCC	p.S742P		NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	742	Pro-rich.						protein C-terminus binding				0						CATGATGCAGTCCTACATGGA	0.458													8	17					0	0	0.004482	0	0		C	171505354	C	C	171505354	3	2	19	1	0	0	0	0	1	0	0	0	1322	1667	58	3	2274	3	BAT2L2	1	171505354	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	564424	171505354	77745267	213	13726											
C1orf9	51430	broad.mit.edu	37	chr1	172538216	172538216	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagtagcaagtcccaaaGatccagaagatataccaaca	18	6	6	11	0	1	3	1	0	0	3	3	3	3	3	3	0	3	2	3	0	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:172538216G>T	uc001giq.3	+	7	1106	c.790G>T	c.(790-792)GAT>TAT	p.D264Y	C1orf9_uc010pmm.1_Missense_Mutation_p.D264Y|C1orf9_uc009wwd.2_Missense_Mutation_p.D227Y|C1orf9_uc010pmn.1_Missense_Mutation_p.D227Y|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	264					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		AAGTCCCAAAGATCCAGAAGA	0.318													8	115					5.18039e-06	5.33728e-06	0.00308	1	0		T	172538216	T	T	172538216	3	4	19	1	0	0	0	0	1	0	0	0	2070	942	33	5	816	5	C1orf9	1	172538216	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1032862	172538216	76712405	214	13727											
SLC9A11	284525	broad.mit.edu	37	chr1	173493985	173493985	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggaaggtgagattttttAgagctttagcaatcacattc	14	13	9	5	0	1	2	1	1	0	2	2	4	1	3	0	2	2	2	0	2	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:173493985A>G	uc001giz.2	-	20	2870	c.2447T>C	c.(2446-2448)CTA>CCA	p.L816P	SLC9A11_uc009wwe.2_Missense_Mutation_p.L374P|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	816					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						GAGATTTTTTAGAGCTTTAGC	0.378													9	163					0	0	0.008291	0	0		G	173493985	G	G	173493985	3	3	19	1	0	0	0	0	1	0	0	0	14736	420	15	3	963	3	SLC9A11	1	173493985	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	955769	173493985	75756636	215	13728											
KLHL20	27252	broad.mit.edu	37	chr1	173751271	173751271	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggttttgtaggttggcctgGcagtggtcaatggacagctc	6	13	15	7	0	1	0	1	0	0	0	2	1	1	1	1	6	1	5	1	6	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:173751271G>T	uc001gjc.2	+	11	1827	c.1648G>T	c.(1648-1650)GCA>TCA	p.A550S	KLHL20_uc010pmr.1_Missense_Mutation_p.A361S|KLHL20_uc009wwf.2_Missense_Mutation_p.A532S	NM_014458	NP_055273	Q9Y2M5	KLH20_HUMAN	kelch-like 20	550	Kelch 5.				cytoskeleton organization|negative regulation of apoptosis|proteasomal ubiquitin-dependent protein catabolic process|response to interferon-alpha	actin cytoskeleton|cell surface|Cul3-RING ubiquitin ligase complex|Golgi apparatus|perinuclear region of cytoplasm|PML body	actin binding|interferon-gamma binding|ubiquitin-protein ligase activity			ovary(1)	1						GGTTGGCCTGGCAGTGGTCAA	0.393													27	171					3.86903e-22	4.11671e-22	0.013726	1	0		T	173751271	T	T	173751271	3	4	19	1	0	0	0	0	1	0	0	0	8391	1203	42	5	1686	5	KLHL20	1	173751271	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	257286	173751271	75499350	216	13729											
TNR	7143	broad.mit.edu	37	chr1	175299243	175299243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagcttcctatgcggagttTgtacaggtttctgctgtcct	5	16	11	9	1	1	0	0	0	1	0	3	1	3	1	2	2	4	6	2	2	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:175299243T>C	uc001gkp.1	-	19	3841	c.3760A>G	c.(3760-3762)AAA>GAA	p.K1254E	TNR_uc009wwu.1_Missense_Mutation_p.K1254E	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1254	Fibrinogen C-terminal.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ATGCGGAGTTTGTACAGGTTT	0.607													10	77					0	0	0.006214	0	0		C	175299243	C	C	175299243	3	2	19	1	0	0	0	0	1	0	0	0	16363	1821	63	3	328	3	TNR	1	175299243	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1547972	175299243	73951378	217	13730											
TNR	7143	broad.mit.edu	37	chr1	175365680	175365680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacggggaaatggtacgtacGggtggccaccttggcagtga	9	7	17	8	3	0	1	0	1	0	0	0	3	0	2	2	6	2	3	2	6	3	3	rs78460048	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:175365680G>A	uc001gkp.1	-	3	1321	c.1240C>T	c.(1240-1242)CAT>TAT	p.H414Y	TNR_uc009wwu.1_Missense_Mutation_p.H414Y|TNR_uc010pmz.1_3'UTR	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	414	Fibronectin type-III 2.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TGGTACGTACGGGTGGCCACC	0.502													13	56					0	0	0.00499	0	0		A	175365680	A	A	175365680	3	1	19	1	0	0	0	0	1	0	0	0	16363	1130	39	1	2912	1	TNR	1	175365680	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	66437	175365680	73884941	218	13731											
ABL2	27	broad.mit.edu	37	chr1	179090927	179090927	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtgtaatgttgtcaccaGcccatcagccactgtggagt	9	11	11	10	0	2	0	2	0	0	0	2	1	2	1	3	1	2	3	3	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:179090927G>A	uc001gmj.3	-	5	1050	c.763C>T	c.(763-765)CTG>TTG	p.L255L	ABL2_uc010pnf.1_Silent_p.L255L|ABL2_uc010png.1_Silent_p.L234L|ABL2_uc010pnh.1_Silent_p.L234L|ABL2_uc009wxe.2_Silent_p.L234L|ABL2_uc001gmg.3_Silent_p.L240L|ABL2_uc001gmi.3_Silent_p.L240L|ABL2_uc001gmh.3_Silent_p.L219L|ABL2_uc010pne.1_Silent_p.L219L|ABL2_uc009wxf.1_Silent_p.L240L|ABL2_uc001gmk.2_Silent_p.L219L	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	255	SH2.				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	GTTGTCACCAGCCCATCAGCC	0.493			T	ETV6	AML								18	24					0	0	0.007413	0	0		A	179090927	A	A	179090927	2	1	19	1	0	0	0	0	0	0	0	1	93	962	34	2		2	ABL2	1	179090927	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3725247	179090927	70159694	219	13732											
CEP350	9857	broad.mit.edu	37	chr1	180049727	180049727	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ataggactggaggacaatgtCacctgcctatcaagtcccat	12	9	9	11	0	2	0	2	0	0	0	3	3	3	3	3	3	1	0	3	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:180049727C>G	uc001gnt.2	+	30	6438	c.6055C>G	c.(6055-6057)CAC>GAC	p.H2019D	CEP350_uc009wxl.2_Missense_Mutation_p.H2018D|CEP350_uc001gnv.2_Missense_Mutation_p.H154D	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	2019						centrosome|nucleus|spindle				ovary(4)	4						AGGACAATGTCACCTGCCTAT	0.418											OREG0004796	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	8	85					0	0	0.00308	0	0		G	180049727	G	G	180049727	3	3	19	1	0	0	0	0	1	0	0	0	3257	826	29	5	6169	5	CEP350	1	180049727	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	958800	180049727	69200894	220	13733											
CACNA1E	777	broad.mit.edu	37	chr1	181620510	181620510	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagccacctggaattggctgTacttcatccccctcatcatc	8	11	7	15	0	3	0	3	0	0	0	5	2	4	1	4	2	2	2	4	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:181620510T>C	uc001gow.2	+	7	1153	c.988T>C	c.(988-990)TAC>CAC	p.Y330H	CACNA1E_uc009wxr.2_Missense_Mutation_p.Y237H|CACNA1E_uc009wxs.2_Missense_Mutation_p.Y237H	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	330	I.|Helical; Name=S6 of repeat I.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GAATTGGCTGTACTTCATCCC	0.423													16	135					0	0	0.006122	0	0		C	181620510	C	C	181620510	3	2	19	1	0	0	0	0	1	0	0	0	2545	1638	57	3	1014	3	CACNA1E	1	181620510	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1570783	181620510	67630111	221	13734											
FAM129A	116496	broad.mit.edu	37	chr1	184868364	184868364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgctgttctacttcagtgCgcacgtgattgcagaaagcc	8	13	10	10	2	2	2	1	1	1	1	2	2	2	2	1	0	5	4	1	0	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:184868364C>T	uc001gra.2	-	2	328	c.134G>A	c.(133-135)CGC>CAC	p.R45H	FAM129A_uc009wyh.1_Missense_Mutation_p.R45H|FAM129A_uc009wyi.1_5'UTR	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	45					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						TACTTCAGTGCGCACGTGATT	0.408													42	107					0	0	0.007835	0	0		T	184868364	T	T	184868364	3	4	19	1	0	0	0	0	1	0	0	0	5447	768	27	1	2704	1	FAM129A	1	184868364	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3247854	184868364	64382257	222	13735											
C1orf25	81627	broad.mit.edu	37	chr1	185113148	185113148	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaaaatttccttaggtggTttagcagtggaagctaagat	12	14	10	5	0	1	1	1	0	0	1	2	2	2	2	1	3	2	3	1	3	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:185113148T>C	uc001grf.3	-	6	941	c.669A>G	c.(667-669)AAA>AAG	p.K223K	C1orf25_uc010pon.1_Silent_p.K67K	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	223						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						CCTTAGGTGGTTTAGCAGTGG	0.328													3	45					0	0	0.004672	0	0		C	185113148	C	C	185113148	2	2	19	1	0	0	0	0	0	0	0	1	2037	1722	60	3		3	C1orf25	1	185113148	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	244784	185113148	64137473	223	13736											
HMCN1	83872	broad.mit.edu	37	chr1	185897791	185897791	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggcacagacattttttgAcgtatcaggtaattaccact	12	12	8	9	2	1	2	1	1	0	1	1	2	1	2	1	2	1	3	1	2	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:185897791A>T	uc001grq.1	+	10	1773	c.1544A>T	c.(1543-1545)GAC>GTC	p.D515V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	515	Ig-like C2-type 1.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						ACATTTTTTGACGTATCAGGT	0.393													10	175					0	0	0.008291	0	0		T	185897791	T	T	185897791	3	4	19	1	0	0	0	0	1	0	0	0	7236	275	10	5	1582	5	HMCN1	1	185897791	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	784643	185897791	63352830	224	13737											
HMCN1	83872	broad.mit.edu	37	chr1	185984507	185984507	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtctctgattcagcaacatAtacgtgtcatgtagccaatg	11	12	9	9	1	3	1	2	1	1	0	4	1	3	1	1	1	4	2	1	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:185984507A>G	uc001grq.1	+	31	5076	c.4847A>G	c.(4846-4848)TAT>TGT	p.Y1616C		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1616	Ig-like C2-type 13.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TCAGCAACATATACGTGTCAT	0.398													8	64					0	0	0.00308	0	0		G	185984507	G	G	185984507	3	3	19	1	0	0	0	0	1	0	0	0	7236	449	16	3	4969	3	HMCN1	1	185984507	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	86716	185984507	63266114	225	13738											
HMCN1	83872	broad.mit.edu	37	chr1	186094843	186094843	+	Frame_Shift_Del	DEL	A	-	-																															ccacaccagcaattaactggAaaaaagacaatgttctttta																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:186094843delA	uc001grq.1	+	82	12836	c.12607delA	c.(12607-12609)AAAfs	p.K4203fs	HMCN1_uc001grs.1_5'Flank	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4203	Ig-like C2-type 41.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AATTAACTGGAAAAAAGACAA	0.393													39	76	---	---	---	---						.	-	186094843	-	-	186094843	7	5	19	1	0	1	0	1	0	0	0	0	7236	247	9	0	12933	0	HMCN1	1	186094843	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	110336	186094843	63155778	226	13739											
PLA2G4A	5321	broad.mit.edu	37	chr1	186919810	186919810	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatattaccacaaagcataTtgtgagtaatgatagctcgg	16	11	8	6	1	0	2	0	2	0	0	1	2	0	2	1	1	3	3	1	1	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:186919810T>C	uc001gsc.2	+	13	1491	c.1286T>C	c.(1285-1287)ATT>ACT	p.I429T	PLA2G4A_uc010pos.1_Missense_Mutation_p.I369T	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	429	PLA2c.				phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	ACAAAGCATATTGTGAGTAAT	0.338													5	18					0	0	0.000602	0	0		C	186919810	C	C	186919810	3	2	19	1	0	0	0	0	1	0	0	0	12020	1493	52	3	1332	3	PLA2G4A	1	186919810	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	824967	186919810	62330811	227	13740											
KCNT2	343450	broad.mit.edu	37	chr1	196227322	196227322	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtagtttttaaagagcatAccatatcccactgtagaaag	15	11	7	8	0	0	2	0	0	0	2	1	2	1	2	2	0	2	4	2	0	7	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:196227322A>G	uc001gtd.1	-	26	3271	c.3211_splice	c.e26+1	p.D1071_splice	KCNT2_uc009wyt.1_Splice_Site|KCNT2_uc001gte.1_Splice_Site_p.D1004_splice|KCNT2_uc001gtf.1_Splice_Site_p.D1047_splice|KCNT2_uc001gtg.1_Splice_Site|KCNT2_uc001gth.1_Silent_p.G575G	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2							voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TAAAGAGCATACCATATCCCA	0.353													5	107					0	0	0.000602	0	0		G	196227322	G	G	196227322	5	3	19	1	0	0	0	0	0	0	1	0	8108	405	14	3	206	3	KCNT2	1	196227322	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	9307512	196227322	53023299	228	13741											
KCNT2	343450	broad.mit.edu	37	chr1	196227479	196227479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccttttctgctcagtcttCgggcccactgcatgcttttt	3	16	9	13	1	3	0	1	0	2	0	4	0	3	0	2	2	3	3	2	2	0	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:196227479C>T	uc001gtd.1	-	26	3116	c.3056G>A	c.(3055-3057)CGA>CAA	p.R1019Q	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.R952Q|KCNT2_uc001gtf.1_Missense_Mutation_p.R995Q|KCNT2_uc001gtg.1_RNA|KCNT2_uc001gth.1_Missense_Mutation_p.R523Q	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	1019	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						GCTCAGTCTTCGGGCCCACTG	0.512													13	110					0	0	0.00245	0	0		T	196227479	T	T	196227479	3	4	19	1	0	0	0	0	1	0	0	0	8108	884	31	1	363	1	KCNT2	1	196227479	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	157	196227479	53023142	229	13742											
ASPM	259266	broad.mit.edu	37	chr1	197073120	197073120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagactgtagtgaaataacaGcttttctttgtaacctcatc	13	14	6	8	0	2	2	1	1	1	1	3	2	2	2	1	0	3	3	1	0	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:197073120G>A	uc001gtu.2	-	18	5518	c.5261C>T	c.(5260-5262)GCT>GTT	p.A1754V	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1754	IQ 6.|IQ 7.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TGAAATAACAGCTTTTCTTTG	0.358													13	181					0	0	0.001855	0	0		A	197073120	A	A	197073120	3	1	19	1	0	0	0	0	1	0	0	0	1057	971	34	2	5216	2	ASPM	1	197073120	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	845641	197073120	52177501	230	13743											
ZBTB41	360023	broad.mit.edu	37	chr1	197144177	197144177	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaaggtgtacgcttttgtAatgaacagtgagatgatccc	11	12	10	8	1	0	3	0	3	0	1	2	4	2	3	2	1	2	3	2	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:197144177A>G	uc001gtx.1	-	8	2017	c.1948T>C	c.(1948-1950)TAC>CAC	p.Y650H	ZBTB41_uc009wyz.1_RNA	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	650	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						ACGCTTTTGTAATGAACAGTG	0.353													10	118					0	0	0.010729	0	0		G	197144177	G	G	197144177	3	3	19	1	0	0	0	0	1	0	0	0	17568	362	13	3	793	3	ZBTB41	1	197144177	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	71057	197144177	52106444	231	13744											
ZBTB41	360023	broad.mit.edu	37	chr1	197145784	197145784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatcttttatcatcatgatGtactcgtaagtgaagtctat	12	17	6	6	1	4	2	2	2	2	0	5	2	4	2	0	0	1	2	0	0	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:197145784G>A	uc001gtx.1	-	7	1858	c.1789C>T	c.(1789-1791)CAT>TAT	p.H597Y	ZBTB41_uc009wyz.1_RNA	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	597	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TCATCATGATGTACTCGTAAG	0.303													10	92					0	0	0.008291	0	0		A	197145784	A	A	197145784	3	1	19	1	0	0	0	0	1	0	0	0	17568	1377	48	4	956	4	ZBTB41	1	197145784	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1607	197145784	52104837	232	13745											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200817864	200817864	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatgatattcgaactggcaAcaccagggaagctttgagtc	12	11	10	8	1	0	2	0	2	0	0	2	4	0	3	1	2	3	2	1	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:200817864A>G	uc001gvl.2	+	12	2270	c.2000A>G	c.(1999-2001)AAC>AGC	p.N667S	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.N656S|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.N640S	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	667						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						CGAACTGGCAACACCAGGGAA	0.423													8	128					0	0	0.00308	0	0		G	200817864	G	G	200817864	3	3	19	1	0	0	0	0	1	0	0	0	2615	43	2	3	2009	3	CAMSAP1L1	1	200817864	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3672080	200817864	48432757	233	13746											
CACNA1S	779	broad.mit.edu	37	chr1	201012511	201012511	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggttggtgcgtggatctTgtgggaagtcctccaagaag	7	10	18	6	1	1	1	0	0	1	1	3	3	3	3	2	5	1	1	2	5	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:201012511T>C	uc001gvv.2	-	40	5173	c.4946A>G	c.(4945-4947)CAA>CGA	p.Q1649R		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1649	Cytoplasmic (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GCGTGGATCTTGTGGGAAGTC	0.542											OREG0014067	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	83					0	0	0.01441	0	0		C	201012511	C	C	201012511	3	2	19	1	0	0	0	0	1	0	0	0	2550	1812	63	3	695	3	CACNA1S	1	201012511	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	194647	201012511	48238110	234	13747											
CACNA1S	779	broad.mit.edu	37	chr1	201027620	201027620	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggggtctccaaagtagccCtgggaaggaaaaggatggga	13	5	16	7	0	1	0	0	0	1	0	2	4	1	4	2	6	1	1	2	6	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:201027620C>A	uc001gvv.2	-	28	3753	c.3526_splice	c.e28-1	p.G1176_splice		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,						axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	CAAAGTAGCCCTGGGAAGGAA	0.547													14	14					4.7546e-09	4.9618e-09	0.004007	1	0		A	201027620	A	A	201027620	5	1	19	1	0	0	0	0	0	0	1	0	2550	695	24	5	2164	5	CACNA1S	1	201027620	Splice_Site	SNP	C	TCGA-BR-4361-01A-01D-1158-08	15109	201027620	48223001	235	13748											
CACNA1S	779	broad.mit.edu	37	chr1	201058496	201058496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggttgggccctggccagcCgccccggcactcactgccat	5	7	12	17	2	1	0	1	0	0	0	1	0	1	0	6	4	2	2	6	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:201058496C>T	uc001gvv.2	-	6	1017	c.790G>A	c.(790-792)GGC>AGC	p.G264S		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	264	Extracellular (Potential).|I.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	CCTGGCCAGCCGCCCCGGCAC	0.622													18	14					0	0	0.008871	0	0		T	201058496	T	T	201058496	3	4	19	1	0	0	0	0	1	0	0	0	2550	652	23	1	4987	1	CACNA1S	1	201058496	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	30876	201058496	48192125	236	13749											
IGFN1	91156	broad.mit.edu	37	chr1	201183362	201183362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaagtgcagccgggggaggCcgccacactctcctgtaccc	7	5	14	15	2	1	0	0	0	1	0	2	2	1	2	5	4	3	2	5	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:201183362C>T	uc001gwc.2	+	2	1038	c.266C>T	c.(265-267)GCC>GTC	p.A89V	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						CCGGGGGAGGCCGCCACACTC	0.642													10	42					0	0	0.008291	0	0		T	201183362	T	T	201183362	3	4	19	1	0	0	0	0	1	0	0	0	7606	739	26	2	8832	2	IGFN1	1	201183362	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	124866	201183362	48067259	237	13750											
IGFN1	91156	broad.mit.edu	37	chr1	201187691	201187691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtggcggacgtgcggcaggGctgtcagtatgagttccggg	5	8	20	8	4	1	1	1	1	0	0	2	2	2	2	1	6	1	4	1	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:201187691G>A	uc001gwc.2	+	7	2055	c.1283G>A	c.(1282-1284)GGC>GAC	p.G428D	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						GTGCGGCAGGGCTGTCAGTAT	0.627													10	22					0	0	0.001855	0	0		A	201187691	A	A	201187691	3	1	19	1	0	0	0	0	1	0	0	0	7606	1203	42	2	9869	2	IGFN1	1	201187691	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4329	201187691	48062930	238	13751											
ELF3	1999	broad.mit.edu	37	chr1	201983122	201983122	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaaaagaacagcaacaTgacctacgagaagctgagcc	20	3	9	9	1	0	5	0	2	0	3	0	6	0	5	2	0	6	2	2	0	7	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:201983122T>C	uc001gxg.3	+	7	4163	c.971T>C	c.(970-972)ATG>ACG	p.M324T	ELF3_uc001gxi.3_Missense_Mutation_p.M324T|ELF3_uc001gxh.3_Missense_Mutation_p.M324T	NM_004433	NP_004424	P78545	ELF3_HUMAN	E74-like factor 3 (ets domain transcription	324	ETS.				epidermis development|epithelial cell differentiation|inflammatory response|mammary gland involution|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0						AACAGCAACATGACCTACGAG	0.602													3	32					0	0	0.009096	0	0		C	201983122	C	C	201983122	3	2	19	1	0	0	0	0	1	0	0	0	5063	1464	51	3	997	3	ELF3	1	201983122	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	795431	201983122	47267499	239	13752											
ELF3	1999	broad.mit.edu	37	chr1	201984339	201984339	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccttctcttcacccaggtActactacaaacgggagatcc	11	10	6	14	1	2	1	1	0	1	1	5	2	4	1	3	2	4	1	3	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:201984339A>G	uc001gxg.3	+	8	4196	c.1004A>G	c.(1003-1005)TAC>TGC	p.Y335C	ELF3_uc001gxi.3_Missense_Mutation_p.Y335C|ELF3_uc001gxh.3_Missense_Mutation_p.Y335C	NM_004433	NP_004424	P78545	ELF3_HUMAN	E74-like factor 3 (ets domain transcription	335	ETS.			RYYY->AAAA: Partially abrogates repressive effect on the KRT4 promoter.	epidermis development|epithelial cell differentiation|inflammatory response|mammary gland involution|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0						TCACCCAGGTACTACTACAAA	0.592													9	93					0	0	0.006214	0	0		G	201984339	G	G	201984339	3	3	19	1	0	0	0	0	1	0	0	0	5063	391	14	3	1034	3	ELF3	1	201984339	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1217	201984339	47266282	240	13753											
LGR6	59352	broad.mit.edu	37	chr1	202287753	202287753	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgcgccatggtgaggcaCgtggcctggctcatcttcgc	5	9	14	13	3	2	1	1	1	1	0	3	2	2	1	2	4	1	2	2	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:202287753C>T	uc001gxu.2	+	18	2322	c.2322C>T	c.(2320-2322)CAC>CAT	p.H774H	LGR6_uc001gxv.2_Silent_p.H722H|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Silent_p.H635H	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	774	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						TGGTGAGGCACGTGGCCTGGC	0.642													12	105					0	0	0.010729	0	0		T	202287753	T	T	202287753	2	4	19	1	0	0	0	0	0	0	0	1	8774	535	19	1		1	LGR6	1	202287753	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	303414	202287753	46962868	241	13754											
TMEM183A	92703	broad.mit.edu	37	chr1	202989959	202989959	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtacaggaggattgcaGcctcccgttcagtacgaaga	12	8	12	9	2	1	1	1	0	0	1	2	4	2	3	2	2	4	4	2	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:202989959G>A	uc001gyu.1	+	7	886	c.828G>A	c.(826-828)CAG>CAA	p.Q276Q	TMEM183A_uc001gyv.1_RNA|TMEM183A_uc001gyw.1_Silent_p.Q275Q|TMEM183A_uc001gyx.1_Missense_Mutation_p.A273T|TMEM183A_uc001gyy.2_5'Flank	NM_001079809	NP_001073277	Q8IXX5	T183A_HUMAN	transmembrane protein 183B	276						integral to membrane					0			BRCA - Breast invasive adenocarcinoma(75;0.18)			GAGGATTGCAGCCTCCCGTTC	0.453													8	180					0	0	0.006214	0	0		A	202989959	A	A	202989959	2	1	19	1	0	0	0	0	0	0	0	1	16127	962	34	2		2	TMEM183A	1	202989959	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	702206	202989959	46260662	242	13755											
SOX13	9580	broad.mit.edu	37	chr1	204091106	204091106	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccatggccacccaccaccCcctgcaggtaccgccctcta	7	5	8	21	1	1	0	0	0	1	0	1	0	1	0	8	3	2	2	8	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:204091106C>A	uc001ham.2	+	8	1449	c.854C>A	c.(853-855)CCC>CAC	p.P285H	SOX13_uc010pqp.1_Missense_Mutation_p.P284H|SOX13_uc010pqq.1_Missense_Mutation_p.P152H	NM_005686	NP_005677	Q9UN79	SOX13_HUMAN	SRY-box 13	285	Pro-rich.				anatomical structure morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2	all_cancers(21;0.0754)|Breast(84;0.116)|all_epithelial(62;0.189)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)			ACCCACCACCCCCTGCAGGTA	0.662													6	11					2.17888e-05	2.23727e-05	0.006214	1	0		A	204091106	A	A	204091106	3	1	19	1	0	0	0	0	1	0	0	0	14969	623	22	5	880	5	SOX13	1	204091106	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1101147	204091106	45159515	243	13756											
CNTN2	6900	broad.mit.edu	37	chr1	205030997	205030997	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgggctcccacagctcaGcctgagtggctaaaagtgat	9	9	11	12	1	1	2	1	2	0	0	3	2	3	2	3	2	2	3	3	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:205030997G>A	uc001hbr.2	+	9	1247	c.978G>A	c.(976-978)CAG>CAA	p.Q326Q	CNTN2_uc001hbq.1_Silent_p.Q217Q|CNTN2_uc009xbi.2_Silent_p.Q217Q|CNTN2_uc001hbs.2_Silent_p.Q114Q	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	326					axon guidance|clustering of voltage-gated potassium channels	anchored to membrane|juxtaparanode region of axon|myelin sheath|node of Ranvier|synapse part	identical protein binding			ovary(1)	1	all_cancers(21;0.144)|Breast(84;0.0437)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			CCACAGCTCAGCCTGAGTGGC	0.582											OREG0014144	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	172					0	0	0.004007	0	0		A	205030997	A	A	205030997	2	1	19	1	0	0	0	0	0	0	0	1	3644	962	34	2		2	CNTN2	1	205030997	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	939891	205030997	44219624	244	13757											
CDK18	5129	broad.mit.edu	37	chr1	205492416	205492416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaccagctccacaaccggCggaatgagagtgaggggtct	11	6	13	11	2	2	2	1	2	1	1	3	4	3	3	3	4	3	1	3	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:205492416C>T	uc001hcr.2	+	2	340	c.121C>T	c.(121-123)CGG>TGG	p.R41W	CDK18_uc009xbk.1_Intron|CDK18_uc009xbl.1_RNA|CDK18_uc010pri.1_5'UTR|CDK18_uc001hcp.2_Missense_Mutation_p.R41W|CDK18_uc001hcq.2_Missense_Mutation_p.R41W|CDK18_uc010prj.1_5'UTR|CDK18_uc001hcs.2_5'UTR|CDK18_uc009xbm.1_5'Flank	NM_212503	NP_997668	Q07002	CDK18_HUMAN	PCTAIRE protein kinase 3 isoform a	39							ATP binding|cyclin-dependent protein kinase activity|protein binding|signal transducer activity			stomach(2)	2						CCACAACCGGCGGAATGAGAG	0.612													19	55					0	0	0.010504	0	0		T	205492416	T	T	205492416	3	4	19	1	0	0	0	0	1	0	0	0	3137	759	27	1	123	1	CDK18	1	205492416	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	461419	205492416	43758205	245	13758											
ELK4	2005	broad.mit.edu	37	chr1	205592853	205592853	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagtttgtcataattcatgTtaggcttgttcttgcgaatc	8	18	9	6	1	3	1	2	1	1	0	4	2	3	1	0	1	1	4	0	1	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:205592853T>C	uc001hcy.1	-	2	1408	c.158A>G	c.(157-159)AAC>AGC	p.N53S	ELK4_uc001hcz.2_Missense_Mutation_p.N53S|SLC45A3_uc010prn.1_Missense_Mutation_p.N142S|SLC45A3_uc010pro.1_Missense_Mutation_p.N326S|SLC45A3_uc010prp.1_RNA|ELK4_uc010prq.1_RNA	NM_001973	NP_001964	P28324	ELK4_HUMAN	ELK4 protein isoform a	53	ETS.					cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity				0	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0908)			ATAATTCATGTTAGGCTTGTT	0.443			T	SLC45A3	prostate								14	323					0	0	0.003163	0	0		C	205592853	C	C	205592853	3	2	19	1	0	0	0	0	1	0	0	0	5069	1725	60	3	1291	3	ELK4	1	205592853	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	100437	205592853	43657768	246	13759											
PM20D1	148811	broad.mit.edu	37	chr1	205801816	205801816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtcatcagaagggctgaCggggagggggtcaaaggcac	10	6	17	8	1	3	2	3	1	0	1	3	3	3	3	0	6	0	2	0	6	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:205801816C>T	uc001hdj.2	-	11	1240	c.1195G>A	c.(1195-1197)GTC>ATC	p.V399I	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	399						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			GAAGGGCTGACGGGGAGGGGG	0.537													28	66					0	0	0.009535	0	0		T	205801816	T	T	205801816	3	4	19	1	0	0	0	0	1	0	0	0	12147	536	19	1	325	1	PM20D1	1	205801816	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	208963	205801816	43448805	247	13760											
IKBKE	9641	broad.mit.edu	37	chr1	206649592	206649592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaagccggggaacatcatgCgcctcgtaggggaggagggg	9	5	18	9	3	2	0	2	0	0	0	3	3	2	3	2	7	3	1	2	7	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:206649592C>T	uc001hdz.1	+	6	795	c.427C>T	c.(427-429)CGC>TGC	p.R143C	IKBKE_uc009xbu.1_Missense_Mutation_p.R143C|IKBKE_uc009xbv.1_Missense_Mutation_p.R143C|IKBKE_uc001hea.1_Missense_Mutation_p.R58C	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	143	Protein kinase.				DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding			ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)					GAACATCATGCGCCTCGTAGG	0.617													28	55					0	0	0.008361	0	0		T	206649592	T	T	206649592	3	4	19	1	0	0	0	0	1	0	0	0	7628	768	27	1	441	1	IKBKE	1	206649592	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	847776	206649592	42601029	248	13761											
DYRK3	8444	broad.mit.edu	37	chr1	206822274	206822274	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagaaaccaatggtagtatAcccctatgcagtgtattgcc	12	11	8	10	0	1	1	1	0	0	1	1	1	1	1	4	1	4	4	4	1	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:206822274A>G	uc001hej.2	+	3	1899	c.1731A>G	c.(1729-1731)ATA>ATG	p.I577M	DYRK3_uc001hek.2_Intron|DYRK3_uc001hei.2_Missense_Mutation_p.I557M	NM_003582	NP_003573	O43781	DYRK3_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	577					erythrocyte differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|central_nervous_system(1)	3	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			ATGGTAGTATACCCCTATGCA	0.403													6	125					0	0	0.00308	0	0		G	206822274	G	G	206822274	3	3	19	1	0	0	0	0	1	0	0	0	4863	381	14	3	1762	3	DYRK3	1	206822274	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	172682	206822274	42428347	249	13762											
CR1	1378	broad.mit.edu	37	chr1	207785082	207785082	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctaagccatcaggacaactTttcacctgggcaggaagtgt	11	9	10	11	0	2	0	2	0	0	0	2	2	2	2	3	3	2	1	3	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:207785082T>C	uc001hfy.2	+	30	5146	c.5006T>C	c.(5005-5007)TTT>TCT	p.F1669S	CR1_uc001hfx.2_Missense_Mutation_p.F2119S	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1669	Sushi 26.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						CAGGACAACTTTTCACCTGGG	0.557													3	160					0	0	0.004672	0	0		C	207785082	C	C	207785082	3	2	19	1	0	0	0	0	1	0	0	0	3843	1841	64	3	6506	3	CR1	1	207785082	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	962808	207785082	41465539	250	13763											
PLXNA2	5362	broad.mit.edu	37	chr1	208225688	208225688	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacccgtagaactcgcaggTctggttgcccaggtagactg	8	9	12	12	2	2	2	1	0	1	2	3	2	2	2	2	3	2	4	2	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:208225688T>C	uc001hgz.2	-	15	3735	c.2977A>G	c.(2977-2979)ACC>GCC	p.T993A		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	993	Extracellular (Potential).|IPT/TIG 2.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		AACTCGCAGGTCTGGTTGCCC	0.542													5	85					0	0	0.001168	0	0		C	208225688	C	C	208225688	3	2	19	1	0	0	0	0	1	0	0	0	12139	1667	58	3	2779	3	PLXNA2	1	208225688	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	440606	208225688	41024933	251	13764											
CAMK1G	57172	broad.mit.edu	37	chr1	209785386	209785386	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccctggtggcaggtccCtcaactgcctggtcaatggc	5	9	12	15	0	2	0	2	0	0	0	3	0	3	0	4	5	3	1	4	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:209785386C>A	uc001hhd.2	+	11	1267	c.1165C>A	c.(1165-1167)CTC>ATC	p.L389I	CAMK1G_uc001hhf.3_Missense_Mutation_p.L389I|CAMK1G_uc001hhe.2_Missense_Mutation_p.L389I	NM_020439	NP_065172	Q96NX5	KCC1G_HUMAN	calcium/calmodulin-dependent protein kinase IG	389						Golgi membrane|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0475)		TGGCAGGTCCCTCAACTGCCT	0.677													9	64					3.41278e-10	3.56969e-10	0.00499	1	0		A	209785386	A	A	209785386	3	1	19	1	0	0	0	0	1	0	0	0	2601	681	24	5	1203	5	CAMK1G	1	209785386	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1559698	209785386	39465235	252	13765											
LAMB3	3914	broad.mit.edu	37	chr1	209800773	209800773	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgcgggtcgcaggcacaCggttcacagccctggccact	6	8	13	14	3	1	0	1	0	0	0	2	0	1	0	2	4	2	3	2	4	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:209800773C>T	uc001hhg.2	-	11	1830	c.1440G>A	c.(1438-1440)CCG>CCA	p.P480P	LAMB3_uc009xco.2_Silent_p.P480P|LAMB3_uc001hhh.2_Silent_p.P480P|LAMB3_uc010psl.1_RNA	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	480	Laminin EGF-like 4.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		CGCAGGCACACGGTTCACAGC	0.652											OREG0014217	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	32					0	0	0.007413	0	0		T	209800773	T	T	209800773	2	4	19	1	0	0	0	0	0	0	0	1	8628	523	19	1		1	LAMB3	1	209800773	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	15387	209800773	39449848	253	13766											
NEK2	4751	broad.mit.edu	37	chr1	211847636	211847636	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttttaaaagattatgcttAcctttccttggttccctttg	8	20	5	8	0	0	1	0	0	0	1	2	1	2	1	3	1	2	2	3	1	4	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:211847636A>G	uc001hir.1	-	2	460	c.314_splice	c.e2+1	p.R105_splice	NEK2_uc001hiq.1_Splice_Site_p.R105_splice|NEK2_uc001his.3_Splice_Site_p.R105_splice|NEK2_uc001hit.1_Splice_Site	NM_002497	NP_002488	P51955	NEK2_HUMAN	NIMA-related kinase 2						cell division|centrosome separation|G2/M transition of mitotic cell cycle|meiosis|protein autophosphorylation|regulation of mitosis	centrosome|condensed chromosome kinetochore|cytosol|nucleolus	ATP binding|metal ion binding|protein binding|protein phosphatase binding|protein serine/threonine kinase activity			breast(2)|stomach(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.00203)|all cancers(67;0.0339)|Epithelial(68;0.0546)		GATTATGCTTACCTTTCCTTG	0.338													5	83					0	0	0.001168	0	0		G	211847636	G	G	211847636	5	3	19	1	0	0	0	0	0	0	1	0	10343	405	14	3	1049	3	NEK2	1	211847636	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2046863	211847636	37402985	254	13767											
INTS7	25896	broad.mit.edu	37	chr1	212141247	212141247	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcctcaaagttgctgagTcagcatcaaaagatgcctgg	12	10	9	10	0	3	2	3	1	0	1	4	2	4	2	2	1	3	3	2	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:212141247T>C	uc001hiw.1	-	15	2192	c.2087A>G	c.(2086-2088)GAC>GGC	p.D696G	INTS7_uc009xdb.1_Missense_Mutation_p.D696G|INTS7_uc001hix.1_Missense_Mutation_p.D572G|INTS7_uc001hiy.1_Missense_Mutation_p.D696G|INTS7_uc010pta.1_Missense_Mutation_p.D647G	NM_015434	NP_056249	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	696					snRNA processing	integrator complex	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		AGTTGCTGAGTCAGCATCAAA	0.368													4	107					0	0	0.009096	0	0		C	212141247	C	C	212141247	3	2	19	1	0	0	0	0	1	0	0	0	7799	1667	58	3	825	3	INTS7	1	212141247	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	293611	212141247	37109374	255	13768											
DTL	51514	broad.mit.edu	37	chr1	212254037	212254037	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaaaccaggaggtgataaActttccacggtgggttgggc	11	8	15	7	1	0	2	0	1	0	1	1	4	1	3	2	5	2	1	2	5	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:212254037A>G	uc009xdc.2	+	13	1520	c.1206A>G	c.(1204-1206)AAA>AAG	p.K402K	DTL_uc010ptb.1_Silent_p.K360K|DTL_uc001hiz.3_Silent_p.K131K	NM_016448	NP_057532	Q9NZJ0	DTL_HUMAN	denticleless homolog	402					DNA replication|G2/M transition DNA damage checkpoint|protein monoubiquitination|protein polyubiquitination|response to UV|translesion synthesis|ubiquitin-dependent protein catabolic process	centrosome|Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|nuclear membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00796)|all cancers(67;0.0385)|Epithelial(68;0.102)		GAGGTGATAAACTTTCCACGG	0.418													10	211					0	0	0.008291	0	0		G	212254037	G	G	212254037	2	3	19	1	0	0	0	0	0	0	0	1	4793	40	2	3		3	DTL	1	212254037	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	112790	212254037	36996584	256	13769											
PTPN14	5784	broad.mit.edu	37	chr1	214557902	214557902	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacgagggcacgatgatcgcGctgtgccggtggctcgggat	6	8	17	10	6	0	1	0	1	0	0	2	4	0	2	1	4	2	3	1	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:214557902G>A	uc001hkk.1	-	13	1567	c.1296C>T	c.(1294-1296)AGC>AGT	p.S432S	PTPN14_uc010pty.1_Silent_p.S333S	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	432					lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		CGATGATCGCGCTGTGCCGGT	0.592													85	178					0	0	0.01441	0	0		A	214557902	A	A	214557902	2	1	19	1	0	0	0	0	0	0	0	1	12806	1078	38	1		1	PTPN14	1	214557902	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2303865	214557902	34692719	257	13770											
CENPF	1063	broad.mit.edu	37	chr1	214826249	214826249	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcacagaagctggagataGaccttttaaagtctagtaaa	15	11	9	6	0	2	3	1	0	1	3	2	4	2	3	1	1	1	3	1	1	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:214826249G>T	uc001hkm.2	+	16	8413	c.8239G>T	c.(8239-8241)GAC>TAC	p.D2747Y		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2843	Potential.|Sufficient for self-association.|Sufficient for centromere localization.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		GCTGGAGATAGACCTTTTAAA	0.328													36	72					6.53348e-20	6.94158e-20	0.003755	1	0		T	214826249	T	T	214826249	3	4	19	1	0	0	0	0	1	0	0	0	3234	942	33	5	8297	5	CENPF	1	214826249	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	268347	214826249	34424372	258	13771											
KCTD3	51133	broad.mit.edu	37	chr1	215792534	215792534	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagagctactcaaattacTcgatcaatgtgatttgagca	15	11	8	7	1	2	4	2	2	0	2	3	5	2	4	0	0	4	2	0	0	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:215792534T>C	uc001hks.2	+	17	2081	c.1787T>C	c.(1786-1788)CTC>CCC	p.L596P	KCTD3_uc001hkt.2_Missense_Mutation_p.L594P|KCTD3_uc010pub.1_Missense_Mutation_p.L494P|KCTD3_uc009xdn.2_Missense_Mutation_p.L320P	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	596						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		CTCAAATTACTCGATCAATGT	0.403													45	109					0	0	0.010771	0	0		C	215792534	C	C	215792534	3	2	19	1	0	0	0	0	1	0	0	0	8126	1551	54	3	1853	3	KCTD3	1	215792534	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	966285	215792534	33458087	259	13772											
SPATA17	128153	broad.mit.edu	37	chr1	218036154	218036154	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcatttgagctcttctcAaagtatggaaaattatattc	13	15	5	8	0	3	1	2	1	2	0	5	2	3	2	1	1	1	2	1	1	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:218036154A>G	uc001hlh.1	+	10	1070	c.1044A>G	c.(1042-1044)TCA>TCG	p.S348S	SPATA17_uc001hli.2_Silent_p.S348S	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	348						cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		AGCTCTTCTCAAAGTATGGAA	0.284													47	112					0	0	0.01441	0	0		G	218036154	G	G	218036154	2	3	19	1	0	0	0	0	0	0	0	1	15027	117	5	3		3	SPATA17	1	218036154	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2243620	218036154	31214467	260	13773											
TP53BP2	7159	broad.mit.edu	37	chr1	223987704	223987704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaaacattgagaacggaCgcactttcttctctttctcc	10	13	5	13	2	4	1	1	1	3	1	6	3	4	2	1	1	2	1	1	1	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:223987704C>T	uc010pvb.1	-	11	1674	c.1382G>A	c.(1381-1383)CGT>CAT	p.R461H	TP53BP2_uc001hod.2_Missense_Mutation_p.R332H|TP53BP2_uc010puz.1_5'UTR|TP53BP2_uc010pva.1_Missense_Mutation_p.R100H	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	455					apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		TGAGAACGGACGCACTTTCTT	0.428													17	83					0	0	0.006122	0	0		T	223987704	T	T	223987704	3	4	19	1	0	0	0	0	1	0	0	0	16410	536	19	1	2054	1	TP53BP2	1	223987704	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5951550	223987704	25262917	261	13774											
TMEM63A	9725	broad.mit.edu	37	chr1	226058796	226058796	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcagacggaagatggcagtCagccagggacagcatccctg	11	5	14	11	1	1	2	1	0	0	2	2	4	2	4	2	3	3	3	2	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:226058796C>T	uc001hpm.1	-	6	601	c.351G>A	c.(349-351)CTG>CTA	p.L117L	TMEM63A_uc010pvi.1_Silent_p.L117L	NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	117						integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					AGATGGCAGTCAGCCAGGGAC	0.522													9	40					0	0	0.006214	0	0		T	226058796	T	T	226058796	2	4	19	1	0	0	0	0	0	0	0	1	16215	813	29	4		4	TMEM63A	1	226058796	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2071092	226058796	23191825	262	13775											
ITPKB	3707	broad.mit.edu	37	chr1	226924812	226924812	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggcggggagagggtaccGgctgccaccacctgctgccg	5	5	16	15	3	0	1	0	0	0	1	0	2	0	1	6	5	4	3	6	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:226924812G>A	uc010pvo.1	-	2	688	c.348C>T	c.(346-348)GCC>GCT	p.A116A	ITPKB_uc001hqh.2_Silent_p.A116A	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	116							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				AGAGGGTACCGGCTGCCACCA	0.527													5	14					0	0	0.013537	0	0		A	226924812	A	A	226924812	2	1	19	1	0	0	0	0	0	0	0	1	7934	1103	39	1		1	ITPKB	1	226924812	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	866016	226924812	22325809	263	13776											
OBSCN	84033	broad.mit.edu	37	chr1	228496809	228496809	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtccagctcctgaggTgaccatcctggagcccctgc	5	9	11	16	0	0	2	0	2	0	0	3	3	3	3	7	2	3	1	7	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:228496809T>C	uc009xez.1	+	48	12793	c.12749T>C	c.(12748-12750)GTG>GCG	p.V4250A	OBSCN_uc001hsn.2_Missense_Mutation_p.V4250A	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4250	Ig-like 44.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCTCCTGAGGTGACCATCCTG	0.647													4	6					0	0	0.009096	0	0		C	228496809	C	C	228496809	3	2	19	1	0	0	0	0	1	0	0	0	10831	1696	59	3	12935	3	OBSCN	1	228496809	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1571997	228496809	20753812	264	13777											
URB2	9816	broad.mit.edu	37	chr1	229772691	229772691	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccatgggcaaagcccaggaAgtctcaatagatgaagaggc	14	5	12	10	0	1	3	1	1	1	2	2	4	1	4	2	3	1	1	2	3	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:229772691A>C	uc001hts.1	+	4	2467	c.2331A>C	c.(2329-2331)GAA>GAC	p.E777D	URB2_uc009xfd.1_Missense_Mutation_p.E777D	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	777						nucleolus				central_nervous_system(2)|ovary(1)	3						AAGCCCAGGAAGTCTCAATAG	0.443													6	156					0	0	0.001168	0	0		C	229772691	C	C	229772691	3	2	19	1	0	0	0	0	1	0	0	0	17051	69	3	5	2341	5	URB2	1	229772691	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1275882	229772691	19477930	265	13778											
COG2	22796	broad.mit.edu	37	chr1	230800261	230800261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggcttatacaagttattcGgtcagttgagaaaattgaaa	15	12	10	4	1	1	2	1	2	0	1	2	4	1	2	0	2	1	3	0	2	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:230800261G>A	uc001htw.2	+	5	564	c.413G>A	c.(412-414)CGG>CAG	p.R138Q	COG2_uc001htx.2_Missense_Mutation_p.R138Q|COG2_uc010pwc.1_Missense_Mutation_p.R11Q	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	138					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				CAAGTTATTCGGTCAGTTGAG	0.269													3	11					0	0	0.004672	0	0		A	230800261	A	A	230800261	3	1	19	1	0	0	0	0	1	0	0	0	3661	1116	39	1	431	1	COG2	1	230800261	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1027570	230800261	18450360	266	13779											
TTC13	79573	broad.mit.edu	37	chr1	231061307	231061307	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaccaggtgtttcatatTgcatcagggatcccaaacga	13	9	10	9	1	2	0	2	0	0	0	3	3	3	2	2	3	3	2	2	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:231061307T>C	uc001huf.3	-	13	1575	c.1544A>G	c.(1543-1545)CAA>CGA	p.Q515R	TTC13_uc009xfi.2_Missense_Mutation_p.Q462R|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Missense_Mutation_p.Q462R|TTC13_uc009xfk.1_Missense_Mutation_p.Q405R	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	515							binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		TGTTTCATATTGCATCAGGGA	0.413													50	103					0	0	0.01441	0	0		C	231061307	C	C	231061307	3	2	19	1	0	0	0	0	1	0	0	0	16706	1812	63	3	1082	3	TTC13	1	231061307	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	261046	231061307	18189314	267	13780											
GNPAT	8443	broad.mit.edu	37	chr1	231409726	231409726	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccatacaagtgactacgaAagacatcctagttacagaga	17	7	8	9	1	0	3	0	1	0	2	1	5	1	3	2	0	4	1	2	0	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:231409726A>G	uc001hup.3	+	12	1867	c.1661A>G	c.(1660-1662)AAA>AGA	p.K554R	GNPAT_uc009xfp.2_Missense_Mutation_p.K493R	NM_014236	NP_055051	O15228	GNPAT_HUMAN	glyceronephosphate O-acyltransferase	554					ether lipid biosynthetic process|fatty acid metabolic process|organ morphogenesis	peroxisomal matrix|peroxisomal membrane	glycerone-phosphate O-acyltransferase activity			ovary(3)|breast(1)	4	Breast(184;0.0871)	all_cancers(173;0.2)|Prostate(94;0.183)				GTGACTACGAAAGACATCCTA	0.373													31	80					0	0	0.008361	0	0		G	231409726	G	G	231409726	3	3	19	1	0	0	0	0	1	0	0	0	6556	14	1	3	1707	3	GNPAT	1	231409726	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	348419	231409726	17840895	268	13781											
PCNXL2	80003	broad.mit.edu	37	chr1	233334764	233334764	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactgtaaacagccgaggttAtcccagacacagctggaaca	14	6	9	12	1	0	1	0	0	0	1	1	3	1	2	2	2	4	3	2	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:233334764A>G	uc001hvl.2	-	15	3222	c.2987T>C	c.(2986-2988)ATA>ACA	p.I996T	PCNXL2_uc001hvm.1_RNA|PCNXL2_uc009xfu.2_RNA|PCNXL2_uc001hvp.1_RNA|PCNXL2_uc009xfv.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	996	Helical; (Potential).					integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				AGCCGAGGTTATCCCAGACAC	0.507													6	4					0	0	0.00308	0	0		G	233334764	G	G	233334764	3	3	19	1	0	0	0	0	1	0	0	0	11611	449	16	3	3506	3	PCNXL2	1	233334764	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1925038	233334764	15915857	269	13782											
SLC35F3	148641	broad.mit.edu	37	chr1	234444889	234444889	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacaatggcttgactttgaaGgtgttttttaccaaggcagc	10	13	11	7	0	0	2	0	2	0	0	0	3	0	2	1	3	2	3	1	3	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:234444889G>T	uc001hwa.1	+	3	672	c.444G>T	c.(442-444)AAG>AAT	p.K148N	SLC35F3_uc001hvy.1_Missense_Mutation_p.K217N	NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	148					transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			TGACTTTGAAGGTGTTTTTTA	0.403													18	51					3.32936e-07	3.44972e-07	0.006122	1	0		T	234444889	T	T	234444889	3	4	19	1	0	0	0	0	1	0	0	0	14615	991	35	5	665	5	SLC35F3	1	234444889	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1110125	234444889	14805732	270	13783											
ARID4B	51742	broad.mit.edu	37	chr1	235345681	235345681	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactgttttccatgcaaagTgattctttgttcttggcctt	6	19	7	9	0	2	1	0	1	2	0	3	1	3	1	2	1	2	3	2	1	2	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:235345681T>C	uc001hwq.2	-	20	3051	c.2553A>G	c.(2551-2553)TCA>TCG	p.S851S	ARID4B_uc001hwr.2_Silent_p.S765S|ARID4B_uc001hws.3_Silent_p.S765S|ARID4B_uc001hwp.2_RNA|ARID4B_uc001hwt.3_Silent_p.S532S	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	851					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			CCATGCAAAGTGATTCTTTGT	0.373													62	151					0	0	0.01441	0	0		C	235345681	C	C	235345681	2	2	19	1	0	0	0	0	0	0	0	1	920	1683	59	3		3	ARID4B	1	235345681	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	900792	235345681	13904940	271	13784											
B3GALNT2	148789	broad.mit.edu	37	chr1	235613631	235613631	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcattcctgtctcacaggTcttctcacacagccacagac	10	9	6	16	0	3	1	2	0	3	1	6	1	4	1	2	1	2	1	2	1	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:235613631T>C	uc001hxc.2	-	12	1622	c.1393A>G	c.(1393-1395)ACC>GCC	p.T465A		NM_152490	NP_689703	Q8NCR0	B3GL2_HUMAN	beta-1,3-N-acetylgalactosaminyltransferase 2	465	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			breast(1)	1	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.0539)|Prostate(94;0.0353)	OV - Ovarian serous cystadenocarcinoma(106;0.000117)			GTCTCACAGGTCTTCTCACAC	0.483													28	39					0	0	0.007291	0	0		C	235613631	C	C	235613631	3	2	19	1	0	0	0	0	1	0	0	0	1247	1667	58	3	113	3	B3GALNT2	1	235613631	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	267950	235613631	13636990	272	13785											
LYST	1130	broad.mit.edu	37	chr1	235973006	235973006	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcttggtgcaaaagggtcaGgctgcttttctaggcatatt	8	14	12	7	0	3	0	1	0	2	0	3	0	3	0	0	4	2	4	0	4	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:235973006G>T	uc001hxj.2	-	5	1287	c.1112C>A	c.(1111-1113)CCT>CAT	p.P371H	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Missense_Mutation_p.P371H	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	371					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			AAAAGGGTCAGGCTGCTTTTC	0.378									Chediak-Higashi_syndrome				16	252					2.48551e-13	2.61859e-13	0.00499	1	0		T	235973006	T	T	235973006	3	4	19	1	0	0	0	0	1	0	0	0	9146	1000	35	5	10489	5	LYST	1	235973006	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	359375	235973006	13277615	273	13786											
NID1	4811	broad.mit.edu	37	chr1	236201424	236201424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttctgcaacacattgcctgCcattgcccgtatagccagcg	8	10	8	15	2	1	0	0	0	1	0	1	0	1	0	4	0	7	2	4	0	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:236201424C>T	uc001hxo.2	-	5	1367	c.1265G>A	c.(1264-1266)GGC>GAC	p.G422D	NID1_uc009xgd.2_Missense_Mutation_p.G422D	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	422	EGF-like 1.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	ACATTGCCTGCCATTGCCCGT	0.527													39	74					0	0	0.007835	0	0		T	236201424	T	T	236201424	3	4	19	1	0	0	0	0	1	0	0	0	10433	739	26	2	2542	2	NID1	1	236201424	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	228418	236201424	13049197	274	13787											
HEATR1	55127	broad.mit.edu	37	chr1	236735796	236735796	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtaattccaggatgagagTtactctttgccagtaagaac	13	11	9	8	0	1	2	0	1	1	2	2	4	2	3	2	1	3	3	2	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:236735796T>C	uc001hyd.1	-	26	3747	c.3622A>G	c.(3622-3624)ACT>GCT	p.T1208A	HEATR1_uc009xgh.1_Missense_Mutation_p.T370A	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1208					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			AGGATGAGAGTTACTCTTTGC	0.398													18	62					0	0	0.00499	0	0		C	236735796	C	C	236735796	3	2	19	1	0	0	0	0	1	0	0	0	7043	1725	60	3	2892	3	HEATR1	1	236735796	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	534372	236735796	12514825	275	13788											
MTR	4548	broad.mit.edu	37	chr1	236966835	236966835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccagcgggagaagctaaacGaagaacacttccgaggtcag	14	5	12	10	3	1	2	1	0	0	2	3	5	3	2	2	2	4	1	2	2	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:236966835G>A	uc001hyi.3	+	2	565	c.142G>A	c.(142-144)GAA>AAA	p.E48K	MTR_uc010pxv.1_Intron|MTR_uc010pxw.1_5'UTR|MTR_uc010pxx.1_Missense_Mutation_p.E48K|MTR_uc010pxy.1_Missense_Mutation_p.E48K	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	48	Hcy-binding.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	GAAGCTAAACGAAGAACACTT	0.463													30	76					0	0	0.010818	0	0		A	236966835	A	A	236966835	3	1	19	1	0	0	0	0	1	0	0	0	9976	1059	37	1	148	1	MTR	1	236966835	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	231039	236966835	12283786	276	13789											
MTR	4548	broad.mit.edu	37	chr1	237054567	237054567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagacgacattcacctgtacGcagaggctgctgtgccccag	10	7	11	13	2	1	2	1	0	0	2	1	3	1	2	3	1	3	4	3	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:237054567G>A	uc001hyi.3	+	29	3565	c.3142G>A	c.(3142-3144)GCA>ACA	p.A1048T	MTR_uc010pxw.1_Missense_Mutation_p.A641T|MTR_uc010pxx.1_Missense_Mutation_p.A997T|MTR_uc010pxy.1_Missense_Mutation_p.A902T	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	1048	AdoMet activation.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	TCACCTGTACGCAGAGGCTGC	0.547													18	160					0	0	0.00278	0	0		A	237054567	A	A	237054567	3	1	19	1	0	0	0	0	1	0	0	0	9976	1087	38	1	3256	1	MTR	1	237054567	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	87732	237054567	12196054	277	13790											
RYR2	6262	broad.mit.edu	37	chr1	237955558	237955558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctacatggagcccacgttgCgtatcttagctattctgcac	8	12	9	12	2	2	0	0	0	2	0	2	1	2	1	1	1	5	5	1	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:237955558C>T	uc001hyl.1	+	94	13837	c.13717C>T	c.(13717-13719)CGT>TGT	p.R4573C	RYR2_uc010pyb.1_Missense_Mutation_p.R6C	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4573					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GCCCACGTTGCGTATCTTAGC	0.443													8	27					0	0	0.008291	0	0		T	237955558	T	T	237955558	3	4	19	1	0	0	0	0	1	0	0	0	13794	768	27	1	14091	1	RYR2	1	237955558	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	900991	237955558	11295063	278	13791											
ZP4	57829	broad.mit.edu	37	chr1	238045775	238045775	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttgacagccaagtaggAtactaacaaggctccaagga	14	9	9	9	0	1	1	0	1	1	0	2	3	2	3	2	3	3	2	2	3	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:238045775A>G	uc001hym.2	-	12	1570	c.1570T>C	c.(1570-1572)TCC>CCC	p.S524P	LOC100130331_uc010pyc.1_RNA	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	524	Helical; (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			GCCAAGTAGGATACTAACAAG	0.473													14	180					0	0	0.00245	0	0		G	238045775	G	G	238045775	3	3	19	1	0	0	0	0	1	0	0	0	18243	333	12	3	56	3	ZP4	1	238045775	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	90217	238045775	11204846	279	13792											
EXO1	9156	broad.mit.edu	37	chr1	242020786	242020786	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttttggctgtaaaaaggTactcacctctgactactata	12	13	7	9	0	2	1	1	1	1	0	2	1	2	1	1	2	3	4	1	2	7	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:242020786T>C	uc001hzh.2	+	7	1083	c.543_splice	c.e7+2	p.K181_splice	EXO1_uc001hzi.2_Splice_Site_p.K181_splice|EXO1_uc001hzj.2_Splice_Site_p.K181_splice|EXO1_uc009xgq.2_Splice_Site_p.K181_splice	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b						meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			TGTAAAAAGGTACTCACCTCT	0.363								Direct_reversal_of_damage|Editing_and_processing_nucleases					33	54					0	0	0.013726	0	0		C	242020786	C	C	242020786	5	2	19	1	0	0	0	0	0	0	1	0	5308	1652	57	3	559	3	EXO1	1	242020786	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3975011	242020786	7229835	280	13793											
HNRNPU	3192	broad.mit.edu	37	chr1	245021316	245021316	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaaaaatcccttacttcAcaatctttcttctcttcagg	14	14	2	11	0	5	0	2	0	3	0	7	0	6	0	1	1	1	0	1	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:245021316A>G	uc001iaz.1	-	7	1709	c.1491T>C	c.(1489-1491)TGT>TGC	p.C497C	HNRNPU_uc001iaw.1_RNA|HNRNPU_uc001iax.1_RNA|HNRNPU_uc001iay.1_Silent_p.C221C|HNRNPU_uc001iba.1_Silent_p.C478C|HNRNPU_uc001ibb.1_Silent_p.C185C	NM_031844	NP_114032	Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U	497					CRD-mediated mRNA stabilization	catalytic step 2 spliceosome|cell surface|CRD-mediated mRNA stability complex|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	ATP binding|DNA binding|protein binding|RNA binding				0	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			CCCTTACTTCACAATCTTTCT	0.373													7	55					0	0	0.004482	0	0		G	245021316	G	G	245021316	2	3	19	1	0	0	0	0	0	0	0	1	7289	157	6	3		3	HNRNPU	1	245021316	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3000530	245021316	4229305	281	13794											
KIF26B	55083	broad.mit.edu	37	chr1	245847605	245847605	+	Frame_Shift_Del	DEL	C	-	-																															gccgtaccaccatgatcgcgCacatctcggccgcggtcggg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:245847605delC	uc001ibf.1	+	11	2769	c.2329delC	c.(2329-2331)CACfs	p.H777fs	KIF26B_uc001ibg.1_Frame_Shift_Del_p.H395fs|KIF26B_uc001ibh.1_Frame_Shift_Del_p.H19fs	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	777					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CATGATCGCGCACATCTCGGC	0.542													43	55	---	---	---	---						.	-	245847605	-	-	245847605	7	5	19	1	0	1	0	1	0	0	0	0	8311	710	25	0	2371	0	KIF26B	1	245847605	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	826289	245847605	3403016	282	13795											
AHCTF1	25909	broad.mit.edu	37	chr1	247012967	247012967	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaaaataaaggctcattgTttggttcagaaaggtccggc	13	10	12	6	1	2	2	2	0	0	2	3	3	3	2	1	4	0	3	1	4	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:247012967T>C	uc001ibu.1	-	32	6348	c.6341A>G	c.(6340-6342)AAC>AGC	p.N2114S	AHCTF1_uc001ibv.1_Missense_Mutation_p.N2123S|AHCTF1_uc009xgs.1_Missense_Mutation_p.N975S|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	2114	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			AGGCTCATTGTTTGGTTCAGA	0.458													51	116					0	0	0.01441	0	0		C	247012967	C	C	247012967	3	2	19	1	0	0	0	0	1	0	0	0	408	1725	60	3	475	3	AHCTF1	1	247012967	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1165362	247012967	2237654	283	13796											
NLRP3	114548	broad.mit.edu	37	chr1	247599444	247599444	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaacctgcagaaactggggTaagtcttcatgggtgtctta	10	12	12	7	0	3	1	1	0	2	1	3	1	3	1	1	3	3	3	1	3	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:247599444T>C	uc001icr.2	+	8	2807	c.2669_splice	c.e8+2	p.G890_splice	NLRP3_uc001ics.2_Intron|NLRP3_uc001icu.2_Splice_Site_p.G890_splice|NLRP3_uc001icw.2_Splice_Site_p.G833_splice|NLRP3_uc001icv.2_Intron|NLRP3_uc010pyw.1_Splice_Site_p.G868_splice	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a						detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			GAAACTGGGGTAAGTCTTCAT	0.453													15	37					0	0	0.00499	0	0		C	247599444	C	C	247599444	5	2	19	1	0	0	0	0	0	0	1	0	10497	1652	57	3	2693	3	NLRP3	1	247599444	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	586477	247599444	1651177	284	13797											
OR2W5	441932	broad.mit.edu	37	chr1	247655201	247655201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctacggaaccatcatctaCgtgtacctgaagccggccaa	11	9	8	13	3	3	1	1	1	2	0	3	2	3	2	4	2	5	1	4	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:247655201C>T	uc001icz.1	+	1	772	c.772C>T	c.(772-774)CGT>TGT	p.R258C		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	258					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CCATCATCTACGTGTACCTGA	0.532													61	110					0	0	0.01441	0	0		T	247655201	T	T	247655201	3	4	19	1	0	0	0	0	1	0	0	0	11053	536	19	1	774	1	OR2W5	1	247655201	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	55757	247655201	1595420	285	13798											
TPO	7173	broad.mit.edu	37	chr2	1480977	1480977	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctgtccacggccaacccGcggcagcagatgaacgggtt	10	5	12	14	4	0	2	0	1	0	1	1	2	1	2	4	3	4	3	4	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:1480977G>A	uc002qww.2	+	8	1030	c.939G>A	c.(937-939)CCG>CCA	p.P313P	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Silent_p.P313P|TPO_uc002qwr.2_Silent_p.P313P|TPO_uc002qwx.2_Silent_p.P313P|TPO_uc010yio.1_Intron|TPO_uc010yip.1_Silent_p.P313P	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	313	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CGGCCAACCCGCGGCAGCAGA	0.697													7	9					0	0	0.004482	0	0		A	1480977	A	A	1480977	2	1	19	1	0	0	0	0	0	0	0	1	16436	1074	38	1		1	TPO	2	1480977	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08		1480977	241718396	286	13799											
MYT1L	23040	broad.mit.edu	37	chr2	1890312	1890312	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgtcattaaatcttactTgagttcttgggagctggtgg	8	17	11	5	0	3	1	1	1	2	0	3	2	3	2	0	3	2	2	0	3	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:1890312T>C	uc002qxe.2	-	18	3537	c.2710A>G	c.(2710-2712)AAG>GAG	p.K904E	MYT1L_uc002qxd.2_Missense_Mutation_p.K902E|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	904	C2HC-type 4.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		AAATCTTACTTGAGTTCTTGG	0.418													15	38					0	0	0.004007	0	0		C	1890312	C	C	1890312	3	2	19	1	0	0	0	0	1	0	0	0	10125	1826	63	3	882	3	MYT1L	2	1890312	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	409335	1890312	241309061	287	13800											
MYT1L	23040	broad.mit.edu	37	chr2	1926086	1926086	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tagtatggctttttgacatgGctgtcactggatttaggctt	7	17	11	6	0	1	1	1	1	0	0	1	2	1	2	0	4	0	4	0	4	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:1926086G>A	uc002qxe.2	-	10	2282	c.1455C>T	c.(1453-1455)AGC>AGT	p.S485S	MYT1L_uc002qxd.2_Silent_p.S485S|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	485					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		TTTTGACATGGCTGTCACTGG	0.463													39	58					0	0	0.00623	0	0		A	1926086	A	A	1926086	2	1	19	1	0	0	0	0	0	0	0	1	10125	1194	42	2		2	MYT1L	2	1926086	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	35774	1926086	241273287	288	13801											
TSSC1	7260	broad.mit.edu	37	chr2	3197842	3197842	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaacttcaccttacagTcgtctccgcagctggccaag	9	8	8	16	2	2	1	1	0	1	1	4	1	2	1	4	1	3	2	4	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:3197842T>C	uc002qxj.2	-	7	942	c.749A>G	c.(748-750)GAC>GGC	p.D250G	TSSC1_uc002qxi.2_RNA	NM_003310	NP_003301	Q53HC9	TSSC1_HUMAN	tumor suppressing subtransferable candidate 1	250	WD 3.						protein binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.212)		OV - Ovarian serous cystadenocarcinoma(76;0.00877)|Epithelial(75;0.0283)|all cancers(51;0.0464)		CACCTTACAGTCGTCTCCGCA	0.567													10	121					0	0	0.008291	0	0		C	3197842	C	C	3197842	3	2	19	1	0	0	0	0	1	0	0	0	16692	1667	58	3	426	3	TSSC1	2	3197842	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1271756	3197842	240001531	289	13802											
SOX11	6664	broad.mit.edu	37	chr2	5833227	5833227	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggccccggaaaaagcccaAaatggacccctcggccaagc	12	2	10	17	3	0	0	0	0	0	0	1	2	0	2	7	4	2	0	7	4	5	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:5833227A>G	uc002qyj.2	+	1	429	c.374A>G	c.(373-375)AAA>AGA	p.K125R		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	125					cardiac ventricle formation|closure of optic fissure|cornea development in camera-type eye|embryonic digestive tract morphogenesis|embryonic skeletal system morphogenesis|eyelid development in camera-type eye|glial cell proliferation|hard palate development|lens morphogenesis in camera-type eye|limb bud formation|lung morphogenesis|negative regulation of cell death|negative regulation of glial cell proliferation|negative regulation of lymphocyte proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|neural crest cell development|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|outflow tract morphogenesis|positive regulation of BMP signaling pathway|positive regulation of hippo signaling cascade|positive regulation of hormone secretion|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of ossification|positive regulation of osteoblast differentiation|positive regulation of stem cell proliferation|regulation of transforming growth factor beta receptor signaling pathway|signal transduction involved in G1/S transition checkpoint|soft palate development|somite development|spinal cord development|sympathetic nervous system development|ventricular septum morphogenesis	cytoplasm|nucleolus	enhancer sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			OV - Ovarian serous cystadenocarcinoma(76;0.132)		AAAAAGCCCAAAATGGACCCC	0.488													3	30					0	0	0.004672	0	0		G	5833227	G	G	5833227	3	3	19	1	0	0	0	0	1	0	0	0	14967	14	1	3	376	3	SOX11	2	5833227	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2635385	5833227	237366146	290	13803											
KIDINS220	57498	broad.mit.edu	37	chr2	8926386	8926386	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaagcctggttgccaaaaagCcaaactctctttcacaagca	15	8	6	12	0	2	0	1	0	1	0	3	0	2	0	3	1	5	2	3	1	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:8926386C>A	uc002qzc.2	-	16	2071	c.1889G>T	c.(1888-1890)GGC>GTC	p.G630V	KIDINS220_uc010yiv.1_Missense_Mutation_p.G396V|KIDINS220_uc002qzd.2_Missense_Mutation_p.G588V|KIDINS220_uc010yiw.1_Missense_Mutation_p.G631V	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	630	Cytoplasmic (Potential).|KAP NTPase.				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TGCCAAAAAGCCAAACTCTCT	0.433													68	160					3.19358e-47	3.43822e-47	0.01441	1	0		A	8926386	A	A	8926386	3	1	19	1	0	0	0	0	1	0	0	0	8287	739	26	5	3486	5	KIDINS220	2	8926386	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3093159	8926386	234272987	291	13804											
IAH1	285148	broad.mit.edu	37	chr2	9618462	9618462	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggacatcccagtagcagtTacaattttctttggggccaa	10	13	9	9	0	1	0	0	0	1	0	2	1	2	1	2	3	2	3	2	3	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:9618462T>C	uc002qzr.2	+	3	272	c.246T>C	c.(244-246)GTT>GTC	p.V82V	IAH1_uc002qzs.2_5'UTR|IAH1_uc002qzt.2_5'UTR|IAH1_uc010yiz.1_RNA	NM_001039613	NP_001034702	Q2TAA2	IAH1_HUMAN	isoamyl acetate-hydrolyzing esterase 1 homolog	82					lipid catabolic process		hydrolase activity, acting on ester bonds				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					CAGTAGCAGTTACAATTTTCT	0.368													4	143					0	0	0.009096	0	0		C	9618462	C	C	9618462	2	2	19	1	0	0	0	0	0	0	0	1	7487	1741	61	3		3	IAH1	2	9618462	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	692076	9618462	233580911	292	13805											
ADAM17	6868	broad.mit.edu	37	chr2	9683306	9683306	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaagctgaaaaagttagtAgtgtttctacatgtgttgaa	14	14	9	4	0	2	2	1	2	1	0	2	2	2	2	0	0	2	5	0	0	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:9683306A>G	uc002qzu.2	-	2	389	c.206T>C	c.(205-207)CTA>CCA	p.L69P	ADAM17_uc010ewy.2_Missense_Mutation_p.L69P|ADAM17_uc010ewz.2_Intron|ADAM17_uc010exb.1_Missense_Mutation_p.L69P|ADAM17_uc002qzv.2_Missense_Mutation_p.L69P	NM_003183	NP_003174	P78536	ADA17_HUMAN	a disintegrin and metalloprotease domain 17	69					B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			lung(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)		AAAAGTTAGTAGTGTTTCTAC	0.363													8	122					0	0	0.00308	0	0		G	9683306	G	G	9683306	3	3	19	1	0	0	0	0	1	0	0	0	238	420	15	3	2340	3	ADAM17	2	9683306	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	64844	9683306	233516067	293	13806											
HPCAL1	3241	broad.mit.edu	37	chr2	10560015	10560015	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccaccggccacctgacCgtggacgagttcaagaagat	10	6	11	14	3	1	3	1	1	0	2	1	5	1	4	6	2	1	1	6	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:10560015C>T	uc002raj.2	+	3	506	c.132C>T	c.(130-132)ACC>ACT	p.T44T	HPCAL1_uc002rak.2_Silent_p.T44T|HPCAL1_uc002ral.2_Silent_p.T44T|HPCAL1_uc010exe.2_RNA|HPCAL1_uc010exf.2_Silent_p.T44T	NM_002149	NP_002140	P37235	HPCL1_HUMAN	hippocalcin-like 1	44	EF-hand 1.						calcium ion binding			pancreas(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.214)		GCCACCTGACCGTGGACGAGT	0.617													15	34					0	0	0.006122	0	0		T	10560015	T	T	10560015	2	4	19	1	0	0	0	0	0	0	0	1	7346	639	23	1		1	HPCAL1	2	10560015	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	876709	10560015	232639358	294	13807											
HPCAL1	3241	broad.mit.edu	37	chr2	10560033	10560033	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accgtggacgagttcaagaaGatctacgccaacttcttccc	11	9	8	13	3	3	2	1	0	2	2	4	4	4	3	3	1	2	1	3	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:10560033G>A	uc002raj.2	+	3	524	c.150G>A	c.(148-150)AAG>AAA	p.K50K	HPCAL1_uc002rak.2_Silent_p.K50K|HPCAL1_uc002ral.2_Silent_p.K50K|HPCAL1_uc010exe.2_RNA|HPCAL1_uc010exf.2_Silent_p.K50K	NM_002149	NP_002140	P37235	HPCL1_HUMAN	hippocalcin-like 1	50	EF-hand 1.						calcium ion binding			pancreas(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.214)		AGTTCAAGAAGATCTACGCCA	0.617													16	38					0	0	0.007413	0	0		A	10560033	A	A	10560033	2	1	19	1	0	0	0	0	0	0	0	1	7346	933	33	4		4	HPCAL1	2	10560033	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	18	10560033	232639340	295	13808											
PQLC3	130814	broad.mit.edu	37	chr2	11317897	11317897	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatcatgctggctttaaaTatatgggtaacagtgacagt	12	13	11	5	0	1	2	1	2	0	0	1	2	1	2	0	2	2	3	0	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:11317897T>C	uc002rbc.2	+	7	685	c.552T>C	c.(550-552)AAT>AAC	p.N184N	PQLC3_uc010yjk.1_Silent_p.N170N	NM_152391	NP_689604	Q8N755	PQLC3_HUMAN	PQ loop repeat containing 3 precursor	184	Helical; (Potential).					integral to membrane					0	all_hematologic(175;0.0797)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.0978)|OV - Ovarian serous cystadenocarcinoma(76;0.132)		TGGCTTTAAATATATGGGTAA	0.368													3	99					0	0	0.004672	0	0		C	11317897	C	C	11317897	2	2	19	1	0	0	0	0	0	0	0	1	12442	1403	49	3		3	PQLC3	2	11317897	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	757864	11317897	231881476	296	13809											
NBAS	51594	broad.mit.edu	37	chr2	15468396	15468396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtttctctagatcttcattgGctgtagttccgatttgatat	7	19	8	7	1	3	2	1	1	2	1	5	3	4	2	1	1	0	4	1	1	3	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:15468396G>A	uc002rcc.1	-	37	4414	c.4388C>T	c.(4387-4389)GCC>GTC	p.A1463V	NBAS_uc010exl.1_Missense_Mutation_p.A535V|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1463										ovary(2)|liver(1)|skin(1)	4						ATCTTCATTGGCTGTAGTTCC	0.303													7	270					0	0	0.004482	0	0		A	15468396	A	A	15468396	3	1	19	1	0	0	0	0	1	0	0	0	10204	1203	42	2	2791	2	NBAS	2	15468396	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4150499	15468396	227730977	297	13810											
DDX1	1653	broad.mit.edu	37	chr2	15743351	15743351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtatcctgtcatgaccaaGggttatgcagggtcgggtgg	9	10	15	7	1	1	1	1	1	0	0	3	1	2	1	2	4	1	3	2	4	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:15743351G>A	uc002rce.2	+	8	715	c.427G>A	c.(427-429)GGG>AGG	p.G143R	DDX1_uc010yjq.1_Missense_Mutation_p.G51R	NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	143	B30.2/SPRY.|Necessary for interaction with HNRNPK.|Necessary for interaction with RELA.|Helicase ATP-binding.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		TCATGACCAAGGGTTATGCAG	0.388													4	40					0	0	0.000602	0	0		A	15743351	A	A	15743351	3	1	19	1	0	0	0	0	1	0	0	0	4344	1000	35	4	457	4	DDX1	2	15743351	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	274955	15743351	227456022	298	13811											
FAM49A	81553	broad.mit.edu	37	chr2	16742786	16742786	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagctgaagtcattctgaaTagccgggttcctcatctgaa	10	12	10	9	1	4	3	2	3	2	0	5	3	5	3	2	1	2	3	2	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:16742786T>C	uc010exm.1	-	6	599	c.451A>G	c.(451-453)ATT>GTT	p.I151V	FAM49A_uc002rck.1_Missense_Mutation_p.I151V	NM_030797	NP_110424	Q9H0Q0	FA49A_HUMAN	family with sequence similarity 49, member A	151						intracellular					0	Acute lymphoblastic leukemia(172;0.0734)|all_hematologic(175;0.088)		GBM - Glioblastoma multiforme(3;0.00969)			TCATTCTGAATAGCCGGGTTC	0.483													16	51					0	0	0.00499	0	0		C	16742786	C	C	16742786	3	2	19	1	0	0	0	0	1	0	0	0	5589	1406	49	3	544	3	FAM49A	2	16742786	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	999435	16742786	226456587	299	13812											
PUM2	23369	broad.mit.edu	37	chr2	20453706	20453706	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggaccatcattctggcaGcaaacctcgtcaatcagtaa	13	9	8	11	1	4	1	3	1	1	0	5	2	4	2	2	2	2	3	2	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:20453706G>T	uc002rds.1	-	19	2963	c.2940C>A	c.(2938-2940)TGC>TGA	p.C980*	PUM2_uc002rdq.1_Nonsense_Mutation_p.C359*|PUM2_uc002rdt.1_Nonsense_Mutation_p.C980*|PUM2_uc002rdr.2_Nonsense_Mutation_p.C840*|PUM2_uc010yjy.1_Nonsense_Mutation_p.C901*|PUM2_uc002rdu.1_Nonsense_Mutation_p.C980*|PUM2_uc010yjz.1_Nonsense_Mutation_p.C919*	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2	982	PUM-HD.				regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CATTCTGGCAGCAAACCTCGT	0.418													70	133					2.165e-29	2.32192e-29	0.01441	1	0		T	20453706	T	T	20453706	4	4	19	1	0	0	0	0	0	1	0	0	12851	963	34	5	262	5	PUM2	2	20453706	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3710920	20453706	222745667	300	13813											
HS1BP3	64342	broad.mit.edu	37	chr2	20845123	20845123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaactggacgacatcctcggGcctgtgcttggccgacttga	7	9	13	12	3	0	1	0	1	0	0	2	5	1	2	3	3	2	1	3	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:20845123G>A	uc002rdw.1	-	2	216	c.175C>T	c.(175-177)CCC>TCC	p.P59S	HS1BP3_uc002rdx.2_Missense_Mutation_p.P59S|HS1BP3_uc002rdy.2_Missense_Mutation_p.P59S	NM_022460	NP_071905	Q53T59	H1BP3_HUMAN	HCLS1 binding protein 3	59	PX.				cell communication		phosphatidylinositol binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACATCCTCGGGCCTGTGCTTG	0.642													34	65					0	0	0.004289	0	0		A	20845123	A	A	20845123	3	1	19	1	0	0	0	0	1	0	0	0	7377	1203	42	2	1027	2	HS1BP3	2	20845123	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	391417	20845123	222354250	301	13814											
NCOA1	8648	broad.mit.edu	37	chr2	24929467	24929467	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctttctcctcaagatgaCactaattctggaatgtcaat	11	13	8	9	0	4	2	2	1	2	1	5	3	4	3	1	2	0	1	1	2	4	3	rs142572701		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:24929467C>A	uc002rfk.2	+	11	1386	c.1128C>A	c.(1126-1128)GAC>GAA	p.D376E	NCOA1_uc010eye.2_Missense_Mutation_p.D376E|NCOA1_uc002rfi.2_Missense_Mutation_p.D225E|NCOA1_uc002rfj.2_Missense_Mutation_p.D376E|NCOA1_uc002rfl.2_Missense_Mutation_p.D376E	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	376	Interaction with STAT3.								PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTCAAGATGACACTAATTCTG	0.403			T	PAX3	alveolar rhadomyosarcoma								18	54					2.4624e-09	2.57191e-09	0.008871	1	0		A	24929467	A	A	24929467	3	1	19	1	0	0	0	0	1	0	0	0	10247	477	17	5	1162	5	NCOA1	2	24929467	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4084344	24929467	218269906	302	13815											
KIF3C	3797	broad.mit.edu	37	chr2	26203675	26203675	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccttggggtcctcgttcAcctggggcttgttcttgatg	2	16	13	10	1	2	1	1	1	1	0	5	1	4	1	3	4	0	3	3	4	0	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:26203675A>G	uc002rgu.2	-	1	1769	c.1112T>C	c.(1111-1113)GTG>GCG	p.V371A	KIF3C_uc010eyj.1_RNA|KIF3C_uc010ykr.1_Missense_Mutation_p.V371A	NM_002254	NP_002245	O14782	KIF3C_HUMAN	kinesin family member 3C	371	Kinesin-motor.				blood coagulation|microtubule-based movement	cytosol|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTCCTCGTTCACCTGGGGCTT	0.602													23	55					0	0	0.008361	0	0		G	26203675	G	G	26203675	3	3	19	1	0	0	0	0	1	0	0	0	8318	159	6	3	1301	3	KIF3C	2	26203675	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1274208	26203675	216995698	303	13816											
AGBL5	60509	broad.mit.edu	37	chr2	27290410	27290410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcccctgaaccatcGtcctgcaggcagcctcgctc	7	6	10	18	2	0	1	0	1	0	0	4	1	1	1	5	1	5	5	5	1	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:27290410G>A	uc002rie.2	+	12	2355	c.2138G>A	c.(2137-2139)CGT>CAT	p.R713H	AGBL5_uc002rif.2_RNA	NM_021831	NP_068603	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5 isoform 1	713					protein branching point deglutamylation|proteolysis	cytosol|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGAACCATCGTCCTGCAGGC	0.562													42	91					0	0	0.01441	0	0		A	27290410	A	A	27290410	3	1	19	1	0	0	0	0	1	0	0	0	378	1145	40	1	2245	1	AGBL5	2	27290410	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1086735	27290410	215908963	304	13817											
SLC5A6	8884	broad.mit.edu	37	chr2	27426119	27426119	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaggcctctggaaagcaTgatggcccgggcttcagaga	11	6	13	11	1	2	2	1	1	1	1	2	4	2	3	3	4	1	2	3	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:27426119T>C	uc002rjd.2	-	11	1580	c.1189A>G	c.(1189-1191)ATG>GTG	p.M397V	SLC5A6_uc010eyv.1_Missense_Mutation_p.M397V	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	397	Helical; (Potential).				biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	CTGGAAAGCATGATGGCCCGG	0.463													3	75					0	0	0.009096	0	0		C	27426119	C	C	27426119	3	2	19	1	0	0	0	0	1	0	0	0	14694	1464	51	3	746	3	SLC5A6	2	27426119	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	135709	27426119	215773254	305	13818											
SLC30A3	7781	broad.mit.edu	37	chr2	27479689	27479689	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaagaacgtctcggagggTgggagcggtggatccaaggg	9	6	19	7	4	1	1	0	0	1	1	4	5	2	4	1	6	2	0	1	6	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:27479689T>C	uc002rjk.2	-	6	1036	c.850A>G	c.(850-852)ACC>GCC	p.T284A	SLC30A3_uc002rjj.2_Silent_p.P129P|SLC30A3_uc010ylh.1_Missense_Mutation_p.T279A	NM_003459	NP_003450	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter),	284	Helical; (Potential).				regulation of sequestering of zinc ion	cell junction|integral to plasma membrane|late endosome|membrane fraction|synaptic vesicle membrane	zinc transporting ATPase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCTCGGAGGGTGGGAGCGGTG	0.587													19	35					0	0	0.003954	0	0		C	27479689	C	C	27479689	3	2	19	1	0	0	0	0	1	0	0	0	14581	1696	59	3	328	3	SLC30A3	2	27479689	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	53570	27479689	215719684	306	13819											
SNX17	9784	broad.mit.edu	37	chr2	27599213	27599213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggggggtactctgagaCgctcagacagccagcaagca	10	5	16	10	1	2	2	1	1	1	2	2	3	2	2	1	4	4	4	1	4	2	1	rs144142186	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:27599213C>T	uc002rkg.1	+	13	1438	c.1216C>T	c.(1216-1218)CGC>TGC	p.R406C	SNX17_uc010ylj.1_Missense_Mutation_p.R386C|SNX17_uc010ylk.1_Missense_Mutation_p.R192C|SNX17_uc010eza.1_Missense_Mutation_p.R192C|SNX17_uc002rki.1_RNA|SNX17_uc002rkh.1_Missense_Mutation_p.R192C|SNX17_uc010yll.1_Missense_Mutation_p.R192C|SNX17_uc010ylm.1_Missense_Mutation_p.R192C|SNX17_uc010yln.1_Missense_Mutation_p.R394C|SNX17_uc010ylo.1_Missense_Mutation_p.R324C|SNX17_uc010ylp.1_Missense_Mutation_p.R381C|SNX17_uc010ylq.1_Missense_Mutation_p.R192C	NM_014748	NP_055563	Q15036	SNX17_HUMAN	sorting nexin 17	406					cell communication|endosome transport|intracellular protein transport|regulation of endocytosis|signal transduction	cytoplasmic vesicle membrane|cytosol|early endosome|Golgi apparatus	low-density lipoprotein particle receptor binding|phosphatidylinositol binding|protein C-terminus binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TACTCTGAGACGCTCAGACAG	0.607													31	63					0	0	0.012213	0	0		T	27599213	T	T	27599213	3	4	19	1	0	0	0	0	1	0	0	0	14913	536	19	1	1266	1	SNX17	2	27599213	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	119524	27599213	215600160	307	13820											
FNDC4	64838	broad.mit.edu	37	chr2	27715566	27715566	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggccttccctgaggactCtgttccggcccctttccctt	3	13	8	17	1	1	1	0	1	1	0	4	2	4	2	6	3	0	1	6	3	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:27715566C>A	uc002rkx.2	-	6	1042	c.636G>T	c.(634-636)CAG>CAT	p.Q212H	IFT172_uc002rku.2_5'Flank|IFT172_uc002rkw.2_5'Flank|IFT172_uc010yls.1_5'Flank|IFT172_uc010ezc.2_5'Flank|IFT172_uc002rkv.2_5'Flank|IFT172_uc010ylt.1_5'Flank	NM_022823	NP_073734	Q9H6D8	FNDC4_HUMAN	fibronectin type III domain containing 4	212	Cytoplasmic (Potential).					integral to membrane					0	Acute lymphoblastic leukemia(172;0.155)					CCTGAGGACTCTGTTCCGGCC	0.562													8	183					0.00448238	0.00455878	0.004482	1	0		A	27715566	A	A	27715566	3	1	19	1	0	0	0	0	1	0	0	0	5985	912	32	5	76	5	FNDC4	2	27715566	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	116353	27715566	215483807	308	13821											
RBKS	64080	broad.mit.edu	37	chr2	28050434	28050434	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttaaattttaaaacttacCgtggtatccacagccttgac	12	14	5	10	1	1	1	0	1	1	0	2	1	2	1	3	1	3	1	3	1	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:28050434C>T	uc002rlo.1	-	7	806	c.795G>A	c.(793-795)ACG>ACA	p.T265T	RBKS_uc010ezi.1_Silent_p.T198T|RBKS_uc010ymg.1_Silent_p.T265T	NM_022128	NP_071411	Q9H477	RBSK_HUMAN	ribokinase	265					D-ribose metabolic process		ATP binding|ribokinase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)					TAAAACTTACCGTGGTATCCA	0.383													33	74					0	0	0.009535	0	0		T	28050434	T	T	28050434	2	4	19	1	0	0	0	0	0	0	0	1	13133	666	23	1		1	RBKS	2	28050434	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	334868	28050434	215148939	309	13822											
PLB1	151056	broad.mit.edu	37	chr2	28801025	28801025	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacctgatgaagaatgacacGgtgggtccctgggatgggaa	11	7	16	7	1	0	4	0	3	0	1	1	7	1	6	2	4	0	0	2	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:28801025G>A	uc002rmb.1	+	22	1485	c.1485G>A	c.(1483-1485)ACG>ACA	p.T495T	PLB1_uc010ezj.1_Silent_p.T506T|PLB1_uc002rmc.2_Silent_p.T183T|PLB1_uc002rmd.1_Silent_p.T5T	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	495	4 X 308-326 AA approximate repeats.|2.|Extracellular (Potential).				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					AGAATGACACGGTGGGTCCCT	0.567													20	23					0	0	0.014323	0	0		A	28801025	A	A	28801025	2	1	19	1	0	0	0	0	0	0	0	1	12043	1130	39	1		1	PLB1	2	28801025	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	750591	28801025	214398348	310	13823											
SPDYA	245711	broad.mit.edu	37	chr2	29063182	29063182	+	Frame_Shift_Del	DEL	A	-	-																															tagattgttcactctgtggtAaaaaaagaagatatgttaga																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:29063182delA	uc002rmj.2	+	7	903	c.697delA	c.(697-699)AAAfs	p.K233fs	SPDYA_uc002rmi.2_Frame_Shift_Del_p.K233fs|SPDYA_uc002rmk.2_Frame_Shift_Del_p.K233fs|SPDYA_uc002rml.2_Frame_Shift_Del_p.K233fs	NM_182756	NP_877433	Q5MJ70	SPDYA_HUMAN	speedy homolog A isoform 1	233					G1/S transition of mitotic cell cycle|multicellular organismal development|positive regulation of cell proliferation|response to DNA damage stimulus	nucleus	protein kinase binding			upper_aerodigestive_tract(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					ACTCTGTGGTAAAAAAAGAAG	0.438													24	47	---	---	---	---						.	-	29063182	-	-	29063182	7	5	19	1	0	1	0	1	0	0	0	0	15052	363	13	0	715	0	SPDYA	2	29063182	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	262157	29063182	214136191	311	13824											
C2orf71	388939	broad.mit.edu	37	chr2	29296327	29296327	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtactgtagcagctgttgCaggagatttggctgctcctg	6	13	14	8	0	0	1	0	0	0	1	1	2	1	1	1	2	5	8	1	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:29296327C>T	uc002rmt.1	-	1	801	c.801G>A	c.(799-801)CTG>CTA	p.L267L		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	267					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						GCAGCTGTTGCAGGAGATTTG	0.582													44	76					0	0	0.01441	0	0		T	29296327	T	T	29296327	2	4	19	1	0	0	0	0	0	0	0	1	2194	697	25	2		2	C2orf71	2	29296327	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	233145	29296327	213903046	312	13825											
LCLAT1	253558	broad.mit.edu	37	chr2	30748623	30748623	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggctcaccctacctgtggTaagttacacaccagaggaga	12	8	10	11	0	1	2	1	0	0	2	1	3	1	2	3	3	2	3	3	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:30748623T>C	uc002rnj.2	+	3	488	c.279_splice	c.e3+2	p.V93_splice	LCLAT1_uc010ymp.1_Intron|LCLAT1_uc002rnk.1_Splice_Site_p.V93_splice|LCLAT1_uc002rnl.2_Splice_Site_p.V55_splice|LCLAT1_uc010ymq.1_Splice_Site_p.V55_splice	NM_182551	NP_872357	Q6UWP7	LCLT1_HUMAN	lysocardiolipin acyltransferase 1 isoform 1						multicellular organismal development|phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			ovary(2)	2						CTACCTGTGGTAAGTTACACA	0.358													30	69					0	0	0.012213	0	0		C	30748623	C	C	30748623	5	2	19	1	0	0	0	0	0	0	1	0	8693	1652	57	3	287	3	LCLAT1	2	30748623	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1452296	30748623	212450750	313	13826											
XDH	7498	broad.mit.edu	37	chr2	31588901	31588901	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgggtctccttgcctccAaagcctcctcccattctctt	4	13	5	19	1	2	0	0	0	2	0	8	0	6	0	7	1	2	0	7	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:31588901A>G	uc002rnv.1	-	22	2476	c.2397T>C	c.(2395-2397)TTT>TTC	p.F799F		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	799		Molybdenum; via carbonyl oxygen.			purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	CCTTGCCTCCAAAGCCTCCTC	0.532													36	90					0	0	0.004878	0	0		G	31588901	G	G	31588901	2	3	19	1	0	0	0	0	0	0	0	1	17452	127	5	3		3	XDH	2	31588901	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	840278	31588901	211610472	314	13827											
NLRC4	58484	broad.mit.edu	37	chr2	32449783	32449783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgctcacacgatttcccGccaaattcaactgctggaag	11	9	7	14	2	2	0	2	0	0	0	3	2	3	1	2	1	3	2	2	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:32449783G>A	uc002roi.2	-	9	3080	c.2834C>T	c.(2833-2835)GCG>GTG	p.A945V	NLRC4_uc002roj.1_Missense_Mutation_p.A945V|NLRC4_uc010ezt.1_Missense_Mutation_p.A280V	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	945	LRR 12.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					ACGATTTCCCGCCAAATTCAA	0.338													23	66					0	0	0.005443	0	0		A	32449783	A	A	32449783	3	1	19	1	0	0	0	0	1	0	0	0	10488	1087	38	1	244	1	NLRC4	2	32449783	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	860882	32449783	210749590	315	13828											
LTBP1	4052	broad.mit.edu	37	chr2	33623566	33623566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagccaaactactgcactcCgttgaataccgccttgaatt	12	10	6	13	2	0	2	0	2	0	0	1	2	1	2	4	0	5	2	4	0	6	5	rs141171373	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:33623566C>T	uc002ros.2	+	34	5123	c.5123C>T	c.(5122-5124)CCG>CTG	p.P1708L	LTBP1_uc002rot.2_Missense_Mutation_p.P1382L|LTBP1_uc002rou.2_Missense_Mutation_p.P1381L|LTBP1_uc002rov.2_Missense_Mutation_p.P1328L|LTBP1_uc010ymz.1_Missense_Mutation_p.P1339L|LTBP1_uc010yna.1_Missense_Mutation_p.P1286L|LTBP1_uc010ynb.1_Missense_Mutation_p.P605L	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1707					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				TACTGCACTCCGTTGAATACC	0.453													7	74					0	0	0.00308	0	0		T	33623566	T	T	33623566	3	4	19	1	0	0	0	0	1	0	0	0	9091	652	23	1	5309	1	LTBP1	2	33623566	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1173783	33623566	209575807	316	13829											
EIF2AK2	5610	broad.mit.edu	37	chr2	37347136	37347136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattaatttttttgaatgtAtataatccaccccttttgtt	11	20	4	6	0	0	1	0	1	0	0	1	2	1	1	3	0	0	2	3	0	6	10			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:37347136A>G	uc010ynh.1	-	13	1771	c.1214T>C	c.(1213-1215)ATA>ACA	p.I405T	EIF2AK2_uc010fab.1_Missense_Mutation_p.I364T|EIF2AK2_uc010yng.1_Missense_Mutation_p.I405T|EIF2AK2_uc010fac.2_Missense_Mutation_p.I405T|EIF2AK2_uc010fad.2_Missense_Mutation_p.I352T	NM_002759	NP_002750	P19525	E2AK2_HUMAN	eukaryotic translation initiation factor 2-alpha	405	Protein kinase.				evasion by virus of host immune response|modulation by virus of host cellular process|negative regulation of osteoblast proliferation|protein autophosphorylation|response to virus|viral infectious cycle	cytosol	ATP binding|double-stranded RNA binding|eukaryotic translation initiation factor 2alpha kinase activity|protein binding|protein phosphatase type 2A regulator activity			ovary(2)|lung(2)|pancreas(1)	5		all_hematologic(82;0.248)				TTTTGAATGTATATAATCCAC	0.264													7	61					0	0	0.001984	0	0		G	37347136	G	G	37347136	3	3	19	1	0	0	0	0	1	0	0	0	5003	449	16	3	461	3	EIF2AK2	2	37347136	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3723570	37347136	205852237	317	13830											
SLC8A1	6546	broad.mit.edu	37	chr2	40656492	40656492	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccctctcatccacctccAgaaccagagcaccatctaag	11	7	6	17	0	2	2	1	0	2	2	6	2	5	2	6	1	2	1	6	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:40656492A>G	uc002rrx.2	-	1	953	c.929T>C	c.(928-930)CTG>CCG	p.L310P	SLC8A1_uc002rry.2_Missense_Mutation_p.L310P|SLC8A1_uc002rrz.2_Missense_Mutation_p.L310P|SLC8A1_uc002rsa.2_Missense_Mutation_p.L310P|SLC8A1_uc002rsd.3_Missense_Mutation_p.L310P|SLC8A1_uc002rsb.1_Missense_Mutation_p.L310P|SLC8A1_uc010fan.1_Missense_Mutation_p.L310P|SLC8A1_uc002rsc.1_Missense_Mutation_p.L310P	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	310	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	ATCCACCTCCAGAACCAGAGC	0.428													81	211					0	0	0.01441	0	0		G	40656492	G	G	40656492	3	3	19	1	0	0	0	0	1	0	0	0	14731	188	7	3	2140	3	SLC8A1	2	40656492	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3309356	40656492	202542881	318	13831											
THADA	63892	broad.mit.edu	37	chr2	43808916	43808916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaaaaatactcagcaatcCacacatattttgccatatgg	15	11	6	9	0	1	0	1	0	0	0	2	0	2	0	2	2	3	2	2	2	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:43808916C>T	uc002rsw.3	-	8	1037	c.685G>A	c.(685-687)GGA>AGA	p.G229R	THADA_uc002rsx.3_Missense_Mutation_p.G229R|THADA_uc002rsy.3_RNA|THADA_uc002rsz.2_5'UTR|THADA_uc002rta.2_5'UTR|THADA_uc002rtb.1_Missense_Mutation_p.G229R|THADA_uc002rtc.3_Missense_Mutation_p.G229R|THADA_uc002rtd.2_Missense_Mutation_p.G229R	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	229							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				CTCAGCAATCCACACATATTT	0.338													5	65					0	0	0.001168	0	0		T	43808916	T	T	43808916	3	4	19	1	0	0	0	0	1	0	0	0	15865	603	21	4	5300	4	THADA	2	43808916	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3152424	43808916	199390457	319	13832											
THADA	63892	broad.mit.edu	37	chr2	43813540	43813540	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaacatatagcacttgcCtattttcttccaggatttca	10	15	5	11	0	2	0	1	0	1	0	3	1	3	1	3	1	4	1	3	1	4	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:43813540C>A	uc002rsw.3	-	7	885	c.533G>T	c.(532-534)AGA>ATA	p.R178I	THADA_uc002rsx.3_Missense_Mutation_p.R178I|THADA_uc002rsy.3_RNA|THADA_uc002rsz.2_5'UTR|THADA_uc002rta.2_5'UTR|THADA_uc002rtb.1_Missense_Mutation_p.R178I|THADA_uc002rtc.3_Missense_Mutation_p.R178I|THADA_uc002rtd.2_Missense_Mutation_p.R178I	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	178							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				TAGCACTTGCCTATTTTCTTC	0.313													4	6					1.23904e-05	1.27368e-05	0.000602	1	0		A	43813540	A	A	43813540	3	1	19	1	0	0	0	0	1	0	0	0	15865	695	24	5	5456	5	THADA	2	43813540	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4624	43813540	199385833	320	13833											
PPM1B	5495	broad.mit.edu	37	chr2	44428693	44428693	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattgatgaatacatgcgtAacttttcagacctcagaaac	16	11	6	8	1	2	4	2	2	0	2	2	4	2	4	1	0	4	1	1	0	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:44428693A>G	uc002rtt.2	+	2	783	c.355A>G	c.(355-357)AAC>GAC	p.N119D	PPM1B_uc002rts.2_Missense_Mutation_p.N119D|PPM1B_uc002rtu.2_Missense_Mutation_p.N119D|PPM1B_uc002rtv.2_Intron|PPM1B_uc002rtw.2_Missense_Mutation_p.N119D|PPM1B_uc002rtx.2_Missense_Mutation_p.N119D	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	119					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				ATACATGCGTAACTTTTCAGA	0.403													13	116					0	0	0.001855	0	0		G	44428693	G	G	44428693	3	3	19	1	0	0	0	0	1	0	0	0	12358	362	13	3	357	3	PPM1B	2	44428693	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	615153	44428693	198770680	321	13834											
PPM1B	5495	broad.mit.edu	37	chr2	44428717	44428717	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagacctcagaaacgggAtggacaggagtggttcaact	12	9	12	8	1	3	2	3	0	0	2	3	5	3	5	1	4	2	1	1	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:44428717A>G	uc002rtt.2	+	2	807	c.379A>G	c.(379-381)ATG>GTG	p.M127V	PPM1B_uc002rts.2_Missense_Mutation_p.M127V|PPM1B_uc002rtu.2_Missense_Mutation_p.M127V|PPM1B_uc002rtv.2_Intron|PPM1B_uc002rtw.2_Missense_Mutation_p.M127V|PPM1B_uc002rtx.2_Missense_Mutation_p.M127V	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	127					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CAGAAACGGGATGGACAGGAG	0.398													53	84					0	0	0.01441	0	0		G	44428717	G	G	44428717	3	3	19	1	0	0	0	0	1	0	0	0	12358	333	12	3	381	3	PPM1B	2	44428717	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	24	44428717	198770656	322	13835											
PPM1B	5495	broad.mit.edu	37	chr2	44436356	44436356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttaatacacagggaagtcGagataacatgagtattgtac	15	11	9	6	1	0	2	0	1	0	1	1	4	0	3	0	1	3	2	0	1	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:44436356G>A	uc002rtt.2	+	3	1282	c.854G>A	c.(853-855)CGA>CAA	p.R285Q	PPM1B_uc002rts.2_Missense_Mutation_p.R285Q|PPM1B_uc002rtu.2_Missense_Mutation_p.R285Q|PPM1B_uc002rtv.2_5'UTR|PPM1B_uc002rtw.2_Missense_Mutation_p.R285Q|PPM1B_uc002rtx.2_Missense_Mutation_p.R285Q	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	285					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CAGGGAAGTCGAGATAACATG	0.294													25	65					0	0	0.00333	0	0		A	44436356	A	A	44436356	3	1	19	1	0	0	0	0	1	0	0	0	12358	1058	37	1	860	1	PPM1B	2	44436356	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	7639	44436356	198763017	323	13836											
SIX3	6496	broad.mit.edu	37	chr2	45169356	45169356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagcggcggcgggaacggtgCgggaggcggcggcggcgcgg	4	2	25	10	10	0	0	0	0	0	0	0	2	0	2	0	10	3	0	0	10	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:45169356C>T	uc002run.1	+	1	320	c.113C>T	c.(112-114)GCG>GTG	p.A38V		NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3	38	Poly-Gly.				visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				gggaacggtgcgggaggcggc	0.239													15	29					0	0	0.00499	0	0		T	45169356	T	T	45169356	3	4	19	1	0	0	0	0	1	0	0	0	14373	768	27	1	115	1	SIX3	2	45169356	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	733000	45169356	198030017	324	13837											
PRKCE	5581	broad.mit.edu	37	chr2	46378314	46378314	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgagtccatcctccatgaCgacgtgctgtacccagtctg	7	12	9	13	2	1	2	0	2	1	0	4	3	4	2	4	0	2	2	4	0	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:46378314C>T	uc002rut.2	+	13	2063	c.1866C>T	c.(1864-1866)GAC>GAT	p.D622D		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	622	Protein kinase.				activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			TCCTCCATGACGACGTGCTGT	0.587													16	43					0	0	0.00499	0	0		T	46378314	T	T	46378314	2	4	19	1	0	0	0	0	0	0	0	1	12533	535	19	1		1	PRKCE	2	46378314	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1208958	46378314	196821059	325	13838											
EPAS1	2034	broad.mit.edu	37	chr2	46574037	46574037	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcggagaggaggaaggagAagtcccgggatgctgcgcgg	9	4	20	8	4	0	2	0	0	0	2	2	7	1	5	1	6	2	2	1	6	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:46574037A>G	uc002ruv.2	+	2	540	c.52A>G	c.(52-54)AAG>GAG	p.K18E		NM_001430	NP_001421	Q99814	EPAS1_HUMAN	endothelial PAS domain protein 1	18	Basic motif.				angiogenesis|myoblast cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|response to hypoxia	transcription factor complex	histone acetyltransferase binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription coactivator activity|transcription factor binding			ovary(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	LUSC - Lung squamous cell carcinoma(58;0.151)			GAGGAAGGAGAAGTCCCGGGA	0.592													20	41					0	0	0.007291	0	0		G	46574037	G	G	46574037	3	3	19	1	0	0	0	0	1	0	0	0	5158	247	9	3	58	3	EPAS1	2	46574037	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	195723	46574037	196625336	326	13839											
MSH6	2956	broad.mit.edu	37	chr2	48026471	48026471	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcagtgaactggggctggTattcatgaaaggcaactggg	11	9	15	6	0	2	2	2	2	0	0	2	2	2	2	0	5	2	3	0	5	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:48026471T>C	uc002rwd.3	+	4	1501	c.1349T>C	c.(1348-1350)GTA>GCA	p.V450A	MSH6_uc002rwc.2_Missense_Mutation_p.V450A|MSH6_uc010fbj.2_Missense_Mutation_p.V148A|MSH6_uc010yoi.1_Missense_Mutation_p.V320A|MSH6_uc010yoj.1_Missense_Mutation_p.V148A	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	450					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CTGGGGCTGGTATTCATGAAA	0.453			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				35	61					0	0	0.004289	0	0		C	48026471	C	C	48026471	3	2	19	1	0	0	0	0	1	0	0	0	9892	1638	57	3	1363	3	MSH6	2	48026471	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1452434	48026471	195172902	327	13840											
MSH6	2956	broad.mit.edu	37	chr2	48026560	48026560	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtgcagaagggctataaaGtagcacgagtggaacagact	14	7	14	6	1	0	2	0	0	0	2	0	4	0	3	0	3	3	4	0	3	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:48026560G>C	uc002rwd.3	+	4	1590	c.1438G>C	c.(1438-1440)GTA>CTA	p.V480L	MSH6_uc002rwc.2_Missense_Mutation_p.V480L|MSH6_uc010fbj.2_Missense_Mutation_p.V178L|MSH6_uc010yoi.1_Missense_Mutation_p.V350L|MSH6_uc010yoj.1_Missense_Mutation_p.V178L	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	480					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding	p.V480L(1)		large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GGGCTATAAAGTAGCACGAGT	0.473			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				32	51					0	0	0.013726	0	0		C	48026560	C	C	48026560	3	2	19	1	0	0	0	0	1	0	0	0	9892	1029	36	5	1452	5	MSH6	2	48026560	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	89	48026560	195172813	328	13841											
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48809378	48809378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgaagtctgtagtggttGtccagggagcatacgtggaa	9	11	14	7	1	1	1	0	1	1	0	2	3	2	3	2	3	2	3	2	3	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:48809378G>A	uc010yol.1	+	1	1653	c.1606G>A	c.(1606-1608)GTC>ATC	p.V536I	STON1_uc002rwo.3_Missense_Mutation_p.V536I|STON1_uc010fbm.2_Missense_Mutation_p.V536I|STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.V536I|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Missense_Mutation_p.V536I	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	536					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TGTAGTGGTTGTCCAGGGAGC	0.463													49	110					0	0	0.01441	0	0		A	48809378	A	A	48809378	3	1	19	1	0	0	0	0	1	0	0	0	15342	1377	48	4	1608	4	STON1-GTF2A1L	2	48809378	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	782818	48809378	194389995	329	13842											
FSHR	2492	broad.mit.edu	37	chr2	49190590	49190590	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatagctgtcagagtgtagActgacagctcactggcaaag	12	9	12	8	0	2	4	2	2	0	2	2	4	2	4	0	1	2	4	0	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:49190590A>G	uc002rww.2	-	10	1444	c.1370T>C	c.(1369-1371)GTC>GCC	p.V457A	FSHR_uc002rwx.2_Missense_Mutation_p.V395A|FSHR_uc010fbn.2_Missense_Mutation_p.V431A	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	457	Helical; Name=3; (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	CAGAGTGTAGACTGACAGCTC	0.522									Gonadal_Dysgenesis_46_XX				18	25					0	0	0.008871	0	0		G	49190590	G	G	49190590	3	3	19	1	0	0	0	0	1	0	0	0	6087	275	10	3	721	3	FSHR	2	49190590	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	381212	49190590	194008783	330	13843											
PSME4	23198	broad.mit.edu	37	chr2	54115035	54115035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttttgtaaacctgggtgaGtttgggttccaagtacttca	9	16	10	6	0	1	1	1	1	0	0	2	1	2	1	2	2	2	4	2	2	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:54115035G>A	uc002rxp.2	-	39	4536	c.4480C>T	c.(4480-4482)CTC>TTC	p.L1494F	PSME4_uc010yop.1_Missense_Mutation_p.L1380F|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Missense_Mutation_p.L869F|PSME4_uc010fbv.1_Missense_Mutation_p.L638F|PSME4_uc010fbt.1_5'Flank	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	1494					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			ACCTGGGTGAGTTTGGGTTCC	0.393													30	56					0	0	0.010818	0	0		A	54115035	A	A	54115035	3	1	19	1	0	0	0	0	1	0	0	0	12731	1029	36	4	1083	4	PSME4	2	54115035	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4924445	54115035	189084338	331	13844											
ACYP2	98	broad.mit.edu	37	chr2	54362601	54362601	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatacaggtgtttgcttcAgaatggtaagtcagtacaat	12	15	9	5	0	2	1	2	0	0	1	2	1	2	1	0	2	3	4	0	2	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:54362601A>G	uc002rxq.3	+	2	496	c.70A>G	c.(70-72)AGA>GGA	p.R24G		NM_138448	NP_612457	P14621	ACYP2_HUMAN	acylphosphatase 2	24	Acylphosphatase-like.	Potential.			phosphate metabolic process		acylphosphatase activity				0						TGTTTGCTTCAGAATGGTAAG	0.318													6	77					0	0	0.006214	0	0		G	54362601	G	G	54362601	3	3	19	1	0	0	0	0	1	0	0	0	229	180	7	3	76	3	ACYP2	2	54362601	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	247566	54362601	188836772	332	13845											
MTIF2	4528	broad.mit.edu	37	chr2	55464533	55464533	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttttttcttcccttctgtTacagagaaggtagctagtat	9	17	7	8	0	2	1	0	0	2	1	3	2	3	1	1	1	2	4	1	1	5	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:55464533T>C	uc002ryn.2	-	16	2639	c.1902A>G	c.(1900-1902)GTA>GTG	p.V634V	MTIF2_uc010yox.1_Silent_p.V303V|MTIF2_uc002ryo.2_Silent_p.V634V	NM_001005369	NP_001005369	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	634					regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1						TCCCTTCTGTTACAGAGAAGG	0.358													14	65					0	0	0.004007	0	0		C	55464533	C	C	55464533	2	2	19	1	0	0	0	0	0	0	0	1	9952	1741	61	3		3	MTIF2	2	55464533	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1101932	55464533	187734840	333	13846											
CCDC88A	55704	broad.mit.edu	37	chr2	55535973	55535973	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcttggtccccaaggtctgGccatcttctaaagagtttga	8	14	9	10	0	4	2	0	1	4	1	5	2	5	2	3	3	0	1	3	3	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:55535973G>A	uc002ryv.2	-	25	5198	c.4356C>T	c.(4354-4356)GGC>GGT	p.G1452G	CCDC88A_uc010yoz.1_Silent_p.G1453G|CCDC88A_uc010ypa.1_Silent_p.G1452G|CCDC88A_uc010fbw.2_Silent_p.G76G|CCDC88A_uc002ryu.2_Silent_p.G735G|CCDC88A_uc002rys.2_Silent_p.G438G|CCDC88A_uc002ryw.2_Silent_p.G736G|CCDC88A_uc010fby.1_Silent_p.G332G	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	1453					activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						CCAAGGTCTGGCCATCTTCTA	0.403													28	50					0	0	0.008361	0	0		A	55535973	A	A	55535973	2	1	19	1	0	0	0	0	0	0	0	1	2866	1190	42	2		2	CCDC88A	2	55535973	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	71440	55535973	187663400	334	13847											
CCDC88A	55704	broad.mit.edu	37	chr2	55589575	55589575	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcaaacacattttcctgatTatgagttacctttagaaaag	14	14	6	7	0	1	3	1	2	0	1	2	3	2	3	2	0	2	1	2	0	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:55589575T>C	uc002ryv.2	-	7	1338	c.496A>G	c.(496-498)AAT>GAT	p.N166D	CCDC88A_uc010yoz.1_Missense_Mutation_p.N166D|CCDC88A_uc010ypa.1_Missense_Mutation_p.N166D|CCDC88A_uc010ypb.1_Missense_Mutation_p.N68D	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	166					activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						TTTTCCTGATTATGAGTTACC	0.333													12	24					0	0	0.003163	0	0		C	55589575	C	C	55589575	3	2	19	1	0	0	0	0	1	0	0	0	2866	1754	61	3	5223	3	CCDC88A	2	55589575	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	53602	55589575	187609798	335	13848											
BCL11A	53335	broad.mit.edu	37	chr2	60688807	60688807	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttgctggcctgggtgcAcgcgtggtcgcacaggttgc	4	9	16	12	3	0	0	0	0	0	0	1	0	0	0	1	4	4	5	1	4	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:60688807A>G	uc002sae.1	-	4	1468	c.1240T>C	c.(1240-1242)TGC>CGC	p.C414R	BCL11A_uc002sab.2_Missense_Mutation_p.C414R|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.C83R|BCL11A_uc010ypj.1_Missense_Mutation_p.C380R|BCL11A_uc002sad.1_Missense_Mutation_p.C262R|BCL11A_uc002saf.1_Missense_Mutation_p.C380R	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	414	C2H2-type 3.				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			GCCTGGGTGCACGCGTGGTCG	0.612			T	IGH@	B-CLL								41	99					0	0	0.00623	0	0		G	60688807	G	G	60688807	3	3	19	1	0	0	0	0	1	0	0	0	1364	159	6	3	1377	3	BCL11A	2	60688807	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5099232	60688807	182510566	336	13849											
PAPOLG	64895	broad.mit.edu	37	chr2	61020810	61020810	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggagaagccactgagtgtAccaccagcccaaggactttc	11	7	11	12	0	0	2	0	1	0	1	1	4	0	3	4	2	3	1	4	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:61020810A>G	uc002sai.2	+	18	1959	c.1728A>G	c.(1726-1728)GTA>GTG	p.V576V	PAPOLG_uc002saj.2_Silent_p.V265V|PAPOLG_uc002sak.2_Silent_p.V111V|PAPOLG_uc010fch.2_Silent_p.V265V	NM_022894	NP_075045	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma	576					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(2;0.0797)		LUSC - Lung squamous cell carcinoma(5;1.19e-07)|Lung(5;2.86e-06)|Epithelial(17;0.0768)			CACTGAGTGTACCACCAGCCC	0.303													3	42					0	0	0.004482	0	0		G	61020810	G	G	61020810	2	3	19	1	0	0	0	0	0	0	0	1	11450	378	14	3		3	PAPOLG	2	61020810	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	332003	61020810	182178563	337	13850											
USP34	9736	broad.mit.edu	37	chr2	61455842	61455842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatatagcttgcaatgaaaGcaaaaattggctctaaacaa	19	9	7	6	0	1	2	0	1	1	1	1	2	1	2	0	1	4	4	0	1	9	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:61455842G>A	uc002sbe.2	-	61	7403	c.7381C>T	c.(7381-7383)CTT>TTT	p.L2461F	USP34_uc002sbf.2_Missense_Mutation_p.L611F	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2461					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TGCAATGAAAGCAAAAATTGG	0.274													16	36					0	0	0.003163	0	0		A	61455842	A	A	61455842	3	1	19	1	0	0	0	0	1	0	0	0	17091	971	34	2	3339	2	USP34	2	61455842	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	435032	61455842	181743531	338	13851											
TMEM17	200728	broad.mit.edu	37	chr2	62729571	62729571	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaaaggaaaaaagagcttaCcttctcctgtaggttaccca	15	9	8	9	0	1	2	0	0	1	2	2	3	1	3	3	2	3	3	3	2	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:62729571C>T	uc002sbt.2	-	3	658	c.318_splice	c.e3+1	p.K106_splice	TMEM17_uc002sbu.2_Missense_Mutation_p.V107I|TMEM17_uc002sbv.1_Missense_Mutation_p.V82I	NM_198276	NP_938017	Q86X19	TMM17_HUMAN	transmembrane protein 17							integral to membrane					0	Lung NSC(7;0.0274)|all_lung(7;0.0568)		LUSC - Lung squamous cell carcinoma(7;1.31e-05)|Epithelial(17;0.169)			AAAGAGCTTACCTTCTCCTGT	0.294													4	75					0	0	0.000602	0	0		T	62729571	T	T	62729571	5	4	19	1	0	0	0	0	0	0	1	0	16110	521	18	4	285	4	TMEM17	2	62729571	Splice_Site	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1273729	62729571	180469802	339	13852											
OTX1	5013	broad.mit.edu	37	chr2	63281286	63281286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctaccctgacatcttcatgCgggaggaggtggcgctcaag	8	8	14	11	2	3	1	2	1	1	0	3	3	3	3	1	4	2	2	1	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:63281286C>T	uc002scd.2	+	4	450	c.202C>T	c.(202-204)CGG>TGG	p.R68W	OTX1_uc010ypt.1_Missense_Mutation_p.R2W	NM_014562	NP_055377	P32242	OTX1_HUMAN	orthodenticle homeobox 1	68	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(2)	2	Lung NSC(7;0.121)|all_lung(7;0.211)					CATCTTCATGCGGGAGGAGGT	0.662													30	97					0	0	0.013726	0	0		T	63281286	T	T	63281286	3	4	19	1	0	0	0	0	1	0	0	0	11339	759	27	1	208	1	OTX1	2	63281286	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	551715	63281286	179918087	340	13853											
CEP68	23177	broad.mit.edu	37	chr2	65299970	65299970	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggggagcagccaggccctCggggtctcctctggactgct	4	8	15	14	1	2	0	0	0	2	0	4	2	2	2	3	6	3	2	3	6	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:65299970C>T	uc002sdl.3	+	3	1954	c.1740C>T	c.(1738-1740)CTC>CTT	p.L580L	CEP68_uc002sdj.2_Silent_p.L580L|CEP68_uc010yqb.1_Silent_p.L580L|CEP68_uc002sdk.3_Intron|CEP68_uc010yqc.1_Silent_p.L580L|CEP68_uc010yqd.1_Silent_p.L580L	NM_015147	NP_055962	Q76N32	CEP68_HUMAN	centrosomal protein 68kDa	580					centrosome organization	centrosome				skin(1)	1						GCCAGGCCCTCGGGGTCTCCT	0.632													71	126					0	0	0.01441	0	0		T	65299970	T	T	65299970	2	4	19	1	0	0	0	0	0	0	0	1	3261	871	31	1		1	CEP68	2	65299970	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2018684	65299970	177899403	341	13854											
ACTR2	10097	broad.mit.edu	37	chr2	65495711	65495711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttagaaatttaagatccGcattgaagacccaccccgca	13	9	6	13	2	0	4	0	1	0	3	1	4	1	4	5	0	0	2	5	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:65495711G>A	uc002sdq.2	+	9	1243	c.1028G>A	c.(1027-1029)CGC>CAC	p.R343H	ACTR2_uc002sdp.2_Missense_Mutation_p.R348H|ACTR2_uc010yqg.1_Missense_Mutation_p.R291H	NM_005722	NP_005713	P61160	ARP2_HUMAN	actin-related protein 2 isoform b	343					cellular component movement	Arp2/3 protein complex|cell projection|cytoplasm	actin binding|ATP binding				0						TTTAAGATCCGCATTGAAGAC	0.308													18	47					0	0	0.006122	0	0		A	65495711	A	A	65495711	3	1	19	1	0	0	0	0	1	0	0	0	211	1087	38	1	1081	1	ACTR2	2	65495711	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	195741	65495711	177703662	342	13855											
MEIS1	4211	broad.mit.edu	37	chr2	66664959	66664959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgcagccaggtccatgcagCcggtccaccacctgaaccac	10	5	9	17	1	0	1	0	1	0	0	2	1	2	1	7	2	5	2	7	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:66664959C>T	uc002sdu.2	+	2	560	c.103C>T	c.(103-105)CCG>TCG	p.P35S	MEIS1_uc002sdt.2_Missense_Mutation_p.P35S|MEIS1_uc002sdv.2_Missense_Mutation_p.P33S|MEIS1_uc010yqh.1_RNA|MEIS1_uc010yqi.1_5'Flank|MEIS1_uc002sdw.1_5'Flank	NM_002398	NP_002389	O00470	MEIS1_HUMAN	Meis homeobox 1	35							sequence-specific DNA binding transcription factor activity				0						GTCCATGCAGCCGGTCCACCA	0.612													11	16					0	0	0.008291	0	0		T	66664959	T	T	66664959	3	4	19	1	0	0	0	0	1	0	0	0	9485	739	26	2	109	2	MEIS1	2	66664959	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1169248	66664959	176534414	343	13856											
MCEE	84693	broad.mit.edu	37	chr2	71351415	71351415	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgtcacgtcccaatggaTgaagcagttccatcttggta	10	11	10	10	1	2	1	1	1	1	0	4	3	4	2	2	2	1	3	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:71351415T>A	uc002shs.2	-	2	344	c.299A>T	c.(298-300)CAT>CTT	p.H100L		NM_032601	NP_115990	Q96PE7	MCEE_HUMAN	methylmalonyl CoA epimerase precursor	100					fatty acid beta-oxidation|L-methylmalonyl-CoA metabolic process	mitochondrial matrix	methylmalonyl-CoA epimerase activity			ovary(1)	1						TCCCAATGGATGAAGCAGTTC	0.438													20	71					0	0	0.012319	0	0		A	71351415	A	A	71351415	3	1	19	1	0	0	0	0	1	0	0	0	9395	1464	51	5	239	5	MCEE	2	71351415	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4686456	71351415	171847958	344	13857											
DYSF	8291	broad.mit.edu	37	chr2	71742841	71742841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcagggcagaccaagcGgacgcggatccacaagggaa	12	2	15	12	4	0	1	0	0	0	1	1	4	1	4	2	4	2	3	2	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:71742841G>A	uc002sie.2	+	7	1128	c.752G>A	c.(751-753)CGG>CAG	p.R251Q	DYSF_uc010feg.2_Missense_Mutation_p.R282Q|DYSF_uc010feh.2_Missense_Mutation_p.R251Q|DYSF_uc002sig.3_Missense_Mutation_p.R251Q|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.R251Q|DYSF_uc010fef.2_Missense_Mutation_p.R282Q|DYSF_uc010fei.2_Missense_Mutation_p.R282Q|DYSF_uc010fek.2_Missense_Mutation_p.R283Q|DYSF_uc010fej.2_Missense_Mutation_p.R252Q|DYSF_uc010fel.2_Missense_Mutation_p.R252Q|DYSF_uc010feo.2_Missense_Mutation_p.R283Q|DYSF_uc010fem.2_Missense_Mutation_p.R252Q|DYSF_uc010fen.2_Missense_Mutation_p.R283Q|DYSF_uc002sif.2_Missense_Mutation_p.R252Q	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	251	Cytoplasmic (Potential).|C2 2.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CAGACCAAGCGGACGCGGATC	0.607													39	94					0	0	0.01441	0	0		A	71742841	A	A	71742841	3	1	19	1	0	0	0	0	1	0	0	0	4865	1116	39	1	970	1	DYSF	2	71742841	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	391426	71742841	171456532	345	13858											
DYSF	8291	broad.mit.edu	37	chr2	71743355	71743355	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggggagctgtttgatGagcccatctttatcacggta	7	13	11	10	1	2	2	1	2	1	0	3	3	3	3	2	3	2	3	2	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:71743355G>T	uc002sie.2	+	8	1214	c.838G>T	c.(838-840)GAG>TAG	p.E280*	DYSF_uc010feg.2_Nonsense_Mutation_p.E311*|DYSF_uc010feh.2_Nonsense_Mutation_p.E280*|DYSF_uc002sig.3_Nonsense_Mutation_p.E280*|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Nonsense_Mutation_p.E280*|DYSF_uc010fef.2_Nonsense_Mutation_p.E311*|DYSF_uc010fei.2_Nonsense_Mutation_p.E311*|DYSF_uc010fek.2_Nonsense_Mutation_p.E312*|DYSF_uc010fej.2_Nonsense_Mutation_p.E281*|DYSF_uc010fel.2_Nonsense_Mutation_p.E281*|DYSF_uc010feo.2_Nonsense_Mutation_p.E312*|DYSF_uc010fem.2_Nonsense_Mutation_p.E281*|DYSF_uc010fen.2_Nonsense_Mutation_p.E312*|DYSF_uc002sif.2_Nonsense_Mutation_p.E281*	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	280	Cytoplasmic (Potential).|C2 2.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GCTGTTTGATGAGCCCATCTT	0.453													19	56					1.00905e-13	1.06431e-13	0.008871	1	0		T	71743355	T	T	71743355	4	4	19	1	0	0	0	0	0	1	0	0	4865	1291	45	5	1060	5	DYSF	2	71743355	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	514	71743355	171456018	346	13859											
EXOC6B	23233	broad.mit.edu	37	chr2	72719508	72719508	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagagttgctcagagtcctgGttagcaacaggtttgttgat	9	13	13	6	0	1	3	1	1	0	2	2	4	2	3	1	2	3	6	1	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:72719508G>C	uc010fep.2	-	16	1742	c.1604C>G	c.(1603-1605)ACC>AGC	p.T535S	EXOC6B_uc002sij.2_Missense_Mutation_p.T535S	NM_015189	NP_056004	Q9Y2D4	EXC6B_HUMAN	SEC15-like 2	535					protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2						CAGAGTCCTGGTTAGCAACAG	0.413													4	170					0	0	0.009096	0	0		C	72719508	C	C	72719508	3	2	19	1	0	0	0	0	1	0	0	0	5317	1261	44	5	859	5	EXOC6B	2	72719508	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	976153	72719508	170479865	347	13860											
SPR	6697	broad.mit.edu	37	chr2	73115582	73115582	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccggacagtcctggcctCaacagaaccgtggttaacat	10	9	9	13	2	1	1	1	0	0	1	3	2	3	2	4	3	3	1	4	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:73115582C>A	uc002sik.2	+	2	494	c.444C>A	c.(442-444)CTC>CTA	p.L148L		NM_003124	NP_003115	P35270	SPRE_HUMAN	sepiapterin reductase	148					nitric oxide biosynthetic process|tetrahydrobiopterin biosynthetic process	cytoplasm	aldo-keto reductase (NADP) activity|NADP binding|sepiapterin reductase activity			ovary(2)	2						GTCCTGGCCTCAACAGAACCG	0.557											OREG0014704	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	51	108					2.27781e-18	2.41868e-18	0.01441	1	0		A	73115582	A	A	73115582	2	1	19	1	0	0	0	0	0	0	0	1	15116	813	29	5		5	SPR	2	73115582	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	396074	73115582	170083791	348	13861											
EMX1	2016	broad.mit.edu	37	chr2	73151580	73151580	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactacgtggtgggcgccgaGcggaagcagctggccggcag	7	4	18	12	5	0	0	0	0	0	0	0	2	0	1	2	5	4	3	2	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:73151580G>A	uc002sin.1	+	2	1041	c.663G>A	c.(661-663)GAG>GAA	p.E221E	EMX1_uc002sim.1_Missense_Mutation_p.A174T	NM_004097	NP_004088	Q04741	EMX1_HUMAN	empty spiracles homolog 1	188	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TGGGCGCCGAGCGGAAGCAGC	0.711													5	6					0	0	0.001168	0	0		A	73151580	A	A	73151580	2	1	19	1	0	0	0	0	0	0	0	1	5115	962	34	2		2	EMX1	2	73151580	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	35998	73151580	170047793	349	13862											
EGR4	1961	broad.mit.edu	37	chr2	73519506	73519506	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggaggccgggcttgacgtcGggcggggagagctgaggctc	5	5	21	10	5	0	3	0	2	0	1	2	5	0	4	1	7	1	3	1	7	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:73519506G>A	uc010yrj.1	-	2	924	c.849C>T	c.(847-849)CCC>CCT	p.P283P	EGR4_uc010yrk.1_Silent_p.P282P	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	179						intracellular	nucleic acid binding|zinc ion binding				0						GCTTGACGTCGGGCGGGGAGA	0.711													5	14					0	0	0.000602	0	0		A	73519506	A	A	73519506	2	1	19	1	0	0	0	0	0	0	0	1	4980	1103	39	1		1	EGR4	2	73519506	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	367926	73519506	169679867	350	13863											
EGR4	1961	broad.mit.edu	37	chr2	73519605	73519605	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggggcagcgcccagatcCggggagtaaaggtccggcgg	10	3	18	10	4	0	1	0	0	0	1	2	2	2	2	3	7	1	2	3	7	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:73519605C>T	uc010yrj.1	-	2	825	c.750G>A	c.(748-750)CCG>CCA	p.P250P	EGR4_uc010yrk.1_Silent_p.P249P	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	146						intracellular	nucleic acid binding|zinc ion binding				0						CGCCCAGATCCGGGGAGTAAA	0.701													6	7					0	0	0.004482	0	0		T	73519605	T	T	73519605	2	4	19	1	0	0	0	0	0	0	0	1	4980	639	23	1		1	EGR4	2	73519605	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	99	73519605	169679768	351	13864											
ACTG2	72	broad.mit.edu	37	chr2	74135805	74135805	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttttgtctccactagatctgGcaccactccttctacaatga	9	14	5	13	0	3	2	0	1	3	1	5	2	4	2	3	1	1	1	3	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:74135805G>A	uc002sjw.2	+	4	383	c.261G>A	c.(259-261)TGG>TGA	p.W87*	ACTG2_uc010fey.2_Nonsense_Mutation_p.W87*|ACTG2_uc010yrn.1_Nonsense_Mutation_p.W44*	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	87					muscle contraction	cytoskeleton|cytosol	ATP binding				0						ACTAGATCTGGCACCACTCCT	0.522													5	51					0	0	0.000602	0	0		A	74135805	A	A	74135805	4	1	19	1	0	0	0	0	0	1	0	0	197	1212	42	2	271	2	ACTG2	2	74135805	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	616200	74135805	169063568	352	13865											
TET3	200424	broad.mit.edu	37	chr2	74273760	74273760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggaacaacagcaggggacCccggccagggcctgagggct	9	3	17	12	1	0	1	0	1	0	0	0	3	0	3	4	6	3	2	4	6	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:74273760C>T	uc002skb.3	+	1	311	c.311C>T	c.(310-312)CCC>CTC	p.P104L	TET3_uc010fez.1_Missense_Mutation_p.P104L	NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	104							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						AGCAGGGGACCCCGGCCAGGG	0.627													18	48					0	0	0.008871	0	0		T	74273760	T	T	74273760	3	4	19	1	0	0	0	0	1	0	0	0	15796	623	22	4	313	4	TET3	2	74273760	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	137955	74273760	168925613	353	13866											
DCTN1	1639	broad.mit.edu	37	chr2	74597120	74597120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagtctccctcaactcgCgcactttctcttccagattc	7	12	4	18	2	3	1	1	0	2	1	8	1	4	1	3	0	1	1	3	0	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:74597120C>T	uc002skx.2	-	13	1675	c.1364G>A	c.(1363-1365)CGC>CAC	p.R455H	DCTN1_uc002skv.2_Missense_Mutation_p.R321H|DCTN1_uc002sku.2_Missense_Mutation_p.R321H|DCTN1_uc002skw.1_Missense_Mutation_p.R431H|DCTN1_uc010ffd.2_Missense_Mutation_p.R435H|DCTN1_uc002sky.2_Missense_Mutation_p.R418H	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	455	Potential.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						CCTCAACTCGCGCACTTTCTC	0.537													67	105					0	0	0.01441	0	0		T	74597120	T	T	74597120	3	4	19	1	0	0	0	0	1	0	0	0	4309	768	27	1	2552	1	DCTN1	2	74597120	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	323360	74597120	168602253	354	13867											
AUP1	550	broad.mit.edu	37	chr2	74754443	74754443	+	Frame_Shift_Del	DEL	C	-	-																															ttcaggcatgaaagctacggCcccctcaagcagattagtga																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:74754443delC	uc010yrx.1	-	9	1306	c.1180delG	c.(1180-1182)GCCfs	p.A394fs	DQX1_uc010yrw.1_5'Flank|AUP1_uc002sme.2_Frame_Shift_Del_p.A70fs|AUP1_uc002smf.2_Frame_Shift_Del_p.A337fs|AUP1_uc002smg.2_RNA|AUP1_uc002smh.2_Frame_Shift_Del_p.A246fs|HTRA2_uc002smi.1_5'Flank|HTRA2_uc002smj.1_5'Flank|HTRA2_uc002smk.1_5'Flank|HTRA2_uc002sml.1_5'Flank|HTRA2_uc002smm.1_5'Flank|HTRA2_uc002smn.1_5'Flank			Q9Y679	AUP1_HUMAN	SubName: Full=cDNA FLJ57204, highly similar to Homo sapiens ancient ubiquitous protein 1 (AUP1), transcript variant 2, mRNA;	403	Cytoplasmic (Potential).|CUE.					endoplasmic reticulum membrane|integral to membrane|nucleus	protein binding				0						AAAGCTACGGCCCCCTCAAGC	0.512													18	35	---	---	---	---						.	-	74754443	-	-	74754443	7	5	19	1	0	1	0	1	0	0	0	0	1221	739	26	0	235	0	AUP1	2	74754443	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	157323	74754443	168444930	355	13868											
SEMA4F	10505	broad.mit.edu	37	chr2	74902879	74902879	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactccgtttttatagagcTggctcctggttggctcccgt	4	14	10	13	2	0	1	0	0	0	1	3	1	3	1	4	3	1	5	4	3	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:74902879T>C	uc002sna.1	+	12	1597	c.1486T>C	c.(1486-1488)TGG>CGG	p.W496R	SEMA4F_uc010ffq.1_Missense_Mutation_p.W463R|SEMA4F_uc010ffr.1_Missense_Mutation_p.W108R|SEMA4F_uc002snb.1_Missense_Mutation_p.W108R|SEMA4F_uc002snc.1_Missense_Mutation_p.W341R	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	496	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						TTTATAGAGCTGGCTCCTGGT	0.552													38	101					0	0	0.009718	0	0		C	74902879	C	C	74902879	3	2	19	1	0	0	0	0	1	0	0	0	14060	1580	55	3	1532	3	SEMA4F	2	74902879	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	148436	74902879	168296494	356	13869											
MRPL19	9801	broad.mit.edu	37	chr2	75882354	75882354	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatatgatgagggaatatgaTacttcaaaaattgaagctgc	16	11	10	4	0	1	4	1	4	0	0	1	6	1	5	0	1	3	1	0	1	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:75882354T>C	uc002snl.2	+	6	847	c.822T>C	c.(820-822)GAT>GAC	p.D274D	MRPL19_uc002snm.1_Silent_p.D274D	NM_014763	NP_055578	P49406	RM19_HUMAN	mitochondrial ribosomal protein L19 precursor	274					translation	mitochondrion|nuclear membrane|ribosome	structural constituent of ribosome				0						GGGAATATGATACTTCAAAAA	0.363													7	67					0	0	0.00308	0	0		C	75882354	C	C	75882354	2	2	19	1	0	0	0	0	0	0	0	1	9802	1403	49	3		3	MRPL19	2	75882354	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	979475	75882354	167317019	357	13870											
LRRTM1	347730	broad.mit.edu	37	chr2	80529785	80529785	+	Frame_Shift_Del	DEL	G	-	-																															gcgtggtggccgagctggcaGggggccccagatcactgcgg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:80529785delG	uc002sok.1	-	2	1430	c.1160delC	c.(1159-1161)CCTfs	p.P387fs	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	387	Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						CGAGCTGGCAGGGGGCCCCAG	0.726										HNSCC(69;0.2)			19	35	---	---	---	---						.	-	80529785	-	-	80529785	7	5	19	1	0	1	0	1	0	0	0	0	9057	1000	35	0	412	0	LRRTM1	2	80529785	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	4647431	80529785	162669588	358	13871											
LRRTM1	347730	broad.mit.edu	37	chr2	80530382	80530382	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtatccgatgtcgagaaacTtgaggctgcggcagtcctgg	8	10	14	9	3	0	2	0	1	0	1	3	4	2	2	2	3	2	3	2	3	2	2	rs151115994		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:80530382T>G	uc002sok.1	-	2	833	c.563A>C	c.(562-564)AAG>ACG	p.K188T	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	188	LRR 5.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GTCGAGAAACTTGAGGCTGCG	0.587										HNSCC(69;0.2)			26	44					0	0	0.00623	0	0		G	80530382	G	G	80530382	3	3	19	1	0	0	0	0	1	0	0	0	9057	1609	56	5	1009	5	LRRTM1	2	80530382	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	597	80530382	162668991	359	13872											
POLR1A	25885	broad.mit.edu	37	chr2	86269169	86269169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggtcaggacaagcggccgCcttcttctggtatttccttc	5	12	12	12	2	3	0	1	0	2	0	5	1	4	1	3	5	1	1	3	5	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:86269169C>T	uc002sqs.2	-	24	3794	c.3415G>A	c.(3415-3417)GCG>ACG	p.A1139T	POLR1A_uc010ytb.1_Missense_Mutation_p.A505T|POLR1A_uc002sqt.1_Missense_Mutation_p.A162T	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	1139					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						CAAGCGGCCGCCTTCTTCTGG	0.493													11	307					0	0	0.013537	0	0		T	86269169	T	T	86269169	3	4	19	1	0	0	0	0	1	0	0	0	12228	739	26	2	1791	2	POLR1A	2	86269169	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5738787	86269169	156930204	360	13873											
IMMT	10989	broad.mit.edu	37	chr2	86386722	86386722	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaccctctgcagcagttatAtgaggcttggccccagcaac	9	10	9	13	0	1	1	0	1	1	0	1	1	1	1	3	2	5	5	3	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:86386722A>G	uc002sqz.3	-	9	1357	c.969T>C	c.(967-969)CAT>CAC	p.H323H	IMMT_uc002sqy.3_Silent_p.H64H|IMMT_uc002srb.3_Silent_p.H312H|IMMT_uc002sra.3_Silent_p.H322H|IMMT_uc010ytd.1_Silent_p.H311H|IMMT_uc010yte.1_Silent_p.H276H|IMMT_uc002src.1_Silent_p.H64H|IMMT_uc002srd.2_Silent_p.H323H|IMMT_uc002sre.3_Silent_p.H311H|IMMT_uc010ytf.1_Silent_p.H245H|IMMT_uc010fgs.1_Silent_p.H320H	NM_006839	NP_006830	Q16891	IMMT_HUMAN	inner membrane protein, mitochondrial isoform 1	323	Mitochondrial intermembrane (Potential).					integral to mitochondrial inner membrane	protein binding			skin(1)	1						CAGCAGTTATATGAGGCTTGG	0.338													4	43					0	0	0.009096	0	0		G	86386722	G	G	86386722	2	3	19	1	0	0	0	0	0	0	0	1	7734	446	16	3		3	IMMT	2	86386722	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	117553	86386722	156812651	361	13874											
CD8A	925	broad.mit.edu	37	chr2	87017544	87017544	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgttctctcggcggaagtCgctcagggtgaggacgaagg	7	8	16	10	5	2	1	1	1	1	0	6	4	2	3	0	5	0	2	0	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:87017544C>A	uc002srt.2	-	2	1199	c.310G>T	c.(310-312)GAC>TAC	p.D104Y	RMND5A_uc002srs.3_Intron|CD8A_uc002srv.2_Missense_Mutation_p.D104Y|CD8A_uc010ytn.1_Missense_Mutation_p.D145Y|CD8A_uc002sru.2_Missense_Mutation_p.D104Y	NM_001768	NP_001759	P01732	CD8A_HUMAN	CD8 antigen alpha polypeptide isoform 1	104	Ig-like V-type.|Extracellular (Potential).				antigen processing and presentation|regulation of immune response|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding	p.D104N(1)		ovary(1)	1						CGGCGGAAGTCGCTCAGGGTG	0.617													37	78					3.43241e-23	3.65749e-23	0.009718	1	0		A	87017544	A	A	87017544	3	1	19	1	0	0	0	0	1	0	0	0	3047	884	31	5	417	5	CD8A	2	87017544	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	630822	87017544	156181829	362	13875											
SMYD1	150572	broad.mit.edu	37	chr2	88405999	88405999	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgccaggaggatggtggaCggctatatgtaggtgacgat	10	10	16	5	2	0	1	0	1	0	0	0	5	0	4	1	6	1	2	1	6	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:88405999C>G	uc002ssr.2	+	8	1139	c.1137C>G	c.(1135-1137)GAC>GAG	p.D379E	SMYD1_uc002ssq.1_Intron|SMYD1_uc002sss.2_Missense_Mutation_p.D75E	NM_198274	NP_938015	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	379					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						GGATGGTGGACGGCTATATGT	0.408													20	71					0	0	0.014323	0	0		G	88405999	G	G	88405999	3	3	19	1	0	0	0	0	1	0	0	0	14846	535	19	5	1167	5	SMYD1	2	88405999	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1388455	88405999	154793374	363	13876											
THNSL2	55258	broad.mit.edu	37	chr2	88474836	88474836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagaacatggacattatcGttctgctgcccaaaggtcac	13	9	8	11	1	2	1	1	0	1	1	3	2	2	2	1	2	3	2	1	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:88474836G>A	uc002ssz.3	+	4	640	c.487G>A	c.(487-489)GTT>ATT	p.V163I	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_Missense_Mutation_p.V163I|THNSL2_uc002ssx.3_Missense_Mutation_p.V131I|THNSL2_uc002sta.3_Missense_Mutation_p.V5I|THNSL2_uc002ssy.3_Missense_Mutation_p.V163I|THNSL2_uc010fhe.2_Missense_Mutation_p.V5I	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	163					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						GGACATTATCGTTCTGCTGCC	0.512													19	37					0	0	0.007413	0	0		A	88474836	A	A	88474836	3	1	19	1	0	0	0	0	1	0	0	0	15888	1145	40	1	497	1	THNSL2	2	88474836	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	68837	88474836	154724537	364	13877											
THNSL2	55258	broad.mit.edu	37	chr2	88478470	88478470	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgtacgccatccttggAcacacatcccctacccctgg	8	8	7	18	1	0	0	0	0	0	0	2	1	2	1	7	2	2	1	7	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:88478470A>T	uc002ssz.3	+	5	893	c.740A>T	c.(739-741)GAC>GTC	p.D247V	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_Missense_Mutation_p.D247V|THNSL2_uc002ssx.3_Missense_Mutation_p.D215V|THNSL2_uc002sta.3_Missense_Mutation_p.D89V|THNSL2_uc002ssy.3_Missense_Mutation_p.D247V|THNSL2_uc010fhe.2_Missense_Mutation_p.D89V	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	247					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						CCATCCTTGGACACACATCCC	0.552													92	219					0	0	0.01441	0	0		T	88478470	T	T	88478470	3	4	19	1	0	0	0	0	1	0	0	0	15888	275	10	5	754	5	THNSL2	2	88478470	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3634	88478470	154720903	365	13878											
TEKT4	150483	broad.mit.edu	37	chr2	95541412	95541412	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaaagaggcacctctgcAcgtagcccagacccggctgt	10	5	12	14	2	1	2	0	0	1	2	1	3	1	3	3	3	2	4	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:95541412A>G	uc002stw.1	+	5	1109	c.1016A>G	c.(1015-1017)CAC>CGC	p.H339R	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	339					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						GCACCTCTGCACGTAGCCCAG	0.617													6	97					0	0	0.00308	0	0		G	95541412	G	G	95541412	3	3	19	1	0	0	0	0	1	0	0	0	15780	159	6	3	1034	3	TEKT4	2	95541412	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	7062942	95541412	147657961	366	13879											
FAHD2A	51011	broad.mit.edu	37	chr2	96072863	96072863	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaagtttgccagctccatCgtggggccctatgatgaggt	8	10	13	10	1	0	2	0	2	0	0	2	2	1	2	3	3	3	3	3	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:96072863C>T	uc002sur.2	+	3	599	c.420C>T	c.(418-420)ATC>ATT	p.I140I	FAHD2A_uc002sus.2_Silent_p.I140I	NM_016044	NP_057128	Q96GK7	FAH2A_HUMAN	fumarylacetoacetate hydrolase domain containing	140							hydrolase activity|metal ion binding			ovary(1)	1						CCAGCTCCATCGTGGGGCCCT	0.577													22	76					0	0	0.008361	0	0		T	96072863	T	T	96072863	2	4	19	1	0	0	0	0	0	0	0	1	5384	874	31	1		1	FAHD2A	2	96072863	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	531451	96072863	147126510	367	13880											
ASTL	431705	broad.mit.edu	37	chr2	96789628	96789628	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaatgatttctaggtacAcagccccctggcagagctgg	10	10	11	10	0	1	3	0	2	1	1	1	3	1	3	2	3	3	3	2	3	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:96789628A>G	uc010yui.1	-	9	1257	c.1257T>C	c.(1255-1257)TGT>TGC	p.C419C		NM_001002036	NP_001002036	Q6HA08	ASTL_HUMAN	astacin-like metalloendopeptidase precursor	419					proteolysis		metalloendopeptidase activity|zinc ion binding				0						TTCTAGGTACACAGCCCCCTG	0.592													13	122					0	0	0.00499	0	0		G	96789628	G	G	96789628	2	3	19	1	0	0	0	0	0	0	0	1	1064	157	6	3		3	ASTL	2	96789628	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	716765	96789628	146409745	368	13881											
ASTL	431705	broad.mit.edu	37	chr2	96803388	96803388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgaggccatctgggaagctgGtaccacaggctcctgcgcag	8	7	14	12	1	1	1	0	1	1	0	2	2	2	2	3	4	3	4	3	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:96803388G>A	uc010yui.1	-	2	107	c.107C>T	c.(106-108)ACC>ATC	p.T36I		NM_001002036	NP_001002036	Q6HA08	ASTL_HUMAN	astacin-like metalloendopeptidase precursor	36					proteolysis		metalloendopeptidase activity|zinc ion binding				0						TGGGAAGCTGGTACCACAGGC	0.622													9	116					0	0	0.010729	0	0		A	96803388	A	A	96803388	3	1	19	1	0	0	0	0	1	0	0	0	1064	1261	44	4	1219	4	ASTL	2	96803388	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	13760	96803388	146395985	369	13882											
DUSP2	1844	broad.mit.edu	37	chr2	96810096	96810096	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaacaggtagggcaagAtctccacagggccaccctgg	11	4	13	13	0	1	1	0	0	1	1	2	2	1	2	4	5	1	2	4	5	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:96810096A>G	uc002svk.3	-	3	613	c.527T>C	c.(526-528)ATC>ACC	p.I176T		NM_004418	NP_004409	Q05923	DUS2_HUMAN	dual specificity phosphatase 2	176					endoderm formation|inactivation of MAPK activity|regulation of apoptosis	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/threonine phosphatase activity			breast(1)	1		Ovarian(717;0.0228)				GTAGGGCAAGATCTCCACAGG	0.672													4	74					0	0	0.009096	0	0		G	96810096	G	G	96810096	3	3	19	1	0	0	0	0	1	0	0	0	4825	333	12	3	425	3	DUSP2	2	96810096	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	6708	96810096	146389277	370	13883											
NCAPH	23397	broad.mit.edu	37	chr2	97024802	97024802	+	Frame_Shift_Del	DEL	G	-	-																															gggaagaaatgatttcccttGgggatggagacatcaggacc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:97024802delG	uc002svz.1	+	10	1312	c.1228delG	c.(1228-1230)GGGfs	p.G410fs	NCAPH_uc010fhu.1_Frame_Shift_Del_p.G386fs|NCAPH_uc010fhv.1_Frame_Shift_Del_p.G399fs|NCAPH_uc010yum.1_Frame_Shift_Del_p.G386fs|NCAPH_uc010fhw.1_Frame_Shift_Del_p.G399fs|NCAPH_uc010yun.1_Frame_Shift_Del_p.G274fs|NCAPH_uc002swa.1_Frame_Shift_Del_p.G5fs	NM_015341	NP_056156	Q15003	CND2_HUMAN	non-SMC condensin I complex, subunit H	410					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|microtubule cytoskeleton|nucleus				urinary_tract(1)|skin(1)	2		Ovarian(717;0.0221)				GATTTCCCTTGGGGATGGAGA	0.423													42	82	---	---	---	---						.	-	97024802	-	-	97024802	7	5	19	1	0	1	0	1	0	0	0	0	10228	1348	47	0	1266	0	NCAPH	2	97024802	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	214706	97024802	146174571	371	13884											
ARID5A	10865	broad.mit.edu	37	chr2	97217936	97217936	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgcacttccccccaacGtccttcgacagtgccctccg	6	9	7	19	3	0	1	0	1	0	0	4	2	3	1	6	0	3	1	6	0	1	2	rs138653819		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:97217936G>A	uc002swe.2	+	7	1771	c.1671G>A	c.(1669-1671)ACG>ACA	p.T557T	ARID5A_uc010yuq.1_Silent_p.T505T|ARID5A_uc002swf.2_Silent_p.T393T|ARID5A_uc002swg.2_Silent_p.T505T	NM_212481	NP_997646	Q03989	ARI5A_HUMAN	AT rich interactive domain 5A	557					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding				0						TCCCCCCAACGTCCTTCGACA	0.672													105	142					0	0	0.01441	0	0		A	97217936	A	A	97217936	2	1	19	1	0	0	0	0	0	0	0	1	921	1132	40	1		1	ARID5A	2	97217936	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	193134	97217936	145981437	372	13885											
FER1L5	90342	broad.mit.edu	37	chr2	97369324	97369324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttaatcaagccagccgggcGaggccagtcggaacccaacc	11	4	11	15	3	1	0	1	0	0	0	2	2	1	1	5	3	4	0	5	3	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:97369324G>A	uc010fia.2	+	50	5864	c.5864G>A	c.(5863-5865)CGA>CAA	p.R1955Q	FER1L5_uc002sws.3_Missense_Mutation_p.R664Q|FER1L5_uc002swt.3_Missense_Mutation_p.R664Q|FER1L5_uc010yus.1_Missense_Mutation_p.R663Q	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1955						integral to membrane				ovary(1)	1						CCAGCCGGGCGAGGCCAGTCG	0.562													11	56					0	0	0.013537	0	0		A	97369324	A	A	97369324	3	1	19	1	0	0	0	0	1	0	0	0	5828	1058	37	1	6062	1	FER1L5	2	97369324	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	151388	97369324	145830049	373	13886											
FAM178B	51252	broad.mit.edu	37	chr2	97543757	97543757	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtggcggtccaactgcAtgcacagcagctgcagctcg	8	8	13	12	2	0	1	0	1	0	0	2	1	1	1	1	2	7	6	1	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:97543757A>G	uc002sxl.3	-	16	2128	c.1781T>C	c.(1780-1782)ATG>ACG	p.M594T	FAM178B_uc002sxi.3_Missense_Mutation_p.M85T|FAM178B_uc002sxk.3_Missense_Mutation_p.M309T|FAM178B_uc002sxj.3_Missense_Mutation_p.M66T	NM_001122646	NP_001116118	Q8IXR5	F178B_HUMAN	hypothetical protein LOC51252 isoform A	774											0						GTCCAACTGCATGCACAGCAG	0.632													9	19					0	0	0.00245	0	0		G	97543757	G	G	97543757	3	3	19	1	0	0	0	0	1	0	0	0	5515	217	8	3	170	3	FAM178B	2	97543757	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	174433	97543757	145655616	374	13887											
CNGA3	1261	broad.mit.edu	37	chr2	98994199	98994199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgctgcagccggggatcGccatggagaccagaggactg	9	5	16	11	2	0	2	0	0	0	2	1	5	0	4	3	4	3	2	3	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:98994199G>A	uc002syt.2	+	3	568	c.151G>A	c.(151-153)GCC>ACC	p.A51T	CNGA3_uc002syu.2_Missense_Mutation_p.A51T|CNGA3_uc010fij.2_5'UTR	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	51					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						GCCGGGGATCGCCATGGAGAC	0.587													8	32					0	0	0.004482	0	0		A	98994199	A	A	98994199	3	1	19	1	0	0	0	0	1	0	0	0	3601	1087	38	1	157	1	CNGA3	2	98994199	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1450442	98994199	144205174	375	13888											
C2orf55	343990	broad.mit.edu	37	chr2	99411026	99411026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctggggcatgtcactccaaGcttgagatttctttctggca	7	14	10	10	0	4	1	1	1	3	1	5	2	5	1	1	3	1	3	1	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:99411026G>A	uc002szf.1	-	10	3152	c.2858C>T	c.(2857-2859)GCT>GTT	p.A953V		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	953											0						GTCACTCCAAGCTTGAGATTT	0.463													44	121					0	0	0.01441	0	0		A	99411026	A	A	99411026	3	1	19	1	0	0	0	0	1	0	0	0	2179	971	34	2	34	2	C2orf55	2	99411026	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	416827	99411026	143788347	376	13889											
PDCL3	79031	broad.mit.edu	37	chr2	101188116	101188116	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaagtttcctgatgtcAaatttatcaaagccatttca	13	13	6	9	0	3	1	3	1	0	0	4	2	4	2	3	1	1	1	3	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:101188116A>G	uc002tao.2	+	5	545	c.433A>G	c.(433-435)AAA>GAA	p.K145E		NM_024065	NP_076970	Q9H2J4	PDCL3_HUMAN	phosducin-like 3	145					apoptosis|interspecies interaction between organisms	cytoplasm	protein binding				0						TCCTGATGTCAAATTTATCAA	0.403													8	189					0	0	0.00308	0	0		G	101188116	G	G	101188116	3	3	19	1	0	0	0	0	1	0	0	0	11647	131	5	3	451	3	PDCL3	2	101188116	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1777090	101188116	142011257	377	13890											
NPAS2	4862	broad.mit.edu	37	chr2	101591324	101591324	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acactcgacgtgggtgcctcGggccttaataccagtcattc	8	10	10	13	3	1	0	1	0	0	0	4	1	1	0	3	2	2	0	3	2	2	3	rs144494121		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:101591324G>T	uc002tap.1	+	13	1486	c.1200G>T	c.(1198-1200)TCG>TCT	p.S400S	NPAS2_uc010yvt.1_Silent_p.S465S|NPAS2_uc010fit.1_5'UTR	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	400					central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						TGGGTGCCTCGGGCCTTAATA	0.542													6	75					3.59834e-05	3.68852e-05	0.001168	1	0		T	101591324	T	T	101591324	2	4	19	1	0	0	0	0	0	0	0	1	10582	1103	39	5		5	NPAS2	2	101591324	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	403208	101591324	141608049	378	13891											
IL1R1	3554	broad.mit.edu	37	chr2	102781763	102781763	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctaaattacagtggtataAggtaattttattttaaatat	16	17	5	3	0	0	0	0	0	0	0	0	0	0	0	1	2	1	2	1	2	10	10			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:102781763A>G	uc002tbq.2	+	5	803	c.485A>G	c.(484-486)AAG>AGG	p.K162R	IL1R1_uc010fix.2_Missense_Mutation_p.K162R|IL1R1_uc002tbp.2_Missense_Mutation_p.K162R|IL1R1_uc002tbr.2_Missense_Mutation_p.K162R	NM_000877	NP_000868	P14778	IL1R1_HUMAN	interleukin 1 receptor, type I precursor	162	Extracellular (Potential).|Ig-like C2-type 2.				innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity|platelet-derived growth factor receptor binding			skin(1)	1					Anakinra(DB00026)	CAGTGGTATAAGGTAATTTTA	0.308													4	47					0	0	0.009096	0	0		G	102781763	G	G	102781763	3	3	19	1	0	0	0	0	1	0	0	0	7674	86	3	3	495	3	IL1R1	2	102781763	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1190439	102781763	140417610	379	13892											
IL1R1	3554	broad.mit.edu	37	chr2	102782603	102782603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctacttcttgacaatataCactttagtggagtcaaagat	13	14	6	8	0	3	2	1	1	2	1	3	3	3	3	0	1	2	0	0	1	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:102782603C>T	uc002tbq.2	+	6	835	c.517C>T	c.(517-519)CAC>TAC	p.H173Y	IL1R1_uc010fix.2_Missense_Mutation_p.H173Y|IL1R1_uc002tbp.2_Missense_Mutation_p.H173Y|IL1R1_uc002tbr.2_Missense_Mutation_p.H173Y	NM_000877	NP_000868	P14778	IL1R1_HUMAN	interleukin 1 receptor, type I precursor	173	Extracellular (Potential).|Ig-like C2-type 2.				innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity|platelet-derived growth factor receptor binding			skin(1)	1					Anakinra(DB00026)	TGACAATATACACTTTAGTGG	0.413													36	61					0	0	0.005524	0	0		T	102782603	T	T	102782603	3	4	19	1	0	0	0	0	1	0	0	0	7674	478	17	4	531	4	IL1R1	2	102782603	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	840	102782603	140416770	380	13893											
POU3F3	5455	broad.mit.edu	37	chr2	105472990	105472990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caagctgggcttcacgcaggCcgacgtggggttggcgctgg	5	7	18	11	4	1	0	1	0	0	0	1	1	1	0	1	6	1	5	1	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:105472990C>T	uc010ywg.1	+	1	1022	c.1022C>T	c.(1021-1023)GCC>GTC	p.A341V		NM_006236	NP_006227	P20264	PO3F3_HUMAN	POU class 3 homeobox 3	341	POU-specific.				metanephric ascending thin limb development|metanephric DCT cell differentiation|metanephric macula densa development|metanephric thick ascending limb development|negative regulation of apoptosis|positive regulation of cell proliferation	nucleus	sequence-specific DNA binding			ovary(1)	1						TTCACGCAGGCCGACGTGGGG	0.642													27	60					0	0	0.010818	0	0		T	105472990	T	T	105472990	3	4	19	1	0	0	0	0	1	0	0	0	12295	739	26	2	1024	2	POU3F3	2	105472990	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2690387	105472990	137726383	381	13894											
MRPS9	64965	broad.mit.edu	37	chr2	105716151	105716151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactacttactactgatccaCgtgtgagggaacggaagaag	13	8	12	8	2	0	3	0	2	0	1	1	6	1	5	1	2	4	0	1	2	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:105716151C>T	uc002tcn.3	+	11	1191	c.1123C>T	c.(1123-1125)CGT>TGT	p.R375C		NM_182640	NP_872578	P82933	RT09_HUMAN	mitochondrial ribosomal protein S9 precursor	375					DNA damage response, detection of DNA damage|translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0						TACTGATCCACGTGTGAGGGA	0.473													28	40					0	0	0.008361	0	0		T	105716151	T	T	105716151	3	4	19	1	0	0	0	0	1	0	0	0	9867	536	19	1	1165	1	MRPS9	2	105716151	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	243161	105716151	137483222	382	13895											
RGPD3	653489	broad.mit.edu	37	chr2	107041534	107041534	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtgctacttgtttggccAaaaatcacaccacggccctt	12	10	7	12	1	1	0	1	0	0	0	1	0	1	0	3	2	2	2	3	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:107041534A>G	uc010ywi.1	-	20	2946	c.2889T>C	c.(2887-2889)TTT>TTC	p.F963F		NM_001144013	NP_001137485	A6NKT7	RGPD3_HUMAN	RANBP2-like and GRIP domain containing 3	963					intracellular transport		binding			ovary(1)	1						TTGTTTGGCCAAAAATCACAC	0.398													4	242					0	0	0.009096	0	0		G	107041534	G	G	107041534	2	3	19	1	0	0	0	0	0	0	0	1	13312	127	5	3		3	RGPD3	2	107041534	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1325383	107041534	136157839	383	13896											
LIMS1	3987	broad.mit.edu	37	chr2	109292351	109292351	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaaggagctgactgccgAtgcacgggagctgaaagggg	11	4	18	8	2	0	2	0	2	0	0	0	6	0	5	1	5	4	3	1	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:109292351A>G	uc002teg.2	+	6	631	c.512A>G	c.(511-513)GAT>GGT	p.D171G	LIMS1_uc002tef.2_Missense_Mutation_p.D183G|LIMS1_uc002teh.2_Missense_Mutation_p.D171G|LIMS1_uc002tei.2_Missense_Mutation_p.D171G|LIMS1_uc002tej.2_Missense_Mutation_p.D208G|LIMS1_uc002tek.3_Missense_Mutation_p.D233G	NM_004987	NP_004978	P48059	LIMS1_HUMAN	LIM and senescent cell antigen-like domains 1	171	LIM zinc-binding 3.				cell aging|cell junction assembly|cellular response to transforming growth factor beta stimulus|negative regulation of transcription, DNA-dependent	cytosol|focal adhesion|perinuclear region of cytoplasm	protein binding|zinc ion binding				0						CTGACTGCCGATGCACGGGAG	0.537													7	87					0	0	0.006214	0	0		G	109292351	G	G	109292351	3	3	19	1	0	0	0	0	1	0	0	0	8819	333	12	3	530	3	LIMS1	2	109292351	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2250817	109292351	133907022	384	13897											
RANBP2	5903	broad.mit.edu	37	chr2	109382784	109382784	+	Missense_Mutation	SNP	A	G	G																															ggctcaggatattagtggccAgaagaatggccgtggtgtga																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:109382784A>G	uc002tem.3	+	20	5915	c.5789A>G	c.(5788-5790)CAG>CGG	p.Q1930R		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1930					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						ATTAGTGGCCAGAAGAATGGC	0.403													45	177					0	0	0.01441	0	0		G	109382784	G	G	109382784	3	3	19	1	0	0	0	0	1	0	0	0	13053	188	7	3	5867	3	RANBP2	2	109382784	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	90433	109382784	133816589	385	13898	23	2									
RANBP2	5903	broad.mit.edu	37	chr2	109382791	109382791	+	Missense_Mutation	SNP	T	G	G																															gatattagtggccagaagaaTggccgtggtgtgatttttgg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:109382791T>G	uc002tem.3	+	20	5922	c.5796T>G	c.(5794-5796)AAT>AAG	p.N1932K		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1932					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GCCAGAAGAATGGCCGTGGTG	0.408													43	185					0	0	0.013114	0	0		G	109382791	G	G	109382791	3	3	19	1	0	0	0	0	1	0	0	0	13053	1461	51	5	5874	5	RANBP2	2	109382791	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	7	109382791	133816582	386	13899	23	2									
RANBP2	5903	broad.mit.edu	37	chr2	109388156	109388156	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttttgactggtgttacaGcaaaagagaagaaaaaacct	16	12	8	5	0	0	3	0	1	0	2	0	4	0	3	1	1	3	2	1	1	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:109388156G>T	uc002tem.3	+	21	7976	c.7850_splice	c.e21-1	p.A2617_splice		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2						carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TGGTGTTACAGCAAAAGAGAA	0.348													71	149					3.13765e-25	3.35223e-25	0.01441	1	0		T	109388156	T	T	109388156	5	4	19	1	0	0	0	0	0	0	1	0	13053	985	34	5	7931	5	RANBP2	2	109388156	Splice_Site	SNP	G	TCGA-BR-4361-01A-01D-1158-08	5365	109388156	133811217	387	13900											
BUB1	699	broad.mit.edu	37	chr2	111413438	111413438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccagggttttgttgcagCgaataccccatacagttgag	9	11	12	9	1	0	1	0	1	0	0	0	2	0	1	3	1	5	4	3	1	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:111413438C>T	uc002tgc.2	-	16	1866	c.1754G>A	c.(1753-1755)CGC>CAC	p.R585H	BUB1_uc010yxh.1_Missense_Mutation_p.R565H|BUB1_uc010fkb.2_Missense_Mutation_p.R585H	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	585					apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		TTTGTTGCAGCGAATACCCCA	0.468													88	257					0	0	0.01441	0	0		T	111413438	T	T	111413438	3	4	19	1	0	0	0	0	1	0	0	0	1573	768	27	1	1543	1	BUB1	2	111413438	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2025282	111413438	131785935	388	13901											
BCL2L11	10018	broad.mit.edu	37	chr2	111881525	111881525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggcccgctggccccacctgCcagccctggcccttttgcta	3	8	11	19	1	0	0	0	0	0	0	0	0	0	0	7	3	3	2	7	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:111881525C>T	uc002tgv.1	+	2	491	c.203C>T	c.(202-204)GCC>GTC	p.A68V	BCL2L11_uc002tgt.1_Intron|BCL2L11_uc002tgu.1_Intron|BCL2L11_uc002tgw.1_Intron|BCL2L11_uc002tgx.1_Intron|BCL2L11_uc010fkd.1_Intron|BCL2L11_uc002tgy.1_Intron|BCL2L11_uc002tgz.1_Intron|BCL2L11_uc010fke.1_Intron|BCL2L11_uc002tha.1_Missense_Mutation_p.A68V|BCL2L11_uc002thb.1_Intron|BCL2L11_uc002thc.1_Intron|BCL2L11_uc002thd.1_Intron	NM_138621	NP_619527	O43521	B2L11_HUMAN	BCL2-like 11 isoform 1	68					activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|nerve growth factor receptor signaling pathway|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria	cytosol|endomembrane system|mitochondrial outer membrane|plasma membrane	protein binding|protein binding				0						GCCCCACCTGCCAGCCCTGGC	0.577													21	56					0	0	0.014323	0	0		T	111881525	T	T	111881525	3	4	19	1	0	0	0	0	1	0	0	0	1370	739	26	2	205	2	BCL2L11	2	111881525	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	468087	111881525	131317848	389	13902											
ANAPC1	64682	broad.mit.edu	37	chr2	112636490	112636492	+	In_Frame_Del	DEL	TCA	-	-																															ttccagcaacatagagttccTcatcatagtccacatcttct																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:112636490_112636492delTCA	uc002thi.2	-	3	517_519	c.270_272delTGA	c.(268-273)GATGAG>GAG	p.D90del	ANAPC1_uc002thj.2_In_Frame_Del_p.D80del	NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	90					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						ATAGAGTTCCTCATCATAGTCCA	0.369													37	64	---	---	---	---						.	-	112636492	-	-	112636490	7	5	19	1	0	1	0	1	0	0	0	0	598	1551	54	0	5746	0	ANAPC1	2	112636490	In_Frame_Del	DEL	TCA	TCGA-BR-4361-01A-01D-1158-08	754965	112636490	130562883	390	13903											
PTPN4	5775	broad.mit.edu	37	chr2	120677773	120677773	+	Frame_Shift_Del	DEL	T	-	-																															ccacttccacctcaaaagaaTttttttgcacattattttac																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:120677773delT	uc002tmf.1	+	12	1728	c.957delT	c.(955-957)AATfs	p.N319fs	PTPN4_uc010flj.1_Frame_Shift_Del_p.N32fs	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	319						cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	CTCAAAAGAATTTTTTTGCAC	0.333													70	153	---	---	---	---						.	-	120677773	-	-	120677773	7	5	19	1	0	1	0	1	0	0	0	0	12815	1490	52	0	999	0	PTPN4	2	120677773	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	8041283	120677773	122521600	391	13904											
CLASP1	23332	broad.mit.edu	37	chr2	122286340	122286340	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagcatctcctagtctgtcTattagacttggcagcactga	9	14	8	10	0	3	2	0	1	3	1	4	2	3	2	1	1	2	3	1	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:122286340T>C	uc002tnc.2	-	4	681	c.291A>G	c.(289-291)ATA>ATG	p.I97M	CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Missense_Mutation_p.I97M|CLASP1_uc010yza.1_Missense_Mutation_p.I97M|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_Intron|CLASP1_uc002tng.1_Missense_Mutation_p.I97M|RNU4ATAC_uc010yzd.1_5'Flank	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	97	HEAT 1.				axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					CTAGTCTGTCTATTAGACTTG	0.453													7	237					0	0	0.004482	0	0		C	122286340	C	C	122286340	3	2	19	1	0	0	0	0	1	0	0	0	3457	1512	53	3	4525	3	CLASP1	2	122286340	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1608567	122286340	120913033	392	13905											
IWS1	55677	broad.mit.edu	37	chr2	128249592	128249592	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gttagaccttgactccttggGgtgtttatagagatacatca	10	14	10	7	0	1	3	1	1	0	2	2	4	2	3	2	2	1	2	2	2	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:128249592G>T	uc002ton.2	-	10	2305	c.2002C>A	c.(2002-2004)CCC>ACC	p.P668T	IWS1_uc010yzl.1_RNA	NM_017969	NP_060439	Q96ST2	IWS1_HUMAN	IWS1 homolog	668	TFIIS N-terminal.				transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0735)		GACTCCTTGGGGTGTTTATAG	0.413													19	72					1.87028e-06	1.93075e-06	0.012319	1	0		T	128249592	T	T	128249592	3	4	19	1	0	0	0	0	1	0	0	0	7947	1232	43	5	477	5	IWS1	2	128249592	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	5963252	128249592	114949781	393	13906											
SAP130	79595	broad.mit.edu	37	chr2	128750826	128750826	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtatgtgccgccagtgggTatgcagaaggggggtaagtt	9	9	18	5	1	0	1	0	0	0	1	0	1	0	1	2	5	2	5	2	5	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:128750826T>C	uc002tpp.2	-	12	1622	c.1490A>G	c.(1489-1491)TAC>TGC	p.Y497C	SAP130_uc002tpn.2_Missense_Mutation_p.Y258C|SAP130_uc002tpo.2_Missense_Mutation_p.Y242C|SAP130_uc010fmd.2_Missense_Mutation_p.Y497C|SAP130_uc002tpq.1_Missense_Mutation_p.Y470C	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	497					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		CGCCAGTGGGTATGCAGAAGG	0.453													58	94					0	0	0.01441	0	0		C	128750826	C	C	128750826	3	2	19	1	0	0	0	0	1	0	0	0	13856	1638	57	3	1801	3	SAP130	2	128750826	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	501234	128750826	114448547	394	13907											
CCDC74B	91409	broad.mit.edu	37	chr2	130897491	130897491	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaggctcttggtggagAccttggggaaatgcgtggct	7	10	18	6	1	1	2	0	0	1	2	1	5	1	3	1	7	1	2	1	7	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:130897491A>G	uc002tqm.1	-	7	1042	c.980T>C	c.(979-981)GTC>GCC	p.V327A	CCDC74B_uc010yzw.1_Missense_Mutation_p.V429A|CCDC74B_uc002tqn.1_Missense_Mutation_p.V261A	NM_207310	NP_997193	Q96LY2	CC74B_HUMAN	coiled-coil domain containing 74B	327											0	Colorectal(110;0.1)					CTTGGTGGAGACCTTGGGGAA	0.637													9	77					0	0	0.003163	0	0		G	130897491	G	G	130897491	3	3	19	1	0	0	0	0	1	0	0	0	2851	275	10	3	170	3	CCDC74B	2	130897491	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2146665	130897491	112301882	395	13908											
SMPD4	55627	broad.mit.edu	37	chr2	130912735	130912735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcggaacaccatgagcgCgtgcttggggctgaccaggt	8	7	14	12	3	0	2	0	2	0	0	1	3	0	3	2	4	3	2	2	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:130912735C>T	uc002tqq.1	-	15	2024	c.1504G>A	c.(1504-1506)GCG>ACG	p.A502T	SMPD4_uc002tqo.1_5'UTR|SMPD4_uc002tqp.1_Missense_Mutation_p.A241T|SMPD4_uc010yzy.1_Missense_Mutation_p.A251T|SMPD4_uc010yzz.1_Missense_Mutation_p.A166T|SMPD4_uc002tqr.1_Missense_Mutation_p.A473T|SMPD4_uc002tqs.1_Missense_Mutation_p.A370T|SMPD4_uc002tqt.1_Missense_Mutation_p.A351T|SMPD4_uc010zaa.1_Missense_Mutation_p.A360T|SMPD4_uc010zab.1_Missense_Mutation_p.A400T|SMPD4_uc010zac.1_Missense_Mutation_p.A243T|SMPD4_uc010zad.1_Missense_Mutation_p.A138T	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	463					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	ACCATGAGCGCGTGCTTGGGG	0.582													6	77					0	0	0.008291	0	0		T	130912735	T	T	130912735	3	4	19	1	0	0	0	0	1	0	0	0	14832	768	27	1	1120	1	SMPD4	2	130912735	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	15244	130912735	112286638	396	13909											
SMPD4	55627	broad.mit.edu	37	chr2	130931134	130931134	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtactccacaggattcacGcgcccctgtaagcagcggag	9	7	11	14	3	1	0	1	0	0	0	2	2	2	2	3	2	3	3	3	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:130931134G>A	uc002tqq.1	-	4	859	c.339C>T	c.(337-339)CGC>CGT	p.R113R	SMPD4_uc002tqp.1_5'Flank|SMPD4_uc010yzy.1_Intron|SMPD4_uc010yzz.1_Intron|SMPD4_uc002tqr.1_Silent_p.R113R|SMPD4_uc002tqs.1_Intron|SMPD4_uc002tqt.1_5'UTR|SMPD4_uc010zaa.1_Missense_Mutation_p.R26C|SMPD4_uc010zab.1_Intron|SMPD4_uc010zac.1_Intron|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	74					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	CAGGATTCACGCGCCCCTGTA	0.547													9	37					0	0	0.006214	0	0		A	130931134	A	A	130931134	2	1	19	1	0	0	0	0	0	0	0	1	14832	1074	38	1		1	SMPD4	2	130931134	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	18399	130931134	112268239	397	13910											
TUBA3D	113457	broad.mit.edu	37	chr2	132237972	132237972	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgattgggcagatcgtgTcctccatcacagcctccctg	6	10	10	15	1	1	2	1	1	0	1	5	2	4	2	5	1	1	1	5	1	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:132237972T>C	uc002tsu.3	+	4	813	c.706T>C	c.(706-708)TCC>CCC	p.S236P		NM_080386	NP_525125	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	236					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(221;0.13)		GCAGATCGTGTCCTCCATCAC	0.552													59	124					0	0	0.01441	0	0		C	132237972	C	C	132237972	3	2	19	1	0	0	0	0	1	0	0	0	16773	1667	58	3	720	3	TUBA3D	2	132237972	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1306838	132237972	110961401	398	13911											
CCDC74A	90557	broad.mit.edu	37	chr2	132290615	132290615	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccacgcatttccccaaggTctccaccaagagcctctcca	10	7	6	18	1	2	1	0	0	2	1	5	1	3	1	7	1	2	1	7	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:132290615T>C	uc002tta.2	+	7	1032	c.980T>C	c.(979-981)GTC>GCC	p.V327A	CCDC74A_uc002ttb.2_Missense_Mutation_p.V261A	NM_138770	NP_620125	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	327										skin(1)	1						TTCCCCAAGGTCTCCACCAAG	0.632													5	46					0	0	0.00245	0	0		C	132290615	C	C	132290615	3	2	19	1	0	0	0	0	1	0	0	0	2850	1667	58	3	1006	3	CCDC74A	2	132290615	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	52643	132290615	110908758	399	13912											
UBXN4	23190	broad.mit.edu	37	chr2	136530012	136530012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtgcagagagagctgctcGttttgcaaagacaaaggaag	13	7	13	8	2	0	3	0	0	0	3	1	5	0	4	1	1	4	5	1	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:136530012G>A	uc002tur.2	+	9	1156	c.845G>A	c.(844-846)CGT>CAT	p.R282H	UBXN4_uc002tus.2_Missense_Mutation_p.R48H	NM_014607	NP_055422	Q92575	UBXN4_HUMAN	UBX domain containing 2	282	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|nuclear envelope	protein binding			skin(2)	2						AGAGCTGCTCGTTTTGCAAAG	0.413													34	67					0	0	0.006999	0	0		A	136530012	A	A	136530012	3	1	19	1	0	0	0	0	1	0	0	0	16942	1145	40	1	879	1	UBXN4	2	136530012	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4239397	136530012	106669361	400	13913											
LRP1B	53353	broad.mit.edu	37	chr2	141143483	141143483	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagttttcttcatctgaatTatcactgcagtcattttggc	9	17	6	9	0	5	1	3	1	2	0	5	1	5	1	0	1	1	2	0	1	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:141143483T>C	uc002tvj.1	-	67	11482	c.10510A>G	c.(10510-10512)AAT>GAT	p.N3504D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3504	Extracellular (Potential).|LDL-receptor class A 25.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TCATCTGAATTATCACTGCAG	0.373										TSP Lung(27;0.18)			5	70					0	0	0.000602	0	0		C	141143483	C	C	141143483	3	2	19	1	0	0	0	0	1	0	0	0	8973	1754	61	3	3389	3	LRP1B	2	141143483	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4613471	141143483	102055890	401	13914											
LRP1B	53353	broad.mit.edu	37	chr2	141356355	141356355	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttcccagtcagagtagAtctcatgatacttggatgtt	10	16	8	7	0	2	3	2	1	1	2	4	4	3	4	1	1	1	2	1	1	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:141356355A>G	uc002tvj.1	-	43	8011	c.7039T>C	c.(7039-7041)TCT>CCT	p.S2347P		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2347	Extracellular (Potential).|LDL-receptor class B 25.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GTCAGAGTAGATCTCATGATA	0.358										TSP Lung(27;0.18)			4	55					0	0	0.009096	0	0		G	141356355	G	G	141356355	3	3	19	1	0	0	0	0	1	0	0	0	8973	333	12	3	6956	3	LRP1B	2	141356355	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	212872	141356355	101843018	402	13915											
LRP1B	53353	broad.mit.edu	37	chr2	141806579	141806579	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttcaggatggtttctctctCtgtgccatctatcttctgcc	4	18	7	12	0	6	0	1	0	5	0	8	1	6	1	2	2	2	1	2	2	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:141806579C>G	uc002tvj.1	-	11	2737	c.1765G>C	c.(1765-1767)GAG>CAG	p.E589Q	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	589	Extracellular (Potential).|LDL-receptor class B 5.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GTTTCTCTCTCTGTGCCATCT	0.428										TSP Lung(27;0.18)			41	107					0	0	0.01441	0	0		G	141806579	G	G	141806579	3	3	19	1	0	0	0	0	1	0	0	0	8973	922	32	5	12358	5	LRP1B	2	141806579	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	450224	141806579	101392794	403	13916											
LRP1B	53353	broad.mit.edu	37	chr2	142238089	142238089	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaaggggcacttgatttcTacctcctcgggacctgaaaa	10	11	9	11	1	2	2	1	2	1	0	4	3	3	3	3	3	1	1	3	3	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:142238089T>C	uc002tvj.1	-	3	1191	c.219A>G	c.(217-219)GTA>GTG	p.V73V	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	73	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACTTGATTTCTACCTCCTCGG	0.398										TSP Lung(27;0.18)			4	129					0	0	0.000602	0	0		C	142238089	C	C	142238089	2	2	19	1	0	0	0	0	0	0	0	1	8973	1509	53	3		3	LRP1B	2	142238089	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	431510	142238089	100961284	404	13917											
KYNU	8942	broad.mit.edu	37	chr2	143676273	143676273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggttaaaacatatcttgaaGaagaactagataagtgggcc	16	10	10	5	0	1	4	0	1	1	3	1	4	1	4	1	2	2	1	1	2	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:143676273G>A	uc002tvl.2	+	3	395	c.265G>A	c.(265-267)GAA>AAA	p.E89K	KYNU_uc002tvk.2_Missense_Mutation_p.E89K|KYNU_uc010fnm.2_Missense_Mutation_p.E89K	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	89					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	ATATCTTGAAGAAGAACTAGA	0.289													6	25					0	0	0.00308	0	0		A	143676273	A	A	143676273	3	1	19	1	0	0	0	0	1	0	0	0	8603	943	33	4	271	4	KYNU	2	143676273	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1438184	143676273	99523100	405	13918											
KYNU	8942	broad.mit.edu	37	chr2	143718341	143718341	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagctggacaagcgaaggTatgcacgccatttacttctt	13	10	9	9	2	1	0	0	0	1	0	1	2	1	1	1	2	4	3	1	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:143718341T>C	uc002tvl.2	+	8	859	c.729_splice	c.e8+2	p.K243_splice	KYNU_uc002tvk.2_Splice_Site_p.K243_splice|KYNU_uc010fnm.2_Splice_Site_p.K243_splice	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a						anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	CAAGCGAAGGTATGCACGCCA	0.428													10	124					0	0	0.00245	0	0		C	143718341	C	C	143718341	5	2	19	1	0	0	0	0	0	0	1	0	8603	1652	57	3	757	3	KYNU	2	143718341	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	42068	143718341	99481032	406	13919											
ARHGAP15	55843	broad.mit.edu	37	chr2	143913190	143913190	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagccaaagtaaatccaTgatcctcaccgatgtcggga	12	8	9	12	2	2	1	2	1	0	0	5	3	4	2	4	1	1	2	4	1	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:143913190T>C	uc002tvm.3	+	2	282	c.131T>C	c.(130-132)ATG>ACG	p.M44T	ARHGAP15_uc010zbl.1_Missense_Mutation_p.M44T	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	44					regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		AGTAAATCCATGATCCTCACC	0.433													24	35					0	0	0.00632	0	0		C	143913190	C	C	143913190	3	2	19	1	0	0	0	0	1	0	0	0	866	1464	51	3	133	3	ARHGAP15	2	143913190	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	194849	143913190	99286183	407	13920											
ARHGAP15	55843	broad.mit.edu	37	chr2	144276929	144276929	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcattgaagctgttgagaaAagaggtgggtgactgaatgt	12	11	15	3	0	0	5	0	4	0	2	0	6	0	5	0	2	2	3	0	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:144276929A>G	uc002tvm.3	+	10	1072	c.921A>G	c.(919-921)AAA>AAG	p.K307K	ARHGAP15_uc002tvn.2_Silent_p.K73K	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	307	Rho-GAP.				regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		CTGTTGAGAAAAGAGGTGGGT	0.453													5	123					0	0	0.001168	0	0		G	144276929	G	G	144276929	2	3	19	1	0	0	0	0	0	0	0	1	866	11	1	3		3	ARHGAP15	2	144276929	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	363739	144276929	98922444	408	13921											
ZEB2	9839	broad.mit.edu	37	chr2	145187336	145187336	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgattttagacacttacCtggaccatctacagaggctt	12	12	8	9	0	1	3	0	1	1	2	1	4	1	4	2	2	2	1	2	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:145187336C>A	uc002tvu.2	-	3	811	c.331G>T	c.(331-333)GAA>TAA	p.E111*	ZEB2_uc002tvv.2_Nonsense_Mutation_p.E106*|ZEB2_uc010zbm.1_Missense_Mutation_p.V106L|ZEB2_uc010fnp.2_Missense_Mutation_p.D106Y|ZEB2_uc010fnq.1_Nonsense_Mutation_p.E140*|ZEB2_uc002tvw.2_Missense_Mutation_p.G106C	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	111						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		AGACACTTACCTGGACCATCT	0.448													12	52					1.37285e-15	1.45394e-15	0.004007	1	0		A	145187336	A	A	145187336	4	1	19	1	0	0	0	0	0	1	0	0	17649	695	24	5	3345	5	ZEB2	2	145187336	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	910407	145187336	98012037	409	13922											
KIF5C	3800	broad.mit.edu	37	chr2	149853788	149853788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaaacagaaaaaatgcaCgaagtcagcttccaggataa	19	7	7	8	1	2	1	2	0	0	1	3	3	3	2	1	1	3	2	1	1	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:149853788C>T	uc010zbu.1	+	18	2402	c.2034C>T	c.(2032-2034)CAC>CAT	p.H678H	KIF5C_uc002tws.1_RNA|KIF5C_uc002twt.2_Silent_p.H230H|KIF5C_uc002twu.1_5'Flank	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	678					microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		AAAAAATGCACGAAGTCAGCT	0.408													14	31					0	0	0.004007	0	0		T	149853788	T	T	149853788	2	4	19	1	0	0	0	0	0	0	0	1	8323	535	19	1		1	KIF5C	2	149853788	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4666452	149853788	93345585	410	13923											
KIF5C	3800	broad.mit.edu	37	chr2	149868108	149868108	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccatccgccccggacactAcccggcctcatctccaacgg	7	5	8	21	4	2	0	1	0	1	0	4	1	3	1	7	3	2	0	7	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:149868108A>G	uc010zbu.1	+	25	3160	c.2792A>G	c.(2791-2793)TAC>TGC	p.Y931C	KIF5C_uc002tws.1_RNA|KIF5C_uc002twu.1_Missense_Mutation_p.Y213C	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	931	Globular.				microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		CCCGGACACTACCCGGCCTCA	0.498													4	93					0	0	0.000602	0	0		G	149868108	G	G	149868108	3	3	19	1	0	0	0	0	1	0	0	0	8323	391	14	3	2812	3	KIF5C	2	149868108	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	14320	149868108	93331265	411	13924											
RIF1	55183	broad.mit.edu	37	chr2	152273138	152273138	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagaattcagacaaaaatgTacgtactagagcactttggg	16	10	9	6	1	1	3	1	0	0	3	1	3	1	3	0	1	3	3	0	1	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:152273138T>C	uc002txm.2	+	5	474	c.344T>C	c.(343-345)GTA>GCA	p.V115A	RIF1_uc002txl.2_Missense_Mutation_p.V115A|RIF1_uc010fnv.1_Missense_Mutation_p.V79A|RIF1_uc002txn.2_Missense_Mutation_p.V115A|RIF1_uc002txo.2_Missense_Mutation_p.V115A|RIF1_uc010zby.1_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	115					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		GACAAAAATGTACGTACTAGA	0.343													17	359					0	0	0.010504	0	0		C	152273138	C	C	152273138	3	2	19	1	0	0	0	0	1	0	0	0	13384	1638	57	3	358	3	RIF1	2	152273138	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2405030	152273138	90926235	412	13925											
RIF1	55183	broad.mit.edu	37	chr2	152273371	152273371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtttaacaaaggagagacGcattctgctgttgttgattt	10	15	10	6	1	1	2	0	1	1	1	1	4	1	3	0	1	2	5	0	1	2	6	rs149505451	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:152273371G>A	uc002txm.2	+	6	589	c.459G>A	c.(457-459)ACG>ACA	p.T153T	RIF1_uc002txl.2_Silent_p.T153T|RIF1_uc010fnv.1_Silent_p.T117T|RIF1_uc002txn.2_Silent_p.T153T|RIF1_uc002txo.2_Silent_p.T153T|RIF1_uc010zby.1_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	153					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		AAGGAGAGACGCATTCTGCTG	0.299													4	72					0	0	0.000602	0	0		A	152273371	A	A	152273371	2	1	19	1	0	0	0	0	0	0	0	1	13384	1074	38	1		1	RIF1	2	152273371	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	233	152273371	90926002	413	13926											
ARL5A	26225	broad.mit.edu	37	chr2	152670734	152670734	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgaagagattcttggccAccaatatcccacattaggaa	15	8	8	10	1	1	1	0	0	1	1	2	5	2	2	3	2	1	0	3	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:152670734A>G	uc002txx.1	-	3	523	c.204T>C	c.(202-204)GGT>GGC	p.G68G	ARL5A_uc010zcc.1_RNA|ARL5A_uc002txv.1_Silent_p.G31G|ARL5A_uc002txw.1_Silent_p.G31G	NM_012097	NP_036229	Q9Y689	ARL5A_HUMAN	ADP-ribosylation factor-like 5A isoform 1	68	GTP (By similarity).				small GTPase mediated signal transduction	intracellular	GTP binding				0				BRCA - Breast invasive adenocarcinoma(221;0.153)		ATTCTTGGCCACCAATATCCC	0.333													6	126					0	0	0.001984	0	0		G	152670734	G	G	152670734	2	3	19	1	0	0	0	0	0	0	0	1	940	146	6	3		3	ARL5A	2	152670734	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	397363	152670734	90528639	414	13927											
STAM2	10254	broad.mit.edu	37	chr2	152982811	152982811	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgaatagactgagtacaCtggtgcttcattcaccaatt	11	14	7	9	0	2	3	2	2	0	1	2	3	2	3	1	1	2	2	1	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:152982811C>G	uc002tyc.3	-	12	1458	c.1108G>C	c.(1108-1110)GTG>CTG	p.V370L	STAM2_uc010foa.1_Missense_Mutation_p.V370L	NM_005843	NP_005834	O75886	STAM2_HUMAN	signal transducing adaptor molecule 2	370	ITAM.				cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.22)		ACTGAGTACACTGGTGCTTCA	0.408													11	28					0	0	0.010729	0	0		G	152982811	G	G	152982811	3	3	19	1	0	0	0	0	1	0	0	0	15274	565	20	5	481	5	STAM2	2	152982811	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	312077	152982811	90216562	415	13928											
KCNJ3	3760	broad.mit.edu	37	chr2	155555563	155555563	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttcattctcacctacacCgtggcctggcttttcatggc	6	14	7	14	1	4	0	3	0	2	0	5	0	4	0	3	3	1	1	3	3	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:155555563C>T	uc002tyv.1	+	1	471	c.276C>T	c.(274-276)ACC>ACT	p.T92T	KCNJ3_uc010zce.1_Silent_p.T92T	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	92	Helical; Name=M1; (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	TCACCTACACCGTGGCCTGGC	0.597													23	60					0	0	0.003954	0	0		T	155555563	T	T	155555563	2	4	19	1	0	0	0	0	0	0	0	1	8068	639	23	1		1	KCNJ3	2	155555563	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2572752	155555563	87643810	416	13929											
UPP2	151531	broad.mit.edu	37	chr2	158978111	158978111	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgttggacatacaatgtgTacctatgatttttatgaagg	11	15	9	6	1	0	2	0	2	0	0	1	3	0	3	1	2	2	2	1	2	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:158978111T>C	uc002tzp.2	+	5	839	c.645T>C	c.(643-645)TGT>TGC	p.C215C	UPP2_uc002tzo.2_Silent_p.C272C	NM_173355	NP_775491	O95045	UPP2_HUMAN	uridine phosphorylase 2 isoform a	215					nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage|uridine metabolic process	cytosol|type III intermediate filament	uridine phosphorylase activity				0						ATACAATGTGTACCTATGATT	0.368													7	113					0	0	0.001984	0	0		C	158978111	C	C	158978111	2	2	19	1	0	0	0	0	0	0	0	1	17039	1644	57	3		3	UPP2	2	158978111	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3422548	158978111	84221262	417	13930											
UPP2	151531	broad.mit.edu	37	chr2	158978125	158978125	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgtgtacctatgatttttAtgaaggtgagaacaatttat	14	16	8	3	0	0	3	0	3	0	1	0	4	0	3	1	1	2	1	1	1	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:158978125A>T	uc002tzp.2	+	5	853	c.659A>T	c.(658-660)TAT>TTT	p.Y220F	UPP2_uc002tzo.2_Missense_Mutation_p.Y277F	NM_173355	NP_775491	O95045	UPP2_HUMAN	uridine phosphorylase 2 isoform a	220					nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage|uridine metabolic process	cytosol|type III intermediate filament	uridine phosphorylase activity				0						TATGATTTTTATGAAGGTGAG	0.353													14	88					0	0	0.00245	0	0		T	158978125	T	T	158978125	3	4	19	1	0	0	0	0	1	0	0	0	17039	449	16	5	856	5	UPP2	2	158978125	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	14	158978125	84221248	418	13931											
PKP4	8502	broad.mit.edu	37	chr2	159481713	159481713	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccctcaataccaaaccacCgccagagtggggtccccact	11	5	7	18	1	1	1	1	0	0	1	2	1	2	1	8	2	2	0	8	2	3	1	rs150827409		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:159481713C>T	uc002tzv.2	+	7	1187	c.927C>T	c.(925-927)ACC>ACT	p.T309T	PKP4_uc002tzt.1_Silent_p.T161T|PKP4_uc002tzu.2_Silent_p.T309T|PKP4_uc002tzw.2_Silent_p.T309T|PKP4_uc002tzx.2_5'UTR|PKP4_uc002tzy.1_5'UTR|PKP4_uc002tzz.1_Silent_p.T307T|PKP4_uc002uaa.2_Silent_p.T161T	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	309					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						ACCAAACCACCGCCAGAGTGG	0.627										HNSCC(62;0.18)			21	38					0	0	0.014323	0	0		T	159481713	T	T	159481713	2	4	19	1	0	0	0	0	0	0	0	1	12006	639	23	1		1	PKP4	2	159481713	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	503588	159481713	83717660	419	13932											
TANC1	85461	broad.mit.edu	37	chr2	159954333	159954334	+	Frame_Shift_Ins	INS	-	A	A																															tggtgcaatcaagagtgaacINSaaaaaatccccaggtaaaca																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:159954333_159954334insA	uc002uag.2	+	4	520_521	c.246_247insA	c.(244-249)AACAAAfs	p.N82fs	TANC1_uc010fol.1_Frame_Shift_Ins_p.N82fs|TANC1_uc010zcm.1_Frame_Shift_Ins_p.N82fs|TANC1_uc010fom.1_Frame_Shift_Ins_p.N82fs	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	82_83						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CAAGAGTGAACAAAAAATCCCC	0.455													76	162	---	---	---	---						.	A	159954334	A	A	159954333	7	5	19	1	0	1	1	0	0	0	0	0	15569	477	17	0	252	0	TANC1	2	159954333	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	472620	159954333	83245040	420	13933											
TANC1	85461	broad.mit.edu	37	chr2	160028760	160028760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accagagaccaagagaggatGcagtgaaatatcttgcttct	14	9	10	8	0	2	3	0	1	2	2	2	6	2	4	2	1	2	2	2	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:160028760G>A	uc002uag.2	+	11	1754	c.1480G>A	c.(1480-1482)GCA>ACA	p.A494T	TANC1_uc010fol.1_Missense_Mutation_p.A388T|TANC1_uc010zcm.1_Missense_Mutation_p.A486T|TANC1_uc010fom.1_Missense_Mutation_p.A300T	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	494						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						AAGAGAGGATGCAGTGAAATA	0.428													7	54					0	0	0.001984	0	0		A	160028760	A	A	160028760	3	1	19	1	0	0	0	0	1	0	0	0	15569	1319	46	2	1514	2	TANC1	2	160028760	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	74427	160028760	83170613	421	13934											
BAZ2B	29994	broad.mit.edu	37	chr2	160206353	160206353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagaagcagttgacatatCggcatgagtaagtgaagtgt	15	9	12	5	1	0	4	0	3	0	1	1	4	0	4	0	1	1	4	0	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:160206353C>T	uc002uao.2	-	28	5081	c.4729G>A	c.(4729-4731)GAT>AAT	p.D1577N	BAZ2B_uc002uap.2_Missense_Mutation_p.D1541N	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	1577					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						GTTGACATATCGGCATGAGTA	0.463													75	153					0	0	0.01441	0	0		T	160206353	T	T	160206353	3	4	19	1	0	0	0	0	1	0	0	0	1333	884	31	1	1817	1	BAZ2B	2	160206353	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	177593	160206353	82993020	422	13935											
BAZ2B	29994	broad.mit.edu	37	chr2	160289437	160289437	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggatgggagtgatgctgTgtttttactgggtttacatt	7	16	14	4	0	0	1	0	1	0	0	0	3	0	3	0	3	3	4	0	3	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:160289437T>C	uc002uao.2	-	9	2083	c.1731A>G	c.(1729-1731)ACA>ACG	p.T577T	BAZ2B_uc002uap.2_Silent_p.T575T|BAZ2B_uc002uas.1_Silent_p.T514T|BAZ2B_uc002uaq.1_Silent_p.T505T|BAZ2B_uc002uar.1_Silent_p.T150T	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	577					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						AGTGATGCTGTGTTTTTACTG	0.413													8	180					0	0	0.006214	0	0		C	160289437	C	C	160289437	2	2	19	1	0	0	0	0	0	0	0	1	1333	1683	59	3		3	BAZ2B	2	160289437	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	83084	160289437	82909936	423	13936											
SLC4A10	57282	broad.mit.edu	37	chr2	162760516	162760516	+	Frame_Shift_Del	DEL	T	-	-																															ttttcccccctgtcttaggaTttttgggggacttattttag																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:162760516delT	uc002ubx.3	+	13	1629	c.1445delT	c.(1444-1446)ATTfs	p.I482fs	SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Frame_Shift_Del_p.I452fs|SLC4A10_uc010zcs.1_Frame_Shift_Del_p.I463fs	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	482	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						TGTCTTAGGATTTTTGGGGGA	0.378													3	6	---	---	---	---						.	-	162760516	-	-	162760516	7	5	19	1	0	1	0	1	0	0	0	0	14676	1493	52	0	1580	0	SLC4A10	2	162760516	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	2471079	162760516	80438857	424	13937											
FIGN	55137	broad.mit.edu	37	chr2	164466663	164466663	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taattttctctgcttctcctAaccacttggcgactagtcca	8	15	5	13	1	2	0	0	0	2	0	5	1	3	0	3	1	2	1	3	1	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:164466663A>G	uc002uck.1	-	3	1990	c.1679T>C	c.(1678-1680)TTA>TCA	p.L560S		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	560						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						TGCTTCTCCTAACCACTTGGC	0.498													6	65					0	0	0.00308	0	0		G	164466663	G	G	164466663	3	3	19	1	0	0	0	0	1	0	0	0	5905	372	13	3	604	3	FIGN	2	164466663	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1706147	164466663	78732710	425	13938											
FIGN	55137	broad.mit.edu	37	chr2	164467532	164467532	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcaggtacgctgaaggCggaggcggtgcccccccagg	8	3	18	12	3	0	1	0	1	0	0	0	3	0	2	3	7	2	3	3	7	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:164467532C>T	uc002uck.1	-	3	1121	c.810G>A	c.(808-810)CCG>CCA	p.P270P		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	270	Pro-rich.					nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						ACGCTGAAGGCGGAGGCGGTG	0.597													19	55					0	0	0.008871	0	0		T	164467532	T	T	164467532	2	4	19	1	0	0	0	0	0	0	0	1	5905	755	27	1		1	FIGN	2	164467532	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	869	164467532	78731841	426	13939											
GRB14	2888	broad.mit.edu	37	chr2	165364963	165364963	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcatgcctccggcgagattAccttaagcaatctaatcgcg	10	11	8	12	4	2	1	1	0	1	1	4	2	3	1	3	1	3	1	3	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:165364963A>G	uc002ucl.2	-	8	1564	c.1023_splice	c.e8+1	p.K341_splice	GRB14_uc010zcv.1_Splice_Site_p.K254_splice|GRB14_uc002ucm.2_Splice_Site	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14						blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						CGGCGAGATTACCTTAAGCAA	0.468													19	47					0	0	0.010504	0	0		G	165364963	G	G	165364963	5	3	19	1	0	0	0	0	0	0	1	0	6773	405	14	3	625	3	GRB14	2	165364963	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	897431	165364963	77834410	427	13940											
GRB14	2888	broad.mit.edu	37	chr2	165365296	165365296	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgctccatgttttttttTgcctgccagtgacacataaa	8	15	8	10	1	0	1	0	1	0	0	1	1	1	1	3	1	3	2	3	1	2	5	rs143235708		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:165365296T>G	uc002ucl.2	-	7	1424	c.883A>C	c.(883-885)AAA>CAA	p.K295Q	GRB14_uc010zcv.1_Missense_Mutation_p.K208Q|GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	295	PH.				blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						TGTTTTTTTTTGCCTGCCAGT	0.363													6	134					0	0	0.008291	0	0		G	165365296	G	G	165365296	3	3	19	1	0	0	0	0	1	0	0	0	6773	1821	63	5	771	5	GRB14	2	165365296	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	333	165365296	77834077	428	13941											
COBLL1	22837	broad.mit.edu	37	chr2	165551885	165551885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcacaaattggatcttttaCggtaagcggatcttctgaat	11	14	9	7	2	3	1	0	1	3	0	3	3	3	3	0	3	3	2	0	3	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:165551885C>T	uc010zcw.1	-	15	2456	c.2332G>A	c.(2332-2334)GTA>ATA	p.V778I	COBLL1_uc002ucp.2_Missense_Mutation_p.V711I|COBLL1_uc002ucq.2_Missense_Mutation_p.V673I|COBLL1_uc010zcx.1_Missense_Mutation_p.V719I|COBLL1_uc002ucn.2_Missense_Mutation_p.V139I|COBLL1_uc002uco.2_Missense_Mutation_p.V442I	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	749										ovary(2)|pancreas(1)	3						GGATCTTTTACGGTAAGCGGA	0.383													41	111					0	0	0.009718	0	0		T	165551885	T	T	165551885	3	4	19	1	0	0	0	0	1	0	0	0	3657	536	19	1	1381	1	COBLL1	2	165551885	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	186589	165551885	77647488	429	13942											
SCN3A	6328	broad.mit.edu	37	chr2	166019138	166019138	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatgtcccatttgaatccaTtgtgccattaaagtaggaag	14	12	8	7	0	0	1	0	1	0	0	2	2	2	2	3	1	1	1	3	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:166019138T>C	uc002ucx.2	-	8	1387	c.895A>G	c.(895-897)ATG>GTG	p.M299V	SCN3A_uc002ucy.2_Missense_Mutation_p.M299V|SCN3A_uc002ucz.2_Missense_Mutation_p.M299V|SCN3A_uc002uda.1_Missense_Mutation_p.M168V|SCN3A_uc002udb.1_Missense_Mutation_p.M168V	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	299						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	TTTGAATCCATTGTGCCATTA	0.393													3	101					0	0	0.004672	0	0		C	166019138	C	C	166019138	3	2	19	1	0	0	0	0	1	0	0	0	13943	1493	52	3	5191	3	SCN3A	2	166019138	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	467253	166019138	77180235	430	13943											
SCN2A	6326	broad.mit.edu	37	chr2	166226695	166226695	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaccatgttagaatatgcTgacaaggttttcacttacat	14	13	7	7	0	1	3	1	1	0	2	1	3	1	3	1	1	2	3	1	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:166226695T>C	uc002udc.2	+	20	4025	c.3735T>C	c.(3733-3735)GCT>GCC	p.A1245A	SCN2A_uc002udd.2_Silent_p.A1245A|SCN2A_uc002ude.2_Silent_p.A1245A	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1245	Helical; Name=S2 of repeat III; (Potential).|III.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	TAGAATATGCTGACAAGGTTT	0.348													63	101					0	0	0.01441	0	0		C	166226695	C	C	166226695	2	2	19	1	0	0	0	0	0	0	0	1	13941	1567	55	3		3	SCN2A	2	166226695	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	207557	166226695	76972678	431	13944											
SCN2A	6326	broad.mit.edu	37	chr2	166243472	166243472	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctcttcgttactactatTtcactattggatggaatatt	9	19	5	8	1	3	0	1	0	2	0	5	2	3	2	0	2	2	1	0	2	6	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:166243472T>C	uc002udc.2	+	26	5058	c.4768T>C	c.(4768-4770)TTC>CTC	p.F1590L	SCN2A_uc002udd.2_Missense_Mutation_p.F1590L|SCN2A_uc002ude.2_Missense_Mutation_p.F1590L	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1590	IV.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	TTACTACTATTTCACTATTGG	0.343													10	117					0	0	0.010729	0	0		C	166243472	C	C	166243472	3	2	19	1	0	0	0	0	1	0	0	0	13941	1841	64	3	4962	3	SCN2A	2	166243472	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	16777	166243472	76955901	432	13945											
TTC21B	79809	broad.mit.edu	37	chr2	166747086	166747086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	attataaagggcattttggcCccagtcacgatctttccgag	10	12	9	10	2	2	0	1	0	1	0	3	2	3	0	3	2	0	1	3	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:166747086C>T	uc002udk.2	-	24	3299	c.3166G>A	c.(3166-3168)GGC>AGC	p.G1056S	TTC21B_uc002udj.1_RNA	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	1056	TPR 16.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						GCATTTTGGCCCCAGTCACGA	0.378													28	46					0	0	0.009535	0	0		T	166747086	T	T	166747086	3	4	19	1	0	0	0	0	1	0	0	0	16714	623	22	4	808	4	TTC21B	2	166747086	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	503614	166747086	76452287	433	13946											
SCN9A	6335	broad.mit.edu	37	chr2	167083198	167083198	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagaggctatattcatatTtgggctgcttgtctacctat	8	17	9	7	0	2	1	1	0	1	1	2	1	2	1	1	2	2	4	1	2	6	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:167083198T>C	uc010fpl.2	-	24	4585	c.4244A>G	c.(4243-4245)AAA>AGA	p.K1415R	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1426	III.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	ATATTCATATTTGGGCTGCTT	0.303													6	7					0	0	0.001168	0	0		C	167083198	C	C	167083198	3	2	19	1	0	0	0	0	1	0	0	0	13950	1841	64	3	1705	3	SCN9A	2	167083198	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	336112	167083198	76116175	434	13947											
XIRP2	129446	broad.mit.edu	37	chr2	167760302	167760302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaggattccctgagcagtCggcgcaggattgaacgcttt	9	9	14	9	3	0	2	0	2	0	0	2	5	1	5	1	4	2	3	1	4	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:167760302C>T	uc002udx.2	+	1	328	c.310C>T	c.(310-312)CGG>TGG	p.R104W	XIRP2_uc010fpn.2_Missense_Mutation_p.R104W|XIRP2_uc010fpo.2_Missense_Mutation_p.R104W|XIRP2_uc010fpp.2_Missense_Mutation_p.R104W	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	Error:Variant_position_missing_in_A4UGR9_after_alignment					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CCTGAGCAGTCGGCGCAGGAT	0.517													24	53					0	0	0.014323	0	0		T	167760302	T	T	167760302	3	4	19	1	0	0	0	0	1	0	0	0	17456	875	31	1	312	1	XIRP2	2	167760302	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	677104	167760302	75439071	435	13948											
XIRP2	129446	broad.mit.edu	37	chr2	168101702	168101702	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttaagacggtgacagacaTacaaggtggggatgtaagaa	15	8	14	4	1	0	4	0	1	0	3	0	5	0	5	0	4	1	2	0	4	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:168101702T>G	uc002udx.2	+	8	3818	c.3800T>G	c.(3799-3801)ATA>AGA	p.I1267R	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.I1092R|XIRP2_uc010fpq.2_Missense_Mutation_p.I1045R|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1092					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GTGACAGACATACAAGGTGGG	0.348													62	139					0	0	0.01441	0	0		G	168101702	G	G	168101702	3	3	19	1	0	0	0	0	1	0	0	0	17456	1406	49	5	3830	5	XIRP2	2	168101702	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	341400	168101702	75097671	436	13949											
STK39	27347	broad.mit.edu	37	chr2	169103919	169103919	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctggggaagctggacgtgCacgggcgagccgctcggctc	5	6	18	12	5	0	0	0	0	0	0	2	3	0	2	1	5	4	5	1	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:169103919C>T	uc002uea.2	-	1	187	c.27G>A	c.(25-27)GTG>GTA	p.V9V		NM_013233	NP_037365	Q9UEW8	STK39_HUMAN	serine threonine kinase 39 (STE20/SPS1 homolog,	9					response to stress	cytoplasm|nucleus	ATP binding|protein binding|receptor signaling protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2						GCTGGACGTGCACGGGCGAGC	0.448													3	7					0	0	0.004672	0	0		T	169103919	T	T	169103919	2	4	19	1	0	0	0	0	0	0	0	1	15330	697	25	2		2	STK39	2	169103919	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1002217	169103919	74095454	437	13950											
TLK1	9874	broad.mit.edu	37	chr2	171914690	171914690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgctaattttgtggccacGtcccccaatactttttccta	7	15	6	13	2	0	0	0	0	0	0	3	0	2	0	4	1	1	1	4	1	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:171914690G>A	uc002ugn.2	-	5	896	c.424C>T	c.(424-426)CGT>TGT	p.R142C	TLK1_uc002ugo.2_Missense_Mutation_p.R163C|TLK1_uc002ugp.2_Missense_Mutation_p.R94C|TLK1_uc002ugq.2_RNA|TLK1_uc010zdn.1_Missense_Mutation_p.R46C	NM_012290	NP_036422	Q9UKI8	TLK1_HUMAN	tousled-like kinase 1 isoform 1	142					cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						TTGTGGCCACGTCCCCCAATA	0.373													37	89					0	0	0.010771	0	0		A	171914690	A	A	171914690	3	1	19	1	0	0	0	0	1	0	0	0	15968	1145	40	1	1944	1	TLK1	2	171914690	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2810771	171914690	71284683	438	13951											
CYBRD1	79901	broad.mit.edu	37	chr2	172398264	172398264	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatatgtacagtctgcacagCtgggttggactgatagctgt	10	12	12	7	0	1	1	0	1	1	0	1	2	1	2	0	2	4	5	0	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:172398264C>T	uc002ugy.3	+	2	553	c.363C>T	c.(361-363)AGC>AGT	p.S121S	CYBRD1_uc002ugz.3_Intron	NM_024843	NP_079119	Q53TN4	CYBR1_HUMAN	cytochrome b reductase 1 isoform 1	121	Cytochrome b561.				cellular iron ion homeostasis|electron transport chain|transmembrane transport	integral to membrane	ferric-chelate reductase activity|metal ion binding				0						GTCTGCACAGCTGGGTTGGAC	0.378													57	132					0	0	0.01441	0	0		T	172398264	T	T	172398264	2	4	19	1	0	0	0	0	0	0	0	1	4137	796	28	2		2	CYBRD1	2	172398264	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	483574	172398264	70801109	439	13952											
SP3	6670	broad.mit.edu	37	chr2	174820514	174820514	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccaggaaaagatgaaccAccaattgcaactccctgaac	16	6	7	12	0	0	4	0	3	0	1	1	5	1	5	4	1	4	1	4	1	6	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:174820514A>G	uc002uig.2	-	4	890	c.726T>C	c.(724-726)GGT>GGC	p.G242G	SP3_uc002uie.2_Silent_p.G174G|SP3_uc002uif.2_Silent_p.G189G|SP3_uc010zel.1_Silent_p.G239G	NM_003111	NP_003102	Q02447	SP3_HUMAN	Sp3 transcription factor isoform 1	242					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	protein binding|zinc ion binding		EWSR1/SP3(3)	soft_tissue(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.185)			AAGATGAACCACCAATTGCAA	0.438													38	105					0	0	0.005524	0	0		G	174820514	G	G	174820514	2	3	19	1	0	0	0	0	0	0	0	1	14990	146	6	3		3	SP3	2	174820514	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2422250	174820514	68378859	440	13953											
CHRNA1	1134	broad.mit.edu	37	chr2	175618330	175618330	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagaggggcaggcgctgcaTgacgaagtggtaggtgatgt	9	8	19	5	2	0	3	0	2	0	1	0	4	0	3	0	5	1	5	0	5	3	2	rs111856577		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:175618330T>C	uc002ujd.2	-	7	832	c.754A>G	c.(754-756)ATG>GTG	p.M252V	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Missense_Mutation_p.M227V|CHRNA1_uc002ujf.3_Missense_Mutation_p.M227V	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	252	Extracellular.				muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						AGGCGCTGCATGACGAAGTGG	0.592													37	92					0	0	0.013114	0	0		C	175618330	C	C	175618330	3	2	19	1	0	0	0	0	1	0	0	0	3384	1464	51	3	710	3	CHRNA1	2	175618330	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	797816	175618330	67581043	441	13954											
KIAA1715	80856	broad.mit.edu	37	chr2	176802227	176802227	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagggttcaagaaaaaacagTaggcacatcgaaaagctgca	18	5	10	8	1	1	1	1	0	0	1	2	2	1	1	0	2	3	5	0	2	7	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:176802227T>C	uc002ukc.1	-	12	1092	c.899A>G	c.(898-900)TAC>TGC	p.Y300C	KIAA1715_uc010zer.1_Missense_Mutation_p.Y331C|KIAA1715_uc010fqw.1_Missense_Mutation_p.Y366C|KIAA1715_uc010zes.1_Missense_Mutation_p.Y302C|KIAA1715_uc002ukd.1_Missense_Mutation_p.Y177C|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	300	Cytoplasmic (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			GAAAAAACAGTAGGCACATCG	0.388													3	58					0	0	0.004672	0	0		C	176802227	C	C	176802227	3	2	19	1	0	0	0	0	1	0	0	0	8270	1638	57	3	395	3	KIAA1715	2	176802227	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1183897	176802227	66397146	442	13955											
HOXD3	3232	broad.mit.edu	37	chr2	177034214	177034214	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaccccctcctccaccaccGaccctgcccccatcttcacc	7	6	2	26	1	2	0	1	0	1	0	4	1	4	0	10	0	2	0	10	0	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:177034214G>A	uc002ukt.1	+	2	548	c.372G>A	c.(370-372)CCG>CCA	p.P124P		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	124	Poly-Pro.				anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		ctccaccaccgaccctgcccc	0.483													14	49					0	0	0.00245	0	0		A	177034214	A	A	177034214	2	1	19	1	0	0	0	0	0	0	0	1	7339	1045	37	1		1	HOXD3	2	177034214	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	231987	177034214	66165159	443	13956											
TTN	7273	broad.mit.edu	37	chr2	179391860	179391860	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgatcagggttgtcaggTcatctgtgttttcaatgtgg	7	16	13	5	0	5	2	4	2	1	0	5	2	5	2	0	3	0	2	0	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:179391860T>C	uc010zfg.1	-	312	100375	c.100151A>G	c.(100150-100152)GAC>GGC	p.D33384G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D27079G|TTN_uc010zfi.1_Missense_Mutation_p.D27012G|TTN_uc010zfj.1_Missense_Mutation_p.D26887G|TTN_uc002umq.2_Missense_Mutation_p.D300G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34311							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGTTGTCAGGTCATCTGTGTT	0.463													3	56					0	0	0.004672	0	0		C	179391860	C	C	179391860	3	2	19	1	0	0	0	0	1	0	0	0	16761	1667	58	3	124	3	TTN	2	179391860	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2357646	179391860	63807513	444	13957											
TTN	7273	broad.mit.edu	37	chr2	179446774	179446774	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttctttctataataggttTtctgttgaccttagtccagt	7	20	7	7	0	3	1	0	1	3	0	4	1	4	1	2	1	0	3	2	1	4	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:179446774T>C	uc010zfg.1	-	264	58842	c.58618A>G	c.(58618-58620)AAA>GAA	p.K19540E	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K13235E|TTN_uc010zfi.1_Missense_Mutation_p.K13168E|TTN_uc010zfj.1_Missense_Mutation_p.K13043E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20467							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATAATAGGTTTTCTGTTGACC	0.453													15	296					0	0	0.00245	0	0		C	179446774	C	C	179446774	3	2	19	1	0	0	0	0	1	0	0	0	16761	1850	64	3	41849	3	TTN	2	179446774	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	54914	179446774	63752599	445	13958											
TTN	7273	broad.mit.edu	37	chr2	179451486	179451486	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaggctaaggtggcactgTtcttggtcatttcagtcact	8	13	10	10	0	4	0	3	0	1	0	4	0	4	0	1	4	0	3	1	4	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:179451486T>C	uc010zfg.1	-	257	56662	c.56438A>G	c.(56437-56439)AAC>AGC	p.N18813S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.N12508S|TTN_uc010zfi.1_Missense_Mutation_p.N12441S|TTN_uc010zfj.1_Missense_Mutation_p.N12316S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19740							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGTGGCACTGTTCTTGGTCAT	0.453													13	120					0	0	0.00245	0	0		C	179451486	C	C	179451486	3	2	19	1	0	0	0	0	1	0	0	0	16761	1725	60	3	44057	3	TTN	2	179451486	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4712	179451486	63747887	446	13959											
TTN	7273	broad.mit.edu	37	chr2	179483422	179483422	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaaattctgaaagaagtttGttcagccgtagtatcaatgg	14	13	9	5	1	3	2	2	1	1	1	3	2	3	2	1	1	1	4	1	1	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:179483422G>A	uc010zfg.1	-	200	39375	c.39151C>T	c.(39151-39153)CAA>TAA	p.Q13051*	TTN_uc010zfh.1_Nonsense_Mutation_p.Q6746*|TTN_uc010zfi.1_Nonsense_Mutation_p.Q6679*|TTN_uc010zfj.1_Nonsense_Mutation_p.Q6554*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13978							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAAGAAGTTTGTTCAGCCGTA	0.373													4	71					0	0	0.009096	0	0		A	179483422	A	A	179483422	4	1	19	1	0	0	0	0	0	1	0	0	16761	1386	48	4	61286	4	TTN	2	179483422	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	31936	179483422	63715951	447	13960											
TTN	7273	broad.mit.edu	37	chr2	179495802	179495802	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcttatctgtcccacagTcacaggtgtactgtccaata	10	12	8	11	0	3	0	1	0	2	0	5	0	5	0	2	2	1	1	2	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:179495802T>C	uc010zfg.1	-	186	36493	c.36269A>G	c.(36268-36270)GAC>GGC	p.D12090G	TTN_uc010zfh.1_Missense_Mutation_p.D5785G|TTN_uc010zfi.1_Missense_Mutation_p.D5718G|TTN_uc010zfj.1_Missense_Mutation_p.D5593G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13017							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGTCCCACAGTCACAGGTGTA	0.413													16	42					0	0	0.00333	0	0		C	179495802	C	C	179495802	3	2	19	1	0	0	0	0	1	0	0	0	16761	1667	58	3	64224	3	TTN	2	179495802	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	12380	179495802	63703571	448	13961											
TTN	7273	broad.mit.edu	37	chr2	179529600	179529600	+	Frame_Shift_Del	DEL	T	-	-																															tttaactgatgggggttctcTttttttggaaggaactgtct																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:179529600delT	uc010zfk.1	-	11	1083	c.535delA	c.(535-537)AGAfs	p.R179fs	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGGGGTTCTCTTTTTTTGGAA	0.378													12	27	---	---	---	---						.	-	179529600	-	-	179529600	7	5	19	1	0	1	0	1	0	0	0	0	16761	1624	56	0		0	TTN	2	179529600	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	33798	179529600	63669773	449	13962											
TTN	7273	broad.mit.edu	37	chr2	179600514	179600514	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctttaatgaaatgtggctTatcaatgatgatcaactctg	12	16	7	6	0	4	3	2	3	2	0	4	3	4	3	0	1	1	1	0	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:179600514T>C	uc010zfg.1	-	47	11151	c.10927A>G	c.(10927-10929)AAG>GAG	p.K3643E	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K304E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4570							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAATGTGGCTTATCAATGATG	0.408													3	47					0	0	0.004672	0	0		C	179600514	C	C	179600514	3	2	19	1	0	0	0	0	1	0	0	0	16761	1763	61	3	90122	3	TTN	2	179600514	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	70914	179600514	63598859	450	13963											
TTN	7273	broad.mit.edu	37	chr2	179636101	179636101	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttgccatccctcaaccaTtcgcctttggaatctgggtt	6	15	8	12	1	2	0	1	0	1	0	4	1	3	1	4	2	2	2	4	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:179636101T>A	uc010zfg.1	-	34	8177	c.7953A>T	c.(7951-7953)GAA>GAT	p.E2651D	TTN_uc010zfh.1_Missense_Mutation_p.E2605D|TTN_uc010zfi.1_Missense_Mutation_p.E2605D|TTN_uc010zfj.1_Missense_Mutation_p.E2605D|TTN_uc002unb.2_Missense_Mutation_p.E2651D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2651							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCCTCAACCATTCGCCTTTGG	0.483													7	74					0	0	0.00308	0	0		A	179636101	A	A	179636101	3	1	19	1	0	0	0	0	1	0	0	0	16761	1490	52	5	103351	5	TTN	2	179636101	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	35587	179636101	63563272	451	13964											
CWC22	57703	broad.mit.edu	37	chr2	180815357	180815357	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagactctgaagaggaggaCgctgaagaggaagaggatgg	14	5	17	5	1	2	6	1	2	1	4	2	10	2	10	0	5	0	1	0	5	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:180815357C>T	uc010frh.1	-	19	2322	c.2022G>A	c.(2020-2022)GCG>GCA	p.A674A	CWC22_uc002uno.2_Silent_p.A196A|CWC22_uc002unp.2_Silent_p.A674A	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	674	Ser-rich.					catalytic step 2 spliceosome	protein binding|RNA binding				0						AAGAGGAGGACGCTGAAGAGG	0.473													17	53					0	0	0.008871	0	0		T	180815357	T	T	180815357	2	4	19	1	0	0	0	0	0	0	0	1	4071	523	19	1		1	CWC22	2	180815357	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1179256	180815357	62384016	452	13965											
CERKL	375298	broad.mit.edu	37	chr2	182468700	182468700	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgtgatacctaataaagtAccacttctctgctgtttaac	12	14	6	9	0	1	1	0	1	1	0	2	1	1	1	2	0	4	3	2	0	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:182468700A>G	uc002unx.2	-	2	446	c.345T>C	c.(343-345)GGT>GGC	p.G115G	CERKL_uc002uny.2_Silent_p.G115G|CERKL_uc010zfm.1_Silent_p.G115G|CERKL_uc002unz.2_5'UTR|CERKL_uc002uoa.2_Silent_p.G115G|CERKL_uc002uob.2_5'UTR|CERKL_uc002uoc.2_Silent_p.G115G|CERKL_uc010frk.2_RNA|CERKL_uc002uod.1_5'UTR|CERKL_uc002uoe.2_Silent_p.G115G	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	115					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			CTAATAAAGTACCACTTCTCT	0.328													3	27					0	0	0.004672	0	0		G	182468700	G	G	182468700	2	3	19	1	0	0	0	0	0	0	0	1	3271	378	14	3		3	CERKL	2	182468700	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1653343	182468700	60730673	453	13966											
FRZB	2487	broad.mit.edu	37	chr2	183731239	183731239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagccagggcaagcagcccGgcccgcagcagcagcatccc	9	1	13	18	2	0	0	0	0	0	0	1	0	1	0	4	2	6	7	4	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:183731239G>A	uc002upa.1	-	1	260	c.42C>T	c.(40-42)GCC>GCT	p.A14A		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein precursor	14					brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)			CAAGCAGCCCGGCCCGCAGCA	0.731													3	8					0	0	0.004672	0	0		A	183731239	A	A	183731239	2	1	19	1	0	0	0	0	0	0	0	1	6079	1103	39	1		1	FRZB	2	183731239	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1262539	183731239	59468134	454	13967											
ZNF804A	91752	broad.mit.edu	37	chr2	185801510	185801510	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctgtaatcctctatgttttGacttcaagtctactaaagta	11	16	6	8	0	3	1	1	1	2	0	4	1	4	1	1	0	1	4	1	0	7	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:185801510G>A	uc002uph.2	+	4	1981	c.1387G>A	c.(1387-1389)GAC>AAC	p.D463N		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	463						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TCTATGTTTTGACTTCAAGTC	0.353													56	104					0	0	0.01441	0	0		A	185801510	A	A	185801510	3	1	19	1	0	0	0	0	1	0	0	0	18195	1290	45	4	1401	4	ZNF804A	2	185801510	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2070271	185801510	57397863	455	13968											
ZNF804A	91752	broad.mit.edu	37	chr2	185802505	185802505	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaatcatttaccagaagaAtttttgaggccaccaagtac	15	10	7	9	0	1	4	1	1	0	3	1	4	1	4	3	1	2	1	3	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:185802505A>T	uc002uph.2	+	4	2976	c.2382A>T	c.(2380-2382)GAA>GAT	p.E794D		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	794						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TACCAGAAGAATTTTTGAGGC	0.383													11	50					0	0	0.013537	0	0		T	185802505	T	T	185802505	3	4	19	1	0	0	0	0	1	0	0	0	18195	98	4	5	2396	5	ZNF804A	2	185802505	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	995	185802505	57396868	456	13969											
COL3A1	1281	broad.mit.edu	37	chr2	189849518	189849518	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttcccatcttggtcagTcctatgcggatagagatgtc	8	13	11	9	1	2	1	1	0	1	1	5	4	4	2	2	2	1	1	2	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:189849518T>A	uc002uqj.1	+	2	229	c.112T>A	c.(112-114)TCC>ACC	p.S38T		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	38	VWFC.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	TCTTGGTCAGTCCTATGCGGA	0.428													7	127					0	0	0.00308	0	0		A	189849518	A	A	189849518	3	1	19	1	0	0	0	0	1	0	0	0	3691	1667	58	5	118	5	COL3A1	2	189849518	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4047013	189849518	53349855	457	13970											
COL5A2	1290	broad.mit.edu	37	chr2	189904010	189904010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctactcaccactctgctttgCggaatggcaaagctttaggt	9	12	9	11	1	2	0	1	0	1	0	2	1	2	1	1	3	4	3	1	3	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:189904010C>T	uc002uqk.2	-	51	4188	c.3913G>A	c.(3913-3915)GCA>ACA	p.A1305T	COL5A2_uc010frx.2_Missense_Mutation_p.A881T	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	1305	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			CTCTGCTTTGCGGAATGGCAA	0.433													48	82					0	0	0.01441	0	0		T	189904010	T	T	189904010	3	4	19	1	0	0	0	0	1	0	0	0	3700	768	27	1	602	1	COL5A2	2	189904010	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	54492	189904010	53295363	458	13971											
ANKAR	150709	broad.mit.edu	37	chr2	190557886	190557886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tattactcaataccagtcatGgaatttcatggaaaaaggta	16	12	7	6	0	3	0	3	0	0	0	3	2	3	2	1	3	2	1	1	3	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:190557886G>A	uc002uqw.1	+	4	1077	c.1077G>A	c.(1075-1077)ATG>ATA	p.M359I	ANKAR_uc002uqu.2_RNA	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	430						integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			TACCAGTCATGGAATTTCATG	0.289													3	48					0	0	0.004672	0	0		A	190557886	A	A	190557886	3	1	19	1	0	0	0	0	1	0	0	0	623	1348	47	4	1304	4	ANKAR	2	190557886	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	653876	190557886	52641487	459	13972											
MFSD6	54842	broad.mit.edu	37	chr2	191301720	191301720	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatctgggaaaacacagagAtcgctatgggttgcagcgca	12	8	13	8	2	1	1	0	0	1	1	2	3	1	2	0	2	3	5	0	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:191301720A>T	uc002urz.2	+	3	1289	c.965A>T	c.(964-966)GAT>GTT	p.D322V		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	322					transmembrane transport	integral to membrane				ovary(2)	2						AAACACAGAGATCGCTATGGG	0.527													70	177					0	0	0.01441	0	0		T	191301720	T	T	191301720	3	4	19	1	0	0	0	0	1	0	0	0	9553	333	12	5	967	5	MFSD6	2	191301720	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	743834	191301720	51897653	460	13973											
DNAH7	56171	broad.mit.edu	37	chr2	196825456	196825456	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttttctccagtttatataAtcctctccagtaatttccaa	10	17	4	10	0	2	0	0	0	2	0	6	0	4	0	4	1	0	3	4	1	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:196825456A>G	uc002utj.3	-	18	2520	c.2419T>C	c.(2419-2421)TTA>CTA	p.L807L		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	807	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AGTTTATATAATCCTCTCCAG	0.378													75	180					0	0	0.01441	0	0		G	196825456	G	G	196825456	2	3	19	1	0	0	0	0	0	0	0	1	4612	98	4	3		3	DNAH7	2	196825456	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5523736	196825456	46373917	461	13974											
PLCL1	5334	broad.mit.edu	37	chr2	198950524	198950524	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacggaattccagcggattgTtcggaacaaagaactaaaac	16	7	9	9	3	0	1	0	0	0	1	2	4	1	4	1	3	4	1	1	3	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:198950524T>C	uc010fsp.2	+	2	2574	c.2283T>C	c.(2281-2283)TGT>TGC	p.C761C	PLCL1_uc002uuv.3_Silent_p.C682C	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	761	C2.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	CAGCGGATTGTTCGGAACAAA	0.423													7	107					0	0	0.001984	0	0		C	198950524	C	C	198950524	2	2	19	1	0	0	0	0	0	0	0	1	12058	1731	60	3		3	PLCL1	2	198950524	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2125068	198950524	44248849	462	13975											
SATB2	23314	broad.mit.edu	37	chr2	200245100	200245100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgacctgggagagagggCattctttggctaatgtgctc	8	12	13	8	0	1	2	0	1	1	1	2	4	1	3	1	3	2	3	1	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:200245100C>T	uc002uuy.1	-	5	1401	c.584G>A	c.(583-585)TGC>TAC	p.C195Y	SATB2_uc010fsq.1_Intron|SATB2_uc002uuz.1_Missense_Mutation_p.C195Y|SATB2_uc002uva.1_Missense_Mutation_p.C195Y	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	195						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGAGAGAGGGCATTCTTTGGC	0.502													41	146					0	0	0.00874	0	0		T	200245100	T	T	200245100	3	4	19	1	0	0	0	0	1	0	0	0	13879	710	25	2	1645	2	SATB2	2	200245100	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1294576	200245100	42954273	463	13976											
C2orf60	129450	broad.mit.edu	37	chr2	200800652	200800652	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtgaggtctagaaatcttAccaggaatgaataatacatc	16	11	8	6	0	2	3	0	2	2	1	3	4	2	4	1	2	2	0	1	2	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:200800652A>G	uc002uvi.3	-	7	957	c.691_splice	c.e7+1	p.A231_splice	C2orf60_uc002uvj.3_Splice_Site_p.A68_splice|C2orf60_uc002uvk.3_Splice_Site|C2orf60_uc010fss.2_Splice_Site_p.A68_splice	NM_001039693	NP_001034782	A2RUC4	TYW5_HUMAN	hypothetical protein LOC129450						wybutosine biosynthetic process		iron ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein homodimerization activity|tRNA binding				0						TAGAAATCTTACCAGGAATGA	0.313													6	138					0	0	0.001168	0	0		G	200800652	G	G	200800652	5	3	19	1	0	0	0	0	0	0	1	0	2182	405	14	3	262	3	C2orf60	2	200800652	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	555552	200800652	42398721	464	13977											
STRADB	55437	broad.mit.edu	37	chr2	202337729	202337729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgcacggcatactcccaCaggaacactggtaactataa	13	9	7	12	1	1	0	0	0	1	0	2	1	2	1	1	3	4	3	1	3	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:202337729C>T	uc002uyd.3	+	5	610	c.245C>T	c.(244-246)ACA>ATA	p.T82I		NM_018571	NP_061041	Q9C0K7	STRAB_HUMAN	STE20-related kinase adaptor beta	82	Protein kinase.				activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|protein binding|protein kinase activity			skin(2)|stomach(1)|lung(1)	4						CATACTCCCACAGGAACACTG	0.333													64	114					0	0	0.01441	0	0		T	202337729	T	T	202337729	3	4	19	1	0	0	0	0	1	0	0	0	15350	478	17	4	259	4	STRADB	2	202337729	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1537077	202337729	40861644	465	13978											
ALS2	57679	broad.mit.edu	37	chr2	202606542	202606542	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatcggctagccacctcctGcaacagctggactgtagttg	9	9	11	12	1	0	0	0	0	0	0	2	2	1	1	3	2	4	5	3	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:202606542G>A	uc002uyo.2	-	11	2562	c.2206C>T	c.(2206-2208)CAG>TAG	p.Q736*	ALS2_uc002uyp.3_Nonsense_Mutation_p.Q736*|ALS2_uc002uyq.2_Nonsense_Mutation_p.Q736*|ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	736	DH.				cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						GCCACCTCCTGCAACAGCTGG	0.433													11	21					0	0	0.00245	0	0		A	202606542	A	A	202606542	4	1	19	1	0	0	0	0	0	1	0	0	550	1328	46	2	2863	2	ALS2	2	202606542	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	268813	202606542	40592831	466	13979											
CDK15	65061	broad.mit.edu	37	chr2	202712162	202712162	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctttgtttcctggggttTccaacatccttgaacagctg	8	14	8	11	0	0	1	0	1	0	0	3	1	3	1	4	2	4	3	4	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:202712162T>C	uc002uyt.2	+	9	959	c.910T>C	c.(910-912)TCC>CCC	p.S304P	CDK15_uc010ftm.2_Missense_Mutation_p.S169P|CDK15_uc002uys.2_Missense_Mutation_p.S253P|CDK15_uc010ftn.1_Missense_Mutation_p.S253P|CDK15_uc010fto.1_Missense_Mutation_p.S283P	NM_139158	NP_631897	Q96Q40	CDK15_HUMAN	PFTAIRE protein kinase 2	304	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|metal ion binding|protein binding			breast(2)|ovary(1)|lung(1)|kidney(1)	5					Adenosine triphosphate(DB00171)	TCCTGGGGTTTCCAACATCCT	0.368													12	113					0	0	0.001855	0	0		C	202712162	C	C	202712162	3	2	19	1	0	0	0	0	1	0	0	0	3134	1783	62	3	787	3	CDK15	2	202712162	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	105620	202712162	40487211	467	13980											
WDR12	55759	broad.mit.edu	37	chr2	203764352	203764352	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacgtattctatttccacAacttcttcctaatcacaaga	12	14	2	13	1	3	1	1	0	2	1	6	1	6	1	3	0	1	1	3	0	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:203764352A>G	uc002uzl.2	-	4	990	c.240T>C	c.(238-240)GTT>GTC	p.V80V	WDR12_uc010ftt.2_Silent_p.V80V	NM_018256	NP_060726	Q9GZL7	WDR12_HUMAN	WD repeat domain 12 protein	80					cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						CTATTTCCACAACTTCTTCCT	0.388													3	79					0	0	0.004672	0	0		G	203764352	G	G	203764352	2	3	19	1	0	0	0	0	0	0	0	1	17300	117	5	3		3	WDR12	2	203764352	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1052190	203764352	39435021	468	13981											
NBEAL1	65065	broad.mit.edu	37	chr2	204001465	204001465	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccaggaatatccagtgaActacttcgaccatcagatga	16	8	7	10	1	1	3	1	2	0	1	3	5	2	4	3	1	3	0	3	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:204001465A>G	uc002uzt.3	+	28	4779	c.4446A>G	c.(4444-4446)GAA>GAG	p.E1482E	NBEAL1_uc002uzs.3_Silent_p.E192E	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	1482							binding			ovary(1)|skin(1)	2						TATCCAGTGAACTACTTCGAC	0.363													37	81					0	0	0.007835	0	0		G	204001465	G	G	204001465	2	3	19	1	0	0	0	0	0	0	0	1	10206	40	2	3		3	NBEAL1	2	204001465	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	237113	204001465	39197908	469	13982											
ABI2	10152	broad.mit.edu	37	chr2	204292052	204292052	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgggaattacgttgagTctatcatgcattattctgag	9	16	9	7	1	3	2	1	2	2	0	4	3	4	3	1	1	2	2	1	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:204292052T>C	uc002vaa.2	+	11	1754	c.1519T>C	c.(1519-1521)TCT>CCT	p.S507P	ABI2_uc002uzz.2_Missense_Mutation_p.S469P|ABI2_uc010zih.1_Missense_Mutation_p.S155P|ABI2_uc010zii.1_Missense_Mutation_p.S501P|ABI2_uc010zij.1_Missense_Mutation_p.S384P|ABI2_uc002vab.2_Missense_Mutation_p.S395P|ABI2_uc010zik.1_Missense_Mutation_p.S232P|ABI2_uc010zil.1_Missense_Mutation_p.S371P|ABI2_uc010zim.1_Missense_Mutation_p.S320P|ABI2_uc002vac.2_Missense_Mutation_p.S293P|ABI2_uc010zin.1_Missense_Mutation_p.S184P	NM_005759	NP_005750	Q9NYB9	ABI2_HUMAN	abl interactor 2	507	SH3.				actin polymerization or depolymerization|cell migration|peptidyl-tyrosine phosphorylation	cytoskeleton|cytosol|filopodium|lamellipodium	cytoskeletal adaptor activity|DNA binding|kinase binding|proline-rich region binding|SH3 domain binding|ubiquitin protein ligase binding				0						TTACGTTGAGTCTATCATGCA	0.458													14	34					0	0	0.006122	0	0		C	204292052	C	C	204292052	3	2	19	1	0	0	0	0	1	0	0	0	89	1667	58	3	1443	3	ABI2	2	204292052	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	290587	204292052	38907321	470	13983											
PARD3B	117583	broad.mit.edu	37	chr2	206480189	206480189	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctttccaggggaggaccCgcagatcctgtagactatct	8	11	10	12	1	2	2	0	0	2	2	5	4	4	4	3	3	0	2	3	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:206480189C>T	uc002var.1	+	23	3477	c.3270C>T	c.(3268-3270)CCC>CCT	p.P1090P	PARD3B_uc002vao.1_Silent_p.P989P|PARD3B_uc002vap.1_Silent_p.P1028P|PARD3B_uc002vaq.1_Silent_p.P1021P|uc010fuc.1_5'Flank	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	1090					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		GGGGAGGACCCGCAGATCCTG	0.413													68	159					0	0	0.01441	0	0		T	206480189	T	T	206480189	2	4	19	1	0	0	0	0	0	0	0	1	11463	639	23	1		1	PARD3B	2	206480189	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2188137	206480189	36719184	471	13984											
MAP2	4133	broad.mit.edu	37	chr2	210559232	210559232	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagctactggagaagaaagtActcaagcggagatatcatgt	16	8	11	6	1	2	3	2	0	0	3	2	5	2	3	0	2	4	2	0	2	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:210559232A>G	uc002vde.1	+	7	2586	c.2338A>G	c.(2338-2340)ACT>GCT	p.T780A	MAP2_uc002vdc.1_Missense_Mutation_p.T780A|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.T776A	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	780					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	AGAAGAAAGTACTCAAGCGGA	0.453													6	153					0	0	0.001984	0	0		G	210559232	G	G	210559232	3	3	19	1	0	0	0	0	1	0	0	0	9253	391	14	3	2352	3	MAP2	2	210559232	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4079043	210559232	32640141	472	13985											
MAP2	4133	broad.mit.edu	37	chr2	210559555	210559555	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctgttcaagacagtgaGaatttatcaggggagagtgg	12	10	13	6	0	3	3	3	1	0	3	3	5	3	3	1	3	0	1	1	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:210559555G>T	uc002vde.1	+	7	2909	c.2661G>T	c.(2659-2661)GAG>GAT	p.E887D	MAP2_uc002vdc.1_Missense_Mutation_p.E887D|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.E883D	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	887					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	AAGACAGTGAGAATTTATCAG	0.448													23	44					5.35356e-11	5.6126e-11	0.00278	1	0		T	210559555	T	T	210559555	3	4	19	1	0	0	0	0	1	0	0	0	9253	933	33	5	2675	5	MAP2	2	210559555	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	323	210559555	32639818	473	13986											
C2orf67	151050	broad.mit.edu	37	chr2	211018861	211018861	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaatccagaataatttgtAcatctttcatgcactggctc	11	15	6	9	0	2	2	1	1	1	1	4	2	3	2	1	1	2	3	1	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:211018861A>G	uc002vds.2	-	2	654	c.446T>C	c.(445-447)GTA>GCA	p.V149A	C2orf67_uc002vdt.2_Missense_Mutation_p.V149A|C2orf67_uc002vdw.2_Missense_Mutation_p.V149A|C2orf67_uc002vdy.1_Missense_Mutation_p.V149A|C2orf67_uc002vdv.2_Missense_Mutation_p.V149A|C2orf67_uc002vdx.1_Missense_Mutation_p.V149A	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	149										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		AATAATTTGTACATCTTTCAT	0.353													5	55					0	0	0.001168	0	0		G	211018861	G	G	211018861	3	3	19	1	0	0	0	0	1	0	0	0	2189	391	14	3	2573	3	C2orf67	2	211018861	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	459306	211018861	32180512	474	13987											
CPS1	1373	broad.mit.edu	37	chr2	211469862	211469862	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaattctggtggagaagTcagtgacaggttggaaagaa	15	8	13	5	0	2	3	1	1	1	2	2	5	2	4	1	4	0	1	1	4	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:211469862T>C	uc002vee.3	+	17	2005	c.1873T>C	c.(1873-1875)TCA>CCA	p.S625P	CPS1_uc010fur.2_Missense_Mutation_p.S631P|CPS1_uc010fus.2_Missense_Mutation_p.S174P	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	625	ATP-grasp 1.				carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		GGTGGAGAAGTCAGTGACAGG	0.393													4	52					0	0	0.000602	0	0		C	211469862	C	C	211469862	3	2	19	1	0	0	0	0	1	0	0	0	3826	1667	58	3	1961	3	CPS1	2	211469862	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	451001	211469862	31729511	475	13988											
CPS1	1373	broad.mit.edu	37	chr2	211471538	211471538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtacttcaatcaatgttgttCgccacttgggcattgtgggt	7	15	11	8	1	2	0	2	0	0	0	3	0	2	0	1	2	1	4	1	2	3	6	rs147443001		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:211471538C>T	uc002vee.3	+	18	2197	c.2065C>T	c.(2065-2067)CGC>TGC	p.R689C	CPS1_uc010fur.2_Missense_Mutation_p.R695C|CPS1_uc010fus.2_Missense_Mutation_p.R238C	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	689	ATP-grasp 1.				carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		CAATGTTGTTCGCCACTTGGG	0.468													28	56					0	0	0.005443	0	0		T	211471538	T	T	211471538	3	4	19	1	0	0	0	0	1	0	0	0	3826	884	31	1	2157	1	CPS1	2	211471538	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1676	211471538	31727835	476	13989											
SPAG16	79582	broad.mit.edu	37	chr2	215013877	215013877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgaagggtcacatgatagCatcctgtgatgcctgtgggg	8	12	14	7	0	1	3	1	3	0	0	2	3	2	3	2	3	2	1	2	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:215013877C>T	uc002veq.2	+	15	1699	c.1607C>T	c.(1606-1608)GCA>GTA	p.A536V	SPAG16_uc010fuz.1_Missense_Mutation_p.A387V|SPAG16_uc002ver.2_Missense_Mutation_p.A482V|SPAG16_uc010zjk.1_Missense_Mutation_p.A442V	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	536	WD 5.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		CACATGATAGCATCCTGTGAT	0.294													10	136					0	0	0.00245	0	0		T	215013877	T	T	215013877	3	4	19	1	0	0	0	0	1	0	0	0	15003	710	25	2	1681	2	SPAG16	2	215013877	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3542339	215013877	28185496	477	13990											
BARD1	580	broad.mit.edu	37	chr2	215632335	215632335	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatgccttatgctggagcAataattccactaccttcagg	11	11	7	12	0	1	0	1	0	0	0	2	1	2	1	4	2	4	2	4	2	5	5	rs149839922		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:215632335A>G	uc002veu.2	-	6	1574	c.1439T>C	c.(1438-1440)TTG>TCG	p.L480S	BARD1_uc010zjm.1_Missense_Mutation_p.L336S	NM_000465	NP_000456	Q99728	BARD1_HUMAN	BRCA1 associated RING domain 1	480	ANK 2.				cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		ATGCTGGAGCAATAATTCCAC	0.408									Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				33	54					0	0	0.004289	0	0		G	215632335	G	G	215632335	3	3	19	1	0	0	0	0	1	0	0	0	1313	131	5	3	918	3	BARD1	2	215632335	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	618458	215632335	27567038	478	13991											
ABCA12	26154	broad.mit.edu	37	chr2	215838763	215838763	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactgtctttgtttaaacaCtgtctgcaagttaaaatgat	13	15	7	6	0	2	2	0	1	2	1	2	2	2	2	0	0	2	3	0	0	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:215838763C>T	uc002vew.2	-	36	5692	c.5472G>A	c.(5470-5472)CAG>CAA	p.Q1824Q	ABCA12_uc002vev.2_Silent_p.Q1506Q|ABCA12_uc010zjn.1_Silent_p.Q751Q	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1824					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TGTTTAAACACTGTCTGCAAG	0.368													30	67					0	0	0.007291	0	0		T	215838763	T	T	215838763	2	4	19	1	0	0	0	0	0	0	0	1	30	564	20	4		4	ABCA12	2	215838763	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	206428	215838763	27360610	479	13992											
FN1	2335	broad.mit.edu	37	chr2	216257711	216257711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccattaatgagagtgataaCgctgatatcatagtcaatgc	14	11	9	7	1	2	3	2	3	0	1	2	4	2	3	1	0	2	1	1	0	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:216257711C>T	uc002vfa.2	-	25	4278	c.4012G>A	c.(4012-4014)GTT>ATT	p.V1338I	FN1_uc002vfb.2_Intron|FN1_uc002vfc.2_Intron|FN1_uc002vfd.2_Missense_Mutation_p.V1338I|FN1_uc002vfe.2_Intron|FN1_uc002vff.2_Intron|FN1_uc002vfg.2_Intron|FN1_uc002vfh.2_Intron|FN1_uc002vfi.2_Missense_Mutation_p.V1338I|FN1_uc002vfj.2_Missense_Mutation_p.V1338I|FN1_uc002vez.2_5'Flank|FN1_uc010zjp.1_5'UTR	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1338	Fibronectin type-III 8.|Cell-attachment.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGAGTGATAACGCTGATATCA	0.463													14	44					0	0	0.008871	0	0		T	216257711	T	T	216257711	3	4	19	1	0	0	0	0	1	0	0	0	5976	536	19	1	3509	1	FN1	2	216257711	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	418948	216257711	26941662	480	13993											
FN1	2335	broad.mit.edu	37	chr2	216271937	216271937	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcatagatagtgatgttatActgaacaccaggttgcaagt	14	11	10	6	0	0	3	0	2	0	1	0	3	0	3	1	1	4	4	1	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:216271937A>G	uc002vfa.2	-	18	2892	c.2626T>C	c.(2626-2628)TAT>CAT	p.Y876H	FN1_uc002vfb.2_Missense_Mutation_p.Y876H|FN1_uc002vfc.2_Missense_Mutation_p.Y876H|FN1_uc002vfd.2_Missense_Mutation_p.Y876H|FN1_uc002vfe.2_Missense_Mutation_p.Y876H|FN1_uc002vff.2_Missense_Mutation_p.Y876H|FN1_uc002vfg.2_Missense_Mutation_p.Y876H|FN1_uc002vfh.2_Missense_Mutation_p.Y876H|FN1_uc002vfi.2_Missense_Mutation_p.Y876H|FN1_uc002vfj.2_Missense_Mutation_p.Y876H	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	876	Fibronectin type-III 3.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTGATGTTATACTGAACACCA	0.433													17	146					0	0	0.00499	0	0		G	216271937	G	G	216271937	3	3	19	1	0	0	0	0	1	0	0	0	5976	391	14	3	4923	3	FN1	2	216271937	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	14226	216271937	26927436	481	13994											
FN1	2335	broad.mit.edu	37	chr2	216274388	216274388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaccacaaagctactggCtgtgatttcggtcacagatt	11	10	11	9	1	1	3	1	1	0	2	2	4	1	3	1	3	2	2	1	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:216274388C>T	uc002vfa.2	-	15	2463	c.2197G>A	c.(2197-2199)GCC>ACC	p.A733T	FN1_uc002vfb.2_Missense_Mutation_p.A733T|FN1_uc002vfc.2_Missense_Mutation_p.A733T|FN1_uc002vfd.2_Missense_Mutation_p.A733T|FN1_uc002vfe.2_Missense_Mutation_p.A733T|FN1_uc002vff.2_Missense_Mutation_p.A733T|FN1_uc002vfg.2_Missense_Mutation_p.A733T|FN1_uc002vfh.2_Missense_Mutation_p.A733T|FN1_uc002vfi.2_Missense_Mutation_p.A733T|FN1_uc002vfj.2_Missense_Mutation_p.A733T	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	733	Fibronectin type-III 2.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAGCTACTGGCTGTGATTTCG	0.537													19	35					0	0	0.007413	0	0		T	216274388	T	T	216274388	3	4	19	1	0	0	0	0	1	0	0	0	5976	797	28	2	5364	2	FN1	2	216274388	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2451	216274388	26924985	482	13995											
FN1	2335	broad.mit.edu	37	chr2	216299477	216299477	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccataacaagtacaaaccaaCgcattgcctaggtaggtccg	14	7	8	12	2	0	0	0	0	0	0	1	0	1	0	4	2	5	3	4	2	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:216299477C>T	uc002vfa.2	-	2	485	c.219G>A	c.(217-219)GCG>GCA	p.A73A	FN1_uc002vfb.2_Silent_p.A73A|FN1_uc002vfc.2_Silent_p.A73A|FN1_uc002vfd.2_Silent_p.A73A|FN1_uc002vfe.2_Silent_p.A73A|FN1_uc002vff.2_Silent_p.A73A|FN1_uc002vfg.2_Silent_p.A73A|FN1_uc002vfh.2_Silent_p.A73A|FN1_uc002vfi.2_Silent_p.A73A|FN1_uc002vfj.2_Silent_p.A73A|FN1_uc002vfl.2_Silent_p.A73A	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	73	Fibrin- and heparin-binding 1.|Fibronectin type-I 1.			A -> V (in Ref. 9; CAA26536).	acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TACAAACCAACGCATTGCCTA	0.403													54	118					0	0	0.01441	0	0		T	216299477	T	T	216299477	2	4	19	1	0	0	0	0	0	0	0	1	5976	523	19	1		1	FN1	2	216299477	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	25089	216299477	26899896	483	13996											
RPL37A	6168	broad.mit.edu	37	chr2	217364716	217364716	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatctggcactgtggttcCtgcatgaagacagtggctgg	7	10	16	8	0	1	2	0	1	1	1	2	3	2	3	1	5	1	4	1	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:217364716C>A	uc002vgf.2	+	3	255	c.177C>A	c.(175-177)TCC>TCA	p.S59S	RPL37A_uc002vgg.2_Silent_p.S59S	NM_000998	NP_000989	P61513	RL37A_HUMAN	ribosomal protein L37a	59	C4-type.				endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	metal ion binding|protein binding|structural constituent of ribosome			ovary(1)	1		Renal(323;0.0458)		Epithelial(149;3.51e-06)|all cancers(144;0.000249)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACTGTGGTTCCTGCATGAAGA	0.463													12	49					7.93312e-07	8.20357e-07	0.00245	1	0		A	217364716	A	A	217364716	2	1	19	1	0	0	0	0	0	0	0	1	13615	668	24	5		5	RPL37A	2	217364716	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1065239	217364716	25834657	484	13997											
RNF25	64320	broad.mit.edu	37	chr2	219529962	219529962	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacactggacactgcacaccGactgccttctaaaaaagaga	15	6	7	13	1	1	1	0	0	1	1	1	4	1	2	2	1	2	1	2	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:219529962G>A	uc002vit.2	-	8	670	c.582C>T	c.(580-582)GTC>GTT	p.V194V	RNF25_uc010fvw.2_Silent_p.V82V	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	194	RING-type.				positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACTGCACACCGACTGCCTTCT	0.532													15	43					0	0	0.00499	0	0		A	219529962	A	A	219529962	2	1	19	1	0	0	0	0	0	0	0	1	13510	1045	37	1		1	RNF25	2	219529962	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2165246	219529962	23669411	485	13998											
TTLL4	9654	broad.mit.edu	37	chr2	219616528	219616528	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccagaaaattcctgatcAggtaggagattggtcttccc	11	10	10	10	0	2	3	1	1	1	2	4	5	4	3	3	3	0	1	3	3	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:219616528A>C	uc002viy.2	+	16	3345	c.2975A>C	c.(2974-2976)CAG>CCG	p.Q992P	TTLL4_uc010zkl.1_Missense_Mutation_p.Q827P|TTLL4_uc010fvx.2_Missense_Mutation_p.Q928P|TTLL4_uc010zkm.1_Missense_Mutation_p.Q195P	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	992					protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		ATTCCTGATCAGGTAGGAGAT	0.443													17	24					0	0	0.007413	0	0		C	219616528	C	C	219616528	3	2	19	1	0	0	0	0	1	0	0	0	16755	202	7	5	3029	5	TTLL4	2	219616528	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	86566	219616528	23582845	486	13999											
PRKAG3	53632	broad.mit.edu	37	chr2	219695557	219695557	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccgtttcccacggattctTtctgagctgctggtcacagc	5	13	9	14	2	3	1	1	1	2	0	5	2	5	2	2	2	3	3	2	2	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:219695557T>A	uc002vjb.1	-	3	160	c.141A>T	c.(139-141)GAA>GAT	p.E47D	PRKAG3_uc010zkn.1_RNA|PRKAG3_uc010fvy.1_Missense_Mutation_p.E47D|PRKAG3_uc010zko.1_Missense_Mutation_p.E47D	NM_017431	NP_059127	Q9UGI9	AAKG3_HUMAN	AMP-activated protein kinase, non-catalytic	47					cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|intracellular protein kinase cascade|regulation of fatty acid oxidation	cytosol	AMP-activated protein kinase activity|protein kinase binding			ovary(1)|lung(1)	2		Renal(207;0.0474)		Epithelial(149;4.35e-07)|all cancers(144;8.96e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CACGGATTCTTTCTGAGCTGC	0.562													5	168					0	0	0.000602	0	0		A	219695557	A	A	219695557	3	1	19	1	0	0	0	0	1	0	0	0	12524	1838	64	5	1372	5	PRKAG3	2	219695557	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	79029	219695557	23503816	487	14000											
CDK5R2	8941	broad.mit.edu	37	chr2	219824814	219824814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acccaagccggcatccacggGccccgaccccctggtccagc	7	3	10	21	3	0	0	0	0	0	0	2	1	2	0	8	3	2	1	8	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:219824814G>A	uc002vjf.2	+	1	417	c.272G>A	c.(271-273)GGC>GAC	p.G91D		NM_003936	NP_003927	Q13319	CD5R2_HUMAN	cyclin-dependent kinase 5, regulatory subunit 2	91					regulation of cyclin-dependent protein kinase activity	cyclin-dependent protein kinase 5 holoenzyme complex	cyclin-dependent protein kinase 5 activator activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;9.77e-07)|all cancers(144;0.000167)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCATCCACGGGCCCCGACCCC	0.697													4	16					0	0	0.000602	0	0		A	219824814	A	A	219824814	3	1	19	1	0	0	0	0	1	0	0	0	3147	1203	42	2	274	2	CDK5R2	2	219824814	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	129257	219824814	23374559	488	14001											
CCDC108	255101	broad.mit.edu	37	chr2	219894331	219894331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacaggggctgctcggagcGctccccaaggttgacccagc	7	5	13	16	2	0	1	0	1	0	0	2	2	1	2	4	4	3	4	4	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:219894331G>A	uc002vjl.1	-	11	1528	c.1444C>T	c.(1444-1446)CGC>TGC	p.R482C	CCDC108_uc010fwa.1_5'UTR|CCDC108_uc010zkp.1_Missense_Mutation_p.R471C|CCDC108_uc010zkq.1_Missense_Mutation_p.R417C	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	482						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGCTCGGAGCGCTCCCCAAGG	0.577											OREG0015211	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	119					0	0	0.001168	0	0		A	219894331	A	A	219894331	3	1	19	1	0	0	0	0	1	0	0	0	2746	1087	38	1	4433	1	CCDC108	2	219894331	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	69517	219894331	23305042	489	14002											
SLC23A3	151295	broad.mit.edu	37	chr2	220034124	220034124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggatggagcctggacaagagGcagcctgtaggaacagcagc	12	4	16	9	0	0	1	0	0	0	1	0	5	0	5	2	5	5	3	2	5	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:220034124G>A	uc010zks.1	-	3	436	c.325C>T	c.(325-327)CCT>TCT	p.P109S	NHEJ1_uc002vjq.3_RNA|SLC23A3_uc010zkr.1_Missense_Mutation_p.P109S|SLC23A3_uc010fwb.2_Missense_Mutation_p.P109S|SLC23A3_uc002vjs.1_5'Flank|SLC23A3_uc002vjt.1_5'UTR	NM_001144889	NP_001138361	Q6PIS1	S23A3_HUMAN	solute carrier family 23 (nucleobase	109	Cytoplasmic (Potential).				transmembrane transport	integral to membrane	protein binding|transporter activity				0		Renal(207;0.0474)		Epithelial(149;9.27e-07)|all cancers(144;0.000156)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGGACAAGAGGCAGCCTGTAG	0.602													50	94					0	0	0.01441	0	0		A	220034124	A	A	220034124	3	1	19	1	0	0	0	0	1	0	0	0	14489	1203	42	2	1571	2	SLC23A3	2	220034124	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	139793	220034124	23165249	490	14003											
ATG9A	79065	broad.mit.edu	37	chr2	220088662	220088662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcattaccctgccagtggtCaggcatgtagtggatgtgag	8	10	15	8	0	1	1	1	1	0	0	1	2	1	2	2	4	2	3	2	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:220088662C>T	uc002vke.1	-	9	1534	c.1348G>A	c.(1348-1350)GAC>AAC	p.D450N	ATG9A_uc002vkd.1_RNA|ATG9A_uc002vkf.1_Missense_Mutation_p.D450N	NM_001077198	NP_001070666	Q7Z3C6	ATG9A_HUMAN	APG9 autophagy 9-like 1	450	Lumenal (By similarity).				autophagic vacuole assembly|protein transport	autophagic vacuole membrane|cytoplasmic vesicle|Golgi apparatus|integral to membrane|late endosome membrane				skin(1)	1		Renal(207;0.0474)		Epithelial(149;1.37e-06)|all cancers(144;0.000222)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGCCAGTGGTCAGGCATGTAG	0.587													29	82					0	0	0.01441	0	0		T	220088662	T	T	220088662	3	4	19	1	0	0	0	0	1	0	0	0	1103	826	29	4	1203	4	ATG9A	2	220088662	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	54538	220088662	23110711	491	14004											
DNAJB2	3300	broad.mit.edu	37	chr2	220149365	220149365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcttgcaggtgtcccagatGacctggcactgggcttggag	6	10	14	11	0	1	2	0	1	1	1	2	3	2	3	2	4	1	3	2	4	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:220149365G>A	uc002vkx.1	+	9	868	c.631G>A	c.(631-633)GAC>AAC	p.D211N	DNAJB2_uc002vkw.1_Missense_Mutation_p.D211N|DNAJB2_uc002vky.2_Missense_Mutation_p.D27N|DNAJB2_uc010zlb.1_Missense_Mutation_p.D27N	NM_006736	NP_006727	P25686	DNJB2_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 2	211	UIM 1.				ER-associated protein catabolic process|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of inclusion body assembly|negative regulation of protein deubiquitination|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding|response to unfolded protein	inclusion body	heat shock protein binding|Hsp70 protein binding|polyubiquitin binding|proteasome binding|protein binding|unfolded protein binding				0		Renal(207;0.0474)		Epithelial(149;1.97e-06)|all cancers(144;0.00028)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGTCCCAGATGACCTGGCACT	0.622													20	49					0	0	0.003954	0	0		A	220149365	A	A	220149365	3	1	19	1	0	0	0	0	1	0	0	0	4626	1290	45	4	661	4	DNAJB2	2	220149365	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	60703	220149365	23050008	492	14005											
SPEG	10290	broad.mit.edu	37	chr2	220312963	220312963	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaagaagtccaagtcgtcCgggccctccctggcgggcac	7	5	15	14	3	0	1	0	0	0	1	4	2	3	2	4	4	0	1	4	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:220312963C>T	uc010fwg.2	+	4	1083	c.1083C>T	c.(1081-1083)TCC>TCT	p.S361S	SPEG_uc002vlm.2_RNA|SPEG_uc010fwh.1_5'UTR|SPEG_uc002vln.1_5'UTR|SPEG_uc002vlp.1_5'Flank	NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	361					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CCAAGTCGTCCGGGCCCTCCC	0.716													13	31					0	0	0.003163	0	0		T	220312963	T	T	220312963	2	4	19	1	0	0	0	0	0	0	0	1	15061	639	23	1		1	SPEG	2	220312963	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	163598	220312963	22886410	493	14006											
SPEG	10290	broad.mit.edu	37	chr2	220332065	220332065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcactgctcaaatgcaagatGcatttcgatggccgcaaatg	12	9	10	10	2	1	1	1	0	0	1	2	2	1	1	1	1	3	5	1	1	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:220332065G>A	uc010fwg.2	+	10	3051	c.3051G>A	c.(3049-3051)ATG>ATA	p.M1017I		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1017	Ig-like 4.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		AATGCAAGATGCATTTCGATG	0.587													23	55					0	0	0.004656	0	0		A	220332065	A	A	220332065	3	1	19	1	0	0	0	0	1	0	0	0	15061	1319	46	2	3101	2	SPEG	2	220332065	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	19102	220332065	22867308	494	14007											
SPEG	10290	broad.mit.edu	37	chr2	220336948	220336948	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cattcgaactgcggctttcaGatgtggtcccaggccctcca	7	10	10	14	2	1	1	1	0	0	1	4	2	3	1	3	3	2	1	3	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:220336948G>A	uc010fwg.2	+	15	3836	c.3836_splice	c.e15-1	p.D1279_splice		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus						muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GCGGCTTTCAGATGTGGTCCC	0.662													8	93					0	0	0.004482	0	0		A	220336948	A	A	220336948	5	1	19	1	0	0	0	0	0	0	1	0	15061	956	33	4	3905	4	SPEG	2	220336948	Splice_Site	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4883	220336948	22862425	495	14008											
SPEG	10290	broad.mit.edu	37	chr2	220344792	220344792	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagagccccagtactgccagTatggcacacctgagtttgta	10	9	11	11	0	0	2	0	1	0	1	0	3	0	2	4	1	3	5	4	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:220344792T>C	uc010fwg.2	+	25	5272	c.5272T>C	c.(5272-5274)TAT>CAT	p.Y1758H		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1758	Protein kinase 1.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GTACTGCCAGTATGGCACACC	0.607													8	82					0	0	0.004482	0	0		C	220344792	C	C	220344792	3	2	19	1	0	0	0	0	1	0	0	0	15061	1638	57	3	5382	3	SPEG	2	220344792	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	7844	220344792	22854581	496	14009											
SPEG	10290	broad.mit.edu	37	chr2	220353309	220353309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatcccccgggcgggcaagCggcacgccggtctctatgag	6	5	15	15	5	1	1	0	1	1	0	3	1	2	1	3	4	1	3	3	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:220353309C>T	uc010fwg.2	+	33	7948	c.7948C>T	c.(7948-7950)CGG>TGG	p.R2650W		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2650	Ig-like 9.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GGCGGGCAAGCGGCACGCCGG	0.652													29	63					0	0	0.010818	0	0		T	220353309	T	T	220353309	3	4	19	1	0	0	0	0	1	0	0	0	15061	759	27	1	8090	1	SPEG	2	220353309	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	8517	220353309	22846064	497	14010											
SPEG	10290	broad.mit.edu	37	chr2	220354353	220354353	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccacgtcaccccaagtgaGcccaagcctttcgtccttga	9	8	7	17	2	1	2	1	2	0	0	3	2	2	2	6	0	2	0	6	0	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:220354353G>A	uc010fwg.2	+	36	8613	c.8613G>A	c.(8611-8613)GAG>GAA	p.E2871E		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2871	Pro-rich.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CCCCAAGTGAGCCCAAGCCTT	0.617													25	278					0	0	0.005443	0	0		A	220354353	A	A	220354353	2	1	19	1	0	0	0	0	0	0	0	1	15061	962	34	2		2	SPEG	2	220354353	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1044	220354353	22845020	498	14011											
ACSL3	2181	broad.mit.edu	37	chr2	223806301	223806301	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtctggtgacagatgccTtcaagctgaaacgcaaagag	12	8	12	9	1	2	4	1	2	1	2	2	4	2	4	1	2	3	2	1	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:223806301T>C	uc002vni.2	+	17	2543	c.2092T>C	c.(2092-2094)TTC>CTC	p.F698L	ACSL3_uc002vnj.2_Missense_Mutation_p.F698L|ACSL3_uc002vnk.2_5'Flank	NM_004457	NP_004448	O95573	ACSL3_HUMAN	acyl-CoA synthetase long-chain family member 3	698	Cytoplasmic (Potential).				long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|fatty-acyl-CoA synthase activity|long-chain fatty acid-CoA ligase activity|protein binding			ovary(2)	2		Renal(207;0.0183)		Epithelial(121;1.28e-10)|all cancers(144;8.06e-08)|Lung(261;0.00834)|LUSC - Lung squamous cell carcinoma(224;0.00864)	Icosapent(DB00159)	GACAGATGCCTTCAAGCTGAA	0.403			T	ETV1	prostate								5	132					0	0	0.00308	0	0		C	223806301	C	C	223806301	3	2	19	1	0	0	0	0	1	0	0	0	178	1609	56	3	2146	3	ACSL3	2	223806301	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3451948	223806301	19393072	499	14012											
DOCK10	55619	broad.mit.edu	37	chr2	225659763	225659763	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtggccatcaaaacagTccttatacgcttagtcaggt	11	11	9	10	1	2	0	2	0	0	0	3	0	3	0	2	2	3	2	2	2	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:225659763T>C	uc010fwz.1	-	45	5226	c.4987A>G	c.(4987-4989)ACT>GCT	p.T1663A	DOCK10_uc002vob.2_Missense_Mutation_p.T1657A|DOCK10_uc002voa.2_Missense_Mutation_p.T319A|DOCK10_uc002voc.2_Missense_Mutation_p.T517A	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1663	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		ATCAAAACAGTCCTTATACGC	0.488													24	138					0	0	0.003954	0	0		C	225659763	C	C	225659763	3	2	19	1	0	0	0	0	1	0	0	0	4691	1667	58	3	1621	3	DOCK10	2	225659763	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1853462	225659763	17539610	500	14013											
KIAA1486	57624	broad.mit.edu	37	chr2	226378131	226378131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacgaaggaagttacgtggGcaaacatttccgcatgggat	12	8	12	9	3	0	0	0	0	0	0	1	3	1	2	2	3	2	3	2	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:226378131G>A	uc002voe.2	+	3	441	c.266G>A	c.(265-267)GGC>GAC	p.G89D	KIAA1486_uc010fxa.1_Intron	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	89										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		AGTTACGTGGGCAAACATTTC	0.498													16	50					0	0	0.003163	0	0		A	226378131	A	A	226378131	3	1	19	1	0	0	0	0	1	0	0	0	8253	1203	42	2	272	2	KIAA1486	2	226378131	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	718368	226378131	16821242	501	14014											
KIAA1486	57624	broad.mit.edu	37	chr2	226447400	226447400	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccgtctacgctgtaccgaAcccagtctccccatggctac	7	8	7	19	3	2	0	0	0	2	0	3	1	2	0	6	1	4	3	6	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:226447400A>G	uc002voe.2	+	4	1442	c.1267A>G	c.(1267-1269)ACC>GCC	p.T423A	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.T193A	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	423	Pro-rich.									ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		GCTGTACCGAACCCAGTCTCC	0.662													5	18					0	0	0.000602	0	0		G	226447400	G	G	226447400	3	3	19	1	0	0	0	0	1	0	0	0	8253	43	2	3	1277	3	KIAA1486	2	226447400	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	69269	226447400	16751973	502	14015											
IRS1	3667	broad.mit.edu	37	chr2	227663319	227663319	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcttctcgttctcgtagtActcgaggcgcgccgggcccc	3	11	11	16	6	3	0	0	0	3	0	6	1	3	0	3	2	1	3	3	2	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:227663319A>G	uc002voh.3	-	1	188	c.136T>C	c.(136-138)TAC>CAC	p.Y46H		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	46	PH.|Mediates interaction with PHIP (By similarity).				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		TTCTCGTAGTACTCGAGGCGC	0.627													6	92					0	0	0.013537	0	0		G	227663319	G	G	227663319	3	3	19	1	0	0	0	0	1	0	0	0	7856	391	14	3	3596	3	IRS1	2	227663319	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1215919	227663319	15536054	503	14016											
TRIP12	9320	broad.mit.edu	37	chr2	230667172	230667172	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgttttacttgatgcattAcacctttataataacagaga	14	15	6	6	0	0	2	0	1	0	1	0	3	0	2	1	0	4	2	1	0	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:230667172A>G	uc002vpw.1	-	20	2886	c.2777T>C	c.(2776-2778)GTA>GCA	p.V926A	TRIP12_uc002vpx.1_Missense_Mutation_p.V974A|TRIP12_uc002vpy.1_Missense_Mutation_p.V656A|TRIP12_uc010zlz.1_Intron	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	926					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		TTGATGCATTACACCTTTATA	0.398													6	146					0	0	0.001168	0	0		G	230667172	G	G	230667172	3	3	19	1	0	0	0	0	1	0	0	0	16582	391	14	3	3289	3	TRIP12	2	230667172	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3003853	230667172	12532201	504	14017											
SP110	3431	broad.mit.edu	37	chr2	231042294	231042294	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattccttcacaacgtataTtccgtttccagttctttgcg	7	17	5	12	3	3	0	2	0	1	0	6	0	6	0	3	0	2	3	3	0	3	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:231042294T>C	uc002vqh.3	-	14	1790	c.1550A>G	c.(1549-1551)AAT>AGT	p.N517S	SP110_uc002vqg.3_Missense_Mutation_p.N517S|SP110_uc002vqi.3_Missense_Mutation_p.N517S|SP110_uc010fxk.2_Missense_Mutation_p.N515S|SP110_uc010fxj.2_Missense_Mutation_p.N160S	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	517	SAND.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		ACAACGTATATTCCGTTTCCA	0.433													26	557					0	0	0.008361	0	0		C	231042294	C	C	231042294	3	2	19	1	0	0	0	0	1	0	0	0	14986	1493	52	3	679	3	SP110	2	231042294	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	375122	231042294	12157079	505	14018											
SP140	11262	broad.mit.edu	37	chr2	231112772	231112772	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccaagagagtccagagggaaGagacaaaggtaggaacagaa	19	2	14	6	0	0	4	0	0	0	4	1	8	1	6	2	3	1	1	2	3	6	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:231112772G>C	uc002vql.2	+	8	999	c.884G>C	c.(883-885)AGA>ACA	p.R295T	SP140_uc010zma.1_Intron|SP140_uc002vqk.2_Missense_Mutation_p.R295T|SP140_uc002vqn.2_Intron|SP140_uc002vqm.2_Missense_Mutation_p.R269T|SP140_uc010fxl.2_Missense_Mutation_p.R295T	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	295					defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CCAGAGGGAAGAGACAAAGGT	0.512													29	55					0	0	0.00632	0	0		C	231112772	C	C	231112772	3	2	19	1	0	0	0	0	1	0	0	0	14987	942	33	5	1031	5	SP140	2	231112772	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	70478	231112772	12086601	506	14019											
GPR55	9290	broad.mit.edu	37	chr2	231774792	231774792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgggccctgatgttcatgcGgaattctttgatgacaaagt	9	13	12	7	1	2	3	1	3	1	0	2	4	2	4	1	2	1	1	1	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:231774792G>A	uc002vrg.2	-	2	1079	c.886C>T	c.(886-888)CGC>TGC	p.R296C	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Missense_Mutation_p.R296C	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	296	Cytoplasmic (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		ATGTTCATGCGGAATTCTTTG	0.532													43	84					0	0	0.01441	0	0		A	231774792	A	A	231774792	3	1	19	1	0	0	0	0	1	0	0	0	6714	1116	39	1	77	1	GPR55	2	231774792	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	662020	231774792	11424581	507	14020											
GPR55	9290	broad.mit.edu	37	chr2	231774894	231774894	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgatgctctgcttggCtctgcactctacgataaagc	9	11	10	11	1	3	1	0	1	3	0	3	3	3	1	0	1	6	5	0	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:231774894C>A	uc002vrg.2	-	2	977	c.784G>T	c.(784-786)GCC>TCC	p.A262S	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Missense_Mutation_p.A262S	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	262	Extracellular (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		CTCTGCTTGGCTCTGCACTCT	0.502													56	102					1.46357e-32	1.57243e-32	0.01441	1	0		A	231774894	A	A	231774894	3	1	19	1	0	0	0	0	1	0	0	0	6714	797	28	5	179	5	GPR55	2	231774894	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	102	231774894	11424479	508	14021											
ECEL1	9427	broad.mit.edu	37	chr2	233347857	233347857	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggtttcagcaggaagtcCgggtagccgaccatcaccat	9	8	12	12	3	2	0	2	0	0	0	4	2	3	1	4	3	2	3	4	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:233347857C>T	uc002vsv.2	-	9	1744	c.1539G>A	c.(1537-1539)CCG>CCA	p.P513P	ECEL1_uc010fya.1_Silent_p.P513P|ECEL1_uc010fyb.1_Silent_p.P220P	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	513	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GCAGGAAGTCCGGGTAGCCGA	0.657													4	13					0	0	0.000602	0	0		T	233347857	T	T	233347857	2	4	19	1	0	0	0	0	0	0	0	1	4897	639	23	1		1	ECEL1	2	233347857	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1572963	233347857	9851516	509	14022											
DNAJB3	414061	broad.mit.edu	37	chr2	234652351	234652351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagccgccctccgcccccGcctcgccatagcggtcatag	5	6	10	20	5	1	0	1	0	0	0	3	0	2	0	7	1	3	1	7	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:234652351G>A	uc002vuz.2	-	1	311	c.212C>T	c.(211-213)GCG>GTG	p.A71V	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron	NM_001001394	NP_001001394	Q8WWF6	DNJB3_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 3	71					protein folding		heat shock protein binding|unfolded protein binding				0						CTCCGCCCCCGCCTCGCCATA	0.627													50	115					0	0	0.01441	0	0		A	234652351	A	A	234652351	3	1	19	1	0	0	0	0	1	0	0	0	4627	1087	38	1	229	1	DNAJB3	2	234652351	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1304494	234652351	8547022	510	14023											
AGAP1	116987	broad.mit.edu	37	chr2	236877258	236877258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccgacggcctgtccggcActgctgaaggtaagggttcc	8	7	14	12	3	0	1	0	1	0	0	2	2	2	1	4	4	2	4	4	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:236877258A>G	uc002vvs.2	+	13	2231	c.1636A>G	c.(1636-1638)ACT>GCT	p.T546A	AGAP1_uc002vvt.2_Missense_Mutation_p.T493A	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	546	PH.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						CCTGTCCGGCACTGCTGAAGG	0.557													5	61					0	0	0.006214	0	0		G	236877258	G	G	236877258	3	3	19	1	0	0	0	0	1	0	0	0	366	159	6	3	1686	3	AGAP1	2	236877258	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2224907	236877258	6322115	511	14024											
GBX2	2637	broad.mit.edu	37	chr2	237076119	237076119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgcaccgtctcggccgCggagaaggcgagcagcgagc	8	3	16	14	6	1	1	0	0	1	1	2	4	1	1	3	3	5	2	3	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:237076119C>T	uc002vvw.1	-	1	534	c.496G>A	c.(496-498)GCG>ACG	p.A166T	GBX2_uc010zng.1_Missense_Mutation_p.A156T	NM_001485	NP_001476	P52951	GBX2_HUMAN	gastrulation brain homeo box 2	166				LPPAHPHHQIPSLPTGFCSSLAQGMALTSTLMATLPGGFSA SPQHQEAAAARKFAPQPLPGGGNFDKAEALQADAEDGKGFL AKEGSLLAFSAAETVQASLVGAVRGQGKDESKVEDDPKG -> CRPHTLTTRSPACPQASAPAWRRAWRSPLRSWPRSPAA SPRRPSTRRRQRPASSRRSRCPAAVTSTRRRRCRLTRRTAK ASWPKRARCSPSPRPRRCRLRSSGLSEGKGKTSQRWKTTRS (in Ref. 1; AAC03241).		nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Breast(86;0.00235)|Renal(207;0.00339)|all_hematologic(139;0.00357)|all_lung(227;0.0616)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|Lung NSC(271;0.179)		Epithelial(121;4.5e-25)|OV - Ovarian serous cystadenocarcinoma(60;5.16e-11)|BRCA - Breast invasive adenocarcinoma(100;3.4e-05)|Lung(119;0.00195)|LUSC - Lung squamous cell carcinoma(224;0.00471)		GTCTCGGCCGCGGAGAAGGCG	0.756													11	15					0	0	0.010504	0	0		T	237076119	T	T	237076119	3	4	19	1	0	0	0	0	1	0	0	0	6296	768	27	1	558	1	GBX2	2	237076119	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	198861	237076119	6123254	512	14025											
COL6A3	1293	broad.mit.edu	37	chr2	238285437	238285437	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgctggtgctccgttgtgCactgattttaagagattcac	7	14	12	8	1	1	2	1	1	0	1	2	3	2	2	1	2	3	4	1	2	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:238285437C>T	uc002vwl.2	-	7	3333	c.3048G>A	c.(3046-3048)GTG>GTA	p.V1016V	COL6A3_uc002vwo.2_Silent_p.V810V|COL6A3_uc010znj.1_Silent_p.V409V|COL6A3_uc002vwq.2_Silent_p.V810V|COL6A3_uc002vwr.2_Silent_p.V609V|COL6A3_uc010znk.1_Silent_p.V816V	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1016	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CTCCGTTGTGCACTGATTTTA	0.498													101	282					0	0	0.01441	0	0		T	238285437	T	T	238285437	2	4	19	1	0	0	0	0	0	0	0	1	3704	697	25	2		2	COL6A3	2	238285437	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1209318	238285437	4913936	513	14026											
RBM44	375316	broad.mit.edu	37	chr2	238725990	238725990	+	Frame_Shift_Del	DEL	T	-	-																															agtgcagaaaaaagaggaggTtttttttaatattttggaac																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:238725990delT	uc002vxi.3	+	3	563	c.431delT	c.(430-432)GTTfs	p.V144fs		NM_001080504	NP_001073973	Q6ZP01	RBM44_HUMAN	RNA binding motif protein 44	143							nucleotide binding|RNA binding			ovary(4)	4		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;3.74e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.3e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000118)|Lung(119;0.0112)|LUSC - Lung squamous cell carcinoma(224;0.0266)		AAAGAGGAGGTTTTTTTTAAT	0.308													12	12	---	---	---	---						.	-	238725990	-	-	238725990	7	5	19	1	0	1	0	1	0	0	0	0	13163	1725	60	0	437	0	RBM44	2	238725990	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	440553	238725990	4473383	514	14027											
PER2	8864	broad.mit.edu	37	chr2	239162209	239162209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaccagcgggggccgggCggacacgggccccccagatc	6	1	16	18	4	0	1	0	0	0	1	1	2	0	2	6	5	1	0	6	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:239162209C>T	uc002vyc.2	-	19	2692	c.2455G>A	c.(2455-2457)GCC>ACC	p.A819T	PER2_uc010znv.1_Missense_Mutation_p.A819T	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	819					circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		GGGGGCCGGGCGGACACGGGC	0.617													5	18					0	0	0.001984	0	0		T	239162209	T	T	239162209	3	4	19	1	0	0	0	0	1	0	0	0	11749	768	27	1	1332	1	PER2	2	239162209	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	436219	239162209	4037164	515	14028											
HDAC4	9759	broad.mit.edu	37	chr2	239976501	239976501	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttgcattgggtctttgcTgtaaaaccttttctgggaga	7	16	11	7	1	2	1	0	0	2	1	2	2	2	1	1	2	3	4	1	2	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:239976501T>C	uc002vyk.3	-	25	3809	c.3017A>G	c.(3016-3018)CAG>CGG	p.Q1006R	HDAC4_uc010fyy.2_Missense_Mutation_p.Q963R	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	1006	Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		GGGTCTTTGCTGTAAAACCTT	0.498													7	120					0	0	0.001984	0	0		C	239976501	C	C	239976501	3	2	19	1	0	0	0	0	1	0	0	0	7025	1580	55	3	249	3	HDAC4	2	239976501	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	814292	239976501	3222872	516	14029											
HDAC4	9759	broad.mit.edu	37	chr2	240002823	240002823	+	Frame_Shift_Del	DEL	G	-	-																															aagtactcagcgtctcccatGggggggtccaggccgccggt																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:240002823delG	uc002vyk.3	-	22	3495	c.2703delC	c.(2701-2703)CCCfs	p.P901fs	HDAC4_uc010fyy.2_Frame_Shift_Del_p.P858fs	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	901	Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		CGTCTCCCATGGGGGGGTCCA	0.602													16	9	---	---	---	---						.	-	240002823	-	-	240002823	7	5	19	1	0	1	0	1	0	0	0	0	7025	1335	47	0	575	0	HDAC4	2	240002823	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	26322	240002823	3196550	517	14030											
OR6B2	389090	broad.mit.edu	37	chr2	240969231	240969231	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagcggaaacaccaggaTgatgaaggccaggatgaaat	16	4	14	7	1	0	3	0	3	0	0	0	7	0	7	2	5	2	0	2	5	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:240969231T>A	uc002vyr.2	-	2	662	c.616A>T	c.(616-618)ATC>TTC	p.I206F	OR6B2_uc010zoc.1_Missense_Mutation_p.I206F	NM_001005853	NP_001005853	Q6IFH4	OR6B2_HUMAN	olfactory receptor, family 6, subfamily B,	206	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.4e-29)|all cancers(36;2.08e-27)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)		AACACCAGGATGATGAAGGCC	0.577													10	36					0	0	0.006214	0	0		A	240969231	A	A	240969231	3	1	19	1	0	0	0	0	1	0	0	0	11207	1464	51	5	324	5	OR6B2	2	240969231	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	966408	240969231	2230142	518	14031											
GPR35	2859	broad.mit.edu	37	chr2	241569510	241569510	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgctctgggtgttctgctgCcgcatgcagcagtggacgga	5	9	16	11	3	2	0	0	0	2	0	2	2	2	2	1	3	4	6	1	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:241569510C>T	uc002vzs.1	+	1	716	c.141C>T	c.(139-141)TGC>TGT	p.C47C	GPR35_uc010fzh.1_Silent_p.C78C|GPR35_uc010fzi.1_Silent_p.C78C	NM_005301	NP_005292	Q9HC97	GPR35_HUMAN	G protein-coupled receptor 35	47	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(2)|pancreas(1)	3		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;5.29e-32)|all cancers(36;1.38e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.02e-06)|Lung(119;0.00163)|Colorectal(34;0.00463)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.031)		TGTTCTGCTGCCGCATGCAGC	0.652													4	74					0	0	0.000602	0	0		T	241569510	T	T	241569510	2	4	19	1	0	0	0	0	0	0	0	1	6705	747	26	2		2	GPR35	2	241569510	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	600279	241569510	1629863	519	14032											
PASK	23178	broad.mit.edu	37	chr2	242046073	242046073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcccccacaaagctcctgagCctgggccacatcactcaggc	9	5	9	18	0	2	1	2	1	0	0	3	1	3	1	5	2	2	1	5	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:242046073C>T	uc002wao.1	-	18	3972	c.3880G>A	c.(3880-3882)GCT>ACT	p.A1294T	PASK_uc010zol.1_Missense_Mutation_p.A1108T|PASK_uc010zom.1_Missense_Mutation_p.A1259T|PASK_uc010fzl.1_Missense_Mutation_p.A1301T|PASK_uc010zon.1_Missense_Mutation_p.A1075T	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	1294					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		AGCTCCTGAGCCTGGGCCACA	0.572													47	93					0	0	0.011902	0	0		T	242046073	T	T	242046073	3	4	19	1	0	0	0	0	1	0	0	0	11491	739	26	2	95	2	PASK	2	242046073	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	476563	242046073	1153300	520	14033											
HDLBP	3069	broad.mit.edu	37	chr2	242178074	242178075	+	Frame_Shift_Del	DEL	CT	-	-																															ggggacccacctgcgttctcCtctctgtctgggaatttaat																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:242178074_242178075delCT	uc002waz.2	-	20	2966_2967	c.2738_2739delAG	c.(2737-2739)GAGfs	p.E913fs	HDLBP_uc002wba.2_Frame_Shift_Del_p.E913fs|HDLBP_uc002wbb.2_Frame_Shift_Del_p.E865fs	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	913	KH 11.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		CTGCGTTCTCCTCTCTGTCTGG	0.52													136	293	---	---	---	---						.	-	242178075	-	-	242178074	7	5	19	1	0	1	0	1	0	0	0	0	7041	680	24	0	1103	0	HDLBP	2	242178074	Frame_Shift_Del	DEL	CT	TCGA-BR-4361-01A-01D-1158-08	132001	242178074	1021299	521	14034											
HDLBP	3069	broad.mit.edu	37	chr2	242186183	242186183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaccaggtctttctgaataGacagaatcctgctccgggca	10	11	9	11	1	2	3	0	1	2	2	4	3	4	3	3	2	2	2	3	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:242186183G>A	uc002waz.2	-	16	2162	c.1934C>T	c.(1933-1935)TCT>TTT	p.S645F	HDLBP_uc002wba.2_Missense_Mutation_p.S645F|HDLBP_uc002wbb.2_Missense_Mutation_p.S597F	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	645	KH 7.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		TTTCTGAATAGACAGAATCCT	0.473													44	130					0	0	0.010771	0	0		A	242186183	A	A	242186183	3	1	19	1	0	0	0	0	1	0	0	0	7041	942	33	4	1924	4	HDLBP	2	242186183	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	8109	242186183	1013190	522	14035											
THAP4	51078	broad.mit.edu	37	chr2	242524084	242524084	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attggctgtgtcgtggttgcCatggagaccgtctgctcaag	6	12	14	9	2	2	1	1	0	1	1	3	2	2	1	2	3	2	3	2	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:242524084C>A	uc002wbt.2	-	6	1894	c.1671G>T	c.(1669-1671)ATG>ATT	p.M557I	THAP4_uc002wbs.2_Missense_Mutation_p.M145I	NM_015963	NP_057047	Q8WY91	THAP4_HUMAN	THAP domain containing 4 isoform 1	557							DNA binding|metal ion binding				0		all_cancers(19;2.09e-34)|all_epithelial(40;2.09e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Ovarian(221;0.069)|Lung NSC(271;0.0886)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.2)		Epithelial(32;2.3e-33)|all cancers(36;8.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.68e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.65e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0844)		TCGTGGTTGCCATGGAGACCG	0.507													39	129					6.27289e-28	6.71568e-28	0.01441	1	0		A	242524084	A	A	242524084	3	1	19	1	0	0	0	0	1	0	0	0	15871	594	21	5	66	5	THAP4	2	242524084	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	337901	242524084	675289	523	14036											
PDCD1	5133	broad.mit.edu	37	chr2	242794422	242794422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcccagcaggccgcccaCgacaccaaccaccagggttt	9	4	10	18	2	0	0	0	0	0	0	0	1	0	0	6	2	3	3	6	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:242794422C>T	uc002wcq.3	-	3	588	c.520G>A	c.(520-522)GTG>ATG	p.V174M	PDCD1_uc010fzs.2_Intron|PDCD1_uc010fzt.2_RNA	NM_005018	NP_005009	Q15116	PDCD1_HUMAN	programmed cell death 1 precursor	174	Helical; (Potential).				apoptosis|humoral immune response|multicellular organismal development|T cell costimulation	integral to membrane	protein tyrosine phosphatase activity|signal transducer activity			ovary(1)	1		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;3.84e-33)|all cancers(36;8.08e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.41e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0219)		AGGCCGCCCACGACACCAACC	0.682													5	19					0	0	0.001168	0	0		T	242794422	T	T	242794422	3	4	19	1	0	0	0	0	1	0	0	0	11634	536	19	1	358	1	PDCD1	2	242794422	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	270338	242794422	404951	524	14037											
CRBN	51185	broad.mit.edu	37	chr3	3209403	3209403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atatctggcacttattgaggGattctaattgaactgcagac	12	13	9	7	0	2	3	0	2	2	1	2	4	2	4	0	2	2	2	0	2	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:3209403G>A	uc003bpq.2	-	5	621	c.602C>T	c.(601-603)TCC>TTC	p.S201F	CRBN_uc003bpr.2_Missense_Mutation_p.S200F|CRBN_uc010hbw.2_Missense_Mutation_p.S201F|CRBN_uc011aso.1_Missense_Mutation_p.S138F	NM_016302	NP_057386	Q96SW2	CRBN_HUMAN	cereblon	201	Lon.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul4A-RING ubiquitin ligase complex|cytoplasm|membrane|nucleus	ATP-dependent peptidase activity|protein binding			ovary(1)	1				Epithelial(13;0.00244)|OV - Ovarian serous cystadenocarcinoma(96;0.00617)|all cancers(10;0.0079)		CTTATTGAGGGATTCTAATTG	0.383													57	150					0	0	0.01441	0	0		A	3209403	A	A	3209403	3	1	19	1	0	0	0	0	1	0	0	0	3854	1174	41	4	754	4	CRBN	3	3209403	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08		3209403	194813027	525	14038											
SETMAR	6419	broad.mit.edu	37	chr3	4355148	4355148	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccgaattgactcaatggtAcctaagttggcactttttgc	9	14	9	9	1	1	1	1	1	0	0	2	2	2	1	2	2	2	3	2	2	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:4355148A>G	uc011asp.1	+	2	790	c.723A>G	c.(721-723)GTA>GTG	p.V241V	SUMF1_uc003bps.1_Intron|SETMAR_uc003bpw.3_Silent_p.V228V|SETMAR_uc003bpy.3_Intron|SETMAR_uc011asq.1_Intron|SETMAR_uc011asr.1_Intron|SETMAR_uc010hbx.2_Silent_p.V36V	NM_006515	NP_006506	Q53H47	SETMR_HUMAN	SET domain and mariner transposase fusion	228	SET.|Histone-lysine N-methyltransferase.				DNA integration|DNA repair|transposition, DNA-mediated	chromosome|nucleus	DNA binding|endonuclease activity|histone-lysine N-methyltransferase activity|transposase activity|zinc ion binding			ovary(1)	1		Melanoma(143;0.0657)		Epithelial(13;0.0025)|OV - Ovarian serous cystadenocarcinoma(96;0.011)|all cancers(10;0.0114)		ACTCAATGGTACCTAAGTTGG	0.363								Chromatin_Structure|Direct_reversal_of_damage					11	81					0	0	0.010729	0	0		G	4355148	G	G	4355148	2	3	19	1	0	0	0	0	0	0	0	1	14165	378	14	3		3	SETMAR	3	4355148	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1145745	4355148	193667282	526	14039											
ITPR1	3708	broad.mit.edu	37	chr3	4715002	4715002	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtggaccgagatccccAggaacaagtcacccccgtga	11	5	11	14	2	1	2	1	1	0	1	2	5	2	4	5	2	1	1	5	2	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:4715002A>G	uc003bqa.2	+	21	2735	c.2387A>G	c.(2386-2388)CAG>CGG	p.Q796R	ITPR1_uc010hca.1_Missense_Mutation_p.Q781R|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Missense_Mutation_p.Q781R	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	796	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		CGAGATCCCCAGGAACAAGTC	0.567													44	89					0	0	0.00874	0	0		G	4715002	G	G	4715002	3	3	19	1	0	0	0	0	1	0	0	0	7936	188	7	3	2461	3	ITPR1	3	4715002	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	359854	4715002	193307428	527	14040											
RAD18	56852	broad.mit.edu	37	chr3	8977591	8977591	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcatcgcattgggcattgtAcatgtgtacaaattcttggt	10	14	10	7	1	1	0	0	0	1	0	2	0	1	0	0	2	3	5	0	2	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:8977591A>G	uc003brd.2	-	7	930	c.853T>C	c.(853-855)TAC>CAC	p.Y285H	RAD18_uc003bre.2_RNA	NM_020165	NP_064550	Q9NS91	RAD18_HUMAN	postreplication repair protein hRAD18p	285					DNA repair	nucleus|replication fork	damaged DNA binding|ligase activity|ubiquitin protein ligase binding|Y-form DNA binding|zinc ion binding			skin(3)|ovary(2)	5				OV - Ovarian serous cystadenocarcinoma(96;0.0552)		TGGGCATTGTACATGTGTACA	0.343								Rad6_pathway					10	143					0	0	0.001855	0	0		G	8977591	G	G	8977591	3	3	19	1	0	0	0	0	1	0	0	0	13005	391	14	3	662	3	RAD18	3	8977591	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4262589	8977591	189044839	528	14041											
SRGAP3	9901	broad.mit.edu	37	chr3	9027593	9027593	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgcaactcgtgcagagcCgtgctcatggtcttctcgat	6	11	10	14	4	3	1	1	0	2	1	6	2	4	1	2	1	4	3	2	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:9027593C>T	uc003brf.1	-	22	3586	c.2910G>A	c.(2908-2910)ACG>ACA	p.T970T	SRGAP3_uc003brg.1_Silent_p.T946T	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	970	Potential.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		CGTGCAGAGCCGTGCTCATGG	0.622			T	RAF1	pilocytic astrocytoma								18	59					0	0	0.012319	0	0		T	9027593	T	T	9027593	2	4	19	1	0	0	0	0	0	0	0	1	15172	639	23	1		1	SRGAP3	3	9027593	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	50002	9027593	188994837	529	14042											
FANCD2	2177	broad.mit.edu	37	chr3	10106464	10106464	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactggaagaatacgacacTcaggatgggattgccataaa	15	7	12	7	1	1	1	1	0	0	1	1	6	1	5	1	4	2	0	1	4	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:10106464T>C	uc003buw.2	+	23	2151	c.2073T>C	c.(2071-2073)ACT>ACC	p.T691T	FANCD2_uc003bux.1_Silent_p.T691T|FANCD2_uc003buy.1_Silent_p.T691T|FANCD2_uc010hcw.1_RNA	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	691					DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		AATACGACACTCAGGATGGGA	0.498			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				10	122					0	0	0.001855	0	0		C	10106464	C	C	10106464	2	2	19	1	0	0	0	0	0	0	0	1	5679	1538	54	3		3	FANCD2	3	10106464	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1078871	10106464	187915966	530	14043											
IRAK2	3656	broad.mit.edu	37	chr3	10242142	10242142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggcagcttctgtaagaaagGctgaggatgaacaggaagag	14	7	15	5	0	1	4	0	2	1	2	1	6	1	6	0	4	2	4	0	4	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:10242142G>A	uc003bve.1	+	3	443	c.367G>A	c.(367-369)GCT>ACT	p.A123T		NM_001570	NP_001561	O43187	IRAK2_HUMAN	interleukin-1 receptor-associated kinase 2	123					activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|endosome membrane|plasma membrane	ATP binding|NF-kappaB-inducing kinase activity|protein heterodimerization activity|protein homodimerization activity			lung(5)|breast(3)	8						TGTAAGAAAGGCTGAGGATGA	0.458													50	150					0	0	0.01441	0	0		A	10242142	A	A	10242142	3	1	19	1	0	0	0	0	1	0	0	0	7839	1203	42	2	377	2	IRAK2	3	10242142	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	135678	10242142	187780288	531	14044											
SLC6A11	6538	broad.mit.edu	37	chr3	10976880	10976880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaagacggaggggacactgCccgaggtgagaccgccccag	10	2	17	12	3	0	2	0	1	0	2	0	7	0	5	4	5	1	0	4	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:10976880C>T	uc003bvz.2	+	13	1775	c.1741C>T	c.(1741-1743)CCC>TCC	p.P581S		NM_014229	NP_055044	P48066	S6A11_HUMAN	solute carrier family 6 (neurotransmitter	581	Cytoplasmic (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.229)		GGGGACACTGCCCGAGGTGAG	0.647													10	145					0	0	0.010729	0	0		T	10976880	T	T	10976880	3	4	19	1	0	0	0	0	1	0	0	0	14699	739	26	2	1791	2	SLC6A11	3	10976880	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	734738	10976880	187045550	532	14045											
RAF1	5894	broad.mit.edu	37	chr3	12645681	12645681	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggtgctgaccatgtggAcattaggtgtggatgtcgac	7	11	17	6	1	0	1	0	1	0	0	1	4	0	3	1	5	1	1	1	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:12645681A>G	uc003bxf.3	-	7	1203	c.788T>C	c.(787-789)GTC>GCC	p.V263A	RAF1_uc011aut.1_Missense_Mutation_p.V48A|RAF1_uc011auu.1_Missense_Mutation_p.V181A	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	263			V -> A (in NS5; shows in vitro greater kinase activity and enhanced MAPK1 activation than wild-type).		activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	GACCATGTGGACATTAGGTGT	0.522			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				4	116					0	0	0.009096	0	0		G	12645681	G	G	12645681	3	3	19	1	0	0	0	0	1	0	0	0	13027	275	10	3	1202	3	RAF1	3	12645681	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1668801	12645681	185376749	533	14046											
RAF1	5894	broad.mit.edu	37	chr3	12647712	12647712	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattacctaacaggcatcCtggaaacagactctcgcata	16	8	6	11	1	1	1	0	0	1	1	3	2	2	2	2	2	3	2	2	2	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:12647712C>A	uc003bxf.3	-	6	1083	c.668G>T	c.(667-669)AGG>ATG	p.R223M	RAF1_uc011aut.1_Intron|RAF1_uc011auu.1_Missense_Mutation_p.R141M	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	223					activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	AACAGGCATCCTGGAAACAGA	0.398			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				5	47					2.0095e-06	2.0727e-06	0.001984	1	0		A	12647712	A	A	12647712	3	1	19	1	0	0	0	0	1	0	0	0	13027	681	24	5	1326	5	RAF1	3	12647712	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2031	12647712	185374718	534	14047											
NUP210	23225	broad.mit.edu	37	chr3	13372083	13372083	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcaacatgcacaactggAaccttttcgggtccatccag	11	10	7	13	1	2	0	2	0	0	0	5	1	4	1	3	2	4	1	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:13372083A>G	uc003bxv.1	-	30	4070	c.3987T>C	c.(3985-3987)GTT>GTC	p.V1329V		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1329	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					GCACAACTGGAACCTTTTCGG	0.512													50	114					0	0	0.01441	0	0		G	13372083	G	G	13372083	2	3	19	1	0	0	0	0	0	0	0	1	10779	233	9	3		3	NUP210	3	13372083	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	724371	13372083	184650347	535	14048											
NUP210	23225	broad.mit.edu	37	chr3	13381417	13381417	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacgagcccagacacagtGccgttcccgatggcgaggcc	8	5	13	15	4	0	1	0	0	0	1	1	4	1	1	4	2	3	2	4	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:13381417G>A	uc003bxv.1	-	25	3491	c.3408C>T	c.(3406-3408)GGC>GGT	p.G1136G		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1136	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					CAGACACAGTGCCGTTCCCGA	0.438													16	218					0	0	0.008871	0	0		A	13381417	A	A	13381417	2	1	19	1	0	0	0	0	0	0	0	1	10779	1306	46	2		2	NUP210	3	13381417	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	9334	13381417	184641013	536	14049											
WNT7A	7476	broad.mit.edu	37	chr3	13860879	13860879	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgcacgagcctgacacGccgtggcacttacattccag	8	8	12	13	3	0	1	0	1	0	0	1	2	1	1	3	2	3	2	3	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:13860879G>A	uc003bye.1	-	4	917	c.612C>T	c.(610-612)GGC>GGT	p.G204G		NM_004625	NP_004616	O00755	WNT7A_HUMAN	wingless-type MMTV integration site family,	204					activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3						AGCCTGACACGCCGTGGCACT	0.602													56	104					0	0	0.01441	0	0		A	13860879	A	A	13860879	2	1	19	1	0	0	0	0	0	0	0	1	17420	1074	38	1		1	WNT7A	3	13860879	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	479462	13860879	184161551	537	14050											
SLC6A6	6533	broad.mit.edu	37	chr3	14487330	14487330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgaagggggcatcacctGctgggaaaagatctgcccct	9	8	12	12	0	3	2	1	1	2	1	3	3	3	3	3	3	2	2	3	3	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:14487330G>A	uc010heg.2	+	11	626	c.335G>A	c.(334-336)TGC>TAC	p.C112Y	SLC6A6_uc003byp.2_Missense_Mutation_p.C112Y|SLC6A6_uc010hef.1_RNA|SLC6A6_uc003byq.2_Missense_Mutation_p.C112Y|SLC6A6_uc003byr.2_RNA	NM_001134367	NP_001127839	P31641	SC6A6_HUMAN	solute carrier family 6 (neurotransmitter	112					cellular amino acid metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity|taurine:sodium symporter activity			ovary(1)	1						GGCATCACCTGCTGGGAAAAG	0.423													39	78					0	0	0.00874	0	0		A	14487330	A	A	14487330	3	1	19	1	0	0	0	0	1	0	0	0	14713	1319	46	2	341	2	SLC6A6	3	14487330	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	626451	14487330	183535100	538	14051											
ZFYVE20	64145	broad.mit.edu	37	chr3	15124104	15124104	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggactccttgctggcacTggtgagcttgtctgtaacca	7	11	12	11	0	1	1	0	1	1	0	2	2	2	2	2	3	3	4	2	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:15124104T>C	uc003bzm.1	-	9	1224	c.610A>G	c.(610-612)AGT>GGT	p.S204G	ZFYVE20_uc010hek.1_Missense_Mutation_p.S204G|ZFYVE20_uc011avn.1_Intron	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	204	FYVE-type.|Ser-rich.|Necessary for the correct targeting to endosomes.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						TTGCTGGCACTGGTGAGCTTG	0.577													10	21					0	0	0.010729	0	0		C	15124104	C	C	15124104	3	2	19	1	0	0	0	0	1	0	0	0	17691	1580	55	3	1768	3	ZFYVE20	3	15124104	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	636774	15124104	182898326	539	14052											
RFTN1	23180	broad.mit.edu	37	chr3	16399539	16399539	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgaatactccatctgtcAagccatgtaaggaatctgtg	13	11	9	8	0	3	2	1	1	2	1	4	3	4	3	2	1	2	1	2	1	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:16399539A>G	uc003cay.2	-	7	1328	c.1046T>C	c.(1045-1047)TTG>TCG	p.L349S	RFTN1_uc010hes.2_Missense_Mutation_p.L313S	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	349						plasma membrane				ovary(3)|central_nervous_system(1)	4						TCCATCTGTCAAGCCATGTAA	0.458													32	81					0	0	0.005524	0	0		G	16399539	G	G	16399539	3	3	19	1	0	0	0	0	1	0	0	0	13283	131	5	3	706	3	RFTN1	3	16399539	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1275435	16399539	181622891	540	14053											
SATB1	6304	broad.mit.edu	37	chr3	18393499	18393499	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaacctgaatctgctctgcTggaacatggataatgtgggg	10	10	13	8	1	2	1	0	1	2	0	2	4	2	3	1	4	4	2	1	4	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:18393499T>C	uc003cbh.2	-	10	3499	c.1764A>G	c.(1762-1764)CCA>CCG	p.P588P	SATB1_uc003cbi.2_Silent_p.P588P|SATB1_uc003cbj.2_Silent_p.P588P	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	588					cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						TCTGCTCTGCTGGAACATGGA	0.463													9	171					0	0	0.013537	0	0		C	18393499	C	C	18393499	2	2	19	1	0	0	0	0	0	0	0	1	13878	1567	55	3		3	SATB1	3	18393499	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1993960	18393499	179628931	541	14054											
KCNH8	131096	broad.mit.edu	37	chr3	19554757	19554757	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccataataaaaggaaagagaAgaacttgaaattgcaacttt	20	9	7	5	0	0	3	0	1	0	2	0	5	0	4	1	1	3	1	1	1	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:19554757A>G	uc003cbk.1	+	13	2570	c.2375A>G	c.(2374-2376)AAG>AGG	p.K792R	KCNH8_uc010hex.1_Missense_Mutation_p.K253R	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	792	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						AGGAAAGAGAAGAACTTGAAA	0.448													61	112					0	0	0.01441	0	0		G	19554757	G	G	19554757	3	3	19	1	0	0	0	0	1	0	0	0	8054	72	3	3	2425	3	KCNH8	3	19554757	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1161258	19554757	178467673	542	14055											
RARB	5915	broad.mit.edu	37	chr3	25637960	25637960	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaattcctggatcaatgccAcctctcattcaagaaatgct	13	11	6	11	0	3	1	3	0	1	1	5	3	4	2	3	1	2	1	3	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:25637960A>G	uc011awl.1	+	8	1287	c.1221A>G	c.(1219-1221)CCA>CCG	p.P407P	RARB_uc003cdi.1_Silent_p.P288P|RARB_uc003cdh.2_Silent_p.P400P	NM_016152	NP_057236	P10826	RARB_HUMAN	retinoic acid receptor, beta isoform 2	407	Ligand-binding.				embryonic digestive tract development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	protein binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|large_intestine(1)|pancreas(1)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tamibarotene(DB04942)|Tazarotene(DB00799)	GATCAATGCCACCTCTCATTC	0.423													45	130					0	0	0.01441	0	0		G	25637960	G	G	25637960	2	3	19	1	0	0	0	0	0	0	0	1	13078	146	6	3		3	RARB	3	25637960	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	6083203	25637960	172384470	543	14056											
TOP2B	7155	broad.mit.edu	37	chr3	25665877	25665877	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaataggctgaagcaagttAatgttgttacttcccacaaa	14	11	7	9	0	0	1	0	1	0	0	1	1	1	1	2	1	2	5	2	1	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:25665877A>G	uc011awn.1	-	20	2449	c.2406T>C	c.(2404-2406)ATT>ATC	p.I802I	TOP2B_uc003cdj.2_Silent_p.I797I	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	802					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						GAAGCAAGTTAATGTTGTTAC	0.373													9	108					0	0	0.010729	0	0		G	25665877	G	G	25665877	2	3	19	1	0	0	0	0	0	0	0	1	16392	358	13	3		3	TOP2B	3	25665877	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	27917	25665877	172356553	544	14057											
OXSM	54995	broad.mit.edu	37	chr3	25835717	25835717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatctcttcaaagaccatgCatatgcccttgcagtttcct	10	13	5	13	0	2	1	1	0	1	1	4	1	3	1	3	0	3	3	3	0	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:25835717C>T	uc003cdn.2	+	3	1219	c.1112C>T	c.(1111-1113)GCA>GTA	p.A371V	OXSM_uc011awp.1_Missense_Mutation_p.A96V|OXSM_uc010hfh.2_Missense_Mutation_p.A288V	NM_017897	NP_060367	Q9NWU1	OXSM_HUMAN	3-oxoacyl-ACP synthase, mitochondrial isoform 1	371					acyl-CoA metabolic process|medium-chain fatty acid biosynthetic process|short-chain fatty acid biosynthetic process	mitochondrion	3-oxoacyl-[acyl-carrier-protein] synthase activity			ovary(1)|breast(1)	2						AAAGACCATGCATATGCCCTT	0.463													6	81					0	0	0.001168	0	0		T	25835717	T	T	25835717	3	4	19	1	0	0	0	0	1	0	0	0	11354	710	25	2	1118	2	OXSM	3	25835717	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	169840	25835717	172186713	545	14058											
LRRC3B	116135	broad.mit.edu	37	chr3	26751767	26751767	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaacctccctaaaaaaactAccgattatgccatgctggtc	13	10	6	12	1	0	0	0	0	0	0	2	1	1	0	4	1	5	2	4	1	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:26751767A>G	uc003cdp.2	+	2	1193	c.604A>G	c.(604-606)ACC>GCC	p.T202A	LRRC3B_uc003cdq.2_Missense_Mutation_p.T202A	NM_052953	NP_443185	Q96PB8	LRC3B_HUMAN	leucine rich repeat containing 3B precursor	202						integral to membrane				pancreas(2)|ovary(1)|skin(1)	4						TAAAAAAACTACCGATTATGC	0.468													11	29					0	0	0.001855	0	0		G	26751767	G	G	26751767	3	3	19	1	0	0	0	0	1	0	0	0	9014	391	14	3	606	3	LRRC3B	3	26751767	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	916050	26751767	171270663	546	14059											
SLC4A7	9497	broad.mit.edu	37	chr3	27444675	27444675	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgtgcatattaaatgcaTatgtttctcctaaatcaaag	13	16	6	6	0	2	0	1	0	1	0	3	0	2	0	1	0	2	4	1	0	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:27444675T>A	uc003cdv.2	-	15	2320	c.2249A>T	c.(2248-2250)TAT>TTT	p.Y750F	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Missense_Mutation_p.Y631F|SLC4A7_uc011aww.1_Missense_Mutation_p.Y759F|SLC4A7_uc011awx.1_Missense_Mutation_p.Y746F|SLC4A7_uc011awy.1_Missense_Mutation_p.Y742F|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Missense_Mutation_p.Y631F|SLC4A7_uc011axb.1_Missense_Mutation_p.Y746F|SLC4A7_uc010hfl.2_Missense_Mutation_p.Y300F|SLC4A7_uc003cdw.2_Missense_Mutation_p.Y626F	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	750	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						ATTAAATGCATATGTTTCTCC	0.338													11	115					0	0	0.010729	0	0		A	27444675	A	A	27444675	3	1	19	1	0	0	0	0	1	0	0	0	14683	1406	49	5	1439	5	SLC4A7	3	27444675	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	692908	27444675	170577755	547	14060											
SLC4A7	9497	broad.mit.edu	37	chr3	27472885	27472885	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaattactactgtgggaaTatcatcactggcaggtgaaa	14	11	10	6	0	2	2	2	2	0	0	2	3	2	3	0	3	2	1	0	3	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:27472885T>C	uc003cdv.2	-	7	1098	c.1027A>G	c.(1027-1029)ATT>GTT	p.I343V	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_Intron|SLC4A7_uc003cdu.3_Intron|SLC4A7_uc011aww.1_Missense_Mutation_p.I352V|SLC4A7_uc011awx.1_Missense_Mutation_p.I339V|SLC4A7_uc011awy.1_Missense_Mutation_p.I335V|SLC4A7_uc011awz.1_Intron|SLC4A7_uc011axa.1_Intron|SLC4A7_uc011axb.1_Missense_Mutation_p.I339V|SLC4A7_uc010hfm.2_Intron|SLC4A7_uc003cdw.2_Intron	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	343	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						ACTGTGGGAATATCATCACTG	0.512													12	181					0	0	0.004007	0	0		C	27472885	C	C	27472885	3	2	19	1	0	0	0	0	1	0	0	0	14683	1406	49	3	2693	3	SLC4A7	3	27472885	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	28210	27472885	170549545	548	14061											
ZCWPW2	152098	broad.mit.edu	37	chr3	28562525	28562525	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaaaagagctggagcaaaTgctgcagcaagcactgcaac	16	5	10	10	0	0	1	0	0	0	1	0	2	0	2	0	1	8	7	0	1	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:28562525T>C	uc003ceh.2	+	9	995	c.827T>C	c.(826-828)ATG>ACG	p.M276T	ZCWPW2_uc003cei.2_Missense_Mutation_p.M276T|ZCWPW2_uc010hfo.2_Missense_Mutation_p.M81T	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	276							zinc ion binding			ovary(2)	2						CTGGAGCAAATGCTGCAGCAA	0.363													16	33					0	0	0.006122	0	0		C	28562525	C	C	28562525	3	2	19	1	0	0	0	0	1	0	0	0	17623	1464	51	3	853	3	ZCWPW2	3	28562525	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1089640	28562525	169459905	549	14062											
GPD1L	23171	broad.mit.edu	37	chr3	32181767	32181767	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagctcatttctgacatcatCcgtgagaagatgggtattga	12	12	10	7	1	3	4	2	3	1	2	4	5	4	4	1	1	1	2	1	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:32181767C>T	uc003cew.2	+	4	474	c.414C>T	c.(412-414)ATC>ATT	p.I138I		NM_015141	NP_055956	Q8N335	GPD1L_HUMAN	glycerol-3-phosphate dehydrogenase 1-like	138					glycerol-3-phosphate catabolic process	glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|NAD binding|protein homodimerization activity				0						CTGACATCATCCGTGAGAAGA	0.512													6	238					0	0	0.001984	0	0		T	32181767	T	T	32181767	2	4	19	1	0	0	0	0	0	0	0	1	6620	845	30	4		4	GPD1L	3	32181767	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3619242	32181767	165840663	550	14063											
DYNC1LI1	51143	broad.mit.edu	37	chr3	32586484	32586484	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtccaaggctttgacatgTcaacaaccagcataactaga	15	8	7	11	0	1	2	1	1	0	1	2	2	2	2	2	1	4	2	2	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:32586484T>C	uc003cfb.3	-	4	540	c.452A>G	c.(451-453)GAC>GGC	p.D151G	DYNC1LI1_uc011axh.1_Intron	NM_016141	NP_057225	Q9Y6G9	DC1L1_HUMAN	dynein, cytoplasmic 1, light intermediate chain	151					cell division|interspecies interaction between organisms|mitosis|positive regulation of mitotic cell cycle spindle assembly checkpoint|transport	centrosome|condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|plasma membrane|spindle pole	ATP binding|motor activity			ovary(1)	1						CTTTGACATGTCAACAACCAG	0.393													4	115					0	0	0.000602	0	0		C	32586484	C	C	32586484	3	2	19	1	0	0	0	0	1	0	0	0	4850	1667	58	3	1159	3	DYNC1LI1	3	32586484	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	404717	32586484	165435946	551	14064											
TRIM71	131405	broad.mit.edu	37	chr3	32859684	32859684	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtcgtcctcctcgcagAcgtccacgtcgtcggggggc	3	8	14	16	8	0	1	0	0	0	1	8	1	3	1	3	3	0	1	3	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:32859684A>T	uc003cff.2	+	1	175	c.112A>T	c.(112-114)ACG>TCG	p.T38S		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	38	RING-type.|Ser-rich.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						CTCCTCGCAGACGTCCACGTC	0.527													11	29					0	0	0.001855	0	0		T	32859684	T	T	32859684	3	4	19	1	0	0	0	0	1	0	0	0	16570	275	10	5	114	5	TRIM71	3	32859684	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	273200	32859684	165162746	552	14065											
TRIM71	131405	broad.mit.edu	37	chr3	32860312	32860312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggcccgccgggtcccggtgCcgcagcagcggcgcagcagc	4	2	17	18	7	0	0	0	0	0	0	1	0	1	0	4	4	5	4	4	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:32860312C>T	uc003cff.2	+	1	803	c.740C>T	c.(739-741)GCC>GTC	p.A247V		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	247					multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						GGTCCCGGTGCCGCAGCAGCG	0.716													7	10					0	0	0.013537	0	0		T	32860312	T	T	32860312	3	4	19	1	0	0	0	0	1	0	0	0	16570	739	26	2	742	2	TRIM71	3	32860312	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	628	32860312	165162118	553	14066											
TRIM71	131405	broad.mit.edu	37	chr3	32932496	32932496	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcttcggcagtgagggTgacagcgatggcaagctctg	8	8	16	9	2	1	3	0	3	1	0	2	4	1	3	0	3	3	4	0	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:32932496T>C	uc003cff.2	+	4	1863	c.1800T>C	c.(1798-1800)GGT>GGC	p.G600G		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	600	NHL 1.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						GCAGTGAGGGTGACAGCGATG	0.602													20	39					0	0	0.012319	0	0		C	32932496	C	C	32932496	2	2	19	1	0	0	0	0	0	0	0	1	16570	1683	59	3		3	TRIM71	3	32932496	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	72184	32932496	165089934	554	14067											
ARPP21	10777	broad.mit.edu	37	chr3	35835235	35835235	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggactgccccagcagtcaTaccaacagccaatcatgcta	14	6	7	14	0	2	0	2	0	0	0	2	1	2	1	4	1	6	2	4	1	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:35835235T>C	uc003cgb.2	+	20	2488	c.2224T>C	c.(2224-2226)TAC>CAC	p.Y742H	ARPP21_uc003cga.2_Missense_Mutation_p.Y723H|ARPP21_uc011axy.1_Missense_Mutation_p.Y743H|ARPP21_uc003cgf.2_Missense_Mutation_p.Y578H|ARPP21_uc003cgg.2_Missense_Mutation_p.Y265H	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	742	Gln-rich.					cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						CCAGCAGTCATACCAACAGCC	0.498													8	62					0	0	0.008291	0	0		C	35835235	C	C	35835235	3	2	19	1	0	0	0	0	1	0	0	0	979	1406	49	3	2307	3	ARPP21	3	35835235	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2902739	35835235	162187195	555	14068											
TRANK1	9881	broad.mit.edu	37	chr3	36884146	36884146	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttggcgtagtaatctccCtgtgcaatccactccgcagg	7	11	10	13	2	1	0	0	0	1	0	4	0	3	0	3	2	2	5	3	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:36884146C>A	uc003cgj.2	-	8	3767	c.3465G>T	c.(3463-3465)CAG>CAT	p.Q1155H		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1705	TPR 3.				DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						AGTAATCTCCCTGTGCAATCC	0.493													12	24					0.00185496	0.00189186	0.001855	1	0		A	36884146	A	A	36884146	3	1	19	1	0	0	0	0	1	0	0	0	16480	680	24	5	3690	5	TRANK1	3	36884146	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1048911	36884146	161138284	556	14069											
GOLGA4	2803	broad.mit.edu	37	chr3	37368396	37368396	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaaaggtacagaaagccaTttgagtgagctaaatacaaa	21	7	8	5	0	0	3	0	2	0	1	0	3	0	3	1	1	4	2	1	1	9	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:37368396T>C	uc003cgv.2	+	14	5323	c.5019T>C	c.(5017-5019)CAT>CAC	p.H1673H	GOLGA4_uc010hgr.1_Silent_p.H1234H|GOLGA4_uc003cgw.2_Silent_p.H1695H|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Silent_p.H1554H	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1673	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						CAGAAAGCCATTTGAGTGAGC	0.343													55	131					0	0	0.01441	0	0		C	37368396	C	C	37368396	2	2	19	1	0	0	0	0	0	0	0	1	6570	1490	52	3		3	GOLGA4	3	37368396	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	484250	37368396	160654034	557	14070											
EXOG	9941	broad.mit.edu	37	chr3	38565616	38565616	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttggatagaactagtgatatCcggaatatctgctctgtgga	11	13	11	6	1	2	2	0	1	2	1	3	5	3	5	1	3	2	1	1	3	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:38565616C>T	uc003cih.2	+	6	966	c.870C>T	c.(868-870)ATC>ATT	p.I290I	EXOG_uc010hhg.2_RNA|EXOG_uc011ayq.1_Silent_p.I240I|EXOG_uc003cij.2_Silent_p.I150I|EXOG_uc010hhd.2_Silent_p.I150I|EXOG_uc010hhe.2_Silent_p.I150I|EXOG_uc003cik.2_Silent_p.I150I|EXOG_uc010hhf.2_Silent_p.I150I|EXOG_uc003cii.2_Silent_p.I150I	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	290						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						CTAGTGATATCCGGAATATCT	0.468													87	184					0	0	0.01441	0	0		T	38565616	T	T	38565616	2	4	19	1	0	0	0	0	0	0	0	1	5320	845	30	4		4	EXOG	3	38565616	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1197220	38565616	159456814	558	14071											
SCN10A	6336	broad.mit.edu	37	chr3	38781019	38781019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acattaccaagcggaagctcCgcagcacagacaggcttccc	12	5	9	15	2	0	1	0	0	0	1	2	2	2	2	3	2	4	4	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:38781019C>T	uc003ciq.2	-	14	2267	c.2267G>A	c.(2266-2268)CGG>CAG	p.R756Q		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	756	Helical; Voltage-sensor; Name=S4 of repeat II; (Potential).|II.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GCGGAAGCTCCGCAGCACAGA	0.522													16	29					0	0	0.014323	0	0		T	38781019	T	T	38781019	3	4	19	1	0	0	0	0	1	0	0	0	13937	652	23	1	3659	1	SCN10A	3	38781019	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	215403	38781019	159241411	559	14072											
TTC21A	199223	broad.mit.edu	37	chr3	39156128	39156128	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggccctggaggtggtgaAccagatcactgtgacttcag	10	8	14	9	0	2	4	2	2	0	2	2	5	2	5	2	4	1	0	2	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:39156128A>G	uc003cjc.2	+	6	788	c.611A>G	c.(610-612)AAC>AGC	p.N204S	TTC21A_uc003cja.2_Missense_Mutation_p.N204S|TTC21A_uc010hho.1_Missense_Mutation_p.N126S|TTC21A_uc003cjb.2_Silent_p.E70E|TTC21A_uc003cje.2_Missense_Mutation_p.N204S|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Missense_Mutation_p.N163S	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	204	TPR 4.						binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		GAGGTGGTGAACCAGATCACT	0.552													7	199					0	0	0.001984	0	0		G	39156128	G	G	39156128	3	3	19	1	0	0	0	0	1	0	0	0	16713	43	2	3	633	3	TTC21A	3	39156128	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	375109	39156128	158866302	560	14073											
TTC21A	199223	broad.mit.edu	37	chr3	39179775	39179775	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcctgctacaaggcctaTgagtacatgggcttcatcat	10	11	9	11	0	2	1	2	1	0	0	3	1	3	1	2	2	3	3	2	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:39179775T>C	uc003cjc.2	+	27	3891	c.3714T>C	c.(3712-3714)TAT>TAC	p.Y1238Y	TTC21A_uc003cje.2_Silent_p.Y1239Y|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Silent_p.Y1190Y|TTC21A_uc003cjf.2_Silent_p.Y359Y	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	1238	TPR 18.						binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		ACAAGGCCTATGAGTACATGG	0.567													18	37					0	0	0.007413	0	0		C	39179775	C	C	39179775	2	2	19	1	0	0	0	0	0	0	0	1	16713	1471	51	3		3	TTC21A	3	39179775	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	23647	39179775	158842655	561	14074											
XIRP1	165904	broad.mit.edu	37	chr3	39228088	39228088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcactggactcgggtcaGccgggggctcccaccgcaga	6	5	15	15	3	1	1	1	0	0	1	3	2	2	2	3	5	1	3	3	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:39228088G>A	uc003cjk.1	-	2	3070	c.2849C>T	c.(2848-2850)GCT>GTT	p.A950V	XIRP1_uc003cji.2_Missense_Mutation_p.A950V|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	950							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		ACTCGGGTCAGCCGGGGGCTC	0.642													5	65					0	0	0.000602	0	0		A	39228088	A	A	39228088	3	1	19	1	0	0	0	0	1	0	0	0	17455	971	34	2	2686	2	XIRP1	3	39228088	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	48313	39228088	158794342	562	14075											
XIRP1	165904	broad.mit.edu	37	chr3	39230771	39230771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggatgtgcctgtagaggcGgcggagctcactagcttgcc	6	9	16	10	2	1	1	1	0	0	1	1	3	1	3	2	4	4	3	2	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:39230771G>A	uc003cjk.1	-	2	387	c.166C>T	c.(166-168)CGC>TGC	p.R56C	XIRP1_uc003cji.2_Missense_Mutation_p.R56C|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	56							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CTGTAGAGGCGGCGGAGCTCA	0.652													14	34					0	0	0.004007	0	0		A	39230771	A	A	39230771	3	1	19	1	0	0	0	0	1	0	0	0	17455	1116	39	1	5369	1	XIRP1	3	39230771	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2683	39230771	158791659	563	14076											
MYRIP	25924	broad.mit.edu	37	chr3	40204292	40204292	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgattcaacattttataggCagtcagaaggtaaagttgct	13	13	10	5	0	2	2	2	1	0	1	2	2	2	2	0	2	2	4	0	2	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:40204292C>T	uc003cka.2	+	5	676	c.541C>T	c.(541-543)CAG>TAG	p.Q181*	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Nonsense_Mutation_p.Q181*|MYRIP_uc010hhw.2_Nonsense_Mutation_p.Q92*|MYRIP_uc010hhx.1_Nonsense_Mutation_p.Q181*|MYRIP_uc011ayz.1_5'UTR	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	181	Myosin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		ATTTTATAGGCAGTCAGAAGG	0.463													22	51					0	0	0.010504	0	0		T	40204292	T	T	40204292	4	4	19	1	0	0	0	0	0	1	0	0	10118	711	25	2	555	2	MYRIP	3	40204292	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	973521	40204292	157818138	564	14077											
MYRIP	25924	broad.mit.edu	37	chr3	40211476	40211476	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagcaaaagtgagcagcaAgtggaagaagagccaggatg	18	3	15	5	0	0	4	0	1	0	3	0	6	0	6	1	2	4	3	1	2	6	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:40211476A>C	uc003cka.2	+	8	900	c.765A>C	c.(763-765)CAA>CAC	p.Q255H	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Missense_Mutation_p.Q255H|MYRIP_uc010hhw.2_Missense_Mutation_p.Q166H|MYRIP_uc011ayz.1_Missense_Mutation_p.Q68H	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	255	Myosin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		GTGAGCAGCAAGTGGAAGAAG	0.542													35	71					0	0	0.004878	0	0		C	40211476	C	C	40211476	3	2	19	1	0	0	0	0	1	0	0	0	10118	69	3	5	791	5	MYRIP	3	40211476	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	7184	40211476	157810954	565	14078											
ZNF662	389114	broad.mit.edu	37	chr3	42950328	42950328	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgatttcccagctggaGcgaggggaaacaccctggtg	8	8	14	11	1	1	1	0	1	1	0	2	4	2	3	2	4	3	2	2	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:42950328G>A	uc003cmi.2	+	3	430	c.78G>A	c.(76-78)GAG>GAA	p.E26E	ZNF662_uc003cmk.2_Silent_p.E86E|ZNF662_uc003cmj.2_5'UTR	NM_207404	NP_997287	Q6ZS27	ZN662_HUMAN	zinc finger protein 662 isoform 1	26	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.217)		CCCAGCTGGAGCGAGGGGAAA	0.572													85	185					0	0	0.01441	0	0		A	42950328	A	A	42950328	2	1	19	1	0	0	0	0	0	0	0	1	18096	962	34	2		2	ZNF662	3	42950328	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2738852	42950328	155072102	566	14079											
SNRK	54861	broad.mit.edu	37	chr3	43390009	43390009	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccctaaggaggggctgcTgtgcgcatccagcccagcca	9	5	13	14	1	0	0	0	0	0	0	1	2	1	1	4	3	5	3	4	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:43390009T>C	uc003cms.3	+	7	2590	c.2258T>C	c.(2257-2259)CTG>CCG	p.L753P	SNRK_uc003cmt.3_Missense_Mutation_p.L753P|SNRK_uc010hik.2_Missense_Mutation_p.L753P|SNRK_uc011azr.1_Missense_Mutation_p.L547P	NM_017719	NP_060189	Q9NRH2	SNRK_HUMAN	SNF related kinase	753					myeloid cell differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.0636)|Kidney(284;0.0792)		GAGGGGCTGCTGTGCGCATCC	0.562													9	28					0	0	0.013537	0	0		C	43390009	C	C	43390009	3	2	19	1	0	0	0	0	1	0	0	0	14876	1580	55	3	2276	3	SNRK	3	43390009	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	439681	43390009	154632421	567	14080											
ZNF197	10168	broad.mit.edu	37	chr3	44685542	44685542	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaggcaaagaaaaaaccttActgtacatcagaaaatccac	19	8	5	9	0	1	2	1	0	0	2	2	2	2	2	2	1	3	2	2	1	9	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:44685542A>G	uc003cnm.2	+	6	3126	c.2920A>G	c.(2920-2922)ACT>GCT	p.T974A	ZNF197_uc003cnn.2_Intron|ZNF197_uc003cno.2_Intron|ZNF197_uc003cnp.2_Intron	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	974	C2H2-type 22.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|skin(1)	4				KIRC - Kidney renal clear cell carcinoma(197;0.0478)|Kidney(197;0.0598)		AAAAAACCTTACTGTACATCA	0.368													30	60					0	0	0.007291	0	0		G	44685542	G	G	44685542	3	3	19	1	0	0	0	0	1	0	0	0	17784	391	14	3	2938	3	ZNF197	3	44685542	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1295533	44685542	153336888	568	14081											
ZNF35	7584	broad.mit.edu	37	chr3	44700874	44700874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctatgaatgtaatgaatgtgGgaaaacatttactaggagct	15	12	10	4	0	0	2	0	2	0	0	0	4	0	4	0	2	3	2	0	2	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:44700874G>A	uc003cnq.2	+	4	1240	c.1019G>A	c.(1018-1020)GGG>GAG	p.G340E	ZNF35_uc003cnr.2_Missense_Mutation_p.G180E	NM_003420	NP_003411	P13682	ZNF35_HUMAN	zinc finger protein 35	340	C2H2-type 5.				cellular response to retinoic acid|spermatogenesis	nucleus|perinuclear region of cytoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(412;0.0228)		OV - Ovarian serous cystadenocarcinoma(275;2.49e-27)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)		AATGAATGTGGGAAAACATTT	0.453													30	44					0	0	0.00632	0	0		A	44700874	A	A	44700874	3	1	19	1	0	0	0	0	1	0	0	0	17887	1232	43	4	1029	4	ZNF35	3	44700874	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	15332	44700874	153321556	569	14082											
KIAA1143	57456	broad.mit.edu	37	chr3	44795767	44795767	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcatgacttcttcaactgAcaggtctcccttttttaaaa	10	17	4	10	0	4	2	2	2	2	0	5	2	4	2	1	1	1	0	1	1	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:44795767A>G	uc011bac.1	-	2	281	c.202T>C	c.(202-204)TCA>CCA	p.S68P		NM_020696	NP_065747	Q96AT1	K1143_HUMAN	hypothetical protein LOC57456	68											0				BRCA - Breast invasive adenocarcinoma(193;0.00847)|KIRC - Kidney renal clear cell carcinoma(197;0.0465)|Kidney(197;0.0582)		TCTTCAACTGACAGGTCTCCC	0.428													15	119					0	0	0.007413	0	0		G	44795767	G	G	44795767	3	3	19	1	0	0	0	0	1	0	0	0	8225	275	10	3	270	3	KIAA1143	3	44795767	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	94893	44795767	153226663	570	14083											
KIF15	56992	broad.mit.edu	37	chr3	44816918	44816918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgatcatgttgcagatgtgGataccactcaggtaatgata	12	13	10	6	0	2	3	2	2	0	1	2	4	2	4	1	2	2	3	1	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:44816918G>A	uc003cnx.3	+	3	384	c.235G>A	c.(235-237)GAT>AAT	p.D79N	KIF15_uc010hiq.2_5'UTR	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	79	Kinesin-motor.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		TGCAGATGTGGATACCACTCA	0.313													13	61					0	0	0.003163	0	0		A	44816918	A	A	44816918	3	1	19	1	0	0	0	0	1	0	0	0	8293	1174	41	4	245	4	KIF15	3	44816918	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	21151	44816918	153205512	571	14084											
LRRC2	79442	broad.mit.edu	37	chr3	46580617	46580617	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataactgaatatatgtaggAatgatttgaatcaaggtatt	17	14	8	2	0	1	3	1	3	0	0	1	4	1	4	0	2	1	2	0	2	10	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:46580617A>G	uc010hji.2	-	4	772	c.408T>C	c.(406-408)ATT>ATC	p.I136I	LRRC2_uc003cpu.3_Silent_p.I136I	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2	136	LRR 1.									ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		TATATGTAGGAATGATTTGAA	0.383													4	139					0	0	0.009096	0	0		G	46580617	G	G	46580617	2	3	19	1	0	0	0	0	0	0	0	1	8994	242	9	3		3	LRRC2	3	46580617	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1763699	46580617	151441813	572	14085											
PTPN23	25930	broad.mit.edu	37	chr3	47447981	47447981	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgttctcaggtggtagattActacaaggaggcatgccggg	9	10	14	8	1	1	1	1	0	1	1	2	2	1	2	1	5	3	3	1	5	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:47447981A>G	uc003crf.1	+	8	734	c.638A>G	c.(637-639)TAC>TGC	p.Y213C	PTPN23_uc011baw.1_Missense_Mutation_p.Y178C|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.Y83C	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	213	BRO1.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GTGGTAGATTACTACAAGGAG	0.582													8	69					0	0	0.00308	0	0		G	47447981	G	G	47447981	3	3	19	1	0	0	0	0	1	0	0	0	12813	391	14	3	668	3	PTPN23	3	47447981	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	867364	47447981	150574449	573	14086											
SCAP	22937	broad.mit.edu	37	chr3	47461115	47461115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaatgggctctgttccGtcacctgggcagcgaggtag	7	8	13	13	2	2	0	1	0	1	0	3	1	3	0	3	3	1	4	3	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:47461115G>A	uc003crh.1	-	13	1898	c.1643C>T	c.(1642-1644)ACG>ATG	p.T548M	SCAP_uc011baz.1_Missense_Mutation_p.T293M|SCAP_uc003crg.2_Missense_Mutation_p.T156M	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	548	Lumenal (By similarity).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		GCTCTGTTCCGTCACCTGGGC	0.652													35	60					0	0	0.005524	0	0		A	47461115	A	A	47461115	3	1	19	1	0	0	0	0	1	0	0	0	13902	1145	40	1	2240	1	SCAP	3	47461115	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	13134	47461115	150561315	574	14087											
C3orf75	54859	broad.mit.edu	37	chr3	47537573	47537573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atcaggtcacagaacagcagGagacattcctttggcaaaaa	16	7	9	9	0	2	2	2	0	0	2	3	3	3	2	1	3	2	2	1	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:47537573G>A	uc003crk.2	-	7	906	c.787C>T	c.(787-789)CCT>TCT	p.P263S	C3orf75_uc003crj.2_Missense_Mutation_p.P190S|C3orf75_uc011bba.1_Missense_Mutation_p.P214S	NM_001031703	NP_001026873	Q0PNE2	CC075_HUMAN	transmembrane protein 103	263											0						AGAACAGCAGGAGACATTCCT	0.488													23	56					0	0	0.014323	0	0		A	47537573	A	A	47537573	3	1	19	1	0	0	0	0	1	0	0	0	2248	1174	41	4	17	4	C3orf75	3	47537573	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	76458	47537573	150484857	575	14088											
DHX30	22907	broad.mit.edu	37	chr3	47888784	47888784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaggatgaatgcgcactcGatttggaccttgtgactgat	9	12	12	8	2	0	4	0	4	0	0	1	7	0	6	1	2	1	1	1	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:47888784G>A	uc003cru.2	+	12	2377	c.1951G>A	c.(1951-1953)GAT>AAT	p.D651N	DHX30_uc003crt.2_Missense_Mutation_p.D612N|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	651						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		ATGCGCACTCGATTTGGACCT	0.607													50	99					0	0	0.01441	0	0		A	47888784	A	A	47888784	3	1	19	1	0	0	0	0	1	0	0	0	4510	1058	37	1	2000	1	DHX30	3	47888784	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	351211	47888784	150133646	576	14089											
MAP4	4134	broad.mit.edu	37	chr3	47896766	47896766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacctcctgcaggtaggtggCccacattatcgagggatccc	8	8	11	14	1	0	0	0	0	0	0	3	2	2	1	4	4	1	2	4	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:47896766C>T	uc003csb.2	-	17	3759	c.3233G>A	c.(3232-3234)GGC>GAC	p.G1078D	MAP4_uc003csc.3_Missense_Mutation_p.G1078D|MAP4_uc003crw.2_Missense_Mutation_p.G157D|MAP4_uc003crx.2_Missense_Mutation_p.G254D|MAP4_uc011bbe.1_Missense_Mutation_p.G791D|MAP4_uc003cry.2_Missense_Mutation_p.G813D|MAP4_uc003csa.3_Missense_Mutation_p.G744D|MAP4_uc003crz.3_RNA	NM_002375	NP_002366	P27816	MAP4_HUMAN	microtubule-associated protein 4 isoform 1	1078	Tau/MAP 4.				negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000721)|KIRC - Kidney renal clear cell carcinoma(197;0.00641)|Kidney(197;0.00736)		AGGTAGGTGGCCCACATTATC	0.557													7	140					0	0	0.00308	0	0		T	47896766	T	T	47896766	3	4	19	1	0	0	0	0	1	0	0	0	9276	739	26	2	388	2	MAP4	3	47896766	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	7982	47896766	150125664	577	14090											
ATRIP	84126	broad.mit.edu	37	chr3	48506470	48506470	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgagggcttcctgatgtgAcggactgtgaaggtaagcct	8	10	14	9	2	0	3	0	3	0	0	2	5	2	4	3	3	1	2	3	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:48506470A>G	uc003ctf.1	+	12	2328	c.2296A>G	c.(2296-2298)ACG>GCG	p.T766A	ATRIP_uc011bbj.1_Missense_Mutation_p.T639A|ATRIP_uc003ctg.1_Missense_Mutation_p.T739A|TREX1_uc010hjy.2_5'UTR|TREX1_uc003ctj.2_5'UTR|TREX1_uc003ctk.2_5'Flank|TREX1_uc010hjz.2_5'Flank|TREX1_uc010hka.2_5'Flank	NM_130384	NP_569055	Q8WXE1	ATRIP_HUMAN	ATR interacting protein isoform 1	766					DNA damage checkpoint|DNA repair|DNA replication	nucleoplasm	protein binding|protein serine/threonine kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TCCTGATGTGACGGACTGTGA	0.587								Other_conserved_DNA_damage_response_genes					9	97					0	0	0.013537	0	0		G	48506470	G	G	48506470	3	3	19	1	0	0	0	0	1	0	0	0	1206	275	10	3	2342	3	ATRIP	3	48506470	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	609704	48506470	149515960	578	14091											
UQCRC1	7384	broad.mit.edu	37	chr3	48638787	48638787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcccaaaaggcagcatacctCactgccagtgaagcggcatg	12	5	11	13	1	1	1	1	1	0	0	1	1	1	1	3	2	4	3	3	2	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:48638787C>T	uc003cub.1	-	7	865	c.820G>A	c.(820-822)GAG>AAG	p.E274K	UQCRC1_uc003cua.1_Missense_Mutation_p.E159K|UQCRC1_uc003cuc.1_Missense_Mutation_p.E275K|UQCRC1_uc003cud.1_Missense_Mutation_p.E274K	NM_003365	NP_003356	P31930	QCR1_HUMAN	ubiquinol-cytochrome c reductase core protein I	274					aerobic respiration|proteolysis		metalloendopeptidase activity|ubiquinol-cytochrome-c reductase activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)	Atovaquone(DB01117)	CAGCATACCTCACTGCCAGTG	0.582													13	30					0	0	0.013537	0	0		T	48638787	T	T	48638787	3	4	19	1	0	0	0	0	1	0	0	0	17045	835	29	4	650	4	UQCRC1	3	48638787	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	132317	48638787	149383643	579	14092											
CELSR3	1951	broad.mit.edu	37	chr3	48692534	48692534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtagttgccaatctcagcaCcaaactgcagagccacggcc	12	6	9	14	1	1	1	1	0	1	1	2	1	1	1	4	1	5	4	4	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:48692534C>T	uc003cul.2	-	6	5212	c.4931G>A	c.(4930-4932)GGT>GAT	p.G1644D	CELSR3_uc003cuf.1_Missense_Mutation_p.G1714D	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1644	Extracellular (Potential).|Laminin G-like 1.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AATCTCAGCACCAAACTGCAG	0.607													15	48					0	0	0.012319	0	0		T	48692534	T	T	48692534	3	4	19	1	0	0	0	0	1	0	0	0	3226	507	18	4	5127	4	CELSR3	3	48692534	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	53747	48692534	149329896	580	14093											
CELSR3	1951	broad.mit.edu	37	chr3	48699322	48699322	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctgtcctcgccgtgcgtGgtgctgaatccagctcgggg	4	9	16	12	4	0	1	0	1	0	0	4	2	2	1	3	3	4	3	3	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:48699322G>T	uc003cul.2	-	1	1027	c.746C>A	c.(745-747)CCA>CAA	p.P249Q	CELSR3_uc003cuf.1_Missense_Mutation_p.P319Q	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	249	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CGCCGTGCGTGGTGCTGAATC	0.687											OREG0004260	type=TRANSCRIPTION FACTOR BINDING SITE|Gene=CELSR3|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	39	72					1.59361e-14	1.68284e-14	0.006999	1	0		T	48699322	T	T	48699322	3	4	19	1	0	0	0	0	1	0	0	0	3226	1348	47	5	9332	5	CELSR3	3	48699322	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	6788	48699322	149323108	581	14094											
QRICH1	54870	broad.mit.edu	37	chr3	49084644	49084644	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaaggctgtggctgtgaCtgtggttcaacttcagcaac	8	10	15	8	0	2	1	2	1	0	0	2	2	2	2	0	5	3	4	0	5	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:49084644C>T	uc010hkq.2	-	5	1670	c.1374G>A	c.(1372-1374)CAG>CAA	p.Q458Q	QRICH1_uc003cvu.2_Silent_p.Q458Q|QRICH1_uc003cvv.2_Silent_p.Q458Q	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	458	Gln-rich.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GTGGCTGTGACTGTGGTTCAA	0.433													31	83					0	0	0.003271	0	0		T	49084644	T	T	49084644	2	4	19	1	0	0	0	0	0	0	0	1	12904	564	20	4		4	QRICH1	3	49084644	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	385322	49084644	148937786	582	14095											
QARS	5859	broad.mit.edu	37	chr3	49137466	49137466	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccatcttgccatcctccAtcaccagcttcatccgtagt	7	12	6	16	1	3	0	2	0	1	0	7	0	7	0	6	1	2	2	6	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:49137466A>G	uc003cvx.2	-	14	1228	c.1223T>C	c.(1222-1224)ATG>ACG	p.M408T	QARS_uc011bcc.1_5'Flank|QARS_uc011bcd.1_Missense_Mutation_p.M263T|QARS_uc003cvy.2_Missense_Mutation_p.M263T|QARS_uc011bce.1_Missense_Mutation_p.M397T	NM_005051	NP_005042	P47897	SYQ_HUMAN	glutaminyl-tRNA synthetase	408					glutaminyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|glutamine-tRNA ligase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)	L-Glutamine(DB00130)	GCCATCCTCCATCACCAGCTT	0.567													34	87					0	0	0.004878	0	0		G	49137466	G	G	49137466	3	3	19	1	0	0	0	0	1	0	0	0	12896	217	8	3	1148	3	QARS	3	49137466	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	52822	49137466	148884964	583	14096											
USP19	10869	broad.mit.edu	37	chr3	49149178	49149178	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggagagcagtgtggtgcagCcagggctctgagactccaag	9	7	16	9	0	1	2	0	1	1	2	2	4	2	2	2	3	3	3	2	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:49149178C>A	uc003cwd.1	-	20	2824	c.2663G>T	c.(2662-2664)GGC>GTC	p.G888V	USP19_uc003cwa.2_Missense_Mutation_p.G696V|USP19_uc003cvz.3_Missense_Mutation_p.G991V|USP19_uc011bcg.1_Missense_Mutation_p.G979V|USP19_uc003cwb.2_Intron|USP19_uc003cwc.1_Missense_Mutation_p.G646V|USP19_uc011bch.1_Missense_Mutation_p.G989V	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	888	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TGTGGTGCAGCCAGGGCTCTG	0.597													27	67					7.53681e-25	8.04516e-25	0.00632	1	0		A	49149178	A	A	49149178	3	1	19	1	0	0	0	0	1	0	0	0	17076	739	26	5	1321	5	USP19	3	49149178	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	11712	49149178	148873252	584	14097											
USP19	10869	broad.mit.edu	37	chr3	49153556	49153556	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgtcgatgcgagaagcCgtgaaacagaaggtgcactg	13	6	14	8	3	0	4	0	1	0	3	1	6	0	4	1	1	4	1	1	1	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:49153556C>T	uc003cwd.1	-	9	1253	c.1092G>A	c.(1090-1092)ACG>ACA	p.T364T	USP19_uc003cwa.2_Silent_p.T170T|USP19_uc003cvz.3_Silent_p.T465T|USP19_uc011bcg.1_Silent_p.T455T|USP19_uc003cwb.2_Silent_p.T450T|USP19_uc003cwc.1_Silent_p.T120T|USP19_uc011bch.1_Silent_p.T465T|USP19_uc011bci.1_Silent_p.T450T	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	364	CS 2.|Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TGCGAGAAGCCGTGAAACAGA	0.572													10	16					0	0	0.008291	0	0		T	49153556	T	T	49153556	2	4	19	1	0	0	0	0	0	0	0	1	17076	639	23	1		1	USP19	3	49153556	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4378	49153556	148868874	585	14098											
USP4	7375	broad.mit.edu	37	chr3	49362429	49362429	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagccgtgtttcacgctcCgcagggatgttgaatagctt	8	11	12	10	3	1	2	1	1	0	1	2	3	2	3	2	1	2	5	2	1	2	4	rs145047321	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:49362429C>T	uc003cwq.2	-	5	610	c.531G>A	c.(529-531)GCG>GCA	p.A177A	USP4_uc003cwr.2_Silent_p.A177A	NM_003363	NP_003354	Q13107	UBP4_HUMAN	ubiquitin specific protease 4 isoform a	177					negative regulation of protein ubiquitination|protein deubiquitination|protein localization at cell surface|regulation of protein stability|ubiquitin-dependent protein catabolic process	lysosome|nucleus	adenosine receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|urinary_tract(1)|lung(1)	4		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)		TTTCACGCTCCGCAGGGATGT	0.502													59	115					0	0	0.01441	0	0		T	49362429	T	T	49362429	2	4	19	1	0	0	0	0	0	0	0	1	17097	639	23	1		1	USP4	3	49362429	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	208873	49362429	148660001	586	14099											
DAG1	1605	broad.mit.edu	37	chr3	49570262	49570262	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggcatcattgccatgaTctgctaccgcaagaagcgga	10	9	11	11	2	2	2	1	1	1	1	2	3	2	3	2	2	5	4	2	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:49570262T>C	uc003cxc.3	+	3	2736	c.2318T>C	c.(2317-2319)ATC>ACC	p.I773T		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	773	Helical; (Potential).				cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		ATTGCCATGATCTGCTACCGC	0.557													4	38					0	0	0.000602	0	0		C	49570262	C	C	49570262	3	2	19	1	0	0	0	0	1	0	0	0	4228	1435	50	3	2324	3	DAG1	3	49570262	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	207833	49570262	148452168	587	14100											
BSN	8927	broad.mit.edu	37	chr3	49690049	49690049	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcgtctagaagaagcaaaGcagcagcgcaaggcccggca	14	2	13	12	3	1	2	0	0	1	2	1	2	1	2	1	2	5	5	1	2	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:49690049G>T	uc003cxe.3	+	5	3174	c.3060G>T	c.(3058-3060)AAG>AAT	p.K1020N		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1020					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		AAGAAGCAAAGCAGCAGCGCA	0.657													16	33					3.28513e-13	3.46003e-13	0.003954	1	0		T	49690049	T	T	49690049	3	4	19	1	0	0	0	0	1	0	0	0	1533	962	34	5	3078	5	BSN	3	49690049	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	119787	49690049	148332381	588	14101											
IP6K1	9807	broad.mit.edu	37	chr3	49765012	49765012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatattgatagagggcattgCggaagccttcaatggagagc	12	9	14	6	1	1	3	1	1	0	2	1	6	1	4	1	3	3	1	1	3	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:49765012C>T	uc003cxm.1	-	6	1184	c.869G>A	c.(868-870)CGC>CAC	p.R290H	IP6K1_uc003cxn.1_Missense_Mutation_p.R125H|IP6K1_uc011bcv.1_Missense_Mutation_p.R125H|IP6K1_uc003cxo.2_3'UTR	NM_153273	NP_695005	Q92551	IP6K1_HUMAN	inositol hexakisphosphate kinase 1 isoform 1	290					phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						GAGGGCATTGCGGAAGCCTTC	0.562													29	69					0	0	0.003755	0	0		T	49765012	T	T	49765012	3	4	19	1	0	0	0	0	1	0	0	0	7804	768	27	1	460	1	IP6K1	3	49765012	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	74963	49765012	148257418	589	14102											
RBM6	10180	broad.mit.edu	37	chr3	50095840	50095840	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatggttgattcagctatcAtgctaaagcgtatctatcgt	10	16	8	7	2	3	1	2	1	1	0	4	1	3	1	0	1	3	4	0	1	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:50095840A>G	uc003cyc.2	+	10	2108	c.1975A>G	c.(1975-1977)ATG>GTG	p.M659V	RBM6_uc010hlc.1_Missense_Mutation_p.M178V|RBM6_uc003cyd.2_Missense_Mutation_p.M137V|RBM6_uc003cye.2_Missense_Mutation_p.M137V|RBM6_uc011bdi.1_Missense_Mutation_p.M1V|RBM6_uc010hld.1_RNA|RBM6_uc010hle.1_RNA|RBM6_uc010hlf.1_RNA	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	659					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		TTCAGCTATCATGCTAAAGCG	0.428													123	294					0	0	0.01441	0	0		G	50095840	G	G	50095840	3	3	19	1	0	0	0	0	1	0	0	0	13169	217	8	3	2009	3	RBM6	3	50095840	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	330828	50095840	147926590	590	14103											
RASSF1	11186	broad.mit.edu	37	chr3	50368119	50368119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctcccgctgcaggatacGtaggaagttatgtagttcag	9	11	11	10	2	1	0	1	0	0	0	3	2	3	2	2	2	2	6	2	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:50368119G>A	uc003dad.1	-	6	1059	c.928C>T	c.(928-930)CGT>TGT	p.R310C	TUSC2_uc003czy.1_5'Flank|TUSC2_uc003czz.1_5'Flank|RASSF1_uc003daa.1_Missense_Mutation_p.R155C|RASSF1_uc003dab.1_Missense_Mutation_p.R236C|RASSF1_uc003dac.2_Missense_Mutation_p.R155C|RASSF1_uc003dae.1_Missense_Mutation_p.R306C|RASSF1_uc010hlk.1_RNA|RASSF1_uc003daf.1_Missense_Mutation_p.R155C	NM_170714	NP_733832	Q9NS23	RASF1_HUMAN	Ras association domain family 1 isoform D	310	SARAH.				cell cycle arrest|negative regulation of cell cycle arrest|positive regulation of protein ubiquitination|protein stabilization|Ras protein signal transduction|response to DNA damage stimulus	microtubule|microtubule cytoskeleton|microtubule organizing center|nucleus|spindle pole	identical protein binding|protein binding|protein N-terminus binding|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000278)|OV - Ovarian serous cystadenocarcinoma(275;0.0015)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		TGCAGGATACGTAGGAAGTTA	0.597													27	53					0	0	0.005443	0	0		A	50368119	A	A	50368119	3	1	19	1	0	0	0	0	1	0	0	0	13109	1145	40	1	110	1	RASSF1	3	50368119	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	272279	50368119	147654311	591	14104											
RBM15B	29890	broad.mit.edu	37	chr3	51431424	51431424	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcgacttttcccagcagtAcctccagtcagcactaagga	10	9	8	14	1	1	0	1	0	0	0	3	2	3	1	3	1	4	3	3	1	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:51431424A>G	uc003dbd.2	+	1	2694	c.2594A>G	c.(2593-2595)TAC>TGC	p.Y865C		NM_013286	NP_037418	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	865	Interaction with Epstein-Barr virus BMLF1.|SPOC.				interspecies interaction between organisms|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleoplasm	nucleotide binding|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		TCCCAGCAGTACCTCCAGTCA	0.582													3	75					0	0	0.004672	0	0		G	51431424	G	G	51431424	3	3	19	1	0	0	0	0	1	0	0	0	13142	391	14	3	2596	3	RBM15B	3	51431424	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1063305	51431424	146591006	592	14105											
VPRBP	9730	broad.mit.edu	37	chr3	51458330	51458330	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagagataaatttaccaatActggatattcggttatctgg	13	13	8	7	1	1	1	0	0	1	1	2	3	1	2	2	3	2	1	2	3	7	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:51458330A>G	uc003dbe.1	-	14	2262	c.2094T>C	c.(2092-2094)AGT>AGC	p.S698S	VPRBP_uc003dbf.1_5'UTR	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	698					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		ATTTACCAATACTGGATATTC	0.458													6	338					0	0	0.001168	0	0		G	51458330	G	G	51458330	2	3	19	1	0	0	0	0	0	0	0	1	17211	388	14	3		3	VPRBP	3	51458330	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	26906	51458330	146564100	593	14106											
PCBP4	57060	broad.mit.edu	37	chr3	51993259	51993259	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcttacctggcaccacgctgGgtgtggcaaaggggaccgca	8	6	15	12	2	0	0	0	0	0	0	0	1	0	1	3	5	1	5	3	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:51993259G>T	uc003dcd.1	-	9	1082	c.686C>A	c.(685-687)CCC>CAC	p.P229H	PCBP4_uc003dcb.1_Missense_Mutation_p.P195H|PCBP4_uc003dcc.1_Missense_Mutation_p.P250H|PCBP4_uc003dce.1_Silent_p.T230T|PCBP4_uc003dcf.1_Missense_Mutation_p.P229H|PCBP4_uc003dcg.1_Missense_Mutation_p.P195H|PCBP4_uc003dch.1_Missense_Mutation_p.P229H|PCBP4_uc003dci.1_Missense_Mutation_p.P69H|PCBP4_uc003dcj.1_Missense_Mutation_p.P229H|PCBP4_uc003dck.1_Missense_Mutation_p.P186H|PCBP4_uc003dcl.1_Missense_Mutation_p.P229H	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	229						cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CACCACGCTGGGTGTGGCAAA	0.637													5	66					0.00116845	0.00119202	0.001168	1	0		T	51993259	T	T	51993259	3	4	19	1	0	0	0	0	1	0	0	0	11522	1232	43	5	541	5	PCBP4	3	51993259	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	534929	51993259	146029171	594	14107											
TLR9	54106	broad.mit.edu	37	chr3	52257500	52257500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcaggtggctgaaggtatCgggatgtagctgggggaagt	8	9	19	5	1	1	1	1	1	0	0	2	3	1	3	0	6	1	5	0	6	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:52257500C>T	uc003dda.1	-	2	1466	c.832G>A	c.(832-834)GAT>AAT	p.D278N	TLR9_uc003ddb.2_Missense_Mutation_p.D375N	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	278	Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	CTGAAGGTATCGGGATGTAGC	0.622													9	44					0	0	0.006214	0	0		T	52257500	T	T	52257500	3	4	19	1	0	0	0	0	1	0	0	0	15983	884	31	1	2270	1	TLR9	3	52257500	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	264241	52257500	145764930	595	14108											
DNAH1	25981	broad.mit.edu	37	chr3	52412744	52412744	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaccttcaacctgagggAcctctccaaggtcttccaag	10	9	7	15	0	3	1	1	1	2	0	5	2	4	2	5	2	2	0	5	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:52412744A>G	uc011bef.1	+	47	7586	c.7325A>G	c.(7324-7326)GAC>GGC	p.D2442G		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2442	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		AACCTGAGGGACCTCTCCAAG	0.617													5	178					0	0	0.001168	0	0		G	52412744	G	G	52412744	3	3	19	1	0	0	0	0	1	0	0	0	4603	275	10	3	7507	3	DNAH1	3	52412744	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	155244	52412744	145609686	596	14109											
DNAH1	25981	broad.mit.edu	37	chr3	52429688	52429688	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcgagcacatcaacccCgacaaggtgtgttgccctgc	9	8	9	15	2	2	0	2	0	0	0	3	2	2	0	3	1	4	2	3	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:52429688C>T	uc011bef.1	+	70	11514	c.11253C>T	c.(11251-11253)CCC>CCT	p.P3751P	DNAH1_uc003ddv.2_Silent_p.P609P	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3816	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		ACATCAACCCCGACAAGGTGT	0.493													9	10					0	0	0.004482	0	0		T	52429688	T	T	52429688	2	4	19	1	0	0	0	0	0	0	0	1	4603	639	23	1		1	DNAH1	3	52429688	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	16944	52429688	145592742	597	14110											
NISCH	11188	broad.mit.edu	37	chr3	52522536	52522536	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgctgcaggacctgaagActgtggtcatcgccaagacc	9	7	11	14	2	1	3	1	1	0	2	3	4	1	4	4	2	1	2	4	2	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:52522536A>G	uc011beg.1	+	17	3100	c.3028A>G	c.(3028-3030)ACT>GCT	p.T1010A	NISCH_uc003ded.3_Missense_Mutation_p.T1010A|NISCH_uc003dee.3_Missense_Mutation_p.T499A|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_5'Flank	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	1010					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		GGACCTGAAGACTGTGGTCAT	0.652													5	95					0	0	0.000602	0	0		G	52522536	G	G	52522536	3	3	19	1	0	0	0	0	1	0	0	0	10451	275	10	3	3090	3	NISCH	3	52522536	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	92848	52522536	145499894	598	14111											
STAB1	23166	broad.mit.edu	37	chr3	52540711	52540711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggtctctgccgcaggggCgcatcctgctgggacccgag	4	7	17	13	3	1	0	0	0	1	0	3	2	2	1	3	4	2	3	3	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:52540711C>T	uc003dej.2	+	18	1908	c.1834C>T	c.(1834-1836)CGC>TGC	p.R612C	STAB1_uc003dei.1_Missense_Mutation_p.R612C	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	612	Extracellular (Potential).|FAS1 2.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		GCCGCAGGGGCGCATCCTGCT	0.692													6	12					0	0	0.001168	0	0		T	52540711	T	T	52540711	3	4	19	1	0	0	0	0	1	0	0	0	15262	768	27	1	1904	1	STAB1	3	52540711	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	18175	52540711	145481719	599	14112											
STAB1	23166	broad.mit.edu	37	chr3	52556376	52556376	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtgagtgccacgcaggcTacgtaggcgatggactgcag	8	7	16	10	3	0	1	0	1	0	0	0	3	0	2	1	3	3	5	1	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:52556376T>C	uc003dej.2	+	60	6570	c.6496T>C	c.(6496-6498)TAC>CAC	p.Y2166H	STAB1_uc003dek.1_Missense_Mutation_p.Y181H|STAB1_uc003del.2_Missense_Mutation_p.Y53H	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2166	EGF-like 16.|Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CCACGCAGGCTACGTAGGCGA	0.642													6	68					0	0	0.006214	0	0		C	52556376	C	C	52556376	3	2	19	1	0	0	0	0	1	0	0	0	15262	1522	53	3	6734	3	STAB1	3	52556376	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	15665	52556376	145466054	600	14113											
CACNA1D	776	broad.mit.edu	37	chr3	53766111	53766111	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgccttgcgatgtgccaggTatggtggcggaggccggaga	6	7	18	10	4	0	1	0	0	0	1	0	4	0	2	4	6	2	1	4	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:53766111T>C	uc003dgv.3	+	18	2636	c.2473_splice	c.e18+2	p.V825_splice	CACNA1D_uc003dgu.3_Splice_Site_p.V845_splice|CACNA1D_uc003dgy.3_Splice_Site_p.V825_splice|CACNA1D_uc003dgw.3_Splice_Site_p.V492_splice|CACNA1D_uc003dgx.1_Splice_Site	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,						axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	ATGTGCCAGGTATGGTGGCGG	0.572													5	65					0	0	0.000602	0	0		C	53766111	C	C	53766111	5	2	19	1	0	0	0	0	0	0	1	0	2544	1652	57	3	2717	3	CACNA1D	3	53766111	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1209735	53766111	144256319	601	14114											
CACNA1D	776	broad.mit.edu	37	chr3	53783469	53783469	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacaaggagaaaaagagtaTaagaactgtgagctggacaa	20	5	12	4	0	0	4	0	1	0	3	0	7	0	5	0	2	3	2	0	2	8	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:53783469T>C	uc003dgv.3	+	27	3652	c.3489T>C	c.(3487-3489)TAT>TAC	p.Y1163Y	CACNA1D_uc003dgu.3_Silent_p.Y1183Y|CACNA1D_uc003dgy.3_Silent_p.Y1163Y|CACNA1D_uc003dgw.3_Silent_p.Y830Y|CACNA1D_uc003dgx.1_Silent_p.Y311Y	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1163	Dihydropyridine binding (By similarity).|Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	AAAAAGAGTATAAGAACTGTG	0.403													33	59					0	0	0.004289	0	0		C	53783469	C	C	53783469	2	2	19	1	0	0	0	0	0	0	0	1	2544	1413	49	3		3	CACNA1D	3	53783469	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	17358	53783469	144238961	602	14115											
CACNA1D	776	broad.mit.edu	37	chr3	53844288	53844288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttccggaacaaaaacaGcgacaagcagaggagtgcgg	15	3	13	10	3	0	1	0	0	0	1	1	4	1	3	1	3	6	2	1	3	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:53844288G>A	uc003dgv.3	+	47	6318	c.6155G>A	c.(6154-6156)AGC>AAC	p.S2052N	CACNA1D_uc003dgu.3_Missense_Mutation_p.S2072N|CACNA1D_uc003dgy.3_Missense_Mutation_p.S2028N|CACNA1D_uc003dgw.3_Missense_Mutation_p.S1719N|CACNA1D_uc011bes.1_RNA	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	2052	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	AACAAAAACAGCGACAAGCAG	0.597													9	96					0	0	0.006214	0	0		A	53844288	A	A	53844288	3	1	19	1	0	0	0	0	1	0	0	0	2544	971	34	2	6513	2	CACNA1D	3	53844288	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	60819	53844288	144178142	603	14116											
ACTR8	93973	broad.mit.edu	37	chr3	53904097	53904097	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtgctgcagaaattctTgagctttatgaaacatcaaa	13	14	7	7	0	3	3	1	2	2	1	3	3	3	3	0	0	4	3	0	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:53904097T>C	uc003dhd.2	-	12	1702	c.1643A>G	c.(1642-1644)CAA>CGA	p.Q548R	ACTR8_uc003dhb.2_Missense_Mutation_p.Q253R|ACTR8_uc003dhc.2_Missense_Mutation_p.Q437R	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	548					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		CAGAAATTCTTGAGCTTTATG	0.428													8	138					0	0	0.00308	0	0		C	53904097	C	C	53904097	3	2	19	1	0	0	0	0	1	0	0	0	217	1812	63	3	239	3	ACTR8	3	53904097	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	59809	53904097	144118333	604	14117											
LRTM1	57408	broad.mit.edu	37	chr3	54958882	54958882	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaatcaagctccctcagcTgagggagggaatggaaaagt	15	6	12	8	0	2	1	2	1	0	0	3	4	3	4	1	3	2	2	1	3	5	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:54958882T>C	uc003dhl.2	-	2	502	c.368A>G	c.(367-369)CAG>CGG	p.Q123R	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	123	LRR 4.|Extracellular (Potential).					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		CTCCCTCAGCTGAGGGAGGGA	0.478													31	49					0	0	0.009535	0	0		C	54958882	C	C	54958882	3	2	19	1	0	0	0	0	1	0	0	0	9062	1580	55	3	677	3	LRTM1	3	54958882	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1054785	54958882	143063548	605	14118											
ARHGEF3	50650	broad.mit.edu	37	chr3	56771226	56771226	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacttaccacgccccgattgTtcttcagttcaccatgacaa	10	12	5	14	2	3	1	2	1	1	0	3	2	3	1	4	0	2	2	4	0	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:56771226T>A	uc003dig.2	-	8	1197	c.1028A>T	c.(1027-1029)AAC>ATC	p.N343I	ARHGEF3_uc011bew.1_Missense_Mutation_p.N343I|ARHGEF3_uc003dih.2_Missense_Mutation_p.N375I|ARHGEF3_uc011bev.1_Missense_Mutation_p.N314I|ARHGEF3_uc003dif.2_Missense_Mutation_p.N349I|ARHGEF3_uc010hmy.1_Missense_Mutation_p.N141I|ARHGEF3_uc003dii.2_Missense_Mutation_p.N343I	NM_019555	NP_062455	Q9NR81	ARHG3_HUMAN	Rho guanine nucleotide exchange factor 3 isoform	343	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0161)|Kidney(284;0.019)|OV - Ovarian serous cystadenocarcinoma(275;0.193)		GCCCCGATTGTTCTTCAGTTC	0.473													4	121					0	0	0.000602	0	0		A	56771226	A	A	56771226	3	1	19	1	0	0	0	0	1	0	0	0	904	1725	60	5	564	5	ARHGEF3	3	56771226	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1812344	56771226	141251204	606	14119											
APPL1	26060	broad.mit.edu	37	chr3	57294720	57294720	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagcgcctttttggatttgTtcttcggacatcaagcggga	8	14	11	8	3	2	0	1	0	1	0	3	3	2	3	1	3	2	1	1	3	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:57294720T>C	uc003dio.2	+	19	1907	c.1760T>C	c.(1759-1761)GTT>GCT	p.V587A	APPL1_uc010hnb.2_Missense_Mutation_p.V587A|APPL1_uc011bey.1_Missense_Mutation_p.V570A	NM_012096	NP_036228	Q9UKG1	DP13A_HUMAN	adaptor protein, phosphotyrosine interaction, PH	587	PID.				apoptosis|cell cycle|cell proliferation|insulin receptor signaling pathway|regulation of apoptosis|regulation of establishment of protein localization in plasma membrane|regulation of glucose import	cytosol|early endosome membrane|microsome|nucleus|vesicle membrane	protein kinase B binding			breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0124)|Kidney(284;0.0144)		TTTGGATTTGTTCTTCGGACA	0.398													93	264					0	0	0.01441	0	0		C	57294720	C	C	57294720	3	2	19	1	0	0	0	0	1	0	0	0	817	1725	60	3	1834	3	APPL1	3	57294720	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	523494	57294720	140727710	607	14120											
FLNB	2317	broad.mit.edu	37	chr3	57994331	57994331	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctagctgaggacgcgcctTggaagaagatccagcagaac	13	6	12	10	2	1	4	0	1	1	3	2	6	2	6	2	2	3	2	2	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:57994331T>C	uc003djj.2	+	1	205	c.40T>C	c.(40-42)TGG>CGG	p.W14R	FLNB_uc010hne.2_Missense_Mutation_p.W14R|FLNB_uc003djk.2_Missense_Mutation_p.W14R|FLNB_uc010hnf.2_Missense_Mutation_p.W14R	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	14	Actin-binding.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		GGACGCGCCTTGGAAGAAGAT	0.612													4	26					0	0	0.000602	0	0		C	57994331	C	C	57994331	3	2	19	1	0	0	0	0	1	0	0	0	5948	1812	63	3	42	3	FLNB	3	57994331	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	699611	57994331	140028099	608	14121											
ABHD6	57406	broad.mit.edu	37	chr3	58279454	58279454	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcataatcgactttttagctTctgtgcacaacacagacaac	13	12	5	11	1	2	1	1	0	1	1	3	2	2	1	0	0	4	2	0	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:58279454T>C	uc003djs.3	+	9	1386	c.976T>C	c.(976-978)TCT>CCT	p.S326P	ABHD6_uc003djr.2_Missense_Mutation_p.S327P|ABHD6_uc003djt.3_Missense_Mutation_p.S326P	NM_020676	NP_065727	Q9BV23	ABHD6_HUMAN	abhydrolase domain containing 6	326	Cytoplasmic (Potential).					integral to membrane	acylglycerol lipase activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(55;0.000225)|KIRC - Kidney renal clear cell carcinoma(284;0.0471)|Kidney(284;0.0589)|OV - Ovarian serous cystadenocarcinoma(275;0.209)		CTTTTTAGCTTCTGTGCACAA	0.522													27	61					0	0	0.005443	0	0		C	58279454	C	C	58279454	3	2	19	1	0	0	0	0	1	0	0	0	86	1783	62	3	1006	3	ABHD6	3	58279454	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	285123	58279454	139742976	609	14122											
MAGI1	9223	broad.mit.edu	37	chr3	65415576	65415576	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactttgcctgttttactacTgtggctagctggtgaatcat	7	16	10	8	0	1	1	1	1	0	0	1	2	1	1	1	2	4	3	1	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:65415576T>G	uc003dmn.2	-	12	2312	c.1786A>C	c.(1786-1788)AGT>CGT	p.S596R	MAGI1_uc003dmm.2_Missense_Mutation_p.S596R|MAGI1_uc003dmo.2_Missense_Mutation_p.S596R|MAGI1_uc003dmp.2_Missense_Mutation_p.S596R|MAGI1_uc010hny.2_Missense_Mutation_p.S481R	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	596					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		GTTTTACTACTGTGGCTAGCT	0.453													34	53					0	0	0.00623	0	0		G	65415576	G	G	65415576	3	3	19	1	0	0	0	0	1	0	0	0	9208	1580	55	5	2884	5	MAGI1	3	65415576	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	7136122	65415576	132606854	610	14123											
MAGI1	9223	broad.mit.edu	37	chr3	66023680	66023680	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgccttaccttgtctgaCggccttgaaggtgacggcct	5	11	11	14	2	1	3	0	3	1	0	1	3	1	3	5	3	2	0	5	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:66023680C>A	uc003dmn.2	-	1	830	c.304G>T	c.(304-306)GTC>TTC	p.V102F	MAGI1_uc003dmm.2_Missense_Mutation_p.V102F|MAGI1_uc003dmo.2_Missense_Mutation_p.V102F|MAGI1_uc003dmp.2_Missense_Mutation_p.V102F|MAGI1_uc003dmr.2_Missense_Mutation_p.V102F	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	102	Guanylate kinase-like.|PDZ 1.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		CCTTGTCTGACGGCCTTGAAG	0.647													30	164					1.13719e-10	1.19153e-10	0.008361	1	0		A	66023680	A	A	66023680	3	1	19	1	0	0	0	0	1	0	0	0	9208	536	19	5	4410	5	MAGI1	3	66023680	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	608104	66023680	131998750	611	14124											
LRIG1	26018	broad.mit.edu	37	chr3	66436422	66436422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taccattcacggtgagcctgGccttatgtgaataggtggag	9	11	13	8	1	1	2	1	2	0	0	1	3	1	3	3	4	2	0	3	4	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:66436422G>A	uc003dmx.2	-	13	1786	c.1772C>T	c.(1771-1773)GCC>GTC	p.A591V	SLC25A26_uc011bft.1_Intron|LRIG1_uc011bfu.1_Missense_Mutation_p.A211V|LRIG1_uc003dmw.2_Missense_Mutation_p.A257V|LRIG1_uc010hnz.2_Missense_Mutation_p.A307V|LRIG1_uc010hoa.2_Missense_Mutation_p.A615V	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	591	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		GGTGAGCCTGGCCTTATGTGA	0.498													7	116					0	0	0.00308	0	0		A	66436422	A	A	66436422	3	1	19	1	0	0	0	0	1	0	0	0	8962	1203	42	2	1537	2	LRIG1	3	66436422	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	412742	66436422	131586008	612	14125											
SUCLG2	8801	broad.mit.edu	37	chr3	67568750	67568750	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttattccttcaaaaatgTcaatttgctcctagtaaaaa	14	15	3	9	0	2	0	2	0	0	0	4	0	4	0	3	0	1	2	3	0	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:67568750T>C	uc003dna.3	-	6	609	c.581A>G	c.(580-582)GAC>GGC	p.D194G	SUCLG2_uc010hob.2_Missense_Mutation_p.D75G	NM_003848	NP_003839	Q96I99	SUCB2_HUMAN	succinate-CoA ligase, GDP-forming beta subunit	194	ATP-grasp.				succinyl-CoA metabolic process|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|GTP binding|succinate-CoA ligase (GDP-forming) activity			central_nervous_system(1)|skin(1)	2		Renal(2;0.00294)|Lung NSC(201;0.012)|Hepatocellular(537;0.121)		BRCA - Breast invasive adenocarcinoma(55;3.53e-05)|Epithelial(33;0.000153)	Succinic acid(DB00139)	TTCAAAAATGTCAATTTGCTC	0.368													22	66					0	0	0.014323	0	0		C	67568750	C	C	67568750	3	2	19	1	0	0	0	0	1	0	0	0	15390	1667	58	3	885	3	SUCLG2	3	67568750	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1132328	67568750	130453680	613	14126											
FOXP1	27086	broad.mit.edu	37	chr3	71247436	71247436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgttggaccgcccctcccGaagaccgccgcactctagta	7	7	9	18	5	1	1	0	0	1	1	3	3	3	2	7	1	0	3	7	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:71247436G>A	uc003dol.2	-	2	420	c.97C>T	c.(97-99)CGG>TGG	p.R33W	FOXP1_uc003dom.2_Missense_Mutation_p.R33W|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Missense_Mutation_p.R33W|FOXP1_uc003dop.2_Missense_Mutation_p.R33W|FOXP1_uc003doq.1_Missense_Mutation_p.R33W|FOXP1_uc003dos.2_Missense_Mutation_p.R33W	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	33					cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		CGCCCCTCCCGAAGACCGCCG	0.607			T	PAX5	ALL								56	146					0	0	0.01441	0	0		A	71247436	A	A	71247436	3	1	19	1	0	0	0	0	1	0	0	0	6040	1057	37	1	2169	1	FOXP1	3	71247436	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3678686	71247436	126774994	614	14127											
PPP4R2	151987	broad.mit.edu	37	chr3	73108188	73108188	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaattatatttttttgcagTatcccttttactattcagcg	11	19	4	7	1	1	0	1	0	0	0	2	0	2	0	1	0	3	2	1	0	7	10			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:73108188T>C	uc003dph.1	+	4	358	c.288T>C	c.(286-288)GGT>GGC	p.G96G	PPP4R2_uc003dpi.1_Silent_p.I39I|FLJ10213_uc003dpj.2_5'Flank	NM_174907	NP_777567	Q9NY27	PP4R2_HUMAN	protein phosphatase 4, regulatory subunit 2	96					mRNA processing|protein modification process|regulation of double-strand break repair via homologous recombination|RNA splicing	centrosome|nucleus|protein phosphatase 4 complex	protein binding, bridging|protein phosphatase type 4 regulator activity			lung(1)	1		Prostate(10;0.0187)|Lung SC(41;0.236)		Epithelial(33;1.76e-07)|BRCA - Breast invasive adenocarcinoma(55;9.42e-05)|LUSC - Lung squamous cell carcinoma(21;0.00211)|Lung(16;0.00643)|KIRC - Kidney renal clear cell carcinoma(39;0.0164)|Kidney(39;0.0193)|OV - Ovarian serous cystadenocarcinoma(275;0.031)		TTTTTTGCAGTATCCCTTTTA	0.338													10	22					0	0	0.006214	0	0		C	73108188	C	C	73108188	2	2	19	1	0	0	0	0	0	0	0	1	12426	1652	57	3		3	PPP4R2	3	73108188	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1860752	73108188	124914242	615	14128											
CNTN3	5067	broad.mit.edu	37	chr3	74383946	74383946	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgcaagggccccattgaaAtaccaggtaaagatgatgtc	13	9	10	9	0	1	3	0	2	1	1	2	3	1	3	3	2	2	2	3	2	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:74383946A>G	uc003dpm.1	-	12	1688	c.1608T>C	c.(1606-1608)TAT>TAC	p.Y536Y		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	536	Ig-like C2-type 6.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		CCCCATTGAAATACCAGGTAA	0.373													46	126					0	0	0.01441	0	0		G	74383946	G	G	74383946	2	3	19	1	0	0	0	0	0	0	0	1	3645	108	4	3		3	CNTN3	3	74383946	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1275758	74383946	123638484	616	14129											
ROBO2	6092	broad.mit.edu	37	chr3	77623872	77623872	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatctaaaacggttcgtactActgaagaaggtcagtattca	15	11	8	7	2	3	2	2	1	1	1	4	2	3	2	0	2	3	3	0	2	8	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:77623872A>G	uc003dpy.3	+	14	2837	c.2194A>G	c.(2194-2196)ACT>GCT	p.T732A	ROBO2_uc003dpz.2_Missense_Mutation_p.T736A|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.T736A	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	732	Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		GGTTCGTACTACTGAAGAAGG	0.338													8	25					0	0	0.00308	0	0		G	77623872	G	G	77623872	3	3	19	1	0	0	0	0	1	0	0	0	13539	391	14	3	2250	3	ROBO2	3	77623872	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3239926	77623872	120398558	617	14130											
GBE1	2632	broad.mit.edu	37	chr3	81548278	81548278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccaaaagagaatagggacGcccattatgttcaaaagcct	16	8	8	9	1	1	1	1	0	0	1	1	3	1	2	3	1	2	1	3	1	8	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:81548278G>A	uc003dqg.2	-	16	2318	c.2035C>T	c.(2035-2037)CGT>TGT	p.R679C		NM_000158	NP_000149	Q04446	GLGB_HUMAN	glucan (1,4-alpha-), branching enzyme 1	679					glucose metabolic process|glycogen biosynthetic process	cytosol	1,4-alpha-glucan branching enzyme activity|cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(3)	3		Lung NSC(201;0.0117)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0654)|Epithelial(33;0.00305)|LUSC - Lung squamous cell carcinoma(29;0.00646)|BRCA - Breast invasive adenocarcinoma(55;0.00813)|Lung(72;0.0129)|KIRC - Kidney renal clear cell carcinoma(39;0.212)|Kidney(39;0.247)		GAATAGGGACGCCCATTATGT	0.348									Glycogen_Storage_Disease_type_IV				5	17					0	0	0.000602	0	0		A	81548278	A	A	81548278	3	1	19	1	0	0	0	0	1	0	0	0	6285	1087	38	1	81	1	GBE1	3	81548278	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3924406	81548278	116474152	618	14131											
ZNF654	55279	broad.mit.edu	37	chr3	88189082	88189082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgctcttggttgtgtcCggatatttaaaagaattggg	8	15	12	6	1	1	1	0	0	1	1	3	2	3	2	2	3	1	2	2	3	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:88189082C>T	uc003dqv.2	+	1	821	c.622C>T	c.(622-624)CGG>TGG	p.R208W	CGGBP1_uc003dqu.2_Intron	NM_018293	NP_060763	Q8IZM8	ZN654_HUMAN	zinc finger protein 654	208	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(201;0.0283)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		TGGTTGTGTCCGGATATTTAA	0.368													6	29					0	0	0.001984	0	0		T	88189082	T	T	88189082	3	4	19	1	0	0	0	0	1	0	0	0	18092	643	23	1	624	1	ZNF654	3	88189082	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	6640804	88189082	109833348	619	14132											
EPHA6	285220	broad.mit.edu	37	chr3	96706732	96706732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtgaagagtgctgaagagCgtgacactcctaaactgtat	12	10	12	7	1	0	5	0	3	0	2	1	5	1	5	1	0	3	2	1	0	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:96706732C>T	uc010how.1	+	3	1052	c.1009C>T	c.(1009-1011)CGT>TGT	p.R337C	EPHA6_uc003drp.1_Missense_Mutation_p.R337C	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	242	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						TGCTGAAGAGCGTGACACTCC	0.468													46	103					0	0	0.01441	0	0		T	96706732	T	T	96706732	3	4	19	1	0	0	0	0	1	0	0	0	5179	768	27	1	1019	1	EPHA6	3	96706732	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	8517650	96706732	101315698	620	14133											
OR5H1	26341	broad.mit.edu	37	chr3	97852456	97852456	+	Frame_Shift_Del	DEL	A	-	-																															gtttcattcacaaaaatgttAaaaaaacatgttaaggtttc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:97852456delA	uc011bgt.1	+	1	915	c.915delA	c.(913-915)TTAfs	p.L305fs		NM_001005338	NP_001005338	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						CAAAAATGTTAAAAAAACATG	0.323													23	47	---	---	---	---						.	-	97852456	-	-	97852456	7	5	19	1	0	1	0	1	0	0	0	0	11178	359	13	0	917	0	OR5H1	3	97852456	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	1145724	97852456	100169974	621	14134											
DCBLD2	131566	broad.mit.edu	37	chr3	98538224	98538224	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgttatttgaggatccgcGatcacaccagactccatccc	9	10	8	14	2	1	2	1	1	0	1	4	4	4	3	4	1	0	2	4	1	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:98538224G>A	uc003dtd.2	-	8	1272	c.909C>T	c.(907-909)ATC>ATT	p.I303I	DCBLD2_uc003dte.2_Silent_p.I303I	NM_080927	NP_563615	Q96PD2	DCBD2_HUMAN	discoidin, CUB and LCCL domain containing 2	303	Extracellular (Potential).|F5/8 type C.				cell adhesion|intracellular receptor mediated signaling pathway|negative regulation of cell growth|wound healing	cell surface|integral to plasma membrane				ovary(2)|central_nervous_system(1)	3						GAGGATCCGCGATCACACCAG	0.443													26	37					0	0	0.007291	0	0		A	98538224	A	A	98538224	2	1	19	1	0	0	0	0	0	0	0	1	4284	1048	37	1		1	DCBLD2	3	98538224	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	685768	98538224	99484206	622	14135											
DCBLD2	131566	broad.mit.edu	37	chr3	98541118	98541118	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaactttcataataggggaTacctttactaattacaacac	16	12	5	8	0	1	1	1	0	0	1	1	2	1	2	1	2	5	0	1	2	8	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:98541118T>C	uc003dtd.2	-	6	1147	c.784A>G	c.(784-786)ATC>GTC	p.I262V	DCBLD2_uc003dte.2_Missense_Mutation_p.I262V	NM_080927	NP_563615	Q96PD2	DCBD2_HUMAN	discoidin, CUB and LCCL domain containing 2	262	Extracellular (Potential).|LCCL.				cell adhesion|intracellular receptor mediated signaling pathway|negative regulation of cell growth|wound healing	cell surface|integral to plasma membrane				ovary(2)|central_nervous_system(1)	3						TAATAGGGGATACCTTTACTA	0.398													5	23					0	0	0.001168	0	0		C	98541118	C	C	98541118	3	2	19	1	0	0	0	0	1	0	0	0	4284	1406	49	3	1587	3	DCBLD2	3	98541118	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2894	98541118	99481312	623	14136											
FILIP1L	11259	broad.mit.edu	37	chr3	99567788	99567788	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagagtggctgtgttttgtAcatggtctggagtaaccttt	8	15	12	6	0	1	1	0	0	1	1	1	2	1	2	1	3	2	4	1	3	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:99567788A>G	uc003dtm.2	-	5	3195	c.2732T>C	c.(2731-2733)GTA>GCA	p.V911A	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.V911A|FILIP1L_uc010hpf.2_Missense_Mutation_p.V487A|FILIP1L_uc010hpg.2_Missense_Mutation_p.V671A|FILIP1L_uc003dtn.2_Missense_Mutation_p.V671A|FILIP1L_uc003dtp.1_Missense_Mutation_p.V671A	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	911						cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						TGTGTTTTGTACATGGTCTGG	0.473													65	145					0	0	0.01441	0	0		G	99567788	G	G	99567788	3	3	19	1	0	0	0	0	1	0	0	0	5909	391	14	3	704	3	FILIP1L	3	99567788	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1026670	99567788	98454642	624	14137											
C3orf26	84319	broad.mit.edu	37	chr3	99881157	99881157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catatcttagaagaaaattaCtgatgttcttgcaaaatcag	16	13	6	6	0	3	3	1	1	2	2	3	3	3	3	0	0	2	2	0	0	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:99881157C>T	uc003dtl.2	+	4	379	c.236C>T	c.(235-237)ACT>ATT	p.T79I		NM_032359	NP_115735	Q9BQ75	CC026_HUMAN	hypothetical protein LOC84319	79							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(1)	1						AAGAAAATTACTGATGTTCTT	0.373													24	60					0	0	0.00278	0	0		T	99881157	T	T	99881157	3	4	19	1	0	0	0	0	1	0	0	0	2221	565	20	4	264	4	C3orf26	3	99881157	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	313369	99881157	98141273	625	14138											
CEP97	79598	broad.mit.edu	37	chr3	101447772	101447772	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgatctatctaaattggtAtccctgaaagtaagtatgtt	12	15	9	5	0	2	2	0	2	2	0	3	2	3	2	1	2	0	4	1	2	7	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:101447772A>G	uc003dvk.1	+	4	465	c.438A>G	c.(436-438)GTA>GTG	p.V146V	CEP97_uc010hpm.1_Intron|CEP97_uc011bhf.1_Silent_p.V146V|CEP97_uc003dvl.1_Intron	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	146	LRR 5.					centrosome|nucleus	protein binding			ovary(2)	2						CTAAATTGGTATCCCTGAAAG	0.348													4	99					0	0	0.009096	0	0		G	101447772	G	G	101447772	2	3	19	1	0	0	0	0	0	0	0	1	3266	436	16	3		3	CEP97	3	101447772	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1566615	101447772	96574658	626	14139											
CEP97	79598	broad.mit.edu	37	chr3	101451384	101451384	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagttgtcgattatgaacaAtccttgtgtgatggcaacac	12	12	9	8	1	0	2	0	2	0	0	2	3	1	2	1	1	2	2	1	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:101451384A>G	uc003dvk.1	+	6	641	c.614A>G	c.(613-615)AAT>AGT	p.N205S	CEP97_uc010hpm.1_Missense_Mutation_p.N171S|CEP97_uc011bhf.1_Missense_Mutation_p.N205S|CEP97_uc003dvl.1_5'UTR|CEP97_uc003dvm.1_Missense_Mutation_p.N43S	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	205	LRR 8.					centrosome|nucleus	protein binding			ovary(2)	2						ATTATGAACAATCCTTGTGTG	0.413													23	53					0	0	0.00278	0	0		G	101451384	G	G	101451384	3	3	19	1	0	0	0	0	1	0	0	0	3266	101	4	3	636	3	CEP97	3	101451384	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3612	101451384	96571046	627	14140											
ZPLD1	131368	broad.mit.edu	37	chr3	102181167	102181167	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taattatccccagtataggaTtacctttgaaaaccaaagta	16	12	5	8	0	0	1	0	1	0	0	1	2	1	2	4	1	2	2	4	1	9	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:102181167T>G	uc003dvs.1	+	13	1507	c.625T>G	c.(625-627)TTA>GTA	p.L209V	ZPLD1_uc003dvt.1_Missense_Mutation_p.L225V|ZPLD1_uc011bhg.1_Missense_Mutation_p.L209V	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	209	ZP.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						CAGTATAGGATTACCTTTGAA	0.353													3	60					0	0	0.004672	0	0		G	102181167	G	G	102181167	3	3	19	1	0	0	0	0	1	0	0	0	18246	1490	52	5	695	5	ZPLD1	3	102181167	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	729783	102181167	95841263	628	14141											
MORC1	27136	broad.mit.edu	37	chr3	108688562	108688562	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcatctgctctgggcacTgctccagctgttttcataaa	7	15	8	11	0	4	0	2	0	2	0	5	0	5	0	1	1	3	6	1	1	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:108688562T>C	uc003dxl.2	-	26	2645	c.2558A>G	c.(2557-2559)CAG>CGG	p.Q853R	MORC1_uc011bhn.1_Missense_Mutation_p.Q832R	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	853					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						CTCTGGGCACTGCTCCAGCTG	0.358													32	88					0	0	0.003271	0	0		C	108688562	C	C	108688562	3	2	19	1	0	0	0	0	1	0	0	0	9719	1580	55	3	408	3	MORC1	3	108688562	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	6507395	108688562	89333868	629	14142											
DPPA4	55211	broad.mit.edu	37	chr3	109050618	109050618	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaggcacacaggcgcttaTatgcatccaatttctaagac	14	9	7	11	1	1	1	0	0	1	1	2	1	2	1	1	2	1	3	1	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:109050618T>C	uc003dxq.3	-	4	408	c.353A>G	c.(352-354)TAT>TGT	p.Y118C	DPPA4_uc011bho.1_Missense_Mutation_p.Y118C|DPPA4_uc011bhp.1_Missense_Mutation_p.Y118C	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	118						nucleus	protein binding			upper_aerodigestive_tract(1)	1						CAGGCGCTTATATGCATCCAA	0.438													3	177					0	0	0.004672	0	0		C	109050618	C	C	109050618	3	2	19	1	0	0	0	0	1	0	0	0	4742	1406	49	3	577	3	DPPA4	3	109050618	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	362056	109050618	88971812	630	14143											
TMPRSS7	344805	broad.mit.edu	37	chr3	111780751	111780751	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacttttggcagaatatggCagttacaacatcagtcaacg	13	10	8	10	1	2	1	2	0	0	1	2	1	2	1	1	2	3	3	1	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:111780751C>T	uc010hqb.2	+	9	1220	c.1050C>T	c.(1048-1050)GGC>GGT	p.G350G	TMPRSS7_uc011bhr.1_Silent_p.G205G	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	476	Extracellular (Potential).|CUB 2.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						CAGAATATGGCAGTTACAACA	0.413													4	76					0	0	0.009096	0	0		T	111780751	T	T	111780751	2	4	19	1	0	0	0	0	0	0	0	1	16277	697	25	2		2	TMPRSS7	3	111780751	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2730133	111780751	86241679	631	14144											
CCDC52	152185	broad.mit.edu	37	chr3	113176104	113176104	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttatctggagggtctggCacctgagacagtttaacggg	9	11	14	7	1	2	1	0	1	2	1	2	3	2	2	1	4	1	3	1	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:113176104C>T	uc003eag.3	-	13	1827	c.1536G>A	c.(1534-1536)GTG>GTA	p.V512V	CCDC52_uc003eaf.3_RNA|CCDC52_uc003eah.1_Silent_p.V408V	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52	512					cell division|mitosis	centriole|spindle	protein binding				0						GAGGGTCTGGCACCTGAGACA	0.468													48	86					0	0	0.01441	0	0		T	113176104	T	T	113176104	2	4	19	1	0	0	0	0	0	0	0	1	2825	697	25	2		2	CCDC52	3	113176104	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1395353	113176104	84846326	632	14145											
UPK1B	7348	broad.mit.edu	37	chr3	118906708	118906708	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcttgaagccaccgacaaCgatgacatctatggggctgc	10	8	11	12	2	1	2	0	2	1	0	1	4	1	2	2	2	4	2	2	2	3	2	rs137980561	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:118906708C>T	uc003ecc.2	+	3	245	c.156C>T	c.(154-156)AAC>AAT	p.N52N	UPK1B_uc011bix.1_Translation_Start_Site|UPK1B_uc003ecd.2_Silent_p.N52N	NM_006952	NP_008883	O75841	UPK1B_HUMAN	uroplakin 1B	52	Extracellular (Potential).				epithelial cell differentiation	integral to membrane	structural molecule activity				0				GBM - Glioblastoma multiforme(114;0.222)		CCACCGACAACGATGACATCT	0.532													37	87					0	0	0.01441	0	0		T	118906708	T	T	118906708	2	4	19	1	0	0	0	0	0	0	0	1	17034	535	19	1		1	UPK1B	3	118906708	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5730604	118906708	79115722	633	14146											
POLQ	10721	broad.mit.edu	37	chr3	121158854	121158854	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catacgtgagctttacgataAgggttgttgtctttgattcc	8	16	10	7	2	1	2	0	2	1	0	2	3	2	2	1	1	3	3	1	1	3	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:121158854A>C	uc003eee.3	-	27	7503	c.7374T>G	c.(7372-7374)CCT>CCG	p.P2458P	POLQ_uc003eed.2_Silent_p.P1630P	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	2458					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		CTTTACGATAAGGGTTGTTGT	0.338								DNA_polymerases_(catalytic_subunits)					37	60					0	0	0.00874	0	0		C	121158854	C	C	121158854	2	2	19	1	0	0	0	0	0	0	0	1	12227	59	3	5		5	POLQ	3	121158854	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2252146	121158854	76863576	634	14147											
POLQ	10721	broad.mit.edu	37	chr3	121229067	121229067	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatgcatatcttgtgatgtActtgccactccaccaactat	10	14	6	11	0	1	1	0	1	1	0	2	1	2	1	3	0	4	3	3	0	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:121229067A>G	uc003eee.3	-	11	1764	c.1635T>C	c.(1633-1635)AGT>AGC	p.S545S		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	545	Helicase C-terminal.				DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		CTTGTGATGTACTTGCCACTC	0.338								DNA_polymerases_(catalytic_subunits)					37	66					0	0	0.005524	0	0		G	121229067	G	G	121229067	2	3	19	1	0	0	0	0	0	0	0	1	12227	388	14	3		3	POLQ	3	121229067	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	70213	121229067	76793363	635	14148											
GOLGB1	2804	broad.mit.edu	37	chr3	121412910	121412910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtggactttttctctgcGcaaagcatccagtttctctt	8	15	7	11	1	2	0	0	0	2	0	5	1	3	1	1	1	2	3	1	1	2	4	rs114710035	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:121412910G>A	uc003eei.3	-	13	6571	c.6445C>T	c.(6445-6447)CGC>TGC	p.R2149C	GOLGB1_uc010hrc.2_Missense_Mutation_p.R2154C|GOLGB1_uc003eej.3_Missense_Mutation_p.R2115C|GOLGB1_uc011bjm.1_Missense_Mutation_p.R2035C|GOLGB1_uc010hrd.1_Missense_Mutation_p.R2113C	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	2149	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TTTTCTCTGCGCAAAGCATCC	0.418													108	261					0	0	0.01441	0	0		A	121412910	A	A	121412910	3	1	19	1	0	0	0	0	1	0	0	0	6580	1087	38	1	3374	1	GOLGB1	3	121412910	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	183843	121412910	76609520	636	14149											
PARP14	54625	broad.mit.edu	37	chr3	122419228	122419228	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgagaacaaagaagttctTcatggcaagaaatggaaagg	17	8	12	4	0	2	3	1	1	1	3	2	5	2	4	0	3	1	3	0	3	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:122419228T>C	uc003efq.3	+	6	1886	c.1827T>C	c.(1825-1827)CTT>CTC	p.L609L	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Silent_p.L326L|PARP14_uc003efs.1_Silent_p.L326L	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	609					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		AAGAAGTTCTTCATGGCAAGA	0.388													21	22					0	0	0.010504	0	0		C	122419228	C	C	122419228	2	2	19	1	0	0	0	0	0	0	0	1	11477	1770	62	3		3	PARP14	3	122419228	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1006318	122419228	75603202	637	14150											
HSPBAP1	79663	broad.mit.edu	37	chr3	122459517	122459517	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggacttgctgcctccggtTtgtctgttcctgtggtcaag	4	14	13	10	1	2	0	1	0	1	0	4	1	4	1	3	3	2	3	3	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:122459517T>C	uc003efu.1	-	8	1265	c.1142A>G	c.(1141-1143)AAA>AGA	p.K381R	HSPBAP1_uc003eft.1_Missense_Mutation_p.K92R	NM_024610	NP_078886	Q96EW2	HBAP1_HUMAN	Hspb associated protein 1	381						cytoplasm				ovary(1)|lung(1)	2				GBM - Glioblastoma multiforme(114;0.0531)		TGCCTCCGGTTTGTCTGTTCC	0.507													6	351					0	0	0.001984	0	0		C	122459517	C	C	122459517	3	2	19	1	0	0	0	0	1	0	0	0	7441	1841	64	3	328	3	HSPBAP1	3	122459517	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	40289	122459517	75562913	638	14151											
ADCY5	111	broad.mit.edu	37	chr3	123167070	123167070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccgcgaccgcagtcgtcgCcgccgcgctcctgccaggcg	3	5	14	19	9	0	0	0	0	0	0	3	1	1	0	6	1	2	2	6	1	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:123167070C>T	uc003egh.1	-	1	323	c.323G>A	c.(322-324)GGC>GAC	p.G108D		NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	108	Cytoplasmic (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		gcagtcgtcgccgccgcGCTC	0.408													3	0					0	0	0.004672	0	0		T	123167070	T	T	123167070	3	4	19	1	0	0	0	0	1	0	0	0	297	739	26	2	3546	2	ADCY5	3	123167070	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	707553	123167070	74855360	639	14152											
ADCY5	111	broad.mit.edu	37	chr3	123167215	123167215	+	Frame_Shift_Del	DEL	C	-	-																															ctgctgctgcggggtcaccgCccccccgggtttcttggtgg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:123167215delC	uc003egh.1	-	1	178	c.178delG	c.(178-180)GCGfs	p.A60fs		NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	60	Cytoplasmic (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		GGGGTCACCGCCCCCCCGGGT	0.736													3	4	---	---	---	---						.	-	123167215	-	-	123167215	7	5	19	1	0	1	0	1	0	0	0	0	297	739	26	0	3691	0	ADCY5	3	123167215	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	145	123167215	74855215	640	14153											
KALRN	8997	broad.mit.edu	37	chr3	124174097	124174097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaggccacattcatgccaCggagataaggaaatgggtga	16	6	12	7	1	1	2	1	1	0	1	1	4	1	3	2	4	1	0	2	4	4	2	rs139468141		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:124174097C>T	uc003ehg.2	+	22	3747	c.3620C>T	c.(3619-3621)ACG>ATG	p.T1207M	KALRN_uc010hrv.1_Missense_Mutation_p.T1198M|KALRN_uc003ehf.1_Missense_Mutation_p.T1207M|KALRN_uc011bjy.1_Missense_Mutation_p.T1198M|KALRN_uc003ehh.1_Missense_Mutation_p.T553M	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1207	Spectrin 5.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						ATTCATGCCACGGAGATAAGG	0.493													35	91					0	0	0.00623	0	0		T	124174097	T	T	124174097	3	4	19	1	0	0	0	0	1	0	0	0	7991	536	19	1	3706	1	KALRN	3	124174097	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1006882	124174097	73848333	641	14154											
HEG1	57493	broad.mit.edu	37	chr3	124728615	124728615	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagataaaggatccctgagTattgttgcacatggctgtgg	10	11	13	7	0	0	2	0	1	0	1	1	3	1	3	1	3	1	5	1	3	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:124728615T>C	uc003ehs.3	-	8	3195	c.3127A>G	c.(3127-3129)ACT>GCT	p.T1043A	HEG1_uc011bke.1_Missense_Mutation_p.T1143A	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	1043	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						GATCCCTGAGTATTGTTGCAC	0.453													3	40					0	0	0.000602	0	0		C	124728615	C	C	124728615	3	2	19	1	0	0	0	0	1	0	0	0	7060	1638	57	3	1058	3	HEG1	3	124728615	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	554518	124728615	73293815	642	14155											
PLXNA1	5361	broad.mit.edu	37	chr3	126724974	126724974	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaaggagacagggaagaaGtttgcgtctgtggacttcgt	10	10	14	7	2	1	2	0	0	1	2	3	5	2	4	1	3	1	1	1	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:126724974G>A	uc003ejg.2	+	7	1885	c.1881G>A	c.(1879-1881)AAG>AAA	p.K627K		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	650	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CAGGGAAGAAGTTTGCGTCTG	0.597													28	59					0	0	0.00632	0	0		A	126724974	A	A	126724974	2	1	19	1	0	0	0	0	0	0	0	1	12138	1020	36	4		4	PLXNA1	3	126724974	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1996359	126724974	71297456	643	14156											
PLXNA1	5361	broad.mit.edu	37	chr3	126731000	126731000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgcagtgccagaattcctCggtgaggtggccagggcagg	7	7	16	11	1	0	2	0	1	0	1	2	2	1	2	4	5	2	2	4	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:126731000C>T	uc003ejg.2	+	9	2247	c.2243C>T	c.(2242-2244)TCG>TTG	p.S748L		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	771	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CAGAATTCCTCGGTGAGGTGG	0.662													8	26					0	0	0.008291	0	0		T	126731000	T	T	126731000	3	4	19	1	0	0	0	0	1	0	0	0	12138	898	31	1	2346	1	PLXNA1	3	126731000	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	6026	126731000	71291430	644	14157											
PLXNA1	5361	broad.mit.edu	37	chr3	126748300	126748300	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtgacagacgggtcctcGgtggcactggtgcccaagca	8	6	15	12	2	0	2	0	1	0	1	2	2	1	2	2	5	2	2	2	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:126748300G>A	uc003ejg.2	+	26	4726	c.4722G>A	c.(4720-4722)TCG>TCA	p.S1574S	PLXNA1_uc003ejh.2_Silent_p.S242S	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1597	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		ACGGGTCCTCGGTGGCACTGG	0.682													54	118					0	0	0.01441	0	0		A	126748300	A	A	126748300	2	1	19	1	0	0	0	0	0	0	0	1	12138	1103	39	1		1	PLXNA1	3	126748300	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	17300	126748300	71274130	645	14158											
MCM2	4171	broad.mit.edu	37	chr3	127338063	127338063	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagggtccacccgaagctcaAccagatggaccaggacaagg	13	3	13	12	1	1	1	1	0	0	1	2	5	2	3	4	4	2	1	4	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:127338063A>G	uc003ejp.2	+	13	2264	c.2207A>G	c.(2206-2208)AAC>AGC	p.N736S	MCM2_uc011bkm.1_Missense_Mutation_p.N606S|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.N689S	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	736					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						CCGAAGCTCAACCAGATGGAC	0.587													29	100					0	0	0.007291	0	0		G	127338063	G	G	127338063	3	3	19	1	0	0	0	0	1	0	0	0	9404	43	2	3	2257	3	MCM2	3	127338063	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	589763	127338063	70684367	646	14159											
C3orf27	23434	broad.mit.edu	37	chr3	128292138	128292138	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgggtcatggaaaatagctGaaagcaaagttgctcagagg	14	8	13	6	0	2	2	2	1	0	1	2	3	2	3	0	3	3	4	0	3	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:128292138G>A	uc003ekq.2	-	3	1402	c.435C>T	c.(433-435)TTC>TTT	p.F145F		NM_007354	NP_031380	O15544	GR6_HUMAN	putative GR6 protein	145											0				GBM - Glioblastoma multiforme(114;0.176)		gaaaatagctgaaagcaaagt	0.313													7	38					0	0	0.001984	0	0		A	128292138	A	A	128292138	2	1	19	1	0	0	0	0	0	0	0	1	2222	1281	45	4		4	C3orf27	3	128292138	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	954075	128292138	69730292	647	14160											
IFT122	55764	broad.mit.edu	37	chr3	129197018	129197018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattatcaagaagtttgagtGcaacctcctggtggtgtgtg	9	13	13	6	0	1	2	1	1	0	1	2	3	2	2	2	2	2	2	2	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:129197018G>A	uc003emm.2	+	12	1513	c.1307G>A	c.(1306-1308)TGC>TAC	p.C436Y	IFT122_uc003eml.2_Missense_Mutation_p.C487Y|IFT122_uc003emn.2_Missense_Mutation_p.C377Y|IFT122_uc003emo.2_Missense_Mutation_p.C325Y|IFT122_uc003emp.2_Missense_Mutation_p.C286Y|IFT122_uc010htc.2_Missense_Mutation_p.C428Y|IFT122_uc011bky.1_Missense_Mutation_p.C227Y|IFT122_uc003emq.2_Missense_Mutation_p.C276Y|IFT122_uc003emr.2_Missense_Mutation_p.C227Y|IFT122_uc011bla.1_Missense_Mutation_p.C227Y|IFT122_uc011bkx.1_Missense_Mutation_p.C276Y|IFT122_uc011bkz.1_RNA	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	436					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						AAGTTTGAGTGCAACCTCCTG	0.483													12	35					0	0	0.013537	0	0		A	129197018	A	A	129197018	3	1	19	1	0	0	0	0	1	0	0	0	7571	1319	46	2	1510	2	IFT122	3	129197018	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	904880	129197018	68825412	648	14161											
RHO	6010	broad.mit.edu	37	chr3	129252455	129252455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctcttgccttccagttccGgaactgcatgctcaccacca	7	10	7	17	1	2	0	1	0	1	0	4	1	4	1	6	1	4	3	6	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:129252455G>A	uc003emt.2	+	5	1036	c.941G>A	c.(940-942)CGG>CAG	p.R314Q		NM_000539	NP_000530	P08100	OPSD_HUMAN	rhodopsin	314	Cytoplasmic.				protein-chromophore linkage|rhodopsin mediated signaling pathway	Golgi apparatus|integral to plasma membrane|photoreceptor inner segment membrane|photoreceptor outer segment membrane	G-protein coupled receptor activity|metal ion binding|photoreceptor activity|protein binding				0		all_neural(597;0.0227)|Myeloproliferative disorder(1037;0.0255)|Prostate(884;0.183)		GBM - Glioblastoma multiforme(114;2.58e-05)|Lung(219;0.0234)	Halothane(DB01159)	TTCCAGTTCCGGAACTGCATG	0.622													58	133					0	0	0.01441	0	0		A	129252455	A	A	129252455	3	1	19	1	0	0	0	0	1	0	0	0	13355	1116	39	1	959	1	RHO	3	129252455	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	55437	129252455	68769975	649	14162											
TMCC1	23023	broad.mit.edu	37	chr3	129389611	129389611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagcgcctgctgctgaatggGtggcctgggagaagctggaa	8	7	17	9	1	0	2	0	1	0	1	0	4	0	3	2	4	4	3	2	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:129389611G>A	uc003emz.3	-	5	1574	c.1073C>T	c.(1072-1074)ACC>ATC	p.T358I	TMCC1_uc003emy.3_Missense_Mutation_p.T34I|TMCC1_uc011blc.1_Missense_Mutation_p.T179I|TMCC1_uc010htg.2_Missense_Mutation_p.T244I	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	358						integral to membrane				skin(1)	1						TGCTGAATGGGTGGCCTGGGA	0.527													37	68					0	0	0.004289	0	0		A	129389611	A	A	129389611	3	1	19	1	0	0	0	0	1	0	0	0	16017	1261	44	4	900	4	TMCC1	3	129389611	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	137156	129389611	68632819	650	14163											
TRH	7200	broad.mit.edu	37	chr3	129695892	129695892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgcctgaaaaacgccagcatCcgggcaagagggccctggga	11	4	14	12	2	0	2	0	1	0	1	1	3	1	3	4	3	3	2	4	3	3	0	rs147002606	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:129695892C>T	uc003enc.2	+	3	1123	c.562C>T	c.(562-564)CCG>TCG	p.P188S		NM_007117	NP_009048	P20396	TRH_HUMAN	thyrotropin-releasing hormone	188					cell-cell signaling|hormone-mediated signaling pathway	extracellular region|soluble fraction	neuropeptide hormone activity|thyrotropin-releasing hormone activity			ovary(1)	1						ACGCCAGCATCCGGGCAAGAG	0.532													26	43					0	0	0.00632	0	0		T	129695892	T	T	129695892	3	4	19	1	0	0	0	0	1	0	0	0	16504	855	30	4	568	4	TRH	3	129695892	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	306281	129695892	68326538	651	14164											
PIK3R4	30849	broad.mit.edu	37	chr3	130454824	130454824	+	Frame_Shift_Del	DEL	A	-	-																															aataatggtacaccttctgtAaaaagctcagctatcacaca																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:130454824delA	uc003enj.2	-	3	1337	c.756delT	c.(754-756)TTTfs	p.F252fs		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	252	Protein kinase.				fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						CACCTTCTGTAAAAAGCTCAG	0.318													38	86	---	---	---	---						.	-	130454824	-	-	130454824	7	5	19	1	0	1	0	1	0	0	0	0	11940	359	13	0	3392	0	PIK3R4	3	130454824	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	758932	130454824	67567606	652	14165											
PIK3R4	30849	broad.mit.edu	37	chr3	130463621	130463621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacattctcagtcttgatgtCcccatgacgaactccagatt	10	12	6	13	1	2	3	1	2	2	1	5	4	4	3	3	0	1	0	3	0	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:130463621C>T	uc003enj.2	-	2	1023	c.442G>A	c.(442-444)GAC>AAC	p.D148N		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	148	Protein kinase.	Proton acceptor (By similarity).			fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						GTCTTGATGTCCCCATGACGA	0.468													20	109					0	0	0.010504	0	0		T	130463621	T	T	130463621	3	4	19	1	0	0	0	0	1	0	0	0	11940	855	30	4	3710	4	PIK3R4	3	130463621	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	8797	130463621	67558809	653	14166											
ATP2C1	27032	broad.mit.edu	37	chr3	130694309	130694309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaccaacaagagaaggcacGcatgggctcagcgggactca	13	4	13	11	2	2	1	2	0	0	1	2	3	2	2	1	3	3	4	1	3	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:130694309G>A	uc003enl.2	+	18	1769	c.1547G>A	c.(1546-1548)CGC>CAC	p.R516H	ATP2C1_uc011blg.1_Missense_Mutation_p.R550H|ATP2C1_uc011blh.1_Missense_Mutation_p.R511H|ATP2C1_uc011bli.1_Missense_Mutation_p.R550H|ATP2C1_uc003enk.2_Missense_Mutation_p.R500H|ATP2C1_uc003enm.2_Missense_Mutation_p.R516H|ATP2C1_uc003enn.2_Missense_Mutation_p.R500H|ATP2C1_uc003eno.2_Missense_Mutation_p.R516H|ATP2C1_uc003enp.2_Missense_Mutation_p.R516H|ATP2C1_uc003enq.2_Missense_Mutation_p.R516H|ATP2C1_uc003enr.2_Missense_Mutation_p.R516H|ATP2C1_uc003ens.2_Missense_Mutation_p.R516H|ATP2C1_uc003ent.2_Missense_Mutation_p.R516H|ATP2C1_uc003enu.2_Missense_Mutation_p.R194H	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	516	Cytoplasmic (By similarity).			R -> H (in Ref. 8; CAA09425).	actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	GAGAAGGCACGCATGGGCTCA	0.468									Hailey-Hailey_disease				16	37					0	0	0.003163	0	0		A	130694309	A	A	130694309	3	1	19	1	0	0	0	0	1	0	0	0	1144	1087	38	1	1613	1	ATP2C1	3	130694309	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	230688	130694309	67328121	654	14167											
ASTE1	28990	broad.mit.edu	37	chr3	130735120	130735120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgcccagccgtgtctgcGccttcactctttggaactct	4	14	9	14	2	4	0	1	0	3	0	4	1	4	1	3	1	4	0	3	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:130735120G>A	uc003env.1	-	5	2019	c.1577C>T	c.(1576-1578)GCG>GTG	p.A526V	ATP2C1_uc011blh.1_3'UTR|ATP2C1_uc011bli.1_3'UTR|ATP2C1_uc003enm.2_3'UTR|ATP2C1_uc003enn.2_3'UTR|ATP2C1_uc003enp.2_3'UTR|ATP2C1_uc003enr.2_3'UTR|ATP2C1_uc003ens.2_3'UTR|ATP2C1_uc003ent.2_3'UTR|ASTE1_uc010htm.1_Missense_Mutation_p.A526V|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	526					DNA repair		nuclease activity				0						CCGTGTCTGCGCCTTCACTCT	0.488													43	101					0	0	0.01441	0	0		A	130735120	A	A	130735120	3	1	19	1	0	0	0	0	1	0	0	0	1063	1087	38	1	470	1	ASTE1	3	130735120	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	40811	130735120	67287310	655	14168											
CPNE4	131034	broad.mit.edu	37	chr3	131404727	131404727	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgactcttacctcagttcGgtgcaccagctgctgagttg	7	12	11	11	1	2	2	1	2	1	0	3	3	2	2	2	1	4	5	2	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:131404727G>A	uc003eok.2	-	6	1018	c.583C>T	c.(583-585)CGA>TGA	p.R195*	CPNE4_uc011blq.1_Nonsense_Mutation_p.R213*|CPNE4_uc003eol.2_Nonsense_Mutation_p.R213*|CPNE4_uc003eom.2_Nonsense_Mutation_p.R195*	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	195	C2 2.									upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						ACCTCAGTTCGGTGCACCAGC	0.378													18	32					0	0	0.00333	0	0		A	131404727	A	A	131404727	4	1	19	1	0	0	0	0	0	1	0	0	3817	1124	39	1	1134	1	CPNE4	3	131404727	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	669607	131404727	66617703	656	14169											
DNAJC13	23317	broad.mit.edu	37	chr3	132199275	132199275	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtggacttgcttaccctTgcacatctccatgtaagccg	7	13	8	13	1	1	0	0	0	1	0	2	1	1	1	3	1	4	3	3	1	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:132199275T>C	uc003eor.2	+	26	2900	c.2835T>C	c.(2833-2835)CTT>CTC	p.L945L		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	945							heat shock protein binding			ovary(1)|breast(1)	2						TGCTTACCCTTGCACATCTCC	0.353													8	66					0	0	0.00308	0	0		C	132199275	C	C	132199275	2	2	19	1	0	0	0	0	0	0	0	1	4638	1799	63	3		3	DNAJC13	3	132199275	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	794548	132199275	65823155	657	14170											
TOPBP1	11073	broad.mit.edu	37	chr3	133335731	133335731	+	Frame_Shift_Del	DEL	T	-	-																															gataactgaaatatgtactgTttttttaattcttcatgagt																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:133335731delT	uc003eps.2	-	23	3930	c.3798delA	c.(3796-3798)AAAfs	p.K1266fs		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	1266	BRCT 7.				DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						ATATGTACTGTTTTTTTAATT	0.284								Other_conserved_DNA_damage_response_genes					5	6	---	---	---	---						.	-	133335731	-	-	133335731	7	5	19	1	0	1	0	1	0	0	0	0	16395	1722	60	0	794	0	TOPBP1	3	133335731	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	1136456	133335731	64686699	658	14171											
TF	7018	broad.mit.edu	37	chr3	133467393	133467393	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgttgcttgtgtgaagAaagcctcctaccttgattgc	8	13	10	10	0	0	3	0	2	0	1	1	3	1	3	4	0	4	2	4	0	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:133467393A>G	uc003epu.1	+	7	1909	c.181A>G	c.(181-183)AAA>GAA	p.K61E	TF_uc011bls.1_Missense_Mutation_p.K61E|TF_uc011blt.1_Intron|TF_uc003epw.1_Intron|TF_uc010htv.1_RNA|TF_uc003epv.1_Missense_Mutation_p.K61E	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	61	Transferrin-like 1.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	TTGTGTGAAGAAAGCCTCCTA	0.502													18	47					0	0	0.008871	0	0		G	133467393	G	G	133467393	3	3	19	1	0	0	0	0	1	0	0	0	15810	247	9	3	187	3	TF	3	133467393	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	131662	133467393	64555037	659	14172											
COPB2	9276	broad.mit.edu	37	chr3	139094430	139094430	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccttccaaagtgaagttTggtgacgaagagcccaactg	11	10	11	9	1	0	3	0	2	0	1	2	4	2	3	3	1	2	1	3	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:139094430T>C	uc003etf.3	-	6	661	c.531A>G	c.(529-531)CCA>CCG	p.P177P	COPB2_uc011bmv.1_Silent_p.P148P|COPB2_uc010hui.2_Silent_p.P148P|COPB2_uc011bmw.1_Silent_p.P177P	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	177	WD 4.				COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						AAGTGAAGTTTGGTGACGAAG	0.478													5	34					0	0	0.001168	0	0		C	139094430	C	C	139094430	2	2	19	1	0	0	0	0	0	0	0	1	3732	1799	63	3		3	COPB2	3	139094430	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	5627037	139094430	58928000	660	14173											
SPSB4	92369	broad.mit.edu	37	chr3	140785515	140785515	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgagggcacactcagctTcatcgtggatggccagtacc	9	8	13	11	1	2	1	2	1	0	0	3	3	2	3	2	4	2	3	2	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:140785515T>C	uc003ett.2	+	2	823	c.569T>C	c.(568-570)TTC>TCC	p.F190S	SPSB4_uc010hum.2_Missense_Mutation_p.F190S	NM_080862	NP_543138	Q96A44	SPSB4_HUMAN	splA/ryanodine receptor domain and SOCS box	190	B30.2/SPRY.				intracellular signal transduction	cytoplasm	protein binding				0						ACACTCAGCTTCATCGTGGAT	0.657													3	26					0	0	0.004672	0	0		C	140785515	C	C	140785515	3	2	19	1	0	0	0	0	1	0	0	0	15140	1783	62	3	571	3	SPSB4	3	140785515	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1691085	140785515	57236915	661	14174											
XRN1	54464	broad.mit.edu	37	chr3	142102233	142102233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgttttgatattggagaaaCgggagtcgaaagctcggatg	12	11	14	4	3	0	2	0	1	0	1	2	6	0	4	0	3	2	2	0	3	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:142102233C>T	uc003eus.2	-	22	2592	c.2525G>A	c.(2524-2526)CGT>CAT	p.R842H	XRN1_uc010huu.2_Missense_Mutation_p.R308H|XRN1_uc003eut.2_Missense_Mutation_p.R842H|XRN1_uc003euu.2_Missense_Mutation_p.R842H|XRN1_uc003euv.1_Missense_Mutation_p.R703H	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	842					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						ATTGGAGAAACGGGAGTCGAA	0.358													35	70					0	0	0.013726	0	0		T	142102233	T	T	142102233	3	4	19	1	0	0	0	0	1	0	0	0	17485	536	19	1	2679	1	XRN1	3	142102233	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1316718	142102233	55920197	662	14175											
PCOLCE2	26577	broad.mit.edu	37	chr3	142567212	142567212	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggccaatgcgctggccatTggcatggccattgtacacat	8	9	12	12	2	0	0	0	0	0	0	0	0	0	0	3	4	2	3	3	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:142567212T>C	uc003evd.2	-	3	491	c.295A>G	c.(295-297)AAT>GAT	p.N99D		NM_013363	NP_037495	Q9UKZ9	PCOC2_HUMAN	procollagen C-endopeptidase enhancer 2	99	CUB 1.					extracellular region	collagen binding|heparin binding|peptidase activator activity			ovary(2)|skin(1)	3						CGCTGGCCATTGGCATGGCCA	0.517													5	75					0	0	0.001168	0	0		C	142567212	C	C	142567212	3	2	19	1	0	0	0	0	1	0	0	0	11614	1812	63	3	980	3	PCOLCE2	3	142567212	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	464979	142567212	55455218	663	14176											
PAQR9	344838	broad.mit.edu	37	chr3	142681070	142681070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttactgcagaattcggagCtgtttaggaacttcctgatt	9	16	9	7	1	0	2	0	1	0	1	2	4	1	4	1	2	4	3	1	2	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:142681070C>T	uc003evg.2	-	1	1109	c.1109G>A	c.(1108-1110)AGC>AAC	p.S370N	PAQR9_uc003evf.1_RNA	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	370	Extracellular (Potential).					integral to membrane	receptor activity				0						GAATTCGGAGCTGTTTAGGAA	0.537													14	214					0	0	0.00245	0	0		T	142681070	T	T	142681070	3	4	19	1	0	0	0	0	1	0	0	0	11461	797	28	2	28	2	PAQR9	3	142681070	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	113858	142681070	55341360	664	14177											
PAQR9	344838	broad.mit.edu	37	chr3	142681213	142681213	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acgtagtacacctggtcgtaGatgctgaggaaggtgaagat	12	9	14	6	2	0	4	0	2	0	2	1	5	0	5	1	3	2	4	1	3	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:142681213G>A	uc003evg.2	-	1	966	c.966C>T	c.(964-966)ATC>ATT	p.I322I	PAQR9_uc003evf.1_RNA	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	322	Helical; (Potential).					integral to membrane	receptor activity				0						CCTGGTCGTAGATGCTGAGGA	0.592													44	89					0	0	0.01441	0	0		A	142681213	A	A	142681213	2	1	19	1	0	0	0	0	0	0	0	1	11461	932	33	4		4	PAQR9	3	142681213	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	143	142681213	55341217	665	14178											
PLSCR5	389158	broad.mit.edu	37	chr3	146322995	146322995	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atttactcttacctttagagGccatgaagatgtctgagtca	11	14	8	8	0	3	4	1	2	2	2	3	4	3	4	2	1	2	0	2	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:146322995G>T	uc003ewb.2	-	1	1009	c.5C>A	c.(4-6)GCC>GAC	p.A2D	PLSCR5_uc010hvb.2_Missense_Mutation_p.A2D|PLSCR5_uc010hvc.2_Missense_Mutation_p.A2D	NM_001085420	NP_001078889	A0PG75	PLS5_HUMAN	phospholipid scramblase family, member 5	2											0						ACCTTTAGAGGCCATGAAGAT	0.358													9	28					0.00829132	0.00841852	0.008291	1	0		T	146322995	T	T	146322995	3	4	19	1	0	0	0	0	1	0	0	0	12132	1203	42	5	838	5	PLSCR5	3	146322995	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3641782	146322995	51699435	666	14179											
ZIC1	7545	broad.mit.edu	37	chr3	147128402	147128402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagatgaggctcggcttctCgggggacatgtacccgcgac	7	7	15	12	4	1	2	0	1	1	1	3	4	1	3	1	4	1	4	1	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:147128402C>T	uc003ewe.2	+	1	1222	c.503C>T	c.(502-504)TCG>TTG	p.S168L		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	168					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CTCGGCTTCTCGGGGGACATG	0.697													12	10					0	0	0.003163	0	0		T	147128402	T	T	147128402	3	4	19	1	0	0	0	0	1	0	0	0	17703	893	31	1	505	1	ZIC1	3	147128402	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	805407	147128402	50894028	667	14180											
HPS3	84343	broad.mit.edu	37	chr3	148880506	148880506	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaaggatgaagatacaatTcctcagctcttggtagactt	12	12	9	8	0	2	3	1	1	1	2	3	4	3	4	1	2	2	3	1	2	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:148880506T>A	uc003ewu.1	+	13	2462	c.2322T>A	c.(2320-2322)ATT>ATA	p.I774I	HPS3_uc011bnq.1_Silent_p.I609I|HPS3_uc003ewv.1_RNA	NM_032383	NP_115759	Q969F9	HPS3_HUMAN	Hermansky-Pudlak syndrome 3 protein	774						cytoplasm				ovary(5)|large_intestine(1)	6			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			AAGATACAATTCCTCAGCTCT	0.418									Hermansky-Pudlak_syndrome				12	147					0	0	0.001855	0	0		A	148880506	A	A	148880506	2	1	19	1	0	0	0	0	0	0	0	1	7356	1771	62	5		5	HPS3	3	148880506	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1752104	148880506	49141924	668	14181											
MED12L	116931	broad.mit.edu	37	chr3	151105758	151105758	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgctgtatcacacacAccccatgcccaagccccgca	9	6	5	21	1	1	0	1	0	0	0	2	0	2	0	7	0	3	3	7	0	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:151105758A>C	uc003eyp.2	+	35	5182	c.5144A>C	c.(5143-5145)CAC>CCC	p.H1715P	MED12L_uc011bnz.1_Missense_Mutation_p.H1575P|MED12L_uc003eyy.1_Missense_Mutation_p.H878P	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1715					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TATCACACACACCCCATGCCC	0.577													18	27					0	0	0.007413	0	0		C	151105758	C	C	151105758	3	2	19	1	0	0	0	0	1	0	0	0	9447	159	6	5	5282	5	MED12L	3	151105758	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2225252	151105758	46916672	669	14182											
IGSF10	285313	broad.mit.edu	37	chr3	151161483	151161483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactgtgatctctttggtaCgtctctccaggatcctggga	7	13	11	10	1	2	1	0	1	2	0	6	4	4	3	2	3	2	1	2	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:151161483C>T	uc011bod.1	-	5	5252	c.5252G>A	c.(5251-5253)CGT>CAT	p.R1751H	IGSF10_uc011bob.1_5'Flank|IGSF10_uc011boc.1_5'Flank	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1751	Ig-like C2-type 4.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTCTTTGGTACGTCTCTCCAG	0.507													19	56					0	0	0.010504	0	0		T	151161483	T	T	151161483	3	4	19	1	0	0	0	0	1	0	0	0	7613	536	19	1	2675	1	IGSF10	3	151161483	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	55725	151161483	46860947	670	14183											
DHX36	170506	broad.mit.edu	37	chr3	154002694	154002694	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgctccaaaaagaatcAtttttccaatatgtggctca	14	12	6	9	0	2	1	2	0	0	1	4	1	4	1	2	1	1	2	2	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:154002694A>G	uc003ezy.3	-	18	2195	c.2114T>C	c.(2113-2115)ATG>ACG	p.M705T	DHX36_uc010hvq.2_Missense_Mutation_p.M691T|DHX36_uc003ezz.3_Missense_Mutation_p.M705T	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	705						cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			AAAAAGAATCATTTTTCCAAT	0.418													36	87					0	0	0.004289	0	0		G	154002694	G	G	154002694	3	3	19	1	0	0	0	0	1	0	0	0	4515	217	8	3	944	3	DHX36	3	154002694	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2841211	154002694	44019736	671	14184											
PLCH1	23007	broad.mit.edu	37	chr3	155199765	155199765	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctccatcaatttccacaagGctgctctccccagaattgaa	11	11	5	14	0	3	2	1	1	2	1	6	2	4	2	4	1	1	2	4	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:155199765G>A	uc011bok.1	-	23	4351	c.4074C>T	c.(4072-4074)AGC>AGT	p.S1358S	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Silent_p.S1320S	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1358					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TTTCCACAAGGCTGCTCTCCC	0.458													7	71					0	0	0.00308	0	0		A	155199765	A	A	155199765	2	1	19	1	0	0	0	0	0	0	0	1	12056	1194	42	2		2	PLCH1	3	155199765	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1197071	155199765	42822665	672	14185											
PLCH1	23007	broad.mit.edu	37	chr3	155200765	155200765	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcactggaggaggatgatAactttttgttgaaatttaga	13	13	12	3	0	0	3	0	2	0	1	0	7	0	6	0	3	2	2	0	3	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:155200765A>G	uc011bok.1	-	23	3351	c.3074T>C	c.(3073-3075)TTA>TCA	p.L1025S	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.L987S	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1025					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GGAGGATGATAACTTTTTGTT	0.418													13	119					0	0	0.013537	0	0		G	155200765	G	G	155200765	3	3	19	1	0	0	0	0	1	0	0	0	12056	372	13	3	2011	3	PLCH1	3	155200765	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1000	155200765	42821665	673	14186											
SLC33A1	9197	broad.mit.edu	37	chr3	155571075	155571075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatttgttacaaaagtcggCagattcaagggccaaaaaca	17	9	8	7	1	1	1	1	0	0	1	2	1	1	1	1	2	2	2	1	2	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:155571075C>T	uc003fan.3	-	1	1093	c.712G>A	c.(712-714)GCC>ACC	p.A238T	SLC33A1_uc003fao.1_Missense_Mutation_p.A238T	NM_004733	NP_004724	O00400	ACATN_HUMAN	acetyl-coenzyme A transporter	238	Helical; (Potential).				cell death|transmembrane transport	endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane|membrane fraction	acetyl-CoA transporter activity			ovary(2)|large_intestine(1)|pancreas(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CAAAAGTCGGCAGATTCAAGG	0.408													4	46					0	0	0.009096	0	0		T	155571075	T	T	155571075	3	4	19	1	0	0	0	0	1	0	0	0	14591	710	25	2	961	2	SLC33A1	3	155571075	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	370310	155571075	42451355	674	14187											
CCNL1	57018	broad.mit.edu	37	chr3	156867305	156867305	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttttggaagcctgttgtcTatcctcaggttcttttttga	5	19	9	8	0	3	1	1	1	2	0	4	2	4	2	2	2	1	3	2	2	2	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:156867305T>C	uc003fbf.2	-	9	1701	c.1102A>G	c.(1102-1104)AGA>GGA	p.R368G	CCNL1_uc003fbd.1_Missense_Mutation_p.R368G|CCNL1_uc003fbe.2_Missense_Mutation_p.R162G|CCNL1_uc003fbg.2_RNA|CCNL1_uc011bor.1_RNA|CCNL1_uc003fbi.1_Missense_Mutation_p.R213G	NM_020307	NP_064703	Q9UK58	CCNL1_HUMAN	cyclin L1	368					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			lung(3)|breast(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(72;0.0295)|Lung(72;0.0308)			GCCTGTTGTCTATCCTCAGGT	0.363													38	81					0	0	0.004878	0	0		C	156867305	C	C	156867305	3	2	19	1	0	0	0	0	1	0	0	0	2934	1530	53	3	490	3	CCNL1	3	156867305	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1296230	156867305	41155125	675	14188											
SCHIP1	29970	broad.mit.edu	37	chr3	159605501	159605501	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttttccctttgcagagcaAacagagttcttcctattctg	8	16	6	11	0	2	2	0	0	2	2	4	2	4	2	2	0	3	3	2	0	2	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:159605501A>G	uc003fcs.1	+	5	1067	c.1001A>G	c.(1000-1002)AAA>AGA	p.K334R	SCHIP1_uc003fcq.1_Missense_Mutation_p.K410R|SCHIP1_uc003fcr.1_Missense_Mutation_p.K323R|SCHIP1_uc003fct.1_Missense_Mutation_p.K321R|SCHIP1_uc010hvz.1_Missense_Mutation_p.K294R|SCHIP1_uc003fcu.1_Missense_Mutation_p.K91R|SCHIP1_uc003fcv.1_Missense_Mutation_p.K107R	NM_014575	NP_055390	Q9P0W5	SCHI1_HUMAN	schwannomin interacting protein 1	334						cytoplasm	identical protein binding|protein binding			ovary(1)|central_nervous_system(1)	2			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			TTGCAGAGCAAACAGAGTTCT	0.463													14	278					0	0	0.00245	0	0		G	159605501	G	G	159605501	3	3	19	1	0	0	0	0	1	0	0	0	13929	14	1	3	1019	3	SCHIP1	3	159605501	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2738196	159605501	38416929	676	14189											
SI	6476	broad.mit.edu	37	chr3	164727162	164727162	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtcctgaagaaatctgggaAagctacatgagctctggaag	14	8	12	7	0	2	3	0	2	2	1	3	5	3	5	1	2	3	2	1	2	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:164727162A>C	uc003fei.2	-	35	4146	c.4084T>G	c.(4084-4086)TTC>GTC	p.F1362V		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1362	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	AAATCTGGGAAAGCTACATGA	0.378										HNSCC(35;0.089)			22	48					0	0	0.014323	0	0		C	164727162	C	C	164727162	3	2	19	1	0	0	0	0	1	0	0	0	14322	14	1	5	1455	5	SI	3	164727162	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5121661	164727162	33295268	677	14190											
SLITRK3	22865	broad.mit.edu	37	chr3	164907875	164907875	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggcagtataaggaatgcgTtccagccaactcttcagttg	11	10	11	9	1	2	0	1	0	1	0	3	1	3	1	2	2	3	4	2	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:164907875T>C	uc003fej.3	-	2	1188	c.744A>G	c.(742-744)GAA>GAG	p.E248E	SLITRK3_uc003fek.2_Silent_p.E248E	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	248	LRRCT 1.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						AAGGAATGCGTTCCAGCCAAC	0.478										HNSCC(40;0.11)			5	145					0	0	0.000602	0	0		C	164907875	C	C	164907875	2	2	19	1	0	0	0	0	0	0	0	1	14769	1722	60	3		3	SLITRK3	3	164907875	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	180713	164907875	33114555	678	14191											
MYNN	55892	broad.mit.edu	37	chr3	169492087	169492087	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccattctgatatcaaaatgCagtattcgcaccactgtgag	12	12	7	10	1	2	2	1	2	1	0	4	2	3	2	2	0	1	3	2	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:169492087C>T	uc003fft.2	+	2	433	c.4C>T	c.(4-6)CAG>TAG	p.Q2*	MYNN_uc011bpm.1_5'UTR|MYNN_uc003ffu.2_Nonsense_Mutation_p.Q2*|MYNN_uc003ffv.2_5'UTR|MYNN_uc010hwo.2_Nonsense_Mutation_p.Q2*	NM_018657	NP_061127	Q9NPC7	MYNN_HUMAN	myoneurin	2						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;2.19e-58)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			TATCAAAATGCAGTATTCGCA	0.408													7	217					0	0	0.001984	0	0		T	169492087	T	T	169492087	4	4	19	1	0	0	0	0	0	1	0	0	10079	711	25	2	6	2	MYNN	3	169492087	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4584212	169492087	28530343	679	14192											
LRRIQ4	344657	broad.mit.edu	37	chr3	169546691	169546691	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagggattcaaacttaccTatgtgccagaacacattagg	14	9	8	10	0	1	1	1	0	0	1	1	2	1	2	3	2	4	0	3	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:169546691T>C	uc003fgb.2	+	2	1165	c.1165T>C	c.(1165-1167)TAT>CAT	p.Y389H		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	389	LRR 16.										0						CAAACTTACCTATGTGCCAGA	0.433													38	83					0	0	0.009718	0	0		C	169546691	C	C	169546691	3	2	19	1	0	0	0	0	1	0	0	0	9049	1522	53	3	1171	3	LRRIQ4	3	169546691	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	54604	169546691	28475739	680	14193											
PLD1	5337	broad.mit.edu	37	chr3	171338199	171338199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taataacagtgttatcatcaGcaattaacaacttgctgtgg	14	13	7	7	0	2	0	2	0	0	0	2	0	2	0	0	1	5	3	0	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:171338199G>A	uc003fhs.2	-	24	2821	c.2705C>T	c.(2704-2706)GCT>GTT	p.A902V	PLD1_uc003fht.2_Missense_Mutation_p.A864V|PLD1_uc003fhu.3_Missense_Mutation_p.A196V	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	902	Catalytic.|PLD phosphodiesterase 2.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	GTTATCATCAGCAATTAACAA	0.368													26	67					0	0	0.003954	0	0		A	171338199	A	A	171338199	3	1	19	1	0	0	0	0	1	0	0	0	12064	971	34	2	535	2	PLD1	3	171338199	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1791508	171338199	26684231	681	14194											
PLD1	5337	broad.mit.edu	37	chr3	171392379	171392379	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcagaaaaggataagaaaGggaccgatattttgatttca	18	9	10	4	1	1	3	1	1	0	2	1	6	1	5	1	2	1	1	1	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:171392379G>T	uc003fhs.2	-	19	2256	c.2140C>A	c.(2140-2142)CTT>ATT	p.L714I	PLD1_uc003fht.2_Missense_Mutation_p.L676I|PLD1_uc003fhu.3_Missense_Mutation_p.L8I|PLD1_uc003fhv.1_Missense_Mutation_p.L39I	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	714	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	GGATAAGAAAGGGACCGATAT	0.333													14	111					0.00244969	0.00249633	0.00245	1	0		T	171392379	T	T	171392379	3	4	19	1	0	0	0	0	1	0	0	0	12064	1000	35	5	1120	5	PLD1	3	171392379	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	54180	171392379	26630051	682	14195											
FNDC3B	64778	broad.mit.edu	37	chr3	171965350	171965350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatagtactggagtccgcCgggtggtggtcacaccccag	9	7	14	11	2	1	1	1	0	0	1	2	2	2	2	4	4	1	1	4	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:171965350C>T	uc003fhy.2	+	5	464	c.292C>T	c.(292-294)CGG>TGG	p.R98W	FNDC3B_uc003fhz.3_Missense_Mutation_p.R98W|FNDC3B_uc003fia.2_Missense_Mutation_p.R29W	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	98						endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		TGGAGTCCGCCGGGTGGTGGT	0.458													82	164					0	0	0.01441	0	0		T	171965350	T	T	171965350	3	4	19	1	0	0	0	0	1	0	0	0	5984	643	23	1	306	1	FNDC3B	3	171965350	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	572971	171965350	26057080	683	14196											
FNDC3B	64778	broad.mit.edu	37	chr3	172003767	172003767	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattctttcgggaatagagaAaccacaggtatgtcttctgg	11	12	10	8	1	3	1	0	0	3	1	4	3	3	2	1	3	1	1	1	3	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:172003767A>G	uc003fhy.2	+	7	1014	c.842A>G	c.(841-843)AAA>AGA	p.K281R	FNDC3B_uc003fhz.3_Missense_Mutation_p.K281R|FNDC3B_uc003fia.2_Missense_Mutation_p.K212R	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	281	Fibronectin type-III 1.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		GGAATAGAGAAACCACAGGTA	0.348													32	86					0	0	0.003755	0	0		G	172003767	G	G	172003767	3	3	19	1	0	0	0	0	1	0	0	0	5984	14	1	3	864	3	FNDC3B	3	172003767	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	38417	172003767	26018663	684	14197											
NLGN1	22871	broad.mit.edu	37	chr3	173996754	173996754	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgttggccacaaaagttggTtgcaatgtttcagatacagt	12	13	10	6	0	1	1	1	0	0	1	1	1	1	1	1	2	2	5	1	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:173996754T>C	uc003fio.1	+	6	1386	c.963T>C	c.(961-963)GGT>GGC	p.G321G	NLGN1_uc010hww.1_Silent_p.G361G|NLGN1_uc003fip.1_Silent_p.G321G	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	338	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			CAAAAGTTGGTTGCAATGTTT	0.413													60	123					0	0	0.01441	0	0		C	173996754	C	C	173996754	2	2	19	1	0	0	0	0	0	0	0	1	10480	1712	60	3		3	NLGN1	3	173996754	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1992987	173996754	24025676	685	14198											
NLGN1	22871	broad.mit.edu	37	chr3	173998565	173998565	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctgtacctgtcacgtcAgcctttcccactgccaagca	9	11	6	15	1	3	0	2	0	1	0	4	0	4	0	4	0	4	2	4	0	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:173998565A>G	uc003fio.1	+	7	2367	c.1944A>G	c.(1942-1944)TCA>TCG	p.S648S	NLGN1_uc003fip.1_Silent_p.S648S	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	665	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			CTGTCACGTCAGCCTTTCCCA	0.433													9	118					0	0	0.006214	0	0		G	173998565	G	G	173998565	2	3	19	1	0	0	0	0	0	0	0	1	10480	175	7	3		3	NLGN1	3	173998565	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1811	173998565	24023865	686	14199											
NAALADL2	254827	broad.mit.edu	37	chr3	174951986	174951986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcctattctgccaaaggaActctcaaggtaatatgacca	14	9	7	11	0	2	1	1	1	2	0	3	2	2	2	3	2	3	1	3	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:174951986A>G	uc003fit.2	+	3	898	c.811A>G	c.(811-813)ACT>GCT	p.T271A	NAALADL2_uc003fiu.1_Missense_Mutation_p.T264A|NAALADL2_uc010hwy.1_Missense_Mutation_p.T93A	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	271	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		TGCCAAAGGAACTCTCAAGGT	0.398													5	47					0	0	0.001984	0	0		G	174951986	G	G	174951986	3	3	19	1	0	0	0	0	1	0	0	0	10148	43	2	3	821	3	NAALADL2	3	174951986	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	953421	174951986	23070444	687	14200											
NAALADL2	254827	broad.mit.edu	37	chr3	174974236	174974236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgagttatggaatggcagatGatttaaaaaggattaggaaa	17	11	12	1	0	0	3	0	2	0	1	0	6	0	6	0	4	0	2	0	4	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:174974236G>A	uc003fit.2	+	4	943	c.856G>A	c.(856-858)GAT>AAT	p.D286N	NAALADL2_uc003fiu.1_Missense_Mutation_p.D279N|NAALADL2_uc010hwy.1_Missense_Mutation_p.D108N|NAALADL2_uc010hwz.1_5'UTR	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	286	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		AATGGCAGATGATTTAAAAAG	0.363													9	47					0	0	0.006214	0	0		A	174974236	A	A	174974236	3	1	19	1	0	0	0	0	1	0	0	0	10148	1290	45	4	870	4	NAALADL2	3	174974236	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	22250	174974236	23048194	688	14201											
NAALADL2	254827	broad.mit.edu	37	chr3	175042056	175042056	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaatcctagccatgatacCttcatggtgtcactgaatcc	10	12	8	11	0	2	3	2	3	0	0	4	3	4	3	4	1	2	0	4	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:175042056C>A	uc003fit.2	+	5	1119	c.1032C>A	c.(1030-1032)ACC>ACA	p.T344T	NAALADL2_uc003fiu.1_Silent_p.T337T|NAALADL2_uc010hwy.1_Silent_p.T166T|NAALADL2_uc010hwz.1_Intron	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	344	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		GCCATGATACCTTCATGGTGT	0.423													17	207					6.33239e-15	6.69666e-15	0.010504	1	0		A	175042056	A	A	175042056	2	1	19	1	0	0	0	0	0	0	0	1	10148	668	24	5		5	NAALADL2	3	175042056	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	67820	175042056	22980374	689	14202											
PIK3CA	5290	broad.mit.edu	37	chr3	178917659	178917659	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcttcaccagaattgccAaagcacatatataataaatt	18	11	4	8	0	2	1	1	0	1	1	2	2	2	1	2	0	2	1	2	0	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:178917659A>G	uc003fjk.2	+	3	691	c.534A>G	c.(532-534)CCA>CCG	p.P178P		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	178	PI3K-RBD.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			CAGAATTGCCAAAGCACATAT	0.328		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			14	95					0	0	0.00499	0	0		G	178917659	G	G	178917659	2	3	19	1	0	0	0	0	0	0	0	1	11932	117	5	3		3	PIK3CA	3	178917659	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3875603	178917659	19104771	690	14203											
PIK3CA	5290	broad.mit.edu	37	chr3	178952085	178952085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacaaatgaatgatgcacAtcatggtggctggacaacaa	17	7	10	7	0	1	2	1	2	0	0	1	4	1	3	0	3	3	2	0	3	5	0	rs121913279		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:178952085A>G	uc003fjk.2	+	21	3297	c.3140A>G	c.(3139-3141)CAT>CGT	p.H1047R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1047	PI3K/PI4K.		H -> L (in cancer).|H -> R (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; requires binding to p85 regulatory subunit to induce cellular transformation but not interaction with RAS; may mimic the conformatitonal change triggered by the interaction with RAS; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells; increases lipid kinase activity; may alter the interaction of the PI3K/ PI4K kinase domain with the cell membrane).|H -> Y (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.H1047R(1269)|p.H1047L(152)|p.H1047Y(31)|p.H1047Q(3)|p.H1047T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AATGATGCACATCATGGTGGC	0.378	H1047R(BT20_BREAST)|H1047R(NCIH1048_LUNG)|H1047R(MCAS_OVARY)|H1047R(HCC1954_BREAST)|H1047R(RKO_LARGE_INTESTINE)|H1047L(EFM19_BREAST)|H1047R(CAL33_UPPER_AERODIGESTIVE_TRACT)|H1047R(CAL29_URINARY_TRACT)|H1047R(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|H1047R(LS180_LARGE_INTESTINE)|H1047R(T47D_BREAST)|H1047R(HCT116_LARGE_INTESTINE)|H1047R(HSC2_UPPER_AERODIGESTIVE_TRACT)|H1047R(SKOV3_OVARY)|H1047R(MDAMB453_BREAST)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			21	70					0	0	0.004656	0	0		G	178952085	G	G	178952085	3	3	19	1	0	0	0	0	1	0	0	0	11932	217	8	3	3218	3	PIK3CA	3	178952085	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	34426	178952085	19070345	691	14204											
PEX5L	51555	broad.mit.edu	37	chr3	179519754	179519754	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagattgcaggatgaggAacttgctgctgattcctgct	9	11	12	9	0	0	3	0	2	0	1	1	6	1	5	2	2	5	4	2	2	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:179519754A>T	uc003fki.1	-	15	1873	c.1743T>A	c.(1741-1743)GTT>GTA	p.V581V	PEX5L_uc011bqd.1_Silent_p.V538V|PEX5L_uc011bqe.1_Silent_p.V389V|PEX5L_uc011bqf.1_Silent_p.V473V|PEX5L_uc003fkj.1_Silent_p.V546V|PEX5L_uc010hxd.1_Silent_p.V579V|PEX5L_uc011bqg.1_Silent_p.V557V|PEX5L_uc011bqh.1_Silent_p.V522V	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	581					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			CAGGATGAGGAACTTGCTGCT	0.463													6	269					0	0	0.001984	0	0		T	179519754	T	T	179519754	2	4	19	1	0	0	0	0	0	0	0	1	11768	233	9	5		5	PEX5L	3	179519754	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	567669	179519754	18502676	692	14205											
CCDC39	339829	broad.mit.edu	37	chr3	180377245	180377246	+	Frame_Shift_Del	DEL	CA	-	-																															aaacaactactttaccaaagCacagttatctatgtctccat																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:180377245_180377246delCA	uc010hxe.2	-	6	847_848	c.732_733delTG	c.(730-735)TGTGCTfs	p.C244fs	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	244_245	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TTTACCAAAGCACAGTTATCTA	0.327													20	44	---	---	---	---						.	-	180377246	-	-	180377245	7	5	19	1	0	1	0	1	0	0	0	0	2814	710	25	0	2152	0	CCDC39	3	180377245	Frame_Shift_Del	DEL	CA	TCGA-BR-4361-01A-01D-1158-08	857491	180377245	17645185	693	14206											
DNAJC19	131118	broad.mit.edu	37	chr3	180703754	180703754	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcataattcgtcgatgagcAtctcttattttccctttatt	9	18	5	9	2	1	1	0	1	1	0	5	2	2	1	1	0	2	2	1	0	3	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:180703754A>G	uc003fkt.2	-	5	380	c.240T>C	c.(238-240)GAT>GAC	p.D80D	DNAJC19_uc003fku.2_RNA	NM_145261	NP_660304	Q96DA6	TIM14_HUMAN	DnaJ homolog, subfamily C, member 19	80	J.|Mitochondrial matrix (Potential).				genitalia development|protein folding|protein targeting to mitochondrion|transmembrane transport|visual perception	integral to membrane|mitochondrial inner membrane	heat shock protein binding				0	all_cancers(143;3.12e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-36)|OV - Ovarian serous cystadenocarcinoma(80;1.55e-22)			GTCGATGAGCATCTCTTATTT	0.333													4	72					0	0	0.000602	0	0		G	180703754	G	G	180703754	2	3	19	1	0	0	0	0	0	0	0	1	4644	214	8	3		3	DNAJC19	3	180703754	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	326509	180703754	17318676	694	14207											
KLHL6	89857	broad.mit.edu	37	chr3	183209880	183209880	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgataacctcgttcttctcGtcccgcccgccggtgatgta	5	11	10	15	6	2	1	0	1	2	0	5	2	3	1	4	1	1	2	4	1	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:183209880G>A	uc003flr.2	-	7	1759	c.1701C>T	c.(1699-1701)GAC>GAT	p.D567D	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_3'UTR|KLHL6_uc010hxk.1_RNA	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	567	Kelch 6.									haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			CGTTCTTCTCGTCCCGCCCGC	0.672													26	79					0	0	0.013726	0	0		A	183209880	A	A	183209880	2	1	19	1	0	0	0	0	0	0	0	1	8409	1136	40	1		1	KLHL6	3	183209880	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2506126	183209880	14812550	695	14208											
YEATS2	55689	broad.mit.edu	37	chr3	183521069	183521069	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccagctgcttttctgcAaagtctgtggagcagtacta	9	12	11	9	0	2	0	0	0	2	0	2	2	2	1	1	1	6	5	1	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:183521069A>G	uc003fly.2	+	26	3723	c.3528A>G	c.(3526-3528)GCA>GCG	p.A1176A		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	1176					histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GCTTTTCTGCAAAGTCTGTGG	0.507													6	22					0	0	0.001984	0	0		G	183521069	G	G	183521069	2	3	19	1	0	0	0	0	0	0	0	1	17498	117	5	3		3	YEATS2	3	183521069	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	311189	183521069	14501361	696	14209											
ABCC5	10057	broad.mit.edu	37	chr3	183699621	183699621	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgttcatccgtggcggccacGcattttctcctgaaatatgc	7	12	9	13	4	2	1	1	1	1	0	4	1	3	1	3	2	1	2	3	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:183699621G>A	uc003fmg.2	-	8	1206	c.1041C>T	c.(1039-1041)TGC>TGT	p.C347C	ABCC5_uc011bqt.1_5'UTR|ABCC5_uc010hxl.2_Silent_p.C347C	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	347	ABC transmembrane type-1 1.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TGGCGGCCACGCATTTTCTCC	0.413													30	31					0	0	0.008361	0	0		A	183699621	A	A	183699621	2	1	19	1	0	0	0	0	0	0	0	1	56	1079	38	1		1	ABCC5	3	183699621	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	178552	183699621	14322809	697	14210											
DVL3	1857	broad.mit.edu	37	chr3	183881465	183881465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtggtgaaggaggagatctCggatgacaatgccaagctac	13	7	14	7	1	1	3	0	2	1	1	2	6	1	5	1	4	3	1	1	4	4	1	rs143411607		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:183881465C>T	uc003fms.2	+	2	322	c.182C>T	c.(181-183)TCG>TTG	p.S61L	DVL3_uc011bqw.1_Missense_Mutation_p.S61L|DVL3_uc003fmt.2_5'UTR|DVL3_uc003fmu.2_5'Flank	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	61	DIX.				canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			GAGGAGATCTCGGATGACAAT	0.567													46	96					0	0	0.01441	0	0		T	183881465	T	T	183881465	3	4	19	1	0	0	0	0	1	0	0	0	4843	893	31	1	188	1	DVL3	3	183881465	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	181844	183881465	14140965	698	14211											
PSMD2	5708	broad.mit.edu	37	chr3	184019395	184019395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgagtgcctcaagtatcGgctagtgggctcccaggagg	7	8	16	10	2	1	1	1	1	0	0	3	2	2	2	2	4	1	3	2	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:184019395G>A	uc003fnn.1	+	4	461	c.428G>A	c.(427-429)CGG>CAG	p.R143Q	PSMD2_uc011brj.1_5'UTR|PSMD2_uc011brk.1_Missense_Mutation_p.R13Q	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	143					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	CTCAAGTATCGGCTAGTGGGC	0.493													55	104					0	0	0.01441	0	0		A	184019395	A	A	184019395	3	1	19	1	0	0	0	0	1	0	0	0	12720	1116	39	1	442	1	PSMD2	3	184019395	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	137930	184019395	14003035	699	14212											
PSMD2	5708	broad.mit.edu	37	chr3	184019718	184019718	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcctctgctcactctggTgaaggaaatcgtcccctata	9	10	10	12	1	3	1	1	1	2	0	5	3	4	3	3	3	2	1	3	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:184019718T>C	uc003fnn.1	+	5	596	c.563T>C	c.(562-564)GTG>GCG	p.V188A	PSMD2_uc011brj.1_Missense_Mutation_p.V29A|PSMD2_uc011brk.1_Missense_Mutation_p.V58A	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	188					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	CTCACTCTGGTGAAGGAAATC	0.542													44	80					0	0	0.007835	0	0		C	184019718	C	C	184019718	3	2	19	1	0	0	0	0	1	0	0	0	12720	1696	59	3	581	3	PSMD2	3	184019718	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	323	184019718	14002712	700	14213											
VPS8	23355	broad.mit.edu	37	chr3	184769776	184769776	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccagaatgagaacttccAgctgcagctcattcctccac	10	10	6	15	0	1	2	1	1	0	2	5	3	5	2	4	0	4	3	4	0	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:184769776A>G	uc003fpb.1	+	47	4415	c.4244A>G	c.(4243-4245)CAG>CGG	p.Q1415R	VPS8_uc010hyd.1_Missense_Mutation_p.Q1325R|VPS8_uc010hye.1_Missense_Mutation_p.Q844R	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	1417							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			GAGAACTTCCAGCTGCAGCTC	0.567													3	61					0	0	0.004672	0	0		G	184769776	G	G	184769776	3	3	19	1	0	0	0	0	1	0	0	0	17244	188	7	3	4432	3	VPS8	3	184769776	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	750058	184769776	13252654	701	14214											
TMEM41A	90407	broad.mit.edu	37	chr3	185214708	185214708	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctggtgctccttccggtActctcgaaggacctcagaga	7	9	12	13	2	2	1	1	0	1	1	5	4	4	2	4	4	2	2	4	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:185214708A>G	uc003fpj.2	-	2	277	c.181T>C	c.(181-183)TAC>CAC	p.Y61H	TMEM41A_uc003fpk.2_Missense_Mutation_p.Y61H|TMEM41A_uc003fpl.2_Missense_Mutation_p.Y61H	NM_080652	NP_542383	Q96HV5	TM41A_HUMAN	transmembrane protein 41A precursor	61						integral to membrane					0	all_cancers(143;7.78e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			TCCTTCCGGTACTCTCGAAGG	0.587													3	8					0	0	0.004672	0	0		G	185214708	G	G	185214708	3	3	19	1	0	0	0	0	1	0	0	0	16189	391	14	3	629	3	TMEM41A	3	185214708	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	444932	185214708	12807722	702	14215											
DGKG	1608	broad.mit.edu	37	chr3	185867951	185867951	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccccatcatcatgggCgcttggttcttgtgagtaat	7	12	13	9	1	3	1	2	1	1	0	3	2	3	2	2	4	0	3	2	4	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:185867951C>T	uc003fqa.2	-	25	2841	c.2304G>A	c.(2302-2304)GCG>GCA	p.A768A	DGKG_uc003fqb.2_Silent_p.A729A|DGKG_uc003fqc.2_Silent_p.A743A|DGKG_uc011brx.1_Silent_p.A709A	NM_001346	NP_001337	P49619	DGKG_HUMAN	diacylglycerol kinase gamma isoform 1	768					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	all_cancers(143;3.26e-12)|Ovarian(172;0.0315)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)	GBM - Glioblastoma multiforme(93;0.0657)	Phosphatidylserine(DB00144)	TCATCATGGGCGCTTGGTTCT	0.458													12	19					0	0	0.00245	0	0		T	185867951	T	T	185867951	2	4	19	1	0	0	0	0	0	0	0	1	4475	755	27	1		1	DGKG	3	185867951	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	653243	185867951	12154479	703	14216											
DNAJB11	51726	broad.mit.edu	37	chr3	186301745	186301745	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggctttgagatggatattActcacttggatggtcacaag	10	14	11	6	0	2	1	2	1	0	1	2	4	2	3	0	4	1	1	0	4	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:186301745A>G	uc003fqi.2	+	8	1052	c.832A>G	c.(832-834)ACT>GCT	p.T278A		NM_016306	NP_057390	Q9UBS4	DJB11_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 11	278					protein folding	endoplasmic reticulum lumen	heat shock protein binding			ovary(1)|lung(1)	2	all_cancers(143;2.84e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.44e-20)	GBM - Glioblastoma multiforme(93;0.0476)		GATGGATATTACTCACTTGGA	0.383													7	88					0	0	0.001984	0	0		G	186301745	G	G	186301745	3	3	19	1	0	0	0	0	1	0	0	0	4622	391	14	3	862	3	DNAJB11	3	186301745	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	433794	186301745	11720685	704	14217											
HRG	3273	broad.mit.edu	37	chr3	186395646	186395646	+	Frame_Shift_Del	DEL	T	-	-																															ggtttccacaagtttccatgTtttttacacatacatttcca																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:186395646delT	uc003fqq.2	+	7	1575	c.1552delT	c.(1552-1554)TTTfs	p.F518fs		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	518					fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		AGTTTCCATGTTTTTTACACA	0.348													47	107	---	---	---	---						.	-	186395646	-	-	186395646	7	5	19	1	0	1	0	1	0	0	0	0	7370	1725	60	0	1578	0	HRG	3	186395646	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	93901	186395646	11626784	705	14218											
KNG1	3827	broad.mit.edu	37	chr3	186459742	186459742	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aatggaaagcacaatggttgGaaaacagagcatttggcaag	17	7	12	5	0	0	1	0	0	0	1	0	3	0	3	0	4	3	4	0	4	6	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:186459742G>A	uc011bsa.1	+	10	1769	c.1557G>A	c.(1555-1557)TGG>TGA	p.W519*	KNG1_uc003fqr.2_Intron	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	519					blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	ACAATGGTTGGAAAACAGAGC	0.463													4	54					0	0	0.009096	0	0		A	186459742	A	A	186459742	4	1	19	1	0	0	0	0	0	1	0	0	8443	1183	41	4	1595	4	KNG1	3	186459742	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	64096	186459742	11562688	706	14219											
LEPREL1	55214	broad.mit.edu	37	chr3	189711973	189711973	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatagggtccggcattctgTatcttcaacgaaatattctc	11	13	7	10	2	4	0	1	0	3	0	6	1	5	0	1	2	1	2	1	2	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:189711973T>C	uc011bsk.1	-	3	1121	c.733A>G	c.(733-735)ACA>GCA	p.T245A	LEPREL1_uc003fsg.2_Missense_Mutation_p.T64A	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	245					collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	CGGCATTCTGTATCTTCAACG	0.418													33	67					0	0	0.004289	0	0		C	189711973	C	C	189711973	3	2	19	1	0	0	0	0	1	0	0	0	8746	1638	57	3	1445	3	LEPREL1	3	189711973	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3252231	189711973	8310457	707	14220											
GP5	2814	broad.mit.edu	37	chr3	194117602	194117602	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgggggcccgggcactcCgcgtcaccccccggcagggc	3	2	15	21	5	1	0	1	0	0	0	2	0	2	0	7	5	0	2	7	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:194117602C>T	uc003ftv.1	-	2	1441	c.1410G>A	c.(1408-1410)GCG>GCA	p.A470A		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	470	Extracellular (Potential).|LRRCT.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		ccgggcACTCCGCGTCACCCC	0.612													14	25					0	0	0.00245	0	0		T	194117602	T	T	194117602	2	4	19	1	0	0	0	0	0	0	0	1	6598	639	23	1		1	GP5	3	194117602	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4405629	194117602	3904828	708	14221											
LSG1	55341	broad.mit.edu	37	chr3	194369411	194369411	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgaatcacaacttacaTccataagctgtcaacagttc	14	11	5	11	0	2	2	2	2	0	0	4	2	3	2	1	0	4	2	1	0	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:194369411T>C	uc003fui.2	-	11	1857	c.1542A>G	c.(1540-1542)GGA>GGG	p.G514G		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	514					nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		ACAACTTACATCCATAAGCTG	0.368													34	72					0	0	0.009718	0	0		C	194369411	C	C	194369411	2	2	19	1	0	0	0	0	0	0	0	1	9067	1449	50	3		3	LSG1	3	194369411	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	251809	194369411	3653019	709	14222											
LSG1	55341	broad.mit.edu	37	chr3	194371733	194371733	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggacagtcacacaggcagagGccaggctccacatagagagt	13	4	13	11	0	1	2	1	0	0	2	2	4	2	3	2	4	0	2	2	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:194371733G>A	uc003fui.2	-	10	1611	c.1296C>T	c.(1294-1296)GGC>GGT	p.G432G		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	432	G.				nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		ACAGGCAGAGGCCAGGCTCCA	0.493													21	48					0	0	0.010504	0	0		A	194371733	A	A	194371733	2	1	19	1	0	0	0	0	0	0	0	1	9067	1190	42	2		2	LSG1	3	194371733	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2322	194371733	3650697	710	14223											
FAM43A	131583	broad.mit.edu	37	chr3	194407863	194407863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggagcaagagcgaggcggGccgtcagggcaccaagatga	11	3	17	10	3	1	3	1	1	0	2	1	5	1	4	2	4	2	2	2	4	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:194407863G>A	uc003fuj.2	+	1	1242	c.308G>A	c.(307-309)GGC>GAC	p.G103D		NM_153690	NP_710157	Q8N2R8	FA43A_HUMAN	hypothetical protein LOC131583	103										central_nervous_system(1)	1	all_cancers(143;2.04e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.147)	OV - Ovarian serous cystadenocarcinoma(49;8.37e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;1.78e-05)		AGCGAGGCGGGCCGTCAGGGC	0.682													19	45					0	0	0.008871	0	0		A	194407863	A	A	194407863	3	1	19	1	0	0	0	0	1	0	0	0	5576	1203	42	2	310	2	FAM43A	3	194407863	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	36130	194407863	3614567	711	14224											
C3orf21	152002	broad.mit.edu	37	chr3	194790661	194790661	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaggtggccgcggaagtggTacttgtcggccagctgctgc	5	8	17	11	4	0	0	0	0	0	0	1	2	0	1	2	5	4	3	2	5	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:194790661T>C	uc003fum.3	-	4	1073	c.965A>G	c.(964-966)TAC>TGC	p.Y322C	C3orf21_uc003ful.2_Missense_Mutation_p.Y119C|C3orf21_uc003fuk.2_Missense_Mutation_p.Y116C	NM_152531	NP_689744	Q8NBI6	CC021_HUMAN	hypothetical protein LOC152002	322						integral to membrane	transferase activity, transferring glycosyl groups				0	all_cancers(143;9.33e-09)|Ovarian(172;0.0634)		Epithelial(36;1.73e-20)|all cancers(36;1.42e-18)|OV - Ovarian serous cystadenocarcinoma(49;1.56e-17)|Lung(62;0.000117)|LUSC - Lung squamous cell carcinoma(58;0.000146)	GBM - Glioblastoma multiforme(46;1.36e-05)		GCGGAAGTGGTACTTGTCGGC	0.642													9	68					0	0	0.013537	0	0		C	194790661	C	C	194790661	3	2	19	1	0	0	0	0	1	0	0	0	2217	1638	57	3	220	3	C3orf21	3	194790661	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	382798	194790661	3231769	712	14225											
PPP1R2	5504	broad.mit.edu	37	chr3	195245976	195245976	+	Frame_Shift_Del	DEL	T	-	-																															ttttcatttcaaattgtcgcTttttttctataagatgcaaa																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:195245976delT	uc003fup.2	-	5	786	c.410delA	c.(409-411)AAGfs	p.K137fs		NM_006241	NP_006232	P41236	IPP2_HUMAN	protein phosphatase 1, regulatory subunit 2	137					glycogen metabolic process|regulation of phosphoprotein phosphatase activity|regulation of signal transduction		protein binding|protein serine/threonine phosphatase inhibitor activity			urinary_tract(1)	1	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)		Epithelial(36;2.64e-22)|all cancers(36;2.69e-20)|OV - Ovarian serous cystadenocarcinoma(49;3.52e-19)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;9.55e-05)		AAATTGTCGCTTTTTTTCTAT	0.244													35	66	---	---	---	---						.	-	195245976	-	-	195245976	7	5	19	1	0	1	0	1	0	0	0	0	12392	1609	56	0	215	0	PPP1R2	3	195245976	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	455315	195245976	2776454	713	14226											
TFRC	7037	broad.mit.edu	37	chr3	195798336	195798336	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accaggtaaacaagtctaccGttcttatcaactatgatcac	14	11	5	11	1	4	1	2	1	2	0	4	1	4	1	2	1	3	2	2	1	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:195798336G>A	uc003fvz.3	-	6	901	c.618C>T	c.(616-618)AAC>AAT	p.N206N	TFRC_uc003fwa.3_Silent_p.N206N|TFRC_uc010hzy.2_Silent_p.N125N|TFRC_uc011btr.1_Translation_Start_Site	NM_003234	NP_003225	P02786	TFR1_HUMAN	transferrin receptor	206	Extracellular (Potential).				cellular iron ion homeostasis|endocytosis|interspecies interaction between organisms|proteolysis|transferrin transport|transmembrane transport	coated pit|endosome|integral to plasma membrane|melanosome	peptidase activity|transferrin receptor activity			ovary(3)	3	all_cancers(143;1.94e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.36e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.17e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00233)		CAAGTCTACCGTTCTTATCAA	0.388			T	BCL6	NHL								54	121					0	0	0.01441	0	0		A	195798336	A	A	195798336	2	1	19	1	0	0	0	0	0	0	0	1	15837	1136	40	1		1	TFRC	3	195798336	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	552360	195798336	2224094	714	14227											
PIGG	54872	broad.mit.edu	37	chr4	520905	520905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgctggtgcagagggggtGctcccctgtgtccaaggctg	4	10	17	10	0	0	1	0	0	0	1	2	1	2	1	3	4	3	4	3	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:520905G>A	uc003gak.3	+	10	2283	c.2147G>A	c.(2146-2148)TGC>TAC	p.C716Y	PIGG_uc003gaj.3_Missense_Mutation_p.C708Y|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Missense_Mutation_p.C583Y|PIGG_uc003gal.3_Missense_Mutation_p.C627Y	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	716	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						CAGAGGGGGTGCTCCCCTGTG	0.642													18	46					0	0	0.007413	0	0		A	520905	A	A	520905	3	1	19	1	0	0	0	0	1	0	0	0	11907	1319	46	2	2185	2	PIGG	4	520905	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08		520905	190633371	715	14228											
PDE6B	5158	broad.mit.edu	37	chr4	656356	656356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttcgccatggtgacagccgGcctgtgccatgacatcgacc	7	8	11	15	3	0	2	0	2	0	0	2	3	0	2	5	2	2	0	5	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:656356G>A	uc003gap.2	+	14	1834	c.1781G>A	c.(1780-1782)GGC>GAC	p.G594D	PDE6B_uc003gao.3_Missense_Mutation_p.G594D|PDE6B_uc011buy.1_Missense_Mutation_p.G315D|PDE6B_uc011buz.1_Missense_Mutation_p.G26D	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	594					cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						GTGACAGCCGGCCTGTGCCAT	0.592													6	85					0	0	0.00308	0	0		A	656356	A	A	656356	3	1	19	1	0	0	0	0	1	0	0	0	11665	1203	42	2	1835	2	PDE6B	4	656356	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	135451	656356	190497920	716	14229											
PDE6B	5158	broad.mit.edu	37	chr4	657603	657603	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccggcggcagcacgagcaCgtgatccacctgatggacat	11	5	12	13	4	0	2	0	2	0	0	1	4	1	3	3	3	3	3	3	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:657603C>T	uc003gap.2	+	16	2018	c.1965C>T	c.(1963-1965)CAC>CAT	p.H655H	PDE6B_uc003gao.3_Silent_p.H655H|PDE6B_uc011buy.1_Silent_p.H376H|PDE6B_uc011buz.1_Silent_p.H87H	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	655					cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						AGCACGAGCACGTGATCCACC	0.682													11	17					0	0	0.008291	0	0		T	657603	T	T	657603	2	4	19	1	0	0	0	0	0	0	0	1	11665	535	19	1		1	PDE6B	4	657603	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1247	657603	190496673	717	14230											
MFSD7	84179	broad.mit.edu	37	chr4	678549	678549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctctgaggtggagctggCagccccggcagagggcgggg	5	6	19	11	2	1	2	0	1	1	1	2	3	1	3	2	7	2	3	2	7	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:678549C>T	uc003gay.2	-	5	739	c.682G>A	c.(682-684)GCC>ACC	p.A228T	MFSD7_uc003gaw.2_5'UTR|MFSD7_uc003gax.2_Missense_Mutation_p.A228T|MFSD7_uc003gaz.2_Missense_Mutation_p.A109T|MFSD7_uc003gba.2_Missense_Mutation_p.A131T|MFSD7_uc003gbb.1_Missense_Mutation_p.A164T	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	228					transmembrane transport	integral to membrane					0						GTGGAGCTGGCAGCCCCGGCA	0.662													27	58					0	0	0.007291	0	0		T	678549	T	T	678549	3	4	19	1	0	0	0	0	1	0	0	0	9555	710	25	2	1021	2	MFSD7	4	678549	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	20946	678549	190475727	718	14231											
IDUA	3425	broad.mit.edu	37	chr4	996134	996134	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctcctgagcaacgacaaTgccttcctgagctaccaccc	9	7	8	17	2	0	2	0	2	0	0	2	3	2	2	5	0	5	3	5	0	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:996134T>C	uc003gby.2	+	8	1138	c.1050T>C	c.(1048-1050)AAT>AAC	p.N350N	IDUA_uc003gbz.2_RNA|IDUA_uc003gca.2_Silent_p.N372N	NM_000203	NP_000194	P35475	IDUA_HUMAN	alpha-L-iduronidase precursor	350			N -> I (in MPS1S).|Missing (in MPS1H).		disaccharide metabolic process	lysosome	cation binding|L-iduronidase activity				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)		Laronidase(DB00090)	GCAACGACAATGCCTTCCTGA	0.667													3	26					0	0	0.009096	0	0		C	996134	C	C	996134	2	2	19	1	0	0	0	0	0	0	0	1	7520	1461	51	3		3	IDUA	4	996134	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	317585	996134	190158142	719	14232											
CTBP1	1487	broad.mit.edu	37	chr4	1222118	1222118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacatcagggcccccacaGcctcgttcaggacctgcagc	8	6	11	16	1	2	0	2	0	0	0	3	1	2	1	4	3	4	3	4	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:1222118G>A	uc003gcv.1	-	3	374	c.209C>T	c.(208-210)GCT>GTT	p.A70V	CTBP1_uc003gct.1_Missense_Mutation_p.A51V|CTBP1_uc003gcu.1_Missense_Mutation_p.A59V	NM_001328	NP_001319	Q13363	CTBP1_HUMAN	C-terminal binding protein 1 isoform 1	70	Interaction with GLIS2 1 (By similarity).				interspecies interaction between organisms|negative regulation of cell proliferation|negative regulation of histone H4 acetylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone deacetylation|protein phosphorylation|regulation of cell cycle|regulation of transcription by chromatin organization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|viral genome replication|white fat cell differentiation	cytoplasm|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein C-terminus binding|protein domain specific binding|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00818)	Colorectal(103;0.2)		GGCCCCCACAGCCTCGTTCAG	0.622													20	100					0	0	0.00333	0	0		A	1222118	A	A	1222118	3	1	19	1	0	0	0	0	1	0	0	0	4000	971	34	2	1141	2	CTBP1	4	1222118	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	225984	1222118	189932158	720	14233											
KIAA1530	57654	broad.mit.edu	37	chr4	1348909	1348909	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccccgtttcgcagcgctTcacccgcgtcgggacccacg	5	6	10	20	7	1	0	1	0	0	0	3	1	1	1	4	1	1	3	4	1	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:1348909T>A	uc003gde.3	+	7	1499	c.1052T>A	c.(1051-1053)TTC>TAC	p.F351Y		NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	351											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			TCGCAGCGCTTCACCCGCGTC	0.627													12	19					0	0	0.013537	0	0		A	1348909	A	A	1348909	3	1	19	1	0	0	0	0	1	0	0	0	8257	1783	62	5	1074	5	KIAA1530	4	1348909	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	126791	1348909	189805367	721	14234											
KIAA1530	57654	broad.mit.edu	37	chr4	1374770	1374770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagctgcagaagcaggagCgcccgggtaggtctgggcaa	9	4	18	10	2	1	1	0	0	1	1	1	2	1	2	1	5	4	6	1	5	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:1374770C>T	uc003gde.3	+	12	2302	c.1855C>T	c.(1855-1857)CGC>TGC	p.R619C	KIAA1530_uc010ibv.2_Missense_Mutation_p.R170C	NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	619											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			GAAGCAGGAGCGCCCGGGTAG	0.667													6	30					0	0	0.001168	0	0		T	1374770	T	T	1374770	3	4	19	1	0	0	0	0	1	0	0	0	8257	768	27	1	1897	1	KIAA1530	4	1374770	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	25861	1374770	189779506	722	14235											
SH3BP2	6452	broad.mit.edu	37	chr4	2831652	2831652	+	Frame_Shift_Del	DEL	C	-	-																															actcaagtccttccacctgtCcccccgaggaccacccacat																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:2831652delC	uc003gfi.3	+	8	1139	c.1019delC	c.(1018-1020)TCCfs	p.S340fs	SH3BP2_uc011bvp.1_Frame_Shift_Del_p.S368fs|SH3BP2_uc003gfj.3_Frame_Shift_Del_p.S397fs|SH3BP2_uc003gfk.3_Frame_Shift_Del_p.S340fs|SH3BP2_uc003gfl.3_Frame_Shift_Del_p.S273fs|SH3BP2_uc003gfm.3_Frame_Shift_Del_p.S315fs	NM_001122681	NP_001116153	P78314	3BP2_HUMAN	SH3-domain binding protein 2 isoform a	340					signal transduction		SH3 domain binding|SH3/SH2 adaptor activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.164)		TTCCACCTGTCCCCCCGAGGA	0.622									Cherubism				50	102	---	---	---	---						.	-	2831652	-	-	2831652	7	5	19	1	0	1	0	1	0	0	0	0	14270	855	30	0	1304	0	SH3BP2	4	2831652	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	1456882	2831652	188322624	723	14236											
HTT	3064	broad.mit.edu	37	chr4	3234904	3234904	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctaggacaaggccgtggcGgagcctgtcagccgcctgct	6	6	15	14	3	1	0	1	0	0	0	1	2	1	2	5	4	3	1	5	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:3234904G>A	uc011bvq.1	+	62	8431	c.8286G>A	c.(8284-8286)GCG>GCA	p.A2762A		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2760					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		AGGCCGTGGCGGAGCCTGTCA	0.677													33	100					0	0	0.007835	0	0		A	3234904	A	A	3234904	2	1	19	1	0	0	0	0	0	0	0	1	7473	1103	39	1		1	HTT	4	3234904	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	403252	3234904	187919372	724	14237											
RGS12	6002	broad.mit.edu	37	chr4	3318646	3318646	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctccaacctggagtccgAcagcttgcaagccatccgcg	9	6	11	15	3	0	0	0	0	0	0	3	3	3	1	5	1	5	3	5	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:3318646A>C	uc003ggw.2	+	2	1653	c.749A>C	c.(748-750)GAC>GCC	p.D250A	RGS12_uc003ggu.2_Missense_Mutation_p.D250A|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Missense_Mutation_p.D250A|RGS12_uc003ggx.1_Missense_Mutation_p.D250A	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	250	PID.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CTGGAGTCCGACAGCTTGCAA	0.552													5	60					0	0	0.00308	0	0		C	3318646	C	C	3318646	3	2	19	1	0	0	0	0	1	0	0	0	13320	275	10	5	751	5	RGS12	4	3318646	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	83742	3318646	187835630	725	14238											
RGS12	6002	broad.mit.edu	37	chr4	3424186	3424186	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcccggatgggacatcctgCgtggtggctgtcaaggcggg	5	8	17	11	3	1	0	1	0	0	0	3	2	3	2	2	6	1	1	2	6	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:3424186C>T	uc003ggw.2	+	11	3826	c.2922C>T	c.(2920-2922)TGC>TGT	p.C974C	RGS12_uc003ggv.2_Silent_p.C974C|RGS12_uc003ggy.1_Silent_p.C372C|RGS12_uc003ggz.2_Silent_p.C326C|RGS12_uc010icu.1_Silent_p.C173C|RGS12_uc011bvs.1_Silent_p.C316C|RGS12_uc003gha.2_Silent_p.C316C|RGS12_uc010icv.2_Silent_p.C173C|RGS12_uc003ghb.2_Silent_p.C173C	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	974	RBD 1.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GGACATCCTGCGTGGTGGCTG	0.632													8	24					0	0	0.010729	0	0		T	3424186	T	T	3424186	2	4	19	1	0	0	0	0	0	0	0	1	13320	776	27	1		1	RGS12	4	3424186	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	105540	3424186	187730090	726	14239											
RGS12	6002	broad.mit.edu	37	chr4	3430399	3430399	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctattgcaaagattgggAaaaaaaaatatcagaaaatt	22	10	6	3	0	2	2	1	0	1	2	2	3	2	3	0	1	1	1	0	1	10	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:3430399A>G	uc003ggw.2	+	16	4430	c.3526A>G	c.(3526-3528)AAA>GAA	p.K1176E	RGS12_uc003ggv.2_Missense_Mutation_p.K1176E|RGS12_uc003ggy.1_Intron|RGS12_uc003ggz.2_Missense_Mutation_p.K528E|RGS12_uc011bvs.1_Intron|RGS12_uc003gha.2_Missense_Mutation_p.K518E|RGS12_uc010icv.2_Missense_Mutation_p.K375E	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	1176						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		AAAGATTGGGAAAAAAAAATA	0.328													33	70					0	0	0.003755	0	0		G	3430399	G	G	3430399	3	3	19	1	0	0	0	0	1	0	0	0	13320	247	9	3	3642	3	RGS12	4	3430399	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	6213	3430399	187723877	727	14240											
ADRA2C	152	broad.mit.edu	37	chr4	3768793	3768793	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccgctactggtcggtgAcgcaggccgtcgagtacaac	8	7	14	12	5	0	1	0	1	0	0	2	3	0	2	2	4	3	3	2	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:3768793A>G	uc003ghm.2	+	1	498	c.460A>G	c.(460-462)ACG>GCG	p.T154A	ADRA2C_uc010icx.2_Missense_Mutation_p.T154A	NM_000683	NP_000674	P18825	ADA2C_HUMAN	alpha-2C-adrenergic receptor	154	Cytoplasmic (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation|regulation of insulin secretion	endosome|integral to plasma membrane	alpha-2A adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|protein heterodimerization activity|protein homodimerization activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)	Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	CTGGTCGGTGACGCAGGCCGT	0.642													6	25					0	0	0.001984	0	0		G	3768793	G	G	3768793	3	3	19	1	0	0	0	0	1	0	0	0	339	275	10	3	462	3	ADRA2C	4	3768793	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	338394	3768793	187385483	728	14241											
ADRA2C	152	broad.mit.edu	37	chr4	3769594	3769594	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcccggcccgctcttcaagTtcttcttctggatcggctac	4	13	9	15	3	5	0	1	0	4	0	6	1	5	1	2	3	2	3	2	3	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:3769594T>C	uc003ghm.2	+	1	1299	c.1261T>C	c.(1261-1263)TTC>CTC	p.F421L	ADRA2C_uc010icx.2_Intron	NM_000683	NP_000674	P18825	ADA2C_HUMAN	alpha-2C-adrenergic receptor	421	Helical; Name=7; (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation|regulation of insulin secretion	endosome|integral to plasma membrane	alpha-2A adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|protein heterodimerization activity|protein homodimerization activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)	Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	GCTCTTCAAGTTCTTCTTCTG	0.582													12	19					0	0	0.003163	0	0		C	3769594	C	C	3769594	3	2	19	1	0	0	0	0	1	0	0	0	339	1725	60	3	1263	3	ADRA2C	4	3769594	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	801	3769594	187384682	729	14242											
OTOP1	133060	broad.mit.edu	37	chr4	4199372	4199372	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccaggagcccgaggcagTgcccaccaagaggtccgagt	11	3	14	13	2	0	1	0	0	0	1	1	4	1	2	5	3	3	1	5	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:4199372T>C	uc003ghp.1	-	5	1219	c.1189A>G	c.(1189-1191)ACT>GCT	p.T397A		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	397	Helical; (Potential).				biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CCCGAGGCAGTGCCCACCAAG	0.592													40	82					0	0	0.010771	0	0		C	4199372	C	C	4199372	3	2	19	1	0	0	0	0	1	0	0	0	11324	1696	59	3	657	3	OTOP1	4	4199372	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	429778	4199372	186954904	730	14243											
EVC	2121	broad.mit.edu	37	chr4	5721059	5721059	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccccatcaaggaggaggAagagagaagtgcagatgtcg	13	5	15	8	1	1	3	1	0	0	3	3	7	2	6	2	3	1	2	2	3	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:5721059A>G	uc003gil.1	+	2	443	c.259A>G	c.(259-261)AAG>GAG	p.K87E	EVC_uc003gim.1_RNA	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	87					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				AAGGAGGAGGAAGAGAGAAGT	0.502													18	173					0	0	0.008871	0	0		G	5721059	G	G	5721059	3	3	19	1	0	0	0	0	1	0	0	0	5293	247	9	3	265	3	EVC	4	5721059	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1521687	5721059	185433217	731	14244											
WFS1	7466	broad.mit.edu	37	chr4	6293722	6293722	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcgcctggtcagcagcgAgtgtgagtgcagcccctgcc	6	6	16	13	2	1	1	1	1	0	0	1	3	1	2	4	2	6	2	4	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:6293722A>C	uc003giy.2	+	6	876	c.710A>C	c.(709-711)GAG>GCG	p.E237A	WFS1_uc003gix.2_Missense_Mutation_p.E237A|WFS1_uc003giz.2_Missense_Mutation_p.E55A	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	237					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		GTCAGCAGCGAGTGTGAGTGC	0.672													5	5					0	0	0.000602	0	0		C	6293722	C	C	6293722	3	2	19	1	0	0	0	0	1	0	0	0	17386	304	11	5	728	5	WFS1	4	6293722	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	572663	6293722	184860554	732	14245											
SLC2A9	56606	broad.mit.edu	37	chr4	9836622	9836622	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactcaccagtcaagatgaaCgggatgccacctgcagtgtg	12	7	11	11	1	2	2	2	1	0	1	2	3	2	3	3	1	4	1	3	1	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:9836622C>T	uc003gmc.2	-	11	1363	c.1302G>A	c.(1300-1302)CCG>CCA	p.P434P	SLC2A9_uc003gmd.2_Silent_p.P405P	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein	434	Helical; Name=10; (Potential).				glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						TCAAGATGAACGGGATGCCAC	0.542													18	50					0	0	0.010504	0	0		T	9836622	T	T	9836622	2	4	19	1	0	0	0	0	0	0	0	1	14577	523	19	1		1	SLC2A9	4	9836622	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3542900	9836622	181317654	733	14246											
NKX3-2	579	broad.mit.edu	37	chr4	13545707	13545707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggccccgctggcccccCgcgcgtccgcgcagcgccgc	1	2	15	23	9	0	0	0	0	0	0	1	0	1	0	8	3	1	2	8	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:13545707C>T	uc003gmx.2	-	1	408	c.332G>A	c.(331-333)CGG>CAG	p.R111Q		NM_001189	NP_001180	P78367	NKX32_HUMAN	NK3 homeobox 2	111					negative regulation of chondrocyte differentiation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						gctggccccccgcgcgtccgc	0.537													4	5					0	0	0.009096	0	0		T	13545707	T	T	13545707	3	4	19	1	0	0	0	0	1	0	0	0	10475	652	23	1	677	1	NKX3-2	4	13545707	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3709085	13545707	177608569	734	14247											
BOD1L	259282	broad.mit.edu	37	chr4	13602222	13602222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccttccatattttcttcaGttctcagagcatctgagaga	10	15	6	10	0	4	3	2	1	3	2	6	4	5	3	2	0	2	2	2	0	2	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:13602222G>A	uc003gmz.1	-	10	6419	c.6302C>T	c.(6301-6303)ACT>ATT	p.T2101I	BOD1L_uc010idr.1_Missense_Mutation_p.T1438I	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2101							DNA binding			ovary(5)|breast(1)	6						ATTTTCTTCAGTTCTCAGAGC	0.473													13	14					0	0	0.001855	0	0		A	13602222	A	A	13602222	3	1	19	1	0	0	0	0	1	0	0	0	1484	1029	36	4	2921	4	BOD1L	4	13602222	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	56515	13602222	177552054	735	14248											
TAPT1	202018	broad.mit.edu	37	chr4	16165119	16165119	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccttttgatgaataggttGtttggtgatggaggcagaca	9	15	13	4	0	0	4	0	3	0	1	1	5	1	5	1	4	0	3	1	4	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:16165119G>A	uc010ied.1	-	14	1597	c.1516C>T	c.(1516-1518)CAA>TAA	p.Q506*	TAPT1_uc011bxd.1_RNA|TAPT1_uc011bxe.1_Nonsense_Mutation_p.Q395*	NM_153365	NP_699196	Q6NXT6	TAPT1_HUMAN	transmembrane anterior posterior transformation	506						integral to membrane	growth hormone-releasing hormone receptor activity				0						TGAATAGGTTGTTTGGTGATG	0.353													25	51					0	0	0.00333	0	0		A	16165119	A	A	16165119	4	1	19	1	0	0	0	0	0	1	0	0	15579	1386	48	4	191	4	TAPT1	4	16165119	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2562897	16165119	174989157	736	14249											
SLIT2	9353	broad.mit.edu	37	chr4	20469438	20469438	+	Frame_Shift_Del	DEL	A	-	-																															ttccgtggggcagttgacatAaaaaatttgtaagtatctat																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:20469438delA	uc003gpr.1	+	5	663	c.459delA	c.(457-459)ATAfs	p.I153fs	SLIT2_uc003gps.1_Frame_Shift_Del_p.I153fs	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	153	LRR 5.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CAGTTGACATAAAAAATTTGT	0.294													14	30	---	---	---	---						.	-	20469438	-	-	20469438	7	5	19	1	0	1	0	1	0	0	0	0	14765	352	13	0	477	0	SLIT2	4	20469438	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	4304319	20469438	170684838	737	14250											
GPR125	166647	broad.mit.edu	37	chr4	22415356	22415356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgaagcttgtaaagagagtCatcagttggtctgagttctc	10	14	11	6	0	4	3	2	2	2	1	5	4	4	3	0	1	1	4	0	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:22415356C>T	uc003gqm.1	-	13	2156	c.1891G>A	c.(1891-1893)GAC>AAC	p.D631N	GPR125_uc010ieo.1_Missense_Mutation_p.D487N	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	631	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				TAAAGAGAGTCATCAGTTGGT	0.388													32	57					0	0	0.003271	0	0		T	22415356	T	T	22415356	3	4	19	1	0	0	0	0	1	0	0	0	6654	826	29	4	2102	4	GPR125	4	22415356	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1945918	22415356	168738920	738	14251											
GPR125	166647	broad.mit.edu	37	chr4	22422524	22422524	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catacctttagtgccagactCgaaaatgtatttgaaacatt	14	13	6	8	1	0	2	0	1	0	1	1	3	0	2	2	0	3	1	2	0	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:22422524C>T	uc003gqm.1	-	12	2059	c.1794G>A	c.(1792-1794)TCG>TCA	p.S598S	GPR125_uc010ieo.1_Silent_p.S472S|GPR125_uc003gqn.1_Silent_p.S372S|GPR125_uc003gqo.2_Silent_p.S598S	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	598	Extracellular (Potential).|LRR 5.				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				GTGCCAGACTCGAAAATGTAT	0.393													83	176					0	0	0.01441	0	0		T	22422524	T	T	22422524	2	4	19	1	0	0	0	0	0	0	0	1	6654	871	31	1		1	GPR125	4	22422524	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	7168	22422524	168731752	739	14252											
PPARGC1A	10891	broad.mit.edu	37	chr4	23815459	23815459	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatttgggtggtgacacagaAtctctacatggagagttaaa	13	11	12	5	0	1	3	0	1	1	2	2	5	1	3	0	3	1	1	0	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:23815459A>G	uc003gqs.2	-	8	1767	c.1647T>C	c.(1645-1647)GAT>GAC	p.D549D	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	549					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				GTGACACAGAATCTCTACATG	0.443													4	138					0	0	0.000602	0	0		G	23815459	G	G	23815459	2	3	19	1	0	0	0	0	0	0	0	1	12319	98	4	3		3	PPARGC1A	4	23815459	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1392935	23815459	167338817	740	14253											
RBPJ	3516	broad.mit.edu	37	chr4	26426078	26426078	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatgccagttcacagcagtGgggagccttttttattcatc	8	14	9	10	0	3	0	3	0	0	0	4	1	3	1	2	2	3	2	2	2	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:26426078G>A	uc003grx.1	+	7	886	c.650G>A	c.(649-651)TGG>TAG	p.W217*	RBPJ_uc003gry.1_Nonsense_Mutation_p.W202*|RBPJ_uc003grz.1_Nonsense_Mutation_p.W217*|RBPJ_uc011bxt.1_Nonsense_Mutation_p.W217*|RBPJ_uc003gsa.1_Nonsense_Mutation_p.W203*|RBPJ_uc003gsb.1_Nonsense_Mutation_p.W204*|RBPJ_uc003gsc.1_Nonsense_Mutation_p.W203*	NM_005349	NP_005340	Q06330	SUH_HUMAN	recombining binding protein suppressor of	217					DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)				TCACAGCAGTGGGGAGCCTTT	0.363													69	99					0	0	0.01441	0	0		A	26426078	A	A	26426078	4	1	19	1	0	0	0	0	0	1	0	0	13186	1357	47	4	735	4	RBPJ	4	26426078	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2610619	26426078	164728198	741	14254											
PCDH7	5099	broad.mit.edu	37	chr4	30723194	30723194	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgacgtccgcatcggcaaCgtggcttcagacctgggcat	7	7	13	14	5	1	1	1	0	0	1	3	2	2	1	3	3	1	4	3	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:30723194C>T	uc003gsk.1	+	1	1158	c.150C>T	c.(148-150)AAC>AAT	p.N50N	PCDH7_uc011bxw.1_Silent_p.N50N|PCDH7_uc011bxx.1_Silent_p.N50N	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	50	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GCATCGGCAACGTGGCTTCAG	0.677													8	19					0	0	0.010729	0	0		T	30723194	T	T	30723194	2	4	19	1	0	0	0	0	0	0	0	1	11535	535	19	1		1	PCDH7	4	30723194	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4297116	30723194	160431082	742	14255											
TBC1D1	23216	broad.mit.edu	37	chr4	38016291	38016291	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggctccgccggccctgatCgacgagtgcatcgagaagtt	9	7	13	12	5	0	2	0	1	0	1	3	5	1	2	3	2	1	3	3	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:38016291C>T	uc003gtb.2	+	3	922	c.579C>T	c.(577-579)ATC>ATT	p.I193I	TBC1D1_uc011byd.1_Silent_p.I193I|TBC1D1_uc010ifd.2_Intron|TBC1D1_uc011byf.1_Silent_p.I64I	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	193						nucleus	Rab GTPase activator activity			ovary(1)	1						CGGCCCTGATCGACGAGTGCA	0.672													39	80					0	0	0.010771	0	0		T	38016291	T	T	38016291	2	4	19	1	0	0	0	0	0	0	0	1	15622	874	31	1		1	TBC1D1	4	38016291	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	7293097	38016291	153137985	743	14256											
TBC1D1	23216	broad.mit.edu	37	chr4	38051444	38051444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaacctccacaacctgcccGggggtccccgggggtttcgc	5	6	14	16	3	0	0	0	0	0	0	3	1	2	1	6	5	3	1	6	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:38051444G>A	uc003gtb.2	+	11	2178	c.1835G>A	c.(1834-1836)CGG>CAG	p.R612Q	TBC1D1_uc011byd.1_Missense_Mutation_p.R612Q|TBC1D1_uc010ifd.2_Missense_Mutation_p.R359Q|TBC1D1_uc011byf.1_Missense_Mutation_p.R483Q	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	612						nucleus	Rab GTPase activator activity			ovary(1)	1						CAACCTGCCCGGGGGTCCCCG	0.547													42	88					0	0	0.013114	0	0		A	38051444	A	A	38051444	3	1	19	1	0	0	0	0	1	0	0	0	15622	1116	39	1	1873	1	TBC1D1	4	38051444	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	35153	38051444	153102832	744	14257											
TBC1D1	23216	broad.mit.edu	37	chr4	38119751	38119751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggccccagcctctacgctgCcccctggttcctcaccatgt	4	9	8	20	2	2	0	1	0	1	0	3	0	3	0	7	2	3	2	7	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:38119751C>T	uc003gtb.2	+	17	3243	c.2900C>T	c.(2899-2901)GCC>GTC	p.A967V	TBC1D1_uc011byd.1_Intron|TBC1D1_uc010ifd.2_Missense_Mutation_p.A754V|TBC1D1_uc003gtd.2_5'Flank	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	967	Rab-GAP TBC.					nucleus	Rab GTPase activator activity			ovary(1)	1						CTCTACGCTGCCCCCTGGTTC	0.537													17	234					0	0	0.010504	0	0		T	38119751	T	T	38119751	3	4	19	1	0	0	0	0	1	0	0	0	15622	739	26	2	2962	2	TBC1D1	4	38119751	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	68307	38119751	153034525	745	14258											
RPL9	6133	broad.mit.edu	37	chr4	39458157	39458157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acctcatcttgtaacggaagCcctatgttaaataaataagc	15	11	6	9	1	2	0	1	0	1	0	2	1	2	1	2	1	3	2	2	1	8	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:39458157C>T	uc003gub.2	-	4	408	c.260G>A	c.(259-261)GGC>GAC	p.G87D	RPL9_uc003guc.2_Missense_Mutation_p.G87D|RPL9_uc011byk.1_RNA|RPL9_uc011byl.1_Missense_Mutation_p.G87D|LIAS_uc003gue.3_5'Flank|LIAS_uc011bym.1_5'Flank|LIAS_uc003guf.2_5'Flank|LIAS_uc003gug.2_5'Flank|LIAS_uc003guh.2_5'Flank	NM_001024921	NP_001020092	P32969	RL9_HUMAN	ribosomal protein L9	87					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|nucleolus|ribosome	rRNA binding|structural constituent of ribosome			skin(1)	1						GTAACGGAAGCCCTATGTTAA	0.338													15	56					0	0	0.004007	0	0		T	39458157	T	T	39458157	3	4	19	1	0	0	0	0	1	0	0	0	13628	753	26	2	330	2	RPL9	4	39458157	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1338406	39458157	151696119	746	14259											
LIAS	11019	broad.mit.edu	37	chr4	39472857	39472857	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcttttcttcctacagcActtcgtgaggcagatgtaga	8	14	10	9	1	1	3	0	1	1	2	3	3	2	3	1	1	3	4	1	1	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:39472857A>G	uc003guf.2	+	9	958	c.885A>G	c.(883-885)GCA>GCG	p.A295A	LIAS_uc003gug.2_Silent_p.A295A|LIAS_uc003guh.2_Silent_p.A252A	NM_006859	NP_006850	O43766	LIAS_HUMAN	lipoic acid synthetase isoform 1 precursor	295					inflammatory response|response to lipopolysaccharide|response to oxidative stress	mitochondrion	4 iron, 4 sulfur cluster binding|lipoate synthase activity|metal ion binding				0					Lipoic Acid(DB00166)	TTCCTACAGCACTTCGTGAGG	0.338													50	80					0	0	0.01441	0	0		G	39472857	G	G	39472857	2	3	19	1	0	0	0	0	0	0	0	1	8794	173	6	3		3	LIAS	4	39472857	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	14700	39472857	151681419	747	14260											
UGDH	7358	broad.mit.edu	37	chr4	39512403	39512403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgagttttgcacaatgcGtctagcacaagcttcaatat	12	14	7	8	1	2	1	1	1	1	0	2	1	2	1	0	0	4	4	0	0	5	6	rs140504706	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:39512403G>A	uc003guk.1	-	4	659	c.343C>T	c.(343-345)CGC>TGC	p.R115C	UGDH_uc011byp.1_Missense_Mutation_p.R18C|UGDH_uc003gul.1_Intron	NM_003359	NP_003350	O60701	UGDH_HUMAN	UDP-glucose dehydrogenase	115					glycosaminoglycan biosynthetic process|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	electron carrier activity|NAD binding|UDP-glucose 6-dehydrogenase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4					NADH(DB00157)	TGCACAATGCGTCTAGCACAA	0.433													52	114					0	0	0.01441	0	0		A	39512403	A	A	39512403	3	1	19	1	0	0	0	0	1	0	0	0	16966	1145	40	1	1177	1	UGDH	4	39512403	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	39546	39512403	151641873	748	14261											
N4BP2	55728	broad.mit.edu	37	chr4	40104430	40104430	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtgtttctaccttccgAagggttcaacttcaagccac	9	13	8	11	1	3	1	2	1	1	0	4	2	4	1	3	1	3	2	3	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:40104430A>G	uc003guy.3	+	4	1303	c.965A>G	c.(964-966)GAA>GGA	p.E322G	N4BP2_uc010ifq.2_Missense_Mutation_p.E242G|N4BP2_uc010ifr.2_Missense_Mutation_p.E242G	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	322						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						CTACCTTCCGAAGGGTTCAAC	0.493													4	73					0	0	0.000602	0	0		G	40104430	G	G	40104430	3	3	19	1	0	0	0	0	1	0	0	0	10128	246	9	3	971	3	N4BP2	4	40104430	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	592027	40104430	151049846	749	14262											
CHRNA9	55584	broad.mit.edu	37	chr4	40356064	40356064	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaccatcatggtgatgaatAtccacttctgtggggccgag	9	11	12	9	1	2	3	1	3	1	0	3	4	3	3	3	3	0	0	3	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:40356064A>G	uc003gva.1	+	5	983	c.967A>G	c.(967-969)ATC>GTC	p.I323V		NM_017581	NP_060051	Q9UGM1	ACHA9_HUMAN	cholinergic receptor, nicotinic, alpha 9	323	Helical; (Potential).				elevation of cytosolic calcium ion concentration|synaptic transmission	cell junction|postsynaptic membrane	calcium channel activity|receptor activity			breast(3)|skin(3)|central_nervous_system(1)	7					Nicotine(DB00184)	GGTGATGAATATCCACTTCTG	0.502													35	313					0	0	0.004878	0	0		G	40356064	G	G	40356064	3	3	19	1	0	0	0	0	1	0	0	0	3392	449	16	3	985	3	CHRNA9	4	40356064	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	251634	40356064	150798212	750	14263											
GABRG1	2565	broad.mit.edu	37	chr4	46053588	46053588	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatccatcgcagtcacataAgaaaccttaggtaaagactt	16	9	7	9	1	1	3	1	0	0	3	3	3	2	3	2	1	1	2	2	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:46053588A>C	uc003gxb.2	-	8	1136	c.984T>G	c.(982-984)TCT>TCG	p.S328S		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	328					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		CAGTCACATAAGAAACCTTAG	0.373													5	68					0	0	0.000602	0	0		C	46053588	C	C	46053588	2	2	19	1	0	0	0	0	0	0	0	1	6185	59	3	5		5	GABRG1	4	46053588	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5697524	46053588	145100688	751	14264											
ATP10D	57205	broad.mit.edu	37	chr4	47556800	47556800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatttagtcagattacacctCggctctttatgccactagat	11	14	6	10	1	2	2	1	0	1	2	3	2	2	2	2	1	2	1	2	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:47556800C>T	uc003gxk.1	+	11	1857	c.1693C>T	c.(1693-1695)CGG>TGG	p.R565W	ATP10D_uc003gxl.1_Intron	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	565	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						GATTACACCTCGGCTCTTTAT	0.383													39	99					0	0	0.006999	0	0		T	47556800	T	T	47556800	3	4	19	1	0	0	0	0	1	0	0	0	1119	875	31	1	1731	1	ATP10D	4	47556800	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1503212	47556800	143597476	752	14265											
TXK	7294	broad.mit.edu	37	chr4	48115286	48115286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggtgtatttttctggaaGctcttcatctgtgctcaggc	5	16	11	9	0	5	0	2	0	3	0	5	1	5	1	0	3	2	3	0	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:48115286G>A	uc003gxx.3	-	3	198	c.112C>T	c.(112-114)CTT>TTT	p.L38F	TXK_uc003gxy.1_Missense_Mutation_p.L38F	NM_003328	NP_003319	P42681	TXK_HUMAN	TXK tyrosine kinase	38						cytoplasm	ATP binding|non-membrane spanning protein tyrosine kinase activity				0						TTTTCTGGAAGCTCTTCATCT	0.393													23	213					0	0	0.00333	0	0		A	48115286	A	A	48115286	3	1	19	1	0	0	0	0	1	0	0	0	16812	971	34	2	1523	2	TXK	4	48115286	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	558486	48115286	143038990	753	14266											
TEC	7006	broad.mit.edu	37	chr4	48148398	48148398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcacactaactgggtacCgaagcctggtgacaagtcct	10	10	9	12	1	1	1	1	1	0	0	2	2	2	1	3	2	3	1	3	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:48148398C>T	uc003gxz.2	-	12	1116	c.1025G>A	c.(1024-1026)CGG>CAG	p.R342Q		NM_003215	NP_003206	P42680	TEC_HUMAN	tec protein tyrosine kinase	342	SH2.				intracellular protein kinase cascade	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)	9						AACTGGGTACCGAAGCCTGGT	0.413													10	155					0	0	0.008291	0	0		T	48148398	T	T	48148398	3	4	19	1	0	0	0	0	1	0	0	0	15767	652	23	1	898	1	TEC	4	48148398	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	33112	48148398	143005878	754	14267											
FRYL	285527	broad.mit.edu	37	chr4	48501614	48501614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttcctgtctggcccagcGtctgatgatggaaatatata	10	12	10	9	1	2	2	0	2	2	0	3	3	3	3	2	2	2	1	2	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:48501614G>A	uc003gyh.1	-	64	9472	c.8867C>T	c.(8866-8868)ACG>ATG	p.T2956M	FRYL_uc003gye.1_Missense_Mutation_p.T138M|FRYL_uc003gyf.1_Missense_Mutation_p.T346M|FRYL_uc003gyg.1_Missense_Mutation_p.T1646M	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	2956					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						CTGGCCCAGCGTCTGATGATG	0.423													42	88					0	0	0.013114	0	0		A	48501614	A	A	48501614	3	1	19	1	0	0	0	0	1	0	0	0	6078	1145	40	1	178	1	FRYL	4	48501614	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	353216	48501614	142652662	755	14268											
LNX1	84708	broad.mit.edu	37	chr4	54327149	54327149	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttcagcagtcttgccaaGcaagcatgtatcattcctga	10	13	7	11	0	4	1	2	1	2	0	5	1	5	1	2	0	4	4	2	0	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:54327149G>A	uc003hag.3	-	11	2368	c.2112C>T	c.(2110-2112)TGC>TGT	p.C704C	PDGFRA_uc003haa.2_Intron|LNX1_uc003haf.3_Silent_p.C608C|LNX1_uc003hah.3_RNA	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	704	PDZ 4.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			GTCTTGCCAAGCAAGCATGTA	0.333													44	65					0	0	0.009718	0	0		A	54327149	A	A	54327149	2	1	19	1	0	0	0	0	0	0	0	1	8882	963	34	2		2	LNX1	4	54327149	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	5825535	54327149	136827127	756	14269											
KIT	3815	broad.mit.edu	37	chr4	55592140	55592140	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcattcaagcacaatggcacGgttgaatgtaaggcttacaa	14	9	10	8	1	1	1	1	1	0	0	1	1	1	1	0	3	2	6	0	3	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:55592140G>A	uc010igr.2	+	9	1551	c.1464G>A	c.(1462-1464)ACG>ACA	p.T488T	KIT_uc010igs.2_Silent_p.T488T|KIT_uc011bzw.1_5'Flank|KIT_uc010igt.1_5'Flank	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	488	Extracellular (Potential).|Ig-like C2-type 5.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	ACAATGGCACGGTTGAATGTA	0.398		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				24	67					0	0	0.00278	0	0		A	55592140	A	A	55592140	2	1	19	1	0	0	0	0	0	0	0	1	8345	1103	39	1		1	KIT	4	55592140	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1264991	55592140	135562136	757	14270											
KIT	3815	broad.mit.edu	37	chr4	55593613	55593613	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagtacagtggaaggttgTtgaggagataaatggaaaca	16	9	14	2	0	0	3	0	2	0	1	0	6	0	5	0	4	2	3	0	4	6	4	rs67104871		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:55593613T>C	uc010igr.2	+	11	1766	c.1679T>C	c.(1678-1680)GTT>GCT	p.V560A	KIT_uc010igs.2_Missense_Mutation_p.V556A|KIT_uc010igt.1_Missense_Mutation_p.V9A	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	560	Cytoplasmic (Potential).		Missing (in GIST; somatic mutation).		male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity	p.V560D(113)|p.V560del(44)|p.W557_E561del(36)|p.V560G(23)|p.V560_L576del(22)|p.V560E(18)|p.K558_E562del(16)|p.V559_E561del(15)|p.K558_V560del(13)|p.K558_V560>N(12)|p.W557_V560>C(11)|p.V559_G565del(11)|p.K558_G565>R(11)|p.Q556_V560del(10)|p.V559_V560del(9)|p.K558_D572del(9)|p.V559_T574del(6)|p.W557_Q575del(6)|p.Q556_V560>H(6)|p.K558_I563del(5)|p.Q556_D572del(5)|p.K558_V560>I(5)|p.W557_V560>F(4)|p.V555_P573del(4)|p.V555_I571del(4)|p.W557_V560del(4)|p.M552_D572del(4)|p.V555_V560del(4)|p.V560_I571del(3)|p.Q556_D572>H(3)|p.Y553_T574>S(3)|p.V560_E561del(3)|p.E554_D572>A(3)|p.Q556_L576del(3)|p.W557_E562del(3)|p.V555_D572del(3)|p.Q556_T574del(3)|p.K558_E561del(3)|p.Y553_E561>LK(2)|p.M552_E561>K(2)|p.V559_D572del(2)|p.W557_P573>S(2)|p.W557_T574del(2)|p.P551_V569del(2)|p.V560_Y578del(2)|p.V560A(2)|p.Y553_E561del(2)|p.Q556_N564>R(2)|p.V555_E562del(2)|p.V555_Q575del(2)|p.W557_D572del(2)|p.W557_N564del(2)|p.V559_E562del(2)|p.K558_N564del(2)|p.W557_I571del(2)|p.K558_Y570>N(2)|p.V559_N566>D(2)|p.Q556_N564>H(2)|p.K558_Q575del(1)|p.V555_Y570del(1)|p.M552_T574>TESA(1)|p.Q556_D572>PS(1)|p.Q556_I563del(1)|p.W557_I563>FP(1)|p.M552_V560del(1)|p.K558_N564>R(1)|p.K558_E561>NP(1)|p.V559_P573>A(1)|p.K558_D572>N(1)|p.E554_N564>D(1)|p.V559_L576del(1)|p.P551_E561>Q(1)|p.Y553_P573del(1)|p.K550_V560>L(1)|p.V555_V560>H(1)|p.W557_T575>CP(1)|p.E554_Y570del(1)|p.E554_E561del(1)|p.Q556_N566>SNNLQLY(1)|p.E554_I571del(1)|p.V560_Y568del(1)|p.V555_V560>T(1)|p.V555_V560>V(1)|p.W557_E561>PS(1)|p.Q556_L576>H(1)|p.K558_G565>A(1)|p.Q556_P573del(1)|p.K558_L576>NV(1)|p.E554_E562del(1)|p.Q556_V560>TTF(1)|p.K558_V560>R(1)|p.W557_I563>T(1)|p.K558_T574>NRS(1)|p.V559_I571del(1)|p.E554_D572del(1)|p.W557_Y570del(1)|p.V560V(1)|p.P551_V569>L(1)|p.K558_P573del(1)|p.Q556_N564del(1)|p.E554_V560>K(1)|p.E554_V560>D(1)|p.V559_S590del(1)|p.V555_N566>D(1)|p.V559_N564del(1)|p.Q556_V560>HNLQLY(1)|p.K558_L576del(1)|p.Y553_L576>NCLHLYSSQ(1)|p.K558_V560>M(1)|p.M552_Y570del(1)|p.K558_P573>R(1)|p.V555_G565del(1)|p.V555_I563del(1)|p.V560_N566del(1)|p.K558_G565del(1)|p.Q556_V560>F(1)|p.M552_I563del(1)|p.Q556_E561del(1)|p.V560_D572del(1)|p.V555_N564del(1)|p.Q556_E561>HH(1)|p.K550_Y568del(1)|p.E554_N564del(1)|p.V559_V569del(1)|p.Q556_E561>P(1)		soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TGGAAGGTTGTTGAGGAGATA	0.388		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				5	117					0	0	0.000602	0	0		C	55593613	C	C	55593613	3	2	19	1	0	0	0	0	1	0	0	0	8345	1725	60	3	1721	3	KIT	4	55593613	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1473	55593613	135560663	758	14271											
KDR	3791	broad.mit.edu	37	chr4	55968120	55968120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaacactgcatgcctggCaggtgtagaggccttcgtcc	9	8	12	12	1	0	2	0	0	0	2	2	2	1	2	3	3	3	3	3	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:55968120C>T	uc003has.2	-	15	2512	c.2210G>A	c.(2209-2211)TGC>TAC	p.C737Y	KDR_uc003hat.1_Missense_Mutation_p.C737Y	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	737	Ig-like C2-type 7.|Extracellular (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	GCATGCCTGGCAGGTGTAGAG	0.393			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			7	107					0	0	0.001984	0	0		T	55968120	T	T	55968120	3	4	19	1	0	0	0	0	1	0	0	0	8155	710	25	2	1924	2	KDR	4	55968120	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	374507	55968120	135186156	759	14272											
AASDH	132949	broad.mit.edu	37	chr4	57244456	57244456	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttctgctttttcttcatTgacatgctcagaacttatgc	7	19	5	10	0	5	2	2	1	3	1	5	2	5	2	0	0	4	2	0	0	2	7	rs79451123		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:57244456T>C	uc003hbn.2	-	4	679	c.526A>G	c.(526-528)AAT>GAT	p.N176D	AASDH_uc010ihb.2_5'UTR|AASDH_uc011caa.1_Missense_Mutation_p.N23D|AASDH_uc003hbo.2_Missense_Mutation_p.N76D|AASDH_uc011cab.1_Intron|AASDH_uc010ihc.2_Missense_Mutation_p.N176D|AASDH_uc003hbp.2_Missense_Mutation_p.N176D	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	176					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				TTTTCTTCATTGACATGCTCA	0.368													34	96					0	0	0.012213	0	0		C	57244456	C	C	57244456	3	2	19	1	0	0	0	0	1	0	0	0	22	1812	63	3	2818	3	AASDH	4	57244456	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1276336	57244456	133909820	760	14273											
SRP72	6731	broad.mit.edu	37	chr4	57340473	57340473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcctccaagaaggcacaCatgagctgtgctacaacact	12	7	10	12	0	0	2	0	1	0	1	1	2	1	2	2	2	4	3	2	2	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:57340473C>T	uc003hbv.2	+	5	566	c.526C>T	c.(526-528)CAT>TAT	p.H176Y	SRP72_uc010ihe.2_Missense_Mutation_p.H176Y|SRP72_uc003hbw.1_5'UTR	NM_006947	NP_008878	O76094	SRP72_HUMAN	signal recognition particle 72kDa	176					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|nucleolus|plasma membrane|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding			ovary(1)	1	Glioma(25;0.08)|all_neural(26;0.101)					AGAAGGCACACATGAGCTGTG	0.438													6	229					0	0	0.001984	0	0		T	57340473	T	T	57340473	3	4	19	1	0	0	0	0	1	0	0	0	15182	478	17	4	544	4	SRP72	4	57340473	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	96017	57340473	133813803	761	14274											
TECRL	253017	broad.mit.edu	37	chr4	65175608	65175608	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacaaataaggtttccaaaAggtatcggatgtagtgtata	16	11	10	4	1	0	0	0	0	0	0	2	2	1	1	1	3	1	4	1	3	9	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:65175608A>C	uc003hcv.2	-	6	702	c.593T>G	c.(592-594)CTT>CGT	p.L198R	TECRL_uc003hcw.2_Missense_Mutation_p.L198R	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	198					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						GGTTTCCAAAAGGTATCGGAT	0.343													27	77					0	0	0.008361	0	0		C	65175608	C	C	65175608	3	2	19	1	0	0	0	0	1	0	0	0	15771	72	3	5	526	5	TECRL	4	65175608	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	7835135	65175608	125978668	762	14275											
EPHA5	2044	broad.mit.edu	37	chr4	66280009	66280009	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	taaaatgacttacacactggGgtggtttcaaactcaaatct	14	12	7	8	0	3	1	2	1	1	0	3	1	3	1	0	3	2	1	0	3	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:66280009G>A	uc003hcy.2	-	7	1873	c.1680C>T	c.(1678-1680)ACC>ACT	p.T560T	EPHA5_uc003hcx.2_Silent_p.T491T|EPHA5_uc003hcz.2_Silent_p.T560T|EPHA5_uc011cah.1_Silent_p.T560T|EPHA5_uc011cai.1_Silent_p.T560T|EPHA5_uc003hda.2_Silent_p.T560T	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	560	Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TACACACTGGGGTGGTTTCAA	0.453										TSP Lung(17;0.13)			13	140					0	0	0.004007	0	0		A	66280009	A	A	66280009	2	1	19	1	0	0	0	0	0	0	0	1	5178	1219	43	4		4	EPHA5	4	66280009	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1104401	66280009	124874267	763	14276											
UBA6	55236	broad.mit.edu	37	chr4	68528931	68528931	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgtgaatctctaaaggTgcctattgagaacattaaaa	14	12	9	6	0	1	2	0	2	1	1	2	3	1	2	1	1	2	1	1	1	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:68528931T>C	uc003hdg.3	-	12	1015	c.963A>G	c.(961-963)GCA>GCG	p.A321A	UBA6_uc003hdi.2_Silent_p.A321A|UBA6_uc003hdj.2_3'UTR	NM_018227	NP_060697	A0AVT1	UBA6_HUMAN	ubiquitin-activating enzyme E1-like 2	321					protein ubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm	ATP binding|FAT10 activating enzyme activity|ligase activity|protein binding				0						TCTCTAAAGGTGCCTATTGAG	0.234													87	203					0	0	0.01441	0	0		C	68528931	C	C	68528931	2	2	19	1	0	0	0	0	0	0	0	1	16858	1683	59	3		3	UBA6	4	68528931	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2248922	68528931	122625345	764	14277											
SULT1B1	27284	broad.mit.edu	37	chr4	70615468	70615470	+	In_Frame_Del	DEL	GAA	-	-																															gttttcccagaaagatttagGaagaagatcagtcggtagat																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:70615468_70615470delGAA	uc003hen.2	-	4	642_644	c.344_346delTTC	c.(343-348)CTTCCT>CCT	p.L115del		NM_014465	NP_055280	O43704	ST1B1_HUMAN	sulfotransferase family, cytosolic, 1B, member	115					3'-phosphoadenosine 5'-phosphosulfate metabolic process|cellular biogenic amine metabolic process|flavonoid metabolic process|steroid metabolic process|sulfation|thyroid hormone metabolic process|xenobiotic metabolic process	cytosol					0						AAAGATTTAGGAAGAAGATCAGT	0.369													57	121	---	---	---	---						.	-	70615470	-	-	70615468	7	5	19	1	0	1	0	1	0	0	0	0	15401	1174	41	0	564	0	SULT1B1	4	70615468	In_Frame_Del	DEL	GAA	TCGA-BR-4361-01A-01D-1158-08	2086537	70615468	120538808	765	14278											
ANKRD17	26057	broad.mit.edu	37	chr4	73950975	73950975	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataaaactcaccatttgatgCtgatgaacacggagtcaaca	16	9	7	9	1	2	3	2	3	0	0	2	4	2	4	1	1	4	1	1	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:73950975C>T	uc003hgp.2	-	30	7267	c.7150G>A	c.(7150-7152)GCA>ACA	p.A2384T	ANKRD17_uc003hgo.2_Missense_Mutation_p.A2271T|ANKRD17_uc003hgq.2_Missense_Mutation_p.A2133T|ANKRD17_uc003hgr.2_Missense_Mutation_p.A2383T	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	2384					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CCATTTGATGCTGATGAACAC	0.413													115	259					0	0	0.01441	0	0		T	73950975	T	T	73950975	3	4	19	1	0	0	0	0	1	0	0	0	646	797	28	2	681	2	ANKRD17	4	73950975	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3335507	73950975	117203301	766	14279											
ANKRD17	26057	broad.mit.edu	37	chr4	73964088	73964088	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacgttttctggagtaatttTatttttcctgtttttcctct	6	23	5	7	1	2	0	0	0	2	0	4	1	4	1	2	1	1	3	2	1	3	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:73964088T>C	uc003hgp.2	-	26	4840	c.4723A>G	c.(4723-4725)AAA>GAA	p.K1575E	ANKRD17_uc003hgo.2_Missense_Mutation_p.K1462E|ANKRD17_uc003hgq.2_Missense_Mutation_p.K1324E|ANKRD17_uc003hgr.2_Missense_Mutation_p.K1574E	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1575					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GGAGTAATTTTATTTTTCCTG	0.373													7	180					0	0	0.001984	0	0		C	73964088	C	C	73964088	3	2	19	1	0	0	0	0	1	0	0	0	646	1763	61	3	3124	3	ANKRD17	4	73964088	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	13113	73964088	117190188	767	14280											
ANKRD17	26057	broad.mit.edu	37	chr4	74007512	74007512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggcaggtggtttgtcaggctCctgaggtggaacaaccatgg	8	9	16	8	0	1	1	1	1	0	0	2	2	2	2	2	7	2	3	2	7	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:74007512C>T	uc003hgp.2	-	14	2395	c.2278G>A	c.(2278-2280)GAG>AAG	p.E760K	ANKRD17_uc003hgo.2_Missense_Mutation_p.E647K|ANKRD17_uc003hgq.2_Missense_Mutation_p.E760K|ANKRD17_uc003hgr.2_Missense_Mutation_p.E760K|ANKRD17_uc011cbd.1_Missense_Mutation_p.E325K	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	760					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TTGTCAGGCTCCTGAGGTGGA	0.453													3	35					0	0	0.004672	0	0		T	74007512	T	T	74007512	3	4	19	1	0	0	0	0	1	0	0	0	646	864	30	4	5617	4	ANKRD17	4	74007512	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	43424	74007512	117146764	768	14281											
CXCL2	2920	broad.mit.edu	37	chr4	74964597	74964597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaggtgaattccctgcaggGtctgcaagcactggcagcgc	8	8	14	11	1	1	2	0	2	1	0	2	2	2	2	1	3	4	4	1	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:74964597G>A	uc003hhm.3	-	2	303	c.143C>T	c.(142-144)ACC>ATC	p.T48I		NM_002089	NP_002080	P19875	CXCL2_HUMAN	chemokine (C-X-C motif) ligand 2	48					chemotaxis|immune response|inflammatory response|response to molecule of bacterial origin	extracellular space|soluble fraction	chemokine activity				0	Breast(15;0.00612)		all cancers(17;0.00317)|Lung(101;0.196)			TCCCTGCAGGGTCTGCAAGCA	0.622													63	148					0	0	0.01441	0	0		A	74964597	A	A	74964597	3	1	19	1	0	0	0	0	1	0	0	0	4088	1261	44	4	192	4	CXCL2	4	74964597	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	957085	74964597	116189679	769	14282											
PPEF2	5470	broad.mit.edu	37	chr4	76793305	76793305	+	Frame_Shift_Del	DEL	A	-	-																															ttcatagtagttggaggcagAaaagattgttaatacctaca																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:76793305delA	uc003hix.2	-	13	1879	c.1522delT	c.(1522-1524)TCTfs	p.S508fs	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Frame_Shift_Del_p.S508fs	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	508	Catalytic.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TTGGAGGCAGAAAAGATTGTT	0.463													33	75	---	---	---	---						.	-	76793305	-	-	76793305	7	5	19	1	0	1	0	1	0	0	0	0	12327	246	9	0	759	0	PPEF2	4	76793305	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	1828708	76793305	114360971	770	14283											
SHROOM3	57619	broad.mit.edu	37	chr4	77661424	77661424	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgtgcagtcaacaccAaggcagaagaccctgggagg	12	4	12	13	0	1	2	1	0	0	2	1	3	1	3	4	3	2	2	4	3	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:77661424A>G	uc011cbx.1	+	5	3051	c.2098A>G	c.(2098-2100)AAG>GAG	p.K700E	SHROOM3_uc011cbz.1_Missense_Mutation_p.K524E|SHROOM3_uc003hkf.1_Missense_Mutation_p.K575E|SHROOM3_uc003hkg.2_Missense_Mutation_p.K478E	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	700					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			AGTCAACACCAAGGCAGAAGA	0.662													19	249					0	0	0.010504	0	0		G	77661424	G	G	77661424	3	3	19	1	0	0	0	0	1	0	0	0	14320	131	5	3	2116	3	SHROOM3	4	77661424	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	868119	77661424	113492852	771	14284											
CCNG2	901	broad.mit.edu	37	chr4	78081909	78081909	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtcttgcattggagtctgTtcttttttgctggctgctag	3	20	11	7	0	3	0	0	0	3	0	3	1	3	1	0	2	3	5	0	2	1	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:78081909T>C	uc003hkq.3	+	4	615	c.312T>C	c.(310-312)TGT>TGC	p.C104C	CCNG2_uc003hkn.3_Silent_p.C104C|CCNG2_uc011ccc.1_Silent_p.C104C|CCNG2_uc003hkp.3_Silent_p.C104C	NM_004354	NP_004345	Q16589	CCNG2_HUMAN	cyclin G2	104					cell cycle checkpoint|cell division|mitosis	cytoplasm				ovary(2)|lung(1)	3						TTGGAGTCTGTTCTTTTTTGC	0.373													11	245					0	0	0.010729	0	0		C	78081909	C	C	78081909	2	2	19	1	0	0	0	0	0	0	0	1	2927	1731	60	3		3	CCNG2	4	78081909	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	420485	78081909	113072367	772	14285											
FRAS1	80144	broad.mit.edu	37	chr4	79403543	79403543	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctttggtttctcttctagtAttgcaccttgactatcttgg	5	19	8	9	0	3	1	0	1	3	0	4	1	3	1	1	2	1	4	1	2	3	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:79403543A>G	uc003hlb.2	+	58	9046	c.8606A>G	c.(8605-8607)TAT>TGT	p.Y2869C		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2864	Calx-beta 3.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						CTCTTCTAGTATTGCACCTTG	0.468													98	216					0	0	0.01441	0	0		G	79403543	G	G	79403543	3	3	19	1	0	0	0	0	1	0	0	0	6056	463	16	3	8911	3	FRAS1	4	79403543	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1321634	79403543	111750733	773	14286											
PAQR3	152559	broad.mit.edu	37	chr4	79856329	79856329	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcttctctggacgcactTgctgaaggtaacacagatgt	12	11	9	9	1	2	2	0	1	2	1	3	3	2	3	0	2	2	3	0	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:79856329T>C	uc003hlp.1	-	2	498	c.294A>G	c.(292-294)GCA>GCG	p.A98A	PAQR3_uc003hlm.2_RNA|PAQR3_uc003hln.2_Intron|PAQR3_uc003hlq.1_Intron	NM_001040202	NP_001035292	Q6TCH7	PAQR3_HUMAN	progestin and adipoQ receptor family member III	98	Lumenal (Potential).					Golgi membrane|integral to membrane	receptor activity				0						TGGACGCACTTGCTGAAGGTA	0.368													5	201					0	0	0.000602	0	0		C	79856329	C	C	79856329	2	2	19	1	0	0	0	0	0	0	0	1	11455	1799	63	3		3	PAQR3	4	79856329	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	452786	79856329	111297947	774	14287											
PRKG2	5593	broad.mit.edu	37	chr4	82096098	82096098	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttattaagggcatctgtAatgagcttcttctcactggt	8	18	8	7	0	3	1	1	1	3	0	4	1	3	1	0	2	1	3	0	2	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:82096098A>G	uc003hmh.2	-	2	491	c.477T>C	c.(475-477)ATT>ATC	p.I159I	PRKG2_uc011cch.1_Silent_p.I159I	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	159					platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						GGGCATCTGTAATGAGCTTCT	0.338													67	123					0	0	0.01441	0	0		G	82096098	G	G	82096098	2	3	19	1	0	0	0	0	0	0	0	1	12545	358	13	3		3	PRKG2	4	82096098	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2239769	82096098	109058178	775	14288											
LIN54	132660	broad.mit.edu	37	chr4	83891603	83891603	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgatggagttccgggagtAgactgtgaaagaaccctacc	11	10	12	8	1	0	4	0	2	0	2	1	6	1	6	3	2	2	2	3	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:83891603A>G	uc003hnx.3	-	4	1206	c.828T>C	c.(826-828)TCT>TCC	p.S276S	LIN54_uc003hnz.3_Silent_p.S55S|LIN54_uc003hny.3_5'UTR|LIN54_uc010ijt.2_Intron|LIN54_uc010iju.2_5'UTR|LIN54_uc010ijv.2_Silent_p.S55S	NM_194282	NP_919258	Q6MZP7	LIN54_HUMAN	lin-54 homolog isoform a	276					cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Hepatocellular(203;0.114)				TTCCGGGAGTAGACTGTGAAA	0.358													11	171					0	0	0.010729	0	0		G	83891603	G	G	83891603	2	3	19	1	0	0	0	0	0	0	0	1	8826	407	15	3		3	LIN54	4	83891603	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1795505	83891603	107262673	776	14289											
HPSE	10855	broad.mit.edu	37	chr4	84222192	84222192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaaaaaggatagggtaaccGcaagtacttggtgacattat	16	9	11	5	1	0	2	0	1	0	1	0	3	0	3	1	3	2	3	1	3	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:84222192G>A	uc003hoj.3	-	11	1492	c.1393C>T	c.(1393-1395)CGG>TGG	p.R465W	HPSE_uc010ika.2_Missense_Mutation_p.R407W|HPSE_uc011ccq.1_RNA|HPSE_uc011ccr.1_RNA|HPSE_uc011ccs.1_Missense_Mutation_p.R208W|HPSE_uc011cct.1_Missense_Mutation_p.R391W|HPSE_uc003hok.3_Missense_Mutation_p.R465W	NM_001098540	NP_001092010	Q9Y251	HPSE_HUMAN	heparanase precursor	465					carbohydrate metabolic process|cell adhesion|proteoglycan metabolic process	extracellular region|lysosomal membrane|nucleus	beta-glucuronidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.114)		COAD - Colon adenocarcinoma(81;0.141)	Heparin(DB01109)	TAGGGTAACCGCAAGTACTTG	0.353													28	54					0	0	0.008361	0	0		A	84222192	A	A	84222192	3	1	19	1	0	0	0	0	1	0	0	0	7360	1086	38	1	246	1	HPSE	4	84222192	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	330589	84222192	106932084	777	14290											
WDFY3	23001	broad.mit.edu	37	chr4	85611684	85611684	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagggtgacggtcttggccTtttctttggaggtgcccatc	4	14	14	9	1	2	2	0	2	2	0	3	3	2	3	2	5	1	0	2	5	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:85611684T>A	uc003hpd.2	-	61	9746	c.9338A>T	c.(9337-9339)AAG>ATG	p.K3113M		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	3113	WD 1.					cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		GGTCTTGGCCTTTTCTTTGGA	0.512													8	119					0	0	0.006214	0	0		A	85611684	A	A	85611684	3	1	19	1	0	0	0	0	1	0	0	0	17296	1609	56	5	1274	5	WDFY3	4	85611684	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1389492	85611684	105542592	778	14291											
WDFY3	23001	broad.mit.edu	37	chr4	85658383	85658383	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagcttcttcaatgagtggCcttgctgtagctatgtccac	7	13	10	11	0	2	1	1	1	1	0	3	1	3	1	2	1	3	5	2	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:85658383C>T	uc003hpd.2	-	41	7119	c.6711G>A	c.(6709-6711)AGG>AGA	p.R2237R		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2237						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CAATGAGTGGCCTTGCTGTAG	0.438													27	98					0	0	0.00632	0	0		T	85658383	T	T	85658383	2	4	19	1	0	0	0	0	0	0	0	1	17296	738	26	2		2	WDFY3	4	85658383	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	46699	85658383	105495893	779	14292											
WDFY3	23001	broad.mit.edu	37	chr4	85719168	85719168	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctcatttctggttcataActcagtgaacttggtttgtg	7	18	8	8	0	4	1	3	1	2	0	5	1	4	1	0	2	2	2	0	2	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:85719168A>G	uc003hpd.2	-	18	3324	c.2916T>C	c.(2914-2916)AGT>AGC	p.S972S		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	972						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CTGGTTCATAACTCAGTGAAC	0.328													49	116					0	0	0.01441	0	0		G	85719168	G	G	85719168	2	3	19	1	0	0	0	0	0	0	0	1	17296	40	2	3		3	WDFY3	4	85719168	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	60785	85719168	105435108	780	14293											
KLHL8	57563	broad.mit.edu	37	chr4	88106783	88106783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaacagtcaaagtgagccGtgaagaatagacaaacttta	17	8	9	7	1	2	4	2	2	0	2	2	4	2	4	1	0	3	0	1	0	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:88106783G>A	uc011cdb.1	-	3	770	c.385C>T	c.(385-387)CGG>TGG	p.R129W	KLHL8_uc003hql.1_Missense_Mutation_p.R129W|KLHL8_uc003hqm.1_Intron|KLHL8_uc003hqn.1_Intron|KLHL8_uc010ikj.1_Intron	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8	129	BTB.										0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		AAAGTGAGCCGTGAAGAATAG	0.413													24	38					0	0	0.00278	0	0		A	88106783	A	A	88106783	3	1	19	1	0	0	0	0	1	0	0	0	8411	1144	40	1	1509	1	KLHL8	4	88106783	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2387615	88106783	103047493	781	14294											
HERC6	55008	broad.mit.edu	37	chr4	89311835	89311835	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttttcgtggggaaagaacagCcatgggcagctgggcttggg	8	9	17	7	1	0	1	0	0	0	1	1	2	0	2	1	5	3	3	1	5	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:89311835C>T	uc011cdi.1	+	4	651	c.468C>T	c.(466-468)AGC>AGT	p.S156S	HERC6_uc003hrp.1_RNA|HERC6_uc011cdj.1_Silent_p.S156S|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	156	RCC1 3.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		GAAAGAACAGCCATGGGCAGC	0.507													14	38					0	0	0.006122	0	0		T	89311835	T	T	89311835	2	4	19	1	0	0	0	0	0	0	0	1	7078	738	26	2		2	HERC6	4	89311835	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1205052	89311835	101842441	782	14295											
PDLIM5	10611	broad.mit.edu	37	chr4	95575764	95575764	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattctttgcccctgaatgTggtcgatgccaaaggaagat	12	11	10	8	1	1	2	0	1	1	1	2	4	1	3	3	2	2	0	3	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:95575764T>C	uc003hti.2	+	10	1588	c.1437T>C	c.(1435-1437)TGT>TGC	p.C479C	PDLIM5_uc011cdx.1_Silent_p.C376C|PDLIM5_uc003hth.2_Silent_p.C370C|PDLIM5_uc003htj.2_Silent_p.C154C|PDLIM5_uc003htk.2_Silent_p.C508C|PDLIM5_uc011cdy.1_Silent_p.C357C|PDLIM5_uc003htl.2_Silent_p.C154C	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	479	LIM zinc-binding 2.				regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		CCCCTGAATGTGGTCGATGCC	0.378													43	160					0	0	0.01441	0	0		C	95575764	C	C	95575764	2	2	19	1	0	0	0	0	0	0	0	1	11702	1702	59	3		3	PDLIM5	4	95575764	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	6263929	95575764	95578512	783	14296											
UNC5C	8633	broad.mit.edu	37	chr4	96166239	96166239	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacgtttctgataccctcGtccacagcggctgttacaca	8	12	8	13	3	1	1	0	1	1	0	3	1	2	1	2	1	4	4	2	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:96166239G>A	uc003htp.1	-	6	986	c.832C>T	c.(832-834)CGA>TGA	p.R278*	UNC5C_uc010ilc.1_Nonsense_Mutation_p.R278*|UNC5C_uc003htq.2_Nonsense_Mutation_p.R278*	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	278	Extracellular (Potential).|TSP type-1 1.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		TGATACCCTCGTCCACAGCGG	0.517													18	40					0	0	0.007413	0	0		A	96166239	A	A	96166239	4	1	19	1	0	0	0	0	0	1	0	0	17019	1153	40	1	2007	1	UNC5C	4	96166239	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	590475	96166239	94988037	784	14297											
ADH5	128	broad.mit.edu	37	chr4	99996121	99996121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagctggaatggacgagtgGcaatttcttcacctgaagca	11	9	11	10	1	2	1	1	1	1	0	2	4	2	3	2	3	2	3	2	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:99996121G>A	uc003hui.2	-	7	985	c.905C>T	c.(904-906)GCC>GTC	p.A302V	ADH5_uc003huj.2_Missense_Mutation_p.A180V	NM_000671	NP_000662	P11766	ADHX_HUMAN	class III alcohol dehydrogenase, chi subunit	302					ethanol oxidation|response to redox state		alcohol dehydrogenase (NAD) activity|electron carrier activity|fatty acid binding|formaldehyde dehydrogenase activity|S-(hydroxymethyl)glutathione dehydrogenase activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;2.5e-07)	NADH(DB00157)	TGGACGAGTGGCAATTTCTTC	0.507													77	180					0	0	0.01441	0	0		A	99996121	A	A	99996121	3	1	19	1	0	0	0	0	1	0	0	0	311	1203	42	2	231	2	ADH5	4	99996121	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3829882	99996121	91158155	785	14298											
ADH1A	124	broad.mit.edu	37	chr4	100203670	100203670	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttgatgtccaccgcaaTgattctggctgccccagctg	6	12	10	13	1	1	2	0	2	1	0	2	2	2	2	4	1	2	4	4	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:100203670T>A	uc003hur.1	-	6	732	c.661A>T	c.(661-663)ATT>TTT	p.I221F	uc003hum.1_Intron|ADH1A_uc011ceg.1_Missense_Mutation_p.I221F|ADH1A_uc010ilf.1_Missense_Mutation_p.I12F	NM_000667	NP_000658	P07327	ADH1A_HUMAN	class I alcohol dehydrogenase, alpha subunit	221					ethanol oxidation|transcription, DNA-dependent|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|protein binding|zinc ion binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(123;9.56e-08)	Fomepizole(DB01213)|NADH(DB00157)	TCCACCGCAATGATTCTGGCT	0.527													11	501					0	0	0.003163	0	0		A	100203670	A	A	100203670	3	1	19	1	0	0	0	0	1	0	0	0	307	1464	51	5	482	5	ADH1A	4	100203670	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	207549	100203670	90950606	786	14299											
RG9MTD2	93587	broad.mit.edu	37	chr4	100477370	100477370	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcctccgtggcttgtcAagtaaaactgataaaagatt	12	11	10	8	1	1	2	1	1	0	1	2	2	2	2	2	2	1	3	2	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:100477370A>G	uc003huy.2	-	5	741	c.428T>C	c.(427-429)TTG>TCG	p.L143S	RG9MTD2_uc003huz.3_Missense_Mutation_p.L143S|RG9MTD2_uc003hva.3_Missense_Mutation_p.L143S	NM_152292	NP_689505	Q8TBZ6	RG9D2_HUMAN	RNA (guanine-9-) methyltransferase domain	143							methyltransferase activity			ovary(2)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;1.7e-08)		GTGGCTTGTCAAGTAAAACTG	0.333													15	44					0	0	0.003163	0	0		G	100477370	G	G	100477370	3	3	19	1	0	0	0	0	1	0	0	0	13297	131	5	3	607	3	RG9MTD2	4	100477370	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	273700	100477370	90676906	787	14300											
RPL34	6164	broad.mit.edu	37	chr4	109543723	109543723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtccaaaacaaagaaacAtgtcagcagggcctatggtg	15	8	10	8	0	1	1	1	0	0	1	2	1	2	1	2	2	3	1	2	2	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:109543723A>G	uc003hyz.2	+	4	262	c.218A>G	c.(217-219)CAT>CGT	p.H73R	LOC285456_uc003hyy.2_5'Flank|LOC285456_uc011cfl.1_5'Flank|RPL34_uc003hza.2_Missense_Mutation_p.H73R	NM_000995	NP_000986	P49207	RL34_HUMAN	ribosomal protein L34	73					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000286)		ACAAAGAAACATGTCAGCAGG	0.358													7	148					0	0	0.00308	0	0		G	109543723	G	G	109543723	3	3	19	1	0	0	0	0	1	0	0	0	13608	217	8	3	228	3	RPL34	4	109543723	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	9066353	109543723	81610553	788	14301											
EGF	1950	broad.mit.edu	37	chr4	110901129	110901129	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttgaattgtttccaggTcacccatttgctgtagcagt	10	14	8	9	0	1	1	1	1	0	0	2	1	2	1	2	1	3	4	2	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:110901129T>C	uc003hzy.3	+	14	2507	c.2055T>C	c.(2053-2055)GGT>GGC	p.G685G	EGF_uc011cfu.1_Silent_p.G643G|EGF_uc011cfv.1_Silent_p.G685G|EGF_uc010imk.2_5'Flank	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	685	LDL-receptor class B 9.|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	TGTTTCCAGGTCACCCATTTG	0.388													31	171					0	0	0.012213	0	0		C	110901129	C	C	110901129	2	2	19	1	0	0	0	0	0	0	0	1	4968	1681	58	3		3	EGF	4	110901129	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1357406	110901129	80253147	789	14302											
ALPK1	80216	broad.mit.edu	37	chr4	113353418	113353418	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtcctcagcgaggactgCactaccacagaggaaggaaa	13	5	11	12	1	1	1	1	0	0	1	2	5	2	4	3	3	3	1	3	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:113353418C>T	uc003iap.3	+	11	2994	c.2715C>T	c.(2713-2715)TGC>TGT	p.C905C	ALPK1_uc003ian.3_Silent_p.C905C|ALPK1_uc011cfx.1_Silent_p.C827C|ALPK1_uc003iao.3_Intron|ALPK1_uc010imo.2_Silent_p.C733C	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	905							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		GCGAGGACTGCACTACCACAG	0.532													14	154					0	0	0.00245	0	0		T	113353418	T	T	113353418	2	4	19	1	0	0	0	0	0	0	0	1	544	718	25	2		2	ALPK1	4	113353418	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2452289	113353418	77800858	790	14303											
ALPK1	80216	broad.mit.edu	37	chr4	113356333	113356333	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaaaatattcaaaaaaaTctgaactgtggacggcccag	16	10	8	7	1	2	1	1	1	1	0	2	2	2	2	1	2	1	1	1	2	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:113356333T>A	uc003iap.3	+	12	3343	c.3064T>A	c.(3064-3066)TCT>ACT	p.S1022T	ALPK1_uc003ian.3_Missense_Mutation_p.S1022T|ALPK1_uc011cfx.1_Missense_Mutation_p.S944T|ALPK1_uc003iao.3_RNA|ALPK1_uc010imo.2_Missense_Mutation_p.S850T	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	1022	Alpha-type protein kinase.						ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		TTCAAAAAAATCTGAACTGTG	0.343													13	303					0	0	0.00245	0	0		A	113356333	A	A	113356333	3	1	19	1	0	0	0	0	1	0	0	0	544	1435	50	5	3102	5	ALPK1	4	113356333	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2915	113356333	77797943	791	14304											
NEUROG2	63973	broad.mit.edu	37	chr4	113436383	113436383	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcgccgtttgcaatcgtgTaccagacccagcagccgtgc	7	7	13	14	4	0	1	0	0	0	1	1	1	0	1	4	1	5	4	4	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:113436383T>C	uc003ias.2	-	2	576	c.249A>G	c.(247-249)GTA>GTG	p.V83V		NM_024019	NP_076924	Q9H2A3	NGN2_HUMAN	neurogenin 2	83					positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent	nucleus	E-box binding			skin(2)|central_nervous_system(1)	3		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.00168)		TGCAATCGTGTACCAGACCCA	0.517													4	15					0	0	0.000602	0	0		C	113436383	C	C	113436383	2	2	19	1	0	0	0	0	0	0	0	1	10372	1625	57	3		3	NEUROG2	4	113436383	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	80050	113436383	77717893	792	14305											
ANK2	287	broad.mit.edu	37	chr4	114275746	114275746	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaggaaaccatgtctgttcGggagctgatgaaggctttcc	9	11	13	8	1	1	3	0	3	1	0	3	5	2	5	2	3	2	3	2	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:114275746G>T	uc003ibe.3	+	38	6072	c.5972G>T	c.(5971-5973)CGG>CTG	p.R1991L	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_5'Flank|ANK2_uc011cgb.1_Missense_Mutation_p.R2006L	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1958					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		ATGTCTGTTCGGGAGCTGATG	0.463													64	150					1.26778e-28	1.35807e-28	0.01441	1	0		T	114275746	T	T	114275746	3	4	19	1	0	0	0	0	1	0	0	0	621	1116	39	5	6187	5	ANK2	4	114275746	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	839363	114275746	76878530	793	14306											
ANK2	287	broad.mit.edu	37	chr4	114277471	114277471	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaaaccagctgtgattcAtgaatgtgcagaggaggatg	14	8	12	7	0	1	3	1	2	0	1	1	5	1	5	2	2	3	2	2	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:114277471A>G	uc003ibe.3	+	38	7797	c.7697A>G	c.(7696-7698)CAT>CGT	p.H2566R	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Intron|ANK2_uc011cgb.1_Missense_Mutation_p.H2581R	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2533					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GCTGTGATTCATGAATGTGCA	0.433													54	142					0	0	0.01441	0	0		G	114277471	G	G	114277471	3	3	19	1	0	0	0	0	1	0	0	0	621	217	8	3	7912	3	ANK2	4	114277471	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1725	114277471	76876805	794	14307											
ANK2	287	broad.mit.edu	37	chr4	114277794	114277794	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacctgagttggcacagcttAaaaaaggtgctgactcaggc	13	8	11	9	0	1	2	1	2	0	0	1	2	1	2	1	3	3	4	1	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:114277794A>T	uc003ibe.3	+	38	8120	c.8020A>T	c.(8020-8022)AAA>TAA	p.K2674*	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Intron|ANK2_uc011cgb.1_Nonsense_Mutation_p.K2689*	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2641					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GGCACAGCTTAAAAAAGGTGC	0.493													34	79					0	0	0.010818	0	0		T	114277794	T	T	114277794	4	4	19	1	0	0	0	0	0	1	0	0	621	363	13	5	8235	5	ANK2	4	114277794	Nonsense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	323	114277794	76876482	795	14308											
SEC24D	9871	broad.mit.edu	37	chr4	119660424	119660424	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctttgaccactgattgTcgtgtaaagcacagcacact	10	13	7	11	1	2	2	0	2	2	0	3	2	2	2	1	0	2	3	1	0	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:119660424T>C	uc003ici.3	-	18	2529	c.2257A>G	c.(2257-2259)ACA>GCA	p.T753A	SEC24D_uc003ich.3_RNA|SEC24D_uc003icj.3_Missense_Mutation_p.T754A|SEC24D_uc003icl.2_RNA	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D	753					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0						CCACTGATTGTCGTGTAAAGC	0.398													6	216					0	0	0.001168	0	0		C	119660424	C	C	119660424	3	2	19	1	0	0	0	0	1	0	0	0	14022	1667	58	3	865	3	SEC24D	4	119660424	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	5382630	119660424	71493852	796	14309											
USP53	54532	broad.mit.edu	37	chr4	120192602	120192602	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagagtcgagcttctgcAcaaataataagttcaagtaa	15	10	7	9	1	3	1	2	0	1	1	4	2	3	1	1	0	2	4	1	0	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:120192602A>G	uc003ics.3	+	15	2653	c.1587A>G	c.(1585-1587)GCA>GCG	p.A529A	USP53_uc003icr.3_Silent_p.A529A|USP53_uc003icu.3_Silent_p.A152A|USP53_uc003ict.2_Silent_p.A152A	NM_019050	NP_061923	Q70EK8	UBP53_HUMAN	ubiquitin specific protease 53	529					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			ovary(1)|breast(1)|kidney(1)|skin(1)	4						GAGCTTCTGCACAAATAATAA	0.388													36	76					0	0	0.004289	0	0		G	120192602	G	G	120192602	2	3	19	1	0	0	0	0	0	0	0	1	17110	146	6	3		3	USP53	4	120192602	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	532178	120192602	70961674	797	14310											
BBS7	55212	broad.mit.edu	37	chr4	122749572	122749572	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacttttaaagcatcaatTaactgcactttcttagccaa	13	15	3	10	0	2	0	1	0	1	0	2	0	2	0	1	0	5	2	1	0	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:122749572T>C	uc003ied.2	-	17	2049	c.1875A>G	c.(1873-1875)TTA>TTG	p.L625L	BBS7_uc003iee.1_Silent_p.L625L	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	625					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						AAGCATCAATTAACTGCACTT	0.338									Bardet-Biedl_syndrome				27	153					0	0	0.003755	0	0		C	122749572	C	C	122749572	2	2	19	1	0	0	0	0	0	0	0	1	1342	1751	61	3		3	BBS7	4	122749572	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2556970	122749572	68404704	798	14311											
KIAA1109	84162	broad.mit.edu	37	chr4	123095782	123095782	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatggttcgtgaaatctatTacattacagaagacatgtct	13	14	7	7	1	3	3	1	1	2	2	4	3	3	3	0	1	2	1	0	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:123095782T>C	uc003ieh.2	+	3	313	c.268T>C	c.(268-270)TAC>CAC	p.Y90H		NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	90					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TGAAATCTATTACATTACAGA	0.284													25	54					0	0	0.004656	0	0		C	123095782	C	C	123095782	3	2	19	1	0	0	0	0	1	0	0	0	8224	1754	61	3	278	3	KIAA1109	4	123095782	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	346210	123095782	68058494	799	14312											
KIAA1109	84162	broad.mit.edu	37	chr4	123128729	123128729	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtggagaaacactaaacaTtgatttttctttgcctttta	11	17	6	7	0	1	2	0	1	1	1	1	3	1	2	1	1	3	0	1	1	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:123128729T>C	uc003ieh.2	+	15	1733	c.1688T>C	c.(1687-1689)ATT>ACT	p.I563T	KIAA1109_uc003iei.1_Missense_Mutation_p.I317T|KIAA1109_uc010ins.1_5'UTR|KIAA1109_uc003iej.1_5'Flank	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	563					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ACACTAAACATTGATTTTTCT	0.279													6	102					0	0	0.001984	0	0		C	123128729	C	C	123128729	3	2	19	1	0	0	0	0	1	0	0	0	8224	1493	52	3	1746	3	KIAA1109	4	123128729	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	32947	123128729	68025547	800	14313											
KIAA1109	84162	broad.mit.edu	37	chr4	123161262	123161262	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaggtggagaagatgatgtTatagaacatctatatattgt	14	15	10	2	0	1	4	0	1	1	3	1	5	1	4	0	2	1	1	0	2	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:123161262T>C	uc003ieh.2	+	27	4470	c.4425T>C	c.(4423-4425)GTT>GTC	p.V1475V	KIAA1109_uc003iei.1_Silent_p.V1228V|KIAA1109_uc010ins.1_Silent_p.V818V|KIAA1109_uc003iek.2_Silent_p.V94V	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1475					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAGATGATGTTATAGAACATC	0.408													9	95					0	0	0.004482	0	0		C	123161262	C	C	123161262	2	2	19	1	0	0	0	0	0	0	0	1	8224	1741	61	3		3	KIAA1109	4	123161262	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	32533	123161262	67993014	801	14314											
KIAA1109	84162	broad.mit.edu	37	chr4	123187969	123187969	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctcttctgagtcatacagGgatccagtcacaggatacaa	12	9	9	11	0	4	1	2	1	2	0	5	3	5	3	2	2	2	0	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:123187969G>T	uc003ieh.2	+	44	7394	c.7349G>T	c.(7348-7350)GGG>GTG	p.G2450V	KIAA1109_uc003iel.1_Missense_Mutation_p.G385V|KIAA1109_uc003iek.2_Missense_Mutation_p.G1069V	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2450					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGTCATACAGGGATCCAGTCA	0.393													61	150					5.96624e-29	6.39491e-29	0.01441	1	0		T	123187969	T	T	123187969	3	4	19	1	0	0	0	0	1	0	0	0	8224	1232	43	5	7523	5	KIAA1109	4	123187969	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	26707	123187969	67966307	802	14315											
KIAA1109	84162	broad.mit.edu	37	chr4	123193524	123193524	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatcagaactgaagaggAtccatggcagttttactctt	12	12	10	7	0	2	3	1	1	1	2	3	5	3	5	1	3	2	2	1	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:123193524A>T	uc003ieh.2	+	46	8455	c.8410A>T	c.(8410-8412)ATC>TTC	p.I2804F	KIAA1109_uc003iel.1_Missense_Mutation_p.I739F|KIAA1109_uc003iek.2_Missense_Mutation_p.I1423F	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2804					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ACTGAAGAGGATCCATGGCAG	0.368													7	41					0	0	0.001984	0	0		T	123193524	T	T	123193524	3	4	19	1	0	0	0	0	1	0	0	0	8224	333	12	5	8592	5	KIAA1109	4	123193524	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5555	123193524	67960752	803	14316											
KIAA1109	84162	broad.mit.edu	37	chr4	123202719	123202719	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtaaaagaagatattgcaAccccactaccttctgaaaaa	17	9	5	10	0	1	3	0	1	1	2	1	3	1	3	3	0	3	2	3	0	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:123202719A>G	uc003ieh.2	+	50	8872	c.8827A>G	c.(8827-8829)ACC>GCC	p.T2943A	KIAA1109_uc003iel.1_Missense_Mutation_p.T878A	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2943					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGATATTGCAACCCCACTACC	0.348													33	55					0	0	0.012213	0	0		G	123202719	G	G	123202719	3	3	19	1	0	0	0	0	1	0	0	0	8224	43	2	3	9025	3	KIAA1109	4	123202719	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	9195	123202719	67951557	804	14317											
KIAA1109	84162	broad.mit.edu	37	chr4	123271136	123271136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcacacaacaatttgatAccagcaaacgagctctgtct	13	12	5	11	1	3	1	1	1	2	0	3	2	3	1	1	0	5	2	1	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:123271136A>G	uc003ieh.2	+	78	13801	c.13756A>G	c.(13756-13758)ACC>GCC	p.T4586A	KIAA1109_uc003iem.2_Missense_Mutation_p.T942A	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4586					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ACAATTTGATACCAGCAAACG	0.398													26	198					0	0	0.010818	0	0		G	123271136	G	G	123271136	3	3	19	1	0	0	0	0	1	0	0	0	8224	391	14	3	14066	3	KIAA1109	4	123271136	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	68417	123271136	67883140	805	14318											
SPRY1	10252	broad.mit.edu	37	chr4	124323424	124323424	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgcatgtgcttagtcaaGggcatcttctaccactgctc	8	12	8	13	0	3	0	1	0	2	0	4	0	3	0	2	1	4	4	2	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:124323424G>T	uc003ifa.2	+	2	866	c.678G>T	c.(676-678)AAG>AAT	p.K226N	SPRY1_uc003ifb.2_Missense_Mutation_p.K226N	NM_199327	NP_955359	O43609	SPY1_HUMAN	sprouty homolog 1, antagonist of FGF signaling	226	Cys-rich.|SPR.				epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|lamellipodium|plasma membrane				skin(2)|ovary(1)	3						GCTTAGTCAAGGGCATCTTCT	0.507													8	170					1.12685e-05	1.15967e-05	0.004482	1	0		T	124323424	T	T	124323424	3	4	19	1	0	0	0	0	1	0	0	0	15130	991	35	5	680	5	SPRY1	4	124323424	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1052288	124323424	66830852	806	14319											
FAT4	79633	broad.mit.edu	37	chr4	126371136	126371136	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttcttaaaagtaaatatTtcactccagtcaccaaaaat	18	13	2	8	0	3	0	2	0	1	0	4	0	4	0	2	0	0	1	2	0	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:126371136T>C	uc003ifj.3	+	9	8965	c.8965T>C	c.(8965-8967)TTC>CTC	p.F2989L	FAT4_uc011cgp.1_Missense_Mutation_p.F1287L|FAT4_uc003ifi.1_Missense_Mutation_p.F467L	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2989	Extracellular (Potential).|Cadherin 29.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AAGTAAATATTTCACTCCAGT	0.343													6	103					0	0	0.001168	0	0		C	126371136	C	C	126371136	3	2	19	1	0	0	0	0	1	0	0	0	5706	1841	64	3	8999	3	FAT4	4	126371136	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2047712	126371136	64783140	807	14320											
HSPA4L	22824	broad.mit.edu	37	chr4	128732617	128732617	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcactattcagaatgttttTccacagtctgatggtgatag	10	16	8	7	0	3	3	2	2	1	1	4	3	4	3	1	1	0	1	1	1	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:128732617T>C	uc003ifm.2	+	12	1657	c.1404T>C	c.(1402-1404)TTT>TTC	p.F468F	HSPA4L_uc010iny.1_Silent_p.F427F|HSPA4L_uc011cgr.1_Silent_p.F435F	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	468					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						AGAATGTTTTTCCACAGTCTG	0.368													36	52					0	0	0.004878	0	0		C	128732617	C	C	128732617	2	2	19	1	0	0	0	0	0	0	0	1	7429	1780	62	3		3	HSPA4L	4	128732617	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2361481	128732617	62421659	808	14321											
PLK4	10733	broad.mit.edu	37	chr4	128819592	128819592	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttcttttgcttcacttAggtatggagaaaatgaaaaa	13	17	7	4	0	2	2	1	1	1	1	2	3	2	2	0	2	1	2	0	2	6	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:128819592A>G	uc003ifo.2	+	16	3056	c.2811_splice	c.e16-2	p.R937_splice	PLK4_uc011cgs.1_Splice_Site_p.R905_splice|PLK4_uc011cgt.1_Splice_Site_p.R896_splice	NM_014264	NP_055079	O00444	PLK4_HUMAN	polo-like kinase 4						G2/M transition of mitotic cell cycle|positive regulation of centriole replication|trophoblast giant cell differentiation	centriole|cleavage furrow|cytosol|nucleolus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						TGCTTCACTTAGGTATGGAGA	0.313													17	35					0	0	0.00499	0	0		G	128819592	G	G	128819592	5	3	19	1	0	0	0	0	0	0	1	0	12117	434	15	3	2871	3	PLK4	4	128819592	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	86975	128819592	62334684	809	14322											
PGRMC2	10424	broad.mit.edu	37	chr4	129193591	129193591	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagagatcatcatattcaTctctaagtgcatctttatct	11	16	5	9	0	6	2	3	1	3	1	7	3	6	2	0	0	1	1	0	0	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:129193591T>C	uc003igg.2	-	2	505	c.500A>G	c.(499-501)GAT>GGT	p.D167G		NM_006320	NP_006311			progesterone receptor membrane component 2												0						ATCATATTCATCTCTAAGTGC	0.378													16	32					0	0	0.006122	0	0		C	129193591	C	C	129193591	3	2	19	1	0	0	0	0	1	0	0	0	11826	1435	50	3	179	3	PGRMC2	4	129193591	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	373999	129193591	61960685	810	14323											
PCDH10	57575	broad.mit.edu	37	chr4	134072100	134072100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctcccccaggcactctcGtgatccagctcaacgccacc	8	7	6	20	2	3	1	1	1	2	0	6	1	4	1	5	1	2	2	5	1	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:134072100G>A	uc003iha.2	+	1	1631	c.805G>A	c.(805-807)GTG>ATG	p.V269M	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.V269M	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	269	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AGGCACTCTCGTGATCCAGCT	0.612													31	84					0	0	0.012213	0	0		A	134072100	A	A	134072100	3	1	19	1	0	0	0	0	1	0	0	0	11526	1145	40	1	807	1	PCDH10	4	134072100	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4878509	134072100	57082176	811	14324											
PCDH10	57575	broad.mit.edu	37	chr4	134084157	134084157	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctcttctccaattgcacTgaggaatgtaaagctctggg	10	12	10	9	0	3	1	0	1	3	0	5	3	3	2	1	2	2	3	1	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:134084157T>G	uc003iha.2	+	4	3649	c.2823T>G	c.(2821-2823)ACT>ACG	p.T941T		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	941	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CCAATTGCACTGAGGAATGTA	0.468													45	95					0	0	0.01441	0	0		G	134084157	G	G	134084157	2	3	19	1	0	0	0	0	0	0	0	1	11526	1567	55	5		5	PCDH10	4	134084157	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	12057	134084157	57070119	812	14325											
PCDH18	54510	broad.mit.edu	37	chr4	138442824	138442824	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagagtgtcccaggacccTgcactcctccgtgcagagtc	7	8	11	15	1	1	2	1	0	0	2	5	3	4	3	4	1	2	2	4	1	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:138442824T>C	uc003ihe.3	-	4	3154	c.2767A>G	c.(2767-2769)AGG>GGG	p.R923G	PCDH18_uc003ihf.3_Missense_Mutation_p.R915G|PCDH18_uc011cgz.1_Missense_Mutation_p.R134G|PCDH18_uc003ihg.3_Missense_Mutation_p.R702G|PCDH18_uc011cha.1_Missense_Mutation_p.R103G	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	923	Interaction with DAB1 (By similarity).|Cytoplasmic (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					CCCAGGACCCTGCACTCCTCC	0.458													57	165					0	0	0.01441	0	0		C	138442824	C	C	138442824	3	2	19	1	0	0	0	0	1	0	0	0	11532	1579	55	3	644	3	PCDH18	4	138442824	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4358667	138442824	52711452	813	14326											
CCRN4L	25819	broad.mit.edu	37	chr4	139964348	139964348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgacccagagcatctggagcCcattgatcctaaagagcttc	11	9	9	12	0	1	4	0	2	1	2	3	5	2	5	3	1	3	2	3	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:139964348C>T	uc003ihl.2	+	2	504	c.311C>T	c.(310-312)CCC>CTC	p.P104L	CCRN4L_uc003ihk.1_Missense_Mutation_p.P104L	NM_012118	NP_036250	Q9UK39	NOCT_HUMAN	CCR4 carbon catabolite repression 4-like	104					rhythmic process|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_hematologic(180;0.162)					CATCTGGAGCCCATTGATCCT	0.557													28	75					0	0	0.00632	0	0		T	139964348	T	T	139964348	3	4	19	1	0	0	0	0	1	0	0	0	2954	623	22	4	317	4	CCRN4L	4	139964348	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1521524	139964348	51189928	814	14327											
C4orf49	84709	broad.mit.edu	37	chr4	140189882	140189882	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatttgttttatgttctGtgtgtttggcttggtctgat	5	22	10	4	0	3	1	1	1	2	0	3	1	3	1	0	2	0	4	0	2	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:140189882G>C	uc003ihr.1	-	3	404	c.224C>G	c.(223-225)ACA>AGA	p.T75R		NM_032623	NP_116012	Q8TDB4	CD049_HUMAN	ovary-specific acidic protein	75						integral to membrane				central_nervous_system(1)|skin(1)	2						TTTATGTTCTGTGTGTTTGGC	0.303													39	95					0	0	0.011902	0	0		C	140189882	C	C	140189882	3	2	19	1	0	0	0	0	1	0	0	0	2278	1377	48	5	506	5	C4orf49	4	140189882	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	225534	140189882	50964394	815	14328											
MAML3	55534	broad.mit.edu	37	chr4	140640863	140640863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcccgtgttagcatccaCgactgactggctcagtccct	6	11	10	14	2	1	1	1	1	0	0	3	2	3	1	3	1	2	3	3	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:140640863C>T	uc003ihz.1	-	7	3768	c.3016G>A	c.(3016-3018)GTG>ATG	p.V1006M	MGST2_uc010ioi.1_Intron|MAML3_uc011chd.1_Missense_Mutation_p.V474M	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	1007					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					TTAGCATCCACGACTGACTGG	0.612													9	13					0	0	0.006214	0	0		T	140640863	T	T	140640863	3	4	19	1	0	0	0	0	1	0	0	0	9225	536	19	1	389	1	MAML3	4	140640863	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	450981	140640863	50513413	816	14329											
CLGN	1047	broad.mit.edu	37	chr4	141317347	141317347	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatcttctatttgggcaggTtcactttcatccctgtaaat	9	16	7	9	0	4	0	2	0	2	0	5	1	5	0	1	2	0	3	1	2	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:141317347T>C	uc011chi.1	-	10	1115	c.897A>G	c.(895-897)GAA>GAG	p.E299E	CLGN_uc003iii.2_Silent_p.E299E	NM_001130675	NP_001124147	O14967	CLGN_HUMAN	calmegin precursor	299	Lumenal (Potential).				protein folding	endoplasmic reticulum membrane|integral to membrane	calcium ion binding|unfolded protein binding			ovary(2)|skin(1)	3	all_hematologic(180;0.162)					TTTGGGCAGGTTCACTTTCAT	0.333													26	209					0	0	0.007291	0	0		C	141317347	C	C	141317347	2	2	19	1	0	0	0	0	0	0	0	1	3527	1722	60	3		3	CLGN	4	141317347	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	676484	141317347	49836929	817	14330											
CLGN	1047	broad.mit.edu	37	chr4	141323176	141323176	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctgctaggagtttaatgTatgcacctccacaatcaata	12	13	7	9	0	2	0	1	0	1	0	3	1	3	1	2	1	2	4	2	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:141323176T>C	uc011chi.1	-	7	682	c.464A>G	c.(463-465)TAC>TGC	p.Y155C	CLGN_uc003iii.2_Missense_Mutation_p.Y155C	NM_001130675	NP_001124147	O14967	CLGN_HUMAN	calmegin precursor	155	Lumenal (Potential).				protein folding	endoplasmic reticulum membrane|integral to membrane	calcium ion binding|unfolded protein binding			ovary(2)|skin(1)	3	all_hematologic(180;0.162)					GAGTTTAATGTATGCACCTCC	0.274													16	42					0	0	0.00499	0	0		C	141323176	C	C	141323176	3	2	19	1	0	0	0	0	1	0	0	0	3527	1638	57	3	1408	3	CLGN	4	141323176	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	5829	141323176	49831100	818	14331											
IL15	3600	broad.mit.edu	37	chr4	142651089	142651089	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcaagtattcatgatacAgtagaaaatctgatcatcct	15	12	7	7	0	3	3	2	2	1	1	4	4	4	3	1	0	2	3	1	0	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:142651089A>G	uc003iis.2	+	7	699	c.330A>G	c.(328-330)ACA>ACG	p.T110T	IL15_uc003iit.2_Silent_p.T110T|IL15_uc010iol.2_RNA|IL15_uc003iiu.2_RNA	NM_000585	NP_000576	P40933	IL15_HUMAN	interleukin 15 preproprotein	110					cell-cell signaling|immune response|positive regulation of interleukin-17 production	endosome|extracellular space|Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	cytokine activity|cytokine receptor binding|signal transducer activity				0	all_hematologic(180;0.158)					TTCATGATACAGTAGAAAATC	0.378													14	125					0	0	0.00245	0	0		G	142651089	G	G	142651089	2	3	19	1	0	0	0	0	0	0	0	1	7647	175	7	3		3	IL15	4	142651089	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1327913	142651089	48503187	819	14332											
USP38	84640	broad.mit.edu	37	chr4	144135635	144135635	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgatgaagcttcctgcacaAaattggtgccctatctatta	11	13	7	10	0	1	2	0	2	1	0	2	2	2	2	2	1	3	2	2	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:144135635A>G	uc003ijb.2	+	9	3040	c.2506A>G	c.(2506-2508)AAA>GAA	p.K836E	USP38_uc003ija.3_Missense_Mutation_p.K836E|USP38_uc003ijc.2_RNA	NM_032557	NP_115946	Q8NB14	UBP38_HUMAN	ubiquitin specific peptidase 38	836					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_hematologic(180;0.158)					TTCCTGCACAAAATTGGTGCC	0.398													26	62					0	0	0.004656	0	0		G	144135635	G	G	144135635	3	3	19	1	0	0	0	0	1	0	0	0	17095	15	1	3	2540	3	USP38	4	144135635	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1484546	144135635	47018641	820	14333											
TTC29	83894	broad.mit.edu	37	chr4	147824752	147824752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcggcttctttcttcccaCagtcaattttgatcagctga	7	15	6	13	1	4	2	2	2	2	0	6	2	5	2	2	1	1	2	2	1	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:147824752C>T	uc003ikw.3	-	6	757	c.530G>A	c.(529-531)TGT>TAT	p.C177Y	TTC29_uc010ipc.2_RNA|TTC29_uc003ikx.3_Missense_Mutation_p.C203Y|TTC29_uc010ipd.1_Missense_Mutation_p.C177Y	NM_031956	NP_114162	Q8NA56	TTC29_HUMAN	tetratricopeptide repeat domain 29	177							binding				0	all_hematologic(180;0.151)					TTTCTTCCCACAGTCAATTTT	0.448													12	22					0	0	0.001855	0	0		T	147824752	T	T	147824752	3	4	19	1	0	0	0	0	1	0	0	0	16722	478	17	4	929	4	TTC29	4	147824752	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3689117	147824752	43329524	821	14334											
MAB21L2	10586	broad.mit.edu	37	chr4	151504506	151504506	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcgatgggcggaagcggAgcatgtctctctgggtcgag	7	8	18	8	4	2	1	0	1	2	0	4	5	2	3	0	4	3	1	0	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:151504506A>G	uc003ilw.2	+	1	1430	c.325A>G	c.(325-327)AGC>GGC	p.S109G	LRBA_uc003ils.3_5'Flank|LRBA_uc003ilt.3_Intron|LRBA_uc003ilu.3_Intron|LRBA_uc010ipj.2_Intron	NM_006439	NP_006430	Q9Y586	MB212_HUMAN	mab-21-like protein 2	109					nervous system development	nucleus				ovary(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.159)		GCGGAAGCGGAGCATGTCTCT	0.622													5	107					0	0	0.000602	0	0		G	151504506	G	G	151504506	3	3	19	1	0	0	0	0	1	0	0	0	9160	304	11	3	327	3	MAB21L2	4	151504506	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3679754	151504506	39649770	822	14335											
FHDC1	85462	broad.mit.edu	37	chr4	153886120	153886120	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgcatcatgttcagaagActgctaggtgagcaagtgaa	14	10	11	6	0	2	4	2	2	0	2	2	4	2	4	0	1	3	4	0	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:153886120A>G	uc003inf.2	+	8	1168	c.1093A>G	c.(1093-1095)ACT>GCT	p.T365A		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	365	FH2.				actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					TGTTCAGAAGACTGCTAGGTG	0.308													20	86					0	0	0.014323	0	0		G	153886120	G	G	153886120	3	3	19	1	0	0	0	0	1	0	0	0	5890	275	10	3	1123	3	FHDC1	4	153886120	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2381614	153886120	37268156	823	14336											
DCHS2	54798	broad.mit.edu	37	chr4	155180907	155180907	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctttcacagtgagttgTcctatttttatttccaagga	8	18	8	7	0	2	1	1	1	1	0	4	2	4	2	2	2	0	2	2	2	3	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:155180907T>C	uc003inw.2	-	20	5214	c.5214A>G	c.(5212-5214)GGA>GGG	p.G1738G		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1738	Cadherin 15.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CAGTGAGTTGTCCTATTTTTA	0.264													30	50					0	0	0.008361	0	0		C	155180907	C	C	155180907	2	2	19	1	0	0	0	0	0	0	0	1	4291	1681	58	3		3	DCHS2	4	155180907	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1294787	155180907	35973369	824	14337											
DCHS2	54798	broad.mit.edu	37	chr4	155219676	155219676	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagtgtgggaaaagaaggActgtggtcattggcatccaa	14	9	13	5	0	1	1	1	0	0	1	2	3	2	3	1	4	0	1	1	4	6	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:155219676A>G	uc003inw.2	-	18	4425	c.4425T>C	c.(4423-4425)AGT>AGC	p.S1475S		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1475	Cadherin 12.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GAAAAGAAGGACTGTGGTCAT	0.473													58	135					0	0	0.01441	0	0		G	155219676	G	G	155219676	2	3	19	1	0	0	0	0	0	0	0	1	4291	272	10	3		3	DCHS2	4	155219676	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	38769	155219676	35934600	825	14338											
MAP9	79884	broad.mit.edu	37	chr4	156289783	156289783	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttttttctcagcttctaaTtgtatgccattcggcgttgg	5	18	9	9	2	2	0	1	0	2	0	4	0	2	0	1	2	2	4	1	2	2	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:156289783T>C	uc003ios.2	-	5	927	c.663A>G	c.(661-663)CAA>CAG	p.Q221Q	MAP9_uc011cin.1_Silent_p.Q220Q|MAP9_uc010iqa.1_RNA|MAP9_uc003iot.1_Silent_p.Q220Q|MAP9_uc010iqb.1_Silent_p.Q148Q	NM_001039580	NP_001034669	Q49MG5	MAP9_HUMAN	aster-associated protein	221					cell division|mitosis	cytoplasm|microtubule|spindle				ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.143)		CAGCTTCTAATTGTATGCCAT	0.398													18	39					0	0	0.012319	0	0		C	156289783	C	C	156289783	2	2	19	1	0	0	0	0	0	0	0	1	9288	1490	52	3		3	MAP9	4	156289783	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1070107	156289783	34864493	826	14339											
RXFP1	59350	broad.mit.edu	37	chr4	159568163	159568163	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatccttttagatgtgtgagAcctggaaaatgcagaacaat	14	12	9	6	0	0	3	0	1	0	3	1	5	1	4	2	1	2	1	2	1	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:159568163A>G	uc003ipz.2	+	16	1648	c.1566A>G	c.(1564-1566)AGA>AGG	p.R522R	RXFP1_uc011cja.1_Silent_p.R417R|RXFP1_uc010iqo.2_Silent_p.R474R|RXFP1_uc011cjb.1_Silent_p.R420R|RXFP1_uc010iqk.2_Silent_p.R390R|RXFP1_uc011cjc.1_Silent_p.R441R|RXFP1_uc011cjd.1_Silent_p.R441R|RXFP1_uc010iql.2_Silent_p.R366R|RXFP1_uc011cje.1_Silent_p.R549R|RXFP1_uc010iqm.2_Silent_p.R489R|RXFP1_uc011cjf.1_Silent_p.R391R|RXFP1_uc010iqn.2_Silent_p.R467R	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	522	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		GATGTGTGAGACCTGGAAAAT	0.343													5	79					0	0	0.000602	0	0		G	159568163	G	G	159568163	2	3	19	1	0	0	0	0	0	0	0	1	13784	272	10	3		3	RXFP1	4	159568163	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3278380	159568163	31586113	827	14340											
ETFDH	2110	broad.mit.edu	37	chr4	159627420	159627420	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattctgttagaaatataagAccgtcctgccacggagtact	12	12	8	9	2	1	2	0	0	1	2	2	3	2	3	3	1	2	2	3	1	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:159627420A>G	uc003iqb.2	+	11	1697	c.1365A>G	c.(1363-1365)AGA>AGG	p.R455R	ETFDH_uc011cjg.1_Silent_p.R408R|ETFDH_uc010iqr.2_Silent_p.R52R|ETFDH_uc011cjh.1_Silent_p.R394R|ETFDH_uc010iqs.2_Silent_p.R377R	NM_004453	NP_004444	Q16134	ETFD_HUMAN	electron-transferring-flavoprotein dehydrogenase	455					fatty acid beta-oxidation using acyl-CoA dehydrogenase|respiratory electron transport chain|response to oxidative stress|transport	integral to mitochondrial inner membrane|mitochondrial matrix	4 iron, 4 sulfur cluster binding|electron carrier activity|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity, oxidizing metal ions with flavin as acceptor|ubiquinone binding			large_intestine(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0172)		GAAATATAAGACCGTCCTGCC	0.383													5	98					0	0	0.000602	0	0		G	159627420	G	G	159627420	2	3	19	1	0	0	0	0	0	0	0	1	5279	272	10	3		3	ETFDH	4	159627420	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	59257	159627420	31526856	828	14341											
ETFDH	2110	broad.mit.edu	37	chr4	159629557	159629557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaacaaggtgatggatttCggttacagataaatgctcag	13	11	12	5	1	1	2	1	1	0	1	2	4	1	4	0	4	3	2	0	4	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:159629557C>T	uc003iqb.2	+	13	2064	c.1732C>T	c.(1732-1734)CGG>TGG	p.R578W	ETFDH_uc011cjg.1_Missense_Mutation_p.R531W|ETFDH_uc010iqr.2_Missense_Mutation_p.R175W|ETFDH_uc011cjh.1_Missense_Mutation_p.R517W|ETFDH_uc010iqs.2_Missense_Mutation_p.R500W	NM_004453	NP_004444	Q16134	ETFD_HUMAN	electron-transferring-flavoprotein dehydrogenase	578	4Fe-4S ferredoxin-type.				fatty acid beta-oxidation using acyl-CoA dehydrogenase|respiratory electron transport chain|response to oxidative stress|transport	integral to mitochondrial inner membrane|mitochondrial matrix	4 iron, 4 sulfur cluster binding|electron carrier activity|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity, oxidizing metal ions with flavin as acceptor|ubiquinone binding			large_intestine(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0172)		TGATGGATTTCGGTTACAGAT	0.318													37	83					0	0	0.00874	0	0		T	159629557	T	T	159629557	3	4	19	1	0	0	0	0	1	0	0	0	5279	875	31	1	1782	1	ETFDH	4	159629557	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2137	159629557	31524719	829	14342											
PPID	5481	broad.mit.edu	37	chr4	159636518	159636518	+	Frame_Shift_Del	DEL	T	-	-																															tgaaaaaagtatttccaatgTtttttaagtcttctgttatt																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:159636518delT	uc003iqc.2	-	6	795	c.683delA	c.(682-684)AACfs	p.N228fs		NM_005038	NP_005029	Q08752	PPID_HUMAN	peptidylprolyl isomerase D	228	TPR 1.				protein folding	cytoplasm|intermediate filament cytoskeleton	cyclosporin A binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0159)		ATTTCCAATGTTTTTTAAGTC	0.219													6	2	---	---	---	---						.	-	159636518	-	-	159636518	7	5	19	1	0	1	0	1	0	0	0	0	12343	1725	60	0	449	0	PPID	4	159636518	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	6961	159636518	31517758	830	14343											
PPID	5481	broad.mit.edu	37	chr4	159642617	159642617	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacgatatctgcaaacaatTctaagacaattcgaccaact	16	10	5	10	2	2	1	0	0	2	1	3	3	2	1	1	0	4	2	1	0	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:159642617T>G	uc003iqc.2	-	2	216	c.104A>C	c.(103-105)GAA>GCA	p.E35A		NM_005038	NP_005029	Q08752	PPID_HUMAN	peptidylprolyl isomerase D	35	PPIase cyclophilin-type.				protein folding	cytoplasm|intermediate filament cytoskeleton	cyclosporin A binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0159)		TGCAAACAATTCTAAGACAAT	0.368													3	52					0	0	0.009096	0	0		G	159642617	G	G	159642617	3	3	19	1	0	0	0	0	1	0	0	0	12343	1783	62	5	1044	5	PPID	4	159642617	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	6099	159642617	31511659	831	14344											
ANXA10	11199	broad.mit.edu	37	chr4	169013864	169013864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatcaaaatgttttgtggaGactatgtgagtataatgctt	12	15	9	5	0	1	2	1	1	0	1	1	3	1	2	1	1	1	3	1	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:169013864G>A	uc003irm.2	+	1	158	c.13G>A	c.(13-15)GAC>AAC	p.D5N		NM_007193	NP_009124	Q9UJ72	ANX10_HUMAN	annexin A10	5							calcium ion binding|calcium-dependent phospholipid binding				0		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0325)		GTTTTGTGGAGACTATGTGAG	0.289													6	72					0	0	0.001984	0	0		A	169013864	A	A	169013864	3	1	19	1	0	0	0	0	1	0	0	0	715	942	33	4	15	4	ANXA10	4	169013864	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	9371247	169013864	22140412	832	14345											
CLCN3	1182	broad.mit.edu	37	chr4	170611768	170611768	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtttccctggtaaaggtaTttgctccatatgcctgtggc	7	14	10	10	0	0	0	0	0	0	0	2	0	2	0	3	3	2	4	3	3	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:170611768T>C	uc003isi.2	+	6	1203	c.694T>C	c.(694-696)TTT>CTT	p.F232L	CLCN3_uc003ish.2_Missense_Mutation_p.F232L|CLCN3_uc011cjz.1_Missense_Mutation_p.F215L|CLCN3_uc011cka.1_Missense_Mutation_p.F232L|CLCN3_uc003isj.1_Missense_Mutation_p.F205L	NM_001829	NP_001820	P51790	CLCN3_HUMAN	chloride channel 3 isoform b	232	Helical; (By similarity).				endosomal lumen acidification	cell surface|early endosome membrane|Golgi membrane|integral to membrane|late endosome membrane|transport vesicle membrane	antiporter activity|ATP binding|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|voltage-gated chloride channel activity			breast(2)|ovary(1)	3		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0233)|LUSC - Lung squamous cell carcinoma(193;0.131)		GGTAAAGGTATTTGCTCCATA	0.368													29	65					0	0	0.009535	0	0		C	170611768	C	C	170611768	3	2	19	1	0	0	0	0	1	0	0	0	3467	1493	52	3	712	3	CLCN3	4	170611768	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1597904	170611768	20542508	833	14346											
HMGB2	3148	broad.mit.edu	37	chr4	174254362	174254362	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacttctcctttgcagacaTggtctgtggacataaaataa	12	12	8	9	1	2	1	0	0	2	1	3	3	2	2	1	2	1	1	1	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:174254362T>C	uc011ckc.1	-	2	274	c.154A>G	c.(154-156)ATG>GTG	p.M52V	HMGB2_uc003ita.3_Missense_Mutation_p.M52V|HMGB2_uc003itb.2_Missense_Mutation_p.M52V|HMGB2_uc003itc.2_Missense_Mutation_p.M52V	NM_001130689	NP_001124161	P26583	HMGB2_HUMAN	high-mobility group box 2	52	HMG box 1.				base-excision repair, DNA ligation|cell chemotaxis|cellular response to lipopolysaccharide|DNA fragmentation involved in apoptotic nuclear change|DNA topological change|negative regulation of transcription, DNA-dependent|nucleosome assembly|phosphatidylinositol-mediated signaling|positive regulation of DNA binding|positive regulation of endothelial cell proliferation|positive regulation of erythrocyte differentiation|positive regulation of megakaryocyte differentiation|positive regulation of nuclease activity|positive regulation of transcription from RNA polymerase II promoter|V(D)J recombination	condensed chromosome|extracellular space|nucleolus|nucleoplasm|perinuclear region of cytoplasm|protein complex	chemoattractant activity|damaged DNA binding|DNA bending activity|double-stranded DNA binding|RAGE receptor binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding|transcription regulatory region DNA binding				0		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;9.58e-18)|Epithelial(43;3.75e-16)|OV - Ovarian serous cystadenocarcinoma(60;6.24e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		TTTGCAGACATGGTCTGTGGA	0.373													13	135					0	0	0.003163	0	0		C	174254362	C	C	174254362	3	2	19	1	0	0	0	0	1	0	0	0	7242	1464	51	3	487	3	HMGB2	4	174254362	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3642594	174254362	16899914	834	14347											
AGA	175	broad.mit.edu	37	chr4	178354503	178354503	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattctacagcttggtagcTgattgaaacagaggtgaaac	13	11	11	6	0	1	4	0	3	1	1	1	4	1	4	0	2	5	4	0	2	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:178354503T>C	uc003iuu.1	-	8	869	c.807_splice	c.e8-1	p.S269_splice	AGA_uc010irt.1_Intron	NM_000027	NP_000018	P20933	ASPG_HUMAN	aspartylglucosaminidase precursor						asparagine catabolic process via L-aspartate|protein deglycosylation|protein maturation	endoplasmic reticulum|intermediate filament cytoskeleton|lysosome|microtubule cytoskeleton	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0		all_lung(41;1.27e-09)|Lung NSC(41;1.1e-08)|Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Hepatocellular(41;0.148)|all_neural(102;0.164)|Colorectal(36;0.245)		all cancers(43;1.37e-22)|Epithelial(43;3.86e-20)|OV - Ovarian serous cystadenocarcinoma(60;3.8e-11)|Colorectal(24;6.98e-05)|GBM - Glioblastoma multiforme(59;0.000362)|COAD - Colon adenocarcinoma(29;0.000462)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0328)|READ - Rectum adenocarcinoma(43;0.163)		GCTTGGTAGCTGATTGAAACA	0.368													42	77					0	0	0.01441	0	0		C	178354503	C	C	178354503	5	2	19	1	0	0	0	0	0	0	1	0	365	1594	55	3	243	3	AGA	4	178354503	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4100141	178354503	12799773	835	14348											
ODZ3	55714	broad.mit.edu	37	chr4	183658145	183658145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttccaaaagtggtttcctgCctcaccaaacttggcctata	10	12	6	13	0	1	0	1	0	0	0	3	0	3	0	5	2	2	1	5	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:183658145C>T	uc003ivd.1	+	16	3189	c.3152C>T	c.(3151-3153)GCC>GTC	p.A1051V	ODZ3_uc003ive.1_Missense_Mutation_p.A457V	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1051	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TGGTTTCCTGCCTCACCAAAC	0.368													39	78					0	0	0.004289	0	0		T	183658145	T	T	183658145	3	4	19	1	0	0	0	0	1	0	0	0	10855	739	26	2	3214	2	ODZ3	4	183658145	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5303642	183658145	7496131	836	14349											
CASP3	836	broad.mit.edu	37	chr4	185553055	185553055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatggctcagaagcacaCaaacaaaactgctccttttg	14	8	6	13	0	1	1	1	0	0	1	2	1	2	1	2	1	4	3	2	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:185553055C>T	uc003iwh.2	-	6	610	c.347G>A	c.(346-348)TGT>TAT	p.C116Y	CASP3_uc003iwg.2_Missense_Mutation_p.C116Y|CASP3_uc003iwi.2_Missense_Mutation_p.C116Y	NM_004346	NP_004337	P42574	CASP3_HUMAN	caspase 3 preproprotein	116					activation of caspase activity by cytochrome c|DNA fragmentation involved in apoptotic nuclear change|negative regulation of apoptosis|nerve growth factor receptor signaling pathway|nuclear fragmentation involved in apoptotic nuclear change|proteolysis|response to tumor necrosis factor	cytosol|mitochondrion|nucleoplasm|plasma membrane	cysteine-type endopeptidase activity|protein binding			kidney(1)	1		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Colorectal(36;0.00139)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.057)|all_hematologic(60;0.0592)		all cancers(43;2.05e-27)|Epithelial(43;4.27e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.04e-11)|Colorectal(24;2e-05)|STAD - Stomach adenocarcinoma(60;2.35e-05)|GBM - Glioblastoma multiforme(59;4.94e-05)|COAD - Colon adenocarcinoma(29;0.00017)|BRCA - Breast invasive adenocarcinoma(30;0.000218)|LUSC - Lung squamous cell carcinoma(40;0.00904)|READ - Rectum adenocarcinoma(43;0.161)	Melatonin(DB01065)|Minocycline(DB01017)|Simvastatin(DB00641)	CAGAAGCACACAAACAAAACT	0.343													13	179					0	0	0.003163	0	0		T	185553055	T	T	185553055	3	4	19	1	0	0	0	0	1	0	0	0	2675	478	17	4	498	4	CASP3	4	185553055	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1894910	185553055	5601221	837	14350											
SLC25A4	291	broad.mit.edu	37	chr4	186066006	186066006	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccctaaggagcagggctTcctctccttctggaggggta	8	10	12	11	0	2	0	0	0	2	0	5	2	4	2	3	5	1	3	3	5	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:186066006T>C	uc003ixd.2	+	2	329	c.200T>C	c.(199-201)TTC>TCC	p.F67S	SLC25A4_uc003ixe.2_RNA	NM_001151	NP_001142	P12235	ADT1_HUMAN	adenine nucleotide translocator 1	67	Solcar 1.				energy reserve metabolic process|interspecies interaction between organisms|mitochondrial genome maintenance|negative regulation of necrotic cell death|regulation of insulin secretion|viral reproduction	integral to plasma membrane|mitochondrial inner membrane	adenine transmembrane transporter activity|protein binding			ovary(1)	1		all_lung(41;1.19e-13)|Lung NSC(41;3.16e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00872)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;4.48e-44)|Epithelial(43;2.1e-41)|all cancers(43;1.37e-36)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)	Adenosine triphosphate(DB00171)|Clodronate(DB00720)	GAGCAGGGCTTCCTCTCCTTC	0.527													46	106					0	0	0.011902	0	0		C	186066006	C	C	186066006	3	2	19	1	0	0	0	0	1	0	0	0	14529	1783	62	3	206	3	SLC25A4	4	186066006	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	512951	186066006	5088270	838	14351											
SNX25	83891	broad.mit.edu	37	chr4	186283815	186283815	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcccgccacggtataataAaaatattcaatgcactgcaa	16	9	6	10	2	1	0	1	0	0	0	1	0	1	0	2	1	3	3	2	1	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:186283815A>G	uc003ixh.2	+	18	2581	c.2392A>G	c.(2392-2394)AAA>GAA	p.K798E	SNX25_uc010ish.2_Missense_Mutation_p.K514E|SNX25_uc003ixi.2_Missense_Mutation_p.K302E	NM_031953	NP_114159	Q9H3E2	SNX25_HUMAN	sorting nexin 25	798					cell communication|protein transport	endosome membrane	phosphatidylinositol binding|signal transducer activity			ovary(2)|breast(2)|pancreas(1)	5		all_lung(41;1.03e-13)|Lung NSC(41;2.5e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00886)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;2.13e-24)|Epithelial(43;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.6e-11)|BRCA - Breast invasive adenocarcinoma(30;0.00013)|Colorectal(24;0.000165)|GBM - Glioblastoma multiforme(59;0.000357)|COAD - Colon adenocarcinoma(29;0.000887)|STAD - Stomach adenocarcinoma(60;0.00118)|LUSC - Lung squamous cell carcinoma(40;0.0129)|READ - Rectum adenocarcinoma(43;0.228)		CGGTATAATAAAAATATTCAA	0.383													107	229					0	0	0.01441	0	0		G	186283815	G	G	186283815	3	3	19	1	0	0	0	0	1	0	0	0	14921	15	1	3	2458	3	SNX25	4	186283815	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	217809	186283815	4870461	839	14352											
UFSP2	55325	broad.mit.edu	37	chr4	186324686	186324686	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtcttcagcaccggtatAatgtggatctagaatcagaa	13	10	10	8	1	4	2	2	0	2	2	4	3	4	3	1	3	1	2	1	3	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:186324686A>G	uc003ixo.2	-	11	1402	c.1285T>C	c.(1285-1287)TAT>CAT	p.Y429H	UFSP2_uc003ixn.2_Missense_Mutation_p.Y304H|UFSP2_uc003ixq.2_Missense_Mutation_p.Y319H|UFSP2_uc003ixp.2_RNA	NM_018359	NP_060829	Q9NUQ7	UFSP2_HUMAN	UFM1-specific peptidase 2	429						endoplasmic reticulum|nucleus	small conjugating protein-specific protease activity				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;3.4e-25)|Epithelial(43;2.23e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;8.1e-05)|GBM - Glioblastoma multiforme(59;0.000148)|STAD - Stomach adenocarcinoma(60;0.000782)|LUSC - Lung squamous cell carcinoma(40;0.00939)|COAD - Colon adenocarcinoma(29;0.0108)|READ - Rectum adenocarcinoma(43;0.166)		GCACCGGTATAATGTGGATCT	0.388													5	82					0	0	0.000602	0	0		G	186324686	G	G	186324686	3	3	19	1	0	0	0	0	1	0	0	0	16964	362	13	3	132	3	UFSP2	4	186324686	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	40871	186324686	4829590	840	14353											
TLR3	7098	broad.mit.edu	37	chr4	187004019	187004019	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaactcctttacaagtttGcgaactttgacaaatgaaac	14	12	5	10	1	0	2	0	2	0	0	2	3	2	2	2	0	5	1	2	0	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:187004019G>A	uc003iyq.2	+	4	1280	c.1179G>A	c.(1177-1179)TTG>TTA	p.L393L	TLR3_uc011ckz.1_Silent_p.L116L|TLR3_uc003iyr.2_Silent_p.L116L	NM_003265	NP_003256	O15455	TLR3_HUMAN	toll-like receptor 3 precursor	393	LRR 14.|Lumenal (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|defense response to bacterium|defense response to virus|detection of virus|hyperosmotic response|I-kappaB phosphorylation|inflammatory response|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of osteoclast differentiation|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|toll-like receptor 3 signaling pathway	endoplasmic reticulum membrane|endosome membrane|integral to plasma membrane	double-stranded RNA binding|transmembrane receptor activity			ovary(2)|prostate(1)|lung(1)|breast(1)	5		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		TTACAAGTTTGCGAACTTTGA	0.328													17	32					0	0	0.00499	0	0		A	187004019	A	A	187004019	2	1	19	1	0	0	0	0	0	0	0	1	15977	1310	46	2		2	TLR3	4	187004019	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	679333	187004019	4150257	841	14354											
KLKB1	3818	broad.mit.edu	37	chr4	187155135	187155135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcttgaaagatagtgttaCaggaaccctgccaaaagtac	14	10	8	9	0	1	2	0	1	1	1	1	3	1	3	2	1	4	2	2	1	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:187155135C>T	uc003iyy.2	+	4	322	c.251C>T	c.(250-252)ACA>ATA	p.T84I	KLKB1_uc011clc.1_5'UTR|KLKB1_uc011cld.1_Missense_Mutation_p.T46I	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	84	Apple 1.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		GATAGTGTTACAGGAACCCTG	0.353													13	89					0	0	0.00245	0	0		T	187155135	T	T	187155135	3	4	19	1	0	0	0	0	1	0	0	0	8428	478	17	4	261	4	KLKB1	4	187155135	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	151116	187155135	3999141	842	14355											
F11	2160	broad.mit.edu	37	chr4	187192764	187192764	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccatgtactacatcacagaAtgtgtgactcagttgttgaa	12	12	9	8	0	2	3	2	2	0	1	2	3	2	3	1	0	2	3	1	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:187192764A>G	uc003iza.1	+	3	390	c.57A>G	c.(55-57)GAA>GAG	p.E19E	F11_uc003iyz.2_Silent_p.E19E	NM_000128	NP_000119	P03951	FA11_HUMAN	coagulation factor XI precursor	19					blood coagulation, intrinsic pathway|plasminogen activation|positive regulation of fibrinolysis	extracellular space|plasma membrane	heparin binding|serine-type endopeptidase activity				0		all_cancers(14;6.2e-52)|all_epithelial(14;1.62e-38)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;2.13e-11)|BRCA - Breast invasive adenocarcinoma(30;4.59e-06)|GBM - Glioblastoma multiforme(59;0.000149)|STAD - Stomach adenocarcinoma(60;0.000314)|LUSC - Lung squamous cell carcinoma(40;0.00112)|READ - Rectum adenocarcinoma(43;0.176)	Coagulation Factor IX(DB00100)	ACATCACAGAATGTGTGACTC	0.458													39	94					0	0	0.011902	0	0		G	187192764	G	G	187192764	2	3	19	1	0	0	0	0	0	0	0	1	5345	115	4	3		3	F11	4	187192764	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	37629	187192764	3961512	843	14356											
FAT1	2195	broad.mit.edu	37	chr4	187540381	187540381	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatggcttcagggcgtgccgGtgcaggtttgagagggtgat	7	10	18	6	2	1	2	1	2	0	1	1	3	1	2	1	5	2	3	1	5	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:187540381G>C	uc003izf.2	-	10	7547	c.7359C>G	c.(7357-7359)CAC>CAG	p.H2453Q		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2453	Extracellular (Potential).|Cadherin 22.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GGGCGTGCCGGTGCAGGTTTG	0.433										HNSCC(5;0.00058)			4	229					0	0	0.009096	0	0		C	187540381	C	C	187540381	3	2	19	1	0	0	0	0	1	0	0	0	5703	1252	44	5	6479	5	FAT1	4	187540381	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	347617	187540381	3613895	844	14357											
FAT1	2195	broad.mit.edu	37	chr4	187541428	187541428	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgtctctgtctacagcAgtgacatagcgaatgacatg	11	10	9	11	1	2	2	0	2	2	0	3	3	2	2	1	0	3	1	1	0	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:187541428A>G	uc003izf.2	-	10	6500	c.6312T>C	c.(6310-6312)ACT>ACC	p.T2104T		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2104	Extracellular (Potential).|Cadherin 19.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TGTCTACAGCAGTGACATAGC	0.463										HNSCC(5;0.00058)			5	203					0	0	0.00308	0	0		G	187541428	G	G	187541428	2	3	19	1	0	0	0	0	0	0	0	1	5703	175	7	3		3	FAT1	4	187541428	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1047	187541428	3612848	845	14358											
FAT1	2195	broad.mit.edu	37	chr4	187628543	187628543	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtggattatcattggcatcGacaaccacgacatgtagaag	13	9	11	8	2	1	1	1	0	0	1	2	4	1	2	1	3	1	2	1	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:187628543G>A	uc003izf.2	-	2	2627	c.2439C>T	c.(2437-2439)GTC>GTT	p.V813V	FAT1_uc010iso.1_Silent_p.V813V	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	813	Extracellular (Potential).|Cadherin 6.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CATTGGCATCGACAACCACGA	0.458										HNSCC(5;0.00058)			39	236					0	0	0.010771	0	0		A	187628543	A	A	187628543	2	1	19	1	0	0	0	0	0	0	0	1	5703	1045	37	1		1	FAT1	4	187628543	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	87115	187628543	3525733	846	14359											
PLEKHG4B	153478	broad.mit.edu	37	chr5	156323	156323	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagcttggcacagaagacagCcggtgagcgctcacaggggt	10	5	16	10	2	1	3	1	1	0	2	1	4	1	3	1	4	3	3	1	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:156323C>T	uc003jak.2	+	8	1328	c.1278C>T	c.(1276-1278)AGC>AGT	p.S426S		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	426					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		CAGAAGACAGCCGGTGAGCGC	0.647													5	25					0	0	0.001168	0	0		T	156323	T	T	156323	2	4	19	1	0	0	0	0	0	0	0	1	12091	738	26	2		2	PLEKHG4B	5	156323	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08		156323	180758937	847	14360											
PLEKHG4B	153478	broad.mit.edu	37	chr5	169705	169705	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggccgcagtttcctgagaCacgtaagtgcaggccatggc	8	8	14	11	2	0	1	0	1	0	1	1	2	1	1	3	3	1	4	3	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:169705C>G	uc003jak.2	+	12	2709	c.2659C>G	c.(2659-2661)CAC>GAC	p.H887D		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	887	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		TTTCCTGAGACACGTAAGTGC	0.657													42	77					0	0	0.010771	0	0		G	169705	G	G	169705	3	3	19	1	0	0	0	0	1	0	0	0	12091	478	17	5	2705	5	PLEKHG4B	5	169705	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	13382	169705	180745555	848	14361											
PLEKHG4B	153478	broad.mit.edu	37	chr5	171406	171406	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgcagcgtgtggccaagtaCgcgctgctactccaggacct	7	8	13	13	3	0	0	0	0	0	0	1	1	1	1	3	2	5	4	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:171406C>T	uc003jak.2	+	14	2879	c.2829C>T	c.(2827-2829)TAC>TAT	p.Y943Y		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	943	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		TGGCCAAGTACGCGCTGCTAC	0.677													8	21					0	0	0.00308	0	0		T	171406	T	T	171406	2	4	19	1	0	0	0	0	0	0	0	1	12091	547	19	1		1	PLEKHG4B	5	171406	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1701	171406	180743854	849	14362											
LRRC14B	389257	broad.mit.edu	37	chr5	194870	194870	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctggccaactgtgcccTgaaccacacggacatggcct	9	6	11	15	1	0	1	0	1	0	0	0	3	0	3	5	4	3	0	5	4	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:194870T>C	uc003jal.1	+	2	975	c.947T>C	c.(946-948)CTG>CCG	p.L316P		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	316	LRR 2.									skin(1)	1						AACTGTGCCCTGAACCACACG	0.642													3	33					0	0	0.000602	0	0		C	194870	C	C	194870	3	2	19	1	0	0	0	0	1	0	0	0	8987	1580	55	3	953	3	LRRC14B	5	194870	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	23464	194870	180720390	850	14363											
SLC9A3	6550	broad.mit.edu	37	chr5	481730	481730	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggatatgtcctcgatggcCgagaggatgtggtcgaaagc	9	8	15	9	4	0	1	0	0	0	1	3	6	1	3	3	4	1	0	3	4	2	1	rs146433621	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:481730C>T	uc003jbe.2	-	9	1579	c.1467G>A	c.(1465-1467)TCG>TCA	p.S489S	SLC9A3_uc011clx.1_Silent_p.S480S	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	489	Cytoplasmic (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CCTCGATGGCCGAGAGGATGT	0.612													136	198					0	0	0.01441	0	0		T	481730	T	T	481730	2	4	19	1	0	0	0	0	0	0	0	1	14738	639	23	1		1	SLC9A3	5	481730	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	286860	481730	180433530	851	14364											
SLC9A3	6550	broad.mit.edu	37	chr5	484636	484636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtgggagggactcacgCgaggatggccgacagcgaca	9	5	18	9	4	1	0	1	0	0	0	1	6	1	3	1	4	1	0	1	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:484636C>T	uc003jbe.2	-	5	1043	c.931G>A	c.(931-933)GCC>ACC	p.A311T	SLC9A3_uc011clx.1_Missense_Mutation_p.A311T	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	311	Extracellular (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			GGGACTCACGCGAGGATGGCC	0.642													8	29					0	0	0.006214	0	0		T	484636	T	T	484636	3	4	19	1	0	0	0	0	1	0	0	0	14738	782	27	1	1625	1	SLC9A3	5	484636	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2906	484636	180430624	852	14365											
ZDHHC11	79844	broad.mit.edu	37	chr5	840700	840700	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcccgatgatcacgactaTcagggtctgcacctgcaccg	9	8	9	15	3	3	1	2	1	1	0	4	3	4	1	3	1	2	2	3	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:840700T>G	uc011cma.1	-	5	1078	c.694A>C	c.(694-696)ATA>CTA	p.I232L	ZDHHC11_uc003jbj.2_RNA|ZDHHC11_uc010itd.1_RNA|ZDHHC11_uc003jbk.2_Missense_Mutation_p.I19L	NM_024786	NP_079062	Q9H8X9	ZDH11_HUMAN	zinc finger, DHHC-type containing 11	232	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			skin(1)|pancreas(1)	2			Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)			ATCACGACTATCAGGGTCTGC	0.572													13	767					0	0	0.003163	0	0		G	840700	G	G	840700	3	3	19	1	0	0	0	0	1	0	0	0	17626	1435	50	5	576	5	ZDHHC11	5	840700	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	356064	840700	180074560	853	14366											
IRX1	79192	broad.mit.edu	37	chr5	3600279	3600279	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcgccccatggccctcaccTtcctgcacctccaccaccgc	5	6	6	24	3	1	0	1	0	0	0	3	0	3	0	9	1	1	1	9	1	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:3600279T>G	uc003jde.2	+	2	1269	c.1217T>G	c.(1216-1218)CTT>CGT	p.L406R		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	406						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GGCCCTCACCTTCCTGCACCT	0.682													8	26					0	0	0.006214	0	0		G	3600279	G	G	3600279	3	3	19	1	0	0	0	0	1	0	0	0	7859	1609	56	5	1223	5	IRX1	5	3600279	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2759579	3600279	177314981	854	14367											
ADAMTS16	170690	broad.mit.edu	37	chr5	5239878	5239878	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctacctcctacatttctgTgcgcaatgccctcagaaggt	8	12	7	14	1	3	1	1	0	2	1	4	1	4	1	3	1	4	1	3	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:5239878T>C	uc003jdl.2	+	16	2501	c.2363T>C	c.(2362-2364)GTG>GCG	p.V788A	ADAMTS16_uc003jdk.1_Missense_Mutation_p.V788A	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	788	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TACATTTCTGTGCGCAATGCC	0.502													22	136					0	0	0.010504	0	0		C	5239878	C	C	5239878	3	2	19	1	0	0	0	0	1	0	0	0	261	1696	59	3	2425	3	ADAMTS16	5	5239878	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1639599	5239878	175675382	855	14368											
KIAA0947	23379	broad.mit.edu	37	chr5	5461230	5461231	+	Frame_Shift_Ins	INS	-	A	A																															atctagagaattggaaaaggINSaaaaagaagatactcaaggg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:5461230_5461231insA	uc003jdm.3	+	13	2005_2006	c.1783_1784insA	c.(1783-1785)GAAfs	p.E595fs		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	595										ovary(1)|central_nervous_system(1)	2						ATTGGAAAAGGAAAAAGAAGAT	0.401													54	118	---	---	---	---						.	A	5461231	A	A	5461230	7	5	19	1	0	1	1	0	0	0	0	0	8218	1175	41	0	1833	0	KIAA0947	5	5461230	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	221352	5461230	175454030	856	14369											
NSUN2	54888	broad.mit.edu	37	chr5	6604762	6604762	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcaaactcttcaccgctgtTatttctacaccagactttga	10	14	5	12	1	4	2	2	1	2	1	4	2	4	2	2	0	2	2	2	0	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:6604762T>C	uc003jdu.2	-	16	1839	c.1774A>G	c.(1774-1776)AAC>GAC	p.N592D	NSUN2_uc003jds.2_Missense_Mutation_p.N38D|NSUN2_uc003jdt.2_Missense_Mutation_p.N356D|NSUN2_uc011cmk.1_Missense_Mutation_p.N557D|NSUN2_uc003jdv.2_Missense_Mutation_p.N356D	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	592						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						TCACCGCTGTTATTTCTACAC	0.443													13	130					0	0	0.001855	0	0		C	6604762	C	C	6604762	3	2	19	1	0	0	0	0	1	0	0	0	10697	1754	61	3	545	3	NSUN2	5	6604762	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1143532	6604762	174310498	857	14370											
PAPD7	11044	broad.mit.edu	37	chr5	6754991	6754991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggacaccaccagtataaccGcaccggctggaggaggaaaa	14	3	13	11	2	0	0	0	0	0	0	0	4	0	4	4	5	1	3	4	5	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:6754991G>A	uc003jdx.1	+	13	1691	c.1562G>A	c.(1561-1563)CGC>CAC	p.R521H	PAPD7_uc011cmn.1_Missense_Mutation_p.R511H|PAPD7_uc010itl.1_Missense_Mutation_p.R341H	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	521					cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						CAGTATAACCGCACCGGCTGG	0.642													9	30					0	0	0.00245	0	0		A	6754991	A	A	6754991	3	1	19	1	0	0	0	0	1	0	0	0	11445	1087	38	1	1608	1	PAPD7	5	6754991	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	150229	6754991	174160269	858	14371											
ADCY2	108	broad.mit.edu	37	chr5	7709482	7709482	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacagcatgaccacagagaaCggcaagatcagcaccacggt	15	3	11	12	2	1	3	1	1	0	2	1	5	1	3	2	2	3	3	2	2	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:7709482C>T	uc003jdz.1	+	10	1627	c.1560C>T	c.(1558-1560)AAC>AAT	p.N520N	ADCY2_uc011cmo.1_Silent_p.N340N	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	520	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CCACAGAGAACGGCAAGATCA	0.587													4	21					0	0	0.009096	0	0		T	7709482	T	T	7709482	2	4	19	1	0	0	0	0	0	0	0	1	294	535	19	1		1	ADCY2	5	7709482	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	954491	7709482	173205778	859	14372											
DNAH5	1767	broad.mit.edu	37	chr5	13737440	13737440	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcttctgtgtcacctcctcGgctgtcctttttgtgttact	3	18	8	12	1	2	0	1	0	1	0	5	0	4	0	3	1	2	3	3	1	1	4	rs140960222		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:13737440G>A	uc003jfd.2	-	66	11418	c.11376C>T	c.(11374-11376)GCC>GCT	p.A3792A	DNAH5_uc003jfc.2_Intron	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3792	Potential.|AAA 5 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TCACCTCCTCGGCTGTCCTTT	0.458									Kartagener_syndrome				51	148					0	0	0.01441	0	0		A	13737440	A	A	13737440	2	1	19	1	0	0	0	0	0	0	0	1	4610	1103	39	1		1	DNAH5	5	13737440	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	6027958	13737440	167177820	860	14373											
TRIO	7204	broad.mit.edu	37	chr5	14399145	14399145	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agaagtgaaagattccagtgGgagaagcaagtacctttata	16	9	11	5	0	0	4	0	1	0	3	1	5	1	4	2	1	2	2	2	1	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:14399145G>T	uc003jff.2	+	30	4586	c.4580G>T	c.(4579-4581)GGG>GTG	p.G1527V	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.G1478V|TRIO_uc003jfh.1_Missense_Mutation_p.G1176V	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1527	PH 1.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GATTCCAGTGGGAGAAGCAAG	0.373													14	137					9.31168e-06	9.59098e-06	0.001855	1	0		T	14399145	T	T	14399145	3	4	19	1	0	0	0	0	1	0	0	0	16578	1232	43	5	4698	5	TRIO	5	14399145	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	661705	14399145	166516115	861	14374											
FAM105B	90268	broad.mit.edu	37	chr5	14681586	14681586	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcccagggctatgaagaggTttctcagaagttcacctcca	10	11	9	11	0	2	3	2	1	1	2	5	3	4	3	3	2	0	3	3	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:14681586T>C	uc003jfk.2	+	4	490	c.338T>C	c.(337-339)GTT>GCT	p.V113A		NM_138348	NP_612357	Q96BN8	F105B_HUMAN	hypothetical protein LOC90268	113										ovary(2)	2	Lung NSC(4;0.00696)					TATGAAGAGGTTTCTCAGAAG	0.502													5	133					0	0	0.00308	0	0		C	14681586	C	C	14681586	3	2	19	1	0	0	0	0	1	0	0	0	5399	1725	60	3	352	3	FAM105B	5	14681586	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	282441	14681586	166233674	862	14375											
MYO10	4651	broad.mit.edu	37	chr5	16668508	16668508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtggtcttccctctccacGcttgtagacggagacggcgt	6	10	12	13	4	2	2	0	0	2	2	4	3	3	2	2	3	0	2	2	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:16668508G>A	uc003jft.3	-	40	6421	c.5953C>T	c.(5953-5955)CGT>TGT	p.R1985C	MYO10_uc011cnb.1_Missense_Mutation_p.R614C|MYO10_uc011cnc.1_Missense_Mutation_p.R864C|MYO10_uc011cnd.1_Missense_Mutation_p.R1342C|MYO10_uc011cne.1_Missense_Mutation_p.R1342C|MYO10_uc010itx.2_Missense_Mutation_p.R1607C	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1985	FERM.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CCCTCTCCACGCTTGTAGACG	0.547													31	60					0	0	0.010818	0	0		A	16668508	A	A	16668508	3	1	19	1	0	0	0	0	1	0	0	0	10080	1087	38	1	231	1	MYO10	5	16668508	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1986922	16668508	164246752	863	14376											
MYO10	4651	broad.mit.edu	37	chr5	16670846	16670846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatcctgtccggaagctcCgcctcagggtcccctctagg	5	8	12	16	3	2	0	1	0	1	0	6	2	6	2	6	4	1	1	6	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:16670846C>T	uc003jft.3	-	39	6140	c.5672G>A	c.(5671-5673)CGG>CAG	p.R1891Q	MYO10_uc011cnb.1_Missense_Mutation_p.R520Q|MYO10_uc011cnc.1_Missense_Mutation_p.R770Q|MYO10_uc011cnd.1_Missense_Mutation_p.R1248Q|MYO10_uc011cne.1_Missense_Mutation_p.R1248Q|MYO10_uc010itx.2_Missense_Mutation_p.R1513Q	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1891	FERM.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CCGGAAGCTCCGCCTCAGGGT	0.587													21	47					0	0	0.010504	0	0		T	16670846	T	T	16670846	3	4	19	1	0	0	0	0	1	0	0	0	10080	652	23	1	516	1	MYO10	5	16670846	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2338	16670846	164244414	864	14377											
NPR3	4883	broad.mit.edu	37	chr5	32712294	32712294	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggggccagtgtgcgagTatgcagcagcgccagtggcc	6	7	16	12	2	0	0	0	0	0	0	1	1	1	0	4	3	4	3	4	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:32712294T>C	uc003jhv.2	+	1	630	c.412T>C	c.(412-414)TAT>CAT	p.Y138H	NPR3_uc010iuo.2_Intron|NPR3_uc011cnz.1_Intron|NPR3_uc003jhu.2_Missense_Mutation_p.Y138H	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	138	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	AGTGTGCGAGTATGCAGCAGC	0.672													38	95					0	0	0.013114	0	0		C	32712294	C	C	32712294	3	2	19	1	0	0	0	0	1	0	0	0	10615	1638	57	3	414	3	NPR3	5	32712294	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	16041448	32712294	148202966	865	14378											
ADAMTS12	81792	broad.mit.edu	37	chr5	33596060	33596060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtggacaagccttttcaTggcacttcttctgtctccca	6	14	9	12	0	4	0	1	0	3	0	5	1	4	1	2	3	1	1	2	3	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:33596060T>C	uc003jia.1	-	17	2796	c.2633A>G	c.(2632-2634)CAT>CGT	p.H878R	ADAMTS12_uc010iuq.1_Missense_Mutation_p.H793R	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	878	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						AGCCTTTTCATGGCACTTCTT	0.527										HNSCC(64;0.19)			11	135					0	0	0.008291	0	0		C	33596060	C	C	33596060	3	2	19	1	0	0	0	0	1	0	0	0	257	1464	51	3	2183	3	ADAMTS12	5	33596060	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	883766	33596060	147319200	866	14379											
SLC45A2	51151	broad.mit.edu	37	chr5	33947401	33947401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagcccaataaatcccGtccccaggccaaacagcaaa	16	3	8	14	1	0	1	0	0	0	1	2	2	2	2	5	2	3	1	5	2	6	1	rs149980670		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:33947401G>A	uc003jid.2	-	6	1327	c.1235C>T	c.(1234-1236)ACG>ATG	p.T412M	SLC45A2_uc003jie.2_Missense_Mutation_p.T412M	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	412	Helical; Name=9; (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane		p.T412M(1)		ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						AATAAATCCCGTCCCCAGGCC	0.488													61	132					0	0	0.01441	0	0		A	33947401	A	A	33947401	3	1	19	1	0	0	0	0	1	0	0	0	14666	1145	40	1	380	1	SLC45A2	5	33947401	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	351341	33947401	146967859	867	14380											
BRIX1	55299	broad.mit.edu	37	chr5	34923248	34923248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttaactagatctttagtaCaccacggtatcatcccaaaa	14	13	4	10	1	2	1	1	0	1	1	3	1	3	1	2	1	2	2	2	1	7	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:34923248C>T	uc003jja.2	+	8	596	c.572C>T	c.(571-573)ACA>ATA	p.T191I	BRIX1_uc011col.1_3'UTR	NM_018321	NP_060791	Q8TDN6	BRX1_HUMAN	BRIX	191	Brix.				ribosome biogenesis|translation	nucleolus	aminoacyl-tRNA ligase activity|ATP binding|protein binding				0						ATCTTTAGTACACCACGGTAT	0.323													7	137					0	0	0.00308	0	0		T	34923248	T	T	34923248	3	4	19	1	0	0	0	0	1	0	0	0	1518	478	17	4	602	4	BRIX1	5	34923248	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	975847	34923248	145992012	868	14381											
SPEF2	79925	broad.mit.edu	37	chr5	35795817	35795817	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatgtaggctggtctgtggTttacaggagatgaagatata	11	14	13	3	0	1	3	0	1	1	2	1	4	1	3	0	4	1	3	0	4	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:35795817T>C	uc003jjo.2	+	33	4861	c.4750T>C	c.(4750-4752)TTT>CTT	p.F1584L	SPEF2_uc003jjp.1_Missense_Mutation_p.F1070L|SPEF2_uc003jjr.2_Missense_Mutation_p.F639L	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1584					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGGTCTGTGGTTTACAGGAGA	0.348													48	73					0	0	0.01441	0	0		C	35795817	C	C	35795817	3	2	19	1	0	0	0	0	1	0	0	0	15060	1725	60	3	4901	3	SPEF2	5	35795817	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	872569	35795817	145119443	869	14382											
SPEF2	79925	broad.mit.edu	37	chr5	35800082	35800082	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcagtttttctttaggCtatttgctgactatgagaag	8	17	11	5	0	1	2	0	2	1	1	1	3	1	2	0	1	2	4	0	1	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:35800082C>A	uc003jjo.2	+	34	4954	c.4843C>A	c.(4843-4845)CTA>ATA	p.L1615I	SPEF2_uc003jjp.1_Missense_Mutation_p.L1101I|SPEF2_uc003jjr.2_Missense_Mutation_p.L670I	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1615					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TTTCTTTAGGCTATTTGCTGA	0.358													8	418					1.12685e-05	1.15967e-05	0.004482	1	0		A	35800082	A	A	35800082	3	1	19	1	0	0	0	0	1	0	0	0	15060	796	28	5	4998	5	SPEF2	5	35800082	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4265	35800082	145115178	870	14383											
NIPBL	25836	broad.mit.edu	37	chr5	36985832	36985832	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaacattgagatcctctagTagaaatgaacatggcattaa	17	10	8	6	0	1	3	0	2	1	2	2	5	2	3	1	1	2	2	1	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:36985832T>C	uc003jkl.3	+	10	3049	c.2550T>C	c.(2548-2550)AGT>AGC	p.S850S	NIPBL_uc003jkk.3_Silent_p.S850S|NIPBL_uc003jkm.1_Silent_p.S729S	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	850					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GATCCTCTAGTAGAAATGAAC	0.408													5	67					0	0	0.000602	0	0		C	36985832	C	C	36985832	2	2	19	1	0	0	0	0	0	0	0	1	10447	1635	57	3		3	NIPBL	5	36985832	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1185750	36985832	143929428	871	14384											
NIPBL	25836	broad.mit.edu	37	chr5	37059070	37059070	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaagcgacagtgaagaagaAgtttccaggcctcggaagtc	13	7	12	9	2	1	3	1	1	0	2	4	5	2	4	2	2	1	1	2	2	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:37059070A>G	uc003jkl.3	+	44	7987	c.7488A>G	c.(7486-7488)GAA>GAG	p.E2496E	NIPBL_uc003jkk.3_Silent_p.E2496E|NIPBL_uc003jkn.2_Silent_p.E189E	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	2496					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GTGAAGAAGAAGTTTCCAGGC	0.323													55	107					0	0	0.01441	0	0		G	37059070	G	G	37059070	2	3	19	1	0	0	0	0	0	0	0	1	10447	69	3	3		3	NIPBL	5	37059070	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	73238	37059070	143856190	872	14385											
LIFR	3977	broad.mit.edu	37	chr5	38496504	38496504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttggaatttccatactcGctattttggaaggtggtgat	9	16	10	6	1	0	1	0	1	0	0	2	3	1	3	1	4	1	1	1	4	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:38496504G>A	uc010ive.1	-	13	2197	c.1865C>T	c.(1864-1866)GCG>GTG	p.A622V	LIFR_uc003jli.2_Missense_Mutation_p.A622V	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	622	Extracellular (Potential).|Fibronectin type-III 4.				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					TTCCATACTCGCTATTTTGGA	0.393			T	PLAG1	salivary adenoma								43	113					0	0	0.013114	0	0		A	38496504	A	A	38496504	3	1	19	1	0	0	0	0	1	0	0	0	8796	1087	38	1	1460	1	LIFR	5	38496504	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1437434	38496504	142418756	873	14386											
C9	735	broad.mit.edu	37	chr5	39331866	39331866	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttacagagtccattgtagAactcattgtcaaaaggtgtg	12	12	11	6	0	2	2	2	0	0	2	3	2	3	2	1	2	2	2	1	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:39331866A>G	uc003jlv.3	-	5	616	c.527T>C	c.(526-528)TTC>TCC	p.F176S		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	176	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			TCCATTGTAGAACTCATTGTC	0.438													58	167					0	0	0.01441	0	0		G	39331866	G	G	39331866	3	3	19	1	0	0	0	0	1	0	0	0	2446	246	9	3	1180	3	C9	5	39331866	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	835362	39331866	141583394	874	14387											
DAB2	1601	broad.mit.edu	37	chr5	39393475	39393475	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgaaccttgctaagagatAttcatctgtcttttcagggc	9	16	8	8	0	4	2	2	1	2	1	4	3	4	2	1	1	2	1	1	1	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:39393475A>G	uc003jlx.2	-	3	643	c.112T>C	c.(112-114)TAT>CAT	p.Y38H	DAB2_uc003jlw.2_Missense_Mutation_p.Y38H	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	38					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			GCTAAGAGATATTCATCTGTC	0.388													10	182					0	0	0.008291	0	0		G	39393475	G	G	39393475	3	3	19	1	0	0	0	0	1	0	0	0	4221	449	16	3	2248	3	DAB2	5	39393475	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	61609	39393475	141521785	875	14388											
C6	729	broad.mit.edu	37	chr5	41203199	41203199	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcacacccacctgtgtctgCtctgggttccagaattgcaa	8	11	8	14	0	3	1	1	0	2	1	4	1	4	1	3	1	2	3	3	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:41203199C>T	uc003jmk.2	-	2	344	c.134G>A	c.(133-135)AGC>AAC	p.S45N	C6_uc003jml.1_Missense_Mutation_p.S45N	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	45	TSP type-1 1.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				CCTGTGTCTGCTCTGGGTTCC	0.493													9	359					0	0	0.013537	0	0		T	41203199	T	T	41203199	3	4	19	1	0	0	0	0	1	0	0	0	2318	797	28	2	2738	2	C6	5	41203199	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1809724	41203199	139712061	876	14389											
GHR	2690	broad.mit.edu	37	chr5	42718856	42718856	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggttgctcagccacagaGgttaaaaggggaagcagatc	14	6	14	7	0	1	3	1	0	0	3	2	4	1	4	1	4	3	4	1	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:42718856G>T	uc003jmt.2	+	10	1290	c.1247G>T	c.(1246-1248)AGG>ATG	p.R416M	GHR_uc011cpq.1_Missense_Mutation_p.R229M	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	416	Cytoplasmic (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	CAGCCACAGAGGTTAAAAGGG	0.468													19	93					4.26978e-12	4.48283e-12	0.00333	1	0		T	42718856	T	T	42718856	3	4	19	1	0	0	0	0	1	0	0	0	6386	1000	35	5	1281	5	GHR	5	42718856	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1515657	42718856	138196404	877	14390											
MGC42105	167359	broad.mit.edu	37	chr5	43280252	43280252	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcctgaactcttccgggaCgagcactacatcggcattta	9	9	10	13	4	1	1	0	1	1	0	3	3	2	2	2	2	3	2	2	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:43280252C>T	uc003jno.2	+	4	1613	c.732C>T	c.(730-732)GAC>GAT	p.D244D		NM_153361	NP_699192	Q8IY84	NIM1_HUMAN	serine/threonine-protein kinase NIM1	244	Protein kinase.						ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|stomach(1)|large_intestine(1)|breast(1)	9						TCTTCCGGGACGAGCACTACA	0.527													34	81					0	0	0.004289	0	0		T	43280252	T	T	43280252	2	4	19	1	0	0	0	0	0	0	0	1	9570	535	19	1		1	MGC42105	5	43280252	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	561396	43280252	137635008	878	14391											
NNT	23530	broad.mit.edu	37	chr5	43656831	43656831	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactggctgctagtgtgggCgggataatcccattcatggt	7	13	13	8	1	1	0	1	0	0	0	2	1	2	1	1	4	2	2	1	4	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:43656831C>T	uc003joe.2	+	16	2625	c.2370C>T	c.(2368-2370)GGC>GGT	p.G790G	NNT_uc003jof.2_Silent_p.G790G	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	790	Helical; (Potential).				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	CTAGTGTGGGCGGGATAATCC	0.507													31	70					0	0	0.009535	0	0		T	43656831	T	T	43656831	2	4	19	1	0	0	0	0	0	0	0	1	10529	755	27	1		1	NNT	5	43656831	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	376579	43656831	137258429	879	14392											
CDC20B	166979	broad.mit.edu	37	chr5	54420721	54420721	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catattgtcagcagtccatcActgcagccgctggaaagcag	11	8	10	12	1	2	0	2	0	0	0	3	1	3	1	2	1	4	4	2	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:54420721A>G	uc003jpo.1	-	9	1300	c.1125T>C	c.(1123-1125)AGT>AGC	p.S375S	CDC20B_uc003jpn.1_Silent_p.S375S|CDC20B_uc010ivu.1_Silent_p.S375S|CDC20B_uc010ivv.1_3'UTR	NM_152623	NP_689836	Q86Y33	CD20B_HUMAN	CDC20 cell division cycle 20 homolog B isoform	375	WD 4.										0		Lung NSC(810;0.000744)|Breast(144;0.159)|Prostate(74;0.194)	LUSC - Lung squamous cell carcinoma(15;0.225)			GCAGTCCATCACTGCAGCCGC	0.562													13	70					0	0	0.003163	0	0		G	54420721	G	G	54420721	2	3	19	1	0	0	0	0	0	0	0	1	3063	156	6	3		3	CDC20B	5	54420721	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	10763890	54420721	126494539	880	14393											
IL31RA	133396	broad.mit.edu	37	chr5	55168141	55168141	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgtacaaccaatagttctAcaagtgaaaatcgtgcttcg	14	12	7	8	2	1	1	0	1	1	0	3	1	1	1	1	0	4	3	1	0	8	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:55168141A>G	uc003jql.2	+	4	381	c.316A>G	c.(316-318)ACA>GCA	p.T106A	IL31RA_uc003jqk.2_Missense_Mutation_p.T106A|IL31RA_uc011cqj.1_5'UTR|IL31RA_uc003jqm.2_Missense_Mutation_p.T74A|IL31RA_uc003jqn.2_Missense_Mutation_p.T106A|IL31RA_uc010iwa.1_Missense_Mutation_p.T74A|IL31RA_uc003jqo.2_5'UTR	NM_139017	NP_620586	Q8NI17	IL31R_HUMAN	gp130-like monocyte receptor	74	Extracellular (Potential).|Fibronectin type-III 1.				anti-apoptosis|defense response|homeostatic process|JAK-STAT cascade|macrophage differentiation|MAPKKK cascade|monocyte differentiation|negative regulation of macrophage activation|positive regulation of cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|plasma membrane	cytokine receptor activity|protein kinase binding|transcription coactivator activity			ovary(1)	1		Lung NSC(810;6.93e-05)|Prostate(74;0.00741)|Breast(144;0.0544)|Ovarian(174;0.223)				CAATAGTTCTACAAGTGAAAA	0.353													3	60					0	0	0.004672	0	0		G	55168141	G	G	55168141	3	3	19	1	0	0	0	0	1	0	0	0	7707	391	14	3	330	3	IL31RA	5	55168141	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	747420	55168141	125747119	881	14394											
DEPDC1B	55789	broad.mit.edu	37	chr5	59893631	59893631	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttggaaaggcttctttagTgcccacattagcagctgtgg	8	12	13	8	0	1	0	0	0	1	0	1	1	1	1	1	4	3	4	1	4	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:59893631T>C	uc003jsh.2	-	11	1612	c.1539A>G	c.(1537-1539)GCA>GCG	p.A513A	DEPDC1B_uc011cqm.1_Silent_p.A451A|DEPDC1B_uc011cqn.1_Silent_p.A424A	NM_018369	NP_060839	Q8WUY9	DEP1B_HUMAN	DEP domain containing 1B isoform 1	513					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)	1		Lung NSC(810;0.000214)|Prostate(74;0.0147)|Breast(144;0.0991)|Ovarian(174;0.17)				GCTTCTTTAGTGCCCACATTA	0.418													14	239					0	0	0.00245	0	0		C	59893631	C	C	59893631	2	2	19	1	0	0	0	0	0	0	0	1	4446	1683	59	3		3	DEPDC1B	5	59893631	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4725490	59893631	121021629	882	14395											
ERCC8	1161	broad.mit.edu	37	chr5	60198332	60198332	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctaatatttcttgtctgTgacctgcaaatacaactata	12	15	5	9	0	2	1	0	1	2	0	2	1	2	1	1	0	4	2	1	0	7	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:60198332T>C	uc003jsm.3	-	7	624	c.554A>G	c.(553-555)CAC>CGC	p.H185R	ERCC8_uc003jsk.2_RNA|ERCC8_uc003jsl.3_Missense_Mutation_p.H127R|ERCC8_uc011cqp.1_Missense_Mutation_p.H32R	NM_000082	NP_000073	Q13216	ERCC8_HUMAN	excision repair cross-complementing rodent	185	WD 3.				positive regulation of DNA repair|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein polyubiquitination|response to oxidative stress|response to UV|response to UV|transcription-coupled nucleotide-excision repair	Cul4A-RING ubiquitin ligase complex|nuclear matrix|nucleoplasm|nucleotide-excision repair complex|soluble fraction	protein binding|protein complex binding				0		Lung NSC(810;1.51e-06)|Prostate(74;0.0322)|Ovarian(174;0.0481)|Breast(144;0.077)				TTCTTGTCTGTGACCTGCAAA	0.338								Direct_reversal_of_damage|NER					24	97					0	0	0.005443	0	0		C	60198332	C	C	60198332	3	2	19	1	0	0	0	0	1	0	0	0	5227	1696	59	3	660	3	ERCC8	5	60198332	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	304701	60198332	120716928	883	14396											
C5orf43	643155	broad.mit.edu	37	chr5	60455819	60455819	+	Frame_Shift_Del	DEL	T	-	-																															tttgcaatgttttcttggcgTttttgcttcttcttttgctc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:60455819delT	uc010iwm.1	-	3	607	c.180delA	c.(178-180)AAAfs	p.K60fs	C5orf43_uc010iwl.1_RNA	NM_001048249	NP_001041714	Q7Z3B0	CE043_HUMAN	hypothetical protein LOC643155	60	Potential.					integral to membrane					0						TTTCTTGGCGTTTTTGCTTCT	0.418													63	144	---	---	---	---						.	-	60455819	-	-	60455819	7	5	19	1	0	1	0	1	0	0	0	0	2305	1722	60	0	48	0	C5orf43	5	60455819	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	257487	60455819	120459441	884	14397											
KIF2A	3796	broad.mit.edu	37	chr5	61642978	61642978	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgaatacatcaagcaatggTaacatctttaaatgaagata	18	10	6	7	1	2	2	1	1	1	1	2	3	2	2	1	1	3	2	1	1	9	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:61642978T>C	uc003jsy.3	+	2	397	c.86T>C	c.(85-87)GTA>GCA	p.V29A	KIF2A_uc003jsz.3_Missense_Mutation_p.V29A|KIF2A_uc010iwp.2_Missense_Mutation_p.V29A|KIF2A_uc003jsx.3_Missense_Mutation_p.V9A|KIF2A_uc010iwq.2_5'Flank	NM_004520	NP_004511	O00139	KIF2A_HUMAN	kinesin heavy chain member 2 isoform 1	29	Globular (Potential).				blood coagulation|cell differentiation|cell division|microtubule-based movement|mitotic prometaphase|mitotic spindle organization|nervous system development	centrosome|cytosol|microtubule|spindle pole	ATP binding|microtubule motor activity|protein binding				0		Lung NSC(810;8.94e-06)|Prostate(74;0.0132)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.14)		CAAGCAATGGTAACATCTTTA	0.308													6	5					0	0	0.001168	0	0		C	61642978	C	C	61642978	3	2	19	1	0	0	0	0	1	0	0	0	8313	1638	57	3	92	3	KIF2A	5	61642978	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1187159	61642978	119272282	885	14398											
DIMT1L	27292	broad.mit.edu	37	chr5	61694653	61694653	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgtatactcacgtgcccTgaactcttttgtgaagttca	9	16	7	9	1	3	2	2	2	1	0	3	2	3	2	1	0	3	2	1	0	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:61694653T>A	uc003jta.2	-	4	425	c.296A>T	c.(295-297)CAG>CTG	p.Q99L	DIMT1L_uc011cqq.1_Missense_Mutation_p.Q99L	NM_014473	NP_055288	Q9UNQ2	DIMT1_HUMAN	dimethyladenosine transferase	99						nucleolus	RNA binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			central_nervous_system(1)	1		Lung NSC(810;8.94e-06)|Prostate(74;0.0235)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.122)		TCACGTGCCCTGAACTCTTTT	0.328													8	62					0	0	0.008291	0	0		A	61694653	A	A	61694653	3	1	19	1	0	0	0	0	1	0	0	0	4529	1580	55	5	681	5	DIMT1L	5	61694653	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	51675	61694653	119220607	886	14399											
IPO11	51194	broad.mit.edu	37	chr5	61847115	61847115	+	Frame_Shift_Del	DEL	T	-	-																															gttctactacaaaacactagTtttttttcttcactacttaa																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:61847115delT	uc003jtc.2	+	26	2602	c.2412delT	c.(2410-2412)AGTfs	p.S804fs	IPO11_uc011cqr.1_Frame_Shift_Del_p.S844fs|IPO11_uc003jtd.1_RNA|IPO11_uc010iwr.2_Frame_Shift_Del_p.S69fs	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	804	HEAT 12.					cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		AAAACACTAGTTTTTTTTCTT	0.303													66	135	---	---	---	---						.	-	61847115	-	-	61847115	7	5	19	1	0	1	0	1	0	0	0	0	7809	1722	60	0	2634	0	IPO11	5	61847115	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	152462	61847115	119068145	887	14400											
PPWD1	23398	broad.mit.edu	37	chr5	64881889	64881889	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggagaaagcatatggggaGgagaatttgaagatgaattt	16	9	15	1	0	0	5	0	2	0	3	0	9	0	6	0	4	1	1	0	4	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:64881889G>T	uc003jtv.3	+	10	1685	c.1678G>T	c.(1678-1680)GGA>TGA	p.G560*	PPWD1_uc011cqv.1_Nonsense_Mutation_p.G530*|PPWD1_uc011cqw.1_Nonsense_Mutation_p.G404*	NM_015342	NP_056157	Q96BP3	PPWD1_HUMAN	peptidylprolyl isomerase domain and WD repeat	560	PPIase cyclophilin-type.				protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00451)		CATATGGGGAGGAGAATTTGA	0.408													26	137					4.7796e-09	4.98646e-09	0.004656	1	0		T	64881889	T	T	64881889	4	4	19	1	0	0	0	0	0	1	0	0	12436	1001	35	5	1716	5	PPWD1	5	64881889	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3034774	64881889	116033371	888	14401											
PPWD1	23398	broad.mit.edu	37	chr5	64883133	64883133	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagtgactaaaggaatggaAgttgtacagaggatctccaa	15	8	12	6	1	1	2	0	1	1	1	2	6	1	5	1	3	1	2	1	3	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:64883133A>G	uc003jtv.3	+	11	1858	c.1851A>G	c.(1849-1851)GAA>GAG	p.E617E	PPWD1_uc011cqv.1_Silent_p.E587E|PPWD1_uc011cqw.1_Silent_p.E461E	NM_015342	NP_056157	Q96BP3	PPWD1_HUMAN	peptidylprolyl isomerase domain and WD repeat	617	PPIase cyclophilin-type.				protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00451)		AAGGAATGGAAGTTGTACAGA	0.373													35	87					0	0	0.003755	0	0		G	64883133	G	G	64883133	2	3	19	1	0	0	0	0	0	0	0	1	12436	69	3	3		3	PPWD1	5	64883133	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1244	64883133	116032127	889	14402											
ERBB2IP	55914	broad.mit.edu	37	chr5	65309420	65309420	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttaaacctaacccagttgTatctgaatgatgcttttctt	10	17	6	8	0	2	2	0	2	2	0	2	2	2	2	2	0	3	4	2	0	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:65309420T>C	uc003juk.1	+	6	738	c.430T>C	c.(430-432)TAT>CAT	p.Y144H	ERBB2IP_uc003juh.1_Missense_Mutation_p.Y144H|ERBB2IP_uc003jui.1_Missense_Mutation_p.Y144H|ERBB2IP_uc003juj.1_Missense_Mutation_p.Y144H|ERBB2IP_uc011cqx.1_Missense_Mutation_p.Y144H|ERBB2IP_uc011cqy.1_Missense_Mutation_p.Y144H|ERBB2IP_uc011cqz.1_Missense_Mutation_p.Y144H|ERBB2IP_uc010iwx.1_Missense_Mutation_p.Y144H|ERBB2IP_uc003jul.1_Missense_Mutation_p.Y144H	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	144	LRR 6.				basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		AACCCAGTTGTATCTGAATGA	0.313													5	180					0	0	0.001168	0	0		C	65309420	C	C	65309420	3	2	19	1	0	0	0	0	1	0	0	0	5215	1638	57	3	444	3	ERBB2IP	5	65309420	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	426287	65309420	115605840	890	14403											
ERBB2IP	55914	broad.mit.edu	37	chr5	65340099	65340099	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagatttgaaaccacaTgaagatcaacaagatataaa	21	7	8	5	0	1	5	1	2	0	3	1	7	1	6	1	1	2	0	1	1	8	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:65340099T>C	uc003juk.1	+	17	1871	c.1563T>C	c.(1561-1563)CAT>CAC	p.H521H	ERBB2IP_uc003juh.1_Silent_p.H521H|ERBB2IP_uc003jui.1_Silent_p.H521H|ERBB2IP_uc003juj.1_Silent_p.H521H|ERBB2IP_uc011cqx.1_Silent_p.H521H|ERBB2IP_uc011cqy.1_Silent_p.H521H|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Silent_p.H521H|ERBB2IP_uc003jul.1_Silent_p.H521H	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	521					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		TGAAACCACATGAAGATCAAC	0.318													36	65					0	0	0.00874	0	0		C	65340099	C	C	65340099	2	2	19	1	0	0	0	0	0	0	0	1	5215	1461	51	3		3	ERBB2IP	5	65340099	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	30679	65340099	115575161	891	14404											
MAST4	375449	broad.mit.edu	37	chr5	66459345	66459345	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcaagcgcgtgcagtcCgaggagaagctgtcgccctc	7	7	13	14	4	1	1	1	0	0	1	4	3	2	1	2	1	4	3	2	1	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:66459345C>T	uc003jut.1	+	28	3839	c.3771C>T	c.(3769-3771)TCC>TCT	p.S1257S	MAST4_uc003juw.2_Silent_p.S1185S|MAST4_uc003jux.2_5'Flank	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1449						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		GCGTGCAGTCCGAGGAGAAGC	0.642													5	7					0	0	0.000602	0	0		T	66459345	T	T	66459345	2	4	19	1	0	0	0	0	0	0	0	1	9345	639	23	1		1	MAST4	5	66459345	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1119246	66459345	114455915	892	14405											
PIK3R1	5295	broad.mit.edu	37	chr5	67576452	67576452	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttacgcttcagtatttgtTaaaacatttcttcaagctct	10	17	5	9	1	4	0	2	0	2	0	4	0	4	0	0	0	3	5	0	0	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:67576452T>C	uc003jva.2	+	6	1291	c.731T>C	c.(730-732)TTA>TCA	p.L244S	PIK3R1_uc003jvb.2_Missense_Mutation_p.L244S	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	244	Rho-GAP.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoproterenol(DB01064)	CAGTATTTGTTAAAACATTTC	0.383			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			72	160					0	0	0.01441	0	0		C	67576452	C	C	67576452	3	2	19	1	0	0	0	0	1	0	0	0	11937	1764	61	3	749	3	PIK3R1	5	67576452	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1117107	67576452	113338808	893	14406											
MAP1B	4131	broad.mit.edu	37	chr5	71491781	71491781	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatcgaagacgaagagaaaCtgaaggaaactgagccagtc	18	5	11	7	2	0	4	0	2	0	2	2	8	0	5	1	1	3	0	1	1	6	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:71491781C>T	uc003kbw.3	+	5	2840	c.2599C>T	c.(2599-2601)CTG>TTG	p.L867L	MAP1B_uc010iyw.1_Silent_p.L884L|MAP1B_uc010iyx.1_Silent_p.L741L|MAP1B_uc010iyy.1_Silent_p.L741L	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	867						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		CGAAGAGAAACTGAAGGAAAC	0.488													76	167					0	0	0.01441	0	0		T	71491781	T	T	71491781	2	4	19	1	0	0	0	0	0	0	0	1	9246	564	20	4		4	MAP1B	5	71491781	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3915329	71491781	109423479	894	14407											
FCHO2	115548	broad.mit.edu	37	chr5	72313086	72313086	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctaatactacagttgaaagTttgatacaaaaatttgctga	16	13	7	5	0	0	3	0	3	0	0	0	3	0	3	0	0	4	4	0	0	7	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:72313086T>C	uc003kcl.2	+	8	863	c.747T>C	c.(745-747)AGT>AGC	p.S249S	FCHO2_uc011csl.1_Silent_p.S216S|FCHO2_uc011csk.1_Silent_p.S249S|FCHO2_uc011csm.1_Silent_p.S55S	NM_138782	NP_620137	Q0JRZ9	FCHO2_HUMAN	FCH domain only 2 isoform a	249										ovary(1)	1		Lung NSC(167;0.0465)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;4.6e-53)		CAGTTGAAAGTTTGATACAAA	0.294													2	5					0	0	0.004672	0	0		C	72313086	C	C	72313086	2	2	19	1	0	0	0	0	0	0	0	1	5802	1722	60	3		3	FCHO2	5	72313086	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	821305	72313086	108602174	895	14408											
TMEM171	134285	broad.mit.edu	37	chr5	72427510	72427510	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatatgaagaaaaagaaaatGctgcagctacattcttgcct	16	10	8	7	0	1	3	0	1	1	2	1	4	1	3	1	0	5	3	1	0	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:72427510G>A	uc003kcm.2	+	4	1132	c.928G>A	c.(928-930)GCT>ACT	p.A310T	TMEM171_uc003kcn.3_Missense_Mutation_p.A309T	NM_173490	NP_775761	Q8WVE6	TM171_HUMAN	transmembrane protein 171 isoform 1	310						integral to membrane					0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.87e-54)|Lung(70;0.115)		AAAAGAAAATGCTGCAGCTAC	0.383													54	136					0	0	0.01441	0	0		A	72427510	A	A	72427510	3	1	19	1	0	0	0	0	1	0	0	0	16113	1319	46	2	938	2	TMEM171	5	72427510	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	114424	72427510	108487750	896	14409											
HEXB	3074	broad.mit.edu	37	chr5	74016518	74016518	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctggagttccaaagatgtcaGagatatggatgacgcctatg	12	10	12	7	1	1	3	1	1	0	2	2	6	2	5	2	2	0	1	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:74016518G>C	uc003kdf.3	+	13	1676	c.1559G>C	c.(1558-1560)AGA>ACA	p.R520T	HEXB_uc003kdd.2_Missense_Mutation_p.R295T|HEXB_uc010izh.2_RNA	NM_000521	NP_000512	P07686	HEXB_HUMAN	hexosaminidase B preproprotein	520					cell death	lysosome	cation binding|protein heterodimerization activity|protein homodimerization activity			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.72e-57)		AAAGATGTCAGAGATATGGAT	0.428													22	49					0	0	0.004656	0	0		C	74016518	C	C	74016518	3	2	19	1	0	0	0	0	1	0	0	0	7090	942	33	5	1609	5	HEXB	5	74016518	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1589008	74016518	106898742	897	14410											
GFM2	84340	broad.mit.edu	37	chr5	74026118	74026118	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagtttaggatggtctctcGatatgccacctggagaggcc	8	11	13	9	1	1	2	0	1	1	1	3	5	1	3	3	4	1	1	3	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:74026118G>A	uc003kdh.1	-	17	1997	c.1693C>T	c.(1693-1695)CGA>TGA	p.R565*	GFM2_uc003kdi.1_Nonsense_Mutation_p.R518*|GFM2_uc010izj.1_Nonsense_Mutation_p.R597*|GFM2_uc010izk.1_Intron	NM_032380	NP_115756	Q969S9	RRF2M_HUMAN	mitochondrial elongation factor G2 isoform 1	565					mitochondrial translation|ribosome disassembly	mitochondrion	GTP binding|GTPase activity				0		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.86e-56)		ATGGTCTCTCGATATGCCACC	0.368													27	67					0	0	0.008361	0	0		A	74026118	A	A	74026118	4	1	19	1	0	0	0	0	0	1	0	0	6357	1066	37	1	666	1	GFM2	5	74026118	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	9600	74026118	106889142	898	14411											
POC5	134359	broad.mit.edu	37	chr5	74981304	74981304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttttattatttgtggagtCtatccctataaatcacaaat	12	18	4	7	0	2	0	1	0	1	0	3	1	3	1	1	1	0	0	1	1	7	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:74981304C>T	uc003keh.3	-	10	1332	c.1135G>A	c.(1135-1137)GAC>AAC	p.D379N	POC5_uc010izu.2_Missense_Mutation_p.D262N|POC5_uc003keg.3_Missense_Mutation_p.D354N	NM_001099271	NP_001092741	Q8NA72	POC5_HUMAN	proteome of centriole 5 isoform 1	379					cell cycle	centriole				lung(1)	1						TTTGTGGAGTCTATCCCTATA	0.378													10	143					0	0	0.006214	0	0		T	74981304	T	T	74981304	3	4	19	1	0	0	0	0	1	0	0	0	12196	913	32	4	604	4	POC5	5	74981304	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	955186	74981304	105933956	899	14412											
PDE8B	8622	broad.mit.edu	37	chr5	76714268	76714268	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacattttcaagaatattgAcaggtttgttgtgctggggc	10	14	11	6	0	1	2	1	1	0	1	1	2	1	2	0	3	2	3	0	3	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:76714268A>G	uc003kfa.2	+	18	2171	c.2126A>G	c.(2125-2127)GAC>GGC	p.D709G	PDE8B_uc003kfb.2_Missense_Mutation_p.D689G|PDE8B_uc003kfc.2_Missense_Mutation_p.D654G|PDE8B_uc003kfd.2_Missense_Mutation_p.D662G|PDE8B_uc003kfe.2_Missense_Mutation_p.D612G	NM_003719	NP_003710	O95263	PDE8B_HUMAN	phosphodiesterase 8B isoform 1	709	Catalytic (By similarity).				cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity				0		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)		AAGAATATTGACAGGTTTGTT	0.463													3	36					0	0	0.004672	0	0		G	76714268	G	G	76714268	3	3	19	1	0	0	0	0	1	0	0	0	11673	275	10	3	2196	3	PDE8B	5	76714268	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1732964	76714268	104200992	900	14413											
CMYA5	202333	broad.mit.edu	37	chr5	79027098	79027098	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacagttctgtcagtagacgGcaaggaggtcattggaccat	11	9	12	9	1	3	1	2	0	1	1	3	3	3	3	1	4	0	3	1	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:79027098G>T	uc003kgc.2	+	2	2582	c.2510G>T	c.(2509-2511)GGC>GTC	p.G837V		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	837						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TCAGTAGACGGCAAGGAGGTC	0.458													30	56					1.13719e-10	1.19153e-10	0.008361	1	0		T	79027098	T	T	79027098	3	4	19	1	0	0	0	0	1	0	0	0	3593	1203	42	5	2516	5	CMYA5	5	79027098	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2312830	79027098	101888162	901	14414											
MSH3	4437	broad.mit.edu	37	chr5	80074641	80074641	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttgactgcagtgctgaatgGcttgattttctagagtgagt	8	15	12	6	0	1	5	0	4	1	1	1	5	1	5	0	1	2	3	0	1	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:80074641G>A	uc003kgz.2	+	17	2674	c.2421G>A	c.(2419-2421)TGG>TGA	p.W807*		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	807					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		GTGCTGAATGGCTTGATTTTC	0.373								MMR					36	81					0	0	0.003755	0	0		A	80074641	A	A	80074641	4	1	19	1	0	0	0	0	0	1	0	0	9889	1212	42	2	2487	2	MSH3	5	80074641	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1047543	80074641	100840619	902	14415											
RASGRF2	5924	broad.mit.edu	37	chr5	80382666	80382666	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcacagagtaatgcacgaTgaagtcagcgacactgaaaa	16	7	10	8	2	2	3	2	2	0	1	2	5	2	3	0	0	2	2	0	0	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:80382666T>C	uc003kha.1	+	9	1284	c.1284T>C	c.(1282-1284)GAT>GAC	p.D428D	RASGRF2_uc011ctn.1_RNA|RASGRF2_uc003khb.1_Silent_p.D256D	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	428	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		TAATGCACGATGAAGTCAGCG	0.468													5	54					0	0	0.000602	0	0		C	80382666	C	C	80382666	2	2	19	1	0	0	0	0	0	0	0	1	13098	1461	51	3		3	RASGRF2	5	80382666	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	308025	80382666	100532594	903	14416											
ZCCHC9	84240	broad.mit.edu	37	chr5	80600735	80600735	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatccctcaaaaatgatgcAccccaagcaaaacataaaaa	20	6	3	12	0	1	1	1	1	0	0	2	1	2	1	3	0	3	2	3	0	9	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:80600735A>G	uc003khj.2	+	2	292	c.159A>G	c.(157-159)GCA>GCG	p.A53A	RNU5E_uc011cto.1_Intron|ZCCHC9_uc003khk.3_Silent_p.A53A|ZCCHC9_uc003khi.2_Silent_p.A53A	NM_001131035	NP_001124507	Q8N567	ZCHC9_HUMAN	zinc finger, CCHC domain containing 9	53							nucleic acid binding|zinc ion binding			ovary(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;8.18e-45)|Epithelial(54;2.72e-39)|all cancers(79;7.33e-34)		AAAATGATGCACCCCAAGCAA	0.388													23	53					0	0	0.00278	0	0		G	80600735	G	G	80600735	2	3	19	1	0	0	0	0	0	0	0	1	17620	146	6	3		3	ZCCHC9	5	80600735	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	218069	80600735	100314525	904	14417											
SSBP2	23635	broad.mit.edu	37	chr5	80762804	80762804	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcttacatgttcattccAggcattccagggccacctaa	10	12	7	12	0	1	0	1	0	0	0	3	0	3	0	4	2	2	3	4	2	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:80762804A>G	uc003kho.2	-	9	838	c.627T>C	c.(625-627)CCT>CCC	p.P209P	SSBP2_uc010jar.2_Silent_p.P97P|SSBP2_uc003khn.2_Silent_p.P83P|SSBP2_uc003khp.2_Silent_p.P217P|SSBP2_uc011ctp.1_Silent_p.P189P|SSBP2_uc011ctq.1_Silent_p.P187P|SSBP2_uc011ctr.1_Silent_p.P179P	NM_012446	NP_036578	P81877	SSBP2_HUMAN	single-stranded DNA binding protein 2	209	Gly-rich.|Pro-rich.				regulation of transcription, DNA-dependent	cytoplasm|nucleus	single-stranded DNA binding		SSBP2/JAK2(4)	haematopoietic_and_lymphoid_tissue(4)|skin(1)	5		Lung NSC(167;0.00154)|all_lung(232;0.00179)|Ovarian(174;0.0338)		OV - Ovarian serous cystadenocarcinoma(54;1.07e-41)|Epithelial(54;2.79e-35)|all cancers(79;1.18e-29)		TGTTCATTCCAGGCATTCCAG	0.338													33	60					0	0	0.004878	0	0		G	80762804	G	G	80762804	2	3	19	1	0	0	0	0	0	0	0	1	15205	175	7	3		3	SSBP2	5	80762804	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	162069	80762804	100152456	905	14418											
LYSMD3	116068	broad.mit.edu	37	chr5	89815165	89815165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtattgaacagatgaatgaCgtgaagtctgtcttcctttt	11	15	9	6	1	2	5	0	4	2	1	3	5	3	5	1	0	1	1	1	0	4	5	rs139750200	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:89815165C>T	uc003kjr.2	-	3	540	c.392G>A	c.(391-393)CGT>CAT	p.R131H	LYSMD3_uc010jaz.1_Intron|LYSMD3_uc003kjs.1_Silent_p.T111T	NM_198273	NP_938014	Q7Z3D4	LYSM3_HUMAN	LysM, putative peptidoglycan-binding, domain	131	Extracellular (Potential).				cell wall macromolecule catabolic process	integral to membrane					0		all_cancers(142;5.03e-09)|all_epithelial(76;1.23e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;1.94e-31)|Epithelial(54;5.22e-26)|all cancers(79;2.42e-22)		AGATGAATGACGTGAAGTCTG	0.383													43	100					0	0	0.011902	0	0		T	89815165	T	T	89815165	3	4	19	1	0	0	0	0	1	0	0	0	9144	536	19	1	532	1	LYSMD3	5	89815165	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	9052361	89815165	91100095	906	14419											
GPR98	84059	broad.mit.edu	37	chr5	89948258	89948258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgggcaggagttctatgAaacttcaggaactgttaact	11	11	11	8	0	2	1	1	1	1	0	2	3	2	3	1	3	3	3	1	3	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:89948258A>G	uc003kju.2	+	19	3608	c.3512A>G	c.(3511-3513)GAA>GGA	p.E1171G	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1171	Calx-beta 9.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GAGTTCTATGAAACTTCAGGA	0.393													32	97					0	0	0.009535	0	0		G	89948258	G	G	89948258	3	3	19	1	0	0	0	0	1	0	0	0	6737	246	9	3	3586	3	GPR98	5	89948258	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	133093	89948258	90967002	907	14420											
GPR98	84059	broad.mit.edu	37	chr5	89979549	89979549	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcactgtggagatattgccTgacgaagacccagaactgga	13	8	11	9	1	1	4	1	1	0	3	1	7	1	5	2	2	2	0	2	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:89979549T>C	uc003kju.2	+	28	5907	c.5811T>C	c.(5809-5811)CCT>CCC	p.P1937P	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1937	Calx-beta 13.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AGATATTGCCTGACGAAGACC	0.473													16	37					0	0	0.00499	0	0		C	89979549	C	C	89979549	2	2	19	1	0	0	0	0	0	0	0	1	6737	1567	55	3		3	GPR98	5	89979549	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	31291	89979549	90935711	908	14421											
GPR98	84059	broad.mit.edu	37	chr5	89992933	89992933	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaattgttagctttcagAcagcttccagatctgtcata	11	13	8	9	0	3	2	2	0	1	2	4	3	4	3	1	1	2	3	1	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:89992933A>G	uc003kju.2	+	34	8221	c.8125A>G	c.(8125-8127)ACA>GCA	p.T2709A	GPR98_uc003kjt.2_Missense_Mutation_p.T415A|GPR98_uc003kjv.2_Missense_Mutation_p.T309A	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2709	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TAGCTTTCAGACAGCTTCCAG	0.393													44	71					0	0	0.009718	0	0		G	89992933	G	G	89992933	3	3	19	1	0	0	0	0	1	0	0	0	6737	275	10	3	8259	3	GPR98	5	89992933	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	13384	89992933	90922327	909	14422											
GPR98	84059	broad.mit.edu	37	chr5	90040924	90040924	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggaattcggagcgtaaTcaattctcttttgttctgga	8	16	10	7	2	3	0	1	0	2	0	5	3	3	3	0	3	2	3	0	3	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:90040924T>A	uc003kju.2	+	51	10707	c.10611T>A	c.(10609-10611)AAT>AAA	p.N3537K	GPR98_uc003kjt.2_Missense_Mutation_p.N1243K|GPR98_uc003kjv.2_Missense_Mutation_p.N1137K	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3537	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CGGAGCGTAATCAATTCTCTT	0.393													17	415					0	0	0.010504	0	0		A	90040924	A	A	90040924	3	1	19	1	0	0	0	0	1	0	0	0	6737	1432	50	5	10813	5	GPR98	5	90040924	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	47991	90040924	90874336	910	14423											
GPR98	84059	broad.mit.edu	37	chr5	90041428	90041428	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggtgaactgatatttgAacctggtgagagagaagcta	13	11	12	5	0	1	5	1	4	0	2	1	7	1	5	1	2	3	1	1	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:90041428A>G	uc003kju.2	+	52	10886	c.10790A>G	c.(10789-10791)GAA>GGA	p.E3597G	GPR98_uc003kjt.2_Missense_Mutation_p.E1303G|GPR98_uc003kjv.2_Missense_Mutation_p.E1197G	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3597	Calx-beta 23.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CTGATATTTGAACCTGGTGAG	0.313													13	37					0	0	0.004007	0	0		G	90041428	G	G	90041428	3	3	19	1	0	0	0	0	1	0	0	0	6737	246	9	3	10996	3	GPR98	5	90041428	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	504	90041428	90873832	911	14424											
GPR98	84059	broad.mit.edu	37	chr5	90261245	90261245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacagattctgtttctggCgtctgcatacgcaagtcccc	7	13	8	13	2	3	1	0	0	3	1	4	1	4	1	2	1	3	3	2	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:90261245C>T	uc003kju.2	+	84	17966	c.17870C>T	c.(17869-17871)GCG>GTG	p.A5957V	GPR98_uc003kjt.2_Missense_Mutation_p.A3663V|GPR98_uc003kjw.2_Missense_Mutation_p.A1618V|GPR98_uc003kjx.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	5957	Helical; (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CTGTTTCTGGCGTCTGCATAC	0.383													5	95					0	0	0.000602	0	0		T	90261245	T	T	90261245	3	4	19	1	0	0	0	0	1	0	0	0	6737	768	27	1	18204	1	GPR98	5	90261245	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	219817	90261245	90654015	912	14425											
ARRDC3	57561	broad.mit.edu	37	chr5	90670962	90670962	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaccattcgggaagagcagTtctcaatctcagcaaatatc	13	9	7	12	1	2	1	2	0	2	1	6	2	2	2	2	1	2	3	2	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:90670962T>C	uc003kjz.2	-	5	887	c.647A>G	c.(646-648)AAC>AGC	p.N216S		NM_020801	NP_065852	Q96B67	ARRD3_HUMAN	arrestin domain containing 3	216					signal transduction	cytoplasm	protein binding			ovary(1)|breast(1)	2		all_cancers(142;2.22e-05)|all_epithelial(76;1.58e-07)|all_lung(232;0.000521)|Lung NSC(167;0.000548)|Ovarian(174;0.0798)|Colorectal(57;0.207)		OV - Ovarian serous cystadenocarcinoma(54;4.56e-30)|Epithelial(54;7.55e-26)|all cancers(79;3.63e-22)		GGAAGAGCAGTTCTCAATCTC	0.383													7	47					0	0	0.001984	0	0		C	90670962	C	C	90670962	3	2	19	1	0	0	0	0	1	0	0	0	985	1725	60	3	613	3	ARRDC3	5	90670962	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	409717	90670962	90244298	913	14426											
FAM81B	153643	broad.mit.edu	37	chr5	94772530	94772530	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctcttaggaaagatagaAactgccagtcctgagcaaac	15	7	9	10	0	1	3	0	1	1	2	2	4	2	4	2	1	5	2	2	1	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:94772530A>G	uc003kla.1	+	7	859	c.813A>G	c.(811-813)GAA>GAG	p.E271E	FAM81B_uc010jbe.1_Silent_p.E67E	NM_152548	NP_689761	Q96LP2	FA81B_HUMAN	hypothetical protein LOC153643	271										ovary(1)|skin(1)	2		all_cancers(142;1.1e-06)|all_epithelial(76;1.48e-09)|all_lung(232;0.000696)|Lung NSC(167;0.000947)|Ovarian(225;0.00473)		all cancers(79;1.04e-16)		GAAAGATAGAAACTGCCAGTC	0.388													18	64					0	0	0.010504	0	0		G	94772530	G	G	94772530	2	3	19	1	0	0	0	0	0	0	0	1	5643	11	1	3		3	FAM81B	5	94772530	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4101568	94772530	86142730	914	14427											
ELL2	22936	broad.mit.edu	37	chr5	95234064	95234064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatttggtccttttccttatGttttttagacttctttttgg	4	25	6	6	0	1	1	0	0	1	1	3	1	3	1	2	2	0	1	2	2	3	11			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:95234064G>A	uc003klr.3	-	8	1755	c.1405C>T	c.(1405-1407)CAT>TAT	p.H469Y		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	469					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		TTTTCCTTATGTTTTTTAGAC	0.378													79	198					0	0	0.01441	0	0		A	95234064	A	A	95234064	3	1	19	1	0	0	0	0	1	0	0	0	5071	1377	48	4	537	4	ELL2	5	95234064	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	461534	95234064	85681196	915	14428											
ELL2	22936	broad.mit.edu	37	chr5	95249542	95249542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gattcctcctctgcctgggtCattctttctcgtgtcatctg	3	17	8	13	1	6	0	2	0	4	0	9	1	8	0	3	1	1	0	3	1	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:95249542C>T	uc003klr.3	-	4	764	c.414G>A	c.(412-414)ATG>ATA	p.M138I		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	138					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		CTGCCTGGGTCATTCTTTCTC	0.448													24	209					0	0	0.00278	0	0		T	95249542	T	T	95249542	3	4	19	1	0	0	0	0	1	0	0	0	5071	826	29	4	1544	4	ELL2	5	95249542	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	15478	95249542	85665718	916	14429											
LNPEP	4012	broad.mit.edu	37	chr5	96322246	96322246	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccctttgcttgtagaagTcatcagtcgttctagatgat	8	16	8	9	1	3	3	2	1	1	2	5	3	4	3	2	0	1	3	2	0	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:96322246T>C	uc003kmv.1	+	4	1517	c.1003T>C	c.(1003-1005)TCA>CCA	p.S335P	LNPEP_uc003kmw.1_Missense_Mutation_p.S321P	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1	335	Extracellular (Potential).				cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		CTTGTAGAAGTCATCAGTCGT	0.368													7	162					0	0	0.001984	0	0		C	96322246	C	C	96322246	3	2	19	1	0	0	0	0	1	0	0	0	8881	1667	58	3	1017	3	LNPEP	5	96322246	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1072704	96322246	84593014	917	14430											
LNPEP	4012	broad.mit.edu	37	chr5	96332172	96332172	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgccactttcatggagtatTtctctttggaaaaaatattc	11	17	6	7	0	2	0	1	0	1	0	4	2	2	2	1	2	1	1	1	2	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:96332172T>C	uc003kmv.1	+	7	2000	c.1486T>C	c.(1486-1488)TTC>CTC	p.F496L	LNPEP_uc003kmw.1_Missense_Mutation_p.F482L	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1	496	Extracellular (Potential).				cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		CATGGAGTATTTCTCTTTGGA	0.378													5	59					0	0	0.001168	0	0		C	96332172	C	C	96332172	3	2	19	1	0	0	0	0	1	0	0	0	8881	1841	64	3	1512	3	LNPEP	5	96332172	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	9926	96332172	84583088	918	14431											
PPIP5K2	23262	broad.mit.edu	37	chr5	102508909	102508909	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagattgccaaaggctactgTactcctctggttagaaaaat	13	11	9	8	0	1	2	0	0	1	2	2	3	2	2	2	2	3	3	2	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:102508909T>C	uc003kod.3	+	20	2856	c.2337T>C	c.(2335-2337)TGT>TGC	p.C779C	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Silent_p.C779C|PPIP5K2_uc003kof.2_Silent_p.C80C	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	779					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						AAGGCTACTGTACTCCTCTGG	0.353													28	58					0	0	0.007291	0	0		C	102508909	C	C	102508909	2	2	19	1	0	0	0	0	0	0	0	1	12355	1644	57	3		3	PPIP5K2	5	102508909	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	6176737	102508909	78406351	919	14432											
CAMK4	814	broad.mit.edu	37	chr5	110710600	110710600	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcttcttcgcctctcacAtccaaacattgtaagtggtt	9	15	6	11	1	3	0	1	0	3	0	6	0	4	0	2	1	1	3	2	1	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:110710600A>G	uc011cvj.1	+	4	392	c.293A>G	c.(292-294)CAT>CGT	p.H98R	CAMK4_uc003kpf.2_Missense_Mutation_p.H98R|CAMK4_uc010jbv.2_Intron	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	98	Protein kinase.				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		CGCCTCTCACATCCAAACATT	0.388													13	45					0	0	0.00245	0	0		G	110710600	G	G	110710600	3	3	19	1	0	0	0	0	1	0	0	0	2608	217	8	3	303	3	CAMK4	5	110710600	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	8201691	110710600	70204660	920	14433											
APC	324	broad.mit.edu	37	chr5	112176653	112176653	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatactgaatataggacaCgtgtaagaaaaaatgcagac	21	7	8	5	1	0	3	0	1	0	2	0	4	0	4	0	1	2	2	0	1	10	4	rs140073303		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:112176653C>T	uc010jby.2	+	16	5742	c.5362C>T	c.(5362-5364)CGT>TGT	p.R1788C	APC_uc011cvt.1_Missense_Mutation_p.R1770C|APC_uc003kpz.3_Missense_Mutation_p.R1788C|APC_uc003kpy.3_Missense_Mutation_p.R1788C|APC_uc010jbz.2_Missense_Mutation_p.R1505C|APC_uc010jca.2_Missense_Mutation_p.R1088C	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1788	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.K1192fs*3(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		ATATAGGACACGTGTAAGAAA	0.318		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			18	34					0	0	0.006122	0	0		T	112176653	T	T	112176653	3	4	19	1	0	0	0	0	1	0	0	0	763	536	19	1	5420	1	APC	5	112176653	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1466053	112176653	68738607	921	14434											
FTMT	94033	broad.mit.edu	37	chr5	121187847	121187847	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccctaccgggcccgccgcCggcccctctcgggtgcgcca	3	4	13	21	6	1	0	0	0	1	0	2	1	1	0	8	3	2	0	8	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:121187847C>T	uc003kss.2	+	1	198	c.189C>T	c.(187-189)GCC>GCT	p.A63A		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	63					cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		GGCCCGCCGCCGGCCCCTCTC	0.726													8	21					0	0	0.00308	0	0		T	121187847	T	T	121187847	2	4	19	1	0	0	0	0	0	0	0	1	6099	639	23	1		1	FTMT	5	121187847	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	9011194	121187847	59727413	922	14435											
PPIC	5480	broad.mit.edu	37	chr5	122365031	122365031	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagagcaacaaaattttccActgtcttgggcacaactttt	12	13	6	10	0	1	1	0	0	1	1	2	1	2	1	1	1	3	2	1	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:122365031A>G	uc003kth.2	-	2	305	c.200T>C	c.(199-201)GTG>GCG	p.V67A	PPIC_uc011cwp.1_Missense_Mutation_p.V67A	NM_000943	NP_000934	P45877	PPIC_HUMAN	peptidylprolyl isomerase C	67	PPIase cyclophilin-type.				protein folding|signal transduction	cytoplasm	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity|unfolded protein binding			ovary(1)	1		all_cancers(142;0.0168)|Prostate(80;0.0322)|Lung NSC(810;0.102)|all_lung(232;0.163)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	OV - Ovarian serous cystadenocarcinoma(64;0.000331)|Epithelial(69;0.000553)|all cancers(49;0.00505)	L-Proline(DB00172)	AAAATTTTCCACTGTCTTGGG	0.388													44	122					0	0	0.01441	0	0		G	122365031	G	G	122365031	3	3	19	1	0	0	0	0	1	0	0	0	12342	159	6	3	454	3	PPIC	5	122365031	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1177184	122365031	58550229	923	14436											
CEP120	153241	broad.mit.edu	37	chr5	122708465	122708465	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttattttcagcatcattaAgctgtattaaaaaaagttta	16	16	4	5	0	2	0	2	0	0	0	2	0	2	0	0	0	2	4	0	0	8	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:122708465A>G	uc003ktk.2	-	18	2442	c.2360T>C	c.(2359-2361)CTT>CCT	p.L787P	CEP120_uc011cwq.1_Missense_Mutation_p.L596P	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	787	Potential.					centrosome				ovary(1)	1						AGCATCATTAAGCTGTATTAA	0.289													9	21					0	0	0.004482	0	0		G	122708465	G	G	122708465	3	3	19	1	0	0	0	0	1	0	0	0	3249	86	3	3	616	3	CEP120	5	122708465	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	343434	122708465	58206795	924	14437											
CEP120	153241	broad.mit.edu	37	chr5	122729096	122729096	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtttgggttgattaaatcAttgaagggttcatttgtaac	12	16	10	3	0	2	2	2	2	0	0	2	2	2	2	0	2	1	4	0	2	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:122729096A>G	uc003ktk.2	-	7	790	c.708T>C	c.(706-708)AAT>AAC	p.N236N	CEP120_uc011cwq.1_Silent_p.N45N|CEP120_uc010jcz.1_Silent_p.N210N	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	236						centrosome				ovary(1)	1						TGATTAAATCATTGAAGGGTT	0.388													17	121					0	0	0.00499	0	0		G	122729096	G	G	122729096	2	3	19	1	0	0	0	0	0	0	0	1	3249	214	8	3		3	CEP120	5	122729096	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	20631	122729096	58186164	925	14438											
ZNF608	57507	broad.mit.edu	37	chr5	123984436	123984436	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgattaacactggagaagaGcagccttggtccaaaaaagt	15	8	10	8	1	0	2	0	0	0	2	2	4	1	2	2	2	3	1	2	2	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:123984436G>A	uc003ktq.1	-	4	1764	c.1641C>T	c.(1639-1641)TGC>TGT	p.C547C	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Silent_p.C547C|ZNF608_uc003ktt.1_Silent_p.C547C	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	547						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		CTGGAGAAGAGCAGCCTTGGT	0.502													60	109					0	0	0.01441	0	0		A	123984436	A	A	123984436	2	1	19	1	0	0	0	0	0	0	0	1	18059	963	34	2		2	ZNF608	5	123984436	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1255340	123984436	56930824	926	14439											
PHAX	51808	broad.mit.edu	37	chr5	125936659	125936659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcaccgcgggaagatggCgttggaggtcggcgatatgg	8	6	19	8	6	0	1	0	0	0	1	1	4	0	3	1	6	1	2	1	6	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:125936659C>T	uc003kua.1	+	1	27	c.5C>T	c.(4-6)GCG>GTG	p.A2V		NM_032177	NP_115553	Q9H814	PHAX_HUMAN	RNA U, small nuclear RNA export adaptor	2	Necessary for interaction with CBP80 (By similarity).				ncRNA metabolic process|protein transport|snRNA export from nucleus|spliceosomal snRNP assembly	Cajal body|cytosol	RNA binding				0						GGGAAGATGGCGTTGGAGGTC	0.692													4	14					0	0	0.009096	0	0		T	125936659	T	T	125936659	3	4	19	1	0	0	0	0	1	0	0	0	11832	768	27	1	7	1	PHAX	5	125936659	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1952223	125936659	54978601	927	14440											
PRRC1	133619	broad.mit.edu	37	chr5	126860489	126860489	+	Frame_Shift_Del	DEL	C	-	-																															caaacactcttttacctgcaCccccttcgggtcctcctata																								rs149336967		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:126860489delC	uc003kuk.2	+	3	550	c.370delC	c.(370-372)CCCfs	p.P124fs	PRRC1_uc003kuj.3_Frame_Shift_Del_p.P124fs	NM_130809	NP_570721	Q96M27	PRRC1_HUMAN	proline-rich coiled-coil 1	124	Pro-rich.					Golgi apparatus					0		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0851)|Epithelial(69;0.113)		TTTACCTGCACCCCCTTCGGG	0.517													145	279	---	---	---	---						.	-	126860489	-	-	126860489	7	5	19	1	0	1	0	1	0	0	0	0	12626	507	18	0	376	0	PRRC1	5	126860489	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	923830	126860489	54054771	928	14441											
SLC12A2	6558	broad.mit.edu	37	chr5	127486967	127486967	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttcaaatactacaacatgtgGatatcacttcttggagcaat	14	13	6	8	0	3	0	2	0	1	0	3	2	3	2	0	2	4	1	0	2	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:127486967G>C	uc003kus.2	+	14	2306	c.2142G>C	c.(2140-2142)TGG>TGC	p.W714C	SLC12A2_uc010jdf.2_RNA|SLC12A2_uc010jdg.2_Missense_Mutation_p.W714C	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12	714	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity	p.W714C(1)		ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	ACAACATGTGGATATCACTTC	0.363													7	171					0	0	0.001984	0	0		C	127486967	C	C	127486967	3	2	19	1	0	0	0	0	1	0	0	0	14408	1183	41	5	2196	5	SLC12A2	5	127486967	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	626478	127486967	53428293	929	14442											
FBN2	2201	broad.mit.edu	37	chr5	127686661	127686661	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcacctcacagcggctgTcctggatgttgagccaacag	9	10	10	12	1	2	1	2	1	0	0	3	2	3	2	3	2	3	2	3	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:127686661T>A	uc003kuu.2	-	21	3150	c.2711A>T	c.(2710-2712)GAC>GTC	p.D904V	FBN2_uc003kuv.2_Missense_Mutation_p.D871V	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	904	TB 4.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		ACAGCGGCTGTCCTGGATGTT	0.527													19	65					0	0	0.008871	0	0		A	127686661	A	A	127686661	3	1	19	1	0	0	0	0	1	0	0	0	5717	1667	58	5	6207	5	FBN2	5	127686661	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	199694	127686661	53228599	930	14443											
CHSY3	337876	broad.mit.edu	37	chr5	129241153	129241153	+	Frame_Shift_Del	DEL	C	-	-																															agttcttttccagccagcagCcccccaacgccggccagccc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:129241153delC	uc003kvd.2	+	1	631	c.631delC	c.(631-633)CCCfs	p.P211fs		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	211	Lumenal (Potential).|Pro-rich.					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		CAGCCAGCAGCCCCCCAACGC	0.667													16	35	---	---	---	---						.	-	129241153	-	-	129241153	7	5	19	1	0	1	0	1	0	0	0	0	3416	739	26	0	633	0	CHSY3	5	129241153	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	1554492	129241153	51674107	931	14444											
FNIP1	96459	broad.mit.edu	37	chr5	131008113	131008113	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactgtctctaacttggcgTcaaagcaagttcttaattta	12	14	6	9	1	3	0	1	0	2	0	4	0	3	0	0	1	3	2	0	1	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:131008113T>A	uc003kvs.1	-	14	2166	c.2024A>T	c.(2023-2025)GAC>GTC	p.D675V	RAPGEF6_uc003kvp.1_Intron|FNIP1_uc003kvt.1_Missense_Mutation_p.D647V|FNIP1_uc010jdm.1_Missense_Mutation_p.D630V	NM_133372	NP_588613	Q8TF40	FNIP1_HUMAN	folliculin interacting protein 1 isoform 1	675					regulation of protein phosphorylation	cytoplasm	protein binding			pancreas(1)|skin(1)	2		all_cancers(142;0.00347)|Lung NSC(810;0.106)|all_lung(232;0.123)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0665)		TAACTTGGCGTCAAAGCAAGT	0.413													11	312					0	0	0.013537	0	0		A	131008113	A	A	131008113	3	1	19	1	0	0	0	0	1	0	0	0	5989	1667	58	5	1496	5	FNIP1	5	131008113	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1766960	131008113	49907147	932	14445											
DDX46	9879	broad.mit.edu	37	chr5	134099624	134099624	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacgatcggcatcccggggTcgctctggaagtcggtctag	8	8	14	11	5	2	0	0	0	2	0	6	2	3	1	1	5	1	2	1	5	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:134099624T>C	uc003kzw.2	+	2	216	c.48T>C	c.(46-48)GGT>GGC	p.G16G	DDX46_uc003kzv.1_RNA	NM_014829	NP_055644	Q7L014	DDX46_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46	16	Arg-rich.				mRNA processing|RNA splicing	Cajal body|nuclear speck	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CATCCCGGGGTCGCTCTGGAA	0.423													13	75					0	0	0.003163	0	0		C	134099624	C	C	134099624	2	2	19	1	0	0	0	0	0	0	0	1	4367	1654	58	3		3	DDX46	5	134099624	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3091511	134099624	46815636	933	14446											
TXNDC15	79770	broad.mit.edu	37	chr5	134235275	134235275	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggactggttgcttgtatTttccttattctttttaatta	6	23	7	5	0	1	0	0	0	1	0	2	1	2	1	1	2	1	3	1	2	4	11			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:134235275T>C	uc003lac.1	+	5	1641	c.983T>C	c.(982-984)TTT>TCT	p.F328S	TXNDC15_uc010jdy.1_RNA|TXNDC15_uc011cxv.1_RNA	NM_024715	NP_078991	Q96J42	TXD15_HUMAN	disulfide isomerase precursor	328	Helical; (Potential).				cell redox homeostasis	integral to membrane				ovary(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TTGCTTGTATTTTCCTTATTC	0.408													4	144					0	0	0.009096	0	0		C	134235275	C	C	134235275	3	2	19	1	0	0	0	0	1	0	0	0	16820	1841	64	3	1001	3	TXNDC15	5	134235275	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	135651	134235275	46679985	934	14447											
H2AFY	9555	broad.mit.edu	37	chr5	134724776	134724776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcttcttcccaccgcggCtcgacatggcggtggccctg	4	10	11	16	4	2	0	0	0	2	0	4	1	3	0	3	4	0	1	3	4	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:134724776C>T	uc003lam.1	-	2	218	c.8G>A	c.(7-9)AGC>AAC	p.S3N	H2AFY_uc003lao.1_Missense_Mutation_p.S3N|H2AFY_uc003lan.1_Missense_Mutation_p.S3N|H2AFY_uc003lap.1_RNA|H2AFY_uc003laq.1_RNA|H2AFY_uc003lar.1_RNA|H2AFY_uc011cxz.1_Missense_Mutation_p.S3N|H2AFY_uc003las.1_Missense_Mutation_p.S3N|H2AFY_uc003lat.1_Missense_Mutation_p.S3N	NM_138610	NP_613258	O75367	H2AY_HUMAN	H2A histone family, member Y isoform 3	3	Histone H2A.				chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CCCACCGCGGCTCGACATGGC	0.617													8	55					0	0	0.00308	0	0		T	134724776	T	T	134724776	3	4	19	1	0	0	0	0	1	0	0	0	6945	797	28	2	1237	2	H2AFY	5	134724776	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	489501	134724776	46190484	935	14448											
BRD8	10902	broad.mit.edu	37	chr5	137498869	137498869	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtctgccagtgtgtgtgaCtgcagtgtagcattgtgtat	7	14	14	6	0	1	1	0	1	1	0	1	2	1	1	1	0	3	4	1	0	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:137498869C>G	uc003lcf.1	-	15	2092	c.2037G>C	c.(2035-2037)CAG>CAC	p.Q679H	BRD8_uc003lcc.1_RNA|BRD8_uc011cyl.1_Missense_Mutation_p.Q458H|BRD8_uc003lcg.2_Missense_Mutation_p.Q752H|BRD8_uc003lci.2_Missense_Mutation_p.Q682H|BRD8_uc003lch.2_Missense_Mutation_p.Q573H|BRD8_uc011cym.1_Missense_Mutation_p.Q663H|BRD8_uc010jer.1_Missense_Mutation_p.Q648H|BRD8_uc011cyn.1_Missense_Mutation_p.Q638H	NM_139199	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 2	679					cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GTGTGTGTGACTGCAGTGTAG	0.493													10	74					0	0	0.013537	0	0		G	137498869	G	G	137498869	3	3	19	1	0	0	0	0	1	0	0	0	1509	564	20	5	1786	5	BRD8	5	137498869	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2774093	137498869	43416391	936	14449											
HSPA9	3313	broad.mit.edu	37	chr5	137892147	137892147	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagcccttgtacctttttGtatgccatttcgaacagctt	7	17	6	11	1	1	0	1	0	0	0	2	1	1	0	3	0	5	3	3	0	3	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:137892147G>A	uc003ldf.2	-	16	2064	c.1956C>T	c.(1954-1956)TAC>TAT	p.Y652Y	HSPA9_uc003lde.2_Silent_p.Y69Y	NM_004134	NP_004125	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 precursor	652					anti-apoptosis|protein folding	cell surface|mitochondrial nucleoid	ATP binding|unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GTACCTTTTTGTATGCCATTT	0.463													93	230					0	0	0.01441	0	0		A	137892147	A	A	137892147	2	1	19	1	0	0	0	0	0	0	0	1	7433	1372	48	4		4	HSPA9	5	137892147	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	393278	137892147	43023113	937	14450											
HSPA9	3313	broad.mit.edu	37	chr5	137895576	137895576	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcttcttggttggaatagTggtattcctattaataagtt	9	18	9	5	0	2	0	0	0	2	0	3	1	3	1	1	3	0	4	1	3	6	10			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:137895576T>C	uc003ldf.2	-	11	1495	c.1387A>G	c.(1387-1389)ACT>GCT	p.T463A	HSPA9_uc003lde.2_5'Flank|HSPA9_uc011cyw.1_Missense_Mutation_p.T394A	NM_004134	NP_004125	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 precursor	463					anti-apoptosis|protein folding	cell surface|mitochondrial nucleoid	ATP binding|unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GTTGGAATAGTGGTATTCCTA	0.458													13	37					0	0	0.003163	0	0		C	137895576	C	C	137895576	3	2	19	1	0	0	0	0	1	0	0	0	7433	1696	59	3	680	3	HSPA9	5	137895576	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3429	137895576	43019684	938	14451											
PCDHA4	56144	broad.mit.edu	37	chr5	140188485	140188485	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctagcgcctcgggcgggTggcactggtggcgcagtgag	4	7	19	11	4	0	1	0	1	0	0	1	1	0	1	1	5	2	3	1	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140188485T>C	uc003lhi.2	+	1	1814	c.1713T>C	c.(1711-1713)GGT>GGC	p.G571G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.G571G|PCDHA4_uc011daa.1_Silent_p.G571G	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	571	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCGGGCGGGTGGCACTGGTG	0.677													21	67					0	0	0.007291	0	0		C	140188485	C	C	140188485	2	2	19	1	0	0	0	0	0	0	0	1	11545	1683	59	3		3	PCDHA4	5	140188485	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2292909	140188485	40726775	939	14452											
PCDHA6	56142	broad.mit.edu	37	chr5	140209434	140209434	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgccgcggtcactgggTgcaggccaagtggtggcgaa	6	7	18	10	3	1	0	1	0	0	0	1	1	1	0	2	6	2	1	2	6	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140209434T>C	uc003lho.2	+	1	1785	c.1758T>C	c.(1756-1758)GGT>GGC	p.G586G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Silent_p.G586G	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	586	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTCACTGGGTGCAGGCCAAG	0.672													6	125					0	0	0.001168	0	0		C	140209434	C	C	140209434	2	2	19	1	0	0	0	0	0	0	0	1	11547	1683	59	3		3	PCDHA6	5	140209434	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	20949	140209434	40705826	940	14453											
PCDHA7	56141	broad.mit.edu	37	chr5	140216142	140216142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacggcgttgcggtgctcagCgccgtcctctgagggcgcat	4	8	15	14	6	2	1	1	1	1	0	3	1	3	1	2	3	3	3	2	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140216142C>T	uc003lhq.2	+	1	2174	c.2174C>T	c.(2173-2175)GCG>GTG	p.A725V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.A725V	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	725	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGTGCTCAGCGCCGTCCTCT	0.617													47	89					0	0	0.01441	0	0		T	140216142	T	T	140216142	3	4	19	1	0	0	0	0	1	0	0	0	11548	768	27	1	2176	1	PCDHA7	5	140216142	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	6708	140216142	40699118	941	14454											
PCDHA8	56140	broad.mit.edu	37	chr5	140221050	140221050	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcaccttcgtgggccggatCgcgcaggacctggggctgga	5	6	18	12	4	0	0	0	0	0	0	2	3	0	3	3	7	0	3	3	7	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140221050C>T	uc003lhs.2	+	1	144	c.144C>T	c.(142-144)ATC>ATT	p.I48I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.I48I	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	48	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGCCGGATCGCGCAGGACC	0.657													30	51					0	0	0.004878	0	0		T	140221050	T	T	140221050	2	4	19	1	0	0	0	0	0	0	0	1	11549	874	31	1		1	PCDHA8	5	140221050	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4908	140221050	40694210	942	14455											
PCDHAC1	56135	broad.mit.edu	37	chr5	140308328	140308328	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttcagccaatataggtgaGctccgtactgctcgcttagt	9	13	9	10	2	1	1	1	1	0	0	3	1	2	1	2	1	4	4	2	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140308328G>A	uc003lih.2	+	1	2027	c.1851G>A	c.(1849-1851)GAG>GAA	p.E617E	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Silent_p.E617E	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	617	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATATAGGTGAGCTCCGTACTG	0.517													16	104					0	0	0.006122	0	0		A	140308328	A	A	140308328	2	1	19	1	0	0	0	0	0	0	0	1	11551	962	34	2		2	PCDHAC1	5	140308328	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	87278	140308328	40606932	943	14456											
PCDHAC1	56135	broad.mit.edu	37	chr5	140308672	140308672	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggtatggaagtaagatggTttcaaatccttgcatgacat	13	12	11	5	0	1	2	1	1	0	1	2	4	2	3	1	3	1	4	1	3	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140308672T>C	uc003lih.2	+	1	2371	c.2195T>C	c.(2194-2196)GTT>GCT	p.V732A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.V732A	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	732	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTAAGATGGTTTCAAATCCT	0.478													42	88					0	0	0.009718	0	0		C	140308672	C	C	140308672	3	2	19	1	0	0	0	0	1	0	0	0	11551	1725	60	3	2197	3	PCDHAC1	5	140308672	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	344	140308672	40606588	944	14457											
PCDHB1	29930	broad.mit.edu	37	chr5	140431696	140431696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaacttgacaattacggCggtggacggcgggtccccgc	8	7	14	12	5	1	1	1	1	0	0	2	2	2	2	2	5	2	0	2	5	3	2	rs144200490	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140431696C>T	uc003lik.1	+	1	718	c.641C>T	c.(640-642)GCG>GTG	p.A214V		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	214	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACAATTACGGCGGTGGACGGC	0.597													14	14					0	0	0.00245	0	0		T	140431696	T	T	140431696	3	4	19	1	0	0	0	0	1	0	0	0	11553	768	27	1	643	1	PCDHB1	5	140431696	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	123024	140431696	40483564	945	14458											
PCDHB2	56133	broad.mit.edu	37	chr5	140475265	140475265	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaaaacgtttcgattaagTgcaaaatcgggagaactgct	14	9	10	8	4	0	1	0	0	0	1	2	3	0	1	0	1	4	4	0	1	6	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140475265T>C	uc003lil.2	+	1	1029	c.891T>C	c.(889-891)AGT>AGC	p.S297S	PCDHB2_uc003lim.1_5'UTR	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	297	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCGATTAAGTGCAAAATCGG	0.423													14	120					0	0	0.004007	0	0		C	140475265	C	C	140475265	2	2	19	1	0	0	0	0	0	0	0	1	11561	1693	59	3		3	PCDHB2	5	140475265	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	43569	140475265	40439995	946	14459											
PCDHB8	56128	broad.mit.edu	37	chr5	140558614	140558614	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttttctggaaaatgcacCgttctgattcaagtgataga	11	13	10	7	1	3	3	1	2	2	1	3	4	3	4	1	2	1	3	1	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140558614C>T	uc011dai.1	+	1	1185	c.999C>T	c.(997-999)ACC>ACT	p.T333T	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	333	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAAAATGCACCGTTCTGATTC	0.433													74	472					0	0	0.01441	0	0		T	140558614	T	T	140558614	2	4	19	1	0	0	0	0	0	0	0	1	11567	639	23	1		1	PCDHB8	5	140558614	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	83349	140558614	40356646	947	14460											
PCDHB11	56125	broad.mit.edu	37	chr5	140580953	140580953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcgtgggcgccacagacCgcggctccccggctttgagc	4	6	14	17	6	0	2	0	1	0	1	2	2	2	2	5	3	1	2	5	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140580953C>T	uc003liy.2	+	1	1606	c.1606C>T	c.(1606-1608)CGC>TGC	p.R536C	PCDHB11_uc011daj.1_Missense_Mutation_p.R171C	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	536	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCCACAGACCGCGGCTCCCC	0.667													37	90					0	0	0.011902	0	0		T	140580953	T	T	140580953	3	4	19	1	0	0	0	0	1	0	0	0	11555	652	23	1	1608	1	PCDHB11	5	140580953	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	22339	140580953	40334307	948	14461											
PCDHB14	56122	broad.mit.edu	37	chr5	140603462	140603462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgtcaaagacataaatgatCactcccctacatttctagac	14	11	5	11	0	3	3	2	1	1	2	4	3	4	3	2	0	1	0	2	0	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140603462C>T	uc003ljb.2	+	1	385	c.385C>T	c.(385-387)CAC>TAC	p.H129Y	PCDHB14_uc011dal.1_Intron	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	129	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding	p.H129L(1)		ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CATAAATGATCACTCCCCTAC	0.418													13	208					0	0	0.001855	0	0		T	140603462	T	T	140603462	3	4	19	1	0	0	0	0	1	0	0	0	11558	826	29	4	387	4	PCDHB14	5	140603462	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	22509	140603462	40311798	949	14462											
PCDHB15	56121	broad.mit.edu	37	chr5	140626780	140626780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggcgctgagcagcgaggCgctggtgcgagtgctggtgc	4	6	19	12	5	0	1	0	1	0	0	0	3	0	1	1	4	5	4	1	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140626780C>T	uc003lje.2	+	1	1634	c.1634C>T	c.(1633-1635)GCG>GTG	p.A545V		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	545	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCAGCGAGGCGCTGGTGCGA	0.697													9	50					0	0	0.00245	0	0		T	140626780	T	T	140626780	3	4	19	1	0	0	0	0	1	0	0	0	11559	768	27	1	1636	1	PCDHB15	5	140626780	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	23318	140626780	40288480	950	14463											
PCDHGB3	56102	broad.mit.edu	37	chr5	140750900	140750900	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggactttgaagagagagaTagctacacaattggggtgga	13	9	14	5	0	0	3	0	1	0	2	0	7	0	5	0	4	2	1	0	4	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140750900T>A	uc003ljw.1	+	1	939	c.939T>A	c.(937-939)GAT>GAA	p.D313E	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.D313E|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	313	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGAGAGAGATAGCTACACAA	0.433													7	170					0	0	0.00308	0	0		A	140750900	A	A	140750900	3	1	19	1	0	0	0	0	1	0	0	0	11583	1403	49	5	941	5	PCDHGB3	5	140750900	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	124120	140750900	40164360	951	14464											
PCDHGA6	56109	broad.mit.edu	37	chr5	140754314	140754314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatggcggcgaccctgtcCgctcaagcgtcgcccaaatt	7	8	12	14	5	1	0	1	0	0	0	3	2	2	1	3	3	1	1	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140754314C>T	uc003ljy.1	+	1	664	c.664C>T	c.(664-666)CGC>TGC	p.R222C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.R222C	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	222	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGACCCTGTCCGCTCAAGCGT	0.552													5	9					0	0	0.000602	0	0		T	140754314	T	T	140754314	3	4	19	1	0	0	0	0	1	0	0	0	11577	652	23	1	666	1	PCDHGA6	5	140754314	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3414	140754314	40160946	952	14465											
PCDHGA7	56108	broad.mit.edu	37	chr5	140762574	140762574	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtattctctactccgtgtcGgaggagacggacaaagggtc	9	9	13	10	4	1	1	0	0	1	1	5	4	2	3	1	4	1	1	1	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140762574G>A	uc003lka.1	+	1	108	c.108G>A	c.(106-108)TCG>TCA	p.S36S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Silent_p.S36S	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	36	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTCCGTGTCGGAGGAGACGG	0.647													36	80					0	0	0.003271	0	0		A	140762574	A	A	140762574	2	1	19	1	0	0	0	0	0	0	0	1	11578	1103	39	1		1	PCDHGA7	5	140762574	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	8260	140762574	40152686	953	14466											
PCDHGA7	56108	broad.mit.edu	37	chr5	140763137	140763137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcgacccgccccgatccaGcaccgcccacatccaggtga	8	3	10	20	5	0	1	0	1	0	0	2	3	2	1	7	2	1	1	7	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140763137G>A	uc003lka.1	+	1	671	c.671G>A	c.(670-672)AGC>AAC	p.S224N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.S224N	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	224	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCCGATCCAGCACCGCCCAC	0.622													7	13					0	0	0.008291	0	0		A	140763137	A	A	140763137	3	1	19	1	0	0	0	0	1	0	0	0	11578	971	34	2	673	2	PCDHGA7	5	140763137	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	563	140763137	40152123	954	14467											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769136	140769136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgcgccacgggtgctgtAccccgcgctgggtcccgacg	5	6	14	16	6	0	0	0	0	0	0	1	1	1	0	4	2	3	3	4	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140769136A>G	uc003lkc.1	+	1	1685	c.1685A>G	c.(1684-1686)TAC>TGC	p.Y562C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.Y562C	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	562	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGGTGCTGTACCCCGCGCTG	0.672													6	46					0	0	0.004482	0	0		G	140769136	G	G	140769136	3	3	19	1	0	0	0	0	1	0	0	0	11584	391	14	3	1687	3	PCDHGB4	5	140769136	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5999	140769136	40146124	955	14468											
PCDHGA8	9708	broad.mit.edu	37	chr5	140772809	140772809	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatctagaagtaaaaattaaCgaaatcgcggttcctggagc	15	9	10	7	3	1	1	0	0	1	1	3	4	2	2	1	2	2	2	1	2	7	4	rs151037104	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140772809C>T	uc003lkd.1	+	1	1327	c.429C>T	c.(427-429)AAC>AAT	p.N143N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Silent_p.N143N	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	143	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAAAAATTAACGAAATCGCGG	0.443													37	57					0	0	0.005524	0	0		T	140772809	T	T	140772809	2	4	19	1	0	0	0	0	0	0	0	1	11579	535	19	1		1	PCDHGA8	5	140772809	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3673	140772809	40142451	956	14469											
PCDHGB7	56099	broad.mit.edu	37	chr5	140797939	140797939	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattcgctgagcaaataccaActaagtcctaacgagtattt	15	11	6	9	2	0	1	0	1	0	0	2	2	1	1	2	0	4	3	2	0	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140797939A>C	uc003lkn.1	+	1	658	c.513A>C	c.(511-513)CAA>CAC	p.Q171H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.Q171H|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	171	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAAATACCAACTAAGTCCTA	0.418													21	45					0	0	0.00278	0	0		C	140797939	C	C	140797939	3	2	19	1	0	0	0	0	1	0	0	0	11587	40	2	5	515	5	PCDHGB7	5	140797939	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	25130	140797939	40117321	957	14470											
PCDHGA12	26025	broad.mit.edu	37	chr5	140811036	140811036	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggttctggatgcgaacgAcaacgcaccagcgtttgctc	9	9	12	11	4	1	0	0	0	1	0	2	4	1	1	1	2	5	4	1	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140811036A>G	uc003lkt.1	+	1	879	c.710A>G	c.(709-711)GAC>GGC	p.D237G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.D237G	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	237	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATGCGAACGACAACGCACCA	0.652													9	81					0	0	0.008291	0	0		G	140811036	G	G	140811036	3	3	19	1	0	0	0	0	1	0	0	0	11572	275	10	3	712	3	PCDHGA12	5	140811036	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	13097	140811036	40104224	958	14471											
PCDHGA12	26025	broad.mit.edu	37	chr5	140811779	140811779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccgactgtgaagagaacGcccagatcacttattccctg	11	8	8	14	2	1	3	1	1	0	2	2	5	2	3	4	0	1	0	4	0	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140811779G>A	uc003lkt.1	+	1	1622	c.1453G>A	c.(1453-1455)GCC>ACC	p.A485T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.A485T	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	485	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAAGAGAACGCCCAGATCAC	0.557													30	66					0	0	0.012213	0	0		A	140811779	A	A	140811779	3	1	19	1	0	0	0	0	1	0	0	0	11572	1087	38	1	1455	1	PCDHGA12	5	140811779	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	743	140811779	40103481	959	14472											
PCDHGA12	26025	broad.mit.edu	37	chr5	140812627	140812627	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acggactcgcggaagagtcaCctgatcttcccccagcccaa	10	6	9	16	3	2	2	1	1	1	1	4	4	3	4	4	2	1	0	4	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140812627C>G	uc003lkt.1	+	1	2470	c.2301C>G	c.(2299-2301)CAC>CAG	p.H767Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.H767Q	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	767	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAAGAGTCACCTGATCTTCC	0.572													26	172					0	0	0.004656	0	0		G	140812627	G	G	140812627	3	3	19	1	0	0	0	0	1	0	0	0	11572	506	18	5	2303	5	PCDHGA12	5	140812627	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	848	140812627	40102633	960	14473											
PCDHGC4	56098	broad.mit.edu	37	chr5	140867053	140867053	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggaggccactctcatggCtgtacacccttggcttctgc	5	11	12	13	0	2	0	1	0	2	0	3	1	2	1	2	4	2	3	2	4	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140867053C>T	uc003lky.1	+	1	2313	c.2313C>T	c.(2311-2313)GGC>GGT	p.G771G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Silent_p.G771G|PCDHGC5_uc011dbc.1_5'Flank|PCDHGC5_uc003lla.1_5'Flank	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	771	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTCTCATGGCTGTACACCCT	0.572													24	38					0	0	0.00632	0	0		T	140867053	T	T	140867053	2	4	19	1	0	0	0	0	0	0	0	1	11589	784	28	2		2	PCDHGC4	5	140867053	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	54426	140867053	40048207	961	14474											
FCHSD1	89848	broad.mit.edu	37	chr5	141021298	141021298	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgaggtgccatcatgtccaGgaacccagggaagtccaggg	10	6	14	11	1	1	0	1	0	0	0	4	3	3	2	4	4	2	0	4	4	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:141021298G>T	uc003llk.2	-	19	2029	c.1978C>A	c.(1978-1980)CTG>ATG	p.L660M	FCHSD1_uc010jgg.2_Missense_Mutation_p.L343M|FCHSD1_uc003llj.2_RNA	NM_033449	NP_258260	Q86WN1	FCSD1_HUMAN	FCH and double SH3 domains 1	660	Pro-rich.								FCHSD1/BRAF(2)	skin(2)|ovary(1)|central_nervous_system(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCATGTCCAGGAACCCAGGG	0.418													12	34					5.01169e-05	5.13586e-05	0.00499	1	0		T	141021298	T	T	141021298	3	4	19	1	0	0	0	0	1	0	0	0	5803	991	35	5	102	5	FCHSD1	5	141021298	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	154245	141021298	39893962	962	14475											
ARAP3	64411	broad.mit.edu	37	chr5	141035786	141035786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggggctttaacttcttgcGgattcccaggtagaccttgg	6	13	13	9	1	1	1	0	0	1	1	2	2	2	2	2	5	2	2	2	5	2	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:141035786G>A	uc003llm.2	-	28	3925	c.3847C>T	c.(3847-3849)CGC>TGC	p.R1283C	ARAP3_uc003lll.2_Missense_Mutation_p.R234C|ARAP3_uc011dbe.1_Missense_Mutation_p.R945C|ARAP3_uc003lln.2_Missense_Mutation_p.R1114C	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1283	PH 3.				cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						AACTTCTTGCGGATTCCCAGG	0.557													69	138					0	0	0.01441	0	0		A	141035786	A	A	141035786	3	1	19	1	0	0	0	0	1	0	0	0	840	1116	39	1	811	1	ARAP3	5	141035786	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	14488	141035786	39879474	963	14476											
HMHB1	57824	broad.mit.edu	37	chr5	143200049	143200049	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattcttttctataggttcTctgcatgtttggaagtcgga	7	17	9	8	1	3	0	0	0	3	0	5	2	3	2	1	3	1	3	1	3	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:143200049T>C	uc003lnj.2	+	2	149	c.42T>C	c.(40-42)TCT>TCC	p.S14S		NM_021182	NP_067005	O97980	HMHB1_HUMAN	minor histocompatibility antigen HB-1	14	Loss of recognition by cytotoxic T lymphocyte (CTL).			S->A: Complete loss of CTL recognition.							0		Acute lymphoblastic leukemia(2;0.0236)|all_hematologic(2;0.041)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			CTATAGGTTCTCTGCATGTTT	0.393													8	217					0	0	0.004482	0	0		C	143200049	C	C	143200049	2	2	19	1	0	0	0	0	0	0	0	1	7257	1538	54	3		3	HMHB1	5	143200049	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2164263	143200049	37715211	964	14477											
SH3RF2	153769	broad.mit.edu	37	chr5	145442254	145442254	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcacgcagaccgtgtttcCcagcaaatgaacctacgggt	11	7	11	12	3	0	2	0	1	0	1	1	2	1	2	3	2	3	4	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:145442254C>A	uc003lnt.2	+	10	2418	c.2180C>A	c.(2179-2181)CCC>CAC	p.P727H	SH3RF2_uc011dbl.1_Missense_Mutation_p.P727H|SH3RF2_uc003lnu.2_Missense_Mutation_p.P218H|SH3RF2_uc011dbn.1_Missense_Mutation_p.P218H|SH3RF2_uc011dbo.1_Missense_Mutation_p.P184H	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	727							ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACCGTGTTTCCCAGCAAATGA	0.557													23	48					1.10923e-09	1.15956e-09	0.00278	1	0		A	145442254	A	A	145442254	3	1	19	1	0	0	0	0	1	0	0	0	14284	623	22	5	2214	5	SH3RF2	5	145442254	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2242205	145442254	35473006	965	14478											
RBM27	54439	broad.mit.edu	37	chr5	145613207	145613207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccgggcccaggtccaggcCcaggcccgggcccaggtcca	5	2	15	19	2	0	0	0	0	0	0	2	0	2	0	7	6	0	0	7	6	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:145613207C>T	uc003lnz.3	+	7	1211	c.1045C>T	c.(1045-1047)CCA>TCA	p.P349S	RBM27_uc003lny.2_Missense_Mutation_p.P349S	NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	349	Pro-rich.				mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			aggtccaggcccaggcccggg	0.393													32	56					0	0	0.009535	0	0		T	145613207	T	T	145613207	3	4	19	1	0	0	0	0	1	0	0	0	13152	623	22	4	1071	4	RBM27	5	145613207	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	170953	145613207	35302053	966	14479											
GPR151	134391	broad.mit.edu	37	chr5	145894652	145894652	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcaggaagaccctctgagTtgccagctggtgtttcctga	7	12	12	10	0	2	3	1	2	1	1	3	4	3	4	3	2	2	3	3	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:145894652T>C	uc003lod.1	-	1	1025	c.1025A>G	c.(1024-1026)AAC>AGC	p.N342S		NM_194251	NP_919227	Q8TDV0	GP151_HUMAN	G protein-coupled receptor 151	342	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACCCTCTGAGTTGCCAGCTGG	0.483													14	42					0	0	0.003163	0	0		C	145894652	C	C	145894652	3	2	19	1	0	0	0	0	1	0	0	0	6672	1725	60	3	238	3	GPR151	5	145894652	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	281445	145894652	35020608	967	14480											
DPYSL3	1809	broad.mit.edu	37	chr5	146775201	146775201	+	Frame_Shift_Del	DEL	G	-	-																															gagccccgagcagagcctgcGggggtgccacctttgggggt																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:146775201delG	uc003lon.1	-	13	1655	c.1545delC	c.(1543-1545)CCCfs	p.P515fs	DPYSL3_uc003loo.2_Frame_Shift_Del_p.P629fs	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	515					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGAGCCTGCGGGGGTGCCAC	0.607													22	51	---	---	---	---						.	-	146775201	-	-	146775201	7	5	19	1	0	1	0	1	0	0	0	0	4754	1103	39	0	175	0	DPYSL3	5	146775201	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	880549	146775201	34140059	968	14481											
JAKMIP2	9832	broad.mit.edu	37	chr5	147024501	147024501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtttctcttggcgaggCacttgttcctttccaggaga	6	14	10	11	2	1	1	0	0	1	1	5	3	3	1	2	3	0	3	2	3	0	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:147024501C>T	uc003loq.1	-	6	1377	c.995G>A	c.(994-996)TGC>TAC	p.C332Y	JAKMIP2_uc011dbx.1_Missense_Mutation_p.C290Y|JAKMIP2_uc003lor.1_Missense_Mutation_p.C332Y|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.C332Y	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	332	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTGGCGAGGCACTTGTTCCT	0.443													36	104					0	0	0.006999	0	0		T	147024501	T	T	147024501	3	4	19	1	0	0	0	0	1	0	0	0	7957	710	25	2	1501	2	JAKMIP2	5	147024501	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	249300	147024501	33890759	969	14482											
SH3TC2	79628	broad.mit.edu	37	chr5	148406227	148406227	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agttgctgagccagggccagCcagtgctcatggtaggtgat	8	9	15	9	0	1	2	1	2	0	0	1	2	1	2	3	3	4	4	3	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:148406227C>T	uc003lpu.2	-	12	3113	c.2961G>A	c.(2959-2961)TGG>TGA	p.W987*	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_Nonsense_Mutation_p.W631*|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_Nonsense_Mutation_p.W534*|SH3TC2_uc010jgx.2_Nonsense_Mutation_p.W980*|SH3TC2_uc003lpv.1_Missense_Mutation_p.G570D|SH3TC2_uc011dbz.1_Missense_Mutation_p.G908D	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	987							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGGGCCAGCCAGTGCTCAT	0.572													68	129					0	0	0.01441	0	0		T	148406227	T	T	148406227	4	4	19	1	0	0	0	0	0	1	0	0	14287	740	26	2	929	2	SH3TC2	5	148406227	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1381726	148406227	32509033	970	14483											
PDE6A	5145	broad.mit.edu	37	chr5	149265935	149265935	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtagcgcttcagctttccCgtctggaagggcaatcagag	10	9	12	10	2	3	1	2	0	1	1	4	2	4	2	1	2	2	4	1	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:149265935C>T	uc003lrg.3	-	14	1851	c.1731G>A	c.(1729-1731)ACG>ACA	p.T577T		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	577					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TCAGCTTTCCCGTCTGGAAGG	0.527													17	43					0	0	0.008871	0	0		T	149265935	T	T	149265935	2	4	19	1	0	0	0	0	0	0	0	1	11664	639	23	1		1	PDE6A	5	149265935	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	859708	149265935	31649325	971	14484											
PDGFRB	5159	broad.mit.edu	37	chr5	149513540	149513540	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctggcggaccacagtctgCactgcgttcacagagacgtt	8	8	11	14	3	2	1	1	0	1	1	2	3	2	2	2	2	2	3	2	2	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:149513540C>T	uc003lro.2	-	5	1132	c.663G>A	c.(661-663)GTG>GTA	p.V221V	PDGFRB_uc010jhd.2_Silent_p.V60V|PDGFRB_uc011dcg.1_Silent_p.V221V	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	221	Extracellular (Potential).|Ig-like C2-type 3.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CCACAGTCTGCACTGCGTTCA	0.527			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								36	69					0	0	0.005524	0	0		T	149513540	T	T	149513540	2	4	19	1	0	0	0	0	0	0	0	1	11681	697	25	2		2	PDGFRB	5	149513540	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	247605	149513540	31401720	972	14485											
TCOF1	6949	broad.mit.edu	37	chr5	149759253	149759253	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagcagcagcgaggaatcAgacagtgatggggaggcacc	12	3	18	8	1	1	2	1	1	0	1	1	6	1	5	1	5	3	3	1	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:149759253A>G	uc003lry.2	+	17	2925	c.2817A>G	c.(2815-2817)TCA>TCG	p.S939S	TCOF1_uc003lrw.2_Silent_p.S939S|TCOF1_uc011dch.1_Silent_p.S939S|TCOF1_uc003lrz.2_Silent_p.S939S|TCOF1_uc003lrx.2_Silent_p.S862S|TCOF1_uc003lsa.2_Silent_p.S862S|TCOF1_uc011dci.1_Silent_p.S368S	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	939					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCGAGGAATCAGACAGTGATG	0.627													6	59					0	0	0.001168	0	0		G	149759253	G	G	149759253	2	3	19	1	0	0	0	0	0	0	0	1	15733	175	7	3		3	TCOF1	5	149759253	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	245713	149759253	31156007	973	14486											
NMUR2	56923	broad.mit.edu	37	chr5	151784146	151784146	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggtgttgggcagggagaAgagcacggagaagccccaga	11	4	18	8	1	0	4	0	0	0	4	0	6	0	4	2	4	2	4	2	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:151784146A>C	uc003luv.2	-	1	695	c.529T>G	c.(529-531)TTC>GTC	p.F177V		NM_020167	NP_064552	Q9GZQ4	NMUR2_HUMAN	neuromedin U receptor 2	177	Helical; Name=4; (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|arachidonic acid secretion|calcium ion transport|central nervous system development|elevation of cytosolic calcium ion concentration|regulation of smooth muscle contraction	integral to membrane|plasma membrane	GTP binding|intracellular calcium activated chloride channel activity|neuromedin U receptor activity			ovary(3)|skin(2)|lung(1)|breast(1)|pancreas(1)	8		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)	Kidney(363;0.000106)|KIRC - Kidney renal clear cell carcinoma(527;0.000672)			GGCAGGGAGAAGAGCACGGAG	0.632													49	90					0	0	0.01441	0	0		C	151784146	C	C	151784146	3	2	19	1	0	0	0	0	1	0	0	0	10526	72	3	5	734	5	NMUR2	5	151784146	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2024893	151784146	29131114	974	14487											
HAND1	9421	broad.mit.edu	37	chr5	153857288	153857288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcctgagcctttccgcCggccaagacggccgccaagc	6	6	13	16	4	0	2	0	1	0	1	2	2	2	2	7	3	2	0	7	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:153857288C>T	uc003lvn.2	-	1	537	c.281G>A	c.(280-282)CGG>CAG	p.R94Q		NM_004821	NP_004812	O96004	HAND1_HUMAN	basic helix-loop-helix transcription factor	94	Basic motif.				angiogenesis|cardiac left ventricle formation|cardiac right ventricle formation|cardiac septum morphogenesis|heart looping|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|trophectodermal cell differentiation|ventricular cardiac muscle tissue morphogenesis	cytoplasm|nucleolus|nucleoplasm	bHLH transcription factor binding|DNA binding|protein homodimerization activity|transcription coactivator activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			GCCTTTCCGCCGGCCAAGACG	0.632													10	10					0	0	0.008291	0	0		T	153857288	T	T	153857288	3	4	19	1	0	0	0	0	1	0	0	0	6965	652	23	1	374	1	HAND1	5	153857288	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2073142	153857288	27057972	975	14488											
LARP1	23367	broad.mit.edu	37	chr5	154179464	154179464	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggctctcctcgtgcagtcacCccagtgccaaccaaaacaga	11	6	8	16	1	2	1	1	0	1	1	4	1	2	1	5	1	4	2	5	1	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:154179464C>T	uc003lvp.2	+	10	2007	c.1578C>T	c.(1576-1578)ACC>ACT	p.T526T	LARP1_uc003lvo.2_Silent_p.T449T|LARP1_uc010jie.1_Silent_p.T321T	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	526							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			GTGCAGTCACCCCAGTGCCAA	0.577													14	32					0	0	0.001855	0	0		T	154179464	T	T	154179464	2	4	19	1	0	0	0	0	0	0	0	1	8644	610	22	4		4	LARP1	5	154179464	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	322176	154179464	26735796	976	14489											
GEMIN5	25929	broad.mit.edu	37	chr5	154281007	154281007	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgaaaacacagctgtttgGcaaaagcttccacagcccat	13	8	7	13	0	0	1	0	1	0	0	1	1	1	1	3	1	4	4	3	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:154281007G>C	uc003lvx.3	-	21	2989	c.2906C>G	c.(2905-2907)GCC>GGC	p.A969G	GEMIN5_uc011ddk.1_Missense_Mutation_p.A968G	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	969					ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CAGCTGTTTGGCAAAAGCTTC	0.418													38	94					0	0	0.009718	0	0		C	154281007	C	C	154281007	3	2	19	1	0	0	0	0	1	0	0	0	6346	1203	42	5	1652	5	GEMIN5	5	154281007	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	101543	154281007	26634253	977	14490											
TIMD4	91937	broad.mit.edu	37	chr5	156375481	156375481	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccacattgacacgtgggAtgttgatgggagatcccaaa	11	11	11	8	1	0	3	0	2	0	1	2	5	2	4	2	2	0	1	2	2	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:156375481A>G	uc003lwh.2	-	5	847	c.790T>C	c.(790-792)TCC>CCC	p.S264P	TIMD4_uc010jii.2_Intron	NM_138379	NP_612388	Q96H15	TIMD4_HUMAN	T-cell immunoglobulin and mucin domain	264	Ser-rich.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GACACGTGGGATGTTGATGGG	0.383													4	34					0	0	0.00308	0	0		G	156375481	G	G	156375481	3	3	19	1	0	0	0	0	1	0	0	0	15928	333	12	3	366	3	TIMD4	5	156375481	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2094474	156375481	24539779	978	14491											
HAVCR1	26762	broad.mit.edu	37	chr5	156479583	156479583	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagtcgtcattggaacagtCgttgtcgttggaacagtggt	9	12	13	7	3	1	0	1	0	0	0	4	2	1	2	0	3	2	2	0	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:156479583C>T	uc010jij.1	-	4	647	c.462G>A	c.(460-462)ACG>ACA	p.T154T	HAVCR1_uc011ddl.1_5'UTR|HAVCR1_uc003lwi.2_Silent_p.T154T|HAVCR1_uc011ddm.1_Silent_p.T154T	NM_001099414	NP_001092884	Q96D42	HAVR1_HUMAN	hepatitis A virus cellular receptor 1	154	11 X 6 AA approximate tandem repeats of V-P-T-T-T-T].|Extracellular (Potential).|3.|Thr-rich.				interspecies interaction between organisms	integral to membrane	receptor activity			ovary(1)|skin(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TTGGAACAGTCGTTGTCGTTG	0.473													125	493					0	0	0.01441	0	0		T	156479583	T	T	156479583	2	4	19	1	0	0	0	0	0	0	0	1	6989	871	31	1		1	HAVCR1	5	156479583	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	104102	156479583	24435677	979	14492											
NIPAL4	348938	broad.mit.edu	37	chr5	156899400	156899400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catcctcatctttgtcattgCcccacgttacgggcaaagga	9	11	8	13	2	3	0	2	0	1	0	4	1	4	1	3	2	2	2	3	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:156899400C>T	uc003lwx.3	+	6	949	c.833C>T	c.(832-834)GCC>GTC	p.A278V	ADAM19_uc003lww.1_Intron|NIPAL4_uc011ddq.1_Missense_Mutation_p.A259V	NM_001099287	NP_001092757	Q0D2K0	NIPA4_HUMAN	ichthyin protein	278	Helical; (Potential).					integral to membrane	receptor activity				0						TTTGTCATTGCCCCACGTTAC	0.532											OREG0016979	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	87	182					0	0	0.01441	0	0		T	156899400	T	T	156899400	3	4	19	1	0	0	0	0	1	0	0	0	10446	739	26	2	855	2	NIPAL4	5	156899400	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	419817	156899400	24015860	980	14493											
TTC1	7265	broad.mit.edu	37	chr5	159437849	159437849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaactggaaaaaaacatgtCggatgaagagaaacaggtaa	21	5	11	4	1	0	3	0	1	0	2	1	6	0	5	0	3	3	1	0	3	7	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:159437849C>T	uc003lxu.2	+	2	364	c.314C>T	c.(313-315)TCG>TTG	p.S105L		NM_003314	NP_003305	Q99614	TTC1_HUMAN	tetratricopeptide repeat domain 1	105					protein folding		unfolded protein binding			skin(1)	1	Renal(175;0.00196)	all_hematologic(541;0.00014)|Breast(839;0.0101)|all_neural(177;0.0281)|Medulloblastoma(196;0.0425)|Lung NSC(249;0.119)|all_lung(500;0.163)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	Epithelial(171;8.37e-05)|all cancers(165;0.000694)|OV - Ovarian serous cystadenocarcinoma(192;0.0402)		AAAAACATGTCGGATGAAGAG	0.378													7	19					0	0	0.00308	0	0		T	159437849	T	T	159437849	3	4	19	1	0	0	0	0	1	0	0	0	16704	893	31	1	316	1	TTC1	5	159437849	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2538449	159437849	21477411	981	14494											
C1QTNF2	114898	broad.mit.edu	37	chr5	159797639	159797639	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggccccaggcatagtttTcccatcccgtcatgggcggg	5	9	13	14	3	1	0	1	0	0	0	4	0	3	0	4	4	0	2	4	4	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:159797639T>C	uc003lyd.2	-	1	10	c.6A>G	c.(4-6)GGA>GGG	p.G2G		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	Error:Variant_position_missing_in_Q9BXJ5_after_alignment						collagen				skin(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGCATAGTTTTCCCATCCCGT	0.642													6	27					0	0	0.00308	0	0		C	159797639	C	C	159797639	2	2	19	1	0	0	0	0	0	0	0	1	1966	1770	62	3		3	C1QTNF2	5	159797639	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	359790	159797639	21117621	982	14495											
PTTG1	9232	broad.mit.edu	37	chr5	159849801	159849801	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaccagccttacctaaagcTactagaaaggctttgggaac	13	8	8	12	0	0	1	0	0	0	1	0	2	0	2	4	2	5	2	4	2	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:159849801T>G	uc003lyj.2	+	3	222	c.177T>G	c.(175-177)GCT>GCG	p.A59A	PTTG1_uc003lyk.2_Silent_p.A59A	NM_004219	NP_004210	O95997	PTTG1_HUMAN	pituitary tumor-transforming protein 1	59					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|chromosome organization|chromosome segregation|DNA repair|mitosis|spermatogenesis|transcription from RNA polymerase II promoter	cytosol|nucleus	cysteine-type endopeptidase inhibitor activity|sequence-specific DNA binding transcription factor activity|SH3 domain binding				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.00219)|Epithelial(171;0.00348)|all cancers(165;0.0104)		TACCTAAAGCTACTAGAAAGG	0.443													13	142					0	0	0.001855	0	0		G	159849801	G	G	159849801	2	3	19	1	0	0	0	0	0	0	0	1	12844	1509	53	5		5	PTTG1	5	159849801	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	52162	159849801	21065459	983	14496											
GABRG2	2566	broad.mit.edu	37	chr5	161522510	161522510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctttacagtgaagccaaCgttaattcacacagacatgt	13	12	6	10	1	2	2	1	1	1	1	3	2	2	2	1	0	3	1	1	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:161522510C>T	uc003lyz.3	+	3	627	c.269C>T	c.(268-270)ACG>ATG	p.T90M	GABRG2_uc010jjc.2_Missense_Mutation_p.T90M|GABRG2_uc003lyy.3_Missense_Mutation_p.T90M|GABRG2_uc011dej.1_Translation_Start_Site	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	90	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		GTGAAGCCAACGTTAATTCAC	0.323													16	28					0	0	0.004007	0	0		T	161522510	T	T	161522510	3	4	19	1	0	0	0	0	1	0	0	0	6186	536	19	1	279	1	GABRG2	5	161522510	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1672709	161522510	19392750	984	14497											
ODZ2	57451	broad.mit.edu	37	chr5	167674786	167674786	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctgacatcttcgaatacaAttccaagggcctcctaacaa	13	10	6	12	1	2	1	0	1	2	0	5	2	4	1	3	1	2	0	3	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:167674786A>G	uc010jjd.2	+	27	6815	c.6815A>G	c.(6814-6816)AAT>AGT	p.N2272S	ODZ2_uc003lzr.3_Missense_Mutation_p.N2042S|ODZ2_uc003lzt.3_Missense_Mutation_p.N1645S|ODZ2_uc010jje.2_Missense_Mutation_p.N1536S	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		TTCGAATACAATTCCAAGGGC	0.537													3	100					0	0	0.004672	0	0		G	167674786	G	G	167674786	3	3	19	1	0	0	0	0	1	0	0	0	10854	101	4	3	6921	3	ODZ2	5	167674786	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	6152276	167674786	13240474	985	14498											
WWC1	23286	broad.mit.edu	37	chr5	167850888	167850888	+	Frame_Shift_Del	DEL	C	-	-																															cccacgttcctctctctcctCcccctccccaccctgttccc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:167850888delC	uc003lzu.2	+	11	1718	c.1625delC	c.(1624-1626)TCCfs	p.S542fs	WWC1_uc003lzv.2_Frame_Shift_Del_p.S542fs|WWC1_uc011den.1_Frame_Shift_Del_p.S542fs|WWC1_uc003lzw.2_Frame_Shift_Del_p.S341fs	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	542					cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		TCTCTCTCCTCCCCCTCCCCA	0.627													40	72	---	---	---	---						.	-	167850888	-	-	167850888	7	5	19	1	0	1	0	1	0	0	0	0	17437	855	30	0	1667	0	WWC1	5	167850888	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	176102	167850888	13064372	986	14499											
TLX3	30012	broad.mit.edu	37	chr5	170736691	170736691	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgcctctgccaagcgcgCtacccgccatgccctccgtg	5	6	9	21	5	1	0	0	0	1	0	2	0	2	0	7	0	4	1	7	0	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:170736691C>T	uc003mbf.2	+	1	404	c.322C>T	c.(322-324)CTA>TTA	p.L108L	uc003mbe.1_5'Flank	NM_021025	NP_066305	O43711	TLX3_HUMAN	T-cell leukemia homeobox 3	108						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00576)|all_lung(126;0.00963)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GCCAAGCGCGCTACCCGCCAT	0.682			T	BCL11B	T-ALL								6	15					0	0	0.00308	0	0		T	170736691	T	T	170736691	2	4	19	1	0	0	0	0	0	0	0	1	15987	796	28	2		2	TLX3	5	170736691	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2885803	170736691	10178569	987	14500											
FBXW11	23291	broad.mit.edu	37	chr5	171384609	171384609	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagaggcacctggagacAtctgacactgggcatgctct	11	7	13	10	0	2	3	0	1	2	2	2	6	2	3	1	3	1	3	1	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:171384609A>G	uc003mbm.1	-	2	510	c.139T>C	c.(139-141)TGT>CGT	p.C47R	FBXW11_uc011dey.1_Intron|FBXW11_uc003mbl.1_Intron|FBXW11_uc003mbn.1_Intron	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	47					cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity	p.N260_I262(1)		ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			ACCTGGAGACATCTGACACTG	0.473													29	242					0	0	0.010818	0	0		G	171384609	G	G	171384609	3	3	19	1	0	0	0	0	1	0	0	0	5778	217	8	3	1600	3	FBXW11	5	171384609	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	647918	171384609	9530651	988	14501											
STK10	6793	broad.mit.edu	37	chr5	171509453	171509453	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctccatcttctccacttgCtgcttttgctgacgctccag	4	15	7	15	1	2	1	0	1	2	0	5	1	4	1	3	0	4	5	3	0	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:171509453C>T	uc003mbo.1	-	12	2166	c.1866G>A	c.(1864-1866)CAG>CAA	p.Q622Q		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	622	Potential.						ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TCTCCACTTGCTGCTTTTGCT	0.542													5	167					0	0	0.001168	0	0		T	171509453	T	T	171509453	2	4	19	1	0	0	0	0	0	0	0	1	15311	796	28	2		2	STK10	5	171509453	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	124844	171509453	9405807	989	14502											
SH3PXD2B	285590	broad.mit.edu	37	chr5	171765730	171765730	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgaggagagcacggcctggGgtgggagctgccctgctttc	6	7	17	11	2	0	1	0	0	0	1	1	4	0	2	2	5	4	3	2	5	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:171765730G>A	uc003mbr.2	-	13	2550	c.2379C>T	c.(2377-2379)ACC>ACT	p.T793T		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	793	Pro-rich.				adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CACGGCCTGGGGTGGGAGCTG	0.612													11	31					0	0	0.013537	0	0		A	171765730	A	A	171765730	2	1	19	1	0	0	0	0	0	0	0	1	14282	1219	43	4		4	SH3PXD2B	5	171765730	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	256277	171765730	9149530	990	14503											
MSX2	4488	broad.mit.edu	37	chr5	174156417	174156417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaaagctgaaaatggctgCaaaacctatgctgccctcca	14	7	9	11	0	0	1	0	1	0	0	1	2	1	2	3	2	5	4	3	2	7	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:174156417C>T	uc003mcy.2	+	2	723	c.635C>T	c.(634-636)GCA>GTA	p.A212V		NM_002449	NP_002440	P35548	MSX2_HUMAN	msh homeobox 2	212					cranial suture morphogenesis|negative regulation of transcription, DNA-dependent|osteoblast differentiation	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0196)|all_lung(126;0.0303)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			AAAATGGCTGCAAAACCTATG	0.542													4	45					0	0	0.009096	0	0		T	174156417	T	T	174156417	3	4	19	1	0	0	0	0	1	0	0	0	9914	710	25	2	641	2	MSX2	5	174156417	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2390687	174156417	6758843	991	14504											
ARL10	285598	broad.mit.edu	37	chr5	175793505	175793505	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgttgtcggggaagccaccGctggaaggccacatccccac	8	6	13	14	2	0	0	0	0	0	0	2	2	1	2	5	4	1	2	5	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:175793505G>A	uc003mec.1	+	2	371	c.306G>A	c.(304-306)CCG>CCA	p.P102P	ARL10_uc003meb.2_Silent_p.P102P|MIR1271_hsa-mir-1271|MI0003814_5'Flank	NM_173664	NP_775935	Q8N8L6	ARL10_HUMAN	ADP-ribosylation factor-like 10	102							GTP binding			ovary(1)	1	all_cancers(89;0.0064)|Renal(175;0.000269)|Lung NSC(126;0.0105)|all_lung(126;0.0168)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.0965)		GGAAGCCACCGCTGGAAGGCC	0.652													13	54					0	0	0.004007	0	0		A	175793505	A	A	175793505	2	1	19	1	0	0	0	0	0	0	0	1	926	1074	38	1		1	ARL10	5	175793505	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1637088	175793505	5121755	992	14505											
ARL10	285598	broad.mit.edu	37	chr5	175798761	175798761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagtatgggggagctgcagCgggagctgggtctacaggct	7	8	19	7	1	1	1	0	1	1	0	1	3	1	3	0	5	5	5	0	5	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:175798761C>T	uc003mec.1	+	4	663	c.598C>T	c.(598-600)CGG>TGG	p.R200W		NM_173664	NP_775935	Q8N8L6	ARL10_HUMAN	ADP-ribosylation factor-like 10	200							GTP binding			ovary(1)	1	all_cancers(89;0.0064)|Renal(175;0.000269)|Lung NSC(126;0.0105)|all_lung(126;0.0168)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.0965)		GGAGCTGCAGCGGGAGCTGGG	0.587													44	99					0	0	0.01441	0	0		T	175798761	T	T	175798761	3	4	19	1	0	0	0	0	1	0	0	0	926	759	27	1	612	1	ARL10	5	175798761	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5256	175798761	5116499	993	14506											
RNF44	22838	broad.mit.edu	37	chr5	175958479	175958479	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaccgggggcgggaggcaGcagagggggtaatgctgccc	7	4	19	11	2	1	1	1	0	0	1	1	2	1	2	2	6	3	4	2	6	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:175958479G>A	uc003mek.1	-	4	975	c.450C>T	c.(448-450)TGC>TGT	p.C150C	RNF44_uc011dfo.1_Silent_p.C58C|RNF44_uc003mel.1_5'Flank	NM_014901	NP_055716	Q7L0R7	RNF44_HUMAN	ring finger protein 44	150	Pro-rich.						zinc ion binding				0	all_cancers(89;0.0029)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCGGGAGGCAGCAGAGGGGGT	0.662													5	12					0	0	0.000602	0	0		A	175958479	A	A	175958479	2	1	19	1	0	0	0	0	0	0	0	1	13521	963	34	2		2	RNF44	5	175958479	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	159718	175958479	4956781	994	14507											
UNC5A	90249	broad.mit.edu	37	chr5	176306317	176306317	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcccacctccaggacacaAggtttgctgagctgctggct	7	9	10	15	0	0	1	0	1	0	0	2	2	2	2	4	3	3	5	4	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:176306317A>G	uc003mey.2	+	14	2383	c.2191A>G	c.(2191-2193)AGG>GGG	p.R731G		NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	731	Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCAGGACACAAGGTTTGCTGA	0.627													12	162					0	0	0.00245	0	0		G	176306317	G	G	176306317	3	3	19	1	0	0	0	0	1	0	0	0	17017	63	3	3	2245	3	UNC5A	5	176306317	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	347838	176306317	4608943	995	14508											
NSD1	64324	broad.mit.edu	37	chr5	176707797	176707797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaattttccgcacattacagCggggttggggtctacggaca	10	10	12	9	3	1	0	0	0	1	0	2	1	2	1	1	5	3	2	1	5	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:176707797C>T	uc003mfr.3	+	18	5992	c.5854C>T	c.(5854-5856)CGG>TGG	p.R1952W	NSD1_uc003mft.3_Missense_Mutation_p.R1683W|NSD1_uc003mfs.1_Missense_Mutation_p.R1849W|NSD1_uc011dfx.1_Missense_Mutation_p.R1600W	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1952	S-adenosyl-L-methionine binding.|SET.			R->W: Nearly abolished enzyme activity.	negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		CACATTACAGCGGGGTTGGGG	0.448			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			32	77					0	0	0.013726	0	0		T	176707797	T	T	176707797	3	4	19	1	0	0	0	0	1	0	0	0	10688	759	27	1	5920	1	NSD1	5	176707797	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	401480	176707797	4207463	996	14509											
F12	2161	broad.mit.edu	37	chr5	176832994	176832994	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctggccggcccttgtgggTacatttgtggtacagctgcc	4	11	14	12	1	0	0	0	0	0	0	0	0	0	0	4	4	4	3	4	4	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:176832994T>C	uc003mgo.3	-	3	233	c.184A>G	c.(184-186)ACC>GCC	p.T62A	F12_uc011dfy.1_5'Flank|F12_uc003mgn.3_5'Flank|F12_uc010jkl.2_RNA	NM_000505	NP_000496	P00748	FA12_HUMAN	coagulation factor XII precursor	62	Fibronectin type-II.				Factor XII activation|fibrinolysis|innate immune response|positive regulation of blood coagulation|positive regulation of fibrinolysis|positive regulation of plasminogen activation|protein autoprocessing|response to misfolded protein|zymogen activation	extracellular space|plasma membrane	serine-type endopeptidase activity				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCCTTGTGGGTACATTTGTGG	0.607									Hereditary_Angioedema				58	105					0	0	0.01441	0	0		C	176832994	C	C	176832994	3	2	19	1	0	0	0	0	1	0	0	0	5347	1638	57	3	1711	3	F12	5	176832994	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	125197	176832994	4082266	997	14510											
PDLIM7	9260	broad.mit.edu	37	chr5	176911090	176911090	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgctcgcaatagggcacGccctcctccatgtagaaggc	8	7	10	16	3	0	1	0	0	0	1	4	1	2	1	4	2	0	4	4	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:176911090G>A	uc003mhc.1	-	11	1237	c.1152C>T	c.(1150-1152)GGC>GGT	p.G384G	PDLIM7_uc003mha.1_Silent_p.G278G|PDLIM7_uc003mhb.1_Silent_p.G350G|PDLIM7_uc003mhd.1_Silent_p.G236G|PDLIM7_uc003mhe.1_RNA	NM_005451	NP_005442	Q9NR12	PDLI7_HUMAN	PDZ and LIM domain 7 isoform 1	384	LIM zinc-binding 2.				cell differentiation|multicellular organismal development|ossification|receptor-mediated endocytosis	cytoplasm|focal adhesion	protein binding|zinc ion binding			breast(1)	1	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AATAGGGCACGCCCTCCTCCA	0.602													26	57					0	0	0.00632	0	0		A	176911090	A	A	176911090	2	1	19	1	0	0	0	0	0	0	0	1	11703	1074	38	1		1	PDLIM7	5	176911090	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	78096	176911090	4004170	998	14511											
FAM193B	54540	broad.mit.edu	37	chr5	176952098	176952098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgacccgatccagttcccGgtcgggccactccaagagcc	7	7	11	16	3	0	2	0	1	0	1	4	3	3	2	6	2	1	2	6	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:176952098G>A	uc003mhs.3	-	8	2874	c.1285C>T	c.(1285-1287)CGG>TGG	p.R429W	FAM193B_uc003mhr.2_5'UTR|FAM193B_uc003mht.2_Missense_Mutation_p.R88W|FAM193B_uc003mhu.2_Missense_Mutation_p.R141W|FAM193B_uc003mhv.2_Missense_Mutation_p.R88W|FAM193B_uc003mhw.2_RNA	NM_019057	NP_061930	E9PET5	E9PET5_HUMAN	hypothetical protein LOC54540	462											0						TCCAGTTCCCGGTCGGGCCAC	0.577													16	48					0	0	0.008871	0	0		A	176952098	A	A	176952098	3	1	19	1	0	0	0	0	1	0	0	0	5536	1115	39	1	1096	1	FAM193B	5	176952098	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	41008	176952098	3963162	999	14512											
TMED9	54732	broad.mit.edu	37	chr5	177020670	177020670	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcatcctggcccggcagtAtggctccgagggcaggttca	6	8	15	12	2	2	0	2	0	0	0	4	1	4	0	3	6	0	5	3	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:177020670A>G	uc003mhx.2	+	3	308	c.305A>G	c.(304-306)TAT>TGT	p.Y102C	TMED9_uc010jko.2_RNA	NM_017510	NP_059980	Q9BVK6	TMED9_HUMAN	transmembrane emp24 protein transport domain	102	GOLD.|Lumenal (Potential).			Y -> C (in Ref. 3; AAL35268).	transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|integral to membrane					0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCCCGGCAGTATGGCTCCGAG	0.517													4	264					0	0	0.000602	0	0		G	177020670	G	G	177020670	3	3	19	1	0	0	0	0	1	0	0	0	16037	449	16	3	315	3	TMED9	5	177020670	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	68572	177020670	3894590	1000	14513											
HNRNPAB	3182	broad.mit.edu	37	chr5	177632889	177632889	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggatactagcaaaaaagatTtaaaagactattttactaaa	20	11	6	4	0	0	2	0	0	0	2	0	3	0	3	0	1	3	1	0	1	11	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:177632889T>G	uc003miu.2	+	3	513	c.256T>G	c.(256-258)TTA>GTA	p.L86V	HNRNPAB_uc003miv.2_Missense_Mutation_p.L86V|HNRNPAB_uc010jks.2_Missense_Mutation_p.L86V|HNRNPAB_uc003miw.2_Missense_Mutation_p.L86V|HNRNPAB_uc003mix.2_Missense_Mutation_p.L86V	NM_031266	NP_112556	Q99729	ROAA_HUMAN	heterogeneous nuclear ribonucleoprotein A/B	85	RRM 1.				epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding				0						CAAAAAAGATTTAAAAGACTA	0.408													5	100					0	0	0.001168	0	0		G	177632889	G	G	177632889	3	3	19	1	0	0	0	0	1	0	0	0	7277	1838	64	5	262	5	HNRNPAB	5	177632889	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	612219	177632889	3282371	1001	14514											
ZNF354B	117608	broad.mit.edu	37	chr5	178310550	178310550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcaacacctttaagtctaGctcatcccttcgttatcatc	9	14	5	13	1	3	0	2	0	1	0	6	0	4	0	2	1	2	3	2	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:178310550G>A	uc003mjl.2	+	5	1323	c.1097G>A	c.(1096-1098)AGC>AAC	p.S366N	ZNF354B_uc003mjm.2_Missense_Mutation_p.S366N	NM_058230	NP_478137	Q96LW1	Z354B_HUMAN	zinc finger protein 354B	366	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TTTAAGTCTAGCTCATCCCTT	0.418													12	116					0	0	0.001855	0	0		A	178310550	A	A	178310550	3	1	19	1	0	0	0	0	1	0	0	0	17890	971	34	2	1111	2	ZNF354B	5	178310550	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	677661	178310550	2604710	1002	14515											
ZNF354B	117608	broad.mit.edu	37	chr5	178311048	178311048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaatgtgggatgtcttttgGccaaagtgcagctcttatac	10	13	11	7	0	2	1	0	0	2	1	2	2	2	2	1	2	3	2	1	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:178311048G>A	uc003mjl.2	+	5	1821	c.1595G>A	c.(1594-1596)GGC>GAC	p.G532D	ZNF354B_uc003mjm.2_Missense_Mutation_p.G532D	NM_058230	NP_478137	Q96LW1	Z354B_HUMAN	zinc finger protein 354B	532	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ATGTCTTTTGGCCAAAGTGCA	0.368													36	72					0	0	0.004878	0	0		A	178311048	A	A	178311048	3	1	19	1	0	0	0	0	1	0	0	0	17890	1203	42	2	1609	2	ZNF354B	5	178311048	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	498	178311048	2604212	1003	14516											
ZNF354C	30832	broad.mit.edu	37	chr5	178506355	178506355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtagggaatgtggtaaaGcctttagccagtgttcaacc	11	11	12	7	0	1	0	1	0	0	0	1	2	1	1	3	2	3	3	3	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:178506355G>A	uc003mju.2	+	5	1037	c.922G>A	c.(922-924)GCC>ACC	p.A308T		NM_014594	NP_055409	Q86Y25	Z354C_HUMAN	zinc finger protein 354C	308	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(89;0.00065)|all_epithelial(37;0.000153)|Renal(175;0.000159)|Lung NSC(126;0.00175)|all_lung(126;0.00309)	all_cancers(40;0.19)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.247)		ATGTGGTAAAGCCTTTAGCCA	0.428													9	236					0	0	0.004482	0	0		A	178506355	A	A	178506355	3	1	19	1	0	0	0	0	1	0	0	0	17891	971	34	2	936	2	ZNF354C	5	178506355	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	195307	178506355	2408905	1004	14517											
ADAMTS2	9509	broad.mit.edu	37	chr5	178541014	178541014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggccatggattttgtaggGttcatctacggcattggttt	7	15	12	7	1	2	0	1	0	1	0	2	1	2	1	1	5	1	4	1	5	2	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:178541014G>A	uc003mjw.2	-	22	3490	c.3490C>T	c.(3490-3492)CCC>TCC	p.P1164S	uc003mjv.3_5'Flank	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1164					collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		ATTTTGTAGGGTTCATCTACG	0.547													11	214					0	0	0.013537	0	0		A	178541014	A	A	178541014	3	1	19	1	0	0	0	0	1	0	0	0	265	1261	44	4	149	4	ADAMTS2	5	178541014	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	34659	178541014	2374246	1005	14518											
TRIM41	90933	broad.mit.edu	37	chr5	180651147	180651147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtaacccagttgtggggtGgggaggatgaggaggacaga	10	7	20	4	0	0	2	0	1	0	1	0	6	0	6	1	7	1	2	1	7	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:180651147G>A	uc003mne.1	+	1	842	c.148G>A	c.(148-150)GGG>AGG	p.G50R	uc003mnb.1_3'UTR|TRIM41_uc003mnc.1_Missense_Mutation_p.G50R|TRIM41_uc003mnd.1_Missense_Mutation_p.G50R|TRIM41_uc003mnf.1_RNA	NM_033549	NP_291027	Q8WV44	TRI41_HUMAN	tripartite motif-containing 41 isoform 1	50	RING-type.					cytoplasm|nucleus	ligase activity|protein binding|zinc ion binding				0	all_cancers(89;9.17e-06)|all_epithelial(37;1.19e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000209)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTTGTGGGGTGGGGAGGATGA	0.498													19	36					0	0	0.006122	0	0		A	180651147	A	A	180651147	3	1	19	1	0	0	0	0	1	0	0	0	16542	1348	47	4	150	4	TRIM41	5	180651147	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2110133	180651147	264113	1006	14519											
FOXC1	2296	broad.mit.edu	37	chr6	1611083	1611083	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacctctcgctcaacgagTgcttcgtcaaggtgccgcgc	8	8	10	15	5	3	0	2	0	1	0	5	1	3	0	2	1	4	2	2	1	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:1611083T>C	uc003mtp.2	+	1	403	c.403T>C	c.(403-405)TGC>CGC	p.C135R		NM_001453	NP_001444	Q12948	FOXC1_HUMAN	forkhead box C1	135	Fork-head.				anti-apoptosis|artery morphogenesis|blood vessel remodeling|brain development|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|germ cell migration|glycosaminoglycan metabolic process|lacrimal gland development|lymphangiogenesis|metanephros development|negative regulation of mitotic cell cycle|neural crest cell fate commitment|Notch signaling pathway|odontogenesis of dentine-containing tooth|ossification|ovarian follicle development|paraxial mesodermal cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	nuclear heterochromatin|transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(93;0.0733)	all_cancers(2;4.45e-07)|all_epithelial(2;4.33e-05)|all_lung(73;0.0713)|all_hematologic(90;0.0895)		Epithelial(2;0.0904)|OV - Ovarian serous cystadenocarcinoma(45;0.095)|all cancers(2;0.168)		GCTCAACGAGTGCTTCGTCAA	0.597													6	89					0	0	0.006214	0	0		C	1611083	C	C	1611083	3	2	19	1	0	0	0	0	1	0	0	0	6008	1696	59	3	405	3	FOXC1	6	1611083	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08		1611083	169503984	1007	14520											
MYLK4	340156	broad.mit.edu	37	chr6	2683360	2683360	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtcaaattgtagctctcAtcgatgatgcggtcaaacag	11	11	9	10	3	3	1	3	1	1	0	6	2	4	1	1	1	3	2	1	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:2683360A>G	uc003mty.3	-	7	879	c.582T>C	c.(580-582)GAT>GAC	p.D194D		NM_001012418	NP_001012418	Q86YV6	MYLK4_HUMAN	myosin light chain kinase family, member 4	194	Protein kinase.						ATP binding|protein serine/threonine kinase activity			breast(3)|ovary(1)	4	Ovarian(93;0.0412)	all_hematologic(90;0.0897)				TGTAGCTCTCATCGATGATGC	0.493													32	48					0	0	0.003271	0	0		G	2683360	G	G	2683360	2	3	19	1	0	0	0	0	0	0	0	1	10077	214	8	3		3	MYLK4	6	2683360	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1072277	2683360	168431707	1008	14521											
FAM50B	26240	broad.mit.edu	37	chr6	3850929	3850929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcgggcaaggtggtgctgcGcagctggtacgagaagaaca	10	5	17	9	4	0	2	0	0	0	2	0	3	0	2	0	4	5	5	0	4	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:3850929G>A	uc003mvu.2	+	2	996	c.884G>A	c.(883-885)CGC>CAC	p.R295H		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	295						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				GTGGTGCTGCGCAGCTGGTAC	0.627													29	55					0	0	0.009535	0	0		A	3850929	A	A	3850929	3	1	19	1	0	0	0	0	1	0	0	0	5592	1087	38	1	886	1	FAM50B	6	3850929	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1167569	3850929	167264138	1009	14522											
PRPF4B	8899	broad.mit.edu	37	chr6	4044165	4044165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattctggagcgagtagctgCtgatgttaaagagtatgaac	12	11	12	6	1	1	3	0	2	1	1	1	5	1	4	0	1	4	5	0	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:4044165C>T	uc003mvv.2	+	6	1860	c.1769C>T	c.(1768-1770)GCT>GTT	p.A590V	PRPF4B_uc003mvw.2_RNA|PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	590						catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				CGAGTAGCTGCTGATGTTAAA	0.448													51	98					0	0	0.01441	0	0		T	4044165	T	T	4044165	3	4	19	1	0	0	0	0	1	0	0	0	12595	797	28	2	1791	2	PRPF4B	6	4044165	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	193236	4044165	167070902	1010	14523											
PRPF4B	8899	broad.mit.edu	37	chr6	4060797	4060797	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgttggacccagctaaaCgaattagcatcaaccaggcc	13	8	9	11	1	1	1	1	1	0	0	1	3	1	2	3	2	4	3	3	2	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:4060797C>T	uc003mvv.2	+	15	3062	c.2971C>T	c.(2971-2973)CGA>TGA	p.R991*	PRPF4B_uc003mvw.2_RNA|C6orf146_uc010jnq.1_Intron|PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	991	Protein kinase.					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				CCCAGCTAAACGAATTAGCAT	0.433													13	34					0	0	0.003163	0	0		T	4060797	T	T	4060797	4	4	19	1	0	0	0	0	0	1	0	0	12595	528	19	1	3029	1	PRPF4B	6	4060797	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	16632	4060797	167054270	1011	14524											
CDYL	9425	broad.mit.edu	37	chr6	4892220	4892220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacctctcctaaggcactcGtgattgggaaagaccacgaa	13	7	10	11	2	1	3	0	1	1	2	3	5	1	4	3	2	0	1	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:4892220G>A	uc003mwi.2	+	4	591	c.460G>A	c.(460-462)GTG>ATG	p.V154M	CDYL_uc003mwj.2_Missense_Mutation_p.V100M|CDYL_uc003mwk.2_Intron|CDYL_uc011dhx.1_Translation_Start_Site|CDYL_uc011dhy.1_Translation_Start_Site	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	154					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		TAAGGCACTCGTGATTGGGAA	0.483													39	88					0	0	0.007835	0	0		A	4892220	A	A	4892220	3	1	19	1	0	0	0	0	1	0	0	0	3188	1145	40	1	304	1	CDYL	6	4892220	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	831423	4892220	166222847	1012	14525											
RREB1	6239	broad.mit.edu	37	chr6	7229890	7229890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcacaccacggacggtggtgGccacctccacgcccccgcct	6	5	10	20	4	1	0	1	0	0	0	2	1	2	1	7	4	0	0	7	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:7229890G>A	uc003mxc.2	+	10	1948	c.1558G>A	c.(1558-1560)GCC>ACC	p.A520T	RREB1_uc003mxb.2_Missense_Mutation_p.A520T|RREB1_uc010jnx.2_Missense_Mutation_p.A520T	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	520	Pro-rich.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				GACGGTGGTGGCCACCTCCAC	0.682													7	129					0	0	0.004482	0	0		A	7229890	A	A	7229890	3	1	19	1	0	0	0	0	1	0	0	0	13704	1203	42	2	1584	2	RREB1	6	7229890	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2337670	7229890	163885177	1013	14526											
RREB1	6239	broad.mit.edu	37	chr6	7231588	7231588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaccctgctgaaaaccaagGtggcggacccagggcccgca	10	3	12	16	2	0	1	0	1	0	0	0	2	0	2	5	4	2	2	5	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:7231588G>A	uc003mxc.2	+	10	3646	c.3256G>A	c.(3256-3258)GTG>ATG	p.V1086M	RREB1_uc003mxb.2_Missense_Mutation_p.V1086M|RREB1_uc010jnx.2_Missense_Mutation_p.V1086M	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1086					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				GAAAACCAAGGTGGCGGACCC	0.637													23	72					0	0	0.004656	0	0		A	7231588	A	A	7231588	3	1	19	1	0	0	0	0	1	0	0	0	13704	1261	44	4	3282	4	RREB1	6	7231588	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1698	7231588	163883479	1014	14527											
DSP	1832	broad.mit.edu	37	chr6	7580103	7580103	+	Frame_Shift_Del	DEL	A	-	-																															catcaaggagatatccatgcAaaaagaggatgattccaaaa																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:7580103delA	uc003mxp.1	+	23	3959	c.3680delA	c.(3679-3681)CAAfs	p.Q1227fs	DSP_uc003mxq.1_Intron	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1227	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		ATATCCATGCAAAAAGAGGAT	0.368													57	109	---	---	---	---						.	-	7580103	-	-	7580103	7	5	19	1	0	1	0	1	0	0	0	0	4787	130	5	0	3770	0	DSP	6	7580103	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	348515	7580103	163534964	1015	14528											
SNRNP48	154007	broad.mit.edu	37	chr6	7606326	7606326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtggaagctatttggatgCtgagtgttcacgacatagaa	11	12	13	5	1	1	2	1	1	0	1	1	5	1	4	0	3	2	3	0	3	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:7606326C>T	uc003mxr.2	+	8	928	c.869C>T	c.(868-870)GCT>GTT	p.A290V	SNRNP48_uc003mxs.2_RNA|SNRNP48_uc003mxt.1_Missense_Mutation_p.A42V	NM_152551	NP_689764	Q6IEG0	SNR48_HUMAN	U11/U12 snRNP 48K	290					mRNA processing	cytoplasm|U12-type spliceosomal complex	metal ion binding				0						TATTTGGATGCTGAGTGTTCA	0.393													4	122					0	0	0.009096	0	0		T	7606326	T	T	7606326	3	4	19	1	0	0	0	0	1	0	0	0	14882	797	28	2	899	2	SNRNP48	6	7606326	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	26223	7606326	163508741	1016	14529											
TXNDC5	81567	broad.mit.edu	37	chr6	7904900	7904900	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttggcatcttccatgctgTtgtatttgtctcccaggtca	5	17	8	11	0	3	0	1	0	2	0	5	0	4	0	2	2	1	4	2	2	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:7904900T>C	uc003mxv.2	-	2	352	c.320A>G	c.(319-321)AAC>AGC	p.N107S	TXNDC5_uc003mxw.2_Missense_Mutation_p.N64S|TXNDC5_uc010jnz.2_5'UTR|TXNDC5_uc010joa.1_5'UTR	NM_030810	NP_110437	Q8NBS9	TXND5_HUMAN	thioredoxin domain containing 5 isoform 1	107	Thioredoxin 1.				anti-apoptosis|cell redox homeostasis|cellular membrane organization|glycerol ether metabolic process|post-Golgi vesicle-mediated transport	endoplasmic reticulum lumen|lysosomal lumen	electron carrier activity|isomerase activity|protein disulfide oxidoreductase activity				0	Ovarian(93;0.0398)					TTCCATGCTGTTGTATTTGTC	0.552													6	58					0	0	0.001168	0	0		C	7904900	C	C	7904900	3	2	19	1	0	0	0	0	1	0	0	0	16825	1725	60	3	1014	3	TXNDC5	6	7904900	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	298574	7904900	163210167	1017	14530											
EEF1E1	9521	broad.mit.edu	37	chr6	8090483	8090483	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaagttataccctgtaaggTagactttatcttcaagatat	14	15	6	6	0	2	2	1	0	1	2	2	2	2	2	1	1	1	3	1	1	9	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:8090483T>C	uc003mxz.2	-	3	394	c.320A>G	c.(319-321)TAC>TGC	p.Y107C	EEF1E1_uc011dic.1_Missense_Mutation_p.Y107C	NM_004280	NP_004271	O43324	MCA3_HUMAN	eukaryotic translation elongation factor 1	107	GST C-terminal.				negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of DNA damage response, signal transduction by p53 class mediator|tRNA aminoacylation for protein translation	cytosol|nucleus					0	Ovarian(93;0.0398)					CCCTGTAAGGTAGACTTTATC	0.249													3	56					0	0	0.004672	0	0		C	8090483	C	C	8090483	3	2	19	1	0	0	0	0	1	0	0	0	4933	1638	57	3	252	3	EEF1E1	6	8090483	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	185583	8090483	163024584	1018	14531											
HIVEP1	3096	broad.mit.edu	37	chr6	12120215	12120215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaatcacctgaaaaaaataCcaaaatccccactgagaaat	21	6	4	10	0	1	3	1	2	0	2	2	4	2	3	4	0	1	0	4	0	8	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:12120215C>T	uc003nac.2	+	4	366	c.187C>T	c.(187-189)CCA>TCA	p.P63S	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	63					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				GAAAAAAATACCAAAATCCCC	0.398													8	172					0	0	0.00308	0	0		T	12120215	T	T	12120215	3	4	19	1	0	0	0	0	1	0	0	0	7202	507	18	4	197	4	HIVEP1	6	12120215	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4029732	12120215	158994852	1019	14532											
PHACTR1	221692	broad.mit.edu	37	chr6	13283685	13283685	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccacggtggaagagcttcGggaaagaaagatcctcatcc	12	6	12	11	2	1	3	1	0	0	3	4	5	3	5	3	3	1	1	3	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:13283685G>A	uc010jpc.2	+	13	1873	c.1541G>A	c.(1540-1542)CGG>CAG	p.R514Q	PHACTR1_uc003nah.1_Missense_Mutation_p.R514Q|TBC1D7_uc003naj.2_Intron|TBC1D7_uc011dis.1_Intron|uc003nak.1_Intron	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	514	RPEL 4.					cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			GAAGAGCTTCGGGAAAGAAAG	0.592													63	124					0	0	0.01441	0	0		A	13283685	A	A	13283685	3	1	19	1	0	0	0	0	1	0	0	0	11828	1116	39	1	1583	1	PHACTR1	6	13283685	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1163470	13283685	157831382	1020	14533											
TBC1D7	51256	broad.mit.edu	37	chr6	13306708	13306708	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggttaataaaatttcgacAgctacaaaaactaggatctt	18	11	6	6	1	1	0	0	0	1	0	2	2	1	1	0	2	3	2	0	2	8	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:13306708A>G	uc003naj.2	-	7	808	c.717T>C	c.(715-717)GCT>GCC	p.A239A	TBC1D7_uc011dis.1_Intron|TBC1D7_uc003nan.2_Silent_p.A239A|TBC1D7_uc003nal.2_Silent_p.A239A|TBC1D7_uc003nam.2_Silent_p.A239A|TBC1D7_uc003nao.2_Silent_p.A212A|TBC1D7_uc010jpd.2_Silent_p.A193A|TBC1D7_uc003nap.2_3'UTR	NM_016495	NP_057579	Q9P0N9	TBCD7_HUMAN	TBC1 domain family, member 7 isoform a	239					positive regulation of protein ubiquitination	cytoplasmic membrane-bounded vesicle	protein binding|Rab GTPase activator activity			ovary(1)	1	Breast(50;0.0296)|Ovarian(93;0.0339)	all_hematologic(90;0.135)	Epithelial(50;0.0784)|BRCA - Breast invasive adenocarcinoma(129;0.13)|all cancers(50;0.21)			AAATTTCGACAGCTACAAAAA	0.308													13	52					0	0	0.001855	0	0		G	13306708	G	G	13306708	2	3	19	1	0	0	0	0	0	0	0	1	15649	175	7	3		3	TBC1D7	6	13306708	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	23023	13306708	157808359	1021	14534											
GFOD1	54438	broad.mit.edu	37	chr6	13365792	13365792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaggaagcgcagcacgttgCccatgatgctcatgagcttg	9	8	13	11	2	1	2	1	2	0	0	1	3	1	3	1	1	5	6	1	1	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:13365792C>T	uc003nat.1	-	2	1021	c.356G>A	c.(355-357)GGC>GAC	p.G119D	GFOD1_uc003nas.1_Missense_Mutation_p.G16D	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	119						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			CAGCACGTTGCCCATGATGCT	0.647													11	128					0	0	0.00245	0	0		T	13365792	T	T	13365792	3	4	19	1	0	0	0	0	1	0	0	0	6358	739	26	2	820	2	GFOD1	6	13365792	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	59084	13365792	157749275	1022	14535											
JARID2	3720	broad.mit.edu	37	chr6	15496925	15496925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacgtgaagaaggaagtgcCggagcgcagtctggagagga	13	4	17	7	3	1	3	0	1	1	2	1	7	1	6	1	4	2	1	1	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:15496925C>T	uc003nbj.2	+	7	1713	c.1469C>T	c.(1468-1470)CCG>CTG	p.P490L	JARID2_uc011diu.1_Missense_Mutation_p.P354L|JARID2_uc011div.1_Missense_Mutation_p.P318L|JARID2_uc011diw.1_Missense_Mutation_p.P452L	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	490					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				AAGGAAGTGCCGGAGCGCAGT	0.662													12	57					0	0	0.001855	0	0		T	15496925	T	T	15496925	3	4	19	1	0	0	0	0	1	0	0	0	7961	652	23	1	1495	1	JARID2	6	15496925	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2131133	15496925	155618142	1023	14536											
DTNBP1	84062	broad.mit.edu	37	chr6	15638027	15638027	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaagtgcagcccatgtaTcctcatacctaaaaaaaagc	15	9	7	10	0	1	1	1	1	0	0	2	1	2	1	3	0	4	2	3	0	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:15638027T>A	uc003nbm.2	-	4	341	c.170A>T	c.(169-171)GAT>GTT	p.D57V	DTNBP1_uc003nbl.2_5'UTR|DTNBP1_uc003nbn.2_RNA|DTNBP1_uc003nbo.2_RNA|DTNBP1_uc003nbp.2_Missense_Mutation_p.D57V|DTNBP1_uc010jph.2_Missense_Mutation_p.D44V	NM_032122	NP_115498	Q96EV8	DTBP1_HUMAN	dystrobrevin binding protein 1 isoform a	57					actin cytoskeleton reorganization|cellular membrane organization|neuron projection morphogenesis|post-Golgi vesicle-mediated transport|regulation of dopamine receptor signaling pathway	axon part|BLOC-1 complex|cell junction|dendritic spine|endoplasmic reticulum membrane|endosome membrane|growth cone|melanosome membrane|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|synaptic vesicle membrane|synaptosome	identical protein binding				0	Breast(50;0.0289)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.211)			AGCCCATGTATCCTCATACCT	0.303									Hermansky-Pudlak_syndrome				9	68					0	0	0.006214	0	0		A	15638027	A	A	15638027	3	1	19	1	0	0	0	0	1	0	0	0	4796	1435	50	5	1014	5	DTNBP1	6	15638027	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	141102	15638027	155477040	1024	14537											
MYLIP	29116	broad.mit.edu	37	chr6	16143397	16143397	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagaaactgctcattggggTtggacctgaaggaatctcaa	12	9	12	8	0	2	2	2	1	1	1	3	4	2	4	1	4	2	3	1	4	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:16143397T>C	uc003nbq.2	+	4	848	c.611T>C	c.(610-612)GTT>GCT	p.V204A	MYLIP_uc003nbr.2_Missense_Mutation_p.V23A	NM_013262	NP_037394	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting	204	FERM.				cellular component movement|nervous system development	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)			CTCATTGGGGTTGGACCTGAA	0.413													15	169					0	0	0.003163	0	0		C	16143397	C	C	16143397	3	2	19	1	0	0	0	0	1	0	0	0	10073	1725	60	3	625	3	MYLIP	6	16143397	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	505370	16143397	154971670	1025	14538											
MYLIP	29116	broad.mit.edu	37	chr6	16145537	16145537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctgtgagagctgcgccGcccagctacaggtaggggag	7	7	17	10	2	0	1	0	1	0	1	0	3	0	2	2	3	5	4	2	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:16145537G>A	uc003nbq.2	+	6	1474	c.1237G>A	c.(1237-1239)GCC>ACC	p.A413T	MYLIP_uc003nbr.2_Missense_Mutation_p.A232T	NM_013262	NP_037394	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting	413	RING-type.				cellular component movement|nervous system development	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)			GAGCTGCGCCGCCCAGCTACA	0.592													28	79					0	0	0.005524	0	0		A	16145537	A	A	16145537	3	1	19	1	0	0	0	0	1	0	0	0	10073	1087	38	1	1259	1	MYLIP	6	16145537	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2140	16145537	154969530	1026	14539											
ATXN1	6310	broad.mit.edu	37	chr6	16328417	16328417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcccgggagccatgctgtgCcctccacccggtggttgtcg	3	9	14	15	3	0	0	0	0	0	0	2	1	1	1	5	3	4	2	5	3	0	1	rs146653003	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:16328417C>T	uc003nbt.2	-	8	1096	c.125G>A	c.(124-126)GGC>GAC	p.G42D	ATXN1_uc010jpi.2_Missense_Mutation_p.G42D|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	42					cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				CCATGCTGTGCCCTCCACCCG	0.687													19	104					0	0	0.004656	0	0		T	16328417	T	T	16328417	3	4	19	1	0	0	0	0	1	0	0	0	1210	739	26	2	2330	2	ATXN1	6	16328417	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	182880	16328417	154786650	1027	14540											
NUP153	9972	broad.mit.edu	37	chr6	17626217	17626217	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgctggattcagcagtgttAccaaaggcagagctgctcac	10	9	12	10	0	2	1	2	0	0	1	2	2	2	2	1	2	5	6	1	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:17626217A>G	uc003ncd.1	-	19	3923	c.3723T>C	c.(3721-3723)GGT>GGC	p.G1241G	NUP153_uc011dje.1_Silent_p.G1272G|NUP153_uc010jpl.1_Silent_p.G1199G	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	1241					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			CAGCAGTGTTACCAAAGGCAG	0.488													4	63					0	0	0.000602	0	0		G	17626217	G	G	17626217	2	3	19	1	0	0	0	0	0	0	0	1	10774	378	14	3		3	NUP153	6	17626217	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1297800	17626217	153488850	1028	14541											
KIF13A	63971	broad.mit.edu	37	chr6	17794613	17794613	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcaccgtgacttgtactCtacgggaatgaccctgaaga	10	11	10	10	2	2	4	1	3	1	1	2	5	2	5	2	1	2	2	2	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:17794613C>A	uc003ncg.3	-	25	3194	c.3089G>T	c.(3088-3090)AGA>ATA	p.R1030I	KIF13A_uc003ncf.2_Missense_Mutation_p.R1030I|KIF13A_uc003nch.3_Missense_Mutation_p.R1030I|KIF13A_uc003nci.3_Missense_Mutation_p.R1030I	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	1030					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			GACTTGTACTCTACGGGAATG	0.493													37	70					6.90743e-12	7.25001e-12	0.003755	1	0		A	17794613	A	A	17794613	3	1	19	1	0	0	0	0	1	0	0	0	8290	913	32	5	2413	5	KIF13A	6	17794613	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	168396	17794613	153320454	1029	14542											
CDKAL1	54901	broad.mit.edu	37	chr6	20846385	20846385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atccaattgatgaactagtaGatagagccaaacaatctttt	16	12	6	7	0	1	4	0	2	1	2	2	4	2	4	2	0	3	1	2	0	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:20846385G>A	uc003ndc.1	+	9	892	c.718G>A	c.(718-720)GAT>AAT	p.D240N	CDKAL1_uc003ndd.1_Missense_Mutation_p.D240N|CDKAL1_uc003nde.1_Missense_Mutation_p.D170N	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	240					RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			TGAACTAGTAGATAGAGCCAA	0.323													20	51					0	0	0.008871	0	0		A	20846385	A	A	20846385	3	1	19	1	0	0	0	0	1	0	0	0	3155	942	33	4	744	4	CDKAL1	6	20846385	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3051772	20846385	150268682	1030	14543											
HIST1H3B	8358	broad.mit.edu	37	chr6	26032005	26032005	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagtaggcctcacaagccTcctgcagcgccatcaccgca	10	5	8	18	2	2	0	2	0	0	0	3	0	3	0	6	1	3	3	6	1	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:26032005T>C	uc003nfs.1	-	1	284	c.284A>G	c.(283-285)GAG>GGG	p.E95G		NM_003537	NP_003528	P68431	H31_HUMAN	histone cluster 1, H3b	95					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						CTCACAAGCCTCCTGCAGCGC	0.557													5	106					0	0	0.000602	0	0		C	26032005	C	C	26032005	3	2	19	1	0	0	0	0	1	0	0	0	7172	1551	54	3	130	3	HIST1H3B	6	26032005	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	5185620	26032005	145083062	1031	14544											
HIST1H1E	3008	broad.mit.edu	37	chr6	26157199	26157199	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagcgaaggccaaagcagTtaaacccaaggcggctaaac	15	3	10	13	2	0	0	0	0	0	0	0	1	0	0	3	3	4	3	3	3	7	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:26157199T>C	uc003ngq.2	+	1	641	c.581T>C	c.(580-582)GTT>GCT	p.V194A	HIST1H2BD_uc003ngr.2_5'Flank|HIST1H2BD_uc003ngs.2_5'Flank	NM_005321	NP_005312	P10412	H14_HUMAN	histone cluster 1, H1e	194					nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			large_intestine(1)|ovary(1)	2						GCCAAAGCAGTTAAACCCAAG	0.552													7	50					0	0	0.001984	0	0		C	26157199	C	C	26157199	3	2	19	1	0	0	0	0	1	0	0	0	7142	1725	60	3	583	3	HIST1H1E	6	26157199	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	125194	26157199	144957868	1032	14545											
HIST1H2BD	3017	broad.mit.edu	37	chr6	26158753	26158753	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggagggcaccaaggccgTcaccaagtacaccagttcca	11	5	11	14	2	1	0	1	0	0	0	3	1	2	1	5	3	1	3	5	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:26158753T>A	uc003ngr.2	+	1	405	c.356T>A	c.(355-357)GTC>GAC	p.V119D	HIST1H2BD_uc003ngs.2_Missense_Mutation_p.V119D	NM_021063	NP_066407	P58876	H2B1D_HUMAN	histone cluster 1, H2bd	119					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|pancreas(1)	2						ACCAAGGCCGTCACCAAGTAC	0.547													16	77					0	0	0.00499	0	0		A	26158753	A	A	26158753	3	1	19	1	0	0	0	0	1	0	0	0	7159	1667	58	5	358	5	HIST1H2BD	6	26158753	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1554	26158753	144956314	1033	14546											
HIST1H3E	8353	broad.mit.edu	37	chr6	26225698	26225698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctacttggtggggcttttcGaggacaccaacctgtgcgct	6	11	12	12	2	0	0	0	0	0	0	1	2	0	1	3	4	3	2	3	4	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:26225698G>A	uc003nhb.2	+	2	676	c.316G>A	c.(316-318)GAG>AAG	p.E106K	HIST1H3E_uc003nhc.3_Missense_Mutation_p.E106K	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	106					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.0223)|Acute lymphoblastic leukemia(11;0.0351)				GGGGCTTTTCGAGGACACCAA	0.587											OREG0017240	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	38					0	0	0.010771	0	0		A	26225698	A	A	26225698	3	1	19	1	0	0	0	0	1	0	0	0	7175	1059	37	1	318	1	HIST1H3E	6	26225698	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	66945	26225698	144889369	1034	14547											
BTN2A1	11120	broad.mit.edu	37	chr6	26468337	26468337	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctaggccgggagagcttcGcttcagggaaacattactgg	9	9	13	10	2	1	1	1	0	0	1	3	3	2	2	2	4	3	2	2	4	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:26468337G>T	uc003nib.1	+	8	1356	c.1144G>T	c.(1144-1146)GCT>TCT	p.A382S	BTN2A1_uc003nic.1_3'UTR|BTN2A1_uc003nid.1_Missense_Mutation_p.A230S|BTN2A1_uc011dko.1_Missense_Mutation_p.A321S|BTN2A1_uc010jqk.1_Missense_Mutation_p.A142S	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1	382	Cytoplasmic (Potential).|B30.2/SPRY.				lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						GGAGAGCTTCGCTTCAGGGAA	0.562													49	57					2.74695e-27	2.93999e-27	0.01441	1	0		T	26468337	T	T	26468337	3	4	19	1	0	0	0	0	1	0	0	0	1563	1087	38	5	1197	5	BTN2A1	6	26468337	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	242639	26468337	144646730	1035	14548											
HIST1H2BK	85236	broad.mit.edu	37	chr6	27114322	27114322	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtgatggtcgagcgctTgttgtaatgcgccaggcggg	6	9	19	7	4	0	1	0	1	0	0	1	3	0	2	1	5	2	3	1	5	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:27114322T>C	uc003nix.1	-	1	298	c.256A>G	c.(256-258)AAG>GAG	p.K86E	HIST1H2AH_uc003niz.2_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080593	NP_542160	O60814	H2B1K_HUMAN	histone cluster 1, H2bk	86					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						GTCGAGCGCTTGTTGTAATGC	0.632													5	117					0	0	0.001168	0	0		C	27114322	C	C	27114322	3	2	19	1	0	0	0	0	1	0	0	0	7166	1821	63	3	128	3	HIST1H2BK	6	27114322	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	645985	27114322	144000745	1036	14549											
HIST1H2BL	8340	broad.mit.edu	37	chr6	27775413	27775413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggtctggatctccctggagGtgatggtcgagcgcttgttg	4	12	16	9	3	2	1	0	1	2	0	4	4	2	3	1	5	1	2	1	5	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:27775413G>A	uc003njl.2	-	1	297	c.272C>T	c.(271-273)ACC>ATC	p.T91I	HIST1H3H_uc003njm.2_5'Flank	NM_003519	NP_003510	Q99880	H2B1L_HUMAN	histone cluster 1, H2bl	91					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CTCCCTGGAGGTGATGGTCGA	0.632													6	65					0	0	0.004482	0	0		A	27775413	A	A	27775413	3	1	19	1	0	0	0	0	1	0	0	0	7167	1261	44	4	112	4	HIST1H2BL	6	27775413	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	661091	27775413	143339654	1037	14550											
HIST1H1B	3009	broad.mit.edu	37	chr6	27834749	27834749	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcttggcaggactcttggTtgcctttttcggtttggcag	3	15	15	8	1	1	0	0	0	1	0	2	1	1	1	1	6	1	5	1	6	0	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:27834749T>C	uc003njx.2	-	1	611	c.559A>G	c.(559-561)ACC>GCC	p.T187A		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	187					nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						GGACTCTTGGTTGCCTTTTTC	0.572													25	41					0	0	0.004289	0	0		C	27834749	C	C	27834749	3	2	19	1	0	0	0	0	1	0	0	0	7139	1725	60	3	125	3	HIST1H1B	6	27834749	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	59336	27834749	143280318	1038	14551											
ZKSCAN4	387032	broad.mit.edu	37	chr6	28213206	28213206	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcaggagatgtgaattccgCctaaaggctttgccacacat	11	10	9	11	1	1	2	1	1	0	1	2	3	2	2	3	2	1	1	3	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:28213206C>T	uc003nks.1	-	5	1570	c.1326G>A	c.(1324-1326)AGG>AGA	p.R442R	ZKSCAN4_uc011dlb.1_Silent_p.R287R	NM_019110	NP_061983	Q969J2	ZKSC4_HUMAN	zinc finger with KRAB and SCAN domains 4	442	C2H2-type 5.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GTGAATTCCGCCTAAAGGCTT	0.488													11	83					0	0	0.010729	0	0		T	28213206	T	T	28213206	2	4	19	1	0	0	0	0	0	0	0	1	17714	738	26	2		2	ZKSCAN4	6	28213206	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	378457	28213206	142901861	1039	14552											
ZNF311	282890	broad.mit.edu	37	chr6	28964094	28964094	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actatgttttgagtttggatTcaagtttttactaagcactt	10	19	7	5	0	1	1	1	1	0	0	1	2	1	2	0	1	2	4	0	1	4	10			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:28964094T>C	uc003nlu.2	-	7	1198	c.685A>G	c.(685-687)AAT>GAT	p.N229D	ZNF311_uc011dlk.1_Missense_Mutation_p.N137D|ZNF311_uc003nlv.2_Missense_Mutation_p.N137D	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	229					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GAGTTTGGATTCAAGTTTTTA	0.388													7	145					0	0	0.00308	0	0		C	28964094	C	C	28964094	3	2	19	1	0	0	0	0	1	0	0	0	17859	1783	62	3	1319	3	ZNF311	6	28964094	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	750888	28964094	142150973	1040	14553											
HLA-F	3134	broad.mit.edu	37	chr6	29692222	29692222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaggagacgctacagcgcGcaggtaccaggggccatggg	10	3	18	10	3	0	1	0	0	0	1	0	3	0	2	2	6	3	3	2	6	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:29692222G>A	uc010jrl.2	+	3	731	c.607G>A	c.(607-609)GCA>ACA	p.A203T	HLA-F_uc003nnm.3_Missense_Mutation_p.A203T|HLA-F_uc003nno.3_Missense_Mutation_p.A203T|HLA-F_uc011dlx.1_Missense_Mutation_p.A203T|HLA-F_uc011dly.1_RNA	NM_018950	NP_061823	P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	203	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity				0						GCTACAGCGCGCAGGTACCAG	0.577													14	19					0	0	0.001855	0	0		A	29692222	A	A	29692222	3	1	19	1	0	0	0	0	1	0	0	0	7227	1087	38	1	617	1	HLA-F	6	29692222	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	728128	29692222	141422845	1041	14554											
HLA-A	3105	broad.mit.edu	37	chr6	29911191	29911191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaccgcggcggacatggcgGctcagatcaccaagcgcaag	10	3	15	13	5	2	1	2	0	0	1	2	3	2	3	2	5	1	2	2	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:29911191G>A	uc003nol.2	+	3	490	c.490G>A	c.(490-492)GCT>ACT	p.A164T	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_RNA|HLA-A_uc010jrq.2_Missense_Mutation_p.A43T|HLA-A_uc003nok.2_Missense_Mutation_p.A43T|HLA-A_uc003non.2_Missense_Mutation_p.A164T|HLA-A_uc003noo.2_Missense_Mutation_p.A164T|HLA-A_uc010jrr.2_Missense_Mutation_p.A164T|HLA-A_uc003nom.2_Missense_Mutation_p.A43T|HLA-A_uc010klp.2_Missense_Mutation_p.A136T|HLA-A_uc011dmc.1_Missense_Mutation_p.A43T|HLA-A_uc011dmd.1_Missense_Mutation_p.A43T	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A	164	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2						GGACATGGCGGCTCAGATCAC	0.662									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of|Osteosarcoma_Familial_Clustering_of|Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of	Multiple Myeloma(9;0.094)			6	15					0	0	0.001984	0	0		A	29911191	A	A	29911191	3	1	19	1	0	0	0	0	1	0	0	0	7211	1203	42	2	500	2	HLA-A	6	29911191	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	218969	29911191	141203876	1042	14555											
KIAA1949	170954	broad.mit.edu	37	chr6	30652406	30652406	+	Frame_Shift_Del	DEL	C	-	-																															gtgtccactgcggcggggggCccccacccctggccctgcct																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:30652406delC	uc003nra.2	-	2	1621	c.1390delG	c.(1390-1392)GCCfs	p.A464fs	KIAA1949_uc003nrb.3_Frame_Shift_Del_p.A464fs	NM_001134870	NP_001128342	Q6NYC8	PHTNS_HUMAN	phostensin	464						cytoplasm|cytoskeleton	actin binding				0						CGGCGGGGGGCCCCCACCCCT	0.547													3	6	---	---	---	---						.	-	30652406	-	-	30652406	7	5	19	1	0	1	0	1	0	0	0	0	8279	739	26	0	463	0	KIAA1949	6	30652406	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	741215	30652406	140462661	1043	14556											
HLA-C	3107	broad.mit.edu	37	chr6	31239472	31239472	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgtctcccggtcccaatActccggcccctcctgctcca	4	10	7	20	2	1	0	0	0	1	0	6	0	5	0	7	2	2	1	7	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:31239472A>G	uc003nsy.2	-	2	254	c.247T>C	c.(247-249)TAT>CAT	p.Y83H	HLA-C_uc011dnj.1_Missense_Mutation_p.Y55H|HLA-C_uc003nsx.2_5'UTR|HLA-C_uc003nsz.2_Missense_Mutation_p.Y83H|HLA-C_uc010jsl.2_Missense_Mutation_p.Y83H|HLA-C_uc003nta.2_Missense_Mutation_p.Y83H|HLA-C_uc003ntb.2_Intron|HLA-C_uc003ntc.1_Intron|HLA-B_uc010jsm.1_Intron|HLA-B_uc011dnk.1_Intron|HLA-C_uc011dnl.1_5'UTR|HLA-B_uc003ntf.2_Intron	NM_002117	NP_002108	Q9TNN7	1C05_HUMAN	major histocompatibility complex, class I, C	83	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex					0						CGGTCCCAATACTCCGGCCCC	0.677													20	20					0	0	0.014323	0	0		G	31239472	G	G	31239472	3	3	19	1	0	0	0	0	1	0	0	0	7213	391	14	3	881	3	HLA-C	6	31239472	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	587066	31239472	139875595	1044	14557											
HLA-B	3106	broad.mit.edu	37	chr6	31324192	31324192	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgtccggccccacgtcgcagCcgtacatgctctggagggtg	5	7	14	15	5	1	0	0	0	1	0	3	1	2	1	4	3	3	3	4	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:31324192C>T	uc003nth.2	-	3	425	c.371G>A	c.(370-372)GGC>GAC	p.G124D	HLA-C_uc003ntb.2_5'Flank|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_5'Flank|HLA-B_uc011dnk.1_5'Flank|HLA-B_uc003ntf.2_Intron|HLA-B_uc003ntg.1_Missense_Mutation_p.G3D|HLA-B_uc003nti.1_5'Flank|HLA-B_uc010jsn.1_5'Flank|HLA-B_uc010jso.2_Missense_Mutation_p.G96D	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B	124	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						CACGTCGCAGCCGTACATGCT	0.721									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				5	4					0	0	0.008291	0	0		T	31324192	T	T	31324192	3	4	19	1	0	0	0	0	1	0	0	0	7212	739	26	2	737	2	HLA-B	6	31324192	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	84720	31324192	139790875	1045	14558											
BAT2	7916	broad.mit.edu	37	chr6	31599957	31599957	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccagaggggtgccatctcgCcggggccgaggaggagggag	7	3	20	11	3	1	1	0	0	1	1	2	5	1	4	4	7	1	0	4	7	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:31599957C>T	uc003nvb.3	+	16	3756	c.3507C>T	c.(3505-3507)CGC>CGT	p.R1169R	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Silent_p.R1169R	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1169	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						TGCCATCTCGCCGGGGCCGAG	0.687													24	16					0	0	0.005443	0	0		T	31599957	T	T	31599957	2	4	19	1	0	0	0	0	0	0	0	1	1320	726	26	2		2	BAT2	6	31599957	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	275765	31599957	139515110	1046	14559											
PBX2	5089	broad.mit.edu	37	chr6	32156218	32156218	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccctctgccagaagcatgTtgtccaagcgcatcagctgt	9	9	9	14	1	2	1	1	0	1	1	3	1	3	1	3	0	4	4	3	0	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:32156218T>C	uc003oav.1	-	3	630	c.359A>G	c.(358-360)AAC>AGC	p.N120S	PBX2_uc003oaw.2_Missense_Mutation_p.N120S	NM_002586	NP_002577	P40425	PBX2_HUMAN	pre-B-cell leukemia homeobox 2	120							transcription factor binding			ovary(1)	1						CAGAAGCATGTTGTCCAAGCG	0.652													12	14					0	0	0.008871	0	0		C	32156218	C	C	32156218	3	2	19	1	0	0	0	0	1	0	0	0	11512	1725	60	3	961	3	PBX2	6	32156218	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	556261	32156218	138958849	1047	14560											
GPSM3	63940	broad.mit.edu	37	chr6	32160025	32160026	+	Frame_Shift_Ins	INS	-	A	A																															cttcctcatcctgaggggggINSccctgatgccaaaatatgtc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:32160025_32160026insA	uc003oay.3	-	2	437_438	c.44_45insT	c.(43-45)GGCfs	p.G15fs	PBX2_uc003oav.1_5'Flank|PBX2_uc003oaw.2_5'Flank|GPSM3_uc003oax.3_Frame_Shift_Ins_p.A5fs|GPSM3_uc003oaz.2_Frame_Shift_Ins_p.G15fs	NM_022107	NP_071390	Q9Y4H4	GPSM3_HUMAN	G-protein signaling modulator 3 (AGS3-like, C.	15					signal transduction	cytoplasm	GTPase activator activity|protein binding				0						CCTGAGGGGGGCCCTGATGCCA	0.619													22	13	---	---	---	---						.	A	32160026	A	A	32160025	7	5	19	1	0	1	1	0	0	0	0	0	6752	1190	42	0	449	0	GPSM3	6	32160025	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	3807	32160025	138955042	1048	14561											
HLA-DQA2	3118	broad.mit.edu	37	chr6	32713800	32713800	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgatgagatttatgaCtgcaaggtggagcactgggg	9	11	15	6	0	1	3	0	3	1	1	1	5	1	4	0	4	3	3	0	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:32713800C>T	uc003obx.2	+	3	622	c.564C>T	c.(562-564)GAC>GAT	p.D188D		NM_020056	NP_064440	P01906	DQA2_HUMAN	major histocompatibility complex, class II, DQ	188	Alpha-2.|Extracellular (Potential).|Ig-like C1-type.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to plasma membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AGATTTATGACTGCAAGGTGG	0.478													71	72					0	0	0.01441	0	0		T	32713800	T	T	32713800	2	4	19	1	0	0	0	0	0	0	0	1	7221	564	20	4		4	HLA-DQA2	6	32713800	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	553775	32713800	138401267	1049	14562											
TAP2	6891	broad.mit.edu	37	chr6	32803014	32803014	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggtgagtcgaggcgataTgctgagcatgaagccataca	12	7	15	7	2	0	3	0	3	0	0	1	6	0	3	1	2	4	2	1	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:32803014T>C	uc003occ.2	-	4	893	c.862A>G	c.(862-864)ATA>GTA	p.I288V	TAP2_uc011dqf.1_Missense_Mutation_p.I288V|TAP2_uc003ocb.1_Missense_Mutation_p.I288V|TAP2_uc003ocd.2_Missense_Mutation_p.I288V	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	288	Lumenal (Potential).|ABC transmembrane type-1.				antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						CGAGGCGATATGCTGAGCATG	0.532													3	27					0	0	0.004672	0	0		C	32803014	C	C	32803014	3	2	19	1	0	0	0	0	1	0	0	0	15576	1464	51	3	1315	3	TAP2	6	32803014	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	89214	32803014	138312053	1050	14563											
TAP2	6891	broad.mit.edu	37	chr6	32805593	32805593	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggagagcttcagcagccTccacatcaagactttgttgt	9	11	9	12	0	2	2	2	0	0	2	3	3	3	2	3	1	3	3	3	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:32805593T>C	uc003occ.2	-	1	449	c.418A>G	c.(418-420)AGG>GGG	p.R140G	TAP2_uc011dqf.1_Missense_Mutation_p.R140G|TAP2_uc003ocb.1_Missense_Mutation_p.R140G|TAP2_uc003ocd.2_Missense_Mutation_p.R140G	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	140	Cytoplasmic (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						TTCAGCAGCCTCCACATCAAG	0.602													14	29					0	0	0.001855	0	0		C	32805593	C	C	32805593	3	2	19	1	0	0	0	0	1	0	0	0	15576	1550	54	3	1771	3	TAP2	6	32805593	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2579	32805593	138309474	1051	14564											
TAP2	6891	broad.mit.edu	37	chr6	32805788	32805788	+	Frame_Shift_Del	DEL	G	-	-																															ggctctcagggagacagtcaGgggggtggccagacagagcg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:32805788delG	uc003occ.2	-	1	254	c.223delC	c.(223-225)CTGfs	p.L75fs	TAP2_uc011dqf.1_Frame_Shift_Del_p.L75fs|TAP2_uc003ocb.1_Frame_Shift_Del_p.L75fs|TAP2_uc003ocd.2_Frame_Shift_Del_p.L75fs	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	75	Helical; Name=2; (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						GAGACAGTCAGGGGGGTGGCC	0.692													39	30	---	---	---	---						.	-	32805788	-	-	32805788	7	5	19	1	0	1	0	1	0	0	0	0	15576	991	35	0	1966	0	TAP2	6	32805788	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	195	32805788	138309279	1052	14565											
PSMB8	5696	broad.mit.edu	37	chr6	32810470	32810470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcattccttggccagcaggCgctcccagtactgacagtct	7	10	10	14	1	1	1	0	1	1	0	3	1	3	1	3	2	3	4	3	2	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:32810470C>T	uc003oce.2	-	3	429	c.386G>A	c.(385-387)CGC>CAC	p.R129H	PSMB8_uc003ocf.2_Missense_Mutation_p.R125H|PSMB8_uc011dqh.1_3'UTR	NM_148919	NP_683720	P28062	PSB8_HUMAN	proteasome beta 8 subunit isoform E2 proprotein	129					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|type I interferon-mediated signaling pathway|viral reproduction	cytoplasm|nucleus|proteasome core complex	protein binding|threonine-type endopeptidase activity			skin(1)	1						GGCCAGCAGGCGCTCCCAGTA	0.517													15	19					0	0	0.004007	0	0		T	32810470	T	T	32810470	3	4	19	1	0	0	0	0	1	0	0	0	12705	768	27	1	460	1	PSMB8	6	32810470	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4682	32810470	138304597	1053	14566											
DAXX	1616	broad.mit.edu	37	chr6	33287839	33287839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcatcatcctcctgaccctCctgcatctgttccagatcct	6	14	4	17	0	3	2	2	1	1	1	8	2	8	2	6	0	1	2	6	0	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:33287839C>T	uc003oec.2	-	5	1618	c.1414G>A	c.(1414-1416)GAG>AAG	p.E472K	ZBTB22_uc003oeb.2_5'Flank|ZBTB22_uc010juu.2_5'Flank|DAXX_uc011drd.1_Missense_Mutation_p.E397K|DAXX_uc011dre.1_Missense_Mutation_p.E484K|DAXX_uc003oed.2_Missense_Mutation_p.E472K	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	472	Asp/Glu-rich (acidic).|Potential.|Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						tcctgaccctcctgcatctgt	0.204			Mis|F|N		Pancreatic neuroendocrine tumors								10	15					0	0	0.006214	0	0		T	33287839	T	T	33287839	3	4	19	1	0	0	0	0	1	0	0	0	4246	864	30	4	824	4	DAXX	6	33287839	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	477369	33287839	137827228	1054	14567											
FANCE	2178	broad.mit.edu	37	chr6	35423675	35423675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacccagatgcctggctcCgtgccctgggggaattgctg	5	9	14	13	1	0	2	0	1	0	1	1	3	1	3	4	3	3	2	4	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:35423675C>T	uc003oko.1	+	2	585	c.400C>T	c.(400-402)CGT>TGT	p.R134C	FANCE_uc010jvw.1_Missense_Mutation_p.R134C	NM_021922	NP_068741	Q9HB96	FANCE_HUMAN	Fanconi anemia, complementation group E	134					DNA repair	nucleoplasm	protein binding			ovary(1)|lung(1)|skin(1)	3						TGCCTGGCTCCGTGCCCTGGG	0.617			N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				33	28					0	0	0.004289	0	0		T	35423675	T	T	35423675	3	4	19	1	0	0	0	0	1	0	0	0	5680	652	23	1	406	1	FANCE	6	35423675	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2135836	35423675	135691392	1055	14568											
TULP1	7287	broad.mit.edu	37	chr6	35471339	35471339	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtgcggggctcacattTcggggccggatggggaccct	5	7	19	10	3	1	0	1	0	0	0	2	3	1	3	2	9	1	1	2	9	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:35471339T>C	uc003okv.3	-	13	1332	c.1320A>G	c.(1318-1320)CGA>CGG	p.R440R	TULP1_uc003okw.3_Silent_p.R387R	NM_003322	NP_003313	O00294	TULP1_HUMAN	tubby like protein 1	440					dendrite development|eye photoreceptor cell development|phagocytosis|photoreceptor cell maintenance|positive regulation of phagocytosis	cell junction|cytoplasm|extracellular region|photoreceptor inner segment|photoreceptor outer segment|synapse	actin filament binding|phosphatidylinositol-4,5-bisphosphate binding			ovary(2)|central_nervous_system(1)	3						GGCTCACATTTCGGGGCCGGA	0.622													4	0					0	0	0.000602	0	0		C	35471339	C	C	35471339	2	2	19	1	0	0	0	0	0	0	0	1	16799	1770	62	3		3	TULP1	6	35471339	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	47664	35471339	135643728	1056	14569											
KCTD20	222658	broad.mit.edu	37	chr6	36454812	36454812	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtgtgttcgaagcaaaTccctcacgaatctggtagct	10	11	9	11	2	2	0	1	0	1	0	5	2	4	0	2	1	2	4	2	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:36454812T>A	uc003ome.2	+	8	1511	c.1120T>A	c.(1120-1122)TCC>ACC	p.S374T	KCTD20_uc011dtm.1_Missense_Mutation_p.S229T|KCTD20_uc011dtn.1_Missense_Mutation_p.S128T|KCTD20_uc010jwk.2_Missense_Mutation_p.S208T|KCTD20_uc011dto.1_Missense_Mutation_p.S128T	NM_173562	NP_775833	Q7Z5Y7	KCD20_HUMAN	potassium channel tetramerisation domain	374						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)	2						TCGAAGCAAATCCCTCACGAA	0.473													6	155					0	0	0.001168	0	0		A	36454812	A	A	36454812	3	1	19	1	0	0	0	0	1	0	0	0	8124	1435	50	5	1146	5	KCTD20	6	36454812	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	983473	36454812	134660255	1057	14570											
CDKN1A	1026	broad.mit.edu	37	chr6	36651993	36651993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgactgtgatgcgctaatgGcgggctgcatccaggaggcc	7	7	16	11	3	0	1	0	1	0	0	1	3	1	2	2	4	2	3	2	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:36651993G>A	uc003omm.3	+	2	237	c.115G>A	c.(115-117)GCG>ACG	p.A39T	CDKN1A_uc011dtq.1_Missense_Mutation_p.A73T|CDKN1A_uc003oml.2_Missense_Mutation_p.A39T|CDKN1A_uc003omn.2_Missense_Mutation_p.A39T	NM_000389	NP_000380	P38936	CDN1A_HUMAN	cyclin-dependent kinase inhibitor 1A	39	C4-type (Potential).				cell cycle arrest|cellular response to extracellular stimulus|cellular response to ionizing radiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|induction of apoptosis by intracellular signals|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of fibroblast proliferation|positive regulation of reactive oxygen species metabolic process|Ras protein signal transduction|S phase of mitotic cell cycle|stress-induced premature senescence	cyclin-dependent protein kinase holoenzyme complex|cytosol|nucleoplasm|PCNA-p21 complex	cyclin-dependent protein kinase activating kinase activity|cyclin-dependent protein kinase inhibitor activity|metal ion binding			ovary(1)|breast(1)	2						TGCGCTAATGGCGGGCTGCAT	0.657									Multiple_Endocrine_Neoplasia_type_1				8	24					0	0	0.006214	0	0		A	36651993	A	A	36651993	3	1	19	1	0	0	0	0	1	0	0	0	3161	1203	42	2	117	2	CDKN1A	6	36651993	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	197181	36651993	134463074	1058	14571											
MTCH1	23787	broad.mit.edu	37	chr6	36946377	36946377	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcttaccatccacttgcacGatgtacttggctgtaagaaa	12	12	7	10	1	1	1	0	0	1	1	2	2	2	1	2	1	3	4	2	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:36946377G>A	uc003ond.1	-	3	417	c.417C>T	c.(415-417)ATC>ATT	p.I139I	MTCH1_uc003onc.1_Silent_p.I139I|MTCH1_uc010jwo.1_RNA|MTCH1_uc003one.3_Silent_p.I139I|MTCH1_uc011dtt.1_5'UTR	NM_014341	NP_055156	Q9NZJ7	MTCH1_HUMAN	mitochondrial carrier homolog 1	139	Solcar 1.				activation of caspase activity|neuronal ion channel clustering|positive regulation of apoptosis|regulation of signal transduction|transport	integral to membrane|mitochondrial inner membrane	protein binding				0						CCACTTGCACGATGTACTTGG	0.572													40	38					0	0	0.011902	0	0		A	36946377	A	A	36946377	2	1	19	1	0	0	0	0	0	0	0	1	9931	1048	37	1		1	MTCH1	6	36946377	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	294384	36946377	134168690	1059	14572											
MDGA1	266727	broad.mit.edu	37	chr6	37623659	37623659	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggtgcaccgtcagcatTggctcatccaggtctgcaag	7	10	12	12	1	4	0	2	0	2	0	5	0	5	0	2	3	3	4	2	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:37623659T>C	uc003onu.1	-	4	1575	c.396A>G	c.(394-396)CCA>CCG	p.P132P		NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	132	Ig-like 2.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						CCGTCAGCATTGGCTCATCCA	0.622													7	8					0	0	0.004482	0	0		C	37623659	C	C	37623659	2	2	19	1	0	0	0	0	0	0	0	1	9424	1799	63	3		3	MDGA1	6	37623659	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	677282	37623659	133491408	1060	14573											
GLO1	2739	broad.mit.edu	37	chr6	38650639	38650639	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgggtctcatcatcttcAgtgccccaattgctacaaaa	10	12	6	13	0	5	0	3	0	3	0	6	0	5	0	2	1	3	1	2	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:38650639A>G	uc003ooc.2	-	4	443	c.321T>C	c.(319-321)ACT>ACC	p.T107T		NM_006708	NP_006699	Q04760	LGUL_HUMAN	glyoxalase I	107				T->A: Loss of phosphorylation.	anti-apoptosis|carbohydrate metabolic process	cytoplasm	lactoylglutathione lyase activity|metal ion binding			ovary(1)	1					Glutathione(DB00143)	CATCATCTTCAGTGCCCCAAT	0.383													23	33					0	0	0.003954	0	0		G	38650639	G	G	38650639	2	3	19	1	0	0	0	0	0	0	0	1	6464	175	7	3		3	GLO1	6	38650639	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1026980	38650639	132464428	1061	14574											
DNAH8	1769	broad.mit.edu	37	chr6	38743627	38743627	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataaaattcagaaatatatAccaaggggttaagaaaaagc	22	8	7	4	0	1	2	1	0	0	2	1	2	1	2	1	2	2	1	1	2	11	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:38743627A>G	uc003ooe.1	+	11	1811	c.1211A>G	c.(1210-1212)TAC>TGC	p.Y404C		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AGAAATATATACCAAGGGGTT	0.308													4	66					0	0	0.009096	0	0		G	38743627	G	G	38743627	3	3	19	1	0	0	0	0	1	0	0	0	4613	391	14	3	1245	3	DNAH8	6	38743627	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	92988	38743627	132371440	1062	14575											
DNAH8	1769	broad.mit.edu	37	chr6	38838249	38838249	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactgcaactggatagtaatActtatgcagaactgcaaaac	16	9	8	8	0	0	1	0	0	0	1	0	3	0	2	0	1	7	4	0	1	8	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:38838249A>G	uc003ooe.1	+	47	6850	c.6250A>G	c.(6250-6252)ACT>GCT	p.T2084A		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GGATAGTAATACTTATGCAGA	0.423													5	78					0	0	0.00308	0	0		G	38838249	G	G	38838249	3	3	19	1	0	0	0	0	1	0	0	0	4613	391	14	3	6428	3	DNAH8	6	38838249	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	94622	38838249	132276818	1063	14576											
DNAH8	1769	broad.mit.edu	37	chr6	38840893	38840893	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcatggtctatatcagcagCtctgctctcagctggaggcc	7	10	12	12	0	4	0	2	0	3	0	5	1	4	1	1	4	4	5	1	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:38840893C>T	uc003ooe.1	+	49	7398	c.6798C>T	c.(6796-6798)AGC>AGT	p.S2266S		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ATATCAGCAGCTCTGCTCTCA	0.498													14	76					0	0	0.004007	0	0		T	38840893	T	T	38840893	2	4	19	1	0	0	0	0	0	0	0	1	4613	796	28	2		2	DNAH8	6	38840893	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2644	38840893	132274174	1064	14577											
DNAH8	1769	broad.mit.edu	37	chr6	38913267	38913267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcagctctggacctgaaagCctgtcctcccaaaccctatc	10	8	7	16	0	1	1	0	1	1	0	4	2	3	2	5	1	4	2	5	1	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:38913267C>T	uc003ooe.1	+	78	11981	c.11381C>T	c.(11380-11382)GCC>GTC	p.A3794V	DNAH8_uc003oog.1_Missense_Mutation_p.A243V|uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GACCTGAAAGCCTGTCCTCCC	0.458													37	47					0	0	0.00623	0	0		T	38913267	T	T	38913267	3	4	19	1	0	0	0	0	1	0	0	0	4613	739	26	2	11683	2	DNAH8	6	38913267	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	72374	38913267	132201800	1065	14578											
LRFN2	57497	broad.mit.edu	37	chr6	40359769	40359769	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcaaagggcaagagcatGccgttgacagagaggctgcg	11	6	14	10	2	1	3	1	1	0	2	2	4	2	3	2	2	3	4	2	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:40359769G>A	uc003oph.1	-	3	2748	c.2283C>T	c.(2281-2283)GGC>GGT	p.G761G		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	761	Cytoplasmic (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GCAAGAGCATGCCGTTGACAG	0.647													17	28					0	0	0.006122	0	0		A	40359769	A	A	40359769	2	1	19	1	0	0	0	0	0	0	0	1	8956	1306	46	2		2	LRFN2	6	40359769	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1446502	40359769	130755298	1066	14579											
LRFN2	57497	broad.mit.edu	37	chr6	40399694	40399694	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggggggtgcagtgcggcTggtgctgttgctgaggtgtg	2	12	21	6	1	0	1	0	1	0	0	0	1	0	1	0	6	4	5	0	6	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:40399694T>C	uc003oph.1	-	2	1624	c.1159A>G	c.(1159-1161)AGC>GGC	p.S387G		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	387	Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GCAGTGCGGCTGGTGCTGTTG	0.652													4	30					0	0	0.004482	0	0		C	40399694	C	C	40399694	3	2	19	1	0	0	0	0	1	0	0	0	8956	1580	55	3	1218	3	LRFN2	6	40399694	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	39925	40399694	130715373	1067	14580											
UNC5CL	222643	broad.mit.edu	37	chr6	40996272	40996272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtgcagctcctgcaggctgCcgttctgctcctcaaacaac	8	9	9	15	1	2	0	1	0	1	0	4	0	4	0	3	1	7	6	3	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:40996272C>T	uc003opi.2	-	9	1486	c.1397G>A	c.(1396-1398)GGC>GAC	p.G466D		NM_173561	NP_775832	Q8IV45	UN5CL_HUMAN	unc-5 homolog C-like	466	Death.|Cytoplasmic (Potential).				signal transduction	cytoplasm|integral to membrane				ovary(2)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					CTGCAGGCTGCCGTTCTGCTC	0.642											OREG0017423	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	31					0	0	0.006214	0	0		T	40996272	T	T	40996272	3	4	19	1	0	0	0	0	1	0	0	0	17020	739	26	2	163	2	UNC5CL	6	40996272	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	596578	40996272	130118795	1068	14581											
NCR2	9436	broad.mit.edu	37	chr6	41303947	41303947	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctggtgtaaggaggctTcagcacttgtgtgcatcagg	9	10	15	7	0	2	0	2	0	0	0	2	1	2	1	0	5	2	5	0	5	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:41303947T>A	uc003oqh.2	+	2	262	c.175T>A	c.(175-177)TCA>ACA	p.S59T	NCR2_uc003oqi.2_Missense_Mutation_p.S59T|NCR2_uc003oqj.2_Missense_Mutation_p.S59T	NM_004828	NP_004819	O95944	NCTR2_HUMAN	natural cytotoxicity triggering receptor 2	59	Extracellular (Potential).|Ig-like.				cellular defense response	integral to plasma membrane	transmembrane receptor activity			ovary(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					TAAGGAGGCTTCAGCACTTGT	0.557													7	35					0	0	0.00308	0	0		A	41303947	A	A	41303947	3	1	19	1	0	0	0	0	1	0	0	0	10257	1783	62	5	181	5	NCR2	6	41303947	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	307675	41303947	129811120	1069	14582											
NCR2	9436	broad.mit.edu	37	chr6	41309564	41309564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagacctcctggactcccCgcgacctggtctcttcacag	7	8	8	18	2	2	1	1	0	1	1	5	3	4	2	5	2	0	0	5	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:41309564C>T	uc003oqh.2	+	3	514	c.427C>T	c.(427-429)CGC>TGC	p.R143C	NCR2_uc003oqi.2_Missense_Mutation_p.R143C|NCR2_uc003oqj.2_Missense_Mutation_p.R143C	NM_004828	NP_004819	O95944	NCTR2_HUMAN	natural cytotoxicity triggering receptor 2	143	Extracellular (Potential).				cellular defense response	integral to plasma membrane	transmembrane receptor activity			ovary(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					CTGGACTCCCCGCGACCTGGT	0.622													28	35					0	0	0.003755	0	0		T	41309564	T	T	41309564	3	4	19	1	0	0	0	0	1	0	0	0	10257	652	23	1	437	1	NCR2	6	41309564	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5617	41309564	129805503	1070	14583											
KIAA0240	23506	broad.mit.edu	37	chr6	42797264	42797264	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccaacctcacgcaccccAaagtcagttccttataccta	11	8	6	16	1	2	0	2	0	0	0	3	0	3	0	6	1	2	2	6	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:42797264A>G	uc003osn.1	+	6	1344	c.1193A>G	c.(1192-1194)CAA>CGA	p.Q398R	KIAA0240_uc003osm.1_Missense_Mutation_p.Q398R|KIAA0240_uc011duw.1_Missense_Mutation_p.Q398R|KIAA0240_uc003oso.1_Missense_Mutation_p.Q398R|KIAA0240_uc003osp.1_Missense_Mutation_p.Q398R	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	398										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			CACGCACCCCAAAGTCAGTTC	0.498													36	606					0	0	0.00623	0	0		G	42797264	G	G	42797264	3	3	19	1	0	0	0	0	1	0	0	0	8180	130	5	3	1207	3	KIAA0240	6	42797264	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1487700	42797264	128317803	1071	14584											
KIAA0240	23506	broad.mit.edu	37	chr6	42797872	42797872	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccagcaccttcagtaacAcacctggaacaggaacccag	14	5	7	15	0	1	0	1	0	0	0	1	2	1	2	4	2	5	2	4	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:42797872A>G	uc003osn.1	+	6	1952	c.1801A>G	c.(1801-1803)ACA>GCA	p.T601A	KIAA0240_uc003osm.1_Missense_Mutation_p.T601A|KIAA0240_uc011duw.1_Missense_Mutation_p.T601A|KIAA0240_uc003oso.1_Missense_Mutation_p.T601A|KIAA0240_uc003osp.1_Missense_Mutation_p.T601A	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	601										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			CTTCAGTAACACACCTGGAAC	0.443													13	132					0	0	0.00245	0	0		G	42797872	G	G	42797872	3	3	19	1	0	0	0	0	1	0	0	0	8180	159	6	3	1815	3	KIAA0240	6	42797872	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	608	42797872	128317195	1072	14585											
KLHDC3	116138	broad.mit.edu	37	chr6	42986446	42986446	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacttccatgacctctggaAgtttaatcctggtaaagagc	11	11	9	10	0	1	2	0	1	1	1	3	3	3	3	3	2	1	3	3	2	4	4	rs145827595		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:42986446A>C	uc003otl.2	+	7	978	c.809A>C	c.(808-810)AAG>ACG	p.K270T	C6orf153_uc003otp.1_5'Flank|KLHDC3_uc003otm.2_RNA|KLHDC3_uc010jyf.2_Missense_Mutation_p.K246T|KLHDC3_uc003otn.2_Missense_Mutation_p.K154T|KLHDC3_uc003oto.2_Missense_Mutation_p.K211T	NM_057161	NP_476502	Q9BQ90	KLDC3_HUMAN	kelch domain containing 3	270	Kelch 5.				reciprocal meiotic recombination	cytoplasm|nuclear chromatin	chromatin binding|protein binding			upper_aerodigestive_tract(1)	1			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GACCTCTGGAAGTTTAATCCT	0.498													16	329					0	0	0.004007	0	0		C	42986446	C	C	42986446	3	2	19	1	0	0	0	0	1	0	0	0	8373	72	3	5	831	5	KLHDC3	6	42986446	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	188574	42986446	128128621	1073	14586											
CUL9	23113	broad.mit.edu	37	chr6	43155501	43155501	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgtccgtggaaatggcCgagagtctgctgcaggttct	6	12	14	9	2	3	1	0	0	3	1	4	3	4	2	2	3	2	3	2	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:43155501C>T	uc003ouk.2	+	7	1707	c.1632C>T	c.(1630-1632)GCC>GCT	p.A544A	CUL9_uc003ouj.1_Silent_p.A434A|CUL9_uc003oul.2_Silent_p.A544A|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_Silent_p.A2A	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	544					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TGGAAATGGCCGAGAGTCTGC	0.507													52	103					0	0	0.01441	0	0		T	43155501	T	T	43155501	2	4	19	1	0	0	0	0	0	0	0	1	4064	639	23	1		1	CUL9	6	43155501	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	169055	43155501	127959566	1074	14587											
ZNF318	24149	broad.mit.edu	37	chr6	43305768	43305768	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgctttctattgtcactgTtaactctggatggacatctt	7	18	7	9	0	4	0	1	0	3	0	4	2	4	2	0	2	2	2	0	2	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:43305768T>C	uc003oux.2	-	10	6046	c.5968A>G	c.(5968-5970)ACA>GCA	p.T1990A	ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	1990					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			ATTGTCACTGTTAACTCTGGA	0.483													12	178					0	0	0.013537	0	0		C	43305768	C	C	43305768	3	2	19	1	0	0	0	0	1	0	0	0	17861	1725	60	3	875	3	ZNF318	6	43305768	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	150267	43305768	127809299	1075	14588											
ZNF318	24149	broad.mit.edu	37	chr6	43305890	43305890	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcatagatctttttaactTgaaagtcttttgatctttct	10	20	4	7	0	5	3	1	2	4	1	5	3	5	3	0	0	1	0	0	0	3	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:43305890T>C	uc003oux.2	-	10	5924	c.5846A>G	c.(5845-5847)CAA>CGA	p.Q1949R	ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	1949					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			CTTTTTAACTTGAAAGTCTTT	0.433													9	140					0	0	0.008291	0	0		C	43305890	C	C	43305890	3	2	19	1	0	0	0	0	1	0	0	0	17861	1812	63	3	997	3	ZNF318	6	43305890	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	122	43305890	127809177	1076	14589											
CDC5L	988	broad.mit.edu	37	chr6	44413480	44413480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgggggttaccagtctcGtgctatggggctcatgaaac	7	11	14	9	1	2	1	1	1	1	0	3	1	2	1	1	4	3	4	1	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:44413480G>A	uc003oxl.2	+	15	2439	c.2180G>A	c.(2179-2181)CGT>CAT	p.R727H		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	727	Interaction with PLRG1.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TACCAGTCTCGTGCTATGGGG	0.448													5	137					0	0	0.000602	0	0		A	44413480	A	A	44413480	3	1	19	1	0	0	0	0	1	0	0	0	3085	1145	40	1	2238	1	CDC5L	6	44413480	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1107590	44413480	126701587	1077	14590											
MEP1A	4224	broad.mit.edu	37	chr6	46800870	46800870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaaagaggaacagaagtttCgctaccttttccagggcaca	13	9	9	10	1	1	2	1	0	0	2	3	3	2	3	2	2	2	3	2	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:46800870C>T	uc010jzh.1	+	11	1246	c.1204C>T	c.(1204-1206)CGC>TGC	p.R402C	MEP1A_uc011dwg.1_Missense_Mutation_p.R124C|MEP1A_uc011dwh.1_Missense_Mutation_p.R430C|MEP1A_uc011dwi.1_Missense_Mutation_p.R302C	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	402	Extracellular (Potential).|MAM.				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			ACAGAAGTTTCGCTACCTTTT	0.483													9	147					0	0	0.004482	0	0		T	46800870	T	T	46800870	3	4	19	1	0	0	0	0	1	0	0	0	9493	884	31	1	1246	1	MEP1A	6	46800870	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2387390	46800870	124314197	1078	14591											
GPR116	221395	broad.mit.edu	37	chr6	46836655	46836655	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgaggtcttgactgtcagtActgattctgctccatcaaga	9	13	9	10	1	4	3	2	2	2	1	6	4	5	3	1	1	2	2	1	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:46836655A>G	uc003oyo.3	-	12	1875	c.1586T>C	c.(1585-1587)GTA>GCA	p.V529A	GPR116_uc011dwj.1_Missense_Mutation_p.V84A|GPR116_uc011dwk.1_5'UTR|GPR116_uc003oyp.3_Missense_Mutation_p.V387A|GPR116_uc003oyq.3_Missense_Mutation_p.V529A|GPR116_uc010jzi.1_Missense_Mutation_p.V201A	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	529	Ig-like 3.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			GACTGTCAGTACTGATTCTGC	0.428													5	133					0	0	0.000602	0	0		G	46836655	G	G	46836655	3	3	19	1	0	0	0	0	1	0	0	0	6648	391	14	3	2494	3	GPR116	6	46836655	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	35785	46836655	124278412	1079	14592											
GPR115	221393	broad.mit.edu	37	chr6	47682443	47682443	+	Frame_Shift_Del	DEL	T	-	-																															actttttctacctctctctgTttttctggatgctcttcaaa																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:47682443delT	uc003oza.1	+	6	1720	c.1462delT	c.(1462-1464)TTTfs	p.F488fs	GPR115_uc003oyz.1_Frame_Shift_Del_p.F545fs|GPR115_uc003ozb.1_Frame_Shift_Del_p.F486fs	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	488	Helical; Name=3; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						CCTCTCTCTGTTTTTCTGGAT	0.408													177	368	---	---	---	---						.	-	47682443	-	-	47682443	7	5	19	1	0	1	0	1	0	0	0	0	6647	1725	60	0	1480	0	GPR115	6	47682443	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	845788	47682443	123432624	1080	14593											
LRRC1	55227	broad.mit.edu	37	chr6	53785559	53785559	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgaagaagacaatgagacGgtatggaaatgcagattctt	16	9	12	4	1	1	5	0	2	1	4	1	8	1	6	0	2	1	2	0	2	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:53785559G>T	uc003pcd.1	+	13	1693	c.1416G>T	c.(1414-1416)ACG>ACT	p.T472T		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	472						cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		ACAATGAGACGGTATGGAAAT	0.388													25	51					1.66031e-10	1.73764e-10	0.003954	1	0		T	53785559	T	T	53785559	2	4	19	1	0	0	0	0	0	0	0	1	8984	1130	39	5		5	LRRC1	6	53785559	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	6103116	53785559	117329508	1081	14594											
HCRTR2	3062	broad.mit.edu	37	chr6	55147129	55147129	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgaactagcacagagagccgGaagtccttgaccactcaaat	14	6	9	12	2	1	2	1	1	0	1	2	5	2	3	3	1	3	1	3	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:55147129G>A	uc003pcl.2	+	7	1527	c.1212G>A	c.(1210-1212)CGG>CGA	p.R404R	HCRTR2_uc010jzv.2_RNA	NM_001526	NP_001517	O43614	OX2R_HUMAN	orexin receptor 2	404	Cytoplasmic (Potential).				feeding behavior	integral to plasma membrane	neuropeptide receptor activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|breast(1)	6	Lung NSC(77;0.107)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			CAGAGAGCCGGAAGTCCTTGA	0.488													23	43					0	0	0.012319	0	0		A	55147129	A	A	55147129	2	1	19	1	0	0	0	0	0	0	0	1	7018	1161	41	4		4	HCRTR2	6	55147129	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1361570	55147129	115967938	1082	14595											
GFRAL	389400	broad.mit.edu	37	chr6	55214923	55214923	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggataaattcaaatggaatcTaactacacgttcccatcatg	15	11	6	9	1	3	0	2	0	1	0	4	2	4	2	1	2	2	1	1	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:55214923T>C	uc003pcm.1	+	4	436	c.350T>C	c.(349-351)CTA>CCA	p.L117P		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	117	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			AAATGGAATCTAACTACACGT	0.303													9	17					0	0	0.008291	0	0		C	55214923	C	C	55214923	3	2	19	1	0	0	0	0	1	0	0	0	6366	1522	53	3	364	3	GFRAL	6	55214923	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	67794	55214923	115900144	1083	14596											
BAG2	9532	broad.mit.edu	37	chr6	57048631	57048631	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgggaagaactctcacCgttgaagtgtcagtagaaac	13	10	11	7	1	2	4	2	2	1	2	3	5	2	5	1	1	2	2	1	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:57048631C>T	uc003pdr.2	+	3	671	c.279C>T	c.(277-279)ACC>ACT	p.T93T	BAG2_uc011dxo.1_Silent_p.T60T	NM_004282	NP_004273	O95816	BAG2_HUMAN	BCL2-associated athanogene 2	93					apoptosis|protein folding		protein binding				0	Lung NSC(77;0.126)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			GAACTCTCACCGTTGAAGTGT	0.378													50	97					0	0	0.01441	0	0		T	57048631	T	T	57048631	2	4	19	1	0	0	0	0	0	0	0	1	1288	639	23	1		1	BAG2	6	57048631	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1833708	57048631	114066436	1084	14597											
OGFRL1	79627	broad.mit.edu	37	chr6	72011356	72011356	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctcgaaaagaacagtcGgagggaagcaaagcccagaa	16	2	12	11	3	0	2	0	0	0	2	2	5	0	4	3	2	3	1	3	2	6	0	rs143683047		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:72011356G>A	uc003pfx.1	+	7	1123	c.960G>A	c.(958-960)TCG>TCA	p.S320S		NM_024576	NP_078852	Q5TC84	OGRL1_HUMAN	opioid growth factor receptor-like 1	320						membrane	receptor activity				0						AAGAACAGTCGGAGGGAAGCA	0.483													34	56					0	0	0.013726	0	0		A	72011356	A	A	72011356	2	1	19	1	0	0	0	0	0	0	0	1	10863	1103	39	1		1	OGFRL1	6	72011356	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	14962725	72011356	99103711	1085	14598											
C6orf221	154288	broad.mit.edu	37	chr6	74072843	74072843	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggagaacgcatcccgcaCgtccagggtatgtcccaaat	10	6	12	13	4	0	1	0	0	0	1	3	2	3	1	3	3	1	3	3	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:74072843C>T	uc003pgt.3	+	2	248	c.195C>T	c.(193-195)CAC>CAT	p.H65H		NM_001017361	NP_001017361	Q587J8	ECAT1_HUMAN	hypothetical protein LOC154288	65	KH; atypical.									skin(2)	2						GCATCCCGCACGTCCAGGGTA	0.612													28	67					0	0	0.008361	0	0		T	74072843	T	T	74072843	2	4	19	1	0	0	0	0	0	0	0	1	2358	535	19	1		1	C6orf221	6	74072843	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2061487	74072843	97042224	1086	14599											
C6orf150	115004	broad.mit.edu	37	chr6	74138431	74138431	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttaacaaaataaggctgttaCctgcaacatttctcttcttt	12	16	4	9	0	2	0	0	0	2	0	3	0	2	0	1	1	4	3	1	1	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:74138431C>A	uc003pgx.1	-	4	1356	c.1217_splice	c.e4+1	p.R406_splice		NM_138441	NP_612450	Q8N884	M21D1_HUMAN	hypothetical protein LOC115004												0						AAGGCTGTTACCTGCAACATT	0.318													14	45					1.5739e-10	1.64863e-10	0.004007	1	0		A	74138431	A	A	74138431	5	1	19	1	0	0	0	0	0	0	1	0	2340	521	18	5	358	5	C6orf150	6	74138431	Splice_Site	SNP	C	TCGA-BR-4361-01A-01D-1158-08	65588	74138431	96976636	1087	14600											
MTO1	25821	broad.mit.edu	37	chr6	74171709	74171709	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtgatagtcattggtggAggacatgccgggactgaggc	9	8	17	7	2	1	2	1	2	0	0	1	6	1	5	1	5	1	0	1	5	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:74171709A>G	uc003pgy.3	+	1	256	c.132A>G	c.(130-132)GGA>GGG	p.G44G	MTO1_uc010kav.2_Silent_p.G44G|MTO1_uc003pgz.3_Silent_p.G44G|MTO1_uc003pha.3_5'UTR|MTO1_uc003phb.3_Intron|MTO1_uc003phc.1_5'Flank	NM_133645	NP_598400	Q9Y2Z2	MTO1_HUMAN	mitochondrial translation optimization 1 homolog	44	FAD (By similarity).				tRNA processing	mitochondrion	flavin adenine dinucleotide binding			ovary(3)|skin(2)|pancreas(1)	6						TCATTGGTGGAGGACATGCCG	0.652													14	68					0	0	0.003163	0	0		G	74171709	G	G	74171709	2	3	19	1	0	0	0	0	0	0	0	1	9971	291	11	3		3	MTO1	6	74171709	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	33278	74171709	96943358	1088	14601											
CD109	135228	broad.mit.edu	37	chr6	74517820	74517820	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaagcctaacattgatgtGcaagagtctatccatttttt	11	15	6	9	0	1	2	0	1	1	1	3	2	3	2	3	0	3	1	3	0	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:74517820G>A	uc003php.2	+	26	3629	c.3204G>A	c.(3202-3204)GTG>GTA	p.V1068V	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Silent_p.V1068V|CD109_uc010kba.2_Silent_p.V991V	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	1068						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						ACATTGATGTGCAAGAGTCTA	0.343													11	33					0	0	0.013537	0	0		A	74517820	A	A	74517820	2	1	19	1	0	0	0	0	0	0	0	1	2966	1306	46	2		2	CD109	6	74517820	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	346111	74517820	96597247	1089	14602											
COL12A1	1303	broad.mit.edu	37	chr6	75798835	75798835	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctacctggggggccaggCagcccccgaggtcctgaaga	9	4	14	14	1	0	2	0	1	0	1	1	3	1	2	6	5	3	1	6	5	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:75798835C>A	uc003phs.2	-	64	9163	c.8997G>T	c.(8995-8997)CTG>CTT	p.L2999L	COL12A1_uc003pht.2_Silent_p.L1835L	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2999	Triple-helical region (COL1) with 2 imperfections.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GGGGGCCAGGCAGCCCCCGAG	0.488													9	48					1.58986e-06	1.64173e-06	0.008291	1	0		A	75798835	A	A	75798835	2	1	19	1	0	0	0	0	0	0	0	1	3672	697	25	5		5	COL12A1	6	75798835	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1281015	75798835	95316232	1090	14603											
COL12A1	1303	broad.mit.edu	37	chr6	75857443	75857443	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattcatcttctaccacagaAtacacattgacaacatattc	15	13	2	11	0	3	2	1	1	2	1	4	2	3	2	1	0	3	0	1	0	6	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:75857443A>G	uc003phs.2	-	23	4531	c.4365T>C	c.(4363-4365)TAT>TAC	p.Y1455Y	COL12A1_uc003pht.2_Silent_p.Y291Y	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1455	Fibronectin type-III 9.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CTACCACAGAATACACATTGA	0.363													59	109					0	0	0.01441	0	0		G	75857443	G	G	75857443	2	3	19	1	0	0	0	0	0	0	0	1	3672	108	4	3		3	COL12A1	6	75857443	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	58608	75857443	95257624	1091	14604											
COL12A1	1303	broad.mit.edu	37	chr6	75875374	75875374	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctccagtgtcaacatcAtcataaagtgatttccatga	12	14	5	10	0	4	2	3	2	1	0	7	2	6	2	2	0	1	0	2	0	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:75875374A>G	uc003phs.2	-	14	2998	c.2832T>C	c.(2830-2832)GAT>GAC	p.D944D	COL12A1_uc003pht.2_Intron	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	944	Fibronectin type-III 6.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TGTCAACATCATCATAAAGTG	0.408													6	187					0	0	0.001168	0	0		G	75875374	G	G	75875374	2	3	19	1	0	0	0	0	0	0	0	1	3672	214	8	3		3	COL12A1	6	75875374	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	17931	75875374	95239693	1092	14605											
PHIP	55023	broad.mit.edu	37	chr6	79726343	79726343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatacgtgctgtcccatcacGactgccacttacaaacctgt	11	10	6	14	2	1	0	1	0	0	0	2	1	2	0	3	0	5	1	3	0	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:79726343G>A	uc003pir.2	-	13	1379	c.1153C>T	c.(1153-1155)CGT>TGT	p.R385C	PHIP_uc011dyp.1_Missense_Mutation_p.R385C	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	385	WD 5.				insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		GTCCCATCACGACTGCCACTT	0.403													35	90					0	0	0.013114	0	0		A	79726343	A	A	79726343	3	1	19	1	0	0	0	0	1	0	0	0	11861	1058	37	1	4424	1	PHIP	6	79726343	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3850969	79726343	91388724	1093	14606											
SH3BGRL2	83699	broad.mit.edu	37	chr6	80406276	80406276	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgaaaccacggttggcAtcaaaggtaggtaaatcttt	12	10	11	8	1	2	1	1	1	1	0	2	1	2	1	2	5	1	4	2	5	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:80406276A>G	uc003piz.1	+	3	485	c.306A>G	c.(304-306)GCA>GCG	p.A102A		NM_031469	NP_113657	Q9UJC5	SH3L2_HUMAN	SH3 domain binding glutamic acid-rich protein	102						nucleus	SH3 domain binding				0		all_cancers(76;0.00188)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.174)		BRCA - Breast invasive adenocarcinoma(397;0.0278)		CACGGTTGGCATCAAAGGTAG	0.333													38	87					0	0	0.005524	0	0		G	80406276	G	G	80406276	2	3	19	1	0	0	0	0	0	0	0	1	14267	204	8	3		3	SH3BGRL2	6	80406276	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	679933	80406276	90708791	1094	14607											
TTK	7272	broad.mit.edu	37	chr6	80751910	80751910	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttttgaaaaaaaaaggggAaaaaaatgatttgcagttat	20	11	8	2	0	0	2	0	2	0	0	0	3	0	3	0	2	1	2	0	2	8	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:80751910A>G	uc003pjc.2	+	22	2639	c.2565A>G	c.(2563-2565)GGA>GGG	p.G855G	TTK_uc003pjb.3_Silent_p.G854G	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	855					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		AAAAAAGGGGAAAAAAATGAT	0.308													3	33					0	0	0.004672	0	0		G	80751910	G	G	80751910	2	3	19	1	0	0	0	0	0	0	0	1	16746	233	9	3		3	TTK	6	80751910	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	345634	80751910	90363157	1095	14608											
TPBG	7162	broad.mit.edu	37	chr6	83075864	83075864	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatgcctgcagggatcacAtggaagggtatcattacaga	13	8	13	7	0	2	2	2	0	0	2	2	5	2	4	1	3	3	2	1	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:83075864A>G	uc003pjn.3	+	3	2122	c.1186A>G	c.(1186-1188)ATG>GTG	p.M396V	TPBG_uc010kbj.2_Missense_Mutation_p.M396V|TPBG_uc003pjo.2_Missense_Mutation_p.M396V	NM_006670	NP_006661	Q13641	TPBG_HUMAN	trophoblast glycoprotein precursor	396	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(1)	1		all_cancers(76;0.000805)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0897)		BRCA - Breast invasive adenocarcinoma(397;0.107)		CAGGGATCACATGGAAGGGTA	0.433													55	83					0	0	0.01441	0	0		G	83075864	G	G	83075864	3	3	19	1	0	0	0	0	1	0	0	0	16420	217	8	3	1188	3	TPBG	6	83075864	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2323954	83075864	88039203	1096	14609											
DOPEY1	23033	broad.mit.edu	37	chr6	83838791	83838791	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccaattggtagcacatcCtctgagacagaaacagcatc	14	8	7	12	0	1	2	0	1	1	2	4	3	3	2	2	1	3	3	2	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:83838791C>A	uc003pjs.1	+	16	2165	c.1905C>A	c.(1903-1905)TCC>TCA	p.S635S	DOPEY1_uc011dyy.1_Silent_p.S626S|DOPEY1_uc010kbl.1_Silent_p.S626S	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	635					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		GTAGCACATCCTCTGAGACAG	0.502													9	112					0.000673444	0.000687612	0.008291	1	0		A	83838791	A	A	83838791	2	1	19	1	0	0	0	0	0	0	0	1	4713	668	24	5		5	DOPEY1	6	83838791	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	762927	83838791	87276276	1097	14610											
PGM3	5238	broad.mit.edu	37	chr6	83891632	83891632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaccttaagtgatctgtattCatctccactgcaagaagcct	12	12	6	11	0	3	2	1	1	2	1	4	2	3	2	3	0	3	2	3	0	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:83891632C>T	uc003pjv.2	-	6	650	c.610G>A	c.(610-612)GAA>AAA	p.E204K	PGM3_uc003pjw.2_Missense_Mutation_p.E123K|PGM3_uc011dyz.1_Missense_Mutation_p.E232K	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	204					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		GATCTGTATTCATCTCCACTG	0.383													21	55					0	0	0.00333	0	0		T	83891632	T	T	83891632	3	4	19	1	0	0	0	0	1	0	0	0	11819	835	29	4	1050	4	PGM3	6	83891632	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	52841	83891632	87223435	1098	14611											
RWDD2A	112611	broad.mit.edu	37	chr6	83905673	83905673	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttagatgtgactggattttgCatgacaggaaagcctggtat	11	13	12	5	0	0	3	0	2	0	1	0	5	0	5	1	3	2	2	1	3	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:83905673C>T	uc003pjx.3	+	3	832	c.561C>T	c.(559-561)TGC>TGT	p.C187C	PGM3_uc003pjv.2_5'Flank|PGM3_uc003pjw.2_5'Flank|PGM3_uc011dyz.1_5'Flank|RWDD2A_uc011dza.1_Silent_p.C112C	NM_033411	NP_219479	Q9UIY3	RWD2A_HUMAN	RWD domain containing 2A	187											0		all_cancers(76;2.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00217)		BRCA - Breast invasive adenocarcinoma(397;0.045)		CTGGATTTTGCATGACAGGAA	0.433													9	139					0	0	0.006214	0	0		T	83905673	T	T	83905673	2	4	19	1	0	0	0	0	0	0	0	1	13780	718	25	2		2	RWDD2A	6	83905673	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	14041	83905673	87209394	1099	14612											
ME1	4199	broad.mit.edu	37	chr6	83926226	83926226	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggttttaccttttctgcAattttcagagaaacatctct	10	17	6	8	0	3	1	1	0	2	1	4	2	3	1	1	1	3	2	1	1	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:83926226A>G	uc003pjy.2	-	13	1645	c.1539T>C	c.(1537-1539)ATT>ATC	p.I513I	ME1_uc011dzb.1_Silent_p.I438I|ME1_uc011dzc.1_Silent_p.I347I	NM_002395	NP_002386	P48163	MAOX_HUMAN	cytosolic malic enzyme 1	513					carbohydrate metabolic process|cellular lipid metabolic process|malate metabolic process|NADP biosynthetic process|response to carbohydrate stimulus|response to hormone stimulus	cytosol	ADP binding|electron carrier activity|malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|manganese ion binding|NAD binding|NADP binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;1.28e-06)|Acute lymphoblastic leukemia(125;5.03e-07)|all_hematologic(105;0.000238)|all_epithelial(107;0.00218)		BRCA - Breast invasive adenocarcinoma(397;0.0641)	NADH(DB00157)	CCTTTTCTGCAATTTTCAGAG	0.328													9	148					0	0	0.008291	0	0		G	83926226	G	G	83926226	2	3	19	1	0	0	0	0	0	0	0	1	9435	126	5	3		3	ME1	6	83926226	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	20553	83926226	87188841	1100	14613											
GABRR1	2569	broad.mit.edu	37	chr6	89888623	89888623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctctgacttttcctctgtgGggagctcctctctgaggcca	4	14	10	13	0	3	2	0	2	3	0	7	3	5	3	3	3	1	1	3	3	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:89888623G>A	uc003pna.2	-	10	1761	c.1306C>T	c.(1306-1308)CCA>TCA	p.P436S	GABRR1_uc011dzv.1_Missense_Mutation_p.P413S	NM_002042	NP_002033	P24046	GBRR1_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 1	436	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			pancreas(1)	1		all_cancers(76;9.49e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.46e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00917)	Picrotoxin(DB00466)	TTCCTCTGTGGGGAGCTCCTC	0.507													53	150					0	0	0.01441	0	0		A	89888623	A	A	89888623	3	1	19	1	0	0	0	0	1	0	0	0	6190	1232	43	4	137	4	GABRR1	6	89888623	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	5962397	89888623	81226444	1101	14614											
GABRR2	2570	broad.mit.edu	37	chr6	90024914	90024914	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctgtgaggcaaaaagctgCtttccagtagcctgtggcag	10	10	12	9	0	1	1	0	1	1	0	2	1	2	1	2	2	3	5	2	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:90024914C>A	uc003pnb.2	-	1	54	c.46G>T	c.(46-48)GCA>TCA	p.A16S		NM_002043	NP_002034	P28476	GBRR2_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 2	16					synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0		all_cancers(76;1.67e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.77e-07)|all_epithelial(107;2.51e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0158)		CAAAAAGCTGCTTTCCAGTAG	0.502													105	213					7.82945e-61	8.4367e-61	0.01441	1	0		A	90024914	A	A	90024914	3	1	19	1	0	0	0	0	1	0	0	0	6191	797	28	5	1462	5	GABRR2	6	90024914	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	136291	90024914	81090153	1102	14615											
MDN1	23195	broad.mit.edu	37	chr6	90409955	90409955	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttctccagaaaaccaagTgagagtcctttggctttcag	10	14	8	9	0	2	2	1	1	1	2	4	3	3	2	3	1	1	1	3	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:90409955T>C	uc003pnn.1	-	57	8813	c.8697A>G	c.(8695-8697)TCA>TCG	p.S2899S		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2899					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GAAAACCAAGTGAGAGTCCTT	0.413													6	101					0	0	0.001168	0	0		C	90409955	C	C	90409955	2	2	19	1	0	0	0	0	0	0	0	1	9433	1683	59	3		3	MDN1	6	90409955	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	385041	90409955	80705112	1103	14616											
MDN1	23195	broad.mit.edu	37	chr6	90428119	90428119	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttgattttattgttgagTcgctgcataagcaataacac	12	14	9	6	1	0	2	0	2	0	0	1	3	0	2	0	0	3	5	0	0	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:90428119T>C	uc003pnn.1	-	43	6665	c.6549A>G	c.(6547-6549)CGA>CGG	p.R2183R		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2183					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TATTGTTGAGTCGCTGCATAA	0.378													12	90					0	0	0.013537	0	0		C	90428119	C	C	90428119	2	2	19	1	0	0	0	0	0	0	0	1	9433	1654	58	3		3	MDN1	6	90428119	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	18164	90428119	80686948	1104	14617											
MDN1	23195	broad.mit.edu	37	chr6	90504397	90504397	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcagaaacttgaaggcTgcttccattaggtcccggag	9	10	12	10	1	0	2	0	1	0	1	2	3	2	3	2	3	4	4	2	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:90504397T>C	uc003pnn.1	-	3	569	c.453A>G	c.(451-453)GCA>GCG	p.A151A	MDN1_uc003pnp.1_Silent_p.A151A	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	151					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		ACTTGAAGGCTGCTTCCATTA	0.522													23	66					0	0	0.00278	0	0		C	90504397	C	C	90504397	2	2	19	1	0	0	0	0	0	0	0	1	9433	1567	55	3		3	MDN1	6	90504397	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	76278	90504397	80610670	1105	14618											
BACH2	60468	broad.mit.edu	37	chr6	90660168	90660168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtggcaaggaatctggctcCctgggaacagggcgaggagg	9	6	18	8	1	1	0	0	0	1	0	2	4	2	3	1	7	1	2	1	7	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:90660168C>T	uc011eab.1	-	7	2466	c.1657G>A	c.(1657-1659)GGA>AGA	p.G553R	BACH2_uc003pnw.2_Missense_Mutation_p.G553R|BACH2_uc010kch.2_Missense_Mutation_p.G553R	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	553						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		AATCTGGCTCCCTGGGAACAG	0.572													33	86					0	0	0.005524	0	0		T	90660168	T	T	90660168	3	4	19	1	0	0	0	0	1	0	0	0	1285	632	22	4	880	4	BACH2	6	90660168	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	155771	90660168	80454899	1106	14619											
MAP3K7	6885	broad.mit.edu	37	chr6	91263240	91263240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcaaagggtttccgacGcgttatcacttcccaaagaa	12	10	7	12	3	3	1	3	0	0	1	5	2	5	1	2	1	0	2	2	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:91263240G>A	uc003pnz.1	-	7	835	c.673C>T	c.(673-675)CGT>TGT	p.R225C	MAP3K7_uc003poa.1_Missense_Mutation_p.R225C|MAP3K7_uc003pob.1_Missense_Mutation_p.R225C|MAP3K7_uc003poc.1_Missense_Mutation_p.R225C	NM_145331	NP_663304	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	225	Protein kinase.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		GGTTTCCGACGCGTTATCACT	0.368													46	114					0	0	0.01441	0	0		A	91263240	A	A	91263240	3	1	19	1	0	0	0	0	1	0	0	0	9273	1087	38	1	1191	1	MAP3K7	6	91263240	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	603072	91263240	79851827	1107	14620											
MAP3K7	6885	broad.mit.edu	37	chr6	91269917	91269917	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagtataatatggcaatggTtcagcaccatgcagcactgc	12	9	10	10	0	1	0	1	0	0	0	1	0	1	0	1	2	4	7	1	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:91269917T>C	uc003pnz.1	-	5	522	c.360A>G	c.(358-360)GAA>GAG	p.E120E	MAP3K7_uc003poa.1_Silent_p.E120E|MAP3K7_uc003pob.1_Silent_p.E120E|MAP3K7_uc003poc.1_Silent_p.E120E	NM_145331	NP_663304	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	120	Protein kinase.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		ATGGCAATGGTTCAGCACCAT	0.423													29	48					0	0	0.012213	0	0		C	91269917	C	C	91269917	2	2	19	1	0	0	0	0	0	0	0	1	9273	1722	60	3		3	MAP3K7	6	91269917	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	6677	91269917	79845150	1108	14621											
KIAA0776	23376	broad.mit.edu	37	chr6	96976501	96976501	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccgtggactattcagtgctAttacccggtaagtatatttt	9	16	8	8	2	1	0	1	0	0	0	2	1	2	1	2	2	2	3	2	2	6	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:96976501A>G	uc003por.2	+	6	637	c.589A>G	c.(589-591)ATT>GTT	p.I197V	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	197	Required for E3 UFM1-protein ligase activity.|Involved in CDK5RAP3-binding.				negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		ATTCAGTGCTATTACCCGGTA	0.249													3	66					0	0	0.009096	0	0		G	96976501	G	G	96976501	3	3	19	1	0	0	0	0	1	0	0	0	8209	449	16	3	611	3	KIAA0776	6	96976501	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5706584	96976501	74138566	1109	14622											
USP45	85015	broad.mit.edu	37	chr6	99894017	99894017	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgtcagtctccttggtgTacagcagtttacctgctgac	7	13	9	12	0	2	1	1	1	1	0	3	1	2	1	2	1	4	4	2	1	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:99894017T>C	uc003ppx.2	-	14	2164	c.1631A>G	c.(1630-1632)TAC>TGC	p.Y544C	USP45_uc003ppv.2_Intron|USP45_uc003ppw.2_Missense_Mutation_p.Y224C	NM_001080481	NP_001073950	Q70EL2	UBP45_HUMAN	ubiquitin specific peptidase 45	544					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|breast(1)	2		all_cancers(76;0.000208)|Acute lymphoblastic leukemia(125;8.41e-11)|all_hematologic(75;2.56e-07)|all_epithelial(107;0.122)|Colorectal(196;0.133)		BRCA - Breast invasive adenocarcinoma(108;0.0718)		CTCCTTGGTGTACAGCAGTTT	0.478													24	74					0	0	0.00278	0	0		C	99894017	C	C	99894017	3	2	19	1	0	0	0	0	1	0	0	0	17102	1638	57	3	833	3	USP45	6	99894017	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2917516	99894017	71221050	1110	14623											
SIM1	6492	broad.mit.edu	37	chr6	100838549	100838549	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggattttgaaatgcgatcCgaattgggactacttatccg	10	13	10	8	3	0	1	0	1	0	0	2	5	2	3	2	2	2	0	2	2	4	5	rs151274826		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:100838549C>T	uc003pqj.3	-	11	2196	c.1989G>A	c.(1987-1989)TCG>TCA	p.S663S	SIM1_uc010kcu.2_Silent_p.S663S	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	663	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		AAATGCGATCCGAATTGGGAC	0.458													91	169					0	0	0.01441	0	0		T	100838549	T	T	100838549	2	4	19	1	0	0	0	0	0	0	0	1	14348	639	23	1		1	SIM1	6	100838549	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	944532	100838549	70276518	1111	14624											
ASCC3	10973	broad.mit.edu	37	chr6	101110345	101110345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttctgtcctgccgaagcattCctgcatgatgaatactaaaa	12	12	7	10	1	1	2	0	2	1	0	3	3	3	2	3	0	4	2	3	0	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:101110345C>T	uc003pqk.2	-	15	2683	c.2354G>A	c.(2353-2355)GGA>GAA	p.G785E	ASCC3_uc011eai.1_Missense_Mutation_p.G687E	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	785	Helicase C-terminal 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CCGAAGCATTCCTGCATGATG	0.383													4	80					0	0	0.009096	0	0		T	101110345	T	T	101110345	3	4	19	1	0	0	0	0	1	0	0	0	1034	855	30	4	4366	4	ASCC3	6	101110345	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	271796	101110345	70004722	1112	14625											
PREP	5550	broad.mit.edu	37	chr6	105781355	105781355	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattccccttcaaagttgtcAatcagttttacccacttcag	10	15	4	12	0	4	0	4	0	0	0	5	0	5	0	3	0	1	2	3	0	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:105781355A>G	uc003prc.2	-	8	1052	c.849T>C	c.(847-849)ATT>ATC	p.I283I		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	283					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)	CAAAGTTGTCAATCAGTTTTA	0.453													60	108					0	0	0.01441	0	0		G	105781355	G	G	105781355	2	3	19	1	0	0	0	0	0	0	0	1	12496	126	5	3		3	PREP	6	105781355	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4671010	105781355	65333712	1113	14626											
PRDM1	639	broad.mit.edu	37	chr6	106552829	106552829	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacccctccaaaggaaaggAcctctaccgttctaacattt	13	9	5	14	1	2	0	0	0	2	0	3	2	3	2	5	2	3	1	5	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:106552829A>G	uc003prd.2	+	5	1028	c.794A>G	c.(793-795)GAC>GGC	p.D265G	PRDM1_uc003pre.2_Missense_Mutation_p.D131G	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	265					negative regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(54)|ovary(1)|skin(1)	56	Breast(9;0.022)	all_cancers(87;2.2e-31)|all_epithelial(87;2.03e-21)|Acute lymphoblastic leukemia(125;4.99e-11)|all_lung(197;7.55e-09)|all_hematologic(75;5.82e-08)|Lung NSC(302;1.28e-06)|Colorectal(196;0.0112)|Ovarian(999;0.0365)		all cancers(137;1.83e-46)|Epithelial(106;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(136;1.99e-20)|GBM - Glioblastoma multiforme(226;3.72e-11)|BRCA - Breast invasive adenocarcinoma(108;1.38e-05)		AAAGGAAAGGACCTCTACCGT	0.478			D|N|Mis|F|S		DLBCL								154	335					0	0	0.01441	0	0		G	106552829	G	G	106552829	3	3	19	1	0	0	0	0	1	0	0	0	12472	275	10	3	825	3	PRDM1	6	106552829	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	771474	106552829	64562238	1114	14627											
RTN4IP1	84816	broad.mit.edu	37	chr6	107076676	107076676	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgtgaactttgacaatgActtcatttggatagtgtatg	11	14	10	6	1	1	3	1	3	0	0	1	4	1	4	0	1	2	1	0	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:107076676A>G	uc003prj.2	-	1	698	c.221T>C	c.(220-222)GTC>GCC	p.V74A	QRSL1_uc003prl.2_5'Flank|QRSL1_uc003prm.2_5'Flank|RTN4IP1_uc010kdd.2_Missense_Mutation_p.V74A|RTN4IP1_uc003prk.2_Intron	NM_032730	NP_116119	Q8WWV3	RT4I1_HUMAN	reticulon 4 interacting protein 1 precursor	74						mitochondrion	oxidoreductase activity|zinc ion binding				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;9.45e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.0144)	Epithelial(6;0.000873)|all cancers(7;0.00363)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0394)	all cancers(137;0.113)|BRCA - Breast invasive adenocarcinoma(108;0.127)|Epithelial(106;0.144)		TTTGACAATGACTTCATTTGG	0.353													11	142					0	0	0.003163	0	0		G	107076676	G	G	107076676	3	3	19	1	0	0	0	0	1	0	0	0	13754	275	10	3	1005	3	RTN4IP1	6	107076676	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	523847	107076676	64038391	1115	14628											
SCML4	256380	broad.mit.edu	37	chr6	108066254	108066254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcatcgcacaggaggcttCggcacagcttggcgaggaag	9	6	16	10	3	1	0	1	0	0	0	3	3	1	2	0	6	1	4	0	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:108066254C>T	uc010kdf.2	-	5	832	c.581G>A	c.(580-582)CGA>CAA	p.R194Q	SCML4_uc003prz.3_Missense_Mutation_p.R136Q|SCML4_uc011eam.1_Missense_Mutation_p.R194Q|SCML4_uc003psa.3_Missense_Mutation_p.R165Q	NM_198081	NP_932347	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4	194					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		all_cancers(87;3.26e-06)|Acute lymphoblastic leukemia(125;3.08e-08)|all_hematologic(75;1.15e-06)|all_epithelial(87;0.00142)|Colorectal(196;0.0316)		BRCA - Breast invasive adenocarcinoma(108;0.01)|Epithelial(106;0.0509)|all cancers(137;0.0586)|OV - Ovarian serous cystadenocarcinoma(136;0.0758)		CAGGAGGCTTCGGCACAGCTT	0.587													19	30					0	0	0.008871	0	0		T	108066254	T	T	108066254	3	4	19	1	0	0	0	0	1	0	0	0	13936	884	31	1	679	1	SCML4	6	108066254	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	989578	108066254	63048813	1116	14629											
SCML4	256380	broad.mit.edu	37	chr6	108070932	108070932	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggggaccgtggctgcgTcctgagggatggagctgagg	6	7	20	8	2	0	2	0	2	0	0	1	5	1	5	2	6	3	3	2	6	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:108070932T>C	uc010kdf.2	-	3	493	c.242A>G	c.(241-243)GAC>GGC	p.D81G	SCML4_uc003prz.3_Missense_Mutation_p.D23G|SCML4_uc011eam.1_Missense_Mutation_p.D81G|SCML4_uc003psa.3_Missense_Mutation_p.D52G	NM_198081	NP_932347	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4	81					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		all_cancers(87;3.26e-06)|Acute lymphoblastic leukemia(125;3.08e-08)|all_hematologic(75;1.15e-06)|all_epithelial(87;0.00142)|Colorectal(196;0.0316)		BRCA - Breast invasive adenocarcinoma(108;0.01)|Epithelial(106;0.0509)|all cancers(137;0.0586)|OV - Ovarian serous cystadenocarcinoma(136;0.0758)		CGTGGCTGCGTCCTGAGGGAT	0.607													6	133					0	0	0.001984	0	0		C	108070932	C	C	108070932	3	2	19	1	0	0	0	0	1	0	0	0	13936	1667	58	3	1026	3	SCML4	6	108070932	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4678	108070932	63044135	1117	14630											
SEC63	11231	broad.mit.edu	37	chr6	108243033	108243033	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgctatcctcatgaacatAacctcatcacctcctttatc	10	15	2	14	0	3	1	3	1	0	0	6	1	5	1	4	0	3	1	4	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:108243033A>G	uc003psc.3	-	4	689	c.420T>C	c.(418-420)GTT>GTC	p.V140V	SEC63_uc003psb.3_5'UTR	NM_007214	NP_009145	Q9UGP8	SEC63_HUMAN	SEC63-like protein	140	J.|Lumenal (Potential).				protein folding|protein targeting to membrane	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|receptor activity|unfolded protein binding			ovary(1)|skin(1)	2		all_cancers(87;5.35e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0294)		BRCA - Breast invasive adenocarcinoma(108;0.0079)|Epithelial(106;0.0356)|all cancers(137;0.0525)|OV - Ovarian serous cystadenocarcinoma(136;0.054)		TCATGAACATAACCTCATCAC	0.308													8	185					0	0	0.004482	0	0		G	108243033	G	G	108243033	2	3	19	1	0	0	0	0	0	0	0	1	14030	349	13	3		3	SEC63	6	108243033	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	172101	108243033	62872034	1118	14631											
PPIL6	285755	broad.mit.edu	37	chr6	109752425	109752425	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcataaagtgcagagggttTaatgtcaactatatcccaca	14	11	8	8	0	2	1	2	0	0	1	3	1	3	1	1	1	2	2	1	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:109752425T>C	uc003ptg.3	-	3	409	c.355A>G	c.(355-357)AAA>GAA	p.K119E	PPIL6_uc010kdo.2_Missense_Mutation_p.K87E|PPIL6_uc010kdp.2_Missense_Mutation_p.K119E	NM_173672	NP_775943	Q8IXY8	PPIL6_HUMAN	peptidylprolyl isomerase-like 6 isoform 1	119					protein folding		peptidyl-prolyl cis-trans isomerase activity				0		all_cancers(87;1.1e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000144)|all_lung(197;0.0221)|Colorectal(196;0.0488)|Lung SC(18;0.0548)		Epithelial(106;0.00684)|BRCA - Breast invasive adenocarcinoma(108;0.00889)|all cancers(137;0.0106)|OV - Ovarian serous cystadenocarcinoma(136;0.0259)		GCAGAGGGTTTAATGTCAACT	0.398													10	166					0	0	0.010729	0	0		C	109752425	C	C	109752425	3	2	19	1	0	0	0	0	1	0	0	0	12353	1763	61	3	686	3	PPIL6	6	109752425	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1509392	109752425	61362642	1119	14632											
FIG4	9896	broad.mit.edu	37	chr6	110146437	110146437	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagaggactcctccatgtAccgagagtacatcaggaacc	15	6	9	11	1	1	2	1	0	0	2	3	5	3	4	4	2	3	2	4	2	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:110146437A>G	uc003ptt.2	+	23	2908	c.2693A>G	c.(2692-2694)TAC>TGC	p.Y898C	FIG4_uc011eau.1_Missense_Mutation_p.Y592C	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	898					cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		TCCTCCATGTACCGAGAGTAC	0.507													19	72					0	0	0.00278	0	0		G	110146437	G	G	110146437	3	3	19	1	0	0	0	0	1	0	0	0	5902	391	14	3	2783	3	FIG4	6	110146437	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	394012	110146437	60968630	1120	14633											
CDK19	23097	broad.mit.edu	37	chr6	110935840	110935840	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagaggatccctgaacgctGctttggtaattcaggcgaga	10	10	13	8	2	1	3	1	2	0	2	2	6	2	4	1	3	2	3	1	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:110935840G>A	uc003puh.1	-	13	1480	c.1407C>T	c.(1405-1407)AGC>AGT	p.S469S	CDK19_uc003pui.1_Silent_p.S409S|CDK19_uc011eax.1_Silent_p.S345S	NM_015076	NP_055891	Q9BWU1	CDK19_HUMAN	cell division cycle 2-like 6 (CDK8-like)	469	Ser-rich.						ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						CCTGAACGCTGCTTTGGTAAT	0.517													11	79					0	0	0.010729	0	0		A	110935840	A	A	110935840	2	1	19	1	0	0	0	0	0	0	0	1	3138	1310	46	2		2	CDK19	6	110935840	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	789403	110935840	60179227	1121	14634											
RPF2	84154	broad.mit.edu	37	chr6	111320915	111320915	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatacattttccttccaggTcgtatgtatgactaccatgt	11	15	6	9	1	0	1	0	1	0	0	3	1	2	1	3	1	2	2	3	1	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:111320915T>C	uc003pun.2	+	6	337	c.318T>C	c.(316-318)GGT>GGC	p.G106G	RPF2_uc003puo.2_Silent_p.G43G	NM_032194	NP_115570	Q9H7B2	RPF2_HUMAN	brix domain containing 1	106	Brix.					nucleolus	protein binding	p.G106V(1)		ovary(2)	2						TCCTTCCAGGTCGTATGTATG	0.343													5	82					0	0	0.001168	0	0		C	111320915	C	C	111320915	2	2	19	1	0	0	0	0	0	0	0	1	13572	1681	58	3		3	RPF2	6	111320915	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	385075	111320915	59794152	1122	14635											
REV3L	5980	broad.mit.edu	37	chr6	111695404	111695404	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctttgtatattatttgcaTtatcttctatctttgaggac	8	22	5	6	0	4	1	0	1	4	0	4	2	4	2	0	1	1	2	0	1	5	10			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:111695404T>A	uc003puy.3	-	13	4477	c.4154A>T	c.(4153-4155)AAT>ATT	p.N1385I	REV3L_uc003pux.3_Missense_Mutation_p.N1307I|REV3L_uc003puz.3_Missense_Mutation_p.N1307I	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1385					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		ATTATTTGCATTATCTTCTAT	0.323								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					11	90					0	0	0.008291	0	0		A	111695404	A	A	111695404	3	1	19	1	0	0	0	0	1	0	0	0	13265	1493	52	5	5318	5	REV3L	6	111695404	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	374489	111695404	59419663	1123	14636											
TRAF3IP2	10758	broad.mit.edu	37	chr6	111912880	111912880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagataccagccattgattaCgtttttccataaatgaaaac	15	12	6	8	1	0	3	0	2	0	1	1	4	1	3	3	0	4	1	3	0	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:111912880C>T	uc011ebc.1	-	3	1025	c.410G>A	c.(409-411)CGT>CAT	p.R137H	TRAF3IP2_uc003pvg.2_Missense_Mutation_p.R137H|TRAF3IP2_uc003pvf.2_Missense_Mutation_p.R137H|TRAF3IP2_uc010kdw.2_Missense_Mutation_p.R137H|TRAF3IP2_uc010kdx.2_Missense_Mutation_p.R137H	NM_147686	NP_679211	O43734	CIKS_HUMAN	TRAF3 interacting protein 2 isoform 2	146					intracellular signal transduction|positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular				ovary(2)|central_nervous_system(1)	3		all_cancers(87;7.87e-06)|Acute lymphoblastic leukemia(125;3.61e-09)|all_hematologic(75;2.63e-07)|all_epithelial(87;0.0024)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.033)|all cancers(137;0.0412)|Epithelial(106;0.0732)		CCATTGATTACGTTTTTCCAT	0.502													6	55					0	0	0.010729	0	0		T	111912880	T	T	111912880	3	4	19	1	0	0	0	0	1	0	0	0	16467	536	19	1	1319	1	TRAF3IP2	6	111912880	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	217476	111912880	59202187	1124	14637											
LAMA4	3910	broad.mit.edu	37	chr6	112462562	112462562	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcatggattcactgtacctTtcaatcttgacaatgctgaa	11	14	7	9	0	4	2	3	2	1	0	4	3	4	3	1	1	2	2	1	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:112462562T>C	uc003pvu.2	-	21	3120	c.2811A>G	c.(2809-2811)GAA>GAG	p.E937E	LAMA4_uc003pvv.2_Silent_p.E930E|LAMA4_uc003pvt.2_Silent_p.E930E	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	937	Laminin G-like 1.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CACTGTACCTTTCAATCTTGA	0.458													38	96					0	0	0.013114	0	0		C	112462562	C	C	112462562	2	2	19	1	0	0	0	0	0	0	0	1	8624	1838	64	3		3	LAMA4	6	112462562	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	549682	112462562	58652505	1125	14638											
LAMA4	3910	broad.mit.edu	37	chr6	112528337	112528337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctctcctgttgtgttccGctggcagtgctatgagacaa	6	13	12	10	1	1	1	0	1	1	1	3	2	2	1	2	1	2	6	2	1	2	3	rs138176093	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:112528337G>A	uc003pvu.2	-	4	616	c.307C>T	c.(307-309)CGG>TGG	p.R103W	LAMA4_uc003pvv.2_Missense_Mutation_p.R103W|LAMA4_uc003pvt.2_Missense_Mutation_p.R103W	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	103	Laminin EGF-like 1.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		GTTGTGTTCCGCTGGCAGTGC	0.468													32	65					0	0	0.003755	0	0		A	112528337	A	A	112528337	3	1	19	1	0	0	0	0	1	0	0	0	8624	1086	38	1	5308	1	LAMA4	6	112528337	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	65775	112528337	58586730	1126	14639											
COL10A1	1300	broad.mit.edu	37	chr6	116442008	116442008	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgctcctgctgggcccAcagggcctgggagaccagga	6	7	14	14	0	0	1	0	0	0	1	1	3	1	2	5	4	2	2	5	4	0	1	rs148119438		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:116442008A>G	uc003pwm.2	-	3	1367	c.1271T>C	c.(1270-1272)GTG>GCG	p.V424A	NT5DC1_uc003pwj.2_Intron|NT5DC1_uc003pwk.2_Intron|NT5DC1_uc003pwl.2_Intron	NM_000493	NP_000484	Q03692	COAA1_HUMAN	type X collagen alpha 1 precursor	424	Triple-helical region.				skeletal system development	collagen	metal ion binding			central_nervous_system(1)	1		all_cancers(87;0.0176)|all_epithelial(87;0.0263)|Colorectal(196;0.234)		all cancers(137;0.0157)|OV - Ovarian serous cystadenocarcinoma(136;0.0325)|GBM - Glioblastoma multiforme(226;0.0446)|Epithelial(106;0.0711)		TGCTGGGCCCACAGGGCCTGG	0.597													5	81					0	0	0.001168	0	0		G	116442008	G	G	116442008	3	3	19	1	0	0	0	0	1	0	0	0	3669	159	6	3	775	3	COL10A1	6	116442008	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3913671	116442008	54673059	1127	14640											
TSPYL1	7259	broad.mit.edu	37	chr6	116600086	116600086	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacctctaaattggttatgTaccttaacatctctgcatct	10	16	4	11	0	4	0	1	0	3	0	5	0	4	0	2	1	3	3	2	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:116600086T>C	uc003pwp.3	-	1	1195	c.908A>G	c.(907-909)TAC>TGC	p.Y303C	DSE_uc011ebf.1_Intron|DSE_uc003pwq.1_5'Flank|DSE_uc003pwr.2_5'Flank|DSE_uc003pws.2_5'Flank	NM_003309	NP_003300	Q9H0U9	TSYL1_HUMAN	TSPY-like 1	303					nucleosome assembly	nucleolus					0		all_cancers(87;0.0144)|all_epithelial(87;0.021)|Colorectal(196;0.234)		all cancers(137;0.0235)|OV - Ovarian serous cystadenocarcinoma(136;0.0469)|GBM - Glioblastoma multiforme(226;0.0503)|Epithelial(106;0.094)		ATTGGTTATGTACCTTAACAT	0.448													8	217					0	0	0.004482	0	0		C	116600086	C	C	116600086	3	2	19	1	0	0	0	0	1	0	0	0	16685	1638	57	3	409	3	TSPYL1	6	116600086	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	158078	116600086	54514981	1128	14641											
DCBLD1	285761	broad.mit.edu	37	chr6	117862089	117862089	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctctctcaggtaatgatTcattggtgtggcgcaagaca	9	12	10	10	1	3	2	2	1	1	1	5	2	4	2	1	3	0	2	1	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:117862089T>C	uc003pxs.2	+	11	1383	c.1258T>C	c.(1258-1260)TCA>CCA	p.S420P	GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxr.1_Missense_Mutation_p.S420P|DCBLD1_uc003pxt.1_Missense_Mutation_p.S75P	NM_173674	NP_775945	Q8N8Z6	DCBD1_HUMAN	discoidin, CUB and LCCL domain containing 1	420	Extracellular (Potential).				cell adhesion	integral to membrane				ovary(1)	1		all_cancers(87;0.171)		GBM - Glioblastoma multiforme(226;0.0447)|OV - Ovarian serous cystadenocarcinoma(136;0.0921)|all cancers(137;0.125)		AGGTAATGATTCATTGGTGTG	0.453													46	97					0	0	0.01441	0	0		C	117862089	C	C	117862089	3	2	19	1	0	0	0	0	1	0	0	0	4283	1783	62	3	1300	3	DCBLD1	6	117862089	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1262003	117862089	53252978	1129	14642											
FAM184A	79632	broad.mit.edu	37	chr6	119285848	119285848	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataccttagccaatggattaAtaacaccaacagtaggactt	16	10	6	9	0	0	0	0	0	0	0	0	2	0	2	3	2	4	1	3	2	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:119285848A>G	uc003pyj.2	-	16	3470	c.3122T>C	c.(3121-3123)ATT>ACT	p.I1041T	FAM184A_uc003pyk.3_Missense_Mutation_p.I872T|FAM184A_uc003pyl.3_Intron|FAM184A_uc003pyi.2_RNA	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	1041										ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						CAATGGATTAATAACACCAAC	0.338													3	17					0	0	0.004672	0	0		G	119285848	G	G	119285848	3	3	19	1	0	0	0	0	1	0	0	0	5522	101	4	3	312	3	FAM184A	6	119285848	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1423759	119285848	51829219	1130	14643											
FAM184A	79632	broad.mit.edu	37	chr6	119297200	119297200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgatggttgagttctgagCgcaaggaagctggaattgca	10	11	15	5	1	1	3	0	3	1	0	1	5	1	5	0	3	3	6	0	3	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:119297200C>T	uc003pyj.2	-	12	2813	c.2465G>A	c.(2464-2466)CGC>CAC	p.R822H	FAM184A_uc003pyk.3_Missense_Mutation_p.R702H|FAM184A_uc003pyl.3_Missense_Mutation_p.R702H|FAM184A_uc003pyi.2_RNA	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	822										ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						GAGTTCTGAGCGCAAGGAAGC	0.289													19	53					0	0	0.008871	0	0		T	119297200	T	T	119297200	3	4	19	1	0	0	0	0	1	0	0	0	5522	768	27	1	985	1	FAM184A	6	119297200	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	11352	119297200	51817867	1131	14644											
GJA1	2697	broad.mit.edu	37	chr6	121768708	121768708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcaagggcgttaaggatCgggttaagggaaagagcgac	12	8	15	6	3	2	1	1	0	1	1	3	4	2	3	0	4	1	2	0	4	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:121768708C>T	uc003pyr.2	+	2	965	c.715C>T	c.(715-717)CGG>TGG	p.R239W	GJA1_uc011ebo.1_Missense_Mutation_p.R140W|GJA1_uc011ebp.1_Missense_Mutation_p.R27W	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	239	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	CGTTAAGGATCGGGTTAAGGG	0.478													31	93					0	0	0.008361	0	0		T	121768708	T	T	121768708	3	4	19	1	0	0	0	0	1	0	0	0	6415	875	31	1	717	1	GJA1	6	121768708	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2471508	121768708	49346359	1132	14645											
SERINC1	57515	broad.mit.edu	37	chr6	122768017	122768017	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgacaccatccctttcattAtctacagctcggtgaacatc	10	12	6	13	1	2	2	1	2	1	0	5	2	3	2	2	1	3	1	2	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:122768017A>G	uc003pyy.1	-	9	1198	c.1128T>C	c.(1126-1128)GAT>GAC	p.D376D	SERINC1_uc003pyx.1_RNA	NM_020755	NP_065806	Q9NRX5	SERC1_HUMAN	serine incorporator 1	376	Cytoplasmic (Potential).				phosphatidylserine metabolic process|phospholipid biosynthetic process|positive regulation of transferase activity|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	L-serine transmembrane transporter activity|protein binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.126)		CCCTTTCATTATCTACAGCTC	0.418													43	101					0	0	0.010771	0	0		G	122768017	G	G	122768017	2	3	19	1	0	0	0	0	0	0	0	1	14104	446	16	3		3	SERINC1	6	122768017	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	999309	122768017	48347050	1133	14646											
TRDN	10345	broad.mit.edu	37	chr6	123892227	123892227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacttttccgggggatttggGcacagatccatttttgctgt	6	15	11	9	1	0	1	0	0	0	1	2	2	2	2	2	3	1	2	2	3	0	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:123892227G>A	uc003pzj.1	-	2	95	c.73C>T	c.(73-75)CCC>TCC	p.P25S	TRDN_uc003pzk.1_Missense_Mutation_p.P25S|TRDN_uc003pzl.1_Missense_Mutation_p.P25S|TRDN_uc010ken.2_Missense_Mutation_p.P25S|TRDN_uc010keo.1_Missense_Mutation_p.P25S	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	25	Cytoplasmic.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		GGGGATTTGGGCACAGATCCA	0.428													7	73					0	0	0.001984	0	0		A	123892227	A	A	123892227	3	1	19	1	0	0	0	0	1	0	0	0	16494	1203	42	2	2276	2	TRDN	6	123892227	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1124210	123892227	47222840	1134	14647											
RSPO3	84870	broad.mit.edu	37	chr6	127469863	127469863	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattacaatggatgtttgtcAtgtaagcccagactattttt	11	16	8	6	0	1	1	1	0	0	1	1	3	1	2	1	1	2	2	1	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:127469863A>G	uc003qar.2	+	2	458	c.168A>G	c.(166-168)TCA>TCG	p.S56S	RSPO3_uc003qas.1_Silent_p.S56S	NM_032784	NP_116173	Q9BXY4	RSPO3_HUMAN	R-spondin 3 precursor	56	FU 1.					extracellular region	heparin binding				0				GBM - Glioblastoma multiforme(226;0.0555)		GATGTTTGTCATGTAAGCCCA	0.418													29	72					0	0	0.010818	0	0		G	127469863	G	G	127469863	2	3	19	1	0	0	0	0	0	0	0	1	13736	204	8	3		3	RSPO3	6	127469863	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3577636	127469863	43645204	1135	14648											
C6orf174	387104	broad.mit.edu	37	chr6	127836026	127836026	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgatttccccggtctgggcgTagcggagccttttgcgctcg	3	11	14	13	6	1	0	0	0	1	0	3	2	2	1	3	3	3	2	3	3	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:127836026T>C	uc003qbd.2	-	3	2133	c.1268A>G	c.(1267-1269)TAC>TGC	p.Y423C		NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	423	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		GGTCTGGGCGTAGCGGAGCCT	0.652													42	106					0	0	0.009718	0	0		C	127836026	C	C	127836026	3	2	19	1	0	0	0	0	1	0	0	0	2348	1638	57	3	1595	3	C6orf174	6	127836026	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	366163	127836026	43279041	1136	14649											
PTPRK	5796	broad.mit.edu	37	chr6	128318067	128318067	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctataatgtttccatatcGgttttttgctctattttgat	7	22	6	6	1	1	1	0	1	1	0	3	1	2	1	1	1	2	4	1	1	4	10			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:128318067G>A	uc003qbk.2	-	17	3110	c.2743C>T	c.(2743-2745)CGA>TGA	p.R915*	PTPRK_uc003qbj.2_Nonsense_Mutation_p.R916*|PTPRK_uc010kfc.2_Nonsense_Mutation_p.R916*|PTPRK_uc011ebu.1_Nonsense_Mutation_p.R932*	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	915	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		TTTCCATATCGGTTTTTTGCT	0.318													6	9					0	0	0.001168	0	0		A	128318067	A	A	128318067	4	1	19	1	0	0	0	0	0	1	0	0	12830	1124	39	1	1654	1	PTPRK	6	128318067	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	482041	128318067	42797000	1137	14650											
PTPRK	5796	broad.mit.edu	37	chr6	128643450	128643450	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagagtccactatcatatAggaacctgaaatgacattac	16	10	7	8	0	1	4	1	3	0	1	2	5	2	5	2	1	2	0	2	1	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:128643450A>G	uc003qbk.2	-	3	596	c.229T>C	c.(229-231)TAT>CAT	p.Y77H	PTPRK_uc003qbj.2_Missense_Mutation_p.Y77H|PTPRK_uc010kfc.2_Missense_Mutation_p.Y77H|PTPRK_uc011ebu.1_Missense_Mutation_p.Y77H|PTPRK_uc003qbl.1_Intron|PTPRK_uc011ebv.1_Missense_Mutation_p.Y77H|PTPRK_uc003qbm.3_Missense_Mutation_p.Y6H	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	77	Extracellular (Potential).|MAM.				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		ACTATCATATAGGAACCTGAA	0.353													64	132					0	0	0.01441	0	0		G	128643450	G	G	128643450	3	3	19	1	0	0	0	0	1	0	0	0	12830	420	15	3	4227	3	PTPRK	6	128643450	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	325383	128643450	42471617	1138	14651											
LAMA2	3908	broad.mit.edu	37	chr6	129759812	129759812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaatgaagaccatctaaatgGcttaaaaaccaggatagaaa	21	7	7	6	0	1	3	0	1	1	2	1	4	1	4	2	2	1	1	2	2	9	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:129759812G>A	uc003qbn.2	+	42	6095	c.5990G>A	c.(5989-5991)GGC>GAC	p.G1997D	LAMA2_uc003qbo.2_Missense_Mutation_p.G1997D	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1997	Domain II and I.|Potential.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		CATCTAAATGGCTTAAAAACC	0.338													6	101					0	0	0.001984	0	0		A	129759812	A	A	129759812	3	1	19	1	0	0	0	0	1	0	0	0	8622	1203	42	2	6156	2	LAMA2	6	129759812	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1116362	129759812	41355255	1139	14652											
ARG1	383	broad.mit.edu	37	chr6	131903792	131903792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggattctcctgggtgaCtccctgtatatctgccaagg	7	11	11	12	0	2	1	0	1	2	0	4	2	3	2	4	3	1	1	4	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:131903792C>T	uc003qcp.1	+	5	555	c.497C>T	c.(496-498)ACT>ATT	p.T166I	ARG1_uc003qco.1_Missense_Mutation_p.T166I|ARG1_uc010kfm.1_Missense_Mutation_p.T174I|MED23_uc003qcq.2_Intron	NM_000045	NP_000036	P05089	ARGI1_HUMAN	arginase 1	166					arginine catabolic process|urea cycle	cytosol	arginase activity			ovary(1)	1	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0106)|OV - Ovarian serous cystadenocarcinoma(155;0.0713)	L-Ornithine(DB00129)	TCCTGGGTGACTCCCTGTATA	0.403													37	102					0	0	0.010771	0	0		T	131903792	T	T	131903792	3	4	19	1	0	0	0	0	1	0	0	0	857	565	20	4	515	4	ARG1	6	131903792	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2143980	131903792	39211275	1140	14653											
VNN1	8876	broad.mit.edu	37	chr6	133005526	133005526	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcaacacctcaggaaagAcatactgggttccgaaagtg	14	7	10	10	1	2	1	2	0	0	1	3	3	3	2	2	2	3	2	2	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:133005526A>G	uc003qdo.2	-	6	1327	c.1307T>C	c.(1306-1308)GTC>GCC	p.V436A	VNN1_uc003qdn.2_RNA	NM_004666	NP_004657	O95497	VNN1_HUMAN	vanin 1 precursor	436					acute inflammatory response|anti-apoptosis|cell-cell adhesion|cellular component movement|chronic inflammatory response|innate immune response|pantothenate metabolic process|positive regulation of T cell differentiation in thymus|response to oxidative stress	anchored to membrane|integral to membrane|plasma membrane	GPI anchor binding|pantetheine hydrolase activity			ovary(3)	3	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.0027)|GBM - Glioblastoma multiforme(226;0.0189)		CTCAGGAAAGACATACTGGGT	0.423													30	59					0	0	0.010818	0	0		G	133005526	G	G	133005526	3	3	19	1	0	0	0	0	1	0	0	0	17208	275	10	3	242	3	VNN1	6	133005526	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1101734	133005526	38109541	1141	14654											
BCLAF1	9774	broad.mit.edu	37	chr6	136594249	136594249	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagggctcttttgccgagtActatgttcttcagtggcttt	5	17	10	9	1	4	0	2	0	2	0	4	1	4	0	1	2	2	4	1	2	2	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:136594249A>G	uc003qgx.1	-	7	2182	c.1929T>C	c.(1927-1929)AGT>AGC	p.S643S	BCLAF1_uc003qgw.1_Silent_p.S470S|BCLAF1_uc003qgy.1_Silent_p.S641S|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.S641S	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	643					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TTTGCCGAGTACTATGTTCTT	0.393													6	253					0	0	0.001984	0	0		G	136594249	G	G	136594249	2	3	19	1	0	0	0	0	0	0	0	1	1384	388	14	3		3	BCLAF1	6	136594249	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3588723	136594249	34520818	1142	14655											
BCLAF1	9774	broad.mit.edu	37	chr6	136599095	136599095	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gactcatctcttggagcattCtgtggtgcgattgtctttgc	5	16	11	9	1	4	0	1	0	3	0	5	3	4	1	0	2	3	1	0	2	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:136599095C>G	uc003qgx.1	-	4	1177	c.924G>C	c.(922-924)CAG>CAC	p.Q308H	BCLAF1_uc003qgw.1_Missense_Mutation_p.Q308H|BCLAF1_uc003qgy.1_Missense_Mutation_p.Q306H|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.Q306H	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	308					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TTGGAGCATTCTGTGGTGCGA	0.443													4	178					0	0	0.009096	0	0		G	136599095	G	G	136599095	3	3	19	1	0	0	0	0	1	0	0	0	1384	912	32	5	1878	5	BCLAF1	6	136599095	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4846	136599095	34515972	1143	14656											
MAP3K5	4217	broad.mit.edu	37	chr6	136913728	136913728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctccaccagcacaggtaccGgcaaggatatactcctgaga	12	6	9	14	1	0	1	0	1	0	1	2	3	2	2	5	3	3	3	5	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:136913728G>A	uc003qhc.2	-	22	3264	c.2903C>T	c.(2902-2904)CCG>CTG	p.P968L	MAP3K5_uc011edj.1_Missense_Mutation_p.P215L|MAP3K5_uc011edk.1_Missense_Mutation_p.P814L	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	968					activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		CACAGGTACCGGCAAGGATAT	0.453													32	59					0	0	0.013726	0	0		A	136913728	A	A	136913728	3	1	19	1	0	0	0	0	1	0	0	0	9271	1116	39	1	1257	1	MAP3K5	6	136913728	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	314633	136913728	34201339	1144	14657											
MAP3K5	4217	broad.mit.edu	37	chr6	136977530	136977530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagttcttgcttggccacaGgctgttctgtggtcagtttc	5	15	11	10	0	3	0	1	0	2	0	4	0	3	0	1	3	1	5	1	3	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:136977530G>A	uc003qhc.2	-	10	1956	c.1595C>T	c.(1594-1596)CCT>CTT	p.P532L	MAP3K5_uc011edj.1_5'UTR|MAP3K5_uc011edk.1_Missense_Mutation_p.P377L|MAP3K5_uc010kgw.1_Missense_Mutation_p.P532L	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	532					activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		CTTGGCCACAGGCTGTTCTGT	0.403													15	154					0	0	0.006122	0	0		A	136977530	A	A	136977530	3	1	19	1	0	0	0	0	1	0	0	0	9271	1000	35	4	2613	4	MAP3K5	6	136977530	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	63802	136977530	34137537	1145	14658											
TNFAIP3	7128	broad.mit.edu	37	chr6	138200209	138200209	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtacttgcttcaaaaggActacagcagaggcctcctcc	11	8	9	13	0	1	1	1	0	0	1	3	2	3	2	3	2	4	4	3	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:138200209A>G	uc003qhr.2	+	7	1693	c.1627A>G	c.(1627-1629)ACT>GCT	p.T543A	TNFAIP3_uc003qhs.2_Missense_Mutation_p.T543A	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	543	Interaction with NAF1 (By similarity).|A20-type 3.				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		CTTCAAAAGGACTACAGCAGA	0.597			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								28	65					0	0	0.004656	0	0		G	138200209	G	G	138200209	3	3	19	1	0	0	0	0	1	0	0	0	16299	275	10	3	1649	3	TNFAIP3	6	138200209	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1222679	138200209	32914858	1146	14659											
REPS1	85021	broad.mit.edu	37	chr6	139233945	139233945	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcttcatcatcttgttcgTcgtttacatttgatgcagca	7	16	8	10	3	3	1	2	1	1	0	5	1	3	1	0	1	3	5	0	1	1	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:139233945T>C	uc003qii.2	-	16	2507	c.1928A>G	c.(1927-1929)GAC>GGC	p.D643G	REPS1_uc003qig.3_Missense_Mutation_p.D616G|REPS1_uc011edr.1_Missense_Mutation_p.D642G|REPS1_uc003qij.2_Missense_Mutation_p.D552G|REPS1_uc003qik.2_Missense_Mutation_p.D249G	NM_031922	NP_114128	Q96D71	REPS1_HUMAN	RALBP1 associated Eps domain containing 1	643						coated pit|plasma membrane	calcium ion binding|SH3 domain binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(68;0.000434)|OV - Ovarian serous cystadenocarcinoma(155;0.000548)		ATCTTGTTCGTCGTTTACATT	0.443													5	164					0	0	0.001168	0	0		C	139233945	C	C	139233945	3	2	19	1	0	0	0	0	1	0	0	0	13253	1667	58	3	482	3	REPS1	6	139233945	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1033736	139233945	31881122	1147	14660											
HIVEP2	3097	broad.mit.edu	37	chr6	143093511	143093511	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaggtttcctgccccctaGgtctgacatcttgtctgaat	7	13	10	11	0	3	2	0	2	3	0	4	3	4	3	3	3	1	1	3	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:143093511G>T	uc003qjd.2	-	5	3108	c.2365C>A	c.(2365-2367)CTA>ATA	p.L789I		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	789					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CTGCCCCCTAGGTCTGACATC	0.512													7	68					1.06961e-07	1.1124e-07	0.00308	1	0		T	143093511	T	T	143093511	3	4	19	1	0	0	0	0	1	0	0	0	7203	991	35	5	4999	5	HIVEP2	6	143093511	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3859566	143093511	28021556	1148	14661											
PEX3	8504	broad.mit.edu	37	chr6	143793410	143793410	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattaataaagatggatccaAacctttattatgccattata	16	14	5	6	0	0	1	0	0	0	1	1	3	1	2	3	1	2	0	3	1	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:143793410A>G	uc003qjl.2	+	8	954	c.692A>G	c.(691-693)AAA>AGA	p.K231R	PEX3_uc011edx.1_Missense_Mutation_p.K231R	NM_003630	NP_003621	P56589	PEX3_HUMAN	peroxisomal biogenesis factor 3	231	Cytoplasmic (Potential).				protein import into peroxisome membrane|transmembrane transport	integral to peroxisomal membrane	protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;5.73e-06)|GBM - Glioblastoma multiforme(68;0.0117)		GATGGATCCAAACCTTTATTA	0.353													23	77					0	0	0.012319	0	0		G	143793410	G	G	143793410	3	3	19	1	0	0	0	0	1	0	0	0	11766	14	1	3	722	3	PEX3	6	143793410	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	699899	143793410	27321657	1149	14662											
UTRN	7402	broad.mit.edu	37	chr6	144769741	144769741	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttttatttcaggtgacTcaggctgtagcaaagctggg	8	13	13	7	0	2	1	2	1	0	0	2	1	2	1	0	4	2	5	0	4	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:144769741T>C	uc003qkt.2	+	16	2000	c.1908T>C	c.(1906-1908)ACT>ACC	p.T636T	UTRN_uc010khq.1_Silent_p.T636T	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	636	Interaction with SYNM.|Spectrin 4.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TTCAGGTGACTCAGGCTGTAG	0.279													10	218					0	0	0.008291	0	0		C	144769741	C	C	144769741	2	2	19	1	0	0	0	0	0	0	0	1	17129	1538	54	3		3	UTRN	6	144769741	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	976331	144769741	26345326	1150	14663											
UTRN	7402	broad.mit.edu	37	chr6	145160394	145160394	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctactcgcttgatccagatgCctccggcccacagttccacc	7	9	7	18	2	0	2	0	1	0	1	4	2	3	2	6	1	2	2	6	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:145160394C>G	uc003qkt.2	+	71	10243	c.10151C>G	c.(10150-10152)GCC>GGC	p.A3384G		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	3384					muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GATCCAGATGCCTCCGGCCCA	0.527													4	76					0	0	0.009096	0	0		G	145160394	G	G	145160394	3	3	19	1	0	0	0	0	1	0	0	0	17129	739	26	5	10433	5	UTRN	6	145160394	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	390653	145160394	25954673	1151	14664											
GRM1	2911	broad.mit.edu	37	chr6	146755183	146755183	+	Frame_Shift_Del	DEL	T	-	-																															gctctggcaagagcctgaccTtttcagataccagcaccaag																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:146755183delT	uc010khw.1	+	9	3306	c.2836delT	c.(2836-2838)TTTfs	p.F946fs	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	946	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GAGCCTGACCTTTTCAGATAC	0.552													72	164	---	---	---	---						.	-	146755183	-	-	146755183	7	5	19	1	0	1	0	1	0	0	0	0	6812	1609	56	0	2931	0	GRM1	6	146755183	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	1594789	146755183	24359884	1152	14665											
STXBP5	134957	broad.mit.edu	37	chr6	147635760	147635760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgggtcagttaagttctggGatgcttctgcaagtaagtat	10	14	12	5	0	3	0	1	0	2	0	3	1	3	1	0	2	2	6	0	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:147635760G>A	uc003qlz.2	+	14	1551	c.1390G>A	c.(1390-1392)GAT>AAT	p.D464N	STXBP5_uc010khz.1_Missense_Mutation_p.D464N|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Missense_Mutation_p.D135N	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	464	WD 8.				exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		TAAGTTCTGGGATGCTTCTGC	0.299													5	52					0	0	0.000602	0	0		A	147635760	A	A	147635760	3	1	19	1	0	0	0	0	1	0	0	0	15381	1174	41	4	1444	4	STXBP5	6	147635760	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	880577	147635760	23479307	1153	14666											
SASH1	23328	broad.mit.edu	37	chr6	148853986	148853986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaaccgggaaagcgtcAagtcggaagatggggatgac	13	4	15	9	3	1	2	1	1	0	1	2	5	1	5	2	4	3	1	2	4	4	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:148853986A>G	uc003qme.1	+	14	2093	c.1618A>G	c.(1618-1620)AAG>GAG	p.K540E	SASH1_uc011eeb.1_Missense_Mutation_p.K301E|SASH1_uc003qmf.1_5'UTR	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	540							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		GGAAAGCGTCAAGTCGGAAGA	0.572													13	118					0	0	0.013537	0	0		G	148853986	G	G	148853986	3	3	19	1	0	0	0	0	1	0	0	0	13873	131	5	3	1672	3	SASH1	6	148853986	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1218226	148853986	22261081	1154	14667											
ZC3H12D	340152	broad.mit.edu	37	chr6	149777991	149777991	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaccttgcgggacggcgtgTacaccagcaccgcctgccgc	6	5	13	17	5	0	0	0	0	0	0	0	1	0	1	5	2	4	3	5	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:149777991T>C	uc003qmn.1	-	3	561	c.491A>G	c.(490-492)TAC>TGC	p.Y164C	PPIL4_uc010kic.2_Intron|ZC3H12D_uc003qmm.2_Missense_Mutation_p.Y164C|ZC3H12D_uc010kid.2_Missense_Mutation_p.Y164C	NM_207360	NP_997243	A2A288	ZC12D_HUMAN	zinc finger CCCH-type containing 12D	164						cytoplasm|nucleus	endonuclease activity|nucleic acid binding|zinc ion binding				0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.23e-11)|GBM - Glioblastoma multiforme(68;0.0921)		GGACGGCGTGTACACCAGCAC	0.692													8	37					0	0	0.006214	0	0		C	149777991	C	C	149777991	3	2	19	1	0	0	0	0	1	0	0	0	17589	1638	57	3	1104	3	ZC3H12D	6	149777991	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	924005	149777991	21337076	1155	14668											
LATS1	9113	broad.mit.edu	37	chr6	150004573	150004573	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggtggtggtccttgatagTttggagcttcagcaacaggt	7	13	15	6	0	1	1	1	1	0	0	2	2	2	2	1	5	3	3	1	5	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:150004573T>C	uc003qmu.1	-	4	2200	c.1652A>G	c.(1651-1653)AAC>AGC	p.N551S	LATS1_uc010kif.1_Missense_Mutation_p.N446S|LATS1_uc003qmv.1_Missense_Mutation_p.N551S|LATS1_uc003qmw.2_Missense_Mutation_p.N551S|LATS1_uc010kig.1_Missense_Mutation_p.N446S	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	551	Interaction with YAP1.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		TCCTTGATAGTTTGGAGCTTC	0.483													6	149					0	0	0.001168	0	0		C	150004573	C	C	150004573	3	2	19	1	0	0	0	0	1	0	0	0	8662	1725	60	3	1760	3	LATS1	6	150004573	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	226582	150004573	21110494	1156	14669											
LATS1	9113	broad.mit.edu	37	chr6	150005445	150005445	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagggggaggtggagttgtAcctcttggagggggagtctg	7	9	21	4	0	2	0	0	0	2	0	2	5	2	4	1	7	1	2	1	7	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:150005445A>G	uc003qmu.1	-	4	1328	c.780T>C	c.(778-780)GGT>GGC	p.G260G	LATS1_uc010kif.1_Silent_p.G155G|LATS1_uc003qmv.1_Silent_p.G260G|LATS1_uc003qmw.2_Silent_p.G260G|LATS1_uc010kig.1_Silent_p.G155G	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	260					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		GTGGAGTTGTACCTCTTGGAG	0.537													5	272					0	0	0.00308	0	0		G	150005445	G	G	150005445	2	3	19	1	0	0	0	0	0	0	0	1	8662	378	14	3		3	LATS1	6	150005445	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	872	150005445	21109622	1157	14670											
IYD	389434	broad.mit.edu	37	chr6	150715265	150715265	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaaagagtacttggatacTgcccctattttgattctcat	11	16	6	8	0	1	2	1	1	1	1	2	3	1	3	2	1	3	1	2	1	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:150715265T>A	uc003qnu.1	+	4	701	c.561T>A	c.(559-561)ACT>ACA	p.T187T	IYD_uc003qnv.1_Silent_p.T187T|IYD_uc003qnw.1_RNA|IYD_uc003qnx.1_Silent_p.T187T|IYD_uc010kik.1_Silent_p.T105T	NM_203395	NP_981932	Q6PHW0	IYD1_HUMAN	iodotyrosine dehalogenase 1 isoform 2	187	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process	integral to membrane|plasma membrane				ovary(2)	2		Ovarian(120;0.028)	BRCA - Breast invasive adenocarcinoma(37;0.215)	OV - Ovarian serous cystadenocarcinoma(155;4.16e-12)		ACTTGGATACTGCCCCTATTT	0.368													4	82					0	0	0.000602	0	0		A	150715265	A	A	150715265	2	1	19	1	0	0	0	0	0	0	0	1	7948	1567	55	5		5	IYD	6	150715265	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	709820	150715265	20399802	1158	14671											
RMND1	55005	broad.mit.edu	37	chr6	151766783	151766783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccactagctgttttatcaGgaaggaacaaatccaagctt	15	10	7	9	0	1	0	1	0	0	0	2	2	2	2	2	2	4	3	2	2	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:151766783G>A	uc003qoi.2	-	2	344	c.164C>T	c.(163-165)CCT>CTT	p.P55L	RMND1_uc011eeq.1_5'Flank|RMND1_uc003qoj.2_Missense_Mutation_p.P55L|RMND1_uc011eer.1_Missense_Mutation_p.P55L	NM_017909	NP_060379	Q9NWS8	RMND1_HUMAN	required for meiotic nuclear division 1 homolog	55											0		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.146)	OV - Ovarian serous cystadenocarcinoma(155;6.8e-11)		TGTTTTATCAGGAAGGAACAA	0.393													59	155					0	0	0.01441	0	0		A	151766783	A	A	151766783	3	1	19	1	0	0	0	0	1	0	0	0	13421	1000	35	4	1229	4	RMND1	6	151766783	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1051518	151766783	19348284	1159	14672											
SYNE1	23345	broad.mit.edu	37	chr6	152469422	152469422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggagaaagcaggctgtctGcagagcggtcgtgccagtgc	8	7	17	9	2	1	2	0	0	1	2	2	3	1	2	1	3	5	3	1	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:152469422G>A	uc010kiw.2	-	137	25336	c.24734C>T	c.(24733-24735)GCA>GTA	p.A8245V	SYNE1_uc010kiv.2_Missense_Mutation_p.A2769V|SYNE1_uc003qos.3_Missense_Mutation_p.A2769V|SYNE1_uc003qot.3_Missense_Mutation_p.A8174V|SYNE1_uc003qou.3_Missense_Mutation_p.A8245V|SYNE1_uc003qop.3_Missense_Mutation_p.A407V|SYNE1_uc011eez.1_Missense_Mutation_p.A447V|SYNE1_uc003qoq.3_Missense_Mutation_p.A447V|SYNE1_uc003qor.3_Missense_Mutation_p.A1145V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	8245	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CAGGCTGTCTGCAGAGCGGTC	0.632										HNSCC(10;0.0054)			23	46					0	0	0.00333	0	0		A	152469422	A	A	152469422	3	1	19	1	0	0	0	0	1	0	0	0	15470	1319	46	2	1772	2	SYNE1	6	152469422	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	702639	152469422	18645645	1160	14673											
SYNE1	23345	broad.mit.edu	37	chr6	152557373	152557373	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgatggatatcagaagTcgtttcccatcatctaatac	12	12	7	10	1	3	2	2	1	1	1	5	3	4	3	1	1	2	2	1	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:152557373T>C	uc010kiw.2	-	110	20867	c.20265A>G	c.(20263-20265)CGA>CGG	p.R6755R	SYNE1_uc010kiv.2_Silent_p.R1279R|SYNE1_uc003qos.3_Silent_p.R1279R|SYNE1_uc003qot.3_Silent_p.R6684R|SYNE1_uc003qou.3_Silent_p.R6755R	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6755	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		ATATCAGAAGTCGTTTCCCAT	0.338										HNSCC(10;0.0054)			5	90					0	0	0.000602	0	0		C	152557373	C	C	152557373	2	2	19	1	0	0	0	0	0	0	0	1	15470	1654	58	3		3	SYNE1	6	152557373	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	87951	152557373	18557694	1161	14674											
SYNE1	23345	broad.mit.edu	37	chr6	152652220	152652220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcaattcctgaagcttccCcagcacttcactcttttcct	7	14	4	16	0	2	1	1	1	1	0	5	1	5	1	4	0	3	3	4	0	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:152652220C>T	uc010kiw.2	-	78	14202	c.13600G>A	c.(13600-13602)GGG>AGG	p.G4534R	SYNE1_uc003qot.3_Missense_Mutation_p.G4463R|SYNE1_uc003qou.3_Missense_Mutation_p.G4534R|SYNE1_uc010kiz.2_Missense_Mutation_p.G289R	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4534	Cytoplasmic (Potential).|Spectrin 13.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TGAAGCTTCCCCAGCACTTCA	0.453										HNSCC(10;0.0054)			82	211					0	0	0.01441	0	0		T	152652220	T	T	152652220	3	4	19	1	0	0	0	0	1	0	0	0	15470	623	22	4	13142	4	SYNE1	6	152652220	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	94847	152652220	18462847	1162	14675											
SYNE1	23345	broad.mit.edu	37	chr6	152718065	152718065	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaaagtttgtccttcttgAgtcactgcatcaagtttgct	9	16	7	9	0	3	1	2	1	1	0	4	1	4	1	1	0	3	4	1	0	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:152718065A>G	uc010kiw.2	-	50	8003	c.7401T>C	c.(7399-7401)ACT>ACC	p.T2467T	SYNE1_uc003qot.3_Silent_p.T2474T|SYNE1_uc003qou.3_Silent_p.T2467T|SYNE1_uc010kjb.1_Silent_p.T2450T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2467	Spectrin 4.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GTCCTTCTTGAGTCACTGCAT	0.378										HNSCC(10;0.0054)			40	112					0	0	0.009718	0	0		G	152718065	G	G	152718065	2	3	19	1	0	0	0	0	0	0	0	1	15470	291	11	3		3	SYNE1	6	152718065	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	65845	152718065	18397002	1163	14676											
SYNE1	23345	broad.mit.edu	37	chr6	152847248	152847248	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggacctccagaagggcAagcagtttaacaccatcttt	13	8	9	11	0	1	1	0	0	1	1	2	3	2	2	3	2	2	3	3	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:152847248A>G	uc010kiw.2	-	5	794	c.192T>C	c.(190-192)CTT>CTC	p.L64L	SYNE1_uc003qot.3_Silent_p.L64L|SYNE1_uc003qou.3_Silent_p.L64L|SYNE1_uc010kjb.1_Silent_p.L64L|SYNE1_uc003qpa.1_Silent_p.L64L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	64	Actin-binding.|Cytoplasmic (Potential).|CH 1.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CCAGAAGGGCAAGCAGTTTAA	0.398										HNSCC(10;0.0054)			22	49					0	0	0.014323	0	0		G	152847248	G	G	152847248	2	3	19	1	0	0	0	0	0	0	0	1	15470	117	5	3		3	SYNE1	6	152847248	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	129183	152847248	18267819	1164	14677											
RBM16	22828	broad.mit.edu	37	chr6	155154296	155154296	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttccccctcctcatgctcggGtttttgattattttgaaggg	5	17	9	10	1	1	2	1	2	0	0	4	2	3	2	3	2	1	2	3	2	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:155154296G>T	uc003qqa.2	+	21	3815	c.3583G>T	c.(3583-3585)GTT>TTT	p.V1195F	TIAM2_uc003qqb.2_5'UTR|RBM16_uc011efj.1_Missense_Mutation_p.V1261F|RBM16_uc011efk.1_Missense_Mutation_p.V1240F|RBM16_uc003qpz.2_Missense_Mutation_p.V1195F|RBM16_uc010kji.2_Intron	NM_014892	NP_055707	Q9UPN6	SCAF8_HUMAN	RNA-binding motif protein 16	1195					mRNA processing|RNA splicing	nuclear matrix|spliceosomal complex	nucleotide binding|RNA binding|RNA polymerase core enzyme binding				0		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;2.33e-15)|BRCA - Breast invasive adenocarcinoma(81;0.00524)		TCATGCTCGGGTTTTTGATTA	0.433													11	74					1.08611e-07	1.12891e-07	0.010729	1	0		T	155154296	T	T	155154296	3	4	19	1	0	0	0	0	1	0	0	0	13143	1261	44	5	3661	5	RBM16	6	155154296	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2307048	155154296	15960771	1165	14678											
CLDN20	49861	broad.mit.edu	37	chr6	155596891	155596891	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctccttgctttcatccTggccttatctggggtctctg	3	15	9	14	0	3	0	1	0	2	0	6	0	5	0	4	3	2	2	4	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:155596891T>C	uc003qql.1	+	2	418	c.38T>C	c.(37-39)CTG>CCG	p.L13P	TFB1M_uc003qqj.3_Intron|TFB1M_uc003qqk.2_Intron	NM_001001346	NP_001001346	P56880	CLD20_HUMAN	claudin 20	13	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0				OV - Ovarian serous cystadenocarcinoma(155;7.82e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0114)		GCTTTCATCCTGGCCTTATCT	0.483													17	143					0	0	0.00499	0	0		C	155596891	C	C	155596891	3	2	19	1	0	0	0	0	1	0	0	0	3485	1580	55	3	40	3	CLDN20	6	155596891	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	442595	155596891	15518176	1166	14679											
TULP4	56995	broad.mit.edu	37	chr6	158924465	158924465	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctagtttacagctgccacCtgtcgccttgcatccatgga	7	12	8	14	1	1	0	0	0	1	0	3	1	2	1	4	1	4	3	4	1	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:158924465C>A	uc003qrf.2	+	13	5127	c.3770C>A	c.(3769-3771)CCT>CAT	p.P1257H	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	1257					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CAGCTGCCACCTGTCGCCTTG	0.627													6	206					5.4927e-09	5.72878e-09	0.004482	1	0		A	158924465	A	A	158924465	3	1	19	1	0	0	0	0	1	0	0	0	16802	681	24	5	3820	5	TULP4	6	158924465	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3327574	158924465	12190602	1167	14680											
WTAP	9589	broad.mit.edu	37	chr6	160164712	160164712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcagctaatgatgtaactgGcctaagagagtctgaagaaa	16	9	10	6	0	2	4	1	2	1	2	2	5	2	4	1	1	2	2	1	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:160164712G>A	uc003qsl.2	+	5	383	c.161G>A	c.(160-162)GGC>GAC	p.G54D	WTAP_uc010kjx.2_Missense_Mutation_p.G54D|WTAP_uc003qsk.2_Missense_Mutation_p.G54D|WTAP_uc003qsm.1_RNA|WTAP_uc003qsn.2_Missense_Mutation_p.G54D	NM_004906	NP_004897	Q15007	FL2D_HUMAN	Wilms' tumour 1-associating protein isoform 1	54					cell cycle|mRNA processing|RNA splicing	nuclear membrane|nucleolus					0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.75e-18)|BRCA - Breast invasive adenocarcinoma(81;5.93e-06)		GATGTAACTGGCCTAAGAGAG	0.363													7	57					0	0	0.001984	0	0		A	160164712	A	A	160164712	3	1	19	1	0	0	0	0	1	0	0	0	17435	1203	42	2	175	2	WTAP	6	160164712	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1240247	160164712	10950355	1168	14681											
PLG	5340	broad.mit.edu	37	chr6	161152266	161152266	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagactccttccgaagaaggTaagaaatctgtggctggaca	13	8	12	8	1	1	3	0	0	1	3	3	6	3	4	2	3	0	2	2	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:161152266T>C	uc003qtm.3	+	11	1501	c.1438_splice	c.e11+2	p.D480_splice		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen						extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	CCGAAGAAGGTAAGAAATCTG	0.473													12	45					0	0	0.001855	0	0		C	161152266	C	C	161152266	5	2	19	1	0	0	0	0	0	0	1	0	12105	1652	57	3	1486	3	PLG	6	161152266	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	987554	161152266	9962801	1169	14682											
MAP3K4	4216	broad.mit.edu	37	chr6	161502018	161502018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagaatggaatttcaccaaaGaaataactcattacatacgg	19	9	6	7	1	2	2	2	0	0	2	2	3	2	3	1	2	3	0	1	2	8	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:161502018G>A	uc003qtn.2	+	6	2345	c.2203G>A	c.(2203-2205)GAA>AAA	p.E735K	MAP3K4_uc010kkc.1_Missense_Mutation_p.E735K|MAP3K4_uc003qto.2_Missense_Mutation_p.E735K|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.E188K	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	735					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		TTTCACCAAAGAAATAACTCA	0.428													13	52					0	0	0.001855	0	0		A	161502018	A	A	161502018	3	1	19	1	0	0	0	0	1	0	0	0	9270	943	33	4	2225	4	MAP3K4	6	161502018	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	349752	161502018	9613049	1170	14683											
MAP3K4	4216	broad.mit.edu	37	chr6	161527693	161527693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgataatgttatgcacgttgGcttgaggaaggtgaccttca	10	13	12	6	1	1	3	1	3	0	0	1	4	1	4	1	3	1	4	1	3	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:161527693G>A	uc003qtn.2	+	20	4146	c.4004G>A	c.(4003-4005)GGC>GAC	p.G1335D	MAP3K4_uc010kkc.1_Missense_Mutation_p.G1331D|MAP3K4_uc003qto.2_Missense_Mutation_p.G1285D|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.G788D|MAP3K4_uc003qtp.2_Missense_Mutation_p.G271D|MAP3K4_uc003qtq.2_Missense_Mutation_p.G24D	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	1335					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		ATGCACGTTGGCTTGAGGAAG	0.388													57	92					0	0	0.01441	0	0		A	161527693	A	A	161527693	3	1	19	1	0	0	0	0	1	0	0	0	9270	1203	42	2	4082	2	MAP3K4	6	161527693	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	25675	161527693	9587374	1171	14684											
UNC93A	54346	broad.mit.edu	37	chr6	167708156	167708156	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccatgtgtggctacgtggCcttctccgtgggcaacttct	4	13	11	13	2	2	0	0	0	2	0	4	0	3	0	3	3	2	2	3	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:167708156C>T	uc003qvq.2	+	2	414	c.239C>T	c.(238-240)GCC>GTC	p.A80V	UNC93A_uc003qvr.2_Missense_Mutation_p.A80V	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	80	Helical; (Potential).					integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GGCTACGTGGCCTTCTCCGTG	0.637													5	198					0	0	0.001984	0	0		T	167708156	T	T	167708156	3	4	19	1	0	0	0	0	1	0	0	0	17022	739	26	2	245	2	UNC93A	6	167708156	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	6180463	167708156	3406911	1172	14685											
MLLT4	4301	broad.mit.edu	37	chr6	168348992	168348992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggagcagacgcctccgcctaGacctgaagcctaccccatcc	9	5	9	18	2	0	3	0	1	0	2	2	4	2	4	8	1	3	1	8	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:168348992G>A	uc003qwd.2	+	28	3783	c.3641G>A	c.(3640-3642)AGA>AAA	p.R1214K	MLLT4_uc003qwb.1_Missense_Mutation_p.R1199K|MLLT4_uc003qwc.1_Missense_Mutation_p.R1215K|MLLT4_uc003qwg.1_Missense_Mutation_p.R524K	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1215					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		CCTCCGCCTAGACCTGAAGCC	0.448			T	MLL	AL								11	89					0	0	0.008291	0	0		A	168348992	A	A	168348992	3	1	19	1	0	0	0	0	1	0	0	0	9647	942	33	4	3754	4	MLLT4	6	168348992	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	640836	168348992	2766075	1173	14686											
KIF25	3834	broad.mit.edu	37	chr6	168434697	168434697	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaattatccctagagtggcTgaggagctcttcaggtactg	9	11	13	8	0	2	2	1	1	1	1	3	4	3	4	1	4	2	3	1	4	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:168434697T>C	uc003qwk.1	+	4	565	c.303T>C	c.(301-303)GCT>GCC	p.A101A	KIF25_uc003qwl.1_Silent_p.A101A	NM_030615	NP_085118	Q9UIL4	KIF25_HUMAN	kinesin family member 25 isoform 1	101	Kinesin-motor.				microtubule-based movement|mitotic sister chromatid segregation	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(1)|pancreas(1)	2		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		CTAGAGTGGCTGAGGAGCTCT	0.547													10	33					0	0	0.006214	0	0		C	168434697	C	C	168434697	2	2	19	1	0	0	0	0	0	0	0	1	8309	1567	55	3		3	KIF25	6	168434697	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	85705	168434697	2680370	1174	14687											
PDCD2	5134	broad.mit.edu	37	chr6	170889180	170889180	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatggaatccagttcttcCtcaagtgcttcacctgaaaa	11	11	7	12	0	3	1	2	1	1	0	5	2	5	2	4	1	1	2	4	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:170889180C>T	uc003qxw.2	-	4	751	c.672G>A	c.(670-672)GAG>GAA	p.E224E	PDCD2_uc003qxv.2_Silent_p.E191E|PDCD2_uc003qxx.1_Silent_p.E224E	NM_002598	NP_002589	Q16342	PDCD2_HUMAN	programmed cell death 2 isoform 1	224					apoptosis	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding				0		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|BRCA - Breast invasive adenocarcinoma(81;4.82e-06)|GBM - Glioblastoma multiforme(31;0.142)		CCAGTTCTTCCTCAAGTGCTT	0.388													15	40					0	0	0.00245	0	0		T	170889180	T	T	170889180	2	4	19	1	0	0	0	0	0	0	0	1	11638	680	24	4		4	PDCD2	6	170889180	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2454483	170889180	225887	1175	14688											
HEATR2	54919	broad.mit.edu	37	chr7	769478	769478	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagcgactgtttgatgacgtCccgcaggtaactggtgtttc	7	12	12	10	3	0	2	0	2	0	0	2	3	1	2	1	2	2	4	1	2	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:769478C>T	uc010krz.1	+	2	794	c.774C>T	c.(772-774)GTC>GTT	p.V258V	PRKAR1B_uc003siw.1_5'Flank|HEATR2_uc003siz.2_Silent_p.V126V	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	258	HEAT 3.						protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		TTGATGACGTCCCGCAGGTAA	0.517													18	46					0	0	0.008871	0	0		T	769478	T	T	769478	2	4	19	1	0	0	0	0	0	0	0	1	7044	842	30	4		4	HEATR2	7	769478	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08		769478	158369185	1176	14689											
HEATR2	54919	broad.mit.edu	37	chr7	781046	781046	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaaggagaatgaggaggAcctgaaggacaagctggact	15	4	16	6	0	0	4	0	2	0	2	0	9	0	8	1	5	1	2	1	5	4	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:781046A>G	uc010krz.1	+	4	988	c.968A>G	c.(967-969)GAC>GGC	p.D323G	HEATR2_uc003siz.2_Missense_Mutation_p.D191G	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	323							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		AATGAGGAGGACCTGAAGGAC	0.637													3	10					0	0	0.004672	0	0		G	781046	G	G	781046	3	3	19	1	0	0	0	0	1	0	0	0	7044	275	10	3	982	3	HEATR2	7	781046	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	11568	781046	158357617	1177	14690											
CHST12	55501	broad.mit.edu	37	chr7	2472447	2472447	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccgggccggacagggacaGggagctcacggccgactccg	7	2	17	15	5	1	0	1	0	0	0	2	4	2	3	4	5	1	1	4	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:2472447G>T	uc003smc.2	+	2	308	c.173G>T	c.(172-174)AGG>ATG	p.R58M	CHST12_uc003smd.2_Missense_Mutation_p.R58M	NM_018641	NP_061111	Q9NRB3	CHSTC_HUMAN	carbohydrate sulfotransferase 12	58	Lumenal (Potential).				dermatan sulfate biosynthetic process	integral to Golgi membrane	3'-phosphoadenosine 5'-phosphosulfate binding|chondroitin 4-sulfotransferase activity|protein binding			kidney(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0847)|OV - Ovarian serous cystadenocarcinoma(56;2.25e-13)		GACAGGGACAGGGAGCTCACG	0.657													31	63					3.77016e-25	4.02681e-25	0.013114	1	0		T	2472447	T	T	2472447	3	4	19	1	0	0	0	0	1	0	0	0	3403	1000	35	5	175	5	CHST12	7	2472447	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1691401	2472447	156666216	1178	14691											
C7orf27	221927	broad.mit.edu	37	chr7	2583482	2583482	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccccggcaggcagggctgcCcctcggctccacctcgcatg	4	5	12	20	3	0	0	0	0	0	0	3	0	1	0	6	4	1	5	6	4	0	0	rs148598276	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:2583482C>A	uc003smi.2	-	5	587	c.545G>T	c.(544-546)GGG>GTG	p.G182V	C7orf27_uc003smh.3_5'Flank|C7orf27_uc003smj.1_Missense_Mutation_p.G182V	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	182					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)		GCAGGGCTGCCCCTCGGCTCC	0.652													29	58					2.47316e-13	2.60785e-13	0.003271	1	0		A	2583482	A	A	2583482	3	1	19	1	0	0	0	0	1	0	0	0	2385	623	22	5	1960	5	C7orf27	7	2583482	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	111035	2583482	156555181	1179	14692											
FOXK1	221937	broad.mit.edu	37	chr7	4800727	4800727	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccaccattgcgtttgccAcaatccccgcggctggtgga	8	8	10	15	3	0	0	0	0	0	0	1	1	1	1	5	3	3	2	5	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:4800727A>G	uc003snc.1	+	8	1739	c.1729A>G	c.(1729-1731)ACA>GCA	p.T577A	FOXK1_uc003sna.1_Missense_Mutation_p.T414A	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	forkhead box K1	577					cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		TGCGTTTGCCACAATCCCCGC	0.652													36	72					0	0	0.011902	0	0		G	4800727	G	G	4800727	3	3	19	1	0	0	0	0	1	0	0	0	6028	159	6	3	1759	3	FOXK1	7	4800727	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2217245	4800727	154337936	1180	14693											
KIAA0415	9907	broad.mit.edu	37	chr7	4825182	4825182	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggccgtgctggtgctggaCgtgctgtgccggcaggaccc	4	7	18	12	3	0	0	0	0	0	0	0	3	0	2	3	5	4	4	3	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:4825182C>T	uc003sne.2	+	9	1082	c.999C>T	c.(997-999)GAC>GAT	p.D333D	KIAA0415_uc010ksp.2_RNA|KIAA0415_uc003snf.2_5'Flank	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	333					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		TGGTGCTGGACGTGCTGTGCC	0.687													3	13					0	0	0.004672	0	0		T	4825182	T	T	4825182	2	4	19	1	0	0	0	0	0	0	0	1	8191	535	19	1		1	KIAA0415	7	4825182	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	24455	4825182	154313481	1181	14694											
RADIL	55698	broad.mit.edu	37	chr7	4856942	4856942	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaccgccatggcctcctcGctggccgtcagcgtgcagga	6	6	13	16	4	1	0	1	0	0	0	3	1	2	1	5	3	3	3	5	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:4856942G>A	uc003snj.1	-	7	1829	c.1656C>T	c.(1654-1656)AGC>AGT	p.S552S	RADIL_uc003sng.1_RNA|RADIL_uc003sni.1_Silent_p.S57S|RADIL_uc011jwc.1_Silent_p.S312S|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	552	Dilute.				cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		TGGCCTCCTCGCTGGCCGTCA	0.632													8	21					0	0	0.013537	0	0		A	4856942	A	A	4856942	2	1	19	1	0	0	0	0	0	0	0	1	13022	1078	38	1		1	RADIL	7	4856942	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	31760	4856942	154281721	1182	14695											
ACTB	60	broad.mit.edu	37	chr7	5567755	5567755	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtacaggtctttgcggatGtccacgtcacacttcatgat	8	12	10	11	3	3	1	2	1	1	0	4	2	4	2	1	2	2	1	1	2	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:5567755G>A	uc003sos.3	-	4	900	c.864C>T	c.(862-864)GAC>GAT	p.D288D	ACTB_uc003sor.3_Silent_p.D166D|ACTB_uc003sot.3_Silent_p.D288D|ACTB_uc003soq.3_Silent_p.D166D|ACTB_uc010ksy.2_Silent_p.D166D	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	288					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		CTTTGCGGATGTCCACGTCAC	0.557													72	158					0	0	0.01441	0	0		A	5567755	A	A	5567755	2	1	19	1	0	0	0	0	0	0	0	1	193	1368	48	4		4	ACTB	7	5567755	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	710813	5567755	153570908	1183	14696											
RNF216	54476	broad.mit.edu	37	chr7	5692060	5692060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacatagaggtacggtactTgatgtcgtctttttcagcca	9	14	9	9	2	3	2	2	1	1	1	4	2	3	2	1	2	3	2	1	2	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:5692060T>C	uc003soy.1	-	14	2162	c.1972A>G	c.(1972-1974)AAG>GAG	p.K658E	RNF216_uc010ksz.1_Missense_Mutation_p.K280E|RNF216_uc010kta.1_Missense_Mutation_p.K280E|RNF216_uc011jwj.1_Missense_Mutation_p.K280E|RNF216_uc003sox.1_Missense_Mutation_p.K715E|RNF216_uc003spa.1_RNA	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	658					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		GTACGGTACTTGATGTCGTCT	0.473													83	154					0	0	0.01441	0	0		C	5692060	C	C	5692060	3	2	19	1	0	0	0	0	1	0	0	0	13505	1821	63	3	644	3	RNF216	7	5692060	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	124305	5692060	153446603	1184	14697											
PMS2	5395	broad.mit.edu	37	chr7	6027153	6027153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcagtctggaaatggacaCgtcttttttttcttctccag	7	16	8	10	2	4	0	0	0	4	0	6	2	4	2	1	2	0	1	1	2	1	5	rs138387687		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:6027153C>T	uc003spl.2	-	11	1330	c.1243G>A	c.(1243-1245)GTG>ATG	p.V415M	PMS2_uc003spj.2_Missense_Mutation_p.V309M|PMS2_uc003spk.2_Missense_Mutation_p.V280M|PMS2_uc011jwl.1_Missense_Mutation_p.V280M|PMS2_uc010ktg.2_Missense_Mutation_p.V104M|PMS2_uc010kte.2_Intron|PMS2_uc010ktf.1_Missense_Mutation_p.V415M	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	415					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		GAAATGGACACGTCTTTTTTT	0.458			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				31	60					0	0	0.007291	0	0		T	6027153	T	T	6027153	3	4	19	1	0	0	0	0	1	0	0	0	12162	536	19	1	1365	1	PMS2	7	6027153	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	335093	6027153	153111510	1185	14698											
USP42	84132	broad.mit.edu	37	chr7	6189299	6189299	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacgggaattccagtgtcaAcagggctagtcctgttaatg	11	11	11	8	1	1	0	1	0	0	0	3	1	3	1	2	2	2	2	2	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:6189299A>G	uc011jwo.1	+	13	1595	c.1472A>G	c.(1471-1473)AAC>AGC	p.N491S	USP42_uc010kth.1_Missense_Mutation_p.N424S|USP42_uc011jwp.1_Missense_Mutation_p.N491S|USP42_uc011jwq.1_Missense_Mutation_p.N298S|USP42_uc011jwr.1_Missense_Mutation_p.N336S	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	491					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		TCCAGTGTCAACAGGGCTAGT	0.443													11	132					0	0	0.003163	0	0		G	6189299	G	G	6189299	3	3	19	1	0	0	0	0	1	0	0	0	17099	43	2	3	1518	3	USP42	7	6189299	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	162146	6189299	152949364	1186	14699											
C7orf28B	221960	broad.mit.edu	37	chr7	6844665	6844665	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccagtcttcggcaaaaaTccaacgttgggtggacagag	11	9	12	9	2	1	1	0	0	1	1	4	2	3	2	2	3	1	2	2	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:6844665T>A	uc003sqx.1	-	12	1043	c.1010A>T	c.(1009-1011)GAT>GTT	p.D337V	C7orf28B_uc011jxd.1_Missense_Mutation_p.D194V	NM_198097	NP_932765	P86791	CCZ1_HUMAN	hypothetical protein LOC221960	337						lysosomal membrane					0		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)		TCGGCAAAAATCCAACGTTGG	0.453													34	99					0	0	0.01441	0	0		A	6844665	A	A	6844665	3	1	19	1	0	0	0	0	1	0	0	0	2387	1435	50	5	454	5	C7orf28B	7	6844665	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	655366	6844665	152293998	1187	14700											
DGKB	1607	broad.mit.edu	37	chr7	14733738	14733738	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaagaagtggaatcgttgTcattcctccttgaatccatt	11	13	7	10	1	1	2	1	1	0	1	5	3	4	3	3	1	0	1	3	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:14733738T>C	uc003ssz.2	-	8	860	c.673A>G	c.(673-675)ACA>GCA	p.T225A	DGKB_uc011jxt.1_Missense_Mutation_p.T218A|DGKB_uc003sta.2_Missense_Mutation_p.T225A|DGKB_uc011jxu.1_Missense_Mutation_p.T225A|DGKB_uc011jxv.1_Missense_Mutation_p.T225A	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	225	EF-hand 2.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	GGAATCGTTGTCATTCCTCCT	0.463													3	7					0	0	0.004672	0	0		C	14733738	C	C	14733738	3	2	19	1	0	0	0	0	1	0	0	0	4472	1667	58	3	1828	3	DGKB	7	14733738	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	7889073	14733738	144404925	1188	14701											
ISPD	729920	broad.mit.edu	37	chr7	16317832	16317832	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgtatccataactacacaAatctcttgggaaattctctc	12	14	4	11	0	3	0	0	0	3	0	7	1	4	1	1	1	2	1	1	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:16317832A>C	uc010ktx.2	-	6	855	c.855T>G	c.(853-855)ATT>ATG	p.I285M	ISPD_uc010kty.2_Missense_Mutation_p.I235M	NM_001101426	NP_001094896	A4D126	ISPD_HUMAN	notch1-induced protein isoform a	285					isoprenoid biosynthetic process		nucleotidyltransferase activity			ovary(1)	1						TAACTACACAAATCTCTTGGG	0.313										Multiple Myeloma(15;0.18)			2	8					0	0	0.004672	0	0		C	16317832	C	C	16317832	3	2	19	1	0	0	0	0	1	0	0	0	7880	10	1	5	520	5	ISPD	7	16317832	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1584094	16317832	142820831	1189	14702											
SNX13	23161	broad.mit.edu	37	chr7	17861218	17861218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcactgtttaggttgcgccGgtgtacagtgatggcatata	8	13	12	8	2	1	1	1	1	0	0	1	1	1	1	1	3	2	4	1	3	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:17861218G>A	uc003stw.1	-	18	2005	c.1792C>T	c.(1792-1794)CGG>TGG	p.R598W	SNX13_uc003stv.2_Missense_Mutation_p.R587W|SNX13_uc010kuc.2_Missense_Mutation_p.R384W|SNX13_uc010kub.2_5'UTR			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;	598	PX.				cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					AGGTTGCGCCGGTGTACAGTG	0.403													40	70					0	0	0.00623	0	0		A	17861218	A	A	17861218	3	1	19	1	0	0	0	0	1	0	0	0	14909	1115	39	1	1150	1	SNX13	7	17861218	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1543386	17861218	141277445	1190	14703											
ABCB5	340273	broad.mit.edu	37	chr7	20782592	20782592	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccgtggcttatccctcagTattgagcgaggaaagacagt	10	10	11	10	2	1	2	1	1	0	1	3	4	3	3	2	2	1	2	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:20782592T>C	uc003suw.3	+	16	2328	c.1782T>C	c.(1780-1782)AGT>AGC	p.S594S	ABCB5_uc010kuh.2_Silent_p.S1039S	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	594	Cytoplasmic (Potential).|ABC transporter 2.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						TATCCCTCAGTATTGAGCGAG	0.478													30	48					0	0	0.012213	0	0		C	20782592	C	C	20782592	2	2	19	1	0	0	0	0	0	0	0	1	44	1635	57	3		3	ABCB5	7	20782592	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2921374	20782592	138356071	1191	14704											
SP4	6671	broad.mit.edu	37	chr7	21469680	21469680	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggacttccaatgggaatcaAttagtttccacacccaccaa	13	9	7	12	0	1	0	1	0	0	0	3	2	3	2	4	2	0	1	4	2	5	3	rs138646408		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:21469680A>T	uc003sva.2	+	3	1078	c.897A>T	c.(895-897)CAA>CAT	p.Q299H	SP4_uc003svb.2_5'UTR	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	299					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						ATGGGAATCAATTAGTTTCCA	0.527													20	69					0	0	0.010504	0	0		T	21469680	T	T	21469680	3	4	19	1	0	0	0	0	1	0	0	0	14991	98	4	5	907	5	SP4	7	21469680	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	687088	21469680	137668983	1192	14705											
NUPL2	11097	broad.mit.edu	37	chr7	23224695	23224695	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgtttattttaggtaataAtagacgtggatggaatacaa	15	15	9	2	1	0	1	0	0	0	1	0	3	0	3	0	3	1	2	0	3	8	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:23224695A>G	uc003svu.2	+	2	387	c.128A>G	c.(127-129)AAT>AGT	p.N43S	NUPL2_uc003svv.2_RNA|NUPL2_uc003svw.2_Intron|NUPL2_uc011jyw.1_RNA|NUPL2_uc003svx.2_5'UTR	NM_007342	NP_031368	O15504	NUPL2_HUMAN	nucleoporin like 2	43					carbohydrate metabolic process|glucose transport|mRNA transport|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nuclear pore	nuclear export signal receptor activity|nucleic acid binding|zinc ion binding			skin(2)|ovary(1)	3						TTAGGTAATAATAGACGTGGA	0.279													17	28					0	0	0.008871	0	0		G	23224695	G	G	23224695	3	3	19	1	0	0	0	0	1	0	0	0	10794	101	4	3	134	3	NUPL2	7	23224695	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1755015	23224695	135913968	1193	14706											
GPNMB	10457	broad.mit.edu	37	chr7	23293054	23293054	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtggaagcggggagacAtgaggtggaaaaactcctgg	12	6	17	6	1	0	2	0	1	0	1	1	5	1	4	1	6	2	0	1	6	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:23293054A>G	uc003swc.2	+	2	360	c.199A>G	c.(199-201)ATG>GTG	p.M67V	GPNMB_uc003swa.2_Missense_Mutation_p.M67V|GPNMB_uc003swb.2_Missense_Mutation_p.M67V|GPNMB_uc011jyy.1_Missense_Mutation_p.M67V|GPNMB_uc011jyz.1_Intron	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	67	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			GCGGGGAGACATGAGGTGGAA	0.418													4	82					0	0	0.009096	0	0		G	23293054	G	G	23293054	3	3	19	1	0	0	0	0	1	0	0	0	6635	217	8	3	205	3	GPNMB	7	23293054	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	68359	23293054	135845609	1194	14707											
CPVL	54504	broad.mit.edu	37	chr7	29111511	29111511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtacaggaattctgcatagcCccctataatctgaggacaaa	14	9	8	10	0	2	1	0	1	2	0	2	3	2	3	2	2	3	2	2	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:29111511C>T	uc003szv.2	-	9	861	c.742G>A	c.(742-744)GGC>AGC	p.G248S	CPVL_uc003szw.2_Missense_Mutation_p.G248S|CPVL_uc003szx.2_Missense_Mutation_p.G248S	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	248					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						TCTGCATAGCCCCCTATAATC	0.408													30	79					0	0	0.010818	0	0		T	29111511	T	T	29111511	3	4	19	1	0	0	0	0	1	0	0	0	3838	623	22	4	708	4	CPVL	7	29111511	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5818457	29111511	130027152	1195	14708											
CPVL	54504	broad.mit.edu	37	chr7	29152370	29152370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgttgtaagtcttattcaCggtgaggaagccggcataac	10	11	12	8	2	2	1	1	1	1	0	2	2	2	2	1	3	2	4	1	3	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:29152370C>T	uc003szv.2	-	3	357	c.238G>A	c.(238-240)GTG>ATG	p.V80M	CPVL_uc003szw.2_Missense_Mutation_p.V80M|CPVL_uc003szx.2_Missense_Mutation_p.V80M	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	80					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						GTCTTATTCACGGTGAGGAAG	0.478													33	58					0	0	0.003755	0	0		T	29152370	T	T	29152370	3	4	19	1	0	0	0	0	1	0	0	0	3838	536	19	1	1236	1	CPVL	7	29152370	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	40859	29152370	129986293	1196	14709											
SCRN1	9805	broad.mit.edu	37	chr7	29994974	29994974	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtcgattgaaatgtaagtGcactgaaaaacaaacacagg	17	8	10	6	1	0	2	0	2	0	0	1	3	0	2	0	2	3	2	0	2	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:29994974G>A	uc010kvp.2	-	2	366	c.162C>T	c.(160-162)TGC>TGT	p.C54C	SCRN1_uc011jzy.1_5'UTR|SCRN1_uc003tak.2_Silent_p.C54C|SCRN1_uc011jzz.1_Silent_p.C54C|SCRN1_uc011kaa.1_Silent_p.C74C|SCRN1_uc011jzw.1_5'UTR|SCRN1_uc011jzx.1_Intron	NM_001145515	NP_001138987	Q12765	SCRN1_HUMAN	secernin 1 isoform c	54					exocytosis|proteolysis	cytoplasm|nuclear membrane	dipeptidase activity			ovary(2)	2						AAATGTAAGTGCACTGAAAAA	0.458													35	79					0	0	0.004878	0	0		A	29994974	A	A	29994974	2	1	19	1	0	0	0	0	0	0	0	1	13963	1311	46	2		2	SCRN1	7	29994974	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	842604	29994974	129143689	1197	14710											
NOD1	10392	broad.mit.edu	37	chr7	30492144	30492144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggagctgtcaggcacgcGgctcaggtccaagtccgagt	8	6	15	12	3	2	0	2	0	0	0	4	2	4	1	2	4	1	4	2	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:30492144G>A	uc003tav.2	-	6	1412	c.889C>T	c.(889-891)CGC>TGC	p.R297C	NOD1_uc010kvs.2_3'UTR	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	297	NACHT.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						TCAGGCACGCGGCTCAGGTCC	0.662													16	22					0	0	0.006122	0	0		A	30492144	A	A	30492144	3	1	19	1	0	0	0	0	1	0	0	0	10535	1116	39	1	2008	1	NOD1	7	30492144	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	497170	30492144	128646519	1198	14711											
ADCYAP1R1	117	broad.mit.edu	37	chr7	31126133	31126133	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaggagatacttctactggTacaccatcattggctggggt	11	11	11	8	0	2	1	1	0	1	1	2	2	2	1	1	5	3	2	1	5	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:31126133T>C	uc003tca.1	+	10	1028	c.805T>C	c.(805-807)TAC>CAC	p.Y269H	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.Y248H|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.Y269H|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.Y269H|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.Y269H|ADCYAP1R1_uc003tcf.1_5'Flank	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	269	Helical; Name=4; (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						CTTCTACTGGTACACCATCAT	0.532													8	44					0	0	0.008291	0	0		C	31126133	C	C	31126133	3	2	19	1	0	0	0	0	1	0	0	0	303	1638	57	3	839	3	ADCYAP1R1	7	31126133	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	633989	31126133	128012530	1199	14712											
PDE1C	5137	broad.mit.edu	37	chr7	31855637	31855637	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccattgacttgattcttagTttctccagacgtctttttct	6	20	5	10	1	4	3	0	2	4	1	6	3	5	3	2	0	0	1	2	0	1	7	rs141465381	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:31855637T>C	uc003tcm.1	-	15	2183	c.1714A>G	c.(1714-1716)ACT>GCT	p.T572A	PDE1C_uc003tcn.1_Missense_Mutation_p.T572A|PDE1C_uc003tco.1_Missense_Mutation_p.T632A|PDE1C_uc003tcr.2_Missense_Mutation_p.T572A|PDE1C_uc003tcs.2_Missense_Mutation_p.T572A	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	572					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			TGATTCTTAGTTTCTCCAGAC	0.502													9	401					0	0	0.008291	0	0		C	31855637	C	C	31855637	3	2	19	1	0	0	0	0	1	0	0	0	11654	1725	60	3	202	3	PDE1C	7	31855637	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	729504	31855637	127283026	1200	14713											
AOAH	313	broad.mit.edu	37	chr7	36713584	36713584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccaaacttgtcaatgactAaatagcaggtggttttcaag	14	12	8	7	0	2	1	2	1	0	0	3	1	3	1	1	2	2	2	1	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:36713584A>G	uc003tfh.3	-	3	655	c.254T>C	c.(253-255)TTA>TCA	p.L85S	AOAH_uc010kxf.2_Missense_Mutation_p.L85S|AOAH_uc011kba.1_Missense_Mutation_p.L53S	NM_001637	NP_001628	P28039	AOAH_HUMAN	acyloxyacyl hydrolase precursor	85	Saposin B-type.				inflammatory response|lipid metabolic process	extracellular region	acyloxyacyl hydrolase activity|lipoprotein lipase activity			skin(1)	1						GTCAATGACTAAATAGCAGGT	0.333													20	48					0	0	0.014323	0	0		G	36713584	G	G	36713584	3	3	19	1	0	0	0	0	1	0	0	0	726	372	13	3	1890	3	AOAH	7	36713584	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4857947	36713584	122425079	1201	14714											
AMPH	273	broad.mit.edu	37	chr7	38431519	38431519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccggaggagccgcgtcctCggtggtctccttgggctctg	2	9	16	14	4	2	0	0	0	2	0	5	2	3	2	4	5	1	1	4	5	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:38431519C>T	uc003tgu.2	-	19	1777	c.1708G>A	c.(1708-1710)GAG>AAG	p.E570K	AMPH_uc003tgv.2_Missense_Mutation_p.E528K|AMPH_uc003tgt.2_Missense_Mutation_p.E455K|AMPH_uc003tgw.1_Missense_Mutation_p.E593K|AMPH_uc010kxl.1_RNA	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	570					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						GCCGCGTCCTCGGTGGTCTCC	0.597													22	50					0	0	0.00333	0	0		T	38431519	T	T	38431519	3	4	19	1	0	0	0	0	1	0	0	0	588	893	31	1	391	1	AMPH	7	38431519	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1717935	38431519	120707144	1202	14715											
GLI3	2737	broad.mit.edu	37	chr7	42005485	42005485	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgggaggacagggggaCgagtggaagtttcgggactg	9	7	20	5	2	0	0	0	0	0	0	1	6	0	5	0	6	1	2	0	6	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:42005485C>T	uc011kbh.1	-	15	3277	c.3186G>A	c.(3184-3186)TCG>TCA	p.S1062S	GLI3_uc011kbg.1_Silent_p.S1003S	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1062					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GACAGGGGGACGAGTGGAAGT	0.642									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				35	48					0	0	0.009718	0	0		T	42005485	T	T	42005485	2	4	19	1	0	0	0	0	0	0	0	1	6454	523	19	1		1	GLI3	7	42005485	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3573966	42005485	117133178	1203	14716											
GLI3	2737	broad.mit.edu	37	chr7	42006006	42006006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggagtcggccacgctcaCgttctgcggccggccctcgg	4	7	15	15	6	2	0	1	0	1	0	4	1	2	1	3	5	1	3	3	5	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:42006006C>T	uc011kbh.1	-	15	2756	c.2665G>A	c.(2665-2667)GTG>ATG	p.V889M	GLI3_uc011kbg.1_Missense_Mutation_p.V830M	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	889					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GCCACGCTCACGTTCTGCGGC	0.721									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				10	18					0	0	0.013537	0	0		T	42006006	T	T	42006006	3	4	19	1	0	0	0	0	1	0	0	0	6454	536	19	1	2081	1	GLI3	7	42006006	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	521	42006006	117132657	1204	14717											
HECW1	23072	broad.mit.edu	37	chr7	43351483	43351483	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaccccgaccagttccacaAcatggacctcaggggcggcc	10	4	10	17	2	1	0	1	0	0	0	2	2	2	1	6	4	2	1	6	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:43351483A>G	uc003tid.1	+	4	754	c.149A>G	c.(148-150)AAC>AGC	p.N50S	HECW1_uc011kbi.1_Missense_Mutation_p.N50S|HECW1_uc003tie.1_Missense_Mutation_p.N82S	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	50					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CAGTTCCACAACATGGACCTC	0.647													18	54					0	0	0.010504	0	0		G	43351483	G	G	43351483	3	3	19	1	0	0	0	0	1	0	0	0	7058	43	2	3	155	3	HECW1	7	43351483	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1345477	43351483	115787180	1205	14718											
HECW1	23072	broad.mit.edu	37	chr7	43484721	43484721	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggcccaggatggcgacacGcaccccagcaccgggagcga	9	1	15	16	5	0	0	0	0	0	0	0	4	0	2	4	4	2	2	4	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:43484721G>A	uc003tid.1	+	11	2555	c.1950G>A	c.(1948-1950)ACG>ACA	p.T650T	HECW1_uc011kbi.1_Silent_p.T650T	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	650					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						ATGGCGACACGCACCCCAGCA	0.716													4	24					0	0	0.000602	0	0		A	43484721	A	A	43484721	2	1	19	1	0	0	0	0	0	0	0	1	7058	1074	38	1		1	HECW1	7	43484721	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	133238	43484721	115653942	1206	14719											
HECW1	23072	broad.mit.edu	37	chr7	43508576	43508576	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacatgattctgaaagtcCgacgggatgctcgcaatttt	11	11	10	9	3	1	2	0	2	1	0	3	4	2	3	1	1	2	3	1	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:43508576C>T	uc003tid.1	+	16	3576	c.2971C>T	c.(2971-2973)CGA>TGA	p.R991*	HECW1_uc011kbi.1_Nonsense_Mutation_p.R957*	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	991					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						TCTGAAAGTCCGACGGGATGC	0.547													5	89					0	0	0.000602	0	0		T	43508576	T	T	43508576	4	4	19	1	0	0	0	0	0	1	0	0	7058	644	23	1	3025	1	HECW1	7	43508576	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	23855	43508576	115630087	1207	14720											
BLVRA	644	broad.mit.edu	37	chr7	43840132	43840132	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctttcctgaaaaaagaagtgGtggggaaagacctgctgaaa	15	8	12	6	0	0	4	0	2	0	2	1	5	1	5	2	3	1	1	2	3	6	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:43840132G>A	uc003tir.2	+	6	504	c.421G>A	c.(421-423)GTG>ATG	p.V141M	BLVRA_uc010kxv.2_Missense_Mutation_p.V141M	NM_000712	NP_000703	P53004	BIEA_HUMAN	biliverdin reductase A precursor	141					heme catabolic process	cytosol	biliverdin reductase activity|zinc ion binding			ovary(1)	1					NADH(DB00157)	AAAAGAAGTGGTGGGGAAAGA	0.478													8	75					0	0	0.004482	0	0		A	43840132	A	A	43840132	3	1	19	1	0	0	0	0	1	0	0	0	1452	1261	44	4	439	4	BLVRA	7	43840132	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	331556	43840132	115298531	1208	14721											
ABCA13	154664	broad.mit.edu	37	chr7	48312524	48312524	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caatatatgagccaattcttCaacagttcagtagaagacct	15	11	6	9	0	3	3	2	1	1	2	3	3	3	3	2	0	2	2	2	0	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:48312524C>T	uc003toq.2	+	17	3286	c.3261C>T	c.(3259-3261)TTC>TTT	p.F1087F	ABCA13_uc010kyr.2_Silent_p.F590F	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1087					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GCCAATTCTTCAACAGTTCAG	0.343													7	13					0	0	0.00308	0	0		T	48312524	T	T	48312524	2	4	19	1	0	0	0	0	0	0	0	1	31	825	29	4		4	ABCA13	7	48312524	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4472392	48312524	110826139	1209	14722											
GUSB	2990	broad.mit.edu	37	chr7	65439552	65439552	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggacactcatcgatgaccAcaatcccatagcggtcacac	12	6	8	15	3	2	1	2	1	0	0	4	3	3	2	2	2	1	0	2	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:65439552A>G	uc003tun.2	-	7	1281	c.1205T>C	c.(1204-1206)GTG>GCG	p.V402A	GUSB_uc011kdt.1_Missense_Mutation_p.V256A	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	402					glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0						ATCGATGACCACAATCCCATA	0.627													5	110					0	0	0.000602	0	0		G	65439552	G	G	65439552	3	3	19	1	0	0	0	0	1	0	0	0	6918	159	6	3	774	3	GUSB	7	65439552	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	17127028	65439552	93699111	1210	14723											
TYW1B	441250	broad.mit.edu	37	chr7	72178733	72178733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtcattccttcttcaaagcGttctgctttgacgcccggta	6	14	8	13	4	4	1	2	1	2	0	5	1	5	1	2	1	2	3	2	1	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:72178733G>A	uc011kej.1	-	13	1375	c.1216C>T	c.(1216-1218)CGC>TGC	p.R406C	TYW1B_uc011keh.1_Missense_Mutation_p.R244C|TYW1B_uc011kei.1_Missense_Mutation_p.R32C	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform	406					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						TCTTCAAAGCGTTCTGCTTTG	0.463													9	18					0	0	0.004007	0	0		A	72178733	A	A	72178733	3	1	19	1	0	0	0	0	1	0	0	0	16845	1145	40	1	931	1	TYW1B	7	72178733	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	6739181	72178733	86959930	1211	14724											
GTF2IRD1	9569	broad.mit.edu	37	chr7	73933830	73933830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcacgggactgtggcctgCatggccaggcccccaaggtg	6	6	16	13	1	1	0	1	0	0	0	1	1	1	1	4	6	1	1	4	6	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:73933830C>T	uc003uaq.2	+	6	1090	c.697C>T	c.(697-699)CAT>TAT	p.H233Y	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.H265Y|GTF2IRD1_uc003uap.2_Missense_Mutation_p.H233Y|GTF2IRD1_uc003uar.1_Missense_Mutation_p.H233Y	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	233						nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CTGTGGCCTGCATGGCCAGGC	0.667													58	105					0	0	0.01441	0	0		T	73933830	T	T	73933830	3	4	19	1	0	0	0	0	1	0	0	0	6884	710	25	2	715	2	GTF2IRD1	7	73933830	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1755097	73933830	85204833	1212	14725											
GTF2IRD2B	389524	broad.mit.edu	37	chr7	74564312	74564312	+	Frame_Shift_Del	DEL	A	-	-																															ggatatgctcccggggactgAaccacagcgagttcacaacc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:74564312delA	uc003ubt.2	+	16	2274	c.2059delA	c.(2059-2061)AACfs	p.N687fs	GTF2IRD2B_uc010lcd.2_Frame_Shift_Del_p.N440fs|GTF2IRD2B_uc003ubu.2_Frame_Shift_Del_p.N517fs	NM_001003795	NP_001003795	Q6EKJ0	GTD2B_HUMAN	GTF2I repeat domain containing 2B	687					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ccggggactgaaccacagcga	0													5	3	---	---	---	---						.	-	74564312	-	-	74564312	7	5	19	1	0	1	0	1	0	0	0	0	6886	246	9	0	2117	0	GTF2IRD2B	7	74564312	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	630482	74564312	84574351	1213	14726											
POR	5447	broad.mit.edu	37	chr7	75613126	75613126	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtcaaccagctgggcaaaAtcctgggtgccgacctggac	9	7	12	13	2	1	0	1	0	0	0	3	2	2	1	4	3	3	2	4	3	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:75613126A>G	uc003udy.2	+	10	1100	c.1018A>G	c.(1018-1020)ATC>GTC	p.I340V	POR_uc011kgc.1_Missense_Mutation_p.I148V|POR_uc011kgd.1_Missense_Mutation_p.I239V|POR_uc011kge.1_Missense_Mutation_p.I78V|POR_uc003uea.2_5'Flank	NM_000941	NP_000932	P16435	NCPR_HUMAN	cytochrome P450 reductase	337	FAD-binding FR-type.				cellular organofluorine metabolic process|positive regulation of monooxygenase activity	endoplasmic reticulum membrane	iron ion binding|NADPH-hemoprotein reductase activity			central_nervous_system(1)	1					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Lipoic Acid(DB00166)|Menadione(DB00170)|Methoxyflurane(DB01028)|Mitomycin(DB00305)|Nilutamide(DB00665)	GCTGGGCAAAATCCTGGGTGC	0.637													8	23					0	0	0.004482	0	0		G	75613126	G	G	75613126	3	3	19	1	0	0	0	0	1	0	0	0	12276	101	4	3	1052	3	POR	7	75613126	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1048814	75613126	83525537	1214	14727											
POR	5447	broad.mit.edu	37	chr7	75614412	75614412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggtggaggcccggaggCacatcctggccatcctgcag	6	6	17	12	1	0	0	0	0	0	0	2	2	2	2	4	7	1	2	4	7	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:75614412C>T	uc003udy.2	+	12	1367	c.1285C>T	c.(1285-1287)CAC>TAC	p.H429Y	POR_uc011kgc.1_Missense_Mutation_p.H237Y|POR_uc011kgd.1_Missense_Mutation_p.H328Y|POR_uc011kge.1_Missense_Mutation_p.H167Y|POR_uc003uea.2_5'Flank	NM_000941	NP_000932	P16435	NCPR_HUMAN	cytochrome P450 reductase	426	FAD-binding FR-type.				cellular organofluorine metabolic process|positive regulation of monooxygenase activity	endoplasmic reticulum membrane	iron ion binding|NADPH-hemoprotein reductase activity			central_nervous_system(1)	1					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Lipoic Acid(DB00166)|Menadione(DB00170)|Methoxyflurane(DB01028)|Mitomycin(DB00305)|Nilutamide(DB00665)	GGCCCGGAGGCACATCCTGGC	0.682													18	38					0	0	0.00278	0	0		T	75614412	T	T	75614412	3	4	19	1	0	0	0	0	1	0	0	0	12276	710	25	2	1327	2	POR	7	75614412	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1286	75614412	83524251	1215	14728											
ZP3	7784	broad.mit.edu	37	chr7	76062948	76062948	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcctccccttatcacaccAtcgtggacttccatgggtga	8	11	8	14	1	1	1	1	1	0	0	4	2	3	2	5	2	1	0	5	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:76062948A>G	uc003ufd.3	+	4	707	c.697A>G	c.(697-699)ATC>GTC	p.I233V	ZP3_uc003ufc.3_Missense_Mutation_p.I182V|ZP3_uc003ufe.2_Missense_Mutation_p.I141V	NM_001110354	NP_001103824	P21754	ZP3_HUMAN	zona pellucida glycoprotein 3 isoform 1	233	Extracellular (Potential).|ZP.				binding of sperm to zona pellucida|blastocyst formation|egg coat formation|humoral immune response mediated by circulating immunoglobulin|intracellular protein transport|negative regulation of binding of sperm to zona pellucida|negative regulation of transcription, DNA-dependent|oocyte development|phosphatidylinositol-mediated signaling|positive regulation of acrosomal vesicle exocytosis|positive regulation of acrosome reaction|positive regulation of antral ovarian follicle growth|positive regulation of calcium ion import|positive regulation of calcium ion transport via store-operated calcium channel activity|positive regulation of humoral immune response|positive regulation of interferon-gamma production|positive regulation of interleukin-4 production|positive regulation of leukocyte migration|positive regulation of ovarian follicle development|positive regulation of phosphatidylinositol biosynthetic process|positive regulation of protein kinase activity|positive regulation of protein kinase B signaling cascade|positive regulation of T cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of type IV hypersensitivity|protein kinase C signaling cascade	endoplasmic reticulum|extracellular space|Golgi apparatus|integral to membrane|multivesicular body|outer acrosomal membrane|perinuclear region of cytoplasm|plasma membrane|proteinaceous extracellular matrix	acrosin binding|manganese ion transmembrane transporter activity|receptor activity|sugar binding				0						TTATCACACCATCGTGGACTT	0.522													5	144					0	0	0.001984	0	0		G	76062948	G	G	76062948	3	3	19	1	0	0	0	0	1	0	0	0	18242	217	8	3	711	3	ZP3	7	76062948	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	448536	76062948	83075715	1216	14729											
PTPN12	5782	broad.mit.edu	37	chr7	77210806	77210806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagattcagactatatcaatGcaaattttataaaggtatgt	17	14	6	4	0	2	2	2	0	0	2	2	2	2	2	0	1	1	2	0	1	9	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:77210806G>A	uc003ugh.2	+	3	362	c.271G>A	c.(271-273)GCA>ACA	p.A91T	PTPN12_uc011kgp.1_5'UTR|PTPN12_uc011kgq.1_5'UTR|PTPN12_uc010ldq.1_Intron|PTPN12_uc010ldr.1_Intron	NM_002835	NP_002826	Q05209	PTN12_HUMAN	protein tyrosine phosphatase, non-receptor type	91	Tyrosine-protein phosphatase.					soluble fraction	non-membrane spanning protein tyrosine phosphatase activity|SH3 domain binding			ovary(1)|breast(1)|pancreas(1)	3						CTATATCAATGCAAATTTTAT	0.289													6	27					0	0	0.001168	0	0		A	77210806	A	A	77210806	3	1	19	1	0	0	0	0	1	0	0	0	12804	1319	46	2	281	2	PTPN12	7	77210806	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1147858	77210806	81927857	1217	14730											
PHTF2	57157	broad.mit.edu	37	chr7	77567056	77567056	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctggctccatagttcccaCccaggattagaaaaaataag	14	8	7	12	0	0	1	0	0	0	1	2	2	2	2	4	2	0	2	4	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:77567056C>T	uc003ugs.3	+	12	1494	c.1368C>T	c.(1366-1368)CAC>CAT	p.H456H	PHTF2_uc003ugp.2_Silent_p.H418H|PHTF2_uc003ugq.3_Silent_p.H418H|PHTF2_uc010ldv.2_Silent_p.H418H|PHTF2_uc003ugt.3_Silent_p.H422H|PHTF2_uc003ugu.3_Silent_p.H418H|PHTF2_uc003ugv.2_Silent_p.H281H|PHTF2_uc010ldw.1_Intron	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	456					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						ATAGTTCCCACCCAGGATTAG	0.284													4	11					0	0	0.009096	0	0		T	77567056	T	T	77567056	2	4	19	1	0	0	0	0	0	0	0	1	11882	506	18	4		4	PHTF2	7	77567056	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	356250	77567056	81571607	1218	14731											
CD36	948	broad.mit.edu	37	chr7	80295776	80295776	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggaatctgtcctattgggAaagtcactgcgacatgatta	12	12	10	7	1	2	1	1	1	1	0	3	4	3	3	1	2	1	0	1	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:80295776A>G	uc003uhc.2	+	11	1403	c.719A>G	c.(718-720)GAA>GGA	p.E240G	CD36_uc003uhd.3_Missense_Mutation_p.E240G|CD36_uc011kgv.1_Missense_Mutation_p.E164G|CD36_uc003uhe.3_Missense_Mutation_p.E240G|CD36_uc003uhf.3_Missense_Mutation_p.E240G|CD36_uc003uhg.3_Missense_Mutation_p.E240G|CD36_uc003uhh.3_Missense_Mutation_p.E240G	NM_001127444	NP_001120916	P16671	CD36_HUMAN	CD36 antigen	240	Extracellular (Potential).				cell adhesion|cGMP-mediated signaling|cholesterol transport|lipid metabolic process|lipid storage|lipoprotein transport|low-density lipoprotein particle clearance|nitric oxide mediated signal transduction|plasma membrane long-chain fatty acid transport|platelet activation|platelet degranulation|positive regulation of cell-matrix adhesion|positive regulation of macrophage derived foam cell differentiation	integral to plasma membrane|membrane fraction|platelet alpha granule membrane	lipid binding|low-density lipoprotein receptor activity|thrombospondin receptor activity|transforming growth factor beta binding			ovary(1)	1						TCCTATTGGGAAAGTCACTGC	0.328													11	93					0	0	0.013537	0	0		G	80295776	G	G	80295776	3	3	19	1	0	0	0	0	1	0	0	0	3010	246	9	3	741	3	CD36	7	80295776	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2728720	80295776	78842887	1219	14732											
PCLO	27445	broad.mit.edu	37	chr7	82785212	82785212	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtacctggaggttgtgAtttaattttttctggttgtt	5	21	10	5	0	1	1	0	1	1	0	2	2	2	2	2	3	1	4	2	3	2	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:82785212A>T	uc003uhx.2	-	2	1034	c.745T>A	c.(745-747)TCA>ACA	p.S249T	PCLO_uc003uhv.2_Missense_Mutation_p.S249T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	249	Gln-rich.|Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GGAGGTTGTGATTTAATTTTT	0.488													12	55					0	0	0.013537	0	0		T	82785212	T	T	82785212	3	4	19	1	0	0	0	0	1	0	0	0	11602	333	12	5	14796	5	PCLO	7	82785212	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2489436	82785212	76353451	1220	14733											
SEMA3A	10371	broad.mit.edu	37	chr7	83758471	83758471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagcccacttgcattcatCtcttctggtgtaagatactg	8	14	7	12	0	3	1	1	0	2	1	5	1	4	1	2	1	3	2	2	1	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:83758471C>T	uc003uhz.2	-	3	616	c.301G>A	c.(301-303)GAT>AAT	p.D101N		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	101	Sema.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						TTGCATTCATCTCTTCTGGTG	0.289													19	140					0	0	0.007413	0	0		T	83758471	T	T	83758471	3	4	19	1	0	0	0	0	1	0	0	0	14049	913	32	4	2074	4	SEMA3A	7	83758471	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	973259	83758471	75380192	1221	14734											
GRM3	2913	broad.mit.edu	37	chr7	86416344	86416344	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgcagcgcaccctctgTcccaacactaccaagctttg	12	8	6	15	1	1	0	0	0	1	0	2	0	2	0	3	0	5	3	3	0	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:86416344T>C	uc003uid.2	+	3	2335	c.1236T>C	c.(1234-1236)TGT>TGC	p.C412C	GRM3_uc010lef.2_Silent_p.C410C|GRM3_uc010leg.2_Silent_p.C284C|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	412	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GCACCCTCTGTCCCAACACTA	0.488													65	129					0	0	0.01441	0	0		C	86416344	C	C	86416344	2	2	19	1	0	0	0	0	0	0	0	1	6814	1673	58	3		3	GRM3	7	86416344	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2657873	86416344	72722319	1222	14735											
ABCB1	5243	broad.mit.edu	37	chr7	87173466	87173466	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctataatctttgaaaatatTattgcaaatgctggttgcag	13	15	7	6	0	1	1	0	1	1	0	1	1	1	1	1	1	3	4	1	1	7	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:87173466T>C	uc003uiz.1	-	18	2608	c.2190A>G	c.(2188-2190)ATA>ATG	p.I730M	ABCB1_uc011khc.1_Missense_Mutation_p.I666M	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	730	ABC transmembrane type-1 2.|Helical; (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	TTGAAAATATTATTGCAAATG	0.358													4	85					0	0	0.001168	0	0		C	87173466	C	C	87173466	3	2	19	1	0	0	0	0	1	0	0	0	40	1744	61	3	1700	3	ABCB1	7	87173466	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	757122	87173466	71965197	1223	14736											
RUNDC3B	154661	broad.mit.edu	37	chr7	87258157	87258157	+	Frame_Shift_Del	DEL	G	-	-																															gccatggcctcccggagcctGgggggcctgagcgggatccg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:87258157delG	uc003ujb.2	+	1	429	c.18delG	c.(16-18)CTGfs	p.L6fs	ABCB1_uc003uiz.1_Intron|ABCB1_uc003uja.1_Intron|ABCB1_uc010lei.1_Intron|RUNDC3B_uc011khd.1_Frame_Shift_Del_p.L6fs|RUNDC3B_uc011khe.1_Frame_Shift_Del_p.L6fs|RUNDC3B_uc003ujc.2_Frame_Shift_Del_p.L6fs	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	6										skin(1)	1	Esophageal squamous(14;0.00164)					CCCGGAGCCTGGGGGGCCTGA	0.701													6	6	---	---	---	---						.	-	87258157	-	-	87258157	7	5	19	1	0	1	0	1	0	0	0	0	13770	1335	47	0	20	0	RUNDC3B	7	87258157	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	84691	87258157	71880506	1224	14737											
ADAM22	53616	broad.mit.edu	37	chr7	87780626	87780626	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagacaatgcaaatacattTgggggcaaagtaagtaaata	19	9	9	4	0	0	1	0	0	0	1	0	1	0	1	0	2	2	4	0	2	9	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:87780626T>C	uc003ujn.2	+	20	1751	c.1672T>C	c.(1672-1674)TGG>CGG	p.W558R	ADAM22_uc003ujk.1_Missense_Mutation_p.W558R|ADAM22_uc003ujl.1_Missense_Mutation_p.W558R|ADAM22_uc003ujm.2_Missense_Mutation_p.W558R|ADAM22_uc003ujo.2_Missense_Mutation_p.W558R|ADAM22_uc003ujp.1_Missense_Mutation_p.W610R	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	558	Cys-rich.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			CAAATACATTTGGGGGCAAAG	0.398													28	62					0	0	0.00632	0	0		C	87780626	C	C	87780626	3	2	19	1	0	0	0	0	1	0	0	0	244	1812	63	3	1750	3	ADAM22	7	87780626	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	522469	87780626	71358037	1225	14738											
C7orf63	79846	broad.mit.edu	37	chr7	89939383	89939383	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccttttgcctttttaggTgccctctggtggagtagtaa	6	17	10	8	0	1	0	0	0	1	0	1	1	1	1	3	3	3	2	3	3	4	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:89939383T>C	uc010lep.2	+	23	2908	c.2657T>C	c.(2656-2658)GTG>GCG	p.V886A	C7orf63_uc011khj.1_Missense_Mutation_p.V868A|C7orf63_uc011khk.1_Missense_Mutation_p.V402A	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	886							binding			ovary(1)	1						CCTTTTTAGGTGCCCTCTGGT	0.393													8	109					0	0	0.00308	0	0		C	89939383	C	C	89939383	3	2	19	1	0	0	0	0	1	0	0	0	2412	1710	59	3	2747	3	C7orf63	7	89939383	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2158757	89939383	69199280	1226	14739											
CLDN12	9069	broad.mit.edu	37	chr7	90042450	90042450	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctctccccatctatctggGtcatcttttataacatccat	8	15	4	14	0	5	0	1	0	4	0	7	0	6	0	4	1	1	0	4	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:90042450G>T	uc003ukp.2	+	5	1096	c.460G>T	c.(460-462)GTC>TTC	p.V154F	CLDN12_uc003ukq.2_Missense_Mutation_p.V154F|CLDN12_uc010leq.2_Missense_Mutation_p.V154F|CLDN12_uc003ukr.2_Missense_Mutation_p.V154F|CLDN12_uc003uks.2_Missense_Mutation_p.V154F	NM_012129	NP_036261	P56749	CLD12_HUMAN	claudin 12	154	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						ATCTATCTGGGTCATCTTTTA	0.473													59	167					1.1362e-29	1.21891e-29	0.01441	1	0		T	90042450	T	T	90042450	3	4	19	1	0	0	0	0	1	0	0	0	3477	1261	44	5	462	5	CLDN12	7	90042450	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	103067	90042450	69096213	1227	14740											
CDK14	5218	broad.mit.edu	37	chr7	90546964	90546964	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcttacatccaccagcgtTatattttgcacagagacctg	10	13	7	11	1	1	1	0	0	1	1	2	2	2	1	3	0	3	2	3	0	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:90546964T>C	uc003uky.2	+	8	973	c.751T>C	c.(751-753)TAT>CAT	p.Y251H	CDK14_uc003ukz.1_Missense_Mutation_p.Y233H|CDK14_uc010les.1_Missense_Mutation_p.Y205H|CDK14_uc011khl.1_Missense_Mutation_p.Y122H	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	251	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						CCACCAGCGTTATATTTTGCA	0.413													7	180					0	0	0.00308	0	0		C	90546964	C	C	90546964	3	2	19	1	0	0	0	0	1	0	0	0	3133	1754	61	3	723	3	CDK14	7	90546964	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	504514	90546964	68591699	1228	14741											
FZD1	8321	broad.mit.edu	37	chr7	90894774	90894774	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgctccctgtgcgagcgCgcgcgccagggctgcgaggc	3	5	17	16	7	0	0	0	0	0	0	1	2	1	0	3	2	4	2	3	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:90894774C>A	uc003ula.2	+	1	992	c.579C>A	c.(577-579)CGC>CGA	p.R193R		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	193	FZ.|Extracellular (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			TGTGCGAGCGCGCGCGCCAGG	0.662													4	69					3.09899e-07	3.21285e-07	0.004482	1	0		A	90894774	A	A	90894774	2	1	19	1	0	0	0	0	0	0	0	1	6142	755	27	5		5	FZD1	7	90894774	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	347810	90894774	68243889	1229	14742											
AKAP9	10142	broad.mit.edu	37	chr7	91736658	91736658	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctggtgggctggagttatAtggagaaccaagacatacta	12	11	12	6	0	1	2	0	0	1	2	1	4	1	3	1	4	2	2	1	4	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:91736658A>G	uc003ulg.2	+	48	11693	c.11468A>G	c.(11467-11469)TAT>TGT	p.Y3823C	AKAP9_uc003ulf.2_Missense_Mutation_p.Y3815C|AKAP9_uc003uli.2_Missense_Mutation_p.Y3446C|AKAP9_uc003ulj.2_Missense_Mutation_p.Y1593C|AKAP9_uc003ull.2_Missense_Mutation_p.Y719C	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3827					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CTGGAGTTATATGGAGAACCA	0.373			T	BRAF	papillary thyroid								58	138					0	0	0.01441	0	0		G	91736658	G	G	91736658	3	3	19	1	0	0	0	0	1	0	0	0	459	449	16	3	11658	3	AKAP9	7	91736658	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	841884	91736658	67402005	1230	14743											
ANKIB1	54467	broad.mit.edu	37	chr7	92027148	92027148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgactacacccctgccagtcGctctgaaaaccaggactctc	10	8	7	16	1	2	2	0	2	2	0	4	3	2	3	4	1	3	1	4	1	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:92027148G>A	uc003ulw.2	+	19	2883	c.2507G>A	c.(2506-2508)CGC>CAC	p.R836H	ANKIB1_uc010lew.1_Missense_Mutation_p.R105H	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	836							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CCTGCCAGTCGCTCTGAAAAC	0.537													7	219					0	0	0.00308	0	0		A	92027148	A	A	92027148	3	1	19	1	0	0	0	0	1	0	0	0	630	1087	38	1	2577	1	ANKIB1	7	92027148	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	290490	92027148	67111515	1231	14744											
SAMD9	54809	broad.mit.edu	37	chr7	92732009	92732009	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttcctccgttttcctctatCcaccatcttattttactttt	5	22	1	13	1	2	0	0	0	2	0	6	0	6	0	5	0	1	1	5	0	3	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:92732009C>T	uc003umf.2	-	3	3658	c.3402G>A	c.(3400-3402)TGG>TGA	p.W1134*	SAMD9_uc003umg.2_Nonsense_Mutation_p.W1134*	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1134						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			TTTCCTCTATCCACCATCTTA	0.373													62	136					0	0	0.01441	0	0		T	92732009	T	T	92732009	4	4	19	1	0	0	0	0	0	1	0	0	13851	856	30	4	1371	4	SAMD9	7	92732009	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	704861	92732009	66406654	1232	14745											
SAMD9L	219285	broad.mit.edu	37	chr7	92761452	92761452	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgggtatacctcattttcAgaagaaccatataatcaata	15	14	5	7	0	3	2	3	0	0	2	3	2	3	2	2	1	2	1	2	1	8	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:92761452A>G	uc003umh.1	-	5	5049	c.3833T>C	c.(3832-3834)CTG>CCG	p.L1278P	SAMD9L_uc003umj.1_Missense_Mutation_p.L1278P|SAMD9L_uc003umi.1_Missense_Mutation_p.L1278P|SAMD9L_uc010lfb.1_Missense_Mutation_p.L1278P|SAMD9L_uc003umk.1_Missense_Mutation_p.L1278P|SAMD9L_uc010lfc.1_Missense_Mutation_p.L1278P|SAMD9L_uc010lfd.1_Missense_Mutation_p.L1278P|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1278										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			CCTCATTTTCAGAAGAACCAT	0.328													29	70					0	0	0.005443	0	0		G	92761452	G	G	92761452	3	3	19	1	0	0	0	0	1	0	0	0	13852	188	7	3	925	3	SAMD9L	7	92761452	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	29443	92761452	66377211	1233	14746											
SAMD9L	219285	broad.mit.edu	37	chr7	92763789	92763789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcaggtctgatctgccgTtgcagaaaatccagctgggc	8	12	11	10	1	3	2	1	1	2	1	4	2	4	2	2	2	3	3	2	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:92763789T>C	uc003umh.1	-	5	2712	c.1496A>G	c.(1495-1497)AAC>AGC	p.N499S	SAMD9L_uc003umj.1_Missense_Mutation_p.N499S|SAMD9L_uc003umi.1_Missense_Mutation_p.N499S|SAMD9L_uc010lfb.1_Missense_Mutation_p.N499S|SAMD9L_uc003umk.1_Missense_Mutation_p.N499S|SAMD9L_uc010lfc.1_Missense_Mutation_p.N499S|SAMD9L_uc010lfd.1_Missense_Mutation_p.N499S|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	499										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			TGATCTGCCGTTGCAGAAAAT	0.388													68	156					0	0	0.01441	0	0		C	92763789	C	C	92763789	3	2	19	1	0	0	0	0	1	0	0	0	13852	1725	60	3	3262	3	SAMD9L	7	92763789	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2337	92763789	66374874	1234	14747											
COL1A2	1278	broad.mit.edu	37	chr7	94057063	94057063	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaccttctctcagacccaAggactatgaagttgatgcta	12	10	8	11	0	2	3	1	2	1	1	3	4	2	4	2	1	2	3	2	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:94057063A>C	uc003ung.1	+	49	3863	c.3392A>C	c.(3391-3393)AAG>ACG	p.K1131T	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1131					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CTCAGACCCAAGGACTATGAA	0.517										HNSCC(75;0.22)			27	70					0	0	0.005443	0	0		C	94057063	C	C	94057063	3	2	19	1	0	0	0	0	1	0	0	0	3681	72	3	5	3586	5	COL1A2	7	94057063	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1293274	94057063	65081600	1235	14748											
SLC25A13	10165	broad.mit.edu	37	chr7	95751045	95751045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccaaactggggtgaggatCgaaatacacgagctttaaaa	16	7	10	8	2	0	1	0	1	0	0	1	4	0	2	1	3	3	1	1	3	5	3	rs121908532		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:95751045C>T	uc003uof.3	-	17	1954	c.1763G>A	c.(1762-1764)CGA>CAA	p.R588Q	SLC25A13_uc003uog.3_Missense_Mutation_p.R589Q|SLC25A13_uc011kik.1_Missense_Mutation_p.R480Q	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	588	Solcar 3.|Helical; Name=6; (Potential).				ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	GGGTGAGGATCGAAATACACG	0.338													50	147					0	0	0.01441	0	0		T	95751045	T	T	95751045	3	4	19	1	0	0	0	0	1	0	0	0	14500	884	31	1	272	1	SLC25A13	7	95751045	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1693982	95751045	63387618	1236	14749											
SLC25A13	10165	broad.mit.edu	37	chr7	95864143	95864143	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcctttgccagctttgTcaaacagctgaaaggctacc	9	12	7	13	0	2	1	1	1	1	0	3	1	2	1	3	1	5	3	3	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:95864143T>C	uc003uof.3	-	4	490	c.299A>G	c.(298-300)GAC>GGC	p.D100G	SLC25A13_uc003uog.3_Missense_Mutation_p.D100G|SLC25A13_uc011kik.1_Intron	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	100	EF-hand 2.|2.				ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	GCCAGCTTTGTCAAACAGCTG	0.383													9	57					0	0	0.004482	0	0		C	95864143	C	C	95864143	3	2	19	1	0	0	0	0	1	0	0	0	14500	1667	58	3	1791	3	SLC25A13	7	95864143	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	113098	95864143	63274520	1237	14750											
TECPR1	25851	broad.mit.edu	37	chr7	97866138	97866138	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccggtcacactctcgggcCgcgatgatggctttccaggt	6	9	13	13	4	2	1	1	1	1	0	4	3	3	1	3	4	0	1	3	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:97866138C>T	uc003upg.2	-	10	1336	c.1131G>A	c.(1129-1131)GCG>GCA	p.A377A	TECPR1_uc003uph.1_Silent_p.A307A	NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	377						integral to membrane	protein binding			pancreas(1)	1						ACTCTCGGGCCGCGATGATGG	0.647													3	7					0	0	0.004672	0	0		T	97866138	T	T	97866138	2	4	19	1	0	0	0	0	0	0	0	1	15768	639	23	1		1	TECPR1	7	97866138	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2001995	97866138	61272525	1238	14751											
TRRAP	8295	broad.mit.edu	37	chr7	98552728	98552728	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctgttttaggtttttcAtagtctcctcaaggctcacg	6	17	7	11	1	4	0	3	0	1	0	6	0	5	0	2	2	0	3	2	2	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:98552728A>G	uc003upp.2	+	40	5926	c.5717A>G	c.(5716-5718)CAT>CGT	p.H1906R	TRRAP_uc011kis.1_Missense_Mutation_p.H1888R|TRRAP_uc003upr.2_Missense_Mutation_p.H1605R	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1906					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TAGGTTTTTCATAGTCTCCTC	0.517													3	42					0	0	0.000602	0	0		G	98552728	G	G	98552728	3	3	19	1	0	0	0	0	1	0	0	0	16627	217	8	3	5813	3	TRRAP	7	98552728	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	686590	98552728	60585935	1239	14752											
TRRAP	8295	broad.mit.edu	37	chr7	98589802	98589802	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtctactttcccatccggAccctgtacctgaccctgaaa	8	10	7	16	2	1	2	0	2	1	0	3	3	3	3	5	2	2	1	5	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:98589802A>G	uc003upp.2	+	64	10020	c.9811A>G	c.(9811-9813)ACC>GCC	p.T3271A	TRRAP_uc011kis.1_Missense_Mutation_p.T3242A|TRRAP_uc003upr.2_Missense_Mutation_p.T2959A	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3271	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TCCCATCCGGACCCTGTACCT	0.567													129	275					0	0	0.01441	0	0		G	98589802	G	G	98589802	3	3	19	1	0	0	0	0	1	0	0	0	16627	275	10	3	9970	3	TRRAP	7	98589802	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	37074	98589802	60548861	1240	14753											
ARPC1A	10552	broad.mit.edu	37	chr7	98957253	98957253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttagatattccaaaacagaGcatccaacgcaacatgtctg	15	9	7	10	1	1	2	0	0	1	2	3	2	3	2	2	0	4	3	2	0	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:98957253G>A	uc003upx.1	+	8	1022	c.875G>A	c.(874-876)AGC>AAC	p.S292N	ARPC1A_uc010lfu.1_RNA|ARPC1A_uc003upy.1_Missense_Mutation_p.S278N|ARPC1A_uc011kit.1_RNA	NM_006409	NP_006400	Q92747	ARC1A_HUMAN	actin related protein 2/3 complex subunit 1A	292					actin cytoskeleton organization|regulation of actin filament polymerization	actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	all_cancers(62;4.46e-09)|all_epithelial(64;3.44e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0258)		STAD - Stomach adenocarcinoma(171;0.215)			CCAAAACAGAGCATCCAACGC	0.527													35	64					0	0	0.003755	0	0		A	98957253	A	A	98957253	3	1	19	1	0	0	0	0	1	0	0	0	970	971	34	2	901	2	ARPC1A	7	98957253	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	367451	98957253	60181410	1241	14754											
CPSF4	10898	broad.mit.edu	37	chr7	99042427	99042427	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagagtcgggcgctgctgTctgtgaattctttttgaaag	8	14	12	7	2	2	3	0	2	2	1	3	3	2	3	0	1	2	2	0	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:99042427T>C	uc003uqj.2	+	2	262	c.119T>C	c.(118-120)GTC>GCC	p.V40A	PTCD1_uc011kiw.1_Intron|CPSF4_uc003uqi.2_Missense_Mutation_p.V40A|CPSF4_uc003uqk.2_Missense_Mutation_p.V40A|CPSF4_uc011kix.1_5'UTR	NM_006693	NP_006684	O95639	CPSF4_HUMAN	cleavage and polyadenylation specific factor 4,	40	C3H1-type 1.				modification by virus of host mRNA processing|mRNA processing|viral infectious cycle	mRNA cleavage and polyadenylation specificity factor complex	RNA binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					GGCGCTGCTGTCTGTGAATTC	0.542													97	352					0	0	0.01441	0	0		C	99042427	C	C	99042427	3	2	19	1	0	0	0	0	1	0	0	0	3831	1667	58	3	125	3	CPSF4	7	99042427	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	85174	99042427	60096236	1242	14755											
ZNF498	221785	broad.mit.edu	37	chr7	99219142	99219142	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggtccagacccaggtacCgaggagcagctcagtcagga	12	4	13	12	1	2	1	2	0	0	1	3	4	3	3	3	4	3	3	3	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:99219142C>T	uc003url.1	+	5	861	c.534C>T	c.(532-534)ACC>ACT	p.T178T	ZNF498_uc003urm.1_Silent_p.T14T|ZNF498_uc010lge.1_Silent_p.T14T|ZNF498_uc003urn.2_RNA|ZNF498_uc010lgf.1_Silent_p.T178T|ZNF498_uc003uro.1_5'UTR	NM_145115	NP_660090	Q6NSZ9	ZN498_HUMAN	zinc finger and SCAN domain containing 25	178					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_epithelial(64;1.95e-08)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					ACCCAGGTACCGAGGAGCAGC	0.607													15	32					0	0	0.003163	0	0		T	99219142	T	T	99219142	2	4	19	1	0	0	0	0	0	0	0	1	17972	639	23	1		1	ZNF498	7	99219142	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	176715	99219142	59919521	1243	14756											
CYP3A7	1551	broad.mit.edu	37	chr7	99305499	99305499	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactagagcaagtttcatgTtcacgagagcaaacctcatg	13	10	9	9	1	3	3	3	1	0	2	3	4	3	3	1	0	3	4	1	0	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:99305499T>C	uc003uru.2	-	12	1457	c.1352A>G	c.(1351-1353)AAC>AGC	p.N451S	ZNF498_uc003urn.2_RNA|CYP3A5_uc003urs.2_Intron|CYP3A5_uc010lgg.2_Intron	NM_000765	NP_000756	P24462	CP3A7_HUMAN	cytochrome P450, family 3, subfamily A,	451					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)	1	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)					AAGTTTCATGTTCACGAGAGC	0.383													25	232					0	0	0.005443	0	0		C	99305499	C	C	99305499	3	2	19	1	0	0	0	0	1	0	0	0	4184	1725	60	3	167	3	CYP3A7	7	99305499	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	86357	99305499	59833164	1244	14757											
TAF6	6878	broad.mit.edu	37	chr7	99705994	99705994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccggccacggacctgcGtgatggtcagagtggtcctg	6	7	14	14	3	1	2	1	1	0	1	2	3	2	3	5	4	1	0	5	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:99705994G>A	uc003uti.2	-	13	1535	c.1454C>T	c.(1453-1455)ACG>ATG	p.T485M	AP4M1_uc003utd.2_Intron|TAF6_uc003utg.2_Missense_Mutation_p.T407M|TAF6_uc003uth.2_Missense_Mutation_p.T542M|TAF6_uc003utk.2_Missense_Mutation_p.T485M|TAF6_uc011kji.1_Missense_Mutation_p.T522M|TAF6_uc003utj.2_Missense_Mutation_p.T475M|TAF6_uc003utl.2_Intron|TAF6_uc003utm.2_Missense_Mutation_p.T485M	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha	485					negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					ACGGACCTGCGTGATGGTCAG	0.642													39	54					0	0	0.005524	0	0		A	99705994	A	A	99705994	3	1	19	1	0	0	0	0	1	0	0	0	15555	1145	40	1	591	1	TAF6	7	99705994	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	400495	99705994	59432669	1245	14758											
GAL3ST4	79690	broad.mit.edu	37	chr7	99757831	99757831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcggcgagcccggagctcgGccacagctgtctgcagccgg	5	5	15	16	5	1	0	0	0	1	0	3	2	1	1	3	4	5	3	3	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:99757831G>A	uc003utt.2	-	3	2198	c.1181C>T	c.(1180-1182)GCC>GTC	p.A394V	C7orf43_uc010lgp.2_5'Flank|C7orf43_uc011kjj.1_5'Flank|C7orf43_uc003utr.2_5'Flank|C7orf43_uc003uts.2_5'Flank|GAL3ST4_uc003utu.2_Missense_Mutation_p.A394V|GAL3ST4_uc010lgq.2_Missense_Mutation_p.A332V	NM_024637	NP_078913	Q96RP7	G3ST4_HUMAN	galactose-3-O-sulfotransferase 4	394	Lumenal (Potential).				cell-cell signaling|oligosaccharide metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane|membrane fraction	3'-phosphoadenosine 5'-phosphosulfate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(3)	3	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CCGGAGCTCGGCCACAGCTGT	0.612													8	104					0	0	0.004482	0	0		A	99757831	A	A	99757831	3	1	19	1	0	0	0	0	1	0	0	0	6215	1203	42	2	283	2	GAL3ST4	7	99757831	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	51837	99757831	59380832	1246	14759											
AGFG2	3268	broad.mit.edu	37	chr7	100160555	100160555	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccaacccgttccagcccaAtggcttggcgccaggtaagc	9	6	10	16	2	0	0	0	0	0	0	1	0	1	0	5	3	3	3	5	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:100160555A>C	uc003uvf.2	+	9	1293	c.1157A>C	c.(1156-1158)AAT>ACT	p.N386T	AGFG2_uc010lgy.2_Intron	NM_006076	NP_006067	O95081	AGFG2_HUMAN	ArfGAP with FG repeats 2	386	Pro-rich.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			central_nervous_system(1)	1						TTCCAGCCCAATGGCTTGGCG	0.602													10	36					0	0	0.006214	0	0		C	100160555	C	C	100160555	3	2	19	1	0	0	0	0	1	0	0	0	381	101	4	5	1191	5	AGFG2	7	100160555	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	402724	100160555	58978108	1247	14760											
LRCH4	4034	broad.mit.edu	37	chr7	100172795	100172795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaccacgtagaagacgaCgaagccgcccagaccagagg	14	1	14	12	4	0	4	0	0	0	4	0	8	0	5	4	2	1	1	4	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:100172795C>T	uc003uvj.2	-	18	2040	c.1987G>A	c.(1987-1989)GTC>ATC	p.V663I	uc003uvh.2_5'Flank|LRCH4_uc010lgz.2_RNA|LRCH4_uc003uvi.2_RNA|LRCH4_uc011kjw.1_3'UTR	NM_002319	NP_002310	O75427	LRCH4_HUMAN	leucine-rich repeats and calponin homology (CH)	663					nervous system development	PML body	protein binding			large_intestine(1)|ovary(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TAGAAGACGACGAAGCCGCCC	0.682													5	23					0	0	0.00308	0	0		T	100172795	T	T	100172795	3	4	19	1	0	0	0	0	1	0	0	0	8953	536	19	1	68	1	LRCH4	7	100172795	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	12240	100172795	58965868	1248	14761											
TFR2	7036	broad.mit.edu	37	chr7	100218519	100218519	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccagacatccccgctaagCgcattggctgccccttgcag	7	9	9	16	2	0	1	0	0	0	1	2	1	2	1	5	1	3	4	5	1	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:100218519C>T	uc003uvv.1	-	18	2408	c.2367G>A	c.(2365-2367)GCG>GCA	p.A789A	TFR2_uc010lhc.1_Silent_p.A330A|TFR2_uc003uvu.1_Silent_p.A618A	NM_003227	NP_003218	Q9UP52	TFR2_HUMAN	transferrin receptor 2	789	Extracellular (Potential).				cellular iron ion homeostasis|iron ion transport|proteolysis	cytoplasm|integral to plasma membrane	peptidase activity|transferrin receptor activity			ovary(1)|pancreas(1)	2	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					CCCCGCTAAGCGCATTGGCTG	0.632													14	41					0	0	0.006122	0	0		T	100218519	T	T	100218519	2	4	19	1	0	0	0	0	0	0	0	1	15836	755	27	1		1	TFR2	7	100218519	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	45724	100218519	58920144	1249	14762											
GIGYF1	64599	broad.mit.edu	37	chr7	100285025	100285025	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcagctgtcaccacggccGcggcctagagaagaggccag	11	3	14	13	3	1	2	1	0	0	2	1	3	1	2	4	3	2	2	4	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:100285025G>A	uc003uwg.1	-	5	1387	c.378C>T	c.(376-378)CGC>CGT	p.R126R		NM_022574	NP_072096	O75420	PERQ1_HUMAN	PERQ amino acid rich, with GYF domain 1	126										large_intestine(1)|central_nervous_system(1)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					CACCACGGCCGCGGCCTAGAG	0.612													70	158					0	0	0.01441	0	0		A	100285025	A	A	100285025	2	1	19	1	0	0	0	0	0	0	0	1	6392	1074	38	1		1	GIGYF1	7	100285025	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	66506	100285025	58853638	1250	14763											
ZAN	7455	broad.mit.edu	37	chr7	100352870	100352870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgctgccctccaaatgcccGctacgaatcctgtgcttgtc	6	10	9	16	3	0	0	0	0	0	0	3	1	2	0	4	0	4	3	4	0	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:100352870G>A	uc003uwj.2	+	15	3311	c.3146G>A	c.(3145-3147)CGC>CAC	p.R1049H	ZAN_uc003uwk.2_Missense_Mutation_p.R1049H|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1049	TIL 1.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CCAAATGCCCGCTACGAATCC	0.572													65	162					0	0	0.01441	0	0		A	100352870	A	A	100352870	3	1	19	1	0	0	0	0	1	0	0	0	17539	1087	38	1	3200	1	ZAN	7	100352870	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	67845	100352870	58785793	1251	14764											
EPHB4	2050	broad.mit.edu	37	chr7	100414922	100414922	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccccgcttcagcccccgcaGctctgcccggttttctgacg	3	10	9	19	4	3	1	1	1	2	0	4	1	4	1	5	1	3	4	5	1	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:100414922G>A	uc003uwn.1	-	8	1971	c.1480C>T	c.(1480-1482)CTG>TTG	p.L494L	EPHB4_uc003uwm.1_Silent_p.L401L|EPHB4_uc010lhj.1_Silent_p.L494L|EPHB4_uc011kkf.1_Silent_p.L494L|EPHB4_uc011kkg.1_Missense_Mutation_p.A289V	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	494	Extracellular (Potential).|Fibronectin type-III 2.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					AGCCCCCGCAGCTCTGCCCGG	0.692													6	12					0	0	0.004482	0	0		A	100414922	A	A	100414922	2	1	19	1	0	0	0	0	0	0	0	1	5185	962	34	2		2	EPHB4	7	100414922	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	62052	100414922	58723741	1252	14765											
ZNHIT1	10467	broad.mit.edu	37	chr7	100866977	100866977	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgagtgtggccgagggcccTaactacctgacggcctgtgc	6	9	14	12	2	0	2	0	2	0	0	0	3	0	2	4	3	3	0	4	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:100866977T>C	uc003uye.2	+	4	789	c.297T>C	c.(295-297)CCT>CCC	p.P99P	ZNHIT1_uc003uyf.2_RNA	NM_006349	NP_006340	O43257	ZNHI1_HUMAN	zinc finger, HIT domain containing 1	99							metal ion binding|protein binding			large_intestine(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					CCGAGGGCCCTAACTACCTGA	0.677													27	66					0	0	0.008361	0	0		C	100866977	C	C	100866977	2	2	19	1	0	0	0	0	0	0	0	1	18231	1509	53	3		3	ZNHIT1	7	100866977	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	452055	100866977	58271686	1253	14766											
DNAJC2	27000	broad.mit.edu	37	chr7	102962467	102962467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgccagcaatgcttgctgtCtgacttcctcctcttctttc	4	17	6	14	0	3	1	0	1	3	0	6	1	5	1	3	0	4	3	3	0	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:102962467C>T	uc003vbo.2	-	10	1246	c.995G>A	c.(994-996)AGA>AAA	p.R332K	PMPCB_uc011kll.1_Intron|DNAJC2_uc003vbn.2_5'UTR|DNAJC2_uc010lix.2_Missense_Mutation_p.R332K|DNAJC2_uc003vbp.2_5'UTR	NM_014377	NP_055192	Q99543	DNJC2_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 2	332					'de novo' cotranslational protein folding|chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane	chromatin binding|DNA binding|histone binding|Hsp70 protein binding|ubiquitin binding			kidney(1)	1						TGCTTGCTGTCTGACTTCCTC	0.378													10	124					0	0	0.006214	0	0		T	102962467	T	T	102962467	3	4	19	1	0	0	0	0	1	0	0	0	4645	913	32	4	902	4	DNAJC2	7	102962467	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2095490	102962467	56176196	1254	14767											
MLL5	55904	broad.mit.edu	37	chr7	104707214	104707214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatggggattgataggcagCatattcctgatacatatcta	12	12	10	7	0	1	2	0	2	1	0	2	3	2	3	1	3	2	3	1	3	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:104707214C>T	uc003vcm.2	+	6	991	c.457C>T	c.(457-459)CAT>TAT	p.H153Y	MLL5_uc010lja.1_Missense_Mutation_p.H7Y|MLL5_uc010ljb.1_Missense_Mutation_p.H153Y|MLL5_uc003vcl.2_Missense_Mutation_p.H153Y|MLL5_uc010ljc.2_Missense_Mutation_p.H153Y	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	153	PHD-type.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						TGATAGGCAGCATATTCCTGA	0.323													22	145					0	0	0.004656	0	0		T	104707214	T	T	104707214	3	4	19	1	0	0	0	0	1	0	0	0	9642	710	25	2	471	2	MLL5	7	104707214	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1744747	104707214	54431449	1255	14768											
PIK3CG	5294	broad.mit.edu	37	chr7	106513320	106513320	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtccaagtaatcgagatgTtacaaaaagtcacccttgat	16	10	7	8	1	1	2	1	1	0	1	3	3	2	2	2	0	1	2	2	0	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:106513320T>C	uc003vdv.3	+	4	2309	c.2224T>C	c.(2224-2226)TTA>CTA	p.L742L	PIK3CG_uc003vdu.2_Silent_p.L742L|PIK3CG_uc003vdw.2_Silent_p.L742L	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	742					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						AATCGAGATGTTACAAAAAGT	0.453													42	73					0	0	0.006999	0	0		C	106513320	C	C	106513320	2	2	19	1	0	0	0	0	0	0	0	1	11935	1722	60	3		3	PIK3CG	7	106513320	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1806106	106513320	52625343	1256	14769											
COG5	10466	broad.mit.edu	37	chr7	106964925	106964925	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagaagaaagtgcctgagtAactgaattccaaaatgtgta	16	10	10	5	0	0	4	0	3	0	2	1	5	1	4	2	0	2	2	2	0	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:106964925A>G	uc003ved.2	-	11	1686	c.1161T>C	c.(1159-1161)GTT>GTC	p.V387V	COG5_uc003vec.2_Silent_p.V387V|COG5_uc003vee.2_Silent_p.V387V	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	387					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						GTGCCTGAGTAACTGAATTCC	0.249													3	86					0	0	0.000602	0	0		G	106964925	G	G	106964925	2	3	19	1	0	0	0	0	0	0	0	1	3664	349	13	3		3	COG5	7	106964925	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	451605	106964925	52173738	1257	14770											
GPR22	2845	broad.mit.edu	37	chr7	107114677	107114677	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattgtgttgggacttggcAgcaacctcactgtattggta	10	13	11	7	0	1	0	1	0	0	0	1	1	1	1	1	3	2	5	1	3	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:107114677A>G	uc003vef.2	+	3	1518	c.172A>G	c.(172-174)AGC>GGC	p.S58G	COG5_uc003vec.2_Intron|COG5_uc003ved.2_Intron|COG5_uc003vee.2_Intron	NM_005295	NP_005286	Q99680	GPR22_HUMAN	G protein-coupled receptor 22	58	Helical; Name=1; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(2)	2						GGGACTTGGCAGCAACCTCAC	0.358													19	159					0	0	0.007413	0	0		G	107114677	G	G	107114677	3	3	19	1	0	0	0	0	1	0	0	0	6697	188	7	3	174	3	GPR22	7	107114677	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	149752	107114677	52023986	1258	14771											
C7orf60	154743	broad.mit.edu	37	chr7	112535788	112535788	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccattttggaaatattctctGcatacactacaagtaaaaat	16	13	4	8	0	1	0	0	0	1	0	2	1	1	1	1	1	3	2	1	1	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:112535788G>A	uc003vgo.1	-	3	436	c.309C>T	c.(307-309)TGC>TGT	p.C103C	C7orf60_uc011kms.1_Silent_p.C129C	NM_152556	NP_689769	Q1RMZ1	CG060_HUMAN	hypothetical protein LOC154743	103										ovary(2)|skin(1)	3						AATATTCTCTGCATACACTAC	0.338													4	61					0	0	0.009096	0	0		A	112535788	A	A	112535788	2	1	19	1	0	0	0	0	0	0	0	1	2410	1311	46	2		2	C7orf60	7	112535788	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	5421111	112535788	46602875	1259	14772											
PPP1R3A	5506	broad.mit.edu	37	chr7	113558625	113558625	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaactcgaataataccctTgatacttgtagacccaagaa	17	9	5	10	1	0	3	0	1	0	2	1	4	0	3	2	0	3	1	2	0	9	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:113558625T>C	uc010ljy.1	-	1	458	c.427A>G	c.(427-429)AAG>GAG	p.K143E		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	143	CBM21.				glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						ATAATACCCTTGATACTTGTA	0.348													27	75					0	0	0.00632	0	0		C	113558625	C	C	113558625	3	2	19	1	0	0	0	0	1	0	0	0	12393	1821	63	3	2957	3	PPP1R3A	7	113558625	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1022837	113558625	45580038	1260	14773											
CAV1	857	broad.mit.edu	37	chr7	116199315	116199315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaatattcagcaatgtcCgcatcaacttgcagaaagaa	17	8	8	8	1	2	2	2	0	0	2	3	3	3	3	1	1	3	3	1	1	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:116199315C>T	uc003vif.1	+	3	789	c.511C>T	c.(511-513)CGC>TGC	p.R171C	CAV1_uc010lkd.1_Missense_Mutation_p.R140C|CAV1_uc010lke.1_Missense_Mutation_p.R140C|CAV1_uc003vig.1_RNA|CAV1_uc003vih.2_Missense_Mutation_p.R140C|CAV1_uc010lkf.1_Missense_Mutation_p.R140C	NM_001753	NP_001744	Q03135	CAV1_HUMAN	caveolin 1	171	Cytoplasmic (Potential).				blood coagulation|calcium ion transport|caveola assembly|cellular response to starvation|cholesterol homeostasis|cytosolic calcium ion homeostasis|inactivation of MAPK activity|interspecies interaction between organisms|leukocyte migration|lipid storage|maintenance of protein location in cell|mammary gland involution|membrane depolarization|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of endothelial cell proliferation|negative regulation of epithelial cell differentiation|negative regulation of nitric oxide biosynthetic process|negative regulation of peptidyl-serine phosphorylation|negative regulation of protein binding|negative regulation of transcription from RNA polymerase II promoter|nitric oxide homeostasis|nitric oxide metabolic process|positive regulation of calcium ion transport into cytosol|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of metalloenzyme activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of vasoconstriction|protein homooligomerization|receptor internalization|regulation of blood coagulation|regulation of fatty acid metabolic process|regulation of nitric-oxide synthase activity|regulation of smooth muscle contraction|response to calcium ion|response to estrogen stimulus|response to hypoxia|response to progesterone stimulus|skeletal muscle tissue development|T cell costimulation|triglyceride metabolic process|vasculogenesis|vesicle organization	apical plasma membrane|basolateral plasma membrane|caveola|caveola|cytosol|endoplasmic reticulum|endosome|Golgi membrane|lipid particle|perinuclear region of cytoplasm	cholesterol binding|nitric-oxide synthase binding|peptidase activator activity|protein binding|protein complex scaffold|receptor binding				0	all_epithelial(6;1.42e-06)|Lung NSC(10;0.0056)|all_lung(10;0.00609)		STAD - Stomach adenocarcinoma(10;0.00878)			CAGCAATGTCCGCATCAACTT	0.393													18	58					0	0	0.006122	0	0		T	116199315	T	T	116199315	3	4	19	1	0	0	0	0	1	0	0	0	2696	652	23	1	521	1	CAV1	7	116199315	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2640690	116199315	42939348	1261	14774											
ST7	7982	broad.mit.edu	37	chr7	116849978	116849978	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctttgaatcttttgcattgTacgtgggaaggcagtaagta	10	14	12	5	1	1	1	0	1	1	0	1	2	1	2	0	2	2	6	0	2	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:116849978T>C	uc003vin.2	+	13	1606	c.1392T>C	c.(1390-1392)TGT>TGC	p.C464C	ST7_uc011knl.1_Silent_p.C441C|ST7_uc003vio.2_Silent_p.C441C|ST7_uc003viq.2_Silent_p.C418C|ST7_uc011knm.1_Silent_p.C421C|ST7_uc003vir.2_Splice_Site_p.S389_splice|ST7_uc011knn.1_Silent_p.C412C|ST7OT3_uc003viy.1_RNA	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b	464						integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		TTTTGCATTGTACGTGGGAAG	0.358													23	59					0	0	0.00333	0	0		C	116849978	C	C	116849978	2	2	19	1	0	0	0	0	0	0	0	1	15254	1644	57	3		3	ST7	7	116849978	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	650663	116849978	42288685	1262	14775											
CTTNBP2	83992	broad.mit.edu	37	chr7	117374995	117374995	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caactttccttcgtaagaacCtctgcagcagtccttgcatg	9	12	7	13	1	1	1	0	0	1	1	4	1	3	1	3	0	5	4	3	0	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:117374995C>A	uc003vjf.2	-	16	3940	c.3848G>T	c.(3847-3849)AGG>ATG	p.R1283M		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	1283										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		TCGTAAGAACCTCTGCAGCAG	0.388													16	49					0.000566183	0.000578744	0.00499	1	0		A	117374995	A	A	117374995	3	1	19	1	0	0	0	0	1	0	0	0	4048	681	24	5	1175	5	CTTNBP2	7	117374995	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	525017	117374995	41763668	1263	14776											
CTTNBP2	83992	broad.mit.edu	37	chr7	117432544	117432544	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaagctgttcccgctcagTgtcaaactcagagagttgtt	10	11	10	10	2	3	1	3	0	0	1	4	3	4	1	1	0	2	5	1	0	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:117432544T>A	uc003vjf.2	-	4	798	c.706A>T	c.(706-708)ACT>TCT	p.T236S		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	236	Potential.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		TCCCGCTCAGTGTCAAACTCA	0.448													5	64					0	0	0.001168	0	0		A	117432544	A	A	117432544	3	1	19	1	0	0	0	0	1	0	0	0	4048	1696	59	5	4365	5	CTTNBP2	7	117432544	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	57549	117432544	41706119	1264	14777											
PTPRZ1	5803	broad.mit.edu	37	chr7	121651002	121651002	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatgcttccgaagattcAacttcatcaggttcagaaga	15	10	8	8	1	4	4	4	0	0	4	5	5	5	4	1	1	2	2	1	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:121651002A>G	uc003vjy.2	+	12	2297	c.1902A>G	c.(1900-1902)TCA>TCG	p.S634S	PTPRZ1_uc003vjz.2_Silent_p.S634S|PTPRZ1_uc011knt.1_Silent_p.S84S	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	634	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						CCGAAGATTCAACTTCATCAG	0.408													16	61					0	0	0.004007	0	0		G	121651002	G	G	121651002	2	3	19	1	0	0	0	0	0	0	0	1	12839	117	5	3		3	PTPRZ1	7	121651002	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4218458	121651002	37487661	1265	14778											
PTPRZ1	5803	broad.mit.edu	37	chr7	121652965	121652965	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtaccttctttgtacagtAatgatgagttgttccaaacg	10	15	9	7	1	1	2	0	2	1	0	2	2	2	2	2	1	3	5	2	1	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:121652965A>G	uc003vjy.2	+	12	4260	c.3865A>G	c.(3865-3867)AAT>GAT	p.N1289D	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1289	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						TTTGTACAGTAATGATGAGTT	0.398													6	130					0	0	0.00308	0	0		G	121652965	G	G	121652965	3	3	19	1	0	0	0	0	1	0	0	0	12839	362	13	3	3911	3	PTPRZ1	7	121652965	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1963	121652965	37485698	1266	14779											
SLC13A1	6561	broad.mit.edu	37	chr7	122821124	122821124	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgagccaaaatgtggcgAccacaaagagtgtgtaggca	13	7	13	8	1	0	2	0	1	0	1	0	3	0	2	2	2	1	2	2	2	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:122821124A>G	uc003vkm.2	-	2	156	c.131T>C	c.(130-132)GTC>GCC	p.V44A	SLC13A1_uc010lks.2_5'UTR	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	44	Helical; (Potential).					integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	AAATGTGGCGACCACAAAGAG	0.428													15	48					0	0	0.003163	0	0		G	122821124	G	G	122821124	3	3	19	1	0	0	0	0	1	0	0	0	14416	275	10	3	1712	3	SLC13A1	7	122821124	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1168159	122821124	36317539	1267	14780											
LMOD2	442721	broad.mit.edu	37	chr7	123302688	123302688	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatgacgagcattttgacaAgaaatatggataaacagagg	17	8	11	5	1	0	4	0	2	0	2	0	6	0	5	0	2	2	2	0	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:123302688A>G	uc003vky.2	+	2	1205	c.1048A>G	c.(1048-1050)AGA>GGA	p.R350G		NM_207163	NP_997046	Q6P5Q4	LMOD2_HUMAN	leiomodin 2 (cardiac)	350						cytoskeleton	actin binding|tropomyosin binding				0						CATTTTGACAAGAAATATGGA	0.478													5	126					0	0	0.001168	0	0		G	123302688	G	G	123302688	3	3	19	1	0	0	0	0	1	0	0	0	8874	64	3	3	1054	3	LMOD2	7	123302688	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	481564	123302688	35835975	1268	14781											
POT1	25913	broad.mit.edu	37	chr7	124467346	124467346	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaacacatattggaggggTacaatacccagtgctagtga	15	8	10	8	0	0	1	0	1	0	0	0	2	0	2	1	3	4	2	1	3	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:124467346T>C	uc003vlm.2	-	17	2209	c.1608A>G	c.(1606-1608)GTA>GTG	p.V536V	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_Silent_p.V405V|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	536					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						ATTGGAGGGGTACAATACCCA	0.338													4	34					0	0	0.000602	0	0		C	124467346	C	C	124467346	2	2	19	1	0	0	0	0	0	0	0	1	12279	1625	57	3		3	POT1	7	124467346	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1164658	124467346	34671317	1269	14782											
POT1	25913	broad.mit.edu	37	chr7	124482958	124482958	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgcggtattgttgaggagCtttttgtttcaaaatggcac	9	15	12	5	1	1	1	1	1	0	0	1	3	1	2	0	3	2	5	0	3	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:124482958C>T	uc003vlm.2	-	13	1667	c.1066G>A	c.(1066-1068)GCT>ACT	p.A356T	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_Missense_Mutation_p.A225T|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	356					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						TGTTGAGGAGCTTTTTGTTTC	0.358													12	39					0	0	0.001855	0	0		T	124482958	T	T	124482958	3	4	19	1	0	0	0	0	1	0	0	0	12279	797	28	2	866	2	POT1	7	124482958	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	15612	124482958	34655705	1270	14783											
LRRC4	64101	broad.mit.edu	37	chr7	127669233	127669233	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaccgtggtagaggtggtAtatgccggctggtaaccagt	9	9	15	8	2	0	1	0	0	0	1	0	1	0	1	3	5	3	5	3	5	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:127669233A>G	uc003vmk.2	-	2	1598	c.1461T>C	c.(1459-1461)TAT>TAC	p.Y487Y	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	487	Thr-rich.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		TAGAGGTGGTATATGCCGGCT	0.567													4	78					0	0	0.000602	0	0		G	127669233	G	G	127669233	2	3	19	1	0	0	0	0	0	0	0	1	9015	456	16	3		3	LRRC4	7	127669233	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3186275	127669233	31469430	1271	14784											
CCDC136	64753	broad.mit.edu	37	chr7	128441250	128441250	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactttgcaggtgagctgcgTtctctacgggaggagatttc	7	12	14	8	2	1	2	0	1	1	1	3	5	1	3	0	3	4	3	0	3	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:128441250T>C	uc003vnv.1	+	4	724	c.357T>C	c.(355-357)CGT>CGC	p.R119R	CCDC136_uc003vnu.1_Silent_p.R169R|CCDC136_uc003vnw.1_Silent_p.R119R|CCDC136_uc003vnx.1_5'UTR|CCDC136_uc010llq.1_5'UTR	NM_022742	NP_073579	Q96JN2	CC136_HUMAN	coiled-coil domain containing 136	119	Glu-rich.					integral to membrane	protein binding			ovary(2)	2						GTGAGCTGCGTTCTCTACGGG	0.453													3	42					0	0	0.004672	0	0		C	128441250	C	C	128441250	2	2	19	1	0	0	0	0	0	0	0	1	2773	1712	60	3		3	CCDC136	7	128441250	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	772017	128441250	30697413	1272	14785											
FLNC	2318	broad.mit.edu	37	chr7	128486164	128486164	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaagacagacacctatgTgacagacaatggggacggca	14	4	13	10	1	0	4	0	1	0	3	0	5	0	5	2	4	0	1	2	4	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:128486164T>C	uc003vnz.3	+	22	4120	c.3911T>C	c.(3910-3912)GTG>GCG	p.V1304A	FLNC_uc003voa.3_Missense_Mutation_p.V1304A	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1304	Filamin 11.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GACACCTATGTGACAGACAAT	0.632													16	52					0	0	0.006122	0	0		C	128486164	C	C	128486164	3	2	19	1	0	0	0	0	1	0	0	0	5949	1696	59	3	3997	3	FLNC	7	128486164	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	44914	128486164	30652499	1273	14786											
PODXL	5420	broad.mit.edu	37	chr7	131191458	131191458	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcggcatatcagtgagaTcaatttctcatccgaagcgc	10	11	9	11	3	3	1	3	1	1	1	6	3	4	1	1	1	2	2	1	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:131191458T>C	uc003vqw.3	-	6	1387	c.1129A>G	c.(1129-1131)ATC>GTC	p.I377V	PODXL_uc003vqx.3_Missense_Mutation_p.I345V	NM_001018111	NP_001018121	O00592	PODXL_HUMAN	podocalyxin-like isoform 1 precursor	377	Extracellular (Potential).				cell adhesion|epithelial tube formation|negative regulation of cell-cell adhesion|positive regulation of cell migration|positive regulation of cell-cell adhesion mediated by integrin|regulation of microvillus assembly	actin cytoskeleton|apical plasma membrane|centrosome|filopodium|integral to plasma membrane|lamellipodium|membrane raft|microvillus membrane|nucleolus|ruffle				breast(2)|pancreas(1)	3	Melanoma(18;0.162)					ATCAGTGAGATCAATTTCTCA	0.612											OREG0018320	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	178					0	0	0.009096	0	0		C	131191458	C	C	131191458	3	2	19	1	0	0	0	0	1	0	0	0	12199	1435	50	3	563	3	PODXL	7	131191458	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2705294	131191458	27947205	1274	14787											
PLXNA4	91584	broad.mit.edu	37	chr7	131864640	131864640	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgggctgtccggggcaatgTacaccatccccggggagtac	7	6	15	13	3	0	0	0	0	0	0	2	1	2	1	4	5	2	4	4	5	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:131864640T>C	uc003vra.3	-	20	3909	c.3680A>G	c.(3679-3681)TAC>TGC	p.Y1227C		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1227	IPT/TIG 4.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CGGGGCAATGTACACCATCCC	0.642													4	19					0	0	0.000602	0	0		C	131864640	C	C	131864640	3	2	19	1	0	0	0	0	1	0	0	0	12141	1638	57	3	2056	3	PLXNA4	7	131864640	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	673182	131864640	27274023	1275	14788											
PLXNA4	91584	broad.mit.edu	37	chr7	131895801	131895801	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgcattcgtagccacgctgCccagactggggctgggggag	7	7	16	11	2	0	1	0	0	0	1	1	2	0	2	2	4	3	4	2	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:131895801C>T	uc003vra.3	-	10	2428	c.2199G>A	c.(2197-2199)GGG>GGA	p.G733G		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	733	Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						AGCCACGCTGCCCAGACTGGG	0.622													4	21					0	0	0.00308	0	0		T	131895801	T	T	131895801	2	4	19	1	0	0	0	0	0	0	0	1	12141	726	26	2		2	PLXNA4	7	131895801	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	31161	131895801	27242862	1276	14789											
SLC35B4	84912	broad.mit.edu	37	chr7	133979830	133979830	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaccccggatgcacacgtAcctggaggagtggagtcaag	11	5	13	12	2	1	0	1	0	0	0	1	4	1	4	3	4	2	2	3	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:133979830A>G	uc003vrn.2	-	10	1075	c.751T>C	c.(751-753)TAC>CAC	p.Y251H	SLC35B4_uc010lmk.2_Missense_Mutation_p.Y115H|SLC35B4_uc010lml.1_Intron	NM_032826	NP_116215	Q969S0	S35B4_HUMAN	solute carrier family 35, member B4	251	Helical; (Potential).					Golgi membrane|integral to membrane	UDP-N-acetylglucosamine transmembrane transporter activity|UDP-xylose transmembrane transporter activity			skin(1)	1						ATGCACACGTACCTGGAGGAG	0.507													8	300					0	0	0.004482	0	0		G	133979830	G	G	133979830	3	3	19	1	0	0	0	0	1	0	0	0	14603	405	14	3	248	3	SLC35B4	7	133979830	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2084029	133979830	25158833	1277	14790											
NUP205	23165	broad.mit.edu	37	chr7	135333276	135333276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcttgtcagacgtatccGtggcctcttgaggatatcaa	8	12	11	10	2	4	2	2	1	2	1	5	3	5	3	2	3	0	2	2	3	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:135333276G>A	uc003vsw.2	+	43	6042	c.6011G>A	c.(6010-6012)CGT>CAT	p.R2004H	NUP205_uc003vsx.2_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	2004					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						AGACGTATCCGTGGCCTCTTG	0.393													28	76					0	0	0.012213	0	0		A	135333276	A	A	135333276	3	1	19	1	0	0	0	0	1	0	0	0	10778	1145	40	1	6181	1	NUP205	7	135333276	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1353446	135333276	23805387	1278	14791											
KIAA1549	57670	broad.mit.edu	37	chr7	138579128	138579128	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggccacagtgtcaggctgaAagtctagcttgtctgtgcgg	7	11	14	9	1	3	1	1	1	2	0	3	1	3	1	1	3	2	2	1	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:138579128A>C	uc011kql.1	-	10	4041	c.3992T>G	c.(3991-3993)TTT>TGT	p.F1331C	KIAA1549_uc011kqi.1_Missense_Mutation_p.F115C|KIAA1549_uc003vuk.3_Missense_Mutation_p.F1281C|KIAA1549_uc011kqj.1_Missense_Mutation_p.F1331C|KIAA1549_uc011kqk.1_Missense_Mutation_p.F115C	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1331						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GTCAGGCTGAAAGTCTAGCTT	0.522			O	BRAF	pilocytic astrocytoma								8	133					0	0	0.008291	0	0		C	138579128	C	C	138579128	3	2	19	1	0	0	0	0	1	0	0	0	8260	14	1	5	1904	5	KIAA1549	7	138579128	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3245852	138579128	20559535	1279	14792											
KIAA1549	57670	broad.mit.edu	37	chr7	138603037	138603037	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacagagtctcggcaccatcCcctgatcccacgtctttctc	7	10	6	18	2	3	2	0	1	3	1	7	2	5	2	4	1	0	1	4	1	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:138603037C>T	uc011kql.1	-	2	1384	c.1335G>A	c.(1333-1335)GGG>GGA	p.G445G	KIAA1549_uc003vuk.3_Silent_p.G395G|KIAA1549_uc011kqj.1_Silent_p.G445G	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	445						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						CGGCACCATCCCCTGATCCCA	0.532			O	BRAF	pilocytic astrocytoma								4	79					0	0	0.009096	0	0		T	138603037	T	T	138603037	2	4	19	1	0	0	0	0	0	0	0	1	8260	610	22	4		4	KIAA1549	7	138603037	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	23909	138603037	20535626	1280	14793											
ZC3HAV1	56829	broad.mit.edu	37	chr7	138749712	138749712	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagagagactccaggtatgAagagtcgacgtttgaatttt	13	12	11	5	2	0	5	0	2	0	3	2	7	1	5	1	1	0	2	1	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:138749712A>G	uc003vun.2	-	8	2294	c.1906T>C	c.(1906-1908)TCA>CCA	p.S636P	ZC3HAV1_uc003vuo.2_Missense_Mutation_p.S97P|ZC3HAV1_uc003vup.2_Missense_Mutation_p.S636P	NM_020119	NP_064504	Q7Z2W4	ZCCHV_HUMAN	zinc finger antiviral protein isoform 1	636	WWE.				response to virus	cytoplasm|nucleus	NAD+ ADP-ribosyltransferase activity|RNA binding|zinc ion binding			ovary(1)	1						TCCAGGTATGAAGAGTCGACG	0.423													3	92					0	0	0.004672	0	0		G	138749712	G	G	138749712	3	3	19	1	0	0	0	0	1	0	0	0	17600	246	9	3	830	3	ZC3HAV1	7	138749712	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	146675	138749712	20388951	1281	14794											
HIPK2	28996	broad.mit.edu	37	chr7	139281496	139281496	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctgttcctcctcctcgTccgtgtcactgctgatggtg	2	16	10	13	2	2	1	1	1	1	0	7	1	6	1	4	1	1	3	4	1	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:139281496T>C	uc003vvf.3	-	12	2858	c.2684A>G	c.(2683-2685)GAC>GGC	p.D895G	HIPK2_uc003vvd.3_Missense_Mutation_p.D868G	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	895	Interaction with TP53 and TP73.|Required for localization to nuclear speckles (By similarity).|Interaction with UBE2I (By similarity).|SUMO interaction motifs (SIM); required for nuclear localization and kinase activity.|Interaction with HMGA1 (By similarity).|Interaction with POU4F1 (By similarity).			SDTD->ADTA: Loss of SUMO interaction, and impaired nuclear and PML-nuclear bodies localization.|DTDEEEE->NFNQQQQ: Loss of SUMO and CBX4 interaction, and impaired nuclear and PML-nuclear bodies localization.	apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					CTCCTCCTCGTCCGTGTCACT	0.617													42	116					0	0	0.013114	0	0		C	139281496	C	C	139281496	3	2	19	1	0	0	0	0	1	0	0	0	7133	1667	58	3	928	3	HIPK2	7	139281496	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	531784	139281496	19857167	1282	14795											
HIPK2	28996	broad.mit.edu	37	chr7	139281517	139281517	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgtcactgctgatggtgAtgacgctgaccgtggggctg	5	10	16	10	3	1	4	1	4	0	0	1	4	1	4	2	3	1	3	2	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:139281517A>T	uc003vvf.3	-	12	2837	c.2663T>A	c.(2662-2664)ATC>AAC	p.I888N	HIPK2_uc003vvd.3_Missense_Mutation_p.I861N	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	888	Interaction with TP53 and TP73.|Required for localization to nuclear speckles (By similarity).|Interaction with UBE2I (By similarity).|SUMO interaction motifs (SIM); required for nuclear localization and kinase activity.|Interaction with HMGA1 (By similarity).|Interaction with POU4F1 (By similarity).			VSVI->KSAK: Loss of SUMO interaction, and impaired nuclear and PML-nuclear bodies localization.|VSVITISS->KFMHFHRM: Loss of SUMO and CBX4 interaction, and impaired nuclear and PML-nuclear bodies localization.	apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					GCTGATGGTGATGACGCTGAC	0.642													37	94					0	0	0.013114	0	0		T	139281517	T	T	139281517	3	4	19	1	0	0	0	0	1	0	0	0	7133	333	12	5	949	5	HIPK2	7	139281517	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	21	139281517	19857146	1283	14796											
ADCK2	90956	broad.mit.edu	37	chr7	140389471	140389471	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtggaggggttcaaaacCgagatggccatgctggtgac	10	7	16	8	2	1	2	1	1	0	1	1	5	1	3	2	5	2	2	2	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:140389471C>A	uc003vvy.1	+	6	1810	c.1632C>A	c.(1630-1632)ACC>ACA	p.T544T	ADCK2_uc003vvz.2_Silent_p.T544T	NM_052853	NP_443085	Q7Z695	ADCK2_HUMAN	aarF domain containing kinase 2	544	Protein kinase.					integral to membrane	ATP binding|protein serine/threonine kinase activity				0	Melanoma(164;0.00956)					GGTTCAAAACCGAGATGGCCA	0.607													17	51					0.00400662	0.00408061	0.004007	1	0		A	140389471	A	A	140389471	2	1	19	1	0	0	0	0	0	0	0	1	289	639	23	5		5	ADCK2	7	140389471	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1107954	140389471	18749192	1284	14797											
BRAF	673	broad.mit.edu	37	chr7	140477841	140477841	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaactgctgaggtgtaggTgctgtcacattcaacatttt	9	15	10	7	0	2	1	2	1	0	0	2	1	2	1	0	2	4	4	0	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:140477841T>C	uc003vwc.3	-	12	1528	c.1467A>G	c.(1465-1467)GCA>GCG	p.A489A		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	489	Protein kinase.				activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.L485_P490>Y(2)|p.N486_P490del(1)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	GAGGTGTAGGTGCTGTCACAT	0.333		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				6	60					0	0	0.001984	0	0		C	140477841	C	C	140477841	2	2	19	1	0	0	0	0	0	0	0	1	1499	1683	59	3		3	BRAF	7	140477841	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	88370	140477841	18660822	1285	14798											
WEE2	494551	broad.mit.edu	37	chr7	141424039	141424039	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacccaaagtggaagaaggAgatagtcgcttcctggctaa	15	7	11	8	1	0	2	0	0	0	2	2	4	1	3	2	3	1	2	2	3	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:141424039A>G	uc003vwn.2	+	8	1591	c.1185A>G	c.(1183-1185)GGA>GGG	p.G395G	FLJ40852_uc011krh.1_Intron|FLJ40852_uc010lnm.2_Intron|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028	P0C1S8	WEE2_HUMAN	WEE1 homolog 2	395	Protein kinase.				egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)					TGGAAGAAGGAGATAGTCGCT	0.368													42	102					0	0	0.011902	0	0		G	141424039	G	G	141424039	2	3	19	1	0	0	0	0	0	0	0	1	17371	291	11	3		3	WEE2	7	141424039	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	946198	141424039	17714624	1286	14799											
TAS2R38	5726	broad.mit.edu	37	chr7	141672607	141672607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcctgagatcaggatggCtgcatgcccagagggacaag	11	7	14	9	0	1	2	1	1	0	2	1	5	1	4	2	3	3	2	2	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:141672607C>T	uc003vwx.1	-	1	967	c.883G>A	c.(883-885)GCC>ACC	p.A295T		NM_176817	NP_789787	P59533	T2R38_HUMAN	taste receptor, type 2, member 38	295	Helical; Name=7; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			kidney(1)|skin(1)	2	Melanoma(164;0.0171)					ATCAGGATGGCTGCATGCCCA	0.542													11	65					0	0	0.008291	0	0		T	141672607	T	T	141672607	3	4	19	1	0	0	0	0	1	0	0	0	15600	797	28	2	122	2	TAS2R38	7	141672607	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	248568	141672607	17466056	1287	14800											
MGAM	8972	broad.mit.edu	37	chr7	141805634	141805634	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattaagcatcgatgtgacTgacagaaacatcagcctaca	15	9	8	9	1	1	3	1	2	0	1	2	4	1	3	1	0	4	2	1	0	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:141805634T>C	uc003vwy.2	+	48	5571	c.5517T>C	c.(5515-5517)ACT>ACC	p.T1839T		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1839	Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	TCGATGTGACTGACAGAAACA	0.368													44	88					0	0	0.01441	0	0		C	141805634	C	C	141805634	2	2	19	1	0	0	0	0	0	0	0	1	9559	1567	55	3		3	MGAM	7	141805634	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	133027	141805634	17333029	1288	14801											
TRPV6	55503	broad.mit.edu	37	chr7	142575704	142575704	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggtgcaccttgcaatcCtcatacttgagcaacttgtt	8	14	7	12	0	2	1	1	1	1	0	3	1	3	1	2	1	5	4	2	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:142575704C>A	uc003wbx.1	-	2	420	c.204G>T	c.(202-204)GAG>GAT	p.E68D	TRPV6_uc003wbw.1_5'Flank|TRPV6_uc010lou.1_Translation_Start_Site	NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	68	ANK 1.|Cytoplasmic (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					CCTTGCAATCCTCATACTTGA	0.527													7	114					1.6384e-10	1.71521e-10	0.001984	1	0		A	142575704	A	A	142575704	3	1	19	1	0	0	0	0	1	0	0	0	16626	680	24	5	2029	5	TRPV6	7	142575704	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	770070	142575704	16562959	1289	14802											
EPHA1	2041	broad.mit.edu	37	chr7	143091397	143091397	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagatccgatgggcaaTggcttcaggggctgtccaac	9	8	15	9	1	1	2	1	1	0	1	3	3	3	2	2	5	1	3	2	5	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:143091397T>C	uc003wcz.2	-	15	2479	c.2392A>G	c.(2392-2394)ATT>GTT	p.I798V		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	798	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				CGATGGGCAATGGCTTCAGGG	0.547													6	121					0	0	0.001168	0	0		C	143091397	C	C	143091397	3	2	19	1	0	0	0	0	1	0	0	0	5173	1464	51	3	554	3	EPHA1	7	143091397	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	515693	143091397	16047266	1290	14803											
ARHGEF5	7984	broad.mit.edu	37	chr7	144077125	144077125	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagtcaagactgccaaactAcagctggtggaacagcaagc	14	5	11	11	1	1	1	1	0	0	1	1	3	1	2	1	2	7	2	1	2	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:144077125A>G	uc003wel.2	+	15	4888	c.4770A>G	c.(4768-4770)CTA>CTG	p.L1590L	ARHGEF5_uc003wem.2_Silent_p.L391L	NM_005435	NP_005426	Q12774	ARHG5_HUMAN	rho guanine nucleotide exchange factor 5	1590					intracellular signal transduction|regulation of Rho protein signal transduction	intracellular	GTP binding|protein binding|Rho guanyl-nucleotide exchange factor activity			skin(2)	2	Melanoma(164;0.14)					CTGCCAAACTACAGCTGGTGG	0.542													7	118					0	0	0.001984	0	0		G	144077125	G	G	144077125	2	3	19	1	0	0	0	0	0	0	0	1	909	378	14	3		3	ARHGEF5	7	144077125	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	985728	144077125	15061538	1291	14804											
CNTNAP2	26047	broad.mit.edu	37	chr7	146829377	146829377	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggaaccctatacggtgcCtgtctttttcaacgctacaa	9	13	8	11	2	2	0	1	0	1	0	2	1	2	1	2	2	5	1	2	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:146829377C>A	uc003weu.1	+	8	1640	c.1124C>A	c.(1123-1125)CCT>CAT	p.P375H		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	375	Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TATACGGTGCCTGTCTTTTTC	0.453										HNSCC(39;0.1)			22	197					2.98393e-07	3.09533e-07	0.00278	1	0		A	146829377	A	A	146829377	3	1	19	1	0	0	0	0	1	0	0	0	3650	681	24	5	1154	5	CNTNAP2	7	146829377	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2752252	146829377	12309286	1292	14805											
CNTNAP2	26047	broad.mit.edu	37	chr7	148112646	148112646	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcgcggacgccgccatcAtgaacaacgaccccaacttc	12	4	9	16	5	1	2	1	1	0	1	2	4	1	3	4	1	4	0	4	1	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:148112646A>G	uc003weu.1	+	24	4450	c.3934A>G	c.(3934-3936)ATG>GTG	p.M1312V	CNTNAP2_uc003wev.1_Missense_Mutation_p.M89V	NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	1312	Cytoplasmic (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CGCCGCCATCATGAACAACGA	0.552										HNSCC(39;0.1)			6	104					0	0	0.001984	0	0		G	148112646	G	G	148112646	3	3	19	1	0	0	0	0	1	0	0	0	3650	217	8	3	4028	3	CNTNAP2	7	148112646	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1283269	148112646	11026017	1293	14806											
CUL1	8454	broad.mit.edu	37	chr7	148489850	148489850	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagatggctatcctgcttcaGtacaacacggaagatgccta	12	9	9	11	1	1	2	1	0	0	2	2	3	2	3	2	2	4	3	2	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:148489850G>A	uc010lpg.2	+	17	2365	c.1839G>A	c.(1837-1839)CAG>CAA	p.Q613Q	CUL1_uc003wey.2_Silent_p.Q613Q|CUL1_uc003wez.2_Silent_p.Q503Q|CUL1_uc003wfa.2_Silent_p.Q274Q	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	613					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			TCCTGCTTCAGTACAACACGG	0.453													9	24					0	0	0.008291	0	0		A	148489850	A	A	148489850	2	1	19	1	0	0	0	0	0	0	0	1	4057	1020	36	4		4	CUL1	7	148489850	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	377204	148489850	10648813	1294	14807											
ZNF786	136051	broad.mit.edu	37	chr7	148768111	148768111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctccccgctgtgcacgcGcaagtgctccgtgagcttgg	4	10	12	15	4	1	1	0	1	1	0	4	1	3	1	3	1	3	5	3	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:148768111G>A	uc003wfh.2	-	4	1890	c.1753C>T	c.(1753-1755)CGC>TGC	p.R585C	ZNF786_uc011kuk.1_Missense_Mutation_p.R548C|ZNF786_uc003wfi.2_Missense_Mutation_p.R499C	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	585	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			CTGTGCACGCGCAAGTGCTCC	0.642													16	27					0	0	0.004007	0	0		A	148768111	A	A	148768111	3	1	19	1	0	0	0	0	1	0	0	0	18183	1087	38	1	599	1	ZNF786	7	148768111	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	278261	148768111	10370552	1295	14808											
ZNF398	57541	broad.mit.edu	37	chr7	148876131	148876131	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggacctcagcagcacctcCcaggaccatgccagcgagac	10	3	11	17	2	1	1	1	0	0	1	2	4	2	3	5	2	4	2	5	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:148876131C>A	uc003wfl.2	+	6	1442	c.1167C>A	c.(1165-1167)TCC>TCA	p.S389S	ZNF398_uc011kul.1_Silent_p.S218S|ZNF398_uc011kum.1_Silent_p.S394S	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	389	C2H2-type 2; degenerate.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			GCAGCACCTCCCAGGACCATG	0.572													73	168					1.21826e-31	1.30849e-31	0.01441	1	0		A	148876131	A	A	148876131	2	1	19	1	0	0	0	0	0	0	0	1	17910	610	22	5		5	ZNF398	7	148876131	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	108020	148876131	10262532	1296	14809											
ZNF282	8427	broad.mit.edu	37	chr7	148921393	148921393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgagaagagcttcaactGccactcgggcctcatccgcc	8	7	11	15	3	2	2	2	0	0	2	4	3	3	2	4	1	4	1	4	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:148921393G>A	uc003wfm.2	+	8	1775	c.1670G>A	c.(1669-1671)TGC>TAC	p.C557Y	ZNF282_uc011kun.1_3'UTR|ZNF282_uc003wfo.2_Missense_Mutation_p.A234T	NM_003575	NP_003566	Q9UDV7	ZN282_HUMAN	zinc finger protein 282	557	C2H2-type 2.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)	Lung(243;0.145)		AGCTTCAACTGCCACTCGGGC	0.642													10	12					0	0	0.010729	0	0		A	148921393	A	A	148921393	3	1	19	1	0	0	0	0	1	0	0	0	17844	1319	46	2	1700	2	ZNF282	7	148921393	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	45262	148921393	10217270	1297	14810											
ZNF862	643641	broad.mit.edu	37	chr7	149545162	149545162	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagactctcaaataccacGcgaagagcaaggcccacatg	14	5	10	12	2	1	2	1	0	1	2	2	4	1	2	2	2	2	1	2	2	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:149545162G>A	uc010lpn.2	+	4	772	c.580G>A	c.(580-582)GCG>ACG	p.A194T	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	194	TTF-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						CAAATACCACGCGAAGAGCAA	0.547													15	28					0	0	0.003163	0	0		A	149545162	A	A	149545162	3	1	19	1	0	0	0	0	1	0	0	0	18220	1087	38	1	594	1	ZNF862	7	149545162	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	623769	149545162	9593501	1298	14811											
ZNF862	643641	broad.mit.edu	37	chr7	149559482	149559482	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggcgtggccgtcacggagtAcgacccccagcccgccatcc	6	4	12	19	6	1	0	1	0	0	0	2	2	2	1	6	3	2	1	6	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:149559482A>G	uc010lpn.2	+	7	3425	c.3233A>G	c.(3232-3234)TAC>TGC	p.Y1078C	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	1078					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						GTCACGGAGTACGACCCCCAG	0.622													9	13					0	0	0.006214	0	0		G	149559482	G	G	149559482	3	3	19	1	0	0	0	0	1	0	0	0	18220	391	14	3	3259	3	ZNF862	7	149559482	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	14320	149559482	9579181	1299	14812											
SMARCD3	6604	broad.mit.edu	37	chr7	150936822	150936822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtttatggactcaatcGtctcatggatctgcaggtag	8	13	12	8	1	3	0	2	0	2	0	5	2	3	2	0	4	1	4	0	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:150936822G>A	uc003wjs.2	-	11	1285	c.1184C>T	c.(1183-1185)ACG>ATG	p.T395M	SMARCD3_uc003wjt.2_Missense_Mutation_p.T382M|SMARCD3_uc003wju.2_Missense_Mutation_p.T382M	NM_001003801	NP_001003801	Q6STE5	SMRD3_HUMAN	SWI/SNF related, matrix associated, actin	395					cellular lipid metabolic process|chromatin modification|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	nuclear hormone receptor binding|protein binding|transcription coactivator activity|transcription factor binding			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGACTCAATCGTCTCATGGAT	0.547													30	32					0	0	0.003755	0	0		A	150936822	A	A	150936822	3	1	19	1	0	0	0	0	1	0	0	0	14804	1145	40	1	279	1	SMARCD3	7	150936822	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1377340	150936822	8201841	1300	14813											
NUB1	51667	broad.mit.edu	37	chr7	151074269	151074269	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attattattgcagagtacctAtcctatgtagaaaataggaa	16	13	7	5	0	0	2	0	0	0	2	1	3	1	3	2	1	2	3	2	1	10	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:151074269A>G	uc003wjx.2	+	15	1883	c.1878A>G	c.(1876-1878)CTA>CTG	p.L626L	NUB1_uc003wjw.2_Silent_p.L588L|NUB1_uc010lqc.2_RNA	NM_016118	NP_057202	Q9Y5A7	NUB1_HUMAN	NEDD8 ultimate buster-1	602					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|response to interferon-gamma|response to tumor necrosis factor|ubiquitin-dependent protein catabolic process	nucleus	protein binding				0			OV - Ovarian serous cystadenocarcinoma(82;0.00569)	UCEC - Uterine corpus endometrioid carcinoma (81;0.172)		CAGAGTACCTATCCTATGTAG	0.358													3	7					0	0	0.004672	0	0		G	151074269	G	G	151074269	2	3	19	1	0	0	0	0	0	0	0	1	10733	436	16	3		3	NUB1	7	151074269	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	137447	151074269	8064394	1301	14814											
XRCC2	7516	broad.mit.edu	37	chr7	152345769	152345769	+	Frame_Shift_Del	DEL	T	-	-																															tctccaataataaaaaaatgTttttttaaactgttactttt																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:152345769delT	uc003wld.2	-	3	887	c.801delA	c.(799-801)AAAfs	p.K267fs		NM_005431	NP_005422	O43543	XRCC2_HUMAN	X-ray repair cross complementing protein 2	267					meiosis	nucleus	ATP binding|DNA binding|DNA-dependent ATPase activity			breast(1)|liver(1)	2		all_hematologic(28;0.0592)|Prostate(32;0.081)	OV - Ovarian serous cystadenocarcinoma(82;0.0423)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0429)		TAAAAAAATGTTTTTTTAAAC	0.299								Homologous_recombination					35	78	---	---	---	---						.	-	152345769	-	-	152345769	7	5	19	1	0	1	0	1	0	0	0	0	17479	1722	60	0	45	0	XRCC2	7	152345769	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	1271500	152345769	6792894	1302	14815											
XRCC2	7516	broad.mit.edu	37	chr7	152345981	152345981	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaggctttctgcattatagTttgtgtcgttgcaaaaagaa	11	14	10	6	2	1	1	0	0	1	1	2	2	1	1	0	1	2	5	0	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:152345981T>C	uc003wld.2	-	3	675	c.589A>G	c.(589-591)ACT>GCT	p.T197A		NM_005431	NP_005422	O43543	XRCC2_HUMAN	X-ray repair cross complementing protein 2	197					meiosis	nucleus	ATP binding|DNA binding|DNA-dependent ATPase activity			breast(1)|liver(1)	2		all_hematologic(28;0.0592)|Prostate(32;0.081)	OV - Ovarian serous cystadenocarcinoma(82;0.0423)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0429)		TGCATTATAGTTTGTGTCGTT	0.438								Homologous_recombination					25	217					0	0	0.005443	0	0		C	152345981	C	C	152345981	3	2	19	1	0	0	0	0	1	0	0	0	17479	1725	60	3	257	3	XRCC2	7	152345981	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	212	152345981	6792682	1303	14816											
PAXIP1	22976	broad.mit.edu	37	chr7	154738278	154738278	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcattttcacaggatattAaaattatttccgacaaactc	14	14	5	8	1	2	0	2	0	0	0	4	2	3	1	1	2	1	0	1	2	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:154738278A>G	uc003wlp.2	-	19	3120	c.3077T>C	c.(3076-3078)TTA>TCA	p.L1026S	LOC100132707_uc011kvr.1_Intron|LOC100132707_uc003wlo.2_Intron|PAXIP1_uc003wlq.1_Missense_Mutation_p.L992S|PAXIP1_uc011kvs.1_Missense_Mutation_p.L990S	NM_007349	NP_031375	Q6ZW49	PAXI1_HUMAN	PAX interacting protein 1	1026	Interaction with TP53BP1.|BRCT 6.				DNA damage response, signal transduction by p53 class mediator|DNA recombination|DNA repair|histone H3-K4 methylation|positive regulation of histone acetylation|positive regulation of histone H3-K36 methylation|positive regulation of histone H3-K4 methylation|positive regulation of isotype switching|positive regulation of protein ubiquitination|positive regulation of transcription initiation from RNA polymerase II promoter|response to ionizing radiation|transcription, DNA-dependent	histone methyltransferase complex|nuclear matrix				lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0296)	UCEC - Uterine corpus endometrioid carcinoma (81;0.178)		ACAGGATATTAAAATTATTTC	0.448													9	29					0	0	0.004482	0	0		G	154738278	G	G	154738278	3	3	19	1	0	0	0	0	1	0	0	0	11506	372	13	3	144	3	PAXIP1	7	154738278	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2392297	154738278	4400385	1304	14817											
RNF32	140545	broad.mit.edu	37	chr7	156437236	156437236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggcagtcaatgcagttgCtttacaagatcacattttac	11	14	7	9	0	2	1	2	0	0	1	2	1	2	1	0	1	4	4	0	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:156437236C>T	uc003wmo.2	+	3	241	c.59C>T	c.(58-60)GCT>GTT	p.A20V	RNF32_uc010lql.1_RNA|RNF32_uc010lqm.2_Missense_Mutation_p.A20V|RNF32_uc003wmp.2_Missense_Mutation_p.A20V|RNF32_uc003wmq.2_Missense_Mutation_p.A20V|RNF32_uc003wmr.2_Missense_Mutation_p.A20V|RNF32_uc003wms.2_Missense_Mutation_p.A20V|RNF32_uc003wmu.2_RNA|RNF32_uc003wmt.2_Missense_Mutation_p.A20V	NM_030936	NP_112198	Q9H0A6	RNF32_HUMAN	ring finger protein 32	20						aggresome|endosome	protein binding|zinc ion binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00291)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		AATGCAGTTGCTTTACAAGAT	0.308													8	49					0	0	0.006214	0	0		T	156437236	T	T	156437236	3	4	19	1	0	0	0	0	1	0	0	0	13513	797	28	2	65	2	RNF32	7	156437236	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1698958	156437236	2701427	1305	14818											
NOM1	64434	broad.mit.edu	37	chr7	156742867	156742867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcctcccaggaagccgcggCcgtcccgggtcaaggccaag	7	3	14	17	5	1	0	1	0	0	0	3	1	3	1	6	4	1	0	6	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:156742867C>T	uc003wmy.2	+	1	451	c.436C>T	c.(436-438)CCG>TCG	p.P146S		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	146	Necessary for nucleolar localization and for targeting PPP1CA to the nucleolus.				RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		GAAGCCGCGGCCGTCCCGGGT	0.736													9	9					0	0	0.004482	0	0		T	156742867	T	T	156742867	3	4	19	1	0	0	0	0	1	0	0	0	10549	739	26	2	438	2	NOM1	7	156742867	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	305631	156742867	2395796	1306	14819											
WDR60	55112	broad.mit.edu	37	chr7	158726880	158726880	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactgaatgttaaatttctGccttcagatcctaatcactt	12	15	4	10	0	3	2	2	1	1	1	4	2	4	2	2	0	1	1	2	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:158726880G>A	uc003woe.3	+	22	2765	c.2607G>A	c.(2605-2607)CTG>CTA	p.L869L	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Silent_p.L501L	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	869										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		TTAAATTTCTGCCTTCAGATC	0.328													16	49					0	0	0.00499	0	0		A	158726880	A	A	158726880	2	1	19	1	0	0	0	0	0	0	0	1	17337	1306	46	2		2	WDR60	7	158726880	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1984013	158726880	411783	1307	14820											
ERICH1	157697	broad.mit.edu	37	chr8	623717	623717	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggtcttcctcgctggtgTccacaccatcctcctcacaa	6	11	7	17	2	2	0	1	0	1	0	8	0	6	0	5	2	0	1	5	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:623717T>C	uc003wph.2	-	4	700	c.635A>G	c.(634-636)GAC>GGC	p.D212G	ERICH1_uc011kwh.1_Missense_Mutation_p.D212G|ERICH1_uc003wpe.1_Missense_Mutation_p.D118G|ERICH1_uc003wpi.2_Missense_Mutation_p.D24G	NM_207332	NP_997215	Q86X53	ERIC1_HUMAN	glutamate-rich 1	212	Glu-rich.									large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		CTCGCTGGTGTCCACACCATC	0.597													17	96					0	0	0.00278	0	0		C	623717	C	C	623717	3	2	19	1	0	0	0	0	1	0	0	0	5238	1667	58	3	708	3	ERICH1	8	623717	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08		623717	145740305	1308	14821											
DLGAP2	9228	broad.mit.edu	37	chr8	1497659	1497659	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagacctccaagagcaacaAcgacgtcaagtgctcggcct	13	5	9	14	3	1	2	1	0	0	2	3	3	2	2	3	1	4	2	3	1	5	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:1497659A>G	uc003wpl.2	+	2	897	c.800A>G	c.(799-801)AAC>AGC	p.N267S	DLGAP2_uc003wpm.2_Missense_Mutation_p.N267S	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	346					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		AAGAGCAACAACGACGTCAAG	0.667													28	114					0	0	0.007291	0	0		G	1497659	G	G	1497659	3	3	19	1	0	0	0	0	1	0	0	0	4566	43	2	3	802	3	DLGAP2	8	1497659	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	873942	1497659	144866363	1309	14822											
DLGAP2	9228	broad.mit.edu	37	chr8	1497743	1497743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcctggtctacgctgaCggtcagccaggccaaggagg	8	6	14	13	2	2	1	1	1	1	0	3	2	3	2	3	5	3	2	3	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:1497743C>T	uc003wpl.2	+	2	981	c.884C>T	c.(883-885)ACG>ATG	p.T295M	DLGAP2_uc003wpm.2_Missense_Mutation_p.T295M	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	374					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		TCTACGCTGACGGTCAGCCAG	0.652													13	23					0	0	0.00245	0	0		T	1497743	T	T	1497743	3	4	19	1	0	0	0	0	1	0	0	0	4566	536	19	1	886	1	DLGAP2	8	1497743	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	84	1497743	144866279	1310	14823											
DLGAP2	9228	broad.mit.edu	37	chr8	1649450	1649450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggacctgcccgacagacaaCgccaggaagcccggaggcgc	10	2	14	15	4	0	1	0	0	0	1	0	5	0	4	4	4	3	0	4	4	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:1649450C>T	uc003wpl.2	+	12	2903	c.2806C>T	c.(2806-2808)CGC>TGC	p.R936C	DLGAP2_uc003wpm.2_Missense_Mutation_p.R922C	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	1015					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		CGACAGACAACGCCAGGAAGC	0.602													3	8					0	0	0.004672	0	0		T	1649450	T	T	1649450	3	4	19	1	0	0	0	0	1	0	0	0	4566	536	19	1	2848	1	DLGAP2	8	1649450	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	151707	1649450	144714572	1311	14824											
MCPH1	79648	broad.mit.edu	37	chr8	6302632	6302632	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaatgtctgatttttcctgCgttggcaaaaaaaccagaac	14	11	8	8	1	1	2	0	1	1	1	2	3	2	2	2	1	3	2	2	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:6302632C>T	uc003wqi.2	+	8	1457	c.1389C>T	c.(1387-1389)TGC>TGT	p.C463C	MCPH1_uc003wqh.2_Silent_p.C463C|MCPH1_uc011kwl.1_Silent_p.C415C	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	463						microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		ATTTTTCCTGCGTTGGCAAAA	0.443													33	117					0	0	0.010818	0	0		T	6302632	T	T	6302632	2	4	19	1	0	0	0	0	0	0	0	1	9416	776	27	1		1	MCPH1	8	6302632	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4653182	6302632	140061390	1312	14825											
SGK223	157285	broad.mit.edu	37	chr8	8234255	8234255	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccagcagacggtgacaccGgggaccctacagggctactc	9	5	12	15	2	0	2	0	1	0	1	2	3	1	3	3	4	3	2	3	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:8234255G>T	uc003wsh.3	-	2	1664	c.1664C>A	c.(1663-1665)CCG>CAG	p.P555Q		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	555							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						CGGTGACACCGGGGACCCTAC	0.642													15	77					1.28384e-07	1.33367e-07	0.012319	1	0		T	8234255	T	T	8234255	3	4	19	1	0	0	0	0	1	0	0	0	14235	1116	39	5	2560	5	SGK223	8	8234255	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1931623	8234255	138129767	1313	14826											
CLDN23	137075	broad.mit.edu	37	chr8	8560311	8560311	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctcatcccggtgtcctggTacaaccacttcttgggggac	6	10	11	14	1	2	0	1	0	1	0	4	1	4	1	4	4	2	1	4	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:8560311T>C	uc003wsi.2	+	1	646	c.403T>C	c.(403-405)TAC>CAC	p.Y135H		NM_194284	NP_919260	Q96B33	CLD23_HUMAN	claudin 23	135	Extracellular (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.071)|READ - Rectum adenocarcinoma(644;0.238)		GGTGTCCTGGTACAACCACTT	0.697													12	29					0	0	0.001855	0	0		C	8560311	C	C	8560311	3	2	19	1	0	0	0	0	1	0	0	0	3487	1638	57	3	405	3	CLDN23	8	8560311	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	326056	8560311	137803711	1314	14827											
XKR6	286046	broad.mit.edu	37	chr8	10782233	10782233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaaggtctccaggaggCgcagcatgttgacgtctgca	9	7	14	11	2	2	1	0	1	2	0	3	3	2	3	2	4	2	4	2	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:10782233C>T	uc003wtk.1	-	2	899	c.872G>A	c.(871-873)CGC>CAC	p.R291H		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	291						integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		CTCCAGGAGGCGCAGCATGTT	0.567													23	102					0	0	0.003954	0	0		T	10782233	T	T	10782233	3	4	19	1	0	0	0	0	1	0	0	0	17461	768	27	1	1061	1	XKR6	8	10782233	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2221922	10782233	135581789	1315	14828											
NEIL2	252969	broad.mit.edu	37	chr8	11637208	11637208	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacaaaaagaagtgcagaaGgaaggggctgcggacccaaa	17	2	13	9	1	0	2	0	0	0	2	0	4	0	4	2	4	2	2	2	4	6	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:11637208G>A	uc003wug.2	+	3	915	c.240G>A	c.(238-240)AAG>AAA	p.K80K	NEIL2_uc003wue.2_Silent_p.K80K|NEIL2_uc003wuf.2_Silent_p.K19K|NEIL2_uc011kxd.1_Intron	NM_145043	NP_659480	Q969S2	NEIL2_HUMAN	nei like 2 isoform a	80					base-excision repair|nucleotide-excision repair	nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|hydrolase activity, hydrolyzing N-glycosyl compounds|zinc ion binding				0	all_epithelial(15;0.103)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.166)		AAGTGCAGAAGGAAGGGGCTG	0.567								BER_DNA_glycosylases					56	202					0	0	0.01441	0	0		A	11637208	A	A	11637208	2	1	19	1	0	0	0	0	0	0	0	1	10338	991	35	4		4	NEIL2	8	11637208	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	854975	11637208	134726814	1316	14829											
NEIL2	252969	broad.mit.edu	37	chr8	11637331	11637331	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgagtatttggagagagaCgcccctgcaggagatgctgg	9	9	15	8	1	1	4	0	1	1	3	1	7	1	4	2	3	2	3	2	3	1	2	rs143923741		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:11637331C>T	uc003wug.2	+	3	1038	c.363C>T	c.(361-363)GAC>GAT	p.D121D	NEIL2_uc003wue.2_Silent_p.D121D|NEIL2_uc003wuf.2_Silent_p.D60D|NEIL2_uc011kxd.1_Intron	NM_145043	NP_659480	Q969S2	NEIL2_HUMAN	nei like 2 isoform a	121					base-excision repair|nucleotide-excision repair	nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|hydrolase activity, hydrolyzing N-glycosyl compounds|zinc ion binding				0	all_epithelial(15;0.103)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.166)		TGGAGAGAGACGCCCCTGCAG	0.577								BER_DNA_glycosylases					38	130					0	0	0.007835	0	0		T	11637331	T	T	11637331	2	4	19	1	0	0	0	0	0	0	0	1	10338	535	19	1		1	NEIL2	8	11637331	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	123	11637331	134726691	1317	14830											
USP17L2	377630	broad.mit.edu	37	chr8	11995417	11995417	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtttgttgcctgtgacatCggagaatctcttcaagacaa	12	12	9	8	1	2	3	1	1	1	2	4	4	2	3	1	1	1	2	1	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:11995417C>A	uc003wvc.1	-	1	853	c.853G>T	c.(853-855)GAT>TAT	p.D285Y	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	285					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3						CCTGTGACATCGGAGAATCTC	0.488													24	269					1.26454e-06	1.30691e-06	0.005443	1	0		A	11995417	A	A	11995417	3	1	19	1	0	0	0	0	1	0	0	0	17074	884	31	5	743	5	USP17L2	8	11995417	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	358086	11995417	134368605	1318	14831											
C8orf79	57604	broad.mit.edu	37	chr8	12878636	12878636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caatggaacaaaagaaccgtCactttgagaagcaagacgtg	17	6	10	8	2	1	3	1	1	0	3	1	5	1	4	1	1	3	1	1	1	7	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:12878636C>T	uc010lsq.2	+	5	940	c.448C>T	c.(448-450)CAC>TAC	p.H150Y	C8orf79_uc011kxw.1_Intron|C8orf79_uc003wwj.3_Missense_Mutation_p.H63Y|C8orf79_uc010lsr.2_Missense_Mutation_p.H24Y	NM_020844	NP_065895	Q9P272	K1456_HUMAN	hypothetical protein LOC57604 isoform 1	150							methyltransferase activity				0						AAAGAACCGTCACTTTGAGAA	0.478													6	27					0	0	0.013537	0	0		T	12878636	T	T	12878636	3	4	19	1	0	0	0	0	1	0	0	0	2441	826	29	4	458	4	C8orf79	8	12878636	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	883219	12878636	133485386	1319	14832											
TUSC3	7991	broad.mit.edu	37	chr8	15508249	15508249	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactggcgaactcctggcgcTattcatctgctttttgtaac	7	15	8	11	2	2	0	1	0	1	0	3	1	3	0	1	2	4	3	1	2	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:15508249T>G	uc003wwt.2	+	3	562	c.352T>G	c.(352-354)TAT>GAT	p.Y118D	TUSC3_uc003wwr.2_Missense_Mutation_p.Y118D|TUSC3_uc003wws.2_Missense_Mutation_p.Y118D|TUSC3_uc003wwu.2_Missense_Mutation_p.Y118D|TUSC3_uc003wwv.2_Missense_Mutation_p.Y118D|TUSC3_uc003www.2_Missense_Mutation_p.Y118D|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.Y118D	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	118					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		CTCCTGGCGCTATTCATCTGC	0.393													94	328					0	0	0.01441	0	0		G	15508249	G	G	15508249	3	3	19	1	0	0	0	0	1	0	0	0	16804	1522	53	5	362	5	TUSC3	8	15508249	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2629613	15508249	130855773	1320	14833											
ZDHHC2	51201	broad.mit.edu	37	chr8	17053124	17053124	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccatctataccaggaccAtgtctggaggtaaatgttga	11	12	9	9	0	2	1	0	1	2	0	3	3	3	3	3	3	1	2	3	3	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:17053124A>G	uc003wxe.2	+	4	761	c.364A>G	c.(364-366)ATG>GTG	p.M122V		NM_016353	NP_057437	Q9UIJ5	ZDHC2_HUMAN	zinc finger, DHHC-type containing 2	122						integral to membrane	acyltransferase activity|zinc ion binding				0				Colorectal(111;0.0697)|COAD - Colon adenocarcinoma(73;0.244)		TACCAGGACCATGTCTGGAGG	0.413													21	73					0	0	0.00278	0	0		G	17053124	G	G	17053124	3	3	19	1	0	0	0	0	1	0	0	0	17635	217	8	3	378	3	ZDHHC2	8	17053124	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1544875	17053124	129310898	1321	14834											
MTUS1	57509	broad.mit.edu	37	chr8	17601244	17601244	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggagcagctatttgcctcAaaccgcaggagtcaggcttg	9	10	12	10	1	2	0	2	0	0	0	2	2	2	2	2	3	4	4	2	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:17601244A>G	uc003wxv.2	-	3	2630	c.2156T>C	c.(2155-2157)TTG>TCG	p.L719S	MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Missense_Mutation_p.L719S|MTUS1_uc010lsz.2_Missense_Mutation_p.L719S	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	719						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		TATTTGCCTCAAACCGCAGGA	0.453													19	139					0	0	0.014323	0	0		G	17601244	G	G	17601244	3	3	19	1	0	0	0	0	1	0	0	0	9983	131	5	3	2027	3	MTUS1	8	17601244	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	548120	17601244	128762778	1322	14835											
PCM1	5108	broad.mit.edu	37	chr8	17810504	17810504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctgttccagacaatagaaGacaggcagaaagtctttcat	15	9	9	8	0	2	4	1	0	1	4	3	4	3	4	1	1	1	3	1	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:17810504G>A	uc003wyi.3	+	9	1519	c.1097G>A	c.(1096-1098)AGA>AAA	p.R366K	PCM1_uc011kyh.1_Missense_Mutation_p.R366K|PCM1_uc003wyj.3_Missense_Mutation_p.R366K|PCM1_uc003wyg.2_Missense_Mutation_p.R366K|PCM1_uc003wyh.2_Missense_Mutation_p.R405K|PCM1_uc010lta.1_Missense_Mutation_p.R405K	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	366					centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		GACAATAGAAGACAGGCAGAA	0.353			T	RET|JAK2	papillary thyroid|CML|MPD								6	19					0	0	0.001168	0	0		A	17810504	A	A	17810504	3	1	19	1	0	0	0	0	1	0	0	0	11603	942	33	4	1123	4	PCM1	8	17810504	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	209260	17810504	128553518	1323	14836											
CSGALNACT1	55790	broad.mit.edu	37	chr8	19363333	19363333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacgcaagcagcccccggcGaaccatcatcattcaggaat	12	5	8	16	3	3	0	3	0	0	0	3	2	3	1	4	2	3	2	4	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:19363333G>A	uc011kyn.1	-	4	1077	c.13C>T	c.(13-15)CGC>TGC	p.R5C	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.R5C|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.R4C|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	5	Cytoplasmic (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		AGCCCCCGGCGAACCATCATC	0.602													17	118					0	0	0.007413	0	0		A	19363333	A	A	19363333	3	1	19	1	0	0	0	0	1	0	0	0	3941	1058	37	1	1613	1	CSGALNACT1	8	19363333	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1552829	19363333	127000689	1324	14837											
SLC18A1	6570	broad.mit.edu	37	chr8	20038350	20038350	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacaaagacccacaaacgtAcccaccacagtaaacagcat	18	3	5	15	1	0	1	0	0	0	1	0	1	0	1	3	0	4	4	3	0	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:20038350A>G	uc011kyq.1	-	3	595	c.124_splice	c.e3+1	p.V42_splice	SLC18A1_uc003wzm.2_Splice_Site_p.V42_splice|SLC18A1_uc011kyr.1_Splice_Site_p.V42_splice|SLC18A1_uc003wzn.2_Splice_Site_p.V42_splice|SLC18A1_uc010ltf.2_Splice_Site|SLC18A1_uc003wzo.2_Splice_Site_p.V42_splice	NM_001135691	NP_001129163	P54219	VMAT1_HUMAN	solute carrier family 18 (vesicular monoamine),						neurotransmitter transport	clathrin sculpted monoamine transport vesicle membrane|integral to membrane|membrane fraction	drug transmembrane transporter activity|monoamine transmembrane transporter activity			ovary(2)	2				Colorectal(74;0.0747)		CCACAAACGTACCCACCACAG	0.547													4	56					0	0	0.009096	0	0		G	20038350	G	G	20038350	5	3	19	1	0	0	0	0	0	0	1	0	14450	405	14	3	1511	3	SLC18A1	8	20038350	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	675017	20038350	126325672	1325	14838											
LZTS1	11178	broad.mit.edu	37	chr8	20110740	20110740	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccagcttgctacctccGtcggagaaggacagagcctt	8	8	12	13	2	0	2	0	0	0	2	2	4	1	3	4	3	4	2	4	3	2	3	rs146205759		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:20110740G>A	uc003wzr.2	-	2	813	c.702C>T	c.(700-702)GAC>GAT	p.D234D	LZTS1_uc010ltg.1_Silent_p.D234D	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	234					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		TGCTACCTCCGTCGGAGAAGG	0.627													43	98					0	0	0.011902	0	0		A	20110740	A	A	20110740	2	1	19	1	0	0	0	0	0	0	0	1	9156	1136	40	1		1	LZTS1	8	20110740	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	72390	20110740	126253282	1326	14839											
FGF17	8822	broad.mit.edu	37	chr8	21904139	21904139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaagaggggcaagctcatcGggaaggtgaggctgggagac	12	4	18	7	1	1	3	1	1	0	2	2	5	1	4	0	6	1	3	0	6	3	0	rs142215324		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:21904139G>A	uc003xag.2	+	4	364	c.352G>A	c.(352-354)GGG>AGG	p.G118R	FGF17_uc003xah.2_Missense_Mutation_p.G107R|FGF17_uc003xai.2_Missense_Mutation_p.G141R	NM_003867	NP_003858	O60258	FGF17_HUMAN	fibroblast growth factor 17 precursor	118					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|nervous system development	extracellular space	growth factor activity|type 1 fibroblast growth factor receptor binding|type 2 fibroblast growth factor receptor binding				0				Colorectal(74;8.48e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0618)		CAAGCTCATCGGGAAGGTGAG	0.552													15	54					0	0	0.00245	0	0		A	21904139	A	A	21904139	3	1	19	1	0	0	0	0	1	0	0	0	5859	1116	39	1	366	1	FGF17	8	21904139	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1793399	21904139	124459883	1327	14840											
HR	55806	broad.mit.edu	37	chr8	21978590	21978590	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactcacactgggcagggcCggagtgacgggggcgaaggc	8	4	18	11	3	2	1	2	1	0	0	2	3	2	2	1	6	0	1	1	6	1	0	rs151306827	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:21978590C>T	uc003xas.2	-	10	3020	c.2355G>A	c.(2353-2355)CCG>CCA	p.P785P	HR_uc003xat.2_Silent_p.P785P	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	785							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		TGGGCAGGGCCGGAGTGACGG	0.662													30	106					0	0	0.004878	0	0		T	21978590	T	T	21978590	2	4	19	1	0	0	0	0	0	0	0	1	7363	639	23	1		1	HR	8	21978590	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	74451	21978590	124385432	1328	14841											
BMP1	649	broad.mit.edu	37	chr8	22054897	22054897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcaagtccgacaacaccGtgtccaaaaagggcttcaag	14	7	9	11	2	2	0	2	0	0	0	4	1	4	0	3	1	1	2	3	1	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:22054897G>A	uc003xbg.2	+	15	2315	c.2071G>A	c.(2071-2073)GTG>ATG	p.V691M	BMP1_uc003xba.2_Missense_Mutation_p.V691M|BMP1_uc003xbb.2_Missense_Mutation_p.V691M|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Missense_Mutation_p.V440M|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Missense_Mutation_p.V440M|BMP1_uc011kzc.1_Missense_Mutation_p.V440M|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	691	CUB 3.				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		CGACAACACCGTGTCCAAAAA	0.567													6	408					0	0	0.001984	0	0		A	22054897	A	A	22054897	3	1	19	1	0	0	0	0	1	0	0	0	1457	1145	40	1	2129	1	BMP1	8	22054897	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	76307	22054897	124309125	1329	14842											
ADAM7	8756	broad.mit.edu	37	chr8	24324356	24324356	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatacctcattgaaccagTgaaatactcagatgagggag	16	8	10	7	0	2	5	2	3	0	2	2	6	2	6	2	1	3	0	2	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:24324356T>C	uc003xeb.2	+	6	547	c.434T>C	c.(433-435)GTG>GCG	p.V145A	ADAM7_uc003xea.1_Missense_Mutation_p.V145A	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	145	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		ATTGAACCAGTGAAATACTCA	0.368													32	107					0	0	0.003755	0	0		C	24324356	C	C	24324356	3	2	19	1	0	0	0	0	1	0	0	0	251	1696	59	3	456	3	ADAM7	8	24324356	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2269459	24324356	122039666	1330	14843											
ADAM7	8756	broad.mit.edu	37	chr8	24350742	24350742	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaaatgtggagagggaatGgtaagacaaaagccctttgt	16	8	12	5	0	0	2	0	0	0	2	0	4	0	3	1	3	1	1	1	3	6	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:24350742G>T	uc003xeb.2	+	16	1955	c.1842G>T	c.(1840-1842)ATG>ATT	p.M614I	ADAM7_uc003xec.2_Missense_Mutation_p.M386I	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	614	Extracellular (Potential).|Cys-rich.				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		GAGAGGGAATGGTAAGACAAA	0.363													4	60					0.00909568	0.00923007	0.009096	1	0		T	24350742	T	T	24350742	3	4	19	1	0	0	0	0	1	0	0	0	251	1362	47	5	1904	5	ADAM7	8	24350742	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	26386	24350742	122013280	1331	14844											
ADRA1A	148	broad.mit.edu	37	chr8	26722095	26722095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatggttgggtagcgcagcGggtagctcacgccgatgtag	7	8	17	9	5	1	0	1	0	0	0	1	2	1	0	1	3	3	6	1	3	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:26722095G>A	uc003xfh.1	-	1	828	c.392C>T	c.(391-393)CCG>CTG	p.P131L	ADRA1A_uc003xfc.1_Missense_Mutation_p.P131L|ADRA1A_uc010lul.1_Missense_Mutation_p.P131L|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.P131L|ADRA1A_uc010lum.1_Missense_Mutation_p.P131L|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.P131L	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	131	Cytoplasmic (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	GTAGCGCAGCGGGTAGCTCAC	0.612													29	72					0	0	0.009535	0	0		A	26722095	A	A	26722095	3	1	19	1	0	0	0	0	1	0	0	0	334	1116	39	1	1307	1	ADRA1A	8	26722095	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2371353	26722095	119641927	1332	14845											
SCARA3	51435	broad.mit.edu	37	chr8	27507229	27507229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcattatagtgaggtcggcCggcggcgatggagatgcctt	7	11	15	8	4	1	2	1	1	0	1	2	4	1	2	2	5	1	0	2	5	2	4	rs142909298		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:27507229C>T	uc003xga.1	+	2	159	c.18C>T	c.(16-18)GCC>GCT	p.A6A	SCARA3_uc003xgb.1_Silent_p.A6A	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	6	Cytoplasmic (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		TGAGGTCGGCCGGCGGCGATG	0.587													5	50					0	0	0.00245	0	0		T	27507229	T	T	27507229	2	4	19	1	0	0	0	0	0	0	0	1	13904	639	23	1		1	SCARA3	8	27507229	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	785134	27507229	118856793	1333	14846											
SCARA3	51435	broad.mit.edu	37	chr8	27516732	27516732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttgagtctctggaaggaCgcatggcttctcacgagatt	8	12	13	8	2	2	2	1	1	2	1	4	5	2	4	0	4	0	3	0	4	1	3	rs143642283		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:27516732C>T	uc003xga.1	+	5	1186	c.1045C>T	c.(1045-1047)CGC>TGC	p.R349C	SCARA3_uc003xgb.1_Missense_Mutation_p.R349C	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	349	Extracellular (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		TCTGGAAGGACGCATGGCTTC	0.522													32	168					0	0	0.012213	0	0		T	27516732	T	T	27516732	3	4	19	1	0	0	0	0	1	0	0	0	13904	536	19	1	1063	1	SCARA3	8	27516732	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	9503	27516732	118847290	1334	14847											
ESCO2	157570	broad.mit.edu	37	chr8	27657181	27657181	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggataagtagaatctgggttTtcagactgaagagaagaaag	16	9	13	3	0	2	5	1	1	1	4	2	7	2	6	0	2	0	2	0	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:27657181T>C	uc003xgg.2	+	10	1704	c.1621T>C	c.(1621-1623)TTC>CTC	p.F541L	ESCO2_uc010luy.1_RNA	NM_001017420	NP_001017420	Q56NI9	ESCO2_HUMAN	establishment of cohesion 1 homolog 2	541					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding			central_nervous_system(1)	1		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|KIRC - Kidney renal clear cell carcinoma(542;0.0955)|Kidney(114;0.115)|Colorectal(74;0.132)		AATCTGGGTTTTCAGACTGAA	0.438									SC_Phocomelia_syndrome				9	298					0	0	0.008291	0	0		C	27657181	C	C	27657181	3	2	19	1	0	0	0	0	1	0	0	0	5257	1841	64	3	1655	3	ESCO2	8	27657181	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	140449	27657181	118706841	1335	14848											
RBPMS	11030	broad.mit.edu	37	chr8	30332344	30332344	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggatatcaaacctcgggAgctctatctgcttttcagac	9	13	8	11	1	5	1	2	0	3	1	6	3	5	3	1	2	3	2	1	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:30332344A>G	uc003xic.1	+	2	781	c.116A>G	c.(115-117)GAG>GGG	p.E39G	RBPMS_uc003xid.1_Missense_Mutation_p.E39G|RBPMS_uc003xie.1_Missense_Mutation_p.E39G|RBPMS_uc003xif.1_5'Flank|RBPMS_uc011lba.1_Missense_Mutation_p.E39G|RBPMS_uc003xib.2_Missense_Mutation_p.E39G|RBPMS_uc010lvh.1_5'UTR	NM_006867	NP_006858	Q93062	RBPMS_HUMAN	RNA-binding protein with multiple splicing	39	RRM.				positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|nucleus	nucleotide binding|poly(A) RNA binding|protein binding|transcription coactivator activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.144)|Kidney(114;0.172)		AAACCTCGGGAGCTCTATCTG	0.403													89	242					0	0	0.01441	0	0		G	30332344	G	G	30332344	3	3	19	1	0	0	0	0	1	0	0	0	13188	304	11	3	122	3	RBPMS	8	30332344	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2675163	30332344	116031678	1336	14849											
GSR	2936	broad.mit.edu	37	chr8	30560644	30560644	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatgaggggtggagggcatAccacctgtggcgatcaggat	9	8	16	8	1	2	1	2	1	0	0	2	4	2	3	2	6	1	1	2	6	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:30560644A>G	uc003xih.1	-	5	697	c.606T>C	c.(604-606)GGT>GGC	p.G202G		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	202					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)	TGGAGGGCATACCACCTGTGG	0.527													6	269					0	0	0.001168	0	0		G	30560644	G	G	30560644	2	3	19	1	0	0	0	0	0	0	0	1	6844	378	14	3		3	GSR	8	30560644	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	228300	30560644	115803378	1337	14850											
PPP2CB	5516	broad.mit.edu	37	chr8	30657228	30657228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagacagtaacagggcaaCgaacctcttgcacatttgat	14	8	8	11	1	1	2	0	1	1	1	1	3	1	2	1	1	4	3	1	1	3	3	rs139426941		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:30657228C>T	uc003xik.2	-	3	381	c.146G>A	c.(145-147)CGT>CAT	p.R49H		NM_004156	NP_004147	P62714	PP2AB_HUMAN	protein phosphatase 2, catalytic subunit, beta	49					protein dephosphorylation	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex|spindle pole	metal ion binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.095)|Kidney(114;0.114)	Vitamin E(DB00163)	AACAGGGCAACGAACCTCTTG	0.333													49	229					0	0	0.01441	0	0		T	30657228	T	T	30657228	3	4	19	1	0	0	0	0	1	0	0	0	12403	536	19	1	807	1	PPP2CB	8	30657228	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	96584	30657228	115706794	1338	14851											
TEX15	56154	broad.mit.edu	37	chr8	30694355	30694355	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctggaggcacaaatcgatTaggaaggtaagggtatgtag	13	10	14	4	1	1	0	0	0	1	0	2	3	1	2	0	5	0	4	0	5	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:30694355T>C	uc003xil.2	-	3	8296	c.8296A>G	c.(8296-8298)AAT>GAT	p.N2766D		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2766										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		ACAAATCGATTAGGAAGGTAA	0.368													67	205					0	0	0.01441	0	0		C	30694355	C	C	30694355	3	2	19	1	0	0	0	0	1	0	0	0	15804	1754	61	3	81	3	TEX15	8	30694355	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	37127	30694355	115669667	1339	14852											
DUSP26	78986	broad.mit.edu	37	chr8	33454979	33454979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggagaccttgagctactccGggagaagcgggccataaaag	13	5	14	9	2	0	3	0	1	0	2	1	5	1	3	3	3	3	1	3	3	4	3	rs114901124	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:33454979G>A	uc003xjp.2	-	2	388	c.55C>T	c.(55-57)CGG>TGG	p.R19W	DUSP26_uc003xjq.2_Missense_Mutation_p.R19W	NM_024025	NP_076930	Q9BV47	DUS26_HUMAN	dual specificity phosphatase 26	19						Golgi apparatus|nucleus	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0				KIRC - Kidney renal clear cell carcinoma(67;0.0918)|Kidney(114;0.111)		GAGCTACTCCGGGAGAAGCGG	0.557													20	72					0	0	0.00278	0	0		A	33454979	A	A	33454979	3	1	19	1	0	0	0	0	1	0	0	0	4829	1115	39	1	592	1	DUSP26	8	33454979	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2760624	33454979	112909043	1340	14853											
UNC5D	137970	broad.mit.edu	37	chr8	35406931	35406931	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccctattgcactcaggtgCaaagcgaggccagccatgca	12	6	10	13	1	1	0	1	0	0	0	1	1	1	0	3	2	6	3	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:35406931C>T	uc003xjr.1	+	2	553	c.225C>T	c.(223-225)TGC>TGT	p.C75C	UNC5D_uc003xjs.1_Silent_p.C70C	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	75	Extracellular (Potential).|Ig-like.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CACTCAGGTGCAAAGCGAGGC	0.507													18	47					0	0	0.007413	0	0		T	35406931	T	T	35406931	2	4	19	1	0	0	0	0	0	0	0	1	17021	718	25	2		2	UNC5D	8	35406931	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1951952	35406931	110957091	1341	14854											
KCNU1	157855	broad.mit.edu	37	chr8	36644862	36644862	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accatcgctaggagccatgtAagaagcctccacttccaggg	11	7	10	13	1	0	1	0	0	0	1	3	2	2	2	5	2	2	2	5	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:36644862A>G	uc010lvw.2	+	2	321	c.234A>G	c.(232-234)GTA>GTG	p.V78V	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	78	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		GGAGCCATGTAAGAAGCCTCC	0.423													4	20					0	0	0.001168	0	0		G	36644862	G	G	36644862	2	3	19	1	0	0	0	0	0	0	0	1	8109	349	13	3		3	KCNU1	8	36644862	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1237931	36644862	109719160	1342	14855											
ZNF703	80139	broad.mit.edu	37	chr8	37556077	37556077	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccctatggcaagagccactTatccacagcggggggcctgg	8	6	13	14	1	0	1	0	0	0	1	1	1	1	1	5	5	2	1	5	5	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:37556077T>C	uc003xjy.1	+	2	1855	c.1658T>C	c.(1657-1659)TTA>TCA	p.L553S		NM_025069	NP_079345	Q9H7S9	ZN703_HUMAN	zinc finger protein 703	553					adherens junction assembly|mammary gland epithelial cell differentiation|negative regulation of homotypic cell-cell adhesion|negative regulation of transcription, DNA-dependent|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of mammary gland epithelial cell proliferation|regulation of canonical Wnt receptor signaling pathway|regulation of cell cycle|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			breast(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(5;7.93e-25)|LUSC - Lung squamous cell carcinoma(8;1.05e-09)			AAGAGCCACTTATCCACAGCG	0.527													3	37					0	0	0.009096	0	0		C	37556077	C	C	37556077	3	2	19	1	0	0	0	0	1	0	0	0	18131	1764	61	3	1664	3	ZNF703	8	37556077	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	911215	37556077	108807945	1343	14856											
GPR124	25960	broad.mit.edu	37	chr8	37696520	37696520	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggcgccggggcagggcTgcaccccgtggtatacccct	4	5	18	14	3	0	0	0	0	0	0	0	0	0	0	5	7	2	4	5	7	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:37696520T>C	uc003xkj.2	+	15	2669	c.2306T>C	c.(2305-2307)CTG>CCG	p.L769P	GPR124_uc010lvy.2_Missense_Mutation_p.L552P	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	769	Extracellular (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			GGGGCAGGGCTGCACCCCGTG	0.662													6	76					0	0	0.001168	0	0		C	37696520	C	C	37696520	3	2	19	1	0	0	0	0	1	0	0	0	6653	1580	55	3	2343	3	GPR124	8	37696520	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	140443	37696520	108667502	1344	14857											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37729770	37729770	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagactcaggaggctctccGtcagacgcgtttccagcaac	9	7	12	13	3	3	2	2	0	1	2	5	4	4	3	2	3	2	3	2	3	1	1	rs142300397		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:37729770G>A	uc003xkm.1	-	4	2594	c.2550C>T	c.(2548-2550)GAC>GAT	p.D850D	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Silent_p.D179D|RAB11FIP1_uc003xko.1_Silent_p.D179D|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	850					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			GAGGCTCTCCGTCAGACGCGT	0.642													6	88					0	0	0.001168	0	0		A	37729770	A	A	37729770	2	1	19	1	0	0	0	0	0	0	0	1	12918	1136	40	1		1	RAB11FIP1	8	37729770	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	33250	37729770	108634252	1345	14858											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37734740	37734740	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aagtcggcaggacagacatgGactgggaaagaggcgtcttc	12	6	15	8	2	1	2	0	0	1	2	3	5	1	5	0	5	0	1	0	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:37734740G>C	uc003xkm.1	-	2	745	c.701C>G	c.(700-702)TCC>TGC	p.S234C	RAB11FIP1_uc010lvz.1_Missense_Mutation_p.S82C|RAB11FIP1_uc003xkn.1_Missense_Mutation_p.S234C|RAB11FIP1_uc003xkp.1_Missense_Mutation_p.S82C	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	234					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			GACAGACATGGACTGGGAAAG	0.458													9	379					0	0	0.008291	0	0		C	37734740	C	C	37734740	3	2	19	1	0	0	0	0	1	0	0	0	12918	1174	41	5	3170	5	RAB11FIP1	8	37734740	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4970	37734740	108629282	1346	14859											
GOT1L1	137362	broad.mit.edu	37	chr8	37791963	37791963	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatctgaccgttcttggggaTatagatgtgcttcttcctga	8	15	10	8	1	3	3	0	2	3	1	4	4	4	4	2	2	1	2	2	2	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:37791963T>A	uc011lbj.1	-	9	1214	c.1114A>T	c.(1114-1116)ATC>TTC	p.I372F		NM_152413	NP_689626	Q8NHS2	AATC2_HUMAN	glutamic-oxaloacetic transaminase 1-like 1	372					biosynthetic process|cellular amino acid metabolic process	cytoplasm	pyridoxal phosphate binding|transaminase activity			ovary(1)	1	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;1.37e-11)			TTCTTGGGGATATAGATGTGC	0.473													9	375					0	0	0.010729	0	0		A	37791963	A	A	37791963	3	1	19	1	0	0	0	0	1	0	0	0	6595	1406	49	5	155	5	GOT1L1	8	37791963	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	57223	37791963	108572059	1347	14860											
WHSC1L1	54904	broad.mit.edu	37	chr8	38146075	38146075	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgatctctgcatcagggTatagtctctttgtaaagcac	10	14	9	8	0	3	2	1	2	2	0	5	2	3	2	0	1	2	4	0	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:38146075T>C	uc003xli.2	-	19	3949	c.3431A>G	c.(3430-3432)TAC>TGC	p.Y1144C	WHSC1L1_uc011lbm.1_Missense_Mutation_p.Y1144C|WHSC1L1_uc010lwe.2_Missense_Mutation_p.Y1095C	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1144	SET.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			TGCATCAGGGTATAGTCTCTT	0.532			T	NUP98	AML								71	192					0	0	0.01441	0	0		C	38146075	C	C	38146075	3	2	19	1	0	0	0	0	1	0	0	0	17389	1638	57	3	906	3	WHSC1L1	8	38146075	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	354112	38146075	108217947	1348	14861											
ANK1	286	broad.mit.edu	37	chr8	41542098	41542098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacagcgagtagtcgcggtCggtgtgccgcctgtctggct	4	10	16	11	5	1	1	0	1	1	0	3	2	1	1	2	3	2	2	2	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:41542098C>T	uc003xok.2	-	37	4585	c.4501G>A	c.(4501-4503)GAC>AAC	p.D1501N	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Missense_Mutation_p.D817N|ANK1_uc003xoi.2_Missense_Mutation_p.D1501N|ANK1_uc003xoj.2_Missense_Mutation_p.D1501N|ANK1_uc003xol.2_Missense_Mutation_p.D1501N|ANK1_uc003xom.2_Missense_Mutation_p.D1542N	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1501	55 kDa regulatory domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TAGTCGCGGTCGGTGTGCCGC	0.617													9	38					0	0	0.010729	0	0		T	41542098	T	T	41542098	3	4	19	1	0	0	0	0	1	0	0	0	620	884	31	1	1494	1	ANK1	8	41542098	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3396023	41542098	104821924	1349	14862											
MYST3	7994	broad.mit.edu	37	chr8	41798556	41798556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcttttcttgagctgtcctCgccagggctcaaccccctca	5	11	9	16	1	3	1	2	1	1	0	5	1	4	1	4	2	2	3	4	2	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:41798556C>T	uc010lxb.2	-	16	3387	c.2843G>A	c.(2842-2844)CGA>CAA	p.R948Q	MYST3_uc010lxc.2_Missense_Mutation_p.R948Q|MYST3_uc003xon.3_Missense_Mutation_p.R948Q	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	948					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			GAGCTGTCCTCGCCAGGGCTC	0.572													56	183					0	0	0.01441	0	0		T	41798556	T	T	41798556	3	4	19	1	0	0	0	0	1	0	0	0	10122	884	31	1	3183	1	MYST3	8	41798556	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	256458	41798556	104565466	1350	14863											
HOOK3	84376	broad.mit.edu	37	chr8	42819609	42819609	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagaacagctccaagaagaAacattcaggtaaaagacaac	20	6	7	8	0	1	4	1	0	0	4	2	4	2	4	1	1	4	2	1	1	8	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:42819609A>G	uc003xpr.2	+	9	1013	c.771A>G	c.(769-771)GAA>GAG	p.E257E	HOOK3_uc010lxq.1_Silent_p.E257E	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	257	Potential.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			TCCAAGAAGAAACATTCAGGT	0.303			T	RET	papillary thyroid								5	146					0	0	0.000602	0	0		G	42819609	G	G	42819609	2	3	19	1	0	0	0	0	0	0	0	1	7300	11	1	3		3	HOOK3	8	42819609	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1021053	42819609	103544413	1351	14864											
HGSNAT	138050	broad.mit.edu	37	chr8	43048914	43048914	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaaggtactttaccacacCgaggtggcctatgaccccga	10	9	10	12	2	0	1	0	1	0	0	0	3	0	1	5	3	2	2	5	3	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:43048914C>A	uc003xpx.3	+	14	1440	c.1392C>A	c.(1390-1392)ACC>ACA	p.T464T		NM_152419	NP_689632	Q68CP4	HGNAT_HUMAN	heparan-alpha-glucosaminide N-acetyltransferase	492	Lumenal, vesicle (Potential).				lysosomal transport|protein oligomerization	integral to membrane|lysosomal membrane	heparan-alpha-glucosaminide N-acetyltransferase activity				0	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			TTTACCACACCGAGGTGGCCT	0.453													29	125					1.39806e-14	1.47719e-14	0.008361	1	0		A	43048914	A	A	43048914	2	1	19	1	0	0	0	0	0	0	0	1	7104	639	23	5		5	HGSNAT	8	43048914	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	229305	43048914	103315108	1352	14865											
MCM4	4173	broad.mit.edu	37	chr8	48888286	48888286	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaatcagggatgagtgccAcctctcgtaaacggaaagaa	15	8	10	8	2	2	2	1	1	1	1	3	4	2	4	2	2	2	1	2	2	6	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:48888286A>G	uc003xqk.1	+	16	2472	c.2377A>G	c.(2377-2379)ACC>GCC	p.T793A	MCM4_uc003xql.1_Missense_Mutation_p.T793A|MCM4_uc011ldi.1_Missense_Mutation_p.T780A	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	793					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				GATGAGTGCCACCTCTCGTAA	0.318													3	49					0	0	0.009096	0	0		G	48888286	G	G	48888286	3	3	19	1	0	0	0	0	1	0	0	0	9407	159	6	3	2435	3	MCM4	8	48888286	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5839372	48888286	97475736	1353	14866											
PXDNL	137902	broad.mit.edu	37	chr8	52321166	52321166	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgtgctgcagctccgcGcccacgatcttcctggcttc	4	11	11	15	3	1	1	0	1	1	0	4	2	3	1	3	1	3	4	3	1	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:52321166G>A	uc003xqu.3	-	17	3119	c.3018C>T	c.(3016-3018)GGC>GGT	p.G1006G	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1006					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GCAGCTCCGCGCCCACGATCT	0.622													8	12					0	0	0.008291	0	0		A	52321166	A	A	52321166	2	1	19	1	0	0	0	0	0	0	0	1	12873	1074	38	1		1	PXDNL	8	52321166	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3432880	52321166	94042856	1354	14867											
ST18	9705	broad.mit.edu	37	chr8	53073967	53073967	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgtttttcgtccttgcActgtttgtatgagagggcgt	4	17	14	6	2	0	1	0	1	0	1	2	2	1	1	1	2	1	4	1	2	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:53073967A>T	uc003xqz.2	-	9	1718	c.1562T>A	c.(1561-1563)GTG>GAG	p.V521E	ST18_uc011ldq.1_Missense_Mutation_p.V168E|ST18_uc011ldr.1_Missense_Mutation_p.V486E|ST18_uc011lds.1_Missense_Mutation_p.V426E|ST18_uc003xra.2_Missense_Mutation_p.V521E|ST18_uc003xrb.2_Missense_Mutation_p.V521E	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	521						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				TCGTCCTTGCACTGTTTGTAT	0.428													58	228					0	0	0.01441	0	0		T	53073967	T	T	53073967	3	4	19	1	0	0	0	0	1	0	0	0	15237	159	6	5	1633	5	ST18	8	53073967	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	752801	53073967	93290055	1355	14868											
XKR4	114786	broad.mit.edu	37	chr8	56015361	56015361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgcctgggcagggagcagCggcgctactcactgtgggac	6	6	17	12	3	1	0	1	0	0	0	1	2	1	2	1	4	4	3	1	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:56015361C>T	uc003xsf.2	+	1	345	c.313C>T	c.(313-315)CGG>TGG	p.R105W		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	105						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			CAGGGAGCAGCGGCGCTACTC	0.478													13	38					0	0	0.004007	0	0		T	56015361	T	T	56015361	3	4	19	1	0	0	0	0	1	0	0	0	17459	759	27	1	315	1	XKR4	8	56015361	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2941394	56015361	90348661	1356	14869											
XKR4	114786	broad.mit.edu	37	chr8	56015787	56015787	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcaagcacaggtctgcgTcctgctccttctgcatctgg	5	11	12	13	1	3	0	0	0	3	0	5	0	5	0	2	3	4	4	2	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:56015787T>C	uc003xsf.2	+	1	771	c.739T>C	c.(739-741)TCC>CCC	p.S247P		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	247						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			CAGGTCTGCGTCCTGCTCCTT	0.602													21	91					0	0	0.00278	0	0		C	56015787	C	C	56015787	3	2	19	1	0	0	0	0	1	0	0	0	17459	1667	58	3	741	3	XKR4	8	56015787	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	426	56015787	90348235	1357	14870											
PLAG1	5324	broad.mit.edu	37	chr8	57078885	57078885	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgacagtgagtgcagagAcccaagccctatagtgtttg	10	10	12	9	0	0	3	0	2	0	1	0	4	0	3	2	0	3	3	2	0	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:57078885A>G	uc003xsq.3	-	3	1871	c.1420T>C	c.(1420-1422)TCT>CCT	p.S474P	PLAG1_uc003xsr.3_Missense_Mutation_p.S474P|PLAG1_uc010lyi.2_Missense_Mutation_p.S474P|PLAG1_uc010lyj.2_Missense_Mutation_p.S392P	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	474	Activates transcription; Inhibition of nuclear import due to lack of NLS and KPNA2 interaction.|Massively activates transcription.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			GAGTGCAGAGACCCAAGCCCT	0.493			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								45	243					0	0	0.013114	0	0		G	57078885	G	G	57078885	3	3	19	1	0	0	0	0	1	0	0	0	12037	275	10	3	86	3	PLAG1	8	57078885	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1063098	57078885	89285137	1358	14871											
PLAG1	5324	broad.mit.edu	37	chr8	57079206	57079206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttgggatgaagagggcaCgccaccttgtaactccatca	11	9	10	11	1	2	2	1	1	1	1	3	3	3	3	3	2	1	2	3	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:57079206C>T	uc003xsq.3	-	3	1550	c.1099G>A	c.(1099-1101)GTG>ATG	p.V367M	PLAG1_uc003xsr.3_Missense_Mutation_p.V367M|PLAG1_uc010lyi.2_Missense_Mutation_p.V367M|PLAG1_uc010lyj.2_Missense_Mutation_p.V285M	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	367	Activates transcription; Inhibition of nuclear import due to lack of NLS and KPNA2 interaction.|Repression domain; contains 3 sumoylation motifs and massively decrease transcription activity.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			GAAGAGGGCACGCCACCTTGT	0.458			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								53	147					0	0	0.01441	0	0		T	57079206	T	T	57079206	3	4	19	1	0	0	0	0	1	0	0	0	12037	536	19	1	407	1	PLAG1	8	57079206	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	321	57079206	89284816	1359	14872											
CYP7A1	1581	broad.mit.edu	37	chr8	59407183	59407183	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcagtagctgctttcatTgcttctgggttcctattaaa	7	18	7	9	0	4	0	2	0	2	0	5	0	5	0	1	1	3	5	1	1	4	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:59407183T>C	uc003xtm.3	-	4	984	c.921A>G	c.(919-921)GCA>GCG	p.A307A		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	307					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				CTGCTTTCATTGCTTCTGGGT	0.373									Neonatal_Giant_Cell_Hepatitis				9	154					0	0	0.010729	0	0		C	59407183	C	C	59407183	2	2	19	1	0	0	0	0	0	0	0	1	4199	1799	63	3		3	CYP7A1	8	59407183	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2327977	59407183	86956839	1360	14873											
NSMAF	8439	broad.mit.edu	37	chr8	59522202	59522202	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaatacaggtttgtgtcCgtgatgcacacgtgtccagg	10	11	12	8	2	0	2	0	2	0	0	2	2	2	2	2	2	2	2	2	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:59522202C>T	uc003xtt.2	-	10	862	c.648G>A	c.(646-648)ACG>ACA	p.T216T	NSMAF_uc011lee.1_Silent_p.T247T|NSMAF_uc003xtu.2_Silent_p.T216T	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	216	GRAM.				ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				GGTTTGTGTCCGTGATGCACA	0.502													18	57					0	0	0.00499	0	0		T	59522202	T	T	59522202	2	4	19	1	0	0	0	0	0	0	0	1	10693	639	23	1		1	NSMAF	8	59522202	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	115019	59522202	86841820	1361	14874											
CHD7	55636	broad.mit.edu	37	chr8	61765496	61765496	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgagcaggttctccatcAcccccagctgggagagaggc	8	5	13	15	2	2	1	1	0	1	1	3	4	2	2	4	3	2	3	4	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:61765496A>G	uc003xue.2	+	31	6689	c.6212A>G	c.(6211-6213)CAC>CGC	p.H2071R		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2071					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GTTCTCCATCACCCCCAGCTG	0.582													38	88					0	0	0.009718	0	0		G	61765496	G	G	61765496	3	3	19	1	0	0	0	0	1	0	0	0	3333	159	6	3	6330	3	CHD7	8	61765496	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2243294	61765496	84598526	1362	14875											
MTFR1	9650	broad.mit.edu	37	chr8	66619270	66619270	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagattctaccacatttggTaccataccaccacaccctcc	11	11	3	16	0	1	1	0	0	1	1	2	1	2	1	6	1	3	1	6	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:66619270T>C	uc003xvm.2	+	6	755	c.543T>C	c.(541-543)GGT>GGC	p.G181G	MTFR1_uc011lep.1_Silent_p.G181G|MTFR1_uc003xvn.2_Silent_p.G148G|MTFR1_uc003xvo.1_Silent_p.G171G	NM_014637	NP_055452	Q15390	MTFR1_HUMAN	mitochondrial fission regulator 1 isoform 1	181						mitochondrion|plasma membrane				pancreas(1)	1			Epithelial(68;0.0526)|BRCA - Breast invasive adenocarcinoma(89;0.156)|all cancers(69;0.171)|OV - Ovarian serous cystadenocarcinoma(28;0.194)			CCACATTTGGTACCATACCAC	0.443													10	89					0	0	0.001855	0	0		C	66619270	C	C	66619270	2	2	19	1	0	0	0	0	0	0	0	1	9943	1625	57	3		3	MTFR1	8	66619270	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4853774	66619270	79744752	1363	14876											
CRH	1392	broad.mit.edu	37	chr8	67089245	67089245	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccagggagatgggaggCtcctcggaccgcctttctct	7	9	13	12	2	1	2	0	0	1	2	5	5	3	4	4	4	0	1	4	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:67089245C>T	uc003xvy.1	-	2	653	c.468G>A	c.(466-468)GAG>GAA	p.E156E		NM_000756	NP_000747	P06850	CRF_HUMAN	corticotropin releasing hormone precursor	156					female pregnancy|negative regulation of circadian sleep/wake cycle, REM sleep|parturition|positive regulation of circadian sleep/wake cycle, wakefulness|positive regulation of cortisol secretion|signal transduction|synaptic transmission	extracellular region|soluble fraction	neuropeptide hormone activity				0		all_cancers(86;2.58e-06)|all_epithelial(80;6.27e-09)|all_lung(136;0.000414)|Lung NSC(129;0.0011)	Epithelial(68;0.0136)|all cancers(69;0.0507)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)		Corticotropin(DB01285)	AGATGGGAGGCTCCTCGGACC	0.662											OREG0018805	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	37					0	0	0.013537	0	0		T	67089245	T	T	67089245	2	4	19	1	0	0	0	0	0	0	0	1	3872	796	28	2		2	CRH	8	67089245	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	469975	67089245	79274777	1364	14877											
RRS1	23212	broad.mit.edu	37	chr8	67341501	67341501	+	Frame_Shift_Del	DEL	C	-	-																															ctgctggcgtcggaccggaaCcccccgaccgggctgcggtg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:67341501delC	uc003xwa.2	+	1	239	c.135delC	c.(133-135)AACfs	p.N45fs		NM_015169	NP_055984	Q15050	RRS1_HUMAN	homolog of yeast ribosome biogenesis regulatory	45					mitotic metaphase plate congression|ribosome biogenesis	condensed nuclear chromosome|nucleolus					0		Lung NSC(129;0.197)	Epithelial(68;0.0391)|all cancers(69;0.0898)|BRCA - Breast invasive adenocarcinoma(89;0.111)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			CGGACCGGAACCCCCCGACCG	0.672											OREG0018806	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	14	---	---	---	---						.	-	67341501	-	-	67341501	7	5	19	1	0	1	0	1	0	0	0	0	13717	506	18	0	137	0	RRS1	8	67341501	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	252256	67341501	79022521	1365	14878											
MYBL1	4603	broad.mit.edu	37	chr8	67488460	67488460	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accattacaagtgtttttttTcccttcaagtacaagactga	12	15	5	9	0	1	2	1	1	0	1	2	2	2	2	2	0	2	2	2	0	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:67488460T>C	uc003xwj.2	-	10	1659	c.1252A>G	c.(1252-1254)AAA>GAA	p.K418E	MYBL1_uc003xwl.2_Missense_Mutation_p.K418E|MYBL1_uc003xwk.2_Missense_Mutation_p.K417E	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog	418	Negative regulatory domain (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			GTGTTTTTTTTCCCTTCAAGT	0.413													38	315					0	0	0.007835	0	0		C	67488460	C	C	67488460	3	2	19	1	0	0	0	0	1	0	0	0	10027	1792	62	3	1034	3	MYBL1	8	67488460	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	146959	67488460	78875562	1366	14879											
VCPIP1	80124	broad.mit.edu	37	chr8	67578127	67578127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttatgcctaccaaggggAtataatggtttctaccggag	10	13	10	8	1	1	0	0	0	1	0	1	2	1	2	3	4	3	1	3	4	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:67578127A>G	uc003xwn.2	-	1	1326	c.1067T>C	c.(1066-1068)ATC>ACC	p.I356T	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	356	OTU.				protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			TACCAAGGGGATATAATGGTT	0.463													51	194					0	0	0.01441	0	0		G	67578127	G	G	67578127	3	3	19	1	0	0	0	0	1	0	0	0	17167	333	12	3	2613	3	VCPIP1	8	67578127	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	89667	67578127	78785895	1367	14880											
CSPP1	79848	broad.mit.edu	37	chr8	68044279	68044279	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccgaaaccttccaaacaGtcacttcagtcttaccaaga	16	8	4	13	1	3	1	2	0	1	1	4	2	4	1	4	0	4	0	4	0	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:68044279G>A	uc003xxi.2	+	16	1912	c.1881G>A	c.(1879-1881)CAG>CAA	p.Q627Q	CSPP1_uc003xxg.1_Silent_p.Q619Q|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Silent_p.Q592Q|CSPP1_uc003xxk.2_Silent_p.Q298Q	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	627	Potential.					centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			CTTCCAAACAGTCACTTCAGT	0.363													31	93					0	0	0.010818	0	0		A	68044279	A	A	68044279	2	1	19	1	0	0	0	0	0	0	0	1	3965	1020	36	4		4	CSPP1	8	68044279	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	466152	68044279	78319743	1368	14881											
ARFGEF1	10565	broad.mit.edu	37	chr8	68200234	68200234	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctacaatgttctgtacaAtgtcttgtggcttttcctca	7	18	6	10	0	4	0	1	0	3	0	5	0	5	0	1	1	2	3	1	1	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:68200234A>G	uc003xxo.1	-	7	1373	c.983T>C	c.(982-984)ATT>ACT	p.I328T		NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	328					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GTTCTGTACAATGTCTTGTGG	0.313													8	225					0	0	0.004482	0	0		G	68200234	G	G	68200234	3	3	19	1	0	0	0	0	1	0	0	0	852	101	4	3	4698	3	ARFGEF1	8	68200234	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	155955	68200234	78163788	1369	14882											
CPA6	57094	broad.mit.edu	37	chr8	68334846	68334846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtaaaaatccaaaatatcCagtgtcacgtagttcgaaag	17	9	8	7	2	1	0	1	0	0	0	4	2	3	0	2	0	0	3	2	0	8	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:68334846C>T	uc003xxq.3	-	11	1463	c.1207G>A	c.(1207-1209)GGA>AGA	p.G403R	CPA6_uc003xxr.3_Missense_Mutation_p.G159R	NM_020361	NP_065094	Q8N4T0	CBPA6_HUMAN	carboxypeptidase A6 isoform 1 precursor	403					proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)			CCAAAATATCCAGTGTCACGT	0.383													57	150					0	0	0.01441	0	0		T	68334846	T	T	68334846	3	4	19	1	0	0	0	0	1	0	0	0	3797	603	21	4	110	4	CPA6	8	68334846	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	134612	68334846	78029176	1370	14883											
PREX2	80243	broad.mit.edu	37	chr8	69021847	69021847	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggagatgtgtgtttgTcaaatagatgagtaagtgtt	11	14	15	1	0	1	3	1	1	0	2	1	5	1	3	0	2	0	3	0	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:69021847T>C	uc003xxv.1	+	25	3162	c.3135T>C	c.(3133-3135)TGT>TGC	p.C1045C	PREX2_uc011lez.1_Silent_p.C980C	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1045					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TGTGTGTTTGTCAAATAGATG	0.353													41	119					0	0	0.007835	0	0		C	69021847	C	C	69021847	2	2	19	1	0	0	0	0	0	0	0	1	12499	1673	58	3		3	PREX2	8	69021847	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	687001	69021847	77342175	1371	14884											
SLCO5A1	81796	broad.mit.edu	37	chr8	70585127	70585127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagggcggctccaaggcagCggggctctcttccagccccg	5	5	16	15	3	1	0	0	0	1	0	4	1	3	1	4	6	2	3	4	6	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:70585127C>T	uc003xyl.2	-	10	3231	c.2524G>A	c.(2524-2526)GCT>ACT	p.A842T	SLCO5A1_uc010lzb.2_Missense_Mutation_p.A787T|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_3'UTR	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	842						integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			TCCAAGGCAGCGGGGCTCTCT	0.532													16	72					0	0	0.006122	0	0		T	70585127	T	T	70585127	3	4	19	1	0	0	0	0	1	0	0	0	14756	768	27	1	26	1	SLCO5A1	8	70585127	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1563280	70585127	75778895	1372	14885											
SLCO5A1	81796	broad.mit.edu	37	chr8	70617453	70617453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaacaccagcactggggaCgataataacccctggggaga	14	4	11	12	1	0	1	0	0	0	1	0	4	0	2	4	4	3	1	4	4	3	2	rs141622109		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:70617453C>T	uc003xyl.2	-	6	2142	c.1435G>A	c.(1435-1437)GTC>ATC	p.V479I	SLCO5A1_uc010lzb.2_Missense_Mutation_p.V424I|SLCO5A1_uc011lfa.1_Intron|SLCO5A1_uc003xyk.2_Missense_Mutation_p.V479I|SLCO5A1_uc010lzc.2_Missense_Mutation_p.V424I	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	479	Helical; Name=8; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			GCACTGGGGACGATAATAACC	0.413													29	73					0	0	0.007291	0	0		T	70617453	T	T	70617453	3	4	19	1	0	0	0	0	1	0	0	0	14756	536	19	1	1131	1	SLCO5A1	8	70617453	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	32326	70617453	75746569	1373	14886											
NCOA2	10499	broad.mit.edu	37	chr8	71068739	71068739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagctctctcactgctcaCggccgggggcaggttggggt	4	9	16	12	2	4	0	3	0	1	0	5	0	4	0	1	6	2	4	1	6	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:71068739C>T	uc003xyn.1	-	11	2023	c.1861G>A	c.(1861-1863)GTG>ATG	p.V621M		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	621					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TCACTGCTCACGGCCGGGGGC	0.562			T	RUNXBP2	AML								36	168					0	0	0.004289	0	0		T	71068739	T	T	71068739	3	4	19	1	0	0	0	0	1	0	0	0	10248	536	19	1	2585	1	NCOA2	8	71068739	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	451286	71068739	75295283	1374	14887											
LACTB2	51110	broad.mit.edu	37	chr8	71556421	71556421	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccagaaaagatagcattTtcctcttctaagagtagagc	13	12	7	9	0	3	4	0	0	3	4	5	4	4	4	2	0	2	2	2	0	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:71556421T>C	uc011lfd.1	-	4	563	c.471A>G	c.(469-471)GAA>GAG	p.E157E	LACTB2_uc003xyp.2_Silent_p.E157E	NM_016027	NP_057111	Q53H82	LACB2_HUMAN	lactamase, beta 2	157							hydrolase activity|metal ion binding			ovary(1)	1	Breast(64;0.0716)		Epithelial(68;0.00319)|all cancers(69;0.0175)|OV - Ovarian serous cystadenocarcinoma(28;0.0628)|BRCA - Breast invasive adenocarcinoma(89;0.166)			AGATAGCATTTTCCTCTTCTA	0.358													17	499					0	0	0.006122	0	0		C	71556421	C	C	71556421	2	2	19	1	0	0	0	0	0	0	0	1	8614	1838	64	3		3	LACTB2	8	71556421	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	487682	71556421	74807601	1375	14888											
EYA1	2138	broad.mit.edu	37	chr8	72127938	72127938	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccctcaactgcagccaggcTtccctcttagctggaccaag	8	8	9	16	0	2	0	1	0	1	0	3	1	3	1	4	2	4	3	4	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:72127938T>G	uc003xys.3	-	14	1673	c.1386A>C	c.(1384-1386)GAA>GAC	p.E462D	EYA1_uc003xyr.3_Missense_Mutation_p.E427D|EYA1_uc003xyt.3_Missense_Mutation_p.E429D|EYA1_uc010lzf.2_Missense_Mutation_p.E389D|EYA1_uc003xyu.2_Missense_Mutation_p.E462D|EYA1_uc011lfe.1_Missense_Mutation_p.E456D|EYA1_uc003xyv.2_Missense_Mutation_p.E340D	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	462					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			GCAGCCAGGCTTCCCTCTTAG	0.498													8	79					0	0	0.00308	0	0		G	72127938	G	G	72127938	3	3	19	1	0	0	0	0	1	0	0	0	5336	1606	56	5	408	5	EYA1	8	72127938	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	571517	72127938	74236084	1376	14889											
MSC	9242	broad.mit.edu	37	chr8	72756065	72756065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcacgcgcatccgggcacGctcacgggcgttggccgcgt	5	5	15	16	8	1	0	1	0	0	0	2	0	2	0	2	3	1	5	2	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:72756065G>A	uc003xyx.1	-	1	667	c.349C>T	c.(349-351)CGT>TGT	p.R117C	uc011lff.1_Intron|uc003xyy.2_5'Flank	NM_005098	NP_005089	O60682	MUSC_HUMAN	musculin	117	Basic motif.				transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Breast(64;0.176)		Epithelial(68;0.137)|BRCA - Breast invasive adenocarcinoma(89;0.203)			ATCCGGGCACGCTCACGGGCG	0.687											OREG0018826	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	44					0	0	0.006122	0	0		A	72756065	A	A	72756065	3	1	19	1	0	0	0	0	1	0	0	0	9886	1087	38	1	279	1	MSC	8	72756065	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	628127	72756065	73607957	1377	14890											
TRPA1	8989	broad.mit.edu	37	chr8	72950278	72950278	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacttgataaaaacactaaAatcatacaagtttttattag	19	14	3	5	0	1	1	1	1	0	0	1	1	1	1	0	0	3	1	0	0	10	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:72950278A>G	uc003xza.2	-	20	2500	c.2325T>C	c.(2323-2325)ATT>ATC	p.I775I	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	775	Helical; Name=2; (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AAAACACTAAAATCATACAAG	0.269													4	11					0	0	0.001168	0	0		G	72950278	G	G	72950278	2	3	19	1	0	0	0	0	0	0	0	1	16603	10	1	3		3	TRPA1	8	72950278	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	194213	72950278	73413744	1378	14891											
TRPA1	8989	broad.mit.edu	37	chr8	72973946	72973946	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatatcatcagtttaacaatCtcagtggctccctgggtggc	9	12	10	10	0	3	0	3	0	1	0	5	1	4	0	1	3	1	2	1	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:72973946C>T	uc003xza.2	-	7	1033	c.858G>A	c.(856-858)GAG>GAA	p.E286E		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	286	Cytoplasmic (Potential).|ANK 7.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GTTTAACAATCTCAGTGGCTC	0.423													24	112					0	0	0.005443	0	0		T	72973946	T	T	72973946	2	4	19	1	0	0	0	0	0	0	0	1	16603	912	32	4		4	TRPA1	8	72973946	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	23668	72973946	73390076	1379	14892											
TMEM70	54968	broad.mit.edu	37	chr8	74888567	74888567	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggtcgaactgcctctctgCggaaggaggactgcattgtg	7	9	15	10	3	1	0	0	0	1	0	3	4	1	3	1	4	4	1	1	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:74888567C>T	uc003yab.2	+	1	138	c.51C>T	c.(49-51)TGC>TGT	p.C17C	TMEM70_uc003yac.2_Silent_p.C17C	NM_017866	NP_060336	Q9BUB7	TMM70_HUMAN	transmembrane protein 70 isoform a	17					mitochondrial proton-transporting ATP synthase complex assembly	integral to mitochondrial membrane|mitochondrial inner membrane				ovary(1)	1	Breast(64;0.0311)		Epithelial(68;0.0186)|BRCA - Breast invasive adenocarcinoma(89;0.0499)|all cancers(69;0.0564)			TGCCTCTCTGCGGAAGGAGGA	0.721													6	17					0	0	0.006214	0	0		T	74888567	T	T	74888567	2	4	19	1	0	0	0	0	0	0	0	1	16224	776	27	1		1	TMEM70	8	74888567	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1914621	74888567	71475455	1380	14893											
JPH1	56704	broad.mit.edu	37	chr8	75227698	75227698	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggctgtcggcggcggctgcGgcgtcgtggagcacgctgcc	2	6	20	13	7	0	0	0	0	0	0	2	1	0	1	1	6	3	4	1	6	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:75227698G>A	uc003yae.2	-	2	577	c.537C>T	c.(535-537)GCC>GCT	p.A179A	JPH1_uc003yaf.2_Silent_p.A179A|JPH1_uc003yag.1_Silent_p.A43A	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	179	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			CGGCGGCTGCGGCGTCGTGGA	0.706													4	24					0	0	0.006214	0	0		A	75227698	A	A	75227698	2	1	19	1	0	0	0	0	0	0	0	1	7976	1103	39	1		1	JPH1	8	75227698	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	339131	75227698	71136324	1381	14894											
GDAP1	54332	broad.mit.edu	37	chr8	75272475	75272475	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatggatgcctatacacaTggctgcattttacatcctga	11	12	7	11	0	0	1	0	1	0	0	1	2	1	2	3	2	4	2	3	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:75272475T>C	uc003yah.2	+	3	493	c.414T>C	c.(412-414)CAT>CAC	p.H138H	GDAP1_uc011lfj.1_Silent_p.H23H|GDAP1_uc003yai.2_Silent_p.H70H	NM_018972	NP_061845	Q8TB36	GDAP1_HUMAN	ganglioside-induced differentiation-associated	138						cytoplasm					0	Breast(64;0.00769)	Myeloproliferative disorder(644;0.0122)	BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.104)|all cancers(69;0.234)			CCTATACACATGGCTGCATTT	0.433													34	130					0	0	0.005524	0	0		C	75272475	C	C	75272475	2	2	19	1	0	0	0	0	0	0	0	1	6322	1461	51	3		3	GDAP1	8	75272475	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	44777	75272475	71091547	1382	14895											
ZFHX4	79776	broad.mit.edu	37	chr8	77616900	77616900	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttctacccacagatcatcAacacttttcatatcgcttca	11	13	3	14	2	5	1	4	0	1	1	6	1	5	1	1	0	2	2	1	0	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:77616900A>G	uc003yav.2	+	2	964	c.577A>G	c.(577-579)AAC>GAC	p.N193D	ZFHX4_uc003yat.1_Missense_Mutation_p.N193D|ZFHX4_uc003yau.1_Missense_Mutation_p.N193D|ZFHX4_uc003yaw.1_Missense_Mutation_p.N193D	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	193						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACAGATCATCAACACTTTTCA	0.488										HNSCC(33;0.089)			12	42					0	0	0.013537	0	0		G	77616900	G	G	77616900	3	3	19	1	0	0	0	0	1	0	0	0	17660	130	5	3	579	3	ZFHX4	8	77616900	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2344425	77616900	68747122	1383	14896											
ZFHX4	79776	broad.mit.edu	37	chr8	77690625	77690625	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcctggcaccagaggaggAcaacctcagtgagatctttt	11	8	12	10	0	2	2	1	1	1	2	2	5	2	4	3	4	1	1	3	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:77690625A>T	uc003yav.2	+	4	3584	c.3197A>T	c.(3196-3198)GAC>GTC	p.D1066V	ZFHX4_uc003yau.1_Missense_Mutation_p.D1092V|ZFHX4_uc003yaw.1_Missense_Mutation_p.D1066V	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1066						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCAGAGGAGGACAACCTCAGT	0.527										HNSCC(33;0.089)			7	254					0	0	0.004482	0	0		T	77690625	T	T	77690625	3	4	19	1	0	0	0	0	1	0	0	0	17660	275	10	5	3285	5	ZFHX4	8	77690625	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	73725	77690625	68673397	1384	14897											
DCAF4L2	138009	broad.mit.edu	37	chr8	88885724	88885724	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgaacagcgacgctgggAgcagcacggcacagcttgga	11	5	14	11	3	0	1	0	1	0	0	0	4	0	3	0	3	5	5	0	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:88885724A>G	uc003ydz.2	-	1	573	c.476T>C	c.(475-477)CTC>CCC	p.L159P		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	159										ovary(1)	1						CGACGCTGGGAGCAGCACGGC	0.562													46	110					0	0	0.010771	0	0		G	88885724	G	G	88885724	3	3	19	1	0	0	0	0	1	0	0	0	4275	304	11	3	715	3	DCAF4L2	8	88885724	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	11195099	88885724	57478298	1385	14898											
NBN	4683	broad.mit.edu	37	chr8	90976668	90976668	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggccctgaggatcacagtAattctttgtagtcatgaaaa	13	12	9	7	0	3	2	2	2	1	0	3	3	3	3	1	2	0	2	1	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:90976668A>G	uc003yej.1	-	8	1074	c.964T>C	c.(964-966)TAC>CAC	p.Y322H	NBN_uc003yei.1_Missense_Mutation_p.Y240H|NBN_uc011lgb.1_Missense_Mutation_p.Y322H	NM_002485	NP_002476	O60934	NBN_HUMAN	nibrin	322					cell cycle arrest|DNA damage response, signal transduction by p53 class mediator|DNA duplex unwinding|double-strand break repair via homologous recombination|meiosis|mitotic cell cycle G1/S transition checkpoint|mitotic cell cycle G2/M transition DNA damage checkpoint|positive regulation of kinase activity|positive regulation of protein autophosphorylation|regulation of DNA-dependent DNA replication initiation|telomere maintenance	Mre11 complex|nuclear chromosome, telomeric region|nuclear inclusion body|nucleolus|nucleoplasm	protein N-terminus binding|transcription factor binding			central_nervous_system(3)|kidney(3)|lung(1)	7			BRCA - Breast invasive adenocarcinoma(11;0.0344)			GGATCACAGTAATTCTTTGTA	0.328								Direct_reversal_of_damage|Homologous_recombination	Nijmegen_Breakage_syndrome				8	162					0	0	0.00308	0	0		G	90976668	G	G	90976668	3	3	19	1	0	0	0	0	1	0	0	0	10209	362	13	3	1336	3	NBN	8	90976668	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2090944	90976668	55387354	1386	14899											
DECR1	1666	broad.mit.edu	37	chr8	91054988	91054988	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatggggtaaatatggaaTgcgattcaatgtgattcaac	14	12	11	4	1	2	2	2	2	0	0	2	4	2	3	0	3	2	1	0	3	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:91054988T>C	uc003yek.1	+	7	839	c.698T>C	c.(697-699)ATG>ACG	p.M233T	DECR1_uc011lgc.1_Missense_Mutation_p.M224T|DECR1_uc011lgd.1_RNA	NM_001359	NP_001350	Q16698	DECR_HUMAN	2,4-dienoyl CoA reductase 1 precursor	233					fatty acid beta-oxidation|protein homotetramerization	mitochondrial matrix|nucleus|plasma membrane	2,4-dienoyl-CoA reductase (NADPH) activity|NADPH binding|oxidoreductase activity, acting on NADH or NADPH				0			BRCA - Breast invasive adenocarcinoma(11;0.00953)			AAATATGGAATGCGATTCAAT	0.308													9	267					0	0	0.006214	0	0		C	91054988	C	C	91054988	3	2	19	1	0	0	0	0	1	0	0	0	4385	1464	51	3	724	3	DECR1	8	91054988	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	78320	91054988	55309034	1387	14900											
SLC26A7	115111	broad.mit.edu	37	chr8	92307862	92307862	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaacacaagcgtgctgggCttatccgactttgaaatgca	12	10	10	9	2	0	1	0	1	0	0	1	2	1	1	1	1	4	4	1	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:92307862C>T	uc003yex.2	+	5	686	c.408C>T	c.(406-408)GGC>GGT	p.G136G	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Silent_p.G136G|SLC26A7_uc003yfa.2_Silent_p.G136G	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	136	Extracellular (Potential).					basolateral plasma membrane|integral to membrane|recycling endosome membrane	anion:anion antiporter activity|bicarbonate transmembrane transporter activity|chloride channel activity|oxalate transmembrane transporter activity|sulfate transmembrane transporter activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.00802)			GCGTGCTGGGCTTATCCGACT	0.478													30	100					0	0	0.00632	0	0		T	92307862	T	T	92307862	2	4	19	1	0	0	0	0	0	0	0	1	14547	784	28	2		2	SLC26A7	8	92307862	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1252874	92307862	54056160	1388	14901											
RBM12B	389677	broad.mit.edu	37	chr8	94748049	94748049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgaagcaaattttactatgGcatcaccattatttcggcca	13	13	6	9	1	1	1	1	1	0	0	2	1	1	1	2	2	2	2	2	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:94748049G>A	uc003yfz.2	-	3	783	c.590C>T	c.(589-591)GCC>GTC	p.A197V		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	197	RRM 1.						nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			TTTTACTATGGCATCACCATT	0.353													78	210					0	0	0.01441	0	0		A	94748049	A	A	94748049	3	1	19	1	0	0	0	0	1	0	0	0	13139	1203	42	2	2419	2	RBM12B	8	94748049	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2440187	94748049	51615973	1389	14902											
CDH17	1015	broad.mit.edu	37	chr8	95178128	95178128	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgggagtttgctccacAatcctgtagtttagaaaact	11	14	9	7	0	0	1	0	0	0	1	2	2	2	2	2	1	2	5	2	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:95178128A>G	uc003ygh.2	-	10	1268	c.1143T>C	c.(1141-1143)ATT>ATC	p.I381I	CDH17_uc011lgo.1_Silent_p.I167I|CDH17_uc011lgp.1_Silent_p.I381I	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	381	Extracellular (Potential).|Cadherin 4.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			TTTGCTCCACAATCCTGTAGT	0.418													35	94					0	0	0.004289	0	0		G	95178128	G	G	95178128	2	3	19	1	0	0	0	0	0	0	0	1	3105	126	5	3		3	CDH17	8	95178128	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	430079	95178128	51185894	1390	14903											
KIAA1429	25962	broad.mit.edu	37	chr8	95556148	95556148	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccacacatggaaaacgaAccacatctatatgagaactt	19	7	5	10	1	1	1	0	1	1	1	1	4	1	2	2	1	4	0	2	1	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:95556148A>G	uc003ygo.1	-	2	99	c.86T>C	c.(85-87)GTT>GCT	p.V29A	KIAA1429_uc003ygp.2_Missense_Mutation_p.V29A	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	29					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			TGGAAAACGAACCACATCTAT	0.408													25	242					0	0	0.01441	0	0		G	95556148	G	G	95556148	3	3	19	1	0	0	0	0	1	0	0	0	8247	43	2	3	5498	3	KIAA1429	8	95556148	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	378020	95556148	50807874	1391	14904											
DPY19L4	286148	broad.mit.edu	37	chr8	95782684	95782684	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattttctttttgtagtggtAagtccctgaaggaaactgtt	9	17	9	6	0	1	1	0	1	1	0	2	2	2	2	1	2	1	3	1	2	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:95782684A>G	uc003ygx.2	+	13	1463	c.1339A>G	c.(1339-1341)AAG>GAG	p.K447E		NM_181787	NP_861452	Q7Z388	D19L4_HUMAN	dpy-19-like 4	447						integral to membrane				ovary(2)	2	Breast(36;3.85e-06)					TTGTAGTGGTAAGTCCCTGAA	0.294													27	49					0	0	0.005443	0	0		G	95782684	G	G	95782684	3	3	19	1	0	0	0	0	1	0	0	0	4749	363	13	3	1389	3	DPY19L4	8	95782684	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	226536	95782684	50581338	1392	14905											
INTS8	55656	broad.mit.edu	37	chr8	95862296	95862296	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatctgtgcattaaacctgTaacttcattttatgatatcc	13	16	4	8	0	2	1	1	1	1	0	3	1	3	1	2	0	3	2	2	0	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:95862296T>C	uc003yhb.2	+	12	1610	c.1484T>C	c.(1483-1485)GTA>GCA	p.V495A	INTS8_uc003yha.1_Missense_Mutation_p.V495A|INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Missense_Mutation_p.V322A	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	495					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					ATTAAACCTGTAACTTCATTT	0.373													3	130					0	0	0.009096	0	0		C	95862296	C	C	95862296	3	2	19	1	0	0	0	0	1	0	0	0	7800	1638	57	3	1530	3	INTS8	8	95862296	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	79612	95862296	50501726	1393	14906											
INTS8	55656	broad.mit.edu	37	chr8	95869047	95869047	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttgctgcttgtttggagTtggtaacagagttctcaccg	6	16	11	8	1	2	1	1	0	2	1	3	2	2	2	1	2	3	6	1	2	1	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:95869047T>C	uc003yhb.2	+	15	1921	c.1795T>C	c.(1795-1797)TTG>CTG	p.L599L	INTS8_uc003yha.1_Silent_p.L599L|INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Silent_p.L426L	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	599	TPR 3.				snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					TTGTTTGGAGTTGGTAACAGA	0.458													14	383					0	0	0.003163	0	0		C	95869047	C	C	95869047	2	2	19	1	0	0	0	0	0	0	0	1	7800	1722	60	3		3	INTS8	8	95869047	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	6751	95869047	50494975	1394	14907											
INTS8	55656	broad.mit.edu	37	chr8	95892454	95892454	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaagcaatggcaaaacttTacttttaagcagttaaattt	15	14	5	7	0	0	0	0	0	0	0	1	0	1	0	1	1	4	4	1	1	8	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:95892454T>C	uc003yhb.2	+	27	3106	c.2980T>C	c.(2980-2982)TAC>CAC	p.Y994H	INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Missense_Mutation_p.Y804H	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	994					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					GGCAAAACTTTACTTTTAAGC	0.313													8	93					0	0	0.00308	0	0		C	95892454	C	C	95892454	3	2	19	1	0	0	0	0	1	0	0	0	7800	1754	61	3	3086	3	INTS8	8	95892454	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	23407	95892454	50471568	1395	14908											
MATN2	4147	broad.mit.edu	37	chr8	98900443	98900443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctctaggggcagacacgctCggacccacccgcagacggcc	8	4	12	17	4	1	2	0	0	1	2	3	3	1	3	3	4	0	3	3	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:98900443C>T	uc003yic.2	+	2	346	c.115C>T	c.(115-117)CGG>TGG	p.R39W	MATN2_uc003yib.1_Missense_Mutation_p.R39W|MATN2_uc010mbh.1_Missense_Mutation_p.R39W|MATN2_uc003yid.2_Missense_Mutation_p.R39W|MATN2_uc003yie.1_Missense_Mutation_p.R39W	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	39						proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			CAGACACGCTCGGACCCACCC	0.662													9	18					0	0	0.006214	0	0		T	98900443	T	T	98900443	3	4	19	1	0	0	0	0	1	0	0	0	9352	875	31	1	117	1	MATN2	8	98900443	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3007989	98900443	47463579	1396	14909											
MATN2	4147	broad.mit.edu	37	chr8	99019731	99019731	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattactgcctgctgagtgAccatggttgtgaatactcct	8	13	11	9	0	0	3	0	3	0	0	1	4	1	4	3	2	4	2	3	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:99019731A>G	uc003yic.2	+	10	1706	c.1475A>G	c.(1474-1476)GAC>GGC	p.D492G	MATN2_uc010mbh.1_Missense_Mutation_p.D451G|MATN2_uc003yid.2_Missense_Mutation_p.D492G|MATN2_uc003yie.1_Missense_Mutation_p.D492G|MATN2_uc010mbi.1_Missense_Mutation_p.D325G|MATN2_uc010mbj.1_5'UTR	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	492	EGF-like 7.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			CTGCTGAGTGACCATGGTTGT	0.532													5	87					0	0	0.000602	0	0		G	99019731	G	G	99019731	3	3	19	1	0	0	0	0	1	0	0	0	9352	275	10	3	1509	3	MATN2	8	99019731	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	119288	99019731	47344291	1397	14910											
HRSP12	10247	broad.mit.edu	37	chr8	99118537	99118537	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagctttcagaatttcAcccatgtttttaagagcctg	9	14	7	11	0	2	2	2	0	0	2	2	2	2	2	3	0	3	3	3	0	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:99118537A>G	uc003yii.1	-	3	283	c.189T>C	c.(187-189)GGT>GGC	p.G63G		NM_005836	NP_005827	P52758	UK114_HUMAN	heat-responsive protein 12	63					regulation of translational termination	nucleus	endonuclease activity			ovary(1)	1	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.214)			TCAGAATTTCACCCATGTTTT	0.313													40	156					0	0	0.01441	0	0		G	99118537	G	G	99118537	2	3	19	1	0	0	0	0	0	0	0	1	7376	146	6	3		3	HRSP12	8	99118537	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	98806	99118537	47245485	1398	14911											
GRHL2	79977	broad.mit.edu	37	chr8	102570748	102570748	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacctttccctaaatcaagAtcacctggagaattccaagc	14	9	6	12	0	2	2	2	0	0	2	4	4	4	2	4	1	2	0	4	1	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:102570748A>T	uc010mbu.2	+	4	716	c.386A>T	c.(385-387)GAT>GTT	p.D129V	GRHL2_uc011lhi.1_Missense_Mutation_p.D129V	NM_024915	NP_079191	Q6ISB3	GRHL2_HUMAN	transcription factor CP2-like 3	129						cytoplasm|nucleus	DNA binding			ovary(2)|skin(1)	3	all_cancers(14;4.39e-08)|all_epithelial(15;4.09e-10)|Lung NSC(17;7.11e-06)|all_lung(17;1.44e-05)		Epithelial(11;5.81e-09)|all cancers(13;3.81e-07)|OV - Ovarian serous cystadenocarcinoma(57;0.000213)			CTAAATCAAGATCACCTGGAG	0.507													5	252					0	0	0.001168	0	0		T	102570748	T	T	102570748	3	4	19	1	0	0	0	0	1	0	0	0	6780	333	12	5	400	5	GRHL2	8	102570748	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3452211	102570748	43793274	1399	14912											
NCALD	83988	broad.mit.edu	37	chr8	102731641	102731641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcccatctccatttgcatCgaaggtgcggaagacatgct	9	11	10	11	2	1	1	0	0	1	1	4	3	2	2	2	2	3	2	2	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:102731641C>T	uc003yke.2	-	2	586	c.217G>A	c.(217-219)GAT>AAT	p.D73N	NCALD_uc003ykf.2_Missense_Mutation_p.D73N|NCALD_uc003ykg.2_Missense_Mutation_p.D73N|NCALD_uc003ykh.2_Missense_Mutation_p.D73N|NCALD_uc003yki.2_Missense_Mutation_p.D73N|NCALD_uc003ykj.2_Missense_Mutation_p.D73N|NCALD_uc003ykk.2_Missense_Mutation_p.D73N|NCALD_uc003ykl.2_Missense_Mutation_p.D73N	NM_032041	NP_114430	P61601	NCALD_HUMAN	neurocalcin delta	73	EF-hand 2.|1 (Potential).				synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)			CCATTTGCATCGAAGGTGCGG	0.443													102	330					0	0	0.01441	0	0		T	102731641	T	T	102731641	3	4	19	1	0	0	0	0	1	0	0	0	10220	884	31	1	376	1	NCALD	8	102731641	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	160893	102731641	43632381	1400	14913											
UBR5	51366	broad.mit.edu	37	chr8	103287984	103287984	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaataccctgccgaacagTtctaaagaaaggcgccaacg	15	6	9	11	3	1	2	0	1	1	1	1	3	1	2	3	1	4	1	3	1	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:103287984T>C	uc003ykr.1	-	46	6615	c.6582A>G	c.(6580-6582)GAA>GAG	p.E2194E	UBR5_uc003yks.1_Silent_p.E2194E	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	2194					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TGCCGAACAGTTCTAAAGAAA	0.443													15	67					0	0	0.003163	0	0		C	103287984	C	C	103287984	2	2	19	1	0	0	0	0	0	0	0	1	16931	1722	60	3		3	UBR5	8	103287984	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	556343	103287984	43076038	1401	14914											
UBR5	51366	broad.mit.edu	37	chr8	103323552	103323552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccatgatgataacagcaGctttctttttgattgttgaa	11	15	8	7	0	1	4	0	4	1	0	1	4	1	4	1	0	4	3	1	0	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:103323552G>A	uc003ykr.1	-	20	2624	c.2591C>T	c.(2590-2592)GCT>GTT	p.A864V	UBR5_uc003yks.1_Missense_Mutation_p.A864V	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	864					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			GATAACAGCAGCTTTCTTTTT	0.373													42	140					0	0	0.01441	0	0		A	103323552	A	A	103323552	3	1	19	1	0	0	0	0	1	0	0	0	16931	971	34	2	5968	2	UBR5	8	103323552	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	35568	103323552	43040470	1402	14915											
UBR5	51366	broad.mit.edu	37	chr8	103324440	103324440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagtcctttggaaacagtCgggaaccttcggtgttccac	9	10	12	10	2	0	0	0	0	0	0	4	3	2	3	3	4	2	1	3	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:103324440C>T	uc003ykr.1	-	18	2218	c.2185G>A	c.(2185-2187)GAC>AAC	p.D729N	UBR5_uc003yks.1_Missense_Mutation_p.D729N	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	729					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TGGAAACAGTCGGGAACCTTC	0.368													17	60					0	0	0.004007	0	0		T	103324440	T	T	103324440	3	4	19	1	0	0	0	0	1	0	0	0	16931	884	31	1	6382	1	UBR5	8	103324440	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	888	103324440	43039582	1403	14916											
KLF10	7071	broad.mit.edu	37	chr8	103664435	103664435	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtgttcccggaagcagaTtctcttcctctgacaaatca	10	11	8	12	1	3	2	1	1	2	1	6	3	5	3	2	2	1	2	2	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:103664435T>A	uc011lhk.1	-	2	381	c.227A>T	c.(226-228)AAT>ATT	p.N76I	KLF10_uc011lhj.1_Missense_Mutation_p.N65I	NM_005655	NP_005646	Q13118	KLF10_HUMAN	Kruppel-like factor 10 isoform a	76					cell proliferation|cell-cell signaling|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|skeletal system development|transforming growth factor beta receptor signaling pathway	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_epithelial(15;5.63e-07)|Lung NSC(17;8.18e-05)|all_lung(17;0.000169)		OV - Ovarian serous cystadenocarcinoma(57;0.000112)|STAD - Stomach adenocarcinoma(118;0.0826)			CGGAAGCAGATTCTCTTCCTC	0.323											OREG0018913	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	50	100					0	0	0.01441	0	0		A	103664435	A	A	103664435	3	1	19	1	0	0	0	0	1	0	0	0	8354	1493	52	5	1227	5	KLF10	8	103664435	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	339995	103664435	42699587	1404	14917											
FZD6	8323	broad.mit.edu	37	chr8	104337709	104337709	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcattgtcgtcagtaccatAtcccatgtccttatcaggta	10	14	6	11	1	3	0	3	0	0	0	6	0	5	0	3	1	1	2	3	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:104337709A>G	uc003ylh.2	+	4	1659	c.1375A>G	c.(1375-1377)ATC>GTC	p.I459V	FZD6_uc003yli.2_Missense_Mutation_p.I459V|FZD6_uc003ylj.2_Missense_Mutation_p.I459V|FZD6_uc011lhn.1_Missense_Mutation_p.I425V|FZD6_uc011lho.1_Missense_Mutation_p.I154V|FZD6_uc011lhp.1_Missense_Mutation_p.I404V	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	459	Extracellular (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			TCAGTACCATATCCCATGTCC	0.378													5	176					0	0	0.001984	0	0		G	104337709	G	G	104337709	3	3	19	1	0	0	0	0	1	0	0	0	6148	449	16	3	1385	3	FZD6	8	104337709	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	673274	104337709	42026313	1405	14918											
LRP12	29967	broad.mit.edu	37	chr8	105509440	105509440	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggttggcaaaaaaagcagTttttttcatctgagccattt	11	15	8	7	0	2	1	1	1	1	0	2	1	2	1	1	2	2	4	1	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:105509440T>G	uc003yma.2	-	5	1435	c.1340A>C	c.(1339-1341)AAC>ACC	p.N447T	LRP12_uc003ymb.2_Missense_Mutation_p.N428T|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	447	Extracellular (Potential).|LDL-receptor class A 4.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			AAAAAAGCAGTTTTTTTCATC	0.418													13	180					0	0	0.003163	0	0		G	105509440	G	G	105509440	3	3	19	1	0	0	0	0	1	0	0	0	8972	1725	60	5	1251	5	LRP12	8	105509440	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1171731	105509440	40854582	1406	14919											
OXR1	55074	broad.mit.edu	37	chr8	107695466	107695466	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatagcatagccctgaagTttgatacaacacctaacgaa	16	9	7	9	1	0	3	0	3	0	0	0	4	0	3	2	0	5	2	2	0	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:107695466T>C	uc011lht.1	+	4	445	c.346T>C	c.(346-348)TTT>CTT	p.F116L	OXR1_uc003ymf.2_Missense_Mutation_p.F115L|OXR1_uc011lhu.1_Missense_Mutation_p.F108L|OXR1_uc010mcg.2_Intron|OXR1_uc003ymg.1_Missense_Mutation_p.F48L|OXR1_uc003ymi.1_Missense_Mutation_p.F27L	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	116	LysM.				cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			AGCCCTGAAGTTTGATACAAC	0.289													11	90					0	0	0.010729	0	0		C	107695466	C	C	107695466	3	2	19	1	0	0	0	0	1	0	0	0	11353	1725	60	3	560	3	OXR1	8	107695466	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2186026	107695466	38668556	1407	14920											
OXR1	55074	broad.mit.edu	37	chr8	107719150	107719150	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagagagtcaaaaagaaaaTatgccttgtggggaaacagc	18	6	12	5	0	1	2	1	0	0	2	1	5	1	3	1	2	3	0	1	2	7	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:107719150T>A	uc011lht.1	+	8	1503	c.1404T>A	c.(1402-1404)AAT>AAA	p.N468K	OXR1_uc003ymf.2_Missense_Mutation_p.N467K|OXR1_uc011lhu.1_Missense_Mutation_p.N460K|OXR1_uc010mcg.2_Intron|OXR1_uc010mch.2_Missense_Mutation_p.N165K|OXR1_uc003ymg.1_Missense_Mutation_p.N400K|OXR1_uc003ymi.1_Missense_Mutation_p.N379K	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	468					cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			AAAAAGAAAATATGCCTTGTG	0.383													6	87					0	0	0.001168	0	0		A	107719150	A	A	107719150	3	1	19	1	0	0	0	0	1	0	0	0	11353	1403	49	5	1634	5	OXR1	8	107719150	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	23684	107719150	38644872	1408	14921											
ABRA	137735	broad.mit.edu	37	chr8	107773721	107773721	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgggctttgcagttgagTttctctgtaaatctgtttac	6	19	10	6	0	2	1	0	1	2	0	3	1	2	1	0	1	2	7	0	1	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:107773721T>C	uc003ymm.3	-	2	744	c.690A>G	c.(688-690)AAA>AAG	p.K230K		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	230					positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			TGCAGTTGAGTTTCTCTGTAA	0.438													4	112					0	0	0.009096	0	0		C	107773721	C	C	107773721	2	2	19	1	0	0	0	0	0	0	0	1	100	1722	60	3		3	ABRA	8	107773721	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	54571	107773721	38590301	1409	14922											
RSPO2	340419	broad.mit.edu	37	chr8	109001323	109001323	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggctcggtgtccatagtAcccggatgggcaggaatgca	8	8	16	9	2	0	0	0	0	0	0	2	2	1	2	2	6	2	4	2	6	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:109001323A>G	uc003yms.2	-	3	902	c.244T>C	c.(244-246)TAC>CAC	p.Y82H	RSPO2_uc003ymq.2_Missense_Mutation_p.Y15H|RSPO2_uc003ymr.2_Intron	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	82					Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			TGTCCATAGTACCCGGATGGG	0.493													5	107					0	0	0.000602	0	0		G	109001323	G	G	109001323	3	3	19	1	0	0	0	0	1	0	0	0	13735	391	14	3	503	3	RSPO2	8	109001323	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1227602	109001323	37362699	1410	14923											
ENY2	56943	broad.mit.edu	37	chr8	110348433	110348433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaactggagaaagagaacGgtaagtaatagattgtgtta	18	9	12	2	1	0	4	0	0	0	4	0	6	0	4	0	2	2	3	0	2	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:110348433G>A	uc003ynd.2	+	2	145	c.83G>A	c.(82-84)CGC>CAC	p.R28H	NUDCD1_uc003ynb.3_5'Flank|NUDCD1_uc010mcl.2_5'Flank|ENY2_uc003ync.2_Missense_Mutation_p.R23H	NM_020189	NP_064574	Q9NPA8	ENY2_HUMAN	enhancer of yellow 2 homolog	28					histone deubiquitination|mRNA transport|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity				0	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;9.05e-13)			GAAAGAGAACGGTAAGTAATA	0.348													13	38					0	0	0.013537	0	0		A	110348433	A	A	110348433	3	1	19	1	0	0	0	0	1	0	0	0	5154	1130	39	1	89	1	ENY2	8	110348433	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1347110	110348433	36015589	1411	14924											
PKHD1L1	93035	broad.mit.edu	37	chr8	110394751	110394751	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacggggttcctgttacggAaaataacacctgcaaaggtc	12	8	12	9	2	0	0	0	0	0	0	2	2	1	2	2	5	3	3	2	5	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:110394751A>G	uc003yne.2	+	4	472	c.368A>G	c.(367-369)GAA>GGA	p.E123G		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	123	Extracellular (Potential).|IPT/TIG 1.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CCTGTTACGGAAAATAACACC	0.398										HNSCC(38;0.096)			42	126					0	0	0.01441	0	0		G	110394751	G	G	110394751	3	3	19	1	0	0	0	0	1	0	0	0	11991	246	9	3	382	3	PKHD1L1	8	110394751	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	46318	110394751	35969271	1412	14925											
CSMD3	114788	broad.mit.edu	37	chr8	113237026	113237026	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattgtgcaaaccgtgttcaAgttgggatcaaatcgtaccg	11	11	10	9	3	2	0	2	0	0	0	3	1	2	1	2	1	3	4	2	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:113237026A>G	uc003ynu.2	-	71	11257	c.11098T>C	c.(11098-11100)TTG>CTG	p.L3700L	CSMD3_uc003yns.2_Silent_p.L2902L|CSMD3_uc003ynt.2_Silent_p.L3660L|CSMD3_uc011lhx.1_Silent_p.L3531L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3700	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ACCGTGTTCAAGTTGGGATCA	0.428										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			53	150					0	0	0.01441	0	0		G	113237026	G	G	113237026	2	3	19	1	0	0	0	0	0	0	0	1	3949	69	3	3		3	CSMD3	8	113237026	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2842275	113237026	33126996	1413	14926											
CSMD3	114788	broad.mit.edu	37	chr8	113237134	113237134	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcatgaactgaacatcCtgtatactgtgttttaggtg	10	17	8	6	0	1	2	1	2	0	0	2	2	2	2	1	1	3	2	1	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:113237134C>A	uc003ynu.2	-	71	11149	c.10990G>T	c.(10990-10992)GGA>TGA	p.G3664*	CSMD3_uc003yns.2_Nonsense_Mutation_p.G2866*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.G3624*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.G3495*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3664	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ACTGAACATCCTGTATACTGT	0.403										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			46	133					1.56793e-16	1.66198e-16	0.01441	1	0		A	113237134	A	A	113237134	4	1	19	1	0	0	0	0	0	1	0	0	3949	690	24	5	137	5	CSMD3	8	113237134	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	108	113237134	33126888	1414	14927											
CSMD3	114788	broad.mit.edu	37	chr8	113259321	113259321	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtagacccttggagaaGgtgtccttttttgcaatgga	8	15	12	6	0	0	2	0	0	0	2	1	4	1	3	2	3	1	3	2	3	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:113259321G>T	uc003ynu.2	-	64	10309	c.10150C>A	c.(10150-10152)CTT>ATT	p.L3384I	CSMD3_uc003yns.2_Missense_Mutation_p.L2586I|CSMD3_uc003ynt.2_Missense_Mutation_p.L3344I|CSMD3_uc011lhx.1_Missense_Mutation_p.L3215I	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3384	Extracellular (Potential).|Sushi 27.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCTTGGAGAAGGTGTCCTTTT	0.403										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			22	54					3.08376e-08	3.2117e-08	0.00333	1	0		T	113259321	T	T	113259321	3	4	19	1	0	0	0	0	1	0	0	0	3949	1000	35	5	1005	5	CSMD3	8	113259321	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	22187	113259321	33104701	1415	14928											
CSMD3	114788	broad.mit.edu	37	chr8	114111072	114111072	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatatgagtgaaattgtgTccccaggctctgctacaatg	12	12	9	8	0	1	2	0	2	1	0	2	2	2	2	2	1	2	2	2	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:114111072T>C	uc003ynu.2	-	5	989	c.830A>G	c.(829-831)GAC>GGC	p.D277G	CSMD3_uc003ynt.2_Missense_Mutation_p.D237G|CSMD3_uc011lhx.1_Missense_Mutation_p.D277G|CSMD3_uc010mcx.1_Missense_Mutation_p.D277G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	277	Extracellular (Potential).|CUB 2.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TGAAATTGTGTCCCCAGGCTC	0.393										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			18	87					0	0	0.00499	0	0		C	114111072	C	C	114111072	3	2	19	1	0	0	0	0	1	0	0	0	3949	1667	58	3	10561	3	CSMD3	8	114111072	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	851751	114111072	32252950	1416	14929											
RAD21	5885	broad.mit.edu	37	chr8	117859910	117859910	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaactgatagattcagcTccagttttagcaagagcacg	14	9	9	9	1	1	3	1	1	0	2	2	3	2	3	1	0	5	5	1	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:117859910T>C	uc003yod.2	-	14	2013	c.1725A>G	c.(1723-1725)GGA>GGG	p.G575G		NM_006265	NP_006256	O60216	RAD21_HUMAN	RAD21 homolog	575					apoptosis|cell division|chromosome segregation|double-strand break repair|mitotic metaphase/anaphase transition|mitotic prometaphase|protein localization to chromatin|reciprocal meiotic recombination|regulation of transcription from RNA polymerase II promoter	chromosome, centromeric region|cohesin complex|nuclear chromosome|nucleoplasm	protein binding			lung(1)|skin(1)	2	all_cancers(13;1.21e-21)|Lung NSC(37;0.000134)|Ovarian(258;0.0172)					TAGATTCAGCTCCAGTTTTAG	0.343													8	63					0	0	0.004482	0	0		C	117859910	C	C	117859910	2	2	19	1	0	0	0	0	0	0	0	1	13006	1538	54	3		3	RAD21	8	117859910	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3748838	117859910	28504112	1417	14930											
MED30	90390	broad.mit.edu	37	chr8	118541046	118541046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatggatcccattccagtcGaggtaattttttgtgataga	10	14	11	6	1	0	2	0	1	0	1	3	5	2	4	2	3	0	1	2	3	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:118541046G>A	uc003yoj.2	+	2	485	c.334G>A	c.(334-336)GAG>AAG	p.E112K	MED30_uc011lib.1_Missense_Mutation_p.E112K	NM_080651	NP_542382	Q96HR3	MED30_HUMAN	TRAP/Mediator complex component TRAP25	112					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding				0	all_cancers(13;3.41e-25)|Lung NSC(37;3.02e-05)|Ovarian(258;0.00163)		STAD - Stomach adenocarcinoma(47;0.0266)			CATTCCAGTCGAGGTAATTTT	0.388													10	198					0	0	0.008291	0	0		A	118541046	A	A	118541046	3	1	19	1	0	0	0	0	1	0	0	0	9466	1059	37	1	340	1	MED30	8	118541046	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	681136	118541046	27822976	1418	14931											
ENPP2	5168	broad.mit.edu	37	chr8	120596200	120596200	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcacagttctgccatcatAcctgcatgctgttgaccttg	8	14	7	12	0	3	1	2	1	1	0	3	1	3	1	3	0	4	4	3	0	1	5	rs140502806		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:120596200A>G	uc003yot.1	-	16	1541	c.1455_splice	c.e16+1	p.Q485_splice	ENPP2_uc011lic.1_Intron|ENPP2_uc003yor.1_Splice_Site_p.Q124_splice|ENPP2_uc003yos.1_Splice_Site_p.Q537_splice|ENPP2_uc010mdd.1_Splice_Site_p.Q485_splice	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein						cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CTGCCATCATACCTGCATGCT	0.373													15	366					0	0	0.007413	0	0		G	120596200	G	G	120596200	5	3	19	1	0	0	0	0	0	0	1	0	5138	405	14	3	1253	3	ENPP2	8	120596200	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2055154	120596200	25767822	1419	14932											
TAF2	6873	broad.mit.edu	37	chr8	120793304	120793304	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactgtaccttctgtagaaAatagctttgaaagctcataa	16	12	6	7	0	2	2	1	1	1	1	2	2	2	2	1	0	4	4	1	0	8	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:120793304A>G	uc003you.2	-	17	2512	c.2242T>C	c.(2242-2244)TTT>CTT	p.F748L		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	748					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TTCTGTAGAAAATAGCTTTGA	0.318													13	54					0	0	0.013537	0	0		G	120793304	G	G	120793304	3	3	19	1	0	0	0	0	1	0	0	0	15549	14	1	3	1397	3	TAF2	8	120793304	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	197104	120793304	25570718	1420	14933											
DEPDC6	64798	broad.mit.edu	37	chr8	120940664	120940664	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctgcacgaagaaaaggtTattaaagatagacgtcatca	17	8	10	6	2	2	3	2	0	0	3	2	4	2	3	0	2	1	3	0	2	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:120940664T>C	uc003yow.3	+	2	334	c.147T>C	c.(145-147)GTT>GTC	p.V49V	DEPDC6_uc011lid.1_Intron	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	49	DEP 1.				intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			AAGAAAAGGTTATTAAAGATA	0.383													18	196					0	0	0.010504	0	0		C	120940664	C	C	120940664	2	2	19	1	0	0	0	0	0	0	0	1	4449	1741	61	3		3	DEPDC6	8	120940664	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	147360	120940664	25423358	1421	14934											
DEPDC6	64798	broad.mit.edu	37	chr8	120940800	120940800	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgcagaaattagcagacCggggcattattcaccatggt	12	10	10	9	1	2	2	2	0	0	2	2	2	2	2	2	3	2	3	2	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:120940800C>A	uc003yow.3	+	2	470	c.283C>A	c.(283-285)CGG>AGG	p.R95R	DEPDC6_uc011lid.1_Intron	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	95	DEP 1.				intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			ATTAGCAGACCGGGGCATTAT	0.433													35	128					1.90571e-15	2.01651e-15	0.004289	1	0		A	120940800	A	A	120940800	2	1	19	1	0	0	0	0	0	0	0	1	4449	643	23	5		5	DEPDC6	8	120940800	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	136	120940800	25423222	1422	14935											
COL14A1	7373	broad.mit.edu	37	chr8	121256232	121256232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgaaggcgtcagcgtctccGctcctggaaaaacctgtaag	10	7	12	12	4	2	0	1	0	1	0	4	2	3	1	3	2	2	2	3	2	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:121256232G>A	uc003yox.2	+	20	2729	c.2464G>A	c.(2464-2466)GCT>ACT	p.A822T	COL14A1_uc003yoy.2_Missense_Mutation_p.A500T	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	822	Fibronectin type-III 6.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			CAGCGTCTCCGCTCCTGGAAA	0.463													49	148					0	0	0.01441	0	0		A	121256232	A	A	121256232	3	1	19	1	0	0	0	0	1	0	0	0	3674	1087	38	1	2538	1	COL14A1	8	121256232	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	315432	121256232	25107790	1423	14936											
HAS2	3037	broad.mit.edu	37	chr8	122626645	122626645	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctttgtttattgttgcaaTtgcaaacatcttggcgggaa	10	15	10	6	1	1	0	0	0	1	0	1	1	1	1	0	2	4	5	0	2	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:122626645T>A	uc003yph.2	-	4	1901	c.1363A>T	c.(1363-1365)ATT>TTT	p.I455F		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	455	Extracellular (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			ATTGTTGCAATTGCAAACATC	0.408													16	408					0	0	0.003163	0	0		A	122626645	A	A	122626645	3	1	19	1	0	0	0	0	1	0	0	0	6978	1493	52	5	299	5	HAS2	8	122626645	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1370413	122626645	23737377	1424	14937											
ZHX2	22882	broad.mit.edu	37	chr8	123964414	123964414	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccgcctggtgacagacAcagctgagatcctctcgaga	9	6	11	15	3	1	4	0	2	1	3	3	6	2	4	4	1	1	1	4	1	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:123964414A>G	uc003ypk.1	+	3	1231	c.664A>G	c.(664-666)ACA>GCA	p.T222A		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	222	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			GGTGACAGACACAGCTGAGAT	0.577													11	175					0	0	0.013537	0	0		G	123964414	G	G	123964414	3	3	19	1	0	0	0	0	1	0	0	0	17701	159	6	3	666	3	ZHX2	8	123964414	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1337769	123964414	22399608	1425	14938											
FAM83A	84985	broad.mit.edu	37	chr8	124195493	124195493	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctacctgaaggaaaaaTccagcgccactgtgtacttc	12	8	8	13	1	0	1	0	1	0	0	2	2	1	2	4	1	4	1	4	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:124195493T>C	uc003ypv.2	+	2	2411	c.397T>C	c.(397-399)TCC>CCC	p.S133P	FAM83A_uc003ypw.2_Missense_Mutation_p.S133P|FAM83A_uc003ypy.2_Missense_Mutation_p.S133P|FAM83A_uc003ypx.2_Missense_Mutation_p.S133P|FAM83A_uc003ypz.2_Missense_Mutation_p.S133P	NM_032899	NP_116288	Q86UY5	FA83A_HUMAN	hypothetical protein LOC84985 isoform a	133										ovary(3)|skin(1)	4	Lung NSC(37;1.55e-09)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			GAAGGAAAAATCCAGCGCCAC	0.607													8	191					0	0	0.004482	0	0		C	124195493	C	C	124195493	3	2	19	1	0	0	0	0	1	0	0	0	5647	1435	50	3	399	3	FAM83A	8	124195493	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	231079	124195493	22168529	1426	14939											
FBXO32	114907	broad.mit.edu	37	chr8	124516885	124516885	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtttgcagagctgaagggTatctccatactgctctttcc	7	14	10	10	0	2	2	0	1	2	1	4	2	3	2	2	1	4	5	2	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:124516885T>C	uc003yqr.2	-	8	1129	c.937A>G	c.(937-939)ACC>GCC	p.T313A	FBXO32_uc003yqq.2_Missense_Mutation_p.T168A|FBXO32_uc010mdk.2_Missense_Mutation_p.T220A	NM_058229	NP_478136	Q969P5	FBX32_HUMAN	F-box only protein 32 isoform 1	313										skin(3)|breast(2)|lung(1)	6	Lung NSC(37;1.13e-13)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			AGCTGAAGGGTATCTCCATAC	0.498													8	108					0	0	0.00308	0	0		C	124516885	C	C	124516885	3	2	19	1	0	0	0	0	1	0	0	0	5756	1638	57	3	138	3	FBXO32	8	124516885	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	321392	124516885	21847137	1427	14940											
KIAA0196	9897	broad.mit.edu	37	chr8	126095397	126095397	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgtacactttgaaatgctAaataaaatctggtcacaatt	16	14	5	6	0	2	1	1	1	1	0	2	1	2	1	0	1	2	2	0	1	8	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:126095397A>G	uc003yrt.2	-	3	619	c.290T>C	c.(289-291)TTA>TCA	p.L97S	KIAA0196_uc011lir.1_Intron	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	97					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			TTGAAATGCTAAATAAAATCT	0.333													3	45					0	0	0.004672	0	0		G	126095397	G	G	126095397	3	3	19	1	0	0	0	0	1	0	0	0	8177	372	13	3	3297	3	KIAA0196	8	126095397	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1578512	126095397	20268625	1428	14941											
GSDMC	56169	broad.mit.edu	37	chr8	130763802	130763802	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttactttgccagaagggtTcctctattcttcctagaagg	9	14	8	10	0	2	2	0	0	2	2	4	2	4	2	3	2	2	1	3	2	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:130763802T>A	uc003ysr.2	-	10	1811	c.929A>T	c.(928-930)GAA>GTA	p.E310V		NM_031415	NP_113603	Q9BYG8	GSDMC_HUMAN	melanoma-derived leucine zipper, extra-nuclear	310						mitochondrion				ovary(2)|skin(1)	3						CCAGAAGGGTTCCTCTATTCT	0.473													8	140					0	0	0.004482	0	0		A	130763802	A	A	130763802	3	1	19	1	0	0	0	0	1	0	0	0	6834	1783	62	5	617	5	GSDMC	8	130763802	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4668405	130763802	15600220	1429	14942											
ADCY8	114	broad.mit.edu	37	chr8	131848574	131848574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaagaggcctgcgtagacgGtctcagtgagcagggcatag	11	6	16	8	2	1	3	1	1	1	2	2	4	1	3	1	3	2	3	1	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:131848574G>A	uc003ytd.3	-	12	2880	c.2624C>T	c.(2623-2625)ACC>ATC	p.T875I	ADCY8_uc010mds.2_Missense_Mutation_p.T744I	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	875	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TGCGTAGACGGTCTCAGTGAG	0.547										HNSCC(32;0.087)			26	86					0	0	0.004656	0	0		A	131848574	A	A	131848574	3	1	19	1	0	0	0	0	1	0	0	0	300	1261	44	4	1159	4	ADCY8	8	131848574	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1084772	131848574	14515448	1430	14943											
TG	7038	broad.mit.edu	37	chr8	133894176	133894176	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtatctgggtattgccActgtgctgacagccaagggc	8	10	14	9	0	1	2	0	2	1	0	1	2	1	2	2	3	3	3	2	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:133894176A>G	uc003ytw.2	+	6	748	c.707A>G	c.(706-708)CAC>CGC	p.H236R		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	236	Thyroglobulin type-1 3.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GGGTATTGCCACTGTGCTGAC	0.517													20	92					0	0	0.004656	0	0		G	133894176	G	G	133894176	3	3	19	1	0	0	0	0	1	0	0	0	15838	159	6	3	729	3	TG	8	133894176	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2045602	133894176	12469846	1431	14944											
TG	7038	broad.mit.edu	37	chr8	133906034	133906034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagttctcggttccctctggGggagagtttcctggtggcca	4	12	14	11	1	2	1	0	0	2	1	5	2	4	1	3	5	0	3	3	5	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:133906034G>A	uc003ytw.2	+	11	2902	c.2861G>A	c.(2860-2862)GGG>GAG	p.G954E		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	954	Thyroglobulin type-1 8.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TTCCCTCTGGGGGAGAGTTTC	0.582													12	200					0	0	0.001855	0	0		A	133906034	A	A	133906034	3	1	19	1	0	0	0	0	1	0	0	0	15838	1232	43	4	2903	4	TG	8	133906034	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	11858	133906034	12457988	1432	14945											
ZFAT	57623	broad.mit.edu	37	chr8	135614731	135614731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctcgttcttgaacttgcGctcacagatgtggcagtcat	8	12	10	11	2	3	2	2	1	1	1	4	2	3	2	0	1	3	4	0	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:135614731G>A	uc003yup.2	-	6	1406	c.1231C>T	c.(1231-1233)CGC>TGC	p.R411C	ZFAT_uc003yun.2_Missense_Mutation_p.R399C|ZFAT_uc003yuo.2_Missense_Mutation_p.R399C|ZFAT_uc010meh.2_Missense_Mutation_p.R399C|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.R399C|ZFAT_uc010mej.2_Missense_Mutation_p.R349C|ZFAT_uc003yur.2_Missense_Mutation_p.R399C	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	411	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			TTGAACTTGCGCTCACAGATG	0.582													8	35					0	0	0.003163	0	0		A	135614731	A	A	135614731	3	1	19	1	0	0	0	0	1	0	0	0	17657	1087	38	1	2544	1	ZFAT	8	135614731	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1708697	135614731	10749291	1433	14946											
ZFAT	57623	broad.mit.edu	37	chr8	135622749	135622749	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagttaaaaccacacttaTgatgggtttcttcgccccag	10	12	8	11	1	1	1	0	1	1	0	2	1	1	1	3	1	2	3	3	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:135622749T>C	uc003yup.2	-	4	773	c.598A>G	c.(598-600)ATA>GTA	p.I200V	ZFAT_uc003yun.2_Missense_Mutation_p.I188V|ZFAT_uc003yuo.2_Missense_Mutation_p.I188V|ZFAT_uc010meh.2_Missense_Mutation_p.I188V|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.I188V|ZFAT_uc010mej.2_Intron|ZFAT_uc003yur.2_Missense_Mutation_p.I188V	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	200					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			ACCACACTTATGATGGGTTTC	0.507													29	99					0	0	0.007291	0	0		C	135622749	C	C	135622749	3	2	19	1	0	0	0	0	1	0	0	0	17657	1464	51	3	3185	3	ZFAT	8	135622749	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	8018	135622749	10741273	1434	14947											
FAM135B	51059	broad.mit.edu	37	chr8	139153525	139153525	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgtggagtttgttgaggtAataccggaaccggggccgtg	7	10	17	7	4	0	1	0	1	0	0	0	3	0	3	3	5	2	3	3	5	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:139153525A>G	uc003yuy.2	-	17	3877	c.3706T>C	c.(3706-3708)TAC>CAC	p.Y1236H	FAM135B_uc003yux.2_Missense_Mutation_p.Y1137H|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1236										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			TTGTTGAGGTAATACCGGAAC	0.522										HNSCC(54;0.14)			5	124					0	0	0.001168	0	0		G	139153525	G	G	139153525	3	3	19	1	0	0	0	0	1	0	0	0	5460	362	13	3	530	3	FAM135B	8	139153525	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3530776	139153525	7210497	1435	14948											
FAM135B	51059	broad.mit.edu	37	chr8	139153555	139153555	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggggccgtgtgaggaccgAtcggatgatgatgttgccaa	8	8	16	9	4	0	3	0	3	0	0	1	6	0	5	4	4	1	1	4	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:139153555A>G	uc003yuy.2	-	17	3847	c.3676T>C	c.(3676-3678)TCG>CCG	p.S1226P	FAM135B_uc003yux.2_Missense_Mutation_p.S1127P|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1226										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			GTGAGGACCGATCGGATGATG	0.547										HNSCC(54;0.14)			29	119					0	0	0.012213	0	0		G	139153555	G	G	139153555	3	3	19	1	0	0	0	0	1	0	0	0	5460	333	12	3	560	3	FAM135B	8	139153555	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	30	139153555	7210467	1436	14949											
SLC45A4	57210	broad.mit.edu	37	chr8	142225875	142225875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacctgcttgatgtcatggtActggcccagcagggcgtacg	7	9	13	12	2	1	1	1	1	0	0	1	1	1	1	2	3	4	4	2	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:142225875A>G	uc003ywd.1	-	6	2079	c.1771T>C	c.(1771-1773)TAC>CAC	p.Y591H	SLC45A4_uc003ywc.1_Missense_Mutation_p.Y591H|SLC45A4_uc010meq.1_Missense_Mutation_p.Y589H	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	642					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			ATGTCATGGTACTGGCCCAGC	0.607													13	138					0	0	0.001855	0	0		G	142225875	G	G	142225875	3	3	19	1	0	0	0	0	1	0	0	0	14668	391	14	3	637	3	SLC45A4	8	142225875	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3072320	142225875	4138147	1437	14950											
TSNARE1	203062	broad.mit.edu	37	chr8	143395755	143395755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggcacccacctgtttactgCccctctgcgccatgggaagc	6	8	10	17	2	1	0	0	0	1	0	1	1	1	1	5	2	4	2	5	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:143395755C>T	uc003ywk.2	-	9	1239	c.1121G>A	c.(1120-1122)GGC>GAC	p.G374D	TSNARE1_uc011lju.1_Missense_Mutation_p.G373D|TSNARE1_uc003ywj.2_Missense_Mutation_p.G374D|TSNARE1_uc003ywl.3_Missense_Mutation_p.G154D	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	374					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CTGTTTACTGCCCCTCTGCGC	0.547													3	29					0	0	0.009096	0	0		T	143395755	T	T	143395755	3	4	19	1	0	0	0	0	1	0	0	0	16656	739	26	2	440	2	TSNARE1	8	143395755	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1169880	143395755	2968267	1438	14951											
BAI1	575	broad.mit.edu	37	chr8	143623648	143623648	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtgatcctgcccacggcCacggccacgctgcggcccaa	7	5	11	18	5	0	1	0	1	0	0	1	1	1	1	5	3	3	1	5	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:143623648C>T	uc003ywm.2	+	27	4236	c.4053C>T	c.(4051-4053)GCC>GCT	p.A1351A		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1351	Cytoplasmic (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					TGCCCACGGCCACGGCCACGC	0.657													17	53					0	0	0.012319	0	0		T	143623648	T	T	143623648	2	4	19	1	0	0	0	0	0	0	0	1	1299	581	21	4		4	BAI1	8	143623648	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	227893	143623648	2740374	1439	14952											
ZC3H3	23144	broad.mit.edu	37	chr8	144557662	144557662	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtagaggacccctccgatGcagcggtagcctttgctccg	6	10	12	13	3	0	1	0	0	0	1	2	3	2	2	5	2	4	4	5	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:144557662G>A	uc003yyd.2	-	5	1838	c.1809C>T	c.(1807-1809)TGC>TGT	p.C603C		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	603					mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			CCCCTCCGATGCAGCGGTAGC	0.652													10	26					0	0	0.010729	0	0		A	144557662	A	A	144557662	2	1	19	1	0	0	0	0	0	0	0	1	17594	1311	46	2		2	ZC3H3	8	144557662	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	934014	144557662	1806360	1440	14953											
FAM83H	286077	broad.mit.edu	37	chr8	144808461	144808461	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggggctcggggcagggAccgcacggtgcttctggccg	3	5	20	13	5	1	0	0	0	1	0	2	1	1	1	3	8	1	4	3	8	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:144808461A>G	uc003yzk.2	-	5	3239	c.3170T>C	c.(3169-3171)GTC>GCC	p.V1057A	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	1057					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CGGGGCAGGGACCGCACGGTG	0.657													4	31					0	0	0.00308	0	0		G	144808461	G	G	144808461	3	3	19	1	0	0	0	0	1	0	0	0	5654	275	10	3	373	3	FAM83H	8	144808461	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	250799	144808461	1555561	1441	14954											
FAM83H	286077	broad.mit.edu	37	chr8	144810850	144810850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagctctccttggaacaCgtgcgccaggctgcggtgga	7	7	14	13	3	1	0	0	0	1	0	2	3	1	2	3	4	4	2	3	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:144810850C>T	uc003yzk.2	-	5	850	c.781G>A	c.(781-783)GTG>ATG	p.V261M	FAM83H_uc010mfk.1_5'Flank	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	261					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CCTTGGAACACGTGCGCCAGG	0.662													18	44					0	0	0.010504	0	0		T	144810850	T	T	144810850	3	4	19	1	0	0	0	0	1	0	0	0	5654	536	19	1	2762	1	FAM83H	8	144810850	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2389	144810850	1553172	1442	14955											
EPPK1	83481	broad.mit.edu	37	chr8	144940491	144940491	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccggtgtaggggtcggTgtagccggtgacggcgcgct	3	8	19	11	6	0	1	0	1	0	0	1	1	0	1	2	6	2	3	2	6	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:144940491T>C	uc003zaa.1	-	2	14954	c.14941A>G	c.(14941-14943)ACC>GCC	p.T4981A		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	4981	Plectin 63.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TAGGGGTCGGTGTAGCCGGTG	0.697													11	265					0	0	0.001855	0	0		C	144940491	C	C	144940491	3	2	19	1	0	0	0	0	1	0	0	0	5198	1696	59	3	335	3	EPPK1	8	144940491	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	129641	144940491	1423531	1443	14956											
EPPK1	83481	broad.mit.edu	37	chr8	144945175	144945175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcaagttcagcatctgatcGaagtagccgcgccggtaggc	10	8	12	11	4	3	1	2	1	1	0	4	2	3	1	2	2	2	4	2	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:144945175G>A	uc003zaa.1	-	1	2260	c.2247C>T	c.(2245-2247)TTC>TTT	p.F749F		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	749	Plectin 14.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCATCTGATCGAAGTAGCCGC	0.642													35	153					0	0	0.01441	0	0		A	144945175	A	A	144945175	2	1	19	1	0	0	0	0	0	0	0	1	5198	1049	37	1		1	EPPK1	8	144945175	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4684	144945175	1418847	1444	14957											
PLEC	5339	broad.mit.edu	37	chr8	144990850	144990850	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcgctggccggcctcgtagTagagccagcccttcttcagg	6	8	13	14	3	2	1	1	0	1	1	3	1	2	1	4	3	3	3	4	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:144990850T>C	uc003zaf.1	-	32	13720	c.13550A>G	c.(13549-13551)TAC>TGC	p.Y4517C	PLEC_uc003zab.1_Missense_Mutation_p.Y4380C|PLEC_uc003zac.1_Missense_Mutation_p.Y4384C|PLEC_uc003zad.2_Missense_Mutation_p.Y4380C|PLEC_uc003zae.1_Missense_Mutation_p.Y4348C|PLEC_uc003zag.1_Missense_Mutation_p.Y4358C|PLEC_uc003zah.2_Missense_Mutation_p.Y4366C|PLEC_uc003zaj.2_Missense_Mutation_p.Y4407C	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4517	Globular 2.|Plectin 31.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GGCCTCGTAGTAGAGCCAGCC	0.687													4	68					0	0	0.000602	0	0		C	144990850	C	C	144990850	3	2	19	1	0	0	0	0	1	0	0	0	12071	1638	57	3	508	3	PLEC	8	144990850	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	45675	144990850	1373172	1445	14958											
OPLAH	26873	broad.mit.edu	37	chr8	145107434	145107434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgttgccgcccaccaccGccgcctcgggcgacgggtcc	4	4	13	20	7	0	0	0	0	0	0	2	1	1	0	7	2	1	2	7	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:145107434G>A	uc003zar.3	-	23	3303	c.3221C>T	c.(3220-3222)GCG>GTG	p.A1074V		NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	1074							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	GCCCACCACCGCCGCCTCGGG	0.746													7	13					0	0	0.006214	0	0		A	145107434	A	A	145107434	3	1	19	1	0	0	0	0	1	0	0	0	10895	1087	38	1	667	1	OPLAH	8	145107434	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	116584	145107434	1256588	1446	14959											
MAF1	84232	broad.mit.edu	37	chr8	145160998	145160998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactcagcaaaagccaaggcGgtgaggaggagggccccctc	11	3	15	12	1	1	1	1	1	0	0	2	4	1	3	3	5	2	1	3	5	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:145160998G>A	uc003zbc.1	+	4	733	c.232G>A	c.(232-234)GGT>AGT	p.G78S	SHARPIN_uc003zba.2_5'Flank|SHARPIN_uc003zbb.2_5'Flank|KIAA1875_uc003zbd.3_5'Flank	NM_032272	NP_115648	Q9H063	MAF1_HUMAN	MAF1 protein	78					negative regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	cytoplasm|nucleus					0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.1e-42)|Epithelial(56;1.23e-40)|all cancers(56;4.84e-36)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			AAGCCAAGGCGGTGAGGAGGA	0.602													41	162					0	0	0.011902	0	0		A	145160998	A	A	145160998	3	1	19	1	0	0	0	0	1	0	0	0	9174	1116	39	1	242	1	MAF1	8	145160998	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	53564	145160998	1203024	1447	14960											
HEATR7A	727957	broad.mit.edu	37	chr8	145235329	145235329	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggtgtcctctctcacagcGttcggcgtagtccccttcct	4	12	9	16	4	2	0	1	0	1	0	7	0	5	0	4	2	1	2	4	2	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:145235329G>A	uc003zbk.3	+	7	702	c.465G>A	c.(463-465)GCG>GCA	p.A155A	HEATR7A_uc003zbg.2_Silent_p.A155A|HEATR7A_uc003zbh.3_Silent_p.A155A|HEATR7A_uc003zbi.3_Silent_p.A155A|HEATR7A_uc011lla.1_Silent_p.A155A|HEATR7A_uc010mft.2_Silent_p.A155A	NM_032450	NP_115826	Q8NDA8	HTR7A_HUMAN	HEAT repeat containing 7A isoform 1	155							binding				0						CTCTCACAGCGTTCGGCGTAG	0.687													37	108					0	0	0.005524	0	0		A	145235329	A	A	145235329	2	1	19	1	0	0	0	0	0	0	0	1	7050	1159	40	1		1	HEATR7A	8	145235329	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	74331	145235329	1128693	1448	14961											
HSF1	3297	broad.mit.edu	37	chr8	145533580	145533580	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaagctcctggccatgaaGcagtaggtcccacaccagca	11	6	9	15	0	0	1	0	1	0	0	3	1	3	1	5	2	3	4	5	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:145533580G>A	uc003zbt.3	+	4	656	c.486G>A	c.(484-486)AAG>AAA	p.K162K	HSF1_uc003zbu.3_RNA	NM_005526	NP_005517	Q00613	HSF1_HUMAN	heat shock transcription factor 1	162	Hydrophobic repeat HR-A/B.			K->R: No effect on sumoylation.		cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.12e-39)|all cancers(56;9.11e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0547)|Colorectal(110;0.055)			TGGCCATGAAGCAGTAGGTCC	0.647													14	52					0	0	0.00245	0	0		A	145533580	A	A	145533580	2	1	19	1	0	0	0	0	0	0	0	1	7411	962	34	2		2	HSF1	8	145533580	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	298251	145533580	830442	1449	14962											
FBXL6	26233	broad.mit.edu	37	chr8	145579642	145579642	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgacctgacagtgcttggTgtgacccgggtgcccctgag	5	9	15	12	1	0	4	0	4	0	0	0	4	0	4	4	2	2	2	4	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:145579642T>C	uc003zcb.2	-	8	1483	c.1458A>G	c.(1456-1458)ACA>ACG	p.T486T	C8ORFK29_uc011llb.1_5'Flank|C8ORFK29_uc010mfw.2_5'Flank|C8ORFK29_uc003zby.3_5'Flank|FBXL6_uc003zbz.2_Silent_p.T213T|FBXL6_uc003zca.2_Silent_p.T480T|FBXL6_uc010mfx.2_Silent_p.T247T|GPR172A_uc003zcc.1_5'Flank|GPR172A_uc003zcd.1_5'Flank|GPR172A_uc003zce.1_5'Flank|GPR172A_uc010mfy.1_5'Flank|GPR172A_uc003zcf.1_5'Flank|GPR172A_uc011llc.1_5'Flank	NM_012162	NP_036294	Q8N531	FBXL6_HUMAN	F-box and leucine-rich repeat protein 6 isoform	486	LRR 11.				proteolysis		ubiquitin-protein ligase activity			ovary(1)|lung(1)	2	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			CAGTGCTTGGTGTGACCCGGG	0.637													29	117					0	0	0.007291	0	0		C	145579642	C	C	145579642	2	2	19	1	0	0	0	0	0	0	0	1	5737	1683	59	3		3	FBXL6	8	145579642	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	46062	145579642	784380	1450	14963											
GPR172A	79581	broad.mit.edu	37	chr8	145583653	145583653	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggccctagtgcagggtgtGggccgcctcgagtgcccgcc	3	7	16	15	3	0	0	0	0	0	0	1	1	0	0	5	3	2	1	5	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:145583653G>T	uc003zcc.1	+	3	658	c.501G>T	c.(499-501)GTG>GTT	p.V167V	FBXL6_uc003zbz.2_5'Flank|FBXL6_uc003zca.2_5'Flank|FBXL6_uc003zcb.2_5'Flank|FBXL6_uc010mfx.2_5'Flank|GPR172A_uc003zcd.1_Silent_p.V167V|GPR172A_uc003zce.1_Silent_p.V167V|GPR172A_uc010mfy.1_Silent_p.V167V|GPR172A_uc003zcf.1_Silent_p.V167V|GPR172A_uc011llc.1_Silent_p.V79V	NM_024531	NP_078807	Q9HAB3	RFT3_HUMAN	G protein-coupled receptor 172A precursor	167	Helical; (Potential).					integral to plasma membrane	receptor activity|riboflavin transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			TGCAGGGTGTGGGCCGCCTCG	0.657													36	125					5.20837e-25	5.5613e-25	0.00874	1	0		T	145583653	T	T	145583653	2	4	19	1	0	0	0	0	0	0	0	1	6684	1335	47	5		5	GPR172A	8	145583653	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4011	145583653	780369	1451	14964											
CPSF1	29894	broad.mit.edu	37	chr8	145623173	145623173	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgagggggcctacatggTgcagcgggggcttgtgcagc	7	7	19	8	1	0	1	0	1	0	0	0	2	0	1	1	5	5	3	1	5	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:145623173T>C	uc003zcj.2	-	20	2144	c.2069A>G	c.(2068-2070)CAC>CGC	p.H690R		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	690					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			GCCTACATGGTGCAGCGGGGG	0.667													10	69					0	0	0.004007	0	0		C	145623173	C	C	145623173	3	2	19	1	0	0	0	0	1	0	0	0	3827	1696	59	3	2338	3	CPSF1	8	145623173	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	39520	145623173	740849	1452	14965											
CPSF1	29894	broad.mit.edu	37	chr8	145623272	145623272	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctcggcactcatgatgAccacataggggtcggccacg	8	6	13	14	3	1	2	1	2	0	0	3	2	1	2	3	5	0	1	3	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:145623272A>G	uc003zcj.2	-	20	2045	c.1970T>C	c.(1969-1971)GTC>GCC	p.V657A		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	657					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			ACTCATGATGACCACATAGGG	0.652													19	115					0	0	0.007413	0	0		G	145623272	G	G	145623272	3	3	19	1	0	0	0	0	1	0	0	0	3827	275	10	3	2437	3	CPSF1	8	145623272	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	99	145623272	740750	1453	14966											
SLC39A4	55630	broad.mit.edu	37	chr8	145638262	145638262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcgaaggccgtgagcgCggaggccaggttcagcagca	10	3	16	12	4	1	1	1	1	0	0	1	3	1	2	3	4	4	3	3	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:145638262C>T	uc003zcq.2	-	11	1796	c.1696G>A	c.(1696-1698)GCG>ACG	p.A566T	SLC39A4_uc003zcm.1_Missense_Mutation_p.A68T|SLC39A4_uc003zcn.2_Missense_Mutation_p.A68T|SLC39A4_uc003zco.2_Missense_Mutation_p.A290T|SLC39A4_uc003zcp.2_Missense_Mutation_p.A541T	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	566	Helical; Name=4; (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|recycling endosome membrane	zinc ion transmembrane transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			GCCGTGAGCGCGGAGGCCAGG	0.677													9	26					0	0	0.006214	0	0		T	145638262	T	T	145638262	3	4	19	1	0	0	0	0	1	0	0	0	14645	768	27	1	255	1	SLC39A4	8	145638262	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	14990	145638262	725760	1454	14967											
RECQL4	9401	broad.mit.edu	37	chr8	145737617	145737617	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaagtcacatatctggTccttctcctcagcggtcaag	10	10	10	11	1	5	1	3	0	2	1	7	2	6	2	2	3	1	0	2	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr8:145737617T>C	uc003zdj.2	-	19	3178	c.3146A>G	c.(3145-3147)GAC>GGC	p.D1049G		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	1049					DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			ACATATCTGGTCCTTCTCCTC	0.642			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				9	24					0	0	0.004482	0	0		C	145737617	C	C	145737617	3	2	19	1	0	0	0	0	1	0	0	0	13227	1667	58	3	496	3	RECQL4	8	145737617	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	99355	145737617	626405	1455	14968											
DOCK8	81704	broad.mit.edu	37	chr9	332454	332454	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgcagagccctacacggtTatcaaagaaagtgatggtgg	12	9	13	7	1	1	3	1	1	0	2	1	3	1	3	1	3	3	2	1	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:332454T>G	uc003zgf.2	+	10	1213	c.1101T>G	c.(1099-1101)GTT>GTG	p.V367V	DOCK8_uc011lls.1_Silent_p.V367V|DOCK8_uc010mgu.2_5'UTR|DOCK8_uc010mgv.2_Silent_p.V299V|DOCK8_uc003zgg.2_Silent_p.V299V|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	367	DHR-1.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		CCTACACGGTTATCAAAGAAA	0.353													3	96					0	0	0.009096	0	0		G	332454	G	G	332454	2	3	19	1	0	0	0	0	0	0	0	1	4699	1741	61	5		5	DOCK8	9	332454	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08		332454	140880977	1456	14969											
KANK1	23189	broad.mit.edu	37	chr9	711135	711135	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaatctcaaagccacctccCcctctggagacctcactccc	9	7	4	21	0	3	1	2	0	2	1	6	2	5	1	7	1	1	0	7	1	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:711135C>A	uc003zgl.1	+	7	1018	c.369C>A	c.(367-369)CCC>CCA	p.P123P	KANK1_uc003zgm.2_Silent_p.P123P|KANK1_uc003zgn.1_Silent_p.P123P|KANK1_uc003zgo.1_Silent_p.P123P|KANK1_uc003zgp.1_Silent_p.P123P|KANK1_uc003zgq.2_5'UTR|KANK1_uc003zgr.1_5'UTR|KANK1_uc003zgs.1_5'UTR	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	123					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		AGCCACCTCCCCCTCTGGAGA	0.498													42	84					4.67007e-22	4.96757e-22	0.00874	1	0		A	711135	A	A	711135	2	1	19	1	0	0	0	0	0	0	0	1	7992	610	22	5		5	KANK1	9	711135	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	378681	711135	140502296	1457	14970											
SMARCA2	6595	broad.mit.edu	37	chr9	2161854	2161854	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaaatccccccaaactgAcaaagcagatgaacgctatc	16	5	5	15	1	0	3	0	2	0	1	2	3	1	3	4	0	3	2	4	0	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:2161854A>G	uc003zhc.2	+	28	4249	c.4150A>G	c.(4150-4152)ACA>GCA	p.T1384A	SMARCA2_uc003zhd.2_Missense_Mutation_p.T1384A|SMARCA2_uc010mha.2_Missense_Mutation_p.T1317A|SMARCA2_uc011llw.1_Missense_Mutation_p.T88A|SMARCA2_uc003zhf.2_Missense_Mutation_p.T48A|SMARCA2_uc011llx.1_Missense_Mutation_p.T48A|SMARCA2_uc003zhe.2_Missense_Mutation_p.T90A|SMARCA2_uc003zhg.2_Missense_Mutation_p.T48A|SMARCA2_uc010mhb.2_Missense_Mutation_p.T72A	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1384					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		CCCCAAACTGACAAAGCAGAT	0.453													6	41					0	0	0.00308	0	0		G	2161854	G	G	2161854	3	3	19	1	0	0	0	0	1	0	0	0	14794	275	10	3	4256	3	SMARCA2	9	2161854	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1450719	2161854	139051577	1458	14971											
RFX3	5991	broad.mit.edu	37	chr9	3248111	3248111	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaaaacatatattcgtcgTagagtagacggatcaggtgg	14	10	12	5	3	1	2	1	0	0	2	3	3	1	3	0	3	1	3	0	3	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:3248111T>C	uc003zhr.2	-	16	2201	c.1889A>G	c.(1888-1890)TAC>TGC	p.Y630C	RFX3_uc010mhd.2_Missense_Mutation_p.Y630C|RFX3_uc003zhs.1_Missense_Mutation_p.Y630C	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	630					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		ATATTCGTCGTAGAGTAGACG	0.458													3	60					0	0	0.004672	0	0		C	3248111	C	C	3248111	3	2	19	1	0	0	0	0	1	0	0	0	13289	1638	57	3	528	3	RFX3	9	3248111	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1086257	3248111	137965320	1459	14972											
JAK2	3717	broad.mit.edu	37	chr9	5089710	5089710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggagatgtgccggtatgacCctctacaggacaacactggg	10	8	13	10	1	1	2	0	1	1	1	1	4	1	3	2	4	3	1	2	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:5089710C>T	uc010mhm.2	+	19	2721	c.2608C>T	c.(2608-2610)CCT>TCT	p.P870S	JAK2_uc003ziw.2_Missense_Mutation_p.P870S	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	870	Protein kinase 2.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		CCGGTATGACCCTCTACAGGA	0.403		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				20	72					0	0	0.004656	0	0		T	5089710	T	T	5089710	3	4	19	1	0	0	0	0	1	0	0	0	7954	623	22	4	2678	4	JAK2	9	5089710	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1841599	5089710	136123721	1460	14973											
GLDC	2731	broad.mit.edu	37	chr9	6610292	6610292	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcacacaccatggtctggtAgttgagtaaactctccagcc	10	10	9	12	0	3	1	1	1	2	0	4	1	3	1	3	2	2	3	3	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:6610292A>G	uc003zkc.2	-	4	728	c.535T>C	c.(535-537)TAC>CAC	p.Y179H		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	179					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	ATGGTCTGGTAGTTGAGTAAA	0.547													3	28					0	0	0.009096	0	0		G	6610292	G	G	6610292	3	3	19	1	0	0	0	0	1	0	0	0	6448	420	15	3	2615	3	GLDC	9	6610292	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1520582	6610292	134603139	1461	14974											
PTPRD	5789	broad.mit.edu	37	chr9	8517997	8517997	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctacattgtgtttcatccagTtgttgacatgttgagtggga	8	16	11	6	0	1	2	1	2	0	0	2	3	2	3	1	1	1	4	1	1	1	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:8517997T>C	uc003zkk.2	-	20	2105	c.1394A>G	c.(1393-1395)AAC>AGC	p.N465S	PTPRD_uc003zkp.2_Missense_Mutation_p.N465S|PTPRD_uc003zkq.2_Missense_Mutation_p.N465S|PTPRD_uc003zkr.2_Missense_Mutation_p.N459S|PTPRD_uc003zks.2_Missense_Mutation_p.N455S|PTPRD_uc003zkl.2_Missense_Mutation_p.N465S|PTPRD_uc003zkm.2_Missense_Mutation_p.N452S|PTPRD_uc003zkn.2_Missense_Mutation_p.N465S|PTPRD_uc003zko.2_Missense_Mutation_p.N462S	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	465	Fibronectin type-III 2.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TTTCATCCAGTTGTTGACATG	0.408										TSP Lung(15;0.13)			4	245					0	0	0.009096	0	0		C	8517997	C	C	8517997	3	2	19	1	0	0	0	0	1	0	0	0	12824	1725	60	3	4516	3	PTPRD	9	8517997	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1907705	8517997	132695434	1462	14975											
MPDZ	8777	broad.mit.edu	37	chr9	13188889	13188889	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaagttaacatcgtttacaAacatgagtcggtcaccagga	14	9	8	10	2	1	1	1	1	0	0	3	2	1	2	2	2	3	2	2	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:13188889A>G	uc010mia.1	-	16	2315	c.2258T>C	c.(2257-2259)TTT>TCT	p.F753S	MPDZ_uc010mhy.2_Missense_Mutation_p.F753S|MPDZ_uc010mhz.2_Missense_Mutation_p.F753S|MPDZ_uc011lmn.1_Missense_Mutation_p.F753S|MPDZ_uc003zlb.3_Missense_Mutation_p.F753S	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	753	PDZ 5.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		ATCGTTTACAAACATGAGTCG	0.473													12	272					0	0	0.013537	0	0		G	13188889	G	G	13188889	3	3	19	1	0	0	0	0	1	0	0	0	9740	14	1	3	3987	3	MPDZ	9	13188889	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4670892	13188889	128024542	1463	14976											
CER1	9350	broad.mit.edu	37	chr9	14722635	14722635	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtggtctttcctagaggCaggagtaccagcagctgaaa	10	9	13	9	1	1	2	0	1	1	1	2	3	2	3	2	3	3	4	2	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:14722635C>T	uc003zlj.2	-	1	81	c.36G>A	c.(34-36)CTG>CTA	p.L12L		NM_005454	NP_005445	O95813	CER1_HUMAN	cerberus 1 precursor	12					BMP signaling pathway	extracellular space	cytokine activity				0				GBM - Glioblastoma multiforme(50;3.16e-06)		TTCCTAGAGGCAGGAGTACCA	0.532													23	55					0	0	0.003954	0	0		T	14722635	T	T	14722635	2	4	19	1	0	0	0	0	0	0	0	1	3268	697	25	2		2	CER1	9	14722635	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1533746	14722635	126490796	1464	14977											
TTC39B	158219	broad.mit.edu	37	chr9	15214159	15214159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcgaagcaattctaaggCgtctgtaaatttgttgctta	10	13	12	6	2	2	0	0	0	2	0	2	1	2	0	0	3	2	4	0	3	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:15214159C>T	uc003zlr.1	-	4	383	c.262G>A	c.(262-264)GCC>ACC	p.A88T	TTC39B_uc003zlq.1_Missense_Mutation_p.A57T|TTC39B_uc011lmp.1_5'UTR|TTC39B_uc010mie.1_Missense_Mutation_p.A88T|TTC39B_uc011lmq.1_Missense_Mutation_p.A88T|TTC39B_uc011lmr.1_Intron|TTC39B_uc010mif.1_Missense_Mutation_p.A88T|TTC39B_uc003zls.1_5'UTR|TTC39B_uc010mig.1_Missense_Mutation_p.A57T|TTC39B_uc011lms.1_RNA	NM_152574	NP_689787	Q5VTQ0	TT39B_HUMAN	tetratricopeptide repeat domain 39B	88							binding			ovary(1)	1						AATTCTAAGGCGTCTGTAAAT	0.363													17	49					0	0	0.00499	0	0		T	15214159	T	T	15214159	3	4	19	1	0	0	0	0	1	0	0	0	16734	768	27	1	1677	1	TTC39B	9	15214159	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	491524	15214159	125999272	1465	14978											
C9orf93	203238	broad.mit.edu	37	chr9	15591502	15591502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatgatccaaaattgcaatcGagaatatgatttacttatga	16	14	6	5	1	0	4	0	3	0	1	2	5	1	4	1	0	2	1	1	0	8	6	rs141114992		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:15591502G>A	uc003zmd.2	+	5	806	c.491G>A	c.(490-492)CGA>CAA	p.R164Q	C9orf93_uc010mih.1_Missense_Mutation_p.R164Q|C9orf93_uc003zme.2_Missense_Mutation_p.R71Q|C9orf93_uc011lmu.1_Missense_Mutation_p.R164Q|C9orf93_uc003zmc.2_Missense_Mutation_p.R164Q	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	164	Potential.|Glu-rich.										0				GBM - Glioblastoma multiforme(50;4.84e-07)		AATTGCAATCGAGAATATGAT	0.313													17	42					0	0	0.010504	0	0		A	15591502	A	A	15591502	3	1	19	1	0	0	0	0	1	0	0	0	2509	1058	37	1	505	1	C9orf93	9	15591502	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	377343	15591502	125621929	1466	14979											
C9orf93	203238	broad.mit.edu	37	chr9	15623365	15623365	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acggcgacaaacaagtgaacTtgaatttagcactcaacgag	16	7	9	9	3	1	2	1	2	0	0	1	4	1	2	0	1	4	1	0	1	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:15623365T>C	uc003zmd.2	+	7	1091	c.776T>C	c.(775-777)CTT>CCT	p.L259P	C9orf93_uc010mih.1_Missense_Mutation_p.L259P|C9orf93_uc003zme.2_Missense_Mutation_p.L166P|C9orf93_uc011lmu.1_Missense_Mutation_p.L259P|C9orf93_uc003zmc.2_Missense_Mutation_p.L259P	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	259	Potential.|Glu-rich.										0				GBM - Glioblastoma multiforme(50;4.84e-07)		ACAAGTGAACTTGAATTTAGC	0.358													22	167					0	0	0.00333	0	0		C	15623365	C	C	15623365	3	2	19	1	0	0	0	0	1	0	0	0	2509	1609	56	3	798	3	C9orf93	9	15623365	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	31863	15623365	125590066	1467	14980											
C9orf93	203238	broad.mit.edu	37	chr9	15874651	15874651	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagggcgggccagaggtggTagcatgccaggttagagtct	9	7	17	8	1	1	2	0	0	1	2	1	2	1	2	2	5	2	3	2	5	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:15874651T>C	uc003zmd.2	+	24	3905	c.3590T>C	c.(3589-3591)GTA>GCA	p.V1197A	C9orf93_uc003zme.2_Missense_Mutation_p.V1112A|C9orf93_uc011lmu.1_Missense_Mutation_p.V1205A|C9orf93_uc003zmf.1_Missense_Mutation_p.V505A	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	1197											0				GBM - Glioblastoma multiforme(50;4.84e-07)		CCAGAGGTGGTAGCATGCCAG	0.463													32	88					0	0	0.012213	0	0		C	15874651	C	C	15874651	3	2	19	1	0	0	0	0	1	0	0	0	2509	1638	57	3	3680	3	C9orf93	9	15874651	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	251286	15874651	125338780	1468	14981											
CNTLN	54875	broad.mit.edu	37	chr9	17394908	17394908	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagtgagatctggacgatAtgattgtaagacaactatga	16	10	11	4	1	1	4	0	3	1	2	1	8	1	5	0	1	1	1	0	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:17394908A>T	uc003zmz.2	+	15	2482	c.2456A>T	c.(2455-2457)TAT>TTT	p.Y819F	CNTLN_uc003zmy.2_Missense_Mutation_p.Y819F|CNTLN_uc010mio.2_Missense_Mutation_p.Y498F	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	819						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		TCTGGACGATATGATTGTAAG	0.418													41	82					0	0	0.010771	0	0		T	17394908	T	T	17394908	3	4	19	1	0	0	0	0	1	0	0	0	3642	449	16	5	2544	5	CNTLN	9	17394908	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1520257	17394908	123818523	1469	14982											
CNTLN	54875	broad.mit.edu	37	chr9	17484474	17484474	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatattagacacagaagatcAagtggtaagatcatttaaat	19	11	7	4	0	2	4	2	0	0	4	2	4	2	4	0	1	0	1	0	1	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:17484474A>G	uc003zmz.2	+	24	4060	c.4034A>G	c.(4033-4035)CAA>CGA	p.Q1345R	CNTLN_uc003zmy.2_Missense_Mutation_p.Q1346R|CNTLN_uc010mio.2_Missense_Mutation_p.Q1025R	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	1346						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		ACAGAAGATCAAGTGGTAAGA	0.328													27	70					0	0	0.004656	0	0		G	17484474	G	G	17484474	3	3	19	1	0	0	0	0	1	0	0	0	3642	130	5	3	4161	3	CNTLN	9	17484474	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	89566	17484474	123728957	1470	14983											
DENND4C	55667	broad.mit.edu	37	chr9	19372127	19372127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgctccaccaagtgccAgtgtcgagtggtgcaggaag	9	9	14	9	1	0	1	0	1	0	0	2	3	1	2	3	2	3	2	3	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:19372127A>G	uc003znq.2	+	28	5011	c.4978A>G	c.(4978-4980)AGT>GGT	p.S1660G	DENND4C_uc011lnc.1_Missense_Mutation_p.S990G|DENND4C_uc011lnd.1_Missense_Mutation_p.S948G|DENND4C_uc003znr.2_3'UTR|DENND4C_uc003zns.2_3'UTR	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	1660						integral to membrane				ovary(1)|skin(1)	2						ACCAAGTGCCAGTGTCGAGTG	0.413													47	119					0	0	0.01441	0	0		G	19372127	G	G	19372127	3	3	19	1	0	0	0	0	1	0	0	0	4441	188	7	3	5088	3	DENND4C	9	19372127	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1887653	19372127	121841304	1471	14984											
SLC24A2	25769	broad.mit.edu	37	chr9	19516300	19516300	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatgacgaagagcagcaTgatgaagagaaggacgatgg	16	4	17	4	2	0	5	0	3	0	2	0	11	0	7	0	3	2	2	0	3	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:19516300T>C	uc003zoa.1	-	10	1899	c.1837A>G	c.(1837-1839)ATG>GTG	p.M613V	SLC24A2_uc003zob.1_Missense_Mutation_p.M596V	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	613	Helical; (Potential).				visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		AAGAGCAGCATGATGAAGAGA	0.527													46	62					0	0	0.013114	0	0		C	19516300	C	C	19516300	3	2	19	1	0	0	0	0	1	0	0	0	14491	1464	51	3	152	3	SLC24A2	9	19516300	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	144173	19516300	121697131	1472	14985											
KIAA1797	54914	broad.mit.edu	37	chr9	20885231	20885231	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttgctcttgtacatgaggTaggttcccgtgtcctcttct	5	16	9	11	1	3	1	0	1	3	0	5	1	5	1	2	2	2	4	2	2	2	6	rs145752860		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:20885231T>C	uc003zog.1	+	23	2988	c.2625_splice	c.e23+2	p.E875_splice	KIAA1797_uc003zoh.1_Splice_Site_p.E311_splice	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914							integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		GTACATGAGGTAGGTTCCCGT	0.363													43	82					0	0	0.01441	0	0		C	20885231	C	C	20885231	5	2	19	1	0	0	0	0	0	0	1	0	8274	1652	57	3	2705	3	KIAA1797	9	20885231	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1368931	20885231	120328200	1473	14986											
KLHL9	55958	broad.mit.edu	37	chr9	21333894	21333894	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctccattcttgtgcccttTcatcatacatccgtaattct	8	17	3	13	1	5	0	2	0	3	0	7	0	6	0	3	0	2	1	3	0	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:21333894T>C	uc003zoy.2	-	1	1536	c.965A>G	c.(964-966)GAA>GGA	p.E322G	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	322	Kelch 1.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		TTGTGCCCTTTCATCATACAT	0.448													17	128					0	0	0.00499	0	0		C	21333894	C	C	21333894	3	2	19	1	0	0	0	0	1	0	0	0	8412	1783	62	3	892	3	KLHL9	9	21333894	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	448663	21333894	119879537	1474	14987											
PLAA	9373	broad.mit.edu	37	chr9	26935204	26935204	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtaaagctcctgtttggActggaaagacaagataatta	14	12	9	6	0	1	2	0	0	1	2	2	4	2	4	1	2	1	3	1	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:26935204A>G	uc003zqd.2	-	2	575	c.150T>C	c.(148-150)AGT>AGC	p.S50S	PLAA_uc003zqe.2_Silent_p.S50S	NM_001031689	NP_001026859	Q9Y263	PLAP_HUMAN	phospholipase A2-activating protein	50	WD 1.				phospholipid metabolic process|signal transduction		phospholipase A2 activator activity				0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(218;1.32e-05)|LUSC - Lung squamous cell carcinoma(38;0.00011)		TCCTGTTTGGACTGGAAAGAC	0.393													6	95					0	0	0.001984	0	0		G	26935204	G	G	26935204	2	3	19	1	0	0	0	0	0	0	0	1	12030	289	10	3		3	PLAA	9	26935204	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5601310	26935204	114278227	1475	14988											
C9orf72	203228	broad.mit.edu	37	chr9	27560292	27560292	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtttgcaagtgtgagctgAtggcactgtaagttaaagaa	13	11	13	4	0	0	3	0	2	0	1	0	3	0	3	0	2	2	6	0	2	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:27560292A>C	uc003zqq.2	-	6	768	c.671T>G	c.(670-672)ATC>AGC	p.I224S		NM_018325	NP_060795	Q96LT7	CI072_HUMAN	hypothetical protein LOC203228 isoform a	224										ovary(3)|central_nervous_system(1)	4		all_neural(11;7.57e-10)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.00016)		GTGTGAGCTGATGGCACTGTA	0.323													17	29					0	0	0.012319	0	0		C	27560292	C	C	27560292	3	2	19	1	0	0	0	0	1	0	0	0	2498	333	12	5	798	5	C9orf72	9	27560292	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	625088	27560292	113653139	1476	14989											
ACO1	48	broad.mit.edu	37	chr9	32423340	32423340	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatgaagaaaaattaaagTatattaaaaaatatcttcag	21	12	6	2	0	2	3	1	2	1	1	2	3	2	3	0	0	0	1	0	0	11	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:32423340T>C	uc003zqw.3	+	9	1149	c.994T>C	c.(994-996)TAT>CAT	p.Y332H	ACO1_uc010mjh.1_Missense_Mutation_p.Y166H|ACO1_uc003zqx.3_Missense_Mutation_p.Y332H|ACO1_uc003zqy.3_RNA	NM_002197	NP_002188	P21399	ACOC_HUMAN	aconitase 1	332					citrate metabolic process|response to iron(II) ion|tricarboxylic acid cycle	cytosol|endoplasmic reticulum|Golgi apparatus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron-responsive element binding|isocitrate hydro-lyase (cis-aconitate-forming) activity|metal ion binding|protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;3.94e-06)		AAAATTAAAGTATATTAAAAA	0.363													7	97					0	0	0.001984	0	0		C	32423340	C	C	32423340	3	2	19	1	0	0	0	0	1	0	0	0	146	1638	57	3	1024	3	ACO1	9	32423340	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4863048	32423340	108790091	1477	14990											
NFX1	4799	broad.mit.edu	37	chr9	33369964	33369964	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaataattgactattttgaCgtccaggactaagaagatca	15	11	7	8	1	1	4	1	2	0	2	2	5	2	5	2	1	0	0	2	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:33369964C>T	uc003zsq.2	+	24	3412	c.3351C>T	c.(3349-3351)GAC>GAT	p.D1117D	SUGT1P1_uc010mjq.1_Intron|NFX1_uc003zsr.2_Silent_p.D1118D	NM_002504	NP_002495	Q12986	NFX1_HUMAN	nuclear transcription factor, X-box binding 1	1117					inflammatory response|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|ligase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)	GBM - Glioblastoma multiforme(74;0.224)		ACTATTTTGACGTCCAGGACT	0.378													15	32					0	0	0.00499	0	0		T	33369964	T	T	33369964	2	4	19	1	0	0	0	0	0	0	0	1	10406	535	19	1		1	NFX1	9	33369964	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	946624	33369964	107843467	1478	14991											
PRSS3	5646	broad.mit.edu	37	chr9	33796745	33796745	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attctggctcccacttctgcGgtggctccctcatcagcgaa	6	11	9	15	2	4	0	2	0	2	0	6	1	6	0	2	3	2	2	2	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:33796745G>T	uc003ztj.3	+	2	316	c.316G>T	c.(316-318)GGT>TGT	p.G106C	uc003ztk.1_Intron|PRSS3_uc003zti.3_Missense_Mutation_p.G63C|PRSS3_uc003ztl.3_Missense_Mutation_p.G49C	NM_007343	NP_031369	P35030	TRY3_HUMAN	mesotrypsin isoform 1 preproprotein	106	Peptidase S1.				digestion|endothelial cell migration|zymogen activation	extracellular space	calcium ion binding|protein binding|serine-type endopeptidase activity|serine-type peptidase activity				0			LUSC - Lung squamous cell carcinoma(29;0.0176)			CCACTTCTGCGGTGGCTCCCT	0.567													39	138					1.61863e-15	1.71323e-15	0.01441	1	0		T	33796745	T	T	33796745	3	4	19	1	0	0	0	0	1	0	0	0	12644	1116	39	5	366	5	PRSS3	9	33796745	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	426781	33796745	107416686	1479	14992											
UBAP2	55833	broad.mit.edu	37	chr9	33948487	33948487	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtggtggtaaactggccCaaactcggagctttcaactg	9	9	14	9	1	1	0	1	0	0	0	2	1	1	1	1	6	4	2	1	6	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:33948487C>A	uc003ztq.1	-	13	1268	c.1155G>T	c.(1153-1155)TTG>TTT	p.L385F	UBAP2_uc011loc.1_Missense_Mutation_p.L294F|UBAP2_uc011lod.1_Missense_Mutation_p.L118F|UBAP2_uc011loe.1_Missense_Mutation_p.L140F|UBAP2_uc011lof.1_Missense_Mutation_p.L310F|UBAP2_uc011log.1_Missense_Mutation_p.L331F|UBAP2_uc003ztr.2_Missense_Mutation_p.L257F|UBAP2_uc003zts.2_Missense_Mutation_p.L18F	NM_018449	NP_060919	Q5T6F2	UBAP2_HUMAN	ubiquitin associated protein 2	385										ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)		TAAACTGGCCCAAACTCGGAG	0.507													9	283					0.000274275	0.000280517	0.004482	1	0		A	33948487	A	A	33948487	3	1	19	1	0	0	0	0	1	0	0	0	16863	593	21	5	2272	5	UBAP2	9	33948487	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	151742	33948487	107264944	1480	14993											
KIF24	347240	broad.mit.edu	37	chr9	34257342	34257342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccctctccttctgatgtgGcgggatgtttgtccaagctt	4	15	10	12	1	2	1	0	1	2	0	5	2	4	2	3	2	1	2	3	2	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:34257342G>A	uc003zua.3	-	11	2383	c.2263C>T	c.(2263-2265)CCA>TCA	p.P755S	KIF24_uc010mkb.2_Intron	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	755					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			TTCTGATGTGGCGGGATGTTT	0.542													66	104					0	0	0.01441	0	0		A	34257342	A	A	34257342	3	1	19	1	0	0	0	0	1	0	0	0	8308	1203	42	2	1855	2	KIF24	9	34257342	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	308855	34257342	106956089	1481	14994											
KIAA1161	57462	broad.mit.edu	37	chr9	34371269	34371269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggctgtccgctggggcacgGcgttgccgcccaccatatcg	4	7	14	16	6	0	0	0	0	0	0	2	0	1	0	4	4	1	4	4	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:34371269G>A	uc003zue.3	-	3	1840	c.1673C>T	c.(1672-1674)GCC>GTC	p.A558V		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	558	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		CTGGGGCACGGCGTTGCCGCC	0.652													5	9					0	0	0.001984	0	0		A	34371269	A	A	34371269	3	1	19	1	0	0	0	0	1	0	0	0	8227	1203	42	2	475	2	KIAA1161	9	34371269	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	113927	34371269	106842162	1482	14995											
KIAA1161	57462	broad.mit.edu	37	chr9	34371837	34371837	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgctggcgttggggaattTgacctcatcgaagtcgaagt	8	11	14	8	4	1	1	1	1	0	0	4	4	1	2	1	3	0	2	1	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:34371837T>C	uc003zue.3	-	3	1272	c.1105A>G	c.(1105-1107)AAA>GAA	p.K369E		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	369	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		TTGGGGAATTTGACCTCATCG	0.577													3	51					0	0	0.004672	0	0		C	34371837	C	C	34371837	3	2	19	1	0	0	0	0	1	0	0	0	8227	1821	63	3	1043	3	KIAA1161	9	34371837	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	568	34371837	106841594	1483	14996											
DNAJB5	25822	broad.mit.edu	37	chr9	34996633	34996633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcatgaagatcacaaggCgtcgcctcaaccctgatggg	11	6	12	12	3	2	3	2	2	0	1	3	3	2	3	2	2	2	1	2	2	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:34996633C>T	uc003zvt.2	+	3	721	c.583C>T	c.(583-585)CGT>TGT	p.R195C	DNAJB5_uc003zvs.2_Missense_Mutation_p.R229C|DNAJB5_uc011los.1_Missense_Mutation_p.R267C	NM_012266	NP_036398	O75953	DNJB5_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 5	195				MKITRRR -> IEDHKAS (in Ref. 2; AAM10498).	protein folding|response to unfolded protein		heat shock protein binding|unfolded protein binding				0			LUSC - Lung squamous cell carcinoma(32;0.00575)			GATCACAAGGCGTCGCCTCAA	0.612													7	33					0	0	0.001984	0	0		T	34996633	T	T	34996633	3	4	19	1	0	0	0	0	1	0	0	0	4629	768	27	1	809	1	DNAJB5	9	34996633	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	624796	34996633	106216798	1484	14997											
C9orf131	138724	broad.mit.edu	37	chr9	35045821	35045821	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcaaaaggtgttagccaaAtgcctggataaccatcgacc	13	9	9	10	1	0	0	0	0	0	0	1	2	0	1	4	2	4	2	4	2	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:35045821A>C	uc003zvw.2	+	2	3224	c.3195A>C	c.(3193-3195)AAA>AAC	p.K1065N	C9orf131_uc003zvu.2_Missense_Mutation_p.K1017N|C9orf131_uc003zvv.2_Missense_Mutation_p.K992N|C9orf131_uc003zvx.2_Missense_Mutation_p.K1030N	NM_203299	NP_976044	Q5VYM1	CI131_HUMAN	hypothetical protein LOC138724 isoform A	1065											0	all_epithelial(49;0.22)		LUSC - Lung squamous cell carcinoma(32;0.00117)|Lung(28;0.00309)			TGTTAGCCAAATGCCTGGATA	0.507													26	268					0	0	0.00632	0	0		C	35045821	C	C	35045821	3	2	19	1	0	0	0	0	1	0	0	0	2460	98	4	5	3217	5	C9orf131	9	35045821	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	49188	35045821	106167610	1485	14998											
TPM2	7169	broad.mit.edu	37	chr9	35689707	35689707	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccggccctaacctgcttGcagcggtcctcagcttgctt	4	10	11	16	2	1	0	1	0	0	0	2	0	2	0	4	3	6	4	4	3	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:35689707G>A	uc003zxq.2	-	1	347	c.108C>T	c.(106-108)TGC>TGT	p.C36C	TPM2_uc003zxr.2_Silent_p.C36C|TPM2_uc003zxs.2_Silent_p.C36C|TPM2_uc010mkz.2_Silent_p.C36C|TPM2_uc011lpa.1_Silent_p.C36C	NM_213674	NP_998839	P07951	TPM2_HUMAN	tropomyosin 2 (beta) isoform 2	36	By similarity.				muscle filament sliding|regulation of ATPase activity	cytosol|muscle thin filament tropomyosin	actin binding|structural constituent of muscle			ovary(1)	1	all_epithelial(49;0.121)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TAACCTGCTTGCAGCGGTCCT	0.672													51	89					0	0	0.01441	0	0		A	35689707	A	A	35689707	2	1	19	1	0	0	0	0	0	0	0	1	16432	1311	46	2		2	TPM2	9	35689707	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	643886	35689707	105523724	1486	14999											
CREB3	10488	broad.mit.edu	37	chr9	35736081	35736081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggaaactccaggccatGgtgattgagatatcaaacaa	15	8	10	8	0	1	3	1	3	0	1	2	5	2	4	2	3	2	0	2	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:35736081G>A	uc003zxv.2	+	7	1101	c.648G>A	c.(646-648)ATG>ATA	p.M216I	CREB3_uc010mla.2_Missense_Mutation_p.M135I	NM_006368	NP_006359	O43889	CREB3_HUMAN	cAMP responsive element binding protein 3	240	Cytoplasmic (Potential).				chemotaxis|induction of positive chemotaxis|interspecies interaction between organisms|negative regulation of cell cycle|positive regulation of calcium ion transport|positive regulation of cell migration|positive regulation of transcription, DNA-dependent|reactivation of latent virus|regulation of cell proliferation	cytosol|endoplasmic reticulum|endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|integral to membrane|nucleus|nucleus	cAMP response element binding protein binding|CCR1 chemokine receptor binding|DNA binding|protein dimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity				0	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)	GBM - Glioblastoma multiforme(74;0.0285)		TCCAGGCCATGGTGATTGAGA	0.517											OREG0019176	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	64	157					0	0	0.01441	0	0		A	35736081	A	A	35736081	3	1	19	1	0	0	0	0	1	0	0	0	3858	1348	47	4	674	4	CREB3	9	35736081	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	46374	35736081	105477350	1487	15000											
RECK	8434	broad.mit.edu	37	chr9	36121578	36121578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaatacttcagaaaatcCgcatgcacgtgtctgtccca	12	10	8	11	2	2	1	1	0	1	1	4	2	4	2	2	1	2	2	2	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:36121578C>T	uc003zyv.2	+	20	2673	c.2587C>T	c.(2587-2589)CGC>TGC	p.R863C	RECK_uc003zyw.2_Missense_Mutation_p.R735C|RECK_uc003zyx.2_RNA	NM_021111	NP_066934	O95980	RECK_HUMAN	RECK protein precursor	863						anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)			TCAGAAAATCCGCATGCACGT	0.383													50	107					0	0	0.01441	0	0		T	36121578	T	T	36121578	3	4	19	1	0	0	0	0	1	0	0	0	13225	652	23	1	2665	1	RECK	9	36121578	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	385497	36121578	105091853	1488	15001											
RNF38	152006	broad.mit.edu	37	chr9	36390590	36390590	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggatggccaggtagagaTgctgaattggccccgggaga	10	8	16	7	1	0	3	0	1	0	2	0	6	0	4	3	5	1	2	3	5	3	3	rs149578872	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:36390590T>C	uc003zzh.2	-	2	227	c.36A>G	c.(34-36)GCA>GCG	p.A12A	RNF38_uc003zzi.2_Intron|RNF38_uc003zzj.2_5'UTR|RNF38_uc003zzk.2_Intron|RNF38_uc003zzl.2_Intron|RNF38_uc003zzm.2_5'UTR	NM_022781	NP_073618	Q9H0F5	RNF38_HUMAN	ring finger protein 38 isoform 1	12							zinc ion binding			central_nervous_system(1)	1			STAD - Stomach adenocarcinoma(86;0.228)			CAGGTAGAGATGCTGAATTGG	0.488													48	89					0	0	0.01441	0	0		C	36390590	C	C	36390590	2	2	19	1	0	0	0	0	0	0	0	1	13515	1451	51	3		3	RNF38	9	36390590	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	269012	36390590	104822841	1489	15002											
MCART1	92014	broad.mit.edu	37	chr9	37888367	37888367	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcccgggttttgatgccatAcagctgttgtcgaaagagga	10	11	12	8	2	0	2	0	1	0	1	2	4	1	3	2	2	3	3	2	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:37888367A>G	uc004aau.2	-	3	925	c.181T>C	c.(181-183)TAT>CAT	p.Y61H	MCART1_uc004aar.1_Intron|MCART1_uc004aaq.1_Intron|uc004aat.1_5'Flank|MCART1_uc004aav.2_Missense_Mutation_p.Y61H	NM_033412	NP_219480	Q9H1U9	MCAR1_HUMAN	mitochondrial carrier triple repeat 1	61	Solcar 1.				transport	integral to membrane|mitochondrial inner membrane				ovary(2)|breast(1)	3				GBM - Glioblastoma multiforme(29;0.00559)|Lung(182;0.0422)		TTGATGCCATACAGCTGTTGT	0.453													44	87					0	0	0.00874	0	0		G	37888367	G	G	37888367	3	3	19	1	0	0	0	0	1	0	0	0	9387	391	14	3	716	3	MCART1	9	37888367	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1497777	37888367	103325064	1490	15003											
ANKRD20A3	441425	broad.mit.edu	37	chr9	67968390	67968390	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtagaaatgagttctgctaTttccaaagtaaaagctgaga	16	11	9	5	0	1	3	0	2	1	2	2	4	2	3	1	0	2	5	1	0	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:67968390T>C	uc004aeu.2	+	15	2061	c.1949T>C	c.(1948-1950)ATT>ACT	p.I650T	ANKRD20A3_uc010mnn.2_Missense_Mutation_p.I649T	NM_001012419	NP_001012419	Q5VUR7	A20A3_HUMAN	ankyrin repeat domain 20 family, member A3	650	Potential.										0						AGTTCTGCTATTTCCAAAGTA	0.328													3	133					0	0	0.004672	0	0		C	67968390	C	C	67968390	3	2	19	1	0	0	0	0	1	0	0	0	649	1493	52	3	7071	3	ANKRD20A3	9	67968390	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	30080023	67968390	73245041	1491	15004											
MAMDC2	256691	broad.mit.edu	37	chr9	72724699	72724699	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcactatttgaaatcaagAtgacaaccggctactgtatt	13	12	7	9	2	1	3	1	2	0	1	2	3	1	3	1	1	2	3	1	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:72724699A>G	uc004ahm.2	+	4	1101	c.484A>G	c.(484-486)ATG>GTG	p.M162V	MAMDC2_uc004ahn.2_RNA	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	162	MAM 1.					endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						TGAAATCAAGATGACAACCGG	0.393													5	282					0	0	0.00308	0	0		G	72724699	G	G	72724699	3	3	19	1	0	0	0	0	1	0	0	0	9221	333	12	3	498	3	MAMDC2	9	72724699	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4756309	72724699	68488732	1492	15005											
SMC5	23137	broad.mit.edu	37	chr9	72897376	72897376	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggaatatgaagaagtaaaActagttcgtgaccgagtgaa	17	8	11	5	2	0	4	0	3	0	1	1	6	0	5	1	1	1	2	1	1	8	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:72897376A>G	uc004ahr.2	+	7	975	c.858A>G	c.(856-858)AAA>AAG	p.K286K		NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein	286	Potential.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						AAGAAGTAAAACTAGTTCGTG	0.353													23	67					0	0	0.003954	0	0		G	72897376	G	G	72897376	2	3	19	1	0	0	0	0	0	0	0	1	14811	40	2	3		3	SMC5	9	72897376	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	172677	72897376	68316055	1493	15006											
TMEM2	23670	broad.mit.edu	37	chr9	74332984	74332984	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcggggtttgcatcctgaTgaggtcgaaatctaggggtt	7	14	14	6	2	1	2	0	2	1	0	4	3	2	2	1	5	1	3	1	5	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:74332984T>C	uc011lsa.1	-	13	2819	c.2279A>G	c.(2278-2280)CAT>CGT	p.H760R	TMEM2_uc010mos.2_Missense_Mutation_p.H697R|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	760						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		TGCATCCTGATGAGGTCGAAA	0.353													16	153					0	0	0.004007	0	0		C	74332984	C	C	74332984	3	2	19	1	0	0	0	0	1	0	0	0	16146	1464	51	3	1920	3	TMEM2	9	74332984	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1435608	74332984	66880447	1494	15007											
GDA	9615	broad.mit.edu	37	chr9	74842916	74842916	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactgaacgtattccatgaaCgaggagcatccatcgcacac	14	7	8	12	3	0	2	0	2	0	0	3	4	2	3	2	1	4	3	2	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:74842916C>T	uc004aiq.2	+	9	1063	c.880C>T	c.(880-882)CGA>TGA	p.R294*	GDA_uc011lse.1_Nonsense_Mutation_p.R220*|GDA_uc011lsf.1_Nonsense_Mutation_p.R220*|GDA_uc004air.2_Nonsense_Mutation_p.R294*|GDA_uc010mow.1_RNA|GDA_uc004ais.2_Nonsense_Mutation_p.R216*|GDA_uc004ait.1_Nonsense_Mutation_p.R220*	NM_004293	NP_004284	Q9Y2T3	GUAD_HUMAN	guanine deaminase	294					nervous system development|purine base metabolic process|purine nucleotide catabolic process	cytosol	guanine deaminase activity|zinc ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		ATTCCATGAACGAGGAGCATC	0.458													10	12					0	0	0.010729	0	0		T	74842916	T	T	74842916	4	4	19	1	0	0	0	0	0	1	0	0	6321	528	19	1	914	1	GDA	9	74842916	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	509932	74842916	66370515	1495	15008											
TRPM6	140803	broad.mit.edu	37	chr9	77354647	77354647	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagacttaccctgaggcAaagatgaagcacagtgctct	12	10	9	10	0	2	4	1	2	1	2	2	4	2	4	1	1	3	3	1	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:77354647A>G	uc004ajl.1	-	34	5717	c.5479T>C	c.(5479-5481)TGC>CGC	p.C1827R	TRPM6_uc004ajk.1_Missense_Mutation_p.C1822R|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.C778R|TRPM6_uc010mpd.1_Missense_Mutation_p.C660R|TRPM6_uc010mpe.1_Missense_Mutation_p.C374R|TRPM6_uc004ajj.1_Missense_Mutation_p.C783R	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1827	Alpha-type protein kinase.|Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						ACCCTGAGGCAAAGATGAAGC	0.463													5	377					0	0	0.001168	0	0		G	77354647	G	G	77354647	3	3	19	1	0	0	0	0	1	0	0	0	16616	130	5	3	613	3	TRPM6	9	77354647	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2511731	77354647	63858784	1496	15009											
TRPM6	140803	broad.mit.edu	37	chr9	77377141	77377141	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcactccgagaggaatcActgtcacaagtggagggcaa	12	8	12	9	1	3	1	3	0	0	1	4	4	4	3	1	3	0	2	1	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:77377141A>G	uc004ajl.1	-	26	4684	c.4446T>C	c.(4444-4446)AGT>AGC	p.S1482S	TRPM6_uc004ajk.1_Silent_p.S1477S|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajj.1_Silent_p.S438S	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1482	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						GAGAGGAATCACTGTCACAAG	0.493													7	153					0	0	0.00308	0	0		G	77377141	G	G	77377141	2	3	19	1	0	0	0	0	0	0	0	1	16616	156	6	3		3	TRPM6	9	77377141	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	22494	77377141	63836290	1497	15010											
CEP78	84131	broad.mit.edu	37	chr9	80858467	80858467	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtatggctggcttaagacgTatcacactgaattgcaacac	12	11	9	9	1	1	2	1	1	0	1	1	2	1	2	0	2	2	5	0	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:80858467T>C	uc004akx.2	+	5	969	c.693T>C	c.(691-693)CGT>CGC	p.R231R	CEP78_uc004aky.3_Silent_p.R231R|CEP78_uc010mpp.2_Silent_p.R231R|CEP78_uc011lsp.1_Silent_p.R144R	NM_032171	NP_115547	Q5JTW2	CEP78_HUMAN	centrosomal protein 78kDa isoform b	231					G2/M transition of mitotic cell cycle	centrosome|cytosol				ovary(1)	1						GCTTAAGACGTATCACACTGA	0.438													3	60					0	0	0.004672	0	0		C	80858467	C	C	80858467	2	2	19	1	0	0	0	0	0	0	0	1	3265	1625	57	3		3	CEP78	9	80858467	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3481326	80858467	60354964	1498	15011											
KIF27	55582	broad.mit.edu	37	chr9	86504088	86504088	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttatcttgttcttctatGtgacccaacagcatctgact	9	15	5	12	0	4	2	0	2	4	0	4	2	4	2	2	0	2	2	2	0	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:86504088G>A	uc004ana.2	-	7	2034	c.1890C>T	c.(1888-1890)CAC>CAT	p.H630H	KIF27_uc010mpw.2_Silent_p.H630H|KIF27_uc010mpx.2_Silent_p.H630H	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	630					cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						GTTCTTCTATGTGACCCAACA	0.433													50	152					0	0	0.01441	0	0		A	86504088	A	A	86504088	2	1	19	1	0	0	0	0	0	0	0	1	8312	1368	48	4		4	KIF27	9	86504088	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	5645621	86504088	54709343	1499	15012											
NTRK2	4915	broad.mit.edu	37	chr9	87366958	87366958	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgccttttggtaatgctgTttctgcttaagttggcaaga	7	18	10	6	0	1	1	0	0	1	1	1	1	1	1	1	2	3	6	1	2	3	7	rs66731880		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:87366958T>C	uc004aoa.1	+	14	2292	c.1354T>C	c.(1354-1356)TTT>CTT	p.F452L	NTRK2_uc004anv.1_Missense_Mutation_p.F439L|NTRK2_uc004any.1_Missense_Mutation_p.F452L|NTRK2_uc004anz.1_Missense_Mutation_p.F452L|NTRK2_uc011lsz.1_Missense_Mutation_p.F452L|NTRK2_uc011lta.1_Missense_Mutation_p.F452L|NTRK2_uc004aob.1_Missense_Mutation_p.F452L|NTRK2_uc011ltb.1_Missense_Mutation_p.F296L|NTRK2_uc004aoc.2_Missense_Mutation_p.F3L	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	neurotrophic tyrosine kinase, receptor, type 2	452	Helical; (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16						GGTAATGCTGTTTCTGCTTAA	0.413										TSP Lung(25;0.17)			6	81					0	0	0.001168	0	0		C	87366958	C	C	87366958	3	2	19	1	0	0	0	0	1	0	0	0	10726	1725	60	3	1396	3	NTRK2	9	87366958	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	862870	87366958	53846473	1500	15013											
ZCCHC6	79670	broad.mit.edu	37	chr9	88938154	88938154	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggaatcatttctgatgtCtggccctgtactgagtgggt	7	13	14	7	0	3	2	1	2	2	0	3	4	3	3	1	3	1	1	1	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:88938154C>A	uc004aoq.2	-	13	2726	c.2511G>T	c.(2509-2511)CAG>CAT	p.Q837H	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.Q714H|ZCCHC6_uc004aou.2_Missense_Mutation_p.Q837H	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	837	Glu-rich.				RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						TTTCTGATGTCTGGCCCTGTA	0.348													9	78					0.00448238	0.00455878	0.004482	1	0		A	88938154	A	A	88938154	3	1	19	1	0	0	0	0	1	0	0	0	17617	912	32	5	2036	5	ZCCHC6	9	88938154	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1571196	88938154	52275277	1501	15014											
SHC3	53358	broad.mit.edu	37	chr9	91793254	91793254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaagtagggagccgccgccGgggtcgcgcgcgccgccgaa	6	2	17	16	9	0	0	0	0	0	0	1	2	0	1	6	3	1	1	6	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:91793254G>A	uc004aqg.2	-	1	429	c.122C>T	c.(121-123)CCG>CTG	p.P41L		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	41					central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						Agccgccgccggggtcgcgcg	0.567													4	11					0	0	0.009096	0	0		A	91793254	A	A	91793254	3	1	19	1	0	0	0	0	1	0	0	0	14297	1116	39	1	1710	1	SHC3	9	91793254	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2855100	91793254	49420177	1502	15015											
SECISBP2	79048	broad.mit.edu	37	chr9	91949479	91949479	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatgttgttcgacagacatTatctacagaactgtcagcag	12	13	8	8	1	2	2	1	0	1	2	3	3	2	2	0	0	3	3	0	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:91949479T>C	uc004aqj.1	+	7	1003	c.923T>C	c.(922-924)TTA>TCA	p.L308S	SECISBP2_uc010mqn.1_Intron|SECISBP2_uc004aqi.1_Intron|SECISBP2_uc011ltk.1_Missense_Mutation_p.L307S|SECISBP2_uc004aqk.1_Missense_Mutation_p.L235S|SECISBP2_uc010mqo.1_Missense_Mutation_p.L13S|SECISBP2_uc011ltl.1_Missense_Mutation_p.L240S	NM_024077	NP_076982	Q96T21	SEBP2_HUMAN	SECIS binding protein 2	308					translation	nucleus	mRNA 3'-UTR binding			ovary(2)|skin(1)	3						CGACAGACATTATCTACAGAA	0.343													3	63					0	0	0.004672	0	0		C	91949479	C	C	91949479	3	2	19	1	0	0	0	0	1	0	0	0	14031	1764	61	3	949	3	SECISBP2	9	91949479	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	156225	91949479	49263952	1503	15016											
NOL8	55035	broad.mit.edu	37	chr9	95062252	95062252	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgtaaacgagggtcttcCtgccagacaatctttccagg	9	12	9	11	1	3	1	0	0	3	1	5	2	5	1	3	2	2	1	3	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:95062252C>A	uc004arv.2	-	14	3559	c.3222G>T	c.(3220-3222)CAG>CAT	p.Q1074H	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Missense_Mutation_p.Q306H|NOL8_uc011ltw.1_Missense_Mutation_p.Q1006H	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	1074					DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						GAGGGTCTTCCTGCCAGACAA	0.408													96	201					6.21051e-42	6.68231e-42	0.01441	1	0		A	95062252	A	A	95062252	3	1	19	1	0	0	0	0	1	0	0	0	10546	680	24	5	297	5	NOL8	9	95062252	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3112773	95062252	46151179	1504	15017											
IPPK	64768	broad.mit.edu	37	chr9	95400351	95400351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccctgaggcccgagccccGgactcagggtgcctgcccgg	4	4	16	17	3	1	1	1	1	0	0	1	3	1	2	6	5	3	0	6	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:95400351G>A	uc004asl.1	-	9	1125	c.848C>T	c.(847-849)CCG>CTG	p.P283L	IPPK_uc004ask.1_5'Flank	NM_022755	NP_073592	Q9H8X2	IPPK_HUMAN	inositol 1,3,4,5,6-pentakisphosphate 2-kinase	283					inositol or phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol pentakisphosphate 2-kinase activity			ovary(2)	2						CCCGAGCCCCGGACTCAGGGT	0.687													9	10					0	0	0.004482	0	0		A	95400351	A	A	95400351	3	1	19	1	0	0	0	0	1	0	0	0	7817	1116	39	1	647	1	IPPK	9	95400351	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	338099	95400351	45813080	1505	15018											
IPPK	64768	broad.mit.edu	37	chr9	95411818	95411818	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaggaaggcacatagcgtAaccactgagagtatccaggt	14	8	11	8	1	0	1	0	1	0	1	1	3	1	2	2	3	2	3	2	3	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:95411818A>G	uc004asl.1	-	5	608	c.331T>C	c.(331-333)TAC>CAC	p.Y111H		NM_022755	NP_073592	Q9H8X2	IPPK_HUMAN	inositol 1,3,4,5,6-pentakisphosphate 2-kinase	111					inositol or phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol pentakisphosphate 2-kinase activity			ovary(2)	2						CACATAGCGTAACCACTGAGA	0.517													12	77					0	0	0.013537	0	0		G	95411818	G	G	95411818	3	3	19	1	0	0	0	0	1	0	0	0	7817	362	13	3	1180	3	IPPK	9	95411818	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	11467	95411818	45801613	1506	15019											
BICD2	23299	broad.mit.edu	37	chr9	95481493	95481493	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accttctccgtgagtgcctgGccctcagcctcatagcggcc	5	9	10	17	2	3	1	2	1	1	0	4	1	3	1	6	2	3	0	6	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:95481493G>A	uc004aso.1	-	5	1491	c.1434C>T	c.(1432-1434)GGC>GGT	p.G478G	BICD2_uc004asp.1_Silent_p.G478G	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	478	Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						TGAGTGCCTGGCCCTCAGCCT	0.677													9	63					0	0	0.004482	0	0		A	95481493	A	A	95481493	2	1	19	1	0	0	0	0	0	0	0	1	1430	1190	42	2		2	BICD2	9	95481493	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	69675	95481493	45731938	1507	15020											
ZNF484	83744	broad.mit.edu	37	chr9	95609231	95609231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttagtgaaggatttcccaCaaatactgcattcatagggt	12	13	8	8	0	2	1	1	1	1	0	3	2	3	2	1	2	2	1	1	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:95609231C>T	uc004asu.1	-	5	1987	c.1838G>A	c.(1837-1839)TGT>TAT	p.C613Y	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Missense_Mutation_p.C615Y|ZNF484_uc010mrb.1_Missense_Mutation_p.C577Y|ZNF484_uc004asv.1_Missense_Mutation_p.C577Y	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	613	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGATTTCCCACAAATACTGCA	0.408													24	66					0	0	0.014323	0	0		T	95609231	T	T	95609231	3	4	19	1	0	0	0	0	1	0	0	0	17962	478	17	4	724	4	ZNF484	9	95609231	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	127738	95609231	45604200	1508	15021											
PHF2	5253	broad.mit.edu	37	chr9	96415507	96415507	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattgtaaagaaactgtcaTgggtagaaaactactggcca	16	9	9	7	0	1	2	1	0	0	2	1	2	1	2	1	2	3	2	1	2	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:96415507T>C	uc004aub.2	+	6	796	c.649T>C	c.(649-651)TGG>CGG	p.W217R	PHF2_uc011lug.1_Missense_Mutation_p.W100R	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	217	JmjC.				liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		GAAACTGTCATGGGTAGAAAA	0.498													3	52					0	0	0.009096	0	0		C	96415507	C	C	96415507	3	2	19	1	0	0	0	0	1	0	0	0	11849	1464	51	3	671	3	PHF2	9	96415507	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	806276	96415507	44797924	1509	15022											
C9orf3	84909	broad.mit.edu	37	chr9	97555117	97555117	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcacaattgcagtgggatgCtggacagaaatgaagatgga	14	9	13	5	0	1	3	1	1	0	2	1	6	1	6	0	3	2	2	0	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:97555117C>T	uc004ava.2	+	3	1170	c.1035C>T	c.(1033-1035)TGC>TGT	p.C345C	C9orf3_uc004aux.1_Silent_p.C345C|C9orf3_uc004auy.2_Silent_p.C345C|C9orf3_uc004auz.1_Silent_p.C345C	NM_032823	NP_116212	Q8N6M6	AMPO_HUMAN	aminopeptidase O	345					leukotriene biosynthetic process|proteolysis	cytoplasm	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(323;0.000275)		CAGTGGGATGCTGGACAGAAA	0.448													114	212					0	0	0.01441	0	0		T	97555117	T	T	97555117	2	4	19	1	0	0	0	0	0	0	0	1	2480	805	28	2		2	C9orf3	9	97555117	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1139610	97555117	43658314	1510	15023											
C9orf3	84909	broad.mit.edu	37	chr9	97843020	97843020	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgttaagcacaagttcacGaaagcctacaaaagtgtgga	16	9	9	7	1	1	0	1	0	0	0	1	2	1	1	1	1	3	3	1	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:97843020G>A	uc004ava.2	+	14	2412	c.2277G>A	c.(2275-2277)ACG>ACA	p.T759T	C9orf3_uc004auy.2_Silent_p.T660T|C9orf3_uc004auz.1_Silent_p.T660T|C9orf3_uc004avc.2_Silent_p.T214T|C9orf3_uc011luj.1_Silent_p.T121T|C9orf3_uc011luk.1_Silent_p.T100T|C9orf3_uc004avd.2_Silent_p.T121T	NM_032823	NP_116212	Q8N6M6	AMPO_HUMAN	aminopeptidase O	759					leukotriene biosynthetic process|proteolysis	cytoplasm	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(323;0.000275)		ACAAGTTCACGAAAGCCTACA	0.527													31	79					0	0	0.012213	0	0		A	97843020	A	A	97843020	2	1	19	1	0	0	0	0	0	0	0	1	2480	1045	37	1		1	C9orf3	9	97843020	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	287903	97843020	43370411	1511	15024											
C9orf102	375748	broad.mit.edu	37	chr9	98718286	98718286	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcatgtatttacgacagatAtacaagcaggtaaatatgtt	16	13	7	5	1	1	1	1	0	0	1	1	2	1	1	0	1	3	4	0	1	8	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:98718286A>G	uc004avt.3	+	13	2359	c.1971A>G	c.(1969-1971)ATA>ATG	p.I657M	C9orf102_uc011lum.1_Missense_Mutation_p.I359M|C9orf102_uc010mry.1_Missense_Mutation_p.I359M|C9orf102_uc010mrz.2_Missense_Mutation_p.I468M|C9orf102_uc004avu.2_Translation_Start_Site	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	657	Helicase C-terminal.				DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				TACGACAGATATACAAGCAGG	0.333													10	119					0	0	0.008291	0	0		G	98718286	G	G	98718286	3	3	19	1	0	0	0	0	1	0	0	0	2448	439	16	3	2021	3	C9orf102	9	98718286	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	875266	98718286	42495145	1512	15025											
CDC14B	8555	broad.mit.edu	37	chr9	99284802	99284802	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcacgtgagaggaatagcGtttgttttggattgtcttct	8	16	11	6	2	3	1	1	1	2	1	3	4	3	3	0	2	1	2	0	2	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:99284802G>A	uc004awj.2	-	12	1781	c.1329C>T	c.(1327-1329)AAC>AAT	p.N443N	CDC14B_uc004awk.2_Silent_p.N443N|CDC14B_uc004awl.2_RNA|CDC14B_uc004awi.2_Silent_p.N406N	NM_033331	NP_201588	O60729	CC14B_HUMAN	CDC14 homolog B isoform 2	443					activation of anaphase-promoting complex activity|DNA repair|G2/M transition DNA damage checkpoint	nucleolus|nucleoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				GAGGAATAGCGTTTGTTTTGG	0.418													38	85					0	0	0.00623	0	0		A	99284802	A	A	99284802	2	1	19	1	0	0	0	0	0	0	0	1	3060	1136	40	1		1	CDC14B	9	99284802	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	566516	99284802	41928629	1513	15026											
ZNF782	158431	broad.mit.edu	37	chr9	99581062	99581062	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtttctctcccgtgtgagTtctctgatgttttcttaggc	3	19	10	9	1	3	2	0	2	3	0	6	2	4	2	1	2	0	3	1	2	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:99581062T>C	uc004awp.1	-	6	1524	c.1243A>G	c.(1243-1245)ACT>GCT	p.T415A	ZNF782_uc011lup.1_Missense_Mutation_p.T283A	NM_001001662	NP_001001662	Q6ZMW2	ZN782_HUMAN	zinc finger protein 782	415	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				CCCGTGTGAGTTCTCTGATGT	0.468													55	118					0	0	0.01441	0	0		C	99581062	C	C	99581062	3	2	19	1	0	0	0	0	1	0	0	0	18180	1725	60	3	860	3	ZNF782	9	99581062	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	296260	99581062	41632369	1514	15027											
KIAA1529	57653	broad.mit.edu	37	chr9	100119941	100119941	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattcgcaaacaaatggattAaatttctctctgcaacagct	15	12	5	9	1	2	0	0	0	2	0	4	1	2	1	0	1	4	3	0	1	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:100119941A>G	uc011lut.1	+	37	4619	c.3846A>G	c.(3844-3846)TTA>TTG	p.L1282L	KIAA1529_uc004axe.1_Silent_p.L1114L|KIAA1529_uc004axg.1_Silent_p.L1143L|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Silent_p.L299L	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				CAAATGGATTAAATTTCTCTC	0.368													83	178					0	0	0.01441	0	0		G	100119941	G	G	100119941	2	3	19	1	0	0	0	0	0	0	0	1	8256	359	13	3		3	KIAA1529	9	100119941	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	538879	100119941	41093490	1515	15028											
ANP32B	10541	broad.mit.edu	37	chr9	100767349	100767349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcctgccccagcttacctActtggatggctatgaccgag	7	10	10	14	1	0	1	0	1	0	0	1	3	1	2	5	2	4	3	5	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:100767349A>G	uc004aya.2	+	4	780	c.431A>G	c.(430-432)TAC>TGC	p.Y144C		NM_006401	NP_006392	Q92688	AN32B_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32	144	LRRCT.					cytoplasm|nucleus					0		Acute lymphoblastic leukemia(62;0.0559)				CAGCTTACCTACTTGGATGGC	0.517													29	82					0	0	0.008361	0	0		G	100767349	G	G	100767349	3	3	19	1	0	0	0	0	1	0	0	0	706	391	14	3	445	3	ANP32B	9	100767349	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	647408	100767349	40446082	1516	15029											
TBC1D2	55357	broad.mit.edu	37	chr9	100971115	100971115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggcagcagggtgctcgCgggcctggccccggctcagc	3	4	19	15	4	1	0	1	0	0	0	2	0	1	0	3	6	3	4	3	6	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:100971115C>T	uc011lvb.1	-	9	2165	c.1985G>A	c.(1984-1986)CGC>CAC	p.R662H	TBC1D2_uc004ayp.2_Missense_Mutation_p.R202H|TBC1D2_uc004ayq.2_Missense_Mutation_p.R662H|TBC1D2_uc004ayr.2_Missense_Mutation_p.R444H|TBC1D2_uc004ayo.3_Missense_Mutation_p.R662H	NM_018421	NP_060891	Q9BYX2	TBD2A_HUMAN	TBC1 domain family, member 2	662	Rab-GAP TBC.					cell junction|cytoplasmic membrane-bounded vesicle|nucleus	Rab GTPase activator activity			ovary(3)	3		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.55e-37)		AGGGTGCTCGCGGGCCTGGCC	0.652													34	61					0	0	0.004878	0	0		T	100971115	T	T	100971115	3	4	19	1	0	0	0	0	1	0	0	0	15633	768	27	1	788	1	TBC1D2	9	100971115	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	203766	100971115	40242316	1517	15030											
GABBR2	9568	broad.mit.edu	37	chr9	101243237	101243237	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagaacacttttgctgccaTattctggtcaaactggccaa	12	11	7	11	0	2	1	1	0	1	1	2	1	2	1	2	2	4	1	2	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:101243237T>C	uc004ays.2	-	5	931	c.775A>G	c.(775-777)ATG>GTG	p.M259V		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	259	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	TTTGCTGCCATATTCTGGTCA	0.453													45	76					0	0	0.01441	0	0		C	101243237	C	C	101243237	3	2	19	1	0	0	0	0	1	0	0	0	6170	1406	49	3	2110	3	GABBR2	9	101243237	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	272122	101243237	39970194	1518	15031											
TEX10	54881	broad.mit.edu	37	chr9	103111562	103111562	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttaaagtttgtaggagtAgcattttgtaacttgggctt	9	18	11	3	0	0	0	0	0	0	0	0	1	0	1	0	2	2	7	0	2	5	10			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:103111562A>G	uc004bas.2	-	2	299	c.84T>C	c.(82-84)GCT>GCC	p.A28A	TEX10_uc011lvf.1_5'Flank|TEX10_uc011lvg.1_Silent_p.A31A|TEX10_uc011lvh.1_Intron|TEX10_uc004bat.2_Silent_p.A28A	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	28						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		TTGTAGGAGTAGCATTTTGTA	0.318													21	36					0	0	0.010504	0	0		G	103111562	G	G	103111562	2	3	19	1	0	0	0	0	0	0	0	1	15797	407	15	3		3	TEX10	9	103111562	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1868325	103111562	38101869	1519	15032											
OR13C5	138799	broad.mit.edu	37	chr9	107361324	107361324	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagggttgcagatagccAcatagcggtcaaaggccatc	12	7	12	10	1	2	2	2	0	0	2	3	2	2	2	2	3	3	2	2	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:107361324A>G	uc011lvp.1	-	1	371	c.371T>C	c.(370-372)GTG>GCG	p.V124A		NM_001004482	NP_001004482	Q8NGS8	O13C5_HUMAN	olfactory receptor, family 13, subfamily C,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GCAGATAGCCACATAGCGGTC	0.522													15	197					0	0	0.004007	0	0		G	107361324	G	G	107361324	3	3	19	1	0	0	0	0	1	0	0	0	10956	159	6	3	587	3	OR13C5	9	107361324	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4249762	107361324	33852107	1520	15033											
OR13C2	392376	broad.mit.edu	37	chr9	107367363	107367363	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccagtttcatgacagcCagaatttcacaggtgaaatg	13	9	10	9	0	2	3	2	2	0	1	2	3	2	3	2	2	1	1	2	2	2	2	rs78524552		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:107367363C>T	uc011lvq.1	-	1	546	c.546G>A	c.(544-546)CTG>CTA	p.L182L		NM_001004481	NP_001004481	Q8NGS9	O13C2_HUMAN	olfactory receptor, family 13, subfamily C,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TCATGACAGCCAGAATTTCAC	0.403													53	152					0	0	0.01441	0	0		T	107367363	T	T	107367363	2	4	19	1	0	0	0	0	0	0	0	1	10953	581	21	4		4	OR13C2	9	107367363	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	6039	107367363	33846068	1521	15034											
TMEM38B	55151	broad.mit.edu	37	chr9	108467986	108467986	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcttgcagagcctccatTgaagtttcttgcaaaccaca	11	11	7	12	0	1	2	0	1	1	1	2	2	2	2	3	0	5	4	3	0	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:108467986T>C	uc004bcu.1	+	2	338	c.221T>C	c.(220-222)TTG>TCG	p.L74S	TMEM38B_uc010mtn.1_Missense_Mutation_p.L74S	NM_018112	NP_060582	Q9NVV0	TM38B_HUMAN	transmembrane protein 38B	74	Cytoplasmic (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			ovary(1)|skin(1)	2						GAGCCTCCATTGAAGTTTCTT	0.408													6	155					0	0	0.001168	0	0		C	108467986	C	C	108467986	3	2	19	1	0	0	0	0	1	0	0	0	16185	1821	63	3	227	3	TMEM38B	9	108467986	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1100623	108467986	32745445	1522	15035											
EPB41L4B	54566	broad.mit.edu	37	chr9	112027297	112027297	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcctgagttgtaaaacaaAcaggtacctgacaaacatat	17	9	7	8	0	0	2	0	2	0	0	0	2	0	2	2	1	5	3	2	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:112027297A>T	uc004bdz.1	-	5	836	c.541T>A	c.(541-543)TTT>ATT	p.F181I	EPB41L4B_uc004bea.2_Missense_Mutation_p.F181I	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	181	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						TGTAAAACAAACAGGTACCTG	0.413													8	43					0	0	0.010729	0	0		T	112027297	T	T	112027297	3	4	19	1	0	0	0	0	1	0	0	0	5164	43	2	5	2401	5	EPB41L4B	9	112027297	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3559311	112027297	29186134	1523	15036											
LPAR1	1902	broad.mit.edu	37	chr9	113703994	113703994	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtccagatgaccacaatgAccaccactacccgccggttg	11	7	8	15	2	0	3	0	2	0	1	1	3	1	3	6	1	1	1	6	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:113703994A>G	uc004bfa.2	-	4	755	c.500T>C	c.(499-501)GTC>GCC	p.V167A	LPAR1_uc011lwm.1_Missense_Mutation_p.V168A|LPAR1_uc004bfb.2_Missense_Mutation_p.V167A|LPAR1_uc004bfc.2_Missense_Mutation_p.V167A|LPAR1_uc011lwn.1_Missense_Mutation_p.V149A|LPAR1_uc011lwo.1_Missense_Mutation_p.V168A|LPAR1_uc010mub.2_Missense_Mutation_p.V167A	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	167	Helical; Name=4; (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						GACCACAATGACCACCACTAC	0.512													4	97					0	0	0.009096	0	0		G	113703994	G	G	113703994	3	3	19	1	0	0	0	0	1	0	0	0	8922	275	10	3	602	3	LPAR1	9	113703994	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1676697	113703994	27509437	1524	15037											
C9orf84	158401	broad.mit.edu	37	chr9	114538127	114538127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaactgacaggggtaaagActtcattgtagtccatgtgg	13	10	11	7	0	1	2	1	1	0	1	2	2	2	2	1	3	2	2	1	3	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:114538127A>G	uc004bfr.2	-	3	329	c.194T>C	c.(193-195)GTC>GCC	p.V65A	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfs.1_Missense_Mutation_p.V129A	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	65										ovary(2)	2						AGGGGTAAAGACTTCATTGTA	0.343													26	80					0	0	0.009535	0	0		G	114538127	G	G	114538127	3	3	19	1	0	0	0	0	1	0	0	0	2503	275	10	3	4373	3	C9orf84	9	114538127	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	834133	114538127	26675304	1525	15038											
ROD1	9991	broad.mit.edu	37	chr9	114986168	114986168	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggaaactctgaggtggTgattttctccaaggtcatgg	11	11	13	6	0	3	3	1	2	2	1	4	4	3	4	1	5	1	0	1	5	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:114986168T>C	uc004bfw.2	-	15	1809	c.1622A>G	c.(1621-1623)CAC>CGC	p.H541R	ROD1_uc004bfv.2_Missense_Mutation_p.H547R|ROD1_uc004bfx.2_Missense_Mutation_p.H544R|ROD1_uc011lwu.1_Missense_Mutation_p.H513R|ROD1_uc004bfy.2_Missense_Mutation_p.H446R|ROD1_uc004bfz.2_Intron	NM_005156	NP_005147	O95758	ROD1_HUMAN	ROD1 regulator of differentiation 1 isoform 1	541	RRM 4.				anatomical structure morphogenesis|mRNA processing	nucleus	nucleotide binding|RNA binding			skin(1)	1						TCTGAGGTGGTGATTTTCTCC	0.398													25	188					0	0	0.005443	0	0		C	114986168	C	C	114986168	3	2	19	1	0	0	0	0	1	0	0	0	13544	1696	59	3	40	3	ROD1	9	114986168	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	448041	114986168	26227263	1526	15039											
ALAD	210	broad.mit.edu	37	chr9	116153209	116153209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagctgcggaaccccgcTcgtcctaggggcaggggagg	7	5	17	12	3	1	0	1	0	0	0	3	2	2	2	3	6	3	3	3	6	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:116153209T>C	uc011lxf.1	-	5	468	c.266A>G	c.(265-267)GAG>GGG	p.E89G	ALAD_uc011lxe.1_Missense_Mutation_p.E72G|ALAD_uc004bhl.3_Missense_Mutation_p.E118G	NM_000031	NP_000022	P13716	HEM2_HUMAN	delta-aminolevulinic acid dehydratase	89					heme biosynthetic process|protein homooligomerization	cytosol	identical protein binding|lead ion binding|porphobilinogen synthase activity|zinc ion binding				0					Aminolevulinic acid(DB00855)	GGAACCCCGCTCGTCCTAGGG	0.572													6	63					0	0	0.001984	0	0		C	116153209	C	C	116153209	3	2	19	1	0	0	0	0	1	0	0	0	483	1551	54	3	758	3	ALAD	9	116153209	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1167041	116153209	25060222	1527	15040											
RGS3	5998	broad.mit.edu	37	chr9	116276764	116276764	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcccagtaaagggaagTcctacacaggcctggggaag	12	5	15	9	0	0	0	0	0	0	0	2	3	2	3	3	5	1	1	3	5	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:116276764T>C	uc004bhq.2	+	16	1713	c.1504T>C	c.(1504-1506)TCC>CCC	p.S502P	RGS3_uc004bhr.2_Missense_Mutation_p.S390P|RGS3_uc004bhs.2_Missense_Mutation_p.S392P|RGS3_uc004bht.2_Missense_Mutation_p.S221P|RGS3_uc010muy.2_Missense_Mutation_p.S221P|RGS3_uc004bhu.2_Missense_Mutation_p.S128P	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	502					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						TAAAGGGAAGTCCTACACAGG	0.552													6	88					0	0	0.001168	0	0		C	116276764	C	C	116276764	3	2	19	1	0	0	0	0	1	0	0	0	13331	1667	58	3	1703	3	RGS3	9	116276764	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	123555	116276764	24936667	1528	15041											
AMBP	259	broad.mit.edu	37	chr9	116823776	116823776	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgcccatgcagccgccgtActggaaagtctcacaggcca	9	7	11	14	2	1	0	1	0	1	0	2	1	1	1	4	2	4	3	4	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:116823776A>G	uc004bie.3	-	8	1044	c.781T>C	c.(781-783)TAC>CAC	p.Y261H	AMBP_uc011lxk.1_Missense_Mutation_p.Y202H|AMBP_uc010mvc.1_RNA	NM_001633	NP_001624	P02760	AMBP_HUMAN	alpha-1-microglobulin/bikunin preproprotein	261	BPTI/Kunitz inhibitor 1.				cell adhesion|female pregnancy|heme catabolic process|interspecies interaction between organisms|negative regulation of immune response|negative regulation of JNK cascade|protein-chromophore linkage	extracellular region|plasma membrane	calcium channel inhibitor activity|calcium oxalate binding|heme binding|IgA binding|protein homodimerization activity|serine-type endopeptidase inhibitor activity|transporter activity			skin(1)	1					Human Serum Albumin(DB00062)|Serum albumin iodonated(DB00064)	CAGCCGCCGTACTGGAAAGTC	0.577													49	63					0	0	0.01441	0	0		G	116823776	G	G	116823776	3	3	19	1	0	0	0	0	1	0	0	0	564	391	14	3	289	3	AMBP	9	116823776	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	547012	116823776	24389655	1529	15042											
KIF12	113220	broad.mit.edu	37	chr9	116857556	116857556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttggtgagcttgctgtcccGgaaagggatgtggctctgct	5	12	15	9	1	1	1	0	1	1	0	2	3	2	3	1	4	3	4	1	4	1	2	rs147234281	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:116857556G>A	uc004bif.2	-	7	776	c.538C>T	c.(538-540)CGG>TGG	p.R180W	KIF12_uc004big.2_RNA	NM_138424	NP_612433	Q96FN5	KIF12_HUMAN	kinesin family member 12	313					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						TTGCTGTCCCGGAAAGGGATG	0.517													26	57					0	0	0.005443	0	0		A	116857556	A	A	116857556	3	1	19	1	0	0	0	0	1	0	0	0	8289	1115	39	1	1043	1	KIF12	9	116857556	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	33780	116857556	24355875	1530	15043											
C9orf91	203197	broad.mit.edu	37	chr9	117405489	117405489	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgacctcccagctccctcagGcaatggggacacgacacacg	10	5	10	16	2	1	1	1	1	0	0	3	3	3	2	3	3	1	2	3	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:117405489G>A	uc004bjd.3	+	9	1142	c.925G>A	c.(925-927)GCA>ACA	p.A309T	C9orf91_uc004bje.3_Missense_Mutation_p.A288T|C9orf91_uc004bjf.3_Missense_Mutation_p.A208T	NM_153045	NP_694590	Q5VZI3	CI091_HUMAN	hypothetical protein LOC203197	309						integral to membrane				pancreas(1)	1						GCTCCCTCAGGCAATGGGGAC	0.592													41	88					0	0	0.010771	0	0		A	117405489	A	A	117405489	3	1	19	1	0	0	0	0	1	0	0	0	2508	1203	42	2	955	2	C9orf91	9	117405489	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	547933	117405489	23807942	1531	15044											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123220874	123220874	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaagtatccatttttgcaGcctcctttggaaaggtcttt	8	17	7	9	0	1	0	0	0	1	0	3	1	3	1	3	2	2	2	3	2	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:123220874G>A	uc004bkf.2	-	20	2410	c.2229C>T	c.(2227-2229)GGC>GGT	p.G743G	CDK5RAP2_uc004bke.2_Silent_p.G28G|CDK5RAP2_uc004bkg.2_Silent_p.G743G|CDK5RAP2_uc011lxw.1_Silent_p.G8G|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Silent_p.G8G|CDK5RAP2_uc011lya.1_Silent_p.G8G|CDK5RAP2_uc004bkh.1_Intron|CDK5RAP2_uc004bki.2_Silent_p.G510G	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	743					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						CATTTTTGCAGCCTCCTTTGG	0.448													5	134					0	0	0.001168	0	0		A	123220874	A	A	123220874	2	1	19	1	0	0	0	0	0	0	0	1	3149	958	34	2		2	CDK5RAP2	9	123220874	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	5815385	123220874	17992557	1532	15045											
GSN	2934	broad.mit.edu	37	chr9	124064424	124064424	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggaacggaaatctgcagTatgacctccactactggctg	11	9	11	10	1	1	2	0	2	1	0	2	4	2	4	2	3	3	3	2	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:124064424T>C	uc004blf.1	+	2	389	c.328T>C	c.(328-330)TAT>CAT	p.Y110H	GSN_uc004bld.1_Missense_Mutation_p.Y59H|GSN_uc010mvq.1_Missense_Mutation_p.Y70H|GSN_uc010mvr.1_Missense_Mutation_p.Y70H|GSN_uc010mvu.1_Missense_Mutation_p.Y59H|GSN_uc010mvt.1_Missense_Mutation_p.Y59H|GSN_uc010mvs.1_Missense_Mutation_p.Y59H|GSN_uc004ble.1_Missense_Mutation_p.Y59H|GSN_uc010mvv.1_Missense_Mutation_p.Y59H|GSN_uc011lyh.1_Missense_Mutation_p.Y76H|GSN_uc011lyi.1_Missense_Mutation_p.Y59H|GSN_uc011lyj.1_Missense_Mutation_p.Y83H	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	110	Actin-severing (Potential).|Gelsolin-like 1.				actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						AAATCTGCAGTATGACCTCCA	0.612													9	101					0	0	0.004482	0	0		C	124064424	C	C	124064424	3	2	19	1	0	0	0	0	1	0	0	0	6841	1638	57	3	362	3	GSN	9	124064424	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	843550	124064424	17149007	1533	15046											
PTGS1	5742	broad.mit.edu	37	chr9	125141137	125141137	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctttctccaacgtgagcTattacactcgtattctgccc	8	14	6	13	2	3	1	0	1	3	0	5	1	3	1	2	0	4	2	2	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:125141137T>C	uc004bmg.1	+	5	571	c.436T>C	c.(436-438)TAT>CAT	p.Y146H	PTGS1_uc011lys.1_Missense_Mutation_p.Y121H|PTGS1_uc010mwb.1_Missense_Mutation_p.Y37H|PTGS1_uc004bmf.1_Missense_Mutation_p.Y146H|PTGS1_uc004bmh.1_Missense_Mutation_p.Y37H|PTGS1_uc011lyt.1_Missense_Mutation_p.Y37H	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	146					cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	CAACGTGAGCTATTACACTCG	0.527													10	73					0	0	0.008291	0	0		C	125141137	C	C	125141137	3	2	19	1	0	0	0	0	1	0	0	0	12778	1522	53	3	454	3	PTGS1	9	125141137	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1076713	125141137	16072294	1534	15047											
OR1L6	392390	broad.mit.edu	37	chr9	125512494	125512494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctctatggccatcgaccGgctggtggccatctgcaacc	6	8	12	15	2	2	0	0	0	2	0	3	1	2	0	5	5	2	2	5	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:125512494G>A	uc011lzc.1	+	1	476	c.476G>A	c.(475-477)CGG>CAG	p.R159Q		NM_001004453	NP_001004453	Q8NGR2	OR1L6_HUMAN	olfactory receptor, family 1, subfamily L,	159	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GCCATCGACCGGCTGGTGGCC	0.517													45	76					0	0	0.01441	0	0		A	125512494	A	A	125512494	3	1	19	1	0	0	0	0	1	0	0	0	10985	1116	39	1	370	1	OR1L6	9	125512494	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	371357	125512494	15700937	1535	15048											
PDCL	5082	broad.mit.edu	37	chr9	125582652	125582652	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgacagctgggtactctgcGgcaaggcagatcatgcaacc	10	8	12	11	1	2	2	1	1	1	1	2	2	2	2	1	3	5	5	1	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:125582652G>A	uc004bmz.1	-	4	714	c.618C>T	c.(616-618)GCC>GCT	p.A206A	PDCL_uc004bna.2_3'UTR	NM_005388	NP_005379	Q13371	PHLP_HUMAN	phosducin-like	206					signal transduction|visual perception						0						GGTACTCTGCGGCAAGGCAGA	0.478													7	61					0	0	0.001984	0	0		A	125582652	A	A	125582652	2	1	19	1	0	0	0	0	0	0	0	1	11645	1103	39	1		1	PDCL	9	125582652	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	70158	125582652	15630779	1536	15049											
RC3H2	54542	broad.mit.edu	37	chr9	125621378	125621378	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgttggaggtggtggatagTatccttgaaaattggaaaga	12	11	14	4	1	0	2	0	1	0	1	1	5	1	5	2	5	0	2	2	5	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:125621378T>C	uc010mwc.1	-	12	2094	c.1853A>G	c.(1852-1854)TAC>TGC	p.Y618C	RC3H2_uc004bnc.2_RNA|RC3H2_uc004bnd.1_Missense_Mutation_p.Y618C|RC3H2_uc004bne.3_Missense_Mutation_p.Y618C	NM_001100588	NP_001094058	Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type zinc finger domains 2	618	Pro-rich.					cell surface|endomembrane system|membrane|membrane fraction|perinuclear region of cytoplasm	DNA binding|zinc ion binding			ovary(2)|lung(2)	4						TGGTGGATAGTATCCTTGAAA	0.433													3	22					0	0	0.004672	0	0		C	125621378	C	C	125621378	3	2	19	1	0	0	0	0	1	0	0	0	13192	1638	57	3	1840	3	RC3H2	9	125621378	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	38726	125621378	15592053	1537	15050											
ZBTB6	10773	broad.mit.edu	37	chr9	125673698	125673698	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggattctacatgaaggatAcaaatttcattgtctttaaa	15	15	6	5	0	3	1	1	1	2	0	3	3	3	3	0	2	2	0	0	2	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:125673698A>G	uc004bnh.2	-	2	743	c.654T>C	c.(652-654)TGT>TGC	p.C218C		NM_006626	NP_006617	Q15916	ZBTB6_HUMAN	zinc finger and BTB domain containing 6	218					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CATGAAGGATACAAATTTCAT	0.403													23	65					0	0	0.00278	0	0		G	125673698	G	G	125673698	2	3	19	1	0	0	0	0	0	0	0	1	17577	389	14	3		3	ZBTB6	9	125673698	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	52320	125673698	15539733	1538	15051											
DENND1A	57706	broad.mit.edu	37	chr9	126213008	126213008	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcacctcttttattccCatttttgcatgatcttttgc	5	23	3	10	0	3	1	1	1	2	0	4	1	4	1	2	0	2	1	2	0	1	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:126213008C>A	uc004bnz.1	-	18	1553	c.1320G>T	c.(1318-1320)ATG>ATT	p.M440I	DENND1A_uc011lzl.1_Missense_Mutation_p.M215I|DENND1A_uc004bny.1_Missense_Mutation_p.M179I|DENND1A_uc011lzm.1_Missense_Mutation_p.M408I|DENND1A_uc004boa.1_Missense_Mutation_p.M440I|DENND1A_uc004bob.1_Missense_Mutation_p.M410I|DENND1A_uc004boc.2_Missense_Mutation_p.M408I	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	440						cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						CTTTTATTCCCATTTTTGCAT	0.353													5	50					1.23904e-05	1.27368e-05	0.000602	1	0		A	126213008	A	A	126213008	3	1	19	1	0	0	0	0	1	0	0	0	4432	594	21	5	1836	5	DENND1A	9	126213008	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	539310	126213008	15000423	1539	15052											
LHX2	9355	broad.mit.edu	37	chr9	126777427	126777427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgtgcagcgctgcgcccGctgccacctgggcatctcgg	3	8	13	17	4	2	0	0	0	2	0	3	0	2	0	3	2	4	4	3	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:126777427G>A	uc004boe.1	+	3	1089	c.350G>A	c.(349-351)CGC>CAC	p.R117H	LHX2_uc010mwi.1_Missense_Mutation_p.R125H	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	117	LIM zinc-binding 2.					nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CGCTGCGCCCGCTGCCACCTG	0.627													9	167					0	0	0.006214	0	0		A	126777427	A	A	126777427	3	1	19	1	0	0	0	0	1	0	0	0	8787	1087	38	1	360	1	LHX2	9	126777427	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	564419	126777427	14436004	1540	15053											
WDR38	401551	broad.mit.edu	37	chr9	127618544	127618544	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagatgctgcgcctcttagTtgggcaccgtgactccatcc	6	10	10	15	2	1	2	0	1	1	1	3	2	3	2	5	1	2	3	5	1	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:127618544T>C	uc004box.2	+	5	487	c.431T>C	c.(430-432)GTT>GCT	p.V144A	WDR38_uc011lzn.1_Missense_Mutation_p.V133A|WDR38_uc011lzo.1_Missense_Mutation_p.V144A|WDR38_uc011lzp.1_Missense_Mutation_p.V95A	NM_001045476	NP_001038941	Q5JTN6	WDR38_HUMAN	WD repeat domain 38	144											0						CGCCTCTTAGTTGGGCACCGT	0.642											OREG0019485	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	56					0	0	0.009096	0	0		C	127618544	C	C	127618544	3	2	19	1	0	0	0	0	1	0	0	0	17318	1725	60	3	449	3	WDR38	9	127618544	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	841117	127618544	13594887	1541	15054											
PPP6C	5537	broad.mit.edu	37	chr9	127920587	127920587	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaaaagtgtaatacgatcAggccatttagcctttaatgc	13	11	8	9	2	1	0	1	0	0	0	1	1	1	0	2	1	3	2	2	1	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:127920587A>G	uc004bpg.3	-	4	533	c.312T>C	c.(310-312)CCT>CCC	p.P104P	PPP6C_uc010mwv.2_Silent_p.P141P|PPP6C_uc010mww.2_Silent_p.P82P|PPP6C_uc011lzr.1_Intron	NM_002721	NP_002712	O00743	PPP6_HUMAN	protein phosphatase 6, catalytic subunit isoform	104					G1/S transition of mitotic cell cycle|protein dephosphorylation	cytosol	metal ion binding|protein binding|protein serine/threonine phosphatase activity			ovary(1)|skin(1)	2						TAATACGATCAGGCCATTTAG	0.358													17	150					0	0	0.00499	0	0		G	127920587	G	G	127920587	2	3	19	1	0	0	0	0	0	0	0	1	12429	175	7	3		3	PPP6C	9	127920587	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	302043	127920587	13292844	1542	15055											
FAM125B	89853	broad.mit.edu	37	chr9	129184204	129184204	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggactacgagtaccagcActccaatttgtatgccatat	12	10	8	11	2	0	0	0	0	0	0	1	3	1	1	3	1	4	3	3	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:129184204A>G	uc004bqh.1	+	7	815	c.734A>G	c.(733-735)CAC>CGC	p.H245R	FAM125B_uc011lzy.1_Missense_Mutation_p.H230R|FAM125B_uc010mxd.2_Missense_Mutation_p.H238R	NM_033446	NP_258257	Q9H7P6	F125B_HUMAN	hypothetical protein LOC89853 isoform 1	245					protein transport	late endosome membrane					0						GAGTACCAGCACTCCAATTTG	0.572													4	131					0	0	0.009096	0	0		G	129184204	G	G	129184204	3	3	19	1	0	0	0	0	1	0	0	0	5439	159	6	3	764	3	FAM125B	9	129184204	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1263617	129184204	12029227	1543	15056											
GARNL3	84253	broad.mit.edu	37	chr9	130075748	130075748	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactacattggaaacgatgcCgagaagagccctttcttctt	12	11	8	10	2	2	2	0	0	2	2	2	5	2	3	2	1	5	0	2	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:130075748C>T	uc011mae.1	+	4	749	c.348C>T	c.(346-348)GCC>GCT	p.A116A	GARNL3_uc011mad.1_Silent_p.A94A	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	116					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GAAACGATGCCGAGAAGAGCC	0.443													37	98					0	0	0.003755	0	0		T	130075748	T	T	130075748	2	4	19	1	0	0	0	0	0	0	0	1	6256	639	23	1		1	GARNL3	9	130075748	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	891544	130075748	11137683	1544	15057											
GARNL3	84253	broad.mit.edu	37	chr9	130117639	130117639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggattgtggttgcaattcGgaataaactgcttctgatca	11	13	11	6	1	2	1	1	1	1	0	3	4	2	3	0	3	3	3	0	3	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:130117639G>A	uc011mae.1	+	20	2224	c.1823G>A	c.(1822-1824)CGG>CAG	p.R608Q	GARNL3_uc011mad.1_Missense_Mutation_p.R586Q|GARNL3_uc010mxi.2_5'UTR	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	608	CNH.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GTTGCAATTCGGAATAAACTG	0.468													142	315					0	0	0.01441	0	0		A	130117639	A	A	130117639	3	1	19	1	0	0	0	0	1	0	0	0	6256	1116	39	1	1901	1	GARNL3	9	130117639	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	41891	130117639	11095792	1545	15058											
ZNF79	7633	broad.mit.edu	37	chr9	130206787	130206787	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctcaccaaacaccagcgaAcccacaccggagagaagccc	15	1	7	18	2	1	1	1	0	0	1	1	4	1	2	6	1	4	0	6	1	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:130206787A>G	uc004bqw.3	+	5	1222	c.808A>G	c.(808-810)ACC>GCC	p.T270A	ZNF79_uc011maf.1_Missense_Mutation_p.T246A|ZNF79_uc011mag.1_Missense_Mutation_p.T246A	NM_007135	NP_009066	Q15937	ZNF79_HUMAN	zinc finger protein 79	270	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						ACACCAGCGAACCCACACCGG	0.517													7	120					0	0	0.00308	0	0		G	130206787	G	G	130206787	3	3	19	1	0	0	0	0	1	0	0	0	18186	43	2	3	826	3	ZNF79	9	130206787	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	89148	130206787	11006644	1546	15059											
LRSAM1	90678	broad.mit.edu	37	chr9	130251732	130251732	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgttgcagagcgcgatgCagaaggctgcgttcgaggca	8	8	16	9	4	0	2	0	0	0	2	1	4	0	2	0	2	4	6	0	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:130251732C>T	uc004brb.1	+	19	1702	c.1357C>T	c.(1357-1359)CAG>TAG	p.Q453*	LRSAM1_uc010mxk.1_Nonsense_Mutation_p.Q453*|LRSAM1_uc004brc.1_Nonsense_Mutation_p.Q453*|LRSAM1_uc004brd.1_Nonsense_Mutation_p.Q453*|LRSAM1_uc004bre.1_Nonsense_Mutation_p.Q33*	NM_001005373	NP_001005373	Q6UWE0	LRSM1_HUMAN	leucine rich repeat and sterile alpha motif	453					negative regulation of endocytosis|non-lytic virus budding|protein autoubiquitination|protein catabolic process|protein polyubiquitination|protein transport|ubiquitin-dependent endocytosis	cytoplasm|extracellular region|membrane part	hormone activity|ubiquitin-protein ligase activity|zinc ion binding				0						GAGCGCGATGCAGAAGGCTGC	0.602													7	17					0	0	0.00308	0	0		T	130251732	T	T	130251732	4	4	19	1	0	0	0	0	0	1	0	0	9061	711	25	2	1423	2	LRSAM1	9	130251732	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	44945	130251732	10961699	1547	15060											
FAM129B	64855	broad.mit.edu	37	chr9	130272565	130272565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggatggatgggatgtaggGctggacatggttccgcacgc	8	8	17	8	2	0	0	0	0	0	0	1	4	1	4	1	6	0	4	1	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:130272565G>A	uc004brh.2	-	9	1223	c.1021C>T	c.(1021-1023)CCC>TCC	p.P341S	FAM129B_uc004bri.2_Missense_Mutation_p.P328S|FAM129B_uc004brj.3_Missense_Mutation_p.P341S	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	341							protein binding				0						GGGATGTAGGGCTGGACATGG	0.632													58	151					0	0	0.01441	0	0		A	130272565	A	A	130272565	3	1	19	1	0	0	0	0	1	0	0	0	5448	1203	42	2	1243	2	FAM129B	9	130272565	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	20833	130272565	10940866	1548	15061											
FAM102A	399665	broad.mit.edu	37	chr9	130707135	130707135	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcatcgatccgcgtgtcGtccacccaggtcgggtggct	4	9	13	15	6	0	0	0	0	0	0	6	1	3	0	4	3	0	2	4	3	0	0	rs139831125		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:130707135G>A	uc004bsx.1	-	9	1039	c.960C>T	c.(958-960)GAC>GAT	p.D320D	FAM102A_uc004bsw.1_Silent_p.D178D|FAM102A_uc004bsy.1_Silent_p.D48D	NM_001035254	NP_001030331	Q5T9C2	F102A_HUMAN	early estrogen-induced gene 1 protein isoform a	320										ovary(1)	1						TCCGCGTGTCGTCCACCCAGG	0.617													21	30					0	0	0.012319	0	0		A	130707135	A	A	130707135	2	1	19	1	0	0	0	0	0	0	0	1	5393	1136	40	1		1	FAM102A	9	130707135	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	434570	130707135	10506296	1549	15062											
FAM102A	399665	broad.mit.edu	37	chr9	130710444	130710444	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcccaccacccttacaCgtcagctgcagggaggaatc	9	7	10	15	1	1	0	1	0	0	0	3	2	2	2	3	3	3	2	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:130710444C>T	uc004bsx.1	-	6	601	c.522G>A	c.(520-522)ACG>ACA	p.T174T	FAM102A_uc004bsw.1_Silent_p.T32T|FAM102A_uc004bsy.1_Translation_Start_Site	NM_001035254	NP_001030331	Q5T9C2	F102A_HUMAN	early estrogen-induced gene 1 protein isoform a	174	Ser-rich.									ovary(1)	1						CACCCTTACACGTCAGCTGCA	0.627													38	70					0	0	0.006999	0	0		T	130710444	T	T	130710444	2	4	19	1	0	0	0	0	0	0	0	1	5393	523	19	1		1	FAM102A	9	130710444	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3309	130710444	10502987	1550	15063											
DNM1	1759	broad.mit.edu	37	chr9	130980867	130980867	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgcttctggagcagaatatgCcgagttcctgcactgcaagg	9	9	12	11	2	1	1	0	0	1	1	2	3	2	2	2	2	4	5	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:130980867C>G	uc011mau.1	+	3	329	c.242C>G	c.(241-243)GCC>GGC	p.A81G	DNM1_uc010mxr.2_Missense_Mutation_p.A81G|DNM1_uc011mat.1_Missense_Mutation_p.A81G	NM_004408	NP_004399	Q05193	DYN1_HUMAN	dynamin 1 isoform 1	81					receptor-mediated endocytosis	microtubule	GTP binding|GTPase activity			ovary(2)	2						GCAGAATATGCCGAGTTCCTG	0.587													4	56					0	0	0.001168	0	0		G	130980867	G	G	130980867	3	3	19	1	0	0	0	0	1	0	0	0	4676	739	26	5	252	5	DNM1	9	130980867	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	270423	130980867	10232564	1551	15064											
SPTAN1	6709	broad.mit.edu	37	chr9	131349934	131349934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcagatctcagtgcctacgGcagcagcatccaggctttgc	8	9	11	13	1	2	1	2	0	1	1	4	1	3	1	2	2	5	4	2	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:131349934G>A	uc004bvl.3	+	20	2941	c.2828G>A	c.(2827-2829)GGC>GAC	p.G943D	SPTAN1_uc011mbg.1_Missense_Mutation_p.G943D|SPTAN1_uc011mbh.1_Missense_Mutation_p.G955D|SPTAN1_uc004bvm.3_Missense_Mutation_p.G943D|SPTAN1_uc004bvn.3_Missense_Mutation_p.G943D	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	943	Spectrin 10.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						AGTGCCTACGGCAGCAGCATC	0.512													30	34					0	0	0.003271	0	0		A	131349934	A	A	131349934	3	1	19	1	0	0	0	0	1	0	0	0	15142	1203	42	2	2902	2	SPTAN1	9	131349934	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	369067	131349934	9863497	1552	15065											
NUP188	23511	broad.mit.edu	37	chr9	131745643	131745643	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgcttaactgttttggctgCccgcaatccagcaaaggtga	9	11	10	11	1	0	1	0	1	0	0	1	1	1	1	2	2	4	5	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:131745643C>A	uc004bws.1	+	18	1890	c.1868C>A	c.(1867-1869)GCC>GAC	p.A623D	NUP188_uc004bwu.2_5'Flank	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	623					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						GTTTTGGCTGCCCGCAATCCA	0.393													10	149					2.17888e-05	2.23727e-05	0.006214	1	0		A	131745643	A	A	131745643	3	1	19	1	0	0	0	0	1	0	0	0	10777	739	26	5	1938	5	NUP188	9	131745643	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	395709	131745643	9467788	1553	15066											
IER5L	389792	broad.mit.edu	37	chr9	131940298	131940298	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttgcgcagggagatgcTgatcaggctctgggcgtcca	7	9	15	10	2	3	2	1	1	2	1	4	4	4	2	1	3	2	3	1	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:131940298T>C	uc010myt.1	-	1	243	c.34A>G	c.(34-36)AGC>GGC	p.S12G		NM_203434	NP_982258	Q5T953	IER5L_HUMAN	immediate early response 5-like	12											0		Ovarian(14;0.0448)|Medulloblastoma(224;0.235)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)		AGGGAGATGCTGATCAGGCTC	0.667													4	8					0	0	0.000602	0	0		C	131940298	C	C	131940298	3	2	19	1	0	0	0	0	1	0	0	0	7525	1580	55	3	1184	3	IER5L	9	131940298	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	194655	131940298	9273133	1554	15067											
ASS1	445	broad.mit.edu	37	chr9	133352330	133352330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaacacccctgacattctcGagatcgagttcaaaaaaggt	14	8	7	12	2	2	2	1	1	1	1	4	4	2	2	3	1	1	1	3	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:133352330G>A	uc004bzm.2	+	10	1026	c.670G>A	c.(670-672)GAG>AAG	p.E224K	ASS1_uc004bzn.2_Missense_Mutation_p.E224K|ASS1_uc010mza.2_Missense_Mutation_p.E300K|ASS1_uc004bzo.2_Missense_Mutation_p.E205K|ASS1_uc010mzb.2_Missense_Mutation_p.E262K|ASS1_uc004bzp.2_Missense_Mutation_p.E224K|ASS1_uc010mzc.2_Missense_Mutation_p.E224K	NM_000050	NP_000041	P00966	ASSY_HUMAN	argininosuccinate synthetase 1	224					arginine biosynthetic process|urea cycle	cytosol	argininosuccinate synthase activity|ATP binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000514)	Adenosine triphosphate(DB00171)|L-Arginine(DB00125)|L-Aspartic Acid(DB00128)|L-Citrulline(DB00155)	TGACATTCTCGAGATCGAGTT	0.567													64	150					0	0	0.01441	0	0		A	133352330	A	A	133352330	3	1	19	1	0	0	0	0	1	0	0	0	1062	1059	37	1	700	1	ASS1	9	133352330	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1412032	133352330	7861101	1555	15068											
LAMC3	10319	broad.mit.edu	37	chr9	133952676	133952676	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtgcagcaagttggcgcAgatacagccccgtacctggc	9	6	12	14	3	0	1	0	0	0	1	0	1	0	1	4	2	5	5	4	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:133952676A>G	uc004caa.1	+	22	3830	c.3732A>G	c.(3730-3732)GCA>GCG	p.A1244A	LAMC3_uc010mze.1_5'Flank	NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	1244	Domain II and I.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		AAGTTGGCGCAGATACAGCCC	0.617													24	60					0	0	0.009535	0	0		G	133952676	G	G	133952676	2	3	19	1	0	0	0	0	0	0	0	1	8632	175	7	3		3	LAMC3	9	133952676	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	600346	133952676	7260755	1556	15069											
NUP214	8021	broad.mit.edu	37	chr9	134020113	134020113	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccttcccaccctcaaccTctgctgtcaaagtcaacctt	8	11	3	19	0	4	0	3	0	1	0	6	0	6	0	6	0	3	1	6	0	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:134020113T>C	uc004cag.2	+	12	1852	c.1741T>C	c.(1741-1743)TCT>CCT	p.S581P	NUP214_uc004cah.2_Missense_Mutation_p.S581P|NUP214_uc004cai.2_Missense_Mutation_p.S10P|NUP214_uc004caf.1_Missense_Mutation_p.S581P|NUP214_uc010mzf.2_5'UTR	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	581	11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		ACCCTCAACCTCTGCTGTCAA	0.413			T	DEK|SET|ABL1	AML|T-ALL								28	52					0	0	0.008361	0	0		C	134020113	C	C	134020113	3	2	19	1	0	0	0	0	1	0	0	0	10781	1551	54	3	1787	3	NUP214	9	134020113	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	67437	134020113	7193318	1557	15070											
NUP214	8021	broad.mit.edu	37	chr9	134073761	134073761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacgtccattgttgctcccgGcccatctgcagaggcagcag	7	8	11	15	2	1	1	0	0	1	1	3	1	3	1	3	2	3	5	3	2	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:134073761G>A	uc004cag.2	+	29	4991	c.4880G>A	c.(4879-4881)GGC>GAC	p.G1627D	NUP214_uc004cah.2_Missense_Mutation_p.G1617D|NUP214_uc004cai.2_Missense_Mutation_p.G1057D|NUP214_uc010mzg.2_RNA|NUP214_uc011mcg.1_Missense_Mutation_p.G453D|NUP214_uc011mcf.1_Missense_Mutation_p.G404D|NUP214_uc010mzh.1_Missense_Mutation_p.G141D|NUP214_uc010mzi.1_Missense_Mutation_p.G141D	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	1627	Pro/Ser/Thr-rich.|11 X 3 AA approximate repeats.|11 X 5 AA approximate repeats.|18 X 4 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		GTTGCTCCCGGCCCATCTGCA	0.572			T	DEK|SET|ABL1	AML|T-ALL								14	178					0	0	0.00499	0	0		A	134073761	A	A	134073761	3	1	19	1	0	0	0	0	1	0	0	0	10781	1203	42	2	4994	2	NUP214	9	134073761	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	53648	134073761	7139670	1558	15071											
SETX	23064	broad.mit.edu	37	chr9	135140330	135140330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcttaataatggcaccacGcttctgagcatcctgaatca	11	11	8	11	1	3	2	1	2	2	0	4	2	4	2	2	2	1	3	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:135140330G>A	uc004cbk.2	-	26	7513	c.7330C>T	c.(7330-7332)CGT>TGT	p.R2444C	SETX_uc004cbj.2_Missense_Mutation_p.R2092C|SETX_uc010mzt.2_Missense_Mutation_p.R2030C	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	2444					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		ATGGCACCACGCTTCTGAGCA	0.448													56	121					0	0	0.01441	0	0		A	135140330	A	A	135140330	3	1	19	1	0	0	0	0	1	0	0	0	14166	1087	38	1	707	1	SETX	9	135140330	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1066569	135140330	6073101	1559	15072											
CEL	1056	broad.mit.edu	37	chr9	135942495	135942495	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtggctgagaaggtgggttgCcctgtgggtgatgccgccag	5	9	19	8	1	0	2	0	2	0	1	0	3	0	2	3	4	2	2	3	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:135942495C>T	uc010naa.1	+	7	823	c.807C>T	c.(805-807)TGC>TGT	p.C269C		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	266					cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		AGGTGGGTTGCCCTGTGGGTG	0.632													6	41					0	0	0.001168	0	0		T	135942495	T	T	135942495	2	4	19	1	0	0	0	0	0	0	0	1	3212	747	26	2		2	CEL	9	135942495	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	802165	135942495	5270936	1560	15073											
RPL7A	6130	broad.mit.edu	37	chr9	136217103	136217103	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgttctaggagttaacAccgtcaccaccttggtggag	8	12	12	9	1	2	0	1	0	1	0	2	2	2	2	3	3	1	2	3	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:136217103A>G	uc004cde.1	+	5	454	c.424A>G	c.(424-426)ACC>GCC	p.T142A	MED22_uc004cdc.2_5'Flank|MED22_uc004cdd.2_5'Flank|RPL7A_uc004cdf.1_5'UTR|SNORD36A_uc010naj.2_5'Flank|SNORD36C_uc010nak.2_5'Flank	NM_000972	NP_000963	P62424	RL7A_HUMAN	ribosomal protein L7a	142					endocrine pancreas development|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|membrane fraction|polysomal ribosome	RNA binding|structural constituent of ribosome				0				OV - Ovarian serous cystadenocarcinoma(145;4.93e-07)|Epithelial(140;4.09e-06)|all cancers(34;3.78e-05)		AGGAGTTAACACCGTCACCAC	0.522													9	34					0	0	0.004482	0	0		G	136217103	G	G	136217103	3	3	19	1	0	0	0	0	1	0	0	0	13625	159	6	3	442	3	RPL7A	9	136217103	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	274608	136217103	4996328	1561	15074											
C9orf96	169436	broad.mit.edu	37	chr9	136256568	136256568	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatggaatattcgtgcggaGgaaggtggcaggggctcccc	10	7	16	8	2	0	0	0	0	0	0	2	3	1	3	2	7	1	2	2	7	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:136256568G>T	uc004cdk.2	+	7	640	c.579G>T	c.(577-579)GAG>GAT	p.E193D	C9orf96_uc004cdl.2_Intron	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	193	Protein kinase.						ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		TTCGTGCGGAGGAAGGTGGCA	0.562													5	198					4.096e-09	4.27572e-09	0.001168	1	0		T	136256568	T	T	136256568	3	4	19	1	0	0	0	0	1	0	0	0	2511	991	35	5	605	5	C9orf96	9	136256568	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	39465	136256568	4956863	1562	15075											
FAM163B	642968	broad.mit.edu	37	chr9	136444295	136444295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtagagcacgcgctccccgCcgttcagcacgtcctcttcc	5	9	9	18	5	2	1	1	0	1	1	5	1	5	1	5	0	2	5	5	0	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:136444295C>T	uc011mdm.1	-	2	350	c.350G>A	c.(349-351)GGC>GAC	p.G117D		NM_001080515	NP_001073984	P0C2L3	F163B_HUMAN	hypothetical LOC642968	117						integral to membrane					0						GCGCTCCCCGCCGTTCAGCAC	0.721													4	2					0	0	0.006214	0	0		T	136444295	T	T	136444295	3	4	19	1	0	0	0	0	1	0	0	0	5488	739	26	2	153	2	FAM163B	9	136444295	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	187727	136444295	4769136	1563	15076											
DBH	1621	broad.mit.edu	37	chr9	136501550	136501550	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcatgcgggaggcagcCttcatgtacagcacagcagt	10	6	12	13	1	1	0	1	0	0	0	1	1	1	1	2	2	6	5	2	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:136501550C>A	uc004cel.2	+	1	66	c.57C>A	c.(55-57)GCC>GCA	p.A19A		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	19	Helical; Signal-anchor for type II membrane protein; (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	GGGAGGCAGCCTTCATGTACA	0.677													5	91					5.9392e-07	6.14342e-07	0.001168	1	0		A	136501550	A	A	136501550	2	1	19	1	0	0	0	0	0	0	0	1	4253	668	24	5		5	DBH	9	136501550	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	57255	136501550	4711881	1564	15077											
VAV2	7410	broad.mit.edu	37	chr9	136671273	136671273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggacacgtcgatggcccTcaggaagctgtgatgcacct	9	7	12	13	3	1	1	1	1	0	0	2	4	1	3	2	3	2	2	2	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:136671273T>C	uc004ces.2	-	9	812	c.766A>G	c.(766-768)AGG>GGG	p.R256G	VAV2_uc004cer.2_Missense_Mutation_p.R251G	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	256	DH.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		TCGATGGCCCTCAGGAAGCTG	0.622													3	19					0	0	0.000602	0	0		C	136671273	C	C	136671273	3	2	19	1	0	0	0	0	1	0	0	0	17158	1550	54	3	1958	3	VAV2	9	136671273	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	169723	136671273	4542158	1565	15078											
COL5A1	1289	broad.mit.edu	37	chr9	137623460	137623460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgaccccaccagctccccgtCggagatcgggccgggaatgc	7	4	13	17	5	0	1	0	0	0	1	3	4	1	2	6	3	2	1	6	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:137623460C>T	uc004cfe.2	+	8	1665	c.1283C>T	c.(1282-1284)TCG>TTG	p.S428L		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	428	Nonhelical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		AGCTCCCCGTCGGAGATCGGG	0.562													47	101					0	0	0.01441	0	0		T	137623460	T	T	137623460	3	4	19	1	0	0	0	0	1	0	0	0	3699	893	31	1	1313	1	COL5A1	9	137623460	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	952187	137623460	3589971	1566	15079											
GLT6D1	360203	broad.mit.edu	37	chr9	138516095	138516095	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaaccatcaagttgccatAatagaaatctccctgtccaa	15	9	4	13	0	2	1	1	0	1	1	4	1	3	1	5	0	2	1	5	0	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:138516095A>G	uc010nbd.1	-	5	933	c.679T>C	c.(679-681)TAT>CAT	p.Y227H		NM_182974	NP_892019	Q7Z4J2	GL6D1_HUMAN	glycosyltransferase 6 domain containing 1	227	Lumenal (Potential).				carbohydrate metabolic process	integral to membrane	transferase activity, transferring hexosyl groups			ovary(1)	1		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;4.3e-07)|Epithelial(140;1.58e-06)|all cancers(34;5.36e-05)		AAGTTGCCATAATAGAAATCT	0.443													14	133					0	0	0.004007	0	0		G	138516095	G	G	138516095	3	3	19	1	0	0	0	0	1	0	0	0	6483	362	13	3	155	3	GLT6D1	9	138516095	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	892635	138516095	2697336	1567	15080											
KCNT1	57582	broad.mit.edu	37	chr9	138594206	138594206	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtttgacgacggccaatgCgcccccaggtacagtctgct	8	8	12	13	3	1	1	0	1	1	0	1	3	1	1	3	2	3	3	3	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:138594206C>T	uc011mdq.1	+	1	176	c.102C>T	c.(100-102)TGC>TGT	p.C34C	KCNT1_uc011mdr.1_5'UTR|KCNT1_uc010nbf.2_Silent_p.C34C|SOHLH1_uc010nbe.2_5'Flank|SOHLH1_uc004cgl.2_5'Flank	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	34						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		ACGGCCAATGCGCCCCCAGGT	0.502													15	37					0	0	0.010504	0	0		T	138594206	T	T	138594206	2	4	19	1	0	0	0	0	0	0	0	1	8107	776	27	1		1	KCNT1	9	138594206	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	78111	138594206	2619225	1568	15081											
KCNT1	57582	broad.mit.edu	37	chr9	138662709	138662709	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcctctgcccaggtatggCgtgtgcctcatcgggctgaa	5	10	14	12	2	2	1	1	1	1	0	3	1	2	1	3	3	3	2	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:138662709C>T	uc011mdq.1	+	18	1850	c.1776C>T	c.(1774-1776)GGC>GGT	p.G592G	KCNT1_uc011mdr.1_Silent_p.G419G|KCNT1_uc010nbf.2_Silent_p.G547G|KCNT1_uc004cgo.1_Silent_p.G341G	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	592						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		CCAGGTATGGCGTGTGCCTCA	0.652													3	3					0	0	0.004672	0	0		T	138662709	T	T	138662709	2	4	19	1	0	0	0	0	0	0	0	1	8107	755	27	1		1	KCNT1	9	138662709	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	68503	138662709	2550722	1569	15082											
KCNT1	57582	broad.mit.edu	37	chr9	138676625	138676625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatgaaaatcaccgagggcGacctgtggatccgcacgtac	12	6	12	11	4	1	2	1	1	0	1	2	5	2	3	3	2	1	2	3	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:138676625G>A	uc011mdq.1	+	27	3120	c.3046G>A	c.(3046-3048)GAC>AAC	p.D1016N	KCNT1_uc011mdr.1_Missense_Mutation_p.D843N|KCNT1_uc010nbf.2_Missense_Mutation_p.D971N|KCNT1_uc004cgo.1_Missense_Mutation_p.D765N	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	1016						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		CACCGAGGGCGACCTGTGGAT	0.637													47	73					0	0	0.01441	0	0		A	138676625	A	A	138676625	3	1	19	1	0	0	0	0	1	0	0	0	8107	1058	37	1	3152	1	KCNT1	9	138676625	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	13916	138676625	2536806	1570	15083											
QSOX2	169714	broad.mit.edu	37	chr9	139100687	139100687	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacagcacgacacagagacTcatgtccaggctggagaagt	13	6	12	10	1	1	2	1	0	0	2	2	5	2	2	1	2	2	3	1	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:139100687T>A	uc010nbi.2	-	12	2022	c.1984A>T	c.(1984-1986)AGT>TGT	p.S662C		NM_181701	NP_859052	Q6ZRP7	QSOX2_HUMAN	quiescin Q6 sulfhydryl oxidase 2 precursor	662	Helical; (Potential).				cell redox homeostasis	extracellular region|integral to membrane|nuclear membrane|plasma membrane	thiol oxidase activity			ovary(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;7.78e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.55e-07)		ACACAGAGACTCATGTCCAGG	0.612													77	120					0	0	0.01441	0	0		A	139100687	A	A	139100687	3	1	19	1	0	0	0	0	1	0	0	0	12909	1551	54	5	116	5	QSOX2	9	139100687	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	424062	139100687	2112744	1571	15084											
NOTCH1	4851	broad.mit.edu	37	chr9	139395173	139395173	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcccgtgcggtctgtctggTtgtgcaggctggcgccctgg	1	10	17	13	4	2	0	0	0	2	0	2	0	2	0	2	5	2	3	2	5	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:139395173T>C	uc004chz.2	-	31	5765	c.5765A>G	c.(5764-5766)AAC>AGC	p.N1922S		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1922	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GTCTGTCTGGTTGTGCAGGCT	0.692			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			14	198					0	0	0.003163	0	0		C	139395173	C	C	139395173	3	2	19	1	0	0	0	0	1	0	0	0	10566	1725	60	3	1918	3	NOTCH1	9	139395173	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	294486	139395173	1818258	1572	15085											
NOTCH1	4851	broad.mit.edu	37	chr9	139397686	139397686	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggctgcccagcgaggcgagCgctcccaggaatgcggccac	8	3	15	15	4	0	0	0	0	0	0	1	3	1	1	3	4	4	2	3	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:139397686C>T	uc004chz.2	-	27	5115	c.5115G>A	c.(5113-5115)GCG>GCA	p.A1705A	NOTCH1_uc004cia.1_Silent_p.A935A	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1705	Extracellular (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.G1705*(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GCGAGGCGAGCGCTCCCAGGA	0.647			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			11	32					0	0	0.010729	0	0		T	139397686	T	T	139397686	2	4	19	1	0	0	0	0	0	0	0	1	10566	755	27	1		1	NOTCH1	9	139397686	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2513	139397686	1815745	1573	15086											
TPRN	286262	broad.mit.edu	37	chr9	140093527	140093527	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgatctcatgcacggtggggTagcgcttcttcaacgtgggc	6	10	14	11	4	3	0	2	0	2	0	4	1	3	0	0	4	3	3	0	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:140093527T>C	uc004clt.2	-	1	1454	c.1454A>G	c.(1453-1455)TAC>TGC	p.Y485C	TPRN_uc004clu.2_Missense_Mutation_p.Y485C	NM_173691	NP_775962	Q4KMQ1	TPRN_HUMAN	hypothetical protein LOC286262 isoform 2	546					sensory perception of sound	stereocilium					0						CACGGTGGGGTAGCGCTTCTT	0.632													7	83					0	0	0.008291	0	0		C	140093527	C	C	140093527	3	2	19	1	0	0	0	0	1	0	0	0	16447	1638	57	3	594	3	TPRN	9	140093527	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	695841	140093527	1119904	1574	15087											
NDOR1	27158	broad.mit.edu	37	chr9	140110812	140110812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagcccggacgcagccGcgtatctagccaggctccag	7	6	12	16	4	2	0	0	0	2	0	3	1	3	1	4	2	4	4	4	2	2	2	rs143421840		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:140110812G>A	uc004clw.2	+	14	1849	c.1738G>A	c.(1738-1740)GCG>ACG	p.A580T	NDOR1_uc004clx.2_Missense_Mutation_p.A589T|NDOR1_uc011mes.1_Missense_Mutation_p.A573T|NDOR1_uc004cly.2_3'UTR	NM_014434	NP_055249	Q9UHB4	NDOR1_HUMAN	NADPH dependent diflavin oxidoreductase 1	580					cell death	cytosol|intermediate filament cytoskeleton|nucleus|perinuclear region of cytoplasm	flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding|oxidoreductase activity|protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GGACGCAGCCGCGTATCTAGC	0.672													18	36					0	0	0.012319	0	0		A	140110812	A	A	140110812	3	1	19	1	0	0	0	0	1	0	0	0	10268	1087	38	1	1819	1	NDOR1	9	140110812	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	17285	140110812	1102619	1575	15088											
PNPLA7	375775	broad.mit.edu	37	chr9	140435173	140435173	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccaccacctcggtgccgTcctgcgcttggagagcagag	7	7	12	15	3	1	2	1	0	0	2	3	3	2	2	5	2	3	2	5	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:140435173T>C	uc004cnf.2	-	7	930	c.593A>G	c.(592-594)GAC>GGC	p.D198G	PNPLA7_uc010ncj.1_Missense_Mutation_p.D223G	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	198	cNMP 1.				lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		CTCGGTGCCGTCCTGCGCTTG	0.701													6	7					0	0	0.001984	0	0		C	140435173	C	C	140435173	3	2	19	1	0	0	0	0	1	0	0	0	12189	1681	58	3	3472	3	PNPLA7	9	140435173	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	324361	140435173	778258	1576	15089											
CACNA1B	774	broad.mit.edu	37	chr9	140850184	140850184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgagagagggtggagaacCgccgcgccttcctgaagctg	9	5	16	11	4	0	3	0	1	0	2	1	6	1	3	4	2	3	1	4	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:140850184C>T	uc004cog.2	+	8	1250	c.1105C>T	c.(1105-1107)CGC>TGC	p.R369C	CACNA1B_uc011mfd.1_5'Flank	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	369	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	GGTGGAGAACCGCCGCGCCTT	0.642													6	11					0	0	0.001984	0	0		T	140850184	T	T	140850184	3	4	19	1	0	0	0	0	1	0	0	0	2542	652	23	1	1135	1	CACNA1B	9	140850184	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	415011	140850184	363247	1577	15090											
CACNA1B	774	broad.mit.edu	37	chr9	140952269	140952269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actttcactacgacaatgtgCtctgggctctgctgacgctg	7	12	10	12	2	3	1	1	1	2	0	3	2	3	1	0	1	3	4	0	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:140952269C>T	uc004cog.2	+	27	4199	c.4054C>T	c.(4054-4056)CTC>TTC	p.L1352F	CACNA1B_uc011mfd.1_Missense_Mutation_p.L882F|CACNA1B_uc004coi.2_Missense_Mutation_p.L566F	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	1352	III.|Extracellular (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	CGACAATGTGCTCTGGGCTCT	0.552													11	14					0	0	0.010729	0	0		T	140952269	T	T	140952269	3	4	19	1	0	0	0	0	1	0	0	0	2542	797	28	2	4160	2	CACNA1B	9	140952269	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	102085	140952269	261162	1578	15091											
DIP2C	22982	broad.mit.edu	37	chr10	410319	410319	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagaacgccactgaccttccCcggtagacaaacttcatggg	11	7	9	14	2	1	3	1	1	0	2	2	3	2	3	4	2	2	1	4	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:410319C>T	uc001ifp.2	-	20	2562	c.2472G>A	c.(2470-2472)CGG>CGA	p.R824R	DIP2C_uc009xhi.1_Silent_p.R210R|DIP2C_uc010pzz.1_Silent_p.R145R	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	824						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CTGACCTTCCCCGGTAGACAA	0.522													12	71					0	0	0.00245	0	0		T	410319	T	T	410319	2	4	19	1	0	0	0	0	0	0	0	1	4535	610	22	4		4	DIP2C	10	410319	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08		410319	135124428	1579	15092											
DIP2C	22982	broad.mit.edu	37	chr10	445160	445160	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggaacaccagtgccacCtgtgggacaggccagagcgg	9	5	16	11	1	0	1	0	0	0	1	0	3	0	3	4	5	3	0	4	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:445160C>A	uc001ifp.2	-	10	1240	c.1150_splice	c.e10-1	p.V384_splice	DIP2C_uc009xhj.1_Splice_Site_p.V80_splice	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C							nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CCAGTGCCACCTGTGGGACAG	0.627													14	32					2.23348e-06	2.30308e-06	0.004007	1	0		A	445160	A	A	445160	5	1	19	1	0	0	0	0	0	0	1	0	4535	695	24	5	3633	5	DIP2C	10	445160	Splice_Site	SNP	C	TCGA-BR-4361-01A-01D-1158-08	34841	445160	135089587	1580	15093											
LARP4B	23185	broad.mit.edu	37	chr10	888953	888953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaccgttgtgattggcaCatactggtcactatccatct	9	12	8	12	1	2	1	1	1	1	0	3	1	3	1	3	2	2	2	3	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:888953C>T	uc001ifs.1	-	6	606	c.565G>A	c.(565-567)GTG>ATG	p.V189M		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	189	HTH La-type RNA-binding.						nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						GTGATTGGCACATACTGGTCA	0.383													4	38					0	0	0.009096	0	0		T	888953	T	T	888953	3	4	19	1	0	0	0	0	1	0	0	0	8647	478	17	4	1699	4	LARP4B	10	888953	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	443793	888953	134645794	1581	15094											
PFKP	5214	broad.mit.edu	37	chr10	3147695	3147695	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtgtcaaactctcggaggTaatgcgggtcccgtggccgt	6	10	15	10	4	2	0	1	0	1	0	4	1	3	1	2	4	2	1	2	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:3147695T>C	uc001igp.2	+	7	810	c.774_splice	c.e7+2	p.E258_splice	PFKP_uc001igq.2_Splice_Site_p.E250_splice|PFKP_uc009xhr.2_Splice_Site_p.E220_splice|PFKP_uc009xhs.1_Splice_Site_p.E42_splice|PFKP_uc009xht.2_5'Flank	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet						glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		CTCTCGGAGGTAATGCGGGTC	0.547													6	99					0	0	0.001168	0	0		C	3147695	C	C	3147695	5	2	19	1	0	0	0	0	0	0	1	0	11785	1652	57	3	802	3	PFKP	10	3147695	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2258742	3147695	132387052	1582	15095											
AKR1C4	1109	broad.mit.edu	37	chr10	5254588	5254588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcatctaaaggtagaatgtCatccttacctcaaccagagc	14	10	6	11	0	4	2	3	0	1	2	5	2	5	2	3	1	3	1	3	1	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:5254588C>T	uc001ihw.2	+	6	613	c.580C>T	c.(580-582)CAT>TAT	p.H194Y		NM_001818	NP_001809	P17516	AK1C4_HUMAN	aldo-keto reductase family 1, member C4	194					androgen metabolic process|bile acid biosynthetic process	cytosol	aldo-keto reductase (NADP) activity|androsterone dehydrogenase (B-specific) activity|bile acid transmembrane transporter activity|chlordecone reductase activity|electron carrier activity			ovary(1)	1					NADH(DB00157)	GGTAGAATGTCATCCTTACCT	0.353													6	62					0	0	0.001168	0	0		T	5254588	T	T	5254588	3	4	19	1	0	0	0	0	1	0	0	0	472	826	29	4	602	4	AKR1C4	10	5254588	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2106893	5254588	130280159	1583	15096											
C10orf18	54906	broad.mit.edu	37	chr10	5781988	5781988	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttagccaagatgaagaaAgcttggttccttgtagtcag	12	11	11	7	0	1	3	1	1	0	2	2	3	2	3	2	1	2	4	2	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:5781988A>G	uc001iij.2	+	13	2480	c.1855A>G	c.(1855-1857)AGC>GGC	p.S619G	C10orf18_uc001iik.2_Intron	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	619										ovary(1)|central_nervous_system(1)	2						AGATGAAGAAAGCTTGGTTCC	0.418													37	92					0	0	0.005524	0	0		G	5781988	G	G	5781988	3	3	19	1	0	0	0	0	1	0	0	0	1599	72	3	3	1893	3	C10orf18	10	5781988	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	527400	5781988	129752759	1584	15097											
C10orf18	54906	broad.mit.edu	37	chr10	5788345	5788345	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgatgggcctggcagtcaGccagtgatatgtcagagctc	9	9	13	10	1	2	2	2	1	0	1	3	3	2	2	2	2	3	2	2	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:5788345G>A	uc001iij.2	+	15	3586	c.2961G>A	c.(2959-2961)CAG>CAA	p.Q987Q	C10orf18_uc001iik.2_Intron	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	987										ovary(1)|central_nervous_system(1)	2						CTGGCAGTCAGCCAGTGATAT	0.463													37	43					0	0	0.009718	0	0		A	5788345	A	A	5788345	2	1	19	1	0	0	0	0	0	0	0	1	1599	962	34	2		2	C10orf18	10	5788345	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	6357	5788345	129746402	1585	15098											
C10orf18	54906	broad.mit.edu	37	chr10	5788629	5788629	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaacctttaagaaggagtTgattaagcaagtatcacctg	15	11	8	7	0	1	2	1	1	0	1	1	3	1	3	2	1	3	3	2	1	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:5788629T>C	uc001iij.2	+	15	3870	c.3245T>C	c.(3244-3246)TTG>TCG	p.L1082S	C10orf18_uc001iik.2_Intron	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	1082										ovary(1)|central_nervous_system(1)	2						AAGAAGGAGTTGATTAAGCAA	0.433													7	125					0	0	0.004482	0	0		C	5788629	C	C	5788629	3	2	19	1	0	0	0	0	1	0	0	0	1599	1821	63	3	3291	3	C10orf18	10	5788629	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	284	5788629	129746118	1586	15099											
ANKRD16	54522	broad.mit.edu	37	chr10	5925938	5925938	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccatttttataccccatgTtcatcgaggagcagcctagc	11	11	7	12	1	1	0	1	0	0	0	2	2	1	1	4	1	5	2	4	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:5925938T>C	uc010qat.1	-	4	1224	c.681A>G	c.(679-681)GAA>GAG	p.E227E	ANKRD16_uc009xie.2_Silent_p.E227E|ANKRD16_uc009xif.2_Silent_p.E227E|ANKRD16_uc001iiq.2_Silent_p.E227E	NM_019046	NP_061919	Q6P6B7	ANR16_HUMAN	ankyrin repeat domain 16 isoform a	227	ANK 6.										0						ATACCCCATGTTCATCGAGGA	0.373													3	44					0	0	0.004672	0	0		C	5925938	C	C	5925938	2	2	19	1	0	0	0	0	0	0	0	1	645	1722	60	3		3	ANKRD16	10	5925938	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	137309	5925938	129608809	1587	15100											
FBXO18	84893	broad.mit.edu	37	chr10	5963252	5963252	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtggaaatagcttatgTgggagctactatcttggatg	9	14	14	4	0	1	0	0	0	1	0	1	3	1	3	0	4	3	2	0	4	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:5963252T>C	uc001iis.2	+	14	2227	c.2132T>C	c.(2131-2133)GTG>GCG	p.V711A	FBXO18_uc001iir.2_Missense_Mutation_p.V637A|FBXO18_uc009xig.2_Missense_Mutation_p.V637A|FBXO18_uc001iit.2_Missense_Mutation_p.V762A	NM_178150	NP_835363	Q8NFZ0	FBX18_HUMAN	F-box only protein, helicase, 18 isoform 2	711					DNA repair	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(2)|skin(1)	3						ATAGCTTATGTGGGAGCTACT	0.453													53	133					0	0	0.01441	0	0		C	5963252	C	C	5963252	3	2	19	1	0	0	0	0	1	0	0	0	5745	1696	59	3	2348	3	FBXO18	10	5963252	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	37314	5963252	129571495	1588	15101											
PFKFB3	5209	broad.mit.edu	37	chr10	6257276	6257276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggaagccatgaaagtcCggaagtaaggctgggccgcg	12	5	16	8	3	0	2	0	2	0	0	1	4	1	4	3	4	1	2	3	4	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:6257276C>T	uc001ije.2	+	3	679	c.295C>T	c.(295-297)CGG>TGG	p.R99W	PFKFB3_uc001ijd.2_Missense_Mutation_p.R79W|PFKFB3_uc009xii.2_RNA|PFKFB3_uc010qaw.1_Missense_Mutation_p.R113W|PFKFB3_uc001ijf.2_Missense_Mutation_p.R99W	NM_004566	NP_004557	Q16875	F263_HUMAN	6-phosphofructo-2-kinase/fructose-2,	99	6-phosphofructo-2-kinase.	Fructose-6-phosphate (By similarity).			fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(2)|central_nervous_system(1)	3						CATGAAAGTCCGGAAGTAAgg	0.299													4	10					0	0	0.001855	0	0		T	6257276	T	T	6257276	3	4	19	1	0	0	0	0	1	0	0	0	11781	643	23	1	325	1	PFKFB3	10	6257276	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	294024	6257276	129277471	1589	15102											
USP6NL	9712	broad.mit.edu	37	chr10	11535138	11535138	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaacaccatatctgtctctAaacataatgtggtcccgaaa	14	12	5	10	1	2	0	0	0	2	0	4	1	3	0	2	1	2	0	2	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:11535138A>G	uc001ikt.3	-	8	795	c.474T>C	c.(472-474)TTT>TTC	p.F158F	USP6NL_uc001iks.1_Silent_p.F175F	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	158	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0						ATCTGTCTCTAAACATAATGT	0.338													2	18					0	0	0.004672	0	0		G	11535138	G	G	11535138	2	3	19	1	0	0	0	0	0	0	0	1	17113	359	13	3		3	USP6NL	10	11535138	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5277862	11535138	123999609	1590	15103											
OPTN	10133	broad.mit.edu	37	chr10	13166057	13166057	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtttaaggagcttcaagaGgctcatacaaaactcagcaa	15	9	8	9	0	3	1	3	0	0	1	3	2	3	2	0	2	4	4	0	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:13166057G>T	uc001ilu.1	+	10	1383	c.945G>T	c.(943-945)GAG>GAT	p.E315D	OPTN_uc001ilv.1_Missense_Mutation_p.E315D|OPTN_uc001ilw.1_Missense_Mutation_p.E315D|OPTN_uc001ilx.1_Missense_Mutation_p.E315D|OPTN_uc001ily.1_Missense_Mutation_p.E309D|OPTN_uc010qbr.1_Missense_Mutation_p.E258D|OPTN_uc001ilz.1_Missense_Mutation_p.E309D	NM_001008213	NP_001008214	Q96CV9	OPTN_HUMAN	optineurin	315	Potential.				cell death|Golgi ribbon formation|Golgi to plasma membrane protein transport|protein targeting to Golgi|signal transduction	perinuclear region of cytoplasm|trans-Golgi network	protein C-terminus binding			ovary(2)	2						AGCTTCAAGAGGCTCATACAA	0.383													6	24					1.12685e-05	1.15967e-05	0.004482	1	0		T	13166057	T	T	13166057	3	4	19	1	0	0	0	0	1	0	0	0	10908	991	35	5	971	5	OPTN	10	13166057	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1630919	13166057	122368690	1591	15104											
PHYH	5264	broad.mit.edu	37	chr10	13337526	13337526	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatatcggcatcaggtacaAgatttttgattactagaaac	15	12	8	6	1	1	3	1	1	0	2	2	4	1	3	0	2	3	2	0	2	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:13337526A>G	uc001imf.2	-	3	303	c.215T>C	c.(214-216)CTT>CCT	p.L72P	PHYH_uc001ime.2_5'UTR|PHYH_uc001img.2_Missense_Mutation_p.L53P	NM_006214	NP_006205	O14832	PAHX_HUMAN	phytanoyl-CoA 2-hydroxylase isoform a precursor	72					fatty acid alpha-oxidation|nervous system development	peroxisomal matrix	electron carrier activity|L-ascorbic acid binding|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|phytanoyl-CoA dioxygenase activity|protein binding				0		Ovarian(717;0.0448)			Antihemophilic Factor(DB00025)|Vitamin C(DB00126)	ATCAGGTACAAGATTTTTGAT	0.333													16	62					0	0	0.00499	0	0		G	13337526	G	G	13337526	3	3	19	1	0	0	0	0	1	0	0	0	11883	72	3	3	829	3	PHYH	10	13337526	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	171469	13337526	122197221	1592	15105											
DCLRE1C	64421	broad.mit.edu	37	chr10	14950433	14950433	+	Frame_Shift_Del	DEL	T	-	-																															atctaagagtgagcattttcTttttttgactgctatactct																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:14950433delT	uc001inn.2	-	14	2138	c.2053delA	c.(2053-2055)AGAfs	p.R685fs	DCLRE1C_uc010qbx.1_Intron|DCLRE1C_uc001ink.2_Frame_Shift_Del_p.R338fs|DCLRE1C_uc001inl.2_Frame_Shift_Del_p.R565fs|DCLRE1C_uc009xji.2_Frame_Shift_Del_p.R570fs|DCLRE1C_uc001inm.2_Frame_Shift_Del_p.R565fs|DCLRE1C_uc001ino.2_Frame_Shift_Del_p.R570fs|DCLRE1C_uc009xjh.2_RNA|DCLRE1C_uc001inp.2_Frame_Shift_Del_p.R565fs|DCLRE1C_uc001inq.2_Frame_Shift_Del_p.R565fs|DCLRE1C_uc001inr.2_Frame_Shift_Del_p.R570fs	NM_001033855	NP_001029027	Q96SD1	DCR1C_HUMAN	artemis protein isoform a	685					DNA recombination	nucleus	5'-3' exonuclease activity|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)	1						GAGCATTTTCTTTTTTTGACT	0.269								Involved_in_tolerance_or_repair_of_DNA_crosslinks|NHEJ					35	68	---	---	---	---						.	-	14950433	-	-	14950433	7	5	19	1	0	1	0	1	0	0	0	0	4299	1617	56	0	29	0	DCLRE1C	10	14950433	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	1612907	14950433	120584314	1593	15106											
FAM171A1	221061	broad.mit.edu	37	chr10	15325918	15325918	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggggcagagtttggcacgTaggcatgcttcgaggcggtg	7	9	18	7	3	0	1	0	0	0	1	1	2	0	1	0	6	1	6	0	6	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:15325918T>C	uc001iob.2	-	2	291	c.284A>G	c.(283-285)TAC>TGC	p.Y95C		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	95	Extracellular (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						GTTTGGCACGTAGGCATGCTT	0.493													12	52					0	0	0.003163	0	0		C	15325918	C	C	15325918	3	2	19	1	0	0	0	0	1	0	0	0	5501	1638	57	3	2416	3	FAM171A1	10	15325918	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	375485	15325918	120208829	1594	15107											
ITGA8	8516	broad.mit.edu	37	chr10	15720763	15720763	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctgcttggcagtaaccctgGccttccggatcagcattgcc	6	10	10	15	1	1	0	1	0	0	0	2	1	2	1	5	3	4	4	5	3	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:15720763G>A	uc001ioc.1	-	5	588	c.588C>T	c.(586-588)GGC>GGT	p.G196G	ITGA8_uc010qcb.1_Silent_p.G196G	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	196	FG-GAP 3.|Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						AGTAACCCTGGCCTTCCGGAT	0.328													40	69					0	0	0.009718	0	0		A	15720763	A	A	15720763	2	1	19	1	0	0	0	0	0	0	0	1	7898	1190	42	2		2	ITGA8	10	15720763	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	394845	15720763	119813984	1595	15108											
FAM188A	80013	broad.mit.edu	37	chr10	15875660	15875660	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactctctatcaccatcccaTacattagaaacagcatgtcc	13	10	3	15	0	2	1	1	0	1	1	5	1	4	1	3	0	3	1	3	0	4	3	rs150118445		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:15875660T>C	uc001iod.1	-	8	920	c.699A>G	c.(697-699)GTA>GTG	p.V233V	FAM188A_uc001ioe.1_Silent_p.V60V|FAM188A_uc001iof.1_Silent_p.V233V	NM_024948	NP_079224	Q9H8M7	F188A_HUMAN	chromosome 10 open reading frame 97	233					apoptosis	nucleus	calcium ion binding			ovary(1)	1						CACCATCCCATACATTAGAAA	0.279													6	88					0	0	0.001984	0	0		C	15875660	C	C	15875660	2	2	19	1	0	0	0	0	0	0	0	1	5525	1393	49	3		3	FAM188A	10	15875660	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	154897	15875660	119659087	1596	15109											
CUBN	8029	broad.mit.edu	37	chr10	16967691	16967691	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaccaggacgtgccaagaAcagttgaggttggatgggta	11	8	16	6	1	0	2	0	1	0	1	0	5	0	5	2	5	2	3	2	5	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:16967691A>G	uc001ioo.2	-	42	6406	c.6354T>C	c.(6352-6354)TGT>TGC	p.C2118C		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2118	CUB 15.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CGTGCCAAGAACAGTTGAGGT	0.493													18	51					0	0	0.00499	0	0		G	16967691	G	G	16967691	2	3	19	1	0	0	0	0	0	0	0	1	4054	41	2	3		3	CUBN	10	16967691	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1092031	16967691	118567056	1597	15110											
PLXDC2	84898	broad.mit.edu	37	chr10	20453414	20453414	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattcctgtcttggtcacAcagataagttcaaccaatca	13	11	6	11	0	4	2	3	0	1	2	5	2	5	2	2	1	1	1	2	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:20453414A>G	uc001iqg.1	+	7	1438	c.801A>G	c.(799-801)ACA>ACG	p.T267T	PLXDC2_uc001iqh.1_Silent_p.T218T|PLXDC2_uc009xkc.1_RNA	NM_032812	NP_116201	Q6UX71	PXDC2_HUMAN	plexin domain containing 2 precursor	267	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4						TCTTGGTCACACAGATAAGTT	0.418													22	43					0	0	0.012319	0	0		G	20453414	G	G	20453414	2	3	19	1	0	0	0	0	0	0	0	1	12137	146	6	3		3	PLXDC2	10	20453414	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3485723	20453414	115081333	1598	15111											
C10orf140	387640	broad.mit.edu	37	chr10	21805019	21805019	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctttgggctaggtgaagagGccccctctgccaggcagtta	7	10	13	11	0	2	2	0	1	2	1	2	2	2	2	3	4	1	3	3	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:21805019G>C	uc009xkd.2	-	4	3986	c.1733C>G	c.(1732-1734)GCC>GGC	p.A578G	uc001iqp.1_Intron	NM_207371	NP_997254	Q1XH10	DLN1_HUMAN	hypothetical protein LOC387640	497						nucleus	nucleotide binding			ovary(1)	1						AGGTGAAGAGGCCCCCTCTGC	0.443													48	112					0	0	0.01441	0	0		C	21805019	C	C	21805019	3	2	19	1	0	0	0	0	1	0	0	0	1598	1203	42	5	997	5	C10orf140	10	21805019	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1351605	21805019	113729728	1599	15112											
DNAJC1	64215	broad.mit.edu	37	chr10	22048437	22048437	+	Frame_Shift_Del	DEL	C	-	-																															ctgctcctcctccgctgccaCcccctctgcgtcctctcgct																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:22048437delC	uc001irc.2	-	11	1545	c.1258delG	c.(1258-1260)GTGfs	p.V420fs	DNAJC1_uc001ird.2_Frame_Shift_Del_p.V306fs	NM_022365	NP_071760	Q96KC8	DNJC1_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 1	420	Cytoplasmic (By similarity).				negative regulation of proteolysis|regulation of protein secretion|regulation of transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	ATPase activator activity|DNA binding|heat shock protein binding|unfolded protein binding			lung(1)	1		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)				TCCGCTGCCACCCCCTCTGCG	0.642													29	51	---	---	---	---						.	-	22048437	-	-	22048437	7	5	19	1	0	1	0	1	0	0	0	0	4634	507	18	0	414	0	DNAJC1	10	22048437	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	243418	22048437	113486310	1600	15113											
ARHGAP21	57584	broad.mit.edu	37	chr10	24909045	24909045	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaaatttctgtttgactgCaatgtttttagatctggtgg	9	18	10	4	0	2	3	0	2	2	1	2	3	2	3	0	2	1	3	0	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:24909045C>T	uc001isb.2	-	9	2266	c.1779G>A	c.(1777-1779)TTG>TTA	p.L593L	ARHGAP21_uc010qdb.1_RNA|ARHGAP21_uc009xkl.1_Silent_p.L593L|ARHGAP21_uc010qdc.1_Silent_p.L428L|ARHGAP21_uc001isc.1_Silent_p.L583L	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	592					signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						TGTTTGACTGCAATGTTTTTA	0.423													57	119					0	0	0.01441	0	0		T	24909045	T	T	24909045	2	4	19	1	0	0	0	0	0	0	0	1	871	709	25	2		2	ARHGAP21	10	24909045	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2860608	24909045	110625702	1601	15114											
ARHGAP21	57584	broad.mit.edu	37	chr10	24910013	24910013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcacaatgacagtccttaCactttcattgcaaacacaca	15	9	5	12	0	1	1	1	1	0	0	2	1	2	1	1	1	3	2	1	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:24910013C>T	uc001isb.2	-	9	1298	c.811G>A	c.(811-813)GTA>ATA	p.V271I	ARHGAP21_uc010qdb.1_RNA|ARHGAP21_uc009xkl.1_Missense_Mutation_p.V271I|ARHGAP21_uc010qdc.1_Missense_Mutation_p.V106I|ARHGAP21_uc001isc.1_Missense_Mutation_p.V261I	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	270					signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						ACAGTCCTTACACTTTCATTG	0.418													8	101					0	0	0.004482	0	0		T	24910013	T	T	24910013	3	4	19	1	0	0	0	0	1	0	0	0	871	478	17	4	5137	4	ARHGAP21	10	24910013	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	968	24910013	110624734	1602	15115											
KIAA1462	57608	broad.mit.edu	37	chr10	30315149	30315149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcccaatctctgggcacGgtccccactgccaggagaca	8	6	12	15	1	1	1	0	0	1	1	3	2	2	1	4	4	1	1	4	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:30315149G>A	uc001iux.2	-	2	3987	c.3928C>T	c.(3928-3930)CGT>TGT	p.R1310C	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.R1172C|KIAA1462_uc009xle.1_Missense_Mutation_p.R1310C	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	1310										ovary(4)	4						CTCTGGGCACGGTCCCCACTG	0.617													39	89					0	0	0.006999	0	0		A	30315149	A	A	30315149	3	1	19	1	0	0	0	0	1	0	0	0	8250	1116	39	1	159	1	KIAA1462	10	30315149	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	5405136	30315149	105219598	1603	15116											
MTPAP	55149	broad.mit.edu	37	chr10	30615351	30615351	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taataaatgtaagcggtcatAcctattgttcgtagtcaaat	14	14	7	6	2	2	0	2	0	0	0	3	0	2	0	1	1	2	3	1	1	8	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:30615351A>G	uc001iva.3	-	5	1055	c.992_splice	c.e5+1	p.R331_splice	MTPAP_uc001ivb.3_Splice_Site_p.R461_splice	NM_018109	NP_060579	Q9NVV4	PAPD1_HUMAN	PAP associated domain containing 1 precursor						cell death|histone mRNA catabolic process|mRNA polyadenylation|transcription, DNA-dependent	mitochondrion	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|protein homodimerization activity|RNA binding|UTP binding			ovary(1)	1						AAGCGGTCATACCTATTGTTC	0.388													36	82					0	0	0.004878	0	0		G	30615351	G	G	30615351	5	3	19	1	0	0	0	0	0	0	1	0	9974	405	14	3	774	3	MTPAP	10	30615351	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	300202	30615351	104919396	1604	15117											
ZNF438	220929	broad.mit.edu	37	chr10	31134236	31134236	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgattcctcggaggaggaaTgaaccttctccggcttccct	7	11	11	12	2	1	2	0	2	1	0	5	5	3	5	4	4	1	1	4	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:31134236T>C	uc010qdz.1	-	8	2576	c.2141A>G	c.(2140-2142)CAT>CGT	p.H714R	ZNF438_uc001ivn.2_Missense_Mutation_p.H665R|ZNF438_uc010qdy.1_Missense_Mutation_p.H704R|ZNF438_uc001ivo.3_Missense_Mutation_p.H278R|ZNF438_uc009xlg.2_Missense_Mutation_p.H714R|ZNF438_uc001ivp.3_Missense_Mutation_p.H704R|ZNF438_uc010qea.1_Missense_Mutation_p.H714R|ZNF438_uc010qeb.1_Missense_Mutation_p.H714R	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	714					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				GGAGGAGGAATGAACCTTCTC	0.547													11	110					0	0	0.010729	0	0		C	31134236	C	C	31134236	3	2	19	1	0	0	0	0	1	0	0	0	17935	1464	51	3	349	3	ZNF438	10	31134236	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	518885	31134236	104400511	1605	15118											
ZNF438	220929	broad.mit.edu	37	chr10	31138295	31138295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtgacacttgtggaacagGtagcctgcttgccaccttgg	7	11	12	11	0	0	1	0	1	0	0	0	2	0	2	3	3	4	2	3	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:31138295G>A	uc010qdz.1	-	7	1474	c.1039C>T	c.(1039-1041)CCT>TCT	p.P347S	ZNF438_uc001ivn.2_Missense_Mutation_p.P298S|ZNF438_uc010qdy.1_Missense_Mutation_p.P337S|ZNF438_uc001ivo.3_5'UTR|ZNF438_uc009xlg.2_Missense_Mutation_p.P347S|ZNF438_uc001ivp.3_Missense_Mutation_p.P337S|ZNF438_uc010qea.1_Missense_Mutation_p.P347S|ZNF438_uc010qeb.1_Missense_Mutation_p.P347S|ZNF438_uc010qec.1_5'UTR	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	347					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				TGTGGAACAGGTAGCCTGCTT	0.488													21	100					0	0	0.008871	0	0		A	31138295	A	A	31138295	3	1	19	1	0	0	0	0	1	0	0	0	17935	1261	44	4	1455	4	ZNF438	10	31138295	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4059	31138295	104396452	1606	15119											
PARD3	56288	broad.mit.edu	37	chr10	34620079	34620079	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatcatcatctaccgcGggtttatcataagatttgtc	10	15	6	10	2	6	1	5	0	1	1	7	1	6	1	1	1	1	1	1	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:34620079G>A	uc010qej.1	-	19	2808	c.2808C>T	c.(2806-2808)CCC>CCT	p.P936P	PARD3_uc010qek.1_Silent_p.P933P|PARD3_uc010qel.1_Silent_p.P936P|PARD3_uc010qem.1_Silent_p.P920P|PARD3_uc010qen.1_Silent_p.P890P|PARD3_uc010qeo.1_Silent_p.P890P|PARD3_uc010qep.1_Silent_p.P846P|PARD3_uc010qeq.1_Silent_p.P861P|PARD3_uc001ixo.1_Silent_p.P649P|PARD3_uc001ixp.1_Silent_p.P767P|PARD3_uc001ixq.1_Silent_p.P890P|PARD3_uc001ixr.1_Silent_p.P933P|PARD3_uc001ixt.1_Silent_p.P754P|PARD3_uc001ixu.1_Silent_p.P878P|PARD3_uc001ixs.1_Silent_p.P559P	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	936	Interacts with PRKCZ (By similarity).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				CATCTACCGCGGGTTTATCAT	0.388													29	54					0	0	0.010818	0	0		A	34620079	A	A	34620079	2	1	19	1	0	0	0	0	0	0	0	1	11462	1103	39	1		1	PARD3	10	34620079	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3481784	34620079	100914668	1607	15120											
ZNF33A	7581	broad.mit.edu	37	chr10	38345137	38345137	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggagaaaccctatgaatgCaatgaatgtgggaaattctt	14	10	12	5	0	1	3	0	2	1	1	1	5	1	4	1	3	2	1	1	3	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:38345137C>T	uc001izh.2	+	5	2260	c.2082C>T	c.(2080-2082)TGC>TGT	p.C694C	ZNF33A_uc001izg.2_Silent_p.C695C|ZNF33A_uc010qev.1_Silent_p.C701C|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	694	C2H2-type 14.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						CCTATGAATGCAATGAATGTG	0.383													6	148					0	0	0.001168	0	0		T	38345137	T	T	38345137	2	4	19	1	0	0	0	0	0	0	0	1	17879	718	25	2		2	ZNF33A	10	38345137	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3725058	38345137	97189610	1608	15121											
ALOX5	240	broad.mit.edu	37	chr10	45891350	45891350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattctcaagcaacaccgaCgtaaagaactggaaacacgg	17	5	8	11	3	1	1	1	0	1	1	2	3	1	2	1	2	4	2	1	2	6	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:45891350C>T	uc001jce.2	+	3	496	c.397C>T	c.(397-399)CGT>TGT	p.R133C	ALOX5_uc009xmt.2_Missense_Mutation_p.R133C|ALOX5_uc010qfg.1_Missense_Mutation_p.R133C	NM_000698	NP_000689	P09917	LOX5_HUMAN	arachidonate 5-lipoxygenase	133	Lipoxygenase.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	cytosol|nuclear envelope lumen|nuclear matrix|nuclear membrane	arachidonate 5-lipoxygenase activity|iron ion binding|lipoxygenase activity|protein binding			ovary(1)|pancreas(1)	2		Lung SC(717;0.0257)			Diethylcarbamazine(DB00711)|Hydrocortisone(DB00741)|Leflunomide(DB01097)|Masoprocol(DB00179)|Meclofenamic acid(DB00939)|Minocycline(DB01017)|Montelukast(DB00471)|Quinacrine(DB01103)|Vitamin E(DB00163)|Zileuton(DB00744)	GCAACACCGACGTAAAGAACT	0.448													18	54					0	0	0.012319	0	0		T	45891350	T	T	45891350	3	4	19	1	0	0	0	0	1	0	0	0	540	536	19	1	407	1	ALOX5	10	45891350	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	7546213	45891350	89643397	1609	15122											
GDF2	2658	broad.mit.edu	37	chr10	48413624	48413624	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgccctcgtaatggtacTtgagggtgggcacccccatg	7	10	12	12	1	1	1	1	1	0	0	2	1	1	1	3	3	2	3	3	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:48413624T>C	uc001jfa.1	-	2	1407	c.1244A>G	c.(1243-1245)AAG>AGG	p.K415R		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	415					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						GTAATGGTACTTGAGGGTGGG	0.612													16	23					0	0	0.006122	0	0		C	48413624	C	C	48413624	3	2	19	1	0	0	0	0	1	0	0	0	6329	1609	56	3	49	3	GDF2	10	48413624	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2522274	48413624	87121123	1610	15123											
GDF2	2658	broad.mit.edu	37	chr10	48414131	48414131	+	Frame_Shift_Del	DEL	G	-	-																															agggcaggtttctggaacctGgggggacactgatgtccagc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:48414131delG	uc001jfa.1	-	2	900	c.737delC	c.(736-738)CCAfs	p.P246fs		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	246					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						TCTGGAACCTGGGGGGACACT	0.567													35	76	---	---	---	---						.	-	48414131	-	-	48414131	7	5	19	1	0	1	0	1	0	0	0	0	6329	1348	47	0	556	0	GDF2	10	48414131	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	507	48414131	87120616	1611	15124											
FRMPD2	143162	broad.mit.edu	37	chr10	49450347	49450347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgcctgtgaggctggtcttCacacatggtcagcaggatgg	7	9	14	11	1	3	1	2	1	1	0	3	2	3	2	2	5	1	2	2	5	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:49450347C>T	uc001jgi.2	-	5	531	c.424G>A	c.(424-426)GAA>AAA	p.E142K	FRMPD2_uc001jgh.2_Missense_Mutation_p.E111K|FRMPD2_uc001jgj.2_Missense_Mutation_p.E120K	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	142	KIND.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		GGCTGGTCTTCACACATGGTC	0.612													39	72					0	0	0.01441	0	0		T	49450347	T	T	49450347	3	4	19	1	0	0	0	0	1	0	0	0	6072	835	29	4	3605	4	FRMPD2	10	49450347	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1036216	49450347	86084400	1612	15125											
C10orf71	118461	broad.mit.edu	37	chr10	50531160	50531160	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaacttctgcttcgattcTgcctttctgacagtcaggag	7	14	9	11	1	5	1	2	1	3	0	6	3	5	2	1	1	3	1	1	1	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:50531160T>C	uc010qgp.1	+	3	909	c.570T>C	c.(568-570)TCT>TCC	p.S190S		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	190											0						GCTTCGATTCTGCCTTTCTGA	0.542													8	43					0	0	0.006214	0	0		C	50531160	C	C	50531160	2	2	19	1	0	0	0	0	0	0	0	1	1617	1567	55	3		3	C10orf71	10	50531160	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1080813	50531160	85003587	1613	15126											
PGBD3	267004	broad.mit.edu	37	chr10	50723435	50723435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaggcaacatcacatttttCacatcgaaaagttgtgttct	13	14	6	8	1	3	0	2	0	1	0	4	1	3	0	0	1	1	3	0	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:50723435C>T	uc001jht.2	-	2	1981	c.1726G>A	c.(1726-1728)GAA>AAA	p.E576K	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Missense_Mutation_p.E1044K|PGBD3_uc001jhu.2_Missense_Mutation_p.E1044K	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	576										pancreas(1)|breast(1)|skin(1)	3						TCACATTTTTCACATCGAAAA	0.383													21	157					0	0	0.00278	0	0		T	50723435	T	T	50723435	3	4	19	1	0	0	0	0	1	0	0	0	11801	835	29	4	59	4	PGBD3	10	50723435	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	192275	50723435	84811312	1614	15127											
SLC18A3	6572	broad.mit.edu	37	chr10	50820315	50820315	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtctggccaggacggcgAgcctcgcagcccgcctggcc	4	6	15	16	4	1	0	0	0	1	0	2	2	1	1	5	4	2	1	5	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:50820315A>T	uc001jhw.2	+	1	1969	c.1529A>T	c.(1528-1530)GAG>GTG	p.E510V	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	510	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CAGGACGGCGAGCCTCGCAGC	0.647													10	67					0	0	0.006214	0	0		T	50820315	T	T	50820315	3	4	19	1	0	0	0	0	1	0	0	0	14452	304	11	5	1531	5	SLC18A3	10	50820315	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	96880	50820315	84714432	1615	15128											
OGDHL	55753	broad.mit.edu	37	chr10	50954898	50954898	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggccagcaaaggcggcGtccccatgaaccaggatgga	10	4	13	14	2	0	1	0	1	0	0	1	3	1	3	5	5	2	1	5	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:50954898G>A	uc001jie.2	-	10	1336	c.1194C>T	c.(1192-1194)GAC>GAT	p.D398D	OGDHL_uc009xog.2_Silent_p.D425D|OGDHL_uc010qgt.1_Silent_p.D341D|OGDHL_uc010qgu.1_Silent_p.D189D|OGDHL_uc009xoh.2_Silent_p.D189D	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	398					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						CAAAGGCGGCGTCCCCATGAA	0.632													26	56					0	0	0.008361	0	0		A	50954898	A	A	50954898	2	1	19	1	0	0	0	0	0	0	0	1	10859	1136	40	1		1	OGDHL	10	50954898	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	134583	50954898	84579849	1616	15129											
MBL2	4153	broad.mit.edu	37	chr10	54527904	54527904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgatatgacccttcagataGggaactcacagacggccaga	13	7	11	10	1	2	5	2	2	0	3	2	6	2	6	2	2	1	0	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:54527904G>A	uc001jjt.2	-	4	805	c.740C>T	c.(739-741)CCT>CTT	p.P247L		NM_000242	NP_000233	P11226	MBL2_HUMAN	soluble mannose-binding lectin precursor	247					acute-phase response|complement activation, classical pathway|complement activation, lectin pathway|defense response to Gram-positive bacterium|negative regulation of growth of symbiont in host|opsonization|response to oxidative stress	collagen|extracellular space	bacterial cell surface binding|calcium-dependent protein binding|eukaryotic cell surface binding|mannose binding|receptor binding			ovary(1)	1						CCTTCAGATAGGGAACTCACA	0.453													88	192					0	0	0.01441	0	0		A	54527904	A	A	54527904	3	1	19	1	0	0	0	0	1	0	0	0	9368	1000	35	4	10	4	MBL2	10	54527904	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3573006	54527904	81006843	1617	15130											
IPMK	253430	broad.mit.edu	37	chr10	59986902	59986902	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagtcagcagcataaaccTgaaacagagaaatataacat	21	6	6	8	0	1	2	1	1	0	1	1	3	1	2	1	0	6	2	1	0	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:59986902T>C	uc001jkb.2	-	3	600	c.277_splice	c.e3-1	p.V93_splice		NM_152230	NP_689416	Q8NFU5	IPMK_HUMAN	inositol polyphosphate multikinase							nucleus	ATP binding|inositol trisphosphate 6-kinase activity			ovary(1)	1						AGCATAAACCTGAAACAGAGA	0.358													22	43					0	0	0.012319	0	0		C	59986902	C	C	59986902	5	2	19	1	0	0	0	0	0	0	1	0	7808	1594	55	3	991	3	IPMK	10	59986902	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	5458998	59986902	75547845	1618	15131											
SLC16A9	220963	broad.mit.edu	37	chr10	61414085	61414085	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcctgcatttttcctcactActgtagctcttgtcaagaat	9	16	5	11	0	3	1	2	0	1	1	5	1	5	1	2	0	3	3	2	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:61414085A>G	uc010qig.1	-	5	1148	c.699T>C	c.(697-699)AGT>AGC	p.S233S		NM_194298	NP_919274	Q7RTY1	MOT9_HUMAN	solute carrier family 16 (monocarboxylic acid	233	Extracellular (Potential).				urate metabolic process	integral to membrane|plasma membrane	symporter activity			skin(2)|ovary(1)	3						TTTCCTCACTACTGTAGCTCT	0.378													5	386					0	0	0.001168	0	0		G	61414085	G	G	61414085	2	3	19	1	0	0	0	0	0	0	0	1	14440	388	14	3		3	SLC16A9	10	61414085	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1427183	61414085	74120662	1619	15132											
CCDC6	8030	broad.mit.edu	37	chr10	61564176	61564176	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagccaaagacatatgctcAccaggtgatataggcctgct	13	9	9	10	0	1	2	1	1	0	1	1	2	1	2	3	2	3	2	3	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:61564176A>G	uc001jks.3	-	7	1741	c.1105_splice	c.e7+1	p.G369_splice		NM_005436	NP_005427	Q16204	CCDC6_HUMAN	coiled-coil domain containing 6							cytoplasm|cytoskeleton	SH3 domain binding|structural constituent of cytoskeleton			ovary(3)|breast(1)	4				Kidney(211;0.0597)		ACATATGCTCACCAGGTGATA	0.453													28	53					0	0	0.010818	0	0		G	61564176	G	G	61564176	5	3	19	1	0	0	0	0	0	0	1	0	2833	173	6	3	329	3	CCDC6	10	61564176	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	150091	61564176	73970571	1620	15133											
ANK3	288	broad.mit.edu	37	chr10	61815518	61815518	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcatactgacaggcacAcagggtttagtctcttctat	9	16	7	9	0	3	1	1	1	2	0	4	1	3	1	0	2	1	2	0	2	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:61815518A>G	uc001jky.2	-	42	13155	c.12963T>C	c.(12961-12963)TGT>TGC	p.C4321C	ANK3_uc001jkw.2_Silent_p.C945C|ANK3_uc009xpa.2_Silent_p.C945C|ANK3_uc001jkx.2_Silent_p.C989C|ANK3_uc010qih.1_Silent_p.C1812C|ANK3_uc001jkz.3_Silent_p.C1805C|ANK3_uc001jkv.2_Silent_p.C344C	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	4321					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TGACAGGCACACAGGGTTTAG	0.458													47	344					0	0	0.01441	0	0		G	61815518	G	G	61815518	2	3	19	1	0	0	0	0	0	0	0	1	622	157	6	3		3	ANK3	10	61815518	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	251342	61815518	73719229	1621	15134											
ANK3	288	broad.mit.edu	37	chr10	61835896	61835896	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattgtgacaccacagttttTatcggcgaagacattgtccg	10	12	10	9	3	0	2	0	1	0	1	2	4	1	2	2	1	0	1	2	1	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:61835896T>C	uc001jky.2	-	37	4935	c.4743A>G	c.(4741-4743)ATA>ATG	p.I1581M	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1581	Ser-rich.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CCACAGTTTTTATCGGCGAAG	0.463													40	204					0	0	0.007835	0	0		C	61835896	C	C	61835896	3	2	19	1	0	0	0	0	1	0	0	0	622	1744	61	3	8731	3	ANK3	10	61835896	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	20378	61835896	73698851	1622	15135											
ZNF365	22891	broad.mit.edu	37	chr10	64414648	64414648	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagataaaaatccttgcctGcacggagcttaccttcagct	12	10	7	12	1	1	1	1	0	0	1	2	2	2	2	3	1	5	3	3	1	4	4	rs145414368	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:64414648G>A	uc001jmd.1	+	3	418	c.84G>A	c.(82-84)CTG>CTA	p.L28L	ZNF365_uc001jmc.2_Intron|ZNF365_uc001jme.1_RNA|ZNF365_uc001jmf.1_Intron|ZNF365_uc009xpg.1_RNA	NM_199452	NP_955524	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform D	28										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					atccttgcctgcacggagctt	0.01													51	111					0	0	0.01441	0	0		A	64414648	A	A	64414648	2	1	19	1	0	0	0	0	0	0	0	1	17894	1306	46	2		2	ZNF365	10	64414648	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2578752	64414648	71120099	1623	15136											
EGR2	1959	broad.mit.edu	37	chr10	64573060	64573060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtacccccaggctgcacGcccccagagcaggaggctgt	8	4	14	15	1	0	1	0	0	0	1	0	2	0	2	4	4	3	5	4	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:64573060G>A	uc010qim.1	-	3	1492	c.1338C>T	c.(1336-1338)GGC>GGT	p.G446G	EGR2_uc010qin.1_Silent_p.G396G|EGR2_uc001jmi.2_Silent_p.G446G|EGR2_uc010qio.1_Silent_p.G459G|EGR2_uc009xph.2_Silent_p.G446G	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	446					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					CAGGCTGCACGCCCCCAGAGC	0.642													36	57					0	0	0.004289	0	0		A	64573060	A	A	64573060	2	1	19	1	0	0	0	0	0	0	0	1	4978	1074	38	1		1	EGR2	10	64573060	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	158412	64573060	70961687	1624	15137											
JMJD1C	221037	broad.mit.edu	37	chr10	64966934	64966934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaggttcagtctcactggCattactacttttatactgag	10	16	7	8	0	2	1	2	1	1	0	3	1	2	1	0	2	3	2	0	2	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:64966934C>T	uc001jmn.2	-	10	4795	c.4495G>A	c.(4495-4497)GCC>ACC	p.A1499T	JMJD1C_uc001jml.2_Missense_Mutation_p.A1280T|JMJD1C_uc001jmm.2_Missense_Mutation_p.A1211T|JMJD1C_uc010qiq.1_Missense_Mutation_p.A1317T|JMJD1C_uc009xpi.2_Missense_Mutation_p.A1317T|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Missense_Mutation_p.A536T	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1499					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					GTCTCACTGGCATTACTACTT	0.403													45	93					0	0	0.009718	0	0		T	64966934	T	T	64966934	3	4	19	1	0	0	0	0	1	0	0	0	7966	710	25	2	3195	2	JMJD1C	10	64966934	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	393874	64966934	70567813	1625	15138											
JMJD1C	221037	broad.mit.edu	37	chr10	65140188	65140188	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagttgaaaaatcttcatAaactttaacccactctcgtt	15	13	4	9	1	3	1	1	1	2	0	4	2	3	1	1	0	2	2	1	0	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:65140188A>G	uc001jmn.2	-	2	523	c.223T>C	c.(223-225)TAT>CAT	p.Y75H	JMJD1C_uc009xpi.2_5'UTR|JMJD1C_uc001jmr.1_Missense_Mutation_p.Y75H	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	75					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					AAATCTTCATAAACTTTAACC	0.368													5	83					0	0	0.000602	0	0		G	65140188	G	G	65140188	3	3	19	1	0	0	0	0	1	0	0	0	7966	362	13	3	7499	3	JMJD1C	10	65140188	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	173254	65140188	70394559	1626	15139											
HERC4	26091	broad.mit.edu	37	chr10	69682730	69682730	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtgatcaatagcttggatCagtttagagcgtagagtttc	10	15	11	5	1	2	3	2	1	0	2	3	4	2	4	0	1	2	4	0	1	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:69682730C>T	uc001jng.3	-	26	3443	c.3132G>A	c.(3130-3132)CTG>CTA	p.L1044L	HERC4_uc009xpq.2_Silent_p.L576L|HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Silent_p.L1036L|HERC4_uc009xpr.2_Silent_p.L966L|HERC4_uc001jni.3_Silent_p.L780L	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	1044	HECT.				cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						TAGCTTGGATCAGTTTAGAGC	0.348													5	165					0	0	0.001984	0	0		T	69682730	T	T	69682730	2	4	19	1	0	0	0	0	0	0	0	1	7076	813	29	4		4	HERC4	10	69682730	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4542542	69682730	65852017	1627	15140											
DNA2	1763	broad.mit.edu	37	chr10	70192211	70192211	+	Frame_Shift_Del	DEL	T	-	-																															atggggtatctatatcacaaTttttttcttcttggtctaat																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:70192211delT	uc001jof.2	-	11	1961	c.1961delA	c.(1960-1962)AATfs	p.N654fs	DNA2_uc001jog.1_Frame_Shift_Del_p.N568fs|DNA2_uc001joh.1_RNA	NM_001080449	NP_001073918	P51530	DNA2L_HUMAN	DNA replication helicase 2 homolog	568					base-excision repair|DNA replication, removal of RNA primer|mitochondrial DNA repair|mitochondrial DNA replication|positive regulation of DNA replication|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	mitochondrial nucleoid|nucleoplasm	5'-flap endonuclease activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|site-specific endodeoxyribonuclease activity, specific for altered base				0						TATATCACAATTTTTTTCTTC	0.338													8	15	---	---	---	---						.	-	70192211	-	-	70192211	7	5	19	1	0	1	0	1	0	0	0	0	4602	1493	52	0	1523	0	DNA2	10	70192211	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	509481	70192211	65342536	1628	15141											
DNA2	1763	broad.mit.edu	37	chr10	70231557	70231557	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctccgctcacagctccgccGgcagctccgcctcctcccaa	5	7	7	22	4	2	0	1	0	1	0	7	0	6	0	7	1	2	4	7	1	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:70231557G>T	uc001jof.2	-	1	323	c.323C>A	c.(322-324)CCG>CAG	p.P108Q	DNA2_uc001jog.1_Missense_Mutation_p.P22Q|DNA2_uc001joh.1_RNA	NM_001080449	NP_001073918	P51530	DNA2L_HUMAN	DNA replication helicase 2 homolog	22					base-excision repair|DNA replication, removal of RNA primer|mitochondrial DNA repair|mitochondrial DNA replication|positive regulation of DNA replication|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	mitochondrial nucleoid|nucleoplasm	5'-flap endonuclease activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|site-specific endodeoxyribonuclease activity, specific for altered base				0						CAGCTCCGCCGGCAGCTCCGC	0.607													12	17					0.000151284	0.000154858	0.001855	1	0		T	70231557	T	T	70231557	3	4	19	1	0	0	0	0	1	0	0	0	4602	1116	39	5	3201	5	DNA2	10	70231557	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	39346	70231557	65303190	1629	15142											
TET1	80312	broad.mit.edu	37	chr10	70406352	70406352	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taattctcaggtacagttaaCggtgaatgccaatcagaaag	15	10	9	7	1	2	2	2	1	1	1	3	2	2	2	1	2	3	2	1	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:70406352C>T	uc001jok.3	+	4	4371	c.3866C>T	c.(3865-3867)ACG>ATG	p.T1289M		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1289					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						GTACAGTTAACGGTGAATGCC	0.453													37	95					0	0	0.004878	0	0		T	70406352	T	T	70406352	3	4	19	1	0	0	0	0	1	0	0	0	15794	536	19	1	3876	1	TET1	10	70406352	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	174795	70406352	65128395	1630	15143											
STOX1	219736	broad.mit.edu	37	chr10	70644585	70644585	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgaagaatggcccgtcCgagatgaagatgacttggac	12	7	12	10	2	0	6	0	3	0	3	1	8	1	7	3	2	0	0	3	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:70644585C>T	uc001jos.2	+	3	1120	c.1033C>T	c.(1033-1035)CGA>TGA	p.R345*	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Nonsense_Mutation_p.R235*	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	345						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						ATGGCCCGTCCGAGATGAAGA	0.423													52	108					0	0	0.01441	0	0		T	70644585	T	T	70644585	4	4	19	1	0	0	0	0	0	1	0	0	15344	644	23	1	1043	1	STOX1	10	70644585	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	238233	70644585	64890162	1631	15144											
VPS26A	9559	broad.mit.edu	37	chr10	70930940	70930940	+	Frame_Shift_Del	DEL	A	-	-																															tttatggagaaaagctcctgAaaaactgaggaaacagagaa																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:70930940delA	uc001jpb.2	+	9	1025	c.899delA	c.(898-900)GAAfs	p.E300fs	VPS26A_uc001jpc.2_Frame_Shift_Del_p.*252fs|VPS26A_uc009xqa.2_Frame_Shift_Del_p.E293fs|VPS26A_uc001jpd.2_Frame_Shift_Del_p.E189fs	NM_004896	NP_004887	O75436	VP26A_HUMAN	vacuolar protein sorting 26 A isoform 1	300					retrograde transport, endosome to Golgi|vacuolar transport	cytosol|endosome membrane|retromer complex|vesicle	protein binding|protein transporter activity				0						AAAGCTCCTGAAAAACTGAGG	0.368													31	68	---	---	---	---						.	-	70930940	-	-	70930940	7	5	19	1	0	1	0	1	0	0	0	0	17223	259	9	0	933	0	VPS26A	10	70930940	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	286355	70930940	64603807	1632	15145											
HKDC1	80201	broad.mit.edu	37	chr10	71018574	71018574	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggaggacatgaggaacaTcgagatggtggaggggggtg	11	6	20	4	1	0	2	0	1	0	1	1	7	0	6	0	8	1	0	0	8	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:71018574T>C	uc001jpf.3	+	15	2208	c.2075T>C	c.(2074-2076)ATC>ACC	p.I692T	HKDC1_uc010qje.1_Missense_Mutation_p.I555T|HKDC1_uc009xqb.2_RNA	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	692					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						ATGAGGAACATCGAGATGGTG	0.468													5	98					0	0	0.001168	0	0		C	71018574	C	C	71018574	3	2	19	1	0	0	0	0	1	0	0	0	7209	1435	50	3	2133	3	HKDC1	10	71018574	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	87634	71018574	64516173	1633	15146											
COL13A1	1305	broad.mit.edu	37	chr10	71562400	71562400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcaggcccgggtgctgcGcctggaagcggagcgcgggg	4	4	21	12	5	0	0	0	0	0	0	0	2	0	2	2	6	5	3	2	6	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:71562400G>A	uc001jpr.1	+	1	757	c.221G>A	c.(220-222)CGC>CAC	p.R74H	COL13A1_uc001jqj.1_Missense_Mutation_p.R74H|COL13A1_uc001jps.1_Missense_Mutation_p.R74H|COL13A1_uc001jpt.1_Missense_Mutation_p.R74H|COL13A1_uc001jpu.1_Missense_Mutation_p.R74H|COL13A1_uc001jpv.1_Missense_Mutation_p.R74H|COL13A1_uc001jpx.1_Missense_Mutation_p.R74H|COL13A1_uc001jpw.1_Missense_Mutation_p.R74H|COL13A1_uc001jpy.1_Missense_Mutation_p.R74H|COL13A1_uc001jpz.1_Missense_Mutation_p.R74H|COL13A1_uc001jqa.1_Missense_Mutation_p.R74H|COL13A1_uc001jqc.1_Missense_Mutation_p.R74H|COL13A1_uc001jqb.1_Missense_Mutation_p.R74H|COL13A1_uc001jql.2_Missense_Mutation_p.R74H|COL13A1_uc001jqd.1_Missense_Mutation_p.R74H|COL13A1_uc001jqe.1_Missense_Mutation_p.R74H|COL13A1_uc001jqf.1_Missense_Mutation_p.R74H|COL13A1_uc001jqg.1_Missense_Mutation_p.R74H|COL13A1_uc001jqh.1_Missense_Mutation_p.R74H|COL13A1_uc001jqi.1_Missense_Mutation_p.R74H	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	74	Extracellular (Potential).|Nonhelical region 1 (NC1).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	CGGGTGCTGCGCCTGGAAGCG	0.637													40	122					0	0	0.013114	0	0		A	71562400	A	A	71562400	3	1	19	1	0	0	0	0	1	0	0	0	3673	1087	38	1	223	1	COL13A1	10	71562400	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	543826	71562400	63972347	1634	15147											
SGPL1	8879	broad.mit.edu	37	chr10	72628142	72628142	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcatactgatggcctgcaAagcatatcgggatctggcct	11	9	11	10	1	1	1	0	1	1	0	2	2	1	2	2	3	4	3	2	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:72628142A>G	uc001jrm.2	+	8	878	c.656A>G	c.(655-657)AAA>AGA	p.K219R	SGPL1_uc009xqk.2_5'Flank	NM_003901	NP_003892	O95470	SGPL1_HUMAN	sphingosine-1-phosphate lyase 1	219	Cytoplasmic (Potential).				apoptosis|carboxylic acid metabolic process|ceramide metabolic process|sphingolipid catabolic process	integral to endoplasmic reticulum membrane	carboxy-lyase activity|pyridoxal phosphate binding|sphinganine-1-phosphate aldolase activity				0					Pyridoxal Phosphate(DB00114)	ATGGCCTGCAAAGCATATCGG	0.478													19	146					0	0	0.012319	0	0		G	72628142	G	G	72628142	3	3	19	1	0	0	0	0	1	0	0	0	14243	14	1	3	682	3	SGPL1	10	72628142	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1065742	72628142	62906605	1635	15148											
CDH23	64072	broad.mit.edu	37	chr10	73464824	73464824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatcgcggagtaccagctgCgggtggtggccagtgatgca	7	7	17	10	3	0	1	0	1	0	0	1	2	0	2	2	4	4	4	2	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:73464824C>T	uc001jrx.3	+	24	3267	c.2890C>T	c.(2890-2892)CGG>TGG	p.R964W	CDH23_uc001jry.2_Missense_Mutation_p.R580W|CDH23_uc001jrz.2_Missense_Mutation_p.R580W	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	964	Cadherin 9.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GTACCAGCTGCGGGTGGTGGC	0.667													18	35					0	0	0.00333	0	0		T	73464824	T	T	73464824	3	4	19	1	0	0	0	0	1	0	0	0	3111	759	27	1	3211	1	CDH23	10	73464824	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	836682	73464824	62069923	1636	15149											
CCDC109A	90550	broad.mit.edu	37	chr10	74631136	74631136	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattatgtgtgcccaataggTacgaattgagattagcagaa	14	11	11	5	1	0	2	0	1	0	2	0	5	0	2	1	1	3	2	1	1	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:74631136T>C	uc001jtc.2	+	6	680	c.659T>C	c.(658-660)GTA>GCA	p.V220A	CCDC109A_uc009xqp.1_RNA|CCDC109A_uc009xqq.1_RNA|CCDC109A_uc010qjy.1_RNA|CCDC109A_uc009xqr.2_Missense_Mutation_p.V199A|CCDC109A_uc001jtd.2_Missense_Mutation_p.V171A	NM_138357	NP_612366	Q8NE86	MCU_HUMAN	coiled-coil domain containing 109A	220	Potential.|Mitochondrial matrix (Potential).				elevation of mitochondrial calcium ion concentration|mitochondrial calcium ion transport|protein complex oligomerization	integral to membrane|mitochondrial inner membrane	protein binding				0	Prostate(51;0.0198)					GCCCAATAGGTACGAATTGAG	0.428													8	345					0	0	0.006214	0	0		C	74631136	C	C	74631136	3	2	19	1	0	0	0	0	1	0	0	0	2747	1652	57	3	681	3	CCDC109A	10	74631136	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1166312	74631136	60903611	1637	15150											
KIAA0913	23053	broad.mit.edu	37	chr10	75554018	75554018	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaacttcgggaggggacActctgtgactatcggcctgt	8	9	15	9	2	1	1	0	1	1	0	3	5	1	4	1	5	1	0	1	5	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:75554018A>G	uc009xrl.2	+	13	2771	c.2739A>G	c.(2737-2739)ACA>ACG	p.T913T	KIAA0913_uc001jve.2_Silent_p.T913T|KIAA0913_uc001jvf.2_Silent_p.T913T|KIAA0913_uc001jvh.2_RNA|KIAA0913_uc001jvi.2_Silent_p.T336T|KIAA0913_uc010qkr.1_Silent_p.T336T|KIAA0913_uc001jvj.2_Silent_p.T336T	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	913							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					GGGAGGGGACACTCTGTGACT	0.567													60	109					0	0	0.01441	0	0		G	75554018	G	G	75554018	2	3	19	1	0	0	0	0	0	0	0	1	8216	146	6	3		3	KIAA0913	10	75554018	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	922882	75554018	59980729	1638	15151											
KIAA0913	23053	broad.mit.edu	37	chr10	75557598	75557598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaatcagccatcagaggCagctgcacacttctacttcg	11	8	7	15	1	3	1	2	0	1	1	4	1	3	1	2	1	4	3	2	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:75557598C>T	uc009xrl.2	+	19	3739	c.3707C>T	c.(3706-3708)GCA>GTA	p.A1236V	KIAA0913_uc001jve.2_Missense_Mutation_p.A1241V|KIAA0913_uc001jvf.2_Missense_Mutation_p.A1236V|KIAA0913_uc001jvh.2_Intron|KIAA0913_uc001jvi.2_Missense_Mutation_p.A671V|KIAA0913_uc010qkr.1_Missense_Mutation_p.A659V|KIAA0913_uc001jvj.2_Missense_Mutation_p.A659V|KIAA0913_uc009xrn.1_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	1236							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					CCATCAGAGGCAGCTGCACAC	0.587													13	20					0	0	0.003163	0	0		T	75557598	T	T	75557598	3	4	19	1	0	0	0	0	1	0	0	0	8216	710	25	2	3796	2	KIAA0913	10	75557598	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3580	75557598	59977149	1639	15152											
CAMK2G	818	broad.mit.edu	37	chr10	75576611	75576611	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcagggccttcaaaggTgcctgtctacaaccatcggg	10	7	13	11	1	2	0	1	0	1	0	3	1	2	1	3	4	4	1	3	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:75576611T>C	uc001jvv.1	-	19	1708	c.1584A>G	c.(1582-1584)GCA>GCG	p.A528A	CAMK2G_uc001jvm.1_Intron|CAMK2G_uc001jvo.1_Intron|CAMK2G_uc001jvq.1_Intron|CAMK2G_uc001jvr.1_Intron|CAMK2G_uc001jvp.1_Intron|CAMK2G_uc001jvs.1_Intron|CAMK2G_uc001jvt.1_Intron|CAMK2G_uc001jvu.1_Intron|CAMK2G_uc009xrp.1_Intron	NM_172171	NP_751911	Q13555	KCC2G_HUMAN	calcium/calmodulin-dependent protein kinase II	Error:Variant_position_missing_in_Q13555_after_alignment					insulin secretion|interferon-gamma-mediated signaling pathway|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calcium-dependent protein serine/threonine phosphatase activity|calmodulin binding|calmodulin-dependent protein kinase activity			lung(1)|stomach(1)	2	Prostate(51;0.0112)					CCTTCAAAGGTGCCTGTCTAC	0.502													4	12					0	0	0.009096	0	0		C	75576611	C	C	75576611	2	2	19	1	0	0	0	0	0	0	0	1	2605	1711	59	3		3	CAMK2G	10	75576611	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	19013	75576611	59958136	1640	15153											
CAMK2G	818	broad.mit.edu	37	chr10	75609032	75609032	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtaccttcaggtccctgTggacgatgtcatgctggtgg	6	12	14	9	1	2	0	2	0	0	0	3	2	3	1	2	4	2	3	2	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:75609032T>C	uc001jvv.1	-	6	501	c.377A>G	c.(376-378)CAC>CGC	p.H126R	CAMK2G_uc001jvm.1_Missense_Mutation_p.H134R|CAMK2G_uc001jvo.1_Missense_Mutation_p.H134R|CAMK2G_uc001jvq.1_Missense_Mutation_p.H134R|CAMK2G_uc001jvr.1_Missense_Mutation_p.H134R|CAMK2G_uc001jvp.1_Missense_Mutation_p.H134R|CAMK2G_uc001jvs.1_Missense_Mutation_p.H134R|CAMK2G_uc001jvt.1_RNA|CAMK2G_uc001jvu.1_Missense_Mutation_p.H112R|CAMK2G_uc010qkv.1_Intron	NM_172171	NP_751911	Q13555	KCC2G_HUMAN	calcium/calmodulin-dependent protein kinase II	134	Protein kinase.				insulin secretion|interferon-gamma-mediated signaling pathway|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calcium-dependent protein serine/threonine phosphatase activity|calmodulin binding|calmodulin-dependent protein kinase activity			lung(1)|stomach(1)	2	Prostate(51;0.0112)					CAGGTCCCTGTGGACGATGTC	0.512											OREG0020267	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	31					0	0	0.006214	0	0		C	75609032	C	C	75609032	3	2	19	1	0	0	0	0	1	0	0	0	2605	1696	59	3	1433	3	CAMK2G	10	75609032	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	32421	75609032	59925715	1641	15154											
AP3M1	26985	broad.mit.edu	37	chr10	75897994	75897994	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagtggtgaggtgttgaaatGacaggtggtacattttcaac	11	13	13	4	0	1	3	1	3	0	0	1	3	1	3	0	4	2	2	0	4	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:75897994G>A	uc001jwf.2	-	2	574	c.144C>T	c.(142-144)GTC>GTT	p.V48V	AP3M1_uc001jwg.2_Silent_p.V48V|AP3M1_uc001jwh.2_Silent_p.V48V|AP3M1_uc010qla.1_Silent_p.V48V	NM_207012	NP_996895	Q9Y2T2	AP3M1_HUMAN	adaptor-related protein complex 3, mu 1 subunit	48					protein targeting to lysosome|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus|lysosome	protein binding				0	Prostate(51;0.0112)					GTGTTGAAATGACAGGTGGTA	0.433													10	143					0	0	0.006214	0	0		A	75897994	A	A	75897994	2	1	19	1	0	0	0	0	0	0	0	1	747	1277	45	4		4	AP3M1	10	75897994	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	288962	75897994	59636753	1642	15155											
MYST4	23522	broad.mit.edu	37	chr10	76789593	76789593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acagtggatttagtgacctgGgcagtatcgagagcacaact	12	9	12	8	1	0	2	0	1	0	1	1	4	0	3	1	2	2	3	1	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:76789593G>A	uc001jwn.1	+	18	5504	c.5011G>A	c.(5011-5013)GGC>AGC	p.G1671S	MYST4_uc001jwo.1_Missense_Mutation_p.G1379S|MYST4_uc001jwp.1_Missense_Mutation_p.G1488S	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1671	Ser-rich.|Interaction with RUNX1 and RUNX2.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					TAGTGACCTGGGCAGTATCGA	0.488			T	CREBBP	AML								37	77					0	0	0.004878	0	0		A	76789593	A	A	76789593	3	1	19	1	0	0	0	0	1	0	0	0	10123	1232	43	4	5073	4	MYST4	10	76789593	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	891599	76789593	58745154	1643	15156											
DUPD1	338599	broad.mit.edu	37	chr10	76797754	76797754	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggcgtccaccagggtcAtgtccttgtggatcatcagg	7	10	14	10	1	3	0	3	0	0	0	5	2	5	2	3	5	0	0	3	5	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:76797754A>G	uc001jwq.1	-	3	503	c.503T>C	c.(502-504)ATG>ACG	p.M168T		NM_001003892	NP_001003892	Q68J44	DUPD1_HUMAN	dual specificity phosphatase and pro isomerase	168	Tyrosine-protein phosphatase.					cytoplasm	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)	2	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					CACCAGGGTCATGTCCTTGTG	0.622													4	76					0	0	0.000602	0	0		G	76797754	G	G	76797754	3	3	19	1	0	0	0	0	1	0	0	0	4810	217	8	3	163	3	DUPD1	10	76797754	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	8161	76797754	58736993	1644	15157											
DUPD1	338599	broad.mit.edu	37	chr10	76818210	76818210	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcctcctccatcttcggCgacagcctcttggcagatga	6	11	8	16	2	2	2	0	1	2	1	6	3	5	2	5	2	1	1	5	2	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:76818210C>T	uc001jwq.1	-	1	63	c.63G>A	c.(61-63)TCG>TCA	p.S21S		NM_001003892	NP_001003892	Q68J44	DUPD1_HUMAN	dual specificity phosphatase and pro isomerase	21						cytoplasm	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)	2	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					CCATCTTCGGCGACAGCCTCT	0.557													31	56					0	0	0.007835	0	0		T	76818210	T	T	76818210	2	4	19	1	0	0	0	0	0	0	0	1	4810	755	27	1		1	DUPD1	10	76818210	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	20456	76818210	58716537	1645	15158											
POLR3A	11128	broad.mit.edu	37	chr10	79745739	79745739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccagctggtacagcacaCggggctgggagaatacaagc	11	5	15	10	1	0	1	0	0	0	1	1	2	1	1	1	5	5	4	1	5	4	2	rs139665002	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:79745739C>T	uc001jzn.2	-	23	3087	c.2993G>A	c.(2992-2994)CGT>CAT	p.R998H		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	998					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			GTACAGCACACGGGGCTGGGA	0.527													34	81					0	0	0.004289	0	0		T	79745739	T	T	79745739	3	4	19	1	0	0	0	0	1	0	0	0	12247	536	19	1	1215	1	POLR3A	10	79745739	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2927529	79745739	55789008	1646	15159											
ZMIZ1	57178	broad.mit.edu	37	chr10	81050715	81050715	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaccacttctctgcccacaGgtccttgggaaccctatggc	8	9	8	16	0	1	0	0	0	1	0	3	1	2	1	4	3	3	0	4	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:81050715G>T	uc001kaf.2	+	10	1113	c.541_splice	c.e10-1	p.V181_splice	ZMIZ1_uc001kag.2_Splice_Site_p.V57_splice|ZMIZ1_uc001kah.1_Splice_Site_p.V57_splice	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17						transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			TCTGCCCACAGGTCCTTGGGA	0.567													39	62					1.62957e-23	1.73745e-23	0.00874	1	0		T	81050715	T	T	81050715	5	4	19	1	0	0	0	0	0	0	1	0	17721	1014	35	5	562	5	ZMIZ1	10	81050715	Splice_Site	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1304976	81050715	54484032	1647	15160											
ZMIZ1	57178	broad.mit.edu	37	chr10	81058191	81058191	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccggttcctgtggcaaattAcccccactcacctgttccag	7	10	8	16	1	1	0	1	0	0	0	3	0	3	0	6	2	1	3	6	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:81058191A>G	uc001kaf.2	+	15	2092	c.1520A>G	c.(1519-1521)TAC>TGC	p.Y507C	ZMIZ1_uc001kag.2_Missense_Mutation_p.Y383C	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	507	Pro-rich.				transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			GTGGCAAATTACCCCCACTCA	0.587													109	238					0	0	0.01441	0	0		G	81058191	G	G	81058191	3	3	19	1	0	0	0	0	1	0	0	0	17721	391	14	3	1562	3	ZMIZ1	10	81058191	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	7476	81058191	54476556	1648	15161											
C10orf57	80195	broad.mit.edu	37	chr10	81841641	81841641	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcccttatcagaaccttggGcccctgggccccttcactca	7	10	7	17	0	3	1	3	0	0	1	4	1	4	1	6	2	1	0	6	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:81841641G>A	uc001kbl.2	+	2	162	c.132G>A	c.(130-132)GGG>GGA	p.G44G	LOC219347_uc001kbk.2_5'Flank|LOC219347_uc001kbi.3_5'Flank|LOC219347_uc009xsk.2_5'Flank|LOC219347_uc009xsl.2_5'Flank|LOC219347_uc009xsm.2_5'Flank|LOC219347_uc001kbj.3_5'Flank|C10orf57_uc009xsn.2_Missense_Mutation_p.G76D|C10orf57_uc010qlv.1_Silent_p.G68G|C10orf57_uc010qlw.1_Silent_p.G68G|C10orf57_uc001kbn.3_RNA|C10orf57_uc009xsp.2_RNA|C10orf57_uc001kbo.3_RNA	NM_025125	NP_079401	Q8TBM7	CJ057_HUMAN	hypothetical protein LOC80195	44						integral to membrane					0	Prostate(51;0.0095)|all_epithelial(25;0.175)		Epithelial(14;0.0793)|Colorectal(32;0.109)|all cancers(16;0.154)			AGAACCTTGGGCCCCTGGGCC	0.507													105	155					0	0	0.01441	0	0		A	81841641	A	A	81841641	2	1	19	1	0	0	0	0	0	0	0	1	1612	1190	42	2		2	C10orf57	10	81841641	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	783450	81841641	53693106	1649	15162											
LRIT1	26103	broad.mit.edu	37	chr10	86001144	86001144	+	Frame_Shift_Del	DEL	G	-	-																															ggggcagaagccccgggcctGggggggccacgcaagggcca																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:86001144delG	uc001kcz.1	-	1	74	c.52delC	c.(52-54)CAGfs	p.Q18fs		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	18						integral to endoplasmic reticulum membrane					0						CCCCGGGCCTGGGGGGGCCAC	0.672													18	32	---	---	---	---						.	-	86001144	-	-	86001144	7	5	19	1	0	1	0	1	0	0	0	0	8965	1357	47	0	1835	0	LRIT1	10	86001144	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	4159503	86001144	49533603	1650	15163											
BMPR1A	657	broad.mit.edu	37	chr10	88677075	88677075	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgctaatgcgccatgaaaAcatacttggtgggtacacac	12	10	10	9	1	0	1	0	1	0	0	0	1	0	1	1	2	5	2	1	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:88677075A>G	uc001kdy.2	+	9	1408	c.860A>G	c.(859-861)AAC>AGC	p.N287S		NM_004329	NP_004320	P36894	BMR1A_HUMAN	bone morphogenetic protein receptor, type IA	287	Cytoplasmic (Potential).|Protein kinase.				BMP signaling pathway|immune response|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	integral to membrane|plasma membrane	ATP binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta receptor activity			lung(3)|large_intestine(1)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	8						CGCCATGAAAACATACTTGGT	0.433			Mis|N|F			gastrointestinal polyps			Hereditary_Mixed_Polyposis_syndrome_type_2|Juvenile_Polyposis				5	38					0	0	0.001168	0	0		G	88677075	G	G	88677075	3	3	19	1	0	0	0	0	1	0	0	0	1470	43	2	3	886	3	BMPR1A	10	88677075	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2675931	88677075	46857672	1651	15164											
AGAP11	119385	broad.mit.edu	37	chr10	88768861	88768861	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtccgtcactggccaaacGtgccactttaaagccacgac	10	8	9	14	3	1	0	1	0	0	0	2	1	2	0	4	1	3	0	4	1	3	2	rs17096676	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:88768861G>A	uc001kee.2	+	12	2056	c.852G>A	c.(850-852)ACG>ACA	p.T284T	AGAP11_uc001kef.2_Intron	NM_133447	NP_597704	Q8TF27	AGA11_HUMAN	ankyrin repeat and GTPase domain Arf GTPase	284	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						CTGGCCAAACGTGCCACTTTA	0.498													103	186					0	0	0.01441	0	0		A	88768861	A	A	88768861	2	1	19	1	0	0	0	0	0	0	0	1	367	1132	40	1		1	AGAP11	10	88768861	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	91786	88768861	46765886	1652	15165											
MINPP1	9562	broad.mit.edu	37	chr10	89265036	89265036	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggatggcggggctagtagtAccggcagccgcgacctgggt	6	6	19	10	4	0	0	0	0	0	0	0	2	0	1	3	6	2	4	3	6	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:89265036A>G	uc001keu.2	+	1	814	c.364A>G	c.(364-366)ACC>GCC	p.T122A	MINPP1_uc009xtf.1_RNA|MINPP1_uc001kev.2_Missense_Mutation_p.T122A	NM_004897	NP_004888	Q9UNW1	MINP1_HUMAN	multiple inositol polyphosphate histidine	122					bone mineralization|polyphosphate metabolic process	endoplasmic reticulum lumen	acid phosphatase activity|bisphosphoglycerate 3-phosphatase activity|multiple inositol-polyphosphate phosphatase activity|phosphohistidine phosphatase activity			urinary_tract(1)	1		Colorectal(252;0.122)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00123)		GGCTAGTAGTACCGGCAGCCG	0.672											OREG0020348	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	2	2					0	0	0.006214	0	0		G	89265036	G	G	89265036	3	3	19	1	0	0	0	0	1	0	0	0	9606	391	14	3	366	3	MINPP1	10	89265036	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	496175	89265036	46269711	1653	15166											
RNLS	55328	broad.mit.edu	37	chr10	90122340	90122340	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcttattatcaatggagacGaagcgtatgcagggattact	12	13	10	6	2	2	1	1	0	1	1	2	4	2	2	0	2	3	2	0	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:90122340G>A	uc001kfe.2	-	5	804	c.669C>T	c.(667-669)TTC>TTT	p.F223F	RNLS_uc010qms.1_Silent_p.F140F|RNLS_uc001kfd.2_Silent_p.F223F|RNLS_uc009xtj.2_Silent_p.F55F	NM_001031709	NP_001026879	Q5VYX0	RNLS_HUMAN	renalase isoform 1	223						extracellular region	oxidoreductase activity			ovary(1)	1						CAATGGAGACGAAGCGTATGC	0.438													37	87					0	0	0.00874	0	0		A	90122340	A	A	90122340	2	1	19	1	0	0	0	0	0	0	0	1	13530	1049	37	1		1	RNLS	10	90122340	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	857304	90122340	45412407	1654	15167											
LIPK	643414	broad.mit.edu	37	chr10	90492016	90492016	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacagaagcgactctactaCgtgggccactcacaaggcac	12	5	11	13	2	2	1	1	0	1	1	2	3	2	2	1	3	3	1	1	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:90492016C>T	uc010qmv.1	+	4	504	c.504C>T	c.(502-504)TAC>TAT	p.Y168Y		NM_001080518	NP_001073987	Q5VXJ0	LIPK_HUMAN	lipase, family member K precursor	168					lipid catabolic process	extracellular region	hydrolase activity	p.Y168Y(1)		ovary(2)	2		Colorectal(252;0.0381)		Colorectal(12;7.03e-05)|COAD - Colon adenocarcinoma(12;8.33e-05)		GACTCTACTACGTGGGCCACT	0.428													52	89					0	0	0.01441	0	0		T	90492016	T	T	90492016	2	4	19	1	0	0	0	0	0	0	0	1	8844	547	19	1		1	LIPK	10	90492016	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	369676	90492016	45042731	1655	15168											
IFIT2	3433	broad.mit.edu	37	chr10	91066703	91066703	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaagctgatgaggccaaTgataatctcttccgtgtctg	12	11	10	8	1	2	4	0	3	2	1	4	4	3	4	2	1	1	1	2	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:91066703T>C	uc009xts.2	+	2	1165	c.990T>C	c.(988-990)AAT>AAC	p.N330N	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron	NM_001547	NP_001538	P09913	IFIT2_HUMAN	interferon-induced protein with	330					negative regulation of protein binding|response to virus|type I interferon-mediated signaling pathway		protein binding			ovary(1)|skin(1)	2		Colorectal(252;0.0161)				ATGAGGCCAATGATAATCTCT	0.413													5	78					0	0	0.001168	0	0		C	91066703	C	C	91066703	2	2	19	1	0	0	0	0	0	0	0	1	7539	1461	51	3		3	IFIT2	10	91066703	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	574687	91066703	44468044	1656	15169											
HTR7	3363	broad.mit.edu	37	chr10	92617294	92617294	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcgctcagcaggtgcggCgcccaggagcccgcgaccgg	6	3	15	17	6	1	0	1	0	0	0	2	2	1	1	4	4	3	2	4	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:92617294C>T	uc001kha.2	-	1	378	c.135G>A	c.(133-135)GCG>GCA	p.A45A	HTR7_uc001kgz.2_Silent_p.A45A|HTR7_uc001khb.2_Silent_p.A45A	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	45	Extracellular (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	GCAGGTGCGGCGCCCAGGAGC	0.716													6	10					0	0	0.00308	0	0		T	92617294	T	T	92617294	2	4	19	1	0	0	0	0	0	0	0	1	7468	755	27	1		1	HTR7	10	92617294	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1550591	92617294	42917453	1657	15170											
TNKS2	80351	broad.mit.edu	37	chr10	93609348	93609348	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggatatatttgagagagaAcaggtgagtagataaatcat	17	11	11	2	0	1	4	1	2	0	3	1	7	1	5	0	2	1	1	0	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:93609348A>G	uc001khp.2	+	20	2988	c.2691A>G	c.(2689-2691)GAA>GAG	p.E897E		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	897	SAM.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				TTGAGAGAGAACAGGTGAGTA	0.338													7	94					0	0	0.00308	0	0		G	93609348	G	G	93609348	2	3	19	1	0	0	0	0	0	0	0	1	16346	40	2	3		3	TNKS2	10	93609348	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	992054	93609348	41925399	1658	15171											
IDE	3416	broad.mit.edu	37	chr10	94268556	94268556	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgaccaagataatgaccaGgatttgatttgtagtatttc	13	14	9	5	0	0	4	0	3	0	1	1	6	0	5	2	1	0	2	2	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:94268556G>T	uc001kia.2	-	7	1065	c.989C>A	c.(988-990)CCT>CAT	p.P330H		NM_004969	NP_004960	P14735	IDE_HUMAN	insulin-degrading enzyme isoform 1 precursor	330					beta-amyloid metabolic process|bradykinin catabolic process|interspecies interaction between organisms|sex differentiation	cell surface|extracellular space|soluble fraction	ATP binding|metalloendopeptidase activity|protein homodimerization activity|signal transducer activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3					Bacitracin(DB00626)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ATAATGACCAGGATTTGATTT	0.393													13	182					4.3838e-07	4.54099e-07	0.001855	1	0		T	94268556	T	T	94268556	3	4	19	1	0	0	0	0	1	0	0	0	7509	1000	35	5	2146	5	IDE	10	94268556	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	659208	94268556	41266191	1659	15172											
MYOF	26509	broad.mit.edu	37	chr10	95121229	95121229	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttctcatccaccgctcgaTttatgtcataagaccatgca	10	13	5	13	2	2	1	2	0	1	1	5	2	3	1	3	0	1	2	3	0	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:95121229T>C	uc001kin.2	-	28	3077	c.2954A>G	c.(2953-2955)AAT>AGT	p.N985S	MYOF_uc001kio.2_Missense_Mutation_p.N972S|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	985	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						CACCGCTCGATTTATGTCATA	0.473													11	142					0	0	0.008291	0	0		C	95121229	C	C	95121229	3	2	19	1	0	0	0	0	1	0	0	0	10107	1493	52	3	3339	3	MYOF	10	95121229	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	852673	95121229	40413518	1660	15173											
PLCE1	51196	broad.mit.edu	37	chr10	95790955	95790955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagacgaagtggggagacttCtcataccatctcacaactga	13	8	9	11	1	2	3	2	1	2	2	4	5	2	3	1	2	2	0	1	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:95790955C>T	uc001kjk.2	+	2	786	c.152C>T	c.(151-153)TCT>TTT	p.S51F	PLCE1_uc010qnx.1_Missense_Mutation_p.S51F	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	51					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GGGGAGACTTCTCATACCATC	0.423													38	79					0	0	0.005524	0	0		T	95790955	T	T	95790955	3	4	19	1	0	0	0	0	1	0	0	0	12053	913	32	4	154	4	PLCE1	10	95790955	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	669726	95790955	39743792	1661	15174											
PLCE1	51196	broad.mit.edu	37	chr10	96039591	96039591	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttataatggtgggaatgccaAcccccgacctgccaataatg	12	9	9	11	1	0	0	0	0	0	0	0	2	0	1	5	2	3	0	5	2	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:96039591A>G	uc001kjk.2	+	20	5352	c.4718A>G	c.(4717-4719)AAC>AGC	p.N1573S	PLCE1_uc010qnx.1_Missense_Mutation_p.N1557S|PLCE1_uc001kjm.2_Missense_Mutation_p.N1265S|uc001kjo.1_RNA	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1573					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GGGAATGCCAACCCCCGACCT	0.413											OREG0020383	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	62					0	0	0.009096	0	0		G	96039591	G	G	96039591	3	3	19	1	0	0	0	0	1	0	0	0	12053	43	2	3	5078	3	PLCE1	10	96039591	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	248636	96039591	39495156	1662	15175											
NOC3L	64318	broad.mit.edu	37	chr10	96109868	96109868	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaccatttacagcaactcAccaattttgacatgtcattc	14	13	3	11	0	2	1	2	1	0	0	3	1	2	1	2	0	4	1	2	0	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:96109868A>G	uc001kjq.1	-	9	1216	c.1128_splice	c.e9+1	p.L376_splice	NOC3L_uc009xuk.1_Splice_Site_p.L161_splice	NM_022451	NP_071896	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog							nuclear speck|nucleolus	binding			ovary(1)	1		Colorectal(252;0.0897)				ACAGCAACTCACCAATTTTGA	0.299													14	137					0	0	0.003163	0	0		G	96109868	G	G	96109868	5	3	19	1	0	0	0	0	0	0	1	0	10533	173	6	3	1324	3	NOC3L	10	96109868	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	70277	96109868	39424879	1663	15176											
HELLS	3070	broad.mit.edu	37	chr10	96350527	96350527	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagaccctgttacacaagaAtttaaggtgaatactgttta	15	13	7	6	0	0	3	0	1	0	2	0	3	0	3	1	1	2	2	1	1	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:96350527A>G	uc001kjt.2	+	15	1866	c.1761A>G	c.(1759-1761)GAA>GAG	p.E587E	HELLS_uc001kjs.2_Silent_p.E571E|HELLS_uc009xul.2_Silent_p.E489E|HELLS_uc009xum.2_Silent_p.E457E|HELLS_uc009xun.2_Silent_p.E463E|HELLS_uc009xuo.2_Silent_p.E633E|HELLS_uc001kju.2_Silent_p.E226E|HELLS_uc009xup.2_RNA|HELLS_uc009xuq.2_Silent_p.E449E|HELLS_uc009xur.2_RNA	NM_018063	NP_060533	Q9NRZ9	HELLS_HUMAN	helicase, lymphoid-specific	587					cell division|centromeric heterochromatin formation|lymphocyte proliferation|maintenance of DNA methylation|methylation-dependent chromatin silencing|mitosis|transcription, DNA-dependent	centromeric heterochromatin|nucleus	ATP binding|DNA binding|helicase activity			ovary(1)|kidney(1)	2		Colorectal(252;0.0429)		all cancers(201;2.13e-05)		TTACACAAGAATTTAAGGTGA	0.259													30	48					0	0	0.009535	0	0		G	96350527	G	G	96350527	2	3	19	1	0	0	0	0	0	0	0	1	7062	98	4	3		3	HELLS	10	96350527	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	240659	96350527	39184220	1664	15177											
TLL2	7093	broad.mit.edu	37	chr10	98192586	98192586	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaagttccctccaatgacGtaggggatgactcctccagg	9	9	12	11	1	0	3	0	3	0	0	4	4	4	4	4	3	0	2	4	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:98192586G>A	uc001kml.1	-	4	724	c.498C>T	c.(496-498)TAC>TAT	p.Y166Y	TLL2_uc009xvf.1_Intron	NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	166	Metalloprotease (By similarity).				cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		CTCCAATGACGTAGGGGATGA	0.567													29	50					0	0	0.008361	0	0		A	98192586	A	A	98192586	2	1	19	1	0	0	0	0	0	0	0	1	15971	1140	40	1		1	TLL2	10	98192586	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1842059	98192586	37342161	1665	15178											
CRTAC1	55118	broad.mit.edu	37	chr10	99683046	99683046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtccacacaggccacagagCgtccggcaaagaggctggcc	10	4	13	14	2	0	2	0	0	0	2	2	2	2	2	4	4	1	2	4	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:99683046C>T	uc001kou.1	-	4	889	c.533G>A	c.(532-534)CGC>CAC	p.R178H	CRTAC1_uc001kov.2_Missense_Mutation_p.R167H|CRTAC1_uc001kot.1_5'UTR	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	178						proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		GGCCACAGAGCGTCCGGCAAA	0.592													16	32					0	0	0.008871	0	0		T	99683046	T	T	99683046	3	4	19	1	0	0	0	0	1	0	0	0	3899	768	27	1	1500	1	CRTAC1	10	99683046	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1490460	99683046	35851701	1666	15179											
C10orf28	27291	broad.mit.edu	37	chr10	99969347	99969347	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttggactctgaactcagTatgttaaatgggacaaaagt	13	14	9	5	0	2	1	1	1	1	0	2	3	2	3	0	2	1	2	0	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:99969347T>C	uc001kow.3	+	4	1771	c.1476T>C	c.(1474-1476)AGT>AGC	p.S492S	C10orf28_uc001kox.3_Silent_p.S492S|C10orf28_uc001koy.3_Silent_p.S492S|C10orf28_uc009xvx.2_Silent_p.S492S|C10orf28_uc009xvy.2_Intron|C10orf28_uc001koz.3_Intron	NM_014472	NP_055287	Q4KMY3	Q4KMY3_HUMAN	growth inhibition and differentiation related	492							nucleotide binding			large_intestine(1)|skin(1)	2		Colorectal(252;0.234)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)		CTGAACTCAGTATGTTAAATG	0.413													3	104					0	0	0.004672	0	0		C	99969347	C	C	99969347	2	2	19	1	0	0	0	0	0	0	0	1	1604	1635	57	3		3	C10orf28	10	99969347	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	286301	99969347	35565400	1667	15180											
COX15	1355	broad.mit.edu	37	chr10	101487291	101487291	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctttattaaatgccaaTctaccatcgagaggccagac	12	11	6	12	1	2	2	0	0	2	2	4	3	2	2	4	1	2	0	4	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:101487291T>A	uc001kqb.3	-	3	919	c.302A>T	c.(301-303)GAT>GTT	p.D101V	COX15_uc001kqc.3_Missense_Mutation_p.D101V|COX15_uc010qpj.1_5'UTR	NM_078470	NP_510870	Q7KZN9	COX15_HUMAN	COX15 homolog isoform 1	101					heme a biosynthetic process|respiratory chain complex IV assembly|respiratory gaseous exchange	integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;3.08e-10)|all cancers(201;2.43e-08)		TAAATGCCAATCTACCATCGA	0.403													40	95					0	0	0.010771	0	0		A	101487291	A	A	101487291	3	1	19	1	0	0	0	0	1	0	0	0	3767	1435	50	5	1028	5	COX15	10	101487291	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1517944	101487291	34047456	1668	15181											
PAX2	5076	broad.mit.edu	37	chr10	102566235	102566235	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattcccagagtggtgtggAcagtttgcggaagcacttgc	9	10	14	8	1	0	2	0	0	0	2	1	4	1	4	1	3	3	2	1	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:102566235A>G	uc001krk.3	+	7	1284	c.734A>G	c.(733-735)GAC>GGC	p.D245G	PAX2_uc001krl.3_Missense_Mutation_p.D222G|PAX2_uc001krm.3_Missense_Mutation_p.D245G|PAX2_uc001kro.3_Missense_Mutation_p.D222G|PAX2_uc001krn.3_Missense_Mutation_p.D222G|PAX2_uc010qps.1_Missense_Mutation_p.D221G|PAX2_uc001krp.1_Missense_Mutation_p.D218G	NM_003990	NP_003981	Q02962	PAX2_HUMAN	paired box protein 2 isoform e	245					anti-apoptosis|axonogenesis|brain morphogenesis|branching involved in ureteric bud morphogenesis|cell fate determination|cellular response to glucose stimulus|cellular response to hydrogen peroxide|cellular response to retinoic acid|cochlea development|glial cell differentiation|inner ear morphogenesis|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesodermal cell fate specification|mesonephros development|metanephric collecting duct development|metanephric distal convoluted tubule development|metanephric mesenchymal cell differentiation|metanephric nephron tubule formation|negative regulation of caspase activity|negative regulation of cytolysis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|negative regulation of reactive oxygen species metabolic process|negative regulation of transcription, DNA-dependent|nephric duct formation|neural tube closure|optic chiasma development|optic cup morphogenesis involved in camera-type eye development|optic nerve structural organization|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of metanephric glomerulus development|positive regulation of optic nerve formation|positive regulation of transcription from RNA polymerase II promoter|pronephric field specification|protein kinase B signaling cascade|reactive oxygen species metabolic process|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of metanephros size|retinal pigment epithelium development|stem cell differentiation|transcription from RNA polymerase II promoter|ureter maturation|vestibulocochlear nerve formation|visual perception	centriolar satellite|nucleus|protein complex|protein-DNA complex	core promoter proximal region sequence-specific DNA binding|superoxide-generating NADPH oxidase activity				0		Colorectal(252;0.234)		Epithelial(162;1.32e-08)|all cancers(201;7.32e-07)		AGTGGTGTGGACAGTTTGCGG	0.582													18	316					0	0	0.006122	0	0		G	102566235	G	G	102566235	3	3	19	1	0	0	0	0	1	0	0	0	11498	275	10	3	760	3	PAX2	10	102566235	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1078944	102566235	32968512	1669	15182											
FAM178A	55719	broad.mit.edu	37	chr10	102684471	102684471	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatcccaagccctgcagcAccttcagataaagccccttc	10	9	6	16	0	1	1	1	0	0	1	3	1	2	1	5	0	4	3	5	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:102684471A>G	uc001krt.3	+	5	2255	c.1713A>G	c.(1711-1713)GCA>GCG	p.A571A	FAM178A_uc001krr.1_Silent_p.A571A|FAM178A_uc001krs.2_Silent_p.A571A|FAM178A_uc001kru.1_Silent_p.A506A	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	571											0						GCCCTGCAGCACCTTCAGATA	0.478													40	105					0	0	0.009718	0	0		G	102684471	G	G	102684471	2	3	19	1	0	0	0	0	0	0	0	1	5514	146	6	3		3	FAM178A	10	102684471	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	118236	102684471	32850276	1670	15183											
LZTS2	84445	broad.mit.edu	37	chr10	102762542	102762542	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgccccctaggaaggctGtccctgtcaccagcttcacc	6	9	9	17	0	2	0	2	0	0	0	3	1	3	1	5	2	2	2	5	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:102762542G>T	uc001ksj.2	+	2	316	c.247G>T	c.(247-249)GTC>TTC	p.V83F	LZTS2_uc010qpw.1_Missense_Mutation_p.V83F|LZTS2_uc001ksk.2_Missense_Mutation_p.V83F|LZTS2_uc001ksl.2_Missense_Mutation_p.V83F|LZTS2_uc001ksm.2_RNA	NM_032429	NP_115805	Q9BRK4	LZTS2_HUMAN	leucine zipper, putative tumor suppressor 2	83	Required for centrosomal localization (By similarity).				cell division|mitosis|Wnt receptor signaling pathway	membrane|microtubule|microtubule organizing center				ovary(2)|large_intestine(1)|breast(1)	4				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		TAGGAAGGCTGTCCCTGTCAC	0.637													16	37					2.31682e-05	2.37824e-05	0.003163	1	0		T	102762542	T	T	102762542	3	4	19	1	0	0	0	0	1	0	0	0	9157	1377	48	5	249	5	LZTS2	10	102762542	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	78071	102762542	32772205	1671	15184											
TLX1	3195	broad.mit.edu	37	chr10	102891794	102891794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcctgccatgccgggcGtcaacaacctcactggcctc	6	8	10	17	2	2	0	2	0	0	0	3	0	2	0	5	2	5	0	5	2	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:102891794G>A	uc001ksw.2	+	1	734	c.496G>A	c.(496-498)GTC>ATC	p.V166I		NM_005521	NP_005512	P31314	TLX1_HUMAN	T-cell leukemia homeobox 1	166						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1				Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		CATGCCGGGCGTCAACAACCT	0.602			T	TRB@|TRD@	T-ALL								3	9					0	0	0.000602	0	0		A	102891794	A	A	102891794	3	1	19	1	0	0	0	0	1	0	0	0	15984	1145	40	1	498	1	TLX1	10	102891794	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	129252	102891794	32642953	1672	15185											
C10orf76	79591	broad.mit.edu	37	chr10	103717427	103717427	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataagggctaatgtaaaaaTgttgtgtttggccaaaagta	15	12	10	4	0	0	0	0	0	0	0	0	0	0	0	1	2	0	5	1	2	8	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:103717427T>A	uc009xwy.1	-	21	1660	c.1558A>T	c.(1558-1560)ATT>TTT	p.I520F	C10orf76_uc009xwx.1_RNA	NM_024541	NP_078817	Q5T2E6	CJ076_HUMAN	hypothetical protein LOC79591	520	Helical; (Potential).					integral to membrane					0		Colorectal(252;0.123)		Epithelial(162;2.41e-08)|all cancers(201;6.41e-07)		AATGTAAAAATGTTGTGTTTG	0.343													4	20					0	0	0.009096	0	0		A	103717427	A	A	103717427	3	1	19	1	0	0	0	0	1	0	0	0	1619	1464	51	5	535	5	C10orf76	10	103717427	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	825633	103717427	31817320	1673	15186											
PPRC1	23082	broad.mit.edu	37	chr10	103899979	103899979	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaaaccaatcctataccaAcccatctctcattggtcgac	12	10	3	16	1	2	0	1	0	1	0	6	1	4	0	5	1	3	0	5	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:103899979A>G	uc001kum.2	+	5	1753	c.1714A>G	c.(1714-1716)ACC>GCC	p.T572A	PPRC1_uc001kun.2_Missense_Mutation_p.T452A|PPRC1_uc010qqj.1_Missense_Mutation_p.T572A|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	572					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		TCCTATACCAACCCATCTCTC	0.527													7	107					0	0	0.00308	0	0		G	103899979	G	G	103899979	3	3	19	1	0	0	0	0	1	0	0	0	12432	43	2	3	1732	3	PPRC1	10	103899979	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	182552	103899979	31634768	1674	15187											
C10orf95	79946	broad.mit.edu	37	chr10	104211207	104211207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctctccgcactttgtagCtgcgttgctccgctccatgc	3	13	8	17	3	1	0	0	0	1	0	5	0	4	0	4	0	4	6	4	0	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:104211207C>T	uc001kvo.1	-	1	94	c.19G>A	c.(19-21)GCT>ACT	p.A7T	uc001kvp.1_Missense_Mutation_p.A35V|uc001kvq.1_Intron|uc001kvr.1_5'Flank	NM_024886	NP_079162	Q9H7T3	CJ095_HUMAN	hypothetical protein LOC79946	7										liver(1)	1		Colorectal(252;0.207)		Epithelial(162;8.34e-09)|all cancers(201;1.95e-07)|BRCA - Breast invasive adenocarcinoma(275;0.213)		CACTTTGTAGCTGCGTTGCTC	0.622													5	25					0	0	0.00308	0	0		T	104211207	T	T	104211207	3	4	19	1	0	0	0	0	1	0	0	0	1629	797	28	2	762	2	C10orf95	10	104211207	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	311228	104211207	31323540	1675	15188											
SFXN2	118980	broad.mit.edu	37	chr10	104491950	104491950	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acccaagtagttatttctcgGatcaccatgtcagctcctgg	9	12	8	12	1	3	0	2	0	1	0	5	1	4	1	3	2	1	3	3	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:104491950G>A	uc001kwb.2	+	8	862	c.696G>A	c.(694-696)CGG>CGA	p.R232R	SFXN2_uc001kwc.2_Intron|SFXN2_uc001kwd.2_Intron	NM_178858	NP_849189	Q96NB2	SFXN2_HUMAN	sideroflexin 2	232	Helical; (Potential).				iron ion homeostasis	integral to membrane	cation transmembrane transporter activity				0		Colorectal(252;0.207)		Epithelial(162;4.53e-09)|all cancers(201;1.2e-07)|BRCA - Breast invasive adenocarcinoma(275;0.218)		TTATTTCTCGGATCACCATGT	0.512													22	75					0	0	0.00333	0	0		A	104491950	A	A	104491950	2	1	19	1	0	0	0	0	0	0	0	1	14220	1161	41	4		4	SFXN2	10	104491950	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	280743	104491950	31042797	1676	15189											
SFXN2	118980	broad.mit.edu	37	chr10	104497475	104497475	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagacactatcaaggccaagTatggagaacttgagccttat	15	9	9	8	0	1	3	1	1	0	2	1	4	1	3	2	2	2	1	2	2	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:104497475T>C	uc001kwb.2	+	12	1091	c.925T>C	c.(925-927)TAT>CAT	p.Y309H	SFXN2_uc001kwc.2_RNA|SFXN2_uc001kwd.2_RNA	NM_178858	NP_849189	Q96NB2	SFXN2_HUMAN	sideroflexin 2	309					iron ion homeostasis	integral to membrane	cation transmembrane transporter activity				0		Colorectal(252;0.207)		Epithelial(162;4.53e-09)|all cancers(201;1.2e-07)|BRCA - Breast invasive adenocarcinoma(275;0.218)		CAAGGCCAAGTATGGAGAACT	0.463													18	100					0	0	0.008871	0	0		C	104497475	C	C	104497475	3	2	19	1	0	0	0	0	1	0	0	0	14220	1638	57	3	967	3	SFXN2	10	104497475	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	5525	104497475	31037272	1677	15190											
CYP17A1	1586	broad.mit.edu	37	chr10	104591290	104591290	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgaactgatccggctggtgCcactccttctcattgtgatg	7	13	10	11	1	1	3	1	3	1	0	4	3	3	3	3	2	2	1	3	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:104591290C>T	uc001kwg.2	-	7	1390	c.1218G>A	c.(1216-1218)TGG>TGA	p.W406*	C10orf26_uc009xxg.1_Intron	NM_000102	NP_000093	P05093	CP17A_HUMAN	cytochrome P450, family 17	406			W -> R (in AH5).		androgen biosynthetic process|glucocorticoid biosynthetic process|sex differentiation|xenobiotic metabolic process	endoplasmic reticulum membrane	electron carrier activity|heme binding|oxygen binding|steroid 17-alpha-monooxygenase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)	NADH(DB00157)|Progesterone(DB00396)	CCGGCTGGTGCCACTCCTTCT	0.577													4	50					0	0	0.009096	0	0		T	104591290	T	T	104591290	4	4	19	1	0	0	0	0	0	1	0	0	4150	740	26	2	316	2	CYP17A1	10	104591290	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	93815	104591290	30943457	1678	15191											
CNNM2	54805	broad.mit.edu	37	chr10	104679214	104679214	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgggcaacgtgctggTcaacaccacgctcaccatcc	8	7	10	16	2	2	0	2	0	0	0	3	0	3	0	3	2	4	5	3	2	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:104679214T>C	uc001kwm.2	+	1	1101	c.977T>C	c.(976-978)GTC>GCC	p.V326A	CNNM2_uc001kwn.2_Missense_Mutation_p.V326A|CNNM2_uc001kwl.2_Missense_Mutation_p.V326A	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	326	DUF21.|Helical; (Potential).				ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		AACGTGCTGGTCAACACCACG	0.622													23	35					0	0	0.00278	0	0		C	104679214	C	C	104679214	3	2	19	1	0	0	0	0	1	0	0	0	3616	1667	58	3	979	3	CNNM2	10	104679214	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	87924	104679214	30855533	1679	15192											
PDCD11	22984	broad.mit.edu	37	chr10	105182764	105182764	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactctgtgttgatccagacGctggccgagatgaccccagg	8	8	13	12	2	1	4	0	2	1	2	2	6	2	4	4	2	0	2	4	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:105182764G>A	uc001kwy.1	+	18	2604	c.2517G>A	c.(2515-2517)ACG>ACA	p.T839T		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	839					mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		TGATCCAGACGCTGGCCGAGA	0.527													24	74					0	0	0.00632	0	0		A	105182764	A	A	105182764	2	1	19	1	0	0	0	0	0	0	0	1	11636	1074	38	1		1	PDCD11	10	105182764	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	503550	105182764	30351983	1680	15193											
SORCS3	22986	broad.mit.edu	37	chr10	106974273	106974273	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgccaaggcccagatgtgcCctggaaaagcccctcggggc	8	4	13	16	2	0	1	0	0	0	1	1	2	0	2	6	4	2	0	6	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:106974273C>A	uc001kyi.1	+	18	2676	c.2449C>A	c.(2449-2451)CCT>ACT	p.P817T	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	817	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		CCAGATGTGCCCTGGAAAAGC	0.557													32	43					4.74835e-14	5.00986e-14	0.010818	1	0		A	106974273	A	A	106974273	3	1	19	1	0	0	0	0	1	0	0	0	14957	623	22	5	2519	5	SORCS3	10	106974273	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1791509	106974273	28560474	1681	15194											
DUSP5	1847	broad.mit.edu	37	chr10	112258064	112258064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggggcggcgcggtgtcggCgcgctacgtgctgcccgacg	2	5	19	15	10	0	0	0	0	0	0	1	1	0	0	2	5	3	2	2	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:112258064C>T	uc001kzd.2	+	1	440	c.185C>T	c.(184-186)GCG>GTG	p.A62V		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	62	Nuclear localization signal (Potential).|Rhodanese.				endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		gcggTGTCGGCGCGCTACGTG	0.657													5	23					0	0	0.000602	0	0		T	112258064	T	T	112258064	3	4	19	1	0	0	0	0	1	0	0	0	4834	768	27	1	187	1	DUSP5	10	112258064	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5283791	112258064	23276683	1682	15195											
ADRA2A	150	broad.mit.edu	37	chr10	112838169	112838169	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgtcgtccatcgtgcacCtgtgcgccatcagcctggac	6	8	11	16	4	1	0	1	0	0	0	4	1	2	1	4	1	3	2	4	1	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:112838169C>A	uc001kzo.2	+	1	1380	c.415C>A	c.(415-417)CTG>ATG	p.L139M		NM_000681	NP_000672	P08913	ADA2A_HUMAN	alpha-2A-adrenergic receptor	124	Helical; Name=3; (By similarity).			L -> P (in Ref. 13).	actin cytoskeleton organization|activation of MAPK activity by adrenergic receptor signaling pathway|activation of phospholipase C activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cellular component movement|cellular response to hormone stimulus|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|glucose homeostasis|inhibition of adenylate cyclase activity by adrenergic receptor signaling pathway|intestinal absorption|negative regulation of adrenergic receptor signaling pathway|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cAMP biosynthetic process|negative regulation of epinephrine secretion|negative regulation of insulin secretion involved in cellular response to glucose stimulus|negative regulation of lipid catabolic process|negative regulation of norepinephrine secretion|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cytokine production|positive regulation of membrane protein ectodomain proteolysis|positive regulation of potassium ion transport|positive regulation of wound healing|Rho protein signal transduction	basolateral plasma membrane|cytoplasm|integral to plasma membrane|receptor complex	alpha-1B adrenergic receptor binding|alpha-2C adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|heterotrimeric G-protein binding|norepinephrine binding|protein heterodimerization activity|protein homodimerization activity|protein kinase binding|thioesterase binding				0		Breast(234;0.0735)|Lung NSC(174;0.238)		Epithelial(162;0.000316)|all cancers(201;0.00501)|BRCA - Breast invasive adenocarcinoma(275;0.118)	Amitriptyline(DB00321)|Amphetamine(DB00182)|Apraclonidine(DB00964)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Brimonidine(DB00484)|Clonidine(DB00575)|Debrisoquin(DB04840)|Dexmedetomidine(DB00633)|Dipivefrin(DB00449)|Epinastine(DB00751)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanabenz(DB00629)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Lofexidine(DB04948)|Methyldopa(DB00968)|Mianserin(DB06148)|Mirtazapine(DB00370)|Norepinephrine(DB00368)|Oxymetazoline(DB00935)|Phentolamine(DB00692)|Phenylpropanolamine(DB00397)|Pseudoephedrine(DB00852)|Tizanidine(DB00697)|Trazodone(DB00656)|Yohimbine(DB01392)	CATCGTGCACCTGTGCGCCAT	0.612													6	38					2.0095e-06	2.0727e-06	0.001984	1	0		A	112838169	A	A	112838169	3	1	19	1	0	0	0	0	1	0	0	0	337	680	24	5	417	5	ADRA2A	10	112838169	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	580105	112838169	22696578	1683	15196											
GPAM	57678	broad.mit.edu	37	chr10	113913352	113913352	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atattctagaagtttttgtcGgttgcattgaggtagaaaag	12	15	11	3	1	1	3	0	1	1	2	2	3	1	3	0	2	1	4	0	2	6	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:113913352G>A	uc009xxy.1	-	22	2641	c.2443C>T	c.(2443-2445)CGA>TGA	p.R815*	GPAM_uc001kzp.2_Nonsense_Mutation_p.R815*	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate	815	Mitochondrial intermembrane (Potential).|Mitochondrial intermembrane (Potential).				phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		AGTTTTTGTCGGTTGCATTGA	0.383													61	130					0	0	0.01441	0	0		A	113913352	A	A	113913352	4	1	19	1	0	0	0	0	0	1	0	0	6603	1124	39	1	47	1	GPAM	10	113913352	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1075183	113913352	21621395	1684	15197											
NRAP	4892	broad.mit.edu	37	chr10	115355426	115355426	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgagctcgggtgaaatcggGatggtcggggatcagggtgt	7	8	20	6	4	1	1	1	1	0	0	4	4	1	3	0	6	1	1	0	6	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:115355426G>T	uc001laj.2	-	38	4656	c.4492C>A	c.(4492-4494)CCC>ACC	p.P1498T	NRAP_uc009xyb.2_Missense_Mutation_p.P287T|NRAP_uc001lak.2_Missense_Mutation_p.P1463T|NRAP_uc001lal.3_Missense_Mutation_p.P1498T	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	1498	Nebulin 40.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		GTGAAATCGGGATGGTCGGGG	0.493													34	86					1.84765e-07	1.91881e-07	0.003755	1	0		T	115355426	T	T	115355426	3	4	19	1	0	0	0	0	1	0	0	0	10657	1174	41	5	720	5	NRAP	10	115355426	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1442074	115355426	20179321	1685	15198											
DCLRE1A	9937	broad.mit.edu	37	chr10	115612525	115612525	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccaaacattcaaaaacatgCcatcgaggtgtctgccctat	13	10	6	12	1	2	0	1	0	1	0	4	1	3	0	3	1	4	0	3	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:115612525C>A	uc001law.2	-	1	1335	c.417G>T	c.(415-417)TGG>TGT	p.W139C	NHLRC2_uc001lax.1_5'Flank	NM_014881	NP_055696	Q6PJP8	DCR1A_HUMAN	DNA cross-link repair 1A	139	Nuclear localization region.				cell division|mitosis	nucleus	hydrolase activity			skin(2)	2				Epithelial(162;0.0157)|all cancers(201;0.0171)		CAAAAACATGCCATCGAGGTG	0.413								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					6	112					3.59834e-05	3.68852e-05	0.001168	1	0		A	115612525	A	A	115612525	3	1	19	1	0	0	0	0	1	0	0	0	4297	740	26	5	2741	5	DCLRE1A	10	115612525	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	257099	115612525	19922222	1686	15199											
ADRB1	153	broad.mit.edu	37	chr10	115804211	115804211	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagcgccgacctggtcaTggggctgctggtggtgccgt	3	8	18	12	3	1	0	1	0	0	0	1	1	1	0	4	6	3	2	4	6	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:115804211T>C	uc001lba.2	+	1	406	c.320T>C	c.(319-321)ATG>ACG	p.M107T		NM_000684	NP_000675	P08588	ADRB1_HUMAN	beta-1-adrenergic receptor	107	Helical; Name=2; (By similarity).				positive regulation of cAMP biosynthetic process	integral to plasma membrane	alpha-2A adrenergic receptor binding|beta1-adrenergic receptor activity|protein heterodimerization activity				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0124)|all cancers(201;0.0298)	Acebutolol(DB01193)|Alprenolol(DB00866)|Amiodarone(DB01118)|Arbutamine(DB01102)|Atenolol(DB00335)|Betaxolol(DB00195)|Bevantolol(DB01295)|Bisoprolol(DB00612)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Desipramine(DB01151)|Dobutamine(DB00841)|Dopamine(DB00988)|Epinephrine(DB00668)|Esmolol(DB00187)|Isoetharine(DB00221)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Metoprolol(DB00264)|Nadolol(DB01203)|Norepinephrine(DB00368)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Practolol(DB01297)|Propranolol(DB00571)|Risperidone(DB00734)|Timolol(DB00373)|Ziprasidone(DB00246)	GACCTGGTCATGGGGCTGCTG	0.662													26	72					0	0	0.008361	0	0		C	115804211	C	C	115804211	3	2	19	1	0	0	0	0	1	0	0	0	340	1464	51	3	322	3	ADRB1	10	115804211	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	191686	115804211	19730536	1687	15200											
TDRD1	56165	broad.mit.edu	37	chr10	115973165	115973165	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtctcatgaaaaaacttgTacagaacaaaataatcacag	19	10	5	7	0	2	2	2	1	1	1	3	2	2	2	0	0	3	1	0	0	8	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:115973165T>C	uc001lbg.1	+	15	2045	c.1892T>C	c.(1891-1893)GTA>GCA	p.V631A	TDRD1_uc001lbf.2_Missense_Mutation_p.V565A|TDRD1_uc001lbh.1_Missense_Mutation_p.V622A|TDRD1_uc001lbi.1_Missense_Mutation_p.V622A|TDRD1_uc010qsc.1_Missense_Mutation_p.V235A|TDRD1_uc001lbj.2_Missense_Mutation_p.V340A	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	631					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		AAAAAACTTGTACAGAACAAA	0.368													36	115					0	0	0.005524	0	0		C	115973165	C	C	115973165	3	2	19	1	0	0	0	0	1	0	0	0	15755	1638	57	3	1946	3	TDRD1	10	115973165	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	168954	115973165	19561582	1688	15201											
ABLIM1	3983	broad.mit.edu	37	chr10	116203839	116203839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taacagagatgacctttcccGgctctctttctccatctctt	7	15	5	14	1	3	2	0	1	3	1	7	3	4	2	3	1	1	1	3	1	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:116203839G>A	uc010qsg.1	-	17	1981	c.1882C>T	c.(1882-1884)CGG>TGG	p.R628W	ABLIM1_uc010qsh.1_Missense_Mutation_p.R596W|ABLIM1_uc010qsi.1_Missense_Mutation_p.R568W|ABLIM1_uc010qsk.1_Missense_Mutation_p.R505W|ABLIM1_uc009xyp.2_Missense_Mutation_p.R592W|ABLIM1_uc010qsf.1_Missense_Mutation_p.R305W|ABLIM1_uc009xyn.2_Missense_Mutation_p.R244W|ABLIM1_uc010qsj.1_Missense_Mutation_p.R223W|ABLIM1_uc009xyo.2_Missense_Mutation_p.R441W	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	628					axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		GACCTTTCCCGGCTCTCTTTC	0.443													49	124					0	0	0.01441	0	0		A	116203839	A	A	116203839	3	1	19	1	0	0	0	0	1	0	0	0	94	1115	39	1	478	1	ABLIM1	10	116203839	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	230674	116203839	19330908	1689	15202											
ATRNL1	26033	broad.mit.edu	37	chr10	117309003	117309003	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgctggtggctgctgtggTatggaagatcaaacaaactt	11	12	12	6	0	1	1	1	0	0	1	1	2	1	2	0	4	4	4	0	4	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:117309003T>C	uc001lcg.2	+	26	4138	c.3752T>C	c.(3751-3753)GTA>GCA	p.V1251A	ATRNL1_uc010qsm.1_Missense_Mutation_p.V380A|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	1251	Helical; (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		GCTGCTGTGGTATGGAAGATC	0.318													21	52					0	0	0.007291	0	0		C	117309003	C	C	117309003	3	2	19	1	0	0	0	0	1	0	0	0	1208	1638	57	3	3854	3	ATRNL1	10	117309003	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1105164	117309003	18225744	1690	15203											
SLC18A2	6571	broad.mit.edu	37	chr10	119001291	119001291	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgttcatcgtgttcctggcGctgctgctggacaacatgct	5	13	11	12	2	1	0	1	0	0	0	3	1	2	1	1	2	4	6	1	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:119001291G>A	uc001ldd.1	+	2	118	c.87G>A	c.(85-87)GCG>GCA	p.A29A	SLC18A2_uc009xyy.1_5'UTR	NM_003054	NP_003045	Q05940	VMAT2_HUMAN	solute carrier family 18 (vesicular monoamine),	29	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted monoamine transport vesicle membrane|integral to plasma membrane|membrane fraction	monoamine transmembrane transporter activity				0		Colorectal(252;0.19)		all cancers(201;0.029)	Alseroxylon(DB00386)|Reserpine(DB00206)|Tetrabenazine(DB04844)	TGTTCCTGGCGCTGCTGCTGG	0.706													14	16					0	0	0.004007	0	0		A	119001291	A	A	119001291	2	1	19	1	0	0	0	0	0	0	0	1	14451	1074	38	1		1	SLC18A2	10	119001291	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1692288	119001291	16533456	1691	15204											
SLC18A2	6571	broad.mit.edu	37	chr10	119027216	119027216	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaacatttatggactcatAgctccgaactttggagttgg	13	12	9	7	1	1	0	1	0	0	0	2	3	2	2	1	3	3	2	1	3	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:119027216A>G	uc001ldd.1	+	13	1186	c.1155A>G	c.(1153-1155)ATA>ATG	p.I385M	SLC18A2_uc009xyy.1_Missense_Mutation_p.I182M	NM_003054	NP_003045	Q05940	VMAT2_HUMAN	solute carrier family 18 (vesicular monoamine),	385	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted monoamine transport vesicle membrane|integral to plasma membrane|membrane fraction	monoamine transmembrane transporter activity				0		Colorectal(252;0.19)		all cancers(201;0.029)	Alseroxylon(DB00386)|Reserpine(DB00206)|Tetrabenazine(DB04844)	ATGGACTCATAGCTCCGAACT	0.378													14	16					0	0	0.004007	0	0		G	119027216	G	G	119027216	3	3	19	1	0	0	0	0	1	0	0	0	14451	410	15	3	1201	3	SLC18A2	10	119027216	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	25925	119027216	16507531	1692	15205											
INPP5F	22876	broad.mit.edu	37	chr10	121567530	121567530	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatgtgggccaataatggTgactccattagcagacagta	14	10	10	7	0	0	2	0	1	0	1	1	2	1	2	2	2	1	2	2	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:121567530T>C	uc001leo.2	+	13	1693	c.1527T>C	c.(1525-1527)GGT>GGC	p.G509G		NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	509	SAC.						phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		CCAATAATGGTGACTCCATTA	0.443													27	87					0	0	0.003954	0	0		C	121567530	C	C	121567530	2	2	19	1	0	0	0	0	0	0	0	1	7774	1683	59	3		3	INPP5F	10	121567530	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2540314	121567530	13967217	1693	15206											
INPP5F	22876	broad.mit.edu	37	chr10	121587063	121587065	+	In_Frame_Del	DEL	CTT	-	-																															gacagggcttcatgtaactcCttctccttcagagagcagta																								rs148162878		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:121587063_121587065delCTT	uc001leo.2	+	20	3336_3338	c.3170_3172delCTT	c.(3169-3174)CCTTCT>CCT	p.S1058del	INPP5F_uc001lep.2_In_Frame_Del_p.S448del	NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	1058							phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		CATGTAACTCCTTCTCCTTCAGA	0.493													68	122	---	---	---	---						.	-	121587065	-	-	121587063	7	5	19	1	0	1	0	1	0	0	0	0	7774	681	24	0	3248	0	INPP5F	10	121587063	In_Frame_Del	DEL	CTT	TCGA-BR-4361-01A-01D-1158-08	19533	121587063	13947684	1694	15207											
SEC23IP	11196	broad.mit.edu	37	chr10	121677919	121677919	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcataggttctttaatattgTttgacatcctgtctaatcaa	11	18	5	7	0	4	1	2	1	2	0	5	1	5	1	1	1	0	2	1	1	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:121677919T>A	uc001leu.1	+	10	1840	c.1768T>A	c.(1768-1770)TTT>ATT	p.F590I	SEC23IP_uc010qtc.1_Missense_Mutation_p.F379I|SEC23IP_uc009xzk.1_5'Flank	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	590				F -> L (in Ref. 2; AAO15299).	Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		TTTAATATTGTTTGACATCCT	0.318													11	50					0	0	0.010729	0	0		A	121677919	A	A	121677919	3	1	19	1	0	0	0	0	1	0	0	0	14018	1725	60	5	1806	5	SEC23IP	10	121677919	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	90856	121677919	13856828	1695	15208											
ACADSB	36	broad.mit.edu	37	chr10	124800876	124800876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctctttctggtgatggCaaatgtagaccctaccattg	9	12	11	9	0	2	2	0	1	2	1	2	2	2	2	2	3	1	3	2	3	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:124800876C>T	uc001lhb.2	+	5	779	c.662C>T	c.(661-663)GCA>GTA	p.A221V	ACADSB_uc010qub.1_Missense_Mutation_p.A119V	NM_001609	NP_001600	P45954	ACDSB_HUMAN	acyl-Coenzyme A dehydrogenase, short/branched	221					branched chain family amino acid catabolic process|fatty acid metabolic process	mitochondrial matrix	flavin adenine dinucleotide binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.0811)|COAD - Colon adenocarcinoma(40;0.0835)	L-Isoleucine(DB00167)	CTGGTGATGGCAAATGTAGAC	0.403													48	128					0	0	0.01441	0	0		T	124800876	T	T	124800876	3	4	19	1	0	0	0	0	1	0	0	0	115	710	25	2	680	2	ACADSB	10	124800876	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3122957	124800876	10733871	1696	15209											
BUB3	9184	broad.mit.edu	37	chr10	124914613	124914613	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcacaccggcgccgtcctGgactgcgccttctacgtagg	6	7	12	16	5	1	0	0	0	1	0	2	1	2	1	4	3	3	2	4	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:124914613G>A	uc001lhe.2	+	2	422	c.180G>A	c.(178-180)CTG>CTA	p.L60L	BUB3_uc009yah.2_Silent_p.L12L|BUB3_uc001lhf.3_Silent_p.L60L|BUB3_uc001lhd.2_Silent_p.L60L|BUB3_uc010qud.1_Intron	NM_004725	NP_004716	O43684	BUB3_HUMAN	budding uninhibited by benzimidazoles 3 isoform	60	WD 2.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|attachment of spindle microtubules to kinetochore|cell division|meiosis|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	condensed chromosome kinetochore|cytosol|nucleus	protein binding			ovary(1)	1		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)				GCGCCGTCCTGGACTGCGCCT	0.602													7	72					0	0	0.001984	0	0		A	124914613	A	A	124914613	2	1	19	1	0	0	0	0	0	0	0	1	1575	1335	47	4		4	BUB3	10	124914613	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	113737	124914613	10620134	1697	15210											
CPXM2	119587	broad.mit.edu	37	chr10	125539730	125539730	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaaaatccaggtcatcagTggtggtcatctcgttccggc	8	12	10	11	2	4	0	3	0	1	0	7	0	6	0	2	4	0	1	2	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:125539730T>C	uc001lhk.1	-	7	1256	c.931A>G	c.(931-933)ACT>GCT	p.T311A	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	311					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		AGGTCATCAGTGGTGGTCATC	0.428													17	179					0	0	0.004007	0	0		C	125539730	C	C	125539730	3	2	19	1	0	0	0	0	1	0	0	0	3841	1696	59	3	1371	3	CPXM2	10	125539730	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	625117	125539730	9995017	1698	15211											
CPXM2	119587	broad.mit.edu	37	chr10	125601969	125601969	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatttcttcccgcgcaccaCgctccgtcataaaaatcatt	10	12	4	15	4	4	0	3	0	1	0	6	0	6	0	3	0	0	2	3	0	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:125601969C>T	uc001lhk.1	-	4	874	c.549G>A	c.(547-549)GCG>GCA	p.A183A	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	183	F5/8 type C.				cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		CCGCGCACCACGCTCCGTCAT	0.448													12	38					0	0	0.00245	0	0		T	125601969	T	T	125601969	2	4	19	1	0	0	0	0	0	0	0	1	3841	523	19	1		1	CPXM2	10	125601969	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	62239	125601969	9932778	1699	15212											
C10orf137	26098	broad.mit.edu	37	chr10	127451948	127451948	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagagcaactgcaaataaAaccgcgactcttctggaaag	15	8	9	9	2	2	1	0	1	2	1	2	4	2	2	1	1	4	2	1	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:127451948A>G	uc001liq.1	+	25	3917	c.3624A>G	c.(3622-3624)AAA>AAG	p.K1208K	C10orf137_uc001lio.1_Silent_p.K1174K|C10orf137_uc001lip.1_Silent_p.K912K|C10orf137_uc001lis.1_Silent_p.K534K|C10orf137_uc001lit.1_Silent_p.K118K	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	1208					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				CTGCAAATAAAACCGCGACTC	0.468													4	96					0	0	0.009096	0	0		G	127451948	G	G	127451948	2	3	19	1	0	0	0	0	0	0	0	1	1597	11	1	3		3	C10orf137	10	127451948	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1849979	127451948	8082799	1700	15213											
BCCIP	56647	broad.mit.edu	37	chr10	127524753	127524753	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatggtcttttgatgacgtAccaatgacgcccttgcgaac	11	11	9	10	3	1	3	0	3	1	0	1	4	1	3	2	1	3	1	2	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:127524753A>G	uc001ljb.3	+	7	878	c.855A>G	c.(853-855)GTA>GTG	p.V285V	BCCIP_uc001ljd.3_Intron|BCCIP_uc010qui.1_Intron|BCCIP_uc001ljc.3_Intron|BCCIP_uc010quj.1_Intron	NM_078468	NP_510868	Q9P287	BCCIP_HUMAN	BRCA2 and CDKN1A-interacting protein isoform	285					cell cycle|DNA repair|neuroendocrine cell differentiation|regulation of cyclin-dependent protein kinase activity	nuclear cyclin-dependent protein kinase holoenzyme complex	kinase regulator activity|protein binding			ovary(1)|breast(1)	2		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TTGATGACGTACCAATGACGC	0.423													58	122					0	0	0.01441	0	0		G	127524753	G	G	127524753	2	3	19	1	0	0	0	0	0	0	0	1	1357	378	14	3		3	BCCIP	10	127524753	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	72805	127524753	8009994	1701	15214											
FAM196A	642938	broad.mit.edu	37	chr10	128952176	128952176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctgtgtcttgccccgtcCgatatgaaagcctacaagat	10	11	9	11	2	1	2	0	1	1	1	2	3	2	2	4	0	4	1	4	0	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:128952176C>T	uc001lju.1	-	2	1237	c.1196G>A	c.(1195-1197)CGG>CAG	p.R399Q	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Intron|FAM196A_uc001ljv.1_Missense_Mutation_p.R399Q|FAM196A_uc009yap.1_Intron	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	399										ovary(2)	2						TTGCCCCGTCCGATATGAAAG	0.443													8	72					0	0	0.006214	0	0		T	128952176	T	T	128952176	3	4	19	1	0	0	0	0	1	0	0	0	5539	652	23	1	251	1	FAM196A	10	128952176	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1427423	128952176	6582571	1702	15215											
MKI67	4288	broad.mit.edu	37	chr10	129904261	129904261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagatcttctagagccttgGccttttctttaggagtttgt	6	17	9	9	0	3	2	0	0	3	2	3	3	3	3	3	2	1	1	3	2	2	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:129904261G>A	uc001lke.2	-	13	6038	c.5843C>T	c.(5842-5844)GCC>GTC	p.A1948V	MKI67_uc001lkf.2_Missense_Mutation_p.A1588V|MKI67_uc009yav.1_Missense_Mutation_p.A1523V|MKI67_uc009yaw.1_Missense_Mutation_p.A1098V	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1948	16 X 122 AA approximate repeats.|8.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TAGAGCCTTGGCCTTTTCTTT	0.478													120	255					0	0	0.01441	0	0		A	129904261	A	A	129904261	3	1	19	1	0	0	0	0	1	0	0	0	9616	1203	42	2	3939	2	MKI67	10	129904261	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	952085	129904261	5630486	1703	15216											
MKI67	4288	broad.mit.edu	37	chr10	129906745	129906745	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggtagttttctcatcaGtcattgattcctcagaggga	8	17	9	7	0	4	2	4	1	1	1	6	3	5	3	1	2	0	2	1	2	1	7	rs11016074		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:129906745G>C	uc001lke.2	-	13	3554	c.3359C>G	c.(3358-3360)ACT>AGT	p.T1120S	MKI67_uc001lkf.2_Missense_Mutation_p.T760S|MKI67_uc009yav.1_Missense_Mutation_p.T695S|MKI67_uc009yaw.1_Missense_Mutation_p.T270S	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1120	16 X 122 AA approximate repeats.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TTTCTCATCAGTCATTGATTC	0.488													137	330					0	0	0.01441	0	0		C	129906745	C	C	129906745	3	2	19	1	0	0	0	0	1	0	0	0	9616	1029	36	5	6423	5	MKI67	10	129906745	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2484	129906745	5628002	1704	15217											
C10orf93	255352	broad.mit.edu	37	chr10	134750555	134750555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcgtccattaattcatgaCgaacctgtcataaaatggag	13	12	8	8	2	2	1	2	1	0	0	4	3	3	2	2	1	1	1	2	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:134750555C>T	uc001llt.1	-	7	741	c.665G>A	c.(664-666)CGT>CAT	p.R222H		NM_173572	NP_775843	Q5SR76	CJ093_HUMAN	hypothetical protein LOC255352	222							binding			pancreas(1)	1		all_cancers(35;1.8e-07)|all_epithelial(44;6.22e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Colorectal(31;0.119)|Glioma(114;0.172)|Melanoma(40;0.175)		Epithelial(32;4.28e-05)|OV - Ovarian serous cystadenocarcinoma(35;4.31e-05)|all cancers(32;5.02e-05)		TAATTCATGACGAACCTGTCA	0.313													8	13					0	0	0.00308	0	0		T	134750555	T	T	134750555	3	4	19	1	0	0	0	0	1	0	0	0	1628	536	19	1	564	1	C10orf93	10	134750555	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4843810	134750555	784192	1705	15218											
B4GALNT4	338707	broad.mit.edu	37	chr11	380921	380921	+	Frame_Shift_Del	DEL	G	-	-																															ggaggagttccgagaccagtGggggggtgaagactgggagc																								rs35951843		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:380921delG	uc001lpb.2	+	19	2975	c.2966delG	c.(2965-2967)TGGfs	p.W989fs		NM_178537	NP_848632	Q76KP1	B4GN4_HUMAN	beta	989	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			pancreas(1)	1		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CGAGACCAGTGGGGGGGTGAA	0.602													12	22	---	---	---	---						.	-	380921	-	-	380921	7	5	19	1	0	1	0	1	0	0	0	0	1270	1357	47	0	3040	0	B4GALNT4	11	380921	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08		380921	134625595	1706	15219											
PHRF1	57661	broad.mit.edu	37	chr11	608885	608885	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagcgggaacgcagccaCgagcggccagacaggaagga	13	1	15	12	4	1	1	1	0	0	1	1	5	1	4	2	4	4	1	2	4	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:608885C>T	uc001lqe.2	+	14	3560	c.3429C>T	c.(3427-3429)CAC>CAT	p.H1143H	PHRF1_uc010qwc.1_Silent_p.H1142H|PHRF1_uc010qwd.1_Silent_p.H1141H|PHRF1_uc010qwe.1_Silent_p.H1139H|PHRF1_uc009ybz.1_Silent_p.H933H|PHRF1_uc009yca.1_RNA	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	1143	Arg-rich.						RNA polymerase binding|zinc ion binding				0						AACGCAGCCACGAGCGGCCAG	0.672													8	11					0	0	0.00245	0	0		T	608885	T	T	608885	2	4	19	1	0	0	0	0	0	0	0	1	11880	535	19	1		1	PHRF1	11	608885	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	227964	608885	134397631	1707	15220											
EPS8L2	64787	broad.mit.edu	37	chr11	723324	723324	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccccccgggggatgccctAccaccagtcagctccccaca	8	4	8	21	1	1	0	1	0	0	0	2	1	2	1	8	2	3	1	8	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:723324A>G	uc001lqt.2	+	15	1672	c.1425A>G	c.(1423-1425)CTA>CTG	p.L475L	EPS8L2_uc001lqu.2_Silent_p.L475L|EPS8L2_uc010qwk.1_Silent_p.L491L|EPS8L2_uc001lqv.2_Silent_p.L430L|EPS8L2_uc001lqw.2_Silent_p.L87L|EPS8L2_uc001lqx.2_Silent_p.L87L|EPS8L2_uc001lqy.2_5'Flank	NM_022772	NP_073609	Q9H6S3	ES8L2_HUMAN	epidermal growth factor receptor pathway	475						cytoplasm				pancreas(1)	1		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.37e-27)|Epithelial(43;2.81e-26)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-20)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGGATGCCCTACCACCAGTCA	0.562											OREG0020659	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	102					0	0	0.001855	0	0		G	723324	G	G	723324	2	3	19	1	0	0	0	0	0	0	0	1	5204	378	14	3		3	EPS8L2	11	723324	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	114439	723324	134283192	1708	15221											
MUC6	4588	broad.mit.edu	37	chr11	1027331	1027331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttgtaaccctccagtatgCacgggcactgggccttgcgc	7	9	11	14	2	0	0	0	0	0	0	1	0	1	0	3	2	3	4	3	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:1027331C>T	uc001lsw.2	-	17	2219	c.2168G>A	c.(2167-2169)TGC>TAC	p.C723Y		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	723					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CTCCAGTATGCACGGGCACTG	0.652													82	187					0	0	0.01441	0	0		T	1027331	T	T	1027331	3	4	19	1	0	0	0	0	1	0	0	0	9998	710	25	2	5219	2	MUC6	11	1027331	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	304007	1027331	133979185	1709	15222											
MUC2	4583	broad.mit.edu	37	chr11	1096499	1096499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgacaaggtgtcctgtccccGcaccctcatcgtgcgccacg	6	7	10	18	5	1	0	1	0	0	0	4	1	3	0	5	1	1	1	5	1	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:1096499G>A	uc001lsx.1	+	37	13637	c.13610G>A	c.(13609-13611)CGC>CAC	p.R4537H		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4537	VWFD 4.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	TCCTGTCCCCGCACCCTCATC	0.597													6	66					0	0	0.001168	0	0		A	1096499	A	A	1096499	3	1	19	1	0	0	0	0	1	0	0	0	9993	1087	38	1	6650	1	MUC2	11	1096499	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	69168	1096499	133910017	1710	15223											
MUC2	4583	broad.mit.edu	37	chr11	1101162	1101162	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgacacctgctgcaacattAccgtctgcagtaaggccatc	10	8	8	15	2	1	0	0	0	1	0	2	1	1	0	4	1	5	4	4	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:1101162A>G	uc001lsx.1	+	44	14674	c.14647A>G	c.(14647-14649)ACC>GCC	p.T4883A		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4883	VWFC 1.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	CTGCAACATTACCGTCTGCAG	0.632													3	86					0	0	0.009096	0	0		G	1101162	G	G	1101162	3	3	19	1	0	0	0	0	1	0	0	0	9993	391	14	3	7715	3	MUC2	11	1101162	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4663	1101162	133905354	1711	15224											
TOLLIP	54472	broad.mit.edu	37	chr11	1298340	1298340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcgctgggcttccagcaCggagcggatcacctcctggt	5	8	12	16	3	1	0	1	0	0	0	4	2	3	2	4	4	2	3	4	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:1298340C>T	uc001lte.2	-	6	865	c.754G>A	c.(754-756)GTG>ATG	p.V252M	TOLLIP_uc001ltd.2_Missense_Mutation_p.V183M|TOLLIP_uc009ycu.2_Missense_Mutation_p.V191M|TOLLIP_uc001ltf.2_Missense_Mutation_p.V202M	NM_019009	NP_061882	Q9H0E2	TOLIP_HUMAN	toll interacting protein	252	CUE.				cell-cell signaling|inflammatory response|innate immune response|intracellular signal transduction|leukocyte activation|phosphorylation	cytosol|interleukin-1 receptor complex|interleukin-18 receptor complex	kinase binding|signal transducer activity|Toll-like receptor binding				0		all_cancers(49;7.62e-05)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0256)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		BRCA - Breast invasive adenocarcinoma(625;0.00152)|Lung(200;0.09)|LUSC - Lung squamous cell carcinoma(625;0.107)		GCTTCCAGCACGGAGCGGATC	0.652													32	71					0	0	0.004289	0	0		T	1298340	T	T	1298340	3	4	19	1	0	0	0	0	1	0	0	0	16375	536	19	1	74	1	TOLLIP	11	1298340	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	197178	1298340	133708176	1712	15225											
TNNI2	7136	broad.mit.edu	37	chr11	1861658	1861658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacagggccatcacggcccGcaggcagcacctgaaggtag	11	3	14	13	2	1	1	1	1	0	0	1	2	1	1	3	4	2	4	3	4	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:1861658G>A	uc010qxe.1	+	2	63	c.41G>A	c.(40-42)CGC>CAC	p.R14H	TNNI2_uc010qxc.1_Missense_Mutation_p.R12H|TNNI2_uc010qxd.1_Missense_Mutation_p.R12H	NM_001145841	NP_001139313	P48788	TNNI2_HUMAN	fast-twitch skeletal muscle troponin I isoform	14	Involved in binding TNC.				muscle filament sliding|positive regulation of transcription, DNA-dependent|skeletal muscle contraction	cytosol|nucleus|troponin complex	actin binding|troponin T binding				0		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		ATCACGGCCCGCAGGCAGCAC	0.726													5	13					0	0	0.001984	0	0		A	1861658	A	A	1861658	3	1	19	1	0	0	0	0	1	0	0	0	16352	1087	38	1	66	1	TNNI2	11	1861658	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	563318	1861658	133144858	1713	15226											
TSSC4	10078	broad.mit.edu	37	chr11	2424406	2424406	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagagcaatcaggccacCgccctggccttcctgggctc	7	6	12	16	1	1	1	1	0	0	1	3	2	2	1	5	3	2	3	5	3	1	1	rs147679407		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:2424406C>T	uc001lwj.2	+	4	904	c.543C>T	c.(541-543)ACC>ACT	p.T181T	TSSC4_uc001lwi.2_Silent_p.T117T|TSSC4_uc001lwk.2_Silent_p.T181T|TSSC4_uc001lwl.2_Silent_p.T181T	NM_005706	NP_005697	Q9Y5U2	TSSC4_HUMAN	tumor suppressing subtransferable candidate 4	181											0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.00145)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATCAGGCCACCGCCCTGGCCT	0.662													21	29					0	0	0.012319	0	0		T	2424406	T	T	2424406	2	4	19	1	0	0	0	0	0	0	0	1	16693	639	23	1		1	TSSC4	11	2424406	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	562748	2424406	132582110	1714	15227											
NUP98	4928	broad.mit.edu	37	chr11	3720570	3720570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtccatgtcaggctccagtGcttcacaactaaggcaggaa	11	9	10	11	0	2	0	2	0	0	0	4	1	4	1	2	3	2	3	2	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:3720570G>A	uc001lyh.2	-	25	4042	c.3751C>T	c.(3751-3753)CAC>TAC	p.H1251Y	NUP98_uc001lyi.2_Missense_Mutation_p.H1251Y|NUP98_uc001lyg.2_Missense_Mutation_p.H216Y	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1268					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		aggctccagtgcttcacaact	0.264			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								5	111					0	0	0.001168	0	0		A	3720570	A	A	3720570	3	1	19	1	0	0	0	0	1	0	0	0	10792	1319	46	2	1687	2	NUP98	11	3720570	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1296164	3720570	131285946	1715	15228											
OR52M1	119772	broad.mit.edu	37	chr11	4566819	4566819	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatctgcaacccactacgTcatagcatggtgctcactta	10	10	7	14	1	3	0	2	0	1	0	3	0	3	0	2	1	5	3	2	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:4566819T>C	uc010qyf.1	+	1	399	c.399T>C	c.(397-399)CGT>CGC	p.R133R		NM_001004137	NP_001004137	Q8NGK5	O52M1_HUMAN	olfactory receptor, family 52, subfamily M,	133	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACCCACTACGTCATAGCATGG	0.527													3	118					0	0	0.004672	0	0		C	4566819	C	C	4566819	2	2	19	1	0	0	0	0	0	0	0	1	11145	1654	58	3		3	OR52M1	11	4566819	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	846249	4566819	130439697	1716	15229											
OR52M1	119772	broad.mit.edu	37	chr11	4567047	4567047	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgagcatcggctttctggtGttgatcctggactcagtggc	5	13	13	10	1	2	2	1	2	1	0	4	3	3	3	1	4	1	3	1	4	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:4567047G>A	uc010qyf.1	+	1	627	c.627G>A	c.(625-627)GTG>GTA	p.V209V		NM_001004137	NP_001004137	Q8NGK5	O52M1_HUMAN	olfactory receptor, family 52, subfamily M,	209	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCTTTCTGGTGTTGATCCTGG	0.517													63	172					0	0	0.01441	0	0		A	4567047	A	A	4567047	2	1	19	1	0	0	0	0	0	0	0	1	11145	1364	48	4		4	OR52M1	11	4567047	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	228	4567047	130439469	1717	15230											
TRIM68	55128	broad.mit.edu	37	chr11	4621976	4621976	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggcagtttctggttggTgtctccatagtgcacacgtt	5	15	12	9	1	3	0	0	0	3	0	4	0	3	0	1	3	1	5	1	3	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:4621976T>C	uc001lzf.1	-	7	1226	c.988A>G	c.(988-990)ACC>GCC	p.T330A	TRIM68_uc001lzg.1_Missense_Mutation_p.T107A|TRIM68_uc010qyj.1_RNA	NM_018073	NP_060543	Q6AZZ1	TRI68_HUMAN	ring finger protein 137	330	B30.2/SPRY.				protein autoubiquitination|regulation of androgen receptor signaling pathway	Golgi apparatus|nucleolus|perinuclear region of cytoplasm	androgen receptor binding|histone acetyltransferase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;9.49e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		TTCTGGTTGGTGTCTCCATAG	0.512													4	60					0	0	0.009096	0	0		C	4621976	C	C	4621976	3	2	19	1	0	0	0	0	1	0	0	0	16567	1696	59	3	473	3	TRIM68	11	4621976	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	54929	4621976	130384540	1718	15231											
TRIM6-TRIM34	445372	broad.mit.edu	37	chr11	5624748	5624748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaccagccagggaacctgcGgcctaatcggcatctggcca	9	6	11	15	2	1	0	0	0	1	0	2	1	1	1	5	4	4	1	5	4	3	2	rs138509220		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:5624748G>A	uc001mbf.2	+	2	534	c.290G>A	c.(289-291)CGG>CAG	p.R97Q	HBG2_uc001mak.1_Intron|TRIM6_uc009yeo.1_Missense_Mutation_p.R69Q|TRIM6_uc010qzj.1_Intron|TRIM6_uc001mbc.1_Missense_Mutation_p.R69Q|TRIM6_uc001mbe.2_Intron|TRIM6_uc010qzk.1_Intron|TRIM6_uc010qzl.1_Intron|TRIM6_uc001mbd.2_Missense_Mutation_p.R97Q|TRIM6_uc001mbg.1_5'Flank|TRIM6_uc009yep.1_5'Flank	NM_001003819	NP_001003819	B2RNG4	B2RNG4_HUMAN	tripartite motif-containing 6 and tripartite	97						intracellular	zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;1.01e-08)|BRCA - Breast invasive adenocarcinoma(625;0.145)		GGGAACCTGCGGCCTAATCGG	0.557													11	48					0	0	0.00245	0	0		A	5624748	A	A	5624748	3	1	19	1	0	0	0	0	1	0	0	0	16560	1116	39	1	296	1	TRIM6-TRIM34	11	5624748	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1002772	5624748	129381768	1719	15232											
OR52N1	79473	broad.mit.edu	37	chr11	5809670	5809670	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagggaagcagatggccAcacagtggtccagggccatg	11	4	16	10	0	0	2	0	0	0	2	1	3	1	3	3	4	1	2	3	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:5809670A>G	uc010qzo.1	-	1	377	c.377T>C	c.(376-378)GTG>GCG	p.V126A	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001913	NP_001001913	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.05e-11)|LUSC - Lung squamous cell carcinoma(625;0.112)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.195)		GCAGATGGCCACACAGTGGTC	0.507													39	83					0	0	0.006999	0	0		G	5809670	G	G	5809670	3	3	19	1	0	0	0	0	1	0	0	0	11146	159	6	3	588	3	OR52N1	11	5809670	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	184922	5809670	129196846	1720	15233											
SMPD1	6609	broad.mit.edu	37	chr11	6413196	6413196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgcgggccctgaccaccGtcacagcacttgtgaggaag	10	6	12	13	2	1	2	1	2	0	0	1	3	1	3	3	2	3	1	3	2	2	1	rs2723669	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:6413196G>A	uc001mcw.2	+	2	1075	c.901G>A	c.(901-903)GTC>ATC	p.V301I	SMPD1_uc001mcv.1_Intron|SMPD1_uc009yex.2_RNA|SMPD1_uc001mcx.2_Missense_Mutation_p.V301I|SMPD1_uc009yew.2_Missense_Mutation_p.V300I	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	299					cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)	CCTGACCACCGTCACAGCACT	0.582													36	75					0	0	0.003271	0	0		A	6413196	A	A	6413196	3	1	19	1	0	0	0	0	1	0	0	0	14829	1145	40	1	907	1	SMPD1	11	6413196	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	603526	6413196	128593320	1721	15234											
DCHS1	8642	broad.mit.edu	37	chr11	6649868	6649868	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacctaggatgcggtactgCaactgcccattggctcccac	8	9	9	15	1	1	0	1	0	0	0	2	1	2	1	3	3	5	3	3	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:6649868C>T	uc001mem.1	-	13	5765	c.5355G>A	c.(5353-5355)TTG>TTA	p.L1785L		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1785	Cadherin 17.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGCGGTACTGCAACTGCCCAT	0.582													4	90					0	0	0.009096	0	0		T	6649868	T	T	6649868	2	4	19	1	0	0	0	0	0	0	0	1	4290	709	25	2		2	DCHS1	11	6649868	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	236672	6649868	128356648	1722	15235											
OR6A2	8590	broad.mit.edu	37	chr11	6816234	6816234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccttatagcgtccagcagCcgaaggaatgtgcatcacag	11	7	12	11	2	1	0	1	0	0	0	2	2	2	1	3	2	4	2	3	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:6816234C>T	uc001mes.1	-	1	906	c.706G>A	c.(706-708)GCT>ACT	p.A236T		NM_003696	NP_003687	O95222	OR6A2_HUMAN	olfactory receptor, family 6, subfamily A,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CGTCCAGCAGCCGAAGGAATG	0.493													15	129					0	0	0.00245	0	0		T	6816234	T	T	6816234	3	4	19	1	0	0	0	0	1	0	0	0	11205	739	26	2	281	2	OR6A2	11	6816234	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	166366	6816234	128190282	1723	15236											
ZNF214	7761	broad.mit.edu	37	chr11	7021758	7021758	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accacactcatcacacttatAtggtttttctcctgtgtgga	9	15	6	11	0	3	0	2	0	1	0	4	1	3	1	2	2	0	1	2	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:7021758A>G	uc001mfa.2	-	3	1459	c.1156T>C	c.(1156-1158)TAT>CAT	p.Y386H	ZNF214_uc010ray.1_Missense_Mutation_p.Y386H|ZNF214_uc009yfh.1_Missense_Mutation_p.Y386H	NM_013249	NP_037381	Q9UL59	ZN214_HUMAN	zinc finger protein 214	386	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				Epithelial(150;3.87e-08)|BRCA - Breast invasive adenocarcinoma(625;0.081)		TCACACTTATATGGTTTTTCT	0.393													35	104					0	0	0.005524	0	0		G	7021758	G	G	7021758	3	3	19	1	0	0	0	0	1	0	0	0	17795	449	16	3	668	3	ZNF214	11	7021758	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	205524	7021758	127984758	1724	15237											
TUB	7275	broad.mit.edu	37	chr11	8111723	8111723	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgggcccggcagtcagaggaAcaagcccccctggtggagtc	8	4	15	14	2	1	1	1	0	0	1	2	3	1	3	4	5	2	1	4	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:8111723A>G	uc001mga.2	+	3	347	c.198A>G	c.(196-198)GAA>GAG	p.E66E	TUB_uc010rbk.1_Silent_p.E72E|TUB_uc001mfy.2_Silent_p.E121E	NM_177972	NP_813977	P50607	TUB_HUMAN	tubby isoform b	66					phagocytosis|positive regulation of phagocytosis|response to stimulus	cytoplasm|extracellular region|nucleus|plasma membrane				ovary(1)	1		all_lung(207;6.91e-20)|Lung NSC(207;3.36e-17)		Epithelial(150;1.69e-62)|BRCA - Breast invasive adenocarcinoma(625;8.54e-06)|LUSC - Lung squamous cell carcinoma(625;0.000184)		AGTCAGAGGAACAAGCCCCCC	0.517													10	51					0	0	0.013537	0	0		G	8111723	G	G	8111723	2	3	19	1	0	0	0	0	0	0	0	1	16768	40	2	3		3	TUB	11	8111723	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1089965	8111723	126894793	1725	15238											
STK33	65975	broad.mit.edu	37	chr11	8478918	8478918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagatatgctatagctgatgCgagactttgaatgatccacc	13	11	9	8	1	0	5	0	3	0	2	1	6	1	5	2	0	3	2	2	0	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:8478918C>T	uc001mgi.1	-	5	1586	c.667G>A	c.(667-669)GCA>ACA	p.A223T	STK33_uc001mgj.1_Missense_Mutation_p.A223T|STK33_uc001mgk.1_Missense_Mutation_p.A223T|STK33_uc010rbn.1_Missense_Mutation_p.A182T|STK33_uc001mgl.3_Missense_Mutation_p.A36T|STK33_uc009yfp.2_Intron	NM_030906	NP_112168	Q9BYT3	STK33_HUMAN	serine/threonine kinase 33	223	Protein kinase.					Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|pancreas(1)|central_nervous_system(1)|skin(1)	7				Epithelial(150;2.13e-06)|BRCA - Breast invasive adenocarcinoma(625;0.239)		ATAGCTGATGCGAGACTTTGA	0.398													34	69					0	0	0.004878	0	0		T	8478918	T	T	8478918	3	4	19	1	0	0	0	0	1	0	0	0	15325	768	27	1	909	1	STK33	11	8478918	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	367195	8478918	126527598	1726	15239											
IPO7	10527	broad.mit.edu	37	chr11	9446771	9446771	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgaaaaaaagatggagccCtgcatatgattggctcttta	13	11	9	8	1	1	2	0	1	1	1	2	4	1	3	1	2	2	2	1	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:9446771C>T	uc001mho.2	+	12	1439	c.1297C>T	c.(1297-1299)CTG>TTG	p.L433L		NM_006391	NP_006382	O95373	IPO7_HUMAN	importin 7	433					interspecies interaction between organisms|signal transduction	Golgi apparatus|nuclear pore|soluble fraction	protein transporter activity|Ran GTPase binding|small GTPase regulator activity			lung(1)|breast(1)	2				all cancers(16;8.29e-09)|Epithelial(150;4.76e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0217)		AGATGGAGCCCTGCATATGAT	0.348													6	105					0	0	0.001168	0	0		T	9446771	T	T	9446771	2	4	19	1	0	0	0	0	0	0	0	1	7813	680	24	4		4	IPO7	11	9446771	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	967853	9446771	125559745	1727	15240											
IPO7	10527	broad.mit.edu	37	chr11	9452545	9452545	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagtgtagttgaagatcatAaagaggtaagaagatgatct	16	12	11	2	0	2	6	1	2	1	4	2	6	2	6	0	1	0	3	0	1	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:9452545A>G	uc001mho.2	+	16	2018	c.1876A>G	c.(1876-1878)AAA>GAA	p.K626E		NM_006391	NP_006382	O95373	IPO7_HUMAN	importin 7	626					interspecies interaction between organisms|signal transduction	Golgi apparatus|nuclear pore|soluble fraction	protein transporter activity|Ran GTPase binding|small GTPase regulator activity			lung(1)|breast(1)	2				all cancers(16;8.29e-09)|Epithelial(150;4.76e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0217)		TGAAGATCATAAAGAGGTAAG	0.388													9	56					0	0	0.004482	0	0		G	9452545	G	G	9452545	3	3	19	1	0	0	0	0	1	0	0	0	7813	363	13	3	1938	3	IPO7	11	9452545	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5774	9452545	125553971	1728	15241											
IPO7	10527	broad.mit.edu	37	chr11	9456521	9456521	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattatgtaacagttgatacAgacacacttctgtctgacac	14	12	6	9	0	2	3	0	2	2	1	2	3	2	3	0	0	2	2	0	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:9456521A>G	uc001mho.2	+	19	2257	c.2115A>G	c.(2113-2115)ACA>ACG	p.T705T		NM_006391	NP_006382	O95373	IPO7_HUMAN	importin 7	705					interspecies interaction between organisms|signal transduction	Golgi apparatus|nuclear pore|soluble fraction	protein transporter activity|Ran GTPase binding|small GTPase regulator activity			lung(1)|breast(1)	2				all cancers(16;8.29e-09)|Epithelial(150;4.76e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0217)		CAGTTGATACAGACACACTTC	0.328													34	85					0	0	0.006999	0	0		G	9456521	G	G	9456521	2	3	19	1	0	0	0	0	0	0	0	1	7813	175	7	3		3	IPO7	11	9456521	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3976	9456521	125549995	1729	15242											
SBF2	81846	broad.mit.edu	37	chr11	9875254	9875254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctctcagctacacttcctGcaatactaagacagtcaagg	13	9	7	12	0	2	1	2	0	1	1	4	1	3	1	1	1	5	3	1	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:9875254G>A	uc001mib.2	-	20	2507	c.2369C>T	c.(2368-2370)GCA>GTA	p.A790V	SBF2_uc001mif.3_Missense_Mutation_p.A546V|uc001mig.2_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	790					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		TACACTTCCTGCAATACTAAG	0.378													63	130					0	0	0.01441	0	0		A	9875254	A	A	9875254	3	1	19	1	0	0	0	0	1	0	0	0	13884	1319	46	2	3264	2	SBF2	11	9875254	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	418733	9875254	125131262	1730	15243											
SBF2	81846	broad.mit.edu	37	chr11	9990009	9990009	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgggcttcattaatctctggGaaaggaagaatatgaactcg	13	10	11	7	2	2	2	1	1	1	1	4	4	2	4	0	3	1	1	0	3	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:9990009G>A	uc001mib.2	-	14	1617	c.1479C>T	c.(1477-1479)TTC>TTT	p.F493F	SBF2_uc001mif.3_Silent_p.F249F|SBF2_uc001mih.3_Silent_p.F22F	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	493					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		TAATCTCTGGGAAAGGAAGAA	0.418													12	343					0	0	0.010729	0	0		A	9990009	A	A	9990009	2	1	19	1	0	0	0	0	0	0	0	1	13884	1165	41	4		4	SBF2	11	9990009	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	114755	9990009	125016507	1731	15244											
CTR9	9646	broad.mit.edu	37	chr11	10785222	10785222	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcttttcagtactattaTcaagccacacagtttgcctc	11	13	5	12	0	2	0	2	0	0	0	3	0	2	0	2	0	4	3	2	0	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:10785222T>C	uc001mja.2	+	9	1139	c.990T>C	c.(988-990)TAT>TAC	p.Y330Y		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	330	TPR 6.				histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		AGTACTATTATCAAGCCACAC	0.333													5	86					0	0	0.000602	0	0		C	10785222	C	C	10785222	2	2	19	1	0	0	0	0	0	0	0	1	4027	1442	50	3		3	CTR9	11	10785222	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	795213	10785222	124221294	1732	15245											
CTR9	9646	broad.mit.edu	37	chr11	10789381	10789381	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agatgcttggtctttgattgGcaatcttcatttggcaaaac	10	15	9	7	0	3	2	1	1	2	1	3	2	3	2	0	3	2	3	0	3	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:10789381G>T	uc001mja.2	+	14	1864	c.1715G>T	c.(1714-1716)GGC>GTC	p.G572V		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	572	TPR 12.				histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		TCTTTGATTGGCAATCTTCAT	0.393													10	504					2.27111e-07	2.35657e-07	0.013537	1	0		T	10789381	T	T	10789381	3	4	19	1	0	0	0	0	1	0	0	0	4027	1203	42	5	1769	5	CTR9	11	10789381	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4159	10789381	124217135	1733	15246											
CTR9	9646	broad.mit.edu	37	chr11	10789658	10789658	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtgctctggccatctacaAacaagtactcagaaatgatg	13	10	8	10	1	3	2	1	1	2	1	4	2	3	2	1	1	4	2	1	1	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:10789658A>G	uc001mja.2	+	15	2059	c.1910A>G	c.(1909-1911)AAA>AGA	p.K637R		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	637	TPR 13.				histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		GCCATCTACAAACAAGTACTC	0.348													4	110					0	0	0.009096	0	0		G	10789658	G	G	10789658	3	3	19	1	0	0	0	0	1	0	0	0	4027	14	1	3	1968	3	CTR9	11	10789658	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	277	10789658	124216858	1734	15247											
MICAL2	9645	broad.mit.edu	37	chr11	12234853	12234853	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcgattgccatcaccgccaActtcataaacagaaacagca	15	6	7	13	2	2	1	2	0	0	1	2	2	2	1	3	1	5	1	3	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:12234853A>C	uc001mjz.2	+	7	1031	c.743A>C	c.(742-744)AAC>ACC	p.N248T	MICAL2_uc010rch.1_Missense_Mutation_p.N248T|MICAL2_uc001mka.2_Missense_Mutation_p.N248T|MICAL2_uc010rci.1_Missense_Mutation_p.N248T|MICAL2_uc001mkb.2_Missense_Mutation_p.N248T|MICAL2_uc001mkc.2_Missense_Mutation_p.N248T|MICAL2_uc001mkd.2_Missense_Mutation_p.N77T|MICAL2_uc001mke.2_5'Flank	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	248						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		ATCACCGCCAACTTCATAAAC	0.438													6	246					0	0	0.001984	0	0		C	12234853	C	C	12234853	3	2	19	1	0	0	0	0	1	0	0	0	9588	43	2	5	761	5	MICAL2	11	12234853	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1445195	12234853	122771663	1735	15248											
MICAL2	9645	broad.mit.edu	37	chr11	12237834	12237834	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtaatgacagccaagaagCagagcctgctcgacaaaggt	14	7	11	9	1	0	3	0	1	0	2	1	4	0	3	2	1	4	3	2	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:12237834C>T	uc001mjz.2	+	8	1204	c.916C>T	c.(916-918)CAG>TAG	p.Q306*	MICAL2_uc010rch.1_Nonsense_Mutation_p.Q306*|MICAL2_uc001mka.2_Nonsense_Mutation_p.Q306*|MICAL2_uc010rci.1_Nonsense_Mutation_p.Q306*|MICAL2_uc001mkb.2_Nonsense_Mutation_p.Q306*|MICAL2_uc001mkc.2_Nonsense_Mutation_p.Q306*|MICAL2_uc001mkd.2_Nonsense_Mutation_p.Q135*|MICAL2_uc001mke.2_5'Flank	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	306						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		AGCCAAGAAGCAGAGCCTGCT	0.478													10	122					0	0	0.006214	0	0		T	12237834	T	T	12237834	4	4	19	1	0	0	0	0	0	1	0	0	9588	711	25	2	938	2	MICAL2	11	12237834	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2981	12237834	122768682	1736	15249											
SOX6	55553	broad.mit.edu	37	chr11	16077437	16077437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcatgctggccagctgagcgGcatagagctgctgcaaaaca	11	6	13	11	1	0	2	0	1	0	1	0	2	0	2	1	2	7	7	1	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:16077437G>A	uc001mme.2	-	10	1184	c.1151C>T	c.(1150-1152)GCC>GTC	p.A384V	SOX6_uc001mmd.2_Missense_Mutation_p.A333V|SOX6_uc001mmf.2_Missense_Mutation_p.A330V|SOX6_uc001mmg.2_Missense_Mutation_p.A371V	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	371					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						CAGCTGAGCGGCATAGAGCTG	0.448													32	56					0	0	0.008361	0	0		A	16077437	A	A	16077437	3	1	19	1	0	0	0	0	1	0	0	0	14980	1203	42	2	1444	2	SOX6	11	16077437	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3839603	16077437	118929079	1737	15250											
PLEKHA7	144100	broad.mit.edu	37	chr11	16816142	16816142	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgcagctgggggaagagtcGaacctccagaggggtccgca	9	6	16	10	2	0	2	0	0	0	2	3	4	2	3	3	4	3	3	3	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:16816142G>A	uc001mmo.2	-	19	2653	c.2638C>T	c.(2638-2640)CGA>TGA	p.R880*	PLEKHA7_uc010rcu.1_Nonsense_Mutation_p.R880*|PLEKHA7_uc001mmm.2_5'Flank|PLEKHA7_uc010rcv.1_Nonsense_Mutation_p.R454*|PLEKHA7_uc001mmn.2_Nonsense_Mutation_p.R588*	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	880	Pro-rich.				epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3						GGGAAGAGTCGAACCTCCAGA	0.622													50	106					0	0	0.01441	0	0		A	16816142	A	A	16816142	4	1	19	1	0	0	0	0	0	1	0	0	12080	1066	37	1	747	1	PLEKHA7	11	16816142	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	738705	16816142	118190374	1738	15251											
PIK3C2A	5286	broad.mit.edu	37	chr11	17150966	17150966	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccaaaaagagtaaggtgAagaactgattctaatggcaa	18	9	9	5	0	1	4	0	2	1	2	2	4	2	4	1	2	1	2	1	2	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:17150966A>G	uc001mmq.3	-	12	2346	c.2280T>C	c.(2278-2280)CTT>CTC	p.L760L	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Silent_p.L380L|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	760					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	GAGTAAGGTGAAGAACTGATT	0.343													30	80					0	0	0.007291	0	0		G	17150966	G	G	17150966	2	3	19	1	0	0	0	0	0	0	0	1	11928	233	9	3		3	PIK3C2A	11	17150966	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	334824	17150966	117855550	1739	15252											
KCNJ11	3767	broad.mit.edu	37	chr11	17408964	17408964	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcaccacctcgccctcgggGctggtggtcttgcgtaccac	4	8	13	16	3	1	0	0	0	1	0	3	0	1	0	4	5	2	3	4	5	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:17408964G>A	uc001mna.2	-	1	1243	c.675C>T	c.(673-675)AGC>AGT	p.S225S	KCNJ11_uc001mnb.3_Silent_p.S138S	NM_000525	NP_000516	B4DWI4	B4DWI4_HUMAN	potassium inwardly-rectifying channel J11	225						integral to membrane	ATP-activated inward rectifier potassium channel activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0276)|Colorectal(2;0.0633)		CGCCCTCGGGGCTGGTGGTCT	0.637											OREG0020810	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	77					0	0	0.006214	0	0		A	17408964	A	A	17408964	2	1	19	1	0	0	0	0	0	0	0	1	8061	1194	42	2		2	KCNJ11	11	17408964	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	257998	17408964	117597552	1740	15253											
ABCC8	6833	broad.mit.edu	37	chr11	17428579	17428579	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacaggagcaggatgccggcGgaggacaggtacttggcgca	10	4	18	9	3	0	0	0	0	0	0	0	5	0	4	1	7	3	3	1	7	1	2	rs149279510		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:17428579G>A	uc001mnc.2	-	25	3144	c.3018C>T	c.(3016-3018)TCC>TCT	p.S1006S		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1006	Helical; Name=12; (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	GGATGCCGGCGGAGGACAGGT	0.622													39	72					0	0	0.010771	0	0		A	17428579	A	A	17428579	2	1	19	1	0	0	0	0	0	0	0	1	58	1103	39	1		1	ABCC8	11	17428579	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	19615	17428579	117577937	1741	15254											
KCNC1	3746	broad.mit.edu	37	chr11	17793376	17793376	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccgagacggaggccttcctTacctacatcgagggcgtctg	7	8	13	13	4	1	1	0	0	1	1	3	4	2	2	4	3	2	0	4	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:17793376T>C	uc001mnk.3	+	2	790	c.735T>C	c.(733-735)CTT>CTC	p.L245L	KCNC1_uc009yhc.1_Silent_p.L245L	NM_004976	NP_004967	P48547	KCNC1_HUMAN	Shaw-related voltage-gated potassium channel	245						voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)	1						AGGCCTTCCTTACCTACATCG	0.557													19	162					0	0	0.006122	0	0		C	17793376	C	C	17793376	2	2	19	1	0	0	0	0	0	0	0	1	8030	1741	61	3		3	KCNC1	11	17793376	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	364797	17793376	117213140	1742	15255											
KCNC1	3746	broad.mit.edu	37	chr11	17793706	17793706	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcttcctggccttgggCgtgctgatcttcgccaccat	5	13	9	14	2	3	1	1	1	2	0	5	1	4	1	4	2	1	1	4	2	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:17793706C>T	uc001mnk.3	+	2	1120	c.1065C>T	c.(1063-1065)GGC>GGT	p.G355G	KCNC1_uc009yhc.1_Silent_p.G355G	NM_004976	NP_004967	P48547	KCNC1_HUMAN	Shaw-related voltage-gated potassium channel	355	Helical; Name=Segment S5; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)	1						TGGCCTTGGGCGTGCTGATCT	0.602													11	24					0	0	0.013537	0	0		T	17793706	T	T	17793706	2	4	19	1	0	0	0	0	0	0	0	1	8030	755	27	1		1	KCNC1	11	17793706	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	330	17793706	117212810	1743	15256											
MRGPRX4	117196	broad.mit.edu	37	chr11	18195607	18195607	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctctaaacagtagtgccaaCcccatcatttacttcttcgt	10	14	4	13	1	3	0	1	0	2	0	5	0	3	0	3	0	4	1	3	0	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:18195607C>T	uc001mnv.1	+	1	1224	c.804C>T	c.(802-804)AAC>AAT	p.N268N		NM_054032	NP_473373	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	268	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						GTAGTGCCAACCCCATCATTT	0.488													43	102					0	0	0.01441	0	0		T	18195607	T	T	18195607	2	4	19	1	0	0	0	0	0	0	0	1	9787	506	18	4		4	MRGPRX4	11	18195607	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	401901	18195607	116810909	1744	15257											
NAV2	89797	broad.mit.edu	37	chr11	19954827	19954827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactaattgcagtacctcctCggccatcccgcagcccggtg	7	9	9	16	3	0	0	0	0	0	0	3	0	2	0	5	2	4	3	5	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:19954827C>T	uc010rdm.1	+	8	1467	c.1106C>T	c.(1105-1107)TCG>TTG	p.S369L	NAV2_uc001mpp.2_Missense_Mutation_p.S282L|NAV2_uc001mpr.3_Missense_Mutation_p.S346L	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	369						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						AGTACCTCCTCGGCCATCCCG	0.607													101	213					0	0	0.01441	0	0		T	19954827	T	T	19954827	3	4	19	1	0	0	0	0	1	0	0	0	10202	893	31	1	1142	1	NAV2	11	19954827	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1759220	19954827	115051689	1745	15258											
DBX1	120237	broad.mit.edu	37	chr11	20177851	20177851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgggactgctcgagtgcGcgggcgaggggggcagcggc	4	4	21	12	6	0	0	0	0	0	0	2	3	1	1	1	6	3	2	1	6	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:20177851G>A	uc001mpw.1	-	4	1058	c.1058C>T	c.(1057-1059)GCG>GTG	p.A353V		NM_001029865	NP_001025036	A6NMT0	DBX1_HUMAN	developing brain homeobox 1	314					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCTCGAGTGCGCGGGCGAGGG	0.706													75	68					0	0	0.01441	0	0		A	20177851	A	A	20177851	3	1	19	1	0	0	0	0	1	0	0	0	4262	1087	38	1	94	1	DBX1	11	20177851	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	223024	20177851	114828665	1746	15259											
NELL1	4745	broad.mit.edu	37	chr11	20699478	20699478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctttgttcctttccagTggtgggctttgggatggacc	5	15	12	9	0	1	0	0	0	1	0	3	2	3	2	3	4	1	2	3	4	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:20699478T>C	uc001mqe.2	+	2	209	c.56T>C	c.(55-57)GTG>GCG	p.V19A	NELL1_uc001mqf.2_Missense_Mutation_p.V19A|NELL1_uc009yid.2_Missense_Mutation_p.V47A|NELL1_uc010rdo.1_Missense_Mutation_p.V19A|NELL1_uc010rdp.1_5'UTR	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	19					cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						TCCTTTCCAGTGGTGGGCTTT	0.502													4	108					0	0	0.000602	0	0		C	20699478	C	C	20699478	3	2	19	1	0	0	0	0	1	0	0	0	10352	1710	59	3	62	3	NELL1	11	20699478	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	521627	20699478	114307038	1747	15260											
NELL1	4745	broad.mit.edu	37	chr11	20959366	20959366	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggaaaagttcttgcagaAggccagcggattttaaccaa	14	8	12	7	1	1	1	0	0	1	1	1	4	1	4	2	4	3	2	2	4	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:20959366A>C	uc001mqe.2	+	10	1185	c.1032A>C	c.(1030-1032)GAA>GAC	p.E344D	NELL1_uc001mqf.2_Missense_Mutation_p.E344D|NELL1_uc009yid.2_Missense_Mutation_p.E372D|NELL1_uc010rdo.1_Missense_Mutation_p.E287D|NELL1_uc010rdp.1_Missense_Mutation_p.E104D	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	344	VWFC 2.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						TTCTTGCAGAAGGCCAGCGGA	0.418													5	112					0	0	0.001984	0	0		C	20959366	C	C	20959366	3	2	19	1	0	0	0	0	1	0	0	0	10352	69	3	5	1070	5	NELL1	11	20959366	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	259888	20959366	114047150	1748	15261											
ANO5	203859	broad.mit.edu	37	chr11	22284591	22284591	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaagaagccatttatccgTatgtatgacttacaagcttt	13	15	6	7	1	0	2	0	1	0	1	1	2	1	2	2	0	3	3	2	0	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:22284591T>C	uc001mqi.2	+	17	2215	c.1898_splice	c.e17+2	p.P633_splice	ANO5_uc001mqj.2_Splice_Site_p.P632_splice	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a							chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						CATTTATCCGTATGTATGACT	0.343													13	75					0	0	0.001855	0	0		C	22284591	C	C	22284591	5	2	19	1	0	0	0	0	0	0	1	0	700	1652	57	3	1966	3	ANO5	11	22284591	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1325225	22284591	112721925	1749	15262											
ANO5	203859	broad.mit.edu	37	chr11	22294393	22294393	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggctcctcttcttgctcTcataaataatattgtagaga	10	17	6	8	0	3	1	1	0	3	1	5	2	4	1	1	1	1	3	1	1	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:22294393T>C	uc001mqi.2	+	19	2410	c.2093T>C	c.(2092-2094)CTC>CCC	p.L698P	ANO5_uc001mqj.2_Missense_Mutation_p.L697P	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	698	Helical; (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						CTTCTTGCTCTCATAAATAAT	0.378													12	96					0	0	0.013537	0	0		C	22294393	C	C	22294393	3	2	19	1	0	0	0	0	1	0	0	0	700	1551	54	3	2167	3	ANO5	11	22294393	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	9802	22294393	112712123	1750	15263											
KIF18A	81930	broad.mit.edu	37	chr11	28104461	28104461	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttgcttggtcattttcatTagtgaaggctttctgttctt	5	21	8	7	0	4	1	2	1	2	0	4	1	4	1	0	2	1	3	0	2	2	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:28104461T>C	uc001msc.2	-	9	1386	c.1204A>G	c.(1204-1206)AAT>GAT	p.N402D		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	402	Potential.				blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						TCATTTTCATTAGTGAAGGCT	0.279													14	46					0	0	0.006122	0	0		C	28104461	C	C	28104461	3	2	19	1	0	0	0	0	1	0	0	0	8296	1754	61	3	1528	3	KIF18A	11	28104461	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	5810068	28104461	106902055	1751	15264											
KIF18A	81930	broad.mit.edu	37	chr11	28112997	28112997	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacgaccacccctttttgggTatcttcccggacagcaagtg	9	10	9	13	2	1	0	0	0	1	0	2	2	2	1	4	2	2	2	4	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:28112997T>C	uc001msc.2	-	4	729	c.547A>G	c.(547-549)ACC>GCC	p.T183A		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	183	Kinesin-motor.				blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						CCTTTTTGGGTATCTTCCCGG	0.353													7	171					0	0	0.004482	0	0		C	28112997	C	C	28112997	3	2	19	1	0	0	0	0	1	0	0	0	8296	1638	57	3	2205	3	KIF18A	11	28112997	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	8536	28112997	106893519	1752	15265											
MPPED2	744	broad.mit.edu	37	chr11	30435828	30435828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggactcgcctctgaaccGtgtttaacagctccacacag	9	8	9	15	3	1	1	0	1	1	0	3	2	2	2	4	1	3	2	4	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:30435828G>A	uc001msr.2	-	5	833	c.713C>T	c.(712-714)ACG>ATG	p.T238M	MPPED2_uc001msq.3_Missense_Mutation_p.T238M|MPPED2_uc009yji.2_Missense_Mutation_p.T112M	NM_001584	NP_001575	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2	238					nervous system development		hydrolase activity|metal ion binding			skin(1)	1						CCTCTGAACCGTGTTTAACAG	0.458													21	51					0	0	0.010504	0	0		A	30435828	A	A	30435828	3	1	19	1	0	0	0	0	1	0	0	0	9760	1145	40	1	251	1	MPPED2	11	30435828	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2322831	30435828	104570688	1753	15266											
MPPED2	744	broad.mit.edu	37	chr11	30517060	30517060	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactattttatattcatatgGcaggtttcctgaaataagaa	14	15	6	6	0	1	2	1	1	0	1	2	2	2	2	1	2	0	2	1	2	7	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:30517060G>A	uc001msr.2	-	3	439	c.319C>T	c.(319-321)CCA>TCA	p.P107S	MPPED2_uc001msq.3_Missense_Mutation_p.P107S|MPPED2_uc009yji.2_5'UTR	NM_001584	NP_001575	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2	107					nervous system development		hydrolase activity|metal ion binding			skin(1)	1						TATTCATATGGCAGGTTTCCT	0.413													21	42					0	0	0.010504	0	0		A	30517060	A	A	30517060	3	1	19	1	0	0	0	0	1	0	0	0	9760	1203	42	2	653	2	MPPED2	11	30517060	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	81232	30517060	104489456	1754	15267											
ELP4	26610	broad.mit.edu	37	chr11	31616422	31616422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagatgaaaatagcttggCgttaccagttattacccaag	14	12	8	7	1	0	2	0	1	0	1	0	2	0	2	2	1	3	3	2	1	8	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:31616422C>T	uc001mtb.2	+	4	522	c.487C>T	c.(487-489)CGT>TGT	p.R163C	ELP4_uc001mta.1_RNA|ELP4_uc001mtc.2_Missense_Mutation_p.R163C|ELP4_uc010rdz.1_Missense_Mutation_p.R163C	NM_019040	NP_061913	Q96EB1	ELP4_HUMAN	elongation protein 4 homolog	163					histone acetylation|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|Elongator holoenzyme complex|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|prostate(1)	3	Lung SC(675;0.225)					AATAGCTTGGCGTTACCAGTT	0.313													9	34					0	0	0.008291	0	0		T	31616422	T	T	31616422	3	4	19	1	0	0	0	0	1	0	0	0	5090	768	27	1	501	1	ELP4	11	31616422	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1099362	31616422	103390094	1755	15268											
CSTF3	1479	broad.mit.edu	37	chr11	33117933	33117933	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagccccagctcaaaaaTcttaaaggcaacagatttgt	14	12	6	9	0	2	1	1	0	1	1	2	1	2	1	2	1	3	2	2	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:33117933T>A	uc001muh.2	-	15	1460	c.1294A>T	c.(1294-1296)ATT>TTT	p.I432F	TCP11L1_uc001muf.1_Intron	NM_001326	NP_001317	Q12996	CSTF3_HUMAN	cleavage stimulation factor subunit 3 isoform 1	432					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding				0						AGCTCAAAAATCTTAAAGGCA	0.333													9	132					0	0	0.004482	0	0		A	33117933	A	A	33117933	3	1	19	1	0	0	0	0	1	0	0	0	3989	1435	50	5	887	5	CSTF3	11	33117933	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1501511	33117933	101888583	1756	15269											
CSTF3	1479	broad.mit.edu	37	chr11	33127542	33127542	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattaaaaagttttaactctAcctgataggacataatttcc	15	14	4	8	0	1	1	0	1	1	0	2	2	2	2	2	1	2	1	2	1	7	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:33127542A>G	uc001muh.2	-	6	589	c.423_splice	c.e6+1	p.Q141_splice		NM_001326	NP_001317	Q12996	CSTF3_HUMAN	cleavage stimulation factor subunit 3 isoform 1						mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding				0						TTTTAACTCTACCTGATAGGA	0.289													3	78					0	0	0.004672	0	0		G	33127542	G	G	33127542	5	3	19	1	0	0	0	0	0	0	1	0	3989	405	14	3	1792	3	CSTF3	11	33127542	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	9609	33127542	101878974	1757	15270											
HIPK3	10114	broad.mit.edu	37	chr11	33369426	33369426	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcatgcagcaatcattatAactcagtgatgccgcagcct	11	12	7	11	1	3	1	3	1	0	0	3	1	3	1	2	0	5	3	2	0	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:33369426A>T	uc001mul.1	+	11	2443	c.2173A>T	c.(2173-2175)AAC>TAC	p.N725Y	HIPK3_uc001mum.1_Missense_Mutation_p.N725Y|HIPK3_uc009yjv.1_Missense_Mutation_p.N725Y	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	725					anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						CAATCATTATAACTCAGTGAT	0.423													28	57					0	0	0.007291	0	0		T	33369426	T	T	33369426	3	4	19	1	0	0	0	0	1	0	0	0	7134	362	13	5	2211	5	HIPK3	11	33369426	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	241884	33369426	101637090	1758	15271											
NAT10	55226	broad.mit.edu	37	chr11	34130297	34130297	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtttggcaggtggtaatActtcatcacatgttatccaa	10	16	8	7	0	2	0	2	0	0	0	3	0	3	0	1	3	1	4	1	3	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:34130297A>G	uc001mvk.2	+	3	361	c.117A>G	c.(115-117)ATA>ATG	p.I39M	NAT10_uc010ren.1_Intron	NM_024662	NP_078938	Q9H0A0	NAT10_HUMAN	N-acetyltransferase 10 isoform a	39						nucleolus	ATP binding|N-acetyltransferase activity|protein binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0119)|all_hematologic(20;0.0231)				AGGTGGTAATACTTCATCACA	0.279													10	81					0	0	0.010729	0	0		G	34130297	G	G	34130297	3	3	19	1	0	0	0	0	1	0	0	0	10192	381	14	3	123	3	NAT10	11	34130297	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	760871	34130297	100876219	1759	15272											
ABTB2	25841	broad.mit.edu	37	chr11	34194790	34194790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccacggtgaggctgcggcGgtgctctgcgtaggtgatgg	4	9	19	9	4	1	2	0	2	1	0	2	2	2	2	1	6	3	3	1	6	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:34194790G>A	uc001mvl.1	-	4	981	c.751C>T	c.(751-753)CGC>TGC	p.R251C		NM_145804	NP_665803	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing	251							DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)				AGGCTGCGGCGGTGCTCTGCG	0.672													6	18					0	0	0.004482	0	0		A	34194790	A	A	34194790	3	1	19	1	0	0	0	0	1	0	0	0	103	1116	39	1	1824	1	ABTB2	11	34194790	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	64493	34194790	100811726	1760	15273											
TRIM44	54765	broad.mit.edu	37	chr11	35685113	35685113	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaagaagaaggggaatccGaggcggagggagaaactgag	16	2	17	6	2	0	4	0	1	0	3	1	8	1	6	2	5	1	0	2	5	5	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:35685113G>A	uc001mwi.2	+	1	761	c.454G>A	c.(454-456)GAG>AAG	p.E152K		NM_017583	NP_060053	Q96DX7	TRI44_HUMAN	DIPB protein	152	Glu-rich.					intracellular	protein binding|zinc ion binding			skin(1)	1	all_lung(20;0.0317)|Lung NSC(22;0.0661)|all_epithelial(35;0.115)	all_hematologic(20;0.107)				aggggaatccgaggcggaggg	0.209													10	21					0	0	0.010729	0	0		A	35685113	A	A	35685113	3	1	19	1	0	0	0	0	1	0	0	0	16545	1059	37	1	456	1	TRIM44	11	35685113	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1490323	35685113	99321403	1761	15274											
ALKBH3	221120	broad.mit.edu	37	chr11	43908177	43908177	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagagggtgtgtatgaaatCagcctgtcacccacaggtgt	11	9	13	8	0	2	2	2	1	0	1	2	3	2	2	2	2	1	1	2	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:43908177C>T	uc001mxs.2	+	5	683	c.240C>T	c.(238-240)ATC>ATT	p.I80I	ALKBH3_uc009ykp.2_RNA|ALKBH3_uc001mxt.2_RNA|ALKBH3_uc009ykq.2_5'UTR	NM_139178	NP_631917	Q96Q83	ALKB3_HUMAN	AlkB homolog 3	80					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation	mitochondrion|nucleoplasm	damaged DNA binding|DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0					Vitamin C(DB00126)	TGTATGAAATCAGCCTGTCAC	0.388								Direct_reversal_of_damage					10	85					0	0	0.008291	0	0		T	43908177	T	T	43908177	2	4	19	1	0	0	0	0	0	0	0	1	528	816	29	4		4	ALKBH3	11	43908177	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	8223064	43908177	91098339	1762	15275											
EXT2	2132	broad.mit.edu	37	chr11	44255775	44255775	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctggtggccaacgtcacGggaaaagcagttatcaaggt	11	9	12	9	2	2	0	2	0	0	0	3	1	3	1	2	4	2	2	2	4	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:44255775G>A	uc001mxz.2	+	12	2251	c.1917G>A	c.(1915-1917)ACG>ACA	p.T639T	EXT2_uc010rfo.1_Silent_p.T667T|EXT2_uc001mxy.2_Silent_p.T652T|EXT2_uc009ykt.2_Silent_p.T649T|EXT2_uc001mya.2_Silent_p.T672T	NM_207122	NP_997005	Q93063	EXT2_HUMAN	exostosin 2 isoform 2	639	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity			lung(2)|breast(2)|skin(1)	5						CCAACGTCACGGGAAAAGCAG	0.284			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses				10	30					0	0	0.008291	0	0		A	44255775	A	A	44255775	2	1	19	1	0	0	0	0	0	0	0	1	5332	1103	39	1		1	EXT2	11	44255775	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	347598	44255775	90750741	1763	15276											
GYLTL1B	120071	broad.mit.edu	37	chr11	45947886	45947886	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgctgctactctgaggcGtctgacctcaaggtgagtgg	7	9	15	10	2	3	3	1	3	2	0	3	4	3	3	1	3	3	2	1	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:45947886G>A	uc001nbv.1	+	8	1107	c.996G>A	c.(994-996)GCG>GCA	p.A332A	GYLTL1B_uc001nbw.1_Silent_p.A301A|GYLTL1B_uc001nbx.1_Silent_p.A332A|GYLTL1B_uc001nby.1_5'Flank|GYLTL1B_uc001nbz.1_5'Flank	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	332	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		ACTCTGAGGCGTCTGACCTCA	0.617													44	84					0	0	0.01441	0	0		A	45947886	A	A	45947886	2	1	19	1	0	0	0	0	0	0	0	1	6923	1132	40	1		1	GYLTL1B	11	45947886	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1692111	45947886	89058630	1764	15277											
DGKZ	8525	broad.mit.edu	37	chr11	46394198	46394198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgcaaagtgcacaacctgCggatcctggcgtgcgggggc	8	5	15	13	4	0	0	0	0	0	0	1	1	1	1	3	4	4	2	3	4	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:46394198C>T	uc001ncn.1	+	13	1731	c.1606C>T	c.(1606-1608)CGG>TGG	p.R536W	DGKZ_uc001nch.1_Missense_Mutation_p.R364W|DGKZ_uc010rgq.1_Missense_Mutation_p.R291W|DGKZ_uc001ncj.1_Missense_Mutation_p.R314W|DGKZ_uc010rgr.1_Missense_Mutation_p.R313W|DGKZ_uc001nck.1_Missense_Mutation_p.R126W|DGKZ_uc001ncl.2_Missense_Mutation_p.R348W|DGKZ_uc001ncm.2_Missense_Mutation_p.R347W|DGKZ_uc009yky.1_Missense_Mutation_p.R348W|DGKZ_uc010rgs.1_Missense_Mutation_p.R325W	NM_001105540	NP_001099010	Q13574	DGKZ_HUMAN	diacylglycerol kinase zeta isoform 4	536	DAGKc.|Mediates interaction with RASGRP1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell migration|intracellular signal transduction|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of mitotic cell cycle|platelet activation	cytoplasm|lamellipodium|nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|diacylglycerol kinase activity|lipid kinase activity|metal ion binding|protein binding|protein C-terminus binding			pancreas(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.0259)|Lung(87;0.141)		GCACAACCTGCGGATCCTGGC	0.662													29	35					0	0	0.008361	0	0		T	46394198	T	T	46394198	3	4	19	1	0	0	0	0	1	0	0	0	4480	759	27	1	2099	1	DGKZ	11	46394198	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	446312	46394198	88612318	1765	15278											
CKAP5	9793	broad.mit.edu	37	chr11	46829614	46829614	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttactaaatctgcataatcGccagcttccagtttggggtt	9	15	8	9	1	1	0	0	0	1	0	3	0	2	0	2	2	3	4	2	2	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:46829614G>A	uc001ndi.1	-	8	1055	c.945C>T	c.(943-945)GGC>GGT	p.G315G	CKAP5_uc009ylg.1_Silent_p.G201G|CKAP5_uc001ndj.1_Silent_p.G315G	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	315					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						CTGCATAATCGCCAGCTTCCA	0.393													143	332					0	0	0.01441	0	0		A	46829614	A	A	46829614	2	1	19	1	0	0	0	0	0	0	0	1	3448	1074	38	1		1	CKAP5	11	46829614	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	435416	46829614	88176902	1766	15279											
ARFGAP2	84364	broad.mit.edu	37	chr11	47198140	47198140	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaagaaaacaccgtacgTgatgctggcccaactcggat	13	6	10	12	3	0	2	0	1	0	1	1	3	0	3	2	2	4	3	2	2	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:47198140T>C	uc001ndt.2	-	2	133	c.118A>G	c.(118-120)ACG>GCG	p.T40A	ARFGAP2_uc010rha.1_5'Flank|ARFGAP2_uc010rhb.1_Missense_Mutation_p.T40A|ARFGAP2_uc001ndu.2_Missense_Mutation_p.T40A|ARFGAP2_uc010rhc.1_5'UTR|ARFGAP2_uc010rhd.1_Missense_Mutation_p.T40A|ARFGAP2_uc001ndv.1_Missense_Mutation_p.T40A	NM_032389	NP_115765	Q8N6H7	ARFG2_HUMAN	ADP-ribosylation factor GTPase activating	40	C4-type.|Arf-GAP.			T -> M (in Ref. 1; BAB55144).	protein transport|regulation of ARF GTPase activity|vesicle-mediated transport	Golgi membrane|nucleolus|plasma membrane	ARF GTPase activator activity|zinc ion binding			ovary(1)	1						ACACCGTACGTGATGCTGGCC	0.622													7	65					0	0	0.001984	0	0		C	47198140	C	C	47198140	3	2	19	1	0	0	0	0	1	0	0	0	850	1696	59	3	1507	3	ARFGAP2	11	47198140	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	368526	47198140	87808376	1767	15280											
SPI1	6688	broad.mit.edu	37	chr11	47399860	47399861	+	Frame_Shift_Ins	INS	-	G	G																															gaggagtcccggtactcacaINSggggggacgaggggaaaccc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:47399860_47399861insG	uc001nfc.1	-	1	267_268	c.44_45insC	c.(43-45)CCTfs	p.P15fs	SPI1_uc001nfb.1_Frame_Shift_Ins_p.P15fs|SLC39A13_uc001nfd.2_Intron|SPI1_uc009ylp.1_Frame_Shift_Ins_p.P9fs	NM_003120	NP_003111	P17947	SPI1_HUMAN	hematopoietic transcription factor PU.1 isoform	15					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of erythrocyte differentiation	nucleus	protein binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)	2				Lung(87;0.0967)		CGGTACTCACAGGGGGGACGAG	0.683													12	26	---	---	---	---						.	G	47399861	G	G	47399860	7	5	19	1	0	1	1	0	0	0	0	0	15074	202	7	0	790	0	SPI1	11	47399860	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	201720	47399860	87606656	1768	15281											
C1QTNF4	114900	broad.mit.edu	37	chr11	47612348	47612348	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgggcccagcaggcccagCagaagcggcagcatggcgcc	8	2	16	15	2	0	1	0	0	0	1	0	1	0	1	3	4	4	5	3	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:47612348C>T	uc001ngc.2	-	2	282	c.15G>A	c.(13-15)CTG>CTA	p.L5L		NM_031909	NP_114115	Q9BXJ3	C1QT4_HUMAN	C1q and tumor necrosis factor related protein 4	5						extracellular region					0						GCAGGCCCAGCAGAAGCGGCA	0.741													7	3					0	0	0.001984	0	0		T	47612348	T	T	47612348	2	4	19	1	0	0	0	0	0	0	0	1	1968	697	25	2		2	C1QTNF4	11	47612348	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	212488	47612348	87394168	1769	15282											
MTCH2	23788	broad.mit.edu	37	chr11	47653245	47653245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagggtagcagcagaacgagCgatcatctctcgagttgtct	10	9	13	9	3	3	1	1	0	2	1	5	5	3	1	0	1	4	4	0	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:47653245C>T	uc010rho.1	-	6	577	c.388G>A	c.(388-390)GCT>ACT	p.A130T	MTCH2_uc001nge.2_Missense_Mutation_p.A3T|MTCH2_uc010rhp.1_Intron	NM_014342	NP_055157	Q9Y6C9	MTCH2_HUMAN	mitochondrial carrier 2	130	Solcar 2.				transport	integral to membrane|mitochondrial inner membrane					0						GCAGAACGAGCGATCATCTCT	0.428													29	68					0	0	0.007291	0	0		T	47653245	T	T	47653245	3	4	19	1	0	0	0	0	1	0	0	0	9932	768	27	1	555	1	MTCH2	11	47653245	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	40897	47653245	87353271	1770	15283											
AGBL2	79841	broad.mit.edu	37	chr11	47712295	47712295	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttttagcaagttgacaaTggtgaagcgataggtagcat	12	11	14	4	1	0	2	0	2	0	0	0	3	0	2	0	3	3	5	0	3	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:47712295T>C	uc001ngg.2	-	9	1064	c.964A>G	c.(964-966)ATT>GTT	p.I322V	AGBL2_uc001ngf.2_RNA|AGBL2_uc010rhq.1_Missense_Mutation_p.I284V|AGBL2_uc001ngh.1_Missense_Mutation_p.I266V	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	322					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						AAGTTGACAATGGTGAAGCGA	0.443													57	112					0	0	0.01441	0	0		C	47712295	C	C	47712295	3	2	19	1	0	0	0	0	1	0	0	0	376	1464	51	3	1784	3	AGBL2	11	47712295	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	59050	47712295	87294221	1771	15284											
NUP160	23279	broad.mit.edu	37	chr11	47806489	47806489	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaccttgtaactgtttatAagccaattaggcagaggcac	12	13	8	8	0	0	1	0	0	0	1	0	1	0	1	2	2	3	4	2	2	6	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:47806489A>G	uc001ngm.2	-	33	4060	c.3975T>C	c.(3973-3975)CTT>CTC	p.L1325L	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	1325					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						AACTGTTTATAAGCCAATTAG	0.378													4	120					0	0	0.009096	0	0		G	47806489	G	G	47806489	2	3	19	1	0	0	0	0	0	0	0	1	10776	349	13	3		3	NUP160	11	47806489	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	94194	47806489	87200027	1772	15285											
PTPRJ	5795	broad.mit.edu	37	chr11	48158680	48158680	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattgagaaggctggaaatTccagcaacgcaacacaagta	16	8	9	8	1	0	1	0	1	0	1	1	3	1	2	1	2	3	4	1	2	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:48158680T>C	uc001ngp.3	+	10	2354	c.1999T>C	c.(1999-2001)TCC>CCC	p.S667P	PTPRJ_uc010rhr.1_Missense_Mutation_p.S112P	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	667	Extracellular (Potential).|Fibronectin type-III 7.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						GGCTGGAAATTCCAGCAACGC	0.453													63	112					0	0	0.01441	0	0		C	48158680	C	C	48158680	3	2	19	1	0	0	0	0	1	0	0	0	12829	1783	62	3	2046	3	PTPRJ	11	48158680	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	352191	48158680	86847836	1773	15286											
OR4B1	119765	broad.mit.edu	37	chr11	48238713	48238713	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgattgtggtgatggccTatgattgctacgtggccatt	6	17	12	6	1	0	3	0	3	0	0	0	3	0	3	2	3	2	1	2	3	2	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:48238713T>C	uc010rhs.1	+	1	352	c.352T>C	c.(352-354)TAT>CAT	p.Y118H		NM_001005470	NP_001005470	Q8NGF8	OR4B1_HUMAN	olfactory receptor, family 4, subfamily B,	118	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|pancreas(1)	4						GGTGATGGCCTATGATTGCTA	0.468													37	111					0	0	0.004289	0	0		C	48238713	C	C	48238713	3	2	19	1	0	0	0	0	1	0	0	0	11063	1522	53	3	354	3	OR4B1	11	48238713	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	80033	48238713	86767803	1774	15287											
OR4P4	81300	broad.mit.edu	37	chr11	55406147	55406147	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actctttaccacccatttttTtggaggcatagagatcttca	10	15	6	10	0	3	1	1	0	2	1	3	3	3	2	2	2	1	1	2	2	2	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:55406147T>G	uc010rij.1	+	1	314	c.314T>G	c.(313-315)TTT>TGT	p.F105C		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						ACCCATTTTTTTGGAGGCATA	0.428													9	99					0	0	0.008291	0	0		G	55406147	G	G	55406147	3	3	19	1	0	0	0	0	1	0	0	0	11099	1841	64	5	316	5	OR4P4	11	55406147	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	7167434	55406147	79600369	1775	15288											
OR4C6	219432	broad.mit.edu	37	chr11	55432731	55432731	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatattttctgctgtgtttcTtgtcatgtatgtagccacag	8	18	8	7	0	3	0	1	0	2	0	3	0	3	0	1	0	2	4	1	0	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:55432731T>A	uc001nht.3	+	3	354	c.89T>A	c.(88-90)CTT>CAT	p.L30H	OR4C6_uc010rik.1_Missense_Mutation_p.L30H	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GCTGTGTTTCTTGTCATGTAT	0.378													17	216					0	0	0.008871	0	0		A	55432731	A	A	55432731	3	1	19	1	0	0	0	0	1	0	0	0	11071	1609	56	5	91	5	OR4C6	11	55432731	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	26584	55432731	79573785	1776	15289											
OR8J3	81168	broad.mit.edu	37	chr11	55905019	55905019	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtctcaggaaaaagtacAtggggttttgaagtcgagag	13	10	14	4	1	1	2	1	1	1	1	3	5	1	3	0	3	1	2	0	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:55905019A>G	uc010riz.1	-	1	176	c.176T>C	c.(175-177)ATG>ACG	p.M59T		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	59	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					GAAAAAGTACATGGGGTTTTG	0.458													55	141					0	0	0.01441	0	0		G	55905019	G	G	55905019	3	3	19	1	0	0	0	0	1	0	0	0	11261	217	8	3	773	3	OR8J3	11	55905019	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	472288	55905019	79101497	1777	15290											
OR5M10	390167	broad.mit.edu	37	chr11	56344778	56344778	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagtgaccagagagatgcaAatgttcttggacatcctgga	13	9	11	8	0	1	3	0	1	1	2	2	6	2	5	2	2	1	2	2	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:56344778A>G	uc001niz.1	-	1	420	c.420T>C	c.(418-420)ATT>ATC	p.I140I		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GAGAGATGCAAATGTTCTTGG	0.448													30	86					0	0	0.013726	0	0		G	56344778	G	G	56344778	2	3	19	1	0	0	0	0	0	0	0	1	11192	10	1	3		3	OR5M10	11	56344778	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	439759	56344778	78661738	1778	15291											
OR9G4	283189	broad.mit.edu	37	chr11	56510841	56510841	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagggcggtggacatggtAcctgaataaagcaatgggtt	12	8	15	6	1	0	2	0	1	0	1	0	3	0	3	1	5	2	3	1	5	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:56510841A>G	uc010rjo.1	-	1	447	c.447T>C	c.(445-447)GGT>GGC	p.G149G		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	149	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TGGACATGGTACCTGAATAAA	0.478													54	135					0	0	0.01441	0	0		G	56510841	G	G	56510841	2	3	19	1	0	0	0	0	0	0	0	1	11270	378	14	3		3	OR9G4	11	56510841	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	166063	56510841	78495675	1779	15292											
LRRC55	219527	broad.mit.edu	37	chr11	56950045	56950045	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcctggaggctcttgaGggcctaccggggctggtgac	5	8	16	12	1	2	2	1	2	1	0	2	3	2	3	3	6	2	2	3	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:56950045G>T	uc001njl.1	+	1	825	c.678G>T	c.(676-678)GAG>GAT	p.E226D		NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	196	LRR 5.					integral to membrane					0						AGGCTCTTGAGGGCCTACCGG	0.647													50	108					7.89702e-26	8.44204e-26	0.01441	1	0		T	56950045	T	T	56950045	3	4	19	1	0	0	0	0	1	0	0	0	9029	991	35	5	680	5	LRRC55	11	56950045	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	439204	56950045	78056471	1780	15293											
LRRC55	219527	broad.mit.edu	37	chr11	56950151	56950151	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaccggatccagcgctgtAcagcaggtaatagaggggca	13	5	14	9	2	0	1	0	0	0	1	1	3	1	2	2	4	4	5	2	4	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:56950151A>G	uc001njl.1	+	1	931	c.784A>G	c.(784-786)ACA>GCA	p.T262A		NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	232	LRRCT.					integral to membrane					0						CCAGCGCTGTACAGCAGGTAA	0.597													33	97					0	0	0.009535	0	0		G	56950151	G	G	56950151	3	3	19	1	0	0	0	0	1	0	0	0	9029	391	14	3	786	3	LRRC55	11	56950151	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	106	56950151	78056365	1781	15294											
PRG3	10394	broad.mit.edu	37	chr11	57146978	57146978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actacttacctgagcttctgCaaaagttttaggagtccgca	11	12	8	10	1	1	1	0	1	1	0	2	2	2	2	2	1	4	4	2	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:57146978C>T	uc001njv.1	-	3	474	c.364G>A	c.(364-366)GCA>ACA	p.A122T		NM_006093	NP_006084	Q9Y2Y8	PRG3_HUMAN	proteoglycan 3 precursor	122	C-type lectin.				basophil activation|histamine biosynthetic process|immune response|leukotriene biosynthetic process|negative regulation of translation|neutrophil activation|positive regulation of interleukin-8 biosynthetic process|superoxide anion generation		sugar binding				0						TGAGCTTCTGCAAAAGTTTTA	0.483													82	168					0	0	0.01441	0	0		T	57146978	T	T	57146978	3	4	19	1	0	0	0	0	1	0	0	0	12502	710	25	2	329	2	PRG3	11	57146978	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	196827	57146978	77859538	1782	15295											
RTN4RL2	349667	broad.mit.edu	37	chr11	57244233	57244233	+	Frame_Shift_Del	DEL	G	-	-																															gcctactgaggacgactactGggggggctacgggggtgagg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:57244233delG	uc010rjt.1	+	3	1112	c.1112delG	c.(1111-1113)TGGfs	p.W371fs		NM_178570	NP_848665	Q86UN3	R4RL2_HUMAN	reticulon 4 receptor-like 2 precursor	371					axon regeneration	anchored to plasma membrane	receptor activity				0						GACGACTACTGGGGGGGCTAC	0.756													6	10	---	---	---	---						.	-	57244233	-	-	57244233	7	5	19	1	0	1	0	1	0	0	0	0	13757	1357	47	0	1122	0	RTN4RL2	11	57244233	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	97255	57244233	77762283	1783	15296											
OR5B12	390191	broad.mit.edu	37	chr11	58207279	58207279	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatagcggtcataggccaTtgatgccaggaggaaacttt	11	10	12	8	1	1	1	1	1	0	0	1	3	1	3	2	4	4	1	2	4	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:58207279T>A	uc010rkh.1	-	1	346	c.346A>T	c.(346-348)ATG>TTG	p.M116L		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TCATAGGCCATTGATGCCAGG	0.438													51	113					0	0	0.01441	0	0		A	58207279	A	A	58207279	3	1	19	1	0	0	0	0	1	0	0	0	11167	1493	52	5	602	5	OR5B12	11	58207279	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	963046	58207279	76799237	1784	15297											
FAM111B	374393	broad.mit.edu	37	chr11	58892175	58892175	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagaagattgttaagatcaAcgaacttcatgaaaaaggaa	21	8	8	4	1	2	4	2	1	0	3	2	6	2	5	0	1	2	1	0	1	8	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:58892175A>G	uc001nnl.2	+	4	848	c.605A>G	c.(604-606)AAC>AGC	p.N202S	FAM111B_uc001nnm.2_Missense_Mutation_p.N172S|FAM111B_uc010rko.1_Missense_Mutation_p.N172S	NM_198947	NP_945185	Q6SJ93	F111B_HUMAN	hypothetical protein LOC374393 isoform a	202							catalytic activity			ovary(2)	2						GTTAAGATCAACGAACTTCAT	0.378													4	127					0	0	0.000602	0	0		G	58892175	G	G	58892175	3	3	19	1	0	0	0	0	1	0	0	0	5411	43	2	3	611	3	FAM111B	11	58892175	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	684896	58892175	76114341	1785	15298											
DTX4	23220	broad.mit.edu	37	chr11	58972212	58972212	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccattggcacctccagcAccacaggcgagtcagacacc	10	6	9	16	1	1	1	1	0	0	1	2	2	2	1	5	2	2	2	5	2	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:58972212A>G	uc001nns.2	+	9	1947	c.1690A>G	c.(1690-1692)ACC>GCC	p.T564A	DTX4_uc001nnr.2_Missense_Mutation_p.T458A	NM_015177	NP_055992	Q9Y2E6	DTX4_HUMAN	deltex 4 homolog	564					Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)				CACCTCCAGCACCACAGGCGA	0.532													4	23					0	0	0.001984	0	0		G	58972212	G	G	58972212	3	3	19	1	0	0	0	0	1	0	0	0	4803	159	6	3	1724	3	DTX4	11	58972212	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	80037	58972212	76034304	1786	15299											
OSBP	5007	broad.mit.edu	37	chr11	59361099	59361099	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggggcataatggagaggtaTttgcctcgaaacttgctggt	10	11	14	6	1	0	1	0	0	0	1	1	3	0	1	1	5	3	3	1	5	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:59361099T>C	uc001noc.1	-	9	2136	c.1656A>G	c.(1654-1656)AAA>AAG	p.K552K	OSBP_uc009ymr.1_Intron	NM_002556	NP_002547	P22059	OSBP1_HUMAN	oxysterol binding protein	552					lipid transport	Golgi membrane	oxysterol binding			large_intestine(1)	1		all_epithelial(135;0.000236)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		TGGAGAGGTATTTGCCTCGAA	0.408													3	117					0	0	0.004672	0	0		C	59361099	C	C	59361099	2	2	19	1	0	0	0	0	0	0	0	1	11292	1490	52	3		3	OSBP	11	59361099	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	388887	59361099	75645417	1787	15300											
PATL1	219988	broad.mit.edu	37	chr11	59425112	59425112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaccgccttggtaatgctCgttcagaaaggtcccgatca	9	11	10	11	3	2	2	2	1	0	1	4	3	3	2	3	2	1	3	3	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:59425112C>T	uc001noe.3	-	5	655	c.512G>A	c.(511-513)CGA>CAA	p.R171Q	PATL1_uc009yms.1_Missense_Mutation_p.R171Q|PATL1_uc010rkw.1_5'UTR	NM_152716	NP_689929	Q86TB9	PATL1_HUMAN	protein associated with topoisomerase II homolog	171	Pro-rich.|Region N; interaction with decapping machinery.				cytoplasmic mRNA processing body assembly|deadenylation-dependent decapping of nuclear-transcribed mRNA	cytoplasmic mRNA processing body	protein binding|RNA binding			ovary(1)	1						TGGTAATGCTCGTTCAGAAAG	0.512													37	63					0	0	0.005524	0	0		T	59425112	T	T	59425112	3	4	19	1	0	0	0	0	1	0	0	0	11494	884	31	1	1860	1	PATL1	11	59425112	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	64013	59425112	75581404	1788	15301											
CD6	923	broad.mit.edu	37	chr11	60776004	60776004	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaaccccctcccacccctAgagaaccgcgcgctgcgcct	8	4	7	22	4	0	1	0	0	0	1	1	2	1	1	7	0	3	1	7	0	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:60776004A>G	uc001nqq.2	+	4	693	c.470_splice	c.e4-2	p.E157_splice	CD6_uc009yni.2_Splice_Site_p.E157_splice|CD6_uc009ynj.2_Splice_Site_p.E157_splice|CD6_uc001nqp.2_Splice_Site_p.E157_splice|CD6_uc001nqr.2_Splice_Site_p.E157_splice|CD6_uc001nqs.2_Splice_Site|CD6_uc001nqt.2_Splice_Site_p.E157_splice	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule precursor						cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1						TCCCACCCCTAGAGAACCGCG	0.672													4	3					0	0	0.001168	0	0		G	60776004	G	G	60776004	5	3	19	1	0	0	0	0	0	0	1	0	3031	434	15	3	482	3	CD6	11	60776004	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1350892	60776004	74230512	1789	15302											
CPSF7	79869	broad.mit.edu	37	chr11	61179396	61179396	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagcagcgtctcaattgcGtcactgtaatcccctgataa	10	11	9	11	2	2	2	2	2	1	0	4	2	3	2	2	0	3	2	2	0	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:61179396G>A	uc001nrq.2	-	8	1232	c.1098C>T	c.(1096-1098)GAC>GAT	p.D366D	CPSF7_uc001nro.2_Silent_p.D357D|CPSF7_uc001nrp.2_Silent_p.D409D|CPSF7_uc001nrr.2_Silent_p.D357D	NM_001136040	NP_001129512	Q8N684	CPSF7_HUMAN	pre-mRNA cleavage factor I, 59 kDa subunit	366					mRNA 3'-end processing|nuclear mRNA splicing, via spliceosome|protein tetramerization|termination of RNA polymerase II transcription	mRNA cleavage factor complex	nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						TCTCAATTGCGTCACTGTAAT	0.502													18	47					0	0	0.010504	0	0		A	61179396	A	A	61179396	2	1	19	1	0	0	0	0	0	0	0	1	3833	1136	40	1		1	CPSF7	11	61179396	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	403392	61179396	73827120	1790	15303											
AHNAK	79026	broad.mit.edu	37	chr11	62285270	62285270	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccccttcacactgataTcaggagcagccccatggaaa	12	6	9	14	0	2	1	2	1	0	0	2	3	2	3	4	3	2	1	4	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:62285270T>C	uc001ntl.2	-	5	16919	c.16619A>G	c.(16618-16620)GAT>GGT	p.D5540G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	5540	Gly-rich.				nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CACACTGATATCAGGAGCAGC	0.488													122	221					0	0	0.01441	0	0		C	62285270	C	C	62285270	3	2	19	1	0	0	0	0	1	0	0	0	414	1435	50	3	1173	3	AHNAK	11	62285270	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1105874	62285270	72721246	1791	15304											
AHNAK	79026	broad.mit.edu	37	chr11	62290281	62290281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcatggagatcttgggggCtttgatgttcatctcaggca	8	12	14	7	0	3	2	2	1	2	1	4	3	3	2	0	5	0	4	0	5	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:62290281C>T	uc001ntl.2	-	5	11908	c.11608G>A	c.(11608-11610)GCC>ACC	p.A3870T	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3870					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				ATCTTGGGGGCTTTGATGTTC	0.468													8	451					0	0	0.00308	0	0		T	62290281	T	T	62290281	3	4	19	1	0	0	0	0	1	0	0	0	414	797	28	2	6184	2	AHNAK	11	62290281	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5011	62290281	72716235	1792	15305											
EEF1G	1937	broad.mit.edu	37	chr11	62327791	62327791	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcatgaaggtctgagtgagTtcttcagggaagcgatactc	10	11	12	8	1	4	3	2	3	2	0	5	5	4	4	0	2	2	1	0	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:62327791T>C	uc001ntm.1	-	8	1139	c.993A>G	c.(991-993)GAA>GAG	p.E331E	EEF1G_uc010rlw.1_Silent_p.E381E|EEF1G_uc001ntn.1_Silent_p.E211E	NM_001404	NP_001395	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1	331	EF-1-gamma C-terminal.				response to virus	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						TCTGAGTGAGTTCTTCAGGGA	0.502													9	13					0	0	0.008291	0	0		C	62327791	C	C	62327791	2	2	19	1	0	0	0	0	0	0	0	1	4934	1722	60	3		3	EEF1G	11	62327791	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	37510	62327791	72678725	1793	15306											
INTS5	80789	broad.mit.edu	37	chr11	62416494	62416494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caagctctccagagacagtgCccagcaaagctggtgacatg	12	6	11	12	0	1	2	0	1	1	1	2	3	1	2	2	1	4	3	2	1	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:62416494C>T	uc001nud.2	-	2	1111	c.1058G>A	c.(1057-1059)GGC>GAC	p.G353D	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	353					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						AGAGACAGTGCCCAGCAAAGC	0.622													16	140					0	0	0.004007	0	0		T	62416494	T	T	62416494	3	4	19	1	0	0	0	0	1	0	0	0	7797	739	26	2	2005	2	INTS5	11	62416494	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	88703	62416494	72590022	1794	15307											
SLC22A10	387775	broad.mit.edu	37	chr11	63066991	63066991	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtttattattgaaggttgtAagatccaccatgcaggagga	12	13	11	5	0	0	2	0	1	0	1	1	4	1	4	2	3	1	4	2	3	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:63066991A>G	uc009yor.2	+	6	1168	c.960A>G	c.(958-960)GTA>GTG	p.V320V	SLC22A10_uc010rmo.1_RNA|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_Silent_p.V160V	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	320	Extracellular (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						TGAAGGTTGTAAGATCCACCA	0.428													4	52					0	0	0.009096	0	0		G	63066991	G	G	63066991	2	3	19	1	0	0	0	0	0	0	0	1	14466	349	13	3		3	SLC22A10	11	63066991	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	650497	63066991	71939525	1795	15308											
ATL3	25923	broad.mit.edu	37	chr11	63426718	63426718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggcttgctgctctccatgGcatcatctatgttcatgcag	7	13	9	12	0	4	0	2	0	2	0	5	0	4	0	1	2	3	6	1	2	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:63426718G>A	uc001nxk.1	-	2	329	c.53C>T	c.(52-54)GCC>GTC	p.A18V	ATL3_uc010rms.1_5'UTR|ATL3_uc001nxl.1_Missense_Mutation_p.A70V	NM_015459	NP_056274	Q6DD88	ATLA3_HUMAN	atlastin 3	18	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			pancreas(1)	1						GCTCTCCATGGCATCATCTAT	0.388													5	78					0	0	0.000602	0	0		A	63426718	A	A	63426718	3	1	19	1	0	0	0	0	1	0	0	0	1109	1203	42	2	1620	2	ATL3	11	63426718	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	359727	63426718	71579798	1796	15309											
DNAJC4	3338	broad.mit.edu	37	chr11	63999943	63999943	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggaacccaagcctgcacagCcgctttgtggagctgagcga	9	6	14	12	2	0	1	0	1	0	0	0	4	0	3	3	2	6	3	3	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:63999943C>T	uc001nys.2	+	4	684	c.222C>T	c.(220-222)AGC>AGT	p.S74S	uc001nyr.1_5'Flank|DNAJC4_uc001nyt.2_Silent_p.S74S|DNAJC4_uc001nyu.2_Silent_p.S74S|VEGFB_uc001nyw.2_5'Flank|VEGFB_uc001nyx.2_5'Flank	NM_005528	NP_005519	Q9NNZ3	DNJC4_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 4	74	J.				protein folding|response to unfolded protein	integral to membrane|membrane fraction	heat shock protein binding|unfolded protein binding				0						GCCTGCACAGCCGCTTTGTGG	0.647													5	42					0	0	0.000602	0	0		T	63999943	T	T	63999943	2	4	19	1	0	0	0	0	0	0	0	1	4655	738	26	2		2	DNAJC4	11	63999943	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	573225	63999943	71006573	1797	15310											
GPR137	56834	broad.mit.edu	37	chr11	64056707	64056707	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaatacccaggccccagtcCccctcaccctaggcccctgt	8	6	7	20	0	1	1	1	0	0	1	2	1	2	1	8	2	1	0	8	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:64056707C>A	uc001nzg.1	+	8	1432	c.1124C>A	c.(1123-1125)CCC>CAC	p.P375H	GPR137_uc010rni.1_Missense_Mutation_p.P433H|GPR137_uc001nzf.2_3'UTR|GPR137_uc001nzi.2_3'UTR|GPR137_uc010rnj.1_3'UTR|KCNK4_uc009ypl.1_5'Flank|KCNK4_uc001nzj.1_5'Flank|KCNK4_uc001nzk.1_5'Flank|KCNK4_uc010rnk.1_5'Flank|KCNK4_uc001nzl.1_5'Flank|KCNK4_uc001nzm.3_5'Flank|KCNK4_uc001nzn.1_5'Flank	NM_020155	NP_064540	Q96N19	G137A_HUMAN	G protein-coupled receptor 137	375	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(1)	1						GGCCCCAGTCCCCCTCACCCT	0.667													67	146					3.41413e-29	3.66051e-29	0.01441	1	0		A	64056707	A	A	64056707	3	1	19	1	0	0	0	0	1	0	0	0	6660	623	22	5	1438	5	GPR137	11	64056707	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	56764	64056707	70949809	1798	15311											
CCDC88B	283234	broad.mit.edu	37	chr11	64121543	64121543	+	Frame_Shift_Del	DEL	G	-	-																															ggcgggaggggggcccccctGgggggctgcgcctgggggcc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:64121543delG	uc001nzy.2	+	24	4044	c.4000delG	c.(4000-4002)GGGfs	p.G1334fs	CCDC88B_uc009ypo.1_Frame_Shift_Del_p.G1331fs|CCDC88B_uc001oaa.2_Intron|CCDC88B_uc001oab.1_Frame_Shift_Del_p.G165fs|CCDC88B_uc001oac.2_Intron	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	1334					microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						gggcccccctggggggctgcg	0.507													5	10	---	---	---	---						.	-	64121543	-	-	64121543	7	5	19	1	0	1	0	1	0	0	0	0	2867	1348	47	0	4094	0	CCDC88B	11	64121543	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	64836	64121543	70884973	1799	15312											
MEN1	4221	broad.mit.edu	37	chr11	64573765	64573765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcccgcacattgcggttgcGacagtggtagccagccaggt	7	9	13	12	3	0	0	0	0	0	0	1	1	1	0	3	3	4	3	3	3	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:64573765G>A	uc001obj.2	-	7	1076	c.1003C>T	c.(1003-1005)CGC>TGC	p.R335C	MEN1_uc001obk.2_Missense_Mutation_p.R335C|MEN1_uc001obl.2_Missense_Mutation_p.R295C|MEN1_uc001obm.2_Missense_Mutation_p.R330C|MEN1_uc001obn.2_Missense_Mutation_p.R335C|MEN1_uc001obo.2_Missense_Mutation_p.R335C|MEN1_uc001obp.2_Missense_Mutation_p.R330C|MEN1_uc001obq.2_Missense_Mutation_p.R335C|MEN1_uc001obr.2_Missense_Mutation_p.R335C	NM_130800	NP_570712	O00255	MEN1_HUMAN	menin isoform 1	335	Interaction with FANCD2.				DNA repair|histone lysine methylation|MAPKKK cascade|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of JNK cascade|negative regulation of osteoblast differentiation|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of telomerase activity|negative regulation of transcription from RNA polymerase II promoter|osteoblast development|positive regulation of protein binding|positive regulation of transforming growth factor beta receptor signaling pathway|response to gamma radiation|response to UV|transcription, DNA-dependent	chromatin|cleavage furrow|cytosol|histone methyltransferase complex|nuclear matrix|soluble fraction	double-stranded DNA binding|four-way junction DNA binding|protein binding, bridging|protein N-terminus binding|R-SMAD binding|transcription regulatory region DNA binding|Y-form DNA binding			parathyroid(105)|pancreas(64)|gastrointestinal_tract_(site_indeterminate)(15)|small_intestine(13)|lung(9)|pituitary(7)|NS(7)|adrenal_gland(5)|soft_tissue(4)|central_nervous_system(4)|thymus(2)|stomach(1)|retroperitoneum(1)|skin(1)	238						TTGCGGTTGCGACAGTGGTAG	0.602			D|Mis|N|F|S		parathyroid tumors|Pancreatic neuroendocrine tumors	parathyroid adenoma|pituitary adenoma|pancreatic islet cell|carcinoid			Hyperparathyroidism_Familial_Isolated|Multiple_Endocrine_Neoplasia_type_1		OREG0004014	type=REGULATORY REGION|Gene=MEN1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	62	90					0	0	0.01441	0	0		A	64573765	A	A	64573765	3	1	19	1	0	0	0	0	1	0	0	0	9490	1058	37	1	860	1	MEN1	11	64573765	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	452222	64573765	70432751	1800	15313											
ATG2A	23130	broad.mit.edu	37	chr11	64665443	64665443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggctcgagtctcggggCgagctaggggaggggaggtc	5	6	22	8	3	1	0	0	0	1	0	4	4	1	2	0	8	1	3	0	8	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:64665443C>T	uc001obx.2	-	35	4977	c.4862G>A	c.(4861-4863)CGC>CAC	p.R1621H	ATG2A_uc001obw.2_Missense_Mutation_p.R386H	NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1621							protein binding			ovary(1)|central_nervous_system(1)	2						AGTCTCGGGGCGAGCTAGGGG	0.687													22	54					0	0	0.003954	0	0		T	64665443	T	T	64665443	3	4	19	1	0	0	0	0	1	0	0	0	1094	768	27	1	982	1	ATG2A	11	64665443	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	91678	64665443	70341073	1801	15314											
ATG2A	23130	broad.mit.edu	37	chr11	64666107	64666107	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatggtgcaggtcgctcataCcatgttagagtgggcacgtc	8	10	14	9	2	1	1	1	0	0	1	3	2	1	1	1	3	2	4	1	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:64666107C>T	uc001obx.2	-	32	4786	c.4671_splice	c.e32+1	p.M1557_splice	ATG2A_uc001obw.2_Splice_Site_p.M322_splice	NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A								protein binding			ovary(1)|central_nervous_system(1)	2						GTCGCTCATACCATGTTAGAG	0.587													21	43					0	0	0.00333	0	0		T	64666107	T	T	64666107	5	4	19	1	0	0	0	0	0	0	1	0	1094	521	18	4	1184	4	ATG2A	11	64666107	Splice_Site	SNP	C	TCGA-BR-4361-01A-01D-1158-08	664	64666107	70340409	1802	15315											
C11orf85	283129	broad.mit.edu	37	chr11	64708103	64708103	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcctgcaatccttgttgggTttttctttccctattctgtt	3	21	6	11	0	2	0	0	0	2	0	5	0	5	0	3	1	1	4	3	1	2	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:64708103T>G	uc001ocb.1	-	8	563	c.489A>C	c.(487-489)AAA>AAC	p.K163N	C11orf85_uc001occ.1_RNA|C11orf85_uc001ocd.1_Missense_Mutation_p.T107P	NM_001037225	NP_001032302	Q3KP22	CK085_HUMAN	hypothetical protein LOC283129	163											0						CCTTGTTGGGTTTTTCTTTCC	0.398													40	116					0	0	0.01441	0	0		G	64708103	G	G	64708103	3	3	19	1	0	0	0	0	1	0	0	0	1671	1722	60	5	169	5	C11orf85	11	64708103	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	41996	64708103	70298413	1803	15316											
LTBP3	4054	broad.mit.edu	37	chr11	65307100	65307100	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtcgggcaatgggaccCtgggaggagcagaactggtc	9	6	17	9	2	0	1	0	0	0	1	2	5	0	4	1	5	2	2	1	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:65307100C>A	uc001oej.2	-	26	3817	c.3548_splice	c.e26-1	p.G1183_splice	LTBP3_uc001oef.2_Splice_Site_p.G186_splice|LTBP3_uc001oeg.2_Splice_Site_p.G139_splice|LTBP3_uc001oeh.2_Splice_Site_p.G613_splice|LTBP3_uc010roi.1_Splice_Site_p.G1019_splice|LTBP3_uc001oei.2_Splice_Site_p.G1136_splice|LTBP3_uc010roj.1_Splice_Site_p.G837_splice|LTBP3_uc010rok.1_Splice_Site_p.G1094_splice	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding							extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						CAATGGGACCCTGGGAGGAGC	0.692													6	12					2.0095e-06	2.0727e-06	0.001984	1	0		A	65307100	A	A	65307100	5	1	19	1	0	0	0	0	0	0	1	0	9093	695	24	5	376	5	LTBP3	11	65307100	Splice_Site	SNP	C	TCGA-BR-4361-01A-01D-1158-08	598997	65307100	69699416	1804	15317											
EHBP1L1	254102	broad.mit.edu	37	chr11	65351053	65351053	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccagagaacaaatctggTacttttaaggcccaggaagc	13	9	9	10	0	2	1	0	0	2	1	3	3	2	2	2	3	3	1	2	3	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:65351053T>C	uc001oeo.3	+	9	3175	c.2910T>C	c.(2908-2910)GGT>GGC	p.G970G	EHBP1L1_uc001oep.1_Intron	NM_001099409	NP_001092879	Q8N3D4	EH1L1_HUMAN	tangerin	970										central_nervous_system(1)	1						ACAAATCTGGTACTTTTAAGG	0.567													4	26					0	0	0.009096	0	0		C	65351053	C	C	65351053	2	2	19	1	0	0	0	0	0	0	0	1	4982	1625	57	3		3	EHBP1L1	11	65351053	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	43953	65351053	69655463	1805	15318											
DKFZp761E198	91056	broad.mit.edu	37	chr11	65546619	65546619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccagggctgcccgctgccGcaagccagccagcagctctt	7	6	11	17	2	1	0	0	0	1	0	2	0	2	0	5	1	6	5	5	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:65546619G>A	uc001ofo.3	-	1	1204	c.1174C>T	c.(1174-1176)CGG>TGG	p.R392W		NM_138368	NP_612377	Q2VPB7	YK046_HUMAN	hypothetical protein LOC91056	392							protein binding				0				READ - Rectum adenocarcinoma(159;0.167)		GCCCGCTGCCGCAAGCCAGCC	0.652													7	11					0	0	0.004482	0	0		A	65546619	A	A	65546619	3	1	19	1	0	0	0	0	1	0	0	0	4549	1086	38	1	1295	1	DKFZp761E198	11	65546619	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	195566	65546619	69459897	1806	15319											
YIF1A	10897	broad.mit.edu	37	chr11	66053174	66053174	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggggcttggcactgacctTttctgaatgcccagtgccat	7	11	12	11	0	1	2	0	2	1	0	1	3	1	2	3	3	2	2	3	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:66053174T>C	uc001ohk.3	-	5	665	c.483A>G	c.(481-483)AAA>AAG	p.K161K	YIF1A_uc001ohj.2_Silent_p.K18K	NM_020470	NP_065203	O95070	YIF1A_HUMAN	Yip1 interacting factor homolog	161	Extracellular (Potential).				protein transport|vesicle-mediated transport	centrosome|endoplasmic reticulum membrane|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane					0						GCACTGACCTTTTCTGAATGC	0.582													16	40					0	0	0.006122	0	0		C	66053174	C	C	66053174	2	2	19	1	0	0	0	0	0	0	0	1	17501	1838	64	3		3	YIF1A	11	66053174	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	506555	66053174	68953342	1807	15320											
CCDC87	55231	broad.mit.edu	37	chr11	66358846	66358846	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgctctctgggagtaaagTccaaccagctcagggttgat	9	12	11	9	0	2	1	1	1	1	0	4	2	3	2	2	2	3	4	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:66358846T>C	uc001oiq.3	-	1	1709	c.1641A>G	c.(1639-1641)GGA>GGG	p.G547G	CCS_uc001oir.2_5'Flank	NM_018219	NP_060689	Q9NVE4	CCD87_HUMAN	coiled-coil domain containing 87	547										ovary(1)|skin(1)	2						GGGAGTAAAGTCCAACCAGCT	0.478													5	149					0	0	0.000602	0	0		C	66358846	C	C	66358846	2	2	19	1	0	0	0	0	0	0	0	1	2865	1654	58	3		3	CCDC87	11	66358846	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	305672	66358846	68647670	1808	15321											
RBM14	10432	broad.mit.edu	37	chr11	66392810	66392810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttcaggctcctatggggCtcagtcggctgctgcggcca	4	10	13	14	2	2	0	2	0	0	0	4	0	3	0	3	5	2	4	3	5	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:66392810C>T	uc001oit.2	+	2	1602	c.1463C>T	c.(1462-1464)GCT>GTT	p.A488V	RBM14_uc009yrh.2_Intron|RBM14_uc009yri.2_Intron|RBM4_uc009yrj.2_Intron|RBM4_uc009yrk.2_Intron	NM_006328	NP_006319	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	488	Ala-rich.				DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|histone deacetylation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus	mediator complex|ribonucleoprotein complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|protein binding, bridging|RNA binding|RNA polymerase II transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						TCCTATGGGGCTCAGTCGGCT	0.632													7	121					0	0	0.006214	0	0		T	66392810	T	T	66392810	3	4	19	1	0	0	0	0	1	0	0	0	13140	797	28	2	1469	2	RBM14	11	66392810	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	33964	66392810	68613706	1809	15322											
C11orf80	79703	broad.mit.edu	37	chr11	66571567	66571567	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagacgtggctggcatggActtgttgggagaactgatac	10	10	15	6	1	0	4	0	2	0	2	0	6	0	5	0	4	2	3	0	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:66571567A>G	uc001ojf.2	+	9	951	c.944A>G	c.(943-945)GAC>GGC	p.D315G	C11orf80_uc001ojg.2_Missense_Mutation_p.D81G|C11orf80_uc001ojh.2_Missense_Mutation_p.D82G|C11orf80_uc001oji.2_Missense_Mutation_p.D82G|C11orf80_uc010rpk.1_Missense_Mutation_p.D150G	NM_024650	NP_078926	Q8N6T0	CK080_HUMAN	hypothetical protein LOC79703	160											0						GCTGGCATGGACTTGTTGGGA	0.473													13	171					0	0	0.00245	0	0		G	66571567	G	G	66571567	3	3	19	1	0	0	0	0	1	0	0	0	1667	275	10	3	978	3	C11orf80	11	66571567	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	178757	66571567	68434949	1810	15323											
PC	5091	broad.mit.edu	37	chr11	66618339	66618339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtcggggaagcggtccCggagggagctgaccagcatg	8	4	20	9	3	0	1	0	1	0	0	2	5	1	5	2	7	3	2	2	7	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:66618339C>T	uc001ojn.1	-	16	2328	c.2279G>A	c.(2278-2280)CGG>CAG	p.R760Q	PC_uc001ojo.1_Missense_Mutation_p.R760Q|PC_uc001ojp.1_Missense_Mutation_p.R760Q|PC_uc001ojm.1_5'Flank	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	760	Carboxyltransferase.				gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	GAAGCGGTCCCGGAGGGAGCT	0.662													14	34					0	0	0.001855	0	0		T	66618339	T	T	66618339	3	4	19	1	0	0	0	0	1	0	0	0	11516	652	23	1	1281	1	PC	11	66618339	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	46772	66618339	68388177	1811	15324											
PC	5091	broad.mit.edu	37	chr11	66639309	66639309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgcggatgcccagctccGtgcaggcccggaacacacgg	7	4	15	15	5	0	0	0	0	0	0	1	2	1	2	3	5	5	2	3	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:66639309G>A	uc001ojn.1	-	3	219	c.170C>T	c.(169-171)ACG>ATG	p.T57M	PC_uc001ojo.1_Missense_Mutation_p.T57M|PC_uc001ojp.1_Missense_Mutation_p.T57M	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	57	Biotin carboxylation.				gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	GCCCAGCTCCGTGCAGGCCCG	0.577													8	22					0	0	0.013537	0	0		A	66639309	A	A	66639309	3	1	19	1	0	0	0	0	1	0	0	0	11516	1145	40	1	3442	1	PC	11	66639309	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	20970	66639309	68367207	1812	15325											
KDM2A	22992	broad.mit.edu	37	chr11	67017751	67017751	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccagcgaccaccacagTgccagccgcgatgagcgctt	8	4	12	17	4	0	1	0	1	0	0	0	3	0	1	6	1	4	1	6	1	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:67017751T>C	uc001ojw.2	+	17	3114	c.2250T>C	c.(2248-2250)AGT>AGC	p.S750S	KDM2A_uc001ojx.2_RNA|KDM2A_uc001ojy.2_Silent_p.S444S|KDM2A_uc010rpn.1_Silent_p.S311S|KDM2A_uc001ojz.1_Silent_p.S208S|KDM2A_uc001oka.2_5'Flank	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	750					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						ACCACCACAGTGCCAGCCGCG	0.627													4	25					0	0	0.001168	0	0		C	67017751	C	C	67017751	2	2	19	1	0	0	0	0	0	0	0	1	8140	1693	59	3		3	KDM2A	11	67017751	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	378442	67017751	67988765	1813	15326											
RAD9A	5883	broad.mit.edu	37	chr11	67161249	67161249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtgcccccacatgctccGcgccccagcacggtgagcac	6	5	10	20	4	0	1	0	1	0	0	2	1	1	1	5	1	4	3	5	1	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:67161249G>A	uc001okr.2	+	5	530	c.437G>A	c.(436-438)CGC>CAC	p.R146H	RAD9A_uc001oks.2_5'Flank	NM_004584	NP_004575	Q99638	RAD9A_HUMAN	RAD9 homolog	146					DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint	nucleoplasm	3'-5' exonuclease activity|exodeoxyribonuclease III activity|histone deacetylase binding|protein kinase binding|SH3 domain binding				0			BRCA - Breast invasive adenocarcinoma(15;8.53e-07)			CACATGCTCCGCGCCCCAGCA	0.627								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					4	15					0	0	0.009096	0	0		A	67161249	A	A	67161249	3	1	19	1	0	0	0	0	1	0	0	0	13020	1087	38	1	455	1	RAD9A	11	67161249	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	143498	67161249	67845267	1814	15327											
PPP1CA	5499	broad.mit.edu	37	chr11	67168168	67168168	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaccactcacactcatcgTagaaaccatagatgcggttg	13	8	8	12	2	2	3	2	0	0	3	3	3	2	3	2	1	2	2	2	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:67168168T>C	uc001okw.1	-	3	533	c.410A>G	c.(409-411)TAC>TGC	p.Y137C	PPP1CA_uc009yro.1_5'UTR|PPP1CA_uc001okt.1_Missense_Mutation_p.Y142C|PPP1CA_uc001oku.1_Missense_Mutation_p.Y148C|PPP1CA_uc001okv.1_Missense_Mutation_p.Y93C|PPP1CA_uc001okx.1_Missense_Mutation_p.Y225C|PPP1CA_uc001oky.2_Missense_Mutation_p.Y137C	NM_002708	NP_002699	P62136	PP1A_HUMAN	protein phosphatase 1, catalytic subunit, alpha	137					cell cycle|cell division|glycogen metabolic process|protein dephosphorylation|triglyceride catabolic process	cytosol|MLL5-L complex|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|protein binding|protein phosphatase type 1 regulator activity|protein serine/threonine phosphatase activity			breast(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(15;8.53e-07)			ACACTCATCGTAGAAACCATA	0.547													14	84					0	0	0.004007	0	0		C	67168168	C	C	67168168	3	2	19	1	0	0	0	0	1	0	0	0	12371	1638	57	3	602	3	PPP1CA	11	67168168	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	6919	67168168	67838348	1815	15328											
PTPRCAP	5790	broad.mit.edu	37	chr11	67203517	67203517	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctcctgtcgctcaaggTcattgtctgtggaccccagc	6	11	9	15	1	3	0	2	0	1	0	6	1	5	1	4	2	1	1	4	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:67203517T>C	uc001oli.1	-	2	371	c.308A>G	c.(307-309)GAC>GGC	p.D103G		NM_005608	NP_005599	Q14761	PTCA_HUMAN	protein tyrosine phosphatase, receptor type,	103					defense response	integral to membrane|plasma membrane					0			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			TCGCTCAAGGTCATTGTCTGT	0.677													8	41					0	0	0.00308	0	0		C	67203517	C	C	67203517	3	2	19	1	0	0	0	0	1	0	0	0	12823	1667	58	3	316	3	PTPRCAP	11	67203517	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	35349	67203517	67802999	1816	15329											
GPR152	390212	broad.mit.edu	37	chr11	67219255	67219255	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctcgcagagagctgccGcgaaggacgagagcacggag	10	3	16	12	5	0	2	0	0	0	2	2	7	1	4	2	2	3	4	2	2	1	0	rs139892022	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:67219255G>A	uc001olm.2	-	1	946	c.941C>T	c.(940-942)GCG>GTG	p.A314V	uc009yrw.1_5'Flank|CABP4_uc001oln.2_5'Flank	NM_206997	NP_996880	Q8TDT2	GP152_HUMAN	G protein-coupled receptor 152	314	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			GAGAGCTGCCGCGAAGGACGA	0.647													27	54					0	0	0.00623	0	0		A	67219255	A	A	67219255	3	1	19	1	0	0	0	0	1	0	0	0	6673	1087	38	1	475	1	GPR152	11	67219255	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	15738	67219255	67787261	1817	15330											
CABP2	51475	broad.mit.edu	37	chr11	67287283	67287283	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcgaagtcgaccagaccGtccccattgaggtccacgtc	8	8	9	16	4	0	2	0	1	0	1	5	4	2	2	6	1	0	0	6	1	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:67287283G>A	uc001omc.1	-	6	720	c.618C>T	c.(616-618)GAC>GAT	p.D206D	CABP2_uc001omd.1_Silent_p.D149D|CABP2_uc001ome.1_Silent_p.D212D	NM_016366	NP_057450	Q9NPB3	CABP2_HUMAN	calcium binding protein 2 isoform 1	206	EF-hand 4.|3 (Potential).				signal transduction	Golgi apparatus|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1						CGACCAGACCGTCCCCATTGA	0.637													31	57					0	0	0.003755	0	0		A	67287283	A	A	67287283	2	1	19	1	0	0	0	0	0	0	0	1	2535	1136	40	1		1	CABP2	11	67287283	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	68028	67287283	67719233	1818	15331											
IGHMBP2	3508	broad.mit.edu	37	chr11	68700870	68700870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcagtaccgcatgcaccagGctatcatgcgctgggcctca	8	8	11	14	2	2	0	2	0	0	0	2	0	2	0	3	2	4	6	3	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:68700870G>A	uc001ook.1	+	9	1441	c.1339G>A	c.(1339-1341)GCT>ACT	p.A447T	IGHMBP2_uc001ool.1_Missense_Mutation_p.A71T|IGHMBP2_uc001oom.1_Missense_Mutation_p.A25T	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	447					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CATGCACCAGGCTATCATGCG	0.637													4	16					0	0	0.000602	0	0		A	68700870	A	A	68700870	3	1	19	1	0	0	0	0	1	0	0	0	7607	1203	42	2	1373	2	IGHMBP2	11	68700870	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1413587	68700870	66305646	1819	15332											
CTTN	2017	broad.mit.edu	37	chr11	70265939	70265939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgagtatcaaggcaaaaCggagaagcacgagtcccaga	15	6	11	9	2	1	3	1	1	0	2	2	5	2	3	1	2	2	3	1	2	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:70265939C>T	uc001opv.3	+	9	862	c.656C>T	c.(655-657)ACG>ATG	p.T219M	CTTN_uc001opu.2_Missense_Mutation_p.T219M|CTTN_uc001opw.3_Missense_Mutation_p.T219M|CTTN_uc010rqm.1_5'Flank|CTTN_uc001opx.2_5'Flank	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	219	Cortactin 4.					cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		CAAGGCAAAACGGAGAAGCAC	0.468													10	25					0	0	0.008291	0	0		T	70265939	T	T	70265939	3	4	19	1	0	0	0	0	1	0	0	0	4047	536	19	1	682	1	CTTN	11	70265939	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1565069	70265939	64740577	1820	15333											
NUMA1	4926	broad.mit.edu	37	chr11	71724239	71724239	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccttcttcagcatgctcAgctgctctgcatagctggcc	5	11	10	15	1	4	0	2	0	2	0	4	0	4	0	2	1	6	6	2	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:71724239A>G	uc001orl.1	-	15	4482	c.4310T>C	c.(4309-4311)CTG>CCG	p.L1437P	NUMA1_uc009ysw.1_Missense_Mutation_p.L1000P|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.L1437P|NUMA1_uc001orn.2_Missense_Mutation_p.L1000P|NUMA1_uc009ysx.1_Missense_Mutation_p.L1437P|NUMA1_uc001oro.1_Missense_Mutation_p.L1437P	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1437	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						CAGCATGCTCAGCTGCTCTGC	0.637			T	RARA	APL								15	93					0	0	0.004007	0	0		G	71724239	G	G	71724239	3	3	19	1	0	0	0	0	1	0	0	0	10769	188	7	3	2089	3	NUMA1	11	71724239	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1458300	71724239	63282277	1821	15334											
MRPL48	51642	broad.mit.edu	37	chr11	73555944	73555944	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatattcatctgactgcataTgatatgaccctggcagagag	13	11	9	8	0	2	4	1	3	1	1	2	5	2	4	1	1	1	2	1	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:73555944T>C	uc001ouh.3	+	5	394	c.294T>C	c.(292-294)TAT>TAC	p.Y98Y	MRPL48_uc009ytt.2_5'UTR|MRPL48_uc010rri.1_Silent_p.Y80Y|MRPL48_uc009ytu.2_5'UTR	NM_016055	NP_057139	Q96GC5	RM48_HUMAN	mitochondrial ribosomal protein L48 precursor	98					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0						TGACTGCATATGATATGACCC	0.418													6	90					0	0	0.001168	0	0		C	73555944	C	C	73555944	2	2	19	1	0	0	0	0	0	0	0	1	9830	1471	51	3		3	MRPL48	11	73555944	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1831705	73555944	61450572	1822	15335											
SLCO2B1	11309	broad.mit.edu	37	chr11	74876980	74876980	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggagccataccgctacgAcaacaccagccctggtaaga	12	5	9	15	3	0	1	0	0	0	1	1	3	0	2	4	2	5	2	4	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:74876980A>G	uc001owb.2	+	4	821	c.434A>G	c.(433-435)GAC>GGC	p.D145G	SLCO2B1_uc010rrq.1_Intron|SLCO2B1_uc010rrr.1_Intron|SLCO2B1_uc010rrs.1_Missense_Mutation_p.D29G|SLCO2B1_uc001owc.2_Missense_Mutation_p.D29G|SLCO2B1_uc001owd.2_Missense_Mutation_p.D123G	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	145	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	TACCGCTACGACAACACCAGC	0.622													15	144					0	0	0.012319	0	0		G	74876980	G	G	74876980	3	3	19	1	0	0	0	0	1	0	0	0	14752	275	10	3	448	3	SLCO2B1	11	74876980	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1321036	74876980	60129536	1823	15336											
SERPINH1	871	broad.mit.edu	37	chr11	75280189	75280189	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatctccttgcccaagggTgtggtggaggtgacccatga	7	9	14	11	0	1	2	0	2	1	0	2	3	1	3	4	4	1	0	4	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:75280189T>C	uc001owr.2	+	4	1156	c.927T>C	c.(925-927)GGT>GGC	p.G309G	SERPINH1_uc009yuf.2_Silent_p.G309G|SERPINH1_uc009yug.2_Silent_p.G309G|SERPINH1_uc001ows.2_Silent_p.G309G|SERPINH1_uc001owt.2_Silent_p.G92G	NM_001235	NP_001226	P50454	SERPH_HUMAN	serine (or cysteine) proteinase inhibitor, clade	309					regulation of proteolysis|response to unfolded protein	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	collagen binding|serine-type endopeptidase inhibitor activity			ovary(2)	2	Ovarian(111;0.11)					TGCCCAAGGGTGTGGTGGAGG	0.607													6	21					0	0	0.001984	0	0		C	75280189	C	C	75280189	2	2	19	1	0	0	0	0	0	0	0	1	14142	1683	59	3		3	SERPINH1	11	75280189	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	403209	75280189	59726327	1824	15337											
SERPINH1	871	broad.mit.edu	37	chr11	75283092	75283092	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctattcattgggcgcctggtCcggcctaagggtgacaagat	8	10	13	10	2	1	2	1	1	0	1	2	2	2	2	3	4	0	0	3	4	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:75283092C>T	uc001owr.2	+	5	1450	c.1221C>T	c.(1219-1221)GTC>GTT	p.V407V	SERPINH1_uc009yug.2_Silent_p.V407V|SERPINH1_uc001ows.2_Silent_p.V407V|SERPINH1_uc001owt.2_Silent_p.V190V	NM_001235	NP_001226	P50454	SERPH_HUMAN	serine (or cysteine) proteinase inhibitor, clade	407					regulation of proteolysis|response to unfolded protein	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	collagen binding|serine-type endopeptidase inhibitor activity			ovary(2)	2	Ovarian(111;0.11)					GGCGCCTGGTCCGGCCTAAGG	0.597													13	24					0	0	0.00245	0	0		T	75283092	T	T	75283092	2	4	19	1	0	0	0	0	0	0	0	1	14142	842	30	4		4	SERPINH1	11	75283092	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2903	75283092	59723424	1825	15338											
THRSP	7069	broad.mit.edu	37	chr11	77774985	77774985	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgaccgtcatggaccggTatgcagccgaggtgcacaac	9	7	13	12	3	1	1	1	1	0	0	1	3	1	2	3	3	5	4	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:77774985T>C	uc001oyx.2	+	1	79	c.58T>C	c.(58-60)TAT>CAT	p.Y20H		NM_003251	NP_003242	Q92748	THRSP_HUMAN	thyroid hormone-responsive protein	20					lipid biosynthetic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus				breast(1)	1	all_cancers(14;2.23e-19)|all_epithelial(13;7.49e-22)|Breast(9;6.38e-17)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;2.15e-25)			CATGGACCGGTATGCAGCCGA	0.627													11	97					0	0	0.008291	0	0		C	77774985	C	C	77774985	3	2	19	1	0	0	0	0	1	0	0	0	15901	1638	57	3	60	3	THRSP	11	77774985	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2491893	77774985	57231531	1826	15339											
ODZ4	26011	broad.mit.edu	37	chr11	78467937	78467937	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcatagaaggagtgtaggTtctgctgtgacacagggacc	10	9	15	7	0	2	2	1	1	1	1	2	4	2	4	1	4	1	3	1	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:78467937T>C	uc001ozl.3	-	19	3132	c.2669A>G	c.(2668-2670)AAC>AGC	p.N890S		NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	890	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						GGAGTGTAGGTTCTGCTGTGA	0.592													16	34					0	0	0.006122	0	0		C	78467937	C	C	78467937	3	2	19	1	0	0	0	0	1	0	0	0	10856	1725	60	3	5704	3	ODZ4	11	78467937	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	692952	78467937	56538579	1827	15340											
PRCP	5547	broad.mit.edu	37	chr11	82550389	82550389	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggcccgaataattgtaatAtacattcagagcttggaaaa	15	11	8	7	1	1	1	1	0	0	1	1	3	1	2	1	2	2	2	1	2	7	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:82550389A>G	uc001ozs.2	-	7	1113	c.1000T>C	c.(1000-1002)TAT>CAT	p.Y334H	PRCP_uc001ozr.2_Missense_Mutation_p.Y355H	NM_005040	NP_005031	P42785	PCP_HUMAN	prolylcarboxypeptidase isoform 1 preproprotein	334	SKS domain.				blood coagulation, intrinsic pathway|proteolysis	lysosome|plasma membrane	protein binding|serine-type carboxypeptidase activity			skin(1)	1						TAATTGTAATATACATTCAGA	0.378													4	137					0	0	0.009096	0	0		G	82550389	G	G	82550389	3	3	19	1	0	0	0	0	1	0	0	0	12471	449	16	3	502	3	PRCP	11	82550389	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4082452	82550389	52456127	1828	15341											
TMEM126B	55863	broad.mit.edu	37	chr11	85345229	85345229	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcttcaaggttaaacaTgatgctttgaagacatatgc	12	12	9	8	1	1	3	1	2	0	1	1	3	1	3	0	1	4	4	0	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:85345229T>C	uc001pao.2	+	4	465	c.213T>C	c.(211-213)CAT>CAC	p.H71H	TMEM126B_uc001pan.1_Silent_p.H71H|TMEM126B_uc001pap.2_Silent_p.H71H|TMEM126B_uc001paq.1_Silent_p.H71H	NM_018480	NP_060950	Q8IUX1	T126B_HUMAN	transmembrane protein 126B	101						integral to membrane					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				AGGTTAAACATGATGCTTTGA	0.368													17	84					0	0	0.006122	0	0		C	85345229	C	C	85345229	2	2	19	1	0	0	0	0	0	0	0	1	16064	1461	51	3		3	TMEM126B	11	85345229	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2794840	85345229	49661287	1829	15342											
ME3	10873	broad.mit.edu	37	chr11	86157515	86157515	+	Frame_Shift_Del	DEL	A	-	-																															ttaaaaggacttccactggcAaaaatccctcggccctggag																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:86157515delA	uc001pbz.2	-	12	1649	c.1395delT	c.(1393-1395)TTTfs	p.F465fs	ME3_uc001pca.2_Frame_Shift_Del_p.F465fs|ME3_uc009yvk.2_Frame_Shift_Del_p.F465fs	NM_001014811	NP_001014811	Q16798	MAON_HUMAN	mitochondrial malic enzyme 3 precursor	465					aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)	TTCCACTGGCAAAAATCCCTC	0.488													31	42	---	---	---	---						.	-	86157515	-	-	86157515	7	5	19	1	0	1	0	1	0	0	0	0	9437	127	5	0	431	0	ME3	11	86157515	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	812286	86157515	48849001	1830	15343											
CTSC	1075	broad.mit.edu	37	chr11	88027562	88027562	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaataacgaaagcagtctTccttcattttgcatggagaa	14	12	8	7	1	2	1	1	0	1	1	3	3	3	1	1	1	3	3	1	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:88027562T>A	uc001pck.3	-	7	1105	c.1004A>T	c.(1003-1005)GAA>GTA	p.E335V	CTSC_uc001pcl.3_Missense_Mutation_p.E187V	NM_001814	NP_001805	P53634	CATC_HUMAN	cathepsin C isoform a preproprotein	335					immune response	lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				AAAGCAGTCTTCCTTCATTTT	0.473													49	110					0	0	0.01441	0	0		A	88027562	A	A	88027562	3	1	19	1	0	0	0	0	1	0	0	0	4034	1783	62	5	391	5	CTSC	11	88027562	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1870047	88027562	46978954	1831	15344											
FAT3	120114	broad.mit.edu	37	chr11	92087727	92087727	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaatcgtcatggagactgCtgaccatcaatgtggaggat	13	9	12	7	1	2	3	2	1	0	2	3	6	2	5	1	3	1	1	1	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:92087727C>A	uc001pdj.3	+	1	2466	c.2449C>A	c.(2449-2451)CTG>ATG	p.L817M		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	817	Extracellular (Potential).|Cadherin 7.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ATGGAGACTGCTGACCATCAA	0.398										TCGA Ovarian(4;0.039)			18	40					1.33834e-09	1.39866e-09	0.007413	1	0		A	92087727	A	A	92087727	3	1	19	1	0	0	0	0	1	0	0	0	5705	796	28	5	2451	5	FAT3	11	92087727	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4060165	92087727	42918789	1832	15345											
FAT3	120114	broad.mit.edu	37	chr11	92533129	92533129	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctattgatgcagactcagAaaacaataaaatggtacatt	17	11	6	7	0	2	3	1	1	1	2	2	3	2	3	0	1	3	2	0	1	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:92533129A>G	uc001pdj.3	+	9	6967	c.6950A>G	c.(6949-6951)GAA>GGA	p.E2317G		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2317	Cadherin 21.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GCAGACTCAGAAAACAATAAA	0.383										TCGA Ovarian(4;0.039)			5	22					0	0	0.000602	0	0		G	92533129	G	G	92533129	3	3	19	1	0	0	0	0	1	0	0	0	5705	246	9	3	6984	3	FAT3	11	92533129	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	445402	92533129	42473387	1833	15346											
HEPHL1	341208	broad.mit.edu	37	chr11	93837857	93837857	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatattaagaagtatctcaAcaaagatccacgagatttta	18	11	5	7	1	1	3	1	0	1	3	3	4	2	3	1	0	1	1	1	0	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:93837857A>G	uc001pep.2	+	16	3003	c.2846A>G	c.(2845-2847)AAC>AGC	p.N949S	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	949	Extracellular (Potential).|Plastocyanin-like 6.				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				AAGTATCTCAACAAAGATCCA	0.348													4	168					0	0	0.009096	0	0		G	93837857	G	G	93837857	3	3	19	1	0	0	0	0	1	0	0	0	7071	43	2	3	2908	3	HEPHL1	11	93837857	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1304728	93837857	41168659	1834	15347											
PANX1	24145	broad.mit.edu	37	chr11	93911695	93911695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggctgcaaagagtgcgcGtgaccttgacatgagagatg	12	8	14	7	2	0	5	0	3	0	2	0	6	0	5	1	1	2	2	1	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:93911695G>A	uc001per.2	+	3	867	c.482G>A	c.(481-483)CGT>CAT	p.R161H	PANX1_uc001peq.2_Missense_Mutation_p.R161H	NM_015368	NP_056183	Q96RD7	PANX1_HUMAN	pannexin 1	161	Cytoplasmic (Potential).				positive regulation of interleukin-1 beta secretion|protein hexamerization|synaptic transmission	bleb|endoplasmic reticulum membrane|gap junction|integral to membrane	calcium channel activity|gap junction hemi-channel activity|leak channel activity|receptor binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				AAGAGTGCGCGTGACCTTGAC	0.483													35	55					0	0	0.004878	0	0		A	93911695	A	A	93911695	3	1	19	1	0	0	0	0	1	0	0	0	11439	1145	40	1	492	1	PANX1	11	93911695	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	73838	93911695	41094821	1835	15348											
FUT4	2526	broad.mit.edu	37	chr11	94278118	94278118	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttggactacgaggaggcAgcggcggcggcagaagccct	8	5	18	10	4	0	1	0	0	0	1	0	4	0	3	1	6	3	3	1	6	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:94278118A>G	uc001pez.2	+	1	1102	c.819A>G	c.(817-819)GCA>GCG	p.A273A	PIWIL4_uc010rue.1_Intron|PIWIL4_uc009ywk.1_5'Flank	NM_002033	NP_002024	P22083	FUT4_HUMAN	fucosyltransferase 4	273	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane|membrane fraction	alpha(1,3)-fucosyltransferase activity			skin(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				ACGAGGAGGCAGCGGCGGCGG	0.731													7	8					0	0	0.00308	0	0		G	94278118	G	G	94278118	2	3	19	1	0	0	0	0	0	0	0	1	6120	175	7	3		3	FUT4	11	94278118	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	366423	94278118	40728398	1836	15349											
KDM4DL	390245	broad.mit.edu	37	chr11	94759243	94759243	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcgagggtgtcaacacAccctacctgtactttggcat	9	11	9	12	1	2	0	2	0	0	0	3	1	2	0	2	2	3	2	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:94759243A>G	uc010ruf.1	+	1	822	c.522A>G	c.(520-522)ACA>ACG	p.T174T		NM_001161630	NP_001155102	B2RXH2	KD4DL_HUMAN	lysine (K)-specific demethylase 4D-like	174	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GTGTCAACACACCCTACCTGT	0.493													37	87					0	0	0.00623	0	0		G	94759243	G	G	94759243	2	3	19	1	0	0	0	0	0	0	0	1	8148	146	6	3		3	KDM4DL	11	94759243	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	481125	94759243	40247273	1837	15350											
ENDOD1	23052	broad.mit.edu	37	chr11	94862256	94862256	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcttcattgctaccccatTcatcaagctttttcaattaa	10	15	5	11	0	4	0	4	0	0	0	4	0	4	0	2	1	3	3	2	1	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:94862256T>C	uc001pfh.2	+	2	1091	c.1016T>C	c.(1015-1017)TTC>TCC	p.F339S		NM_015036	NP_055851	O94919	ENDD1_HUMAN	endonuclease domain containing 1 precursor	339						extracellular region	endonuclease activity|metal ion binding|nucleic acid binding				0		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.00824)				GCTACCCCATTCATCAAGCTT	0.428													12	71					0	0	0.010729	0	0		C	94862256	C	C	94862256	3	2	19	1	0	0	0	0	1	0	0	0	5122	1783	62	3	1022	3	ENDOD1	11	94862256	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	103013	94862256	40144260	1838	15351											
CEP57	9702	broad.mit.edu	37	chr11	95561052	95561052	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgatcgagtcatcaacagtAttcctttggcaaagcaagta	14	11	8	8	1	2	1	2	1	0	0	4	2	3	1	1	1	2	4	1	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:95561052A>G	uc001pfp.1	+	9	1209	c.988A>G	c.(988-990)ATT>GTT	p.I330V	CEP57_uc010ruh.1_Missense_Mutation_p.I321V|CEP57_uc010rui.1_Missense_Mutation_p.I304V|CEP57_uc009ywn.1_Missense_Mutation_p.I178V|CEP57_uc001pfq.1_Missense_Mutation_p.I304V|CEP57_uc001pfr.1_Missense_Mutation_p.I178V	NM_014679	NP_055494	Q86XR8	CEP57_HUMAN	translokin	330	Mediates interaction with microtubules (By similarity).				fibroblast growth factor receptor signaling pathway|G2/M transition of mitotic cell cycle|protein import into nucleus, translocation|spermatid development	centrosome|cytosol|Golgi apparatus|microtubule|nucleus	fibroblast growth factor binding|protein homodimerization activity			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CATCAACAGTATTCCTTTGGC	0.443									Mosaic_Variegated_Aneuploidy_Syndrome				69	122					0	0	0.01441	0	0		G	95561052	G	G	95561052	3	3	19	1	0	0	0	0	1	0	0	0	3259	449	16	3	1022	3	CEP57	11	95561052	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	698796	95561052	39445464	1839	15352											
KIAA1377	57562	broad.mit.edu	37	chr11	101834511	101834511	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaagaagtcctgtttgtgaAgaaagttatccgtctgtgac	12	12	10	7	1	1	4	0	2	1	2	3	4	3	4	2	0	0	2	2	0	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:101834511A>T	uc001pgm.2	+	6	3015	c.2745A>T	c.(2743-2745)GAA>GAT	p.E915D	KIAA1377_uc001pgn.2_Missense_Mutation_p.E871D|KIAA1377_uc010run.1_Missense_Mutation_p.E716D|KIAA1377_uc009yxa.1_Missense_Mutation_p.E716D	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	915							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		CTGTTTGTGAAGAAAGTTATC	0.418													45	108					0	0	0.01441	0	0		T	101834511	T	T	101834511	3	4	19	1	0	0	0	0	1	0	0	0	8243	69	3	5	2767	5	KIAA1377	11	101834511	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	6273459	101834511	33172005	1840	15353											
PDGFD	80310	broad.mit.edu	37	chr11	103866871	103866871	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgtgattttaatttggttCgttcttgattttatccttgg	7	22	8	4	1	1	2	0	2	1	0	3	2	2	2	1	2	0	2	1	2	3	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:103866871C>T	uc001phq.2	-	3	804	c.432G>A	c.(430-432)ACG>ACA	p.T144T	PDGFD_uc001php.2_Silent_p.T138T	NM_025208	NP_079484	Q9GZP0	PDGFD_HUMAN	platelet derived growth factor D isoform 1	144	CUB.				positive regulation of cell division	endoplasmic reticulum lumen|extracellular region|Golgi membrane	growth factor activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Melanoma(852;0.0563)|all_neural(303;0.165)		BRCA - Breast invasive adenocarcinoma(274;0.00136)|Epithelial(105;0.111)		TAATTTGGTTCGTTCTTGATT	0.368													31	63					0	0	0.008361	0	0		T	103866871	T	T	103866871	2	4	19	1	0	0	0	0	0	0	0	1	11679	871	31	1		1	PDGFD	11	103866871	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2032360	103866871	31139645	1841	15354											
DDI1	414301	broad.mit.edu	37	chr11	103907980	103907980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaggtctgggcagccccGccctgatccgcagcatgctg	6	7	13	15	2	1	1	0	1	1	0	2	1	2	1	4	2	4	5	4	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:103907980G>A	uc001phr.2	+	1	673	c.430G>A	c.(430-432)GCC>ACC	p.A144T	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	144					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		GGGCAGCCCCGCCCTGATCCG	0.672													17	41					0	0	0.010504	0	0		A	103907980	A	A	103907980	3	1	19	1	0	0	0	0	1	0	0	0	4331	1087	38	1	432	1	DDI1	11	103907980	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	41109	103907980	31098536	1842	15355											
CASP4	837	broad.mit.edu	37	chr11	104820474	104820474	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacttgtgctctggtctggTagcaaatgccctcagcgctg	6	11	13	11	1	3	0	1	0	2	0	3	1	3	1	1	3	4	4	1	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:104820474T>C	uc001pid.1	-	5	650	c.577A>G	c.(577-579)ACC>GCC	p.T193A	CASP4_uc001pib.1_Missense_Mutation_p.T137A|CASP4_uc009yxg.1_Missense_Mutation_p.T102A|CASP4_uc010rux.1_Missense_Mutation_p.T193A	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor	193					apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		TCTGGTCTGGTAGCAAATGCC	0.463													12	72					0	0	0.001855	0	0		C	104820474	C	C	104820474	3	2	19	1	0	0	0	0	1	0	0	0	2676	1638	57	3	572	3	CASP4	11	104820474	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	912494	104820474	30186042	1843	15356											
ALKBH8	91801	broad.mit.edu	37	chr11	107403026	107403026	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcatatttcaatacatacCcatgggtccaaaggtatcta	13	13	6	9	0	3	0	2	0	1	0	4	0	4	0	2	2	2	1	2	2	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:107403026C>A	uc010rvr.1	-	8	953	c.878G>T	c.(877-879)GGA>GTA	p.G293V	ALKBH8_uc001pjk.2_Missense_Mutation_p.G41V|ALKBH8_uc010rvq.1_Missense_Mutation_p.G156V|ALKBH8_uc009yxp.2_Missense_Mutation_p.G293V|ALKBH8_uc001pjl.2_RNA	NM_138775	NP_620130	Q96BT7	ALKB8_HUMAN	alkB, alkylation repair homolog 8	293	Fe2OG dioxygenase.				response to DNA damage stimulus	cytosol|nucleus	metal ion binding|nucleotide binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|protein binding|RNA binding|tRNA (uracil) methyltransferase activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00512)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.53e-05)|Epithelial(105;0.00029)|all cancers(92;0.00518)		CAATACATACCCATGGGTCCA	0.463													9	32					0.00448238	0.00455878	0.004482	1	0		A	107403026	A	A	107403026	3	1	19	1	0	0	0	0	1	0	0	0	533	637	22	5	1136	5	ALKBH8	11	107403026	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2582552	107403026	27603490	1844	15357											
ALKBH8	91801	broad.mit.edu	37	chr11	107403094	107403094	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgaggcaacataactggCactgcaatgccatctgggtg	11	7	12	11	2	1	0	0	0	1	0	1	2	1	0	1	3	4	3	1	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:107403094C>T	uc010rvr.1	-	8	885	c.810G>A	c.(808-810)GTG>GTA	p.V270V	ALKBH8_uc001pjk.2_Silent_p.V18V|ALKBH8_uc010rvq.1_Silent_p.V133V|ALKBH8_uc009yxp.2_Silent_p.V270V|ALKBH8_uc001pjl.2_RNA	NM_138775	NP_620130	Q96BT7	ALKB8_HUMAN	alkB, alkylation repair homolog 8	270	Fe2OG dioxygenase.				response to DNA damage stimulus	cytosol|nucleus	metal ion binding|nucleotide binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|protein binding|RNA binding|tRNA (uracil) methyltransferase activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00512)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.53e-05)|Epithelial(105;0.00029)|all cancers(92;0.00518)		ACATAACTGGCACTGCAATGC	0.388													5	64					0	0	0.000602	0	0		T	107403094	T	T	107403094	2	4	19	1	0	0	0	0	0	0	0	1	533	697	25	2		2	ALKBH8	11	107403094	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	68	107403094	27603422	1845	15358											
CUL5	8065	broad.mit.edu	37	chr11	107968446	107968446	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaaagactttacagaaggTaccctcttctcagtgaacca	13	9	6	13	0	2	3	1	1	2	2	3	3	2	3	3	1	3	1	3	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:107968446T>C	uc001pjv.2	+	17	2656	c.1989T>C	c.(1987-1989)GGT>GGC	p.G663G	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	663					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		TTACAGAAGGTACCCTCTTCT	0.363													3	76					0	0	0.004672	0	0		C	107968446	C	C	107968446	2	2	19	1	0	0	0	0	0	0	0	1	4062	1625	57	3		3	CUL5	11	107968446	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	565352	107968446	27038070	1846	15359											
NPAT	4863	broad.mit.edu	37	chr11	108044308	108044308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgattggtgtataattcaGcacaatgtggattacattca	12	15	8	6	0	3	1	2	1	1	0	3	2	3	2	0	2	2	2	0	2	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:108044308G>A	uc001pjz.3	-	13	1505	c.1403C>T	c.(1402-1404)GCT>GTT	p.A468V	NPAT_uc001pka.2_Missense_Mutation_p.A263V	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	468					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		GTATAATTCAGCACAATGTGG	0.378													76	218					0	0	0.01441	0	0		A	108044308	A	A	108044308	3	1	19	1	0	0	0	0	1	0	0	0	10585	971	34	2	2904	2	NPAT	11	108044308	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	75862	108044308	26962208	1847	15360											
ATM	472	broad.mit.edu	37	chr11	108098363	108098363	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtgaaccatgagtctagtActtaatgatctgcttatctg	10	16	8	7	0	3	3	0	3	3	0	3	3	3	3	1	0	3	2	1	0	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:108098363A>G	uc001pkb.1	+	2	397	c.12A>G	c.(10-12)GTA>GTG	p.V4V	ATM_uc009yxr.1_Silent_p.V4V|ATM_uc001pkc.1_Silent_p.V4V	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	4					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TGAGTCTAGTACTTAATGATC	0.269			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			29	79					0	0	0.003755	0	0		G	108098363	G	G	108098363	2	3	19	1	0	0	0	0	0	0	0	1	1110	378	14	3		3	ATM	11	108098363	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	54055	108098363	26908153	1848	15361											
ATM	472	broad.mit.edu	37	chr11	108168081	108168081	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttatccaagatggcaatAaaccacactggtgaaaaaga	18	7	8	8	0	0	3	0	1	0	2	1	3	1	3	2	2	1	2	2	2	7	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:108168081A>G	uc001pkb.1	+	33	5362	c.4977A>G	c.(4975-4977)ATA>ATG	p.I1659M	ATM_uc009yxr.1_Missense_Mutation_p.I1659M|ATM_uc001pke.1_Missense_Mutation_p.I311M|ATM_uc001pkg.1_Missense_Mutation_p.I16M	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1659					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		AGATGGCAATAAACCACACTG	0.209			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			14	66					0	0	0.003163	0	0		G	108168081	G	G	108168081	3	3	19	1	0	0	0	0	1	0	0	0	1110	352	13	3	5103	3	ATM	11	108168081	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	69718	108168081	26838435	1849	15362											
DDX10	1662	broad.mit.edu	37	chr11	108559696	108559696	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggaacagaactacatagtCtgtgagctgcagcaaaaaat	16	9	9	7	0	1	2	0	1	1	1	1	3	1	3	0	1	6	3	0	1	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:108559696C>T	uc001pkm.2	+	7	947	c.882C>T	c.(880-882)GTC>GTT	p.V294V	DDX10_uc001pkl.1_Silent_p.V294V	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	294	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		ACTACATAGTCTGTGAGCTGC	0.378			T	NUP98	AML*								12	239					0	0	0.010729	0	0		T	108559696	T	T	108559696	2	4	19	1	0	0	0	0	0	0	0	1	4345	900	32	4		4	DDX10	11	108559696	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	391615	108559696	26446820	1850	15363											
POU2AF1	5450	broad.mit.edu	37	chr11	111228205	111228205	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtggcggagaggcataggTcaacactgaggagggcccca	11	4	17	9	1	1	2	1	1	0	1	1	5	1	3	2	6	1	1	2	6	2	1	rs1042750		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:111228205T>C	uc001plg.3	-	4	676	c.421A>G	c.(421-423)ACC>GCC	p.T141A		NM_006235	NP_006226	Q16633	OBF1_HUMAN	POU class 2 associating factor 1	141					humoral immune response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			kidney(1)	1		all_cancers(61;1.36e-12)|all_epithelial(67;1.87e-07)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|all_neural(223;0.0146)|Medulloblastoma(222;0.0245)|Breast(348;0.0389)		Epithelial(105;1.01e-06)|BRCA - Breast invasive adenocarcinoma(274;3.12e-06)|all cancers(92;1.8e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0364)		GAGGCATAGGTCAACACTGAG	0.577			T	BCL6	NHL								4	62					0	0	0.000602	0	0		C	111228205	C	C	111228205	3	2	19	1	0	0	0	0	1	0	0	0	12289	1667	58	3	357	3	POU2AF1	11	111228205	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2668509	111228205	23778311	1851	15364											
C11orf88	399949	broad.mit.edu	37	chr11	111385697	111385697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcagagacagcagtcagcGtctgccggtggcgcggccca	7	4	16	14	5	2	1	1	0	1	1	2	2	2	1	2	3	3	2	2	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:111385697G>A	uc001pln.3	+	1	188	c.188G>A	c.(187-189)CGT>CAT	p.R63H	BTG4_uc001plj.2_5'Flank|BTG4_uc001plk.2_5'Flank|C11orf88_uc009yyd.2_Missense_Mutation_p.R63H|C11orf88_uc001plo.1_Missense_Mutation_p.R63H	NM_001100388	NP_001093858	Q6PI97	CK088_HUMAN	hypothetical protein LOC399949 isoform 2	63											0						AGCAGTCAGCGTCTGCCGGTG	0.592											OREG0021329	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	39					0	0	0.014323	0	0		A	111385697	A	A	111385697	3	1	19	1	0	0	0	0	1	0	0	0	1673	1145	40	1	190	1	C11orf88	11	111385697	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	157492	111385697	23620819	1852	15365											
SIK2	23235	broad.mit.edu	37	chr11	111558769	111558769	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatgagtctgaagccaggCgaaaattctggcaaatcctg	14	9	10	8	1	2	2	0	2	2	0	3	3	3	2	2	2	1	1	2	2	6	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:111558769C>T	uc001plt.2	+	4	479	c.361C>T	c.(361-363)CGA>TGA	p.R121*		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	121	Protein kinase.				intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						TGAAGCCAGGCGAAAATTCTG	0.398													33	75					0	0	0.004878	0	0		T	111558769	T	T	111558769	4	4	19	1	0	0	0	0	0	1	0	0	14343	760	27	1	375	1	SIK2	11	111558769	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	173072	111558769	23447747	1853	15366											
PPP2R1B	5519	broad.mit.edu	37	chr11	111618736	111618736	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcatcaaagaattccacAccctacagatacagaagatt	16	11	4	10	0	2	4	2	0	0	4	3	4	3	4	2	0	2	0	2	0	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:111618736A>G	uc001plx.1	-	11	1425	c.1341T>C	c.(1339-1341)GGT>GGC	p.G447G	PPP2R1B_uc001plw.1_Silent_p.G447G|PPP2R1B_uc010rwi.1_Silent_p.G383G|PPP2R1B_uc010rwj.1_Silent_p.G286G|PPP2R1B_uc010rwk.1_Silent_p.G402G|PPP2R1B_uc010rwl.1_Silent_p.G320G	NM_002716	NP_002707	P30154	2AAB_HUMAN	beta isoform of regulatory subunit A, protein	447	HEAT 11.						protein binding				0		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|Epithelial(105;2.36e-06)|all cancers(92;3.78e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0761)		AGAATTCCACACCCTACAGAT	0.348													16	46					0	0	0.007413	0	0		G	111618736	G	G	111618736	2	3	19	1	0	0	0	0	0	0	0	1	12405	146	6	3		3	PPP2R1B	11	111618736	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	59967	111618736	23387780	1854	15367											
DRD2	1813	broad.mit.edu	37	chr11	113295190	113295190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtggtctgcagcgccttctCgcgggacacagccatgcaca	7	7	13	14	3	2	0	0	0	2	0	3	1	2	1	2	3	4	2	2	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:113295190C>T	uc001pnz.2	-	1	505	c.184G>A	c.(184-186)GAG>AAG	p.E62K	DRD2_uc010rwv.1_Missense_Mutation_p.E62K|DRD2_uc001poa.3_Missense_Mutation_p.E62K|DRD2_uc001pob.3_Missense_Mutation_p.E62K|DRD2_uc009yyr.1_Missense_Mutation_p.E62K	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	62	Cytoplasmic (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		all_cancers(61;3.91e-16)|all_epithelial(67;2.95e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000977)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0494)		BRCA - Breast invasive adenocarcinoma(274;5.77e-06)|Epithelial(105;6.66e-05)|all cancers(92;0.000307)|OV - Ovarian serous cystadenocarcinoma(223;0.216)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	AGCGCCTTCTCGCGGGACACA	0.612													5	99					0	0	0.001168	0	0		T	113295190	T	T	113295190	3	4	19	1	0	0	0	0	1	0	0	0	4763	893	31	1	1175	1	DRD2	11	113295190	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1676454	113295190	21711326	1855	15368											
USP28	57646	broad.mit.edu	37	chr11	113685907	113685907	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccaaccttgtatatctTgttcaatctcactcctccat	10	14	4	13	0	3	1	2	0	2	1	6	1	5	1	4	0	2	2	4	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:113685907T>C	uc001poh.2	-	14	1694	c.1661A>G	c.(1660-1662)CAA>CGA	p.Q554R	USP28_uc001pog.2_Missense_Mutation_p.Q262R|USP28_uc010rwy.1_Missense_Mutation_p.Q429R|USP28_uc001poi.2_Intron|USP28_uc001poj.3_Missense_Mutation_p.Q554R	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	554					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		TTGTATATCTTGTTCAATCTC	0.403													3	114					0	0	0.004672	0	0		C	113685907	C	C	113685907	3	2	19	1	0	0	0	0	1	0	0	0	17084	1812	63	3	1620	3	USP28	11	113685907	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	390717	113685907	21320609	1856	15369											
CADM1	23705	broad.mit.edu	37	chr11	115110994	115110994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatagagatggaaacttacGcctgaagtccctgaaataaa	16	9	8	8	1	0	3	0	2	0	1	1	5	1	4	2	1	2	0	2	1	8	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:115110994G>A	uc001ppi.3	-	2	400	c.271C>T	c.(271-273)CCT>TCT	p.P91S	CADM1_uc001ppf.3_Missense_Mutation_p.P91S|CADM1_uc001ppk.3_Missense_Mutation_p.P91S|CADM1_uc001ppj.3_Missense_Mutation_p.P91S|CADM1_uc001ppl.2_Missense_Mutation_p.P91S	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	91	Ig-like V-type.|Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		GGAAACTTACGCCTGAAGTCC	0.398													17	35					0	0	0.00499	0	0		A	115110994	A	A	115110994	3	1	19	1	0	0	0	0	1	0	0	0	2569	1101	38	1	1093	1	CADM1	11	115110994	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1425087	115110994	19895522	1857	15370											
TAGLN	6876	broad.mit.edu	37	chr11	117073840	117073840	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagtggatcatagtgcaGtgtggccctgatgtgggccg	6	10	18	7	1	1	1	1	1	0	0	1	3	1	3	2	4	1	1	2	4	1	1	rs140777664		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:117073840G>A	uc001pqm.2	+	2	232	c.111G>A	c.(109-111)CAG>CAA	p.Q37Q	uc001pqk.1_5'Flank|TAGLN_uc001pql.1_Intron|TAGLN_uc001pqn.2_Silent_p.Q37Q|TAGLN_uc001pqo.2_Silent_p.Q37Q|TAGLN_uc001pqp.2_Silent_p.Q37Q|uc001pqq.1_5'Flank	NM_003186	NP_003177	Q01995	TAGL_HUMAN	transgelin	37	CH.				muscle organ development	cytoplasm	actin binding				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|Epithelial(105;5.49e-05)|all cancers(92;0.000435)		TCATAGTGCAGTGTGGCCCTG	0.622													14	23					0	0	0.001855	0	0		A	117073840	A	A	117073840	2	1	19	1	0	0	0	0	0	0	0	1	15563	1020	36	4		4	TAGLN	11	117073840	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1962846	117073840	17932676	1858	15371											
PCSK7	9159	broad.mit.edu	37	chr11	117090382	117090382	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcacctgcagcattaaggcTatcatgccagctgccagagg	10	7	11	13	1	1	1	1	0	0	1	1	1	1	1	3	2	5	5	3	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:117090382T>C	uc001pqr.2	-	10	1449	c.1248A>G	c.(1246-1248)ATA>ATG	p.I416M		NM_004716	NP_004707	Q16549	PCSK7_HUMAN	proprotein convertase subtilisin/kexin type 7	416	Catalytic.|Extracellular (Potential).				peptide hormone processing	integral to Golgi membrane	serine-type endopeptidase activity				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.72e-06)|Epithelial(105;6.71e-05)|all cancers(92;0.000537)		GCATTAAGGCTATCATGCCAG	0.602			T	IGH@	MLCLS								17	44					0	0	0.00278	0	0		C	117090382	C	C	117090382	3	2	19	1	0	0	0	0	1	0	0	0	11624	1512	53	3	1141	3	PCSK7	11	117090382	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	16542	117090382	17916134	1859	15372											
CEP164	22897	broad.mit.edu	37	chr11	117266307	117266307	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggaggaggcacagaaggaGcacacccacctgttgcagtc	11	5	13	12	0	0	1	0	0	0	1	1	4	0	4	2	4	2	4	2	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:117266307G>A	uc001prc.2	+	24	3105	c.2958G>A	c.(2956-2958)GAG>GAA	p.E986E	CEP164_uc001prb.2_Silent_p.E989E|CEP164_uc010rxk.1_Silent_p.E960E|CEP164_uc001prf.2_Intron|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Silent_p.E419E	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	986					cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		CACAGAAGGAGCACACCCACC	0.572													8	37					0	0	0.008291	0	0		A	117266307	A	A	117266307	2	1	19	1	0	0	0	0	0	0	0	1	3252	962	34	2		2	CEP164	11	117266307	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	175925	117266307	17740209	1860	15373											
DSCAML1	57453	broad.mit.edu	37	chr11	117374691	117374691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttgggcaggatctggatgCggccagtgaggggcacaggg	7	7	20	7	1	1	1	0	1	1	0	1	3	1	3	1	7	1	3	1	7	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:117374691C>T	uc001prh.1	-	11	2410	c.2408G>A	c.(2407-2409)CGC>CAC	p.R803H		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	743	Extracellular (Potential).|Ig-like C2-type 8.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GATCTGGATGCGGCCAGTGAG	0.632													5	111					0	0	0.000602	0	0		T	117374691	T	T	117374691	3	4	19	1	0	0	0	0	1	0	0	0	4775	768	27	1	4025	1	DSCAML1	11	117374691	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	108384	117374691	17631825	1861	15374											
PHLDB1	23187	broad.mit.edu	37	chr11	118516286	118516286	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagcacgcctatgatacgCtgagtctggagagctctgac	9	9	13	10	2	2	5	0	4	2	1	2	6	2	5	1	1	3	3	1	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:118516286C>T	uc001ptr.1	+	17	3687	c.3334C>T	c.(3334-3336)CTG>TTG	p.L1112L	PHLDB1_uc001pts.2_Silent_p.L1112L|PHLDB1_uc001ptt.2_Silent_p.L1065L|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Silent_p.L927L|PHLDB1_uc001ptw.1_Silent_p.L467L|PHLDB1_uc009zai.1_Silent_p.L148L|PHLDB1_uc001ptx.1_Silent_p.L148L|PHLDB1_uc010ryi.1_Silent_p.L255L	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	1112											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CTATGATACGCTGAGTCTGGA	0.657													7	139					0	0	0.001984	0	0		T	118516286	T	T	118516286	2	4	19	1	0	0	0	0	0	0	0	1	11870	796	28	2		2	PHLDB1	11	118516286	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1141595	118516286	16490230	1862	15375											
BCL9L	283149	broad.mit.edu	37	chr11	118770905	118770905	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggccgctaggcgggagggTacctacagaaacggggagac	10	3	19	9	3	0	2	0	0	0	2	0	4	0	3	2	7	3	2	2	7	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:118770905T>C	uc001pug.2	-	7	4092	c.3127A>G	c.(3127-3129)ACC>GCC	p.T1043A	BCL9L_uc009zal.2_Missense_Mutation_p.T1038A	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	1043	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		GGCGGGAGGGTACCTACAGAA	0.627													10	17					0	0	0.008291	0	0		C	118770905	C	C	118770905	3	2	19	1	0	0	0	0	1	0	0	0	1383	1638	57	3	1380	3	BCL9L	11	118770905	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	254619	118770905	16235611	1863	15376											
HYOU1	10525	broad.mit.edu	37	chr11	118925262	118925262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatagctgagggcagtggCggtgttgtcattgatgagct	8	11	15	7	1	1	3	1	3	0	0	1	3	1	3	1	3	2	4	1	3	1	3	rs139437097	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:118925262C>T	uc001puu.2	-	7	815	c.622G>A	c.(622-624)GCC>ACC	p.A208T	HYOU1_uc001put.2_Missense_Mutation_p.A173T|HYOU1_uc010ryu.1_Missense_Mutation_p.A228T|HYOU1_uc010ryv.1_Missense_Mutation_p.A97T|HYOU1_uc001pux.3_Missense_Mutation_p.A208T|HYOU1_uc010ryw.1_RNA|HYOU1_uc001puw.1_Missense_Mutation_p.A208T	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	208						endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)		AGGGCAGTGGCGGTGTTGTCA	0.587													32	78					0	0	0.003755	0	0		T	118925262	T	T	118925262	3	4	19	1	0	0	0	0	1	0	0	0	7486	768	27	1	2457	1	HYOU1	11	118925262	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	154357	118925262	16081254	1864	15377											
HINFP	25988	broad.mit.edu	37	chr11	119003653	119003653	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggtgtgattttgagaacTgcaccttcagtgcccgatcc	9	11	10	11	1	1	2	1	2	0	1	2	4	2	2	3	1	3	1	3	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:119003653T>C	uc001pvp.2	+	9	1144	c.955T>C	c.(955-957)TGC>CGC	p.C319R	HINFP_uc001pvq.2_Missense_Mutation_p.C319R|HINFP_uc001pvr.2_Missense_Mutation_p.C72R	NM_015517	NP_056332	Q9BQA5	HINFP_HUMAN	MBD2 (methyl-CpG-binding protein)-interacting	319	C2H2-type 8.				DNA damage checkpoint|DNA repair|establishment of protein localization|in utero embryonic development|myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	enzyme binding|histone binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						TTTTGAGAACTGCACCTTCAG	0.517													12	136					0	0	0.013537	0	0		C	119003653	C	C	119003653	3	2	19	1	0	0	0	0	1	0	0	0	7126	1580	55	3	981	3	HINFP	11	119003653	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	78391	119003653	16002863	1865	15378											
PDZD3	79849	broad.mit.edu	37	chr11	119058341	119058341	+	Frame_Shift_Del	DEL	G	-	-																															agcgggcaggggtgccccccGgggcccggctgctggaagtg																								rs142670540		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:119058341delG	uc001pwb.2	+	4	1311	c.787delG	c.(787-789)GGGfs	p.G263fs	PDZD3_uc001pvy.2_Frame_Shift_Del_p.G197fs|PDZD3_uc001pvz.2_Frame_Shift_Del_p.G197fs|PDZD3_uc010rzd.1_Frame_Shift_Del_p.G184fs|PDZD3_uc001pwa.2_5'UTR			Q86UT5	NHRF4_HUMAN	RecName: Full=Na(+)/H(+) exchange regulatory cofactor NHE-RF4;          Short=NHERF-4; AltName: Full=PDZ domain-containing protein 3; AltName: Full=PDZ domain-containing protein 2; AltName: Full=Intestinal and kidney-enriched PDZ protein; AltName: Full=Sodium-hydrogen exchanger regulatory factor 4;	263	PDZ 2.				cGMP-mediated signaling|ion transport|negative regulation of cGMP biosynthetic process|response to toxin|water transport	apical part of cell|brush border|cytosol|membrane fraction|subapical complex	guanylate cyclase inhibitor activity|ion channel inhibitor activity|protein C-terminus binding			breast(1)	1	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;7.52e-05)		GGTGCCCCCCGGGGCCCGGCT	0.567													4	6	---	---	---	---						.	-	119058341	-	-	119058341	7	5	19	1	0	1	0	1	0	0	0	0	11721	1116	39	0	611	0	PDZD3	11	119058341	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	54688	119058341	15948175	1866	15379											
POU2F3	25833	broad.mit.edu	37	chr11	120175748	120175748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctatcaggcatttgggCaccctgggctgccaggatcc	6	11	11	13	0	1	0	1	0	0	0	3	1	3	1	4	4	1	3	4	4	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:120175748C>T	uc001pxc.2	+	7	556	c.454C>T	c.(454-456)CAC>TAC	p.H152Y	POU2F3_uc010rzk.1_Missense_Mutation_p.H106Y|POU2F3_uc010rzl.1_Missense_Mutation_p.H82Y|POU2F3_uc001pxe.1_5'Flank	NM_014352	NP_055167	Q9UKI9	PO2F3_HUMAN	POU transcription factor	152					negative regulation by host of viral transcription	cytoplasm	sequence-specific DNA binding			ovary(1)|skin(1)	2		Breast(109;0.0011)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;6.85e-06)		GGCATTTGGGCACCCTGGGCT	0.458													9	126					0	0	0.008291	0	0		T	120175748	T	T	120175748	3	4	19	1	0	0	0	0	1	0	0	0	12292	710	25	2	480	2	POU2F3	11	120175748	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1117407	120175748	14830768	1867	15380											
ARHGEF12	23365	broad.mit.edu	37	chr11	120343776	120343776	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcctagaagattatcaGcgtcgccttgatacctccag	10	9	9	13	3	1	3	1	1	0	2	3	3	2	3	4	0	3	0	4	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:120343776G>A	uc001pxl.1	+	31	2980	c.2973G>A	c.(2971-2973)CAG>CAA	p.Q991Q	ARHGEF12_uc009zat.2_Silent_p.Q972Q|ARHGEF12_uc010rzn.1_Silent_p.Q888Q|ARHGEF12_uc009zau.1_Silent_p.Q888Q	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	991					apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		AAGATTATCAGCGTCGCCTTG	0.318			T	MLL	AML								19	257					0	0	0.00333	0	0		A	120343776	A	A	120343776	2	1	19	1	0	0	0	0	0	0	0	1	897	962	34	2		2	ARHGEF12	11	120343776	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	168028	120343776	14662740	1868	15381											
SORL1	6653	broad.mit.edu	37	chr11	121481852	121481852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaagcttcaccctgaccatGgagagtgatatcaaggtaat	13	10	9	9	0	2	3	2	2	0	1	2	4	2	3	2	2	1	2	2	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:121481852G>A	uc001pxx.2	+	39	5387	c.5307G>A	c.(5305-5307)ATG>ATA	p.M1769I	SORL1_uc010rzp.1_Missense_Mutation_p.M615I|SORL1_uc010rzq.1_Missense_Mutation_p.M384I	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1769	Extracellular (Potential).|Fibronectin type-III 3.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		CCCTGACCATGGAGAGTGATA	0.418													7	58					0	0	0.001984	0	0		A	121481852	A	A	121481852	3	1	19	1	0	0	0	0	1	0	0	0	14959	1348	47	4	5461	4	SORL1	11	121481852	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1138076	121481852	13524664	1869	15382											
C11orf63	79864	broad.mit.edu	37	chr11	122774696	122774696	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgaactggaagagtaagaaGgaggaagggcagctgctgtc	13	5	16	7	1	0	2	0	0	0	2	1	6	0	5	1	4	3	4	1	4	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:122774696G>T	uc001pym.2	+	3	705	c.408G>T	c.(406-408)AAG>AAT	p.K136N	C11orf63_uc001pyl.1_Missense_Mutation_p.K136N	NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	136										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		AGAGTAAGAAGGAGGAAGGGC	0.512													87	207					1.3009e-50	1.40097e-50	0.01441	1	0		T	122774696	T	T	122774696	3	4	19	1	0	0	0	0	1	0	0	0	1657	991	35	5	414	5	C11orf63	11	122774696	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1292844	122774696	12231820	1870	15383											
HSPA8	3312	broad.mit.edu	37	chr11	122931470	122931470	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatatcagactggacaacaGcatcatcaaatctgcgtcca	14	9	6	12	1	5	1	4	0	1	1	6	2	6	2	1	1	3	1	1	1	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:122931470G>C	uc001pyo.2	-	3	320	c.242C>G	c.(241-243)GCT>GGT	p.A81G	HSPA8_uc009zbc.2_5'Flank|HSPA8_uc001pyp.2_Missense_Mutation_p.A81G|HSPA8_uc010rzu.1_Intron|HSPA8_uc009zbd.1_Missense_Mutation_p.A81G|HSPA8_uc010rzv.1_Missense_Mutation_p.A81G	NM_006597	NP_006588	P11142	HSP7C_HUMAN	heat shock 70kDa protein 8 isoform 1	81					cellular membrane organization|interspecies interaction between organisms|mRNA metabolic process|negative regulation of transcription, DNA-dependent|neurotransmitter secretion|post-Golgi vesicle-mediated transport|protein folding|response to unfolded protein|transcription, DNA-dependent	cell surface|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|melanosome|plasma membrane|ribonucleoprotein complex	ATP binding|ATPase activity, coupled|protein binding			central_nervous_system(7)|lung(1)	8		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		CTGGACAACAGCATCATCAAA	0.423													21	65					0	0	0.00278	0	0		C	122931470	C	C	122931470	3	2	19	1	0	0	0	0	1	0	0	0	7432	971	34	5	1726	5	HSPA8	11	122931470	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	156774	122931470	12075046	1871	15384											
OR6M1	390261	broad.mit.edu	37	chr11	123676424	123676424	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgtacacgtaggacccagTagtgaatgccagggagctca	12	8	12	9	1	1	1	1	1	0	0	1	3	1	3	2	2	3	4	2	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:123676424T>C	uc010rzz.1	-	1	634	c.634A>G	c.(634-636)ACT>GCT	p.T212A		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	212	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		TAGGACCCAGTAGTGAATGCC	0.488													7	50					0	0	0.001984	0	0		C	123676424	C	C	123676424	3	2	19	1	0	0	0	0	1	0	0	0	11224	1638	57	3	310	3	OR6M1	11	123676424	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	744954	123676424	11330092	1872	15385											
OR4D5	219875	broad.mit.edu	37	chr11	123810556	123810556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgctactcttccatcacagCacctaggatgctggttgact	8	13	8	12	0	2	1	1	1	1	0	3	2	3	2	2	2	4	4	2	2	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:123810556C>T	uc001pzk.1	+	1	233	c.233C>T	c.(232-234)GCA>GTA	p.A78V		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	78	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		TCCATCACAGCACCTAGGATG	0.478													53	122					0	0	0.01441	0	0		T	123810556	T	T	123810556	3	4	19	1	0	0	0	0	1	0	0	0	11076	710	25	2	235	2	OR4D5	11	123810556	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	134132	123810556	11195960	1873	15386											
OR10S1	219873	broad.mit.edu	37	chr11	123847770	123847770	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggcaagcatgactagcTcattaatggtggtgtctgta	9	13	12	7	0	2	1	1	1	1	0	2	1	2	1	0	3	3	5	0	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:123847770T>C	uc001pzm.1	-	1	629	c.629A>G	c.(628-630)GAG>GGG	p.E210G		NM_001004474	NP_001004474	Q8NGN2	O10S1_HUMAN	olfactory receptor, family 10, subfamily S,	210	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CATGACTAGCTCATTAATGGT	0.542													19	42					0	0	0.00333	0	0		C	123847770	C	C	123847770	3	2	19	1	0	0	0	0	1	0	0	0	10937	1551	54	3	370	3	OR10S1	11	123847770	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	37214	123847770	11158746	1874	15387											
OR8D1	283159	broad.mit.edu	37	chr11	124180293	124180293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgggctacagatggcaaCatagcgatcatatgccatgg	12	8	12	9	1	1	1	1	0	0	1	1	2	1	1	1	3	4	2	1	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:124180293C>T	uc010sag.1	-	1	370	c.370G>A	c.(370-372)GTT>ATT	p.V124I		NM_001002917	NP_001002917	Q8WZ84	OR8D1_HUMAN	olfactory receptor, family 8, subfamily D,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		CAGATGGCAACATAGCGATCA	0.493													11	22					0	0	0.010729	0	0		T	124180293	T	T	124180293	3	4	19	1	0	0	0	0	1	0	0	0	11250	478	17	4	559	4	OR8D1	11	124180293	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	332523	124180293	10826223	1875	15388											
PANX3	116337	broad.mit.edu	37	chr11	124487357	124487357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggcagaagagttccgaccCctatgtgttctggaatgagc	9	9	12	11	2	1	3	0	1	1	2	2	5	2	4	4	2	1	3	4	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:124487357C>T	uc001qah.2	+	3	512	c.512C>T	c.(511-513)CCC>CTC	p.P171L		NM_052959	NP_443191	Q96QZ0	PANX3_HUMAN	pannexin 3	171	Cytoplasmic (Potential).				protein hexamerization	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0219)		AGTTCCGACCCCTATGTGTTC	0.448													34	83					0	0	0.00623	0	0		T	124487357	T	T	124487357	3	4	19	1	0	0	0	0	1	0	0	0	11441	623	22	4	522	4	PANX3	11	124487357	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	307064	124487357	10519159	1876	15389											
ESAM	90952	broad.mit.edu	37	chr11	124624154	124624154	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggccttgccccggcggtgGtacaagaggaccagcccagc	8	4	15	14	2	0	1	0	0	0	1	0	2	0	2	5	5	4	1	5	5	2	2	rs143828847		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:124624154G>A	uc001qav.3	-	6	986	c.813C>T	c.(811-813)TAC>TAT	p.Y271Y	VSIG2_uc001qas.2_5'Flank|VSIG2_uc001qat.2_5'Flank|ESAM_uc010sao.1_Silent_p.Y92Y|ESAM_uc001qau.3_Silent_p.Y198Y|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Silent_p.Y271Y	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	271	Cytoplasmic (Potential).				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		CCCGGCGGTGGTACAAGAGGA	0.627													19	30					0	0	0.010504	0	0		A	124624154	A	A	124624154	2	1	19	1	0	0	0	0	0	0	0	1	5255	1256	44	4		4	ESAM	11	124624154	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	136797	124624154	10382362	1877	15390											
CDON	50937	broad.mit.edu	37	chr11	125887164	125887164	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaatacacttgaggagcCgggaccccactcaccacaca	13	4	8	16	1	1	1	1	1	0	0	1	3	1	3	5	2	3	0	5	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:125887164C>T	uc009zbw.2	-	6	875	c.747G>A	c.(745-747)CCG>CCA	p.P249P	CDON_uc001qdc.3_Silent_p.P249P|CDON_uc001qdd.3_RNA|CDON_uc009zbx.2_Silent_p.P249P	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	249	Extracellular (Potential).|Ig-like C2-type 3.				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		CTTGAGGAGCCGGGACCCCAC	0.517													29	48					0	0	0.009535	0	0		T	125887164	T	T	125887164	2	4	19	1	0	0	0	0	0	0	0	1	3173	639	23	1		1	CDON	11	125887164	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1263010	125887164	9119352	1878	15391											
RPUSD4	84881	broad.mit.edu	37	chr11	126081527	126081527	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacgcgctccacctgggcgCcgccatcttacaaggaaggg	8	5	13	15	5	1	0	0	0	1	0	2	2	2	1	4	3	1	1	4	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:126081527C>A	uc001qde.2	-	1	61	c.7G>T	c.(7-9)GCG>TCG	p.A3S	FAM118B_uc001qdf.2_5'Flank|FAM118B_uc009zca.2_5'Flank|FAM118B_uc001qdg.2_5'Flank|RPUSD4_uc009zbz.2_Missense_Mutation_p.A3S|RPUSD4_uc009zby.2_RNA	NM_032795	NP_116184	Q96CM3	RUSD4_HUMAN	RNA pseudouridylate synthase domain containing 4	3					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			breast(1)	1	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0761)		CACCTGGGCGCCGCCATCTTA	0.662													27	63					5.60225e-13	5.8971e-13	0.009535	1	0		A	126081527	A	A	126081527	3	1	19	1	0	0	0	0	1	0	0	0	13694	739	26	5	1154	5	RPUSD4	11	126081527	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	194363	126081527	8924989	1879	15392											
KIRREL3	84623	broad.mit.edu	37	chr11	126396434	126396434	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtctggaggtactcactTgagaggtccctgcccacacc	8	8	12	13	0	2	1	1	1	1	1	3	4	3	2	3	4	2	1	3	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:126396434T>C	uc001qea.2	-	3	643	c.282A>G	c.(280-282)TCA>TCG	p.S94S	KIRREL3_uc001qeb.2_Silent_p.S94S|KIRREL3_uc001qec.1_Silent_p.S94S	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	94	Ig-like C2-type 1.|Extracellular (Potential).				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		GGTACTCACTTGAGAGGTCCC	0.597													10	14					0	0	0.013537	0	0		C	126396434	C	C	126396434	2	2	19	1	0	0	0	0	0	0	0	1	8342	1826	63	3		3	KIRREL3	11	126396434	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	314907	126396434	8610082	1880	15393											
ETS1	2113	broad.mit.edu	37	chr11	128350194	128350194	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgggcttgtggttgggcaGggcagccggatagtcctctg	4	11	17	9	1	1	0	0	0	1	0	2	1	2	1	2	5	1	4	2	5	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:128350194G>T	uc010sbs.1	-	6	1199	c.883C>A	c.(883-885)CTG>ATG	p.L295M	ETS1_uc001qej.2_Missense_Mutation_p.L339M|ETS1_uc009zch.2_Missense_Mutation_p.L79M|ETS1_uc009zcg.2_Intron	NM_005238	NP_005229	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	295					cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)		TGGTTGGGCAGGGCAGCCGGA	0.582													18	54					5.45024e-15	5.76544e-15	0.00333	1	0		T	128350194	T	T	128350194	3	4	19	1	0	0	0	0	1	0	0	0	5283	991	35	5	454	5	ETS1	11	128350194	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1953760	128350194	6656322	1881	15394											
ADAMTS8	11095	broad.mit.edu	37	chr11	130281492	130281492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccagcctccatctgccaCgggctgcaacatacaatggc	9	7	9	16	1	1	0	0	0	1	0	2	0	2	0	4	2	6	2	4	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:130281492C>T	uc001qgg.3	-	6	1928	c.1570G>A	c.(1570-1572)GTG>ATG	p.V524M	ADAMTS8_uc001qgf.2_Missense_Mutation_p.V5M	NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	524	Disintegrin.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		CCATCTGCCACGGGCTGCAAC	0.577													15	31					0	0	0.004007	0	0		T	130281492	T	T	130281492	3	4	19	1	0	0	0	0	1	0	0	0	272	536	19	1	1115	1	ADAMTS8	11	130281492	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1931298	130281492	4725024	1882	15395											
IGSF9B	22997	broad.mit.edu	37	chr11	133790518	133790518	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccagggctcaggggagcgCcctcctgtaggtgtctgagt	5	8	15	13	1	2	1	1	1	1	0	3	2	3	2	4	4	1	2	4	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:133790518C>T	uc001qgx.3	-	18	3333	c.3102G>A	c.(3100-3102)GGG>GGA	p.G1034G		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	1034	Pro-rich.|Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		CAGGGGAGCGCCCTCCTGTAG	0.662													41	88					0	0	0.01441	0	0		T	133790518	T	T	133790518	2	4	19	1	0	0	0	0	0	0	0	1	7622	726	26	2		2	IGSF9B	11	133790518	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3509026	133790518	1215998	1883	15396											
KDM5A	5927	broad.mit.edu	37	chr12	419071	419071	+	Frame_Shift_Del	DEL	T	-	-																															ttttctattagttcttttacTtttttcctcctatttttgcc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:419071delT	uc001qif.1	-	22	3639	c.3276delA	c.(3274-3276)AAAfs	p.K1092fs	KDM5A_uc001qie.1_Frame_Shift_Del_p.K1092fs|KDM5A_uc010sdn.1_Frame_Shift_Del_p.K1051fs	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	1092					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						GTTCTTTTACTTTTTTCCTCC	0.418			T 	NUP98	AML								36	76	---	---	---	---						.	-	419071	-	-	419071	7	5	19	1	0	1	0	1	0	0	0	0	8149	1606	56	0	1824	0	KDM5A	12	419071	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08		419071	133432824	1884	15397											
CACNA1C	775	broad.mit.edu	37	chr12	2162730	2162730	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaaccatttttggtccaTggtcaatgagaatacgagga	14	12	9	6	1	1	1	1	1	0	1	2	4	2	2	2	3	2	0	2	3	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:2162730T>C	uc009zdu.1	+	1	315	c.2T>C	c.(1-3)ATG>ACG	p.M1T	CACNA1C_uc009zdv.1_Missense_Mutation_p.M1T|CACNA1C_uc001qkb.2_Missense_Mutation_p.M1T|CACNA1C_uc001qkc.2_Missense_Mutation_p.M1T|CACNA1C_uc001qke.2_Missense_Mutation_p.M1T|CACNA1C_uc001qkf.2_Missense_Mutation_p.M1T|CACNA1C_uc001qjz.2_Missense_Mutation_p.M1T|CACNA1C_uc001qkd.2_Missense_Mutation_p.M1T|CACNA1C_uc001qkg.2_Missense_Mutation_p.M1T|CACNA1C_uc009zdw.1_Missense_Mutation_p.M1T|CACNA1C_uc001qkh.2_Missense_Mutation_p.M1T|CACNA1C_uc001qkl.2_Missense_Mutation_p.M1T|CACNA1C_uc001qkn.2_Missense_Mutation_p.M1T|CACNA1C_uc001qko.2_Missense_Mutation_p.M1T|CACNA1C_uc001qkp.2_Missense_Mutation_p.M1T|CACNA1C_uc001qkr.2_Missense_Mutation_p.M1T|CACNA1C_uc001qku.2_Missense_Mutation_p.M1T|CACNA1C_uc001qkq.2_Missense_Mutation_p.M1T|CACNA1C_uc001qks.2_Missense_Mutation_p.M1T|CACNA1C_uc001qkt.2_Missense_Mutation_p.M1T	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	TTTTGGTCCATGGTCAATGAG	0.562													4	9					0	0	0.000602	0	0		C	2162730	C	C	2162730	3	2	19	1	0	0	0	0	1	0	0	0	2543	1464	51	3	4	3	CACNA1C	12	2162730	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1743659	2162730	131689165	1885	15398											
NDUFA9	4704	broad.mit.edu	37	chr12	4791406	4791406	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttttccacctggtgaagtAcatctttgctgtggctcaca	7	14	8	12	0	2	1	1	1	1	0	3	1	3	1	3	2	2	3	3	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:4791406A>T	uc001qnc.2	+	9	846	c.836A>T	c.(835-837)TAC>TTC	p.Y279F	NDUFA9_uc010ses.1_Missense_Mutation_p.Y60F	NM_005002	NP_004993	Q16795	NDUA9_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	279					mitochondrial electron transport, NADH to ubiquinone|sodium ion transport	mitochondrial matrix|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	CTGGTGAAGTACATCTTTGCT	0.428													6	243					0	0	0.004482	0	0		T	4791406	T	T	4791406	3	4	19	1	0	0	0	0	1	0	0	0	10291	391	14	5	870	5	NDUFA9	12	4791406	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2628676	4791406	129060489	1886	15399											
GALNT8	26290	broad.mit.edu	37	chr12	4848407	4848407	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaatgaagctctgtccatTatacaacgggccatcaccag	12	9	9	11	1	2	2	1	2	1	0	3	2	3	2	3	1	3	1	3	1	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:4848407T>C	uc001qne.1	+	3	680	c.588T>C	c.(586-588)ATT>ATC	p.I196I		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	196	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						CTCTGTCCATTATACAACGGG	0.438													10	97					0	0	0.010729	0	0		C	4848407	C	C	4848407	2	2	19	1	0	0	0	0	0	0	0	1	6234	1742	61	3		3	GALNT8	12	4848407	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	57001	4848407	129003488	1887	15400											
VWF	7450	broad.mit.edu	37	chr12	6230409	6230409	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagtatcccgcaaagctgtAcatgctcccatcaaaggtgt	11	9	9	12	1	1	0	1	0	0	0	3	0	3	0	2	1	3	6	2	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:6230409A>G	uc001qnn.1	-	3	401	c.151T>C	c.(151-153)TAC>CAC	p.Y51H	VWF_uc010set.1_Missense_Mutation_p.Y51H|VWF_uc001qno.1_Missense_Mutation_p.Y88H	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	51	VWFD 1.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	GCAAAGCTGTACATGCTCCCA	0.562													20	52					0	0	0.008871	0	0		G	6230409	G	G	6230409	3	3	19	1	0	0	0	0	1	0	0	0	17272	391	14	3	8490	3	VWF	12	6230409	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1382002	6230409	127621486	1888	15401											
CHD4	1108	broad.mit.edu	37	chr12	6696642	6696642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttctgtgtcttcagtctcatCctggttacggtctagcagcc	5	15	9	12	1	5	0	2	0	4	0	7	0	6	0	2	2	3	2	2	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:6696642C>T	uc001qpo.2	-	25	3951	c.3787G>A	c.(3787-3789)GAT>AAT	p.D1263N	CHD4_uc001qpn.2_Missense_Mutation_p.D1256N|CHD4_uc001qpp.2_Missense_Mutation_p.D1260N	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1263					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TCAGTCTCATCCTGGTTACGG	0.448													9	220					0	0	0.004482	0	0		T	6696642	T	T	6696642	3	4	19	1	0	0	0	0	1	0	0	0	3330	855	30	4	2015	4	CHD4	12	6696642	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	466233	6696642	127155253	1889	15402											
CHD4	1108	broad.mit.edu	37	chr12	6700956	6700956	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctctgattagggcactGccatcatacatgccattagg	10	11	10	10	0	2	1	1	1	1	0	2	2	2	1	2	2	4	2	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:6700956G>A	uc001qpo.2	-	21	3290	c.3126C>T	c.(3124-3126)GGC>GGT	p.G1042G	CHD4_uc001qpn.2_Silent_p.G1035G|CHD4_uc001qpp.2_Silent_p.G1039G	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1042					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TTAGGGCACTGCCATCATACA	0.448													9	109					0	0	0.006214	0	0		A	6700956	A	A	6700956	2	1	19	1	0	0	0	0	0	0	0	1	3330	1306	46	2		2	CHD4	12	6700956	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4314	6700956	127150939	1890	15403											
ENO2	2026	broad.mit.edu	37	chr12	7031312	7031312	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attgctgacctggtggtgggGctgtgcacaggccaggtgag	6	9	18	8	0	0	2	0	2	0	0	0	2	0	2	2	6	2	3	2	6	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:7031312G>A	uc001qru.1	+	10	1383	c.1161G>A	c.(1159-1161)GGG>GGA	p.G387G	ENO2_uc009zfi.1_Silent_p.G387G|ENO2_uc010sfq.1_Silent_p.G344G|ENO2_uc001qrv.1_Silent_p.G387G|ATN1_uc001qrw.1_5'Flank	NM_001975	NP_001966	P09104	ENOG_HUMAN	enolase 2	387					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex|plasma membrane	magnesium ion binding|phosphopyruvate hydratase activity				0						TGGTGGTGGGGCTGTGCACAG	0.572													5	103					0	0	0.000602	0	0		A	7031312	A	A	7031312	2	1	19	1	0	0	0	0	0	0	0	1	5130	1190	42	2		2	ENO2	12	7031312	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	330356	7031312	126820583	1891	15404											
C12orf57	113246	broad.mit.edu	37	chr12	7054995	7054995	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caggatcctgagatcgccagCctgtcaggcaagctgaaggc	10	6	13	12	1	1	2	1	2	0	1	3	4	2	3	3	3	2	2	3	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:7054995C>A	uc001qrz.2	+	3	373	c.291C>A	c.(289-291)AGC>AGA	p.S97R	PTPN6_uc001qsa.1_5'Flank|PTPN6_uc010sfr.1_5'Flank	NM_138425	NP_612434	Q99622	C10_HUMAN	C10 protein	97											0						AGATCGCCAGCCTGTCAGGCA	0.612													7	25					0.00198382	0.00202215	0.001984	1	0		A	7054995	A	A	7054995	3	1	19	1	0	0	0	0	1	0	0	0	1704	738	26	5	301	5	C12orf57	12	7054995	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	23683	7054995	126796900	1892	15405											
PTPN6	5777	broad.mit.edu	37	chr12	7069334	7069334	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgcagacggaggcgcagTacaagttcatctacgtggcc	9	8	14	10	3	2	1	1	0	1	1	2	2	2	2	1	4	3	4	1	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:7069334T>C	uc001qsb.2	+	13	1755	c.1513T>C	c.(1513-1515)TAC>CAC	p.Y505H	PTPN6_uc001qsa.1_Missense_Mutation_p.Y507H|PTPN6_uc010sfr.1_Missense_Mutation_p.Y466H|PTPN6_uc009zfl.1_Missense_Mutation_p.Y505H|PTPN6_uc010sfs.1_Missense_Mutation_p.Y493H	NM_002831	NP_002822	P29350	PTN6_HUMAN	protein tyrosine phosphatase, non-receptor type	505	Tyrosine-protein phosphatase.				apoptosis|cell junction assembly|G-protein coupled receptor protein signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|negative regulation of peptidyl-tyrosine phosphorylation|platelet activation|positive regulation of cell proliferation|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of G1/S transition of mitotic cell cycle|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol|membrane|nucleus	protein binding|protein tyrosine phosphatase activity			breast(1)	1						GGAGGCGCAGTACAAGTTCAT	0.627													19	53					0	0	0.010504	0	0		C	7069334	C	C	7069334	3	2	19	1	0	0	0	0	1	0	0	0	12817	1638	57	3	1581	3	PTPN6	12	7069334	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	14339	7069334	126782561	1893	15406											
C1RL	51279	broad.mit.edu	37	chr12	7249400	7249400	+	Frame_Shift_Del	DEL	G	-	-																															cgggaggacgttggggcccaGggggatgctgtgctgcagct																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:7249400delG	uc001qsn.2	-	6	1068	c.1051delC	c.(1051-1053)CTGfs	p.L351fs	C1RL_uc009zft.2_3'UTR	NM_016546	NP_057630	Q9NZP8	C1RL_HUMAN	complement component 1, r subcomponent-like	351	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis		serine-type endopeptidase activity			pancreas(1)	1						TTGGGGCCCAGGGGGATGCTG	0.617													36	67	---	---	---	---						.	-	7249400	-	-	7249400	7	5	19	1	0	1	0	1	0	0	0	0	1976	991	35	0	416	0	C1RL	12	7249400	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	180066	7249400	126602495	1894	15407											
SLC2A3	6515	broad.mit.edu	37	chr12	8083863	8083863	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggccaccagaattccaacaAcgatgcccagctggttgaga	12	6	11	12	1	0	2	0	1	0	2	1	4	1	2	4	2	4	2	4	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:8083863A>G	uc001qtr.2	-	4	750	c.488T>C	c.(487-489)GTT>GCT	p.V163A	SLC2A3_uc001qts.2_Missense_Mutation_p.V163A	NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	163	Helical; Name=5; (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		AATTCCAACAACGATGCCCAG	0.433													30	49					0	0	0.009535	0	0		G	8083863	G	G	8083863	3	3	19	1	0	0	0	0	1	0	0	0	14570	43	2	3	1030	3	SLC2A3	12	8083863	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	834463	8083863	125768032	1895	15408											
C3AR1	719	broad.mit.edu	37	chr12	8211659	8211659	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccacggccactcgaaaggTtttgctctgagacttggcga	9	9	11	12	3	1	1	0	1	1	1	2	4	1	1	2	3	1	2	2	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:8211659T>C	uc001qtv.1	-	2	1215	c.1123A>G	c.(1123-1125)ACC>GCC	p.T375A		NM_004054	NP_004045	Q16581	C3AR_HUMAN	complement component 3a receptor 1	375	Cytoplasmic (Potential).				blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)		ACTCGAAAGGTTTTGCTCTGA	0.512													12	37					0	0	0.003163	0	0		C	8211659	C	C	8211659	3	2	19	1	0	0	0	0	1	0	0	0	2208	1725	60	3	329	3	C3AR1	12	8211659	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	127796	8211659	125640236	1896	15409											
A2ML1	144568	broad.mit.edu	37	chr12	8982328	8982328	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgttcctttccagtgtatTtccgcattgtcaccatggat	6	16	7	12	1	1	0	1	0	0	0	4	1	4	1	5	1	0	3	5	1	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:8982328T>C	uc001quz.3	+	4	513	c.415T>C	c.(415-417)TTC>CTC	p.F139L		NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	Error:Variant_position_missing_in_B3KVV6_after_alignment						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TCCAGTGTATTTCCGCATTGT	0.383													6	148					0	0	0.001168	0	0		C	8982328	C	C	8982328	3	2	19	1	0	0	0	0	1	0	0	0	5	1841	64	3	429	3	A2ML1	12	8982328	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	770669	8982328	124869567	1897	15410											
CLEC1A	51267	broad.mit.edu	37	chr12	10233996	10233996	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttgaccagtattggagagCtggtagtactgaaaaactaa	14	11	10	6	0	1	3	0	2	1	1	1	4	1	3	1	2	3	4	1	2	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:10233996C>T	uc001qxb.2	-	3	315	c.231G>A	c.(229-231)CAG>CAA	p.Q77Q	CLEC1A_uc009zhf.2_5'UTR|CLEC1A_uc001qxc.2_5'UTR|CLEC1A_uc001qxd.2_Silent_p.Q34Q|CLEC1A_uc010sgx.1_Intron	NM_016511	NP_057595	Q8NC01	CLC1A_HUMAN	C-type lectin-like receptor-1	77	Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane|intracellular	sugar binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2						TATTGGAGAGCTGGTAGTACT	0.363													4	103					0	0	0.009096	0	0		T	10233996	T	T	10233996	2	4	19	1	0	0	0	0	0	0	0	1	3508	796	28	2		2	CLEC1A	12	10233996	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1251668	10233996	123617899	1898	15411											
KLRD1	3824	broad.mit.edu	37	chr12	10466091	10466091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgcctggttgtgggagaatgGctctgcactctcccagtatc	6	11	12	12	1	2	1	0	0	2	1	4	2	2	1	2	3	1	4	2	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:10466091G>A	uc001qxw.3	+	6	595	c.398G>A	c.(397-399)GGC>GAC	p.G133D	KLRD1_uc001qxx.3_Missense_Mutation_p.G133D|KLRD1_uc001qxy.3_Missense_Mutation_p.G102D|KLRD1_uc009zhh.2_Missense_Mutation_p.G112D|KLRD1_uc009zhi.2_3'UTR|KLRD1_uc001qxz.3_Missense_Mutation_p.G134D	NM_001114396	NP_001107868	Q13241	KLRD1_HUMAN	killer cell lectin-like receptor subfamily D,	133	Extracellular (Potential).|C-type lectin.				cell surface receptor linked signaling pathway|regulation of immune response	integral to membrane|plasma membrane	sugar binding|transmembrane receptor activity				0						TGGGAGAATGGCTCTGCACTC	0.428													37	95					0	0	0.005524	0	0		A	10466091	A	A	10466091	3	1	19	1	0	0	0	0	1	0	0	0	8435	1203	42	2	416	2	KLRD1	12	10466091	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	232095	10466091	123385804	1899	15412											
TAS2R30	259293	broad.mit.edu	37	chr12	11286312	11286312	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgctagcatggttagagTcatatttgaatggtacattg	10	16	11	4	0	1	2	1	1	0	1	1	2	1	2	0	2	3	5	0	2	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:11286312T>C	uc009zhs.1	-	1	532	c.532A>G	c.(532-534)ACT>GCT	p.T178A	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_001097643	NP_001091112			type 2 taste receptor member 30												0						ATGGTTAGAGTCATATTTGAA	0.383													4	190					0	0	0.000602	0	0		C	11286312	C	C	11286312	3	2	19	1	0	0	0	0	1	0	0	0	15598	1667	58	3	431	3	TAS2R30	12	11286312	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	820221	11286312	122565583	1900	15413											
MANSC1	54682	broad.mit.edu	37	chr12	12483242	12483242	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttgacatagaaagtgcagTagggttatacacattccctg	13	12	9	7	0	0	2	0	1	0	1	1	2	1	2	1	1	2	3	1	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:12483242T>C	uc001rai.1	-	4	1273	c.1015A>G	c.(1015-1017)ACT>GCT	p.T339A	MANSC1_uc010shm.1_Missense_Mutation_p.T273A|MANSC1_uc001raj.1_Missense_Mutation_p.T305A|MANSC1_uc009zht.1_Missense_Mutation_p.T258A	NM_018050	NP_060520	Q9H8J5	MANS1_HUMAN	MANSC domain containing 1 precursor	339	Extracellular (Potential).					integral to membrane					0		Prostate(47;0.0865)		BRCA - Breast invasive adenocarcinoma(232;0.185)		GAAAGTGCAGTAGGGTTATAC	0.478													12	253					0	0	0.001855	0	0		C	12483242	C	C	12483242	3	2	19	1	0	0	0	0	1	0	0	0	9242	1638	57	3	284	3	MANSC1	12	12483242	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1196930	12483242	121368653	1901	15414											
DDX47	51202	broad.mit.edu	37	chr12	12974332	12974332	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctattggagtgcagagtggTaagtgtctgagagggaaggg	10	10	18	3	0	2	2	0	1	2	2	2	5	2	4	0	4	1	2	0	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:12974332T>C	uc001rav.2	+	6	968	c.370_splice	c.e6+2	p.A124_splice	DDX47_uc009zhw.1_Splice_Site_p.A124_splice|DDX47_uc001rax.2_Splice_Site_p.A124_splice|DDX47_uc001ray.2_Splice_Site_p.A124_splice|DDX47_uc010shn.1_Silent_p.G124G	NM_016355	NP_057439	Q9H0S4	DDX47_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 47							nucleolus|nucleolus	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding				0		Prostate(47;0.0526)		BRCA - Breast invasive adenocarcinoma(232;0.0354)		TGCAGAGTGGTAAGTGTCTGA	0.488													9	168					0	0	0.010729	0	0		C	12974332	C	C	12974332	5	2	19	1	0	0	0	0	0	0	1	0	4368	1652	57	3	382	3	DDX47	12	12974332	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	491090	12974332	120877563	1902	15415											
GRIN2B	2904	broad.mit.edu	37	chr12	13715758	13715758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagtttctcataaacatGcccattgctggagccattga	13	11	8	9	0	1	2	1	1	1	1	2	3	1	3	2	1	4	2	2	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:13715758G>A	uc001rbt.2	-	13	4593	c.4414C>T	c.(4414-4416)CAT>TAT	p.H1472Y		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1472	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TCATAAACATGCCCATTGCTG	0.512													8	236					0	0	0.00308	0	0		A	13715758	A	A	13715758	3	1	19	1	0	0	0	0	1	0	0	0	6796	1319	46	2	44	2	GRIN2B	12	13715758	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	741426	13715758	120136137	1903	15416											
ERP27	121506	broad.mit.edu	37	chr12	15068460	15068460	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatccatcacaaaagtttTgcacatgctctacggaaact	14	10	7	10	1	2	0	1	0	1	0	3	2	3	2	1	2	4	3	1	2	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:15068460T>C	uc001rco.2	-	6	758	c.737A>G	c.(736-738)CAA>CGA	p.Q246R		NM_152321	NP_689534	Q96DN0	ERP27_HUMAN	endoplasmic reticulum protein 27 kDa precursor	246						endoplasmic reticulum lumen				breast(1)	1						ACAAAAGTTTTGCACATGCTC	0.413													11	81					0	0	0.013537	0	0		C	15068460	C	C	15068460	3	2	19	1	0	0	0	0	1	0	0	0	5249	1812	63	3	92	3	ERP27	12	15068460	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1352702	15068460	118783435	1904	15417											
ABCC9	10060	broad.mit.edu	37	chr12	22025570	22025570	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatacatacttgctccagtgAacttttccttccaatgtctg	9	16	5	11	0	1	1	0	1	1	0	4	1	4	1	3	0	4	1	3	0	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:22025570A>G	uc001rfi.1	-	16	2207	c.2187T>C	c.(2185-2187)GTT>GTC	p.V729V	ABCC9_uc001rfh.2_Silent_p.V729V|ABCC9_uc001rfj.1_Silent_p.V693V	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	729	Cytoplasmic (Potential).|ABC transporter 1.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TGCTCCAGTGAACTTTTCCTT	0.408													49	141					0	0	0.01441	0	0		G	22025570	G	G	22025570	2	3	19	1	0	0	0	0	0	0	0	1	59	233	9	3		3	ABCC9	12	22025570	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	6957110	22025570	111826325	1905	15418											
KRAS	3845	broad.mit.edu	37	chr12	25378562	25378562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttacctgtcttgtctttgCtgatgtttcaataaaaggaa	11	16	7	7	0	3	1	1	1	2	0	3	2	3	2	1	1	2	2	1	1	5	5	rs121913527		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:25378562C>T	uc001rgp.1	-	4	617	c.436G>A	c.(436-438)GCA>ACA	p.A146T	KRAS_uc001rgq.1_Missense_Mutation_p.A146T	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	146			A -> T (in a colorectal cancer sample; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.A146T(46)|p.A146V(12)|p.A146P(3)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CTTGTCTTTGCTGATGTTTCA	0.323	A146T(LS1034_LARGE_INTESTINE)|A146T(AMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|A146T(NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			43	98					0	0	0.013114	0	0		T	25378562	T	T	25378562	3	4	19	1	0	0	0	0	1	0	0	0	8454	797	28	2	262	2	KRAS	12	25378562	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3352992	25378562	108473333	1906	15419											
RASSF8	11228	broad.mit.edu	37	chr12	26217646	26217646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttatacaggcagagtctgCcccccttagctaaactgagg	10	10	9	12	0	1	2	0	1	1	1	1	2	1	2	3	2	4	2	3	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:26217646C>T	uc001rgx.2	+	3	540	c.319C>T	c.(319-321)CCC>TCC	p.P107S	RASSF8_uc001rgy.2_Missense_Mutation_p.P107S|RASSF8_uc001rgz.2_Missense_Mutation_p.P107S|RASSF8_uc009zjd.1_Missense_Mutation_p.P107S|RASSF8_uc009zje.1_Missense_Mutation_p.P107S	NM_007211	NP_009142	Q8NHQ8	RASF8_HUMAN	Ras association (RalGDS/AF-6) domain family	107					signal transduction						0	Colorectal(261;0.0847)					GCAGAGTCTGCCCCCCTTAGC	0.478													45	95					0	0	0.009718	0	0		T	26217646	T	T	26217646	3	4	19	1	0	0	0	0	1	0	0	0	13117	739	26	2	325	2	RASSF8	12	26217646	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	839084	26217646	107634249	1907	15420											
ITPR2	3709	broad.mit.edu	37	chr12	26818903	26818903	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcggtttggcttagtgatAaccacatccagaacttcttg	9	14	8	10	1	2	2	0	1	2	1	4	2	3	2	2	2	2	2	2	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:26818903A>G	uc001rhg.2	-	14	1908	c.1491T>C	c.(1489-1491)GTT>GTC	p.V497V		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	497	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					GCTTAGTGATAACCACATCCA	0.333													5	99					0	0	0.000602	0	0		G	26818903	G	G	26818903	2	3	19	1	0	0	0	0	0	0	0	1	7937	349	13	3		3	ITPR2	12	26818903	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	601257	26818903	107032992	1908	15421											
C12orf11	55726	broad.mit.edu	37	chr12	27070614	27070614	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgtacaccactttaatgtTattgtttctttaaacgagcc	10	16	7	8	1	1	0	0	0	1	0	1	1	1	0	2	1	3	3	2	1	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:27070614T>C	uc001rhk.3	-	9	1479	c.942A>G	c.(940-942)ATA>ATG	p.I314M	C12orf11_uc001rhj.3_Translation_Start_Site|C12orf11_uc010sjk.1_Missense_Mutation_p.I213M	NM_018164	NP_060634	Q9NVM9	M89BB_HUMAN	hypothetical protein LOC55726	314					cell division|mitosis|regulation of mitotic cell cycle		protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	Colorectal(261;0.0847)					ACTTTAATGTTATTGTTTCTT	0.313													4	87					0	0	0.000602	0	0		C	27070614	C	C	27070614	3	2	19	1	0	0	0	0	1	0	0	0	1678	1744	61	3	1214	3	C12orf11	12	27070614	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	251711	27070614	106781281	1909	15422											
KLHDC5	57542	broad.mit.edu	37	chr12	27944677	27944677	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtggctgttaattcaaaactCtatgccatcggagggcaggc	10	10	12	9	1	2	0	1	0	1	0	3	1	2	1	1	4	2	3	1	4	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:27944677C>G	uc001rij.2	+	2	986	c.909C>G	c.(907-909)CTC>CTG	p.L303L	KLHDC5_uc009zjj.2_RNA	NM_020782	NP_065833	Q9P2K6	KLDC5_HUMAN	kelch domain containing 5	303	Kelch 3.									ovary(1)|central_nervous_system(1)	2	Lung SC(9;0.0873)					ATTCAAAACTCTATGCCATCG	0.468													97	194					0	0	0.01441	0	0		G	27944677	G	G	27944677	2	3	19	1	0	0	0	0	0	0	0	1	8375	900	32	5		5	KLHDC5	12	27944677	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	874063	27944677	105907218	1910	15423											
IPO8	10526	broad.mit.edu	37	chr12	30833414	30833414	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttctgcaatagaaacctAcctgaacaagtgcataaaag	16	10	7	8	0	1	2	0	1	1	1	1	2	1	2	2	0	5	3	2	0	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:30833414A>G	uc001rjd.2	-	5	809	c.639_splice	c.e5+1	p.Q213_splice		NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8						intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					ATAGAAACCTACCTGAACAAG	0.249													17	45					0	0	0.004007	0	0		G	30833414	G	G	30833414	5	3	19	1	0	0	0	0	0	0	1	0	7814	405	14	3	2556	3	IPO8	12	30833414	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2888737	30833414	103018481	1911	15424											
BICD1	636	broad.mit.edu	37	chr12	32369202	32369202	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttgggcagtccttctccAtccaccggaaggttgctgaa	8	11	10	12	1	1	1	0	1	1	0	4	2	3	2	4	3	1	3	4	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:32369202A>G	uc001rku.2	+	2	316	c.235A>G	c.(235-237)ATC>GTC	p.I79V	BICD1_uc001rkv.2_Missense_Mutation_p.I79V|BICD1_uc010skd.1_RNA	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	79	Potential.				anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			GTCCTTCTCCATCCACCGGAA	0.463													30	74					0	0	0.003271	0	0		G	32369202	G	G	32369202	3	3	19	1	0	0	0	0	1	0	0	0	1429	217	8	3	241	3	BICD1	12	32369202	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1535788	32369202	101482693	1912	15425											
PKP2	5318	broad.mit.edu	37	chr12	33031026	33031026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgacagtgagccctgccGtcaggtagttctccttctcc	5	10	10	16	2	3	1	1	1	2	0	5	2	3	1	5	1	2	2	5	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:33031026G>A	uc001rlj.3	-	3	903	c.788C>T	c.(787-789)ACG>ATG	p.T263M	PKP2_uc001rlk.3_Missense_Mutation_p.T263M|PKP2_uc010skj.1_Missense_Mutation_p.T263M	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	263					cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					GAGCCCTGCCGTCAGGTAGTT	0.642													18	43					0	0	0.014323	0	0		A	33031026	A	A	33031026	3	1	19	1	0	0	0	0	1	0	0	0	12004	1145	40	1	1905	1	PKP2	12	33031026	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	661824	33031026	100820869	1913	15426											
SYT10	341359	broad.mit.edu	37	chr12	33538209	33538209	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagggaaaacatgatttcAcccaggtctatactttccta	14	11	6	10	0	2	1	1	1	1	0	3	2	3	2	2	2	2	0	2	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:33538209A>G	uc001rll.1	-	4	1392	c.1095T>C	c.(1093-1095)GGT>GGC	p.G365G	SYT10_uc009zju.1_Silent_p.G175G	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	365	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					ACATGATTTCACCCAGGTCTA	0.393													6	43					0	0	0.001168	0	0		G	33538209	G	G	33538209	2	3	19	1	0	0	0	0	0	0	0	1	15491	146	6	3		3	SYT10	12	33538209	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	507183	33538209	100313686	1914	15427											
ALG10	84920	broad.mit.edu	37	chr12	34179676	34179676	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaaactgctggaatttcgTtacttcattttaccttatgt	10	17	6	8	1	1	1	1	0	0	1	2	2	1	2	1	1	4	2	1	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:34179676T>C	uc001rlm.2	+	3	1567	c.1248T>C	c.(1246-1248)CGT>CGC	p.R416R		NM_032834	NP_116223	Q5BKT4	AG10A_HUMAN	asparagine-linked glycosylation 10 homolog	416	Extracellular (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			skin(1)	1	Lung NSC(5;3.82e-05)|Acute lymphoblastic leukemia(23;0.0142)|all_hematologic(23;0.0429)	Lung NSC(34;0.204)|all_lung(34;0.235)				TGGAATTTCGTTACTTCATTT	0.348													13	244					0	0	0.013537	0	0		C	34179676	C	C	34179676	2	2	19	1	0	0	0	0	0	0	0	1	511	1712	60	3		3	ALG10	12	34179676	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	641467	34179676	99672219	1915	15428											
KIF21A	55605	broad.mit.edu	37	chr12	39734129	39734129	+	Frame_Shift_Del	DEL	T	-	-																															ttttcatattcagacctaacTttttttgctttttcttctga																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:39734129delT	uc001rly.2	-	16	2294	c.2148delA	c.(2146-2148)AAAfs	p.K716fs	KIF21A_uc001rlw.2_Frame_Shift_Del_p.K33fs|KIF21A_uc001rlx.2_Frame_Shift_Del_p.K703fs|KIF21A_uc001rlz.2_Frame_Shift_Del_p.K703fs|KIF21A_uc010skl.1_Frame_Shift_Del_p.K703fs	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	716					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				CAGACCTAACTTTTTTTGCTT	0.343													9	17	---	---	---	---						.	-	39734129	-	-	39734129	7	5	19	1	0	1	0	1	0	0	0	0	8304	1606	56	0	2968	0	KIF21A	12	39734129	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	5554453	39734129	94117766	1916	15429											
LRRK2	120892	broad.mit.edu	37	chr12	40677751	40677751	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgtgaacaagatgtacgAaaagcgttgacgataagcat	15	9	10	7	4	1	3	0	2	1	1	2	5	1	3	0	0	4	3	0	0	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:40677751A>G	uc001rmg.3	+	19	2437	c.2316A>G	c.(2314-2316)CGA>CGG	p.R772R	LRRK2_uc001rmh.1_Silent_p.R394R	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	772					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				AAGATGTACGAAAAGCGTTGA	0.423													4	138					0	0	0.001168	0	0		G	40677751	G	G	40677751	2	3	19	1	0	0	0	0	0	0	0	1	9051	233	9	3		3	LRRK2	12	40677751	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	943622	40677751	93174144	1917	15430											
CNTN1	1272	broad.mit.edu	37	chr12	41414173	41414173	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaacagaagtaggtgtaaaAgtcttatcatcttctgagat	14	12	8	7	0	4	2	1	1	3	2	4	3	4	2	1	1	1	2	1	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:41414173A>C	uc001rmm.1	+	20	2567	c.2454A>C	c.(2452-2454)AAA>AAC	p.K818N	CNTN1_uc001rmn.1_Missense_Mutation_p.K807N	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	818	Fibronectin type-III 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				TAGGTGTAAAAGTCTTATCAT	0.303													8	60					0	0	0.006214	0	0		C	41414173	C	C	41414173	3	2	19	1	0	0	0	0	1	0	0	0	3643	69	3	5	2528	5	CNTN1	12	41414173	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	736422	41414173	92437722	1918	15431											
CNTN1	1272	broad.mit.edu	37	chr12	41414195	41414195	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttatcatcttctgagataTctgttcattgggaacatgtt	9	18	7	7	0	6	1	2	1	4	1	6	3	6	2	0	1	1	2	0	1	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:41414195T>A	uc001rmm.1	+	20	2589	c.2476T>A	c.(2476-2478)TCT>ACT	p.S826T	CNTN1_uc001rmn.1_Missense_Mutation_p.S815T	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	826	Fibronectin type-III 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				TTCTGAGATATCTGTTCATTG	0.289													5	59					0	0	0.001168	0	0		A	41414195	A	A	41414195	3	1	19	1	0	0	0	0	1	0	0	0	3643	1435	50	5	2550	5	CNTN1	12	41414195	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	22	41414195	92437700	1919	15432											
CNTN1	1272	broad.mit.edu	37	chr12	41419019	41419019	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaagtcaccagccaagagtActcggccaggctcgagaacc	12	5	10	14	2	2	2	2	0	0	2	4	3	2	2	4	2	3	2	4	2	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:41419019A>G	uc001rmm.1	+	21	2704	c.2591A>G	c.(2590-2592)TAC>TGC	p.Y864C	CNTN1_uc001rmn.1_Missense_Mutation_p.Y853C	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	864	Fibronectin type-III 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				AGCCAAGAGTACTCGGCCAGG	0.488													33	268					0	0	0.004878	0	0		G	41419019	G	G	41419019	3	3	19	1	0	0	0	0	1	0	0	0	3643	391	14	3	2669	3	CNTN1	12	41419019	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4824	41419019	92432876	1920	15433											
ZCRB1	85437	broad.mit.edu	37	chr12	42707747	42707747	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttggaggctcacgttctccGagcatatttttcggacaggc	7	13	11	10	3	2	0	1	0	1	0	4	3	2	2	1	4	1	3	1	4	1	5	rs74439664	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:42707747G>A	uc001rmz.2	-	6	584	c.375C>T	c.(373-375)CTC>CTT	p.L125L	PPHLN1_uc001rmy.2_Intron	NM_033114	NP_149105	Q8TBF4	ZCRB1_HUMAN	zinc finger CCHC-type and RNA binding motif 1	125					mRNA processing	nucleoplasm|U12-type spliceosomal complex	nucleotide binding|RNA binding|zinc ion binding			skin(1)	1	all_cancers(12;0.000348)|Breast(8;0.221)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0689)		CACGTTCTCCGAGCATATTTT	0.308													7	122					0	0	0.004482	0	0		A	42707747	A	A	42707747	2	1	19	1	0	0	0	0	0	0	0	1	17621	1045	37	1		1	ZCRB1	12	42707747	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1288728	42707747	91144148	1921	15434											
ZCRB1	85437	broad.mit.edu	37	chr12	42711240	42711240	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgcttgcttttatcactcTaccaaataactaaacaagag	16	12	4	9	0	2	1	1	0	1	1	2	1	2	1	1	0	5	2	1	0	8	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:42711240T>C	uc001rmz.2	-	5	444	c.235A>G	c.(235-237)AGA>GGA	p.R79G	PPHLN1_uc001rmy.2_Intron	NM_033114	NP_149105	Q8TBF4	ZCRB1_HUMAN	zinc finger CCHC-type and RNA binding motif 1	79	RRM.				mRNA processing	nucleoplasm|U12-type spliceosomal complex	nucleotide binding|RNA binding|zinc ion binding			skin(1)	1	all_cancers(12;0.000348)|Breast(8;0.221)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0689)		TTTATCACTCTACCAAATAAC	0.313													10	27					0	0	0.008291	0	0		C	42711240	C	C	42711240	3	2	19	1	0	0	0	0	1	0	0	0	17621	1530	53	3	434	3	ZCRB1	12	42711240	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3493	42711240	91140655	1922	15435											
IRAK4	51135	broad.mit.edu	37	chr12	44171500	44171500	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagatgacctctgcttagtaTatgtttacatgcctaatggt	10	15	9	7	0	1	2	0	1	1	1	1	3	1	2	2	1	3	3	2	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:44171500T>C	uc001rnu.3	+	8	914	c.784T>C	c.(784-786)TAT>CAT	p.Y262H	IRAK4_uc001rnt.3_Missense_Mutation_p.Y262H|IRAK4_uc001rnx.3_Missense_Mutation_p.Y138H|IRAK4_uc001rny.3_Missense_Mutation_p.Y138H|IRAK4_uc010sky.1_Missense_Mutation_p.Y138H|IRAK4_uc001rnv.3_Missense_Mutation_p.Y138H|IRAK4_uc001rnw.3_Missense_Mutation_p.Y138H	NM_001114182	NP_001107654	Q9NWZ3	IRAK4_HUMAN	interleukin-1 receptor-associated kinase 4	262	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0	all_cancers(12;0.00149)	Lung NSC(34;0.0804)|all_lung(34;0.181)		GBM - Glioblastoma multiforme(48;0.04)		CTGCTTAGTATATGTTTACAT	0.338													40	98					0	0	0.011902	0	0		C	44171500	C	C	44171500	3	2	19	1	0	0	0	0	1	0	0	0	7841	1406	49	3	806	3	IRAK4	12	44171500	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1460260	44171500	89680395	1923	15436											
ANO6	196527	broad.mit.edu	37	chr12	45797269	45797269	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgacaactcagctgacaatAatcatgggaggaaaagcaat	17	7	9	8	0	2	2	2	2	0	0	2	4	2	4	0	2	3	2	0	2	6	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:45797269A>G	uc001roo.2	+	15	2165	c.1830A>G	c.(1828-1830)ATA>ATG	p.I610M	ANO6_uc010sld.1_Missense_Mutation_p.I610M|ANO6_uc010sle.1_Missense_Mutation_p.I610M|ANO6_uc010slf.1_Missense_Mutation_p.I631M|ANO6_uc010slg.1_Missense_Mutation_p.I592M	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	610	Extracellular (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						AGCTGACAATAATCATGGGAG	0.368													40	88					0	0	0.01441	0	0		G	45797269	G	G	45797269	3	3	19	1	0	0	0	0	1	0	0	0	701	352	13	3	1908	3	ANO6	12	45797269	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1625769	45797269	88054626	1924	15437											
ANO6	196527	broad.mit.edu	37	chr12	45814903	45814903	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcccccgcctagtgtactActggtccttctccgtccctc	4	12	7	18	2	1	0	0	0	1	0	6	1	4	0	6	1	2	1	6	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:45814903A>G	uc001roo.2	+	18	2602	c.2267A>G	c.(2266-2268)TAC>TGC	p.Y756C	ANO6_uc010sld.1_Missense_Mutation_p.Y756C|ANO6_uc010sle.1_Missense_Mutation_p.Y756C|ANO6_uc010slf.1_Missense_Mutation_p.Y777C|ANO6_uc010slg.1_Missense_Mutation_p.Y738C	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	756	Extracellular (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						CTAGTGTACTACTGGTCCTTC	0.448													44	99					0	0	0.013114	0	0		G	45814903	G	G	45814903	3	3	19	1	0	0	0	0	1	0	0	0	701	391	14	3	2357	3	ANO6	12	45814903	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	17634	45814903	88036992	1925	15438											
SLC38A4	55089	broad.mit.edu	37	chr12	47163208	47163208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtgtgatcactgatgtacGaatcttaaacaagaaagttc	15	11	8	7	1	2	3	1	2	1	1	3	4	2	3	0	0	2	2	0	0	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:47163208G>A	uc001rpi.2	-	15	1702	c.1303C>T	c.(1303-1305)CGT>TGT	p.R435C	SLC38A4_uc001rpj.2_Missense_Mutation_p.R435C	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	435	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Lung SC(27;0.192)|Renal(347;0.236)					ACTGATGTACGAATCTTAAAC	0.348													33	102					0	0	0.013726	0	0		A	47163208	A	A	47163208	3	1	19	1	0	0	0	0	1	0	0	0	14631	1058	37	1	352	1	SLC38A4	12	47163208	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1348305	47163208	86688687	1926	15439											
FAM113B	91523	broad.mit.edu	37	chr12	47628998	47628998	+	Frame_Shift_Del	DEL	G	-	-																															tcccgggcagcttagagcaaGgggggagctgaacttcgaac																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:47628998delG	uc001rpn.2	+	4	883	c.152delG	c.(151-153)AGGfs	p.R51fs	FAM113B_uc010slj.1_Intron|FAM113B_uc001rpq.2_Frame_Shift_Del_p.R51fs	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	51							hydrolase activity	p.R51R(1)		skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					CTTAGAGCAAGGGGGGAGCTG	0.612													24	40	---	---	---	---						.	-	47628998	-	-	47628998	7	5	19	1	0	1	0	1	0	0	0	0	5413	1000	35	0	154	0	FAM113B	12	47628998	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	465790	47628998	86222897	1927	15440											
HDAC7	51564	broad.mit.edu	37	chr12	48183605	48183605	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacctcctacctttagctcAcgagaagccactttgaaggc	12	9	7	13	1	1	2	1	1	0	1	2	3	2	2	4	1	4	1	4	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:48183605A>G	uc010slo.1	-	17	2277	c.2082T>C	c.(2080-2082)CGT>CGC	p.R694R	HDAC7_uc009zku.2_RNA|HDAC7_uc001rqe.2_Silent_p.R128R|HDAC7_uc001rqj.3_Silent_p.R657R|HDAC7_uc001rqk.3_Silent_p.R677R|HDAC7_uc010slp.1_5'Flank	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	655	Histone deacetylase.				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		CCTTTAGCTCACGAGAAGCCA	0.572													8	197					0	0	0.008291	0	0		G	48183605	G	G	48183605	2	3	19	1	0	0	0	0	0	0	0	1	7028	146	6	3		3	HDAC7	12	48183605	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	554607	48183605	85668290	1928	15441											
VDR	7421	broad.mit.edu	37	chr12	48251368	48251368	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggcaatgatgcgctgctgCtcctcagacagcttgggccg	7	9	13	12	2	1	2	1	1	0	1	2	2	2	2	2	2	4	5	2	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:48251368C>T	uc001rqm.2	-	6	663	c.381G>A	c.(379-381)GAG>GAA	p.E127E	VDR_uc001rql.2_Silent_p.E177E|VDR_uc001rqn.2_Silent_p.E127E|VDR_uc010slq.1_Silent_p.E95E	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	127	Hinge.				decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	TGCGCTGCTGCTCCTCAGACA	0.582													4	89					0	0	0.000602	0	0		T	48251368	T	T	48251368	2	4	19	1	0	0	0	0	0	0	0	1	17175	796	28	2		2	VDR	12	48251368	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	67763	48251368	85600527	1929	15442											
MLL2	8085	broad.mit.edu	37	chr12	49425292	49425292	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtccattcacctggtccAgatgcccaggtaccaggctg	7	9	10	15	0	1	1	1	0	0	1	3	1	3	1	6	3	2	2	6	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:49425292A>G	uc001rta.3	-	39	13196	c.13196T>C	c.(13195-13197)CTG>CCG	p.L4399P		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4399					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CACCTGGTCCAGATGCCCAGG	0.582			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			5	18					0	0	0.001168	0	0		G	49425292	G	G	49425292	3	3	19	1	0	0	0	0	1	0	0	0	9639	188	7	3	3481	3	MLL2	12	49425292	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1173924	49425292	84426603	1930	15443											
MLL2	8085	broad.mit.edu	37	chr12	49435307	49435307	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttggtctgcttgttgatctgGctctcagcctgctacagggg	4	14	13	10	0	3	1	1	1	3	0	4	1	3	1	1	4	4	4	1	4	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:49435307G>A	uc001rta.3	-	31	6246	c.6246C>T	c.(6244-6246)AGC>AGT	p.S2082S		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2082					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TGTTGATCTGGCTCTCAGCCT	0.652			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			7	95					0	0	0.004482	0	0		A	49435307	A	A	49435307	2	1	19	1	0	0	0	0	0	0	0	1	9639	1194	42	2		2	MLL2	12	49435307	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	10015	49435307	84416588	1931	15444											
DHH	50846	broad.mit.edu	37	chr12	49484937	49484937	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaccgacacgtggacgtggTtgcgggactcgtagtagacc	8	8	15	10	5	0	2	0	1	0	1	1	5	0	4	2	3	1	3	2	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:49484937T>C	uc001rtf.2	-	2	846	c.539A>G	c.(538-540)AAC>AGC	p.N180S		NM_021044	NP_066382	O43323	DHH_HUMAN	desert hedgehog preproprotein	180					cell-cell signaling|proteolysis	extracellular space|plasma membrane	calcium ion binding|peptidase activity|zinc ion binding			lung(1)|breast(1)	2						GTGGACGTGGTTGCGGGACTC	0.592													9	235					0	0	0.013537	0	0		C	49484937	C	C	49484937	3	2	19	1	0	0	0	0	1	0	0	0	4489	1725	60	3	659	3	DHH	12	49484937	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	49630	49484937	84366958	1932	15445											
TUBA1B	10376	broad.mit.edu	37	chr12	49523423	49523423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctggccatcgggctggatgCcgtgttccaggcagtagagc	6	9	15	11	2	1	1	0	0	1	1	3	2	2	2	3	4	2	4	3	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:49523423C>T	uc001rtm.2	-	2	307	c.86G>A	c.(85-87)GGC>GAC	p.G29D	TUBA1B_uc001rto.2_Intron|TUBA1B_uc001rtk.2_5'UTR|TUBA1B_uc001rtl.2_5'UTR|TUBA1B_uc001rtn.2_5'UTR	NM_006082	NP_006073	P68363	TBA1B_HUMAN	tubulin, alpha, ubiquitous	29					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding				0						GGGCTGGATGCCGTGTTCCAG	0.582													4	126					0	0	0.009096	0	0		T	49523423	T	T	49523423	3	4	19	1	0	0	0	0	1	0	0	0	16770	739	26	2	1281	2	TUBA1B	12	49523423	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	38486	49523423	84328472	1933	15446											
TROAP	10024	broad.mit.edu	37	chr12	49719633	49719633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagggaccaggacctcgagGccggacattgtgcccccaga	9	4	15	13	2	0	1	0	0	0	1	1	6	0	5	5	5	1	0	5	5	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:49719633G>A	uc001rtx.3	+	5	766	c.599G>A	c.(598-600)GGC>GAC	p.G200D	TROAP_uc009zlh.2_Missense_Mutation_p.G200D|TROAP_uc001rty.2_5'Flank	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	200					cell adhesion	cytoplasm				ovary(1)	1						GGACCTCGAGGCCGGACATTG	0.637													19	32					0	0	0.012319	0	0		A	49719633	A	A	49719633	3	1	19	1	0	0	0	0	1	0	0	0	16601	1203	42	2	715	2	TROAP	12	49719633	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	196210	49719633	84132262	1934	15447											
KCNH3	23416	broad.mit.edu	37	chr12	49934785	49934785	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcttctcccgggctgaggtCatgcagcggggctgtgcctg	3	9	17	12	2	2	1	1	1	1	0	3	1	2	1	2	5	3	4	2	5	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:49934785C>T	uc001ruh.1	+	2	440	c.180C>T	c.(178-180)GTC>GTT	p.V60V	KCNH3_uc010smj.1_5'UTR	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	60	Cytoplasmic (Potential).|PAS.				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						GGGCTGAGGTCATGCAGCGGG	0.627													25	57					0	0	0.005443	0	0		T	49934785	T	T	49934785	2	4	19	1	0	0	0	0	0	0	0	1	8049	813	29	4		4	KCNH3	12	49934785	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	215152	49934785	83917110	1935	15448											
AQP2	359	broad.mit.edu	37	chr12	50348487	50348487	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcactggcaaatttgatgaCcactgggtaatggctgaaac	12	10	11	8	0	1	3	1	3	0	0	1	3	1	3	1	3	1	3	1	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:50348487C>T	uc001rvn.2	+	3	690	c.600C>T	c.(598-600)GAC>GAT	p.D200D	AQP2_uc009zll.1_5'Flank	NM_000486	NP_000477	P41181	AQP2_HUMAN	aquaporin 2	200	Extracellular (Potential).				cellular response to copper ion|cellular response to mercury ion|excretion	apical plasma membrane|integral to membrane|transport vesicle membrane	glycerol transmembrane transporter activity|water channel activity			ovary(2)	2						AATTTGATGACCACTGGGTAA	0.552													26	106					0	0	0.007291	0	0		T	50348487	T	T	50348487	2	4	19	1	0	0	0	0	0	0	0	1	826	506	18	4		4	AQP2	12	50348487	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	413702	50348487	83503408	1936	15449											
RACGAP1	29127	broad.mit.edu	37	chr12	50387958	50387958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaggcgaaaggtcagaagaGgttctttgaggtttcgaaga	13	10	14	4	2	2	4	1	1	1	3	3	6	2	4	0	4	0	2	0	4	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:50387958G>A	uc001rvt.2	-	14	1605	c.1295C>T	c.(1294-1296)CCT>CTT	p.P432L	RACGAP1_uc009zlm.1_Missense_Mutation_p.P432L|RACGAP1_uc001rvs.2_Missense_Mutation_p.P432L|RACGAP1_uc001rvu.2_Missense_Mutation_p.P432L	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1	432	Rho-GAP.				blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						GGTCAGAAGAGGTTCTTTGAG	0.348													21	202					0	0	0.014323	0	0		A	50387958	A	A	50387958	3	1	19	1	0	0	0	0	1	0	0	0	13002	1000	35	4	627	4	RACGAP1	12	50387958	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	39471	50387958	83463937	1937	15450											
LARP4	113251	broad.mit.edu	37	chr12	50869432	50869432	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccaccaaaaatgaagacAatggagctcctgagaactcc	15	6	7	13	0	0	3	0	2	0	2	3	5	3	4	4	1	2	1	4	1	5	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:50869432A>T	uc001rwp.1	+	16	2104	c.1960A>T	c.(1960-1962)AAT>TAT	p.N654Y	LARP4_uc001rwo.1_Missense_Mutation_p.N660Y|LARP4_uc001rwq.1_Missense_Mutation_p.N583Y|LARP4_uc001rwr.1_Missense_Mutation_p.N583Y|LARP4_uc001rws.1_Missense_Mutation_p.N653Y|LARP4_uc009zlr.1_Missense_Mutation_p.N453Y|LARP4_uc001rwt.1_Missense_Mutation_p.N245Y	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a	654							nucleotide binding|RNA binding			ovary(1)	1						AAATGAAGACAATGGAGCTCC	0.502													11	230					0	0	0.010729	0	0		T	50869432	T	T	50869432	3	4	19	1	0	0	0	0	1	0	0	0	8646	130	5	5	2026	5	LARP4	12	50869432	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	481474	50869432	82982463	1938	15451											
TMPRSS12	283471	broad.mit.edu	37	chr12	51279163	51279163	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaagatggagcttttgatActtgcagggtaagaccaagt	13	11	12	5	0	0	4	0	2	0	2	0	5	0	5	1	2	3	3	1	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:51279163A>G	uc001rwx.3	+	4	834	c.787A>G	c.(787-789)ACT>GCT	p.T263A	TMPRSS12_uc001rwy.2_Missense_Mutation_p.T263A	NM_182559	NP_872365	Q86WS5	TMPSC_HUMAN	transmembrane protease, serine 12 precursor	263	Peptidase S1.|Extracellular (Potential).				proteolysis	integral to membrane	serine-type endopeptidase activity				0						AGCTTTTGATACTTGCAGGGT	0.373													6	307					0	0	0.00308	0	0		G	51279163	G	G	51279163	3	3	19	1	0	0	0	0	1	0	0	0	16269	391	14	3	801	3	TMPRSS12	12	51279163	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	409731	51279163	82572732	1939	15452											
TFCP2	7024	broad.mit.edu	37	chr12	51497499	51497499	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtagaaaaacgatttcgAtgcaaccactgctgagcttc	14	10	8	9	2	0	2	0	1	0	1	2	4	0	2	1	0	5	4	1	0	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:51497499A>G	uc001rxw.2	-	10	1473	c.1014T>C	c.(1012-1014)CAT>CAC	p.H338H	TFCP2_uc001rxv.1_Silent_p.H338H|TFCP2_uc009zlx.1_Silent_p.H287H|TFCP2_uc001rxx.2_Intron|TFCP2_uc009zly.1_Silent_p.H240H	NM_005653	NP_005644	Q12800	TFCP2_HUMAN	transcription factor CP2	338	DNA-binding.				regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AACGATTTCGATGCAACCACT	0.383													6	168					0	0	0.001984	0	0		G	51497499	G	G	51497499	2	3	19	1	0	0	0	0	0	0	0	1	15820	330	12	3		3	TFCP2	12	51497499	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	218336	51497499	82354396	1940	15453											
ACVRL1	94	broad.mit.edu	37	chr12	52309152	52309152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaggctagctgtgtccGcggcatgcggcctggcgcac	4	8	15	14	4	1	1	0	1	1	0	2	1	2	1	2	4	2	4	2	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:52309152G>A	uc001rzj.2	+	7	1199	c.916G>A	c.(916-918)GCG>ACG	p.A306T	ACVRL1_uc001rzk.2_Missense_Mutation_p.A306T|ACVRL1_uc010snm.1_Missense_Mutation_p.A132T	NM_000020	NP_000011	P37023	ACVL1_HUMAN	activin A receptor type II-like 1 precursor	306	Cytoplasmic (Potential).|Protein kinase.		A -> P (in HHT2).		blood vessel endothelial cell proliferation involved in sprouting angiogenesis|blood vessel maturation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of endothelial cell migration|negative regulation of focal adhesion assembly|positive regulation of BMP signaling pathway|positive regulation of transcription, DNA-dependent|regulation of blood pressure|regulation of blood vessel endothelial cell migration|regulation of DNA replication|regulation of endothelial cell proliferation|transforming growth factor beta receptor signaling pathway|wound healing, spreading of epidermal cells	cell surface|integral to plasma membrane	activin binding|activin receptor activity, type I|ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0991)	Adenosine triphosphate(DB00171)	AGCTGTGTCCGCGGCATGCGG	0.617									Hereditary_Hemorrhagic_Telangiectasia				13	28					0	0	0.004007	0	0		A	52309152	A	A	52309152	3	1	19	1	0	0	0	0	1	0	0	0	225	1087	38	1	938	1	ACVRL1	12	52309152	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	811653	52309152	81542743	1941	15454											
ACVRL1	94	broad.mit.edu	37	chr12	52312813	52312813	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctatgatgtggtgcccAatgaccccagctttgaggac	8	11	10	12	0	1	3	0	3	1	0	1	4	1	4	4	2	2	1	4	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:52312813A>G	uc001rzj.2	+	9	1574	c.1291A>G	c.(1291-1293)AAT>GAT	p.N431D	ACVRL1_uc001rzk.2_Missense_Mutation_p.N431D|ACVRL1_uc010snm.1_Missense_Mutation_p.N257D	NM_000020	NP_000011	P37023	ACVL1_HUMAN	activin A receptor type II-like 1 precursor	431	Cytoplasmic (Potential).|Protein kinase.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|blood vessel maturation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of endothelial cell migration|negative regulation of focal adhesion assembly|positive regulation of BMP signaling pathway|positive regulation of transcription, DNA-dependent|regulation of blood pressure|regulation of blood vessel endothelial cell migration|regulation of DNA replication|regulation of endothelial cell proliferation|transforming growth factor beta receptor signaling pathway|wound healing, spreading of epidermal cells	cell surface|integral to plasma membrane	activin binding|activin receptor activity, type I|ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity	p.N431fs*8(1)		lung(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0991)	Adenosine triphosphate(DB00171)	TGTGGTGCCCAATGACCCCAG	0.557									Hereditary_Hemorrhagic_Telangiectasia				35	101					0	0	0.00874	0	0		G	52312813	G	G	52312813	3	3	19	1	0	0	0	0	1	0	0	0	225	130	5	3	1321	3	ACVRL1	12	52312813	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3661	52312813	81539082	1942	15455											
KRT6A	3853	broad.mit.edu	37	chr12	52885376	52885376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcggccccgttccccgaCaatgctgtccagctgcctcc	5	7	10	19	3	0	0	0	0	0	0	3	1	3	0	7	2	3	3	7	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:52885376C>T	uc001sam.2	-	2	894	c.685G>A	c.(685-687)GTC>ATC	p.V229I		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	229	Coil 1B.|Rod.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		CGTTCCCCGACAATGCTGTCC	0.567													7	205					0	0	0.006214	0	0		T	52885376	T	T	52885376	3	4	19	1	0	0	0	0	1	0	0	0	8496	478	17	4	1041	4	KRT6A	12	52885376	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	572563	52885376	80966519	1943	15456											
KRT2	3849	broad.mit.edu	37	chr12	53044122	53044124	+	Splice_Site	DEL	CTT	-	-																															gcgtttcactctgccacctaCttcttcttataatcctccac																								rs140362470		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:53044122_53044124delCTT	uc001sat.2	-	2	833	c.800_splice	c.e2+1	p.K267_splice		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2						keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		CTGCCACCTACTTCTTCTTATAA	0.458													105	236	---	---	---	---						.	-	53044124	-	-	53044122	8	5	19	1	0	1	0	1	0	0	1	0	8473	579	20	0	1150	0	KRT2	12	53044122	Splice_Site	DEL	CTT	TCGA-BR-4361-01A-01D-1158-08	158746	53044122	80807773	1944	15457											
MFSD5	84975	broad.mit.edu	37	chr12	53647543	53647543	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccacctccaagaggtaccaCcttcagcccatgcacctgct	9	7	7	18	0	1	1	1	0	0	1	2	1	2	1	7	1	4	3	7	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:53647543C>T	uc001sci.1	+	2	1115	c.924C>T	c.(922-924)CAC>CAT	p.H308H	MFSD5_uc001sch.1_Silent_p.H415H	NM_032889	NP_116278	Q6N075	MFSD5_HUMAN	major facilitator superfamily domain containing	308					transport	integral to membrane				skin(2)|ovary(1)	3						AGAGGTACCACCTTCAGCCCA	0.587													44	101					0	0	0.01441	0	0		T	53647543	T	T	53647543	2	4	19	1	0	0	0	0	0	0	0	1	9552	506	18	4		4	MFSD5	12	53647543	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	603421	53647543	80204352	1945	15458											
AAAS	8086	broad.mit.edu	37	chr12	53701632	53701632	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctggcgcactcaccacActgagcagggcccctttgtt	7	8	10	16	1	1	1	1	1	0	0	1	1	1	1	4	2	2	3	4	2	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:53701632A>G	uc001scr.3	-	15	1576	c.1413T>C	c.(1411-1413)AGT>AGC	p.S471S	AAAS_uc001scs.3_Silent_p.S438S	NM_015665	NP_056480	Q9NRG9	AAAS_HUMAN	achalasia, adrenocortical insufficiency,	471					carbohydrate metabolic process|glucose transport|nucleocytoplasmic transport|regulation of glucose transport|regulation of nucleocytoplasmic transport|transmembrane transport|viral reproduction	nuclear pore				ovary(1)	1						CACTCACCACACTGAGCAGGG	0.597													5	120					0	0	0.000602	0	0		G	53701632	G	G	53701632	2	3	19	1	0	0	0	0	0	0	0	1	8	156	6	3		3	AAAS	12	53701632	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	54089	53701632	80150263	1946	15459											
SP1	6667	broad.mit.edu	37	chr12	53776296	53776296	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgatgggcaacagctgcagTttgctgccactggggcccaa	8	9	13	11	0	0	1	0	1	0	0	0	1	0	1	2	3	5	5	2	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:53776296T>C	uc001scw.2	+	3	662	c.565T>C	c.(565-567)TTT>CTT	p.F189L	SP1_uc010sog.1_Missense_Mutation_p.F182L	NM_138473	NP_612482	P08047	SP1_HUMAN	Sp1 transcription factor isoform a	189	Transactivation domain A (Gln-rich).				positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)		ACAGCTGCAGTTTGCTGCCAC	0.488													17	128					0	0	0.012319	0	0		C	53776296	C	C	53776296	3	2	19	1	0	0	0	0	1	0	0	0	14984	1725	60	3	575	3	SP1	12	53776296	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	74664	53776296	80075599	1947	15460											
CALCOCO1	57658	broad.mit.edu	37	chr12	54115379	54115379	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccctctcttctgtgatctcCccatgggaccgggaaatccc	6	11	8	16	1	3	1	0	1	3	0	7	3	5	3	5	2	0	0	5	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:54115379C>T	uc001sef.2	-	6	774	c.630G>A	c.(628-630)GGG>GGA	p.G210G	CALCOCO1_uc010som.1_Silent_p.G177G|CALCOCO1_uc010son.1_Silent_p.G87G|CALCOCO1_uc001seh.2_Silent_p.G210G|CALCOCO1_uc009znd.2_Silent_p.G210G|CALCOCO1_uc001seg.2_Silent_p.G87G|CALCOCO1_uc010soo.1_Silent_p.G203G	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	210					steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						CTGTGATCTCCCCATGGGACC	0.527													206	418					0	0	0.01441	0	0		T	54115379	T	T	54115379	2	4	19	1	0	0	0	0	0	0	0	1	2580	610	22	4		4	CALCOCO1	12	54115379	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	339083	54115379	79736516	1948	15461											
ITGA7	3679	broad.mit.edu	37	chr12	56086971	56086971	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaaagccctttctgcccaGgcccctgcccgccctccagc	6	6	8	21	1	1	0	0	0	1	0	2	0	2	0	7	1	5	1	7	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:56086971G>T	uc001shh.2	-	20	2898	c.2678C>A	c.(2677-2679)CCT>CAT	p.P893H	ITGA7_uc001shg.2_Missense_Mutation_p.P889H|ITGA7_uc010sps.1_Missense_Mutation_p.P796H|ITGA7_uc009znw.2_Missense_Mutation_p.P136H|ITGA7_uc009znx.2_Missense_Mutation_p.P770H	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	933	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						TTTCTGCCCAGGCCCCTGCCC	0.592													45	82					1.06522e-23	1.13607e-23	0.013114	1	0		T	56086971	T	T	56086971	3	4	19	1	0	0	0	0	1	0	0	0	7897	1000	35	5	771	5	ITGA7	12	56086971	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1971592	56086971	77764924	1949	15462											
DNAJC14	85406	broad.mit.edu	37	chr12	56221646	56221646	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagatggccacaagtttctAcgtactctcccaccaatacc	11	10	6	14	1	2	1	0	1	2	1	3	2	2	1	4	1	3	2	4	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:56221646A>G	uc001shx.1	-	2	1001	c.797T>C	c.(796-798)GTA>GCA	p.V266A	DNAJC14_uc001shu.1_Missense_Mutation_p.V266A|DNAJC14_uc009zob.1_Missense_Mutation_p.V266A|DNAJC14_uc001shy.1_Missense_Mutation_p.V266A	NM_032364	NP_115740	Q6Y2X3	DJC14_HUMAN	dopamine receptor interacting protein	266	Helical; (Potential).				protein folding|protein transport	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|unfolded protein binding			ovary(3)|large_intestine(1)	4						ACAAGTTTCTACGTACTCTCC	0.522													14	45					0	0	0.004007	0	0		G	56221646	G	G	56221646	3	3	19	1	0	0	0	0	1	0	0	0	4639	391	14	3	1335	3	DNAJC14	12	56221646	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	134675	56221646	77630249	1950	15463											
ERBB3	2065	broad.mit.edu	37	chr12	56487146	56487146	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccggggcttctcattgtTgatcatgaagaacttgaatg	10	12	11	8	1	2	4	2	3	1	1	3	4	2	4	1	2	2	2	1	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:56487146T>C	uc001sjh.2	+	12	1485	c.1292T>C	c.(1291-1293)TTG>TCG	p.L431S	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.L372S|ERBB3_uc009zok.2_5'Flank|ERBB3_uc001sjk.2_5'Flank|ERBB3_uc001sjj.1_5'UTR	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	431	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			TTCTCATTGTTGATCATGAAG	0.428													7	130					0	0	0.004482	0	0		C	56487146	C	C	56487146	3	2	19	1	0	0	0	0	1	0	0	0	5216	1821	63	3	1469	3	ERBB3	12	56487146	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	265500	56487146	77364749	1951	15464											
ZC3H10	84872	broad.mit.edu	37	chr12	56515288	56515288	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcattgcccagactcacacTactctcagcagccaggctct	9	8	8	16	0	3	1	2	0	2	1	4	1	3	1	2	2	4	3	2	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:56515288T>C	uc001sjp.1	+	3	1131	c.942T>C	c.(940-942)ACT>ACC	p.T314T		NM_032786	NP_116175	Q96K80	ZC3HA_HUMAN	zinc finger CCCH-type containing 10	314							nucleic acid binding|zinc ion binding				0			OV - Ovarian serous cystadenocarcinoma(18;0.12)			AGACTCACACTACTCTCAGCA	0.592													3	47					0	0	0.009096	0	0		C	56515288	C	C	56515288	2	2	19	1	0	0	0	0	0	0	0	1	17584	1509	53	3		3	ZC3H10	12	56515288	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	28142	56515288	77336607	1952	15465											
APOF	319	broad.mit.edu	37	chr12	56755285	56755285	+	Frame_Shift_Del	DEL	C	-	-																															ctgatcgctagacccataggCccccctgacatcccagccat																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:56755285delC	uc001sle.1	-	2	759	c.705delG	c.(703-705)GGGfs	p.G235fs		NM_001638	NP_001629	Q13790	APOF_HUMAN	apolipoprotein F precursor	235					cholesterol metabolic process	high-density lipoprotein particle|low-density lipoprotein particle	cholesterol binding|lipid transporter activity|receptor binding				0						GACCCATAGGCCCCCCTGACA	0.522													28	55	---	---	---	---						.	-	56755285	-	-	56755285	7	5	19	1	0	1	0	1	0	0	0	0	803	726	26	0	279	0	APOF	12	56755285	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	239997	56755285	77096610	1953	15466											
TIMELESS	8914	broad.mit.edu	37	chr12	56817439	56817439	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaactcctcctcttcctcCtcctcctcctcttcttcttc	2	17	1	21	0	4	0	0	0	4	0	12	0	11	0	7	0	2	1	7	0	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:56817439C>T	uc001slf.2	-	17	2187	c.2019G>A	c.(2017-2019)GAG>GAA	p.E673E		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	673	Glu-rich.				cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						cctcttcctcctcctcctcct	0.423													4	45					0	0	0.001984	0	0		T	56817439	T	T	56817439	2	4	19	1	0	0	0	0	0	0	0	1	15929	680	24	4		4	TIMELESS	12	56817439	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	62154	56817439	77034456	1954	15467											
SDR9C7	121214	broad.mit.edu	37	chr12	57317808	57317808	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactctgggctctgccacctGcattatgttttttaacttgt	6	17	8	10	0	2	0	0	0	2	0	2	1	2	0	2	1	3	3	2	1	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:57317808G>A	uc010sqw.1	-	4	751	c.751C>T	c.(751-753)CAG>TAG	p.Q251*		NM_148897	NP_683695	Q8NEX9	DR9C7_HUMAN	short chain dehydrogenase/reductase family 9C,	251						cytoplasm	binding|oxidoreductase activity			central_nervous_system(1)	1						TCTGCCACCTGCATTATGTTT	0.478													5	95					0	0	0.001168	0	0		A	57317808	A	A	57317808	4	1	19	1	0	0	0	0	0	1	0	0	13999	1328	46	2	194	2	SDR9C7	12	57317808	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	500369	57317808	76534087	1955	15468											
MYO1A	4640	broad.mit.edu	37	chr12	57423603	57423603	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgcctttcagcttctgcAgcttggggttcccttgcagc	3	12	10	16	1	2	0	1	0	1	0	3	0	3	0	4	2	5	5	4	2	0	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:57423603A>G	uc001smw.3	-	25	2888	c.2645T>C	c.(2644-2646)CTG>CCG	p.L882P	MYO1A_uc010sqz.1_Missense_Mutation_p.L720P|MYO1A_uc009zpd.2_Missense_Mutation_p.L882P	NM_005379	NP_005370	Q9UBC5	MYO1A_HUMAN	myosin IA	882					sensory perception of sound|vesicle localization	brush border|cortical actin cytoskeleton|filamentous actin|lateral plasma membrane|microvillus|myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|urinary_tract(1)	7						CAGCTTCTGCAGCTTGGGGTT	0.592													33	75					0	0	0.005524	0	0		G	57423603	G	G	57423603	3	3	19	1	0	0	0	0	1	0	0	0	10086	188	7	3	502	3	MYO1A	12	57423603	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	105795	57423603	76428292	1956	15469											
LRP1	4035	broad.mit.edu	37	chr12	57571369	57571369	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcgcatcctttggattgaCgccaggtcagcaccctctgt	8	10	10	13	2	2	1	1	1	1	0	3	2	3	2	3	2	2	2	3	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:57571369C>T	uc001snd.2	+	26	4822	c.4356C>T	c.(4354-4356)GAC>GAT	p.D1452D		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1452	Extracellular (Potential).|LDL-receptor class B 11.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity	p.D1452D(1)		ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TTTGGATTGACGCCAGGTCAG	0.657													17	23					0	0	0.004007	0	0		T	57571369	T	T	57571369	2	4	19	1	0	0	0	0	0	0	0	1	8969	535	19	1		1	LRP1	12	57571369	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	147766	57571369	76280526	1957	15470											
LRP1	4035	broad.mit.edu	37	chr12	57573602	57573602	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggctggctgtggactgggtCtcccgaaacctgttctggac	5	10	15	11	1	2	0	0	0	2	0	3	3	2	2	2	5	1	3	2	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:57573602C>T	uc001snd.2	+	30	5470	c.5004C>T	c.(5002-5004)GTC>GTT	p.V1668V		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1668	LDL-receptor class B 13.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TGGACTGGGTCTCCCGAAACC	0.592													14	260					0	0	0.001855	0	0		T	57573602	T	T	57573602	2	4	19	1	0	0	0	0	0	0	0	1	8969	900	32	4		4	LRP1	12	57573602	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2233	57573602	76278293	1958	15471											
LRP1	4035	broad.mit.edu	37	chr12	57592013	57592013	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggcaacctgtactggtgCgacaaaggccgggacaccat	10	6	14	11	2	0	0	0	0	0	0	0	2	0	1	3	5	3	2	3	5	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:57592013C>T	uc001snd.2	+	59	9823	c.9357C>T	c.(9355-9357)TGC>TGT	p.C3119C		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3119	LDL-receptor class B 27.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TGTACTGGTGCGACAAAGGCC	0.652													12	26					0	0	0.010729	0	0		T	57592013	T	T	57592013	2	4	19	1	0	0	0	0	0	0	0	1	8969	776	27	1		1	LRP1	12	57592013	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	18411	57592013	76259882	1959	15472											
LRP1	4035	broad.mit.edu	37	chr12	57592261	57592261	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccaggtacctgtactggAcagactggggtgaccattca	9	9	12	11	1	1	2	1	1	0	1	2	3	1	3	3	4	2	2	3	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:57592261A>G	uc001snd.2	+	60	9950	c.9484A>G	c.(9484-9486)ACA>GCA	p.T3162A		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3162	LDL-receptor class B 28.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CCTGTACTGGACAGACTGGGG	0.617													6	33					0	0	0.001168	0	0		G	57592261	G	G	57592261	3	3	19	1	0	0	0	0	1	0	0	0	8969	275	10	3	9722	3	LRP1	12	57592261	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	248	57592261	76259634	1960	15473											
MBD6	114785	broad.mit.edu	37	chr12	57919175	57919175	+	Frame_Shift_Del	DEL	C	-	-																															tccacactgtgtccccagggCccccctctgcccgccctccc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:57919175delC	uc001soj.1	+	6	648	c.424delC	c.(424-426)CCCfs	p.P142fs	MBD6_uc001sok.1_Frame_Shift_Del_p.P9fs|MBD6_uc001sol.1_5'Flank	NM_052897	NP_443129	Q96DN6	MBD6_HUMAN	methyl-CpG binding domain protein 6	142	Pro-rich.					chromosome|nucleus	chromatin binding|DNA binding			central_nervous_system(3)|ovary(1)	4						GTCCCCAGGGCCCCCCTCTGC	0.577													33	74	---	---	---	---						.	-	57919175	-	-	57919175	7	5	19	1	0	1	0	1	0	0	0	0	9366	739	26	0	438	0	MBD6	12	57919175	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	326914	57919175	75932720	1961	15474											
KIF5A	3798	broad.mit.edu	37	chr12	57957311	57957311	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccatgcagattgtcaaaggTaatagatttctttttagaat	13	15	8	5	0	2	3	1	0	1	3	2	3	2	3	1	1	1	2	1	1	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:57957311T>C	uc001sor.1	+	2	425	c.217_splice	c.e2+2	p.D73_splice	KIF5A_uc010srr.1_Intron	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A						blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						TTGTCAAAGGTAATAGATTTC	0.438													14	88					0	0	0.003163	0	0		C	57957311	C	C	57957311	5	2	19	1	0	0	0	0	0	0	1	0	8321	1652	57	3	225	3	KIF5A	12	57957311	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	38136	57957311	75894584	1962	15475											
PPM1H	57460	broad.mit.edu	37	chr12	63195910	63195910	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtgcccgtcaaacagcgAccaatagtggcaggaaacac	13	4	11	13	4	1	0	1	0	0	0	1	2	1	1	2	2	4	1	2	2	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:63195910A>G	uc001srk.3	-	3	591	c.442T>C	c.(442-444)TCG>CCG	p.S148P		NM_020700	NP_065751	Q9ULR3	PPM1H_HUMAN	protein phosphatase 1H (PP2C domain containing)	148	PP2C-like.						phosphoprotein phosphatase activity			lung(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;0.000443)|BRCA - Breast invasive adenocarcinoma(9;0.209)	GBM - Glioblastoma multiforme(28;0.0126)		TCAAACAGCGACCAATAGTGG	0.622													10	35					0	0	0.010729	0	0		G	63195910	G	G	63195910	3	3	19	1	0	0	0	0	1	0	0	0	12363	275	10	3	1134	3	PPM1H	12	63195910	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5238599	63195910	70655985	1963	15476											
SRGAP1	57522	broad.mit.edu	37	chr12	64505760	64505760	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatgtatggctggagatgActattggtaagtctaagaat	14	12	12	3	0	1	3	0	1	1	2	1	5	1	3	0	3	0	3	0	3	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:64505760A>G	uc010ssp.1	+	17	2194	c.2138A>G	c.(2137-2139)GAC>GGC	p.D713G	SRGAP1_uc001srv.2_Missense_Mutation_p.D650G	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	713					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		GCTGGAGATGACTATTGGTAA	0.378													28	51					0	0	0.005443	0	0		G	64505760	G	G	64505760	3	3	19	1	0	0	0	0	1	0	0	0	15170	275	10	3	2204	3	SRGAP1	12	64505760	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1309850	64505760	69346135	1964	15477											
IRAK3	11213	broad.mit.edu	37	chr12	66641827	66641827	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccatcccaggacttaaggcCctataaggtaaatatagatc	14	10	7	10	0	0	1	0	0	0	1	3	2	2	2	3	3	0	1	3	3	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:66641827C>A	uc001sth.2	+	12	1769	c.1667C>A	c.(1666-1668)CCC>CAC	p.P556H	IRAK3_uc010ssy.1_Missense_Mutation_p.P495H	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	556					interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		GACTTAAGGCCCTATAAGGTA	0.463													57	166					3.76997e-23	4.016e-23	0.01441	1	0		A	66641827	A	A	66641827	3	1	19	1	0	0	0	0	1	0	0	0	7840	623	22	5	1713	5	IRAK3	12	66641827	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2136067	66641827	67210068	1965	15478											
HELB	92797	broad.mit.edu	37	chr12	66703603	66703603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgcattaataatgtatTccagactgaagcagatatgt	16	12	8	5	0	0	4	0	1	0	3	1	4	1	4	1	0	2	3	1	0	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:66703603T>C	uc001sti.2	+	4	923	c.895T>C	c.(895-897)TCC>CCC	p.S299P	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	299					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		AATAATGTATTCCAGACTGAA	0.393													21	206					0	0	0.012319	0	0		C	66703603	C	C	66703603	3	2	19	1	0	0	0	0	1	0	0	0	7061	1783	62	3	909	3	HELB	12	66703603	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	61776	66703603	67148292	1966	15479											
HELB	92797	broad.mit.edu	37	chr12	66731962	66731962	+	RNA	DEL	A	-	-																															taacgtcaaagtaccaagatAaaaaaagtttcctataactg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:66731962delA	uc010ssz.1	+	13		c.3448delA			HELB_uc009zqt.1_RNA			Q8NG08	HELB_HUMAN	Homo sapiens helicase B mRNA, complete cds.						DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		GTACCAAGATAAAAAAAGTTT	0.294													5	8	---	---	---	---						.	-	66731962	-	-	66731962	6	5	19	0	1	1	0	1	0	0	0	0	7061	377	13	0		0	HELB	12	66731962	RNA	DEL	A	TCGA-BR-4361-01A-01D-1158-08	28359	66731962	67119933	1967	15480											
IFNG	3458	broad.mit.edu	37	chr12	68552014	68552014	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagaaaagagttccattaTccgctacatctgaatgacct	14	11	6	10	1	1	4	0	2	1	2	3	4	3	4	3	0	1	2	3	0	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:68552014T>A	uc001stw.1	-	2	266	c.140A>T	c.(139-141)GAT>GTT	p.D47V		NM_000619	NP_000610	P01579	IFNG_HUMAN	interferon, gamma precursor	47					cell cycle arrest|interferon-gamma-mediated signaling pathway|negative regulation of interleukin-17 production|negative regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of metanephric nephron tubule epithelial cell differentiation|negative regulation of smooth muscle cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of fructose 1,6-bisphosphate 1-phosphatase activity|positive regulation of fructose 1,6-bisphosphate metabolic process|positive regulation of interleukin-12 production|positive regulation of interleukin-23 production|positive regulation of killing of cells of other organism|positive regulation of membrane protein ectodomain proteolysis|positive regulation of mesenchymal cell proliferation|positive regulation of nitric oxide biosynthetic process|positive regulation of osteoclast differentiation|positive regulation of peptidyl-serine phosphorylation of STAT protein|positive regulation of smooth muscle cell apoptosis|positive regulation of tumor necrosis factor (ligand) superfamily member 11 production|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of vitamin D biosynthetic process|protein import into nucleus, translocation|regulation of insulin secretion|regulation of interferon-gamma-mediated signaling pathway|response to virus	extracellular space	cytokine activity|interferon-gamma receptor binding				0			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000829)	Glucosamine(DB01296)|Interferon gamma-1b(DB00033)|Simvastatin(DB00641)	AGTTCCATTATCCGCTACATC	0.308													7	18					0	0	0.004482	0	0		A	68552014	A	A	68552014	3	1	19	1	0	0	0	0	1	0	0	0	7564	1435	50	5	372	5	IFNG	12	68552014	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1820052	68552014	65299881	1968	15481											
NUP107	57122	broad.mit.edu	37	chr12	69135681	69135681	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgttttctgcttcatacgaTattgcacagtactggtcagt	8	16	9	8	1	3	0	2	0	1	0	3	1	3	0	0	1	4	4	0	1	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:69135681T>C	uc001suf.2	+	27	2706	c.2591T>C	c.(2590-2592)ATA>ACA	p.I864T	NUP107_uc001sug.2_Missense_Mutation_p.I623T|NUP107_uc010stj.1_Missense_Mutation_p.I835T	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	864					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			CTTCATACGATATTGCACAGT	0.428													44	90					0	0	0.01441	0	0		C	69135681	C	C	69135681	3	2	19	1	0	0	0	0	1	0	0	0	10772	1406	49	3	2697	3	NUP107	12	69135681	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	583667	69135681	64716214	1969	15482											
CPM	1368	broad.mit.edu	37	chr12	69250279	69250279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaactaggctttgttgcagCtgagtggtctggcaaatttc	9	13	11	8	0	1	1	0	1	1	0	2	1	1	1	0	3	3	5	0	3	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:69250279C>T	uc001sup.2	-	9	1331	c.1270G>A	c.(1270-1272)GCT>ACT	p.A424T	CPM_uc001sur.2_Missense_Mutation_p.A424T|CPM_uc001suq.2_Missense_Mutation_p.A424T	NM_198320	NP_938079	P14384	CBPM_HUMAN	carboxypeptidase M precursor	424					anatomical structure morphogenesis|proteolysis	anchored to membrane|cytoplasm|nucleus|plasma membrane	metallocarboxypeptidase activity|zinc ion binding				0	all_epithelial(5;1.09e-35)|Lung NSC(4;1.47e-33)|all_lung(4;1.02e-31)|Breast(13;1.59e-06)		all cancers(2;2.69e-50)|GBM - Glioblastoma multiforme(2;7.34e-41)|BRCA - Breast invasive adenocarcinoma(5;5.38e-10)|Lung(24;4.61e-05)|LUAD - Lung adenocarcinoma(15;0.000376)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			TTTGTTGCAGCTGAGTGGTCT	0.383													41	96					0	0	0.00874	0	0		T	69250279	T	T	69250279	3	4	19	1	0	0	0	0	1	0	0	0	3811	797	28	2	65	2	CPM	12	69250279	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	114598	69250279	64601616	1970	15483											
RAB3IP	117177	broad.mit.edu	37	chr12	70195448	70195448	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagcattgaaccagtgggAttacaacctatccggtttgt	11	12	9	9	1	0	1	0	1	0	0	1	2	1	2	3	2	4	2	3	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:70195448A>T	uc001svp.2	+	8	1572	c.1125A>T	c.(1123-1125)GGA>GGT	p.G375G	RAB3IP_uc001svm.2_Silent_p.G359G|RAB3IP_uc001svn.2_Silent_p.G359G|RAB3IP_uc001svo.2_Intron|RAB3IP_uc001svq.2_Silent_p.G375G|RAB3IP_uc001svr.2_RNA|RAB3IP_uc001svs.2_Intron|RAB3IP_uc001svt.2_Silent_p.G153G	NM_175623	NP_783322	Q96QF0	RAB3I_HUMAN	RAB3A interacting protein isoform alpha 2	375					cilium assembly|Golgi to plasma membrane transport|protein localization to organelle|protein transport	actin cortical patch|centrosome|cytosol|lamellipodium|microtubule basal body|nucleus	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Esophageal squamous(21;0.187)		Lung(24;0.000381)|OV - Ovarian serous cystadenocarcinoma(12;0.00168)|STAD - Stomach adenocarcinoma(21;0.00694)			AACCAGTGGGATTACAACCTA	0.403													7	58					0	0	0.004482	0	0		T	70195448	T	T	70195448	2	4	19	1	0	0	0	0	0	0	0	1	12963	320	12	5		5	RAB3IP	12	70195448	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	945169	70195448	63656447	1971	15484											
PTPRB	5787	broad.mit.edu	37	chr12	71029640	71029640	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccatcggggtgcctgggAacagcggtccaagatggctg	7	7	17	10	2	0	1	0	0	0	1	3	2	2	2	3	6	3	1	3	6	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:71029640A>G	uc001swc.3	-	2	306	c.262T>C	c.(262-264)TCC>CCC	p.S88P	PTPRB_uc001swa.3_Missense_Mutation_p.S88P|PTPRB_uc001swd.3_Missense_Mutation_p.S87P|PTPRB_uc009zrr.1_Intron|PTPRB_uc001swe.2_Missense_Mutation_p.S88P	NM_001109754	NP_001103224	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	Error:Variant_position_missing_in_P23467_after_alignment					angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			GGTGCCTGGGAACAGCGGTCC	0.542													11	25					0	0	0.010729	0	0		G	71029640	G	G	71029640	3	3	19	1	0	0	0	0	1	0	0	0	12821	246	9	3	6575	3	PTPRB	12	71029640	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	834192	71029640	62822255	1972	15485											
LGR5	8549	broad.mit.edu	37	chr12	71974204	71974204	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggaatgtttcaggctcaagGtaggacttgctatgccatgg	9	12	13	7	0	2	0	2	0	0	0	2	2	2	2	1	5	2	4	1	5	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:71974204G>A	uc001swl.2	+	16	1600	c.1552_splice	c.e16+1	p.D518_splice	LGR5_uc001swm.2_Splice_Site_p.D494_splice|LGR5_uc001swn.1_Splice_Site	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled							integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						CAGGCTCAAGGTAGGACTTGC	0.358													73	240					0	0	0.01441	0	0		A	71974204	A	A	71974204	5	1	19	1	0	0	0	0	0	0	1	0	8773	1275	44	4	1615	4	LGR5	12	71974204	Splice_Site	SNP	G	TCGA-BR-4361-01A-01D-1158-08	944564	71974204	61877691	1973	15486											
ZFC3H1	196441	broad.mit.edu	37	chr12	72038781	72038781	+	Frame_Shift_Del	DEL	T	-	-																															tgctgttctttttgttgccaTtttttactggctgactgaag																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:72038781delT	uc001swo.2	-	4	1514	c.1155delA	c.(1153-1155)AAAfs	p.K385fs		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	385	Potential.				RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						TTTGTTGCCATTTTTTACTGG	0.348													21	35	---	---	---	---						.	-	72038781	-	-	72038781	7	5	19	1	0	1	0	1	0	0	0	0	17658	1490	52	0	4942	0	ZFC3H1	12	72038781	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	64577	72038781	61813114	1974	15487											
CSRP2	1466	broad.mit.edu	37	chr12	77253398	77253398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcccacactttgcacatCggaaacagtttttgtgccag	9	13	7	12	1	1	0	0	0	1	0	3	1	2	1	2	1	3	2	2	1	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:77253398C>T	uc001syl.1	-	5	517	c.434G>A	c.(433-435)CGA>CAA	p.R145Q		NM_001321	NP_001312	Q16527	CSRP2_HUMAN	cysteine and glycine-rich protein 2	145	LIM zinc-binding 2.				multicellular organismal development	nucleus	zinc ion binding			ovary(1)	1						CTTTGCACATCGGAAACAGTT	0.408													10	33					0	0	0.010729	0	0		T	77253398	T	T	77253398	3	4	19	1	0	0	0	0	1	0	0	0	3970	884	31	1	155	1	CSRP2	12	77253398	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5214617	77253398	56598497	1975	15488											
E2F7	144455	broad.mit.edu	37	chr12	77449854	77449854	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttcgataaatcaattggTtcattttttattggagtctt	9	20	7	5	1	3	0	2	0	1	0	4	2	3	1	0	2	1	2	0	2	4	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:77449854T>C	uc001sym.3	-	3	386	c.150A>G	c.(148-150)GAA>GAG	p.E50E	E2F7_uc001syn.2_Silent_p.E50E	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	50					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						AATCAATTGGTTCATTTTTTA	0.363													8	126					0	0	0.00308	0	0		C	77449854	C	C	77449854	2	2	19	1	0	0	0	0	0	0	0	1	4878	1722	60	3		3	E2F7	12	77449854	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	196456	77449854	56402041	1976	15489											
TMTC2	160335	broad.mit.edu	37	chr12	83359353	83359353	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcagctgcatatttaaatAccggtattattctaatgaac	13	14	5	9	1	2	1	1	1	1	0	2	1	2	1	2	1	4	3	2	1	8	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:83359353A>G	uc001szt.2	+	6	2131	c.1699A>G	c.(1699-1701)ACC>GCC	p.T567A	TMTC2_uc001szr.1_Missense_Mutation_p.T567A|TMTC2_uc001szs.1_Missense_Mutation_p.T567A|TMTC2_uc010suk.1_Missense_Mutation_p.T322A	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	567	TPR 4.					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						ATATTTAAATACCGGTATTAT	0.383													38	76					0	0	0.00874	0	0		G	83359353	G	G	83359353	3	3	19	1	0	0	0	0	1	0	0	0	16286	391	14	3	1721	3	TMTC2	12	83359353	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5909499	83359353	50492542	1977	15490											
LRRIQ1	84125	broad.mit.edu	37	chr12	85450662	85450662	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgcagaaagctccatggtAtctaaagaagtcaactctct	15	10	7	9	0	3	2	1	0	2	2	5	2	4	2	1	1	3	3	1	1	7	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:85450662A>T	uc001tac.2	+	8	2202	c.2091A>T	c.(2089-2091)GTA>GTT	p.V697V	LRRIQ1_uc001tab.1_Silent_p.V697V|LRRIQ1_uc001taa.1_Silent_p.V672V	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	697										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		GCTCCATGGTATCTAAAGAAG	0.368													48	108					0	0	0.011902	0	0		T	85450662	T	T	85450662	2	4	19	1	0	0	0	0	0	0	0	1	9047	436	16	5		5	LRRIQ1	12	85450662	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2091309	85450662	48401233	1978	15491											
RASSF9	9182	broad.mit.edu	37	chr12	86198792	86198792	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccactcaaatgagagtgAattttcaaaccagctttcat	14	12	6	9	0	3	2	3	2	0	1	3	3	3	2	2	0	3	1	2	0	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:86198792A>G	uc001taf.1	-	2	1335	c.996T>C	c.(994-996)ATT>ATC	p.I332I		NM_005447	NP_005438	O75901	RASF9_HUMAN	Ras association (RalGDS/AF-6) domain family	332					endosome transport|protein targeting|signal transduction	cytosol|endosome|trans-Golgi network transport vesicle membrane	protein binding|transporter activity			ovary(1)	1						AATGAGAGTGAATTTTCAAAC	0.388													34	244					0	0	0.010818	0	0		G	86198792	G	G	86198792	2	3	19	1	0	0	0	0	0	0	0	1	13118	242	9	3		3	RASSF9	12	86198792	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	748130	86198792	47653103	1979	15492											
ATP2B1	490	broad.mit.edu	37	chr12	89996854	89996854	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctaaaacaattgtgcagAagatggcattgttaaagatt	15	12	9	5	0	0	3	0	0	0	3	0	3	0	3	1	1	3	3	1	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:89996854A>G	uc001tbh.2	-	17	3207	c.3026T>C	c.(3025-3027)TTC>TCC	p.F1009S	ATP2B1_uc001tbg.2_Missense_Mutation_p.F1009S|ATP2B1_uc001tbf.2_Missense_Mutation_p.F679S	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	1009	Helical; (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						AATTGTGCAGAAGATGGCATT	0.358													3	72					0	0	0.004672	0	0		G	89996854	G	G	89996854	3	3	19	1	0	0	0	0	1	0	0	0	1140	246	9	3	810	3	ATP2B1	12	89996854	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3798062	89996854	43855041	1980	15493											
EPYC	1833	broad.mit.edu	37	chr12	91358019	91358019	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatagggtttccatccaatcGaatgtcctctagtgccttac	10	13	7	11	1	1	0	0	0	1	0	5	1	4	0	4	1	2	1	4	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:91358019G>A	uc001tbk.2	-	7	976	c.883C>T	c.(883-885)CGA>TGA	p.R295*		NM_004950	NP_004941	Q99645	EPYC_HUMAN	dermatan sulfate proteoglycan 3 precursor	295	LRR 6.				female pregnancy	proteinaceous extracellular matrix	glycosaminoglycan binding			skin(1)	1						CCATCCAATCGAATGTCCTCT	0.373													40	81					0	0	0.009718	0	0		A	91358019	A	A	91358019	4	1	19	1	0	0	0	0	0	1	0	0	5209	1066	37	1	89	1	EPYC	12	91358019	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1361165	91358019	42493876	1981	15494											
PLEKHG7	440107	broad.mit.edu	37	chr12	93162797	93162797	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttcttatacaacacgaaAacagatatcgacagtgtata	16	12	5	8	2	1	1	0	0	1	1	2	3	1	1	0	0	3	1	0	0	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:93162797A>G	uc001tcj.2	+	11	1203	c.973A>G	c.(973-975)AAC>GAC	p.N325D		NM_001004330	NP_001004330	Q6ZR37	PKHG7_HUMAN	pleckstrin homology domain containing, family G	325	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1						ACAACACGAAAACAGATATCG	0.313													4	11					0	0	0.000602	0	0		G	93162797	G	G	93162797	3	3	19	1	0	0	0	0	1	0	0	0	12094	14	1	3	1011	3	PLEKHG7	12	93162797	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1804778	93162797	40689098	1982	15495											
SOCS2	8835	broad.mit.edu	37	chr12	93968638	93968638	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacatcagctggaccaactAatcttcgaatcgaataccaa	17	8	5	11	2	2	0	1	0	1	0	4	3	2	1	2	1	4	1	2	1	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:93968638A>G	uc001tcw.1	+	3	870	c.280A>G	c.(280-282)AAT>GAT	p.N94D	SOCS2_uc001tcx.1_Missense_Mutation_p.N94D|SOCS2_uc009zsu.2_3'UTR|SOCS2_uc001tcy.1_Missense_Mutation_p.N94D|SOCS2_uc001tcz.2_3'UTR	NM_003877	NP_003868	O14508	SOCS2_HUMAN	suppressor of cytokine signaling-2	94	SH2.				anti-apoptosis|growth hormone receptor signaling pathway|JAK-STAT cascade|negative regulation of signal transduction|regulation of cell growth|response to estradiol stimulus	cytoplasm	growth hormone receptor binding|insulin-like growth factor receptor binding|JAK pathway signal transduction adaptor activity|prolactin receptor binding|SH3/SH2 adaptor activity			lung(1)	1						TGGACCAACTAATCTTCGAAT	0.373													29	50					0	0	0.00632	0	0		G	93968638	G	G	93968638	3	3	19	1	0	0	0	0	1	0	0	0	14939	362	13	3	286	3	SOCS2	12	93968638	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	805841	93968638	39883257	1983	15496											
SOCS2	8835	broad.mit.edu	37	chr12	93968662	93968662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgaatcgaataccaagacGgaaaattcagattggactct	15	10	8	8	3	2	2	1	0	1	2	4	6	2	4	1	2	1	0	1	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:93968662G>A	uc001tcw.1	+	3	894	c.304G>A	c.(304-306)GGA>AGA	p.G102R	SOCS2_uc001tcx.1_Missense_Mutation_p.G102R|SOCS2_uc009zsu.2_3'UTR|SOCS2_uc001tcy.1_Missense_Mutation_p.G102R|SOCS2_uc001tcz.2_3'UTR	NM_003877	NP_003868	O14508	SOCS2_HUMAN	suppressor of cytokine signaling-2	102	SH2.				anti-apoptosis|growth hormone receptor signaling pathway|JAK-STAT cascade|negative regulation of signal transduction|regulation of cell growth|response to estradiol stimulus	cytoplasm	growth hormone receptor binding|insulin-like growth factor receptor binding|JAK pathway signal transduction adaptor activity|prolactin receptor binding|SH3/SH2 adaptor activity			lung(1)	1						ATACCAAGACGGAAAATTCAG	0.373													29	52					0	0	0.007291	0	0		A	93968662	A	A	93968662	3	1	19	1	0	0	0	0	1	0	0	0	14939	1117	39	1	310	1	SOCS2	12	93968662	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	24	93968662	39883233	1984	15497											
PLXNC1	10154	broad.mit.edu	37	chr12	94580155	94580155	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttccttttaggtgaggAgaattcgtgttgcaaactgc	8	15	10	8	1	1	2	0	1	1	1	3	3	2	2	1	2	3	2	1	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:94580155A>T	uc001tdc.2	+	4	1594	c.1345A>T	c.(1345-1347)AGA>TGA	p.R449*		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	449	Extracellular (Potential).|Sema.				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						TTAGGTGAGGAGAATTCGTGT	0.423													17	42					0	0	0.006122	0	0		T	94580155	T	T	94580155	4	4	19	1	0	0	0	0	0	1	0	0	12145	296	11	5	1359	5	PLXNC1	12	94580155	Nonsense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	611493	94580155	39271740	1985	15498											
FGD6	55785	broad.mit.edu	37	chr12	95603554	95603554	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcctgtagcaggcaagctAtgtctttgaggttttttggg	7	15	12	7	0	1	1	0	1	1	0	2	1	2	1	1	3	2	5	1	3	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:95603554A>G	uc001tdp.3	-	2	1730	c.1506T>C	c.(1504-1506)CAT>CAC	p.H502H	FGD6_uc009zsx.2_Intron	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	502					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						CAGGCAAGCTATGTCTTTGAG	0.418													60	150					0	0	0.01441	0	0		G	95603554	G	G	95603554	2	3	19	1	0	0	0	0	0	0	0	1	5851	446	16	3		3	FGD6	12	95603554	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1023399	95603554	38248341	1986	15499											
ELK3	2004	broad.mit.edu	37	chr12	96641161	96641161	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgccttcctggcctcgtcCgtctcggccaagatctcctc	3	11	8	19	4	2	1	0	0	2	1	9	1	5	1	7	2	0	0	7	2	1	1	rs140155479		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:96641161C>T	uc001teo.1	+	3	930	c.651C>T	c.(649-651)TCC>TCT	p.S217S		NM_005230	NP_005221	P41970	ELK3_HUMAN	ELK3 protein	217					negative regulation of transcription, DNA-dependent|signal transduction	mitochondrion	protein binding|purine-rich negative regulatory element binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	all_cancers(2;0.00173)					TGGCCTCGTCCGTCTCGGCCA	0.602													36	68					0	0	0.00874	0	0		T	96641161	T	T	96641161	2	4	19	1	0	0	0	0	0	0	0	1	5068	639	23	1		1	ELK3	12	96641161	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1037607	96641161	37210734	1987	15500											
C12orf63	374467	broad.mit.edu	37	chr12	97098550	97098550	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatttgactcaggaaaactTcttaccagtaaagaaaatat	17	12	5	7	0	3	2	2	1	1	1	3	3	3	3	1	1	2	1	1	1	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:97098550T>C	uc001tet.1	+	14	1857	c.1779T>C	c.(1777-1779)CTT>CTC	p.L593L		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	593										skin(6)|ovary(1)	7						CAGGAAAACTTCTTACCAGTA	0.264													4	15					0	0	0.001168	0	0		C	97098550	C	C	97098550	2	2	19	1	0	0	0	0	0	0	0	1	1709	1770	62	3		3	C12orf63	12	97098550	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	457389	97098550	36753345	1988	15501											
C12orf63	374467	broad.mit.edu	37	chr12	97102450	97102450	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaattggccaaccacatcTcttaaataagtttaattttg	14	15	4	8	0	1	0	0	0	1	0	2	0	1	0	2	1	2	1	2	1	7	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:97102450T>C	uc001tet.1	+	15	1946	c.1868T>C	c.(1867-1869)CTC>CCC	p.L623P		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	623										skin(6)|ovary(1)	7						CAACCACATCTCTTAAATAAG	0.318													11	92					0	0	0.013537	0	0		C	97102450	C	C	97102450	3	2	19	1	0	0	0	0	1	0	0	0	1709	1551	54	3	1922	3	C12orf63	12	97102450	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3900	97102450	36749445	1989	15502											
C12orf63	374467	broad.mit.edu	37	chr12	97159024	97159024	+	Frame_Shift_Del	DEL	A	-	-																															tggatgtctacatattatgcAaaaaaactgatatatgtaat																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:97159024delA	uc001tet.1	+	27	3662	c.3584delA	c.(3583-3585)CAAfs	p.Q1195fs		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	1195										skin(6)|ovary(1)	7						CATATTATGCAAAAAAACTGA	0.338													15	32	---	---	---	---						.	-	97159024	-	-	97159024	7	5	19	1	0	1	0	1	0	0	0	0	1709	130	5	0	3686	0	C12orf63	12	97159024	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	56574	97159024	36692871	1990	15503											
ANKS1B	56899	broad.mit.edu	37	chr12	99174974	99174974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaccttcttcatttgctctGtagacttctgaaattaaaat	11	16	6	8	0	4	2	1	1	3	1	4	3	4	3	1	1	1	2	1	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:99174974G>A	uc001tge.1	-	23	3704	c.3287C>T	c.(3286-3288)ACA>ATA	p.T1096I	ANKS1B_uc001tgf.1_Missense_Mutation_p.T612I|ANKS1B_uc001tgk.2_Missense_Mutation_p.T393I|ANKS1B_uc010svd.1_Missense_Mutation_p.T102I|ANKS1B_uc001tgd.1_Missense_Mutation_p.T262I|ANKS1B_uc009ztq.2_5'UTR|ANKS1B_uc010sve.1_Missense_Mutation_p.T126I|ANKS1B_uc001tgh.3_Missense_Mutation_p.T102I|ANKS1B_uc001tgi.2_Missense_Mutation_p.T346I|ANKS1B_uc009ztr.2_Missense_Mutation_p.T286I|ANKS1B_uc001tgj.2_Missense_Mutation_p.T262I|ANKS1B_uc009ztp.2_Missense_Mutation_p.T127I|ANKS1B_uc010svf.1_Missense_Mutation_p.T126I|ANKS1B_uc001tgg.3_Missense_Mutation_p.T194I|ANKS1B_uc010svg.1_Missense_Mutation_p.T231I|ANKS1B_uc009zts.1_Missense_Mutation_p.T322I	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	1096	PID.					Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		CATTTGCTCTGTAGACTTCTG	0.363													4	4					0	0	0.009096	0	0		A	99174974	A	A	99174974	3	1	19	1	0	0	0	0	1	0	0	0	689	1377	48	4	590	4	ANKS1B	12	99174974	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2015950	99174974	34676921	1991	15504											
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100482808	100482808	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtttcacaattgcatcattTacatcaggagcatttgaagt	13	14	7	7	0	3	1	3	1	0	0	3	2	3	2	0	1	3	3	0	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:100482808T>C	uc001tgq.2	-	8	1135	c.906A>G	c.(904-906)GTA>GTG	p.V302V	UHRF1BP1L_uc001tgr.2_Silent_p.V302V|UHRF1BP1L_uc001tgp.2_5'UTR	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	302										ovary(2)	2						TTGCATCATTTACATCAGGAG	0.378													6	81					0	0	0.001168	0	0		C	100482808	C	C	100482808	2	2	19	1	0	0	0	0	0	0	0	1	16995	1741	61	3		3	UHRF1BP1L	12	100482808	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1307834	100482808	33369087	1992	15505											
NR1H4	9971	broad.mit.edu	37	chr12	100904733	100904733	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggtactctcctggaatatAtgaactcaggcgtatgccag	10	11	11	9	1	2	1	1	1	1	0	3	2	2	2	2	3	3	2	2	3	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:100904733A>T	uc001tht.1	+	2	315	c.287A>T	c.(286-288)TAT>TTT	p.Y96F	NR1H4_uc001thp.1_Missense_Mutation_p.Y86F|NR1H4_uc001thq.1_Missense_Mutation_p.Y86F|NR1H4_uc010svj.1_RNA|NR1H4_uc001thr.1_Missense_Mutation_p.Y86F|NR1H4_uc010svk.1_Missense_Mutation_p.Y86F|NR1H4_uc001ths.1_Missense_Mutation_p.Y96F	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	96					bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						CCTGGAATATATGAACTCAGG	0.522													8	110					0	0	0.00308	0	0		T	100904733	T	T	100904733	3	4	19	1	0	0	0	0	1	0	0	0	10638	449	16	5	263	5	NR1H4	12	100904733	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	421925	100904733	32947162	1993	15506											
GAS2L3	283431	broad.mit.edu	37	chr12	101017693	101017693	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgggctctatgtcagtccgTtctaaattgccaaattctcc	8	14	7	12	1	4	0	1	0	3	0	6	0	5	0	3	1	1	2	3	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:101017693T>C	uc001thu.2	+	10	1336	c.1110T>C	c.(1108-1110)CGT>CGC	p.R370R	GAS2L3_uc009zty.2_Silent_p.R370R|GAS2L3_uc001thv.2_Silent_p.R266R	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	370					cell cycle arrest					skin(1)	1						TGTCAGTCCGTTCTAAATTGC	0.448													57	89					0	0	0.01441	0	0		C	101017693	C	C	101017693	2	2	19	1	0	0	0	0	0	0	0	1	6263	1712	60	3		3	GAS2L3	12	101017693	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	112960	101017693	32834202	1994	15507											
ANO4	121601	broad.mit.edu	37	chr12	101381326	101381326	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtaccacaggatcgataaAcaaataagcaggtttcggag	16	8	10	7	2	0	0	0	0	0	0	2	3	0	2	1	3	3	3	1	3	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:101381326A>G	uc010svm.1	+	8	1184	c.612A>G	c.(610-612)AAA>AAG	p.K204K	ANO4_uc010svl.1_RNA|ANO4_uc001thw.2_Silent_p.K169K|ANO4_uc001thx.2_Silent_p.K204K	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	204	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						GGATCGATAAACAAATAAGCA	0.507										HNSCC(74;0.22)	OREG0022059	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	549					0	0	0.004878	0	0		G	101381326	G	G	101381326	2	3	19	1	0	0	0	0	0	0	0	1	699	40	2	3		3	ANO4	12	101381326	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	363633	101381326	32470569	1995	15508											
GNPTAB	79158	broad.mit.edu	37	chr12	102158448	102158448	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgttattatagcttgattTtttattttagcatgctgtga	8	22	7	4	0	1	2	0	2	1	0	1	2	1	2	0	0	3	4	0	0	5	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:102158448T>C	uc001tit.2	-	13	2426	c.2247A>G	c.(2245-2247)AAA>AAG	p.K749K		NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	749					cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						TAGCTTGATTTTTTATTTTAG	0.388													4	69					0	0	0.009096	0	0		C	102158448	C	C	102158448	2	2	19	1	0	0	0	0	0	0	0	1	6560	1838	64	3		3	GNPTAB	12	102158448	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	777122	102158448	31693447	1996	15509											
STAB2	55576	broad.mit.edu	37	chr12	104030964	104030964	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgaagatgaaaacaaacTggaatgcaaatgccttccca	17	7	7	10	0	0	3	0	2	0	1	1	4	1	4	2	1	4	1	2	1	6	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:104030964T>G	uc001tjw.2	+	7	845	c.659T>G	c.(658-660)CTG>CGG	p.L220R		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	220	Extracellular (Potential).|EGF-like 3.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GAAAACAAACTGGAATGCAAA	0.428													13	100					0	0	0.00499	0	0		G	104030964	G	G	104030964	3	3	19	1	0	0	0	0	1	0	0	0	15263	1580	55	5	685	5	STAB2	12	104030964	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1872516	104030964	29820931	1997	15510											
STAB2	55576	broad.mit.edu	37	chr12	104123945	104123945	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatatccagtgatatcatcAgtactaatgggattgttcat	12	15	7	7	0	4	1	4	1	0	0	5	2	5	2	1	1	1	2	1	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:104123945A>G	uc001tjw.2	+	49	5320	c.5134A>G	c.(5134-5136)AGT>GGT	p.S1712G	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1712	Extracellular (Potential).|FAS1 5.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						TGATATCATCAGTACTAATGG	0.343													59	118					0	0	0.01441	0	0		G	104123945	G	G	104123945	3	3	19	1	0	0	0	0	1	0	0	0	15263	188	7	3	5328	3	STAB2	12	104123945	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	92981	104123945	29727950	1998	15511											
STAB2	55576	broad.mit.edu	37	chr12	104142848	104142848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagggatacaaaggggacGggcacagctgcacagagata	16	3	15	7	1	0	2	0	0	0	2	0	5	0	4	0	4	3	3	0	4	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:104142848G>A	uc001tjw.2	+	59	6538	c.6352G>A	c.(6352-6354)GGG>AGG	p.G2118R	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2118	Extracellular (Potential).|EGF-like 16.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CAAAGGGGACGGGCACAGCTG	0.592													18	62					0	0	0.010504	0	0		A	104142848	A	A	104142848	3	1	19	1	0	0	0	0	1	0	0	0	15263	1116	39	1	6586	1	STAB2	12	104142848	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	18903	104142848	29709047	1999	15512											
ALDH1L2	160428	broad.mit.edu	37	chr12	105418218	105418218	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctaatattccagtgtcAccgtcttggttttgagatat	8	17	8	8	1	3	1	1	1	2	1	4	2	4	1	2	1	1	2	2	1	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:105418218A>G	uc001tlc.2	-	23	2883	c.2756T>C	c.(2755-2757)GTG>GCG	p.V919A	ALDH1L2_uc009zuo.2_Missense_Mutation_p.V374A|ALDH1L2_uc009zup.2_RNA	NM_001034173	NP_001029345	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	919	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1						TTCCAGTGTCACCGTCTTGGT	0.448													8	22					0	0	0.006214	0	0		G	105418218	G	G	105418218	3	3	19	1	0	0	0	0	1	0	0	0	495	159	6	3	19	3	ALDH1L2	12	105418218	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1275370	105418218	28433677	2000	15513											
TCP11L2	255394	broad.mit.edu	37	chr12	106704994	106704994	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaagtgactcctccagcaaAtccagctctcctgcttgtga	9	10	8	14	0	1	2	0	2	1	0	5	2	4	2	4	0	3	4	4	0	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:106704994A>G	uc001tln.2	+	2	315	c.141A>G	c.(139-141)AAA>AAG	p.K47K	TCP11L2_uc001tll.2_Silent_p.K47K|TCP11L2_uc001tlm.2_Silent_p.K47K|TCP11L2_uc001tlo.1_RNA	NM_152772	NP_689985	Q8N4U5	T11L2_HUMAN	t-complex 11 (mouse) like 2	47	Ser-rich.									ovary(3)	3						CCTCCAGCAAATCCAGCTCTC	0.522													3	64					0	0	0.004672	0	0		G	106704994	G	G	106704994	2	3	19	1	0	0	0	0	0	0	0	1	15740	98	4	3		3	TCP11L2	12	106704994	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1286776	106704994	27146901	2001	15514											
POLR3B	55703	broad.mit.edu	37	chr12	106763412	106763412	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctattacagtggatattgaaTatacccgaggcagccagagg	13	9	11	8	1	0	2	0	1	0	1	0	4	0	3	2	3	3	1	2	3	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:106763412T>C	uc001tlp.2	+	6	577	c.355T>C	c.(355-357)TAT>CAT	p.Y119H	POLR3B_uc001tlq.2_Missense_Mutation_p.Y61H	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	119					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						GGATATTGAATATACCCGAGG	0.488													41	80					0	0	0.01441	0	0		C	106763412	C	C	106763412	3	2	19	1	0	0	0	0	1	0	0	0	12248	1406	49	3	377	3	POLR3B	12	106763412	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	58418	106763412	27088483	2002	15515											
PWP1	11137	broad.mit.edu	37	chr12	108082460	108082460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatggcatgcagagtgcacGcacccaggcacgcccaagag	12	3	13	13	2	0	3	0	0	0	3	0	3	0	3	2	2	2	5	2	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:108082460G>A	uc001tmo.1	+	3	287	c.200G>A	c.(199-201)CGC>CAC	p.R67H	PWP1_uc001tmn.1_RNA|PWP1_uc009zuu.1_Missense_Mutation_p.R67H	NM_007062	NP_008993	Q13610	PWP1_HUMAN	periodic tryptophan protein 1	67					transcription, DNA-dependent	nucleus					0						CAGAGTGCACGCACCCAGGCA	0.517													20	50					0	0	0.008871	0	0		A	108082460	A	A	108082460	3	1	19	1	0	0	0	0	1	0	0	0	12868	1087	38	1	210	1	PWP1	12	108082460	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1319048	108082460	25769435	2003	15516											
WSCD2	9671	broad.mit.edu	37	chr12	108589987	108589987	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgggagaaggaggaagaGcgaggtaagagcgaggaaca	15	2	19	5	3	0	3	0	0	0	3	1	9	1	6	1	5	3	1	1	5	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:108589987G>T	uc001tms.2	+	2	1122	c.378G>T	c.(376-378)GAG>GAT	p.E126D	WSCD2_uc001tmt.2_Missense_Mutation_p.E126D	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	126						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						AGGAGGAAGAGCGAGGTAAGA	0.542													16	23					9.16793e-09	9.55923e-09	0.00499	1	0		T	108589987	T	T	108589987	3	4	19	1	0	0	0	0	1	0	0	0	17433	962	34	5	380	5	WSCD2	12	108589987	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	507527	108589987	25261908	2004	15517											
SART3	9733	broad.mit.edu	37	chr12	108924060	108924060	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccttttcttcttcttgctGcacaagggctgcttccttct	4	17	7	13	0	4	0	0	0	4	0	5	0	5	0	2	1	4	4	2	1	1	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:108924060G>A	uc001tmz.1	-	15	2009	c.1774C>T	c.(1774-1776)CAG>TAG	p.Q592*	SART3_uc001tmy.1_Nonsense_Mutation_p.Q118*|SART3_uc009zux.1_Nonsense_Mutation_p.Q204*|SART3_uc010swx.1_Nonsense_Mutation_p.Q556*|SART3_uc010swy.1_Nonsense_Mutation_p.Q478*|SART3_uc010swz.1_Nonsense_Mutation_p.Q592*|SART3_uc001tna.1_RNA	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	592	Potential.				RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						TCTTCTTGCTGCACAAGGGCT	0.473									Porokeratosis				11	70					0	0	0.013537	0	0		A	108924060	A	A	108924060	4	1	19	1	0	0	0	0	0	1	0	0	13872	1328	46	2	1137	2	SART3	12	108924060	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	334073	108924060	24927835	2005	15518											
SART3	9733	broad.mit.edu	37	chr12	108926095	108926095	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agagccttccggcagtgctgGgtgtcaccatgagctctaag	8	9	13	11	1	2	2	1	1	1	1	3	2	3	2	3	2	3	3	3	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:108926095G>A	uc001tmz.1	-	13	1807	c.1572C>T	c.(1570-1572)ACC>ACT	p.T524T	SART3_uc001tmy.1_Silent_p.T50T|SART3_uc009zux.1_Silent_p.T136T|SART3_uc010swx.1_Silent_p.T488T|SART3_uc010swy.1_Silent_p.T410T|SART3_uc010swz.1_Silent_p.T524T|SART3_uc001tna.1_RNA	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	524					RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						GGCAGTGCTGGGTGTCACCAT	0.567									Porokeratosis				6	79					0	0	0.00308	0	0		A	108926095	A	A	108926095	2	1	19	1	0	0	0	0	0	0	0	1	13872	1219	43	4		4	SART3	12	108926095	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2035	108926095	24925800	2006	15519											
SSH1	54434	broad.mit.edu	37	chr12	109194580	109194580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttgtttataaaatgatacGcttcattccagtgggcgagg	10	14	10	7	2	1	1	1	1	0	0	2	2	2	1	1	2	1	2	1	2	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:109194580G>A	uc001tnm.2	-	12	1211	c.1124C>T	c.(1123-1125)GCG>GTG	p.A375V	SSH1_uc001tnl.2_Missense_Mutation_p.A63V|SSH1_uc010sxg.1_Missense_Mutation_p.A386V|SSH1_uc001tnn.3_Missense_Mutation_p.A375V	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	375	Tyrosine-protein phosphatase.				actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						AAAATGATACGCTTCATTCCA	0.468													37	87					0	0	0.006999	0	0		A	109194580	A	A	109194580	3	1	19	1	0	0	0	0	1	0	0	0	15209	1087	38	1	2227	1	SSH1	12	109194580	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	268485	109194580	24657315	2007	15520											
ACACB	32	broad.mit.edu	37	chr12	109674991	109674991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagaagatcgcatttacCgtcacttggaacctgccctg	9	11	9	12	2	1	2	1	0	0	2	2	3	1	3	3	1	4	2	3	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:109674991C>T	uc001tob.2	+	34	4587	c.4468C>T	c.(4468-4470)CGT>TGT	p.R1490C	ACACB_uc001toc.2_Missense_Mutation_p.R1490C|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.R156C	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1490					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	TCGCATTTACCGTCACTTGGA	0.547													45	112					0	0	0.01441	0	0		T	109674991	T	T	109674991	3	4	19	1	0	0	0	0	1	0	0	0	107	652	23	1	4598	1	ACACB	12	109674991	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	480411	109674991	24176904	2008	15521											
ACACB	32	broad.mit.edu	37	chr12	109685462	109685462	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actacaccagaatcagctccCtgaactccgtccactgtaaa	13	8	5	15	1	1	2	1	1	0	1	4	2	4	2	4	0	3	2	4	0	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:109685462C>A	uc001tob.2	+	40	5742	c.5623C>A	c.(5623-5625)CTG>ATG	p.L1875M	ACACB_uc001toc.2_Missense_Mutation_p.L1875M|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.L541M	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1875	Carboxyltransferase.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	AATCAGCTCCCTGAACTCCGT	0.428													17	147					4.96729e-08	5.16894e-08	0.008871	1	0		A	109685462	A	A	109685462	3	1	19	1	0	0	0	0	1	0	0	0	107	680	24	5	5777	5	ACACB	12	109685462	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	10471	109685462	24166433	2009	15522											
KCTD10	83892	broad.mit.edu	37	chr12	109894111	109894111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttttcaacatattgtcgtCagaattgctgcaaaagagca	13	13	8	7	1	2	2	2	0	0	2	3	2	2	2	0	0	4	4	0	0	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:109894111C>T	uc001toi.1	-	6	623	c.535G>A	c.(535-537)GAC>AAC	p.D179N	KCTD10_uc001toh.1_RNA|KCTD10_uc009zvi.1_Intron|KCTD10_uc001toj.1_Missense_Mutation_p.D188N|KCTD10_uc001tok.1_5'UTR	NM_031954	NP_114160	Q9H3F6	BACD3_HUMAN	potassium channel tetramerisation domain	179					proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0						ATATTGTCGTCAGAATTGCTG	0.308													32	61					0	0	0.012213	0	0		T	109894111	T	T	109894111	3	4	19	1	0	0	0	0	1	0	0	0	8113	826	29	4	414	4	KCTD10	12	109894111	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	208649	109894111	23957784	2010	15523											
C12orf34	84915	broad.mit.edu	37	chr12	110206189	110206189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgccctacccagtgcccaGcactctgggtcccttggcct	4	9	10	18	1	1	0	0	0	1	0	2	0	2	0	5	2	4	1	5	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:110206189G>A	uc001tpd.1	+	3	1014	c.455G>A	c.(454-456)AGC>AAC	p.S152N	MGC14436_uc010sxs.1_Intron|MGC14436_uc001tpe.2_Intron|C12orf34_uc001tpf.1_Missense_Mutation_p.S152N	NM_032829	NP_116218	Q5U5X8	CL034_HUMAN	hypothetical protein LOC84915	152	Pro-rich.									ovary(1)	1						CCAGTGCCCAGCACTCTGGGT	0.716													7	10					0	0	0.004482	0	0		A	110206189	A	A	110206189	3	1	19	1	0	0	0	0	1	0	0	0	1684	971	34	2	461	2	C12orf34	12	110206189	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	312078	110206189	23645706	2011	15524											
C12orf34	84915	broad.mit.edu	37	chr12	110206716	110206716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgagcgggccagcgggtcaCccctcaactgtggcgtgggg	6	5	17	13	4	2	0	2	0	0	0	2	1	2	0	3	5	3	0	3	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:110206716C>T	uc001tpd.1	+	3	1541	c.982C>T	c.(982-984)CCC>TCC	p.P328S	MGC14436_uc010sxs.1_Intron|MGC14436_uc001tpe.2_Intron|C12orf34_uc001tpf.1_Missense_Mutation_p.P328S	NM_032829	NP_116218	Q5U5X8	CL034_HUMAN	hypothetical protein LOC84915	328										ovary(1)	1						CAGCGGGTCACCCCTCAACTG	0.687													3	2					0	0	0.004672	0	0		T	110206716	T	T	110206716	3	4	19	1	0	0	0	0	1	0	0	0	1684	507	18	4	988	4	C12orf34	12	110206716	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	527	110206716	23645179	2012	15525											
TRPV4	59341	broad.mit.edu	37	chr12	110246174	110246174	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcccgtccaggtcagcagtGgagccccgggacacgatgtc	8	5	14	14	3	1	0	1	0	0	0	3	3	2	2	4	3	3	1	4	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:110246174G>A	uc001tpj.1	-	2	581	c.486C>T	c.(484-486)TCC>TCT	p.S162S	TRPV4_uc001tpg.1_Silent_p.S128S|TRPV4_uc001tph.1_Silent_p.S162S|TRPV4_uc001tpi.1_Silent_p.S162S|TRPV4_uc001tpk.1_Silent_p.S162S|TRPV4_uc001tpl.1_Silent_p.S162S	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	162	Cytoplasmic (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						GGTCAGCAGTGGAGCCCCGGG	0.612													11	57					0	0	0.003163	0	0		A	110246174	A	A	110246174	2	1	19	1	0	0	0	0	0	0	0	1	16624	1335	47	4		4	TRPV4	12	110246174	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	39458	110246174	23605721	2013	15526											
ANAPC7	51434	broad.mit.edu	37	chr12	110834127	110834127	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtctcacttttgaagtttTacttagcgctttcttctgct	6	19	7	9	1	3	1	1	1	3	0	4	1	3	1	0	1	3	3	0	1	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:110834127T>C	uc001tqo.2	-	2	335	c.334A>G	c.(334-336)AAA>GAA	p.K112E	ANAPC7_uc001tqp.3_Missense_Mutation_p.K112E	NM_016238	NP_057322	Q9UJX3	APC7_HUMAN	anaphase-promoting complex subunit 7 isoform a	112					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding				0						TTTGAAGTTTTACTTAGCGCT	0.353													41	104					0	0	0.010771	0	0		C	110834127	C	C	110834127	3	2	19	1	0	0	0	0	1	0	0	0	606	1763	61	3	1509	3	ANAPC7	12	110834127	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	587953	110834127	23017768	2014	15527											
CUX2	23316	broad.mit.edu	37	chr12	111760355	111760355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaccagctcggccaggCagtgggccagcagcctggtg	6	6	15	14	1	1	1	0	1	1	0	2	1	1	1	4	4	3	3	4	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:111760355C>T	uc001tsa.1	+	18	3050	c.2897C>T	c.(2896-2898)GCA>GTA	p.A966V		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	966	CUT 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						CTCGGCCAGGCAGTGGGCCAG	0.672													5	11					0	0	0.001168	0	0		T	111760355	T	T	111760355	3	4	19	1	0	0	0	0	1	0	0	0	4068	710	25	2	2967	2	CUX2	12	111760355	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	926228	111760355	22091540	2015	15528											
ATXN2	6311	broad.mit.edu	37	chr12	111907920	111907920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgcttcctaccatacatcGcatgcgtctgctcatgagcc	8	11	8	14	2	2	1	1	1	1	0	4	1	3	1	3	0	6	3	3	0	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:111907920G>A	uc001tsj.2	-	20	3470	c.3308C>T	c.(3307-3309)GCG>GTG	p.A1103V	ATXN2_uc001tsh.2_Missense_Mutation_p.A838V|ATXN2_uc001tsi.2_Missense_Mutation_p.A814V|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Missense_Mutation_p.A291V|ATXN2_uc001tsl.1_Missense_Mutation_p.A122V	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	1103					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						ACCATACATCGCATGCGTCTG	0.438													48	79					0	0	0.01441	0	0		A	111907920	A	A	111907920	3	1	19	1	0	0	0	0	1	0	0	0	1212	1087	38	1	657	1	ATXN2	12	111907920	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	147565	111907920	21943975	2016	15529											
ATXN2	6311	broad.mit.edu	37	chr12	111951319	111951319	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatttcgaggatgtcgctggGcctttggggacatccttgga	6	12	15	8	2	0	0	0	0	0	0	3	5	1	3	2	5	0	1	2	5	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:111951319G>T	uc001tsj.2	-	11	2042	c.1880C>A	c.(1879-1881)GCC>GAC	p.A627D	ATXN2_uc001tsh.2_Missense_Mutation_p.A362D|ATXN2_uc001tsi.2_Missense_Mutation_p.A338D|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsm.1_Missense_Mutation_p.A362D	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	627	Pro-rich.				cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						ATGTCGCTGGGCCTTTGGGGA	0.443													13	44					1.49906e-05	1.54054e-05	0.00245	1	0		T	111951319	T	T	111951319	3	4	19	1	0	0	0	0	1	0	0	0	1212	1203	42	5	2121	5	ATXN2	12	111951319	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	43399	111951319	21900576	2017	15530											
ACAD10	80724	broad.mit.edu	37	chr12	112193510	112193510	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccatgattaaaatggtcgcCccgtccatggcctcccgagt	8	9	10	14	3	0	1	0	1	0	0	3	2	2	1	6	2	0	0	6	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:112193510C>T	uc001tsq.2	+	20	3200	c.3000C>T	c.(2998-3000)GCC>GCT	p.A1000A	ACAD10_uc009zvx.2_Silent_p.A1031A|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	1000							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						AAATGGTCGCCCCGTCCATGG	0.522													7	199					0	0	0.00308	0	0		T	112193510	T	T	112193510	2	4	19	1	0	0	0	0	0	0	0	1	108	610	22	4		4	ACAD10	12	112193510	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	242191	112193510	21658385	2018	15531											
C12orf51	283450	broad.mit.edu	37	chr12	112688056	112688056	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcaaagtagtttccaacaGgaggcacgaggacatcagag	15	6	12	8	1	2	1	2	0	0	1	3	5	3	3	1	3	1	3	1	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:112688056G>T	uc009zwc.2	-	18	2594	c.2576C>A	c.(2575-2577)CCT>CAT	p.P859H	C12orf51_uc010syk.1_Missense_Mutation_p.P681H|C12orf51_uc001tts.2_Missense_Mutation_p.P672H|C12orf51_uc001ttt.3_Missense_Mutation_p.P670H	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						GTTTCCAACAGGAGGCACGAG	0.527													43	94					1.76056e-25	1.88151e-25	0.011902	1	0		T	112688056	T	T	112688056	3	4	19	1	0	0	0	0	1	0	0	0	1699	1000	35	5	9622	5	C12orf51	12	112688056	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	494546	112688056	21163839	2019	15532											
PTPN11	5781	broad.mit.edu	37	chr12	112924296	112924296	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggggaatacggagagaacGgtctggcaataccactttcg	12	7	13	9	3	1	1	0	0	1	1	2	4	1	3	1	5	3	1	1	5	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:112924296G>A	uc001ttx.2	+	11	1622	c.1242G>A	c.(1240-1242)ACG>ACA	p.T414T	PTPN11_uc001ttw.1_Silent_p.T414T	NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	418	Tyrosine-protein phosphatase.				axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding			haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						CGGAGAGAACGGTCTGGCAAT	0.527			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				11	91					0	0	0.001855	0	0		A	112924296	A	A	112924296	2	1	19	1	0	0	0	0	0	0	0	1	12803	1103	39	1		1	PTPN11	12	112924296	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	236240	112924296	20927599	2020	15533											
OAS3	4940	broad.mit.edu	37	chr12	113379472	113379472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagctatgtggaccagagggCccgccgtgcagagatcctca	9	6	14	12	2	1	2	1	0	0	2	2	5	2	3	4	2	2	2	4	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:113379472C>T	uc001tug.2	+	2	362	c.275C>T	c.(274-276)GCC>GTC	p.A92V	OAS3_uc001tue.2_Missense_Mutation_p.A92V|OAS3_uc001tuf.2_Missense_Mutation_p.A92V	NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	92	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						GACCAGAGGGCCCGCCGTGCA	0.602													39	78					0	0	0.005524	0	0		T	113379472	T	T	113379472	3	4	19	1	0	0	0	0	1	0	0	0	10820	739	26	2	281	2	OAS3	12	113379472	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	455176	113379472	20472423	2021	15534											
MED13L	23389	broad.mit.edu	37	chr12	116403940	116403940	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacacgatgaccaaaaccActggggaagattctcagctt	13	7	11	10	1	1	2	1	1	1	1	2	5	1	4	2	3	2	1	2	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:116403940A>G	uc001tvw.2	-	29	6389	c.6334T>C	c.(6334-6336)TGG>CGG	p.W2112R		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	2112					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		GACCAAAACCACTGGGGAAGA	0.473													63	162					0	0	0.01441	0	0		G	116403940	G	G	116403940	3	3	19	1	0	0	0	0	1	0	0	0	9449	159	6	3	310	3	MED13L	12	116403940	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3024468	116403940	17447955	2022	15535											
MED13L	23389	broad.mit.edu	37	chr12	116421280	116421280	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgtccctgtgctgctgctgGtggggtctggtatttaggtg	2	16	16	7	0	1	0	0	0	1	0	2	0	2	0	1	5	3	4	1	5	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:116421280G>C	uc001tvw.2	-	21	4652	c.4597C>G	c.(4597-4599)CCA>GCA	p.P1533A		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1533					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		GCTGCTGCTGGTGGGGTCTGG	0.512											OREG0022156	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	93					0	0	0.004878	0	0		C	116421280	C	C	116421280	3	2	19	1	0	0	0	0	1	0	0	0	9449	1261	44	5	2079	5	MED13L	12	116421280	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	17340	116421280	17430615	2023	15536											
MED13L	23389	broad.mit.edu	37	chr12	116428979	116428979	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgcttgcacccggtcataActccagcttacacagggaag	10	9	9	13	1	2	0	1	0	1	0	3	1	3	1	2	2	5	3	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:116428979A>G	uc001tvw.2	-	17	3835	c.3780T>C	c.(3778-3780)AGT>AGC	p.S1260S		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1260					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		CCCGGTCATAACTCCAGCTTA	0.468													11	156					0	0	0.010729	0	0		G	116428979	G	G	116428979	2	3	19	1	0	0	0	0	0	0	0	1	9449	40	2	3		3	MED13L	12	116428979	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	7699	116428979	17422916	2024	15537											
MED13L	23389	broad.mit.edu	37	chr12	116429691	116429691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggcagcgctgttcaacGtcacgggtgtgttcatctgt	5	12	14	10	3	4	0	3	0	1	0	4	0	4	0	0	3	2	4	0	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:116429691G>A	uc001tvw.2	-	17	3123	c.3068C>T	c.(3067-3069)ACG>ATG	p.T1023M		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1023					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		GCTGTTCAACGTCACGGGTGT	0.562													15	30					0	0	0.00499	0	0		A	116429691	A	A	116429691	3	1	19	1	0	0	0	0	1	0	0	0	9449	1145	40	1	3624	1	MED13L	12	116429691	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	712	116429691	17422204	2025	15538											
FBXO21	23014	broad.mit.edu	37	chr12	117603360	117603360	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagctgcacctggtccgggTacattgccagatagagatcc	10	8	12	11	1	0	2	0	0	0	2	2	4	2	2	4	2	4	3	4	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:117603360T>C	uc001twk.2	-	9	1295	c.1256A>G	c.(1255-1257)TAC>TGC	p.Y419C	FBXO21_uc001twj.2_Missense_Mutation_p.Y419C|FBXO21_uc009zwq.2_Missense_Mutation_p.Y359C|FBXO21_uc001twl.1_Missense_Mutation_p.Y32C	NM_033624	NP_296373	O94952	FBX21_HUMAN	F-box only protein 21 isoform 1	419					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			kidney(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		CTGGTCCGGGTACATTGCCAG	0.493													19	114					0	0	0.007413	0	0		C	117603360	C	C	117603360	3	2	19	1	0	0	0	0	1	0	0	0	5747	1638	57	3	646	3	FBXO21	12	117603360	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1173669	117603360	16248535	2026	15539											
NOS1	4842	broad.mit.edu	37	chr12	117665266	117665266	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggaaacgatggccacagTgaggtgcacttcatcagggt	11	8	14	8	1	2	1	2	1	0	0	2	3	2	2	1	4	2	2	1	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:117665266T>C	uc001twm.1	-	23	4272	c.3586A>G	c.(3586-3588)ACT>GCT	p.T1196A		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1196	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	ATGGCCACAGTGAGGTGCACT	0.622													19	55					0	0	0.007413	0	0		C	117665266	C	C	117665266	3	2	19	1	0	0	0	0	1	0	0	0	10560	1696	59	3	746	3	NOS1	12	117665266	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	61906	117665266	16186629	2027	15540											
VSIG10	54621	broad.mit.edu	37	chr12	118506221	118506221	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcccatctgttctatgtTcccattcaccaaggcggtca	8	14	6	13	1	4	0	2	0	2	0	6	0	6	0	3	2	0	2	3	2	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:118506221T>C	uc001tws.2	-	8	1862	c.1528A>G	c.(1528-1530)AAC>GAC	p.N510D		NM_019086	NP_061959	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	510	Cytoplasmic (Potential).					integral to membrane					0						TGTTCTATGTTCCCATTCACC	0.403													44	135					0	0	0.01441	0	0		C	118506221	C	C	118506221	3	2	19	1	0	0	0	0	1	0	0	0	17249	1783	62	3	102	3	VSIG10	12	118506221	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	840955	118506221	15345674	2028	15541											
HNF1A	6927	broad.mit.edu	37	chr12	121438866	121438866	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccttgtttgcctctgcAgtgtcctccagcagcctggt	4	12	11	14	0	1	0	0	0	1	0	3	0	3	0	5	1	5	4	5	1	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:121438866A>G	uc001tzg.2	+	10	1792	c.1769_splice	c.e10-2	p.V590_splice	HNF1A_uc010szn.1_Splice_Site_p.V597_splice	NM_000545	NP_000536	P20823	HNF1A_HUMAN	hepatic nuclear factor-1-alpha						glucose homeostasis|glucose import|insulin secretion|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|renal glucose absorption	cytoplasm|nucleus|protein complex	DNA binding|protein dimerization activity|protein heterodimerization activity|protein homodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			liver(92)|large_intestine(15)|endometrium(6)|breast(2)|lung(1)	116	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TTGCCTCTGCAGTGTCCTCCA	0.622									Hepatic_Adenoma_Familial_Clustering_of				20	46					0	0	0.012319	0	0		G	121438866	G	G	121438866	5	3	19	1	0	0	0	0	0	0	1	0	7267	202	7	3	1805	3	HNF1A	12	121438866	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2932645	121438866	12413029	2029	15542											
KDM2B	84678	broad.mit.edu	37	chr12	121958857	121958857	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgtgcaggatgtttccGccgaacaccaaagagtctac	12	8	10	11	2	1	1	0	0	1	1	2	3	2	2	3	1	4	3	3	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:121958857G>A	uc001uat.2	-	9	1082	c.978C>T	c.(976-978)GGC>GGT	p.G326G	KDM2B_uc001uas.2_Silent_p.G295G|KDM2B_uc001uau.2_Silent_p.G209G|KDM2B_uc001uav.3_Intron	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	326	JmjC.				embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						GGATGTTTCCGCCGAACACCA	0.612													20	41					0	0	0.003954	0	0		A	121958857	A	A	121958857	2	1	19	1	0	0	0	0	0	0	0	1	8141	1074	38	1		1	KDM2B	12	121958857	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	519991	121958857	11893038	2030	15543											
DIABLO	56616	broad.mit.edu	37	chr12	122702813	122702813	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttaagaggagacatacCttagtatattcagtaatagc	16	11	9	5	0	1	3	1	0	0	3	1	4	1	3	1	1	2	3	1	1	7	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:122702813C>A	uc010tab.1	-	4	1120	c.315G>T	c.(313-315)AAG>AAT	p.K105N	DIABLO_uc010taa.1_Missense_Mutation_p.K52N|DIABLO_uc010tac.1_Intron|DIABLO_uc010tad.1_Intron|VPS33A_uc001ucc.2_RNA	NM_019887	NP_063940	Q9NR28	DBLOH_HUMAN	diablo isoform 1 precursor	105				Missing (in Ref. 2; BAB71568).	activation of caspase activity by cytochrome c|induction of apoptosis via death domain receptors	CD40 receptor complex|cytosol|internal side of plasma membrane|mitochondrial intermembrane space	protein binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000302)|Epithelial(86;0.00051)|BRCA - Breast invasive adenocarcinoma(302;0.223)		GGAGACATACCTTAGTATATT	0.264													38	91					3.54561e-26	3.79142e-26	0.009718	1	0		A	122702813	A	A	122702813	3	1	19	1	0	0	0	0	1	0	0	0	4523	695	24	5	420	5	DIABLO	12	122702813	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	743956	122702813	11149082	2031	15544											
CLIP1	6249	broad.mit.edu	37	chr12	122812630	122812631	+	Frame_Shift_Ins	INS	-	T	T																															taggatttcttcatgcttggINStttttgtctcagaagtggct																								rs145767151		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:122812630_122812631insT	uc001ucg.1	-	16	3218_3219	c.3112_3113insA	c.(3112-3114)ACCfs	p.T1038fs	CLIP1_uc001uch.1_Frame_Shift_Ins_p.T1027fs|CLIP1_uc001uci.1_Frame_Shift_Ins_p.T992fs|CLIP1_uc001ucj.1_Frame_Shift_Ins_p.T613fs	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	1038	Potential.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		TTCATGCTTGGTTTTTGTCTCA	0.525													91	153	---	---	---	---						.	T	122812631	T	T	122812630	7	5	19	1	0	1	1	0	0	0	0	0	3535	1261	44	0	1243	0	CLIP1	12	122812630	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	109817	122812630	11039265	2032	15545											
VPS37B	79720	broad.mit.edu	37	chr12	123351983	123351983	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaggtgccagttcgggcaGcctggggggcagcggggcca	5	5	21	10	2	0	0	0	0	0	0	1	0	0	0	3	8	3	4	3	8	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:123351983G>A	uc001udl.2	-	4	641	c.538C>T	c.(538-540)CTG>TTG	p.L180L		NM_024667	NP_078943	Q9H9H4	VP37B_HUMAN	vacuolar protein sorting 37B	180	Pro-rich.				cellular membrane organization|endosome transport|protein transport	late endosome membrane					0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.08e-05)|Epithelial(86;0.000197)|BRCA - Breast invasive adenocarcinoma(302;0.205)		AGTTCGGGCAGCCTGGGGGGC	0.692													8	111					0	0	0.004482	0	0		A	123351983	A	A	123351983	2	1	19	1	0	0	0	0	0	0	0	1	17232	962	34	2		2	VPS37B	12	123351983	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	539353	123351983	10499912	2033	15546											
EIF2B1	1967	broad.mit.edu	37	chr12	124106441	124106441	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgaggtcttgtccagtctgCgcgaccttgagagtgtctgc	5	13	13	10	2	3	2	0	2	3	1	4	4	4	2	2	1	2	0	2	1	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:124106441C>T	uc001ufm.2	-	9	923	c.780G>A	c.(778-780)GCG>GCA	p.A260A	EIF2B1_uc001ufn.2_Silent_p.A258A	NM_001414	NP_001405	Q14232	EI2BA_HUMAN	eukaryotic translation initiation factor 2B,	260					cellular response to stimulus|oligodendrocyte development|regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex|membrane fraction|plasma membrane	protein binding|translation initiation factor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.67e-05)|Epithelial(86;0.000353)|all cancers(50;0.00489)		GTCCAGTCTGCGCGACCTTGA	0.522													4	40					0	0	0.000602	0	0		T	124106441	T	T	124106441	2	4	19	1	0	0	0	0	0	0	0	1	5006	755	27	1		1	EIF2B1	12	124106441	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	754458	124106441	9745454	2034	15547											
ATP6V0A2	23545	broad.mit.edu	37	chr12	124228846	124228846	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttgccctcttgttggtgTtaaatgaaaatcatcccaga	11	15	7	8	0	2	2	1	1	1	1	3	2	3	2	2	1	1	2	2	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:124228846T>C	uc001ufr.2	+	11	1536	c.1288T>C	c.(1288-1290)TTA>CTA	p.L430L		NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	430	Lumenal (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		CTTGTTGGTGTTAAATGAAAA	0.393													3	179					0	0	0.004672	0	0		C	124228846	C	C	124228846	2	2	19	1	0	0	0	0	0	0	0	1	1170	1722	60	3		3	ATP6V0A2	12	124228846	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	122405	124228846	9623049	2035	15548											
DNAH10	196385	broad.mit.edu	37	chr12	124274609	124274609	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgacctttgaccccttcAgcatcaagtcctcccagttc	8	11	5	17	0	2	2	2	2	0	0	5	2	4	2	6	0	1	2	6	0	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:124274609A>G	uc001uft.3	+	11	1598	c.1573A>G	c.(1573-1575)AGC>GGC	p.S525G	DNAH10_uc010tav.1_Missense_Mutation_p.S10G|DNAH10_uc010taw.1_Missense_Mutation_p.S10G	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	525	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TGACCCCTTCAGCATCAAGTC	0.507													14	264					0	0	0.00245	0	0		G	124274609	G	G	124274609	3	3	19	1	0	0	0	0	1	0	0	0	4604	188	7	3	1615	3	DNAH10	12	124274609	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	45763	124274609	9577286	2036	15549											
DNAH10	196385	broad.mit.edu	37	chr12	124283835	124283835	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggtaggacaatgaaggagTatgaagacagaaagtatgag	18	7	14	2	0	0	5	0	3	0	2	0	7	0	7	0	3	0	3	0	3	8	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:124283835T>C	uc001uft.3	+	13	1877	c.1852T>C	c.(1852-1854)TAT>CAT	p.Y618H	DNAH10_uc010tav.1_Missense_Mutation_p.Y160H|DNAH10_uc010taw.1_Missense_Mutation_p.Y103H	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	618	Stem (By similarity).|Potential.				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		AATGAAGGAGTATGAAGACAG	0.448													7	76					0	0	0.00308	0	0		C	124283835	C	C	124283835	3	2	19	1	0	0	0	0	1	0	0	0	4604	1638	57	3	1902	3	DNAH10	12	124283835	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	9226	124283835	9568060	2037	15550											
CCDC92	80212	broad.mit.edu	37	chr12	124422058	124422058	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccagcacggggctcccTgacgggctggcatctgaggt	5	7	16	13	2	1	2	0	2	1	0	2	2	2	2	2	6	1	4	2	6	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:124422058T>C	uc001ufw.1	-	5	690	c.543A>G	c.(541-543)TCA>TCG	p.S181S	CCDC92_uc001ufv.1_Silent_p.S164S|CCDC92_uc001ufx.1_Silent_p.S181S|CCDC92_uc001ufy.1_Silent_p.S164S	NM_025140	NP_079416	Q53HC0	CCD92_HUMAN	coiled-coil domain containing 92	181											0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.0002)|OV - Ovarian serous cystadenocarcinoma(86;0.000222)|all cancers(50;0.00129)|BRCA - Breast invasive adenocarcinoma(302;0.242)		CGGGGCTCCCTGACGGGCTGG	0.657													5	66					0	0	0.00308	0	0		C	124422058	C	C	124422058	2	2	19	1	0	0	0	0	0	0	0	1	2874	1567	55	3		3	CCDC92	12	124422058	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	138223	124422058	9429837	2038	15551											
DHX37	57647	broad.mit.edu	37	chr12	125461903	125461903	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacctgctgaagcctgctTcatagagaaactgaggcacc	11	8	9	13	0	1	3	1	2	0	1	1	4	1	3	4	1	5	3	4	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:125461903T>C	uc001ugy.2	-	5	971	c.872A>G	c.(871-873)GAA>GGA	p.E291G		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	291	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		GAAGCCTGCTTCATAGAGAAA	0.522													85	196					0	0	0.01441	0	0		C	125461903	C	C	125461903	3	2	19	1	0	0	0	0	1	0	0	0	4516	1783	62	3	2693	3	DHX37	12	125461903	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1039845	125461903	8389992	2039	15552											
DHX37	57647	broad.mit.edu	37	chr12	125473501	125473501	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggggggcggctcgggggggCccttcgagggtccggggccc	1	4	23	13	5	0	0	0	0	0	0	3	1	1	0	3	10	0	1	3	10	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:125473501C>G	uc001ugy.2	-	1	167	c.68G>C	c.(67-69)GGC>GCC	p.G23A		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	23							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		CTCGGGGGGGCCCTTCGAGGG	0.726													6	35					0	0	0.004482	0	0		G	125473501	G	G	125473501	3	3	19	1	0	0	0	0	1	0	0	0	4516	739	26	5	3513	5	DHX37	12	125473501	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	11598	125473501	8378394	2040	15553											
TMEM132B	114795	broad.mit.edu	37	chr12	126138514	126138514	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagcagtccaggaatggtTccaccgtggcacacctgttg	9	8	13	11	1	0	1	0	0	0	1	2	3	2	2	4	3	1	4	4	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:126138514T>C	uc001uhe.1	+	9	2503	c.2495T>C	c.(2494-2496)TTC>TCC	p.F832S	TMEM132B_uc001uhf.1_Missense_Mutation_p.F344S	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	832	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		CAGGAATGGTTCCACCGTGGC	0.488													5	85					0	0	0.001168	0	0		C	126138514	C	C	126138514	3	2	19	1	0	0	0	0	1	0	0	0	16071	1783	62	3	2529	3	TMEM132B	12	126138514	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	665013	126138514	7713381	2041	15554											
TMEM132D	121256	broad.mit.edu	37	chr12	129566529	129566529	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtactgcagggtgcagccGcggcccctccgctcatcatc	5	8	12	16	3	2	0	2	0	0	0	4	0	3	0	4	3	4	4	4	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:129566529G>A	uc009zyl.1	-	7	2026	c.1698C>T	c.(1696-1698)CGC>CGT	p.R566R	TMEM132D_uc001uia.2_Silent_p.R104R	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	566	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GGGTGCAGCCGCGGCCCCTCC	0.637													16	66					0	0	0.007413	0	0		A	129566529	A	A	129566529	2	1	19	1	0	0	0	0	0	0	0	1	16072	1074	38	1		1	TMEM132D	12	129566529	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3428015	129566529	4285366	2042	15555											
ULK1	8408	broad.mit.edu	37	chr12	132400526	132400526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgacttgcacgtcgtccGccccaagctgcccaaacccc	7	7	8	19	3	1	1	0	1	1	0	3	1	2	1	6	0	4	2	6	0	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:132400526G>A	uc001uje.2	+	19	1968	c.1700G>A	c.(1699-1701)CGC>CAC	p.R567H		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	567					autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		CACGTCGTCCGCCCCAAGCTG	0.706													20	42					0	0	0.00333	0	0		A	132400526	A	A	132400526	3	1	19	1	0	0	0	0	1	0	0	0	17001	1087	38	1	1774	1	ULK1	12	132400526	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2833997	132400526	1451369	2043	15556											
PUS1	80324	broad.mit.edu	37	chr12	132426240	132426240	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagagcgtgctggagcgCagctggggcacagagaaggt	9	5	18	9	2	0	2	0	1	0	2	0	5	0	3	1	4	4	4	1	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:132426240C>T	uc001ujf.2	+	5	1427	c.948C>T	c.(946-948)CGC>CGT	p.R316R	PUS1_uc001ujg.2_Silent_p.R288R|PUS1_uc001ujh.2_Silent_p.R288R|PUS1_uc001uji.2_Silent_p.R263R	NM_025215	NP_079491	Q9Y606	TRUA_HUMAN	pseudouridine synthase 1 isoform 1	316						mitochondrion	pseudouridine synthase activity|pseudouridylate synthase activity|RNA binding			breast(1)|central_nervous_system(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.05e-08)|Epithelial(86;2.51e-07)|all cancers(50;2.94e-07)		TGCTGGAGCGCAGCTGGGGCA	0.622													10	194					0	0	0.006214	0	0		T	132426240	T	T	132426240	2	4	19	1	0	0	0	0	0	0	0	1	12855	697	25	2		2	PUS1	12	132426240	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	25714	132426240	1425655	2044	15557											
DDX51	317781	broad.mit.edu	37	chr12	132626443	132626443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggccagagacttctgtcccGtaaccagggagactctcaga	10	8	11	12	1	2	3	1	0	2	3	4	5	3	3	3	2	1	1	3	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:132626443G>A	uc001ujy.3	-	6	986	c.947C>T	c.(946-948)ACG>ATG	p.T316M	NOC4L_uc001ujz.1_5'Flank	NM_175066	NP_778236	Q8N8A6	DDX51_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 51	316	Helicase ATP-binding.				rRNA processing	nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			lung(1)|pancreas(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.241)		OV - Ovarian serous cystadenocarcinoma(86;7.59e-08)|Epithelial(86;3.62e-07)|all cancers(50;2.13e-05)		CTTCTGTCCCGTAACCAGGGA	0.562													5	59					0	0	0.001168	0	0		A	132626443	A	A	132626443	3	1	19	1	0	0	0	0	1	0	0	0	4372	1145	40	1	1093	1	DDX51	12	132626443	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	200203	132626443	1225452	2045	15558											
GOLGA3	2802	broad.mit.edu	37	chr12	133350799	133350799	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccttgctcacggcgggCggtggtctcagcagctcctc	3	9	14	15	3	2	0	2	0	1	0	6	0	4	0	2	5	3	4	2	5	0	1	rs148152813	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:133350799C>T	uc001ukz.1	-	23	4810	c.4251G>A	c.(4249-4251)CCG>CCA	p.P1417P		NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1417	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		TCACGGCGGGCGGTGGTCTCA	0.607													12	34					0	0	0.013537	0	0		T	133350799	T	T	133350799	2	4	19	1	0	0	0	0	0	0	0	1	6569	755	27	1		1	GOLGA3	12	133350799	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	724356	133350799	501096	2046	15559											
GOLGA3	2802	broad.mit.edu	37	chr12	133365855	133365855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctttggaggtggcgtcgcGccggtaggcctccaccatca	5	9	14	13	4	2	0	1	0	1	0	4	1	3	1	4	5	0	1	4	5	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:133365855G>A	uc001ukz.1	-	13	3128	c.2569C>T	c.(2569-2571)CGC>TGC	p.R857C	GOLGA3_uc001ula.1_Missense_Mutation_p.R857C|GOLGA3_uc001ulb.2_Missense_Mutation_p.R857C	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	857	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GTGGCGTCGCGCCGGTAGGCC	0.647													10	27					0	0	0.006214	0	0		A	133365855	A	A	133365855	3	1	19	1	0	0	0	0	1	0	0	0	6569	1087	38	1	2113	1	GOLGA3	12	133365855	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	15056	133365855	486040	2047	15560											
GOLGA3	2802	broad.mit.edu	37	chr12	133374952	133374952	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgcagctgtgccgcgaTgcgccccttctccttcatgg	3	10	11	17	3	2	0	1	0	1	0	3	1	2	0	5	1	4	2	5	1	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:133374952T>C	uc001ukz.1	-	9	2471	c.1912A>G	c.(1912-1914)ATC>GTC	p.I638V	GOLGA3_uc001ula.1_Missense_Mutation_p.I638V|GOLGA3_uc001ulb.2_Missense_Mutation_p.I638V	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	638	Gln-rich.|Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		TGTGCCGCGATGCGCCCCTTC	0.587													48	91					0	0	0.01441	0	0		C	133374952	C	C	133374952	3	2	19	1	0	0	0	0	1	0	0	0	6569	1464	51	3	2786	3	GOLGA3	12	133374952	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	9097	133374952	476943	2048	15561											
ZNF268	10795	broad.mit.edu	37	chr12	133768141	133768141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtggcagctgctagacccaGcacagaagtgcctgtacagg	11	6	13	11	0	0	2	0	0	0	2	0	2	0	2	2	2	5	5	2	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:133768141G>A	uc010tcf.1	+	4	631	c.301G>A	c.(301-303)GCA>ACA	p.A101T	ZNF268_uc010tbv.1_5'UTR|ZNF268_uc010tbw.1_Intron|ZNF268_uc010tbx.1_Intron|ZNF268_uc010tby.1_Intron|ZNF268_uc010tbz.1_5'UTR|ZNF268_uc010tca.1_5'UTR|ZNF268_uc010tcb.1_Intron|ZNF268_uc010tcc.1_Intron|ZNF268_uc010tcd.1_5'UTR|ZNF268_uc010tce.1_Intron|ZNF268_uc010tcg.1_5'UTR|ZNF268_uc010tch.1_Missense_Mutation_p.A101T	NM_003415	NP_003406	Q14587	ZN268_HUMAN	zinc finger protein 268 isoform a	101	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.000215)|all_epithelial(31;0.096)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		GCTAGACCCAGCACAGAAGTG	0.488													15	41					0	0	0.004007	0	0		A	133768141	A	A	133768141	3	1	19	1	0	0	0	0	1	0	0	0	17832	971	34	2	311	2	ZNF268	12	133768141	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	393189	133768141	83754	2049	15562											
GJB6	10804	broad.mit.edu	37	chr13	20797216	20797216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagatgctgctggtgtacGtccaccacagcgacccctct	10	8	9	14	2	1	1	0	0	1	1	2	2	2	1	4	1	4	3	4	1	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:20797216G>A	uc001umz.3	-	3	957	c.404C>T	c.(403-405)ACG>ATG	p.T135M	GJB6_uc001unc.3_Missense_Mutation_p.T135M|GJB6_uc001una.3_Missense_Mutation_p.T135M|GJB6_uc001und.3_Missense_Mutation_p.T135M|GJB6_uc001unb.3_Missense_Mutation_p.T135M	NM_006783	NP_006774	O95452	CXB6_HUMAN	gap junction protein, beta 6	135	Helical; (Potential).				cell communication|sensory perception of sound	connexon complex|integral to membrane|intracellular membrane-bounded organelle				ovary(1)	1		all_cancers(29;2.04e-22)|all_epithelial(30;1.19e-19)|all_lung(29;2.27e-18)|Lung SC(185;0.0257)|Ovarian(182;0.0822)		all cancers(112;2.17e-05)|Epithelial(112;0.00075)|OV - Ovarian serous cystadenocarcinoma(117;0.00978)|Lung(94;0.0238)|GBM - Glioblastoma multiforme(144;0.0323)|LUSC - Lung squamous cell carcinoma(192;0.0744)		GCTGGTGTACGTCCACCACAG	0.458													31	67					0	0	0.010818	0	0		A	20797216	A	A	20797216	3	1	19	1	0	0	0	0	1	0	0	0	6427	1145	40	1	385	1	GJB6	13	20797216	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08		20797216	94372662	2050	15563											
LATS2	26524	broad.mit.edu	37	chr13	21557671	21557671	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagtttgaccacccactcaTtgtctgcctcggccaggatg	8	10	10	13	1	2	2	1	1	1	1	3	3	2	3	4	2	1	1	4	2	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:21557671T>C	uc009zzs.2	-	5	2539	c.2174A>G	c.(2173-2175)AAT>AGT	p.N725S	LATS2_uc001unr.3_Missense_Mutation_p.N725S	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	725	Protein kinase.|ATP (By similarity).				cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		CACCCACTCATTGTCTGCCTC	0.542													11	162					0	0	0.013537	0	0		C	21557671	C	C	21557671	3	2	19	1	0	0	0	0	1	0	0	0	8663	1493	52	3	1108	3	LATS2	13	21557671	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	760455	21557671	93612207	2051	15564											
SGCG	6445	broad.mit.edu	37	chr13	23853591	23853591	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatgagaaggaagttgtggTtggtacagataaacttcgag	14	10	14	3	1	0	3	0	1	0	3	1	6	0	4	0	3	2	3	0	3	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:23853591T>C	uc001uom.2	+	5	634	c.479T>C	c.(478-480)GTT>GCT	p.V160A	SGCG_uc009zzv.2_Missense_Mutation_p.V160A|SGCG_uc009zzw.2_Missense_Mutation_p.V160A	NM_000231	NP_000222	Q13326	SGCG_HUMAN	gamma sarcoglycan	160	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0		all_cancers(29;4.34e-23)|all_epithelial(30;4.4e-19)|all_lung(29;2.45e-18)|Lung SC(185;0.0228)|Breast(139;0.188)		all cancers(112;0.00255)|Epithelial(112;0.0129)|OV - Ovarian serous cystadenocarcinoma(117;0.0365)|Lung(94;0.205)		GAAGTTGTGGTTGGTACAGAT	0.398													16	25					0	0	0.00499	0	0		C	23853591	C	C	23853591	3	2	19	1	0	0	0	0	1	0	0	0	14228	1725	60	3	493	3	SGCG	13	23853591	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2295920	23853591	91316287	2052	15565											
SACS	26278	broad.mit.edu	37	chr13	23906235	23906235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctacttttataatgtggcGcatcgtcaaacactaagatg	12	14	7	8	2	2	1	1	0	1	1	3	1	2	1	0	1	2	1	0	1	5	6	rs142926244		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:23906235G>A	uc001uon.2	-	10	12369	c.11780C>T	c.(11779-11781)GCG>GTG	p.A3927V	SACS_uc001uoo.2_Missense_Mutation_p.A3780V|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3927					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		ATAATGTGGCGCATCGTCAAA	0.443													60	134					0	0	0.01441	0	0		A	23906235	A	A	23906235	3	1	19	1	0	0	0	0	1	0	0	0	13829	1087	38	1	1963	1	SACS	13	23906235	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	52644	23906235	91263643	2053	15566											
SACS	26278	broad.mit.edu	37	chr13	23914771	23914771	+	Missense_Mutation	SNP	C	T	T																															tcttaaggagtgaagaatatCtggtgaggtaaaaactgagg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:23914771C>T	uc001uon.2	-	10	3833	c.3244G>A	c.(3244-3246)GAT>AAT	p.D1082N	SACS_uc001uoo.2_Missense_Mutation_p.D935N|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1082					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TGAAGAATATCTGGTGAGGTA	0.383													97	186					0	0	0.01441	0	0		T	23914771	T	T	23914771	3	4	19	1	0	0	0	0	1	0	0	0	13829	913	32	4	10499	4	SACS	13	23914771	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	8536	23914771	91255107	2054	15567	24	2									
SACS	26278	broad.mit.edu	37	chr13	23914780	23914780	+	Missense_Mutation	SNP	T	C	C																															gtgaagaatatctggtgaggTaaaaactgagggtgggaaat																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:23914780T>C	uc001uon.2	-	10	3824	c.3235A>G	c.(3235-3237)ACC>GCC	p.T1079A	SACS_uc001uoo.2_Missense_Mutation_p.T932A|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1079					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TCTGGTGAGGTAAAAACTGAG	0.383													9	267					0	0	0.004482	0	0		C	23914780	C	C	23914780	3	2	19	1	0	0	0	0	1	0	0	0	13829	1638	57	3	10508	3	SACS	13	23914780	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	9	23914780	91255098	2055	15568	24	2									
SPATA13	221178	broad.mit.edu	37	chr13	24823711	24823711	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagatggggctctgggagaCggccaaggcctcggccattc	7	6	17	11	2	1	2	0	0	1	2	3	4	1	2	3	7	0	1	3	7	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:24823711C>T	uc001upg.1	+	2	282	c.-125C>T	c.(-127--123)GACGG>GATGG		SPATA13_uc001upd.1_Missense_Mutation_p.R584W|C1QTNF9_uc001upe.2_Intron|SPATA13_uc010tcy.1_5'Flank|SPATA13_uc010tcz.1_5'Flank	NM_153023	NP_694568	Q96N96	SPT13_HUMAN	spermatogenesis associated 13						cell migration|filopodium assembly|lamellipodium assembly|regulation of cell migration|regulation of Rho protein signal transduction	cytoplasm|filopodium|lamellipodium|ruffle membrane	protein binding|Rac guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		all_cancers(29;4.05e-15)|all_lung(29;2.77e-14)|all_epithelial(30;7.77e-13)|Lung SC(185;0.0279)		all cancers(112;0.00616)|Epithelial(112;0.0195)|OV - Ovarian serous cystadenocarcinoma(117;0.0705)|Lung(94;0.231)		CTCTGGGAGACGGCCAAGGCC	0.602													15	41					0	0	0.010504	0	0		T	24823711	T	T	24823711	1	4	19	1	0	0	0	0	0	0	0	0	15025	527	19	1		1	SPATA13	13	24823711	Translation_Start_Site	SNP	C	TCGA-BR-4361-01A-01D-1158-08	908931	24823711	90346167	2056	15569											
PARP4	143	broad.mit.edu	37	chr13	25075869	25075869	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctcttttccctgatagatTtccatataaaatctgggttt	9	18	6	8	0	2	2	0	1	2	1	5	2	4	2	2	1	0	1	2	1	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:25075869T>C	uc001upl.2	-	3	342	c.236A>G	c.(235-237)AAA>AGA	p.K79R	PARP4_uc010tdc.1_Missense_Mutation_p.K79R	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	79	BRCT.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		CCTGATAGATTTCCATATAAA	0.393													9	168					0	0	0.004482	0	0		C	25075869	C	C	25075869	3	2	19	1	0	0	0	0	1	0	0	0	11482	1841	64	3	5066	3	PARP4	13	25075869	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	252158	25075869	90094009	2057	15570											
ATP12A	479	broad.mit.edu	37	chr13	25264840	25264840	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaagaacatctgcttctaTtccacaacgtgtctggaagg	13	10	8	10	1	3	1	0	0	3	1	4	2	4	2	1	2	3	1	1	2	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:25264840T>C	uc001upp.2	+	7	967	c.780T>C	c.(778-780)TAT>TAC	p.Y260Y	ATP12A_uc010aaa.2_Silent_p.Y260Y	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	260	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	TCTGCTTCTATTCCACAACGT	0.547													19	372					0	0	0.012319	0	0		C	25264840	C	C	25264840	2	2	19	1	0	0	0	0	0	0	0	1	1123	1500	52	3		3	ATP12A	13	25264840	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	188971	25264840	89905038	2058	15571											
RNF17	56163	broad.mit.edu	37	chr13	25399866	25399866	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttcaagatcaagcctgtgTagctaaatttgaagatggaa	15	11	10	5	0	2	3	2	1	0	2	2	4	2	4	1	1	2	3	1	1	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:25399866T>C	uc001upr.2	+	16	2242	c.2201T>C	c.(2200-2202)GTA>GCA	p.V734A	RNF17_uc010tdd.1_Missense_Mutation_p.V593A|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.V734A|RNF17_uc001ups.2_Missense_Mutation_p.V673A	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	734	Tudor 1.				multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		CAAGCCTGTGTAGCTAAATTT	0.358													4	108					0	0	0.009096	0	0		C	25399866	C	C	25399866	3	2	19	1	0	0	0	0	1	0	0	0	13486	1638	57	3	2263	3	RNF17	13	25399866	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	135026	25399866	89770012	2059	15572											
CENPJ	55835	broad.mit.edu	37	chr13	25480479	25480479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattttccttttccttttctCgttcccaagtctctaacttt	6	21	2	12	1	2	0	0	0	2	0	7	0	5	0	3	0	1	1	3	0	3	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:25480479C>T	uc001upt.3	-	7	1950	c.1697G>A	c.(1696-1698)CGA>CAA	p.R566Q	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA|CENPJ_uc001upu.2_5'Flank	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	566					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		TTCCTTTTCTCGTTCCCAAGT	0.383													32	59					0	0	0.010818	0	0		T	25480479	T	T	25480479	3	4	19	1	0	0	0	0	1	0	0	0	3237	884	31	1	2363	1	CENPJ	13	25480479	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	80613	25480479	89689399	2060	15573											
PABPC3	5042	broad.mit.edu	37	chr13	25670497	25670497	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccagcggctcctccaactAcgcgtatgtgaacttccagc	9	8	8	16	3	0	1	0	1	0	0	3	1	3	1	4	1	5	2	4	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:25670497A>G	uc001upy.2	+	1	222	c.161A>G	c.(160-162)TAC>TGC	p.Y54C		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	54	RRM 1.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		TCCTCCAACTACGCGTATGTG	0.547													23	65					0	0	0.00333	0	0		G	25670497	G	G	25670497	3	3	19	1	0	0	0	0	1	0	0	0	11384	391	14	3	163	3	PABPC3	13	25670497	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	190018	25670497	89499381	2061	15574											
FAM123A	219287	broad.mit.edu	37	chr13	25745036	25745036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgcgcgcggctctgggcGtctcctccttgacgcactcc	2	9	12	18	6	2	1	0	1	2	0	6	1	4	1	3	2	0	3	3	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:25745036G>A	uc001uqb.2	-	1	822	c.722C>T	c.(721-723)ACG>ATG	p.T241M	FAM123A_uc001uqa.2_Missense_Mutation_p.T241M|FAM123A_uc001uqc.2_Missense_Mutation_p.T241M	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	241										ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		GGCTCTGGGCGTCTCCTCCTT	0.627													7	13					0	0	0.010729	0	0		A	25745036	A	A	25745036	3	1	19	1	0	0	0	0	1	0	0	0	5433	1145	40	1	1297	1	FAM123A	13	25745036	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	74539	25745036	89424842	2062	15575											
GPR12	2835	broad.mit.edu	37	chr13	27333371	27333371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaccgagaggatggccgcGttgttcttggtgagcggtct	6	10	16	9	4	2	2	0	1	2	1	2	5	2	3	2	4	1	2	2	4	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:27333371G>A	uc010aal.2	-	2	816	c.594C>T	c.(592-594)AAC>AAT	p.N198N	GPR12_uc010tdl.1_Silent_p.N39N	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	198	Extracellular (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		GGATGGCCGCGTTGTTCTTGG	0.587													16	58					0	0	0.007413	0	0		A	27333371	A	A	27333371	2	1	19	1	0	0	0	0	0	0	0	1	6650	1136	40	1		1	GPR12	13	27333371	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1588335	27333371	87836507	2063	15576											
LNX2	222484	broad.mit.edu	37	chr13	28124542	28124542	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaaggctgattggtgtggTtctcttcatatccaccaacg	11	12	9	9	1	2	1	1	1	1	0	4	1	3	1	2	3	1	2	2	3	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:28124542T>C	uc001url.3	-	9	2174	c.1865A>G	c.(1864-1866)AAC>AGC	p.N622S		NM_153371	NP_699202	Q8N448	LNX2_HUMAN	ligand of numb-protein X 2	622	PDZ 4.						zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	6		Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.113)|all cancers(112;0.127)|Epithelial(112;0.248)		ATTGGTGTGGTTCTCTTCATA	0.368													27	67					0	0	0.005443	0	0		C	28124542	C	C	28124542	3	2	19	1	0	0	0	0	1	0	0	0	8883	1725	60	3	215	3	LNX2	13	28124542	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	791171	28124542	87045336	2064	15577											
GSX1	219409	broad.mit.edu	37	chr13	28367838	28367838	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgcatcgagatcgcgacctAcctgaatctgtccgagaagc	10	8	10	13	5	1	3	0	1	1	2	5	6	2	3	3	0	2	1	3	0	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:28367838A>G	uc001urr.1	+	2	596	c.548A>G	c.(547-549)TAC>TGC	p.Y183C		NM_145657	NP_663632	Q9H4S2	GSX1_HUMAN	GS homeobox 1	183	Homeobox.				positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung SC(185;0.0161)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0402)|all cancers(112;0.0404)|OV - Ovarian serous cystadenocarcinoma(117;0.197)		ATCGCGACCTACCTGAATCTG	0.527													18	76					0	0	0.012319	0	0		G	28367838	G	G	28367838	3	3	19	1	0	0	0	0	1	0	0	0	6865	391	14	3	554	3	GSX1	13	28367838	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	243296	28367838	86802040	2065	15578											
PAN3	255967	broad.mit.edu	37	chr13	28862160	28862160	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtcagagactggagaccgTtatctgttgaaactctttag	10	13	11	7	1	3	3	1	1	2	2	3	5	3	3	1	2	1	2	1	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:28862160T>C	uc001urz.2	+	17	1994	c.1986T>C	c.(1984-1986)CGT>CGC	p.R662R	PAN3_uc001ury.2_Silent_p.R496R|PAN3_uc001urx.2_Silent_p.R608R	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	808	Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		CTGGAGACCGTTATCTGTTGA	0.438													5	76					0	0	0.000602	0	0		C	28862160	C	C	28862160	2	2	19	1	0	0	0	0	0	0	0	1	11434	1712	60	3		3	PAN3	13	28862160	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	494322	28862160	86307718	2066	15579											
USPL1	10208	broad.mit.edu	37	chr13	31205398	31205398	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccactggagagcaaatgtAcatcatttccccaggcttta	11	11	8	11	0	1	1	1	0	0	1	2	2	2	1	3	2	3	3	3	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:31205398A>G	uc001utc.2	+	4	1087	c.655A>G	c.(655-657)ACA>GCA	p.T219A	USPL1_uc001utb.2_Missense_Mutation_p.T38A|USPL1_uc001utd.2_Intron|USPL1_uc001ute.1_5'Flank	NM_005800	NP_005791	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	219					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			pancreas(2)|skin(1)	3		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0306)|Epithelial(112;0.131)|OV - Ovarian serous cystadenocarcinoma(117;0.134)		GAGCAAATGTACATCATTTCC	0.438													8	189					0	0	0.004482	0	0		G	31205398	G	G	31205398	3	3	19	1	0	0	0	0	1	0	0	0	17118	391	14	3	665	3	USPL1	13	31205398	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2343238	31205398	83964480	2067	15580											
HSPH1	10808	broad.mit.edu	37	chr13	31717998	31717998	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggggagactgtgaggtttgTtgagcatcagtttgtacctg	7	13	16	5	0	1	3	1	2	0	1	1	4	1	3	1	3	2	5	1	3	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:31717998T>C	uc001utj.2	-	12	2045	c.1647A>G	c.(1645-1647)CAA>CAG	p.Q549Q	HSPH1_uc001utk.2_Intron|HSPH1_uc010aaw.2_Silent_p.Q508Q|HSPH1_uc001utl.2_Silent_p.Q551Q|HSPH1_uc010tds.1_Silent_p.Q473Q	NM_006644	NP_006635	Q92598	HS105_HUMAN	heat shock 105kD	549					positive regulation of MHC class I biosynthetic process|positive regulation of NK T cell activation|response to unfolded protein	cytoplasm|extracellular region	ATP binding				0		Lung SC(185;0.0257)		all cancers(112;0.00385)|Epithelial(112;0.0328)|OV - Ovarian serous cystadenocarcinoma(117;0.0375)|GBM - Glioblastoma multiforme(144;0.125)		GTGAGGTTTGTTGAGCATCAG	0.443													9	148					0	0	0.008291	0	0		C	31717998	C	C	31717998	2	2	19	1	0	0	0	0	0	0	0	1	7447	1722	60	3		3	HSPH1	13	31717998	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	512600	31717998	83451880	2068	15581											
BRCA2	675	broad.mit.edu	37	chr13	32913347	32913347	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacctaagctcttaagtgatAatttatgtagacaaactgaa	16	12	6	7	0	1	3	0	2	1	1	1	3	1	3	1	0	2	2	1	0	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:32913347A>G	uc001uub.1	+	11	5082	c.4855A>G	c.(4855-4857)AAT>GAT	p.N1619D		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1619					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		CTTAAGTGATAATTTATGTAG	0.328			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			36	79					0	0	0.003271	0	0		G	32913347	G	G	32913347	3	3	19	1	0	0	0	0	1	0	0	0	1502	362	13	3	4893	3	BRCA2	13	32913347	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1195349	32913347	82256531	2069	15582											
BRCA2	675	broad.mit.edu	37	chr13	32929041	32929041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacagaatccaaattttaccGcacctggtcaagaatttctg	13	12	6	10	1	2	2	1	0	1	2	3	2	3	2	3	1	2	1	3	1	6	4	rs80358930		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:32929041G>A	uc001uub.1	+	14	7278	c.7051G>A	c.(7051-7053)GCA>ACA	p.A2351T		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2351	Interaction with FANCD2.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AAATTTTACCGCACCTGGTCA	0.333			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			34	73					0	0	0.004878	0	0		A	32929041	A	A	32929041	3	1	19	1	0	0	0	0	1	0	0	0	1502	1087	38	1	7101	1	BRCA2	13	32929041	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	15694	32929041	82240837	2070	15583											
NBEA	26960	broad.mit.edu	37	chr13	35733985	35733985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatttctgaaagagacttagCgtcatcaactaaggggctgg	12	11	11	7	1	3	2	2	1	1	1	3	3	3	2	0	3	2	1	0	3	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:35733985C>T	uc001uvb.2	+	23	3883	c.3677C>T	c.(3676-3678)GCG>GTG	p.A1226V	NBEA_uc010abi.2_5'Flank	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1226						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		AGAGACTTAGCGTCATCAACT	0.373													4	11					0	0	0.009096	0	0		T	35733985	T	T	35733985	3	4	19	1	0	0	0	0	1	0	0	0	10205	768	27	1	3763	1	NBEA	13	35733985	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2804944	35733985	79435893	2071	15584											
NBEA	26960	broad.mit.edu	37	chr13	35770145	35770145	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcctgaatggggcagaatTagaaacaagtacaggccctg	14	7	11	9	0	0	3	0	1	0	2	1	3	1	3	2	3	2	2	2	3	6	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:35770145T>C	uc001uvb.2	+	31	5278	c.5072T>C	c.(5071-5073)TTA>TCA	p.L1691S	NBEA_uc010abi.2_Missense_Mutation_p.L347S	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1691						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GGGGCAGAATTAGAAACAAGT	0.433													6	57					0	0	0.001168	0	0		C	35770145	C	C	35770145	3	2	19	1	0	0	0	0	1	0	0	0	10205	1764	61	3	5194	3	NBEA	13	35770145	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	36160	35770145	79399733	2072	15585											
NBEA	26960	broad.mit.edu	37	chr13	36125104	36125104	+	Frame_Shift_Del	DEL	A	-	-																															ttccctgatcaagcaacagtAaaaaaagttgtctatagctt																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:36125104delA	uc001uvb.2	+	43	6947	c.6741delA	c.(6739-6741)GTAfs	p.V2247fs	NBEA_uc010abi.2_Frame_Shift_Del_p.V903fs|NBEA_uc010tee.1_Frame_Shift_Del_p.V40fs|NBEA_uc010tef.1_Frame_Shift_Del_p.V40fs|NBEA_uc010teg.1_Frame_Shift_Del_p.V40fs	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2247						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		AAGCAACAGTAAAAAAAGTTG	0.378													19	39	---	---	---	---						.	-	36125104	-	-	36125104	7	5	19	1	0	1	0	1	0	0	0	0	10205	349	13	0	6911	0	NBEA	13	36125104	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	354959	36125104	79044774	2073	15586											
SMAD9	4093	broad.mit.edu	37	chr13	37453642	37453642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcatttgctgggctgccccGggcagctgagagccctctcc	4	8	13	16	2	1	1	0	1	1	1	2	2	1	1	4	2	4	5	4	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:37453642G>A	uc001uvw.2	-	2	528	c.185C>T	c.(184-186)CCG>CTG	p.P62L	SMAD9_uc001uvx.2_Missense_Mutation_p.P62L|SMAD9_uc010tep.1_5'UTR	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	62	MH1.				BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		GGGCTGCCCCGGGCAGCTGAG	0.602													45	99					0	0	0.01441	0	0		A	37453642	A	A	37453642	3	1	19	1	0	0	0	0	1	0	0	0	14789	1116	39	1	1242	1	SMAD9	13	37453642	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1328538	37453642	77716236	2074	15587											
EXOSC8	11340	broad.mit.edu	37	chr13	37577117	37577117	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctttagtgaagttgggaaaTactacagtaatctgtggagt	12	13	12	4	0	1	1	0	1	1	0	1	3	1	3	0	2	2	3	0	2	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:37577117T>A	uc001uwa.2	+	4	430	c.165T>A	c.(163-165)AAT>AAA	p.N55K	EXOSC8_uc001uvz.2_RNA|EXOSC8_uc001uwb.2_Missense_Mutation_p.N55K|EXOSC8_uc001uwc.2_RNA	NM_181503	NP_852480	Q96B26	EXOS8_HUMAN	exosome component 8	55					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	AU-rich element binding|identical protein binding			pancreas(1)	1		Lung NSC(96;6.57e-05)|Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.67e-07)|Epithelial(112;1.31e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00699)|BRCA - Breast invasive adenocarcinoma(63;0.0117)|GBM - Glioblastoma multiforme(144;0.0411)		AGTTGGGAAATACTACAGTAA	0.313													24	46					0	0	0.005443	0	0		A	37577117	A	A	37577117	3	1	19	1	0	0	0	0	1	0	0	0	5328	1403	49	5	179	5	EXOSC8	13	37577117	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	123475	37577117	77592761	2075	15588											
FAM48A	55578	broad.mit.edu	37	chr13	37583829	37583829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaaaattttggagtggttgGcgtgcctctcttcattttac	7	17	9	8	1	3	0	2	0	1	0	4	1	3	1	1	3	2	1	1	3	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:37583829G>A	uc001uwg.2	-	26	2568	c.2320C>T	c.(2320-2322)CCA>TCA	p.P774S	FAM48A_uc010abt.2_3'UTR|FAM48A_uc001uwh.2_3'UTR|FAM48A_uc001uwi.2_3'UTR|FAM48A_uc001uwj.2_3'UTR|FAM48A_uc001uwk.2_3'UTR|FAM48A_uc001uwd.2_3'UTR|FAM48A_uc001uwe.2_Missense_Mutation_p.P258S|FAM48A_uc001uwf.2_Missense_Mutation_p.P340S	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A	774					autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		GGAGTGGTTGGCGTGCCTCTC	0.393													50	133					0	0	0.01441	0	0		A	37583829	A	A	37583829	3	1	19	1	0	0	0	0	1	0	0	0	5586	1203	42	2	23	2	FAM48A	13	37583829	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	6712	37583829	77586049	2076	15589											
FREM2	341640	broad.mit.edu	37	chr13	39265089	39265089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaatttatggtgatggaagGcatgagtctggtaattgata	13	13	13	2	0	1	4	0	3	1	1	1	5	1	5	0	4	0	2	0	4	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:39265089G>A	uc001uwv.2	+	1	3917	c.3608G>A	c.(3607-3609)GGC>GAC	p.G1203D		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1203	CSPG 8.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GTGATGGAAGGCATGAGTCTG	0.418													49	391					0	0	0.01441	0	0		A	39265089	A	A	39265089	3	1	19	1	0	0	0	0	1	0	0	0	6059	1203	42	2	3610	2	FREM2	13	39265089	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1681260	39265089	75904789	2077	15590											
FREM2	341640	broad.mit.edu	37	chr13	39265723	39265723	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgttacttttatgtgtccatCgggagcattgacattgtctt	7	17	9	8	2	1	1	0	1	1	0	3	2	2	2	1	1	2	2	1	1	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:39265723C>T	uc001uwv.2	+	1	4551	c.4242C>T	c.(4240-4242)ATC>ATT	p.I1414I		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1414	Extracellular (Potential).|CSPG 10.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		ATGTGTCCATCGGGAGCATTG	0.428													51	114					0	0	0.01441	0	0		T	39265723	T	T	39265723	2	4	19	1	0	0	0	0	0	0	0	1	6059	874	31	1		1	FREM2	13	39265723	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	634	39265723	75904155	2078	15591											
FREM2	341640	broad.mit.edu	37	chr13	39425215	39425215	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttggtgaacaaaatgaaActctcataaggatccgagat	16	9	9	7	1	1	3	1	2	1	1	3	5	2	4	1	2	2	1	1	2	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:39425215A>G	uc001uwv.2	+	10	7021	c.6712A>G	c.(6712-6714)ACT>GCT	p.T2238A	FREM2_uc001uww.2_Missense_Mutation_p.T324A	NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2238	Extracellular (Potential).|Calx-beta 5.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		ACAAAATGAAACTCTCATAAG	0.408													31	81					0	0	0.012213	0	0		G	39425215	G	G	39425215	3	3	19	1	0	0	0	0	1	0	0	0	6059	43	2	3	6750	3	FREM2	13	39425215	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	159492	39425215	75744663	2079	15592											
KBTBD6	89890	broad.mit.edu	37	chr13	41705362	41705362	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccattgagatatgccacaTccatgccctcacgacacagc	12	7	7	15	1	1	1	1	1	0	1	2	3	2	1	4	0	4	0	4	0	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:41705362T>C	uc001uxu.1	-	1	1575	c.1286A>G	c.(1285-1287)GAT>GGT	p.D429G	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.D363G|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	429	Kelch 1.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		ATATGCCACATCCATGCCCTC	0.473													10	172					0	0	0.010729	0	0		C	41705362	C	C	41705362	3	2	19	1	0	0	0	0	1	0	0	0	8013	1435	50	3	742	3	KBTBD6	13	41705362	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2280147	41705362	73464516	2080	15593											
KBTBD7	84078	broad.mit.edu	37	chr13	41768040	41768040	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacctcgaaggactcggcGtccacatcgtgcatggtcac	10	7	10	14	4	1	0	1	0	0	0	5	2	2	1	2	3	2	1	2	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:41768040G>A	uc001uxw.1	-	1	663	c.354C>T	c.(352-354)GAC>GAT	p.D118D	uc001uxv.1_Intron	NM_032138	NP_115514	Q8WVZ9	KBTB7_HUMAN	kelch repeat and BTB (POZ) domain containing 7	118	BTB.						protein binding			ovary(1)	1		Lung NSC(96;0.000105)|Breast(139;0.00715)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.21e-09)|Epithelial(112;6.99e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000196)|GBM - Glioblastoma multiforme(144;0.000857)|BRCA - Breast invasive adenocarcinoma(63;0.0669)		AGGACTCGGCGTCCACATCGT	0.592													13	35					0	0	0.004007	0	0		A	41768040	A	A	41768040	2	1	19	1	0	0	0	0	0	0	0	1	8014	1136	40	1		1	KBTBD7	13	41768040	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	62678	41768040	73401838	2081	15594											
KIAA0564	23078	broad.mit.edu	37	chr13	42149902	42149902	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttctagtctttgcttatTgtccttggggattttgttca	6	21	8	6	0	3	0	1	0	2	0	4	1	4	1	1	2	1	2	1	2	3	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:42149902T>C	uc001uyj.2	-	43	5414	c.5344A>G	c.(5344-5346)AAT>GAT	p.N1782D		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1782	VWFA.					extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		CTTTGCTTATTGTCCTTGGGG	0.353													17	86					0	0	0.006122	0	0		C	42149902	C	C	42149902	3	2	19	1	0	0	0	0	1	0	0	0	8201	1812	63	3	385	3	KIAA0564	13	42149902	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	381862	42149902	73019976	2082	15595											
AKAP11	11215	broad.mit.edu	37	chr13	42873774	42873774	+	Frame_Shift_Del	DEL	T	-	-																															atagtgatttacagaaaacaTttttttcgtcttctcctgcc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:42873774delT	uc001uys.1	+	8	1067	c.892delT	c.(892-894)TTTfs	p.F298fs		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	298	Ser-rich.				intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		ACAGAAAACATTTTTTTCGTC	0.363													39	88	---	---	---	---						.	-	42873774	-	-	42873774	7	5	19	1	0	1	0	1	0	0	0	0	447	1493	52	0	914	0	AKAP11	13	42873774	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	723872	42873774	72296104	2083	15596											
ENOX1	55068	broad.mit.edu	37	chr13	43872523	43872523	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctgcagaaactgcagttGctggtccttggtgaggtttt	6	15	13	7	0	0	2	0	1	0	1	1	2	1	2	1	3	5	6	1	3	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:43872523G>A	uc001uza.3	-	12	1705	c.1405C>T	c.(1405-1407)CAA>TAA	p.Q469*	ENOX1_uc001uzb.3_Nonsense_Mutation_p.Q469*|ENOX1_uc001uzc.3_Nonsense_Mutation_p.Q469*|ENOX1_uc001uyz.3_Nonsense_Mutation_p.Q78*	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	469	Potential.				electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		AACTGCAGTTGCTGGTCCTTG	0.443													70	130					0	0	0.01441	0	0		A	43872523	A	A	43872523	4	1	19	1	0	0	0	0	0	1	0	0	5134	1328	46	2	550	2	ENOX1	13	43872523	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	998749	43872523	71297355	2084	15597											
C13orf31	144811	broad.mit.edu	37	chr13	44463069	44463069	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttcatcctgcatgtgtaCaactatttgattcaccaaat	12	15	4	10	0	3	1	2	1	1	0	4	1	4	1	2	0	3	2	2	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:44463069C>T	uc010acg.2	+	5	1569	c.1084C>T	c.(1084-1086)CAA>TAA	p.Q362*	C13orf31_uc001uzf.3_Nonsense_Mutation_p.Q362*	NM_001128303	NP_001121775	Q8IV20	CM031_HUMAN	hypothetical protein LOC144811	362											0		Lung NSC(96;0.000163)|all_hematologic(4;0.0127)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Breast(139;0.0364)|Lung SC(185;0.0367)|Acute lymphoblastic leukemia(4;0.138)		GBM - Glioblastoma multiforme(144;0.000573)|BRCA - Breast invasive adenocarcinoma(63;0.121)		TGCATGTGTACAACTATTTGA	0.388													16	185					0	0	0.00499	0	0		T	44463069	T	T	44463069	4	4	19	1	0	0	0	0	0	1	0	0	1729	479	17	4	1098	4	C13orf31	13	44463069	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	590546	44463069	70706809	2085	15598											
SPERT	220082	broad.mit.edu	37	chr13	46276602	46276602	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctggcaactcacattggTatggctttttacttgagata	10	15	8	8	0	1	1	1	1	0	1	1	2	1	1	1	3	3	3	1	3	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:46276602T>C	uc001van.1	+	1	155	c.75_splice	c.e1+2	p.L25_splice	SPERT_uc001vao.2_5'Flank	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated							cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		CTCACATTGGTATGGCTTTTT	0.378													7	258					0	0	0.004482	0	0		C	46276602	C	C	46276602	5	2	19	1	0	0	0	0	0	0	1	0	15064	1652	57	3	79	3	SPERT	13	46276602	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1813533	46276602	68893276	2086	15599											
ZC3H13	23091	broad.mit.edu	37	chr13	46554101	46554101	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatagttgctattactacTgtgactatcaatttgagaac	13	15	7	6	0	1	3	1	3	0	1	1	4	1	3	0	0	4	2	0	0	7	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:46554101T>C	uc010tfw.1	-	10	1765	c.1759A>G	c.(1759-1761)AGT>GGT	p.S587G	ZC3H13_uc001vas.1_Missense_Mutation_p.S587G|ZC3H13_uc001vat.1_Missense_Mutation_p.S587G	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	587	Arg/Ser-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		CTATTACTACTGTGACTATCA	0.383													9	96					0	0	0.004482	0	0		C	46554101	C	C	46554101	3	2	19	1	0	0	0	0	1	0	0	0	17590	1580	55	3	2963	3	ZC3H13	13	46554101	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	277499	46554101	68615777	2087	15600											
SUCLA2	8803	broad.mit.edu	37	chr13	48570976	48570976	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagcttttcttaatttagtAcctaattttttggcaattgc	11	19	5	6	0	1	0	0	0	1	0	1	0	1	0	1	1	3	3	1	1	6	11			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:48570976A>G	uc001vbs.2	-	2	328	c.271_splice	c.e2+1	p.G91_splice	SUCLA2_uc010tgb.1_Splice_Site_p.G31_splice|SUCLA2_uc010tgc.1_Splice_Site|SUCLA2_uc010tgd.1_Splice_Site_p.G31_splice|SUCLA2_uc001vbt.1_Splice_Site|SUCLA2_uc001vbu.1_Splice_Site_p.G91_splice	NM_003850	NP_003841	Q9P2R7	SUCB1_HUMAN	succinate-CoA ligase, ADP-forming, beta subunit						succinyl-CoA pathway|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			central_nervous_system(1)	1		all_cancers(8;1.13e-24)|all_epithelial(8;1.78e-13)|all_lung(13;2.85e-06)|Breast(56;0.000141)|Lung NSC(96;0.000226)|all_hematologic(8;0.000885)|Prostate(109;0.00132)|Acute lymphoblastic leukemia(8;0.0167)|Myeloproliferative disorder(33;0.039)|Hepatocellular(98;0.0556)|Lung SC(185;0.102)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(144;2.1e-06)	Succinic acid(DB00139)	TTAATTTAGTACCTAATTTTT	0.348													27	51					0	0	0.004656	0	0		G	48570976	G	G	48570976	5	3	19	1	0	0	0	0	0	0	1	0	15388	405	14	3	1158	3	SUCLA2	13	48570976	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2016875	48570976	66598902	2088	15601											
RB1	5925	broad.mit.edu	37	chr13	48947548	48947548	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatcccctctaggactgttAtgaacactatccaacaatta	13	13	4	11	0	1	1	0	1	1	0	3	2	3	2	3	1	2	1	3	1	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:48947548A>T	uc001vcb.2	+	12	1301	c.1135A>T	c.(1135-1137)ATG>TTG	p.M379L	RB1_uc010act.1_Missense_Mutation_p.M80L	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	379	Domain A.|Pocket; binds T and E1A.				androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(7)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TAGGACTGTTATGAACACTAT	0.303		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			28	91					0	0	0.007291	0	0		T	48947548	T	T	48947548	3	4	19	1	0	0	0	0	1	0	0	0	13123	449	16	5	1181	5	RB1	13	48947548	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	376572	48947548	66222330	2089	15602											
INTS6	26512	broad.mit.edu	37	chr13	52004496	52004496	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtgataattattgctggCtccaagaaaaaagggtttct	13	14	9	5	0	1	2	0	1	1	1	2	2	2	2	1	2	1	3	1	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:52004496C>T	uc001vfk.2	-	4	977	c.363G>A	c.(361-363)GAG>GAA	p.E121E	INTS6_uc001vfj.2_Silent_p.E108E|INTS6_uc001vfl.2_5'UTR	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	121	VWFA.				snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)		TTATTGCTGGCTCCAAGAAAA	0.363													45	135					0	0	0.011902	0	0		T	52004496	T	T	52004496	2	4	19	1	0	0	0	0	0	0	0	1	7798	796	28	2		2	INTS6	13	52004496	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3056948	52004496	63165382	2090	15603											
NEK3	4752	broad.mit.edu	37	chr13	52726815	52726815	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaaggcacatttgggtaaAccaattaagtatctgtaaga	15	11	8	7	0	1	1	0	0	1	1	2	1	2	1	2	2	1	4	2	2	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:52726815A>G	uc001vgi.2	-	5	557	c.322T>C	c.(322-324)TTT>CTT	p.F108L	NEK3_uc001vgg.2_Missense_Mutation_p.F102L|NEK3_uc001vgh.2_Missense_Mutation_p.F129L|NEK3_uc010tgx.1_RNA|NEK3_uc010tgy.1_Missense_Mutation_p.F108L	NM_152720	NP_689933	P51956	NEK3_HUMAN	NIMA-related kinase 3 isoform a	108	Interaction with VAV2.|Protein kinase.				cell division|mitosis	nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.034)|Hepatocellular(98;0.065)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.81e-08)		ATTTGGGTAAACCAATTAAGT	0.368													4	96					0	0	0.009096	0	0		G	52726815	G	G	52726815	3	3	19	1	0	0	0	0	1	0	0	0	10344	43	2	3	1246	3	NEK3	13	52726815	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	722319	52726815	62443063	2091	15604											
SUGT1	10910	broad.mit.edu	37	chr13	53250418	53250418	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agatgggaaaagctagagggGcaaggagatgtgcctacgcc	13	5	16	7	1	0	3	0	0	0	3	0	5	0	4	2	4	3	2	2	4	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:53250418G>A	uc001vhc.2	+	12	1002	c.777G>A	c.(775-777)GGG>GGA	p.G259G	SUGT1_uc001vha.2_RNA|SUGT1_uc001vhb.2_Silent_p.G227G|SUGT1_uc010thb.1_Silent_p.G171G|SUGT1_uc001vhd.2_Silent_p.G116G	NM_001130912	NP_001124384	Q9Y2Z0	SUGT1_HUMAN	suppressor of G2 allele of SKP1 isoform a	259					mitosis	kinetochore|ubiquitin ligase complex	binding				0		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.25e-08)		AGCTAGAGGGGCAAGGAGATG	0.383													4	65					0	0	0.000602	0	0		A	53250418	A	A	53250418	2	1	19	1	0	0	0	0	0	0	0	1	15394	1190	42	2		2	SUGT1	13	53250418	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	523603	53250418	61919460	2092	15605											
PCDH8	5100	broad.mit.edu	37	chr13	53421057	53421057	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggttgttctcgcgcacCgacacctcatagaccggccg	6	7	13	15	6	2	1	1	0	1	1	3	2	2	1	4	3	0	3	4	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:53421057C>T	uc001vhi.2	-	1	1718	c.1515G>A	c.(1513-1515)TCG>TCA	p.S505S	PCDH8_uc001vhj.2_Silent_p.S505S	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	505	Extracellular (Potential).|Cadherin 5.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		TCTCGCGCACCGACACCTCAT	0.736													3	10					0	0	0.004672	0	0		T	53421057	T	T	53421057	2	4	19	1	0	0	0	0	0	0	0	1	11536	639	23	1		1	PCDH8	13	53421057	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	170639	53421057	61748821	2093	15606											
TDRD3	81550	broad.mit.edu	37	chr13	61041374	61041374	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttctctttgctttagccTgaacacaccacctggaacta	9	14	5	13	0	1	1	0	1	1	0	2	2	1	2	3	1	4	1	3	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:61041374T>C	uc001via.2	+	5	865	c.77T>C	c.(76-78)CTG>CCG	p.L26P	TDRD3_uc010aef.2_5'UTR|TDRD3_uc001vhz.3_Missense_Mutation_p.L26P|TDRD3_uc010aeg.2_Missense_Mutation_p.L119P|TDRD3_uc001vib.3_Missense_Mutation_p.L26P	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	26					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		TGCTTTAGCCTGAACACACCA	0.274													34	90					0	0	0.013726	0	0		C	61041374	C	C	61041374	3	2	19	1	0	0	0	0	1	0	0	0	15757	1580	55	3	374	3	TDRD3	13	61041374	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	7620317	61041374	54128504	2094	15607											
PCDH9	5101	broad.mit.edu	37	chr13	67800539	67800539	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaggaagtattagacggTggagaaatgacaactgggct	15	9	13	4	1	0	3	0	1	0	2	0	5	0	4	0	4	1	2	0	4	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:67800539T>C	uc001vik.2	-	2	2726	c.2034A>G	c.(2032-2034)CCA>CCG	p.P678P	PCDH9_uc001vil.2_Silent_p.P678P|PCDH9_uc010thl.1_Silent_p.P678P|PCDH9_uc001vin.3_Silent_p.P678P	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	678	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		TATTAGACGGTGGAGAAATGA	0.478													30	85					0	0	0.00632	0	0		C	67800539	C	C	67800539	2	2	19	1	0	0	0	0	0	0	0	1	11537	1683	59	3		3	PCDH9	13	67800539	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	6759165	67800539	47369339	2095	15608											
UCHL3	7347	broad.mit.edu	37	chr13	76179869	76179869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttttttcctccataggatgCcatagaagtttgcaagaagt	11	15	8	7	0	0	2	0	0	0	2	2	3	2	3	3	1	2	2	3	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:76179869C>T	uc001vjq.2	+	9	644	c.614C>T	c.(613-615)GCC>GTC	p.A205V	UCHL3_uc001vjr.2_Missense_Mutation_p.A169V	NM_006002	NP_005993	P15374	UCHL3_HUMAN	ubiquitin carboxyl-terminal esterase L3	205					ubiquitin-dependent protein catabolic process	cytoplasm	cysteine-type peptidase activity|ubiquitin binding|ubiquitin thiolesterase activity				0				GBM - Glioblastoma multiforme(99;0.0125)		CCATAGGATGCCATAGAAGTT	0.318													21	64					0	0	0.012319	0	0		T	76179869	T	T	76179869	3	4	19	1	0	0	0	0	1	0	0	0	16947	739	26	2	648	2	UCHL3	13	76179869	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	8379330	76179869	38990009	2096	15609											
MYCBP2	23077	broad.mit.edu	37	chr13	77652957	77652957	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaatgacaaaatttcaattAcctgctttattctgcacaaa	15	15	3	8	0	2	1	1	1	1	0	2	1	2	1	1	0	3	2	1	0	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:77652957A>G	uc001vkf.2	-	67	11461	c.11370_splice	c.e67+1	p.Q3790_splice	MYCBP2_uc010aev.2_Splice_Site_p.Q3194_splice|MYCBP2_uc001vke.2_Splice_Site_p.Q410_splice	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AATTTCAATTACCTGCTTTAT	0.343													3	27					0	0	0.009096	0	0		G	77652957	G	G	77652957	5	3	19	1	0	0	0	0	0	0	1	0	10036	405	14	3	2622	3	MYCBP2	13	77652957	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1473088	77652957	37516921	2097	15610											
MYCBP2	23077	broad.mit.edu	37	chr13	77780843	77780843	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggcccttgatcctgttggTaaggcaagttcaggacttag	9	11	13	8	0	1	1	1	1	0	0	2	2	2	2	2	4	0	4	2	4	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:77780843T>C	uc001vkf.2	-	25	3511	c.3420A>G	c.(3418-3420)TTA>TTG	p.L1140L	MYCBP2_uc010aev.2_Silent_p.L544L	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1140					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		ATCCTGTTGGTAAGGCAAGTT	0.483													17	37					0	0	0.00499	0	0		C	77780843	C	C	77780843	2	2	19	1	0	0	0	0	0	0	0	1	10036	1635	57	3		3	MYCBP2	13	77780843	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	127886	77780843	37389035	2098	15611											
SCEL	8796	broad.mit.edu	37	chr13	78130819	78130819	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actttcttacaggataacagTtggataaagaaacgccctga	15	10	8	8	1	1	2	0	1	1	1	1	4	1	4	1	2	3	1	1	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:78130819T>C	uc001vki.2	+	3	302	c.132T>C	c.(130-132)AGT>AGC	p.S44S	SCEL_uc001vkj.2_Silent_p.S44S|SCEL_uc010thx.1_Silent_p.S44S	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	44					embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		AGGATAACAGTTGGATAAAGA	0.463													4	171					0	0	0.009096	0	0		C	78130819	C	C	78130819	2	2	19	1	0	0	0	0	0	0	0	1	13913	1722	60	3		3	SCEL	13	78130819	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	349976	78130819	37039059	2099	15612											
EDNRB	1910	broad.mit.edu	37	chr13	78475267	78475267	+	Frame_Shift_Del	DEL	A	-	-																															ttcacaggtcattagtgtatAaaaaaatgcagtgatggcca																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:78475267delA	uc001vko.2	-	4	1135	c.877delT	c.(877-879)TATfs	p.Y293fs	EDNRB_uc001vkq.1_Frame_Shift_Del_p.Y293fs|uc001vkn.1_Intron|EDNRB_uc010aez.1_Frame_Shift_Del_p.Y293fs|EDNRB_uc001vkp.1_Frame_Shift_Del_p.Y376fs	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	293	Helical; Name=5; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	ATTAGTGTATAAAAAAATGCA	0.343													34	68	---	---	---	---						.	-	78475267	-	-	78475267	7	5	19	1	0	1	0	1	0	0	0	0	4926	362	13	0	588	0	EDNRB	13	78475267	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	344448	78475267	36694611	2100	15613											
SLITRK5	26050	broad.mit.edu	37	chr13	88327790	88327790	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattatggggaaatctgtgaCaatgcatgtccttgtgagga	11	13	12	5	0	1	2	0	2	1	0	2	4	2	4	1	3	1	1	1	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:88327790C>T	uc001vln.2	+	2	366	c.147C>T	c.(145-147)GAC>GAT	p.D49D	SLITRK5_uc010tic.1_Intron	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	49	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					AAATCTGTGACAATGCATGTC	0.463													54	120					0	0	0.01441	0	0		T	88327790	T	T	88327790	2	4	19	1	0	0	0	0	0	0	0	1	14771	477	17	4		4	SLITRK5	13	88327790	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	9852523	88327790	26842088	2101	15614											
ABCC4	10257	broad.mit.edu	37	chr13	95886989	95886989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagcaccgtggcataggCgtacgctgtgttcaaagcca	10	8	12	11	3	2	0	2	0	0	0	2	0	2	0	2	2	3	5	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:95886989C>T	uc001vmd.3	-	4	525	c.406G>A	c.(406-408)GCC>ACC	p.A136T	ABCC4_uc010afk.2_Missense_Mutation_p.A136T|ABCC4_uc001vme.2_Missense_Mutation_p.A136T|ABCC4_uc010tih.1_Intron|ABCC4_uc001vmf.2_Missense_Mutation_p.A93T|ABCC4_uc010afl.1_Missense_Mutation_p.A93T|ABCC4_uc010afm.1_Missense_Mutation_p.A149T	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	136	Helical; (Potential).|ABC transmembrane type-1 1.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	GTGGCATAGGCGTACGCTGTG	0.398													12	23					0	0	0.001855	0	0		T	95886989	T	T	95886989	3	4	19	1	0	0	0	0	1	0	0	0	55	768	27	1	3732	1	ABCC4	13	95886989	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	7559199	95886989	19282889	2102	15615											
MBNL2	10150	broad.mit.edu	37	chr13	97995277	97995277	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctttaacagcccacttTccctgtaggtcccgcgatag	7	12	7	15	2	0	0	0	0	0	0	3	1	3	0	4	1	2	1	4	1	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:97995277T>C	uc010aft.2	+	4	1163	c.347T>C	c.(346-348)TTC>TCC	p.F116S	MBNL2_uc001vmz.2_Missense_Mutation_p.F116S|MBNL2_uc001vna.2_Missense_Mutation_p.F116S|MBNL2_uc001vnb.2_RNA|MBNL2_uc010tij.1_Intron	NM_144778	NP_659002	Q5VZF2	MBNL2_HUMAN	muscleblind-like 2 isoform 1	116					mRNA processing|regulation of RNA splicing|RNA splicing	cytoplasm|nucleus	RNA binding|zinc ion binding				0	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.218)			CAGCCCACTTTCCCTGTAGGT	0.418													30	45					0	0	0.005524	0	0		C	97995277	C	C	97995277	3	2	19	1	0	0	0	0	1	0	0	0	9372	1783	62	3	357	3	MBNL2	13	97995277	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2108288	97995277	17174601	2103	15616											
IPO5	3843	broad.mit.edu	37	chr13	98658469	98658469	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgcagaagaaaaatttgTcccctactatgatttattta	14	15	5	7	0	0	3	0	1	0	2	1	3	1	3	2	0	3	1	2	0	8	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:98658469T>A	uc001vnf.1	+	14	1648	c.1583T>A	c.(1582-1584)GTC>GAC	p.V528D	IPO5_uc001vne.2_Missense_Mutation_p.V546D|IPO5_uc010tik.1_Missense_Mutation_p.V403D|IPO5_uc010til.1_Missense_Mutation_p.V468D|IPO5_uc001vng.1_Missense_Mutation_p.V149D	NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	528					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						GAAAAATTTGTCCCCTACTAT	0.393													27	205					0	0	0.003954	0	0		A	98658469	A	A	98658469	3	1	19	1	0	0	0	0	1	0	0	0	7812	1667	58	5	1695	5	IPO5	13	98658469	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	663192	98658469	16511409	2104	15617											
GPR183	1880	broad.mit.edu	37	chr13	99947711	99947711	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagatttctcagtgagtgggTtttgtttggcagttctgaag	7	16	13	5	0	2	3	1	2	2	1	3	3	2	3	0	2	0	4	0	2	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:99947711T>C	uc001vog.2	-	2	863	c.689A>G	c.(688-690)AAC>AGC	p.N230S	UBAC2_uc001voa.3_Intron|UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron	NM_004951	NP_004942	P32249	GP183_HUMAN	EBV-induced G protein-coupled receptor 2	230	Cytoplasmic (Potential).				humoral immune response|mature B cell differentiation involved in immune response	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0						AGTGAGTGGGTTTTGTTTGGC	0.383													17	149					0	0	0.007413	0	0		C	99947711	C	C	99947711	3	2	19	1	0	0	0	0	1	0	0	0	6693	1725	60	3	400	3	GPR183	13	99947711	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1289242	99947711	15222167	2105	15618											
TM9SF2	9375	broad.mit.edu	37	chr13	100196200	100196200	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagggatgctgctatcagtCtttctaggatccgggacaca	11	10	11	9	1	3	0	1	0	2	0	4	3	4	3	1	3	2	2	1	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:100196200C>T	uc001voj.1	+	10	1234	c.1101C>T	c.(1099-1101)GTC>GTT	p.V367V	TM9SF2_uc010afz.1_Silent_p.V202V	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor	367	Cytoplasmic (Potential).				transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)					TGCTATCAGTCTTTCTAGGAT	0.368													13	135					0	0	0.001855	0	0		T	100196200	T	T	100196200	2	4	19	1	0	0	0	0	0	0	0	1	16003	900	32	4		4	TM9SF2	13	100196200	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	248489	100196200	14973678	2106	15619											
PCCA	5095	broad.mit.edu	37	chr13	100909900	100909900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtggtgggaaaggcatgcGcattgcttgggatgatgaag	9	10	18	4	1	0	2	0	2	0	0	0	4	0	4	0	5	2	3	0	5	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:100909900G>A	uc001voo.2	+	9	727	c.689G>A	c.(688-690)CGC>CAC	p.R230H	PCCA_uc010aga.2_Missense_Mutation_p.R204H|PCCA_uc010tiz.1_Missense_Mutation_p.R230H	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	230	ATP-grasp.|Biotin carboxylation.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	AAAGGCATGCGCATTGCTTGG	0.443													10	29					0	0	0.00245	0	0		A	100909900	A	A	100909900	3	1	19	1	0	0	0	0	1	0	0	0	11523	1087	38	1	723	1	PCCA	13	100909900	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	713700	100909900	14259978	2107	15620											
NALCN	259232	broad.mit.edu	37	chr13	101797171	101797171	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcaccatttgaggtctgTttggaaatttttcaaagatt	10	19	7	5	0	3	2	2	1	1	1	3	3	3	3	1	2	0	1	1	2	2	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:101797171T>C	uc001vox.1	-	16	2105	c.1916A>G	c.(1915-1917)AAC>AGC	p.N639S	NALCN_uc001voy.2_Missense_Mutation_p.N354S	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	639	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TTGAGGTCTGTTTGGAAATTT	0.333													34	285					0	0	0.004289	0	0		C	101797171	C	C	101797171	3	2	19	1	0	0	0	0	1	0	0	0	10166	1725	60	3	3416	3	NALCN	13	101797171	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	887271	101797171	13372707	2108	15621											
FGF14	2259	broad.mit.edu	37	chr13	102375275	102375275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaccccaggcttcgggaccGtttccccaacatcatgcaaa	10	8	7	16	2	2	0	2	0	0	0	4	1	3	1	5	2	2	3	5	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:102375275G>A	uc001vpe.2	-	5	650	c.650C>T	c.(649-651)ACG>ATG	p.T217M	FGF14_uc001vpf.2_Missense_Mutation_p.T222M|FGF14_uc001vpd.1_5'Flank	NM_004115	NP_004106	Q92915	FGF14_HUMAN	fibroblast growth factor 14 isoform 1A	217					cell death|cell-cell signaling|JNK cascade|nervous system development|signal transduction	nucleus	growth factor activity|heparin binding			ovary(2)|lung(1)|large_intestine(1)	4	all_neural(89;0.0239)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CTTCGGGACCGTTTCCCCAAC	0.468													33	68					0	0	0.013726	0	0		A	102375275	A	A	102375275	3	1	19	1	0	0	0	0	1	0	0	0	5857	1145	40	1	97	1	FGF14	13	102375275	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	578104	102375275	12794603	2109	15622											
ERCC5	2073	broad.mit.edu	37	chr13	103474505	103474505	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaataaaacagcaggagaAactggtaggtaaacatatag	21	6	10	4	0	0	2	0	0	0	2	0	3	0	2	0	3	4	3	0	3	10	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:103474505A>C	uc001vpu.1	+	5	1019	c.897A>C	c.(895-897)GAA>GAC	p.E299D	BIVM_uc001vps.2_Missense_Mutation_p.E299D|BIVM_uc010agc.2_Missense_Mutation_p.E70D|BIVM_uc001vpv.2_Missense_Mutation_p.E70D	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	Error:Variant_position_missing_in_P28715_after_alignment					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					CAGCAGGAGAAACTGGTAGGT	0.289			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				22	53					0	0	0.00278	0	0		C	103474505	C	C	103474505	3	2	19	1	0	0	0	0	1	0	0	0	5224	11	1	5		5	ERCC5	13	103474505	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1099230	103474505	11695373	2110	15623											
RAB20	55647	broad.mit.edu	37	chr13	111176256	111176256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttttataaagggccaccGcatcctccagctgcacctgc	8	11	7	15	1	1	0	0	0	1	0	3	0	3	0	5	1	3	3	5	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:111176256G>A	uc001vqy.2	-	2	666	c.461C>T	c.(460-462)GCG>GTG	p.A154V		NM_017817	NP_060287	Q9NX57	RAB20_HUMAN	RAB20, member RAS oncogene family	154					protein transport|small GTPase mediated signal transduction	Golgi apparatus	GTP binding				0	all_cancers(4;1.54e-11)|all_epithelial(4;1.22e-06)|all_lung(23;1e-05)|Lung NSC(43;0.000453)|Colorectal(4;0.00323)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.197)			AAGGGCCACCGCATCCTCCAG	0.592													18	69					0	0	0.007413	0	0		A	111176256	A	A	111176256	3	1	19	1	0	0	0	0	1	0	0	0	12932	1087	38	1	247	1	RAB20	13	111176256	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	7701751	111176256	3993622	2111	15624											
F7	2155	broad.mit.edu	37	chr13	113770010	113770010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatctgtgtgaacgagaacgGcggctgtgagcagtactgca	10	8	15	8	3	1	3	0	2	1	1	1	5	1	3	0	2	5	4	0	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:113770010G>A	uc001vsv.2	+	6	518	c.467G>A	c.(466-468)GGC>GAC	p.G156D	F7_uc010agp.1_Missense_Mutation_p.G149D|F7_uc001vsw.2_Missense_Mutation_p.G134D|F7_uc010tjt.1_Missense_Mutation_p.G87D	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	156	EGF-like 2.		G -> S (in FA7D).		anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	AACGAGAACGGCGGCTGTGAG	0.652													10	23					0	0	0.008291	0	0		A	113770010	A	A	113770010	3	1	19	1	0	0	0	0	1	0	0	0	5357	1203	42	2	489	2	F7	13	113770010	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2593754	113770010	1399868	2112	15625											
F7	2155	broad.mit.edu	37	chr13	113772918	113772918	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgttctctgagaggacgCtggccttcgtgcgcttctca	5	11	13	12	4	2	1	1	1	2	1	5	4	2	3	1	3	1	3	1	3	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:113772918C>A	uc001vsv.2	+	9	1048	c.997C>A	c.(997-999)CTG>ATG	p.L333M	F7_uc001vsw.2_Missense_Mutation_p.L311M|F7_uc010tjt.1_Missense_Mutation_p.L264M	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	333	Peptidase S1.				anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	TGAGAGGACGCTGGCCTTCGT	0.672													17	32					1.99824e-07	2.07461e-07	0.00499	1	0		A	113772918	A	A	113772918	3	1	19	1	0	0	0	0	1	0	0	0	5357	796	28	5	1031	5	F7	13	113772918	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2908	113772918	1396960	2113	15626											
LAMP1	3916	broad.mit.edu	37	chr13	113965127	113965127	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaacaacgtgaccgtaacGctccatgatgccaccatcca	13	7	7	14	3	0	3	0	3	0	0	2	3	2	3	5	0	4	2	5	0	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:113965127G>A	uc001vtm.1	+	4	788	c.507G>A	c.(505-507)ACG>ACA	p.T169T	LAMP1_uc010tka.1_Intron	NM_005561	NP_005552	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	169	Lumenal (Potential).|First lumenal domain.					endosome membrane|integral to plasma membrane|lysosomal membrane|membrane fraction				central_nervous_system(2)	2	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			TGACCGTAACGCTCCATGATG	0.517													31	68					0	0	0.010818	0	0		A	113965127	A	A	113965127	2	1	19	1	0	0	0	0	0	0	0	1	8633	1074	38	1		1	LAMP1	13	113965127	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	192209	113965127	1204751	2114	15627											
POTEG	404785	broad.mit.edu	37	chr14	19553813	19553813	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgctttcatggagccgaggTaccacgtccgtcgagaagat	9	8	13	11	5	1	2	1	0	0	2	3	5	2	3	3	2	2	2	3	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:19553813T>C	uc001vuz.1	+	1	449	c.397T>C	c.(397-399)TAC>CAC	p.Y133H	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	133										ovary(1)	1						GGAGCCGAGGTACCACGTCCG	0.587													23	348					0	0	0.00874	0	0		C	19553813	C	C	19553813	3	2	19	1	0	0	0	0	1	0	0	0	12285	1638	57	3	399	3	POTEG	14	19553813	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08		19553813	87795727	2115	15628											
OR4K1	79544	broad.mit.edu	37	chr14	20403942	20403942	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagtctatgtgacatcagtGctaggcaatgtcttaattat	12	15	8	6	0	3	1	1	1	2	0	3	1	3	1	0	1	1	2	0	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:20403942G>A	uc001vwj.1	+	1	117	c.117G>A	c.(115-117)GTG>GTA	p.V39V		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		TGACATCAGTGCTAGGCAATG	0.363													116	249					0	0	0.01441	0	0		A	20403942	A	A	20403942	2	1	19	1	0	0	0	0	0	0	0	1	11086	1306	46	2		2	OR4K1	14	20403942	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	850129	20403942	86945598	2116	15629											
CCNB1IP1	57820	broad.mit.edu	37	chr14	20784646	20784646	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtttgatgcgacactttcGataattacaaagcagcatgt	13	12	9	7	2	0	1	0	1	0	0	1	4	0	1	0	0	4	3	0	0	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:20784646G>A	uc001vwv.2	-	5	686	c.37C>T	c.(37-39)CGA>TGA	p.R13*	CCNB1IP1_uc001vww.2_Nonsense_Mutation_p.R13*|CCNB1IP1_uc001vwx.2_Nonsense_Mutation_p.R13*|CCNB1IP1_uc001vwy.2_Nonsense_Mutation_p.R13*|CCNB1IP1_uc001vwz.2_Nonsense_Mutation_p.R13*|CCNB1IP1_uc010ahh.1_RNA	NM_182851	NP_878271	Q9NPC3	CIP1_HUMAN	cyclin B1 interacting protein 1 isoform 3	13	RING-type; atypical.					chromosome|nucleus	ligase activity|metal ion binding|protein binding		HMGA2/CCNB1IP1(2)	soft_tissue(2)|ovary(1)	3	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;8.86e-07)|all cancers(55;4.98e-06)	GBM - Glioblastoma multiforme(265;0.0164)		CGACACTTTCGATAATTACAA	0.463			T	HMGA2	leiomyoma								27	47					0	0	0.005443	0	0		A	20784646	A	A	20784646	4	1	19	1	0	0	0	0	0	1	0	0	2915	1066	37	1	808	1	CCNB1IP1	14	20784646	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	380704	20784646	86564894	2117	15630											
TEP1	7011	broad.mit.edu	37	chr14	20840980	20840980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaggacaaaaaaggtgtgtgCcgaggaccagatcagagcac	15	4	14	8	1	1	2	1	0	0	2	1	6	1	4	2	3	2	1	2	3	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:20840980C>T	uc001vxe.2	-	49	7028	c.6988G>A	c.(6988-6990)GCA>ACA	p.A2330T	TEP1_uc010ahj.1_RNA|TEP1_uc010ahk.2_Missense_Mutation_p.A1673T|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.A2222T|TEP1_uc010tlh.1_Intron	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	2330	WD 17.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		AAGGTGTGTGCCGAGGACCAG	0.512													33	83					0	0	0.003271	0	0		T	20840980	T	T	20840980	3	4	19	1	0	0	0	0	1	0	0	0	15784	739	26	2	923	2	TEP1	14	20840980	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	56334	20840980	86508560	2118	15631											
OSGEP	55644	broad.mit.edu	37	chr14	20917404	20917404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccccaaagatacggtaacGatgttccgagtatgcaatca	13	10	8	10	3	1	1	1	0	0	1	3	3	3	1	3	1	3	4	3	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:20917404G>A	uc001vxf.2	-	4	789	c.433C>T	c.(433-435)CGT>TGT	p.R145C		NM_017807	NP_060277	Q9NPF4	OSGEP_HUMAN	O-sialoglycoprotein endopeptidase	145					proteolysis|tRNA processing		metal ion binding|metalloendopeptidase activity|protein binding				0	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;1.09e-07)|all cancers(55;1.19e-06)	GBM - Glioblastoma multiforme(265;0.0231)|READ - Rectum adenocarcinoma(17;0.196)		ATACGGTAACGATGTTCCGAG	0.463													14	42					0	0	0.003163	0	0		A	20917404	A	A	20917404	3	1	19	1	0	0	0	0	1	0	0	0	11306	1058	37	1	606	1	OSGEP	14	20917404	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	76424	20917404	86432136	2119	15632											
FLJ10357	55701	broad.mit.edu	37	chr14	21549794	21549794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggcaccttccaggagatgCgggccctggccctggacctg	5	6	14	16	2	0	1	0	0	0	1	1	3	1	2	6	5	1	1	6	5	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:21549794C>T	uc001vzp.2	+	14	2796	c.2767C>T	c.(2767-2769)CGG>TGG	p.R923W	FLJ10357_uc001vzo.1_Missense_Mutation_p.R2W|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_Missense_Mutation_p.R209W	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	923					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		CCAGGAGATGCGGGCCCTGGC	0.721													12	18					0	0	0.010729	0	0		T	21549794	T	T	21549794	3	4	19	1	0	0	0	0	1	0	0	0	5940	759	27	1	2821	1	FLJ10357	14	21549794	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	632390	21549794	85799746	2120	15633											
TOX4	9878	broad.mit.edu	37	chr14	21961331	21961331	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagtagtcctgagcggcCtatgaacaacagccctgagg	12	6	13	10	1	0	3	0	3	0	0	1	4	1	4	3	3	4	1	3	3	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:21961331C>A	uc001waz.2	+	7	1659	c.1556C>A	c.(1555-1557)CCT>CAT	p.P519H	TOX4_uc001way.2_Missense_Mutation_p.P389H|TOX4_uc001wba.2_RNA|TOX4_uc010tlu.1_Missense_Mutation_p.P496H|TOX4_uc010tlv.1_Missense_Mutation_p.P389H	NM_014828	NP_055643	O94842	TOX4_HUMAN	epidermal Langerhans cell protein LCP1	519	Gln/Pro-rich.					chromatin|nucleus|PTW/PP1 phosphatase complex	DNA binding|protein binding			ovary(1)	1	all_cancers(95;0.000465)		Epithelial(56;6.61e-06)|all cancers(55;5.15e-05)	GBM - Glioblastoma multiforme(265;0.0149)		CCTGAGCGGCCTATGAACAAC	0.502													12	110					1.05317e-09	1.10128e-09	0.00245	1	0		A	21961331	A	A	21961331	3	1	19	1	0	0	0	0	1	0	0	0	16406	681	24	5	1582	5	TOX4	14	21961331	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	411537	21961331	85388209	2121	15634											
OR4E2	26686	broad.mit.edu	37	chr14	22134094	22134094	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccagacaccagcttctcCattgacaaggtggtgtctgt	8	10	11	12	1	2	2	0	1	2	1	3	2	2	2	3	3	1	1	3	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:22134094C>A	uc010tmd.1	+	1	798	c.798C>A	c.(796-798)TCC>TCA	p.S266S		NM_001001912	NP_001001912	Q8NGC2	OR4E2_HUMAN	olfactory receptor, family 4, subfamily E,	266	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	all_cancers(95;0.00113)	Acute lymphoblastic leukemia(2;0.0279)		GBM - Glioblastoma multiforme(265;0.0137)		CCAGCTTCTCCATTGACAAGG	0.507													23	52					3.5997e-14	3.80015e-14	0.014323	1	0		A	22134094	A	A	22134094	2	1	19	1	0	0	0	0	0	0	0	1	11079	581	21	5		5	OR4E2	14	22134094	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	172763	22134094	85215446	2122	15635											
C14orf93	60686	broad.mit.edu	37	chr14	23467714	23467714	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctctgagttgctgggaaGcccaaaggcccaggccccac	8	6	11	16	0	1	1	0	1	1	0	2	2	2	2	5	3	2	2	5	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:23467714G>A	uc001wib.1	-	2	829	c.519C>T	c.(517-519)GGC>GGT	p.G173G	C14orf93_uc001wic.1_5'UTR|C14orf93_uc001wid.1_Silent_p.G173G|C14orf93_uc001wig.2_Silent_p.G173G|C14orf93_uc001wih.2_Silent_p.G173G|C14orf93_uc001wie.2_Silent_p.G173G|C14orf93_uc001wia.3_Silent_p.G173G|C14orf93_uc001wif.2_5'UTR	NM_021944	NP_068763	Q9H972	CN093_HUMAN	hypothetical protein LOC60686 precursor	173						extracellular region				ovary(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.0127)		TTGCTGGGAAGCCCAAAGGCC	0.672													3	26					0	0	0.004672	0	0		A	23467714	A	A	23467714	2	1	19	1	0	0	0	0	0	0	0	1	1785	958	34	2		2	C14orf93	14	23467714	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1333620	23467714	83881826	2123	15636											
PABPN1	8106	broad.mit.edu	37	chr14	23777114	23777114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccgctgcaccaagccatGcgggcagctggagatgagtt	9	6	14	12	2	0	2	0	1	0	1	0	4	0	2	3	2	4	5	3	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:23777114G>A	uc001wjh.3	+	3	326	c.138G>A	c.(136-138)ATG>ATA	p.M46I	BCL2L2_uc001wjg.3_Missense_Mutation_p.M46I|BCL2L2_uc001wji.3_Missense_Mutation_p.M46I	NM_004643	NP_004634	Q86U42	PABP2_HUMAN	poly(A) binding protein, nuclear 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					modification by virus of host mRNA processing|mRNA 3'-end processing|muscle contraction|nuclear mRNA splicing, via spliceosome|poly(A)+ mRNA export from nucleus|termination of RNA polymerase II transcription|viral infectious cycle	cytoplasm|nucleoplasm|ribonucleoprotein complex	nucleotide binding|protein binding|RNA binding			ovary(2)	2	all_cancers(95;6.69e-06)			GBM - Glioblastoma multiforme(265;0.00643)		ACCAAGCCATGCGGGCAGCTG	0.617													31	66					0	0	0.010771	0	0		A	23777114	A	A	23777114	3	1	19	1	0	0	0	0	1	0	0	0	11387	1319	46	2		2	PABPN1	14	23777114	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	309400	23777114	83572426	2124	15637											
EFS	10278	broad.mit.edu	37	chr14	23829242	23829242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagggcggtggggggcacatCgtagacctgcggaaaggagt	9	5	20	7	3	0	1	0	0	0	1	1	4	0	3	1	7	1	2	1	7	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:23829242C>T	uc001wjo.2	-	4	1053	c.445G>A	c.(445-447)GAT>AAT	p.D149N	EFS_uc001wjp.2_Missense_Mutation_p.D56N|EFS_uc010tnm.1_Missense_Mutation_p.D56N	NM_005864	NP_005855	O43281	EFS_HUMAN	embryonal Fyn-associated substrate isoform 1	149	Pro-rich.				cell adhesion|intracellular signal transduction	cytoplasm	SH3 domain binding			large_intestine(1)	1	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00649)		GGGGGCACATCGTAGACCTGC	0.642													37	80					0	0	0.005524	0	0		T	23829242	T	T	23829242	3	4	19	1	0	0	0	0	1	0	0	0	4965	884	31	1	1252	1	EFS	14	23829242	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	52128	23829242	83520298	2125	15638											
MYH6	4624	broad.mit.edu	37	chr14	23869602	23869602	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcagcttctcgttggTgaagttgatgcagagctgct	6	13	13	9	1	1	3	0	2	1	1	2	3	1	3	0	1	6	8	0	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:23869602T>C	uc001wjv.2	-	14	1511	c.1444A>G	c.(1444-1446)ACC>GCC	p.T482A	MYH6_uc010akp.1_Missense_Mutation_p.T482A	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	482	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TTCTCGTTGGTGAAGTTGATG	0.547													4	90					0	0	0.000602	0	0		C	23869602	C	C	23869602	3	2	19	1	0	0	0	0	1	0	0	0	10056	1696	59	3	4479	3	MYH6	14	23869602	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	40360	23869602	83479938	2126	15639											
LRRC16B	90668	broad.mit.edu	37	chr14	24531766	24531766	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagagctctaccattcccAcaagagcctggtaaggcttc	11	8	9	13	0	1	2	0	0	1	2	3	2	2	2	3	2	3	4	3	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:24531766A>G	uc001wlj.2	+	28	2715	c.2558A>G	c.(2557-2559)CAC>CGC	p.H853R	LRRC16B_uc001wlk.2_5'UTR	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	853										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		TACCATTCCCACAAGAGCCTG	0.577													63	129					0	0	0.01441	0	0		G	24531766	G	G	24531766	3	3	19	1	0	0	0	0	1	0	0	0	8990	159	6	3	2668	3	LRRC16B	14	24531766	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	662164	24531766	82817774	2127	15640											
PCK2	5106	broad.mit.edu	37	chr14	24569353	24569353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtgatggtggcgtgtactggGagggcattgaccagcctctt	6	11	16	8	1	1	2	0	2	1	0	1	3	1	3	2	4	2	2	2	4	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:24569353G>A	uc001wlt.2	+	7	1297	c.1165G>A	c.(1165-1167)GAG>AAG	p.E389K	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Missense_Mutation_p.E401K|PCK2_uc001wls.2_Missense_Mutation_p.E389K|PCK2_uc010tnw.1_Missense_Mutation_p.E255K|PCK2_uc010ald.2_3'UTR|PCK2_uc010ale.2_3'UTR|PCK2_uc010tnx.1_Missense_Mutation_p.E255K|PCK2_uc001wlu.3_Missense_Mutation_p.E255K	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	389					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		CGTGTACTGGGAGGGCATTGA	0.557													7	56					0	0	0.00308	0	0		A	24569353	A	A	24569353	3	1	19	1	0	0	0	0	1	0	0	0	11601	1175	41	4	1191	4	PCK2	14	24569353	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	37587	24569353	82780187	2128	15641											
DCAF11	80344	broad.mit.edu	37	chr14	24587991	24587991	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatctatggtgagggagatAcacacactgccctggatctc	11	10	10	10	0	2	2	0	1	2	1	3	4	2	3	1	3	2	0	1	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:24587991A>G	uc001wlv.2	+	8	1037	c.757A>G	c.(757-759)ACA>GCA	p.T253A	DCAF11_uc001wlw.2_Missense_Mutation_p.T253A|DCAF11_uc001wlz.2_Missense_Mutation_p.T153A|DCAF11_uc001wly.2_Missense_Mutation_p.T209A|DCAF11_uc001wme.2_Missense_Mutation_p.T213A|DCAF11_uc010tny.1_Missense_Mutation_p.T120A|DCAF11_uc001wmd.2_Missense_Mutation_p.T253A|DCAF11_uc001wmc.2_Missense_Mutation_p.T153A|DCAF11_uc001wmb.3_Missense_Mutation_p.T227A|DCAF11_uc001wma.3_Missense_Mutation_p.T253A	NM_001163484	NP_001156956	Q8TEB1	DCA11_HUMAN	DDB1 and CUL4 associated factor 11 isoform 1	253	WD 2.					CUL4 RING ubiquitin ligase complex	protein binding				0						TGAGGGAGATACACACACTGC	0.463													58	138					0	0	0.01441	0	0		G	24587991	G	G	24587991	3	3	19	1	0	0	0	0	1	0	0	0	4265	391	14	3	783	3	DCAF11	14	24587991	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	18638	24587991	82761549	2129	15642											
DCAF11	80344	broad.mit.edu	37	chr14	24590142	24590142	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaaggcatggaagcttcAcgccaggctgccacacagca	11	4	13	13	2	1	0	1	0	0	0	1	2	1	2	2	4	3	4	2	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:24590142A>G	uc001wlv.2	+	12	1468	c.1188A>G	c.(1186-1188)TCA>TCG	p.S396S	DCAF11_uc001wlw.2_Silent_p.S396S|DCAF11_uc001wlz.2_Silent_p.S296S|DCAF11_uc001wly.2_Silent_p.S352S|DCAF11_uc001wme.2_Silent_p.S356S|DCAF11_uc010tny.1_Silent_p.S263S|DCAF11_uc001wmd.2_Silent_p.S396S|DCAF11_uc001wmc.2_Silent_p.S296S|DCAF11_uc001wmb.3_Silent_p.S370S|DCAF11_uc001wma.3_Silent_p.S396S	NM_001163484	NP_001156956	Q8TEB1	DCA11_HUMAN	DDB1 and CUL4 associated factor 11 isoform 1	396						CUL4 RING ubiquitin ligase complex	protein binding				0						TGGAAGCTTCACGCCAGGCTG	0.527													6	84					0	0	0.001984	0	0		G	24590142	G	G	24590142	2	3	19	1	0	0	0	0	0	0	0	1	4265	146	6	3		3	DCAF11	14	24590142	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2151	24590142	82759398	2130	15643											
IRF9	10379	broad.mit.edu	37	chr14	24633834	24633834	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatccccagactactcactgCtgctcaccttcatctacaac	10	11	3	17	0	4	1	3	0	1	1	5	1	5	1	3	0	5	2	3	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:24633834C>T	uc001wmq.2	+	7	788	c.661C>T	c.(661-663)CTG>TTG	p.L221L	RNF31_uc001wmp.2_RNA|IRF9_uc010alj.2_Intron	NM_006084	NP_006075	Q00978	IRF9_HUMAN	interferon-stimulated transcription factor 3,	221					interferon-gamma-mediated signaling pathway|response to virus|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|nucleoplasm	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00853)		CTACTCACTGCTGCTCACCTT	0.637													10	228					0	0	0.013537	0	0		T	24633834	T	T	24633834	2	4	19	1	0	0	0	0	0	0	0	1	7853	796	28	2		2	IRF9	14	24633834	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	43692	24633834	82715706	2131	15644											
TSSK4	283629	broad.mit.edu	37	chr14	24675813	24675813	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaactggctcagggtggTgatgtccttgaatggatcca	8	11	14	8	0	1	2	1	2	0	0	3	4	3	4	2	5	1	1	2	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:24675813T>C	uc001wng.2	+	2	492	c.324T>C	c.(322-324)GGT>GGC	p.G108G	TM9SF1_uc010tob.1_Intron|TSSK4_uc001wne.2_Silent_p.G32G|TSSK4_uc001wnf.2_5'UTR|TSSK4_uc001wnh.2_Silent_p.G108G	NM_174944	NP_777604	Q6SA08	TSSK4_HUMAN	testis-specific serine kinase 4	108	Protein kinase.				cell differentiation|multicellular organismal development|positive regulation of CREB transcription factor activity|spermatogenesis		ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity				0				GBM - Glioblastoma multiforme(265;0.018)		CTCAGGGTGGTGATGTCCTTG	0.542													29	79					0	0	0.00632	0	0		C	24675813	C	C	24675813	2	2	19	1	0	0	0	0	0	0	0	1	16697	1683	59	3		3	TSSK4	14	24675813	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	41979	24675813	82673727	2132	15645											
SDR39U1	56948	broad.mit.edu	37	chr14	24910013	24910013	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgcaccaccacctggcgtgTagaatctccaggaagcctgg	9	6	12	14	2	1	1	0	0	1	1	2	2	1	2	5	3	1	2	5	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:24910013T>C	uc001wpm.2	-	5	480	c.448A>G	c.(448-450)ACA>GCA	p.T150A	KHNYN_uc010tpc.1_3'UTR|KHNYN_uc001wph.3_3'UTR|KHNYN_uc010alw.2_3'UTR|SDR39U1_uc001wpi.2_Missense_Mutation_p.T42A|SDR39U1_uc001wpj.2_Missense_Mutation_p.T68A|SDR39U1_uc001wpk.2_Missense_Mutation_p.T42A|SDR39U1_uc001wpl.2_Missense_Mutation_p.T95A|SDR39U1_uc001wpn.2_5'UTR|uc001wpo.1_5'Flank	NM_020195	NP_064580	Q9NRG7	D39U1_HUMAN	short chain dehydrogenase/reductase family 39U,	176							binding			pancreas(1)	1						ACCTGGCGTGTAGAATCTCCA	0.552													13	111					0	0	0.00245	0	0		C	24910013	C	C	24910013	3	2	19	1	0	0	0	0	1	0	0	0	13997	1638	57	3	441	3	SDR39U1	14	24910013	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	234200	24910013	82439527	2133	15646											
CTSG	1511	broad.mit.edu	37	chr14	25044010	25044010	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggcgcccagggtgacattTatattgctgcaaaagcaaga	12	9	12	8	1	0	2	0	1	0	1	0	2	0	2	1	2	3	3	1	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:25044010T>C	uc001wpq.2	-	3	247	c.210A>G	c.(208-210)ATA>ATG	p.I70M		NM_001911	NP_001902	P08311	CATG_HUMAN	cathepsin G preproprotein	70	Peptidase S1.				immune response|proteolysis	cell surface|extracellular space|plasma membrane|stored secretory granule	heparin binding|serine-type endopeptidase activity			ovary(2)	2				GBM - Glioblastoma multiforme(265;0.0269)		GGGTGACATTTATATTGCTGC	0.567													8	113					0	0	0.006214	0	0		C	25044010	C	C	25044010	3	2	19	1	0	0	0	0	1	0	0	0	4038	1744	61	3	569	3	CTSG	14	25044010	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	133997	25044010	82305530	2134	15647											
STXBP6	29091	broad.mit.edu	37	chr14	25288385	25288385	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgctgtcagcagctgaaTggaggatgctgtttcctgaa	9	11	12	9	1	2	2	2	2	0	0	3	4	3	4	1	2	3	5	1	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:25288385T>C	uc001wpu.2	-	5	1182	c.467A>G	c.(466-468)CAT>CGT	p.H156R	STXBP6_uc001wpv.2_Missense_Mutation_p.H156R|STXBP6_uc001wpw.2_Missense_Mutation_p.H156R|STXBP6_uc001wpx.1_RNA|STXBP6_uc001wpt.2_Missense_Mutation_p.H54R	NM_014178	NP_054897	Q8NFX7	STXB6_HUMAN	amisyn	156	v-SNARE coiled-coil homology.				vesicle-mediated transport	cytoplasm|integral to membrane					0				GBM - Glioblastoma multiforme(265;0.0296)		AGCAGCTGAATGGAGGATGCT	0.562													14	172					0	0	0.00245	0	0		C	25288385	C	C	25288385	3	2	19	1	0	0	0	0	1	0	0	0	15383	1464	51	3	173	3	STXBP6	14	25288385	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	244375	25288385	82061155	2135	15648											
FOXG1	2290	broad.mit.edu	37	chr14	29237197	29237197	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatctgtccctcaacaagTgcttcgtgaaggtgccgcgc	9	9	10	13	3	2	1	1	1	1	0	4	1	3	1	2	1	3	1	2	1	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:29237197T>A	uc001wqe.2	+	1	911	c.712T>A	c.(712-714)TGC>AGC	p.C238S		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	238	Fork-head.				axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		CCTCAACAAGTGCTTCGTGAA	0.592													14	33					0	0	0.008871	0	0		A	29237197	A	A	29237197	3	1	19	1	0	0	0	0	1	0	0	0	6021	1696	59	5	714	5	FOXG1	14	29237197	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3948812	29237197	78112343	2136	15649											
HECTD1	25831	broad.mit.edu	37	chr14	31576889	31576891	+	In_Frame_Del	DEL	CTT	-	-																															tgtgggtcccaagccagttcCttcttctcctaaaaattcaa																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:31576889_31576891delCTT	uc001wrc.1	-	37	6989_6991	c.6500_6502delAAG	c.(6499-6504)GAAGGA>GGA	p.E2167del	HECTD1_uc001wra.1_In_Frame_Del_p.E293del|HECTD1_uc001wrb.1_In_Frame_Del_p.E293del	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	2167	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		AAGCCAGTTCCTTCTTCTCCTAA	0.355													37	73	---	---	---	---						.	-	31576891	-	-	31576889	7	5	19	1	0	1	0	1	0	0	0	0	7055	690	24	0	1358	0	HECTD1	14	31576889	In_Frame_Del	DEL	CTT	TCGA-BR-4361-01A-01D-1158-08	2339692	31576889	75772651	2137	15650											
FSCB	84075	broad.mit.edu	37	chr14	44976167	44976167	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttttctctattacatcAgtttgctgggatttgcctac	6	20	6	9	0	3	0	1	0	2	0	4	1	3	1	1	1	4	2	1	1	3	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:44976167A>G	uc001wvn.2	-	1	333	c.24T>C	c.(22-24)ACT>ACC	p.T8T		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	8						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		CTATTACATCAGTTTGCTGGG	0.423													42	238					0	0	0.010771	0	0		G	44976167	G	G	44976167	2	3	19	1	0	0	0	0	0	0	0	1	6080	175	7	3		3	FSCB	14	44976167	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	13399278	44976167	62373373	2138	15651											
PRPF39	55015	broad.mit.edu	37	chr14	45583766	45583766	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctacacagatgattgaTggtgatttacaggcaaacca	14	11	8	8	0	2	4	1	3	1	1	2	4	2	4	1	2	3	1	1	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:45583766T>C	uc001wvz.3	+	13	2072	c.1902T>C	c.(1900-1902)GAT>GAC	p.D634D	PRPF39_uc001wvy.3_Silent_p.D513D|PRPF39_uc010and.2_Silent_p.D424D|PRPF39_uc001wwa.1_Silent_p.D238D	NM_017922	NP_060392	Q86UA1	PRP39_HUMAN	PRP39 pre-mRNA processing factor 39 homolog	634					mRNA processing|RNA splicing	nucleus	binding			ovary(1)|breast(1)	2						AGATGATTGATGGTGATTTAC	0.328													4	146					0	0	0.001168	0	0		C	45583766	C	C	45583766	2	2	19	1	0	0	0	0	0	0	0	1	12591	1461	51	3		3	PRPF39	14	45583766	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	607599	45583766	61765774	2139	15652											
FKBP3	2287	broad.mit.edu	37	chr14	45587241	45587241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaaaggatacttggcatcagGctgtcctttctttccgtaag	10	13	9	9	1	2	0	1	0	1	0	4	1	4	1	2	3	1	3	2	3	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:45587241G>A	uc010tqf.1	-	6	683	c.610C>T	c.(610-612)CCT>TCT	p.P204S		NM_002013	NP_002004	Q00688	FKBP3_HUMAN	FK506 binding protein 3, 25kDa	204	PPIase FKBP-type.				protein folding	membrane|nucleus	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|receptor activity				0						TTGGCATCAGGCTGTCCTTTC	0.408													67	163					0	0	0.01441	0	0		A	45587241	A	A	45587241	3	1	19	1	0	0	0	0	1	0	0	0	5923	1203	42	2	72	2	FKBP3	14	45587241	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3475	45587241	61762299	2140	15653											
FKBP3	2287	broad.mit.edu	37	chr14	45599093	45599093	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actttacttatactttcagtAcccttaaaacgctgtaagga	13	14	5	9	1	1	0	1	0	0	0	1	1	1	1	1	1	4	3	1	1	7	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:45599093A>G	uc010tqf.1	-	3	295	c.222T>C	c.(220-222)GGT>GGC	p.G74G		NM_002013	NP_002004	Q00688	FKBP3_HUMAN	FK506 binding protein 3, 25kDa	74					protein folding	membrane|nucleus	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|receptor activity				0						TACTTTCAGTACCCTTAAAAC	0.373													10	25					0	0	0.008291	0	0		G	45599093	G	G	45599093	2	3	19	1	0	0	0	0	0	0	0	1	5923	378	14	3		3	FKBP3	14	45599093	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	11852	45599093	61750447	2141	15654											
C14orf106	55320	broad.mit.edu	37	chr14	45700487	45700487	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtttggtcttttccctgTtcttttcaccagccctttaa	4	21	5	11	0	3	0	1	0	2	0	4	0	4	0	3	1	1	2	3	1	1	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:45700487T>C	uc001wwf.2	-	8	1910	c.1451A>G	c.(1450-1452)AAC>AGC	p.N484S	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	484					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						CTTTTCCCTGTTCTTTTCACC	0.299													23	38					0	0	0.014323	0	0		C	45700487	C	C	45700487	3	2	19	1	0	0	0	0	1	0	0	0	1741	1725	60	3	1987	3	C14orf106	14	45700487	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	101394	45700487	61649053	2142	15655											
RPL10L	140801	broad.mit.edu	37	chr14	47120567	47120567	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgtggacccgggctacagTaccctggggttttccaaagg	9	9	13	10	1	0	0	0	0	0	0	1	1	1	1	3	5	2	3	3	5	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:47120567T>C	uc001wwg.2	-	1	462	c.373A>G	c.(373-375)ACT>GCT	p.T125A		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	125					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						CGGGCTACAGTACCCTGGGGT	0.547													4	70					0	0	0.000602	0	0		C	47120567	C	C	47120567	3	2	19	1	0	0	0	0	1	0	0	0	13581	1638	57	3	275	3	RPL10L	14	47120567	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1420080	47120567	60228973	2143	15656											
RPL10L	140801	broad.mit.edu	37	chr14	47120671	47120671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacatggaagggatggagcCgcactcgcatgtgaaagcca	12	6	14	9	2	0	2	0	2	0	0	1	5	0	5	2	3	2	2	2	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:47120671C>T	uc001wwg.2	-	1	358	c.269G>A	c.(268-270)CGG>CAG	p.R90Q		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	90					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						GGGATGGAGCCGCACTCGCAT	0.537													34	49					0	0	0.004289	0	0		T	47120671	T	T	47120671	3	4	19	1	0	0	0	0	1	0	0	0	13581	652	23	1	379	1	RPL10L	14	47120671	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	104	47120671	60228869	2144	15657											
SAV1	60485	broad.mit.edu	37	chr14	51132299	51132299	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	acagatatcagttcgtcttgGaattgttggaccatgccgga	10	12	11	8	2	2	1	1	0	1	1	3	4	2	4	2	3	1	2	2	3	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:51132299G>C	uc001wyg.1	-	3	294	c.133C>G	c.(133-135)CCA>GCA	p.P45A	SAV1_uc001wyh.1_Missense_Mutation_p.P45A	NM_021818	NP_068590	Q9H4B6	SAV1_HUMAN	WW45 protein	45					hippo signaling cascade	cytoplasm|nucleus	identical protein binding			breast(1)	1	all_epithelial(31;0.000611)|Breast(41;0.0333)					GTTCGTCTTGGAATTGTTGGA	0.358													3	68					0	0	0.000602	0	0		C	51132299	C	C	51132299	3	2	19	1	0	0	0	0	1	0	0	0	13881	1174	41	5	1034	5	SAV1	14	51132299	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4011628	51132299	56217241	2145	15658											
NIN	51199	broad.mit.edu	37	chr14	51219431	51219431	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaaatccaattgttggttTttgatttttaattctgaaat	11	20	5	5	0	1	2	0	2	1	0	3	2	3	2	2	1	0	2	2	1	4	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:51219431T>C	uc001wym.2	-	21	4946	c.4755A>G	c.(4753-4755)AAA>AAG	p.K1585K	NIN_uc001wyi.2_Silent_p.K1585K|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Silent_p.K872K|NIN_uc010tqp.1_Silent_p.K1591K|NIN_uc001wyo.2_Silent_p.K1585K	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1585	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					ATTGTTGGTTTTTGATTTTTA	0.269			T	PDGFRB	MPD								13	128					0	0	0.013537	0	0		C	51219431	C	C	51219431	2	2	19	1	0	0	0	0	0	0	0	1	10436	1838	64	3		3	NIN	14	51219431	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	87132	51219431	56130109	2146	15659											
NIN	51199	broad.mit.edu	37	chr14	51224055	51224055	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcatcttcagtttctttttTagcacagaaacatcaaaaag	15	13	5	8	0	4	1	2	0	2	1	4	1	4	1	0	0	3	3	0	0	4	5	rs34636266		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:51224055T>A	uc001wym.2	-	18	3884	c.3693A>T	c.(3691-3693)CTA>CTT	p.L1231L	NIN_uc001wyi.2_Silent_p.L1231L|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Intron|NIN_uc010tqp.1_Silent_p.L1237L|NIN_uc001wyo.2_Silent_p.L1231L	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1231	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					GTTTCTTTTTTAGCACAGAAA	0.413			T	PDGFRB	MPD								77	172					0	0	0.01441	0	0		A	51224055	A	A	51224055	2	1	19	1	0	0	0	0	0	0	0	1	10436	1741	61	5		5	NIN	14	51224055	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4624	51224055	56125485	2147	15660											
ABHD12B	145447	broad.mit.edu	37	chr14	51347272	51347272	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaattattgtttatcttcaTggcagtgcagaacacaggtc	11	13	8	9	0	2	1	1	0	1	1	3	1	2	1	1	2	2	3	1	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:51347272T>C	uc001wys.2	+	4	453	c.438T>C	c.(436-438)CAT>CAC	p.H146H	ABHD12B_uc001wyq.2_Silent_p.H39H|ABHD12B_uc001wyr.2_Silent_p.H69H|ABHD12B_uc010any.2_RNA	NM_181533	NP_853511	Q7Z5M8	AB12B_HUMAN	abhydrolase domain containing 12B isoform b	146							hydrolase activity			breast(1)	1	all_epithelial(31;0.00481)|Breast(41;0.148)					TTTATCTTCATGGCAGTGCAG	0.507													77	130					0	0	0.01441	0	0		C	51347272	C	C	51347272	2	2	19	1	0	0	0	0	0	0	0	1	77	1461	51	3		3	ABHD12B	14	51347272	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	123217	51347272	56002268	2148	15661											
TRIM9	114088	broad.mit.edu	37	chr14	51561624	51561624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatagaaggagccgcacaCggggcatttcaactcctctt	10	8	10	13	3	2	1	1	0	1	1	3	3	3	2	3	3	2	2	3	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:51561624C>T	uc001wyx.3	-	1	799	c.34G>A	c.(34-36)GTG>ATG	p.V12M	TRIM9_uc001wyy.2_Missense_Mutation_p.V12M|TRIM9_uc001wyz.3_Missense_Mutation_p.V12M	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	12	RING-type.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					GAGCCGCACACGGGGCATTTC	0.637													6	18					0	0	0.001168	0	0		T	51561624	T	T	51561624	3	4	19	1	0	0	0	0	1	0	0	0	16575	536	19	1	2188	1	TRIM9	14	51561624	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	214352	51561624	55787916	2149	15662											
FRMD6	122786	broad.mit.edu	37	chr14	52174925	52174925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtccgactggatgacgtcGctgttcattactacagattg	8	13	10	10	3	1	2	1	1	0	1	3	4	2	3	1	1	2	2	1	1	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:52174925G>A	uc001wzd.2	+	7	973	c.688G>A	c.(688-690)GCT>ACT	p.A230T	FRMD6_uc001wzb.2_Missense_Mutation_p.A222T|FRMD6_uc001wzc.2_Missense_Mutation_p.A222T|FRMD6_uc001wze.2_Missense_Mutation_p.A153T	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	230	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					GGATGACGTCGCTGTTCATTA	0.403													14	33					0	0	0.001855	0	0		A	52174925	A	A	52174925	3	1	19	1	0	0	0	0	1	0	0	0	6068	1087	38	1	686	1	FRMD6	14	52174925	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	613301	52174925	55174615	2150	15663											
C14orf166	51637	broad.mit.edu	37	chr14	52468574	52468574	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagttgctaaggcaaatcAaacaaaagaggtacgtttct	15	10	9	7	1	2	1	1	0	1	1	2	1	2	1	0	2	4	6	0	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:52468574A>G	uc010aod.2	+	6	651	c.521A>G	c.(520-522)CAA>CGA	p.Q174R	C14orf166_uc001wzm.3_Missense_Mutation_p.Q40R|C14orf166_uc001wzn.3_Missense_Mutation_p.Q36R	NM_016039	NP_057123	Q9Y224	CN166_HUMAN	homeobox prox 1	174						microtubule organizing center|nucleus|perinuclear region of cytoplasm|tRNA-splicing ligase complex	identical protein binding				0	Breast(41;0.0639)|all_epithelial(31;0.101)					AAGGCAAATCAAACAAAAGAG	0.348													3	58					0	0	0.004672	0	0		G	52468574	G	G	52468574	3	3	19	1	0	0	0	0	1	0	0	0	1759	130	5	3	543	3	C14orf166	14	52468574	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	293649	52468574	54880966	2151	15664											
PTGER2	5732	broad.mit.edu	37	chr14	52781392	52781392	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctggggaacctcatagcActggcgctgctggcgcgccg	5	7	16	13	4	1	0	1	0	0	0	1	1	1	1	2	4	4	4	2	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:52781392A>G	uc001wzr.2	+	1	377	c.126A>G	c.(124-126)GCA>GCG	p.A42A		NM_000956	NP_000947	P43116	PE2R2_HUMAN	prostaglandin E receptor 2 (subtype EP2), 53kDa	42	Helical; Name=1; (Potential).					integral to plasma membrane	prostaglandin E receptor activity			lung(1)|breast(1)	2	Breast(41;0.0639)|all_epithelial(31;0.0729)				Alprostadil(DB00770)|Iloprost(DB01088)	ACCTCATAGCACTGGCGCTGC	0.687													7	20					0	0	0.010729	0	0		G	52781392	G	G	52781392	2	3	19	1	0	0	0	0	0	0	0	1	12766	146	6	3		3	PTGER2	14	52781392	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	312818	52781392	54568148	2152	15665											
GPR137C	283554	broad.mit.edu	37	chr14	53020116	53020116	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggctgagttaccagagccTctgcctcttcctctgtctcc	4	12	9	16	1	4	2	0	1	4	1	6	2	5	2	5	1	3	2	5	1	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:53020116T>A	uc001wzu.3	+	1	251	c.251T>A	c.(250-252)CTC>CAC	p.L84H	TXNDC16_uc010tqu.1_5'Flank|TXNDC16_uc001wzs.2_5'Flank|TXNDC16_uc010aoe.2_5'Flank|GPR137C_uc001wzt.3_Missense_Mutation_p.L84H	NM_001099652	NP_001093122	Q8N3F9	G137C_HUMAN	G protein-coupled receptor 137C	84	Helical; (Potential).					integral to membrane					0	Breast(41;0.0716)					TACCAGAGCCTCTGCCTCTTC	0.687													16	19					0	0	0.00499	0	0		A	53020116	A	A	53020116	3	1	19	1	0	0	0	0	1	0	0	0	6662	1551	54	5	253	5	GPR137C	14	53020116	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	238724	53020116	54329424	2153	15666											
GNPNAT1	64841	broad.mit.edu	37	chr14	53250196	53250196	+	Frame_Shift_Del	DEL	A	-	-																															gttagctgacccaataccttAaaaaaacctagttttgaaaa																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:53250196delA	uc001xab.2	-	3	417	c.162delT	c.(160-162)TTTfs	p.F54fs		NM_198066	NP_932332	Q96EK6	GNA1_HUMAN	glucosamine-phosphate N-acetyltransferase 1	54	N-acetyltransferase.				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol|endosome membrane|Golgi membrane	glucosamine 6-phosphate N-acetyltransferase activity				0	Breast(41;0.176)					CCAATACCTTAAAAAAACCTA	0.348													20	45	---	---	---	---						.	-	53250196	-	-	53250196	7	5	19	1	0	1	0	1	0	0	0	0	6559	359	13	0	408	0	GNPNAT1	14	53250196	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	230080	53250196	54099344	2154	15667											
FERMT2	10979	broad.mit.edu	37	chr14	53417283	53417283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catccttatcccgtccagagCcatggctccttcctgcgagc	6	10	8	17	2	0	1	0	0	0	1	5	2	5	1	6	1	3	1	6	1	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:53417283C>T	uc001xad.2	-	2	59	c.4G>A	c.(4-6)GCT>ACT	p.A2T	FERMT2_uc001xac.2_Missense_Mutation_p.A2T|FERMT2_uc001xae.2_Missense_Mutation_p.A2T|FERMT2_uc001xaf.2_Missense_Mutation_p.A2T	NM_006832	NP_006823	Q96AC1	FERM2_HUMAN	fermitin family homolog 2 isoform 1	2					actin cytoskeleton organization|cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytosol|focal adhesion|stress fiber	binding				0	Breast(41;0.0342)					CCGTCCAGAGCCATGGCTCCT	0.617													63	115					0	0	0.01441	0	0		T	53417283	T	T	53417283	3	4	19	1	0	0	0	0	1	0	0	0	5832	739	26	2	2131	2	FERMT2	14	53417283	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	167087	53417283	53932257	2155	15668											
DDHD1	80821	broad.mit.edu	37	chr14	53529696	53529696	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagttcatcaagaagatgTcgttcttcatagctcatcca	12	13	7	9	1	5	3	4	0	1	3	7	3	6	3	1	0	1	3	1	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:53529696T>C	uc001xai.2	-	7	1961	c.1731A>G	c.(1729-1731)CGA>CGG	p.R577R	DDHD1_uc001xaj.2_Silent_p.R584R|DDHD1_uc001xah.2_Silent_p.R577R|DDHD1_uc001xag.2_Silent_p.R159R|DDHD1_uc001xak.1_5'Flank	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	577					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					CAAGAAGATGTCGTTCTTCAT	0.373													5	154					0	0	0.000602	0	0		C	53529696	C	C	53529696	2	2	19	1	0	0	0	0	0	0	0	1	4329	1654	58	3		3	DDHD1	14	53529696	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	112413	53529696	53819844	2156	15669											
CDKN3	1033	broad.mit.edu	37	chr14	54886723	54886723	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcagcaatacaattatcTtcatgagtttcgggacaaat	13	15	6	7	1	3	1	2	1	1	0	4	2	3	2	0	1	2	2	0	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:54886723T>G	uc001xap.2	+	8	680	c.566T>G	c.(565-567)CTT>CGT	p.L189R	CDKN3_uc001xar.2_Missense_Mutation_p.L149R|CDKN3_uc001xaq.2_Missense_Mutation_p.L188R|CDKN3_uc001xas.1_Intron|CDKN3_uc010aoj.1_RNA	NM_005192	NP_005183	Q16667	CDKN3_HUMAN	cyclin-dependent kinase inhibitor 3 isoform 1	189					cell cycle arrest|G1/S transition of mitotic cell cycle|negative regulation of cell proliferation|regulation of cyclin-dependent protein kinase activity	perinuclear region of cytoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0						TACAATTATCTTCATGAGTTT	0.323													3	82					0	0	0.000602	0	0		G	54886723	G	G	54886723	3	3	19	1	0	0	0	0	1	0	0	0	3170	1609	56	5	596	5	CDKN3	14	54886723	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1357027	54886723	52462817	2157	15670											
EXOC5	10640	broad.mit.edu	37	chr14	57676479	57676479	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccacttgttttcttacgtAagcacagacttttacacagg	10	14	6	11	1	1	1	0	0	1	1	2	1	2	1	1	1	3	3	1	1	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:57676479A>T	uc001xct.2	-	17	1995	c.1744T>A	c.(1744-1746)TAC>AAC	p.Y582N	EXOC5_uc001xcs.2_Missense_Mutation_p.Y261N|EXOC5_uc010trg.1_Missense_Mutation_p.Y527N|EXOC5_uc010trh.1_Missense_Mutation_p.Y517N	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	582					exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						TTTCTTACGTAAGCACAGACT	0.353													4	11					0	0	0.000602	0	0		T	57676479	T	T	57676479	3	4	19	1	0	0	0	0	1	0	0	0	5315	362	13	5	390	5	EXOC5	14	57676479	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2789756	57676479	49673061	2158	15671											
DACT1	51339	broad.mit.edu	37	chr14	59113577	59113577	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggacaccagtgaggacgagCagagcaattacaccaccaac	15	4	10	12	1	0	2	0	1	0	1	0	5	0	4	3	2	4	2	3	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:59113577C>T	uc001xdw.2	+	4	2400	c.2236C>T	c.(2236-2238)CAG>TAG	p.Q746*	DACT1_uc010trv.1_Nonsense_Mutation_p.Q465*|DACT1_uc001xdx.2_Nonsense_Mutation_p.Q709*|DACT1_uc010trw.1_Nonsense_Mutation_p.Q465*	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	746					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						TGAGGACGAGCAGAGCAATTA	0.617													29	88					0	0	0.008361	0	0		T	59113577	T	T	59113577	4	4	19	1	0	0	0	0	0	1	0	0	4225	711	25	2	2250	2	DACT1	14	59113577	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1437098	59113577	48235963	2159	15672											
DAAM1	23002	broad.mit.edu	37	chr14	59791105	59791105	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacttcatcttcgctatgaaTttctgatgttaggaattcaa	11	16	7	7	1	4	2	2	2	2	0	5	4	4	3	0	1	0	2	0	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:59791105T>A	uc001xdz.1	+	8	1047	c.922T>A	c.(922-924)TTT>ATT	p.F308I	DAAM1_uc001xea.1_Missense_Mutation_p.F308I|DAAM1_uc001xeb.1_Missense_Mutation_p.F308I	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of	308	GBD/FH3.				actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		TCGCTATGAATTTCTGATGTT	0.299													15	74					0	0	0.006122	0	0		A	59791105	A	A	59791105	3	1	19	1	0	0	0	0	1	0	0	0	4218	1493	52	5	948	5	DAAM1	14	59791105	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	677528	59791105	47558435	2160	15673											
DAAM1	23002	broad.mit.edu	37	chr14	59835393	59835393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaacaacgtgaaagggaacGtaaaatgagaaaagctaaag	22	4	11	4	2	0	3	0	2	0	2	0	5	0	4	0	1	4	2	0	1	10	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:59835393G>A	uc001xdz.1	+	26	3178	c.3053G>A	c.(3052-3054)CGT>CAT	p.R1018H	DAAM1_uc001xea.1_Missense_Mutation_p.R1008H|DAAM1_uc001xec.1_RNA	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of	1018					actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		GAAAGGGAACGTAAAATGAGA	0.378													15	30					0	0	0.003163	0	0		A	59835393	A	A	59835393	3	1	19	1	0	0	0	0	1	0	0	0	4218	1145	40	1	3151	1	DAAM1	14	59835393	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	44288	59835393	47514147	2161	15674											
PPM1A	5494	broad.mit.edu	37	chr14	60756548	60756548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cataaagaagcagggggaagGcgtccccgacttagtccatg	12	6	13	10	2	0	1	0	0	0	1	2	3	2	2	3	3	1	1	3	3	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:60756548G>A	uc010apn.2	+	5	1379	c.977G>A	c.(976-978)GGC>GAC	p.G326D	PPM1A_uc001xew.3_Missense_Mutation_p.G399D|PPM1A_uc001xey.3_Missense_Mutation_p.G326D	NM_021003	NP_066283	P35813	PPM1A_HUMAN	protein phosphatase 1A isoform 1	326					cell cycle arrest|insulin receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein dephosphorylation|Wnt receptor signaling pathway	cytosol|nucleus|protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein serine/threonine phosphatase activity|signal transducer activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.046)		CAGGGGGAAGGCGTCCCCGAC	0.428													4	40					0	0	0.009096	0	0		A	60756548	A	A	60756548	3	1	19	1	0	0	0	0	1	0	0	0	12357	1203	42	2	1233	2	PPM1A	14	60756548	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	921155	60756548	46592992	2162	15675											
SIX6	4990	broad.mit.edu	37	chr14	60977805	60977805	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccctttcttccccgtagactCcagcagcaggtcctgtcaca	7	10	7	17	1	2	1	1	0	1	1	5	1	5	1	5	1	2	3	5	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:60977805C>T	uc001xfa.3	+	2	755	c.576C>T	c.(574-576)CTC>CTT	p.L192L		NM_007374	NP_031400	O95475	SIX6_HUMAN	SIX homeobox 6	192					organ morphogenesis|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.088)		CCCGTAGACTCCAGCAGCAGG	0.716													12	23					0	0	0.013537	0	0		T	60977805	T	T	60977805	2	4	19	1	0	0	0	0	0	0	0	1	14376	842	30	4		4	SIX6	14	60977805	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	221257	60977805	46371735	2163	15676											
PRKCH	5583	broad.mit.edu	37	chr14	62014542	62014542	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttgagacatcctttttttAaggaaatcgactgggcccag	10	13	9	9	1	1	1	0	1	1	1	3	4	2	2	2	2	0	0	2	2	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:62014542A>T	uc001xfn.2	+	13	2148	c.1843A>T	c.(1843-1845)AAG>TAG	p.K615*	PRKCH_uc010tsa.1_Nonsense_Mutation_p.K454*|PRKCH_uc010tsb.1_Nonsense_Mutation_p.K183*|PRKCH_uc001xfo.2_RNA	NM_006255	NP_006246	P24723	KPCL_HUMAN	protein kinase C, eta	615	AGC-kinase C-terminal.				intracellular signal transduction|platelet activation	cytosol|plasma membrane	ATP binding|enzyme binding|metal ion binding|protein kinase C activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|large_intestine(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(108;0.045)|BRCA - Breast invasive adenocarcinoma(234;0.0906)|KIRC - Kidney renal clear cell carcinoma(182;0.182)		TCCTTTTTTTAAGGAAATCGA	0.517													103	243					0	0	0.01441	0	0		T	62014542	T	T	62014542	4	4	19	1	0	0	0	0	0	1	0	0	12535	363	13	5	1893	5	PRKCH	14	62014542	Nonsense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1036737	62014542	45334998	2164	15677											
SYNE2	23224	broad.mit.edu	37	chr14	64637149	64637149	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggagcgcttcagcctctAccaaaccagaagtctgatcc	11	7	8	15	1	3	2	1	1	2	1	4	3	4	3	5	1	4	1	5	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:64637149A>G	uc001xgm.2	+	94	17434	c.17204A>G	c.(17203-17205)TAC>TGC	p.Y5735C	SYNE2_uc001xgl.2_Missense_Mutation_p.Y5735C|SYNE2_uc010apy.2_Missense_Mutation_p.Y2120C|SYNE2_uc001xgn.2_Missense_Mutation_p.Y697C|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_5'UTR|SYNE2_uc001xgq.2_Missense_Mutation_p.Y100C	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5735	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TTCAGCCTCTACCAAACCAGA	0.493													9	19					0	0	0.006214	0	0		G	64637149	G	G	64637149	3	3	19	1	0	0	0	0	1	0	0	0	15471	391	14	3	17574	3	SYNE2	14	64637149	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2622607	64637149	42712391	2165	15678											
AKAP5	9495	broad.mit.edu	37	chr14	64935100	64935100	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttttctagagaataagaGtgcagtgtaaaaatggaaac	17	10	10	4	0	1	2	0	0	1	2	1	4	1	3	0	1	2	3	0	1	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:64935100G>A	uc001xhd.3	+	2	366	c.-12G>A	c.(-14--10)GAGTG>GAATG		ZBTB25_uc001xhc.2_Intron	NM_004857	NP_004848	P24588	AKAP5_HUMAN	A-kinase anchor protein 5						energy reserve metabolic process|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting|regulation of insulin secretion|signal transduction|synaptic transmission	cytosol	adenylate cyclase binding|calmodulin binding				0				all cancers(60;0.00749)|OV - Ovarian serous cystadenocarcinoma(108;0.0095)|BRCA - Breast invasive adenocarcinoma(234;0.0449)		GAGAATAAGAGTGCAGTGTAA	0.388													14	26					0	0	0.00245	0	0		A	64935100	A	A	64935100	1	1	19	1	0	0	0	0	0	0	0	0	454	1044	36	4		4	AKAP5	14	64935100	Translation_Start_Site	SNP	G	TCGA-BR-4361-01A-01D-1158-08	297951	64935100	42414440	2166	15679											
SPTB	6710	broad.mit.edu	37	chr14	65260168	65260170	+	In_Frame_Del	DEL	TTC	-	-																															agttctcagcatcctggaggTtcttcttgcagaaggcagcc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:65260168_65260170delTTC	uc001xht.2	-	13	2265_2267	c.2211_2213delGAA	c.(2209-2214)AAGAAC>AAC	p.K737del	SPTB_uc001xhr.2_In_Frame_Del_p.K737del|SPTB_uc001xhs.2_In_Frame_Del_p.K737del|SPTB_uc001xhu.2_In_Frame_Del_p.K737del	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	737	Spectrin 5.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		ATCCTGGAGGTTCTTCTTGCAGA	0.591													21	40	---	---	---	---						.	-	65260170	-	-	65260168	7	5	19	1	0	1	0	1	0	0	0	0	15143	1725	60	0	4934	0	SPTB	14	65260168	In_Frame_Del	DEL	TTC	TCGA-BR-4361-01A-01D-1158-08	325068	65260168	42089372	2167	15680											
SPTB	6710	broad.mit.edu	37	chr14	65260187	65260187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttcttcttgcagaaggcagCcaggtccttcagctggtccc	6	11	11	13	0	3	1	1	0	2	1	5	1	5	1	3	3	3	4	3	3	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:65260187C>T	uc001xht.2	-	13	2248	c.2194G>A	c.(2194-2196)GCT>ACT	p.A732T	SPTB_uc001xhr.2_Missense_Mutation_p.A732T|SPTB_uc001xhs.2_Missense_Mutation_p.A732T|SPTB_uc001xhu.2_Missense_Mutation_p.A732T	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	732	Spectrin 5.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		CAGAAGGCAGCCAGGTCCTTC	0.602													5	44					0	0	0.001984	0	0		T	65260187	T	T	65260187	3	4	19	1	0	0	0	0	1	0	0	0	15143	739	26	2	4953	2	SPTB	14	65260187	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	19	65260187	42089353	2168	15681											
GPX2	2877	broad.mit.edu	37	chr14	65406491	65406491	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacaagggtgaaggtgggCtggtatccacccccaggacg	9	6	16	10	1	0	1	0	1	0	0	1	3	1	3	3	6	0	2	3	6	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:65406491C>T	uc010tsn.1	-	3	375	c.288G>A	c.(286-288)CAG>CAA	p.Q96Q	CHURC1_uc010tsj.1_Intron|CHURC1_uc010tsk.1_Intron|FNTB_uc010tsl.1_Intron|FNTB_uc010tsm.1_Intron|GPX2_uc001xhy.1_RNA	NM_002083	NP_002074	P18283	GPX2_HUMAN	glutathione peroxidase 2	96					response to oxidative stress	cytoplasm	electron carrier activity|glutathione peroxidase activity			ovary(1)	1				all cancers(60;0.00117)|OV - Ovarian serous cystadenocarcinoma(108;0.00557)|BRCA - Breast invasive adenocarcinoma(234;0.00971)	Glutathione(DB00143)	TGAAGGTGGGCTGGTATCCAC	0.522													4	93					0	0	0.009096	0	0		T	65406491	T	T	65406491	2	4	19	1	0	0	0	0	0	0	0	1	6756	796	28	2		2	GPX2	14	65406491	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	146304	65406491	41943049	2169	15682											
VTI1B	10490	broad.mit.edu	37	chr14	68129195	68129195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttgttccttgttctcaccGtttcatttgcttcctgttgc	3	21	6	11	1	2	0	2	0	1	0	5	0	4	0	3	0	2	5	3	0	0	8	rs141864546		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:68129195G>A	uc001xjt.2	-	2	569	c.173C>T	c.(172-174)ACG>ATG	p.T58M	VTI1B_uc010aqp.2_Translation_Start_Site|VTI1B_uc001xju.2_Intron	NM_006370	NP_006361	Q9UEU0	VTI1B_HUMAN	vesicle transport through interaction with	58	Potential.|Cytoplasmic (Potential).				cell proliferation|cellular membrane fusion|intracellular protein transport|vesicle docking involved in exocytosis	endomembrane system|integral to membrane					0				all cancers(60;0.000344)|OV - Ovarian serous cystadenocarcinoma(108;0.00212)|BRCA - Breast invasive adenocarcinoma(234;0.00941)		TGTTCTCACCGTTTCATTTGC	0.328													11	45					0	0	0.010729	0	0		A	68129195	A	A	68129195	3	1	19	1	0	0	0	0	1	0	0	0	17262	1159	40	1	545	1	VTI1B	14	68129195	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2722704	68129195	39220345	2170	15683											
ZFYVE26	23503	broad.mit.edu	37	chr14	68270908	68270908	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaaggtttgtaaggtgatGgagagtgtagagcactgagt	11	11	17	2	0	0	4	0	2	0	2	0	6	0	5	0	4	1	4	0	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:68270908G>T	uc001xka.2	-	9	1484	c.1345C>A	c.(1345-1347)CAT>AAT	p.H449N	ZFYVE26_uc010tsz.1_Intron|ZFYVE26_uc001xkc.3_Missense_Mutation_p.H449N|ZFYVE26_uc010tta.1_Missense_Mutation_p.H449N	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	449					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		GTAAGGTGATGGAGAGTGTAG	0.507													28	60					1.39806e-14	1.47719e-14	0.008361	1	0		T	68270908	T	T	68270908	3	4	19	1	0	0	0	0	1	0	0	0	17693	1348	47	5	6410	5	ZFYVE26	14	68270908	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	141713	68270908	39078632	2171	15684											
ACTN1	87	broad.mit.edu	37	chr14	69371427	69371427	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctgccacgtcaaaagcCgtattcagatttgtgagtgg	9	13	10	9	2	3	2	2	1	1	1	4	2	3	2	2	1	2	1	2	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:69371427C>T	uc001xkl.2	-	7	931	c.621G>A	c.(619-621)ACG>ACA	p.T207T	ACTN1_uc010ttb.1_Silent_p.T142T|ACTN1_uc001xkm.2_Silent_p.T207T|ACTN1_uc001xkn.2_Silent_p.T207T|ACTN1_uc001xko.1_Silent_p.T142T|ACTN1_uc010ttd.1_Silent_p.T186T	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	207	CH 2.|Actin-binding.				focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		CGTCAAAAGCCGTATTCAGAT	0.522													30	72					0	0	0.012213	0	0		T	69371427	T	T	69371427	2	4	19	1	0	0	0	0	0	0	0	1	204	639	23	1		1	ACTN1	14	69371427	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1100519	69371427	37978113	2172	15685											
SLC39A9	55334	broad.mit.edu	37	chr14	69925109	69925109	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagccctttcagaggtgaaCgccacgggagtggccatgct	9	7	14	11	2	1	2	1	1	0	1	1	4	1	3	3	3	3	1	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:69925109C>T	uc001xle.2	+	7	1403	c.723C>T	c.(721-723)AAC>AAT	p.N241N	SLC39A9_uc010aqx.2_Silent_p.N218N|SLC39A9_uc001xlf.3_Intron|SLC39A9_uc001xlg.3_RNA	NM_018375	NP_060845	Q9NUM3	S39A9_HUMAN	solute carrier family 39 (zinc transporter),	241					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity				0				all cancers(60;0.00299)|BRCA - Breast invasive adenocarcinoma(234;0.0145)|OV - Ovarian serous cystadenocarcinoma(108;0.0373)		CAGAGGTGAACGCCACGGGAG	0.488													85	181					0	0	0.01441	0	0		T	69925109	T	T	69925109	2	4	19	1	0	0	0	0	0	0	0	1	14650	535	19	1		1	SLC39A9	14	69925109	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	553682	69925109	37424431	2173	15686											
SLC8A3	6547	broad.mit.edu	37	chr14	70634916	70634916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaaatagacaatgaccctgGcaatcttgtccccaagggaa	15	7	8	11	0	1	2	0	1	1	1	2	3	2	3	3	2	0	1	3	2	7	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:70634916G>A	uc001xly.2	-	2	978	c.224C>T	c.(223-225)GCC>GTC	p.A75V	SLC8A3_uc001xlw.2_Missense_Mutation_p.A75V|SLC8A3_uc001xlx.2_Missense_Mutation_p.A75V|SLC8A3_uc001xlz.2_Missense_Mutation_p.A75V|SLC8A3_uc010ara.2_RNA	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	75	Helical; (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		AATGACCCTGGCAATCTTGTC	0.512													3	46					0	0	0.009096	0	0		A	70634916	A	A	70634916	3	1	19	1	0	0	0	0	1	0	0	0	14733	1203	42	2	2698	2	SLC8A3	14	70634916	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	709807	70634916	36714624	2174	15687											
ADAM21	8747	broad.mit.edu	37	chr14	70924361	70924361	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgatccccttgaaggtgAtcagcaggggcagaagtgca	10	8	15	8	0	1	4	1	3	0	1	2	4	2	4	2	4	2	3	2	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:70924361A>G	uc001xmd.2	+	1	145	c.145A>G	c.(145-147)ATC>GTC	p.I49V		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	49					proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		CTTGAAGGTGATCAGCAGGGG	0.542													22	164					0	0	0.004656	0	0		G	70924361	G	G	70924361	3	3	19	1	0	0	0	0	1	0	0	0	243	333	12	3	147	3	ADAM21	14	70924361	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	289445	70924361	36425179	2175	15688											
ADAM20	8748	broad.mit.edu	37	chr14	70990174	70990174	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtacagtttaacagacaaCagggatcttttgcacactgc	13	10	9	9	0	1	1	0	0	1	1	1	3	1	2	0	1	5	3	0	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:70990174C>T	uc001xme.2	-	2	1696	c.1451G>A	c.(1450-1452)TGT>TAT	p.C484Y		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	434	Disintegrin.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		TAACAGACAACAGGGATCTTT	0.433													12	174					0	0	0.001855	0	0		T	70990174	T	T	70990174	3	4	19	1	0	0	0	0	1	0	0	0	242	478	17	4	883	4	ADAM20	14	70990174	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	65813	70990174	36359366	2176	15689											
DCAF4	26094	broad.mit.edu	37	chr14	73420907	73420907	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgctctgcagtttccggAtccctggtgcctggtcctgt	3	13	12	13	1	1	0	0	0	1	0	4	1	4	1	4	3	3	4	4	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:73420907A>T	uc001xng.2	+	10	1064	c.844A>T	c.(844-846)ATC>TTC	p.I282F	DCAF4_uc001xnj.2_Missense_Mutation_p.I283F|DCAF4_uc010ttr.1_Missense_Mutation_p.I261F|DCAF4_uc001xnh.2_Missense_Mutation_p.I182F|DCAF4_uc010tts.1_Missense_Mutation_p.I222F|DCAF4_uc010ttt.1_Missense_Mutation_p.I68F|DCAF4_uc001xni.2_Intron|DCAF4_uc001xnk.2_Missense_Mutation_p.I282F	NM_015604	NP_056419	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4 isoform 1	282						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)|skin(1)	3						CAGTTTCCGGATCCCTGGTGC	0.572													41	310					0	0	0.010771	0	0		T	73420907	T	T	73420907	3	4	19	1	0	0	0	0	1	0	0	0	4273	333	12	5	881	5	DCAF4	14	73420907	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2430733	73420907	33928633	2177	15690											
C14orf43	91748	broad.mit.edu	37	chr14	74196578	74196578	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgttggagtagacgggaggGgcgatgaaagtgcccgcctt	9	8	17	7	3	0	2	0	1	0	1	0	5	0	4	2	4	1	2	2	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:74196578G>T	uc001xot.2	-	4	2643	c.1860C>A	c.(1858-1860)GCC>GCA	p.A620A	C14orf43_uc001xos.2_5'Flank|C14orf43_uc001xou.2_Silent_p.A620A|C14orf43_uc010tud.1_Silent_p.A620A|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	620					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		AGACGGGAGGGGCGATGAAAG	0.632													8	48					0.000442599	0.000452545	0.006214	1	0		T	74196578	T	T	74196578	2	4	19	1	0	0	0	0	0	0	0	1	1777	1219	43	5		5	C14orf43	14	74196578	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	775671	74196578	33152962	2178	15691											
TTLL5	23093	broad.mit.edu	37	chr14	76330197	76330197	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggaccagagtcgagccCggcaccaggtaattcaagat	11	7	11	12	2	1	2	1	0	0	2	3	4	2	3	4	3	1	2	4	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:76330197C>T	uc001xrx.2	+	29	3719	c.3514C>T	c.(3514-3516)CGG>TGG	p.R1172W	TTLL5_uc010ask.1_Missense_Mutation_p.R1187W|TTLL5_uc001xrz.2_Missense_Mutation_p.R747W|TTLL5_uc001xsa.2_Missense_Mutation_p.R246W	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	1172					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		GAGTCGAGCCCGGCACCAGGT	0.428													24	62					0	0	0.00333	0	0		T	76330197	T	T	76330197	3	4	19	1	0	0	0	0	1	0	0	0	16756	643	23	1	3624	1	TTLL5	14	76330197	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2133619	76330197	31019343	2179	15692											
C14orf118	55668	broad.mit.edu	37	chr14	76620992	76620992	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgacacaatggtagccaaaCgacacccagctctcaatgcc	14	6	7	14	1	1	1	1	1	1	0	2	2	1	1	3	1	4	2	3	1	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:76620992C>T	uc001xsh.2	+	2	372	c.286C>T	c.(286-288)CGA>TGA	p.R96*	C14orf118_uc001xsi.2_Nonsense_Mutation_p.R96*|C14orf118_uc001xsj.1_Nonsense_Mutation_p.R96*|C14orf118_uc001xsk.1_Nonsense_Mutation_p.R96*|C14orf118_uc001xsl.2_RNA	NM_017926	NP_060396	Q9NWQ4	CN118_HUMAN	hypothetical protein LOC55668 isoform 1	96								p.R96Q(1)		ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.0172)		GGTAGCCAAACGACACCCAGC	0.498													35	77					0	0	0.004878	0	0		T	76620992	T	T	76620992	4	4	19	1	0	0	0	0	0	1	0	0	1744	528	19	1	288	1	C14orf118	14	76620992	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	290795	76620992	30728548	2180	15693											
KIAA1737	85457	broad.mit.edu	37	chr14	77580348	77580348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagctcacctttatgggctgCagagcacctctgccgcagcc	7	9	10	15	1	2	1	1	0	1	1	2	1	2	1	4	1	5	5	4	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:77580348C>T	uc001xtd.2	+	4	1066	c.887C>T	c.(886-888)GCA>GTA	p.A296V	KIAA1737_uc001xtc.1_Missense_Mutation_p.A198V	NM_033426	NP_219494	Q9C0C6	K1737_HUMAN	KIAA1737 protein	296											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		TTATGGGCTGCAGAGCACCTC	0.512													30	75					0	0	0.007291	0	0		T	77580348	T	T	77580348	3	4	19	1	0	0	0	0	1	0	0	0	8271	710	25	2	897	2	KIAA1737	14	77580348	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	959356	77580348	29769192	2181	15694											
TMED8	283578	broad.mit.edu	37	chr14	77818084	77818084	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtatccttgttttctagAtcttcattctctagaaaacc	10	16	6	9	0	4	2	1	0	3	2	6	3	5	2	2	1	1	2	2	1	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:77818084A>T	uc001xto.1	-	2	129	c.129T>A	c.(127-129)GAT>GAA	p.D43E	TMED8_uc010ast.1_RNA	NM_213601	NP_998766	Q6PL24	TMED8_HUMAN	transmembrane emp24 protein transport domain	43					transport	integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		TGTTTTCTAGATCTTCATTCT	0.373													28	57					0	0	0.007835	0	0		T	77818084	T	T	77818084	3	4	19	1	0	0	0	0	1	0	0	0	16036	330	12	5	867	5	TMED8	14	77818084	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	237736	77818084	29531456	2182	15695											
AHSA1	10598	broad.mit.edu	37	chr14	77932002	77932002	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctatagagtgtttaccAcccaagaggtaagtaagtct	13	11	9	8	0	2	2	0	0	2	2	2	2	2	2	2	1	2	4	2	1	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:77932002A>G	uc001xtw.2	+	6	842	c.682A>G	c.(682-684)ACC>GCC	p.T228A	AHSA1_uc010tvk.1_Missense_Mutation_p.T228A	NM_012111	NP_036243	O95433	AHSA1_HUMAN	activator of heat shock 90kDa protein ATPase	228					protein folding|response to stress	cytosol|endoplasmic reticulum	ATPase activator activity|chaperone binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		AGTGTTTACCACCCAAGAGGT	0.498													21	60					0	0	0.00278	0	0		G	77932002	G	G	77932002	3	3	19	1	0	0	0	0	1	0	0	0	418	159	6	3	704	3	AHSA1	14	77932002	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	113918	77932002	29417538	2183	15696											
ISM2	145501	broad.mit.edu	37	chr14	77948915	77948915	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggaccagagggcgggcagCcagctaagggtatcctgggg	10	4	18	9	1	0	1	0	0	0	1	1	2	1	2	3	6	2	3	3	6	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:77948915C>T	uc001xtz.2	-	4	797	c.723G>A	c.(721-723)TGG>TGA	p.W241*	ISM2_uc001xua.2_Intron|ISM2_uc001xty.2_Nonsense_Mutation_p.W153*|ISM2_uc010tvl.1_Nonsense_Mutation_p.W160*	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	241						extracellular region				skin(1)	1						GGGCGGGCAGCCAGCTAAGGG	0.507													27	204					0	0	0.008361	0	0		T	77948915	T	T	77948915	4	4	19	1	0	0	0	0	0	1	0	0	7877	740	26	2	1008	2	ISM2	14	77948915	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	16913	77948915	29400625	2184	15697											
NRXN3	9369	broad.mit.edu	37	chr14	79117646	79117646	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctcccctgtcagcaacAacttcatgggctgccttaaa	9	10	8	14	0	2	0	2	0	0	0	3	0	3	0	3	2	4	3	3	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:79117646A>G	uc001xun.2	+	3	570	c.79A>G	c.(79-81)AAC>GAC	p.N27D	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.N161D	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	400	Laminin G-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		TGTCAGCAACAACTTCATGGG	0.438													51	72					0	0	0.01441	0	0		G	79117646	G	G	79117646	3	3	19	1	0	0	0	0	1	0	0	0	10686	130	5	3	81	3	NRXN3	14	79117646	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1168731	79117646	28231894	2185	15698											
PTPN21	11099	broad.mit.edu	37	chr14	88946101	88946101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggtacacctgcgtccgCatgatgttgggagacgggta	7	8	16	10	4	0	2	0	1	0	1	1	3	1	2	3	4	2	4	3	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:88946101C>T	uc001xwv.3	-	13	2005	c.1674G>A	c.(1672-1674)ATG>ATA	p.M558I	PTPN21_uc010twc.1_Missense_Mutation_p.M354I	NM_007039	NP_008970	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type	558						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			ovary(3)|skin(1)	4						CCTGCGTCCGCATGATGTTGG	0.701													8	23					0	0	0.010729	0	0		T	88946101	T	T	88946101	3	4	19	1	0	0	0	0	1	0	0	0	12811	710	25	2	1878	2	PTPN21	14	88946101	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	9828455	88946101	18403439	2186	15699											
EML5	161436	broad.mit.edu	37	chr14	89124530	89124530	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagtattataaaatgacgtaCccccatcttcttcagaatca	15	12	4	10	1	4	2	2	1	2	1	4	2	4	2	2	0	1	2	2	0	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:89124530C>G	uc001xxg.2	-	27	4063	c.3877_splice	c.e27+1	p.G1293_splice	EML5_uc001xxf.2_Splice_Site_p.G88_splice|EML5_uc001xxh.1_Splice_Site_p.G432_splice	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like							cytoplasm|microtubule				ovary(3)	3						AAATGACGTACCCCCATCTTC	0.333													13	37					0	0	0.00245	0	0		G	89124530	G	G	89124530	5	3	19	1	0	0	0	0	0	0	1	0	5108	521	18	5	2127	5	EML5	14	89124530	Splice_Site	SNP	C	TCGA-BR-4361-01A-01D-1158-08	178429	89124530	18225010	2187	15700											
EML5	161436	broad.mit.edu	37	chr14	89163261	89163261	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaatggtttaatggtctcTgtatcccatatatgaattga	12	15	8	6	0	1	2	0	2	1	0	3	3	2	2	1	2	0	2	1	2	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:89163261T>C	uc001xxg.2	-	16	2460	c.2274A>G	c.(2272-2274)ACA>ACG	p.T758T	EML5_uc001xxh.1_5'UTR	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	758	WD 11.					cytoplasm|microtubule				ovary(3)	3						TAATGGTCTCTGTATCCCATA	0.343													6	38					0	0	0.001168	0	0		C	89163261	C	C	89163261	2	2	19	1	0	0	0	0	0	0	0	1	5108	1567	55	3		3	EML5	14	89163261	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	38731	89163261	18186279	2188	15701											
C14orf102	55051	broad.mit.edu	37	chr14	90754804	90754804	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaaacactcactttcatgTggaatctcagcaggctcgtg	10	11	10	10	1	3	0	3	0	1	0	5	1	3	1	0	3	2	3	0	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:90754804T>G	uc001xyi.1	-	11	2946	c.2915A>C	c.(2914-2916)CAC>CCC	p.H972P	C14orf102_uc010atp.1_Missense_Mutation_p.H477P|C14orf102_uc001xyj.1_Missense_Mutation_p.H741P|C14orf102_uc001xyk.1_Missense_Mutation_p.H164P	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	972							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		CACTTTCATGTGGAATCTCAG	0.547													38	81					0	0	0.010771	0	0		G	90754804	G	G	90754804	3	3	19	1	0	0	0	0	1	0	0	0	1738	1696	59	5	595	5	C14orf102	14	90754804	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1591543	90754804	16594736	2189	15702											
TTC7B	145567	broad.mit.edu	37	chr14	91077090	91077090	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggctttttattctcacctgtCtcgggatcgctgaagtctgg	5	15	11	10	2	3	1	1	1	3	0	6	2	3	2	1	3	0	2	1	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:91077090C>T	uc001xyp.2	-	17	2084	c.1962G>A	c.(1960-1962)GAG>GAA	p.E654E	TTC7B_uc001xyo.2_Silent_p.E81E|TTC7B_uc010ats.2_RNA	NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	654							binding			ovary(2)	2		Melanoma(154;0.222)				TCTCACCTGTCTCGGGATCGC	0.498													9	160					0	0	0.006214	0	0		T	91077090	T	T	91077090	2	4	19	1	0	0	0	0	0	0	0	1	16739	912	32	4		4	TTC7B	14	91077090	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	322286	91077090	16272450	2190	15703											
C14orf159	80017	broad.mit.edu	37	chr14	91691156	91691156	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatccagaagctggtggaCgtcaccacggcacaggtgta	11	7	13	10	2	1	2	1	1	0	1	2	3	2	3	2	4	1	3	2	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:91691156C>T	uc001xzb.2	+	16	2598	c.1830C>T	c.(1828-1830)GAC>GAT	p.D610D	C14orf159_uc001xyx.2_Silent_p.D558D|C14orf159_uc001xyw.2_Silent_p.D615D|C14orf159_uc001xzc.2_Silent_p.D610D|C14orf159_uc001xza.2_Silent_p.D615D|C14orf159_uc001xyv.2_Silent_p.D575D|C14orf159_uc001xyz.2_Silent_p.D486D|C14orf159_uc001xze.2_Silent_p.D610D	NM_001102366	NP_001095836	Q7Z3D6	CN159_HUMAN	hypothetical protein LOC80017 isoform a	610						mitochondrion				central_nervous_system(2)|ovary(1)	3		all_cancers(154;0.0191)|all_epithelial(191;0.241)		Epithelial(152;0.141)|OV - Ovarian serous cystadenocarcinoma(161;0.207)		AGCTGGTGGACGTCACCACGG	0.617													10	23					0	0	0.003163	0	0		T	91691156	T	T	91691156	2	4	19	1	0	0	0	0	0	0	0	1	1758	535	19	1		1	C14orf159	14	91691156	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	614066	91691156	15658384	2191	15704											
GPR68	8111	broad.mit.edu	37	chr14	91701203	91701203	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtagaagaggtcggccacCgtcaggttgcacaggtacac	11	7	13	10	2	1	2	1	0	0	2	2	2	1	2	2	4	2	4	2	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:91701203C>T	uc001xzg.2	-	2	533	c.192G>A	c.(190-192)ACG>ACA	p.T64T	GPR68_uc001xzh.2_Silent_p.T74T	NM_003485	NP_003476	Q15743	OGR1_HUMAN	G protein-coupled receptor 68	64	Helical; Name=2; (Potential).				inflammatory response	integral to plasma membrane	G-protein coupled receptor activity			kidney(1)	1		all_cancers(154;0.0555)		COAD - Colon adenocarcinoma(157;0.21)		GGTCGGCCACCGTCAGGTTGC	0.632													14	19					0	0	0.004007	0	0		T	91701203	T	T	91701203	2	4	19	1	0	0	0	0	0	0	0	1	6722	639	23	1		1	GPR68	14	91701203	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	10047	91701203	15648337	2192	15705											
CCDC88C	440193	broad.mit.edu	37	chr14	91804474	91804474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagctcgtctcgataggcacGagcagaccgggcgtctgccg	7	6	14	14	6	2	1	0	0	2	1	4	3	2	1	2	2	3	3	2	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:91804474G>A	uc010aty.2	-	10	1024	c.925C>T	c.(925-927)CGT>TGT	p.R309C		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	309	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				CGATAGGCACGAGCAGACCGG	0.607													18	32					0	0	0.007413	0	0		A	91804474	A	A	91804474	3	1	19	1	0	0	0	0	1	0	0	0	2868	1058	37	1	5245	1	CCDC88C	14	91804474	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	103271	91804474	15545066	2193	15706											
SMEK1	55671	broad.mit.edu	37	chr14	91942293	91942293	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtagcagcacttcgcacCtgtgtatcatccatgccctg	8	11	8	14	1	2	0	2	0	0	0	4	0	3	0	3	0	3	5	3	0	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:91942293C>T	uc001xzn.2	-	7	1950	c.1128G>A	c.(1126-1128)CAG>CAA	p.Q376Q	SMEK1_uc001xzm.2_Silent_p.Q376Q|SMEK1_uc001xzo.2_Silent_p.Q376Q|SMEK1_uc010atz.2_Silent_p.Q137Q|SMEK1_uc001xzp.1_RNA|SMEK1_uc001xzq.1_Silent_p.Q252Q	NM_032560	NP_115949	Q6IN85	P4R3A_HUMAN	SMEK homolog 1, suppressor of mek1	376						microtubule organizing center|nucleus	protein binding				0		all_cancers(154;0.0691)|all_epithelial(191;0.219)		COAD - Colon adenocarcinoma(157;0.221)		CACTTCGCACCTGTGTATCAT	0.368													13	82					0	0	0.00245	0	0		T	91942293	T	T	91942293	2	4	19	1	0	0	0	0	0	0	0	1	14818	680	24	4		4	SMEK1	14	91942293	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	137819	91942293	15407247	2194	15707											
GOLGA5	9950	broad.mit.edu	37	chr14	93299693	93299693	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggaattgacaatggtgaagGtaatcaaaaaaggaatctca	18	9	10	4	0	2	2	2	2	1	0	3	4	2	4	0	4	0	1	0	4	8	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:93299693G>C	uc001yaz.1	+	10	2127	c.1945_splice	c.e10+1	p.G649_splice	GOLGA5_uc001yba.1_Splice_Site_p.G46_splice	NM_005113	NP_005104	Q8TBA6	GOGA5_HUMAN	Golgi autoantigen, golgin subfamily a, 5						Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		AATGGTGAAGGTAATCAAAAA	0.368			T	RET	papillary thyroid								5	115					0	0	0.000602	0	0		C	93299693	C	C	93299693	5	2	19	1	0	0	0	0	0	0	1	0	6571	1275	44	5	1980	5	GOLGA5	14	93299693	Splice_Site	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1357400	93299693	14049847	2195	15708											
UBR7	55148	broad.mit.edu	37	chr14	93685689	93685689	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactggcgtagcaagttgtgTacctgccaagactgtatggt	10	11	12	8	1	0	1	0	0	0	1	0	1	0	1	2	2	4	5	2	2	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:93685689T>C	uc001ybm.3	+	8	1178	c.942T>C	c.(940-942)TGT>TGC	p.C314C	UBR7_uc001ybn.3_Silent_p.C238C|UBR7_uc010auq.2_Silent_p.C163C	NM_175748	NP_786924	Q8N806	UBR7_HUMAN	ubiquitin protein ligase E3 component n-recognin	314							ubiquitin-protein ligase activity|zinc ion binding				0						GCAAGTTGTGTACCTGCCAAG	0.433													18	36					0	0	0.012319	0	0		C	93685689	C	C	93685689	2	2	19	1	0	0	0	0	0	0	0	1	16932	1644	57	3		3	UBR7	14	93685689	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	385996	93685689	13663851	2196	15709											
BTBD7	55727	broad.mit.edu	37	chr14	93760464	93760464	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagttcggtctgtgattTcttcaccagttcgtatcctc	7	16	7	11	2	4	1	2	1	2	0	8	1	5	1	2	1	0	3	2	1	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:93760464T>C	uc001ybo.2	-	3	1228	c.902A>G	c.(901-903)GAA>GGA	p.E301G	BTBD7_uc010aur.2_5'UTR|BTBD7_uc010two.1_Missense_Mutation_p.E216G|BTBD7_uc001ybp.2_Intron|BTBD7_uc001ybq.3_Missense_Mutation_p.E216G|BTBD7_uc001ybr.2_Missense_Mutation_p.E301G	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	301	BTB 2.									pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		GTCTGTGATTTCTTCACCAGT	0.373													28	37					0	0	0.005443	0	0		C	93760464	C	C	93760464	3	2	19	1	0	0	0	0	1	0	0	0	1549	1783	62	3	2607	3	BTBD7	14	93760464	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	74775	93760464	13589076	2197	15710											
SERPINA1	5265	broad.mit.edu	37	chr14	94844961	94844961	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctcgtcgatggtcagcAcagccttatgcacggcctgg	6	11	11	13	3	2	0	1	0	1	0	4	1	2	0	2	3	3	2	2	3	1	2	rs1131139		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:94844961A>G	uc001ycx.3	-	5	1343	c.1082T>C	c.(1081-1083)GTG>GCG	p.V361A	SERPINA1_uc001ycw.3_RNA|SERPINA1_uc010auw.2_Missense_Mutation_p.V361A|SERPINA1_uc010aux.2_Missense_Mutation_p.V361A|SERPINA1_uc001ycy.3_Missense_Mutation_p.V361A|SERPINA1_uc010auy.2_Missense_Mutation_p.V361A|SERPINA1_uc001ycz.3_Missense_Mutation_p.V361A|SERPINA1_uc010auz.2_Missense_Mutation_p.V361A|SERPINA1_uc010ava.2_Missense_Mutation_p.V361A|SERPINA1_uc001ydb.3_Missense_Mutation_p.V361A|SERPINA1_uc010avb.2_Missense_Mutation_p.V361A|SERPINA1_uc001ydc.3_Missense_Mutation_p.V361A	NM_000295	NP_000286	P01009	A1AT_HUMAN	serine proteinase inhibitor, clade A, member 1	361					acute-phase response|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen|proteinaceous extracellular matrix	protease binding|serine-type endopeptidase inhibitor activity			skin(1)	1		all_cancers(154;0.0649)|all_epithelial(191;0.223)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)	Alpha-1-proteinase inhibitor(DB00058)	GATGGTCAGCACAGCCTTATG	0.572									Alpha-1-Antitrypsin_Deficiency				3	36					0	0	0.004672	0	0		G	94844961	G	G	94844961	3	3	19	1	0	0	0	0	1	0	0	0	14111	159	6	3	178	3	SERPINA1	14	94844961	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1084497	94844961	12504579	2198	15711											
DICER1	23405	broad.mit.edu	37	chr14	95562592	95562592	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtccgctatgcttttgtcAgcaatacactgctcagtgtg	8	13	9	11	1	2	0	2	0	0	0	3	0	3	0	1	0	4	4	1	0	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:95562592A>G	uc001ydw.2	-	24	4847	c.4665T>C	c.(4663-4665)GCT>GCC	p.A1555A	DICER1_uc010avh.1_Silent_p.A453A|DICER1_uc001ydv.2_Silent_p.A1545A|DICER1_uc001ydx.2_Silent_p.A1555A|DICER1_uc001ydy.1_Silent_p.A407A	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1555					negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		TGCTTTTGTCAGCAATACACT	0.512			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				4	136					0	0	0.000602	0	0		G	95562592	G	G	95562592	2	3	19	1	0	0	0	0	0	0	0	1	4527	175	7	3		3	DICER1	14	95562592	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	717631	95562592	11786948	2199	15712											
C14orf49	161176	broad.mit.edu	37	chr14	95921914	95921914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctcctcccagagggcgcGcagcttctccagaactttcc	6	9	8	18	2	1	2	0	0	1	2	6	2	5	2	5	1	2	2	5	1	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:95921914G>A	uc001yei.3	-	5	952	c.937C>T	c.(937-939)CGC>TGC	p.R313C	C14orf49_uc010avi.2_Missense_Mutation_p.R313C|C14orf49_uc001yej.1_Missense_Mutation_p.R313C	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	313	Spectrin 1.|Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		CAGAGGGCGCGCAGCTTCTCC	0.617													30	218					0	0	0.012213	0	0		A	95921914	A	A	95921914	3	1	19	1	0	0	0	0	1	0	0	0	1779	1087	38	1	2042	1	C14orf49	14	95921914	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	359322	95921914	11427626	2200	15713											
ATG2B	55102	broad.mit.edu	37	chr14	96808017	96808017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aattttggggttccagctagGtgagagctttggctcagttt	7	15	13	6	0	1	1	1	1	0	1	2	2	2	1	1	4	2	5	1	4	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:96808017G>A	uc001yfi.2	-	6	1131	c.766C>T	c.(766-768)CCT>TCT	p.P256S		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	256										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		TTCCAGCTAGGTGAGAGCTTT	0.313													7	87					0	0	0.00308	0	0		A	96808017	A	A	96808017	3	1	19	1	0	0	0	0	1	0	0	0	1095	1261	44	4	5618	4	ATG2B	14	96808017	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	886103	96808017	10541523	2201	15714											
EVL	51466	broad.mit.edu	37	chr14	100604082	100604082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attccattgccgtagaacccCgtctgtggcaaagagccccg	9	8	10	14	3	1	2	0	0	1	2	2	2	2	2	6	1	3	2	6	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:100604082C>T	uc001ygt.2	+	11	1270	c.1031C>T	c.(1030-1032)CCG>CTG	p.P344L	EVL_uc001ygv.2_Missense_Mutation_p.P350L|EVL_uc001ygu.2_Missense_Mutation_p.P346L|EVL_uc010avu.2_Missense_Mutation_p.P203L	NM_016337	NP_057421	Q9UI08	EVL_HUMAN	Enah/Vasp-like	344	EVH2.				actin polymerization or depolymerization|axon guidance|cell surface receptor linked signaling pathway|organ morphogenesis	cytoskeleton|cytosol|focal adhesion|lamellipodium	actin binding|profilin binding|SH3 domain binding			large_intestine(2)|ovary(1)	3		Melanoma(154;0.152)				CGTAGAACCCCGTCTGTGGCA	0.622													36	77					0	0	0.005524	0	0		T	100604082	T	T	100604082	3	4	19	1	0	0	0	0	1	0	0	0	5299	652	23	1	1079	1	EVL	14	100604082	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3796065	100604082	6745458	2202	15715											
ZNF839	55778	broad.mit.edu	37	chr14	102805235	102805235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggacccaagcacctcagccGagacatggatggggagcagc	11	4	14	12	1	1	1	1	0	0	1	1	5	1	4	3	4	4	2	3	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:102805235G>A	uc001ylo.2	+	6	1744	c.1394G>A	c.(1393-1395)CGA>CAA	p.R465Q	ZNF839_uc010awk.1_Missense_Mutation_p.R581Q|ZNF839_uc001ylp.2_RNA|ZNF839_uc001ylq.1_Missense_Mutation_p.R465Q|ZNF839_uc001ylr.2_Missense_Mutation_p.R390Q|ZNF839_uc001yls.2_Missense_Mutation_p.R80Q|ZNF839_uc001ylt.2_Missense_Mutation_p.R55Q	NM_018335	NP_060805	A8K0R7	ZN839_HUMAN	zinc finger protein 839	465						intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)	2						CACCTCAGCCGAGACATGGAT	0.532													11	46					0	0	0.008291	0	0		A	102805235	A	A	102805235	3	1	19	1	0	0	0	0	1	0	0	0	18213	1058	37	1	1764	1	ZNF839	14	102805235	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2201153	102805235	4544305	2203	15716											
C14orf73	91828	broad.mit.edu	37	chr14	103574027	103574027	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tacctggcgcgggcgctgagGccacgggagcggttccgggg	4	5	20	12	6	0	1	0	1	0	0	1	2	1	2	3	7	2	2	3	7	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:103574027G>A	uc001ymk.2	+	9	1837	c.1761G>A	c.(1759-1761)AGG>AGA	p.R587R		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	hypothetical protein LOC91828	587											0		Melanoma(154;0.155)	Epithelial(46;0.221)			GGGCGCTGAGGCCACGGGAGC	0.602													3	7					0	0	0.009096	0	0		A	103574027	A	A	103574027	2	1	19	1	0	0	0	0	0	0	0	1	1782	1194	42	2		2	C14orf73	14	103574027	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	768792	103574027	3775513	2204	15717											
KLC1	3831	broad.mit.edu	37	chr14	104121164	104121164	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggcctgagtgaggcacaggTacgagtgagaatgactcaga	12	6	15	8	2	1	5	1	4	0	2	1	7	1	5	1	3	1	2	1	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:104121164T>C	uc001yno.2	+	2	569	c.261_splice	c.e2+2	p.Q87_splice	KLC1_uc010tyd.1_Splice_Site_p.Q246_splice|KLC1_uc010tye.1_Splice_Site_p.Q83_splice|KLC1_uc001ynm.1_Splice_Site_p.Q87_splice|KLC1_uc001ynn.1_Splice_Site_p.Q83_splice|KLC1_uc010tyf.1_Splice_Site_p.Q87_splice	NM_182923	NP_891553	Q07866	KLC1_HUMAN	kinesin light chain 1 isoform 2						blood coagulation|microtubule-based movement|stress granule disassembly	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0		Melanoma(154;0.155)|all_epithelial(191;0.19)				GAGGCACAGGTACGAGTGAGA	0.403													26	44					0	0	0.008361	0	0		C	104121164	C	C	104121164	5	2	19	1	0	0	0	0	0	0	1	0	8349	1652	57	3	265	3	KLC1	14	104121164	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	547137	104121164	3228376	2205	15718											
TDRD9	122402	broad.mit.edu	37	chr14	104460920	104460920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agaataatgtctttttaagtCcagtccctgggtacagaaag	13	12	9	7	0	1	2	0	0	1	2	3	2	3	2	2	1	1	1	2	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:104460920C>T	uc001yom.3	+	11	1330	c.1300C>T	c.(1300-1302)CCA>TCA	p.P434S	TDRD9_uc001yon.3_Missense_Mutation_p.P172S	NM_153046	NP_694591	Q8NDG6	TDRD9_HUMAN	tudor domain containing 9	434	Helicase C-terminal.				cell differentiation|DNA methylation involved in gamete generation|fertilization|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	nucleus|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0768)				CTTTTTAAGTCCAGTCCCTGG	0.338													13	25					0	0	0.003163	0	0		T	104460920	T	T	104460920	3	4	19	1	0	0	0	0	1	0	0	0	15761	855	30	4	1342	4	TDRD9	14	104460920	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	339756	104460920	2888620	2206	15719											
ADSSL1	122622	broad.mit.edu	37	chr14	105208219	105208219	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacttcatccaactgcacCgtgggcggtgtgtgcacggg	6	9	15	11	3	1	1	1	1	0	0	2	1	2	1	2	3	3	2	2	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:105208219C>A	uc001ypd.2	+	9	902	c.828C>A	c.(826-828)ACC>ACA	p.T276T	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Silent_p.T319T|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	276					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	CCAACTGCACCGTGGGCGGTG	0.602													54	144					1.53716e-24	1.64035e-24	0.01441	1	0		A	105208219	A	A	105208219	2	1	19	1	0	0	0	0	0	0	0	1	348	639	23	5		5	ADSSL1	14	105208219	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	747299	105208219	2141321	2207	15720											
AHNAK2	113146	broad.mit.edu	37	chr14	105409919	105409919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccgtcatgtccttgtcggCcagggacaggtccccctcca	5	8	12	16	2	1	0	1	0	0	0	5	1	4	1	6	4	0	0	6	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:105409919C>T	uc010axc.1	-	7	11989	c.11869G>A	c.(11869-11871)GCC>ACC	p.A3957T	AHNAK2_uc001ypx.2_Missense_Mutation_p.A3857T	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3957						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			TCCTTGTCGGCCAGGGACAGG	0.622													23	374					0	0	0.009535	0	0		T	105409919	T	T	105409919	3	4	19	1	0	0	0	0	1	0	0	0	415	739	26	2	5522	2	AHNAK2	14	105409919	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	201700	105409919	1939621	2208	15721											
AHNAK2	113146	broad.mit.edu	37	chr14	105411037	105411037	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccttggggcctttcaggTccagcttggggcccttaaca	5	11	12	13	0	1	0	1	0	0	0	2	0	2	0	4	5	3	1	4	5	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:105411037T>C	uc010axc.1	-	7	10871	c.10751A>G	c.(10750-10752)GAC>GGC	p.D3584G	AHNAK2_uc001ypx.2_Missense_Mutation_p.D3484G	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3584						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GCCTTTCAGGTCCAGCTTGGG	0.602													56	151					0	0	0.01441	0	0		C	105411037	C	C	105411037	3	2	19	1	0	0	0	0	1	0	0	0	415	1667	58	3	6640	3	AHNAK2	14	105411037	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1118	105411037	1938503	2209	15722											
AHNAK2	113146	broad.mit.edu	37	chr14	105413365	105413365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttttgaacttgctgtctttgGctgtcatgcccttgtcggcc	3	17	10	11	1	2	1	1	1	1	0	3	1	2	1	2	2	3	2	2	2	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:105413365G>A	uc010axc.1	-	7	8543	c.8423C>T	c.(8422-8424)GCC>GTC	p.A2808V	AHNAK2_uc001ypx.2_Missense_Mutation_p.A2708V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2808						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GCTGTCTTTGGCTGTCATGCC	0.612													41	402					0	0	0.011902	0	0		A	105413365	A	A	105413365	3	1	19	1	0	0	0	0	1	0	0	0	415	1203	42	2	8968	2	AHNAK2	14	105413365	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2328	105413365	1936175	2210	15723											
AHNAK2	113146	broad.mit.edu	37	chr14	105419601	105419601	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctggacctccaggtcagcGgaaggggtctggacgctgag	7	7	16	11	2	2	1	1	1	1	0	4	4	4	4	3	6	1	1	3	6	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:105419601G>A	uc010axc.1	-	7	2307	c.2187C>T	c.(2185-2187)TCC>TCT	p.S729S	AHNAK2_uc001ypx.2_Silent_p.S629S	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	729						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCAGGTCAGCGGAAGGGGTCT	0.652													76	139					0	0	0.01441	0	0		A	105419601	A	A	105419601	2	1	19	1	0	0	0	0	0	0	0	1	415	1103	39	1		1	AHNAK2	14	105419601	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	6236	105419601	1929939	2211	15724											
AHNAK2	113146	broad.mit.edu	37	chr14	105420230	105420230	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtacccgcttttgaggAcgcatcctgtctcttccctc	5	12	8	16	2	1	1	0	1	1	0	5	2	3	2	4	1	1	3	4	1	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:105420230A>C	uc010axc.1	-	7	1678	c.1558T>G	c.(1558-1560)TCC>GCC	p.S520A	AHNAK2_uc001ypx.2_Missense_Mutation_p.S420A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	520						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GCTTTTGAGGACGCATCCTGT	0.537													5	165					0	0	0.008291	0	0		C	105420230	C	C	105420230	3	2	19	1	0	0	0	0	1	0	0	0	415	275	10	5	15833	5	AHNAK2	14	105420230	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	629	105420230	1929310	2212	15725											
CDCA4	55038	broad.mit.edu	37	chr14	105477960	105477960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgcccccacgctgcacGgcacaggatctccgtggaga	7	7	11	16	3	2	1	0	0	2	1	3	3	2	2	3	3	2	3	3	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:105477960G>A	uc001yqa.2	-	2	403	c.307C>T	c.(307-309)CGT>TGT	p.R103C	CDCA4_uc001yqb.2_Missense_Mutation_p.R103C	NM_145701	NP_663747	Q9BXL8	CDCA4_HUMAN	cell division cycle associated 4	103						nucleus				ovary(1)	1		all_cancers(154;0.0798)|Melanoma(154;0.155)|all_epithelial(191;0.183)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.142)		CACGCTGCACGGCACAGGATC	0.662													21	33					0	0	0.00278	0	0		A	105477960	A	A	105477960	3	1	19	1	0	0	0	0	1	0	0	0	3091	1116	39	1	422	1	CDCA4	14	105477960	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	57730	105477960	1871580	2213	15726											
MTA1	9112	broad.mit.edu	37	chr14	105936442	105936442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcctcggaaaccaagcgtGctgcccgccggccctacaag	9	5	10	17	4	0	0	0	0	0	0	2	1	1	1	5	2	5	1	5	2	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:105936442G>A	uc001yqx.2	+	21	2225	c.2038G>A	c.(2038-2040)GCT>ACT	p.A680T	MTA1_uc001yqy.2_RNA|MTA1_uc001yrb.2_Missense_Mutation_p.A445T|CRIP2_uc010tyr.1_5'Flank|CRIP2_uc001yrc.2_5'Flank	NM_004689	NP_004680	Q13330	MTA1_HUMAN	metastasis associated protein	680					signal transduction	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		AACCAAGCGTGCTGCCCGCCG	0.711													8	23					0	0	0.010729	0	0		A	105936442	A	A	105936442	3	1	19	1	0	0	0	0	1	0	0	0	9926	1319	46	2	2120	2	MTA1	14	105936442	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	458482	105936442	1413098	2214	15727											
OR4N4	283694	broad.mit.edu	37	chr15	22383083	22383083	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctaatggtcttcaacagtgGcctgatgacactcctgtgct	8	13	9	11	0	3	2	1	2	2	0	4	2	4	2	2	2	2	1	2	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:22383083G>T	uc001yuc.1	+	7	1592	c.611G>T	c.(610-612)GGC>GTC	p.G204V	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.G204V	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TTCAACAGTGGCCTGATGACA	0.522													21	67					6.21321e-17	6.58977e-17	0.00278	1	0		T	22383083	T	T	22383083	3	4	19	1	0	0	0	0	1	0	0	0	11097	1203	42	5	613	5	OR4N4	15	22383083	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08		22383083	80148309	2215	15728											
CYFIP1	23191	broad.mit.edu	37	chr15	22933861	22933861	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatttgacgcccagtgagaaAcacatgcttctcaaagtacg	13	10	8	10	2	1	2	1	2	1	1	2	3	1	2	1	0	3	2	1	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:22933861A>G	uc001yus.2	+	8	884	c.780A>G	c.(778-780)AAA>AAG	p.K260K	CYFIP1_uc001yut.2_Silent_p.K260K|CYFIP1_uc010aya.1_Silent_p.K288K	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	260					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		CCAGTGAGAAACACATGCTTC	0.488													8	172					0	0	0.00308	0	0		G	22933861	G	G	22933861	2	3	19	1	0	0	0	0	0	0	0	1	4140	40	2	3		3	CYFIP1	15	22933861	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	550778	22933861	79597531	2216	15729											
NIPA1	123606	broad.mit.edu	37	chr15	23048972	23048972	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaggcccacgttgctccActcccggaagaggatggctg	8	6	12	15	2	0	1	0	0	0	1	2	3	2	3	4	4	1	3	4	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:23048972A>G	uc001yvc.2	-	5	872	c.847T>C	c.(847-849)TGG>CGG	p.W283R	NIPA1_uc001yvd.2_Missense_Mutation_p.W113R|NIPA1_uc001yve.2_Missense_Mutation_p.W208R	NM_144599	NP_653200	Q7RTP0	NIPA1_HUMAN	non-imprinted in Prader-Willi/Angelman syndrome	283	Extracellular (Potential).				cell death	early endosome|integral to membrane|plasma membrane					0		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;4.18e-06)|Epithelial(43;3.97e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00165)		ACGTTGCTCCACTCCCGGAAG	0.572													6	44					0	0	0.001984	0	0		G	23048972	G	G	23048972	3	3	19	1	0	0	0	0	1	0	0	0	10441	159	6	3	146	3	NIPA1	15	23048972	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	115111	23048972	79482420	2217	15730											
C15orf2	23742	broad.mit.edu	37	chr15	24921046	24921046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acttagtaaatttagacccgGgtgccgccgccggcccctgc	7	8	11	15	4	0	1	0	0	0	1	0	1	0	1	6	2	2	1	6	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:24921046G>A	uc001ywo.2	+	1	506	c.32G>A	c.(31-33)GGG>GAG	p.G11E		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	11					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		TTTAGACCCGGGTGCCGCCGC	0.667													4	4					0	0	0.000602	0	0		A	24921046	A	A	24921046	3	1	19	1	0	0	0	0	1	0	0	0	1787	1232	43	4	34	4	C15orf2	15	24921046	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1872074	24921046	77610346	2218	15731											
C15orf2	23742	broad.mit.edu	37	chr15	24924398	24924398	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcatcctgcagcacacatgGacagagagaaaattctacac	15	7	8	11	0	1	2	0	0	1	2	2	4	2	3	1	1	4	3	1	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:24924398G>A	uc001ywo.2	+	1	3858	c.3384G>A	c.(3382-3384)TGG>TGA	p.W1128*		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	1128					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		AGCACACATGGACAGAGAGAA	0.478													6	211					0	0	0.001168	0	0		A	24924398	A	A	24924398	4	1	19	1	0	0	0	0	0	1	0	0	1787	1183	41	4	3386	4	C15orf2	15	24924398	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3352	24924398	77606994	2219	15732											
HERC2	8924	broad.mit.edu	37	chr15	28366538	28366538	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccatgctgacgatcgcgtAccatagttgcttgtactact	8	12	10	11	3	0	1	0	1	0	0	1	2	0	1	2	1	5	5	2	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:28366538A>G	uc001zbj.2	-	86	13332	c.13226T>C	c.(13225-13227)GTA>GCA	p.V4409A		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4409					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ACGATCGCGTACCATAGTTGC	0.468													27	60					0	0	0.010818	0	0		G	28366538	G	G	28366538	3	3	19	1	0	0	0	0	1	0	0	0	7074	391	14	3	1310	3	HERC2	15	28366538	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3442140	28366538	74164854	2220	15733											
HERC2	8924	broad.mit.edu	37	chr15	28386594	28386594	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccttcccatcagccgtcAcagcaaagagggtctgttcc	9	10	8	14	1	3	1	2	0	1	1	5	1	5	1	4	1	3	2	4	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:28386594A>G	uc001zbj.2	-	78	12105	c.11999T>C	c.(11998-12000)GTG>GCG	p.V4000A		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4000	RCC1 13.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ATCAGCCGTCACAGCAAAGAG	0.517													18	37					0	0	0.010504	0	0		G	28386594	G	G	28386594	3	3	19	1	0	0	0	0	1	0	0	0	7074	159	6	3	2569	3	HERC2	15	28386594	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	20056	28386594	74144798	2221	15734											
HERC2	8924	broad.mit.edu	37	chr15	28413568	28413568	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttacctctctcttttcttgCcatggatttggactcagtct	5	19	6	11	0	5	0	1	0	4	0	6	2	5	2	2	2	2	0	2	2	1	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:28413568C>T	uc001zbj.2	-	67	10504	c.10398G>A	c.(10396-10398)TGG>TGA	p.W3466*		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3466					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TCTTTTCTTGCCATGGATTTG	0.458													54	161					0	0	0.01441	0	0		T	28413568	T	T	28413568	4	4	19	1	0	0	0	0	0	1	0	0	7074	740	26	2	4214	2	HERC2	15	28413568	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	26974	28413568	74117824	2222	15735											
HERC2	8924	broad.mit.edu	37	chr15	28447491	28447491	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggccaggaaaacgaagtAccaggcaagctggatgcatt	15	5	13	8	1	0	1	0	0	0	1	0	4	0	3	2	4	4	4	2	4	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:28447491A>G	uc001zbj.2	-	46	7586	c.7480_splice	c.e46+1	p.G2494_splice	HERC2_uc001zbk.1_Intron	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2						DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		AAAACGAAGTACCAGGCAAGC	0.542													6	56					0	0	0.001168	0	0		G	28447491	G	G	28447491	5	3	19	1	0	0	0	0	0	0	1	0	7074	405	14	3	7214	3	HERC2	15	28447491	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	33923	28447491	74083901	2223	15736											
HERC2	8924	broad.mit.edu	37	chr15	28511077	28511077	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccacgtgcttcccggcctGctttccagagaaggcggaga	8	7	12	14	3	0	2	0	0	0	2	2	4	2	2	4	3	2	2	4	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:28511077G>A	uc001zbj.2	-	13	1748	c.1642C>T	c.(1642-1644)CAG>TAG	p.Q548*	HERC2_uc001zbl.1_Nonsense_Mutation_p.Q243*	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	548	RCC1 1.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TTCCCGGCCTGCTTTCCAGAG	0.567													11	36					0	0	0.010729	0	0		A	28511077	A	A	28511077	4	1	19	1	0	0	0	0	0	1	0	0	7074	1328	46	2	13186	2	HERC2	15	28511077	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	63586	28511077	74020315	2224	15737											
APBA2	321	broad.mit.edu	37	chr15	29398920	29398920	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacatgatgaatggcggcccGgctgcccgctcggggaagct	8	6	15	12	4	0	2	0	2	0	0	1	3	0	3	2	5	3	3	2	5	3	0	rs140055297	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:29398920G>A	uc001zck.2	+	11	2022	c.1815G>A	c.(1813-1815)CCG>CCA	p.P605P	APBA2_uc010azj.2_Silent_p.P593P|APBA2_uc010uat.1_Silent_p.P593P|APBA2_uc001zcl.2_Silent_p.P593P	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	605	PDZ 1.				nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		ATGGCGGCCCGGCTGCCCGCT	0.652													19	53					0	0	0.014323	0	0		A	29398920	A	A	29398920	2	1	19	1	0	0	0	0	0	0	0	1	757	1103	39	1		1	APBA2	15	29398920	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	887843	29398920	73132472	2225	15738											
MTMR15	22909	broad.mit.edu	37	chr15	31197974	31197974	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaatggtcctggtcaaacaAccggtcatccttactacctt	10	11	7	13	1	2	0	2	0	0	0	4	0	4	0	4	3	4	1	4	3	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:31197974A>G	uc001zff.2	+	2	1399	c.1108A>G	c.(1108-1110)ACC>GCC	p.T370A	MTMR15_uc001zfc.3_Missense_Mutation_p.T370A|MTMR15_uc010azw.2_Missense_Mutation_p.T370A|MTMR15_uc001zfd.3_Missense_Mutation_p.T370A|MTMR15_uc001zfe.2_5'UTR	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a	370					double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		TGGTCAAACAACCGGTCATCC	0.473								Direct_reversal_of_damage|Editing_and_processing_nucleases					8	214					0	0	0.004482	0	0		G	31197974	G	G	31197974	3	3	19	1	0	0	0	0	1	0	0	0	9961	43	2	3	1110	3	MTMR15	15	31197974	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1799054	31197974	71333418	2226	15739											
OTUD7A	161725	broad.mit.edu	37	chr15	31776478	31776478	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccaccgcccttctccgcCggcgacgcgcccgctgcctt	2	6	11	22	7	1	0	0	0	1	0	2	1	1	0	7	2	1	1	7	2	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:31776478C>T	uc001zfq.2	-	11	1893	c.1800G>A	c.(1798-1800)CCG>CCA	p.P600P	OTUD7A_uc001zfr.2_Silent_p.P607P	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	600						cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		CCTTCTCCGCCGGCGACGCGC	0.706													5	2					0	0	0.000602	0	0		T	31776478	T	T	31776478	2	4	19	1	0	0	0	0	0	0	0	1	11337	639	23	1		1	OTUD7A	15	31776478	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	578504	31776478	70754914	2227	15740											
FMN1	342184	broad.mit.edu	37	chr15	33261405	33261405	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttaaagaggagatattcaGctttttgggtactaattgat	12	15	10	4	0	1	3	1	1	0	2	1	4	1	3	0	2	2	3	0	2	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:33261405G>A	uc001zhf.3	-	4	1828	c.1828C>T	c.(1828-1830)CTG>TTG	p.L610L		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	833	Mediates interaction with alpha-catenin (By similarity).				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		GAGATATTCAGCTTTTTGGGT	0.468													13	258					0	0	0.001855	0	0		A	33261405	A	A	33261405	2	1	19	1	0	0	0	0	0	0	0	1	5963	962	34	2		2	FMN1	15	33261405	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1484927	33261405	69269987	2228	15741											
RYR3	6263	broad.mit.edu	37	chr15	33603275	33603275	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggggagaaggaggcgaggAcgagatccagtttctgagga	12	5	19	5	2	1	3	0	1	1	2	2	9	2	6	1	6	0	1	1	6	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:33603275A>T	uc001zhi.2	+	1	99	c.29A>T	c.(28-30)GAC>GTC	p.D10V	RYR3_uc010bar.2_Missense_Mutation_p.D10V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	10	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGAGGCGAGGACGAGATCCAG	0.751													10	15					0	0	0.001855	0	0		T	33603275	T	T	33603275	3	4	19	1	0	0	0	0	1	0	0	0	13795	275	10	5	31	5	RYR3	15	33603275	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	341870	33603275	68928117	2229	15742											
RYR3	6263	broad.mit.edu	37	chr15	33954568	33954568	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatgacctgctcatcagcAtccacctggccagcgccaag	9	8	8	16	1	3	1	2	1	1	0	4	1	4	1	5	1	3	2	5	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:33954568A>G	uc001zhi.2	+	35	4907	c.4837A>G	c.(4837-4839)ATC>GTC	p.I1613V	RYR3_uc010bar.2_Missense_Mutation_p.I1613V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1613	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GCTCATCAGCATCCACCTGGC	0.557													3	18					0	0	0.004672	0	0		G	33954568	G	G	33954568	3	3	19	1	0	0	0	0	1	0	0	0	13795	217	8	3	4975	3	RYR3	15	33954568	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	351293	33954568	68576824	2230	15743											
RYR3	6263	broad.mit.edu	37	chr15	33990089	33990089	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatccttatcctagagacatAatgaacaacaaggtgtttta	15	12	7	7	0	0	2	0	1	0	1	2	4	2	2	2	1	2	1	2	1	7	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:33990089A>G	uc001zhi.2	+	40	6211	c.6141A>G	c.(6139-6141)ATA>ATG	p.I2047M	RYR3_uc010bar.2_Missense_Mutation_p.I2047M	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2047	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CTAGAGACATAATGAACAACA	0.458													25	88					0	0	0.005443	0	0		G	33990089	G	G	33990089	3	3	19	1	0	0	0	0	1	0	0	0	13795	352	13	3	6299	3	RYR3	15	33990089	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	35521	33990089	68541303	2231	15744											
RYR3	6263	broad.mit.edu	37	chr15	34102718	34102718	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagcggaagaagacaaagcgGcggggagacttgtattccat	13	6	15	7	3	0	3	0	0	0	3	1	6	1	4	1	4	2	1	1	4	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:34102718G>A	uc001zhi.2	+	71	10135	c.10065G>A	c.(10063-10065)CGG>CGA	p.R3355R	RYR3_uc010bar.2_Silent_p.R3350R	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3355					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AGACAAAGCGGCGGGGAGACT	0.517													5	43					0	0	0.001168	0	0		A	34102718	A	A	34102718	2	1	19	1	0	0	0	0	0	0	0	1	13795	1190	42	2		2	RYR3	15	34102718	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	112629	34102718	68428674	2232	15745											
SLC12A6	9990	broad.mit.edu	37	chr15	34529748	34529748	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtatgctgcactttcgccAcacctgagagagtgacatac	10	9	9	13	2	0	3	0	2	0	1	1	4	0	3	3	0	3	3	3	0	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:34529748A>G	uc001zhw.2	-	21	2970	c.2806T>C	c.(2806-2808)TGG>CGG	p.W936R	SLC12A6_uc001zhv.2_Missense_Mutation_p.W885R|SLC12A6_uc001zhx.2_Missense_Mutation_p.W921R|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.W877R|SLC12A6_uc001zib.2_Missense_Mutation_p.W927R|SLC12A6_uc001zic.2_Missense_Mutation_p.W936R|SLC12A6_uc010bau.2_Missense_Mutation_p.W936R|SLC12A6_uc001zid.2_Missense_Mutation_p.W877R|SLC12A6_uc001zht.2_RNA|SLC12A6_uc001zhu.2_Missense_Mutation_p.W748R	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	936	Cytoplasmic (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	CACTTTCGCCACACCTGAGAG	0.418													4	124					0	0	0.009096	0	0		G	34529748	G	G	34529748	3	3	19	1	0	0	0	0	1	0	0	0	14412	159	6	3	666	3	SLC12A6	15	34529748	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	427030	34529748	68001644	2233	15746											
ACTC1	70	broad.mit.edu	37	chr15	35086915	35086915	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccacgatggacgggaagAcagcgcggggcgcgtcatcg	8	3	18	12	7	1	1	1	0	0	1	2	4	1	3	1	5	1	0	1	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:35086915A>G	uc001ziu.1	-	2	338	c.95T>C	c.(94-96)GTC>GCC	p.V32A	uc001zit.1_Intron	NM_005159	NP_005150	P68032	ACTC_HUMAN	cardiac muscle alpha actin 1 proprotein	32					apoptosis|cardiac muscle tissue morphogenesis|cardiac myofibril assembly|muscle filament sliding|skeletal muscle thin filament assembly	actomyosin, actin part|cytosol|I band	ATP binding|ATPase activity|myosin binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(180;2.3e-08)		all cancers(64;5.83e-19)|GBM - Glioblastoma multiforme(113;1.98e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		GGACGGGAAGACAGCGCGGGG	0.682													16	60					0	0	0.00499	0	0		G	35086915	G	G	35086915	3	3	19	1	0	0	0	0	1	0	0	0	195	275	10	3	1062	3	ACTC1	15	35086915	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	557167	35086915	67444477	2234	15747											
AQR	9716	broad.mit.edu	37	chr15	35224524	35224524	+	Frame_Shift_Del	DEL	A	-	-																															tacatcaatattcacctgggAaaaaagatggccatcctctt																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:35224524delA	uc001ziv.2	-	11	1076	c.895delT	c.(895-897)TCCfs	p.S299fs		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	299						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		TTCACCTGGGAAAAAAGATGG	0.398													47	81	---	---	---	---						.	-	35224524	-	-	35224524	7	5	19	1	0	1	0	1	0	0	0	0	835	246	9	0	3662	0	AQR	15	35224524	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	137609	35224524	67306868	2235	15748											
FAM98B	283742	broad.mit.edu	37	chr15	38756237	38756237	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcttcctttctaggtatAaaggaccattgttagaagag	12	15	8	6	0	2	2	0	0	2	2	3	3	3	3	2	2	0	2	2	2	6	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:38756237A>G	uc001zkb.1	+	2	111	c.76A>G	c.(76-78)AAA>GAA	p.K26E	FAM98B_uc001zkc.2_Missense_Mutation_p.K26E	NM_001042429	NP_001035894	Q52LJ0	FA98B_HUMAN	family with sequence similarity 98, member B	26						tRNA-splicing ligase complex	protein binding			ovary(1)	1		all_cancers(109;3.11e-17)|all_epithelial(112;2.64e-15)|Lung NSC(122;2.11e-11)|all_lung(180;5.61e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;9e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0209)		TTCTAGGTATAAAGGACCATT	0.338													4	47					0	0	0.000602	0	0		G	38756237	G	G	38756237	3	3	19	1	0	0	0	0	1	0	0	0	5671	363	13	3	82	3	FAM98B	15	38756237	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3531713	38756237	63775155	2236	15749											
THBS1	7057	broad.mit.edu	37	chr15	39874866	39874866	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagaatgctgagttggaCgtccccatccaaagcgtctt	10	10	11	10	2	1	2	0	1	1	1	3	4	3	3	3	2	2	2	3	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:39874866C>T	uc001zkh.2	+	3	719	c.540C>T	c.(538-540)GAC>GAT	p.D180D		NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	180	TSP N-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	CTGAGTTGGACGTCCCCATCC	0.562													24	44					0	0	0.014323	0	0		T	39874866	T	T	39874866	2	4	19	1	0	0	0	0	0	0	0	1	15878	535	19	1		1	THBS1	15	39874866	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1118629	39874866	62656526	2237	15750											
THBS1	7057	broad.mit.edu	37	chr15	39877747	39877747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagttcctgatggagaatGctgtcctcgctgttggcgta	7	12	12	10	2	0	2	0	1	0	1	3	3	2	2	2	2	1	5	2	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:39877747G>A	uc001zkh.2	+	7	1282	c.1103G>A	c.(1102-1104)TGC>TAC	p.C368Y		NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	368	VWFC.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	GATGGAGAATGCTGTCCTCGC	0.502													18	50					0	0	0.008871	0	0		A	39877747	A	A	39877747	3	1	19	1	0	0	0	0	1	0	0	0	15878	1319	46	2	1125	2	THBS1	15	39877747	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2881	39877747	62653645	2238	15751											
DNAJC17	55192	broad.mit.edu	37	chr15	41068826	41068826	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgctcccgggcctccaggtCtagacacaagggttgaatga	9	7	12	13	2	1	3	0	2	1	1	3	3	3	3	4	3	0	2	4	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:41068826C>T	uc001zms.1	-	5	307	c.296_splice	c.e5-1	p.D99_splice	DNAJC17_uc010bbz.1_Splice_Site|DNAJC17_uc010bca.1_Splice_Site|DNAJC17_uc010bcb.1_Splice_Site	NM_018163	NP_060633	Q9NVM6	DJC17_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 17						protein folding		heat shock protein binding|nucleotide binding|RNA binding|unfolded protein binding				0		all_cancers(109;4.16e-14)|all_epithelial(112;9.68e-12)|Lung NSC(122;3.19e-09)|all_lung(180;6.45e-08)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;2.91e-05)|COAD - Colon adenocarcinoma(120;0.153)|BRCA - Breast invasive adenocarcinoma(123;0.166)		GCCTCCAGGTCTAGACACAAG	0.617													11	113					0	0	0.006122	0	0		T	41068826	T	T	41068826	5	4	19	1	0	0	0	0	0	0	1	0	4642	927	32	4	647	4	DNAJC17	15	41068826	Splice_Site	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1191079	41068826	61462566	2239	15752											
RPAP1	26015	broad.mit.edu	37	chr15	41812933	41812933	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccaggcgggcagcaggggGcacagcccagagagcctggg	8	2	19	12	1	0	1	0	0	0	1	0	2	0	1	3	5	4	3	3	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:41812933G>A	uc001zod.2	-	22	3575	c.3451C>T	c.(3451-3453)CCC>TCC	p.P1151S	RPAP1_uc001zoc.2_Missense_Mutation_p.P170S	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	1151	Leu-rich.					nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GCAGCAGGGGGCACAGCCCAG	0.657													30	65					0	0	0.003271	0	0		A	41812933	A	A	41812933	3	1	19	1	0	0	0	0	1	0	0	0	13566	1203	42	2	746	2	RPAP1	15	41812933	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	744107	41812933	60718459	2240	15753											
RPAP1	26015	broad.mit.edu	37	chr15	41815100	41815101	+	Frame_Shift_Ins	INS	-	G	G																															cagcccagtgacacgaggctINSggggggagcttcaagggctg																								rs150273751	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:41815100_41815101insG	uc001zod.2	-	19	2728_2729	c.2604_2605insC	c.(2602-2607)CCCAGCfs	p.P868fs	RPAP1_uc001zoc.2_Intron	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	868_869	Leu-rich.					nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GACACGAGGCTGGGGGGAGCTT	0.634													27	48	---	---	---	---						.	G	41815101	G	G	41815100	7	5	19	1	0	1	1	0	0	0	0	0	13566	1580	55	0	1604	0	RPAP1	15	41815100	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	2167	41815100	60716292	2241	15754											
RPAP1	26015	broad.mit.edu	37	chr15	41817238	41817238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagccacagcccacagacGgagggcctcggtgctcagca	9	3	14	15	2	1	1	1	0	0	1	2	2	1	2	3	4	4	3	3	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:41817238G>A	uc001zod.2	-	15	2150	c.2026C>T	c.(2026-2028)CGT>TGT	p.R676C	RPAP1_uc001zoc.2_5'Flank	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	676						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GCCCACAGACGGAGGGCCTCG	0.622													14	26					0	0	0.00333	0	0		A	41817238	A	A	41817238	3	1	19	1	0	0	0	0	1	0	0	0	13566	1116	39	1	2199	1	RPAP1	15	41817238	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2138	41817238	60714154	2242	15755											
SPTBN5	51332	broad.mit.edu	37	chr15	42170739	42170739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgggcccgttgggccaCttgttcctgtacttgcttca	3	12	12	14	3	1	0	1	0	0	0	2	0	2	0	4	2	2	4	4	2	1	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:42170739C>T	uc001zos.2	-	17	3499	c.3166G>A	c.(3166-3168)GTG>ATG	p.V1056M		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	1091					actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		CGTTGGGCCACTTGTTCCTGT	0.637													12	13					0	0	0.013537	0	0		T	42170739	T	T	42170739	3	4	19	1	0	0	0	0	1	0	0	0	15147	565	20	4	7961	4	SPTBN5	15	42170739	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	353501	42170739	60360653	2243	15756											
PLA2G4E	123745	broad.mit.edu	37	chr15	42275979	42275981	+	In_Frame_Del	DEL	CTT	-	-																															ggacactggcccttcaggcgCttcttcttctccactgcgag																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:42275979_42275981delCTT	uc001zow.1	-	19	2491_2493	c.2491_2493delAAG	c.(2491-2493)AAGdel	p.K831del	PLA2G4E_uc010udc.1_In_Frame_Del_p.K303del|PLA2G4E_uc001zov.1_In_Frame_Del_p.K484del	NM_001080490	NP_001073959	Q3MJ16	PA24E_HUMAN	phospholipase A2, group 4E	848	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity				0		all_cancers(109;8.09e-13)|all_epithelial(112;2.03e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.0273)		OV - Ovarian serous cystadenocarcinoma(18;7.61e-18)|GBM - Glioblastoma multiforme(94;3.07e-06)		CCTTCAGGCGCTTCTTCTTCTCC	0.571													5	8	---	---	---	---						.	-	42275981	-	-	42275979	7	5	19	1	0	1	0	1	0	0	0	0	12024	796	28	0	30	0	PLA2G4E	15	42275979	In_Frame_Del	DEL	CTT	TCGA-BR-4361-01A-01D-1158-08	105240	42275979	60255413	2244	15757											
PLA2G4F	255189	broad.mit.edu	37	chr15	42442320	42442320	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctcatttccaccttcatgCtcagagccacctcctggccc	7	10	5	19	0	3	1	3	0	0	1	5	1	5	1	7	1	2	1	7	1	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:42442320C>A	uc001zoz.2	-	10	968	c.905G>T	c.(904-906)AGC>ATC	p.S302I	PLA2G4F_uc001zoy.2_5'Flank|PLA2G4F_uc010bcr.2_Missense_Mutation_p.S53I|PLA2G4F_uc001zpa.2_Missense_Mutation_p.S53I|PLA2G4F_uc010bcs.2_Missense_Mutation_p.S89I	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	302					phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		CACCTTCATGCTCAGAGCCAC	0.602													4	61					0.000602214	0.000615229	0.000602	1	0		A	42442320	A	A	42442320	3	1	19	1	0	0	0	0	1	0	0	0	12025	797	28	5	1688	5	PLA2G4F	15	42442320	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	166341	42442320	60089072	2245	15758											
ZFP106	64397	broad.mit.edu	37	chr15	42743616	42743616	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattagatttcttgttccatAgcatagtcatgtcttccatt	9	19	5	8	0	3	1	1	0	2	1	5	1	5	1	2	0	1	2	2	0	4	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:42743616A>G	uc001zpw.2	-	2	1120	c.785T>C	c.(784-786)CTA>CCA	p.L262P	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Missense_Mutation_p.L45P|ZFP106_uc001zpy.1_Missense_Mutation_p.L285P	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	262						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		CTTGTTCCATAGCATAGTCAT	0.373													8	180					0	0	0.00308	0	0		G	42743616	G	G	42743616	3	3	19	1	0	0	0	0	1	0	0	0	17662	420	15	3	4938	3	ZFP106	15	42743616	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	301296	42743616	59787776	2246	15759											
LRRC57	255252	broad.mit.edu	37	chr15	42840347	42840347	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggctcttcagcagagtgaaCtttcctatcagcaaaggcgg	11	9	11	10	1	3	2	2	1	1	1	4	2	4	2	1	3	3	3	1	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:42840347C>T	uc001zqd.1	-	2	548	c.180G>A	c.(178-180)AAG>AAA	p.K60K	HAUS2_uc001zqe.2_5'Flank|HAUS2_uc010udi.1_5'Flank|HAUS2_uc001zqf.2_5'Flank|LRRC57_uc001zqc.2_Silent_p.K60K	NM_153260	NP_694992	Q8N9N7	LRC57_HUMAN	leucine rich repeat containing 57	60	LRR 1.										0		all_cancers(109;1.99e-12)|all_epithelial(112;5.11e-11)|Lung NSC(122;4.53e-07)|all_lung(180;1.64e-06)|Melanoma(134;0.0262)		GBM - Glioblastoma multiforme(94;6.87e-07)		GCAGAGTGAACTTTCCTATCA	0.512													42	109					0	0	0.013114	0	0		T	42840347	T	T	42840347	2	4	19	1	0	0	0	0	0	0	0	1	9031	564	20	4		4	LRRC57	15	42840347	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	96731	42840347	59691045	2247	15760											
CDAN1	146059	broad.mit.edu	37	chr15	43022951	43022951	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcagagtccgcacatccagGaccggagggacctgggaggg	10	3	17	11	2	0	1	0	0	0	1	2	5	2	5	4	5	1	2	4	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:43022951G>A	uc001zql.2	-	14	2136	c.2019C>T	c.(2017-2019)GTC>GTT	p.V673V	CDAN1_uc001zqj.2_RNA|CDAN1_uc001zqk.2_5'UTR	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	673						integral to membrane	protein binding			ovary(2)	2		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		GCACATCCAGGACCGGAGGGA	0.642													10	14					0	0	0.006214	0	0		A	43022951	A	A	43022951	2	1	19	1	0	0	0	0	0	0	0	1	3057	1161	41	4		4	CDAN1	15	43022951	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	182604	43022951	59508441	2248	15761											
EPB42	2038	broad.mit.edu	37	chr15	43500866	43500866	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctctggccttctccgttctGaagtccctcctcattatagt	5	16	6	14	1	4	1	1	1	3	0	8	1	6	1	4	1	0	1	4	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:43500866G>A	uc001zra.3	-	7	1240	c.940C>T	c.(940-942)CAG>TAG	p.Q314*	EPB42_uc001zqz.3_5'UTR|EPB42_uc010bde.2_Nonsense_Mutation_p.Q159*|EPB42_uc001zrb.3_Nonsense_Mutation_p.Q344*|EPB42_uc010udm.1_Nonsense_Mutation_p.Q236*	NM_001114134	NP_001107606	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2 isoform 2	314					erythrocyte maturation|peptide cross-linking|regulation of cell shape	cytoplasm|cytoskeleton|plasma membrane	ATP binding|protein binding|protein-glutamine gamma-glutamyltransferase activity|structural constituent of cytoskeleton			ovary(2)	2		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		TCTCCGTTCTGAAGTCCCTCC	0.567													158	298					0	0	0.01441	0	0		A	43500866	A	A	43500866	4	1	19	1	0	0	0	0	0	1	0	0	5166	1299	45	4	1163	4	EPB42	15	43500866	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	477915	43500866	59030526	2249	15762											
TP53BP1	7158	broad.mit.edu	37	chr15	43724632	43724632	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctttcaatcaaggccttActaggattttccttattagt	9	16	7	9	0	2	0	2	0	0	0	3	1	3	1	3	3	1	0	3	3	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:43724632A>G	uc001zrs.2	-	17	3568	c.3420T>C	c.(3418-3420)AGT>AGC	p.S1140S	TP53BP1_uc010udp.1_Silent_p.S1140S|TP53BP1_uc001zrq.3_Silent_p.S1145S|TP53BP1_uc001zrr.3_Silent_p.S1145S|TP53BP1_uc010udq.1_Silent_p.S1145S	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	1140					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		TCAAGGCCTTACTAGGATTTT	0.468								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					65	139					0	0	0.01441	0	0		G	43724632	G	G	43724632	2	3	19	1	0	0	0	0	0	0	0	1	16409	388	14	3		3	TP53BP1	15	43724632	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	223766	43724632	58806760	2250	15763											
PDIA3	2923	broad.mit.edu	37	chr15	44057709	44057709	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaggacaagactgtggcaTatacagagcaaaaaatgacc	17	7	10	7	0	0	4	0	2	0	2	0	5	0	5	1	2	2	2	1	2	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:44057709T>C	uc001zsu.2	+	6	812	c.664T>C	c.(664-666)TAT>CAT	p.Y222H	PDIA3_uc010bdp.2_Missense_Mutation_p.Y202H|PDIA3_uc010ued.1_5'UTR	NM_005313	NP_005304	P30101	PDIA3_HUMAN	protein disulfide-isomerase A3 precursor	222					cell redox homeostasis|glycerol ether metabolic process|post-translational protein modification|protein folding|protein import into nucleus|protein N-linked glycosylation via asparagine|protein retention in ER lumen|signal transduction	endoplasmic reticulum lumen|melanosome	cysteine-type endopeptidase activity|electron carrier activity|phospholipase C activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)|skin(1)	2		all_cancers(109;2.61e-15)|all_epithelial(112;1.12e-12)|Lung NSC(122;2.17e-08)|all_lung(180;2.45e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.48e-07)		GACTGTGGCATATACAGAGCA	0.348													94	138					0	0	0.01441	0	0		C	44057709	C	C	44057709	3	2	19	1	0	0	0	0	1	0	0	0	11688	1406	49	3	686	3	PDIA3	15	44057709	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	333077	44057709	58473683	2251	15764											
SPG11	80208	broad.mit.edu	37	chr15	44944092	44944092	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggaaacctccagtttggaGttctttattgtttcattcaa	10	16	7	8	0	3	0	2	0	1	0	4	2	4	2	2	2	1	3	2	2	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:44944092G>C	uc001ztx.2	-	6	1084	c.1053C>G	c.(1051-1053)AAC>AAG	p.N351K	SPG11_uc010ueh.1_Missense_Mutation_p.N351K|SPG11_uc010uei.1_Missense_Mutation_p.N351K|SPG11_uc001zua.1_Missense_Mutation_p.N351K	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	351	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		CCAGTTTGGAGTTCTTTATTG	0.418													5	67					0	0	0.000602	0	0		C	44944092	C	C	44944092	3	2	19	1	0	0	0	0	1	0	0	0	15066	1020	36	5	6418	5	SPG11	15	44944092	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	886383	44944092	57587300	2252	15765											
DUOX2	50506	broad.mit.edu	37	chr15	45404884	45404884	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgatacacaccgtcggcgtAattggctggtacgcggcgct	7	9	13	12	6	0	1	0	1	0	0	1	1	0	1	1	4	2	4	1	4	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:45404884A>G	uc010bea.2	-	4	396	c.193T>C	c.(193-195)TAC>CAC	p.Y65H	DUOX2_uc001zun.2_Missense_Mutation_p.Y65H|DUOXA2_uc001zuo.2_5'Flank|DUOXA2_uc010beb.2_5'Flank	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	65	Extracellular (Potential).|Peroxidase-like; mediates peroxidase activity (By similarity).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		CCGTCGGCGTAATTGGCTGGT	0.682													11	48					0	0	0.010504	0	0		G	45404884	G	G	45404884	3	3	19	1	0	0	0	0	1	0	0	0	4807	362	13	3	4577	3	DUOX2	15	45404884	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	460792	45404884	57126508	2253	15766											
SLC28A2	9153	broad.mit.edu	37	chr15	45564563	45564563	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcttcacaggggcctgTgtatcccttatcagtgcctg	5	12	10	14	0	3	0	2	0	1	0	4	0	4	0	4	2	1	1	4	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:45564563T>C	uc001zva.2	+	16	1784	c.1719T>C	c.(1717-1719)TGT>TGC	p.C573C		NM_004212	NP_004203	O43868	S28A2_HUMAN	solute carrier family 28 (sodium-coupled	573	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		CAGGGGCCTGTGTATCCCTTA	0.483													42	53					0	0	0.013114	0	0		C	45564563	C	C	45564563	2	2	19	1	0	0	0	0	0	0	0	1	14557	1702	59	3		3	SLC28A2	15	45564563	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	159679	45564563	56966829	2254	15767											
SLC12A1	6557	broad.mit.edu	37	chr15	48518768	48518768	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaacgggtttgttcgtggaGgtaaaatctctaagatatct	11	14	10	6	2	2	1	0	0	2	1	4	2	2	2	0	3	1	3	0	3	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:48518768G>T	uc001zwn.3	+	5	940	c.724G>T	c.(724-726)GGT>TGT	p.G242C	SLC12A1_uc010uew.1_Missense_Mutation_p.G48C|SLC12A1_uc010bem.2_Intron|SLC12A1_uc010uex.1_Missense_Mutation_p.G242C|SLC12A1_uc001zwq.3_Translation_Start_Site|SLC12A1_uc001zwr.3_Translation_Start_Site	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	242	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	TGTTCGTGGAGGTAAAATCTC	0.408													21	43					1.28384e-07	1.33367e-07	0.012319	1	0		T	48518768	T	T	48518768	3	4	19	1	0	0	0	0	1	0	0	0	14407	1014	35	5	738	5	SLC12A1	15	48518768	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2954205	48518768	54012624	2255	15768											
SLC12A1	6557	broad.mit.edu	37	chr15	48543836	48543836	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagacctgcgtatggaatttAcaacatgtgggtatctcttt	10	14	10	7	1	1	1	0	0	1	1	2	3	1	2	1	2	3	2	1	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:48543836A>G	uc001zwn.3	+	15	2027	c.1811A>G	c.(1810-1812)TAC>TGC	p.Y604C	SLC12A1_uc010uew.1_Missense_Mutation_p.Y410C|SLC12A1_uc010bem.2_Missense_Mutation_p.Y604C|SLC12A1_uc001zwq.3_Missense_Mutation_p.Y375C|SLC12A1_uc001zwr.3_Missense_Mutation_p.Y331C	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	604	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	TATGGAATTTACAACATGTGG	0.408													18	44					0	0	0.008871	0	0		G	48543836	G	G	48543836	3	3	19	1	0	0	0	0	1	0	0	0	14407	391	14	3	1965	3	SLC12A1	15	48543836	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	25068	48543836	53987556	2256	15769											
FBN1	2200	broad.mit.edu	37	chr15	48766477	48766477	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtgaagccatcacctgtGtatccttccttgcacagaca	11	10	7	13	0	1	2	1	1	0	1	3	2	3	2	4	0	2	2	4	0	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:48766477G>A	uc001zwx.1	-	34	4513	c.4185C>T	c.(4183-4185)TAC>TAT	p.Y1395Y		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1395	EGF-like 23; calcium-binding.		Missing (in MFS).		heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CATCACCTGTGTATCCTTCCT	0.478													12	35					0	0	0.001855	0	0		A	48766477	A	A	48766477	2	1	19	1	0	0	0	0	0	0	0	1	5716	1372	48	4		4	FBN1	15	48766477	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	222641	48766477	53764915	2257	15770											
COPS2	9318	broad.mit.edu	37	chr15	49447732	49447732	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcctcaccaggtcgtagTcctcctcatcatcgcacatg	7	10	8	16	3	3	0	3	0	0	0	7	0	5	0	4	1	1	2	4	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:49447732T>C	uc001zxf.2	-	1	123	c.44A>G	c.(43-45)GAC>GGC	p.D15G	GALK2_uc001zxi.1_5'Flank|COPS2_uc001zxh.2_Missense_Mutation_p.D15G|COPS2_uc010ufa.1_Missense_Mutation_p.D15G	NM_004236	NP_004227	P61201	CSN2_HUMAN	COP9 constitutive photomorphogenic homolog	15					cullin deneddylation|transcription from RNA polymerase II promoter	cytoplasm|signalosome	protein binding|signal transducer activity			lung(1)	1		all_lung(180;0.0428)		all cancers(107;1.34e-07)|GBM - Glioblastoma multiforme(94;3.02e-05)		CAGGTCGTAGTCCTCCTCATC	0.502													4	69					0	0	0.009096	0	0		C	49447732	C	C	49447732	3	2	19	1	0	0	0	0	1	0	0	0	3736	1667	58	3	1360	3	COPS2	15	49447732	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	681255	49447732	53083660	2258	15771											
HDC	3067	broad.mit.edu	37	chr15	50540453	50540453	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacatacatgtctgacatGtgcttgaagattcttcaccc	10	13	7	11	0	3	3	1	2	2	1	3	3	3	3	1	0	3	2	1	0	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:50540453G>C	uc001zxz.2	-	10	1235	c.1129C>G	c.(1129-1131)CAT>GAT	p.H377D	HDC_uc001zxy.2_Missense_Mutation_p.H120D|HDC_uc010uff.1_Intron	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	377					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	TGTCTGACATGTGCTTGAAGA	0.517													8	47					0	0	0.00308	0	0		C	50540453	C	C	50540453	3	2	19	1	0	0	0	0	1	0	0	0	7031	1377	48	5	871	5	HDC	15	50540453	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1092721	50540453	51990939	2259	15772											
USP8	9101	broad.mit.edu	37	chr15	50785029	50785029	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaaatacttgttatatgaActcaatattgcagtgcctat	14	14	7	6	0	1	1	1	1	0	0	1	2	1	2	1	1	4	2	1	1	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:50785029A>G	uc001zym.3	+	16	2866	c.2366A>G	c.(2365-2367)AAC>AGC	p.N789S	USP8_uc001zyl.3_Missense_Mutation_p.N789S|USP8_uc001zyn.3_Missense_Mutation_p.N789S|USP8_uc010ufh.1_Missense_Mutation_p.N683S|uc001zyo.1_RNA|USP8_uc001zyp.3_5'Flank	NM_001128611	NP_001122083	P40818	UBP8_HUMAN	ubiquitin specific peptidase 8	789					cell cycle|cell proliferation|endosome organization|protein K48-linked deubiquitination|protein K63-linked deubiquitination|ubiquitin-dependent protein catabolic process	cytosol|early endosome|extrinsic to plasma membrane|nucleus	cysteine-type endopeptidase activity|SH3 domain binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)|central_nervous_system(1)	2				all cancers(107;0.000225)|GBM - Glioblastoma multiforme(94;0.000771)		TGTTATATGAACTCAATATTG	0.388													7	167					0	0	0.001984	0	0		G	50785029	G	G	50785029	3	3	19	1	0	0	0	0	1	0	0	0	17115	43	2	3	2420	3	USP8	15	50785029	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	244576	50785029	51746363	2260	15773											
TRPM7	54822	broad.mit.edu	37	chr15	50888464	50888464	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcttacttgaaaaatgcaAtaagaagattaaccataatg	19	12	5	5	0	1	3	0	1	1	2	1	3	1	3	1	0	3	1	1	0	8	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:50888464A>G	uc001zyt.3	-	23	3542	c.3278T>C	c.(3277-3279)ATT>ACT	p.I1093T	TRPM7_uc010bew.1_Missense_Mutation_p.I1093T	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	1093	Helical; (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		GAAAAATGCAATAAGAAGATT	0.303													6	20					0	0	0.00308	0	0		G	50888464	G	G	50888464	3	3	19	1	0	0	0	0	1	0	0	0	16617	101	4	3	2387	3	TRPM7	15	50888464	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	103435	50888464	51642928	2261	15774											
TRPM7	54822	broad.mit.edu	37	chr15	50899395	50899395	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagaaaaaaactaaagacatAcctcacggactttctcaatg	18	9	5	9	1	2	2	2	0	1	2	3	3	2	3	1	1	2	0	1	1	8	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:50899395A>G	uc001zyt.3	-	20	2973	c.2709_splice	c.e20+1	p.E903_splice	TRPM7_uc010bew.1_Splice_Site_p.E903_splice|TRPM7_uc001zyu.2_Splice_Site_p.E461_splice	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,						cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		CTAAAGACATACCTCACGGAC	0.338													4	40					0	0	0.009096	0	0		G	50899395	G	G	50899395	5	3	19	1	0	0	0	0	0	0	1	0	16617	405	14	3	2966	3	TRPM7	15	50899395	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	10931	50899395	51631997	2262	15775											
TRPM7	54822	broad.mit.edu	37	chr15	50931740	50931740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcatctccaacatgttttgCcacacctgttcataaaaaaa	14	11	5	11	0	2	0	1	0	1	0	3	0	2	0	3	1	2	3	3	1	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:50931740C>T	uc001zyt.3	-	6	805	c.541G>A	c.(541-543)GCA>ACA	p.A181T	TRPM7_uc010bew.1_Missense_Mutation_p.A181T	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	181	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		ACATGTTTTGCCACACCTGTT	0.254													23	70					0	0	0.00333	0	0		T	50931740	T	T	50931740	3	4	19	1	0	0	0	0	1	0	0	0	16617	739	26	2	5192	2	TRPM7	15	50931740	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	32345	50931740	51599652	2263	15776											
AP4E1	23431	broad.mit.edu	37	chr15	51207723	51207723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcctttggctatattcatGcaatcaagttagcccaacaa	12	13	5	11	0	2	0	2	0	0	0	3	0	3	0	2	1	3	3	2	1	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:51207723G>A	uc001zyx.1	+	3	331	c.301G>A	c.(301-303)GCA>ACA	p.A101T	AP4E1_uc010ufi.1_Missense_Mutation_p.A101T|AP4E1_uc010ufj.1_RNA|AP4E1_uc010ufk.1_RNA	NM_007347	NP_031373	Q9UPM8	AP4E1_HUMAN	adaptor-related protein complex 4, epsilon 1	101					intracellular protein transport|vesicle-mediated transport	COPI vesicle coat	binding|structural molecule activity				0				all cancers(107;0.000893)|GBM - Glioblastoma multiforme(94;0.00364)		CTATATTCATGCAATCAAGTT	0.343													43	88					0	0	0.013114	0	0		A	51207723	A	A	51207723	3	1	19	1	0	0	0	0	1	0	0	0	752	1319	46	2	311	2	AP4E1	15	51207723	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	275983	51207723	51323669	2264	15777											
CYP19A1	1588	broad.mit.edu	37	chr15	51503127	51503127	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctctcaacacactgtccttGcaatgtcttcacgtggaatc	9	12	7	13	1	3	0	2	0	2	0	6	1	4	1	1	1	2	2	1	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:51503127G>A	uc001zyz.3	-	11	1641	c.1390C>T	c.(1390-1392)CAA>TAA	p.Q464*	CYP19A1_uc001zza.3_Nonsense_Mutation_p.Q464*	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	464					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	CACTGTCCTTGCAATGTCTTC	0.478													5	141					0	0	0.000602	0	0		A	51503127	A	A	51503127	4	1	19	1	0	0	0	0	0	1	0	0	4151	1328	46	2	125	2	CYP19A1	15	51503127	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	295404	51503127	51028265	2265	15778											
DMXL2	23312	broad.mit.edu	37	chr15	51830437	51830437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taatttcatatgtaaaccccGttctctatcctcctgtgaat	10	16	4	11	1	2	1	1	1	1	0	5	1	4	1	4	0	1	2	4	0	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:51830437G>A	uc002abf.2	-	10	1543	c.1318C>T	c.(1318-1320)CGG>TGG	p.R440W	DMXL2_uc010ufy.1_Missense_Mutation_p.R440W|DMXL2_uc010bfa.2_Missense_Mutation_p.R440W	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	440						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		TGTAAACCCCGTTCTCTATCC	0.353													53	158					0	0	0.01441	0	0		A	51830437	A	A	51830437	3	1	19	1	0	0	0	0	1	0	0	0	4601	1144	40	1	7931	1	DMXL2	15	51830437	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	327310	51830437	50700955	2266	15779											
DMXL2	23312	broad.mit.edu	37	chr15	51856325	51856325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagaaatagacactaacttgCactgccagacacacttccaa	16	8	5	12	0	0	3	0	0	0	3	1	3	1	3	2	0	3	1	2	0	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:51856325C>T	uc002abf.2	-	5	722	c.497G>A	c.(496-498)TGC>TAC	p.C166Y	DMXL2_uc010ufy.1_Missense_Mutation_p.C166Y|DMXL2_uc010bfa.2_Missense_Mutation_p.C166Y	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	166						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		CACTAACTTGCACTGCCAGAC	0.353													33	110					0	0	0.004878	0	0		T	51856325	T	T	51856325	3	4	19	1	0	0	0	0	1	0	0	0	4601	710	25	2	8772	2	DMXL2	15	51856325	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	25888	51856325	50675067	2267	15780											
MYO5C	55930	broad.mit.edu	37	chr15	52543637	52543637	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtttgacattctaggctTttcaaacaaagggttcctgt	9	16	9	7	0	2	1	1	1	1	0	3	1	3	1	1	2	1	3	1	2	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:52543637T>G	uc010bff.2	-	13	1749	c.1612A>C	c.(1612-1614)AAG>CAG	p.K538Q	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	538	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		ATTCTAGGCTTTTCAAACAAA	0.403													4	110					0	0	0.009096	0	0		G	52543637	G	G	52543637	3	3	19	1	0	0	0	0	1	0	0	0	10098	1850	64	5	3732	5	MYO5C	15	52543637	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	687312	52543637	49987755	2268	15781											
MYO5C	55930	broad.mit.edu	37	chr15	52563983	52563983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttaagatgtttaaattccGactgctgtgcagatgcacaa	13	13	8	7	1	0	2	0	0	0	2	1	3	1	2	1	0	3	4	1	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:52563983G>A	uc010bff.2	-	7	946	c.809C>T	c.(808-810)TCG>TTG	p.S270L	MYO5C_uc010uga.1_Intron|MYO5C_uc010ugb.1_RNA|MYO5C_uc010ugc.1_Intron	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	270	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		TTTAAATTCCGACTGCTGTGC	0.353													10	46					0	0	0.010729	0	0		A	52563983	A	A	52563983	3	1	19	1	0	0	0	0	1	0	0	0	10098	1059	37	1	4559	1	MYO5C	15	52563983	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	20346	52563983	49967409	2269	15782											
UNC13C	440279	broad.mit.edu	37	chr15	54914556	54914556	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagatgccgtgggtcagatAtctgttcatgtggacatcac	11	11	11	8	1	4	2	3	0	1	2	4	3	4	3	1	2	1	1	1	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:54914556A>G	uc002ack.2	+	29	6138	c.6138A>G	c.(6136-6138)ATA>ATG	p.I2046M	UNC13C_uc002acm.2_Translation_Start_Site	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	2046					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TGGGTCAGATATCTGTTCATG	0.423													11	118					0	0	0.00245	0	0		G	54914556	G	G	54914556	3	3	19	1	0	0	0	0	1	0	0	0	17012	439	16	3	6252	3	UNC13C	15	54914556	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2350573	54914556	47616836	2270	15783											
CCPG1	9236	broad.mit.edu	37	chr15	55664072	55664072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaccactactgaactgacGtttactcaactccttagaag	13	10	7	11	1	1	4	1	2	0	2	2	5	2	4	2	0	4	1	2	0	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:55664072G>A	uc002acv.1	-	6	790	c.625C>T	c.(625-627)CGT>TGT	p.R209C	CCPG1_uc002acy.2_Missense_Mutation_p.R209C|CCPG1_uc002acu.1_Missense_Mutation_p.R65C|CCPG1_uc002acw.1_Translation_Start_Site|CCPG1_uc002acx.2_Missense_Mutation_p.R209C|CCPG1_uc010bfk.1_Missense_Mutation_p.R209C|CCPG1_uc002acz.1_Missense_Mutation_p.R209C	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2	209	Cytoplasmic (Potential).|Interaction with MCF2L and SRC (By similarity).				cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		CTGAACTGACGTTTACTCAAC	0.428													5	89					0	0	0.000602	0	0		A	55664072	A	A	55664072	3	1	19	1	0	0	0	0	1	0	0	0	2941	1145	40	1	1660	1	CCPG1	15	55664072	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	749516	55664072	46867320	2271	15784											
NEDD4	4734	broad.mit.edu	37	chr15	56207696	56207696	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccatggtttttgttcatcTgtgaatgtggtctttccaat	7	19	8	7	0	3	1	1	1	2	0	4	1	4	1	2	2	1	2	2	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:56207696T>C	uc002adj.2	-	1	1634	c.1334A>G	c.(1333-1335)CAG>CGG	p.Q445R	NEDD4_uc002adl.2_Intron|NEDD4_uc002adi.2_Missense_Mutation_p.Q445R|NEDD4_uc010ugj.1_Missense_Mutation_p.Q445R|NEDD4_uc010bfm.2_Missense_Mutation_p.Q445R|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	445					development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		TTTGTTCATCTGTGAATGTGG	0.353													43	100					0	0	0.007835	0	0		C	56207696	C	C	56207696	3	2	19	1	0	0	0	0	1	0	0	0	10329	1580	55	3	2725	3	NEDD4	15	56207696	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	543624	56207696	46323696	2272	15785											
RFX7	64864	broad.mit.edu	37	chr15	56436621	56436621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctccattgctgagacCagaaggcagctgaaggtaga	11	10	11	9	0	1	4	0	2	1	3	3	5	2	4	2	2	2	4	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:56436621C>T	uc010bfn.2	-	3	256	c.256G>A	c.(256-258)GGT>AGT	p.G86S		NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						TTGCTGAGACCAGAAGGCAGC	0.343													15	69					0	0	0.00499	0	0		T	56436621	T	T	56436621	3	4	19	1	0	0	0	0	1	0	0	0	13293	594	21	4	4154	4	RFX7	15	56436621	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	228925	56436621	46094771	2273	15786											
ALDH1A2	8854	broad.mit.edu	37	chr15	58285217	58285217	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaataactactgtattgcCacagcacaaagctggagcta	14	10	7	10	0	0	0	0	0	0	0	0	1	0	1	1	1	6	4	1	1	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:58285217C>A	uc002aex.2	-	6	668	c.610G>T	c.(610-612)GGC>TGC	p.G204C	ALDH1A2_uc002aey.2_Missense_Mutation_p.G204C|ALDH1A2_uc010ugv.1_Missense_Mutation_p.G183C|ALDH1A2_uc010ugw.1_Missense_Mutation_p.G175C|ALDH1A2_uc002aew.2_Missense_Mutation_p.G108C	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	204					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	ACTGTATTGCCACAGCACAAA	0.463													5	101					2.7689e-08	2.88542e-08	0.001984	1	0		A	58285217	A	A	58285217	3	1	19	1	0	0	0	0	1	0	0	0	491	594	21	5	978	5	ALDH1A2	15	58285217	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1848596	58285217	44246175	2274	15787											
RNF111	54778	broad.mit.edu	37	chr15	59373220	59373220	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcagactcagcctccGcctcaagtggattatgttat	8	12	7	14	1	3	1	3	0	0	1	5	2	5	2	5	1	1	1	5	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:59373220G>A	uc002afv.2	+	8	2313	c.2034G>A	c.(2032-2034)CCG>CCA	p.P678P	RNF111_uc002afs.2_Silent_p.P678P|RNF111_uc002aft.2_Silent_p.P678P|RNF111_uc002afu.2_Silent_p.P677P|RNF111_uc002afw.2_Silent_p.P678P|RNF111_uc002afx.2_Silent_p.P204P	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	678	Pro-rich.				multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		CTCAGCCTCCGCCTCAAGTGG	0.483													91	168					0	0	0.01441	0	0		A	59373220	A	A	59373220	2	1	19	1	0	0	0	0	0	0	0	1	13450	1074	38	1		1	RNF111	15	59373220	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1088003	59373220	43158172	2275	15788											
VPS13C	54832	broad.mit.edu	37	chr15	62219455	62219455	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcctttgtcaggctggcAacaaataccacttctggatc	10	11	8	12	0	3	0	2	0	1	0	4	1	3	1	2	3	3	2	2	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:62219455A>G	uc002agz.2	-	52	6425	c.6351T>C	c.(6349-6351)GTT>GTC	p.V2117V	VPS13C_uc002aha.2_Silent_p.V2074V|VPS13C_uc002ahb.1_Silent_p.V2117V|VPS13C_uc002ahc.1_Silent_p.V2074V	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2117					protein localization					ovary(2)	2						TCAGGCTGGCAACAAATACCA	0.438													11	303					0	0	0.008291	0	0		G	62219455	G	G	62219455	2	3	19	1	0	0	0	0	0	0	0	1	17217	117	5	3		3	VPS13C	15	62219455	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2846235	62219455	40311937	2276	15789											
TLN2	83660	broad.mit.edu	37	chr15	63055814	63055814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actccatcgatggcatcaacCggtgcatccgggacatcgag	10	7	11	13	4	1	0	1	0	0	0	5	3	3	1	3	3	2	2	3	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:63055814C>T	uc002alb.3	+	37	5014	c.5014C>T	c.(5014-5016)CGG>TGG	p.R1672W	TLN2_uc002alc.3_Missense_Mutation_p.R65W|TLN2_uc002ald.2_Missense_Mutation_p.R65W	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1672					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						TGGCATCAACCGGTGCATCCG	0.612													10	26					0	0	0.008291	0	0		T	63055814	T	T	63055814	3	4	19	1	0	0	0	0	1	0	0	0	15973	643	23	1	5160	1	TLN2	15	63055814	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	836359	63055814	39475578	2277	15790											
HERC1	8925	broad.mit.edu	37	chr15	63956768	63956768	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacttccagaagctgcatTctctgtatgatccaaattat	11	14	5	11	0	1	2	0	1	1	1	5	2	4	2	3	0	2	3	3	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:63956768T>C	uc002amp.2	-	43	8729	c.8581A>G	c.(8581-8583)AAT>GAT	p.N2861D		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	2861					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						GAAGCTGCATTCTCTGTATGA	0.443													4	37					0	0	0.000602	0	0		C	63956768	C	C	63956768	3	2	19	1	0	0	0	0	1	0	0	0	7073	1783	62	3	6148	3	HERC1	15	63956768	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	900954	63956768	38574624	2278	15791											
DAPK2	23604	broad.mit.edu	37	chr15	64204153	64204153	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttcttcatcagcgagcggGtgaggtggttgcacagggac	7	9	15	10	2	3	1	2	1	1	0	3	3	3	2	1	4	3	2	1	4	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:64204153G>C	uc002amr.2	-	11	1017	c.986C>G	c.(985-987)ACC>AGC	p.T329S	DAPK2_uc010uim.1_RNA	NM_014326	NP_055141	Q9UIK4	DAPK2_HUMAN	death-associated kinase 2	329	Calmodulin-binding.			T->A: No effect on Ca(2+)-calmodulin independent phosphorylation or apoptotic activity.|Missing: Loss of ca(2+)-calmodulin binding, increase in activity, loss of autophosphorylation.	apoptosis|induction of apoptosis|intracellular protein kinase cascade	cytoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|identical protein binding			stomach(1)|central_nervous_system(1)	2				LUAD - Lung adenocarcinoma(2;0.215)		CAGCGAGCGGGTGAGGTGGTT	0.582													5	16					0	0	0.00308	0	0		C	64204153	C	C	64204153	3	2	19	1	0	0	0	0	1	0	0	0	4239	1261	44	5	134	5	DAPK2	15	64204153	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	247385	64204153	38327239	2279	15792											
SNX22	79856	broad.mit.edu	37	chr15	64446697	64446697	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccctgctcctctgccacCgatgccctgatcagtccaga	7	9	7	18	1	3	2	2	1	1	1	5	3	5	2	6	0	3	1	6	0	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:64446697C>A	uc002anc.1	+	7	631	c.572C>A	c.(571-573)CCG>CAG	p.P191Q	SNX22_uc002amz.1_3'UTR|SNX22_uc002ana.1_3'UTR|SNX22_uc002anb.1_RNA	NM_024798	NP_079074	Q96L94	SNX22_HUMAN	sorting nexin 22	191				P -> L (in Ref. 2; BAB14776).	cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding				0						CCTCTGCCACCGATGCCCTGA	0.572													76	194					6.20368e-34	6.66708e-34	0.01441	1	0		A	64446697	A	A	64446697	3	1	19	1	0	0	0	0	1	0	0	0	14919	652	23	5	598	5	SNX22	15	64446697	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	242544	64446697	38084695	2280	15793											
PLEKHO2	80301	broad.mit.edu	37	chr15	65157253	65157253	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagcctttcctagcaccTgagaccaccagccctggtga	10	7	8	16	0	0	2	0	2	0	1	1	3	1	2	7	1	3	1	7	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:65157253T>C	uc002anv.2	+	6	773	c.639T>C	c.(637-639)CCT>CCC	p.P213P	PLEKHO2_uc010bgz.2_Intron|PLEKHO2_uc002anw.2_Silent_p.P163P	NM_025201	NP_079477	Q8TD55	PKHO2_HUMAN	pleckstrin homology domain containing, family O	213	Pro-rich.									ovary(1)|lung(1)	2						TCCTAGCACCTGAGACCACCA	0.632													6	180					0	0	0.001168	0	0		C	65157253	C	C	65157253	2	2	19	1	0	0	0	0	0	0	0	1	12104	1567	55	3		3	PLEKHO2	15	65157253	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	710556	65157253	37374139	2281	15794											
PARP16	54956	broad.mit.edu	37	chr15	65559078	65559078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaacaggcgtgtgaggaGccccagtcagcttttggatc	9	8	14	10	1	1	1	1	1	0	0	2	4	1	4	2	4	3	1	2	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:65559078G>A	uc002aoo.2	-	3	595	c.341C>T	c.(340-342)GCT>GTT	p.A114V	PARP16_uc002aop.2_Intron|PARP16_uc002aoq.2_Missense_Mutation_p.A114V	NM_017851	NP_060321	Q8N5Y8	PAR16_HUMAN	poly (ADP-ribose) polymerase family, member 16	114	PARP catalytic.					integral to membrane	NAD+ ADP-ribosyltransferase activity			lung(2)	2						CGTGTGAGGAGCCCCAGTCAG	0.438													9	44					0	0	0.006214	0	0		A	65559078	A	A	65559078	3	1	19	1	0	0	0	0	1	0	0	0	11479	971	34	2	646	2	PARP16	15	65559078	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	401825	65559078	36972314	2282	15795											
MEGF11	84465	broad.mit.edu	37	chr15	66416333	66416333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgattcctggacagtcacaGcatagctgagaaccagatgg	13	7	11	10	1	1	2	1	1	0	2	2	5	2	3	2	2	3	2	2	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:66416333G>A	uc002apm.2	-	3	245	c.104C>T	c.(103-105)GCT>GTT	p.A35V	MEGF11_uc002apl.2_5'UTR|MEGF11_uc002apn.1_Missense_Mutation_p.A35V	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	35	EMI.					basolateral plasma membrane|integral to membrane				pancreas(1)	1						GACAGTCACAGCATAGCTGAG	0.532													5	73					0	0	0.000602	0	0		A	66416333	A	A	66416333	3	1	19	1	0	0	0	0	1	0	0	0	9479	971	34	2	3114	2	MEGF11	15	66416333	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	857255	66416333	36115059	2283	15796											
MAP2K1	5604	broad.mit.edu	37	chr15	66774157	66774157	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagctctgtgactttggggtCagcgggcagctcatcgactc	7	10	13	11	2	3	1	2	1	1	0	5	2	3	1	0	3	3	3	0	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:66774157C>T	uc010bhq.2	+	6	1108	c.633C>T	c.(631-633)GTC>GTT	p.V211V	MAP2K1_uc010ujp.1_Silent_p.V189V	NM_002755	NP_002746	Q02750	MP2K1_HUMAN	mitogen-activated protein kinase kinase 1	211	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|plasma membrane	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						ACTTTGGGGTCAGCGGGCAGC	0.517									Cardiofaciocutaneous_syndrome				31	85					0	0	0.010818	0	0		T	66774157	T	T	66774157	2	4	19	1	0	0	0	0	0	0	0	1	9254	813	29	4		4	MAP2K1	15	66774157	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	357824	66774157	35757235	2284	15797											
SMAD3	4088	broad.mit.edu	37	chr15	67457298	67457298	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgtcatctactgccgccTgtggcgatggccagacctgc	6	10	11	14	2	3	1	2	0	1	1	3	2	3	1	4	2	3	0	4	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:67457298T>C	uc002aqj.2	+	2	570	c.272T>C	c.(271-273)CTG>CCG	p.L91P	SMAD3_uc010ujr.1_5'UTR|SMAD3_uc010ujs.1_Missense_Mutation_p.L47P|SMAD3_uc010ujt.1_5'Flank	NM_005902	NP_005893	P84022	SMAD3_HUMAN	mothers against decapentaplegic homolog 3	91	MH1.				activation of caspase activity|cell cycle arrest|cell-cell junction organization|evasion of host defenses by virus|immune response|induction of apoptosis|negative regulation of cell growth|negative regulation of mitotic cell cycle|negative regulation of protein catabolic process|negative regulation of protein phosphorylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|protein stabilization|regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|transport|wound healing	cytosol|nuclear inner membrane|receptor complex	beta-catenin binding|co-SMAD binding|metal ion binding|protein homodimerization activity|protein kinase binding|R-SMAD binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor binding|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|ubiquitin protein ligase binding			large_intestine(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5				Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(7;0.125)		TACTGCCGCCTGTGGCGATGG	0.612													60	95					0	0	0.01441	0	0		C	67457298	C	C	67457298	3	2	19	1	0	0	0	0	1	0	0	0	14784	1580	55	3	356	3	SMAD3	15	67457298	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	683141	67457298	35074094	2285	15798											
TLE3	7090	broad.mit.edu	37	chr15	70342461	70342461	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agatgacctcataaactgtgGccttcttgtcaccagagcct	10	11	8	12	0	3	3	2	1	1	2	3	3	3	3	4	1	2	0	4	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:70342461G>T	uc002asm.2	-	20	3413	c.2294C>A	c.(2293-2295)GCC>GAC	p.A765D	TLE3_uc002ask.2_Missense_Mutation_p.A692D|TLE3_uc002asl.2_Missense_Mutation_p.A765D|TLE3_uc010ukd.1_Missense_Mutation_p.A755D|TLE3_uc010bik.1_Missense_Mutation_p.A346D|TLE3_uc010bil.1_Missense_Mutation_p.A762D|TLE3_uc002asn.2_Missense_Mutation_p.A753D|TLE3_uc002asp.2_Missense_Mutation_p.A757D|TLE3_uc002aso.2_Missense_Mutation_p.A760D	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	765	WD 7.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						ATAAACTGTGGCCTTCTTGTC	0.507													29	110					4.74835e-14	5.00986e-14	0.010818	1	0		T	70342461	T	T	70342461	3	4	19	1	0	0	0	0	1	0	0	0	15965	1203	42	5	28	5	TLE3	15	70342461	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2885163	70342461	32188931	2286	15799											
UACA	55075	broad.mit.edu	37	chr15	70961720	70961720	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttcattttcagagtatgAcgtttgactgggtaaagata	13	15	9	4	1	2	4	2	2	0	2	2	4	2	4	0	1	0	3	0	1	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:70961720A>G	uc002asr.2	-	16	1407	c.1303T>C	c.(1303-1305)TCA>CCA	p.S435P	UACA_uc010uke.1_Missense_Mutation_p.S326P|UACA_uc002asq.2_Missense_Mutation_p.S422P|UACA_uc010bin.1_Missense_Mutation_p.S410P	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	435						cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						TCAGAGTATGACGTTTGACTG	0.383													6	94					0	0	0.001168	0	0		G	70961720	G	G	70961720	3	3	19	1	0	0	0	0	1	0	0	0	16850	275	10	3	2963	3	UACA	15	70961720	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	619259	70961720	31569672	2287	15800											
UACA	55075	broad.mit.edu	37	chr15	70980154	70980154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatgctagaaggacaatctgCcattgctttaaggaacaaaa	16	10	8	7	0	1	1	0	0	1	1	1	3	1	3	1	2	4	2	1	2	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:70980154C>T	uc002asr.2	-	6	534	c.430G>A	c.(430-432)GCA>ACA	p.A144T	UACA_uc010uke.1_Missense_Mutation_p.A144T|UACA_uc002asq.2_Missense_Mutation_p.A131T|UACA_uc010bin.1_Missense_Mutation_p.A130T	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	144	ANK 4.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						GGACAATCTGCCATTGCTTTA	0.353													21	42					0	0	0.004656	0	0		T	70980154	T	T	70980154	3	4	19	1	0	0	0	0	1	0	0	0	16850	739	26	2	3876	2	UACA	15	70980154	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	18434	70980154	31551238	2288	15801											
MYO9A	4649	broad.mit.edu	37	chr15	72172765	72172765	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgccaatgcatagaatccaAagccacgttgctaatcttca	13	11	6	11	1	2	1	1	0	1	1	3	1	3	1	3	0	4	3	3	0	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:72172765A>G	uc002atl.3	-	29	6006	c.5533T>C	c.(5533-5535)TTG>CTG	p.L1845L	MYO9A_uc002atk.2_Silent_p.L640L|MYO9A_uc002atm.1_Silent_p.L641L	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	1845	Tail.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						ATAGAATCCAAAGCCACGTTG	0.428													5	160					0	0	0.001168	0	0		G	72172765	G	G	72172765	2	3	19	1	0	0	0	0	0	0	0	1	10102	11	1	3		3	MYO9A	15	72172765	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1192611	72172765	30358627	2289	15802											
MYO9A	4649	broad.mit.edu	37	chr15	72192132	72192132	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggctttccatcttgcttgTatgcaaatagcagccatgtg	9	14	9	9	0	1	0	0	0	1	0	2	0	2	0	2	1	4	5	2	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:72192132T>C	uc002atl.3	-	24	3839	c.3366A>G	c.(3364-3366)ATA>ATG	p.I1122M	MYO9A_uc010biq.2_Missense_Mutation_p.I742M|MYO9A_uc002atn.1_Missense_Mutation_p.I1103M|MYO9A_uc002atk.2_5'Flank|MYO9A_uc002atm.1_5'Flank	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	1122	IQ 4.|Neck or regulatory domain.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						ATCTTGCTTGTATGCAAATAG	0.443													34	46					0	0	0.010818	0	0		C	72192132	C	C	72192132	3	2	19	1	0	0	0	0	1	0	0	0	10102	1628	57	3	4356	3	MYO9A	15	72192132	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	19367	72192132	30339260	2290	15803											
CD276	80381	broad.mit.edu	37	chr15	73994824	73994824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccggacctgctggcacaggGcaacgcatccctgaggctgc	7	5	13	16	2	0	1	0	1	0	0	1	2	1	2	3	4	3	5	3	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:73994824G>A	uc002avv.1	+	3	542	c.308G>A	c.(307-309)GGC>GAC	p.G103D	CD276_uc010bjd.1_5'UTR|CD276_uc002avu.1_Missense_Mutation_p.G103D|CD276_uc002avw.1_Missense_Mutation_p.G103D|CD276_uc010ulb.1_Missense_Mutation_p.G49D|CD276_uc002avx.2_5'Flank	NM_001024736	NP_001019907	Q5ZPR3	CD276_HUMAN	CD276 antigen isoform a	103	Ig-like V-type 1.|Extracellular (Potential).				cell proliferation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of T cell proliferation|regulation of immune response|T cell activation	external side of plasma membrane|integral to membrane	receptor binding			skin(1)	1						CTGGCACAGGGCAACGCATCC	0.657													19	31					0	0	0.008871	0	0		A	73994824	A	A	73994824	3	1	19	1	0	0	0	0	1	0	0	0	2995	1203	42	2	314	2	CD276	15	73994824	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1802692	73994824	28536568	2291	15804											
CD276	80381	broad.mit.edu	37	chr15	73995270	73995270	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgactggcaacgtgaccacGtcgcagatggccaacgagca	11	5	12	13	4	0	3	0	2	0	1	1	4	0	3	2	2	3	3	2	2	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:73995270G>A	uc002avv.1	+	4	810	c.576G>A	c.(574-576)ACG>ACA	p.T192T	CD276_uc010bjd.1_Silent_p.T46T|CD276_uc002avu.1_Silent_p.T192T|CD276_uc002avw.1_Intron|CD276_uc010ulb.1_Silent_p.T138T|CD276_uc002avx.2_5'Flank	NM_001024736	NP_001019907	Q5ZPR3	CD276_HUMAN	CD276 antigen isoform a	192	Extracellular (Potential).|Ig-like C2-type 1.				cell proliferation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of T cell proliferation|regulation of immune response|T cell activation	external side of plasma membrane|integral to membrane	receptor binding			skin(1)	1						ACGTGACCACGTCGCAGATGG	0.627													29	48					0	0	0.013726	0	0		A	73995270	A	A	73995270	2	1	19	1	0	0	0	0	0	0	0	1	2995	1132	40	1		1	CD276	15	73995270	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	446	73995270	28536122	2292	15805											
CYP11A1	1583	broad.mit.edu	37	chr15	74635445	74635445	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacacttcctttctgtctcAattcccagtagaagttctgg	9	14	7	11	0	3	1	1	0	3	1	6	2	5	1	2	1	1	2	2	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:74635445A>G	uc002axt.2	-	5	1018	c.863T>C	c.(862-864)TTG>TCG	p.L288S	CYP11A1_uc002axs.2_Missense_Mutation_p.L130S|CYP11A1_uc010bjm.1_Missense_Mutation_p.L130S|CYP11A1_uc010bjn.1_Intron|CYP11A1_uc010bjo.1_Missense_Mutation_p.L288S|CYP11A1_uc010bjp.1_Intron|CYP11A1_uc010ulj.1_Missense_Mutation_p.L68S	NM_000781	NP_000772	P05108	CP11A_HUMAN	cytochrome P450, family 11, subfamily A,	288					C21-steroid hormone biosynthetic process|cholesterol metabolic process|vitamin D metabolic process|xenobiotic metabolic process	mitochondrial matrix	cholesterol monooxygenase (side-chain-cleaving) activity|electron carrier activity|heme binding			ovary(2)	2					Aminoglutethimide(DB00357)|Cholecalciferol(DB00169)|Cimetidine(DB00501)|Clotrimazole(DB00257)|Digitoxin(DB01396)|Digoxin(DB00390)|Medroxyprogesterone(DB00603)|Ouabain(DB01092)|Progesterone(DB00396)|Testosterone(DB00624)|Trilostane(DB01108)	TTTCTGTCTCAATTCCCAGTA	0.522													34	90					0	0	0.013726	0	0		G	74635445	G	G	74635445	3	3	19	1	0	0	0	0	1	0	0	0	4147	131	5	3	722	3	CYP11A1	15	74635445	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	640175	74635445	27895947	2293	15806											
ARID3B	10620	broad.mit.edu	37	chr15	74836635	74836635	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaaacccaggctgcttcaAaatattttcatgtgcagaaa	16	10	7	8	0	2	2	2	0	0	2	2	2	2	2	1	1	3	3	1	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:74836635A>G	uc002aye.2	+	2	559	c.358A>G	c.(358-360)AAA>GAA	p.K120E	ARID3B_uc002ayc.2_Missense_Mutation_p.K120E|ARID3B_uc002ayd.2_Missense_Mutation_p.K120E	NM_006465	NP_006456	Q8IVW6	ARI3B_HUMAN	AT rich interactive domain 3B	120					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0						GGCTGCTTCAAAATATTTTCA	0.512													3	49					0	0	0.004672	0	0		G	74836635	G	G	74836635	3	3	19	1	0	0	0	0	1	0	0	0	917	15	1	3	360	3	ARID3B	15	74836635	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	201190	74836635	27694757	2294	15807											
CLK3	1198	broad.mit.edu	37	chr15	74922144	74922144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccagcgcatcacactggccGaggccctgctgcaccccttc	6	6	9	20	2	1	0	1	0	0	0	2	1	1	0	5	2	3	3	5	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:74922144G>A	uc010uln.1	+	13	2298	c.1837G>A	c.(1837-1839)GAG>AAG	p.E613K	CLK3_uc002ayg.3_Missense_Mutation_p.E465K|CLK3_uc002ayh.3_Missense_Mutation_p.E244K|CLK3_uc002ayj.3_Missense_Mutation_p.E442K|CLK3_uc002ayk.3_Missense_Mutation_p.E392K|CLK3_uc002ayl.3_Missense_Mutation_p.E298K	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	613	Protein kinase.					acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						CACACTGGCCGAGGCCCTGCT	0.602													16	28					0	0	0.004007	0	0		A	74922144	A	A	74922144	3	1	19	1	0	0	0	0	1	0	0	0	3541	1059	37	1	1887	1	CLK3	15	74922144	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	85509	74922144	27609248	2295	15808											
EDC3	80153	broad.mit.edu	37	chr15	74948135	74948135	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgatagacaatgggctcGgactccaagatgttctcatc	10	10	10	11	3	1	2	1	0	1	2	6	4	2	3	1	2	0	2	1	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:74948135G>A	uc002ayn.2	-	7	1247	c.759C>T	c.(757-759)TCC>TCT	p.S253S	EDC3_uc002ayo.2_Silent_p.S253S|EDC3_uc002aym.2_Silent_p.S253S	NM_001142443	NP_001135915	Q96F86	EDC3_HUMAN	enhancer of mRNA decapping 3	253	Required for interaction with DDX6 (By similarity).				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1						CAATGGGCTCGGACTCCAAGA	0.537													25	60					0	0	0.00333	0	0		A	74948135	A	A	74948135	2	1	19	1	0	0	0	0	0	0	0	1	4913	1103	39	1		1	EDC3	15	74948135	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	25991	74948135	27583257	2296	15809											
CYP1A2	1544	broad.mit.edu	37	chr15	75047376	75047376	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctacgggctgaccatgAagcacgcccgctgtgaacat	10	7	10	14	3	1	3	0	3	1	0	1	3	1	3	3	1	3	3	3	1	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:75047376A>G	uc002ayr.1	+	7	1562	c.1498A>G	c.(1498-1500)AAG>GAG	p.K500E		NM_000761	NP_000752	P05177	CP1A2_HUMAN	cytochrome P450, family 1, subfamily A,	500					alkaloid metabolic process|exogenous drug catabolic process|methylation|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative deethylation|oxidative demethylation|steroid catabolic process|toxin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|demethylase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding			ovary(3)|breast(1)	4					Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Aciclovir(DB00787)|Alosetron(DB00969)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Anagrelide(DB00261)|Azelastine(DB00972)|Bortezomib(DB00188)|Caffeine(DB00201)|Carmustine(DB00262)|Chlordiazepoxide(DB00475)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Ciprofloxacin(DB00537)|Clomipramine(DB01242)|Clotrimazole(DB00257)|Clozapine(DB00363)|Conjugated Estrogens(DB00286)|Cyclobenzaprine(DB00924)|Dacarbazine(DB00851)|Desloratadine(DB00967)|Diazepam(DB00829)|Dibucaine(DB00527)|Diclofenac(DB00586)|Duloxetine(DB00476)|Enoxacin(DB00467)|Esomeprazole(DB00736)|Estradiol(DB00783)|Estrone(DB00655)|Fluorouracil(DB00544)|Flutamide(DB00499)|Fluvoxamine(DB00176)|Frovatriptan(DB00998)|Grepafloxacin(DB00365)|Haloperidol(DB00502)|Hesperetin(DB01094)|Imipramine(DB00458)|Ketoconazole(DB01026)|Leflunomide(DB01097)|Levobupivacaine(DB01002)|Levofloxacin(DB01137)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Melatonin(DB01065)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mirtazapine(DB00370)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ofloxacin(DB01165)|Olanzapine(DB00334)|Ondansetron(DB00904)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Pefloxacin(DB00487)|Pimozide(DB01100)|Propafenone(DB01182)|Propranolol(DB00571)|Quinidine(DB00908)|Ramelteon(DB00980)|Ranitidine(DB00863)|Rasagiline(DB01367)|Rifampin(DB01045)|Riluzole(DB00740)|Rofecoxib(DB00533)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Tacrine(DB00382)|Telithromycin(DB00976)|Terfenadine(DB00342)|Theophylline(DB00277)|Thiabendazole(DB00730)|Tizanidine(DB00697)|Tolbutamide(DB01124)|Verapamil(DB00661)|Warfarin(DB00682)|Zileuton(DB00744)|Zolmitriptan(DB00315)	GCTGACCATGAAGCACGCCCG	0.617													27	60					0	0	0.007291	0	0		G	75047376	G	G	75047376	3	3	19	1	0	0	0	0	1	0	0	0	4153	247	9	3	1520	3	CYP1A2	15	75047376	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	99241	75047376	27484016	2297	15810											
MAN2C1	4123	broad.mit.edu	37	chr15	75648756	75648756	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggggaagtttaggctgtaGgcagcttggataacgccagc	10	8	16	7	1	0	0	0	0	0	0	0	2	0	2	1	5	3	5	1	5	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:75648756G>A	uc002baf.2	-	24	2789	c.2772C>T	c.(2770-2772)GCC>GCT	p.A924A	MIR631_hsa-mir-631|MI0003645_5'Flank|MAN2C1_uc002bag.2_Intron|MAN2C1_uc002bah.2_Silent_p.A941A|MAN2C1_uc010bkk.2_Silent_p.A825A	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	924					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						TTAGGCTGTAGGCAGCTTGGA	0.617													9	8					0	0	0.008291	0	0		A	75648756	A	A	75648756	2	1	19	1	0	0	0	0	0	0	0	1	9236	987	35	4		4	MAN2C1	15	75648756	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	601380	75648756	26882636	2298	15811											
FBXO22	26263	broad.mit.edu	37	chr15	76222269	76222269	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtggtccttgtctttggtTataattgctgtaaggtggga	6	17	14	4	0	1	0	0	0	1	0	2	1	2	1	1	4	1	3	1	4	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:76222269T>C	uc002bbk.2	+	6	778	c.673T>C	c.(673-675)TAT>CAT	p.Y225H	FBXO22_uc002bbj.1_Missense_Mutation_p.Y225H|FBXO22_uc002bbl.2_Missense_Mutation_p.Y121H	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	225					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0						TGTCTTTGGTTATAATTGCTG	0.408													10	205					0	0	0.006214	0	0		C	76222269	C	C	76222269	3	2	19	1	0	0	0	0	1	0	0	0	5748	1754	61	3	695	3	FBXO22	15	76222269	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	573513	76222269	26309123	2299	15812											
SCAPER	49855	broad.mit.edu	37	chr15	77134163	77134163	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcaaaaagaaatgcccagTatcgagctcttagatcaatt	16	11	6	8	1	3	2	2	0	1	2	4	3	3	2	1	0	2	2	1	0	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:77134163T>C	uc002bby.2	-	4	364	c.305A>G	c.(304-306)TAC>TGC	p.Y102C	SCAPER_uc002bbx.2_Translation_Start_Site|SCAPER_uc002bbz.1_Translation_Start_Site|SCAPER_uc002bca.1_Translation_Start_Site|SCAPER_uc002bcb.1_Missense_Mutation_p.Y102C|SCAPER_uc002bcc.1_Missense_Mutation_p.Y102C	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	101						endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						AAATGCCCAGTATCGAGCTCT	0.403													32	51					0	0	0.012213	0	0		C	77134163	C	C	77134163	3	2	19	1	0	0	0	0	1	0	0	0	13903	1638	57	3	4047	3	SCAPER	15	77134163	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	911894	77134163	25397229	2300	15813											
PSTPIP1	9051	broad.mit.edu	37	chr15	77310814	77310814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagggcccaggcggaggagCggtacgggaaggagctggtg	8	3	22	8	3	0	0	0	0	0	0	0	4	0	4	1	8	3	3	1	8	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:77310814C>T	uc002bcf.2	+	3	604	c.154C>T	c.(154-156)CGG>TGG	p.R52W	PSTPIP1_uc010bkt.1_RNA|PSTPIP1_uc010umo.1_5'UTR|PSTPIP1_uc010bku.1_Missense_Mutation_p.R43W|PSTPIP1_uc002bcg.2_Missense_Mutation_p.R52W|PSTPIP1_uc010bkv.1_RNA|PSTPIP1_uc010bkw.1_Missense_Mutation_p.R52W	NM_003978	NP_003969	O43586	PPIP1_HUMAN	proline-serine-threonine phosphatase interacting	52	FCH.				cell adhesion|signal transduction	cleavage furrow|lamellipodium|perinuclear region of cytoplasm	catalytic activity			ovary(1)	1						GGCGGAGGAGCGGTACGGGAA	0.587													3	3					0	0	0.009096	0	0		T	77310814	T	T	77310814	3	4	19	1	0	0	0	0	1	0	0	0	12743	759	27	1	164	1	PSTPIP1	15	77310814	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	176651	77310814	25220578	2301	15814											
SGK269	79834	broad.mit.edu	37	chr15	77473490	77473490	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgcgaatctccatggccAacagctcttcatcactctca	10	11	5	15	1	6	0	4	0	3	0	8	1	6	0	2	1	3	1	2	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:77473490A>G	uc002bcm.2	-	3	1087	c.779T>C	c.(778-780)TTG>TCG	p.L260S	SGK269_uc002bcn.2_Missense_Mutation_p.L260S	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	260					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		CTCCATGGCCAACAGCTCTTC	0.478													4	135					0	0	0.000602	0	0		G	77473490	G	G	77473490	3	3	19	1	0	0	0	0	1	0	0	0	14236	131	5	3	4477	3	SGK269	15	77473490	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	162676	77473490	25057902	2302	15815											
LINGO1	84894	broad.mit.edu	37	chr15	77906403	77906403	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcatatcatcttcatgtTgaacttgcggggcgcgtcgg	6	12	12	11	4	4	1	3	1	1	0	5	1	4	1	1	3	2	1	1	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:77906403T>C	uc002bct.1	-	2	1898	c.1846A>G	c.(1846-1848)AAC>GAC	p.N616D	LINGO1_uc002bcu.1_Missense_Mutation_p.N610D	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	616	Cytoplasmic (Potential).				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						ATCTTCATGTTGAACTTGCGG	0.448													3	6					0	0	0.009096	0	0		C	77906403	C	C	77906403	3	2	19	1	0	0	0	0	1	0	0	0	8831	1812	63	3	20	3	LINGO1	15	77906403	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	432913	77906403	24624989	2303	15816											
CHRNA5	1138	broad.mit.edu	37	chr15	78873306	78873306	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctcaattggtggatgtggTaggtgtgcatatccttctat	8	16	11	6	0	2	0	1	0	2	0	4	1	3	1	1	4	1	2	1	4	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:78873306T>C	uc002bdy.2	+	2	420	c.258_splice	c.e2+2	p.V86_splice	CHRNA5_uc002bdz.2_Splice_Site_p.V86_splice	NM_000745	NP_000736	P30532	ACHA5_HUMAN	cholinergic receptor, nicotinic, alpha 5						behavioral response to nicotine	cell junction|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GTGGATGTGGTAGGTGTGCAT	0.254													39	105					0	0	0.01441	0	0		C	78873306	C	C	78873306	5	2	19	1	0	0	0	0	0	0	1	0	3389	1652	57	3	266	3	CHRNA5	15	78873306	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	966903	78873306	23658086	2304	15817											
CHRNB4	1143	broad.mit.edu	37	chr15	78923514	78923514	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgttccaggtcaggcggTaatcagtccattcctggaca	9	10	11	11	1	2	0	2	0	0	0	5	1	5	1	3	4	1	3	3	4	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:78923514T>C	uc002bed.1	-	4	375	c.263A>G	c.(262-264)TAC>TGC	p.Y88C	CHRNB4_uc002bee.1_Missense_Mutation_p.Y88C|CHRNB4_uc010blh.1_5'UTR	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	88	Extracellular (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						GGTCAGGCGGTAATCAGTCCA	0.562													8	90					0	0	0.006214	0	0		C	78923514	C	C	78923514	3	2	19	1	0	0	0	0	1	0	0	0	3396	1638	57	3	1245	3	CHRNB4	15	78923514	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	50208	78923514	23607878	2305	15818											
ADAMTS7	11173	broad.mit.edu	37	chr15	79058757	79058757	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggagcccaagatctggggCccctatgggggtgtcttcct	5	9	16	11	0	2	1	0	0	2	1	3	2	3	2	4	6	1	0	4	6	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:79058757C>T	uc002bej.3	-	19	3707	c.3496G>A	c.(3496-3498)GCC>ACC	p.A1166T	ADAMTS7_uc010und.1_3'UTR	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1166					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						AGATCTGGGGCCCCTATGGGG	0.627													13	19					0	0	0.003163	0	0		T	79058757	T	T	79058757	3	4	19	1	0	0	0	0	1	0	0	0	271	739	26	2	1588	2	ADAMTS7	15	79058757	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	135243	79058757	23472635	2306	15819											
KIAA1024	23251	broad.mit.edu	37	chr15	79748657	79748657	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttctacacagcttgtctCgatcccaattttccagccac	8	13	4	16	1	3	0	0	0	3	0	6	1	5	0	3	0	3	1	3	0	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:79748657C>T	uc002bew.1	+	2	243	c.168C>T	c.(166-168)CTC>CTT	p.L56L	KIAA1024_uc010unk.1_Silent_p.L56L	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	56						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						CAGCTTGTCTCGATCCCAATT	0.458													5	112					0	0	0.000602	0	0		T	79748657	T	T	79748657	2	4	19	1	0	0	0	0	0	0	0	1	8221	871	31	1		1	KIAA1024	15	79748657	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	689900	79748657	22782735	2307	15820											
MESDC2	23184	broad.mit.edu	37	chr15	81282061	81282061	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacccaggcggtggtagcagTagcagcagcagcagcaggtc	10	4	16	11	1	0	0	0	0	0	0	1	1	0	0	1	4	6	8	1	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:81282061T>C	uc002bfy.1	-	1	145	c.72A>G	c.(70-72)CTA>CTG	p.L24L	MESDC2_uc002bfx.2_RNA|MESDC2_uc010uno.1_RNA	NM_015154	NP_055969	Q14696	MESD_HUMAN	mesoderm development candidate 2	24	Chaperone domain (By similarity).				mesoderm development|protein folding|Wnt receptor signaling pathway	endoplasmic reticulum					0						GTGGTagcagtagcagcagca	0.597													5	22					0	0	0.004482	0	0		C	81282061	C	C	81282061	2	2	19	1	0	0	0	0	0	0	0	1	9499	1625	57	3		3	MESDC2	15	81282061	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1533404	81282061	21249331	2308	15821											
BNC1	646	broad.mit.edu	37	chr15	83933080	83933080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttttttagtaatagcatccGgacagtttaaacactgatct	12	15	6	8	1	1	1	0	1	1	0	2	2	2	2	1	1	2	3	1	1	5	7	rs146985300		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:83933080G>A	uc002bjt.1	-	4	1011	c.923C>T	c.(922-924)CCG>CTG	p.P308L	BNC1_uc010uos.1_Missense_Mutation_p.P296L	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	308					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						AATAGCATCCGGACAGTTTAA	0.448													31	88					0	0	0.010818	0	0		A	83933080	A	A	83933080	3	1	19	1	0	0	0	0	1	0	0	0	1475	1116	39	1	2069	1	BNC1	15	83933080	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2651019	83933080	18598312	2309	15822											
PDE8A	5151	broad.mit.edu	37	chr15	85666327	85666327	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcgccaggggattatcgAcatggtcttagccacagaaa	12	8	11	10	2	1	1	0	0	1	1	2	3	1	2	2	3	2	0	2	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:85666327A>G	uc002blh.2	+	19	2177	c.1988A>G	c.(1987-1989)GAC>GGC	p.D663G	PDE8A_uc002bli.2_Missense_Mutation_p.D617G|PDE8A_uc010bnc.2_Missense_Mutation_p.D416G|PDE8A_uc010bnd.2_Missense_Mutation_p.D416G|PDE8A_uc002blj.2_Missense_Mutation_p.D283G|PDE8A_uc002blk.2_Missense_Mutation_p.D283G|PDE8A_uc002bll.2_Missense_Mutation_p.D15G	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	663	Catalytic (By similarity).				cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			GGGATTATCGACATGGTCTTA	0.433													12	94					0	0	0.013537	0	0		G	85666327	G	G	85666327	3	3	19	1	0	0	0	0	1	0	0	0	11672	275	10	3	2062	3	PDE8A	15	85666327	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1733247	85666327	16865065	2310	15823											
AKAP13	11214	broad.mit.edu	37	chr15	86278287	86278287	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttgggccgactgtcagcagCcccattgagcaagatgtggt	8	9	13	11	1	1	2	1	1	0	1	1	3	1	2	3	2	3	2	3	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:86278287C>T	uc002blv.1	+	31	7517	c.7347C>T	c.(7345-7347)AGC>AGT	p.S2449S	AKAP13_uc002blu.1_Silent_p.S2453S|AKAP13_uc002blw.1_Silent_p.S914S|AKAP13_uc002blx.1_Silent_p.S694S	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2449	Interaction with ESR1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CTGTCAGCAGCCCCATTGAGC	0.502													129	252					0	0	0.01441	0	0		T	86278287	T	T	86278287	2	4	19	1	0	0	0	0	0	0	0	1	449	738	26	2		2	AKAP13	15	86278287	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	611960	86278287	16253105	2311	15824											
RLBP1	6017	broad.mit.edu	37	chr15	89758315	89758315	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaaaggtgatttcttgactTtgccagttctcaatgttgaa	10	16	8	7	0	3	3	2	3	2	0	4	3	3	3	1	1	1	2	1	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:89758315T>C	uc002bnl.2	-	6	881	c.501A>G	c.(499-501)CAA>CAG	p.Q167Q		NM_000326	NP_000317	P12271	RLBP1_HUMAN	retinaldehyde binding protein 1	167	CRAL-TRIO.				response to stimulus|visual perception|vitamin A metabolic process	cytoplasm|soluble fraction	retinol binding|transporter activity			central_nervous_system(1)	1	Lung NSC(78;0.0472)|all_lung(78;0.089)				Vitamin A(DB00162)	TTTCTTGACTTTGCCAGTTCT	0.577													26	124					0	0	0.004656	0	0		C	89758315	C	C	89758315	2	2	19	1	0	0	0	0	0	0	0	1	13413	1838	64	3		3	RLBP1	15	89758315	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3480028	89758315	12773077	2312	15825											
FANCI	55215	broad.mit.edu	37	chr15	89828419	89828419	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaggagatgcttaagccaGcaagctgatgttcgactcat	11	11	11	8	1	1	3	1	2	0	1	2	5	1	3	1	1	4	4	1	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:89828419G>A	uc010bnp.1	+	18	1881	c.1791G>A	c.(1789-1791)CAG>CAA	p.Q597Q	FANCI_uc002bnm.1_Silent_p.Q597Q|FANCI_uc002bnn.1_RNA|FANCI_uc002bnp.1_Silent_p.Q418Q|FANCI_uc002bnq.1_Silent_p.Q10Q	NM_001113378	NP_001106849	Q9NVI1	FANCI_HUMAN	Fanconi anemia, complementation group I isoform	597					cell cycle|DNA repair	nucleoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					GCTTAAGCCAGCAAGCTGATG	0.373								Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				22	194					0	0	0.00333	0	0		A	89828419	A	A	89828419	2	1	19	1	0	0	0	0	0	0	0	1	5683	962	34	2		2	FANCI	15	89828419	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	70104	89828419	12702973	2313	15826											
POLG	5428	broad.mit.edu	37	chr15	89870444	89870444	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcattggccagatccatcaAcgacttcttcatctcccgct	9	12	5	15	2	5	1	3	0	2	1	7	2	6	1	3	1	1	1	3	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:89870444A>G	uc002bns.3	-	7	1669	c.1387T>C	c.(1387-1389)TTG>CTG	p.L463L	POLG_uc002bnr.3_Silent_p.L463L	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	463			L -> F.		base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			AGATCCATCAACGACTTCTTC	0.607								DNA_polymerases_(catalytic_subunits)					15	138					0	0	0.004007	0	0		G	89870444	G	G	89870444	2	3	19	1	0	0	0	0	0	0	0	1	12219	40	2	3		3	POLG	15	89870444	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	42025	89870444	12660948	2314	15827											
C15orf42	90381	broad.mit.edu	37	chr15	90169244	90169244	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctctgacccagtctccgCtgctgttccaggggaaaaca	9	8	11	13	1	2	1	0	1	2	0	4	2	3	2	3	3	2	4	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:90169244C>T	uc002boe.2	+	21	5554	c.5554C>T	c.(5554-5556)CTG>TTG	p.L1852L	C15orf42_uc010upv.1_RNA	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1852					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			CCAGTCTCCGCTGCTGTTCCA	0.557													21	60					0	0	0.00333	0	0		T	90169244	T	T	90169244	2	4	19	1	0	0	0	0	0	0	0	1	1799	796	28	2		2	C15orf42	15	90169244	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	298800	90169244	12362148	2315	15828											
FURIN	5045	broad.mit.edu	37	chr15	91423207	91423207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatcatcgacatcctcaccGagcccaagtgagggctggac	10	6	11	14	2	2	1	2	1	0	0	4	4	3	2	3	2	1	2	3	2	1	0	rs138927071		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:91423207G>A	uc002bpu.1	+	12	1585	c.1369G>A	c.(1369-1371)GAG>AAG	p.E457K		NM_002569	NP_002560	P09958	FURIN_HUMAN	furin preproprotein	457					cell proliferation|negative regulation of low-density lipoprotein particle receptor catabolic process|negative regulation of transforming growth factor-beta1 production|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|Notch signaling pathway|peptide biosynthetic process|peptidyl-glutamic acid carboxylation|post-translational protein modification|secretion by cell|signal peptide processing|transforming growth factor beta receptor signaling pathway|viral assembly, maturation, egress, and release	cell surface|Golgi lumen|Golgi membrane|integral to membrane|membrane raft|plasma membrane|trans-Golgi network|trans-Golgi network transport vesicle	metal ion binding|nerve growth factor binding|peptide binding|protease binding|serine-type endopeptidase activity|serine-type endopeptidase inhibitor activity			central_nervous_system(4)|lung(2)|breast(1)	7	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			CATCCTCACCGAGCCCAAGTG	0.662													13	32					0	0	0.001855	0	0		A	91423207	A	A	91423207	3	1	19	1	0	0	0	0	1	0	0	0	6113	1059	37	1	1411	1	FURIN	15	91423207	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1253963	91423207	11108185	2316	15829											
FURIN	5045	broad.mit.edu	37	chr15	91424194	91424194	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccctcgtactctatggCaccgcccctgaggggctgcc	5	9	10	17	2	2	1	1	1	1	0	3	1	2	1	5	3	2	3	5	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:91424194C>T	uc002bpu.1	+	15	1932	c.1716C>T	c.(1714-1716)GGC>GGT	p.G572G		NM_002569	NP_002560	P09958	FURIN_HUMAN	furin preproprotein	572	Cys-rich.				cell proliferation|negative regulation of low-density lipoprotein particle receptor catabolic process|negative regulation of transforming growth factor-beta1 production|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|Notch signaling pathway|peptide biosynthetic process|peptidyl-glutamic acid carboxylation|post-translational protein modification|secretion by cell|signal peptide processing|transforming growth factor beta receptor signaling pathway|viral assembly, maturation, egress, and release	cell surface|Golgi lumen|Golgi membrane|integral to membrane|membrane raft|plasma membrane|trans-Golgi network|trans-Golgi network transport vesicle	metal ion binding|nerve growth factor binding|peptide binding|protease binding|serine-type endopeptidase activity|serine-type endopeptidase inhibitor activity			central_nervous_system(4)|lung(2)|breast(1)	7	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			TACTCTATGGCACCGCCCCTG	0.612													10	157					0	0	0.008291	0	0		T	91424194	T	T	91424194	2	4	19	1	0	0	0	0	0	0	0	1	6113	697	25	2		2	FURIN	15	91424194	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	987	91424194	11107198	2317	15830											
UNC45A	55898	broad.mit.edu	37	chr15	91496765	91496765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcaccggggtgctgtggTggtgctgaacatggtggagg	6	8	20	7	1	0	1	0	1	0	0	0	2	0	2	1	7	4	4	1	7	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:91496765T>C	uc002bqg.2	+	20	2994	c.2654T>C	c.(2653-2655)GTG>GCG	p.V885A	UNC45A_uc002bqd.2_Missense_Mutation_p.V870A|UNC45A_uc010uqr.1_Missense_Mutation_p.V277A|UNC45A_uc002bqi.2_Missense_Mutation_p.V163A|RCCD1_uc002bqj.2_5'Flank|RCCD1_uc002bqk.2_5'Flank|RCCD1_uc002bql.2_5'Flank	NM_018671	NP_061141	Q9H3U1	UN45A_HUMAN	smooth muscle cell associated protein-1 isoform	885					cell differentiation|muscle organ development	nucleus|perinuclear region of cytoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			GGTGCTGTGGTGGTGCTGAAC	0.567													5	210					0	0	0.004482	0	0		C	91496765	C	C	91496765	3	2	19	1	0	0	0	0	1	0	0	0	17014	1696	59	3	2732	3	UNC45A	15	91496765	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	72571	91496765	11034627	2318	15831											
ST8SIA2	8128	broad.mit.edu	37	chr15	92973323	92973323	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagatcagctgtgaacagctTacatagcaaatctaataggt	15	10	8	8	0	2	2	1	1	1	1	2	2	2	2	0	1	5	3	0	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:92973323T>A	uc002bra.2	+	2	298	c.143T>A	c.(142-144)TTA>TAA	p.L48*	ST8SIA2_uc002brb.2_Intron	NM_006011	NP_006002	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide	48	Lumenal (Potential).				axon guidance|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity				0	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			GTGAACAGCTTACATAGCAAA	0.393													26	44					0	0	0.007291	0	0		A	92973323	A	A	92973323	4	1	19	1	0	0	0	0	0	1	0	0	15257	1764	61	5	149	5	ST8SIA2	15	92973323	Nonsense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1476558	92973323	9558069	2319	15832											
ST8SIA2	8128	broad.mit.edu	37	chr15	92987897	92987897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagtacaggagtatgccCgggatgtggggctcaagaca	10	6	14	11	1	1	1	1	0	0	1	1	3	1	3	3	4	2	3	3	4	3	2	rs146396658		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:92987897C>T	uc002bra.2	+	5	735	c.580C>T	c.(580-582)CGG>TGG	p.R194W	ST8SIA2_uc002brb.2_Missense_Mutation_p.R173W	NM_006011	NP_006002	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide	194	Lumenal (Potential).				axon guidance|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity				0	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			GGAGTATGCCCGGGATGTGGG	0.567													4	115					0	0	0.009096	0	0		T	92987897	T	T	92987897	3	4	19	1	0	0	0	0	1	0	0	0	15257	643	23	1	598	1	ST8SIA2	15	92987897	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	14574	92987897	9543495	2320	15833											
IGF1R	3480	broad.mit.edu	37	chr15	99467785	99467785	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtgtgtccagacaggaatAcaggaagtatggaggggcca	13	7	15	6	0	0	1	0	0	0	1	1	4	1	4	2	5	1	1	2	5	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:99467785A>G	uc002bul.2	+	13	2704	c.2654A>G	c.(2653-2655)TAC>TGC	p.Y885C	IGF1R_uc010bon.2_Missense_Mutation_p.Y885C|IGF1R_uc010boo.1_RNA	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	885	Extracellular (Potential).|Fibronectin type-III 3.				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	AGACAGGAATACAGGAAGTAT	0.507													19	223					0	0	0.014323	0	0		G	99467785	G	G	99467785	3	3	19	1	0	0	0	0	1	0	0	0	7587	391	14	3	2704	3	IGF1R	15	99467785	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	6479888	99467785	3063607	2321	15834											
IGF1R	3480	broad.mit.edu	37	chr15	99467821	99467821	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccaagctaaaccggctaaAcccggggaactacacagccc	13	3	10	15	2	0	0	0	0	0	0	0	1	0	1	4	4	6	2	4	4	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:99467821A>G	uc002bul.2	+	13	2740	c.2690A>G	c.(2689-2691)AAC>AGC	p.N897S	IGF1R_uc010bon.2_Missense_Mutation_p.N897S|IGF1R_uc010boo.1_RNA	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	897	Extracellular (Potential).|Fibronectin type-III 3.				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	AACCGGCTAAACCCGGGGAAC	0.502													4	167					0	0	0.000602	0	0		G	99467821	G	G	99467821	3	3	19	1	0	0	0	0	1	0	0	0	7587	43	2	3	2740	3	IGF1R	15	99467821	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	36	99467821	3063571	2322	15835											
LRRK1	79705	broad.mit.edu	37	chr15	101528908	101528908	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagcgagggcacctgggggTtgtgaagctcctggtcctga	6	8	16	11	1	0	2	0	2	0	0	2	3	2	2	4	4	2	3	4	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:101528908T>C	uc002bwr.2	+	5	822	c.503T>C	c.(502-504)GTT>GCT	p.V168A	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bwq.1_Missense_Mutation_p.V168A	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	168	ANK 3.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CACCTGGGGGTTGTGAAGCTC	0.627													38	118					0	0	0.004289	0	0		C	101528908	C	C	101528908	3	2	19	1	0	0	0	0	1	0	0	0	9050	1725	60	3	517	3	LRRK1	15	101528908	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2061087	101528908	1002484	2323	15836											
CHSY1	22856	broad.mit.edu	37	chr15	101718849	101718849	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggccgtcaactgccgaatAcaagtattttccagtcagaa	12	10	8	11	2	2	1	2	0	0	1	3	2	3	1	3	1	3	1	3	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:101718849A>G	uc002bwt.1	-	4	1636	c.1153T>C	c.(1153-1155)TAT>CAT	p.Y385H	CHSY1_uc010usd.1_Missense_Mutation_p.Y113H	NM_014918	NP_055733	Q86X52	CHSS1_HUMAN	chondroitin sulfate synthase 1	385	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity				0	Lung NSC(78;0.00217)|all_lung(78;0.00271)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			ACTGCCGAATACAAGTATTTT	0.552													11	85					0	0	0.010729	0	0		G	101718849	G	G	101718849	3	3	19	1	0	0	0	0	1	0	0	0	3415	391	14	3	1259	3	CHSY1	15	101718849	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	189941	101718849	812543	2324	15837											
HBM	3042	broad.mit.edu	37	chr16	216278	216278	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgcaggctcttcacggTgtaccccagcaccaaggtct	7	9	10	15	1	3	0	1	0	2	0	4	0	4	0	4	3	3	4	4	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:216278T>C	uc002cfu.1	+	2	128	c.104T>C	c.(103-105)GTG>GCG	p.V35A		NM_001003938	NP_001003938	Q6B0K9	HBM_HUMAN	hemoglobin mu chain	35						hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		all_cancers(16;1.62e-06)|all_epithelial(16;4.01e-06)|Hepatocellular(16;0.000325)|Lung NSC(18;0.0104)|all_lung(18;0.0239)				CTCTTCACGGTGTACCCCAGC	0.711													7	15					0	0	0.001984	0	0		C	216278	C	C	216278	3	2	19	1	0	0	0	0	1	0	0	0	7000	1696	59	3	110	3	HBM	16	216278	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08		216278	90138475	2325	15838											
MRPL28	10573	broad.mit.edu	37	chr16	418359	418359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaagtctctgcttctcaatgGcctcctccagcgtgaggccc	7	10	9	15	1	2	1	1	1	2	0	6	1	4	1	4	2	2	1	4	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:418359G>A	uc002cgr.1	-	4	648	c.632C>T	c.(631-633)GCC>GTC	p.A211V	MRPL28_uc010bqu.1_Intron|MRPL28_uc002cgs.1_Missense_Mutation_p.A211V|MRPL28_uc002cgt.1_Missense_Mutation_p.A211V	NM_006428	NP_006419	Q13084	RM28_HUMAN	mitochondrial ribosomal protein L28 precursor	211					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0		Hepatocellular(16;0.000105)|Lung NSC(18;0.0324)|all_lung(18;0.064)				CTTCTCAATGGCCTCCTCCAG	0.622													47	76					0	0	0.01441	0	0		A	418359	A	A	418359	3	1	19	1	0	0	0	0	1	0	0	0	9810	1203	42	2	146	2	MRPL28	16	418359	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	202081	418359	89936394	2326	15839											
SOLH	6650	broad.mit.edu	37	chr16	601649	601649	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtgtcttctggatggagtAcggcgactttgtcaggtatc	6	13	15	7	2	3	0	1	0	2	0	4	3	3	2	0	5	1	2	0	5	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:601649A>G	uc002chi.2	+	9	2693	c.2330A>G	c.(2329-2331)TAC>TGC	p.Y777C	SOLH_uc002chj.2_5'Flank	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	777	Calpain catalytic.				proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				TGGATGGAGTACGGCGACTTT	0.672													5	47					0	0	0.001168	0	0		G	601649	G	G	601649	3	3	19	1	0	0	0	0	1	0	0	0	14950	391	14	3	2352	3	SOLH	16	601649	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	183290	601649	89753104	2327	15840											
WDR90	197335	broad.mit.edu	37	chr16	703790	703790	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggggttggcaaggaccAccacgggaggacggtaacag	10	4	17	10	3	0	0	0	0	0	0	0	3	0	3	2	7	2	3	2	7	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:703790A>G	uc002cii.1	+	13	1478	c.1424A>G	c.(1423-1425)CAC>CGC	p.H475R	WDR90_uc002cig.1_Missense_Mutation_p.H475R|WDR90_uc002cih.1_Missense_Mutation_p.H476R|WDR90_uc002cij.1_RNA|WDR90_uc002cik.1_5'Flank|WDR90_uc002cil.1_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	475	WD 2.									ovary(1)	1		Hepatocellular(780;0.0218)				GGCAAGGACCACCACGGGAGG	0.637													16	35					0	0	0.006122	0	0		G	703790	G	G	703790	3	3	19	1	0	0	0	0	1	0	0	0	17363	159	6	3	1474	3	WDR90	16	703790	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	102141	703790	89650963	2328	15841											
WDR24	84219	broad.mit.edu	37	chr16	739346	739346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccaggttccacgtgaccaCcacgccattggtggctgctg	6	8	12	15	2	0	1	0	1	0	0	1	1	1	1	5	3	1	3	5	3	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:739346C>T	uc002ciz.1	-	1	1055	c.295G>A	c.(295-297)GTG>ATG	p.V99M		NM_032259	NP_115635	Q96S15	WDR24_HUMAN	WD repeat domain 24	161	WD 1.									ovary(1)|central_nervous_system(1)	2		Hepatocellular(780;0.0218)				CACGTGACCACCACGCCATTG	0.607													5	29					0	0	0.001168	0	0		T	739346	T	T	739346	3	4	19	1	0	0	0	0	1	0	0	0	17307	507	18	4	2113	4	WDR24	16	739346	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	35556	739346	89615407	2329	15842											
MSLNL	401827	broad.mit.edu	37	chr16	830428	830428	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacgtgtaagtgacagtgTgcacgggtaggtgacagtat	10	10	15	6	2	0	2	0	2	0	0	0	2	0	2	0	2	2	5	0	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:830428T>C	uc002cjz.1	-	3	573	c.573A>G	c.(571-573)GCA>GCG	p.A191A		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	Error:Variant_position_missing_in_Q96KJ4_after_alignment					cell adhesion	integral to membrane				breast(3)|ovary(1)	4						AGTGACAGTGTGCACGGGTAG	0.572													4	156					0	0	0.009096	0	0		C	830428	C	C	830428	2	2	19	1	0	0	0	0	0	0	0	1	9900	1683	59	3		3	MSLNL	16	830428	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	91082	830428	89524325	2330	15843											
CHTF18	63922	broad.mit.edu	37	chr16	843186	843186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagctgagcgtgcgggacGtgcaggccacacgcgtgggc	6	4	20	11	5	0	1	0	1	0	0	0	3	0	3	1	4	4	2	1	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:843186G>A	uc002cke.3	+	14	1777	c.1714G>A	c.(1714-1716)GTG>ATG	p.V572M	CHTF18_uc010bre.1_RNA|CHTF18_uc002ckf.3_Missense_Mutation_p.V600M|CHTF18_uc010brf.2_Missense_Mutation_p.V154M|CHTF18_uc002ckg.3_Missense_Mutation_p.V90M	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	572					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity			kidney(1)	1		Hepatocellular(780;0.00335)				CGTGCGGGACGTGCAGGCCAC	0.687													11	8					0	0	0.010729	0	0		A	843186	A	A	843186	3	1	19	1	0	0	0	0	1	0	0	0	3417	1145	40	1	1768	1	CHTF18	16	843186	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	12758	843186	89511567	2331	15844											
CHTF18	63922	broad.mit.edu	37	chr16	847005	847005	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggtctgctggggggcatTggggagaaaggggtgcaccg	7	6	22	6	1	1	1	0	0	1	1	1	3	1	1	1	8	2	3	1	8	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:847005T>C	uc002cke.3	+	20	2709	c.2646T>C	c.(2644-2646)ATT>ATC	p.I882I	CHTF18_uc002ckf.3_Silent_p.I910I|CHTF18_uc010brf.2_Silent_p.I464I|CHTF18_uc002ckg.3_Silent_p.I400I	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	882					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity			kidney(1)	1		Hepatocellular(780;0.00335)				TGGGGGGCATTGGGGAGAAAG	0.652													10	125					0	0	0.001855	0	0		C	847005	C	C	847005	2	2	19	1	0	0	0	0	0	0	0	1	3417	1800	63	3		3	CHTF18	16	847005	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3819	847005	89507748	2332	15845											
BAIAP3	8938	broad.mit.edu	37	chr16	1394107	1394107	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgagactacttccctgccAccaacagcaccgctgtccac	9	7	6	19	2	0	1	0	0	0	1	3	2	3	1	6	0	4	2	6	0	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:1394107A>G	uc002clk.1	+	16	1576	c.1576A>G	c.(1576-1578)ACC>GCC	p.T526A	BAIAP3_uc002clj.2_Missense_Mutation_p.T508A|BAIAP3_uc010uuz.1_Missense_Mutation_p.T491A|BAIAP3_uc010uva.1_Missense_Mutation_p.T463A|BAIAP3_uc010uvc.1_Missense_Mutation_p.T455A	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	526					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				CTTCCCTGCCACCAACAGCAC	0.687													11	29					0	0	0.007413	0	0		G	1394107	G	G	1394107	3	3	19	1	0	0	0	0	1	0	0	0	1305	159	6	3	1638	3	BAIAP3	16	1394107	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	547102	1394107	88960646	2333	15846											
BAIAP3	8938	broad.mit.edu	37	chr16	1397758	1397758	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccgttgccattacgaggcGgctgagcagcggctggccgt	5	8	16	12	5	0	1	0	1	0	0	1	2	1	1	3	4	4	4	3	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:1397758G>A	uc002clk.1	+	31	3066	c.3066G>A	c.(3064-3066)GCG>GCA	p.A1022A	BAIAP3_uc002clj.2_Silent_p.A1004A|BAIAP3_uc010uuz.1_Silent_p.A987A|BAIAP3_uc010uva.1_Silent_p.A959A|BAIAP3_uc010uvc.1_Silent_p.A951A	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	1022	C2 2.				G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				ATTACGAGGCGGCTGAGCAGC	0.706													4	19					0	0	0.000602	0	0		A	1397758	A	A	1397758	2	1	19	1	0	0	0	0	0	0	0	1	1305	1103	39	1		1	BAIAP3	16	1397758	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3651	1397758	88956995	2334	15847											
CLCN7	1186	broad.mit.edu	37	chr16	1510448	1510448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccacaatcacagagcccaCgagcacgaaggcggcgttca	13	3	11	14	4	2	1	2	0	0	1	2	3	2	1	2	2	3	2	2	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:1510448C>T	uc002clv.2	-	6	675	c.565G>A	c.(565-567)GTG>ATG	p.V189M	CLCN7_uc002clw.2_Missense_Mutation_p.V165M	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	189	Helical; (By similarity).					integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				ACAGAGCCCACGAGCACGAAG	0.597													27	77					0	0	0.007291	0	0		T	1510448	T	T	1510448	3	4	19	1	0	0	0	0	1	0	0	0	3471	536	19	1	1932	1	CLCN7	16	1510448	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	112690	1510448	88844305	2335	15848											
EME2	197342	broad.mit.edu	37	chr16	1825690	1825690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtatcccctcaagtgcGtgatgccaaggctgaagggg	9	7	13	12	1	1	2	1	2	0	0	2	2	2	2	4	3	2	2	4	3	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:1825690G>A	uc002cmq.1	+	6	937	c.937G>A	c.(937-939)GTG>ATG	p.V313M	MRPS34_uc002cmn.2_5'Flank|MRPS34_uc002cmo.2_5'Flank|MRPS34_uc002cmp.1_5'Flank|EME2_uc010brw.1_Intron	NM_001010865	NP_001010865	A4GXA9	EME2_HUMAN	essential meiotic endonuclease 1 homolog 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					DNA recombination|DNA repair	nucleus	DNA binding|endonuclease activity			lung(1)|central_nervous_system(1)|pancreas(1)	3						CCTCAAGTGCGTGATGCCAAG	0.602								Direct_reversal_of_damage|Homologous_recombination					34	84					0	0	0.004289	0	0		A	1825690	A	A	1825690	3	1	19	1	0	0	0	0	1	0	0	0	5097	1145	40	1	959	1	EME2	16	1825690	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	315242	1825690	88529063	2336	15849											
SLC9A3R2	9351	broad.mit.edu	37	chr16	2086386	2086386	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgcgaaagggacctcAgggctatgggttcaacctgc	9	7	12	13	1	2	0	2	0	0	0	2	2	2	1	4	3	3	2	4	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:2086386A>G	uc002coi.2	+	3	595	c.476A>G	c.(475-477)CAG>CGG	p.Q159R	SLC9A3R2_uc002coj.2_Missense_Mutation_p.Q159R|SLC9A3R2_uc002cok.2_Missense_Mutation_p.Q48R	NM_001130012	NP_001123484	Q15599	NHRF2_HUMAN	solute carrier family 9 isoform 3 regulator 2	159	PDZ 2.				protein complex assembly	apical plasma membrane|endomembrane system|nucleus	beta-catenin binding|phosphatase binding|protein C-terminus binding|receptor binding			central_nervous_system(1)	1						AAGGGACCTCAGGGCTATGGG	0.677													5	9					0	0	0.000602	0	0		G	2086386	G	G	2086386	3	3	19	1	0	0	0	0	1	0	0	0	14740	188	7	3	486	3	SLC9A3R2	16	2086386	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	260696	2086386	88268367	2337	15850											
PKD1	5310	broad.mit.edu	37	chr16	2150541	2150541	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggctgtccaccccatacaGcatgatgcccacgtgggccg	7	6	11	17	3	0	1	0	1	0	0	1	1	1	1	6	2	3	2	6	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:2150541G>A	uc002cos.1	-	27	9633	c.9424C>T	c.(9424-9426)CTG>TTG	p.L3142L	PKD1_uc002cot.1_Silent_p.L3142L|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	3142	PLAT.|Cytoplasmic (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						ACCCCATACAGCATGATGCCC	0.667													17	30					0	0	0.006122	0	0		A	2150541	A	A	2150541	2	1	19	1	0	0	0	0	0	0	0	1	11982	962	34	2		2	PKD1	16	2150541	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	64155	2150541	88204212	2338	15851											
PKD1	5310	broad.mit.edu	37	chr16	2161268	2161268	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggggatgcaggcggcgggTtcaacgcgcagcacctccag	7	5	17	12	4	1	0	1	0	0	0	2	1	2	1	2	5	3	4	2	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:2161268T>C	uc002cos.1	-	15	4109	c.3900A>G	c.(3898-3900)GAA>GAG	p.E1300E	PKD1_uc002cot.1_Silent_p.E1300E	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1300	PKD 8.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AGGCGGCGGGTTCAACGCGCA	0.701													11	15					0	0	0.00245	0	0		C	2161268	C	C	2161268	2	2	19	1	0	0	0	0	0	0	0	1	11982	1722	60	3		3	PKD1	16	2161268	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	10727	2161268	88193485	2339	15852											
TRAF7	84231	broad.mit.edu	37	chr16	2222242	2222242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggtggtgaacaacatcGcggtggccgagcagatcggg	8	6	17	10	5	0	2	0	1	0	1	2	3	0	2	2	5	3	1	2	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:2222242G>A	uc002cow.2	+	8	625	c.526G>A	c.(526-528)GCG>ACG	p.A176T		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	176					activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						GAACAACATCGCGGTGGCCGA	0.667													10	27					0	0	0.008291	0	0		A	2222242	A	A	2222242	3	1	19	1	0	0	0	0	1	0	0	0	16472	1087	38	1	552	1	TRAF7	16	2222242	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	60974	2222242	88132511	2340	15853											
DNASE1L2	1775	broad.mit.edu	37	chr16	2287970	2287970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggagcctgaagccccagtCggccaccgtgcacgacttcc	7	5	11	18	4	0	1	0	1	0	0	2	3	1	2	7	2	3	1	7	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:2287970C>T	uc002cpo.2	+	5	1188	c.794C>T	c.(793-795)TCG>TTG	p.S265L	DNASE1L2_uc002cpn.2_Missense_Mutation_p.S244L|DNASE1L2_uc002cpp.2_Missense_Mutation_p.S265L|DNASE1L2_uc002cpq.2_Missense_Mutation_p.S265L	NM_001374	NP_001365	Q92874	DNSL2_HUMAN	deoxyribonuclease I-like 2 precursor	265					DNA catabolic process	extracellular region	calcium ion binding|DNA binding|endodeoxyribonuclease activity, producing 5'-phosphomonoesters|protein binding				0						AAGCCCCAGTCGGCCACCGTG	0.706													3	4					0	0	0.001984	0	0		T	2287970	T	T	2287970	3	4	19	1	0	0	0	0	1	0	0	0	4668	893	31	1	812	1	DNASE1L2	16	2287970	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	65728	2287970	88066783	2341	15854											
DNASE1	1773	broad.mit.edu	37	chr16	3707217	3707217	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgggcgacttcaatgcGggctgcagctatgtgagacc	8	10	14	9	2	1	2	1	2	0	1	1	4	1	2	1	2	3	3	1	2	2	3	rs34984360		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:3707217G>A	uc002cvr.2	+	7	2686	c.579G>A	c.(577-579)GCG>GCA	p.A193A		NM_005223	NP_005214	P24855	DNAS1_HUMAN	deoxyribonuclease I precursor	193					apoptosis|DNA catabolic process	extracellular region|nuclear envelope	actin binding|deoxyribonuclease I activity				0		Ovarian(90;0.0261)		Kidney(780;0.0556)	Dornase Alfa(DB00003)	ACTTCAATGCGGGCTGCAGCT	0.642								Direct_reversal_of_damage					44	87					0	0	0.011902	0	0		A	3707217	A	A	3707217	2	1	19	1	0	0	0	0	0	0	0	1	4666	1103	39	1		1	DNASE1	16	3707217	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1419247	3707217	86647536	2342	15855											
CREBBP	1387	broad.mit.edu	37	chr16	3820608	3820608	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgtgcacaggcgtcggcTgttgctgcgatgactgaggg	5	8	19	9	4	0	2	0	2	0	0	1	3	0	2	0	4	3	4	0	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:3820608T>C	uc002cvv.2	-	14	3047	c.2843A>G	c.(2842-2844)CAG>CGG	p.Q948R	CREBBP_uc002cvw.2_Missense_Mutation_p.Q910R	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	948					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		AGGCGTCGGCTGTTGCTGCGA	0.592			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				65	179					0	0	0.01441	0	0		C	3820608	C	C	3820608	3	2	19	1	0	0	0	0	1	0	0	0	3864	1580	55	3	4557	3	CREBBP	16	3820608	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	113391	3820608	86534145	2343	15856											
TFAP4	7023	broad.mit.edu	37	chr16	4312644	4312644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgctgttggcgatctcccGccgaatccgccgctcctggt	3	11	12	15	5	1	0	0	0	1	0	4	2	3	0	5	2	1	4	5	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:4312644G>A	uc010uxg.1	-	2	402	c.148C>T	c.(148-150)CGG>TGG	p.R50W		NM_003223	NP_003214	Q01664	TFAP4_HUMAN	transcription factor AP-4 (activating enhancer	50	Basic motif.				DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation by host of viral transcription|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|regulation of S phase of mitotic cell cycle	transcriptional repressor complex	E-box binding|histone deacetylase binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GCGATCTCCCGCCGAATCCGC	0.632													39	58					0	0	0.01441	0	0		A	4312644	A	A	4312644	3	1	19	1	0	0	0	0	1	0	0	0	15817	1086	38	1	892	1	TFAP4	16	4312644	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	492036	4312644	86042109	2344	15857											
CORO7	79585	broad.mit.edu	37	chr16	4411442	4411442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagcgtgggcagtgccGtgtcgggcaggcggccaggc	4	6	19	12	4	1	0	0	0	1	0	2	0	1	0	2	5	3	3	2	5	0	0	rs145925246		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:4411442G>A	uc002cwh.3	-	17	1727	c.1607C>T	c.(1606-1608)ACG>ATG	p.T536M	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Missense_Mutation_p.T536M|CORO7_uc002cwg.3_Missense_Mutation_p.T316M|CORO7_uc010uxh.1_Missense_Mutation_p.T518M|CORO7_uc010uxi.1_Missense_Mutation_p.T451M|CORO7_uc002cwi.1_Missense_Mutation_p.T316M|CORO7_uc010uxj.1_RNA	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	536						cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						GGGCAGTGCCGTGTCGGGCAG	0.682													26	60					0	0	0.009535	0	0		A	4411442	A	A	4411442	3	1	19	1	0	0	0	0	1	0	0	0	3762	1145	40	1	1218	1	CORO7	16	4411442	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	98798	4411442	85943311	2345	15858											
VASN	114990	broad.mit.edu	37	chr16	4431318	4431318	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggtgccttcgacacgcTcgaccgcctcctggagctca	5	8	11	17	4	1	0	1	0	0	0	4	3	2	1	5	2	2	2	5	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:4431318T>C	uc002cwj.1	+	2	595	c.440T>C	c.(439-441)CTC>CCC	p.L147P	CORO7_uc002cwe.2_Intron|CORO7_uc002cwf.2_Intron|CORO7_uc002cwg.3_Intron|CORO7_uc002cwh.3_Intron|CORO7_uc010uxh.1_Intron|CORO7_uc010uxi.1_Intron|CORO7_uc002cwi.1_Intron|CORO7_uc010uxj.1_Intron|CORO7_uc010btp.1_Intron	NM_138440	NP_612449	Q6EMK4	VASN_HUMAN	slit-like 2 precursor	147	Extracellular (Potential).			Missing (in Ref. 2; AAQ88665).		extracellular region|integral to membrane					0						TTCGACACGCTCGACCGCCTC	0.672													3	15					0	0	0.001168	0	0		C	4431318	C	C	4431318	3	2	19	1	0	0	0	0	1	0	0	0	17153	1551	54	3	442	3	VASN	16	4431318	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	19876	4431318	85923435	2346	15859											
SEPT12	124404	broad.mit.edu	37	chr16	4827851	4827851	+	Frame_Shift_Del	DEL	G	-	-																															cctgcagaccttgaaggtccGgggggtggtcagctgtcctg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:4827851delG	uc002cxq.2	-	10	1165	c.1024delC	c.(1024-1026)CGGfs	p.R342fs	SEPT12_uc002cxr.2_Frame_Shift_Del_p.R296fs|SEPT12_uc010bty.2_RNA	NM_144605	NP_653206	Q8IYM1	SEP12_HUMAN	septin 12 isoform 2	342					cell cycle|cell division	cleavage furrow|midbody|perinuclear region of cytoplasm|septin complex|spindle|stress fiber	GDP binding|GTP binding|phosphatidylinositol binding|protein homodimerization activity			skin(1)	1						TTGAAGGTCCGGGGGGTGGTC	0.672													4	6	---	---	---	---						.	-	4827851	-	-	4827851	7	5	19	1	0	1	0	1	0	0	0	0	14087	1115	39	0	56	0	SEPT12	16	4827851	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	396533	4827851	85526902	2347	15860											
GLYR1	84656	broad.mit.edu	37	chr16	4882163	4882163	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcacctgagtttggcctActtctctcctcactggaatt	7	15	6	13	0	4	1	3	1	1	0	6	2	5	2	3	2	1	1	3	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:4882163A>G	uc002cxx.3	-	5	391	c.354T>C	c.(352-354)AGT>AGC	p.S118S	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Silent_p.S49S|GLYR1_uc002cya.2_Silent_p.S118S|GLYR1_uc010uxv.1_Intron	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	118					pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						AGTTTGGCCTACTTCTCTCCT	0.433													7	194					0	0	0.00308	0	0		G	4882163	G	G	4882163	2	3	19	1	0	0	0	0	0	0	0	1	6498	388	14	3		3	GLYR1	16	4882163	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	54312	4882163	85472590	2348	15861											
GLYR1	84656	broad.mit.edu	37	chr16	4895126	4895126	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcatttctttccgcgaggtTtcttcaagtcctttggtgga	6	16	10	9	2	3	0	1	0	2	0	5	2	5	1	2	3	1	2	2	3	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:4895126T>C	uc002cxx.3	-	3	141	c.104A>G	c.(103-105)AAA>AGA	p.K35R	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_5'UTR|GLYR1_uc002cya.2_Missense_Mutation_p.K35R|GLYR1_uc010uxv.1_Missense_Mutation_p.K35R|UBN1_uc010uxw.1_5'Flank|UBN1_uc002cyb.2_5'Flank	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	35	PWWP.				pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						TCCGCGAGGTTTCTTCAAGTC	0.453													16	195					0	0	0.00499	0	0		C	4895126	C	C	4895126	3	2	19	1	0	0	0	0	1	0	0	0	6498	1841	64	3	1613	3	GLYR1	16	4895126	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	12963	4895126	85459627	2349	15862											
PPL	5493	broad.mit.edu	37	chr16	4933690	4933690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggatgactacgatggagcGccgcaggtggttctcccgct	6	9	15	11	4	1	1	0	1	1	0	2	4	1	3	2	4	2	3	2	4	1	2	rs140094738	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:4933690G>A	uc002cyd.1	-	22	5056	c.4966C>T	c.(4966-4968)CGC>TGC	p.R1656C		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1656	Plectin 1.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						ACGATGGAGCGCCGCAGGTGG	0.632													21	53					0	0	0.010504	0	0		A	4933690	A	A	4933690	3	1	19	1	0	0	0	0	1	0	0	0	12356	1087	38	1	308	1	PPL	16	4933690	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	38564	4933690	85421063	2350	15863											
PPL	5493	broad.mit.edu	37	chr16	4940785	4940785	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcccagcttgtgcacctcGgcctcctggcgctccaggtc	3	9	12	17	2	0	0	0	0	0	0	4	0	2	0	5	4	2	3	5	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:4940785G>A	uc002cyd.1	-	17	2196	c.2106C>T	c.(2104-2106)GCC>GCT	p.A702A		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	702	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						TGTGCACCTCGGCCTCCTGGC	0.587													7	10					0	0	0.004482	0	0		A	4940785	A	A	4940785	2	1	19	1	0	0	0	0	0	0	0	1	12356	1103	39	1		1	PPL	16	4940785	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	7095	4940785	85413968	2351	15864											
CIITA	4261	broad.mit.edu	37	chr16	10989150	10989150	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcccaggcagctcacagTgtgccaccatggagttgggg	7	7	13	14	0	1	0	1	0	0	0	2	1	2	1	4	4	2	3	4	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:10989150T>C	uc002dai.3	+	2	197	c.64T>C	c.(64-66)TGT>CGT	p.C22R	CIITA_uc002daj.3_Missense_Mutation_p.C22R|CIITA_uc002dak.3_Missense_Mutation_p.C22R|CIITA_uc002dag.2_Missense_Mutation_p.C22R|CIITA_uc002dah.2_Missense_Mutation_p.C22R|CIITA_uc010bup.1_Missense_Mutation_p.C22R	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	22					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						CAGCTCACAGTGTGCCACCAT	0.552			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								25	46					0	0	0.003954	0	0		C	10989150	C	C	10989150	3	2	19	1	0	0	0	0	1	0	0	0	3431	1696	59	3	70	3	CIITA	16	10989150	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	6048365	10989150	79365603	2352	15865											
CLEC16A	23274	broad.mit.edu	37	chr16	11214490	11214490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agataacagcgacttgattgCatgtacagtgatcaccaagg	14	9	10	8	1	1	3	1	2	0	1	1	4	1	3	1	1	4	2	1	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:11214490C>T	uc002dao.2	+	20	2365	c.2135C>T	c.(2134-2136)GCA>GTA	p.A712V	CLEC16A_uc002dan.3_Missense_Mutation_p.A694V	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	712										ovary(1)|central_nervous_system(1)	2						GACTTGATTGCATGTACAGTG	0.527													13	26					0	0	0.00245	0	0		T	11214490	T	T	11214490	3	4	19	1	0	0	0	0	1	0	0	0	3503	710	25	2	2209	2	CLEC16A	16	11214490	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	225340	11214490	79140263	2353	15866											
ERCC4	2072	broad.mit.edu	37	chr16	14026125	14026125	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatatctgaaaaaatggAaattaaagaaggggaaggta	23	7	10	1	0	1	2	0	1	1	1	1	4	1	4	0	4	0	1	0	4	12	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:14026125A>G	uc002dce.2	+	6	1094	c.1085A>G	c.(1084-1086)GAA>GGA	p.E362G	ERCC4_uc010bva.2_Missense_Mutation_p.E362G|ERCC4_uc010uyz.1_5'UTR	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	362					double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						GAAAAAATGGAAATTAAAGAA	0.328			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				8	132					0	0	0.004482	0	0		G	14026125	G	G	14026125	3	3	19	1	0	0	0	0	1	0	0	0	5223	246	9	3	1107	3	ERCC4	16	14026125	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2811635	14026125	76328628	2354	15867											
NDE1	54820	broad.mit.edu	37	chr16	15785075	15785075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcccagctcagtggaagctGagaggacagacacagctgtg	11	6	14	10	0	1	2	1	1	0	2	1	5	1	4	1	2	4	3	1	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:15785075G>A	uc002ddt.1	+	5	641	c.598G>A	c.(598-600)GAG>AAG	p.E200K	NDE1_uc010uzy.1_Missense_Mutation_p.E200K|NDE1_uc002dds.2_Missense_Mutation_p.E200K|NDE1_uc002ddu.1_Missense_Mutation_p.E137K	NM_017668	NP_060138	Q9NXR1	NDE1_HUMAN	nuclear distribution gene E homolog 1	200	Interaction with CENPF (By similarity).				cell differentiation|cell division|centrosome duplication|establishment of chromosome localization|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|mitotic prometaphase|nervous system development	cleavage furrow|condensed chromosome kinetochore|cytosol|microtubule|spindle pole centrosome	microtubule binding			ovary(1)	1						AGTGGAAGCTGAGAGGACAGA	0.587													22	41					0	0	0.003954	0	0		A	15785075	A	A	15785075	3	1	19	1	0	0	0	0	1	0	0	0	10262	1291	45	4	616	4	NDE1	16	15785075	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1758950	15785075	74569678	2355	15868											
SMG1	23049	broad.mit.edu	37	chr16	18856807	18856807	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggttcaatggagtcttcaGtttttctagggcattttcaa	9	16	10	6	0	5	0	3	0	2	0	5	1	5	1	0	3	0	3	0	3	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:18856807G>A	uc002dfm.2	-	39	6526	c.6163C>T	c.(6163-6165)CTG>TTG	p.L2055L	SMG1_uc010bwb.2_Silent_p.L1915L|SMG1_uc010bwa.2_Silent_p.L786L|SMG1_uc002dfo.3_Silent_p.L353L	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2055					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						GGAGTCTTCAGTTTTTCTAGG	0.453													29	54					0	0	0.007291	0	0		A	18856807	A	A	18856807	2	1	19	1	0	0	0	0	0	0	0	1	14820	1020	36	4		4	SMG1	16	18856807	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3071732	18856807	71497946	2356	15869											
ACSM2A	123876	broad.mit.edu	37	chr16	20491953	20491953	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttttggctccttggagaccGgggaatcaaagatgaagatg	11	10	13	7	1	1	4	1	1	0	3	2	6	2	5	2	4	0	1	2	4	3	3	rs145697504		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:20491953G>C	uc010bwe.2	+	12	1579	c.1340G>C	c.(1339-1341)CGG>CCG	p.R447P	ACSM2A_uc010vax.1_Missense_Mutation_p.R368P|ACSM2A_uc002dhf.3_Missense_Mutation_p.R447P|ACSM2A_uc002dhg.3_Missense_Mutation_p.R447P|ACSM2A_uc010vay.1_Missense_Mutation_p.R368P|ACSM2A_uc002dhh.3_Missense_Mutation_p.R77P	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	447					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CTTGGAGACCGGGGAATCAAA	0.498													26	144					0	0	0.01441	0	0		C	20491953	C	C	20491953	3	2	19	1	0	0	0	0	1	0	0	0	183	1116	39	5	1378	5	ACSM2A	16	20491953	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1635146	20491953	69862800	2357	15870											
ACSM2B	348158	broad.mit.edu	37	chr16	20554526	20554526	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttcatctttgattcccCggtctccaaggagccaaaag	10	11	7	13	1	4	1	1	1	3	0	6	2	5	2	4	2	1	0	4	2	3	3	rs146841908	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:20554526C>G	uc002dhj.3	-	12	1550	c.1340G>C	c.(1339-1341)CGG>CCG	p.R447P	ACSM2B_uc002dhk.3_Missense_Mutation_p.R447P|ACSM2B_uc010bwf.1_Missense_Mutation_p.R447P	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	447					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						TTTGATTCCCCGGTCTCCAAG	0.498													43	267					0	0	0.01441	0	0		G	20554526	G	G	20554526	3	3	19	1	0	0	0	0	1	0	0	0	184	652	23	5	409	5	ACSM2B	16	20554526	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	62573	20554526	69800227	2358	15871											
DNAH3	55567	broad.mit.edu	37	chr16	21123335	21123335	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacaaaatcatcaatgtcAtgattttctttcaggaacgc	13	13	6	9	1	6	1	5	1	1	0	6	2	6	2	0	1	1	0	0	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:21123335A>G	uc010vbe.1	-	13	1899	c.1899T>C	c.(1897-1899)CAT>CAC	p.H633H	DNAH3_uc002die.2_Silent_p.H573H	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	633	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CATCAATGTCATGATTTTCTT	0.388													14	27					0	0	0.00499	0	0		G	21123335	G	G	21123335	2	3	19	1	0	0	0	0	0	0	0	1	4609	214	8	3		3	DNAH3	16	21123335	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	568809	21123335	69231418	2359	15872											
TMEM159	57146	broad.mit.edu	37	chr16	21181777	21181777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtggtggcctttatgaagtCtccagtgggtcagtacttgg	6	13	15	7	0	2	1	1	1	1	0	3	1	2	1	2	5	1	1	2	5	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:21181777C>T	uc002dif.3	+	3	477	c.116C>T	c.(115-117)TCT>TTT	p.S39F	TMEM159_uc002dig.3_RNA|TMEM159_uc010vbf.1_Missense_Mutation_p.S63F|TMEM159_uc002dih.3_Missense_Mutation_p.S39F	NM_020422	NP_065155	Q96B96	TM159_HUMAN	transmembrane protein 159	39						integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(48;0.0972)		TTTATGAAGTCTCCAGTGGGT	0.512													19	273					0	0	0.008871	0	0		T	21181777	T	T	21181777	3	4	19	1	0	0	0	0	1	0	0	0	16099	913	32	4	122	4	TMEM159	16	21181777	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	58442	21181777	69172976	2360	15873											
ZP2	7783	broad.mit.edu	37	chr16	21213112	21213112	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcaacgttgatgtttagTagcatgtcattcctgctata	9	17	7	8	1	2	1	2	1	0	0	3	1	3	1	1	0	3	5	1	0	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:21213112T>C	uc002dii.2	-	13	1419	c.1419A>G	c.(1417-1419)CTA>CTG	p.L473L	ZP2_uc010bwn.1_Silent_p.L503L	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	473	Extracellular (Potential).|ZP.				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		TGATGTTTAGTAGCATGTCAT	0.418													60	134					0	0	0.01441	0	0		C	21213112	C	C	21213112	2	2	19	1	0	0	0	0	0	0	0	1	18241	1625	57	3		3	ZP2	16	21213112	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	31335	21213112	69141641	2361	15874											
METTL9	51108	broad.mit.edu	37	chr16	21611071	21611071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccgatgagactgctggcggGctggctgtgcctgagcctgg	4	8	17	12	2	0	2	0	2	0	1	0	4	0	2	3	4	3	3	3	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:21611071G>A	uc002dje.2	+	1	216	c.17G>A	c.(16-18)GGC>GAC	p.G6D	uc002diq.3_Intron|METTL9_uc002djf.2_Missense_Mutation_p.G6D	NM_016025	NP_057109	Q9H1A3	METL9_HUMAN	methyltransferase like 9 isoform 1	6										ovary(1)	1				GBM - Glioblastoma multiforme(48;0.0759)		CTGCTGGCGGGCTGGCTGTGC	0.726													3	3					0	0	0.001984	0	0		A	21611071	A	A	21611071	3	1	19	1	0	0	0	0	1	0	0	0	9526	1203	42	2	19	2	METTL9	16	21611071	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	397959	21611071	68743682	2362	15875											
EEF2K	29904	broad.mit.edu	37	chr16	22271788	22271788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttctccctgcccagattggCcagtgttcagtgacctcgat	6	13	9	13	1	2	2	1	1	1	1	4	3	2	2	4	1	1	1	4	1	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:22271788C>T	uc002dki.2	+	11	1722	c.1237C>T	c.(1237-1239)CCA>TCA	p.P413S	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	413					insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		CCCAGATTGGCCAGTGTTCAG	0.552													67	157					0	0	0.01441	0	0		T	22271788	T	T	22271788	3	4	19	1	0	0	0	0	1	0	0	0	4936	739	26	2	1275	2	EEF2K	16	22271788	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	660717	22271788	68082965	2363	15876											
RBBP6	5930	broad.mit.edu	37	chr16	24580095	24580095	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccctatagtggttcttcgtAttcaagaagttcatatactt	10	17	6	8	1	3	1	2	0	1	1	5	1	4	1	1	1	1	3	1	1	7	10			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:24580095A>G	uc002dmh.2	+	17	3124	c.2084A>G	c.(2083-2085)TAT>TGT	p.Y695C	RBBP6_uc010vcb.1_Missense_Mutation_p.Y562C|RBBP6_uc002dmi.2_Missense_Mutation_p.Y661C|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Missense_Mutation_p.Y528C	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	695					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		GGTTCTTCGTATTCAAGAAGT	0.343													20	54					0	0	0.010504	0	0		G	24580095	G	G	24580095	3	3	19	1	0	0	0	0	1	0	0	0	13128	449	16	3	2204	3	RBBP6	16	24580095	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2308307	24580095	65774658	2364	15877											
ZKSCAN2	342357	broad.mit.edu	37	chr16	25264314	25264314	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcacttcctgatctagggTattccattcatcagcaaggg	9	13	9	10	0	4	1	3	1	1	0	6	1	6	1	2	2	1	2	2	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:25264314T>C	uc002dod.3	-	3	1038	c.631A>G	c.(631-633)ACC>GCC	p.T211A	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.Y3C|ZKSCAN2_uc002doe.2_Missense_Mutation_p.T211A	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	211					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		TGATCTAGGGTATTCCATTCA	0.388													6	267					0	0	0.001984	0	0		C	25264314	C	C	25264314	3	2	19	1	0	0	0	0	1	0	0	0	17712	1638	57	3	2292	3	ZKSCAN2	16	25264314	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	684219	25264314	65090439	2365	15878											
JMJD5	79831	broad.mit.edu	37	chr16	27226316	27226316	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacgagttcatcagcaaatAcatcgtgaatgaggtacatc	15	9	8	9	2	2	2	2	2	0	0	4	3	2	2	0	1	4	3	0	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:27226316A>G	uc002doh.2	+	4	967	c.785A>G	c.(784-786)TAC>TGC	p.Y262C	JMJD5_uc010vcn.1_Missense_Mutation_p.Y300C|JMJD5_uc010bxw.2_Intron|JMJD5_uc010bxx.2_RNA	NM_024773	NP_079049	Q8N371	KDM8_HUMAN	jumonji domain containing 5 isoform 2	262					G2/M transition of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|histone demethylase activity (H3-K36 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(2)|upper_aerodigestive_tract(1)	3						ATCAGCAAATACATCGTGAAT	0.493													5	79					0	0	0.000602	0	0		G	27226316	G	G	27226316	3	3	19	1	0	0	0	0	1	0	0	0	7968	391	14	3	913	3	JMJD5	16	27226316	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1962002	27226316	63128437	2366	15879											
GTF3C1	2975	broad.mit.edu	37	chr16	27473658	27473658	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgggctgcaggaccccctggTagtggcgcagcagggagctc	6	5	17	13	2	0	0	0	0	0	0	1	2	0	2	2	5	3	6	2	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:27473658T>C	uc002dov.1	-	36	6114	c.6074A>G	c.(6073-6075)TAC>TGC	p.Y2025C	GTF3C1_uc002dou.2_Missense_Mutation_p.Y2000C	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	2025						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						GACCCCCTGGTAGTGGCGCAG	0.647													3	5					0	0	0.004672	0	0		C	27473658	C	C	27473658	3	2	19	1	0	0	0	0	1	0	0	0	6888	1638	57	3	263	3	GTF3C1	16	27473658	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	247342	27473658	62881095	2367	15880											
GTF3C1	2975	broad.mit.edu	37	chr16	27475947	27475947	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttggtgccccgggggcTgtgagaaggaggtgcctgcc	4	8	17	12	1	1	1	0	1	1	1	1	3	1	2	5	5	3	1	5	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:27475947T>C	uc002dov.1	-	34	5606	c.5566A>G	c.(5566-5568)AGC>GGC	p.S1856G	GTF3C1_uc002dou.2_Missense_Mutation_p.S1856G	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1856						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CCCCGGGGGCTGTGAGAAGGA	0.687													14	103					0	0	0.00245	0	0		C	27475947	C	C	27475947	3	2	19	1	0	0	0	0	1	0	0	0	6888	1580	55	3	779	3	GTF3C1	16	27475947	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2289	27475947	62878806	2368	15881											
GTF3C1	2975	broad.mit.edu	37	chr16	27499707	27499707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctcggagcctactcttgCttccccccaaatattcaacc	9	10	6	16	1	2	0	1	0	1	0	4	2	3	1	5	1	5	2	5	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:27499707C>T	uc002dov.1	-	23	3581	c.3541G>A	c.(3541-3543)GCA>ACA	p.A1181T	GTF3C1_uc002dou.2_Missense_Mutation_p.A1181T	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1181						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CCTACTCTTGCTTCCCCCCAA	0.547													79	173					0	0	0.01441	0	0		T	27499707	T	T	27499707	3	4	19	1	0	0	0	0	1	0	0	0	6888	797	28	2	2848	2	GTF3C1	16	27499707	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	23760	27499707	62855046	2369	15882											
KIAA0556	23247	broad.mit.edu	37	chr16	27629755	27629755	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcatttcagggttacgctAaggacatggtgacagacttt	10	13	10	8	1	2	2	2	1	0	1	2	3	2	3	0	3	1	2	0	3	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:27629755A>G	uc002dow.2	+	3	97	c.73A>G	c.(73-75)AAG>GAG	p.K25E		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	25										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						GGGTTACGCTAAGGACATGGT	0.498													9	100					0	0	0.006214	0	0		G	27629755	G	G	27629755	3	3	19	1	0	0	0	0	1	0	0	0	8199	363	13	3	83	3	KIAA0556	16	27629755	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	130048	27629755	62724998	2370	15883											
SULT1A1	6817	broad.mit.edu	37	chr16	28619888	28619888	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccaggtcaccaccctggTagatcatgtccagaatctgg	9	10	9	13	0	4	2	2	0	2	2	6	2	5	2	4	3	0	1	4	3	2	1	rs72547526		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:28619888T>C	uc002dqi.2	-	2	658	c.185A>G	c.(184-186)TAC>TGC	p.Y62C	uc010vct.1_Intron|SULT1A1_uc002dqj.2_Missense_Mutation_p.Y62C|SULT1A1_uc002dqk.2_Missense_Mutation_p.Y62C|SULT1A1_uc002dql.2_Missense_Mutation_p.Y62C|SULT1A1_uc002dqm.2_Intron|SULT1A1_uc002dqn.2_Missense_Mutation_p.Y153C|SULT1A1_uc002dqo.2_Missense_Mutation_p.Y62C|SULT1A1_uc002dqp.2_Missense_Mutation_p.Y62C	NM_177534	NP_803878	P50225	ST1A1_HUMAN	sulfotransferase family, cytosolic, 1A,	62					3'-phosphoadenosine 5'-phosphosulfate metabolic process|catecholamine metabolic process|flavonoid metabolic process|steroid metabolic process|sulfation|xenobiotic metabolic process	cytosol	aryl sulfotransferase activity|flavonol 3-sulfotransferase activity				0						ACCACCCTGGTAGATCATGTC	0.602													5	46					0	0	0.013537	0	0		C	28619888	C	C	28619888	3	2	19	1	0	0	0	0	1	0	0	0	15397	1638	57	3	726	3	SULT1A1	16	28619888	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	990133	28619888	61734865	2371	15884											
SPNS1	83985	broad.mit.edu	37	chr16	28995116	28995116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccctgcagatctctgacCgcctgcgccggaactggccc	5	8	10	18	3	2	2	0	1	2	1	4	3	2	3	5	2	3	1	5	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:28995116C>T	uc010vdi.1	+	12	1470	c.1330C>T	c.(1330-1332)CGC>TGC	p.R444C	uc010vct.1_Intron|SPNS1_uc002drx.2_Missense_Mutation_p.R371C|SPNS1_uc002dsa.2_Missense_Mutation_p.R444C|SPNS1_uc002drz.2_Missense_Mutation_p.R392C|SPNS1_uc010byp.2_Missense_Mutation_p.R370C|SPNS1_uc010byq.1_Intron|LAT_uc010vdj.1_5'Flank|LAT_uc002dsb.2_5'Flank|LAT_uc002dsd.2_5'Flank|LAT_uc002dsc.2_5'Flank|LAT_uc010vdk.1_5'Flank|LAT_uc010vdl.1_5'Flank	NM_001142448	NP_001135920	Q9H2V7	SPNS1_HUMAN	spinster homolog 1 isoform 1	444					lipid transport|transmembrane transport	integral to membrane|mitochondrial inner membrane	protein binding				0						GATCTCTGACCGCCTGCGCCG	0.642													31	110					0	0	0.004878	0	0		T	28995116	T	T	28995116	3	4	19	1	0	0	0	0	1	0	0	0	15099	652	23	1	1372	1	SPNS1	16	28995116	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	375228	28995116	61359637	2372	15885											
MAZ	4150	broad.mit.edu	37	chr16	29819116	29819116	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggcgctgtgcacaagccctAcaactgctcccactgtggca	8	7	10	16	2	0	0	0	0	0	0	1	0	1	0	2	2	5	4	2	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:29819116A>G	uc002dty.2	+	2	1178	c.1010A>G	c.(1009-1011)TAC>TGC	p.Y337C	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAZ_uc002dtv.1_Intron|MAZ_uc010vdx.1_Missense_Mutation_p.Y314C|MAZ_uc002dtw.2_Intron|MAZ_uc002dtx.2_Missense_Mutation_p.Y337C|MAZ_uc010bzg.2_Intron|MAZ_uc002dtz.1_Missense_Mutation_p.Y55C|MAZ_uc002dua.2_5'Flank|MAZ_uc010vdy.1_5'Flank	NM_002383	NP_002374	P56270	MAZ_HUMAN	MYC-associated zinc finger protein isoform 1	337	C2H2-type 4.				regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription|transcription initiation from RNA polymerase II promoter	nucleus	DNA binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1						CACAAGCCCTACAACTGCTCC	0.682													6	76					0	0	0.001168	0	0		G	29819116	G	G	29819116	3	3	19	1	0	0	0	0	1	0	0	0	9358	391	14	3	1016	3	MAZ	16	29819116	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	824000	29819116	60535637	2373	15886											
SEZ6L2	26470	broad.mit.edu	37	chr16	29910333	29910333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggtgctgggccctgggaGtccccatggcgactcacccc	4	6	15	16	2	1	0	1	0	0	0	2	2	2	1	5	4	1	1	5	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:29910333G>A	uc002duq.3	-	1	248	c.8C>T	c.(7-9)ACT>ATT	p.T3I	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.T3I|SEZ6L2_uc002dur.3_Missense_Mutation_p.T3I|SEZ6L2_uc002dus.3_Missense_Mutation_p.T3I|SEZ6L2_uc010vec.1_Missense_Mutation_p.T3I|SEZ6L2_uc010ved.1_Missense_Mutation_p.T3I|ASPHD1_uc002dut.2_5'Flank|ASPHD1_uc002duu.3_5'Flank|ASPHD1_uc010bzi.2_5'Flank	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	3						endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						GGCCCTGGGAGTCCCCATGGC	0.582													10	13					0	0	0.010729	0	0		A	29910333	A	A	29910333	3	1	19	1	0	0	0	0	1	0	0	0	14169	1029	36	4	2835	4	SEZ6L2	16	29910333	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	91217	29910333	60444420	2374	15887											
TAOK2	9344	broad.mit.edu	37	chr16	29999030	29999030	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaacacccattagctcTgttggcaagggtctgggtcc	8	9	10	14	0	2	0	0	0	2	0	3	0	3	0	3	3	2	3	3	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:29999030T>C	uc002dva.1	+	16	4220	c.3437T>C	c.(3436-3438)CTG>CCG	p.L1146P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Missense_Mutation_p.L1153P|TAOK2_uc002dvd.1_Missense_Mutation_p.L973P	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	1146					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CCATTAGCTCTGTTGGCAAGG	0.652													14	100					0	0	0.004007	0	0		C	29999030	C	C	29999030	3	2	19	1	0	0	0	0	1	0	0	0	15573	1580	55	3	3495	3	TAOK2	16	29999030	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	88697	29999030	60355723	2375	15888											
HIRIP3	8479	broad.mit.edu	37	chr16	30004857	30004857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctccttcagggcccgaCacttccctagggaaggggta	7	9	12	13	1	2	0	1	0	1	0	4	2	4	1	3	4	1	2	3	4	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:30004857C>T	uc002dve.2	-	6	1891	c.1430G>A	c.(1429-1431)TGT>TAT	p.C477Y	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|INO80E_uc002dvg.1_5'Flank|INO80E_uc002dvh.1_5'Flank|INO80E_uc002dvi.1_5'Flank|INO80E_uc002dvj.1_5'Flank|INO80E_uc002dvk.1_5'Flank|HIRIP3_uc002dvf.2_Silent_p.V164V	NM_003609	NP_003600	Q9BW71	HIRP3_HUMAN	HIRA interacting protein 3	477					chromatin assembly or disassembly	nucleus	protein binding			central_nervous_system(1)	1						CAGGGCCCGACACTTCCCTAG	0.637													6	66					0	0	0.001168	0	0		T	30004857	T	T	30004857	3	4	19	1	0	0	0	0	1	0	0	0	7137	478	17	4	248	4	HIRIP3	16	30004857	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5827	30004857	60349896	2376	15889											
INO80E	283899	broad.mit.edu	37	chr16	30012832	30012832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcgggagaaacggccccGcctgccccggaaactcaagg	11	2	13	15	4	1	1	1	0	0	1	1	3	1	2	5	4	4	0	5	4	4	0	rs147726848		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:30012832G>A	uc002dvg.1	+	6	595	c.494G>A	c.(493-495)CGC>CAC	p.R165H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|INO80E_uc002dvh.1_RNA|INO80E_uc002dvi.1_Missense_Mutation_p.R165H|INO80E_uc002dvj.1_RNA|INO80E_uc002dvk.1_Intron	NM_173618	NP_775889	Q8NBZ0	IN80E_HUMAN	INO80 complex subunit E	165	Pro-rich.				DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex				skin(1)	1						AAACGGCCCCGCCTGCCCCGG	0.597													8	16					0	0	0.008291	0	0		A	30012832	A	A	30012832	3	1	19	1	0	0	0	0	1	0	0	0	7766	1087	38	1	516	1	INO80E	16	30012832	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	7975	30012832	60341921	2377	15890											
DOC2A	8448	broad.mit.edu	37	chr16	30018259	30018259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcccctgcccctgctccGcctgctccaactgcggggca	4	6	11	20	2	0	0	0	0	0	0	2	0	2	0	7	2	6	4	7	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:30018259G>A	uc002dvm.2	-	8	825	c.725C>T	c.(724-726)GCG>GTG	p.A242V	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|DOC2A_uc002dvl.2_Missense_Mutation_p.A240V|DOC2A_uc002dvn.2_Missense_Mutation_p.A242V|DOC2A_uc010vef.1_RNA|DOC2A_uc002dvo.2_Missense_Mutation_p.A242V|DOC2A_uc002dvp.2_Missense_Mutation_p.A242V|DOC2A_uc002dvq.2_Missense_Mutation_p.A242V	NM_003586	NP_003577	Q14183	DOC2A_HUMAN	double C2-like domains, alpha	242	Interaction with UNC13D.				nervous system development|regulation of calcium ion-dependent exocytosis	cell junction|lysosome|synaptic vesicle membrane|synaptosome	calcium-dependent phospholipid binding|protein binding|transporter activity			ovary(2)	2						CCCCTGCTCCGCCTGCTCCAA	0.682													9	15					0	0	0.010729	0	0		A	30018259	A	A	30018259	3	1	19	1	0	0	0	0	1	0	0	0	4689	1087	38	1	493	1	DOC2A	16	30018259	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	5427	30018259	60336494	2378	15891											
PPP4C	5531	broad.mit.edu	37	chr16	30096053	30096053	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagtgacgtggtggcccAgttcaacgcagccaatgaca	10	7	13	11	2	1	2	1	2	0	0	1	2	1	2	2	3	2	3	2	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:30096053A>G	uc002dwe.2	+	8	815	c.671A>G	c.(670-672)CAG>CGG	p.Q224R	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|PPP4C_uc002dwf.2_Missense_Mutation_p.Q224R|PPP4C_uc002dwg.2_RNA|PPP4C_uc002dwh.2_Missense_Mutation_p.Q145R	NM_002720	NP_002711	P60510	PP4C_HUMAN	protein phosphatase 4, catalytic subunit	224					microtubule cytoskeleton organization|regulation of double-strand break repair via homologous recombination	centrosome|nucleus	metal ion binding|NF-kappaB-inducing kinase activity|protein binding|protein serine/threonine phosphatase activity			skin(1)	1						GTGGTGGCCCAGTTCAACGCA	0.582													53	124					0	0	0.01441	0	0		G	30096053	G	G	30096053	3	3	19	1	0	0	0	0	1	0	0	0	12424	188	7	3	697	3	PPP4C	16	30096053	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	77794	30096053	60258700	2379	15892											
PPP4C	5531	broad.mit.edu	37	chr16	30096119	30096119	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggtgatggaaggttacaAgtggcacttcaatgagacgg	12	9	14	6	1	1	2	1	2	0	1	1	4	1	3	0	5	1	2	0	5	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:30096119A>G	uc002dwe.2	+	8	881	c.737A>G	c.(736-738)AAG>AGG	p.K246R	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|PPP4C_uc002dwf.2_Missense_Mutation_p.K246R|PPP4C_uc002dwg.2_RNA|PPP4C_uc002dwh.2_Missense_Mutation_p.K167R	NM_002720	NP_002711	P60510	PP4C_HUMAN	protein phosphatase 4, catalytic subunit	246					microtubule cytoskeleton organization|regulation of double-strand break repair via homologous recombination	centrosome|nucleus	metal ion binding|NF-kappaB-inducing kinase activity|protein binding|protein serine/threonine phosphatase activity			skin(1)	1						GAAGGTTACAAGTGGCACTTC	0.602													5	200					0	0	0.001984	0	0		G	30096119	G	G	30096119	3	3	19	1	0	0	0	0	1	0	0	0	12424	72	3	3	763	3	PPP4C	16	30096119	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	66	30096119	60258634	2380	15893											
ZNF646	9726	broad.mit.edu	37	chr16	31091576	31091576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggcggacctatcgccacGccggcagcctcctgaaccac	7	4	12	18	5	0	1	0	1	0	0	2	2	1	2	6	3	2	1	6	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:31091576G>A	uc002eap.2	+	2	4220	c.3931G>A	c.(3931-3933)GCC>ACC	p.A1311T		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	1311	C2H2-type 23.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						CTATCGCCACGCCGGCAGCCT	0.697													16	23					0	0	0.007413	0	0		A	31091576	A	A	31091576	3	1	19	1	0	0	0	0	1	0	0	0	18087	1087	38	1	3933	1	ZNF646	16	31091576	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	995457	31091576	59263177	2381	15894											
BCKDK	10295	broad.mit.edu	37	chr16	31121734	31121734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttacaggatgaaaagctcGtccgctacttcttggacaag	11	11	9	10	2	1	1	0	1	1	0	3	3	2	3	1	2	3	2	1	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:31121734G>A	uc002eaw.3	+	7	872	c.556G>A	c.(556-558)GTC>ATC	p.V186I	BCKDK_uc002eav.3_Missense_Mutation_p.V186I|BCKDK_uc010cah.2_RNA|BCKDK_uc010cai.2_Missense_Mutation_p.V186I	NM_005881	NP_005872	O14874	BCKD_HUMAN	branched chain ketoacid dehydrogenase kinase	186	Histidine kinase.				branched chain family amino acid catabolic process|peptidyl-histidine phosphorylation	mitochondrial alpha-ketoglutarate dehydrogenase complex	[3-methyl-2-oxobutanoate dehydrogenase (acetyl-transferring)] kinase activity|ATP binding|protein binding|protein serine/threonine kinase activity|two-component sensor activity			stomach(1)|breast(1)	2						TGAAAAGCTCGTCCGCTACTT	0.587													4	88					0	0	0.001168	0	0		A	31121734	A	A	31121734	3	1	19	1	0	0	0	0	1	0	0	0	1362	1145	40	1	578	1	BCKDK	16	31121734	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	30158	31121734	59233019	2382	15895											
BCKDK	10295	broad.mit.edu	37	chr16	31122443	31122443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcacaagtatggcaatgcgCcccgtgtccgcatcaatggc	10	7	11	13	3	1	0	1	0	0	0	2	0	2	0	3	2	2	4	3	2	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:31122443C>T	uc002eaw.3	+	9	1064	c.748C>T	c.(748-750)CCC>TCC	p.P250S	BCKDK_uc002eav.3_Missense_Mutation_p.P250S|BCKDK_uc010cah.2_RNA|BCKDK_uc010cai.2_Missense_Mutation_p.P250S	NM_005881	NP_005872	O14874	BCKD_HUMAN	branched chain ketoacid dehydrogenase kinase	250	Histidine kinase.				branched chain family amino acid catabolic process|peptidyl-histidine phosphorylation	mitochondrial alpha-ketoglutarate dehydrogenase complex	[3-methyl-2-oxobutanoate dehydrogenase (acetyl-transferring)] kinase activity|ATP binding|protein binding|protein serine/threonine kinase activity|two-component sensor activity			stomach(1)|breast(1)	2						TGGCAATGCGCCCCGTGTCCG	0.522													21	52					0	0	0.004656	0	0		T	31122443	T	T	31122443	3	4	19	1	0	0	0	0	1	0	0	0	1362	739	26	2	778	2	BCKDK	16	31122443	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	709	31122443	59232310	2383	15896											
PYCARD	29108	broad.mit.edu	37	chr16	31213142	31213142	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcgataagcgcagcccggtGctggtctataaagtgcaggc	9	7	14	11	4	1	0	0	0	1	0	1	1	1	0	1	3	4	3	1	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:31213142G>T	uc010cak.2	-	3	592	c.352C>A	c.(352-354)CAC>AAC	p.H118N	PYCARD_uc002ebm.2_Missense_Mutation_p.H99N	NM_013258	NP_037390	Q9ULZ3	ASC_HUMAN	PYD and CARD domain containing isoform a	118	CARD.				induction of apoptosis|positive regulation of interleukin-1 beta secretion|positive regulation of NF-kappaB transcription factor activity|proteolysis|tumor necrosis factor-mediated signaling pathway	IkappaB kinase complex	caspase activator activity|cysteine-type endopeptidase activity|protein homodimerization activity|Pyrin domain binding				0						GCAGCCCGGTGCTGGTCTATA	0.602													21	52					2.21704e-12	2.32901e-12	0.00278	1	0		T	31213142	T	T	31213142	3	4	19	1	0	0	0	0	1	0	0	0	12879	1319	46	5	239	5	PYCARD	16	31213142	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	90699	31213142	59141611	2384	15897											
ITGAX	3687	broad.mit.edu	37	chr16	31388516	31388516	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctccagtgagaacaacactCccaggaccagcaagaccacc	14	4	7	16	0	1	2	0	1	1	2	3	4	2	3	5	1	3	1	5	1	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:31388516C>A	uc002ebu.1	+	23	2786	c.2719C>A	c.(2719-2721)CCC>ACC	p.P907T	ITGAX_uc002ebt.2_Missense_Mutation_p.P907T	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	907	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GAACAACACTCCCAGGACCAG	0.582													9	198					2.17888e-05	2.23727e-05	0.006214	1	0		A	31388516	A	A	31388516	3	1	19	1	0	0	0	0	1	0	0	0	7905	855	30	5	2809	5	ITGAX	16	31388516	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	175374	31388516	58966237	2385	15898											
GPT2	84706	broad.mit.edu	37	chr16	46934625	46934625	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcacctacccaaacctgcTggacagccccagcttcccag	10	6	7	18	0	0	0	0	0	0	0	1	1	1	1	6	1	6	3	6	1	2	2	rs115391450	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:46934625T>G	uc002eel.2	+	4	459	c.365T>G	c.(364-366)CTG>CGG	p.L122R	GPT2_uc002eem.2_Missense_Mutation_p.L22R	NM_133443	NP_597700	Q8TD30	ALAT2_HUMAN	glutamic pyruvate transaminase 2 isoform 1	122					2-oxoglutarate metabolic process|cellular amino acid biosynthetic process|L-alanine metabolic process	mitochondrial matrix	L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2		all_cancers(37;0.0276)|all_epithelial(9;0.0498)|all_lung(18;0.0522)			L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CCAAACCTGCTGGACAGCCCC	0.627													23	70					0	0	0.00278	0	0		G	46934625	G	G	46934625	3	3	19	1	0	0	0	0	1	0	0	0	6754	1580	55	5	375	5	GPT2	16	46934625	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	15546109	46934625	43420128	2386	15899											
ABCC12	94160	broad.mit.edu	37	chr16	48173146	48173146	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccagaatgaaaaaggcgtaCgccgcacaaaagaccattag	17	4	9	11	3	0	3	0	1	0	2	0	3	0	3	3	1	1	2	3	1	7	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:48173146C>T	uc002efc.1	-	5	1105	c.759G>A	c.(757-759)GCG>GCA	p.A253A	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Silent_p.A253A|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	253	ABC transmembrane type-1 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				AAAAGGCGTACGCCGCACAAA	0.473													45	68					0	0	0.011902	0	0		T	48173146	T	T	48173146	2	4	19	1	0	0	0	0	0	0	0	1	52	523	19	1		1	ABCC12	16	48173146	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1238521	48173146	42181607	2387	15900											
ABCC11	85320	broad.mit.edu	37	chr16	48250029	48250029	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaaagacattaccgccAgtgggaaaaccaggagatag	17	4	12	8	1	0	3	0	0	0	3	0	6	0	4	3	2	2	0	3	2	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:48250029A>C	uc002eff.1	-	6	1297	c.947T>G	c.(946-948)CTG>CGG	p.L316R	ABCC11_uc002efg.1_Missense_Mutation_p.L316R|ABCC11_uc002efh.1_Missense_Mutation_p.L316R|ABCC11_uc010vgk.1_5'Flank|ABCC11_uc010vgl.1_Missense_Mutation_p.L316R	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	316	ABC transmembrane type-1 1.|Helical; (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				CATTACCGCCAGTGGGAAAAC	0.473									Cerumen_Type				51	98					0	0	0.01441	0	0		C	48250029	C	C	48250029	3	2	19	1	0	0	0	0	1	0	0	0	51	188	7	5	3297	5	ABCC11	16	48250029	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	76883	48250029	42104724	2388	15901											
NOD2	64127	broad.mit.edu	37	chr16	50733415	50733415	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggttgtgaaatgtgctcGcaggaggcttttcaggcaca	9	10	13	9	1	1	1	1	1	0	0	2	2	1	2	1	4	1	5	1	4	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:50733415G>A	uc002egm.1	+	2	195	c.90G>A	c.(88-90)TCG>TCA	p.S30S	NOD2_uc010cbj.1_Silent_p.S3S|NOD2_uc010cbk.1_Silent_p.S3S|NOD2_uc002egl.1_5'UTR	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	30	CARD 1.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				AAATGTGCTCGCAGGAGGCTT	0.617													111	212					0	0	0.01441	0	0		A	50733415	A	A	50733415	2	1	19	1	0	0	0	0	0	0	0	1	10536	1074	38	1		1	NOD2	16	50733415	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2483386	50733415	39621338	2389	15902											
CHD9	80205	broad.mit.edu	37	chr16	53358048	53358048	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaggccacagcagcagcAgctgctgcatctgccaccag	11	4	11	15	0	1	0	0	0	1	0	1	0	1	0	3	1	7	7	3	1	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:53358048A>T	uc002ehb.2	+	38	8099	c.7935A>T	c.(7933-7935)GCA>GCT	p.A2645A	CHD9_uc002egy.2_Silent_p.A2629A|CHD9_uc002ehc.2_Silent_p.A2630A|CHD9_uc002ehf.2_Silent_p.A1743A|CHD9_uc010cbw.2_Silent_p.A711A	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	2645	Poly-Ala.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				CAGCAGCAGCAGCTGCTGCAT	0.512													26	70					0	0	0.004289	0	0		T	53358048	T	T	53358048	2	4	19	1	0	0	0	0	0	0	0	1	3335	175	7	5		5	CHD9	16	53358048	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2624633	53358048	36996705	2390	15903											
LPCAT2	54947	broad.mit.edu	37	chr16	55562369	55562369	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatagttgctgtaaaaggaaAgattgcaagtcctttggaag	14	12	11	4	0	0	1	0	0	0	1	1	3	1	3	1	2	2	4	1	2	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:55562369A>C	uc002eie.3	+	3	573	c.392A>C	c.(391-393)AAG>ACG	p.K131T		NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	131	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						GTAAAAGGAAAGATTGCAAGT	0.373													46	84					0	0	0.009718	0	0		C	55562369	C	C	55562369	3	2	19	1	0	0	0	0	1	0	0	0	8929	72	3	5	402	5	LPCAT2	16	55562369	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2204321	55562369	34792384	2391	15904											
SLC6A2	6530	broad.mit.edu	37	chr16	55705925	55705925	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcatcgcctggtcactctActacctcttctcctccttca	6	14	3	18	1	6	0	3	0	3	0	9	0	7	0	4	1	2	0	4	1	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:55705925A>T	uc002eif.2	+	4	593	c.482A>T	c.(481-483)TAC>TTC	p.Y161F	SLC6A2_uc010ccd.2_Missense_Mutation_p.Y161F|SLC6A2_uc002eig.2_Missense_Mutation_p.Y161F|SLC6A2_uc002eih.2_Missense_Mutation_p.Y161F|SLC6A2_uc002eii.2_Missense_Mutation_p.Y56F	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	161	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	TGGTCACTCTACTACCTCTTC	0.582													17	39					0	0	0.004007	0	0		T	55705925	T	T	55705925	3	4	19	1	0	0	0	0	1	0	0	0	14708	391	14	5	583	5	SLC6A2	16	55705925	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	143556	55705925	34648828	2392	15905											
AMFR	267	broad.mit.edu	37	chr16	56437005	56437005	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagatgaccaggctggccAtggataaccagatgttgcca	13	8	11	9	0	0	3	0	1	0	2	0	4	0	4	4	3	2	2	4	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:56437005A>G	uc002eiy.2	-	7	1071	c.866T>C	c.(865-867)ATG>ACG	p.M289T	AMFR_uc002eix.2_5'UTR	NM_001144	NP_001135	Q9UKV5	AMFR2_HUMAN	autocrine motility factor receptor	289	Helical; (Potential).				endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|protein oligomerization|protein polyubiquitination	integral to endoplasmic reticulum membrane|integral to membrane of membrane fraction	protein binding|protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			breast(2)	2						CAGGCTGGCCATGGATAACCA	0.458													17	120					0	0	0.006122	0	0		G	56437005	G	G	56437005	3	3	19	1	0	0	0	0	1	0	0	0	571	217	8	3	1097	3	AMFR	16	56437005	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	731080	56437005	33917748	2393	15906											
BBS2	583	broad.mit.edu	37	chr16	56545131	56545131	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagcacaattgccaccaatAatcgcaagaggggaagaaat	18	5	10	8	1	0	3	0	0	0	3	1	4	0	4	2	2	2	2	2	2	6	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:56545131A>G	uc002ejd.2	-	3	645	c.411T>C	c.(409-411)ATT>ATC	p.I137I	BBS2_uc010ccg.2_Silent_p.I137I	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein	137					adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						TGCCACCAATAATCGCAAGAG	0.413									Bardet-Biedl_syndrome				20	149					0	0	0.014323	0	0		G	56545131	G	G	56545131	2	3	19	1	0	0	0	0	0	0	0	1	1339	358	13	3		3	BBS2	16	56545131	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	108126	56545131	33809622	2394	15907											
CX3CL1	6376	broad.mit.edu	37	chr16	57416777	57416777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgccacccggaggcaggcgGtggggctgctggccttcctt	3	8	16	14	2	0	0	0	0	0	0	1	1	1	1	4	7	2	3	4	7	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:57416777G>A	uc002eli.2	+	3	1094	c.1027G>A	c.(1027-1029)GTG>ATG	p.V343M		NM_002996	NP_002987	P78423	X3CL1_HUMAN	chemokine (C-X3-C motif) ligand 1 precursor	343	Helical; (Potential).				cell adhesion|cytokine-mediated signaling pathway|defense response|immune response|leukocyte adhesive activation|positive regulation of calcium-independent cell-cell adhesion|positive regulation of inflammatory response	cell surface|extracellular space|integral to membrane|plasma membrane	chemokine activity				0						GAGGCAGGCGGTGGGGCTGCT	0.647													24	44					0	0	0.005443	0	0		A	57416777	A	A	57416777	3	1	19	1	0	0	0	0	1	0	0	0	4077	1261	44	4	1037	4	CX3CL1	16	57416777	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	871646	57416777	32937976	2395	15908											
COQ9	57017	broad.mit.edu	37	chr16	57486772	57486772	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgaggagcagttgcagcAccgcatcctgacggcagccc	10	5	13	13	2	0	2	0	2	0	0	1	3	1	3	3	2	4	6	3	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:57486772A>G	uc002elq.2	+	3	318	c.302A>G	c.(301-303)CAC>CGC	p.H101R	COQ9_uc002elp.1_Missense_Mutation_p.H101R|COQ9_uc010vhn.1_Missense_Mutation_p.H101R|COQ9_uc010vho.1_Missense_Mutation_p.H101R|COQ9_uc010vhp.1_Missense_Mutation_p.H101R|COQ9_uc002elr.2_Missense_Mutation_p.H101R	NM_020312	NP_064708	O75208	COQ9_HUMAN	coenzyme Q9 homolog precursor	101					ubiquinone biosynthetic process	mitochondrion				breast(1)	1						CAGTTGCAGCACCGCATCCTG	0.602													5	153					0	0	0.000602	0	0		G	57486772	G	G	57486772	3	3	19	1	0	0	0	0	1	0	0	0	3754	159	6	3	312	3	COQ9	16	57486772	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	69995	57486772	32867981	2396	15909											
KATNB1	10300	broad.mit.edu	37	chr16	57778313	57778313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctctccacagagcctgaCgggccacacatccccagtgg	8	7	9	17	1	2	2	0	1	2	1	5	2	3	2	5	2	1	0	5	2	0	0	rs139636269		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:57778313C>T	uc002eml.1	+	4	553	c.179C>T	c.(178-180)ACG>ATG	p.T60M		NM_005886	NP_005877	Q9BVA0	KTNB1_HUMAN	katanin p80 subunit B 1	60	Interaction with centrosomes.|Interaction with dynein (By similarity).				cell division|mitosis|negative regulation of microtubule depolymerization|positive regulation of microtubule depolymerization|protein targeting	katanin complex|microtubule|spindle pole	microtubule binding|protein heterodimerization activity				0		all_neural(199;0.223)				CAGAGCCTGACGGGCCACACA	0.637													14	27					0	0	0.00245	0	0		T	57778313	T	T	57778313	3	4	19	1	0	0	0	0	1	0	0	0	8003	536	19	1	189	1	KATNB1	16	57778313	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	291541	57778313	32576440	2397	15910											
KATNB1	10300	broad.mit.edu	37	chr16	57785608	57785608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgatgggaagtggttggCgtcggccgcagatgaccaca	8	6	15	12	4	0	2	0	1	0	1	1	4	0	3	4	4	0	2	4	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:57785608C>T	uc002eml.1	+	7	862	c.488C>T	c.(487-489)GCG>GTG	p.A163V		NM_005886	NP_005877	Q9BVA0	KTNB1_HUMAN	katanin p80 subunit B 1	163	Interaction with centrosomes.|Interaction with dynein (By similarity).|WD 4.				cell division|mitosis|negative regulation of microtubule depolymerization|positive regulation of microtubule depolymerization|protein targeting	katanin complex|microtubule|spindle pole	microtubule binding|protein heterodimerization activity				0		all_neural(199;0.223)				AAGTGGTTGGCGTCGGCCGCA	0.682													26	57					0	0	0.00632	0	0		T	57785608	T	T	57785608	3	4	19	1	0	0	0	0	1	0	0	0	8003	768	27	1	510	1	KATNB1	16	57785608	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	7295	57785608	32569145	2398	15911											
MMP15	4324	broad.mit.edu	37	chr16	58072273	58072273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgccctcaccgggaggaagTggaacaaccaccatctgacc	12	4	10	15	2	2	1	1	1	1	0	2	4	2	4	5	3	2	0	5	3	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:58072273T>C	uc002ena.2	+	3	1388	c.415T>C	c.(415-417)TGG>CGG	p.W139R		NM_002428	NP_002419	P51511	MMP15_HUMAN	matrix metalloproteinase 15 preproprotein	139	Extracellular (Potential).				protein modification process|proteolysis	extracellular matrix|integral to plasma membrane	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|protein binding|zinc ion binding			central_nervous_system(2)|breast(1)	3						CGGGAGGAAGTGGAACAACCA	0.652													17	115					0	0	0.007413	0	0		C	58072273	C	C	58072273	3	2	19	1	0	0	0	0	1	0	0	0	9672	1696	59	3	425	3	MMP15	16	58072273	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	286665	58072273	32282480	2399	15912											
RRAD	6236	broad.mit.edu	37	chr16	66957424	66957424	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccgcctactcaccatccAccgagacctcacgagagcgc	9	5	8	19	4	2	2	2	0	0	2	3	4	3	2	6	0	3	0	6	0	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:66957424A>G	uc002eqn.2	-	4	796	c.644T>C	c.(643-645)GTG>GCG	p.V215A	RRAD_uc002eqo.2_Missense_Mutation_p.V215A	NM_001128850	NP_001122322	P55042	RAD_HUMAN	Ras-related associated with diabetes	215					small GTPase mediated signal transduction	plasma membrane	calmodulin binding|GTP binding|GTPase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0862)|Epithelial(162;0.198)		CTCACCATCCACCGAGACCTC	0.632													6	100					0	0	0.001168	0	0		G	66957424	G	G	66957424	3	3	19	1	0	0	0	0	1	0	0	0	13696	159	6	3	290	3	RRAD	16	66957424	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	8885151	66957424	23397329	2400	15913											
CES2	8824	broad.mit.edu	37	chr16	66974153	66974153	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggatccacggtggtgcgcTtgtttttggcatggcttcct	3	15	14	9	2	0	0	0	0	0	0	2	1	2	1	2	5	1	4	2	5	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:66974153T>C	uc002eqr.2	+	4	1644	c.644T>C	c.(643-645)CTT>CCT	p.L215P	CES2_uc002eqq.2_Missense_Mutation_p.L215P|CES2_uc002eqs.2_Missense_Mutation_p.L58P	NM_003869	NP_003860	O00748	EST2_HUMAN	carboxylesterase 2 isoform 1	151					catabolic process	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0663)|Epithelial(162;0.166)		GGTGGTGCGCTTGTTTTTGGC	0.577													9	71					0	0	0.006214	0	0		C	66974153	C	C	66974153	3	2	19	1	0	0	0	0	1	0	0	0	3273	1609	56	3	658	3	CES2	16	66974153	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	16729	66974153	23380600	2401	15914											
CBFB	865	broad.mit.edu	37	chr16	67100670	67100670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaaagactggatggtatggGctgtctggagtttgatgagg	9	11	16	5	0	1	3	0	2	1	1	1	5	1	5	1	5	0	3	1	5	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:67100670G>A	uc002era.2	+	4	629	c.368G>A	c.(367-369)GGC>GAC	p.G123D	CBFB_uc002erb.2_Missense_Mutation_p.G123D|CBFB_uc010vja.1_Intron	NM_001755	NP_001746	Q13951	PEBB_HUMAN	core-binding factor, beta subunit isoform 2	123					transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			breast(2)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00189)|Epithelial(162;0.00755)|all cancers(182;0.066)		GATGGTATGGGCTGTCTGGAG	0.473			T	MYH11	AML								16	72					0	0	0.008871	0	0		A	67100670	A	A	67100670	3	1	19	1	0	0	0	0	1	0	0	0	2702	1203	42	2	382	2	CBFB	16	67100670	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	126517	67100670	23254083	2402	15915											
E2F4	1874	broad.mit.edu	37	chr16	67229866	67229866	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcagttcgtccggacccaaCccttctacctcctttgagcc	7	10	7	17	2	1	1	0	1	1	0	4	2	3	2	6	1	4	2	6	1	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:67229866C>T	uc002erz.2	+	7	1053	c.990C>T	c.(988-990)AAC>AAT	p.N330N		NM_001950	NP_001941	Q16254	E2F4_HUMAN	E2F transcription factor 4	330					G1 phase of mitotic cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000697)|Epithelial(162;0.00303)|all cancers(182;0.0325)		CCGGACCCAACCCTTCTACCT	0.438													51	103					0	0	0.01441	0	0		T	67229866	T	T	67229866	2	4	19	1	0	0	0	0	0	0	0	1	4875	506	18	4		4	E2F4	16	67229866	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	129196	67229866	23124887	2403	15916											
PLEKHG4	25894	broad.mit.edu	37	chr16	67320812	67320812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacacatttgcctacaagcGctccttcaaggtaggcctgc	9	10	9	13	1	1	1	1	1	0	0	2	1	2	1	3	2	4	2	3	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:67320812G>A	uc002eso.3	+	16	5450	c.2915G>A	c.(2914-2916)CGC>CAC	p.R972H	PLEKHG4_uc002esp.3_Missense_Mutation_p.R779H|PLEKHG4_uc002esq.3_Missense_Mutation_p.R972H|PLEKHG4_uc010cef.2_Missense_Mutation_p.R972H|PLEKHG4_uc002ess.3_Missense_Mutation_p.R972H|PLEKHG4_uc010ceg.2_Missense_Mutation_p.R891H	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	972	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		GCCTACAAGCGCTCCTTCAAG	0.622													44	111					0	0	0.01441	0	0		A	67320812	A	A	67320812	3	1	19	1	0	0	0	0	1	0	0	0	12090	1087	38	1	2977	1	PLEKHG4	16	67320812	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	90946	67320812	23033941	2404	15917											
ATP6V0D1	9114	broad.mit.edu	37	chr16	67472482	67472482	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgcggtggcgctgggcgatAcattcagcgatccacacgat	8	7	14	12	6	1	0	1	0	0	0	2	3	2	0	1	3	2	1	1	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:67472482A>G	uc002ete.1	-	8	1105	c.1005T>C	c.(1003-1005)TGT>TGC	p.C335C	ATP6V0D1_uc010vjo.1_Silent_p.C376C|ATP6V0D1_uc010vjn.1_Silent_p.C258C	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit	335					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		GCTGGGCGATACATTCAGCGA	0.483													7	75					0	0	0.00308	0	0		G	67472482	G	G	67472482	2	3	19	1	0	0	0	0	0	0	0	1	1174	389	14	3		3	ATP6V0D1	16	67472482	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	151670	67472482	22882271	2405	15918											
ATP6V0D1	9114	broad.mit.edu	37	chr16	67473020	67473020	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgccgaaagaattgatggTgatgatgaaggcgcggcggt	10	9	17	5	4	0	5	0	4	0	1	0	6	0	5	1	4	1	0	1	4	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:67473020T>C	uc002ete.1	-	6	770	c.670A>G	c.(670-672)ACC>GCC	p.T224A	ATP6V0D1_uc010vjo.1_Missense_Mutation_p.T265A|ATP6V0D1_uc010vjn.1_Missense_Mutation_p.T147A	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit	224					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		GAATTGATGGTGATGATGAAG	0.587													8	193					0	0	0.00308	0	0		C	67473020	C	C	67473020	3	2	19	1	0	0	0	0	1	0	0	0	1174	1696	59	3	397	3	ATP6V0D1	16	67473020	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	538	67473020	22881733	2406	15919											
FAM65A	79567	broad.mit.edu	37	chr16	67576357	67576357	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctctacctatagtgccatTaccactacccacagtgctcc	9	10	6	16	0	1	0	0	0	1	0	2	0	2	0	5	1	5	2	5	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:67576357T>C	uc010vjp.1	+	13	1824	c.1728T>C	c.(1726-1728)ATT>ATC	p.I576I	FAM65A_uc010cei.1_Silent_p.I398I|FAM65A_uc002eth.2_Silent_p.I556I|FAM65A_uc010cej.2_Silent_p.I559I|FAM65A_uc002eti.1_Silent_p.I519I|FAM65A_uc010vjq.1_Silent_p.I570I|FAM65A_uc002etj.1_Silent_p.I555I|FAM65A_uc002etk.2_Silent_p.I555I	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	560	Pro-rich.					cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		ATAGTGCCATTACCACTACCC	0.537													53	775					0	0	0.01441	0	0		C	67576357	C	C	67576357	2	2	19	1	0	0	0	0	0	0	0	1	5613	1742	61	3		3	FAM65A	16	67576357	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	103337	67576357	22778396	2407	15920											
TSNAXIP1	55815	broad.mit.edu	37	chr16	67861174	67861174	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtcctcaagagtaccttcCctctcaagacagaagagcaa	13	8	7	13	0	2	4	2	0	1	4	5	4	4	4	3	0	2	2	3	0	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:67861174C>A	uc002euj.2	+	14	1919	c.1525C>A	c.(1525-1527)CCT>ACT	p.P509T	TSNAXIP1_uc010vjz.1_Missense_Mutation_p.P386T|TSNAXIP1_uc002euf.3_Missense_Mutation_p.P242T|TSNAXIP1_uc010vka.1_Missense_Mutation_p.P563T|TSNAXIP1_uc010vkb.1_Missense_Mutation_p.P494T|TSNAXIP1_uc002eug.3_Missense_Mutation_p.P217T|TSNAXIP1_uc002euh.3_Missense_Mutation_p.P217T|TSNAXIP1_uc002eui.3_Missense_Mutation_p.P217T|TSNAXIP1_uc002euk.2_Missense_Mutation_p.P242T	NM_018430	NP_060900	Q2TAA8	TXIP1_HUMAN	translin-associated factor X interacting protein	509					cell differentiation|multicellular organismal development|spermatogenesis	perinuclear region of cytoplasm					0		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00432)|Epithelial(162;0.0192)|all cancers(182;0.125)		GAGTACCTTCCCTCTCAAGAC	0.557													17	47					2.94398e-08	3.067e-08	0.007413	1	0		A	67861174	A	A	67861174	3	1	19	1	0	0	0	0	1	0	0	0	16658	623	22	5	1571	5	TSNAXIP1	16	67861174	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	284817	67861174	22493579	2408	15921											
EDC4	23644	broad.mit.edu	37	chr16	67914024	67914024	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatggcagcctgacaatgAgcagcagtggcagccttcag	10	7	14	10	0	1	2	1	2	0	0	1	3	1	3	2	3	4	4	2	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:67914024A>G	uc002eur.2	+	17	2168	c.2002A>G	c.(2002-2004)AGC>GGC	p.S668G	EDC4_uc010cer.2_Missense_Mutation_p.S287G|EDC4_uc010vkg.1_Missense_Mutation_p.S600G|EDC4_uc002eus.2_Missense_Mutation_p.S398G|EDC4_uc002eut.1_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	668	Ser-rich.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		CCTGACAATGAGCAGCAGTGG	0.662													10	14					0	0	0.00245	0	0		G	67914024	G	G	67914024	3	3	19	1	0	0	0	0	1	0	0	0	4914	304	11	3	2068	3	EDC4	16	67914024	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	52850	67914024	22440729	2409	15922											
PSKH1	5681	broad.mit.edu	37	chr16	67942930	67942930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggccaagtttgacccacGtgttacagctaagtatgaca	12	9	10	10	1	0	2	0	2	0	0	0	2	0	2	2	1	2	4	2	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:67942930G>A	uc002euv.2	+	2	448	c.278G>A	c.(277-279)CGT>CAT	p.R93H	PSKH1_uc010cet.2_Missense_Mutation_p.R93H	NM_006742	NP_006733	P11801	KPSH1_HUMAN	protein serine kinase H1	93						endoplasmic reticulum membrane|Golgi apparatus|microtubule organizing center|nuclear speck|plasma membrane	ATP binding|protein serine/threonine kinase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0044)|Epithelial(162;0.0197)|all cancers(182;0.128)		TTTGACCCACGTGTTACAGCT	0.622													25	36					0	0	0.004656	0	0		A	67942930	A	A	67942930	3	1	19	1	0	0	0	0	1	0	0	0	12686	1145	40	1	280	1	PSKH1	16	67942930	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	28906	67942930	22411823	2410	15923											
DUS2L	54920	broad.mit.edu	37	chr16	68100478	68100478	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctcctcagctagaagatAccctgagccttgtgaagcgg	9	9	10	13	1	1	4	1	2	0	2	3	4	3	4	4	1	4	1	4	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:68100478A>G	uc002evi.2	+	10	642	c.493A>G	c.(493-495)ACC>GCC	p.T165A	DUS2L_uc002evj.2_Missense_Mutation_p.T165A|DUS2L_uc010vkk.1_Missense_Mutation_p.T130A|DUS2L_uc010cez.2_Missense_Mutation_p.T78A	NM_017803	NP_060273	Q9NX74	DUS2L_HUMAN	dihydrouridine synthase 2-like, SMM1 homolog	165					tRNA processing	endoplasmic reticulum	double-stranded RNA binding|flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0131)|Epithelial(162;0.0564)		GCTAGAAGATACCCTGAGCCT	0.552													35	320					0	0	0.006999	0	0		G	68100478	G	G	68100478	3	3	19	1	0	0	0	0	1	0	0	0	4812	391	14	3	523	3	DUS2L	16	68100478	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	157548	68100478	22254275	2411	15924											
SLC7A6OS	84138	broad.mit.edu	37	chr16	68337993	68337993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatccagcctggagtggccGtctccaagtagtaaatgtca	11	9	10	11	1	2	0	1	0	1	0	4	1	3	1	4	2	1	2	4	2	5	2	rs139184366		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:68337993G>A	uc002evw.1	-	3	633	c.614C>T	c.(613-615)ACG>ATG	p.T205M		NM_032178	NP_115554	Q96CW6	S7A6O_HUMAN	solute carrier family 7, member 6 opposite	205					protein transport	cytoplasm|nucleus				ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.106)		TGGAGTGGCCGTCTCCAAGTA	0.542													58	77					0	0	0.01441	0	0		A	68337993	A	A	68337993	3	1	19	1	0	0	0	0	1	0	0	0	14727	1145	40	1	327	1	SLC7A6OS	16	68337993	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	237515	68337993	22016760	2412	15925											
CDH1	999	broad.mit.edu	37	chr16	68835685	68835685	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaggcctctacggtttcaTaacccacagatccatttctt	12	12	5	12	1	3	1	1	0	2	1	4	1	4	1	3	2	2	1	3	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:68835685T>C	uc002ewg.1	+	3	400	c.276T>C	c.(274-276)CAT>CAC	p.H92H	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Silent_p.H92H	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	92					adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.H92Y(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		TACGGTTTCATAACCCACAGA	0.517			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				56	99					0	0	0.01441	0	0		C	68835685	C	C	68835685	2	2	19	1	0	0	0	0	0	0	0	1	3098	1403	49	3		3	CDH1	16	68835685	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	497692	68835685	21519068	2413	15926											
NFAT5	10725	broad.mit.edu	37	chr16	69687169	69687169	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccaaaaaggaactggagtAaagaagagccctatgttgtg	17	7	11	6	0	0	2	0	0	0	2	0	4	0	4	2	2	3	2	2	2	8	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:69687169A>G	uc002exm.1	+	4	1997	c.789A>G	c.(787-789)GTA>GTG	p.V263V	NFAT5_uc002exh.1_Silent_p.V57V|NFAT5_uc002exi.2_Silent_p.V187V|NFAT5_uc002exj.1_Silent_p.V187V|NFAT5_uc002exk.1_Silent_p.V187V|NFAT5_uc002exl.1_Silent_p.V281V|NFAT5_uc002exn.1_Silent_p.V281V	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	263					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GAACTGGAGTAAAGAAGAGCC	0.383													32	73					0	0	0.004289	0	0		G	69687169	G	G	69687169	2	3	19	1	0	0	0	0	0	0	0	1	10379	349	13	3		3	NFAT5	16	69687169	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	851484	69687169	20667584	2414	15927											
NFAT5	10725	broad.mit.edu	37	chr16	69725814	69725814	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccagagaccctgacaactAttcaaacccaggacatctca	15	6	5	15	0	2	2	2	1	1	1	3	4	2	3	3	1	2	0	3	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:69725814A>G	uc002exm.1	+	12	3240	c.2032A>G	c.(2032-2034)ATT>GTT	p.I678V	NFAT5_uc002exi.2_Missense_Mutation_p.I602V|NFAT5_uc002exj.1_Missense_Mutation_p.I602V|NFAT5_uc002exk.1_Missense_Mutation_p.I602V|NFAT5_uc002exl.1_Missense_Mutation_p.I696V|NFAT5_uc002exn.1_Missense_Mutation_p.I695V|NFAT5_uc002exo.1_5'Flank	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	678					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						CCTGACAACTATTCAAACCCA	0.478													11	108					0	0	0.010729	0	0		G	69725814	G	G	69725814	3	3	19	1	0	0	0	0	1	0	0	0	10379	449	16	3	2136	3	NFAT5	16	69725814	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	38645	69725814	20628939	2415	15928											
AARS	16	broad.mit.edu	37	chr16	70292118	70292118	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcaatcctgggtatagacGgcctgccagaccaagaagac	12	5	13	11	1	0	4	0	0	0	4	1	4	1	4	4	3	1	2	4	3	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:70292118G>T	uc002eyn.1	-	15	2105	c.1995C>A	c.(1993-1995)GCC>GCA	p.A665A	AARS_uc010vlu.1_Silent_p.A495A	NM_001605	NP_001596	P49588	SYAC_HUMAN	alanyl-tRNA synthetase	665					alanyl-tRNA aminoacylation|tRNA processing	cytosol|soluble fraction	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			pancreas(1)	1		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)	L-Alanine(DB00160)	GGGTATAGACGGCCTGCCAGA	0.592													4	7					0.00909568	0.00923007	0.009096	1	0		T	70292118	T	T	70292118	2	4	19	1	0	0	0	0	0	0	0	1	19	1103	39	5		5	AARS	16	70292118	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	566304	70292118	20062635	2416	15929											
DDX19B	11269	broad.mit.edu	37	chr16	70359507	70359507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccccaacgtatgagctcGccctccaaacaggaaaagtg	12	7	8	14	2	1	1	0	1	1	0	4	2	2	2	4	1	3	2	4	1	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:70359507G>A	uc002eyo.2	+	7	652	c.523G>A	c.(523-525)GCC>ACC	p.A175T	DDX19B_uc010vly.1_Missense_Mutation_p.A175T|DDX19A_uc002eys.2_Intron|DDX19B_uc010vlv.1_Missense_Mutation_p.A149T|DDX19B_uc010vlw.1_Missense_Mutation_p.A66T|DDX19B_uc002eyp.2_Missense_Mutation_p.A144T|DDX19B_uc002eyq.2_Missense_Mutation_p.A66T|DDX19B_uc002eyr.2_Missense_Mutation_p.A24T|DDX19B_uc010vlx.1_Missense_Mutation_p.A24T|uc002eyt.2_Intron	NM_007242	NP_009173	Q9UMR2	DD19B_HUMAN	DEAD (Asp-Glu-Ala-As) box polypeptide 19 isoform	175	Helicase ATP-binding.				mRNA export from nucleus|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			kidney(1)	1		Ovarian(137;0.0694)				GTATGAGCTCGCCCTCCAAAC	0.413													8	117					0	0	0.004482	0	0		A	70359507	A	A	70359507	3	1	19	1	0	0	0	0	1	0	0	0	4350	1087	38	1	549	1	DDX19B	16	70359507	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	67389	70359507	19995246	2417	15930											
ST3GAL2	6483	broad.mit.edu	37	chr16	70422372	70422372	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgggcaggttcttggcaCtctcagggtacatgaaatgg	8	10	15	8	1	2	1	1	1	2	0	3	1	2	1	0	6	1	4	0	6	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:70422372C>A	uc002eyw.2	-	3	2719	c.611G>T	c.(610-612)AGT>ATT	p.S204I	ST3GAL2_uc002eyx.2_Missense_Mutation_p.S204I	NM_006927	NP_008858	Q16842	SIA4B_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	204	Lumenal (Potential).				amino sugar metabolic process	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity			ovary(1)	1		Ovarian(137;0.0694)				GTTCTTGGCACTCTCAGGGTA	0.597													59	144					3.37043e-27	3.60622e-27	0.01441	1	0		A	70422372	A	A	70422372	3	1	19	1	0	0	0	0	1	0	0	0	15240	565	20	5	457	5	ST3GAL2	16	70422372	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	62865	70422372	19932381	2418	15931											
ZNF23	7571	broad.mit.edu	37	chr16	71487993	71487993	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcatcacatccctgtacaGggtcctctgtgcaggggaca	9	8	11	13	0	2	0	1	0	1	0	4	1	4	1	2	3	3	3	2	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:71487993G>T	uc002faf.2	-	4	800	c.-14C>A	c.(-16--12)CCCTG>CCATG		ZNF23_uc002fad.2_5'Flank|ZNF23_uc002fae.2_Translation_Start_Site|ZNF23_uc010vmf.1_Intron|ZNF23_uc002fag.2_Translation_Start_Site|ZNF23_uc002fah.2_Translation_Start_Site|ZNF23_uc002fai.2_Missense_Mutation_p.L34M	NM_145911	NP_666016	P17027	ZNF23_HUMAN	zinc finger protein 23						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(137;0.00768)		BRCA - Breast invasive adenocarcinoma(221;0.0686)		TCCCTGTACAGGGTCCTCTGT	0.557													34	77					6.04917e-29	6.48189e-29	0.006999	1	0		T	71487993	T	T	71487993	1	4	19	1	0	0	0	0	0	0	0	0	17808	1015	35	5		5	ZNF23	16	71487993	Translation_Start_Site	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1065621	71487993	18866760	2419	15932											
TXNL4B	54957	broad.mit.edu	37	chr16	72122889	72122889	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatcaactgcacttacccaTaatccactttcatatgctgc	12	12	4	13	0	2	1	2	0	0	1	3	1	3	1	2	0	5	2	2	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:72122889T>C	uc002fca.2	-	3	592	c.281A>G	c.(280-282)TAT>TGT	p.Y94C	TXNL4B_uc010cgl.2_RNA|TXNL4B_uc010vmn.1_Missense_Mutation_p.Y94C|TXNL4B_uc010vmo.1_Missense_Mutation_p.Y94C	NM_017853	NP_060323	Q9NX01	TXN4B_HUMAN	thioredoxin-like 4B	94					mitosis|mRNA processing|RNA splicing	spliceosomal complex				ovary(1)	1						CACTTACCCATAATCCACTTT	0.383													42	112					0	0	0.01441	0	0		C	72122889	C	C	72122889	3	2	19	1	0	0	0	0	1	0	0	0	16832	1406	49	3	176	3	TXNL4B	16	72122889	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	634896	72122889	18231864	2420	15933											
ZFHX3	463	broad.mit.edu	37	chr16	72829354	72829354	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttcctcagcctccgctgtAagctgcaagaaagcggagga	11	7	12	11	2	1	1	1	0	0	1	3	3	3	3	3	2	4	5	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:72829354A>G	uc002fck.2	-	9	7900	c.7227T>C	c.(7225-7227)CTT>CTC	p.L2409L	ZFHX3_uc002fcl.2_Silent_p.L1495L	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2409					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CCTCCGCTGTAAGCTGCAAGA	0.557													38	75					0	0	0.006999	0	0		G	72829354	G	G	72829354	2	3	19	1	0	0	0	0	0	0	0	1	17659	349	13	3		3	ZFHX3	16	72829354	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	706465	72829354	17525399	2421	15934											
ZFHX3	463	broad.mit.edu	37	chr16	72991671	72991671	+	Frame_Shift_Del	DEL	C	-	-																															tggtttggtcggcgagggggCcccgcaggagctactgatat																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:72991671delC	uc002fck.2	-	2	3047	c.2374delG	c.(2374-2376)GCCfs	p.A792fs	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	792					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GGCGAGGGGGCCCCGCAGGAG	0.483													46	68	---	---	---	---						.	-	72991671	-	-	72991671	7	5	19	1	0	1	0	1	0	0	0	0	17659	739	26	0	8773	0	ZFHX3	16	72991671	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	162317	72991671	17363082	2422	15935											
PSMD7	5713	broad.mit.edu	37	chr16	74330861	74330861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtccaccccctggtgctgCtcagtgtggtggatcatttc	4	13	12	12	0	2	0	2	0	0	0	4	1	3	1	3	4	2	2	3	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:74330861C>T	uc002fcq.2	+	1	181	c.49C>T	c.(49-51)CTC>TTC	p.L17F	PSMD7_uc010vmr.1_5'UTR	NM_002811	NP_002802	P51665	PSD7_HUMAN	proteasome 26S non-ATPase subunit 7	17	MPN.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding				0						CCTGGTGCTGCTCAGTGTGGT	0.692													3	25					0	0	0.009096	0	0		T	74330861	T	T	74330861	3	4	19	1	0	0	0	0	1	0	0	0	12725	797	28	2	51	2	PSMD7	16	74330861	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1339190	74330861	16023892	2423	15936											
FA2H	79152	broad.mit.edu	37	chr16	74753037	74753037	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagcccggggaacatggacTtgggcactgccaccgtgtac	9	6	14	12	2	0	1	0	0	0	1	0	3	0	3	3	4	4	2	3	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:74753037T>A	uc002fde.1	-	5	703	c.635A>T	c.(634-636)AAG>ATG	p.K212M	FA2H_uc002fdd.1_5'Flank|FA2H_uc010vmy.1_RNA	NM_024306	NP_077282	Q7L5A8	FA2H_HUMAN	fatty acid 2-hydroxylase	212					cell death|electron transport chain|fatty acid biosynthetic process|sphingolipid metabolic process|transport	endoplasmic reticulum membrane|integral to membrane|microsome	heme binding|oxidoreductase activity				0						GAACATGGACTTGGGCACTGC	0.622													7	51					0	0	0.001984	0	0		A	74753037	A	A	74753037	3	1	19	1	0	0	0	0	1	0	0	0	5363	1609	56	5	495	5	FA2H	16	74753037	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	422176	74753037	15601716	2424	15937											
ZNRF1	84937	broad.mit.edu	37	chr16	75140387	75140387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccctcctcccagctgcataGactcgtggtttgaagtgaac	8	10	9	14	1	0	3	0	2	0	1	3	3	2	3	4	1	3	3	4	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:75140387G>A	uc002fdk.2	+	4	1289	c.634G>A	c.(634-636)GAC>AAC	p.D212N	ZNRF1_uc002fdl.1_Missense_Mutation_p.D212N|ZNRF1_uc010cgr.1_Missense_Mutation_p.D263N	NM_032268	NP_115644	Q8ND25	ZNRF1_HUMAN	zinc and ring finger protein 1	212	RING-type; atypical.					cell junction|endosome|lysosome|synaptic vesicle membrane	ligase activity|protein binding|zinc ion binding				0						CAGCTGCATAGACTCGTGGTT	0.597													4	105					0	0	0.000602	0	0		A	75140387	A	A	75140387	3	1	19	1	0	0	0	0	1	0	0	0	18236	942	33	4	648	4	ZNRF1	16	75140387	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	387350	75140387	15214366	2425	15938											
TMEM231	79583	broad.mit.edu	37	chr16	75579294	75579294	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagctcagcggctgcttctGctgcagcctcaggtctccgt	5	10	11	15	2	4	0	2	0	2	0	5	0	4	0	2	2	6	5	2	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:75579294G>A	uc002fem.2	-	4	601	c.538C>T	c.(538-540)CAG>TAG	p.Q180*	CHST5_uc002fej.1_5'UTR|TMEM231_uc002fek.2_Nonsense_Mutation_p.Q209*|TMEM231_uc002fel.2_Nonsense_Mutation_p.Q64*|TMEM231_uc010vne.1_Nonsense_Mutation_p.Q33*|TMEM231_uc010cgx.1_Nonsense_Mutation_p.Q144*	NM_001077418	NP_001070886	Q9H6L2	TM231_HUMAN	transmembrane protein 231 isoform 2	180						integral to membrane					0						GGCTGCTTCTGCTGCAGCCTC	0.542													5	80					0	0	0.001984	0	0		A	75579294	A	A	75579294	4	1	19	1	0	0	0	0	0	1	0	0	16174	1328	46	2	428	2	TMEM231	16	75579294	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	438907	75579294	14775459	2426	15939											
CNTNAP4	85445	broad.mit.edu	37	chr16	76481946	76481946	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgatggaaaaagttccctTctctacagatttgatcaaaa	14	13	6	8	0	2	3	1	2	1	1	4	4	3	4	1	1	1	1	1	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:76481946T>C	uc002feu.1	+	7	961	c.576T>C	c.(574-576)CTT>CTC	p.L192L	CNTNAP4_uc002fev.1_Silent_p.L104L|CNTNAP4_uc010chb.1_Silent_p.L167L|CNTNAP4_uc002fex.1_Silent_p.L195L|CNTNAP4_uc002few.2_Silent_p.L167L	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	192	Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						AAAGTTCCCTTCTCTACAGAT	0.343													23	47					0	0	0.004656	0	0		C	76481946	C	C	76481946	2	2	19	1	0	0	0	0	0	0	0	1	3652	1770	62	3		3	CNTNAP4	16	76481946	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	902652	76481946	13872807	2427	15940											
CNTNAP4	85445	broad.mit.edu	37	chr16	76573730	76573730	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataatgattaacagagaagAaggagtggtctttatagagg	16	10	12	3	0	1	4	0	1	1	3	1	6	1	5	0	3	1	0	0	3	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:76573730A>C	uc002feu.1	+	22	3720	c.3335A>C	c.(3334-3336)GAA>GCA	p.E1112A	CNTNAP4_uc002fev.1_Missense_Mutation_p.E976A|CNTNAP4_uc010chb.1_Missense_Mutation_p.E1039A|CNTNAP4_uc002fex.1_Missense_Mutation_p.E1115A	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	1112	Extracellular (Potential).|Laminin G-like 4.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						AACAGAGAAGAAGGAGTGGTC	0.333													28	88					0	0	0.007291	0	0		C	76573730	C	C	76573730	3	2	19	1	0	0	0	0	1	0	0	0	3652	246	9	5	3426	5	CNTNAP4	16	76573730	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	91784	76573730	13781023	2428	15941											
MAF	4094	broad.mit.edu	37	chr16	79632969	79632969	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccttgctgaccccgcgcagCtgccggttcagctcgcgcac	4	8	11	18	5	1	1	1	1	0	0	3	1	2	1	4	1	4	6	4	1	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:79632969C>T	uc002ffn.2	-	1	1654	c.831G>A	c.(829-831)CAG>CAA	p.Q277Q	MAF_uc002ffm.2_Silent_p.Q277Q	NM_001031804	NP_001026974	O75444	MAF_HUMAN	v-maf musculoaponeurotic fibrosarcoma oncogene	277	Represses ARE-mediated transcription.				transcription from RNA polymerase II promoter	chromatin|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_epithelial(2;0.139)|Lung NSC(2;0.186)|Melanoma(2;0.211)		UCEC - Uterine corpus endometrioid carcinoma (2;0.0178)		CCCCGCGCAGCTGCCGGTTCA	0.672			T	IGH@	MM								5	10					0	0	0.001168	0	0		T	79632969	T	T	79632969	2	4	19	1	0	0	0	0	0	0	0	1	9173	796	28	2		2	MAF	16	79632969	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3059239	79632969	10721784	2429	15942											
MAF	4094	broad.mit.edu	37	chr16	79633642	79633642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgggggtggaggacagcgagCccccggcgatgagacggccg	7	3	20	11	5	0	1	0	1	0	1	0	6	0	3	3	6	2	0	3	6	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:79633642C>T	uc002ffn.2	-	1	981	c.158G>A	c.(157-159)GGC>GAC	p.G53D	MAF_uc002ffm.2_Missense_Mutation_p.G53D	NM_001031804	NP_001026974	O75444	MAF_HUMAN	v-maf musculoaponeurotic fibrosarcoma oncogene	53					transcription from RNA polymerase II promoter	chromatin|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_epithelial(2;0.139)|Lung NSC(2;0.186)|Melanoma(2;0.211)		UCEC - Uterine corpus endometrioid carcinoma (2;0.0178)		GGACAGCGAGCCCCCGGCGAT	0.632			T	IGH@	MM								10	16					0	0	0.004007	0	0		T	79633642	T	T	79633642	3	4	19	1	0	0	0	0	1	0	0	0	9173	739	26	2	1065	2	MAF	16	79633642	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	673	79633642	10721111	2430	15943											
ATMIN	23300	broad.mit.edu	37	chr16	81078385	81078385	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaagcaaagttcagttgaAcagtacagaaacacagacca	20	5	8	8	0	1	4	1	1	0	3	1	4	1	4	1	0	4	4	1	0	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:81078385A>G	uc002ffz.1	+	4	2300	c.2282A>G	c.(2281-2283)AAC>AGC	p.N761S	ATMIN_uc002fga.2_Missense_Mutation_p.N603S|ATMIN_uc010vnn.1_Missense_Mutation_p.N532S|ATMIN_uc002fgb.1_Missense_Mutation_p.N603S	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	761					response to DNA damage stimulus	nucleus	zinc ion binding				0						GTTCAGTTGAACAGTACAGAA	0.443													7	122					0	0	0.00308	0	0		G	81078385	G	G	81078385	3	3	19	1	0	0	0	0	1	0	0	0	1111	43	2	3	2296	3	ATMIN	16	81078385	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1444743	81078385	9276368	2431	15944											
PKD1L2	114780	broad.mit.edu	37	chr16	81190510	81190510	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgcccagatcaccaccAgcacgtagaccacacacagg	12	4	7	18	2	1	2	1	0	0	2	3	2	2	2	5	1	1	2	5	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:81190510A>G	uc002fgh.1	-	24	4079	c.4079T>C	c.(4078-4080)CTG>CCG	p.L1360P	PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	1360	Helical; (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GATCACCACCAGCACGTAGAC	0.577													13	25					0	0	0.003163	0	0		G	81190510	G	G	81190510	3	3	19	1	0	0	0	0	1	0	0	0	11984	188	7	3	3379	3	PKD1L2	16	81190510	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	112125	81190510	9164243	2432	15945											
PKD1L2	114780	broad.mit.edu	37	chr16	81209311	81209311	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctctccaagtggcagatAcactgatgggagggcaggtt	9	9	13	10	0	1	2	0	1	1	1	3	3	2	3	2	4	1	3	2	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:81209311A>G	uc002fgh.1	-	15	2482	c.2482T>C	c.(2482-2484)TAT>CAT	p.Y828H	PKD1L2_uc002fgg.1_RNA|PKD1L2_uc002fgi.2_Missense_Mutation_p.Y143H|PKD1L2_uc002fgj.2_Missense_Mutation_p.Y828H|PKD1L2_uc002fgk.1_5'UTR|PKD1L2_uc002fgl.1_Missense_Mutation_p.Y84H	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	828	REJ.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AGTGGCAGATACACTGATGGG	0.547													29	82					0	0	0.005443	0	0		G	81209311	G	G	81209311	3	3	19	1	0	0	0	0	1	0	0	0	11984	391	14	3	5082	3	PKD1L2	16	81209311	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	18801	81209311	9145442	2433	15946											
BCMO1	53630	broad.mit.edu	37	chr16	81293316	81293316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagcaaatacctgagaagcGatacctacaacaccaatatt	17	7	7	10	1	0	1	0	1	0	1	0	4	0	2	3	1	6	1	3	1	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:81293316G>A	uc002fgn.1	+	3	447	c.229G>A	c.(229-231)GAT>AAT	p.D77N	BCMO1_uc002fgm.1_Missense_Mutation_p.D77N|BCMO1_uc010vnp.1_Intron	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	77					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						CCTGAGAAGCGATACCTACAA	0.438													41	77					0	0	0.006999	0	0		A	81293316	A	A	81293316	3	1	19	1	0	0	0	0	1	0	0	0	1385	1058	37	1	239	1	BCMO1	16	81293316	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	84005	81293316	9061437	2434	15947											
TAF1C	9013	broad.mit.edu	37	chr16	84218572	84218572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcagaaacaatgcagggCggagggagctggggaagtcc	11	4	18	8	2	1	1	1	0	0	1	2	4	2	4	1	6	3	2	1	6	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:84218572C>T	uc002fhn.2	-	2	251	c.23G>A	c.(22-24)CGC>CAC	p.R8H	TAF1C_uc002fhm.2_Intron|TAF1C_uc010vnx.1_Missense_Mutation_p.R8H|TAF1C_uc010vny.1_Intron|TAF1C_uc010vnz.1_Intron|TAF1C_uc002fho.2_Intron|TAF1C_uc010voa.1_Intron|TAF1C_uc002fhp.1_RNA|TAF1C_uc010vob.1_Missense_Mutation_p.R8H	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	8					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						CAATGCAGGGCGGAGGGAGCT	0.617													10	26					0	0	0.008291	0	0		T	84218572	T	T	84218572	3	4	19	1	0	0	0	0	1	0	0	0	15546	768	27	1	2638	1	TAF1C	16	84218572	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2925256	84218572	6136181	2435	15948											
ADAD2	161931	broad.mit.edu	37	chr16	84224941	84224941	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccgcccctggcgaccgctAcccgcccaggcccaaagtgc	6	3	10	22	4	0	0	0	0	0	0	0	1	0	0	8	2	2	1	8	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:84224941A>G	uc002fhr.2	+	1	219	c.105A>G	c.(103-105)CTA>CTG	p.L35L	ADAD2_uc002fhq.2_Silent_p.L35L	NM_001145400	NP_001138872	Q8NCV1	ADAD2_HUMAN	adenosine deaminase domain containing 2 isoform	35					RNA processing	intracellular	adenosine deaminase activity|double-stranded RNA binding				0						GGCGACCGCTACCCGCCCAGG	0.622													4	8					0	0	0.009096	0	0		G	84224941	G	G	84224941	2	3	19	1	0	0	0	0	0	0	0	1	232	378	14	3		3	ADAD2	16	84224941	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	6369	84224941	6129812	2436	15949											
KLHL36	79786	broad.mit.edu	37	chr16	84695605	84695605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtgtacgaccgcgaggccGacaagtggagcaggggcgtc	9	4	18	10	5	0	0	0	0	0	0	1	4	0	1	2	5	2	2	2	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:84695605G>A	uc002fig.2	+	5	1858	c.1717G>A	c.(1717-1719)GAC>AAC	p.D573N	KLHL36_uc010chl.2_Missense_Mutation_p.D509N|uc002fih.2_5'Flank	NM_024731	NP_079007	Q8N4N3	KLH36_HUMAN	kelch-like 36	573	Kelch 6.									skin(2)	2						CCGCGAGGCCGACAAGTGGAG	0.662													3	2					0	0	0.000602	0	0		A	84695605	A	A	84695605	3	1	19	1	0	0	0	0	1	0	0	0	8405	1058	37	1	1731	1	KLHL36	16	84695605	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	470664	84695605	5659148	2437	15950											
USP10	9100	broad.mit.edu	37	chr16	84778357	84778357	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccctcaggcccctgaattTattctcggttgtacagcttc	8	13	7	13	1	2	1	1	1	1	0	4	1	2	1	3	2	3	3	3	2	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:84778357T>C	uc002fii.2	+	4	412	c.270T>C	c.(268-270)TTT>TTC	p.F90F	USP10_uc010voe.1_Silent_p.F94F|USP10_uc010vof.1_Intron|USP10_uc002fij.2_5'UTR	NM_005153	NP_005144	Q14694	UBP10_HUMAN	ubiquitin specific protease 10	90	Interaction with p53/TP53.				DNA damage response, signal transduction by p53 class mediator|DNA repair|protein deubiquitination|ubiquitin-dependent protein catabolic process	early endosome|intermediate filament cytoskeleton|nucleus	cystic fibrosis transmembrane conductance regulator binding|p53 binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						CCCCTGAATTTATTCTCGGTT	0.493													28	106					0	0	0.005443	0	0		C	84778357	C	C	84778357	2	2	19	1	0	0	0	0	0	0	0	1	17067	1751	61	3		3	USP10	16	84778357	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	82752	84778357	5576396	2438	15951											
KIAA0182	23199	broad.mit.edu	37	chr16	85667621	85667621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctcgccgctcaatggcGccctggtgcccagcggcagc	4	5	12	20	4	1	0	1	0	0	0	2	0	1	0	5	3	3	2	5	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:85667621G>A	uc002fix.2	+	2	183	c.109G>A	c.(109-111)GCC>ACC	p.A37T	KIAA0182_uc002fiw.2_Intron|KIAA0182_uc002fiy.2_Intron	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	37							protein binding			large_intestine(3)|ovary(1)|skin(1)	5						GCTCAATGGCGCCCTGGTGCC	0.706													11	35					0	0	0.00499	0	0		A	85667621	A	A	85667621	3	1	19	1	0	0	0	0	1	0	0	0	8175	1087	38	1	115	1	KIAA0182	16	85667621	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	889264	85667621	4687132	2439	15952											
KIAA0182	23199	broad.mit.edu	37	chr16	85696670	85696670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccgttgcgtggccgagcagCcgcccctcaaactggacacg	7	6	12	16	5	1	0	1	0	0	0	2	2	2	1	5	2	4	2	5	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:85696670C>T	uc002fix.2	+	10	2418	c.2344C>T	c.(2344-2346)CCG>TCG	p.P782S	KIAA0182_uc002fiw.2_Missense_Mutation_p.P678S|KIAA0182_uc002fiy.2_Missense_Mutation_p.P709S|KIAA0182_uc002fiz.2_5'UTR|KIAA0182_uc010cho.2_5'Flank	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	782							protein binding			large_intestine(3)|ovary(1)|skin(1)	5						GGCCGAGCAGCCGCCCCTCAA	0.612													28	23					0	0	0.012213	0	0		T	85696670	T	T	85696670	3	4	19	1	0	0	0	0	1	0	0	0	8175	739	26	2	2382	2	KIAA0182	16	85696670	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	29049	85696670	4658083	2440	15953											
KIAA0182	23199	broad.mit.edu	37	chr16	85701751	85701751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcccctccacagggagcGtggctgtgctgtctgcagag	5	9	14	13	1	1	1	0	0	1	1	3	2	3	2	3	2	3	3	3	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:85701751G>A	uc002fix.2	+	14	3210	c.3136G>A	c.(3136-3138)GTG>ATG	p.V1046M	KIAA0182_uc002fiw.2_Missense_Mutation_p.V942M|KIAA0182_uc002fiy.2_Missense_Mutation_p.V973M|KIAA0182_uc002fiz.2_Missense_Mutation_p.V188M|KIAA0182_uc010cho.2_Missense_Mutation_p.V226M	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	1046							protein binding			large_intestine(3)|ovary(1)|skin(1)	5						CACAGGGAGCGTGGCTGTGCT	0.617													74	169					0	0	0.01441	0	0		A	85701751	A	A	85701751	3	1	19	1	0	0	0	0	1	0	0	0	8175	1145	40	1	3190	1	KIAA0182	16	85701751	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	5081	85701751	4653002	2441	15954											
C16orf74	404550	broad.mit.edu	37	chr16	85743813	85743813	+	Frame_Shift_Del	DEL	G	-	-																															agcatcatgcccgtgggggtGgggggcgtgatgatgatgtc																								rs112376688		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:85743813delG	uc002fjc.3	-	3	305	c.129delC	c.(127-129)CCCfs	p.P43fs		NM_206967	NP_996850	Q96GX8	CP074_HUMAN	MGC17624 protein	43											0						CCGTGGGGGTGGGGGGCGTGA	0.672													4	7	---	---	---	---						.	-	85743813	-	-	85743813	7	5	19	1	0	1	0	1	0	0	0	0	1836	1335	47	0	109	0	C16orf74	16	85743813	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	42062	85743813	4610940	2442	15955											
FOXL1	2300	broad.mit.edu	37	chr16	86612389	86612389	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctcgcccatgctgtatctGtacggtcccgagagacccgg	6	8	12	15	4	1	1	0	0	1	1	3	3	2	1	4	2	2	3	4	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:86612389G>A	uc002fjr.2	+	1	275	c.60G>A	c.(58-60)CTG>CTA	p.L20L		NM_005250	NP_005241	Q12952	FOXL1_HUMAN	forkhead box L1	20					brain development|camera-type eye development|cartilage development|embryo development|forelimb morphogenesis|heart development|organ morphogenesis|pattern specification process|proteoglycan biosynthetic process|regulation of sequence-specific DNA binding transcription factor activity|regulation of Wnt receptor signaling pathway|visceral mesoderm-endoderm interaction involved in midgut development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1						TGCTGTATCTGTACGGTCCCG	0.706													35	52					0	0	0.007835	0	0		A	86612389	A	A	86612389	2	1	19	1	0	0	0	0	0	0	0	1	6030	1364	48	4		4	FOXL1	16	86612389	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	868576	86612389	3742364	2443	15956											
JPH3	57338	broad.mit.edu	37	chr16	87723329	87723329	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaccgggacacccctgcagCaggagagccccgagctgtac	9	3	12	17	2	0	1	0	0	0	1	0	4	0	2	6	2	5	4	6	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:87723329C>T	uc002fkd.2	+	4	1617	c.1363C>T	c.(1363-1365)CAG>TAG	p.Q455*	JPH3_uc010vou.1_RNA	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	455	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		ACCCCTGCAGCAGGAGAGCCC	0.607													11	33					0	0	0.013537	0	0		T	87723329	T	T	87723329	4	4	19	1	0	0	0	0	0	1	0	0	7978	711	25	2	1377	2	JPH3	16	87723329	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1110940	87723329	2631424	2444	15957											
BANP	54971	broad.mit.edu	37	chr16	88066729	88066729	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagagccgatgatgagcAccccacctcctgccagcgag	10	4	10	17	2	0	3	0	2	0	1	1	5	1	3	7	0	4	1	7	0	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:88066729A>G	uc002fkr.2	+	9	1275	c.1051A>G	c.(1051-1053)ACC>GCC	p.T351A	BANP_uc002fkp.2_Missense_Mutation_p.T321A|BANP_uc002fkq.2_Missense_Mutation_p.T321A|BANP_uc010vow.1_Missense_Mutation_p.T359A|BANP_uc002fks.3_Missense_Mutation_p.T320A|BANP_uc002fko.1_Missense_Mutation_p.T257A|BANP_uc010vov.1_Missense_Mutation_p.T326A	NM_079837	NP_524576	Q8N9N5	BANP_HUMAN	BTG3 associated nuclear protein isoform b	352	DNA-binding (By similarity).				cell cycle|chromatin modification|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0				BRCA - Breast invasive adenocarcinoma(80;0.00551)		GATGATGAGCACCCCACCTCC	0.652													4	31					0	0	0.009096	0	0		G	88066729	G	G	88066729	3	3	19	1	0	0	0	0	1	0	0	0	1311	159	6	3	1126	3	BANP	16	88066729	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	343400	88066729	2288024	2445	15958											
ACSF3	197322	broad.mit.edu	37	chr16	89167401	89167401	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctccttcctatgcgctaaCgatgcctcctacgtcgtggc	5	12	9	15	4	1	0	0	0	1	0	5	1	3	0	4	1	4	1	4	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:89167401C>T	uc002fmp.2	+	3	652	c.312C>T	c.(310-312)AAC>AAT	p.N104N	ACSF3_uc010cig.1_Silent_p.N104N|ACSF3_uc010cih.1_Intron|ACSF3_uc002fmq.1_RNA|ACSF3_uc010cii.1_RNA|ACSF3_uc002fmr.1_5'Flank	NM_174917	NP_777577	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3 precursor	104					fatty acid metabolic process	mitochondrion	acid-thiol ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0281)		TATGCGCTAACGATGCCTCCT	0.637													7	99					0	0	0.003954	0	0		T	89167401	T	T	89167401	2	4	19	1	0	0	0	0	0	0	0	1	176	535	19	1		1	ACSF3	16	89167401	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1100672	89167401	1187352	2446	15959											
ZNF778	197320	broad.mit.edu	37	chr16	89293827	89293827	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaaagcctgcggtgggttTtatctactgaatgagcatgg	9	11	15	6	1	1	2	0	2	1	0	1	3	1	3	1	4	4	2	1	4	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:89293827T>C	uc002fmv.2	+	6	1386	c.1047T>C	c.(1045-1047)TTT>TTC	p.F349F	ZNF778_uc010vpf.1_Intron|ZNF778_uc002fmw.1_Silent_p.F307F|ZNF778_uc010vpg.1_Silent_p.F112F	NM_182531	NP_872337	Q96MU6	ZN778_HUMAN	zinc finger protein 778	349	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0269)		GCGGTGGGTTTTATCTACTGA	0.448													4	141					0	0	0.009096	0	0		C	89293827	C	C	89293827	2	2	19	1	0	0	0	0	0	0	0	1	18176	1838	64	3		3	ZNF778	16	89293827	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	126426	89293827	1060926	2447	15960											
ANKRD11	29123	broad.mit.edu	37	chr16	89347285	89347285	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgggggaaggggaaggttTtgcttgtaaacttgagaaga	11	11	16	3	0	1	2	0	1	1	2	1	5	1	4	0	5	2	3	0	5	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:89347285T>C	uc002fmx.1	-	9	6126	c.5665A>G	c.(5665-5667)AAA>GAA	p.K1889E	ANKRD11_uc002fmy.1_Missense_Mutation_p.K1889E|ANKRD11_uc002fnc.1_Missense_Mutation_p.K1889E|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Missense_Mutation_p.K1846E	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1889	Pro-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		GGGGAAGGTTTTGCTTGTAAA	0.652													36	63					0	0	0.00874	0	0		C	89347285	C	C	89347285	3	2	19	1	0	0	0	0	1	0	0	0	639	1850	64	3	2346	3	ANKRD11	16	89347285	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	53458	89347285	1007468	2448	15961											
FANCA	2175	broad.mit.edu	37	chr16	89809286	89809286	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgaatcgcaaagtgcagTgcagcagctgagagccagtc	11	8	13	9	1	0	2	0	2	0	1	2	3	0	2	1	0	5	6	1	0	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:89809286T>C	uc002fou.1	-	37	3729	c.3687A>G	c.(3685-3687)GCA>GCG	p.A1229A	FANCA_uc010vpn.1_Silent_p.A1229A|FANCA_uc010vpo.1_Silent_p.A315A	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	1229					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		CAAAGTGCAGTGCAGCAGCTG	0.537			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				46	66					0	0	0.009718	0	0		C	89809286	C	C	89809286	2	2	19	1	0	0	0	0	0	0	0	1	5676	1683	59	3		3	FANCA	16	89809286	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	462001	89809286	545467	2449	15962											
CENPBD1	92806	broad.mit.edu	37	chr16	90038141	90038141	+	Frame_Shift_Del	DEL	T	-	-																															tatttgtgaactcgctttgaTtttttctttactatctcgaa																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:90038141delT	uc002fpr.2	-	1	802	c.190delA	c.(190-192)ATCfs	p.I64fs	AFG3L1_uc002fps.1_5'Flank|AFG3L1_uc002fpt.1_5'Flank|AFG3L1_uc002fpu.1_5'Flank|AFG3L1_uc002fpv.1_5'Flank|AFG3L1_uc002fpw.1_5'Flank|AFG3L1_uc002fpx.1_5'Flank	NM_145039	NP_659476	B2RD01	CENP1_HUMAN	CENPB DNA-binding domains containing 1	64	HTH psq-type.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						CTCGCTTTGATTTTTTCTTTA	0.488													14	28	---	---	---	---						.	-	90038141	-	-	90038141	7	5	19	1	0	1	0	1	0	0	0	0	3231	1493	52	0	377	0	CENPBD1	16	90038141	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	228855	90038141	316612	2450	15963											
GEMIN4	50628	broad.mit.edu	37	chr17	650110	650110	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctgttcttcagcaccgtGctcgttttcctcaggaagtc	5	13	9	14	2	3	0	2	0	1	0	6	1	4	1	3	1	2	4	3	1	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:650110G>A	uc002frs.1	-	2	1292	c.1173C>T	c.(1171-1173)AGC>AGT	p.S391S	GEMIN4_uc010vqa.1_3'UTR	NM_015721	NP_056536	P57678	GEMI4_HUMAN	gemin 4	391					rRNA processing|spliceosomal snRNP assembly	Cajal body|cytosol|nucleolus|small nuclear ribonucleoprotein complex|spliceosomal complex	protein binding			ovary(2)|kidney(1)|skin(1)	4		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		TCAGCACCGTGCTCGTTTTCC	0.567													5	119					0	0	0.001168	0	0		A	650110	A	A	650110	2	1	19	1	0	0	0	0	0	0	0	1	6345	1310	46	2		2	GEMIN4	17	650110	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08		650110	80545100	2451	15964											
MYO1C	4641	broad.mit.edu	37	chr17	1386228	1386228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggggctgggcaggtctctGcatagaactgcagcagcctc	7	7	15	12	1	1	1	0	0	1	1	3	1	1	1	1	4	5	5	1	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:1386228G>A	uc002fsp.2	-	4	693	c.473C>T	c.(472-474)GCA>GTA	p.A158V	MYO1C_uc002fsn.2_Missense_Mutation_p.A139V|MYO1C_uc002fso.2_Missense_Mutation_p.A123V|MYO1C_uc010vqj.1_Missense_Mutation_p.A123V|MYO1C_uc010vqk.1_Missense_Mutation_p.A134V	NM_001080779	NP_001074248	O00159	MYO1C_HUMAN	myosin IC isoform a	158	Myosin head-like.				mRNA transport|protein transport|transmembrane transport	basal plasma membrane|cytoplasm|filamentous actin|lateral plasma membrane|nuclear pore|nucleolus|nucleoplasm|stereocilium membrane	actin binding|ATP binding|calmodulin binding|motor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GCAGGTCTCTGCATAGAACTG	0.682													5	10					0	0	0.000602	0	0		A	1386228	A	A	1386228	3	1	19	1	0	0	0	0	1	0	0	0	10088	1319	46	2	2834	2	MYO1C	17	1386228	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	736118	1386228	79808982	2452	15965											
SERPINF2	5345	broad.mit.edu	37	chr17	1650779	1650779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccggaagacaccgtgttgCttctcctcaacgccatccac	8	9	8	16	3	2	1	1	0	1	1	4	2	3	2	5	1	3	2	5	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:1650779C>T	uc002ftk.1	+	7	765	c.688C>T	c.(688-690)CTT>TTT	p.L230F	SERPINF2_uc010vqr.1_Missense_Mutation_p.L166F	NM_000934	NP_000925	P08697	A2AP_HUMAN	alpha-2-antiplasmin isoform a precursor	230					acute-phase response|fibrinolysis|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)	Streptokinase(DB00086)	CACCGTGTTGCTTCTCCTCAA	0.557													9	21					0	0	0.004482	0	0		T	1650779	T	T	1650779	3	4	19	1	0	0	0	0	1	0	0	0	14140	797	28	2	720	2	SERPINF2	17	1650779	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	264551	1650779	79544431	2453	15966											
METT10D	79066	broad.mit.edu	37	chr17	2324091	2324091	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccttccgccgtctccgaGcgcagaggtgatgctttgag	6	10	13	12	4	1	3	0	2	1	1	3	4	2	3	4	1	3	2	4	1	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:2324091G>C	uc002fut.2	-	9	1144	c.996C>G	c.(994-996)CGC>CGG	p.R332R	METT10D_uc002fuu.3_RNA|METT10D_uc010cka.2_RNA|METT10D_uc002fuv.2_Intron|METT10D_uc010vqx.1_RNA|METT10D_uc010vqy.1_Silent_p.R114R	NM_024086	NP_076991	Q86W50	MET16_HUMAN	methyltransferase 10 domain containing	332							methyltransferase activity				0						CCGTCTCCGAGCGCAGAGGTG	0.448													147	277					0	0	0.01441	0	0		C	2324091	C	C	2324091	2	2	19	1	0	0	0	0	0	0	0	1	9508	958	34	5		5	METT10D	17	2324091	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	673312	2324091	78871119	2454	15967											
KIAA0664	23277	broad.mit.edu	37	chr17	2595724	2595724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcgcgttctccaggaagCgcagcgacaggtcgtactcc	8	6	12	15	5	1	0	0	0	1	0	4	2	2	1	3	2	4	3	3	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:2595724C>T	uc002fuy.1	-	22	3460	c.3374G>A	c.(3373-3375)CGC>CAC	p.R1125H	KIAA0664_uc002fux.1_Missense_Mutation_p.R1058H|KIAA0664_uc010ckc.1_Missense_Mutation_p.R111H	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	1125	TPR 3.						binding			breast(2)	2						CTCCAGGAAGCGCAGCGACAG	0.697													7	19					0	0	0.006214	0	0		T	2595724	T	T	2595724	3	4	19	1	0	0	0	0	1	0	0	0	8205	768	27	1	575	1	KIAA0664	17	2595724	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	271633	2595724	78599486	2455	15968											
KIAA0664	23277	broad.mit.edu	37	chr17	2606624	2606624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaccaaccttccaccacacGcagcacagagccctcctgca	12	4	6	19	1	0	2	0	0	0	2	2	2	2	2	6	0	4	3	6	0	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:2606624G>A	uc002fuy.1	-	3	435	c.349C>T	c.(349-351)CGT>TGT	p.R117C	KIAA0664_uc002fux.1_Missense_Mutation_p.R49C	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	117							binding			breast(2)	2						TCCACCACACGCAGCACAGAG	0.657													3	18					0	0	0.009096	0	0		A	2606624	A	A	2606624	3	1	19	1	0	0	0	0	1	0	0	0	8205	1087	38	1	3676	1	KIAA0664	17	2606624	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	10900	2606624	78588586	2456	15969											
P2RX5	5026	broad.mit.edu	37	chr17	3594321	3594321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacaaaaaagacgttctctcCctaaggaaccagagaggcac	16	5	8	12	1	1	2	0	0	1	2	3	4	2	3	2	2	1	2	2	2	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:3594321C>T	uc002fwi.2	-	3	573	c.289G>A	c.(289-291)GGA>AGA	p.G97R	P2RX5_uc002fwd.2_RNA|P2RX5_uc002fwh.1_Missense_Mutation_p.G97R|P2RX5_uc010vrx.1_Intron|P2RX5_uc002fwj.2_Intron|P2RX5_uc002fwk.2_Missense_Mutation_p.G97R|P2RX5_uc002fwl.2_Intron|P2RX5_uc002fwm.1_Missense_Mutation_p.G97R	NM_002561	NP_002552	Q93086	P2RX5_HUMAN	purinergic receptor P2X5 isoform A	97	Extracellular (Potential).			GE -> EK (in Ref. 1; AAB08576).	nervous system development|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						ACGTTCTCTCCCTAAGGAACC	0.592													3	12					0	0	0.009096	0	0		T	3594321	T	T	3594321	3	4	19	1	0	0	0	0	1	0	0	0	11362	637	22	4	1023	4	P2RX5	17	3594321	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	987697	3594321	77600889	2457	15970											
C17orf85	55421	broad.mit.edu	37	chr17	3721814	3721814	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctcttcctcttcctcCtcctcctcctcttcctcctc	0	18	0	23	0	4	0	0	0	4	0	14	0	13	0	9	0	0	0	9	0	0	4	rs143045118		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:3721814C>T	uc010ckl.1	-	10	1076	c.1053G>A	c.(1051-1053)GAG>GAA	p.E351E	C17orf85_uc002fwr.2_Silent_p.E61E|C17orf85_uc002fwq.2_Silent_p.E71E	NM_001114118	NP_001107590	Q53F19	CQ085_HUMAN	ELG protein isoform a	351	Glu-rich.						nucleotide binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (3;0.0725)		cctcttcctcctcctcctcct	0.368													8	152					0	0	0.00308	0	0		T	3721814	T	T	3721814	2	4	19	1	0	0	0	0	0	0	0	1	1891	680	24	4		4	C17orf85	17	3721814	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	127493	3721814	77473396	2458	15971											
CAMKK1	84254	broad.mit.edu	37	chr17	3776731	3776731	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacaaagcagtacaacgtgAcgccagtggcccatacatcc	14	5	9	13	2	0	2	0	1	0	1	1	2	1	2	3	1	4	2	3	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:3776731A>G	uc002fwt.2	-	11	1116	c.1022T>C	c.(1021-1023)GTC>GCC	p.V341A	CAMKK1_uc002fwu.2_Missense_Mutation_p.V341A|CAMKK1_uc002fwv.2_Missense_Mutation_p.V379A	NM_172206	NP_757343	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase 1	341	Protein kinase.				synaptic transmission	cytosol|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1				LUAD - Lung adenocarcinoma(2;2.11e-05)|Lung(3;0.0176)		GTACAACGTGACGCCAGTGGC	0.627													13	237					0	0	0.004007	0	0		G	3776731	G	G	3776731	3	3	19	1	0	0	0	0	1	0	0	0	2609	275	10	3	523	3	CAMKK1	17	3776731	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	54917	3776731	77418479	2459	15972											
ATP2A3	489	broad.mit.edu	37	chr17	3844275	3844275	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcctcaccatagcagtgAtctcgttaaaggactgcagg	10	9	12	10	1	2	1	1	1	1	0	3	2	2	2	2	3	2	3	2	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:3844275A>G	uc002fxb.1	-	14	2241	c.2090T>C	c.(2089-2091)ATC>ACC	p.I697T	ATP2A3_uc002fwx.1_Missense_Mutation_p.I697T|ATP2A3_uc002fwy.1_Missense_Mutation_p.I697T|ATP2A3_uc002fwz.1_Missense_Mutation_p.I697T|ATP2A3_uc002fxa.1_Missense_Mutation_p.I697T|ATP2A3_uc002fxc.1_Missense_Mutation_p.I697T|ATP2A3_uc002fxd.1_Missense_Mutation_p.I697T	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	697	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		CATAGCAGTGATCTCGTTAAA	0.657													7	194					0	0	0.00308	0	0		G	3844275	G	G	3844275	3	3	19	1	0	0	0	0	1	0	0	0	1139	333	12	3	1152	3	ATP2A3	17	3844275	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	67544	3844275	77350935	2460	15973											
ANKFY1	51479	broad.mit.edu	37	chr17	4080582	4080582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccacatgaaggaaattccGgcccttgttatccacctaca	11	10	7	13	1	0	1	0	1	0	0	2	2	2	2	5	2	2	1	5	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:4080582G>A	uc002fxq.1	-	19	2652	c.2614C>T	c.(2614-2616)CGG>TGG	p.R872W	ANKFY1_uc002fxn.2_Missense_Mutation_p.R914W|ANKFY1_uc002fxo.2_Missense_Mutation_p.R873W|ANKFY1_uc002fxp.2_Missense_Mutation_p.R871W|ANKFY1_uc010ckp.2_Missense_Mutation_p.R814W	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	872	ANK 16.					endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						AGGAAATTCCGGCCCTTGTTA	0.458													50	95					0	0	0.01441	0	0		A	4080582	A	A	4080582	3	1	19	1	0	0	0	0	1	0	0	0	626	1115	39	1	923	1	ANKFY1	17	4080582	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	236307	4080582	77114628	2461	15974											
MYBBP1A	10514	broad.mit.edu	37	chr17	4448930	4448930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaattagctgcagggcacgcGgggtcaggtgggagcagatg	9	6	19	7	2	1	1	1	0	0	1	1	3	1	2	0	5	3	4	0	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:4448930G>A	uc002fyb.3	-	15	2110	c.2048C>T	c.(2047-2049)CCG>CTG	p.P683L	MYBBP1A_uc002fxz.3_Missense_Mutation_p.P683L|MYBBP1A_uc010vsa.1_5'Flank	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	683					nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						CAGGGCACGCGGGGTCAGGTG	0.647													14	29					0	0	0.004007	0	0		A	4448930	A	A	4448930	3	1	19	1	0	0	0	0	1	0	0	0	10026	1116	39	1	2026	1	MYBBP1A	17	4448930	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	368348	4448930	76746280	2462	15975											
CXCL16	58191	broad.mit.edu	37	chr17	4638556	4638556	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggttctccccagcctcAggcccagctgccagactgtg	5	10	10	16	0	3	1	1	0	2	1	4	1	3	1	5	2	3	2	5	2	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:4638556A>G	uc002fyr.3	-	4	1138	c.606T>C	c.(604-606)CCT>CCC	p.P202P	CXCL16_uc002fyq.3_Silent_p.P44P|CXCL16_uc002fys.3_Silent_p.P202P	NM_022059	NP_071342	Q9H2A7	CXL16_HUMAN	chemokine (C-X-C motif) ligand 16	183	Extracellular (Potential).				lymphocyte chemotaxis|positive regulation of cell growth|positive regulation of cell migration|receptor-mediated endocytosis|response to interferon-gamma|response to tumor necrosis factor	extracellular space|integral to membrane|plasma membrane	chemokine activity|low-density lipoprotein receptor activity|scavenger receptor activity				0						CCCCAGCCTCAGGCCCAGCTG	0.592													10	19					0	0	0.003163	0	0		G	4638556	G	G	4638556	2	3	19	1	0	0	0	0	0	0	0	1	4086	175	7	3		3	CXCL16	17	4638556	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	189626	4638556	76556654	2463	15976											
CXCL16	58191	broad.mit.edu	37	chr17	4638666	4638666	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggtggggcgctgagtggActgcaaggtggacaggagca	9	5	21	6	1	0	1	0	1	0	0	0	5	0	4	0	7	2	3	0	7	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:4638666A>G	uc002fyr.3	-	4	1028	c.496T>C	c.(496-498)TCC>CCC	p.S166P	CXCL16_uc002fyq.3_Missense_Mutation_p.S8P|CXCL16_uc002fys.3_Missense_Mutation_p.S166P	NM_022059	NP_071342	Q9H2A7	CXL16_HUMAN	chemokine (C-X-C motif) ligand 16	147	Extracellular (Potential).				lymphocyte chemotaxis|positive regulation of cell growth|positive regulation of cell migration|receptor-mediated endocytosis|response to interferon-gamma|response to tumor necrosis factor	extracellular space|integral to membrane|plasma membrane	chemokine activity|low-density lipoprotein receptor activity|scavenger receptor activity				0						CGCTGAGTGGACTGCAAGGTG	0.577													22	55					0	0	0.004656	0	0		G	4638666	G	G	4638666	3	3	19	1	0	0	0	0	1	0	0	0	4086	275	10	3	333	3	CXCL16	17	4638666	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	110	4638666	76556544	2464	15977											
PLD2	5338	broad.mit.edu	37	chr17	4712400	4712400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccatcctttccacagatttgCcgttgcctattctccagccc	6	13	5	17	1	1	1	0	0	1	1	4	1	3	1	7	0	3	1	7	0	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:4712400C>T	uc002fzc.2	+	5	490	c.389C>T	c.(388-390)GCC>GTC	p.A130V	PLD2_uc010vsj.1_5'UTR|PLD2_uc002fzd.2_Missense_Mutation_p.A130V	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	130	PX.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	CACAGATTTGCCGTTGCCTAT	0.567													53	166					0	0	0.01441	0	0		T	4712400	T	T	4712400	3	4	19	1	0	0	0	0	1	0	0	0	12065	739	26	2	403	2	PLD2	17	4712400	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	73734	4712400	76482810	2465	15978											
CHRNE	1145	broad.mit.edu	37	chr17	4802167	4802167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcaagggcattccccatgCgcacccagtcggacacttcc	8	8	9	16	2	1	0	1	0	0	0	4	1	3	1	4	2	1	2	4	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:4802167C>T	uc002fzk.1	-	12	1357	c.1346G>A	c.(1345-1347)CGC>CAC	p.R449H	C17orf107_uc010ckr.2_5'Flank|C17orf107_uc002fzl.3_5'Flank	NM_000080	NP_000071	Q04844	ACHE_HUMAN	nicotinic acetylcholine receptor epsilon	449	Cytoplasmic (Potential).				muscle contraction|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						ATTCCCCATGCGCACCCAGTC	0.627													3	7					0	0	0.004672	0	0		T	4802167	T	T	4802167	3	4	19	1	0	0	0	0	1	0	0	0	3398	768	27	1	139	1	CHRNE	17	4802167	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	89767	4802167	76393043	2466	15979											
SPAG7	9552	broad.mit.edu	37	chr17	4863086	4863086	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttattggcctgtagcatGtgggctgcgtctttggctgc	3	15	14	9	1	2	0	0	0	2	0	2	0	2	0	1	3	3	4	1	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:4863086G>A	uc002gae.2	-	6	576	c.543C>T	c.(541-543)CAC>CAT	p.H181H	SPAG7_uc002gad.2_Silent_p.H130H|SPAG7_uc002gaf.2_Silent_p.H181H	NM_004890	NP_004881	O75391	SPAG7_HUMAN	sperm associated antigen 7	181						nucleus	nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)	2						CCTGTAGCATGTGGGCTGCGT	0.642													6	184					0	0	0.004482	0	0		A	4863086	A	A	4863086	2	1	19	1	0	0	0	0	0	0	0	1	15008	1368	48	4		4	SPAG7	17	4863086	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	60919	4863086	76332124	2467	15980											
CAMTA2	23125	broad.mit.edu	37	chr17	4873216	4873216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtactttcggaaggccGtctggatgactcgggcagcc	6	10	13	12	3	1	1	0	1	1	0	3	3	1	3	3	4	2	2	3	4	2	3	rs150374823		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:4873216G>A	uc002gah.1	-	18	3278	c.3170C>T	c.(3169-3171)ACG>ATG	p.T1057M	SPAG7_uc002gad.2_5'Flank|SPAG7_uc002gae.2_5'Flank|SPAG7_uc002gaf.2_5'Flank|CAMTA2_uc010cku.1_Missense_Mutation_p.T1080M|CAMTA2_uc002gag.1_Missense_Mutation_p.T1056M|CAMTA2_uc002gai.1_Missense_Mutation_p.T1059M	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	1057	IQ 1.				cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						TCGGAAGGCCGTCTGGATGAC	0.547													111	218					0	0	0.01441	0	0		A	4873216	A	A	4873216	3	1	19	1	0	0	0	0	1	0	0	0	2617	1145	40	1	512	1	CAMTA2	17	4873216	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	10130	4873216	76321994	2468	15981											
USP6	9098	broad.mit.edu	37	chr17	5037186	5037186	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccctgccctacagatcaTgaaggagaggggcaagaggt	11	6	15	9	0	1	4	1	1	0	3	1	5	1	4	2	5	2	1	2	5	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:5037186T>C	uc002gau.1	+	15	2619	c.389T>C	c.(388-390)ATG>ACG	p.M130T	USP6_uc002gav.1_Missense_Mutation_p.M130T|USP6_uc010ckz.1_5'UTR|USP6_uc002gaw.2_Missense_Mutation_p.M191T|uc002gay.1_5'Flank|uc002gba.2_5'Flank|uc002gbb.2_RNA	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	130	Rab-GAP TBC.				protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						CTACAGATCATGAAGGAGAGG	0.552			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								14	181					0	0	0.007413	0	0		C	5037186	C	C	5037186	3	2	19	1	0	0	0	0	1	0	0	0	17112	1464	51	3	411	3	USP6	17	5037186	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	163970	5037186	76158024	2469	15982											
USP6	9098	broad.mit.edu	37	chr17	5049390	5049391	+	Frame_Shift_Ins	INS	-	A	A																															gatgaaaagtacacaggtttINSaaaaaaacagctgagggatc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:5049390_5049391insA	uc002gau.1	+	28	4470_4471	c.2240_2241insA	c.(2239-2241)TTAfs	p.L747fs	USP6_uc002gav.1_Frame_Shift_Ins_p.L747fs|USP6_uc010ckz.1_Frame_Shift_Ins_p.L430fs	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	747					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						TACACAGGTTTAAAAAAACAGC	0.351			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								49	106	---	---	---	---						.	A	5049391	A	A	5049390	7	5	19	1	0	1	1	0	0	0	0	0	17112	1764	61	0	2314	0	USP6	17	5049390	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	12204	5049390	76145820	2470	15983											
PITPNM3	83394	broad.mit.edu	37	chr17	6387608	6387608	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaaggaaacccggtacagTtctcctgcagagggaaagag	13	6	12	10	1	2	2	1	0	1	2	3	4	2	4	2	3	3	3	2	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:6387608T>C	uc002gdd.3	-	5	430	c.279A>G	c.(277-279)GAA>GAG	p.E93E	PITPNM3_uc010cln.2_Silent_p.E57E|PITPNM3_uc002gdc.3_5'Flank	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	93					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		CCCGGTACAGTTCTCCTGCAG	0.602													50	134					0	0	0.01441	0	0		C	6387608	C	C	6387608	2	2	19	1	0	0	0	0	0	0	0	1	11971	1722	60	3		3	PITPNM3	17	6387608	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1338218	6387608	74807602	2471	15984											
SLC13A5	284111	broad.mit.edu	37	chr17	6604366	6604366	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagccacagccaggcgaacaGcagcatcaccagcatgttgg	12	4	12	13	1	1	0	1	0	0	0	1	2	1	0	3	2	6	4	3	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:6604366G>A	uc002gdj.2	-	6	884	c.796C>T	c.(796-798)CTG>TTG	p.L266L	SLC13A5_uc010vtf.1_Silent_p.L266L|SLC13A5_uc010clq.2_Silent_p.L223L|SLC13A5_uc002gdk.2_Silent_p.L249L|SLC13A5_uc002gdl.1_Silent_p.L248L	NM_177550	NP_808218	Q86YT5	S13A5_HUMAN	solute carrier family 13, member 5 isoform a	266	Helical; (Potential).					integral to membrane	citrate transmembrane transporter activity				0						CAGGCGAACAGCAGCATCACC	0.483													4	45					0	0	0.009096	0	0		A	6604366	A	A	6604366	2	1	19	1	0	0	0	0	0	0	0	1	14420	962	34	2		2	SLC13A5	17	6604366	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	216758	6604366	74590844	2472	15985											
PHF23	79142	broad.mit.edu	37	chr17	7139443	7139443	+	Frame_Shift_Del	DEL	C	-	-																															gcacagggactggggcttcaCcccctaccactgttgccatc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:7139443delC	uc002gfa.2	-	4	1030	c.803delG	c.(802-804)GGTfs	p.G268fs	DVL2_uc002gez.1_5'Flank|DVL2_uc010vtr.1_5'Flank|DVL2_uc010clz.1_5'Flank|PHF23_uc010vtt.1_Frame_Shift_Del_p.G201fs|PHF23_uc010cma.2_Frame_Shift_Del_p.G138fs	NM_024297	NP_077273	Q9BUL5	PHF23_HUMAN	PHD finger protein 23	268							zinc ion binding				0						TGGGGCTTCACCCCCTACCAC	0.507													76	153	---	---	---	---						.	-	7139443	-	-	7139443	7	5	19	1	0	1	0	1	0	0	0	0	11854	507	18	0	416	0	PHF23	17	7139443	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	535077	7139443	74055767	2473	15986											
EIF5A	1984	broad.mit.edu	37	chr17	7214674	7214674	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatctgcccccagctgatTggcatccaggatgggtacct	7	10	10	14	0	1	1	0	1	1	0	2	2	2	2	5	3	3	3	5	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:7214674T>C	uc010vtv.1	+	4	513	c.276T>C	c.(274-276)ATT>ATC	p.I92I	EIF5A_uc002gfr.2_Silent_p.I122I|EIF5A_uc002gft.2_Silent_p.I92I|EIF5A_uc002gfu.2_Silent_p.I92I	NM_001970	NP_001961	P63241	IF5A1_HUMAN	eukaryotic translation initiation factor 5A	92					induction of apoptosis|mRNA export from nucleus|peptidyl-lysine modification to hypusine|positive regulation of cell proliferation|positive regulation of translational elongation|positive regulation of translational termination|post-translational protein modification|protein export from nucleus|translational frameshifting|transmembrane transport	annulate lamellae|cytosol|endoplasmic reticulum membrane|nuclear pore	protein N-terminus binding|ribosome binding|translation elongation factor activity|U6 snRNA binding				0						CCCAGCTGATTGGCATCCAGG	0.552													22	58					0	0	0.00278	0	0		C	7214674	C	C	7214674	2	2	19	1	0	0	0	0	0	0	0	1	5049	1800	63	3		3	EIF5A	17	7214674	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	75231	7214674	73980536	2474	15987											
KCTD11	147040	broad.mit.edu	37	chr17	7256323	7256323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caacctcaattcccaaggagGcggccactacttcatcgacc	11	7	7	16	2	2	0	2	0	0	0	4	2	3	1	4	3	2	0	4	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:7256323G>A	uc002gge.3	+	1	1116	c.62G>A	c.(61-63)GGC>GAC	p.G21D	TMEM95_uc002ggf.1_5'Flank|TMEM95_uc002ggg.1_5'Flank|TMEM95_uc002ggh.1_5'Flank	NM_001002914	NP_001002914	Q693B1	KCD11_HUMAN	potassium channel tetramerisation domain	21	BTB.				cell cycle|regulation of growth	voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		Prostate(122;0.157)				TCCCAAGGAGGCGGCCACTAC	0.632													24	60					0	0	0.00333	0	0		A	7256323	A	A	7256323	3	1	19	1	0	0	0	0	1	0	0	0	8114	1203	42	2	64	2	KCTD11	17	7256323	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	41649	7256323	73938887	2475	15988											
NLGN2	57555	broad.mit.edu	37	chr17	7318418	7318418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaagctgtggagtgtctgCgccggaagccctcccgggag	6	7	16	12	3	1	1	0	1	1	0	2	4	2	4	3	3	3	1	3	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:7318418C>T	uc002ggt.1	+	5	1061	c.988C>T	c.(988-990)CGC>TGC	p.R330C		NM_020795	NP_065846	Q8NFZ4	NLGN2_HUMAN	neuroligin 2 precursor	330	Extracellular (Potential).				cell-cell junction maintenance|neuron cell-cell adhesion|positive regulation of synaptogenesis|regulation of inhibitory postsynaptic membrane potential|synapse assembly	cell surface|integral to plasma membrane|postsynaptic membrane	neurexin binding|receptor activity			central_nervous_system(1)	1		Prostate(122;0.157)				GGAGTGTCTGCGCCGGAAGCC	0.657													16	44					0	0	0.010504	0	0		T	7318418	T	T	7318418	3	4	19	1	0	0	0	0	1	0	0	0	10481	768	27	1	1006	1	NLGN2	17	7318418	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	62095	7318418	73876792	2476	15989											
ZBTB4	57659	broad.mit.edu	37	chr17	7365936	7365936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgcccccgggccgctcagCagcatgcctctgcccgtggc	3	6	14	18	3	2	0	1	0	1	0	2	0	2	0	5	3	5	3	5	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:7365936C>T	uc002ghc.3	-	4	2615	c.2365G>A	c.(2365-2367)GCT>ACT	p.A789T	ZBTB4_uc002ghd.3_Missense_Mutation_p.A789T	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	789					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		GGCCGCTCAGCAGCATGCCTC	0.697													11	99					0	0	0.004007	0	0		T	7365936	T	T	7365936	3	4	19	1	0	0	0	0	1	0	0	0	17566	710	25	2	680	2	ZBTB4	17	7365936	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	47518	7365936	73829274	2477	15990											
AMAC1L3	643664	broad.mit.edu	37	chr17	7385573	7385573	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgctacttaaactgcgTggcgacccccttctgggacc	6	9	10	16	2	1	0	0	0	1	0	1	2	1	1	4	2	4	1	4	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:7385573T>C	uc010cmj.1	+	2	385	c.270T>C	c.(268-270)CGT>CGC	p.R90R	ZBTB4_uc002ghc.3_5'Flank|ZBTB4_uc002ghd.3_Intron|POLR2A_uc002ghe.2_5'Flank|POLR2A_uc002ghf.3_5'Flank	NM_001102614	NP_001096084	P0C7Q6	AMCL3_HUMAN	acyl-malonyl condensing enzyme 1-like 3	90	DUF6 1.					integral to membrane					0		Prostate(122;0.173)				TTAAACTGCGTGGCGACCCCC	0.577													75	253					0	0	0.01441	0	0		C	7385573	C	C	7385573	2	2	19	1	0	0	0	0	0	0	0	1	561	1683	59	3		3	AMAC1L3	17	7385573	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	19637	7385573	73809637	2478	15991											
TP53	7157	broad.mit.edu	37	chr17	7577120	7577120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggacaggcacaaacaCgcacctcaaagctgttccgt	12	6	8	15	2	1	0	1	0	0	0	3	1	3	1	3	2	2	4	3	2	2	1	rs28934576	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:7577120C>T	uc002gim.2	-	8	1012	c.818G>A	c.(817-819)CGT>CAT	p.R273H	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141H|TP53_uc010cng.1_Missense_Mutation_p.R141H|TP53_uc002gii.1_Missense_Mutation_p.R141H|TP53_uc010cnh.1_Missense_Mutation_p.R273H|TP53_uc010cni.1_Missense_Mutation_p.R273H|TP53_uc002gij.2_Missense_Mutation_p.R273H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(469)|p.R273C(394)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGCACAAACACGCACCTCAAA	0.542	R273H(NCIH1793_LUNG)|R273H(MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PANC1_PANCREAS)|R273H(NCIH508_LARGE_INTESTINE)|R273H(NCIH1975_LUNG)|R273H(U251MG_CENTRAL_NERVOUS_SYSTEM)|R273H(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273H(NCIH2405_LUNG)|R273H(HEC59_ENDOMETRIUM)|R273H(NCIH1155_LUNG)|R273H(HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(EN_ENDOMETRIUM)|R273H(SNB19_CENTRAL_NERVOUS_SYSTEM)|R273H(MDAMB468_BREAST)|R273H(SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW620_LARGE_INTESTINE)|R273H(SUIT2_PANCREAS)|R273H(SW480_LARGE_INTESTINE)|R273H(SKMEL30_SKIN)|R273H(OC314_OVARY)|R273H(HEC6_ENDOMETRIUM)|R273H(HT29_LARGE_INTESTINE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			10	29					0	0	0.008291	0	0		T	7577120	T	T	7577120	3	4	19	1	0	0	0	0	1	0	0	0	16407	536	19	1	468	1	TP53	17	7577120	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	191547	7577120	73618090	2479	15992											
TP53	7157	broad.mit.edu	37	chr17	7578427	7578427	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcacaacctccgtcatgTgctgtgactgcttgtagatg	7	12	10	12	1	2	2	2	1	0	1	3	2	3	2	3	0	3	3	3	0	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:7578427T>C	uc002gim.2	-	5	697	c.503A>G	c.(502-504)CAC>CGC	p.H168R	TP53_uc002gig.1_Missense_Mutation_p.H168R|TP53_uc002gih.2_Missense_Mutation_p.H168R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H36R|TP53_uc010cng.1_Missense_Mutation_p.H36R|TP53_uc002gii.1_Missense_Mutation_p.H36R|TP53_uc010cnh.1_Missense_Mutation_p.H168R|TP53_uc010cni.1_Missense_Mutation_p.H168R|TP53_uc002gij.2_Missense_Mutation_p.H168R|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.H75R|TP53_uc002gio.2_Missense_Mutation_p.H36R|TP53_uc010vug.1_Missense_Mutation_p.H129R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	168	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		QH -> HD (in a sporadic cancer; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|HM -> LI (in a sporadic cancer; somatic mutation).|QH -> YL (in a sporadic cancer; somatic mutation).|H -> Y (in sporadic cancers; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> V (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|H -> R (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|H -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H168R(12)|p.H168P(9)|p.H168Y(9)|p.0?(7)|p.H168L(5)|p.H168H(4)|p.H168fs*2(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.Y163fs*1(1)|p.P151_V173del23(1)|p.S149fs*72(1)|p.H168_M169>LI(1)|p.H168fs*13(1)|p.H168fs*5(1)|p.H168Q(1)|p.H168fs*69(1)|p.Q167fs*12(1)|p.H168D(1)|p.Q167_H168>HD(1)|p.H168N(1)|p.Q167_H168>YL(1)|p.H168fs*3(1)|p.H168fs*4(1)|p.Q165_M169delQSQHM(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CTCCGTCATGTGCTGTGACTG	0.652		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			13	43					0	0	0.007413	0	0		C	7578427	C	C	7578427	3	2	19	1	0	0	0	0	1	0	0	0	16407	1696	59	3	795	3	TP53	17	7578427	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1307	7578427	73616783	2480	15993											
CYB5D1	124637	broad.mit.edu	37	chr17	7761604	7761604	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaacgtcattggcacaggAatacaagggtaagggccaca	14	6	11	10	1	1	0	1	0	0	0	1	1	1	1	2	4	2	2	2	4	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:7761604A>G	uc002gjb.3	+	1	541	c.152A>G	c.(151-153)GAA>GGA	p.E51G	LSMD1_uc002giz.2_5'Flank|LSMD1_uc002gja.2_5'Flank|CYB5D1_uc010cnn.1_Missense_Mutation_p.E51G	NM_144607	NP_653208	Q6P9G0	CB5D1_HUMAN	cytochrome b5 domain containing 1	51	Cytochrome b5 heme-binding.						heme binding			skin(1)	1		all_cancers(10;0.11)|Prostate(122;0.219)				TTGGCACAGGAATACAAGGGT	0.607											OREG0024147	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	106					0	0	0.006214	0	0		G	7761604	G	G	7761604	3	3	19	1	0	0	0	0	1	0	0	0	4127	246	9	3	154	3	CYB5D1	17	7761604	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	183177	7761604	73433606	2481	15994											
CNTROB	116840	broad.mit.edu	37	chr17	7851037	7851037	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcctcaagaattttttgcaCcaggtaagagagattccacc	12	10	9	10	0	1	3	1	0	0	3	2	4	2	3	4	2	1	2	4	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:7851037C>T	uc002gjq.2	+	15	3061	c.2142C>T	c.(2140-2142)CAC>CAT	p.H714H	CNTROB_uc002gjp.2_Silent_p.H714H|CNTROB_uc002gjr.2_Silent_p.H616H	NM_053051	NP_444279	Q8N137	CNTRB_HUMAN	centrobin, centrosomal BRCA2 interacting protein	714	Pro-rich.|Required for centrosome localization.				centriole replication|centrosome separation|cytokinesis	centriole	protein domain specific binding			breast(1)|central_nervous_system(1)	2		Prostate(122;0.173)				ATTTTTTGCACCAGGTAAGAG	0.542													9	216					0	0	0.008291	0	0		T	7851037	T	T	7851037	2	4	19	1	0	0	0	0	0	0	0	1	3654	506	18	4		4	CNTROB	17	7851037	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	89433	7851037	73344173	2482	15995											
ALOXE3	59344	broad.mit.edu	37	chr17	8013711	8013711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgccgggctcacctggatggCcaagggcaccagcgccccct	6	4	13	18	3	1	0	1	0	0	0	1	1	1	1	6	4	1	2	6	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:8013711C>T	uc010cnr.2	-	9	1463	c.1093G>A	c.(1093-1095)GCC>ACC	p.A365T	ALOXE3_uc002gka.2_Missense_Mutation_p.A521T|ALOXE3_uc010vuo.1_Missense_Mutation_p.A497T|ALOXE3_uc010vup.1_RNA	NM_021628	NP_067641	Q9BYJ1	LOXE3_HUMAN	arachidonate lipoxygenase 3 isoform 2	365	Lipoxygenase.				leukotriene biosynthetic process		iron ion binding|lipoxygenase activity			skin(3)|lung(1)|central_nervous_system(1)	5						ACCTGGATGGCCAAGGGCACC	0.627											OREG0024154	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	15					0	0	0.006214	0	0		T	8013711	T	T	8013711	3	4	19	1	0	0	0	0	1	0	0	0	542	739	26	2	1074	2	ALOXE3	17	8013711	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	162674	8013711	73181499	2483	15996											
PER1	5187	broad.mit.edu	37	chr17	8049980	8049980	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctttcctctcggcctcCtcagggaccaaggctagtgg	5	11	11	14	1	3	0	1	0	2	0	6	1	5	1	4	4	0	2	4	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:8049980C>T	uc002gkd.2	-	15	2077	c.1839G>A	c.(1837-1839)GAG>GAA	p.E613E	PER1_uc010vuq.1_RNA|PER1_uc010vur.1_Silent_p.E597E	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	613	CSNK1E binding domain (By similarity).				circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						TCTCGGCCTCCTCAGGGACCA	0.632			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					3	66					0	0	0.009096	0	0		T	8049980	T	T	8049980	2	4	19	1	0	0	0	0	0	0	0	1	11748	680	24	4		4	PER1	17	8049980	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	36269	8049980	73145230	2484	15997											
AURKB	9212	broad.mit.edu	37	chr17	8108325	8108325	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtttggagatgaggtcctggGctcccatgggcacggaagcg	7	8	17	9	2	0	2	0	1	0	1	2	4	2	3	2	5	1	3	2	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:8108325G>A	uc002gkm.2	-	9	960	c.899C>T	c.(898-900)GCC>GTC	p.A300V	AURKB_uc010cnu.2_Missense_Mutation_p.A120V|AURKB_uc002gkn.2_Missense_Mutation_p.A301V|AURKB_uc010vuu.1_Missense_Mutation_p.A259V|AURKB_uc002gko.2_RNA	NM_004217	NP_004208	Q96GD4	AURKB_HUMAN	aurora kinase B	300	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|mitotic prometaphase|protein localization to kinetochore	chromosome passenger complex|condensed nuclear chromosome, centromeric region|cytosol|spindle	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(1)|central_nervous_system(1)	4						GAGGTCCTGGGCTCCCATGGG	0.602													12	44					0	0	0.004007	0	0		A	8108325	A	A	8108325	3	1	19	1	0	0	0	0	1	0	0	0	1224	1203	42	2	139	2	AURKB	17	8108325	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	58345	8108325	73086885	2485	15998											
C17orf68	80169	broad.mit.edu	37	chr17	8138088	8138088	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggaggggacagtgatgTggctcttcaaggatctcatt	8	13	13	7	0	4	1	2	1	3	0	5	4	4	4	0	5	0	1	0	5	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:8138088T>C	uc002gkq.3	-	9	1655	c.1596A>G	c.(1594-1596)CCA>CCG	p.P532P	C17orf68_uc010cnv.2_RNA	NM_025099	NP_079375	Q2NKJ3	CTC1_HUMAN	alpha accessory factor 132	532					positive regulation of DNA replication|telomere maintenance	Stn1-Ten1 complex	protein binding|single-stranded DNA binding				0						GACAGTGATGTGGCTCTTCAA	0.582													29	50					0	0	0.008361	0	0		C	8138088	C	C	8138088	2	2	19	1	0	0	0	0	0	0	0	1	1879	1683	59	3		3	C17orf68	17	8138088	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	29763	8138088	73057122	2486	15999											
NTN1	9423	broad.mit.edu	37	chr17	8926216	8926216	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacgtgggtgcccttccagTtctactccacgcagtgccgc	5	9	11	16	3	1	0	0	0	1	0	3	0	3	0	4	1	3	3	4	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:8926216T>C	uc002glw.3	+	2	633	c.526T>C	c.(526-528)TTC>CTC	p.F176L		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	176	Laminin N-terminal.				apoptosis|axon guidance		protein binding				0						GCCCTTCCAGTTCTACTCCAC	0.642													5	36					0	0	0.000602	0	0		C	8926216	C	C	8926216	3	2	19	1	0	0	0	0	1	0	0	0	10719	1725	60	3	528	3	NTN1	17	8926216	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	788128	8926216	72268994	2487	16000											
WDR16	146845	broad.mit.edu	37	chr17	9489252	9489252	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctccaggtctggagagtAcatcgcctccggacaagtca	10	8	10	13	2	3	1	1	0	2	1	6	3	4	2	3	3	1	1	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:9489252A>G	uc002gly.2	+	2	302	c.233A>G	c.(232-234)TAC>TGC	p.Y78C	WDR16_uc002glz.2_Intron|WDR16_uc010coc.2_Missense_Mutation_p.Y88C	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	78	WD 1.					cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						TCTGGAGAGTACATCGCCTCC	0.478													12	165					0	0	0.001855	0	0		G	9489252	G	G	9489252	3	3	19	1	0	0	0	0	1	0	0	0	17302	391	14	3	239	3	WDR16	17	9489252	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	563036	9489252	71705958	2488	16001											
MYH4	4622	broad.mit.edu	37	chr17	10366715	10366715	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatggatcctgatgaattTacccttaaaaaagaaaagga	20	9	7	5	0	0	3	0	2	0	1	1	5	1	5	2	2	1	0	2	2	9	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:10366715T>C	uc002gmn.2	-	9	856	c.745A>G	c.(745-747)AAA>GAA	p.K249E	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	249	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CTGATGAATTTACCCTTAAAA	0.323													7	62					0	0	0.004482	0	0		C	10366715	C	C	10366715	3	2	19	1	0	0	0	0	1	0	0	0	10055	1763	61	3	5202	3	MYH4	17	10366715	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	877463	10366715	70828495	2489	16002											
DNAH9	1770	broad.mit.edu	37	chr17	11656204	11656204	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcacccatgatgggcccaAgtggattttactggatggcg	9	10	12	10	1	1	1	1	1	0	0	1	3	1	3	2	4	1	0	2	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:11656204A>G	uc002gne.2	+	33	6733	c.6665A>G	c.(6664-6666)AAG>AGG	p.K2222R	DNAH9_uc010coo.2_Missense_Mutation_p.K1516R	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2222	AAA 2 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GATGGGCCCAAGTGGATTTTA	0.428													19	80					0	0	0.014323	0	0		G	11656204	G	G	11656204	3	3	19	1	0	0	0	0	1	0	0	0	4614	72	3	3	6795	3	DNAH9	17	11656204	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1289489	11656204	69539006	2490	16003											
ELAC2	60528	broad.mit.edu	37	chr17	12909071	12909071	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaccaggcatctcaccTctcttccttcatgagtgatg	11	11	7	12	0	3	3	2	2	2	1	6	3	4	3	3	1	1	1	3	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:12909071T>C	uc002gnz.3	-	10	964	c.869A>G	c.(868-870)GAG>GGG	p.E290G	ELAC2_uc002gnv.3_5'Flank|ELAC2_uc002gnw.3_5'Flank|ELAC2_uc002gnx.3_Missense_Mutation_p.E50G|ELAC2_uc010vvo.1_Missense_Mutation_p.E113G|ELAC2_uc010vvp.1_Missense_Mutation_p.E271G|ELAC2_uc010vvq.1_Missense_Mutation_p.E290G|ELAC2_uc010vvr.1_Missense_Mutation_p.E250G	NM_018127	NP_060597	Q9BQ52	RNZ2_HUMAN	elaC homolog 2 isoform 1	290					tRNA processing	nucleus	endonuclease activity|metal ion binding|protein binding				0						GCATCTCACCTCTCTTCCTTC	0.502									Hereditary_Prostate_Cancer				28	73					0	0	0.012213	0	0		C	12909071	C	C	12909071	3	2	19	1	0	0	0	0	1	0	0	0	5055	1565	54	3	1671	3	ELAC2	17	12909071	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1252867	12909071	68286139	2491	16004											
TRPV2	51393	broad.mit.edu	37	chr17	16338211	16338211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgttgccctcagggtggagGaggtgaactgggcttcatgg	6	10	17	8	0	2	1	2	1	0	0	2	3	2	3	1	6	2	2	1	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:16338211G>A	uc002gpy.2	+	14	2489	c.2122G>A	c.(2122-2124)GAG>AAG	p.E708K	TRPV2_uc002gpz.2_Missense_Mutation_p.E278K	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	708	Cytoplasmic (Potential).				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CAGGGTGGAGGAGGTGAACTG	0.637													25	60					0	0	0.00632	0	0		A	16338211	A	A	16338211	3	1	19	1	0	0	0	0	1	0	0	0	16622	1175	41	4	2172	4	TRPV2	17	16338211	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3429140	16338211	64856999	2492	16005											
ZNF287	57336	broad.mit.edu	37	chr17	16455634	16455634	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtgttctatgatgttgagTaagatttgcactctggctga	9	16	11	5	0	2	4	0	3	2	1	2	4	2	4	0	1	1	5	0	1	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:16455634T>C	uc002gqi.2	-	6	2275	c.1822A>G	c.(1822-1824)ACT>GCT	p.T608A		NM_020653	NP_065704	Q9HBT7	ZN287_HUMAN	zinc finger protein 287	601	C2H2-type 9.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.083)		TGATGTTGAGTAAGATTTGCA	0.408													15	98					0	0	0.00245	0	0		C	16455634	C	C	16455634	3	2	19	1	0	0	0	0	1	0	0	0	17850	1638	57	3	467	3	ZNF287	17	16455634	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	117423	16455634	64739576	2493	16006											
MPRIP	23164	broad.mit.edu	37	chr17	17046081	17046081	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgttccctaggaagcgggTgagctcctggggctgggcag	5	7	19	10	2	0	1	0	1	0	0	2	2	2	2	2	6	2	4	2	6	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:17046081T>C	uc002gqu.1	+	8	1091	c.1035_splice	c.e8+2	p.R345_splice	MPRIP_uc002gqv.1_Splice_Site_p.R345_splice|MPRIP_uc002gqw.1_Splice_Site_p.R138_splice	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein							cytoplasm|cytoskeleton	actin binding				0						AGGAAGCGGGTGAGCTCCTGG	0.677													4	68					0	0	0.009096	0	0		C	17046081	C	C	17046081	5	2	19	1	0	0	0	0	0	0	1	0	9761	1710	59	3	1067	3	MPRIP	17	17046081	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	590447	17046081	64149129	2494	16007											
RAI1	10743	broad.mit.edu	37	chr17	17698099	17698099	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acctggcctccgagatcctgGggctgcaggaagccatcggt	7	7	14	13	2	0	1	0	0	0	1	3	3	2	2	5	5	2	2	5	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:17698099G>T	uc002grm.2	+	3	2306	c.1837G>T	c.(1837-1839)GGG>TGG	p.G613W	RAI1_uc002grn.1_Missense_Mutation_p.G613W	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	613						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CGAGATCCTGGGGCTGCAGGA	0.652													27	53					1.39806e-14	1.47719e-14	0.008361	1	0		T	17698099	T	T	17698099	3	4	19	1	0	0	0	0	1	0	0	0	13032	1232	43	5	1839	5	RAI1	17	17698099	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	652018	17698099	63497111	2495	16008											
RAI1	10743	broad.mit.edu	37	chr17	17700169	17700169	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacccccgatgcctgcctcAagctcgcctctcgggcagcc	6	6	10	19	3	2	1	1	0	1	1	4	2	2	1	6	1	4	2	6	1	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:17700169A>T	uc002grm.2	+	3	4376	c.3907A>T	c.(3907-3909)AAG>TAG	p.K1303*	RAI1_uc002grn.1_Nonsense_Mutation_p.K1303*	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1303						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		TGCCTGCCTCAAGCTCGCCTC	0.637													12	143					0	0	0.006122	0	0		T	17700169	T	T	17700169	4	4	19	1	0	0	0	0	0	1	0	0	13032	131	5	5	3909	5	RAI1	17	17700169	Nonsense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2070	17700169	63495041	2496	16009											
RAI1	10743	broad.mit.edu	37	chr17	17700292	17700292	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcgcccagcctcaagaagTtcgcatgtaaagcgccaggg	10	6	11	14	3	1	1	1	0	0	1	3	1	1	1	4	1	2	3	4	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:17700292T>A	uc002grm.2	+	3	4499	c.4030T>A	c.(4030-4032)TTC>ATC	p.F1344I	RAI1_uc002grn.1_Missense_Mutation_p.F1344I	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1344						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CCTCAAGAAGTTCGCATGTAA	0.637													13	120					0	0	0.00245	0	0		A	17700292	A	A	17700292	3	1	19	1	0	0	0	0	1	0	0	0	13032	1725	60	5	4032	5	RAI1	17	17700292	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	123	17700292	63494918	2497	16010											
EPN2	22905	broad.mit.edu	37	chr17	19186549	19186549	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggggcccgtccagttctctGatgaccgagattgccgacct	6	10	12	13	3	1	3	0	2	1	1	3	5	2	3	5	2	1	1	5	2	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:19186549G>A	uc002gvd.3	+	3	565	c.117G>A	c.(115-117)CTG>CTA	p.L39L	EPN2_uc002gvc.2_Silent_p.L39L|EPN2_uc010vyn.1_Silent_p.L39L|EPN2_uc010cql.1_Intron|EPN2_uc002gve.3_Silent_p.L39L|EPN2_uc002gvf.3_Intron|EPN2_uc010vyo.1_Intron|EPN2_uc002gvg.1_Silent_p.L39L|EPN2_uc010vyp.1_Silent_p.L39L|EPN2_uc010vyq.1_Silent_p.L39L|EPN2_uc002gvh.1_Silent_p.L39L	NM_014964	NP_055779	O95208	EPN2_HUMAN	epsin 2 isoform b	39	ENTH.				endocytosis		lipid binding			skin(1)	1	all_cancers(12;3.11e-05)|all_epithelial(12;0.00121)|Hepatocellular(7;0.00345)|Breast(13;0.143)					CCAGTTCTCTGATGACCGAGA	0.547													35	82					0	0	0.004289	0	0		A	19186549	A	A	19186549	2	1	19	1	0	0	0	0	0	0	0	1	5194	1277	45	4		4	EPN2	17	19186549	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1486257	19186549	62008661	2498	16011											
MAPK7	5598	broad.mit.edu	37	chr17	19284780	19284780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgtccagatgttgaaatgCccagtccctgggctcccagt	7	10	11	13	0	0	2	0	1	0	1	3	2	3	2	4	1	1	3	4	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:19284780C>T	uc002gvn.2	+	4	1644	c.1258C>T	c.(1258-1260)CCC>TCC	p.P420S	MAPK7_uc002gvo.2_Missense_Mutation_p.P281S|MAPK7_uc002gvq.2_Missense_Mutation_p.P420S|MAPK7_uc002gvp.2_Missense_Mutation_p.P420S	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	420	May not be required for kinase activity; required to stimulate MEF2C activity (By similarity).|Pro-rich.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					TGTTGAAATGCCCAGTCCCTG	0.622													26	46					0	0	0.004656	0	0		T	19284780	T	T	19284780	3	4	19	1	0	0	0	0	1	0	0	0	9300	739	26	2	1268	2	MAPK7	17	19284780	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	98231	19284780	61910430	2499	16012											
ALDH3A2	224	broad.mit.edu	37	chr17	19555013	19555013	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atattcagccacagcctctgGgagtggtgctgataatcgga	10	10	12	9	1	2	1	1	1	1	0	3	3	2	3	2	3	3	1	2	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:19555013G>T	uc002gwb.1	+	2	528	c.307G>T	c.(307-309)GGA>TGA	p.G103*	ALDH3A2_uc002gwa.1_Nonsense_Mutation_p.G103*|ALDH3A2_uc010cqr.1_5'UTR|ALDH3A2_uc002gwc.1_Nonsense_Mutation_p.G103*	NM_000382	NP_000373	P51648	AL3A2_HUMAN	aldehyde dehydrogenase 3A2 isoform 2	103	Cytoplasmic.				cellular aldehyde metabolic process|central nervous system development|epidermis development|lipid metabolic process|peripheral nervous system development	endoplasmic reticulum membrane|integral to membrane	3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(2)	2	all_cancers(12;1.39e-05)|all_epithelial(12;0.00158)|Breast(13;0.245)				NADH(DB00157)	ACAGCCTCTGGGAGTGGTGCT	0.488													56	123					1.33661e-31	1.43518e-31	0.01441	1	0		T	19555013	T	T	19555013	4	4	19	1	0	0	0	0	0	1	0	0	498	1233	43	5	313	5	ALDH3A2	17	19555013	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	270233	19555013	61640197	2500	16013											
ALDH3A2	224	broad.mit.edu	37	chr17	19559709	19559709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgttattaatggtggtgttGaggaaaccacggagctcctg	9	13	13	6	1	0	1	0	1	0	0	1	3	1	3	2	4	2	3	2	4	3	4	rs75565573		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:19559709G>A	uc002gwb.1	+	4	723	c.502G>A	c.(502-504)GAG>AAG	p.E168K	ALDH3A2_uc002gwa.1_Missense_Mutation_p.E168K|ALDH3A2_uc010cqr.1_5'UTR|ALDH3A2_uc002gwc.1_Missense_Mutation_p.E168K|ALDH3A2_uc002gwd.1_5'UTR	NM_000382	NP_000373	P51648	AL3A2_HUMAN	aldehyde dehydrogenase 3A2 isoform 2	168	Cytoplasmic.				cellular aldehyde metabolic process|central nervous system development|epidermis development|lipid metabolic process|peripheral nervous system development	endoplasmic reticulum membrane|integral to membrane	3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(2)	2	all_cancers(12;1.39e-05)|all_epithelial(12;0.00158)|Breast(13;0.245)				NADH(DB00157)	TGGTGGTGTTGAGGAAACCAC	0.423													6	89					0	0	0.001984	0	0		A	19559709	A	A	19559709	3	1	19	1	0	0	0	0	1	0	0	0	498	1291	45	4	516	4	ALDH3A2	17	19559709	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4696	19559709	61635501	2501	16014											
CCDC144NL	339184	broad.mit.edu	37	chr17	20799282	20799282	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctcgtggcgtagactgccgGcttcggagaccccccagccc	5	6	12	18	4	0	2	0	0	0	2	2	3	0	2	6	3	2	2	6	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:20799282G>C	uc002gyf.2	-	1	172	c.52C>G	c.(52-54)CCG>GCG	p.P18A	uc002gyg.1_Intron|uc002gyh.1_Intron	NM_001004306	NP_001004306	Q6NUI1	C144L_HUMAN	coiled-coil domain containing 144 family,	18											0						TAGACTGCCGGCTTCGGAGAC	0.647											OREG0024248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	18					0	0	0.00308	0	0		C	20799282	C	C	20799282	3	2	19	1	0	0	0	0	1	0	0	0	2782	1203	42	5	629	5	CCDC144NL	17	20799282	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1239573	20799282	60395928	2502	16015											
USP22	23326	broad.mit.edu	37	chr17	20921306	20921306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacaggagctggggctctgCatctcacagcggtgcctgtc	7	8	14	12	1	2	1	1	0	2	1	4	2	2	2	1	4	4	3	1	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:20921306C>T	uc002gym.3	-	5	843	c.639G>A	c.(637-639)ATG>ATA	p.M213I	USP22_uc002gyn.3_Missense_Mutation_p.M201I|USP22_uc002gyl.3_Missense_Mutation_p.M108I	NM_015276	NP_056091	Q9UPT9	UBP22_HUMAN	ubiquitin thiolesterase 22	213					cell cycle|embryo development|histone deubiquitination|histone H4 acetylation|histone ubiquitination|positive regulation of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1						TGGGGCTCTGCATCTCACAGC	0.542													12	140					0	0	0.013537	0	0		T	20921306	T	T	20921306	3	4	19	1	0	0	0	0	1	0	0	0	17080	710	25	2	974	2	USP22	17	20921306	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	122024	20921306	60273904	2503	16016											
KSR1	8844	broad.mit.edu	37	chr17	25919448	25919448	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagaatatccttcctgccaCgtgagttttctgccttcctc	6	15	7	13	1	1	2	0	1	1	1	5	2	4	2	5	0	2	2	5	0	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:25919448C>T	uc010crg.2	+	8	1226	c.781C>T	c.(781-783)CTA>TTA	p.L261L	KSR1_uc002gzj.1_RNA|KSR1_uc002gzm.2_Silent_p.L62L	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	396					Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		CTTCCTGCCACGTGAGTTTTC	0.473													49	136					0	0	0.01441	0	0		T	25919448	T	T	25919448	2	4	19	1	0	0	0	0	0	0	0	1	8597	550	19	1		1	KSR1	17	25919448	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4998142	25919448	55275762	2504	16017											
KIAA0100	9703	broad.mit.edu	37	chr17	26960389	26960389	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacaggtggctccactcccAgtgcatattttcagttgtgt	8	13	10	10	0	1	1	1	0	0	1	3	1	3	1	2	2	1	3	2	2	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:26960389A>C	uc002hbu.2	-	19	3595	c.3496T>G	c.(3496-3498)TGG>GGG	p.W1166G		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	1166						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					CTCCACTCCCAGTGCATATTT	0.458													52	100					0	0	0.01441	0	0		C	26960389	C	C	26960389	3	2	19	1	0	0	0	0	1	0	0	0	8170	188	7	5	3295	5	KIAA0100	17	26960389	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1040941	26960389	54234821	2505	16018											
KIAA0100	9703	broad.mit.edu	37	chr17	26964956	26964956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagagtgcctagagacagCtgacttcccagattgtggac	11	9	12	9	0	0	5	0	2	0	3	1	7	1	6	2	1	2	1	2	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:26964956C>T	uc002hbu.2	-	14	1768	c.1669G>A	c.(1669-1671)GCT>ACT	p.A557T		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	557						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					CTAGAGACAGCTGACTTCCCA	0.473													6	53					0	0	0.001168	0	0		T	26964956	T	T	26964956	3	4	19	1	0	0	0	0	1	0	0	0	8170	797	28	2	5142	2	KIAA0100	17	26964956	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4567	26964956	54230254	2506	16019											
ERAL1	26284	broad.mit.edu	37	chr17	27185617	27185617	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgtttgaagcagaagtcAgttctcctggagctcacggc	9	11	12	9	1	3	2	2	1	1	1	4	4	3	3	1	2	2	4	1	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:27185617A>G	uc002hcy.1	+	7	745	c.735A>G	c.(733-735)TCA>TCG	p.S245S	ERAL1_uc002hcz.1_RNA|ERAL1_uc002hda.1_Silent_p.S52S|ERAL1_uc002hdb.1_Silent_p.S128S	NM_005702	NP_005693	O75616	ERAL1_HUMAN	Era-like 1	245					ribosomal small subunit assembly	mitochondrial inner membrane|mitochondrial matrix	GTP binding|ribosomal small subunit binding|rRNA binding			skin(1)	1	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;1.12e-05)|all cancers(11;5.32e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.105)			AGCAGAAGTCAGTTCTCCTGG	0.557													14	256					0	0	0.00245	0	0		G	27185617	G	G	27185617	2	3	19	1	0	0	0	0	0	0	0	1	5210	175	7	3		3	ERAL1	17	27185617	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	220661	27185617	54009593	2507	16020											
PIPOX	51268	broad.mit.edu	37	chr17	27380576	27380576	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggtccttggaccaaccAgctcctccgtcccctgggca	7	7	10	17	1	0	0	0	0	0	0	4	1	4	1	7	3	3	3	7	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:27380576A>G	uc002hdr.1	+	4	949	c.623A>G	c.(622-624)CAG>CGG	p.Q208R		NM_016518	NP_057602	Q9P0Z9	SOX_HUMAN	pipecolic acid oxidase	208					tetrahydrofolate metabolic process	peroxisome	L-pipecolate oxidase activity|sarcosine oxidase activity				0	Lung NSC(42;0.015)		Epithelial(11;9.87e-06)|BRCA - Breast invasive adenocarcinoma(11;3.92e-05)|all cancers(11;5.59e-05)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)		Glycine(DB00145)	TGGACCAACCAGCTCCTCCGT	0.493													8	123					0	0	0.010729	0	0		G	27380576	G	G	27380576	3	3	19	1	0	0	0	0	1	0	0	0	11962	188	7	3	637	3	PIPOX	17	27380576	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	194959	27380576	53814634	2508	16021											
MYO18A	399687	broad.mit.edu	37	chr17	27420384	27420384	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctccagctcccgcttcTctcgcagaaccttctgcttg	4	12	7	18	2	2	1	0	0	2	1	6	1	4	1	4	0	4	4	4	0	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:27420384T>G	uc002hdt.1	-	32	5041	c.4883A>C	c.(4882-4884)GAG>GCG	p.E1628A	MYO18A_uc010wbc.1_Missense_Mutation_p.E1161A|MYO18A_uc002hds.2_Missense_Mutation_p.E1170A|MYO18A_uc010csa.1_Missense_Mutation_p.E1591A|MYO18A_uc002hdu.1_Missense_Mutation_p.E1628A	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	1628	Potential.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CTCCCGCTTCTCTCGCAGAAC	0.612													16	14					0	0	0.006122	0	0		G	27420384	G	G	27420384	3	3	19	1	0	0	0	0	1	0	0	0	10083	1551	54	5	1325	5	MYO18A	17	27420384	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	39808	27420384	53774826	2509	16022											
MYO18A	399687	broad.mit.edu	37	chr17	27437032	27437032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggcgggaggaggcggaacGgggctccccagcccagccct	6	3	17	15	4	0	0	0	0	0	0	2	3	1	3	4	7	3	1	4	7	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:27437032G>A	uc002hdt.1	-	19	3333	c.3175C>T	c.(3175-3177)CGT>TGT	p.R1059C	MYO18A_uc010wbc.1_Missense_Mutation_p.R601C|MYO18A_uc002hds.2_Missense_Mutation_p.R601C|MYO18A_uc010csa.1_Missense_Mutation_p.R1059C|MYO18A_uc002hdu.1_Missense_Mutation_p.R1059C|MYO18A_uc010wbd.1_Missense_Mutation_p.R728C	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	1059	Myosin head-like.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			GAGGCGGAACGGGGCTCCCCA	0.652													5	6					0	0	0.001984	0	0		A	27437032	A	A	27437032	3	1	19	1	0	0	0	0	1	0	0	0	10083	1116	39	1	3085	1	MYO18A	17	27437032	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	16648	27437032	53758178	2510	16023											
MYO18A	399687	broad.mit.edu	37	chr17	27447649	27447649	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcacctgaatggaggctgaGgccacctggccagcttggtc	7	8	13	13	0	1	2	1	2	0	0	2	3	1	3	4	5	1	2	4	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:27447649G>A	uc002hdt.1	-	7	1871	c.1713C>T	c.(1711-1713)GCC>GCT	p.A571A	MYO18A_uc010wbc.1_Silent_p.A113A|MYO18A_uc002hds.2_Silent_p.A113A|MYO18A_uc010csa.1_Silent_p.A571A|MYO18A_uc002hdu.1_Silent_p.A571A|MYO18A_uc010wbd.1_Silent_p.A240A	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	571	Myosin head-like.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			TGGAGGCTGAGGCCACCTGGC	0.572													13	24					0	0	0.001855	0	0		A	27447649	A	A	27447649	2	1	19	1	0	0	0	0	0	0	0	1	10083	987	35	4		4	MYO18A	17	27447649	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	10617	27447649	53747561	2511	16024											
TAOK1	57551	broad.mit.edu	37	chr17	27838012	27838012	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagagcagcttaaagaggTacttatgtcataaaactttc	17	11	7	6	0	1	2	1	0	0	2	2	2	1	2	0	1	4	3	0	1	8	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:27838012T>C	uc002hdz.1	+	15	1898	c.1704_splice	c.e15+2	p.E568_splice	TAOK1_uc010wbe.1_Splice_Site_p.E568_splice|TAOK1_uc010wbf.1_Splice_Site_p.E568_splice|TAOK1_uc002heb.1_Missense_Mutation_p.V395A	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1						mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			CTTAAAGAGGTACTTATGTCA	0.333													4	115					0	0	0.000602	0	0		C	27838012	C	C	27838012	5	2	19	1	0	0	0	0	0	0	1	0	15572	1652	57	3	1760	3	TAOK1	17	27838012	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	390363	27838012	53357198	2512	16025											
EFCAB5	374786	broad.mit.edu	37	chr17	28380478	28380478	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaacatcaacaccatcAccaaacccgccagaacagca	18	2	5	16	1	2	2	2	0	0	2	2	3	2	2	4	0	5	1	4	0	4	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:28380478A>G	uc002het.2	+	10	1698	c.1506A>G	c.(1504-1506)TCA>TCG	p.S502S	EFCAB5_uc010wbi.1_Silent_p.S245S|EFCAB5_uc010wbj.1_Silent_p.S446S|EFCAB5_uc010wbk.1_Silent_p.S159S|EFCAB5_uc010csd.2_RNA|EFCAB5_uc010cse.2_Silent_p.S381S|EFCAB5_uc010csf.2_Silent_p.S381S	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	502							calcium ion binding			ovary(1)|skin(1)	2						CAACACCATCACCAAACCCGC	0.398													4	70					0	0	0.001984	0	0		G	28380478	G	G	28380478	2	3	19	1	0	0	0	0	0	0	0	1	4944	146	6	3		3	EFCAB5	17	28380478	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	542466	28380478	52814732	2513	16026											
SLC6A4	6532	broad.mit.edu	37	chr17	28530221	28530221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctggagtgatgatcaacCgataagctatatatgtgggg	11	11	12	7	1	1	2	1	2	0	0	2	4	2	3	2	3	2	1	2	3	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:28530221C>T	uc002hey.3	-	14	2331	c.1787G>A	c.(1786-1788)CGG>CAG	p.R596Q	SLC6A4_uc010csg.2_RNA	NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	596	Cytoplasmic (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	GATGATCAACCGATAAGCTAT	0.378													10	165					0	0	0.008291	0	0		T	28530221	T	T	28530221	3	4	19	1	0	0	0	0	1	0	0	0	14711	652	23	1	113	1	SLC6A4	17	28530221	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	149743	28530221	52664989	2514	16027											
NF1	4763	broad.mit.edu	37	chr17	29587399	29587399	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgaaggtttttccttgaTatagcatctgattgtcctac	8	19	7	7	0	1	3	0	3	1	0	3	3	3	3	2	1	2	2	2	1	4	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:29587399T>A	uc002hgg.2	+	34	4776	c.4443T>A	c.(4441-4443)GAT>GAA	p.D1481E	NF1_uc002hgh.2_Missense_Mutation_p.D1460E|NF1_uc002hgi.1_Missense_Mutation_p.D493E	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	1481					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(3)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TTTTCCTTGATATAGCATCTG	0.343			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			54	108					0	0	0.01441	0	0		A	29587399	A	A	29587399	3	1	19	1	0	0	0	0	1	0	0	0	10375	1403	49	5	4638	5	NF1	17	29587399	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1057178	29587399	51607811	2515	16028											
UTP6	55813	broad.mit.edu	37	chr17	30202317	30202317	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcagggctctttgactcgAtcagcacctgcagcttcagc	7	11	10	13	1	4	1	3	1	1	0	5	2	4	1	1	1	4	4	1	1	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:30202317A>G	uc002hgr.2	-	14	1324	c.1241T>C	c.(1240-1242)ATC>ACC	p.I414T	UTP6_uc002hgq.2_Missense_Mutation_p.I230T|UTP6_uc010cst.2_Missense_Mutation_p.I263T	NM_018428	NP_060898	Q9NYH9	UTP6_HUMAN	hepatocellular carcinoma-associated antigen 66	414					rRNA processing	nucleolus	binding			ovary(1)	1		all_hematologic(16;0.0149)|Ovarian(249;0.021)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|Breast(31;0.231)				CTTTGACTCGATCAGCACCTG	0.463													7	94					0	0	0.001984	0	0		G	30202317	G	G	30202317	3	3	19	1	0	0	0	0	1	0	0	0	17128	333	12	3	576	3	UTP6	17	30202317	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	614918	30202317	50992893	2516	16029											
CCT6B	10693	broad.mit.edu	37	chr17	33266705	33266705	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatcttcaaaagaattcacGgccattccaccacaagcaag	16	7	6	12	1	3	2	2	0	1	2	4	2	4	2	3	1	1	1	3	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:33266705G>A	uc002hig.2	-	9	1090	c.996C>T	c.(994-996)GCC>GCT	p.A332A	CCT6B_uc010ctg.2_Silent_p.A295A|CCT6B_uc010wcc.1_Silent_p.A287A	NM_006584	NP_006575	Q92526	TCPW_HUMAN	chaperonin containing TCP1, subunit 6B	332					chaperone-mediated protein complex assembly|protein folding|spermatogenesis	cytoplasm	ATP binding|protein transporter activity|unfolded protein binding			pancreas(1)	1		Ovarian(249;0.17)				AAGAATTCACGGCCATTCCAC	0.363													27	67					0	0	0.005443	0	0		A	33266705	A	A	33266705	2	1	19	1	0	0	0	0	0	0	0	1	2961	1103	39	1		1	CCT6B	17	33266705	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3064388	33266705	47928505	2517	16030											
SLFN12	55106	broad.mit.edu	37	chr17	33747357	33747357	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggggagcaggtaatgaCgtatttatttgagagatcac	11	12	13	5	1	1	3	1	2	0	1	1	5	1	4	0	3	1	3	0	3	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:33747357C>T	uc002hji.3	-	3	1460	c.1083G>A	c.(1081-1083)ACG>ACA	p.T361T	SLFN12_uc002hjj.3_Silent_p.T361T|SLFN12_uc010cts.2_Silent_p.T361T	NM_018042	NP_060512	Q8IYM2	SLN12_HUMAN	schlafen family member 12	361				T -> A (in Ref. 1; BAA91512).			ATP binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CAGGTAATGACGTATTTATTT	0.398													26	59					0	0	0.012213	0	0		T	33747357	T	T	33747357	2	4	19	1	0	0	0	0	0	0	0	1	14759	523	19	1		1	SLFN12	17	33747357	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	480652	33747357	47447853	2518	16031											
SLFN13	146857	broad.mit.edu	37	chr17	33770933	33770933	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcctcagcaaagtctggaGgaaactctgaaagaaagaac	17	5	11	8	0	3	3	1	1	2	2	3	5	3	5	1	3	3	1	1	3	5	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:33770933G>T	uc002hjk.1	-	2	1403	c.1073C>A	c.(1072-1074)CCT>CAT	p.P358H	SLFN13_uc010wch.1_Missense_Mutation_p.P358H|SLFN13_uc002hjl.2_Missense_Mutation_p.P358H|SLFN13_uc010ctt.2_Missense_Mutation_p.P40H|SLFN13_uc002hjm.2_Missense_Mutation_p.P27H	NM_144682	NP_653283	Q68D06	SLN13_HUMAN	schlafen family member 13	358						intracellular	ATP binding			ovary(1)|breast(1)	2				UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		AAAGTCTGGAGGAAACTCTGA	0.388													18	40					4.96729e-08	5.16894e-08	0.008871	1	0		T	33770933	T	T	33770933	3	4	19	1	0	0	0	0	1	0	0	0	14761	1000	35	5	1632	5	SLFN13	17	33770933	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	23576	33770933	47424277	2519	16032											
AP2B1	163	broad.mit.edu	37	chr17	33998825	33998825	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaacctttgctccttcacCtacacctgctgtggtcagca	7	12	7	15	0	2	0	2	0	0	0	3	0	3	0	4	1	6	4	4	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:33998825C>A	uc002hjr.2	+	15	2231	c.2042C>A	c.(2041-2043)CCT>CAT	p.P681H	AP2B1_uc002hjq.2_Missense_Mutation_p.P695H|AP2B1_uc010wci.1_Missense_Mutation_p.P657H|AP2B1_uc002hjs.2_Missense_Mutation_p.P624H|AP2B1_uc002hjt.2_Missense_Mutation_p.P695H|AP2B1_uc010ctv.2_Missense_Mutation_p.P695H|AP2B1_uc010wcj.1_Missense_Mutation_p.P432H	NM_001282	NP_001273	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1	681	Pro-rich (stalk region).				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|coated pit|cytosol|endocytic vesicle membrane|plasma membrane	clathrin binding|protein transporter activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		GCTCCTTCACCTACACCTGCT	0.507													97	241					3.89424e-36	4.18761e-36	0.01441	1	0		A	33998825	A	A	33998825	3	1	19	1	0	0	0	0	1	0	0	0	741	681	24	5	2142	5	AP2B1	17	33998825	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	227892	33998825	47196385	2520	16033											
RASL10B	91608	broad.mit.edu	37	chr17	34062412	34062412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcgccttccctgtcaataCgctccaggtaggaggaccct	8	8	10	15	2	1	0	1	0	0	0	3	2	3	2	4	3	2	2	4	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:34062412C>T	uc002hju.2	+	2	575	c.209C>T	c.(208-210)ACG>ATG	p.T70M		NM_033315	NP_201572	Q96S79	RSLAB_HUMAN	RAS-like, family 10, member B precursor	70	Small GTPase-like.				small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			lung(2)|breast(2)	4				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCTGTCAATACGCTCCAGGTA	0.612													17	49					0	0	0.008871	0	0		T	34062412	T	T	34062412	3	4	19	1	0	0	0	0	1	0	0	0	13105	536	19	1	211	1	RASL10B	17	34062412	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	63587	34062412	47132798	2521	16034											
GAS2L2	246176	broad.mit.edu	37	chr17	34072896	34072896	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagccaggtccacagtgacGgcccttagtgggatggggtc	7	7	15	12	1	0	1	0	1	0	0	2	2	1	2	4	5	1	0	4	5	1	1	rs144128342	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:34072896G>T	uc002hjv.1	-	6	1648	c.1620C>A	c.(1618-1620)GCC>GCA	p.A540A		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	540					cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCACAGTGACGGCCCTTAGTG	0.622													18	65					2.48551e-13	2.61859e-13	0.00499	1	0		T	34072896	T	T	34072896	2	4	19	1	0	0	0	0	0	0	0	1	6262	1103	39	5		5	GAS2L2	17	34072896	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	10484	34072896	47122314	2522	16035											
MYO19	80179	broad.mit.edu	37	chr17	34862384	34862384	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggggttagtaggaaacaGccccatgagcagggggtcct	9	9	15	8	0	0	1	0	1	0	0	1	2	1	2	3	5	3	3	3	5	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:34862384G>A	uc010wcy.1	-	19	2700	c.1708C>T	c.(1708-1710)CTG>TTG	p.L570L	MYO19_uc002hmw.2_Intron|MYO19_uc010cuu.2_RNA|MYO19_uc010wcz.1_RNA	NM_001163735	NP_001157207	Q96H55	MYO19_HUMAN	myosin XIX isoform 2	570	Myosin head-like.					mitochondrial outer membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)	1		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GTAGGAAACAGCCCCATGAGC	0.592													55	101					0	0	0.01441	0	0		A	34862384	A	A	34862384	2	1	19	1	0	0	0	0	0	0	0	1	10085	962	34	2		2	MYO19	17	34862384	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	789488	34862384	46332826	2523	16036											
GGNBP2	79893	broad.mit.edu	37	chr17	34937854	34937854	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaggaacgagtaagagaActcaagcaagaaaagaaacg	22	2	12	5	2	1	4	1	0	0	4	1	8	1	5	0	1	4	2	0	1	9	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:34937854A>G	uc002hnb.2	+	9	1350	c.1101A>G	c.(1099-1101)GAA>GAG	p.E367E	GGNBP2_uc002hna.2_Silent_p.E367E|GGNBP2_uc002hnc.1_Silent_p.E196E	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	367					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		GAGTAAGAGAACTCAAGCAAG	0.368													5	100					0	0	0.000602	0	0		G	34937854	G	G	34937854	2	3	19	1	0	0	0	0	0	0	0	1	6374	40	2	3		3	GGNBP2	17	34937854	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	75470	34937854	46257356	2524	16037											
LHX1	3975	broad.mit.edu	37	chr17	35300172	35300172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatctgggccgtccgggaCgcccctgggtggcctggagc	3	7	17	14	3	2	0	1	0	1	0	3	2	3	2	5	5	1	0	5	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:35300172C>T	uc002hnh.1	+	5	1961	c.965C>T	c.(964-966)ACG>ATG	p.T322M		NM_005568	NP_005559	P48742	LHX1_HUMAN	LIM homeobox protein 1	322					cerebellar Purkinje cell differentiation|cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation|cervix development|comma-shaped body morphogenesis|dorsal/ventral pattern formation|ectoderm formation|embryonic pattern specification|embryonic retina morphogenesis in camera-type eye|embryonic viscerocranium morphogenesis|endoderm formation|forebrain regionalization|head development|motor axon guidance|negative regulation of transcription, DNA-dependent|nephric duct morphogenesis|nephron tubule epithelial cell differentiation|neuron migration|oviduct epithelium development|paramesonephric duct development|positive regulation of anterior head development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of embryonic development|positive regulation of gastrulation|positive regulation of transcription, DNA-dependent|post-embryonic development|primitive streak formation|renal vesicle morphogenesis|retina layer formation|S-shaped body morphogenesis|spinal cord association neuron differentiation|transcription from RNA polymerase II promoter|ureteric bud development|uterine epithelium development|vagina development	nucleus|protein complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(25;0.00607)				CCGTCCGGGACGCCCCTGGGT	0.726													4	10					0	0	0.000602	0	0		T	35300172	T	T	35300172	3	4	19	1	0	0	0	0	1	0	0	0	8786	536	19	1	983	1	LHX1	17	35300172	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	362318	35300172	45895038	2525	16038											
LHX1	3975	broad.mit.edu	37	chr17	35300261	35300261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatcctggcgcacccacccGgggactcgcccagccccgag	7	3	11	20	4	0	0	0	0	0	0	2	2	1	1	6	3	1	1	6	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:35300261G>A	uc002hnh.1	+	5	2050	c.1054G>A	c.(1054-1056)GGG>AGG	p.G352R		NM_005568	NP_005559	P48742	LHX1_HUMAN	LIM homeobox protein 1	352					cerebellar Purkinje cell differentiation|cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation|cervix development|comma-shaped body morphogenesis|dorsal/ventral pattern formation|ectoderm formation|embryonic pattern specification|embryonic retina morphogenesis in camera-type eye|embryonic viscerocranium morphogenesis|endoderm formation|forebrain regionalization|head development|motor axon guidance|negative regulation of transcription, DNA-dependent|nephric duct morphogenesis|nephron tubule epithelial cell differentiation|neuron migration|oviduct epithelium development|paramesonephric duct development|positive regulation of anterior head development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of embryonic development|positive regulation of gastrulation|positive regulation of transcription, DNA-dependent|post-embryonic development|primitive streak formation|renal vesicle morphogenesis|retina layer formation|S-shaped body morphogenesis|spinal cord association neuron differentiation|transcription from RNA polymerase II promoter|ureteric bud development|uterine epithelium development|vagina development	nucleus|protein complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(25;0.00607)				GCACCCACCCGGGGACTCGCC	0.741													6	13					0	0	0.00308	0	0		A	35300261	A	A	35300261	3	1	19	1	0	0	0	0	1	0	0	0	8786	1116	39	1	1072	1	LHX1	17	35300261	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	89	35300261	45894949	2526	16039											
ACACA	31	broad.mit.edu	37	chr17	35627644	35627644	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacagcttatactctacctGtctgaagagattagggaagt	14	11	9	7	0	2	2	0	1	2	1	2	4	2	3	1	1	4	1	1	1	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:35627644G>C	uc002hnm.2	-	10	1197	c.1006C>G	c.(1006-1008)CAG>GAG	p.Q336E	ACACA_uc002hnk.2_Missense_Mutation_p.Q258E|ACACA_uc002hnl.2_Missense_Mutation_p.Q278E|ACACA_uc002hnn.2_Missense_Mutation_p.Q336E|ACACA_uc002hno.2_Missense_Mutation_p.Q373E|ACACA_uc010cuz.2_Missense_Mutation_p.Q336E	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	336	Biotin carboxylation.|ATP-grasp.				acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	TACTCTACCTGTCTGAAGAGA	0.363													14	260					0	0	0.001855	0	0		C	35627644	C	C	35627644	3	2	19	1	0	0	0	0	1	0	0	0	106	1386	48	5	6222	5	ACACA	17	35627644	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	327383	35627644	45567566	2527	16040											
TADA2A	6871	broad.mit.edu	37	chr17	35830566	35830566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgccttaaacgcactatgCtctcagaagttctccagtat	11	11	7	12	2	2	1	1	0	2	1	4	1	2	1	2	0	3	4	2	0	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:35830566C>T	uc002hnt.2	+	13	1115	c.958C>T	c.(958-960)CTC>TTC	p.L320F	TADA2A_uc002hnv.2_Missense_Mutation_p.L320F|TADA2A_uc002hnw.2_Missense_Mutation_p.L219F|TADA2A_uc010cvb.2_Missense_Mutation_p.L116F	NM_001488	NP_001479	O75478	TAD2A_HUMAN	transcriptional adaptor 2A isoform a	320					histone H3 acetylation|transcription from RNA polymerase II promoter	chromosome|PCAF complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|zinc ion binding			breast(3)|skin(1)	4						ACGCACTATGCTCTCAGAAGT	0.512													14	150					0	0	0.003163	0	0		T	35830566	T	T	35830566	3	4	19	1	0	0	0	0	1	0	0	0	15535	797	28	2	1099	2	TADA2A	17	35830566	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	202922	35830566	45364644	2528	16041											
GPR179	440435	broad.mit.edu	37	chr17	36485249	36485249	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcttttcctgagggagAtccttcactgcctcttgggc	4	15	10	12	0	3	2	1	1	2	1	5	3	5	2	3	2	2	1	3	2	0	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:36485249A>G	uc002hpz.2	-	11	4224	c.4203T>C	c.(4201-4203)GAT>GAC	p.D1401D		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	1401	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				CCTGAGGGAGATCCTTCACTG	0.527													18	228					0	0	0.010504	0	0		G	36485249	G	G	36485249	2	3	19	1	0	0	0	0	0	0	0	1	6689	330	12	3		3	GPR179	17	36485249	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	654683	36485249	44709961	2529	16042											
GPR179	440435	broad.mit.edu	37	chr17	36489875	36489875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtgggtgtggaagaagaAgaggaggagggtccagtccg	10	6	20	5	1	0	3	0	0	0	3	2	6	2	6	2	5	0	1	2	5	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:36489875A>G	uc002hpz.2	-	9	1852	c.1831T>C	c.(1831-1833)TTC>CTC	p.F611L		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	611	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				TGGAAGAAGAAGAGGAGGAGG	0.622											OREG0024354	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	86					0	0	0.001168	0	0		G	36489875	G	G	36489875	3	3	19	1	0	0	0	0	1	0	0	0	6689	72	3	3	5284	3	GPR179	17	36489875	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4626	36489875	44705335	2530	16043											
CWC25	54883	broad.mit.edu	37	chr17	36971185	36971185	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattggcacctgatggggcAaagatagagcctgggagaag	13	6	16	6	0	0	4	0	1	0	3	0	6	0	4	2	4	1	2	2	4	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:36971185A>G	uc002hqu.2	-	3	510	c.357T>C	c.(355-357)TTT>TTC	p.F119F	CWC25_uc010wdv.1_Silent_p.F56F|CWC25_uc010wdw.1_RNA|CWC25_uc010wdx.1_RNA	NM_017748	NP_060218	Q9NXE8	CWC25_HUMAN	coiled-coil domain containing 49	119											0						CTGATGGGGCAAAGATAGAGC	0.532													29	71					0	0	0.00632	0	0		G	36971185	G	G	36971185	2	3	19	1	0	0	0	0	0	0	0	1	4072	127	5	3		3	CWC25	17	36971185	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	481310	36971185	44224025	2531	16044											
FBXO47	494188	broad.mit.edu	37	chr17	37101363	37101363	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcctacagaagagtctgaTtcttaactccagtttttggg	10	15	8	8	0	2	3	0	1	2	2	4	3	4	3	2	1	2	1	2	1	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:37101363T>C	uc002hrc.2	-	7	843	c.643A>G	c.(643-645)ATC>GTC	p.I215V		NM_001008777	NP_001008777	Q5MNV8	FBX47_HUMAN	F-box protein 47	215											0						AAGAGTCTGATTCTTAACTCC	0.388													37	62					0	0	0.009718	0	0		C	37101363	C	C	37101363	3	2	19	1	0	0	0	0	1	0	0	0	5770	1493	52	3	735	3	FBXO47	17	37101363	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	130178	37101363	44093847	2532	16045											
MED1	5469	broad.mit.edu	37	chr17	37564724	37564724	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggacaacgagcctgaggaTcctaaccctgaagatgactt	12	8	11	10	1	0	4	0	3	0	1	1	7	1	6	3	2	3	0	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:37564724T>A	uc002hrv.3	-	17	3962	c.3750A>T	c.(3748-3750)GGA>GGT	p.G1250G	MED1_uc010wee.1_Silent_p.G1078G|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1250	Ser-rich.|Interaction with TP53.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		AGCCTGAGGATCCTAACCCTG	0.488										HNSCC(31;0.082)			26	77					0	0	0.00632	0	0		A	37564724	A	A	37564724	2	1	19	1	0	0	0	0	0	0	0	1	9443	1422	50	5		5	MED1	17	37564724	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	463361	37564724	43630486	2533	16046											
PGAP3	93210	broad.mit.edu	37	chr17	37829804	37829804	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaggttgtagccatagtcGaagcggatgaggctcaggta	11	8	14	8	2	1	1	1	1	0	0	2	3	1	2	2	4	2	4	2	4	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:37829804G>A	uc002hsj.2	-	6	700	c.657C>T	c.(655-657)TTC>TTT	p.F219F	PGAP3_uc010cvy.2_Intron|PGAP3_uc010wej.1_Silent_p.F198F|PGAP3_uc002hsk.2_Silent_p.F168F|PGAP3_uc010cvz.2_Intron	NM_033419	NP_219487	Q96FM1	PGAP3_HUMAN	per1-like domain containing 1 precursor	219	Lumenal (Potential).				GPI anchor biosynthetic process	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	hydrolase activity, acting on ester bonds			upper_aerodigestive_tract(1)	1						AGCCATAGTCGAAGCGGATGA	0.632													38	75					0	0	0.01441	0	0		A	37829804	A	A	37829804	2	1	19	1	0	0	0	0	0	0	0	1	11798	1049	37	1		1	PGAP3	17	37829804	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	265080	37829804	43365406	2534	16047											
MED24	9862	broad.mit.edu	37	chr17	38191547	38191547	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcgcagcagccagtggaGggcgctaagaagggctcggc	9	3	18	11	3	0	1	0	0	0	1	1	2	0	2	1	4	3	5	1	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:38191547G>T	uc002htt.2	-	6	695	c.382C>A	c.(382-384)CTC>ATC	p.L128I	MED24_uc010wes.1_5'UTR|MED24_uc010wet.1_RNA|MED24_uc002hts.2_Missense_Mutation_p.L153I|MED24_uc002htu.2_Missense_Mutation_p.L115I|MED24_uc010cwn.2_Missense_Mutation_p.L115I|MED24_uc010weu.1_Missense_Mutation_p.L38I|MED24_uc010wev.1_Missense_Mutation_p.L78I|MED24_uc010wew.1_Missense_Mutation_p.L57I|MED24_uc010wex.1_Intron|MED24_uc010wez.1_5'Flank|MED24_uc010wfa.1_Missense_Mutation_p.L78I|MED24_uc010wfb.1_Missense_Mutation_p.L140I|MED24_uc010wfc.1_Missense_Mutation_p.L65I	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	128	LXXLL motif 1.				androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)					AGCCAGTGGAGGGCGCTAAGA	0.627											OREG0024387	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	9					6.49762e-13	6.83762e-13	0.006122	1	0		T	38191547	T	T	38191547	3	4	19	1	0	0	0	0	1	0	0	0	9460	1000	35	5	2671	5	MED24	17	38191547	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	361743	38191547	43003663	2535	16048											
TNS4	84951	broad.mit.edu	37	chr17	38638399	38638399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctctctgtgggatggtgaGtttgcagggcagggccaggg	6	9	18	8	0	1	1	0	1	1	0	2	2	1	2	2	5	1	3	2	5	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:38638399G>A	uc010cxb.2	-	8	1818	c.1654C>T	c.(1654-1656)CTC>TTC	p.L552F	TNS4_uc002huu.3_5'Flank	NM_032865	NP_116254	Q8IZW8	TENS4_HUMAN	tensin 4 precursor	552	Phosphatase tensin-type.|SH2.				apoptosis|protein localization	cytoplasm|cytoskeleton|focal adhesion	actin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(5;5.91e-05)			GGGATGGTGAGTTTGCAGGGC	0.572													19	11					0	0	0.014323	0	0		A	38638399	A	A	38638399	3	1	19	1	0	0	0	0	1	0	0	0	16370	1029	36	4	517	4	TNS4	17	38638399	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	446852	38638399	42556811	2536	16049											
KRTAP9-8	83901	broad.mit.edu	37	chr17	39394370	39394370	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgctggaagcccaccActgtgaccacctgcagcagc	9	5	9	18	0	0	1	0	1	0	0	0	2	0	2	6	1	5	3	6	1	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:39394370A>G	uc002hwh.3	+	1	101	c.67A>G	c.(67-69)ACT>GCT	p.T23A	KRTAP9-9_uc010wfq.1_Intron	NM_031963	NP_114169	Q9BYQ0	KRA98_HUMAN	keratin associated protein 9.8	23	15 X 5 AA repeats of C-C-[RQVSGE]- [SPSNQ]-[TASPI].					keratin filament				ovary(1)	1		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			GAAGCCCACCACTGTGACCAC	0.607													34	33					0	0	0.004878	0	0		G	39394370	G	G	39394370	3	3	19	1	0	0	0	0	1	0	0	0	8592	159	6	3	69	3	KRTAP9-8	17	39394370	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	755971	39394370	41800840	2537	16050											
KRT35	3886	broad.mit.edu	37	chr17	39636904	39636904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggagctcctcgatggtcCggaagtaggactggtagtca	8	10	14	9	2	2	0	1	0	1	0	5	4	4	3	2	5	1	3	2	5	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:39636904C>T	uc002hws.2	-	1	489	c.446G>A	c.(445-447)CGG>CAG	p.R149Q		NM_002280	NP_002271	Q92764	KRT35_HUMAN	keratin 35	149	Rod.|Coil 1B.				anatomical structure morphogenesis	intermediate filament	protein binding|structural molecule activity			ovary(1)|skin(1)	2		Breast(137;0.000286)				CTCGATGGTCCGGAAGTAGGA	0.552													4	78					0	0	0.009096	0	0		T	39636904	T	T	39636904	3	4	19	1	0	0	0	0	1	0	0	0	8488	652	23	1	949	1	KRT35	17	39636904	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	242534	39636904	41558306	2538	16051											
KRT36	8689	broad.mit.edu	37	chr17	39643624	39643624	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgctgtgctgagcctgcagCtcaatctctagcgcgttgac	7	11	11	12	2	2	2	1	2	1	0	3	2	2	2	1	0	6	5	1	0	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:39643624C>T	uc002hwt.2	-	5	966	c.966G>A	c.(964-966)GAG>GAA	p.E322E		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	322	Rod.|Coil 2.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)				GAGCCTGCAGCTCAATCTCTA	0.647													4	9					0	0	0.001984	0	0		T	39643624	T	T	39643624	2	4	19	1	0	0	0	0	0	0	0	1	8489	796	28	2		2	KRT36	17	39643624	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	6720	39643624	41551586	2539	16052											
KRT13	3860	broad.mit.edu	37	chr17	39661316	39661316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaagggctcaccttgtcccGgagctcttcaatggtcttgt	6	12	10	13	1	4	0	2	0	2	0	5	1	5	1	3	3	1	2	3	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:39661316G>A	uc002hwu.1	-	1	550	c.487C>T	c.(487-489)CGG>TGG	p.R163W	KRT13_uc002hwv.1_Missense_Mutation_p.R163W|KRT13_uc002hww.2_Missense_Mutation_p.R56W|KRT13_uc010wfr.1_Missense_Mutation_p.R56W|KRT13_uc010cxo.2_Missense_Mutation_p.R163W|KRT13_uc002hwx.1_Missense_Mutation_p.R151W	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	163	Coil 1B.|Rod.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				ACCTTGTCCCGGAGCTCTTCA	0.597													19	25					0	0	0.012319	0	0		A	39661316	A	A	39661316	3	1	19	1	0	0	0	0	1	0	0	0	8466	1115	39	1	921	1	KRT13	17	39661316	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	17692	39661316	41533894	2540	16053											
KRT16	3868	broad.mit.edu	37	chr17	39767667	39767667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcatctccaggtcagtcCtggccagggtcagctcatcc	6	10	10	15	0	5	0	3	0	2	0	8	0	7	0	4	3	2	2	4	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:39767667C>T	uc002hxg.3	-	3	840	c.701G>A	c.(700-702)AGG>AAG	p.R234K	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	234	Coil 1B.|Rod.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				CAGGTCAGTCCTGGCCAGGGT	0.632													72	50					0	0	0.01441	0	0		T	39767667	T	T	39767667	3	4	19	1	0	0	0	0	1	0	0	0	8469	681	24	4	744	4	KRT16	17	39767667	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	106351	39767667	41427543	2541	16054											
KLHL10	317719	broad.mit.edu	37	chr17	40001736	40001736	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatatcattggggggtttgAtagtgtagactatttcaata	11	16	11	3	0	2	2	2	1	0	1	2	2	2	2	0	3	0	3	0	3	7	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:40001736A>G	uc010cxr.2	+	3	1185	c.1043A>G	c.(1042-1044)GAT>GGT	p.D348G	KLHL10_uc010wfv.1_Missense_Mutation_p.D342G|KLHL10_uc010wfw.1_Missense_Mutation_p.D260G	NM_152467	NP_689680	Q6JEL2	KLH10_HUMAN	kelch-like 10	348	Kelch 2.					cytoplasm				ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		Breast(137;0.000162)				GGGGGGTTTGATAGTGTAGAC	0.478													4	83					0	0	0.009096	0	0		G	40001736	G	G	40001736	3	3	19	1	0	0	0	0	1	0	0	0	8382	333	12	3	1053	3	KLHL10	17	40001736	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	234069	40001736	41193474	2542	16055											
ACLY	47	broad.mit.edu	37	chr17	40061887	40061887	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtttgccagctcgttgacAccccctagatcacagatggt	9	11	9	12	1	1	3	1	1	0	2	2	3	1	3	3	1	2	3	3	1	2	4	rs111680156		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:40061887A>G	uc002hyg.2	-	9	1054	c.891T>C	c.(889-891)GGT>GGC	p.G297G	ACLY_uc002hyh.2_Silent_p.G297G|ACLY_uc002hyi.2_Silent_p.G351G|ACLY_uc010wfx.1_Silent_p.G351G|ACLY_uc010wfy.1_Intron	NM_001096	NP_001087	P53396	ACLY_HUMAN	ATP citrate lyase isoform 1	297					ATP catabolic process|cellular carbohydrate metabolic process|citrate metabolic process|coenzyme A metabolic process|energy reserve metabolic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	citrate lyase complex|cytosol|nucleus	ATP binding|ATP citrate synthase activity|citrate (pro-3S)-lyase activity|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			ovary(2)|central_nervous_system(1)	3		Breast(137;0.000143)				GCTCGTTGACACCCCCTAGAT	0.582													4	80					0	0	0.009096	0	0		G	40061887	G	G	40061887	2	3	19	1	0	0	0	0	0	0	0	1	143	146	6	3		3	ACLY	17	40061887	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	60151	40061887	41133323	2543	16056											
ACLY	47	broad.mit.edu	37	chr17	40068710	40068710	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccgtggcttcagccaggacTtgaccccatccagagtgagg	8	7	13	13	1	1	3	1	2	0	1	2	4	2	4	5	3	1	1	5	3	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:40068710T>C	uc002hyg.2	-	3	408	c.245A>G	c.(244-246)AAG>AGG	p.K82R	ACLY_uc002hyh.2_Missense_Mutation_p.K82R|ACLY_uc002hyi.2_Missense_Mutation_p.K136R|ACLY_uc010wfx.1_Missense_Mutation_p.K136R|ACLY_uc010wfy.1_Missense_Mutation_p.K82R	NM_001096	NP_001087	P53396	ACLY_HUMAN	ATP citrate lyase isoform 1	82					ATP catabolic process|cellular carbohydrate metabolic process|citrate metabolic process|coenzyme A metabolic process|energy reserve metabolic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	citrate lyase complex|cytosol|nucleus	ATP binding|ATP citrate synthase activity|citrate (pro-3S)-lyase activity|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			ovary(2)|central_nervous_system(1)	3		Breast(137;0.000143)				CAGCCAGGACTTGACCCCATC	0.542													5	67					0	0	0.001984	0	0		C	40068710	C	C	40068710	3	2	19	1	0	0	0	0	1	0	0	0	143	1609	56	3	3168	3	ACLY	17	40068710	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	6823	40068710	41126500	2544	16057											
KAT2A	2648	broad.mit.edu	37	chr17	40269927	40269927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggggtcaagtatccacctGgcataggctcggcccctgca	8	7	12	14	1	1	0	1	0	0	0	3	0	2	0	4	5	1	4	4	5	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:40269927G>A	uc002hyx.2	-	8	1349	c.1289C>T	c.(1288-1290)CCA>CTA	p.P430L		NM_021078	NP_066564	Q92830	KAT2A_HUMAN	general control of amino acid synthesis 5-like	430					chromatin remodeling|histone deubiquitination|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	H3 histone acetyltransferase activity|histone deacetylase binding|protein binding|transcription coactivator activity			upper_aerodigestive_tract(1)|lung(1)	2						GTATCCACCTGGCATAGGCTC	0.582													4	29					0	0	0.009096	0	0		A	40269927	A	A	40269927	3	1	19	1	0	0	0	0	1	0	0	0	7997	1348	47	4	1268	4	KAT2A	17	40269927	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	201217	40269927	40925283	2545	16058											
PTRF	284119	broad.mit.edu	37	chr17	40557220	40557220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggccgctgcgcttgatacGctctgcgcgggactcctcaa	6	8	12	15	5	2	1	1	1	1	0	3	2	3	2	2	2	3	3	2	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:40557220G>A	uc002hzo.2	-	2	817	c.658C>T	c.(658-660)CGT>TGT	p.R220C	PTRF_uc010wgi.1_Missense_Mutation_p.R202C	NM_012232	NP_036364	Q6NZI2	PTRF_HUMAN	polymerase I and transcript release factor	220	Potential.				regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription initiation from RNA polymerase I promoter	caveola|cytosol|endoplasmic reticulum|microsome|mitochondrion|nucleoplasm	protein binding|rRNA primary transcript binding			breast(1)	1		all_cancers(22;0.00146)|Breast(137;0.00116)|all_epithelial(22;0.0134)		BRCA - Breast invasive adenocarcinoma(366;0.193)		CGCTTGATACGCTCTGCGCGG	0.652													61	178					0	0	0.01441	0	0		A	40557220	A	A	40557220	3	1	19	1	0	0	0	0	1	0	0	0	12840	1087	38	1	518	1	PTRF	17	40557220	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	287293	40557220	40637990	2546	16059											
WNK4	65266	broad.mit.edu	37	chr17	40940731	40940731	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatgacagagtggttgagtgCcagctacagacccataacag	14	7	11	9	0	0	4	0	2	0	2	0	4	0	4	2	1	4	2	2	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:40940731C>T	uc002ibj.2	+	11	2094	c.2073C>T	c.(2071-2073)TGC>TGT	p.C691C	WNK4_uc010wgx.1_Silent_p.C355C|WNK4_uc002ibk.1_Silent_p.C463C|WNK4_uc010wgy.1_Silent_p.C35C	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	691					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		TGGTTGAGTGCCAGCTACAGA	0.532													32	72					0	0	0.012213	0	0		T	40940731	T	T	40940731	2	4	19	1	0	0	0	0	0	0	0	1	17406	747	26	2		2	WNK4	17	40940731	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	383511	40940731	40254479	2547	16060											
WNK4	65266	broad.mit.edu	37	chr17	40945659	40945659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgagatggatttctcagacGgattcgggagattatccagc	10	10	13	8	3	1	3	1	0	1	3	4	7	2	5	1	3	1	0	1	3	1	3	rs149389156	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:40945659G>A	uc002ibj.2	+	12	2228	c.2207G>A	c.(2206-2208)CGG>CAG	p.R736Q	WNK4_uc010wgx.1_Missense_Mutation_p.R400Q|WNK4_uc002ibk.1_Missense_Mutation_p.R508Q|WNK4_uc010wgy.1_Missense_Mutation_p.R80Q	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	736					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		TTTCTCAGACGGATTCGGGAG	0.542													19	49					0	0	0.007413	0	0		A	40945659	A	A	40945659	3	1	19	1	0	0	0	0	1	0	0	0	17406	1116	39	1	2253	1	WNK4	17	40945659	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4928	40945659	40249551	2548	16061											
PSME3	10197	broad.mit.edu	37	chr17	40989706	40989706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttggatgagtgtgaagaagCcttccaaggtaagaggcacc	12	8	14	7	0	0	4	0	2	0	2	1	5	1	5	3	3	1	3	3	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:40989706C>T	uc002ibr.2	+	5	510	c.284C>T	c.(283-285)GCC>GTC	p.A95V	PSME3_uc002ibp.2_Missense_Mutation_p.A34V|PSME3_uc002ibq.2_Missense_Mutation_p.A95V|PSME3_uc002ibs.2_Missense_Mutation_p.A106V|PSME3_uc010whd.1_Missense_Mutation_p.P20S	NM_005789	NP_005780	P61289	PSME3_HUMAN	proteasome activator subunit 3 isoform 1	95					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of proteasomal protein catabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome activator complex	endopeptidase activator activity|identical protein binding|MDM2 binding|p53 binding				0		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		TGTGAAGAAGCCTTCCAAGGT	0.512													41	113					0	0	0.009718	0	0		T	40989706	T	T	40989706	3	4	19	1	0	0	0	0	1	0	0	0	12730	739	26	2	302	2	PSME3	17	40989706	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	44047	40989706	40205504	2549	16062											
IFI35	3430	broad.mit.edu	37	chr17	41165627	41165627	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacggaggtggcgatgtggaCgttcgggagctactgccagg	8	7	18	8	4	0	0	0	0	0	0	1	4	0	3	1	6	4	2	1	6	2	2	rs138159139		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:41165627C>T	uc010whj.1	+	5	712	c.516C>T	c.(514-516)GAC>GAT	p.D172D		NM_005533	NP_005524	P80217	IN35_HUMAN	interferon-induced protein 35	170					response to virus|type I interferon-mediated signaling pathway	nucleus	protein binding			ovary(1)	1		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.157)		GCGATGTGGACGTTCGGGAGC	0.582													15	396					0	0	0.003163	0	0		T	41165627	T	T	41165627	2	4	19	1	0	0	0	0	0	0	0	1	7532	535	19	1		1	IFI35	17	41165627	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	175921	41165627	40029583	2550	16063											
SOST	50964	broad.mit.edu	37	chr17	41832758	41832758	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggctttggcgctccgggcGcggggccgcggcttccggcc	0	8	18	15	7	0	0	0	0	0	0	2	0	2	0	4	7	0	3	4	7	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:41832758G>A	uc002iec.1	-	2	641	c.594C>T	c.(592-594)CGC>CGT	p.R198R		NM_025237	NP_079513	Q9BQB4	SOST_HUMAN	sclerostin precursor	198					negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of ossification|negative regulation of protein complex assembly|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway		heparin binding|protein binding				0		Breast(137;0.00725)		UCEC - Uterine corpus endometrioid carcinoma (308;0.177)|BRCA - Breast invasive adenocarcinoma(366;0.0741)		CGCTCCGGGCGCGGGGCCGCG	0.557													16	26					0	0	0.012319	0	0		A	41832758	A	A	41832758	2	1	19	1	0	0	0	0	0	0	0	1	14963	1074	38	1		1	SOST	17	41832758	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	667131	41832758	39362452	2551	16064											
UBTF	7343	broad.mit.edu	37	chr17	42290225	42290225	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacaccttcttctcgtgggTgtaccacagctgctgggggg	6	11	13	11	1	2	0	0	0	2	0	3	0	2	0	2	4	4	3	2	4	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:42290225T>C	uc002igb.2	-	6	689	c.622A>G	c.(622-624)ACC>GCC	p.T208A	UBTF_uc002igc.2_Missense_Mutation_p.T208A|UBTF_uc010czs.2_Missense_Mutation_p.T208A|UBTF_uc002igd.2_Missense_Mutation_p.T208A|UBTF_uc010czt.2_Missense_Mutation_p.T208A|UBTF_uc002ige.2_Missense_Mutation_p.T208A	NM_014233	NP_055048	P17480	UBF1_HUMAN	upstream binding transcription factor, RNA	208	HMG box 2.				positive regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm	DNA binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		TTCTCGTGGGTGTACCACAGC	0.617													82	213					0	0	0.01441	0	0		C	42290225	C	C	42290225	3	2	19	1	0	0	0	0	1	0	0	0	16935	1696	59	3	1732	3	UBTF	17	42290225	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	457467	42290225	38904985	2552	16065											
GRN	2896	broad.mit.edu	37	chr17	42427679	42427679	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctgtgttatggtcgatGgctcctgggggtgctgcccc	2	12	16	11	2	0	0	0	0	0	0	2	1	1	0	3	4	3	4	3	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:42427679G>T	uc002igp.1	+	5	652	c.433G>T	c.(433-435)GGC>TGC	p.G145C	GRN_uc002igq.1_3'UTR|GRN_uc002igr.1_5'Flank	NM_002087	NP_002078	P28799	GRN_HUMAN	granulin precursor	145					signal transduction	extracellular space	cytokine activity|growth factor activity			ovary(2)|central_nervous_system(2)|skin(1)	5		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		TATGGTCGATGGCTCCTGGGG	0.612													70	189					8.27458e-37	8.90055e-37	0.01441	1	0		T	42427679	T	T	42427679	3	4	19	1	0	0	0	0	1	0	0	0	6820	1348	47	5	447	5	GRN	17	42427679	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	137454	42427679	38767531	2553	16066											
EFTUD2	9343	broad.mit.edu	37	chr17	42958005	42958005	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggagtgcttttgatgcctAcacctctctgaaaggaacaa	12	10	9	10	0	1	2	0	2	1	0	2	4	1	4	2	2	4	1	2	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:42958005A>G	uc002ihn.2	-	8	797	c.536T>C	c.(535-537)GTA>GCA	p.V179A	EFTUD2_uc010wje.1_Missense_Mutation_p.V144A|EFTUD2_uc010wjf.1_Missense_Mutation_p.V169A	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	179						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				TTTGATGCCTACACCTCTCTG	0.453													4	106					0	0	0.000602	0	0		G	42958005	G	G	42958005	3	3	19	1	0	0	0	0	1	0	0	0	4967	391	14	3	2466	3	EFTUD2	17	42958005	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	530326	42958005	38237205	2554	16067											
C1QL1	10882	broad.mit.edu	37	chr17	43037611	43037611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtatttgttgctgttgccgCcgtgtgctttgcctccatcc	2	17	10	12	2	0	0	0	0	0	0	2	0	2	0	5	0	4	5	5	0	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:43037611C>T	uc002ihv.2	-	2	950	c.722G>A	c.(721-723)GGC>GAC	p.G241D		NM_006688	NP_006679	O75973	C1QRF_HUMAN	complement component 1, q subcomponent-like 1	241	C1q.				locomotory behavior	collagen					0		Prostate(33;0.155)				GCTGTTGCCGCCGTGTGCTTT	0.612													51	91					0	0	0.01441	0	0		T	43037611	T	T	43037611	3	4	19	1	0	0	0	0	1	0	0	0	1961	739	26	2	58	2	C1QL1	17	43037611	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	79606	43037611	38157599	2555	16068											
ACBD4	79777	broad.mit.edu	37	chr17	43220923	43220923	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggctcttccgaatgtttcgGacccaaaagaggtgactgtc	9	11	11	10	2	1	2	0	1	1	1	4	4	2	3	2	3	0	2	2	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:43220923G>A	uc010wjj.1	+	12	1410	c.941G>A	c.(940-942)GGA>GAA	p.G314E	ACBD4_uc002iie.2_Missense_Mutation_p.G314E|ACBD4_uc002iif.2_Silent_p.R301R|ACBD4_uc002iic.2_Silent_p.R301R|ACBD4_uc010dae.2_Missense_Mutation_p.G236E	NM_001135704	NP_001129176	Q8NC06	ACBD4_HUMAN	acyl-Coenzyme A binding domain containing 4	Error:Variant_position_missing_in_Q8NC06_after_alignment							fatty-acyl-CoA binding			ovary(1)|kidney(1)	2						GAATGTTTCGGACCCAAAAGA	0.597													7	78					0	0	0.00308	0	0		A	43220923	A	A	43220923	3	1	19	1	0	0	0	0	1	0	0	0	124	1174	41	4	1007	4	ACBD4	17	43220923	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	183312	43220923	37974287	2556	16069											
PLEKHM1	9842	broad.mit.edu	37	chr17	43531503	43531503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgagcagttctccacacagGtgtgctcctcgttgctcagg	6	10	12	13	2	2	0	1	0	1	0	5	1	3	0	2	2	3	5	2	2	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:43531503G>A	uc002ija.2	-	7	1885	c.1715C>T	c.(1714-1716)ACC>ATC	p.T572I	PLEKHM1_uc010wjm.1_Missense_Mutation_p.T544I|PLEKHM1_uc002ijb.2_Missense_Mutation_p.T47I|PLEKHM1_uc010wjn.1_Missense_Mutation_p.T521I|PLEKHM1_uc002ijc.2_Missense_Mutation_p.T26I	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	572	PH 1.				intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					CTCCACACAGGTGTGCTCCTC	0.632													27	37					0	0	0.005443	0	0		A	43531503	A	A	43531503	3	1	19	1	0	0	0	0	1	0	0	0	12099	1261	44	4	1479	4	PLEKHM1	17	43531503	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	310580	43531503	37663707	2557	16070											
CRHR1	1394	broad.mit.edu	37	chr17	43861933	43861933	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagggcacccgcagctccGtctcgtcaaggtaacagccc	8	5	13	15	3	2	0	1	0	1	0	4	1	3	1	3	3	3	4	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:43861933G>A	uc010dap.2	+	1	288	c.23G>A	c.(22-24)CGT>CAT	p.R8H	CRHR1_uc010wjx.1_Intron|CRHR1_uc002ijp.2_Intron|CRHR1_uc002ijm.2_Missense_Mutation_p.R8H|CRHR1_uc002ijn.2_Missense_Mutation_p.R8H|CRHR1_uc010dar.2_Missense_Mutation_p.R8H|CRHR1_uc010dao.2_5'UTR|CRHR1_uc010daq.2_5'UTR	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	8					female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		CCGCAGCTCCGTCTCGTCAAG	0.751													3	1					0	0	0.004672	0	0		A	43861933	A	A	43861933	3	1	19	1	0	0	0	0	1	0	0	0	3874	1145	40	1	25	1	CRHR1	17	43861933	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	330430	43861933	37333277	2558	16071											
MAPT	4137	broad.mit.edu	37	chr17	44060714	44060714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggacacagagggcggcCgccacgcccctgagctgctc	7	4	14	16	3	0	3	0	2	0	1	1	4	0	4	4	3	2	2	4	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:44060714C>T	uc002ijr.3	+	6	864	c.544C>T	c.(544-546)CGC>TGC	p.R182C	MAPT_uc010dau.2_Missense_Mutation_p.R182C|MAPT_uc002ijs.3_Intron|MAPT_uc002ijx.3_Intron|MAPT_uc002ijt.3_Intron|MAPT_uc002iju.3_Intron|MAPT_uc002ijv.3_Intron	NM_016835	NP_058519	P10636	TAU_HUMAN	microtubule-associated protein tau isoform 1	182					cellular component disassembly involved in apoptosis|microtubule cytoskeleton organization|negative regulation of microtubule depolymerization|positive regulation of axon extension|positive regulation of microtubule polymerization|regulation of autophagy	axon|cytosol|growth cone|microtubule|microtubule associated complex|nuclear periphery|plasma membrane|tubulin complex	apolipoprotein E binding|enzyme binding|identical protein binding|lipoprotein particle binding|microtubule binding|protein binding|SH3 domain binding|structural constituent of cytoskeleton			pancreas(1)	1		Melanoma(429;0.216)				AGAGGGCGGCCGCCACGCCCC	0.697													3	10					0	0	0.004672	0	0		T	44060714	T	T	44060714	3	4	19	1	0	0	0	0	1	0	0	0	9315	652	23	1	562	1	MAPT	17	44060714	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	198781	44060714	37134496	2559	16072											
C17orf57	124989	broad.mit.edu	37	chr17	45471426	45471426	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttaaagaattcattgatActatgatgagcaacacggaa	17	12	7	5	1	1	4	1	3	0	1	1	5	1	5	0	1	3	1	0	1	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:45471426A>G	uc002iln.2	+	16	2173	c.1762A>G	c.(1762-1764)ACT>GCT	p.T588A	C17orf57_uc002ilm.2_Missense_Mutation_p.T492A	NM_152347	NP_689560	Q8IY85	CQ057_HUMAN	hypothetical protein LOC124989	588							calcium ion binding			breast(1)|central_nervous_system(1)|skin(1)	3						ATTCATTGATACTATGATGAG	0.264													6	177					0	0	0.001984	0	0		G	45471426	G	G	45471426	3	3	19	1	0	0	0	0	1	0	0	0	1868	391	14	3	1812	3	C17orf57	17	45471426	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1410712	45471426	35723784	2560	16073											
TBX21	30009	broad.mit.edu	37	chr17	45822603	45822603	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtgattcaggactgggCgaaggagactctaagaggag	12	7	15	7	1	2	3	1	1	1	2	3	7	3	5	1	4	0	0	1	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:45822603C>T	uc002ilv.1	+	6	1690	c.1479C>T	c.(1477-1479)GGC>GGT	p.G493G		NM_013351	NP_037483	Q9UL17	TBX21_HUMAN	T-box 21	493					lymphocyte migration|multicellular organismal development|positive regulation of transcription, DNA-dependent|response to virus	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						CAGGACTGGGCGAAGGAGACT	0.617													13	42					0	0	0.003163	0	0		T	45822603	T	T	45822603	2	4	19	1	0	0	0	0	0	0	0	1	15682	755	27	1		1	TBX21	17	45822603	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	351177	45822603	35372607	2561	16074											
HOXB13	10481	broad.mit.edu	37	chr17	46805653	46805653	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcggccagggtggctgcctgGgcacagggtttcagcgagct	5	7	18	11	2	1	0	1	0	0	0	1	1	1	0	2	5	3	4	2	5	0	1	rs150413396		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:46805653G>T	uc002ioa.2	-	1	459	c.303C>A	c.(301-303)GCC>GCA	p.A101A		NM_006361	NP_006352	Q92826	HXB13_HUMAN	homeobox B13	101					angiogenesis|epidermis development|response to wounding		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TGGCTGCCTGGGCACAGGGTT	0.672													41	95					5.34276e-22	5.6798e-22	0.01441	1	0		T	46805653	T	T	46805653	2	4	19	1	0	0	0	0	0	0	0	1	7316	1219	43	5		5	HOXB13	17	46805653	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	983050	46805653	34389557	2562	16075											
NGFR	4804	broad.mit.edu	37	chr17	47589350	47589350	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactccacagcgacagtggCatctccgtggacagccagag	12	5	11	13	2	1	1	0	0	1	1	3	3	2	2	3	2	3	1	3	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:47589350C>T	uc002ioz.3	+	5	1043	c.918C>T	c.(916-918)GGC>GGT	p.G306G		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	306	Cytoplasmic (Potential).				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					GCGACAGTGGCATCTCCGTGG	0.652													4	24					0	0	0.000602	0	0		T	47589350	T	T	47589350	2	4	19	1	0	0	0	0	0	0	0	1	10415	697	25	2		2	NGFR	17	47589350	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	783697	47589350	33605860	2563	16076											
ITGA3	3675	broad.mit.edu	37	chr17	48145586	48145586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacacagactacctggagaCgggcatgtgccagctgggca	11	5	13	12	1	0	2	0	0	0	2	0	3	0	2	2	3	4	3	2	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:48145586C>T	uc010dbl.2	+	4	1045	c.581C>T	c.(580-582)ACG>ATG	p.T194M	ITGA3_uc010dbm.2_Missense_Mutation_p.T194M	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	194	FG-GAP 3.|Extracellular (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						TACCTGGAGACGGGCATGTGC	0.592													40	84					0	0	0.01441	0	0		T	48145586	T	T	48145586	3	4	19	1	0	0	0	0	1	0	0	0	7893	536	19	1	595	1	ITGA3	17	48145586	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	556236	48145586	33049624	2564	16077											
XYLT2	64132	broad.mit.edu	37	chr17	48434595	48434595	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggcgcagtgaccaggccagCcggctccagagtctggaggt	7	5	17	12	2	1	2	0	1	1	1	2	3	2	3	4	5	1	2	4	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:48434595C>T	uc002iqo.2	+	9	2032	c.1923C>T	c.(1921-1923)AGC>AGT	p.S641S	XYLT2_uc010dbo.2_Intron	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	641	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)					ACCAGGCCAGCCGGCTCCAGA	0.652													3	19					0	0	0.004672	0	0		T	48434595	T	T	48434595	2	4	19	1	0	0	0	0	0	0	0	1	17490	738	26	2		2	XYLT2	17	48434595	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	289009	48434595	32760615	2565	16078											
EME1	146956	broad.mit.edu	37	chr17	48453452	48453452	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttacagatggaaggtgggggCcagctcctaggagcactgca	10	7	15	9	0	0	1	0	0	0	1	1	3	1	3	2	5	4	3	2	5	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:48453452C>T	uc002iqs.1	+	3	874	c.801C>T	c.(799-801)GGC>GGT	p.G267G	MRPL27_uc002iqq.2_5'Flank|MRPL27_uc002iqr.2_5'Flank|EME1_uc010dbp.1_Silent_p.G267G	NM_152463	NP_689676	Q96AY2	EME1_HUMAN	essential meiotic endonuclease 1 homolog 1	267					DNA recombination|DNA repair	nucleolus	DNA binding|endonuclease activity|metal ion binding|protein binding				0	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			AAGGTGGGGGCCAGCTCCTAG	0.577								Direct_reversal_of_damage|Homologous_recombination					34	56					0	0	0.003755	0	0		T	48453452	T	T	48453452	2	4	19	1	0	0	0	0	0	0	0	1	5096	726	26	2		2	EME1	17	48453452	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	18857	48453452	32741758	2566	16079											
CACNA1G	8913	broad.mit.edu	37	chr17	48703770	48703770	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctacgtcctggctggatgaGcagaggagacactctatcgc	9	8	12	12	2	1	3	0	1	1	2	3	5	2	4	2	3	2	2	2	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:48703770G>A	uc002irk.1	+	38	7164	c.6792G>A	c.(6790-6792)GAG>GAA	p.E2264E	CACNA1G_uc002irj.1_Silent_p.E2058E|CACNA1G_uc002irl.1_Silent_p.E2148E|CACNA1G_uc002irm.1_Silent_p.E2185E|CACNA1G_uc002irn.1_Silent_p.E2130E|CACNA1G_uc002iro.1_Silent_p.E2137E|CACNA1G_uc002irp.1_Silent_p.E2219E|CACNA1G_uc002irq.1_Silent_p.E2241E|CACNA1G_uc002irr.1_Silent_p.E2171E|CACNA1G_uc002irs.1_Silent_p.E2208E|CACNA1G_uc002irt.1_Silent_p.E2153E|CACNA1G_uc002irv.1_Silent_p.E2160E|CACNA1G_uc002irw.1_Silent_p.E2193E|CACNA1G_uc002iru.1_Silent_p.E2230E|CACNA1G_uc002irx.1_Silent_p.E2005E|CACNA1G_uc002iry.1_Silent_p.E1994E|CACNA1G_uc002irz.1_Silent_p.E2077E|CACNA1G_uc002isa.1_Silent_p.E2050E|CACNA1G_uc002isb.1_Silent_p.E2091E|CACNA1G_uc002isc.1_Silent_p.E2166E|CACNA1G_uc002isd.1_Silent_p.E2059E|CACNA1G_uc002ise.1_Silent_p.E2087E|CACNA1G_uc002isf.1_Silent_p.E2114E|CACNA1G_uc002isg.1_Silent_p.E2032E|CACNA1G_uc002ish.1_Silent_p.E2039E|CACNA1G_uc002isi.1_Silent_p.E2027E	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	2264	Cytoplasmic (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GGCTGGATGAGCAGAGGAGAC	0.682											OREG0024569	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	12					0	0	0.001168	0	0		A	48703770	A	A	48703770	2	1	19	1	0	0	0	0	0	0	0	1	2547	962	34	2		2	CACNA1G	17	48703770	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	250318	48703770	32491440	2567	16080											
HLF	3131	broad.mit.edu	37	chr17	53398143	53398143	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcgttcctggagaaggagaActcggccctccgccaggagg	8	6	14	13	3	0	2	0	0	0	2	4	5	2	3	4	5	1	1	4	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:53398143A>G	uc002iug.1	+	4	1316	c.791A>G	c.(790-792)AAC>AGC	p.N264S	HLF_uc010dce.1_Missense_Mutation_p.N179S|HLF_uc002iuh.2_Missense_Mutation_p.N179S|HLF_uc010wni.1_Missense_Mutation_p.N211S	NM_002126	NP_002117	Q16534	HLF_HUMAN	hepatic leukemia factor	264	Leucine-zipper.				multicellular organismal development|rhythmic process|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						GAGAAGGAGAACTCGGCCCTC	0.607			T	TCF3	ALL								6	17					0	0	0.001984	0	0		G	53398143	G	G	53398143	3	3	19	1	0	0	0	0	1	0	0	0	7230	43	2	3	805	3	HLF	17	53398143	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4694373	53398143	27797067	2568	16081											
MMD	23531	broad.mit.edu	37	chr17	53491524	53491524	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtactcactgcgtgtgtgtaAcagttagcagcatgttcata	10	13	10	8	1	2	0	2	0	0	0	2	0	2	0	0	0	5	6	0	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:53491524A>G	uc002iui.2	-	2	381	c.96T>C	c.(94-96)TGT>TGC	p.C32C		NM_012329	NP_036461	Q15546	PAQRB_HUMAN	monocyte to macrophage	32	Helical; (Potential).				cytolysis	integral to plasma membrane|late endosome membrane|lysosomal membrane|membrane fraction	receptor activity				0						CGTGTGTGTAACAGTTAGCAG	0.458													29	51					0	0	0.009535	0	0		G	53491524	G	G	53491524	2	3	19	1	0	0	0	0	0	0	0	1	9661	41	2	3		3	MMD	17	53491524	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	93381	53491524	27703686	2569	16082											
SCPEP1	59342	broad.mit.edu	37	chr17	55079432	55079432	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaactgcctaaattcagtCagctgaagtggaaggccctg	12	8	11	10	0	2	2	2	1	0	1	2	3	2	3	2	2	3	1	2	2	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:55079432C>A	uc002iuv.3	+	12	1239	c.1186C>A	c.(1186-1188)CAG>AAG	p.Q396K	SCPEP1_uc010dcl.2_RNA|SCPEP1_uc010wnk.1_Missense_Mutation_p.Q346K	NM_021626	NP_067639	Q9HB40	RISC_HUMAN	serine carboxypeptidase 1 precursor	396					proteolysis	extracellular region	serine-type carboxypeptidase activity			skin(1)	1	Breast(9;2.86e-08)					TAAATTCAGTCAGCTGAAGTG	0.483													41	115					3.43241e-23	3.65749e-23	0.009718	1	0		A	55079432	A	A	55079432	3	1	19	1	0	0	0	0	1	0	0	0	13960	827	29	5	1232	5	SCPEP1	17	55079432	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1587908	55079432	26115778	2570	16083											
LPO	4025	broad.mit.edu	37	chr17	56326949	56326949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcctgcgctgggcgccGccaacagggctctggcgcgc	5	4	17	15	5	1	0	0	0	1	0	1	1	1	1	3	4	3	2	3	4	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:56326949G>A	uc002ivt.2	+	6	782	c.466G>A	c.(466-468)GCC>ACC	p.A156T	LPO_uc010dco.2_Missense_Mutation_p.A156T|LPO_uc010wnr.1_Missense_Mutation_p.A73T|LPO_uc010wns.1_Missense_Mutation_p.A97T|LPO_uc010dcp.2_Missense_Mutation_p.A73T|LPO_uc010dcq.2_5'UTR|LPO_uc010dcr.2_5'Flank	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	156					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						GCTGGGCGCCGCCAACAGGGC	0.711													11	26					0	0	0.00245	0	0		A	56326949	A	A	56326949	3	1	19	1	0	0	0	0	1	0	0	0	8940	1087	38	1	484	1	LPO	17	56326949	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1247517	56326949	24868261	2571	16084											
TUBD1	51174	broad.mit.edu	37	chr17	57958272	57958272	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tacctcaccagttccataagGccaaataatctgattcattt	13	13	4	11	0	3	1	2	1	1	0	4	1	4	1	4	1	1	1	4	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:57958272G>A	uc002ixw.1	-	4	798	c.520C>T	c.(520-522)CCT>TCT	p.P174S	TUBD1_uc010ddf.1_Missense_Mutation_p.P174S|TUBD1_uc010ddg.1_Missense_Mutation_p.P139S|TUBD1_uc010ddh.1_Missense_Mutation_p.P55S|TUBD1_uc010wok.1_Missense_Mutation_p.P174S|TUBD1_uc002ixx.1_Missense_Mutation_p.P174S|TUBD1_uc010wol.1_Intron|TUBD1_uc010ddi.1_Intron	NM_016261	NP_057345	Q9UJT1	TBD_HUMAN	delta-tubulin	174					cell differentiation|microtubule-based movement|multicellular organismal development|protein polymerization|spermatogenesis	centriole|microtubule|nucleus	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1	all_cancers(5;3.18e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;9.34e-13)|all cancers(12;1.91e-11)			GTTCCATAAGGCCAAATAATC	0.363													7	284					0	0	0.00308	0	0		A	57958272	A	A	57958272	3	1	19	1	0	0	0	0	1	0	0	0	16788	1203	42	2	865	2	TUBD1	17	57958272	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1631323	57958272	23236938	2572	16085											
USP32	84669	broad.mit.edu	37	chr17	58313509	58313509	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaactcacgtatttgacaTattctttccactgttgccac	9	16	4	12	1	3	1	1	1	2	0	4	1	4	1	2	0	2	2	2	0	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:58313509T>C	uc002iyo.1	-	12	1515	c.1229A>G	c.(1228-1230)TAT>TGT	p.Y410C	USP32_uc002iyn.1_Missense_Mutation_p.Y80C	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	410	DUSP.				protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			GTATTTGACATATTCTTTCCA	0.423													20	168					0	0	0.012319	0	0		C	58313509	C	C	58313509	3	2	19	1	0	0	0	0	1	0	0	0	17089	1406	49	3	3677	3	USP32	17	58313509	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	355237	58313509	22881701	2573	16086											
TBX4	9496	broad.mit.edu	37	chr17	59560871	59560871	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtggagaactggactgaCggatgactctcacgtctcct	9	10	11	11	2	2	3	1	2	2	1	4	6	2	5	1	3	1	0	1	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:59560871C>T	uc002izi.2	+	8	1677	c.1632C>T	c.(1630-1632)GAC>GAT	p.D544D	TBX4_uc010ddo.2_Silent_p.D545D|TBX4_uc010woy.1_Silent_p.D545D	NM_018488	NP_060958	P57082	TBX4_HUMAN	T-box 4	544					leg morphogenesis|skeletal system morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						ACTGGACTGACGGATGACTCT	0.507													21	53					0	0	0.014323	0	0		T	59560871	T	T	59560871	2	4	19	1	0	0	0	0	0	0	0	1	15685	535	19	1		1	TBX4	17	59560871	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1247362	59560871	21634339	2574	16087											
INTS2	57508	broad.mit.edu	37	chr17	59968953	59968953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctggattagatttcgacGcaggagtaagtatagaattt	12	14	10	5	2	1	2	0	0	1	2	2	5	1	4	0	2	0	3	0	2	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:59968953G>A	uc002izn.2	-	14	1896	c.1820C>T	c.(1819-1821)GCG>GTG	p.A607V	INTS2_uc002izm.2_Missense_Mutation_p.A599V	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	607					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						AGATTTCGACGCAGGAGTAAG	0.378													44	89					0	0	0.007835	0	0		A	59968953	A	A	59968953	3	1	19	1	0	0	0	0	1	0	0	0	7794	1087	38	1	1842	1	INTS2	17	59968953	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	408082	59968953	21226257	2575	16088											
MED13	9969	broad.mit.edu	37	chr17	60030383	60030383	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaatgtacaggagaaccAgttggagaagcaggaaggat	16	5	16	4	0	0	3	0	0	0	3	0	8	0	5	1	5	3	3	1	5	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:60030383A>G	uc002izo.2	-	27	6137	c.6060T>C	c.(6058-6060)ACT>ACC	p.T2020T		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	2020					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						CAGGAGAACCAGTTGGAGAAG	0.403													17	128					0	0	0.007413	0	0		G	60030383	G	G	60030383	2	3	19	1	0	0	0	0	0	0	0	1	9448	175	7	3		3	MED13	17	60030383	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	61430	60030383	21164827	2576	16089											
MED13	9969	broad.mit.edu	37	chr17	60043998	60043998	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagaaacaggtctatgttgAcctaatcgacaggactacaa	15	8	9	9	2	1	2	0	1	1	1	2	5	1	3	1	2	2	1	1	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:60043998A>G	uc002izo.2	-	19	4283	c.4206T>C	c.(4204-4206)GGT>GGC	p.G1402G		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	1402					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						GTCTATGTTGACCTAATCGAC	0.333													15	27					0	0	0.003163	0	0		G	60043998	G	G	60043998	2	3	19	1	0	0	0	0	0	0	0	1	9448	262	10	3		3	MED13	17	60043998	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	13615	60043998	21151212	2577	16090											
MED13	9969	broad.mit.edu	37	chr17	60072701	60072701	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taattcatcagaaacttttaAaggtttcttacattgcacca	14	15	4	8	0	3	1	2	0	1	1	3	1	3	1	1	1	3	2	1	1	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:60072701A>G	uc002izo.2	-	10	2070	c.1993T>C	c.(1993-1995)TTA>CTA	p.L665L		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	665					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						GAAACTTTTAAAGGTTTCTTA	0.279													10	113					0	0	0.008291	0	0		G	60072701	G	G	60072701	2	3	19	1	0	0	0	0	0	0	0	1	9448	11	1	3		3	MED13	17	60072701	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	28703	60072701	21122509	2578	16091											
MRC2	9902	broad.mit.edu	37	chr17	60765963	60765963	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagcaggagcctttgatgTatgccaactgggcacctggg	8	9	15	9	0	0	1	0	1	0	0	0	3	0	3	3	4	4	3	3	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:60765963T>C	uc002jad.2	+	22	3565	c.3163T>C	c.(3163-3165)TAT>CAT	p.Y1055H	MRC2_uc002jae.2_Missense_Mutation_p.Y126H|MRC2_uc002jaf.2_5'UTR	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	1055	Extracellular (Potential).|C-type lectin 6.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GCCTTTGATGTATGCCAACTG	0.617													4	139					0	0	0.000602	0	0		C	60765963	C	C	60765963	3	2	19	1	0	0	0	0	1	0	0	0	9776	1638	57	3	3249	3	MRC2	17	60765963	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	693262	60765963	20429247	2579	16092											
TANC2	26115	broad.mit.edu	37	chr17	61466882	61466882	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtacctgagcattgtggtgCtgctgtgcaagaaacgggcc	8	9	15	9	1	0	2	0	1	0	1	0	2	0	2	2	3	6	5	2	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:61466882C>G	uc002jal.3	+	15	2829	c.2806C>G	c.(2806-2808)CTG>GTG	p.L936V	TANC2_uc010wpe.1_Missense_Mutation_p.L846V|TANC2_uc002jan.1_Missense_Mutation_p.L87V|TANC2_uc002jao.3_Missense_Mutation_p.L37V|TANC2_uc002jam.1_Missense_Mutation_p.L303V	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	936	ANK 3.						binding			ovary(2)	2						CATTGTGGTGCTGCTGTGCAA	0.532													4	19					0	0	0.009096	0	0		G	61466882	G	G	61466882	3	3	19	1	0	0	0	0	1	0	0	0	15570	796	28	5	2864	5	TANC2	17	61466882	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	700919	61466882	19728328	2580	16093											
GH1	2688	broad.mit.edu	37	chr17	61995762	61995762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgatgggcgcggagcatagCgttgtcaaaaagcctggata	12	7	14	8	4	1	0	1	0	0	0	1	3	1	2	1	3	3	2	1	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:61995762C>T	uc002jdj.2	-	2	177	c.115G>A	c.(115-117)GCT>ACT	p.A39T	GH1_uc002jdi.2_Missense_Mutation_p.A39T|GH1_uc002jdk.2_Missense_Mutation_p.A39T|GH1_uc002jdl.2_Missense_Mutation_p.A39T|GH1_uc002jdm.2_Intron|GH1_uc002jdn.2_Missense_Mutation_p.A39T	NM_000515	NP_000506	P01241	SOMA_HUMAN	growth hormone 1 isoform 1	39					glucose transport|growth hormone receptor signaling pathway|JAK-STAT cascade|positive regulation of activation of JAK2 kinase activity|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of MAP kinase activity|positive regulation of multicellular organism growth|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|response to estradiol stimulus	extracellular space	growth factor activity|growth hormone receptor binding|hormone activity|metal ion binding|prolactin receptor binding				0						CGGAGCATAGCGTTGTCAAAA	0.597													27	311					0	0	0.00632	0	0		T	61995762	T	T	61995762	3	4	19	1	0	0	0	0	1	0	0	0	6382	768	27	1	554	1	GH1	17	61995762	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	528880	61995762	19199448	2581	16094											
SCN4A	6329	broad.mit.edu	37	chr17	62018681	62018681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcttgatcttgttgggcttgGcaatcctcagcggttcctgc	4	14	12	11	1	2	1	1	1	1	0	4	1	4	1	2	3	2	5	2	3	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:62018681G>A	uc002jds.1	-	24	5038	c.4961C>T	c.(4960-4962)GCC>GTC	p.A1654V		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1654					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GTTGGGCTTGGCAATCCTCAG	0.577													9	110					0	0	0.004482	0	0		A	62018681	A	A	62018681	3	1	19	1	0	0	0	0	1	0	0	0	13945	1203	42	2	553	2	SCN4A	17	62018681	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	22919	62018681	19176529	2582	16095											
BPTF	2186	broad.mit.edu	37	chr17	65942395	65942395	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagatagaaattaagcgtgAacacaccctccaagcttcta	16	8	6	11	1	1	3	0	1	1	2	2	3	2	3	2	0	3	1	2	0	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:65942395A>G	uc002jgf.2	+	21	7632	c.7571A>G	c.(7570-7572)GAA>GGA	p.E2524G	BPTF_uc002jge.2_Intron|BPTF_uc002jgg.2_Intron|BPTF_uc002jgh.2_5'Flank	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2650					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			ATTAAGCGTGAACACACCCTC	0.418													6	90					0	0	0.001168	0	0		G	65942395	G	G	65942395	3	3	19	1	0	0	0	0	1	0	0	0	1498	246	9	3	8039	3	BPTF	17	65942395	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3923714	65942395	15252815	2583	16096											
ABCA10	10349	broad.mit.edu	37	chr17	67161157	67161157	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggaaggtatgaaaatcAtgcacaaaattaagttgagt	18	10	10	3	0	1	3	1	3	0	0	1	4	1	4	0	2	1	3	0	2	8	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:67161157A>G	uc010dfa.1	-	27	4109	c.3230T>C	c.(3229-3231)ATG>ACG	p.M1077T	ABCA10_uc010wqs.1_Missense_Mutation_p.M69T|ABCA10_uc010wqt.1_RNA	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	1077	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TATGAAAATCATGCACAAAAT	0.343													4	92					0	0	0.009096	0	0		G	67161157	G	G	67161157	3	3	19	1	0	0	0	0	1	0	0	0	29	217	8	3	1457	3	ABCA10	17	67161157	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1218762	67161157	14034053	2584	16097											
ABCA5	23461	broad.mit.edu	37	chr17	67287435	67287435	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtggccaagtaaggcagTaatctgaccctcatatatgt	12	11	9	9	0	2	1	1	1	1	0	2	1	2	1	2	2	0	3	2	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:67287435T>C	uc002jif.2	-	11	2746	c.1528A>G	c.(1528-1530)ACT>GCT	p.T510A	ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.T510A|ABCA5_uc002jih.2_Missense_Mutation_p.T510A|ABCA5_uc010dfe.2_Missense_Mutation_p.T510A	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	510	ABC transporter 1.				cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					AGTAAGGCAGTAATCTGACCC	0.363													14	62					0	0	0.00245	0	0		C	67287435	C	C	67287435	3	2	19	1	0	0	0	0	1	0	0	0	35	1638	57	3	3512	3	ABCA5	17	67287435	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	126278	67287435	13907775	2585	16098											
SOX9	6662	broad.mit.edu	37	chr17	70118922	70118922	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcggctgcgcgtgcagcAcaagaaggaccacccggatt	10	4	15	12	4	0	1	0	0	0	1	0	4	0	4	2	4	4	3	2	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:70118922A>G	uc002jiw.2	+	2	866	c.494A>G	c.(493-495)CAC>CGC	p.H165R	uc002jiv.2_5'Flank	NM_000346	NP_000337	P48436	SOX9_HUMAN	transcription factor SOX9	165	HMG box.		H -> Q (in CMD1; residual DNA binding and transactivation of regulated genes).		cAMP-mediated signaling|negative regulation of transcription, DNA-dependent|positive regulation of branching involved in ureteric bud morphogenesis|protein complex assembly|renal vesicle induction	nucleus|protein complex	core promoter sequence-specific DNA binding|enhancer binding|protein kinase A catalytic subunit binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription				0		Colorectal(1115;0.245)	STAD - Stomach adenocarcinoma(260;0.119)			CGCGTGCAGCACAAGAAGGAC	0.662													17	15					0	0	0.007413	0	0		G	70118922	G	G	70118922	3	3	19	1	0	0	0	0	1	0	0	0	14983	159	6	3	500	3	SOX9	17	70118922	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2831487	70118922	11076288	2586	16099											
COG1	9382	broad.mit.edu	37	chr17	71196745	71196745	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggatcaccaacctgctcAtgtacgtgaagagcatgaag	13	8	11	9	1	2	3	2	2	0	1	2	4	2	4	2	1	4	3	2	1	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:71196745A>G	uc002jjg.2	+	6	1147	c.1111A>G	c.(1111-1113)ATG>GTG	p.M371V	COG1_uc002jjh.2_Missense_Mutation_p.M371V|COG1_uc002jjf.1_Missense_Mutation_p.M371V	NM_018714	NP_061184	Q8WTW3	COG1_HUMAN	component of oligomeric golgi complex 1	371					Golgi organization|intra-Golgi vesicle-mediated transport|protein transport	Golgi membrane|Golgi transport complex	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			CAACCTGCTCATGTACGTGAA	0.473													57	82					0	0	0.01441	0	0		G	71196745	G	G	71196745	3	3	19	1	0	0	0	0	1	0	0	0	3660	217	8	3	1133	3	COG1	17	71196745	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1077823	71196745	9998465	2587	16100											
SDK2	54549	broad.mit.edu	37	chr17	71384174	71384174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctggggggctgcggacGgtctgggaggtggcagaggg	4	6	23	8	2	1	1	0	0	1	1	1	3	1	3	1	9	2	3	1	9	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:71384174G>A	uc010dfm.2	-	30	4195	c.4195C>T	c.(4195-4197)CGT>TGT	p.R1399C	SDK2_uc002jjt.3_Missense_Mutation_p.R558C|SDK2_uc010dfn.2_Missense_Mutation_p.R1078C	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1399	Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						GGCTGCGGACGGTCTGGGAGG	0.677													3	2					0	0	0.004672	0	0		A	71384174	A	A	71384174	3	1	19	1	0	0	0	0	1	0	0	0	13994	1116	39	1	2387	1	SDK2	17	71384174	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	187429	71384174	9811036	2588	16101											
DNAI2	64446	broad.mit.edu	37	chr17	72278019	72278019	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggaagcagtgcaatttctcGgaccgccaggccgagctgaa	10	6	14	11	3	1	1	0	1	1	0	2	4	1	3	3	3	3	3	3	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:72278019G>A	uc002jkf.2	+	2	162	c.63G>A	c.(61-63)TCG>TCA	p.S21S	DNAI2_uc002jkg.2_RNA|DNAI2_uc010dfp.2_RNA	NM_023036	NP_075462	Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate polypeptide 2	21					cilium assembly	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	microtubule motor activity			ovary(2)|central_nervous_system(1)	3						GCAATTTCTCGGACCGCCAGG	0.622									Kartagener_syndrome				58	118					0	0	0.01441	0	0		A	72278019	A	A	72278019	2	1	19	1	0	0	0	0	0	0	0	1	4616	1103	39	1		1	DNAI2	17	72278019	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	893845	72278019	8917191	2589	16102											
DNAI2	64446	broad.mit.edu	37	chr17	72301516	72301516	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacccgaagaacttcctgacGgttggcgactggacagcccg	9	7	12	13	4	0	2	0	1	0	1	1	5	1	3	3	3	3	1	3	3	3	3	rs142571722	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:72301516G>A	uc002jkf.2	+	9	1245	c.1146G>A	c.(1144-1146)ACG>ACA	p.T382T	DNAI2_uc002jkg.2_RNA|DNAI2_uc010dfp.2_RNA|uc002jkh.1_3'UTR|DNAI2_uc002jki.2_RNA	NM_023036	NP_075462	Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate polypeptide 2	382	WD 4.				cilium assembly	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	microtubule motor activity			ovary(2)|central_nervous_system(1)	3						ACTTCCTGACGGTTGGCGACT	0.577									Kartagener_syndrome				23	56					0	0	0.00278	0	0		A	72301516	A	A	72301516	2	1	19	1	0	0	0	0	0	0	0	1	4616	1103	39	1		1	DNAI2	17	72301516	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	23497	72301516	8893694	2590	16103											
GRIN2C	2905	broad.mit.edu	37	chr17	72838813	72838813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaaaatggcaggtgggCgtgggcgtgcaggcagacgt	9	5	18	9	3	0	1	0	0	0	1	0	1	0	1	1	5	2	4	1	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:72838813C>T	uc002jlt.1	-	13	3619	c.3463G>A	c.(3463-3465)GCC>ACC	p.A1155T	GRIN2C_uc010wrh.1_RNA	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	1155	Cytoplasmic (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	GGCAGGTGGGCGTGGGCGTGC	0.706													4	4					0	0	0.000602	0	0		T	72838813	T	T	72838813	3	4	19	1	0	0	0	0	1	0	0	0	6797	768	27	1	242	1	GRIN2C	17	72838813	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	537297	72838813	8356397	2591	16104											
LLGL2	3993	broad.mit.edu	37	chr17	73565397	73565397	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacctggctgtggcaggcacGgcagggcaggtagcaggctg	7	6	18	10	1	0	0	0	0	0	0	0	0	0	0	1	7	2	8	1	7	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:73565397G>T	uc002joh.2	+	14	1726	c.1572G>T	c.(1570-1572)ACG>ACT	p.T524T	LLGL2_uc002joi.2_Silent_p.T524T|LLGL2_uc010dgg.1_Silent_p.T524T|LLGL2_uc002joj.2_Silent_p.T513T|LLGL2_uc010wsd.1_Silent_p.T151T	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	524	WD 9.				cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			TGGCAGGCACGGCAGGGCAGG	0.647													28	56					1.42536e-11	1.49562e-11	0.004656	1	0		T	73565397	T	T	73565397	2	4	19	1	0	0	0	0	0	0	0	1	8851	1103	39	5		5	LLGL2	17	73565397	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	726584	73565397	7629813	2592	16105											
RECQL5	9400	broad.mit.edu	37	chr17	73625122	73625122	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggccatcgggggtccctgaAccccctcacaggaggggcag	7	4	16	14	1	1	1	1	1	0	0	3	2	2	2	4	6	1	1	4	6	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:73625122A>G	uc010dgl.2	-	16	2537	c.2381T>C	c.(2380-2382)GTT>GCT	p.V794A	RECQL5_uc010dgk.2_Missense_Mutation_p.V767A|RECQL5_uc002jot.3_5'Flank	NM_004259	NP_004250	O94762	RECQ5_HUMAN	RecQ protein-like 5 isoform 1	794					DNA recombination|DNA repair	cytoplasm|nuclear membrane|nucleolus|nucleoplasm	ATP binding|ATP-dependent helicase activity|DNA helicase activity|nucleic acid binding			kidney(3)	3	all_cancers(13;2.73e-08)|Breast(9;6.04e-09)|all_epithelial(9;6.79e-09)		all cancers(21;1.15e-06)|Epithelial(20;2.19e-06)|Lung(188;0.101)|LUSC - Lung squamous cell carcinoma(166;0.112)			GGGTCCCTGAACCCCCTCACA	0.652								Other_identified_genes_with_known_or_suspected_DNA_repair_function					24	47					0	0	0.008361	0	0		G	73625122	G	G	73625122	3	3	19	1	0	0	0	0	1	0	0	0	13228	43	2	3	614	3	RECQL5	17	73625122	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	59725	73625122	7570088	2593	16106											
GALK1	2584	broad.mit.edu	37	chr17	73759466	73759466	+	Frame_Shift_Del	DEL	C	-	-																															atgctgagctggacaggccaCcccccaggggcactgagctg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:73759466delC	uc010wsi.1	-	3	473	c.410delG	c.(409-411)GGTfs	p.G137fs	GALK1_uc002jpk.2_Frame_Shift_Del_p.G137fs|GALK1_uc010wsj.1_Frame_Shift_Del_p.G137fs	NM_000154	NP_000145	P51570	GALK1_HUMAN	galactokinase 1	137	ATP (Potential).				galactose catabolic process	cytosol	ATP binding|galactokinase activity|galactose binding				0	all_cancers(13;1.5e-07)		all cancers(21;1.03e-06)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGACAGGCCACCCCCCAGGGG	0.652													10	23	---	---	---	---						.	-	73759466	-	-	73759466	7	5	19	1	0	1	0	1	0	0	0	0	6218	507	18	0	792	0	GALK1	17	73759466	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	134344	73759466	7435744	2594	16107											
FBF1	85302	broad.mit.edu	37	chr17	73910955	73910955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccactcggcagccaggCgccgccgctcctccccgcac	4	3	10	24	6	0	0	0	0	0	0	3	0	2	0	8	2	1	3	8	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:73910955C>T	uc002jqc.2	-	24	2916	c.2642G>A	c.(2641-2643)CGC>CAC	p.R881H	FBF1_uc002jqa.1_RNA|FBF1_uc010wsp.1_Missense_Mutation_p.R872H|FBF1_uc002jqb.2_RNA|FBF1_uc010dgr.1_Missense_Mutation_p.R192H	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1	881											0						GGCAGCCAGGCGCCGCCGCTC	0.687													7	18					0	0	0.00308	0	0		T	73910955	T	T	73910955	3	4	19	1	0	0	0	0	1	0	0	0	5709	768	27	1	783	1	FBF1	17	73910955	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	151489	73910955	7284255	2595	16108											
EVPL	2125	broad.mit.edu	37	chr17	74018092	74018092	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgcccaggctctgcccGcgccacgacgccgccttctg	4	6	12	19	5	2	0	0	0	2	0	2	1	2	0	5	2	2	2	5	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:74018092G>A	uc002jqi.2	-	7	891	c.663C>T	c.(661-663)CGC>CGT	p.R221R	EVPL_uc010wss.1_Silent_p.R221R|EVPL_uc010wst.1_5'UTR	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	221	Globular 1.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						GGCTCTGCCCGCGCCACGACG	0.701													3	3					0	0	0.004672	0	0		A	74018092	A	A	74018092	2	1	19	1	0	0	0	0	0	0	0	1	5300	1074	38	1		1	EVPL	17	74018092	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	107137	74018092	7177118	2596	16109											
CYGB	114757	broad.mit.edu	37	chr17	74527136	74527136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggctgtagatgaggccaCgcagcttggcccaggctctc	6	8	14	13	2	1	2	0	1	1	1	2	2	1	2	2	4	1	5	2	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:74527136C>T	uc002jru.1	-	3	622	c.464G>A	c.(463-465)CGT>CAT	p.R155H	CYGB_uc002jrv.1_Missense_Mutation_p.R90H|PRCD_uc002jrw.1_Intron	NM_134268	NP_599030	Q8WWM9	CYGB_HUMAN	cytoglobin	155	Globin.				response to oxidative stress	cytoplasm	heme binding|oxygen binding|oxygen transporter activity|peroxidase activity				0						GATGAGGCCACGCAGCTTGGC	0.642													11	19					0	0	0.00245	0	0		T	74527136	T	T	74527136	3	4	19	1	0	0	0	0	1	0	0	0	4142	536	19	1	116	1	CYGB	17	74527136	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	509044	74527136	6668074	2597	16110											
SEC14L1	6397	broad.mit.edu	37	chr17	75202391	75202391	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaaagcgctgctgcggaTcatcgaggtggtggaggcca	8	8	17	8	3	1	1	1	1	0	0	2	4	1	3	1	5	3	2	1	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:75202391T>A	uc002jto.2	+	12	1517	c.1250T>A	c.(1249-1251)ATC>AAC	p.I417N	SEC14L1_uc010dhc.2_Missense_Mutation_p.I417N|SEC14L1_uc010wth.1_Missense_Mutation_p.I417N|SEC14L1_uc002jtm.2_Missense_Mutation_p.I417N|SEC14L1_uc010wti.1_Missense_Mutation_p.I383N|SEC14L1_uc010wtj.1_5'Flank|SEC14L1_uc002jtr.2_5'Flank	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	417	CRAL-TRIO.				transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						CTGCTGCGGATCATCGAGGTG	0.607													23	48					0	0	0.00278	0	0		A	75202391	A	A	75202391	3	1	19	1	0	0	0	0	1	0	0	0	14006	1435	50	5	1288	5	SEC14L1	17	75202391	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	675255	75202391	5992819	2598	16111											
SEC14L1	6397	broad.mit.edu	37	chr17	75202481	75202481	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcctgtgctctggacgcTggtgggttgagatgcttttt	4	17	13	7	1	1	1	0	1	1	1	2	3	2	2	1	3	2	4	1	3	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:75202481T>C	uc002jto.2	+	12	1607	c.1340T>C	c.(1339-1341)CTG>CCG	p.L447P	SEC14L1_uc010dhc.2_Missense_Mutation_p.L447P|SEC14L1_uc010wth.1_Missense_Mutation_p.L447P|SEC14L1_uc002jtm.2_Missense_Mutation_p.L447P|SEC14L1_uc010wti.1_Missense_Mutation_p.L413P|SEC14L1_uc010wtj.1_5'Flank|SEC14L1_uc002jtr.2_5'Flank	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	447	CRAL-TRIO.				transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						CTCTGGACGCTGGTGGGTTGA	0.517													15	38					0	0	0.003163	0	0		C	75202481	C	C	75202481	3	2	19	1	0	0	0	0	1	0	0	0	14006	1594	55	3	1378	3	SEC14L1	17	75202481	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	90	75202481	5992729	2599	16112											
SEPT9	10801	broad.mit.edu	37	chr17	75493432	75493432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgtgagtttgcctacctgCgggaccttctcatcaggtga	7	12	11	11	1	2	2	2	2	1	0	3	3	2	3	3	2	3	1	3	2	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:75493432C>T	uc002jts.3	+	11	1735	c.1609C>T	c.(1609-1611)CGG>TGG	p.R537W	SEPT9_uc010wtk.1_Missense_Mutation_p.R518W|SEPT9_uc002jtt.3_Missense_Mutation_p.R373W|SEPT9_uc002jtu.3_Missense_Mutation_p.R519W|SEPT9_uc002jtv.2_Missense_Mutation_p.R530W|SEPT9_uc002jtw.2_Missense_Mutation_p.R373W|SEPT9_uc010wtl.1_Missense_Mutation_p.R313W|SEPT9_uc002jty.3_Missense_Mutation_p.R286W|SEPT9_uc010wtm.1_Missense_Mutation_p.R286W|SEPT9_uc010wtn.1_Missense_Mutation_p.R286W|SEPT9_uc010dhd.2_Missense_Mutation_p.R425W	NM_001113491	NP_001106963	Q9UHD8	SEPT9_HUMAN	septin 9 isoform a	537					cell cycle|cell division|protein heterooligomerization	microtubule|perinuclear region of cytoplasm|stress fiber	GTP binding|GTPase activity|protein binding|protein binding			breast(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(99;0.153)			TGCCTACCTGCGGGACCTTCT	0.607													13	22					0	0	0.003163	0	0		T	75493432	T	T	75493432	3	4	19	1	0	0	0	0	1	0	0	0	14096	759	27	1	2125	1	SEPT9	17	75493432	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	290951	75493432	5701778	2600	16113											
CYTH1	9267	broad.mit.edu	37	chr17	76696475	76696475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaaacgcctccatcatcCggtcgatcttctgggcctct	6	10	10	15	3	4	0	1	0	3	0	7	1	6	0	4	3	1	1	4	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:76696475C>T	uc002jvw.2	-	7	559	c.488G>A	c.(487-489)CGG>CAG	p.R163Q	CYTH1_uc010wtw.1_Missense_Mutation_p.R104Q|CYTH1_uc010wtx.1_Missense_Mutation_p.R104Q	NM_017456	NP_059430	Q15438	CYH1_HUMAN	cytohesin 1 isoform 2	163	SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						CTCCATCATCCGGTCGATCTT	0.507													5	26					0	0	0.000602	0	0		T	76696475	T	T	76696475	3	4	19	1	0	0	0	0	1	0	0	0	4206	652	23	1	736	1	CYTH1	17	76696475	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1203043	76696475	4498735	2601	16114											
CYTH1	9267	broad.mit.edu	37	chr17	76705763	76705763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagctcctgttttctcCgtcggatgttctccagttct	4	15	8	14	2	3	0	0	0	3	0	7	1	4	1	4	1	2	5	4	1	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:76705763C>T	uc002jvw.2	-	2	145	c.74G>A	c.(73-75)CGG>CAG	p.R25Q	CYTH1_uc010wtw.1_5'UTR|CYTH1_uc010wtx.1_5'UTR	NM_017456	NP_059430	Q15438	CYH1_HUMAN	cytohesin 1 isoform 2	25	Potential.				regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						CTGTTTTCTCCGTCGGATGTT	0.438													31	79					0	0	0.006999	0	0		T	76705763	T	T	76705763	3	4	19	1	0	0	0	0	1	0	0	0	4206	652	23	1	1170	1	CYTH1	17	76705763	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	9288	76705763	4489447	2602	16115											
CANT1	124583	broad.mit.edu	37	chr17	76989793	76989793	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgtcggtgttggggatgaActtgaaggacgagaagccgt	9	9	17	6	4	0	3	0	2	0	1	2	6	0	5	1	4	2	1	1	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:76989793A>G	uc002jwn.2	-	6	1484	c.1045T>C	c.(1045-1047)TTC>CTC	p.F349L	CANT1_uc002jwk.2_Missense_Mutation_p.F349L|CANT1_uc002jwj.2_Missense_Mutation_p.F349L|CANT1_uc002jwl.2_Intron|CANT1_uc002jwm.1_RNA	NM_001159772	NP_001153244	Q8WVQ1	CANT1_HUMAN	calcium activated nucleotidase 1	349	Lumenal (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to membrane	calcium ion binding|nucleoside-diphosphatase activity|signal transducer activity				0			BRCA - Breast invasive adenocarcinoma(99;0.0362)|OV - Ovarian serous cystadenocarcinoma(97;0.139)			TTGGGGATGAACTTGAAGGAC	0.642			T	ETV4	prostate								4	92					0	0	0.009096	0	0		G	76989793	G	G	76989793	3	3	19	1	0	0	0	0	1	0	0	0	2620	43	2	3	164	3	CANT1	17	76989793	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	284030	76989793	4205417	2603	16116											
CCDC40	55036	broad.mit.edu	37	chr17	78055787	78055787	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagctgcaggagcacaTgacctccaacaagaccacca	15	3	10	13	0	0	3	0	1	0	2	1	5	1	4	4	2	4	3	4	2	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:78055787T>C	uc010dht.2	+	12	1946	c.1919T>C	c.(1918-1920)ATG>ACG	p.M640T	CCDC40_uc002jxm.3_Missense_Mutation_p.M423T|CCDC40_uc002jxn.3_Missense_Mutation_p.M36T	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	640					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			CAGGAGCACATGACCTCCAAC	0.607													13	30					0	0	0.00245	0	0		C	78055787	C	C	78055787	3	2	19	1	0	0	0	0	1	0	0	0	2815	1464	51	3	1965	3	CCDC40	17	78055787	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1065994	78055787	3139423	2604	16117											
SLC26A11	284129	broad.mit.edu	37	chr17	78222037	78222037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcatgctcctgcactctgCagccaggcctgagaccaagg	8	7	11	15	0	2	1	1	1	1	1	3	2	3	1	4	2	4	4	4	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:78222037C>T	uc002jyb.1	+	14	1672	c.1403C>T	c.(1402-1404)GCA>GTA	p.A468V	SLC26A11_uc002jyc.1_Missense_Mutation_p.A468V|SLC26A11_uc002jyd.1_Missense_Mutation_p.A468V|SLC26A11_uc010dhv.1_Missense_Mutation_p.A468V	NM_173626	NP_775897	Q86WA9	S2611_HUMAN	solute carrier family 26, member 11	468	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|plasma membrane	anion:anion antiporter activity|secondary active sulfate transmembrane transporter activity				0	all_neural(118;0.0538)		OV - Ovarian serous cystadenocarcinoma(97;0.0344)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			CTGCACTCTGCAGCCAGGCCT	0.642													7	12					0	0	0.001984	0	0		T	78222037	T	T	78222037	3	4	19	1	0	0	0	0	1	0	0	0	14541	710	25	2	1449	2	SLC26A11	17	78222037	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	166250	78222037	2973173	2605	16118											
RNF213	57674	broad.mit.edu	37	chr17	78317675	78317675	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtgcagactggaatttggGtgtttcttttcaagctcctc	7	15	11	8	0	2	1	1	0	1	1	4	2	3	2	1	3	2	3	1	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:78317675G>C	uc002jyh.1	+	3	644	c.421G>C	c.(421-423)GTG>CTG	p.V141L		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TGGAATTTGGGTGTTTCTTTT	0.428													29	186					0	0	0.008361	0	0		C	78317675	C	C	78317675	3	2	19	1	0	0	0	0	1	0	0	0	13502	1261	44	5	6627	5	RNF213	17	78317675	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	95638	78317675	2877535	2606	16119											
RNF213	57674	broad.mit.edu	37	chr17	78338303	78338303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctaggaaccgagagccgcGtccccgagttacaggggctg	8	6	14	13	4	0	1	0	0	0	1	2	4	2	2	5	3	3	2	5	3	3	2	rs147900479	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:78338303G>A	uc002jyh.1	+	17	6263	c.6040G>A	c.(6040-6042)GTC>ATC	p.V2014I	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.V396I	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			CGAGAGCCGCGTCCCCGAGTT	0.587													16	50					0	0	0.006122	0	0		A	78338303	A	A	78338303	3	1	19	1	0	0	0	0	1	0	0	0	13502	1145	40	1	12302	1	RNF213	17	78338303	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	20628	78338303	2856907	2607	16120											
RNF213	57674	broad.mit.edu	37	chr17	78346449	78346449	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcctgccaacgaggcctcGgttgaatacctgcaagaggt	10	7	13	11	2	0	2	0	1	0	1	1	4	0	2	4	3	5	2	4	3	4	2	rs141681070	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:78346449G>A	uc002jyh.1	+	23	7108	c.6885G>A	c.(6883-6885)TCG>TCA	p.S2295S	uc002jyi.1_Intron|RNF213_uc010dhw.1_Silent_p.S677S	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			ACGAGGCCTCGGTTGAATACC	0.577													23	26					0	0	0.00333	0	0		A	78346449	A	A	78346449	2	1	19	1	0	0	0	0	0	0	0	1	13502	1103	39	1		1	RNF213	17	78346449	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	8146	78346449	2848761	2608	16121											
RNF213	57674	broad.mit.edu	37	chr17	78360232	78360232	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccaaggaaaacaacaggTttgtgcacgagccaccagga	14	6	10	11	1	1	0	0	0	1	0	2	3	1	2	3	3	4	2	3	3	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:78360232T>C	uc002jyh.1	+	37	9162	c.8939_splice	c.e37+2	p.S2980_splice	uc002jyi.1_Intron|RNF213_uc010dhx.1_Splice_Site	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213											ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			AAACAACAGGTTTGTGCACGA	0.557													11	38					0	0	0.00245	0	0		C	78360232	C	C	78360232	5	2	19	1	0	0	0	0	0	0	1	0	13502	1739	60	3	15283	3	RNF213	17	78360232	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	13783	78360232	2834978	2609	16122											
SLC38A10	124565	broad.mit.edu	37	chr17	79220314	79220314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcagagtgctccagggagCgctggttaaggtcctgggat	7	9	15	10	1	1	1	1	0	0	1	3	3	3	3	3	4	2	3	3	4	1	1	rs74002215		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:79220314C>T	uc002jzz.1	-	16	2777	c.2402G>A	c.(2401-2403)CGC>CAC	p.R801H	SLC38A10_uc002jzy.1_Missense_Mutation_p.R719H	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	801					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CTCCAGGGAGCGCTGGTTAAG	0.677													15	26					0	0	0.00245	0	0		T	79220314	T	T	79220314	3	4	19	1	0	0	0	0	1	0	0	0	14627	768	27	1	961	1	SLC38A10	17	79220314	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	860082	79220314	1974896	2610	16123											
C17orf90	339229	broad.mit.edu	37	chr17	79632587	79632587	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggaagcctctggcagcAgtccgggctggagaaccggc	8	5	15	13	2	1	1	0	0	1	1	3	3	3	2	4	5	3	3	4	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:79632587A>G	uc002kba.2	-	2	99	c.88T>C	c.(88-90)TGC>CGC	p.C30R	C17orf90_uc002kbb.2_3'UTR|CCDC137_uc002kbc.3_5'Flank|CCDC137_uc002kbd.2_5'Flank	NM_001039842	NP_001034931	Q5BKU9	CQ090_HUMAN	hypothetical protein LOC339229	30											0	all_neural(118;0.0878)|all_lung(278;0.23)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			CTCTGGCAGCAGTCCGGGCTG	0.612													5	29					0	0	0.001168	0	0		G	79632587	G	G	79632587	3	3	19	1	0	0	0	0	1	0	0	0	1894	188	7	3	359	3	C17orf90	17	79632587	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	412273	79632587	1562623	2611	16124											
FASN	2194	broad.mit.edu	37	chr17	80049217	80049217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggtggcggggacagccGcgatgtcgttcagcatgctc	5	8	17	11	5	1	0	1	0	0	0	3	2	1	1	1	5	3	3	1	5	0	1	rs143812680		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:80049217G>A	uc002kdu.2	-	9	1490	c.1373C>T	c.(1372-1374)GCG>GTG	p.A458V	FASN_uc002kdw.1_5'Flank	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	458	Acyl and malonyl transferases (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	GGGGACAGCCGCGATGTCGTT	0.716													7	12					0	0	0.00308	0	0		A	80049217	A	A	80049217	3	1	19	1	0	0	0	0	1	0	0	0	5697	1087	38	1	6302	1	FASN	17	80049217	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	416630	80049217	1145993	2612	16125											
CCDC57	284001	broad.mit.edu	37	chr17	80059697	80059697	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggtggcaatgcctgccTgcatcttgacgggcctcctg	4	10	14	13	1	1	1	0	1	1	0	2	1	2	1	4	4	3	2	4	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:80059697T>C	uc002kdx.1	-	17	2646	c.2609A>G	c.(2608-2610)CAG>CGG	p.Q870R		NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	871										ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			AATGCCTGCCTGCATCTTGAC	0.597													24	56					0	0	0.00333	0	0		C	80059697	C	C	80059697	3	2	19	1	0	0	0	0	1	0	0	0	2830	1580	55	3	142	3	CCDC57	17	80059697	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	10480	80059697	1135513	2613	16126											
RAB40B	10966	broad.mit.edu	37	chr17	80615771	80615771	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagctgtttctggtgcagtTtttgggggggctctgggggg	2	13	20	6	0	2	0	0	0	2	0	2	0	2	0	0	7	2	6	0	7	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:80615771T>G	uc002kft.2	-	6	931	c.805A>C	c.(805-807)AAC>CAC	p.N269H	RAB40B_uc002kfs.2_RNA	NM_006822	NP_006813	Q12829	RB40B_HUMAN	RAB40B, member RAS oncogene family	269					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			central_nervous_system(1)	1	Breast(20;0.00132)|all_neural(118;0.0952)	all_cancers(8;0.072)|all_epithelial(8;0.139)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.061)			CTGGTGCAGTTTTTGGGGGGG	0.587													55	122					0	0	0.01441	0	0		G	80615771	G	G	80615771	3	3	19	1	0	0	0	0	1	0	0	0	12966	1841	64	5	35	5	RAB40B	17	80615771	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	556074	80615771	579439	2614	16127											
THOC1	9984	broad.mit.edu	37	chr18	216529	216529	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccatattttcaagatatTctggtaaacttttaaactgc	13	17	4	7	0	2	1	1	0	1	1	2	1	2	1	1	1	4	1	1	1	8	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:216529T>C	uc002kkj.3	-	19	1599	c.1559A>G	c.(1558-1560)GAA>GGA	p.E520G	THOC1_uc002kkk.3_RNA|THOC1_uc002kkh.3_Missense_Mutation_p.E144G	NM_005131	NP_005122	Q96FV9	THOC1_HUMAN	THO complex 1	520					apoptosis|intronless viral mRNA export from host nucleus|mRNA processing|regulation of transcription elongation, DNA-dependent|RNA splicing|signal transduction|transcription, DNA-dependent	cytoplasm|nuclear matrix|nuclear speck|THO complex part of transcription export complex	DNA binding|protein binding|RNA binding			ovary(1)	1		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				TTCAAGATATTCTGGTAAACT	0.383													96	184					0	0	0.01441	0	0		C	216529	C	C	216529	3	2	19	1	0	0	0	0	1	0	0	0	15889	1783	62	3	426	3	THOC1	18	216529	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08		216529	77860719	2615	16128											
CLUL1	27098	broad.mit.edu	37	chr18	627251	627251	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgactgtggatgtgaattCtctctttaacaggagtttta	9	17	10	5	0	2	2	0	2	2	0	3	4	2	4	0	2	1	2	0	2	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:627251C>A	uc002kkp.2	+	5	723	c.578C>A	c.(577-579)TCT>TAT	p.S193Y	CLUL1_uc010wys.1_Missense_Mutation_p.S245Y|CLUL1_uc002kkq.2_Missense_Mutation_p.S193Y	NM_014410	NP_055225	Q15846	CLUL1_HUMAN	clusterin-like 1 (retinal) precursor	193					cell death	extracellular region				ovary(2)	2						GATGTGAATTCTCTCTTTAAC	0.408													100	205					3.24833e-45	3.49613e-45	0.01441	1	0		A	627251	A	A	627251	3	1	19	1	0	0	0	0	1	0	0	0	3573	913	32	5	592	5	CLUL1	18	627251	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	410722	627251	77449997	2616	16129											
LPIN2	9663	broad.mit.edu	37	chr18	2920878	2920878	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtgtgtaggcatagacaTcctgcagaagaaaatagcaa	15	9	10	7	0	0	3	0	0	0	3	1	3	1	3	1	1	2	4	1	1	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:2920878T>C	uc002klo.2	-	19	2683	c.2444A>G	c.(2443-2445)GAT>GGT	p.D815G		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	815	C-LIP.				fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		GGCATAGACATCCTGCAGAAG	0.463													34	65					0	0	0.004878	0	0		C	2920878	C	C	2920878	3	2	19	1	0	0	0	0	1	0	0	0	8937	1449	50	3	254	3	LPIN2	18	2920878	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2293627	2920878	75156370	2617	16130											
L3MBTL4	91133	broad.mit.edu	37	chr18	6239801	6239801	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatggtcgccacacacaccAaggaagggttcttcctgtcc	9	9	9	14	1	1	0	0	0	1	0	4	1	3	1	4	3	0	1	4	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:6239801A>G	uc002kmz.3	-	9	783	c.623T>C	c.(622-624)TTG>TCG	p.L208S	L3MBTL4_uc010dkt.2_Missense_Mutation_p.L208S|L3MBTL4_uc002kmy.3_Missense_Mutation_p.L46S	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	208	MBT 2.				chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				CACACACACCAAGGAAGGGTT	0.468													8	80					0	0	0.00308	0	0		G	6239801	G	G	6239801	3	3	19	1	0	0	0	0	1	0	0	0	8610	131	5	3	1296	3	L3MBTL4	18	6239801	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3318923	6239801	71837447	2618	16131											
ARHGAP28	79822	broad.mit.edu	37	chr18	6873731	6873731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcctcctggacggtgaccGaaagaaagaccctggagtga	12	6	13	10	2	0	4	0	2	0	2	2	7	2	6	4	3	0	0	4	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:6873731G>A	uc010wzi.1	+	8	876	c.638G>A	c.(637-639)CGA>CAA	p.R213Q	ARHGAP28_uc002knc.2_Missense_Mutation_p.R338Q|ARHGAP28_uc002knd.2_Missense_Mutation_p.R231Q|ARHGAP28_uc002kne.2_Missense_Mutation_p.R231Q|ARHGAP28_uc002knf.2_Missense_Mutation_p.R222Q			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	213					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				GACGGTGACCGAAAGAAAGAC	0.418													11	26					0	0	0.00245	0	0		A	6873731	A	A	6873731	3	1	19	1	0	0	0	0	1	0	0	0	877	1058	37	1	718	1	ARHGAP28	18	6873731	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	633930	6873731	71203517	2619	16132											
PTPRM	5797	broad.mit.edu	37	chr18	8244194	8244194	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattcatggacacgcacaaTctgaatgggagatgtaagtg	13	10	11	7	1	3	2	2	1	1	1	3	4	3	3	0	2	0	2	0	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:8244194T>A	uc002knn.3	+	15	2942	c.2439T>A	c.(2437-2439)AAT>AAA	p.N813K	PTPRM_uc010dkv.2_Missense_Mutation_p.N813K|PTPRM_uc010wzl.1_Missense_Mutation_p.N600K	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	813	Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				ACACGCACAATCTGAATGGGA	0.448													32	70					0	0	0.013726	0	0		A	8244194	A	A	8244194	3	1	19	1	0	0	0	0	1	0	0	0	12831	1432	50	5	2497	5	PTPRM	18	8244194	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1370463	8244194	69833054	2620	16133											
RAB12	201475	broad.mit.edu	37	chr18	8609919	8609919	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggagcgcttcaccgacgAcaccttctgcgaggcctgca	8	7	12	14	4	2	0	1	0	1	0	2	5	2	1	3	2	3	2	3	2	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:8609919A>T	uc002knp.2	+	1	477	c.194A>T	c.(193-195)GAC>GTC	p.D65V	RAB12_uc002kno.1_Missense_Mutation_p.D161V	NM_001025300	NP_001020471	Q6IQ22	RAB12_HUMAN	RAB12, member RAS oncogene family	65					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding				0						TTCACCGACGACACCTTCTGC	0.701													16	23					0	0	0.00499	0	0		T	8609919	T	T	8609919	3	4	19	1	0	0	0	0	1	0	0	0	12923	275	10	5	196	5	RAB12	18	8609919	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	365725	8609919	69467329	2621	16134											
KIAA0802	23255	broad.mit.edu	37	chr18	8784835	8784835	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaggagctgggcccagaCttgcaggtaagggggctcgt	8	6	19	8	1	0	1	0	0	0	1	1	3	0	3	1	6	2	4	1	6	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:8784835C>T	uc002knr.2	+	6	1867	c.1725C>T	c.(1723-1725)GAC>GAT	p.D575D	KIAA0802_uc002knq.2_Silent_p.D575D|KIAA0802_uc010dkw.1_Silent_p.D413D	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	926											0						TGGGCCCAGACTTGCAGGTAA	0.647													16	60					0	0	0.004007	0	0		T	8784835	T	T	8784835	2	4	19	1	0	0	0	0	0	0	0	1	8210	564	20	4		4	KIAA0802	18	8784835	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	174916	8784835	69292413	2622	16135											
ANKRD12	23253	broad.mit.edu	37	chr18	9256062	9256062	+	Frame_Shift_Del	DEL	A	-	-																															aagaaaagcacttgatggagAaaaaaaataaacaatcagat																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:9256062delA	uc002knv.2	+	9	3054	c.2797delA	c.(2797-2799)AAAfs	p.K933fs	ANKRD12_uc002knw.2_Frame_Shift_Del_p.K910fs|ANKRD12_uc002knx.2_Frame_Shift_Del_p.K910fs|ANKRD12_uc010dkx.1_Frame_Shift_Del_p.K640fs	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	933						nucleus				ovary(2)|central_nervous_system(1)	3						CTTGATGGAGAAAAAAAATAA	0.323													6	13	---	---	---	---						.	-	9256062	-	-	9256062	7	5	19	1	0	1	0	1	0	0	0	0	640	247	9	0	2827	0	ANKRD12	18	9256062	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	471227	9256062	68821186	2623	16136											
TXNDC2	84203	broad.mit.edu	37	chr18	9887067	9887067	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaggacctccccaagtcCtcagaagaagccatccagcc	13	4	9	15	0	1	2	1	0	0	2	4	4	4	4	7	2	2	0	7	2	4	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:9887067C>A	uc002koi.3	+	2	1040	c.591C>A	c.(589-591)TCC>TCA	p.S197S	TXNDC2_uc010wzq.1_Intron|TXNDC2_uc002koh.3_Silent_p.S130S	NM_001098529	NP_001091999	Q86VQ3	TXND2_HUMAN	thioredoxin domain-containing 2 isoform 2	197	22 X 15 AA approximate tandem repeat of Q-P-K-X-G-D-I-P-K-S-[PS]-E-[KE]-X-I.|6.				cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	cytoplasm	electron carrier activity|nutrient reservoir activity|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity			ovary(1)|pancreas(1)	2						TCCCCAAGTCCTCAGAAGAAG	0.567													48	151					4.25531e-23	4.53037e-23	0.01441	1	0		A	9887067	A	A	9887067	2	1	19	1	0	0	0	0	0	0	0	1	16823	668	24	5		5	TXNDC2	18	9887067	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	631005	9887067	68190181	2624	16137											
GNAL	2774	broad.mit.edu	37	chr18	11752365	11752365	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtcgcaggagccgcacaCgtctccaactctctattgct	7	9	9	16	4	2	0	0	0	2	0	5	1	2	1	3	1	3	3	3	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:11752365C>T	uc010dkz.2	+	2	179	c.-67C>T	c.(-69--65)CACGT>CATGT		GNAL_uc002kqc.2_Intron|GNAL_uc002kqd.2_Translation_Start_Site	NM_001142339	NP_001135811	P38405	GNAL_HUMAN	guanine nucleotide binding protein (G protein),						activation of adenylate cyclase activity by dopamine receptor signaling pathway|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception of smell|synaptic transmission	heterotrimeric G-protein complex	adenylate cyclase activity|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						GAGCCGCACACGTCTCCAACT	0.562													7	66					0	0	0.001984	0	0		T	11752365	T	T	11752365	1	4	19	1	0	0	0	0	0	0	0	0	6522	551	19	1		1	GNAL	18	11752365	Translation_Start_Site	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1865298	11752365	66324883	2625	16138											
MC2R	4158	broad.mit.edu	37	chr18	13884985	13884985	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcgggaacagcgacgtgAaggtgatcactgtgggcaca	11	6	15	9	3	2	2	2	2	0	0	2	4	2	3	0	3	3	1	0	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:13884985A>G	uc002ksp.1	-	2	710	c.533T>C	c.(532-534)TTC>TCC	p.F178S		NM_000529	NP_000520	Q01718	ACTHR_HUMAN	melanocortin 2 receptor	178	Extracellular (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	corticotropin receptor activity|protein binding			ovary(4)|skin(1)	5					Corticotropin(DB01285)|Cosyntropin(DB01284)	CAGCGACGTGAAGGTGATCAC	0.582													31	77					0	0	0.003755	0	0		G	13884985	G	G	13884985	3	3	19	1	0	0	0	0	1	0	0	0	9382	246	9	3	364	3	MC2R	18	13884985	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2132620	13884985	64192263	2626	16139											
ROCK1	6093	broad.mit.edu	37	chr18	18588031	18588031	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaatttaccttcattttctAcatttcttctcttctcattt	8	22	0	11	0	5	0	2	0	4	0	7	0	5	0	1	0	2	0	1	0	3	10			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:18588031A>G	uc002kte.2	-	14	2476	c.1535T>C	c.(1534-1536)GTA>GCA	p.V512A		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	512	Interaction with FHOD1.|Potential.|REM.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					TTCATTTTCTACATTTCTTCT	0.323													6	17					0	0	0.001168	0	0		G	18588031	G	G	18588031	3	3	19	1	0	0	0	0	1	0	0	0	13542	391	14	3	2609	3	ROCK1	18	18588031	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	4703046	18588031	59489217	2627	16140											
LAMA3	3909	broad.mit.edu	37	chr18	21441613	21441613	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccctctttccagtttGtggatatgctgggctggcac	4	15	10	12	0	2	0	0	0	2	0	5	1	4	1	2	3	1	4	2	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:21441613G>C	uc002kuq.2	+	35	4512	c.4426G>C	c.(4426-4428)GTG>CTG	p.V1476L	LAMA3_uc002kur.2_Missense_Mutation_p.V1476L	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1476	Laminin IV type A.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTTCCAGTTTGTGGATATGCT	0.557													4	49					0	0	0.009096	0	0		C	21441613	C	C	21441613	3	2	19	1	0	0	0	0	1	0	0	0	8623	1377	48	5	4564	5	LAMA3	18	21441613	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2853582	21441613	56635635	2628	16141											
TTC39C	125488	broad.mit.edu	37	chr18	21660762	21660762	+	Frame_Shift_Del	DEL	T	-	-																															tgttagctttggatatggccTttttcacctttgcatatcca																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:21660762delT	uc002kuw.2	+	5	1126	c.674delT	c.(673-675)CTTfs	p.L225fs	TTC39C_uc002kuu.2_Frame_Shift_Del_p.L164fs	NM_001135993	NP_001129465	Q8N584	TT39C_HUMAN	tetratricopeptide repeat domain 39C isoform 1	225							binding			ovary(1)	1						GGATATGGCCTTTTTCACCTT	0.478													35	73	---	---	---	---						.	-	21660762	-	-	21660762	7	5	19	1	0	1	0	1	0	0	0	0	16735	1609	56	0	692	0	TTC39C	18	21660762	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	219149	21660762	56416486	2629	16142											
ZNF521	25925	broad.mit.edu	37	chr18	22805224	22805224	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccacaaatgtcgcagccGtacataggctcagaggtgtc	10	7	11	13	2	1	1	1	0	0	1	3	1	1	1	3	2	2	3	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:22805224G>A	uc002kvk.2	-	4	2905	c.2658C>T	c.(2656-2658)TAC>TAT	p.Y886Y	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.Y886Y|ZNF521_uc002kvl.2_Silent_p.Y666Y	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	886	C2H2-type 21; degenerate.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TGTCGCAGCCGTACATAGGCT	0.532			T	PAX5	ALL								23	51					0	0	0.008361	0	0		A	22805224	A	A	22805224	2	1	19	1	0	0	0	0	0	0	0	1	17990	1140	40	1		1	ZNF521	18	22805224	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1144462	22805224	55272024	2630	16143											
TAF4B	6875	broad.mit.edu	37	chr18	23866258	23866258	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttgtctctggaacagcagTaacactgtcccttccagcag	10	10	9	12	0	1	0	0	0	1	0	4	1	3	1	2	1	4	4	2	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:23866258T>C	uc002kvu.3	+	7	1874	c.1385T>C	c.(1384-1386)GTA>GCA	p.V462A	TAF4B_uc002kvs.3_RNA|TAF4B_uc002kvt.3_Missense_Mutation_p.V462A	NM_005640	NP_005631	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding	462					transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			GGAACAGCAGTAACACTGTCC	0.468													21	48					0	0	0.00278	0	0		C	23866258	C	C	23866258	3	2	19	1	0	0	0	0	1	0	0	0	15552	1638	57	3	1411	3	TAF4B	18	23866258	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1061034	23866258	54210990	2631	16144											
CDH2	1000	broad.mit.edu	37	chr18	25593645	25593645	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagccatattcggatactatAccttcactgactcctcagtt	11	13	5	12	1	2	1	2	1	0	0	4	2	3	2	3	1	3	1	3	1	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:25593645A>G	uc002kwg.2	-	3	858	c.399_splice	c.e3+1	p.K133_splice	CDH2_uc010xbn.1_Splice_Site_p.K102_splice	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein						adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						CGGATACTATACCTTCACTGA	0.408													8	216					0	0	0.006214	0	0		G	25593645	G	G	25593645	5	3	19	1	0	0	0	0	0	0	1	0	3108	405	14	3	2375	3	CDH2	18	25593645	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1727387	25593645	52483603	2632	16145											
DSG3	1830	broad.mit.edu	37	chr18	29044269	29044269	+	Frame_Shift_Del	DEL	A	-	-																															tgcaaaaaggcataagtagcAaaaaattggtggattatatc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:29044269delA	uc002kws.2	+	9	1304	c.1195delA	c.(1195-1197)AAAfs	p.K399fs		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	399	Cadherin 4.|Extracellular (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			CATAAGTAGCAAAAAATTGGT	0.378													38	86	---	---	---	---						.	-	29044269	-	-	29044269	7	5	19	1	0	1	0	1	0	0	0	0	4784	131	5	0	1229	0	DSG3	18	29044269	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	3450624	29044269	49032979	2633	16146											
MCART2	147407	broad.mit.edu	37	chr18	29340013	29340013	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgagcactgtgagtcgtTgcggtaggcagatgctcctt	9	11	13	8	2	0	3	0	2	0	1	2	3	1	3	1	2	3	5	1	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:29340013T>C	uc002kxa.2	-	1	831	c.612A>G	c.(610-612)GCA>GCG	p.A204A		NM_001034172	NP_001029344	Q3SY17	MCAR2_HUMAN	mitochondrial carrier triple repeat 2	204					transport	integral to membrane|mitochondrial inner membrane				skin(1)	1			OV - Ovarian serous cystadenocarcinoma(10;0.0539)			TGTGAGTCGTTGCGGTAGGCA	0.448													14	114					0	0	0.003163	0	0		C	29340013	C	C	29340013	2	2	19	1	0	0	0	0	0	0	0	1	9388	1799	63	3		3	MCART2	18	29340013	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	295744	29340013	48737235	2634	16147											
KIAA1012	22878	broad.mit.edu	37	chr18	29429584	29429584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatttttgaatcaatctcAcagcatcctctgttgactgt	9	16	6	10	0	3	2	2	2	2	0	5	2	4	2	1	0	2	3	1	0	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:29429584A>G	uc002kxc.3	-	25	4044	c.3680T>C	c.(3679-3681)GTG>GCG	p.V1227A	KIAA1012_uc002kxb.3_Missense_Mutation_p.V1173A|KIAA1012_uc002kxd.3_RNA	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	1227					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						AATCAATCTCACAGCATCCTC	0.358													24	86					0	0	0.005443	0	0		G	29429584	G	G	29429584	3	3	19	1	0	0	0	0	1	0	0	0	8220	159	6	3	647	3	KIAA1012	18	29429584	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	89571	29429584	48647664	2635	16148											
KLHL14	57565	broad.mit.edu	37	chr18	30260415	30260415	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcactgctcccgcatgagcCgccagaggctgtggcaaaga	9	6	13	13	2	0	3	0	1	0	2	1	3	1	3	3	2	3	5	3	2	1	0	rs145852832	by1000genomes	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:30260415C>T	uc002kxm.1	-	6	1774	c.1386G>A	c.(1384-1386)GCG>GCA	p.A462A	KLHL14_uc010dmd.1_Missense_Mutation_p.R10Q	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	462	Kelch 3.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						CCGCATGAGCCGCCAGAGGCT	0.468													46	116					0	0	0.01441	0	0		T	30260415	T	T	30260415	2	4	19	1	0	0	0	0	0	0	0	1	8386	639	23	1		1	KLHL14	18	30260415	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	830831	30260415	47816833	2636	16149											
KLHL14	57565	broad.mit.edu	37	chr18	30349862	30349862	+	Frame_Shift_Del	DEL	G	-	-																															agcgccagctccgactccacGgggggcggcagcgagtccag																								rs147661052		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:30349862delG	uc002kxm.1	-	2	1081	c.693delC	c.(691-693)CCCfs	p.P231fs		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	231	BACK.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						CCGACTCCACGGGGGGCGGCA	0.642													30	36	---	---	---	---						.	-	30349862	-	-	30349862	7	5	19	1	0	1	0	1	0	0	0	0	8386	1103	39	0	1225	0	KLHL14	18	30349862	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	89447	30349862	47727386	2637	16150											
MOCOS	55034	broad.mit.edu	37	chr18	33836952	33836952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaacttcctggtacaatggCcaccctttctctggtgaatg	8	13	8	12	0	2	1	1	1	1	0	4	1	3	1	3	3	2	1	3	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:33836952C>T	uc002kzq.3	+	12	2209	c.2186C>T	c.(2185-2187)GCC>GTC	p.A729V		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	729	MOSC.				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GGTACAATGGCCACCCTTTCT	0.413													15	293					0	0	0.00499	0	0		T	33836952	T	T	33836952	3	4	19	1	0	0	0	0	1	0	0	0	9707	739	26	2	2232	2	MOCOS	18	33836952	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3487090	33836952	44240296	2638	16151											
MOCOS	55034	broad.mit.edu	37	chr18	33848583	33848583	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatctcaggtgctccctgtgTtgaaagagaatgtggaaggt	10	11	14	6	0	1	2	1	1	1	1	3	5	2	3	1	3	1	2	1	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:33848583T>C	uc002kzq.3	+	15	2625	c.2602T>C	c.(2602-2604)TTG>CTG	p.L868L		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	868					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GCTCCCTGTGTTGAAAGAGAA	0.403													27	194					0	0	0.005443	0	0		C	33848583	C	C	33848583	2	2	19	1	0	0	0	0	0	0	0	1	9707	1722	60	3		3	MOCOS	18	33848583	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	11631	33848583	44228665	2639	16152											
FHOD3	80206	broad.mit.edu	37	chr18	34205516	34205516	+	Frame_Shift_Del	DEL	C	-	-																															gcgatgagaccacggagccaCcccccagtgggtgccgggac																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:34205516delC	uc002kzt.1	+	10	1097	c.1000delC	c.(1000-1002)CCCfs	p.P334fs	FHOD3_uc002kzr.1_Frame_Shift_Del_p.P334fs|FHOD3_uc002kzs.1_Frame_Shift_Del_p.P334fs|FHOD3_uc002kzu.1_Frame_Shift_Del_p.P159fs|FHOD3_uc010dmz.1_Frame_Shift_Del_p.P87fs	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	334	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CACGGAGCCACCCCCCAGTGG	0.677													27	62	---	---	---	---						.	-	34205516	-	-	34205516	7	5	19	1	0	1	0	1	0	0	0	0	5897	507	18	0	1038	0	FHOD3	18	34205516	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	356933	34205516	43871732	2640	16153											
KIAA1328	57536	broad.mit.edu	37	chr18	34753044	34753044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attacagcacaccacctcccGgtaagcttcagagattcttt	11	11	6	13	1	2	1	1	0	1	1	3	2	3	1	3	1	3	3	3	1	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:34753044G>A	uc002kzz.2	+	9	1545	c.1523G>A	c.(1522-1524)CGG>CAG	p.R508Q	KIAA1328_uc002lab.2_Missense_Mutation_p.R260H|KIAA1328_uc002lac.1_Missense_Mutation_p.R367Q|KIAA1328_uc010dnc.1_RNA	NM_020776	NP_065827	Q86T90	K1328_HUMAN	hypothetical protein LOC57536	508										central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)		ACCACCTCCCGGTAAGCTTCA	0.388													29	96					0	0	0.005443	0	0		A	34753044	A	A	34753044	3	1	19	1	0	0	0	0	1	0	0	0	8241	1130	39	1	1557	1	KIAA1328	18	34753044	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	547528	34753044	43324204	2641	16154											
CELF4	56853	broad.mit.edu	37	chr18	34854302	34854302	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaggcgccgtaggccccgAaagggatggccatggggttg	7	6	18	10	4	0	0	0	0	0	0	0	2	0	1	4	6	0	3	4	6	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:34854302A>G	uc002lae.2	-	6	1169	c.773T>C	c.(772-774)TTC>TCC	p.F258S	CELF4_uc010dnd.1_Missense_Mutation_p.F257S|CELF4_uc002lag.2_Missense_Mutation_p.F248S|CELF4_uc002laf.2_Missense_Mutation_p.F253S|CELF4_uc002lai.2_Missense_Mutation_p.F243S|CELF4_uc002lah.1_5'Flank|CELF4_uc002laj.1_Silent_p.F93F	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	258	Sufficient for RNA-binding and MSE- dependent splicing activity.|Necessary for TNNT2 exon 5 inclusion.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						GTAGGCCCCGAAAGGGATGGC	0.637													12	143					0	0	0.00245	0	0		G	34854302	G	G	34854302	3	3	19	1	0	0	0	0	1	0	0	0	3221	246	9	3	715	3	CELF4	18	34854302	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	101258	34854302	43222946	2642	16155											
KIAA0427	9811	broad.mit.edu	37	chr18	46385820	46385820	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctcggagtccatgctgAcccggtcgctgctcctagag	5	8	12	16	3	0	2	0	1	0	1	4	3	2	3	5	2	2	3	5	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:46385820A>G	uc002ldc.2	+	12	1972	c.1687A>G	c.(1687-1689)ACC>GCC	p.T563A	KIAA0427_uc002ldd.2_Missense_Mutation_p.T565A|KIAA0427_uc002lde.3_Missense_Mutation_p.T192A	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	563	MIF4G.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						GTCCATGCTGACCCGGTCGCT	0.602													39	99					0	0	0.007835	0	0		G	46385820	G	G	46385820	3	3	19	1	0	0	0	0	1	0	0	0	8192	275	10	3	1735	3	KIAA0427	18	46385820	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	11531518	46385820	31691428	2643	16156											
CXXC1	30827	broad.mit.edu	37	chr18	47812265	47812265	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccacacatgcgggctgAccgtttgatctgctgctgct	6	11	10	14	2	2	2	1	2	1	0	2	2	2	2	2	1	4	5	2	1	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:47812265A>T	uc002leq.3	-	5	1226	c.493T>A	c.(493-495)TCA>ACA	p.S165T	CXXC1_uc002lep.3_Missense_Mutation_p.S22T|CXXC1_uc002ler.3_Missense_Mutation_p.S165T|CXXC1_uc010doy.2_Missense_Mutation_p.S165T|CXXC1_uc002les.2_Missense_Mutation_p.S165T	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	165	CXXC-type.				histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						ATGCGGGCTGACCGTTTGATc	0.483													4	56					0	0	0.001168	0	0		T	47812265	T	T	47812265	3	4	19	1	0	0	0	0	1	0	0	0	4100	275	10	5	1533	5	CXXC1	18	47812265	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1426445	47812265	30264983	2644	16157											
DCC	1630	broad.mit.edu	37	chr18	50985668	50985668	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacctccgaccccctgatctTtggatccatcatgaagaaat	11	10	7	13	1	2	3	1	2	1	1	4	6	4	4	5	1	0	0	5	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:50985668T>C	uc002lfe.1	+	24	4046	c.3459T>C	c.(3457-3459)CTT>CTC	p.L1153L	DCC_uc010dpf.1_Silent_p.L788L	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1153	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		CCCCTGATCTTTGGATCCATC	0.498													15	108					0	0	0.004007	0	0		C	50985668	C	C	50985668	2	2	19	1	0	0	0	0	0	0	0	1	4285	1828	64	3		3	DCC	18	50985668	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3173403	50985668	27091580	2645	16158											
DCC	1630	broad.mit.edu	37	chr18	50985691	50985691	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccatcatgaagaaatggAgatgaaaaatattgaaaagc	20	8	9	4	0	1	5	1	3	0	2	2	7	2	5	1	1	1	0	1	1	7	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:50985691A>G	uc002lfe.1	+	24	4069	c.3482A>G	c.(3481-3483)GAG>GGG	p.E1161G	DCC_uc010dpf.1_Missense_Mutation_p.E796G	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1161	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		GAAGAAATGGAGATGAAAAAT	0.522													17	129					0	0	0.006122	0	0		G	50985691	G	G	50985691	3	3	19	1	0	0	0	0	1	0	0	0	4285	304	11	3	3576	3	DCC	18	50985691	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	23	50985691	27091557	2646	16159											
DCC	1630	broad.mit.edu	37	chr18	51025784	51025784	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacagcttgtgttcgaccaActcacccactccgcagcttt	8	10	6	17	2	1	0	1	0	0	0	3	1	2	0	4	0	3	4	4	0	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:51025784A>G	uc002lfe.1	+	27	4602	c.4015A>G	c.(4015-4017)ACT>GCT	p.T1339A	DCC_uc010dpf.1_Missense_Mutation_p.T972A	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1339	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TGTTCGACCAACTCACCCACT	0.522													10	129					0	0	0.006214	0	0		G	51025784	G	G	51025784	3	3	19	1	0	0	0	0	1	0	0	0	4285	43	2	3	4121	3	DCC	18	51025784	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	40093	51025784	27051464	2647	16160											
ONECUT2	9480	broad.mit.edu	37	chr18	55103632	55103632	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagcctgtccccgctggcCgccacgccgctgggcaacgg	5	4	14	18	5	0	1	0	0	0	1	1	1	1	1	6	3	2	3	6	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:55103632C>T	uc002lgo.2	+	1	716	c.684C>T	c.(682-684)GCC>GCT	p.A228A		NM_004852	NP_004843	O95948	ONEC2_HUMAN	one cut domain, family member 2	228					organ morphogenesis	nucleus	sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3		Colorectal(73;0.234)		READ - Rectum adenocarcinoma(59;0.227)|Colorectal(16;0.245)		CCCCGCTGGCCGCCACGCCGC	0.672													9	11					0	0	0.00245	0	0		T	55103632	T	T	55103632	2	4	19	1	0	0	0	0	0	0	0	1	10888	639	23	1		1	ONECUT2	18	55103632	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	4077848	55103632	22973616	2648	16161											
ATP8B1	5205	broad.mit.edu	37	chr18	55322536	55322536	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catccttatgtaagaccatcGgccatgcaccagcagtagcc	11	8	8	14	1	0	1	0	0	0	1	2	1	1	1	5	1	3	4	5	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:55322536G>A	uc002lgw.2	-	22	2821	c.2821C>T	c.(2821-2823)CGA>TGA	p.R941*	uc002lgu.1_Intron|uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	941	Cytoplasmic (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				TAAGACCATCGGCCATGCACC	0.433									Byler_disease				26	63					0	0	0.008361	0	0		A	55322536	A	A	55322536	4	1	19	1	0	0	0	0	0	1	0	0	1195	1124	39	1	958	1	ATP8B1	18	55322536	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	218904	55322536	22754712	2649	16162											
ATP8B1	5205	broad.mit.edu	37	chr18	55355665	55355665	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttctagcttttgcgggtGtgtccttctcagcatagtac	5	16	11	9	1	2	0	1	0	2	0	4	0	3	0	1	2	4	4	1	2	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:55355665G>A	uc002lgw.2	-	12	1295	c.1295C>T	c.(1294-1296)ACA>ATA	p.T432I	uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	432	Cytoplasmic (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				TTTTGCGGGTGTGTCCTTCTC	0.458									Byler_disease				59	137					0	0	0.01441	0	0		A	55355665	A	A	55355665	3	1	19	1	0	0	0	0	1	0	0	0	1195	1377	48	4	2524	4	ATP8B1	18	55355665	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	33129	55355665	22721583	2650	16163											
NEDD4L	23327	broad.mit.edu	37	chr18	55990515	55990515	+	Frame_Shift_Del	DEL	A	-	-																															ttgaaaatggcctatatgccAaaaaatggaggtcaagatga																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:55990515delA	uc002lgy.2	+	8	736	c.462delA	c.(460-462)CCAfs	p.P154fs	NEDD4L_uc002lgz.2_Frame_Shift_Del_p.P154fs|NEDD4L_uc002lgx.2_Frame_Shift_Del_p.P154fs|NEDD4L_uc010xee.1_Frame_Shift_Del_p.P33fs|NEDD4L_uc002lhc.2_Frame_Shift_Del_p.P146fs|NEDD4L_uc002lhd.2_Frame_Shift_Del_p.P33fs|NEDD4L_uc002lhb.2_Frame_Shift_Del_p.P33fs|NEDD4L_uc002lhe.2_Frame_Shift_Del_p.P146fs|NEDD4L_uc002lhf.2_Frame_Shift_Del_p.P33fs|NEDD4L_uc002lhg.2_Frame_Shift_Del_p.P33fs|NEDD4L_uc002lhh.2_Frame_Shift_Del_p.P33fs|NEDD4L_uc010dpm.1_Frame_Shift_Del_p.P5fs	NM_001144967	NP_001138439	Q96PU5	NED4L_HUMAN	neural precursor cell expressed, developmentally	154					cellular sodium ion homeostasis|excretion|interspecies interaction between organisms|positive regulation of endocytosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of protein catabolic process|response to metal ion|sodium ion transport|water homeostasis	cytoplasm	protein binding|sodium channel regulator activity|ubiquitin-protein ligase activity			lung(4)	4						CCTATATGCCAAAAAATGGAG	0.433													9	11	---	---	---	---						.	-	55990515	-	-	55990515	7	5	19	1	0	1	0	1	0	0	0	0	10330	117	5	0	520	0	NEDD4L	18	55990515	Frame_Shift_Del	DEL	A	TCGA-BR-4361-01A-01D-1158-08	634850	55990515	22086733	2651	16164											
ZNF532	55205	broad.mit.edu	37	chr18	56651514	56651514	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtccaagcaaaatggggctgGggaagataaccaacaggaga	16	4	14	7	0	0	2	0	0	0	2	1	4	1	3	2	5	3	2	2	5	6	1	rs150751424		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:56651514G>T	uc002lho.2	+	11	4269	c.3722G>T	c.(3721-3723)GGG>GTG	p.G1241V	ZNF532_uc002lhp.2_Missense_Mutation_p.G1239V|ZNF532_uc010xeg.1_Missense_Mutation_p.G1239V|ZNF532_uc002lhr.2_Missense_Mutation_p.G1239V|ZNF532_uc002lhs.2_Missense_Mutation_p.G1239V|ZNF532_uc010xeh.1_Missense_Mutation_p.G329V	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	1241					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						AATGGGGCTGGGGAAGATAAC	0.512													18	41					3.32936e-07	3.44972e-07	0.006122	1	0		T	56651514	T	T	56651514	3	4	19	1	0	0	0	0	1	0	0	0	17997	1232	43	5	3752	5	ZNF532	18	56651514	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	660999	56651514	21425734	2652	16165											
RAX	30062	broad.mit.edu	37	chr18	56939715	56939715	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtacgtggtgaaagtcgTgcggttccgccgatgctttt	5	13	14	9	5	0	1	0	1	0	0	2	2	1	1	2	3	3	3	2	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:56939715T>C	uc002lhx.2	-	2	608	c.421A>G	c.(421-423)ACG>GCG	p.T141A	RAX_uc010dpp.2_Intron	NM_013435	NP_038463	Q9Y2V3	RX_HUMAN	retina and anterior neural fold homeobox	141	Homeobox.				visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1		Lung NSC(161;0.0804)|Colorectal(73;0.0946)		STAD - Stomach adenocarcinoma(84;0.18)		GTGAAAGTCGTGCGGTTCCGC	0.652													31	84					0	0	0.010818	0	0		C	56939715	C	C	56939715	3	2	19	1	0	0	0	0	1	0	0	0	13121	1696	59	3	627	3	RAX	18	56939715	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	288201	56939715	21137533	2653	16166											
LMAN1	3998	broad.mit.edu	37	chr18	56998753	56998753	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggtagttctgggcattTcggcttttcatttgatggct	4	18	13	6	1	2	1	1	1	1	0	3	1	2	1	0	5	0	5	0	5	1	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:56998753T>C	uc002lhz.2	-	12	1425	c.1393A>G	c.(1393-1395)AAA>GAA	p.K465E		NM_005570	NP_005561	P49257	LMAN1_HUMAN	lectin, mannose-binding, 1 precursor	465	Lumenal (Potential).				blood coagulation|ER to Golgi vesicle-mediated transport|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	mannose binding|metal ion binding|unfolded protein binding			skin(1)	1		Colorectal(73;0.0946)			Antihemophilic Factor(DB00025)	TCTGGGCATTTCGGCTTTTCA	0.328													37	83					0	0	0.006999	0	0		C	56998753	C	C	56998753	3	2	19	1	0	0	0	0	1	0	0	0	8853	1792	62	3	147	3	LMAN1	18	56998753	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	59038	56998753	21078495	2654	16167											
MC4R	4160	broad.mit.edu	37	chr18	58038674	58038674	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagttcttgactccggagTgcataaatcagaggatcgat	11	11	10	9	2	3	2	2	1	1	1	5	5	4	4	1	2	1	2	1	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:58038674T>C	uc002lie.1	-	1	1328	c.909A>G	c.(907-909)GCA>GCG	p.A303A		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	303	Helical; Name=7; (Potential).				feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)				GACTCCGGAGTGCATAAATCA	0.418													8	137					0	0	0.00308	0	0		C	58038674	C	C	58038674	2	2	19	1	0	0	0	0	0	0	0	1	9384	1683	59	3		3	MC4R	18	58038674	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1039921	58038674	20038574	2655	16168											
TNFRSF11A	8792	broad.mit.edu	37	chr18	60017167	60017167	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgcataaagtttgtgatAcaggtgagcccgtcctgtca	9	12	11	9	1	1	2	1	2	0	0	2	2	2	2	2	1	4	3	2	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:60017167A>G	uc002lin.2	+	3	318	c.280A>G	c.(280-282)ACA>GCA	p.T94A	TNFRSF11A_uc010dpv.2_Missense_Mutation_p.T94A	NM_003839	NP_003830	Q9Y6Q6	TNR11_HUMAN	tumor necrosis factor receptor superfamily,	94	TNFR-Cys 2.|Extracellular (Potential).				adaptive immune response|cell-cell signaling|circadian temperature homeostasis|monocyte chemotaxis|osteoclast differentiation|positive regulation of cell proliferation|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|response to interleukin-1|response to lipopolysaccharide	external side of plasma membrane|integral to membrane	metal ion binding|tumor necrosis factor receptor activity			breast(2)|lung(1)	3		Colorectal(73;0.188)				AGTTTGTGATACAGGTGAGCC	0.443									Paget_Disease_of_Bone				14	318					0	0	0.003163	0	0		G	60017167	G	G	60017167	3	3	19	1	0	0	0	0	1	0	0	0	16309	391	14	3	290	3	TNFRSF11A	18	60017167	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1978493	60017167	18060081	2656	16169											
PHLPP1	23239	broad.mit.edu	37	chr18	60630645	60630645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccttctacaggagacgCttccggagccccagctgtat	8	9	10	14	2	2	1	1	0	1	1	3	3	3	2	4	2	4	3	4	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:60630645C>T	uc002lis.2	+	15	2142	c.1964C>T	c.(1963-1965)GCT>GTT	p.A655V		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	1167	PP2C-like.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						ACAGGAGACGCTTCCGGAGCC	0.443													8	12					0	0	0.006214	0	0		T	60630645	T	T	60630645	3	4	19	1	0	0	0	0	1	0	0	0	11873	797	28	2	3554	2	PHLPP1	18	60630645	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	613478	60630645	17446603	2657	16170											
BCL2	596	broad.mit.edu	37	chr18	60985517	60985517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccaccaccgtggcaaagcgtCcccgcgcggtgaagggcgtc	7	4	14	16	6	0	1	0	1	0	0	2	1	1	1	5	3	1	1	5	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:60985517C>T	uc002lit.1	-	2	876	c.383G>A	c.(382-384)GGA>GAA	p.G128E	BCL2_uc002liu.1_Missense_Mutation_p.G128E|BCL2_uc002liv.1_Missense_Mutation_p.G128E	NM_000633	NP_000624	P10415	BCL2_HUMAN	B-cell lymphoma protein 2 alpha isoform	128					activation of pro-apoptotic gene products|anti-apoptosis|apoptosis in response to endoplasmic reticulum stress|B cell proliferation|B cell receptor signaling pathway|defense response to virus|female pregnancy|humoral immune response|induction of apoptosis by intracellular signals|negative regulation of cellular pH reduction|negative regulation of mitochondrial depolarization|negative regulation of neuron apoptosis|neuron apoptosis|positive regulation of B cell proliferation|positive regulation of cell growth|protein polyubiquitination|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|regulation of transmembrane transporter activity|release of cytochrome c from mitochondria|response to cytokine stimulus|response to DNA damage stimulus|response to drug|response to iron ion|response to nicotine|response to toxin	endoplasmic reticulum membrane|mitochondrial outer membrane|nuclear membrane|pore complex	BH3 domain binding|channel activity|protease binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|ubiquitin protein ligase binding			central_nervous_system(1)	1		all_hematologic(56;1.18e-20)|Prostate(75;0.0872)		Lung(128;0.0234)|READ - Rectum adenocarcinoma(59;0.0935)	Docetaxel(DB01248)|Fludarabine(DB01073)|Melatonin(DB01065)|Paclitaxel(DB01229)|Rasagiline(DB01367)	GGCAAAGCGTCCCCGCGCGGT	0.667			T	IGH@	NHL|CLL								7	98					0	0	0.006214	0	0		T	60985517	T	T	60985517	3	4	19	1	0	0	0	0	1	0	0	0	1366	855	30	4	377	4	BCL2	18	60985517	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	354872	60985517	17091731	2658	16171											
VPS4B	9525	broad.mit.edu	37	chr18	61067315	61067315	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaactccgtcttaattctAcgtgcggcttcactttcatt	8	15	7	11	3	4	0	2	0	2	0	5	1	5	1	1	2	3	1	1	2	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:61067315A>G	uc002lix.2	-	7	1016	c.756T>C	c.(754-756)CGT>CGC	p.R252R	VPS4B_uc010dpx.2_Silent_p.R252R|VPS4B_uc010dpy.2_Silent_p.R134R|VPS4B_uc010dpz.1_Silent_p.R134R	NM_004869	NP_004860	O75351	VPS4B_HUMAN	vacuolar protein sorting factor 4B	252					cell cycle|cell division|cellular membrane organization|endosome to lysosome transport via multivesicular body sorting pathway|intracellular cholesterol transport|protein transport|response to lipid	cytosol|early endosome|late endosome membrane|lysosome|nucleus|vacuolar membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding			ovary(1)	1						TCTTAATTCTACGTGCGGCTT	0.294													40	74					0	0	0.00874	0	0		G	61067315	G	G	61067315	2	3	19	1	0	0	0	0	0	0	0	1	17239	378	14	3		3	VPS4B	18	61067315	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	81798	61067315	17009933	2659	16172											
SERPINB5	5268	broad.mit.edu	37	chr18	61166407	61166407	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggccacgttctgtatgggaAacattgacagtatcaattgt	12	12	10	7	1	2	1	1	1	1	0	2	2	2	2	1	2	1	3	1	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:61166407A>T	uc002liz.3	+	6	764	c.622A>T	c.(622-624)AAC>TAC	p.N208Y		NM_002639	NP_002630	P36952	SPB5_HUMAN	serine (or cysteine) proteinase inhibitor, clade	208					cellular component movement|regulation of proteolysis	cytoplasm|extracellular space	protein binding|serine-type endopeptidase inhibitor activity			ovary(1)	1						CTGTATGGGAAACATTGACAG	0.393													40	62					0	0	0.00874	0	0		T	61166407	T	T	61166407	3	4	19	1	0	0	0	0	1	0	0	0	14129	14	1	5	640	5	SERPINB5	18	61166407	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	99092	61166407	16910841	2660	16173											
SERPINB4	6318	broad.mit.edu	37	chr18	61306899	61306899	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatttttcctctttagtgTtttcttttttaaatttattc	9	25	2	5	0	2	0	0	0	2	0	4	0	3	0	1	0	0	1	1	0	6	12			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:61306899T>C	uc002ljf.2	-	6	667	c.581A>G	c.(580-582)AAC>AGC	p.N194S	SERPINB4_uc002lje.2_Missense_Mutation_p.N194S|SERPINB4_uc002ljg.2_Intron	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	194					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						CTCTTTAGTGTTTTCTTTTTT	0.313													9	72					0	0	0.006214	0	0		C	61306899	C	C	61306899	3	2	19	1	0	0	0	0	1	0	0	0	14128	1725	60	3	603	3	SERPINB4	18	61306899	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	140492	61306899	16770349	2661	16174											
SERPINB7	8710	broad.mit.edu	37	chr18	61471659	61471659	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagatctctctgggattgcTtcggggggtcgtctgtatat	5	14	14	8	2	3	1	0	0	3	1	6	2	3	2	0	4	1	3	0	4	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:61471659T>C	uc002ljl.2	+	8	1029	c.933T>C	c.(931-933)GCT>GCC	p.A311A	SERPINB7_uc002ljm.2_Silent_p.A311A|SERPINB7_uc010xet.1_Silent_p.A294A|SERPINB7_uc010dqg.2_Silent_p.A311A	NM_001040147	NP_001035237	O75635	SPB7_HUMAN	serine (or cysteine) proteinase inhibitor, clade	311					regulation of proteolysis	cytoplasm	serine-type endopeptidase inhibitor activity			lung(2)|central_nervous_system(1)	3		Esophageal squamous(42;0.129)				CTGGGATTGCTTCGGGGGGTC	0.428													12	74					0	0	0.013537	0	0		C	61471659	C	C	61471659	2	2	19	1	0	0	0	0	0	0	0	1	14131	1596	56	3		3	SERPINB7	18	61471659	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	164760	61471659	16605589	2662	16175											
DSEL	92126	broad.mit.edu	37	chr18	65178220	65178220	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcatttagtccataaacTttggatatcctaggcgatcc	11	12	8	10	1	0	0	0	0	0	0	3	2	3	1	3	2	2	2	3	2	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:65178220T>A	uc002lke.1	-	2	4880	c.3656A>T	c.(3655-3657)AAG>ATG	p.K1219M		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	1209						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				GTCCATAAACTTTGGATATCC	0.353													5	81					0	0	0.000602	0	0		A	65178220	A	A	65178220	3	1	19	1	0	0	0	0	1	0	0	0	4781	1609	56	5	16	5	DSEL	18	65178220	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3706561	65178220	12899028	2663	16176											
NETO1	81832	broad.mit.edu	37	chr18	70534507	70534507	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggtactcactgtgaagcAcgctgcgcccatggatcatg	9	8	13	11	2	2	1	2	1	0	0	2	3	2	2	1	2	3	3	1	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:70534507A>G	uc002lkw.2	-	1	304	c.20T>C	c.(19-21)GTG>GCG	p.V7A	NETO1_uc002lkx.1_5'Flank|NETO1_uc002lky.1_Missense_Mutation_p.V7A|NETO1_uc002lkz.2_5'Flank	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	7					memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		ACTGTGAAGCACGCTGCGCCC	0.662													4	7					0	0	0.000602	0	0		G	70534507	G	G	70534507	3	3	19	1	0	0	0	0	1	0	0	0	10358	159	6	3	1659	3	NETO1	18	70534507	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5356287	70534507	7542741	2664	16177											
ZNF407	55628	broad.mit.edu	37	chr18	72347183	72347183	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtgaaaaagaagaaatCtgagggcagttccattggtg	14	9	14	4	0	1	4	0	2	1	2	2	4	2	4	1	3	0	2	1	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:72347183C>A	uc002llw.2	+	1	4265	c.4208C>A	c.(4207-4209)TCT>TAT	p.S1403Y	ZNF407_uc010xfc.1_Missense_Mutation_p.S1403Y|ZNF407_uc010dqu.1_Missense_Mutation_p.S1403Y|ZNF407_uc002llu.2_Missense_Mutation_p.S1402Y	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1403					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		AAGAAGAAATCTGAGGGCAGT	0.463													29	56					2.24059e-21	2.38125e-21	0.00632	1	0		A	72347183	A	A	72347183	3	1	19	1	0	0	0	0	1	0	0	0	17912	913	32	5	4210	5	ZNF407	18	72347183	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1812676	72347183	5730065	2665	16178											
TSHZ1	10194	broad.mit.edu	37	chr18	72998600	72998600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtttgaggcccgcaaggCgcagatcctcaagtgcatgg	9	7	14	11	2	1	2	1	1	0	1	2	2	2	2	2	3	1	5	2	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:72998600C>T	uc002lly.2	+	2	1666	c.1103C>T	c.(1102-1104)GCG>GTG	p.A368V		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	413						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GCCCGCAAGGCGCAGATCCTC	0.602													16	32					0	0	0.00499	0	0		T	72998600	T	T	72998600	3	4	19	1	0	0	0	0	1	0	0	0	16649	768	27	1	1105	1	TSHZ1	18	72998600	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	651417	72998600	5078648	2666	16179											
ZNF516	9658	broad.mit.edu	37	chr18	74154821	74154821	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtggtcgcagtagggacActtgtagggcttctcgcccg	5	9	15	12	4	1	0	0	0	1	0	3	1	1	1	2	4	0	4	2	4	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:74154821A>G	uc010dqx.1	-	2	425	c.190T>C	c.(190-192)TGT>CGT	p.C64R	ZNF516_uc002lme.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	64	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CAGTAGGGACACTTGTAGGGC	0.627													4	34					0	0	0.009096	0	0		G	74154821	G	G	74154821	3	3	19	1	0	0	0	0	1	0	0	0	17985	159	6	3	3322	3	ZNF516	18	74154821	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1156221	74154821	3922427	2667	16180											
ZNF236	7776	broad.mit.edu	37	chr18	74592191	74592191	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggagctctcagagccGgcgccggtggagtcggggca	5	6	17	13	4	1	1	1	0	1	1	4	3	2	3	3	6	2	2	3	6	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:74592191G>A	uc002lmi.2	+	8	1299	c.1101G>A	c.(1099-1101)CCG>CCA	p.P367P	ZNF236_uc002lmj.2_RNA|ZNF236_uc002lmk.1_Silent_p.P367P	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	367					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TCTCAGAGCCGGCGCCGGTGG	0.647													24	46					0	0	0.004656	0	0		A	74592191	A	A	74592191	2	1	19	1	0	0	0	0	0	0	0	1	17814	1103	39	1		1	ZNF236	18	74592191	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	437370	74592191	3485057	2668	16181											
ZNF236	7776	broad.mit.edu	37	chr18	74631811	74631811	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgaggtcatcactttcacGgaggaggagacagcccagtt	10	8	12	11	1	3	2	3	1	0	1	3	5	3	4	2	4	1	1	2	4	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:74631811G>A	uc002lmi.2	+	20	3546	c.3348G>A	c.(3346-3348)ACG>ACA	p.T1116T	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1116					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TCACTTTCACGGAGGAGGAGA	0.527													46	100					0	0	0.01441	0	0		A	74631811	A	A	74631811	2	1	19	1	0	0	0	0	0	0	0	1	17814	1103	39	1		1	ZNF236	18	74631811	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	39620	74631811	3445437	2669	16182											
ADNP2	22850	broad.mit.edu	37	chr18	77894254	77894254	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgcccctggaagcctcActcattccccccctgctgct	5	9	9	18	0	2	0	2	0	0	0	3	1	3	1	6	2	4	2	6	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:77894254A>G	uc002lnw.2	+	4	1413	c.958A>G	c.(958-960)ACT>GCT	p.T320A		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	320	Pro-rich.				cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		TGGAAGCCTCACTCATTCCCC	0.637													9	111					0	0	0.001855	0	0		G	77894254	G	G	77894254	3	3	19	1	0	0	0	0	1	0	0	0	324	159	6	3	968	3	ADNP2	18	77894254	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3262443	77894254	182994	2670	16183											
ADNP2	22850	broad.mit.edu	37	chr18	77895696	77895696	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggggaagaagaagttgccTatggattatagcaacagagg	14	8	14	5	0	0	3	0	0	0	3	0	5	0	5	1	4	3	2	1	4	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr18:77895696T>C	uc002lnw.2	+	4	2855	c.2400T>C	c.(2398-2400)CCT>CCC	p.P800P		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	800					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		AGAAGTTGCCTATGGATTATA	0.468													55	118					0	0	0.01441	0	0		C	77895696	C	C	77895696	2	2	19	1	0	0	0	0	0	0	0	1	324	1509	53	3		3	ADNP2	18	77895696	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1442	77895696	181552	2671	16184											
THEG	51298	broad.mit.edu	37	chr19	375883	375883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagagctctggaggccacGggggtcgccgtcctgctccc	5	6	14	16	3	1	1	0	0	1	1	4	2	3	2	4	4	2	2	4	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:375883G>A	uc002lol.2	-	1	127	c.88C>T	c.(88-90)CGT>TGT	p.R30C	THEG_uc002lom.2_Missense_Mutation_p.R30C	NM_016585	NP_057669	Q9P2T0	THEG_HUMAN	Theg homolog isoform 1	30					cell differentiation|chaperone-mediated protein complex assembly|multicellular organismal development|spermatogenesis	nucleus	protein binding			ovary(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGAGGCCACGGGGGTCGCCG	0.657													24	45					0	0	0.010818	0	0		A	375883	A	A	375883	3	1	19	1	0	0	0	0	1	0	0	0	15882	1116	39	1	1083	1	THEG	19	375883	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08		375883	58753100	2672	16185											
PALM	5064	broad.mit.edu	37	chr19	736048	736048	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaacacgcccctgaggAcggttgacggctcccccatg	7	7	10	17	3	1	2	0	2	1	0	3	3	2	3	5	3	1	2	5	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:736048A>G	uc002lpm.1	+	7	666	c.472A>G	c.(472-474)ACG>GCG	p.T158A	PALM_uc002lpn.1_Missense_Mutation_p.T158A|PALM_uc010xfu.1_Missense_Mutation_p.T23A	NM_002579	NP_002570	O75781	PALM_HUMAN	paralemmin isoform 1	158					cellular component movement|negative regulation of adenylate cyclase activity|negative regulation of dopamine receptor signaling pathway|positive regulation of filopodium assembly|regulation of cell shape	cytoplasmic membrane-bounded vesicle|filopodium membrane|integral to plasma membrane					0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)|Lung(535;0.201)		GCCCCTGAGGACGGTTGACGG	0.662													27	232					0	0	0.004656	0	0		G	736048	G	G	736048	3	3	19	1	0	0	0	0	1	0	0	0	11427	275	10	3	498	3	PALM	19	736048	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	360165	736048	58392935	2673	16186											
AZU1	566	broad.mit.edu	37	chr19	828274	828274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttggcggccggaaggcgaggCcccgccagttcccgttcctg	4	7	15	15	5	0	0	0	0	0	0	2	2	2	1	6	5	0	2	6	5	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:828274C>T	uc002lpz.1	+	2	119	c.103C>T	c.(103-105)CCC>TCC	p.P35S		NM_001700	NP_001691	P20160	CAP7_HUMAN	azurocidin 1 preproprotein	35	Peptidase S1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|cellular extravasation|defense response to Gram-negative bacterium|glial cell migration|induction of positive chemotaxis|inflammatory response|macrophage chemotaxis|microglial cell activation|monocyte activation|positive regulation of cell adhesion|positive regulation of fractalkine biosynthetic process|positive regulation of interleukin-1 beta biosynthetic process|positive regulation of MHC class II biosynthetic process|positive regulation of phagocytosis|positive regulation of tumor necrosis factor biosynthetic process|proteolysis|regulation of vascular permeability	azurophil granule|extracellular region	heparin binding|serine-type endopeptidase activity|toxin binding			pancreas(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAAGGCGAGGCCCCGCCAGTT	0.657													21	54					0	0	0.007291	0	0		T	828274	T	T	828274	3	4	19	1	0	0	0	0	1	0	0	0	1244	739	26	2	109	2	AZU1	19	828274	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	92226	828274	58300709	2674	16187											
ABCA7	10347	broad.mit.edu	37	chr19	1055276	1055276	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagtgaccggctctggggaAgtggttcagaacctgacagg	9	7	16	9	1	2	3	1	2	1	1	2	4	2	4	2	5	1	3	2	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:1055276A>C	uc002lqw.3	+	30	4362	c.4131A>C	c.(4129-4131)GAA>GAC	p.E1377D	ABCA7_uc010dsb.1_Missense_Mutation_p.E1239D|ABCA7_uc002lqy.2_5'Flank	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	1377	Extracellular (By similarity).				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTCTGGGGAAGTGGTTCAGA	0.692													8	9					0	0	0.006214	0	0		C	1055276	C	C	1055276	3	2	19	1	0	0	0	0	1	0	0	0	37	69	3	5	4245	5	ABCA7	19	1055276	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	227002	1055276	58073707	2675	16188											
ABCA7	10347	broad.mit.edu	37	chr19	1057392	1057392	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcatatgtggcccctgccaAcctgcctgctctcctgctgt	4	11	10	16	0	1	0	0	0	1	0	2	0	1	0	6	2	5	3	6	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:1057392A>C	uc002lqw.3	+	35	5075	c.4844A>C	c.(4843-4845)AAC>ACC	p.N1615T	ABCA7_uc002lqy.2_Missense_Mutation_p.N86T|ABCA7_uc010dsc.2_5'Flank	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	1615					phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCCCTGCCAACCTGCCTGCT	0.542													11	181					0	0	0.00333	0	0		C	1057392	C	C	1057392	3	2	19	1	0	0	0	0	1	0	0	0	37	43	2	5	4978	5	ABCA7	19	1057392	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2116	1057392	58071591	2676	16189											
HMHA1	23526	broad.mit.edu	37	chr19	1080015	1080015	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtgagagcagcaagctgtAtgacccaggccagcagtacg	11	6	14	10	1	0	2	0	2	0	1	0	3	0	2	2	1	5	6	2	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:1080015A>G	uc002lqz.1	+	13	1832	c.1601A>G	c.(1600-1602)TAT>TGT	p.Y534C	HMHA1_uc010xgd.1_Missense_Mutation_p.Y550C|HMHA1_uc010xge.1_Missense_Mutation_p.Y374C|HMHA1_uc002lra.1_Missense_Mutation_p.Y374C|HMHA1_uc002lrb.1_Missense_Mutation_p.Y417C|HMHA1_uc002lrc.1_Missense_Mutation_p.Y169C|HMHA1_uc002lrd.1_5'Flank|HMHA1_uc010dsd.1_5'Flank	NM_012292	NP_036424	Q92619	HMHA1_HUMAN	minor histocompatibility antigen HA-1	534					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCAAGCTGTATGACCCAGGC	0.642													43	83					0	0	0.013114	0	0		G	1080015	G	G	1080015	3	3	19	1	0	0	0	0	1	0	0	0	7256	449	16	3	1651	3	HMHA1	19	1080015	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	22623	1080015	58048968	2677	16190											
DAZAP1	26528	broad.mit.edu	37	chr19	1434841	1434841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccagggtcggggggcccccCcgccggcggcagcggctttg	2	4	19	16	5	0	0	0	0	0	0	1	0	0	0	5	7	1	2	5	7	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:1434841C>T	uc002lsn.2	+	12	1343	c.1154C>T	c.(1153-1155)CCC>CTC	p.P385L	DAZAP1_uc002lsm.2_3'UTR|DAZAP1_uc002lso.2_Missense_Mutation_p.P384L|DAZAP1_uc002lsl.1_Missense_Mutation_p.P384L	NM_018959	NP_061832	Q96EP5	DAZP1_HUMAN	DAZ associated protein 1 isoform b	385	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleotide binding|RNA binding			breast(1)	1		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		gggggcccccccgccggcggc	0.597													8	4					0	0	0.004482	0	0		T	1434841	T	T	1434841	3	4	19	1	0	0	0	0	1	0	0	0	4247	623	22	4	1293	4	DAZAP1	19	1434841	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	354826	1434841	57694142	2678	16191											
ADAMTSL5	339366	broad.mit.edu	37	chr19	1506599	1506599	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtctcaccaaagtcactGccgcaatagtggagtagtcg	10	8	13	10	2	2	0	2	0	1	0	4	1	2	1	2	3	1	2	2	3	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:1506599G>A	uc002ltd.2	-	11	1548	c.1104C>T	c.(1102-1104)GGC>GGT	p.G368G	ADAMTSL5_uc010dsl.2_Silent_p.G137G|ADAMTSL5_uc010xgq.1_Silent_p.G378G	NM_213604	NP_998769	Q6ZMM2	ATL5_HUMAN	ADAMTS-like 5 precursor	368	NTR.					proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAAAGTCACTGCCGCAATAGT	0.637													8	13					0	0	0.004482	0	0		A	1506599	A	A	1506599	2	1	19	1	0	0	0	0	0	0	0	1	278	1306	46	2		2	ADAMTSL5	19	1506599	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	71758	1506599	57622384	2679	16192											
MBD3	53615	broad.mit.edu	37	chr19	1585130	1585130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcagcatcttgcccgtgCggaagtcgaaggtgctcagg	8	9	13	11	3	4	0	3	0	1	0	5	2	4	1	1	3	4	2	1	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:1585130C>T	uc002ltl.1	-	2	216	c.194G>A	c.(193-195)CGC>CAC	p.R65H	MBD3_uc002ltj.2_Missense_Mutation_p.R65H|MBD3_uc002ltk.2_Missense_Mutation_p.R33H	NM_003926	NP_003917	O95983	MBD3_HUMAN	methyl-CpG binding domain protein 3	65	MBD.				transcription, DNA-dependent	NuRD complex	DNA binding|protein binding			ovary(1)|pancreas(1)|skin(1)	3		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.179)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTGCCCGTGCGGAAGTCGAA	0.657													7	38					0	0	0.001984	0	0		T	1585130	T	T	1585130	3	4	19	1	0	0	0	0	1	0	0	0	9362	768	27	1	701	1	MBD3	19	1585130	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	78531	1585130	57543853	2680	16193											
TCF3	6929	broad.mit.edu	37	chr19	1615419	1615419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaggcctcgttgatgtcacGgacccgcagccgctcccggg	7	6	13	15	5	1	1	1	1	0	0	3	2	2	2	4	3	1	3	4	3	1	1	rs148304557		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:1615419G>A	uc002ltr.2	-	18	1754	c.1687C>T	c.(1687-1689)CGT>TGT	p.R563C	TCF3_uc002ltn.2_Intron|TCF3_uc002lto.2_Missense_Mutation_p.R324C|TCF3_uc002ltt.3_Intron|TCF3_uc002ltq.2_Missense_Mutation_p.R567C|TCF3_uc002lts.1_Intron	NM_003200	NP_003191	P15923	TFE2_HUMAN	transcription factor 3 isoform E12	563	Helix-loop-helix motif.			RVR->GVG: No DNA-binding.|R->K: No DNA-binding.	B cell lineage commitment|B cell lineage commitment|G1 phase of mitotic cell cycle|immunoglobulin V(D)J recombination|muscle cell differentiation|positive regulation of B cell proliferation|positive regulation of cell cycle|positive regulation of muscle cell differentiation|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus|protein complex|transcription factor complex	bHLH transcription factor binding|DNA binding|E-box binding|identical protein binding|mitogen-activated protein kinase kinase kinase binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|vitamin D response element binding			lung(2)|breast(2)|ovary(1)|large_intestine(1)|skin(1)	7		Acute lymphoblastic leukemia(61;5.94e-12)|all_hematologic(61;1.27e-07)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTGATGTCACGGACCCGCAGC	0.647			T	PBX1|HLF|TFPT	pre B-ALL								41	103					0	0	0.01441	0	0		A	1615419	A	A	1615419	3	1	19	1	0	0	0	0	1	0	0	0	15719	1116	39	1	516	1	TCF3	19	1615419	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	30289	1615419	57513564	2681	16194											
ADAT3	113179	broad.mit.edu	37	chr19	1913109	1913109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcttccaggtgttccgcgggGtgctggaggagcagtgccgc	4	8	18	11	3	0	0	0	0	0	0	2	2	2	2	3	5	3	4	3	5	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:1913109G>A	uc002luh.2	+	2	1243	c.1015G>A	c.(1015-1017)GTG>ATG	p.V339M	SCAMP4_uc002lui.1_Intron|SCAMP4_uc002luj.2_Intron|SCAMP4_uc002luk.2_Intron|SCAMP4_uc010dss.2_Intron	NM_138422	NP_612431	Q96EY9	ADAT3_HUMAN	tRNA-specific adenosine deaminase 3	339					tRNA processing		hydrolase activity|zinc ion binding			breast(1)|skin(1)	2		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTTCCGCGGGGTGCTGGAGGA	0.746													3	5					0	0	0.004672	0	0		A	1913109	A	A	1913109	3	1	19	1	0	0	0	0	1	0	0	0	286	1261	44	4	1017	4	ADAT3	19	1913109	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	297690	1913109	57215874	2682	16195											
DOT1L	84444	broad.mit.edu	37	chr19	2226522	2226522	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacacagcttcagtgatggTgcttctcttccccacaaggg	8	12	9	12	0	2	1	1	1	1	0	4	1	3	1	2	2	3	2	2	2	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:2226522T>C	uc002lvb.3	+	27	4038	c.4002T>C	c.(4000-4002)GGT>GGC	p.G1334G	DOT1L_uc002lvc.1_Silent_p.G628G	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	1334						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCAGTGATGGTGCTTCTCTTC	0.701													13	40					0	0	0.001855	0	0		C	2226522	C	C	2226522	2	2	19	1	0	0	0	0	0	0	0	1	4715	1683	59	3		3	DOT1L	19	2226522	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	313413	2226522	56902461	2683	16196											
SF3A2	8175	broad.mit.edu	37	chr19	2248140	2248140	+	Frame_Shift_Del	DEL	C	-	-																															ccaccaacctctggggtccaCcccccagctcctggagtcca																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:2248140delC	uc002lvg.2	+	9	1112	c.990delC	c.(988-990)CACfs	p.H330fs	AMH_uc002lvh.2_5'Flank|hsa-mir-4321|MI0015852_5'Flank	NM_007165	NP_009096	Q15428	SF3A2_HUMAN	splicing factor 3a, subunit 2	330	Pro-rich.				nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex	nucleic acid binding|zinc ion binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGGGGTCCACCCCCCAGCTC	0.731													4	8	---	---	---	---						.	-	2248140	-	-	2248140	7	5	19	1	0	1	0	1	0	0	0	0	14172	506	18	0	1020	0	SF3A2	19	2248140	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	21618	2248140	56880843	2684	16197											
TMPRSS9	360200	broad.mit.edu	37	chr19	2408461	2408461	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatcgtcaagcacccccTgtacaacgcggacacggccg	10	4	10	17	5	1	1	1	0	0	1	2	2	1	2	4	2	3	2	4	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:2408461T>G	uc010xgx.1	+	7	848	c.848T>G	c.(847-849)CTG>CGG	p.L283R	TMPRSS9_uc002lvv.1_Missense_Mutation_p.L317R	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	283	Extracellular (Potential).|Peptidase S1 1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGCACCCCCTGTACAACGCG	0.687													4	142					0	0	0.000602	0	0		G	2408461	G	G	2408461	3	3	19	1	0	0	0	0	1	0	0	0	16278	1580	55	5	874	5	TMPRSS9	19	2408461	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	160321	2408461	56720522	2685	16198											
LMNB2	84823	broad.mit.edu	37	chr19	2434861	2434861	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcagctcctcgcgagcCgcactggccgccttgtcgtt	3	11	10	17	5	1	0	1	0	0	0	5	1	3	0	5	1	2	3	5	1	0	3	rs144417417		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:2434861C>T	uc002lvy.2	-	6	933	c.846G>A	c.(844-846)GCG>GCA	p.A282A	LMNB2_uc002lwa.1_Silent_p.A302A	NM_032737	NP_116126	Q03252	LMNB2_HUMAN	lamin B2	282	Rod.|Coil 2.					nuclear inner membrane	structural molecule activity			large_intestine(1)|ovary(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCGCGAGCCGCACTGGCCG	0.582													7	18					0	0	0.004482	0	0		T	2434861	T	T	2434861	2	4	19	1	0	0	0	0	0	0	0	1	8867	639	23	1		1	LMNB2	19	2434861	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	26400	2434861	56694122	2686	16199											
GNA11	2767	broad.mit.edu	37	chr19	3121149	3121149	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggacaccatcctgcagcTcaacctcaaggagtacaacc	14	5	8	14	0	2	0	2	0	0	0	3	3	3	2	4	2	5	3	4	2	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:3121149T>C	uc002lxd.2	+	7	1294	c.1052T>C	c.(1051-1053)CTC>CCC	p.L351P	uc010xhe.1_5'Flank	NM_002067	NP_002058	P29992	GNA11_HUMAN	guanine nucleotide binding protein (G protein),	351					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation|regulation of action potential	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity	p.L351L(1)		eye(70)|skin(16)	86		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.79e-05)|OV - Ovarian serous cystadenocarcinoma(105;2.68e-113)|Epithelial(107;1.22e-111)|all cancers(105;5.78e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00141)|STAD - Stomach adenocarcinoma(1328;0.181)		ATCCTGCAGCTCAACCTCAAG	0.627			Mis		uveal melanoma								4	29					0	0	0.001168	0	0		C	3121149	C	C	3121149	3	2	19	1	0	0	0	0	1	0	0	0	6514	1551	54	3	1078	3	GNA11	19	3121149	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	686288	3121149	56007834	2687	16200											
C19orf28	126321	broad.mit.edu	37	chr19	3551146	3551146	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtggccgccccacagcccagGcaggggctgaagatgaaggg	9	3	17	12	1	0	3	0	2	0	1	0	3	0	3	4	5	1	2	4	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:3551146G>A	uc002lxz.2	-	2	515	c.345C>T	c.(343-345)TGC>TGT	p.C115C	C19orf28_uc002lxw.2_Silent_p.C115C|C19orf28_uc002lxx.2_Silent_p.C115C|C19orf28_uc002lxy.2_Silent_p.C106C	NM_174983	NP_778148	Q6NUT3	CS028_HUMAN	hypothetical protein LOC126321 isoform c	115	Helical; (Potential).				transmembrane transport	integral to membrane				breast(1)|pancreas(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00251)|STAD - Stomach adenocarcinoma(1328;0.18)		CACAGCCCAGGCAGGGGCTGA	0.667													13	28					0	0	0.013537	0	0		A	3551146	A	A	3551146	2	1	19	1	0	0	0	0	0	0	0	1	1920	1195	42	2		2	C19orf28	19	3551146	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	429997	3551146	55577837	2688	16201											
C19orf29	58509	broad.mit.edu	37	chr19	3613205	3613205	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccaggctctgctggatcAggtcctcctccatgagcacc	6	9	10	16	1	2	1	1	1	1	0	6	2	6	2	5	3	2	3	5	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:3613205A>G	uc002lyh.2	-	9	1690	c.1637T>C	c.(1636-1638)CTG>CCG	p.L546P	C19orf29_uc010xho.1_Missense_Mutation_p.L5P|C19orf29_uc010dtn.2_Missense_Mutation_p.L394P|C19orf29_uc002lyi.3_Missense_Mutation_p.L546P|C19orf29_uc010dto.2_RNA|C19orf29_uc010xhp.1_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	546						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGCTGGATCAGGTCCTCCTC	0.726													15	41					0	0	0.006122	0	0		G	3613205	G	G	3613205	3	3	19	1	0	0	0	0	1	0	0	0	1921	188	7	3	647	3	C19orf29	19	3613205	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	62059	3613205	55515778	2689	16202											
PIP5K1C	23396	broad.mit.edu	37	chr19	3641737	3641737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggggaccacaatctccaCgctgcacgcaggctccacct	8	8	9	16	2	1	0	0	0	1	0	3	1	2	1	4	3	1	4	4	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:3641737C>T	uc002lyj.1	-	15	1810	c.1753G>A	c.(1753-1755)GTG>ATG	p.V585M	PIP5K1C_uc010xhq.1_Missense_Mutation_p.V585M|PIP5K1C_uc010xhr.1_Missense_Mutation_p.V585M	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	585					axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		ACAATCTCCACGCTGCACGCA	0.672													4	41					0	0	0.001168	0	0		T	3641737	T	T	3641737	3	4	19	1	0	0	0	0	1	0	0	0	11960	536	19	1	269	1	PIP5K1C	19	3641737	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	28532	3641737	55487246	2690	16203											
PIAS4	51588	broad.mit.edu	37	chr19	4013158	4013158	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccctgaccatgcactccAcctacgaccgggccggcgct	7	5	9	20	4	0	1	0	1	0	0	1	2	1	1	7	2	2	2	7	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:4013158A>G	uc002lzg.2	+	2	275	c.265A>G	c.(265-267)ACC>GCC	p.T89A		NM_015897	NP_056981	Q8N2W9	PIAS4_HUMAN	protein inhibitor of activated STAT, 4	89					positive regulation of protein sumoylation|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|PML body	DNA binding|SUMO ligase activity|ubiquitin protein ligase binding|zinc ion binding			pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CATGCACTCCACCTACGACCG	0.627													8	94					0	0	0.00308	0	0		G	4013158	G	G	4013158	3	3	19	1	0	0	0	0	1	0	0	0	11897	159	6	3	271	3	PIAS4	19	4013158	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	371421	4013158	55115825	2691	16204											
CREB3L3	84699	broad.mit.edu	37	chr19	4171861	4171861	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccctggtcctgaggaaTgcaacagaggggctgggcca	9	5	15	12	0	0	2	0	1	0	1	1	3	1	3	4	5	2	2	4	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:4171861T>C	uc002lzl.2	+	10	1397	c.1281T>C	c.(1279-1281)AAT>AAC	p.N427N	CREB3L3_uc002lzm.2_Silent_p.N417N|CREB3L3_uc010xib.1_Silent_p.N416N|CREB3L3_uc010xic.1_3'UTR	NM_032607	NP_115996	Q68CJ9	CR3L3_HUMAN	cAMP responsive element binding protein 3-like	427	Lumenal (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0232)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCTGAGGAATGCAACAGAGG	0.687													3	52					0	0	0.004672	0	0		C	4171861	C	C	4171861	2	2	19	1	0	0	0	0	0	0	0	1	3861	1461	51	3		3	CREB3L3	19	4171861	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	158703	4171861	54957122	2692	16205											
SH3GL1	6455	broad.mit.edu	37	chr19	4361738	4361738	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggaagcccagctccccGtcgttctcgggctcgaagtc	6	9	11	15	4	2	0	1	0	1	0	7	2	3	1	3	2	2	3	3	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:4361738G>A	uc002maj.2	-	10	1072	c.966C>T	c.(964-966)GAC>GAT	p.D322D	SH3GL1_uc002mak.2_Silent_p.D258D|SH3GL1_uc010xig.1_Silent_p.D274D	NM_003025	NP_003016	Q99961	SH3G1_HUMAN	SH3-domain GRB2-like 1	322	SH3.				central nervous system development|endocytosis|signal transduction	early endosome membrane	lipid binding|protein binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0152)|STAD - Stomach adenocarcinoma(1328;0.182)		CCAGCTCCCCGTCGTTCTCGG	0.672			T	MLL	AL								24	33					0	0	0.003954	0	0		A	4361738	A	A	4361738	2	1	19	1	0	0	0	0	0	0	0	1	14275	1136	40	1		1	SH3GL1	19	4361738	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	189877	4361738	54767245	2693	16206											
CHAF1A	10036	broad.mit.edu	37	chr19	4433467	4433467	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccagggcactcccatctcGctgaagaggaagtcagcggg	10	5	14	12	2	2	2	1	1	1	1	4	3	3	3	2	3	2	2	2	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:4433467G>A	uc002mal.2	+	13	2704	c.2604G>A	c.(2602-2604)TCG>TCA	p.S868S		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	868	Binds to p60.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCCATCTCGCTGAAGAGGA	0.657								Chromatin_Structure					33	59					0	0	0.003271	0	0		A	4433467	A	A	4433467	2	1	19	1	0	0	0	0	0	0	0	1	3314	1074	38	1		1	CHAF1A	19	4433467	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	71729	4433467	54695516	2694	16207											
LRG1	116844	broad.mit.edu	37	chr19	4538098	4538098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gttctggtcacagatccaggGgttgccggagatgtcgaagc	8	9	15	9	2	2	2	1	0	1	2	4	4	3	2	2	4	2	2	2	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:4538098G>A	uc002mau.2	-	2	909	c.898C>T	c.(898-900)CCC>TCC	p.P300S	PLIN5_uc002mas.2_5'Flank|PLIN5_uc002mat.1_Intron	NM_052972	NP_443204	P02750	A2GL_HUMAN	leucine-rich alpha-2-glycoprotein 1 precursor	300	LRRCT.					extracellular region|membrane				ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGATCCAGGGGTTGCCGGAG	0.587													8	116					0	0	0.006214	0	0		A	4538098	A	A	4538098	3	1	19	1	0	0	0	0	1	0	0	0	8960	1232	43	4	149	4	LRG1	19	4538098	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	104631	4538098	54590885	2695	16208											
DPP9	91039	broad.mit.edu	37	chr19	4683528	4683528	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggattagccccatgagcgaGaggaagcccccgtaggacca	11	5	13	12	2	0	2	0	1	0	1	0	6	0	5	5	3	3	1	5	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:4683528G>A	uc002mba.2	-	19	2550	c.2292C>T	c.(2290-2292)CTC>CTT	p.L764L		NM_139159	NP_631898	Q86TI2	DPP9_HUMAN	dipeptidylpeptidase 9	735					proteolysis	cytosol|membrane	aminopeptidase activity|serine-type peptidase activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00884)		CCATGAGCGAGAGGAAGCCCC	0.652													4	58					0	0	0.009096	0	0		A	4683528	A	A	4683528	2	1	19	1	0	0	0	0	0	0	0	1	4739	929	33	4		4	DPP9	19	4683528	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	145430	4683528	54445455	2696	16209											
FEM1A	55527	broad.mit.edu	37	chr19	4792751	4792751	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgtcccaccagccgggaAgctgccgtggaagccttgga	7	7	14	13	2	0	0	0	0	0	0	1	3	1	3	5	3	5	2	5	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:4792751A>G	uc002mbf.2	+	1	1024	c.885A>G	c.(883-885)GAA>GAG	p.E295E	uc002mbg.1_RNA	NM_018708	NP_061178	Q9BSK4	FEM1A_HUMAN	fem-1 homolog a	295					regulation of ubiquitin-protein ligase activity	cytoplasm	binding|ubiquitin-protein ligase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		CCAGCCGGGAAGCTGCCGTGG	0.607													22	52					0	0	0.010818	0	0		G	4792751	G	G	4792751	2	3	19	1	0	0	0	0	0	0	0	1	5823	69	3	3		3	FEM1A	19	4792751	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	109223	4792751	54336232	2697	16210											
TICAM1	148022	broad.mit.edu	37	chr19	4817394	4817394	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacagaaagttggagtggCgtctggtctttgacagagca	10	11	13	7	1	3	3	0	1	3	2	3	4	3	4	0	3	2	2	0	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:4817394C>T	uc002mbi.2	-	2	1247	c.996G>A	c.(994-996)ACG>ACA	p.T332T		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	332	Pro-rich.				apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		GTTGGAGTGGCGTCTGGTCTT	0.517													29	70					0	0	0.012213	0	0		T	4817394	T	T	4817394	2	4	19	1	0	0	0	0	0	0	0	1	15917	755	27	1		1	TICAM1	19	4817394	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	24643	4817394	54311589	2698	16211											
LONP1	9361	broad.mit.edu	37	chr19	5700824	5700824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgtttcttgacgtcctcCatgccgtagtggtcttcctc	4	15	9	13	3	2	1	0	1	2	0	6	1	5	1	4	1	2	2	4	1	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:5700824C>T	uc002mcx.2	-	9	1515	c.1482G>A	c.(1480-1482)ATG>ATA	p.M494I	LONP1_uc002mcy.2_Missense_Mutation_p.M430I|LONP1_uc010duh.2_Missense_Mutation_p.M235I|LONP1_uc010dui.2_Missense_Mutation_p.M478I|LONP1_uc002mcz.2_Missense_Mutation_p.M298I	NM_004793	NP_004784	P36776	LONM_HUMAN	mitochondrial lon peptidase 1 precursor	494					cellular chaperone-mediated protein complex assembly|cellular response to oxidative stress|misfolded or incompletely synthesized protein catabolic process|mitochondrial DNA metabolic process|oxidation-dependent protein catabolic process|protein homooligomerization|response to hypoxia	mitochondrial nucleoid	ADP binding|ATP binding|ATP-dependent peptidase activity|DNA polymerase binding|G-quadruplex DNA binding|mitochondrial heavy strand promoter anti-sense binding|mitochondrial light strand promoter anti-sense binding|sequence-specific DNA binding|serine-type endopeptidase activity|single-stranded DNA binding|single-stranded RNA binding				0						TGACGTCCTCCATGCCGTAGT	0.602													7	90					0	0	0.00308	0	0		T	5700824	T	T	5700824	3	4	19	1	0	0	0	0	1	0	0	0	8910	594	21	4	1437	4	LONP1	19	5700824	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	883430	5700824	53428159	2699	16212											
TMEM146	257062	broad.mit.edu	37	chr19	5739377	5739377	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatatttccgtggagatcAgatatcccagacttatatat	12	14	7	8	1	1	3	1	0	0	3	3	4	3	3	2	1	1	1	2	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:5739377A>G	uc002mda.2	+	7	561	c.500A>G	c.(499-501)CAG>CGG	p.Q167R	TMEM146_uc010duj.1_5'UTR	NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	167	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						CGTGGAGATCAGATATCCCAG	0.244													4	165					0	0	0.001168	0	0		G	5739377	G	G	5739377	3	3	19	1	0	0	0	0	1	0	0	0	16085	188	7	3	526	3	TMEM146	19	5739377	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	38553	5739377	53389606	2700	16213											
PRR22	163154	broad.mit.edu	37	chr19	5784045	5784045	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggggtcgaagaagcacccGcatggggccatctggaaacc	10	4	15	12	3	1	1	0	0	1	1	2	3	1	2	3	5	2	2	3	5	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:5784045G>A	uc002mdb.1	-	1	566	c.207C>T	c.(205-207)TGC>TGT	p.C69C	PRR22_uc010xiv.1_Silent_p.C71C	NM_153359	NP_699190	Q8IZ63	PRR22_HUMAN	proline rich 22 isoform 2	69											0						AGAAGCACCCGCATGGGGCCA	0.677													38	51					0	0	0.009718	0	0		A	5784045	A	A	5784045	2	1	19	1	0	0	0	0	0	0	0	1	12615	1079	38	1		1	PRR22	19	5784045	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	44668	5784045	53344938	2701	16214											
C3	718	broad.mit.edu	37	chr19	6707497	6707497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtccattcgcttctccGtgagctgcacggaacggcgt	5	12	11	13	5	1	1	0	1	1	0	4	2	2	2	2	2	3	3	2	2	1	3	rs139945572		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:6707497G>A	uc002mfm.2	-	16	2089	c.2027C>T	c.(2026-2028)ACG>ATG	p.T676M		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	676					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TCGCTTCTCCGTGAGCTGCAC	0.667													24	53					0	0	0.004878	0	0		A	6707497	A	A	6707497	3	1	19	1	0	0	0	0	1	0	0	0	2207	1145	40	1	3068	1	C3	19	6707497	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	923452	6707497	52421486	2702	16215											
ZNF557	79230	broad.mit.edu	37	chr19	7075715	7075715	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagaaggacacacagagggCggagagctggttaatgagct	13	5	16	7	2	0	4	0	1	0	3	0	7	0	5	0	4	2	3	0	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:7075715C>T	uc002mgb.2	+	4	545	c.60C>T	c.(58-60)GGC>GGT	p.G20G	ZNF557_uc002mga.2_Silent_p.G27G|ZNF557_uc002mgc.2_Silent_p.G27G	NM_001044388	NP_001037853	Q8N988	ZN557_HUMAN	zinc finger protein 557 isoform b	20					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2				Lung(535;0.179)		ACACAGAGGGCGGAGAGCTGG	0.517													35	104					0	0	0.005524	0	0		T	7075715	T	T	7075715	2	4	19	1	0	0	0	0	0	0	0	1	18013	755	27	1		1	ZNF557	19	7075715	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	368218	7075715	52053268	2703	16216											
MCOLN1	57192	broad.mit.edu	37	chr19	7589892	7589892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgggtatgggacccaggCggggccttcaccggcccctc	4	5	14	18	3	1	0	1	0	0	0	2	1	1	1	7	6	0	1	7	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:7589892C>T	uc002mgo.2	+	2	202	c.77C>T	c.(76-78)GCG>GTG	p.A26V	MCOLN1_uc010dvh.1_Missense_Mutation_p.A26V|MCOLN1_uc002mgp.2_5'UTR	NM_020533	NP_065394	Q9GZU1	MCLN1_HUMAN	mucolipin 1	26					calcium ion transport|cellular iron ion homeostasis|transferrin transport	integral to plasma membrane|late endosome membrane|lysosomal membrane	cation channel activity|iron ion transmembrane transporter activity			breast(1)	1						GGGACCCAGGCGGGGCCTTCA	0.622													5	28					0	0	0.001984	0	0		T	7589892	T	T	7589892	3	4	19	1	0	0	0	0	1	0	0	0	9413	768	27	1	83	1	MCOLN1	19	7589892	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	514177	7589892	51539091	2704	16217											
KIAA1543	57662	broad.mit.edu	37	chr19	7670197	7670197	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccggtgacacggctgctGctctcagccgagctctactg	5	8	11	17	3	2	1	1	1	2	0	3	2	2	1	3	2	5	4	3	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:7670197G>T	uc002mgv.3	+	2	335	c.234G>T	c.(232-234)CTG>CTT	p.L78L	KIAA1543_uc002mgu.3_Silent_p.L78L	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	78					epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						CACGGCTGCTGCTCTCAGCCG	0.667													9	132					1.3612e-06	1.40641e-06	0.003163	1	0		T	7670197	T	T	7670197	2	4	19	1	0	0	0	0	0	0	0	1	8259	1306	46	5		5	KIAA1543	19	7670197	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	80305	7670197	51458786	2705	16218											
XAB2	56949	broad.mit.edu	37	chr19	7684859	7684859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggatcttgctctgggcgCgcaagggctggtcacgctcc	6	8	14	13	3	3	0	1	0	2	0	4	1	4	1	1	4	1	4	1	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:7684859C>T	uc002mgx.2	-	17	2395	c.2369G>A	c.(2368-2370)CGC>CAC	p.R790H		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	790					transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						GCTCTGGGCGCGCAAGGGCTG	0.672								Direct_reversal_of_damage|NER					4	60					0	0	0.009096	0	0		T	7684859	T	T	7684859	3	4	19	1	0	0	0	0	1	0	0	0	17444	768	27	1	210	1	XAB2	19	7684859	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	14662	7684859	51444124	2706	16219											
ELAVL1	1994	broad.mit.edu	37	chr19	8028431	8028431	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcccccaggcggtagccgTtcaggctggctatggccatc	5	9	13	14	2	1	0	1	0	0	0	3	0	2	0	4	5	1	4	4	5	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:8028431T>C	uc002mjb.2	-	6	1084	c.917A>G	c.(916-918)AAC>AGC	p.N306S		NM_001419	NP_001410	Q15717	ELAV1_HUMAN	ELAV-like 1	306	RRM 3.				3'-UTR-mediated mRNA stabilization|multicellular organismal development	cytoplasm|nucleoplasm	identical protein binding|mRNA binding|nucleotide binding				0						GCGGTAGCCGTTCAGGCTGGC	0.458													30	85					0	0	0.01441	0	0		C	8028431	C	C	8028431	3	2	19	1	0	0	0	0	1	0	0	0	5057	1725	60	3	67	3	ELAVL1	19	8028431	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	343572	8028431	51100552	2707	16220											
FBN3	84467	broad.mit.edu	37	chr19	8137979	8137979	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaagtagccttgaggacaGccgcacaggaagccaccagg	12	3	14	12	2	0	1	0	1	0	0	0	4	0	4	4	4	3	2	4	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:8137979G>A	uc002mjf.2	-	61	7926	c.7905C>T	c.(7903-7905)GGC>GGT	p.G2635G	FBN3_uc002mje.2_Silent_p.G431G	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2635	EGF-like 44; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CTTGAGGACAGCCGCACAGGA	0.612													42	79					0	0	0.010771	0	0		A	8137979	A	A	8137979	2	1	19	1	0	0	0	0	0	0	0	1	5718	958	34	2		2	FBN3	19	8137979	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	109548	8137979	50991004	2708	16221											
FBN3	84467	broad.mit.edu	37	chr19	8196449	8196449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatgctcaccggagtctttgGcaggacaaagctggcagggc	9	7	15	10	1	2	0	1	0	1	0	2	3	2	2	1	5	2	4	1	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:8196449G>A	uc002mjf.2	-	14	2000	c.1979C>T	c.(1978-1980)GCC>GTC	p.A660V		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	660	TB 3.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GGAGTCTTTGGCAGGACAAAG	0.642													35	94					0	0	0.009718	0	0		A	8196449	A	A	8196449	3	1	19	1	0	0	0	0	1	0	0	0	5718	1203	42	2	6650	2	FBN3	19	8196449	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	58470	8196449	50932534	2709	16222											
ANGPTL4	51129	broad.mit.edu	37	chr19	8436327	8436327	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaccaccgtcccacccagCggcctctccgtacccttctc	5	7	6	23	3	2	0	0	0	2	0	5	0	3	0	8	1	2	1	8	1	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:8436327C>T	uc002mjq.1	+	6	1155	c.960C>T	c.(958-960)AGC>AGT	p.S320S	ANGPTL4_uc002mjr.1_Silent_p.S282S|ANGPTL4_uc010xkc.1_Silent_p.S153S	NM_139314	NP_647475	Q9BY76	ANGL4_HUMAN	angiopoietin-like 4 protein isoform a precursor	320	Fibrinogen C-terminal.				angiogenesis|cell differentiation|cellular lipid metabolic process|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|positive regulation of angiogenesis|response to hypoxia|signal transduction|triglyceride homeostasis	extracellular space|proteinaceous extracellular matrix	enzyme inhibitor activity|receptor binding			ovary(1)	1						TCCCACCCAGCGGCCTCTCCG	0.672													19	40					0	0	0.012319	0	0		T	8436327	T	T	8436327	2	4	19	1	0	0	0	0	0	0	0	1	616	767	27	1		1	ANGPTL4	19	8436327	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	239878	8436327	50692656	2710	16223											
PRAM1	84106	broad.mit.edu	37	chr19	8563852	8563852	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggaggcttcttgggaaaGtcactcagcggaggctggga	8	8	17	8	2	3	0	2	0	1	0	3	4	3	4	0	6	2	2	0	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:8563852G>A	uc002mkd.2	-	2	860	c.840C>T	c.(838-840)GAC>GAT	p.D280D	PRAM1_uc002mkc.2_Silent_p.D280D	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	328	Pro-rich.						lipid binding|protein binding				0						TCTTGGGAAAGTCACTCAGCG	0.657													8	57					0	0	0.004482	0	0		A	8563852	A	A	8563852	2	1	19	1	0	0	0	0	0	0	0	1	12445	1020	36	4		4	PRAM1	19	8563852	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	127525	8563852	50565131	2711	16224											
ADAMTS10	81794	broad.mit.edu	37	chr19	8668717	8668717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagaacccttgggcccacCgtgcaggggctcaatcaggt	8	6	13	14	2	2	1	2	0	0	1	2	2	2	1	4	4	2	2	4	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:8668717C>T	uc002mkj.1	-	5	761	c.487G>A	c.(487-489)GGT>AGT	p.G163S	ADAMTS10_uc002mkk.1_5'UTR	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	163					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						TTGGGCCCACCGTGCAGGGGC	0.587													22	48					0	0	0.014323	0	0		T	8668717	T	T	8668717	3	4	19	1	0	0	0	0	1	0	0	0	256	652	23	1	2912	1	ADAMTS10	19	8668717	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	104865	8668717	50460266	2712	16225											
MUC16	94025	broad.mit.edu	37	chr19	9048747	9048747	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggtggccattgaaggtgTggtctctggttcaccaagag	8	11	14	8	0	2	2	1	1	1	1	3	2	2	2	2	5	0	1	2	5	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:9048747T>C	uc002mkp.2	-	5	33088	c.32884A>G	c.(32884-32886)ACA>GCA	p.T10962A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10964	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATTGAAGGTGTGGTCTCTGGT	0.498													40	109					0	0	0.010771	0	0		C	9048747	C	C	9048747	3	2	19	1	0	0	0	0	1	0	0	0	9991	1696	59	3	10959	3	MUC16	19	9048747	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	380030	9048747	50080236	2713	16226											
MUC16	94025	broad.mit.edu	37	chr19	9056901	9056901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaggtgtatttgttggtGtgactgagctggtgtccagg	8	13	16	4	0	0	3	0	2	0	1	1	3	1	3	1	4	1	3	1	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:9056901G>A	uc002mkp.2	-	3	30749	c.30545C>T	c.(30544-30546)ACA>ATA	p.T10182I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10184	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATTTGTTGGTGTGACTGAGCT	0.458													14	58					0	0	0.010504	0	0		A	9056901	A	A	9056901	3	1	19	1	0	0	0	0	1	0	0	0	9991	1377	48	4	13306	4	MUC16	19	9056901	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	8154	9056901	50072082	2714	16227											
MUC16	94025	broad.mit.edu	37	chr19	9063940	9063940	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcccttcagagccgctggActccctcaatccaggggtca	7	8	11	15	1	3	1	3	0	0	1	6	2	6	2	4	4	1	1	4	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:9063940A>T	uc002mkp.2	-	3	23710	c.23506T>A	c.(23506-23508)TCC>ACC	p.S7836T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7838	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAGCCGCTGGACTCCCTCAAT	0.542													5	87					0	0	0.000602	0	0		T	9063940	T	T	9063940	3	4	19	1	0	0	0	0	1	0	0	0	9991	275	10	5	20345	5	MUC16	19	9063940	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	7039	9063940	50065043	2715	16228											
MUC16	94025	broad.mit.edu	37	chr19	9066859	9066859	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcagtatctcatgtgaggTactgctcaaatttggaggtg	9	14	12	6	0	3	1	3	1	1	0	4	2	3	2	0	3	2	3	0	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:9066859T>C	uc002mkp.2	-	3	20791	c.20587A>G	c.(20587-20589)ACC>GCC	p.T6863A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6865	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCATGTGAGGTACTGCTCAAA	0.493													65	82					0	0	0.01441	0	0		C	9066859	C	C	9066859	3	2	19	1	0	0	0	0	1	0	0	0	9991	1638	57	3	23264	3	MUC16	19	9066859	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2919	9066859	50062124	2716	16229											
MUC16	94025	broad.mit.edu	37	chr19	9075275	9075275	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggcaaggaatgagctggaTattctcttagaggaggtaat	12	11	14	4	0	1	2	0	1	1	1	2	5	1	5	0	5	1	3	0	5	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:9075275T>C	uc002mkp.2	-	3	12375	c.12171A>G	c.(12169-12171)ATA>ATG	p.I4057M		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4059	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATGAGCTGGATATTCTCTTAG	0.498													65	120					0	0	0.01441	0	0		C	9075275	C	C	9075275	3	2	19	1	0	0	0	0	1	0	0	0	9991	1396	49	3	31680	3	MUC16	19	9075275	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	8416	9075275	50053708	2717	16230											
MUC16	94025	broad.mit.edu	37	chr19	9084585	9084585	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggaacctggggtctatcTgaagagaagagagatgggga	12	7	18	4	0	2	4	0	1	2	3	2	8	2	6	1	5	1	0	1	5	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:9084585T>C	uc002mkp.2	-	1	7434	c.7230A>G	c.(7228-7230)TCA>TCG	p.S2410S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2410	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGGGTCTATCTGAAGAGAAGA	0.478													19	28					0	0	0.007413	0	0		C	9084585	C	C	9084585	2	2	19	1	0	0	0	0	0	0	0	1	9991	1567	55	3		3	MUC16	19	9084585	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	9310	9084585	50044398	2718	16231											
ZNF317	57693	broad.mit.edu	37	chr19	9270967	9270967	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactcagcacatgagcatgTacgacgggagaaaaatgcat	15	7	10	9	2	2	2	2	1	0	1	2	4	2	2	0	1	4	4	0	1	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:9270967T>C	uc002mku.2	+	7	921	c.646T>C	c.(646-648)TAC>CAC	p.Y216H	ZNF317_uc002mkv.2_Missense_Mutation_p.Y75H|ZNF317_uc002mkw.2_Missense_Mutation_p.Y184H|ZNF317_uc002mkx.2_Missense_Mutation_p.Y131H|ZNF317_uc002mky.2_Missense_Mutation_p.Y99H	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	216					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CATGAGCATGTACGACGGGAG	0.587													14	49					0	0	0.00245	0	0		C	9270967	C	C	9270967	3	2	19	1	0	0	0	0	1	0	0	0	17860	1638	57	3	668	3	ZNF317	19	9270967	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	186382	9270967	49858016	2719	16232											
ZNF559	84527	broad.mit.edu	37	chr19	9452554	9452554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacacaagaaaactgatatcGgagaggaacttcctaactgt	16	9	8	8	1	0	3	0	1	0	2	2	5	1	4	1	2	4	0	1	2	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:9452554G>A	uc002mlg.2	+	7	1074	c.427G>A	c.(427-429)GGA>AGA	p.G143R	ZNF559_uc002mlf.2_5'UTR|ZNF559_uc010dwl.1_5'UTR|ZNF559_uc010xkn.1_Missense_Mutation_p.G135R|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Missense_Mutation_p.G207R|ZNF559_uc010dwk.1_5'UTR|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	143					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AACTGATATCGGAGAGGAACT	0.363													46	111					0	0	0.011902	0	0		A	9452554	A	A	9452554	3	1	19	1	0	0	0	0	1	0	0	0	18015	1117	39	1	441	1	ZNF559	19	9452554	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	181587	9452554	49676429	2720	16233											
KRI1	65095	broad.mit.edu	37	chr19	10670348	10670348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcgctcatccttacggcGcacggaggacgcgatgctgc	6	8	13	14	6	2	0	1	0	1	0	3	3	3	2	1	3	4	3	1	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:10670348G>A	uc002moy.1	-	11	991	c.982C>T	c.(982-984)CGC>TGC	p.R328C	KRI1_uc002mow.1_5'UTR|KRI1_uc002mox.1_Missense_Mutation_p.R324C	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	328	Glu-rich.									ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			TCCTTACGGCGCACGGAGGAC	0.622													5	75					0	0	0.001168	0	0		A	10670348	A	A	10670348	3	1	19	1	0	0	0	0	1	0	0	0	8460	1087	38	1	1183	1	KRI1	19	10670348	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1217794	10670348	48458635	2721	16234											
KRI1	65095	broad.mit.edu	37	chr19	10670512	10670512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagtccggctcctcgaaacGgaaattgtacttctgttcaa	10	12	9	10	3	2	1	1	1	1	0	5	3	4	2	2	2	2	3	2	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:10670512G>A	uc002moy.1	-	10	928	c.919C>T	c.(919-921)CGT>TGT	p.R307C	KRI1_uc002mow.1_5'UTR|KRI1_uc002mox.1_Missense_Mutation_p.R303C	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	307	Glu-rich.									ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			TCCTCGAAACGGAAATTGTAC	0.607													29	58					0	0	0.004289	0	0		A	10670512	A	A	10670512	3	1	19	1	0	0	0	0	1	0	0	0	8460	1116	39	1	1250	1	KRI1	19	10670512	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	164	10670512	48458471	2722	16235											
ILF3	3609	broad.mit.edu	37	chr19	10791697	10791697	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttccccttctccagcaCgcactgcggctcgctgcctt	3	11	7	20	3	2	0	0	0	2	0	5	0	3	0	5	1	3	4	5	1	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:10791697C>T	uc002mpn.2	+	10	1277	c.960C>T	c.(958-960)CAC>CAT	p.H320H	ILF3_uc002mpm.2_Silent_p.H320H|ILF3_uc002mpl.2_Silent_p.H320H|ILF3_uc002mpk.2_Silent_p.H320H|ILF3_uc010xli.1_Intron|ILF3_uc002mpo.2_Silent_p.H320H|ILF3_uc002mpp.2_Silent_p.H141H	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	320	DZF.				M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			TTCTCCAGCACGCACTGCGGC	0.592													18	65					0	0	0.010818	0	0		T	10791697	T	T	10791697	2	4	19	1	0	0	0	0	0	0	0	1	7728	535	19	1		1	ILF3	19	10791697	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	121185	10791697	48337286	2723	16236											
KANK2	25959	broad.mit.edu	37	chr19	11304581	11304581	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcactgccacgcgtcgcaGcgtgtggcccttctcgatgt	4	10	12	15	5	1	0	0	0	1	0	3	1	1	0	2	1	3	2	2	1	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:11304581G>C	uc010dxv.2	-	6	733	c.175C>G	c.(175-177)CTG>GTG	p.L59V	KANK2_uc002mqm.2_Missense_Mutation_p.L59V|KANK2_uc002mqo.3_Missense_Mutation_p.L59V|KANK2_uc002mqp.1_5'UTR|KANK2_uc002mqq.2_Missense_Mutation_p.L59V	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	59											0						ACGCGTCGCAGCGTGTGGCCC	0.667													6	91					0	0	0.001168	0	0		C	11304581	C	C	11304581	3	2	19	1	0	0	0	0	1	0	0	0	7993	962	34	5	2444	5	KANK2	19	11304581	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	512884	11304581	47824402	2724	16237											
DOCK6	57572	broad.mit.edu	37	chr19	11319449	11319449	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcagaagccctcctcgtcGggcgacaggatgtcgtcgga	8	6	15	12	5	0	1	0	0	0	1	5	5	1	3	2	3	2	1	2	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:11319449G>A	uc002mqs.3	-	39	5042	c.5001C>T	c.(4999-5001)CCC>CCT	p.P1667P	DOCK6_uc002mqr.3_Silent_p.P65P|DOCK6_uc010xlq.1_Silent_p.P1006P	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1667	DHR-2.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CCTCCTCGTCGGGCGACAGGA	0.627													10	61					0	0	0.008291	0	0		A	11319449	A	A	11319449	2	1	19	1	0	0	0	0	0	0	0	1	4697	1103	39	1		1	DOCK6	19	11319449	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	14868	11319449	47809534	2725	16238											
DOCK6	57572	broad.mit.edu	37	chr19	11325304	11325304	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccttccaccaaggcctcGtgttccatttcatccttggt	5	15	6	15	1	1	0	1	0	0	0	6	0	5	0	6	2	0	1	6	2	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:11325304G>A	uc002mqs.3	-	33	4169	c.4128C>T	c.(4126-4128)CAC>CAT	p.H1376H	DOCK6_uc010xlq.1_Silent_p.H715H	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1376					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CCAAGGCCTCGTGTTCCATTT	0.587													23	41					0	0	0.012319	0	0		A	11325304	A	A	11325304	2	1	19	1	0	0	0	0	0	0	0	1	4697	1136	40	1		1	DOCK6	19	11325304	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	5855	11325304	47803679	2726	16239											
DOCK6	57572	broad.mit.edu	37	chr19	11333573	11333573	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggggacgactggagccgCgtggccacctgcaggagagg	8	5	18	10	3	0	1	0	0	0	1	0	5	0	3	3	6	2	1	3	6	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:11333573C>T	uc002mqs.3	-	26	3119	c.3078G>A	c.(3076-3078)ACG>ACA	p.T1026T	DOCK6_uc010xlq.1_Silent_p.T365T	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1026					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						ACTGGAGCCGCGTGGCCACCT	0.632													6	15					0	0	0.001984	0	0		T	11333573	T	T	11333573	2	4	19	1	0	0	0	0	0	0	0	1	4697	755	27	1		1	DOCK6	19	11333573	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	8269	11333573	47795410	2727	16240											
DOCK6	57572	broad.mit.edu	37	chr19	11361698	11361698	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggttcctcaggtcgaagAtgctagaggcaccactgctt	9	9	11	12	1	1	2	1	0	0	2	3	3	2	2	3	3	2	4	3	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:11361698A>G	uc002mqs.3	-	6	613	c.572T>C	c.(571-573)ATC>ACC	p.I191T		NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	191					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CAGGTCGAAGATGCTAGAGGC	0.622													8	28					0	0	0.006214	0	0		G	11361698	G	G	11361698	3	3	19	1	0	0	0	0	1	0	0	0	4697	333	12	3	5743	3	DOCK6	19	11361698	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	28125	11361698	47767285	2728	16241											
CCDC151	115948	broad.mit.edu	37	chr19	11531591	11531591	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcgcgggtcactacctcgTtgtcctcctcctcactctct	4	13	7	17	3	3	0	2	0	1	0	8	0	6	0	4	1	2	1	4	1	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:11531591T>C	uc002mrs.2	-	13	1843	c.1700A>G	c.(1699-1701)AAC>AGC	p.N567S	CCDC151_uc002mrr.2_Missense_Mutation_p.N502S|CCDC151_uc010dxz.2_Missense_Mutation_p.N507S|RGL3_uc002mrn.2_5'Flank|RGL3_uc002mrm.2_5'Flank|RGL3_uc002mro.2_5'Flank|RGL3_uc002mrp.2_5'Flank|RGL3_uc002mrq.2_5'Flank	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	567										ovary(1)	1						CACTACCTCGTTGTCCTCCTC	0.577													14	122					0	0	0.004007	0	0		C	11531591	C	C	11531591	3	2	19	1	0	0	0	0	1	0	0	0	2789	1725	60	3	91	3	CCDC151	19	11531591	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	169893	11531591	47597392	2729	16242											
CNN1	1264	broad.mit.edu	37	chr19	11651959	11651959	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgagggggtgacaggccgTcgcatcggcaacaacttcat	10	7	13	11	4	1	1	1	1	0	0	4	2	1	1	1	4	2	2	1	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:11651959T>C	uc002msc.1	+	2	296	c.132T>C	c.(130-132)CGT>CGC	p.R44R	CNN1_uc010xmb.1_5'UTR|CNN1_uc010xmc.1_5'UTR	NM_001299	NP_001290	P51911	CNN1_HUMAN	calponin 1, basic, smooth muscle	44	CH.				actomyosin structure organization|regulation of smooth muscle contraction	cytoskeleton	actin binding|calmodulin binding				0						TGACAGGCCGTCGCATCGGCA	0.617													10	31					0	0	0.001855	0	0		C	11651959	C	C	11651959	2	2	19	1	0	0	0	0	0	0	0	1	3612	1654	58	3		3	CNN1	19	11651959	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	120368	11651959	47477024	2730	16243											
ZNF441	126068	broad.mit.edu	37	chr19	11891889	11891889	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactactcacactggagagaAgccatataaatgtaaacaat	19	8	6	8	0	1	1	1	0	0	1	1	3	1	2	1	1	4	1	1	1	9	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:11891889A>G	uc010dyj.2	+	4	1444	c.1250A>G	c.(1249-1251)AAG>AGG	p.K417R	ZNF441_uc002msn.3_Missense_Mutation_p.K373R	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	417					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ACTGGAGAGAAGCCATATAAA	0.363													18	25					0	0	0.00499	0	0		G	11891889	G	G	11891889	3	3	19	1	0	0	0	0	1	0	0	0	17939	72	3	3	1264	3	ZNF441	19	11891889	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	239930	11891889	47237094	2731	16244											
ZNF439	90594	broad.mit.edu	37	chr19	11979050	11979050	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaatgcaagcaatgtggtaAagccttcactcgttccggtt	11	12	9	9	2	1	0	1	0	0	0	3	0	2	0	2	2	3	5	2	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:11979050A>G	uc002mss.2	+	3	1294	c.1166A>G	c.(1165-1167)AAA>AGA	p.K389R	ZNF439_uc002msr.2_Missense_Mutation_p.K253R	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	389	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CAATGTGGTAAAGCCTTCACT	0.428													12	102					0	0	0.010729	0	0		G	11979050	G	G	11979050	3	3	19	1	0	0	0	0	1	0	0	0	17936	14	1	3	1176	3	ZNF439	19	11979050	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	87161	11979050	47149933	2732	16245											
ZNF700	90592	broad.mit.edu	37	chr19	12060478	12060478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtggtaaagccttcagaTgttgcaattcccttcgatat	11	14	8	8	1	1	1	1	0	0	1	3	2	2	1	2	1	2	3	2	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:12060478T>C	uc002msu.2	+	4	1765	c.1639T>C	c.(1639-1641)TGT>CGT	p.C547R	ZNF700_uc010xme.1_Missense_Mutation_p.C565R|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	547	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGCCTTCAGATGTTGCAATTC	0.428													20	114					0	0	0.008871	0	0		C	12060478	C	C	12060478	3	2	19	1	0	0	0	0	1	0	0	0	18129	1464	51	3	1653	3	ZNF700	19	12060478	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	81428	12060478	47068505	2733	16246											
ZNF799	90576	broad.mit.edu	37	chr19	12502150	12502150	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgtgagttctttcatgActtttcagtgaactaggaca	10	14	9	8	0	3	3	2	3	1	0	3	4	3	4	1	1	1	1	1	1	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:12502150A>G	uc010dyt.2	-	4	1212	c.1062T>C	c.(1060-1062)AGT>AGC	p.S354S	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	354	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						TTCTTTCATGACTTTTCAGTG	0.418													16	246					0	0	0.004007	0	0		G	12502150	G	G	12502150	2	3	19	1	0	0	0	0	0	0	0	1	18191	272	10	3		3	ZNF799	19	12502150	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	441672	12502150	46626833	2734	16247											
ZNF709	163051	broad.mit.edu	37	chr19	12576123	12576123	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggttgtgtgataaatgaAggccttcccacattccttac	12	12	8	9	0	0	2	0	2	0	0	2	2	2	2	3	2	1	1	3	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:12576123A>G	uc002mtv.3	-	4	774	c.613T>C	c.(613-615)TTC>CTC	p.F205L	ZNF709_uc002mtw.3_Missense_Mutation_p.F173L|ZNF709_uc002mtx.3_Missense_Mutation_p.F205L	NM_152601	NP_689814	Q8N972	ZN709_HUMAN	zinc finger protein 709 isoform a	205	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGATAAATGAAGGCCTTCCCA	0.428													49	133					0	0	0.01441	0	0		G	12576123	G	G	12576123	3	3	19	1	0	0	0	0	1	0	0	0	18138	72	3	3	1316	3	ZNF709	19	12576123	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	73973	12576123	46552860	2735	16248											
CALR	811	broad.mit.edu	37	chr19	13054412	13054412	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgaggcatacgctgaggAgtttggcaacgagacgtggg	10	7	17	7	4	0	3	0	2	0	1	0	6	0	4	0	4	2	4	0	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:13054412A>G	uc002mvu.2	+	8	1102	c.1022A>G	c.(1021-1023)GAG>GGG	p.E341G	CALR_uc002mvv.2_5'Flank|RAD23A_uc002mvw.1_5'Flank|RAD23A_uc002mvx.1_5'Flank|RAD23A_uc002mvz.1_5'Flank|RAD23A_uc002mwa.1_5'Flank|RAD23A_uc002mvy.1_5'Flank|RAD23A_uc010xmw.1_5'Flank	NM_004343	NP_004334	P27797	CALR_HUMAN	calreticulin precursor	341	C-domain.				cell cycle arrest|cellular senescence|glucocorticoid receptor signaling pathway|negative regulation of neuron differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of steroid hormone receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of translation|peptide antigen assembly with MHC class I protein complex|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of phagocytosis|post-translational protein modification|protein export from nucleus|protein maturation by protein folding|protein N-linked glycosylation via asparagine|protein stabilization|regulation of apoptosis|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|extracellular space|MHC class I peptide loading complex|nucleus|perinuclear region of cytoplasm|polysome|proteinaceous extracellular matrix	androgen receptor binding|calcium ion binding|chaperone binding|complement component C1q binding|DNA binding|integrin binding|mRNA binding|protein binding involved in protein folding|sugar binding|ubiquitin protein ligase binding|unfolded protein binding|zinc ion binding			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)	TACGCTGAGGAGTTTGGCAAC	0.592													3	97					0	0	0.004672	0	0		G	13054412	G	G	13054412	3	3	19	1	0	0	0	0	1	0	0	0	2595	304	11	3	1052	3	CALR	19	13054412	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	478289	13054412	46074571	2736	16249											
RAD23A	5886	broad.mit.edu	37	chr19	13058813	13058813	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaactttgtggtcgtcaTggtgaccaaggtgggtgacg	9	10	16	6	2	1	3	1	2	0	1	2	4	1	3	1	4	1	0	1	4	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:13058813T>C	uc002mvw.1	+	2	333	c.224T>C	c.(223-225)ATG>ACG	p.M75T	RAD23A_uc002mvx.1_Missense_Mutation_p.M75T|RAD23A_uc002mvz.1_Missense_Mutation_p.M75T|RAD23A_uc002mwa.1_Missense_Mutation_p.M75T|RAD23A_uc002mvy.1_5'UTR|RAD23A_uc010xmw.1_5'UTR	NM_005053	NP_005044	P54725	RD23A_HUMAN	UV excision repair protein RAD23 homolog A	75	Ubiquitin-like.				interspecies interaction between organisms|nucleotide-excision repair|positive regulation of viral genome replication|proteasomal ubiquitin-dependent protein catabolic process|regulation of proteasomal ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	damaged DNA binding|polyubiquitin binding|single-stranded DNA binding			central_nervous_system(1)	1						GTGGTCGTCATGGTGACCAAG	0.562								NER					9	112					0	0	0.008291	0	0		C	13058813	C	C	13058813	3	2	19	1	0	0	0	0	1	0	0	0	13007	1464	51	3	230	3	RAD23A	19	13058813	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4401	13058813	46070170	2737	16250											
TRMT1	55621	broad.mit.edu	37	chr19	13226508	13226508	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggttttcactctctttcaGttcaaccttttcctcctctt	5	19	3	14	0	5	0	3	0	2	0	8	0	7	0	3	1	1	2	3	1	1	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:13226508G>A	uc002mwj.2	-	3	635	c.385C>T	c.(385-387)CTG>TTG	p.L129L	NACC1_uc002mwm.2_5'Flank|TRMT1_uc002mwk.2_Silent_p.L129L|TRMT1_uc002mwl.3_Silent_p.L129L|TRMT1_uc010xmz.1_5'UTR	NM_017722	NP_060192	Q9NXH9	TRM1_HUMAN	tRNA methyltransferase 1 isoform 1	129							RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.08e-22)	GBM - Glioblastoma multiforme(1328;0.0356)		CTCTCTTTCAGTTCAACCTTT	0.572													139	250					0	0	0.01441	0	0		A	13226508	A	A	13226508	2	1	19	1	0	0	0	0	0	0	0	1	16587	1020	36	4		4	TRMT1	19	13226508	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	167695	13226508	45902475	2738	16251											
MRI1	84245	broad.mit.edu	37	chr19	13879776	13879776	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcttcatgtgacctccGtctggagaccggcaaggaga	9	8	12	12	2	3	3	1	1	2	2	4	5	4	3	3	3	1	2	3	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:13879776G>A	uc002mxe.2	+	5	929	c.863G>A	c.(862-864)CGT>CAT	p.R288H	MRI1_uc002mxf.2_Missense_Mutation_p.R241H	NM_001031727	NP_001026897	Q9BV20	MTNA_HUMAN	translation initiation factor eIF-2B subunit	288					L-methionine salvage from methylthioadenosine	cell projection|cytoplasm|nucleus	identical protein binding|S-methyl-5-thioribose-1-phosphate isomerase activity			ovary(1)	1						TGTGACCTCCGTCTGGAGACC	0.592													8	26					0	0	0.004482	0	0		A	13879776	A	A	13879776	3	1	19	1	0	0	0	0	1	0	0	0	9788	1145	40	1	974	1	MRI1	19	13879776	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	653268	13879776	45249207	2739	16252											
RFX1	5989	broad.mit.edu	37	chr19	14077502	14077502	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtccccgggcccgacgccCtcaggcagcaccttgccctg	5	6	11	19	3	1	0	1	0	0	0	2	1	2	0	6	2	2	2	6	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:14077502C>A	uc002mxv.2	-	13	2066	c.1794G>T	c.(1792-1794)GAG>GAT	p.E598D		NM_002918	NP_002909	P22670	RFX1_HUMAN	regulatory factor X1	598					immune response	nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			lung(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			GCCCGACGCCCTCAGGCAGCA	0.677													37	77					1.47197e-15	1.55846e-15	0.007835	1	0		A	14077502	A	A	14077502	3	1	19	1	0	0	0	0	1	0	0	0	13287	680	24	5	1181	5	RFX1	19	14077502	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	197726	14077502	45051481	2740	16253											
RFX1	5989	broad.mit.edu	37	chr19	14094383	14094383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggctggcctccgacactGtctcgctggcccgcatggca	4	7	14	16	4	1	0	0	0	1	0	3	1	2	0	3	5	0	4	3	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:14094383G>A	uc002mxv.2	-	3	616	c.344C>T	c.(343-345)ACA>ATA	p.T115I	RFX1_uc010dzi.2_Missense_Mutation_p.T115I	NM_002918	NP_002909	P22670	RFX1_HUMAN	regulatory factor X1	115					immune response	nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			lung(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			CTCCGACACTGTCTCGCTGGC	0.682													6	9					0	0	0.006214	0	0		A	14094383	A	A	14094383	3	1	19	1	0	0	0	0	1	0	0	0	13287	1377	48	4	2671	4	RFX1	19	14094383	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	16881	14094383	45034600	2741	16254											
IL27RA	9466	broad.mit.edu	37	chr19	14150709	14150709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccgaagatgtcaggaggCggcctggaccctggtgagtg	8	7	16	10	2	1	2	1	1	0	1	1	5	1	4	3	5	1	0	3	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:14150709C>T	uc002mxx.2	+	4	944	c.521C>T	c.(520-522)GCG>GTG	p.A174V		NM_004843	NP_004834	Q6UWB1	I27RA_HUMAN	class I cytokine receptor precursor	174	Extracellular (Potential).|Fibronectin type-III 1.				cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0						TGTCAGGAGGCGGCCTGGACC	0.592													36	101					0	0	0.007835	0	0		T	14150709	T	T	14150709	3	4	19	1	0	0	0	0	1	0	0	0	7697	768	27	1	535	1	IL27RA	19	14150709	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	56326	14150709	44978274	2742	16255											
LPHN1	22859	broad.mit.edu	37	chr19	14271413	14271413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtggctggtaccttctgggCcacctggttgacccaggggg	4	9	17	11	0	1	1	0	1	1	0	1	1	1	1	4	7	1	3	4	7	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:14271413C>T	uc010xnn.1	-	8	1917	c.1621G>A	c.(1621-1623)GCC>ACC	p.A541T	LPHN1_uc010xno.1_Missense_Mutation_p.A536T|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	541	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						ACCTTCTGGGCCACCTGGTTG	0.682													11	11					0	0	0.013537	0	0		T	14271413	T	T	14271413	3	4	19	1	0	0	0	0	1	0	0	0	8933	739	26	2	2871	2	LPHN1	19	14271413	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	120704	14271413	44857570	2743	16256											
DDX39	10212	broad.mit.edu	37	chr19	14520628	14520628	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctttgagtttgacgtagtActgctgcaggccgtgcagcg	6	12	14	9	3	1	2	0	2	1	0	1	2	1	2	1	1	5	6	1	1	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:14520628A>G	uc010xnp.1	-	7	835	c.790T>C	c.(790-792)TAC>CAC	p.Y264H	DDX39_uc002myo.2_Missense_Mutation_p.Y264H|DDX39_uc010dzl.2_RNA	NM_005804	NP_005795	O00148	DX39A_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39	264	Helicase C-terminal.				mRNA export from nucleus|nuclear mRNA splicing, via spliceosome	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding				0						TTGACGTAGTACTGCTGCAGG	0.562													46	71					0	0	0.01441	0	0		G	14520628	G	G	14520628	3	3	19	1	0	0	0	0	1	0	0	0	4360	391	14	3	513	3	DDX39	19	14520628	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	249215	14520628	44608355	2744	16257											
OR7A5	26659	broad.mit.edu	37	chr19	14938274	14938274	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcgggtggcagcagaactAaggtacacccctaggattgc	10	8	13	10	1	0	1	0	0	0	1	0	2	0	2	2	4	5	3	2	4	4	5	rs146377382	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:14938274A>G	uc002mzw.2	-	1	1003	c.780T>C	c.(778-780)CTT>CTC	p.L260L	OR7A5_uc010xoa.1_Silent_p.L260L	NM_017506	NP_059976	Q15622	OR7A5_HUMAN	olfactory receptor, family 7, subfamily A,	260	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(2)	2						CAGCAGAACTAAGGTACACCC	0.493													3	95					0	0	0.004672	0	0		G	14938274	G	G	14938274	2	3	19	1	0	0	0	0	0	0	0	1	11235	349	13	3		3	OR7A5	19	14938274	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	417646	14938274	44190709	2745	16258											
OR7A17	26333	broad.mit.edu	37	chr19	14991549	14991549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccccacaaggggaccaccagCcagcagccctgctgcaaaat	12	3	9	17	0	0	0	0	0	0	0	0	1	0	1	6	2	5	3	6	2	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:14991549C>T	uc010xob.1	-	1	619	c.619G>A	c.(619-621)GCT>ACT	p.A207T		NM_030901	NP_112163	O14581	OR7AH_HUMAN	olfactory receptor, family 7, subfamily A,	207	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					GGACCACCAGCCAGCAGCCCT	0.478													36	65					0	0	0.004878	0	0		T	14991549	T	T	14991549	3	4	19	1	0	0	0	0	1	0	0	0	11234	739	26	2	312	2	OR7A17	19	14991549	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	53275	14991549	44137434	2746	16259											
NOTCH3	4854	broad.mit.edu	37	chr19	15296182	15296182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggctctggctgcagcGggggccactccagccaggct	5	5	16	15	1	1	0	0	0	1	0	2	0	2	0	4	6	3	4	4	6	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:15296182G>A	uc002nan.2	-	14	2258	c.2182C>T	c.(2182-2184)CGC>TGC	p.R728C	NOTCH3_uc002nao.1_Missense_Mutation_p.R728C	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	728	Extracellular (Potential).|EGF-like 18.		R -> C (in CADASIL).		Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			TGGCTGCAGCGGGGGCCACTC	0.682													6	15					0	0	0.001855	0	0		A	15296182	A	A	15296182	3	1	19	1	0	0	0	0	1	0	0	0	10569	1116	39	1	4863	1	NOTCH3	19	15296182	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	304633	15296182	43832801	2747	16260											
BRD4	23476	broad.mit.edu	37	chr19	15367880	15367880	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgtcgctggatgagggCggggccacaaccttggtggg	5	8	18	10	2	0	1	0	1	0	0	1	2	0	2	2	6	2	2	2	6	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:15367880C>T	uc002nar.2	-	8	1668	c.1446G>A	c.(1444-1446)CCG>CCA	p.P482P	BRD4_uc002nas.2_Silent_p.P482P|BRD4_uc002nat.3_Silent_p.P482P|BRD4_uc002nau.3_Silent_p.P482P	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	482					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			TGGATGAGGGCGGGGCCACAA	0.647			T	NUT|C15orf55	lethal midline carcinoma of young people								4	13					0	0	0.000602	0	0		T	15367880	T	T	15367880	2	4	19	1	0	0	0	0	0	0	0	1	1507	755	27	1		1	BRD4	19	15367880	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	71698	15367880	43761103	2748	16261											
OR10H2	26538	broad.mit.edu	37	chr19	15838975	15838975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtacctgttcacgctgctggGcaacctgctcatcatggcca	7	10	10	14	1	3	0	3	0	0	0	3	0	3	0	3	2	4	6	3	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:15838975G>A	uc002nbm.2	+	1	142	c.122G>A	c.(121-123)GGC>GAC	p.G41D		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	41	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					ACGCTGCTGGGCAACCTGCTC	0.582													69	171					0	0	0.01441	0	0		A	15838975	A	A	15838975	3	1	19	1	0	0	0	0	1	0	0	0	10925	1203	42	2	124	2	OR10H2	19	15838975	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	471095	15838975	43290008	2749	16262											
CYP4F11	57834	broad.mit.edu	37	chr19	16024702	16024702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctcagccatggcgaacGcctgcccgatgcagtttctg	7	10	10	14	3	3	0	2	0	2	0	4	2	3	0	3	1	4	2	3	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:16024702G>A	uc002nbu.2	-	13	1451	c.1415C>T	c.(1414-1416)GCG>GTG	p.A472V	CYP4F11_uc010eab.1_Silent_p.G450G|CYP4F11_uc002nbt.2_Missense_Mutation_p.A472V	NM_001128932	NP_001122404	Q9HBI6	CP4FB_HUMAN	cytochrome P450 family 4 subfamily F polypeptide	472					inflammatory response|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)	1						CATGGCGAACGCCTGCCCGAT	0.622													11	31					0	0	0.010729	0	0		A	16024702	A	A	16024702	3	1	19	1	0	0	0	0	1	0	0	0	4189	1087	38	1	163	1	CYP4F11	19	16024702	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	185727	16024702	43104281	2750	16263											
EPS15L1	58513	broad.mit.edu	37	chr19	16515477	16515477	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttctgctggtccatctcGtccaggcggtcttgagcatc	4	12	11	14	2	3	1	0	1	3	0	7	1	5	1	3	3	2	2	3	3	0	2	rs145683476		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:16515477G>A	uc002ndz.1	-	14	1356	c.1350C>T	c.(1348-1350)GAC>GAT	p.D450D	EPS15L1_uc002ndx.2_Silent_p.D450D|EPS15L1_uc002ndy.2_RNA|EPS15L1_uc010xpe.1_Silent_p.D340D|EPS15L1_uc010xpf.1_Silent_p.D353D|EPS15L1_uc002nea.1_Silent_p.D450D|EPS15L1_uc010eah.1_Silent_p.D450D|EPS15L1_uc002neb.1_Silent_p.D296D|EPS15L1_uc002nec.1_Silent_p.D450D	NM_021235	NP_067058	Q9UBC2	EP15R_HUMAN	epidermal growth factor receptor pathway	450					endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|nucleus|plasma membrane	calcium ion binding			ovary(3)|skin(2)	5						GGTCCATCTCGTCCAGGCGGT	0.582													24	51					0	0	0.005443	0	0		A	16515477	A	A	16515477	2	1	19	1	0	0	0	0	0	0	0	1	5201	1136	40	1		1	EPS15L1	19	16515477	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	490775	16515477	42613506	2751	16264											
TMEM38A	79041	broad.mit.edu	37	chr19	16793252	16793252	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctggtgtcgccctcatgTccaactttgagcagctgctc	5	13	10	13	1	2	1	1	1	1	0	5	1	3	1	2	1	4	4	2	1	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:16793252T>C	uc002nes.2	+	4	578	c.487T>C	c.(487-489)TCC>CCC	p.S163P		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	163	Helical; (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3						CGCCCTCATGTCCAACTTTGA	0.557													23	62					0	0	0.005443	0	0		C	16793252	C	C	16793252	3	2	19	1	0	0	0	0	1	0	0	0	16184	1667	58	3	501	3	TMEM38A	19	16793252	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	277775	16793252	42335731	2752	16265											
ANO8	57719	broad.mit.edu	37	chr19	17439208	17439208	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgccgggagccccctcCgcctcgtcgtcctcctcggc	1	7	13	20	5	0	0	0	0	0	0	6	1	3	1	7	3	2	1	7	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:17439208C>T	uc002ngf.2	-	13	2148	c.1989G>A	c.(1987-1989)GCG>GCA	p.A663A	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	663	Glu-rich.|Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						GAGCCCCCTCCGCCTCGTCGT	0.736													5	4					0	0	0.001984	0	0		T	17439208	T	T	17439208	2	4	19	1	0	0	0	0	0	0	0	1	703	639	23	1		1	ANO8	19	17439208	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	645956	17439208	41689775	2753	16266											
UNC13A	23025	broad.mit.edu	37	chr19	17752329	17752329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgggatcttcacgacccCattgttctgcacgtcggtca	7	12	9	13	3	5	0	2	0	3	0	6	2	5	1	2	2	1	2	2	2	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:17752329C>T	uc002nhd.2	-	21	2773	c.2773G>A	c.(2773-2775)GGG>AGG	p.G925R		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	837					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						TTCACGACCCCATTGTTCTGC	0.572													7	55					0	0	0.010729	0	0		T	17752329	T	T	17752329	3	4	19	1	0	0	0	0	1	0	0	0	17010	594	21	4	2694	4	UNC13A	19	17752329	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	313121	17752329	41376654	2754	16267											
KIAA1683	80726	broad.mit.edu	37	chr19	18376471	18376471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggatggagccccagccatttCcactgccacactggtcttaa	9	9	9	14	0	1	0	0	0	1	0	2	2	2	2	5	3	3	0	5	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:18376471C>T	uc002nin.2	-	3	2095	c.1879G>A	c.(1879-1881)GAA>AAA	p.E627K	KIAA1683_uc010ebn.2_Missense_Mutation_p.E627K|KIAA1683_uc010xqe.1_Missense_Mutation_p.E581K	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	627						mitochondrion				ovary(2)	2						CCAGCCATTTCCACTGCCACA	0.557													4	76					0	0	0.006214	0	0		T	18376471	T	T	18376471	3	4	19	1	0	0	0	0	1	0	0	0	8267	864	30	4	2232	4	KIAA1683	19	18376471	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	624142	18376471	40752512	2755	16268											
CRLF1	9244	broad.mit.edu	37	chr19	18705140	18705140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggttggagcagtacgcgtGcttcttgagccagcccagga	8	8	15	10	2	1	1	0	1	1	0	1	4	1	3	2	3	5	4	2	3	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:18705140G>A	uc010ebt.1	-	7	1323	c.1129C>T	c.(1129-1131)CAC>TAC	p.H377Y		NM_004750	NP_004741	O75462	CRLF1_HUMAN	cytokine receptor-like factor 1 precursor	377					negative regulation of neuron apoptosis|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of Stat3 protein	extracellular space	cytokine binding|protein heterodimerization activity|receptor activity			central_nervous_system(1)	1						CAGTACGCGTGCTTCTTGAGC	0.592													14	39					0	0	0.003163	0	0		A	18705140	A	A	18705140	3	1	19	1	0	0	0	0	1	0	0	0	3889	1319	46	2	151	2	CRLF1	19	18705140	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	328669	18705140	40423843	2756	16269											
TMEM161A	54929	broad.mit.edu	37	chr19	19231660	19231660	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacggtcacatagcagtagActcggaccacctgtgggcag	10	6	12	13	2	1	1	1	0	0	1	2	2	1	2	3	3	1	3	3	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:19231660A>G	uc002nlg.2	-	11	1130	c.1100T>C	c.(1099-1101)GTC>GCC	p.V367A	TMEM161A_uc010eca.2_RNA|TMEM161A_uc002nlh.2_Missense_Mutation_p.V342A|TMEM161A_uc002nli.2_Missense_Mutation_p.V264A|TMEM161A_uc002nlj.2_Missense_Mutation_p.V242A	NM_017814	NP_060284	Q9NX61	T161A_HUMAN	transmembrane protein 161A precursor	367	Extracellular (Potential).				cellular response to oxidative stress|cellular response to UV|negative regulation of apoptosis|positive regulation of DNA repair|response to retinoic acid	integral to membrane				breast(2)	2			OV - Ovarian serous cystadenocarcinoma(5;1.19e-05)|Epithelial(12;0.0011)			ATAGCAGTAGACTCGGACCAC	0.622													6	135					0	0	0.001984	0	0		G	19231660	G	G	19231660	3	3	19	1	0	0	0	0	1	0	0	0	16101	275	10	3	347	3	TMEM161A	19	19231660	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	526520	19231660	39897323	2757	16270											
CILP2	148113	broad.mit.edu	37	chr19	19654938	19654938	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgacttttgtggaccccagCggtgagttcatggacgctgt	6	12	14	9	2	1	2	1	2	0	0	1	4	1	4	2	3	1	2	2	3	0	3	rs112868711		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:19654938C>T	uc002nmv.3	+	8	1669	c.1584C>T	c.(1582-1584)AGC>AGT	p.S528S	CILP2_uc002nmw.3_Silent_p.S534S	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	528						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						TGGACCCCAGCGGTGAGTTCA	0.622													12	29					0	0	0.00245	0	0		T	19654938	T	T	19654938	2	4	19	1	0	0	0	0	0	0	0	1	3433	767	27	1		1	CILP2	19	19654938	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	423278	19654938	39474045	2758	16271											
GMIP	51291	broad.mit.edu	37	chr19	19745393	19745393	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagagggtcttcagcgaGcggataacctcagggctggg	10	6	15	10	2	3	1	2	0	1	1	3	3	3	2	2	4	3	1	2	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:19745393G>A	uc002nnd.2	-	18	2124	c.2007C>T	c.(2005-2007)CGC>CGT	p.R669R	GMIP_uc010xrb.1_Silent_p.R643R|GMIP_uc010xrc.1_Silent_p.R640R	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	669	Rho-GAP.				negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						TCTTCAGCGAGCGGATAACCT	0.607													27	293					0	0	0.005443	0	0		A	19745393	A	A	19745393	2	1	19	1	0	0	0	0	0	0	0	1	6506	958	34	2		2	GMIP	19	19745393	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	90455	19745393	39383590	2759	16272											
ZNF208	7757	broad.mit.edu	37	chr19	22155254	22155254	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccacattcttcacatttgTagggtttctctccagtatga	8	16	7	10	0	3	1	1	1	2	0	5	1	4	1	2	1	1	3	2	1	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:22155254T>C	uc002nqp.2	-	5	2431	c.2282A>G	c.(2281-2283)TAC>TGC	p.Y761C	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTCACATTTGTAGGGTTTCTC	0.373													9	104					0	0	0.008291	0	0		C	22155254	C	C	22155254	3	2	19	1	0	0	0	0	1	0	0	0	17791	1638	57	3	1264	3	ZNF208	19	22155254	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2409861	22155254	36973729	2760	16273											
ZNF257	113835	broad.mit.edu	37	chr19	22255700	22255700	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagaatttatatagggaTgtgatgttagagaactacag	15	11	11	4	0	0	3	0	1	0	2	0	5	0	4	0	1	3	2	0	1	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:22255700T>A	uc010ecx.2	+	2	262	c.93T>A	c.(91-93)GAT>GAA	p.D31E	ZNF257_uc010ecy.2_5'UTR	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	31	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				TATATAGGGATGTGATGTTAG	0.398													5	206					0	0	0.001984	0	0		A	22255700	A	A	22255700	3	1	19	1	0	0	0	0	1	0	0	0	17825	1461	51	5	99	5	ZNF257	19	22255700	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	100446	22255700	36873283	2761	16274											
ZNF254	9534	broad.mit.edu	37	chr19	24309406	24309406	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacataaaacccaacacaaaAgcatttatcatagagagaag	21	6	5	9	0	1	2	1	0	0	2	1	3	1	2	1	0	3	1	1	0	8	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:24309406A>G	uc002nru.2	+	4	738	c.604A>G	c.(604-606)AGC>GGC	p.S202G	ZNF254_uc010xrk.1_Missense_Mutation_p.S117G	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	202					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				CCAACACAAAAGCATTTATCA	0.303													18	73					0	0	0.006122	0	0		G	24309406	G	G	24309406	3	3	19	1	0	0	0	0	1	0	0	0	17823	72	3	3	618	3	ZNF254	19	24309406	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2053706	24309406	34819577	2762	16275											
PLEKHF1	79156	broad.mit.edu	37	chr19	30164923	30164923	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcatcttcttcctctttaaCgacatcctggtgtatggcag	7	14	8	12	2	3	0	0	0	3	0	5	1	5	0	2	2	1	3	2	2	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:30164923C>T	uc002nsh.3	+	2	279	c.177C>T	c.(175-177)AAC>AAT	p.N59N	PLEKHF1_uc002nsi.3_Silent_p.N144N	NM_024310	NP_077286	Q96S99	PKHF1_HUMAN	apoptosis-inducing protein D	59	PH.				apoptosis	lysosome|nucleus|perinuclear region of cytoplasm	metal ion binding				0	Ovarian(5;0.000567)|Breast(6;0.0602)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0623)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.225)			TCCTCTTTAACGACATCCTGG	0.622													34	82					0	0	0.003271	0	0		T	30164923	T	T	30164923	2	4	19	1	0	0	0	0	0	0	0	1	12085	535	19	1		1	PLEKHF1	19	30164923	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5855517	30164923	28964060	2763	16276											
ZNF536	9745	broad.mit.edu	37	chr19	30934517	30934517	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtcttcggcggagccggaAgctgagccccacctgagtgg	6	7	16	12	3	1	2	0	2	1	0	2	4	1	4	4	4	3	1	4	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:30934517A>T	uc002nsu.1	+	2	186	c.48A>T	c.(46-48)GAA>GAT	p.E16D	ZNF536_uc010edd.1_Missense_Mutation_p.E16D	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	16					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CGGAGCCGGAAGCTGAGCCCC	0.627													41	83					0	0	0.01441	0	0		T	30934517	T	T	30934517	3	4	19	1	0	0	0	0	1	0	0	0	17999	69	3	5	50	5	ZNF536	19	30934517	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	769594	30934517	28194466	2764	16277											
ZNF536	9745	broad.mit.edu	37	chr19	31039479	31039479	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgtgcggccagatgccGcctccctcccgggctcctcg	2	9	12	18	4	1	1	0	0	1	1	5	1	4	1	6	2	2	1	6	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:31039479G>A	uc002nsu.1	+	4	3091	c.2953G>A	c.(2953-2955)GCC>ACC	p.A985T	ZNF536_uc010edd.1_Missense_Mutation_p.A985T	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	985					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCCAGATGCCGCCTCCCTCCC	0.577													39	108					0	0	0.007835	0	0		A	31039479	A	A	31039479	3	1	19	1	0	0	0	0	1	0	0	0	17999	1087	38	1	2963	1	ZNF536	19	31039479	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	104962	31039479	28089504	2765	16278											
ZNF536	9745	broad.mit.edu	37	chr19	31040415	31040415	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgtatcaagaggccagacTtgtgtggtaagttttagaat	12	13	12	4	0	1	3	1	0	0	3	1	4	1	3	1	2	0	3	1	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:31040415T>A	uc002nsu.1	+	4	4027	c.3889T>A	c.(3889-3891)TTG>ATG	p.L1297M	ZNF536_uc010edd.1_Missense_Mutation_p.L1297M	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1297					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GAGGCCAGACTTGTGTGGTAA	0.428													29	79					0	0	0.003755	0	0		A	31040415	A	A	31040415	3	1	19	1	0	0	0	0	1	0	0	0	17999	1606	56	5	3899	5	ZNF536	19	31040415	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	936	31040415	28088568	2766	16279											
ZNF507	22847	broad.mit.edu	37	chr19	32845706	32845706	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcaacaagggctacatcaAgcagcacttacgagtccatc	13	7	9	12	1	1	0	1	0	0	0	3	1	2	0	1	2	5	4	1	2	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:32845706A>T	uc002nte.2	+	3	2242	c.1970A>T	c.(1969-1971)AAG>ATG	p.K657M	ZNF507_uc002ntc.2_Missense_Mutation_p.K657M|ZNF507_uc010xrn.1_Missense_Mutation_p.K657M|ZNF507_uc002ntd.2_Missense_Mutation_p.K657M	NM_001136156	NP_001129628	Q8TCN5	ZN507_HUMAN	zinc finger protein 507	657	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|kidney(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(110;0.162)					GGCTACATCAAGCAGCACTTA	0.502													38	51					0	0	0.007835	0	0		T	32845706	T	T	32845706	3	4	19	1	0	0	0	0	1	0	0	0	17978	72	3	5	1972	5	ZNF507	19	32845706	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1805291	32845706	26283277	2767	16280											
DPY19L3	147991	broad.mit.edu	37	chr19	32930061	32930061	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccatcccactgagggagAactgggcgctgccattcttt	8	11	10	12	1	1	2	0	1	1	1	2	3	2	2	3	2	3	1	3	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:32930061A>G	uc002ntg.2	+	7	816	c.640A>G	c.(640-642)AAC>GAC	p.N214D	DPY19L3_uc002nth.1_Missense_Mutation_p.N214D|DPY19L3_uc002nti.1_RNA	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	214						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					ACTGAGGGAGAACTGGGCGCT	0.378													6	181					0	0	0.001168	0	0		G	32930061	G	G	32930061	3	3	19	1	0	0	0	0	1	0	0	0	4748	246	9	3	662	3	DPY19L3	19	32930061	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	84355	32930061	26198922	2768	16281											
ANKRD27	84079	broad.mit.edu	37	chr19	33113449	33113449	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagcgggcagcaatgtgtAgaggggtgtctcctttctca	7	10	13	11	1	2	1	1	0	2	1	4	1	2	1	2	3	2	3	2	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:33113449A>G	uc002ntn.1	-	18	1862	c.1706T>C	c.(1705-1707)CTA>CCA	p.L569P		NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	569	ANK 5.				early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					AGCAATGTGTAGAGGGGTGTC	0.547													7	210					0	0	0.00308	0	0		G	33113449	G	G	33113449	3	3	19	1	0	0	0	0	1	0	0	0	655	420	15	3	1494	3	ANKRD27	19	33113449	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	183388	33113449	26015534	2769	16282											
RHPN2	85415	broad.mit.edu	37	chr19	33499019	33499019	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagagggccccagtgttgaAcaggacactggccttctcca	9	8	12	12	0	1	2	0	1	1	1	2	3	1	3	4	3	1	2	4	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:33499019A>G	uc002nuf.2	-	7	727	c.661T>C	c.(661-663)TTC>CTC	p.F221L	RHPN2_uc010xro.1_Missense_Mutation_p.F70L|RHPN2_uc002nue.2_5'UTR	NM_033103	NP_149094	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	221	BRO1.				signal transduction	perinuclear region of cytoplasm	protein binding			central_nervous_system(5)|ovary(1)	6	Esophageal squamous(110;0.137)					CCAGTGTTGAACAGGACACTG	0.572													4	44					0	0	0.000602	0	0		G	33499019	G	G	33499019	3	3	19	1	0	0	0	0	1	0	0	0	13376	43	2	3	1435	3	RHPN2	19	33499019	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	385570	33499019	25629964	2770	16283											
KIAA0355	9710	broad.mit.edu	37	chr19	34843573	34843573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ataacaaaaccaaaacgtggCcacccaaagcaccctggcag	17	3	7	14	1	0	0	0	0	0	0	0	0	0	0	4	2	4	2	4	2	6	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:34843573C>T	uc002nvd.3	+	14	3785	c.2926C>T	c.(2926-2928)CCA>TCA	p.P976S		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	976										ovary(1)	1	Esophageal squamous(110;0.162)					CAAAACGTGGCCACCCAAAGC	0.567													5	115					0	0	0.001168	0	0		T	34843573	T	T	34843573	3	4	19	1	0	0	0	0	1	0	0	0	8186	739	26	2	2976	2	KIAA0355	19	34843573	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1344554	34843573	24285410	2771	16284											
UBA2	10054	broad.mit.edu	37	chr19	34945231	34945231	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgcatattttcagtatgAatatgaagagtagatttgat	14	15	10	2	0	1	5	1	3	0	2	1	6	1	6	0	1	1	3	0	1	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:34945231A>G	uc002nvk.2	+	11	1175	c.1105A>G	c.(1105-1107)AAT>GAT	p.N369D	UBA2_uc010xrx.1_Missense_Mutation_p.N242D|UBA2_uc002nvl.2_Missense_Mutation_p.N273D	NM_005499	NP_005490	Q9UBT2	SAE2_HUMAN	SUMO-1 activating enzyme subunit 2	369					protein sumoylation	nucleus	ATP binding|enzyme activator activity|ligase activity|metal ion binding|protein heterodimerization activity|SUMO activating enzyme activity			ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			TTTCAGTATGAATATGAAGAG	0.323													52	122					0	0	0.01441	0	0		G	34945231	G	G	34945231	3	3	19	1	0	0	0	0	1	0	0	0	16854	246	9	3	1147	3	UBA2	19	34945231	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	101658	34945231	24183752	2772	16285											
SCGBL	284402	broad.mit.edu	37	chr19	35085248	35085248	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcgcaagcagtttatcgatAtccaggcaggcatcccctgt	9	11	9	12	2	0	0	0	0	0	0	4	1	2	0	3	2	1	5	3	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:35085248A>G	uc002nvn.2	-	2	100	c.78T>C	c.(76-78)GAT>GAC	p.D26D		NM_001025591	NP_001020762	Q4G0G5	SCGBL_HUMAN	secretoglobin-like precursor	26						extracellular region	binding				0						GTTTATCGATATCCAGGCAGG	0.517													4	123					0	0	0.009096	0	0		G	35085248	G	G	35085248	2	3	19	1	0	0	0	0	0	0	0	1	13927	446	16	3		3	SCGBL	19	35085248	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	140017	35085248	24043735	2773	16286											
LGI4	163175	broad.mit.edu	37	chr19	35617396	35617396	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtgtcccggtgccaggcGtgcaggctctggtgcgggta	3	9	17	12	4	1	0	0	0	1	0	3	0	3	0	3	5	3	3	3	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:35617396G>A	uc002nxx.2	-	8	1671	c.1077C>T	c.(1075-1077)CAC>CAT	p.H359H	LGI4_uc002nxy.1_Silent_p.H187H|LGI4_uc002nxz.1_Silent_p.H187H	NM_139284	NP_644813	Q8N135	LGI4_HUMAN	leucine-rich repeat LGI family, member 4	359	EAR 2.					extracellular region				pancreas(1)	1	all_lung(56;7.56e-09)|Lung NSC(56;1.1e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.54e-20)|OV - Ovarian serous cystadenocarcinoma(14;1.33e-18)|all cancers(14;4.27e-17)|LUSC - Lung squamous cell carcinoma(66;0.0849)			GGTGCCAGGCGTGCAGGCTCT	0.716													5	6					0	0	0.000602	0	0		A	35617396	A	A	35617396	2	1	19	1	0	0	0	0	0	0	0	1	8770	1136	40	1		1	LGI4	19	35617396	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	532148	35617396	23511587	2774	16287											
GAPDHS	26330	broad.mit.edu	37	chr19	36027760	36027760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctaaggctgaagtagagcCccagccacaaccagagccca	13	3	10	15	0	0	3	0	1	0	2	0	3	0	3	6	1	4	2	6	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:36027760C>T	uc002oaf.1	+	2	229	c.113C>T	c.(112-114)CCC>CTC	p.P38L		NM_014364	NP_055179	O14556	G3PT_HUMAN	glyceraldehyde-3-phosphate dehydrogenase,	38					gluconeogenesis|glycolysis|positive regulation of glycolysis|sperm motility	cytosol	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity|NAD binding|protein binding				0	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		NADH(DB00157)	GAAGTAGAGCCCCAGCCACAA	0.587													7	111					0	0	0.00308	0	0		T	36027760	T	T	36027760	3	4	19	1	0	0	0	0	1	0	0	0	6252	623	22	4	119	4	GAPDHS	19	36027760	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	410364	36027760	23101223	2775	16288											
ATP4A	495	broad.mit.edu	37	chr19	36046378	36046378	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccacgatcaccagcttctgCtgggggctggtgcgcgcaaa	7	8	13	13	3	2	0	1	0	1	0	3	1	3	0	2	3	3	4	2	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:36046378C>T	uc002oal.1	-	14	2150	c.2121G>A	c.(2119-2121)CAG>CAA	p.Q707Q	ATP4A_uc010eee.1_5'UTR	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	707	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	CCAGCTTCTGCTGGGGGCTGG	0.662													9	20					0	0	0.004007	0	0		T	36046378	T	T	36046378	2	4	19	1	0	0	0	0	0	0	0	1	1146	796	28	2		2	ATP4A	19	36046378	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	18618	36046378	23082605	2776	16289											
UPK1A	11045	broad.mit.edu	37	chr19	36157789	36157789	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgctagttgtgggcaatatCattattctggtgagactcgc	8	14	11	8	1	2	1	1	1	1	1	3	2	2	1	0	2	1	3	0	2	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:36157789C>T	uc002oaw.2	+	1	75	c.75C>T	c.(73-75)ATC>ATT	p.I25I	UPK1A_uc010eeh.2_Silent_p.I25I	NM_007000	NP_008931	O00322	UPK1A_HUMAN	uroplakin 1A	25	Helical; (Potential).				epithelial cell differentiation|protein oligomerization	endoplasmic reticulum|integral to membrane	monosaccharide binding|protein homodimerization activity				0	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGGGCAATATCATTATTCTGG	0.612													10	88					0	0	0.008291	0	0		T	36157789	T	T	36157789	2	4	19	1	0	0	0	0	0	0	0	1	17033	816	29	4		4	UPK1A	19	36157789	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	111411	36157789	22971194	2777	16290											
MLL4	9757	broad.mit.edu	37	chr19	36211882	36211882	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcatcaagacaccccggCgatttatggatgaagacccc	11	8	10	12	2	2	3	2	1	0	2	2	5	2	4	4	2	0	0	4	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:36211882C>T	uc010eei.2	+	3	1633	c.1633C>T	c.(1633-1635)CGA>TGA	p.R545*		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	545	Pro-rich.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GACACCCCGGCGATTTATGGA	0.592													9	11					0	0	0.006214	0	0		T	36211882	T	T	36211882	4	4	19	1	0	0	0	0	0	1	0	0	9641	760	27	1	1643	1	MLL4	19	36211882	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	54093	36211882	22917101	2778	16291											
MLL4	9757	broad.mit.edu	37	chr19	36221488	36221488	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtctgatctctcggactgCgagggacggctcttccccat	5	11	11	14	3	3	1	0	1	3	0	6	4	4	3	2	3	1	1	2	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:36221488C>T	uc010eei.2	+	26	5247	c.5247C>T	c.(5245-5247)TGC>TGT	p.C1749C		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1749	FYR N-terminal.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TCTCGGACTGCGAGGGACGGC	0.602													109	285					0	0	0.01441	0	0		T	36221488	T	T	36221488	2	4	19	1	0	0	0	0	0	0	0	1	9641	776	27	1		1	MLL4	19	36221488	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	9606	36221488	22907495	2779	16292											
KIRREL2	84063	broad.mit.edu	37	chr19	36347987	36347987	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagttgacgggaaggccaGtgcgacggcaaatctcgtga	12	6	15	8	4	1	3	0	2	1	1	2	5	1	4	1	3	1	2	1	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:36347987G>A	uc002ocb.3	+	1	178	c.-34G>A	c.(-36--32)CAGTG>CAATG		KIRREL2_uc002obz.3_Translation_Start_Site|KIRREL2_uc002oca.3_Translation_Start_Site|KIRREL2_uc002occ.3_Translation_Start_Site|KIRREL2_uc002ocd.3_Translation_Start_Site	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c						cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGGAAGGCCAGTGCGACGGCA	0.632													18	40					0	0	0.008871	0	0		A	36347987	A	A	36347987	1	1	19	1	0	0	0	0	0	0	0	0	8341	1044	36	4		4	KIRREL2	19	36347987	Translation_Start_Site	SNP	G	TCGA-BR-4361-01A-01D-1158-08	126499	36347987	22780996	2780	16293											
APLP1	333	broad.mit.edu	37	chr19	36363449	36363449	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatgcctggggaaatcagTgagcacgaggggttcctgag	9	7	17	8	1	1	2	1	2	0	0	2	4	2	3	2	5	2	3	2	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:36363449T>C	uc002oce.2	+	7	1053	c.915T>C	c.(913-915)AGT>AGC	p.S305S	APLP1_uc010xsz.1_Silent_p.S266S|APLP1_uc002ocf.2_Silent_p.S305S|APLP1_uc002ocg.2_Silent_p.S208S|APLP1_uc010xta.1_Silent_p.S299S	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	305	Extracellular (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGGAAATCAGTGAGCACGAGG	0.587													12	233					0	0	0.00499	0	0		C	36363449	C	C	36363449	2	2	19	1	0	0	0	0	0	0	0	1	778	1693	59	3		3	APLP1	19	36363449	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	15462	36363449	22765534	2781	16294											
APLP1	333	broad.mit.edu	37	chr19	36369508	36369508	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacagaacaagatgctgcAtcccctgagaaagagaagat	16	6	9	10	0	0	5	0	1	0	5	2	7	2	5	3	0	3	2	3	0	4	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:36369508A>G	uc002oce.2	+	14	1737	c.1599A>G	c.(1597-1599)GCA>GCG	p.A533A	APLP1_uc010xsz.1_Silent_p.A494A|APLP1_uc002ocf.2_Silent_p.A534A|APLP1_uc002ocg.2_Silent_p.A437A|APLP1_uc010xta.1_Silent_p.A527A	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	533	Extracellular (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AAGATGCTGCATCCCCTGAGA	0.338													19	65					0	0	0.00278	0	0		G	36369508	G	G	36369508	2	3	19	1	0	0	0	0	0	0	0	1	778	204	8	3		3	APLP1	19	36369508	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	6059	36369508	22759475	2782	16295											
CAPNS1	826	broad.mit.edu	37	chr19	36637136	36637136	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctctataacatgatcatcCgacgctactcagatgaaagt	14	11	6	10	2	3	3	2	2	1	1	5	4	4	3	1	0	2	1	1	0	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:36637136C>T	uc002odj.2	+	9	800	c.643C>T	c.(643-645)CGA>TGA	p.R215*	CAPNS1_uc002odi.1_Nonsense_Mutation_p.R215*|CAPNS1_uc002odk.2_Nonsense_Mutation_p.R215*|CAPNS1_uc002odl.2_Nonsense_Mutation_p.R215*	NM_001749	NP_001740	P04632	CPNS1_HUMAN	calpain, small subunit 1	215	EF-hand 4.				positive regulation of cell proliferation	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CATGATCATCCGACGCTACTC	0.527													97	259					0	0	0.01441	0	0		T	36637136	T	T	36637136	4	4	19	1	0	0	0	0	0	1	0	0	2636	644	23	1	673	1	CAPNS1	19	36637136	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	267628	36637136	22491847	2783	16296											
ZNF565	147929	broad.mit.edu	37	chr19	36674430	36674430	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgtgtgatgctggaacacGggcatatgtccataggtgac	10	9	14	8	2	0	2	0	2	0	0	1	4	1	3	1	3	2	2	1	3	3	2	rs146738582		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:36674430G>A	uc002odn.2	-	5	546	c.438C>T	c.(436-438)CCC>CCT	p.P146P	ZNF565_uc010ees.2_Silent_p.P81P|ZNF565_uc002odo.2_Silent_p.P146P	NM_152477	NP_689690	Q8N9K5	ZN565_HUMAN	zinc finger protein 565	146					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.206)			GCTGGAACACGGGCATATGTC	0.478													9	291					0	0	0.006214	0	0		A	36674430	A	A	36674430	2	1	19	1	0	0	0	0	0	0	0	1	18021	1103	39	1		1	ZNF565	19	36674430	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	37294	36674430	22454553	2784	16297											
ZNF790	388536	broad.mit.edu	37	chr19	37309566	37309566	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttcttgcatccataaggTtctgcatcagtatgaatttt	9	18	6	8	0	3	1	1	1	2	0	4	1	4	1	1	1	2	4	1	1	3	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:37309566T>C	uc002oew.2	-	5	1799	c.1680A>G	c.(1678-1680)GAA>GAG	p.E560E	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	560					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			ATCCATAAGGTTCTGCATCAG	0.363													4	150					0	0	0.009096	0	0		C	37309566	C	C	37309566	2	2	19	1	0	0	0	0	0	0	0	1	18187	1722	60	3		3	ZNF790	19	37309566	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	635136	37309566	21819417	2785	16298											
ZNF829	374899	broad.mit.edu	37	chr19	37383068	37383068	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacattcatagggtttttTaccagtgtgaatcctctgat	9	17	7	8	0	2	2	1	2	1	0	3	2	3	2	2	1	2	1	2	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:37383068T>C	uc002ofa.1	-	6	987	c.625A>G	c.(625-627)AAA>GAA	p.K209E	ZNF345_uc002oez.2_Intron	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	209					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TAGGGTTTTTTACCAGTGTGA	0.393													4	81					0	0	0.009096	0	0		C	37383068	C	C	37383068	3	2	19	1	0	0	0	0	1	0	0	0	18207	1763	61	3	677	3	ZNF829	19	37383068	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	73502	37383068	21745915	2786	16299											
ZNF570	148268	broad.mit.edu	37	chr19	37975066	37975066	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccactgctttgtacacaaaAgataatccccaaagaggaga	16	7	7	11	0	0	3	0	0	0	3	1	4	1	3	3	1	2	2	3	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:37975066A>C	uc002ogk.1	+	5	1071	c.542A>C	c.(541-543)AAG>ACG	p.K181T	ZNF570_uc010efl.1_Missense_Mutation_p.K237T|ZNF570_uc010xtr.1_5'UTR	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	181					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TGTACACAAAAGATAATCCCC	0.363													5	228					0	0	0.001168	0	0		C	37975066	C	C	37975066	3	2	19	1	0	0	0	0	1	0	0	0	18027	72	3	5	556	5	ZNF570	19	37975066	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	591998	37975066	21153917	2787	16300											
ZNF540	163255	broad.mit.edu	37	chr19	38103201	38103201	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcttttagtgtatgcggAcaacttacccgtcatcagaa	13	11	8	9	2	2	1	2	0	0	1	2	2	2	2	1	1	4	2	1	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:38103201A>G	uc002ogq.2	+	5	1352	c.1020A>G	c.(1018-1020)GGA>GGG	p.G340G	ZNF540_uc002ogu.2_Silent_p.G340G|ZNF540_uc010efq.2_Silent_p.G308G	NM_152606	NP_689819	Q8NDQ6	ZN540_HUMAN	zinc finger protein 540	340	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTGTATGCGGACAACTTACCC	0.353													8	95					0	0	0.006214	0	0		G	38103201	G	G	38103201	2	3	19	1	0	0	0	0	0	0	0	1	18000	262	10	3		3	ZNF540	19	38103201	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	128135	38103201	21025782	2788	16301											
ZNF781	163115	broad.mit.edu	37	chr19	38160950	38160950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttccacatatctgacattCatagggtttctgattagcat	10	16	6	9	0	3	2	1	2	2	0	4	2	4	2	1	1	1	2	1	1	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:38160950C>T	uc002ogy.2	-	4	842	c.100G>A	c.(100-102)GAA>AAA	p.E34K	ZNF781_uc002ogz.2_Missense_Mutation_p.E29K	NM_152605	NP_689818	Q8N8C0	ZN781_HUMAN	zinc finger protein 781	34	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATCTGACATTCATAGGGTTTC	0.378													24	243					0	0	0.003954	0	0		T	38160950	T	T	38160950	3	4	19	1	0	0	0	0	1	0	0	0	18179	835	29	4	887	4	ZNF781	19	38160950	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	57749	38160950	20968033	2789	16302											
SIPA1L3	23094	broad.mit.edu	37	chr19	38621343	38621343	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccacgaccagatgatcgAcctgctgcgcacctctgtca	9	7	9	16	3	2	2	1	1	1	1	3	5	2	2	4	0	2	2	4	0	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:38621343A>G	uc002ohk.2	+	10	3583	c.3074A>G	c.(3073-3075)GAC>GGC	p.D1025G		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1025	PDZ.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CAGATGATCGACCTGCTGCGC	0.632													4	97					0	0	0.009096	0	0		G	38621343	G	G	38621343	3	3	19	1	0	0	0	0	1	0	0	0	14356	275	10	3	3104	3	SIPA1L3	19	38621343	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	460393	38621343	20507640	2790	16303											
DPF1	8193	broad.mit.edu	37	chr19	38713211	38713211	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcggtgggtcttctccAtccagatgtagcagttgttc	5	12	12	12	2	2	1	0	0	2	1	5	1	3	1	3	2	1	4	3	2	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:38713211A>G	uc002ohl.2	-	2	275	c.248T>C	c.(247-249)ATG>ACG	p.M83T	DPF1_uc002ohm.2_Missense_Mutation_p.M83T|DPF1_uc002ohn.2_Missense_Mutation_p.M1T|DPF1_uc010xtu.1_Missense_Mutation_p.M57T|DPF1_uc010xtv.1_Missense_Mutation_p.M57T|DPF1_uc010xtw.1_Missense_Mutation_p.M57T	NM_004647	NP_004638	Q92782	DPF1_HUMAN	D4, zinc and double PHD fingers family 1 isoform	83					induction of apoptosis|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nBAF complex	zinc ion binding				0	all_cancers(60;1.24e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GGTCTTCTCCATCCAGATGTA	0.557													3	16					0	0	0.001168	0	0		G	38713211	G	G	38713211	3	3	19	1	0	0	0	0	1	0	0	0	4722	217	8	3	1070	3	DPF1	19	38713211	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	91868	38713211	20415772	2791	16304											
DPF1	8193	broad.mit.edu	37	chr19	38713250	38713250	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgggccacgccggtctgcGagtcgaggaagggcagtcgc	6	6	17	12	5	2	0	0	0	2	0	4	3	2	1	2	4	1	1	2	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:38713250G>A	uc002ohl.2	-	2	236	c.209C>T	c.(208-210)TCG>TTG	p.S70L	DPF1_uc002ohm.2_Missense_Mutation_p.S70L|DPF1_uc002ohn.2_5'UTR|DPF1_uc010xtu.1_Missense_Mutation_p.S44L|DPF1_uc010xtv.1_Missense_Mutation_p.S44L|DPF1_uc010xtw.1_Missense_Mutation_p.S44L	NM_004647	NP_004638	Q92782	DPF1_HUMAN	D4, zinc and double PHD fingers family 1 isoform	70					induction of apoptosis|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nBAF complex	zinc ion binding				0	all_cancers(60;1.24e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GCCGGTCTGCGAGTCGAGGAA	0.632													8	18					0	0	0.00308	0	0		A	38713250	A	A	38713250	3	1	19	1	0	0	0	0	1	0	0	0	4722	1059	37	1	1109	1	DPF1	19	38713250	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	39	38713250	20415733	2792	16305											
RYR1	6261	broad.mit.edu	37	chr19	38934419	38934419	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggccttcgatgtgggacTgcaggaggacgcaacaggtg	8	7	17	9	2	0	0	0	0	0	0	1	4	0	3	1	5	2	3	1	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:38934419T>G	uc002oit.2	+	5	537	c.407T>G	c.(406-408)CTG>CGG	p.L136R	RYR1_uc002oiu.2_Missense_Mutation_p.L136R	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	136	Cytoplasmic.|MIR 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GATGTGGGACTGCAGGAGGAC	0.622													24	63					0	0	0.012213	0	0		G	38934419	G	G	38934419	3	3	19	1	0	0	0	0	1	0	0	0	13793	1580	55	5	425	5	RYR1	19	38934419	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	221169	38934419	20194564	2793	16306											
RYR1	6261	broad.mit.edu	37	chr19	38948774	38948774	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtgatggtggacgaggTgactccatttctgacagctc	8	11	14	8	1	1	4	0	4	1	0	3	6	2	5	1	4	1	1	1	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:38948774T>C	uc002oit.2	+	18	2139	c.2009T>C	c.(2008-2010)GTG>GCG	p.V670A	RYR1_uc002oiu.2_Missense_Mutation_p.V670A	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	670	Cytoplasmic.|B30.2/SPRY 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GTGGACGAGGTGACTCCATTT	0.647													42	94					0	0	0.00874	0	0		C	38948774	C	C	38948774	3	2	19	1	0	0	0	0	1	0	0	0	13793	1696	59	3	2079	3	RYR1	19	38948774	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	14355	38948774	20180209	2794	16307											
RYR1	6261	broad.mit.edu	37	chr19	39002913	39002913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtcaggccctgagatcGtgaaggctggcctccgctcc	7	8	13	13	2	1	3	1	3	0	1	4	4	3	3	4	3	0	2	4	3	2	0	rs145044872	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:39002913G>A	uc002oit.2	+	63	9392	c.9262G>A	c.(9262-9264)GTG>ATG	p.V3088M	RYR1_uc002oiu.2_Missense_Mutation_p.V3088M|RYR1_uc002oiv.1_Missense_Mutation_p.V8M|RYR1_uc010xuf.1_Missense_Mutation_p.V8M	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3088	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CCCTGAGATCGTGAAGGCTGG	0.627													19	68					0	0	0.010504	0	0		A	39002913	A	A	39002913	3	1	19	1	0	0	0	0	1	0	0	0	13793	1145	40	1	9512	1	RYR1	19	39002913	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	54139	39002913	20126070	2795	16308											
RYR1	6261	broad.mit.edu	37	chr19	39051818	39051818	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctttcgtgctccgaagcGgatgagaacgaaatgatcaa	12	9	11	9	4	1	2	1	2	0	1	3	6	2	3	1	1	4	2	1	1	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:39051818G>A	uc002oit.2	+	90	12478	c.12348G>A	c.(12346-12348)GCG>GCA	p.A4116A	RYR1_uc002oiu.2_Silent_p.A4111A|RYR1_uc002oiv.1_Silent_p.A1025A	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4116					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GCTCCGAAGCGGATGAGAACG	0.602													39	66					0	0	0.00623	0	0		A	39051818	A	A	39051818	2	1	19	1	0	0	0	0	0	0	0	1	13793	1103	39	1		1	RYR1	19	39051818	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	48905	39051818	20077165	2796	16309											
ACTN4	81	broad.mit.edu	37	chr19	39214810	39214810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccctagggcctgatctcagCccatgaccagttcaagtcca	9	8	8	16	0	2	2	2	2	1	0	4	2	3	2	6	1	1	1	6	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:39214810C>T	uc002oja.1	+	15	1765	c.1706C>T	c.(1705-1707)GCC>GTC	p.A569V	ACTN4_uc002ojb.1_5'Flank	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	569	Spectrin 3.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CTGATCTCAGCCCATGACCAG	0.662													6	100					0	0	0.001168	0	0		T	39214810	T	T	39214810	3	4	19	1	0	0	0	0	1	0	0	0	207	739	26	2	1764	2	ACTN4	19	39214810	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	162992	39214810	19914173	2797	16310											
CAPN12	147968	broad.mit.edu	37	chr19	39232471	39232471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcattccgctgttccgagCgcacgaacatcagcttcccc	8	9	7	17	4	2	0	2	0	0	0	5	2	5	0	4	0	3	4	4	0	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:39232471C>T	uc002ojd.1	-	4	815	c.506G>A	c.(505-507)CGC>CAC	p.R169H		NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	169	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			CTGTTCCGAGCGCACGAACAT	0.627													9	32					0	0	0.010729	0	0		T	39232471	T	T	39232471	3	4	19	1	0	0	0	0	1	0	0	0	2628	768	27	1	1725	1	CAPN12	19	39232471	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	17661	39232471	19896512	2798	16311											
HNRNPL	3191	broad.mit.edu	37	chr19	39336661	39336661	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggctgcgtagttcactgcGttgcaagcccccaacacatc	8	9	9	15	3	1	0	1	0	0	0	3	0	1	0	2	1	5	5	2	1	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:39336661G>A	uc010xul.1	-	3	467	c.456C>T	c.(454-456)AAC>AAT	p.N152N	HNRNPL_uc010xum.1_Silent_p.N19N|HNRNPL_uc010xun.1_5'Flank	NM_001533	NP_001524	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	152	RRM 1.				nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			AGTTCACTGCGTTGCAAGCCC	0.507													59	95					0	0	0.01441	0	0		A	39336661	A	A	39336661	2	1	19	1	0	0	0	0	0	0	0	1	7286	1136	40	1		1	HNRNPL	19	39336661	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	104190	39336661	19792322	2799	16312											
PAK4	10298	broad.mit.edu	37	chr19	39669106	39669106	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctggaccgcctgctggtgCgagaccctgcccagcgggcc	4	6	14	17	3	0	1	0	0	0	1	1	3	1	2	6	3	4	1	6	3	0	0	rs56084716	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:39669106C>T	uc002okj.1	+	11	2124	c.1663C>T	c.(1663-1665)CGA>TGA	p.R555*	PAK4_uc002okl.1_Nonsense_Mutation_p.R555*|PAK4_uc002okn.1_Nonsense_Mutation_p.R555*|PAK4_uc002okm.1_Nonsense_Mutation_p.R402*|PAK4_uc002oko.1_Nonsense_Mutation_p.R402*|PAK4_uc002okp.1_Nonsense_Mutation_p.R465*	NM_001014831	NP_001014831	O96013	PAK4_HUMAN	p21-activated kinase 4 isoform 1	555	Protein kinase.				cellular component movement|signal transduction	Golgi apparatus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	all_cancers(60;1.03e-07)|all_epithelial(25;9.66e-08)|all_lung(34;1.58e-07)|Lung NSC(34;1.88e-07)|Ovarian(47;0.0454)		Epithelial(26;4.82e-25)|all cancers(26;2.94e-22)|Lung(45;0.000797)|LUSC - Lung squamous cell carcinoma(53;0.00113)			CCTGCTGGTGCGAGACCCTGC	0.672													4	6					0	0	0.00308	0	0		T	39669106	T	T	39669106	4	4	19	1	0	0	0	0	0	1	0	0	11422	760	27	1	1693	1	PAK4	19	39669106	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	332445	39669106	19459877	2800	16313											
PAK4	10298	broad.mit.edu	37	chr19	39669137	39669137	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgggccacggcagccgAgctgctgaagcacccattcc	8	4	12	17	3	0	1	0	1	0	0	1	2	1	1	5	2	5	4	5	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:39669137A>G	uc002okj.1	+	11	2155	c.1694A>G	c.(1693-1695)GAG>GGG	p.E565G	PAK4_uc002okl.1_Missense_Mutation_p.E565G|PAK4_uc002okn.1_Missense_Mutation_p.E565G|PAK4_uc002okm.1_Missense_Mutation_p.E412G|PAK4_uc002oko.1_Missense_Mutation_p.E412G|PAK4_uc002okp.1_Missense_Mutation_p.E475G	NM_001014831	NP_001014831	O96013	PAK4_HUMAN	p21-activated kinase 4 isoform 1	565	Protein kinase.				cellular component movement|signal transduction	Golgi apparatus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	all_cancers(60;1.03e-07)|all_epithelial(25;9.66e-08)|all_lung(34;1.58e-07)|Lung NSC(34;1.88e-07)|Ovarian(47;0.0454)		Epithelial(26;4.82e-25)|all cancers(26;2.94e-22)|Lung(45;0.000797)|LUSC - Lung squamous cell carcinoma(53;0.00113)			ACGGCAGCCGAGCTGCTGAAG	0.697													4	13					0	0	0.001984	0	0		G	39669137	G	G	39669137	3	3	19	1	0	0	0	0	1	0	0	0	11422	304	11	3	1724	3	PAK4	19	39669137	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	31	39669137	19459846	2801	16314											
PAF1	54623	broad.mit.edu	37	chr19	39876979	39876979	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcctcccgttcactctcGctgcccgagtgctcatcttc	3	13	6	19	3	4	0	2	0	2	0	8	1	6	0	4	0	2	3	4	0	0	3	rs56222321	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:39876979G>A	uc002old.2	-	14	1423	c.1248C>T	c.(1246-1248)AGC>AGT	p.S416S	PAF1_uc002ole.1_Intron	NM_019088	NP_061961	Q8N7H5	PAF1_HUMAN	Paf1, RNA polymerase II associated factor,	416	Glu-rich.				histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			pancreas(1)	1	all_cancers(60;9.14e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.88e-06)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			GTTCACTCTCGCTGCCCGAGT	0.602													91	203					0	0	0.01441	0	0		A	39876979	A	A	39876979	2	1	19	1	0	0	0	0	0	0	0	1	11402	1078	38	1		1	PAF1	19	39876979	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	207842	39876979	19252004	2802	16315											
FBL	2091	broad.mit.edu	37	chr19	40328367	40328367	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccgatgagcatgcggtaTttgtgtgggtgtcgagcatc	7	12	14	8	3	1	1	1	1	0	0	3	3	1	1	1	2	3	3	1	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:40328367T>G	uc002omn.2	-	6	780	c.666A>C	c.(664-666)AAA>AAC	p.K222N	FBL_uc002omm.1_Missense_Mutation_p.K136N|FBL_uc002omo.2_Missense_Mutation_p.K221N	NM_001436	NP_001427	P22087	FBRL_HUMAN	fibrillarin	222					rRNA processing|tRNA processing	box C/D snoRNP complex|Cajal body	methyltransferase activity|protein binding|RNA binding			ovary(1)	1	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)	Renal(1328;0.000518)|Hepatocellular(1079;0.0893)	Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)	GBM - Glioblastoma multiforme(1328;0.000826)|STAD - Stomach adenocarcinoma(1328;0.138)		GCATGCGGTATTTGTGTGGGT	0.582													47	105					0	0	0.01441	0	0		G	40328367	G	G	40328367	3	3	19	1	0	0	0	0	1	0	0	0	5710	1490	52	5	315	5	FBL	19	40328367	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	451388	40328367	18800616	2803	16316											
ZNF780B	163131	broad.mit.edu	37	chr19	40540940	40540940	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacattcaaagggcttctcaCcagtatgaaatttctgatgt	12	14	7	8	0	3	2	2	2	2	0	4	2	3	2	1	1	1	2	1	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:40540940C>G	uc002omu.2	-	5	1891	c.1826G>C	c.(1825-1827)GGT>GCT	p.G609A	ZNF780B_uc002omv.2_Missense_Mutation_p.G461A	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	609					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					GGGCTTCTCACCAGTATGAAA	0.413													8	148					0	0	0.006214	0	0		G	40540940	G	G	40540940	3	3	19	1	0	0	0	0	1	0	0	0	18178	507	18	5	679	5	ZNF780B	19	40540940	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	212573	40540940	18588043	2804	16317											
MAP3K10	4294	broad.mit.edu	37	chr19	40698374	40698374	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagcaggtgtgccaggaaGcccggctctttggagccctg	6	7	16	12	2	1	0	0	0	1	0	1	3	1	3	3	5	4	2	3	5	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:40698374G>T	uc002ona.2	+	1	724	c.436G>T	c.(436-438)GCC>TCC	p.A146S		NM_002446	NP_002437	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase	146	Protein kinase.				activation of JUN kinase activity|induction of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of JNK cascade|protein autophosphorylation|smoothened signaling pathway	cytoplasm	ATP binding|bHLH transcription factor binding|JUN kinase kinase kinase activity|protein homodimerization activity|transcription corepressor activity			ovary(2)|lung(2)|skin(1)|pancreas(1)	6						GTGCCAGGAAGCCCGGCTCTT	0.667													5	53					5.9392e-07	6.14342e-07	0.001168	1	0		T	40698374	T	T	40698374	3	4	19	1	0	0	0	0	1	0	0	0	9262	971	34	5	438	5	MAP3K10	19	40698374	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	157434	40698374	18430609	2805	16318											
MAP3K10	4294	broad.mit.edu	37	chr19	40712031	40712031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagccgcctgctcaagctgCgggaaggcggcagccacatc	8	4	14	15	3	1	0	1	0	0	0	2	1	1	1	3	3	5	4	3	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:40712031C>T	uc002ona.2	+	5	1690	c.1402C>T	c.(1402-1404)CGG>TGG	p.R468W	MAP3K10_uc002onb.2_Intron	NM_002446	NP_002437	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase	468				LKLREGGSHISLPSGF -> AQAAGRRQPHQPALWL (in Ref. 3).	activation of JUN kinase activity|induction of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of JNK cascade|protein autophosphorylation|smoothened signaling pathway	cytoplasm	ATP binding|bHLH transcription factor binding|JUN kinase kinase kinase activity|protein homodimerization activity|transcription corepressor activity			ovary(2)|lung(2)|skin(1)|pancreas(1)	6						GCTCAAGCTGCGGGAAGGCGG	0.667													13	19					0	0	0.001855	0	0		T	40712031	T	T	40712031	3	4	19	1	0	0	0	0	1	0	0	0	9262	759	27	1	1420	1	MAP3K10	19	40712031	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	13657	40712031	18416952	2806	16319											
PRX	57716	broad.mit.edu	37	chr19	40899994	40899994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtccccactcccactcCgggccttggggcttagggac	4	8	12	17	1	0	0	0	0	0	0	3	1	3	1	6	5	0	1	6	5	1	2	rs142436702	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:40899994C>T	uc002onr.2	-	7	4534	c.4265G>A	c.(4264-4266)CGG>CAG	p.R1422Q	PRX_uc002onq.2_Missense_Mutation_p.R1283Q|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	1422					axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			ACTCCCACTCCGGGCCTTGGG	0.687													38	83					0	0	0.004878	0	0		T	40899994	T	T	40899994	3	4	19	1	0	0	0	0	1	0	0	0	12664	652	23	1	124	1	PRX	19	40899994	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	187963	40899994	18228989	2807	16320											
SPTBN4	57731	broad.mit.edu	37	chr19	41012169	41012169	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgctgtcccgggagtgtggGcagcacctggtggaggcaga	6	7	18	10	1	0	1	0	0	0	1	1	3	1	3	2	5	2	4	2	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:41012169G>C	uc002ony.2	+	13	1778	c.1692G>C	c.(1690-1692)GGG>GGC	p.G564G	SPTBN4_uc002onx.2_Silent_p.G564G|SPTBN4_uc002onz.2_Silent_p.G564G	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	564	Spectrin 4.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GGGAGTGTGGGCAGCACCTGG	0.647													44	100					0	0	0.01441	0	0		C	41012169	C	C	41012169	2	2	19	1	0	0	0	0	0	0	0	1	15146	1190	42	5		5	SPTBN4	19	41012169	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	112175	41012169	18116814	2808	16321											
SHKBP1	92799	broad.mit.edu	37	chr19	41086783	41086783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgacaagatggtggcagcagCcaccggcagcgagatcctgc	10	5	14	12	2	0	3	0	1	0	2	1	4	1	3	3	3	4	3	3	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:41086783C>T	uc002oob.2	+	9	834	c.785C>T	c.(784-786)GCC>GTC	p.A262V	SHKBP1_uc002ooc.2_Missense_Mutation_p.A262V|SHKBP1_uc002ood.2_Missense_Mutation_p.A262V|SHKBP1_uc010xvl.1_Missense_Mutation_p.A185V|SHKBP1_uc002ooe.2_Missense_Mutation_p.A99V|SHKBP1_uc002oof.2_Missense_Mutation_p.A99V|SHKBP1_uc010xvm.1_Missense_Mutation_p.A99V|SHKBP1_uc010xvn.1_Missense_Mutation_p.A140V	NM_138392	NP_612401	Q8TBC3	SHKB1_HUMAN	SH3KBP1 binding protein 1	262	WD 1.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|pancreas(1)	2			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GTGGCAGCAGCCACCGGCAGC	0.607													7	62					0	0	0.004007	0	0		T	41086783	T	T	41086783	3	4	19	1	0	0	0	0	1	0	0	0	14309	739	26	2	819	2	SHKBP1	19	41086783	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	74614	41086783	18042200	2809	16322											
SHKBP1	92799	broad.mit.edu	37	chr19	41089337	41089337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccatcaccagttatgacGcggcaggctccttcctcctc	7	9	8	17	2	1	1	1	1	0	0	5	1	4	1	5	2	1	3	5	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:41089337G>A	uc002oob.2	+	11	1043	c.994G>A	c.(994-996)GCG>ACG	p.A332T	SHKBP1_uc002ooc.2_Missense_Mutation_p.A307T|SHKBP1_uc002ood.2_Missense_Mutation_p.A332T|SHKBP1_uc010xvl.1_Missense_Mutation_p.A255T|SHKBP1_uc002ooe.2_Missense_Mutation_p.A169T|SHKBP1_uc002oof.2_Missense_Mutation_p.A169T|SHKBP1_uc010xvm.1_Missense_Mutation_p.A169T|SHKBP1_uc010xvn.1_Missense_Mutation_p.A210T	NM_138392	NP_612401	Q8TBC3	SHKB1_HUMAN	SH3KBP1 binding protein 1	332	WD 3.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|pancreas(1)	2			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CAGTTATGACGCGGCAGGCTC	0.652													3	9					0	0	0.001168	0	0		A	41089337	A	A	41089337	3	1	19	1	0	0	0	0	1	0	0	0	14309	1087	38	1	1036	1	SHKBP1	19	41089337	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2554	41089337	18039646	2810	16323											
ADCK4	79934	broad.mit.edu	37	chr19	41208524	41208524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctgaaattctgggcacaagCcgcctcacgacggtagtcac	10	7	10	14	3	3	1	2	1	1	0	3	2	3	1	3	2	1	2	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:41208524C>T	uc002oor.2	-	10	1176	c.874G>A	c.(874-876)GCT>ACT	p.A292T	ADCK4_uc002oop.1_5'Flank|ADCK4_uc002ooq.1_Missense_Mutation_p.A251T	NM_024876	NP_079152	Q96D53	ADCK4_HUMAN	aarF domain containing kinase 4 isoform a	292	Protein kinase.					integral to membrane	protein serine/threonine kinase activity				0			Lung(22;9.49e-05)|LUSC - Lung squamous cell carcinoma(20;0.000219)			TGGGCACAAGCCGCCTCACGA	0.642													17	106					0	0	0.007413	0	0		T	41208524	T	T	41208524	3	4	19	1	0	0	0	0	1	0	0	0	290	739	26	2	784	2	ADCK4	19	41208524	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	119187	41208524	17920459	2811	16324											
ITPKC	80271	broad.mit.edu	37	chr19	41243632	41243632	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcatgcctagaagaactTcgtgaagctctggagatctc	10	10	12	9	1	2	4	0	1	2	3	4	5	2	4	1	2	3	2	1	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:41243632T>C	uc002oot.2	+	6	1839	c.1806T>C	c.(1804-1806)CTT>CTC	p.L602L		NM_025194	NP_079470	Q96DU7	IP3KC_HUMAN	inositol 1,4,5-trisphosphate 3-kinase C	602						cytoplasm|nucleus	ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity				0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			TAGAAGAACTTCGTGAAGCTC	0.572													5	161					0	0	0.001984	0	0		C	41243632	C	C	41243632	2	2	19	1	0	0	0	0	0	0	0	1	7935	1770	62	3		3	ITPKC	19	41243632	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	35108	41243632	17885351	2812	16325											
AXL	558	broad.mit.edu	37	chr19	41762394	41762394	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgtgtgtggcggacttcGggctctccaagaagatctac	7	10	13	11	3	2	2	0	0	2	2	4	3	2	3	2	3	1	1	2	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:41762394G>A	uc010ehj.2	+	18	2264	c.2074G>A	c.(2074-2076)GGG>AGG	p.G692R	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehk.2_Missense_Mutation_p.G683R	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	692	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						GGCGGACTTCGGGCTCTCCAA	0.552													61	115					0	0	0.01441	0	0		A	41762394	A	A	41762394	3	1	19	1	0	0	0	0	1	0	0	0	1239	1116	39	1	2144	1	AXL	19	41762394	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	518762	41762394	17366589	2813	16326											
B9D2	80776	broad.mit.edu	37	chr19	41860690	41860690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagcagctgtgtgcaggCgatagcggtcggccccactg	7	6	14	14	3	0	0	0	0	0	0	1	1	0	0	3	3	4	3	3	3	1	1	rs149500212		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:41860690C>T	uc002oqj.2	-	4	663	c.443G>A	c.(442-444)CGC>CAC	p.R148H	CYP2F1_uc010xvw.1_Intron|TGFB1_uc002oqh.1_5'Flank|TMEM91_uc002oqi.2_Intron	NM_030578	NP_085055	Q9BPU9	B9D2_HUMAN	B9 protein domain 2	148					cilium assembly|mitotic prometaphase	centrosome|cilium axoneme|cytosol|microtubule basal body|nucleus	gamma-tubulin binding			ovary(1)	1						TGTGTGCAGGCGATAGCGGTC	0.662													28	29					0	0	0.009535	0	0		T	41860690	T	T	41860690	3	4	19	1	0	0	0	0	1	0	0	0	1279	768	27	1	88	1	B9D2	19	41860690	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	98296	41860690	17268293	2814	16327											
BCKDHA	593	broad.mit.edu	37	chr19	41884359	41884359	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtccctgaggggtttgcagTtcctgtcaccgcctcttccc	4	12	10	15	1	2	1	1	1	1	0	5	1	5	1	5	2	1	3	5	2	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:41884359T>C	uc002oqm.3	+	2	496	c.145T>C	c.(145-147)TTC>CTC	p.F49L	CYP2F1_uc010xvw.1_Intron|TMEM91_uc002oqi.2_Missense_Mutation_p.F49L|TMEM91_uc010ehq.2_Missense_Mutation_p.F49L|TMEM91_uc002oql.2_Missense_Mutation_p.F49L|TMEM91_uc010ehr.2_Missense_Mutation_p.F49L|TMEM91_uc010ehs.2_Missense_Mutation_p.F49L|TMEM91_uc010eht.2_Missense_Mutation_p.F49L|TMEM91_uc002oqk.3_Missense_Mutation_p.F49L|TMEM91_uc002oqn.2_Missense_Mutation_p.F49L	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	Error:Variant_position_missing_in_P12694_after_alignment					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						GGGTTTGCAGTTCCTGTCACC	0.617													30	68					0	0	0.004878	0	0		C	41884359	C	C	41884359	3	2	19	1	0	0	0	0	1	0	0	0	1360	1725	60	3		3	BCKDHA	19	41884359	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	23669	41884359	17244624	2815	16328											
ARHGEF1	9138	broad.mit.edu	37	chr19	42406498	42406498	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagatcggagacgtgctgCtggcccgggtgagatgccca	8	6	17	10	3	0	3	0	1	0	3	1	6	0	3	2	4	3	2	2	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:42406498C>T	uc002orx.2	+	16	1598	c.1489C>T	c.(1489-1491)CTG>TTG	p.L497L	ARHGEF1_uc002ory.2_Silent_p.L464L|ARHGEF1_uc002orz.2_Silent_p.L335L|ARHGEF1_uc002osa.2_Silent_p.L512L|ARHGEF1_uc002osb.2_Silent_p.L479L|ARHGEF1_uc002osc.2_Silent_p.L251L|ARHGEF1_uc002osd.2_Silent_p.L156L|ARHGEF1_uc002ose.2_5'Flank	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	497	DH.				cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		AGACGTGCTGCTGGCCCGGGT	0.652													22	33					0	0	0.010504	0	0		T	42406498	T	T	42406498	2	4	19	1	0	0	0	0	0	0	0	1	893	796	28	2		2	ARHGEF1	19	42406498	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	522139	42406498	16722485	2816	16329											
ATP1A3	478	broad.mit.edu	37	chr19	42474440	42474440	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgctttcggcagcctcgtaCgccagtgagatggcagggac	7	8	14	12	4	0	1	0	1	0	1	3	3	0	2	2	3	2	4	2	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:42474440C>T	uc002osg.2	-	18	2593	c.2439G>A	c.(2437-2439)GCG>GCA	p.A813A	ATP1A3_uc010xwf.1_Silent_p.A824A|ATP1A3_uc010xwg.1_Silent_p.A783A|ATP1A3_uc010xwh.1_Silent_p.A826A|ATP1A3_uc002osh.2_Silent_p.A813A	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	813	Helical; (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						CAGCCTCGTACGCCAGTGAGA	0.642													15	39					0	0	0.00499	0	0		T	42474440	T	T	42474440	2	4	19	1	0	0	0	0	0	0	0	1	1131	523	19	1		1	ATP1A3	19	42474440	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	67942	42474440	16654543	2817	16330											
POU2F2	5452	broad.mit.edu	37	chr19	42599726	42599726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcttctctaaggcgaagcGgacgtttgtctcgatgctgg	7	12	12	10	4	3	0	0	0	3	0	5	3	3	1	0	3	2	2	0	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:42599726G>A	uc002osp.2	-	10	992	c.925C>T	c.(925-927)CGC>TGC	p.R309C	POU2F2_uc002osn.2_Missense_Mutation_p.R293C|POU2F2_uc002oso.2_Missense_Mutation_p.R82C|POU2F2_uc002osq.2_Missense_Mutation_p.R293C|POU2F2_uc002osr.1_Missense_Mutation_p.R309C	NM_002698	NP_002689	P09086	PO2F2_HUMAN	POU domain, class 2, transcription factor 2	309	Homeobox.				humoral immune response|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2		Prostate(69;0.059)				AAGGCGAAGCGGACGTTTGTC	0.672													9	21					0	0	0.001855	0	0		A	42599726	A	A	42599726	3	1	19	1	0	0	0	0	1	0	0	0	12291	1116	39	1	534	1	POU2F2	19	42599726	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	125286	42599726	16529257	2818	16331											
GSK3A	2931	broad.mit.edu	37	chr19	42736740	42736740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaaagaagctgtgcgcaCaggcctctagtggggagagc	11	6	14	10	1	2	2	1	0	1	2	2	3	2	2	1	3	3	2	1	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:42736740C>T	uc002otb.1	-	9	1312	c.1193G>A	c.(1192-1194)TGT>TAT	p.C398Y	GSK3A_uc002ota.1_Missense_Mutation_p.C316Y|GSK3A_uc002otc.2_RNA	NM_019884	NP_063937	P49840	GSK3A_HUMAN	glycogen synthase kinase 3 alpha	398	Protein kinase.				insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of insulin receptor signaling pathway|negative regulation of transferase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein catabolic process	beta-catenin destruction complex|cytosol	ATP binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|tau-protein kinase activity			ovary(2)|lung(2)	4		Prostate(69;0.00682)				GCTGTGCGCACAGGCCTCTAG	0.592													4	59					0	0	0.001168	0	0		T	42736740	T	T	42736740	3	4	19	1	0	0	0	0	1	0	0	0	6839	478	17	4	270	4	GSK3A	19	42736740	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	137014	42736740	16392243	2819	16332											
MEGF8	1954	broad.mit.edu	37	chr19	42873096	42873096	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcaacgagacgcagaatTgccacgaccagccccacggc	12	3	10	16	4	0	2	0	0	0	2	0	4	0	2	4	1	4	2	4	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:42873096T>C	uc002otl.3	+	36	7017	c.6382T>C	c.(6382-6384)TGC>CGC	p.C2128R	MEGF8_uc002otm.3_Missense_Mutation_p.C1736R|MEGF8_uc002otn.3_5'Flank	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	2195	Extracellular (Potential).|EGF-like 5.					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				GACGCAGAATTGCCACGACCA	0.667													9	70					0	0	0.008291	0	0		C	42873096	C	C	42873096	3	2	19	1	0	0	0	0	1	0	0	0	9481	1812	63	3	6524	3	MEGF8	19	42873096	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	136356	42873096	16255887	2820	16333											
MEGF8	1954	broad.mit.edu	37	chr19	42879938	42879938	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttcgtggtccgtgtggccCctgacactggcgtccatact	4	11	11	15	3	0	1	0	1	0	0	3	1	2	1	5	3	1	0	5	3	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:42879938C>A	uc002otl.3	+	41	7983	c.7348C>A	c.(7348-7350)CCT>ACT	p.P2450T	MEGF8_uc002otm.3_Missense_Mutation_p.P2058T|MEGF8_uc002otn.3_Missense_Mutation_p.P111T	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	2517	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				CCGTGTGGCCCCTGACACTGG	0.652													4	13					0.00024832	0.000254043	0.009096	1	0		A	42879938	A	A	42879938	3	1	19	1	0	0	0	0	1	0	0	0	9481	623	22	5	7510	5	MEGF8	19	42879938	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	6842	42879938	16249045	2821	16334											
PSG1	5669	broad.mit.edu	37	chr19	43382329	43382329	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagattctggggcaaattgtGgacaagtagaagaacatcct	15	9	11	6	0	1	3	0	0	1	3	2	4	2	4	1	3	1	2	1	3	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:43382329G>C	uc002ovb.2	-	2	304	c.166C>G	c.(166-168)CAC>GAC	p.H56D	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Missense_Mutation_p.H56D|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_RNA|PSG1_uc002our.1_Missense_Mutation_p.H56D|PSG1_uc010eio.1_Missense_Mutation_p.H56D|PSG1_uc002oux.1_5'UTR|PSG1_uc002ouy.1_Missense_Mutation_p.H56D|PSG1_uc002ouz.1_Missense_Mutation_p.H56D|PSG1_uc002ova.1_Missense_Mutation_p.H56D|PSG1_uc002ovc.2_Missense_Mutation_p.H56D|PSG1_uc002ovd.1_Missense_Mutation_p.H56D	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	56	Ig-like V-type.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				GGCAAATTGTGGACAAGTAGA	0.453													31	331					0	0	0.013726	0	0		C	43382329	C	C	43382329	3	2	19	1	0	0	0	0	1	0	0	0	12675	1348	47	5	1166	5	PSG1	19	43382329	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	502391	43382329	15746654	2822	16335											
ZNF575	284346	broad.mit.edu	37	chr19	44039617	44039617	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccacacgcaccacgccacCgacgcccgcccctatccttg	7	4	7	23	6	0	0	0	0	0	0	1	1	1	0	8	0	0	1	8	0	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:44039617C>T	uc002ows.2	+	4	1044	c.516C>T	c.(514-516)ACC>ACT	p.T172T	ZNF575_uc002owq.2_Silent_p.T271T	NM_174945	NP_777605	Q86XF7	ZN575_HUMAN	zinc finger protein 575	172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0199)				ACCACGCCACCGACGCCCGCC	0.697													22	45					0	0	0.007291	0	0		T	44039617	T	T	44039617	2	4	19	1	0	0	0	0	0	0	0	1	18032	639	23	1		1	ZNF575	19	44039617	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	657288	44039617	15089366	2823	16336											
KCNN4	3783	broad.mit.edu	37	chr19	44278355	44278355	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccctcacctctcggccacGgacagcacccaggcggtggt	7	5	11	18	3	2	0	1	0	1	0	3	1	2	1	4	5	1	1	4	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:44278355G>A	uc002oxl.2	-	3	1068	c.672C>T	c.(670-672)TCC>TCT	p.S224S	KCNN4_uc010eiz.2_Silent_p.S137S|KCNN4_uc010eja.1_RNA	NM_002250	NP_002241	O15554	KCNN4_HUMAN	intermediate conductance calcium-activated	224	Helical; Name=Segment S5; (Potential).				defense response	voltage-gated potassium channel complex	calcium-activated potassium channel activity|calmodulin binding			ovary(2)	2		Prostate(69;0.0352)			Clotrimazole(DB00257)|Halothane(DB01159)|Quinine(DB00468)	TCTCGGCCACGGACAGCACCC	0.682											OREG0025535	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	16					0	0	0.001984	0	0		A	44278355	A	A	44278355	2	1	19	1	0	0	0	0	0	0	0	1	8097	1103	39	1		1	KCNN4	19	44278355	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	238738	44278355	14850628	2824	16337											
ZNF404	342908	broad.mit.edu	37	chr19	44378091	44378091	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctcccaaattcaattgtgTactgtgggtcagttctgaaa	10	14	9	8	0	4	1	2	1	2	0	5	1	4	1	1	1	1	2	1	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:44378091T>C	uc002oxs.3	-	2	275	c.266A>G	c.(265-267)TAC>TGC	p.Y89C		NM_001033719	NP_001028891	Q494X3	ZN404_HUMAN	zinc finger protein 404	92					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				TTCAATTGTGTACTGTGGGTC	0.333													9	176					0	0	0.006214	0	0		C	44378091	C	C	44378091	3	2	19	1	0	0	0	0	1	0	0	0	17911	1638	57	3	1387	3	ZNF404	19	44378091	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	99736	44378091	14750892	2825	16338											
ZNF221	7638	broad.mit.edu	37	chr19	44469186	44469186	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccagaggaagctgtacCgagatgtgatgctagagaac	12	7	13	9	1	0	4	0	1	0	3	0	7	0	5	2	1	5	3	2	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:44469186C>T	uc002oxx.2	+	4	494	c.166C>T	c.(166-168)CGA>TGA	p.R56*	ZNF221_uc010ejb.1_Nonsense_Mutation_p.R56*|ZNF221_uc010xws.1_Nonsense_Mutation_p.R56*	NM_013359	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	56	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Prostate(69;0.0352)				GAAGCTGTACCGAGATGTGAT	0.522													78	218					0	0	0.01441	0	0		T	44469186	T	T	44469186	4	4	19	1	0	0	0	0	0	1	0	0	17800	644	23	1	172	1	ZNF221	19	44469186	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	91095	44469186	14659797	2826	16339											
ZNF234	10780	broad.mit.edu	37	chr19	44661316	44661316	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtggtaagggtttcattTacagttcaagttttcaggcc	8	16	11	6	0	3	0	3	0	0	0	3	0	3	0	1	3	1	4	1	3	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:44661316T>C	uc002oym.2	+	6	1454	c.1147T>C	c.(1147-1149)TAC>CAC	p.Y383H	ZNF234_uc002oyl.3_Missense_Mutation_p.Y383H	NM_006630	NP_006621	Q14588	ZN234_HUMAN	zinc finger protein 234	383	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				GGGTTTCATTTACAGTTCAAG	0.428													3	46					0	0	0.004672	0	0		C	44661316	C	C	44661316	3	2	19	1	0	0	0	0	1	0	0	0	17812	1754	61	3	1161	3	ZNF234	19	44661316	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	192130	44661316	14467667	2827	16340											
ZNF226	7769	broad.mit.edu	37	chr19	44681437	44681437	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataagccatacaaatgtgaTgagtgtgggaagggcttcaa	14	9	13	5	0	1	2	1	2	0	0	1	4	1	3	1	2	2	1	1	2	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:44681437T>C	uc002oyp.2	+	6	2166	c.2022T>C	c.(2020-2022)GAT>GAC	p.D674D	ZNF226_uc002oyq.2_Silent_p.D557D|ZNF226_uc002oyr.2_Silent_p.D557D|ZNF226_uc010ejg.2_3'UTR|ZNF226_uc002oys.2_Silent_p.D674D|ZNF226_uc002oyt.2_Silent_p.D674D	NM_001032373	NP_001027545	Q9NYT6	ZN226_HUMAN	zinc finger protein 226 isoform a	674	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				ACAAATGTGATGAGTGTGGGA	0.453													4	121					0	0	0.000602	0	0		C	44681437	C	C	44681437	2	2	19	1	0	0	0	0	0	0	0	1	17805	1461	51	3		3	ZNF226	19	44681437	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	20121	44681437	14447546	2828	16341											
ZNF235	9310	broad.mit.edu	37	chr19	44792006	44792006	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgtgcttgaaagtatgAactctgactgaagcctttcc	10	13	9	9	0	1	5	0	5	1	0	2	5	2	5	2	0	3	2	2	0	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:44792006A>G	uc002oza.3	-	5	1685	c.1582T>C	c.(1582-1584)TCA>CCA	p.S528P	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF235_uc002ozb.3_Missense_Mutation_p.S524P|ZNF235_uc010xwx.1_Missense_Mutation_p.S442P	NM_004234	NP_004225	Q14590	ZN235_HUMAN	zinc finger protein 93 homolog	528	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)	3		Prostate(69;0.0352)|all_neural(266;0.116)				TGAAAGTATGAACTCTGACTG	0.453													58	92					0	0	0.01441	0	0		G	44792006	G	G	44792006	3	3	19	1	0	0	0	0	1	0	0	0	17813	246	9	3	638	3	ZNF235	19	44792006	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	110569	44792006	14336977	2829	16342											
CBLC	23624	broad.mit.edu	37	chr19	45296787	45296787	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcaagggctgggaggcCgtgagtatctaccagttcca	10	8	14	9	1	2	2	1	1	1	1	3	4	3	3	3	3	1	3	3	3	3	3	rs112128460		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:45296787C>T	uc002ozs.2	+	8	1257	c.1194C>T	c.(1192-1194)GCC>GCT	p.A398A	CBLC_uc010ejt.2_Silent_p.A352A	NM_012116	NP_036248	Q9ULV8	CBLC_HUMAN	Cas-Br-M (murine) ecotropic retroviral	398					cell surface receptor linked signaling pathway|negative regulation of epidermal growth factor receptor activity|negative regulation of MAP kinase activity|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	calcium ion binding|epidermal growth factor receptor binding|phosphotyrosine binding|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|skin(1)	6	Lung NSC(12;0.00136)|all_lung(12;0.00371)	Ovarian(192;0.231)				GCTGGGAGGCCGTGAGTATCT	0.642			M		AML								9	8					0	0	0.008291	0	0		T	45296787	T	T	45296787	2	4	19	1	0	0	0	0	0	0	0	1	2705	639	23	1		1	CBLC	19	45296787	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	504781	45296787	13832196	2830	16343											
NKPD1	284353	broad.mit.edu	37	chr19	45655873	45655873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtactcgtagaggcagtcgcGctcgtcgtgaaggcagaaga	10	7	15	9	5	0	4	0	1	0	3	4	4	0	4	0	2	1	5	0	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:45655873G>A	uc010xxi.1	-	4	1822	c.1822C>T	c.(1822-1824)CGC>TGC	p.R608C		NM_198478	NP_940880			NTPase, KAP family P-loop domain containing 1												0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00863)|GBM - Glioblastoma multiforme(486;0.231)		AGGCAGTCGCGCTCGTCGTGA	0.701													8	6					0	0	0.004482	0	0		A	45655873	A	A	45655873	3	1	19	1	0	0	0	0	1	0	0	0	10465	1087	38	1	680	1	NKPD1	19	45655873	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	359086	45655873	13473110	2831	16344											
FOSB	2354	broad.mit.edu	37	chr19	45975912	45975912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctggtggcccacaaacCgggctgcaagatcccctacg	8	7	12	14	2	0	1	0	0	0	1	1	1	1	1	4	3	4	3	4	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:45975912C>T	uc002pbx.3	+	4	1251	c.659C>T	c.(658-660)CCG>CTG	p.P220L	ERCC1_uc002pbu.1_Intron|FOSB_uc010eke.2_Missense_Mutation_p.P145L|FOSB_uc002pby.3_Missense_Mutation_p.P184L|FOSB_uc010eka.1_Missense_Mutation_p.P181L|FOSB_uc010ekb.1_Missense_Mutation_p.P220L|FOSB_uc010ekc.1_Missense_Mutation_p.P77L|FOSB_uc010ekf.2_Missense_Mutation_p.P181L|FOSB_uc010ekd.1_Missense_Mutation_p.P184L|FOSB_uc010ekg.2_Missense_Mutation_p.P77L|FOSB_uc002pca.3_Missense_Mutation_p.P171L	NM_006732	NP_006723	P53539	FOSB_HUMAN	FBJ murine osteosarcoma viral oncogene homolog B	220					behavior|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(2)|lung(1)	3		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00814)|Epithelial(262;0.18)|GBM - Glioblastoma multiforme(486;0.242)		GCCCACAAACCGGGCTGCAAG	0.607													24	41					0	0	0.003954	0	0		T	45975912	T	T	45975912	3	4	19	1	0	0	0	0	1	0	0	0	6000	652	23	1	673	1	FOSB	19	45975912	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	320039	45975912	13153071	2832	16345											
FOSB	2354	broad.mit.edu	37	chr19	45976210	45976210	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgttcgccggcgcccaacgCaccagcggcagtgaccagcc	7	3	13	18	6	0	1	0	1	0	0	1	1	0	1	5	2	3	3	5	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:45976210C>T	uc002pbx.3	+	4	1549	c.957C>T	c.(955-957)CGC>CGT	p.R319R	ERCC1_uc002pbu.1_Intron|FOSB_uc010eke.2_Silent_p.R244R|FOSB_uc002pby.3_Silent_p.R283R|FOSB_uc010eka.1_3'UTR|FOSB_uc010ekb.1_3'UTR|FOSB_uc010ekc.1_3'UTR|FOSB_uc010ekf.2_Silent_p.R280R|FOSB_uc010ekd.1_3'UTR|FOSB_uc010ekg.2_Silent_p.R176R|FOSB_uc002pca.3_Silent_p.R270R	NM_006732	NP_006723	P53539	FOSB_HUMAN	FBJ murine osteosarcoma viral oncogene homolog B	319					behavior|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(2)|lung(1)	3		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00814)|Epithelial(262;0.18)|GBM - Glioblastoma multiforme(486;0.242)		GCGCCCAACGCACCAGCGGCA	0.587													12	162					0	0	0.00245	0	0		T	45976210	T	T	45976210	2	4	19	1	0	0	0	0	0	0	0	1	6000	697	25	2		2	FOSB	19	45976210	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	298	45976210	13152773	2833	16346											
GPR4	2828	broad.mit.edu	37	chr19	46094726	46094726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggagctcacggccacggcGgtcttgacgcggcgcaggcg	6	4	17	14	8	2	1	1	1	1	0	2	2	2	2	1	6	1	2	1	6	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:46094726G>A	uc002pcm.2	-	2	1344	c.399C>T	c.(397-399)ACC>ACT	p.T133T	OPA3_uc010xxk.1_Intron	NM_005282	NP_005273	P46093	GPR4_HUMAN	G protein-coupled receptor 4	133	Helical; Name=4; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(262;0.0071)|GBM - Glioblastoma multiforme(486;0.128)|Epithelial(262;0.223)		CGGCCACGGCGGTCTTGACGC	0.662													33	54					0	0	0.009718	0	0		A	46094726	A	A	46094726	2	1	19	1	0	0	0	0	0	0	0	1	6709	1103	39	1		1	GPR4	19	46094726	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	118516	46094726	13034257	2834	16347											
SIX5	147912	broad.mit.edu	37	chr19	46269107	46269107	+	Frame_Shift_Del	DEL	G	-	-																															ctggaggtggtggcagcggcGgggggtggctgctgtgcaga																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:46269107delG	uc002pdb.2	-	3	2267	c.1872delC	c.(1870-1872)CCCfs	p.P624fs	SIX5_uc002pdc.2_3'UTR	NM_175875	NP_787071	Q8N196	SIX5_HUMAN	SIX homeobox 5	624						cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00783)|GBM - Glioblastoma multiforme(486;0.0802)|Epithelial(262;0.235)		TGGCAGCGGCGGGGGGTGGCT	0.711													9	17	---	---	---	---						.	-	46269107	-	-	46269107	7	5	19	1	0	1	0	1	0	0	0	0	14375	1103	39	0	351	0	SIX5	19	46269107	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	174381	46269107	12859876	2835	16348											
FOXA3	3171	broad.mit.edu	37	chr19	46375539	46375539	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagcagcagctccgggtaCggggccccgggtcctgggct	4	5	18	14	3	0	0	0	0	0	0	2	0	2	0	4	6	4	6	4	6	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:46375539C>T	uc002pdr.2	+	2	473	c.276C>T	c.(274-276)TAC>TAT	p.Y92Y		NM_004497	NP_004488	P55318	FOXA3_HUMAN	forkhead box A3	92					brain development|cellular glucose homeostasis|cellular response to starvation|chromatin modification|embryo development|endocrine pancreas development|negative regulation of cell proliferation|neural plate anterior/posterior regionalization|neuron fate specification|positive regulation of hepatocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|spermatogenesis	transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(1)	1		Ovarian(192;0.0308)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00453)|GBM - Glioblastoma multiforme(486;0.0518)|Epithelial(262;0.236)		GCTCCGGGTACGGGGCCCCGG	0.692													9	25					0	0	0.008291	0	0		T	46375539	T	T	46375539	2	4	19	1	0	0	0	0	0	0	0	1	6005	547	19	1		1	FOXA3	19	46375539	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	106432	46375539	12753444	2836	16349											
CCDC8	83987	broad.mit.edu	37	chr19	46915764	46915764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaactcgctgtcgctggCgttgctgctgtcgtacgtgc	3	12	14	12	5	0	1	0	1	0	0	3	1	0	1	0	1	5	7	0	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:46915764C>T	uc002pep.2	-	1	1156	c.304G>A	c.(304-306)GCC>ACC	p.A102T		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	102						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		CTGTCGCTGGCGTTGCTGCTG	0.657													28	71					0	0	0.004289	0	0		T	46915764	T	T	46915764	3	4	19	1	0	0	0	0	1	0	0	0	2856	768	27	1	1316	1	CCDC8	19	46915764	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	540225	46915764	12213219	2837	16350											
ZC3H4	23211	broad.mit.edu	37	chr19	47570574	47570574	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggatgggtagggggatcAggtcctcgggattccagagc	7	8	19	7	1	1	1	1	0	0	1	4	4	3	4	2	7	1	1	2	7	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:47570574A>G	uc002pga.3	-	15	2989	c.2951T>C	c.(2950-2952)CTG>CCG	p.L984P	ZC3H4_uc002pgb.1_RNA	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	984							nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		TAGGGGGATCAGGTCCTCGGG	0.682													13	135					0	0	0.003163	0	0		G	47570574	G	G	47570574	3	3	19	1	0	0	0	0	1	0	0	0	17595	188	7	3	964	3	ZC3H4	19	47570574	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	654810	47570574	11558409	2838	16351											
CCDC9	26093	broad.mit.edu	37	chr19	47773861	47773861	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctacttttggggagttccTgtcccagcacaaagctgagg	8	10	11	12	0	0	1	0	1	0	0	2	2	2	2	3	3	3	3	3	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:47773861T>C	uc010xym.1	+	10	1208	c.1001T>C	c.(1000-1002)CTG>CCG	p.L334P		NM_015603	NP_056418	Q9Y3X0	CCDC9_HUMAN	coiled-coil domain containing 9	334											0		all_cancers(25;0.0432)|all_epithelial(76;0.00812)|Medulloblastoma(540;0.0208)|all_neural(266;0.0416)|Hepatocellular(1079;0.114)		OV - Ovarian serous cystadenocarcinoma(262;8.51e-95)|Epithelial(262;1.15e-92)|all cancers(93;7.67e-84)|GBM - Glioblastoma multiforme(486;0.024)|STAD - Stomach adenocarcinoma(1328;0.183)		GGGGAGTTCCTGTCCCAGCAC	0.647													5	103					0	0	0.000602	0	0		C	47773861	C	C	47773861	3	2	19	1	0	0	0	0	1	0	0	0	2870	1580	55	3	1035	3	CCDC9	19	47773861	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	203287	47773861	11355122	2839	16352											
SLC8A2	6543	broad.mit.edu	37	chr19	47969099	47969099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcttgatcttgcggctctCgccggctgggatgacgtaga	5	11	15	10	4	2	3	0	2	2	1	3	4	2	4	1	3	2	4	1	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:47969099C>T	uc002pgx.2	-	2	840	c.562G>A	c.(562-564)GAG>AAG	p.E188K	SLC8A2_uc010xyq.1_Intron|SLC8A2_uc010xyr.1_Intron|SLC8A2_uc010ele.2_Missense_Mutation_p.E188K	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	188	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		TTGCGGCTCTCGCCGGCTGGG	0.567													11	23					0	0	0.008291	0	0		T	47969099	T	T	47969099	3	4	19	1	0	0	0	0	1	0	0	0	14732	893	31	1	2239	1	SLC8A2	19	47969099	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	195238	47969099	11159884	2840	16353											
GLTSCR1	29998	broad.mit.edu	37	chr19	48183494	48183495	+	Frame_Shift_Ins	INS	-	G	G																															cccatccagcccaagcccgcINSgggggtgctgccgcccaagc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:48183494_48183495insG	uc002phh.3	+	6	1261_1262	c.1067_1068insG	c.(1066-1068)GCGfs	p.A356fs	GLTSCR1_uc002phi.3_Frame_Shift_Ins_p.A114fs	NM_015711	NP_056526	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	356							protein binding			pancreas(3)	3		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		CCCAAGCCCGCGGGGGTGCTGC	0.752													4	3	---	---	---	---						.	G	48183495	G	G	48183494	7	5	19	1	0	1	1	0	0	0	0	0	6489	768	27	0	1081	0	GLTSCR1	19	48183494	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	214395	48183494	10945489	2841	16354											
TMEM143	55260	broad.mit.edu	37	chr19	48863431	48863431	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgccggactcgagtggaaTtcctgttacctcaggaagca	9	10	11	11	2	2	0	1	0	1	0	4	4	3	3	3	3	3	2	3	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:48863431T>C	uc002pix.1	-	3	276	c.267A>G	c.(265-267)GAA>GAG	p.E89E	TMEM143_uc002piw.1_RNA|TMEM143_uc002piy.1_Intron|TMEM143_uc010xzn.1_Silent_p.E89E|TMEM143_uc010elw.1_Intron|TMEM143_uc010xzo.1_Intron|TMEM143_uc010xzp.1_Silent_p.E89E|TMEM143_uc010xzq.1_Intron	NM_018273	NP_060743	Q96AN5	TM143_HUMAN	transmembrane protein 143	89						integral to membrane|mitochondrion					0		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000149)|all cancers(93;0.000198)|Epithelial(262;0.0151)|GBM - Glioblastoma multiforme(486;0.0157)		TCGAGTGGAATTCCTGTTACC	0.557													8	32					0	0	0.00308	0	0		C	48863431	C	C	48863431	2	2	19	1	0	0	0	0	0	0	0	1	16082	1490	52	3		3	TMEM143	19	48863431	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	679937	48863431	10265552	2842	16355											
KCNJ14	3770	broad.mit.edu	37	chr19	48965192	48965192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacctgggtggccagggcGcgcgctacctgagcgacctg	7	6	15	13	4	0	1	0	1	0	0	0	2	0	1	4	3	3	1	4	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:48965192G>A	uc002pje.1	+	2	616	c.211G>A	c.(211-213)GCG>ACG	p.A71T	KCNJ14_uc002pjf.1_Missense_Mutation_p.A71T	NM_013348	NP_037480	Q9UNX9	IRK14_HUMAN	potassium inwardly-rectifying channel J14	71	Cytoplasmic (By similarity).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			skin(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000109)|all cancers(93;0.000129)|Epithelial(262;0.0081)|GBM - Glioblastoma multiforme(486;0.0222)		TGGCCAGGGCGCGCGCTACCT	0.667													8	18					0	0	0.00308	0	0		A	48965192	A	A	48965192	3	1	19	1	0	0	0	0	1	0	0	0	8064	1087	38	1	213	1	KCNJ14	19	48965192	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	101761	48965192	10163791	2843	16356											
KCNJ14	3770	broad.mit.edu	37	chr19	48968005	48968005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctagcccccgagttctcacaCcaaccctggcgctgaccctg	7	7	8	19	2	1	1	1	1	1	0	2	2	1	1	5	1	2	2	5	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:48968005C>T	uc002pje.1	+	3	1687	c.1282C>T	c.(1282-1284)CCA>TCA	p.P428S	KCNJ14_uc002pjf.1_Missense_Mutation_p.P428S	NM_013348	NP_037480	Q9UNX9	IRK14_HUMAN	potassium inwardly-rectifying channel J14	428	Cytoplasmic (By similarity).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			skin(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000109)|all cancers(93;0.000129)|Epithelial(262;0.0081)|GBM - Glioblastoma multiforme(486;0.0222)		AGTTCTCACACCAACCCTGGC	0.592													5	91					0	0	0.000602	0	0		T	48968005	T	T	48968005	3	4	19	1	0	0	0	0	1	0	0	0	8064	507	18	4	1288	4	KCNJ14	19	48968005	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2813	48968005	10160978	2844	16357											
TULP2	7288	broad.mit.edu	37	chr19	49400605	49400605	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcctgggcacaatacctgCtgttccagcttctgcagcct	7	12	8	14	0	1	0	0	0	1	0	3	0	3	0	4	1	5	5	4	1	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:49400605C>T	uc002pkz.2	-	3	232	c.81G>A	c.(79-81)CAG>CAA	p.Q27Q	NUCB1_uc002pla.2_5'Flank|NUCB1_uc002plb.3_5'Flank	NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	27					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		ACAATACCTGCTGTTCCAGCT	0.607													4	28					0	0	0.001168	0	0		T	49400605	T	T	49400605	2	4	19	1	0	0	0	0	0	0	0	1	16800	796	28	2		2	TULP2	19	49400605	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	432600	49400605	9728378	2845	16358											
CGB8	94115	broad.mit.edu	37	chr19	49551986	49551986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctgcagtcttacctggAacatctccatccttggtgtg	6	12	10	13	0	2	0	0	0	2	0	4	1	3	1	4	3	3	1	4	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:49551986A>G	uc002pmb.3	-	1	383	c.11T>C	c.(10-12)TTC>TCC	p.F4S	CGB_uc010yad.1_Intron|CGB8_uc002pma.2_5'Flank|CGB8_uc002pmc.2_Intron	NM_033183	NP_149439	P01233	CGHB_HUMAN	chorionic gonadotropin, beta polypeptide 8	4					apoptosis|cell-cell signaling|cellular nitrogen compound metabolic process|female gamete generation|hormone biosynthetic process|peptide hormone processing|signal transduction	extracellular region|soluble fraction	hormone activity				0		all_epithelial(76;9.62e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)	Choriogonadotropin alfa(DB00097)	TCTTACCTGGAACATCTCCAT	0.607													23	268					0	0	0.005443	0	0		G	49551986	G	G	49551986	3	3	19	1	0	0	0	0	1	0	0	0	3304	246	9	3	498	3	CGB8	19	49551986	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	151381	49551986	9576997	2846	16359											
CD37	951	broad.mit.edu	37	chr19	49842653	49842653	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccatagtgggcatttgcctgGgcgtcggcctactcgaggtg	5	10	15	11	3	0	0	0	0	0	0	2	1	0	0	3	4	2	1	3	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:49842653G>T	uc002pnd.2	+	7	872	c.751G>T	c.(751-753)GGC>TGC	p.G251C	uc002pnb.1_Intron|CD37_uc002pnc.2_RNA|CD37_uc010yam.1_Missense_Mutation_p.G251C|CD37_uc010yan.1_Missense_Mutation_p.G183C|CD37_uc002pnf.3_Missense_Mutation_p.G223C|CD37_uc002pne.2_Missense_Mutation_p.G183C	NM_001774	NP_001765	P11049	CD37_HUMAN	CD37 antigen isoform A	251	Helical; (Potential).					integral to membrane					0		all_lung(116;2.81e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00088)|GBM - Glioblastoma multiforme(486;0.0443)		CATTTGCCTGGGCGTCGGCCT	0.602													8	315					0.00448238	0.00455878	0.004482	1	0		T	49842653	T	T	49842653	3	4	19	1	0	0	0	0	1	0	0	0	3011	1232	43	5	777	5	CD37	19	49842653	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	290667	49842653	9286330	2847	16360											
SLC17A7	57030	broad.mit.edu	37	chr19	49934663	49934663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggccacgcccttggagtgcGagtagccgaccaccaacagc	9	5	12	15	3	0	0	0	0	0	0	0	3	0	1	5	2	4	1	5	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:49934663G>A	uc002pnp.2	-	10	1365	c.1193C>T	c.(1192-1194)TCG>TTG	p.S398L	SLC17A7_uc002pno.2_Intron	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	398	Helical; (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		CTTGGAGTGCGAGTAGCCGAC	0.577													6	54					0	0	0.00308	0	0		A	49934663	A	A	49934663	3	1	19	1	0	0	0	0	1	0	0	0	14447	1059	37	1	501	1	SLC17A7	19	49934663	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	92010	49934663	9194320	2848	16361											
SCAF1	58506	broad.mit.edu	37	chr19	50155693	50155694	+	Frame_Shift_Ins	INS	-	G	G																															tgaccgcgacagccgccgccINSggggggccgtgccaccctcc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:50155693_50155694insG	uc002poq.2	+	7	2171_2172	c.2047_2048insG	c.(2047-2049)CGGfs	p.R683fs		NM_021228	NP_067051	Q9H7N4	SFR19_HUMAN	SR-related CTD-associated factor 1	683	Ser-rich.				mRNA processing|RNA splicing	nucleus	RNA binding				0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00113)|GBM - Glioblastoma multiforme(134;0.0204)		CAGCCGCCGCCGGGGGGCCGTG	0.604													6	13	---	---	---	---						.	G	50155694	G	G	50155693	7	5	19	1	0	1	1	0	0	0	0	0	13893	643	23	0	2069	0	SCAF1	19	50155693	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	221030	50155693	8973290	2849	16362											
TBC1D17	79735	broad.mit.edu	37	chr19	50386247	50386247	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtctgagccccagcctGcggcgcgaggcctggaagtt	6	6	16	13	3	1	1	0	1	1	0	1	3	1	2	4	4	3	1	4	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:50386247G>A	uc002pqo.2	+	9	1097	c.945G>A	c.(943-945)CTG>CTA	p.L315L	TBC1D17_uc010enn.1_RNA|TBC1D17_uc010ybg.1_Silent_p.L282L|TBC1D17_uc002pqp.2_5'UTR|TBC1D17_uc002pqq.1_RNA|TBC1D17_uc002pqr.2_5'UTR|TBC1D17_uc002pqs.2_RNA	NM_024682	NP_078958	Q9HA65	TBC17_HUMAN	TBC1 domain family, member 17	315	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0		all_lung(116;0.000338)|Lung NSC(112;0.000446)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.017)		GCCCCAGCCTGCGGCGCGAGG	0.637													21	52					0	0	0.00333	0	0		A	50386247	A	A	50386247	2	1	19	1	0	0	0	0	0	0	0	1	15631	1306	46	2		2	TBC1D17	19	50386247	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	230554	50386247	8742736	2850	16363											
ATF5	22809	broad.mit.edu	37	chr19	50436306	50436306	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacgtcaaggacctgctcaTcgaggtttacaaggcccgga	10	8	12	11	3	2	0	2	0	0	0	3	3	2	2	2	4	3	3	2	4	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:50436306T>C	uc010enq.1	+	4	1373	c.806T>C	c.(805-807)ATC>ACC	p.I269T	ATF5_uc002prd.2_Missense_Mutation_p.I269T	NM_012068	NP_036200	Q9Y2D1	ATF5_HUMAN	activating transcription factor 5	269					regulation of transcription from RNA polymerase II promoter	cytoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity	p.I269I(1)		skin(2)	2		all_lung(116;0.00318)|all_neural(266;0.107)|Ovarian(192;0.17)		GBM - Glioblastoma multiforme(134;0.00221)|OV - Ovarian serous cystadenocarcinoma(262;0.017)		GACCTGCTCATCGAGGTTTAC	0.647													12	31					0	0	0.001855	0	0		C	50436306	C	C	50436306	3	2	19	1	0	0	0	0	1	0	0	0	1084	1435	50	3	812	3	ATF5	19	50436306	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	50059	50436306	8692677	2851	16364											
C19orf41	126123	broad.mit.edu	37	chr19	50661547	50661547	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcagtactttttgtggatAcacttgggagtgatcctctg	9	14	11	7	0	1	1	0	1	1	0	2	3	2	3	1	2	3	2	1	2	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:50661547A>G	uc002prp.1	-	5	561	c.474T>C	c.(472-474)TGT>TGC	p.C158C		NM_152358	NP_689571	Q6UXV1	IZUM2_HUMAN	hypothetical protein LOC126123 precursor	158	Extracellular (Potential).					integral to membrane					0		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00364)|OV - Ovarian serous cystadenocarcinoma(262;0.0052)		TTTTGTGGATACACTTGGGAG	0.493													4	90					0	0	0.009096	0	0		G	50661547	G	G	50661547	2	3	19	1	0	0	0	0	0	0	0	1	1927	389	14	3		3	C19orf41	19	50661547	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	225241	50661547	8467436	2852	16365											
MYH14	79784	broad.mit.edu	37	chr19	50784930	50784930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcacggcgccgggcagcccGggaggccgaggccctgaccc	5	1	18	17	5	0	1	0	1	0	0	0	3	0	2	5	6	1	2	5	6	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:50784930G>A	uc002prr.1	+	31	4294	c.4247G>A	c.(4246-4248)CGG>CAG	p.R1416Q	MYH14_uc010enu.1_Missense_Mutation_p.R1457Q|MYH14_uc002prq.1_Missense_Mutation_p.R1424Q|MYH14_uc010ycb.1_Intron	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1416	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		CGGGCAGCCCGGGAGGCCGAG	0.741													6	17					0	0	0.001984	0	0		A	50784930	A	A	50784930	3	1	19	1	0	0	0	0	1	0	0	0	10051	1116	39	1	4496	1	MYH14	19	50784930	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	123383	50784930	8344053	2853	16366											
POLD1	5424	broad.mit.edu	37	chr19	50917010	50917010	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccgcaggtggtgtatggTgacactgactccgtcatgtg	6	10	14	11	3	1	2	1	2	0	0	2	2	2	2	2	3	0	2	2	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:50917010T>C	uc002psb.3	+	19	2318	c.2262T>C	c.(2260-2262)GGT>GGC	p.G754G	POLD1_uc002psc.3_Silent_p.G754G|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Silent_p.G780G	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	754					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		TGGTGTATGGTGACACTGACT	0.637								DNA_polymerases_(catalytic_subunits)					11	116					0	0	0.001855	0	0		C	50917010	C	C	50917010	2	2	19	1	0	0	0	0	0	0	0	1	12209	1683	59	3		3	POLD1	19	50917010	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	132080	50917010	8211973	2854	16367											
SHANK1	50944	broad.mit.edu	37	chr19	51169816	51169816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggggtcctgaacaagcacGcagggccagcagcccatcgg	9	3	16	13	2	0	1	0	1	0	0	2	1	1	1	3	5	4	3	3	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:51169816G>A	uc002psx.1	-	22	5420	c.5401C>T	c.(5401-5403)CGT>TGT	p.R1801C	SHANK1_uc002psw.1_Missense_Mutation_p.R1185C	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1801					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GAACAAGCACGCAGGGCCAGC	0.721													6	8					0	0	0.004482	0	0		A	51169816	A	A	51169816	3	1	19	1	0	0	0	0	1	0	0	0	14289	1087	38	1	1092	1	SHANK1	19	51169816	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	252806	51169816	7959167	2855	16368											
SHANK1	50944	broad.mit.edu	37	chr19	51171765	51171765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtggggatggggatggagTtcttctccgagggcgcggcc	4	9	20	8	3	2	0	0	0	2	0	3	4	2	3	2	8	0	1	2	8	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:51171765T>C	uc002psx.1	-	22	3471	c.3452A>G	c.(3451-3453)AAC>AGC	p.N1151S	SHANK1_uc002psw.1_Missense_Mutation_p.N535S	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1151					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GGGGATGGAGTTCTTCTCCGA	0.473													8	17					0	0	0.00308	0	0		C	51171765	C	C	51171765	3	2	19	1	0	0	0	0	1	0	0	0	14289	1725	60	3	3041	3	SHANK1	19	51171765	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1949	51171765	7957218	2856	16369											
SHANK1	50944	broad.mit.edu	37	chr19	51201124	51201124	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctctcctgagagcgatTcgccacttcttccaggcagt	6	12	9	14	2	2	1	0	1	2	1	5	3	3	1	3	1	2	2	3	1	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:51201124T>C	uc002psx.1	-	12	1856	c.1837A>G	c.(1837-1839)AAT>GAT	p.N613D		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	613	SH3.				cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		TGAGAGCGATTCGCCACTTCT	0.567													3	38					0	0	0.001168	0	0		C	51201124	C	C	51201124	3	2	19	1	0	0	0	0	1	0	0	0	14289	1783	62	3	4696	3	SHANK1	19	51201124	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	29359	51201124	7927859	2857	16370											
CTU1	90353	broad.mit.edu	37	chr19	51602381	51602381	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcacggtctccgccatgTcgtcggcgttgtgacctggt	4	11	14	12	5	1	2	0	2	1	0	4	2	1	2	3	3	1	2	3	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:51602381T>C	uc010eop.2	-	3	589	c.524A>G	c.(523-525)GAC>GGC	p.D175G		NM_145232	NP_660275	Q7Z7A3	CTU1_HUMAN	ATP binding domain 3	175					tRNA thio-modification|tRNA wobble uridine modification	cytosol	ATP binding|protein binding|transferase activity|tRNA binding				0						CTCCGCCATGTCGTCGGCGTT	0.453													3	7					0	0	0.001168	0	0		C	51602381	C	C	51602381	3	2	19	1	0	0	0	0	1	0	0	0	4050	1667	58	3	526	3	CTU1	19	51602381	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	401257	51602381	7526602	2858	16371											
HAS1	3036	broad.mit.edu	37	chr19	52216817	52216817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtaggcctcggctgcgcGggaagggccgctccagtcgg	4	6	19	12	5	0	0	0	0	0	0	3	1	1	1	3	6	1	3	3	6	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:52216817G>A	uc002pxo.1	-	5	1635	c.1600C>T	c.(1600-1602)CGC>TGC	p.R534C	HAS1_uc010epc.1_Missense_Mutation_p.R134C|HAS1_uc010epd.1_3'UTR|HAS1_uc002pxn.1_Missense_Mutation_p.R541C|HAS1_uc002pxp.1_Missense_Mutation_p.R533C	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1	534	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding			ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		TCGGCTGCGCGGGAAGGGCCG	0.726													4	1					0	0	0.009096	0	0		A	52216817	A	A	52216817	3	1	19	1	0	0	0	0	1	0	0	0	6977	1116	39	1	140	1	HAS1	19	52216817	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	614436	52216817	6912166	2859	16372											
ZNF577	84765	broad.mit.edu	37	chr19	52381737	52381737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccactcctccctggtgaagCccacagccacatcttcgaat	9	8	7	17	1	1	1	0	1	1	0	4	2	3	1	5	1	2	0	5	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:52381737C>T	uc010yde.1	-	5	483	c.92G>A	c.(91-93)GGC>GAC	p.G31D	ZNF577_uc010ydd.1_RNA|ZNF577_uc002pxx.3_Missense_Mutation_p.G31D|ZNF577_uc002pxv.2_Missense_Mutation_p.G24D|ZNF577_uc002pxw.2_Missense_Mutation_p.G24D	NM_032679	NP_116068	Q9BSK1	ZN577_HUMAN	zinc finger protein 577 isoform a	31	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		CCTGGTGAAGCCCACAGCCAC	0.453													21	63					0	0	0.005443	0	0		T	52381737	T	T	52381737	3	4	19	1	0	0	0	0	1	0	0	0	18034	739	26	2	1377	2	ZNF577	19	52381737	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	164920	52381737	6747246	2860	16373											
ZNF616	90317	broad.mit.edu	37	chr19	52619010	52619010	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgctgaaaactttgccacaTtcattgcatttataagcttt	12	16	5	8	0	1	1	1	1	0	0	1	1	1	1	1	0	5	3	1	0	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:52619010T>C	uc002pym.2	-	4	1690	c.1407A>G	c.(1405-1407)GAA>GAG	p.E469E	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	469	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		CTTTGCCACATTCATTGCATT	0.398													5	145					0	0	0.000602	0	0		C	52619010	C	C	52619010	2	2	19	1	0	0	0	0	0	0	0	1	18066	1490	52	3		3	ZNF616	19	52619010	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	237273	52619010	6509973	2861	16374											
ZNF480	147657	broad.mit.edu	37	chr19	52826015	52826015	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcacgacatcggaaaatTcatactggagagaaacctta	15	9	8	9	2	1	1	1	0	0	1	2	5	1	3	1	2	3	1	1	2	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:52826015T>C	uc010ydl.1	+	5	1582	c.1512T>C	c.(1510-1512)ATT>ATC	p.I504I	ZNF480_uc002pyv.2_Silent_p.I427I|ZNF480_uc010ydm.1_Silent_p.I461I|ZNF480_uc010epn.2_Silent_p.I335I|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	504	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		ATCGGAAAATTCATACTGGAG	0.403													19	82					0	0	0.006122	0	0		C	52826015	C	C	52826015	2	2	19	1	0	0	0	0	0	0	0	1	17960	1771	62	3		3	ZNF480	19	52826015	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	207005	52826015	6302968	2862	16375											
ZNF808	388558	broad.mit.edu	37	chr19	53057276	53057276	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacttcatactggagtgaaAccttacaaatgtaagatttg	15	12	8	6	0	1	3	1	1	0	2	1	4	1	4	1	1	3	1	1	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:53057276A>G	uc010epq.1	+	5	1284	c.1107A>G	c.(1105-1107)AAA>AAG	p.K369K	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	369					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		CTGGAGTGAAACCTTACAAAT	0.378													4	154					0	0	0.009096	0	0		G	53057276	G	G	53057276	2	3	19	1	0	0	0	0	0	0	0	1	18198	40	2	3		3	ZNF808	19	53057276	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	231261	53057276	6071707	2863	16376											
ZNF600	162966	broad.mit.edu	37	chr19	53270656	53270656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggatgttgaaaccgagggaGcatcactggtagacttctca	11	9	13	8	1	2	2	2	1	1	1	3	5	2	4	1	3	2	3	1	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:53270656G>A	uc002qab.3	-	3	639	c.353C>T	c.(352-354)GCT>GTT	p.A118V		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	118					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		AACCGAGGGAGCATCACTGGT	0.393													63	128					0	0	0.01441	0	0		A	53270656	A	A	53270656	3	1	19	1	0	0	0	0	1	0	0	0	18055	971	34	2	1819	2	ZNF600	19	53270656	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	213380	53270656	5858327	2864	16377											
ZNF320	162967	broad.mit.edu	37	chr19	53384245	53384245	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggtctctctccagtatgAactctctgatgttctgcaag	9	14	8	10	0	4	2	0	2	4	0	7	2	4	2	1	1	2	3	1	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:53384245A>G	uc002qag.2	-	4	1325	c.1134T>C	c.(1132-1134)GTT>GTC	p.V378V	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Silent_p.V324V|ZNF320_uc002qai.2_Silent_p.V378V	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	378	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		CTCCAGTATGAACTCTCTGAT	0.408													6	135					0	0	0.001168	0	0		G	53384245	G	G	53384245	2	3	19	1	0	0	0	0	0	0	0	1	17864	233	9	3		3	ZNF320	19	53384245	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	113589	53384245	5744738	2865	16378											
ZNF845	91664	broad.mit.edu	37	chr19	53854916	53854916	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagagaaatcttacaagtgtAatgaatgtggcaagaccttc	15	10	10	6	0	1	3	0	1	1	2	2	5	1	3	1	1	1	2	1	1	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:53854916A>G	uc010ydv.1	+	4	1105	c.988A>G	c.(988-990)AAT>GAT	p.N330D	ZNF845_uc010ydw.1_Missense_Mutation_p.N330D	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	330	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTACAAGTGTAATGAATGTGG	0.403													19	113					0	0	0.008871	0	0		G	53854916	G	G	53854916	3	3	19	1	0	0	0	0	1	0	0	0	18216	362	13	3	998	3	ZNF845	19	53854916	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	470671	53854916	5274067	2866	16379											
ZNF761	388561	broad.mit.edu	37	chr19	53957988	53957988	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatgcagggacattgcaaaTacatgaaagtcatcacaatg	16	8	8	9	0	2	1	2	1	0	0	2	2	2	2	1	1	3	2	1	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:53957988T>A	uc010eqp.2	+	7	685	c.227T>A	c.(226-228)ATA>AAA	p.I76K	ZNF761_uc010ydy.1_Missense_Mutation_p.I22K|ZNF761_uc002qbt.1_Missense_Mutation_p.I22K	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	76	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		ACATTGCAAATACATGAAAGT	0.378													27	80					0	0	0.005443	0	0		A	53957988	A	A	53957988	3	1	19	1	0	0	0	0	1	0	0	0	18161	1406	49	5	238	5	ZNF761	19	53957988	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	103072	53957988	5170995	2867	16380											
ZNF761	388561	broad.mit.edu	37	chr19	53959361	53959361	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcaagacctttagttggAagtcatcccttacctgccat	9	11	9	12	1	1	1	1	0	0	1	2	2	2	2	4	2	2	2	4	2	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:53959361A>G	uc010eqp.2	+	7	2058	c.1600A>G	c.(1600-1602)AAG>GAG	p.K534E	ZNF761_uc010ydy.1_Missense_Mutation_p.K480E|ZNF761_uc002qbt.1_Missense_Mutation_p.K480E	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	534	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		CTTTAGTTGGAAGTCATCCCT	0.443													21	161					0	0	0.00278	0	0		G	53959361	G	G	53959361	3	3	19	1	0	0	0	0	1	0	0	0	18161	247	9	3	1611	3	ZNF761	19	53959361	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1373	53959361	5169622	2868	16381											
NLRP12	91662	broad.mit.edu	37	chr19	54310804	54310804	+	Frame_Shift_Del	DEL	C	-	-																															tccttgacagagcagcttcaCcccccggctgcccagggcat																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:54310804delC	uc002qch.3	-	4	2408	c.2188delG	c.(2188-2190)GTGfs	p.V730fs	NLRP12_uc010eqw.2_5'UTR|NLRP12_uc002qci.3_Frame_Shift_Del_p.V730fs|NLRP12_uc002qcj.3_Frame_Shift_Del_p.V731fs|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Frame_Shift_Del_p.V731fs	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	730					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		AGCAGCTTCACCCCCCGGCTG	0.592													20	31	---	---	---	---						.	-	54310804	-	-	54310804	7	5	19	1	0	1	0	1	0	0	0	0	10493	507	18	0	1121	0	NLRP12	19	54310804	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	351443	54310804	4818179	2869	16382											
PRKCG	5582	broad.mit.edu	37	chr19	54401306	54401306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcggggcgagtccaggaCgcctgcacatctccgacttc	6	9	11	15	4	2	0	0	0	2	0	6	3	3	1	3	3	1	1	3	3	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:54401306C>T	uc002qcq.1	+	10	1315	c.1033C>T	c.(1033-1035)CGC>TGC	p.R345C	PRKCG_uc010yef.1_Silent_p.D315D|PRKCG_uc010yeg.1_Missense_Mutation_p.R345C|PRKCG_uc010yeh.1_Missense_Mutation_p.R232C	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	345					activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		GAGTCCAGGACGCCTGCACAT	0.493													22	65					0	0	0.014323	0	0		T	54401306	T	T	54401306	3	4	19	1	0	0	0	0	1	0	0	0	12534	536	19	1	1071	1	PRKCG	19	54401306	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	90502	54401306	4727677	2870	16383											
LILRB2	10288	broad.mit.edu	37	chr19	54783435	54783435	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acctgtgactcacactggagGgtcacccttcctcctgaggt	7	10	10	14	0	2	2	2	2	0	0	4	3	4	3	4	3	0	0	4	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:54783435G>T	uc002qfb.2	-	5	689	c.423C>A	c.(421-423)ACC>ACA	p.T141T	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Silent_p.T141T|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Silent_p.T141T|LILRB2_uc010yet.1_Silent_p.T25T|LILRB2_uc010yeu.1_RNA	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	141	Extracellular (Potential).|Ig-like C2-type 2.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CACACTGGAGGGTCACCCTTC	0.582													33	122					4.32679e-17	4.5917e-17	0.006999	1	0		T	54783435	T	T	54783435	2	4	19	1	0	0	0	0	0	0	0	1	8807	1219	43	5		5	LILRB2	19	54783435	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	382129	54783435	4345548	2871	16384											
LENG8	114823	broad.mit.edu	37	chr19	54966602	54966602	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgactggccccaggacatgaAagagtatgtggagcgctgct	10	8	14	9	1	0	3	0	2	0	1	0	5	0	5	2	3	2	3	2	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:54966602A>G	uc002qfv.1	+	7	914	c.770A>G	c.(769-771)AAA>AGA	p.K257R	LENG8_uc002qfw.2_Missense_Mutation_p.K294R			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	257							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		CAGGACATGAAAGAGTATGTG	0.647													6	78					0	0	0.001168	0	0		G	54966602	G	G	54966602	3	3	19	1	0	0	0	0	1	0	0	0	8740	14	1	3	907	3	LENG8	19	54966602	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	183167	54966602	4162381	2872	16385											
LILRA2	11027	broad.mit.edu	37	chr19	55085865	55085865	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggggagccttcaggctgaGgagtaccatctatataggga	11	8	14	8	0	2	1	1	1	1	0	2	4	2	4	2	5	2	2	2	5	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:55085865G>T	uc002qgg.3	+	3	257	c.168G>T	c.(166-168)GAG>GAT	p.E56D	LILRA2_uc010ern.2_Missense_Mutation_p.E56D|LILRA2_uc002qgf.2_Missense_Mutation_p.E56D|LILRA2_uc010yfe.1_Missense_Mutation_p.E56D|LILRA2_uc010yff.1_Missense_Mutation_p.E44D|LILRA2_uc010ero.2_Missense_Mutation_p.E44D|LILRA2_uc010yfg.1_Missense_Mutation_p.E56D	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	56	Extracellular (Potential).|Ig-like C2-type 1.				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		TTCAGGCTGAGGAGTACCATC	0.572													36	80					9.78485e-24	1.04387e-23	0.013726	1	0		T	55085865	T	T	55085865	3	4	19	1	0	0	0	0	1	0	0	0	8801	991	35	5	178	5	LILRA2	19	55085865	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	119263	55085865	4043118	2873	16386											
HSPBP1	23640	broad.mit.edu	37	chr19	55773978	55773978	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagaagccacctggtttcAccgatccatgctgtcgtccg	8	9	10	14	3	1	1	1	0	0	1	4	2	3	1	5	1	2	3	5	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:55773978A>G	uc002qjx.2	-	7	1326	c.1216T>C	c.(1216-1218)TGA>CGA	p.*406R	HSPBP1_uc002qjy.2_Nonstop_Mutation_p.*360R|HSPBP1_uc002qkb.2_3'UTR|HSPBP1_uc002qka.2_Nonstop_Mutation_p.*360R|HSPBP1_uc002qkd.2_Nonstop_Mutation_p.*360R|HSPBP1_uc002qkc.2_Nonstop_Mutation_p.*360R	NM_012267	NP_036399	Q9NZL4	HPBP1_HUMAN	hsp70-interacting protein	406					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding		enzyme inhibitor activity|protein binding				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		ACCTGGTTTCACCGATCCATG	0.622													9	14					0	0	0.010729	0	0		G	55773978	G	G	55773978	4	3	19	1	0	0	0	0	0	0	0	0	7442	172	6	3	5	3	HSPBP1	19	55773978	Nonstop_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	688113	55773978	3355005	2874	16387											
TMEM150B	284417	broad.mit.edu	37	chr19	55832401	55832401	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagcgacaggtagccccAcatgccgggctctgcaggtg	8	6	13	14	2	2	0	1	0	1	0	2	1	2	0	3	3	4	3	3	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:55832401A>G	uc010esw.1	-	3	177	c.4T>C	c.(4-6)TGG>CGG	p.W2R	TMEM150B_uc010yfu.1_Missense_Mutation_p.W2R|TMEM150B_uc010yfv.1_RNA|TMEM150B_uc010yfw.1_RNA|TMEM150B_uc002qki.2_Missense_Mutation_p.W2R	NM_001085488	NP_001078957	A6NC51	T150B_HUMAN	transmembrane protein 150B precursor	2						integral to membrane					0						AGGTAGCCCCACATGCCGGGC	0.562													11	35					0	0	0.013537	0	0		G	55832401	G	G	55832401	3	3	19	1	0	0	0	0	1	0	0	0	16093	159	6	3	721	3	TMEM150B	19	55832401	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	58423	55832401	3296582	2875	16388											
ZNF579	163033	broad.mit.edu	37	chr19	56089484	56089484	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggagagggcggctcttcctTaatgtttgcgaggggcagcg	6	9	17	9	4	1	1	0	0	1	1	2	3	2	1	1	5	2	3	1	5	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:56089484T>C	uc002qlh.2	-	2	1575	c.1522A>G	c.(1522-1524)AAG>GAG	p.K508E		NM_152600	NP_689813	Q8NAF0	ZN579_HUMAN	zinc finger protein 579	508	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.106)		GGCTCTTCCTTAATGTTTGCG	0.502													2	8					0	0	0.004672	0	0		C	56089484	C	C	56089484	3	2	19	1	0	0	0	0	1	0	0	0	18036	1763	61	3	170	3	ZNF579	19	56089484	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	257083	56089484	3039499	2876	16389											
NLRP9	338321	broad.mit.edu	37	chr19	56223792	56223792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtagatactcacccgagaCactctaatttacagtgagga	14	9	8	10	1	2	3	1	1	1	2	2	5	2	4	1	1	2	1	1	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:56223792C>T	uc002qly.2	-	7	2694	c.2666G>A	c.(2665-2667)TGT>TAT	p.C889Y		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	889	LRR 6.					cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		TCACCCGAGACACTCTAATTT	0.428													31	73					0	0	0.003271	0	0		T	56223792	T	T	56223792	3	4	19	1	0	0	0	0	1	0	0	0	10503	478	17	4	321	4	NLRP9	19	56223792	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	134308	56223792	2905191	2877	16390											
ZNF835	90485	broad.mit.edu	37	chr19	57175344	57175344	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccggtgtggatcttctggTgctctataagcgaggacacg	7	11	13	10	3	3	0	0	0	3	0	4	3	4	2	1	4	2	1	1	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:57175344T>C	uc010ygo.1	-	2	1289	c.1289A>G	c.(1288-1290)CAC>CGC	p.H430R	ZNF835_uc010ygn.1_Missense_Mutation_p.H408R	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						GATCTTCTGGTGCTCTATAAG	0.667													4	56					0	0	0.000602	0	0		C	57175344	C	C	57175344	3	2	19	1	0	0	0	0	1	0	0	0	18211	1696	59	3	392	3	ZNF835	19	57175344	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	951552	57175344	1953639	2878	16391											
ZNF835	90485	broad.mit.edu	37	chr19	57175421	57175421	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccgctcaccggtgtgcacGaggcggtgctggaggaggtg	5	6	20	10	4	1	0	1	0	0	0	1	3	1	2	2	7	2	3	2	7	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:57175421G>A	uc010ygo.1	-	2	1212	c.1212C>T	c.(1210-1212)CTC>CTT	p.L404L	ZNF835_uc010ygn.1_Silent_p.L382L	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						CGGTGTGCACGAGGCGGTGCT	0.667													11	28					0	0	0.001855	0	0		A	57175421	A	A	57175421	2	1	19	1	0	0	0	0	0	0	0	1	18211	1045	37	1		1	ZNF835	19	57175421	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	77	57175421	1953562	2879	16392											
ZNF460	10794	broad.mit.edu	37	chr19	57802980	57802980	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagcagcatgagcggatTcacactggtgagaagccctt	11	8	11	11	1	2	2	2	2	0	1	2	4	2	3	1	2	4	2	1	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:57802980T>C	uc002qog.2	+	3	1393	c.1071T>C	c.(1069-1071)ATT>ATC	p.I357I	ZNF460_uc010ygv.1_Silent_p.I316I	NM_006635	NP_006626	Q14592	ZN460_HUMAN	zinc finger protein 460	357	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ATGAGCGGATTCACACTGGTG	0.502													13	86					0	0	0.013537	0	0		C	57802980	C	C	57802980	2	2	19	1	0	0	0	0	0	0	0	1	17949	1771	62	3		3	ZNF460	19	57802980	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	627559	57802980	1326003	2880	16393											
ZNF17	7565	broad.mit.edu	37	chr19	57929356	57929356	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttaatgacgttcagagacAcctgcacagcgatgtgatgc	11	10	10	10	2	2	3	1	2	1	1	2	5	2	3	1	0	3	2	1	0	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:57929356A>G	uc002qoo.1	+	2	323	c.92A>G	c.(91-93)CAC>CGC	p.H31R	ZNF547_uc002qpm.3_Intron|ZNF17_uc002qop.1_Missense_Mutation_p.H33R	NM_006959	NP_008890	P17021	ZNF17_HUMAN	zinc finger protein 17	31	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0234)|GBM - Glioblastoma multiforme(193;0.000426)|Lung(386;0.176)		GTTCAGAGACACCTGCACAGC	0.453													9	254					0	0	0.008291	0	0		G	57929356	G	G	57929356	3	3	19	1	0	0	0	0	1	0	0	0	17768	159	6	3	98	3	ZNF17	19	57929356	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	126376	57929356	1199627	2881	16394											
ZNF749	388567	broad.mit.edu	37	chr19	57955159	57955160	+	Frame_Shift_Ins	INS	-	A	A																															acatgggctgtttgagcaccINSaaaaaacccataatggggag																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:57955159_57955160insA	uc002qoq.2	+	3	897_898	c.643_644insA	c.(643-645)CAAfs	p.Q215fs	ZNF547_uc002qpm.3_Intron	NM_001023561	NP_001018855	O43361	ZN749_HUMAN	zinc finger protein 749	215	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)|Lung(386;0.177)		GTTTGAGCACCAAAAAACCCAT	0.446													26	41	---	---	---	---						.	A	57955160	A	A	57955159	7	5	19	1	0	1	1	0	0	0	0	0	18156	595	21	0	653	0	ZNF749	19	57955159	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	25803	57955159	1173824	2882	16395											
ZNF773	374928	broad.mit.edu	37	chr19	58017804	58017804	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagttcaaacgttcagcAacaccagaagcagcactgtg	13	6	9	13	1	2	1	2	0	0	1	2	1	2	1	2	0	5	5	2	0	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:58017804A>G	uc002qox.2	+	4	481	c.341A>G	c.(340-342)CAA>CGA	p.Q114R	ZNF547_uc002qpm.3_Intron|ZNF773_uc002qoy.2_Missense_Mutation_p.Q113R|ZNF773_uc002qoz.2_Intron	NM_198542	NP_940944	Q6PK81	ZN773_HUMAN	zinc finger protein 773	114					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)		AACGTTCAGCAACACCAGAAG	0.498													7	95					0	0	0.001984	0	0		G	58017804	G	G	58017804	3	3	19	1	0	0	0	0	1	0	0	0	18171	130	5	3	355	3	ZNF773	19	58017804	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	62645	58017804	1111179	2883	16396											
ZNF587	84914	broad.mit.edu	37	chr19	58371166	58371166	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agagttcacactggagaaagGccatatgcgtgtgaggtatg	12	9	14	6	1	1	3	1	1	0	2	1	4	1	3	1	3	1	2	1	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:58371166G>A	uc002qql.2	+	3	1524	c.1386G>A	c.(1384-1386)AGG>AGA	p.R462R	ZNF587_uc002qqb.2_Silent_p.R419R|ZNF587_uc010yhh.1_Silent_p.R419R|ZNF587_uc002qqi.1_Silent_p.R419R|ZNF587_uc002qqj.1_RNA|ZNF814_uc002qqk.2_Intron|ZNF587_uc010yhk.1_Silent_p.R461R	NM_032828	NP_116217	Q96SQ5	ZN587_HUMAN	zinc finger protein 587	462					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)		CTGGAGAAAGGCCATATGCGT	0.428													13	264					0	0	0.013537	0	0		A	58371166	A	A	58371166	2	1	19	1	0	0	0	0	0	0	0	1	18045	1194	42	2		2	ZNF587	19	58371166	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	353362	58371166	757817	2884	16397											
ZNF814	730051	broad.mit.edu	37	chr19	58384561	58384561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgtgaactctctgatgtgCaatgagttggtacttgtttc	8	16	11	6	0	1	3	0	3	1	0	3	3	1	3	0	1	3	4	0	1	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:58384561C>T	uc002qqo.2	-	3	2469	c.2197G>A	c.(2197-2199)GCA>ACA	p.A733T	ZNF814_uc002qqk.2_Intron|ZNF814_uc010yhl.1_Intron	NM_001144989	NP_001138461	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	733	C2H2-type 19.				regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						CTCTGATGTGCAATGAGTTGG	0.393													16	21					0	0	0.00499	0	0		T	58384561	T	T	58384561	3	4	19	1	0	0	0	0	1	0	0	0	18201	710	25	2	374	2	ZNF814	19	58384561	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	13395	58384561	744422	2885	16398											
ZNF606	80095	broad.mit.edu	37	chr19	58490719	58490719	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagtccgttcatgtttcgtAagggctgagcgattcctaaa	9	13	11	8	3	1	2	1	2	0	0	4	3	3	2	2	1	1	4	2	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:58490719A>G	uc002qqw.2	-	7	1947	c.1329T>C	c.(1327-1329)CTT>CTC	p.L443L	ZNF606_uc010yhp.1_Silent_p.L353L	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	443	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		CATGTTTCGTAAGGGCTGAGC	0.363													16	25					0	0	0.00499	0	0		G	58490719	G	G	58490719	2	3	19	1	0	0	0	0	0	0	0	1	18057	349	13	3		3	ZNF606	19	58490719	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	106158	58490719	638264	2886	16399											
ZNF135	7694	broad.mit.edu	37	chr19	58578892	58578892	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacccagcatctgcgaaTccacactggggagaaaccct	11	6	8	16	1	2	1	1	0	1	1	3	3	3	1	4	2	3	1	4	2	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:58578892T>A	uc010yhq.1	+	5	1172	c.1076T>A	c.(1075-1077)ATC>AAC	p.I359N	ZNF135_uc002qre.2_Missense_Mutation_p.I347N|ZNF135_uc002qrd.1_Missense_Mutation_p.I305N|ZNF135_uc002qrf.2_Missense_Mutation_p.I305N|ZNF135_uc002qrg.2_Missense_Mutation_p.I317N|ZNF135_uc010yhr.1_Missense_Mutation_p.I168N	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	359					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		CATCTGCGAATCCACACTGGG	0.572													5	43					0	0	0.000602	0	0		A	58578892	A	A	58578892	3	1	19	1	0	0	0	0	1	0	0	0	17750	1435	50	5	1243	5	ZNF135	19	58578892	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	88173	58578892	550091	2887	16400											
ZNF544	27300	broad.mit.edu	37	chr19	58772421	58772424	+	Frame_Shift_Del	DEL	TGTT	-	-																															ggtactcacctcagagagacTgtttgctcaaagggaacatt																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:58772421_58772424delTGTT	uc010euo.2	+	7	923_926	c.449_452delTGTT	c.(448-453)CTGTTTfs	p.L150fs	ZNF544_uc010yhw.1_Intron|ZNF544_uc010yhx.1_Frame_Shift_Del_p.L122fs|ZNF544_uc010yhy.1_Frame_Shift_Del_p.L122fs|ZNF544_uc002qrt.3_Frame_Shift_Del_p.L8fs|ZNF544_uc002qru.3_Frame_Shift_Del_p.L8fs|uc002qrx.1_Intron	NM_014480	NP_055295	Q6NX49	ZN544_HUMAN	zinc finger protein 544	150_151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		all_cancers(17;4.17e-12)|all_epithelial(17;1.25e-08)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.17)|GBM - Glioblastoma multiforme(193;0.018)		TCAGAGAGACTGTTTGCTCAAAGG	0.446													35	68	---	---	---	---						.	-	58772424	-	-	58772421	7	5	19	1	0	1	0	1	0	0	0	0	18002	1580	55	0	463	0	ZNF544	19	58772421	Frame_Shift_Del	DEL	TGTT	TCGA-BR-4361-01A-01D-1158-08	193529	58772421	356562	2888	16401											
ZNF584	201514	broad.mit.edu	37	chr19	58926931	58926931	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtttacccagctggaGgatgatgaacagtcgtgggt	8	11	14	8	1	0	2	0	2	0	0	1	4	0	4	2	3	3	2	2	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:58926931G>T	uc002qsp.2	+	3	662	c.210G>T	c.(208-210)GAG>GAT	p.E70D	ZNF584_uc010yia.1_RNA|ZNF584_uc002qsr.2_Missense_Mutation_p.E25D|ZNF584_uc010yib.1_Missense_Mutation_p.E62D	NM_173548	NP_775819	Q8IVC4	ZN584_HUMAN	zinc finger protein 584	70	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;5.3e-17)|all_epithelial(17;3.71e-12)|Lung NSC(17;8.3e-05)|Colorectal(82;0.000147)|all_lung(17;0.000386)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0271)		CCCAGCTGGAGGATGATGAAC	0.463													36	80					6.03168e-27	6.45176e-27	0.004878	1	0		T	58926931	T	T	58926931	3	4	19	1	0	0	0	0	1	0	0	0	18041	991	35	5	220	5	ZNF584	19	58926931	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	154510	58926931	202052	2889	16402											
TBC1D20	128637	broad.mit.edu	37	chr20	422520	422520	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgaggtggtgggtagataAtttttctaccagggatgttg	8	14	14	5	0	1	2	0	1	1	1	1	3	1	3	2	4	1	2	2	4	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:422520A>T	uc002wds.2	-	4	643	c.505T>A	c.(505-507)TTA>ATA	p.L169I	TBC1D20_uc002wdv.2_5'UTR|TBC1D20_uc002wdt.2_RNA|TBC1D20_uc002wdu.2_RNA	NM_144628	NP_653229	Q96BZ9	TBC20_HUMAN	TBC1 domain family, member 20	169	Rab-GAP TBC.				interspecies interaction between organisms	integral to membrane|intracellular	Rab GTPase activator activity			central_nervous_system(1)	1		all_epithelial(17;0.228)|Breast(17;0.231)				TGGGTAGATAATTTTTCTACC	0.542													6	75					0	0	0.00308	0	0		T	422520	T	T	422520	3	4	19	1	0	0	0	0	1	0	0	0	15634	98	4	5	726	5	TBC1D20	20	422520	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08		422520	62603000	2890	16403											
NSFL1C	55968	broad.mit.edu	37	chr20	1424489	1424489	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgttcgggaaagtagtcaTgaggataaagctggtggcag	11	11	15	4	1	1	1	1	1	0	0	2	3	1	3	0	4	1	4	0	4	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:1424489T>C	uc002wfc.2	-	9	1966	c.1018A>G	c.(1018-1020)ATG>GTG	p.M340V	NSFL1C_uc002wfd.2_Missense_Mutation_p.M229V|NSFL1C_uc002wfe.2_Missense_Mutation_p.M309V|NSFL1C_uc002wff.2_RNA|NSFL1C_uc010gag.2_Missense_Mutation_p.M106V	NM_016143	NP_057227	Q9UNZ2	NSF1C_HUMAN	p47 protein isoform a	340	UBX.					chromosome|Golgi stack|nucleus	lipid binding|protein binding				0						AAAGTAGTCATGAGGATAAAG	0.567													8	22					0	0	0.008291	0	0		C	1424489	C	C	1424489	3	2	19	1	0	0	0	0	1	0	0	0	10691	1464	51	3	98	3	NSFL1C	20	1424489	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1001969	1424489	61601031	2891	16404											
TGM6	343641	broad.mit.edu	37	chr20	2398211	2398211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgccgtgaggctggggcCgcaagaaggtaagtgtacgc	9	5	16	11	4	0	2	0	1	0	1	0	2	0	2	3	4	1	4	3	4	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:2398211C>T	uc002wfy.1	+	10	1731	c.1670C>T	c.(1669-1671)CCG>CTG	p.P557L	TGM6_uc010gal.1_Missense_Mutation_p.P557L	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	557					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	AGGCTGGGGCCGCAAGAAGGT	0.592													6	16					0	0	0.001984	0	0		T	2398211	T	T	2398211	3	4	19	1	0	0	0	0	1	0	0	0	15859	652	23	1	1708	1	TGM6	20	2398211	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	973722	2398211	60627309	2892	16405											
SIGLEC1	6614	broad.mit.edu	37	chr20	3677372	3677372	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctttagcctggaaccgAccatgggatgggacctgggg	8	8	15	10	1	1	0	1	0	0	0	1	4	1	3	4	5	3	1	4	5	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:3677372A>G	uc002wja.2	-	10	2544	c.2544T>C	c.(2542-2544)GGT>GGC	p.G848G	SIGLEC1_uc002wiz.3_Silent_p.G848G	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	848	Ig-like C2-type 8.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						CCTGGAACCGACCATGGGATG	0.622													31	98					0	0	0.013726	0	0		G	3677372	G	G	3677372	2	3	19	1	0	0	0	0	0	0	0	1	14330	262	10	3		3	SIGLEC1	20	3677372	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1279161	3677372	59348148	2893	16406											
C20orf27	54976	broad.mit.edu	37	chr20	3735139	3735139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggacgccctctttgtgcGccgagtactcacacttgaca	8	10	10	13	3	2	2	1	2	1	0	2	4	2	3	2	1	2	1	2	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:3735139G>A	uc002wji.1	-	5	558	c.329C>T	c.(328-330)GCG>GTG	p.A110V	C20orf27_uc002wjf.1_3'UTR|C20orf27_uc002wjh.1_Missense_Mutation_p.A135V	NM_001039140	NP_001034229	Q9GZN8	CT027_HUMAN	hypothetical protein LOC54976	110											0						CTCTTTGTGCGCCGAGTACTC	0.642													38	71					0	0	0.011902	0	0		A	3735139	A	A	3735139	3	1	19	1	0	0	0	0	1	0	0	0	2110	1087	38	1	203	1	C20orf27	20	3735139	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	57767	3735139	59290381	2894	16407											
MAVS	57506	broad.mit.edu	37	chr20	3842924	3842924	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagagcaagccctgcagacGctcagccccagagccatccc	10	4	9	18	1	2	3	2	0	0	3	3	3	3	3	5	0	5	3	5	0	1	0	rs150835407		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:3842924G>A	uc002wjw.3	+	5	658	c.489G>A	c.(487-489)ACG>ACA	p.T163T	MAVS_uc010zqn.1_Missense_Mutation_p.A106T|MAVS_uc002wjx.3_Silent_p.T22T|MAVS_uc002wjy.3_5'UTR	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	163	Cytoplasmic (Probable).				activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0						CCCTGCAGACGCTCAGCCCCA	0.587													13	74					0	0	0.00245	0	0		A	3842924	A	A	3842924	2	1	19	1	0	0	0	0	0	0	0	1	9356	1074	38	1		1	MAVS	20	3842924	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	107785	3842924	59182596	2895	16408											
SLC23A2	9962	broad.mit.edu	37	chr20	4913147	4913147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgcctcgtcttcgtatttgCcttctgttgaacttccagcc	4	17	7	13	2	2	1	0	1	2	0	5	1	3	1	4	0	4	2	4	0	2	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:4913147C>T	uc002wlg.1	-	3	437	c.62G>A	c.(61-63)GGC>GAC	p.G21D	SLC23A2_uc010zqr.1_Missense_Mutation_p.G20D|SLC23A2_uc002wlh.1_Missense_Mutation_p.G21D|SLC23A2_uc002wli.2_Missense_Mutation_p.G20D|SLC23A2_uc002wlj.1_RNA	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	21					L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						TTCGTATTTGCCTTCTGTTGA	0.428													10	126					0	0	0.010729	0	0		T	4913147	T	T	4913147	3	4	19	1	0	0	0	0	1	0	0	0	14488	739	26	2	1950	2	SLC23A2	20	4913147	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1070223	4913147	58112373	2896	16409											
PROKR2	128674	broad.mit.edu	37	chr20	5294607	5294607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggagacgtagagggagaCggtgcgcaggtagttgacgg	9	6	21	5	4	0	4	0	1	0	3	0	6	0	4	0	6	1	4	0	6	2	3	rs139259742		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:5294607C>T	uc010zqw.1	-	1	409	c.409G>A	c.(409-411)GTC>ATC	p.V137I	PROKR2_uc010zqx.1_Missense_Mutation_p.V137I|PROKR2_uc010zqy.1_Missense_Mutation_p.V137I|uc002wly.1_5'Flank	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	137	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						TAGAGGGAGACGGTGCGCAGG	0.607										HNSCC(71;0.22)			12	23					0	0	0.001855	0	0		T	5294607	T	T	5294607	3	4	19	1	0	0	0	0	1	0	0	0	12575	536	19	1	752	1	PROKR2	20	5294607	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	381460	5294607	57730913	2897	16410											
GPCPD1	56261	broad.mit.edu	37	chr20	5554591	5554591	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatttcttaaagaagcaatAgtattttcttgaactttagc	13	16	6	6	0	2	2	0	1	2	1	2	2	2	2	0	0	3	3	0	0	8	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:5554591A>G	uc002wme.3	-	11	1239	c.1026T>C	c.(1024-1026)ACT>ACC	p.T342T	GPCPD1_uc002wmd.3_Silent_p.T161T	NM_019593	NP_062539	Q9NPB8	GPCP1_HUMAN	hypothetical protein LOC56261	342	GDPD.				glycerol metabolic process|lipid metabolic process		carbohydrate binding|glycerophosphodiester phosphodiesterase activity				0						AAGAAGCAATAGTATTTTCTT	0.338													3	106					0	0	0.004672	0	0		G	5554591	G	G	5554591	2	3	19	1	0	0	0	0	0	0	0	1	6618	407	15	3		3	GPCPD1	20	5554591	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	259984	5554591	57470929	2898	16411											
LRRN4	164312	broad.mit.edu	37	chr20	6022631	6022631	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccgtgcatcgctgtgcggCcatgcagctatcgtgcgaga	6	9	13	13	5	0	1	0	0	0	1	3	2	1	1	2	1	5	4	2	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:6022631C>T	uc002wmo.2	-	5	1484	c.1260G>A	c.(1258-1260)TGG>TGA	p.W420*		NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	420	Extracellular (Potential).					integral to membrane				skin(3)	3						CGCTGTGCGGCCATGCAGCTA	0.682													19	59					0	0	0.008871	0	0		T	6022631	T	T	6022631	4	4	19	1	0	0	0	0	0	1	0	0	9055	740	26	2	966	2	LRRN4	20	6022631	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	468040	6022631	57002889	2899	16412											
PLCB4	5332	broad.mit.edu	37	chr20	9454009	9454009	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctagagaaacagaatgaGcaggtattttacctaaaata	17	11	7	6	0	0	3	0	1	0	2	1	4	1	3	2	1	3	2	2	1	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:9454009G>A	uc002wnf.2	+	36	3592	c.3456G>A	c.(3454-3456)GAG>GAA	p.E1152E	PLCB4_uc010gbx.2_Silent_p.E1164E|PLCB4_uc002wne.2_Silent_p.E1152E|PLCB4_uc002wnh.2_Silent_p.E999E	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	1152					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						AACAGAATGAGCAGGTATTTT	0.403													23	38					0	0	0.014323	0	0		A	9454009	A	A	9454009	2	1	19	1	0	0	0	0	0	0	0	1	12049	962	34	2		2	PLCB4	20	9454009	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3431378	9454009	53571511	2900	16413											
ESF1	51575	broad.mit.edu	37	chr20	13740434	13740434	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcctgtatttagcaattTgttcttcatcatccttctga	7	18	6	10	0	4	1	2	1	2	0	5	1	5	1	2	0	2	4	2	0	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:13740434T>A	uc002woj.2	-	9	1841	c.1733A>T	c.(1732-1734)CAA>CTA	p.Q578L	ESF1_uc002wok.1_Missense_Mutation_p.Q578L	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	578	Lys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						TTTAGCAATTTGTTCTTCATC	0.328													10	31					0	0	0.008291	0	0		A	13740434	A	A	13740434	3	1	19	1	0	0	0	0	1	0	0	0	5259	1812	63	5	846	5	ESF1	20	13740434	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	4286425	13740434	49285086	2901	16414											
ESF1	51575	broad.mit.edu	37	chr20	13763447	13763447	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccttcttggtttctttctTtttctcaactagattttttg	5	23	5	8	0	4	1	1	0	4	1	5	1	4	1	1	1	2	1	1	1	2	10			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:13763447T>C	uc002woj.2	-	2	448	c.340A>G	c.(340-342)AAG>GAG	p.K114E	ESF1_uc002wok.1_Missense_Mutation_p.K114E|C20orf7_uc002wol.1_5'Flank|C20orf7_uc002wom.2_5'Flank|C20orf7_uc002won.2_5'Flank|C20orf7_uc002woo.2_5'Flank	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	114	Lys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						GTTTCTTTCTTTTTCTCAACT	0.279													3	42					0	0	0.009096	0	0		C	13763447	C	C	13763447	3	2	19	1	0	0	0	0	1	0	0	0	5259	1850	64	3	2267	3	ESF1	20	13763447	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	23013	13763447	49262073	2902	16415											
SEL1L2	80343	broad.mit.edu	37	chr20	13868465	13868465	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcaacttcacaattctgtAgaacattgattcccgacaaa	14	10	7	10	1	2	2	1	1	1	1	3	3	3	2	1	1	2	2	1	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:13868465A>G	uc010gcf.2	-	8	777	c.695T>C	c.(694-696)CTA>CCA	p.L232P	SEL1L2_uc002woq.3_Missense_Mutation_p.L93P|SEL1L2_uc010zrl.1_Missense_Mutation_p.L232P|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	232	Sel1-like 4.|Extracellular (Potential).					integral to membrane	binding			ovary(2)	2						ACAATTCTGTAGAACATTGAT	0.318													12	140					0	0	0.001855	0	0		G	13868465	G	G	13868465	3	3	19	1	0	0	0	0	1	0	0	0	14036	420	15	3	1423	3	SEL1L2	20	13868465	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	105018	13868465	49157055	2903	16416											
SEL1L2	80343	broad.mit.edu	37	chr20	13912277	13912277	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatttctcttcaagatatcTttattttgaattccttttat	9	24	2	6	0	3	2	1	1	2	1	5	2	4	2	1	0	0	0	1	0	6	11			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:13912277T>C	uc010gcf.2	-	3	337	c.255A>G	c.(253-255)AAA>AAG	p.K85K	SEL1L2_uc002woq.3_5'UTR|SEL1L2_uc010zrl.1_Silent_p.K85K|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	85	Extracellular (Potential).					integral to membrane	binding			ovary(2)	2						TCAAGATATCTTTATTTTGAA	0.249													5	10					0	0	0.000602	0	0		C	13912277	C	C	13912277	2	2	19	1	0	0	0	0	0	0	0	1	14036	1606	56	3		3	SEL1L2	20	13912277	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	43812	13912277	49113243	2904	16417											
KIF16B	55614	broad.mit.edu	37	chr20	16488730	16488730	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtcaccataattctgtactAaatgtttggataaatctgaa	14	14	6	7	1	3	1	1	1	2	0	3	2	3	2	1	1	1	2	1	1	7	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:16488730A>G	uc002wpg.1	-	7	730	c.572T>C	c.(571-573)TTA>TCA	p.L191S	KIF16B_uc010gch.1_Missense_Mutation_p.L191S|KIF16B_uc010gci.1_Missense_Mutation_p.L191S|KIF16B_uc010gcj.1_Missense_Mutation_p.L191S	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	191	Kinesin-motor.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						ATTCTGTACTAAATGTTTGGA	0.403													4	250					0	0	0.000602	0	0		G	16488730	G	G	16488730	3	3	19	1	0	0	0	0	1	0	0	0	8294	372	13	3	3461	3	KIF16B	20	16488730	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2576453	16488730	46536790	2905	16418											
SNRPB2	6629	broad.mit.edu	37	chr20	16721539	16721539	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaccagggaggcatgacatTgcttttgttgaatttgaaaa	12	13	11	5	0	0	3	0	3	0	0	0	4	0	4	1	2	2	4	1	2	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:16721539T>C	uc002wph.1	+	7	783	c.567T>C	c.(565-567)ATT>ATC	p.I189I	SNRPB2_uc002wpi.1_Silent_p.I189I	NM_003092	NP_003083	P08579	RU2B_HUMAN	small nuclear ribonucleoprotein polypeptide B''	189	RRM 2.					catalytic step 2 spliceosome|nucleoplasm|U2 snRNP	nucleotide binding|protein binding|RNA binding			large_intestine(1)	1						GGCATGACATTGCTTTTGTTG	0.428													8	87					0	0	0.004482	0	0		C	16721539	C	C	16721539	2	2	19	1	0	0	0	0	0	0	0	1	14887	1800	63	3		3	SNRPB2	20	16721539	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	232809	16721539	46303981	2906	16419											
RBBP9	10741	broad.mit.edu	37	chr20	18476496	18476496	+	Frame_Shift_Del	DEL	T	-	-																															acttacttgggtcgggcatgTttttagccaaacactggaaa																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:18476496delT	uc002wqy.2	-	2	204	c.128delA	c.(127-129)AACfs	p.N43fs		NM_006606	NP_006597	O75884	RBBP9_HUMAN	retinoblastoma binding protein 9	43						cytoplasm|nucleus	hydrolase activity			haematopoietic_and_lymphoid_tissue(1)	1						GTCGGGCATGTTTTTAGCCAA	0.328													27	55	---	---	---	---						.	-	18476496	-	-	18476496	7	5	19	1	0	1	0	1	0	0	0	0	13131	1725	60	0	448	0	RBBP9	20	18476496	Frame_Shift_Del	DEL	T	TCGA-BR-4361-01A-01D-1158-08	1754957	18476496	44549024	2907	16420											
CRNKL1	51340	broad.mit.edu	37	chr20	20018070	20018070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaattcttcttcaaaacttCgccaagattccagcagcata	14	11	4	12	1	3	1	1	0	2	1	5	1	4	1	2	0	3	2	2	0	5	6	rs141413150		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:20018070C>T	uc002wrs.2	-	14	2308	c.2276G>A	c.(2275-2277)CGA>CAA	p.R759Q		NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	759	HAT 15.				spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						TTCAAAACTTCGCCAAGATTC	0.393													109	247					0	0	0.01441	0	0		T	20018070	T	T	20018070	3	4	19	1	0	0	0	0	1	0	0	0	3894	884	31	1	278	1	CRNKL1	20	20018070	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1541574	20018070	43007450	2908	16421											
C20orf26	26074	broad.mit.edu	37	chr20	20180469	20180469	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcattacttggttcccgtgCgaccacgacgacagattgtc	8	12	9	12	4	1	1	1	0	0	1	3	4	2	1	2	1	2	1	2	1	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:20180469C>T	uc002wru.2	+	17	1931	c.1855C>T	c.(1855-1857)CGA>TGA	p.R619*	C20orf26_uc010zse.1_Nonsense_Mutation_p.R599*	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	619										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GGTTCCCGTGCGACCACGACG	0.532													82	161					0	0	0.01441	0	0		T	20180469	T	T	20180469	4	4	19	1	0	0	0	0	0	1	0	0	2109	760	27	1	1949	1	C20orf26	20	20180469	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	162399	20180469	42845051	2909	16422											
XRN2	22803	broad.mit.edu	37	chr20	21307158	21307158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatgaagatgaaatgatGgttgcaatttttgagtacat	17	13	9	2	0	0	5	0	4	0	1	0	5	0	5	0	1	2	3	0	1	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:21307158G>A	uc002wsf.1	+	3	329	c.234G>A	c.(232-234)ATG>ATA	p.M78I	XRN2_uc002wsg.1_Missense_Mutation_p.M2I|XRN2_uc010zsk.1_Missense_Mutation_p.M24I	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	78					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						ATGAAATGATGGTTGCAATTT	0.318													10	69					0	0	0.008291	0	0		A	21307158	A	A	21307158	3	1	19	1	0	0	0	0	1	0	0	0	17486	1348	47	4	244	4	XRN2	20	21307158	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1126689	21307158	41718362	2910	16423											
PAX1	5075	broad.mit.edu	37	chr20	21687619	21687619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccggggtcccgggcacggCgggccacgtcagcatcccgc	4	3	15	19	6	1	0	1	0	0	0	3	0	3	0	5	5	1	2	5	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:21687619C>T	uc002wsj.2	+	2	884	c.830C>T	c.(829-831)GCG>GTG	p.A277V	PAX1_uc010zsl.1_Missense_Mutation_p.A277V|PAX1_uc010zsm.1_Missense_Mutation_p.A253V	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	277					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						CCGGGCACGGCGGGCCACGTC	0.667													19	15					0	0	0.007413	0	0		T	21687619	T	T	21687619	3	4	19	1	0	0	0	0	1	0	0	0	11497	768	27	1	836	1	PAX1	20	21687619	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	380461	21687619	41337901	2911	16424											
SSTR4	6754	broad.mit.edu	37	chr20	23016853	23016853	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgcgccgtggccctgcgcGctggctggcagcagcgcagg	3	5	18	15	6	0	0	0	0	0	0	0	0	0	0	2	4	4	5	2	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:23016853G>A	uc002wsr.2	+	1	797	c.733G>A	c.(733-735)GCT>ACT	p.A245T		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	245	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GGCCCTGCGCGCTGGCTGGCA	0.627													20	77					0	0	0.007291	0	0		A	23016853	A	A	23016853	3	1	19	1	0	0	0	0	1	0	0	0	15225	1087	38	1	735	1	SSTR4	20	23016853	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1329234	23016853	40008667	2912	16425											
CST11	140880	broad.mit.edu	37	chr20	23433295	23433295	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttgttatactggtcggTgatccactgcaagctgtcct	6	15	9	11	1	0	1	0	1	0	0	4	1	3	1	3	2	3	3	3	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:23433295T>C	uc002wtf.1	-	1	188	c.154A>G	c.(154-156)ACC>GCC	p.T52A	CST11_uc002wtg.1_Missense_Mutation_p.T52A	NM_130794	NP_570612	Q9H112	CST11_HUMAN	cystatin 11 isoform 1 precursor	52					defense response to bacterium	cytoplasm|nucleus	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					TACTGGTCGGTGATCCACTGC	0.493													75	192					0	0	0.01441	0	0		C	23433295	C	C	23433295	3	2	19	1	0	0	0	0	1	0	0	0	3974	1696	59	3	274	3	CST11	20	23433295	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	416442	23433295	39592225	2913	16426											
CST8	10047	broad.mit.edu	37	chr20	23473656	23473656	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcagcgattgcagaaagcCtttaagcactaatgaaatct	14	9	8	10	2	1	2	0	1	1	1	1	3	1	2	2	0	4	3	2	0	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:23473656C>A	uc002wth.1	+	3	650	c.293C>A	c.(292-294)CCT>CAT	p.P98H		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	98						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					TGCAGAAAGCCTTTAAGCACT	0.423													11	226					6.40141e-05	6.55816e-05	0.010729	1	0		A	23473656	A	A	23473656	3	1	19	1	0	0	0	0	1	0	0	0	3981	681	24	5	299	5	CST8	20	23473656	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	40361	23473656	39551864	2914	16427											
CST9L	128821	broad.mit.edu	37	chr20	23548916	23548916	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccttgctctgttggttgaAtgtgtggacagcaaactcca	8	13	11	9	0	1	1	0	1	1	0	3	2	3	2	2	2	3	4	2	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:23548916A>G	uc002wtk.3	-	1	471	c.172T>C	c.(172-174)TTC>CTC	p.F58L		NM_080610	NP_542177	Q9H4G1	CST9L_HUMAN	cystatin 9-like precursor	58						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					TGTTGGTTGAATGTGTGGACA	0.527													4	54					0	0	0.001168	0	0		G	23548916	G	G	23548916	3	3	19	1	0	0	0	0	1	0	0	0	3983	101	4	3	283	3	CST9L	20	23548916	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	75260	23548916	39476604	2915	16428											
ZNF337	26152	broad.mit.edu	37	chr20	25657018	25657018	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgttgtatgaggacttatcGttaaaccttcgcccacactc	9	14	7	11	2	0	1	0	1	0	0	3	2	0	2	2	1	1	3	2	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:25657018G>A	uc002wva.2	-	4	1428	c.906C>T	c.(904-906)AAC>AAT	p.N302N	uc002wuz.2_RNA|ZNF337_uc010ztg.1_Silent_p.N270N|ZNF337_uc002wvb.2_Silent_p.N302N|ZNF337_uc002wvc.2_Silent_p.N302N	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	302	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGGACTTATCGTTAAACCTTC	0.483													8	235					0	0	0.004482	0	0		A	25657018	A	A	25657018	2	1	19	1	0	0	0	0	0	0	0	1	17878	1136	40	1		1	ZNF337	20	25657018	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2108102	25657018	37368502	2916	16429											
MYLK2	85366	broad.mit.edu	37	chr20	30421541	30421541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaacttcattgctgtcagcGctgccaaccgcttcaagaag	12	9	8	12	2	3	1	3	0	0	1	3	1	3	1	2	0	5	3	2	0	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:30421541G>A	uc002wwq.2	+	13	1834	c.1732G>A	c.(1732-1734)GCT>ACT	p.A578T	MYLK2_uc002wws.2_Missense_Mutation_p.A195T|MYLK2_uc010gdw.1_RNA	NM_033118	NP_149109	Q9H1R3	MYLK2_HUMAN	skeletal myosin light chain kinase	578	Calmodulin-binding (By similarity).				cardiac muscle tissue morphogenesis|regulation of muscle filament sliding		ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			lung(2)|skin(2)|ovary(1)|central_nervous_system(1)	6			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			TGCTGTCAGCGCTGCCAACCG	0.612											OREG0025857	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	40	54					0	0	0.011902	0	0		A	30421541	A	A	30421541	3	1	19	1	0	0	0	0	1	0	0	0	10075	1087	38	1	1778	1	MYLK2	20	30421541	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4764523	30421541	32603979	2917	16430											
DUSP15	128853	broad.mit.edu	37	chr20	30436221	30436221	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccttcagcgggtacaagAagaggaagcggctcgcttag	10	7	14	10	3	1	2	1	0	0	2	2	3	1	3	1	3	4	3	1	3	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:30436221A>G	uc002wwu.1	-	10	951	c.874T>C	c.(874-876)TCT>CCT	p.S292P	FOXS1_uc002wwt.1_5'Flank			Q9H1R2	DUS15_HUMAN	RecName: Full=Dual specificity protein phosphatase 15;          EC=3.1.3.48;          EC=3.1.3.16; AltName: Full=Vaccinia virus VH1-related dual-specific protein phosphatase Y; AltName: Full=VH1-related member Y;	292						cytoplasm|plasma membrane	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			CGGGTACAAGAAGAGGAAGCG	0.632													14	43					0	0	0.014323	0	0		G	30436221	G	G	30436221	3	3	19	1	0	0	0	0	1	0	0	0	4821	261	9	3		3	DUSP15	20	30436221	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	14680	30436221	32589299	2918	16431											
HCK	3055	broad.mit.edu	37	chr20	30681809	30681809	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgaggacaacgagtacacGgctcgggaaggtagggaacg	13	5	16	7	4	0	1	0	1	0	0	1	5	0	4	0	5	3	3	0	5	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:30681809G>T	uc002wxh.2	+	11	1407	c.1236G>T	c.(1234-1236)ACG>ACT	p.T412T	HCK_uc010gdy.2_Silent_p.T391T|HCK_uc002wxi.2_Silent_p.T390T	NM_002110	NP_002101	P08631	HCK_HUMAN	hemopoietic cell kinase isoform p61HCK	412	Protein kinase.				interspecies interaction between organisms|mesoderm development|regulation of defense response to virus by virus|viral reproduction	caveola|cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|ovary(2)|central_nervous_system(2)|pancreas(1)	9			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			ACGAGTACACGGCTCGGGAAG	0.542													45	98					5.13769e-22	5.46339e-22	0.01441	1	0		T	30681809	T	T	30681809	2	4	19	1	0	0	0	0	0	0	0	1	7010	1103	39	5		5	HCK	20	30681809	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	245588	30681809	32343711	2919	16432											
ASXL1	171023	broad.mit.edu	37	chr20	31021711	31021711	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaggagcccaaagtcccGcccatccgggtaggagactg	12	4	13	12	2	0	2	0	0	0	2	2	4	2	3	4	3	1	1	4	3	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:31021711G>A	uc002wxs.2	+	11	2136	c.1710G>A	c.(1708-1710)CCG>CCA	p.P570P	ASXL1_uc010geb.2_Silent_p.P461P	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	570					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						CCAAAGTCCCGCCCATCCGGG	0.517			F|N|Mis		MDS|CMML								43	101					0	0	0.013114	0	0		A	31021711	A	A	31021711	2	1	19	1	0	0	0	0	0	0	0	1	1067	1074	38	1		1	ASXL1	20	31021711	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	339902	31021711	32003809	2920	16433											
ASXL1	171023	broad.mit.edu	37	chr20	31024634	31024634	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaagaatgagaagactttTgtggggggtcctcttaaggc	10	11	14	6	0	2	3	1	1	1	3	3	4	3	3	1	4	0	0	1	4	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:31024634T>C	uc002wxs.2	+	12	4545	c.4119T>C	c.(4117-4119)TTT>TTC	p.F1373F	ASXL1_uc010geb.2_Silent_p.F1264F	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	1373					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						AGAAGACTTTTGTGGGGGGTC	0.532			F|N|Mis		MDS|CMML								25	75					0	0	0.004656	0	0		C	31024634	C	C	31024634	2	2	19	1	0	0	0	0	0	0	0	1	1067	1809	63	3		3	ASXL1	20	31024634	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2923	31024634	32000886	2921	16434											
SUN5	140732	broad.mit.edu	37	chr20	31573693	31573693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctcaaaggcccagcaattgCcaggtgtcacgttgggctag	9	8	12	12	1	2	0	2	0	0	0	2	0	2	0	3	3	2	3	3	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:31573693C>T	uc002wyi.2	-	11	839	c.746G>A	c.(745-747)GGC>GAC	p.G249D		NM_080675	NP_542406	Q8TC36	SUN5_HUMAN	sperm associated antigen 4-like	249	SUN.				spermatogenesis					skin(1)	1						CCAGCAATTGCCAGGTGTCAC	0.552													25	41					0	0	0.007291	0	0		T	31573693	T	T	31573693	3	4	19	1	0	0	0	0	1	0	0	0	15419	739	26	2	405	2	SUN5	20	31573693	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	549059	31573693	31451827	2922	16435											
BPIL3	128859	broad.mit.edu	37	chr20	31624279	31624279	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgggccagatgggcacCgtcaaatatgttctgatgtc	8	11	12	10	1	2	2	1	1	1	1	3	2	2	2	3	2	0	2	3	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:31624279C>T	uc010zuc.1	+	7	606	c.606C>T	c.(604-606)ACC>ACT	p.T202T	BPIL3_uc010zud.1_Silent_p.T141T	NM_174897	NP_777557	Q8NFQ5	BPIL3_HUMAN	bactericidal/permeability-increasing	202						extracellular region	lipid binding			ovary(1)|pancreas(1)	2						AGATGGGCACCGTCAAATATG	0.587													68	135					0	0	0.01441	0	0		T	31624279	T	T	31624279	2	4	19	1	0	0	0	0	0	0	0	1	1496	639	23	1		1	BPIL3	20	31624279	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	50586	31624279	31401241	2923	16436											
MYH7B	57644	broad.mit.edu	37	chr20	33577634	33577634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctctacgacaaccacgCggggaagtcacccaatttcc	12	6	8	15	3	2	0	1	0	1	0	3	2	3	1	3	2	3	1	3	2	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:33577634C>T	uc002xbi.1	+	18	1897	c.1805C>T	c.(1804-1806)GCG>GTG	p.A602V	MIR499_hsa-mir-499|MI0003183_5'Flank	NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	560	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			GACAACCACGCGGGGAAGTCA	0.612													22	36					0	0	0.00333	0	0		T	33577634	T	T	33577634	3	4	19	1	0	0	0	0	1	0	0	0	10058	768	27	1	1875	1	MYH7B	20	33577634	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1953355	33577634	29447886	2924	16437											
EDEM2	55741	broad.mit.edu	37	chr20	33722673	33722673	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcccaatccctgccgtacaGgtgacaggggtctctcctgg	6	9	12	14	1	1	1	0	1	1	0	5	1	4	1	4	4	2	1	4	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:33722673G>A	uc002xbo.2	-	6	670	c.570C>T	c.(568-570)ACC>ACT	p.T190T	EDEM2_uc010zuv.1_Silent_p.T149T|EDEM2_uc010zus.1_5'UTR|EDEM2_uc002xbq.2_Silent_p.T153T|EDEM2_uc010zut.1_Silent_p.T149T|EDEM2_uc002xbp.2_Silent_p.T38T|EDEM2_uc002xbn.2_Silent_p.T38T|EDEM2_uc002xbr.2_RNA|EDEM2_uc010zuu.1_Intron	NM_018217	NP_060687	Q9BV94	EDEM2_HUMAN	ER degradation enhancer, mannosidase alpha-like	190					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00936)			CTGCCGTACAGGTGACAGGGG	0.527													21	55					0	0	0.00333	0	0		A	33722673	A	A	33722673	2	1	19	1	0	0	0	0	0	0	0	1	4918	987	35	4		4	EDEM2	20	33722673	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	145039	33722673	29302847	2925	16438											
CEP250	11190	broad.mit.edu	37	chr20	34060621	34060621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaggctcttactctggtgCgttcagtgctgactcggaga	8	11	12	10	2	3	2	1	1	2	1	4	3	3	2	0	3	3	3	0	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:34060621C>T	uc002xcm.2	+	13	1845	c.1174C>T	c.(1174-1176)CGT>TGT	p.R392C	CEP250_uc010zve.1_5'UTR|CEP250_uc010zvd.1_RNA	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	392					centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			TACTCTGGTGCGTTCAGTGCT	0.512													61	133					0	0	0.01441	0	0		T	34060621	T	T	34060621	3	4	19	1	0	0	0	0	1	0	0	0	3255	768	27	1	1208	1	CEP250	20	34060621	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	337948	34060621	28964899	2926	16439											
PHF20	51230	broad.mit.edu	37	chr20	34519240	34519240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacatatgcatggcctggCatttctagaagagaactact	12	10	11	8	0	1	2	0	0	1	2	1	4	1	3	1	3	3	2	1	3	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:34519240C>T	uc002xek.1	+	15	2285	c.2174C>T	c.(2173-2175)GCA>GTA	p.A725V		NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	725					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					CATGGCCTGGCATTTCTAGAA	0.507													10	75					0	0	0.008291	0	0		T	34519240	T	T	34519240	3	4	19	1	0	0	0	0	1	0	0	0	11850	710	25	2	2228	2	PHF20	20	34519240	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	458619	34519240	28506280	2927	16440											
C20orf4	25980	broad.mit.edu	37	chr20	34827850	34827850	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttctttgaaggggccacTgtggtcatcctgaacatgcc	7	12	10	12	0	3	2	1	2	2	0	4	2	4	2	3	3	2	0	3	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:34827850T>C	uc002xfc.1	+	2	153	c.60T>C	c.(58-60)ACT>ACC	p.T20T	C20orf4_uc002xfd.1_Silent_p.T20T|C20orf4_uc002xfe.1_Silent_p.T20T	NM_015511	NP_056326	Q9Y312	CT004_HUMAN	hypothetical protein LOC25980	20											0	Breast(12;0.0162)	Myeloproliferative disorder(115;0.0393)				AAGGGGCCACTGTGGTCATCC	0.557													22	41					0	0	0.00632	0	0		C	34827850	C	C	34827850	2	2	19	1	0	0	0	0	0	0	0	1	2114	1567	55	3		3	C20orf4	20	34827850	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	308610	34827850	28197670	2928	16441											
C20orf4	25980	broad.mit.edu	37	chr20	34828400	34828400	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgaagcccagagccgggAcagagatccgcttctcagag	12	5	13	11	2	1	5	1	1	1	4	3	7	2	6	3	1	2	1	3	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:34828400A>T	uc002xfc.1	+	2	703	c.610A>T	c.(610-612)ACA>TCA	p.T204S	C20orf4_uc002xfd.1_Missense_Mutation_p.T204S|C20orf4_uc002xfe.1_Missense_Mutation_p.T204S	NM_015511	NP_056326	Q9Y312	CT004_HUMAN	hypothetical protein LOC25980	204											0	Breast(12;0.0162)	Myeloproliferative disorder(115;0.0393)				CAGAGCCGGGACAGAGATCCG	0.607													41	99					0	0	0.010771	0	0		T	34828400	T	T	34828400	3	4	19	1	0	0	0	0	1	0	0	0	2114	275	10	5	612	5	C20orf4	20	34828400	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	550	34828400	28197120	2929	16442											
DLGAP4	22839	broad.mit.edu	37	chr20	35128652	35128652	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacgggacacagactcggAtacccaggatgccaatgact	12	5	11	13	3	0	2	0	1	0	1	1	6	0	5	3	3	2	0	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:35128652A>G	uc002xff.2	+	10	2576	c.2141A>G	c.(2140-2142)GAT>GGT	p.D714G	DLGAP4_uc010zvp.1_Missense_Mutation_p.D714G|DLGAP4_uc002xfg.2_Missense_Mutation_p.D10G|DLGAP4_uc002xfh.2_Missense_Mutation_p.D178G|DLGAP4_uc002xfi.2_Missense_Mutation_p.D23G|DLGAP4_uc002xfj.2_Missense_Mutation_p.D10G	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	717					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				ACAGACTCGGATACCCAGGAT	0.602													10	89					0	0	0.008291	0	0		G	35128652	G	G	35128652	3	3	19	1	0	0	0	0	1	0	0	0	4568	333	12	3	2299	3	DLGAP4	20	35128652	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	300252	35128652	27896868	2930	16443											
SLA2	84174	broad.mit.edu	37	chr20	35242709	35242709	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagtccccaactttaccTgtccagctctttccagttga	8	12	7	14	0	1	1	0	1	1	0	4	2	4	2	5	1	3	2	5	1	2	4	rs147433804		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:35242709T>C	uc002xfv.2	-	7	1026	c.664A>G	c.(664-666)AGC>GGC	p.S222G	SLA2_uc002xfu.2_Missense_Mutation_p.Q205R	NM_032214	NP_115590	Q9H6Q3	SLAP2_HUMAN	Src-like-adaptor 2 isoform a	222	SLA C-terminal.				antigen receptor-mediated signaling pathway|B cell mediated immunity|intracellular receptor mediated signaling pathway|negative regulation of B cell activation|negative regulation of calcium-mediated signaling|negative regulation of transcription from RNA polymerase II promoter|T cell activation	cytoplasmic membrane-bounded vesicle|endosome membrane|plasma membrane	protein N-terminus binding|SH3/SH2 adaptor activity				0	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				CAACTTTACCTGTCCAGCTCT	0.572													12	251					0	0	0.001855	0	0		C	35242709	C	C	35242709	3	2	19	1	0	0	0	0	1	0	0	0	14389	1594	55	3	129	3	SLA2	20	35242709	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	114057	35242709	27782811	2931	16444											
SAMHD1	25939	broad.mit.edu	37	chr20	35533903	35533903	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataaaatctccagaaaaatgTtatctgccaatttaatgaca	18	12	4	7	0	2	2	0	1	2	1	3	2	2	2	2	0	1	1	2	0	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:35533903T>A	uc002xgh.1	-	12	1404	c.1274A>T	c.(1273-1275)AAC>ATC	p.N425I	SAMHD1_uc010gft.1_RNA	NM_015474	NP_056289	Q9Y3Z3	SAMH1_HUMAN	SAM domain- and HD domain-containing protein 1	425					defense response to virus|innate immune response|regulation of innate immune response	nucleus	metal ion binding|phosphoric diester hydrolase activity				0		Myeloproliferative disorder(115;0.00878)				CAGAAAAATGTTATCTGCCAA	0.289													5	73					0	0	0.000602	0	0		A	35533903	A	A	35533903	3	1	19	1	0	0	0	0	1	0	0	0	13853	1725	60	5	626	5	SAMHD1	20	35533903	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	291194	35533903	27491617	2932	16445											
C20orf132	140699	broad.mit.edu	37	chr20	35766264	35766264	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgagcactatatctgtgTacttgggtctggatataaat	11	14	10	6	0	2	1	0	1	2	0	2	2	2	2	0	2	3	3	0	2	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:35766264T>C	uc010zvu.1	-	15	1719	c.1628A>G	c.(1627-1629)TAC>TGC	p.Y543C	C20orf132_uc002xgk.2_Missense_Mutation_p.Y165C|C20orf132_uc002xgm.2_Missense_Mutation_p.Y543C|C20orf132_uc002xgn.2_Missense_Mutation_p.Y508C	NM_152503	NP_689716	Q9H579	CT132_HUMAN	hypothetical protein LOC140699 isoform 1	418											0		Myeloproliferative disorder(115;0.00878)				TATATCTGTGTACTTGGGTCT	0.408													13	22					0	0	0.00245	0	0		C	35766264	C	C	35766264	3	2	19	1	0	0	0	0	1	0	0	0	2089	1638	57	3	1590	3	C20orf132	20	35766264	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	232361	35766264	27259256	2933	16446											
TGM2	7052	broad.mit.edu	37	chr20	36766734	36766734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgtctcctccttctcggCcagtttgttcaggtggttcg	2	15	10	14	2	3	0	1	0	2	0	7	0	4	0	4	3	0	3	4	3	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:36766734C>T	uc002xhr.2	-	10	1496	c.1396G>A	c.(1396-1398)GCC>ACC	p.A466T	TGM2_uc010zvx.1_Missense_Mutation_p.A385T|TGM2_uc010zvy.1_Missense_Mutation_p.A406T|TGM2_uc002xhs.1_Missense_Mutation_p.A442T|TGM2_uc002xht.2_Missense_Mutation_p.A466T	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	466					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)	TCCTTCTCGGCCAGTTTGTTC	0.557													5	61					0	0	0.001168	0	0		T	36766734	T	T	36766734	3	4	19	1	0	0	0	0	1	0	0	0	15855	739	26	2	715	2	TGM2	20	36766734	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1000470	36766734	26258786	2934	16447											
KIAA1755	85449	broad.mit.edu	37	chr20	36874452	36874452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaacacctgacccaggacgGtgggtgctgtggcctcgaaa	9	6	15	11	2	0	1	0	1	0	0	1	4	0	3	3	5	2	1	3	5	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:36874452G>A	uc002xhy.1	-	2	352	c.80C>T	c.(79-81)ACC>ATC	p.T27I	KIAA1755_uc002xhz.1_Missense_Mutation_p.T27I	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	27										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				ACCCAGGACGGTGGGTGCTGT	0.637													8	52					0	0	0.006214	0	0		A	36874452	A	A	36874452	3	1	19	1	0	0	0	0	1	0	0	0	8273	1261	44	4	3574	4	KIAA1755	20	36874452	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	107718	36874452	26151068	2935	16448											
SLC32A1	140679	broad.mit.edu	37	chr20	37357012	37357012	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggggctgacgctgcgCtgcgcgctcgtcgtcttcac	2	10	14	15	6	2	1	1	1	1	0	5	1	3	1	1	2	2	4	1	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:37357012C>T	uc002xjc.2	+	2	1571	c.1308C>T	c.(1306-1308)CGC>CGT	p.R436R		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	436	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	TGACGCTGCGCTGCGCGCTCG	0.672													14	37					0	0	0.001855	0	0		T	37357012	T	T	37357012	2	4	19	1	0	0	0	0	0	0	0	1	14590	784	28	2		2	SLC32A1	20	37357012	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	482560	37357012	25668508	2936	16449											
ACTR5	79913	broad.mit.edu	37	chr20	37400389	37400389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgccgaagcaggcctcccGctcctcagatgcccaggcat	7	6	10	18	2	1	1	1	0	0	1	3	2	3	1	6	2	3	3	6	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:37400389G>A	uc002xjd.2	+	9	1779	c.1754G>A	c.(1753-1755)CGC>CAC	p.R585H		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	585					DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)				CAGGCCTCCCGCTCCTCAGAT	0.597													10	20					0	0	0.00245	0	0		A	37400389	A	A	37400389	3	1	19	1	0	0	0	0	1	0	0	0	215	1087	38	1	1788	1	ACTR5	20	37400389	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	43377	37400389	25625131	2937	16450											
PLCG1	5335	broad.mit.edu	37	chr20	39788775	39788775	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagttttactcagtggAtcggaatcgtgaggatcggt	10	11	14	6	3	1	1	1	1	0	0	4	5	1	4	0	4	2	2	0	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:39788775A>T	uc002xjp.1	+	4	615	c.494A>T	c.(493-495)GAT>GTT	p.D165V	PLCG1_uc002xjo.1_Missense_Mutation_p.D165V	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	165	EF-hand.|Potential.				activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				TACTCAGTGGATCGGAATCGT	0.582													15	52					0	0	0.006122	0	0		T	39788775	T	T	39788775	3	4	19	1	0	0	0	0	1	0	0	0	12054	333	12	5	508	5	PLCG1	20	39788775	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2388386	39788775	23236745	2938	16451											
PLCG1	5335	broad.mit.edu	37	chr20	39792749	39792749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggacggcccggatgggatGccagttatttaccatgggca	8	9	15	9	2	0	0	0	0	0	0	0	3	0	3	3	5	2	2	3	5	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:39792749G>A	uc002xjp.1	+	12	1246	c.1125G>A	c.(1123-1125)ATG>ATA	p.M375I	PLCG1_uc002xjo.1_Missense_Mutation_p.M375I|PLCG1_uc010zwe.1_Missense_Mutation_p.M1I|PLCG1_uc010ggf.2_5'Flank	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	375	PI-PLC X-box.				activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				CGGATGGGATGCCAGTTATTT	0.597													42	82					0	0	0.007835	0	0		A	39792749	A	A	39792749	3	1	19	1	0	0	0	0	1	0	0	0	12054	1319	46	2	1171	2	PLCG1	20	39792749	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3974	39792749	23232771	2939	16452											
ZHX3	23051	broad.mit.edu	37	chr20	39832810	39832810	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcccgttggcggcatggggGttttttgcagagctggcaga	5	10	18	8	2	0	2	0	0	0	2	0	2	0	2	1	6	2	6	1	6	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:39832810G>T	uc002xjs.1	-	3	1125	c.747C>A	c.(745-747)AAC>AAA	p.N249K	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Missense_Mutation_p.N249K|ZHX3_uc002xjt.1_Missense_Mutation_p.N249K|ZHX3_uc002xju.1_Missense_Mutation_p.N249K|ZHX3_uc002xjv.1_Missense_Mutation_p.N249K|ZHX3_uc002xjw.1_Missense_Mutation_p.N249K|ZHX3_uc010ggg.1_Missense_Mutation_p.N249K	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	249	Required for homodimerization and interaction with NFYA.				negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				CGGCATGGGGGTTTTTTGCAG	0.587													32	71					1.22384e-17	1.29914e-17	0.013726	1	0		T	39832810	T	T	39832810	3	4	19	1	0	0	0	0	1	0	0	0	17702	1252	44	5	2131	5	ZHX3	20	39832810	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	40061	39832810	23192710	2940	16453											
EMILIN3	90187	broad.mit.edu	37	chr20	39990930	39990930	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccacacctccctcgagcaTggcagcagagagcctcgtaa	10	6	10	15	2	0	1	0	0	0	1	4	3	2	1	4	1	3	4	4	1	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:39990930T>C	uc002xjy.1	-	4	1503	c.1279A>G	c.(1279-1281)ATG>GTG	p.M427V		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	427						proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				CCCTCGAGCATGGCAGCAGAG	0.657													38	113					0	0	0.00874	0	0		C	39990930	C	C	39990930	3	2	19	1	0	0	0	0	1	0	0	0	5103	1464	51	3	1025	3	EMILIN3	20	39990930	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	158120	39990930	23034590	2941	16454											
MYBL2	4605	broad.mit.edu	37	chr20	42310462	42310462	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtgaggcagtttggacaGcaggactggaagttcctggc	8	9	16	8	0	0	1	0	1	0	0	1	4	1	4	1	6	1	4	1	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:42310462G>A	uc002xlb.1	+	3	368	c.153G>A	c.(151-153)CAG>CAA	p.Q51Q	MYBL2_uc010zwj.1_Intron|MYBL2_uc002xla.1_Silent_p.Q51Q	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	51	HTH myb-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AGTTTGGACAGCAGGACTGGA	0.617													14	34					0	0	0.003163	0	0		A	42310462	A	A	42310462	2	1	19	1	0	0	0	0	0	0	0	1	10028	962	34	2		2	MYBL2	20	42310462	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2319532	42310462	20715058	2942	16455											
MYBL2	4605	broad.mit.edu	37	chr20	42331178	42331178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatttgacctccctgaggaaCcatctgcagaggacagtatc	12	9	9	11	0	1	3	0	2	1	1	3	5	2	5	3	2	2	2	3	2	3	2	rs111283547		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:42331178C>T	uc002xlb.1	+	8	1215	c.1000C>T	c.(1000-1002)CCA>TCA	p.P334S	MYBL2_uc010zwj.1_Missense_Mutation_p.P310S|MYBL2_uc002xla.1_Missense_Mutation_p.P334S	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	334						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			CCCTGAGGAACCATCTGCAGA	0.537													16	310					0	0	0.004007	0	0		T	42331178	T	T	42331178	3	4	19	1	0	0	0	0	1	0	0	0	10028	507	18	4	1030	4	MYBL2	20	42331178	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	20716	42331178	20694342	2943	16456											
JPH2	57158	broad.mit.edu	37	chr20	42744601	42744601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctcgggcggcgtggtgcGcacagcatagctgtggtagc	5	7	19	10	4	0	0	0	0	0	0	1	0	0	0	0	5	4	5	0	5	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:42744601G>A	uc002xli.1	-	4	2587	c.1714C>T	c.(1714-1716)CGC>TGC	p.R572C		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	572	Pro-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			GGCGTGGTGCGCACAGCATAG	0.736													6	6					0	0	0.004482	0	0		A	42744601	A	A	42744601	3	1	19	1	0	0	0	0	1	0	0	0	7977	1087	38	1	384	1	JPH2	20	42744601	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	413423	42744601	20280919	2944	16457											
KCNK15	60598	broad.mit.edu	37	chr20	43379277	43379278	+	Frame_Shift_Ins	INS	-	C	C																															gcccgcacccccagcccgcgINSccccccgggggcgcccgaga																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:43379277_43379278insC	uc002xmr.2	+	2	855_856	c.791_792insC	c.(790-792)CGCfs	p.R264fs		NM_022358	NP_071753	Q9H427	KCNKF_HUMAN	potassium family, subfamily K, member 15	264	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity				0		Myeloproliferative disorder(115;0.0122)				CCCAgcccgcgccccccggggg	0.634													10	22	---	---	---	---						.	C	43379278	C	C	43379277	7	5	19	1	0	1	1	0	0	0	0	0	8078	1087	38	0	797	0	KCNK15	20	43379277	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	634676	43379277	19646243	2945	16458											
PABPC1L	80336	broad.mit.edu	37	chr20	43545398	43545398	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctccctgtggcccaggTggcgtgtgacgagcatggct	4	10	14	13	2	0	1	0	1	0	0	2	2	2	1	3	4	1	2	3	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:43545398T>C	uc010ggv.1	+	3	471	c.389T>C	c.(388-390)GTG>GCG	p.V130A	PABPC1L_uc010zwq.1_RNA	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	130	RRM 2.						nucleotide binding|RNA binding			ovary(1)	1						GTGGCCCAGGTGGCGTGTGAC	0.567													67	181					0	0	0.01441	0	0		C	43545398	C	C	43545398	3	2	19	1	0	0	0	0	1	0	0	0	11383	1710	59	3	399	3	PABPC1L	20	43545398	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	166121	43545398	19480122	2946	16459											
SLPI	6590	broad.mit.edu	37	chr20	43882339	43882339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtatctaaggcactgggCagatttcttaggaggacaga	11	11	12	7	0	2	2	0	0	2	2	2	4	2	4	0	4	0	3	0	4	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:43882339C>T	uc002xnm.1	-	2	143	c.121G>A	c.(121-123)GCC>ACC	p.A41T		NM_003064	NP_003055	P03973	SLPI_HUMAN	secretory leukocyte peptidase inhibitor	41	Trypsin inhibitory domain.|WAP 1.					extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				AGGCACTGGGCAGATTTCTTA	0.507													18	45					0	0	0.014323	0	0		T	43882339	T	T	43882339	3	4	19	1	0	0	0	0	1	0	0	0	14778	710	25	2	289	2	SLPI	20	43882339	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	336941	43882339	19143181	2947	16460											
DNTTIP1	116092	broad.mit.edu	37	chr20	44433785	44433785	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctctattttttgcacagTgggacccagctcgcctgaat	7	14	8	12	1	1	1	0	1	1	0	3	2	1	2	2	1	2	2	2	1	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:44433785T>C	uc002xpk.2	+	9	672	c.604T>C	c.(604-606)TGG>CGG	p.W202R		NM_052951	NP_443183	Q9H147	TDIF1_HUMAN	terminal deoxynucleotidyltransferase interacting	202						nucleus				ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.0122)				TTTTGCACAGTGGGACCCAGC	0.478													20	343					0	0	0.008871	0	0		C	44433785	C	C	44433785	3	2	19	1	0	0	0	0	1	0	0	0	4687	1710	59	3	638	3	DNTTIP1	20	44433785	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	551446	44433785	18591735	2948	16461											
SNX21	90203	broad.mit.edu	37	chr20	44469671	44469671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccccctctggcccagacCgccccctgctgaccctggct	4	6	9	22	1	1	2	0	1	1	1	1	2	1	2	7	2	1	3	7	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:44469671C>T	uc002xpv.1	+	4	930	c.841C>T	c.(841-843)CGC>TGC	p.R281C	SNX21_uc002xps.1_Intron|SNX21_uc002xpt.1_3'UTR|SNX21_uc002xpu.1_3'UTR|SNX21_uc002xpw.1_Missense_Mutation_p.R92C|SNX21_uc002xpx.2_Missense_Mutation_p.R271C|SNX21_uc010zxd.1_3'UTR|SNX21_uc002xpy.1_Missense_Mutation_p.R92C|SNX21_uc002xpz.1_Missense_Mutation_p.R92C	NM_033421	NP_219489	Q969T3	SNX21_HUMAN	sorting nexin 21 isoform a	281					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding			breast(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				TGGCCCAGACCGCCCCCTGCT	0.677													12	17					0	0	0.010729	0	0		T	44469671	T	T	44469671	3	4	19	1	0	0	0	0	1	0	0	0	14918	652	23	1	870	1	SNX21	20	44469671	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	35886	44469671	18555849	2949	16462											
ZSWIM3	140831	broad.mit.edu	37	chr20	44506110	44506110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgctgcccgcatcctcCtttccatctaccacacaacc	7	11	3	20	1	1	0	0	0	1	0	5	0	5	0	7	0	4	2	7	0	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:44506110C>T	uc002xqd.2	+	2	1116	c.913C>T	c.(913-915)CTT>TTT	p.L305F	ZSWIM3_uc010zxg.1_Missense_Mutation_p.L299F	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	305							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				CCGCATCCTCCTTTCCATCTA	0.522													5	126					0	0	0.001168	0	0		T	44506110	T	T	44506110	3	4	19	1	0	0	0	0	1	0	0	0	18267	681	24	4	919	4	ZSWIM3	20	44506110	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	36439	44506110	18519410	2950	16463											
ZNF335	63925	broad.mit.edu	37	chr20	44581059	44581059	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggctggagatgggggctcAgggccgtctctgggcagtcc	4	9	18	10	1	2	1	1	0	1	1	4	2	3	1	2	6	0	3	2	6	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:44581059A>G	uc002xqw.2	-	20	3039	c.2916T>C	c.(2914-2916)CCT>CCC	p.P972P	ZNF335_uc002xqv.2_Silent_p.P84P|ZNF335_uc010zxk.1_Silent_p.P817P	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	972					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				ATGGGGGCTCAGGGCCGTCTC	0.652													3	59					0	0	0.009096	0	0		G	44581059	G	G	44581059	2	3	19	1	0	0	0	0	0	0	0	1	17877	175	7	3		3	ZNF335	20	44581059	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	74949	44581059	18444461	2951	16464											
ZNF335	63925	broad.mit.edu	37	chr20	44596988	44596988	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgccatcctcagcactggtCacagtgatgcagtctgggca	8	8	11	14	1	3	1	2	1	1	0	4	1	4	1	3	2	2	3	3	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:44596988C>T	uc002xqw.2	-	4	579	c.456G>A	c.(454-456)GTG>GTA	p.V152V	ZNF335_uc010zxk.1_Intron|ZNF335_uc002xqx.1_Silent_p.V120V|ZNF335_uc002xqy.2_5'UTR	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	152					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	p.V152L(1)		skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				CAGCACTGGTCACAGTGATGC	0.642													51	158					0	0	0.01441	0	0		T	44596988	T	T	44596988	2	4	19	1	0	0	0	0	0	0	0	1	17877	813	29	4		4	ZNF335	20	44596988	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	15929	44596988	18428532	2952	16465											
CDH22	64405	broad.mit.edu	37	chr20	44869722	44869722	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctccagtaggcggttggTggcgcgatcccgagcctggg	4	7	19	11	4	0	0	0	0	0	0	2	2	2	0	3	6	1	3	3	6	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:44869722T>C	uc002xrm.2	-	2	831	c.430A>G	c.(430-432)ACC>GCC	p.T144A	CDH22_uc010ghk.1_Missense_Mutation_p.T144A	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	144	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				AGGCGGTTGGTGGCGCGATCC	0.617													4	82					0	0	0.000602	0	0		C	44869722	C	C	44869722	3	2	19	1	0	0	0	0	1	0	0	0	3110	1696	59	3	2096	3	CDH22	20	44869722	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	272734	44869722	18155798	2953	16466											
ZNF334	55713	broad.mit.edu	37	chr20	45130649	45130649	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaatgagggctgatttcgtAcataaaaattttccacattg	13	13	8	7	1	0	2	0	2	0	0	2	2	1	2	1	1	1	3	1	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:45130649A>G	uc002xsc.2	-	5	1513	c.1329T>C	c.(1327-1329)TGT>TGC	p.C443C	ZNF334_uc002xsa.2_Silent_p.C466C|ZNF334_uc002xsb.2_Silent_p.C405C|ZNF334_uc002xsd.2_Silent_p.C405C|ZNF334_uc010ghl.2_Silent_p.C442C	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	443	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				CTGATTTCGTACATAAAAATT	0.383													13	219					0	0	0.00245	0	0		G	45130649	G	G	45130649	2	3	19	1	0	0	0	0	0	0	0	1	17876	389	14	3		3	ZNF334	20	45130649	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	260927	45130649	17894871	2954	16467											
SLC2A10	81031	broad.mit.edu	37	chr20	45354435	45354435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccaacgtgctgtgctatGcctccaccatcttcagctcc	7	10	7	17	1	2	0	1	0	1	0	4	0	4	0	5	0	6	3	5	0	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:45354435G>A	uc002xsl.2	+	2	857	c.760G>A	c.(760-762)GCC>ACC	p.A254T		NM_030777	NP_110404	O95528	GTR10_HUMAN	solute carrier family 2 member 10	254	Helical; Name=7; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GCTGTGCTATGCCTCCACCAT	0.632													9	186					0	0	0.004482	0	0		A	45354435	A	A	45354435	3	1	19	1	0	0	0	0	1	0	0	0	14564	1319	46	2	766	2	SLC2A10	20	45354435	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	223786	45354435	17671085	2955	16468											
NCOA3	8202	broad.mit.edu	37	chr20	46282157	46282157	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttgctgacagaaatactGctgacatctctgcaccagga	11	10	10	10	0	1	3	0	2	1	1	2	4	1	4	1	2	4	4	1	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:46282157G>A	uc002xtk.2	+	23	4476	c.4271G>A	c.(4270-4272)TGC>TAC	p.C1424Y	NCOA3_uc002xtl.2_Missense_Mutation_p.C1420Y|NCOA3_uc002xtm.2_Missense_Mutation_p.C1419Y|NCOA3_uc002xtn.2_Missense_Mutation_p.C1423Y|NCOA3_uc010zyc.1_Missense_Mutation_p.C1219Y	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	1424					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						CAGAAATACTGCTGACATCTC	0.388													85	158					0	0	0.01441	0	0		A	46282157	A	A	46282157	3	1	19	1	0	0	0	0	1	0	0	0	10249	1319	46	2	4383	2	NCOA3	20	46282157	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	927722	46282157	16743363	2956	16469											
PREX1	57580	broad.mit.edu	37	chr20	47307598	47307598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccgtgttgtggatcttccagCcgttggtgacggtatagccg	5	12	14	10	4	1	1	0	1	1	0	2	2	2	2	4	3	2	3	4	3	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:47307598C>T	uc002xtw.1	-	9	1096	c.1073G>A	c.(1072-1074)GGC>GAC	p.G358D		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	358	PH.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GATCTTCCAGCCGTTGGTGAC	0.577													30	41					0	0	0.010818	0	0		T	47307598	T	T	47307598	3	4	19	1	0	0	0	0	1	0	0	0	12498	739	26	2	4034	2	PREX1	20	47307598	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1025441	47307598	15717922	2957	16470											
ZNFX1	57169	broad.mit.edu	37	chr20	47864756	47864756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttctgttcattcatgtagCggtctagggcttgcacctca	6	14	9	12	1	5	0	3	0	2	0	5	0	5	0	2	2	2	4	2	2	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:47864756C>T	uc002xui.2	-	14	5052	c.4805G>A	c.(4804-4806)CGC>CAC	p.R1602H		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	1602							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			ATTCATGTAGCGGTCTAGGGC	0.507													23	55					0	0	0.004656	0	0		T	47864756	T	T	47864756	3	4	19	1	0	0	0	0	1	0	0	0	18230	768	27	1	955	1	ZNFX1	20	47864756	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	557158	47864756	15160764	2958	16471											
B4GALT5	9334	broad.mit.edu	37	chr20	48257180	48257180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caacgttgaaaagcatggctCgattaaagggttgggtacca	13	9	12	7	2	0	1	0	1	0	0	1	2	0	1	1	3	3	5	1	3	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:48257180C>T	uc002xuu.3	-	6	823	c.629G>A	c.(628-630)CGA>CAA	p.R210Q		NM_004776	NP_004767	O43286	B4GT5_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	210	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	galactosyltransferase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;2.51e-06)			AAGCATGGCTCGATTAAAGGG	0.393													17	42					0	0	0.006122	0	0		T	48257180	T	T	48257180	3	4	19	1	0	0	0	0	1	0	0	0	1275	884	31	1	553	1	B4GALT5	20	48257180	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	392424	48257180	14768340	2959	16472											
SALL4	57167	broad.mit.edu	37	chr20	50400912	50400912	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgatacccgactgggaGccatccatcttggagacagt	10	8	11	12	1	1	2	0	1	1	1	2	5	2	3	3	2	2	1	3	2	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:50400912G>A	uc002xwh.3	-	4	3155	c.3054C>T	c.(3052-3054)GGC>GGT	p.G1018G	SALL4_uc010gii.2_Silent_p.G581G|SALL4_uc002xwi.3_Silent_p.G241G	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	1018					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CCGACTGGGAGCCATCCATCT	0.537													6	96					0	0	0.001168	0	0		A	50400912	A	A	50400912	2	1	19	1	0	0	0	0	0	0	0	1	13838	958	34	2		2	SALL4	20	50400912	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2143732	50400912	12624608	2960	16473											
SALL4	57167	broad.mit.edu	37	chr20	50406825	50406825	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcaggacccactttccctgGggcatctaaggaagccatca	10	7	11	13	0	2	0	1	0	1	0	3	2	3	2	3	5	1	2	3	5	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:50406825G>T	uc002xwh.3	-	2	2298	c.2197C>A	c.(2197-2199)CCA>ACA	p.P733T	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	733					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ACTTTCCCTGGGGCATCTAAG	0.607													15	39					2.48551e-13	2.61859e-13	0.00499	1	0		T	50406825	T	T	50406825	3	4	19	1	0	0	0	0	1	0	0	0	13838	1232	43	5	976	5	SALL4	20	50406825	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	5913	50406825	12618695	2961	16474											
ZNF217	7764	broad.mit.edu	37	chr20	52199045	52199045	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcacttgacttttatcaagCggactgagatactctgcttc	9	13	8	11	2	2	2	1	2	1	1	3	4	2	3	0	1	3	2	0	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:52199045C>T	uc002xwq.3	-	1	592	c.321G>A	c.(319-321)CCG>CCA	p.P107P	ZNF217_uc010gij.1_Silent_p.P99P	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	107					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			TTTTATCAAGCGGACTGAGAT	0.438													60	160					0	0	0.01441	0	0		T	52199045	T	T	52199045	2	4	19	1	0	0	0	0	0	0	0	1	17797	755	27	1		1	ZNF217	20	52199045	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1792220	52199045	10826475	2962	16475											
BCAS1	8537	broad.mit.edu	37	chr20	52645321	52645321	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatccaagggatgaatctgcGgcttggtctccggtacgtcc	7	10	13	11	3	2	1	0	1	2	0	5	3	4	2	3	4	2	2	3	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:52645321G>A	uc002xws.2	-	4	671	c.333C>T	c.(331-333)GCC>GCT	p.A111A	BCAS1_uc010zzb.1_Silent_p.A14A|BCAS1_uc010gim.2_Silent_p.A14A|BCAS1_uc002xwt.2_Silent_p.A111A|BCAS1_uc010gil.1_Silent_p.A111A|BCAS1_uc010zzc.1_Silent_p.A14A	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	111						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			ATGAATCTGCGGCTTGGTCTC	0.527													24	55					0	0	0.004656	0	0		A	52645321	A	A	52645321	2	1	19	1	0	0	0	0	0	0	0	1	1351	1103	39	1		1	BCAS1	20	52645321	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	446276	52645321	10380199	2963	16476											
PMEPA1	56937	broad.mit.edu	37	chr20	56227177	56227178	+	Frame_Shift_Del	DEL	TG	-	-																															tgcgctctctaggggcgcgaTgtgtgtgtggtggagccggg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:56227177_56227178delTG	uc002xyq.2	-	4	1188_1189	c.795_796delCA	c.(793-798)CACATCfs	p.H265fs	PMEPA1_uc002xyr.2_Frame_Shift_Del_p.H215fs|PMEPA1_uc002xys.2_Frame_Shift_Del_p.H230fs|PMEPA1_uc002xyt.2_Frame_Shift_Del_p.H215fs	NM_020182	NP_064567	Q969W9	PMEPA_HUMAN	transmembrane prostate androgen-induced protein	265_266	Cytoplasmic (Potential).				androgen receptor signaling pathway	integral to membrane|plasma membrane	WW domain binding			pancreas(1)	1						AGGGGCGCGATGTGTGTGTGGT	0.653													5	8	---	---	---	---						.	-	56227178	-	-	56227177	7	5	19	1	0	1	0	1	0	0	0	0	12151	1464	51	0	71	0	PMEPA1	20	56227177	Frame_Shift_Del	DEL	TG	TCGA-BR-4361-01A-01D-1158-08	3581856	56227177	6798343	2964	16477											
C20orf85	128602	broad.mit.edu	37	chr20	56735847	56735847	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaggtgcttttgcacgagAgctgtgctggcccaagcagg	9	8	14	10	1	0	1	0	0	0	1	0	2	0	1	1	3	5	5	1	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:56735847A>C	uc002xyv.2	+	4	421	c.383A>C	c.(382-384)GAG>GCG	p.E128A		NM_178456	NP_848551	Q9H1P6	CT085_HUMAN	hypothetical protein LOC128602	128										ovary(1)	1	all_epithelial(3;5.99e-14)|Lung NSC(12;0.000152)|all_lung(29;0.000518)|Melanoma(10;0.118)		BRCA - Breast invasive adenocarcinoma(13;5.53e-12)|Epithelial(14;7.42e-08)|all cancers(14;7.19e-07)			TTTGCACGAGAGCTGTGCTGG	0.602													14	46					0	0	0.001855	0	0		C	56735847	C	C	56735847	3	2	19	1	0	0	0	0	1	0	0	0	2123	304	11	5	397	5	C20orf85	20	56735847	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	508670	56735847	6289673	2965	16478											
ZNF831	128611	broad.mit.edu	37	chr20	57766421	57766421	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcccctacgctgacggtgaAcatcgtgggcactctgcctg	6	8	13	14	3	1	2	0	2	1	0	2	2	1	2	3	3	3	2	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:57766421A>G	uc002yan.2	+	1	347	c.347A>G	c.(346-348)AAC>AGC	p.N116S		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	116						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CTGACGGTGAACATCGTGGGC	0.687													7	22					0	0	0.004482	0	0		G	57766421	G	G	57766421	3	3	19	1	0	0	0	0	1	0	0	0	18210	43	2	3	349	3	ZNF831	20	57766421	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1030574	57766421	5259099	2966	16479											
SYCP2	10388	broad.mit.edu	37	chr20	58456998	58456998	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatcttggtattttagcttActccaagttttatgataggg	9	18	9	5	0	1	1	0	1	1	0	2	1	2	1	1	2	2	4	1	2	7	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:58456998A>G	uc002yaz.2	-	27	2797	c.2658_splice	c.e27+1	p.G886_splice		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2						cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			ATTTTAGCTTACTCCAAGTTT	0.308													4	35					0	0	0.000602	0	0		G	58456998	G	G	58456998	5	3	19	1	0	0	0	0	0	0	1	0	15457	405	14	3	2004	3	SYCP2	20	58456998	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	690577	58456998	4568522	2967	16480											
SYCP2	10388	broad.mit.edu	37	chr20	58482429	58482429	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtttaataccttcaatgctGtatatttgtactttttcctc	9	20	4	8	0	1	0	1	0	0	0	3	0	2	0	2	0	3	4	2	0	6	10			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:58482429G>A	uc002yaz.2	-	14	1162	c.1023C>T	c.(1021-1023)TAC>TAT	p.Y341Y	SYCP2_uc010gju.1_Silent_p.Y242Y	NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	341					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			CTTCAATGCTGTATATTTGTA	0.294													12	31					0	0	0.001855	0	0		A	58482429	A	A	58482429	2	1	19	1	0	0	0	0	0	0	0	1	15457	1372	48	4		4	SYCP2	20	58482429	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	25431	58482429	4543091	2968	16481											
ADRM1	11047	broad.mit.edu	37	chr20	60883759	60883759	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaacgccaagcccgagcAgaaagagggcgacacgaagg	16	0	14	11	4	0	2	0	0	0	2	0	6	0	2	2	2	4	1	2	2	5	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:60883759A>G	uc002ycn.2	+	10	1246	c.1166A>G	c.(1165-1167)CAG>CGG	p.Q389R	ADRM1_uc002yco.2_Missense_Mutation_p.Q389R	NM_007002	NP_008933	Q16186	ADRM1_HUMAN	adhesion regulating molecule 1 precursor	389	Interaction with UCHL5.				proteasome assembly|transcription elongation from RNA polymerase II promoter	cytoplasm|integral to plasma membrane|membrane fraction|nucleus|proteasome complex	endopeptidase activator activity|protease binding|proteasome binding				0	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;2.51e-06)			AAGCCCGAGCAGAAAGAGGGC	0.572													4	61					0	0	0.009096	0	0		G	60883759	G	G	60883759	3	3	19	1	0	0	0	0	1	0	0	0	345	188	7	3	1200	3	ADRM1	20	60883759	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2401330	60883759	2141761	2969	16482											
LAMA5	3911	broad.mit.edu	37	chr20	60889901	60889901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caatgagctctcgcacgcggCcaatgctggcggacagggcc	8	5	14	14	4	1	1	0	1	1	0	2	2	1	2	2	4	2	3	2	4	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:60889901C>T	uc002ycq.2	-	60	8217	c.8150G>A	c.(8149-8151)GGC>GAC	p.G2717D		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2717	Domain II and I.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCGCACGCGGCCAATGCTGGC	0.672													4	129					0	0	0.009096	0	0		T	60889901	T	T	60889901	3	4	19	1	0	0	0	0	1	0	0	0	8625	739	26	2	3021	2	LAMA5	20	60889901	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	6142	60889901	2135619	2970	16483											
LAMA5	3911	broad.mit.edu	37	chr20	60903407	60903407	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggtggcagccaaaggtctgGggctggcacagcaggcagtc	8	5	18	10	0	1	0	0	0	1	0	2	0	1	0	1	7	2	5	1	7	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:60903407G>T	uc002ycq.2	-	35	4609	c.4542C>A	c.(4540-4542)CCC>CCA	p.P1514P		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	1514	Laminin EGF-like 13.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAAAGGTCTGGGGCTGGCACA	0.672													3	9					0.004672	0.00474898	0.004672	1	0		T	60903407	T	T	60903407	2	4	19	1	0	0	0	0	0	0	0	1	8625	1219	43	5		5	LAMA5	20	60903407	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	13506	60903407	2122113	2971	16484											
DIDO1	11083	broad.mit.edu	37	chr20	61525797	61525797	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagttgagatcgaagaggTgtgcgcggtgctgactggtg	8	10	17	6	3	0	3	0	2	0	2	1	5	0	3	0	3	3	2	0	3	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:61525797T>C	uc002ydr.1	-	11	2804	c.2540A>G	c.(2539-2541)CAC>CGC	p.H847R	DIDO1_uc002yds.1_Missense_Mutation_p.H847R|DIDO1_uc002ydt.1_Missense_Mutation_p.H847R|DIDO1_uc002ydu.1_Missense_Mutation_p.H847R	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	847					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					ATCGAAGAGGTGTGCGCGGTG	0.507													5	91					0	0	0.001984	0	0		C	61525797	C	C	61525797	3	2	19	1	0	0	0	0	1	0	0	0	4528	1696	59	3	4235	3	DIDO1	20	61525797	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	622390	61525797	1499723	2972	16485											
DIDO1	11083	broad.mit.edu	37	chr20	61542719	61542719	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgctcctcctgccgcggcgCcgcgcaatggtcaggaactg	6	7	13	15	5	1	0	1	0	0	0	3	1	3	1	4	3	3	2	4	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:61542719C>T	uc002ydr.1	-	3	510	c.246G>A	c.(244-246)CGG>CGA	p.R82R	DIDO1_uc002yds.1_Silent_p.R82R|DIDO1_uc002ydt.1_Silent_p.R82R|DIDO1_uc002ydu.1_Silent_p.R82R|DIDO1_uc002ydv.1_Silent_p.R82R|DIDO1_uc002ydw.1_Silent_p.R82R|DIDO1_uc002ydx.1_Silent_p.R82R|DIDO1_uc011aao.1_Silent_p.R82R	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	82					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					TGCCGCGGCGCCGCGCAATGG	0.711													6	24					0	0	0.00308	0	0		T	61542719	T	T	61542719	2	4	19	1	0	0	0	0	0	0	0	1	4528	726	26	2		2	DIDO1	20	61542719	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	16922	61542719	1482801	2973	16486											
YTHDF1	54915	broad.mit.edu	37	chr20	61835087	61835087	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacggagcctcattgagggAgtaaggaaatccaatggacg	13	6	13	9	2	1	1	1	1	0	0	2	5	2	5	3	4	1	1	3	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:61835087A>G	uc002yeh.2	-	4	499	c.205T>C	c.(205-207)TCC>CCC	p.S69P	YTHDF1_uc011aaq.1_Missense_Mutation_p.S19P	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	69										ovary(2)	2						TCATTGAGGGAGTAAGGAAAT	0.517													6	74					0	0	0.001984	0	0		G	61835087	G	G	61835087	3	3	19	1	0	0	0	0	1	0	0	0	17524	304	11	3	1482	3	YTHDF1	20	61835087	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	292368	61835087	1190433	2974	16487											
PRIC285	85441	broad.mit.edu	37	chr20	62194856	62194856	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggccagctgcagggagccGtaggggacggggcaggggtc	6	4	21	10	3	0	0	0	0	0	0	2	2	0	2	2	8	3	4	2	8	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:62194856G>A	uc002yfm.2	-	9	6211	c.5319C>T	c.(5317-5319)TAC>TAT	p.Y1773Y	PRIC285_uc002yfl.1_Silent_p.Y1204Y	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1773					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			GCAGGGAGCCGTAGGGGACGG	0.741													2	0					0	0	0.004672	0	0		A	62194856	A	A	62194856	2	1	19	1	0	0	0	0	0	0	0	1	12507	1140	40	1		1	PRIC285	20	62194856	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	359769	62194856	830664	2975	16488											
ARFRP1	10139	broad.mit.edu	37	chr20	62331872	62331872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catccactcgatgccctcgcGcacccctttgctgtgaagac	7	9	8	17	3	0	2	0	1	0	1	3	3	1	2	4	0	2	2	4	0	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:62331872G>A	uc002yga.2	-	7	1096	c.529C>T	c.(529-531)CGC>TGC	p.R177C	ARFRP1_uc002ygc.2_Missense_Mutation_p.R177C|ARFRP1_uc002ygh.3_3'UTR|ARFRP1_uc011abf.1_3'UTR|ARFRP1_uc011abg.1_3'UTR|ARFRP1_uc002yge.2_RNA|ARFRP1_uc002ygd.2_RNA|ARFRP1_uc002ygf.2_Missense_Mutation_p.R177C|ARFRP1_uc002ygg.2_RNA|ARFRP1_uc011abh.1_RNA	NM_003224	NP_003215	Q13795	ARFRP_HUMAN	ADP-ribosylation factor related protein 1	177					small GTPase mediated signal transduction	Golgi apparatus|membrane fraction	GTP binding|GTPase activity			breast(1)|skin(1)	2	all_cancers(38;9.53e-13)|all_epithelial(29;2.64e-14)|Lung NSC(23;7e-10)|all_lung(23;2.53e-09)		Epithelial(9;4.09e-08)|all cancers(9;1.7e-07)|OV - Ovarian serous cystadenocarcinoma(5;0.0102)			ATGCCCTCGCGCACCCCTTTG	0.697													13	36					0	0	0.00333	0	0		A	62331872	A	A	62331872	3	1	19	1	0	0	0	0	1	0	0	0	856	1087	38	1	80	1	ARFRP1	20	62331872	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	137016	62331872	693648	2976	16489											
TPTE	7179	broad.mit.edu	37	chr21	10942922	10942922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgttttgcccacttaccCgccttcttatcagcttttca	6	16	5	14	1	3	0	2	0	1	0	3	0	3	0	3	0	3	3	3	0	2	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:10942922C>T	uc002yip.1	-	12	1033	c.665G>A	c.(664-666)CGG>CAG	p.R222Q	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.R204Q|TPTE_uc002yir.1_Missense_Mutation_p.R184Q|TPTE_uc010gkv.1_Missense_Mutation_p.R84Q	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	222					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CCCACTTACCCGCCTTCTTAT	0.318													14	76					0	0	0.003163	0	0		T	10942922	T	T	10942922	3	4	19	1	0	0	0	0	1	0	0	0	16456	666	23	1	1042	1	TPTE	21	10942922	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08		10942922	37186973	2977	16490											
TPTE	7179	broad.mit.edu	37	chr21	10942995	10942995	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttaacagaataataagtcGtagaagtcgaagtaaatgtg	17	11	9	4	2	1	2	0	0	1	2	3	3	1	2	0	0	1	2	0	0	9	5	rs147014138	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:10942995G>A	uc002yip.1	-	12	960	c.592C>T	c.(592-594)CGA>TGA	p.R198*	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Nonsense_Mutation_p.R180*|TPTE_uc002yir.1_Nonsense_Mutation_p.R160*|TPTE_uc010gkv.1_Nonsense_Mutation_p.R60*	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	198					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ATAATAAGTCGTAGAAGTCGA	0.299													11	52					0	0	0.013537	0	0		A	10942995	A	A	10942995	4	1	19	1	0	0	0	0	0	1	0	0	16456	1153	40	1	1115	1	TPTE	21	10942995	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	73	10942995	37186900	2978	16491											
TMPRSS15	5651	broad.mit.edu	37	chr21	19775802	19775802	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccatgtgacttacctcgttgGgattccttgattgtcaggca	7	14	10	10	1	1	2	1	2	0	0	3	3	2	3	3	2	1	2	3	2	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:19775802G>A	uc002ykw.2	-	1	169	c.138C>T	c.(136-138)TCC>TCT	p.S46S		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	46	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TACCTCGTTGGGATTCCTTGA	0.433													49	99					0	0	0.01441	0	0		A	19775802	A	A	19775802	2	1	19	1	0	0	0	0	0	0	0	1	16271	1219	43	4		4	TMPRSS15	21	19775802	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	8832807	19775802	28354093	2979	16492											
MRPL39	54148	broad.mit.edu	37	chr21	26965134	26965134	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttacttactcttaagtgaAcaggtaaagacacgccctgg	12	11	8	10	1	1	2	0	1	1	1	1	2	1	2	1	2	3	1	1	2	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:26965134A>G	uc002ylo.2	-	8	925	c.911T>C	c.(910-912)GTT>GCT	p.V304A	MRPL39_uc002yln.2_Missense_Mutation_p.V304A	NM_017446	NP_059142	Q9NYK5	RM39_HUMAN	mitochondrial ribosomal protein L39 isoform a	304						mitochondrial ribosome	nucleotide binding				0						TCTTAAGTGAACAGGTAAAGA	0.368													8	35					0	0	0.00245	0	0		G	26965134	G	G	26965134	3	3	19	1	0	0	0	0	1	0	0	0	9820	43	2	3	210	3	MRPL39	21	26965134	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	7189332	26965134	21164761	2980	16493											
ADAMTS5	11096	broad.mit.edu	37	chr21	28306946	28306946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagcacagacatccatgcCgggacacacggagtactcag	12	4	12	13	3	1	1	1	0	0	1	2	4	2	3	2	2	3	2	2	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:28306946C>T	uc002ymg.2	-	4	2257	c.1528G>A	c.(1528-1530)GGC>AGC	p.G510S		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	510	Disintegrin.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						ACATCCATGCCGGGACACACG	0.612													23	31					0	0	0.012319	0	0		T	28306946	T	T	28306946	3	4	19	1	0	0	0	0	1	0	0	0	269	652	23	1	1284	1	ADAMTS5	21	28306946	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1341812	28306946	19822949	2981	16494											
USP16	10600	broad.mit.edu	37	chr21	30414846	30414846	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctcccagttttagatgaTcaggtaagactattgaattt	11	15	7	8	0	1	4	1	2	0	2	3	4	3	4	2	1	0	2	2	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:30414846T>C	uc002ymy.2	+	12	1378	c.1176T>C	c.(1174-1176)GAT>GAC	p.D392D	USP16_uc002ymx.2_Silent_p.D391D|USP16_uc002ymw.2_Silent_p.D392D|USP16_uc011acm.1_Silent_p.D377D|USP16_uc011acn.1_Silent_p.D58D|USP16_uc011aco.1_Silent_p.D82D	NM_006447	NP_006438	Q9Y5T5	UBP16_HUMAN	ubiquitin specific protease 16 isoform a	392					cell division|histone deubiquitination|mitosis|positive regulation of transcription, DNA-dependent|protein homotetramerization|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|histone binding|transcription coactivator activity|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(2)|breast(1)|pancreas(1)	4						TTTTAGATGATCAGGTAAGAC	0.318													8	96					0	0	0.00308	0	0		C	30414846	C	C	30414846	2	2	19	1	0	0	0	0	0	0	0	1	17073	1432	50	3		3	USP16	21	30414846	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2107900	30414846	17715049	2982	16495											
CCT8	10694	broad.mit.edu	37	chr21	30432959	30432959	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaataccagcttccagcatgTcctttacagcagggacttca	11	10	8	12	0	1	0	1	0	0	0	3	2	3	1	3	1	5	3	3	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:30432959T>C	uc002ynb.2	-	14	1571	c.1472A>G	c.(1471-1473)GAC>GGC	p.D491G	CCT8_uc002ymz.2_Missense_Mutation_p.D107G|CCT8_uc011acp.1_Missense_Mutation_p.D472G|CCT8_uc002yna.2_Missense_Mutation_p.D440G|CCT8_uc002ync.2_Missense_Mutation_p.D490G|CCT8_uc010glm.2_Missense_Mutation_p.D432G|CCT8_uc011acq.1_Missense_Mutation_p.D418G	NM_006585	NP_006576	P50990	TCPQ_HUMAN	chaperonin containing TCP1, subunit 8 (theta)	491					'de novo' posttranslational protein folding	aggresome|cytosol|intermediate filament cytoskeleton|microtubule organizing center	ATP binding|ATPase activity, coupled|unfolded protein binding				0						TTCCAGCATGTCCTTTACAGC	0.398													44	103					0	0	0.011902	0	0		C	30432959	C	C	30432959	3	2	19	1	0	0	0	0	1	0	0	0	2963	1667	58	3	182	3	CCT8	21	30432959	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	18113	30432959	17696936	2983	16496											
CCT8	10694	broad.mit.edu	37	chr21	30439211	30439211	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catttactgatatttacttaCcgcatgcctgagcaataagc	12	13	6	10	1	0	2	0	2	0	0	0	2	0	2	2	0	6	2	2	0	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:30439211C>T	uc002ynb.2	-	5	661	c.562_splice	c.e5+1	p.V188_splice	CCT8_uc011acp.1_Splice_Site_p.V169_splice|CCT8_uc002yna.2_Splice_Site_p.V137_splice|CCT8_uc002ync.2_Splice_Site_p.V187_splice|CCT8_uc010glm.2_Intron|CCT8_uc011acq.1_Splice_Site_p.V115_splice	NM_006585	NP_006576	P50990	TCPQ_HUMAN	chaperonin containing TCP1, subunit 8 (theta)						'de novo' posttranslational protein folding	aggresome|cytosol|intermediate filament cytoskeleton|microtubule organizing center	ATP binding|ATPase activity, coupled|unfolded protein binding				0						TATTTACTTACCGCATGCCTG	0.333													26	38					0	0	0.003954	0	0		T	30439211	T	T	30439211	5	4	19	1	0	0	0	0	0	0	1	0	2963	521	18	4	1127	4	CCT8	21	30439211	Splice_Site	SNP	C	TCGA-BR-4361-01A-01D-1158-08	6252	30439211	17690684	2984	16497											
BACH1	571	broad.mit.edu	37	chr21	30693751	30693751	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggttccgcgctcaccggtcCgtgctggcggcatgcagcag	4	7	15	15	6	1	0	1	0	0	0	3	0	3	0	3	4	3	6	3	4	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:30693751C>T	uc002ynj.2	+	2	265	c.150C>T	c.(148-150)TCC>TCT	p.S50S	BACH1_uc002ynk.2_Silent_p.S50S|BACH1_uc002ynl.2_RNA	NM_001186	NP_001177	O14867	BACH1_HUMAN	BTB and CNC homology 1 transcription factor	50	BTB.					nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|liver(1)	2						CTCACCGGTCCGTGCTGGCGG	0.527													38	61					0	0	0.00623	0	0		T	30693751	T	T	30693751	2	4	19	1	0	0	0	0	0	0	0	1	1284	639	23	1		1	BACH1	21	30693751	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	254540	30693751	17436144	2985	16498											
KRTAP19-7	337974	broad.mit.edu	37	chr21	31933570	31933570	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaccgaatcctccacagccGtagcctaggcctccatagta	10	7	7	17	2	0	0	0	0	0	0	3	1	3	0	8	1	2	2	8	1	5	4	rs142979058	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:31933570G>A	uc011adb.1	-	1	39	c.39C>T	c.(37-39)TAC>TAT	p.Y13Y		NM_181614	NP_853645	Q3SYF9	KR197_HUMAN	keratin associated protein 19-7	13						intermediate filament					0						CTCCACAGCCGTAGCCTAGGC	0.537													22	34					0	0	0.005524	0	0		A	31933570	A	A	31933570	2	1	19	1	0	0	0	0	0	0	0	1	8550	1140	40	1		1	KRTAP19-7	21	31933570	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1239819	31933570	16196325	2986	16499											
TIAM1	7074	broad.mit.edu	37	chr21	32638371	32638371	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcatgctgttgctatggctAatttgtgggttggtggcacc	5	15	14	7	0	0	0	0	0	0	0	0	0	0	0	1	4	3	7	1	4	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:32638371A>G	uc002yow.1	-	5	1390	c.918T>C	c.(916-918)ATT>ATC	p.I306I	TIAM1_uc011adk.1_Silent_p.I306I|TIAM1_uc011adl.1_Silent_p.I306I|TIAM1_uc002yox.1_Intron	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	306					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TGCTATGGCTAATTTGTGGGT	0.428													33	60					0	0	0.004289	0	0		G	32638371	G	G	32638371	2	3	19	1	0	0	0	0	0	0	0	1	15915	358	13	3		3	TIAM1	21	32638371	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	704801	32638371	15491524	2987	16500											
C21orf59	56683	broad.mit.edu	37	chr21	33954534	33954534	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcgattcttgccccgcGtgtggggacgctgcagattt	4	12	15	10	4	1	1	0	0	1	1	1	3	1	2	2	2	3	2	2	2	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:33954534G>A	uc002ypy.1	-	7	1067	c.954C>T	c.(952-954)CAC>CAT	p.H318H	TCP10L_uc002ypw.3_Silent_p.H112H|C21orf59_uc002ypx.1_Silent_p.H135H|C21orf59_uc002ypz.1_Silent_p.H286H	NM_021254	NP_067077	P57076	CU059_HUMAN	hypothetical protein LOC56683	Error:Variant_position_missing_in_P57076_after_alignment						cytosol|nucleus					0						CTTGCCCCGCGTGTGGGGACG	0.498													62	132					0	0	0.01441	0	0		A	33954534	A	A	33954534	2	1	19	1	0	0	0	0	0	0	0	1	2133	1136	40	1		1	C21orf59	21	33954534	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1316163	33954534	14175361	2988	16501											
OLIG2	10215	broad.mit.edu	37	chr21	34399391	34399391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggacaagctaggaggcagtgGcttcaagtcatcctcgtcca	10	8	12	11	1	2	0	2	0	0	0	5	2	4	2	2	4	1	3	2	4	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:34399391G>A	uc002yqx.1	+	2	379	c.221G>A	c.(220-222)GGC>GAC	p.G74D		NM_005806	NP_005797	Q13516	OLIG2_HUMAN	oligodendrocyte lineage transcription factor 2	74						cytoplasm|nucleus|plasma membrane	DNA binding			central_nervous_system(2)	2						GGAGGCAGTGGCTTCAAGTCA	0.657			T	TRA@	T-ALL								13	7					0	0	0.00245	0	0		A	34399391	A	A	34399391	3	1	19	1	0	0	0	0	1	0	0	0	10880	1203	42	2	223	2	OLIG2	21	34399391	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	444857	34399391	13730504	2989	16502											
IFNAR2	3455	broad.mit.edu	37	chr21	34635727	34635727	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctcttcagagggcctgtgGtccgaagatgctccatctga	7	10	11	13	1	3	3	1	1	2	2	5	4	5	3	4	2	1	1	4	2	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:34635727G>A	uc002yrd.2	+	9	1798	c.1470G>A	c.(1468-1470)TGG>TGA	p.W490*	IFNAR2_uc002yre.2_Nonsense_Mutation_p.W490*|IFNAR2_uc002yrf.2_3'UTR|IL10RB_uc002yrh.1_Intron|IL10RB_uc002yri.1_Intron|IL10RB_uc002yrk.1_5'Flank	NM_207585	NP_997468	P48551	INAR2_HUMAN	interferon alpha/beta receptor 2 isoform a	490	Cytoplasmic (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to interferon-alpha|response to virus|type I interferon-mediated signaling pathway	extracellular region|extracellular space|integral to plasma membrane	protein kinase binding|type I interferon binding|type I interferon receptor activity				0					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	AGGGCCTGTGGTCCGAAGATG	0.483													9	172					0	0	0.004482	0	0		A	34635727	A	A	34635727	4	1	19	1	0	0	0	0	0	1	0	0	7561	1270	44	4	1660	4	IFNAR2	21	34635727	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	236336	34635727	13494168	2990	16503											
IFNAR1	3454	broad.mit.edu	37	chr21	34725143	34725143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atattgtgtgaaagccagagCacacaccatggatgaaaagc	16	7	10	8	0	0	3	0	2	0	1	0	4	0	4	2	1	3	1	2	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:34725143C>T	uc002yrn.2	+	9	1370	c.1223C>T	c.(1222-1224)GCA>GTA	p.A408V	IFNAR1_uc011adv.1_Missense_Mutation_p.A339V	NM_000629	NP_000620	P17181	INAR1_HUMAN	interferon-alpha receptor 1 precursor	408	Fibronectin type-III 3.|Extracellular (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	integral to plasma membrane	type I interferon receptor activity			central_nervous_system(1)|skin(1)	2					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	AAAGCCAGAGCACACACCATG	0.313													35	100					0	0	0.00623	0	0		T	34725143	T	T	34725143	3	4	19	1	0	0	0	0	1	0	0	0	7560	710	25	2	1257	2	IFNAR1	21	34725143	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	89416	34725143	13404752	2991	16504											
SON	6651	broad.mit.edu	37	chr21	34924576	34924576	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgttccatgatgtcatcttaCgaacgctctatgatgtctta	9	15	7	10	3	4	2	1	2	3	0	5	3	5	2	1	0	2	2	1	0	4	4	rs150871748		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:34924576C>T	uc002yse.1	+	3	3088	c.3039C>T	c.(3037-3039)TAC>TAT	p.Y1013Y	SON_uc002ysb.1_Silent_p.Y1013Y|SON_uc002ysc.2_Silent_p.Y1013Y|SON_uc002ysd.2_Silent_p.Y4Y|SON_uc002ysf.1_Intron|SON_uc002ysg.2_Silent_p.Y4Y	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	1013	14 X 6 AA repeats of [ED]-R-S-M-M-S.				anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						TGTCATCTTACGAACGCTCTA	0.488													32	67					0	0	0.009535	0	0		T	34924576	T	T	34924576	2	4	19	1	0	0	0	0	0	0	0	1	14951	547	19	1		1	SON	21	34924576	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	199433	34924576	13205319	2992	16505											
ITSN1	6453	broad.mit.edu	37	chr21	35169909	35169909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaggcaccctggtccactGcaggtattagaagccaaaaa	13	7	9	12	0	0	1	0	0	0	1	2	1	2	1	4	3	2	3	4	3	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:35169909G>A	uc002yta.1	+	18	2447	c.2179G>A	c.(2179-2181)GCA>ACA	p.A727T	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_RNA|ITSN1_uc002ysz.2_Missense_Mutation_p.A727T|ITSN1_uc010gmg.2_Missense_Mutation_p.A690T|ITSN1_uc010gmh.2_RNA|ITSN1_uc002ysw.2_Missense_Mutation_p.A727T|ITSN1_uc010gmi.2_Missense_Mutation_p.A690T|ITSN1_uc010gmj.2_Missense_Mutation_p.A611T|ITSN1_uc002ysy.2_Missense_Mutation_p.A727T|ITSN1_uc002ysx.2_Missense_Mutation_p.A690T|ITSN1_uc002ytb.1_Missense_Mutation_p.A727T|ITSN1_uc002ytc.1_Missense_Mutation_p.A727T|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Missense_Mutation_p.A690T|ITSN1_uc010gml.2_RNA|ITSN1_uc002ytj.2_Missense_Mutation_p.A727T|ITSN1_uc010gmm.1_RNA|ITSN1_uc002yte.2_Missense_Mutation_p.A661T	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	727					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						CTGGTCCACTGCAGGTATTAG	0.473													8	62					0	0	0.00308	0	0		A	35169909	A	A	35169909	3	1	19	1	0	0	0	0	1	0	0	0	7942	1319	46	2	2245	2	ITSN1	21	35169909	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	245333	35169909	12959986	2993	16506											
CLIC6	54102	broad.mit.edu	37	chr21	36081075	36081076	+	Frame_Shift_Ins	INS	-	A	A																															gccaaattctcagcgtttatINSaaaaaacacgaagaaggatg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:36081075_36081076insA	uc010gmt.1	+	5	1742_1743	c.1742_1743insA	c.(1741-1743)ATAfs	p.I581fs	CLIC6_uc002yuf.1_Frame_Shift_Ins_p.I563fs	NM_053277	NP_444507	Q96NY7	CLIC6_HUMAN	chloride intracellular channel 6	581	GST C-terminal.					chloride channel complex|cytoplasm|plasma membrane	voltage-gated chloride channel activity			ovary(1)|central_nervous_system(1)	2						TCAGCGTTTATAAAAAACACGA	0.455													27	60	---	---	---	---						.	A	36081076	A	A	36081075	7	5	19	1	0	1	1	0	0	0	0	0	3533	1406	49	0	1702	0	CLIC6	21	36081075	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	911166	36081075	12048820	2994	16507											
CBR3	874	broad.mit.edu	37	chr21	37507764	37507764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgtactggtcaacaacgcgGccgtcgccttcaagagtagg	10	7	12	12	5	2	1	2	0	0	1	3	1	2	1	2	3	3	2	2	3	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:37507764G>A	uc002yve.2	+	1	502	c.274G>A	c.(274-276)GCC>ACC	p.A92T	uc002yvc.1_Intron|uc002yvd.1_Intron	NM_001236	NP_001227	O75828	CBR3_HUMAN	carbonyl reductase 3	92						cytosol|nucleus	carbonyl reductase (NADPH) activity|NADPH binding				0						CAACAACGCGGCCGTCGCCTT	0.667													5	15					0	0	0.001984	0	0		A	37507764	A	A	37507764	3	1	19	1	0	0	0	0	1	0	0	0	2712	1203	42	2	276	2	CBR3	21	37507764	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1426689	37507764	10622131	2995	16508											
DOPEY2	9980	broad.mit.edu	37	chr21	37650357	37650358	+	Frame_Shift_Ins	INS	-	T	T																															ctcccgtctgctttactatgINStttttccatacttacgcaac																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:37650357_37650358insT	uc002yvg.2	+	29	5876_5877	c.5797_5798insT	c.(5797-5799)GTTfs	p.V1933fs	DOPEY2_uc011aeb.1_Frame_Shift_Ins_p.V1882fs	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	1933					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						GCTTTACTATGTTTTTCCATAC	0.426													59	112	---	---	---	---						.	T	37650358	T	T	37650357	7	5	19	1	0	1	1	0	0	0	0	0	4714	1377	48	0	5907	0	DOPEY2	21	37650357	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	142593	37650357	10479538	2996	16509											
MORC3	23515	broad.mit.edu	37	chr21	37710133	37710133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgggtaaagacgcaatcGtttttaccaaaaatggagaa	15	10	10	6	2	1	2	0	0	1	2	2	3	1	2	1	2	1	3	1	2	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:37710133G>A	uc002yvi.2	+	4	425	c.349G>A	c.(349-351)GTT>ATT	p.V117I		NM_015358	NP_056173	Q14149	MORC3_HUMAN	MORC family CW-type zinc finger 3	117					cell aging|maintenance of protein location in nucleus|negative regulation of fibroblast proliferation|peptidyl-serine phosphorylation|protein stabilization	aggresome|intermediate filament cytoskeleton|PML body	ATP binding|zinc ion binding			ovary(2)	2						AGACGCAATCGTTTTTACCAA	0.448													51	118					0	0	0.01441	0	0		A	37710133	A	A	37710133	3	1	19	1	0	0	0	0	1	0	0	0	9721	1145	40	1	363	1	MORC3	21	37710133	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	59776	37710133	10419762	2997	16510											
CHAF1B	8208	broad.mit.edu	37	chr21	37759988	37759988	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagccgtcaatgttgtgcgTttttctccaactggggaaat	10	13	10	8	2	2	0	1	0	1	0	3	1	2	1	2	2	3	2	2	2	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:37759988T>C	uc002yvj.2	+	3	357	c.219T>C	c.(217-219)CGT>CGC	p.R73R		NM_005441	NP_005432	Q13112	CAF1B_HUMAN	chromatin assembly factor 1 subunit B	73	WD 2.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|cytoplasm	chromatin binding|histone binding|unfolded protein binding			ovary(1)|skin(1)	2						ATGTTGTGCGTTTTTCTCCAA	0.448													71	210					0	0	0.01441	0	0		C	37759988	C	C	37759988	2	2	19	1	0	0	0	0	0	0	0	1	3315	1712	60	3		3	CHAF1B	21	37759988	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	49855	37759988	10369907	2998	16511											
TTC3	7267	broad.mit.edu	37	chr21	38529006	38529006	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgttatggagcatctcttaaActgcttgattttagtatcat	10	17	7	7	1	2	1	1	1	1	0	3	2	2	2	0	1	3	4	0	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:38529006A>C	uc002yvz.2	+	28	2895	c.2790A>C	c.(2788-2790)AAA>AAC	p.K930N	TTC3_uc011aee.1_Missense_Mutation_p.K620N|TTC3_uc002ywa.2_Missense_Mutation_p.K930N|TTC3_uc002ywb.2_Missense_Mutation_p.K930N|TTC3_uc010gnf.2_Missense_Mutation_p.K695N|TTC3_uc002ywc.2_Missense_Mutation_p.K620N|TTC3_uc002ywd.1_5'UTR	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	930					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				CATCTCTTAAACTGCTTGATT	0.363													41	82					0	0	0.007835	0	0		C	38529006	C	C	38529006	3	2	19	1	0	0	0	0	1	0	0	0	16723	40	2	5	2896	5	TTC3	21	38529006	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	769018	38529006	9600889	2999	16512											
DYRK1A	1859	broad.mit.edu	37	chr21	38845110	38845110	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtacagtgaccgtcgccaGccaaacataagtgaccaaca	15	5	8	13	2	0	2	0	2	0	0	1	2	0	2	4	0	4	1	4	0	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:38845110G>A	uc002ywk.2	+	2	210	c.135G>A	c.(133-135)CAG>CAA	p.Q45Q	DYRK1A_uc002ywg.1_RNA|DYRK1A_uc010gno.1_RNA|DYRK1A_uc002ywh.1_Silent_p.Q16Q|DYRK1A_uc002ywi.2_Silent_p.Q45Q|DYRK1A_uc002ywj.2_Silent_p.Q45Q|DYRK1A_uc002ywl.2_Silent_p.Q45Q|DYRK1A_uc002ywm.2_Silent_p.Q45Q	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	45					nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						ACCGTCGCCAGCCAAACATAA	0.468													42	104					0	0	0.010771	0	0		A	38845110	A	A	38845110	2	1	19	1	0	0	0	0	0	0	0	1	4860	962	34	2		2	DYRK1A	21	38845110	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	316104	38845110	9284785	3000	16513											
KCNJ6	3763	broad.mit.edu	37	chr21	39087116	39087116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtctccccgtatgtatGcgatcaaccaccagatcatt	10	11	6	14	2	3	1	2	0	1	1	4	2	3	1	5	0	2	2	5	0	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:39087116G>A	uc011aej.1	-	3	397	c.344C>T	c.(343-345)GCA>GTA	p.A115V	KCNJ6_uc002ywo.2_Missense_Mutation_p.A115V	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	115	Extracellular (By similarity).				synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	CCGTATGTATGCGATCAACCA	0.453													62	132					0	0	0.01441	0	0		A	39087116	A	A	39087116	3	1	19	1	0	0	0	0	1	0	0	0	8071	1319	46	2	935	2	KCNJ6	21	39087116	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	242006	39087116	9042779	3001	16514											
DSCR4	10281	broad.mit.edu	37	chr21	39427042	39427042	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggtatttccaaatcagAcattttgcccaaaattgctg	12	14	7	8	0	1	1	1	0	0	1	2	1	2	1	2	1	2	3	2	1	4	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:39427042A>T	uc002ywp.2	-	3	369	c.264T>A	c.(262-264)TGT>TGA	p.C88*		NM_005867	NP_005858	P56555	DSCR4_HUMAN	Down syndrome critical region protein 4	88										ovary(1)	1						TCCAAATCAGACATTTTGCCC	0.438													53	114					0	0	0.01441	0	0		T	39427042	T	T	39427042	4	4	19	1	0	0	0	0	0	1	0	0	4778	273	10	5	96	5	DSCR4	21	39427042	Nonsense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	339926	39427042	8702853	3002	16515											
ERG	2078	broad.mit.edu	37	chr21	39755781	39755781	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgccttcccaggtgatgcaGctggagttggagctgtccga	6	10	15	10	1	0	1	0	1	0	0	2	4	2	3	3	3	4	4	3	3	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:39755781G>A	uc010gnw.2	-	12	1300	c.1005C>T	c.(1003-1005)AGC>AGT	p.S335S	ERG_uc002yxa.2_Silent_p.S328S|ERG_uc011aek.1_Silent_p.S236S|ERG_uc010gnv.2_Silent_p.S212S|ERG_uc010gnx.2_Silent_p.S311S|ERG_uc011ael.1_Silent_p.S335S|ERG_uc002yxb.2_Silent_p.S311S	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	335	ETS.				cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				AGGTGATGCAGCTGGAGTTGG	0.587													33	80					0	0	0.004289	0	0		A	39755781	A	A	39755781	2	1	19	1	0	0	0	0	0	0	0	1	5230	962	34	2		2	ERG	21	39755781	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	328739	39755781	8374114	3003	16516											
RIPK4	54101	broad.mit.edu	37	chr21	43161435	43161435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccgcggccacgtgcagggGtgtctgtgccagcaggctgc	4	7	16	14	3	1	0	0	0	1	0	2	0	2	0	3	4	4	3	3	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:43161435G>A	uc002yzn.1	-	8	1966	c.1918C>T	c.(1918-1920)CCC>TCC	p.P640S		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	640						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						ACGTGCAGGGGTGTCTGTGCC	0.692													9	54					0	0	0.008291	0	0		A	43161435	A	A	43161435	3	1	19	1	0	0	0	0	1	0	0	0	13408	1261	44	4	440	4	RIPK4	21	43161435	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3405654	43161435	4968460	3004	16517											
C2CD2	25966	broad.mit.edu	37	chr21	43342131	43342131	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtacagccggcatccagcacCcaaggcaggcgtctcgctga	9	5	12	15	3	1	1	0	1	1	0	3	1	2	1	3	3	3	5	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:43342131C>A	uc002yzw.2	-	3	684	c.442G>T	c.(442-444)GGT>TGT	p.G148C	C2CD2_uc002yzu.2_5'Flank|C2CD2_uc002yzv.2_5'UTR|C2CD2_uc002yzx.1_5'UTR	NM_015500	NP_056315	Q9Y426	CU025_HUMAN	C2 calcium-dependent domain containing 2 isoform	148						cytosol|extracellular region|nucleus				ovary(1)	1						CATCCAGCACCCAAGGCAGGC	0.537													26	46					1.17739e-12	1.23829e-12	0.005443	1	0		A	43342131	A	A	43342131	3	1	19	1	0	0	0	0	1	0	0	0	2155	623	22	5	1696	5	C2CD2	21	43342131	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	180696	43342131	4787764	3005	16518											
ZNF295	49854	broad.mit.edu	37	chr21	43414117	43414117	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaatcagcagcacatcacAcagctgtcctttgagacgct	13	8	7	13	1	2	1	2	1	0	1	3	2	3	1	1	0	4	4	1	0	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:43414117A>T	uc002zab.3	-	3	302	c.88T>A	c.(88-90)TGT>AGT	p.C30S	ZNF295_uc002yzz.3_Missense_Mutation_p.C30S|ZNF295_uc002yzy.3_Missense_Mutation_p.C30S|ZNF295_uc002zaa.3_Missense_Mutation_p.C30S|ZNF295_uc010gov.1_Missense_Mutation_p.C30S|ZNF295_uc002zac.2_Missense_Mutation_p.C30S	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	30	Mediates homodimerization.|BTB.				negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						AGCACATCACACAGCTGTCCT	0.458													55	116					0	0	0.01441	0	0		T	43414117	T	T	43414117	3	4	19	1	0	0	0	0	1	0	0	0	17852	159	6	5	3116	5	ZNF295	21	43414117	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	71986	43414117	4715778	3006	16519											
SLC37A1	54020	broad.mit.edu	37	chr21	43955631	43955631	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctggactactccttcctGtgcgcctatgccgtggggat	4	11	12	14	2	0	0	0	0	0	0	2	2	2	2	5	3	3	0	5	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:43955631G>A	uc002zbi.2	+	6	733	c.321G>A	c.(319-321)CTG>CTA	p.L107L	SLC37A1_uc002zbj.2_Silent_p.L107L	NM_018964	NP_061837	P57057	GLPT_HUMAN	solute carrier family 37 member 1	107	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane					0						ACTCCTTCCTGTGCGCCTATG	0.498													62	145					0	0	0.01441	0	0		A	43955631	A	A	43955631	2	1	19	1	0	0	0	0	0	0	0	1	14622	1364	48	4		4	SLC37A1	21	43955631	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	541514	43955631	4174264	3007	16520											
PKNOX1	5316	broad.mit.edu	37	chr21	44430270	44430270	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgtagacatcgaaaattTtgtaagaaagcaagagaagg	18	9	11	3	1	0	4	0	1	0	3	1	6	0	4	0	1	1	3	0	1	7	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:44430270T>C	uc002zcq.1	+	4	475	c.287T>C	c.(286-288)TTT>TCT	p.F96S	PKNOX1_uc002zcp.1_Missense_Mutation_p.F96S|PKNOX1_uc011aex.1_Intron|PKNOX1_uc002zcr.2_Missense_Mutation_p.F96S	NM_004571	NP_004562	P55347	PKNX1_HUMAN	PBX/knotted 1 homeobox 1	96							sequence-specific DNA binding			large_intestine(2)	2						ATCGAAAATTTTGTAAGAAAG	0.308													4	61					0	0	0.009096	0	0		C	44430270	C	C	44430270	3	2	19	1	0	0	0	0	1	0	0	0	12001	1841	64	3	297	3	PKNOX1	21	44430270	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	474639	44430270	3699625	3008	16521											
PDXK	8566	broad.mit.edu	37	chr21	45161602	45161602	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgagctccaggagttgtAcgaaggcctgaggctgaaca	12	7	14	8	1	0	4	0	3	0	1	1	6	1	5	2	3	3	4	2	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:45161602A>G	uc002zdm.3	+	3	395	c.197A>G	c.(196-198)TAC>TGC	p.Y66C	PDXK_uc010gpj.2_Missense_Mutation_p.Y66C|PDXK_uc002zdn.3_Missense_Mutation_p.Y66C|PDXK_uc002zdq.3_5'UTR	NM_003681	NP_003672	O00764	PDXK_HUMAN	pyridoxal kinase	66					cell proliferation|pyridoxal 5'-phosphate salvage	cytosol	ATP binding|lithium ion binding|magnesium ion binding|potassium ion binding|protein homodimerization activity|pyridoxal kinase activity|pyridoxal phosphate binding|sodium ion binding|zinc ion binding				0				Colorectal(79;0.109)|READ - Rectum adenocarcinoma(84;0.161)|STAD - Stomach adenocarcinoma(101;0.18)	Pyridoxal(DB00147)|Pyridoxine(DB00165)	CAGGAGTTGTACGAAGGCCTG	0.582													5	57					0	0	0.001168	0	0		G	45161602	G	G	45161602	3	3	19	1	0	0	0	0	1	0	0	0	11716	391	14	3	207	3	PDXK	21	45161602	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	731332	45161602	2968293	3009	16522											
TRAPPC10	7109	broad.mit.edu	37	chr21	45472325	45472325	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctctattgtggacaaaatAagaaatgatttttgtaataa	17	14	6	4	0	1	2	0	1	1	1	1	3	1	3	1	1	0	1	1	1	7	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:45472325A>G	uc002zea.2	+	4	619	c.450A>G	c.(448-450)ATA>ATG	p.I150M	TRAPPC10_uc010gpo.2_Translation_Start_Site|TRAPPC10_uc002zdz.2_Missense_Mutation_p.I150M	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	150					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						TGGACAAAATAAGAAATGATT	0.353													4	134					0	0	0.009096	0	0		G	45472325	G	G	45472325	3	3	19	1	0	0	0	0	1	0	0	0	16483	352	13	3	464	3	TRAPPC10	21	45472325	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	310723	45472325	2657570	3010	16523											
PWP2	5822	broad.mit.edu	37	chr21	45534550	45534550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cattgcccagatgtatcatgCccctgggaagaagcgggagt	10	8	13	10	1	1	2	1	0	0	2	1	4	1	4	3	2	3	1	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:45534550C>T	uc002zeb.2	+	5	461	c.371C>T	c.(370-372)GCC>GTC	p.A124V		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	124	WD 3.					cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		ATGTATCATGCCCCTGGGAAG	0.517													45	78					0	0	0.013114	0	0		T	45534550	T	T	45534550	3	4	19	1	0	0	0	0	1	0	0	0	12869	739	26	2	389	2	PWP2	21	45534550	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	62225	45534550	2595345	3011	16524											
C21orf2	755	broad.mit.edu	37	chr21	45752928	45752928	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacctaccctggttgtccaGcttctgtaggcgcggcaggg	5	9	13	14	2	1	0	0	0	1	0	2	0	2	0	4	4	2	4	4	4	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:45752928G>A	uc002zep.2	-	4	569	c.361C>T	c.(361-363)CTG>TTG	p.L121L	C21orf2_uc002zeo.1_Silent_p.L80L|C21orf2_uc002zeq.2_Silent_p.L121L|C21orf2_uc002zer.2_Silent_p.L121L	NM_004928	NP_004919	O43822	CU002_HUMAN	hypothetical protein LOC755	121	LRRCT.										0				Colorectal(79;0.0806)		TGGTTGTCCAGCTTCTGTAGG	0.657													6	6					0	0	0.008291	0	0		A	45752928	A	A	45752928	2	1	19	1	0	0	0	0	0	0	0	1	2126	962	34	2		2	C21orf2	21	45752928	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	218378	45752928	2376967	3012	16525											
C21orf29	54084	broad.mit.edu	37	chr21	45953666	45953666	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccaccagggccgggctGcggaaggacactcgggtctg	7	5	15	14	3	1	0	0	0	1	0	3	2	2	2	4	5	1	1	4	5	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:45953666G>A	uc002zfe.1	-	3	510	c.444C>T	c.(442-444)CGC>CGT	p.R148R	C21orf29_uc010gpv.1_Silent_p.R80R	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	148	TSP N-terminal.				cell adhesion	extracellular region	structural molecule activity				0						GGGCCGGGCTGCGGAAGGACA	0.687													16	23					0	0	0.00278	0	0		A	45953666	A	A	45953666	2	1	19	1	0	0	0	0	0	0	0	1	2127	1306	46	2		2	C21orf29	21	45953666	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	200738	45953666	2176229	3013	16526											
KRTAP10-6	386674	broad.mit.edu	37	chr21	46011724	46011724	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggtgcagcaagttggctgGcagctagactgctggcagca	9	7	16	9	0	0	1	0	0	0	1	0	2	0	1	0	4	5	9	0	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:46011724G>A	uc002zfm.2	-	1	663	c.642C>T	c.(640-642)TGC>TGT	p.C214C	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198688	NP_941961	P60371	KR106_HUMAN	keratin associated protein 10-6	214	29 X 5 AA repeats of C-C-X(3).					keratin filament					0						AAGTTGGCTGGCAGCTAGACT	0.672													55	167					0	0	0.01441	0	0		A	46011724	A	A	46011724	2	1	19	1	0	0	0	0	0	0	0	1	8529	1195	42	2		2	KRTAP10-6	21	46011724	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	58058	46011724	2118171	3014	16527											
KRTAP10-9	386676	broad.mit.edu	37	chr21	46047214	46047214	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctgcgccccggccccctgCctgaccctggtctgcacccc	2	7	10	22	2	1	1	0	1	1	0	1	1	1	1	8	2	4	2	8	2	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:46047214C>T	uc002zfp.3	+	1	175	c.126C>T	c.(124-126)TGC>TGT	p.C42C	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9	42	25 X 5 AA repeats of C-C-X(3).					keratin filament					0						CGGCCCCCTGCCTGACCCTGG	0.692													24	67					0	0	0.003954	0	0		T	46047214	T	T	46047214	2	4	19	1	0	0	0	0	0	0	0	1	8532	747	26	2		2	KRTAP10-9	21	46047214	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	35490	46047214	2082681	3015	16528											
ITGB2	3689	broad.mit.edu	37	chr21	46313382	46313382	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctgtgcgtcactccattGctgcagaaggagtcgtaggt	7	12	12	10	2	1	1	1	0	0	1	4	2	3	2	2	2	3	3	2	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:46313382G>A	uc002zgd.2	-	9	1205	c.1161C>T	c.(1159-1161)AGC>AGT	p.S387S	ITGB2_uc002zge.2_Silent_p.S387S|ITGB2_uc002zgf.3_Silent_p.S387S|ITGB2_uc011afl.1_Silent_p.S309S|ITGB2_uc010gpw.2_Silent_p.S330S|ITGB2_uc002zgg.2_Silent_p.S387S	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	387	Extracellular (Potential).				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	TCACTCCATTGCTGCAGAAGG	0.597											OREG0026255	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	206					0	0	0.008871	0	0		A	46313382	A	A	46313382	2	1	19	1	0	0	0	0	0	0	0	1	7910	1310	46	2		2	ITGB2	21	46313382	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	266168	46313382	1816513	3016	16529											
C21orf70	85395	broad.mit.edu	37	chr21	46363606	46363606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggacattaggactgggCgttcatcaacaccaacatct	11	10	10	10	1	3	0	2	0	1	0	3	2	3	2	1	4	2	1	1	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:46363606C>T	uc002zgl.2	+	2	155	c.137C>T	c.(136-138)GCG>GTG	p.A46V	C21orf70_uc002zgm.2_Missense_Mutation_p.A46V	NM_058190	NP_478070	Q9NSI2	CU070_HUMAN	hypothetical protein LOC85395	46											0				Colorectal(79;0.248)		TAGGACTGGGCGTTCATCAAC	0.517													30	88					0	0	0.003755	0	0		T	46363606	T	T	46363606	3	4	19	1	0	0	0	0	1	0	0	0	2136	768	27	1	143	1	C21orf70	21	46363606	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	50224	46363606	1766289	3017	16530											
ADARB1	104	broad.mit.edu	37	chr21	46591577	46591577	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaagtattttgccatggaTatagaagatgaagaaaacat	19	10	8	4	0	0	4	0	1	0	3	0	5	0	5	1	1	2	1	1	1	9	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:46591577T>C	uc002zgy.2	+	3	441	c.6T>C	c.(4-6)GAT>GAC	p.D2D	ADARB1_uc002zgr.2_Silent_p.D2D|ADARB1_uc002zgs.2_RNA|ADARB1_uc002zgw.2_Silent_p.D2D|ADARB1_uc002zgv.2_RNA|ADARB1_uc002zgt.2_Silent_p.D2D|ADARB1_uc010gpx.2_RNA|ADARB1_uc002zgq.2_RNA|ADARB1_uc002zgu.2_RNA|ADARB1_uc011afo.1_Silent_p.D51D	NM_015833	NP_056648	P78563	RED1_HUMAN	RNA-specific adenosine deaminase B1 isoform 2	2					adenosine to inosine editing|mRNA modification|mRNA processing|RNA processing	nucleoplasm|nucleus	double-stranded RNA adenosine deaminase activity|double-stranded RNA adenosine deaminase activity|double-stranded RNA binding|double-stranded RNA binding|metal ion binding|mRNA binding|RNA binding			skin(1)	1				Colorectal(79;0.115)		TTGCCATGGATATAGAAGATG	0.353													8	84					0	0	0.006214	0	0		C	46591577	C	C	46591577	2	2	19	1	0	0	0	0	0	0	0	1	282	1403	49	3		3	ADARB1	21	46591577	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	227971	46591577	1538318	3018	16531											
MCM3AP	8888	broad.mit.edu	37	chr21	47685905	47685905	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccaggctctccccgatgtActtgttctgggagttgaagc	6	11	13	11	1	2	1	0	1	2	0	3	3	2	2	3	3	2	4	3	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:47685905A>G	uc002zir.1	-	11	3001	c.2965T>C	c.(2965-2967)TAC>CAC	p.Y989H	MCM3AP_uc002ziq.1_5'UTR	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	989					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					TCCCCGATGTACTTGTTCTGG	0.617													81	119					0	0	0.01441	0	0		G	47685905	G	G	47685905	3	3	19	1	0	0	0	0	1	0	0	0	9406	391	14	3	3049	3	MCM3AP	21	47685905	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1094328	47685905	443990	3019	16532											
C21orf57	54059	broad.mit.edu	37	chr21	47711299	47711299	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attttccagatgactacaatTtgggagacattttcctagga	12	14	8	7	0	0	3	0	1	0	2	2	5	2	4	2	2	1	0	2	2	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:47711299T>C	uc002ziv.2	+	3	691	c.262T>C	c.(262-264)TTG>CTG	p.L88L	C21orf57_uc002zit.1_Silent_p.L88L|C21orf57_uc002ziu.1_Silent_p.L88L|C21orf57_uc002ziw.2_Silent_p.L43L|C21orf57_uc002zix.2_Silent_p.L88L|C21orf57_uc010gqh.2_Intron|C21orf57_uc002ziy.2_Intron|uc010gqi.1_5'Flank	NM_058181	NP_478061	P58557	YBEY_HUMAN	hypothetical protein LOC54059 isoform 1	88							metal ion binding|metalloendopeptidase activity				0	Breast(49;0.112)			Colorectal(79;0.236)		TGACTACAATTTGGGAGACAT	0.403													28	75					0	0	0.007291	0	0		C	47711299	C	C	47711299	2	2	19	1	0	0	0	0	0	0	0	1	2131	1838	64	3		3	C21orf57	21	47711299	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	25394	47711299	418596	3020	16533											
C21orf58	54058	broad.mit.edu	37	chr21	47738113	47738113	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggtgttgcctgcagggcggGccttacctcctggagaccag	5	8	15	13	2	0	1	0	0	0	1	1	2	1	1	5	4	3	2	5	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:47738113G>A	uc002zjf.2	-	3	1256	c.122C>T	c.(121-123)GCC>GTC	p.A41V	C21orf58_uc002ziz.2_5'UTR|C21orf58_uc002zja.2_5'UTR|C21orf58_uc011afw.1_5'UTR|C21orf58_uc002zjc.2_5'UTR|C21orf58_uc011afx.1_5'UTR|C21orf58_uc010gqj.1_RNA|C21orf58_uc002zjg.1_RNA	NM_058180	NP_478060	P58505	CU058_HUMAN	hypothetical protein LOC54058	41										pancreas(1)	1	Breast(49;0.112)			Colorectal(79;0.239)		TGCAGGGCGGGCCTTACCTCC	0.652													7	81					0	0	0.00308	0	0		A	47738113	A	A	47738113	3	1	19	1	0	0	0	0	1	0	0	0	2132	1203	42	2	874	2	C21orf58	21	47738113	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	26814	47738113	391782	3021	16534											
DIP2A	23181	broad.mit.edu	37	chr21	47961794	47961794	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgttcaggacgttggtcAggtgatgcctggaggtaaga	9	11	15	6	1	2	2	2	1	0	1	2	4	2	4	1	5	2	3	1	5	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr21:47961794A>G	uc002zjo.2	+	18	2345	c.2162A>G	c.(2161-2163)CAG>CGG	p.Q721R	DIP2A_uc011afy.1_Missense_Mutation_p.Q657R|DIP2A_uc011afz.1_Missense_Mutation_p.Q717R|DIP2A_uc002zjl.2_Missense_Mutation_p.Q721R|DIP2A_uc002zjm.2_Missense_Mutation_p.Q721R|DIP2A_uc010gql.2_Missense_Mutation_p.Q678R|DIP2A_uc002zjn.2_Missense_Mutation_p.Q721R|DIP2A_uc002zjp.1_Missense_Mutation_p.Q466R|DIP2A_uc002zjq.2_Missense_Mutation_p.Q113R	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	721					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		GACGTTGGTCAGGTGATGCCT	0.393													6	78					0	0	0.001168	0	0		G	47961794	G	G	47961794	3	3	19	1	0	0	0	0	1	0	0	0	4533	188	7	3	2232	3	DIP2A	21	47961794	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	223681	47961794	168101	3022	16535											
XKR3	150165	broad.mit.edu	37	chr22	17264918	17264918	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgacaactgcagtttcactGctgaccagcaggagaagttg	11	9	11	10	0	1	3	1	2	0	1	1	4	1	3	1	1	4	5	1	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:17264918G>T	uc002zlv.2	-	4	1069	c.971C>A	c.(970-972)GCA>GAA	p.A324E	XKR3_uc011agf.1_Missense_Mutation_p.A324E	NM_175878	NP_787074	Q5GH77	XKR3_HUMAN	X Kell blood group precursor-related family,	324						integral to membrane|plasma membrane				large_intestine(1)|ovary(1)|skin(1)	3	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				CAGTTTCACTGCTGACCAGCA	0.418													9	122					0.00621372	0.00631433	0.006214	1	0		T	17264918	T	T	17264918	3	4	19	1	0	0	0	0	1	0	0	0	17458	1319	46	5	412	5	XKR3	22	17264918	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08		17264918	34039648	3023	16536											
XKR3	150165	broad.mit.edu	37	chr22	17265193	17265193	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgacacagaagaattctatCggcggtagcttaatggtagt	13	10	11	7	3	1	2	0	0	1	2	2	3	1	2	0	3	1	3	0	3	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:17265193C>T	uc002zlv.2	-	4	794	c.696G>A	c.(694-696)CCG>CCA	p.P232P	XKR3_uc011agf.1_Silent_p.P232P	NM_175878	NP_787074	Q5GH77	XKR3_HUMAN	X Kell blood group precursor-related family,	232						integral to membrane|plasma membrane				large_intestine(1)|ovary(1)|skin(1)	3	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				AGAATTCTATCGGCGGTAGCT	0.433													12	17					0	0	0.00245	0	0		T	17265193	T	T	17265193	2	4	19	1	0	0	0	0	0	0	0	1	17458	871	31	1		1	XKR3	22	17265193	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	275	17265193	34039373	3024	16537											
CECR5	27440	broad.mit.edu	37	chr22	17625945	17625945	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccgctccaggtccaccAtgtcaagcagaggaaaggcc	10	4	12	15	2	1	1	1	0	0	1	3	2	3	2	6	3	1	2	6	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:17625945A>T	uc002zmf.2	-	4	534	c.506T>A	c.(505-507)ATG>AAG	p.M169K	CECR5_uc002zme.2_5'UTR|CECR5_uc002zmg.2_Intron|CECR5_uc002zmh.2_Missense_Mutation_p.M139K	NM_033070	NP_149061	Q9BXW7	CECR5_HUMAN	cat eye syndrome chromosome region, candidate 5	169							hydrolase activity				0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)				CAGGTCCACCATGTCAAGCAG	0.557													3	51					0	0	0.009096	0	0		T	17625945	T	T	17625945	3	4	19	1	0	0	0	0	1	0	0	0	3210	217	8	5	785	5	CECR5	22	17625945	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	360752	17625945	33678621	3025	16538											
CECR1	51816	broad.mit.edu	37	chr22	17662465	17662465	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actctccaacagggtactgtAcctgcaggaagaggaggagc	12	6	13	10	0	1	1	0	0	1	1	2	4	1	4	2	4	5	3	2	4	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:17662465A>G	uc002zmk.1	-	9	1656	c.1444T>C	c.(1444-1446)TAC>CAC	p.Y482H	CECR1_uc010gqu.1_Missense_Mutation_p.Y482H|CECR1_uc011agi.1_Missense_Mutation_p.Y440H|CECR1_uc002zmj.1_Missense_Mutation_p.Y241H	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	482					adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				AGGGTACTGTACCTGCAGGAA	0.532													28	246					0	0	0.005443	0	0		G	17662465	G	G	17662465	3	3	19	1	0	0	0	0	1	0	0	0	3208	405	14	3	95	3	CECR1	22	17662465	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	36520	17662465	33642101	3026	16539											
CECR2	27443	broad.mit.edu	37	chr22	17984004	17984004	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagctctacaagctcctcAgtgaggacttcctgcctgag	8	9	11	13	0	2	2	1	2	1	0	4	3	4	3	3	2	4	3	3	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:17984004A>G	uc010gqw.1	+	6	826	c.700A>G	c.(700-702)AGT>GGT	p.S234G	CECR2_uc010gqv.1_Missense_Mutation_p.S113G|CECR2_uc002zml.2_Missense_Mutation_p.S113G|CECR2_uc002zmm.1_Missense_Mutation_p.S113G	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	276					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		CAAGCTCCTCAGTGAGGACTT	0.552													11	26					0	0	0.001855	0	0		G	17984004	G	G	17984004	3	3	19	1	0	0	0	0	1	0	0	0	3209	188	7	3	724	3	CECR2	22	17984004	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	321539	17984004	33320562	3027	16540											
MICAL3	57553	broad.mit.edu	37	chr22	18368674	18368674	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccgatggactgtgcgggCgcattctcttcaaatttggc	7	12	12	10	3	2	0	1	0	1	0	3	2	2	1	1	3	2	1	1	3	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:18368674C>T	uc002zng.3	-	16	2564	c.2211G>A	c.(2209-2211)GCG>GCA	p.A737A	MICAL3_uc011agl.1_Silent_p.A737A|MICAL3_uc002znh.2_Silent_p.A737A|MICAL3_uc002znj.1_Silent_p.A437A|MICAL3_uc002znk.1_Silent_p.A737A|MICAL3_uc002znl.1_Silent_p.A370A|MICAL3_uc002znm.2_Silent_p.A238A|MICAL3_uc010grf.2_Silent_p.A737A	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	737						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		ACTGTGCGGGCGCATTCTCTT	0.547													58	132					0	0	0.01441	0	0		T	18368674	T	T	18368674	2	4	19	1	0	0	0	0	0	0	0	1	9589	755	27	1		1	MICAL3	22	18368674	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	384670	18368674	32935892	3028	16541											
USP18	11274	broad.mit.edu	37	chr22	18643009	18643009	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaggtgttcgtaatgaaTgtggacttcaccaggatatt	11	14	10	6	1	2	1	2	1	0	0	3	3	2	3	1	3	0	2	1	3	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:18643009T>C	uc002zny.2	+	3	566	c.228T>C	c.(226-228)AAT>AAC	p.N76N		NM_017414	NP_059110	Q9UMW8	UBP18_HUMAN	ubiquitin specific protease 18	76					regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway|ubiquitin-dependent protein catabolic process	cytosol|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			breast(1)	1						TCGTAATGAATGTGGACTTCA	0.343													4	104					0	0	0.000602	0	0		C	18643009	C	C	18643009	2	2	19	1	0	0	0	0	0	0	0	1	17075	1461	51	3		3	USP18	22	18643009	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	274335	18643009	32661557	3029	16542											
TSSK2	23617	broad.mit.edu	37	chr22	19119658	19119658	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgagtgcaaggacctcaTctaccgcatgctgcagcccg	8	7	11	15	3	2	0	1	0	1	0	2	2	2	1	3	1	6	4	3	1	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:19119658T>C	uc002zow.2	+	1	1338	c.746T>C	c.(745-747)ATC>ACC	p.I249T	DGCR14_uc002zot.2_3'UTR|DGCR14_uc002zou.2_3'UTR|DGCR14_uc002zov.2_RNA	NM_053006	NP_443732	Q96PF2	TSSK2_HUMAN	testis-specific serine kinase 2	249	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1	Colorectal(54;0.0993)					AAGGACCTCATCTACCGCATG	0.602													29	71					0	0	0.003755	0	0		C	19119658	C	C	19119658	3	2	19	1	0	0	0	0	1	0	0	0	16695	1435	50	3	748	3	TSSK2	22	19119658	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	476649	19119658	32184908	3030	16543											
SLC25A1	6576	broad.mit.edu	37	chr22	19165307	19165307	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcccaggccgcacagcAgcccacgcgtgctgtccagc	7	3	12	19	4	0	0	0	0	0	0	1	0	1	0	4	1	5	3	4	1	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:19165307A>G	uc002zoz.2	-	4	489	c.374T>C	c.(373-375)CTG>CCG	p.L125P	SLC25A1_uc002zoy.2_Missense_Mutation_p.L22P|SLC25A1_uc002zpa.2_Missense_Mutation_p.L73P	NM_005984	NP_005975	P53007	TXTP_HUMAN	solute carrier family 25 (mitochondrial carrier;	125	Solcar 2.				gluconeogenesis|long-chain fatty-acyl-CoA biosynthetic process|mitochondrial citrate transport|triglyceride biosynthetic process	integral to membrane|mitochondrial inner membrane	citrate transmembrane transporter activity|protein binding				0	Colorectal(54;0.0993)	all_lung(157;9.94e-09)		Lung(27;0.124)		GCCGCACAGCAGCCCACGCGT	0.687													18	20					0	0	0.014323	0	0		G	19165307	G	G	19165307	3	3	19	1	0	0	0	0	1	0	0	0	14496	188	7	3	585	3	SLC25A1	22	19165307	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	45649	19165307	32139259	3031	16544											
HIRA	7290	broad.mit.edu	37	chr22	19341012	19341012	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcaccacatgaggcacGgagaagagccgggcagcctg	10	4	15	12	2	0	3	0	1	0	2	0	4	0	3	3	3	4	4	3	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:19341012G>A	uc002zpf.1	-	23	2935	c.2715C>T	c.(2713-2715)TCC>TCT	p.S905S	HIRA_uc011agx.1_Silent_p.S771S|HIRA_uc010grn.1_Silent_p.S698S|HIRA_uc010gro.1_Silent_p.S861S|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	905	Interaction with histone H4.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					CATGAGGCACGGAGAAGAGCC	0.622													7	19					0	0	0.001984	0	0		A	19341012	A	A	19341012	2	1	19	1	0	0	0	0	0	0	0	1	7136	1103	39	1		1	HIRA	22	19341012	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	175705	19341012	31963554	3032	16545											
DGCR8	54487	broad.mit.edu	37	chr22	20079068	20079068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattcaatcgggaaatgaagCggaagcaggcggagtccgag	14	5	15	7	4	1	1	1	1	0	0	3	5	2	4	1	4	2	1	1	4	5	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:20079068C>T	uc002zri.2	+	6	1767	c.1417C>T	c.(1417-1419)CGG>TGG	p.R473W	DGCR8_uc010grz.2_Missense_Mutation_p.R473W|DGCR8_uc002zrj.2_Missense_Mutation_p.R116W	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	473	Necessary for heme-binding and pri-miRNA processing.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)					GGAAATGAAGCGGAAGCAGGC	0.483													8	335					0	0	0.008291	0	0		T	20079068	T	T	20079068	3	4	19	1	0	0	0	0	1	0	0	0	4470	759	27	1	1435	1	DGCR8	22	20079068	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	738056	20079068	31225498	3033	16546											
PI4KA	5297	broad.mit.edu	37	chr22	21101932	21101932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggatgctctcagtggccatgGccagccccgtgtgctgggac	5	8	15	13	1	1	0	1	0	1	0	2	2	1	2	4	4	3	2	4	4	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:21101932G>A	uc002zsz.3	-	29	3359	c.3128C>T	c.(3127-3129)GCC>GTC	p.A1043V		NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1043					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			AGTGGCCATGGCCAGCCCCGT	0.488													34	61					0	0	0.004878	0	0		A	21101932	A	A	21101932	3	1	19	1	0	0	0	0	1	0	0	0	11892	1203	42	2	3114	2	PI4KA	22	21101932	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1022864	21101932	30202634	3034	16547											
PI4KA	5297	broad.mit.edu	37	chr22	21156328	21156328	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctggctcttcttacccgAcatgacgttcagggttgact	6	12	12	11	2	3	2	1	2	2	0	3	3	3	2	1	3	1	4	1	3	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:21156328A>G	uc002zsz.3	-	14	1714	c.1483T>C	c.(1483-1485)TCG>CCG	p.S495P	PI4KA_uc010gsq.1_Missense_Mutation_p.S553P	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	495					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			TTCTTACCCGACATGACGTTC	0.463													4	86					0	0	0.009096	0	0		G	21156328	G	G	21156328	3	3	19	1	0	0	0	0	1	0	0	0	11892	275	10	3	4819	3	PI4KA	22	21156328	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	54396	21156328	30148238	3035	16548											
LZTR1	8216	broad.mit.edu	37	chr22	21348936	21348936	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagcagctgtgccgccagTacatcgaggcctccgtggac	7	7	14	13	3	0	0	0	0	0	0	2	3	1	2	4	3	4	3	4	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:21348936T>C	uc002zto.2	+	15	1808	c.1705T>C	c.(1705-1707)TAC>CAC	p.Y569H	LZTR1_uc002ztn.2_Missense_Mutation_p.Y528H|LZTR1_uc011ahy.1_Missense_Mutation_p.Y550H|LZTR1_uc010gsr.1_3'UTR|LZTR1_uc002ztp.2_5'Flank	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	569					anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			GTGCCGCCAGTACATCGAGGC	0.632													5	27					0	0	0.000602	0	0		C	21348936	C	C	21348936	3	2	19	1	0	0	0	0	1	0	0	0	9155	1638	57	3	1763	3	LZTR1	22	21348936	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	192608	21348936	29955630	3036	16549											
HIC2	23119	broad.mit.edu	37	chr22	21799829	21799829	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatagcgtgcaaggtctgggCcgggctgtctgcccagctgg	5	8	17	11	2	2	0	0	0	2	0	2	1	2	0	2	4	4	3	2	4	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:21799829C>T	uc002zur.3	+	3	875	c.645C>T	c.(643-645)GGC>GGT	p.G215G	HIC2_uc002zus.3_Silent_p.G215G	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	215					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				AAGGTCTGGGCCGGGCTGTCT	0.687													10	22					0	0	0.013537	0	0		T	21799829	T	T	21799829	2	4	19	1	0	0	0	0	0	0	0	1	7118	726	26	2		2	HIC2	22	21799829	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	450893	21799829	29504737	3037	16550											
HIC2	23119	broad.mit.edu	37	chr22	21800560	21800560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagctctgagcagctcaatgCgcacgtggagactcacacgg	10	6	12	13	3	3	2	2	1	1	1	3	3	3	2	0	2	4	4	0	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:21800560C>T	uc002zur.3	+	3	1606	c.1376C>T	c.(1375-1377)GCG>GTG	p.A459V	HIC2_uc002zus.3_Missense_Mutation_p.A459V	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	459	C2H2-type 1.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CAGCTCAATGCGCACGTGGAG	0.612													49	111					0	0	0.01441	0	0		T	21800560	T	T	21800560	3	4	19	1	0	0	0	0	1	0	0	0	7118	768	27	1	1382	1	HIC2	22	21800560	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	731	21800560	29504006	3038	16551											
TOP3B	8940	broad.mit.edu	37	chr22	22317239	22317239	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgaagtgtctggtgatgtActcatagagccgccacgcgt	9	10	13	9	3	2	3	1	2	1	1	2	4	2	3	2	1	2	1	2	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:22317239A>G	uc002zvs.2	-	12	1666	c.1231T>C	c.(1231-1233)TAC>CAC	p.Y411H	TOP3B_uc010gtm.1_5'UTR|TOP3B_uc002zvr.2_Missense_Mutation_p.Y136H|TOP3B_uc010gtl.2_Missense_Mutation_p.Y411H|TOP3B_uc002zvt.3_Missense_Mutation_p.Y411H	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	411					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		CTGGTGATGTACTCATAGAGC	0.622													7	47					0	0	0.00308	0	0		G	22317239	G	G	22317239	3	3	19	1	0	0	0	0	1	0	0	0	16394	391	14	3	1385	3	TOP3B	22	22317239	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	516679	22317239	28987327	3039	16552											
TOP3B	8940	broad.mit.edu	37	chr22	22318552	22318552	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgtcggcccagtaggggTggttggcctgctgccgcaga	4	8	17	12	3	0	1	0	0	0	1	1	1	0	1	4	5	2	4	4	5	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:22318552T>C	uc002zvs.2	-	10	1514	c.1079A>G	c.(1078-1080)CAC>CGC	p.H360R	TOP3B_uc010gtm.1_5'UTR|TOP3B_uc002zvr.2_Missense_Mutation_p.H85R|TOP3B_uc010gtl.2_Missense_Mutation_p.H360R|TOP3B_uc002zvt.3_Missense_Mutation_p.H360R	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	360					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		CCAGTAGGGGTGGTTGGCCTG	0.622													16	42					0	0	0.009535	0	0		C	22318552	C	C	22318552	3	2	19	1	0	0	0	0	1	0	0	0	16394	1696	59	3	1545	3	TOP3B	22	22318552	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1313	22318552	28986014	3040	16553											
ZNF280B	140883	broad.mit.edu	37	chr22	22842774	22842774	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattcataaacttaacatttTttagaactttcacgcagctg	13	15	5	8	1	2	1	2	0	0	1	2	2	2	1	0	0	4	2	0	0	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:22842774T>C	uc002zwc.1	-	4	1726	c.950A>G	c.(949-951)AAA>AGA	p.K317R	LOC96610_uc011aim.1_Intron	NM_080764	NP_542942	Q86YH2	Z280B_HUMAN	zinc finger protein 280B	317					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		CTTAACATTTTTTAGAACTTT	0.453													5	210					0	0	0.000602	0	0		C	22842774	C	C	22842774	3	2	19	1	0	0	0	0	1	0	0	0	17840	1841	64	3	685	3	ZNF280B	22	22842774	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	524222	22842774	28461792	3041	16554											
ZNF280B	140883	broad.mit.edu	37	chr22	22843029	22843029	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagctgctggaaaaggtgctCcattctgaacatggcttaat	12	11	10	8	0	1	1	0	1	1	0	2	2	2	2	1	3	4	4	1	3	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:22843029C>A	uc002zwc.1	-	4	1471	c.695G>T	c.(694-696)GGA>GTA	p.G232V	LOC96610_uc011aim.1_Intron	NM_080764	NP_542942	Q86YH2	Z280B_HUMAN	zinc finger protein 280B	232					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		AAAAGGTGCTCCATTCTGAAC	0.368													5	139					1.024e-07	1.06526e-07	0.000602	1	0		A	22843029	A	A	22843029	3	1	19	1	0	0	0	0	1	0	0	0	17840	855	30	5	940	5	ZNF280B	22	22843029	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	255	22843029	28461537	3042	16555											
GNAZ	2781	broad.mit.edu	37	chr22	23437986	23437986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggcaacgccgcgaaatcaAgctgctcctgctgggcacca	9	5	12	15	4	1	0	1	0	0	0	2	1	2	0	3	2	4	5	3	2	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:23437986A>G	uc002zwu.1	+	2	641	c.104A>G	c.(103-105)AAG>AGG	p.K35R	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	35						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		CGCGAAATCAAGCTGCTCCTG	0.602													53	125					0	0	0.01441	0	0		G	23437986	G	G	23437986	3	3	19	1	0	0	0	0	1	0	0	0	6529	72	3	3	106	3	GNAZ	22	23437986	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	594957	23437986	27866580	3043	16556											
DERL3	91319	broad.mit.edu	37	chr22	24180552	24180552	+	Frame_Shift_Del	DEL	C	-	-																															aggatacggtcataaggacgCccccgaagagaaacatgaag																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:24180552delC	uc002zyh.2	-	4	339	c.314delG	c.(313-315)GGCfs	p.G105fs	DERL3_uc002zyk.3_Frame_Shift_Del_p.G105fs|DERL3_uc002zyi.2_Frame_Shift_Del_p.G105fs|DERL3_uc002zyj.2_Frame_Shift_Del_p.G31fs	NM_001002862	NP_001002862	Q96Q80	DERL3_HUMAN	derlin 3 isoform 2	105	Helical; Name=3; (Potential).				endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process	integral to endoplasmic reticulum membrane	protein binding			ovary(1)	1						CATAAGGACGCCCCCGAAGAG	0.637													7	11	---	---	---	---						.	-	24180552	-	-	24180552	7	5	19	1	0	1	0	1	0	0	0	0	4454	739	26	0	523	0	DERL3	22	24180552	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	742566	24180552	27124014	3044	16557											
GGT1	2678	broad.mit.edu	37	chr22	25024077	25024077	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctctcgtccatgtgcccgAcgatcatggtgggccaggac	6	8	13	14	4	2	0	1	0	1	0	4	3	3	1	3	3	1	1	3	3	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:25024077A>T	uc003aan.1	+	14	1853	c.1366A>T	c.(1366-1368)ACG>TCG	p.T456S	GGT1_uc003aas.1_Missense_Mutation_p.T456S|GGT1_uc003aat.1_Missense_Mutation_p.T456S|GGT1_uc003aau.1_Missense_Mutation_p.T456S|GGT1_uc003aav.1_Missense_Mutation_p.T456S|GGT1_uc003aaw.1_Missense_Mutation_p.T456S|GGT1_uc003aax.1_Missense_Mutation_p.T456S|GGT1_uc003aay.1_Missense_Mutation_p.T112S	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor	456	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	CATGTGCCCGACGATCATGGT	0.662													23	51					0	0	0.009535	0	0		T	25024077	T	T	25024077	3	4	19	1	0	0	0	0	1	0	0	0	6376	275	10	5	1404	5	GGT1	22	25024077	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	843525	25024077	26280489	3045	16558											
SGSM1	129049	broad.mit.edu	37	chr22	25263061	25263061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctccgtccgcttccagcGtctactgggactatgccatg	6	10	9	16	3	1	0	0	0	1	0	4	1	4	1	5	1	3	1	5	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:25263061G>A	uc003abg.2	+	10	1085	c.928G>A	c.(928-930)GTC>ATC	p.V310I	SGSM1_uc003abh.2_Missense_Mutation_p.V310I|SGSM1_uc010guu.1_Missense_Mutation_p.V310I|SGSM1_uc003abj.2_Missense_Mutation_p.V310I|SGSM1_uc003abi.1_Missense_Mutation_p.V285I	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	310	Required for interaction with RAP family members.					Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						CGCTTCCAGCGTCTACTGGGA	0.617													10	16					0	0	0.010729	0	0		A	25263061	A	A	25263061	3	1	19	1	0	0	0	0	1	0	0	0	14247	1159	40	1	966	1	SGSM1	22	25263061	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	238984	25263061	26041505	3046	16559											
MYO18B	84700	broad.mit.edu	37	chr22	26165129	26165129	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcagacagagaagggcTgtgaagccccaaaggaggtg	13	4	17	7	0	1	3	1	1	0	2	1	6	1	5	2	4	1	1	2	4	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:26165129T>C	uc003abz.1	+	4	1496	c.1246T>C	c.(1246-1248)TGT>CGT	p.C416R	MYO18B_uc003aca.1_Missense_Mutation_p.C297R|MYO18B_uc010guy.1_Missense_Mutation_p.C297R|MYO18B_uc010guz.1_Missense_Mutation_p.C297R|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_5'Flank	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	416						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						AGAGAAGGGCTGTGAAGCCCC	0.612													7	12					0	0	0.001984	0	0		C	26165129	C	C	26165129	3	2	19	1	0	0	0	0	1	0	0	0	10084	1580	55	3	1256	3	MYO18B	22	26165129	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	902068	26165129	25139437	3047	16560											
SRRD	402055	broad.mit.edu	37	chr22	26884251	26884251	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgcttttgttggaaaagtgCcaggtacatttttggattca	9	16	10	6	0	1	0	1	0	0	0	1	2	1	2	1	3	3	3	1	3	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:26884251C>T	uc010gve.2	+	3	514	c.507C>T	c.(505-507)TGC>TGT	p.C169C	SRRD_uc003acp.3_Silent_p.C162C	NM_001013694	NP_001013716	Q9UH36	SRR1L_HUMAN	SRR1 domain containing	169					rhythmic process						0						TGGAAAAGTGCCAGGTACATT	0.443													7	291					0	0	0.004482	0	0		T	26884251	T	T	26884251	2	4	19	1	0	0	0	0	0	0	0	1	15192	747	26	2		2	SRRD	22	26884251	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	719122	26884251	24420315	3048	16561											
TFIP11	24144	broad.mit.edu	37	chr22	26888169	26888169	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccttggtctcaatgaggTccttaaagttcatgggcaca	10	11	10	10	0	2	1	2	1	1	0	4	1	3	1	2	3	1	2	2	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:26888169T>C	uc003acr.2	-	14	2698	c.2324A>G	c.(2323-2325)GAC>GGC	p.D775G	TFIP11_uc003acq.2_Missense_Mutation_p.D134G|TFIP11_uc003acs.2_Missense_Mutation_p.D775G|TFIP11_uc003act.2_Missense_Mutation_p.D775G|uc003acu.1_RNA	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	775					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						CTCAATGAGGTCCTTAAAGTT	0.567													24	60					0	0	0.003954	0	0		C	26888169	C	C	26888169	3	2	19	1	0	0	0	0	1	0	0	0	15832	1667	58	3	193	3	TFIP11	22	26888169	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	3918	26888169	24416397	3049	16562											
CHEK2	11200	broad.mit.edu	37	chr22	29083889	29083889	+	Missense_Mutation	SNP	A	G	G																															gttcaaaccacggagttcacAacacagcagcacacacagct																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:29083889A>G	uc003adu.1	-	15	1700	c.1628T>C	c.(1627-1629)TTG>TCG	p.L543S	CHEK2_uc003ads.1_Missense_Mutation_p.L322S|CHEK2_uc010gvh.1_Missense_Mutation_p.L452S|CHEK2_uc010gvi.1_Missense_Mutation_p.L392S|CHEK2_uc010gvj.1_RNA|CHEK2_uc003adr.1_RNA|CHEK2_uc010gvk.1_RNA|CHEK2_uc003adt.1_Missense_Mutation_p.L586S|CHEK2_uc003adv.1_Missense_Mutation_p.L514S|CHEK2_uc003adw.1_Missense_Mutation_p.L543S|CHEK2_uc003adx.1_Missense_Mutation_p.L322S|CHEK2_uc003ady.1_Missense_Mutation_p.L532S|CHEK2_uc003adz.1_Missense_Mutation_p.L347S	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a	543					cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						CGGAGTTCACAACACAGCAGC	0.438			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				17	40					0	0	0.007413	0	0		G	29083889	G	G	29083889	3	3	19	1	0	0	0	0	1	0	0	0	3338	131	5	3	7	3	CHEK2	22	29083889	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	2195720	29083889	22220677	3050	16563	25	2									
CHEK2	11200	broad.mit.edu	37	chr22	29083895	29083895	+	Missense_Mutation	SNP	G	C	C																															accacggagttcacaacacaGcagcacacacagctgggcgc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:29083895G>C	uc003adu.1	-	15	1694	c.1622C>G	c.(1621-1623)GCT>GGT	p.A541G	CHEK2_uc003ads.1_Missense_Mutation_p.A320G|CHEK2_uc010gvh.1_Missense_Mutation_p.A450G|CHEK2_uc010gvi.1_Missense_Mutation_p.A390G|CHEK2_uc010gvj.1_RNA|CHEK2_uc003adr.1_RNA|CHEK2_uc010gvk.1_RNA|CHEK2_uc003adt.1_Missense_Mutation_p.A584G|CHEK2_uc003adv.1_Missense_Mutation_p.A512G|CHEK2_uc003adw.1_Missense_Mutation_p.A541G|CHEK2_uc003adx.1_Missense_Mutation_p.A320G|CHEK2_uc003ady.1_Missense_Mutation_p.A530G|CHEK2_uc003adz.1_Missense_Mutation_p.A345G	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a	541					cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						TCACAACACAGCAGCACACAC	0.448			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				15	42					0	0	0.00499	0	0		C	29083895	C	C	29083895	3	2	19	1	0	0	0	0	1	0	0	0	3338	971	34	5	13	5	CHEK2	22	29083895	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	6	29083895	22220671	3051	16564	25	2									
CCDC117	150275	broad.mit.edu	37	chr22	29182081	29182081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattttatgtcttaggagcCgtccttccatggagcttgtt	6	17	10	8	1	1	0	0	0	1	0	3	2	3	2	3	2	2	3	3	2	3	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:29182081C>T	uc003aeb.2	+	5	783	c.607C>T	c.(607-609)CGT>TGT	p.R203C	CCDC117_uc011aki.1_Missense_Mutation_p.R185C|CCDC117_uc011akj.1_Missense_Mutation_p.R128C|CCDC117_uc011akk.1_Missense_Mutation_p.R71C	NM_173510	NP_775781	Q8IWD4	CC117_HUMAN	coiled-coil domain containing 117	203										breast(1)	1						TCTTAGGAGCCGTCCTTCCAT	0.398													22	75					0	0	0.012319	0	0		T	29182081	T	T	29182081	3	4	19	1	0	0	0	0	1	0	0	0	2757	652	23	1	625	1	CCDC117	22	29182081	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	98186	29182081	22122485	3052	16565											
RFPL1	5988	broad.mit.edu	37	chr22	29837922	29837922	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggatatgggcatgcagaaCgtttccttttttgatgctga	8	15	11	7	1	0	3	0	2	0	1	1	4	1	4	1	2	3	4	1	2	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:29837922C>T	uc003afn.2	+	2	974	c.765C>T	c.(763-765)AAC>AAT	p.N255N	RFPL1S_uc003afm.1_RNA	NM_021026	NP_066306	O75677	RFPL1_HUMAN	ret finger protein-like 1	255	B30.2/SPRY.						zinc ion binding				0						GCATGCAGAACGTTTCCTTTT	0.512													31	67					0	0	0.013726	0	0		T	29837922	T	T	29837922	2	4	19	1	0	0	0	0	0	0	0	1	13278	535	19	1		1	RFPL1	22	29837922	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	655841	29837922	21466644	3053	16566											
UQCR10	29796	broad.mit.edu	37	chr22	30163472	30163472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcaccatcatcgtgggcGtcatgttcttcgagcgcgcc	5	10	10	16	5	4	0	3	0	1	0	6	1	4	0	3	1	1	1	3	1	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:30163472G>A	uc003agq.1	+	1	115	c.85G>A	c.(85-87)GTC>ATC	p.V29I	ZMAT5_uc003agm.2_5'Flank|ZMAT5_uc003agn.2_5'Flank|ZMAT5_uc003ago.1_5'Flank|UQCR10_uc003agp.1_Missense_Mutation_p.V29I	NM_013387	NP_037519	Q9UDW1	QCR9_HUMAN	ubiquinol-cytochrome c reductase complex 7.2kDa	29					mitochondrial electron transport, ubiquinol to cytochrome c	mitochondrial inner membrane|respiratory chain	ubiquinol-cytochrome-c reductase activity			ovary(1)	1						CATCGTGGGCGTCATGTTCTT	0.602													5	69					0	0	0.000602	0	0		A	30163472	A	A	30163472	3	1	19	1	0	0	0	0	1	0	0	0	17042	1145	40	1	87	1	UQCR10	22	30163472	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	325550	30163472	21141094	3054	16567											
SEC14L3	266629	broad.mit.edu	37	chr22	30864625	30864625	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaatgatgtcataccacAcggggcagccatcacggtca	11	6	10	14	2	3	1	3	1	0	0	3	1	3	1	3	3	2	1	3	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:30864625A>G	uc003ahy.2	-	5	382	c.293T>C	c.(292-294)GTG>GCG	p.V98A	SEC14L3_uc003ahz.2_Missense_Mutation_p.V21A|SEC14L3_uc003aia.2_Missense_Mutation_p.V39A|SEC14L3_uc003aib.2_Missense_Mutation_p.V39A	NM_174975	NP_777635	Q9UDX4	S14L3_HUMAN	SEC14-like 3	98	CRAL-TRIO.					integral to membrane|intracellular	lipid binding|transporter activity			ovary(3)|pancreas(1)|skin(1)	5					Vitamin E(DB00163)	GTCATACCACACGGGGCAGCC	0.547													13	152					0	0	0.003163	0	0		G	30864625	G	G	30864625	3	3	19	1	0	0	0	0	1	0	0	0	14008	159	6	3	941	3	SEC14L3	22	30864625	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	701153	30864625	20439941	3055	16568											
PLA2G3	50487	broad.mit.edu	37	chr22	31533758	31533758	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccacatcaagcctgggaGagaccatagggtcctggagg	10	5	16	10	0	1	1	1	0	0	1	2	4	2	3	4	5	1	0	4	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:31533758G>T	uc003aka.2	-	4	1133	c.1004C>A	c.(1003-1005)TCT>TAT	p.S335Y		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	335					cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						AAGCCTGGGAGAGACCATAGG	0.612													54	284					1.59911e-31	1.71653e-31	0.01441	1	0		T	31533758	T	T	31533758	3	4	19	1	0	0	0	0	1	0	0	0	12019	942	33	5	541	5	PLA2G3	22	31533758	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	669133	31533758	19770808	3056	16569											
LIMK2	3985	broad.mit.edu	37	chr22	31663869	31663869	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtacattgaggggggcacActgaaggactttctgcgcag	10	8	15	8	1	1	2	0	2	1	0	1	4	1	3	0	4	2	3	0	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:31663869A>G	uc003akh.2	+	10	1381	c.1236A>G	c.(1234-1236)ACA>ACG	p.T412T	LIMK2_uc003akg.2_Silent_p.T329T|LIMK2_uc003aki.2_Silent_p.T166T|LIMK2_uc003akj.2_Silent_p.T391T|LIMK2_uc003akk.2_Silent_p.T391T|LIMK2_uc011aln.1_Silent_p.T329T	NM_005569	NP_005560	P53671	LIMK2_HUMAN	LIM domain kinase 2 isoform 2a	412	Protein kinase.					mitochondrion|nucleus	ATP binding|protein serine/threonine kinase activity|zinc ion binding			ovary(2)	2						AGGGGGGCACACTGAAGGACT	0.532													19	64					0	0	0.010504	0	0		G	31663869	G	G	31663869	2	3	19	1	0	0	0	0	0	0	0	1	8818	146	6	3		3	LIMK2	22	31663869	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	130111	31663869	19640697	3057	16570											
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31845332	31845332	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgacaaataagtatatttAccaattggtgatggtattct	13	17	7	4	0	1	2	0	2	1	0	1	2	1	2	1	2	1	2	1	2	7	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:31845332A>G	uc003akz.1	-	12	1932	c.1768_splice	c.e12+1	p.G590_splice	EIF4ENIF1_uc003akx.1_Splice_Site_p.G245_splice|EIF4ENIF1_uc003aky.1_Splice_Site_p.G269_splice|EIF4ENIF1_uc003ala.1_Splice_Site_p.G590_splice|EIF4ENIF1_uc003alb.1_Splice_Site_p.G415_splice|EIF4ENIF1_uc003akw.1_Splice_Site_p.G79_splice	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E							nucleus	protein binding|protein transporter activity			ovary(1)	1						AAGTATATTTACCAATTGGTG	0.289													4	118					0	0	0.009096	0	0		G	31845332	G	G	31845332	5	3	19	1	0	0	0	0	0	0	1	0	5043	405	14	3	1222	3	EIF4ENIF1	22	31845332	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	181463	31845332	19459234	3058	16571											
C22orf30	253143	broad.mit.edu	37	chr22	32108285	32108285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcatgaagagcctctgcatgGtaggcatgtggctggagaag	10	9	15	7	0	2	3	1	1	1	2	2	4	2	3	1	4	2	4	1	4	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:32108285G>A	uc003alp.3	-	4	5733	c.5540C>T	c.(5539-5541)ACC>ATC	p.T1847I	C22orf30_uc003alo.1_Missense_Mutation_p.T1646I|C22orf30_uc010gwj.1_Missense_Mutation_p.T1646I	NM_173566	NP_775837	Q5THK1	PR14L_HUMAN	hypothetical protein LOC253143	1847											0						CCTCTGCATGGTAGGCATGTG	0.522													15	111					0	0	0.004007	0	0		A	32108285	A	A	32108285	3	1	19	1	0	0	0	0	1	0	0	0	2145	1261	44	4	939	4	C22orf30	22	32108285	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	262953	32108285	19196281	3059	16572											
PVALB	5816	broad.mit.edu	37	chr22	37209708	37209708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtcaaccccaattttgcCgtccccatctttgtctccag	7	12	5	17	2	3	0	1	0	2	0	5	0	4	0	7	0	2	0	7	0	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:37209708C>T	uc010gwz.2	-	3	316	c.286G>A	c.(286-288)GGC>AGC	p.G96S	PVALB_uc003apx.2_Missense_Mutation_p.G96S	NM_002854	NP_002845	P20472	PRVA_HUMAN	parvalbumin	96	EF-hand 2.|2.						calcium ion binding			skin(1)	1						CCAATTTTGCCGTCCCCATCT	0.517													39	122					0	0	0.007835	0	0		T	37209708	T	T	37209708	3	4	19	1	0	0	0	0	1	0	0	0	12861	652	23	1	54	1	PVALB	22	37209708	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	5101423	37209708	14094858	3060	16573											
SSTR3	6753	broad.mit.edu	37	chr22	37603130	37603130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagggtgcccacacccggCgcccagctgagcgcaccttc	7	4	12	18	4	0	1	0	1	0	0	1	2	0	1	4	2	3	2	4	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:37603130C>T	uc003ara.2	-	2	775	c.713G>A	c.(712-714)CGC>CAC	p.R238H	SSTR3_uc003arb.2_Missense_Mutation_p.R238H	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	238	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						CCACACCCGGCGCCCAGCTGA	0.682													13	23					0	0	0.003163	0	0		T	37603130	T	T	37603130	3	4	19	1	0	0	0	0	1	0	0	0	15224	768	27	1	547	1	SSTR3	22	37603130	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	393422	37603130	13701436	3061	16574											
SH3BP1	23616	broad.mit.edu	37	chr22	38051301	38051301	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagcgcccggcgccagcccgGcccaccatgccgccccccca	6	1	10	24	5	0	0	0	0	0	0	0	0	0	0	9	2	3	0	9	2	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:38051301G>A	uc003ati.2	+	18	1827	c.1716G>A	c.(1714-1716)CGG>CGA	p.R572R	SH3BP1_uc003atg.1_RNA|SH3BP1_uc003ath.1_Intron|SH3BP1_uc003atj.1_Intron|SH3BP1_uc003atk.1_Intron|uc003atl.1_Intron	NM_018957	NP_061830	Q9Y3L3	3BP1_HUMAN	SH3-domain binding protein 1	572					signal transduction	cytoplasm	GTPase activator activity|SH3 domain binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CGCCAGCCCGGCCCACCATGC	0.642													3	9					0	0	0.001168	0	0		A	38051301	A	A	38051301	2	1	19	1	0	0	0	0	0	0	0	1	14269	1190	42	2		2	SH3BP1	22	38051301	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	448171	38051301	13253265	3062	16575											
CSNK1E	1454	broad.mit.edu	37	chr22	38699188	38699188	+	Frame_Shift_Del	DEL	G	-	-																															cttgctctcgatgtgcagctGggggtgctttgtcttcacac																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:38699188delG	uc003avj.2	-	3	403	c.142delC	c.(142-144)CAGfs	p.Q48fs	CSNK1E_uc003avk.2_Frame_Shift_Del_p.Q48fs|CSNK1E_uc003avl.1_RNA|CSNK1E_uc003avm.1_Frame_Shift_Del_p.Q48fs|CSNK1E_uc003avo.2_Frame_Shift_Del_p.Q48fs|CSNK1E_uc003avp.1_Frame_Shift_Del_p.Q48fs|CSNK1E_uc003avq.1_Frame_Shift_Del_p.Q48fs|LOC400927_uc010gxm.2_RNA	NM_152221	NP_689407	P49674	KC1E_HUMAN	casein kinase 1 epsilon	48	Protein kinase.				DNA repair|G2/M transition of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|signal transduction	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Melanoma(58;0.045)					ATGTGCAGCTGGGGGTGCTTT	0.662													10	13	---	---	---	---						.	-	38699188	-	-	38699188	7	5	19	1	0	1	0	1	0	0	0	0	3956	1357	47	0	1140	0	CSNK1E	22	38699188	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	647887	38699188	12605378	3063	16576											
GTPBP1	9567	broad.mit.edu	37	chr22	39123224	39123224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctttctttcagatcaagCgctcgtccatccggaagggc	7	11	9	14	3	4	1	2	0	2	1	7	2	6	2	3	2	1	1	3	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:39123224C>T	uc003awg.2	+	9	1562	c.1408C>T	c.(1408-1410)CGC>TGC	p.R470C		NM_004286	NP_004277	O00178	GTPB1_HUMAN	GTP binding protein 1	470					immune response|positive regulation of mRNA catabolic process|signal transduction	cytoplasmic exosome (RNase complex)|cytosol	GTP binding|GTPase activity			ovary(1)	1	Melanoma(58;0.04)					TCAGATCAAGCGCTCGTCCAT	0.572													73	158					0	0	0.01441	0	0		T	39123224	T	T	39123224	3	4	19	1	0	0	0	0	1	0	0	0	6894	768	27	1	1442	1	GTPBP1	22	39123224	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	424036	39123224	12181342	3064	16577											
APOBEC3D	140564	broad.mit.edu	37	chr22	39421135	39421135	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcttggttctgtggcaacCgactgcctgctaacaggcgc	7	11	11	12	2	2	0	0	0	2	0	2	1	2	0	2	3	4	3	2	3	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:39421135C>T	uc011aoe.1	+	3	325	c.271C>T	c.(271-273)CGA>TGA	p.R91*	APOBEC3D_uc011aod.1_Nonsense_Mutation_p.R91*|APOBEC3D_uc011aof.1_Intron|APOBEC3D_uc003awu.3_Intron|APOBEC3D_uc003awt.3_Nonsense_Mutation_p.R91*|APOBEC3D_uc010gxu.2_Intron	NM_152426	NP_689639	Q96AK3	ABC3D_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	91					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0	Melanoma(58;0.04)					CTGTGGCAACCGACTGCCTGC	0.423													30	82					0	0	0.013726	0	0		T	39421135	T	T	39421135	4	4	19	1	0	0	0	0	0	1	0	0	792	644	23	1	281	1	APOBEC3D	22	39421135	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	297911	39421135	11883431	3065	16578											
TAB1	10454	broad.mit.edu	37	chr22	39822886	39822886	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctagtgaggaactttggctAcccgctgggcgaaatgagcc	9	8	14	10	2	0	2	0	2	0	0	0	4	0	3	2	3	3	3	2	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:39822886A>G	uc003axt.2	+	9	1149	c.1100A>G	c.(1099-1101)TAC>TGC	p.Y367C	TAB1_uc003axr.2_Missense_Mutation_p.Y443C|TAB1_uc011aok.1_Missense_Mutation_p.Y201C|TAB1_uc003axu.1_Missense_Mutation_p.Y367C	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	367	PP2C-like.				activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1						AACTTTGGCTACCCGCTGGGC	0.652													6	77					0	0	0.001984	0	0		G	39822886	G	G	39822886	3	3	19	1	0	0	0	0	1	0	0	0	15520	391	14	3	1134	3	TAB1	22	39822886	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	401751	39822886	11481680	3066	16579											
MGAT3	4248	broad.mit.edu	37	chr22	39883966	39883966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtgcccagggaggtgcCgcgccgcgtcatcaacgcca	6	5	15	15	5	2	0	2	0	0	0	2	1	2	1	4	3	3	1	4	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:39883966C>T	uc003axv.3	+	2	853	c.614C>T	c.(613-615)CCG>CTG	p.P205L	MGAT3_uc010gxy.2_Missense_Mutation_p.P205L	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	205	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					AGGGAGGTGCCGCGCCGCGTC	0.677													8	8					0	0	0.004482	0	0		T	39883966	T	T	39883966	3	4	19	1	0	0	0	0	1	0	0	0	9562	652	23	1	616	1	MGAT3	22	39883966	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	61080	39883966	11420600	3067	16580											
TNRC6B	23112	broad.mit.edu	37	chr22	40718965	40718965	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgcagcaaccccaagtgCgccagctgcggggtggcagt	8	5	14	14	2	0	0	0	0	0	0	0	0	0	0	4	3	6	4	4	3	2	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:40718965C>T	uc011aor.1	+	23	5433	c.5222C>T	c.(5221-5223)GCG>GTG	p.A1741V	TNRC6B_uc003aym.2_Missense_Mutation_p.A937V|TNRC6B_uc003ayn.3_Missense_Mutation_p.A1631V	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1741					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						ACCCCAAGTGCGCCAGCTGCG	0.597													15	18					0	0	0.003163	0	0		T	40718965	T	T	40718965	3	4	19	1	0	0	0	0	1	0	0	0	16366	768	27	1	5433	1	TNRC6B	22	40718965	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	834999	40718965	10585601	3068	16581											
MKL1	57591	broad.mit.edu	37	chr22	40827407	40827407	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaattccaatctccacAccttccaaaatgtgcatcct	14	10	3	14	0	1	0	0	0	1	0	5	0	4	0	5	0	2	2	5	0	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:40827407A>G	uc003ayv.1	-	3	346	c.139_splice	c.e3+1	p.E47_splice	MKL1_uc003ayw.1_Splice_Site_p.E47_splice|MKL1_uc010gye.1_Splice_Site_p.E47_splice|MKL1_uc010gyf.1_Splice_Site_p.E47_splice	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein						positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CAATCTCCACACCTTCCAAAA	0.468			T	RBM15	acute megakaryocytic leukemia								109	277					0	0	0.01441	0	0		G	40827407	G	G	40827407	5	3	19	1	0	0	0	0	0	0	1	0	9619	173	6	3	2694	3	MKL1	22	40827407	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	108442	40827407	10477159	3069	16582											
MCHR1	2847	broad.mit.edu	37	chr22	41077604	41077604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtggcccccgcctcccagcGcagcatccggctgcggacaa	7	4	12	18	4	0	0	0	0	0	0	2	1	2	1	5	3	3	3	5	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:41077604G>A	uc003ayz.2	+	2	1209	c.941G>A	c.(940-942)CGC>CAC	p.R314H	MCHR1_uc003aza.2_Missense_Mutation_p.R203H|uc003azb.1_RNA	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	314	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						GCCTCCCAGCGCAGCATCCGG	0.602													24	90					0	0	0.00632	0	0		A	41077604	A	A	41077604	3	1	19	1	0	0	0	0	1	0	0	0	9400	1087	38	1	947	1	MCHR1	22	41077604	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	250197	41077604	10226962	3070	16583											
EP300	2033	broad.mit.edu	37	chr22	41523566	41523566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggatgggttctggagcaCatacagctgatccagagaag	13	7	14	7	0	1	2	0	1	1	1	2	5	2	4	1	3	3	3	1	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:41523566C>T	uc003azl.3	+	4	1377	c.982C>T	c.(982-984)CAT>TAT	p.H328Y		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	328					apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						TTCTGGAGCACATACAGCTGA	0.547			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				73	138					0	0	0.01441	0	0		T	41523566	T	T	41523566	3	4	19	1	0	0	0	0	1	0	0	0	5156	478	17	4	996	4	EP300	22	41523566	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	445962	41523566	9781000	3071	16584											
L3MBTL2	83746	broad.mit.edu	37	chr22	41621074	41621074	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcgtggcaactgtctgtaAggtgagccaggggccggctc	6	8	16	11	2	1	1	0	1	1	0	2	1	1	1	2	5	3	3	2	5	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:41621074A>G	uc003azo.2	+	11	1409	c.1355A>G	c.(1354-1356)AAG>AGG	p.K452R	L3MBTL2_uc010gyi.1_Missense_Mutation_p.K361R|L3MBTL2_uc003azn.2_RNA	NM_031488	NP_113676	Q969R5	LMBL2_HUMAN	l(3)mbt-like 2	452	MBT 3.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	methylated histone residue binding|transcription corepressor activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3						ACTGTCTGTAAGGTGAGCCAG	0.612													5	78					0	0	0.001168	0	0		G	41621074	G	G	41621074	3	3	19	1	0	0	0	0	1	0	0	0	8608	86	3	3	1397	3	L3MBTL2	22	41621074	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	97508	41621074	9683492	3072	16585											
NDUFA6	4700	broad.mit.edu	37	chr22	42482293	42482293	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccgctgcttccatactttaAttgtttcttccagttcgatc	6	18	5	12	2	1	0	0	0	1	0	6	1	4	0	3	0	2	4	3	0	2	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:42482293A>T	uc003bcb.2	-	3	421	c.359T>A	c.(358-360)ATT>AAT	p.I120N		NM_002490	NP_002481	P56556	NDUA6_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	120					mitochondrial electron transport, NADH to ubiquinone|response to oxidative stress|transport	mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0					NADH(DB00157)	CCATACTTTAATTGTTTCTTC	0.368													6	119					0	0	0.00308	0	0		T	42482293	T	T	42482293	3	4	19	1	0	0	0	0	1	0	0	0	10288	101	4	5	109	5	NDUFA6	22	42482293	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	861219	42482293	8822273	3073	16586											
TCF20	6942	broad.mit.edu	37	chr22	42610373	42610373	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgcggttgctgctgctgCtgcccctgttgggtcccttg	0	14	14	13	1	0	0	0	0	0	0	1	0	1	0	3	2	7	7	3	2	0	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:42610373C>T	uc003bcj.1	-	1	1073	c.939G>A	c.(937-939)CAG>CAA	p.Q313Q	TCF20_uc003bck.1_Silent_p.Q313Q|TCF20_uc003bnt.2_Silent_p.Q313Q	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	313	Poly-Gln.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						gctgctgctgctgcCCCTGTT	0.408													33	72					0	0	0.007835	0	0		T	42610373	T	T	42610373	2	4	19	1	0	0	0	0	0	0	0	1	15715	796	28	2		2	TCF20	22	42610373	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	128080	42610373	8694193	3074	16587											
ARFGAP3	26286	broad.mit.edu	37	chr22	43231499	43231499	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttgatgaaaaaaggaagActacagagaaaagcatgcac	20	6	10	5	0	0	4	0	2	0	2	0	6	0	5	0	1	3	3	0	1	7	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:43231499A>G	uc003bdd.2	-	4	482	c.262T>C	c.(262-264)TCT>CCT	p.S88P	ARFGAP3_uc010gzf.2_Intron|ARFGAP3_uc011apu.1_Intron	NM_014570	NP_055385	Q9NP61	ARFG3_HUMAN	ADP-ribosylation factor GTPase activating	88	Arf-GAP.				intracellular protein transport|protein secretion|regulation of ARF GTPase activity|vesicle-mediated transport	cytosol|Golgi membrane	ARF GTPase activator activity|protein transporter activity|zinc ion binding			breast(1)	1						AAAAAGGAAGACTACAGAGAA	0.299													5	104					0	0	0.000602	0	0		G	43231499	G	G	43231499	3	3	19	1	0	0	0	0	1	0	0	0	851	289	10	3	1340	3	ARFGAP3	22	43231499	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	621126	43231499	8073067	3075	16588											
SCUBE1	80274	broad.mit.edu	37	chr22	43634937	43634937	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcatgtccggtcgcagcCtccgttattgactgcgcacg	5	11	11	14	5	0	1	0	1	0	0	3	1	2	1	3	1	3	4	3	1	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:43634937C>A	uc003bdt.1	-	7	839	c.751G>T	c.(751-753)GGC>TGC	p.G251C	SCUBE1_uc003bdu.1_Missense_Mutation_p.G281C	NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	251	EGF-like 5 (Potential).|EGF-like 6 (Potential).				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				CGGTCGCAGCCTCCGTTATTG	0.552													7	20					0.00448238	0.00455878	0.004482	1	0		A	43634937	A	A	43634937	3	1	19	1	0	0	0	0	1	0	0	0	13969	681	24	5	2279	5	SCUBE1	22	43634937	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	403438	43634937	7669629	3076	16589											
PARVB	29780	broad.mit.edu	37	chr22	44532343	44532343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattttggggttttcagaaaCgggaaggcctgctgcattcc	8	13	12	8	1	1	1	1	0	0	1	2	2	2	2	2	4	3	3	2	4	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:44532343C>T	uc003ben.2	+	7	689	c.637C>T	c.(637-639)CGG>TGG	p.R213W	PARVB_uc003bem.2_Missense_Mutation_p.R246W|PARVB_uc010gzn.2_Missense_Mutation_p.R161W|PARVB_uc003beo.2_Missense_Mutation_p.R176W	NM_013327	NP_037459	Q9HBI1	PARVB_HUMAN	parvin, beta isoform b	213					cell adhesion|cell junction assembly	cytoskeleton|cytosol|focal adhesion	actin binding				0		Ovarian(80;0.0246)|all_neural(38;0.0423)				TTTTCAGAAACGGGAAGGCCT	0.552													5	58					0	0	0.000602	0	0		T	44532343	T	T	44532343	3	4	19	1	0	0	0	0	1	0	0	0	11488	527	19	1	882	1	PARVB	22	44532343	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	897406	44532343	6772223	3077	16590											
C22orf9	23313	broad.mit.edu	37	chr22	45607889	45607889	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacgccagcttccggcgcAcatagaaaagcatgtcgtcc	11	7	10	13	4	0	1	0	0	0	1	3	1	2	1	3	1	3	4	3	1	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:45607889A>G	uc003bfx.1	-	2	230	c.164T>C	c.(163-165)GTG>GCG	p.V55A	C22orf9_uc003bfv.1_Missense_Mutation_p.V64A|C22orf9_uc003bfw.1_Missense_Mutation_p.V60A|C22orf9_uc010gzx.2_Missense_Mutation_p.V37A	NM_001009880	NP_001009880	Q6ICG6	K0930_HUMAN	hypothetical protein LOC23313 isoform b	55							protein binding				0		Ovarian(80;0.00965)|all_neural(38;0.0244)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|READ - Rectum adenocarcinoma(1;0.000617)|Colorectal(1;0.0024)		CTTCCGGCGCACATAGAAAAG	0.617													9	86					0	0	0.006214	0	0		G	45607889	G	G	45607889	3	3	19	1	0	0	0	0	1	0	0	0	2154	159	6	3	1086	3	C22orf9	22	45607889	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1075546	45607889	5696677	3078	16591											
FAM118A	55007	broad.mit.edu	37	chr22	45723730	45723730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacctttttgtagcgcacagGcgatgccaagcccagcttct	8	10	9	14	2	1	0	0	0	1	0	1	1	1	0	3	1	4	3	3	1	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:45723730G>A	uc003bfz.3	+	5	924	c.308G>A	c.(307-309)GGC>GAC	p.G103D	FAM118A_uc003bga.3_Missense_Mutation_p.G103D|uc011aqp.1_5'Flank|uc011aqq.1_5'Flank|FAM118A_uc011aqr.1_5'Flank	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	103						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		TAGCGCACAGGCGATGCCAAG	0.423													20	39					0	0	0.008871	0	0		A	45723730	A	A	45723730	3	1	19	1	0	0	0	0	1	0	0	0	5422	1203	42	2	318	2	FAM118A	22	45723730	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	115841	45723730	5580836	3079	16592											
SMC1B	27127	broad.mit.edu	37	chr22	45740473	45740473	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtctcttgctgctttcttgGccttcagtgtctggatactg	3	18	10	10	0	4	0	1	0	3	0	5	1	4	1	1	2	3	2	1	2	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:45740473G>A	uc003bgc.2	-	25	3724	c.3672C>T	c.(3670-3672)GGC>GGT	p.G1224G	SMC1B_uc003bgd.2_Silent_p.G1150G	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	1224					chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TGCTTTCTTGGCCTTCAGTGT	0.488													7	242					0	0	0.004482	0	0		A	45740473	A	A	45740473	2	1	19	1	0	0	0	0	0	0	0	1	14807	1190	42	2		2	SMC1B	22	45740473	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	16743	45740473	5564093	3080	16593											
SMC1B	27127	broad.mit.edu	37	chr22	45768124	45768124	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagttccctgtatcagggTctgtatttgtttcaaatctg	7	18	9	7	0	4	1	2	1	2	0	5	1	5	1	1	1	0	4	1	1	3	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:45768124T>A	uc003bgc.2	-	13	2159	c.2107A>T	c.(2107-2109)ACC>TCC	p.T703S	SMC1B_uc003bgd.2_Missense_Mutation_p.T703S|SMC1B_uc003bge.1_Missense_Mutation_p.T486S	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	703	Potential.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TGTATCAGGGTCTGTATTTGT	0.338													6	66					0	0	0.001984	0	0		A	45768124	A	A	45768124	3	1	19	1	0	0	0	0	1	0	0	0	14807	1667	58	5	1652	5	SMC1B	22	45768124	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	27651	45768124	5536442	3081	16594											
PKDREJ	10343	broad.mit.edu	37	chr22	46658199	46658199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttatgttggcatcgccaaGcatcaccgcctgcagggaac	9	9	11	12	2	1	0	1	0	0	0	2	1	1	1	3	2	3	5	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:46658199G>A	uc003bhh.2	-	1	1021	c.1021C>T	c.(1021-1023)CTT>TTT	p.L341F		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	341	Extracellular (Potential).|REJ.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		GCATCGCCAAGCATCACCGCC	0.582													12	192					0	0	0.010729	0	0		A	46658199	A	A	46658199	3	1	19	1	0	0	0	0	1	0	0	0	11989	971	34	2	5744	2	PKDREJ	22	46658199	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	890075	46658199	4646367	3082	16595											
CELSR1	9620	broad.mit.edu	37	chr22	46860228	46860228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtgcagaaggccgtgaCgctgtggatgccatctgcag	8	7	16	10	2	1	2	0	1	1	1	1	3	1	3	2	3	3	3	2	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:46860228C>T	uc003bhw.1	-	2	3559	c.3559G>A	c.(3559-3561)GTC>ATC	p.V1187I		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1187	Extracellular (Potential).|Cadherin 9.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		AAGGCCGTGACGCTGTGGATG	0.577													30	65					0	0	0.007291	0	0		T	46860228	T	T	46860228	3	4	19	1	0	0	0	0	1	0	0	0	3224	536	19	1	5621	1	CELSR1	22	46860228	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	202029	46860228	4444338	3083	16596											
SBF1	6305	broad.mit.edu	37	chr22	50897976	50897976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagagcgcagcagcaccGccttggaccgcccgctgcgc	6	4	12	19	5	0	1	0	0	0	1	1	2	1	2	5	1	4	4	5	1	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:50897976G>A	uc003blh.2	-	27	3806	c.3611C>T	c.(3610-3612)GCG>GTG	p.A1204V	SBF1_uc011arx.1_Missense_Mutation_p.A868V	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1204	Myotubularin phosphatase.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		CAGCAGCACCGCCTTGGACCG	0.637													20	24					0	0	0.010504	0	0		A	50897976	A	A	50897976	3	1	19	1	0	0	0	0	1	0	0	0	13883	1087	38	1	2130	1	SBF1	22	50897976	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4037748	50897976	406590	3084	16597											
SBF1	6305	broad.mit.edu	37	chr22	50900712	50900712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagtaggcggctcttgctgCtgtccaggggcaggaggagg	7	7	19	8	1	1	0	0	0	1	0	2	3	2	2	1	7	2	5	1	7	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:50900712C>T	uc003blh.2	-	19	2513	c.2318G>A	c.(2317-2319)AGC>AAC	p.S773N	SBF1_uc011arx.1_Missense_Mutation_p.S437N|SBF1_uc003bli.2_Missense_Mutation_p.S774N	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	773					protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		GCTCTTGCTGCTGTCCAGGGG	0.647													16	48					0	0	0.012319	0	0		T	50900712	T	T	50900712	3	4	19	1	0	0	0	0	1	0	0	0	13883	797	28	2	3455	2	SBF1	22	50900712	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2736	50900712	403854	3085	16598											
SHANK3	85358	broad.mit.edu	37	chr22	51160716	51160716	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagagccgggggctccctggGcctgaagacgacaaaccaac	11	3	14	13	2	0	3	0	1	0	2	1	5	1	3	4	3	3	1	4	3	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:51160716G>A	uc003bne.1	+	22	4503	c.4503G>A	c.(4501-4503)GGG>GGA	p.G1501G	SHANK3_uc003bnf.1_Silent_p.G948G|SHANK3_uc010hbg.1_Silent_p.G683G	NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	1501										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		GGCTCCCTGGGCCTGAAGACG	0.672													5	71					0	0	0.00308	0	0		A	51160716	A	A	51160716	2	1	19	1	0	0	0	0	0	0	0	1	14291	1190	42	2		2	SHANK3	22	51160716	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	260004	51160716	143850	3086	16599											
CSF2RA	1438	broad.mit.edu	37	chrX	1409328	1409328	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggattaacgtctcgcaattActttctggttaacggaacca	12	12	8	9	3	2	0	0	0	2	0	3	2	2	2	1	3	4	2	1	3	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:1409328A>G	uc010nct.2	+	8	894	c.572A>G	c.(571-573)TAC>TGC	p.Y191C	CSF2RA_uc011mhb.1_Missense_Mutation_p.Y191C|CSF2RA_uc004cpq.2_Missense_Mutation_p.Y191C|CSF2RA_uc004cpn.2_Missense_Mutation_p.Y191C|CSF2RA_uc004cpo.2_Missense_Mutation_p.Y191C|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Missense_Mutation_p.Y58C|CSF2RA_uc004cpp.2_Missense_Mutation_p.Y191C|CSF2RA_uc010ncv.2_Missense_Mutation_p.Y191C|CSF2RA_uc004cpr.2_Missense_Mutation_p.Y191C	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	191	Extracellular (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	TCTCGCAATTACTTTCTGGTT	0.423													90	175					0	0	0.01441	0	0		G	1409328	G	G	1409328	3	3	19	1	0	0	0	0	1	0	0	0	3937	391	14	3	590	3	CSF2RA	23	1409328	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08		1409328	153861232	3087	16600											
SFRS17A	8227	broad.mit.edu	37	chrX	1712692	1712692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctccgacatcctgaaggtgCgcgcggccgagttcaagatc	8	8	12	13	5	2	2	1	1	1	1	5	4	3	2	3	2	1	1	3	2	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:1712692C>T	uc004cqa.2	+	2	533	c.337C>T	c.(337-339)CGC>TGC	p.R113C	SFRS17A_uc010ncx.1_Missense_Mutation_p.R113C|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'Flank	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	113					B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCTGAAGGTGCGCGCGGCCGA	0.637													49	96					0	0	0.01441	0	0		T	1712692	T	T	1712692	3	4	19	1	0	0	0	0	1	0	0	0	14198	768	27	1	339	1	SFRS17A	23	1712692	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	303364	1712692	153557868	3088	16601											
GYG2	8908	broad.mit.edu	37	chrX	2773049	2773049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaggtgctgtccaatgtcGatgagctgtttgacagggga	9	10	14	8	1	0	2	0	2	0	0	2	4	1	3	2	3	2	3	2	3	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:2773049G>A	uc004cqs.1	+	6	715	c.433G>A	c.(433-435)GAT>AAT	p.D145N	GYG2_uc004cqt.1_Missense_Mutation_p.D114N|GYG2_uc004cqu.1_Missense_Mutation_p.D114N|GYG2_uc004cqv.1_5'UTR|GYG2_uc004cqw.1_Missense_Mutation_p.D105N|GYG2_uc004cqx.1_Missense_Mutation_p.D114N|GYG2_uc010ndc.1_5'UTR	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b	145					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GTCCAATGTCGATGAGCTGTT	0.473													16	67					0	0	0.00499	0	0		A	2773049	A	A	2773049	3	1	19	1	0	0	0	0	1	0	0	0	6922	1058	37	1	451	1	GYG2	23	2773049	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1060357	2773049	152497511	3089	16602											
ARSE	415	broad.mit.edu	37	chrX	2854853	2854853	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaggaactcgtggtctgaGtgttgggctgtccccaggag	7	10	15	9	1	2	1	1	1	1	0	4	3	3	3	2	4	1	2	2	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:2854853G>A	uc004crc.3	-	10	1591	c.1341C>T	c.(1339-1341)CAC>CAT	p.H447H	ARSE_uc011mhi.1_Silent_p.H393H|ARSE_uc011mhh.1_Silent_p.H472H	NM_000047	NP_000038	P51690	ARSE_HUMAN	arylsulfatase E precursor	447					skeletal system development	Golgi stack	arylsulfatase activity|metal ion binding			ovary(1)|central_nervous_system(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CGTGGTCTGAGTGTTGGGCTG	0.567													4	63					0	0	0.009096	0	0		A	2854853	A	A	2854853	2	1	19	1	0	0	0	0	0	0	0	1	991	1020	36	4		4	ARSE	23	2854853	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	81804	2854853	152415707	3090	16603											
SHROOM2	357	broad.mit.edu	37	chrX	9900831	9900831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccaccatggagacctcgCgctccccctcgccccagttc	5	6	9	21	4	0	1	0	0	0	1	4	2	1	1	7	2	0	2	7	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:9900831C>T	uc004csu.1	+	6	3598	c.3508C>T	c.(3508-3510)CGC>TGC	p.R1170C	SHROOM2_uc004csv.2_Missense_Mutation_p.R5C|SHROOM2_uc011mic.1_Missense_Mutation_p.R5C|SHROOM2_uc004csw.1_Missense_Mutation_p.R5C	NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	1170					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				GGAGACCTCGCGCTCCCCCTC	0.637													24	64					0	0	0.007291	0	0		T	9900831	T	T	9900831	3	4	19	1	0	0	0	0	1	0	0	0	14319	768	27	1	3530	1	SHROOM2	23	9900831	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	7045978	9900831	145369729	3091	16604											
OFD1	8481	broad.mit.edu	37	chrX	13764477	13764477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgatcagtttgcagatgCttaccctcagcgtatcaagt	10	13	9	9	1	3	3	3	2	0	1	3	3	3	3	1	0	4	4	1	0	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:13764477C>T	uc004cvp.3	+	7	916	c.557C>T	c.(556-558)GCT>GTT	p.A186V	OFD1_uc004cvr.3_5'UTR|OFD1_uc011mil.1_5'UTR|OFD1_uc004cvq.3_Missense_Mutation_p.A46V|OFD1_uc010nen.2_Missense_Mutation_p.A185V|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Missense_Mutation_p.A185V|OFD1_uc004cvv.3_Missense_Mutation_p.A185V|OFD1_uc010neo.1_5'UTR	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	186					cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0						TTTGCAGATGCTTACCCTCAG	0.373													29	73					0	0	0.008361	0	0		T	13764477	T	T	13764477	3	4	19	1	0	0	0	0	1	0	0	0	10857	797	28	2	583	2	OFD1	23	13764477	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3863646	13764477	141506083	3092	16605											
OFD1	8481	broad.mit.edu	37	chrX	13778758	13778758	+	Frame_Shift_Del	DEL	G	-	-																															gtgcagcctcgaggctccgcGggggcacttcctccagacgc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:13778758delG	uc004cvp.3	+	16	2538	c.2179delG	c.(2179-2181)GGGfs	p.G727fs	OFD1_uc004cvr.3_Frame_Shift_Del_p.G294fs|OFD1_uc011mil.1_Frame_Shift_Del_p.G294fs|OFD1_uc004cvq.3_Frame_Shift_Del_p.G587fs|OFD1_uc010nen.2_Frame_Shift_Del_p.G726fs|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Frame_Shift_Del_p.G686fs|OFD1_uc004cvv.3_Frame_Shift_Del_p.G686fs	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	727	Mediates the interaction with SDCCAG8.				cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0						GAGGCTCCGCGGGGGCACTTC	0.547													50	112	---	---	---	---						.	-	13778758	-	-	13778758	7	5	19	1	0	1	0	1	0	0	0	0	10857	1116	39	0	2241	0	OFD1	23	13778758	Frame_Shift_Del	DEL	G	TCGA-BR-4361-01A-01D-1158-08	14281	13778758	141491802	3093	16606											
AP1S2	8905	broad.mit.edu	37	chrX	15864108	15864108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattgtcctgatcctcaataGcacagcaaaaatacagacta	16	9	5	11	0	1	2	1	1	0	1	3	2	3	2	2	0	3	2	2	0	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:15864108G>A	uc004cxi.2	-	3	496	c.206C>T	c.(205-207)GCT>GTT	p.A69V	AP1S2_uc004cxh.2_Missense_Mutation_p.A69V|AP1S2_uc010nex.2_Missense_Mutation_p.A111V|AP1S2_uc011mis.1_Missense_Mutation_p.A111V|AP1S2_uc011mit.1_Missense_Mutation_p.A111V|AP1S2_uc011miu.1_Missense_Mutation_p.A111V	NM_003916	NP_003907	P56377	AP1S2_HUMAN	adaptor-related protein complex 1 sigma 2	69					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	AP-type membrane coat adaptor complex|coated pit|cytoplasmic vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein transporter activity				0	Hepatocellular(33;0.183)					ATCCTCAATAGCACAGCAAAA	0.299													40	89					0	0	0.009718	0	0		A	15864108	A	A	15864108	3	1	19	1	0	0	0	0	1	0	0	0	737	971	34	2	279	2	AP1S2	23	15864108	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2085350	15864108	139406452	3094	16607											
TXLNG	55787	broad.mit.edu	37	chrX	16859704	16859704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaaagcggccatcaaagcgGcgaacagggatttagcaaca	15	5	11	10	3	2	0	2	0	0	0	2	2	2	1	1	3	5	1	1	3	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:16859704G>A	uc004cxq.1	+	10	1453	c.1402G>A	c.(1402-1404)GCG>ACG	p.A468T	TXLNG_uc010ney.1_Missense_Mutation_p.A336T	NM_018360	NP_060830	Q9NUQ3	TXLNG_HUMAN	gamma-taxilin	468					cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1						catcaaagcggcGAACAGGGA	0.453													12	79					0	0	0.010729	0	0		A	16859704	A	A	16859704	3	1	19	1	0	0	0	0	1	0	0	0	16815	1203	42	2	1440	2	TXLNG	23	16859704	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	995596	16859704	138410856	3095	16608											
NHS	4810	broad.mit.edu	37	chrX	17744154	17744154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcagctccacgtgcccctCgcagacctcagaaaccatcc	10	5	8	18	2	1	2	1	0	0	2	4	3	3	2	6	0	4	3	6	0	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:17744154C>T	uc004cxx.2	+	6	2203	c.1865C>T	c.(1864-1866)TCG>TTG	p.S622L	NHS_uc011mix.1_Missense_Mutation_p.S643L|NHS_uc004cxy.2_Missense_Mutation_p.S466L|NHS_uc004cxz.2_Missense_Mutation_p.S445L|NHS_uc004cya.2_Missense_Mutation_p.S345L	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	622						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					ACGTGCCCCTCGCAGACCTCA	0.572													53	115					0	0	0.01441	0	0		T	17744154	T	T	17744154	3	4	19	1	0	0	0	0	1	0	0	0	10430	893	31	1	1992	1	NHS	23	17744154	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	884450	17744154	137526406	3096	16609											
BEND2	139105	broad.mit.edu	37	chrX	18234721	18234721	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctgtgtcatcagtgggaTtatctgctgtgacataagtg	8	14	13	6	0	3	1	2	1	1	0	3	2	3	2	0	2	1	2	0	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:18234721T>G	uc004cyj.3	-	2	312	c.158A>C	c.(157-159)AAT>ACT	p.N53T	BEND2_uc010nfb.2_Missense_Mutation_p.N53T	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	53										ovary(3)|kidney(1)|central_nervous_system(1)	5						ATCAGTGGGATTATCTGCTGT	0.398													37	76					0	0	0.005524	0	0		G	18234721	G	G	18234721	3	3	19	1	0	0	0	0	1	0	0	0	1399	1493	52	5	2319	5	BEND2	23	18234721	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	490567	18234721	137035839	3097	16610											
CDKL5	6792	broad.mit.edu	37	chrX	18631319	18631319	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccatgaaaataatgtgtcaActagagtttcttctctacca	13	14	5	9	0	3	2	1	1	2	1	5	2	4	2	2	0	2	1	2	0	6	5	rs55803460	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:18631319A>G	uc004cym.2	+	15	2453	c.2200A>G	c.(2200-2202)ACT>GCT	p.T734A	CDKL5_uc004cyn.2_Missense_Mutation_p.T734A	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	734				Missing (in Ref. 4; CAA61445).	neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					TAATGTGTCAACTAGAGTTTC	0.358													79	144					0	0	0.01441	0	0		G	18631319	G	G	18631319	3	3	19	1	0	0	0	0	1	0	0	0	3160	43	2	3	2254	3	CDKL5	23	18631319	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	396598	18631319	136639241	3098	16611											
CNKSR2	22866	broad.mit.edu	37	chrX	21667109	21667109	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcctgtaatgaatgaaaaActacaccggctgagaattct	15	10	8	8	1	1	3	0	3	1	1	2	5	2	3	2	1	2	2	2	1	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:21667109A>G	uc004czx.1	+	21	2889	c.2853A>G	c.(2851-2853)AAA>AAG	p.K951K	CNKSR2_uc011mjo.1_Silent_p.K921K	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	951					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						TGAATGAAAAACTACACCGGC	0.353													4	165					0	0	0.000602	0	0		G	21667109	G	G	21667109	2	3	19	1	0	0	0	0	0	0	0	1	3610	40	2	3		3	CNKSR2	23	21667109	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3035790	21667109	133603451	3099	16612											
ZFX	7543	broad.mit.edu	37	chrX	24228590	24228590	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcaggggctttgtttacTcacaaaatggtgcataagga	12	11	11	7	0	1	0	1	0	0	0	1	1	1	1	0	4	3	4	0	4	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:24228590T>C	uc004dbf.2	+	9	1773	c.1515T>C	c.(1513-1515)ACT>ACC	p.T505T	ZFX_uc004dbe.2_3'UTR|ZFX_uc011mjv.1_Silent_p.T544T|ZFX_uc010nfz.2_Silent_p.T161T	NM_003410	NP_003401	P17010	ZFX_HUMAN	zinc finger protein, X-linked	505	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(2)	2						CTTTGTTTACTCACAAAATGG	0.463													57	116					0	0	0.01441	0	0		C	24228590	C	C	24228590	2	2	19	1	0	0	0	0	0	0	0	1	17686	1538	54	3		3	ZFX	23	24228590	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2561481	24228590	131041970	3100	16613											
PDK3	5165	broad.mit.edu	37	chrX	24549780	24549780	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttttctcaataggctggaTttggttatggtttgccaatt	7	19	9	6	0	2	0	1	0	2	0	3	1	2	1	1	4	1	3	1	4	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:24549780T>C	uc004dbg.2	+	10	1199	c.970T>C	c.(970-972)TTT>CTT	p.F324L	PDK3_uc004dbh.2_Missense_Mutation_p.F324L	NM_005391	NP_005382	Q15120	PDK3_HUMAN	pyruvate dehydrogenase kinase 3 isoform 2	324	ATP.|Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|protein binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						ATAGGCTGGATTTGGTTATGG	0.358													72	133					0	0	0.01441	0	0		C	24549780	C	C	24549780	3	2	19	1	0	0	0	0	1	0	0	0	11696	1493	52	3	1008	3	PDK3	23	24549780	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	321190	24549780	130720780	3101	16614											
PCYT1B	9468	broad.mit.edu	37	chrX	24608229	24608229	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagtgtctgagagcttcgtAtctctcggcttcattcatca	8	14	8	11	2	5	1	3	1	2	1	8	2	5	1	0	1	1	3	0	1	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:24608229A>T	uc004dbi.2	-	4	630	c.397T>A	c.(397-399)TAC>AAC	p.Y133N	PCYT1B_uc004dbk.3_Missense_Mutation_p.Y133N|PCYT1B_uc004dbj.2_Missense_Mutation_p.Y115N	NM_004845	NP_004836	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	133	Catalytic (Potential).					endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)	AGAGCTTCGTATCTCTCGGCT	0.453													17	28					0	0	0.007413	0	0		T	24608229	T	T	24608229	3	4	19	1	0	0	0	0	1	0	0	0	11630	449	16	5	769	5	PCYT1B	23	24608229	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	58449	24608229	130662331	3102	16615											
DCAF8L2	347442	broad.mit.edu	37	chrX	27766824	27766824	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggtgaagctgaatttccAgatgaagaatcggatgagtc	13	10	13	5	1	0	6	0	4	0	2	3	7	1	7	1	2	1	1	1	2	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:27766824A>G	uc011mjy.1	+	1	1899	c.1812A>G	c.(1810-1812)CCA>CCG	p.P604P		NM_001136533	NP_001130005			DDB1 and CUL4 associated factor 8-like 2											central_nervous_system(1)|pancreas(1)	2						CTGAATTTCCAGATGAAGAAT	0.527													5	8					0	0	0.000602	0	0		G	27766824	G	G	27766824	2	3	19	1	0	0	0	0	0	0	0	1	4281	175	7	3		3	DCAF8L2	23	27766824	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	3158595	27766824	127503736	3103	16616											
GK	2710	broad.mit.edu	37	chrX	30686191	30686191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtgtatagagaaaacatGtgagaaacttggacagctca	16	9	11	5	0	1	3	1	2	0	2	1	6	1	4	0	1	3	2	0	1	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:30686191G>A	uc004dch.3	+	3	394	c.215G>A	c.(214-216)TGT>TAT	p.C72Y	GK_uc010ngj.2_Missense_Mutation_p.C72Y|GK_uc004dci.3_Missense_Mutation_p.C72Y|GK_uc011mjz.1_Translation_Start_Site|GK_uc011mka.1_Intron|GK_uc010ngk.2_Intron	NM_203391	NP_976325	P32189	GLPK_HUMAN	glycerol kinase isoform a	72					glycerol-3-phosphate metabolic process|triglyceride biosynthetic process	cytosol|mitochondrial outer membrane	ATP binding|glycerol kinase activity			central_nervous_system(1)	1						GAGAAAACATGTGAGAAACTT	0.328													13	66					0	0	0.00245	0	0		A	30686191	A	A	30686191	3	1	19	1	0	0	0	0	1	0	0	0	6435	1377	48	4	225	4	GK	23	30686191	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2919367	30686191	124584369	3104	16617											
DMD	1756	broad.mit.edu	37	chrX	32613901	32613901	+	Silent	SNP	T	C	C																															tgttcttccaaagcagcagtTgcgtgatctccactagattc																								rs144372300		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:32613901T>C	uc004dda.1	-	13	1819	c.1575A>G	c.(1573-1575)GCA>GCG	p.A525A	DMD_uc004dcz.2_Silent_p.A402A|DMD_uc004dcy.1_Silent_p.A521A|DMD_uc004ddb.1_Silent_p.A517A|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Silent_p.A517A|DMD_uc010ngp.1_Intron|DMD_uc010ngq.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	525	Spectrin 2.		Missing (in BMD).		muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AAGCAGCAGTTGCGTGATCTC	0.348													21	40					0	0	0.014323	0	0		C	32613901	C	C	32613901	2	2	19	1	0	0	0	0	0	0	0	1	4586	1799	63	3		3	DMD	23	32613901	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1927710	32613901	122656659	3105	16618	26	2									
DMD	1756	broad.mit.edu	37	chrX	32613904	32613904	+	Silent	SNP	G	A	A																															tcttccaaagcagcagttgcGtgatctccactagattcatc																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:32613904G>A	uc004dda.1	-	13	1816	c.1572C>T	c.(1570-1572)CAC>CAT	p.H524H	DMD_uc004dcz.2_Silent_p.H401H|DMD_uc004dcy.1_Silent_p.H520H|DMD_uc004ddb.1_Silent_p.H516H|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Silent_p.H516H|DMD_uc010ngp.1_Intron|DMD_uc010ngq.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	524	Spectrin 2.		Missing (in BMD).		muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CAGCAGTTGCGTGATCTCCAC	0.348													15	45					0	0	0.004007	0	0		A	32613904	A	A	32613904	2	1	19	1	0	0	0	0	0	0	0	1	4586	1136	40	1		1	DMD	23	32613904	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3	32613904	122656656	3106	16619	26	2									
CXorf22	170063	broad.mit.edu	37	chrX	35969405	35969405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaaattaaacatgcacgtGtatacaataatagcccagag	19	8	6	8	1	0	1	0	0	0	1	0	1	0	1	1	0	4	2	1	0	9	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:35969405G>A	uc004ddj.2	+	5	873	c.814G>A	c.(814-816)GTA>ATA	p.V272I	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	272										large_intestine(1)|lung(1)|ovary(1)	3						ACATGCACGTGTATACAATAA	0.413													21	55					0	0	0.010504	0	0		A	35969405	A	A	35969405	3	1	19	1	0	0	0	0	1	0	0	0	4105	1377	48	4	832	4	CXorf22	23	35969405	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3355501	35969405	119301155	3107	16620											
FAM47C	442444	broad.mit.edu	37	chrX	37027011	37027011	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagacaactgacgaacccacGgagcctggtaaatacccctg	14	5	9	13	2	0	2	0	1	0	1	0	4	0	3	4	2	4	1	4	2	6	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:37027011G>A	uc004ddl.1	+	1	542	c.528G>A	c.(526-528)ACG>ACA	p.T176T		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	176										ovary(3)	3						ACGAACCCACGGAGCCTGGTA	0.612													13	27					0	0	0.001855	0	0		A	37027011	A	A	37027011	2	1	19	1	0	0	0	0	0	0	0	1	5585	1103	39	1		1	FAM47C	23	37027011	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1057606	37027011	118243549	3108	16621											
FAM47C	442444	broad.mit.edu	37	chrX	37027801	37027801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgcggatctcatctccgcCcggaacctcctgagactgga	7	8	10	16	4	2	1	1	1	2	1	6	5	3	4	4	3	1	0	4	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:37027801C>T	uc004ddl.1	+	1	1332	c.1318C>T	c.(1318-1320)CCG>TCG	p.P440S		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	440										ovary(3)	3						TCATCTCCGCCCGGAACCTCC	0.607													6	120					0	0	0.001168	0	0		T	37027801	T	T	37027801	3	4	19	1	0	0	0	0	1	0	0	0	5585	623	22	4	1320	4	FAM47C	23	37027801	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	790	37027801	118242759	3109	16622											
CXorf27	25763	broad.mit.edu	37	chrX	37850373	37850373	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtggacaacaaccgtgAgccccacagcgctgagagtg	13	4	13	11	2	0	3	0	2	0	2	0	5	0	4	3	1	4	1	3	1	3	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:37850373A>G	uc004ddt.3	+	1	304	c.281A>G	c.(280-282)GAG>GGG	p.E94G		NM_012274	NP_036406	O75409	HYPM_HUMAN	Huntingtin interacting protein M	94							DNA binding			central_nervous_system(1)	1						AACAACCGTGAGCCCCACAGC	0.522													17	42					0	0	0.006122	0	0		G	37850373	G	G	37850373	3	3	19	1	0	0	0	0	1	0	0	0	4108	304	11	3	283	3	CXorf27	23	37850373	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	822572	37850373	117420187	3110	16623											
OTC	5009	broad.mit.edu	37	chrX	38268015	38268015	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttatgagccggatgctagTgtaaccaagttggcagagca	11	9	14	7	1	0	2	0	1	0	1	0	3	0	3	2	3	4	6	2	3	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:38268015T>C	uc004def.3	+	7	898	c.684T>C	c.(682-684)AGT>AGC	p.S228S		NM_000531	NP_000522	P00480	OTC_HUMAN	ornithine carbamoyltransferase precursor	228					arginine biosynthetic process|urea cycle	mitochondrial matrix|ornithine carbamoyltransferase complex	ornithine carbamoyltransferase activity			ovary(1)|breast(1)	2					L-Citrulline(DB00155)|L-Ornithine(DB00129)	CGGATGCTAGTGTAACCAAGT	0.323													3	72					0	0	0.000602	0	0		C	38268015	C	C	38268015	2	2	19	1	0	0	0	0	0	0	0	1	11320	1693	59	3		3	OTC	23	38268015	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	417642	38268015	117002545	3111	16624											
BCOR	54880	broad.mit.edu	37	chrX	39923086	39923087	+	Frame_Shift_Ins	INS	-	T	T																															aggtgcagcaagtggcgttgINSttttttaggatggagccctg																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:39923086_39923087insT	uc004den.3	-	8	3913_3914	c.3621_3622insA	c.(3619-3624)AAACAAfs	p.K1207fs	BCOR_uc004dep.3_Frame_Shift_Ins_p.K1173fs|BCOR_uc004deo.3_Frame_Shift_Ins_p.K1155fs|BCOR_uc010nhb.2_5'Flank|BCOR_uc004dem.3_Frame_Shift_Ins_p.K1173fs	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	1207_1208					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						AAGTGGCGTTGTTTTTTAGGAT	0.505													43	70	---	---	---	---						.	T	39923087	T	T	39923086	7	5	19	1	0	1	1	0	0	0	0	0	1387	1386	48	0	1677	0	BCOR	23	39923086	Frame_Shift_Ins	INS	-	TCGA-BR-4361-01A-01D-1158-08	1655071	39923086	115347474	3112	16625											
BCOR	54880	broad.mit.edu	37	chrX	39932568	39932568	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggtgagggtagacaggTcctttgccatgtaaggagag	10	9	16	6	0	0	3	0	1	0	2	1	4	1	3	2	4	1	2	2	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:39932568T>C	uc004den.3	-	4	2323	c.2031A>G	c.(2029-2031)GGA>GGG	p.G677G	BCOR_uc004dep.3_Silent_p.G677G|BCOR_uc004deo.3_Silent_p.G677G|BCOR_uc004dem.3_Silent_p.G677G|BCOR_uc004deq.3_Silent_p.G677G	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	677	Pro-rich.				heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						GGTAGACAGGTCCTTTGCCAT	0.587													10	18					0	0	0.006214	0	0		C	39932568	C	C	39932568	2	2	19	1	0	0	0	0	0	0	0	1	1387	1654	58	3		3	BCOR	23	39932568	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	9482	39932568	115337992	3113	16626											
BCOR	54880	broad.mit.edu	37	chrX	39934153	39934153	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtattccaggcggtgttttgTatatagcactgaagccattt	9	15	10	7	1	0	1	0	1	0	0	1	1	1	1	2	2	2	4	2	2	5	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:39934153T>C	uc004den.3	-	4	738	c.446A>G	c.(445-447)TAC>TGC	p.Y149C	BCOR_uc004dep.3_Missense_Mutation_p.Y149C|BCOR_uc004deo.3_Missense_Mutation_p.Y149C|BCOR_uc004dem.3_Missense_Mutation_p.Y149C|BCOR_uc004deq.3_Missense_Mutation_p.Y149C	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	149					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						CGGTGTTTTGTATATAGCACT	0.507													6	78					0	0	0.001168	0	0		C	39934153	C	C	39934153	3	2	19	1	0	0	0	0	1	0	0	0	1387	1638	57	3	4869	3	BCOR	23	39934153	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	1585	39934153	115336407	3114	16627											
ATP6AP2	10159	broad.mit.edu	37	chrX	40456500	40456500	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcttactcttaaatttcaGgcagttccttttagtcttga	8	19	6	8	0	4	1	1	1	3	0	5	1	5	1	1	1	1	3	1	1	4	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:40456500G>T	uc004det.2	+	4	403	c.301_splice	c.e4-1	p.A101_splice	ATP6AP2_uc010nhc.2_Splice_Site|ATP6AP2_uc011mkl.1_Splice_Site_p.A25_splice|ATP6AP2_uc011mkm.1_Intron|ATP6AP2_uc011mkn.1_Intron|ATP6AP2_uc004deu.1_5'Flank	NM_005765	NP_005756	O75787	RENR_HUMAN	ATPase, H+ transporting, lysosomal accessory						angiotensin maturation|positive regulation of transforming growth factor-beta1 production|regulation of MAPKKK cascade	external side of plasma membrane|integral to membrane	protein binding|receptor activity				0						TTAAATTTCAGGCAGTTCCTT	0.363													11	100					0.00829132	0.00841852	0.008291	1	0		T	40456500	T	T	40456500	5	4	19	1	0	0	0	0	0	0	1	0	1168	1014	35	5	314	5	ATP6AP2	23	40456500	Splice_Site	SNP	G	TCGA-BR-4361-01A-01D-1158-08	522347	40456500	114814060	3115	16628											
USP9X	8239	broad.mit.edu	37	chrX	41000617	41000617	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taataaggtgatatctagtgTatcatactatactcatcgac	14	14	6	7	1	3	1	2	1	1	0	4	2	3	1	0	1	2	1	0	1	8	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:41000617T>C	uc004dfb.2	+	9	1727	c.1094T>C	c.(1093-1095)GTA>GCA	p.V365A	USP9X_uc004dfc.2_Missense_Mutation_p.V365A	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	365					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						ATATCTAGTGTATCATACTAT	0.358													12	21					0	0	0.001855	0	0		C	41000617	C	C	41000617	3	2	19	1	0	0	0	0	1	0	0	0	17116	1638	57	3	1124	3	USP9X	23	41000617	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	544117	41000617	114269943	3116	16629											
USP9X	8239	broad.mit.edu	37	chrX	41064672	41064672	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggtgtcctaagacacctTcaggtcatctttggtcattt	8	16	8	9	0	4	1	3	0	1	1	5	1	5	1	2	3	0	0	2	3	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:41064672T>C	uc004dfb.2	+	32	5574	c.4941T>C	c.(4939-4941)CTT>CTC	p.L1647L	USP9X_uc004dfc.2_Silent_p.L1647L	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1647					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						TAAGACACCTTCAGGTCATCT	0.383													9	235					0	0	0.004482	0	0		C	41064672	C	C	41064672	2	2	19	1	0	0	0	0	0	0	0	1	17116	1770	62	3		3	USP9X	23	41064672	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	64055	41064672	114205888	3117	16630											
DDX3X	1654	broad.mit.edu	37	chrX	41201791	41201791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attacgatggcattggcagcCgtggtgacagaagtggcttt	9	11	14	7	2	0	2	0	1	0	1	0	3	0	2	1	4	2	3	1	4	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:41201791C>T	uc004dfe.2	+	5	1183	c.328C>T	c.(328-330)CGT>TGT	p.R110C	DDX3X_uc010nhf.1_Missense_Mutation_p.R94C|DDX3X_uc004dff.2_Missense_Mutation_p.R110C|DDX3X_uc011mkq.1_Missense_Mutation_p.R94C|DDX3X_uc011mkr.1_Missense_Mutation_p.R110C|DDX3X_uc011mks.1_Missense_Mutation_p.R110C|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	110					interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						CATTGGCAGCCGTGGTGACAG	0.433										HNSCC(61;0.18)			27	64					0	0	0.004656	0	0		T	41201791	T	T	41201791	3	4	19	1	0	0	0	0	1	0	0	0	4361	652	23	1	346	1	DDX3X	23	41201791	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	137119	41201791	114068769	3118	16631											
ELK1	2002	broad.mit.edu	37	chrX	47497513	47497513	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acttctgggggcaaagcccgGcccaaacccggctccacatt	9	6	10	16	2	1	0	0	0	1	0	2	0	2	0	4	4	2	2	4	4	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:47497513G>A	uc004dik.3	-	5	1045	c.723C>T	c.(721-723)GGC>GGT	p.G241G	ELK1_uc010nhv.2_Silent_p.G241G|ELK1_uc010nhw.2_Silent_p.G131G|ELK1_uc004dil.3_Intron	NM_001114123	NP_001107595	P19419	ELK1_HUMAN	ELK1 protein	241					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						GCAAAGCCCGGCCCAAACCCG	0.592													11	26					0	0	0.001855	0	0		A	47497513	A	A	47497513	2	1	19	1	0	0	0	0	0	0	0	1	5067	1190	42	2		2	ELK1	23	47497513	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	6295722	47497513	107773047	3119	16632											
ELK1	2002	broad.mit.edu	37	chrX	47497563	47497563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgatttcaggtttggggcctCgggcggggtcaggatgacct	5	10	17	9	3	2	1	2	1	0	0	3	3	2	2	2	7	0	1	2	7	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:47497563C>T	uc004dik.3	-	5	995	c.673G>A	c.(673-675)GAG>AAG	p.E225K	ELK1_uc010nhv.2_Missense_Mutation_p.E225K|ELK1_uc010nhw.2_Missense_Mutation_p.E115K|ELK1_uc004dil.3_Intron	NM_001114123	NP_001107595	P19419	ELK1_HUMAN	ELK1 protein	225					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						TTTGGGGCCTCGGGCGGGGTC	0.572													6	26					0	0	0.001984	0	0		T	47497563	T	T	47497563	3	4	19	1	0	0	0	0	1	0	0	0	5067	893	31	1	625	1	ELK1	23	47497563	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	50	47497563	107772997	3120	16633											
ZNF81	347344	broad.mit.edu	37	chrX	47774714	47774714	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggataaaactattgggcaTggtcaagtttttacccagaa	13	12	9	7	0	1	1	1	0	0	1	1	2	1	2	1	3	2	2	1	3	6	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:47774714T>C	uc010nhy.1	+	6	1037	c.669T>C	c.(667-669)CAT>CAC	p.H223H		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	223						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				CTATTGGGCATGGTCAAGTTT	0.358													36	95					0	0	0.005524	0	0		C	47774714	C	C	47774714	2	2	19	1	0	0	0	0	0	0	0	1	18199	1461	51	3		3	ZNF81	23	47774714	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	277151	47774714	107495846	3121	16634											
SUV39H1	6839	broad.mit.edu	37	chrX	48558747	48558747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagcgcagccatctgggacGcatcactgtagagaatgagg	12	6	13	10	2	2	2	1	1	1	1	2	4	2	3	1	2	2	3	1	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:48558747G>A	uc004dkn.2	+	3	476	c.431G>A	c.(430-432)CGC>CAC	p.R144H	SUV39H1_uc011mmf.1_Missense_Mutation_p.R155H|SUV39H1_uc011mmg.1_Intron	NM_003173	NP_003164	O43463	SUV91_HUMAN	suppressor of variegation 3-9 homolog 1	144					cell cycle|cell differentiation|chromatin silencing at rDNA|interspecies interaction between organisms|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|chromosome, centromeric region|condensed nuclear chromosome|rDNA heterochromatin	chromatin binding|histone methyltransferase activity (H3-K9 specific)|protein N-terminus binding|zinc ion binding				0						CATCTGGGACGCATCACTGTA	0.617													18	41					0	0	0.007413	0	0		A	48558747	A	A	48558747	3	1	19	1	0	0	0	0	1	0	0	0	15437	1087	38	1	441	1	SUV39H1	23	48558747	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	784033	48558747	106711813	3122	16635											
GATA1	2623	broad.mit.edu	37	chrX	48649665	48649665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcttcctccactgcccCgagcacagccaccgctgcag	8	5	9	19	2	0	0	0	0	0	0	2	1	2	0	6	0	6	5	6	0	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:48649665C>T	uc004dkq.3	+	2	240	c.149C>T	c.(148-150)CCG>CTG	p.P50L		NM_002049	NP_002040	P15976	GATA1_HUMAN	GATA binding protein 1	50					basophil differentiation|eosinophil differentiation|erythrocyte development|megakaryocyte differentiation|platelet aggregation|platelet formation|positive regulation of anti-apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|regulation of glycoprotein biosynthetic process|transcription from RNA polymerase II promoter	nuclear membrane|nucleolus|nucleoplasm	C2H2 zinc finger domain binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.M1fs(7)|p.P50fs*87(3)|p.D42_D74>(3)|p.P38fs*14(2)|p.T48fs*11(2)|p.E39fs*83(2)|p.S51fs*17(1)|p.S47fs*9(1)|p.P50fs*94(1)|p.A45fs*15(1)|p.A45fs*85(1)|p.P50fs*6(1)		haematopoietic_and_lymphoid_tissue(246)|lung(2)	248						TCCACTGCCCCGAGCACAGCC	0.602			Mis|F		megakaryoblastic leukemia of Downs Syndrome								3	7					0	0	0.004672	0	0		T	48649665	T	T	48649665	3	4	19	1	0	0	0	0	1	0	0	0	6268	652	23	1	151	1	GATA1	23	48649665	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	90918	48649665	106620895	3123	16636											
HDAC6	10013	broad.mit.edu	37	chrX	48673824	48673824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcgccctggctgaaggcGtcagtgcttcgctccacacc	5	8	11	17	4	1	1	1	1	0	0	4	1	3	1	4	2	1	3	4	2	1	1	rs147989097		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:48673824G>A	uc011mmi.1	+	15	1278	c.1183G>A	c.(1183-1185)GTC>ATC	p.V395I	HDAC6_uc004dks.1_Missense_Mutation_p.V395I|HDAC6_uc010nig.1_Missense_Mutation_p.V243I|HDAC6_uc004dkt.1_Missense_Mutation_p.V395I|HDAC6_uc011mmk.1_Missense_Mutation_p.V376I|HDAC6_uc004dkv.1_Missense_Mutation_p.V43I|HDAC6_uc004dkw.1_Missense_Mutation_p.V43I	NM_006044	NP_006035	Q9UBN7	HDAC6_HUMAN	histone deacetylase 6	395	Histone deacetylase 1.				aggresome assembly|cellular response to hydrogen peroxide|Hsp90 deacetylation|lysosome localization|macroautophagy|misfolded or incompletely synthesized protein catabolic process|negative regulation of proteolysis|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|polyubiquitinated misfolded protein transport|positive regulation of apoptosis|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of epithelial cell migration|positive regulation of receptor biosynthetic process|positive regulation of signal transduction|regulation of androgen receptor signaling pathway|regulation of receptor activity|response to growth factor stimulus|response to toxin|transcription, DNA-dependent|tubulin deacetylation	aggresome|caveola|cell leading edge|cytosol|histone deacetylase complex|microtubule associated complex|perinuclear region of cytoplasm	actin binding|alpha-tubulin binding|beta-catenin binding|dynein complex binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|Hsp90 protein binding|microtubule binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|polyubiquitin binding|tau protein binding|tubulin deacetylase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4					Vorinostat(DB02546)	GGCTGAAGGCGTCAGTGCTTC	0.607													10	22					0	0	0.008291	0	0		A	48673824	A	A	48673824	3	1	19	1	0	0	0	0	1	0	0	0	7027	1145	40	1	1237	1	HDAC6	23	48673824	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	24159	48673824	106596736	3124	16637											
CCDC22	28952	broad.mit.edu	37	chrX	49093645	49093645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgcgtgtgatcaaccctgCggtgggctctggcctcagcc	4	9	13	15	2	3	1	2	1	1	0	3	1	3	1	4	3	4	1	4	3	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:49093645C>T	uc004dnd.1	+	2	299	c.143C>T	c.(142-144)GCG>GTG	p.A48V	CCDC22_uc011mna.1_Missense_Mutation_p.A48V|CCDC22_uc004dnc.1_RNA	NM_014008	NP_054727	O60826	CCD22_HUMAN	coiled-coil domain containing 22	48										central_nervous_system(1)	1						ATCAACCCTGCGGTGGGCTCT	0.637													22	51					0	0	0.014323	0	0		T	49093645	T	T	49093645	3	4	19	1	0	0	0	0	1	0	0	0	2800	768	27	1	149	1	CCDC22	23	49093645	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	419821	49093645	106176915	3125	16638											
AKAP4	8852	broad.mit.edu	37	chrX	49958505	49958505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactcctctccagtgccacGcatttctgcagctgtcagtt	6	12	9	14	1	3	0	1	0	2	0	5	1	4	1	3	1	3	4	3	1	0	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:49958505G>A	uc004dow.1	-	5	983	c.859C>T	c.(859-861)CGT>TGT	p.R287C	AKAP4_uc004dov.1_Intron|AKAP4_uc010njp.1_Missense_Mutation_p.R109C|AKAP4_uc004dou.1_Missense_Mutation_p.R278C	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	287					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					CCAGTGCCACGCATTTCTGCA	0.493													29	50					0	0	0.008361	0	0		A	49958505	A	A	49958505	3	1	19	1	0	0	0	0	1	0	0	0	453	1087	38	1	1713	1	AKAP4	23	49958505	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	864860	49958505	105312055	3126	16639											
GPR173	54328	broad.mit.edu	37	chrX	53106197	53106197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcccaccaccgcttctacGccaagcgcatgacactctgg	8	7	8	18	4	2	1	0	1	2	0	3	1	2	1	4	1	2	2	4	1	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:53106197G>A	uc004dru.2	+	2	652	c.394G>A	c.(394-396)GCC>ACC	p.A132T		NM_018969	NP_061842	Q9NS66	GP173_HUMAN	G protein-coupled receptor 173	132	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						CCGCTTCTACGCCAAGCGCAT	0.597													33	48					0	0	0.004289	0	0		A	53106197	A	A	53106197	3	1	19	1	0	0	0	0	1	0	0	0	6686	1087	38	1	396	1	GPR173	23	53106197	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3147692	53106197	102164363	3127	16640											
KDM5C	8242	broad.mit.edu	37	chrX	53227772	53227772	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagctcactattaggaaAcctccgctcacgggcttcag	10	8	9	14	2	3	0	3	0	0	0	4	1	4	1	2	2	3	4	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:53227772A>G	uc004drz.2	-	17	2949	c.2416T>C	c.(2416-2418)TTT>CTT	p.F806L	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.F739L|KDM5C_uc004dsa.2_Missense_Mutation_p.F805L	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	806					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						CTATTAGGAAACCTCCGCTCA	0.547			N|F|S		clear cell renal carcinoma								10	21					0	0	0.008291	0	0		G	53227772	G	G	53227772	3	3	19	1	0	0	0	0	1	0	0	0	8151	43	2	3	2404	3	KDM5C	23	53227772	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	121575	53227772	102042788	3128	16641											
HUWE1	10075	broad.mit.edu	37	chrX	53630414	53630414	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagcttgctcaaaacactcaGacccaattgagagccccact	13	7	6	15	0	2	2	2	1	0	2	2	3	2	2	3	0	4	2	3	0	3	2	rs144396302	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:53630414G>A	uc004dsp.2	-	27	3193	c.2791C>T	c.(2791-2793)CTG>TTG	p.L931L		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	931					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						AAAACACTCAGACCCAATTGA	0.458													17	35					0	0	0.008871	0	0		A	53630414	A	A	53630414	2	1	19	1	0	0	0	0	0	0	0	1	7477	933	33	4		4	HUWE1	23	53630414	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	402642	53630414	101640146	3129	16642											
WNK3	65267	broad.mit.edu	37	chrX	54224914	54224914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctacccactgtactggatacCccgcccccgccacagcatta	9	7	6	19	2	0	0	0	0	0	0	0	1	0	1	6	1	4	2	6	1	4	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:54224914C>T	uc004dtd.1	-	23	5514	c.5075G>A	c.(5074-5076)GGG>GAG	p.G1692E	WNK3_uc004dtc.1_Missense_Mutation_p.G1749E|uc004dtb.1_5'Flank	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1692					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						TACTGGATACCCCGCCCCCGC	0.498													11	26					0	0	0.00499	0	0		T	54224914	T	T	54224914	3	4	19	1	0	0	0	0	1	0	0	0	17405	623	22	4	160	4	WNK3	23	54224914	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	594500	54224914	101045646	3130	16643											
WNK3	65267	broad.mit.edu	37	chrX	54263437	54263437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctgattcatcatcactgCtcattggggaagatggcgaa	10	13	10	8	1	5	2	4	1	1	1	5	4	5	3	0	3	1	1	0	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:54263437C>T	uc004dtd.1	-	20	4860	c.4421G>A	c.(4420-4422)AGC>AAC	p.S1474N	WNK3_uc004dtc.1_Missense_Mutation_p.S1521N	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1474					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						ATCATCACTGCTCATTGGGGA	0.423													102	255					0	0	0.01441	0	0		T	54263437	T	T	54263437	3	4	19	1	0	0	0	0	1	0	0	0	17405	797	28	2	860	2	WNK3	23	54263437	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	38523	54263437	101007123	3131	16644											
WNK3	65267	broad.mit.edu	37	chrX	54319444	54319444	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaaggcaaaatctgcggCtgagtcagctttgaatgctt	12	10	10	9	1	2	2	1	2	1	0	2	2	2	2	1	2	3	4	1	2	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:54319444C>T	uc004dtd.1	-	10	2353	c.1914G>A	c.(1912-1914)CAG>CAA	p.Q638Q	WNK3_uc004dtc.1_Silent_p.Q638Q	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	638					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						AAATCTGCGGCTGAGTCAGCT	0.378													16	41					0	0	0.004007	0	0		T	54319444	T	T	54319444	2	4	19	1	0	0	0	0	0	0	0	1	17405	796	28	2		2	WNK3	23	54319444	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	56007	54319444	100951116	3132	16645											
APEX2	27301	broad.mit.edu	37	chrX	55029534	55029534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagcagaagccctcctggcgGcaggcaggtactgcaagcct	9	5	14	13	1	0	1	0	0	0	1	1	2	1	1	3	4	5	5	3	4	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:55029534G>A	uc004dtz.2	+	4	638	c.562G>A	c.(562-564)GCA>ACA	p.A188T	APEX2_uc011mom.1_Missense_Mutation_p.A17T	NM_014481	NP_055296	Q9UBZ4	APEX2_HUMAN	apurinic/apyrimidinic endonuclease 2	188					cell cycle|DNA recombination|DNA repair	nucleus	DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|endonuclease activity|exonuclease activity|zinc ion binding			breast(1)	1						CCTCCTGGCGGCAGGCAGGTA	0.582								Other_BER_factors					19	35					0	0	0.014323	0	0		A	55029534	A	A	55029534	3	1	19	1	0	0	0	0	1	0	0	0	770	1203	42	2	576	2	APEX2	23	55029534	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	710090	55029534	100241026	3133	16646											
USP51	158880	broad.mit.edu	37	chrX	55514918	55514918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggacccaggccgggatctgCgccgggatccacgccaggcc	6	4	15	16	4	1	0	0	0	1	0	2	3	2	3	6	5	1	0	6	5	0	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:55514918C>T	uc004dun.1	-	2	534	c.455G>A	c.(454-456)CGC>CAC	p.R152H	USP51_uc011moo.1_Intron	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	152					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						CCGGGATCTGCGCCGGGATCC	0.473													6	11					0	0	0.001984	0	0		T	55514918	T	T	55514918	3	4	19	1	0	0	0	0	1	0	0	0	17109	768	27	1	1684	1	USP51	23	55514918	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	485384	55514918	99755642	3134	16647											
UBQLN2	29978	broad.mit.edu	37	chrX	56591874	56591874	+	Frame_Shift_Del	DEL	C	-	-																															aggacccactggccctgcagCcccccctggctccaccggct																										TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:56591874delC	uc004dus.2	+	1	1803	c.1568delC	c.(1567-1569)GCCfs	p.A523fs	UBQLN2_uc011moq.1_Intron	NM_013444	NP_038472	Q9UHD9	UBQL2_HUMAN	ubiquilin 2	523	11.|12 X 3 AA tandem repeats of P-X-X.					cytoplasm|nucleus|plasma membrane	binding			ovary(1)|skin(1)	2						GGCCCTGCAGCCCCCCCTGGC	0.642													11	14	---	---	---	---						.	-	56591874	-	-	56591874	7	5	19	1	0	1	0	1	0	0	0	0	16923	739	26	0	1570	0	UBQLN2	23	56591874	Frame_Shift_Del	DEL	C	TCGA-BR-4361-01A-01D-1158-08	1076956	56591874	98678686	3135	16648											
FAAH2	158584	broad.mit.edu	37	chrX	57337164	57337164	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagctttccagctacaaggTactattcttttatttttggc	9	17	7	8	0	1	0	0	0	1	0	2	1	2	0	1	2	4	3	1	2	6	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:57337164T>C	uc004dvc.2	+	3	561	c.412_splice	c.e3+2	p.G138_splice		NM_174912	NP_777572	Q6GMR7	FAAH2_HUMAN	fatty acid amide hydrolase 2							integral to membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|hydrolase activity			ovary(3)	3						AGCTACAAGGTACTATTCTTT	0.373										HNSCC(52;0.14)			20	42					0	0	0.012319	0	0		C	57337164	C	C	57337164	5	2	19	1	0	0	0	0	0	0	1	0	5365	1652	57	3	424	3	FAAH2	23	57337164	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	745290	57337164	97933396	3136	16649											
SPIN4	139886	broad.mit.edu	37	chrX	62570001	62570001	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgaatatcatcatcaaacTtaatgaagtaaacagatggc	17	11	7	6	0	3	3	3	2	0	1	3	3	3	3	0	1	2	1	0	1	7	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:62570001T>G	uc004dvf.2	-	1	1218	c.698A>C	c.(697-699)AAG>ACG	p.K233T		NM_001012968	NP_001012986	Q56A73	SPIN4_HUMAN	spindlin family, member 4	233					gamete generation					ovary(1)|lung(1)	2						ATCATCAAACTTAATGAAGTA	0.398													13	102					0	0	0.013537	0	0		G	62570001	G	G	62570001	3	3	19	1	0	0	0	0	1	0	0	0	15081	1609	56	5	55	5	SPIN4	23	62570001	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	5232837	62570001	92700559	3137	16650											
HEPH	9843	broad.mit.edu	37	chrX	65415012	65415012	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtgcctcccagccattcaGcatgcagccccatggggtct	6	8	10	17	1	2	0	1	0	1	0	3	0	3	0	6	2	5	2	6	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:65415012G>T	uc011moz.1	+	9	1511	c.1451G>T	c.(1450-1452)AGC>ATC	p.S484I	HEPH_uc004dwn.2_Missense_Mutation_p.S484I|HEPH_uc004dwo.2_Missense_Mutation_p.S214I|HEPH_uc010nkr.2_Missense_Mutation_p.S484I|HEPH_uc011mpa.1_Missense_Mutation_p.S484I	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	481	Extracellular (Potential).|Plastocyanin-like 3.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						CAGCCATTCAGCATGCAGCCC	0.522													13	33					2.35188e-11	2.46639e-11	0.006122	1	0		T	65415012	T	T	65415012	3	4	19	1	0	0	0	0	1	0	0	0	7070	971	34	5	1638	5	HEPH	23	65415012	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2845011	65415012	89855548	3138	16651											
OPHN1	4983	broad.mit.edu	37	chrX	67333078	67333078	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgacaggttcagaaagAttcctgaaatgaatgaaaat	17	10	9	5	0	2	6	2	4	0	2	3	6	3	6	1	1	0	1	1	1	5	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:67333078A>T	uc004dww.3	-	17	1659	c.1365T>A	c.(1363-1365)AAT>AAA	p.N455K	OPHN1_uc011mpg.1_Missense_Mutation_p.N455K	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	455	Rho-GAP.				axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						GTTCAGAAAGATTCCTGAAAT	0.413													5	59					0	0	0.000602	0	0		T	67333078	T	T	67333078	3	4	19	1	0	0	0	0	1	0	0	0	10894	330	12	5	1075	5	OPHN1	23	67333078	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1918066	67333078	87937482	3139	16652											
KIF4A	24137	broad.mit.edu	37	chrX	69521784	69521784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagaagactgttttggttgCcttggatactgtttcctgtt	6	18	11	6	0	0	2	0	1	0	2	1	4	1	3	2	2	2	4	2	2	2	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:69521784C>T	uc004dyg.2	+	6	678	c.551C>T	c.(550-552)GCC>GTC	p.A184V	KIF4A_uc010nkw.2_Missense_Mutation_p.A184V|KIF4A_uc004dyf.1_Missense_Mutation_p.A184V	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	184	Kinesin-motor.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						GTTTTGGTTGCCTTGGATACT	0.438													9	192					0	0	0.004482	0	0		T	69521784	T	T	69521784	3	4	19	1	0	0	0	0	1	0	0	0	8319	739	26	2	569	2	KIF4A	23	69521784	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2188706	69521784	85748776	3140	16653											
CITED1	4435	broad.mit.edu	37	chrX	71522015	71522015	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catttgaggctaccccagggTagtgcagaatggccactgct	9	9	12	11	0	0	2	0	1	0	1	0	2	0	2	3	3	3	4	3	3	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:71522015T>C	uc011mqd.1	-	3	295	c.140A>G	c.(139-141)TAC>TGC	p.Y47C	CITED1_uc011mqc.1_Missense_Mutation_p.Y73C|CITED1_uc004eas.2_Missense_Mutation_p.Y47C|CITED1_uc004eat.2_Missense_Mutation_p.Y47C	NM_001144887	NP_001138359	Q99966	CITE1_HUMAN	melanocyte-specific gene 1 isoform 1	47					apoptosis|branching involved in ureteric bud morphogenesis|cell proliferation|melanin biosynthetic process|melanocyte differentiation|mesenchymal to epithelial transition|metanephros development|negative regulation of neuron apoptosis|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|nucleocytoplasmic transport|placenta development|positive regulation of anti-apoptosis|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transcription from RNA polymerase II promoter|response to cAMP|response to estrogen stimulus|response to insulin stimulus|response to interferon-gamma|response to interleukin-1|response to interleukin-11|response to interleukin-2|response to interleukin-4|response to interleukin-6|response to interleukin-9|response to lipopolysaccharide|response to parathyroid hormone stimulus|response to transforming growth factor beta stimulus|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	cytosol|nucleus	chromatin binding|co-SMAD binding|LBD domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding				0	Renal(35;0.156)					TACCCCAGGGTAGTGCAGAAT	0.552													5	7					0	0	0.000602	0	0		C	71522015	C	C	71522015	3	2	19	1	0	0	0	0	1	0	0	0	3442	1638	57	3	445	3	CITED1	23	71522015	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2000231	71522015	83748545	3141	16654											
KIAA2022	340533	broad.mit.edu	37	chrX	73961874	73961874	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgaggctgccttcattttGctctggagaatggtggctga	7	13	14	7	0	2	3	1	2	1	1	2	4	2	3	1	4	2	3	1	4	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:73961874G>T	uc004eby.2	-	3	3135	c.2518C>A	c.(2518-2520)CAA>AAA	p.Q840K		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	840					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						CCTTCATTTTGCTCTGGAGAA	0.473													14	164					2.35188e-11	2.46639e-11	0.006122	1	0		T	73961874	T	T	73961874	3	4	19	1	0	0	0	0	1	0	0	0	8285	1328	46	5	2040	5	KIAA2022	23	73961874	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	2439859	73961874	81308686	3142	16655											
KIAA2022	340533	broad.mit.edu	37	chrX	73964061	73964061	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcattgggaagtgaccatgTgttcaggccttttgcaatgc	8	14	11	8	0	2	1	2	1	0	0	2	2	2	2	2	2	2	2	2	2	2	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:73964061T>C	uc004eby.2	-	3	948	c.331A>G	c.(331-333)ACA>GCA	p.T111A		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	111					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						AGTGACCATGTGTTCAGGCCT	0.512													5	132					0	0	0.000602	0	0		C	73964061	C	C	73964061	3	2	19	1	0	0	0	0	1	0	0	0	8285	1696	59	3	4227	3	KIAA2022	23	73964061	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2187	73964061	81306499	3143	16656											
ABCB7	22	broad.mit.edu	37	chrX	74318830	74318830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aactctagctcgtagatctgGcctgtctttgggccacacat	8	12	9	12	1	3	1	0	0	3	1	4	1	3	1	2	2	2	2	2	2	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:74318830G>A	uc004eca.2	-	4	425	c.400C>T	c.(400-402)CCA>TCA	p.P134S	ABCB7_uc004ebz.2_Missense_Mutation_p.P135S|ABCB7_uc011mqn.1_Missense_Mutation_p.P108S|ABCB7_uc010nls.2_Intron|ABCB7_uc010nlt.2_Intron	NM_004299	NP_004290	O75027	ABCB7_HUMAN	ATP-binding cassette, sub-family B, member 7	134					cellular iron ion homeostasis	integral to membrane|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|heme transporter activity			ovary(1)	1						CGTAGATCTGGCCTGTCTTTG	0.378													47	111					0	0	0.01441	0	0		A	74318830	A	A	74318830	3	1	19	1	0	0	0	0	1	0	0	0	46	1203	42	2	1910	2	ABCB7	23	74318830	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	354769	74318830	80951730	3144	16657											
ATRX	546	broad.mit.edu	37	chrX	76875932	76875932	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgatcgtatagaattcaTagctttagaaacagcagatg	14	12	8	7	1	1	4	1	1	0	3	2	4	1	4	1	0	3	3	1	0	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:76875932T>C	uc004ecp.3	-	20	5435	c.5203A>G	c.(5203-5205)ATG>GTG	p.M1735V	ATRX_uc004ecq.3_Missense_Mutation_p.M1697V|ATRX_uc004eco.3_Missense_Mutation_p.M1520V	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1735	Helicase ATP-binding.				DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	ATAGAATTCATAGCTTTAGAA	0.318			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						4	39					0	0	0.000602	0	0		C	76875932	C	C	76875932	3	2	19	1	0	0	0	0	1	0	0	0	1209	1406	49	3	2339	3	ATRX	23	76875932	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	2557102	76875932	78394628	3145	16658											
LPAR4	2846	broad.mit.edu	37	chrX	78010974	78010974	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggaagacttatttatccaAgatcacaatatttattgaag	15	14	6	6	0	1	3	1	1	0	2	2	4	2	4	1	1	0	0	1	1	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:78010974A>G	uc010nme.2	+	2	1013	c.608A>G	c.(607-609)AAG>AGG	p.K203R		NM_005296	NP_005287	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	203	Extracellular (Potential).					integral to plasma membrane	lipid binding|purinergic nucleotide receptor activity, G-protein coupled			ovary(3)	3						TATTTATCCAAGATCACAATA	0.408													29	89					0	0	0.009535	0	0		G	78010974	G	G	78010974	3	3	19	1	0	0	0	0	1	0	0	0	8925	72	3	3	610	3	LPAR4	23	78010974	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	1135042	78010974	77259586	3146	16659											
SATL1	340562	broad.mit.edu	37	chrX	84363505	84363505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgtgcctaattggctggtgCctacttgtctcatgcttggt	4	17	11	9	0	1	0	1	0	1	0	2	0	1	0	2	3	4	2	2	3	2	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:84363505C>T	uc011mqx.1	-	1	470	c.470G>A	c.(469-471)GGC>GAC	p.G157D	SATL1_uc004een.2_Missense_Mutation_p.G157D	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	213	Gln-rich.						N-acetyltransferase activity			breast(2)	2						TTGGCTGGTGCCTACTTGTCT	0.522											OREG0019887	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	62					0	0	0.00308	0	0		T	84363505	T	T	84363505	3	4	19	1	0	0	0	0	1	0	0	0	13880	739	26	2	1448	2	SATL1	23	84363505	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	6352531	84363505	70907055	3147	16660											
CHM	1121	broad.mit.edu	37	chrX	85218946	85218946	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtgcttaatgactcatcCtccgtaggcaggaaggcaga	12	9	11	9	1	1	2	1	1	0	1	3	3	3	3	2	3	1	4	2	3	4	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:85218946C>A	uc004eet.2	-	5	456	c.426G>T	c.(424-426)GAG>GAT	p.E142D	CHM_uc011mqz.1_Translation_Start_Site	NM_000390	NP_000381	P24386	RAE1_HUMAN	choroideremia isoform a	142					intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)				ATGACTCATCCTCCGTAGGCA	0.468													22	114					1.96292e-10	2.05376e-10	0.010504	1	0		A	85218946	A	A	85218946	3	1	19	1	0	0	0	0	1	0	0	0	3353	680	24	5	1579	5	CHM	23	85218946	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	855441	85218946	70051614	3148	16661											
DIAPH2	1730	broad.mit.edu	37	chrX	96213149	96213149	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaatcaattggtcaaaggTaatactaaaactagagtttt	17	12	8	4	0	2	2	2	0	0	2	2	3	2	2	0	2	2	2	0	2	8	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:96213149T>C	uc004efu.3	+	16	2331	c.1935_splice	c.e16+2	p.K645_splice	DIAPH2_uc004eft.3_Splice_Site_p.K645_splice	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156						cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						TGGTCAAAGGTAATACTAAAA	0.348													7	71					0	0	0.00308	0	0		C	96213149	C	C	96213149	5	2	19	1	0	0	0	0	0	0	1	0	4525	1652	57	3	1999	3	DIAPH2	23	96213149	Splice_Site	SNP	T	TCGA-BR-4361-01A-01D-1158-08	10994203	96213149	59057411	3149	16662											
SRPX2	27286	broad.mit.edu	37	chrX	99919891	99919891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaccacctggaaggtgatcGcagccgaatctgcatggaag	11	7	12	11	2	1	1	0	1	1	0	2	4	1	3	3	3	3	2	3	3	4	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:99919891G>A	uc004egb.2	+	5	956	c.476G>A	c.(475-477)CGC>CAC	p.R159H		NM_014467	NP_055282	O60687	SRPX2_HUMAN	sushi-repeat-containing protein, X-linked 2	159	Sushi 2.				angiogenesis|cell motility|cell-cell adhesion|positive regulation of cell migration involved in sprouting angiogenesis|regulation of phosphorylation	cytoplasm|extracellular region	receptor binding			ovary(2)	2						GAAGGTGATCGCAGCCGAATC	0.532													6	9					0	0	0.001984	0	0		A	99919891	A	A	99919891	3	1	19	1	0	0	0	0	1	0	0	0	15190	1087	38	1	490	1	SRPX2	23	99919891	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3706742	99919891	55350669	3150	16663											
DRP2	1821	broad.mit.edu	37	chrX	100515565	100515565	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgtcatgccttccccagTgtgcgaagttctgatgtgac	6	12	10	13	2	2	2	1	2	1	0	4	3	4	2	4	0	2	1	4	0	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:100515565T>C	uc004egz.2	+	24	3198	c.2829T>C	c.(2827-2829)AGT>AGC	p.S943S	DRP2_uc011mrh.1_Silent_p.S865S	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	943					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						CCTTCCCCAGTGTGCGAAGTT	0.517													22	309					0	0	0.014323	0	0		C	100515565	C	C	100515565	2	2	19	1	0	0	0	0	0	0	0	1	4770	1693	59	3		3	DRP2	23	100515565	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	595674	100515565	54754995	3151	16664											
RPL36A	6173	broad.mit.edu	37	chrX	100646445	100646445	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctgaactgtttctttactAggttaacgtccctaaaaccc	10	15	5	11	1	2	1	0	1	2	0	3	1	3	1	2	1	4	2	2	1	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:100646445A>G	uc004ehk.2	+	2	88	c.4_splice	c.e2-2	p.V2_splice	BTK_uc010nno.2_5'Flank|RPL36A_uc004ehj.1_Splice_Site_p.V2_splice	NM_021029	NP_066357	P83881	RL36A_HUMAN	ribosomal protein L36a						endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	protein binding|structural constituent of ribosome				0						TTTCTTTACTAGGTTAACGTC	0.483													23	274					0	0	0.003954	0	0		G	100646445	G	G	100646445	5	3	19	1	0	0	0	0	0	0	1	0	13612	434	15	3	8	3	RPL36A	23	100646445	Splice_Site	SNP	A	TCGA-BR-4361-01A-01D-1158-08	130880	100646445	54624115	3152	16665											
HNRNPH2	3188	broad.mit.edu	37	chrX	100667240	100667240	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacgttgaagtattcaagtcTaacagtgttgaaatggattg	13	14	10	4	1	2	2	1	2	1	0	2	3	2	3	0	1	2	3	0	1	6	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:100667240T>C	uc004ehm.2	+	2	434	c.264T>C	c.(262-264)TCT>TCC	p.S88S	HNRNPH2_uc004ehn.2_Silent_p.S88S	NM_019597	NP_062543	P55795	HNRH2_HUMAN	heterogeneous nuclear ribonucleoprotein H2	88	RRM 1.				nuclear mRNA splicing, via spliceosome	actin cytoskeleton|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						TATTCAAGTCTAACAGTGTTG	0.448													22	195					0	0	0.00333	0	0		C	100667240	C	C	100667240	2	2	19	1	0	0	0	0	0	0	0	1	7283	1509	53	3		3	HNRNPH2	23	100667240	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	20795	100667240	54603320	3153	16666											
TCEAL6	158931	broad.mit.edu	37	chrX	101395936	101395936	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaagtcctcctgagagtccTtgggggaatcgtccgtcccc	6	10	12	13	2	0	1	0	1	0	1	6	3	5	2	6	2	0	1	6	2	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:101395936T>G	uc004eiq.2	-	3	529	c.368A>C	c.(367-369)AAG>ACG	p.K123T		NM_001006938	NP_001006939	Q6IPX3	TCAL6_HUMAN	transcription elongation factor A (SII)-like 6	123					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						CTGAGAGTCCTTGGGGGAATC	0.557													68	111					0	0	0.01441	0	0		G	101395936	G	G	101395936	3	3	19	1	0	0	0	0	1	0	0	0	15700	1609	56	5	187	5	TCEAL6	23	101395936	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	728696	101395936	53874624	3154	16667											
GPRASP2	114928	broad.mit.edu	37	chrX	101969872	101969872	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggggaagaggttatcgctggGcctgagagagagaatgatgt	11	8	18	4	1	0	5	0	2	0	3	1	8	0	6	1	4	0	2	1	4	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:101969872G>A	uc004ejk.2	+	4	1409	c.75G>A	c.(73-75)GGG>GGA	p.G25G	GPRASP2_uc004ejl.2_Silent_p.G25G|GPRASP2_uc004ejm.2_Silent_p.G25G|GPRASP2_uc011mrp.1_5'Flank	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	25						cytoplasm	protein binding			ovary(1)	1						TTATCGCTGGGCCTGAGAGAG	0.483													20	221					0	0	0.007413	0	0		A	101969872	A	A	101969872	2	1	19	1	0	0	0	0	0	0	0	1	6739	1190	42	2		2	GPRASP2	23	101969872	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	573936	101969872	53300688	3155	16668											
GPRASP2	114928	broad.mit.edu	37	chrX	101970123	101970123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggcagtaggtggcgctcGttctaaaactgatgccaagg	10	8	14	9	2	1	1	0	1	1	0	2	1	1	1	1	4	2	4	1	4	4	3	rs139789934	byFrequency	TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:101970123G>A	uc004ejk.2	+	4	1660	c.326G>A	c.(325-327)CGT>CAT	p.R109H	GPRASP2_uc004ejl.2_Missense_Mutation_p.R109H|GPRASP2_uc004ejm.2_Missense_Mutation_p.R109H|GPRASP2_uc011mrp.1_5'Flank	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	109						cytoplasm	protein binding			ovary(1)	1						GGTGGCGCTCGTTCTAAAACT	0.572													86	174					0	0	0.01441	0	0		A	101970123	A	A	101970123	3	1	19	1	0	0	0	0	1	0	0	0	6739	1145	40	1	328	1	GPRASP2	23	101970123	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	251	101970123	53300437	3156	16669											
CXorf57	55086	broad.mit.edu	37	chrX	105883944	105883944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaattcttcaaggcccacacGctaatccgtaagtcatttgt	11	12	7	11	2	3	0	2	0	1	0	4	1	4	0	2	1	0	2	2	1	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:105883944G>A	uc004emi.3	+	10	2048	c.1897G>A	c.(1897-1899)GCT>ACT	p.A633T	CXorf57_uc004emj.3_Missense_Mutation_p.A536T	NM_018015	NP_060485	Q6NSI4	CX057_HUMAN	hypothetical protein LOC55086	633										ovary(1)|lung(1)|breast(1)	3						AGGCCCACACGCTAATCCGTA	0.323													10	115					0	0	0.008291	0	0		A	105883944	A	A	105883944	3	1	19	1	0	0	0	0	1	0	0	0	4116	1087	38	1	1935	1	CXorf57	23	105883944	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3913821	105883944	49386616	3157	16670											
RBM41	55285	broad.mit.edu	37	chrX	106312575	106312575	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctcctggaaccgagcgaAcaatgacacaagatctcttt	12	11	7	11	2	2	2	0	1	2	1	4	5	2	3	2	1	3	0	2	1	4	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:106312575A>G	uc004emz.2	-	6	1016	c.985T>C	c.(985-987)TTC>CTC	p.F329L	RBM41_uc004emy.1_Missense_Mutation_p.F329L	NM_018301	NP_060771	Q96IZ5	RBM41_HUMAN	RNA binding motif protein 41	329	RRM.						nucleotide binding|RNA binding			ovary(1)	1						AACCGAGCGAACAATGACACA	0.423													14	260					0	0	0.006122	0	0		G	106312575	G	G	106312575	3	3	19	1	0	0	0	0	1	0	0	0	13160	43	2	3	273	3	RBM41	23	106312575	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	428631	106312575	48957985	3158	16671											
TSC22D3	1831	broad.mit.edu	37	chrX	106957919	106957919	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccaccagctctcggatctGctccttcaggatctccacct	6	11	6	18	1	4	0	1	0	3	0	8	2	6	2	5	2	2	2	5	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:106957919G>T	uc004eng.2	-	3	485	c.235C>A	c.(235-237)CAG>AAG	p.Q79K	TSC22D3_uc004enf.2_Missense_Mutation_p.Q22K|TSC22D3_uc004enh.2_Missense_Mutation_p.Q145K|TSC22D3_uc004eni.2_Missense_Mutation_p.Q145K|TSC22D3_uc004enj.2_Missense_Mutation_p.Q145K	NM_004089	NP_004080	Q99576	T22D3_HUMAN	TSC22 domain family, member 3 isoform 2	79	Leucine-zipper.						sequence-specific DNA binding transcription factor activity				0						TCTCGGATCTGCTCCTTCAGG	0.522													113	221					8.09351e-62	8.72383e-62	0.01441	1	0		T	106957919	T	T	106957919	3	4	19	1	0	0	0	0	1	0	0	0	16635	1328	46	5	173	5	TSC22D3	23	106957919	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	645344	106957919	48312641	3159	16672											
TSC22D3	1831	broad.mit.edu	37	chrX	107018394	107018394	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggttgcagatgccctcgtTgatcaggtagcaggggtccc	6	9	15	11	2	1	2	1	1	0	1	3	2	2	2	2	4	3	5	2	4	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:107018394T>C	uc004enh.2	-	1	624	c.256A>G	c.(256-258)AAC>GAC	p.N86D	TSC22D3_uc004eni.2_Missense_Mutation_p.N86D|TSC22D3_uc004enj.2_Missense_Mutation_p.N86D	NM_198057	NP_932174	Q99576	T22D3_HUMAN	TSC22 domain family, member 3 isoform 1	Error:Variant_position_missing_in_Q99576_after_alignment							sequence-specific DNA binding transcription factor activity				0						ATGCCCTCGTTGATCAGGTAG	0.577													4	125					0	0	0.009096	0	0		C	107018394	C	C	107018394	3	2	19	1	0	0	0	0	1	0	0	0	16635	1812	63	3	484	3	TSC22D3	23	107018394	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	60475	107018394	48252166	3160	16673											
MID2	11043	broad.mit.edu	37	chrX	107148791	107148791	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtcctcatcaaccaagcTgagcatatcctgaaagaaaa	17	7	6	11	0	2	3	2	2	0	1	4	3	4	3	3	0	3	2	3	0	6	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:107148791T>C	uc004enl.2	+	5	1581	c.1008T>C	c.(1006-1008)GCT>GCC	p.A336A	MID2_uc004enk.2_Silent_p.A336A	NM_012216	NP_036348	Q9UJV3	TRIM1_HUMAN	midline 2 isoform 1	336						centrosome|microtubule	ligase activity|zinc ion binding			ovary(1)	1						TCAACCAAGCTGAGCATATCC	0.423													88	196					0	0	0.01441	0	0		C	107148791	C	C	107148791	2	2	19	1	0	0	0	0	0	0	0	1	9596	1567	55	3		3	MID2	23	107148791	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	130397	107148791	48121769	3161	16674											
TEX13B	56156	broad.mit.edu	37	chrX	107225187	107225187	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgacctcgctgggcacctcGctgtcctccaggatggccct	4	10	11	16	2	0	1	0	1	0	0	4	2	2	2	5	3	0	3	5	3	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:107225187G>A	uc004enn.1	-	2	264	c.171C>T	c.(169-171)AGC>AGT	p.S57S		NM_031273	NP_112563	Q9BXU2	TX13B_HUMAN	testis expressed 13B	57										ovary(1)	1						TGGGCACCTCGCTGTCCTCCA	0.602													7	221					0	0	0.001984	0	0		A	107225187	A	A	107225187	2	1	19	1	0	0	0	0	0	0	0	1	15802	1078	38	1		1	TEX13B	23	107225187	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	76396	107225187	48045373	3162	16675											
COL4A5	1287	broad.mit.edu	37	chrX	107930771	107930771	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcaaggtcccccaggtcccCctggaacctcctctgttgca	6	9	9	17	0	1	0	0	0	1	0	4	1	4	1	6	3	3	3	6	3	2	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:107930771C>A	uc004enz.1	+	48	4577	c.4375C>A	c.(4375-4377)CCT>ACT	p.P1459T	COL4A5_uc011mso.1_Missense_Mutation_p.P1456T|COL4A5_uc011msp.1_Missense_Mutation_p.P135T	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	1453	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						CCCAGGTCCCCCTGGAACCTC	0.502									Alport_syndrome_with_Diffuse_Leiomyomatosis				10	236					0.000673444	0.000687612	0.008291	1	0		A	107930771	A	A	107930771	3	1	19	1	0	0	0	0	1	0	0	0	3697	623	22	5	4554	5	COL4A5	23	107930771	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	705584	107930771	47339789	3163	16676											
IRS4	8471	broad.mit.edu	37	chrX	107977646	107977646	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagacttcccttttccaccAgttcctccagctggtggggg	5	11	10	15	0	0	1	0	0	0	1	4	1	4	1	6	3	1	2	6	3	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:107977646A>G	uc004eoc.2	-	1	1962	c.1929T>C	c.(1927-1929)ACT>ACC	p.T643T		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	643						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						CTTTTCCACCAGTTCCTCCAG	0.468													17	596					0	0	0.006122	0	0		G	107977646	G	G	107977646	2	3	19	1	0	0	0	0	0	0	0	1	7858	175	7	3		3	IRS4	23	107977646	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	46875	107977646	47292914	3164	16677											
IRS4	8471	broad.mit.edu	37	chrX	107979483	107979483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgaggaaagaagcggggtgGtcaccactgctgctagagct	10	6	15	10	2	1	2	1	0	0	2	1	4	1	3	2	4	4	3	2	4	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:107979483G>A	uc004eoc.2	-	1	125	c.92C>T	c.(91-93)ACC>ATC	p.T31I		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	31						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						AAGCGGGGTGGTCACCACTGC	0.637													6	67					0	0	0.001168	0	0		A	107979483	A	A	107979483	3	1	19	1	0	0	0	0	1	0	0	0	7858	1261	44	4	3685	4	IRS4	23	107979483	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	1837	107979483	47291077	3165	16678											
TRPC5	7224	broad.mit.edu	37	chrX	111095589	111095589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagttcattgcaaaatcCatcaggttccaccagtcatg	12	10	9	10	0	3	0	3	0	0	0	5	1	5	1	3	2	1	3	3	2	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:111095589C>T	uc004epl.1	-	5	2233	c.1314G>A	c.(1312-1314)ATG>ATA	p.M438I	TRPC5_uc004epm.1_Missense_Mutation_p.M438I	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	438	Helical; (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						TTGCAAAATCCATCAGGTTCC	0.423													9	162					0	0	0.004482	0	0		T	111095589	T	T	111095589	3	4	19	1	0	0	0	0	1	0	0	0	16608	594	21	4	1635	4	TRPC5	23	111095589	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	3116106	111095589	44174971	3166	16679											
TRPC5	7224	broad.mit.edu	37	chrX	111155755	111155755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgagctcccagcccagacGgaaggcagttaggatggggt	9	7	15	10	1	0	2	0	1	0	1	1	4	1	4	2	5	2	3	2	5	2	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:111155755G>A	uc004epl.1	-	3	1583	c.664C>T	c.(664-666)CGT>TGT	p.R222C	TRPC5_uc004epm.1_Missense_Mutation_p.R222C	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	222	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						CAGCCCAGACGGAAGGCAGTT	0.557													83	202					0	0	0.01441	0	0		A	111155755	A	A	111155755	3	1	19	1	0	0	0	0	1	0	0	0	16608	1116	39	1	2293	1	TRPC5	23	111155755	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	60166	111155755	44114805	3167	16680											
LHFPL1	340596	broad.mit.edu	37	chrX	111914429	111914429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atagcgcccacattcttccaCcatgatcagactgtgtccct	9	11	6	15	1	2	2	1	1	1	1	4	2	4	2	4	0	1	0	4	0	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:111914429C>T	uc004epq.2	-	2	523	c.190G>A	c.(190-192)GTG>ATG	p.V64M	LHFPL1_uc004epp.2_Missense_Mutation_p.V87M|LHFPL1_uc010nqa.2_Intron|LHFPL1_uc010nqb.2_Missense_Mutation_p.V64M	NM_178175	NP_835469	Q86WI0	LHPL1_HUMAN	lipoma HMGIC fusion partner-like 1 precursor	64						integral to membrane					0						CATTCTTCCACCATGATCAGA	0.577													14	211					0	0	0.003163	0	0		T	111914429	T	T	111914429	3	4	19	1	0	0	0	0	1	0	0	0	8780	507	18	4	484	4	LHFPL1	23	111914429	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	758674	111914429	43356131	3168	16681											
AMOT	154796	broad.mit.edu	37	chrX	112033828	112033828	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctacttacctctgagcAgccacagttgcagcagcatc	10	9	7	15	0	1	1	0	1	1	0	2	1	1	1	3	0	8	5	3	0	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:112033828A>G	uc004epr.2	-	7	2109	c.2109T>C	c.(2107-2109)GCT>GCC	p.A703A	AMOT_uc004eps.2_Silent_p.A294A	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	703					actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						ACCTCTGAGCAGCCACAGTTG	0.428													152	313					0	0	0.01441	0	0		G	112033828	G	G	112033828	2	3	19	1	0	0	0	0	0	0	0	1	582	175	7	3		3	AMOT	23	112033828	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	119399	112033828	43236732	3169	16682											
KLHL13	90293	broad.mit.edu	37	chrX	117053538	117053538	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggcagaatctgtaggaaActggcagcttccagcgtgtc	10	9	12	10	1	1	1	0	0	1	1	3	2	2	2	1	3	3	4	1	3	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:117053538A>G	uc004eql.2	-	4	578	c.516T>C	c.(514-516)AGT>AGC	p.S172S	KLHL13_uc004eqk.2_Silent_p.S121S|KLHL13_uc011mtn.1_Silent_p.S12S|KLHL13_uc011mto.1_Silent_p.S166S|KLHL13_uc011mtp.1_Silent_p.S174S|KLHL13_uc004eqm.2_Silent_p.S121S|KLHL13_uc011mtq.1_Silent_p.S156S	NM_033495	NP_277030	Q9P2N7	KLH13_HUMAN	kelch-like 13	172					cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex				kidney(1)|skin(1)	2						TCTGTAGGAAACTGGCAGCTT	0.383													53	111					0	0	0.01441	0	0		G	117053538	G	G	117053538	2	3	19	1	0	0	0	0	0	0	0	1	8385	40	2	3		3	KLHL13	23	117053538	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	5019710	117053538	38217022	3170	16683											
WDR44	54521	broad.mit.edu	37	chrX	117576542	117576542	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagatattggtaacctcAaatgactccagaatcagact	14	13	6	8	0	2	4	2	1	0	3	3	4	3	4	2	1	1	1	2	1	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:117576542A>G	uc004eqn.2	+	17	2708	c.2283A>G	c.(2281-2283)TCA>TCG	p.S761S	WDR44_uc004eqo.2_Silent_p.S761S|WDR44_uc011mtr.1_Silent_p.S672S|WDR44_uc010nqi.2_Silent_p.S471S	NM_019045	NP_061918	Q5JSH3	WDR44_HUMAN	WD repeat domain 44 protein	761	WD 5.					cytosol|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm				lung(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5						TGGTAACCTCAAATGACTCCA	0.343													20	70					0	0	0.008871	0	0		G	117576542	G	G	117576542	2	3	19	1	0	0	0	0	0	0	0	1	17322	117	5	3		3	WDR44	23	117576542	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	523004	117576542	37694018	3171	16684											
DOCK11	139818	broad.mit.edu	37	chrX	117677508	117677508	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcacagattggcacgtggTaaactacaagtatgaggact	14	9	11	7	1	0	2	0	1	0	1	0	3	0	3	0	3	3	4	0	3	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:117677508T>C	uc004eqp.2	+	4	407	c.344T>C	c.(343-345)GTA>GCA	p.V115A		NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	115	Interaction with activated CDC42 (By similarity).				blood coagulation	cytosol	GTP binding			ovary(3)	3						TGGCACGTGGTAAACTACAAG	0.338													74	143					0	0	0.01441	0	0		C	117677508	C	C	117677508	3	2	19	1	0	0	0	0	1	0	0	0	4692	1638	57	3	358	3	DOCK11	23	117677508	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	100966	117677508	37593052	3172	16685											
KIAA1210	57481	broad.mit.edu	37	chrX	118215323	118215323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctgccatgtggctccatGctttggctttcttcctggcc	2	17	9	13	0	2	0	0	0	2	0	4	0	4	0	4	3	2	3	4	3	0	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:118215323G>A	uc004era.3	-	14	5099	c.5099C>T	c.(5098-5100)GCA>GTA	p.A1700V		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1700										ovary(4)|skin(1)	5						GTGGCTCCATGCTTTGGCTTT	0.388													6	202					0	0	0.001984	0	0		A	118215323	A	A	118215323	3	1	19	1	0	0	0	0	1	0	0	0	8230	1319	46	2	34	2	KIAA1210	23	118215323	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	537815	118215323	37055237	3173	16686											
CXorf56	63932	broad.mit.edu	37	chrX	118694255	118694255	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatacatagtctcctcaTcttctgtgttacaaaactta	12	14	5	10	0	4	1	1	0	3	1	5	1	4	1	1	0	3	2	1	0	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:118694255T>C	uc004erk.1	-	2	264	c.218A>G	c.(217-219)GAT>GGT	p.D73G	CXorf56_uc004erj.1_Missense_Mutation_p.D24G|CXorf56_uc011mtu.1_Missense_Mutation_p.D73G	NM_022101	NP_071384	Q9H5V9	CX056_HUMAN	hypothetical protein LOC63932	73							protein binding				0						AGTCTCCTCATCTTCTGTGTT	0.453													23	291					0	0	0.014323	0	0		C	118694255	C	C	118694255	3	2	19	1	0	0	0	0	1	0	0	0	4115	1435	50	3	474	3	CXorf56	23	118694255	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	478932	118694255	36576305	3174	16687											
UPF3B	65109	broad.mit.edu	37	chrX	118972430	118972430	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagattctctttgtccaattTcttggctttttctcttttgt	4	23	6	8	0	3	1	0	0	3	1	6	2	4	1	1	1	0	1	1	1	1	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:118972430T>C	uc004erz.1	-	9	984	c.907A>G	c.(907-909)AAA>GAA	p.K303E	UPF3B_uc004esa.1_Missense_Mutation_p.K290E	NM_080632	NP_542199	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B	303	Sufficient for association with EJC core.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|termination of RNA polymerase II transcription	cytosol|exon-exon junction complex|nucleoplasm	mRNA binding|nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(2)|kidney(1)	3						TTGTCCAATTTCTTGGCTTTT	0.368													70	156					0	0	0.01441	0	0		C	118972430	C	C	118972430	3	2	19	1	0	0	0	0	1	0	0	0	17032	1792	62	3	556	3	UPF3B	23	118972430	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	278175	118972430	36298130	3175	16688											
ZBTB33	10009	broad.mit.edu	37	chrX	119388375	119388375	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaaaataccagttttgatGgatcattaatacagaagatg	16	11	7	7	0	1	3	1	1	0	2	1	4	1	4	2	1	2	1	2	1	6	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:119388375G>T	uc004esn.1	+	2	1333	c.1105G>T	c.(1105-1107)GGA>TGA	p.G369*	ZBTB33_uc010nqm.1_Nonsense_Mutation_p.G369*	NM_006777	NP_006768	Q86T24	KAISO_HUMAN	kaiso	369					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleolus|plasma membrane	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						CAGTTTTGATGGATCATTAAT	0.378													12	236					2.27111e-07	2.35657e-07	0.013537	1	0		T	119388375	T	T	119388375	4	4	19	1	0	0	0	0	0	1	0	0	17561	1349	47	5	1107	5	ZBTB33	23	119388375	Nonsense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	415945	119388375	35882185	3176	16689											
CUL4B	8450	broad.mit.edu	37	chrX	119708425	119708425	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaccgtctttagaggtagtAgcctcatcatcattcccatc	9	12	6	14	1	4	1	3	0	1	1	6	1	5	1	4	1	1	2	4	1	3	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:119708425A>G	uc004esw.2	-	2	485	c.48T>C	c.(46-48)GCT>GCC	p.A16A		NM_003588	NP_003579	Q13620	CUL4B_HUMAN	cullin 4B isoform 1	16	Ser-rich.				cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3						TAGAGGTAGTAGCCTCATCAT	0.343													5	206					0	0	0.000602	0	0		G	119708425	G	G	119708425	2	3	19	1	0	0	0	0	0	0	0	1	4061	407	15	3		3	CUL4B	23	119708425	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	320050	119708425	35562135	3177	16690											
MCTS1	28985	broad.mit.edu	37	chrX	119742205	119742205	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaccctgctgcagtagatAccattgttgtatccttccca	8	15	6	12	0	0	1	0	0	0	1	2	1	2	1	4	0	4	5	4	0	4	8			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:119742205A>G	uc004esx.2	+	4	736	c.388A>G	c.(388-390)ACC>GCC	p.T130A	MCTS1_uc011mub.1_Missense_Mutation_p.T131A	NM_014060	NP_054779	Q9ULC4	MCTS1_HUMAN	malignant T cell amplified sequence 1 isoform 1	130	PUA.				cell cycle|positive regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm	RNA binding				0						TGCAGTAGATACCATTGTTGT	0.413													11	148					0	0	0.008291	0	0		G	119742205	G	G	119742205	3	3	19	1	0	0	0	0	1	0	0	0	9420	391	14	3	420	3	MCTS1	23	119742205	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	33780	119742205	35528355	3178	16691											
STAG2	10735	broad.mit.edu	37	chrX	123195082	123195082	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttaaattttagttacatgaGcatgcagcataccttgtgga	12	15	8	6	0	0	1	0	1	0	0	0	2	0	2	1	1	5	4	1	1	5	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:123195082G>A	uc004etz.3	+	15	1764	c.1425G>A	c.(1423-1425)GAG>GAA	p.E475E	STAG2_uc004eua.2_Silent_p.E475E|STAG2_uc004eub.2_Silent_p.E475E|STAG2_uc004euc.2_Silent_p.E475E|STAG2_uc004eud.2_Silent_p.E475E|STAG2_uc004eue.2_Silent_p.E475E	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	475					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						AGTTACATGAGCATGCAGCAT	0.383													6	169					0	0	0.001984	0	0		A	123195082	A	A	123195082	2	1	19	1	0	0	0	0	0	0	0	1	15268	962	34	2		2	STAG2	23	123195082	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	3452877	123195082	32075478	3179	16692											
ODZ1	10178	broad.mit.edu	37	chrX	123518480	123518480	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggtgtgtttcatcactgTagtagttatgacctgattta	8	19	9	5	0	2	2	2	2	0	0	2	2	2	2	1	1	0	4	1	1	4	7			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:123518480T>C	uc004euj.2	-	29	6344	c.6280A>G	c.(6280-6282)ACA>GCA	p.T2094A	ODZ1_uc011muj.1_Missense_Mutation_p.T2100A|ODZ1_uc010nqy.2_Missense_Mutation_p.T2101A	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2094	YD 15.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TTCATCACTGTAGTAGTTATG	0.368													7	143					0	0	0.00308	0	0		C	123518480	C	C	123518480	3	2	19	1	0	0	0	0	1	0	0	0	10853	1638	57	3	1909	3	ODZ1	23	123518480	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	323398	123518480	31752080	3180	16693											
ODZ1	10178	broad.mit.edu	37	chrX	123526044	123526044	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgaaggtgaatatgtgatgTtcacttcattatatctgctt	10	16	8	7	1	3	2	2	2	1	0	3	3	3	2	1	1	1	2	1	1	5	6			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:123526044T>C	uc004euj.2	-	27	5589	c.5525A>G	c.(5524-5526)AAC>AGC	p.N1842S	ODZ1_uc011muj.1_Missense_Mutation_p.N1848S|ODZ1_uc010nqy.2_Missense_Mutation_p.N1849S	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1842	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						ATATGTGATGTTCACTTCATT	0.393													3	143					0	0	0.004672	0	0		C	123526044	C	C	123526044	3	2	19	1	0	0	0	0	1	0	0	0	10853	1725	60	3	2672	3	ODZ1	23	123526044	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	7564	123526044	31744516	3181	16694											
BCORL1	63035	broad.mit.edu	37	chrX	129147330	129147330	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accctgcccctggttaccacTaacttcagtcctctgccagc	7	10	6	18	0	2	0	1	0	1	0	3	0	3	0	6	1	5	1	6	1	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:129147330T>C	uc004evb.1	+	4	696	c.582T>C	c.(580-582)ACT>ACC	p.T194T	BCORL1_uc010nrd.1_Silent_p.T96T	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	194					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						TGGTTACCACTAACTTCAGTC	0.577													14	167					0	0	0.006122	0	0		C	129147330	C	C	129147330	2	2	19	1	0	0	0	0	0	0	0	1	1388	1509	53	3		3	BCORL1	23	129147330	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	5621286	129147330	26123230	3182	16695											
BCORL1	63035	broad.mit.edu	37	chrX	129159178	129159178	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggcgagcccgagaaaTgccctggaggacagaggctg	9	5	16	11	2	0	2	0	0	0	2	0	6	0	4	3	4	2	1	3	4	1	0			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:129159178T>C	uc004evb.1	+	7	4016	c.3902T>C	c.(3901-3903)ATG>ACG	p.M1301T	BCORL1_uc010nrd.1_Intron|BCORL1_uc004evc.1_Missense_Mutation_p.M63T	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1301					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GCCCGAGAAATGCCCTGGAGG	0.522													17	112					0	0	0.007413	0	0		C	129159178	C	C	129159178	3	2	19	1	0	0	0	0	1	0	0	0	1388	1464	51	3	3924	3	BCORL1	23	129159178	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	11848	129159178	26111382	3183	16696											
RAB33A	9363	broad.mit.edu	37	chrX	129318513	129318513	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagccctgaaatttgctgaTgcccacaacatgctcttgtt	9	14	7	11	0	1	2	0	2	1	0	1	2	1	2	2	0	5	3	2	0	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:129318513T>C	uc004evl.2	+	2	777	c.513T>C	c.(511-513)GAT>GAC	p.D171D	RAB33A_uc010nre.2_RNA	NM_004794	NP_004785	Q14088	RB33A_HUMAN	Ras-related protein Rab-33A	171					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding				0						AATTTGCTGATGCCCACAACA	0.532													32	82					0	0	0.013726	0	0		C	129318513	C	C	129318513	2	2	19	1	0	0	0	0	0	0	0	1	12947	1461	51	3		3	RAB33A	23	129318513	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	159335	129318513	25952047	3184	16697											
SLC25A14	9016	broad.mit.edu	37	chrX	129505599	129505599	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggccaaactggcttcggcTtggaccctggaacatcattg	8	11	11	11	1	1	0	1	0	0	0	2	2	1	2	2	5	2	2	2	5	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:129505599T>C	uc004evn.1	+	10	1130	c.917T>C	c.(916-918)CTT>CCT	p.L306P	SLC25A14_uc004evo.1_Missense_Mutation_p.L127P|SLC25A14_uc004evp.1_Missense_Mutation_p.L306P|SLC25A14_uc004evq.1_Missense_Mutation_p.L303P|SLC25A14_uc004evr.1_Missense_Mutation_p.L334P	NM_003951	NP_003942	O95258	UCP5_HUMAN	solute carrier family 25, member 14 isoform	306	Helical; Name=6; (Potential).|Solcar 3.				aerobic respiration|mitochondrial transport	integral to plasma membrane|mitochondrial inner membrane	binding			ovary(1)	1						TGGCTTCGGCTTGGACCCTGG	0.398													64	171					0	0	0.01441	0	0		C	129505599	C	C	129505599	3	2	19	1	0	0	0	0	1	0	0	0	14501	1609	56	3	951	3	SLC25A14	23	129505599	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	187086	129505599	25764961	3185	16698											
ENOX2	10495	broad.mit.edu	37	chrX	129801573	129801573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatatctttctcatgggCagctttctcgttcaccaggc	6	15	7	13	1	4	0	2	0	3	0	7	0	5	0	2	2	1	3	2	2	1	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:129801573C>T	uc004evw.2	-	9	1343	c.925G>A	c.(925-927)GCC>ACC	p.A309T	ENOX2_uc004evx.2_Missense_Mutation_p.A280T|ENOX2_uc004evy.2_Missense_Mutation_p.A280T|ENOX2_uc004evv.2_Missense_Mutation_p.A136T	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	309	Potential.				cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						TTCTCATGGGCAGCTTTCTCG	0.498													7	450					0	0	0.001984	0	0		T	129801573	T	T	129801573	3	4	19	1	0	0	0	0	1	0	0	0	5135	710	25	2	939	2	ENOX2	23	129801573	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	295974	129801573	25468987	3186	16699											
FAM122C	159091	broad.mit.edu	37	chrX	133988192	133988192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taattcgtcagctgaaatcgGcactgtcacaaactctcctg	11	11	7	12	2	3	1	2	1	1	0	6	1	3	1	1	1	2	2	1	1	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:133988192G>A	uc004exz.1	+	7	919	c.514G>A	c.(514-516)GCA>ACA	p.A172T	FAM122C_uc011mvq.1_RNA|FAM122C_uc004exy.1_3'UTR	NM_138819	NP_620174	Q6P4D5	F222C_HUMAN	hypothetical protein LOC159091	172											0	Acute lymphoblastic leukemia(192;0.000127)					GCTGAAATCGGCACTGTCACA	0.408													12	90					0	0	0.013537	0	0		A	133988192	A	A	133988192	3	1	19	1	0	0	0	0	1	0	0	0	5432	1203	42	2	1101	2	FAM122C	23	133988192	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	4186619	133988192	21282368	3187	16700											
ZNF75D	7626	broad.mit.edu	37	chrX	134421382	134421382	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgaagtgcttattaagaTctgaactccatctaaacctc	13	13	5	10	0	3	3	1	2	2	1	5	3	4	3	2	0	3	1	2	0	6	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:134421382T>A	uc004eyp.2	-	7	3875	c.1220A>T	c.(1219-1221)GAT>GTT	p.D407V	ZNF75D_uc004eym.2_Intron|ZNF75D_uc004eyn.2_Missense_Mutation_p.D186V|ZNF75D_uc004eyo.2_Missense_Mutation_p.D312V	NM_007131	NP_009062	P51815	ZN75D_HUMAN	zinc finger protein 75	407	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTTATTAAGATCTGAACTCCA	0.378													9	194					0	0	0.006214	0	0		A	134421382	A	A	134421382	3	1	19	1	0	0	0	0	1	0	0	0	18159	1435	50	5	316	5	ZNF75D	23	134421382	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	433190	134421382	20849178	3188	16701											
DDX26B	203522	broad.mit.edu	37	chrX	134711258	134711258	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaaaccacaaacaccaccTactgtaactaaccatgtggg	16	6	7	12	0	0	0	0	0	0	0	0	1	0	1	4	2	5	1	4	2	5	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:134711258T>C	uc004eyw.3	+	14	2277	c.1914T>C	c.(1912-1914)CCT>CCC	p.P638P	DDX26B_uc004eyx.3_Silent_p.P239P	NM_182540	NP_872346	Q5JSJ4	DX26B_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	638											0	Acute lymphoblastic leukemia(192;6.56e-05)					AAACACCACCTACTGTAACTA	0.488													70	200					0	0	0.01441	0	0		C	134711258	C	C	134711258	2	2	19	1	0	0	0	0	0	0	0	1	4356	1509	53	3		3	DDX26B	23	134711258	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	289876	134711258	20559302	3189	16702											
SAGE1	55511	broad.mit.edu	37	chrX	134993422	134993422	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcacctgataactccttgTcaacggttccacctggttgt	8	12	9	12	1	1	1	1	1	0	0	3	1	3	1	4	3	2	3	4	3	2	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:134993422T>C	uc004ezh.2	+	17	2244	c.2077T>C	c.(2077-2079)TCA>CCA	p.S693P	SAGE1_uc010nry.1_Missense_Mutation_p.S662P|SAGE1_uc011mvv.1_Missense_Mutation_p.S317P	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	693										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					TAACTCCTTGTCAACGGTTCC	0.463													4	129					0	0	0.001168	0	0		C	134993422	C	C	134993422	3	2	19	1	0	0	0	0	1	0	0	0	13834	1667	58	3	2139	3	SAGE1	23	134993422	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	282164	134993422	20277138	3190	16703											
MAP7D3	79649	broad.mit.edu	37	chrX	135308143	135308143	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgcgtttgtcagcttcCtcttgagcttttattttggc	3	21	8	9	1	3	1	1	1	2	0	4	1	4	1	1	1	3	3	1	1	1	9			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:135308143C>T	uc004ezt.2	-	13	2155	c.2064G>A	c.(2062-2064)GAG>GAA	p.E688E	MAP7D3_uc004ezs.2_Silent_p.E652E|MAP7D3_uc011mwc.1_Silent_p.E670E|MAP7D3_uc010nsa.1_Silent_p.E646E	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	688						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					TGTCAGCTTCCTCTTGAGCTT	0.378													6	116					0	0	0.001168	0	0		T	135308143	T	T	135308143	2	4	19	1	0	0	0	0	0	0	0	1	9287	680	24	4		4	MAP7D3	23	135308143	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	314721	135308143	19962417	3191	16704											
GPR112	139378	broad.mit.edu	37	chrX	135494507	135494507	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctctgctgtgggtggttgCgattggataactcttctggt	5	15	13	8	1	3	0	0	0	3	0	3	2	3	1	1	4	3	2	1	4	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:135494507C>T	uc004ezu.1	+	24	9310	c.9019C>T	c.(9019-9021)CGA>TGA	p.R3007*	GPR112_uc010nsb.1_Nonsense_Mutation_p.R2802*	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	3007	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TGGGTGGTTGCGATTGGATAA	0.398													5	65					0	0	0.000602	0	0		T	135494507	T	T	135494507	4	4	19	1	0	0	0	0	0	1	0	0	6644	760	27	1	9101	1	GPR112	23	135494507	Nonsense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	186364	135494507	19776053	3192	16705											
HTATSF1	27336	broad.mit.edu	37	chrX	135582956	135582956	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaaatcttaaaggagaCggtctttgctgttatttgaa	13	13	10	5	1	2	2	0	1	2	1	2	4	2	3	0	3	1	2	0	3	6	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:135582956C>T	uc004ezw.2	+	5	971	c.549C>T	c.(547-549)GAC>GAT	p.D183D	HTATSF1_uc004ezx.2_Silent_p.D183D	NM_001163280	NP_001156752	O43719	HTSF1_HUMAN	HIV-1 Tat specific factor 1	183	RRM 1.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|viral genome replication	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					TTAAAGGAGACGGTCTTTGCT	0.318													44	109					0	0	0.00874	0	0		T	135582956	T	T	135582956	2	4	19	1	0	0	0	0	0	0	0	1	7449	535	19	1		1	HTATSF1	23	135582956	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	88449	135582956	19687604	3193	16706											
ARHGEF6	9459	broad.mit.edu	37	chrX	135764958	135764958	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgaggacttgcagataacaTtatcaggacatttgaaaata	16	10	8	7	1	1	2	1	1	0	1	1	5	1	4	1	2	2	1	1	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:135764958T>G	uc004fab.2	-	13	1900	c.1438A>C	c.(1438-1440)ATG>CTG	p.M480L	ARHGEF6_uc011mwd.1_Missense_Mutation_p.M353L|ARHGEF6_uc011mwe.1_Missense_Mutation_p.M326L	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	480	PH.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					GCAGATAACATTATCAGGACA	0.373													3	60					0	0	0.004672	0	0		G	135764958	G	G	135764958	3	3	19	1	0	0	0	0	1	0	0	0	910	1493	52	5	932	5	ARHGEF6	23	135764958	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	182002	135764958	19505602	3194	16707											
ARHGEF6	9459	broad.mit.edu	37	chrX	135790867	135790867	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggcttggcagagtgtcTgttgaaatgtgcatacttcc	9	12	11	9	0	1	2	0	1	1	1	2	2	2	2	2	2	2	4	2	2	3	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:135790867T>C	uc004fab.2	-	8	1352	c.890A>G	c.(889-891)CAG>CGG	p.Q297R	ARHGEF6_uc011mwd.1_Missense_Mutation_p.Q170R|ARHGEF6_uc011mwe.1_Missense_Mutation_p.Q143R	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	297	DH.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					GCAGAGTGTCTGTTGAAATGT	0.373													21	51					0	0	0.00333	0	0		C	135790867	C	C	135790867	3	2	19	1	0	0	0	0	1	0	0	0	910	1580	55	3	1500	3	ARHGEF6	23	135790867	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	25909	135790867	19479693	3195	16708											
RBMX	27316	broad.mit.edu	37	chrX	135961537	135961537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctttctcatttgtttccGtattaagcccaccaatgaag	10	14	7	10	1	1	1	1	1	1	0	3	2	2	1	3	0	2	3	3	0	4	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:135961537G>A	uc004fae.1	-	2	260	c.50C>T	c.(49-51)ACG>ATG	p.T17M	RBMX_uc011mwf.1_Missense_Mutation_p.T17M|RBMX_uc004fad.1_Missense_Mutation_p.T17M|RBMX_uc011mwg.1_Translation_Start_Site|RBMX_uc004faf.1_Translation_Start_Site|RBMX_uc010nsf.1_Intron|RBMX_uc004fag.1_Intron|SNORD61_uc004fah.1_5'Flank	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	17	RRM.					catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					ATTTGTTTCCGTATTAAGCCC	0.408													12	291					0	0	0.003163	0	0		A	135961537	A	A	135961537	3	1	19	1	0	0	0	0	1	0	0	0	13176	1145	40	1	1212	1	RBMX	23	135961537	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	170670	135961537	19309023	3196	16709											
ZIC3	7547	broad.mit.edu	37	chrX	136652218	136652218	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcctaattttaacgaaTggtacgtctgaggacaaaca	13	12	7	9	2	1	1	0	1	1	0	3	3	3	2	2	2	3	1	2	2	5	5			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:136652218T>C	uc004fak.2	+	3	1898	c.1393T>C	c.(1393-1395)TGG>CGG	p.W465R		NM_003413	NP_003404	O60481	ZIC3_HUMAN	zinc finger protein of the cerebellum 3	465					cell differentiation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					TTTTAACGAATGGTACGTCTG	0.388													16	311					0	0	0.008871	0	0		C	136652218	C	C	136652218	3	2	19	1	0	0	0	0	1	0	0	0	17705	1464	51	3	1403	3	ZIC3	23	136652218	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	690681	136652218	18618342	3197	16710											
FGF13	2258	broad.mit.edu	37	chrX	138286367	138286367	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcggcaagtctcgaccaCgagctcccctcggtgtggtt	6	8	14	13	4	1	0	0	0	1	0	4	2	2	0	3	4	1	3	3	4	1	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:138286367C>T	uc004faq.2	-	1	79	c.-97G>A	c.(-99--95)TCGTG>TCATG		FGF13_uc004far.2_Translation_Start_Site|FGF13_uc011mwj.1_Translation_Start_Site|FGF13_uc011mwk.1_Translation_Start_Site	NM_001139502	NP_001132974	Q92913	FGF13_HUMAN	fibroblast growth factor 13 isoform 3						cell-cell signaling|MAPKKK cascade|nervous system development	cytoplasm|nucleus	growth factor activity|protein kinase activator activity			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GTCTCGACCACGAGCTCCCCT	0.637													4	16					0	0	0.000602	0	0		T	138286367	T	T	138286367	1	4	19	1	0	0	0	0	0	0	0	0	5856	551	19	1		1	FGF13	23	138286367	Translation_Start_Site	SNP	C	TCGA-BR-4361-01A-01D-1158-08	1634149	138286367	16984193	3198	16711											
PASD1	139135	broad.mit.edu	37	chrX	150842541	150842541	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagcaccctggagaccccAcaggattacatccggctttg	11	8	9	13	1	0	1	0	0	0	1	1	3	1	2	4	3	2	2	4	3	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:150842541A>G	uc004fev.3	+	15	2390	c.2058A>G	c.(2056-2058)CCA>CCG	p.P686P		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	686						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TGGAGACCCCACAGGATTACA	0.502													6	227					0	0	0.00308	0	0		G	150842541	G	G	150842541	2	3	19	1	0	0	0	0	0	0	0	1	11490	146	6	3		3	PASD1	23	150842541	Silent	SNP	A	TCGA-BR-4361-01A-01D-1158-08	12556174	150842541	4428019	3199	16712											
DUSP9	1852	broad.mit.edu	37	chrX	152914972	152914972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggcagtgcccgggattccgCcaatttggagagcctggcca	7	7	15	12	2	0	1	0	0	0	1	1	3	1	2	5	4	2	1	5	4	1	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:152914972C>T	uc004fhx.3	+	3	863	c.659C>T	c.(658-660)GCC>GTC	p.A220V	DUSP9_uc004fhy.3_Missense_Mutation_p.A220V	NM_001395	NP_001386	Q99956	DUS9_HUMAN	dual specificity phosphatase 9	220	Tyrosine-protein phosphatase.				inactivation of MAPK activity|JNK cascade	cytosol|endoplasmic reticulum|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)	2	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CGGGATTCCGCCAATTTGGAG	0.582													46	110					0	0	0.013114	0	0		T	152914972	T	T	152914972	3	4	19	1	0	0	0	0	1	0	0	0	4838	739	26	2	665	2	DUSP9	23	152914972	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	2072431	152914972	2355588	3200	16713											
SLC6A8	6535	broad.mit.edu	37	chrX	152959593	152959593	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggccacagtttgtaggTgtggagggcttcatcaccgg	6	10	14	11	1	2	0	2	0	0	0	2	1	2	1	3	5	0	3	3	5	1	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:152959593T>C	uc004fib.3	+	9	1541	c.1263T>C	c.(1261-1263)GGT>GGC	p.G421G	SLC6A8_uc004fic.3_Silent_p.G411G|SLC6A8_uc011myx.1_Silent_p.G306G|SLC6A8_uc010nuj.2_RNA	NM_005629	NP_005620	P48029	SC6A8_HUMAN	solute carrier family 6 member 8 isoform 1	421	Cytoplasmic (Potential).				creatine metabolic process|muscle contraction	integral to plasma membrane	creatine:sodium symporter activity|neurotransmitter:sodium symporter activity			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Creatine(DB00148)	AGTTTGTAGGTGTGGAGGGCT	0.662													28	49					0	0	0.005443	0	0		C	152959593	C	C	152959593	2	2	19	1	0	0	0	0	0	0	0	1	14715	1683	59	3		3	SLC6A8	23	152959593	Silent	SNP	T	TCGA-BR-4361-01A-01D-1158-08	44621	152959593	2310967	3201	16714											
IDH3G	3421	broad.mit.edu	37	chrX	153052989	153052989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgccagcttgaaggcatactCggcaatgcgcagggacttgg	9	7	14	11	3	0	1	0	1	0	0	1	2	0	2	1	4	3	4	1	4	3	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:153052989C>T	uc004fip.2	-	8	790	c.604G>A	c.(604-606)GAG>AAG	p.E202K	IDH3G_uc004fio.2_Missense_Mutation_p.E144K|IDH3G_uc004fiq.2_Missense_Mutation_p.E202K|IDH3G_uc010num.2_Missense_Mutation_p.E144K|IDH3G_uc004fir.2_Missense_Mutation_p.E144K|IDH3G_uc004fit.1_Missense_Mutation_p.E202K|IDH3G_uc004fis.2_Missense_Mutation_p.E144K|IDH3G_uc004fiu.2_5'UTR	NM_004135	NP_004126	P51553	IDH3G_HUMAN	isocitrate dehydrogenase 3 (NAD+) gamma isoform	202					carbohydrate metabolic process|isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleolus	ATP binding|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	AAGGCATACTCGGCAATGCGC	0.597													17	70					0	0	0.00499	0	0		T	153052989	T	T	153052989	3	4	19	1	0	0	0	0	1	0	0	0	7514	893	31	1	664	1	IDH3G	23	153052989	Missense_Mutation	SNP	C	TCGA-BR-4361-01A-01D-1158-08	93396	153052989	2217571	3202	16715											
HCFC1	3054	broad.mit.edu	37	chrX	153222823	153222823	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggttttgatgatggtggtCgtgccgggcttggtggtact	4	15	17	5	2	0	2	0	2	0	0	1	2	0	2	1	6	2	3	1	6	1	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:153222823C>T	uc004fjp.2	-	13	2823	c.2295G>A	c.(2293-2295)ACG>ACA	p.T765T		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	765	Interaction with ZBTB17.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TGATGGTGGTCGTGCCGGGCT	0.642													105	205					0	0	0.01441	0	0		T	153222823	T	T	153222823	2	4	19	1	0	0	0	0	0	0	0	1	7007	871	31	1		1	HCFC1	23	153222823	Silent	SNP	C	TCGA-BR-4361-01A-01D-1158-08	169834	153222823	2047737	3203	16716											
MECP2	4204	broad.mit.edu	37	chrX	153296142	153296142	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggggtgggagcagtggcacGggggcctttggggactctga	6	7	21	7	1	1	1	0	1	1	0	1	3	1	3	1	8	1	2	1	8	0	1	rs63749020		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:153296142G>A	uc004fjv.2	-	4	1363	c.1137C>T	c.(1135-1137)CCC>CCT	p.P379P	MECP2_uc004fjw.2_Silent_p.P391P	NM_004992	NP_004983	P51608	MECP2_HUMAN	methyl CpG binding protein 2 isoform 1	379	Pro-rich.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	heterochromatin|nucleus	double-stranded methylated DNA binding|protein domain specific binding|protein N-terminus binding|transcription corepressor activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCAGTGGCACGGGGGCCTTTG	0.692													5	42					0	0	0.001984	0	0		A	153296142	A	A	153296142	2	1	19	1	0	0	0	0	0	0	0	1	9441	1103	39	1		1	MECP2	23	153296142	Silent	SNP	G	TCGA-BR-4361-01A-01D-1158-08	73319	153296142	1974418	3204	16717											
OPN1LW	5956	broad.mit.edu	37	chrX	153416152	153416152	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgaaggcccgaattaccAcatcgctcccagatgggtgt	9	9	10	13	3	0	1	0	0	0	1	3	3	1	1	3	2	1	1	3	2	3	2			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:153416152A>G	uc004fjz.3	+	2	170	c.137A>G	c.(136-138)CAC>CGC	p.H46R		NM_020061	NP_064445	P04000	OPSR_HUMAN	opsin 1 (cone pigments), long-wave-sensitive	46	Extracellular.				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0	all_cancers(53;1.83e-16)|all_epithelial(53;2.73e-10)|all_lung(58;6.39e-07)|Lung NSC(58;8.37e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCGAATTACCACATCGCTCCC	0.592													28	137					0	0	0.00874	0	0		G	153416152	G	G	153416152	3	3	19	1	0	0	0	0	1	0	0	0	10896	159	6	3	143	3	OPN1LW	23	153416152	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	120010	153416152	1854408	3205	16718											
OPN1LW	5956	broad.mit.edu	37	chrX	153416196	153416196	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcaccagtgtctggatgAtctttgtggtcactgcatcc	7	13	9	12	0	4	1	2	1	2	0	5	2	5	2	3	2	1	1	3	2	0	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:153416196A>G	uc004fjz.3	+	2	214	c.181A>G	c.(181-183)ATC>GTC	p.I61V		NM_020061	NP_064445	P04000	OPSR_HUMAN	opsin 1 (cone pigments), long-wave-sensitive	61	Helical; Name=1; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0	all_cancers(53;1.83e-16)|all_epithelial(53;2.73e-10)|all_lung(58;6.39e-07)|Lung NSC(58;8.37e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGTCTGGATGATCTTTGTGGT	0.577													38	198					0	0	0.01441	0	0		G	153416196	G	G	153416196	3	3	19	1	0	0	0	0	1	0	0	0	10896	333	12	3	187	3	OPN1LW	23	153416196	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	44	153416196	1854364	3206	16719											
OPN1LW	5956	broad.mit.edu	37	chrX	153416331	153416331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctagcagagaccgtcatcGccagcactatcagcattgtg	11	8	9	13	2	2	1	2	0	0	1	3	2	2	1	3	0	3	3	3	0	2	3			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:153416331G>A	uc004fjz.3	+	2	349	c.316G>A	c.(316-318)GCC>ACC	p.A106T		NM_020061	NP_064445	P04000	OPSR_HUMAN	opsin 1 (cone pigments), long-wave-sensitive	106	Helical; Name=2; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0	all_cancers(53;1.83e-16)|all_epithelial(53;2.73e-10)|all_lung(58;6.39e-07)|Lung NSC(58;8.37e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GACCGTCATCGCCAGCACTAT	0.597													21	246					0	0	0.00278	0	0		A	153416331	A	A	153416331	3	1	19	1	0	0	0	0	1	0	0	0	10896	1087	38	1	322	1	OPN1LW	23	153416331	Missense_Mutation	SNP	G	TCGA-BR-4361-01A-01D-1158-08	135	153416331	1854229	3207	16720											
RPL10	6134	broad.mit.edu	37	chrX	153628915	153628915	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctgcagaacaaggagcAtgtgattgaggccctgcgca	12	6	13	10	1	0	3	0	2	0	1	0	4	0	4	1	2	5	4	1	2	3	1			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:153628915A>G	uc004fkm.2	+	6	628	c.440A>G	c.(439-441)CAT>CGT	p.H147R	uc010nuv.1_5'Flank|RPL10_uc004fko.2_Intron|RPL10_uc004fkn.1_Missense_Mutation_p.H147R|RPL10_uc004fkp.1_3'UTR|RPL10_uc004fkq.1_Intron|RPL10_uc004fkr.1_Missense_Mutation_p.H72R	NM_006013	NP_006004	P27635	RL10_HUMAN	ribosomal protein L10	147					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|endoplasmic reticulum	structural constituent of ribosome				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AACAAGGAGCATGTGATTGAG	0.592													47	97					0	0	0.01441	0	0		G	153628915	G	G	153628915	3	3	19	1	0	0	0	0	1	0	0	0	13579	217	8	3	458	3	RPL10	23	153628915	Missense_Mutation	SNP	A	TCGA-BR-4361-01A-01D-1158-08	212584	153628915	1641645	3208	16721											
MTCP1	4515	broad.mit.edu	37	chrX	154293909	154293909	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtaccattaaatgatgctgTatctgccacaagcgagagtt	12	12	9	8	1	1	2	0	1	1	1	1	3	1	2	2	0	4	4	2	0	5	4			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chrX:154293909T>C	uc004fmz.2	-	3	887	c.261A>G	c.(259-261)ATA>ATG	p.I87M	MTCP1NB_uc004fmy.2_Intron	NM_001018025	NP_001018025	P56278	MTCP1_HUMAN	mature T-cell proliferation 1	87					cell proliferation					lung(1)	1	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					AATGATGCTGTATCTGCCACA	0.448			T	TRA@	T cell prolymphocytic leukemia								4	132					0	0	0.009096	0	0		C	154293909	C	C	154293909	3	2	19	1	0	0	0	0	1	0	0	0	9933	1628	57	3	70	3	MTCP1	23	154293909	Missense_Mutation	SNP	T	TCGA-BR-4361-01A-01D-1158-08	664994	154293909	976651	3209	16722											
NOC2L	26155	broad.mit.edu	37	chr1	889451	889451	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagagcgggctgctggacGgctgcagcatcctgcagaga	8	5	15	13	2	0	2	0	0	0	2	1	4	1	3	2	3	5	6	2	3	0	0	rs150111944	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:889451G>A	uc001abz.3	-	7	769	c.710C>T	c.(709-711)CCG>CTG	p.P237L	NOC2L_uc001aby.3_Missense_Mutation_p.P34L|NOC2L_uc009vjq.2_Missense_Mutation_p.P237L	NM_015658	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog	237						nucleolus	protein binding			ovary(1)|skin(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.86e-38)|OV - Ovarian serous cystadenocarcinoma(86;6.08e-23)|Colorectal(212;0.000161)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(365;0.000475)|Kidney(185;0.00231)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		GCTGCTGGACGGCTGCAGCAT	0.677													25	69					0	0	0.005443	0	0		A	889451	A	A	889451	3	1	20	1	0	0	0	0	1	0	0	0	10532	1116	39	1	1591	1	NOC2L	1	889451	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08		889451	248361170	1	16723											
CPSF3L	54973	broad.mit.edu	37	chr1	1250901	1250901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagcccttccactgaccGtgtagaccacagactctgag	10	8	8	15	1	2	4	1	2	1	2	3	4	3	4	4	0	1	1	4	0	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:1250901G>A	uc001aee.1	-	5	585	c.527C>T	c.(526-528)ACG>ATG	p.T176M	CPSF3L_uc009vjy.1_RNA|CPSF3L_uc001aef.1_Missense_Mutation_p.T182M|CPSF3L_uc009vjz.1_Missense_Mutation_p.T154M|CPSF3L_uc010nyj.1_Missense_Mutation_p.T147M|CPSF3L_uc001aeg.1_Missense_Mutation_p.T52M|CPSF3L_uc001aeh.1_Missense_Mutation_p.T75M|CPSF3L_uc001aei.1_Missense_Mutation_p.T78M|CPSF3L_uc001aej.1_Intron|CPSF3L_uc001aek.1_Translation_Start_Site	NM_017871	NP_060341	Q5TA45	INT11_HUMAN	cleavage and polyadenylation specific factor	176						Golgi apparatus|nucleus	hydrolase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(86;4.35e-21)|Colorectal(212;0.000166)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.00235)|BRCA - Breast invasive adenocarcinoma(365;0.00255)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0349)|Lung(427;0.201)		TCCACTGACCGTGTAGACCAC	0.567													6	56					0	0	0.001168	0	0		A	1250901	A	A	1250901	3	1	20	1	0	0	0	0	1	0	0	0	3830	1159	40	1	1327	1	CPSF3L	1	1250901	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	361450	1250901	247999720	2	16724											
TAS1R3	83756	broad.mit.edu	37	chr1	1269811	1269811	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcccaaggccagaatgaCgggaacacaggaaatcaggg	15	3	14	9	1	1	2	1	1	0	1	1	5	1	4	2	4	2	0	2	4	4	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:1269811C>T	uc010nyk.1	+	6	2526	c.2526C>T	c.(2524-2526)GAC>GAT	p.D842D		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	842	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)	Aspartame(DB00168)	GCCAGAATGACGGGAACACAG	0.612													3	6					0	0	0.000602	0	0		T	1269811	T	T	1269811	2	4	20	1	0	0	0	0	0	0	0	1	15589	535	19	1		1	TAS1R3	1	1269811	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	18910	1269811	247980810	3	16725											
PLCH2	9651	broad.mit.edu	37	chr1	2411332	2411332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccagcagcgaggtggcgcGcacctgggtcactggcctgc	6	5	15	15	3	1	0	1	0	0	0	1	1	1	0	3	4	3	2	3	4	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:2411332G>A	uc001aji.1	+	3	705	c.431G>A	c.(430-432)CGC>CAC	p.R144H	PLCH2_uc010nyz.1_5'Flank|PLCH2_uc009vle.1_5'Flank|PLCH2_uc001ajj.1_5'Flank|PLCH2_uc001ajk.1_5'Flank	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	144	PH.|Necessary for plasma membrane localization (By similarity).				intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		GAGGTGGCGCGCACCTGGGTC	0.667													6	14					0	0	0.001984	0	0		A	2411332	A	A	2411332	3	1	20	1	0	0	0	0	1	0	0	0	12057	1087	38	1	441	1	PLCH2	1	2411332	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1141521	2411332	246839289	4	16726											
PRDM16	63976	broad.mit.edu	37	chr1	3347517	3347517	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggacgtggaggaggaggaCgacgatgacctggaggagga	12	3	21	5	3	0	1	0	1	0	0	0	12	0	9	1	8	0	0	1	8	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:3347517C>T	uc001akf.2	+	15	3446	c.3366C>T	c.(3364-3366)GAC>GAT	p.D1122D	PRDM16_uc001akc.2_Silent_p.D1121D|PRDM16_uc001akd.2_Silent_p.D1121D|PRDM16_uc001ake.2_Silent_p.D1122D|PRDM16_uc009vlh.2_Silent_p.D822D	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	1122	Mediates interaction with SKI and regulation of TGF-beta signaling.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		aggaggaggacgacgatgacc	0.468			T	EVI1	MDS|AML								12	17					0	0	0.00245	0	0		T	3347517	T	T	3347517	2	4	20	1	0	0	0	0	0	0	0	1	12479	535	19	1		1	PRDM16	1	3347517	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	936185	3347517	245903104	5	16727											
CHD5	26038	broad.mit.edu	37	chr1	6215763	6215763	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcggccatgagctgcccCgaggacttgggctcctacag	7	7	12	15	2	0	1	0	1	0	0	2	3	1	2	4	3	3	2	4	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:6215763C>T	uc001amb.1	-	4	502	c.402G>A	c.(400-402)TCG>TCA	p.S134S		NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	134					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		TGAGCTGCCCCGAGGACTTGG	0.612													8	42					0	0	0.004482	0	0		T	6215763	T	T	6215763	2	4	20	1	0	0	0	0	0	0	0	1	3331	639	23	1		1	CHD5	1	6215763	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2868246	6215763	243034858	6	16728											
DNAJC11	55735	broad.mit.edu	37	chr1	6698426	6698426	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctctgcttctccaattcccTtacgcgagaggaacacaagc	10	9	7	15	2	2	1	0	0	2	1	4	3	3	2	3	1	4	1	3	1	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:6698426T>C	uc001aof.2	-	12	1360	c.1254_splice	c.e12-1	p.K418_splice	DNAJC11_uc010nzt.1_Intron|DNAJC11_uc001aog.2_Splice_Site_p.K366_splice|DNAJC11_uc010nzu.1_Splice_Site_p.K328_splice	NM_018198	NP_060668	Q9NVH1	DJC11_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 11						protein folding		heat shock protein binding|unfolded protein binding			ovary(1)|skin(1)	2	Ovarian(185;0.0265)|all_lung(157;0.154)	all_cancers(23;1.97e-27)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;2.34e-07)|COAD - Colon adenocarcinoma(227;2.05e-05)|Kidney(185;7.67e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000639)|KIRC - Kidney renal clear cell carcinoma(229;0.00128)|STAD - Stomach adenocarcinoma(132;0.00179)|READ - Rectum adenocarcinoma(331;0.0649)		TCCAATTCCCTTACGCGAGAG	0.632													6	47					0	0	0.001984	0	0		C	6698426	C	C	6698426	5	2	20	1	0	0	0	0	0	0	1	0	4636	1623	56	3	447	3	DNAJC11	1	6698426	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	482663	6698426	242552195	7	16729											
CAMTA1	23261	broad.mit.edu	37	chr1	7797375	7797375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgtacaagtgggaccgtCgggccatctcgattcccgac	7	9	12	13	4	1	0	0	0	1	0	4	3	2	1	3	2	2	2	3	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:7797375C>T	uc001aoi.2	+	15	3610	c.3403C>T	c.(3403-3405)CGG>TGG	p.R1135W	CAMTA1_uc010nzv.1_Missense_Mutation_p.R222W|CAMTA1_uc001aok.3_Missense_Mutation_p.R178W|CAMTA1_uc001aoj.2_Missense_Mutation_p.R91W	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		GTGGGACCGTCGGGCCATCTC	0.567													42	103					0	0	0.013114	0	0		T	7797375	T	T	7797375	3	4	20	1	0	0	0	0	1	0	0	0	2616	875	31	1	3461	1	CAMTA1	1	7797375	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1098949	7797375	241453246	8	16730											
PIK3CD	5293	broad.mit.edu	37	chr1	9778917	9778917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctgctttgcgctgtacGccgtgatcgagaaagccaag	8	10	12	11	4	1	2	0	1	1	1	3	3	1	2	2	0	4	3	2	0	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:9778917G>A	uc001aqb.3	+	9	1394	c.1186G>A	c.(1186-1188)GCC>ACC	p.A396T	PIK3CD_uc010oaf.1_Missense_Mutation_p.A396T|PIK3CD_uc001aqe.3_Missense_Mutation_p.A361T	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	396					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		TGCGCTGTACGCCGTGATCGA	0.647													15	54					0	0	0.004007	0	0		A	9778917	A	A	9778917	3	1	20	1	0	0	0	0	1	0	0	0	11934	1087	38	1	1212	1	PIK3CD	1	9778917	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1981542	9778917	239471704	9	16731											
MTOR	2475	broad.mit.edu	37	chr1	11300580	11300580	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatctgacggctcaggtcGtagagcactgcagtgagggc	9	7	16	9	2	2	3	1	2	1	1	3	4	2	4	0	4	2	4	0	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:11300580G>A	uc001asd.2	-	11	1687	c.1566C>T	c.(1564-1566)TAC>TAT	p.Y522Y		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	522					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GGCTCAGGTCGTAGAGCACTG	0.522													29	103					0	0	0.010818	0	0		A	11300580	A	A	11300580	2	1	20	1	0	0	0	0	0	0	0	1	9972	1140	40	1		1	MTOR	1	11300580	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1521663	11300580	237950041	10	16732											
TNFRSF1B	7133	broad.mit.edu	37	chr1	12251952	12251952	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcgcgccgctgcgcaagtgCcgcccgggcttcggcgtggc	2	6	17	16	8	0	0	0	0	0	0	1	0	0	0	3	3	3	3	3	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:12251952C>T	uc001att.2	+	4	518	c.429C>T	c.(427-429)TGC>TGT	p.C143C	TNFRSF1B_uc001atu.2_5'UTR|TNFRSF1B_uc009vnk.2_RNA	NM_001066	NP_001057	P20333	TNR1B_HUMAN	tumor necrosis factor receptor 2 precursor	143	TNFR-Cys 3.|Extracellular (Potential).				apoptosis	extracellular region|integral to membrane|membrane raft|plasma membrane	tumor necrosis factor receptor activity			liver(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.72e-05)|all_lung(284;9.92e-05)|Renal(390;0.000147)|Colorectal(325;0.000584)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;5.52e-07)|COAD - Colon adenocarcinoma(227;0.000345)|BRCA - Breast invasive adenocarcinoma(304;0.000353)|Kidney(185;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00302)|STAD - Stomach adenocarcinoma(313;0.00815)|READ - Rectum adenocarcinoma(331;0.0284)	Etanercept(DB00005)|Infliximab(DB00065)	TGCGCAAGTGCCGCCCGGGCT	0.687													9	32					0	0	0.008291	0	0		T	12251952	T	T	12251952	2	4	20	1	0	0	0	0	0	0	0	1	16319	747	26	2		2	TNFRSF1B	1	12251952	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	951372	12251952	236998669	11	16733											
TNFRSF1B	7133	broad.mit.edu	37	chr1	12262065	12262065	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggggtacacagggcccCgagcagcagcacctgctgat	8	4	14	15	2	0	1	0	1	0	0	0	2	0	1	4	3	5	5	4	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:12262065C>T	uc001att.2	+	9	1031	c.942C>T	c.(940-942)CCC>CCT	p.P314P	TNFRSF1B_uc001atu.2_Silent_p.P119P|TNFRSF1B_uc009vnk.2_RNA	NM_001066	NP_001057	P20333	TNR1B_HUMAN	tumor necrosis factor receptor 2 precursor	314	Cytoplasmic (Potential).				apoptosis	extracellular region|integral to membrane|membrane raft|plasma membrane	tumor necrosis factor receptor activity			liver(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.72e-05)|all_lung(284;9.92e-05)|Renal(390;0.000147)|Colorectal(325;0.000584)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;5.52e-07)|COAD - Colon adenocarcinoma(227;0.000345)|BRCA - Breast invasive adenocarcinoma(304;0.000353)|Kidney(185;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00302)|STAD - Stomach adenocarcinoma(313;0.00815)|READ - Rectum adenocarcinoma(331;0.0284)	Etanercept(DB00005)|Infliximab(DB00065)	CACAGGGCCCCGAGCAGCAGC	0.667													4	18					0	0	0.001168	0	0		T	12262065	T	T	12262065	2	4	20	1	0	0	0	0	0	0	0	1	16319	639	23	1		1	TNFRSF1B	1	12262065	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	10113	12262065	236988556	12	16734											
VPS13D	55187	broad.mit.edu	37	chr1	12416561	12416561	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcttattctgctatgcTgacaaagagcagccaaacct	11	11	6	13	0	2	2	0	1	2	1	3	2	2	2	3	0	5	3	3	0	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:12416561T>C	uc001atv.2	+	49	10119	c.9978T>C	c.(9976-9978)GCT>GCC	p.A3326A	VPS13D_uc001atw.2_Silent_p.A3301A|VPS13D_uc001atx.2_Silent_p.A2513A	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3325					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TCTGCTATGCTGACAAAGAGC	0.473													22	56					0	0	0.004656	0	0		C	12416561	C	C	12416561	2	2	20	1	0	0	0	0	0	0	0	1	17218	1567	55	3		3	VPS13D	1	12416561	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	154496	12416561	236834060	13	16735											
LOC649330	649330	broad.mit.edu	37	chr1	12907413	12907413	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctcagcagagtcttctgCacccccctcagactccatct	7	10	5	19	0	5	2	2	0	3	2	7	2	7	2	5	0	2	2	5	0	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:12907413C>A	uc009vno.2	-	1	825	c.730G>T	c.(730-732)GCA>TCA	p.A244S	HNRNPCL1_uc010obf.1_Missense_Mutation_p.A244S	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	244							nucleic acid binding|nucleotide binding				0						GAGTCTTCTGCACCCCCCTCA	0.488													52	161					2.01807e-28	2.1737e-28	0.01441	1	0		A	12907413	A	A	12907413	3	1	20	1	0	0	0	0	1	0	0	0	8903	710	25	5	155	5	LOC649330	1	12907413	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	490852	12907413	236343208	14	16736											
LOC649330	649330	broad.mit.edu	37	chr1	12907705	12907705	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggtgtttcctgatagacgTtgacgtttcgagggcactac	8	12	13	8	3	0	3	0	2	0	1	2	5	1	3	1	2	1	4	1	2	2	5	rs2359482	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:12907705T>G	uc009vno.2	-	1	533	c.438A>C	c.(436-438)CAA>CAC	p.Q146H	HNRNPCL1_uc010obf.1_Missense_Mutation_p.Q146H	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	146							nucleic acid binding|nucleotide binding				0						CTGATAGACGTTGACGTTTCG	0.488													5	231					0	0	0.001168	0	0		G	12907705	G	G	12907705	3	3	20	1	0	0	0	0	1	0	0	0	8903	1722	60	5	447	5	LOC649330	1	12907705	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	292	12907705	236342916	15	16737											
LOC649330	649330	broad.mit.edu	37	chr1	12907787	12907787	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactgtacattccatcataaTaatcccgttgaaagccatag	15	11	5	10	1	1	1	1	1	0	0	3	1	3	1	3	0	3	2	3	0	6	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:12907787T>C	uc009vno.2	-	1	451	c.356A>G	c.(355-357)TAT>TGT	p.Y119C	HNRNPCL1_uc010obf.1_Missense_Mutation_p.Y119C	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	119							nucleic acid binding|nucleotide binding				0						TCCATCATAATAATCCCGTTG	0.507													4	124					0	0	0.000602	0	0		C	12907787	C	C	12907787	3	2	20	1	0	0	0	0	1	0	0	0	8903	1406	49	3	529	3	LOC649330	1	12907787	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	82	12907787	236342834	16	16738											
PRAMEF22	653606	broad.mit.edu	37	chr1	13036638	13036638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagccagatgaggaatcttcGcaaactcttcatctccgatg	11	10	9	11	2	4	2	1	1	3	1	6	5	4	3	2	1	2	1	2	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:13036638G>A	uc009vnq.1	+	2	710	c.710G>A	c.(709-711)CGC>CAC	p.R237H	PRAMEF5_uc001aur.2_Intron	NM_001100631	NP_001094101	A3QJZ6	PRA22_HUMAN	PRAME family member 22	237											0						AGGAATCTTCGCAAACTCTTC	0.478													39	204					0	0	0.009718	0	0		A	13036638	A	A	13036638	3	1	20	1	0	0	0	0	1	0	0	0	12458	1087	38	1	716	1	PRAMEF22	1	13036638	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	128851	13036638	236213983	17	16739											
SPEN	23013	broad.mit.edu	37	chr1	16256980	16256980	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggacagagaagacaagctAcgtgagcgagatgaaagact	17	4	14	6	2	0	6	0	2	0	4	0	9	0	7	0	1	3	1	0	1	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:16256980A>G	uc001axk.1	+	11	4449	c.4245A>G	c.(4243-4245)CTA>CTG	p.L1415L	SPEN_uc010obp.1_Silent_p.L1374L	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1415	Potential.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AAGACAAGCTACGTGAGCGAG	0.403													9	123					0	0	0.006214	0	0		G	16256980	G	G	16256980	2	3	20	1	0	0	0	0	0	0	0	1	15063	378	14	3		3	SPEN	1	16256980	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3220342	16256980	232993641	18	16740											
CLCNKB	1188	broad.mit.edu	37	chr1	16380237	16380237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttgtgacctccacagacGtggccaagtatcccctggtg	8	9	12	12	1	0	2	0	1	0	1	2	2	2	2	5	3	0	2	5	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:16380237G>A	uc001axw.3	+	16	1806	c.1726G>A	c.(1726-1728)GTG>ATG	p.V576M	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Missense_Mutation_p.V576M|CLCNKB_uc001axy.3_Missense_Mutation_p.V407M	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1	576	CBS 1.				excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		CTCCACAGACGTGGCCAAGTA	0.597													16	36					0	0	0.007413	0	0		A	16380237	A	A	16380237	3	1	20	1	0	0	0	0	1	0	0	0	3473	1145	40	1	1932	1	CLCNKB	1	16380237	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	123257	16380237	232870384	19	16741											
C1orf89	79363	broad.mit.edu	37	chr1	16560163	16560163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagcttggccaccagcGccgtcttgcccacaccactc	7	6	8	20	2	1	0	0	0	1	0	2	0	1	0	6	1	4	1	6	1	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:16560163G>A	uc001ayd.2	-	2	631	c.209C>T	c.(208-210)GCG>GTG	p.A70V		NM_030907	NP_112169	Q9BU20	RSG1_HUMAN	hypothetical protein LOC79363	70	Small GTPase-like.				cellular protein localization|cilium assembly|exocytosis|protein transport|regulation of exocytosis|regulation of vesicle fusion|small GTPase mediated signal transduction	cilium|microtubule basal body	GTP binding				0		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;3.2e-07)|COAD - Colon adenocarcinoma(227;2.07e-05)|BRCA - Breast invasive adenocarcinoma(304;9.12e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.0114)|READ - Rectum adenocarcinoma(331;0.0649)		GGCCACCAGCGCCGTCTTGCC	0.632													32	90					0	0	0.01441	0	0		A	16560163	A	A	16560163	3	1	20	1	0	0	0	0	1	0	0	0	2069	1087	38	1	583	1	C1orf89	1	16560163	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	179926	16560163	232690458	20	16742											
UBR4	23352	broad.mit.edu	37	chr1	19443800	19443800	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	catcttggtccgtttcagatCcccgattttcactgtcactt	6	16	6	13	2	4	1	3	0	1	1	6	2	6	1	3	1	0	1	3	1	0	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:19443800C>G	uc001bbi.2	-	73	10742	c.10738G>C	c.(10738-10740)GAT>CAT	p.D3580H	UBR4_uc001bbj.1_5'UTR	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3580					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CGTTTCAGATCCCCGATTTTC	0.498													5	205					0	0	0.001168	0	0		G	19443800	G	G	19443800	3	3	20	1	0	0	0	0	1	0	0	0	16930	855	30	5	4949	5	UBR4	1	19443800	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2883637	19443800	229806821	21	16743											
UBR4	23352	broad.mit.edu	37	chr1	19473420	19473420	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcactagcctctggaacacCtcagggtccaaatccttgcc	10	9	7	15	0	3	0	2	0	1	0	5	1	5	1	5	2	3	0	5	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:19473420C>A	uc001bbi.2	-	52	7708	c.7704G>T	c.(7702-7704)GAG>GAT	p.E2568D	UBR4_uc001bbk.1_Missense_Mutation_p.E222D	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2568					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TCTGGAACACCTCAGGGTCCA	0.527													59	232					2.23852e-25	2.4087e-25	0.01441	1	0		A	19473420	A	A	19473420	3	1	20	1	0	0	0	0	1	0	0	0	16930	680	24	5	8067	5	UBR4	1	19473420	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	29620	19473420	229777201	22	16744											
AKR7A3	22977	broad.mit.edu	37	chr1	19610525	19610525	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtacatccaccggagggTggccgaggtcatgctggggg	6	7	19	9	2	1	0	1	0	0	0	2	2	2	1	3	7	2	2	3	7	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:19610525T>C	uc001bbv.1	-	6	876	c.799A>G	c.(799-801)ACC>GCC	p.T267A		NM_012067	NP_036199	O95154	ARK73_HUMAN	aldo-keto reductase family 7, member A3	267					cellular aldehyde metabolic process	cytosol	aldo-keto reductase (NADP) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;1.78e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|GBM - Glioblastoma multiforme(114;0.00276)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CACCGGAGGGTGGCCGAGGTC	0.607													9	61					0	0	0.013537	0	0		C	19610525	C	C	19610525	3	2	20	1	0	0	0	0	1	0	0	0	476	1696	59	3	204	3	AKR7A3	1	19610525	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	137105	19610525	229640096	23	16745											
AKR7A3	22977	broad.mit.edu	37	chr1	19610544	19610544	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtggccgaggtcatgctgggGgcgctggcgccatacgcggc	4	6	19	12	5	1	0	1	0	0	0	1	1	1	0	2	6	2	2	2	6	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:19610544G>A	uc001bbv.1	-	6	857	c.780C>T	c.(778-780)GCC>GCT	p.A260A		NM_012067	NP_036199	O95154	ARK73_HUMAN	aldo-keto reductase family 7, member A3	260					cellular aldehyde metabolic process	cytosol	aldo-keto reductase (NADP) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;1.78e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|GBM - Glioblastoma multiforme(114;0.00276)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		TCATGCTGGGGGCGCTGGCGC	0.647													17	70					0	0	0.007413	0	0		A	19610544	A	A	19610544	2	1	20	1	0	0	0	0	0	0	0	1	476	1219	43	4		4	AKR7A3	1	19610544	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	19	19610544	229640077	24	16746											
AKR7A3	22977	broad.mit.edu	37	chr1	19611526	19611526	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtaccagccagagggttgAaggcatagaacctcagtcca	13	6	11	11	1	1	3	1	1	0	2	2	3	2	3	4	2	3	3	4	2	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:19611526A>T	uc001bbv.1	-	4	667	c.590T>A	c.(589-591)TTC>TAC	p.F197Y		NM_012067	NP_036199	O95154	ARK73_HUMAN	aldo-keto reductase family 7, member A3	197					cellular aldehyde metabolic process	cytosol	aldo-keto reductase (NADP) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;1.78e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|GBM - Glioblastoma multiforme(114;0.00276)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CAGAGGGTTGAAGGCATAGAA	0.597													5	145					0	0	0.000602	0	0		T	19611526	T	T	19611526	3	4	20	1	0	0	0	0	1	0	0	0	476	246	9	5	421	5	AKR7A3	1	19611526	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	982	19611526	229639095	25	16747											
TMCO4	255104	broad.mit.edu	37	chr1	20097887	20097887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctccttcacctcccaggcCgctcgcaaaagcagtcatgg	8	8	9	16	2	2	0	2	0	0	0	5	0	4	0	4	2	2	4	4	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:20097887C>T	uc001bcn.2	-	5	510	c.268G>A	c.(268-270)GGC>AGC	p.G90S	TMCO4_uc001bcm.2_Missense_Mutation_p.G90S|TMCO4_uc001bco.1_Missense_Mutation_p.G90S|TMCO4_uc001bcp.1_Missense_Mutation_p.G90S|TMCO4_uc009vpn.1_Missense_Mutation_p.G90S|TMCO4_uc001bcq.1_Missense_Mutation_p.G90S	NM_181719	NP_859070	Q5TGY1	TMCO4_HUMAN	transmembrane and coiled-coil domains 4	90						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00708)|COAD - Colon adenocarcinoma(152;2.28e-05)|BRCA - Breast invasive adenocarcinoma(304;5.8e-05)|Kidney(64;0.000367)|GBM - Glioblastoma multiforme(114;0.000377)|KIRC - Kidney renal clear cell carcinoma(64;0.00459)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0862)|Lung(427;0.223)		CCTCCCAGGCCGCTCGCAAAA	0.537													12	72					0	0	0.010729	0	0		T	20097887	T	T	20097887	3	4	20	1	0	0	0	0	1	0	0	0	16023	652	23	1	1684	1	TMCO4	1	20097887	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	486361	20097887	229152734	26	16748											
PINK1	65018	broad.mit.edu	37	chr1	20971112	20971112	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgatgtgctgccctcacgCctccaccctgaaggcctggg	5	8	11	17	1	1	2	1	2	0	0	2	2	2	2	6	2	2	1	6	2	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:20971112C>T	uc001bdm.2	+	4	1000	c.906C>T	c.(904-906)CGC>CGT	p.R302R		NM_032409	NP_115785	Q9BXM7	PINK1_HUMAN	PTEN induced putative kinase 1 precursor	302	Protein kinase.|Cytoplasmic (Potential).				cell death|intracellular protein kinase cascade|mitochondrion degradation|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of release of cytochrome c from mitochondria|regulation of protein complex assembly|regulation of protein ubiquitination|response to stress	cytosol|integral to membrane|mitochondrial outer membrane	ATP binding|C3HC4-type RING finger domain binding|calcium-dependent protein kinase activity|magnesium ion binding|protein serine/threonine kinase activity|ubiquitin protein ligase binding			ovary(2)|central_nervous_system(1)	3		all_lung(284;2.72e-05)|Lung NSC(340;2.94e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.21e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000146)|Kidney(64;0.000182)|GBM - Glioblastoma multiforme(114;0.000497)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TGCCCTCACGCCTCCACCCTG	0.637													30	95					0	0	0.013726	0	0		T	20971112	T	T	20971112	2	4	20	1	0	0	0	0	0	0	0	1	11951	726	26	2		2	PINK1	1	20971112	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	873225	20971112	228279509	27	16749											
HSPG2	3339	broad.mit.edu	37	chr1	22191363	22191363	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagaccgatgtagcctggCgggcagcggcactcctccac	8	5	13	15	3	0	1	0	0	0	1	2	3	2	1	4	3	2	3	4	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:22191363C>T	uc001bfj.2	-	36	4639	c.4599G>A	c.(4597-4599)CCG>CCA	p.P1533P	HSPG2_uc009vqd.2_Silent_p.P1534P	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	1533	Laminin EGF-like 9; second part.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TGTAGCCTGGCGGGCAGCGGC	0.687													5	17					0	0	0.000602	0	0		T	22191363	T	T	22191363	2	4	20	1	0	0	0	0	0	0	0	1	7446	755	27	1		1	HSPG2	1	22191363	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1220251	22191363	227059258	28	16750											
CNKSR1	10256	broad.mit.edu	37	chr1	26515141	26515141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggagacacatcacctgcagCcacccccacacagcgcagcc	11	3	8	19	1	1	1	1	0	0	1	1	2	1	1	5	1	4	2	5	1	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:26515141C>T	uc001bln.3	+	19	1722	c.1664C>T	c.(1663-1665)GCC>GTC	p.A555V	CNKSR1_uc001blm.3_Missense_Mutation_p.A548V|CNKSR1_uc009vsd.2_Missense_Mutation_p.A290V|CNKSR1_uc009vse.2_Missense_Mutation_p.A290V|CNKSR1_uc001blo.2_Missense_Mutation_p.A290V|CATSPER4_uc010oey.1_5'Flank|CATSPER4_uc010oez.1_5'Flank|CATSPER4_uc009vsf.2_5'Flank	NM_006314	NP_006305	Q969H4	CNKR1_HUMAN	connector enhancer of kinase suppressor of Ras	555					Rho protein signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cell cortex|cell-cell junction	protein binding, bridging			lung(1)|kidney(1)	2		Colorectal(325;3.46e-05)|all_lung(284;0.000116)|Lung NSC(340;0.000154)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.72e-26)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|BRCA - Breast invasive adenocarcinoma(304;0.000959)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00823)|READ - Rectum adenocarcinoma(331;0.0649)		TCACCTGCAGCCACCCCCACA	0.652													15	33					0	0	0.00499	0	0		T	26515141	T	T	26515141	3	4	20	1	0	0	0	0	1	0	0	0	3609	739	26	2	1717	2	CNKSR1	1	26515141	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4323778	26515141	222735480	29	16751											
ZNF683	257101	broad.mit.edu	37	chr1	26691467	26691467	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtatccagggtagaaggcGtggaggagaaatgggagctc	11	6	19	5	1	0	2	0	0	0	2	2	5	1	4	1	6	1	3	1	6	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:26691467G>A	uc001bmg.1	-	4	688	c.570C>T	c.(568-570)CAC>CAT	p.H190H	ZNF683_uc001bmh.1_Silent_p.H190H|ZNF683_uc009vsj.1_Silent_p.H190H	NM_173574	NP_775845	Q8IZ20	ZN683_HUMAN	zinc finger protein 683	190					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(24;2.39e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.76e-26)|Colorectal(126;1.38e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00793)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.159)|LUSC - Lung squamous cell carcinoma(448;0.233)		GGTAGAAGGCGTGGAGGAGAA	0.612													13	38					0	0	0.001855	0	0		A	26691467	A	A	26691467	2	1	20	1	0	0	0	0	0	0	0	1	18115	1136	40	1		1	ZNF683	1	26691467	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	176326	26691467	222559154	30	16752											
ARID1A	8289	broad.mit.edu	37	chr1	27099053	27099053	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagttccatggcagaaGgaggagacttaaagccacca	14	5	11	11	0	0	2	0	0	0	2	1	4	1	3	4	3	2	3	4	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:27099053G>T	uc001bmv.1	+	13	3842	c.3469G>T	c.(3469-3471)GGA>TGA	p.G1157*	ARID1A_uc001bmt.1_Nonsense_Mutation_p.G1157*|ARID1A_uc001bmu.1_Nonsense_Mutation_p.G1157*|ARID1A_uc001bmw.1_Nonsense_Mutation_p.G774*|ARID1A_uc001bmx.1_Nonsense_Mutation_p.G4*|ARID1A_uc009vsm.1_5'Flank|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1157					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CATGGCAGAAGGAGGAGACTT	0.557			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								25	64					1.17739e-12	1.24405e-12	0.005443	1	0		T	27099053	T	T	27099053	4	4	20	1	0	0	0	0	0	1	0	0	913	1001	35	5	3519	5	ARID1A	1	27099053	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	407586	27099053	222151568	31	16753											
ARID1A	8289	broad.mit.edu	37	chr1	27105617	27105617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgacccaggacagagaaCgctactggatcctgggaggt	10	6	16	9	1	0	2	0	1	0	1	1	6	1	5	2	5	2	1	2	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:27105617C>T	uc001bmv.1	+	20	5601	c.5228C>T	c.(5227-5229)ACG>ATG	p.T1743M	ARID1A_uc001bmu.1_Missense_Mutation_p.T1526M|ARID1A_uc001bmx.1_Missense_Mutation_p.T589M|ARID1A_uc009vsm.1_Missense_Mutation_p.T71M|ARID1A_uc009vsn.1_Translation_Start_Site	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1743					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		GGACAGAGAACGCTACTGGAT	0.493			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								65	193					0	0	0.01441	0	0		T	27105617	T	T	27105617	3	4	20	1	0	0	0	0	1	0	0	0	913	536	19	1	5306	1	ARID1A	1	27105617	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6564	27105617	222145004	32	16754											
TMEM222	84065	broad.mit.edu	37	chr1	27660540	27660540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgaggagtacaagcacCgcatggtaggtgggccaggg	9	6	16	10	1	1	1	0	1	1	0	1	2	1	2	3	5	2	4	3	5	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:27660540C>T	uc001bnr.3	+	4	456	c.403C>T	c.(403-405)CGC>TGC	p.R135C	TMEM222_uc001bns.3_RNA|TMEM222_uc001bnt.3_RNA|TMEM222_uc001bnu.3_RNA	NM_032125	NP_115501	Q9H0R3	TM222_HUMAN	transmembrane protein 222	135	Cytoplasmic (Potential).					integral to membrane	protein binding				0						GTACAAGCACCGCATGGTAGG	0.672													11	43					0	0	0.010729	0	0		T	27660540	T	T	27660540	3	4	20	1	0	0	0	0	1	0	0	0	16170	652	23	1	417	1	TMEM222	1	27660540	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	554923	27660540	221590081	33	16755											
PPP1R8	5511	broad.mit.edu	37	chr1	28176655	28176655	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggaggaatcagggagcAggcgcatgcagaactttgcc	10	6	15	10	1	1	1	1	0	0	1	1	4	1	4	2	4	4	3	2	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:28176655A>G	uc001bov.1	+	7	808	c.754A>G	c.(754-756)AGG>GGG	p.R252G	PPP1R8_uc001bow.1_Missense_Mutation_p.R110G|PPP1R8_uc001box.1_Missense_Mutation_p.R28G|PPP1R8_uc009vtc.1_RNA|PPP1R8_uc009vtd.1_RNA	NM_014110	NP_054829	Q12972	PP1R8_HUMAN	protein phosphatase 1 regulatory inhibitor	252					mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|RNA splicing|transcription, DNA-dependent	cytoplasm|nuclear speck|spliceosomal complex	DNA binding|endonuclease activity|protein binding|protein serine/threonine phosphatase inhibitor activity|ribonuclease E activity|RNA binding				0		Colorectal(325;3.46e-05)|all_lung(284;0.000129)|Lung NSC(340;0.000259)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;2.76e-24)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00248)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0649)		ATCAGGGAGCAGGCGCATGCA	0.607													8	549					0	0	0.00308	0	0		G	28176655	G	G	28176655	3	3	20	1	0	0	0	0	1	0	0	0	12399	179	7	3	780	3	PPP1R8	1	28176655	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	516115	28176655	221073966	34	16756											
EPB41	2035	broad.mit.edu	37	chr1	29359759	29359759	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagattcggcctggagaggTacagaatttatatttccttc	11	13	9	8	1	0	3	0	0	0	3	3	4	1	3	2	3	1	1	2	3	5	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:29359759T>C	uc001brm.1	+	8	1372	c.1365_splice	c.e8+2	p.E455_splice	EPB41_uc001brg.1_Splice_Site_p.E246_splice|EPB41_uc001brh.1_Splice_Site_p.E246_splice|EPB41_uc001bri.1_Splice_Site_p.E420_splice|EPB41_uc001brj.1_Splice_Site_p.E246_splice|EPB41_uc009vtk.1_Splice_Site_p.E420_splice|EPB41_uc001brk.2_Splice_Site_p.E455_splice|EPB41_uc001brl.1_Splice_Site_p.E455_splice|EPB41_uc009vtl.1_Splice_Site_p.E246_splice|EPB41_uc009vtm.1_Splice_Site_p.E88_splice	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1						blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)		CCTGGAGAGGTACAGAATTTA	0.378													3	77					0	0	0.004672	0	0		C	29359759	C	C	29359759	5	2	20	1	0	0	0	0	0	0	1	0	5159	1652	57	3	1397	3	EPB41	1	29359759	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1183104	29359759	219890862	35	16757											
SFRS4	6429	broad.mit.edu	37	chr1	29485950	29485950	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taagtctgtactctgtgcgaGtaggagggccatatttatct	9	14	11	7	1	3	0	0	0	3	0	3	2	3	1	1	2	2	2	1	2	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:29485950G>C	uc001bro.2	-	3	672	c.299C>G	c.(298-300)ACT>AGT	p.T100S	SFRS4_uc010ofy.1_Missense_Mutation_p.T100S|SFRS4_uc009vtp.2_RNA	NM_005626	NP_005617	Q08170	SRSF4_HUMAN	splicing factor, arginine/serine-rich 4	100					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|RNA binding				0		Colorectal(325;0.00161)|Breast(348;0.0364)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0529)|Lung NSC(340;0.0654)|all_lung(284;0.074)|Ovarian(437;0.104)|Medulloblastoma(700;0.151)		Colorectal(126;1.01e-07)|COAD - Colon adenocarcinoma(152;6.21e-06)|STAD - Stomach adenocarcinoma(196;0.0196)|BRCA - Breast invasive adenocarcinoma(304;0.0531)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.138)		CTCTGTGCGAGTAGGAGGGCC	0.423													18	41					0	0	0.006122	0	0		C	29485950	C	C	29485950	3	2	20	1	0	0	0	0	1	0	0	0	14204	1029	36	5	1201	5	SFRS4	1	29485950	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	126191	29485950	219764671	36	16758											
COL16A1	1307	broad.mit.edu	37	chr1	32157657	32157657	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcctccgtcgcccttctcGcctttctggccctggggaag	3	11	11	16	3	2	0	0	0	2	0	5	1	3	1	5	3	1	0	5	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:32157657G>A	uc001btk.1	-	17	1571	c.1206C>T	c.(1204-1206)GGC>GGT	p.G402G	COL16A1_uc001btj.1_Silent_p.G231G|COL16A1_uc001btl.3_Silent_p.G402G	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	402	Triple-helical region 9 (COL9) with 3 imperfections.				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		CGCCCTTCTCGCCTTTCTGGC	0.647													26	89					0	0	0.004656	0	0		A	32157657	A	A	32157657	2	1	20	1	0	0	0	0	0	0	0	1	3676	1074	38	1		1	COL16A1	1	32157657	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2671707	32157657	217092964	37	16759											
SPOCD1	90853	broad.mit.edu	37	chr1	32263883	32263883	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctcatccgcaccaggtcGtagggggtgacatctccatg	8	8	13	12	2	2	1	1	1	1	0	5	2	3	1	3	3	1	3	3	3	1	1	rs144387561	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:32263883G>A	uc001bts.1	-	9	2128	c.2070C>T	c.(2068-2070)TAC>TAT	p.Y690Y	SPOCD1_uc001btt.2_Translation_Start_Site|SPOCD1_uc001btu.2_Silent_p.Y690Y|SPOCD1_uc001btv.2_Silent_p.Y183Y|SPOCD1_uc001btw.1_Silent_p.Y34Y	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	690	TFIIS central.				transcription, DNA-dependent					ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)		GCACCAGGTCGTAGGGGGTGA	0.622													40	110					0	0	0.010771	0	0		A	32263883	A	A	32263883	2	1	20	1	0	0	0	0	0	0	0	1	15103	1140	40	1		1	SPOCD1	1	32263883	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	106226	32263883	216986738	38	16760											
MARCKSL1	65108	broad.mit.edu	37	chr1	32801580	32801580	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcgcgggggaagcgcctgCtgcctcctcggcggtcacgt	3	8	15	15	6	1	0	1	0	0	0	4	1	2	1	3	4	3	1	3	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:32801580C>T	uc001bvd.2	-	1	255	c.55G>A	c.(55-57)GCA>ACA	p.A19T		NM_023009	NP_075385	P49006	MRP_HUMAN	MARCKS-like 1	19						plasma membrane	calmodulin binding			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				GAAGCGCCTGCTGCCTCCTCG	0.711													6	16					0	0	0.006214	0	0		T	32801580	T	T	32801580	3	4	20	1	0	0	0	0	1	0	0	0	9328	797	28	2	540	2	MARCKSL1	1	32801580	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	537697	32801580	216449041	39	16761											
C1orf94	84970	broad.mit.edu	37	chr1	34663085	34663085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaggtggccatgcccgttAtcagcagcaggcaggactgt	10	7	14	10	1	1	1	1	0	0	1	1	2	1	2	2	4	3	4	2	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:34663085A>G	uc001bxs.3	+	2	409	c.10A>G	c.(10-12)ATC>GTC	p.I4V	C1orf94_uc001bxt.2_Missense_Mutation_p.I194V	NM_032884	NP_116273	Q6P1W5	CA094_HUMAN	hypothetical protein LOC84970 isoform b	4							protein binding				0		Myeloproliferative disorder(586;0.0393)				CATGCCCGTTATCAGCAGCAG	0.577													28	71					0	0	0.009535	0	0		G	34663085	G	G	34663085	3	3	20	1	0	0	0	0	1	0	0	0	2074	449	16	3	586	3	C1orf94	1	34663085	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1861505	34663085	214587536	40	16762											
NCDN	23154	broad.mit.edu	37	chr1	36031043	36031043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgccctggctggcccccGctgccctgcgctcccgctgg	0	8	13	20	3	0	0	0	0	0	0	1	0	1	0	5	3	4	5	5	3	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:36031043G>A	uc001bza.2	+	8	2096	c.1969G>A	c.(1969-1971)GCT>ACT	p.A657T	NCDN_uc001bzb.2_Missense_Mutation_p.A657T|NCDN_uc001bzc.2_Missense_Mutation_p.A640T	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	657					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GCTGGCCCCCGCTGCCCTGCG	0.677													5	13					0	0	0.001168	0	0		A	36031043	A	A	36031043	3	1	20	1	0	0	0	0	1	0	0	0	10233	1087	38	1	1995	1	NCDN	1	36031043	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1367958	36031043	213219578	41	16763											
THRAP3	9967	broad.mit.edu	37	chr1	36748267	36748267	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagtctcggtcccgaagcCgatctctctctcgttcaagg	7	10	10	14	5	4	0	1	0	3	0	9	3	5	0	2	2	1	1	2	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:36748267C>T	uc001cae.3	+	3	327	c.103C>T	c.(103-105)CGA>TGA	p.R35*	THRAP3_uc001caf.3_Nonsense_Mutation_p.R35*|THRAP3_uc001cag.1_Nonsense_Mutation_p.R35*	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	35	Arg-rich.|Ser-rich.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GTCCCGAAGCCGATCTCTCTC	0.458			T	USP6	aneurysmal bone cysts								22	71					0	0	0.004656	0	0		T	36748267	T	T	36748267	4	4	20	1	0	0	0	0	0	1	0	0	15899	644	23	1	105	1	THRAP3	1	36748267	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	717224	36748267	212502354	42	16764											
THRAP3	9967	broad.mit.edu	37	chr1	36769580	36769580	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagagtgggacagagaacCgagaagagaaggacaatata	19	3	14	5	2	0	4	0	0	0	4	0	10	0	6	1	2	1	0	1	2	6	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:36769580C>T	uc001cae.3	+	12	3054	c.2830C>T	c.(2830-2832)CGA>TGA	p.R944*	THRAP3_uc001caf.3_Nonsense_Mutation_p.R944*|C1orf113_uc010oia.1_5'Flank	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	944					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GACAGAGAACCGAGAAGAGAA	0.572			T	USP6	aneurysmal bone cysts								5	24					0	0	0.000602	0	0		T	36769580	T	T	36769580	4	4	20	1	0	0	0	0	0	1	0	0	15899	644	23	1	2868	1	THRAP3	1	36769580	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	21313	36769580	212481041	43	16765											
EPHA10	284656	broad.mit.edu	37	chr1	38227422	38227422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgttcagcttcatcttgcGctcacccaggtcgccctgcg	4	12	10	15	3	4	0	3	0	1	0	5	0	4	0	2	1	3	3	2	1	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:38227422G>A	uc009vvi.2	-	3	591	c.505C>T	c.(505-507)CGC>TGC	p.R169C	EPHA10_uc001cbw.3_Missense_Mutation_p.R169C	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	169	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TTCATCTTGCGCTCACCCAGG	0.687													28	36					0	0	0.009535	0	0		A	38227422	A	A	38227422	3	1	20	1	0	0	0	0	1	0	0	0	5174	1087	38	1	2619	1	EPHA10	1	38227422	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1457842	38227422	211023199	44	16766											
MTF1	4520	broad.mit.edu	37	chr1	38304325	38304325	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttttcccctgtatgagttcGaatgtgcttcctcagatcac	7	15	7	12	1	2	2	2	1	0	1	5	3	4	2	3	0	1	3	3	0	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:38304325G>A	uc001cce.1	-	4	892	c.751C>T	c.(751-753)CGA>TGA	p.R251*	MTF1_uc009vvj.1_5'UTR	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	251	C2H2-type 4.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GTATGAGTTCGAATGTGCTTC	0.438													31	105					0	0	0.010818	0	0		A	38304325	A	A	38304325	4	1	20	1	0	0	0	0	0	1	0	0	9940	1066	37	1	1542	1	MTF1	1	38304325	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	76903	38304325	210946296	45	16767											
UTP11L	51118	broad.mit.edu	37	chr1	38478539	38478539	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacagagagcgaagccaggTaggaccatacaggccccaca	15	2	11	13	1	0	1	0	0	0	1	0	4	0	2	4	3	3	1	4	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:38478539T>C	uc001ccn.3	+	1	154	c.63_splice	c.e1+2	p.Q21_splice	UTP11L_uc009vvm.2_Splice_Site|UTP11L_uc010oil.1_Splice_Site	NM_016037	NP_057121	Q9Y3A2	UTP11_HUMAN	UTP11-like, U3 small nucleolar						induction of apoptosis|nerve growth factor receptor signaling pathway|nervous system development|rRNA processing	cytoplasm|extracellular space|nucleolus|small-subunit processome	protein binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CGAAGCCAGGTAGGACCATAC	0.587													5	146					0	0	0.001168	0	0		C	38478539	C	C	38478539	5	2	20	1	0	0	0	0	0	0	1	0	17120	1652	57	3	67	3	UTP11L	1	38478539	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	174214	38478539	210772082	46	16768											
ZNF684	127396	broad.mit.edu	37	chr1	41007384	41007384	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacgagagctctccaggTgagtgagagaaattcagatg	13	7	12	9	1	2	5	1	2	1	3	3	7	2	5	2	1	1	1	2	1	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:41007384T>C	uc001cft.1	+	4	489	c.238_splice	c.e4+2	p.E80_splice		NM_152373	NP_689586	Q5T5D7	ZN684_HUMAN	zinc finger protein 684						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;5.42e-18)			GCTCTCCAGGTGAGTGAGAGA	0.483													6	19					0	0	0.001168	0	0		C	41007384	C	C	41007384	5	2	20	1	0	0	0	0	0	0	1	0	18116	1710	59	3	250	3	ZNF684	1	41007384	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2528845	41007384	208243237	47	16769											
ERMAP	114625	broad.mit.edu	37	chr1	43308594	43308594	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcatctctttctacaaTgtgaccaacaagtcccacat	12	11	6	12	0	3	1	1	1	2	0	5	2	4	2	2	1	2	0	2	1	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:43308594T>C	uc001cic.1	+	12	1389	c.1119T>C	c.(1117-1119)AAT>AAC	p.N373N	ERMAP_uc001cid.1_RNA|ERMAP_uc001cie.1_Silent_p.N373N|ERMAP_uc001cif.1_Silent_p.N283N	NM_001017922	NP_001017922	Q96PL5	ERMAP_HUMAN	erythroblast membrane-associated protein	373	Cytoplasmic (Potential).|B30.2/SPRY.		Missing (in Sc-3 allele).			integral to membrane|plasma membrane				ovary(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CTTTCTACAATGTGACCAACA	0.493													38	115					0	0	0.006999	0	0		C	43308594	C	C	43308594	2	2	20	1	0	0	0	0	0	0	0	1	5242	1461	51	3		3	ERMAP	1	43308594	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2301210	43308594	205942027	48	16770											
ZNF691	51058	broad.mit.edu	37	chr1	43317175	43317175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcttcagccagagtgccacGctagctgtgcatcaccggac	9	7	11	14	2	2	1	2	0	0	1	2	2	2	2	3	1	5	4	3	1	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:43317175G>A	uc001cih.2	+	2	678	c.627G>A	c.(625-627)ACG>ACA	p.T209T	ZNF691_uc001cig.2_Silent_p.T182T|ZNF691_uc009vwm.2_Silent_p.T202T	NM_015911	NP_056995	Q5VV52	ZN691_HUMAN	zinc finger protein 691	213	C2H2-type 4.					nucleus	DNA binding|zinc ion binding			ovary(2)	2	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AGAGTGCCACGCTAGCTGTGC	0.602													16	29					0	0	0.004007	0	0		A	43317175	A	A	43317175	2	1	20	1	0	0	0	0	0	0	0	1	18121	1074	38	1		1	ZNF691	1	43317175	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	8581	43317175	205933446	49	16771											
TMEM125	128218	broad.mit.edu	37	chr1	43738845	43738845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggccgccatgctgtctgtggGcattgctctggctgccttgg	2	12	15	12	1	2	0	0	0	2	0	2	0	2	0	3	4	3	4	3	4	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:43738845G>A	uc001cir.2	+	4	1022	c.452G>A	c.(451-453)GGC>GAC	p.G151D	EBNA1BP2_uc001cio.2_5'Flank|TMEM125_uc001cis.2_Missense_Mutation_p.G151D	NM_144626	NP_653227	Q96AQ2	TM125_HUMAN	transmembrane protein 125	151	Helical; (Potential).					integral to membrane				breast(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CTGTCTGTGGGCATTGCTCTG	0.687													7	20					0	0	0.00308	0	0		A	43738845	A	A	43738845	3	1	20	1	0	0	0	0	1	0	0	0	16062	1203	42	2	454	2	TMEM125	1	43738845	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	421670	43738845	205511776	50	16772											
DPH2	1802	broad.mit.edu	37	chr1	44438134	44438134	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagggctggagccccgcctgGgtcagacgccagtgacagaa	10	4	15	12	2	1	3	1	1	0	2	1	4	1	4	4	3	1	1	4	3	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:44438134G>T	uc001ckz.2	+	6	1588	c.1393G>T	c.(1393-1395)GGT>TGT	p.G465C	DPH2_uc001cla.2_Missense_Mutation_p.G237C|DPH2_uc010okk.1_Missense_Mutation_p.G330C|DPH2_uc001clb.2_Missense_Mutation_p.G389C|ATP6V0B_uc001clc.2_5'Flank|ATP6V0B_uc001cld.2_5'Flank|ATP6V0B_uc001cle.2_5'Flank|ATP6V0B_uc001clf.2_5'Flank	NM_001384	NP_001375	Q9BQC3	DPH2_HUMAN	diphthamide biosynthesis protein 2 isoform a	465					peptidyl-diphthamide biosynthetic process from peptidyl-histidine	cytoplasm				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				GCCCCGCCTGGGTCAGACGCC	0.587													14	72					7.87624e-14	8.33049e-14	0.00278	1	0		T	44438134	T	T	44438134	3	4	20	1	0	0	0	0	1	0	0	0	4726	1232	43	5	1415	5	DPH2	1	44438134	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	699289	44438134	204812487	51	16773											
TMEM53	79639	broad.mit.edu	37	chr1	45120336	45120336	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgacacgaaatccacagaAcgcgccaggacccggcgtgc	12	3	12	14	5	0	2	0	1	0	1	1	5	1	3	3	2	2	0	3	2	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:45120336A>G	uc001cmc.2	-	3	765	c.729T>C	c.(727-729)CGT>CGC	p.R243R	TMEM53_uc001cmb.1_Intron|TMEM53_uc001cmd.2_Silent_p.R170R|TMEM53_uc009vxh.1_Silent_p.R126R|TMEM53_uc010ola.1_Silent_p.R126R	NM_024587	NP_078863	Q6P2H8	TMM53_HUMAN	transmembrane protein 53	243						integral to membrane				ovary(2)	2	Acute lymphoblastic leukemia(166;0.155)					AATCCACAGAACGCGCCAGGA	0.597													5	140					0	0	0.001168	0	0		G	45120336	G	G	45120336	2	3	20	1	0	0	0	0	0	0	0	1	16204	30	2	3		3	TMEM53	1	45120336	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	682202	45120336	204130285	52	16774											
TCTEX1D4	343521	broad.mit.edu	37	chr1	45271717	45271717	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgtggccaccgcgaagagCgaggtgttggtgtaggagac	9	6	17	9	4	0	2	0	0	0	2	0	5	0	2	3	4	1	2	3	4	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:45271717C>T	uc001cmp.2	-	2	1133	c.624G>A	c.(622-624)TCG>TCA	p.S208S	BTBD19_uc010old.1_5'Flank|BTBD19_uc010ole.1_5'Flank	NM_001013632	NP_001013654	Q5JR98	TC1D4_HUMAN	Tctex1 domain containing 4	208										pancreas(1)	1	Acute lymphoblastic leukemia(166;0.155)					CCGCGAAGAGCGAGGTGTTGG	0.662													4	13					0	0	0.009096	0	0		T	45271717	T	T	45271717	2	4	20	1	0	0	0	0	0	0	0	1	15746	755	27	1		1	TCTEX1D4	1	45271717	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	151381	45271717	203978904	53	16775											
KIAA0494	9813	broad.mit.edu	37	chr1	47144226	47144226	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctggttctggcatagcAgaacctagggaggtccagat	9	10	12	10	0	2	2	0	0	2	2	4	3	3	3	2	4	2	3	2	4	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:47144226A>G	uc001cqk.3	-	11	2372	c.1395T>C	c.(1393-1395)TCT>TCC	p.S465S	KIAA0494_uc010omh.1_Intron|KIAA0494_uc010omj.1_Silent_p.S257S	NM_014774	NP_055589	O75071	K0494_HUMAN	hypothetical protein LOC9813	465	EF-hand 2.						calcium ion binding				0	Acute lymphoblastic leukemia(166;0.155)					CTGGCATAGCAGAACCTAGGG	0.468													39	72					0	0	0.007835	0	0		G	47144226	G	G	47144226	2	3	20	1	0	0	0	0	0	0	0	1	8195	175	7	3		3	KIAA0494	1	47144226	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1872509	47144226	202106395	54	16776											
TXNDC12	51060	broad.mit.edu	37	chr1	52492989	52492989	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatgggagagttctgaaatTtccgtagattctgcaaattt	11	16	9	5	1	2	3	0	1	2	2	3	4	3	3	1	1	1	3	1	1	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:52492989T>A	uc001cti.2	-	4	522	c.243A>T	c.(241-243)GAA>GAT	p.E81D		NM_015913	NP_056997	O95831	AIFM1_HUMAN	thioredoxin domain containing 12 precursor	329	FAD-dependent oxidoreductase (By similarity).				activation of caspase activity|apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|DNA damage response, signal transduction resulting in induction of apoptosis|DNA fragmentation involved in apoptotic nuclear change	cytosol|mitochondrial inner membrane|mitochondrial intermembrane space|nucleus|perinuclear region of cytoplasm	DNA binding|electron carrier activity|flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			ovary(1)	1						GTTCTGAAATTTCCGTAGATT	0.328													24	80					0	0	0.00632	0	0		A	52492989	A	A	52492989	3	1	20	1	0	0	0	0	1	0	0	0	16819	1838	64	5	291	5	TXNDC12	1	52492989	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	5348763	52492989	196757632	55	16777											
ORC1L	4998	broad.mit.edu	37	chr1	52840492	52840492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagatcacctgttgaaacGtggcttcctccagtcctgat	9	11	10	11	1	1	3	1	2	0	1	4	4	4	3	4	2	1	2	4	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:52840492G>A	uc001ctt.2	-	16	2600	c.2381C>T	c.(2380-2382)ACG>ATG	p.T794M	ORC1L_uc010oni.1_Missense_Mutation_p.T789M|ORC1L_uc001ctu.2_Missense_Mutation_p.T794M|ORC1L_uc009vzd.2_Missense_Mutation_p.T548M	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	794	Necessary and sufficient for ORC complex assembly.				cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						CTGTTGAAACGTGGCTTCCTC	0.438													9	36					0	0	0.006214	0	0		A	52840492	A	A	52840492	3	1	20	1	0	0	0	0	1	0	0	0	11280	1145	40	1	212	1	ORC1L	1	52840492	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	347503	52840492	196410129	56	16778											
FAM159A	348378	broad.mit.edu	37	chr1	53108573	53108573	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgtccgtagcagcagtggTtcttctcgccttcattgtta	5	15	9	12	2	3	0	1	0	2	0	5	0	4	0	3	1	2	5	3	1	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:53108573T>C	uc001cuf.2	+	2	321	c.221T>C	c.(220-222)GTT>GCT	p.V74A	FAM159A_uc001cug.1_RNA|FAM159A_uc001cuh.2_RNA	NM_001042693	NP_001036158	Q6UWV7	F159A_HUMAN	hypothetical protein LOC348378	74	Helical; (Potential).					integral to membrane					0						GCAGCAGTGGTTCTTCTCGCC	0.532													5	326					0	0	0.001168	0	0		C	53108573	C	C	53108573	3	2	20	1	0	0	0	0	1	0	0	0	5479	1725	60	3	227	3	FAM159A	1	53108573	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	268081	53108573	196142048	57	16779											
INADL	10207	broad.mit.edu	37	chr1	62516732	62516732	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgaaagcttcaaactggTgagaatcttgagtatttttc	13	14	9	5	0	2	3	1	3	1	1	3	4	2	3	0	1	2	2	0	1	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:62516732T>C	uc001dab.2	+	31	4239	c.4125_splice	c.e31+2	p.L1375_splice	INADL_uc009waf.1_Splice_Site_p.L1375_splice|INADL_uc001daa.2_Splice_Site_p.L1375_splice|INADL_uc001dad.3_Splice_Site_p.L1072_splice|INADL_uc001dac.2_Splice_Site|INADL_uc010oot.1_Splice_Site_p.L159_splice|INADL_uc009wag.2_Splice_Site_p.L159_splice|INADL_uc010oou.1_Splice_Site_p.L48_splice	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like						intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						TTCAAACTGGTGAGAATCTTG	0.408													13	47					0	0	0.013537	0	0		C	62516732	C	C	62516732	5	2	20	1	0	0	0	0	0	0	1	0	7747	1710	59	3	4245	3	INADL	1	62516732	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	9408159	62516732	186733889	58	16780											
KANK4	163782	broad.mit.edu	37	chr1	62740559	62740559	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccactgtcaggaaggctgaAgtttcggggcagagtgctaa	10	8	14	9	1	1	2	1	1	0	1	2	3	1	3	1	4	1	4	1	4	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:62740559A>C	uc001dah.3	-	3	594	c.217T>G	c.(217-219)TTC>GTC	p.F73V	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	73										ovary(3)|skin(2)|lung(1)	6						GGAAGGCTGAAGTTTCGGGGC	0.562													47	145					0	0	0.01441	0	0		C	62740559	C	C	62740559	3	2	20	1	0	0	0	0	1	0	0	0	7995	72	3	5	2802	5	KANK4	1	62740559	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	223827	62740559	186510062	59	16781											
LEPROT	54741	broad.mit.edu	37	chr1	65895571	65895571	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggcccttattcgtcctgaTtttccacgccatctccccca	5	13	5	18	2	1	1	0	1	1	0	5	1	3	1	6	1	0	0	6	1	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:65895571T>C	uc001dcf.2	+	3	208	c.119T>C	c.(118-120)ATT>ACT	p.I40T	LEPR_uc001dcg.2_Intron|LEPR_uc001dch.2_Intron|LEPR_uc001dci.2_Intron|LEPR_uc009waq.2_Intron|LEPROT_uc009wap.2_Missense_Mutation_p.I49T	NM_017526	NP_059996	O15243	OBRG_HUMAN	leptin receptor gene-related protein	40	Helical; (Potential).					endosome membrane|Golgi membrane|integral to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		TTCGTCCTGATTTTCCACGCC	0.433													10	333					0	0	0.010729	0	0		C	65895571	C	C	65895571	3	2	20	1	0	0	0	0	1	0	0	0	8748	1493	52	3	129	3	LEPROT	1	65895571	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3155012	65895571	183355050	60	16782											
IL23R	149233	broad.mit.edu	37	chr1	67666492	67666492	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactgattcattacaaggTggcaagaagtacttggtttg	11	13	10	7	0	1	2	1	1	0	1	2	2	2	2	1	3	2	3	1	3	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:67666492T>C	uc001ddo.2	+	5	649	c.564T>C	c.(562-564)GGT>GGC	p.G188G	IL23R_uc009waz.2_5'UTR|IL23R_uc001ddp.2_RNA|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_Intron|IL23R_uc010opk.1_Silent_p.G145G|IL23R_uc010opl.1_Intron|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_Intron|IL23R_uc010opn.1_Silent_p.G33G|IL23R_uc001ddr.2_RNA|IL23R_uc010opo.1_Silent_p.G47G|IL23R_uc010opp.1_RNA|IL23R_uc010opq.1_Silent_p.G47G|IL23R_uc010opr.1_RNA|IL23R_uc010ops.1_5'UTR|IL23R_uc010opt.1_5'UTR|IL23R_uc010opu.1_5'UTR|IL23R_uc010opv.1_Silent_p.G47G|IL23R_uc010opw.1_Intron|IL23R_uc010opx.1_Intron|IL23R_uc010opy.1_5'UTR|IL23R_uc010opz.1_Intron|IL23R_uc010oqa.1_5'UTR|IL23R_uc010oqb.1_Silent_p.G47G|IL23R_uc010oqc.1_Intron|IL23R_uc010oqd.1_Intron|IL23R_uc010oqe.1_5'UTR|IL23R_uc010oqf.1_5'UTR|IL23R_uc010oqg.1_5'UTR|IL23R_uc010oqh.1_Intron	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	188	Extracellular (Potential).|Fibronectin type-III 1.				inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						CATTACAAGGTGGCAAGAAGT	0.373													4	156					0	0	0.009096	0	0		C	67666492	C	C	67666492	2	2	20	1	0	0	0	0	0	0	0	1	7692	1683	59	3		3	IL23R	1	67666492	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1770921	67666492	181584129	61	16783											
NEGR1	257194	broad.mit.edu	37	chr1	72748049	72748049	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatcatgttgtccacggcCgcccaggggaagtccacact	9	7	10	15	2	1	0	1	0	0	0	3	1	3	1	5	3	0	1	5	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:72748049C>T	uc001dfw.2	-	1	229	c.129G>A	c.(127-129)GCG>GCA	p.A43A	NEGR1_uc010oqs.1_Silent_p.A43A	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	43	Ig-like C2-type 1.				cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		TGTCCACGGCCGCCCAGGGGA	0.592													13	39					0	0	0.00245	0	0		T	72748049	T	T	72748049	2	4	20	1	0	0	0	0	0	0	0	1	10336	639	23	1		1	NEGR1	1	72748049	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	5081557	72748049	176502572	62	16784											
LHX8	431707	broad.mit.edu	37	chr1	75602834	75602834	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtgctcctcctcggcccCgctgtccccgtcgtcctcgc	0	10	9	22	6	0	0	0	0	0	0	8	0	4	0	7	1	1	2	7	1	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:75602834C>T	uc001dgo.2	+	4	819	c.155C>T	c.(154-156)CCG>CTG	p.P52L	LHX8_uc001dgq.2_5'UTR	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	52						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						TCCTCGGCCCCGCTGTCCCCG	0.697													11	26					0	0	0.010729	0	0		T	75602834	T	T	75602834	3	4	20	1	0	0	0	0	1	0	0	0	8792	652	23	1	165	1	LHX8	1	75602834	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2854785	75602834	173647787	63	16785											
ACADM	34	broad.mit.edu	37	chr1	76194107	76194107	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgagaagtatttctcgtTttcattggagatcacagcat	10	15	8	8	1	3	2	2	1	1	2	5	4	4	2	1	1	1	3	1	1	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:76194107T>C	uc001dgw.3	+	2	482	c.52T>C	c.(52-54)TTT>CTT	p.F18L	ACADM_uc010orc.1_Missense_Mutation_p.F18L|ACADM_uc010ord.1_5'UTR|ACADM_uc009wbp.2_Missense_Mutation_p.F22L|ACADM_uc009wbr.2_Missense_Mutation_p.F18L|ACADM_uc010ore.1_Intron|ACADM_uc010orf.1_Intron|ACADM_uc001dgx.3_5'UTR	NM_000016	NP_000007	P11310	ACADM_HUMAN	medium-chain acyl-CoA dehydrogenase isoform a	18					carnitine biosynthetic process|carnitine metabolic process, CoA-linked|fatty acid beta-oxidation using acyl-CoA dehydrogenase|medium-chain fatty acid catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|identical protein binding|medium-chain-acyl-CoA dehydrogenase activity			breast(2)|ovary(1)|skin(1)	4						TATTTCTCGTTTTCATTGGAG	0.313													3	112					0	0	0.004672	0	0		C	76194107	C	C	76194107	3	2	20	1	0	0	0	0	1	0	0	0	113	1841	64	3	70	3	ACADM	1	76194107	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	591273	76194107	173056514	64	16786											
ZZZ3	26009	broad.mit.edu	37	chr1	78097900	78097900	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggctgcccttcgtggtgaGgttctcagagtataacgatg	7	11	15	8	2	1	2	1	1	1	1	3	3	1	2	1	4	2	3	1	4	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:78097900G>T	uc001dhq.2	-	5	1616	c.1140C>A	c.(1138-1140)ACC>ACA	p.T380T	ZZZ3_uc001dhr.2_Intron|ZZZ3_uc009wbz.1_Silent_p.T380T|ZZZ3_uc001dhp.2_Silent_p.T380T	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	380					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						TTCGTGGTGAGGTTCTCAGAG	0.443													33	108					6.97489e-18	7.44812e-18	0.004878	1	0		T	78097900	T	T	78097900	2	4	20	1	0	0	0	0	0	0	0	1	18281	987	35	5		5	ZZZ3	1	78097900	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1903793	78097900	171152721	65	16787											
IFI44	10561	broad.mit.edu	37	chr1	79121150	79121150	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggcggcctgtgcagggAtgacatattctatatcttga	11	11	12	7	1	2	3	0	2	2	1	2	4	2	4	1	3	1	1	1	3	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:79121150A>C	uc001dip.3	+	5	918	c.794A>C	c.(793-795)GAT>GCT	p.D265A	IFI44_uc010orr.1_Missense_Mutation_p.D265A|IFI44_uc010ors.1_5'UTR	NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	265					response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2						CTGTGCAGGGATGACATATTC	0.383													6	97					0	0	0.001984	0	0		C	79121150	C	C	79121150	3	2	20	1	0	0	0	0	1	0	0	0	7533	333	12	5	808	5	IFI44	1	79121150	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1023250	79121150	170129471	66	16788											
SPATA1	64173	broad.mit.edu	37	chr1	85014616	85014616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggagatcaagatgagacCaaagaatctggcaaacatca	18	5	10	8	0	3	4	2	1	1	4	3	6	3	4	1	2	1	1	1	2	4	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:85014616C>T	uc001djz.1	+	11	1359	c.1160C>T	c.(1159-1161)CCA>CTA	p.P387L	SPATA1_uc001djy.1_RNA	NM_001081472	NP_001074941			spermatogenesis associated 1											central_nervous_system(1)	1				Epithelial(280;4.36e-10)|all cancers(265;7.1e-09)|BRCA - Breast invasive adenocarcinoma(282;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(397;0.00286)|KIRC - Kidney renal clear cell carcinoma(1967;0.0111)		AAGATGAGACCAAAGAATCTG	0.393													23	82					0	0	0.00333	0	0		T	85014616	T	T	85014616	3	4	20	1	0	0	0	0	1	0	0	0	15023	594	21	4	1198	4	SPATA1	1	85014616	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	5893466	85014616	164236005	67	16789											
CTBS	1486	broad.mit.edu	37	chr1	85036346	85036346	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaaatgttgccacagttgTaatctgtgaccaatcataag	13	12	7	9	0	2	1	1	1	1	0	3	1	3	1	3	0	1	3	3	0	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:85036346T>C	uc001dka.2	-	2	300	c.235A>G	c.(235-237)ACA>GCA	p.T79A	CTBS_uc001dkc.2_5'UTR|CTBS_uc001dkd.2_5'UTR|CTBS_uc001dkb.2_5'UTR	NM_004388	NP_004379	Q01459	DIAC_HUMAN	chitobiase, di-N-acetyl- precursor	79						lysosome	cation binding				0				all cancers(265;0.00727)|Epithelial(280;0.0192)|OV - Ovarian serous cystadenocarcinoma(397;0.166)		GCCACAGTTGTAATCTGTGAC	0.373													7	110					0	0	0.004482	0	0		C	85036346	C	C	85036346	3	2	20	1	0	0	0	0	1	0	0	0	4002	1638	57	3	946	3	CTBS	1	85036346	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	21730	85036346	164214275	68	16790											
MCOLN3	55283	broad.mit.edu	37	chr1	85506730	85506730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaactgatcatacacgtcaCtttgtgtgtacactgcatat	11	15	6	9	1	2	1	2	1	0	0	2	1	2	1	0	0	4	2	0	0	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:85506730C>T	uc001dkp.2	-	3	452	c.359G>A	c.(358-360)AGT>AAT	p.S120N	MCOLN3_uc001dkq.2_Intron|MCOLN3_uc001dkr.2_Missense_Mutation_p.S120N|MCOLN3_uc001dks.3_Translation_Start_Site	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	120						integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		ATACACGTCACTTTGTGTGTA	0.383													9	297					0	0	0.010729	0	0		T	85506730	T	T	85506730	3	4	20	1	0	0	0	0	1	0	0	0	9415	565	20	4	1346	4	MCOLN3	1	85506730	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	470384	85506730	163743891	69	16791											
SYDE2	84144	broad.mit.edu	37	chr1	85666191	85666191	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccactgcgtatcacagaggaCcccgctggatccctgaaagg	10	6	11	14	2	1	2	1	1	0	1	2	4	2	4	4	3	1	2	4	3	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:85666191C>T	uc009wcm.2	-	1	538	c.489G>A	c.(487-489)GGG>GGA	p.G163G	SYDE2_uc001dku.3_Silent_p.G163G	NM_032184	NP_115560	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2	163					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|central_nervous_system(1)	2				all cancers(265;0.0126)|Epithelial(280;0.0336)		TCACAGAGGACCCCGCTGGAT	0.667													18	38					0	0	0.006122	0	0		T	85666191	T	T	85666191	2	4	20	1	0	0	0	0	0	0	0	1	15461	494	18	4		4	SYDE2	1	85666191	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	159461	85666191	163584430	70	16792											
CLCA1	1179	broad.mit.edu	37	chr1	86965639	86965639	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacgtctgctccttgtcctAatattcatatcaacagcacc	12	12	4	13	1	3	0	2	0	1	0	5	0	5	0	3	0	4	2	3	0	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:86965639A>G	uc001dlt.2	+	14	2785	c.2656A>G	c.(2656-2658)AAT>GAT	p.N886D		NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	886					calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		TCCTTGTCCTAATATTCATAT	0.413													45	130					0	0	0.01441	0	0		G	86965639	G	G	86965639	3	3	20	1	0	0	0	0	1	0	0	0	3460	362	13	3	2710	3	CLCA1	1	86965639	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1299448	86965639	162284982	71	16793											
CLCA4	22802	broad.mit.edu	37	chr1	87031502	87031502	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggttgttgaattttgtaaCgaaaaaacccataatcaaga	17	12	7	5	1	1	2	1	1	0	1	1	3	1	2	1	1	2	3	1	1	8	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:87031502C>T	uc009wcs.2	+	6	797	c.753C>T	c.(751-753)AAC>AAT	p.N251N	CLCA4_uc009wct.2_Silent_p.N14N|CLCA4_uc009wcu.2_Silent_p.N71N	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	251						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity	p.N251N(1)		ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		AATTTTGTAACGAAAAAACCC	0.269													5	76					0	0	0.000602	0	0		T	87031502	T	T	87031502	2	4	20	1	0	0	0	0	0	0	0	1	3462	535	19	1		1	CLCA4	1	87031502	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	65863	87031502	162219119	72	16794											
GBP3	2635	broad.mit.edu	37	chr1	89479066	89479066	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttgggaagaacttccggaTacagagtcggggcagattaa	12	9	13	7	2	0	3	0	0	0	3	2	5	1	5	1	4	2	1	1	4	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:89479066T>C	uc001dmt.2	-	6	875	c.670A>G	c.(670-672)ATC>GTC	p.I224V	GBP3_uc010oss.1_Missense_Mutation_p.I145V|GBP3_uc001dmu.2_Missense_Mutation_p.I90V|GBP3_uc001dmv.2_RNA	NM_018284	NP_060754	Q9H0R5	GBP3_HUMAN	guanylate binding protein 3	224						integral to membrane	GTP binding|GTPase activity			ovary(1)|pancreas(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0103)|Epithelial(280;0.0293)		AACTTCCGGATACAGAGTCGG	0.358													5	257					0	0	0.000602	0	0		C	89479066	C	C	89479066	3	2	20	1	0	0	0	0	1	0	0	0	6290	1406	49	3	1141	3	GBP3	1	89479066	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2447564	89479066	159771555	73	16795											
GBP3	2635	broad.mit.edu	37	chr1	89480280	89480280	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcccatgctattgtacacGagagtgctgctcaggaggac	9	10	12	10	1	1	1	1	0	0	1	2	4	2	3	1	2	4	5	1	2	2	4	rs148546933	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:89480280G>A	uc001dmt.2	-	4	583	c.378C>T	c.(376-378)CTC>CTT	p.L126L	GBP3_uc010oss.1_Silent_p.L47L|GBP3_uc001dmu.2_5'UTR|GBP3_uc001dmv.2_RNA	NM_018284	NP_060754	Q9H0R5	GBP3_HUMAN	guanylate binding protein 3	126	Helical; (Potential).					integral to membrane	GTP binding|GTPase activity			ovary(1)|pancreas(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0103)|Epithelial(280;0.0293)		TATTGTACACGAGAGTGCTGC	0.522													32	138					0	0	0.004289	0	0		A	89480280	A	A	89480280	2	1	20	1	0	0	0	0	0	0	0	1	6290	1045	37	1		1	GBP3	1	89480280	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1214	89480280	159770341	74	16796											
LRRC8D	55144	broad.mit.edu	37	chr1	90400499	90400499	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcataatgacggcactaaActcttggtactgaacagcct	13	11	7	10	1	2	2	1	2	1	0	2	2	2	2	1	2	4	2	1	2	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:90400499A>G	uc001dnm.2	+	3	2297	c.1872A>G	c.(1870-1872)AAA>AAG	p.K624K	LRRC8D_uc001dnn.2_Silent_p.K624K	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	624	LRR 5.					integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		ACGGCACTAAACTCTTGGTAC	0.428													5	91					0	0	0.001168	0	0		G	90400499	G	G	90400499	2	3	20	1	0	0	0	0	0	0	0	1	9042	40	2	3		3	LRRC8D	1	90400499	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	920219	90400499	158850122	75	16797											
FNBP1L	54874	broad.mit.edu	37	chr1	93995246	93995246	+	Frame_Shift_Del	DEL	A	-	-																															aagagaatgtagagaggcagAaaaggcacaacagagttatg																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:93995246delA	uc001dpw.2	+	6	443	c.443delA	c.(442-444)GAAfs	p.E148fs	FNBP1L_uc001dpv.2_Frame_Shift_Del_p.E148fs|FNBP1L_uc010otk.1_5'UTR	NM_001024948	NP_001020119	Q5T0N5	FBP1L_HUMAN	formin binding protein 1-like isoform 1	148	Induction of membrane tubulation (By similarity).|Potential.				endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	lipid binding				0		all_lung(203;0.00206)|Lung NSC(277;0.00902)|Melanoma(281;0.155)		all cancers(265;0.00666)|GBM - Glioblastoma multiforme(16;0.0378)|Epithelial(280;0.111)		AGAGAGGCAGAAAAGGCACAA	0.303													2	4	---	---	---	---						.	-	93995246	-	-	93995246	7	5	20	1	0	1	0	1	0	0	0	0	5980	246	9	0	465	0	FNBP1L	1	93995246	Frame_Shift_Del	DEL	A	TCGA-BR-4362-01A-01D-1158-08	3594747	93995246	155255375	76	16798											
DPYD	1806	broad.mit.edu	37	chr1	98165040	98165040	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcagaataggcttcagAcattttttctgggggaggca	9	13	12	7	0	2	2	1	0	1	2	2	3	2	3	0	4	1	3	0	4	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:98165040A>G	uc001drv.2	-	6	684	c.547T>C	c.(547-549)TCT>CCT	p.S183P	DPYD_uc010oub.1_RNA	NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	183					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	TAGGCTTCAGACATTTTTTCT	0.423													79	213					0	0	0.01441	0	0		G	98165040	G	G	98165040	3	3	20	1	0	0	0	0	1	0	0	0	4751	275	10	3	2602	3	DPYD	1	98165040	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	4169794	98165040	151085581	77	16799											
AGL	178	broad.mit.edu	37	chr1	100357205	100357205	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttctacctgaagcagaTcccacgttaccttatcccat	9	13	5	14	1	2	2	0	1	2	1	4	2	4	2	4	0	3	3	4	0	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:100357205T>C	uc001dsi.1	+	23	3393	c.2993T>C	c.(2992-2994)ATC>ACC	p.I998T	AGL_uc001dsj.1_Missense_Mutation_p.I998T|AGL_uc001dsk.1_Missense_Mutation_p.I998T|AGL_uc001dsl.1_Missense_Mutation_p.I998T|AGL_uc001dsm.1_Missense_Mutation_p.I982T|AGL_uc001dsn.1_Missense_Mutation_p.I981T	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	998	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		CTGAAGCAGATCCCACGTTAC	0.368													7	146					0	0	0.00308	0	0		C	100357205	C	C	100357205	3	2	20	1	0	0	0	0	1	0	0	0	384	1435	50	3	3148	3	AGL	1	100357205	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2192165	100357205	148893416	78	16800											
VCAM1	7412	broad.mit.edu	37	chr1	101186043	101186043	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttgcagctcaagcttttAaaatcgagaccaccccagaa	13	10	6	12	1	1	2	1	0	0	2	2	3	1	2	3	0	3	3	3	0	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:101186043A>G	uc001dti.2	+	2	196	c.76A>G	c.(76-78)AAA>GAA	p.K26E	VCAM1_uc001dtj.2_Missense_Mutation_p.K26E|VCAM1_uc010ouj.1_Missense_Mutation_p.K26E	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	26	Ig-like C2-type 1.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	TCAAGCTTTTAAAATCGAGAC	0.403													6	189					0	0	0.001168	0	0		G	101186043	G	G	101186043	3	3	20	1	0	0	0	0	1	0	0	0	17163	363	13	3	82	3	VCAM1	1	101186043	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	828838	101186043	148064578	79	16801											
SARS	6301	broad.mit.edu	37	chr1	109778671	109778671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaagagatgattaccaccGcagaggagttctaccagtcc	12	9	10	10	1	1	4	0	2	1	2	2	6	2	5	4	1	2	2	4	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:109778671G>A	uc001dwu.1	+	8	1117	c.1042G>A	c.(1042-1044)GCA>ACA	p.A348T	SARS_uc001dwt.1_Missense_Mutation_p.A348T|SARS_uc001dwv.1_Missense_Mutation_p.A348T|SARS_uc001dww.1_Missense_Mutation_p.A281T|SARS_uc001dwx.1_Missense_Mutation_p.A300T|SARS_uc009wfa.1_Missense_Mutation_p.A348T|SARS_uc001dwy.1_Missense_Mutation_p.A173T|SARS_uc001dwz.1_Missense_Mutation_p.A173T	NM_006513	NP_006504	P49591	SYSC_HUMAN	seryl-tRNA synthetase	348					seryl-tRNA aminoacylation|tRNA processing	cytosol	ATP binding|protein binding|RNA binding|serine-tRNA ligase activity			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0301)|Lung(183;0.0677)|COAD - Colon adenocarcinoma(174;0.116)|Epithelial(280;0.233)	L-Serine(DB00133)	GATTACCACCGCAGAGGAGTT	0.493													36	102					0	0	0.004289	0	0		A	109778671	A	A	109778671	3	1	20	1	0	0	0	0	1	0	0	0	13869	1087	38	1	1072	1	SARS	1	109778671	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	8592628	109778671	139471950	80	16802											
SORT1	6272	broad.mit.edu	37	chr1	109910092	109910092	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacatggaaggtagtcaaGactagaatgacctggagaga	15	7	14	5	0	1	4	1	1	0	3	1	7	1	6	1	4	1	2	1	4	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:109910092G>T	uc001dxm.1	-	3	427	c.378C>A	c.(376-378)GTC>GTA	p.V126V	SORT1_uc010ovi.1_5'UTR|SORT1_uc009wfb.2_5'UTR	NM_002959	NP_002950	Q99523	SORT_HUMAN	sortilin 1 preproprotein	126	Extracellular (Potential).				endocytosis|endosome to lysosome transport|endosome transport via multivesicular body sorting pathway|glucose import|Golgi to endosome transport|induction of apoptosis by extracellular signals|myotube differentiation|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|neuropeptide signaling pathway|ossification|plasma membrane to endosome transport|regulation of gene expression|response to insulin stimulus|vesicle organization	cell surface|coated pit|early endosome|endoplasmic reticulum membrane|endosome membrane|Golgi cisterna membrane|integral to membrane|lysosomal membrane|microsome|nuclear membrane|perinuclear region of cytoplasm|plasma membrane	enzyme binding|nerve growth factor binding|nerve growth factor receptor activity|neurotensin receptor activity, non-G-protein coupled			ovary(1)	1		all_epithelial(167;4.69e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0529)|Colorectal(144;0.142)|Epithelial(280;0.145)|Kidney(133;0.169)|all cancers(265;0.184)		AGGTAGTCAAGACTAGAATGA	0.383													51	148					1.07234e-20	1.14917e-20	0.01441	1	0		T	109910092	T	T	109910092	2	4	20	1	0	0	0	0	0	0	0	1	14960	929	33	5		5	SORT1	1	109910092	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	131421	109910092	139340529	81	16803											
GSTM3	2947	broad.mit.edu	37	chr1	110280341	110280341	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattgtttcagttgtccaggTagctcttccaagtactgagg	9	14	10	8	0	2	1	1	1	1	0	4	1	4	1	2	2	2	5	2	2	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:110280341T>C	uc001dyo.2	-	7	715	c.405A>G	c.(403-405)CTA>CTG	p.L135L	GSTM3_uc001dyp.2_Silent_p.L132L|GSTM3_uc010ovv.1_Silent_p.L135L	NM_000849	NP_000840	P21266	GSTM3_HUMAN	glutathione S-transferase mu 3	135	GST C-terminal.				establishment of blood-nerve barrier|glutathione metabolic process|response to estrogen stimulus	cytoplasm	glutathione transferase activity|identical protein binding				0		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Colorectal(144;0.0339)|Lung(183;0.0426)|all cancers(265;0.113)|Epithelial(280;0.125)|COAD - Colon adenocarcinoma(174;0.134)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	GTTGTCCAGGTAGCTCTTCCA	0.433													21	228					0	0	0.00333	0	0		C	110280341	C	C	110280341	2	2	20	1	0	0	0	0	0	0	0	1	6855	1625	57	3		3	GSTM3	1	110280341	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	370249	110280341	138970280	82	16804											
KCNC4	3749	broad.mit.edu	37	chr1	110765914	110765914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggggctgagcggcctgtcatCcaaggcggcccgcgacgtgc	5	5	17	14	5	1	1	1	1	0	0	2	2	2	1	3	5	2	1	3	5	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:110765914C>T	uc001dzh.2	+	2	1064	c.1007C>T	c.(1006-1008)TCC>TTC	p.S336F	KCNC4_uc001dzf.2_Missense_Mutation_p.S336F|KCNC4_uc009wfr.2_Missense_Mutation_p.S336F|KCNC4_uc001dzg.2_Missense_Mutation_p.S336F|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	336					synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		all_cancers(81;9.88e-06)|all_epithelial(167;3.23e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0238)|all cancers(265;0.0693)|Epithelial(280;0.0748)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.135)		GGCCTGTCATCCAAGGCGGCC	0.632													10	48					0	0	0.008291	0	0		T	110765914	T	T	110765914	3	4	20	1	0	0	0	0	1	0	0	0	8033	855	30	4	1013	4	KCNC4	1	110765914	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	485573	110765914	138484707	83	16805											
KCNC4	3749	broad.mit.edu	37	chr1	110766270	110766270	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcatgctggtaggggcaCtgtgtgcactggctggcgtg	5	9	18	9	1	0	0	0	0	0	0	0	0	0	0	0	6	2	6	0	6	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:110766270C>T	uc001dzh.2	+	2	1420	c.1363C>T	c.(1363-1365)CTG>TTG	p.L455L	KCNC4_uc001dzf.2_Silent_p.L455L|KCNC4_uc009wfr.2_Silent_p.L455L|KCNC4_uc001dzg.2_Silent_p.L455L|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	455	Helical; Name=Segment S6; (Potential).				synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		all_cancers(81;9.88e-06)|all_epithelial(167;3.23e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0238)|all cancers(265;0.0693)|Epithelial(280;0.0748)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.135)		GGTAGGGGCACTGTGTGCACT	0.592													22	50					0	0	0.005443	0	0		T	110766270	T	T	110766270	2	4	20	1	0	0	0	0	0	0	0	1	8033	564	20	4		4	KCNC4	1	110766270	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	356	110766270	138484351	84	16806											
KCNA2	3737	broad.mit.edu	37	chr1	111147188	111147188	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgaaaaagtactcatttcGgagggggtcaaagtacctca	14	9	10	8	2	3	0	3	0	0	0	5	2	3	1	1	3	2	2	1	3	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:111147188G>A	uc001dzu.2	-	2	713	c.217C>T	c.(217-219)CGA>TGA	p.R73*	KCNA2_uc009wfv.1_Nonsense_Mutation_p.R73*|KCNA2_uc009wfw.2_Nonsense_Mutation_p.R73*	NM_004974	NP_004965	P16389	KCNA2_HUMAN	potassium voltage-gated channel, shaker-related	73						juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(1)	1		all_cancers(81;5.55e-06)|all_epithelial(167;1.87e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Colorectal(144;0.00878)|Lung(183;0.0234)|all cancers(265;0.0492)|Epithelial(280;0.0529)|COAD - Colon adenocarcinoma(174;0.131)|LUSC - Lung squamous cell carcinoma(189;0.133)|READ - Rectum adenocarcinoma(129;0.191)		TACTCATTTCGGAGGGGGTCA	0.522													46	101					0	0	0.01441	0	0		A	111147188	A	A	111147188	4	1	20	1	0	0	0	0	0	1	0	0	8019	1124	39	1	1286	1	KCNA2	1	111147188	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	380918	111147188	138103433	85	16807											
CD53	963	broad.mit.edu	37	chr1	111437605	111437605	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgagtatgtggctaagggTctgaccgacagcatccaccg	11	8	12	10	2	1	2	0	2	1	0	2	3	2	2	3	2	1	3	3	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:111437605T>G	uc001dzw.2	+	6	522	c.351T>G	c.(349-351)GGT>GGG	p.G117G	CD53_uc001dzx.2_Silent_p.G117G|CD53_uc010owa.1_Intron|CD53_uc001dzy.2_Silent_p.G117G	NM_001040033	NP_001035122	P19397	CD53_HUMAN	CD53 antigen	117	Extracellular (Potential).				signal transduction	integral to membrane|plasma membrane					0		all_cancers(81;1.06e-05)|all_epithelial(167;1.95e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0264)|Colorectal(144;0.0375)|all cancers(265;0.11)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.141)|LUSC - Lung squamous cell carcinoma(189;0.144)		TGGCTAAGGGTCTGACCGACA	0.493													11	46					0	0	0.013537	0	0		G	111437605	G	G	111437605	2	3	20	1	0	0	0	0	0	0	0	1	3026	1654	58	5		5	CD53	1	111437605	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	290417	111437605	137813016	86	16808											
CHIA	27159	broad.mit.edu	37	chr1	111858017	111858017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaccctggctctcgtgggaGccctcctcaggacaagcatc	7	8	11	15	1	2	0	1	0	1	0	5	2	3	2	3	3	3	3	3	3	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:111858017G>A	uc001eas.2	+	6	543	c.440G>A	c.(439-441)AGC>AAC	p.S147N	CHIA_uc001ear.2_Missense_Mutation_p.S39N|CHIA_uc001eaq.2_Missense_Mutation_p.S39N|CHIA_uc009wgc.2_Missense_Mutation_p.S39N|CHIA_uc001eat.2_Intron|CHIA_uc001eav.2_5'UTR|CHIA_uc001eau.2_Intron|CHIA_uc009wgd.2_Intron	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	147					apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		TCTCGTGGGAGCCCTCCTCAG	0.527													6	101					0	0	0.001168	0	0		A	111858017	A	A	111858017	3	1	20	1	0	0	0	0	1	0	0	0	3345	971	34	2	458	2	CHIA	1	111858017	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	420412	111858017	137392604	87	16809											
WNT2B	7482	broad.mit.edu	37	chr1	113051996	113051996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggctcccgggcttcggccCgcctaggtcttgcctgcctt	2	10	12	17	4	1	0	0	0	1	0	3	0	2	0	5	4	2	2	5	4	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:113051996C>T	uc001ecb.2	+	1	627	c.112C>T	c.(112-114)CGC>TGC	p.R38C	WNT2B_uc001eca.2_Intron|WNT2B_uc009wgg.2_Intron	NM_024494	NP_078613	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family,	38					chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity			ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGCTTCGGCCCGCCTAGGTCT	0.736													3	15					0	0	0.000602	0	0		T	113051996	T	T	113051996	3	4	20	1	0	0	0	0	1	0	0	0	17413	652	23	1	247	1	WNT2B	1	113051996	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1193979	113051996	136198625	88	16810											
LRIG2	9860	broad.mit.edu	37	chr1	113653186	113653186	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaaactgactgtaaatggTaaggaattatgctccttgat	13	12	9	7	0	0	2	0	2	0	0	1	3	1	3	2	2	2	3	2	2	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:113653186T>C	uc001edf.1	+	13	1996	c.1798_splice	c.e13+2	p.E600_splice	LRIG2_uc009wgn.1_Splice_Site_p.E497_splice	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like							cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		CTGTAAATGGTAAGGAATTAT	0.299													11	54					0	0	0.008291	0	0		C	113653186	C	C	113653186	5	2	20	1	0	0	0	0	0	0	1	0	8963	1652	57	3	1850	3	LRIG2	1	113653186	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	601190	113653186	135597435	89	16811											
PTPN22	26191	broad.mit.edu	37	chr1	114380688	114380688	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggagttgatttggtccgtGttattggcacctttgaatta	9	16	11	5	1	0	2	0	2	0	0	1	3	1	3	2	3	0	3	2	3	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:114380688G>C	uc001eds.2	-	13	1464	c.1334C>G	c.(1333-1335)ACA>AGA	p.T445R	PTPN22_uc009wgq.2_Missense_Mutation_p.T390R|PTPN22_uc010owo.1_Missense_Mutation_p.T201R|PTPN22_uc001edt.2_Intron|PTPN22_uc009wgr.2_Missense_Mutation_p.T445R|PTPN22_uc009wgs.2_Missense_Mutation_p.T318R|PTPN22_uc001edu.2_Missense_Mutation_p.T445R	NM_015967	NP_057051	Q9Y2R2	PTN22_HUMAN	protein tyrosine phosphatase, non-receptor type	445					negative regulation of T cell activation|negative regulation of T cell receptor signaling pathway|phosphoanandamide dephosphorylation|regulation of B cell receptor signaling pathway|regulation of natural killer cell proliferation|T cell differentiation	internal side of plasma membrane|nucleus|perinuclear region of cytoplasm	kinase binding|protein tyrosine phosphatase activity|SH3 domain binding			kidney(2)|lung(1)|skin(1)	4	Lung SC(450;0.184)	all_cancers(81;1.93e-08)|all_epithelial(167;4.37e-08)|all_lung(203;5.22e-06)|Lung NSC(69;8.94e-06)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTTGGTCCGTGTTATTGGCAC	0.378													42	117					0	0	0.00874	0	0		C	114380688	C	C	114380688	3	2	20	1	0	0	0	0	1	0	0	0	12812	1377	48	5	1148	5	PTPN22	1	114380688	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	727502	114380688	134869933	90	16812											
TRIM33	51592	broad.mit.edu	37	chr1	114952816	114952816	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgctttacctgatgatccCggagaaagggcagagggacc	10	9	13	9	1	0	4	0	2	0	2	1	6	1	5	3	3	2	2	3	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:114952816C>A	uc001eew.2	-	12	2268	c.2184G>T	c.(2182-2184)CCG>CCT	p.P728P	TRIM33_uc010owr.1_Silent_p.P342P|TRIM33_uc010ows.1_Silent_p.P360P|TRIM33_uc001eex.2_Silent_p.P728P	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	728					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTGATGATCCCGGAGAAAGGG	0.363			T	RET	papillary thyroid								28	123					1.08312e-15	1.15136e-15	0.009535	1	0		A	114952816	A	A	114952816	2	1	20	1	0	0	0	0	0	0	0	1	16533	639	23	5		5	TRIM33	1	114952816	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	572128	114952816	134297805	91	16813											
ATP1A1	476	broad.mit.edu	37	chr1	116946596	116946596	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcaggcgacgccctggCggtaattatgggcattctga	9	10	12	10	3	3	1	2	1	1	0	3	2	3	1	1	4	0	2	1	4	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:116946596C>T	uc001ege.2	+	22	3381	c.3042C>T	c.(3040-3042)GGC>GGT	p.G1014G	ATP1A1_uc010owv.1_Silent_p.G983G|ATP1A1_uc010oww.1_Silent_p.G1014G|ATP1A1_uc010owx.1_Silent_p.G983G|C1orf203_uc009whb.2_Intron|C1orf203_uc001egg.3_Intron|ATP1A1_uc001egh.2_Silent_p.G156G	NM_000701	NP_000692	P05023	AT1A1_HUMAN	Na+/K+ -ATPase alpha 1 subunit isoform a	1014	Cytoplasmic (Potential).				ATP biosynthetic process	melanosome|sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Captopril(DB01197)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Esomeprazole(DB00736)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Ouabain(DB01092)|Pantoprazole(DB00213)|Trichlormethiazide(DB01021)	GACGCCCTGGCGGTAATTATG	0.493													29	114					0	0	0.007291	0	0		T	116946596	T	T	116946596	2	4	20	1	0	0	0	0	0	0	0	1	1129	782	27	1		1	ATP1A1	1	116946596	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1993780	116946596	132304025	92	16814											
PTGFRN	5738	broad.mit.edu	37	chr1	117484558	117484558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagcggctgcagaggggcGagatcctgttaaggcggact	9	6	18	8	3	0	2	0	0	0	2	1	5	1	4	1	6	2	3	1	6	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:117484558G>A	uc001egv.1	+	2	408	c.271G>A	c.(271-273)GAG>AAG	p.E91K		NM_020440	NP_065173	Q9P2B2	FPRP_HUMAN	prostaglandin F2 receptor negative regulator	91	Extracellular (Potential).|Ig-like C2-type 1.					endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	protein binding			liver(1)	1	Lung SC(450;0.225)	all_cancers(81;0.00104)|all_lung(203;8.97e-05)|all_epithelial(167;0.000139)|Lung NSC(69;0.000446)		Lung(183;0.0704)|LUSC - Lung squamous cell carcinoma(189;0.227)|Colorectal(144;0.248)		GCAGAGGGGCGAGATCCTGTT	0.592													10	27					0	0	0.00245	0	0		A	117484558	A	A	117484558	3	1	20	1	0	0	0	0	1	0	0	0	12773	1059	37	1	277	1	PTGFRN	1	117484558	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	537962	117484558	131766063	93	16815											
GDAP2	54834	broad.mit.edu	37	chr1	118455209	118455209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaactctcagctgctgtgCgatagcggcttttatattta	8	14	11	8	2	1	0	1	0	1	0	2	2	1	1	0	2	5	3	0	2	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:118455209C>T	uc001ehf.2	-	4	712	c.413G>A	c.(412-414)CGC>CAC	p.R138H	GDAP2_uc001ehg.2_Missense_Mutation_p.R138H	NM_017686	NP_060156	Q9NXN4	GDAP2_HUMAN	ganglioside induced differentiation associated	138	Macro.									ovary(2)	2		all_cancers(81;0.0156)|all_lung(203;5.81e-05)|Lung NSC(69;0.000446)|all_epithelial(167;0.00295)		Lung(183;0.0583)|LUSC - Lung squamous cell carcinoma(189;0.194)		AGCTGCTGTGCGATAGCGGCT	0.428													37	74					0	0	0.006999	0	0		T	118455209	T	T	118455209	3	4	20	1	0	0	0	0	1	0	0	0	6324	768	27	1	1169	1	GDAP2	1	118455209	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	970651	118455209	130795412	94	16816											
WARS2	10352	broad.mit.edu	37	chr1	119575812	119575812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgttggacacgccagcgcGgccagccgggtcataggtga	8	7	15	11	4	1	1	1	1	0	0	1	2	1	2	3	4	2	1	3	4	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:119575812G>A	uc001ehn.2	-	6	833	c.805C>T	c.(805-807)CGC>TGC	p.R269C	WARS2_uc010oxf.1_Missense_Mutation_p.R175C|WARS2_uc001ehm.2_3'UTR|WARS2_uc010oxg.1_Missense_Mutation_p.R212C|WARS2_uc010oxh.1_3'UTR	NM_015836	NP_056651	Q9UGM6	SYWM_HUMAN	mitochondrial tryptophanyl tRNA synthetase 2	269					tryptophanyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|tryptophan-tRNA ligase activity	p.R269C(1)			0	all_neural(166;0.187)	all_lung(203;2.48e-06)|Lung NSC(69;1.74e-05)|all_epithelial(167;0.000564)		Lung(183;0.0629)	L-Tryptophan(DB00150)	ACGCCAGCGCGGCCAGCCGGG	0.632													26	51					0	0	0.003755	0	0		A	119575812	A	A	119575812	3	1	20	1	0	0	0	0	1	0	0	0	17276	1116	39	1	281	1	WARS2	1	119575812	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1120603	119575812	129674809	95	16817											
PDE4DIP	9659	broad.mit.edu	37	chr1	144918931	144918931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttcagcctcccaggcacGaagctgttggctcttattct	6	15	8	12	1	3	0	1	0	2	0	4	1	4	0	2	2	2	4	2	2	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:144918931G>A	uc001elw.3	-	10	1546	c.1255C>T	c.(1255-1257)CGT>TGT	p.R419C	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R485C|PDE4DIP_uc001emc.1_Missense_Mutation_p.R419C|PDE4DIP_uc001emd.1_Missense_Mutation_p.R419C|PDE4DIP_uc001emb.1_Missense_Mutation_p.R582C|PDE4DIP_uc001eme.1_5'UTR|PDE4DIP_uc001emf.1_Missense_Mutation_p.R206C	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	419	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TCCCAGGCACGAAGCTGTTGG	0.408			T	PDGFRB	MPD								21	861					0	0	0.012319	0	0		A	144918931	A	A	144918931	3	1	20	1	0	0	0	0	1	0	0	0	11662	1058	37	1	5935	1	PDE4DIP	1	144918931	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	25343119	144918931	104331690	96	16818											
BCL9	607	broad.mit.edu	37	chr1	147084979	147084979	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagatcctgggactccaaaCgatgactctgacattaaagg	14	8	10	9	1	1	3	0	2	1	1	3	6	3	4	2	2	1	0	2	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:147084979C>T	uc001epq.2	+	5	1091	c.351C>T	c.(349-351)AAC>AAT	p.N117N	BCL9_uc010ozr.1_Intron	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	117					Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					GGACTCCAAACGATGACTCTG	0.507			T	IGH@|IGL@	B-ALL								23	47					0	0	0.014323	0	0		T	147084979	T	T	147084979	2	4	20	1	0	0	0	0	0	0	0	1	1382	535	19	1		1	BCL9	1	147084979	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2166048	147084979	102165642	97	16819											
BCL9	607	broad.mit.edu	37	chr1	147086415	147086415	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctactgagatggccaataAgtaagttgatggctgtgtct	10	14	11	6	0	2	2	0	2	2	1	2	3	2	2	1	2	1	3	1	2	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:147086415A>G	uc001epq.2	+	6	1300	c.560A>G	c.(559-561)AAA>AGA	p.K187R	BCL9_uc010ozr.1_Missense_Mutation_p.K113R	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	187					Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					ATGGCCAATAAGTAAGTTGAT	0.468			T	IGH@|IGL@	B-ALL								7	40					0	0	0.00308	0	0		G	147086415	G	G	147086415	3	3	20	1	0	0	0	0	1	0	0	0	1382	86	3	3	570	3	BCL9	1	147086415	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1436	147086415	102164206	98	16820											
ZNF687	57592	broad.mit.edu	37	chr1	151263312	151263312	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggccatggccctctgcgctAccggagcagcagctccacag	8	5	12	16	2	1	0	0	0	1	0	2	1	2	1	4	3	5	4	4	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:151263312A>G	uc001exq.2	+	9	3439	c.3341A>G	c.(3340-3342)TAC>TGC	p.Y1114C	ZNF687_uc009wmo.2_Missense_Mutation_p.Y1114C|ZNF687_uc009wmp.2_3'UTR	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	1114					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CCTCTGCGCTACCGGAGCAGC	0.632													5	67					0	0	0.001168	0	0		G	151263312	G	G	151263312	3	3	20	1	0	0	0	0	1	0	0	0	18117	391	14	3	3371	3	ZNF687	1	151263312	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	4176897	151263312	97987309	99	16821											
HRNR	388697	broad.mit.edu	37	chr1	152192330	152192330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaccgtagccagaggactgtCctgagcgagactcttggtga	9	8	14	10	2	1	4	0	2	1	2	2	7	2	5	3	2	2	1	3	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:152192330C>T	uc001ezt.1	-	3	1851	c.1775G>A	c.(1774-1776)GGA>GAA	p.G592E		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	592					keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGAGGACTGTCCTGAGCGAGA	0.567													66	339					0	0	0.01441	0	0		T	152192330	T	T	152192330	3	4	20	1	0	0	0	0	1	0	0	0	7375	855	30	4	6781	4	HRNR	1	152192330	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	929018	152192330	97058291	100	16822											
FLG	2312	broad.mit.edu	37	chr1	152283080	152283080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttcccctgactggccacGtgcggactctttgtggctct	3	13	11	14	2	2	1	0	1	2	0	3	2	3	2	3	3	1	2	3	3	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:152283080G>A	uc001ezu.1	-	3	4318	c.4282C>T	c.(4282-4284)CGT>TGT	p.R1428C	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1428	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GACTGGCCACGTGCGGACTCT	0.562									Ichthyosis				91	229					0	0	0.01441	0	0		A	152283080	A	A	152283080	3	1	20	1	0	0	0	0	1	0	0	0	5936	1145	40	1	7907	1	FLG	1	152283080	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	90750	152283080	96967541	101	16823											
FLG2	388698	broad.mit.edu	37	chr1	152328128	152328128	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagatgtctgtcctgaacTtgacccatgttgaccatagc	9	12	8	12	0	1	4	0	3	1	1	3	4	3	4	4	0	2	1	4	0	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:152328128T>C	uc001ezw.3	-	3	2207	c.2134A>G	c.(2134-2136)AGT>GGT	p.S712G	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	712	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTCCTGAACTTGACCCATGT	0.478													85	425					0	0	0.01441	0	0		C	152328128	C	C	152328128	3	2	20	1	0	0	0	0	1	0	0	0	5937	1609	56	3	5045	3	FLG2	1	152328128	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	45048	152328128	96922493	102	16824											
FLG2	388698	broad.mit.edu	37	chr1	152329376	152329376	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctatgtgactgacaagaacTtgaagcattttgtggccttc	10	14	9	8	0	1	4	0	3	1	1	2	4	1	4	1	1	2	1	1	1	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:152329376T>G	uc001ezw.3	-	3	959	c.886A>C	c.(886-888)AGT>CGT	p.S296R	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	296	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGACAAGAACTTGAAGCATTT	0.473													72	305					0	0	0.01441	0	0		G	152329376	G	G	152329376	3	3	20	1	0	0	0	0	1	0	0	0	5937	1609	56	5	6293	5	FLG2	1	152329376	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1248	152329376	96921245	103	16825											
LCE1E	353135	broad.mit.edu	37	chr1	152759779	152759779	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtacctactgccgagatgTcctgccagcagagccagcag	11	6	11	13	1	0	2	0	0	0	2	1	3	1	2	5	0	7	3	5	0	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:152759779T>G	uc001fan.2	+	2	57	c.4T>G	c.(4-6)TCC>GCC	p.S2A		NM_178353	NP_848130	Q5T753	LCE1E_HUMAN	late cornified envelope 1E	2					keratinization						0	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGCCGAGATGTCCTGCCAGCA	0.488													49	174					0	0	0.01441	0	0		G	152759779	G	G	152759779	3	3	20	1	0	0	0	0	1	0	0	0	8679	1667	58	5	6	5	LCE1E	1	152759779	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	430403	152759779	96490842	104	16826											
C1orf77	26097	broad.mit.edu	37	chr1	153617558	153617558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtcggggtatgataggtcGgggaagagggggctttggag	8	8	22	3	2	0	2	0	1	0	1	2	4	0	4	0	9	0	2	0	9	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:153617558G>A	uc001fcm.1	+	6	872	c.560G>A	c.(559-561)CGG>CAG	p.R187Q	C1orf77_uc001fcn.1_Missense_Mutation_p.R188Q|C1orf77_uc001fco.1_Missense_Mutation_p.R162Q|C1orf77_uc001fcp.2_RNA	NM_015607	NP_056422	Q9Y3Y2	CHTOP_HUMAN	small protein rich in arginine and glycine	187	Arg/Gly-rich.|Interaction with PRMT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	protein binding|RNA binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			ATGATAGGTCGGGGAAGAGGG	0.527													23	82					0	0	0.003954	0	0		A	153617558	A	A	153617558	3	1	20	1	0	0	0	0	1	0	0	0	2062	1116	39	1	578	1	C1orf77	1	153617558	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	857779	153617558	95633063	105	16827											
DENND4B	9909	broad.mit.edu	37	chr1	153914361	153914361	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacgcttccaagggtaggcGgtgggggcctgagacggagt	7	7	18	9	3	1	1	1	1	0	1	2	3	2	2	2	6	0	2	2	6	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:153914361G>A	uc001fdd.1	-	6	1440	c.1039C>T	c.(1039-1041)CGC>TGC	p.R347C		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	347	DENN.									ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			AAGGGTAGGCGGTGGGGGCCT	0.632													12	34					0	0	0.00245	0	0		A	153914361	A	A	153914361	3	1	20	1	0	0	0	0	1	0	0	0	4440	1116	39	1	3543	1	DENND4B	1	153914361	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	296803	153914361	95336260	106	16828											
CRTC2	200186	broad.mit.edu	37	chr1	153920984	153920984	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcgggaacagtgggtcaagTtctggtggttgaaggtgtgg	7	10	20	4	1	2	1	1	1	1	0	2	2	2	2	0	7	1	2	0	7	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:153920984T>G	uc010ped.1	-	13	1881	c.1811A>C	c.(1810-1812)AAC>ACC	p.N604T	DENND4B_uc001fdd.1_5'Flank|CRTC2_uc001fde.3_RNA|CRTC2_uc001fdf.3_Missense_Mutation_p.N140T	NM_181715	NP_859066	Q53ET0	CRTC2_HUMAN	CREB regulated transcription coactivator 2	604					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)	2	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GTGGGTCAAGTTCTGGTGGTT	0.577													19	44					0	0	0.008871	0	0		G	153920984	G	G	153920984	3	3	20	1	0	0	0	0	1	0	0	0	3903	1725	60	5	278	5	CRTC2	1	153920984	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	6623	153920984	95329637	107	16829											
AQP10	89872	broad.mit.edu	37	chr1	154294498	154294498	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctggctggctctctggcCgttacgatagccatctacgt	5	14	10	12	3	3	0	0	0	3	0	4	1	3	0	2	3	3	3	2	3	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:154294498C>T	uc001feu.2	+	2	235	c.195C>T	c.(193-195)GCC>GCT	p.A65A	AQP10_uc001fev.2_Silent_p.A65A	NM_080429	NP_536354	Q96PS8	AQP10_HUMAN	aquaporin 10	65	Helical; (Potential).				response to toxin|transmembrane transport|water transport	integral to membrane|plasma membrane	transporter activity			central_nervous_system(1)	1	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GCTCTCTGGCCGTTACGATAG	0.552													9	26					0	0	0.006122	0	0		T	154294498	T	T	154294498	2	4	20	1	0	0	0	0	0	0	0	1	822	639	23	1		1	AQP10	1	154294498	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	373514	154294498	94956123	108	16830											
ADAR	103	broad.mit.edu	37	chr1	154562368	154562368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccggtggctcagcatggCtatctggtcatggaaggtgc	7	9	15	10	1	3	0	2	0	1	0	3	1	3	1	1	6	2	4	1	6	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:154562368C>T	uc001ffh.2	-	8	2733	c.2533G>A	c.(2533-2535)GCC>ACC	p.A845T	ADAR_uc001ffj.2_Missense_Mutation_p.A800T|ADAR_uc001ffi.2_Missense_Mutation_p.A819T|ADAR_uc001ffk.2_Missense_Mutation_p.A550T	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	845					adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		CTCAGCATGGCTATCTGGTCA	0.547													3	31					0	0	0.004672	0	0		T	154562368	T	T	154562368	3	4	20	1	0	0	0	0	1	0	0	0	281	797	28	2	1179	2	ADAR	1	154562368	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	267870	154562368	94688253	109	16831											
ZBTB7B	51043	broad.mit.edu	37	chr1	154987252	154987252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctatgtgacctcaccatccGgacgcagggccttgaatacc	9	8	9	15	2	1	2	1	2	0	0	2	3	2	3	6	2	1	1	6	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:154987252G>A	uc001fgk.3	+	3	274	c.116G>A	c.(115-117)CGG>CAG	p.R39Q	ZBTB7B_uc009wpa.2_Missense_Mutation_p.R39Q|ZBTB7B_uc001fgj.3_Missense_Mutation_p.R73Q|ZBTB7B_uc010peq.1_Missense_Mutation_p.R73Q|ZBTB7B_uc001fgl.3_Missense_Mutation_p.R39Q	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	39	BTB.				cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CTCACCATCCGGACGCAGGGC	0.592													30	101					0	0	0.003271	0	0		A	154987252	A	A	154987252	3	1	20	1	0	0	0	0	1	0	0	0	17579	1116	39	1	118	1	ZBTB7B	1	154987252	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	424884	154987252	94263369	110	16832											
DCST2	127579	broad.mit.edu	37	chr1	154998843	154998843	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggctgacatagctgccaaAcagggtgatgaagaagcata	14	6	12	9	1	0	4	0	3	0	1	0	4	0	4	2	2	4	3	2	2	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:154998843A>T	uc001fgm.2	-	10	1626	c.1546T>A	c.(1546-1548)TTT>ATT	p.F516I	DCST2_uc009wpb.2_RNA	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	516	Helical; (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TAGCTGCCAAACAGGGTGATG	0.647													5	86					0	0	0.004482	0	0		T	154998843	T	T	154998843	3	4	20	1	0	0	0	0	1	0	0	0	4306	43	2	5	799	5	DCST2	1	154998843	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	11591	154998843	94251778	111	16833											
TRIM46	80128	broad.mit.edu	37	chr1	155152138	155152138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccgtcattgacacccagcGcacctttgcctatgatcaga	9	9	7	16	2	2	3	2	2	0	1	2	3	2	3	5	0	2	1	5	0	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:155152138G>A	uc001fhs.1	+	8	1399	c.1316G>A	c.(1315-1317)CGC>CAC	p.R439H	RAG1AP1_uc010pey.1_Intron|TRIM46_uc009wpe.1_RNA|TRIM46_uc001fhq.2_RNA|TRIM46_uc001fhr.2_Missense_Mutation_p.R439H|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_Missense_Mutation_p.R313H|TRIM46_uc001fhu.1_Missense_Mutation_p.R416H|TRIM46_uc009wpg.1_Missense_Mutation_p.R426H|TRIM46_uc001fhv.3_Missense_Mutation_p.R426H|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	439	Fibronectin type-III.					intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GACACCCAGCGCACCTTTGCC	0.637													7	29					0	0	0.006214	0	0		A	155152138	A	A	155152138	3	1	20	1	0	0	0	0	1	0	0	0	16547	1087	38	1	1346	1	TRIM46	1	155152138	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	153295	155152138	94098483	112	16834											
RUSC1	23623	broad.mit.edu	37	chr1	155300265	155300265	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccggcgtggggaagtgcTgcgtgtcatcaccacagtgg	6	9	15	11	3	2	0	2	0	0	0	3	1	3	1	2	4	2	1	2	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:155300265T>C	uc001fkj.2	+	10	2841	c.2612T>C	c.(2611-2613)CTG>CCG	p.L871P	RAG1AP1_uc010pey.1_Intron|RUSC1_uc001fkk.2_Missense_Mutation_p.L765P|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_Missense_Mutation_p.L402P|RUSC1_uc001fkl.2_Missense_Mutation_p.L461P|RUSC1_uc001fkp.2_Missense_Mutation_p.L402P|RUSC1_uc001fkq.2_Missense_Mutation_p.L296P|RUSC1_uc010pgb.1_Missense_Mutation_p.L369P|RUSC1_uc009wqp.1_Missense_Mutation_p.L396P|RUSC1_uc001fkn.2_Missense_Mutation_p.L180P|RUSC1_uc001fko.2_RNA|RUSC1_uc001fkr.2_Missense_Mutation_p.L402P|RUSC1_uc001fks.2_Missense_Mutation_p.L138P	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	871	SH3.					cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			GGGGAAGTGCTGCGTGTCATC	0.612													11	34					0	0	0.001855	0	0		C	155300265	C	C	155300265	3	2	20	1	0	0	0	0	1	0	0	0	13775	1580	55	3	2777	3	RUSC1	1	155300265	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	148127	155300265	93950356	113	16835											
DAP3	7818	broad.mit.edu	37	chr1	155707980	155707980	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagggaaaaaagagctgctgTtcctaagtaacgcgaacccc	15	6	10	10	2	0	1	0	0	0	1	1	3	1	2	3	1	4	4	3	1	7	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:155707980T>C	uc001flq.2	+	13	1313	c.1144T>C	c.(1144-1146)TTC>CTC	p.F382L	DAP3_uc001flr.2_Missense_Mutation_p.F382L|DAP3_uc001fls.2_Missense_Mutation_p.F382L|DAP3_uc010pgl.1_Missense_Mutation_p.F341L|DAP3_uc001flt.2_Missense_Mutation_p.F348L|DAP3_uc001flu.2_Missense_Mutation_p.F355L|DAP3_uc010pgm.1_Missense_Mutation_p.F348L	NM_033657	NP_387506	P51398	RT29_HUMAN	death-associated protein 3	382					induction of apoptosis by extracellular signals	mitochondrial ribosome|nucleolus|small ribosomal subunit	protein binding			ovary(1)	1	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					AGAGCTGCTGTTCCTAAGTAA	0.502													12	36					0	0	0.013537	0	0		C	155707980	C	C	155707980	3	2	20	1	0	0	0	0	1	0	0	0	4237	1725	60	3	1190	3	DAP3	1	155707980	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	407715	155707980	93542641	114	16836											
KIAA0907	22889	broad.mit.edu	37	chr1	155896943	155896943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacatgaagatataatggacGatccctataaagagaaacaa	21	7	7	6	1	0	3	0	1	0	2	1	6	1	4	1	1	2	0	1	1	9	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:155896943G>A	uc001fmi.1	-	5	493	c.469C>T	c.(469-471)CGT>TGT	p.R157C	KIAA0907_uc001fmj.1_Missense_Mutation_p.R157C|KIAA0907_uc009wrk.1_Intron|KIAA0907_uc009wrl.1_RNA|KIAA0907_uc001fml.1_Missense_Mutation_p.R157C|KIAA0907_uc001fmm.2_Missense_Mutation_p.R157C|SCARNA4_uc001fmn.1_5'Flank|KIAA0907_uc001fmo.2_Missense_Mutation_p.R157C	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	157											0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			TATAATGGACGATCCCTATAA	0.378													26	49					0	0	0.003954	0	0		A	155896943	A	A	155896943	3	1	20	1	0	0	0	0	1	0	0	0	8215	1058	37	1	1415	1	KIAA0907	1	155896943	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	188963	155896943	93353678	115	16837											
MEX3A	92312	broad.mit.edu	37	chr1	156046519	156046519	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgctctcaaagcagaccAtgcaatcccgcccgccgccg	8	6	8	19	5	1	1	1	0	1	1	4	1	2	1	5	0	2	3	5	0	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:156046519A>G	uc001fnd.3	-	2	1409	c.1409T>C	c.(1408-1410)ATG>ACG	p.M470T		NM_001093725	NP_001087194	A1L020	MEX3A_HUMAN	MEX3A protein	470	RING-type.					cytoplasmic mRNA processing body|nucleus	RNA binding|zinc ion binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					AAAGCAGACCATGCAATCCCG	0.677													3	13					0	0	0.004672	0	0		G	156046519	G	G	156046519	3	3	20	1	0	0	0	0	1	0	0	0	9527	217	8	3	157	3	MEX3A	1	156046519	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	149576	156046519	93204102	116	16838											
APOA1BP	128240	broad.mit.edu	37	chr1	156562003	156562003	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctacagccatcgccaaggTcagtggcacaactctcgacc	10	7	9	15	2	2	0	1	0	1	0	4	1	2	0	3	2	4	2	3	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:156562003T>G	uc001fph.2	+	2	330	c.291_splice	c.e2+2	p.K97_splice	APOA1BP_uc001fpg.2_Splice_Site_p.K97_splice|APOA1BP_uc001fpi.2_Splice_Site_p.K97_splice|APOA1BP_uc001fpj.2_Splice_Site_p.K14_splice|APOA1BP_uc001fpk.2_5'UTR|APOA1BP_uc010php.1_5'UTR	NM_144772	NP_658985	Q8NCW5	AIBP_HUMAN	apolipoprotein A-I binding protein precursor							extracellular region	protein binding			central_nervous_system(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					ATCGCCAAGGTCAGTGGCACA	0.602													6	63					0	0	0.001984	0	0		G	156562003	G	G	156562003	5	3	20	1	0	0	0	0	0	0	1	0	781	1681	58	5	299	5	APOA1BP	1	156562003	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	515484	156562003	92688618	117	16839											
FCER1A	2205	broad.mit.edu	37	chr1	159277558	159277558	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgcgtgagaagtactggCtacaattttttatcccattg	9	14	8	10	2	0	1	0	1	0	1	2	2	2	1	2	1	2	2	2	1	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:159277558C>T	uc001ftq.2	+	6	709	c.610C>T	c.(610-612)CTA>TTA	p.L204L		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	204	Extracellular (Potential).					integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	GAAGTACTGGCTACAATTTTT	0.408													47	93					0	0	0.01441	0	0		T	159277558	T	T	159277558	2	4	20	1	0	0	0	0	0	0	0	1	5788	796	28	2		2	FCER1A	1	159277558	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2715555	159277558	89973063	118	16840											
PIGM	93183	broad.mit.edu	37	chr1	160000905	160000905	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaacaagcctggaaagtgtAccggaattgacggaggcttt	13	8	12	8	2	0	1	0	1	0	0	0	4	0	4	2	4	3	2	2	4	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:160000905A>G	uc001fuv.1	-	1	879	c.625T>C	c.(625-627)TAC>CAC	p.Y209H		NM_145167	NP_660150	Q9H3S5	PIGM_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	209	Cytoplasmic (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TGGAAAGTGTACCGGAATTGA	0.498													8	161					0	0	0.004482	0	0		G	160000905	G	G	160000905	3	3	20	1	0	0	0	0	1	0	0	0	11911	391	14	3	650	3	PIGM	1	160000905	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	723347	160000905	89249716	119	16841											
KCNJ10	3766	broad.mit.edu	37	chr1	160012141	160012141	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgtagcgccactgcatgTcaatgaaggttgtccacagg	9	10	12	10	1	1	1	1	1	0	0	2	1	2	1	2	2	2	4	2	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:160012141T>C	uc001fuw.1	-	2	332	c.182A>G	c.(181-183)GAC>GGC	p.D61G		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	61	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CCACTGCATGTCAATGAAGGT	0.542													37	117					0	0	0.009718	0	0		C	160012141	C	C	160012141	3	2	20	1	0	0	0	0	1	0	0	0	8060	1667	58	3	961	3	KCNJ10	1	160012141	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	11236	160012141	89238480	120	16842											
ATP1A2	477	broad.mit.edu	37	chr1	160098475	160098475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagccaagcgcatggcaCggaagaactgcctggtgaag	12	5	14	10	2	0	3	0	2	0	1	0	4	0	4	2	3	4	2	2	3	4	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:160098475C>T	uc001fvc.2	+	9	1183	c.1051C>T	c.(1051-1053)CGG>TGG	p.R351W	ATP1A2_uc001fvb.2_Missense_Mutation_p.R351W|ATP1A2_uc010piz.1_Missense_Mutation_p.R196W|ATP1A2_uc001fvd.2_Missense_Mutation_p.R87W|ATP1A2_uc009wtg.1_Missense_Mutation_p.R39W	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	351	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GCGCATGGCACGGAAGAACTG	0.572													39	87					0	0	0.01441	0	0		T	160098475	T	T	160098475	3	4	20	1	0	0	0	0	1	0	0	0	1130	527	19	1	1085	1	ATP1A2	1	160098475	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	86334	160098475	89152146	121	16843											
NCSTN	23385	broad.mit.edu	37	chr1	160326990	160326990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actctacatggactgagagcCgctggaaagatatccgtgcc	11	8	11	11	2	1	2	0	1	1	2	2	5	2	4	3	2	3	1	3	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:160326990C>T	uc001fvx.2	+	16	2078	c.1954C>T	c.(1954-1956)CGC>TGC	p.R652C	NCSTN_uc001fvy.2_Missense_Mutation_p.R632C|NCSTN_uc010pjf.1_Missense_Mutation_p.R514C|NCSTN_uc001fvz.2_Missense_Mutation_p.R432C|NCSTN_uc010pjg.1_Missense_Mutation_p.R394C	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	652	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GACTGAGAGCCGCTGGAAAGA	0.532													9	30					0	0	0.008291	0	0		T	160326990	T	T	160326990	3	4	20	1	0	0	0	0	1	0	0	0	10260	652	23	1	2016	1	NCSTN	1	160326990	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	228515	160326990	88923631	122	16844											
FAM78B	149297	broad.mit.edu	37	chr1	166039840	166039840	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatgtcacactggggtagaAgttgtcattcatgctgacgg	9	11	12	9	1	3	2	3	1	0	1	3	2	3	2	1	3	1	3	1	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:166039840A>C	uc001gdr.2	-	3	1014	c.424T>G	c.(424-426)TTC>GTC	p.F142V	FAM78B_uc010plc.1_RNA|FAM78B_uc001gdq.2_5'Flank	NM_001017961	NP_001017961	Q5VT40	FA78B_HUMAN	hypothetical protein LOC149297	142										central_nervous_system(1)|skin(1)	2	all_hematologic(923;0.0813)|Acute lymphoblastic leukemia(8;0.155)					CTGGGGTAGAAGTTGTCATTC	0.542													5	180					0	0	0.000602	0	0		C	166039840	C	C	166039840	3	2	20	1	0	0	0	0	1	0	0	0	5641	72	3	5	365	5	FAM78B	1	166039840	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	5712850	166039840	83210781	123	16845											
DUSP27	92235	broad.mit.edu	37	chr1	167095702	167095702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctgggagagcgtgagcaGccacgacatctgggtcctga	8	6	15	12	3	1	3	0	2	1	1	2	5	2	3	3	2	3	1	3	2	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:167095702G>A	uc001geb.1	+	5	1334	c.1334G>A	c.(1333-1335)AGC>AAC	p.S445N		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	445					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						AGCGTGAGCAGCCACGACATC	0.612													3	4					0	0	0.000602	0	0		A	167095702	A	A	167095702	3	1	20	1	0	0	0	0	1	0	0	0	4830	971	34	2	1352	2	DUSP27	1	167095702	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1055862	167095702	82154919	124	16846											
CD247	919	broad.mit.edu	37	chr1	167408619	167408619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgctggtacgcgggggCgtctgcgctcctgctgaact	3	9	15	14	4	1	1	0	1	1	0	2	1	2	1	2	3	5	4	2	3	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:167408619C>T	uc001gei.3	-	3	326	c.181G>A	c.(181-183)GCC>ACC	p.A61T	CD247_uc001gej.3_Missense_Mutation_p.A61T|CD247_uc001gek.2_Missense_Mutation_p.A61T	NM_198053	NP_932170	P20963	CD3Z_HUMAN	T-cell receptor zeta chain isoform 1 precursor	61	Cytoplasmic (Potential).|ITAM 1.			DA -> EP (in Ref. 1; AAA60394).	interspecies interaction between organisms|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytoplasm|integral to membrane	protein homodimerization activity|transmembrane receptor activity				0			LUSC - Lung squamous cell carcinoma(543;0.236)			TACGCGGGGGCGTCTGCGCTC	0.672													24	69					0	0	0.00333	0	0		T	167408619	T	T	167408619	3	4	20	1	0	0	0	0	1	0	0	0	2991	768	27	1	337	1	CD247	1	167408619	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	312917	167408619	81842002	125	16847											
FMO3	2328	broad.mit.edu	37	chr1	171086310	171086310	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aactctcctccttcattgggGcaaagcccaacatcccatgg	10	9	7	15	0	2	0	1	0	1	0	5	0	4	0	4	3	3	1	4	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:171086310G>A	uc001ghi.2	+	9	1438	c.1327G>A	c.(1327-1329)GCA>ACA	p.A443T	FMO3_uc001ghh.2_Missense_Mutation_p.A443T|FMO3_uc010pmb.1_Missense_Mutation_p.A423T|FMO3_uc010pmc.1_Missense_Mutation_p.A380T	NM_001002294	NP_001002294	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	443					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CTTCATTGGGGCAAAGCCCAA	0.483													4	108					0	0	0.009096	0	0		A	171086310	A	A	171086310	3	1	20	1	0	0	0	0	1	0	0	0	5970	1203	42	2	1357	2	FMO3	1	171086310	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3677691	171086310	78164311	126	16848											
QSOX1	5768	broad.mit.edu	37	chr1	180153144	180153144	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacagttgcaccaaccacTgctaacaagatagctcccac	14	6	5	16	0	0	1	0	0	0	1	1	1	1	1	4	0	5	4	4	0	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:180153144T>A	uc001gnz.2	+	7	921	c.846T>A	c.(844-846)ACT>ACA	p.T282T	QSOX1_uc001gny.2_Silent_p.T282T|QSOX1_uc001goa.2_Silent_p.T282T	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	282					cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						CACCAACCACTGCTAACAAGA	0.537													5	293					0	0	0.000602	0	0		A	180153144	A	A	180153144	2	1	20	1	0	0	0	0	0	0	0	1	12908	1567	55	5		5	QSOX1	1	180153144	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	9066834	180153144	69097477	127	16849											
NCF2	4688	broad.mit.edu	37	chr1	183534900	183534900	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagctgggatgtcggactgCggagagctttcctcctgaag	7	9	16	9	2	0	2	0	1	0	1	3	6	2	5	2	4	3	2	2	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:183534900C>T	uc001gqj.3	-	10	1214	c.939G>A	c.(937-939)CCG>CCA	p.P313P	NCF2_uc010pod.1_Silent_p.P268P|NCF2_uc010poe.1_Silent_p.P232P|NCF2_uc001gqk.3_Silent_p.P313P	NM_000433	NP_000424	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	313					cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3						TGTCGGACTGCGGAGAGCTTT	0.597													6	105					0	0	0.001168	0	0		T	183534900	T	T	183534900	2	4	20	1	0	0	0	0	0	0	0	1	10236	755	27	1		1	NCF2	1	183534900	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3381756	183534900	65715721	128	16850											
APOBEC4	403314	broad.mit.edu	37	chr1	183616870	183616870	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttgctacttgcaaactgTtctgtgatttccactatctc	7	17	5	12	0	2	1	0	1	2	0	5	1	4	1	2	0	4	3	2	0	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:183616870T>C	uc001gqn.2	-	2	1319	c.1047A>G	c.(1045-1047)GAA>GAG	p.E349E	RGL1_uc010pof.1_Intron|RGL1_uc001gqm.2_Intron|RGL1_uc010pog.1_Intron|RGL1_uc010poh.1_Intron	NM_203454	NP_982279	Q8WW27	ABEC4_HUMAN	apolipoprotein B	349					mRNA processing		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0						TTGCAAACTGTTCTGTGATTT	0.418													6	317					0	0	0.001168	0	0		C	183616870	C	C	183616870	2	2	20	1	0	0	0	0	0	0	0	1	796	1722	60	3		3	APOBEC4	1	183616870	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	81970	183616870	65633751	129	16851											
HMCN1	83872	broad.mit.edu	37	chr1	185931759	185931759	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccaaagattgcctggacCgttaacgatatgtttatcgt	13	12	8	8	3	0	1	0	0	0	1	1	3	0	2	3	1	3	2	3	1	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:185931759C>T	uc001grq.1	+	12	2167	c.1938C>T	c.(1936-1938)ACC>ACT	p.T646T	HMCN1_uc001grr.1_5'UTR	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	646	Ig-like C2-type 3.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TTGCCTGGACCGTTAACGATA	0.423													68	152					0	0	0.01441	0	0		T	185931759	T	T	185931759	2	4	20	1	0	0	0	0	0	0	0	1	7236	639	23	1		1	HMCN1	1	185931759	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2314889	185931759	63318862	130	16852											
HMCN1	83872	broad.mit.edu	37	chr1	186147727	186147727	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagctataaccttgcacggTtctcccctgtgagaaacaac	11	10	8	12	1	1	1	0	1	1	1	2	2	1	1	3	1	5	4	3	1	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:186147727T>C	uc001grq.1	+	104	16352	c.16123T>C	c.(16123-16125)TTC>CTC	p.F5375L	HMCN1_uc001grs.1_Intron	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5375					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CCTTGCACGGTTCTCCCCTGT	0.453													9	276					0	0	0.008291	0	0		C	186147727	C	C	186147727	3	2	20	1	0	0	0	0	1	0	0	0	7236	1725	60	3	16537	3	HMCN1	1	186147727	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	215968	186147727	63102894	131	16853											
HMCN1	83872	broad.mit.edu	37	chr1	186158785	186158785	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcatacacacaggatggAgtgatgcatcccaggacaac	13	7	11	10	0	0	1	0	1	0	0	1	4	1	4	1	3	4	3	1	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:186158785A>G	uc001grq.1	+	107	16912	c.16683A>G	c.(16681-16683)GGA>GGG	p.G5561G	HMCN1_uc001grs.1_Silent_p.G1013G	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5561					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CACAGGATGGAGTGATGCATC	0.468													13	44					0	0	0.00245	0	0		G	186158785	G	G	186158785	2	3	20	1	0	0	0	0	0	0	0	1	7236	291	11	3		3	HMCN1	1	186158785	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	11058	186158785	63091836	132	16854											
CDC73	79577	broad.mit.edu	37	chr1	193181570	193181570	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctaccacctctttaataAccatgcttaatgcaaaagac	15	10	4	12	0	1	1	0	0	1	1	1	1	1	1	3	0	5	3	3	0	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:193181570A>G	uc001gtb.2	+	13	1360	c.1117A>G	c.(1117-1119)ACC>GCC	p.T373A		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	373					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						CTCTTTAATAACCATGCTTAA	0.313									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				4	240					0	0	0.001168	0	0		G	193181570	G	G	193181570	3	3	20	1	0	0	0	0	1	0	0	0	3088	43	2	3	1167	3	CDC73	1	193181570	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	7022785	193181570	56069051	133	16855											
CFHR3	10878	broad.mit.edu	37	chr1	196762466	196762466	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatccatgtataataactgaAgaaaacatgaataaaaataa	23	9	5	4	0	0	3	0	2	0	1	1	4	1	3	1	0	2	1	1	0	11	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:196762466A>G	uc001gtl.2	+	6	903	c.816A>G	c.(814-816)GAA>GAG	p.E272E	CFHR3_uc010poy.1_Silent_p.E211E|CFHR1_uc001gtm.2_Intron	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	272	Sushi 5.					extracellular space					0						TAATAACTGAAGAAAACATGA	0.274													19	15					0	0	0.008871	0	0		G	196762466	G	G	196762466	2	3	20	1	0	0	0	0	0	0	0	1	3289	69	3	3		3	CFHR3	1	196762466	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3580896	196762466	52488155	134	16856											
ZBTB41	360023	broad.mit.edu	37	chr1	197128613	197128613	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtcgaactgggtgaactAtatttgcaggttgaggagta	11	11	14	5	1	0	2	0	2	0	0	1	4	0	3	0	4	3	3	0	4	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:197128613A>G	uc001gtx.1	-	10	2675	c.2606T>C	c.(2605-2607)ATA>ACA	p.I869T	ZBTB41_uc009wyz.1_RNA	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	869					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TGGGTGAACTATATTTGCAGG	0.408													7	391					0	0	0.00308	0	0		G	197128613	G	G	197128613	3	3	20	1	0	0	0	0	1	0	0	0	17568	449	16	3	127	3	ZBTB41	1	197128613	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	366147	197128613	52122008	135	16857											
CRB1	23418	broad.mit.edu	37	chr1	197390150	197390150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatccactgcgaagaagacGtcaatgaatgttcttcaaac	15	9	8	9	2	3	3	2	1	1	2	4	5	4	3	1	0	2	1	1	0	6	2	rs144011428		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:197390150G>A	uc001gtz.2	+	6	1327	c.1192G>A	c.(1192-1194)GTC>ATC	p.V398I	CRB1_uc010poz.1_Missense_Mutation_p.V329I|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.V286I|CRB1_uc010ppb.1_Missense_Mutation_p.V398I|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_5'UTR|CRB1_uc001gub.1_Missense_Mutation_p.V47I	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	398	Extracellular (Potential).|EGF-like 10; calcium-binding (Potential).				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						CGAAGAAGACGTCAATGAATG	0.338													44	123					0	0	0.010771	0	0		A	197390150	A	A	197390150	3	1	20	1	0	0	0	0	1	0	0	0	3851	1145	40	1	1214	1	CRB1	1	197390150	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	261537	197390150	51860471	136	16858											
KIF21B	23046	broad.mit.edu	37	chr1	200946499	200946499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctgagatcacctggcccGaggacctgcccatcggagaa	9	5	11	16	2	1	2	1	1	0	2	2	6	1	3	6	3	1	0	6	3	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:200946499G>A	uc001gvs.1	-	31	4483	c.4166C>T	c.(4165-4167)TCG>TTG	p.S1389L	KIF21B_uc001gvr.1_Missense_Mutation_p.S1376L|KIF21B_uc009wzl.1_Missense_Mutation_p.S1389L|KIF21B_uc010ppn.1_Missense_Mutation_p.S1376L	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	1389					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						CACCTGGCCCGAGGACCTGCC	0.527													20	52					0	0	0.010504	0	0		A	200946499	A	A	200946499	3	1	20	1	0	0	0	0	1	0	0	0	8305	1059	37	1	767	1	KIF21B	1	200946499	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3556349	200946499	48304122	137	16859											
PKP1	5317	broad.mit.edu	37	chr1	201282591	201282591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccataaagaagtgccctgtgCgcccgccctcttgtgcctcc	6	9	9	17	2	1	1	0	0	1	1	2	1	2	1	6	0	3	0	6	0	3	2	rs144063217		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:201282591C>T	uc001gwd.2	+	3	855	c.604C>T	c.(604-606)CGC>TGC	p.R202C	PKP1_uc001gwe.2_Missense_Mutation_p.R202C|PKP1_uc009wzm.2_Intron	NM_000299	NP_000290	Q13835	PKP1_HUMAN	plakophilin 1 isoform 1b	202					cell adhesion|cellular component disassembly involved in apoptosis|multicellular organismal development	desmosome|intermediate filament|nucleus	intermediate filament binding|signal transducer activity|structural constituent of epidermis			ovary(2)	2						GTGCCCTGTGCGCCCGCCCTC	0.597													6	9					0	0	0.001168	0	0		T	201282591	T	T	201282591	3	4	20	1	0	0	0	0	1	0	0	0	12003	768	27	1	614	1	PKP1	1	201282591	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	336092	201282591	47968030	138	16860											
NAV1	89796	broad.mit.edu	37	chr1	201781716	201781716	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagagctgcttcgggtgctCgactgggtacccaagctgtg	7	9	15	10	2	0	1	0	0	0	1	2	3	0	1	1	2	5	5	1	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:201781716C>T	uc001gwu.2	+	26	5486	c.5139C>T	c.(5137-5139)CTC>CTT	p.L1713L	NAV1_uc001gwx.2_Silent_p.L1322L	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	1716					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						TTCGGGTGCTCGACTGGGTAC	0.572													47	118					0	0	0.01441	0	0		T	201781716	T	T	201781716	2	4	20	1	0	0	0	0	0	0	0	1	10201	871	31	1		1	NAV1	1	201781716	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	499125	201781716	47468905	139	16861											
RNPEP	6051	broad.mit.edu	37	chr1	201958135	201958135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcccttgcttcgacaCgcctgctgttaaatacaagt	8	14	6	13	2	1	0	0	0	1	0	3	1	2	0	2	0	3	3	2	0	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:201958135C>T	uc001gxd.2	+	2	580	c.551C>T	c.(550-552)ACG>ATG	p.T184M	RNPEP_uc001gxe.2_Translation_Start_Site|RNPEP_uc001gxf.2_Missense_Mutation_p.T53M	NM_020216	NP_064601	Q9H4A4	AMPB_HUMAN	arginyl aminopeptidase	184					leukotriene biosynthetic process		epoxide hydrolase activity|zinc ion binding			upper_aerodigestive_tract(1)	1				KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|Colorectal(1306;0.005)		TGCTTCGACACGCCTGCTGTT	0.502													44	145					0	0	0.01441	0	0		T	201958135	T	T	201958135	3	4	20	1	0	0	0	0	1	0	0	0	13534	536	19	1	557	1	RNPEP	1	201958135	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	176419	201958135	47292486	140	16862											
MYOG	4656	broad.mit.edu	37	chr1	203054894	203054894	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccttacacgcccacggcaGgcactggcctggacagtgct	8	6	11	16	2	0	0	0	0	0	0	0	1	0	1	3	4	2	3	3	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:203054894G>A	uc001gzd.2	-	1	484	c.196C>T	c.(196-198)CTG>TTG	p.L66L		NM_002479	NP_002470	P15173	MYOG_HUMAN	myogenin	66					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			skin(2)	2						GCCCACGGCAGGCACTGGCCT	0.677													30	90					0	0	0.003271	0	0		A	203054894	A	A	203054894	2	1	20	1	0	0	0	0	0	0	0	1	10108	991	35	4		4	MYOG	1	203054894	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1096759	203054894	46195727	141	16863											
SNRPE	6635	broad.mit.edu	37	chr1	203830822	203830822	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagggtcagaaagtgcagaAggttatggtgcagcccatcg	11	7	14	9	1	1	2	1	0	0	2	2	2	1	2	2	3	3	3	2	3	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:203830822A>C	uc001hai.2	+	1	83	c.35A>C	c.(34-36)AAG>ACG	p.K12T	SNRPE_uc010pqn.1_RNA	NM_003094	NP_003085	P62304	RUXE_HUMAN	small nuclear ribonucleoprotein polypeptide E	12					histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	protein binding|RNA binding				0	all_cancers(21;0.103)		BRCA - Breast invasive adenocarcinoma(75;0.109)			AAAGTGCAGAAGGTTATGGTG	0.582													5	62					0	0	0.000602	0	0		C	203830822	C	C	203830822	3	2	20	1	0	0	0	0	1	0	0	0	14892	72	3	5	37	5	SNRPE	1	203830822	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	775928	203830822	45419799	142	16864											
DSTYK	25778	broad.mit.edu	37	chr1	205119814	205119814	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctccagccttacctgtgaAaagttcaggggccatatgga	10	9	10	12	0	1	1	1	1	0	0	2	2	2	2	5	3	2	1	5	3	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:205119814A>G	uc001hbw.2	-	11	2525	c.2461T>C	c.(2461-2463)TTC>CTC	p.F821L	DSTYK_uc001hbx.2_Missense_Mutation_p.F821L	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	821	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						TTACCTGTGAAAAGTTCAGGG	0.542													31	88					0	0	0.003271	0	0		G	205119814	G	G	205119814	3	3	20	1	0	0	0	0	1	0	0	0	4791	14	1	3	340	3	DSTYK	1	205119814	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1288992	205119814	44130807	143	16865											
CTSE	1510	broad.mit.edu	37	chr1	206328829	206328829	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagattaagcagctgcaaaAcgccattggggcagcccccg	12	5	11	13	2	0	1	0	0	0	1	0	1	0	1	3	2	5	4	3	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:206328829A>G	uc001hdu.2	+	7	1014	c.896A>G	c.(895-897)AAC>AGC	p.N299S	CTSE_uc001hdv.2_Intron|CTSE_uc010prs.1_Intron	NM_001910	NP_001901	P14091	CATE_HUMAN	cathepsin E isoform a preproprotein	304					antigen processing and presentation of exogenous peptide antigen via MHC class II|digestion|proteolysis	endosome	aspartic-type endopeptidase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(75;0.0754)			CAGCTGCAAAACGCCATTGGG	0.607													14	56					0	0	0.00499	0	0		G	206328829	G	G	206328829	3	3	20	1	0	0	0	0	1	0	0	0	4036	43	2	3	922	3	CTSE	1	206328829	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1209015	206328829	42921792	144	16866											
C1orf116	79098	broad.mit.edu	37	chr1	207196629	207196629	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggcgcaagcctccccggTtctccagggttgtgactgct	4	11	12	14	2	2	1	0	1	2	0	4	1	3	1	4	3	2	4	4	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:207196629T>C	uc001hfd.2	-	4	739	c.480A>G	c.(478-480)GAA>GAG	p.E160E	C1orf116_uc009xcb.1_5'UTR	NM_023938	NP_076427	Q9BW04	SARG_HUMAN	specifically androgen-regulated protein isoform	160						cytoplasm|plasma membrane	receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Prostate(682;0.19)					GCCTCCCCGGTTCTCCAGGGT	0.602													3	104					0	0	0.004672	0	0		C	207196629	C	C	207196629	2	2	20	1	0	0	0	0	0	0	0	1	1992	1722	60	3		3	C1orf116	1	207196629	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	867800	207196629	42053992	145	16867											
PLXNA2	5362	broad.mit.edu	37	chr1	208205091	208205091	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaacaagtcgtccacaaacTtctgcagggtgccctggagg	11	7	11	12	1	1	0	0	0	1	0	3	1	2	1	2	3	4	1	2	3	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:208205091T>G	uc001hgz.2	-	29	5827	c.5069A>C	c.(5068-5070)AAG>ACG	p.K1690T	PLXNA2_uc001hgy.2_5'Flank	NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1690	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GTCCACAAACTTCTGCAGGGT	0.577													25	59					0	0	0.00632	0	0		G	208205091	G	G	208205091	3	3	20	1	0	0	0	0	1	0	0	0	12139	1609	56	5	631	5	PLXNA2	1	208205091	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1008462	208205091	41045530	146	16868											
PLXNA2	5362	broad.mit.edu	37	chr1	208269412	208269412	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtaaaacttgaactcggtGctgacaaatatcttccctgt	11	14	7	9	1	1	2	0	2	1	0	3	2	2	2	1	1	3	2	1	1	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:208269412G>A	uc001hgz.2	-	8	2702	c.1944C>T	c.(1942-1944)AGC>AGT	p.S648S		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	648	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		TGAACTCGGTGCTGACAAATA	0.438													140	415					0	0	0.01441	0	0		A	208269412	A	A	208269412	2	1	20	1	0	0	0	0	0	0	0	1	12139	1310	46	2		2	PLXNA2	1	208269412	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	64321	208269412	40981209	147	16869											
HHAT	55733	broad.mit.edu	37	chr1	210686512	210686512	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaggtattttgatgttggActgcataatttcttaatcag	12	16	8	5	0	2	1	1	1	1	0	2	2	2	2	0	2	2	3	0	2	4	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:210686512A>G	uc009xcx.2	+	9	1189	c.1023A>G	c.(1021-1023)GGA>GGG	p.G341G	HHAT_uc010psq.1_Silent_p.G204G|HHAT_uc001hhz.3_Silent_p.G341G|HHAT_uc010psr.1_Silent_p.G342G|HHAT_uc010pss.1_Silent_p.G296G|HHAT_uc009xcy.2_Silent_p.G276G|HHAT_uc010pst.1_Silent_p.G278G|HHAT_uc010psu.1_Silent_p.G276G|HHAT_uc001hia.3_Silent_p.G31G	NM_001122834	NP_001116306	Q5VTY9	HHAT_HUMAN	hedgehog acyltransferase	341					multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)		TTGATGTTGGACTGCATAATT	0.244													8	33					0	0	0.001855	0	0		G	210686512	G	G	210686512	2	3	20	1	0	0	0	0	0	0	0	1	7105	262	10	3		3	HHAT	1	210686512	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2417100	210686512	38564109	148	16870											
RCOR3	55758	broad.mit.edu	37	chr1	211486764	211486764	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttttgtttcctcacctctAggcacagaccccacaggctc	8	12	6	15	0	2	1	1	0	1	1	4	1	3	1	4	2	0	3	4	2	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:211486764A>G	uc001hig.2	+	11	1313	c.1144_splice	c.e11-2	p.A382_splice	RCOR3_uc010psw.1_Splice_Site_p.A440_splice|RCOR3_uc001hif.2_Splice_Site_p.G359_splice|RCOR3_uc009xcz.2_Splice_Site	NM_018254	NP_060724	Q9P2K3	RCOR3_HUMAN	REST corepressor 3 isoform d						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		CCTCACCTCTAGGCACAGACC	0.448													7	85					0	0	0.006214	0	0		G	211486764	G	G	211486764	5	3	20	1	0	0	0	0	0	0	1	0	13209	434	15	3	1395	3	RCOR3	1	211486764	Splice_Site	SNP	A	TCGA-BR-4362-01A-01D-1158-08	800252	211486764	37763857	149	16871											
PTPN14	5784	broad.mit.edu	37	chr1	214557016	214557016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgtactccatcttctcccGgagcatggggatctggggca	7	10	12	12	1	3	0	0	0	3	0	5	2	4	2	2	5	2	3	2	5	1	2	rs143375730	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:214557016G>A	uc001hkk.1	-	13	2453	c.2182C>T	c.(2182-2184)CGG>TGG	p.R728W	PTPN14_uc010pty.1_Missense_Mutation_p.R629W	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	728					lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		ATCTTCTCCCGGAGCATGGGG	0.612													17	45					0	0	0.008871	0	0		A	214557016	A	A	214557016	3	1	20	1	0	0	0	0	1	0	0	0	12806	1115	39	1	1409	1	PTPN14	1	214557016	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3070252	214557016	34693605	150	16872											
PTPN14	5784	broad.mit.edu	37	chr1	214575076	214575076	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccaaacgttcaacttcAttgatgtacatcagttcagc	12	12	5	12	1	4	1	4	1	0	0	5	1	5	1	2	0	4	3	2	0	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:214575076A>G	uc001hkk.1	-	7	892	c.621T>C	c.(619-621)AAT>AAC	p.N207N	PTPN14_uc010pty.1_Silent_p.N108N	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	207	FERM.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		GTTCAACTTCATTGATGTACA	0.448													45	143					0	0	0.01441	0	0		G	214575076	G	G	214575076	2	3	20	1	0	0	0	0	0	0	0	1	12806	214	8	3		3	PTPN14	1	214575076	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	18060	214575076	34675545	151	16873											
LYPLAL1	127018	broad.mit.edu	37	chr1	219366532	219366532	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgatgtcatgtgtcaagtGcttactgatttgattgatga	10	17	10	4	0	2	5	2	5	0	0	2	5	2	5	0	0	2	1	0	0	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:219366532G>A	uc001hlq.3	+	3	341	c.300G>A	c.(298-300)GTG>GTA	p.V100V	LYPLAL1_uc001hlr.3_Silent_p.V84V|LYPLAL1_uc001hls.3_Intron|LYPLAL1_uc001hlt.3_Intron|LYPLAL1_uc009xds.2_Intron	NM_138794	NP_620149	Q5VWZ2	LYPL1_HUMAN	lysophospholipase-like 1	100						cytoplasm	lysophospholipase activity				0				GBM - Glioblastoma multiforme(131;0.055)|all cancers(67;0.105)|OV - Ovarian serous cystadenocarcinoma(81;0.116)		TGTGTCAAGTGCTTACTGATT	0.348													14	29					0	0	0.00245	0	0		A	219366532	A	A	219366532	2	1	20	1	0	0	0	0	0	0	0	1	9136	1306	46	2		2	LYPLAL1	1	219366532	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4791456	219366532	29884089	152	16874											
IARS2	55699	broad.mit.edu	37	chr1	220279373	220279373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcatggtatggaagactacGgtgtagcgtctcagcacaac	11	9	11	10	2	2	1	2	0	1	1	3	2	2	2	0	3	4	3	0	3	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:220279373G>A	uc001hmc.2	+	9	1311	c.1207G>A	c.(1207-1209)GGT>AGT	p.G403S		NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase	403					isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	GGAAGACTACGGTGTAGCGTC	0.413													38	85					0	0	0.007835	0	0		A	220279373	A	A	220279373	3	1	20	1	0	0	0	0	1	0	0	0	7490	1116	39	1	1241	1	IARS2	1	220279373	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	912841	220279373	28971248	153	16875											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220364615	220364615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgaatccatccaatttgtgCgtcgcggtacccttagagac	9	12	9	11	3	0	2	0	1	0	1	3	3	2	2	3	1	2	1	3	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:220364615C>T	uc010puk.1	-	14	1446	c.1282G>A	c.(1282-1284)GCA>ACA	p.A428T	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Missense_Mutation_p.A8T	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	428					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		CCAATTTGTGCGTCGCGGTAC	0.413													11	29					0	0	0.010729	0	0		T	220364615	T	T	220364615	3	4	20	1	0	0	0	0	1	0	0	0	12961	768	27	1	2987	1	RAB3GAP2	1	220364615	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	85242	220364615	28886006	154	16876											
HLX	3142	broad.mit.edu	37	chr1	221057685	221057685	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacgagaggagccccagccGttctgaaggcgaggctgaga	10	4	17	10	3	1	3	0	2	1	2	1	8	1	5	3	4	2	2	3	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:221057685G>A	uc001hmv.3	+	4	1563	c.1106G>A	c.(1105-1107)CGT>CAT	p.R369H		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	369	Ser-rich.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)		AGCCCCAGCCGTTCTGAAGGC	0.667													7	23					0	0	0.013537	0	0		A	221057685	A	A	221057685	3	1	20	1	0	0	0	0	1	0	0	0	7232	1145	40	1	1120	1	HLX	1	221057685	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	693070	221057685	28192936	155	16877											
C1orf65	164127	broad.mit.edu	37	chr1	223567946	223567946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgaaaacagtgccaggtgCggcgcctgcgggagcaggag	10	3	17	11	4	0	0	0	0	0	0	0	3	0	2	3	4	5	1	3	4	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:223567946C>T	uc001hoa.2	+	1	1232	c.1129C>T	c.(1129-1131)CGG>TGG	p.R377W		NM_152610	NP_689823	Q8N715	CA065_HUMAN	hypothetical protein LOC164127	377	Potential.									central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0704)		GTGCCAGGTGCGGCGCCTGCG	0.662													6	18					0	0	0.001168	0	0		T	223567946	T	T	223567946	3	4	20	1	0	0	0	0	1	0	0	0	2058	759	27	1	1131	1	C1orf65	1	223567946	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2510261	223567946	25682675	156	16878											
TMEM63A	9725	broad.mit.edu	37	chr1	226037670	226037670	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacaggatgggggctgccaAggcctggttcacagcggcaa	9	5	16	11	1	1	0	1	0	0	0	1	1	1	1	2	6	2	4	2	6	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:226037670A>G	uc001hpm.1	-	21	2264	c.2014T>C	c.(2014-2016)TTG>CTG	p.L672L		NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	672	Helical; (Potential).					integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					GGGGCTGCCAAGGCCTGGTTC	0.612													7	103					0	0	0.004482	0	0		G	226037670	G	G	226037670	2	3	20	1	0	0	0	0	0	0	0	1	16215	69	3	3		3	TMEM63A	1	226037670	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2469724	226037670	23212951	157	16879											
TMEM63A	9725	broad.mit.edu	37	chr1	226053597	226053597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccaccccacctgcttacCggaagtggctctccacagtc	7	8	7	19	1	1	0	0	0	1	0	4	1	2	1	6	2	2	2	6	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:226053597C>T	uc001hpm.1	-	10	996	c.746G>A	c.(745-747)CGG>CAG	p.R249Q		NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	249						integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					ACCTGCTTACCGGAAGTGGCT	0.622													8	16					0	0	0.00308	0	0		T	226053597	T	T	226053597	3	4	20	1	0	0	0	0	1	0	0	0	16215	666	23	1	1737	1	TMEM63A	1	226053597	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	15927	226053597	23197024	158	16880											
OBSCN	84033	broad.mit.edu	37	chr1	228401921	228401921	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacggcggtgcgcgtgggCgacacggctatgttttgcgt	6	9	17	9	7	0	1	0	0	0	1	0	2	0	1	0	4	2	2	0	4	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:228401921C>T	uc009xez.1	+	4	1349	c.1305C>T	c.(1303-1305)GGC>GGT	p.G435G	OBSCN_uc001hsn.2_Silent_p.G435G|uc001hsm.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	435	Ig-like 5.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TGCGCGTGGGCGACACGGCTA	0.711													19	73					0	0	0.010504	0	0		T	228401921	T	T	228401921	2	4	20	1	0	0	0	0	0	0	0	1	10831	755	27	1		1	OBSCN	1	228401921	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2348324	228401921	20848700	159	16881											
TAF5L	27097	broad.mit.edu	37	chr1	229737984	229737984	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaatggatgcgggacacGtctacttggtggggctctga	8	9	15	9	2	2	1	0	1	2	0	2	3	2	3	1	5	2	1	1	5	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:229737984G>A	uc001htq.2	-	4	1096	c.930C>T	c.(928-930)GAC>GAT	p.D310D	TAF5L_uc001htr.2_Silent_p.D310D	NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	310					histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				TGCGGGACACGTCTACTTGGT	0.463													13	48					0	0	0.001855	0	0		A	229737984	A	A	229737984	2	1	20	1	0	0	0	0	0	0	0	1	15554	1136	40	1		1	TAF5L	1	229737984	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1336063	229737984	19512637	160	16882											
AGT	183	broad.mit.edu	37	chr1	230846080	230846080	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtgcgcatccagccgggAggtgcagttcttgtccttcc	4	12	12	13	2	1	0	0	0	1	0	4	1	4	1	4	2	3	3	4	2	0	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:230846080A>G	uc001hty.3	-	2	1025	c.517T>C	c.(517-519)TCC>CCC	p.S173P	AGT_uc009xfe.2_Missense_Mutation_p.S173P|AGT_uc009xff.2_Missense_Mutation_p.S145P	NM_000029	NP_000020	P01019	ANGT_HUMAN	angiotensinogen preproprotein	173					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|blood vessel remodeling|cell-cell signaling|cellular lipid metabolic process|G-protein signaling, coupled to cGMP nucleotide second messenger|kidney development|low-density lipoprotein particle remodeling|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of activation of JAK2 kinase activity|positive regulation of apoptosis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of cardiac muscle hypertrophy|positive regulation of cholesterol esterification|positive regulation of cytokine production|positive regulation of endothelial cell migration|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription, DNA-dependent|regulation of proteolysis|regulation of renal output by angiotensin|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|response to muscle activity involved in regulation of muscle adaptation	extracellular space|soluble fraction	acetyltransferase activator activity|growth factor activity|hormone activity|serine-type endopeptidase inhibitor activity|type 1 angiotensin receptor binding|type 2 angiotensin receptor binding				0	Breast(184;0.0735)|Ovarian(103;0.183)	all_cancers(173;4.64e-23)|all_epithelial(177;3.61e-18)|Breast(1374;0.00093)|all_neural(198;0.0604)|Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;4.4e-06)|Colorectal(1306;5.46e-06)|COAD - Colon adenocarcinoma(196;0.000256)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)	Aliskiren(DB01258)|Atorvastatin(DB01076)|Cilazapril(DB01340)|Irbesartan(DB01029)|Lisinopril(DB00722)|Ouabain(DB01092)|Simvastatin(DB00641)	TCCAGCCGGGAGGTGCAGTTC	0.622													4	66					0	0	0.009096	0	0		G	230846080	G	G	230846080	3	3	20	1	0	0	0	0	1	0	0	0	399	304	11	3	956	3	AGT	1	230846080	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1108096	230846080	18404541	161	16883											
LYST	1130	broad.mit.edu	37	chr1	235909731	235909731	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctagggttctcttggctcAttctccgttgcatcatcaca	6	14	9	12	1	5	0	3	0	2	0	7	0	5	0	1	3	1	5	1	3	1	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:235909731A>G	uc001hxj.2	-	29	8052	c.7877T>C	c.(7876-7878)ATG>ACG	p.M2626T	LYST_uc009xga.1_Missense_Mutation_p.M262T	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2626					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			CTCTTGGCTCATTCTCCGTTG	0.443									Chediak-Higashi_syndrome				19	67					0	0	0.007413	0	0		G	235909731	G	G	235909731	3	3	20	1	0	0	0	0	1	0	0	0	9146	217	8	3	3628	3	LYST	1	235909731	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	5063651	235909731	13340890	162	16884											
HEATR1	55127	broad.mit.edu	37	chr1	236730088	236730088	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcctgtgctccgggacgTgtggcagcgcatccacaaat	7	7	14	13	4	0	0	0	0	0	0	2	1	2	1	3	3	2	3	3	3	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:236730088T>C	uc001hyd.1	-	30	4291	c.4166A>G	c.(4165-4167)CAC>CGC	p.H1389R	HEATR1_uc009xgh.1_Missense_Mutation_p.H551R	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1389					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CTCCGGGACGTGTGGCAGCGC	0.448													13	49					0	0	0.001855	0	0		C	236730088	C	C	236730088	3	2	20	1	0	0	0	0	1	0	0	0	7043	1696	59	3	2332	3	HEATR1	1	236730088	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	820357	236730088	12520533	163	16885											
ACTN2	88	broad.mit.edu	37	chr1	236906269	236906269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggttgctcaatgagattcGgagactggagcgcttggaac	9	10	15	7	2	1	2	1	1	0	2	2	6	1	4	0	4	3	3	0	4	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:236906269G>A	uc001hyf.2	+	11	1385	c.1181G>A	c.(1180-1182)CGG>CAG	p.R394Q	ACTN2_uc001hyg.2_Missense_Mutation_p.R186Q|ACTN2_uc009xgi.1_Missense_Mutation_p.R394Q|ACTN2_uc010pxu.1_Missense_Mutation_p.R83Q|ACTN2_uc001hyh.2_Missense_Mutation_p.R82Q	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	394					focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			AATGAGATTCGGAGACTGGAG	0.547													26	70					0	0	0.00333	0	0		A	236906269	A	A	236906269	3	1	20	1	0	0	0	0	1	0	0	0	205	1116	39	1	1223	1	ACTN2	1	236906269	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	176181	236906269	12344352	164	16886											
RYR2	6262	broad.mit.edu	37	chr1	237947929	237947929	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgttttcagaggcttttTccgcatcatttgcagcctgc	6	14	9	12	2	2	1	2	0	0	1	3	1	3	1	2	1	4	4	2	1	0	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:237947929T>C	uc001hyl.1	+	90	13037	c.12917T>C	c.(12916-12918)TTC>TCC	p.F4306S	RYR2_uc010pya.1_Missense_Mutation_p.F721S	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4306	Helical; Name=M4; (Potential).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AGAGGCTTTTTCCGCATCATT	0.502													16	60					0	0	0.004007	0	0		C	237947929	C	C	237947929	3	2	20	1	0	0	0	0	1	0	0	0	13794	1783	62	3	13275	3	RYR2	1	237947929	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1041660	237947929	11302692	165	16887											
GREM2	64388	broad.mit.edu	37	chr1	240656299	240656299	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccgagtcgctcaggttcacGgacatgcaccggcactgctt	7	9	11	14	4	2	0	2	0	0	0	4	2	3	1	2	3	2	5	2	3	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:240656299G>A	uc001hys.2	-	2	757	c.477C>T	c.(475-477)TCC>TCT	p.S159S		NM_022469	NP_071914	Q9H772	GREM2_HUMAN	gremlin 2 precursor	159	CTCK.				BMP signaling pathway	extracellular space	cytokine activity				0		all_cancers(173;0.0196)	OV - Ovarian serous cystadenocarcinoma(106;0.0123)			TCAGGTTCACGGACATGCACC	0.512													25	56					0	0	0.005443	0	0		A	240656299	A	A	240656299	2	1	20	1	0	0	0	0	0	0	0	1	6778	1103	39	1		1	GREM2	1	240656299	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2708370	240656299	8594322	166	16888											
FH	2271	broad.mit.edu	37	chr1	241680541	241680541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtagatctcacggtctgggCgccataatacttatcatttg	9	13	9	10	3	3	1	2	0	2	1	4	1	3	1	1	2	1	1	1	2	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:241680541C>T	uc001hyx.2	-	2	240	c.208G>A	c.(208-210)GCC>ACC	p.A70T		NM_000143	NP_000134	P07954	FUMH_HUMAN	fumarate hydratase precursor	70					fumarate metabolic process|tricarboxylic acid cycle	cell junction|mitochondrial matrix|tricarboxylic acid cycle enzyme complex	fumarate hydratase activity			lung(3)|ovary(1)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;2.37e-314)|all_epithelial(177;5.17e-286)|Breast(1374;1.06e-10)|Acute lymphoblastic leukemia(190;4.93e-10)|all_neural(198;0.00118)	OV - Ovarian serous cystadenocarcinoma(106;0.0214)	Colorectal(1306;2.33e-53)|COAD - Colon adenocarcinoma(196;1.05e-44)|KIRC - Kidney renal clear cell carcinoma(1967;0.000109)		ACGGTCTGGGCGCCATAATAC	0.408			Mis|N|F			lieomyomatosis|renal			Hereditary_Leiomyomatosis_and_Renal_Cell_Cancer				32	85					0	0	0.010818	0	0		T	241680541	T	T	241680541	3	4	20	1	0	0	0	0	1	0	0	0	5889	768	27	1	1360	1	FH	1	241680541	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1024242	241680541	7570080	167	16889											
CNST	163882	broad.mit.edu	37	chr1	246797842	246797842	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcagaaaagggatttaaTggtgaagattttgaacggct	15	12	11	3	1	1	4	1	2	0	2	1	5	1	5	0	3	1	1	0	3	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:246797842T>C	uc001ibp.2	+	6	1149	c.771T>C	c.(769-771)AAT>AAC	p.N257N	CNST_uc001ibo.3_Silent_p.N257N	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	257					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						AGGGATTTAATGGTGAAGATT	0.343													5	199					0	0	0.001168	0	0		C	246797842	C	C	246797842	2	2	20	1	0	0	0	0	0	0	0	1	3637	1461	51	3		3	CNST	1	246797842	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	5117301	246797842	2452779	168	16890											
OR2T6	254879	broad.mit.edu	37	chr1	248550915	248550915	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaactcagtaccatgaaTgaaaacaatgaaaccttgac	18	9	5	9	0	2	4	2	4	0	0	2	4	2	4	2	0	4	1	2	0	7	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:248550915T>C	uc001iei.1	+	1	6	c.6T>C	c.(4-6)AAT>AAC	p.N2N		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	2	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GTACCATGAATGAAAACAATG	0.383													29	97					0	0	0.005524	0	0		C	248550915	C	C	248550915	2	2	20	1	0	0	0	0	0	0	0	1	11048	1461	51	3		3	OR2T6	1	248550915	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1753073	248550915	699706	169	16891											
OR2T1	26696	broad.mit.edu	37	chr1	248569514	248569514	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttcaacagaaaggaaacCtcaggtcttatttttgccat	12	13	7	9	0	3	1	2	0	1	1	3	2	3	2	2	2	3	1	2	2	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr1:248569514C>T	uc010pzm.1	+	1	219	c.219C>T	c.(217-219)ACC>ACT	p.T73T		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	73	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GAAAGGAAACCTCAGGTCTTA	0.423													73	167					0	0	0.01441	0	0		T	248569514	T	T	248569514	2	4	20	1	0	0	0	0	0	0	0	1	11035	668	24	4		4	OR2T1	1	248569514	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	18599	248569514	681107	170	16892											
SNTG2	54221	broad.mit.edu	37	chr2	1094066	1094066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcacaacgtccctgtcGtcatatcaaaaatattcgaa	14	10	6	11	3	2	1	2	1	0	0	5	2	3	1	1	0	2	1	1	0	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:1094066G>A	uc002qwq.2	+	4	423	c.295G>A	c.(295-297)GTC>ATC	p.V99I	SNTG2_uc002qwp.2_RNA|SNTG2_uc010ewi.2_Intron	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	99	PDZ.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		CGTCCCTGTCGTCATATCAAA	0.378													26	65					0	0	0.007291	0	0		A	1094066	A	A	1094066	3	1	20	1	0	0	0	0	1	0	0	0	14900	1145	40	1	309	1	SNTG2	2	1094066	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08		1094066	242105307	171	16893											
PXDN	7837	broad.mit.edu	37	chr2	1653372	1653372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagcagttgttcacgcgcCggtgggcggtacagcccgac	6	6	15	14	6	1	0	1	0	0	0	1	2	1	0	3	3	3	4	3	3	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:1653372C>T	uc002qxa.2	-	17	2244	c.2180G>A	c.(2179-2181)CGG>CAG	p.R727Q		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	727					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GTTCACGCGCCGGTGGGCGGT	0.602													28	64					0	0	0.007291	0	0		T	1653372	T	T	1653372	3	4	20	1	0	0	0	0	1	0	0	0	12872	652	23	1	2287	1	PXDN	2	1653372	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	559306	1653372	241546001	172	16894											
ATP6V1C2	245973	broad.mit.edu	37	chr2	10923322	10923322	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgtggagatcccgggacTgcaactcaataaccaagact	13	8	9	11	1	2	2	1	0	1	2	3	4	3	3	2	2	3	1	2	2	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:10923322T>C	uc002ras.2	+	14	1326	c.1217T>C	c.(1216-1218)CTG>CCG	p.L406P	ATP6V1C2_uc002rat.2_Missense_Mutation_p.L360P	NM_001039362	NP_001034451	Q8NEY4	VATC2_HUMAN	vacuolar H+ ATPase C2 isoform a	406					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.15)|OV - Ovarian serous cystadenocarcinoma(76;0.152)		ATCCCGGGACTGCAACTCAAT	0.423													7	125					0	0	0.004482	0	0		C	10923322	C	C	10923322	3	2	20	1	0	0	0	0	1	0	0	0	1182	1580	55	3	1267	3	ATP6V1C2	2	10923322	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	9269950	10923322	232276051	173	16895											
RAD51AP2	729475	broad.mit.edu	37	chr2	17697058	17697058	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttacttattaatgaaacTgactgtacagaaaacatgtc	15	13	5	8	0	0	3	0	2	0	1	2	3	1	3	1	0	4	1	1	0	7	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:17697058T>C	uc002rcl.1	-	1	2649	c.2625A>G	c.(2623-2625)TCA>TCG	p.S875S	RAD51AP2_uc010exn.1_Silent_p.S866S	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	875										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTAATGAAACTGACTGTACAG	0.269													4	26					0	0	0.009096	0	0		C	17697058	C	C	17697058	2	2	20	1	0	0	0	0	0	0	0	1	13012	1567	55	3		3	RAD51AP2	2	17697058	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	6773736	17697058	225502315	174	16896											
KIF3C	3797	broad.mit.edu	37	chr2	26203671	26203671	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgtgtccttggggtcctcGttcacctggggcttgttctt	2	16	13	10	1	2	0	1	0	1	0	5	0	4	0	3	4	0	3	3	4	0	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:26203671G>A	uc002rgu.2	-	1	1773	c.1116C>T	c.(1114-1116)AAC>AAT	p.N372N	KIF3C_uc010eyj.1_RNA|KIF3C_uc010ykr.1_Silent_p.N372N	NM_002254	NP_002245	O14782	KIF3C_HUMAN	kinesin family member 3C	372	Kinesin-motor.				blood coagulation|microtubule-based movement	cytosol|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGGGGTCCTCGTTCACCTGGG	0.607													41	61					0	0	0.01441	0	0		A	26203671	A	A	26203671	2	1	20	1	0	0	0	0	0	0	0	1	8318	1136	40	1		1	KIF3C	2	26203671	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	8506613	26203671	216995702	175	16897											
OTOF	9381	broad.mit.edu	37	chr2	26684636	26684636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgcgcggggatcttgtactCggtctcgtcccaggagaaca	7	8	13	13	5	2	1	0	0	2	1	5	3	3	2	2	4	2	1	2	4	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:26684636C>T	uc002rhk.2	-	43	5588	c.5461G>A	c.(5461-5463)GAG>AAG	p.E1821K	OTOF_uc010yla.1_Missense_Mutation_p.E551K|OTOF_uc002rhh.2_Missense_Mutation_p.E1054K|OTOF_uc002rhi.2_Missense_Mutation_p.E1131K|OTOF_uc002rhj.2_Missense_Mutation_p.E1054K	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1821	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATCTTGTACTCGGTCTCGTCC	0.607													52	140					0	0	0.01441	0	0		T	26684636	T	T	26684636	3	4	20	1	0	0	0	0	1	0	0	0	11322	893	31	1	733	1	OTOF	2	26684636	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	480965	26684636	216514737	176	16898											
C2orf18	54978	broad.mit.edu	37	chr2	27001127	27001127	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgtcaccaaggaactgagCgccaccacccgcatggtgtt	10	6	11	14	3	1	1	1	1	0	0	1	2	1	2	4	2	3	2	4	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:27001127C>T	uc002rhp.1	+	6	940	c.864C>T	c.(862-864)AGC>AGT	p.S288S	C2orf18_uc002rhq.1_Silent_p.S205S|C2orf18_uc010eyo.1_Silent_p.S235S|C2orf18_uc010ylc.1_Silent_p.S141S	NM_017877	NP_060347	Q8N357	CB018_HUMAN	ANT2-binding protein precursor	288						integral to membrane|lysosomal membrane					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGGAACTGAGCGCCACCACCC	0.612													33	67					0	0	0.009535	0	0		T	27001127	T	T	27001127	2	4	20	1	0	0	0	0	0	0	0	1	2161	767	27	1		1	C2orf18	2	27001127	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	316491	27001127	216198246	177	16899											
EMILIN1	11117	broad.mit.edu	37	chr2	27305128	27305128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagctgacgcggctgcccGccctggggtgcatgaaaccc	6	5	14	16	3	0	2	0	2	0	0	0	2	0	2	4	3	4	3	4	3	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:27305128G>A	uc002rii.3	+	4	1117	c.689G>A	c.(688-690)CGC>CAC	p.R230H	EMILIN1_uc010eyq.1_Missense_Mutation_p.R230H|EMILIN1_uc002rik.3_5'Flank	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	230	Potential.				cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCGGCTGCCCGCCCTGGGGTG	0.662													13	29					0	0	0.00245	0	0		A	27305128	A	A	27305128	3	1	20	1	0	0	0	0	1	0	0	0	5101	1087	38	1	703	1	EMILIN1	2	27305128	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	304001	27305128	215894245	178	16900											
CAD	790	broad.mit.edu	37	chr2	27458193	27458193	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtactggggaggtggcCggctttggggagagccgctg	6	7	19	9	2	0	1	0	0	0	1	0	3	0	2	3	7	2	3	3	7	1	2	rs150732650		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:27458193C>T	uc002rji.2	+	24	4029	c.3867C>T	c.(3865-3867)GCC>GCT	p.A1289A	CAD_uc010eyw.2_Silent_p.A1226A	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1289	CPSase B.|CPSase (Carbamoyl-phosphate synthase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	GGGAGGTGGCCGGCTTTGGGG	0.572													30	78					0	0	0.009535	0	0		T	27458193	T	T	27458193	2	4	20	1	0	0	0	0	0	0	0	1	2568	639	23	1		1	CAD	2	27458193	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	153065	27458193	215741180	179	16901											
CAD	790	broad.mit.edu	37	chr2	27460609	27460609	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagaggctggcgcccggtgCgactttgcgctattccttgg	4	10	15	12	4	0	1	0	0	0	1	1	2	1	1	2	4	2	3	2	4	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:27460609C>T	uc002rji.2	+	29	4749	c.4587C>T	c.(4585-4587)TGC>TGT	p.C1529C	CAD_uc010eyw.2_Silent_p.C1466C	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1529	DHOase (dihydroorotase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	GCGCCCGGTGCGACTTTGCGC	0.627													12	41					0	0	0.013537	0	0		T	27460609	T	T	27460609	2	4	20	1	0	0	0	0	0	0	0	1	2568	776	27	1		1	CAD	2	27460609	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2416	27460609	215738764	180	16902											
TRIM54	57159	broad.mit.edu	37	chr2	27505617	27505617	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggatgaacttcacagtgggTttcaagccgctgctagggga	9	9	15	8	1	2	1	2	1	0	0	2	3	2	3	1	4	3	3	1	4	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:27505617T>G	uc002rjo.2	+	1	18	c.18T>G	c.(16-18)GGT>GGG	p.G6G	TRIM54_uc002rjn.2_Silent_p.G6G	NM_187841	NP_912730	Q9BYV2	TRI54_HUMAN	ring finger protein 30 isoform 2	6					cell differentiation|microtubule-based process|multicellular organismal development|negative regulation of microtubule depolymerization	microtubule|sarcomere	signal transducer activity|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCACAGTGGGTTTCAAGCCGC	0.592													34	220					0	0	0.003271	0	0		G	27505617	G	G	27505617	2	3	20	1	0	0	0	0	0	0	0	1	16554	1712	60	5		5	TRIM54	2	27505617	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	45008	27505617	215693756	181	16903											
ZNF513	130557	broad.mit.edu	37	chr2	27601032	27601032	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgcatgcagcgcccacAcatggcagctcccagccgac	8	5	9	19	3	0	0	0	0	0	0	3	1	2	0	4	1	4	4	4	1	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:27601032A>G	uc002rkk.2	-	4	1206	c.1006T>C	c.(1006-1008)TGT>CGT	p.C336R	ZNF513_uc002rkj.2_Missense_Mutation_p.C274R	NM_144631	NP_653232	Q8N8E2	ZN513_HUMAN	zinc finger protein 513	336					regulation of transcription, DNA-dependent|response to stimulus|retina development in camera-type eye|transcription, DNA-dependent|visual perception	nucleus	transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGCGCCCACACATGGCAGCT	0.652													3	40					0	0	0.004672	0	0		G	27601032	G	G	27601032	3	3	20	1	0	0	0	0	1	0	0	0	17983	159	6	3	623	3	ZNF513	2	27601032	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	95415	27601032	215598341	182	16904											
SRD5A2	6716	broad.mit.edu	37	chr2	31805786	31805786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggatccccgcgggcaccGcgaaggaaggcagctcctgc	8	3	15	15	5	0	0	0	0	0	0	2	4	2	2	4	4	2	3	4	4	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:31805786G>A	uc002rnw.1	-	2	256	c.185C>T	c.(184-186)GCG>GTG	p.A62V		NM_000348	NP_000339	P31213	S5A2_HUMAN	3-oxo-5 alpha-steroid 4-dehydrogenase 2	62					androgen biosynthetic process|cell differentiation|cell-cell signaling|male gonad development	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|sterol 5-alpha reductase activity				0	Acute lymphoblastic leukemia(172;0.155)				Azelaic Acid(DB00548)|Dutasteride(DB01126)	CGCGGGCACCGCGAAGGAAGG	0.687													4	10					0	0	0.000602	0	0		A	31805786	A	A	31805786	3	1	20	1	0	0	0	0	1	0	0	0	15164	1086	38	1	599	1	SRD5A2	2	31805786	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4204754	31805786	211393587	183	16905											
YIPF4	84272	broad.mit.edu	37	chr2	32526480	32526480	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccaagtccttggagttatAggatattcattacttcctct	9	15	8	9	0	2	0	1	0	1	0	4	2	4	2	3	3	1	1	3	3	5	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:32526480A>G	uc002rok.2	+	5	780	c.513A>G	c.(511-513)ATA>ATG	p.I171M		NM_032312	NP_115688	Q9BSR8	YIPF4_HUMAN	Yip1 domain family, member 4	171	Helical; (Potential).					endoplasmic reticulum|integral to membrane	protein binding				0	Acute lymphoblastic leukemia(172;0.155)					TTGGAGTTATAGGATATTCAT	0.318													66	130					0	0	0.01441	0	0		G	32526480	G	G	32526480	3	3	20	1	0	0	0	0	1	0	0	0	17506	410	15	3	531	3	YIPF4	2	32526480	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	720694	32526480	210672893	184	16906											
BIRC6	57448	broad.mit.edu	37	chr2	32626574	32626574	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcctatgatccagcaattgTacaacagcttattctatcag	12	13	6	10	0	2	1	1	1	1	0	3	1	3	1	2	0	5	3	2	0	6	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:32626574T>C	uc010ezu.2	+	8	1435	c.1301T>C	c.(1300-1302)GTA>GCA	p.V434A		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	434					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					CCAGCAATTGTACAACAGCTT	0.383													5	102					0	0	0.001168	0	0		C	32626574	C	C	32626574	3	2	20	1	0	0	0	0	1	0	0	0	1439	1638	57	3	1331	3	BIRC6	2	32626574	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	100094	32626574	210572799	185	16907											
HEATR5B	54497	broad.mit.edu	37	chr2	37255949	37255949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataattttcgatctgtctccCggtctagcattccaaaaaga	12	13	6	10	2	3	1	0	0	3	1	6	2	4	1	2	1	1	1	2	1	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:37255949C>T	uc002rpp.1	-	23	3572	c.3476G>A	c.(3475-3477)CGG>CAG	p.R1159Q		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1159							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				ATCTGTCTCCCGGTCTAGCAT	0.428													44	154					0	0	0.011902	0	0		T	37255949	T	T	37255949	3	4	20	1	0	0	0	0	1	0	0	0	7048	652	23	1	2795	1	HEATR5B	2	37255949	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4629375	37255949	205943424	186	16908											
DHX57	90957	broad.mit.edu	37	chr2	39053105	39053105	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagaccccagatgcaacacgGcctgctcggcctttcctttg	7	9	9	16	2	0	2	0	0	0	2	2	2	1	2	5	2	3	2	5	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:39053105G>A	uc002rrf.2	-	16	2997	c.2898C>T	c.(2896-2898)GGC>GGT	p.G966G	DHX57_uc002rrd.3_Silent_p.G350G|DHX57_uc002rre.2_Silent_p.G399G	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	966	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				ATGCAACACGGCCTGCTCGGC	0.428													18	78					0	0	0.007413	0	0		A	39053105	A	A	39053105	2	1	20	1	0	0	0	0	0	0	0	1	4519	1190	42	2		2	DHX57	2	39053105	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1797156	39053105	204146268	187	16909											
SLC8A1	6546	broad.mit.edu	37	chr2	40392055	40392055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctctcccaggatggggCgccccatttctgcaatgcgc	5	10	12	14	2	2	0	0	0	2	0	3	1	2	1	3	3	3	2	3	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:40392055C>T	uc002rrx.2	-	7	2132	c.2108G>A	c.(2107-2109)CGC>CAC	p.R703H	uc002rrw.2_Intron|SLC8A1_uc002rry.2_Missense_Mutation_p.R698H|SLC8A1_uc002rrz.2_Missense_Mutation_p.R690H|SLC8A1_uc002rsa.2_Missense_Mutation_p.R667H|SLC8A1_uc002rsd.3_Missense_Mutation_p.R667H	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	703	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CAGGATGGGGCGCCCCATTTC	0.512													48	111					0	0	0.01441	0	0		T	40392055	T	T	40392055	3	4	20	1	0	0	0	0	1	0	0	0	14731	768	27	1	829	1	SLC8A1	2	40392055	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1338950	40392055	202807318	188	16910											
THADA	63892	broad.mit.edu	37	chr2	43458106	43458106	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaacatgccgcttctgttCttggaagagttaactgcctc	8	14	8	11	1	3	1	1	0	2	1	4	2	3	2	2	1	4	3	2	1	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:43458106C>A	uc002rsw.3	-	38	6195	c.5843G>T	c.(5842-5844)AGA>ATA	p.R1948I	THADA_uc010far.2_Missense_Mutation_p.R1143I|THADA_uc002rsx.3_Missense_Mutation_p.R1948I|THADA_uc002rsy.3_RNA	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1948							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				CGCTTCTGTTCTTGGAAGAGT	0.453													10	28					2.27111e-07	2.3537e-07	0.013537	1	0		A	43458106	A	A	43458106	3	1	20	1	0	0	0	0	1	0	0	0	15865	913	32	5	22	5	THADA	2	43458106	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3066051	43458106	199741267	189	16911											
PREPL	9581	broad.mit.edu	37	chr2	44548581	44548581	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggaatttaatttgggctgTaatctaaaagaaacacatta	17	12	7	5	0	1	1	0	0	1	1	1	2	1	2	0	2	1	2	0	2	7	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:44548581T>C	uc002ruf.2	-	14	2133	c.2098A>G	c.(2098-2100)ACA>GCA	p.T700A	PREPL_uc002rug.2_Missense_Mutation_p.T634A|PREPL_uc002ruh.2_Missense_Mutation_p.T638A|PREPL_uc010fax.2_Missense_Mutation_p.T700A|PREPL_uc002rui.3_Missense_Mutation_p.T611A|PREPL_uc002ruj.1_Missense_Mutation_p.T611A|PREPL_uc002ruk.1_Missense_Mutation_p.T700A	NM_006036	NP_006027	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like isoform C	700					proteolysis	cytosol	serine-type endopeptidase activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				ATTTGGGCTGTAATCTAAAAG	0.348													9	25					0	0	0.008291	0	0		C	44548581	C	C	44548581	3	2	20	1	0	0	0	0	1	0	0	0	12497	1638	57	3	89	3	PREPL	2	44548581	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1090475	44548581	198650792	190	16912											
EPAS1	2034	broad.mit.edu	37	chr2	46596995	46596995	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgattggttaccaccctgAggagctgcttggccgctcag	7	10	12	12	1	1	2	1	2	0	0	1	3	1	3	3	3	3	4	3	3	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:46596995A>C	uc002ruv.2	+	7	1297	c.809A>C	c.(808-810)GAG>GCG	p.E270A		NM_001430	NP_001421	Q99814	EPAS1_HUMAN	endothelial PAS domain protein 1	270	PAS 2.				angiogenesis|myoblast cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|response to hypoxia	transcription factor complex	histone acetyltransferase binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription coactivator activity|transcription factor binding			ovary(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	LUSC - Lung squamous cell carcinoma(58;0.151)			TACCACCCTGAGGAGCTGCTT	0.488													3	14					0	0	0.004672	0	0		C	46596995	C	C	46596995	3	2	20	1	0	0	0	0	1	0	0	0	5158	304	11	5	835	5	EPAS1	2	46596995	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2048414	46596995	196602378	191	16913											
FBXO11	80204	broad.mit.edu	37	chr2	48046210	48046210	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctattactccttgtcccTtttcatgctaaatgaaagtt	9	18	4	10	0	2	1	1	1	1	0	4	1	4	1	2	0	2	2	2	0	5	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:48046210T>C	uc010fbl.2	-	15	1667	c.1553A>G	c.(1552-1554)AAG>AGG	p.K518R	FBXO11_uc002rwe.2_Missense_Mutation_p.K518R|FBXO11_uc002rwf.2_Missense_Mutation_p.K518R|FBXO11_uc002rwg.1_Missense_Mutation_p.K518R|FBXO11_uc010fbk.2_Missense_Mutation_p.K26R	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	602	PbH1 10.				ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TCCTTGTCCCTTTTCATGCTA	0.368													29	97					0	0	0.008361	0	0		C	48046210	C	C	48046210	3	2	20	1	0	0	0	0	1	0	0	0	5741	1609	56	3	1104	3	FBXO11	2	48046210	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1449215	48046210	195153163	192	16914											
BCL11A	53335	broad.mit.edu	37	chr2	60688143	60688143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actccttctcgagcttgatgCgcttagagaaggggctcagc	8	10	12	11	2	2	2	1	1	1	1	4	4	3	2	1	2	3	3	1	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:60688143C>T	uc002sae.1	-	4	2132	c.1904G>A	c.(1903-1905)CGC>CAC	p.R635H	BCL11A_uc002sab.2_Missense_Mutation_p.R635H|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.R304H|BCL11A_uc010ypj.1_Missense_Mutation_p.R601H|BCL11A_uc002sad.1_Missense_Mutation_p.R483H|BCL11A_uc002saf.1_Missense_Mutation_p.R601H	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	635					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			GAGCTTGATGCGCTTAGAGAA	0.682			T	IGH@	B-CLL								16	38					0	0	0.010504	0	0		T	60688143	T	T	60688143	3	4	20	1	0	0	0	0	1	0	0	0	1364	768	27	1	713	1	BCL11A	2	60688143	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	12641933	60688143	182511230	193	16915											
PUS10	150962	broad.mit.edu	37	chr2	61175289	61175289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccttcggtgaaggacgCgcaaaggtgttttctggtcg	6	10	17	8	4	1	1	0	1	1	0	3	2	1	2	1	6	0	2	1	6	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:61175289C>T	uc010fci.2	-	16	1400	c.1340G>A	c.(1339-1341)CGC>CAC	p.R447H	PUS10_uc002sao.2_Missense_Mutation_p.R447H|PUS10_uc010ypk.1_Missense_Mutation_p.R224H	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	447	RNA binding thumb loop (Potential).				pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)			GTGAAGGACGCGCAAAGGTGT	0.527													7	217					0	0	0.004482	0	0		T	61175289	T	T	61175289	3	4	20	1	0	0	0	0	1	0	0	0	12856	768	27	1	261	1	PUS10	2	61175289	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	487146	61175289	182024084	194	16916											
GKN2	200504	broad.mit.edu	37	chr2	69173591	69173591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaacatgttgtccagaGcctagatcggtataacagaa	14	9	11	7	1	0	4	0	0	0	4	2	5	1	4	2	2	3	2	2	2	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:69173591G>A	uc002sfa.2	-	5	426	c.317C>T	c.(316-318)GCT>GTT	p.A106V	GKN2_uc002sfb.3_Missense_Mutation_p.A106V	NM_182536	NP_872342	Q86XP6	GKN2_HUMAN	trefoil factor interactions(z) 1 precursor	106	BRICHOS.					extracellular region					0						GTTGTCCAGAGCCTAGATCGG	0.378													15	144					0	0	0.00499	0	0		A	69173591	A	A	69173591	3	1	20	1	0	0	0	0	1	0	0	0	6440	985	34	2	245	2	GKN2	2	69173591	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	7998302	69173591	174025782	195	16917											
ASPRV1	151516	broad.mit.edu	37	chr2	70187970	70187970	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggagcacatcagtgccaAtgatggcttcctcggcactc	8	9	10	14	1	1	1	1	1	0	0	4	2	2	2	3	3	2	3	3	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:70187970A>G	uc002sfz.3	-	1	1428	c.851T>C	c.(850-852)ATT>ACT	p.I284T		NM_152792	NP_690005	Q53RT3	APRV1_HUMAN	aspartic peptidase, retroviral-like 1 precursor	284	Peptidase A2.|Extracellular (Potential).				protein maturation by peptide bond cleavage|skin development		aspartic-type endopeptidase activity			ovary(1)	1						ATCAGTGCCAATGATGGCTTC	0.557													5	160					0	0	0.000602	0	0		G	70187970	G	G	70187970	3	3	20	1	0	0	0	0	1	0	0	0	1059	101	4	3	184	3	ASPRV1	2	70187970	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1014379	70187970	173011403	196	16918											
ADD2	119	broad.mit.edu	37	chr2	70890743	70890743	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggtggtcatctggctcagGcctttgctgaggatttcctc	4	14	12	11	0	3	1	2	1	1	0	5	2	4	2	2	5	1	2	2	5	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:70890743G>A	uc002sgz.2	-	16	2460	c.1995C>T	c.(1993-1995)GGC>GGT	p.G665G	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_3'UTR|ADD2_uc002sha.2_Silent_p.G359G|ADD2_uc002sgx.2_3'UTR	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	665					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						TCTGGCTCAGGCCTTTGCTGA	0.607													61	171					0	0	0.01441	0	0		A	70890743	A	A	70890743	2	1	20	1	0	0	0	0	0	0	0	1	305	1190	42	2		2	ADD2	2	70890743	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	702773	70890743	172308630	197	16919											
ALMS1	7840	broad.mit.edu	37	chr2	73762058	73762058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attccaaatcagataccaccGttgaaagctcccattcaggt	13	10	6	12	1	2	2	2	1	0	1	4	2	4	2	4	1	2	2	4	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:73762058G>A	uc002sje.1	+	14	10003	c.9892G>A	c.(9892-9894)GTT>ATT	p.V3298I	ALMS1_uc002sjf.1_Missense_Mutation_p.V3254I|ALMS1_uc002sjg.2_Missense_Mutation_p.V2684I|ALMS1_uc002sjh.1_Missense_Mutation_p.V2684I|ALMS1_uc010fev.1_Missense_Mutation_p.V113I	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3296					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AGATACCACCGTTGAAAGCTC	0.343													63	181					0	0	0.01441	0	0		A	73762058	A	A	73762058	3	1	20	1	0	0	0	0	1	0	0	0	535	1145	40	1	9932	1	ALMS1	2	73762058	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2871315	73762058	169437315	198	16920											
ACTG2	72	broad.mit.edu	37	chr2	74140773	74140773	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctattcctttgtgaccacaGgtatccagccccttttctga	7	14	7	13	0	1	2	0	2	1	0	3	2	3	2	5	1	1	2	5	1	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:74140773G>T	uc002sjw.2	+	6	735	c.613G>T	c.(613-615)GCT>TCT	p.A205S	ACTG2_uc010fey.2_Missense_Mutation_p.A205S|ACTG2_uc010yrn.1_Missense_Mutation_p.A162S	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	205					muscle contraction	cytoskeleton|cytosol	ATP binding				0						TGTGACCACAGGTATCCAGCC	0.512													24	65					2.12542e-12	2.24237e-12	0.00632	1	0		T	74140773	T	T	74140773	3	4	20	1	0	0	0	0	1	0	0	0	197	1014	35	5	631	5	ACTG2	2	74140773	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	378715	74140773	169058600	199	16921											
HTRA2	27429	broad.mit.edu	37	chr2	74758134	74758134	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgcactgcagaacacgAtcacatccggcattgttagc	10	10	8	13	2	1	1	1	0	0	1	2	2	2	1	2	1	4	4	2	1	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:74758134A>G	uc002smi.1	+	3	1410	c.808A>G	c.(808-810)ATC>GTC	p.I270V	AUP1_uc002sme.2_5'Flank|AUP1_uc002smf.2_5'Flank|AUP1_uc002smg.2_5'Flank|AUP1_uc002smh.2_5'Flank|AUP1_uc010yrx.1_5'Flank|AUP1_uc010yry.1_5'Flank|HTRA2_uc002smj.1_Intron|HTRA2_uc002smk.1_Missense_Mutation_p.I270V|HTRA2_uc002sml.1_Missense_Mutation_p.I270V|HTRA2_uc002smm.1_Missense_Mutation_p.I11V|HTRA2_uc002smn.1_Missense_Mutation_p.I11V|HTRA2_uc010ffl.2_Missense_Mutation_p.I11V	NM_013247	NP_037379	O43464	HTRA2_HUMAN	HtrA serine peptidase 2 isoform 1 preproprotein	270	Serine protease.				apoptosis|proteolysis|response to stress	CD40 receptor complex|endoplasmic reticulum membrane|internal side of plasma membrane|mitochondrial intermembrane space|mitochondrial membrane|nucleus	serine-type endopeptidase activity|unfolded protein binding			ovary(1)	1						GCAGAACACGATCACATCCGG	0.542													9	331					0	0	0.006214	0	0		G	74758134	G	G	74758134	3	3	20	1	0	0	0	0	1	0	0	0	7470	333	12	3	818	3	HTRA2	2	74758134	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	617361	74758134	168441239	200	16922											
C2orf3	6936	broad.mit.edu	37	chr2	75917175	75917175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcctgatggttacaattcCcagaaagcacccttgcttgt	9	13	7	12	0	0	2	0	1	0	1	2	2	2	2	3	1	3	3	3	1	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:75917175C>T	uc002sno.2	-	9	1389	c.1259G>A	c.(1258-1260)GGG>GAG	p.G420E	C2orf3_uc010ffs.2_5'UTR|C2orf3_uc002snn.2_Missense_Mutation_p.G251E|C2orf3_uc010fft.2_Missense_Mutation_p.G95E	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	420					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						gttacaattcccagaaagcaC	0.134													10	36					0	0	0.008291	0	0		T	75917175	T	T	75917175	3	4	20	1	0	0	0	0	1	0	0	0	2165	623	22	4	1122	4	C2orf3	2	75917175	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1159041	75917175	167282198	201	16923											
C2orf3	6936	broad.mit.edu	37	chr2	75921541	75921541	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgagcggtgagtttcctgTagtaatgttaatctaaataa	12	15	10	4	1	1	2	0	2	1	0	2	2	2	2	1	1	1	4	1	1	6	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:75921541T>C	uc002sno.2	-	6	976	c.846A>G	c.(844-846)CTA>CTG	p.L282L	C2orf3_uc010ffs.2_5'UTR|C2orf3_uc002snn.2_Silent_p.L113L|C2orf3_uc010fft.2_5'UTR	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	282	Potential.				negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						GAGTTTCCTGTAGTAATGTTA	0.308													3	161					0	0	0.009096	0	0		C	75921541	C	C	75921541	2	2	20	1	0	0	0	0	0	0	0	1	2165	1625	57	3		3	C2orf3	2	75921541	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	4366	75921541	167277832	202	16924											
CTNNA2	1496	broad.mit.edu	37	chr2	80085151	80085151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttccaggtgagacgatgcGgatcgcctcctccgagtttg	6	11	12	12	4	1	1	0	1	1	1	5	5	4	2	4	2	1	1	4	2	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:80085151G>A	uc010ysh.1	+	3	316	c.311G>A	c.(310-312)CGG>CAG	p.R104Q	CTNNA2_uc010yse.1_Missense_Mutation_p.R104Q|CTNNA2_uc010ysf.1_Missense_Mutation_p.R104Q|CTNNA2_uc010ysg.1_Missense_Mutation_p.R104Q	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	104					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GAGACGATGCGGATCGCCTCC	0.562													20	64					0	0	0.00278	0	0		A	80085151	A	A	80085151	3	1	20	1	0	0	0	0	1	0	0	0	4016	1116	39	1	321	1	CTNNA2	2	80085151	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4163610	80085151	163114222	203	16925											
SUCLG1	8802	broad.mit.edu	37	chr2	84658722	84658722	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgccttctgtggcagaatcGttcaaaaagatttcgaggca	12	11	10	8	2	2	2	1	0	1	2	4	3	2	2	1	2	1	3	1	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:84658722G>A	uc002son.2	-	7	928	c.735C>T	c.(733-735)AAC>AAT	p.N245N		NM_003849	NP_003840	P53597	SUCA_HUMAN	succinate-CoA ligase, GDP-forming alpha subunit	245					tricarboxylic acid cycle		ATP citrate synthase activity|GTP binding|succinate-CoA ligase (GDP-forming) activity				0					Succinic acid(DB00139)	TGGCAGAATCGTTCAAAAAGA	0.353													37	90					0	0	0.003755	0	0		A	84658722	A	A	84658722	2	1	20	1	0	0	0	0	0	0	0	1	15389	1136	40	1		1	SUCLG1	2	84658722	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4573571	84658722	158540651	204	16926											
DNAH6	1768	broad.mit.edu	37	chr2	84780090	84780090	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatgaatctctcatccccAtgtttctcacagaactaatg	13	12	5	11	0	3	3	2	1	2	2	6	3	4	3	2	0	1	1	2	0	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:84780090A>G	uc010fgb.2	+	10	1671	c.1534A>G	c.(1534-1536)ATG>GTG	p.M512V	DNAH6_uc002soo.2_Missense_Mutation_p.M91V|DNAH6_uc002sop.2_Missense_Mutation_p.M91V	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	512	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1						TCTCATCCCCATGTTTCTCAC	0.393													38	108					0	0	0.004878	0	0		G	84780090	G	G	84780090	3	3	20	1	0	0	0	0	1	0	0	0	4611	217	8	3	1568	3	DNAH6	2	84780090	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	121368	84780090	158419283	205	16927											
MRPL35	51318	broad.mit.edu	37	chr2	86433347	86433347	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catattcagacaccagttgtTtcctccactcccagacttac	10	12	4	15	0	1	2	1	0	0	2	4	2	4	2	4	0	1	2	4	0	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:86433347T>C	uc002srg.3	+	2	220	c.162T>C	c.(160-162)GTT>GTC	p.V54V	MRPL35_uc002srf.3_Silent_p.V54V	NM_016622	NP_057706	Q9NZE8	RM35_HUMAN	mitochondrial ribosomal protein L35 isoform a	54					translation	mitochondrial ribosome	structural constituent of ribosome				0						CACCAGTTGTTTCCTCCACTC	0.418													18	245					0	0	0.008871	0	0		C	86433347	C	C	86433347	2	2	20	1	0	0	0	0	0	0	0	1	9816	1828	64	3		3	MRPL35	2	86433347	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1653257	86433347	156766026	206	16928											
RMND5A	64795	broad.mit.edu	37	chr2	87000484	87000484	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttagattaaaatgtcccTactgtccaatggaacaaagt	14	13	6	8	0	1	1	0	0	1	1	3	2	3	2	2	1	2	0	2	1	7	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:87000484T>C	uc010ytm.1	+	9	1503	c.1126T>C	c.(1126-1128)TAC>CAC	p.Y376H	RMND5A_uc002srs.3_Intron|RMND5A_uc002srr.2_Missense_Mutation_p.Y376H	NM_022780	NP_073617	Q9H871	RMD5A_HUMAN	required for meiotic nuclear division 5 homolog	376										ovary(1)|skin(1)	2						AAAATGTCCCTACTGTCCAAT	0.353													7	113					0	0	0.004482	0	0		C	87000484	C	C	87000484	3	2	20	1	0	0	0	0	1	0	0	0	13422	1522	53	3	1160	3	RMND5A	2	87000484	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	567137	87000484	156198889	207	16929											
CD8A	925	broad.mit.edu	37	chr2	87017507	87017507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatggagttgctcagggccGagcagaaatagtagccctcg	10	8	14	9	2	1	2	1	1	0	1	2	4	1	3	2	2	3	4	2	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:87017507G>A	uc002srt.2	-	2	1236	c.347C>T	c.(346-348)TCG>TTG	p.S116L	RMND5A_uc002srs.3_Intron|CD8A_uc002srv.2_Missense_Mutation_p.S116L|CD8A_uc010ytn.1_Missense_Mutation_p.S157L|CD8A_uc002sru.2_Missense_Mutation_p.S116L	NM_001768	NP_001759	P01732	CD8A_HUMAN	CD8 antigen alpha polypeptide isoform 1	116	Ig-like V-type.|Extracellular (Potential).				antigen processing and presentation|regulation of immune response|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			ovary(1)	1						GCTCAGGGCCGAGCAGAAATA	0.652													20	63					0	0	0.003954	0	0		A	87017507	A	A	87017507	3	1	20	1	0	0	0	0	1	0	0	0	3047	1059	37	1	380	1	CD8A	2	87017507	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	17023	87017507	156181866	208	16930											
EIF2AK3	9451	broad.mit.edu	37	chr2	88857427	88857427	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtcgttccatgggggatgGagagagcatgtcttgaacca	10	9	15	7	1	1	2	0	1	1	1	3	5	2	4	2	4	2	2	2	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:88857427G>T	uc002stc.3	-	17	3380	c.3178C>A	c.(3178-3180)CCA>ACA	p.P1060T		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	1060	Cytoplasmic (Potential).|Protein kinase.				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						ATGGGGGATGGAGAGAGCATG	0.403													38	120					1.62957e-23	1.74988e-23	0.00874	1	0		T	88857427	T	T	88857427	3	4	20	1	0	0	0	0	1	0	0	0	5004	1174	41	5	176	5	EIF2AK3	2	88857427	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1839920	88857427	154341946	209	16931											
ZAP70	7535	broad.mit.edu	37	chr2	98351887	98351887	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatggagatggctgggggCgggccgctgcacaagttcct	6	8	17	10	2	1	1	1	0	0	1	2	2	2	1	2	5	1	4	2	5	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:98351887C>T	uc002syd.1	+	10	1464	c.1257C>T	c.(1255-1257)GGC>GGT	p.G419G	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Silent_p.G309G|ZAP70_uc002syf.1_Silent_p.G112G	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	419	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						TGGCTGGGGGCGGGCCGCTGC	0.682													10	126					0	0	0.006214	0	0		T	98351887	T	T	98351887	2	4	20	1	0	0	0	0	0	0	0	1	17540	755	27	1		1	ZAP70	2	98351887	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	9494460	98351887	144847486	210	16932											
TSGA10	80705	broad.mit.edu	37	chr2	99688331	99688331	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacacaattagggcctcagtAcactgtctattccacaaatc	13	10	5	13	0	2	0	1	0	1	0	4	0	3	0	2	1	1	1	2	1	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:99688331A>G	uc002szg.3	-	12	1573	c.945T>C	c.(943-945)TGT>TGC	p.C315C	TSGA10_uc002szh.3_Silent_p.C315C|TSGA10_uc002szi.3_Silent_p.C315C|TSGA10_uc010fin.1_Silent_p.C315C|TSGA10_uc010yvn.1_Missense_Mutation_p.Y297H	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	315					spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						GGGCCTCAGTACACTGTCTAT	0.418													5	98					0	0	0.001168	0	0		G	99688331	G	G	99688331	2	3	20	1	0	0	0	0	0	0	0	1	16643	389	14	3		3	TSGA10	2	99688331	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1336444	99688331	143511042	211	16933											
NPAS2	4862	broad.mit.edu	37	chr2	101587538	101587538	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccactcctcagcactaaaggTacgcccatccctgccagatg	10	7	7	17	1	1	1	1	0	0	1	3	1	3	1	5	1	3	2	5	1	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:101587538T>C	uc002tap.1	+	12	1426	c.1140_splice	c.e12+2	p.K380_splice	NPAS2_uc010yvt.1_Splice_Site_p.K445_splice	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2						central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						GCACTAAAGGTACGCCCATCC	0.532													3	77					0	0	0.004672	0	0		C	101587538	C	C	101587538	5	2	20	1	0	0	0	0	0	0	1	0	10582	1652	57	3	1184	3	NPAS2	2	101587538	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1899207	101587538	141611835	212	16934											
NPAS2	4862	broad.mit.edu	37	chr2	101591353	101591353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccagtcattcgccatcggCgtcctcaagaagttcccaca	10	9	7	15	3	2	1	2	0	0	1	6	1	4	1	4	1	1	1	4	1	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:101591353C>T	uc002tap.1	+	13	1515	c.1229C>T	c.(1228-1230)GCG>GTG	p.A410V	NPAS2_uc010yvt.1_Missense_Mutation_p.A475V|NPAS2_uc010fit.1_5'UTR	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	410					central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						TCGCCATCGGCGTCCTCAAGA	0.557													17	62					0	0	0.00499	0	0		T	101591353	T	T	101591353	3	4	20	1	0	0	0	0	1	0	0	0	10582	768	27	1	1275	1	NPAS2	2	101591353	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3815	101591353	141608020	213	16935											
MRPS9	64965	broad.mit.edu	37	chr2	105709992	105709992	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttatatttttgaaggtaaAagaaagactgcaaaagcaga	18	12	8	3	0	0	4	0	1	0	3	0	4	0	4	0	1	2	3	0	1	8	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:105709992A>C	uc002tcn.3	+	9	893	c.825A>C	c.(823-825)AAA>AAC	p.K275N		NM_182640	NP_872578	P82933	RT09_HUMAN	mitochondrial ribosomal protein S9 precursor	275					DNA damage response, detection of DNA damage|translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0						TTGAAGGTAAAAGAAAGACTG	0.318													6	73					0	0	0.00308	0	0		C	105709992	C	C	105709992	3	2	20	1	0	0	0	0	1	0	0	0	9867	11	1	5	859	5	MRPS9	2	105709992	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	4118639	105709992	137489381	214	16936											
MALL	7851	broad.mit.edu	37	chr2	110849314	110849314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtatactatgtgggtggCggctaccatggtccagacca	8	9	15	9	1	0	1	0	0	0	1	1	1	1	1	3	6	2	2	3	6	4	4	rs141817647		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:110849314C>T	uc002tfk.2	-	2	913	c.139G>A	c.(139-141)GCC>ACC	p.A47T	MALL_uc010fju.2_Intron	NM_005434	NP_005425	Q13021	MALL_HUMAN	mal, T-cell differentiation protein-like	47	MARVEL.				cholesterol homeostasis	clathrin-coated vesicle|Golgi membrane|integral to membrane|membrane raft|plasma membrane	protein binding			ovary(1)|skin(1)	2				Epithelial(1;0.0546)|STAD - Stomach adenocarcinoma(1;0.18)		ATGTGGGTGGCGGCTACCATG	0.468													10	73					0	0	0.013537	0	0		T	110849314	T	T	110849314	3	4	20	1	0	0	0	0	1	0	0	0	9219	768	27	1	334	1	MALL	2	110849314	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	5139322	110849314	132350059	215	16937											
MERTK	10461	broad.mit.edu	37	chr2	112779029	112779029	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacatgactgtctgtgttgcGgacttcggcctctctaagaa	8	12	11	10	2	2	2	0	1	2	1	4	4	2	3	1	2	1	1	1	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:112779029G>A	uc002thk.1	+	17	2342	c.2220G>A	c.(2218-2220)GCG>GCA	p.A740A	MERTK_uc002thl.1_Silent_p.A564A	NM_006343	NP_006334	Q12866	MERTK_HUMAN	MER receptor tyrosine kinase precursor	740	Protein kinase.|Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|cell-cell signaling|leukocyte migration	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|upper_aerodigestive_tract(1)|stomach(1)|kidney(1)	9						TCTGTGTTGCGGACTTCGGCC	0.478													5	121					0	0	0.001984	0	0		A	112779029	A	A	112779029	2	1	20	1	0	0	0	0	0	0	0	1	9497	1103	39	1		1	MERTK	2	112779029	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1929715	112779029	130420344	216	16938											
IL1F10	84639	broad.mit.edu	37	chr2	113831989	113831989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttgcagacaactgctgtgCaggtgagcttctggggcctc	6	11	14	10	0	1	2	0	1	1	1	2	2	1	2	1	3	5	5	1	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:113831989C>T	uc002tiu.2	+	3	191	c.116C>T	c.(115-117)GCA>GTA	p.A39V	IL1F10_uc002tiv.2_Missense_Mutation_p.A39V|IL1F10_uc002tiw.2_5'Flank	NM_173161	NP_775184	Q8WWZ1	IL1FA_HUMAN	interleukin 1 family, member 10	39						extracellular space	cytokine activity|interleukin-1 receptor antagonist activity			ovary(1)	1						AACTGCTGTGCAGGTGAGCTT	0.552													8	22					0	0	0.00308	0	0		T	113831989	T	T	113831989	3	4	20	1	0	0	0	0	1	0	0	0	7668	710	25	2	122	2	IL1F10	2	113831989	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1052960	113831989	129367384	217	16939											
STEAP3	55240	broad.mit.edu	37	chr2	120012379	120012379	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccgtgacctcactgccGtccattgcaaactcgctcaa	8	9	8	16	3	2	1	2	1	0	0	4	1	3	1	4	1	3	2	4	1	2	1	rs144510346		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:120012379G>A	uc002tlp.2	+	5	1297	c.1140G>A	c.(1138-1140)CCG>CCA	p.P380P	STEAP3_uc002tlq.2_Silent_p.P390P|STEAP3_uc002tlr.2_Silent_p.P380P|STEAP3_uc010fle.2_Silent_p.P380P	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	380	Ferric oxidoreductase.|Cytoplasmic (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						CCTCACTGCCGTCCATTGCAA	0.612													9	37					0	0	0.010729	0	0		A	120012379	A	A	120012379	2	1	20	1	0	0	0	0	0	0	0	1	15304	1132	40	1		1	STEAP3	2	120012379	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6180390	120012379	123186994	218	16940											
ERCC3	2071	broad.mit.edu	37	chr2	128030479	128030479	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaattttggggttgtgctTgaaattctggagaatttgca	9	17	12	3	0	1	2	0	1	1	1	1	3	1	2	0	3	2	4	0	3	3	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:128030479T>A	uc002toh.1	-	11	1884	c.1789A>T	c.(1789-1791)AAG>TAG	p.K597*	ERCC3_uc002toe.1_Nonsense_Mutation_p.K352*|ERCC3_uc002tof.1_Nonsense_Mutation_p.K533*|ERCC3_uc002tog.1_Nonsense_Mutation_p.K533*	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	597	Helicase C-terminal.				cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		GGGTTGTGCTTGAAATTCTGG	0.488			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				5	178					0	0	0.001168	0	0		A	128030479	A	A	128030479	4	1	20	1	0	0	0	0	0	1	0	0	5222	1821	63	5	579	5	ERCC3	2	128030479	Nonsense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	8018100	128030479	115168894	219	16941											
WDR33	55339	broad.mit.edu	37	chr2	128480887	128480887	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagattatatcgatctcgcaTtttatcacctggtcggtttc	8	17	7	9	3	2	1	1	0	1	1	6	2	2	1	1	2	0	2	1	2	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:128480887T>C	uc002tpg.1	-	12	1414	c.1231A>G	c.(1231-1233)ATG>GTG	p.M411V		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	411	WD 7.				postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		CGATCTCGCATTTTATCACCT	0.373													16	198					0	0	0.00499	0	0		C	128480887	C	C	128480887	3	2	20	1	0	0	0	0	1	0	0	0	17313	1493	52	3	2823	3	WDR33	2	128480887	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	450408	128480887	114718486	220	16942											
SAP130	79595	broad.mit.edu	37	chr2	128707456	128707456	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactaacctttgacccggacGtcactgtacctctgaaagtg	11	10	8	12	2	2	2	1	2	1	0	2	3	2	3	3	1	3	1	3	1	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:128707456G>A	uc002tpp.2	-	17	2889	c.2757C>T	c.(2755-2757)GAC>GAT	p.D919D	SAP130_uc002tpn.2_Silent_p.D679D|SAP130_uc002tpo.2_Silent_p.D699D|SAP130_uc010fmd.2_Silent_p.D954D	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	919	Interactions with SIN3A and HDAC1.				histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		TGACCCGGACGTCACTGTACC	0.423													17	54					0	0	0.008871	0	0		A	128707456	A	A	128707456	2	1	20	1	0	0	0	0	0	0	0	1	13856	1136	40	1		1	SAP130	2	128707456	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	226569	128707456	114491917	221	16943											
SAP130	79595	broad.mit.edu	37	chr2	128707900	128707900	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttggggaggcaccaggtggTaggtcacttgtaggcatgga	8	9	17	7	0	1	0	1	0	0	0	1	2	1	2	1	8	0	4	1	8	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:128707900T>C	uc002tpp.2	-	16	2610	c.2478A>G	c.(2476-2478)CTA>CTG	p.L826L	SAP130_uc002tpn.2_Silent_p.L586L|SAP130_uc002tpo.2_Silent_p.L606L|SAP130_uc010fmd.2_Silent_p.L861L	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	826	Pro-rich.				histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		CACCAGGTGGTAGGTCACTTG	0.488													29	145					0	0	0.00632	0	0		C	128707900	C	C	128707900	2	2	20	1	0	0	0	0	0	0	0	1	13856	1625	57	3		3	SAP130	2	128707900	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	444	128707900	114491473	222	16944											
CCDC74A	90557	broad.mit.edu	37	chr2	132285715	132285715	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggacctggagaaaagcctgCagttcctgcagcagcagcac	11	6	12	12	0	0	1	0	0	0	1	1	3	1	2	3	2	6	6	3	2	2	1	rs146378866		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:132285715C>T	uc002tta.2	+	1	224	c.172C>T	c.(172-174)CAG>TAG	p.Q58*	CCDC74A_uc010fnb.1_Nonsense_Mutation_p.Q58*|CCDC74A_uc002ttb.2_Nonsense_Mutation_p.Q58*	NM_138770	NP_620125	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	58	Potential.									skin(1)	1						GAAAAGCCTGCAGTTCCTGCA	0.647													19	27					0	0	0.00278	0	0		T	132285715	T	T	132285715	4	4	20	1	0	0	0	0	0	1	0	0	2850	711	25	2	174	2	CCDC74A	2	132285715	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3577815	132285715	110913658	223	16945											
NCKAP5	344148	broad.mit.edu	37	chr2	133531439	133531439	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactgcatcgtcttcatccTcttgcaagttttcatttgcc	7	16	5	13	1	4	0	2	0	2	0	6	0	5	0	2	0	4	3	2	0	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:133531439T>A	uc002ttp.2	-	16	5452	c.5078A>T	c.(5077-5079)GAG>GTG	p.E1693V	NCKAP5_uc002ttq.2_Missense_Mutation_p.E374V	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1693							protein binding				0						GTCTTCATCCTCTTGCAAGTT	0.333													33	94					0	0	0.012213	0	0		A	133531439	A	A	133531439	3	1	20	1	0	0	0	0	1	0	0	0	10242	1551	54	5	671	5	NCKAP5	2	133531439	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1245724	133531439	109667934	224	16946											
NCKAP5	344148	broad.mit.edu	37	chr2	133542288	133542288	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggtccagcaggagttgaaTtgatggaaatctcatttctg	10	13	12	6	0	2	2	1	2	2	0	4	4	3	4	1	3	1	2	1	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:133542288T>A	uc002ttp.2	-	14	2470	c.2096A>T	c.(2095-2097)AAT>ATT	p.N699I	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	699							protein binding				0						AGGAGTTGAATTGATGGAAAT	0.453													9	204					0	0	0.008291	0	0		A	133542288	A	A	133542288	3	1	20	1	0	0	0	0	1	0	0	0	10242	1493	52	5	3661	5	NCKAP5	2	133542288	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	10849	133542288	109657085	225	16947											
MGAT5	4249	broad.mit.edu	37	chr2	135012020	135012020	+	Frame_Shift_Del	DEL	T	-	-																															tgtcctctcagaagctgggcTttttcctggtgacttttggc																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:135012020delT	uc002ttv.1	+	1	191	c.46delT	c.(46-48)TTTfs	p.F16fs		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	16	Helical; Signal-anchor for type II membrane protein; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		GAAGCTGGGCTTTTTCCTGGT	0.512													20	39	---	---	---	---						.	-	135012020	-	-	135012020	7	5	20	1	0	1	0	1	0	0	0	0	9566	1609	56	0	48	0	MGAT5	2	135012020	Frame_Shift_Del	DEL	T	TCGA-BR-4362-01A-01D-1158-08	1469732	135012020	108187353	226	16948											
R3HDM1	23518	broad.mit.edu	37	chr2	136393667	136393667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttctgtagatgagaataCgtttgaaagatgacagaaga	15	12	10	4	1	1	7	0	3	1	5	1	8	1	7	0	0	1	2	0	0	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:136393667C>T	uc002tuo.2	+	11	1187	c.817C>T	c.(817-819)CGT>TGT	p.R273C	R3HDM1_uc010fni.2_Missense_Mutation_p.R271C|R3HDM1_uc002tup.2_Missense_Mutation_p.R217C|R3HDM1_uc010zbh.1_Missense_Mutation_p.R105C	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	273							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		GATGAGAATACGTTTGAAAGA	0.353													28	63					0	0	0.004656	0	0		T	136393667	T	T	136393667	3	4	20	1	0	0	0	0	1	0	0	0	12912	536	19	1	851	1	R3HDM1	2	136393667	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1381647	136393667	106805706	227	16949											
THSD7B	80731	broad.mit.edu	37	chr2	138378192	138378192	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgcagcataatttggagaAgccccagagaatgagcattc	13	10	10	8	0	0	3	0	1	0	2	1	5	0	3	2	1	4	3	2	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:138378192A>C	uc002tva.1	+	19	3608	c.3608A>C	c.(3607-3609)AAG>ACG	p.K1203T	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AATTTGGAGAAGCCCCAGAGA	0.458													55	115					0	0	0.01441	0	0		C	138378192	C	C	138378192	3	2	20	1	0	0	0	0	1	0	0	0	15905	72	3	5	3681	5	THSD7B	2	138378192	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1984525	138378192	104821181	228	16950											
ZEB2	9839	broad.mit.edu	37	chr2	145147143	145147143	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgtatcgtttcgggatccgTatccatacttttattttcac	7	18	6	10	4	1	0	1	0	0	0	6	1	3	1	2	1	1	3	2	1	4	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:145147143T>C	uc002tvu.2	-	10	4000	c.3520A>G	c.(3520-3522)ACG>GCG	p.T1174A	ZEB2_uc002tvv.2_Missense_Mutation_p.T1168A|ZEB2_uc010zbm.1_Missense_Mutation_p.T1145A|ZEB2_uc010fnp.2_Intron	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	1174	Glu-rich (acidic).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TCGGGATCCGTATCCATACTT	0.498													9	317					0	0	0.006214	0	0		C	145147143	C	C	145147143	3	2	20	1	0	0	0	0	1	0	0	0	17649	1638	57	3	128	3	ZEB2	2	145147143	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	6768951	145147143	98052230	229	16951											
ZEB2	9839	broad.mit.edu	37	chr2	145157490	145157490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcctaaagggctggtggCtccaagcccaccattcataa	12	8	8	13	0	1	0	1	0	0	0	3	0	3	0	4	3	2	2	4	3	5	3	rs141793065	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:145157490C>T	uc002tvu.2	-	8	1744	c.1264G>A	c.(1264-1266)GCC>ACC	p.A422T	ZEB2_uc002tvv.2_Missense_Mutation_p.A416T|ZEB2_uc010zbm.1_Missense_Mutation_p.A393T|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.A451T	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	422						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		GGGCTGGTGGCTCCAAGCCCA	0.453													20	64					0	0	0.007413	0	0		T	145157490	T	T	145157490	3	4	20	1	0	0	0	0	1	0	0	0	17649	797	28	2	2392	2	ZEB2	2	145157490	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	10347	145157490	98041883	230	16952											
NEB	4703	broad.mit.edu	37	chr2	152410392	152410392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgatcattgacttgcaagtCggggtggcaaatccattcgt	9	12	12	8	2	1	2	1	2	0	0	4	2	2	2	1	3	1	2	1	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:152410392C>T	uc010fnx.2	-	98	14664	c.14473G>A	c.(14473-14475)GAC>AAC	p.D4825N	NEB_uc002txr.2_Missense_Mutation_p.D1248N	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	4825	Nebulin 132.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		ACTTGCAAGTCGGGGTGGCAA	0.547													15	60					0	0	0.003163	0	0		T	152410392	T	T	152410392	3	4	20	1	0	0	0	0	1	0	0	0	10321	884	31	1	6338	1	NEB	2	152410392	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	7252902	152410392	90788981	231	16953											
STAM2	10254	broad.mit.edu	37	chr2	153004561	153004561	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttttaatcacagcacgtaCttctgttgcaaaatcacggg	12	13	7	9	2	3	0	2	0	1	0	3	0	3	0	0	1	3	4	0	1	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:153004561C>G	uc002tyc.3	-	4	627	c.277G>C	c.(277-279)GTA>CTA	p.V93L	STAM2_uc010foa.1_Missense_Mutation_p.V93L|STAM2_uc002tyd.2_Missense_Mutation_p.V93L	NM_005843	NP_005834	O75886	STAM2_HUMAN	signal transducing adaptor molecule 2	93	VHS.				cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.22)		ACAGCACGTACTTCTGTTGCA	0.294													3	106					0	0	0.004672	0	0		G	153004561	G	G	153004561	3	3	20	1	0	0	0	0	1	0	0	0	15274	565	20	5	1344	5	STAM2	2	153004561	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	594169	153004561	90194812	232	16954											
NR4A2	4929	broad.mit.edu	37	chr2	157182788	157182788	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgaacgcattgcaaccTgtgcaagaccaccccattgc	11	6	8	16	2	0	1	0	0	0	1	0	2	0	1	5	0	5	3	5	0	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:157182788T>A	uc002tyz.3	-	7	1836	c.1414A>T	c.(1414-1416)AGG>TGG	p.R472W	NR4A2_uc002tyx.3_Missense_Mutation_p.R409W|NR4A2_uc010zcf.1_Missense_Mutation_p.R472W|NR4A2_uc010zcg.1_Intron	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	472					cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						CATTGCAACCTGTGCAAGACC	0.453													6	104					0	0	0.001984	0	0		A	157182788	A	A	157182788	3	1	20	1	0	0	0	0	1	0	0	0	10652	1579	55	5	390	5	NR4A2	2	157182788	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	4178227	157182788	86016585	233	16955											
GALNT5	11227	broad.mit.edu	37	chr2	158115241	158115241	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actagcagctgaaagggactTgaatgtgaccatcagtctta	13	10	10	8	0	2	3	1	3	1	0	2	4	2	4	1	1	2	2	1	1	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:158115241T>C	uc002tzg.2	+	1	902	c.647T>C	c.(646-648)TTG>TCG	p.L216S	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	216	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						GAAAGGGACTTGAATGTGACC	0.493													11	72					0	0	0.010729	0	0		C	158115241	C	C	158115241	3	2	20	1	0	0	0	0	1	0	0	0	6231	1821	63	3	649	3	GALNT5	2	158115241	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	932453	158115241	85084132	234	16956											
GALNT5	11227	broad.mit.edu	37	chr2	158152294	158152294	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagtaatcgaagtcatcAatgataaggatatgaggtaa	16	10	10	5	1	2	2	2	2	0	0	4	4	3	3	1	2	0	2	1	2	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:158152294A>G	uc002tzg.2	+	4	2116	c.1861A>G	c.(1861-1863)AAT>GAT	p.N621D	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	621	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						CGAAGTCATCAATGATAAGGA	0.368													8	171					0	0	0.004482	0	0		G	158152294	G	G	158152294	3	3	20	1	0	0	0	0	1	0	0	0	6231	130	5	3	1875	3	GALNT5	2	158152294	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	37053	158152294	85047079	235	16957											
TANC1	85461	broad.mit.edu	37	chr2	160086950	160086950	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttctggttctccatccagCagcataaagatgtcaagttc	10	13	7	11	0	4	1	1	0	3	1	7	1	5	1	2	1	2	4	2	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:160086950C>T	uc002uag.2	+	27	5287	c.5013C>T	c.(5011-5013)AGC>AGT	p.S1671S	TANC1_uc010zcm.1_3'UTR|TANC1_uc010fon.2_Silent_p.S515S	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1671	Ser-rich.					cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CTCCATCCAGCAGCATAAAGA	0.527													38	116					0	0	0.00623	0	0		T	160086950	T	T	160086950	2	4	20	1	0	0	0	0	0	0	0	1	15569	709	25	2		2	TANC1	2	160086950	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1934656	160086950	83112423	236	16958											
BAZ2B	29994	broad.mit.edu	37	chr2	160295518	160295518	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtccatgaaaaaaattatAcctggttgttacttttatgt	12	17	6	6	0	0	1	0	1	0	0	1	1	1	1	2	1	2	2	2	1	7	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:160295518A>G	uc002uao.2	-	7	1252	c.900_splice	c.e7+1	p.Q300_splice	BAZ2B_uc002uap.2_Splice_Site_p.Q298_splice|BAZ2B_uc002uas.1_Splice_Site_p.Q237_splice|BAZ2B_uc002uau.1_Splice_Site_p.Q298_splice|BAZ2B_uc002uaq.1_Splice_Site_p.Q228_splice|BAZ2B_uc002uat.3_Missense_Mutation_p.V238A|BAZ2B_uc010fop.1_Splice_Site_p.Q298_splice	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						AAAAAATTATACCTGGTTGTT	0.264													4	119					0	0	0.000602	0	0		G	160295518	G	G	160295518	5	3	20	1	0	0	0	0	0	0	1	0	1333	405	14	3	5728	3	BAZ2B	2	160295518	Splice_Site	SNP	A	TCGA-BR-4362-01A-01D-1158-08	208568	160295518	82903855	237	16959											
SLC4A10	57282	broad.mit.edu	37	chr2	162719492	162719492	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcagaatcagaaaaaacTcaccaacaggattcccattg	17	8	5	11	0	4	2	4	0	0	2	5	3	5	3	2	1	2	0	2	1	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:162719492T>G	uc002ubx.3	+	6	870	c.686T>G	c.(685-687)CTC>CGC	p.L229R	SLC4A10_uc010fpa.1_Missense_Mutation_p.L241R|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.L229R|SLC4A10_uc010zcs.1_Missense_Mutation_p.L240R	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	229	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						CAGAAAAAACTCACCAACAGG	0.403													14	28					0	0	0.00245	0	0		G	162719492	G	G	162719492	3	3	20	1	0	0	0	0	1	0	0	0	14676	1551	54	5	793	5	SLC4A10	2	162719492	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2423974	162719492	80479881	238	16960											
SCN3A	6328	broad.mit.edu	37	chr2	165984367	165984367	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattaagctctttgcttattTcaattccagtattattggac	11	18	5	7	0	2	0	1	0	1	0	3	1	3	1	1	1	2	3	1	1	6	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:165984367T>C	uc002ucx.2	-	18	3659	c.3167A>G	c.(3166-3168)GAA>GGA	p.E1056G	SCN3A_uc002ucy.2_Missense_Mutation_p.E1007G|SCN3A_uc002ucz.2_Missense_Mutation_p.E1007G|SCN3A_uc002uda.1_Missense_Mutation_p.E876G|SCN3A_uc002udb.1_Missense_Mutation_p.E876G	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1056						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	TTTGCTTATTTCAATTCCAGT	0.368													29	83					0	0	0.009535	0	0		C	165984367	C	C	165984367	3	2	20	1	0	0	0	0	1	0	0	0	13943	1783	62	3	2879	3	SCN3A	2	165984367	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3264875	165984367	77215006	239	16961											
XIRP2	129446	broad.mit.edu	37	chr2	168100923	168100923	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaagacagtccagcaagaAgaaatcgtaagaggtgatgt	17	7	12	5	1	0	5	0	1	0	4	2	5	1	5	1	1	1	3	1	1	6	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:168100923A>C	uc002udx.2	+	8	3039	c.3021A>C	c.(3019-3021)GAA>GAC	p.E1007D	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E832D|XIRP2_uc010fpq.2_Missense_Mutation_p.E785D|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	832					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TCCAGCAAGAAGAAATCGTAA	0.378													29	62					0	0	0.008361	0	0		C	168100923	C	C	168100923	3	2	20	1	0	0	0	0	1	0	0	0	17456	69	3	5	3051	5	XIRP2	2	168100923	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2116556	168100923	75098450	240	16962											
GORASP2	26003	broad.mit.edu	37	chr2	171806085	171806085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttaaggatctgctgaaaGcaaacgttgaaaagcctgta	14	10	9	8	1	2	2	0	2	2	0	2	3	2	3	1	1	4	4	1	1	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:171806085G>A	uc002ugk.2	+	3	321	c.181G>A	c.(181-183)GCA>ACA	p.A61T	GORASP2_uc002ugj.2_5'UTR|GORASP2_uc010zdl.1_Missense_Mutation_p.A73T|GORASP2_uc010zdm.1_Missense_Mutation_p.A17T|GORASP2_uc002ugl.2_5'UTR	NM_015530	NP_056345	Q9H8Y8	GORS2_HUMAN	golgi reassembly stacking protein 2	61	PDZ.					Golgi membrane				breast(1)|central_nervous_system(1)	2						TCTGCTGAAAGCAAACGTTGA	0.398													24	85					0	0	0.004656	0	0		A	171806085	A	A	171806085	3	1	20	1	0	0	0	0	1	0	0	0	6591	971	34	2	191	2	GORASP2	2	171806085	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3705162	171806085	71393288	241	16963											
DLX1	1745	broad.mit.edu	37	chr2	172952935	172952935	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatccccagctacacatcgTggtacccttcagcgcaccaa	11	8	6	16	2	1	0	1	0	0	0	3	0	2	0	4	1	4	3	4	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:172952935T>C	uc002uhl.2	+	3	916	c.718T>C	c.(718-720)TGG>CGG	p.W240R	DLX1_uc002uhm.2_3'UTR	NM_178120	NP_835221	P56177	DLX1_HUMAN	distal-less homeobox 1 isoform 1	240						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)			CTACACATCGTGGTACCCTTC	0.632													7	183					0	0	0.008291	0	0		C	172952935	C	C	172952935	3	2	20	1	0	0	0	0	1	0	0	0	4576	1696	59	3	728	3	DLX1	2	172952935	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1146850	172952935	70246438	242	16964											
CHRNA1	1134	broad.mit.edu	37	chr2	175613330	175613330	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttagactcctggtctgacTtcatggtctctgcgatgtac	6	15	10	10	1	3	2	1	1	2	1	5	3	4	2	1	2	2	2	1	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:175613330T>G	uc002ujd.2	-	9	1373	c.1295A>C	c.(1294-1296)AAG>ACG	p.K432T	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Missense_Mutation_p.K407T	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	432	Cytoplasmic.				muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						CTGGTCTGACTTCATGGTCTC	0.378											OREG0015079	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	75					0	0	0.006122	0	0		G	175613330	G	G	175613330	3	3	20	1	0	0	0	0	1	0	0	0	3384	1609	56	5	161	5	CHRNA1	2	175613330	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2660395	175613330	67586043	243	16965											
HOXD13	3239	broad.mit.edu	37	chr2	176957879	176957879	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgcacgggctcttcctcGtcgtcgtcctcttctgccgt	2	12	11	16	6	3	0	0	0	3	0	8	1	5	0	3	1	2	2	3	1	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:176957879G>A	uc002ukf.1	+	1	348	c.261G>A	c.(259-261)TCG>TCA	p.S87S		NM_000523	NP_000514	P35453	HXD13_HUMAN	homeobox D13	87	Poly-Ser.				skeletal system development|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0526)|READ - Rectum adenocarcinoma(9;0.0678)		GCTCTTCCTCGTCGTCGTCCT	0.567			T	NUP98	AML*								6	16					0	0	0.001984	0	0		A	176957879	A	A	176957879	2	1	20	1	0	0	0	0	0	0	0	1	7338	1132	40	1		1	HOXD13	2	176957879	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1344549	176957879	66241494	244	16966											
HOXD1	3231	broad.mit.edu	37	chr2	177054070	177054070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accctggtgctttccagaccGcatccccggccccaggcacc	6	6	9	20	2	0	1	0	0	0	1	2	1	2	1	8	3	1	3	8	3	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:177054070G>A	uc002ukv.3	+	1	764	c.541G>A	c.(541-543)GCA>ACA	p.A181T	HOXD1_uc010fqy.2_Missense_Mutation_p.A181T|HOXD1_uc010zez.1_Missense_Mutation_p.A181T	NM_024501	NP_078777	Q9GZZ0	HXD1_HUMAN	homeobox D1	181						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.0226)		TTTCCAGACCGCATCCCCGGC	0.657													5	15					0	0	0.000602	0	0		A	177054070	A	A	177054070	3	1	20	1	0	0	0	0	1	0	0	0	7334	1087	38	1	543	1	HOXD1	2	177054070	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	96191	177054070	66145303	245	16967											
TTC30B	150737	broad.mit.edu	37	chr2	178415909	178415909	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcataagagagctgctctTcctccttttcaatcttcctc	8	15	4	14	0	4	1	2	0	2	1	8	2	7	1	3	0	2	2	3	0	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:178415909T>C	uc002uln.2	-	1	1616	c.1583A>G	c.(1582-1584)GAA>GGA	p.E528G	TTC30B_uc010zfc.1_Missense_Mutation_p.E300G	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	528	Potential.				cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			GAGCTGCTCTTCCTCCTTTTC	0.378													120	341					0	0	0.01441	0	0		C	178415909	C	C	178415909	3	2	20	1	0	0	0	0	1	0	0	0	16725	1783	62	3	418	3	TTC30B	2	178415909	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1361839	178415909	64783464	246	16968											
RBM45	129831	broad.mit.edu	37	chr2	178985972	178985972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaggaagcaatctccaaaCgcttgtcagttgtatcaaga	13	9	9	10	1	3	1	2	0	1	1	4	2	3	2	2	1	2	4	2	1	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:178985972C>T	uc002ulv.2	+	5	831	c.739C>T	c.(739-741)CGC>TGC	p.R247C		NM_152945	NP_694453	Q8IUH3	RBM45_HUMAN	RNA binding motif protein 45	249					cell differentiation|nervous system development	cytoplasm|nucleus	nucleotide binding|RNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.00957)|all cancers(119;0.037)			AATCTCCAAACGCTTGTCAGT	0.358													19	50					0	0	0.007413	0	0		T	178985972	T	T	178985972	3	4	20	1	0	0	0	0	1	0	0	0	13164	536	19	1	757	1	RBM45	2	178985972	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	570063	178985972	64213401	247	16969											
TTN	7273	broad.mit.edu	37	chr2	179396497	179396497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatggtaccctgtgcgagcGcattctcagtgtgattcgag	8	11	12	10	3	1	1	1	1	1	0	3	3	1	1	1	1	3	2	1	1	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:179396497G>A	uc010zfg.1	-	307	97365	c.97141C>T	c.(97141-97143)CGC>TGC	p.R32381C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R26076C|TTN_uc010zfi.1_Missense_Mutation_p.R26009C|TTN_uc010zfj.1_Missense_Mutation_p.R25884C|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33308							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGTGCGAGCGCATTCTCAGT	0.443													31	88					0	0	0.005524	0	0		A	179396497	A	A	179396497	3	1	20	1	0	0	0	0	1	0	0	0	16761	1087	38	1	3154	1	TTN	2	179396497	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	410525	179396497	63802876	248	16970											
TTN	7273	broad.mit.edu	37	chr2	179403902	179403902	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaccaccatcatctttgggCcgggaccaggacaagctaac	12	6	10	13	1	2	0	1	0	1	0	2	3	2	2	4	3	3	1	4	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:179403902C>T	uc010zfg.1	-	302	91280	c.91056G>A	c.(91054-91056)CGG>CGA	p.R30352R	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.R24047R|TTN_uc010zfi.1_Silent_p.R23980R|TTN_uc010zfj.1_Silent_p.R23855R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31279							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATCTTTGGGCCGGGACCAGG	0.473													15	50					0	0	0.004007	0	0		T	179403902	T	T	179403902	2	4	20	1	0	0	0	0	0	0	0	1	16761	726	26	2		2	TTN	2	179403902	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	7405	179403902	63795471	249	16971											
TTN	7273	broad.mit.edu	37	chr2	179436451	179436451	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggtttgtcaagaacgataAcattaagggtttcaatagct	13	13	9	6	1	2	1	2	0	0	1	2	2	2	1	0	2	3	3	0	2	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:179436451A>C	uc010zfg.1	-	275	66928	c.66704T>G	c.(66703-66705)GTT>GGT	p.V22235G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V15930G|TTN_uc010zfi.1_Missense_Mutation_p.V15863G|TTN_uc010zfj.1_Missense_Mutation_p.V15738G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23162							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAGAACGATAACATTAAGGGT	0.438													35	89					0	0	0.006999	0	0		C	179436451	C	C	179436451	3	2	20	1	0	0	0	0	1	0	0	0	16761	43	2	5	33719	5	TTN	2	179436451	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	32549	179436451	63762922	250	16972											
TTN	7273	broad.mit.edu	37	chr2	179436480	179436480	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcaatagcttcaccagcTgagttagtcagtttaaccac	11	13	7	10	0	3	1	3	1	0	0	3	1	3	1	2	0	3	5	2	0	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:179436480T>C	uc010zfg.1	-	275	66899	c.66675A>G	c.(66673-66675)TCA>TCG	p.S22225S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.S15920S|TTN_uc010zfi.1_Silent_p.S15853S|TTN_uc010zfj.1_Silent_p.S15728S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23152							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTCACCAGCTGAGTTAGTCA	0.413													5	139					0	0	0.001168	0	0		C	179436480	C	C	179436480	2	2	20	1	0	0	0	0	0	0	0	1	16761	1567	55	3		3	TTN	2	179436480	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	29	179436480	63762893	251	16973											
TTN	7273	broad.mit.edu	37	chr2	179462439	179462439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcattcatgttccaggtgaCggttggaggaggctttccag	7	13	13	8	1	2	1	2	1	0	0	4	3	4	3	2	5	0	3	2	5	0	5	rs142841000	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:179462439C>T	uc010zfg.1	-	243	49890	c.49666G>A	c.(49666-49668)GTC>ATC	p.V16556I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V10251I|TTN_uc010zfi.1_Missense_Mutation_p.V10184I|TTN_uc010zfj.1_Missense_Mutation_p.V10059I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17483							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCCAGGTGACGGTTGGAGGA	0.493													26	72					0	0	0.00333	0	0		T	179462439	T	T	179462439	3	4	20	1	0	0	0	0	1	0	0	0	16761	536	19	1		1	TTN	2	179462439	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	25959	179462439	63736934	252	16974											
TTN	7273	broad.mit.edu	37	chr2	179484765	179484765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcttctaccccgcaagcaTattcacactcatcatccagc	10	11	4	16	1	5	0	3	0	2	0	6	0	6	0	3	0	3	2	3	0	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:179484765T>C	uc010zfg.1	-	198	38899	c.38675A>G	c.(38674-38676)TAT>TGT	p.Y12892C	TTN_uc010zfh.1_Missense_Mutation_p.Y6587C|TTN_uc010zfi.1_Missense_Mutation_p.Y6520C|TTN_uc010zfj.1_Missense_Mutation_p.Y6395C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13819							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCCGCAAGCATATTCACACTC	0.333													26	74					0	0	0.00632	0	0		C	179484765	C	C	179484765	3	2	20	1	0	0	0	0	1	0	0	0	16761	1406	49	3	61770	3	TTN	2	179484765	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	22326	179484765	63714608	253	16975											
TTN	7273	broad.mit.edu	37	chr2	179485466	179485466	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactattagattggctgcacTtttaacattttcacctctgt	9	18	5	9	0	2	1	1	0	1	1	2	1	2	1	1	1	3	2	1	1	4	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:179485466T>C	uc010zfg.1	-	196	38391	c.38167A>G	c.(38167-38169)AGT>GGT	p.S12723G	TTN_uc010zfh.1_Missense_Mutation_p.S6418G|TTN_uc010zfi.1_Missense_Mutation_p.S6351G|TTN_uc010zfj.1_Missense_Mutation_p.S6226G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13650							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGGCTGCACTTTTAACATTT	0.313													62	142					0	0	0.01441	0	0		C	179485466	C	C	179485466	3	2	20	1	0	0	0	0	1	0	0	0	16761	1609	56	3	62286	3	TTN	2	179485466	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	701	179485466	63713907	254	16976											
TTN	7273	broad.mit.edu	37	chr2	179604130	179604130	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacagtgtccactaaaggTgtatgtatcatggggccatc	12	10	11	8	0	1	0	1	0	0	0	3	1	2	0	2	3	1	2	2	3	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:179604130T>C	uc010zfh.1	-	46	13541	c.13317A>G	c.(13315-13317)ACA>ACG	p.T4439T	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Silent_p.T4372T|TTN_uc010zfj.1_Silent_p.T4247T|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCACTAAAGGTGTATGTATCA	0.423													3	104					0	0	0.009096	0	0		C	179604130	C	C	179604130	2	2	20	1	0	0	0	0	0	0	0	1	16761	1683	59	3		3	TTN	2	179604130	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	118664	179604130	63595243	255	16977											
TTN	7273	broad.mit.edu	37	chr2	179640650	179640650	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgggtaattctttcagcccTtttcaacttcacaacttctt	9	17	4	11	0	5	0	3	0	2	0	5	0	5	0	1	1	3	1	1	1	3	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:179640650T>C	uc010zfg.1	-	28	6165	c.5941A>G	c.(5941-5943)AGG>GGG	p.R1981G	TTN_uc010zfh.1_Missense_Mutation_p.R1935G|TTN_uc010zfi.1_Missense_Mutation_p.R1935G|TTN_uc010zfj.1_Missense_Mutation_p.R1935G|TTN_uc002unb.2_Missense_Mutation_p.R1981G|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1981							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTTCAGCCCTTTTCAACTTC	0.423													88	261					0	0	0.01441	0	0		C	179640650	C	C	179640650	3	2	20	1	0	0	0	0	1	0	0	0	16761	1608	56	3	105387	3	TTN	2	179640650	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	36520	179640650	63558723	256	16978											
DNAJC10	54431	broad.mit.edu	37	chr2	183601076	183601076	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tactgcttattttcctcctgGagccactttaaataacaaag	12	14	5	10	0	0	0	0	0	0	0	2	1	2	1	3	1	4	1	3	1	6	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:183601076G>C	uc002uow.1	+	11	1365	c.950G>C	c.(949-951)GGA>GCA	p.G317A	DNAJC10_uc002uox.1_RNA|DNAJC10_uc002uoy.1_RNA|DNAJC10_uc002uoz.1_Intron|DNAJC10_uc010fro.1_Intron	NM_018981	NP_061854	Q8IXB1	DJC10_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 10	317					apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|ER-associated protein catabolic process|glycerol ether metabolic process|negative regulation of protein phosphorylation|protein folding|response to endoplasmic reticulum stress	endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|extracellular region	ATPase activator activity|ATPase binding|chaperone binding|electron carrier activity|heat shock protein binding|misfolded protein binding|protein disulfide oxidoreductase activity|unfolded protein binding			ovary(1)|large_intestine(1)|breast(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			TTTCCTCCTGGAGCCACTTTA	0.328													11	44					0	0	0.00499	0	0		C	183601076	C	C	183601076	3	2	20	1	0	0	0	0	1	0	0	0	4635	1174	41	5	984	5	DNAJC10	2	183601076	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3960426	183601076	59598297	257	16979											
MFSD6	54842	broad.mit.edu	37	chr2	191362251	191362251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggtacagcaacagacagaaGatgtcatgccacgcattgag	14	7	11	9	1	1	4	1	1	0	3	1	4	1	4	1	1	4	3	1	1	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:191362251G>A	uc002urz.2	+	7	2302	c.1978G>A	c.(1978-1980)GAT>AAT	p.D660N	MFSD6_uc010zge.1_Missense_Mutation_p.D122N	NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	660					transmembrane transport	integral to membrane				ovary(2)	2						ACAGACAGAAGATGTCATGCC	0.488													7	199					0	0	0.00308	0	0		A	191362251	A	A	191362251	3	1	20	1	0	0	0	0	1	0	0	0	9553	942	33	4	1996	4	MFSD6	2	191362251	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	7761175	191362251	51837122	258	16980											
GLS	2744	broad.mit.edu	37	chr2	191819482	191819482	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggtgggacggtataggTcatgttgaagttgttaaatt	9	14	16	2	1	1	1	1	1	0	0	1	2	1	2	0	5	0	4	0	5	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:191819482T>C	uc002usf.2	+	17	2055	c.1791T>C	c.(1789-1791)GGT>GGC	p.G597G	GLS_uc002ush.2_Silent_p.G258G|GLS_uc010zgi.1_Missense_Mutation_p.S200P|GLS_uc010zgj.1_Silent_p.G102G	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	597	ANK.				cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	ACGGTATAGGTCATGTTGAAG	0.373													9	136					0	0	0.006214	0	0		C	191819482	C	C	191819482	2	2	20	1	0	0	0	0	0	0	0	1	6478	1681	58	3		3	GLS	2	191819482	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	457231	191819482	51379891	259	16981											
ANKRD44	91526	broad.mit.edu	37	chr2	197990131	197990131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgcccagtgcagagcaCgccggtccttcttgtcaaat	8	10	10	13	2	2	1	1	0	1	1	3	1	3	1	3	1	4	3	3	1	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:197990131C>T	uc002uuc.2	-	6	691	c.524G>A	c.(523-525)CGT>CAT	p.R175H	ANKRD44_uc002utz.3_5'Flank|ANKRD44_uc002uua.1_Missense_Mutation_p.R150H|ANKRD44_uc002uub.2_Missense_Mutation_p.R175H|ANKRD44_uc010zgw.1_Missense_Mutation_p.R103H	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	175	ANK 6.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GTGCAGAGCACGCCGGTCCTT	0.423													25	73					0	0	0.004656	0	0		T	197990131	T	T	197990131	3	4	20	1	0	0	0	0	1	0	0	0	672	536	19	1	2394	1	ANKRD44	2	197990131	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6170649	197990131	45209242	260	16982											
SGOL2	151246	broad.mit.edu	37	chr2	201438699	201438699	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaacccaaaaatcaggaatAggtaggttaataaccattat	19	9	7	6	0	1	1	1	0	0	1	1	2	1	2	2	3	2	2	2	3	9	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:201438699A>G	uc002uvw.2	+	7	3743	c.3630A>G	c.(3628-3630)ATA>ATG	p.I1210M	SGOL2_uc010zhd.1_Missense_Mutation_p.I1210M|SGOL2_uc010zhe.1_Missense_Mutation_p.I1210M	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	1210					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						AATCAGGAATAGGTAGGTTAA	0.343													24	76					0	0	0.003954	0	0		G	201438699	G	G	201438699	3	3	20	1	0	0	0	0	1	0	0	0	14242	434	15	3	3652	3	SGOL2	2	201438699	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3448568	201438699	41760674	261	16983											
NBEAL1	65065	broad.mit.edu	37	chr2	204037548	204037549	+	Frame_Shift_Ins	INS	-	A	A																															accaattggggtagttaatgINSaaaaaaacgccaaagctatg																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:204037548_204037549insA	uc002uzt.3	+	40	6541_6542	c.6208_6209insA	c.(6208-6210)GAAfs	p.E2070fs	NBEAL1_uc002uzs.3_Frame_Shift_Ins_p.E780fs	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	2070	BEACH.						binding			ovary(1)|skin(1)	2						GGTAGTTAATGAAAAAAACGCC	0.332													56	127	---	---	---	---						.	A	204037549	A	A	204037548	7	5	20	1	0	1	1	0	0	0	0	0	10206	1291	45	0	6362	0	NBEAL1	2	204037548	Frame_Shift_Ins	INS	-	TCGA-BR-4362-01A-01D-1158-08	2598849	204037548	39161825	262	16984											
NRP2	8828	broad.mit.edu	37	chr2	206592625	206592625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattccccaggtggacctgcGctttttaaccatgctcacgg	7	12	9	13	2	1	0	1	0	0	0	2	1	2	1	4	3	3	2	4	3	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:206592625G>A	uc002vaw.2	+	7	1792	c.1001G>A	c.(1000-1002)CGC>CAC	p.R334H	NRP2_uc002vat.2_Missense_Mutation_p.R334H|NRP2_uc002vau.2_Missense_Mutation_p.R334H|NRP2_uc002vav.2_Missense_Mutation_p.R334H|NRP2_uc002vax.2_Missense_Mutation_p.R334H|NRP2_uc002vay.2_Missense_Mutation_p.R334H|NRP2_uc010fud.2_Missense_Mutation_p.R334H	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	334	Extracellular (Potential).|F5/8 type C 1.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						GTGGACCTGCGCTTTTTAACC	0.483													4	20					0	0	0.000602	0	0		A	206592625	A	A	206592625	3	1	20	1	0	0	0	0	1	0	0	0	10680	1087	38	1	1027	1	NRP2	2	206592625	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2555077	206592625	36606748	263	16985											
C2orf80	389073	broad.mit.edu	37	chr2	209049730	209049730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggtcaaattcattttccCgaagtctgatgccaatataa	12	14	7	8	1	3	1	2	1	1	0	4	2	4	1	2	1	1	0	2	1	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:209049730C>T	uc002vcr.2	-	3	240	c.68G>A	c.(67-69)CGG>CAG	p.R23Q		NM_001099334	NP_001092804	Q0P641	CB080_HUMAN	hypothetical protein LOC389073	23										skin(1)	1						TTCATTTTCCCGAAGTCTGAT	0.413													33	61					0	0	0.003271	0	0		T	209049730	T	T	209049730	3	4	20	1	0	0	0	0	1	0	0	0	2200	652	23	1	541	1	C2orf80	2	209049730	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2457105	209049730	34149643	264	16986											
PIKFYVE	200576	broad.mit.edu	37	chr2	209169732	209169732	+	Frame_Shift_Del	DEL	A	-	-																															gccccctcaccctgctgaccAaaaaggtaggaggtagtcac																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:209169732delA	uc002vcz.2	+	12	1789	c.1631delA	c.(1630-1632)CAAfs	p.Q544fs	PIKFYVE_uc010fun.1_Frame_Shift_Del_p.Q225fs|PIKFYVE_uc002vcy.1_Intron|PIKFYVE_uc002vcv.2_Frame_Shift_Del_p.Q447fs|PIKFYVE_uc002vcw.2_Frame_Shift_Del_p.Q544fs|PIKFYVE_uc002vcx.2_Frame_Shift_Del_p.Q458fs	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	544					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						CCTGCTGACCAAAAAGGTAGG	0.547													24	48	---	---	---	---						.	-	209169732	-	-	209169732	7	5	20	1	0	1	0	1	0	0	0	0	11943	130	5	0	1673	0	PIKFYVE	2	209169732	Frame_Shift_Del	DEL	A	TCGA-BR-4362-01A-01D-1158-08	120002	209169732	34029641	265	16987											
LANCL1	10314	broad.mit.edu	37	chr2	211336712	211336712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtaaccggtgccatccCgagggtctgctgatttcagg	7	10	13	11	2	2	1	1	1	1	0	3	2	3	1	3	3	3	2	3	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:211336712C>T	uc010zjh.1	-	3	245	c.170G>A	c.(169-171)CGG>CAG	p.R57Q	LANCL1_uc002ved.2_Missense_Mutation_p.R57Q|LANCL1_uc010fuq.2_Missense_Mutation_p.R57Q	NM_001136574	NP_001130046	O43813	LANC1_HUMAN	lanthionine synthetase C-like protein 1	57						cytoplasm|integral to plasma membrane|microtubule cytoskeleton|nucleus	catalytic activity|G-protein coupled receptor activity|glutathione binding|low-density lipoprotein particle receptor binding|SH3 domain binding|zinc ion binding				0				Epithelial(149;0.00562)|Lung(261;0.0468)|LUSC - Lung squamous cell carcinoma(261;0.0495)|all cancers(144;0.0569)		GGTGCCATCCCGAGGGTCTGC	0.498													61	147					0	0	0.01441	0	0		T	211336712	T	T	211336712	3	4	20	1	0	0	0	0	1	0	0	0	8636	652	23	1	1061	1	LANCL1	2	211336712	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2166980	211336712	31862661	266	16988											
FN1	2335	broad.mit.edu	37	chr2	216272919	216272919	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcaggaggggcatcaggCgctaagaaagaaagaaagtg	15	5	16	5	1	2	3	2	0	0	3	2	4	2	4	0	4	0	2	0	4	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:216272919C>T	uc002vfa.2	-	17	2696	c.2430G>A	c.(2428-2430)GCG>GCA	p.A810A	FN1_uc002vfb.2_Silent_p.A810A|FN1_uc002vfc.2_Silent_p.A810A|FN1_uc002vfd.2_Silent_p.A810A|FN1_uc002vfe.2_Silent_p.A810A|FN1_uc002vff.2_Silent_p.A810A|FN1_uc002vfg.2_Silent_p.A810A|FN1_uc002vfh.2_Silent_p.A810A|FN1_uc002vfi.2_Silent_p.A810A|FN1_uc002vfj.2_Silent_p.A810A	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	810					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGGCATCAGGCGCTAAGAAAG	0.483													28	74					0	0	0.007291	0	0		T	216272919	T	T	216272919	2	4	20	1	0	0	0	0	0	0	0	1	5976	782	27	1		1	FN1	2	216272919	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4936207	216272919	26926454	267	16989											
FN1	2335	broad.mit.edu	37	chr2	216288950	216288950	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagatgtccgtcctgtcGcccttctgtggtgcaggagt	6	11	12	12	2	1	1	0	0	1	1	4	2	3	2	4	2	1	1	4	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:216288950G>A	uc002vfa.2	-	8	1401	c.1135C>T	c.(1135-1137)CGA>TGA	p.R379*	FN1_uc002vfb.2_Nonsense_Mutation_p.R379*|FN1_uc002vfc.2_Nonsense_Mutation_p.R379*|FN1_uc002vfd.2_Nonsense_Mutation_p.R379*|FN1_uc002vfe.2_Nonsense_Mutation_p.R379*|FN1_uc002vff.2_Nonsense_Mutation_p.R379*|FN1_uc002vfg.2_Nonsense_Mutation_p.R379*|FN1_uc002vfh.2_Nonsense_Mutation_p.R379*|FN1_uc002vfi.2_Nonsense_Mutation_p.R379*|FN1_uc002vfj.2_Nonsense_Mutation_p.R379*|FN1_uc002vfl.2_Nonsense_Mutation_p.R379*	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	379	Fibronectin type-II 1.|Collagen-binding.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCGTCCTGTCGCCCTTCTGTG	0.512													33	133					0	0	0.012213	0	0		A	216288950	A	A	216288950	4	1	20	1	0	0	0	0	0	1	0	0	5976	1095	38	1	6487	1	FN1	2	216288950	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	16031	216288950	26910423	268	16990											
ACCN4	55515	broad.mit.edu	37	chr2	220401863	220401863	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcagcgagcagcctatggCctgtcagccctgctgggtga	7	7	15	12	1	1	1	1	1	0	0	1	3	1	1	3	2	6	3	3	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:220401863C>T	uc002vma.2	+	6	1643	c.1629C>T	c.(1627-1629)GGC>GGT	p.G543G	ACCN4_uc002vlz.2_Silent_p.G562G|ACCN4_uc002vmb.2_Silent_p.G216G	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	543	Extracellular (Potential).					integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		CAGCCTATGGCCTGTCAGCCC	0.622													11	28					0	0	0.001855	0	0		T	220401863	T	T	220401863	2	4	20	1	0	0	0	0	0	0	0	1	131	726	26	2		2	ACCN4	2	220401863	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4112913	220401863	22797510	269	16991											
SERPINE2	5270	broad.mit.edu	37	chr2	224866464	224866464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcccatggggagagatcaCgatgttgtcatgaggcctcg	10	9	13	9	2	2	2	2	1	0	1	4	5	3	3	2	3	0	1	2	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:224866464C>T	uc002vnu.2	-	2	397	c.154G>A	c.(154-156)GTG>ATG	p.V52M	SERPINE2_uc002vnt.2_Missense_Mutation_p.V52M|SERPINE2_uc010zlr.1_Missense_Mutation_p.V64M|SERPINE2_uc002vnv.2_Missense_Mutation_p.V52M	NM_006216	NP_006207	P07093	GDN_HUMAN	plasminogen activator inhibitor type 1, member 2	52					negative regulation of blood coagulation|negative regulation of plasminogen activation|negative regulation of platelet aggregation|positive regulation of astrocyte differentiation|regulation of cell migration	cytosol|extracellular matrix|extracellular space|extrinsic to external side of plasma membrane|neuromuscular junction|platelet alpha granule	heparin binding|receptor binding|serine-type endopeptidase inhibitor activity			breast(2)|ovary(1)|central_nervous_system(1)	4		Renal(207;0.025)|all_lung(227;0.0586)|Lung NSC(271;0.0682)|all_hematologic(139;0.0797)		Epithelial(121;5.68e-10)|all cancers(144;1.9e-07)|Lung(261;0.0088)|LUSC - Lung squamous cell carcinoma(224;0.00902)		GGAGAGATCACGATGTTGTCA	0.567													17	79					0	0	0.006122	0	0		T	224866464	T	T	224866464	3	4	20	1	0	0	0	0	1	0	0	0	14137	536	19	1	1074	1	SERPINE2	2	224866464	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4464601	224866464	18332909	270	16992											
DOCK10	55619	broad.mit.edu	37	chr2	225729333	225729333	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaatgtttcccatcaagacTttttcgattttggccaccaa	10	14	6	11	1	1	1	1	0	0	1	3	2	2	1	3	1	0	2	3	1	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:225729333T>G	uc010fwz.1	-	13	1778	c.1539A>C	c.(1537-1539)AAA>AAC	p.K513N	DOCK10_uc002vob.2_Missense_Mutation_p.K507N|DOCK10_uc002vod.1_Missense_Mutation_p.K513N	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	513							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		CCATCAAGACTTTTTCGATTT	0.363													8	33					0	0	0.00308	0	0		G	225729333	G	G	225729333	3	3	20	1	0	0	0	0	1	0	0	0	4691	1606	56	5	5197	5	DOCK10	2	225729333	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	862869	225729333	17470040	271	16993											
DNER	92737	broad.mit.edu	37	chr2	230312192	230312192	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtccacatagcaggtgccGttgttctggcacggagacga	8	8	13	12	4	1	1	0	0	1	1	2	3	2	1	3	3	2	4	3	3	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:230312192G>A	uc002vpv.2	-	8	1473	c.1326C>T	c.(1324-1326)AAC>AAT	p.N442N	DNER_uc010zly.1_Silent_p.N170N	NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	442	Extracellular (Potential).|EGF-like 6.				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		AGCAGGTGCCGTTGTTCTGGC	0.532													11	33					0	0	0.010729	0	0		A	230312192	A	A	230312192	2	1	20	1	0	0	0	0	0	0	0	1	4673	1136	40	1		1	DNER	2	230312192	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4582859	230312192	12887181	272	16994											
C2orf57	165100	broad.mit.edu	37	chr2	232457920	232457920	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacacccagaaaaatcacAcctctgcttcccagccaaaa	17	5	4	15	0	2	2	1	0	1	2	3	2	3	2	4	0	2	1	4	0	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:232457920A>G	uc002vrz.2	+	1	309	c.258A>G	c.(256-258)ACA>ACG	p.T86T		NM_152614	NP_689827	Q53QW1	CB057_HUMAN	hypothetical protein LOC165100	86										ovary(1)	1		Renal(207;0.025)|all_hematologic(139;0.0735)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;1.33e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)		GAAAAATCACACCTCTGCTTC	0.527													4	132					0	0	0.000602	0	0		G	232457920	G	G	232457920	2	3	20	1	0	0	0	0	0	0	0	1	2181	146	6	3		3	C2orf57	2	232457920	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2145728	232457920	10741453	273	16995											
CHRNG	1146	broad.mit.edu	37	chr2	233408082	233408082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcctgaaacctcccaggcGgtgccactcatcagcaagta	10	7	10	14	1	2	1	2	1	0	0	3	1	3	1	4	2	4	2	4	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:233408082G>A	uc002vsx.1	+	8	924	c.903G>A	c.(901-903)GCG>GCA	p.A301A	CHRNG_uc010fye.1_Silent_p.A249A	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	301					muscle contraction	cell junction|postsynaptic membrane	acetylcholine receptor activity				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;6.39e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00079)|LUSC - Lung squamous cell carcinoma(224;0.00757)|Lung(119;0.0086)		CCTCCCAGGCGGTGCCACTCA	0.592													6	23					0	0	0.001984	0	0		A	233408082	A	A	233408082	2	1	20	1	0	0	0	0	0	0	0	1	3399	1103	39	1		1	CHRNG	2	233408082	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	950162	233408082	9791291	274	16996											
NGEF	25791	broad.mit.edu	37	chr2	233748147	233748147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacacgcagcagtccccgcGgagctgagtcaaatacctgg	10	5	11	15	3	1	1	1	1	0	0	2	2	2	2	4	2	3	3	4	2	2	1	rs141871026	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:233748147G>A	uc002vts.2	-	12	1879	c.1631C>T	c.(1630-1632)CCG>CTG	p.P544L	NGEF_uc010zmm.1_Missense_Mutation_p.P267L|NGEF_uc010fyg.1_Missense_Mutation_p.P452L	NM_019850	NP_062824	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor	544	PH.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)|skin(1)	7		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		CAGTCCCCGCGGAGCTGAGTC	0.652													4	7					0	0	0.009096	0	0		A	233748147	A	A	233748147	3	1	20	1	0	0	0	0	1	0	0	0	10413	1116	39	1	517	1	NGEF	2	233748147	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	340065	233748147	9451226	275	16997											
NGEF	25791	broad.mit.edu	37	chr2	233759467	233759467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtcccccccgtcctcaccGctcactgacagccagcacgt	6	7	7	21	3	2	1	2	1	0	0	4	1	4	1	6	0	2	2	6	0	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:233759467G>A	uc002vts.2	-	6	1236	c.988C>T	c.(988-990)CGG>TGG	p.R330W	NGEF_uc010zmm.1_Missense_Mutation_p.R53W|NGEF_uc010fyg.1_Missense_Mutation_p.R238W|NGEF_uc002vtt.2_Missense_Mutation_p.R238W	NM_019850	NP_062824	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor	330	DH.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)|skin(1)	7		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		CGTCCTCACCGCTCACTGACA	0.597													30	41					0	0	0.009535	0	0		A	233759467	A	A	233759467	3	1	20	1	0	0	0	0	1	0	0	0	10413	1101	38	1	1184	1	NGEF	2	233759467	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	11320	233759467	9439906	276	16998											
UGT1A1	54658	broad.mit.edu	37	chr2	234668959	234668959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggagtcccagggcggacGcccacttgtcctgggcctgc	4	8	15	14	2	0	0	0	0	0	0	2	2	2	2	4	4	1	0	4	4	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:234668959G>A	uc002vvb.2	+	1	41	c.26G>A	c.(25-27)CGC>CAC	p.R9H	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron|UGT1A9_uc002vva.2_Intron|UGT1A1_uc010znc.1_Missense_Mutation_p.R9H	NM_000463	NP_000454	P22309	UD11_HUMAN	UDP glycosyltransferase 1 family, polypeptide A1	9					bilirubin conjugation|digestion|estrogen metabolic process|flavone metabolic process|heme catabolic process	endoplasmic reticulum membrane|microsome	enzyme binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding|steroid binding			central_nervous_system(1)|skin(1)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;4.1e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000435)|Lung(119;0.00211)|LUSC - Lung squamous cell carcinoma(224;0.0054)	Abacavir(DB01048)|Adenine(DB00173)|Diclofenac(DB00586)|Estradiol(DB00783)|Ezetimibe(DB00973)|Irinotecan(DB00762)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Propofol(DB00818)|Rifampin(DB01045)|Troglitazone(DB00197)	CAGGGCGGACGCCCACTTGTC	0.567											OREG0003837	type=REGULATORY REGION|Gene=UGT1A1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	14	31					0	0	0.001855	0	0		A	234668959	A	A	234668959	3	1	20	1	0	0	0	0	1	0	0	0	16970	1087	38	1	28	1	UGT1A1	2	234668959	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	909492	234668959	8530414	277	16999											
HJURP	55355	broad.mit.edu	37	chr2	234749838	234749838	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcgagttgcgctgtgtgTggggttggtctttggaagtg	3	13	20	5	3	1	0	0	0	1	0	1	2	1	1	0	5	1	3	0	5	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:234749838T>C	uc002vvg.2	-	8	1654	c.1588A>G	c.(1588-1590)ACA>GCA	p.T530A	HJURP_uc010znd.1_Missense_Mutation_p.T469A|HJURP_uc010zne.1_Missense_Mutation_p.T438A	NM_018410	NP_060880	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	530					cell cycle|CenH3-containing nucleosome assembly at centromere|centromeric core chromatin assembly|chromosome segregation|regulation of DNA binding|regulation of protein complex assembly	condensed chromosome kinetochore|cytoplasm|nucleolus|nucleoplasm	DNA binding|histone binding			ovary(1)	1		Breast(86;0.00204)|all_lung(227;0.00433)|Renal(207;0.00685)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0719)|Lung SC(224;0.128)		Epithelial(121;2.01e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000186)|Lung(119;0.00521)|LUSC - Lung squamous cell carcinoma(224;0.00829)		GCGCTGTGTGTGGGGTTGGTC	0.473													8	174					0	0	0.006214	0	0		C	234749838	C	C	234749838	3	2	20	1	0	0	0	0	1	0	0	0	7205	1696	59	3	666	3	HJURP	2	234749838	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	80879	234749838	8449535	278	17000											
ANKMY1	51281	broad.mit.edu	37	chr2	241439944	241439944	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcctgagcattacaggCttcaggatgtcggccccgtg	6	9	12	14	2	1	1	1	1	0	0	2	2	1	2	4	3	3	2	4	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:241439944C>A	uc002vyz.1	-	13	2527	c.2298G>T	c.(2296-2298)AAG>AAT	p.K766N	ANKMY1_uc002vza.1_Missense_Mutation_p.K542N|ANKMY1_uc010fzd.1_Missense_Mutation_p.K855N|ANKMY1_uc002vzb.1_Missense_Mutation_p.K527N|ANKMY1_uc002vzc.1_Missense_Mutation_p.K545N|ANKMY1_uc002vzd.1_Missense_Mutation_p.K589N	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	766	ANK 7.						zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		GCATTACAGGCTTCAGGATGT	0.567													32	69					2.20474e-14	2.33775e-14	0.003755	1	0		A	241439944	A	A	241439944	3	1	20	1	0	0	0	0	1	0	0	0	634	796	28	5	547	5	ANKMY1	2	241439944	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6690106	241439944	1759429	279	17001											
PASK	23178	broad.mit.edu	37	chr2	242076435	242076435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccttgcccaggagctccGtctttccgtaaccaaacagt	9	9	7	16	2	1	0	0	0	1	0	3	1	3	1	6	1	4	2	6	1	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:242076435G>A	uc002wao.1	-	7	1213	c.1121C>T	c.(1120-1122)ACG>ATG	p.T374M	PASK_uc010zol.1_Missense_Mutation_p.T188M|PASK_uc010zom.1_Missense_Mutation_p.T339M|PASK_uc010fzl.1_Missense_Mutation_p.T374M|PASK_uc010zon.1_Missense_Mutation_p.T155M|PASK_uc002wap.2_5'Flank|PASK_uc002waq.2_Missense_Mutation_p.T374M	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	374	PAS 2.				regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CAGGAGCTCCGTCTTTCCGTA	0.642													4	71					0	0	0.000602	0	0		A	242076435	A	A	242076435	3	1	20	1	0	0	0	0	1	0	0	0	11491	1145	40	1	2898	1	PASK	2	242076435	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	636491	242076435	1122938	280	17002											
THAP4	51078	broad.mit.edu	37	chr2	242524055	242524055	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgtaggtgacgtgaagaTgctgagtcattggctgtgtc	7	14	14	6	1	2	4	1	3	1	1	3	4	2	4	0	2	1	3	0	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:242524055T>C	uc002wbt.2	-	6	1923	c.1700A>G	c.(1699-1701)CAT>CGT	p.H567R	THAP4_uc002wbs.2_Missense_Mutation_p.H155R	NM_015963	NP_057047	Q8WY91	THAP4_HUMAN	THAP domain containing 4 isoform 1	567		Iron (heme axial ligand).					DNA binding|metal ion binding				0		all_cancers(19;2.09e-34)|all_epithelial(40;2.09e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Ovarian(221;0.069)|Lung NSC(271;0.0886)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.2)		Epithelial(32;2.3e-33)|all cancers(36;8.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.68e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.65e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0844)		GACGTGAAGATGCTGAGTCAT	0.552													5	149					0	0	0.001168	0	0		C	242524055	C	C	242524055	3	2	20	1	0	0	0	0	1	0	0	0	15871	1464	51	3	37	3	THAP4	2	242524055	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	447620	242524055	675318	281	17003											
GAL3ST2	64090	broad.mit.edu	37	chr2	242741320	242741320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagacccacaacctgtccGtggcgctgcccgccggctca	6	5	11	19	5	1	1	1	0	0	1	2	2	2	1	6	2	2	2	6	2	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr2:242741320G>A	uc002wcj.1	+	3	375	c.244G>A	c.(244-246)GTG>ATG	p.V82M		NM_022134	NP_071417	Q9H3Q3	G3ST2_HUMAN	galactose-3-O-sulfotransferase 2	82	Lumenal (Potential).				biosynthetic process	Golgi cisterna membrane|integral to membrane	galactosylceramide sulfotransferase activity				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		CAACCTGTCCGTGGCGCTGCC	0.652													12	74					0	0	0.006122	0	0		A	242741320	A	A	242741320	3	1	20	1	0	0	0	0	1	0	0	0	6213	1145	40	1	254	1	GAL3ST2	2	242741320	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	217265	242741320	458053	282	17004											
TRNT1	51095	broad.mit.edu	37	chr3	3189636	3189636	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtatgtgaactactgaagtAccaaggagagcactgtctcc	12	10	10	9	0	1	3	0	2	1	1	2	4	1	3	2	1	4	3	2	1	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:3189636A>G	uc003bpp.3	+	8	1205	c.1103A>G	c.(1102-1104)TAC>TGC	p.Y368C	TRNT1_uc010hbv.2_Missense_Mutation_p.Y348C|TRNT1_uc003bpm.2_RNA	NM_182916	NP_886552	Q96Q11	TRNT1_HUMAN	tRNA nucleotidyl transferase, CCA-adding, 1	368					protein targeting to mitochondrion|tRNA 3'-end processing	mitochondrion	ATP binding|tRNA adenylyltransferase activity|tRNA binding				0				Epithelial(13;0.00226)|OV - Ovarian serous cystadenocarcinoma(96;0.00592)|all cancers(10;0.011)		CTACTGAAGTACCAAGGAGAG	0.428													5	124					0	0	0.001168	0	0		G	3189636	G	G	3189636	3	3	20	1	0	0	0	0	1	0	0	0	16599	391	14	3	1129	3	TRNT1	3	3189636	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08		3189636	194832794	283	17005											
GRM7	2917	broad.mit.edu	37	chr3	6903533	6903533	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggagaaagtagttggagTgattggggcttcggggagtt	8	10	19	4	2	0	2	0	1	0	1	1	5	0	4	1	6	0	4	1	6	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:6903533T>C	uc003bqm.2	+	1	732	c.458T>C	c.(457-459)GTG>GCG	p.V153A	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.V153A|GRM7_uc003bql.2_Missense_Mutation_p.V153A	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	153	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	GTAGTTGGAGTGATTGGGGCT	0.607													11	59					0	0	0.003163	0	0		C	6903533	C	C	6903533	3	2	20	1	0	0	0	0	1	0	0	0	6818	1696	59	3	460	3	GRM7	3	6903533	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3713897	6903533	191118897	284	17006											
GRM7	2917	broad.mit.edu	37	chr3	7621037	7621037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttggcaccgctcaatcagCggaaaaggtaagtgaaaatg	14	9	11	7	2	2	1	2	1	0	0	2	2	2	2	1	3	1	3	1	3	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:7621037C>T	uc003bqm.2	+	8	2718	c.2444C>T	c.(2443-2445)GCG>GTG	p.A815V	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.A815V|GRM7_uc003bql.2_Missense_Mutation_p.A815V|GRM7_uc003bqn.1_Missense_Mutation_p.A398V|GRM7_uc010hch.1_Missense_Mutation_p.A326V	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	815	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	GCTCAATCAGCGGAAAAGGTA	0.333													6	14					0	0	0.001168	0	0		T	7621037	T	T	7621037	3	4	20	1	0	0	0	0	1	0	0	0	6818	768	27	1	2474	1	GRM7	3	7621037	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	717504	7621037	190401393	285	17007											
SETD5	55209	broad.mit.edu	37	chr3	9488921	9488921	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgaagttagcaactctgTttcaaatgttaccatcccaa	13	13	5	10	0	3	1	1	1	2	0	4	1	4	1	2	0	3	4	2	0	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:9488921T>G	uc003brt.2	+	14	2147	c.1712T>G	c.(1711-1713)GTT>GGT	p.V571G	SETD5_uc003brs.1_Missense_Mutation_p.V552G|SETD5_uc003bru.2_Missense_Mutation_p.V473G|SETD5_uc003brv.2_Missense_Mutation_p.V460G|SETD5_uc010hck.2_Missense_Mutation_p.V53G|SETD5_uc003brx.2_Missense_Mutation_p.V240G	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	571										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		AGCAACTCTGTTTCAAATGTT	0.463													5	222					0	0	0.001984	0	0		G	9488921	G	G	9488921	3	3	20	1	0	0	0	0	1	0	0	0	14159	1725	60	5	1758	5	SETD5	3	9488921	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1867884	9488921	188533509	286	17008											
SLC6A1	6529	broad.mit.edu	37	chr3	11059010	11059010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaaggtgcagaagaaggCggcagacctccccgaccggg	10	3	16	12	3	1	3	1	0	0	3	2	4	2	3	4	5	1	2	4	5	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:11059010C>T	uc010hdq.2	+	3	524	c.113C>T	c.(112-114)GCG>GTG	p.A38V		NM_003042	NP_003033	P30531	SC6A1_HUMAN	solute carrier family 6 (neurotransmitter	38	Cytoplasmic (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)|skin(1)	2		Ovarian(110;0.0392)		OV - Ovarian serous cystadenocarcinoma(96;0.00099)	Cocaine(DB00907)|Tiagabine(DB00906)	CAGAAGAAGGCGGCAGACCTC	0.642													32	83					0	0	0.003271	0	0		T	11059010	T	T	11059010	3	4	20	1	0	0	0	0	1	0	0	0	14698	768	27	1	115	1	SLC6A1	3	11059010	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1570089	11059010	186963420	287	17009											
ATG7	10533	broad.mit.edu	37	chr3	11389392	11389392	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttgtggacaatgccaaGatctcctactccaatcctgt	11	12	6	12	0	1	1	0	0	1	1	4	2	3	2	4	1	2	0	4	1	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:11389392G>T	uc003bwc.2	+	12	1284	c.1167G>T	c.(1165-1167)AAG>AAT	p.K389N	ATG7_uc003bwd.2_Missense_Mutation_p.K389N|ATG7_uc011aum.1_Missense_Mutation_p.K350N	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	389					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						ACAATGCCAAGATCTCCTACT	0.527													24	73					3.73808e-20	3.99778e-20	0.005443	1	0		T	11389392	T	T	11389392	3	4	20	1	0	0	0	0	1	0	0	0	1102	933	33	5	1209	5	ATG7	3	11389392	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	330382	11389392	186633038	288	17010											
CAND2	23066	broad.mit.edu	37	chr3	12858373	12858373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cactacagcttgacctacagCccatcctggccgaggcactg	9	7	9	16	1	0	1	0	1	0	0	1	2	1	1	4	2	4	2	4	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:12858373C>T	uc003bxk.2	+	10	1991	c.1942C>T	c.(1942-1944)CCC>TCC	p.P648S	CAND2_uc003bxj.2_Missense_Mutation_p.P555S	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	648	HEAT 14.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						TGACCTACAGCCCATCCTGGC	0.647													24	89					0	0	0.00632	0	0		T	12858373	T	T	12858373	3	4	20	1	0	0	0	0	1	0	0	0	2619	739	26	2	1980	2	CAND2	3	12858373	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1468981	12858373	185164057	289	17011											
TMEM43	79188	broad.mit.edu	37	chr3	14175298	14175298	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccaaattggcaggttttTcctctcgtcaggtaagtctc	7	15	9	10	1	3	0	1	0	2	0	7	0	5	0	2	3	0	3	2	3	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:14175298T>C	uc003byk.2	+	7	826	c.572T>C	c.(571-573)TTC>TCC	p.F191S	TMEM43_uc003byl.1_Missense_Mutation_p.F71S	NM_024334	NP_077310	Q9BTV4	TMM43_HUMAN	transmembrane protein 43	191	Lumenal (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|nuclear inner membrane				ovary(1)	1						GGCAGGTTTTTCCTCTCGTCA	0.592													51	147					0	0	0.01441	0	0		C	14175298	C	C	14175298	3	2	20	1	0	0	0	0	1	0	0	0	16192	1783	62	3	598	3	TMEM43	3	14175298	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1316925	14175298	183847132	290	17012											
SATB1	6304	broad.mit.edu	37	chr3	18391030	18391030	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtggccgggtcttctgtcGgttttcctcatctgactctg	2	16	11	12	3	5	1	1	1	4	0	8	1	6	1	2	3	0	1	2	3	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:18391030G>A	uc003cbh.2	-	11	3659	c.1924C>T	c.(1924-1926)CGA>TGA	p.R642*	SATB1_uc003cbi.2_Nonsense_Mutation_p.R674*|SATB1_uc003cbj.2_Nonsense_Mutation_p.R642*	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	642					cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						GTCTTCTGTCGGTTTTCCTCA	0.597													26	68					0	0	0.007291	0	0		A	18391030	A	A	18391030	4	1	20	1	0	0	0	0	0	1	0	0	13878	1124	39	1	371	1	SATB1	3	18391030	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4215732	18391030	179631400	291	17013											
SATB1	6304	broad.mit.edu	37	chr3	18436246	18436246	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggtgttgatacgagcccaGggtgcaggtttggaagaggt	9	10	17	5	1	0	2	0	1	0	1	0	4	0	3	1	5	3	3	1	5	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:18436246G>T	uc003cbh.2	-	7	2649	c.914C>A	c.(913-915)CCT>CAT	p.P305H	SATB1_uc003cbi.2_Missense_Mutation_p.P305H|SATB1_uc003cbj.2_Missense_Mutation_p.P305H	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	305					cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						TACGAGCCCAGGGTGCAGGTT	0.572													32	82					7.16026e-08	7.43525e-08	0.012213	1	0		T	18436246	T	T	18436246	3	4	20	1	0	0	0	0	1	0	0	0	13878	1000	35	5	1397	5	SATB1	3	18436246	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	45216	18436246	179586184	292	17014											
SGOL1	151648	broad.mit.edu	37	chr3	20225109	20225109	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgaaaatacctgagcaggTtctactgtttgttgtgatgt	11	15	10	5	0	1	3	0	3	1	0	1	3	1	3	1	1	3	4	1	1	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:20225109T>C	uc003cbs.2	-	3	517	c.330A>G	c.(328-330)GAA>GAG	p.E110E	SGOL1_uc003cbr.2_Silent_p.E110E|SGOL1_uc010hfa.2_Silent_p.E110E|SGOL1_uc003cbt.2_Silent_p.E110E|SGOL1_uc003cbu.2_Silent_p.E110E|SGOL1_uc003cbv.2_Silent_p.E110E|SGOL1_uc003cbw.2_Silent_p.E110E|SGOL1_uc003cbx.2_Silent_p.E110E|SGOL1_uc003cby.2_Silent_p.E110E|SGOL1_uc003cbz.2_Silent_p.E110E|SGOL1_uc003cca.2_Silent_p.E110E|SGOL1_uc003ccb.2_Silent_p.E110E|SGOL1_uc003ccc.2_Silent_p.E110E	NM_001012410	NP_001012410	Q5FBB7	SGOL1_HUMAN	shugoshin-like 1 isoform A2	110	Necessary for interaction with PPP2CA and PPP2R1A.				attachment of spindle microtubules to kinetochore|cell division|centriole-centriole cohesion|meiotic chromosome segregation|mitotic prometaphase	centrosome|condensed chromosome kinetochore|cytosol|mitotic cohesin complex|spindle pole	protein binding				0						CCTGAGCAGGTTCTACTGTTT	0.323													5	186					0	0	0.001168	0	0		C	20225109	C	C	20225109	2	2	20	1	0	0	0	0	0	0	0	1	14241	1722	60	3		3	SGOL1	3	20225109	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1788863	20225109	177797321	293	17015											
RBMS3	27303	broad.mit.edu	37	chr3	29781233	29781233	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaagagcaagacccaacaaAcctatacatctcaaatctcc	18	6	3	14	0	2	2	1	0	2	2	4	2	2	2	3	0	4	1	3	0	7	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:29781233A>G	uc003cel.2	+	5	652	c.422A>G	c.(421-423)AAC>AGC	p.N141S	RBMS3_uc003cek.2_Missense_Mutation_p.N141S|RBMS3_uc010hfq.2_Missense_Mutation_p.N141S|RBMS3_uc003cem.2_Missense_Mutation_p.N140S|RBMS3_uc010hfr.2_Missense_Mutation_p.N141S	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	141	RRM 2.					cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				GACCCAACAAACCTATACATC	0.368													8	251					0	0	0.003163	0	0		G	29781233	G	G	29781233	3	3	20	1	0	0	0	0	1	0	0	0	13175	43	2	3	440	3	RBMS3	3	29781233	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	9556124	29781233	168241197	294	17016											
TRIM71	131405	broad.mit.edu	37	chr3	32915308	32915308	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaccctctcttgtccccAggtgctgcacctgtactgtg	4	13	9	15	0	1	0	0	0	1	0	3	0	2	0	4	1	4	4	4	1	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:32915308A>G	uc003cff.2	+	2	916	c.853_splice	c.e2-2	p.V285_splice		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71						multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						TCTTGTCCCCAGGTGCTGCAC	0.592													179	507					0	0	0.01441	0	0		G	32915308	G	G	32915308	5	3	20	1	0	0	0	0	0	0	1	0	16570	202	7	3	857	3	TRIM71	3	32915308	Splice_Site	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3134075	32915308	165107122	295	17017											
STAC	6769	broad.mit.edu	37	chr3	36484874	36484874	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccagaaactaaaacgaTcactttctttcaagaccaag	16	9	5	11	1	3	2	2	0	1	2	4	3	4	2	2	0	3	1	2	0	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:36484874T>G	uc003cgh.1	+	2	169	c.130T>G	c.(130-132)TCA>GCA	p.S44A	STAC_uc010hgd.1_RNA|STAC_uc011aya.1_Missense_Mutation_p.S44A	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	44					intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						ACTAAAACGATCACTTTCTTT	0.473													8	39					0	0	0.008291	0	0		G	36484874	G	G	36484874	3	3	20	1	0	0	0	0	1	0	0	0	15264	1435	50	5	136	5	STAC	3	36484874	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3569566	36484874	161537556	296	17018											
STAC	6769	broad.mit.edu	37	chr3	36484922	36484922	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagcaaaagtgctgacaacTtcttccagcgaaccaacagc	14	6	9	12	1	1	1	0	1	1	0	2	3	2	2	2	1	7	2	2	1	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:36484922T>G	uc003cgh.1	+	2	217	c.178T>G	c.(178-180)TTC>GTC	p.F60V	STAC_uc010hgd.1_RNA|STAC_uc011aya.1_Missense_Mutation_p.F60V	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	60					intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						TGCTGACAACTTCTTCCAGCG	0.498													13	56					0	0	0.013537	0	0		G	36484922	G	G	36484922	3	3	20	1	0	0	0	0	1	0	0	0	15264	1609	56	5	184	5	STAC	3	36484922	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	48	36484922	161537508	297	17019											
DLEC1	9940	broad.mit.edu	37	chr3	38163883	38163883	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctatgatgagagatacAtgttgcctcaccagccctga	10	10	9	12	0	1	4	1	3	0	1	2	5	2	4	4	0	3	2	4	0	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:38163883A>G	uc003cho.1	+	37	5269	c.5248A>G	c.(5248-5250)ATG>GTG	p.M1750V	DLEC1_uc003chp.1_Silent_p.T1708T|DLEC1_uc010hgv.1_Missense_Mutation_p.M1753V|DLEC1_uc003chr.1_Missense_Mutation_p.M821V|DLEC1_uc003chs.1_Silent_p.T265T	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	1750					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		TGAGAGATACATGTTGCCTCA	0.602													17	60					0	0	0.006122	0	0		G	38163883	G	G	38163883	3	3	20	1	0	0	0	0	1	0	0	0	4558	217	8	3	5394	3	DLEC1	3	38163883	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1678961	38163883	159858547	298	17020											
SLC22A14	9389	broad.mit.edu	37	chr3	38357177	38357177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgttcttcctctacaccGctgagctcctccccactgtg	4	13	7	17	1	2	1	0	1	2	0	5	1	5	1	5	0	2	3	5	0	1	3	rs114657493	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:38357177G>A	uc010hhc.1	+	9	1549	c.1507G>A	c.(1507-1509)GCT>ACT	p.A503T	SLC22A14_uc003cib.2_Missense_Mutation_p.A503T|SLC22A14_uc011ayo.1_RNA	NM_004803	NP_004794	Q9Y267	S22AE_HUMAN	organic cation transporter like 4	503	Helical; (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0554)|Kidney(284;0.0696)		CCTCTACACCGCTGAGCTCCT	0.572													58	127					0	0	0.01441	0	0		A	38357177	A	A	38357177	3	1	20	1	0	0	0	0	1	0	0	0	14470	1087	38	1	1537	1	SLC22A14	3	38357177	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	193294	38357177	159665253	299	17021											
SCN5A	6331	broad.mit.edu	37	chr3	38651314	38651314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgttgagcgctgtgaagttgCgcacgcacttgtgccttagg	6	11	14	10	4	0	2	0	2	0	0	0	2	0	2	1	1	3	5	1	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:38651314C>T	uc003cio.2	-	7	1039	c.845G>A	c.(844-846)CGC>CAC	p.R282H	SCN5A_uc003cin.2_Missense_Mutation_p.R282H|SCN5A_uc003cil.3_Missense_Mutation_p.R282H|SCN5A_uc010hhi.2_Missense_Mutation_p.R282H|SCN5A_uc010hhk.2_Missense_Mutation_p.R282H|SCN5A_uc011ayr.1_Missense_Mutation_p.R282H|SCN5A_uc010hhl.1_Missense_Mutation_p.R105H	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	282			R -> H (in BRS1).		blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	TGTGAAGTTGCGCACGCACTT	0.587													14	49					0	0	0.00499	0	0		T	38651314	T	T	38651314	3	4	20	1	0	0	0	0	1	0	0	0	13947	768	27	1	5293	1	SCN5A	3	38651314	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	294137	38651314	159371116	300	17022											
SCN11A	11280	broad.mit.edu	37	chr3	38888742	38888742	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttcagtggctgtattgaAgttctctaaaatcacagcaa	12	14	7	8	0	4	1	2	1	2	0	5	1	4	1	0	1	1	4	0	1	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:38888742A>C	uc011ays.1	-	26	5018	c.4819T>G	c.(4819-4821)TTC>GTC	p.F1607V		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1607					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	GCTGTATTGAAGTTCTCTAAA	0.408													5	140					0	0	0.000602	0	0		C	38888742	C	C	38888742	3	2	20	1	0	0	0	0	1	0	0	0	13938	72	3	5	560	5	SCN11A	3	38888742	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	237428	38888742	159133688	301	17023											
SCN11A	11280	broad.mit.edu	37	chr3	38962583	38962583	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaccataagcttccgggttActgatatttttacagtccct	9	16	6	10	1	0	1	0	1	0	0	2	1	2	1	3	1	4	2	3	1	5	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:38962583A>G	uc011ays.1	-	6	1075	c.876T>C	c.(874-876)AGT>AGC	p.S292S		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	292	I.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CTTCCGGGTTACTGATATTTT	0.448													7	541					0	0	0.004482	0	0		G	38962583	G	G	38962583	2	3	20	1	0	0	0	0	0	0	0	1	13938	388	14	3		3	SCN11A	3	38962583	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	73841	38962583	159059847	302	17024											
XIRP1	165904	broad.mit.edu	37	chr3	39230437	39230437	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggcttgccctgtcagcTcgtccagtggctttgtctca	3	14	10	14	1	2	0	2	0	1	0	5	0	3	0	3	2	2	3	3	2	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:39230437T>G	uc003cjk.1	-	2	721	c.500A>C	c.(499-501)GAG>GCG	p.E167A	XIRP1_uc003cji.2_Missense_Mutation_p.E167A|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	167							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CCCTGTCAGCTCGTCCAGTGG	0.622													6	29					0	0	0.004482	0	0		G	39230437	G	G	39230437	3	3	20	1	0	0	0	0	1	0	0	0	17455	1551	54	5	5035	5	XIRP1	3	39230437	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	267854	39230437	158791993	303	17025											
ULK4	54986	broad.mit.edu	37	chr3	41746635	41746635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgataaattcttctgatgCtgtcagtcctagaaatacag	12	14	7	8	0	3	3	1	2	2	1	4	3	4	3	1	0	2	1	1	0	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:41746635C>T	uc003ckv.3	-	27	2896	c.2695G>A	c.(2695-2697)GCA>ACA	p.A899T		NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	899							ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		TCTTCTGATGCTGTCAGTCCT	0.333													4	90					0	0	0.009096	0	0		T	41746635	T	T	41746635	3	4	20	1	0	0	0	0	1	0	0	0	17004	797	28	2	1176	2	ULK4	3	41746635	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2516198	41746635	156275795	304	17026											
SEC22C	9117	broad.mit.edu	37	chr3	42594846	42594846	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatttgccagaggttcctcAgcccgtgcaggtacatgttg	7	11	13	10	1	1	1	1	0	0	1	2	2	2	2	3	3	4	4	3	3	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:42594846A>G	uc003clj.2	-	7	924	c.806T>C	c.(805-807)CTG>CCG	p.L269P	SEC22C_uc003clh.2_Intron|SEC22C_uc011azo.1_Intron|SEC22C_uc010hic.2_Intron|SEC22C_uc003cli.2_Intron	NM_032970	NP_116752	Q9BRL7	SC22C_HUMAN	SEC22 vesicle trafficking protein homolog C	269	Helical; (Potential).				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.222)		GAGGTTCCTCAGCCCGTGCAG	0.468													9	73					0	0	0.008291	0	0		G	42594846	G	G	42594846	3	3	20	1	0	0	0	0	1	0	0	0	14015	188	7	3	155	3	SEC22C	3	42594846	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	848211	42594846	155427584	305	17027											
ZBTB47	92999	broad.mit.edu	37	chr3	42700986	42700986	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacagtcacatggccacacGgtcccgggagaacgcccggc	9	3	12	17	4	1	1	1	0	0	1	2	2	2	1	4	4	1	0	4	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:42700986G>T	uc003clu.1	+	1	113	c.11G>T	c.(10-12)CGG>CTG	p.R4L		NM_145166	NP_660149	Q9UFB7	ZBT47_HUMAN	zinc finger protein 651	4					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.216)		ATGGCCACACGGTCCCGGGAG	0.627													3	11					0.00024832	0.000252876	0.009096	1	0		T	42700986	T	T	42700986	3	4	20	1	0	0	0	0	1	0	0	0	17573	1116	39	5	1141	5	ZBTB47	3	42700986	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	106140	42700986	155321444	306	17028											
LTF	4057	broad.mit.edu	37	chr3	46497793	46497793	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactcacgtctttcggtcccGtagacttccgccgctacagg	7	10	9	15	5	2	1	1	0	1	1	5	1	4	1	3	2	2	2	3	2	3	4	rs145234336		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:46497793G>A	uc003cpq.2	-	3	341	c.303C>T	c.(301-303)TAC>TAT	p.Y101Y	LTF_uc003fzr.2_Silent_p.Y57Y|LTF_uc010hjh.2_Silent_p.Y101Y|LTF_uc003cpr.2_Silent_p.Y88Y	NM_002343	NP_002334	P02788	TRFL_HUMAN	lactotransferrin precursor	101	Transferrin-like 1.				cellular iron ion homeostasis|defense response to bacterium|humoral immune response|iron ion transport	extracellular region|stored secretory granule	ferric iron binding|heparin binding|protein binding|serine-type endopeptidase activity			central_nervous_system(2)|ovary(1)|lung(1)	4				all cancers(1;7.55e-14)|GBM - Glioblastoma multiforme(1;2.1e-09)|Epithelial(1;9.25e-07)|Colorectal(1;3.81e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00129)|COAD - Colon adenocarcinoma(1;0.00308)|KIRC - Kidney renal clear cell carcinoma(197;0.0205)|Kidney(197;0.0242)|OV - Ovarian serous cystadenocarcinoma(275;0.089)	Pefloxacin(DB00487)	TTTCGGTCCCGTAGACTTCCG	0.592													20	46					0	0	0.014323	0	0		A	46497793	A	A	46497793	2	1	20	1	0	0	0	0	0	0	0	1	9097	1140	40	1		1	LTF	3	46497793	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3796807	46497793	151524637	307	17029											
NBEAL2	23218	broad.mit.edu	37	chr3	47030358	47030358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcaggtgcagaggtccCgctgctaccactggatgagc	8	6	16	11	1	0	2	0	1	0	1	1	4	1	4	2	5	4	4	2	5	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:47030358C>T	uc003cqp.2	+	3	346	c.167C>T	c.(166-168)CCG>CTG	p.P56L	NBEAL2_uc003cqq.1_Missense_Mutation_p.P49L	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	56							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		GCAGAGGTCCCGCTGCTACCA	0.612													15	56					0	0	0.004007	0	0		T	47030358	T	T	47030358	3	4	20	1	0	0	0	0	1	0	0	0	10207	652	23	1	177	1	NBEAL2	3	47030358	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	532565	47030358	150992072	308	17030											
SCAP	22937	broad.mit.edu	37	chr3	47466983	47466983	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctagggacctacccgccattGagggtgggcgtcaggccgaa	8	6	15	12	3	1	1	1	1	0	0	1	3	1	2	4	4	1	0	4	4	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:47466983G>A	uc003crh.1	-	8	1284	c.1029C>T	c.(1027-1029)CTC>CTT	p.L343L	SCAP_uc011baz.1_Silent_p.L88L|SCAP_uc003crg.2_Intron	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	343	Lumenal (By similarity).|SSD.				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		ACCCGCCATTGAGGGTGGGCG	0.637													17	43					0	0	0.012319	0	0		A	47466983	A	A	47466983	2	1	20	1	0	0	0	0	0	0	0	1	13902	1277	45	4		4	SCAP	3	47466983	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	436625	47466983	150555447	309	17031											
UQCRC1	7384	broad.mit.edu	37	chr3	48638477	48638477	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgcaaggccacattgtcCgggctggcccagccaggacc	8	6	12	15	1	0	0	0	0	0	0	1	1	1	1	5	4	2	2	5	4	1	2	rs141289289		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:48638477C>T	uc003cub.1	-	8	942	c.897G>A	c.(895-897)CCG>CCA	p.P299P	UQCRC1_uc003cua.1_Silent_p.P184P|UQCRC1_uc003cuc.1_Silent_p.P300P|UQCRC1_uc003cud.1_Silent_p.P299P	NM_003365	NP_003356	P31930	QCR1_HUMAN	ubiquinol-cytochrome c reductase core protein I	299					aerobic respiration|proteolysis		metalloendopeptidase activity|ubiquinol-cytochrome-c reductase activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)	Atovaquone(DB01117)	CCACATTGTCCGGGCTGGCCC	0.592													9	18					0	0	0.008291	0	0		T	48638477	T	T	48638477	2	4	20	1	0	0	0	0	0	0	0	1	17045	639	23	1		1	UQCRC1	3	48638477	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1171494	48638477	149383953	310	17032											
USP19	10869	broad.mit.edu	37	chr3	49149205	49149205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgagactccaaggccatgCggcctggctgaaagggtggc	8	7	15	11	1	1	2	0	2	1	1	2	3	2	2	3	5	1	1	3	5	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:49149205C>T	uc003cwd.1	-	20	2797	c.2636G>A	c.(2635-2637)CGC>CAC	p.R879H	USP19_uc003cwa.2_Missense_Mutation_p.R687H|USP19_uc003cvz.3_Missense_Mutation_p.R982H|USP19_uc011bcg.1_Missense_Mutation_p.R970H|USP19_uc003cwb.2_Intron|USP19_uc003cwc.1_Missense_Mutation_p.R637H|USP19_uc011bch.1_Missense_Mutation_p.R980H	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	879	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CAAGGCCATGCGGCCTGGCTG	0.597													9	83					0	0	0.006214	0	0		T	49149205	T	T	49149205	3	4	20	1	0	0	0	0	1	0	0	0	17076	768	27	1	1348	1	USP19	3	49149205	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	510728	49149205	148873225	311	17033											
LAMB2	3913	broad.mit.edu	37	chr3	49167318	49167318	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcccaaagaagccatcAcggcattgctggcagcgagt	11	6	12	12	2	1	2	1	1	0	1	1	3	1	2	2	2	4	3	2	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:49167318A>C	uc003cwe.2	-	10	1658	c.1359T>G	c.(1357-1359)CGT>CGG	p.R453R	LAMB2_uc003cwf.1_Silent_p.R453R	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	453	Laminin EGF-like 3.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		AGAAGCCATCACGGCATTGCT	0.577													6	229					0	0	0.001984	0	0		C	49167318	C	C	49167318	2	2	20	1	0	0	0	0	0	0	0	1	8627	146	6	5		5	LAMB2	3	49167318	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	18113	49167318	148855112	312	17034											
LAMB2	3913	broad.mit.edu	37	chr3	49168877	49168877	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcacacgatagatgaccTggagaagcagggagttcata	14	6	12	9	1	1	3	1	1	0	2	1	6	1	4	2	2	2	3	2	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:49168877T>C	uc003cwe.2	-	6	948	c.649_splice	c.e6-1	p.V217_splice	LAMB2_uc003cwf.1_Splice_Site_p.V217_splice	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor						cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		ATAGATGACCTGGAGAAGCAG	0.597													4	156					0	0	0.001168	0	0		C	49168877	C	C	49168877	5	2	20	1	0	0	0	0	0	0	1	0	8627	1594	55	3	4857	3	LAMB2	3	49168877	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1559	49168877	148853553	313	17035											
MON1A	84315	broad.mit.edu	37	chr3	49949267	49949267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtcccgggccacacccGtcagctgggtgcttagctcg	5	7	14	15	3	1	0	1	0	0	0	3	0	2	0	3	3	3	4	3	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:49949267G>A	uc003cxz.2	-	3	722	c.596C>T	c.(595-597)ACG>ATG	p.T199M	MON1A_uc003cya.2_Intron|MON1A_uc003cyb.2_Intron	NM_032355	NP_115731	Q86VX9	MON1A_HUMAN	MON1 homolog A isoform a	102							protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		GGCCACACCCGTCAGCTGGGT	0.662													29	55					0	0	0.007291	0	0		A	49949267	A	A	49949267	3	1	20	1	0	0	0	0	1	0	0	0	9716	1145	40	1	1378	1	MON1A	3	49949267	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	780390	49949267	148073163	314	17036											
SEMA3F	6405	broad.mit.edu	37	chr3	50211525	50211525	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcgcatcgaggaatgcgTgctctcaggcaaggatgtca	11	7	13	10	3	2	0	2	0	1	0	4	3	2	2	0	3	3	3	0	3	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:50211525T>C	uc003cyj.2	+	4	512	c.314T>C	c.(313-315)GTG>GCG	p.V105A	SEMA3F_uc003cyk.2_Missense_Mutation_p.V105A	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	105	Sema.				axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		GAGGAATGCGTGCTCTCAGGC	0.632													8	57					0	0	0.004482	0	0		C	50211525	C	C	50211525	3	2	20	1	0	0	0	0	1	0	0	0	14054	1696	59	3	324	3	SEMA3F	3	50211525	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	262258	50211525	147810905	315	17037											
SEMA3F	6405	broad.mit.edu	37	chr3	50219807	50219807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcagacagccatgcgcaCggatcagtacaactcccggt	13	5	10	13	3	1	1	1	0	0	1	2	2	2	2	2	2	5	3	2	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:50219807C>T	uc003cyj.2	+	8	932	c.734C>T	c.(733-735)ACG>ATG	p.T245M	SEMA3F_uc003cyk.2_Missense_Mutation_p.T214M	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	245	Sema.				axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		GCCATGCGCACGGATCAGTAC	0.567													6	189					0	0	0.004482	0	0		T	50219807	T	T	50219807	3	4	20	1	0	0	0	0	1	0	0	0	14054	536	19	1	760	1	SEMA3F	3	50219807	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	8282	50219807	147802623	316	17038											
GNAI2	2771	broad.mit.edu	37	chr3	50289879	50289879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgccggcagtaccgggCggttgtctacagcaacacca	10	6	13	12	3	1	0	0	0	1	0	1	1	1	1	3	4	5	4	3	4	4	3	rs138213627		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:50289879C>T	uc003cyq.1	+	3	333	c.212C>T	c.(211-213)GCG>GTG	p.A71V	GNAI2_uc003cyo.1_Missense_Mutation_p.A55V|GNAI2_uc003cyp.1_Missense_Mutation_p.A55V|GNAI2_uc010hlg.1_5'UTR|GNAI2_uc011bdn.1_Missense_Mutation_p.A34V|GNAI2_uc003cyr.1_5'UTR	NM_002070	NP_002061	P04899	GNAI2_HUMAN	guanine nucleotide binding protein (G protein),	71					adenosine receptor signaling pathway|cell cycle|cell division|gamma-aminobutyric acid signaling pathway|inhibition of adenylate cyclase activity by G-protein signaling pathway|negative regulation of calcium ion transport via voltage-gated calcium channel activity|platelet activation|response to nutrient|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000288)|KIRC - Kidney renal clear cell carcinoma(197;0.00571)|Kidney(197;0.00651)		CAGTACCGGGCGGTTGTCTAC	0.587													16	20					0	0	0.003163	0	0		T	50289879	T	T	50289879	3	4	20	1	0	0	0	0	1	0	0	0	6520	768	27	1	233	1	GNAI2	3	50289879	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	70072	50289879	147732551	317	17039											
CACNA2D2	9254	broad.mit.edu	37	chr3	50418494	50418494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtgtggggtcttgtctgCggttttccatgaacacattc	6	14	12	9	1	2	1	0	1	2	0	4	1	3	1	1	3	2	2	1	3	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:50418494C>T	uc003daq.2	-	7	754	c.716G>A	c.(715-717)CGC>CAC	p.R239H	CACNA2D2_uc003dap.2_Missense_Mutation_p.R239H	NM_006030	NP_006021	Q9NY47	CA2D2_HUMAN	calcium channel, voltage-dependent, alpha	239	Extracellular (Potential).				energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000365)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)	Gabapentin(DB00996)	GTCTTGTCTGCGGTTTTCCAT	0.617													67	147					0	0	0.01441	0	0		T	50418494	T	T	50418494	3	4	20	1	0	0	0	0	1	0	0	0	2552	768	27	1	2874	1	CACNA2D2	3	50418494	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	128615	50418494	147603936	318	17040											
RAD54L2	23132	broad.mit.edu	37	chr3	51669660	51669660	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgggtgtcagagggtggCgtgctgctgatggggtacga	6	10	20	5	2	1	2	1	1	0	1	1	4	1	2	0	5	3	3	0	5	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:51669660C>T	uc011bdt.1	+	9	1319	c.1194C>T	c.(1192-1194)GGC>GGT	p.G398G	RAD54L2_uc003dbh.2_5'UTR|RAD54L2_uc011bdu.1_Silent_p.G92G|RAD54L2_uc003dbj.2_5'UTR	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	398	Helicase ATP-binding.					nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		CAGAGGGTGGCGTGCTGCTGA	0.473													8	38					0	0	0.006214	0	0		T	51669660	T	T	51669660	2	4	20	1	0	0	0	0	0	0	0	1	13019	755	27	1		1	RAD54L2	3	51669660	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1251166	51669660	146352770	319	17041											
GRM2	2912	broad.mit.edu	37	chr3	51746690	51746690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtctgagggcgactatggcGagacaggcattgaggccttt	8	9	15	9	3	1	3	0	2	1	1	1	5	1	3	1	4	0	1	1	4	1	3	rs143196180		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:51746690G>A	uc010hlv.2	+	3	891	c.652G>A	c.(652-654)GAG>AAG	p.E218K	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	218	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	CGACTATGGCGAGACAGGCAT	0.592													22	54					0	0	0.012319	0	0		A	51746690	A	A	51746690	3	1	20	1	0	0	0	0	1	0	0	0	6813	1059	37	1	658	1	GRM2	3	51746690	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	77030	51746690	146275740	320	17042											
PCBP4	57060	broad.mit.edu	37	chr3	51994571	51994571	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaagcaatcatggagaCtgcatggaagacagctgctg	13	9	12	7	0	1	3	1	1	0	2	1	5	1	4	0	2	4	4	0	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:51994571C>T	uc003dcd.1	-	4	622	c.226G>A	c.(226-228)GTC>ATC	p.V76I	PCBP4_uc003dcb.1_Missense_Mutation_p.V42I|PCBP4_uc003dcc.1_Missense_Mutation_p.V42I|PCBP4_uc003dce.1_Missense_Mutation_p.V76I|PCBP4_uc003dcf.1_Missense_Mutation_p.V76I|PCBP4_uc003dcg.1_Missense_Mutation_p.V42I|PCBP4_uc003dch.1_Missense_Mutation_p.V76I|PCBP4_uc003dci.1_5'UTR|PCBP4_uc003dcj.1_Missense_Mutation_p.V76I|PCBP4_uc003dck.1_Missense_Mutation_p.V76I|PCBP4_uc003dcl.1_Missense_Mutation_p.V76I	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	76						cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		ATCATGGAGACTGCATGGAAG	0.572													14	84					0	0	0.00245	0	0		T	51994571	T	T	51994571	3	4	20	1	0	0	0	0	1	0	0	0	11522	565	20	4	1021	4	PCBP4	3	51994571	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	247881	51994571	146027859	321	17043											
ABHD14B	84836	broad.mit.edu	37	chr3	52004061	52004061	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggggccgtgaggaagggcagGgagtacatgccactcagtga	10	5	18	8	1	1	2	1	2	0	0	1	4	1	4	2	5	2	2	2	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:52004061G>T	uc003dcm.2	-	3	1239	c.351C>A	c.(349-351)TCC>TCA	p.S117S	PCBP4_uc003dch.1_5'Flank|PCBP4_uc003dci.1_5'Flank|PCBP4_uc003dcj.1_5'Flank|PCBP4_uc003dck.1_5'Flank|ABHD14B_uc010hly.2_Intron|ABHD14B_uc011bdy.1_Silent_p.S117S|ABHD14B_uc003dcn.2_Silent_p.S117S|ABHD14B_uc011bdz.1_Silent_p.S117S	NM_032750	NP_116139	Q96IU4	ABHEB_HUMAN	abhydrolase domain containing 14B	117						cytoplasm|nucleus	hydrolase activity				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000548)|KIRC - Kidney renal clear cell carcinoma(197;0.00072)		GGAAGGGCAGGGAGTACATGC	0.627													20	62					1.56452e-12	1.65227e-12	0.007413	1	0		T	52004061	T	T	52004061	2	4	20	1	0	0	0	0	0	0	0	1	80	1219	43	5		5	ABHD14B	3	52004061	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	9490	52004061	146018369	322	17044											
ALAS1	211	broad.mit.edu	37	chr3	52245348	52245348	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgccagcacgagttctctGattgacaccgtacggtccta	9	10	9	13	4	1	2	0	2	1	0	4	3	2	2	3	1	2	3	3	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:52245348G>T	uc003dcy.1	+	10	1717	c.1380G>T	c.(1378-1380)CTG>CTT	p.L460L	ALAS1_uc003dcz.1_Silent_p.L460L|ALAS1_uc011bec.1_Silent_p.L477L	NM_000688	NP_000679	P13196	HEM1_HUMAN	5-aminolevulinate synthase 1 precursor	460					heme biosynthetic process	mitochondrial matrix	5-aminolevulinate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(2)|upper_aerodigestive_tract(1)	3				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.000583)|KIRC - Kidney renal clear cell carcinoma(197;0.000751)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	CGAGTTCTCTGATTGACACCG	0.522													28	66					2.14196e-07	2.22203e-07	0.007291	1	0		T	52245348	T	T	52245348	2	4	20	1	0	0	0	0	0	0	0	1	484	1277	45	5		5	ALAS1	3	52245348	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	241287	52245348	145777082	323	17045											
DNAH1	25981	broad.mit.edu	37	chr3	52379598	52379598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacggccagaggtcatcaCggccctcagcaaggtgaggg	10	4	14	13	2	3	2	3	1	0	1	3	2	3	2	2	5	1	1	2	5	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:52379598C>T	uc011bef.1	+	10	1793	c.1532C>T	c.(1531-1533)ACG>ATG	p.T511M	DNAH1_uc003ddt.1_Missense_Mutation_p.T511M	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	511	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GAGGTCATCACGGCCCTCAGC	0.592													5	6					0	0	0.000602	0	0		T	52379598	T	T	52379598	3	4	20	1	0	0	0	0	1	0	0	0	4603	536	19	1	1566	1	DNAH1	3	52379598	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	134250	52379598	145642832	324	17046											
CACNA1D	776	broad.mit.edu	37	chr3	53781379	53781379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgacagtcctgtggtccGtgaacggatctggcaaaaca	10	10	12	9	2	1	2	0	2	1	0	3	3	3	3	2	3	2	2	2	3	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:53781379G>A	uc003dgv.3	+	26	3381	c.3218G>A	c.(3217-3219)CGT>CAT	p.R1073H	CACNA1D_uc003dgu.3_Missense_Mutation_p.R1093H|CACNA1D_uc003dgy.3_Missense_Mutation_p.R1073H|CACNA1D_uc003dgw.3_Missense_Mutation_p.R740H|CACNA1D_uc003dgx.1_Missense_Mutation_p.R221H	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1073	Extracellular (Potential).|III.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	CCTGTGGTCCGTGAACGGATC	0.527													47	105					0	0	0.01441	0	0		A	53781379	A	A	53781379	3	1	20	1	0	0	0	0	1	0	0	0	2544	1145	40	1	3492	1	CACNA1D	3	53781379	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1401781	53781379	144241051	325	17047											
FLNB	2317	broad.mit.edu	37	chr3	58134519	58134519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagccaaagtctatggccgcGgcctgtcagaaggccggact	9	6	14	12	3	2	1	1	0	1	1	2	3	2	2	4	4	1	0	4	4	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:58134519G>A	uc003djj.2	+	36	6196	c.6031G>A	c.(6031-6033)GGC>AGC	p.G2011S	FLNB_uc010hne.2_Missense_Mutation_p.G2042S|FLNB_uc003djk.2_Missense_Mutation_p.G2000S|FLNB_uc010hnf.2_Missense_Mutation_p.G1987S|FLNB_uc003djl.2_Missense_Mutation_p.G1831S|FLNB_uc003djm.2_Missense_Mutation_p.G1818S|FLNB_uc010hng.1_5'Flank	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	2011	Filamin 19.|Interaction with the cytoplasmic tail of GP1BA.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		CTATGGCCGCGGCCTGTCAGA	0.582													30	52					0	0	0.004289	0	0		A	58134519	A	A	58134519	3	1	20	1	0	0	0	0	1	0	0	0	5948	1116	39	1	6270	1	FLNB	3	58134519	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4353140	58134519	139887911	326	17048											
PDHB	5162	broad.mit.edu	37	chr3	58414198	58414198	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaccagtttctttgaaatAccttccatgatcctggcaca	12	12	6	11	0	1	3	0	2	1	1	3	3	3	3	4	1	2	2	4	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:58414198A>G	uc003dkf.3	-	9	963	c.934_splice	c.e9+1	p.G312_splice	PDHB_uc003dke.3_Splice_Site_p.G270_splice|PDHB_uc003dkg.3_Splice_Site_p.G294_splice|PDHB_uc010hnl.2_Silent_p.G294G|PDHB_uc011bff.1_Splice_Site_p.G294_splice	NM_000925	NP_000916	P11177	ODPB_HUMAN	pyruvate dehydrogenase (lipoamide) beta						glycolysis|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(55;0.000179)|Kidney(10;0.00231)|KIRC - Kidney renal clear cell carcinoma(10;0.00258)|OV - Ovarian serous cystadenocarcinoma(275;0.187)	NADH(DB00157)|Pyruvic acid(DB00119)	TCTTTGAAATACCTTCCATGA	0.418													4	127					0	0	0.000602	0	0		G	58414198	G	G	58414198	5	3	20	1	0	0	0	0	0	0	1	0	11685	405	14	3	151	3	PDHB	3	58414198	Splice_Site	SNP	A	TCGA-BR-4362-01A-01D-1158-08	279679	58414198	139608232	327	17049											
LMOD3	56203	broad.mit.edu	37	chr3	69168508	69168508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtctcattaaactggagaCacctcatgatggccacaatc	12	9	8	12	1	2	2	2	1	1	1	4	3	2	2	2	2	1	0	2	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:69168508C>T	uc003dns.2	-	2	1207	c.998G>A	c.(997-999)TGT>TAT	p.C333Y	LMOD3_uc003dnt.2_Missense_Mutation_p.C333Y	NM_198271	NP_938012	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	333						cytoplasm|cytoskeleton	tropomyosin binding			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		AAACTGGAGACACCTCATGAT	0.453													78	248					0	0	0.01441	0	0		T	69168508	T	T	69168508	3	4	20	1	0	0	0	0	1	0	0	0	8875	478	17	4	692	4	LMOD3	3	69168508	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	10754310	69168508	128853922	328	17050											
LMOD3	56203	broad.mit.edu	37	chr3	69171477	69171477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caagttggccaagatttcatCttcattaatctcctcatcga	11	14	5	11	1	5	1	3	0	2	1	7	2	5	1	2	1	0	1	2	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:69171477C>T	uc003dns.2	-	1	270	c.61G>A	c.(61-63)GAT>AAT	p.D21N	LMOD3_uc003dnt.2_Missense_Mutation_p.D21N	NM_198271	NP_938012	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	21	Potential.					cytoplasm|cytoskeleton	tropomyosin binding			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		AAGATTTCATCTTCATTAATC	0.393													7	16					0	0	0.006214	0	0		T	69171477	T	T	69171477	3	4	20	1	0	0	0	0	1	0	0	0	8875	913	32	4	1633	4	LMOD3	3	69171477	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2969	69171477	128850953	329	17051											
ROBO1	6091	broad.mit.edu	37	chr3	79174622	79174622	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacctgtatagcccagcgaAttgtcatcgttatcagaggt	10	12	9	10	2	2	1	2	0	0	1	3	2	2	1	2	1	3	2	2	1	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:79174622A>C	uc003dqe.2	-	3	364	c.156T>G	c.(154-156)AAT>AAG	p.N52K		NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	52	Extracellular (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		AGCCCAGCGAATTGTCATCGT	0.493													9	25					0	0	0.010729	0	0		C	79174622	C	C	79174622	3	2	20	1	0	0	0	0	1	0	0	0	13538	98	4	5	4987	5	ROBO1	3	79174622	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	10003145	79174622	118847808	330	17052											
NFKBIZ	64332	broad.mit.edu	37	chr3	101575980	101575980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcaaatctggaactcattCgcctctttttggagctgccc	9	12	8	12	1	3	0	1	0	2	0	4	2	3	2	2	2	4	2	2	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:101575980C>T	uc003dvp.2	+	10	2003	c.1888C>T	c.(1888-1890)CGC>TGC	p.R630C	NFKBIZ_uc003dvo.2_Missense_Mutation_p.R530C|NFKBIZ_uc010hpo.2_Missense_Mutation_p.R530C|NFKBIZ_uc003dvq.2_Missense_Mutation_p.R508C	NM_031419	NP_113607	Q9BYH8	IKBZ_HUMAN	nuclear factor of kappa light polypeptide gene	630	Interaction with NFKB1/p50 (By similarity).|ANK 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(2)	2						GGAACTCATTCGCCTCTTTTT	0.463													47	158					0	0	0.013114	0	0		T	101575980	T	T	101575980	3	4	20	1	0	0	0	0	1	0	0	0	10402	884	31	1	1926	1	NFKBIZ	3	101575980	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	22401358	101575980	96446450	331	17053											
ZPLD1	131368	broad.mit.edu	37	chr3	102171933	102171933	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacctttccagcagtggtcAtttttatcatcaatctcagc	10	14	5	12	0	4	0	4	0	1	0	6	0	5	0	2	1	2	1	2	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:102171933A>T	uc003dvs.1	+	10	1159	c.277A>T	c.(277-279)ATT>TTT	p.I93F	ZPLD1_uc003dvt.1_Missense_Mutation_p.I109F|ZPLD1_uc011bhg.1_Missense_Mutation_p.I93F	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	93	ZP.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						AGCAGTGGTCATTTTTATCAT	0.453													6	81					0	0	0.001168	0	0		T	102171933	T	T	102171933	3	4	20	1	0	0	0	0	1	0	0	0	18246	217	8	5	335	5	ZPLD1	3	102171933	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	595953	102171933	95850497	332	17054											
MYH15	22989	broad.mit.edu	37	chr3	108220600	108220600	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgccgcttcagggtatgcaGcacggatgcctcattgaggt	7	9	14	11	3	2	1	2	1	0	0	2	2	2	2	2	3	3	4	2	3	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:108220600G>A	uc003dxa.1	-	4	415	c.358C>T	c.(358-360)CTG>TTG	p.L120L		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	120	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						AGGGTATGCAGCACGGATGCC	0.463													29	77					0	0	0.013726	0	0		A	108220600	A	A	108220600	2	1	20	1	0	0	0	0	0	0	0	1	10052	962	34	2		2	MYH15	3	108220600	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6048667	108220600	89801830	333	17055											
WDR52	55779	broad.mit.edu	37	chr3	113128021	113128021	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaaagtaaccttaaaaacTtcctgagaaaaagcttttgt	16	13	6	6	0	0	2	0	2	0	1	1	3	1	2	2	0	3	2	2	0	7	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:113128021T>G	uc003eae.1	-	7	868	c.822A>C	c.(820-822)GAA>GAC	p.E274D		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	274	WD 2.									central_nervous_system(1)	1						CCTTAAAAACTTCCTGAGAAA	0.438													4	177					0	0	0.009096	0	0		G	113128021	G	G	113128021	3	3	20	1	0	0	0	0	1	0	0	0	17330	1606	56	5	4873	5	WDR52	3	113128021	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	4907421	113128021	84894409	334	17056											
SIDT1	54847	broad.mit.edu	37	chr3	113327350	113327350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgctcagtgcttgctacCatgtctgccctaattattcc	6	14	9	12	0	2	0	1	0	1	0	3	0	3	0	3	1	5	3	3	1	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:113327350C>T	uc003eak.2	+	17	2338	c.1687C>T	c.(1687-1689)CAT>TAT	p.H563Y	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Missense_Mutation_p.H563Y|SIDT1_uc011big.1_Missense_Mutation_p.H316Y|SIDT1_uc011bih.1_RNA|SIDT1_uc011bii.1_Missense_Mutation_p.H16Y	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	563	Extracellular (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						TGCTTGCTACCATGTCTGCCC	0.428													6	218					0	0	0.001168	0	0		T	113327350	T	T	113327350	3	4	20	1	0	0	0	0	1	0	0	0	14327	594	21	4	1753	4	SIDT1	3	113327350	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	199329	113327350	84695080	335	17057											
GOLGB1	2804	broad.mit.edu	37	chr3	121416792	121416792	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactttacttgagatatgccTtacacgttctgccccctcaa	9	13	5	14	1	2	1	1	1	1	1	2	2	2	1	3	0	4	1	3	0	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:121416792T>A	uc003eei.3	-	13	2689	c.2563A>T	c.(2563-2565)AGG>TGG	p.R855W	GOLGB1_uc010hrc.2_Missense_Mutation_p.R860W|GOLGB1_uc003eej.3_Missense_Mutation_p.R821W|GOLGB1_uc011bjm.1_Missense_Mutation_p.R741W|GOLGB1_uc010hrd.1_Missense_Mutation_p.R819W	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	855	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		GAGATATGCCTTACACGTTCT	0.433													7	297					0	0	0.004482	0	0		A	121416792	A	A	121416792	3	1	20	1	0	0	0	0	1	0	0	0	6580	1608	56	5	7256	5	GOLGB1	3	121416792	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	8089442	121416792	76605638	336	17058											
HSPBAP1	79663	broad.mit.edu	37	chr3	122474162	122474162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttccggaactgaggaaaaCgctttaaatcaggattgaca	14	10	9	8	2	1	2	1	2	0	0	2	5	2	5	1	3	2	1	1	3	5	4	rs115965208	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:122474162C>T	uc003efu.1	-	5	809	c.686G>A	c.(685-687)CGT>CAT	p.R229H	HSPBAP1_uc003efv.1_3'UTR	NM_024610	NP_078886	Q96EW2	HBAP1_HUMAN	Hspb associated protein 1	229	JmjC.					cytoplasm				ovary(1)|lung(1)	2				GBM - Glioblastoma multiforme(114;0.0531)		CTGAGGAAAACGCTTTAAATC	0.418													30	78					0	0	0.013726	0	0		T	122474162	T	T	122474162	3	4	20	1	0	0	0	0	1	0	0	0	7441	536	19	1	796	1	HSPBAP1	3	122474162	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1057370	122474162	75548268	337	17059											
KALRN	8997	broad.mit.edu	37	chr3	124351289	124351289	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatactctcattcctcaagCgagaatggaggcaagtccga	12	8	10	11	2	2	1	2	0	1	1	5	4	4	2	2	2	2	2	2	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:124351289C>T	uc003ehg.2	+	35	5326	c.5199C>T	c.(5197-5199)AGC>AGT	p.S1733S	KALRN_uc003ehi.2_Silent_p.S106S|KALRN_uc003ehk.2_Silent_p.S36S|KALRN_uc003ehj.2_Silent_p.S36S	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1733					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						ATTCCTCAAGCGAGAATGGAG	0.592													29	80					0	0	0.003271	0	0		T	124351289	T	T	124351289	2	4	20	1	0	0	0	0	0	0	0	1	7991	767	27	1		1	KALRN	3	124351289	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1877127	124351289	73671141	338	17060											
KALRN	8997	broad.mit.edu	37	chr3	124413236	124413236	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttgcttggggacacagTgatactgcagtgcaaagtct	9	11	12	9	0	1	1	0	1	1	0	1	2	1	2	0	2	5	4	0	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:124413236T>C	uc003ehg.2	+	53	7590	c.7463T>C	c.(7462-7464)GTG>GCG	p.V2488A	KALRN_uc003ehk.2_Missense_Mutation_p.V791A	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2487	Ig-like C2-type.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GGGGACACAGTGATACTGCAG	0.493													5	140					0	0	0.000602	0	0		C	124413236	C	C	124413236	3	2	20	1	0	0	0	0	1	0	0	0	7991	1696	59	3	7829	3	KALRN	3	124413236	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	61947	124413236	73609194	339	17061											
ALDH1L1	10840	broad.mit.edu	37	chr3	125824741	125824741	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggccaaattccgtggcattGgcccgagacagcacggcatc	10	6	12	13	3	0	1	0	0	0	1	2	2	1	1	3	4	1	3	3	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:125824741G>T	uc003eim.1	-	22	2671	c.2481C>A	c.(2479-2481)GCC>GCA	p.A827A	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Silent_p.A726A|ALDH1L1_uc003ein.1_Silent_p.A362A	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	827	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	CCGTGGCATTGGCCCGAGACA	0.592													13	55					2.61681e-11	2.7553e-11	0.00245	1	0		T	125824741	T	T	125824741	2	4	20	1	0	0	0	0	0	0	0	1	494	1335	47	5		5	ALDH1L1	3	125824741	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1411505	125824741	72197689	340	17062											
CHST13	166012	broad.mit.edu	37	chr3	126261003	126261003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagaggcgctacggtgcacGcatcgttcagcgcctgcggc	6	6	14	15	6	1	1	1	0	0	1	2	1	1	1	2	3	4	4	2	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:126261003G>A	uc003eja.2	+	3	608	c.608G>A	c.(607-609)CGC>CAC	p.R203H		NM_152889	NP_690849	Q8NET6	CHSTD_HUMAN	carbohydrate sulfotransferase 13	203	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 4-sulfotransferase activity|N-acetylgalactosamine 4-O-sulfotransferase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.151)		TACGGTGCACGCATCGTTCAG	0.552													3	8					0	0	0.000602	0	0		A	126261003	A	A	126261003	3	1	20	1	0	0	0	0	1	0	0	0	3404	1087	38	1	618	1	CHST13	3	126261003	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	436262	126261003	71761427	341	17063											
PODXL2	50512	broad.mit.edu	37	chr3	127379771	127379771	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtttgtctggccagcaCgaggaggtgccggccttgcc	4	9	16	12	2	1	0	0	0	1	0	1	2	1	1	4	5	3	3	4	5	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:127379771C>T	uc003ejq.2	+	3	924	c.900C>T	c.(898-900)CAC>CAT	p.H300H		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	300	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						CTGGCCAGCACGAGGAGGTGC	0.612													12	35					0	0	0.003163	0	0		T	127379771	T	T	127379771	2	4	20	1	0	0	0	0	0	0	0	1	12200	535	19	1		1	PODXL2	3	127379771	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1118768	127379771	70642659	342	17064											
RPN1	6184	broad.mit.edu	37	chr3	128344441	128344441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacaggatgtagaaggccGccaccaccagcaggggctcc	12	3	13	13	1	0	2	0	0	0	2	1	3	1	3	5	4	2	3	5	4	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:128344441G>A	uc003ekr.1	-	8	1407	c.1331C>T	c.(1330-1332)GCG>GTG	p.A444V	RPN1_uc011bkq.1_Missense_Mutation_p.A272V	NM_002950	NP_002941	P04843	RPN1_HUMAN	ribophorin I precursor	444	Helical; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|melanosome|oligosaccharyltransferase complex|rough microsome	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(114;0.189)		GTAGAAGGCCGCCACCACCAG	0.542			T	EVI1	AML								70	173					0	0	0.01441	0	0		A	128344441	A	A	128344441	3	1	20	1	0	0	0	0	1	0	0	0	13632	1087	38	1	504	1	RPN1	3	128344441	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	964670	128344441	69677989	343	17065											
IFT122	55764	broad.mit.edu	37	chr3	129231177	129231177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccgttcagtgtccatcGtcctgaaactcttttcaaca	10	13	6	12	2	3	2	2	1	1	1	7	2	6	2	3	0	2	1	3	0	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:129231177G>A	uc003emm.2	+	24	3115	c.2909G>A	c.(2908-2910)CGT>CAT	p.R970H	IFT122_uc003eml.2_Missense_Mutation_p.R1021H|IFT122_uc003emn.2_Missense_Mutation_p.R911H|IFT122_uc003emo.2_Missense_Mutation_p.R860H|IFT122_uc003emp.2_Missense_Mutation_p.R820H|IFT122_uc010htc.2_Missense_Mutation_p.R963H|IFT122_uc011bky.1_Missense_Mutation_p.R761H|IFT122_uc003emq.2_Missense_Mutation_p.R810H|IFT122_uc003emr.2_Missense_Mutation_p.R723H|IFT122_uc011bla.1_Missense_Mutation_p.R744H|IFT122_uc010hte.2_Missense_Mutation_p.R296H|IFT122_uc003ems.2_Missense_Mutation_p.R352H|IFT122_uc011bkx.1_Missense_Mutation_p.R811H	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	970					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						AGTGTCCATCGTCCTGAAACT	0.517													62	188					0	0	0.01441	0	0		A	129231177	A	A	129231177	3	1	20	1	0	0	0	0	1	0	0	0	7571	1145	40	1	3163	1	IFT122	3	129231177	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	886736	129231177	68791253	344	17066											
EPHB1	2047	broad.mit.edu	37	chr3	134920469	134920469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctggtgtgcaaggtgtccGactttggcctctcccgctac	5	11	11	14	2	1	0	0	0	1	0	3	1	2	0	4	3	2	2	4	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:134920469G>A	uc003eqt.2	+	12	2504	c.2284G>A	c.(2284-2286)GAC>AAC	p.D762N	EPHB1_uc003equ.2_Missense_Mutation_p.D323N	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	762	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						CAAGGTGTCCGACTTTGGCCT	0.537													34	111					0	0	0.003271	0	0		A	134920469	A	A	134920469	3	1	20	1	0	0	0	0	1	0	0	0	5182	1058	37	1	2330	1	EPHB1	3	134920469	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5689292	134920469	63101961	345	17067											
EPHB1	2047	broad.mit.edu	37	chr3	134967254	134967254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggactgttggcagaaggacCggaacagccggccccggttt	8	7	15	11	3	0	1	0	0	0	1	0	4	0	4	4	6	2	3	4	6	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:134967254C>T	uc003eqt.2	+	14	2813	c.2593C>T	c.(2593-2595)CGG>TGG	p.R865W	EPHB1_uc003equ.2_Missense_Mutation_p.R426W	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	865	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GCAGAAGGACCGGAACAGCCG	0.592													14	31					0	0	0.003163	0	0		T	134967254	T	T	134967254	3	4	20	1	0	0	0	0	1	0	0	0	5182	643	23	1	2647	1	EPHB1	3	134967254	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	46785	134967254	63055176	346	17068											
PRR23C	389152	broad.mit.edu	37	chr3	138762837	138762837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaagatggggcgtggagagCgtctctctgaactggggttg	7	9	18	7	3	2	3	0	1	2	2	3	5	2	3	0	5	2	1	0	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:138762837C>T	uc011bmt.1	-	1	898	c.626G>A	c.(625-627)CGC>CAC	p.R209H		NM_001134657	NP_001128129	Q6ZRP0	PR23C_HUMAN	proline rich 23C	209	Pro-rich.									skin(1)	1						GCGTGGAGAGCGTCTCTCTGA	0.637													6	16					0	0	0.001168	0	0		T	138762837	T	T	138762837	3	4	20	1	0	0	0	0	1	0	0	0	12618	768	27	1	166	1	PRR23C	3	138762837	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3795583	138762837	59259593	347	17069											
ATP1B3	483	broad.mit.edu	37	chr3	141622486	141622486	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcttgctcttctacctagTtttttatgggttcctggctg	4	19	9	9	0	3	0	0	0	3	0	4	1	4	0	2	2	2	4	2	2	3	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:141622486T>C	uc003eug.1	+	2	308	c.134T>C	c.(133-135)GTT>GCT	p.V45A	ATP1B3_uc011bne.1_RNA|ATP1B3_uc003euh.1_Missense_Mutation_p.V31A	NM_001679	NP_001670	P54709	AT1B3_HUMAN	Na+/K+ -ATPase beta 3 subunit	45	Helical; Signal-anchor for type II membrane protein; (Potential).				ATP biosynthetic process|blood coagulation|leukocyte migration	melanosome|sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity				0						TTCTACCTAGTTTTTTATGGG	0.418													4	122					0	0	0.000602	0	0		C	141622486	C	C	141622486	3	2	20	1	0	0	0	0	1	0	0	0	1135	1725	60	3	140	3	ATP1B3	3	141622486	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2859649	141622486	56399944	348	17070											
PLSCR1	5359	broad.mit.edu	37	chr3	146246494	146246494	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctccaactggctgattataTactggctgattatacactgg	10	13	9	9	0	0	2	0	2	0	0	1	2	1	2	1	3	3	3	1	3	6	5	rs147509085	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:146246494T>C	uc003evx.3	-	4	607	c.219A>G	c.(217-219)GTA>GTG	p.V73V	PLSCR1_uc003evy.3_Silent_p.V66V|PLSCR1_uc011bnn.1_Intron|PLSCR1_uc003evz.3_Intron|PLSCR1_uc003ewa.2_Silent_p.V73V	NM_021105	NP_066928	O15162	PLS1_HUMAN	phospholipid scramblase 1	73	Cytoplasmic.				phospholipid scrambling|platelet activation|response to virus	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding			ovary(2)	2						GCTGATTATATACTGGCTGAT	0.537													36	96					0	0	0.00874	0	0		C	146246494	C	C	146246494	2	2	20	1	0	0	0	0	0	0	0	1	12128	1393	49	3		3	PLSCR1	3	146246494	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	4624008	146246494	51775936	349	17071											
ZIC4	84107	broad.mit.edu	37	chr3	147108745	147108745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagtcggcggtacgcgccGccaccgccgccgaggaggcc	6	3	15	17	8	1	0	1	0	0	0	2	2	1	1	6	4	1	1	6	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:147108745G>A	uc003ewd.1	-	4	1250	c.977C>T	c.(976-978)GCG>GTG	p.A326V	ZIC4_uc003ewc.1_Missense_Mutation_p.A256V|ZIC4_uc011bno.1_Missense_Mutation_p.A376V	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	326						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						GGTACGCGCCGCCACCGCCGC	0.706													11	17					0	0	0.004007	0	0		A	147108745	A	A	147108745	3	1	20	1	0	0	0	0	1	0	0	0	17706	1087	38	1	35	1	ZIC4	3	147108745	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	862251	147108745	50913685	350	17072											
MED12L	116931	broad.mit.edu	37	chr3	151082912	151082912	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaatgctgggcaagatcCtcagtgacaatgcggccaat	12	8	10	11	1	2	2	2	1	0	1	3	2	3	2	2	2	2	2	2	2	4	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:151082912C>A	uc003eyp.2	+	20	3036	c.2998C>A	c.(2998-3000)CTC>ATC	p.L1000I	MED12L_uc011bnz.1_Missense_Mutation_p.L860I|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.L163I	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1000					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GGGCAAGATCCTCAGTGACAA	0.493													73	196					8.50452e-49	9.21688e-49	0.01441	1	0		A	151082912	A	A	151082912	3	1	20	1	0	0	0	0	1	0	0	0	9447	681	24	5	3076	5	MED12L	3	151082912	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3974167	151082912	46939518	351	17073											
PLCH1	23007	broad.mit.edu	37	chr3	155210547	155210547	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atctccaaacatggagtctgGaggtttggggagttgctgtc	8	12	14	7	0	2	0	0	0	2	0	4	3	2	3	1	5	2	3	1	5	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:155210547G>C	uc011bok.1	-	17	2519	c.2242C>G	c.(2242-2244)CCA>GCA	p.P748A	PLCH1_uc011boj.1_Missense_Mutation_p.P748A|PLCH1_uc011bol.1_Missense_Mutation_p.P730A	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	748	C2.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			ATGGAGTCTGGAGGTTTGGGG	0.453													8	88					0	0	0.00308	0	0		C	155210547	C	C	155210547	3	2	20	1	0	0	0	0	1	0	0	0	12056	1174	41	5	2882	5	PLCH1	3	155210547	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4127635	155210547	42811883	352	17074											
VEPH1	79674	broad.mit.edu	37	chr3	157004431	157004431	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacacgtcaaagaacctcacTtcttccagatggagctgtac	13	9	7	12	1	3	2	2	0	1	2	4	3	4	3	2	1	4	2	2	1	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:157004431T>G	uc003fbj.1	-	12	2360	c.2043A>C	c.(2041-2043)GAA>GAC	p.E681D	VEPH1_uc003fbk.1_Missense_Mutation_p.E681D|VEPH1_uc010hvu.1_Missense_Mutation_p.E636D	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	681						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			AGAACCTCACTTCTTCCAGAT	0.483													34	138					0	0	0.012213	0	0		G	157004431	G	G	157004431	3	3	20	1	0	0	0	0	1	0	0	0	17180	1606	56	5	470	5	VEPH1	3	157004431	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1793884	157004431	41017999	353	17075											
SMC4	10051	broad.mit.edu	37	chr3	160135634	160135634	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atactgcagtgtctcaattaActaaggctaaggaagctcta	14	11	8	8	0	2	0	1	0	2	0	3	1	2	1	0	2	4	3	0	2	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:160135634A>G	uc003fdh.2	+	11	1674	c.1561A>G	c.(1561-1563)ACT>GCT	p.T521A	IFT80_uc003fda.2_Intron|SMC4_uc010hwc.1_Missense_Mutation_p.T285A|SMC4_uc003fdi.2_Missense_Mutation_p.T496A|SMC4_uc003fdj.2_Missense_Mutation_p.T521A|SMC4_uc010hwd.2_Missense_Mutation_p.T521A|SMC4_uc003fdl.2_Missense_Mutation_p.T224A	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	521	Potential.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			GTCTCAATTAACTAAGGCTAA	0.398													4	75					0	0	0.009096	0	0		G	160135634	G	G	160135634	3	3	20	1	0	0	0	0	1	0	0	0	14810	43	2	3	1599	3	SMC4	3	160135634	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3131203	160135634	37886796	354	17076											
GOLIM4	27333	broad.mit.edu	37	chr3	167745560	167745560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctcggggtccttgttcacGaggctcatgtctattacctg	5	15	10	11	2	4	0	2	0	2	0	6	1	5	0	2	3	1	2	2	3	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:167745560G>A	uc003ffe.2	-	12	1923	c.1579C>T	c.(1579-1581)CGT>TGT	p.R527C	GOLIM4_uc011bpe.1_Missense_Mutation_p.R528C|GOLIM4_uc011bpf.1_Missense_Mutation_p.R500C|GOLIM4_uc011bpg.1_Missense_Mutation_p.R499C	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	527	Glu-rich.|Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						CCTTGTTCACGAGGCTCATGT	0.463													71	187					0	0	0.01441	0	0		A	167745560	A	A	167745560	3	1	20	1	0	0	0	0	1	0	0	0	6581	1058	37	1	531	1	GOLIM4	3	167745560	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	7609926	167745560	30276870	355	17077											
LRRC31	79782	broad.mit.edu	37	chr3	169572672	169572672	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtagatgctttagcatgAccaactgagccggcgagtct	9	11	11	10	2	1	3	0	2	1	1	1	4	1	3	2	1	4	3	2	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:169572672A>G	uc003fgc.1	-	6	997	c.920T>C	c.(919-921)GTC>GCC	p.V307A	LRRC31_uc010hwp.1_Missense_Mutation_p.V251A	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	307										ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			CTTTAGCATGACCAACTGAGC	0.438													3	127					0	0	0.001168	0	0		G	169572672	G	G	169572672	3	3	20	1	0	0	0	0	1	0	0	0	9004	275	10	3	754	3	LRRC31	3	169572672	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1827112	169572672	28449758	356	17078											
CLDN11	5010	broad.mit.edu	37	chr3	170140971	170140971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacgtgcaggcctgccgcGccctgatgattgctgcctcg	4	9	13	15	4	0	2	0	2	0	0	1	2	0	2	4	1	5	3	4	1	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:170140971G>A	uc003fgx.2	+	2	449	c.247G>A	c.(247-249)GCC>ACC	p.A83T	CLDN11_uc011bpt.1_Missense_Mutation_p.A83T|CLDN11_uc003fgy.2_5'UTR	NM_005602	NP_005593	O75508	CLD11_HUMAN	claudin 11	83	Helical; (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			central_nervous_system(1)	1	all_cancers(22;5.62e-23)|all_epithelial(15;7.54e-28)|all_lung(20;2.51e-17)|Lung NSC(18;1.02e-16)|Ovarian(172;0.000567)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			GGCCTGCCGCGCCCTGATGAT	0.597													55	188					0	0	0.01441	0	0		A	170140971	A	A	170140971	3	1	20	1	0	0	0	0	1	0	0	0	3476	1087	38	1	253	1	CLDN11	3	170140971	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	568299	170140971	27881459	357	17079											
NLGN1	22871	broad.mit.edu	37	chr3	173322759	173322759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccccagaatatcattgatgGcagattgccagaagtcatgc	12	10	9	10	0	2	4	2	1	0	3	3	4	3	4	3	1	2	1	3	1	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:173322759G>A	uc003fio.1	+	3	794	c.371G>A	c.(370-372)GGC>GAC	p.G124D	NLGN1_uc010hww.1_Missense_Mutation_p.G124D|NLGN1_uc003fip.1_Missense_Mutation_p.G124D	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	124	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			ATCATTGATGGCAGATTGCCA	0.448													62	223					0	0	0.01441	0	0		A	173322759	A	A	173322759	3	1	20	1	0	0	0	0	1	0	0	0	10480	1203	42	2	373	2	NLGN1	3	173322759	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3181788	173322759	24699671	358	17080											
FXR1	8087	broad.mit.edu	37	chr3	180688129	180688129	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatctgatacagcttcagTtaatgaaaatgggctaggta	14	12	10	5	0	2	3	1	3	1	0	2	3	2	3	0	2	2	4	0	2	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:180688129T>C	uc003fkq.2	+	15	1608	c.1586T>C	c.(1585-1587)GTT>GCT	p.V529A	FXR1_uc003fkp.2_Missense_Mutation_p.V444A|FXR1_uc003fkr.2_Missense_Mutation_p.V529A|FXR1_uc011bqj.1_Missense_Mutation_p.V443A|FXR1_uc003fks.2_Missense_Mutation_p.V472A|FXR1_uc011bqk.1_Missense_Mutation_p.V480A|FXR1_uc011bql.1_Missense_Mutation_p.V516A	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	529					apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			ACAGCTTCAGTTAATGAAAAT	0.333													3	85					0	0	0.009096	0	0		C	180688129	C	C	180688129	3	2	20	1	0	0	0	0	1	0	0	0	6129	1725	60	3	1644	3	FXR1	3	180688129	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	7365370	180688129	17334301	359	17081											
YEATS2	55689	broad.mit.edu	37	chr3	183521871	183521871	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcaaaaccaagcacatcGctcactggtgccgctgtcat	10	8	7	16	2	3	0	3	0	0	0	4	0	3	0	3	1	3	3	3	1	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:183521871G>A	uc003fly.2	+	27	3874	c.3679G>A	c.(3679-3681)GCT>ACT	p.A1227T	uc003fma.1_3'UTR	NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	1227					histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			CAAGCACATCGCTCACTGGTG	0.537													33	176					0	0	0.004289	0	0		A	183521871	A	A	183521871	3	1	20	1	0	0	0	0	1	0	0	0	17498	1087	38	1	3781	1	YEATS2	3	183521871	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2833742	183521871	14500559	360	17082											
ECE2	9718	broad.mit.edu	37	chr3	184008885	184008885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcagaatgagtccctggCagccttccggaaccacacgg	9	6	13	13	2	0	2	0	1	0	1	2	3	2	3	4	4	2	2	4	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:184008885C>T	uc003fni.3	+	17	2284	c.2246C>T	c.(2245-2247)GCA>GTA	p.A749V	ECE2_uc011brh.1_Missense_Mutation_p.A602V|ECE2_uc003fnl.3_Missense_Mutation_p.A677V|ECE2_uc003fnm.3_Missense_Mutation_p.A631V|ECE2_uc003fnk.3_Missense_Mutation_p.A602V|ECE2_uc011bri.1_Missense_Mutation_p.A664V|ECE2_uc010hxv.2_3'UTR	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	749	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GAGTCCCTGGCAGCCTTCCGG	0.587													6	95					0	0	0.001984	0	0		T	184008885	T	T	184008885	3	4	20	1	0	0	0	0	1	0	0	0	4896	710	25	2	2876	2	ECE2	3	184008885	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	487014	184008885	14013545	361	17083											
PSMD2	5708	broad.mit.edu	37	chr3	184022156	184022156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cactgctgctgcctgtgatgGgagattcaaagtccagcatg	9	10	12	10	0	1	2	1	1	0	1	2	3	2	2	2	1	4	3	2	1	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:184022156G>A	uc003fnn.1	+	12	1549	c.1516G>A	c.(1516-1518)GGA>AGA	p.G506R	PSMD2_uc011brj.1_Missense_Mutation_p.G347R|PSMD2_uc011brk.1_Missense_Mutation_p.G376R	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	506	PC 3.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	GCCTGTGATGGGAGATTCAAA	0.458													40	126					0	0	0.010771	0	0		A	184022156	A	A	184022156	3	1	20	1	0	0	0	0	1	0	0	0	12720	1233	43	4	1562	4	PSMD2	3	184022156	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	13271	184022156	14000274	362	17084											
PSMD2	5708	broad.mit.edu	37	chr3	184025433	184025433	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgtctggctgcaatgctGcgccagttagctcaatatca	8	10	10	13	2	3	0	2	0	1	0	3	0	3	0	2	1	4	5	2	1	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:184025433G>A	uc003fnn.1	+	18	2268	c.2235G>A	c.(2233-2235)CTG>CTA	p.L745L	PSMD2_uc011brj.1_Silent_p.L586L|PSMD2_uc011brk.1_Silent_p.L615L	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	745	PC 7.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	CTGCAATGCTGCGCCAGTTAG	0.483													26	53					0	0	0.004656	0	0		A	184025433	A	A	184025433	2	1	20	1	0	0	0	0	0	0	0	1	12720	1306	46	2		2	PSMD2	3	184025433	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3277	184025433	13996997	363	17085											
EIF4G1	1981	broad.mit.edu	37	chr3	184040475	184040475	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacaaaattcacaatgcTgagaacatccagcccgggga	16	5	10	10	1	1	2	1	1	0	2	2	5	2	3	2	2	3	1	2	2	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:184040475T>C	uc003fnp.2	+	12	1950	c.1752T>C	c.(1750-1752)GCT>GCC	p.A584A	EIF4G1_uc003fno.1_Silent_p.A525A|EIF4G1_uc010hxw.1_Silent_p.A420A|EIF4G1_uc003fnt.2_Silent_p.A295A|EIF4G1_uc003fnq.2_Silent_p.A497A|EIF4G1_uc003fnr.2_Silent_p.A420A|EIF4G1_uc010hxx.2_Silent_p.A591A|EIF4G1_uc003fns.2_Silent_p.A544A|EIF4G1_uc010hxy.2_Silent_p.A591A|EIF4G1_uc003fnv.3_Silent_p.A584A|EIF4G1_uc003fnu.3_Silent_p.A584A|EIF4G1_uc003fnw.2_Silent_p.A591A|EIF4G1_uc003fnx.2_Silent_p.A388A|EIF4G1_uc003fny.3_Silent_p.A388A	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	584	MIF4G.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TTCACAATGCTGAGAACATCC	0.507													14	41					0	0	0.001855	0	0		C	184040475	C	C	184040475	2	2	20	1	0	0	0	0	0	0	0	1	5044	1567	55	3		3	EIF4G1	3	184040475	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	15042	184040475	13981955	364	17086											
EPHB3	2049	broad.mit.edu	37	chr3	184298195	184298195	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttgttgcctgcagctcaaCgatgggcagttcacggtcat	7	11	12	11	2	3	0	3	0	0	0	3	1	3	0	1	2	4	6	1	2	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:184298195C>A	uc003foz.2	+	12	2615	c.2178C>A	c.(2176-2178)AAC>AAA	p.N726K		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	726	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			TGCAGCTCAACGATGGGCAGT	0.602													22	71					3.5997e-14	3.81113e-14	0.014323	1	0		A	184298195	A	A	184298195	3	1	20	1	0	0	0	0	1	0	0	0	5184	535	19	5	2224	5	EPHB3	3	184298195	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	257720	184298195	13724235	365	17087											
VPS8	23355	broad.mit.edu	37	chr3	184542471	184542471	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagagcctctgtgccaaGacgagcgaagaagagctgaa	15	4	13	9	2	1	5	0	1	1	4	1	8	1	5	2	0	5	1	2	0	5	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:184542471G>T	uc003fpb.1	+	2	222	c.51G>T	c.(49-51)AAG>AAT	p.K17N	VPS8_uc010hyd.1_Missense_Mutation_p.K17N|VPS8_uc003fpc.1_Missense_Mutation_p.K17N	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	17							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TCTGTGCCAAGACGAGCGAAG	0.363													12	46					4.36969e-10	4.58491e-10	0.001855	1	0		T	184542471	T	T	184542471	3	4	20	1	0	0	0	0	1	0	0	0	17244	933	33	5	53	5	VPS8	3	184542471	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	244276	184542471	13479959	366	17088											
VPS8	23355	broad.mit.edu	37	chr3	184717545	184717545	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatgcactgtggaatttgagGgccaaacaagatggacatgc	14	8	12	7	0	0	2	0	1	0	1	0	4	0	4	1	3	3	1	1	3	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:184717545G>T	uc003fpb.1	+	44	4063	c.3892G>T	c.(3892-3894)GGC>TGC	p.G1298C	VPS8_uc010hyd.1_Missense_Mutation_p.G1208C|VPS8_uc010hye.1_Missense_Mutation_p.G727C	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	1300	RING-type; atypical.						zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			GGAATTTGAGGGCCAAACAAG	0.378													8	25					9.70103e-10	1.01586e-09	0.008291	1	0		T	184717545	T	T	184717545	3	4	20	1	0	0	0	0	1	0	0	0	17244	1232	43	5	4068	5	VPS8	3	184717545	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	175074	184717545	13304885	367	17089											
C3orf70	285382	broad.mit.edu	37	chr3	184801181	184801181	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggtctgaaatcatacagtAcctcggtgagtcagggggaa	13	8	13	7	1	3	2	2	2	1	0	4	3	3	3	1	4	2	1	1	4	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:184801181A>G	uc003fpd.2	-	2	558	c.367T>C	c.(367-369)TAC>CAC	p.Y123H		NM_001025266	NP_001020437	A6NLC5	CC070_HUMAN	hypothetical protein LOC285382	123											0						ATCATACAGTACCTCGGTGAG	0.458													7	180					0	0	0.006214	0	0		G	184801181	G	G	184801181	3	3	20	1	0	0	0	0	1	0	0	0	2245	391	14	3	389	3	C3orf70	3	184801181	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	83636	184801181	13221249	368	17090											
BCL6	604	broad.mit.edu	37	chr3	187451439	187451439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgagaagaacatcactggCatggcgggtgaactggatac	12	8	14	7	1	1	3	1	2	0	2	1	5	1	4	0	4	3	2	0	4	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:187451439C>T	uc003frp.3	-	3	500	c.43G>A	c.(43-45)GCC>ACC	p.A15T	BCL6_uc011bsf.1_Missense_Mutation_p.A15T|BCL6_uc010hza.2_5'UTR|BCL6_uc003frq.1_Missense_Mutation_p.A15T	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	15					negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		ACATCACTGGCATGGCGGGTG	0.483			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								5	97					0	0	0.000602	0	0		T	187451439	T	T	187451439	3	4	20	1	0	0	0	0	1	0	0	0	1377	710	25	2	2109	2	BCL6	3	187451439	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2650258	187451439	10570991	369	17091											
ATP13A5	344905	broad.mit.edu	37	chr3	193048947	193048947	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtttatttgcccacacaTgttgattctctgtggggaga	8	14	12	7	0	1	2	0	1	1	1	2	4	1	2	1	3	1	2	1	3	1	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:193048947T>G	uc011bsq.1	-	12	1426	c.1426A>C	c.(1426-1428)ATG>CTG	p.M476L		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	476					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		TGCCCACACATGTTGATTCTC	0.378													37	122					0	0	0.007835	0	0		G	193048947	G	G	193048947	3	3	20	1	0	0	0	0	1	0	0	0	1128	1464	51	5	2304	5	ATP13A5	3	193048947	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	5597508	193048947	4973483	370	17092											
OPA1	4976	broad.mit.edu	37	chr3	193361319	193361319	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacctttttctttaagacTgtgacatcaggcatggctcc	11	13	7	10	0	2	2	1	1	1	1	3	2	3	2	2	2	1	2	2	2	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:193361319T>C	uc003ftm.2	+	13	1449	c.1215T>C	c.(1213-1215)ACT>ACC	p.T405T	OPA1_uc003ftg.2_Silent_p.T460T|OPA1_uc003fth.2_Silent_p.T424T|OPA1_uc003fti.2_Silent_p.T442T|OPA1_uc003ftj.2_Silent_p.T423T|OPA1_uc003ftk.2_Silent_p.T406T|OPA1_uc003ftl.2_Silent_p.T387T|OPA1_uc003ftn.2_Silent_p.T369T	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1	405	Mitochondrial intermembrane (By similarity).				apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		TCTTTAAGACTGTGACATCAG	0.323													14	80					0	0	0.006122	0	0		C	193361319	C	C	193361319	2	2	20	1	0	0	0	0	0	0	0	1	10890	1567	55	3		3	OPA1	3	193361319	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	312372	193361319	4661111	371	17093											
CPN2	1370	broad.mit.edu	37	chr3	194063301	194063301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatatggcgggatgtccagtGggacggtggcaagctcctca	8	9	15	9	2	1	0	1	0	0	0	3	2	3	2	2	5	1	2	2	5	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:194063301G>A	uc003fts.2	-	2	221	c.131C>T	c.(130-132)CCA>CTA	p.P44L		NM_001080513	NP_001073982	P22792	CPN2_HUMAN	carboxypeptidase N, polypeptide 2	44	LRRNT.				protein stabilization	extracellular region	enzyme regulator activity			ovary(5)	5	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.65e-05)		GATGTCCAGTGGGACGGTGGC	0.557													22	63					0	0	0.00632	0	0		A	194063301	A	A	194063301	3	1	20	1	0	0	0	0	1	0	0	0	3813	1348	47	4	1510	4	CPN2	3	194063301	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	701982	194063301	3959129	372	17094											
TCTEX1D2	255758	broad.mit.edu	37	chr3	196018210	196018210	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattcattcagtagtagaaAcagccaaatgctgctacaac	16	9	7	9	0	2	2	2	0	0	2	2	2	2	2	1	0	6	4	1	0	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr3:196018210A>G	uc003fwi.2	-	5	553	c.417T>C	c.(415-417)TGT>TGC	p.C139C		NM_152773	NP_689986	Q8WW35	TC1D2_HUMAN	Tctex1 domain containing 2	139							protein binding			ovary(1)|breast(1)	2	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		AGTAGTAGAAACAGCCAAATG	0.328													5	86					0	0	0.001984	0	0		G	196018210	G	G	196018210	2	3	20	1	0	0	0	0	0	0	0	1	15745	41	2	3		3	TCTEX1D2	3	196018210	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1954909	196018210	2004220	373	17095											
GAK	2580	broad.mit.edu	37	chr4	876506	876506	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcagtgcacgacgcagacGttcttgtggtcctgccgcag	7	9	13	12	4	1	1	0	0	1	1	2	2	2	1	2	1	3	5	2	1	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:876506G>A	uc003gbm.3	-	14	1705	c.1506C>T	c.(1504-1506)AAC>AAT	p.N502N	GAK_uc003gbn.3_Silent_p.N423N|GAK_uc010ibk.1_Silent_p.N396N|GAK_uc003gbl.3_Silent_p.N366N	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	502	Phosphatase tensin-type.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		CGACGCAGACGTTCTTGTGGT	0.597													23	61					0	0	0.00333	0	0		A	876506	A	A	876506	2	1	20	1	0	0	0	0	0	0	0	1	6210	1136	40	1		1	GAK	4	876506	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08		876506	190277770	374	17096											
TMEM175	84286	broad.mit.edu	37	chr4	951841	951841	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgggtggcctcccactaGcctaccagcagacctcggcc	6	7	11	17	2	0	1	0	0	0	1	3	1	1	1	6	3	3	1	6	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:951841G>T	uc003gbq.2	+	11	1170	c.1072G>T	c.(1072-1074)GCC>TCC	p.A358S	TMEM175_uc003gbr.2_Missense_Mutation_p.A276S|TMEM175_uc003gbu.2_Missense_Mutation_p.A276S|TMEM175_uc003gbs.2_Missense_Mutation_p.A241S|TMEM175_uc003gbt.2_Missense_Mutation_p.A241S|TMEM175_uc003gbv.2_Missense_Mutation_p.A241S|TMEM175_uc010ibm.2_Missense_Mutation_p.A174S	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	358	Helical; (Potential).					integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CCTCCCACTAGCCTACCAGCA	0.662													19	29					1.96292e-10	2.06063e-10	0.010504	1	0		T	951841	T	T	951841	3	4	20	1	0	0	0	0	1	0	0	0	16116	971	34	5	1110	5	TMEM175	4	951841	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	75335	951841	190202435	375	17097											
LETM1	3954	broad.mit.edu	37	chr4	1818606	1818606	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacgtacttttcttcaccAgtctttgaaagttccttctt	7	18	4	12	1	4	1	1	1	3	0	6	1	6	1	3	0	1	2	3	0	2	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:1818606A>C	uc003gdv.2	-	12	2076	c.1779T>G	c.(1777-1779)ACT>ACG	p.T593T		NM_012318	NP_036450	O95202	LETM1_HUMAN	leucine zipper-EF-hand containing transmembrane	593	Mitochondrial matrix (Potential).|Potential.				cristae formation	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			central_nervous_system(1)	1			all cancers(2;0.00756)|OV - Ovarian serous cystadenocarcinoma(23;0.00989)|Epithelial(3;0.0141)			TTTCTTCACCAGTCTTTGAAA	0.368													5	175					0	0	0.000602	0	0		C	1818606	C	C	1818606	2	2	20	1	0	0	0	0	0	0	0	1	8750	175	7	5		5	LETM1	4	1818606	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	866765	1818606	189335670	376	17098											
WHSC1	7468	broad.mit.edu	37	chr4	1955098	1955098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagcaagacagatgttaagCgctgtgtggtaactcagtgt	12	10	13	6	1	1	3	1	0	0	3	1	3	1	3	0	1	3	4	0	1	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:1955098C>T	uc003gdz.3	+	12	2361	c.2185C>T	c.(2185-2187)CGC>TGC	p.R729C	WHSC1_uc003geb.3_Missense_Mutation_p.R729C|WHSC1_uc003gec.3_Missense_Mutation_p.R729C|WHSC1_uc003ged.3_Missense_Mutation_p.R729C|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gei.3_5'UTR|WHSC1_uc011bvh.1_5'UTR|WHSC1_uc010icf.2_Missense_Mutation_p.R77C	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	729	PHD-type 2.				anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		AGATGTTAAGCGCTGTGTGGT	0.438			T	IGH@	MM								88	188					0	0	0.01441	0	0		T	1955098	T	T	1955098	3	4	20	1	0	0	0	0	1	0	0	0	17388	768	27	1	2303	1	WHSC1	4	1955098	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	136492	1955098	189199178	377	17099											
HTT	3064	broad.mit.edu	37	chr4	3107097	3107097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagaatggtgcccctcGgagtttgcgtgctgccctgt	4	11	12	14	2	1	1	1	0	0	1	2	2	1	2	4	2	4	2	4	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:3107097G>A	uc011bvq.1	+	6	693	c.548G>A	c.(547-549)CGG>CAG	p.R183Q		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	181					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GGTGCCCCTCGGAGTTTGCGT	0.502													32	54					0	0	0.005524	0	0		A	3107097	A	A	3107097	3	1	20	1	0	0	0	0	1	0	0	0	7473	1116	39	1	560	1	HTT	4	3107097	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1151999	3107097	188047179	378	17100											
EVC	2121	broad.mit.edu	37	chr4	5754612	5754612	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacatggcaaaagtgattgAgtttctgaagctgcaagtcc	12	10	11	8	0	1	3	0	3	1	0	2	3	2	3	1	1	2	5	1	1	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:5754612A>G	uc003gil.1	+	9	1332	c.1148A>G	c.(1147-1149)GAG>GGG	p.E383G	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	383					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				AAAGTGATTGAGTTTCTGAAG	0.622													28	87					0	0	0.008361	0	0		G	5754612	G	G	5754612	3	3	20	1	0	0	0	0	1	0	0	0	5293	304	11	3	1182	3	EVC	4	5754612	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2647515	5754612	185399664	379	17101											
CRMP1	1400	broad.mit.edu	37	chr4	5837754	5837754	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggtacaggttaaagatcTtggctgcattggtgctggtg	7	14	15	5	0	1	1	0	0	1	1	1	1	1	1	0	5	3	5	0	5	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:5837754T>G	uc003gip.2	-	12	1270	c.1169A>C	c.(1168-1170)AAG>ACG	p.K390T	CRMP1_uc003gin.1_Missense_Mutation_p.K302T|CRMP1_uc003giq.2_Missense_Mutation_p.K390T|CRMP1_uc003gir.2_Missense_Mutation_p.K385T|CRMP1_uc003gis.2_Missense_Mutation_p.K504T	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	390					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		GTTAAAGATCTTGGCTGCATT	0.522													36	123					0	0	0.00874	0	0		G	5837754	G	G	5837754	3	3	20	1	0	0	0	0	1	0	0	0	3893	1609	56	5	565	5	CRMP1	4	5837754	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	83142	5837754	185316522	380	17102											
CRMP1	1400	broad.mit.edu	37	chr4	5838618	5838618	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggacagtggccgctgcctgtGacctgcaagtccccactggc	6	7	13	15	1	0	1	0	1	0	0	1	2	1	2	5	3	2	2	5	3	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:5838618G>A	uc003gip.2	-	11	1085	c.984C>T	c.(982-984)GTC>GTT	p.V328V	CRMP1_uc003gin.1_Silent_p.V240V|CRMP1_uc003giq.2_Silent_p.V328V|CRMP1_uc003gir.2_Silent_p.V323V|CRMP1_uc003gis.2_Silent_p.V442V	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	328					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		CGCTGCCTGTGACCTGCAAGT	0.552													9	53					0	0	0.004007	0	0		A	5838618	A	A	5838618	2	1	20	1	0	0	0	0	0	0	0	1	3893	1277	45	4		4	CRMP1	4	5838618	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	864	5838618	185315658	381	17103											
SORCS2	57537	broad.mit.edu	37	chr4	7715973	7715973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcctgctgcagggcgacCgctgtatcatgggccagcag	6	9	14	12	2	1	0	1	0	0	0	2	1	2	0	3	2	3	6	3	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:7715973C>T	uc003gkb.3	+	16	1996	c.1996C>T	c.(1996-1998)CGC>TGC	p.R666C	SORCS2_uc011bwi.1_Missense_Mutation_p.R494C	NM_020777	NP_065828	Q96PQ0	SORC2_HUMAN	VPS10 domain receptor protein SORCS 2 precursor	666	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2						GCAGGGCGACCGCTGTATCAT	0.602													5	13					0	0	0.001168	0	0		T	7715973	T	T	7715973	3	4	20	1	0	0	0	0	1	0	0	0	14956	652	23	1	2058	1	SORCS2	4	7715973	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1877355	7715973	183438303	382	17104											
BOD1L	259282	broad.mit.edu	37	chr4	13597501	13597501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacctattccacttggctttCccccacacagactttctggt	7	13	5	16	0	1	1	0	0	1	1	3	1	3	1	4	2	0	1	4	2	1	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:13597501C>T	uc003gmz.1	-	12	8204	c.8087G>A	c.(8086-8088)GGA>GAA	p.G2696E		NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2696							DNA binding			ovary(5)|breast(1)	6						ACTTGGCTTTCCCCCACACAG	0.378													47	260					0	0	0.01441	0	0		T	13597501	T	T	13597501	3	4	20	1	0	0	0	0	1	0	0	0	1484	855	30	4	1128	4	BOD1L	4	13597501	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	5881528	13597501	177556775	383	17105											
BOD1L	259282	broad.mit.edu	37	chr4	13603668	13603668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcctcagattcagccacaGcacactccccactttcccct	8	10	4	19	0	2	1	2	0	0	1	5	1	5	1	6	0	2	1	6	0	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:13603668G>A	uc003gmz.1	-	10	4973	c.4856C>T	c.(4855-4857)GCT>GTT	p.A1619V	BOD1L_uc010idr.1_Missense_Mutation_p.A956V	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1619							DNA binding			ovary(5)|breast(1)	6						TTCAGCCACAGCACACTCCCC	0.488													29	85					0	0	0.004289	0	0		A	13603668	A	A	13603668	3	1	20	1	0	0	0	0	1	0	0	0	1484	971	34	2	4367	2	BOD1L	4	13603668	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6167	13603668	177550608	384	17106											
PACRGL	133015	broad.mit.edu	37	chr4	20709442	20709442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttagtttggtgaacagtcacGagtgccttctgcatttgcag	8	14	11	8	1	2	1	1	1	1	0	2	2	2	1	1	1	4	3	1	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:20709442G>A	uc010iek.2	+	4	615	c.224G>A	c.(223-225)CGA>CAA	p.R75Q	PACRGL_uc003gpu.2_RNA|PACRGL_uc010iei.1_Missense_Mutation_p.R123Q|PACRGL_uc003gpz.2_Missense_Mutation_p.R75Q|PACRGL_uc011bxm.1_Intron|PACRGL_uc003gqa.2_Intron|PACRGL_uc003gpx.3_RNA|PACRGL_uc003gpv.2_Missense_Mutation_p.R75Q|PACRGL_uc003gpw.2_RNA|PACRGL_uc010iej.1_Intron|PACRGL_uc011bxn.1_Intron|PACRGL_uc003gpy.2_Intron	NM_145048	NP_659485	Q8N7B6	PACRL_HUMAN	PARK2 co-regulated-like isoform 1	75							binding				0						GAACAGTCACGAGTGCCTTCT	0.348													12	53					0	0	0.004007	0	0		A	20709442	A	A	20709442	3	1	20	1	0	0	0	0	1	0	0	0	11390	1058	37	1	234	1	PACRGL	4	20709442	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	7105774	20709442	170444834	385	17107											
GPR125	166647	broad.mit.edu	37	chr4	22390136	22390136	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatgatccacgcaagtctaAcatcctccctattaacacaa	14	10	3	14	1	2	1	1	1	1	0	5	1	5	1	3	0	2	1	3	0	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:22390136A>C	uc003gqm.1	-	19	3423	c.3158T>G	c.(3157-3159)GTT>GGT	p.V1053G	GPR125_uc010ieo.1_Missense_Mutation_p.V909G|GPR125_uc003gql.1_Missense_Mutation_p.V180G	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	1053	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				CGCAAGTCTAACATCCTCCCT	0.488													27	64					0	0	0.007291	0	0		C	22390136	C	C	22390136	3	2	20	1	0	0	0	0	1	0	0	0	6654	43	2	5	811	5	GPR125	4	22390136	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1680694	22390136	168764140	386	17108											
DHX15	1665	broad.mit.edu	37	chr4	24541776	24541776	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacctcattagaacagttgtAgtcacaacttgcaataacca	15	10	6	10	0	2	1	2	0	0	1	2	2	2	1	2	0	4	3	2	0	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:24541776A>G	uc003gqx.2	-	10	1909	c.1741T>C	c.(1741-1743)TAC>CAC	p.Y581H	DHX15_uc003gqw.2_5'Flank	NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	581					mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				GAACAGTTGTAGTCACAACTT	0.408													8	109					0	0	0.004482	0	0		G	24541776	G	G	24541776	3	3	20	1	0	0	0	0	1	0	0	0	4507	420	15	3	666	3	DHX15	4	24541776	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2151640	24541776	166612500	387	17109											
CCDC149	91050	broad.mit.edu	37	chr4	24854802	24854802	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagttgtgcaagattagcCtagaaatatcaacacattat	17	12	6	6	0	1	2	1	0	0	2	1	2	1	2	1	0	3	2	1	0	9	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:24854802C>A	uc011bxr.1	-	5	409	c.265_splice	c.e5-1	p.A89_splice	CCDC149_uc003grc.2_Splice_Site_p.A89_splice|CCDC149_uc003grb.2_Splice_Site|CCDC149_uc003grd.2_Splice_Site_p.A89_splice|CCDC149_uc003gre.2_Splice_Site_p.A34_splice|CCDC149_uc011bxq.1_Translation_Start_Site	NM_173463	NP_775734	B4DZG3	B4DZG3_HUMAN	coiled-coil domain containing 149 isoform 1												0		Breast(46;0.173)				CAAGATTAGCCTAGAAATATC	0.428													39	110					7.53189e-24	8.09209e-24	0.007835	1	0		A	24854802	A	A	24854802	5	1	20	1	0	0	0	0	0	0	1	0	2786	695	24	5	1365	5	CCDC149	4	24854802	Splice_Site	SNP	C	TCGA-BR-4362-01A-01D-1158-08	313026	24854802	166299474	388	17110											
ARAP2	116984	broad.mit.edu	37	chr4	36134893	36134893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgttcactataatgggaaCgtcatttttgctgagctgct	8	15	10	8	1	2	1	2	1	0	0	2	2	2	2	0	1	4	5	0	1	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:36134893C>T	uc003gsq.1	-	20	3720	c.3382G>A	c.(3382-3384)GTT>ATT	p.V1128I		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1128	Rho-GAP.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						ATAATGGGAACGTCATTTTTG	0.383													15	36					0	0	0.003163	0	0		T	36134893	T	T	36134893	3	4	20	1	0	0	0	0	1	0	0	0	839	536	19	1	1788	1	ARAP2	4	36134893	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	11280091	36134893	155019383	389	17111											
DCAF4L1	285429	broad.mit.edu	37	chr4	41984913	41984913	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacattcccagcgtggccttCgcttctcggctcgggggcat	4	10	13	14	4	1	0	0	0	1	0	5	1	2	0	2	4	1	3	2	4	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:41984913C>T	uc003gwk.2	+	1	1201	c.1104C>T	c.(1102-1104)TTC>TTT	p.F368F		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	368										skin(1)	1						GCGTGGCCTTCGCTTCTCGGC	0.607													20	42					0	0	0.009535	0	0		T	41984913	T	T	41984913	2	4	20	1	0	0	0	0	0	0	0	1	4274	883	31	1		1	DCAF4L1	4	41984913	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	5850020	41984913	149169363	390	17112											
CORIN	10699	broad.mit.edu	37	chr4	47597894	47597894	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgtcctccaggcttctcAcaaacaagaggcccaccgct	10	6	7	18	2	1	1	1	0	1	1	4	1	3	1	5	2	1	2	5	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:47597894A>G	uc003gxm.2	-	22	3066	c.2973T>C	c.(2971-2973)TGT>TGC	p.C991C	CORIN_uc011bzf.1_Silent_p.C852C|CORIN_uc011bzg.1_Silent_p.C924C	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	991	Extracellular (Potential).|Peptidase S1.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						CAGGCTTCTCACAAACAAGAG	0.493													17	38					0	0	0.008871	0	0		G	47597894	G	G	47597894	2	3	20	1	0	0	0	0	0	0	0	1	3755	157	6	3		3	CORIN	4	47597894	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	5612981	47597894	143556382	391	17113											
FRYL	285527	broad.mit.edu	37	chr4	48625144	48625144	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccaaaattgtcataccTgatcaaactgaagatcttca	14	12	4	11	0	5	3	3	2	2	1	6	3	5	3	2	0	2	0	2	0	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:48625144T>C	uc003gyh.1	-	5	778	c.173A>G	c.(172-174)CAG>CGG	p.Q58R	FRYL_uc003gyk.2_Missense_Mutation_p.Q58R|FRYL_uc003gyl.1_Missense_Mutation_p.Q109R|FRYL_uc003gym.1_Missense_Mutation_p.Q58R	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	58					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TTGTCATACCTGATCAAACTG	0.313													4	25					0	0	0.000602	0	0		C	48625144	C	C	48625144	3	2	20	1	0	0	0	0	1	0	0	0	6078	1594	55	3	9108	3	FRYL	4	48625144	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1027250	48625144	142529132	392	17114											
PDGFRA	5156	broad.mit.edu	37	chr4	55129887	55129887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cggattatttagtcatcgtgGaggatgatgattctgccatt	9	15	11	6	2	2	2	1	2	1	0	3	5	2	5	1	3	1	0	1	3	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:55129887G>A	uc003han.3	+	4	752	c.421G>A	c.(421-423)GAG>AAG	p.E141K	PDGFRA_uc003haa.2_Intron|PDGFRA_uc003hal.2_Missense_Mutation_p.E141K|PDGFRA_uc010igq.1_Missense_Mutation_p.E35K|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	141	Extracellular (Potential).|Ig-like C2-type 2.				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	AGTCATCGTGGAGGATGATGA	0.443			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			52	112					0	0	0.01441	0	0		A	55129887	A	A	55129887	3	1	20	1	0	0	0	0	1	0	0	0	11680	1175	41	4	431	4	PDGFRA	4	55129887	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6504743	55129887	136024389	393	17115											
PDGFRA	5156	broad.mit.edu	37	chr4	55139866	55139866	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaagaatctccttggagcTgagaaccgagagctgaagct	12	8	12	9	1	1	4	0	2	1	3	2	7	1	5	2	1	4	4	2	1	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:55139866T>C	uc003han.3	+	10	1858	c.1527T>C	c.(1525-1527)GCT>GCC	p.A509A	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Silent_p.A403A|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	509	Ig-like C2-type 5.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity	p.A509D(1)		soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	TCCTTGGAGCTGAGAACCGAG	0.582			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			17	67					0	0	0.004007	0	0		C	55139866	C	C	55139866	2	2	20	1	0	0	0	0	0	0	0	1	11680	1567	55	3		3	PDGFRA	4	55139866	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	9979	55139866	136014410	394	17116											
KIT	3815	broad.mit.edu	37	chr4	55603434	55603434	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attgagaagcagatttcagaGagcaccaatcatgtgagtat	15	10	10	6	0	2	4	2	2	0	3	2	6	2	4	1	0	2	3	1	0	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:55603434G>C	uc010igr.2	+	20	2877	c.2790G>C	c.(2788-2790)GAG>GAC	p.E930D	KIT_uc010igs.2_Missense_Mutation_p.E926D	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	930	Protein kinase.|Cytoplasmic (Potential).				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	AGATTTCAGAGAGCACCAATC	0.478		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				4	104					0	0	0.000602	0	0		C	55603434	C	C	55603434	3	2	20	1	0	0	0	0	1	0	0	0	8345	933	33	5	2868	5	KIT	4	55603434	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	463568	55603434	135550842	395	17117											
LPHN3	23284	broad.mit.edu	37	chr4	62761492	62761492	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctgatggaatttgggaTccccaaggtccagatctcag	9	10	11	11	0	1	2	1	1	1	1	5	4	4	4	4	3	0	1	4	3	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:62761492T>C	uc010ihh.2	+	8	1796	c.1623T>C	c.(1621-1623)GAT>GAC	p.D541D	LPHN3_uc003hcq.3_Silent_p.D541D|LPHN3_uc003hcs.1_Silent_p.D370D	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	541	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GAATTTGGGATCCCCAAGGTC	0.378													3	15					0	0	0.009096	0	0		C	62761492	C	C	62761492	2	2	20	1	0	0	0	0	0	0	0	1	8935	1432	50	3		3	LPHN3	4	62761492	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	7158058	62761492	128392784	396	17118											
C4orf40	401137	broad.mit.edu	37	chr4	71024227	71024227	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctcctggattcccctaTgtctatcacatccgtggttt	6	16	6	13	1	3	0	1	0	2	0	6	1	5	1	4	2	0	1	4	2	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:71024227T>C	uc003hfa.3	+	4	331	c.258T>C	c.(256-258)TAT>TAC	p.Y86Y	C4orf40_uc003hfb.3_Silent_p.Y86Y	NM_214711	NP_999876	Q6MZM9	CD040_HUMAN	hypothetical protein LOC401137 precursor	86						extracellular region					0						GATTCCCCTATGTCTATCACA	0.483													9	331					0	0	0.006214	0	0		C	71024227	C	C	71024227	2	2	20	1	0	0	0	0	0	0	0	1	2272	1471	51	3		3	C4orf40	4	71024227	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	8262735	71024227	120130049	397	17119											
BTC	685	broad.mit.edu	37	chr4	75681147	75681147	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgtattgcttggggcacCtagagaagtggcctttccgc	6	12	13	10	1	0	1	0	0	0	1	1	2	1	1	3	3	1	4	3	3	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:75681147C>A	uc003hig.2	-	3	550	c.203G>T	c.(202-204)AGG>ATG	p.R68M		NM_001729	NP_001720	P35070	BTC_HUMAN	betacellulin precursor	68	Extracellular (Potential).|EGF-like.				positive regulation of cell division|positive regulation of cell proliferation	extracellular space|integral to membrane|plasma membrane|soluble fraction	epidermal growth factor receptor binding|growth factor activity			central_nervous_system(1)|skin(1)	2			Lung(101;0.219)			CTTGGGGCACCTAGAGAAGTG	0.458													72	209					2.26256e-52	2.45334e-52	0.01441	1	0		A	75681147	A	A	75681147	3	1	20	1	0	0	0	0	1	0	0	0	1552	681	24	5	345	5	BTC	4	75681147	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4656920	75681147	115473129	398	17120											
SDAD1	55153	broad.mit.edu	37	chr4	76891521	76891521	+	Frame_Shift_Del	DEL	T	-	-																															acacctctggttttttcttcTttttttgtttctgaaaggga																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:76891521delT	uc003hje.3	-	10	943	c.824delA	c.(823-825)AAGfs	p.K275fs	SDAD1_uc003hjf.3_Frame_Shift_Del_p.K178fs|SDAD1_uc011cbr.1_Frame_Shift_Del_p.K238fs	NM_018115	NP_060585	Q9NVU7	SDA1_HUMAN	SDA1 domain containing 1	275	Potential.				protein transport|ribosomal large subunit biogenesis	nucleolus	protein binding			ovary(1)	1			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TTTTTTCTTCTTTTTTTGTTT	0.373													29	62	---	---	---	---						.	-	76891521	-	-	76891521	7	5	20	1	0	1	0	1	0	0	0	0	13975	1609	56	0	1291	0	SDAD1	4	76891521	Frame_Shift_Del	DEL	T	TCGA-BR-4362-01A-01D-1158-08	1210374	76891521	114262755	399	17121											
NAA11	84779	broad.mit.edu	37	chr4	80246728	80246728	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacacgtatttggcgttaaAgttctctatcatggccctgg	9	13	10	9	2	2	1	1	0	1	1	3	1	2	1	1	3	0	3	1	3	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:80246728A>T	uc003hlt.3	-	1	444	c.304T>A	c.(304-306)TTT>ATT	p.F102I		NM_032693	NP_116082	Q9BSU3	NAA11_HUMAN	alpha-N-acetyltransferase 1B	102	N-acetyltransferase.					cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2						TTGGCGTTAAAGTTCTCTATC	0.552													4	75					0	0	0.000602	0	0		T	80246728	T	T	80246728	3	4	20	1	0	0	0	0	1	0	0	0	10135	72	3	5	389	5	NAA11	4	80246728	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3355207	80246728	110907548	400	17122											
WDFY3	23001	broad.mit.edu	37	chr4	85600249	85600249	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcgtcagagccactgtcagTacaccaggcggctgttgcgc	7	8	13	13	3	2	1	2	0	0	1	3	1	2	1	2	2	3	3	2	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:85600249T>C	uc003hpd.2	-	65	10378	c.9970A>G	c.(9970-9972)ACT>GCT	p.T3324A	WDFY3_uc003hpc.2_Missense_Mutation_p.T79A	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	3324						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CCACTGTCAGTACACCAGGCG	0.602													12	30					0	0	0.00499	0	0		C	85600249	C	C	85600249	3	2	20	1	0	0	0	0	1	0	0	0	17296	1638	57	3	626	3	WDFY3	4	85600249	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	5353521	85600249	105554027	401	17123											
PTPN13	5783	broad.mit.edu	37	chr4	87685814	87685814	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttcatcacctcctaaGcctggagatatctttgaggt	8	16	7	10	0	4	2	2	1	2	1	5	3	5	2	3	2	1	0	3	2	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:87685814G>A	uc003hpz.2	+	25	4566	c.4086G>A	c.(4084-4086)AAG>AAA	p.K1362K	PTPN13_uc003hpy.2_Silent_p.K1362K|PTPN13_uc003hqa.2_Silent_p.K1343K|PTPN13_uc003hqb.2_Silent_p.K1171K	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1362				KP -> RS (in Ref. 5; CAA56124).		cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		CACCTCCTAAGCCTGGAGATA	0.348													5	13					0	0	0.000602	0	0		A	87685814	A	A	87685814	2	1	20	1	0	0	0	0	0	0	0	1	12805	962	34	2		2	PTPN13	4	87685814	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2085565	87685814	103468462	402	17124											
KLHL8	57563	broad.mit.edu	37	chr4	88116486	88116486	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatctcaccttgagtgtgAcatcacagagttctccattt	10	13	7	11	0	3	3	2	2	2	1	5	3	3	3	2	0	0	2	2	0	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:88116486A>G	uc011cdb.1	-	2	591	c.206T>C	c.(205-207)GTC>GCC	p.V69A	KLHL8_uc003hql.1_Missense_Mutation_p.V69A|KLHL8_uc003hqm.1_Missense_Mutation_p.V69A|KLHL8_uc003hqn.1_Missense_Mutation_p.V69A|KLHL8_uc010ikj.1_5'UTR	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8	69	BTB.										0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		CTTGAGTGTGACATCACAGAG	0.368													5	49					0	0	0.001984	0	0		G	88116486	G	G	88116486	3	3	20	1	0	0	0	0	1	0	0	0	8411	275	10	3	1692	3	KLHL8	4	88116486	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	430672	88116486	103037790	403	17125											
HERC5	51191	broad.mit.edu	37	chr4	89389505	89389505	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatcctttcagaaagccatAcctcagaaaaggagttaata	16	9	7	9	0	2	2	2	0	0	2	3	3	3	3	3	1	2	2	3	1	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:89389505A>G	uc003hrt.2	+	8	1219	c.1066A>G	c.(1066-1068)ACC>GCC	p.T356A	HERC5_uc011cdm.1_Translation_Start_Site	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	356	RCC1 5.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		AGAAAGCCATACCTCAGAAAA	0.348													4	116					0	0	0.000602	0	0		G	89389505	G	G	89389505	3	3	20	1	0	0	0	0	1	0	0	0	7077	391	14	3	1096	3	HERC5	4	89389505	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1273019	89389505	101764771	404	17126											
UNC5C	8633	broad.mit.edu	37	chr4	96166150	96166150	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcataacgtagtacaggcTattttctgcacactctgccc	9	11	9	12	1	2	0	0	0	2	0	2	0	2	0	1	2	4	5	1	2	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:96166150T>C	uc003htp.1	-	6	1075	c.921A>G	c.(919-921)ATA>ATG	p.I307M	UNC5C_uc010ilc.1_Missense_Mutation_p.I307M|UNC5C_uc003htq.2_Missense_Mutation_p.I307M	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	307	Extracellular (Potential).|TSP type-1 1.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		TAGTACAGGCTATTTTCTGCA	0.463													40	115					0	0	0.011902	0	0		C	96166150	C	C	96166150	3	2	20	1	0	0	0	0	1	0	0	0	17019	1512	53	3	1918	3	UNC5C	4	96166150	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	6776645	96166150	94988126	405	17127											
ADH4	127	broad.mit.edu	37	chr4	100052797	100052797	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggctttagccttcacaaacTtctcactgttgatgtcaata	10	14	7	10	0	3	1	3	1	1	0	4	1	3	1	1	1	2	2	1	1	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:100052797T>G	uc003hun.2	-	6	777	c.701A>C	c.(700-702)AAG>ACG	p.K234T	uc003hum.1_Intron|ADH4_uc011ced.1_Missense_Mutation_p.K253T	NM_000670	NP_000661	P08319	ADH4_HUMAN	class II alcohol dehydrogenase, pi subunit	234		NAD.			alcohol catabolic process|cellular aldehyde metabolic process|ethanol oxidation|quinone cofactor metabolic process|retinol metabolic process|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	alcohol dehydrogenase activity, zinc-dependent|all-trans retinal binding|benzaldehyde dehydrogenase activity|NAD binding|NADPH:quinone reductase activity|retinol binding|retinol dehydrogenase activity|zinc ion binding			skin(2)	2				OV - Ovarian serous cystadenocarcinoma(123;4.48e-08)	NADH(DB00157)	CTTCACAAACTTCTCACTGTT	0.468													9	104					0	0	0.004482	0	0		G	100052797	G	G	100052797	3	3	20	1	0	0	0	0	1	0	0	0	310	1609	56	5	457	5	ADH4	4	100052797	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3886647	100052797	91101479	406	17128											
ADH1A	124	broad.mit.edu	37	chr4	100201419	100201419	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgccacatgcctcatgacaAcataacagggaagccatctg	13	7	9	12	0	2	1	1	1	1	0	2	2	2	2	3	1	5	0	3	1	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:100201419A>G	uc003hur.1	-	7	917	c.846T>C	c.(844-846)TGT>TGC	p.C282C	uc003hum.1_Intron|ADH1A_uc011ceg.1_Silent_p.C282C	NM_000667	NP_000658	P07327	ADH1A_HUMAN	class I alcohol dehydrogenase, alpha subunit	282					ethanol oxidation|transcription, DNA-dependent|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|protein binding|zinc ion binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(123;9.56e-08)	Fomepizole(DB01213)|NADH(DB00157)	CCTCATGACAACATAACAGGG	0.438													9	210					0	0	0.004482	0	0		G	100201419	G	G	100201419	2	3	20	1	0	0	0	0	0	0	0	1	307	41	2	3		3	ADH1A	4	100201419	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	148622	100201419	90952857	407	17129											
MTTP	4547	broad.mit.edu	37	chr4	100515985	100515985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagttgattcaaagtacaCggccattcccattgtggggc	10	10	11	10	1	1	1	1	1	0	0	2	1	2	1	2	3	2	3	2	3	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:100515985C>T	uc003hvc.3	+	8	1110	c.854C>T	c.(853-855)ACG>ATG	p.T285M	MTTP_uc011cej.1_Missense_Mutation_p.T312M	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	285	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	TCAAAGTACACGGCCATTCCC	0.468													24	87					0	0	0.007291	0	0		T	100515985	T	T	100515985	3	4	20	1	0	0	0	0	1	0	0	0	9982	536	19	1	880	1	MTTP	4	100515985	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	314566	100515985	90638291	408	17130											
NHEDC1	150159	broad.mit.edu	37	chr4	103822407	103822407	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaagatggctaaaaatgctActgtcatcacatccttcgca	13	11	6	11	1	3	1	3	0	0	1	5	1	4	1	1	1	2	3	1	1	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:103822407A>T	uc003hww.2	-	12	1537	c.1415T>A	c.(1414-1416)GTA>GAA	p.V472E	NHEDC1_uc003hwu.2_Intron|NHEDC1_uc010ilm.2_Intron|NHEDC1_uc003hwv.2_Intron|NHEDC1_uc011cev.1_Missense_Mutation_p.V245E	NM_139173	NP_631912	Q4ZJI4	NHDC1_HUMAN	Na+/H+ exchanger domain containing 1 isoform 1	472	Helical; (Potential).					integral to membrane	solute:hydrogen antiporter activity			ovary(1)|skin(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;1.5e-08)		TAAAAATGCTACTGTCATCAC	0.458													17	399					0	0	0.00278	0	0		T	103822407	T	T	103822407	3	4	20	1	0	0	0	0	1	0	0	0	10419	391	14	5	236	5	NHEDC1	4	103822407	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3306422	103822407	87331869	409	17131											
NHEDC1	150159	broad.mit.edu	37	chr4	103870499	103870499	+	Missense_Mutation	SNP	G	T	T																															atggcactataaaaaataatGaacaacccaaataaatttcc																								rs78972166		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:103870499G>T	uc003hww.2	-	4	419	c.297C>A	c.(295-297)TTC>TTA	p.F99L	NHEDC1_uc003hwu.2_Missense_Mutation_p.F99L|NHEDC1_uc010ilm.2_5'UTR|NHEDC1_uc003hwv.2_Intron|NHEDC1_uc011cev.1_Intron	NM_139173	NP_631912	Q4ZJI4	NHDC1_HUMAN	Na+/H+ exchanger domain containing 1 isoform 1	99	Helical; (Potential).					integral to membrane	solute:hydrogen antiporter activity			ovary(1)|skin(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;1.5e-08)		AAAAAATAATGAACAACCCAA	0.348													9	99					6.31663e-08	6.56245e-08	0.003163	1	0		T	103870499	T	T	103870499	3	4	20	1	0	0	0	0	1	0	0	0	10419	1281	45	5	1386	5	NHEDC1	4	103870499	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	48092	103870499	87283777	410	17132	27	2									
NHEDC1	150159	broad.mit.edu	37	chr4	103870505	103870505	+	Silent	SNP	C	T	T																															ctataaaaaataatgaacaaCccaaataaatttccaccagg																								rs78695762		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:103870505C>T	uc003hww.2	-	4	413	c.291G>A	c.(289-291)GGG>GGA	p.G97G	NHEDC1_uc003hwu.2_Silent_p.G97G|NHEDC1_uc010ilm.2_5'UTR|NHEDC1_uc003hwv.2_Intron|NHEDC1_uc011cev.1_Intron	NM_139173	NP_631912	Q4ZJI4	NHDC1_HUMAN	Na+/H+ exchanger domain containing 1 isoform 1	97	Helical; (Potential).					integral to membrane	solute:hydrogen antiporter activity			ovary(1)|skin(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;1.5e-08)		TAATGAACAACCCAAATAAAT	0.363													5	100					0	0	0.001984	0	0		T	103870505	T	T	103870505	2	4	20	1	0	0	0	0	0	0	0	1	10419	494	18	4		4	NHEDC1	4	103870505	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6	103870505	87283771	411	17133	27	2									
TBCK	93627	broad.mit.edu	37	chr4	107114826	107114826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attagccaaaagccggtcccGcagctgctgaagaattgcta	12	8	10	11	2	0	2	0	1	0	1	1	2	1	2	3	1	5	4	3	1	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:107114826G>A	uc010ilv.2	-	22	2364	c.1999C>T	c.(1999-2001)CGG>TGG	p.R667W	TBCK_uc003hyb.2_Missense_Mutation_p.R410W|TBCK_uc003hye.2_Missense_Mutation_p.R628W|TBCK_uc003hyc.2_Missense_Mutation_p.R604W|TBCK_uc003hyd.2_Missense_Mutation_p.R495W|TBCK_uc003hyf.2_Missense_Mutation_p.R667W	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like	667						intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						AGCCGGTCCCGCAGCTGCTGA	0.393													14	31					0	0	0.003163	0	0		A	107114826	A	A	107114826	3	1	20	1	0	0	0	0	1	0	0	0	15661	1086	38	1	702	1	TBCK	4	107114826	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3244321	107114826	84039450	412	17134											
LEF1	51176	broad.mit.edu	37	chr4	108999451	108999451	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgacattcgctctcatttcTttcatgtataacataaaagc	13	14	4	10	2	3	0	2	0	2	0	5	1	3	0	0	0	2	2	0	0	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:108999451T>A	uc003hyt.1	-	8	1588	c.933A>T	c.(931-933)AAA>AAT	p.K311N	LEF1_uc011cfj.1_Missense_Mutation_p.K168N|LEF1_uc011cfk.1_Missense_Mutation_p.K215N|LEF1_uc003hyu.1_Missense_Mutation_p.K283N|LEF1_uc003hyv.1_Missense_Mutation_p.K283N|LEF1_uc010imb.1_RNA|LEF1_uc010ima.1_Translation_Start_Site|LEF1_uc003hyw.1_RNA	NM_016269	NP_057353	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1 isoform 1	311	HMG box.				canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		CTCTCATTTCTTTCATGTATA	0.423													10	475					0	0	0.013537	0	0		A	108999451	A	A	108999451	3	1	20	1	0	0	0	0	1	0	0	0	8730	1606	56	5	366	5	LEF1	4	108999451	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1884625	108999451	82154825	413	17135											
COL25A1	84570	broad.mit.edu	37	chr4	110223100	110223100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcatggtccgggcacaatGctgttcggcaggggtcgggt	5	8	19	9	3	0	0	0	0	0	0	3	0	1	0	1	7	1	5	1	7	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:110223100G>A	uc003hze.1	-	2	607	c.76C>T	c.(76-78)CAT>TAT	p.H26Y	COL25A1_uc003hzg.2_Missense_Mutation_p.H26Y|COL25A1_uc003hzh.1_Missense_Mutation_p.H26Y	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	26	Cytoplasmic (Potential).					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		CGGGCACAATGCTGTTCGGCA	0.672													25	73					0	0	0.003271	0	0		A	110223100	A	A	110223100	3	1	20	1	0	0	0	0	1	0	0	0	3687	1319	46	2	2116	2	COL25A1	4	110223100	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1223649	110223100	80931176	414	17136											
SEC24B	10427	broad.mit.edu	37	chr4	110416004	110416004	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatattctggattccagcagTatcctcaagtatgtattcag	11	15	7	8	0	3	0	2	0	1	0	5	1	5	1	2	1	1	4	2	1	6	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:110416004T>C	uc003hzk.2	+	6	1535	c.1480T>C	c.(1480-1482)TAT>CAT	p.Y494H	SEC24B_uc003hzl.2_Missense_Mutation_p.Y459H|SEC24B_uc011cfp.1_Missense_Mutation_p.Y525H|SEC24B_uc011cfq.1_Missense_Mutation_p.Y494H|SEC24B_uc011cfr.1_Missense_Mutation_p.Y459H	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	494					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		ATTCCAGCAGTATCCTCAAGT	0.408													6	95					0	0	0.001168	0	0		C	110416004	C	C	110416004	3	2	20	1	0	0	0	0	1	0	0	0	14020	1638	57	3	1502	3	SEC24B	4	110416004	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	192904	110416004	80738272	415	17137											
PLA2G12A	81579	broad.mit.edu	37	chr4	110638766	110638766	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcagatcttggagaggcaaTactggaattcttcatcacag	12	10	11	8	0	4	2	2	0	2	2	4	4	4	3	0	4	1	2	0	4	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:110638766T>A	uc003hzp.2	-	3	666	c.389A>T	c.(388-390)TAT>TTT	p.Y130F	PLA2G12A_uc010img.2_Missense_Mutation_p.Y128F	NM_030821	NP_110448	Q9BZM1	PG12A_HUMAN	phospholipase A2, group XIIA precursor	130					lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|calcium-dependent phospholipase A2 activity				0				OV - Ovarian serous cystadenocarcinoma(123;0.000268)		GGAGAGGCAATACTGGAATTC	0.458													4	186					0	0	0.009096	0	0		A	110638766	A	A	110638766	3	1	20	1	0	0	0	0	1	0	0	0	12009	1406	49	5	188	5	PLA2G12A	4	110638766	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	222762	110638766	80515510	416	17138											
EGF	1950	broad.mit.edu	37	chr4	110885671	110885671	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaatggtttatgccctagAtcatgaccctgtggaaaata	12	11	11	7	0	1	2	1	1	0	1	1	4	1	4	2	3	1	1	2	3	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:110885671A>T	uc003hzy.3	+	10	2005	c.1553A>T	c.(1552-1554)GAT>GTT	p.D518V	EGF_uc011cfu.1_Missense_Mutation_p.D476V|EGF_uc011cfv.1_Missense_Mutation_p.D518V	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	518	LDL-receptor class B 5.|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	TATGCCCTAGATCATGACCCT	0.413													18	303					0	0	0.012319	0	0		T	110885671	T	T	110885671	3	4	20	1	0	0	0	0	1	0	0	0	4968	333	12	5	1591	5	EGF	4	110885671	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	246905	110885671	80268605	417	17139											
ANK2	287	broad.mit.edu	37	chr4	114276333	114276333	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgactacatgaaagatgagTtccttccagctctgtcttta	10	14	7	10	1	2	3	0	2	2	1	5	4	4	3	2	0	2	2	2	0	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:114276333T>C	uc003ibe.3	+	38	6659	c.6559T>C	c.(6559-6561)TTC>CTC	p.F2187L	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_5'Flank|ANK2_uc011cgb.1_Missense_Mutation_p.F2202L	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2154					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GAAAGATGAGTTCCTTCCAGC	0.493													3	130					0	0	0.004672	0	0		C	114276333	C	C	114276333	3	2	20	1	0	0	0	0	1	0	0	0	621	1725	60	3	6774	3	ANK2	4	114276333	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3390662	114276333	76877943	418	17140											
USP53	54532	broad.mit.edu	37	chr4	120189470	120189470	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagataatttaaaagaaaatGgatttggtgatcaggcaaag	18	10	10	3	0	1	3	1	1	0	2	1	4	1	4	0	3	0	1	0	3	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:120189470G>C	uc003ics.3	+	13	2249	c.1183G>C	c.(1183-1185)GGA>CGA	p.G395R	USP53_uc003icr.3_Missense_Mutation_p.G395R|USP53_uc003icu.3_Missense_Mutation_p.G18R|USP53_uc003ict.2_Missense_Mutation_p.G18R	NM_019050	NP_061923	Q70EK8	UBP53_HUMAN	ubiquitin specific protease 53	395					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			ovary(1)|breast(1)|kidney(1)|skin(1)	4						AAAAGAAAATGGATTTGGTGA	0.358													6	98					0	0	0.001984	0	0		C	120189470	C	C	120189470	3	2	20	1	0	0	0	0	1	0	0	0	17110	1349	47	5	1221	5	USP53	4	120189470	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5913137	120189470	70964806	419	17141											
PRDM5	11107	broad.mit.edu	37	chr4	121774675	121774675	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatccaaaatgtacaaaacTtctcccttactcccacgaac	14	9	3	15	1	1	0	0	0	1	0	4	1	3	0	3	0	4	2	3	0	7	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:121774675T>G	uc003idn.2	-	3	448	c.198A>C	c.(196-198)GAA>GAC	p.E66D	PRDM5_uc003ido.2_Missense_Mutation_p.E66D|PRDM5_uc010ine.2_Missense_Mutation_p.E66D|PRDM5_uc010inf.2_Missense_Mutation_p.E66D|PRDM5_uc003idp.1_Missense_Mutation_p.E66D	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	66	SET.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						TGTACAAAACTTCTCCCTTAC	0.458													96	295					0	0	0.01441	0	0		G	121774675	G	G	121774675	3	3	20	1	0	0	0	0	1	0	0	0	12482	1606	56	5	1750	5	PRDM5	4	121774675	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1585205	121774675	69379601	420	17142											
IL21	59067	broad.mit.edu	37	chr4	123542048	123542048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaatatctataagttgaCgcattctaatcatgtggcga	14	12	7	8	2	3	1	1	1	2	0	3	2	3	1	0	1	1	2	0	1	6	6	rs141748932	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:123542048C>T	uc003ies.2	-	1	164	c.119G>A	c.(118-120)CGT>CAT	p.R40H	uc003iet.2_RNA|IL21_uc010int.2_Missense_Mutation_p.R33H	NM_021803	NP_068575	Q9HBE4	IL21_HUMAN	interleukin 21	33					cell maturation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-17 production|positive regulation of T cell proliferation|signal transduction	extracellular space	cytokine activity|interleukin-2 receptor binding				0						TATAAGTTGACGCATTCTAAT	0.363													21	62					0	0	0.010504	0	0		T	123542048	T	T	123542048	3	4	20	1	0	0	0	0	1	0	0	0	7686	536	19	1	389	1	IL21	4	123542048	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1767373	123542048	67612228	421	17143											
ANKRD50	57182	broad.mit.edu	37	chr4	125591259	125591259	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataagacctgaacaacatcaAtgtgcccttcctgggctgca	12	9	8	12	0	1	2	1	1	0	1	2	2	2	2	3	1	4	2	3	1	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:125591259A>T	uc003ifg.3	-	3	3439	c.3173T>A	c.(3172-3174)ATT>AAT	p.I1058N	ANKRD50_uc011cgo.1_Missense_Mutation_p.I879N|ANKRD50_uc010inw.2_Missense_Mutation_p.I1058N	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	1058	ANK 18.									central_nervous_system(1)	1						AACAACATCAATGTGCCCTTC	0.458													39	69					0	0	0.006999	0	0		T	125591259	T	T	125591259	3	4	20	1	0	0	0	0	1	0	0	0	677	101	4	5	1120	5	ANKRD50	4	125591259	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2049211	125591259	65563017	422	17144											
FAT4	79633	broad.mit.edu	37	chr4	126238232	126238232	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccagctcctggttgaggtGgaggacaagggtgagcctaa	10	8	15	8	0	0	2	0	2	0	0	1	4	1	4	3	5	3	2	3	5	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:126238232G>A	uc003ifj.3	+	1	666	c.666G>A	c.(664-666)GTG>GTA	p.V222V		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	222	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGGTTGAGGTGGAGGACAAGG	0.592											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	21					0	0	0.00245	0	0		A	126238232	A	A	126238232	2	1	20	1	0	0	0	0	0	0	0	1	5706	1335	47	4		4	FAT4	4	126238232	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	646973	126238232	64916044	423	17145											
MFSD8	256471	broad.mit.edu	37	chr4	128864930	128864930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaattcccaacaatccaCgagcaaccagcatgtagtat	14	8	5	14	1	0	0	0	0	0	0	3	1	3	0	4	0	4	4	4	0	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:128864930C>T	uc003ifp.2	-	5	579	c.416G>A	c.(415-417)CGT>CAT	p.R139H	MFSD8_uc011cgu.1_Missense_Mutation_p.R94H|MFSD8_uc011cgv.1_Missense_Mutation_p.R139H|MFSD8_uc011cgw.1_RNA|MFSD8_uc011cgx.1_Missense_Mutation_p.R94H	NM_152778	NP_689991	Q8NHS3	MFSD8_HUMAN	major facilitator superfamily domain containing	139	Helical; (Potential).		R -> H (in CLN7).		cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2						CAACAATCCACGAGCAACCAG	0.413													19	68					0	0	0.014323	0	0		T	128864930	T	T	128864930	3	4	20	1	0	0	0	0	1	0	0	0	9556	536	19	1	1176	1	MFSD8	4	128864930	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2626698	128864930	62289346	424	17146											
SCLT1	132320	broad.mit.edu	37	chr4	129812269	129812269	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagcagctcttgggtatgaAgtttctgtcgactcagctca	10	12	10	9	1	4	1	2	1	2	0	5	2	4	1	0	1	3	5	0	1	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:129812269A>C	uc003igp.2	-	19	2359	c.1853T>G	c.(1852-1854)CTT>CGT	p.L618R	SCLT1_uc003ign.2_Missense_Mutation_p.L282R|SCLT1_uc003igo.2_Missense_Mutation_p.L228R|SCLT1_uc003igq.2_Missense_Mutation_p.L237R|SCLT1_uc010iob.1_Missense_Mutation_p.L105R	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	618	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						TTGGGTATGAAGTTTCTGTCG	0.398													11	22					0	0	0.001855	0	0		C	129812269	C	C	129812269	3	2	20	1	0	0	0	0	1	0	0	0	13931	72	3	5	225	5	SCLT1	4	129812269	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	947339	129812269	61342007	425	17147											
ELF2	1998	broad.mit.edu	37	chr4	139980201	139980201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagggcaatagctgaaggcGcactgacaaccactacgtgg	13	5	13	10	2	0	2	0	2	0	0	0	3	0	2	1	3	3	3	1	3	6	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:139980201G>A	uc003ihp.1	-	9	1888	c.1682C>T	c.(1681-1683)GCG>GTG	p.A561V	ELF2_uc003ihm.1_Missense_Mutation_p.A513V|ELF2_uc003ihn.1_Missense_Mutation_p.A501V|ELF2_uc003iho.1_Missense_Mutation_p.A484V|ELF2_uc011chc.1_Missense_Mutation_p.A376V	NM_201999	NP_973728	Q15723	ELF2_HUMAN	E74-like factor 2 (ets domain transcription	573					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2	all_hematologic(180;0.162)					AGCTGAAGGCGCACTGACAAC	0.433													78	186					0	0	0.01441	0	0		A	139980201	A	A	139980201	3	1	20	1	0	0	0	0	1	0	0	0	5062	1087	38	1	67	1	ELF2	4	139980201	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	10167932	139980201	51174075	426	17148											
MMAA	166785	broad.mit.edu	37	chr4	146572253	146572253	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgttgctgacatggttgAcatgtttgttttactactgc	6	18	10	7	0	0	2	0	2	0	0	0	2	0	2	0	1	5	6	0	1	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:146572253A>G	uc003ikh.3	+	5	858	c.773A>G	c.(772-774)GAC>GGC	p.D258G	MMAA_uc010iow.2_Intron	NM_172250	NP_758454	Q8IVH4	MMAA_HUMAN	methylmalonic aciduria type A precursor	258						mitochondrion	GTP binding|nucleoside-triphosphatase activity			ovary(1)	1	all_hematologic(180;0.151)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GACATGGTTGACATGTTTGTT	0.308													5	163					0	0	0.001168	0	0		G	146572253	G	G	146572253	3	3	20	1	0	0	0	0	1	0	0	0	9657	275	10	3	787	3	MMAA	4	146572253	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	6592052	146572253	44582023	427	17149											
TMEM184C	55751	broad.mit.edu	37	chr4	148554111	148554111	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatttctgaaaagcatacGtgggaatggcaaactgtaga	14	11	11	5	1	1	2	0	1	1	1	1	3	1	3	0	2	3	4	0	2	7	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:148554111G>A	uc003ila.3	+	8	1406	c.837G>A	c.(835-837)ACG>ACA	p.T279T		NM_018241	NP_060711	Q9NVA4	T184C_HUMAN	transmembrane protein 184C	279						integral to membrane					0						AAAAGCATACGTGGGAATGGC	0.348													33	111					0	0	0.004878	0	0		A	148554111	A	A	148554111	2	1	20	1	0	0	0	0	0	0	0	1	16131	1132	40	1		1	TMEM184C	4	148554111	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1981858	148554111	42600165	428	17150											
NR3C2	4306	broad.mit.edu	37	chr4	149075852	149075852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgttttcaaggaccataaCgggggaaggtgtgagcgctc	11	9	14	7	2	1	1	1	1	0	0	2	3	1	3	1	4	2	2	1	4	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:149075852C>T	uc003ilj.3	-	5	2549	c.2215G>A	c.(2215-2217)GTT>ATT	p.V739I	NR3C2_uc003ilk.3_Intron|NR3C2_uc010iph.2_Intron	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	739	Steroid-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	AGGACCATAACGGGGGAAGGT	0.502													56	165					0	0	0.01441	0	0		T	149075852	T	T	149075852	3	4	20	1	0	0	0	0	1	0	0	0	10650	536	19	1	759	1	NR3C2	4	149075852	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	521741	149075852	42078424	429	17151											
LRBA	987	broad.mit.edu	37	chr4	151765907	151765907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgctgttgacactccaagCaattccttactgcgactgca	11	11	7	12	1	0	1	0	1	0	0	2	2	2	1	2	0	5	4	2	0	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:151765907C>T	uc010ipj.2	-	27	4838	c.4364G>A	c.(4363-4365)TGC>TAC	p.C1455Y	LRBA_uc003ilt.3_Missense_Mutation_p.C114Y|LRBA_uc003ilu.3_Missense_Mutation_p.C1455Y	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1455						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					ACACTCCAAGCAATTCCTTAC	0.358													20	58					0	0	0.010504	0	0		T	151765907	T	T	151765907	3	4	20	1	0	0	0	0	1	0	0	0	8949	710	25	2	4355	2	LRBA	4	151765907	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2690055	151765907	39388369	430	17152											
FBXW7	55294	broad.mit.edu	37	chr4	153332714	153332714	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaccgaaataaatctattaTtgttttcttccaactgtcct	11	17	3	10	1	2	0	0	0	2	0	4	1	4	0	3	0	2	1	3	0	7	8	rs139738471		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:153332714T>C	uc003ims.2	-	2	391	c.242A>G	c.(241-243)AAT>AGT	p.N81S	FBXW7_uc011cii.1_Missense_Mutation_p.N81S|FBXW7_uc003imt.2_Missense_Mutation_p.N81S|FBXW7_uc003imu.2_Missense_Mutation_p.N81S	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	81					interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				AAATCTATTATTGTTTTCTTC	0.403			Mis|N|D|F		colorectal|endometrial|T-ALL								4	244					0	0	0.000602	0	0		C	153332714	C	C	153332714	3	2	20	1	0	0	0	0	1	0	0	0	5783	1493	52	3	2341	3	FBXW7	4	153332714	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1566807	153332714	37821562	431	17153											
DCHS2	54798	broad.mit.edu	37	chr4	155157153	155157153	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggagggtgaaaaaatacTgatcttgagtgaaaatgggc	14	9	14	4	0	1	4	0	4	1	0	1	5	1	5	0	3	1	0	0	3	6	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:155157153T>C	uc003inw.2	-	25	7286	c.7286A>G	c.(7285-7287)CAG>CGG	p.Q2429R		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2429	Cadherin 22.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GAAAAAATACTGATCTTGAGT	0.433													32	116					0	0	0.008361	0	0		C	155157153	C	C	155157153	3	2	20	1	0	0	0	0	1	0	0	0	4291	1580	55	3	1468	3	DCHS2	4	155157153	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1824439	155157153	35997123	432	17154											
DCHS2	54798	broad.mit.edu	37	chr4	155243493	155243493	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaacattacctgaatattaAcaactgcctgtccttgaaga	15	11	5	10	0	0	3	0	2	0	1	1	3	1	3	3	0	5	0	3	0	7	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:155243493A>C	uc003inw.2	-	13	2801	c.2801T>G	c.(2800-2802)GTT>GGT	p.V934G		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	934	Cadherin 7.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CTGAATATTAACAACTGCCTG	0.353													3	72					0	0	0.000602	0	0		C	155243493	C	C	155243493	3	2	20	1	0	0	0	0	1	0	0	0	4291	43	2	5	6001	5	DCHS2	4	155243493	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	86340	155243493	35910783	433	17155											
DCHS2	54798	broad.mit.edu	37	chr4	155254317	155254317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggctggcgatggagtaccGgatgagtccgttccgcccac	6	7	15	13	5	0	1	0	1	0	0	2	4	2	3	4	4	1	3	4	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:155254317G>A	uc003inw.2	-	9	1546	c.1546C>T	c.(1546-1548)CGG>TGG	p.R516W	DCHS2_uc003inx.2_Missense_Mutation_p.R1015W	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	516	Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		ATGGAGTACCGGATGAGTCCG	0.647													9	28					0	0	0.006214	0	0		A	155254317	A	A	155254317	3	1	20	1	0	0	0	0	1	0	0	0	4291	1115	39	1	7368	1	DCHS2	4	155254317	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	10824	155254317	35899959	434	17156											
FGG	2266	broad.mit.edu	37	chr4	155526190	155526190	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgccattatcataaccattAggagtagatgcttttgagta	13	14	8	6	0	1	2	1	1	0	1	1	3	1	3	2	1	3	3	2	1	5	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:155526190A>G	uc003ioj.2	-	9	1299	c.1158T>C	c.(1156-1158)CCT>CCC	p.P386P	FGG_uc003iog.2_Silent_p.P386P|FGG_uc003ioh.2_Silent_p.P394P|FGG_uc010ipx.2_Silent_p.P214P|FGG_uc010ipy.2_Silent_p.P97P|FGG_uc003ioi.2_Silent_p.P97P|FGG_uc003iok.2_Silent_p.P394P	NM_021870	NP_068656	P02679	FIBG_HUMAN	fibrinogen, gamma chain isoform gamma-B	386	Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding				0	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	CATAACCATTAGGAGTAGATG	0.383													5	123					0	0	0.001168	0	0		G	155526190	G	G	155526190	2	3	20	1	0	0	0	0	0	0	0	1	5884	407	15	3		3	FGG	4	155526190	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	271873	155526190	35628086	435	17157											
RBM46	166863	broad.mit.edu	37	chr4	155749070	155749070	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctttcccctgttagtgctAccctctcttctgggactccc	3	15	7	16	0	3	0	0	0	3	0	6	1	5	1	4	1	2	2	4	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:155749070A>G	uc003ioo.2	+	5	1626	c.1453A>G	c.(1453-1455)ACC>GCC	p.T485A	RBM46_uc011cim.1_3'UTR|RBM46_uc003iop.1_3'UTR	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	485							nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				TGTTAGTGCTACCCTCTCTTC	0.403													6	356					0	0	0.001984	0	0		G	155749070	G	G	155749070	3	3	20	1	0	0	0	0	1	0	0	0	13165	391	14	3	1467	3	RBM46	4	155749070	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	222880	155749070	35405206	436	17158											
GUCY1A3	2982	broad.mit.edu	37	chr4	156618181	156618181	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagacattcctgagaagaaCatacaagaaagtcttcctca	17	8	6	10	0	2	4	1	1	1	4	4	5	4	4	2	0	2	0	2	0	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:156618181C>A	uc003iov.2	+	4	698	c.162C>A	c.(160-162)AAC>AAA	p.N54K	GUCY1A3_uc003iou.2_Missense_Mutation_p.N54K|GUCY1A3_uc010iqc.2_Missense_Mutation_p.N54K|GUCY1A3_uc003iow.2_Missense_Mutation_p.N54K|GUCY1A3_uc010iqd.2_Missense_Mutation_p.N54K|GUCY1A3_uc003iox.2_Missense_Mutation_p.N54K|GUCY1A3_uc003ioz.2_5'UTR|GUCY1A3_uc003ioy.2_Missense_Mutation_p.N54K|GUCY1A3_uc010iqe.2_5'UTR|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.N54K	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	54					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		CTGAGAAGAACATACAAGAAA	0.478													34	84					5.8336e-16	6.20427e-16	0.003271	1	0		A	156618181	A	A	156618181	3	1	20	1	0	0	0	0	1	0	0	0	6910	477	17	5	164	5	GUCY1A3	4	156618181	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	869111	156618181	34536095	437	17159											
TDO2	6999	broad.mit.edu	37	chr4	156832687	156832687	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtttagagccacatggAtttaacttctggggaaagct	11	11	11	8	0	1	1	0	0	1	1	1	3	1	3	2	4	3	2	2	4	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:156832687A>T	uc003ipf.1	+	7	721	c.657A>T	c.(655-657)GGA>GGT	p.G219G		NM_005651	NP_005642	P48775	T23O_HUMAN	tryptophan 2,3-dioxygenase	219					tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)	AGCCACATGGATTTAACTTCT	0.338													6	65					0	0	0.00308	0	0		T	156832687	T	T	156832687	2	4	20	1	0	0	0	0	0	0	0	1	15752	320	12	5		5	TDO2	4	156832687	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	214506	156832687	34321589	438	17160											
RAPGEF2	9693	broad.mit.edu	37	chr4	160260432	160260432	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaggtctctgtcacaccTgagggagtaatcaaacaaag	13	9	11	8	0	3	2	2	2	1	0	4	3	3	3	1	2	1	1	1	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:160260432T>C	uc003iqg.3	+	13	2287	c.1977T>C	c.(1975-1977)CCT>CCC	p.P659P		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	659	Ras-associating.				cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		CTGTCACACCTGAGGGAGTAA	0.433													13	227					0	0	0.001855	0	0		C	160260432	C	C	160260432	2	2	20	1	0	0	0	0	0	0	0	1	13069	1567	55	3		3	RAPGEF2	4	160260432	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3427745	160260432	30893844	439	17161											
NEIL3	55247	broad.mit.edu	37	chr4	178272681	178272681	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttctaaggcatgtgatgcTtgcttgacctcaaggcctat	8	14	9	10	0	3	2	1	2	2	0	3	2	3	2	2	2	2	3	2	2	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:178272681T>C	uc003iut.2	+	7	1134	c.1017T>C	c.(1015-1017)GCT>GCC	p.A339A	NEIL3_uc010irs.2_Intron	NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	339	RanBP2-type.				base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		CATGTGATGCTTGCTTGACCT	0.413								BER_DNA_glycosylases					9	355					0	0	0.010729	0	0		C	178272681	C	C	178272681	2	2	20	1	0	0	0	0	0	0	0	1	10339	1596	56	3		3	NEIL3	4	178272681	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	18012249	178272681	12881595	440	17162											
IRF2	3660	broad.mit.edu	37	chr4	185339758	185339758	+	Frame_Shift_Del	DEL	T	-	-																															attatttcctttctttatgcTtttatccttgacttcttcaa																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:185339758delT	uc003iwf.3	-	4	492	c.292delA	c.(292-294)AGCfs	p.S98fs		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	98	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		TTCTTTATGCTTTTATCCTTG	0.418													31	66	---	---	---	---						.	-	185339758	-	-	185339758	7	5	20	1	0	1	0	1	0	0	0	0	7844	1609	56	0	781	0	IRF2	4	185339758	Frame_Shift_Del	DEL	T	TCGA-BR-4362-01A-01D-1158-08	7067077	185339758	5814518	441	17163											
IRF2	3660	broad.mit.edu	37	chr4	185340688	185340688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcccacccatgtctagccGcatgcatccaggggatctga	9	8	9	15	1	2	1	0	1	2	0	4	2	4	2	4	2	2	2	4	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:185340688G>A	uc003iwf.3	-	3	322	c.122C>T	c.(121-123)GCG>GTG	p.A41V		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	41	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		ATGTCTAGCCGCATGCATCCA	0.423													29	106					0	0	0.003271	0	0		A	185340688	A	A	185340688	3	1	20	1	0	0	0	0	1	0	0	0	7844	1087	38	1	955	1	IRF2	4	185340688	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	930	185340688	5813588	442	17164											
MLF1IP	79682	broad.mit.edu	37	chr4	185637662	185637662	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctgaaagttctgaagaCgctgtggttcgaataacctc	10	13	9	9	2	2	3	0	2	2	1	5	4	2	3	1	1	1	3	1	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:185637662C>T	uc003iwq.2	-	6	577	c.507G>A	c.(505-507)GCG>GCA	p.A169A	MLF1IP_uc003iwp.2_RNA|MLF1IP_uc003iwr.1_Silent_p.A169A	NM_024629	NP_078905	Q71F23	CENPU_HUMAN	MLF1 interacting protein	169					CenH3-containing nucleosome assembly at centromere|interspecies interaction between organisms|mitotic prometaphase|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|condensed chromosome kinetochore|cytosol|nucleoplasm					0		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Hepatocellular(41;0.000519)|Colorectal(36;0.00172)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.0299)|all_hematologic(60;0.0592)|Medulloblastoma(177;0.146)		all cancers(43;7.83e-28)|Epithelial(43;2.56e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.5e-11)|Colorectal(24;3.27e-06)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.16e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000252)|COAD - Colon adenocarcinoma(29;0.000512)|LUSC - Lung squamous cell carcinoma(40;0.01)|READ - Rectum adenocarcinoma(43;0.0419)		GTTCTGAAGACGCTGTGGTTC	0.418													15	47					0	0	0.003163	0	0		T	185637662	T	T	185637662	2	4	20	1	0	0	0	0	0	0	0	1	9633	523	19	1		1	MLF1IP	4	185637662	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	296974	185637662	5516614	443	17165											
SLC25A4	291	broad.mit.edu	37	chr4	186068023	186068023	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaagattgcaaaagacgaAggagccaaggccttcttcaa	16	6	11	8	1	2	2	1	0	1	2	2	5	2	4	2	3	2	1	2	3	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:186068023A>G	uc003ixd.2	+	4	924	c.795A>G	c.(793-795)GAA>GAG	p.E265E	SLC25A4_uc003ixe.2_RNA	NM_001151	NP_001142	P12235	ADT1_HUMAN	adenine nucleotide translocator 1	265	Solcar 3.				energy reserve metabolic process|interspecies interaction between organisms|mitochondrial genome maintenance|negative regulation of necrotic cell death|regulation of insulin secretion|viral reproduction	integral to plasma membrane|mitochondrial inner membrane	adenine transmembrane transporter activity|protein binding			ovary(1)	1		all_lung(41;1.19e-13)|Lung NSC(41;3.16e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00872)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;4.48e-44)|Epithelial(43;2.1e-41)|all cancers(43;1.37e-36)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)	Adenosine triphosphate(DB00171)|Clodronate(DB00720)	CAAAAGACGAAGGAGCCAAGG	0.483													15	37					0	0	0.00499	0	0		G	186068023	G	G	186068023	2	3	20	1	0	0	0	0	0	0	0	1	14529	69	3	3		3	SLC25A4	4	186068023	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	430361	186068023	5086253	444	17166											
FAM149A	25854	broad.mit.edu	37	chr4	187084649	187084649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcaccgcacagactgggacGggcctcagacactcatggat	10	5	12	14	3	2	2	2	0	0	2	2	4	2	4	2	3	0	2	2	3	0	0	rs139445329	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:187084649G>A	uc003iyt.3	+	10	1484	c.905G>A	c.(904-906)CGG>CAG	p.R302Q	FAM149A_uc011cla.1_Missense_Mutation_p.R302Q|FAM149A_uc003iyu.3_Missense_Mutation_p.R302Q|FAM149A_uc010isl.2_Missense_Mutation_p.R302Q|FAM149A_uc011clb.1_Missense_Mutation_p.R302Q	NM_015398	NP_056213	A5PLN7	F149A_HUMAN	hypothetical protein LOC25854	593										breast(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.19e-10)|BRCA - Breast invasive adenocarcinoma(30;1.22e-05)|GBM - Glioblastoma multiforme(59;0.000122)|STAD - Stomach adenocarcinoma(60;0.000288)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.166)		AGACTGGGACGGGCCTCAGAC	0.522													30	51					0	0	0.009535	0	0		A	187084649	A	A	187084649	3	1	20	1	0	0	0	0	1	0	0	0	5466	1116	39	1	931	1	FAM149A	4	187084649	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1016626	187084649	4069627	445	17167											
TRIML2	205860	broad.mit.edu	37	chr4	189013068	189013068	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagtgccaggcagggatgaGctgtttcaggatccaatgtt	10	11	13	7	0	1	1	1	1	0	0	2	3	2	3	2	3	2	4	2	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr4:189013068G>T	uc003izl.2	-	7	659	c.623C>A	c.(622-624)GCT>GAT	p.A208D	TRIML2_uc003izj.1_Missense_Mutation_p.A36D|TRIML2_uc003izk.1_Missense_Mutation_p.A16D|TRIML2_uc011cle.1_Missense_Mutation_p.A283D	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	208	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		GCAGGGATGAGCTGTTTCAGG	0.478													26	55					4.7796e-09	4.98772e-09	0.004656	1	0		T	189013068	T	T	189013068	3	4	20	1	0	0	0	0	1	0	0	0	16577	971	34	5	544	5	TRIML2	4	189013068	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1928419	189013068	2141208	446	17168											
CCDC127	133957	broad.mit.edu	37	chr5	206059	206059	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacttctttctgggactcccTagaccaaatccaacctgaca	11	11	5	14	0	2	2	0	1	2	1	4	3	4	3	4	1	2	0	4	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:206059T>C	uc003jam.1	-	3	236	c.136A>G	c.(136-138)AGG>GGG	p.R46G		NM_145265	NP_660308	Q96BQ5	CC127_HUMAN	coiled-coil domain containing 127	46											0			all cancers(22;0.0236)|Lung(60;0.113)			TGGGACTCCCTAGACCAAATC	0.423													5	171					0	0	0.001168	0	0		C	206059	C	C	206059	3	2	20	1	0	0	0	0	1	0	0	0	2766	1521	53	3	650	3	CCDC127	5	206059	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08		206059	180709201	447	17169											
NKD2	85409	broad.mit.edu	37	chr5	1038076	1038076	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctcggagcctgctgcccGggccctggacacgcagcccc	5	4	13	19	3	0	0	0	0	0	0	1	2	0	2	6	3	5	2	6	3	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:1038076G>A	uc003jbt.1	+	10	949	c.944G>A	c.(943-945)CGG>CAG	p.R315Q	NKD2_uc010itf.1_3'UTR	NM_033120	NP_149111	Q969F2	NKD2_HUMAN	naked cuticle homolog 2	315	Interaction with TGFA.				exocytosis|Wnt receptor signaling pathway	cytoplasmic membrane-bounded vesicle|plasma membrane	calcium ion binding|ubiquitin protein ligase binding				0	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;3.28e-09)		Epithelial(17;0.00093)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00417)|Lung(60;0.165)			CCTGCTGCCCGGGCCCTGGAC	0.701													3	15					0	0	0.001168	0	0		A	1038076	A	A	1038076	3	1	20	1	0	0	0	0	1	0	0	0	10461	1116	39	1	982	1	NKD2	5	1038076	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	832017	1038076	179877184	448	17170											
SLC12A7	10723	broad.mit.edu	37	chr5	1073892	1073892	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acggcctgctccgcgtccagGttcagcatcaccagcacctg	7	7	10	17	3	2	0	2	0	0	0	4	0	4	0	5	2	3	4	5	2	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:1073892G>A	uc003jbu.2	-	17	2163	c.2097C>T	c.(2095-2097)AAC>AAT	p.N699N		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	699					potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	CCGCGTCCAGGTTCAGCATCA	0.682													5	106					0	0	0.000602	0	0		A	1073892	A	A	1073892	2	1	20	1	0	0	0	0	0	0	0	1	14413	1252	44	4		4	SLC12A7	5	1073892	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	35816	1073892	179841368	449	17171											
IRX2	153572	broad.mit.edu	37	chr5	2749792	2749793	+	Frame_Shift_Del	DEL	TT	-	-																															ccgtggcgtcccgcgtggcgTtcttgcggtacgcggggtcg																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:2749792_2749793delTT	uc003jda.2	-	2	600_601	c.358_359delAA	c.(358-360)AACfs	p.N120fs	C5orf38_uc003jdc.2_5'Flank|C5orf38_uc011cmg.1_5'Flank|C5orf38_uc011cmh.1_5'Flank|C5orf38_uc011cmi.1_5'Flank|C5orf38_uc011cmj.1_5'Flank|IRX2_uc003jdb.2_Frame_Shift_Del_p.N120fs	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	120	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		CCGCGTGGCGTTCTTGCGGTAC	0.658													50	67	---	---	---	---						.	-	2749793	-	-	2749792	7	5	20	1	0	1	0	1	0	0	0	0	7860	1725	60	0	1068	0	IRX2	5	2749792	Frame_Shift_Del	DEL	TT	TCGA-BR-4362-01A-01D-1158-08	1675900	2749792	178165468	450	17172											
KIAA0947	23379	broad.mit.edu	37	chr5	5462178	5462178	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgatggggaaagagatgatAcaacacaaaacatcacggag	18	5	12	6	1	1	3	1	2	0	1	1	6	1	5	0	3	3	0	0	3	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:5462178A>G	uc003jdm.3	+	13	2953	c.2731A>G	c.(2731-2733)ACA>GCA	p.T911A		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	911										ovary(1)|central_nervous_system(1)	2						AAGAGATGATACAACACAAAA	0.423													4	140					0	0	0.009096	0	0		G	5462178	G	G	5462178	3	3	20	1	0	0	0	0	1	0	0	0	8218	391	14	3	2781	3	KIAA0947	5	5462178	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2712386	5462178	175453082	451	17173											
KIAA0947	23379	broad.mit.edu	37	chr5	5464615	5464615	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcggccacgccgaagcAcgcacttcctgtgcctggcc	5	7	12	17	4	0	0	0	0	0	0	1	1	1	0	5	2	3	2	5	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:5464615A>G	uc003jdm.3	+	13	5390	c.5168A>G	c.(5167-5169)CAC>CGC	p.H1723R		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1723	Pro-rich.									ovary(1)|central_nervous_system(1)	2						ACGCCGAAGCACGCACTTCCT	0.592													5	88					0	0	0.000602	0	0		G	5464615	G	G	5464615	3	3	20	1	0	0	0	0	1	0	0	0	8218	159	6	3	5218	3	KIAA0947	5	5464615	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2437	5464615	175450645	452	17174											
SRD5A1	6715	broad.mit.edu	37	chr5	6633704	6633704	+	Frame_Shift_Del	DEL	G	-	-																															ctggcgatggcaacggcgacGggggtggcggaggagcgcct																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:6633704delG	uc003jdw.2	+	1	205	c.15delG	c.(13-15)ACGfs	p.T5fs	NSUN2_uc003jdu.2_5'Flank|NSUN2_uc011cmk.1_5'Flank|NSUN2_uc003jdv.2_5'Flank|SRD5A1_uc011cml.1_RNA|SRD5A1_uc011cmm.1_Frame_Shift_Del_p.R14fs	NM_001047	NP_001038	P18405	S5A1_HUMAN	steroid-5-alpha-reductase 1	5					androgen biosynthetic process|cell differentiation|sex determination|sex differentiation	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|electron carrier activity				0					Dutasteride(DB01126)|Finasteride(DB01216)	CAACGGCGACGGGGGTGGCGG	0.736													3	3	---	---	---	---						.	-	6633704	-	-	6633704	7	5	20	1	0	1	0	1	0	0	0	0	15163	1103	39	0	17	0	SRD5A1	5	6633704	Frame_Shift_Del	DEL	G	TCGA-BR-4362-01A-01D-1158-08	1169089	6633704	174281556	453	17175											
FASTKD3	79072	broad.mit.edu	37	chr5	7866040	7866040	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcattccaggactgaggCtaagaaaagttgggtcagtt	12	9	14	6	0	1	2	1	1	0	1	2	3	2	3	1	4	0	4	1	4	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:7866040C>A	uc003jeb.2	-	3	1632	c.1495G>T	c.(1495-1497)GCC>TCC	p.A499S	FASTKD3_uc011cmp.1_Missense_Mutation_p.A201S|FASTKD3_uc003jec.2_RNA	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	499					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						AGGACTGAGGCTAAGAAAAGT	0.418													26	166					3.01185e-09	3.14455e-09	0.003954	1	0		A	7866040	A	A	7866040	3	1	20	1	0	0	0	0	1	0	0	0	5701	797	28	5	513	5	FASTKD3	5	7866040	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1232336	7866040	173049220	454	17176											
TRIO	7204	broad.mit.edu	37	chr5	14498254	14498254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgtgagacaggggagaccGttgttcttagatgtcgagtc	8	11	15	7	3	1	3	0	1	1	3	3	6	1	3	1	2	0	2	1	2	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:14498254G>A	uc003jff.2	+	52	8110	c.8104G>A	c.(8104-8106)GTT>ATT	p.V2702I	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2702	Ig-like C2-type.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					AGGGGAGACCGTTGTTCTTAG	0.542													62	91					0	0	0.01441	0	0		A	14498254	A	A	14498254	3	1	20	1	0	0	0	0	1	0	0	0	16578	1145	40	1	8310	1	TRIO	5	14498254	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6632214	14498254	166417006	455	17177											
FBXL7	23194	broad.mit.edu	37	chr5	15936943	15936943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgctacgtggccaagtactGcagcaagctgcgctacctca	9	7	10	15	3	1	0	1	0	0	0	1	0	1	0	3	1	7	6	3	1	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:15936943G>A	uc003jfn.1	+	4	1605	c.1124G>A	c.(1123-1125)TGC>TAC	p.C375Y		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	375	LRR 8.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						GCCAAGTACTGCAGCAAGCTG	0.642													6	11					0	0	0.00308	0	0		A	15936943	A	A	15936943	3	1	20	1	0	0	0	0	1	0	0	0	5738	1319	46	2	1138	2	FBXL7	5	15936943	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1438689	15936943	164978317	456	17178											
ZNF622	90441	broad.mit.edu	37	chr5	16465449	16465449	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaagttcttttcattcAtcatctccactttccgattc	7	18	2	14	1	6	0	3	0	3	0	10	1	7	0	3	0	0	1	3	0	1	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:16465449A>G	uc003jfq.2	-	1	446	c.326T>C	c.(325-327)ATG>ACG	p.M109T		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	109						cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						CTTTTCATTCATCATCTCCAC	0.557													15	221					0	0	0.004007	0	0		G	16465449	G	G	16465449	3	3	20	1	0	0	0	0	1	0	0	0	18071	217	8	3	1131	3	ZNF622	5	16465449	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	528506	16465449	164449811	457	17179											
CDH12	1010	broad.mit.edu	37	chr5	21802401	21802401	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaccggtggctcatctacGtccagcacgctgatcttcac	10	9	8	14	3	4	1	2	1	2	0	5	1	5	1	2	2	3	3	2	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:21802401G>A	uc010iuc.2	-	7	1589	c.1131C>T	c.(1129-1131)GAC>GAT	p.D377D	CDH12_uc011cno.1_Silent_p.D337D|CDH12_uc003jgk.2_Silent_p.D377D	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	377	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						GCTCATCTACGTCCAGCACGC	0.537										HNSCC(59;0.17)			25	42					0	0	0.004656	0	0		A	21802401	A	A	21802401	2	1	20	1	0	0	0	0	0	0	0	1	3101	1136	40	1		1	CDH12	5	21802401	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5336952	21802401	159112859	458	17180											
CDH10	1008	broad.mit.edu	37	chr5	24493022	24493022	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctttgtctactgcacttaTagtctgtattagctgcagaa	10	16	7	8	0	3	1	0	0	3	1	3	1	3	1	0	0	4	4	0	0	6	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:24493022T>G	uc003jgr.1	-	10	1860	c.1528A>C	c.(1528-1530)ATA>CTA	p.I510L	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	510	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ACTGCACTTATAGTCTGTATT	0.338										HNSCC(23;0.051)			36	179					0	0	0.004289	0	0		G	24493022	G	G	24493022	3	3	20	1	0	0	0	0	1	0	0	0	3099	1406	49	5	850	5	CDH10	5	24493022	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2690621	24493022	156422238	459	17181											
C5orf22	55322	broad.mit.edu	37	chr5	31534401	31534401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctaccctttatataccgggCcataggctcaaagcatcttc	10	12	6	13	1	3	0	1	0	2	0	4	0	3	0	3	2	3	2	3	2	6	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:31534401C>T	uc003jhj.3	+	2	231	c.104C>T	c.(103-105)GCC>GTC	p.A35V	RNASEN_uc003jhh.2_5'Flank|RNASEN_uc003jhg.2_5'Flank|RNASEN_uc003jhi.2_5'Flank|C5orf22_uc011cnw.1_RNA|C5orf22_uc003jhk.3_5'UTR	NM_018356	NP_060826	Q49AR2	CE022_HUMAN	hypothetical protein LOC55322	35										ovary(2)	2						ATATACCGGGCCATAGGCTCA	0.423													23	91					0	0	0.00278	0	0		T	31534401	T	T	31534401	3	4	20	1	0	0	0	0	1	0	0	0	2288	739	26	2	110	2	C5orf22	5	31534401	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	7041379	31534401	149380859	460	17182											
ZFR	51663	broad.mit.edu	37	chr5	32417836	32417836	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttgctgttggttgttggTagtattgcttactatcataa	8	18	10	5	0	1	0	1	0	0	0	1	0	1	0	0	2	3	8	0	2	5	10			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:32417836T>A	uc003jhr.1	-	4	562	c.482A>T	c.(481-483)TAC>TTC	p.Y161F	ZFR_uc010iun.1_Missense_Mutation_p.Y161F	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	161	Ala-rich.				multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		TGGTTGTTGGTAGTATTGCTT	0.433													27	95					0	0	0.004656	0	0		A	32417836	A	A	32417836	3	1	20	1	0	0	0	0	1	0	0	0	17684	1638	57	5	2810	5	ZFR	5	32417836	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	883435	32417836	148497424	461	17183											
ADAMTS12	81792	broad.mit.edu	37	chr5	33658358	33658358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcattgatgttacaactgCggtgaggctgacacattcct	9	13	9	10	1	1	3	1	3	0	0	2	3	2	3	1	2	3	2	1	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:33658358C>T	uc003jia.1	-	7	1284	c.1121G>A	c.(1120-1122)CGC>CAC	p.R374H	ADAMTS12_uc010iuq.1_Missense_Mutation_p.R374H	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	374	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GTTACAACTGCGGTGAGGCTG	0.507										HNSCC(64;0.19)			29	236					0	0	0.007291	0	0		T	33658358	T	T	33658358	3	4	20	1	0	0	0	0	1	0	0	0	257	768	27	1	3735	1	ADAMTS12	5	33658358	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1240522	33658358	147256902	462	17184											
SPEF2	79925	broad.mit.edu	37	chr5	35646909	35646909	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaagaaaaaagaggcagaAgtaagtgataatcctttaat	22	8	8	3	0	0	4	0	1	0	3	1	4	1	4	1	1	0	2	1	1	9	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:35646909A>C	uc003jjo.2	+	5	837	c.726A>C	c.(724-726)GAA>GAC	p.E242D	SPEF2_uc003jjn.1_Missense_Mutation_p.E242D|SPEF2_uc003jjq.3_Missense_Mutation_p.E242D	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	242	Potential.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AAGAGGCAGAAGTAAGTGATA	0.343													4	85					0	0	0.009096	0	0		C	35646909	C	C	35646909	3	2	20	1	0	0	0	0	1	0	0	0	15060	86	3	5	744	5	SPEF2	5	35646909	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1988551	35646909	145268351	463	17185											
SPEF2	79925	broad.mit.edu	37	chr5	35807348	35807348	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaaattattcagactataAgtttcctgtgagtattaccc	12	16	5	8	0	2	2	2	1	0	1	3	2	3	2	2	0	1	2	2	0	6	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:35807348A>G	uc003jjo.2	+	36	5483	c.5372A>G	c.(5371-5373)AAG>AGG	p.K1791R	SPEF2_uc003jjp.1_Missense_Mutation_p.K1277R|SPEF2_uc003jjr.2_Missense_Mutation_p.K846R	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1791					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TCAGACTATAAGTTTCCTGTG	0.418													5	223					0	0	0.001168	0	0		G	35807348	G	G	35807348	3	3	20	1	0	0	0	0	1	0	0	0	15060	72	3	3	5535	3	SPEF2	5	35807348	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	160439	35807348	145107912	464	17186											
C9	735	broad.mit.edu	37	chr5	39288948	39288948	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggcatgtgtggcattttcTtacactaaattcattgatat	10	18	7	6	0	2	1	1	1	1	0	2	1	2	1	0	2	1	2	0	2	4	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:39288948T>C	uc003jlv.3	-	10	1611	c.1522A>G	c.(1522-1524)AGA>GGA	p.R508G		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	508	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			TGGCATTTTCTTACACTAAAT	0.363													36	191					0	0	0.004289	0	0		C	39288948	C	C	39288948	3	2	20	1	0	0	0	0	1	0	0	0	2446	1617	56	3	165	3	C9	5	39288948	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3481600	39288948	141626312	465	17187											
C6	729	broad.mit.edu	37	chr5	41201782	41201782	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcaaatctgttcacaaaAgttttcctggtagtacttat	11	15	7	8	0	2	0	1	0	1	0	3	0	3	0	1	1	2	6	1	1	6	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:41201782A>T	uc003jmk.2	-	3	388	c.178T>A	c.(178-180)TTT>ATT	p.F60I	C6_uc003jml.1_Missense_Mutation_p.F60I	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	60	TSP type-1 1.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TGTTCACAAAAGTTTTCCTGG	0.413													18	104					0	0	0.012319	0	0		T	41201782	T	T	41201782	3	4	20	1	0	0	0	0	1	0	0	0	2318	72	3	5	2690	5	C6	5	41201782	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1912834	41201782	139713478	466	17188											
SNX18	112574	broad.mit.edu	37	chr5	53814454	53814454	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccaagagctcggccacCgtgagccgcaacctcaatcg	9	4	12	16	4	1	2	1	1	0	1	3	2	1	2	5	2	3	2	5	2	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:53814454C>A	uc003jpj.3	+	1	862	c.672C>A	c.(670-672)ACC>ACA	p.T224T	SNX18_uc011cqg.1_Silent_p.T224T|SNX18_uc003jpi.3_Silent_p.T224T	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	224					cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)				GCTCGGCCACCGTGAGCCGCA	0.711													22	43					1.85244e-09	1.93598e-09	0.00333	1	0		A	53814454	A	A	53814454	2	1	20	1	0	0	0	0	0	0	0	1	14914	639	23	5		5	SNX18	5	53814454	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	12612672	53814454	127100806	467	17189											
IL6ST	3572	broad.mit.edu	37	chr5	55247857	55247857	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccactctaagacagcttcGtttttccctactttttttgt	6	19	4	12	1	1	1	0	0	1	1	4	1	3	1	2	0	2	2	2	0	2	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:55247857G>A	uc003jqq.2	-	13	1854	c.1599C>T	c.(1597-1599)AAC>AAT	p.N533N	IL6ST_uc010iwb.2_Silent_p.N472N|IL6ST_uc010iwc.2_Intron|IL6ST_uc010iwd.2_Intron|IL6ST_uc011cqk.1_Silent_p.N244N|IL6ST_uc003jqr.2_3'UTR|IL6ST_uc010iwe.1_5'Flank	NM_002184	NP_002175	P40189	IL6RB_HUMAN	interleukin 6 signal transducer isoform 1	533	Extracellular (Potential).|Fibronectin type-III 5.				interleukin-6-mediated signaling pathway|leukemia inhibitory factor signaling pathway|negative regulation of interleukin-6-mediated signaling pathway|positive regulation of anti-apoptosis|positive regulation of cardiac muscle hypertrophy|positive regulation of osteoblast differentiation|positive regulation of T cell proliferation|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation vascular endothelial growth factor production	ciliary neurotrophic factor receptor complex|extracellular region|extracellular space|interleukin-6 receptor complex|oncostatin-M receptor complex	ciliary neurotrophic factor receptor activity|ciliary neurotrophic factor receptor binding|growth factor binding|protein homodimerization activity			large_intestine(1)|ovary(1)	2		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)				AGACAGCTTCGTTTTTCCCTA	0.348			O		hepatocellular ca								16	32					0	0	0.007413	0	0		A	55247857	A	A	55247857	2	1	20	1	0	0	0	0	0	0	0	1	7719	1136	40	1		1	IL6ST	5	55247857	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1433403	55247857	125667403	468	17190											
C5orf35	133383	broad.mit.edu	37	chr5	56209799	56209799	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggctgtgggacagtatgTcaacaattgttccaatggta	10	13	11	7	0	2	0	1	0	1	0	3	1	3	1	1	3	1	4	1	3	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:56209799T>C	uc003jqx.2	+	4	1062	c.689T>C	c.(688-690)GTC>GCC	p.V230A	C5orf35_uc003jqy.2_RNA	NM_153706	NP_714917	Q8NE22	CE035_HUMAN	hypothetical protein LOC133383	230										ovary(1)	1		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.173)		OV - Ovarian serous cystadenocarcinoma(10;2.58e-39)		GGACAGTATGTCAACAATTGT	0.443													4	52					0	0	0.009096	0	0		C	56209799	C	C	56209799	3	2	20	1	0	0	0	0	1	0	0	0	2297	1667	58	3	703	3	C5orf35	5	56209799	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	961942	56209799	124705461	469	17191											
HTR1A	3350	broad.mit.edu	37	chr5	63257304	63257304	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacaccgacaccatgaggtcGgtgaccgccaaagagccaat	14	4	10	13	3	0	3	0	2	0	1	1	4	0	3	5	2	2	0	5	2	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:63257304G>A	uc011cqt.1	-	1	243	c.243C>T	c.(241-243)ACC>ACT	p.T81T		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	81	Helical; Name=2; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	CCATGAGGTCGGTGACCGCCA	0.612													7	13					0	0	0.001984	0	0		A	63257304	A	A	63257304	2	1	20	1	0	0	0	0	0	0	0	1	7452	1103	39	1		1	HTR1A	5	63257304	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	7047505	63257304	117657956	470	17192											
OCLN	4950	broad.mit.edu	37	chr5	68805114	68805114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcctccaggagtgattcGgatcctgtctatgctcatta	7	14	8	12	1	3	1	1	1	2	0	7	3	5	3	3	2	1	1	3	2	2	3	rs116363086	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:68805114G>A	uc003jwu.2	+	3	633	c.197G>A	c.(196-198)CGG>CAG	p.R66Q	OCLN_uc003jwv.3_Missense_Mutation_p.R66Q	NM_002538	NP_002529			occludin												0		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		GGAGTGATTCGGATCCTGTCT	0.478													63	152					0	0	0.01441	0	0		A	68805114	A	A	68805114	3	1	20	1	0	0	0	0	1	0	0	0	10839	1116	39	1	203	1	OCLN	5	68805114	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5547810	68805114	112110146	471	17193											
MAP1B	4131	broad.mit.edu	37	chr5	71490958	71490958	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaatggtgaaaaaagacaaGccaataaaaacagagaccaa	23	4	8	6	0	0	3	0	1	0	2	0	4	0	3	2	1	2	1	2	1	10	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:71490958G>A	uc003kbw.3	+	5	2017	c.1776G>A	c.(1774-1776)AAG>AAA	p.K592K	MAP1B_uc010iyw.1_Silent_p.K609K|MAP1B_uc010iyx.1_Silent_p.K466K|MAP1B_uc010iyy.1_Silent_p.K466K	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	592	Lys-rich (highly basic, contains many KKEE and KKEI/V repeats).					microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		AAAAAGACAAGCCAATAAAAA	0.448													22	53					0	0	0.012319	0	0		A	71490958	A	A	71490958	2	1	20	1	0	0	0	0	0	0	0	1	9246	962	34	2		2	MAP1B	5	71490958	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2685844	71490958	109424302	472	17194											
UTP15	84135	broad.mit.edu	37	chr5	72872794	72872794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggaaggtgaaagtatacaGcacaacttcctacaaagtag	17	8	9	7	0	0	1	0	1	0	0	1	2	1	2	1	2	4	3	1	2	9	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:72872794G>A	uc003kcw.1	+	8	1050	c.827G>A	c.(826-828)AGC>AAC	p.S276N	UTP15_uc011cso.1_Missense_Mutation_p.S257N|UTP15_uc011csp.1_Missense_Mutation_p.S86N|UTP15_uc010ize.1_Missense_Mutation_p.S276N	NM_032175	NP_115551	Q8TED0	UTP15_HUMAN	UTP15, U3 small nucleolar ribonucleoprotein,	276	WD 6.				rRNA processing	cytoplasm|nucleolus					0		Lung NSC(167;0.00405)|Ovarian(174;0.0129)		OV - Ovarian serous cystadenocarcinoma(47;7.76e-55)		AAAGTATACAGCACAACTTCC	0.328													7	444					0	0	0.001984	0	0		A	72872794	A	A	72872794	3	1	20	1	0	0	0	0	1	0	0	0	17123	971	34	2	853	2	UTP15	5	72872794	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1381836	72872794	108042466	473	17195											
FAM169A	26049	broad.mit.edu	37	chr5	74130280	74130280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taactgaataaaacccaatgGcctctcctttcttccacaga	13	11	4	13	0	2	2	0	1	2	1	4	2	3	2	4	1	2	0	4	1	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:74130280G>A	uc003kdm.2	-	5	504	c.461C>T	c.(460-462)GCC>GTC	p.A154V	FAM169A_uc010izm.2_Missense_Mutation_p.A154V|FAM169A_uc003kdl.2_Intron	NM_015566	NP_056381	Q9Y6X4	F169A_HUMAN	hypothetical protein LOC26049	154											0						AAACCCAATGGCCTCTCCTTT	0.358													26	72					0	0	0.00632	0	0		A	74130280	A	A	74130280	3	1	20	1	0	0	0	0	1	0	0	0	5498	1203	42	2	1587	2	FAM169A	5	74130280	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1257486	74130280	106784980	474	17196											
HMGCR	3156	broad.mit.edu	37	chr5	74643075	74643075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatggcaattttaggtcCtacgtttaccctcgatgctc	8	14	9	10	2	0	0	0	0	0	0	3	2	1	1	2	3	3	3	2	3	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:74643075C>T	uc003kdp.2	+	6	653	c.497C>T	c.(496-498)CCT>CTT	p.P166L	HMGCR_uc011cst.1_Missense_Mutation_p.P186L|HMGCR_uc003kdq.2_Missense_Mutation_p.P166L|HMGCR_uc010izn.1_Missense_Mutation_p.P6L	NM_000859	NP_000850	P04035	HMDH_HUMAN	3-hydroxy-3-methylglutaryl-Coenzyme A reductase	166	Helical; (Potential).				cholesterol biosynthetic process|coenzyme A metabolic process|germ cell migration|gonad development|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal membrane	hydroxymethylglutaryl-CoA reductase (NADPH) activity|NADP binding			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;2.24e-54)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Cerivastatin(DB00439)|Fluvastatin(DB01095)|Lovastatin(DB00227)|NADH(DB00157)|Pravastatin(DB00175)|Rosuvastatin(DB01098)|Simvastatin(DB00641)	ATTTTAGGTCCTACGTTTACC	0.363													24	448					0	0	0.005443	0	0		T	74643075	T	T	74643075	3	4	20	1	0	0	0	0	1	0	0	0	7247	681	24	4	515	4	HMGCR	5	74643075	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	512795	74643075	106272185	475	17197											
WDR41	55255	broad.mit.edu	37	chr5	76785281	76785281	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagaccactatagcttcttaCctgtagtcatctaactgtac	11	14	5	11	0	3	1	1	0	2	1	3	1	3	1	2	0	4	3	2	0	7	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:76785281C>T	uc003kff.1	-	2	454	c.167_splice	c.e2+1	p.R56_splice	WDR41_uc011csy.1_Splice_Site_p.R56_splice|WDR41_uc011csz.1_Intron|WDR41_uc011cta.1_Splice_Site|WDR41_uc011ctb.1_Splice_Site	NM_018268	NP_060738	Q9HAD4	WDR41_HUMAN	WD repeat domain 41												0		all_lung(232;0.000961)|Lung NSC(167;0.0011)|Ovarian(174;0.0105)|Prostate(461;0.059)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-50)|Epithelial(54;2.04e-44)|all cancers(79;6.84e-40)		TAGCTTCTTACCTGTAGTCAT	0.338													13	196					0	0	0.013537	0	0		T	76785281	T	T	76785281	5	4	20	1	0	0	0	0	0	0	1	0	17320	521	18	4	1259	4	WDR41	5	76785281	Splice_Site	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2142206	76785281	104129979	476	17198											
CMYA5	202333	broad.mit.edu	37	chr5	79027504	79027504	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaaaagagaatttgagtgCgattctccaatatgtttaac	15	12	9	5	1	1	3	0	1	1	2	2	6	1	3	1	0	2	1	1	0	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:79027504C>T	uc003kgc.2	+	2	2988	c.2916C>T	c.(2914-2916)TGC>TGT	p.C972C		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	972						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AATTTGAGTGCGATTCTCCAA	0.418													26	49					0	0	0.004656	0	0		T	79027504	T	T	79027504	2	4	20	1	0	0	0	0	0	0	0	1	3593	776	27	1		1	CMYA5	5	79027504	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2242223	79027504	101887756	477	17199											
VCAN	1462	broad.mit.edu	37	chr5	82833689	82833689	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaaagctgggtagaagcaActcctagacaagttgtagag	16	7	12	6	0	0	4	0	0	0	4	1	4	1	4	1	1	3	5	1	1	8	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:82833689A>G	uc003kii.3	+	8	5223	c.4867A>G	c.(4867-4869)ACT>GCT	p.T1623A	VCAN_uc003kij.3_Missense_Mutation_p.T636A|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.T287A	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1623	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GGTAGAAGCAACTCCTAGACA	0.438													4	119					0	0	0.009096	0	0		G	82833689	G	G	82833689	3	3	20	1	0	0	0	0	1	0	0	0	17164	43	2	3	4893	3	VCAN	5	82833689	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3806185	82833689	98081571	478	17200											
ERAP1	51752	broad.mit.edu	37	chr5	96139461	96139461	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataatgaactgggatgacgtActcaggaagtcgtattttat	13	13	10	5	2	1	2	1	2	0	0	2	4	1	4	0	2	2	2	0	2	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:96139461A>G	uc003kmm.2	-	2	516	c.169T>C	c.(169-171)TAC>CAC	p.Y57H	ERAP1_uc003kml.2_Missense_Mutation_p.Y57H|ERAP1_uc010jbm.1_Intron|ERAP1_uc003kmn.2_Missense_Mutation_p.Y57H	NM_001040458	NP_001035548	Q9NZ08	ERAP1_HUMAN	type 1 tumor necrosis factor receptor shedding	57	Lumenal (Potential).				angiogenesis|antigen processing and presentation of endogenous peptide antigen via MHC class I|fat cell differentiation|membrane protein ectodomain proteolysis|regulation of blood pressure|regulation of innate immune response|response to bacterium	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|integral to membrane	aminopeptidase activity|interleukin-1, Type II receptor binding|interleukin-6 receptor binding|metalloexopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		all_cancers(142;1.75e-06)|all_epithelial(76;3.08e-09)|all_lung(232;0.000435)|Lung NSC(167;0.000601)|Ovarian(225;0.024)|Colorectal(57;0.0432)|Breast(839;0.244)		all cancers(79;7.26e-15)|COAD - Colon adenocarcinoma(37;0.071)		GGGATGACGTACTCAGGAAGT	0.468													6	143					0	0	0.001984	0	0		G	96139461	G	G	96139461	3	3	20	1	0	0	0	0	1	0	0	0	5211	391	14	3	2761	3	ERAP1	5	96139461	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	13305772	96139461	84775799	479	17201											
FBXL17	64839	broad.mit.edu	37	chr5	107700605	107700605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taaatgctaaaacacatacgCcattatcagacatactgcga	17	9	5	10	2	1	1	1	0	0	1	1	2	1	1	1	0	5	1	1	0	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:107700605C>T	uc011cvc.1	-	3	1615	c.1208G>A	c.(1207-1209)GGC>GAC	p.G403D	FBXL17_uc003kon.3_Missense_Mutation_p.G5D	NM_001163315	NP_001156787	Q9UF56	FXL17_HUMAN	F-box and leucine-rich repeat protein 17	403											0		all_cancers(142;0.00273)|all_epithelial(76;0.000362)|Prostate(80;0.0115)|Myeloproliferative disorder(839;0.0393)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;9.63e-11)|Epithelial(69;4.02e-10)		AACACATACGCCATTATCAGA	0.378													18	81					0	0	0.007413	0	0		T	107700605	T	T	107700605	3	4	20	1	0	0	0	0	1	0	0	0	5727	739	26	2	925	2	FBXL17	5	107700605	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	11561144	107700605	73214655	480	17202											
WDR36	134430	broad.mit.edu	37	chr5	110439999	110439999	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaattgccggactgacatTtctccatagagagccacttc	11	10	8	12	1	1	2	0	1	1	1	3	4	1	3	3	1	3	1	3	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:110439999T>G	uc003kpd.2	+	8	1139	c.1022T>G	c.(1021-1023)TTT>TGT	p.F341C	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	341	WD 4.				response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		GGACTGACATTTCTCCATAGA	0.418													20	208					0	0	0.00278	0	0		G	110439999	G	G	110439999	3	3	20	1	0	0	0	0	1	0	0	0	17316	1841	64	5	1052	5	WDR36	5	110439999	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2739394	110439999	70475261	481	17203											
APC	324	broad.mit.edu	37	chr5	112164562	112164562	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatttgcaggttattgcgAgtgttttgaggaatttgtct	8	19	11	3	1	1	1	0	1	1	0	1	3	1	2	0	2	2	3	0	2	3	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:112164562A>G	uc010jby.2	+	14	2016	c.1636A>G	c.(1636-1638)AGT>GGT	p.S546G	APC_uc011cvt.1_Missense_Mutation_p.S528G|APC_uc003kpz.3_Missense_Mutation_p.S546G|APC_uc003kpy.3_Missense_Mutation_p.S546G|APC_uc010jbz.2_Missense_Mutation_p.S263G|APC_uc010jca.2_Intron	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	546	ARM 2.|Leu-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		GGTTATTGCGAGTGTTTTGAG	0.313		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			5	67					0	0	0.001984	0	0		G	112164562	G	G	112164562	3	3	20	1	0	0	0	0	1	0	0	0	763	304	11	3	1686	3	APC	5	112164562	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1724563	112164562	68750698	482	17204											
MCC	4163	broad.mit.edu	37	chr5	112379243	112379243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccgacgaatggcgttggTgaactccgcagccagctcat	9	9	11	12	4	1	1	1	1	0	0	2	3	2	1	3	2	4	3	3	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:112379243T>C	uc003kqj.3	-	15	2700	c.2170A>G	c.(2170-2172)ACC>GCC	p.T724A	MCC_uc003kqk.3_RNA|MCC_uc003kql.3_Missense_Mutation_p.T914A	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2	724					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		ATGGCGTTGGTGAACTCCGCA	0.557											OREG0016728	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	25					0	0	0.003163	0	0		C	112379243	C	C	112379243	3	2	20	1	0	0	0	0	1	0	0	0	9391	1696	59	3	331	3	MCC	5	112379243	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	214681	112379243	68536017	483	17205											
TSSK1B	83942	broad.mit.edu	37	chr5	112769928	112769928	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgatgtagaggatcacGcctaggctccagatgtcgta	11	9	11	10	2	1	3	1	1	0	2	3	4	2	4	3	2	0	3	3	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:112769928G>A	uc003kqm.2	-	1	801	c.609C>T	c.(607-609)GGC>GGT	p.G203G	MCC_uc003kql.3_Intron	NM_032028	NP_114417	Q9BXA7	TSSK1_HUMAN	testis-specific serine kinase 1	203	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|skin(2)|stomach(1)	5		all_cancers(142;0.0138)|all_epithelial(76;0.000445)|Colorectal(10;0.00814)|Prostate(80;0.0115)|Ovarian(225;0.156)		Epithelial(69;4.15e-08)|OV - Ovarian serous cystadenocarcinoma(64;4.49e-08)|all cancers(49;3.2e-06)|COAD - Colon adenocarcinoma(37;0.0371)|Colorectal(14;0.0449)		AGAGGATCACGCCTAGGCTCC	0.572													15	46					0	0	0.004007	0	0		A	112769928	A	A	112769928	2	1	20	1	0	0	0	0	0	0	0	1	16694	1074	38	1		1	TSSK1B	5	112769928	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	390685	112769928	68145332	484	17206											
DMXL1	1657	broad.mit.edu	37	chr5	118433795	118433795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agactgttcaatgcaacaagGcaaggtttgtaatcttcttc	12	13	8	8	0	3	1	1	0	2	1	4	1	3	1	0	2	2	5	0	2	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:118433795G>A	uc003ksd.2	+	2	390	c.209G>A	c.(208-210)GGC>GAC	p.G70D	DMXL1_uc010jcl.1_Missense_Mutation_p.G70D|DMXL1_uc003ksc.1_Missense_Mutation_p.G70D	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	70										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		ATGCAACAAGGCAAGGTTTGT	0.338													39	104					0	0	0.009718	0	0		A	118433795	A	A	118433795	3	1	20	1	0	0	0	0	1	0	0	0	4600	1203	42	2	215	2	DMXL1	5	118433795	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5663867	118433795	62481465	485	17207											
PHAX	51808	broad.mit.edu	37	chr5	125939417	125939417	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctttggaaacgcaaacgAcagaaatgttttaaccctcc	13	11	7	10	2	1	1	0	0	1	1	2	3	2	2	2	1	3	2	2	1	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:125939417A>G	uc003kua.1	+	2	274	c.252A>G	c.(250-252)CGA>CGG	p.R84R		NM_032177	NP_115553	Q9H814	PHAX_HUMAN	RNA U, small nuclear RNA export adaptor	84	Necessary for interaction with CBP80 (By similarity).|Nuclear localization signal (By similarity).				ncRNA metabolic process|protein transport|snRNA export from nucleus|spliceosomal snRNP assembly	Cajal body|cytosol	RNA binding				0						AACGCAAACGACAGAAATGTT	0.418													5	235					0	0	0.000602	0	0		G	125939417	G	G	125939417	2	3	20	1	0	0	0	0	0	0	0	1	11832	262	10	3		3	PHAX	5	125939417	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	7505622	125939417	54975843	486	17208											
ADAMTS19	171019	broad.mit.edu	37	chr5	129072766	129072766	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctgtttcacagctgctcTgactttcaagtgcctgggag	6	14	11	10	0	4	1	2	1	2	0	4	2	4	2	1	1	3	4	1	1	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:129072766T>G	uc003kvb.1	+	23	3479	c.3479T>G	c.(3478-3480)CTG>CGG	p.L1160R	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1160	PLAC.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		ACAGCTGCTCTGACTTTCAAG	0.458													8	92					0	0	0.006214	0	0		G	129072766	G	G	129072766	3	3	20	1	0	0	0	0	1	0	0	0	264	1580	55	5	3569	5	ADAMTS19	5	129072766	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3133349	129072766	51842494	487	17209											
RAPGEF6	51735	broad.mit.edu	37	chr5	131080362	131080362	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagtcgaatctggcttggAtcaaactctggtaaaggcca	12	10	10	9	1	4	0	2	0	2	0	5	2	4	1	1	4	1	2	1	4	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:131080362A>G	uc003kvp.1	-	2	256	c.114T>C	c.(112-114)GAT>GAC	p.D38D	FNIP1_uc003kvs.1_Silent_p.D38D|FNIP1_uc003kvt.1_Silent_p.D38D|FNIP1_uc010jdm.1_Silent_p.D38D|FNIP1_uc003kvu.2_Silent_p.D38D	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	Error:Variant_position_missing_in_Q8TEU7_after_alignment					Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		TCTGGCTTGGATCAAACTCTG	0.328													9	62					0	0	0.004482	0	0		G	131080362	G	G	131080362	2	3	20	1	0	0	0	0	0	0	0	1	13073	330	12	3		3	RAPGEF6	5	131080362	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2007596	131080362	49834898	488	17210											
TCF7	6932	broad.mit.edu	37	chr5	133478495	133478495	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgccttcatgctgtacaTgaaggagatgagagccaagg	13	8	12	8	0	1	3	1	2	0	2	1	5	1	3	2	2	4	2	2	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:133478495T>C	uc003kyt.2	+	7	1035	c.839T>C	c.(838-840)ATG>ACG	p.M280T	TCF7_uc003kyu.1_Missense_Mutation_p.M165T|TCF7_uc003kyv.2_Missense_Mutation_p.M165T|TCF7_uc003kyw.2_Missense_Mutation_p.M165T|TCF7_uc003kyx.2_Missense_Mutation_p.M78T|TCF7_uc003kyy.2_Missense_Mutation_p.M165T|TCF7_uc003kyz.2_Missense_Mutation_p.M165T|TCF7_uc003kza.2_Missense_Mutation_p.M165T|TCF7_uc003kzb.2_Missense_Mutation_p.M94T|TCF7_uc010jdu.2_5'Flank	NM_003202	NP_003193	P36402	TCF7_HUMAN	transcription factor 7 (T-cell specific,	280	HMG box.				cellular response to interleukin-4|immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription regulatory region DNA binding				0		Breast(839;0.058)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ATGCTGTACATGAAGGAGATG	0.557													52	95					0	0	0.01441	0	0		C	133478495	C	C	133478495	3	2	20	1	0	0	0	0	1	0	0	0	15721	1464	51	3	865	3	TCF7	5	133478495	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2398133	133478495	47436765	489	17211											
CATSPER3	347732	broad.mit.edu	37	chr5	134305635	134305635	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caactttttgacaggaggaaCgatgatgaatgtcgggcatt	12	11	12	6	2	0	3	0	3	0	0	1	6	0	5	0	3	2	1	0	3	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:134305635C>T	uc003lag.2	+	2	173	c.105C>T	c.(103-105)AAC>AAT	p.N35N		NM_178019	NP_821138	Q86XQ3	CTSR3_HUMAN	cation channel, sperm associated 3	35	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ACAGGAGGAACGATGATGAAT	0.393													69	172					0	0	0.01441	0	0		T	134305635	T	T	134305635	2	4	20	1	0	0	0	0	0	0	0	1	2692	535	19	1		1	CATSPER3	5	134305635	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	827140	134305635	46609625	490	17212											
CATSPER3	347732	broad.mit.edu	37	chr5	134332192	134332192	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcttatcggctatagccAgggcatccgggtgagtgcac	9	8	13	11	2	0	1	0	1	0	0	2	1	1	1	2	3	3	4	2	3	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:134332192A>G	uc003lag.2	+	3	550	c.482A>G	c.(481-483)CAG>CGG	p.Q161R		NM_178019	NP_821138	Q86XQ3	CTSR3_HUMAN	cation channel, sperm associated 3	161	Helical; Name=Segment S4; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GGCTATAGCCAGGGCATCCGG	0.567													19	57					0	0	0.012319	0	0		G	134332192	G	G	134332192	3	3	20	1	0	0	0	0	1	0	0	0	2692	188	7	3	492	3	CATSPER3	5	134332192	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	26557	134332192	46583068	491	17213											
PKD2L2	27039	broad.mit.edu	37	chr5	137243584	137243584	+	Frame_Shift_Del	DEL	T	-	-																															atataattgctattaccatcTtttttgcatggataaaggta																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:137243584delT	uc003lby.2	+	7	1185	c.1129delT	c.(1129-1131)TTTfs	p.F377fs	PKD2L2_uc003lbw.1_Frame_Shift_Del_p.F377fs|PKD2L2_uc003lbx.2_Frame_Shift_Del_p.F377fs|PKD2L2_uc011cyi.1_5'UTR	NM_014386	NP_055201	Q9NZM6	PK2L2_HUMAN	polycystic kidney disease 2-like 2	377	Helical; (Potential).					integral to membrane	calcium ion binding|ion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TATTACCATCTTTTTTGCATG	0.269													3	6	---	---	---	---						.	-	137243584	-	-	137243584	7	5	20	1	0	1	0	1	0	0	0	0	11987	1609	56	0	1155	0	PKD2L2	5	137243584	Frame_Shift_Del	DEL	T	TCGA-BR-4362-01A-01D-1158-08	2911392	137243584	43671676	492	17214											
KIF20A	10112	broad.mit.edu	37	chr5	137519724	137519724	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgaacggttgaaggaagcaGgaaacattaacacctctcta	15	8	10	8	1	1	2	0	2	1	0	2	4	1	4	1	3	4	2	1	3	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:137519724G>T	uc003lcj.2	+	11	1778	c.1282G>T	c.(1282-1284)GGA>TGA	p.G428*	KIF20A_uc011cyo.1_Nonsense_Mutation_p.G410*	NM_005733	NP_005724	O95235	KI20A_HUMAN	kinesin family member 20A	428	Kinesin-motor.				cytokinesis|M phase of mitotic cell cycle|microtubule-based movement|protein transport|vesicle-mediated transport	Golgi apparatus|microtubule|nucleoplasm	ATP binding|microtubule motor activity|protein binding|transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GAAGGAAGCAGGAAACATTAA	0.502													11	81					6.40141e-05	6.5505e-05	0.010729	1	0		T	137519724	T	T	137519724	4	4	20	1	0	0	0	0	0	1	0	0	8302	1001	35	5	1320	5	KIF20A	5	137519724	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	276140	137519724	43395536	493	17215											
CDC23	8697	broad.mit.edu	37	chr5	137525405	137525405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atagtactgggccagatagcGaaaggcagtgctttcctcca	11	9	11	10	1	0	1	0	0	0	1	2	2	2	1	3	2	3	3	3	2	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:137525405G>A	uc003lcl.2	-	15	1571	c.1540C>T	c.(1540-1542)CGC>TGC	p.R514C		NM_004661	NP_004652	Q9UJX2	CDC23_HUMAN	cell division cycle protein 23	514					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1 phase of mitotic cell cycle|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase plate congression|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of exit from mitosis	anaphase-promoting complex|cytosol|nucleoplasm	binding|ubiquitin-protein ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GCCAGATAGCGAAAGGCAGTG	0.388													18	46					0	0	0.006122	0	0		A	137525405	A	A	137525405	3	1	20	1	0	0	0	0	1	0	0	0	3064	1058	37	1	261	1	CDC23	5	137525405	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5681	137525405	43389855	494	17216											
KDM3B	51780	broad.mit.edu	37	chr5	137710881	137710881	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgtcagatgccaatgggTtgcatctgtttcaggtattt	7	16	10	8	0	3	1	2	0	1	1	4	1	4	1	2	2	2	4	2	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:137710881T>C	uc003lcy.1	+	3	660	c.460T>C	c.(460-462)TTG>CTG	p.L154L	KDM3B_uc010jew.1_5'UTR	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	154					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						TGCCAATGGGTTGCATCTGTT	0.398													3	166					0	0	0.004672	0	0		C	137710881	C	C	137710881	2	2	20	1	0	0	0	0	0	0	0	1	8143	1722	60	3		3	KDM3B	5	137710881	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	185476	137710881	43204379	495	17217											
HSPA9	3313	broad.mit.edu	37	chr5	137893599	137893599	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttatctttagcagaaacaTgtactatcccattggcatca	12	14	5	10	0	2	1	1	0	1	1	3	1	3	1	1	1	3	3	1	1	5	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:137893599T>C	uc003ldf.2	-	13	1700	c.1592A>G	c.(1591-1593)CAT>CGT	p.H531R	HSPA9_uc003lde.2_5'Flank|HSPA9_uc011cyw.1_Intron	NM_004134	NP_004125	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 precursor	531					anti-apoptosis|protein folding	cell surface|mitochondrial nucleoid	ATP binding|unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AGCAGAAACATGTACTATCCC	0.428													4	112					0	0	0.009096	0	0		C	137893599	C	C	137893599	3	2	20	1	0	0	0	0	1	0	0	0	7433	1464	51	3	467	3	HSPA9	5	137893599	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	182718	137893599	43021661	496	17218											
CTNNA1	1495	broad.mit.edu	37	chr5	138268334	138268334	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgccctctactgccaccAgctgaacatctgcagcaagg	10	7	8	16	1	2	1	0	1	2	0	3	1	2	1	3	1	6	3	3	1	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:138268334A>G	uc003ldh.2	+	17	2461	c.2366A>G	c.(2365-2367)CAG>CGG	p.Q789R	CTNNA1_uc011cyx.1_Missense_Mutation_p.Q686R|CTNNA1_uc011cyy.1_Missense_Mutation_p.Q666R|CTNNA1_uc003ldi.2_Missense_Mutation_p.Q487R|CTNNA1_uc003ldj.2_Missense_Mutation_p.Q789R|CTNNA1_uc003ldl.2_Missense_Mutation_p.Q419R	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	789				Q -> H (in Ref. 1; BAA03530).	adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TACTGCCACCAGCTGAACATC	0.572													12	28					0	0	0.013537	0	0		G	138268334	G	G	138268334	3	3	20	1	0	0	0	0	1	0	0	0	4015	188	7	3	2428	3	CTNNA1	5	138268334	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	374735	138268334	42646926	497	17219											
APBB3	10307	broad.mit.edu	37	chr5	139941778	139941778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggggattcactaggctcatgGcatccttcttcaggatcatc	8	12	10	11	0	5	0	4	0	1	0	7	2	6	2	1	5	0	2	1	5	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:139941778G>A	uc003lgd.1	-	6	892	c.533C>T	c.(532-534)GCC>GTC	p.A178V	APBB3_uc003lgb.1_5'UTR|APBB3_uc003lgc.1_5'UTR|APBB3_uc003lge.1_Missense_Mutation_p.A178V|APBB3_uc003lgf.1_RNA|APBB3_uc010jfp.1_RNA|APBB3_uc011czi.1_5'UTR|APBB3_uc010jfq.1_5'Flank|SLC35A4_uc003lgg.1_5'Flank|SLC35A4_uc003lgh.1_5'Flank	NM_133172	NP_573418	O95704	APBB3_HUMAN	amyloid beta precursor protein-binding, family	178	PID 1.					actin cytoskeleton|cytoplasm				ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGGCTCATGGCATCCTTCTT	0.557													27	51					0	0	0.00632	0	0		A	139941778	A	A	139941778	3	1	20	1	0	0	0	0	1	0	0	0	762	1203	42	2	976	2	APBB3	5	139941778	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1673444	139941778	40973482	498	17220											
TMCO6	55374	broad.mit.edu	37	chr5	140023147	140023147	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttgcttcctgttgcccAgccaggtcagcaatcctctg	5	12	9	15	0	2	0	1	0	1	0	4	0	4	0	4	1	5	4	4	1	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140023147A>G	uc003lgl.2	+	8	908	c.807_splice	c.e8-2	p.S269_splice	TMCO6_uc003lgm.2_Splice_Site_p.S275_splice|TMCO6_uc010jft.2_Splice_Site_p.S29_splice|TMCO6_uc003lgn.2_Splice_Site_p.S160_splice|TMCO6_uc003lgo.2_Splice_Site_p.S29_splice	NM_018502	NP_060972	Q96DC7	TMCO6_HUMAN	transmembrane and coiled-coil domains 6						protein import into nucleus	cytoplasm|nuclear pore	binding|protein transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGTTGCCCAGCCAGGTCAG	0.453													94	283					0	0	0.01441	0	0		G	140023147	G	G	140023147	5	3	20	1	0	0	0	0	0	0	1	0	16025	202	7	3	835	3	TMCO6	5	140023147	Splice_Site	SNP	A	TCGA-BR-4362-01A-01D-1158-08	81369	140023147	40892113	499	17221											
PCDHA4	56144	broad.mit.edu	37	chr5	140188686	140188686	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacaacgcgtgccctggaCgaaacggacgctccgcgcca	10	3	12	16	7	0	0	0	0	0	0	1	3	1	2	3	2	4	2	3	2	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140188686C>T	uc003lhi.2	+	1	2015	c.1914C>T	c.(1912-1914)GAC>GAT	p.D638D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.D638D|PCDHA4_uc011daa.1_Silent_p.D638D	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	638	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCCCTGGACGAAACGGACG	0.677													25	80					0	0	0.007291	0	0		T	140188686	T	T	140188686	2	4	20	1	0	0	0	0	0	0	0	1	11545	535	19	1		1	PCDHA4	5	140188686	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	165539	140188686	40726574	500	17222											
PCDHA5	56143	broad.mit.edu	37	chr5	140202575	140202575	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttcaagaattactactcGttggtgctggacagcgccct	9	11	9	12	2	1	1	1	0	0	1	2	2	1	2	2	2	4	2	2	2	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140202575G>A	uc003lhl.2	+	1	1215	c.1215G>A	c.(1213-1215)TCG>TCA	p.S405S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.S405S|PCDHA5_uc003lhj.1_Silent_p.S405S	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	405	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTACTACTCGTTGGTGCTGG	0.642													64	193					0	0	0.01441	0	0		A	140202575	A	A	140202575	2	1	20	1	0	0	0	0	0	0	0	1	11546	1132	40	1		1	PCDHA5	5	140202575	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	13889	140202575	40712685	501	17223											
PCDHA8	56140	broad.mit.edu	37	chr5	140221176	140221176	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtttgtgaattctcggatCgaccgcgaggagctgtgcgg	6	12	15	8	5	1	1	0	1	1	0	3	5	1	3	1	3	2	2	1	3	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140221176C>T	uc003lhs.2	+	1	270	c.270C>T	c.(268-270)ATC>ATT	p.I90I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.I90I	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	90	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTCTCGGATCGACCGCGAGG	0.612													45	228					0	0	0.01441	0	0		T	140221176	T	T	140221176	2	4	20	1	0	0	0	0	0	0	0	1	11549	874	31	1		1	PCDHA8	5	140221176	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	18601	140221176	40694084	502	17224											
PCDHA12	56137	broad.mit.edu	37	chr5	140257241	140257241	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttgctcagcgccgcccacCgtgagccggtgcgcgccggg	3	5	16	17	8	1	1	1	1	0	0	1	1	1	1	5	2	4	2	5	2	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140257241C>T	uc003lic.2	+	1	2311	c.2184C>T	c.(2182-2184)ACC>ACT	p.T728T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.T728T	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	728	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCCGCCCACCGTGAGCCGGT	0.647													12	17					0	0	0.00245	0	0		T	140257241	T	T	140257241	2	4	20	1	0	0	0	0	0	0	0	1	11541	639	23	1		1	PCDHA12	5	140257241	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	36065	140257241	40658019	503	17225											
PCDHB4	56131	broad.mit.edu	37	chr5	140503797	140503797	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcatctggtggacgtaagCggcaccgggaccctgtccca	7	6	15	13	3	1	0	0	0	1	0	2	2	2	2	3	5	1	3	3	5	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140503797C>T	uc003lip.1	+	1	2217	c.2217C>T	c.(2215-2217)AGC>AGT	p.S739S		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	739	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGACGTAAGCGGCACCGGGA	0.622													56	146					0	0	0.01441	0	0		T	140503797	T	T	140503797	2	4	20	1	0	0	0	0	0	0	0	1	11563	767	27	1		1	PCDHB4	5	140503797	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	246556	140503797	40411463	504	17226											
PCDHB8	56128	broad.mit.edu	37	chr5	140559636	140559636	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcccagccctacctgccgcTtccggaggctgccccagccc	4	6	9	22	2	0	0	0	0	0	0	2	1	2	1	8	2	5	2	8	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140559636T>C	uc011dai.1	+	1	2207	c.2021T>C	c.(2020-2022)CTT>CCT	p.L674P	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	674	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TACCTGCCGCTTCCGGAGGCT	0.672													24	45					0	0	0.003271	0	0		C	140559636	C	C	140559636	3	2	20	1	0	0	0	0	1	0	0	0	11567	1609	56	3	2023	3	PCDHB8	5	140559636	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	55839	140559636	40355624	505	17227											
PCDHB16	57717	broad.mit.edu	37	chr5	140562237	140562237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgagttggggtcctattccGtagtggaagaaacggagaga	11	8	15	7	3	0	2	0	0	0	2	2	6	2	4	3	4	1	2	3	4	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140562237G>A	uc003liv.2	+	1	1258	c.103G>A	c.(103-105)GTA>ATA	p.V35I	PCDHB16_uc010jfw.1_Intron	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	35	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTCCTATTCCGTAGTGGAAGA	0.522													50	129					0	0	0.01441	0	0		A	140562237	A	A	140562237	3	1	20	1	0	0	0	0	1	0	0	0	11560	1145	40	1	105	1	PCDHB16	5	140562237	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2601	140562237	40353023	506	17228											
PCDHB11	56125	broad.mit.edu	37	chr5	140580848	140580848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacctgcacctgcccctcGcctccctggtctccatcaac	6	8	7	20	1	2	0	1	0	1	0	5	1	3	1	7	2	3	1	7	2	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140580848G>A	uc003liy.2	+	1	1501	c.1501G>A	c.(1501-1503)GCC>ACC	p.A501T	PCDHB11_uc011daj.1_Missense_Mutation_p.A136T	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	501	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTGCCCCTCGCCTCCCTGGT	0.647													37	125					0	0	0.01441	0	0		A	140580848	A	A	140580848	3	1	20	1	0	0	0	0	1	0	0	0	11555	1087	38	1	1503	1	PCDHB11	5	140580848	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	18611	140580848	40334412	507	17229											
PCDHB15	56121	broad.mit.edu	37	chr5	140626735	140626735	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaggctttcgagttccGcgtgggcgccacagaccgcg	5	7	14	15	6	0	1	0	0	0	1	2	2	1	1	4	2	1	3	4	2	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140626735G>A	uc003lje.2	+	1	1589	c.1589G>A	c.(1588-1590)CGC>CAC	p.R530H		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	530	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCGAGTTCCGCGTGGGCGCC	0.662													26	90					0	0	0.009535	0	0		A	140626735	A	A	140626735	3	1	20	1	0	0	0	0	1	0	0	0	11559	1087	38	1	1591	1	PCDHB15	5	140626735	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	45887	140626735	40288525	508	17230											
SLC25A2	83884	broad.mit.edu	37	chr5	140683099	140683099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagaggcgaaggaccccgCggctgcagtctggagatcac	9	5	15	12	3	2	2	1	0	1	2	2	5	2	3	2	4	2	3	2	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140683099C>T	uc003ljf.2	-	1	514	c.334G>A	c.(334-336)GCG>ACG	p.A112T		NM_031947	NP_114153	Q9BXI2	ORNT2_HUMAN	solute carrier family 25 member 2	112	Helical; Name=3; (Potential).|Solcar 2.				mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity			ovary(1)	1		all_lung(500;0.000249)|Lung NSC(810;0.0011)|Ovarian(839;0.00556)|Breast(839;0.0173)|all_hematologic(541;0.152)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.00204)	L-Ornithine(DB00129)	AAGGACCCCGCGGCTGCAGTC	0.557													39	99					0	0	0.009718	0	0		T	140683099	T	T	140683099	3	4	20	1	0	0	0	0	1	0	0	0	14507	768	27	1	575	1	SLC25A2	5	140683099	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	56364	140683099	40232161	509	17231											
PCDHGA6	56109	broad.mit.edu	37	chr5	140756049	140756049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactcaggatttacttgaaaCgaaaggagaacccaggcaac	17	6	9	9	1	1	2	1	1	0	1	1	5	1	3	1	3	5	1	1	3	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140756049C>T	uc003ljy.1	+	1	2399	c.2399C>T	c.(2398-2400)ACG>ATG	p.T800M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.T800M	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	800	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTACTTGAAACGAAAGGAGAA	0.483													18	45					0	0	0.007413	0	0		T	140756049	T	T	140756049	3	4	20	1	0	0	0	0	1	0	0	0	11577	536	19	1	2401	1	PCDHGA6	5	140756049	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	72950	140756049	40159211	510	17232											
PCDHGB5	56101	broad.mit.edu	37	chr5	140779417	140779417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgcgctcttcgatatggtgCcgcgcgctgcagagcccggc	4	8	14	15	6	1	1	0	0	1	1	2	2	1	1	2	2	4	3	2	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140779417C>T	uc003lkf.1	+	1	1723	c.1723C>T	c.(1723-1725)CCG>TCG	p.P575S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.P575S	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	575	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGATATGGTGCCGCGCGCTGC	0.672													9	33					0	0	0.008291	0	0		T	140779417	T	T	140779417	3	4	20	1	0	0	0	0	1	0	0	0	11585	739	26	2	1725	2	PCDHGB5	5	140779417	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	23368	140779417	40135843	511	17233											
PCDHGA12	26025	broad.mit.edu	37	chr5	140811041	140811041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctggatgcgaacgacaacGcaccagcgtttgctcagccc	9	8	10	14	4	2	0	1	0	1	0	2	3	2	1	2	1	6	3	2	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:140811041G>A	uc003lkt.1	+	1	884	c.715G>A	c.(715-717)GCA>ACA	p.A239T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.A239T	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	239	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAACGACAACGCACCAGCGTT	0.662													26	73					0	0	0.003954	0	0		A	140811041	A	A	140811041	3	1	20	1	0	0	0	0	1	0	0	0	11572	1087	38	1	717	1	PCDHGA12	5	140811041	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	31624	140811041	40104219	512	17234											
PCDH1	5097	broad.mit.edu	37	chr5	141243692	141243692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctgccacctggctgaccGtctcaccaagacgtgtctgg	6	8	12	15	3	2	2	1	1	2	1	3	2	2	2	4	3	1	2	4	3	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:141243692G>A	uc003llq.2	-	3	2321	c.2204C>T	c.(2203-2205)ACG>ATG	p.T735M	PCDH1_uc003llp.2_Missense_Mutation_p.T735M|PCDH1_uc011dbf.1_Missense_Mutation_p.T713M	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	735	Extracellular (Potential).|Cadherin 7.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		CTGGCTGACCGTCTCACCAAG	0.542													6	30					0	0	0.001168	0	0		A	141243692	A	A	141243692	3	1	20	1	0	0	0	0	1	0	0	0	11525	1145	40	1	1605	1	PCDH1	5	141243692	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	432651	141243692	39671568	513	17235											
RBM27	54439	broad.mit.edu	37	chr5	145650551	145650551	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attagatactgaactggaccTccacaagaggctgtcctcag	12	9	9	11	0	1	3	1	1	0	2	3	4	3	4	3	2	2	1	3	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:145650551T>G	uc003lnz.3	+	18	2892	c.2726T>G	c.(2725-2727)CTC>CGC	p.L909R		NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	909					mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAACTGGACCTCCACAAGAGG	0.408													14	36					0	0	0.003163	0	0		G	145650551	G	G	145650551	3	3	20	1	0	0	0	0	1	0	0	0	13152	1551	54	5	2796	5	RBM27	5	145650551	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	4406859	145650551	35264709	514	17236											
SH3TC2	79628	broad.mit.edu	37	chr5	148386495	148386495	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgataatacaccttggcataGtacagggcctccttgggact	10	10	10	11	1	0	0	0	0	0	0	1	2	1	1	3	3	2	2	3	3	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:148386495G>C	uc003lpu.2	-	16	3776	c.3624C>G	c.(3622-3624)TAC>TAG	p.Y1208*	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_Nonsense_Mutation_p.Y852*|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_Nonsense_Mutation_p.Y755*|SH3TC2_uc010jgx.2_Nonsense_Mutation_p.Y1201*	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	1208							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTTGGCATAGTACAGGGCCT	0.547													8	146					0	0	0.008291	0	0		C	148386495	C	C	148386495	4	2	20	1	0	0	0	0	0	1	0	0	14287	1024	36	5	250	5	SH3TC2	5	148386495	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2735944	148386495	32528765	515	17237											
ARSI	340075	broad.mit.edu	37	chr5	149677000	149677000	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaccgggatggctgtgcggTtatattcggccaggcgagcc	6	9	16	10	4	0	0	0	0	0	0	1	2	0	1	3	5	3	3	3	5	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:149677000T>C	uc003lrv.2	-	2	2076	c.1487A>G	c.(1486-1488)AAC>AGC	p.N496S		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	496						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGCTGTGCGGTTATATTCGGC	0.622													8	126					0	0	0.008291	0	0		C	149677000	C	C	149677000	3	2	20	1	0	0	0	0	1	0	0	0	995	1725	60	3	226	3	ARSI	5	149677000	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1290505	149677000	31238260	516	17238											
TCOF1	6949	broad.mit.edu	37	chr5	149776323	149776323	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggacgagccagaagaggaGcttcagaaggggatggggac	14	3	18	6	1	1	3	1	0	0	3	1	8	1	7	1	6	2	1	1	6	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:149776323G>A	uc003lry.2	+	24	4368	c.4260G>A	c.(4258-4260)GAG>GAA	p.E1420E	TCOF1_uc011dch.1_Silent_p.E1383E|TCOF1_uc003lrz.2_Silent_p.E1382E|TCOF1_uc003lrx.2_Silent_p.E1344E|TCOF1_uc003lsa.2_Silent_p.E1343E	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	1420					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CAGAAGAGGAGCTTCAGAAGG	0.527													8	18					0	0	0.00308	0	0		A	149776323	A	A	149776323	2	1	20	1	0	0	0	0	0	0	0	1	15733	962	34	2		2	TCOF1	5	149776323	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	99323	149776323	31138937	517	17239											
NDST1	3340	broad.mit.edu	37	chr5	149901204	149901204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgctcactgacaagggcCgtggccgcttcgccctcatc	6	7	10	18	4	2	1	2	1	0	0	4	1	2	1	4	2	0	2	4	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:149901204C>T	uc003lsk.3	+	2	890	c.388C>T	c.(388-390)CGT>TGT	p.R130C	NDST1_uc011dcj.1_Missense_Mutation_p.R130C|NDST1_uc003lsl.2_Missense_Mutation_p.R130C	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	130	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGACAAGGGCCGTGGCCGCTT	0.607													43	136					0	0	0.010771	0	0		T	149901204	T	T	149901204	3	4	20	1	0	0	0	0	1	0	0	0	10274	652	23	1	390	1	NDST1	5	149901204	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	124881	149901204	31014056	518	17240											
NDST1	3340	broad.mit.edu	37	chr5	149921174	149921174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acaaagacatctggtccaagGagaagacgtgtgaccgcttc	13	7	11	10	2	1	4	0	1	1	3	3	5	2	4	2	2	0	1	2	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:149921174G>A	uc003lsk.3	+	9	2294	c.1792G>A	c.(1792-1794)GAG>AAG	p.E598K	NDST1_uc011dcj.1_Missense_Mutation_p.E598K	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	598	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTGGTCCAAGGAGAAGACGTG	0.577													11	50					0	0	0.003163	0	0		A	149921174	A	A	149921174	3	1	20	1	0	0	0	0	1	0	0	0	10274	1175	41	4	1822	4	NDST1	5	149921174	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	19970	149921174	30994086	519	17241											
FAT2	2196	broad.mit.edu	37	chr5	150946762	150946762	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attatcgatttccctactggCcagtcttggcggatagaccc	8	12	9	12	2	1	1	0	0	1	1	3	3	2	2	3	3	1	0	3	3	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:150946762C>T	uc003lue.3	-	1	1744	c.1731G>A	c.(1729-1731)TGG>TGA	p.W577*	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Nonsense_Mutation_p.W577*	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	577	Extracellular (Potential).|Cadherin 5.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCCCTACTGGCCAGTCTTGGC	0.428													39	72					0	0	0.00874	0	0		T	150946762	T	T	150946762	4	4	20	1	0	0	0	0	0	1	0	0	5704	740	26	2	11410	2	FAT2	5	150946762	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1025588	150946762	29968498	520	17242											
FAT2	2196	broad.mit.edu	37	chr5	150948282	150948282	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccccagagatgatccggtAcctcactgcccactgtggct	8	9	9	15	1	1	2	1	1	0	1	3	3	3	2	5	2	2	2	5	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:150948282A>G	uc003lue.3	-	1	224	c.211T>C	c.(211-213)TAC>CAC	p.Y71H	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.Y71H	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	71	Extracellular (Potential).|Cadherin 1.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATGATCCGGTACCTCACTGCC	0.478													26	261					0	0	0.00632	0	0		G	150948282	G	G	150948282	3	3	20	1	0	0	0	0	1	0	0	0	5704	391	14	3	12930	3	FAT2	5	150948282	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1520	150948282	29966978	521	17243											
G3BP1	10146	broad.mit.edu	37	chr5	151179453	151179453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttaaaatttttcagcccCgtccagagtctaagcctgaa	13	11	6	11	1	2	2	1	1	1	1	3	2	3	2	4	0	3	0	4	0	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:151179453C>T	uc003lun.2	+	9	1018	c.847C>T	c.(847-849)CGT>TGT	p.R283C	G3BP1_uc003lum.2_Missense_Mutation_p.R283C|G3BP1_uc011dcu.1_Missense_Mutation_p.R101C|G3BP1_uc010jhz.2_Missense_Mutation_p.R101C|G3BP1_uc003luq.2_Intron	NM_005754	NP_005745	Q13283	G3BP1_HUMAN	Ras-GTPase-activating protein SH3-domain-binding	283					Ras protein signal transduction|transport	cytosol|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|endonuclease activity|protein binding|RNA binding			skin(3)|ovary(1)	4		all_hematologic(541;0.0338)|Medulloblastoma(196;0.091)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)			TTTTCAGCCCCGTCCAGAGTC	0.388													5	36					0	0	0.001984	0	0		T	151179453	T	T	151179453	3	4	20	1	0	0	0	0	1	0	0	0	6155	652	23	1	877	1	G3BP1	5	151179453	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	231171	151179453	29735807	522	17244											
GRIA1	2890	broad.mit.edu	37	chr5	153029894	153029894	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatctgaactttaggcttAtccgtcctgcagaaagtcct	9	13	7	12	1	2	2	1	1	1	1	5	2	5	2	3	1	2	2	3	1	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:153029894A>G	uc003lva.3	+	4	830	c.465A>G	c.(463-465)TTA>TTG	p.L155L	GRIA1_uc003luy.3_Silent_p.L155L|GRIA1_uc003luz.3_Silent_p.L60L|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Silent_p.L75L|GRIA1_uc011dcx.1_Silent_p.L86L|GRIA1_uc011dcy.1_Silent_p.L165L|GRIA1_uc011dcz.1_Silent_p.L165L|GRIA1_uc010jia.1_Silent_p.L135L	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	155	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CTTTAGGCTTATCCGTCCTGC	0.522													3	50					0	0	0.009096	0	0		G	153029894	G	G	153029894	2	3	20	1	0	0	0	0	0	0	0	1	6783	446	16	3		3	GRIA1	5	153029894	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1850441	153029894	27885366	523	17245											
GEMIN5	25929	broad.mit.edu	37	chr5	154284999	154284999	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttttgacttttcaaagccTgaggaaactggagtgcagat	12	12	10	7	0	1	3	1	2	0	1	1	5	1	5	1	2	3	1	1	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:154284999T>C	uc003lvx.3	-	17	2516	c.2433A>G	c.(2431-2433)TCA>TCG	p.S811S	GEMIN5_uc011ddk.1_Silent_p.S810S	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	811					ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding	p.S811L(1)		skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TTTCAAAGCCTGAGGAAACTG	0.343													41	107					0	0	0.013114	0	0		C	154284999	C	C	154284999	2	2	20	1	0	0	0	0	0	0	0	1	6346	1567	55	3		3	GEMIN5	5	154284999	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1255105	154284999	26630261	524	17246											
KIF4B	285643	broad.mit.edu	37	chr5	154395130	154395130	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagaattagaagtcatcaatCtgcaaaaggaaaaggaagaa	21	7	9	4	0	3	3	2	0	1	3	3	5	3	5	0	2	1	1	0	2	11	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:154395130C>T	uc010jih.1	+	1	1871	c.1711C>T	c.(1711-1713)CTG>TTG	p.L571L		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	571	Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			AGTCATCAATCTGCAAAAGGA	0.423													16	45					0	0	0.007413	0	0		T	154395130	T	T	154395130	2	4	20	1	0	0	0	0	0	0	0	1	8320	912	32	4		4	KIF4B	5	154395130	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	110131	154395130	26520130	525	17247											
FAM71B	153745	broad.mit.edu	37	chr5	156592737	156592737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaactgcagataaaaagtaCggccagtggcgagtttcagg	14	7	12	8	2	1	1	1	0	0	1	1	2	1	1	1	3	3	3	1	3	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:156592737C>T	uc003lwn.2	-	1	543	c.443G>A	c.(442-444)CGT>CAT	p.R148H		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	148						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ATAAAAAGTACGGCCAGTGGC	0.478													23	67					0	0	0.00632	0	0		T	156592737	T	T	156592737	3	4	20	1	0	0	0	0	1	0	0	0	5622	536	19	1	1382	1	FAM71B	5	156592737	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2197607	156592737	24322523	526	17248											
ADAM19	8728	broad.mit.edu	37	chr5	156964960	156964960	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttgagggttaccacttgaAgtataatgggtttctgtgta	9	16	12	4	0	1	2	0	2	1	0	1	2	1	2	1	2	1	5	1	2	5	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:156964960A>C	uc003lwz.2	-	4	355	c.291T>G	c.(289-291)ACT>ACG	p.T97T	ADAM19_uc003lww.1_5'UTR|ADAM19_uc011ddr.1_Silent_p.T28T	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	97					proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TACCACTTGAAGTATAATGGG	0.443													31	76					0	0	0.012213	0	0		C	156964960	C	C	156964960	2	2	20	1	0	0	0	0	0	0	0	1	240	59	3	5		5	ADAM19	5	156964960	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	372223	156964960	23950300	527	17249											
THG1L	54974	broad.mit.edu	37	chr5	157164949	157164949	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctgaattcaacatcaacTataataatgagctgccgatg	14	13	6	8	1	3	2	2	2	1	0	3	3	3	2	1	0	4	1	1	0	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:157164949T>C	uc003lxd.2	+	5	808	c.682T>C	c.(682-684)TAT>CAT	p.Y228H	THG1L_uc011ddu.1_Missense_Mutation_p.Y96H	NM_017872	NP_060342	Q9NWX6	THG1_HUMAN	interphase cytoplasmic foci protein 45	228					protein homotetramerization|tRNA modification	mitochondrion	GTP binding|metal ion binding|tRNA guanylyltransferase activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CAACATCAACTATAATAATGA	0.343													3	95					0	0	0.009096	0	0		C	157164949	C	C	157164949	3	2	20	1	0	0	0	0	1	0	0	0	15886	1522	53	3	700	3	THG1L	5	157164949	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	199989	157164949	23750311	528	17250											
C1QTNF2	114898	broad.mit.edu	37	chr5	159781796	159781796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctctccgctgtccccccGgtcgccgtcgtgtccatctt	1	13	8	19	5	2	0	0	0	2	0	8	0	5	0	7	1	0	1	7	1	0	2	rs115558158	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:159781796G>A	uc003lyd.2	-	2	362	c.358C>T	c.(358-360)CGG>TGG	p.R120W		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	75	Collagen-like.					collagen				skin(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTGTCCCCCCGGTCGCCGTCG	0.632													4	30					0	0	0.000602	0	0		A	159781796	A	A	159781796	3	1	20	1	0	0	0	0	1	0	0	0	1966	1115	39	1	642	1	C1QTNF2	5	159781796	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2616847	159781796	21133464	529	17251											
C1QTNF2	114898	broad.mit.edu	37	chr5	159781937	159781937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagttgaggggagcctttccGgaagtccctgcgagcaaagg	9	7	15	10	2	0	1	0	1	0	0	2	4	2	3	3	4	3	2	3	4	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:159781937G>A	uc003lyd.2	-	2	221	c.217C>T	c.(217-219)CGG>TGG	p.R73W		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	28						collagen				skin(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAGCCTTTCCGGAAGTCCCTG	0.682													5	2					0	0	0.001168	0	0		A	159781937	A	A	159781937	3	1	20	1	0	0	0	0	1	0	0	0	1966	1115	39	1	783	1	C1QTNF2	5	159781937	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	141	159781937	21133323	530	17252											
ATP10B	23120	broad.mit.edu	37	chr5	160076199	160076199	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataacccttaaatttgttgAggtggttgttgggtttctca	8	18	10	5	0	1	1	1	1	1	0	2	1	1	1	1	3	1	4	1	3	4	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:160076199A>T	uc003lym.1	-	8	1587	c.740T>A	c.(739-741)CTC>CAC	p.L247H	ATP10B_uc003lyp.2_Missense_Mutation_p.L247H|ATP10B_uc011deg.1_Missense_Mutation_p.L291H|ATP10B_uc003lyo.2_Missense_Mutation_p.L219H	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	247	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AAATTTGTTGAGGTGGTTGTT	0.398													17	66					0	0	0.014323	0	0		T	160076199	T	T	160076199	3	4	20	1	0	0	0	0	1	0	0	0	1118	304	11	5	3721	5	ATP10B	5	160076199	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	294262	160076199	20839061	531	17253											
GABRA1	2554	broad.mit.edu	37	chr5	161292772	161292772	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatcttcgtcaccagtttcgGacccgtttcagaccatgata	9	13	7	12	3	3	2	2	1	1	1	5	3	3	3	3	1	0	2	3	1	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:161292772G>T	uc010jiw.2	+	5	701	c.233G>T	c.(232-234)GGA>GTA	p.G78V	GABRA1_uc010jix.2_Missense_Mutation_p.G78V|GABRA1_uc010jiy.2_Missense_Mutation_p.G78V|GABRA1_uc003lyx.3_Missense_Mutation_p.G78V|GABRA1_uc010jiz.2_Missense_Mutation_p.G78V|GABRA1_uc010jja.2_Missense_Mutation_p.G78V|GABRA1_uc010jjb.2_Missense_Mutation_p.G78V	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	78	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	ACCAGTTTCGGACCCGTTTCA	0.373													40	157					1.32136e-16	1.40673e-16	0.00874	1	0		T	161292772	T	T	161292772	3	4	20	1	0	0	0	0	1	0	0	0	6174	1174	41	5	243	5	GABRA1	5	161292772	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1216573	161292772	19622488	532	17254											
NUDCD2	134492	broad.mit.edu	37	chr5	162887021	162887021	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccacggggtcccgcacggTaccaccccactccgctcctc	5	5	8	23	4	0	0	0	0	0	0	4	0	3	0	8	3	1	3	8	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:162887021T>C	uc003lze.2	-	1	123	c.36A>G	c.(34-36)GTA>GTG	p.V12V	HMMR_uc003lzh.2_5'Flank|HMMR_uc003lzf.2_5'Flank|HMMR_uc003lzg.2_5'Flank|HMMR_uc011dem.1_5'Flank	NM_145266	NP_660309	Q8WVJ2	NUDC2_HUMAN	NudC domain containing 2	12						intracellular					0	Renal(175;0.000281)	Medulloblastoma(196;0.0207)|all_neural(177;0.0966)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0981)|OV - Ovarian serous cystadenocarcinoma(192;0.183)|Epithelial(171;0.247)		TCCCGCACGGTACCACCCCAC	0.687													13	221					0	0	0.001855	0	0		C	162887021	C	C	162887021	2	2	20	1	0	0	0	0	0	0	0	1	10742	1625	57	3		3	NUDCD2	5	162887021	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1594249	162887021	18028239	533	17255											
CPEB4	80315	broad.mit.edu	37	chr5	173383109	173383109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaggaaggcggtgaccGccctcggcatatttcattcc	8	9	13	11	3	1	2	1	2	0	0	3	3	2	3	3	5	0	1	3	5	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:173383109G>A	uc003mcs.3	+	10	3565	c.2159G>A	c.(2158-2160)CGC>CAC	p.R720H	CPEB4_uc010jjv.2_Missense_Mutation_p.R703H|CPEB4_uc011dfg.1_Missense_Mutation_p.R695H|CPEB4_uc003mct.3_Missense_Mutation_p.R330H|CPEB4_uc003mcu.3_Missense_Mutation_p.R313H	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	720							nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GGCGGTGACCGCCCTCGGCAT	0.502													30	52					0	0	0.007291	0	0		A	173383109	A	A	173383109	3	1	20	1	0	0	0	0	1	0	0	0	3806	1087	38	1	2197	1	CPEB4	5	173383109	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	10496088	173383109	7532151	534	17256											
SFXN1	94081	broad.mit.edu	37	chr5	174937167	174937167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtccttcaatgccgtcGtcaattacaccaacagaagt	13	9	6	13	2	2	1	2	0	0	1	4	1	3	1	4	0	3	0	4	0	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:174937167G>A	uc003mda.2	+	4	529	c.391G>A	c.(391-393)GTC>ATC	p.V131I	SFXN1_uc003mdb.1_Missense_Mutation_p.V70I	NM_022754	NP_073591	Q9H9B4	SFXN1_HUMAN	sideroflexin 1	131					iron ion homeostasis	integral to membrane	cation transmembrane transporter activity|protein binding			ovary(1)	1	all_cancers(89;0.00922)|Renal(175;0.000269)|Lung NSC(126;0.00515)|all_lung(126;0.00873)	Medulloblastoma(196;0.0399)|all_neural(177;0.0663)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CAATGCCGTCGTCAATTACAC	0.498													6	17					0	0	0.001168	0	0		A	174937167	A	A	174937167	3	1	20	1	0	0	0	0	1	0	0	0	14219	1145	40	1	401	1	SFXN1	5	174937167	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1554058	174937167	5978093	535	17257											
COL23A1	91522	broad.mit.edu	37	chr5	177682023	177682023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctcgcccttgaggcctgggGcaccctgaggcaggaagaag	8	5	16	12	1	0	3	0	2	0	1	1	4	0	4	3	5	0	3	3	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:177682023G>A	uc003mje.2	-	16	1245	c.887C>T	c.(886-888)GCC>GTC	p.A296V	COL23A1_uc010jkt.2_Missense_Mutation_p.A178V	NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	296	Extracellular (Potential).|Collagen-like 2.|Gly-rich.					collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		GAGGCCTGGGGCACCCTGAGG	0.547													62	157					0	0	0.01441	0	0		A	177682023	A	A	177682023	3	1	20	1	0	0	0	0	1	0	0	0	3685	1203	42	2	791	2	COL23A1	5	177682023	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2744856	177682023	3233237	536	17258											
COL23A1	91522	broad.mit.edu	37	chr5	177987735	177987735	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgagcagtccggatcttcgcTagtccgtccaacttctgagc	7	10	10	14	4	2	1	0	1	2	0	6	3	5	2	3	1	3	2	3	1	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:177987735T>C	uc003mje.2	-	2	667	c.309A>G	c.(307-309)CTA>CTG	p.L103L		NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	103	Extracellular (Potential).|Gly-rich.					collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		GGATCTTCGCTAGTCCGTCCA	0.502													3	16					0	0	0.000602	0	0		C	177987735	C	C	177987735	2	2	20	1	0	0	0	0	0	0	0	1	3685	1509	53	3		3	COL23A1	5	177987735	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	305712	177987735	2927525	537	17259											
FLT4	2324	broad.mit.edu	37	chr5	180048190	180048190	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaagcactgcatctccaGcgagtcgctcacgttcacca	10	7	7	17	3	3	0	2	0	1	0	5	1	3	0	3	0	3	4	3	0	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:180048190G>A	uc003mma.3	-	14	2162	c.2083C>T	c.(2083-2085)CTG>TTG	p.L695L	FLT4_uc003mlz.3_Silent_p.L695L|FLT4_uc003mmb.1_Silent_p.L228L|FLT4_uc011dgy.1_Silent_p.L695L	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	695	Ig-like C2-type 7.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	TGCATCTCCAGCGAGTCGCTC	0.647									Congenital_Hereditary_Lymphedema				16	40					0	0	0.006122	0	0		A	180048190	A	A	180048190	2	1	20	1	0	0	0	0	0	0	0	1	5958	962	34	2		2	FLT4	5	180048190	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2060455	180048190	867070	538	17260											
MGAT1	4245	broad.mit.edu	37	chr5	180218991	180218991	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcttgataaacttgaggtgCtggtcaaagaactgcccgtg	11	10	12	8	1	1	3	1	2	0	1	1	3	1	3	1	2	5	2	1	2	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:180218991C>T	uc003mmg.3	-	2	1476	c.981G>A	c.(979-981)CAG>CAA	p.Q327Q	MGAT1_uc010jlf.2_Silent_p.Q327Q|MGAT1_uc010jlg.2_Silent_p.Q327Q|MGAT1_uc003mmh.3_Silent_p.Q327Q|MGAT1_uc010jlh.2_Silent_p.Q327Q|MGAT1_uc003mmi.3_Silent_p.Q327Q	NM_002406	NP_002397	P26572	MGAT1_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	327	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(1)	1	all_cancers(89;1.11e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.0027)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00356)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACTTGAGGTGCTGGTCAAAGA	0.597													26	62					0	0	0.005443	0	0		T	180218991	T	T	180218991	2	4	20	1	0	0	0	0	0	0	0	1	9560	796	28	2		2	MGAT1	5	180218991	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	170801	180218991	696269	539	17261											
BTNL9	153579	broad.mit.edu	37	chr5	180486594	180486594	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccctgcgcgtgcccccgcGgcgcctgggcgtcttcctgg	1	7	14	19	6	1	0	0	0	1	0	2	0	2	0	5	3	2	0	5	3	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr5:180486594G>A	uc003mmt.2	+	11	1571	c.1340G>A	c.(1339-1341)CGG>CAG	p.R447Q		NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	447	Cytoplasmic (Potential).|B30.2/SPRY.					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTGCCCCCGCGGCGCCTGGGC	0.692													15	34					0	0	0.006122	0	0		A	180486594	A	A	180486594	3	1	20	1	0	0	0	0	1	0	0	0	1571	1116	39	1	1378	1	BTNL9	5	180486594	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	267603	180486594	428666	540	17262											
HUS1B	135458	broad.mit.edu	37	chr6	656665	656665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggaggacgcgcccgctgCgcttctcgccgcccgggaca	5	4	15	17	7	1	0	0	0	1	0	2	3	1	3	3	3	1	2	3	3	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:656665C>T	uc003mtg.2	-	1	300	c.280G>A	c.(280-282)GCA>ACA	p.A94T	EXOC2_uc003mtd.2_Intron|EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_148959	NP_683762	Q8NHY5	HUS1B_HUMAN	HUS1 checkpoint protein B	94											0	Ovarian(93;0.0733)	Breast(5;0.00139)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.041)|BRCA - Breast invasive adenocarcinoma(62;0.0965)		GCGCCCGCTGCGCTTCTCGCC	0.692													3	15					0	0	0.009096	0	0		T	656665	T	T	656665	3	4	20	1	0	0	0	0	1	0	0	0	7476	768	27	1	560	1	HUS1B	6	656665	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08		656665	170458402	541	17263											
HUS1B	135458	broad.mit.edu	37	chr6	656846	656846	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggctgtcagggcgcacGcggagcacgcagaccttcgc	8	4	14	15	5	1	1	1	0	0	1	2	2	1	2	1	3	1	4	1	3	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:656846G>A	uc003mtg.2	-	1	119	c.99C>T	c.(97-99)CGC>CGT	p.R33R	EXOC2_uc003mtd.2_Intron|EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_148959	NP_683762	Q8NHY5	HUS1B_HUMAN	HUS1 checkpoint protein B	33											0	Ovarian(93;0.0733)	Breast(5;0.00139)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.041)|BRCA - Breast invasive adenocarcinoma(62;0.0965)		CAGGGCGCACGCGGAGCACGC	0.662													4	24					0	0	0.000602	0	0		A	656846	A	A	656846	2	1	20	1	0	0	0	0	0	0	0	1	7476	1074	38	1		1	HUS1B	6	656846	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	181	656846	170458221	542	17264											
FOXF2	2295	broad.mit.edu	37	chr6	1390547	1390547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcccagcaagcgcctgaCgctcagcgagatctaccagt	9	6	10	16	4	2	2	1	1	1	1	3	3	2	2	3	0	4	2	3	0	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:1390547C>T	uc003mtm.2	+	1	479	c.365C>T	c.(364-366)ACG>ATG	p.T122M	FOXF2_uc003mtn.2_Missense_Mutation_p.T122M	NM_001452	NP_001443	Q12947	FOXF2_HUMAN	forkhead box F2	122	Fork-head.				epithelial to mesenchymal transition|genitalia development|palate development|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0	Ovarian(93;0.0733)	all_lung(73;0.0713)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.095)		AAGCGCCTGACGCTCAGCGAG	0.652													28	27					0	0	0.008361	0	0		T	1390547	T	T	1390547	3	4	20	1	0	0	0	0	1	0	0	0	6020	536	19	1	367	1	FOXF2	6	1390547	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	733701	1390547	169724520	543	17265											
RIPK1	8737	broad.mit.edu	37	chr6	3085497	3085497	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctttgctttgtagatgcTatctgtgagcagcagttgat	8	16	11	6	0	2	3	0	2	2	1	2	3	2	3	0	0	4	6	0	0	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:3085497T>C	uc010jni.2	+	6	925	c.693T>C	c.(691-693)GCT>GCC	p.A231A	RIPK1_uc003muv.3_Silent_p.A68A|RIPK1_uc003muw.3_Silent_p.A166A|RIPK1_uc011dhs.1_Silent_p.A185A|RIPK1_uc003mux.2_Silent_p.A231A	NM_003804	NP_003795	Q13546	RIPK1_HUMAN	receptor (TNFRSF)-interacting serine-threonine	231	Protein kinase.				activation of caspase activity|activation of JUN kinase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|induction of necroptosis by extracellular signals|innate immune response|MyD88-independent toll-like receptor signaling pathway|positive regulation of anti-apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|protein autophosphorylation|regulation of ATP:ADP antiporter activity|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|death-inducing signaling complex|endosome membrane|mitochondrion|receptor complex	ATP binding|death domain binding|death receptor binding|protein serine/threonine kinase activity			large_intestine(3)|lung(1)|skin(1)	5	Ovarian(93;0.0386)	all_hematologic(90;0.0895)				TTGTAGATGCTATCTGTGAGC	0.438													3	105					0	0	0.004672	0	0		C	3085497	C	C	3085497	2	2	20	1	0	0	0	0	0	0	0	1	13405	1509	53	3		3	RIPK1	6	3085497	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1694950	3085497	168029570	544	17266											
PRPF4B	8899	broad.mit.edu	37	chr6	4044084	4044084	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagatagcaacatgtctgTgccatctgaaccaagcagcc	13	8	9	11	0	2	3	0	2	2	1	2	3	2	3	3	0	6	2	3	0	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:4044084T>C	uc003mvv.2	+	6	1779	c.1688T>C	c.(1687-1689)GTG>GCG	p.V563A	PRPF4B_uc003mvw.2_RNA|PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	563						catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				AACATGTCTGTGCCATCTGAA	0.393													26	91					0	0	0.005443	0	0		C	4044084	C	C	4044084	3	2	20	1	0	0	0	0	1	0	0	0	12595	1696	59	3	1710	3	PRPF4B	6	4044084	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	958587	4044084	167070983	545	17267											
NUP153	9972	broad.mit.edu	37	chr6	17629625	17629625	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccagaatcggatgacacAcctattttgaatcctccctg	11	10	7	13	1	0	3	0	2	0	1	3	5	2	4	4	1	0	0	4	1	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:17629625A>G	uc003ncd.1	-	18	3005	c.2805T>C	c.(2803-2805)GGT>GGC	p.G935G	NUP153_uc011dje.1_Silent_p.G966G|NUP153_uc010jpl.1_Silent_p.G893G	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	935					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			CGGATGACACACCTATTTTGA	0.378													7	228					0	0	0.001984	0	0		G	17629625	G	G	17629625	2	3	20	1	0	0	0	0	0	0	0	1	10774	146	6	3		3	NUP153	6	17629625	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	13585541	17629625	153485442	546	17268											
GPLD1	2822	broad.mit.edu	37	chr6	24436838	24436838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggagttatccatgatttgCatttgccagtcatgtcacca	10	14	8	9	0	2	1	2	1	0	0	3	2	3	2	3	1	2	2	3	1	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:24436838C>T	uc003ned.1	-	22	2435	c.2324G>A	c.(2323-2325)TGC>TAC	p.C775Y		NM_001503	NP_001494	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific	775						extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3						CCATGATTTGCATTTGCCAGT	0.408													40	165					0	0	0.00874	0	0		T	24436838	T	T	24436838	3	4	20	1	0	0	0	0	1	0	0	0	6629	710	25	2	214	2	GPLD1	6	24436838	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6807213	24436838	146678229	547	17269											
KIAA0319	9856	broad.mit.edu	37	chr6	24569143	24569143	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaatattttccatctccActgcactggggcctctataa	9	14	6	12	0	3	0	1	0	2	0	5	0	4	0	3	2	1	1	3	2	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:24569143A>G	uc011djo.1	-	13	2243	c.2006T>C	c.(2005-2007)GTG>GCG	p.V669A	KIAA0319_uc011djp.1_Missense_Mutation_p.V624A|KIAA0319_uc003neh.1_Missense_Mutation_p.V669A|KIAA0319_uc011djq.1_Missense_Mutation_p.V660A|KIAA0319_uc011djr.1_Missense_Mutation_p.V669A|KIAA0319_uc010jpt.1_Missense_Mutation_p.V80A	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	669	PKD 4.|Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						TTCCATCTCCACTGCACTGGG	0.473													36	43					0	0	0.003271	0	0		G	24569143	G	G	24569143	3	3	20	1	0	0	0	0	1	0	0	0	8184	159	6	3	1248	3	KIAA0319	6	24569143	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	132305	24569143	146545924	548	17270											
HIST1H1A	3024	broad.mit.edu	37	chr6	26017954	26017954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggggcgggaggcactgtttCagacatggtgactaacacag	10	7	16	8	1	1	2	1	1	0	1	1	3	1	3	0	5	1	2	0	5	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:26017954C>T	uc003nfo.2	-	1	87	c.7G>A	c.(7-9)GAA>AAA	p.E3K	HIST1H3A_uc003nfp.1_5'Flank	NM_005325	NP_005316	Q02539	H11_HUMAN	histone cluster 1, H1a	3					nucleosome assembly|spermatogenesis	nucleosome|nucleus	DNA binding			ovary(2)	2						GGCACTGTTTCAGACATGGTG	0.517											OREG0017237	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	71					0	0	0.004007	0	0		T	26017954	T	T	26017954	3	4	20	1	0	0	0	0	1	0	0	0	7138	835	29	4	644	4	HIST1H1A	6	26017954	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1448811	26017954	145097113	549	17271											
HIST1H4G	8369	broad.mit.edu	37	chr6	26247036	26247036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaacaccttgaacaccCggcgggtctcctcataaatg	11	7	9	14	2	2	1	1	1	1	0	3	2	2	2	4	3	2	0	4	3	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:26247036C>T	uc003nhf.2	-	1	170	c.170G>A	c.(169-171)CGG>CAG	p.R57Q		NM_003547	NP_003538	Q99525	H4G_HUMAN	histone cluster 1, H4g	57					nucleosome assembly	nucleosome|nucleus	DNA binding				0		all_hematologic(11;0.0945)|Acute lymphoblastic leukemia(11;0.167)				CTTGAACACCCGGCGGGTCTC	0.582													11	37					0	0	0.010729	0	0		T	26247036	T	T	26247036	3	4	20	1	0	0	0	0	1	0	0	0	7187	652	23	1	130	1	HIST1H4G	6	26247036	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	229082	26247036	144868031	550	17272											
BTN3A3	10384	broad.mit.edu	37	chr6	26444334	26444334	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaggcaggtggtgaacgtgTatgcagatggaaaggaagtg	13	8	17	3	1	0	2	0	1	0	1	0	4	0	4	0	5	2	3	0	5	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:26444334T>C	uc003nhz.2	+	4	415	c.235T>C	c.(235-237)TAT>CAT	p.Y79H	BTN3A3_uc003nia.2_Missense_Mutation_p.Y37H|BTN3A3_uc011dkn.1_Missense_Mutation_p.Y37H	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	79	Extracellular (Potential).|Ig-like V-type 1.					integral to membrane					0						GGTGAACGTGTATGCAGATGG	0.567													5	174					0	0	0.001168	0	0		C	26444334	C	C	26444334	3	2	20	1	0	0	0	0	1	0	0	0	1567	1638	57	3	241	3	BTN3A3	6	26444334	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	197298	26444334	144670733	551	17273											
ZNF391	346157	broad.mit.edu	37	chr6	27368839	27368839	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgaatgtgggaaagccttCggtgaccgttcaaccataat	13	10	10	8	2	1	2	1	2	0	0	2	3	1	3	3	2	2	1	3	2	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:27368839C>T	uc003njf.1	+	3	1208	c.690C>T	c.(688-690)TTC>TTT	p.F230F		NM_001076781	NP_001070249	Q9UJN7	ZN391_HUMAN	zinc finger protein 391	230	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(2)|skin(1)	3						GGAAAGCCTTCGGTGACCGTT	0.428													17	94					0	0	0.006122	0	0		T	27368839	T	T	27368839	2	4	20	1	0	0	0	0	0	0	0	1	17904	883	31	1		1	ZNF391	6	27368839	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	924505	27368839	143746228	552	17274											
HIST1H2AM	8336	broad.mit.edu	37	chr6	27860700	27860700	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggcgcgggatgatgcgggtCtttttgttgtcgcgggctgc	2	13	18	8	5	1	1	0	1	1	0	2	2	1	2	0	4	2	2	0	4	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:27860700C>T	uc003nkb.1	-	1	264	c.228G>A	c.(226-228)AAG>AAA	p.K76K	HIST1H3J_uc003nka.2_5'Flank|HIST1H2BO_uc003nkc.1_5'Flank	NM_003514	NP_003505	P0C0S8	H2A1_HUMAN	histone cluster 1, H2am	76					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding			ovary(2)	2						TGATGCGGGTCTTTTTGTTGT	0.642													57	178					0	0	0.01441	0	0		T	27860700	T	T	27860700	2	4	20	1	0	0	0	0	0	0	0	1	7155	912	32	4		4	HIST1H2AM	6	27860700	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	491861	27860700	143254367	553	17275											
SCAND3	114821	broad.mit.edu	37	chr6	28541269	28541269	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttggcttttcaattcactActctttctttcaaagaattc	9	18	5	9	0	5	1	3	0	2	1	6	1	5	1	0	2	1	2	0	2	4	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:28541269A>G	uc003nlo.2	-	4	3015	c.2397T>C	c.(2395-2397)AGT>AGC	p.S799S		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	799					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						tcaattcactactctttcttt	0													4	127					0	0	0.009096	0	0		G	28541269	G	G	28541269	2	3	20	1	0	0	0	0	0	0	0	1	13901	388	14	3		3	SCAND3	6	28541269	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	680569	28541269	142573798	554	17276											
OR5V1	81696	broad.mit.edu	37	chr6	29323702	29323702	+	Frame_Shift_Del	DEL	T	-	-																															acaccccacataagaaatgcTttttttctttgagaggaggt																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:29323702delT	uc011dlo.1	-	1	353	c.271delA	c.(271-273)AGCfs	p.S91fs		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4						TAAGAAATGCTTTTTTTCTTT	0.418													78	137	---	---	---	---						.	-	29323702	-	-	29323702	7	5	20	1	0	1	0	1	0	0	0	0	11203	1609	56	0	697	0	OR5V1	6	29323702	Frame_Shift_Del	DEL	T	TCGA-BR-4362-01A-01D-1158-08	782433	29323702	141791365	555	17277											
HLA-A	3105	broad.mit.edu	37	chr6	29911150	29911150	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcaaggattacatcgcccTgaacgaggacctgcgctctt	9	8	11	13	4	1	1	0	1	1	0	2	4	1	3	2	3	3	2	2	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:29911150T>C	uc003nol.2	+	3	449	c.449T>C	c.(448-450)CTG>CCG	p.L150P	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_RNA|HLA-A_uc010jrq.2_Missense_Mutation_p.L29P|HLA-A_uc003nok.2_Missense_Mutation_p.L29P|HLA-A_uc003non.2_Missense_Mutation_p.L150P|HLA-A_uc003noo.2_Missense_Mutation_p.L150P|HLA-A_uc010jrr.2_Missense_Mutation_p.L150P|HLA-A_uc003nom.2_Missense_Mutation_p.L29P|HLA-A_uc010klp.2_Missense_Mutation_p.L122P|HLA-A_uc011dmc.1_Missense_Mutation_p.L29P|HLA-A_uc011dmd.1_Missense_Mutation_p.L29P	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A	150	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2						TACATCGCCCTGAACGAGGAC	0.647									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of|Osteosarcoma_Familial_Clustering_of|Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of	Multiple Myeloma(9;0.094)			8	44					0	0	0.006214	0	0		C	29911150	C	C	29911150	3	2	20	1	0	0	0	0	1	0	0	0	7211	1580	55	3	459	3	HLA-A	6	29911150	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	587448	29911150	141203917	556	17278											
TRIM40	135644	broad.mit.edu	37	chr6	30114888	30114888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcacatgccagcagaagcgGccagaatccttgacatctcc	12	6	9	14	1	1	3	0	1	1	2	3	3	2	3	4	1	4	2	4	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:30114888G>A	uc003npk.2	+	4	954	c.568G>A	c.(568-570)GCC>ACC	p.A190T	TRIM40_uc003npm.2_Missense_Mutation_p.A161T	NM_138700	NP_619645	Q6P9F5	TRI40_HUMAN	tripartite motif-containing 40	190						intracellular	zinc ion binding			ovary(1)	1						AGCAGAAGCGGCCAGAATCCT	0.592													24	63					0	0	0.014323	0	0		A	30114888	A	A	30114888	3	1	20	1	0	0	0	0	1	0	0	0	16541	1203	42	2	491	2	TRIM40	6	30114888	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	203738	30114888	141000179	557	17279											
KIAA1949	170954	broad.mit.edu	37	chr6	30653521	30653521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgctgccgctcctgcCggatgaatcggttctggtgc	3	11	14	13	3	1	1	0	1	1	0	3	2	2	2	3	3	5	5	3	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:30653521C>T	uc003nra.2	-	2	506	c.275G>A	c.(274-276)CGG>CAG	p.R92Q	KIAA1949_uc003nrb.3_Missense_Mutation_p.R92Q	NM_001134870	NP_001128342	Q6NYC8	PHTNS_HUMAN	phostensin	92						cytoplasm|cytoskeleton	actin binding				0						ccgctcctgcCGGATGAATCG	0.532													5	28					0	0	0.010729	0	0		T	30653521	T	T	30653521	3	4	20	1	0	0	0	0	1	0	0	0	8279	652	23	1	1578	1	KIAA1949	6	30653521	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	538633	30653521	140461546	558	17280											
MDC1	9656	broad.mit.edu	37	chr6	30680469	30680469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggctctctttcagatgtGccaaagtcagcgctgctgag	7	11	12	11	1	3	2	2	1	1	1	4	2	3	2	1	1	3	4	1	1	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:30680469G>A	uc003nrg.3	-	5	1690	c.1250C>T	c.(1249-1251)GCA>GTA	p.A417V	MDC1_uc003nrf.3_Missense_Mutation_p.A71V|MDC1_uc011dmp.1_Missense_Mutation_p.A289V|MDC1_uc003nrh.1_Missense_Mutation_p.A289V|MDC1_uc003nri.2_Missense_Mutation_p.A417V	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	417	Required for nuclear localization (NLS1).				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TTTCAGATGTGCCAAAGTCAG	0.532								Other_conserved_DNA_damage_response_genes					50	58					0	0	0.01441	0	0		A	30680469	A	A	30680469	3	1	20	1	0	0	0	0	1	0	0	0	9421	1319	46	2	5063	2	MDC1	6	30680469	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	26948	30680469	140434598	559	17281											
HLA-C	3107	broad.mit.edu	37	chr6	31239447	31239447	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcctgtgcctggcgcttgTacttctgtgtctcccggtcc	2	13	11	15	2	2	0	0	0	2	0	4	0	3	0	4	2	3	2	4	2	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:31239447T>C	uc003nsy.2	-	2	279	c.272A>G	c.(271-273)TAC>TGC	p.Y91C	HLA-C_uc011dnj.1_Missense_Mutation_p.Y63C|HLA-C_uc003nsx.2_5'UTR|HLA-C_uc003nsz.2_Missense_Mutation_p.Y91C|HLA-C_uc010jsl.2_Missense_Mutation_p.Y91C|HLA-C_uc003nta.2_Missense_Mutation_p.Y91C|HLA-C_uc003ntb.2_Intron|HLA-C_uc003ntc.1_Intron|HLA-B_uc010jsm.1_Intron|HLA-B_uc011dnk.1_Intron|HLA-C_uc011dnl.1_5'UTR|HLA-B_uc003ntf.2_Intron	NM_002117	NP_002108	Q9TNN7	1C05_HUMAN	major histocompatibility complex, class I, C	91	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex					0						CTGGCGCTTGTACTTCTGTGT	0.701													4	84					0	0	0.009096	0	0		C	31239447	C	C	31239447	3	2	20	1	0	0	0	0	1	0	0	0	7213	1638	57	3	856	3	HLA-C	6	31239447	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	558978	31239447	139875620	560	17282											
MICB	4277	broad.mit.edu	37	chr6	31473919	31473919	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcactgctgggtgggggcaGgcttgcattccctccaggag	5	9	16	11	0	1	0	1	0	0	0	3	1	3	1	2	5	2	4	2	5	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:31473919G>T	uc003ntn.3	+	3	442	c.326_splice	c.e3-1	p.G109_splice	MICB_uc011dnm.1_Splice_Site_p.G77_splice|MICB_uc003nto.3_Intron	NM_005931	NP_005922	Q29980	MICB_HUMAN	MHC class I polypeptide-related sequence B						antigen processing and presentation|cytolysis|gamma-delta T cell activation|immune response|immune response-activating cell surface receptor signaling pathway|interspecies interaction between organisms|negative regulation of defense response to virus by host|response to heat|response to oxidative stress|response to retinoic acid	integral to plasma membrane|MHC class I protein complex	natural killer cell lectin-like receptor binding				0						GGTGGGGGCAGGCTTGCATTC	0.597													17	18					2.94398e-08	3.06308e-08	0.007413	1	0		T	31473919	T	T	31473919	5	4	20	1	0	0	0	0	0	0	1	0	9593	1014	35	5	335	5	MICB	6	31473919	Splice_Site	SNP	G	TCGA-BR-4362-01A-01D-1158-08	234472	31473919	139641148	561	17283											
AIF1	199	broad.mit.edu	37	chr6	31584673	31584673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaagctatctctgagttgcCctgatttgaagggaaaaggg	12	10	13	6	0	1	3	0	3	1	0	2	5	1	4	1	2	2	2	1	2	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:31584673C>T	uc003nuy.2	+	6	514	c.440C>T	c.(439-441)CCC>CTC	p.P147L	AIF1_uc010jsy.2_3'UTR|AIF1_uc003nva.2_Missense_Mutation_p.P93L	NM_001623	NP_001614	P55008	AIF1_HUMAN	allograft inflammatory factor 1 isoform 3	147				KEKPTGPPAKKAISELP -> RKTNTPPSQESPI (in Ref. 2; AAA92457).	actin filament bundle assembly|cell cycle arrest|inflammatory response|negative regulation of cell proliferation	nucleus|ruffle membrane	actin filament binding|calcium ion binding			ovary(1)	1						TCTGAGTTGCCCTGATTTGAA	0.448													11	46					0	0	0.00245	0	0		T	31584673	T	T	31584673	3	4	20	1	0	0	0	0	1	0	0	0	424	623	22	4	660	4	AIF1	6	31584673	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	110754	31584673	139530394	562	17284											
BAT2	7916	broad.mit.edu	37	chr6	31602641	31602641	+	Frame_Shift_Del	DEL	C	-	-																															tcaagggggcagcagagggaCcccccaagaggcctggaggc																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:31602641delC	uc003nvb.3	+	21	5296	c.5047delC	c.(5047-5049)CCCfs	p.P1683fs	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Frame_Shift_Del_p.P1683fs	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1683	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						AGCAGAGGGACCCCCCAAGAG	0.627													84	147	---	---	---	---						.	-	31602641	-	-	31602641	7	5	20	1	0	1	0	1	0	0	0	0	1320	507	18	0	5125	0	BAT2	6	31602641	Frame_Shift_Del	DEL	C	TCGA-BR-4362-01A-01D-1158-08	17968	31602641	139512426	563	17285											
BAT3	7917	broad.mit.edu	37	chr6	31608183	31608183	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggggactgcagctgcccaAggttctgtctcagctgaagc	7	8	15	11	0	2	1	1	1	2	0	3	2	2	2	1	4	5	4	1	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:31608183A>C	uc003nvg.3	-	22	3341	c.3027T>G	c.(3025-3027)CCT>CCG	p.P1009P	BAT3_uc003nvf.3_Silent_p.P1003P|BAT3_uc003nvh.3_Silent_p.P1003P|BAT3_uc003nvi.3_Silent_p.P1003P|BAT3_uc011dnw.1_Silent_p.P1003P|BAT3_uc011dnx.1_Intron	NM_004639	NP_004630	P46379	BAG6_HUMAN	HLA-B associated transcript-3 isoform a	1009					apoptosis in response to endoplasmic reticulum stress|brain development|cell differentiation|chromatin modification|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|embryo development|internal peptidyl-lysine acetylation|kidney development|lung development|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|protein stabilization|spermatogenesis|synaptonemal complex assembly|tail-anchored membrane protein insertion into ER membrane|transport|ubiquitin-dependent protein catabolic process	BAT3 complex|nucleus	polyubiquitin binding|proteasome binding|ribosome binding				0						CAGCTGCCCAAGGTTCTGTCT	0.557													22	264					0	0	0.014323	0	0		C	31608183	C	C	31608183	2	2	20	1	0	0	0	0	0	0	0	1	1323	59	3	5		5	BAT3	6	31608183	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	5542	31608183	139506884	564	17286											
BAT5	7920	broad.mit.edu	37	chr6	31668789	31668789	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaaacggcaccactttGgacaaactcaagtaacctgg	15	7	9	10	1	1	1	1	1	0	1	1	3	1	2	2	3	3	2	2	3	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:31668789G>A	uc003nvy.1	-	4	303	c.273C>T	c.(271-273)TCC>TCT	p.S91S	BAT5_uc003nvx.1_5'UTR|BAT5_uc011dny.1_Silent_p.S58S|BAT5_uc003nvz.1_5'UTR|BAT5_uc011dnz.1_5'UTR|BAT5_uc010jtc.1_RNA|BAT5_uc011doa.1_5'UTR	NM_021160	NP_066983	O95870	ABHGA_HUMAN	HLA-B associated transcript 5	91						integral to membrane	hydrolase activity|protein binding				0						GCACCACTTTGGACAAACTCA	0.552													8	29					0	0	0.00308	0	0		A	31668789	A	A	31668789	2	1	20	1	0	0	0	0	0	0	0	1	1325	1335	47	4		4	BAT5	6	31668789	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	60606	31668789	139446278	565	17287											
RDBP	7936	broad.mit.edu	37	chr6	31922385	31922385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctcccgatccctgtccCgttcccggtctcgatctcga	3	10	8	20	6	2	0	0	0	2	0	8	3	6	0	5	1	0	2	5	1	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:31922385C>T	uc003nyk.2	-	7	893	c.689G>A	c.(688-690)CGG>CAG	p.R230Q	RDBP_uc011dot.1_Missense_Mutation_p.R200Q|RDBP_uc003nyl.1_Missense_Mutation_p.R170Q|RDBP_uc003nym.1_Missense_Mutation_p.R225Q	NM_002904	NP_002895	P18615	NELFE_HUMAN	RD RNA-binding protein	230	30 X 2 AA approximate tandem repeats of R-[DSNE].|24.				positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	mitochondrion|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						atccctgtcccgttcccggtc	0.149													11	36					0	0	0.010729	0	0		T	31922385	T	T	31922385	3	4	20	1	0	0	0	0	1	0	0	0	13213	652	23	1	473	1	RDBP	6	31922385	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	253596	31922385	139192682	566	17288											
HLA-DRA	3122	broad.mit.edu	37	chr6	32410986	32410986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagaggtaactgtgctcaCaaacagccctgtggaactga	12	8	10	11	0	1	2	1	1	0	1	2	3	2	3	2	2	5	2	2	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:32410986C>T	uc003obh.2	+	3	434	c.353C>T	c.(352-354)ACG>ATG	p.T118M	HLA-DRA_uc003obi.2_Intron	NM_019111	NP_061984	P01903	DRA_HUMAN	major histocompatibility complex, class II, DR	118	Ig-like C1-type.|Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|Golgi apparatus|integral to plasma membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity			ovary(1)|skin(1)	2						ACTGTGCTCACAAACAGCCCT	0.512									T-cell_Lymphoma_(Cutaneous)__Familial_Clustering_of|Kaposi_Sarcoma_Familial_Clustering_of				36	62					0	0	0.003755	0	0		T	32410986	T	T	32410986	3	4	20	1	0	0	0	0	1	0	0	0	7223	478	17	4	363	4	HLA-DRA	6	32410986	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	488601	32410986	138704081	567	17289											
HLA-DQA2	3118	broad.mit.edu	37	chr6	32713814	32713814	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgactgcaaggtggagcActggggcctggacgagcctc	8	8	15	10	1	0	1	0	1	0	0	1	4	0	3	2	5	3	2	2	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:32713814A>G	uc003obx.2	+	3	636	c.578A>G	c.(577-579)CAC>CGC	p.H193R		NM_020056	NP_064440	P01906	DQA2_HUMAN	major histocompatibility complex, class II, DQ	193	Alpha-2.|Extracellular (Potential).|Ig-like C1-type.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to plasma membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AAGGTGGAGCACTGGGGCCTG	0.488													7	243					0	0	0.00308	0	0		G	32713814	G	G	32713814	3	3	20	1	0	0	0	0	1	0	0	0	7221	159	6	3	588	3	HLA-DQA2	6	32713814	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	302828	32713814	138401253	568	17290											
TAP2	6891	broad.mit.edu	37	chr6	32782224	32782224	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagtctccattcctgataggGccagtggacatgaccccagc	9	8	10	14	0	1	2	0	2	1	0	3	3	2	3	5	2	1	0	5	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:32782224G>A	uc011dqf.1	-	14	2459	c.2337C>T	c.(2335-2337)GGC>GGT	p.G779G	HLA-DOB_uc003oca.2_Silent_p.G172G|HLA-DOB_uc011dqg.1_Silent_p.G172G	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	Error:Variant_position_missing_in_Q03519_after_alignment					antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						TCCTGATAGGGCCAGTGGACA	0.522													43	178					0	0	0.013114	0	0		A	32782224	A	A	32782224	2	1	20	1	0	0	0	0	0	0	0	1	15576	1190	42	2		2	TAP2	6	32782224	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	68410	32782224	138332843	569	17291											
BRD2	6046	broad.mit.edu	37	chr6	32946137	32946137	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctttaggcccttctggcTttggaccttctggaggaagt	5	14	12	10	0	2	0	0	0	2	0	2	3	2	3	2	5	1	2	2	5	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:32946137T>C	uc003ocn.3	+	10	3514	c.1813T>C	c.(1813-1815)TTT>CTT	p.F605L	BRD2_uc003oco.2_RNA|BRD2_uc003ocq.3_Missense_Mutation_p.F605L|BRD2_uc003ocp.3_Missense_Mutation_p.F485L|BRD2_uc010juh.2_Missense_Mutation_p.F605L	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	605					spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						CCCTTCTGGCTTTGGACCTTC	0.542													5	206					0	0	0.001168	0	0		C	32946137	C	C	32946137	3	2	20	1	0	0	0	0	1	0	0	0	1505	1609	56	3	1847	3	BRD2	6	32946137	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	163913	32946137	138168930	570	17292											
BRD2	6046	broad.mit.edu	37	chr6	32948188	32948188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagcgggaattagaaaagcGgttacaagatgtcagcggac	16	6	13	6	3	1	2	1	0	0	2	1	4	1	4	0	3	4	1	0	3	7	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:32948188G>A	uc003ocn.3	+	12	3917	c.2216G>A	c.(2215-2217)CGG>CAG	p.R739Q	BRD2_uc003ocq.3_Missense_Mutation_p.R739Q|BRD2_uc003ocp.3_Missense_Mutation_p.R619Q|BRD2_uc010juh.2_Missense_Mutation_p.R774Q	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	739	ET.				spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						TTAGAAAAGCGGTTACAAGAT	0.413													41	134					0	0	0.010771	0	0		A	32948188	A	A	32948188	3	1	20	1	0	0	0	0	1	0	0	0	1505	1116	39	1	2258	1	BRD2	6	32948188	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2051	32948188	138166879	571	17293											
COL11A2	1302	broad.mit.edu	37	chr6	33133489	33133489	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgccgggggctcccccggtCggtatggcctcatcttcctg	2	10	13	16	3	2	0	1	0	1	0	5	0	4	0	5	5	1	2	5	5	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:33133489C>T	uc003ocx.1	-	63	4815	c.4587G>A	c.(4585-4587)CCG>CCA	p.P1529P	COL11A2_uc010jul.1_Silent_p.P99P|COL11A2_uc003ocy.1_Silent_p.P1443P|COL11A2_uc003ocz.1_Silent_p.P1422P	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1529					cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						CTCCCCCGGTCGGTATGGCCT	0.647													30	107					0	0	0.004878	0	0		T	33133489	T	T	33133489	2	4	20	1	0	0	0	0	0	0	0	1	3671	871	31	1		1	COL11A2	6	33133489	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	185301	33133489	137981578	572	17294											
VPS52	6293	broad.mit.edu	37	chr6	33236883	33236883	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagtcgaatgttcatggcTcctgactgttcctgcagtgt	7	13	11	10	2	1	1	1	1	0	0	4	3	3	1	2	1	1	4	2	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:33236883T>C	uc003odm.1	-	6	666	c.456A>G	c.(454-456)GGA>GGG	p.G152G	VPS52_uc003odn.1_Silent_p.G27G|VPS52_uc003odo.1_Silent_p.G77G|VPS52_uc011dqy.1_Silent_p.G27G|VPS52_uc011dqz.1_Silent_p.G27G|RPS18_uc003odp.1_5'Flank|RPS18_uc010jum.1_5'Flank	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52	152					protein transport	endosome membrane|Golgi apparatus				ovary(4)|skin(1)	5						TGTTCATGGCTCCTGACTGTT	0.537													65	257					0	0	0.01441	0	0		C	33236883	C	C	33236883	2	2	20	1	0	0	0	0	0	0	0	1	17240	1538	54	3		3	VPS52	6	33236883	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	103394	33236883	137878184	573	17295											
RGL2	5863	broad.mit.edu	37	chr6	33259893	33259893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctcagaacagtgcccGtgcaatcttcctccctgtgg	6	11	8	16	1	2	1	1	0	1	1	6	1	6	1	5	1	3	1	5	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:33259893G>A	uc003odv.2	-	18	2453	c.2320C>T	c.(2320-2322)CGG>TGG	p.R774W	WDR46_uc003ods.2_5'Flank|WDR46_uc011dra.1_5'Flank|RGL2_uc003odu.2_Missense_Mutation_p.R334W|RGL2_uc010jur.2_Missense_Mutation_p.R334W|RGL2_uc003odw.2_Missense_Mutation_p.R692W	NM_004761	NP_004752	O15211	RGL2_HUMAN	ral guanine nucleotide dissociation	774					Ras protein signal transduction|regulation of small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity			skin(3)|lung(1)|breast(1)|pancreas(1)	6						AACAGTGCCCGTGCAATCTTC	0.562													5	75					0	0	0.000602	0	0		A	33259893	A	A	33259893	3	1	20	1	0	0	0	0	1	0	0	0	13302	1144	40	1	17	1	RGL2	6	33259893	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	23010	33259893	137855174	574	17296											
DAXX	1616	broad.mit.edu	37	chr6	33287897	33287897	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggcctcctcctcttcttcTtcctcctcctcctcctcttc	0	17	3	21	0	4	0	0	0	4	0	12	0	11	0	8	1	0	0	8	1	0	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:33287897T>C	uc003oec.2	-	5	1560	c.1356A>G	c.(1354-1356)GAA>GAG	p.E452E	ZBTB22_uc003oeb.2_5'Flank|ZBTB22_uc010juu.2_5'Flank|DAXX_uc011drd.1_Silent_p.E377E|DAXX_uc011dre.1_Silent_p.E464E|DAXX_uc003oed.2_Silent_p.E452E	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	452	Asp/Glu-rich (acidic).|Potential.|Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						cctcttcttcttcctcctcct	0.239			Mis|F|N		Pancreatic neuroendocrine tumors								18	59					0	0	0.00499	0	0		C	33287897	C	C	33287897	2	2	20	1	0	0	0	0	0	0	0	1	4246	1606	56	3		3	DAXX	6	33287897	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	28004	33287897	137827170	575	17297											
DAXX	1616	broad.mit.edu	37	chr6	33288217	33288217	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgggaagaggtgccttggagCcgagctcttctcttttttct	5	15	12	9	1	3	1	0	0	3	1	4	4	3	3	2	3	3	1	2	3	1	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:33288217C>T	uc003oec.2	-	4	1395	c.1191G>A	c.(1189-1191)CGG>CGA	p.R397R	ZBTB22_uc003oeb.2_5'Flank|ZBTB22_uc010juu.2_5'Flank|DAXX_uc011drd.1_Silent_p.R322R|DAXX_uc011dre.1_Silent_p.R409R|DAXX_uc003oed.2_Silent_p.R397R|DAXX_uc010juw.2_Silent_p.R322R	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	397	Potential.|Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						TGCCTTGGAGCCGAGCTCTTC	0.532			Mis|F|N		Pancreatic neuroendocrine tumors								45	168					0	0	0.013114	0	0		T	33288217	T	T	33288217	2	4	20	1	0	0	0	0	0	0	0	1	4246	726	26	2		2	DAXX	6	33288217	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	320	33288217	137826850	576	17298											
SYNGAP1	8831	broad.mit.edu	37	chr6	33400582	33400582	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgaagtgctgaccatgacCggtacaggggctggagcatg	9	7	15	10	2	0	2	0	2	0	0	1	4	1	3	3	4	3	4	3	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:33400582C>T	uc011dri.1	+	5	703	c.508C>T	c.(508-510)CGG>TGG	p.R170W	SYNGAP1_uc003oeo.1_Missense_Mutation_p.R155W|SYNGAP1_uc010juy.2_Missense_Mutation_p.R155W	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	170	PH.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						TGACCATGACCGGTACAGGGG	0.527													12	62					0	0	0.00245	0	0		T	33400582	T	T	33400582	3	4	20	1	0	0	0	0	1	0	0	0	15472	666	23	1	526	1	SYNGAP1	6	33400582	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	112365	33400582	137714485	577	17299											
SYNGAP1	8831	broad.mit.edu	37	chr6	33411637	33411637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaagttatggccccgcccGtccacggcaacagagcctca	9	5	10	17	3	1	1	1	0	0	1	2	1	2	1	6	2	2	2	6	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:33411637G>A	uc011dri.1	+	15	3503	c.3308G>A	c.(3307-3309)CGT>CAT	p.R1103H	SYNGAP1_uc010juy.2_Missense_Mutation_p.R1074H|SYNGAP1_uc010juz.2_Missense_Mutation_p.R815H	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	1103					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						GGCCCCGCCCGTCCACGGCAA	0.662													22	42					0	0	0.005443	0	0		A	33411637	A	A	33411637	3	1	20	1	0	0	0	0	1	0	0	0	15472	1145	40	1	3366	1	SYNGAP1	6	33411637	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	11055	33411637	137703430	578	17300											
ITPR3	3710	broad.mit.edu	37	chr6	33638551	33638551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatgtagtcagcgaggccGtgccctttgccaacgaggag	10	7	13	11	3	1	0	1	0	0	0	1	3	1	1	3	2	4	1	3	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:33638551G>A	uc011drk.1	+	20	2764	c.2545G>A	c.(2545-2547)GTG>ATG	p.V849M		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	849	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CAGCGAGGCCGTGCCCTTTGC	0.567													16	228					0	0	0.007413	0	0		A	33638551	A	A	33638551	3	1	20	1	0	0	0	0	1	0	0	0	7938	1145	40	1	2623	1	ITPR3	6	33638551	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	226914	33638551	137476516	579	17301											
TEAD3	7005	broad.mit.edu	37	chr6	35443481	35443481	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggatggtgctgttgaggtcGgcctgggcatgggggtgggg	3	10	23	5	1	0	1	0	1	0	0	1	2	0	2	1	9	1	3	1	9	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:35443481G>A	uc003oku.3	-	11	1139	c.903C>T	c.(901-903)GCC>GCT	p.A301A	TEAD3_uc003okt.2_Silent_p.A190A|TEAD3_uc010jvx.2_Silent_p.A241A	NM_003214	NP_003205	Q99594	TEAD3_HUMAN	TEA domain family member 3	301	Transcriptional activation (Potential).				female pregnancy|hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGTTGAGGTCGGCCTGGGCAT	0.602													44	79					0	0	0.01441	0	0		A	35443481	A	A	35443481	2	1	20	1	0	0	0	0	0	0	0	1	15765	1103	39	1		1	TEAD3	6	35443481	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1804930	35443481	135671586	580	17302											
PNPLA1	285848	broad.mit.edu	37	chr6	36274154	36274154	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagcaagccttatgtaacGtaagtttccccttcgtggag	9	12	10	10	2	1	0	1	0	0	0	3	1	2	1	3	1	3	4	3	1	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:36274154G>A	uc010jwf.2	+	7	1469	c.1469_splice	c.e7+1	p.T490_splice	PNPLA1_uc003olw.1_Splice_Site_p.T395_splice|PNPLA1_uc010jwe.1_Splice_Site_p.T404_splice	NM_001145717	NP_001139189	Q8N8W4	PLPL1_HUMAN	patatin-like phospholipase domain containing 1						lipid catabolic process		hydrolase activity			large_intestine(1)|pancreas(1)|breast(1)|skin(1)	4						CTTATGTAACGTAAGTTTCCC	0.493													116	143					0	0	0.01441	0	0		A	36274154	A	A	36274154	5	1	20	1	0	0	0	0	0	0	1	0	12183	1159	40	1	1523	1	PNPLA1	6	36274154	Splice_Site	SNP	G	TCGA-BR-4362-01A-01D-1158-08	830673	36274154	134840913	581	17303											
MDGA1	266727	broad.mit.edu	37	chr6	37626035	37626035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacactgcacgtccacgCggatggacttgatggccggc	8	7	12	14	4	1	1	1	1	0	0	2	3	2	3	2	4	1	1	2	4	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:37626035C>T	uc003onu.1	-	3	1547	c.368G>A	c.(367-369)CGC>CAC	p.R123H		NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	123	Ig-like 1.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						CACGTCCACGCGGATGGACTT	0.682													7	13					0	0	0.010729	0	0		T	37626035	T	T	37626035	3	4	20	1	0	0	0	0	1	0	0	0	9424	768	27	1	2559	1	MDGA1	6	37626035	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1351881	37626035	133489032	582	17304											
FRS3	10817	broad.mit.edu	37	chr6	41739124	41739124	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacacaaacttcacctggcCtggctgcaagaacacctgtg	12	7	8	14	0	1	1	1	0	0	1	1	1	1	1	3	2	4	2	3	2	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:41739124C>A	uc003orc.1	-	7	956	c.712G>T	c.(712-714)GGC>TGC	p.G238C		NM_006653	NP_006644	O43559	FRS3_HUMAN	fibroblast growth factor receptor substrate 3	238					fibroblast growth factor receptor signaling pathway	plasma membrane	fibroblast growth factor receptor binding|insulin receptor binding			ovary(2)	2	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TTCACCTGGCCTGGCTGCAAG	0.672													8	75					4.3838e-07	4.53875e-07	0.001855	1	0		A	41739124	A	A	41739124	3	1	20	1	0	0	0	0	1	0	0	0	6076	681	24	5	770	5	FRS3	6	41739124	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4113089	41739124	129375943	583	17305											
CCND3	896	broad.mit.edu	37	chr6	41903835	41903835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatctgctcctgacaggccCgcaggcagtcctgggaacat	8	7	12	14	2	1	1	0	1	1	0	3	3	3	2	3	3	2	3	3	3	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:41903835C>T	uc003orn.2	-	5	887	c.722G>A	c.(721-723)CGG>CAG	p.R241Q	CCND3_uc003orp.2_Missense_Mutation_p.R160Q|CCND3_uc011duk.1_Missense_Mutation_p.R45Q|CCND3_uc003orm.2_Missense_Mutation_p.R191Q|CCND3_uc003oro.2_Missense_Mutation_p.R169Q	NM_001760	NP_001751	P30281	CCND3_HUMAN	cyclin D3 isoform 2	241					cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding				0	Colorectal(47;0.121)		Epithelial(12;0.000178)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CTGACAGGCCCGCAGGCAGTC	0.642			T	IGH@	MM						OREG0017437	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	64					0	0	0.008291	0	0		T	41903835	T	T	41903835	3	4	20	1	0	0	0	0	1	0	0	0	2921	652	23	1	160	1	CCND3	6	41903835	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	164711	41903835	129211232	584	17306											
GUCA1A	2978	broad.mit.edu	37	chr6	42146991	42146991	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctaccccaggggaactctcCctggaagagtttatagaggg	10	9	12	10	0	2	2	0	0	2	2	3	4	2	4	3	4	2	1	3	4	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:42146991C>A	uc003orx.2	+	6	1101	c.456C>A	c.(454-456)TCC>TCA	p.S152S	GUCA1A_uc011duo.1_RNA|GUCA1A_uc010jxt.2_Silent_p.S152S	NM_000409	NP_000400	P43080	GUC1A_HUMAN	guanylate cyclase activator 1A (retina)	152	EF-hand 4.|3 (Potential).				signal transduction|visual perception	membrane	calcium ion binding|calcium sensitive guanylate cyclase activator activity				0	Colorectal(47;0.196)		STAD - Stomach adenocarcinoma(11;5.54e-05)|Epithelial(12;0.000167)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GGGAACTCTCCCTGGAAGAGT	0.582													34	39					8.73648e-17	9.30568e-17	0.004289	1	0		A	42146991	A	A	42146991	2	1	20	1	0	0	0	0	0	0	0	1	6904	610	22	5		5	GUCA1A	6	42146991	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	243156	42146991	128968076	585	17307											
GUCA1B	2979	broad.mit.edu	37	chr6	42152629	42152629	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctgcagcatcttcatcAcccacttgtcccgacgggca	8	9	7	17	2	4	0	2	0	2	0	5	1	5	0	3	1	2	3	3	1	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:42152629A>G	uc003orz.2	-	4	663	c.527T>C	c.(526-528)GTG>GCG	p.V176A		NM_002098	NP_002089	Q9UMX6	GUC1B_HUMAN	guanylate cyclase activator 1B (retina)	176	EF-hand 4.				body fluid secretion|cell-cell signaling|receptor guanylyl cyclase signaling pathway|visual perception	plasma membrane	calcium ion binding|calcium sensitive guanylate cyclase activator activity			skin(2)	2	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|Epithelial(12;0.00154)|STAD - Stomach adenocarcinoma(11;0.00177)			CATCTTCATCACCCACTTGTC	0.577													5	127					0	0	0.000602	0	0		G	42152629	G	G	42152629	3	3	20	1	0	0	0	0	1	0	0	0	6905	159	6	3	79	3	GUCA1B	6	42152629	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	5638	42152629	128962438	586	17308											
KIAA0240	23506	broad.mit.edu	37	chr6	42797828	42797828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtcagtgtgtctcatcGtcttccagtttcttcttcca	6	16	6	13	1	5	0	2	0	4	0	9	0	7	0	3	0	0	1	3	0	0	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:42797828G>A	uc003osn.1	+	6	1908	c.1757G>A	c.(1756-1758)CGT>CAT	p.R586H	KIAA0240_uc003osm.1_Missense_Mutation_p.R586H|KIAA0240_uc011duw.1_Missense_Mutation_p.R586H|KIAA0240_uc003oso.1_Missense_Mutation_p.R586H|KIAA0240_uc003osp.1_Missense_Mutation_p.R586H	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	586										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			GTGTCTCATCGTCTTCCAGTT	0.488													10	126					0	0	0.010729	0	0		A	42797828	A	A	42797828	3	1	20	1	0	0	0	0	1	0	0	0	8180	1145	40	1	1771	1	KIAA0240	6	42797828	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	645199	42797828	128317239	587	17309											
PEX6	5190	broad.mit.edu	37	chr6	42933450	42933450	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccagaatctccacttcGcccccggcttggggccaaag	7	8	9	17	2	1	1	0	0	1	1	5	1	3	1	6	3	0	1	6	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:42933450G>A	uc003otf.2	-	13	2533	c.2440C>T	c.(2440-2442)CGA>TGA	p.R814*	PEX6_uc010jya.2_RNA	NM_000287	NP_000278	Q13608	PEX6_HUMAN	peroxisomal biogenesis factor 6	814					protein import into peroxisome matrix, translocation|protein stabilization	cytosol|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)	1			all cancers(41;0.00235)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0562)			TCTCCACTTCGCCCCCGGCTT	0.562													139	431					0	0	0.01441	0	0		A	42933450	A	A	42933450	4	1	20	1	0	0	0	0	0	1	0	0	11769	1095	38	1	522	1	PEX6	6	42933450	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	135622	42933450	128181617	588	17310											
PEX6	5190	broad.mit.edu	37	chr6	42946217	42946217	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gactctctggcctgggccacCcacacccattcgccctggaa	7	7	9	18	1	1	0	0	0	1	0	3	2	1	1	5	3	0	0	5	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:42946217C>A	uc003otf.2	-	1	765	c.672G>T	c.(670-672)TGG>TGT	p.W224C	PEX6_uc010jya.2_RNA	NM_000287	NP_000278	Q13608	PEX6_HUMAN	peroxisomal biogenesis factor 6	224					protein import into peroxisome matrix, translocation|protein stabilization	cytosol|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)	1			all cancers(41;0.00235)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0562)			CCTGGGCCACCCACACCCATT	0.627													34	65					4.65686e-17	4.96779e-17	0.003755	1	0		A	42946217	A	A	42946217	3	1	20	1	0	0	0	0	1	0	0	0	11769	624	22	5	2338	5	PEX6	6	42946217	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	12767	42946217	128168850	589	17311											
PTK7	5754	broad.mit.edu	37	chr6	43113108	43113108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaccacgccaacgtggtgCggctcctggggctgtgccgg	5	7	16	13	4	0	1	0	1	0	0	1	1	1	1	4	5	4	2	4	5	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:43113108C>T	uc003oub.1	+	16	2776	c.2578C>T	c.(2578-2580)CGG>TGG	p.R860W	PTK7_uc003ouc.1_Missense_Mutation_p.R804W|PTK7_uc003oud.1_Missense_Mutation_p.R820W|PTK7_uc003oue.1_Missense_Mutation_p.R730W|PTK7_uc003ouf.1_Intron|PTK7_uc003oug.1_RNA|PTK7_uc011dve.1_Missense_Mutation_p.R868W|PTK7_uc010jyj.1_Missense_Mutation_p.R186W	NM_002821	NP_002812	Q13308	PTK7_HUMAN	PTK7 protein tyrosine kinase 7 isoform a	860	Cytoplasmic (Potential).|Protein kinase; inactive.|Interaction with CTNNB1.				actin cytoskeleton reorganization|canonical Wnt receptor signaling pathway|cell adhesion|cell migration	cell-cell junction|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			ovary(2)|large_intestine(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00784)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			CAACGTGGTGCGGCTCCTGGG	0.607													31	64					0	0	0.010771	0	0		T	43113108	T	T	43113108	3	4	20	1	0	0	0	0	1	0	0	0	12788	759	27	1	2640	1	PTK7	6	43113108	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	166891	43113108	128001959	590	17312											
ZNF318	24149	broad.mit.edu	37	chr6	43323194	43323194	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggcggtcagctgaggagcgTaatgatggcttcttgccatg	7	10	15	9	3	2	2	1	2	1	0	2	3	2	3	1	4	3	3	1	4	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:43323194T>C	uc003oux.2	-	4	1956	c.1878A>G	c.(1876-1878)TTA>TTG	p.L626L	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	626					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			CTGAGGAGCGTAATGATGGCT	0.517													42	158					0	0	0.01441	0	0		C	43323194	C	C	43323194	2	2	20	1	0	0	0	0	0	0	0	1	17861	1635	57	3		3	ZNF318	6	43323194	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	210086	43323194	127791873	591	17313											
DLK2	65989	broad.mit.edu	37	chr6	43418614	43418614	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggctggccccgtggcaggtAccactacagctgaggtgggc	6	6	17	12	1	0	1	0	1	0	0	0	1	0	1	3	6	3	4	3	6	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:43418614A>G	uc003ova.2	-	6	1024	c.815T>C	c.(814-816)GTA>GCA	p.V272A	DLK2_uc003ovb.2_Missense_Mutation_p.V272A	NM_023932	NP_076421	Q6UY11	DLK2_HUMAN	EGF-like-domain, multiple 9 precursor	272	Extracellular (Potential).					integral to membrane	calcium ion binding				0	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CGTGGCAGGTACCACTACAGC	0.647													3	113					0	0	0.000602	0	0		G	43418614	G	G	43418614	3	3	20	1	0	0	0	0	1	0	0	0	4571	391	14	3	340	3	DLK2	6	43418614	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	95420	43418614	127696453	592	17314											
XPO5	57510	broad.mit.edu	37	chr6	43494448	43494448	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatctgctgggggagcactActgtggtcagcacccttctt	6	11	11	13	0	3	0	1	0	2	0	3	1	3	1	2	3	4	3	2	3	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:43494448A>G	uc003ovp.2	-	27	3169	c.2958T>C	c.(2956-2958)AGT>AGC	p.S986S	POLR1C_uc003ovo.1_Intron	NM_020750	NP_065801	Q9HAV4	XPO5_HUMAN	exportin 5	986					gene silencing by RNA	cytosol|nucleoplasm	protein binding|tRNA binding			skin(2)|breast(1)|kidney(1)	4	all_cancers(18;2.08e-05)|Lung NSC(15;0.000907)|all_lung(25;0.00243)		all cancers(41;0.000321)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0524)			GGGGAGCACTACTGTGGTCAG	0.498													4	44					0	0	0.009096	0	0		G	43494448	G	G	43494448	2	3	20	1	0	0	0	0	0	0	0	1	17473	388	14	3		3	XPO5	6	43494448	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	75834	43494448	127620619	593	17315											
CDC5L	988	broad.mit.edu	37	chr6	44360532	44360532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaatcattggaagaacagCggcccagtgcttagaacact	13	8	9	11	1	1	2	1	0	0	2	2	3	2	3	2	2	4	1	2	2	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:44360532C>T	uc003oxl.2	+	3	537	c.278C>T	c.(277-279)GCG>GTG	p.A93V		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	93	H-T-H motif (By similarity).|HTH myb-type 2.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GGAAGAACAGCGGCCCAGTGC	0.413													7	98					0	0	0.004482	0	0		T	44360532	T	T	44360532	3	4	20	1	0	0	0	0	1	0	0	0	3085	768	27	1	288	1	CDC5L	6	44360532	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	866084	44360532	126754535	594	17316											
CYP39A1	51302	broad.mit.edu	37	chr6	46620180	46620180	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctataaattctagaggggctTtcccaaactcaaatccaact	14	11	5	11	0	2	1	1	0	1	1	4	1	4	1	2	2	2	1	2	2	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:46620180T>C	uc003oyf.1	-	1	344	c.140A>G	c.(139-141)AAA>AGA	p.K47R	CYP39A1_uc011dwa.1_Missense_Mutation_p.K47R|CYP39A1_uc010jzd.1_5'UTR|SLC25A27_uc011dwb.1_5'Flank|SLC25A27_uc003oyg.2_5'Flank|SLC25A27_uc003oyh.2_5'Flank|SLC25A27_uc011dwc.1_5'Flank	NM_016593	NP_057677	Q9NYL5	CP39A_HUMAN	cytochrome P450, family 39, subfamily A,	47					bile acid biosynthetic process|bile acid catabolic process|digestion|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	24-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(1)	1						TAGAGGGGCTTTCCCAAACTC	0.458													10	602					0	0	0.010729	0	0		C	46620180	C	C	46620180	3	2	20	1	0	0	0	0	1	0	0	0	4180	1841	64	3	1317	3	CYP39A1	6	46620180	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2259648	46620180	124494887	595	17317											
PLA2G7	7941	broad.mit.edu	37	chr6	46679343	46679343	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaaatagtaagttgcagAtgcagatctatctctataat	14	14	7	6	0	2	3	0	1	2	2	3	3	2	3	0	0	2	4	0	0	6	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:46679343A>G	uc010jzf.2	-	7	822	c.553T>C	c.(553-555)TCT>CCT	p.S185P	PLA2G7_uc010jzg.1_Missense_Mutation_p.S185P|PLA2G7_uc011dwd.1_Missense_Mutation_p.S140P|PLA2G7_uc011dwe.1_Missense_Mutation_p.S58P	NM_005084	NP_005075	Q13093	PAFA_HUMAN	phospholipase A2, group VII	185					inflammatory response|lipid catabolic process	extracellular space	1-alkyl-2-acetylglycerophosphocholine esterase activity|phospholipid binding				0			Lung(136;0.192)			TAAGTTGCAGATGCAGATCTA	0.413													132	157					0	0	0.01441	0	0		G	46679343	G	G	46679343	3	3	20	1	0	0	0	0	1	0	0	0	12028	333	12	3	796	3	PLA2G7	6	46679343	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	59163	46679343	124435724	596	17318											
DEFB110	245913	broad.mit.edu	37	chr6	49986805	49986805	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcactctctcctcaagTccaagctaccatactcagga	10	11	5	15	0	4	0	2	0	2	0	7	1	6	1	3	1	4	2	3	1	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:49986805T>C	uc003pac.2	-	2	135	c.89A>G	c.(88-90)GAC>GGC	p.D30G	DEFB110_uc011dwr.1_Intron	NM_001037497	NP_001032586	Q30KQ9	DB110_HUMAN	beta-defensin 110 isoform a	30					defense response to bacterium	extracellular region				ovary(1)	1	Lung NSC(77;0.042)					TCTCCTCAAGTCCAAGCTACC	0.373													28	221					0	0	0.012213	0	0		C	49986805	C	C	49986805	3	2	20	1	0	0	0	0	1	0	0	0	4405	1667	58	3	254	3	DEFB110	6	49986805	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3307462	49986805	121128262	597	17319											
GCLC	2729	broad.mit.edu	37	chr6	53370226	53370226	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaaatccaatttgtaggaAaggatcactctggtgagcag	15	9	11	6	0	2	2	1	1	1	1	3	4	3	4	1	3	1	2	1	3	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:53370226A>G	uc003pbw.1	-	12	1747	c.1359T>C	c.(1357-1359)CTT>CTC	p.L453L	GCLC_uc003pbv.1_Silent_p.L177L	NM_001498	NP_001489	P48506	GSH1_HUMAN	glutamate-cysteine ligase, catalytic subunit	453					anti-apoptosis|cell redox homeostasis|cysteine metabolic process|glutamate metabolic process|glutathione biosynthetic process|negative regulation of transcription, DNA-dependent|regulation of blood vessel size|response to heat|response to hormone stimulus|response to oxidative stress|xenobiotic metabolic process	cytosol	ADP binding|ATP binding|coenzyme binding|glutamate binding|glutamate-cysteine ligase activity|magnesium ion binding			ovary(1)|central_nervous_system(1)	2	Lung NSC(77;0.0137)				L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)	ATTTGTAGGAAAGGATCACTC	0.368													11	66					0	0	0.010729	0	0		G	53370226	G	G	53370226	2	3	20	1	0	0	0	0	0	0	0	1	6310	1	1	3		3	GCLC	6	53370226	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3383421	53370226	117744841	598	17320											
DST	667	broad.mit.edu	37	chr6	56434717	56434717	+	Frame_Shift_Del	DEL	T	-	-																															gaaggctgtacaatgggaacTttttttgttgtttcttttat																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:56434717delT	uc003pdf.2	-	48	7486	c.7458delA	c.(7456-7458)AAAfs	p.K2486fs	DST_uc003pcz.3_Frame_Shift_Del_p.K2308fs|DST_uc011dxj.1_Frame_Shift_Del_p.K2337fs|DST_uc011dxk.1_Frame_Shift_Del_p.K2348fs|DST_uc003pcy.3_Frame_Shift_Del_p.K1982fs	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	4394					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CAATGGGAACTTTTTTTGTTG	0.328													54	96	---	---	---	---						.	-	56434717	-	-	56434717	7	5	20	1	0	1	0	1	0	0	0	0	4789	1606	56	0	9769	0	DST	6	56434717	Frame_Shift_Del	DEL	T	TCGA-BR-4362-01A-01D-1158-08	3064491	56434717	114680350	599	17321											
BAI3	577	broad.mit.edu	37	chr6	70070871	70070871	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacaaaccctgaagggctaAgctattcaacattgcctgga	14	8	9	10	0	1	1	1	1	0	0	1	3	1	2	2	2	5	2	2	2	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:70070871A>T	uc003pev.3	+	29	4154	c.3706A>T	c.(3706-3708)AGC>TGC	p.S1236C	BAI3_uc010kak.2_Missense_Mutation_p.S1236C|BAI3_uc011dxx.1_Missense_Mutation_p.S442C	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1236	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TGAAGGGCTAAGCTATTCAAC	0.433													27	99					0	0	0.003954	0	0		T	70070871	T	T	70070871	3	4	20	1	0	0	0	0	1	0	0	0	1301	72	3	5	3812	5	BAI3	6	70070871	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	13636154	70070871	101044196	600	17322											
COL9A1	1297	broad.mit.edu	37	chr6	71004132	71004132	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgtgtttggccattaatcTttatgccaacttgctccttc	7	18	6	10	0	1	0	0	0	1	0	3	0	2	0	3	1	3	2	3	1	3	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:71004132T>G	uc003pfg.3	-	5	593	c.434A>C	c.(433-435)AAG>ACG	p.K145T		NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	145	Nonhelical region (NC4).|TSP N-terminal.				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						GCCATTAATCTTTATGCCAAC	0.428													7	389					0	0	0.001984	0	0		G	71004132	G	G	71004132	3	3	20	1	0	0	0	0	1	0	0	0	3710	1609	56	5	2543	5	COL9A1	6	71004132	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	933261	71004132	100110935	601	17323											
OGFRL1	79627	broad.mit.edu	37	chr6	72011416	72011416	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagtcataacagtcaaacTtctatgcacaaaaaagccaa	18	8	4	11	0	3	0	2	0	1	0	4	0	4	0	2	0	4	1	2	0	7	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:72011416T>G	uc003pfx.1	+	7	1183	c.1020T>G	c.(1018-1020)ACT>ACG	p.T340T		NM_024576	NP_078852	Q5TC84	OGRL1_HUMAN	opioid growth factor receptor-like 1	340						membrane	receptor activity				0						ACAGTCAAACTTCTATGCACA	0.453													20	122					0	0	0.008871	0	0		G	72011416	G	G	72011416	2	3	20	1	0	0	0	0	0	0	0	1	10863	1596	56	5		5	OGFRL1	6	72011416	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1007284	72011416	99103651	602	17324											
RIMS1	22999	broad.mit.edu	37	chr6	73100438	73100438	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttacagctctgagggcaAgtaagtgctgtcagcacgtc	10	9	12	10	1	2	1	1	1	1	0	3	1	2	1	0	1	4	6	0	1	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:73100438A>C	uc003pga.2	+	30	4582	c.4505A>C	c.(4504-4506)AAT>ACT	p.N1502T	RIMS1_uc011dyb.1_Missense_Mutation_p.N899T|RIMS1_uc003pgc.2_Missense_Mutation_p.N951T|RIMS1_uc010kaq.2_Missense_Mutation_p.N822T|RIMS1_uc011dyc.1_Missense_Mutation_p.N627T|RIMS1_uc010kar.2_Missense_Mutation_p.N570T|RIMS1_uc011dyd.1_Missense_Mutation_p.N636T|RIMS1_uc003pgf.2_Missense_Mutation_p.N502T|RIMS1_uc003pgg.2_Missense_Mutation_p.N398T|RIMS1_uc003pgi.2_Missense_Mutation_p.N318T|RIMS1_uc003pgh.2_Missense_Mutation_p.N369T|RIMS1_uc003pgd.2_Missense_Mutation_p.N568T|RIMS1_uc003pge.2_Missense_Mutation_p.N542T|RIMS1_uc011dye.1_Missense_Mutation_p.N308T|RIMS1_uc011dyf.1_Missense_Mutation_p.N126T|RIMS1_uc011dyg.1_Missense_Mutation_p.N29T	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1502					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				TCTGAGGGCAAGTAAGTGCTG	0.483													14	58					0	0	0.00245	0	0		C	73100438	C	C	73100438	3	2	20	1	0	0	0	0	1	0	0	0	13392	86	3	5	4786	5	RIMS1	6	73100438	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1089022	73100438	98014629	603	17325											
DPPA5	340168	broad.mit.edu	37	chr6	74063580	74063580	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgggcctctcacctcgCtcctggcgctggcggtgcca	2	10	12	17	3	2	0	1	0	2	0	6	0	3	0	4	4	1	2	4	4	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:74063580C>T	uc003pgs.1	-	2	293	c.288G>A	c.(286-288)GAG>GAA	p.E96E		NM_001025290	NP_001020461	A6NC42	DPPA5_HUMAN	developmental pluripotency associated 5	96					multicellular organismal development	cytoplasm	RNA binding				0						TCTCACCTCGCTCCTGGCGCT	0.637													18	17					0	0	0.012319	0	0		T	74063580	T	T	74063580	2	4	20	1	0	0	0	0	0	0	0	1	4743	796	28	2		2	DPPA5	6	74063580	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	963142	74063580	97051487	604	17326											
COL12A1	1303	broad.mit.edu	37	chr6	75840613	75840614	+	Frame_Shift_Del	DEL	AC	-	-																															atttccctctccatccgagtAcagagccacaaggttcacgg																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:75840613_75840614delAC	uc003phs.2	-	36	6187_6188	c.6021_6022delGT	c.(6019-6024)CTGTACfs	p.L2007fs	COL12A1_uc003pht.2_Frame_Shift_Del_p.L843fs	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2007_2008	Fibronectin type-III 15.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CCATCCGAGTACAGAGCCACAA	0.554													33	74	---	---	---	---						.	-	75840614	-	-	75840613	7	5	20	1	0	1	0	1	0	0	0	0	3672	391	14	0	3293	0	COL12A1	6	75840613	Frame_Shift_Del	DEL	AC	TCGA-BR-4362-01A-01D-1158-08	1777033	75840613	95274454	605	17327											
HTR1B	3351	broad.mit.edu	37	chr6	78172873	78172873	+	Frame_Shift_Del	DEL	G	-	-																															aggcgatcaggtagttagccGgggtgtgcagtttccgggtc																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:78172873delG	uc003pil.1	-	1	248	c.248delC	c.(247-249)CCGfs	p.P83fs		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	83	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	GTAGTTAGCCGGGGTGTGCAG	0.582													119	197	---	---	---	---						.	-	78172873	-	-	78172873	7	5	20	1	0	1	0	1	0	0	0	0	7453	1116	39	0	928	0	HTR1B	6	78172873	Frame_Shift_Del	DEL	G	TCGA-BR-4362-01A-01D-1158-08	2332260	78172873	92942194	606	17328											
PHIP	55023	broad.mit.edu	37	chr6	79655139	79655139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgcagaattattcctagtgCcatgactaaaactggattga	13	13	8	7	0	0	3	0	2	0	1	1	4	1	4	2	1	3	1	2	1	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:79655139C>T	uc003pir.2	-	39	4932	c.4706G>A	c.(4705-4707)GGC>GAC	p.G1569D	PHIP_uc003piq.2_Missense_Mutation_p.G593D|PHIP_uc011dyp.1_Missense_Mutation_p.G1568D|IRAK1BP1_uc010kbg.1_RNA|PHIP_uc003pio.3_Missense_Mutation_p.G455D	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1569					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		ATTCCTAGTGCCATGACTAAA	0.358													61	69					0	0	0.01441	0	0		T	79655139	T	T	79655139	3	4	20	1	0	0	0	0	1	0	0	0	11861	739	26	2	767	2	PHIP	6	79655139	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1482266	79655139	91459928	607	17329											
PGM3	5238	broad.mit.edu	37	chr6	83891504	83891504	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcagctccacataaatgAttgagtttgcccttggaccc	11	11	8	11	0	1	2	1	2	0	0	2	3	2	3	3	1	2	2	3	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:83891504A>G	uc003pjv.2	-	6	778	c.738T>C	c.(736-738)AAT>AAC	p.N246N	PGM3_uc003pjw.2_Silent_p.N165N|PGM3_uc011dyz.1_Silent_p.N274N	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	246					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		CACATAAATGATTGAGTTTGC	0.438													10	181					0	0	0.001855	0	0		G	83891504	G	G	83891504	2	3	20	1	0	0	0	0	0	0	0	1	11819	330	12	3		3	PGM3	6	83891504	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	4236365	83891504	87223563	608	17330											
GABRR1	2569	broad.mit.edu	37	chr6	89888745	89888745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtagttgccgtccagcatcGcagtgcggggcggaggtaat	7	9	16	9	4	0	0	0	0	0	0	2	1	1	1	2	4	3	5	2	4	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:89888745G>A	uc003pna.2	-	10	1639	c.1184C>T	c.(1183-1185)GCG>GTG	p.A395V	GABRR1_uc011dzv.1_Missense_Mutation_p.A372V	NM_002042	NP_002033	P24046	GBRR1_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 1	395	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			pancreas(1)	1		all_cancers(76;9.49e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.46e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00917)	Picrotoxin(DB00466)	GTCCAGCATCGCAGTGCGGGG	0.547													43	61					0	0	0.010771	0	0		A	89888745	A	A	89888745	3	1	20	1	0	0	0	0	1	0	0	0	6190	1087	38	1	259	1	GABRR1	6	89888745	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5997241	89888745	81226322	609	17331											
MDN1	23195	broad.mit.edu	37	chr6	90499923	90499923	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggactttgagaagctgaggAggctttgttctacctgtcac	8	13	12	8	0	2	2	1	2	1	1	2	5	2	4	1	3	2	3	1	3	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:90499923A>G	uc003pnn.1	-	6	1169	c.1053T>C	c.(1051-1053)CCT>CCC	p.P351P	MDN1_uc003pnp.1_Silent_p.P351P	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	351					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GAAGCTGAGGAGGCTTTGTTC	0.413													8	378					0	0	0.004482	0	0		G	90499923	G	G	90499923	2	3	20	1	0	0	0	0	0	0	0	1	9433	291	11	3		3	MDN1	6	90499923	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	611178	90499923	80615144	610	17332											
CASP8AP2	9994	broad.mit.edu	37	chr6	90572134	90572134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttctcattatcaggttggcGagggtagctcaaatgaggat	10	12	13	6	1	3	1	3	1	1	0	4	3	3	2	0	4	1	4	0	4	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:90572134G>A	uc003pnr.2	+	7	902	c.706G>A	c.(706-708)GAG>AAG	p.E236K	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.E236K|CASP8AP2_uc011dzz.1_Missense_Mutation_p.E236K	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	236					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		TCAGGTTGGCGAGGGTAGCTC	0.388													129	190					0	0	0.01441	0	0		A	90572134	A	A	90572134	3	1	20	1	0	0	0	0	1	0	0	0	2681	1059	37	1	728	1	CASP8AP2	6	90572134	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	72211	90572134	80542933	611	17333											
EPHA7	2045	broad.mit.edu	37	chr6	94120499	94120499	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctacatcctgaaaggcAagatagaatccctttttgga	12	10	8	11	0	0	3	0	1	0	2	2	4	2	4	4	2	1	1	4	2	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:94120499A>C	uc003poe.2	-	3	793	c.552T>G	c.(550-552)CTT>CTG	p.L184L	EPHA7_uc003pof.2_Silent_p.L184L|EPHA7_uc011eac.1_Silent_p.L184L|EPHA7_uc003pog.3_Silent_p.L184L	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	184	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		CCTGAAAGGCAAGATAGAATC	0.413													5	146					0	0	0.001984	0	0		C	94120499	C	C	94120499	2	2	20	1	0	0	0	0	0	0	0	1	5180	117	5	5		5	EPHA7	6	94120499	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3548365	94120499	76994568	612	17334											
MANEA	79694	broad.mit.edu	37	chr6	96053641	96053641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagatatggaaatcatccggCcttttacaggtacaagacga	14	10	9	8	2	1	2	1	0	0	2	2	4	2	3	2	3	2	1	2	3	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:96053641C>T	uc003poo.1	+	5	889	c.749C>T	c.(748-750)GCC>GTC	p.A250V		NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	250	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		AATCATCCGGCCTTTTACAGG	0.348													19	121					0	0	0.010504	0	0		T	96053641	T	T	96053641	3	4	20	1	0	0	0	0	1	0	0	0	9239	739	26	2	763	2	MANEA	6	96053641	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1933142	96053641	75061426	613	17335											
KIAA0776	23376	broad.mit.edu	37	chr6	96974275	96974275	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcaccatatcagaactgtgTaaaacttatgatcttcctgg	12	13	7	9	0	3	2	2	1	1	1	4	2	4	2	2	1	2	1	2	1	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:96974275T>C	uc003por.2	+	5	477	c.429T>C	c.(427-429)TGT>TGC	p.C143C	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	143	Required for E3 UFM1-protein ligase activity.|Involved in CDK5RAP3-binding.				negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		CAGAACTGTGTAAAACTTATG	0.333													107	112					0	0	0.01441	0	0		C	96974275	C	C	96974275	2	2	20	1	0	0	0	0	0	0	0	1	8209	1644	57	3		3	KIAA0776	6	96974275	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	920634	96974275	74140792	614	17336											
SIM1	6492	broad.mit.edu	37	chr6	100896103	100896103	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttctcaatcaggtcctgagGttcgtaccccgtcagctccg	6	11	9	15	3	3	1	3	1	1	0	7	1	5	1	4	2	2	3	4	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:100896103G>T	uc003pqj.3	-	7	976	c.769C>A	c.(769-771)CCT>ACT	p.P257T	SIM1_uc010kcu.2_Missense_Mutation_p.P257T	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	257	PAS 2.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		AGGTCCTGAGGTTCGTACCCC	0.642													11	15					1.58986e-06	1.64203e-06	0.008291	1	0		T	100896103	T	T	100896103	3	4	20	1	0	0	0	0	1	0	0	0	14348	1261	44	5	1551	5	SIM1	6	100896103	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3921828	100896103	70218964	615	17337											
ASCC3	10973	broad.mit.edu	37	chr6	101049723	101049723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcggaaaaagtaagtccAggtgatataatccaatgcat	16	9	9	7	2	0	1	0	1	0	0	3	2	2	2	2	2	1	2	2	2	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:101049723A>G	uc003pqk.2	-	34	5595	c.5266T>C	c.(5266-5268)TGG>CGG	p.W1756R		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1756					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		AAGTAAGTCCAGGTGATATAA	0.378													4	124					0	0	0.009096	0	0		G	101049723	G	G	101049723	3	3	20	1	0	0	0	0	1	0	0	0	1034	188	7	3	1378	3	ASCC3	6	101049723	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	153620	101049723	70065344	616	17338											
BVES	11149	broad.mit.edu	37	chr6	105563668	105563668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaacatggagatctgtgtgCagaggctgagctgatgttcc	9	10	13	9	0	1	4	0	2	1	2	2	5	2	4	2	2	3	4	2	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:105563668C>T	uc003pqw.2	-	7	1008	c.851G>A	c.(850-852)TGC>TAC	p.C284Y	BVES_uc003pqx.2_Missense_Mutation_p.C284Y|BVES_uc003pqy.2_Missense_Mutation_p.C284Y	NM_147147	NP_671488	Q8NE79	POPD1_HUMAN	blood vessel epicardial substance isoform 5	284	Cytoplasmic (Potential).				epithelial cell-cell adhesion|muscle organ development|positive regulation of locomotion|positive regulation of receptor recycling|regulation of Cdc42 GTPase activity|regulation of cell shape|regulation of Rac GTPase activity|substrate adhesion-dependent cell spreading|vesicle-mediated transport	integral to membrane|lateral plasma membrane|tight junction	structural molecule activity				0		all_cancers(87;2.83e-05)|Acute lymphoblastic leukemia(125;1.95e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0101)|Colorectal(196;0.204)|Lung NSC(302;0.238)				GATCTGTGTGCAGAGGCTGAG	0.458													64	88					0	0	0.01441	0	0		T	105563668	T	T	105563668	3	4	20	1	0	0	0	0	1	0	0	0	1578	710	25	2	239	2	BVES	6	105563668	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4513945	105563668	65551399	617	17339											
PRDM1	639	broad.mit.edu	37	chr6	106552778	106552778	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatgtcccaaagagagagtAcagcgtgaaagaaatcctaa	18	6	10	7	1	0	4	0	1	0	3	2	6	2	4	2	0	2	1	2	0	6	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:106552778A>G	uc003prd.2	+	5	977	c.743A>G	c.(742-744)TAC>TGC	p.Y248C	PRDM1_uc003pre.2_Missense_Mutation_p.Y114C	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	248					negative regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(54)|ovary(1)|skin(1)	56	Breast(9;0.022)	all_cancers(87;2.2e-31)|all_epithelial(87;2.03e-21)|Acute lymphoblastic leukemia(125;4.99e-11)|all_lung(197;7.55e-09)|all_hematologic(75;5.82e-08)|Lung NSC(302;1.28e-06)|Colorectal(196;0.0112)|Ovarian(999;0.0365)		all cancers(137;1.83e-46)|Epithelial(106;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(136;1.99e-20)|GBM - Glioblastoma multiforme(226;3.72e-11)|BRCA - Breast invasive adenocarcinoma(108;1.38e-05)		AAGAGAGAGTACAGCGTGAAA	0.448			D|N|Mis|F|S		DLBCL								7	507					0	0	0.001984	0	0		G	106552778	G	G	106552778	3	3	20	1	0	0	0	0	1	0	0	0	12472	391	14	3	774	3	PRDM1	6	106552778	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	989110	106552778	64562289	618	17340											
WASF1	8936	broad.mit.edu	37	chr6	110423338	110423338	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaggtggtggaggaggTgggggagtggggctcacaaa	10	5	23	3	0	1	1	1	0	0	1	1	5	1	5	0	10	0	1	0	10	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:110423338T>G	uc003ptv.1	-	10	1812	c.975A>C	c.(973-975)CCA>CCC	p.P325P	WASF1_uc003ptw.1_Silent_p.P325P|WASF1_uc003ptx.1_Silent_p.P325P|WASF1_uc003pty.1_Silent_p.P325P	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	325	Poly-Pro.				actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)		GTGGAGGAGGTGGGGGAGTGG	0.517													7	249					0	0	0.010504	0	0		G	110423338	G	G	110423338	2	3	20	1	0	0	0	0	0	0	0	1	17278	1683	59	5		5	WASF1	6	110423338	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3870560	110423338	60691729	619	17341											
CDC40	51362	broad.mit.edu	37	chr6	110530384	110530384	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatggttttttgggaccatgGgcaaaatatgtggatgaaaa	13	12	13	3	0	0	1	0	1	0	0	0	4	0	3	1	4	0	2	1	4	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:110530384G>T	uc003pua.2	+	5	612	c.588G>T	c.(586-588)TGG>TGT	p.W196C		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	196					mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		TGGGACCATGGGCAAAATATG	0.333													28	101					1.7881e-09	1.87059e-09	0.008361	1	0		T	110530384	T	T	110530384	3	4	20	1	0	0	0	0	1	0	0	0	3073	1241	43	5	606	5	CDC40	6	110530384	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	107046	110530384	60584683	620	17342											
REV3L	5980	broad.mit.edu	37	chr6	111697457	111697457	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagaatttttgcccaatgTattctcgttagggtgacggt	10	14	11	6	2	1	2	0	1	1	1	2	3	1	2	1	2	1	2	1	2	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:111697457T>C	uc003puy.3	-	13	2424	c.2101A>G	c.(2101-2103)ACA>GCA	p.T701A	REV3L_uc003pux.3_Missense_Mutation_p.T623A|REV3L_uc003puz.3_Missense_Mutation_p.T623A	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	701					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TTGCCCAATGTATTCTCGTTA	0.333								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					75	72					0	0	0.01441	0	0		C	111697457	C	C	111697457	3	2	20	1	0	0	0	0	1	0	0	0	13265	1638	57	3	7371	3	REV3L	6	111697457	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1167073	111697457	59417610	621	17343											
FYN	2534	broad.mit.edu	37	chr6	112025235	112025235	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actctcgcggataagaaaggTacctcttgggtttccaaagg	11	10	11	9	2	2	1	0	0	2	1	4	2	3	2	2	4	1	2	2	4	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:112025235T>C	uc003pvj.2	-	6	854	c.514A>G	c.(514-516)ACC>GCC	p.T172A	FYN_uc003pvi.2_Missense_Mutation_p.T172A|FYN_uc003pvk.2_Missense_Mutation_p.T172A|FYN_uc003pvh.2_Missense_Mutation_p.T172A|FYN_uc010kdy.1_5'Flank	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	172	SH2.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	ATAAGAAAGGTACCTCTTGGG	0.408													5	162					0	0	0.001168	0	0		C	112025235	C	C	112025235	3	2	20	1	0	0	0	0	1	0	0	0	6140	1638	57	3	1291	3	FYN	6	112025235	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	327778	112025235	59089832	622	17344											
LAMA4	3910	broad.mit.edu	37	chr6	112460455	112460455	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccggagccatcgaagaagTaactggcagcccgactctga	13	5	11	12	3	1	2	0	1	1	1	2	5	1	3	3	2	4	2	3	2	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:112460455T>C	uc003pvu.2	-	24	3458	c.3149A>G	c.(3148-3150)TAC>TGC	p.Y1050C	LAMA4_uc003pvv.2_Missense_Mutation_p.Y1043C|LAMA4_uc003pvt.2_Missense_Mutation_p.Y1043C	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1050	Laminin G-like 2.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		ATCGAAGAAGTAACTGGCAGC	0.468													8	189					0	0	0.008291	0	0		C	112460455	C	C	112460455	3	2	20	1	0	0	0	0	1	0	0	0	8624	1638	57	3	2386	3	LAMA4	6	112460455	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	435220	112460455	58654612	623	17345											
LAMA4	3910	broad.mit.edu	37	chr6	112510396	112510396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtcacatgggcctccccCgcagttgcacactgtgggaa	8	8	11	14	1	1	0	1	0	0	0	2	1	2	1	3	2	1	3	3	2	1	1	rs147078770	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:112510396C>T	uc003pvu.2	-	7	1039	c.730G>A	c.(730-732)GGG>AGG	p.G244R	LAMA4_uc003pvv.2_Missense_Mutation_p.G244R|LAMA4_uc003pvt.2_Missense_Mutation_p.G244R	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	244	Laminin EGF-like 4; truncated.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		GGGCCTCCCCCGCAGTTGCAC	0.433													4	75					0	0	0.001168	0	0		T	112510396	T	T	112510396	3	4	20	1	0	0	0	0	1	0	0	0	8624	652	23	1	4873	1	LAMA4	6	112510396	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	49941	112510396	58604671	624	17346											
COL10A1	1300	broad.mit.edu	37	chr6	116442889	116442889	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctggtaggccagctggTccaacatctccttttggtcc	5	12	11	13	0	1	0	0	0	1	0	5	0	4	0	5	5	2	2	5	5	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:116442889T>A	uc003pwm.2	-	3	486	c.390A>T	c.(388-390)GGA>GGT	p.G130G	NT5DC1_uc003pwj.2_Intron|NT5DC1_uc003pwk.2_Intron|NT5DC1_uc003pwl.2_Intron	NM_000493	NP_000484	Q03692	COAA1_HUMAN	type X collagen alpha 1 precursor	130	Triple-helical region.				skeletal system development	collagen	metal ion binding			central_nervous_system(1)	1		all_cancers(87;0.0176)|all_epithelial(87;0.0263)|Colorectal(196;0.234)		all cancers(137;0.0157)|OV - Ovarian serous cystadenocarcinoma(136;0.0325)|GBM - Glioblastoma multiforme(226;0.0446)|Epithelial(106;0.0711)		GGCCAGCTGGTCCAACATCTC	0.597													10	49					0	0	0.006214	0	0		A	116442889	A	A	116442889	2	1	20	1	0	0	0	0	0	0	0	1	3669	1654	58	5		5	COL10A1	6	116442889	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3932493	116442889	54672178	625	17347											
FAM184A	79632	broad.mit.edu	37	chr6	119285926	119285926	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaattccagctgataaaacTtattatcctcctatgcaaaa	15	13	3	10	0	0	1	0	1	0	0	3	1	3	1	3	0	3	2	3	0	8	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:119285926T>G	uc003pyj.2	-	16	3392	c.3044A>C	c.(3043-3045)AAG>ACG	p.K1015T	FAM184A_uc003pyk.3_Missense_Mutation_p.K846T|FAM184A_uc003pyl.3_Intron|FAM184A_uc003pyi.2_RNA	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	1015										ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						CTGATAAAACTTATTATCCTC	0.269													7	20					0	0	0.00308	0	0		G	119285926	G	G	119285926	3	3	20	1	0	0	0	0	1	0	0	0	5522	1609	56	5	390	5	FAM184A	6	119285926	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2843037	119285926	51829141	626	17348											
PTPRK	5796	broad.mit.edu	37	chr6	128505813	128505813	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggcatttagttggatcAgcaaatatgtaggcccaaca	13	11	10	7	0	1	0	1	0	0	0	1	1	1	1	1	3	2	5	1	3	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:128505813A>G	uc003qbk.2	-	7	1293	c.926T>C	c.(925-927)CTG>CCG	p.L309P	PTPRK_uc003qbj.2_Missense_Mutation_p.L309P|PTPRK_uc010kfc.2_Missense_Mutation_p.L309P|PTPRK_uc011ebu.1_Missense_Mutation_p.L309P|PTPRK_uc003qbl.1_Missense_Mutation_p.L179P|PTPRK_uc011ebv.1_Missense_Mutation_p.L309P	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	309	Fibronectin type-III 1.|Extracellular (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		TAGTTGGATCAGCAAATATGT	0.448													32	136					0	0	0.010818	0	0		G	128505813	G	G	128505813	3	3	20	1	0	0	0	0	1	0	0	0	12830	188	7	3	3514	3	PTPRK	6	128505813	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	9219887	128505813	42609254	627	17349											
LAMA2	3908	broad.mit.edu	37	chr6	129781432	129781432	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctataggtttgtggaatttcCgagaaaaagaaggtgactgc	13	11	12	5	1	0	3	0	1	0	2	1	5	1	4	1	3	1	1	1	3	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:129781432C>T	uc003qbn.2	+	48	7060	c.6955C>T	c.(6955-6957)CGA>TGA	p.R2319*	LAMA2_uc003qbo.2_Nonsense_Mutation_p.R2319*	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2319	Laminin G-like 1.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GTGGAATTTCCGAGAAAAAGA	0.418													39	161					0	0	0.00623	0	0		T	129781432	T	T	129781432	4	4	20	1	0	0	0	0	0	1	0	0	8622	644	23	1	7149	1	LAMA2	6	129781432	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1275619	129781432	41333635	628	17350											
ARG1	383	broad.mit.edu	37	chr6	131904532	131904532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctaagttttgatgttgacGgactggacccatctttcaca	10	14	8	9	1	3	2	1	2	2	0	3	4	3	4	1	2	0	2	1	2	1	5	rs104893948		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:131904532G>A	uc003qcp.1	+	7	761	c.703G>A	c.(703-705)GGA>AGA	p.G235R	ARG1_uc003qco.1_Intron|ARG1_uc010kfm.1_Missense_Mutation_p.G243R|MED23_uc003qcq.2_Intron	NM_000045	NP_000036	P05089	ARGI1_HUMAN	arginase 1	235			G -> R (in ARGIN).		arginine catabolic process|urea cycle	cytosol	arginase activity			ovary(1)	1	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0106)|OV - Ovarian serous cystadenocarcinoma(155;0.0713)	L-Ornithine(DB00129)	TGATGTTGACGGACTGGACCC	0.408													45	78					0	0	0.01441	0	0		A	131904532	A	A	131904532	3	1	20	1	0	0	0	0	1	0	0	0	857	1117	39	1	729	1	ARG1	6	131904532	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2123100	131904532	39210535	629	17351											
TAAR6	319100	broad.mit.edu	37	chr6	132892319	132892319	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgatgcctttatgggctttAtaacccctgcctgtatttat	7	18	7	9	0	0	1	0	1	0	0	0	1	0	1	4	1	3	2	4	1	5	9			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:132892319A>G	uc011eck.1	+	1	859	c.859A>G	c.(859-861)ATA>GTA	p.I287V		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	287	Helical; Name=7; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		TATGGGCTTTATAACCCCTGC	0.373													84	111					0	0	0.01441	0	0		G	132892319	G	G	132892319	3	3	20	1	0	0	0	0	1	0	0	0	15517	449	16	3	861	3	TAAR6	6	132892319	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	987787	132892319	38222748	630	17352											
BCLAF1	9774	broad.mit.edu	37	chr6	136599456	136599456	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcatgttcaaatgtatctTtcggttcctcctgtgattta	7	18	8	8	1	3	1	2	1	1	0	6	1	5	1	2	2	0	3	2	2	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:136599456T>C	uc003qgx.1	-	4	816	c.563A>G	c.(562-564)AAA>AGA	p.K188R	BCLAF1_uc003qgw.1_Missense_Mutation_p.K188R|BCLAF1_uc003qgy.1_Missense_Mutation_p.K186R|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.K186R	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	188					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		AAATGTATCTTTCGGTTCCTC	0.413													47	519					0	0	0.01441	0	0		C	136599456	C	C	136599456	3	2	20	1	0	0	0	0	1	0	0	0	1384	1841	64	3	2239	3	BCLAF1	6	136599456	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3707137	136599456	34515611	631	17353											
KIAA1244	57221	broad.mit.edu	37	chr6	138584224	138584224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgggaaaccacaagaacaGtctcaagtcgccagccatcc	13	6	8	14	2	1	1	1	0	1	1	5	2	2	2	4	1	3	0	4	1	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:138584224G>A	uc003qhu.2	+	12	1604	c.1604G>A	c.(1603-1605)AGT>AAT	p.S535N		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	535					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CACAAGAACAGTCTCAAGTCG	0.557													8	30					0	0	0.00308	0	0		A	138584224	A	A	138584224	3	1	20	1	0	0	0	0	1	0	0	0	8233	1029	36	4	1650	4	KIAA1244	6	138584224	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1984768	138584224	32530843	632	17354											
TXLNB	167838	broad.mit.edu	37	chr6	139563773	139563773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggggctgcctactgggctCgcatgcaggcaccatggctg	5	8	16	12	1	0	0	0	0	0	0	1	0	0	0	2	5	3	6	2	5	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:139563773C>T	uc011eds.1	-	10	2110	c.1945G>A	c.(1945-1947)GAG>AAG	p.E649K		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	649						cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		CTACTGGGCTCGCATGCAGGC	0.652													54	79					0	0	0.01441	0	0		T	139563773	T	T	139563773	3	4	20	1	0	0	0	0	1	0	0	0	16814	893	31	1	113	1	TXLNB	6	139563773	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	979549	139563773	31551294	633	17355											
UTRN	7402	broad.mit.edu	37	chr6	144898277	144898277	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggaggctgagtggaggacGgtgcaggcctctcgcagaga	8	7	18	8	2	1	2	0	1	1	1	2	6	1	5	1	6	1	3	1	6	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:144898277G>A	uc003qkt.2	+	50	7424	c.7332G>A	c.(7330-7332)ACG>ACA	p.T2444T		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	2444	Spectrin 17.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		AGTGGAGGACGGTGCAGGCCT	0.498													44	38					0	0	0.01441	0	0		A	144898277	A	A	144898277	2	1	20	1	0	0	0	0	0	0	0	1	17129	1103	39	1		1	UTRN	6	144898277	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5334504	144898277	26216790	634	17356											
FBXO30	84085	broad.mit.edu	37	chr6	146127271	146127271	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatcgattccattccatagTacagcacaccacacttgcag	12	9	5	15	1	0	0	0	0	0	0	3	1	2	0	4	0	3	3	4	0	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:146127271T>C	uc003qla.2	-	2	470	c.271A>G	c.(271-273)ACT>GCT	p.T91A	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	91	TRAF-type.						ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		CATTCCATAGTACAGCACACC	0.423													7	540					0	0	0.006214	0	0		C	146127271	C	C	146127271	3	2	20	1	0	0	0	0	1	0	0	0	5754	1638	57	3	1974	3	FBXO30	6	146127271	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1228994	146127271	24987796	635	17357											
SHPRH	257218	broad.mit.edu	37	chr6	146247355	146247355	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attacctcttcctcaagtcgGccatcacgcaaggtaggtgg	9	10	10	12	2	3	0	2	0	1	0	5	0	4	0	3	4	1	2	3	4	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:146247355G>A	uc003qlf.2	-	16	3678	c.3279C>T	c.(3277-3279)GGC>GGT	p.G1093G	SHPRH_uc003qld.2_Silent_p.G1102G|SHPRH_uc003qle.2_Silent_p.G1102G|SHPRH_uc003qlg.1_Silent_p.G649G|SHPRH_uc003qlh.2_Silent_p.G18G|SHPRH_uc003qli.1_Silent_p.G18G	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	1093					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		CCTCAAGTCGGCCATCACGCA	0.378													37	162					0	0	0.006999	0	0		A	146247355	A	A	146247355	2	1	20	1	0	0	0	0	0	0	0	1	14316	1190	42	2		2	SHPRH	6	146247355	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	120084	146247355	24867712	636	17358											
GRM1	2911	broad.mit.edu	37	chr6	146755082	146755082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacagcatatgtggcaccGcctctctgtgcacgtgaaga	9	8	13	11	2	1	2	0	1	1	1	2	3	1	3	2	2	2	3	2	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:146755082G>A	uc010khw.1	+	9	3205	c.2735G>A	c.(2734-2736)CGC>CAC	p.R912H	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_Silent_p.P900P	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	912	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	ATGTGGCACCGCCTCTCTGTG	0.507													45	61					0	0	0.01441	0	0		A	146755082	A	A	146755082	3	1	20	1	0	0	0	0	1	0	0	0	6812	1087	38	1	2830	1	GRM1	6	146755082	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	507727	146755082	24359985	637	17359											
SUMO4	387082	broad.mit.edu	37	chr6	149721537	149721537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtgttcaccatggccaacGaaaagcccacagaagaagtc	14	5	10	12	2	1	2	1	0	0	2	2	3	1	2	3	2	2	1	3	2	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:149721537G>A	uc003qml.2	+	1	43	c.10G>A	c.(10-12)GAA>AAA	p.E4K	TAB2_uc011eec.1_Intron|TAB2_uc003qmj.2_Intron|TAB2_uc003qmk.3_Intron	NM_001002255	NP_001002255	Q6EEV6	SUMO4_HUMAN	SMT3 suppressor of mif two 3 homolog 4	4											0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;7.91e-12)|GBM - Glioblastoma multiforme(68;0.0282)		CATGGCCAACGAAAAGCCCAC	0.507													17	76					0	0	0.006122	0	0		A	149721537	A	A	149721537	3	1	20	1	0	0	0	0	1	0	0	0	15415	1059	37	1	12	1	SUMO4	6	149721537	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2966455	149721537	21393530	638	17360											
ULBP3	79465	broad.mit.edu	37	chr6	150385828	150385828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggctttgggttgagctaagCctggggccatggtgggtggt	4	12	19	6	0	0	1	0	1	0	0	0	1	0	1	2	7	2	3	2	7	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:150385828C>T	uc003qns.3	-	4	650	c.650G>A	c.(649-651)GGC>GAC	p.G217D	ULBP3_uc011eej.1_Missense_Mutation_p.G92D	NM_024518	NP_078794	Q9BZM4	N2DL3_HUMAN	UL16 binding protein 3 precursor	217					antigen processing and presentation|immune response|natural killer cell activation	anchored to membrane|MHC class I protein complex	MHC class I receptor activity				0		Ovarian(120;0.12)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.45e-12)		TTGAGCTAAGCCTGGGGCCAT	0.537													9	121					0	0	0.004482	0	0		T	150385828	T	T	150385828	3	4	20	1	0	0	0	0	1	0	0	0	17000	739	26	2	87	2	ULBP3	6	150385828	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	664291	150385828	20729239	639	17361											
MTHFD1L	25902	broad.mit.edu	37	chr6	151281413	151281413	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtttgggctggttcaggcGcagtttgacatcgcagtggc	5	12	16	8	2	1	1	1	1	0	0	2	1	1	1	0	4	0	6	0	4	0	3	rs146093887	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:151281413G>A	uc003qob.2	+	18	2074	c.1806G>A	c.(1804-1806)GCG>GCA	p.A602A	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Silent_p.A603A|MTHFD1L_uc003qoc.2_Silent_p.A550A	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	602	Formyltetrahydrofolate synthetase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		TGGTTCAGGCGCAGTTTGACA	0.612													33	62					0	0	0.005524	0	0		A	151281413	A	A	151281413	2	1	20	1	0	0	0	0	0	0	0	1	9946	1074	38	1		1	MTHFD1L	6	151281413	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	895585	151281413	19833654	640	17362											
AKAP12	9590	broad.mit.edu	37	chr6	151670579	151670579	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcctccgagaaactgacCgcctccgagcaagcccaccc	9	5	9	18	3	0	2	0	1	0	1	2	4	2	2	7	0	4	2	7	0	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:151670579C>T	uc011eep.1	+	4	1293	c.1053C>T	c.(1051-1053)ACC>ACT	p.T351T	AKAP12_uc003qoe.2_Silent_p.T351T|AKAP12_uc003qof.2_Silent_p.T253T|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Silent_p.T246T	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	351	Involved in PKC-binding (Probable).				G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		AGAAACTGACCGCCTCCGAGC	0.532													79	76					0	0	0.01441	0	0		T	151670579	T	T	151670579	2	4	20	1	0	0	0	0	0	0	0	1	448	639	23	1		1	AKAP12	6	151670579	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	389166	151670579	19444488	641	17363											
C6orf211	79624	broad.mit.edu	37	chr6	151775736	151775736	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accacagatcttaactaaggTtattgatacattgcatcgac	14	12	6	9	1	1	2	0	1	1	1	2	3	1	2	1	1	3	2	1	1	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:151775736T>C	uc003qok.1	+	2	354	c.95T>C	c.(94-96)GTT>GCT	p.V32A	C6orf211_uc011ees.1_Intron|RMND1_uc003qoi.2_5'Flank	NM_024573	NP_078849	Q9H993	CF211_HUMAN	hypothetical protein LOC79624	32							protein binding				0			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)		TTAACTAAGGTTATTGATACA	0.284													6	131					0	0	0.001168	0	0		C	151775736	C	C	151775736	3	2	20	1	0	0	0	0	1	0	0	0	2357	1725	60	3	101	3	C6orf211	6	151775736	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	105157	151775736	19339331	642	17364											
SYNE1	23345	broad.mit.edu	37	chr6	152782789	152782789	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacatttcttttccttcttcTtgggggctttctttggtaat	5	21	7	8	0	4	0	0	0	4	0	5	0	5	0	1	3	1	2	1	3	2	9			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:152782789T>C	uc010kiw.2	-	21	2939	c.2337A>G	c.(2335-2337)CAA>CAG	p.Q779Q	SYNE1_uc003qot.3_Silent_p.Q786Q|SYNE1_uc003qou.3_Silent_p.Q779Q|SYNE1_uc010kjb.1_Silent_p.Q762Q|SYNE1_uc003qow.2_Silent_p.Q74Q|SYNE1_uc003qox.1_Silent_p.Q295Q|SYNE1_uc003qoz.2_Silent_p.Q211Q|SYNE1_uc003qoy.2_Silent_p.Q346Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	779	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTCCTTCTTCTTGGGGGCTTT	0.423										HNSCC(10;0.0054)			5	203					0	0	0.001168	0	0		C	152782789	C	C	152782789	2	2	20	1	0	0	0	0	0	0	0	1	15470	1606	56	3		3	SYNE1	6	152782789	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1007053	152782789	18332278	643	17365											
MYCT1	80177	broad.mit.edu	37	chr6	153043068	153043068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggattttaccgccacagtGgctgtgaacgtcgaagcaac	10	9	11	11	3	0	1	0	1	0	0	1	3	0	2	2	2	4	2	2	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:153043068G>A	uc003qpd.3	+	2	396	c.388G>A	c.(388-390)GGC>AGC	p.G130S	MYCT1_uc010kjc.1_Intron|MYCT1_uc003qpc.3_Missense_Mutation_p.G130S	NM_025107	NP_079383	Q8N699	MYCT1_HUMAN	myc target 1	130						nucleus				ovary(1)	1		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;1.33e-10)|BRCA - Breast invasive adenocarcinoma(81;0.143)		CCGCCACAGTGGCTGTGAACG	0.507													23	87					0	0	0.005443	0	0		A	153043068	A	A	153043068	3	1	20	1	0	0	0	0	1	0	0	0	10040	1348	47	4	394	4	MYCT1	6	153043068	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	260279	153043068	18071999	644	17366											
TFB1M	51106	broad.mit.edu	37	chr6	155635562	155635562	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttttccggaggcagccaTgatacgcggcaagcaccatc	10	7	12	12	3	0	1	0	1	0	0	2	3	1	2	3	3	3	4	3	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:155635562T>C	uc003qqj.3	-	1	65	c.1A>G	c.(1-3)ATG>GTG	p.M1V	TFB1M_uc003qqk.2_RNA	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	1					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		GAGGCAGCCATGATACGCGGC	0.577													12	38					0	0	0.010504	0	0		C	155635562	C	C	155635562	3	2	20	1	0	0	0	0	1	0	0	0	15818	1464	51	3	1067	3	TFB1M	6	155635562	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2592494	155635562	15479505	645	17367											
ARID1B	57492	broad.mit.edu	37	chr6	157525016	157525016	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcagttactcctgaggcgtgGcgtgtgatgatgtcccttaa	7	13	12	9	2	1	3	1	3	0	0	3	3	3	3	2	2	1	1	2	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:157525016G>A	uc003qqn.2	+	19	5009	c.4857G>A	c.(4855-4857)TGG>TGA	p.W1619*	ARID1B_uc003qqo.2_Nonsense_Mutation_p.W1579*|ARID1B_uc003qqp.2_Nonsense_Mutation_p.W1566*	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1624					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		CTGAGGCGTGGCGTGTGATGA	0.403													43	826					0	0	0.00874	0	0		A	157525016	A	A	157525016	4	1	20	1	0	0	0	0	0	1	0	0	914	1212	42	2	4985	2	ARID1B	6	157525016	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1889454	157525016	13590051	646	17368											
C6orf35	729515	broad.mit.edu	37	chr6	157744464	157744464	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaaccaggaaaagccggTcattcgtggaccccggagcc	10	7	11	13	3	1	0	1	0	0	0	2	3	1	3	5	4	3	0	5	4	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:157744464T>A	uc003sih.3	-	1	331	c.68A>T	c.(67-69)GAC>GTC	p.D23V		NM_018452	NP_060922	Q9NWH2	CF035_HUMAN	hypothetical protein LOC729515	23						integral to membrane					0						GAAAAGCCGGTCATTCGTGGA	0.637													32	386					0	0	0.013726	0	0		A	157744464	A	A	157744464	3	1	20	1	0	0	0	0	1	0	0	0	2366	1667	58	5	373	5	C6orf35	6	157744464	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	219448	157744464	13370603	647	17369											
TULP4	56995	broad.mit.edu	37	chr6	158923938	158923938	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcgcccgcgaccgcacCgactacgtcaactcggcctt	8	5	10	18	7	1	0	1	0	0	0	2	3	1	0	4	1	3	1	4	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:158923938C>T	uc003qrf.2	+	13	4600	c.3243C>T	c.(3241-3243)ACC>ACT	p.T1081T	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	1081					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		GCGACCGCACCGACTACGTCA	0.682													23	111					0	0	0.003954	0	0		T	158923938	T	T	158923938	2	4	20	1	0	0	0	0	0	0	0	1	16802	639	23	1		1	TULP4	6	158923938	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1179474	158923938	12191129	648	17370											
RSPH3	83861	broad.mit.edu	37	chr6	159399367	159399367	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattagccatggaagaaatcCtatctcaatatctgtaataa	16	12	5	8	0	2	1	1	0	2	1	4	2	3	2	2	1	1	1	2	1	8	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:159399367C>A	uc003qrx.2	-	7	1487	c.1297G>T	c.(1297-1299)GGA>TGA	p.G433*	RSPH3_uc010kju.2_Nonsense_Mutation_p.G337*	NM_031924	NP_114130	Q86UC2	RSPH3_HUMAN	radial spoke 3 homolog	433										ovary(1)|skin(1)	2		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.36e-16)|BRCA - Breast invasive adenocarcinoma(81;5.92e-06)		GGAAGAAATCCTATCTCAATA	0.308													8	21					5.18039e-06	5.32689e-06	0.00308	1	0		A	159399367	A	A	159399367	4	1	20	1	0	0	0	0	0	1	0	0	13730	690	24	5	393	5	RSPH3	6	159399367	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	475429	159399367	11715700	649	17371											
IGF2R	3482	broad.mit.edu	37	chr6	160483631	160483631	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagaactgtggaagcctGtcccgttgtcagagtggaag	9	9	15	8	1	1	2	1	0	0	2	2	5	2	4	2	3	2	1	2	3	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:160483631G>T	uc003qta.2	+	26	3798	c.3650G>T	c.(3649-3651)TGT>TTT	p.C1217F		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1217	8.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GTGGAAGCCTGTCCCGTTGTC	0.458													45	40					1.54886e-18	1.65479e-18	0.01441	1	0		T	160483631	T	T	160483631	3	4	20	1	0	0	0	0	1	0	0	0	7592	1377	48	5	3752	5	IGF2R	6	160483631	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1084264	160483631	10631436	650	17372											
RPS6KA2	6196	broad.mit.edu	37	chr6	166833418	166833418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaactccagatgtcacacGccgcatcatagccttgacgc	11	7	7	16	3	2	2	2	1	0	1	3	2	3	2	4	0	2	1	4	0	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:166833418G>A	uc003qvb.1	-	18	1991	c.1772C>T	c.(1771-1773)GCG>GTG	p.A591V	RPS6KA2_uc011ego.1_Missense_Mutation_p.A502V|RPS6KA2_uc010kkl.1_Missense_Mutation_p.A502V|RPS6KA2_uc003qvc.1_Missense_Mutation_p.A599V|RPS6KA2_uc003qvd.1_Missense_Mutation_p.A616V|RPS6KA2_uc010kkk.1_Missense_Mutation_p.A23V	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	591	Protein kinase 2.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		GATGTCACACGCCGCATCATA	0.562													25	41					0	0	0.008361	0	0		A	166833418	A	A	166833418	3	1	20	1	0	0	0	0	1	0	0	0	13676	1087	38	1	445	1	RPS6KA2	6	166833418	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6349787	166833418	4281649	651	17373											
KIF25	3834	broad.mit.edu	37	chr6	168439368	168439368	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaagcgtgaggtggtgacAgccaaggatggacggacaga	12	5	17	7	2	1	3	1	2	0	1	1	6	1	6	1	5	2	0	1	5	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:168439368A>G	uc003qwk.1	+	5	715	c.453A>G	c.(451-453)ACA>ACG	p.T151T	KIF25_uc003qwl.1_Silent_p.T151T	NM_030615	NP_085118	Q9UIL4	KIF25_HUMAN	kinesin family member 25 isoform 1	151	Kinesin-motor.				microtubule-based movement|mitotic sister chromatid segregation	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(1)|pancreas(1)	2		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		AGGTGGTGACAGCCAAGGATG	0.552													50	145					0	0	0.01441	0	0		G	168439368	G	G	168439368	2	3	20	1	0	0	0	0	0	0	0	1	8309	175	7	3		3	KIF25	6	168439368	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1605950	168439368	2675699	652	17374											
TBP	6908	broad.mit.edu	37	chr6	170871119	170871119	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagcaacaggcagtggcaGctgcagccgttcagcagtca	11	5	13	12	1	2	0	2	0	0	0	2	0	2	0	1	2	7	8	1	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr6:170871119G>T	uc003qxt.2	+	3	527	c.295G>T	c.(295-297)GCT>TCT	p.A99S	TBP_uc003qxu.2_Missense_Mutation_p.A99S|TBP_uc011ehf.1_Missense_Mutation_p.A79S|TBP_uc011ehg.1_Missense_Mutation_p.A99S	NM_003194	NP_003185	P20226	TBP_HUMAN	TATA box binding protein	99					cell death|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription from RNA polymerase III promoter|viral reproduction	transcription factor TFIIA complex|transcription factor TFIID complex	repressing transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;1.07e-22)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00591)		ggcagtggcagctgcagcCGT	0.269													12	11					9.16793e-09	9.55767e-09	0.00499	1	0		T	170871119	T	T	170871119	3	4	20	1	0	0	0	0	1	0	0	0	15669	971	34	5	301	5	TBP	6	170871119	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2431751	170871119	243948	653	17375											
SUN1	23353	broad.mit.edu	37	chr7	892561	892561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggacgtgtttaaacccaCgacttctcgcctgaagcagc	10	8	9	14	3	1	1	0	1	1	0	2	3	1	2	3	1	3	2	3	1	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:892561C>T	uc011jvp.1	+	10	1104	c.1025C>T	c.(1024-1026)ACG>ATG	p.T342M	GET4_uc003sjj.1_RNA|SUN1_uc003sjf.2_Missense_Mutation_p.T259M|SUN1_uc011jvq.1_Missense_Mutation_p.T239M|SUN1_uc003sjg.2_Missense_Mutation_p.T247M|SUN1_uc011jvr.1_Missense_Mutation_p.T151M|SUN1_uc003sji.2_Missense_Mutation_p.T180M|SUN1_uc003sjk.2_Translation_Start_Site	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	369	Perinuclear space.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						TTTAAACCCACGACTTCTCGC	0.562													19	97					0	0	0.014323	0	0		T	892561	T	T	892561	3	4	20	1	0	0	0	0	1	0	0	0	15416	536	19	1	1242	1	SUN1	7	892561	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08		892561	158246102	654	17376											
ADAP1	11033	broad.mit.edu	37	chr7	938896	938896	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcccctcgggcgaaggcGtcctgtgggtggggaccgca	5	7	16	13	4	0	0	0	0	0	0	3	2	2	1	4	5	0	1	4	5	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:938896G>A	uc003sjo.3	-	10	1046	c.870C>T	c.(868-870)GAC>GAT	p.D290D	ADAP1_uc003sjm.3_Silent_p.D116D|ADAP1_uc011jvs.1_Silent_p.D195D|ADAP1_uc003sjn.3_Silent_p.D218D|ADAP1_uc010ksc.2_Silent_p.D218D	NM_006869	NP_006860	O75689	ADAP1_HUMAN	centaurin, alpha 1	290	PH 2.				cell surface receptor linked signaling pathway|regulation of ARF GTPase activity	cytoplasm|nucleus|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|protein binding|zinc ion binding			upper_aerodigestive_tract(1)	1						GGGCGAAGGCGTCCTGTGGGT	0.687													13	53					0	0	0.012319	0	0		A	938896	A	A	938896	2	1	20	1	0	0	0	0	0	0	0	1	279	1136	40	1		1	ADAP1	7	938896	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	46335	938896	158199767	655	17377											
INTS1	26173	broad.mit.edu	37	chr7	1535897	1535897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgatgtgcaccacgaagcGctcctgcaggtgcagcacgg	8	6	15	12	3	0	1	0	1	0	0	1	2	1	1	2	3	5	5	2	3	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:1535897G>A	uc003skn.2	-	12	1707	c.1606C>T	c.(1606-1608)CGC>TGC	p.R536C	INTS1_uc003skp.1_5'Flank	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	536					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		ACCACGAAGCGCTCCTGCAGG	0.642													24	58					0	0	0.014323	0	0		A	1535897	A	A	1535897	3	1	20	1	0	0	0	0	1	0	0	0	7791	1087	38	1	5114	1	INTS1	7	1535897	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	597001	1535897	157602766	656	17378											
INTS1	26173	broad.mit.edu	37	chr7	1538426	1538426	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagatgacgtccatgtcttcGgaaccgtgcgtgttgcagtt	7	12	13	9	4	1	2	0	1	1	1	3	4	2	3	2	1	3	3	2	1	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:1538426G>A	uc003skn.2	-	9	1301	c.1200C>T	c.(1198-1200)TCC>TCT	p.S400S	INTS1_uc003skq.2_Silent_p.S400S	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	400					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CCATGTCTTCGGAACCGTGCG	0.637													5	7					0	0	0.001168	0	0		A	1538426	A	A	1538426	2	1	20	1	0	0	0	0	0	0	0	1	7791	1103	39	1		1	INTS1	7	1538426	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2529	1538426	157600237	657	17379											
INTS1	26173	broad.mit.edu	37	chr7	1539893	1539893	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgctgtcaggcttggcGcgggtgaccttcagctgctt	4	11	16	10	2	2	1	2	1	0	0	2	1	2	1	1	4	3	4	1	4	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:1539893G>A	uc003skn.2	-	4	560	c.459C>T	c.(457-459)CGC>CGT	p.R153R	INTS1_uc003skq.2_Silent_p.R153R	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	153					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CAGGCTTGGCGCGGGTGACCT	0.632													5	8					0	0	0.001984	0	0		A	1539893	A	A	1539893	2	1	20	1	0	0	0	0	0	0	0	1	7791	1074	38	1		1	INTS1	7	1539893	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1467	1539893	157598770	658	17380											
CARD11	84433	broad.mit.edu	37	chr7	2979408	2979408	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatggactgcagctcctggTttttggtcttcagcatttca	6	16	10	9	0	3	1	2	1	1	0	4	2	4	2	1	3	3	4	1	3	0	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:2979408T>G	uc003smv.2	-	6	1243	c.839A>C	c.(838-840)AAC>ACC	p.N280T		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	280	Potential.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		CAGCTCCTGGTTTTTGGTCTT	0.557			Mis		DLBCL								47	176					0	0	0.01441	0	0		G	2979408	G	G	2979408	3	3	20	1	0	0	0	0	1	0	0	0	2648	1725	60	5	2705	5	CARD11	7	2979408	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1439515	2979408	156159255	659	17381											
SDK1	221935	broad.mit.edu	37	chr7	4213858	4213858	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgatgtctttgcagcctcCgagggacgaaagcctgaatg	9	10	13	9	2	1	2	0	2	1	0	2	5	2	3	3	1	3	1	3	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:4213858C>A	uc003smx.2	+	33	4944	c.4805C>A	c.(4804-4806)CCG>CAG	p.P1602Q	SDK1_uc010kso.2_Missense_Mutation_p.P878Q|SDK1_uc003smy.2_Missense_Mutation_p.P89Q	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1602	Fibronectin type-III 10.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TTGCAGCCTCCGAGGGACGAA	0.577													86	408					8.78091e-33	9.48716e-33	0.01441	1	0		A	4213858	A	A	4213858	3	1	20	1	0	0	0	0	1	0	0	0	13993	652	23	5	4935	5	SDK1	7	4213858	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1234450	4213858	154924805	660	17382											
WIPI2	26100	broad.mit.edu	37	chr7	5267842	5267842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccctgatgaagcagcaccGgtgagtctgctccggccgct	6	8	13	14	3	1	3	0	3	1	0	2	3	2	3	4	2	4	4	4	2	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:5267842G>A	uc003snv.2	+	11	1337	c.1121G>A	c.(1120-1122)CGG>CAG	p.R374Q	WIPI2_uc003snw.2_Missense_Mutation_p.R374Q|WIPI2_uc003snx.2_Missense_Mutation_p.R356Q|WIPI2_uc003sny.2_Missense_Mutation_p.R356Q|WIPI2_uc010ksv.2_Missense_Mutation_p.R230Q|WIPI2_uc003soa.2_Missense_Mutation_p.R315Q|WIPI2_uc003sob.2_Missense_Mutation_p.R117Q	NM_015610	NP_056425	Q9Y4P8	WIPI2_HUMAN	WD repeat domain, phosphoinositide interacting 2	374					autophagic vacuole assembly	cytosol|PAS complex|pre-autophagosomal structure membrane	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding			ovary(2)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0925)|OV - Ovarian serous cystadenocarcinoma(56;2.59e-14)		AAGCAGCACCGGTGAGTCTGC	0.627													8	22					0	0	0.006214	0	0		A	5267842	A	A	5267842	3	1	20	1	0	0	0	0	1	0	0	0	17397	1130	39	1	1197	1	WIPI2	7	5267842	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1053984	5267842	153870821	661	17383											
FSCN1	6624	broad.mit.edu	37	chr7	5632671	5632671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcgggttcaaggtgaacgCgtccgccagcagcctgaaga	9	7	14	11	4	1	3	1	2	0	1	3	3	2	3	3	2	3	3	3	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:5632671C>T	uc003sou.2	+	1	218	c.104C>T	c.(103-105)GCG>GTG	p.A35V		NM_003088	NP_003079	Q16658	FSCN1_HUMAN	fascin 1	35					actin filament bundle assembly|cell migration|cell proliferation	cell junction|cytoplasm|filopodium|invadopodium|stress fiber	actin filament binding|drug binding|protein binding, bridging			ovary(1)	1		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;1.21e-13)		AAGGTGAACGCGTCCGCCAGC	0.677													5	14					0	0	0.000602	0	0		T	5632671	T	T	5632671	3	4	20	1	0	0	0	0	1	0	0	0	6081	768	27	1	106	1	FSCN1	7	5632671	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	364829	5632671	153505992	662	17384											
USP42	84132	broad.mit.edu	37	chr7	6189801	6189801	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagaacccatgaccctaaaCggtgctaatagtgcagacag	15	6	9	11	1	0	3	0	1	0	2	0	3	0	3	2	1	4	2	2	1	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:6189801C>T	uc011jwo.1	+	13	2097	c.1974C>T	c.(1972-1974)AAC>AAT	p.N658N	USP42_uc010kth.1_Silent_p.N591N|USP42_uc011jwp.1_Silent_p.N658N|USP42_uc011jwq.1_Silent_p.N465N|USP42_uc011jwr.1_Silent_p.N503N	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	658					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		TGACCCTAAACGGTGCTAATA	0.567													11	52					0	0	0.010729	0	0		T	6189801	T	T	6189801	2	4	20	1	0	0	0	0	0	0	0	1	17099	535	19	1		1	USP42	7	6189801	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	557130	6189801	152948862	663	17385											
THSD7A	221981	broad.mit.edu	37	chr7	11514158	11514158	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctcattacagcttcgtacTtcttgcaaagcactgctatt	9	15	6	11	1	2	0	1	0	1	0	3	0	2	0	0	0	7	6	0	0	4	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:11514158T>G	uc003ssf.3	-	8	2307	c.2055A>C	c.(2053-2055)GAA>GAC	p.E685D		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	685	TSP type-1 6.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		AGCTTCGTACTTCTTGCAAAG	0.468										HNSCC(18;0.044)			13	40					0	0	0.001855	0	0		G	11514158	G	G	11514158	3	3	20	1	0	0	0	0	1	0	0	0	15904	1606	56	5	2998	5	THSD7A	7	11514158	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	5324357	11514158	147624505	664	17386											
AHR	196	broad.mit.edu	37	chr7	17374530	17374530	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggaagaattgttttaggaTatactgaagcagagctgtgc	13	11	13	4	0	0	3	0	1	0	2	0	6	0	5	0	2	4	3	0	2	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:17374530T>C	uc011jxz.1	+	8	1541	c.928T>C	c.(928-930)TAT>CAT	p.Y310H	AHR_uc003stt.3_RNA	NM_001621	NP_001612	P35869	AHR_HUMAN	aryl hydrocarbon receptor precursor	310	PAS 2.				apoptosis|blood vessel development|cell cycle|regulation of B cell proliferation|response to stress|transcription from RNA polymerase II promoter|xenobiotic metabolic process	cytosolic aryl hydrocarbon receptor complex|transcription factor complex	Hsp90 protein binding|ligand-dependent nuclear receptor activity|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			urinary_tract(1)|kidney(1)|pancreas(1)	3	Lung NSC(10;0.0392)|all_lung(11;0.0754)					TGTTTTAGGATATACTGAAGC	0.328													33	165					0	0	0.003755	0	0		C	17374530	C	C	17374530	3	2	20	1	0	0	0	0	1	0	0	0	416	1406	49	3	958	3	AHR	7	17374530	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	5860372	17374530	141764133	665	17387											
TWISTNB	221830	broad.mit.edu	37	chr7	19739896	19739896	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctagaagacactttattaActataccctgggaagaagaa	16	9	9	7	0	0	4	0	0	0	4	0	5	0	5	1	2	2	1	1	2	9	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:19739896A>G	uc003sup.1	-	3	425	c.404T>C	c.(403-405)GTT>GCT	p.V135A		NM_001002926	NP_001002926	Q3B726	RPA43_HUMAN	TWIST neighbor	135						microtubule cytoskeleton|nucleolus	DNA-directed RNA polymerase activity			ovary(1)	1						CACTTTATTAACTATACCCTG	0.403													4	88					0	0	0.000602	0	0		G	19739896	G	G	19739896	3	3	20	1	0	0	0	0	1	0	0	0	16810	43	2	3	620	3	TWISTNB	7	19739896	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2365366	19739896	139398767	666	17388											
MACC1	346389	broad.mit.edu	37	chr7	20198704	20198704	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaatcttgtggcttgtcaAgtaaaaatgactgcttcccc	11	14	7	9	0	2	1	1	1	1	0	3	1	3	1	2	1	1	3	2	1	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:20198704A>G	uc003sus.3	-	5	1589	c.1280T>C	c.(1279-1281)CTT>CCT	p.L427P	MACC1_uc010kug.2_Missense_Mutation_p.L427P	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	427					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						TGGCTTGTCAAGTAAAAATGA	0.348													8	60					0	0	0.004482	0	0		G	20198704	G	G	20198704	3	3	20	1	0	0	0	0	1	0	0	0	9161	72	3	3	1290	3	MACC1	7	20198704	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	458808	20198704	138939959	667	17389											
DNAH11	8701	broad.mit.edu	37	chr7	21818688	21818688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagacggagaaagtgagccGggaaaagaccatcgctgatg	14	5	14	8	3	1	5	1	2	0	3	2	7	1	6	2	2	1	1	2	2	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:21818688G>A	uc003svc.2	+	58	9501	c.9470G>A	c.(9469-9471)CGG>CAG	p.R3157Q		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3157	Stalk (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AAAGTGAGCCGGGAAAAGACC	0.478									Kartagener_syndrome				8	55					0	0	0.004482	0	0		A	21818688	A	A	21818688	3	1	20	1	0	0	0	0	1	0	0	0	4605	1116	39	1	9697	1	DNAH11	7	21818688	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1619984	21818688	137319975	668	17390											
HIBADH	11112	broad.mit.edu	37	chr7	27672063	27672063	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctgctggggaagatactAcctttaaaaaaaattgcaaa	17	10	7	7	0	1	1	0	0	1	1	1	2	1	2	1	2	4	2	1	2	8	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:27672063A>G	uc003szf.2	-	3	449	c.254T>C	c.(253-255)GTA>GCA	p.V85A	HIBADH_uc003szg.2_Missense_Mutation_p.V36A|HIBADH_uc003szh.2_5'UTR|HIBADH_uc003szi.2_Missense_Mutation_p.V36A	NM_152740	NP_689953	P31937	3HIDH_HUMAN	3-hydroxyisobutyrate dehydrogenase precursor	85					branched chain family amino acid catabolic process|pentose-phosphate shunt|valine metabolic process	mitochondrial matrix	3-hydroxyisobutyrate dehydrogenase activity|NAD binding|phosphogluconate dehydrogenase (decarboxylating) activity			ovary(2)	2			GBM - Glioblastoma multiforme(3;0.0368)		NADH(DB00157)	GGAAGATACTACCTTTAAAAA	0.373													4	152					0	0	0.009096	0	0		G	27672063	G	G	27672063	3	3	20	1	0	0	0	0	1	0	0	0	7115	405	14	3	780	3	HIBADH	7	27672063	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	5853375	27672063	131466600	669	17391											
CHN2	1124	broad.mit.edu	37	chr7	29552299	29552299	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccctgcatgatatgcggtAccaaaagctgattgtgcaga	12	9	10	10	1	0	3	0	2	0	1	0	3	0	3	2	1	5	4	2	1	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:29552299A>G	uc003szz.2	+	13	1792	c.1355A>G	c.(1354-1356)TAC>TGC	p.Y452C	CHN2_uc011jzs.1_Missense_Mutation_p.Y527C|CHN2_uc010kva.2_3'UTR|CHN2_uc010kvb.2_RNA|CHN2_uc010kvc.2_Missense_Mutation_p.Y417C|CHN2_uc011jzt.1_Missense_Mutation_p.Y465C|CHN2_uc010kvd.2_Missense_Mutation_p.Y308C|CHN2_uc011jzu.1_Missense_Mutation_p.Y437C|CHN2_uc010kvg.2_Missense_Mutation_p.Y270C|CHN2_uc010kvh.2_Missense_Mutation_p.Y212C|CHN2_uc010kvi.2_Missense_Mutation_p.Y244C|CHN2_uc010kve.2_3'UTR|CHN2_uc003taa.2_Missense_Mutation_p.Y316C|CHN2_uc010kvf.2_Missense_Mutation_p.Y258C|CHN2_uc010kvj.2_Missense_Mutation_p.Y225C|CHN2_uc010kvk.2_Missense_Mutation_p.Y127C|CHN2_uc010kvl.2_RNA|CHN2_uc010kvm.2_Missense_Mutation_p.Y271C|CHN2_uc011jzv.1_Missense_Mutation_p.Y245C	NM_004067	NP_004058	P52757	CHIO_HUMAN	beta chimerin isoform 2	452	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|membrane	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)	2						GATATGCGGTACCAAAAGCTG	0.473													4	93					0	0	0.000602	0	0		G	29552299	G	G	29552299	3	3	20	1	0	0	0	0	1	0	0	0	3366	391	14	3	1573	3	CHN2	7	29552299	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1880236	29552299	129586364	670	17392											
GARS	2617	broad.mit.edu	37	chr7	30671954	30671954	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggactgatgagattggCgtggcttttggtgtcaccat	7	12	14	8	1	1	2	1	2	0	1	1	4	1	3	2	4	0	1	2	4	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:30671954C>T	uc003tbm.2	+	16	2352	c.1995C>T	c.(1993-1995)GGC>GGT	p.G665G		NM_002047	NP_002038	P41250	SYG_HUMAN	glycyl-tRNA synthetase	665					cell death|diadenosine tetraphosphate biosynthetic process|glycyl-tRNA aminoacylation	cytosol|mitochondrial matrix|soluble fraction	ATP binding|glycine-tRNA ligase activity|protein dimerization activity			ovary(1)	1					Glycine(DB00145)	ATGAGATTGGCGTGGCTTTTG	0.527													31	95					0	0	0.003271	0	0		T	30671954	T	T	30671954	2	4	20	1	0	0	0	0	0	0	0	1	6257	755	27	1		1	GARS	7	30671954	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1119655	30671954	128466709	671	17393											
BBS9	27241	broad.mit.edu	37	chr7	33545142	33545142	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagtcattcaccaggctgaAgagtgccacccatttggtga	10	9	10	12	0	2	3	2	2	0	1	2	3	2	3	4	2	1	1	4	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:33545142A>C	uc003tdn.1	+	20	2696	c.2183A>C	c.(2182-2184)AAG>ACG	p.K728T	BBS9_uc003tdo.1_Missense_Mutation_p.K693T|BBS9_uc003tdp.1_Missense_Mutation_p.K723T|BBS9_uc003tdq.1_Missense_Mutation_p.K688T|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Missense_Mutation_p.K252T|BBS9_uc003tds.1_Missense_Mutation_p.K151T|BBS9_uc003tdt.2_RNA	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	728					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			ACCAGGCTGAAGAGTGCCACC	0.483									Bardet-Biedl_syndrome				35	226					0	0	0.004878	0	0		C	33545142	C	C	33545142	3	2	20	1	0	0	0	0	1	0	0	0	1343	72	3	5	2257	5	BBS9	7	33545142	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2873188	33545142	125593521	672	17394											
TBX20	57057	broad.mit.edu	37	chr7	35289643	35289643	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtctccaggctgcaggcAattttggccatttcctcact	6	14	9	12	0	2	0	1	0	1	0	4	0	3	0	3	4	1	3	3	4	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:35289643A>G	uc011kas.1	-	2	311	c.300T>C	c.(298-300)ATT>ATC	p.I100I		NM_001077653	NP_001071121	Q9UMR3	TBX20_HUMAN	T-box transcription factor TBX20	100						nucleus	DNA binding			central_nervous_system(1)	1						GGCTGCAGGCAATTTTGGCCA	0.582													4	78					0	0	0.009096	0	0		G	35289643	G	G	35289643	2	3	20	1	0	0	0	0	0	0	0	1	15681	126	5	3		3	TBX20	7	35289643	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1744501	35289643	123849020	673	17395											
EEPD1	80820	broad.mit.edu	37	chr7	36194770	36194770	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagaaggccaacaacccCggggtgcgagaggtggtgtg	9	5	19	8	2	0	2	0	0	0	2	0	4	0	2	3	6	3	0	3	6	3	0	rs143445715		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:36194770C>T	uc003tfa.2	+	2	1477	c.837C>T	c.(835-837)CCC>CCT	p.P279P		NM_030636	NP_085139	Q7L9B9	EEPD1_HUMAN	endonuclease/exonuclease/phosphatase family	279					DNA repair		DNA binding				0						CCAACAACCCCGGGGTGCGAG	0.607													6	54					0	0	0.001984	0	0		T	36194770	T	T	36194770	2	4	20	1	0	0	0	0	0	0	0	1	4938	639	23	1		1	EEPD1	7	36194770	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	905127	36194770	122943893	674	17396											
ELMO1	9844	broad.mit.edu	37	chr7	37264616	37264616	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgagatgtctatggctgacTtgttcacaaaacttgctatc	10	14	8	9	1	2	2	1	1	1	1	4	3	2	2	0	1	2	3	0	1	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:37264616T>G	uc003tfk.1	-	9	876	c.569A>C	c.(568-570)AAG>ACG	p.K190T	ELMO1_uc011kbc.1_Missense_Mutation_p.K94T|ELMO1_uc010kxg.1_Missense_Mutation_p.K190T	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	190					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						TATGGCTGACTTGTTCACAAA	0.478													12	36					0	0	0.013537	0	0		G	37264616	G	G	37264616	3	3	20	1	0	0	0	0	1	0	0	0	5073	1609	56	5	1670	5	ELMO1	7	37264616	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1069846	37264616	121874047	675	17397											
TARP	445347	broad.mit.edu	37	chr7	38305159	38305159	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgccaatgtatcttaataAcatcagggaaaaatttctca	15	13	5	8	0	3	0	2	0	2	0	4	1	3	1	1	1	2	1	1	1	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:38305159A>T	uc003tge.1	-	5	925	c.548T>A	c.(547-549)GTT>GAT	p.V183D	uc003tfz.1_Intron|TARP_uc003tgb.2_5'UTR|TARP_uc003tgc.1_5'UTR|TARP_uc003tgd.1_5'UTR|TARP_uc010kxi.1_RNA|TARP_uc003tgf.1_RNA|TARP_uc003tgj.1_RNA|TARP_uc003tgh.1_RNA|TARP_uc003tgi.1_RNA|TARP_uc003tgg.1_RNA			A2JGV3	A2JGV3_HUMAN	Homo sapiens TCRgamma alternate reading frame protein (TCRg) mRNA, complete cds.	Error:Variant_position_missing_in_A2JGV3_after_alignment											0						TATCTTAATAACATCAGGGAA	0.418													65	539					0	0	0.01441	0	0		T	38305159	T	T	38305159	3	4	20	1	0	0	0	0	1	0	0	0	15583	40	2	5	411	5	TARP	7	38305159	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1040543	38305159	120833504	676	17398											
AMPH	273	broad.mit.edu	37	chr7	38505777	38505777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatcgtcatgactcaccaccGcaatttccttatgaaacttg	11	13	5	12	2	2	2	2	2	0	0	4	2	3	2	3	0	1	1	3	0	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:38505777G>A	uc003tgu.2	-	8	731	c.662C>T	c.(661-663)GCG>GTG	p.A221V	AMPH_uc003tgv.2_Missense_Mutation_p.A221V|AMPH_uc003tgt.2_5'Flank	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	221	BAR.				endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						ACTCACCACCGCAATTTCCTT	0.353													25	88					0	0	0.008361	0	0		A	38505777	A	A	38505777	3	1	20	1	0	0	0	0	1	0	0	0	588	1087	38	1	1481	1	AMPH	7	38505777	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	200618	38505777	120632886	677	17399											
C7orf10	79783	broad.mit.edu	37	chr7	40900046	40900046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatcggggagctgctcagcGctggagtggtggaccaacat	8	7	15	11	2	1	0	1	0	0	0	2	3	1	3	2	5	4	3	2	5	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:40900046G>A	uc003thn.1	+	14	1330	c.1285G>A	c.(1285-1287)GCT>ACT	p.A429T	C7orf10_uc003thm.1_Missense_Mutation_p.A425T|C7orf10_uc003tho.1_Missense_Mutation_p.A381T|C7orf10_uc003thp.1_RNA	NM_024728	NP_079004	Q9HAC7	CG010_HUMAN	dermal papilla derived protein 13	436							transferase activity			ovary(2)	2						GCTGCTCAGCGCTGGAGTGGT	0.572													41	101					0	0	0.00623	0	0		A	40900046	A	A	40900046	3	1	20	1	0	0	0	0	1	0	0	0	2379	1087	38	1	1331	1	C7orf10	7	40900046	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2394269	40900046	118238617	678	17400											
GLI3	2737	broad.mit.edu	37	chr7	42005569	42005569	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctccgcggacgtggccatCgccggggggttgcagctgct	3	9	16	13	5	1	0	0	0	1	0	3	1	1	1	3	5	3	4	3	5	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:42005569C>T	uc011kbh.1	-	15	3193	c.3102G>A	c.(3100-3102)GCG>GCA	p.A1034A	GLI3_uc011kbg.1_Silent_p.A975A	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1034					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						ACGTGGCCATCGCCGGGGGGT	0.701									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				15	39					0	0	0.012319	0	0		T	42005569	T	T	42005569	2	4	20	1	0	0	0	0	0	0	0	1	6454	871	31	1		1	GLI3	7	42005569	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1105523	42005569	117133094	679	17401											
GLI3	2737	broad.mit.edu	37	chr7	42007444	42007444	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcggtcagaggaagctcgagCccactgttggaatagttgct	9	10	13	9	2	1	1	1	0	0	1	3	4	1	3	1	3	3	4	1	3	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:42007444C>T	uc011kbh.1	-	14	2272	c.2181G>A	c.(2179-2181)GGG>GGA	p.G727G	GLI3_uc011kbg.1_Silent_p.G668G	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	727			G -> R (in PAPA1 and PAPB).		negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GAAGCTCGAGCCCACTGTTGG	0.537									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				23	163					0	0	0.013726	0	0		T	42007444	T	T	42007444	2	4	20	1	0	0	0	0	0	0	0	1	6454	726	26	2		2	GLI3	7	42007444	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1875	42007444	117131219	680	17402											
PGAM2	5224	broad.mit.edu	37	chr7	44105024	44105024	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccccgcttggcctcctcGgtccccttttcactcagctc	2	12	7	20	2	2	0	2	0	0	0	7	0	5	0	6	2	1	3	6	2	0	3	rs147733064		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:44105024G>A	uc003tjs.2	-	1	140	c.105C>T	c.(103-105)ACC>ACT	p.T35T		NM_000290	NP_000281	P15259	PGAM2_HUMAN	phosphoglycerate mutase 2	35					gluconeogenesis|glycolysis|striated muscle contraction	cytosol	2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity				0						TGGCCTCCTCGGTCCCCTTTT	0.607													20	72					0	0	0.008871	0	0		A	44105024	A	A	44105024	2	1	20	1	0	0	0	0	0	0	0	1	11793	1103	39	1		1	PGAM2	7	44105024	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2097580	44105024	115033639	681	17403											
NPC1L1	29881	broad.mit.edu	37	chr7	44553055	44553055	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctctggctgtatcagaactgCcgcccattgttgggcaagaa	9	10	11	11	1	2	2	1	0	1	2	2	2	2	2	2	2	2	4	2	2	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:44553055C>T	uc003tlb.2	-	20	4127	c.4071G>A	c.(4069-4071)CGG>CGA	p.R1357R	NPC1L1_uc003tlc.2_Silent_p.R1330R|NPC1L1_uc011kbw.1_Silent_p.R1284R|NPC1L1_uc003tla.2_3'UTR	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	1357	Cytoplasmic (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	ATCAGAACTGCCGCCCATTGT	0.537													20	90					0	0	0.010504	0	0		T	44553055	T	T	44553055	2	4	20	1	0	0	0	0	0	0	0	1	10590	726	26	2		2	NPC1L1	7	44553055	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	448031	44553055	114585608	682	17404											
OGDH	4967	broad.mit.edu	37	chr7	44664027	44664027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattttcacaaaacagaccaGcagcagctaggacatttcaa	16	8	6	11	0	2	1	2	0	0	1	2	2	2	2	1	1	4	3	1	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:44664027G>A	uc003tln.2	+	2	194	c.85G>A	c.(85-87)GCA>ACA	p.A29T	OGDH_uc003tlm.2_Missense_Mutation_p.A29T|OGDH_uc011kbx.1_Missense_Mutation_p.A29T|OGDH_uc011kby.1_Missense_Mutation_p.A29T|OGDH_uc003tlp.2_Missense_Mutation_p.A29T|OGDH_uc011kbz.1_5'UTR	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	29					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	AAACAGACCAGCAGCAGCTAG	0.448													75	219					0	0	0.01441	0	0		A	44664027	A	A	44664027	3	1	20	1	0	0	0	0	1	0	0	0	10858	971	34	2	87	2	OGDH	7	44664027	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	110972	44664027	114474636	683	17405											
RAMP3	10268	broad.mit.edu	37	chr7	45216981	45216981	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctgtgtgggaaggctttCgcagacatgatgggcaaggt	8	9	15	9	1	0	2	0	1	0	1	1	3	0	3	2	4	0	3	2	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:45216981C>T	uc003tnb.2	+	2	193	c.132C>T	c.(130-132)TTC>TTT	p.F44F	RAMP3_uc003tnc.2_Silent_p.F12F	NM_005856	NP_005847	O60896	RAMP3_HUMAN	receptor activity modifying protein 3 precursor	44	Extracellular (Potential).				intracellular protein transport|receptor-mediated endocytosis|regulation of G-protein coupled receptor protein signaling pathway	integral to plasma membrane|lysosome	protein transporter activity				0					Pramlintide(DB01278)	GGAAGGCTTTCGCAGACATGA	0.592													18	65					0	0	0.006122	0	0		T	45216981	T	T	45216981	2	4	20	1	0	0	0	0	0	0	0	1	13048	883	31	1		1	RAMP3	7	45216981	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	552954	45216981	113921682	684	17406											
ADCY1	107	broad.mit.edu	37	chr7	45701761	45701761	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcactgccggaaaatgtTcaaggccgagatccccttct	10	9	9	13	2	2	1	1	0	1	1	3	3	3	2	4	2	2	2	4	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:45701761T>C	uc003tne.3	+	8	1571	c.1553T>C	c.(1552-1554)TTC>TCC	p.F518S	ADCY1_uc003tnd.2_Missense_Mutation_p.F293S	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	518	Interaction with calmodulin (By similarity).|Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CGGAAAATGTTCAAGGCCGAG	0.537													3	58					0	0	0.004672	0	0		C	45701761	C	C	45701761	3	2	20	1	0	0	0	0	1	0	0	0	292	1783	62	3	1583	3	ADCY1	7	45701761	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	484780	45701761	113436902	685	17407											
ABCA13	154664	broad.mit.edu	37	chr7	48682920	48682920	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagtcaaagtttggctctgTaaggaagcaaatcaacattg	15	10	9	7	0	3	0	2	0	1	0	3	1	3	1	0	2	2	4	0	2	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:48682920T>C	uc003toq.2	+	60	14899	c.14874T>C	c.(14872-14874)TGT>TGC	p.C4958C	ABCA13_uc010kys.1_Silent_p.C2033C|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Silent_p.C688C	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4958					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TTTGGCTCTGTAAGGAAGCAA	0.318													59	255					0	0	0.01441	0	0		C	48682920	C	C	48682920	2	2	20	1	0	0	0	0	0	0	0	1	31	1644	57	3		3	ABCA13	7	48682920	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2981159	48682920	110455743	686	17408											
COBL	23242	broad.mit.edu	37	chr7	51096403	51096403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctggattctgcgtctgcgtgGgcacaggggtggaggggggt	4	9	21	7	2	2	0	0	0	2	0	2	2	2	2	0	8	2	1	0	8	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:51096403G>A	uc003tpr.3	-	10	2575	c.2390C>T	c.(2389-2391)CCC>CTC	p.P797L	COBL_uc003tps.2_Missense_Mutation_p.P854L|COBL_uc011kcl.1_Missense_Mutation_p.P797L|COBL_uc003tpp.3_Missense_Mutation_p.P583L|COBL_uc003tpq.3_Missense_Mutation_p.P738L|COBL_uc003tpo.3_Missense_Mutation_p.P339L	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	797										skin(3)|ovary(2)	5	Glioma(55;0.08)					CGTCTGCGTGGGCACAGGGGT	0.612													13	83					0	0	0.001855	0	0		A	51096403	A	A	51096403	3	1	20	1	0	0	0	0	1	0	0	0	3656	1232	43	4	1411	4	COBL	7	51096403	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2413483	51096403	108042260	687	17409											
ZNF138	7697	broad.mit.edu	37	chr7	64275419	64275419	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actacagaaacctggttttcTtgggtgagaataacttcagt	12	13	9	7	0	2	2	1	1	1	2	2	3	2	2	1	2	3	1	1	2	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:64275419T>C	uc011kdp.1	+	2	303	c.127T>C	c.(127-129)TTG>CTG	p.L43L	ZNF138_uc003ttg.2_5'UTR|ZNF138_uc011kdq.1_Silent_p.L43L|ZNF138_uc003tth.2_Intron|ZNF138_uc010kzs.2_Silent_p.L37L	NM_001160183	NP_001153655	B4DFX2	B4DFX2_HUMAN	zinc finger protein 138 isoform 2	43					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding				0		Lung NSC(55;0.0795)|all_lung(88;0.18)				CCTGGTTTTCTTGGGTGAGAA	0.383													45	134					0	0	0.013114	0	0		C	64275419	C	C	64275419	2	2	20	1	0	0	0	0	0	0	0	1	17752	1606	56	3		3	ZNF138	7	64275419	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	13179016	64275419	94863244	688	17410											
AUTS2	26053	broad.mit.edu	37	chr7	69064858	69064858	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcccggcccagacccccGcggaggaagcggagagagtc	8	2	15	16	5	0	2	0	0	0	2	2	6	1	5	5	4	1	0	5	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:69064858G>A	uc003tvw.3	+	1	962	c.219G>A	c.(217-219)CCG>CCA	p.P73P	AUTS2_uc003tvv.3_Silent_p.P73P|AUTS2_uc003tvx.3_Silent_p.P73P	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	73										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CCAGACCCCCGCGGAGGAAGC	0.562													10	25					0	0	0.013537	0	0		A	69064858	A	A	69064858	2	1	20	1	0	0	0	0	0	0	0	1	1226	1074	38	1		1	AUTS2	7	69064858	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4789439	69064858	90073805	689	17411											
AUTS2	26053	broad.mit.edu	37	chr7	70254984	70254984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacggccacgaggggcgcGccgcgggcgaagaggccaag	8	0	20	13	7	0	1	0	0	0	1	0	3	0	1	3	6	0	1	3	6	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:70254984G>A	uc003tvw.3	+	19	3525	c.2782G>A	c.(2782-2784)GCC>ACC	p.A928T	AUTS2_uc003tvx.3_Missense_Mutation_p.A904T|AUTS2_uc011keg.1_Missense_Mutation_p.A380T	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	928										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CGAGGGGCGCGCCGCGGGCGA	0.716													4	18					0	0	0.009096	0	0		A	70254984	A	A	70254984	3	1	20	1	0	0	0	0	1	0	0	0	1226	1087	38	1	3001	1	AUTS2	7	70254984	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1190126	70254984	88883679	690	17412											
TYW1B	441250	broad.mit.edu	37	chr7	72267523	72267523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcttcactggagctctcGaagggttcttcctcctggaa	6	14	9	12	1	5	0	1	0	4	0	8	3	7	2	2	3	1	2	2	3	2	4	rs138229913	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:72267523G>A	uc011kej.1	-	6	897	c.738C>T	c.(736-738)TTC>TTT	p.F246F	TYW1B_uc011keh.1_Silent_p.F84F|TYW1B_uc011kek.1_RNA	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform	246					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						TGGAGCTCTCGAAGGGTTCTT	0.448													4	107					0	0	0.009096	0	0		A	72267523	A	A	72267523	2	1	20	1	0	0	0	0	0	0	0	1	16845	1049	37	1		1	TYW1B	7	72267523	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2012539	72267523	86871140	691	17413											
NSUN5	55695	broad.mit.edu	37	chr7	72722714	72722714	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaagttgctggagtacAccaaccccttgatagagccc	10	8	10	13	0	0	2	0	1	0	1	0	4	0	4	5	2	4	3	5	2	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:72722714A>G	uc003txw.2	-	1	110	c.74T>C	c.(73-75)GTG>GCG	p.V25A	FKBP6_uc003twz.2_Intron|NSUN5_uc003txv.2_Missense_Mutation_p.V25A|NSUN5_uc003txx.2_Missense_Mutation_p.V25A|NSUN5_uc011kev.1_Missense_Mutation_p.V25A	NM_018044	NP_060514	Q96P11	NSUN5_HUMAN	NOL1/NOP2/Sun domain family, member 5 isoform 2	25							methyltransferase activity				0		Lung NSC(55;0.163)				GCTGGAGTACACCAACCCCTT	0.677													21	98					0	0	0.00632	0	0		G	72722714	G	G	72722714	3	3	20	1	0	0	0	0	1	0	0	0	10700	159	6	3	1387	3	NSUN5	7	72722714	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	455191	72722714	86415949	692	17414											
WBSCR22	114049	broad.mit.edu	37	chr7	73107983	73107983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcttgttttctgggccttCgacctttataccagaggtga	6	15	10	10	1	1	2	0	1	1	1	2	3	1	2	3	2	2	2	3	2	2	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:73107983C>T	uc003tyt.2	+	9	684	c.626C>T	c.(625-627)TCG>TTG	p.S209L	WBSCR22_uc010lbi.1_RNA|WBSCR22_uc003tyu.2_Missense_Mutation_p.S209L|WBSCR22_uc003tyv.2_Missense_Mutation_p.S171L|WBSCR22_uc003tyw.1_Missense_Mutation_p.S72L	NM_017528	NP_059998	O43709	WBS22_HUMAN	Williams Beuren syndrome chromosome region 22	209						nucleus	methyltransferase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				TCTGGGCCTTCGACCTTTATA	0.562													22	444					0	0	0.004656	0	0		T	73107983	T	T	73107983	3	4	20	1	0	0	0	0	1	0	0	0	17291	893	31	1	660	1	WBSCR22	7	73107983	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	385269	73107983	86030680	693	17415											
LIMK1	3984	broad.mit.edu	37	chr7	73535232	73535232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactggacagatcatcgggcGggtgaacgcagaccctgact	10	7	13	11	3	1	4	1	2	0	2	2	5	1	5	1	3	2	1	1	3	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:73535232G>A	uc003uaa.1	+	15	1799	c.1634G>A	c.(1633-1635)CGG>CAG	p.R545Q	RFC2_uc011kfa.1_Intron|LIMK1_uc010lbl.1_RNA|LIMK1_uc003uab.2_Missense_Mutation_p.R511Q	NM_002314	NP_002305	P53667	LIMK1_HUMAN	LIM domain kinase 1	545	Protein kinase.				actin cytoskeleton organization|axon guidance|negative regulation of ubiquitin-protein ligase activity|positive regulation of actin filament bundle assembly|positive regulation of axon extension|Rho protein signal transduction	cytosol|growth cone|nucleus	ATP binding|heat shock protein binding|protein serine/threonine kinase activity|zinc ion binding			stomach(2)|ovary(1)	3		Lung NSC(55;0.137)				ATCATCGGGCGGGTGAACGCA	0.647													54	160					0	0	0.01441	0	0		A	73535232	A	A	73535232	3	1	20	1	0	0	0	0	1	0	0	0	8817	1116	39	1	1692	1	LIMK1	7	73535232	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	427249	73535232	85603431	694	17416											
GTF2IRD1	9569	broad.mit.edu	37	chr7	73954296	73954296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgggatggagatgctgaCaggtaagaaatggacctggg	12	9	16	4	0	0	3	0	1	0	2	0	6	0	5	1	5	1	2	1	5	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:73954296C>T	uc003uaq.2	+	14	2009	c.1616C>T	c.(1615-1617)ACA>ATA	p.T539I	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.T571I|GTF2IRD1_uc003uap.2_Missense_Mutation_p.T539I|GTF2IRD1_uc003uar.1_Missense_Mutation_p.T539I	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	539						nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						GAGATGCTGACAGGTAAGAAA	0.572													22	71					0	0	0.00278	0	0		T	73954296	T	T	73954296	3	4	20	1	0	0	0	0	1	0	0	0	6884	478	17	4	1666	4	GTF2IRD1	7	73954296	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	419064	73954296	85184367	695	17417											
GTF2I	2969	broad.mit.edu	37	chr7	74148279	74148279	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcagacatgagcttctgaAttcaacacgtgaagatttac	13	13	7	8	1	3	5	2	3	1	2	3	5	3	5	0	0	3	1	0	0	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:74148279A>G	uc003uau.2	+	16	1689	c.1319A>G	c.(1318-1320)AAT>AGT	p.N440S	GTF2I_uc003uav.2_Missense_Mutation_p.N419S|GTF2I_uc003uaw.2_Missense_Mutation_p.N420S|GTF2I_uc003uay.2_Missense_Mutation_p.N418S|GTF2I_uc003uax.2_Missense_Mutation_p.N399S	NM_032999	NP_127492	P78347	GTF2I_HUMAN	general transcription factor IIi isoform 1	440	GTF2I-like 2.				negative regulation of angiogenesis|signal transduction|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0						GAGCTTCTGAATTCAACACGT	0.358													4	164					0	0	0.000602	0	0		G	74148279	G	G	74148279	3	3	20	1	0	0	0	0	1	0	0	0	6883	101	4	3	1377	3	GTF2I	7	74148279	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	193983	74148279	84990384	696	17418											
HIP1	3092	broad.mit.edu	37	chr7	75186991	75186991	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcactgatgcgctccaaCgaatcctccagctctttttt	7	14	7	13	2	2	1	1	1	1	0	5	2	5	1	3	1	3	2	3	1	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:75186991C>T	uc003uds.1	-	16	1589	c.1548G>A	c.(1546-1548)TCG>TCA	p.S516S	HIP1_uc011kfz.1_Silent_p.S393S	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	516	Potential.				activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						TGCGCTCCAACGAATCCTCCA	0.557			T	PDGFRB	CMML								73	320					0	0	0.01441	0	0		T	75186991	T	T	75186991	2	4	20	1	0	0	0	0	0	0	0	1	7130	523	19	1		1	HIP1	7	75186991	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1038712	75186991	83951672	697	17419											
POR	5447	broad.mit.edu	37	chr7	75608819	75608819	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagacggggactgcagaggaGtttgccaaccgcctgtccaa	10	6	13	12	2	0	2	0	0	0	2	1	4	1	4	4	3	3	2	4	3	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:75608819G>A	uc003udy.2	+	4	370	c.288G>A	c.(286-288)GAG>GAA	p.E96E	POR_uc011kgb.1_RNA|POR_uc011kgc.1_5'Flank|POR_uc011kgd.1_5'Flank|POR_uc011kge.1_5'Flank	NM_000941	NP_000932	P16435	NCPR_HUMAN	cytochrome P450 reductase	93	Flavodoxin-like.				cellular organofluorine metabolic process|positive regulation of monooxygenase activity	endoplasmic reticulum membrane	iron ion binding|NADPH-hemoprotein reductase activity			central_nervous_system(1)	1					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Lipoic Acid(DB00166)|Menadione(DB00170)|Methoxyflurane(DB01028)|Mitomycin(DB00305)|Nilutamide(DB00665)	CTGCAGAGGAGTTTGCCAACC	0.627													7	20					0	0	0.001984	0	0		A	75608819	A	A	75608819	2	1	20	1	0	0	0	0	0	0	0	1	12276	1020	36	4		4	POR	7	75608819	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	421828	75608819	83529844	698	17420											
SRCRB4D	136853	broad.mit.edu	37	chr7	76019658	76019658	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagagctctacacgtccctcGcatcggtgggctccattgac	7	10	10	14	3	1	2	0	1	1	1	5	2	3	2	2	2	2	3	2	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:76019658G>A	uc003ufb.2	-	11	1794	c.1446C>T	c.(1444-1446)TGC>TGT	p.C482C	SRCRB4D_uc003ufa.2_5'UTR	NM_080744	NP_542782	Q8WTU2	SRB4D_HUMAN	scavenger receptor cysteine rich domain	482	SRCR 4.					extracellular region|membrane	scavenger receptor activity			pancreas(1)	1						CACGTCCCTCGCATCGGTGGG	0.647													7	41					0	0	0.004482	0	0		A	76019658	A	A	76019658	2	1	20	1	0	0	0	0	0	0	0	1	15162	1079	38	1		1	SRCRB4D	7	76019658	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	410839	76019658	83119005	699	17421											
MAGI2	9863	broad.mit.edu	37	chr7	77885613	77885613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagtgcagagaatgaggcGgccgatctgttatatctgga	10	10	15	6	2	2	2	0	1	2	1	2	6	2	4	1	4	1	2	1	4	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:77885613G>A	uc003ugx.2	-	10	1948	c.1694C>T	c.(1693-1695)CCG>CTG	p.P565L	MAGI2_uc003ugy.2_Missense_Mutation_p.P565L|MAGI2_uc010ldx.1_Missense_Mutation_p.P174L|MAGI2_uc010ldy.1_Missense_Mutation_p.P174L|MAGI2_uc011kgr.1_Missense_Mutation_p.P397L|MAGI2_uc011kgs.1_Missense_Mutation_p.P402L	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	565						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				AGAATGAGGCGGCCGATCTGT	0.507													10	55					0	0	0.00245	0	0		A	77885613	A	A	77885613	3	1	20	1	0	0	0	0	1	0	0	0	9209	1116	39	1	2725	1	MAGI2	7	77885613	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1865955	77885613	81253050	700	17422											
CD36	948	broad.mit.edu	37	chr7	80276128	80276128	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcctggctgtgtttggaggTattctaatgccagttggaga	7	14	14	6	0	1	1	0	0	1	1	2	3	2	2	2	4	1	4	2	4	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:80276128T>C	uc003uhc.2	+	6	756	c.72T>C	c.(70-72)GGT>GGC	p.G24G	CD36_uc003uhd.3_Silent_p.G24G|CD36_uc011kgv.1_Intron|CD36_uc003uhe.3_Silent_p.G24G|CD36_uc003uhf.3_Silent_p.G24G|CD36_uc003uhg.3_Silent_p.G24G|CD36_uc003uhh.3_Silent_p.G24G	NM_001127444	NP_001120916	P16671	CD36_HUMAN	CD36 antigen	24	Helical; (Potential).				cell adhesion|cGMP-mediated signaling|cholesterol transport|lipid metabolic process|lipid storage|lipoprotein transport|low-density lipoprotein particle clearance|nitric oxide mediated signal transduction|plasma membrane long-chain fatty acid transport|platelet activation|platelet degranulation|positive regulation of cell-matrix adhesion|positive regulation of macrophage derived foam cell differentiation	integral to plasma membrane|membrane fraction|platelet alpha granule membrane	lipid binding|low-density lipoprotein receptor activity|thrombospondin receptor activity|transforming growth factor beta binding			ovary(1)	1						TGTTTGGAGGTATTCTAATGC	0.438													4	186					0	0	0.000602	0	0		C	80276128	C	C	80276128	2	2	20	1	0	0	0	0	0	0	0	1	3010	1625	57	3		3	CD36	7	80276128	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2390515	80276128	78862535	701	17423											
HGF	3082	broad.mit.edu	37	chr7	81340814	81340814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacggtctaaattgactattGtaggtgtggtatcaccttca	10	15	9	7	1	3	1	2	1	1	0	3	1	3	1	1	3	1	2	1	3	6	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:81340814G>A	uc003uhl.2	-	12	1592	c.1427C>T	c.(1426-1428)ACA>ATA	p.T476I	HGF_uc003uhm.2_Missense_Mutation_p.T471I	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	476					epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						ATTGACTATTGTAGGTGTGGT	0.259													5	5					0	0	0.001984	0	0		A	81340814	A	A	81340814	3	1	20	1	0	0	0	0	1	0	0	0	7101	1377	48	4	787	4	HGF	7	81340814	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1064686	81340814	77797849	702	17424											
HGF	3082	broad.mit.edu	37	chr7	81372669	81372669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatttgaccttcacttacCgcatgttttaattgcacagt	11	16	5	9	1	1	1	1	1	0	0	1	1	1	1	2	0	2	3	2	0	4	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:81372669C>T	uc003uhl.2	-	7	1030	c.865G>A	c.(865-867)GCT>ACT	p.A289T	HGF_uc003uhm.2_Missense_Mutation_p.A284T|HGF_uc003uhn.1_Missense_Mutation_p.E289K|HGF_uc003uho.1_Missense_Mutation_p.E284K	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	289					epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						CTTCACTTACCGCATGTTTTA	0.448													15	80					0	0	0.003163	0	0		T	81372669	T	T	81372669	3	4	20	1	0	0	0	0	1	0	0	0	7101	666	23	1	1381	1	HGF	7	81372669	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	31855	81372669	77765994	703	17425											
PCLO	27445	broad.mit.edu	37	chr7	82581873	82581873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttgcactagctgtgcatGtgacaaaggtcactgtctca	11	11	9	10	0	2	1	2	1	1	0	3	1	2	1	0	1	4	3	0	1	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:82581873G>A	uc003uhx.2	-	5	8685	c.8396C>T	c.(8395-8397)ACA>ATA	p.T2799I	PCLO_uc003uhv.2_Missense_Mutation_p.T2799I|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2730					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGCTGTGCATGTGACAAAGGT	0.433													19	94					0	0	0.012319	0	0		A	82581873	A	A	82581873	3	1	20	1	0	0	0	0	1	0	0	0	11602	1377	48	4	7133	4	PCLO	7	82581873	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1209204	82581873	76556790	704	17426											
PCLO	27445	broad.mit.edu	37	chr7	82763950	82763950	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccttgtgaagtaggtggCtgtgaaggggcaggggcttg	6	9	20	6	0	0	2	0	2	0	0	0	2	0	2	1	7	0	4	1	7	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:82763950C>T	uc003uhx.2	-	3	3205	c.2916G>A	c.(2914-2916)CAG>CAA	p.Q972Q	PCLO_uc003uhv.2_Silent_p.Q972Q	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	918	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AAGTAGGTGGCTGTGAAGGGG	0.522													11	42					0	0	0.013537	0	0		T	82763950	T	T	82763950	2	4	20	1	0	0	0	0	0	0	0	1	11602	796	28	2		2	PCLO	7	82763950	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	182077	82763950	76374713	705	17427											
PCLO	27445	broad.mit.edu	37	chr7	82764620	82764620	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctttggtttatcatcagcaAcaggggccttgtcctgctca	7	13	10	11	0	3	0	3	0	0	0	4	0	4	0	2	3	3	4	2	3	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:82764620A>C	uc003uhx.2	-	3	2535	c.2246T>G	c.(2245-2247)GTT>GGT	p.V749G	PCLO_uc003uhv.2_Missense_Mutation_p.V749G	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	695	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ATCATCAGCAACAGGGGCCTT	0.507													16	101					0	0	0.004007	0	0		C	82764620	C	C	82764620	3	2	20	1	0	0	0	0	1	0	0	0	11602	43	2	5	13291	5	PCLO	7	82764620	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	670	82764620	76374043	706	17428											
GRM3	2913	broad.mit.edu	37	chr7	86468223	86468223	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttggagatggaatggggCgatacaacgtgttcaatttc	10	13	12	6	2	1	1	1	0	0	1	2	4	1	2	0	4	2	1	0	4	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:86468223C>T	uc003uid.2	+	4	2492	c.1393C>T	c.(1393-1395)CGA>TGA	p.R465*	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Nonsense_Mutation_p.R337*|GRM3_uc010leh.2_Nonsense_Mutation_p.R57*	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	465	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TGGAATGGGGCGATACAACGT	0.383													8	32					0	0	0.004482	0	0		T	86468223	T	T	86468223	4	4	20	1	0	0	0	0	0	1	0	0	6814	760	27	1	1403	1	GRM3	7	86468223	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3703603	86468223	72670440	707	17429											
ZNF804B	219578	broad.mit.edu	37	chr7	88847534	88847534	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggcaaacttttactgtgaAttatgtgacaagcagtatca	15	12	8	6	0	1	2	1	2	0	0	1	2	1	2	0	1	3	3	0	1	7	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:88847534A>C	uc011khi.1	+	2	712	c.174A>C	c.(172-174)GAA>GAC	p.E58D		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	58	C2H2-type.					intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TTTACTGTGAATTATGTGACA	0.363										HNSCC(36;0.09)			5	135					0	0	0.001168	0	0		C	88847534	C	C	88847534	3	2	20	1	0	0	0	0	1	0	0	0	18196	98	4	5	180	5	ZNF804B	7	88847534	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2379311	88847534	70291129	708	17430											
ZNF804B	219578	broad.mit.edu	37	chr7	88956722	88956722	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaagtcatggaaagatgAgaaaaaacaagaaaaagcac	22	6	8	5	0	2	3	1	1	1	3	2	5	2	4	0	1	2	1	0	1	8	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:88956722A>C	uc011khi.1	+	3	852	c.314A>C	c.(313-315)GAG>GCG	p.E105A		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	105						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TGGAAAGATGAGAAAAAACAA	0.358										HNSCC(36;0.09)			37	129					0	0	0.00623	0	0		C	88956722	C	C	88956722	3	2	20	1	0	0	0	0	1	0	0	0	18196	304	11	5	324	5	ZNF804B	7	88956722	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	109188	88956722	70181941	709	17431											
AKAP9	10142	broad.mit.edu	37	chr7	91724394	91724394	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaatgacacattagcaagTgaacagaaaaaatcaagaga	21	7	7	6	0	1	4	1	2	0	2	1	5	1	4	0	0	2	1	0	0	8	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:91724394T>C	uc003ulg.2	+	40	9861	c.9636T>C	c.(9634-9636)AGT>AGC	p.S3212S	AKAP9_uc003ulf.2_Silent_p.S3204S|AKAP9_uc003uli.2_Silent_p.S2835S|AKAP9_uc003ulj.2_Silent_p.S982S|AKAP9_uc003ull.2_Silent_p.S108S	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3216	Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CATTAGCAAGTGAACAGAAAA	0.388			T	BRAF	papillary thyroid								3	87					0	0	0.004672	0	0		C	91724394	C	C	91724394	2	2	20	1	0	0	0	0	0	0	0	1	459	1693	59	3		3	AKAP9	7	91724394	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2767672	91724394	67414269	710	17432											
SAMD9L	219285	broad.mit.edu	37	chr7	92763746	92763746	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctctgccataaatgtggTtctagaggtttatatgtctc	8	17	8	8	0	4	1	0	0	4	1	6	1	4	1	1	2	1	2	1	2	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:92763746T>G	uc003umh.1	-	5	2755	c.1539A>C	c.(1537-1539)GAA>GAC	p.E513D	SAMD9L_uc003umj.1_Missense_Mutation_p.E513D|SAMD9L_uc003umi.1_Missense_Mutation_p.E513D|SAMD9L_uc010lfb.1_Missense_Mutation_p.E513D|SAMD9L_uc003umk.1_Missense_Mutation_p.E513D|SAMD9L_uc010lfc.1_Missense_Mutation_p.E513D|SAMD9L_uc010lfd.1_Missense_Mutation_p.E513D|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	513										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			ATAAATGTGGTTCTAGAGGTT	0.378													7	250					0	0	0.001984	0	0		G	92763746	G	G	92763746	3	3	20	1	0	0	0	0	1	0	0	0	13852	1722	60	5	3219	5	SAMD9L	7	92763746	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1039352	92763746	66374917	711	17433											
CALCR	799	broad.mit.edu	37	chr7	93055810	93055810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccgcagcagcggctgcaGcgcgagcagagcggttggag	7	4	17	13	5	0	1	0	0	0	1	1	3	1	2	2	3	6	6	2	3	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:93055810G>A	uc003umv.1	-	15	1646	c.1385C>T	c.(1384-1386)GCT>GTT	p.A462V	CALCR_uc011kia.1_Missense_Mutation_p.A242V|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.A428V|CALCR_uc003umw.2_Missense_Mutation_p.A428V	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	444	Poly-Ala.|Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding	p.I462I(1)		ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	AGCGGCTGCAGCGCGAGCAGA	0.597													23	74					0	0	0.003755	0	0		A	93055810	A	A	93055810	3	1	20	1	0	0	0	0	1	0	0	0	2582	971	34	2	145	2	CALCR	7	93055810	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	292064	93055810	66082853	712	17434											
PON3	5446	broad.mit.edu	37	chr7	94991695	94991695	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgatcctggagggtcctcAgggttatagttcagtagctt	7	14	12	8	0	3	1	2	1	1	0	5	2	5	2	2	3	1	4	2	3	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:94991695A>G	uc003unt.2	-	8	910	c.885T>C	c.(883-885)CCT>CCC	p.P295P	PON1_uc011kih.1_Intron	NM_000940	NP_000931	Q15166	PON3_HUMAN	paraoxonase 3	295					aromatic compound catabolic process|carboxylic acid catabolic process|response to external stimulus	extracellular space	aryldialkylphosphatase activity|arylesterase activity|metal ion binding|protein homodimerization activity			ovary(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0151)			GAGGGTCCTCAGGGTTATAGT	0.468													9	65					0	0	0.006214	0	0		G	94991695	G	G	94991695	2	3	20	1	0	0	0	0	0	0	0	1	12269	175	7	3		3	PON3	7	94991695	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1935885	94991695	64146968	713	17435											
SMURF1	57154	broad.mit.edu	37	chr7	98649829	98649829	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggatacattctctcaccGtagccttcgggcagttccgg	7	10	11	13	3	2	0	1	0	1	0	5	1	3	1	3	3	2	4	3	3	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:98649829G>A	uc003upu.1	-	7	1040	c.720C>T	c.(718-720)TAC>TAT	p.Y240Y	SMURF1_uc003upv.1_Silent_p.Y240Y|SMURF1_uc003upt.2_Silent_p.Y240Y	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	240	WW 1.				BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			TTCTCTCACCGTAGCCTTCGG	0.463													42	156					0	0	0.01441	0	0		A	98649829	A	A	98649829	2	1	20	1	0	0	0	0	0	0	0	1	14844	1159	40	1		1	SMURF1	7	98649829	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3658134	98649829	60488834	714	17436											
CYP3A4	1576	broad.mit.edu	37	chr7	99361615	99361615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aataaagataattgattgggCcacgagctccagatcggaca	15	8	10	8	2	0	3	0	1	0	2	2	5	1	4	2	2	1	1	2	2	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:99361615C>T	uc003urv.1	-	10	993	c.889G>A	c.(889-891)GCC>ACC	p.A297T	CYP3A4_uc003urw.1_Missense_Mutation_p.A296T|CYP3A4_uc011kiz.1_Missense_Mutation_p.A256T|CYP3A4_uc011kja.1_Missense_Mutation_p.A248T|CYP3A4_uc011kjb.1_Missense_Mutation_p.A147T	NM_017460	NP_059488	P08684	CP3A4_HUMAN	cytochrome P450, family 3, subfamily A,	297					alkaloid catabolic process|androgen metabolic process|exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|oxidative demethylation|steroid catabolic process|xenobiotic metabolic process	cell surface|endoplasmic reticulum membrane|integral to membrane|microsome	albendazole monooxygenase activity|caffeine oxidase activity|electron carrier activity|enzyme binding|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen|oxygen binding|quinine 3-monooxygenase activity|steroid binding|taurochenodeoxycholate 6alpha-hydroxylase activity|testosterone 6-beta-hydroxylase activity|vitamin D 24-hydroxylase activity|vitamin D3 25-hydroxylase activity			central_nervous_system(3)|ovary(1)	4	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)				Albendazole(DB00518)|Alclometasone(DB00240)|Alfentanil(DB00802)|Alfuzosin(DB00346)|Aliskiren(DB01258)|Almotriptan(DB00918)|Alosetron(DB00969)|Alprazolam(DB00404)|Amlodipine(DB00381)|Amprenavir(DB00701)|Aprepitant(DB00673)|Aripiprazole(DB01238)|Astemizole(DB00637)|Atazanavir(DB01072)|Atorvastatin(DB01076)|Benazepril(DB00542)|Bepridil(DB01244)|Betamethasone(DB00443)|Bexarotene(DB00307)|Bortezomib(DB00188)|Bosentan(DB00559)|Bromocriptine(DB01200)|Budesonide(DB01222)|Bupivacaine(DB00297)|Buprenorphine(DB00921)|Buspirone(DB00490)|Busulfan(DB01008)|Carbamazepine(DB00564)|Cevimeline(DB00185)|Chlorpheniramine(DB01114)|Ciclesonide(DB01410)|Cilostazol(DB01166)|Cinacalcet(DB01012)|Cisapride(DB00604)|Clarithromycin(DB01211)|Clindamycin(DB01190)|Clofibrate(DB00636)|Clonazepam(DB01068)|Clopidogrel(DB00758)|Cocaine(DB00907)|Conivaptan(DB00872)|Conjugated Estrogens(DB00286)|Cyproterone(DB04839)|Darifenacin(DB00496)|Darunavir(DB01264)|Dasatinib(DB01254)|Delavirdine(DB00705)|Desogestrel(DB00304)|Dexamethasone(DB01234)|Diazepam(DB00829)|Dihydroergotamine(DB00320)|Diltiazem(DB00343)|Diphenhydramine(DB01075)|Disopyramide(DB00280)|Dofetilide(DB00204)|Dolasetron(DB00757)|Domperidone(DB01184)|Donepezil(DB00843)|Doxorubicin(DB00997)|Drospirenone(DB01395)|Dutasteride(DB01126)|Efavirenz(DB00625)|Eletriptan(DB00216)|Enalapril(DB00584)|Epirubicin(DB00445)|Eplerenone(DB00700)|Ergotamine(DB00696)|Erlotinib(DB00530)|Erythromycin(DB00199)|Escitalopram(DB01175)|Esomeprazole(DB00736)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethinyl Estradiol(DB00977)|Ethosuximide(DB00593)|Etonogestrel(DB00294)|Etoposide(DB00773)|Etoricoxib(DB01628)|Exemestane(DB00990)|Felodipine(DB01023)|Fentanyl(DB00813)|Fexofenadine(DB00950)|Finasteride(DB01216)|Fluconazole(DB00196)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Fosamprenavir(DB01319)|Fulvestrant(DB00947)|Galantamine(DB00674)|Gefitinib(DB00317)|Gemfibrozil(DB01241)|Granisetron(DB00889)|Grepafloxacin(DB00365)|Halofantrine(DB01218)|Hydrocodone(DB00956)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Hydromorphone(DB00327)|Imatinib(DB00619)|Indinavir(DB00224)|Ipratropium(DB00332)|Irinotecan(DB00762)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Isradipine(DB00270)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Lercanidipine(DB00528)|Letrozole(DB01006)|Levobupivacaine(DB01002)|Levomethadyl Acetate(DB01227)|Levothyroxine(DB00451)|Lomustine(DB01206)|Loperamide(DB00836)|Lopinavir(DB01601)|Loratadine(DB00455)|Losartan(DB00678)|Lovastatin(DB00227)|Maraviroc(DB04835)|Marinol(DB00470)|Mebendazole(DB00643)|Medroxyprogesterone(DB00603)|Methadone(DB00333)|Methylprednisolone(DB00959)|Metyrapone(DB01011)|Mibefradil(DB01388)|Midazolam(DB00683)|Mifepristone(DB00834)|Mirtazapine(DB00370)|Modafinil(DB00745)|Mometasone(DB00764)|Montelukast(DB00471)|Nateglinide(DB00731)|Nefazodone(DB01149)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Norethindrone(DB00717)|Norgestrel(DB00506)|Nystatin(DB00646)|Ondansetron(DB00904)|Oxybutynin(DB01062)|Paclitaxel(DB01229)|Paliperidone(DB01267)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Paricalcitol(DB00910)|Phenmetrazine(DB00830)|Pimecrolimus(DB00337)|Pimozide(DB01100)|Pioglitazone(DB01132)|Posaconazole(DB01263)|Pranlukast(DB01411)|Prednisolone(DB00860)|Prednisone(DB00635)|Prochlorperazine(DB00433)|Quetiapine(DB01224)|Quinapril(DB00881)|Quinine(DB00468)|Rabeprazole(DB01129)|Ranolazine(DB00243)|Reboxetine(DB00234)|Retapamulin(DB01256)|Rifabutin(DB00615)|Rifampin(DB01045)|Rimonabant(DB06155)|Ritonavir(DB00503)|Rofecoxib(DB00533)|Roxithromycin(DB00778)|Salmeterol(DB00938)|Saquinavir(DB01232)|Sertindole(DB06144)|Sibutramine(DB01105)|Simvastatin(DB00641)|Sirolimus(DB00877)|Sitagliptin(DB01261)|Solifenacin(DB01591)|Sorafenib(DB00398)|Sunitinib(DB01268)|Tacrolimus(DB00864)|Tadalafil(DB00820)|Tamoxifen(DB00675)|Telithromycin(DB00976)|Terconazole(DB00251)|Terfenadine(DB00342)|Testosterone(DB00624)|Tiagabine(DB00906)|Ticlopidine(DB00208)|Tinidazole(DB00911)|Tiotropium(DB01409)|Tipranavir(DB00932)|Toremifene(DB00539)|Triazolam(DB00897)|Trimetrexate(DB01157)|Troglitazone(DB00197)|Valdecoxib(DB00580)|Vardenafil(DB00862)|Vinblastine(DB00570)|Vincristine(DB00541)|Vindesine(DB00309)|Vinorelbine(DB00361)|Voriconazole(DB00582)|Zaleplon(DB00962)|Zileuton(DB00744)|Ziprasidone(DB00246)|Zolpidem(DB00425)|Zonisamide(DB00909)	ATTGATTGGGCCACGAGCTCC	0.428													5	175					0	0	0.001168	0	0		T	99361615	T	T	99361615	3	4	20	1	0	0	0	0	1	0	0	0	4181	739	26	2	638	2	CYP3A4	7	99361615	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	711786	99361615	59777048	715	17437											
ZKSCAN1	7586	broad.mit.edu	37	chr7	99621904	99621904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacttcaaacattcgtctcGgaaaccccgcctcttacagt	10	10	5	16	3	3	0	1	0	2	0	5	1	3	1	4	1	3	0	4	1	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:99621904G>A	uc003usk.1	+	3	773	c.554G>A	c.(553-555)CGG>CAG	p.R185Q	ZKSCAN1_uc003usj.2_Missense_Mutation_p.R184Q|ZKSCAN1_uc003usl.1_Missense_Mutation_p.R149Q|ZKSCAN1_uc003usm.1_Intron	NM_003439	NP_003430	P17029	ZKSC1_HUMAN	zinc finger protein 36	185					viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			CATTCGTCTCGGAAACCCCGC	0.532													11	47					0	0	0.001855	0	0		A	99621904	A	A	99621904	3	1	20	1	0	0	0	0	1	0	0	0	17711	1116	39	1	560	1	ZKSCAN1	7	99621904	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	260289	99621904	59516759	716	17438											
TAF6	6878	broad.mit.edu	37	chr7	99710462	99710462	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccttgacctttgcccttcAggggtccgtcttcctcctgg	2	13	9	17	1	2	1	1	1	1	0	5	1	5	1	7	3	1	0	7	3	0	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:99710462A>G	uc003uti.2	-	6	614	c.533T>C	c.(532-534)CTG>CCG	p.L178P	TAF6_uc003utg.2_Missense_Mutation_p.L100P|TAF6_uc003uth.2_Missense_Mutation_p.L235P|TAF6_uc003utk.2_Missense_Mutation_p.L178P|TAF6_uc011kji.1_Missense_Mutation_p.L215P|TAF6_uc003utj.2_Missense_Mutation_p.L168P|TAF6_uc003utl.2_Missense_Mutation_p.L178P|TAF6_uc003utm.2_Missense_Mutation_p.L178P|TAF6_uc003utn.1_RNA	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha	178					negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TTTGCCCTTCAGGGGTCCGTC	0.597													64	286					0	0	0.01441	0	0		G	99710462	G	G	99710462	3	3	20	1	0	0	0	0	1	0	0	0	15555	188	7	3	1540	3	TAF6	7	99710462	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	88558	99710462	59428201	717	17439											
GIGYF1	64599	broad.mit.edu	37	chr7	100279802	100279802	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccaggcaggaacggatatAatcgtggacatcataggggg	12	6	14	9	2	1	0	1	0	0	0	2	3	1	3	2	6	1	1	2	6	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:100279802A>G	uc003uwg.1	-	22	3827	c.2818T>C	c.(2818-2820)TAT>CAT	p.Y940H		NM_022574	NP_072096	O75420	PERQ1_HUMAN	PERQ amino acid rich, with GYF domain 1	940										large_intestine(1)|central_nervous_system(1)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					GAACGGATATAATCGTGGACA	0.547													10	185					0	0	0.010729	0	0		G	100279802	G	G	100279802	3	3	20	1	0	0	0	0	1	0	0	0	6392	362	13	3	301	3	GIGYF1	7	100279802	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	569340	100279802	58858861	718	17440											
ZAN	7455	broad.mit.edu	37	chr7	100350272	100350272	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactcaccatccccatggaAaaacccaccatctccacaga	16	5	3	17	0	2	1	1	0	1	1	4	2	3	2	6	1	2	0	6	1	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:100350272A>G	uc003uwj.2	+	14	2709	c.2544A>G	c.(2542-2544)GAA>GAG	p.E848E	ZAN_uc003uwk.2_Silent_p.E848E|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	848	66 X heptapeptide repeats (approximate) (mucin-like domain).|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			TCCCCATGGAAAAACCCACCA	0.502													30	137					0	0	0.010818	0	0		G	100350272	G	G	100350272	2	3	20	1	0	0	0	0	0	0	0	1	17539	11	1	3		3	ZAN	7	100350272	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	70470	100350272	58788391	719	17441											
ZAN	7455	broad.mit.edu	37	chr7	100366269	100366269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttggatgacaacctgcGccccgacagaaagcttgcag	11	6	11	13	2	0	2	0	1	0	1	0	4	0	3	3	1	5	3	3	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:100366269G>A	uc003uwj.2	+	27	5243	c.5078G>A	c.(5077-5079)CGC>CAC	p.R1693H	ZAN_uc003uwk.2_Missense_Mutation_p.R1693H|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kkd.1_Missense_Mutation_p.R270H	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1693	Extracellular (Potential).|VWFD 2.				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GACAACCTGCGCCCCGACAGA	0.607													8	19					0	0	0.004482	0	0		A	100366269	A	A	100366269	3	1	20	1	0	0	0	0	1	0	0	0	17539	1087	38	1	5180	1	ZAN	7	100366269	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	15997	100366269	58772394	720	17442											
ACHE	43	broad.mit.edu	37	chr7	100491627	100491627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccggtggcagaaagcgaCggggtcccatgggtggctcc	6	6	17	12	3	0	1	0	0	0	1	3	2	3	1	3	6	1	3	3	6	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:100491627C>T	uc003uxd.2	-	1	383	c.227G>A	c.(226-228)CGT>CAT	p.R76H	ACHE_uc003uxe.2_Missense_Mutation_p.R76H|ACHE_uc003uxf.2_Missense_Mutation_p.R76H|ACHE_uc003uxg.2_Missense_Mutation_p.R76H|ACHE_uc003uxh.2_Missense_Mutation_p.R76H|ACHE_uc003uxi.2_Missense_Mutation_p.R76H|ACHE_uc003uxj.1_Missense_Mutation_p.R195H	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	76					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	CAGAAAGCGACGGGGTCCCAT	0.642													14	58					0	0	0.003163	0	0		T	100491627	T	T	100491627	3	4	20	1	0	0	0	0	1	0	0	0	141	536	19	1	1768	1	ACHE	7	100491627	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	125358	100491627	58647036	721	17443											
MOGAT3	346606	broad.mit.edu	37	chr7	100841524	100841524	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcttctggagcgtaaggcAgtgctccccggggactgaat	7	8	15	11	3	1	1	0	1	1	0	2	3	2	3	2	4	2	4	2	4	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:100841524A>T	uc003uyc.2	-	5	783	c.616T>A	c.(616-618)TGC>AGC	p.C206S	MOGAT3_uc010lhr.2_Missense_Mutation_p.C206S	NM_178176	NP_835470	Q86VF5	MOGT3_HUMAN	monoacylglycerol O-acyltransferase 3	206					glycerol metabolic process|lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity|diacylglycerol O-acyltransferase activity			ovary(2)	2	Lung NSC(181;0.168)|all_lung(186;0.215)					AGCGTAAGGCAGTGCTCCCCG	0.652													6	105					0	0	0.001984	0	0		T	100841524	T	T	100841524	3	4	20	1	0	0	0	0	1	0	0	0	9714	188	7	5	421	5	MOGAT3	7	100841524	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	349897	100841524	58297139	722	17444											
CUX1	1523	broad.mit.edu	37	chr7	101844765	101844765	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctcgaccctgccttaaagCaggcaccactgtcccagagt	9	7	8	17	1	0	1	0	0	0	1	2	2	1	1	5	1	2	2	5	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:101844765C>T	uc003uyx.3	+	18	2226	c.2188C>T	c.(2188-2190)CAG>TAG	p.Q730*	CUX1_uc003uys.3_Nonsense_Mutation_p.Q741*|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	730					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						TGCCTTAAAGCAGGCACCACT	0.642													75	253					0	0	0.01441	0	0		T	101844765	T	T	101844765	4	4	20	1	0	0	0	0	0	1	0	0	4067	711	25	2	2325	2	CUX1	7	101844765	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1003241	101844765	57293898	723	17445											
DNAJC2	27000	broad.mit.edu	37	chr7	102967090	102967090	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagtaggatctacactgtTaaatgctcgtcttttcactg	12	14	7	8	1	3	0	1	0	2	0	4	1	3	1	0	1	2	3	0	1	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:102967090T>A	uc003vbo.2	-	5	723	c.472A>T	c.(472-474)AAC>TAC	p.N158Y	PMPCB_uc011kll.1_Intron|DNAJC2_uc003vbn.2_5'UTR|DNAJC2_uc010lix.2_Missense_Mutation_p.N158Y|DNAJC2_uc003vbp.2_5'UTR|DNAJC2_uc003vbq.1_RNA	NM_014377	NP_055192	Q99543	DNJC2_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 2	158	J.				'de novo' cotranslational protein folding|chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane	chromatin binding|DNA binding|histone binding|Hsp70 protein binding|ubiquitin binding			kidney(1)	1						TCTACACTGTTAAATGCTCGT	0.343													6	82					0	0	0.00308	0	0		A	102967090	A	A	102967090	3	1	20	1	0	0	0	0	1	0	0	0	4645	1754	61	5	1445	5	DNAJC2	7	102967090	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1122325	102967090	56171573	724	17446											
PIK3CG	5294	broad.mit.edu	37	chr7	106508571	106508571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccccgcgcatggcggaggtgGccagccgcgaccccaagctc	6	3	14	18	5	0	0	0	0	0	0	1	2	0	1	6	4	2	2	6	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:106508571G>A	uc003vdv.3	+	2	650	c.565G>A	c.(565-567)GCC>ACC	p.A189T	PIK3CG_uc003vdu.2_Missense_Mutation_p.A189T|PIK3CG_uc003vdw.2_Missense_Mutation_p.A189T	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	189					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						GGCGGAGGTGGCCAGCCGCGA	0.622													18	41					0	0	0.010504	0	0		A	106508571	A	A	106508571	3	1	20	1	0	0	0	0	1	0	0	0	11935	1203	42	2	567	2	PIK3CG	7	106508571	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3541481	106508571	52630092	725	17447											
DUS4L	11062	broad.mit.edu	37	chr7	107216881	107216881	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacaggagtttcatggattAcagtccatggaagaactgct	13	10	10	8	0	1	1	1	0	0	1	2	4	2	4	1	3	4	2	1	3	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:107216881A>G	uc003veh.2	+	7	883	c.550A>G	c.(550-552)ACA>GCA	p.T184A	DUS4L_uc003veg.2_Missense_Mutation_p.T63A|DUS4L_uc011klw.1_RNA|DUS4L_uc011klx.1_Missense_Mutation_p.T63A|DUS4L_uc010ljl.2_Missense_Mutation_p.T94A	NM_181581	NP_853559	O95620	DUS4L_HUMAN	dihydrouridine synthase 4-like	184					tRNA processing		flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity				0						TTCATGGATTACAGTCCATGG	0.348													10	76					0	0	0.006214	0	0		G	107216881	G	G	107216881	3	3	20	1	0	0	0	0	1	0	0	0	4814	391	14	3	568	3	DUS4L	7	107216881	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	708310	107216881	51921782	726	17448											
BCAP29	55973	broad.mit.edu	37	chr7	107234461	107234461	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgagaagagctccaccagCagacctgatgcctatgaaca	14	7	9	11	0	0	5	0	3	0	3	1	6	1	5	4	0	4	2	4	0	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:107234461C>T	uc003vej.2	+	4	594	c.255C>T	c.(253-255)AGC>AGT	p.S85S	BCAP29_uc011kly.1_5'UTR|BCAP29_uc011klz.1_Silent_p.S85S|BCAP29_uc011kma.1_Silent_p.S85S	NM_018844	NP_061332	Q9UHQ4	BAP29_HUMAN	B-cell receptor-associated protein BAP29 isoform	85	Lumenal (Potential).				apoptosis|intracellular protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|integral to membrane				large_intestine(1)|ovary(1)	2						GCTCCACCAGCAGACCTGATG	0.353													41	162					0	0	0.011902	0	0		T	107234461	T	T	107234461	2	4	20	1	0	0	0	0	0	0	0	1	1347	709	25	2		2	BCAP29	7	107234461	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	17580	107234461	51904202	727	17449											
DNAJB9	4189	broad.mit.edu	37	chr7	108213767	108213767	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacgaagaggaaatatggtTactacatacactgactgttc	15	10	8	8	1	0	2	0	1	0	1	1	4	0	3	0	2	4	2	0	2	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:108213767T>C	uc003vfn.2	+	3	844	c.642T>C	c.(640-642)GTT>GTC	p.V214V		NM_012328	NP_036460	Q9UBS3	DNJB9_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 9	214					ER-associated protein catabolic process|protein folding	endoplasmic reticulum|nucleolus	heat shock protein binding|misfolded protein binding|unfolded protein binding				0						GAAATATGGTTACTACATACA	0.378													3	139					0	0	0.000602	0	0		C	108213767	C	C	108213767	2	2	20	1	0	0	0	0	0	0	0	1	4633	1741	61	3		3	DNAJB9	7	108213767	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	979306	108213767	50924896	728	17450											
LRRN3	54674	broad.mit.edu	37	chr7	110763303	110763303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctacaatttcacctggaGcctttattggcctacataat	10	16	5	10	0	2	0	1	0	1	0	2	1	2	1	3	2	3	0	3	2	5	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:110763303G>A	uc003vft.3	+	4	1521	c.475G>A	c.(475-477)GCC>ACC	p.A159T	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.A159T|LRRN3_uc003vfs.3_Missense_Mutation_p.A159T	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	159	LRR 4.|Extracellular (Potential).					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		TTCACCTGGAGCCTTTATTGG	0.363													7	151					0	0	0.00308	0	0		A	110763303	A	A	110763303	3	1	20	1	0	0	0	0	1	0	0	0	9054	971	34	2	477	2	LRRN3	7	110763303	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2549536	110763303	48375360	729	17451											
TMEM168	64418	broad.mit.edu	37	chr7	112423777	112423777	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggaaactgctcccaaaatCgctgttgcaagaagactaaa	16	7	8	10	1	0	2	0	0	0	2	2	3	1	3	1	1	3	4	1	1	7	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:112423777C>T	uc003vgn.2	-	2	1496	c.1104G>A	c.(1102-1104)GCG>GCA	p.A368A	TMEM168_uc010lju.2_Silent_p.A368A|TMEM168_uc011kmr.1_Intron	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	368	Helical; (Potential).					integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						CTCCCAAAATCGCTGTTGCAA	0.393													45	181					0	0	0.010771	0	0		T	112423777	T	T	112423777	2	4	20	1	0	0	0	0	0	0	0	1	16108	871	31	1		1	TMEM168	7	112423777	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1660474	112423777	46714886	730	17452											
PPP1R3A	5506	broad.mit.edu	37	chr7	113519686	113519686	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtatctgaatggaaatcTcttcgtaaacatcccaaatc	14	11	6	10	2	2	1	0	1	2	0	6	3	3	2	1	1	1	2	1	1	6	3	rs139605314		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:113519686T>G	uc010ljy.1	-	4	1492	c.1461A>C	c.(1459-1461)AGA>AGC	p.R487S		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	487					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						AATGGAAATCTCTTCGTAAAC	0.363													14	75					0	0	0.003163	0	0		G	113519686	G	G	113519686	3	3	20	1	0	0	0	0	1	0	0	0	12393	1548	54	5	1911	5	PPP1R3A	7	113519686	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1095909	113519686	45618977	731	17453											
KCND2	3751	broad.mit.edu	37	chr7	119915142	119915142	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcgcctgcaggacgacgcGgataccgacaccgctgggga	9	3	16	13	6	0	0	0	0	0	0	0	6	0	3	3	4	3	2	3	4	1	1	rs116322872	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:119915142G>A	uc003vjj.1	+	1	1421	c.456G>A	c.(454-456)GCG>GCA	p.A152A		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	152	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					AGGACGACGCGGATACCGACA	0.632													9	149					0	0	0.004482	0	0		A	119915142	A	A	119915142	2	1	20	1	0	0	0	0	0	0	0	1	8035	1103	39	1		1	KCND2	7	119915142	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6395456	119915142	39223521	732	17454											
WNT16	51384	broad.mit.edu	37	chr7	120979236	120979236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaggcagagaatgcaaccGtacatcagagggtgcagatg	15	5	13	8	1	1	3	1	0	0	3	1	4	1	3	1	2	4	4	1	2	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:120979236G>A	uc003vjw.2	+	4	1192	c.935G>A	c.(934-936)CGT>CAT	p.R312H	WNT16_uc003vjv.2_Missense_Mutation_p.R302H|WNT16_uc010lkl.2_Missense_Mutation_p.R96H	NM_057168	NP_476509	Q9UBV4	WNT16_HUMAN	wingless-type MMTV integration site family,	312					anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|keratinocyte differentiation|keratinocyte proliferation|negative regulation of cell death|optic cup formation involved in camera-type eye development|oxidative stress-induced premature senescence|positive regulation of gene expression|positive regulation of JNK cascade|positive regulation of phosphatidylinositol 3-kinase cascade|replicative senescence|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			lung(2)|ovary(2)|large_intestine(1)	5	all_neural(327;0.117)					GAATGCAACCGTACATCAGAG	0.493													20	93					0	0	0.010504	0	0		A	120979236	A	A	120979236	3	1	20	1	0	0	0	0	1	0	0	0	17411	1145	40	1	1018	1	WNT16	7	120979236	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1064094	120979236	38159427	733	17455											
FEZF1	389549	broad.mit.edu	37	chr7	121942278	121942278	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgccgcacgtggggcaggTgaaaggcttcttgtcgttgt	5	12	15	9	3	1	1	0	1	1	0	2	1	1	1	1	4	1	4	1	4	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:121942278T>C	uc003vkd.2	-	4	1275	c.1201A>G	c.(1201-1203)ACC>GCC	p.T401A	FEZF1_uc003vkc.2_Missense_Mutation_p.T351A|uc010lko.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	401	C2H2-type 6.				cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						GTGGGGCAGGTGAAAGGCTTC	0.572													8	207					0	0	0.008291	0	0		C	121942278	C	C	121942278	3	2	20	1	0	0	0	0	1	0	0	0	5839	1696	59	3	230	3	FEZF1	7	121942278	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	963042	121942278	37196385	734	17456											
GPR37	2861	broad.mit.edu	37	chr7	124404743	124404743	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcccctctgcctgcagcCgggtcacggcccggggccgc	2	5	14	20	5	2	0	1	0	1	0	3	0	3	0	7	4	3	1	7	4	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:124404743C>T	uc003vli.2	-	1	939	c.288G>A	c.(286-288)CCG>CCA	p.P96P		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	96	Extracellular (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						TGCCTGCAGCCGGGTCACGGC	0.736													6	7					0	0	0.00499	0	0		T	124404743	T	T	124404743	2	4	20	1	0	0	0	0	0	0	0	1	6706	639	23	1		1	GPR37	7	124404743	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2462465	124404743	34733920	735	17457											
LRRC4	64101	broad.mit.edu	37	chr7	127669622	127669622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgttgaggtctcgaggtgCgtccatgatgaagggggcag	9	9	17	6	2	1	3	0	3	1	0	3	4	2	3	1	4	1	2	1	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:127669622C>T	uc003vmk.2	-	2	1209	c.1072G>A	c.(1072-1074)GCA>ACA	p.A358T	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	358	Extracellular (Potential).|Ig-like.					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		TCTCGAGGTGCGTCCATGATG	0.597													11	56					0	0	0.010729	0	0		T	127669622	T	T	127669622	3	4	20	1	0	0	0	0	1	0	0	0	9015	768	27	1	893	1	LRRC4	7	127669622	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3264879	127669622	31469041	736	17458											
SND1	27044	broad.mit.edu	37	chr7	127729706	127729706	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgaaggaagggctggtcAtggtggaggtgcgcaaggag	9	7	21	4	1	1	1	1	1	0	0	1	4	1	4	0	8	1	2	0	8	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:127729706A>G	uc003vmi.2	+	22	2810	c.2584A>G	c.(2584-2586)ATG>GTG	p.M862V	SND1_uc010lle.2_Missense_Mutation_p.M515V	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	862					gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						AGGGCTGGTCATGGTGGAGGT	0.592													14	67					0	0	0.004007	0	0		G	127729706	G	G	127729706	3	3	20	1	0	0	0	0	1	0	0	0	14869	217	8	3	2670	3	SND1	7	127729706	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	60084	127729706	31408957	737	17459											
TNPO3	23534	broad.mit.edu	37	chr7	128597313	128597313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgcaggagtgtgagctatCgaaacaacctggtgaagtct	12	9	13	7	1	1	2	0	2	1	0	2	4	1	3	1	2	4	2	1	2	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:128597313C>T	uc003vol.1	-	22	3142	c.2768G>A	c.(2767-2769)CGA>CAA	p.R923Q	TNPO3_uc010llx.1_Intron|TNPO3_uc003vom.1_Missense_Mutation_p.R857Q|TNPO3_uc010lly.1_Missense_Mutation_p.R957Q|TNPO3_uc010llz.1_Missense_Mutation_p.R859Q	NM_012470	NP_036602	Q9Y5L0	TNPO3_HUMAN	transportin 3	923					splicing factor protein import into nucleus	cytoplasm|nucleus	protein binding|receptor activity	p.R923*(1)		ovary(2)|skin(2)|lung(1)	5						TGTGAGCTATCGAAACAACCT	0.512													24	90					0	0	0.008361	0	0		T	128597313	T	T	128597313	3	4	20	1	0	0	0	0	1	0	0	0	16362	884	31	1	7	1	TNPO3	7	128597313	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	867607	128597313	30541350	738	17460											
PLXNA4	91584	broad.mit.edu	37	chr7	131859616	131859616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagttctatagtccaggaacGgaatcccggctccatccagg	11	8	10	12	2	1	0	0	0	1	0	5	2	5	2	4	4	1	2	4	4	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:131859616G>A	uc003vra.3	-	21	4167	c.3938C>T	c.(3937-3939)CCG>CTG	p.P1313L		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1313	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GTCCAGGAACGGAATCCCGGC	0.577													37	173					0	0	0.005524	0	0		A	131859616	A	A	131859616	3	1	20	1	0	0	0	0	1	0	0	0	12141	1116	39	1	1794	1	PLXNA4	7	131859616	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3262303	131859616	27279047	739	17461											
PLXNA4	91584	broad.mit.edu	37	chr7	131895837	131895837	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaggttcttggccttcagCgtgataggcttgatcacctc	6	12	13	10	1	3	2	2	2	1	0	4	3	3	3	2	4	1	2	2	4	1	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:131895837C>T	uc003vra.3	-	10	2392	c.2163G>A	c.(2161-2163)ACG>ACA	p.T721T		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	721	Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TGGCCTTCAGCGTGATAGGCT	0.652													3	7					0	0	0.004672	0	0		T	131895837	T	T	131895837	2	4	20	1	0	0	0	0	0	0	0	1	12141	755	27	1		1	PLXNA4	7	131895837	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	36221	131895837	27242826	740	17462											
EXOC4	60412	broad.mit.edu	37	chr7	133580444	133580444	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caattcctcaacatggtgtgCgtgaagctccaggagtacaa	12	9	10	10	1	1	1	1	1	0	0	3	2	3	2	2	2	4	2	2	2	5	2	rs34995232		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:133580444C>T	uc003vrk.2	+	12	1862	c.1827C>T	c.(1825-1827)TGC>TGT	p.C609C	EXOC4_uc011kpo.1_Silent_p.C508C|EXOC4_uc003vrl.2_Silent_p.C219C|EXOC4_uc011kpp.1_Silent_p.C141C	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	609					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				ACATGGTGTGCGTGAAGCTCC	0.473													36	173					0	0	0.003271	0	0		T	133580444	T	T	133580444	2	4	20	1	0	0	0	0	0	0	0	1	5314	776	27	1		1	EXOC4	7	133580444	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1684607	133580444	25558219	741	17463											
AKR1B1	231	broad.mit.edu	37	chr7	134132069	134132069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttaaagttctcagcaatgCgttctggtgtcacagacttg	9	13	9	10	1	3	1	2	0	2	1	4	1	3	1	1	1	2	3	1	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:134132069C>T	uc003vrp.1	-	8	880	c.806G>A	c.(805-807)CGC>CAC	p.R269H	AKR1B1_uc003vrq.1_RNA	NM_001628	NP_001619	P15121	ALDR_HUMAN	aldo-keto reductase family 1, member B1	269	NADP.				C21-steroid hormone biosynthetic process|carbohydrate metabolic process|response to stress	cytosol|extracellular space|nucleus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding			ovary(3)	3					NADH(DB00157)|Sulindac(DB00605)	CTCAGCAATGCGTTCTGGTGT	0.527													17	85					0	0	0.007413	0	0		T	134132069	T	T	134132069	3	4	20	1	0	0	0	0	1	0	0	0	466	768	27	1	156	1	AKR1B1	7	134132069	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	551625	134132069	25006594	742	17464											
AKR1B1	231	broad.mit.edu	37	chr7	134132123	134132123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcctctgcatggggaacCggatcaggacctgtgagccc	8	8	13	12	1	2	1	1	1	1	0	3	4	3	4	4	4	3	2	4	4	1	1	rs145261078		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:134132123C>T	uc003vrp.1	-	8	826	c.752G>A	c.(751-753)CGG>CAG	p.R251Q	AKR1B1_uc003vrq.1_RNA	NM_001628	NP_001619	P15121	ALDR_HUMAN	aldo-keto reductase family 1, member B1	251	NADP.				C21-steroid hormone biosynthetic process|carbohydrate metabolic process|response to stress	cytosol|extracellular space|nucleus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding			ovary(3)	3					NADH(DB00157)|Sulindac(DB00605)	CATGGGGAACCGGATCAGGAC	0.358													16	76					0	0	0.006122	0	0		T	134132123	T	T	134132123	3	4	20	1	0	0	0	0	1	0	0	0	466	652	23	1	210	1	AKR1B1	7	134132123	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	54	134132123	25006540	743	17465											
AKR1B1	231	broad.mit.edu	37	chr7	134136454	134136454	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcacagtcgatgtggcggtAcccgacgtcaatggccacct	8	7	13	13	4	1	0	1	0	0	0	2	2	1	0	3	4	1	2	3	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:134136454A>G	uc003vrp.1	-	2	192	c.118T>C	c.(118-120)TAC>CAC	p.Y40H	AKR1B1_uc003vrq.1_RNA	NM_001628	NP_001619	P15121	ALDR_HUMAN	aldo-keto reductase family 1, member B1	40					C21-steroid hormone biosynthetic process|carbohydrate metabolic process|response to stress	cytosol|extracellular space|nucleus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding			ovary(3)	3					NADH(DB00157)|Sulindac(DB00605)	ATGTGGCGGTACCCGACGTCA	0.592													5	47					0	0	0.001168	0	0		G	134136454	G	G	134136454	3	3	20	1	0	0	0	0	1	0	0	0	466	391	14	3	868	3	AKR1B1	7	134136454	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	4331	134136454	25002209	744	17466											
CALD1	800	broad.mit.edu	37	chr7	134644737	134644737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatttcagggaacaaaaagcGcaaaacctacaaagccggca	19	4	8	10	2	1	0	1	0	0	0	1	1	1	1	2	2	5	2	2	2	8	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:134644737G>A	uc003vrz.2	+	12	2533	c.2074G>A	c.(2074-2076)GCA>ACA	p.A692T	CALD1_uc003vry.2_Missense_Mutation_p.A437T|CALD1_uc003vsa.2_Missense_Mutation_p.A463T|CALD1_uc003vsb.2_Missense_Mutation_p.A437T|CALD1_uc010lmm.2_Missense_Mutation_p.A462T|CALD1_uc011kpt.1_Missense_Mutation_p.A211T|CALD1_uc003vsc.2_Missense_Mutation_p.A457T|CALD1_uc003vsd.2_Missense_Mutation_p.A431T|CALD1_uc011kpu.1_Missense_Mutation_p.A442T|CALD1_uc011kpv.1_Missense_Mutation_p.A301T|CALD1_uc003vse.2_Missense_Mutation_p.A555T|CALD1_uc010lmn.2_RNA	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	692					cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						AACAAAAAGCGCAAAACCTAC	0.418													10	60					0	0	0.008291	0	0		A	134644737	A	A	134644737	3	1	20	1	0	0	0	0	1	0	0	0	2584	1087	38	1	2169	1	CALD1	7	134644737	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	508283	134644737	24493926	745	17467											
KIAA1549	57670	broad.mit.edu	37	chr7	138546182	138546182	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggatggtgtctgcacatcGgctgggaggtcaggatccga	8	8	17	8	2	2	0	1	0	1	0	4	5	3	3	1	6	1	2	1	6	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:138546182G>A	uc011kql.1	-	16	4999	c.4950C>T	c.(4948-4950)GCC>GCT	p.A1650A	KIAA1549_uc011kqi.1_Silent_p.A434A|KIAA1549_uc003vuk.3_Silent_p.A1600A|KIAA1549_uc011kqj.1_Silent_p.A1650A|KIAA1549_uc011kqk.1_Silent_p.A434A	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1650						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TCTGCACATCGGCTGGGAGGT	0.542			O	BRAF	pilocytic astrocytoma								4	21					0	0	0.009096	0	0		A	138546182	A	A	138546182	2	1	20	1	0	0	0	0	0	0	0	1	8260	1103	39	1		1	KIAA1549	7	138546182	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3901445	138546182	20592481	746	17468											
UBN2	254048	broad.mit.edu	37	chr7	138936727	138936727	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaccccgtaaacaccggaAggatcggctacaagatttaa	16	6	9	10	3	0	1	0	0	0	1	1	4	0	3	3	3	3	2	3	3	7	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:138936727A>G	uc011kqr.1	+	3	587	c.587A>G	c.(586-588)AAG>AGG	p.K196R		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	196										ovary(1)|skin(1)	2						AAACACCGGAAGGATCGGCTA	0.368													21	115					0	0	0.006999	0	0		G	138936727	G	G	138936727	3	3	20	1	0	0	0	0	1	0	0	0	16919	72	3	3	597	3	UBN2	7	138936727	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	390545	138936727	20201936	747	17469											
UBN2	254048	broad.mit.edu	37	chr7	138944059	138944059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagatgaagaagcggaagcGgaaagaggaaggggaaaagg	18	2	19	2	2	0	4	0	2	0	3	0	9	0	8	0	6	2	0	0	6	7	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:138944059G>A	uc011kqr.1	+	5	848	c.848G>A	c.(847-849)CGG>CAG	p.R283Q	UBN2_uc003vuv.2_Missense_Mutation_p.R6Q	NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	283	Lys-rich.									ovary(1)|skin(1)	2						AAGCGGAAGCGGAAAGAGGAA	0.383													15	134					0	0	0.004007	0	0		A	138944059	A	A	138944059	3	1	20	1	0	0	0	0	1	0	0	0	16919	1116	39	1	866	1	UBN2	7	138944059	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	7332	138944059	20194604	748	17470											
KLRG2	346689	broad.mit.edu	37	chr7	139167663	139167663	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcccggggcagcttctcGtcgccgtccaaccccgcgcg	4	5	13	19	8	1	0	0	0	1	0	4	0	2	0	5	3	2	2	5	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:139167663G>A	uc003vvb.2	-	1	795	c.726C>T	c.(724-726)GAC>GAT	p.D242D	KLRG2_uc010lnc.2_Silent_p.D242D	NM_198508	NP_940910	A4D1S0	KLRG2_HUMAN	killer cell lectin-like receptor subfamily G,	242						integral to membrane	sugar binding			central_nervous_system(1)	1	Melanoma(164;0.233)					GCAGCTTCTCGTCGCCGTCCA	0.736													3	6					0	0	0.004672	0	0		A	139167663	A	A	139167663	2	1	20	1	0	0	0	0	0	0	0	1	8438	1136	40	1		1	KLRG2	7	139167663	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	223604	139167663	19971000	749	17471											
DENND2A	27147	broad.mit.edu	37	chr7	140227168	140227168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgagctggagagcagccCgatgaggaagggcgtcggcg	9	3	19	10	5	0	2	0	1	0	1	1	6	0	3	1	4	4	2	1	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:140227168C>T	uc010lnj.2	-	13	2600	c.2455G>A	c.(2455-2457)GGG>AGG	p.G819R	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.G819R|DENND2A_uc003vvw.2_Missense_Mutation_p.G819R	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	819	DENN.									ovary(3)|breast(1)	4	Melanoma(164;0.00956)					GAGAGCAGCCCGATGAGGAAG	0.672													4	8					0	0	0.000602	0	0		T	140227168	T	T	140227168	3	4	20	1	0	0	0	0	1	0	0	0	4435	652	23	1	598	1	DENND2A	7	140227168	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1059505	140227168	18911495	750	17472											
ADCK2	90956	broad.mit.edu	37	chr7	140380868	140380868	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcctgtgtccagttaccaGcaggcaggaattcccgtgga	8	9	13	11	1	0	0	0	0	0	0	2	2	2	2	4	3	3	3	4	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:140380868G>A	uc003vvy.1	+	4	1414	c.1236G>A	c.(1234-1236)CAG>CAA	p.Q412Q	ADCK2_uc003vvz.2_Silent_p.Q412Q	NM_052853	NP_443085	Q7Z695	ADCK2_HUMAN	aarF domain containing kinase 2	412	Protein kinase.					integral to membrane	ATP binding|protein serine/threonine kinase activity				0	Melanoma(164;0.00956)					CCAGTTACCAGCAGGCAGGAA	0.577													20	51					0	0	0.014323	0	0		A	140380868	A	A	140380868	2	1	20	1	0	0	0	0	0	0	0	1	289	962	34	2		2	ADCK2	7	140380868	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	153700	140380868	18757795	751	17473											
FAM131B	9715	broad.mit.edu	37	chr7	143053849	143053849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccttgccaggtccactgCgcctacccccggagcccagt	5	6	10	20	2	0	0	0	0	0	0	1	1	1	1	8	2	4	0	8	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:143053849C>T	uc003wct.2	-	6	2499	c.793G>A	c.(793-795)GCA>ACA	p.A265T	FAM131B_uc010loz.2_Missense_Mutation_p.A233T|FAM131B_uc003wcu.3_Missense_Mutation_p.A265T|FAM131B_uc010lpa.2_Missense_Mutation_p.A293T	NM_014690	NP_055505	Q86XD5	F131B_HUMAN	hypothetical protein LOC9715 isoform b	265											0	Melanoma(164;0.205)					AGGTCCACTGCGCCTACCCCC	0.622													67	219					0	0	0.01441	0	0		T	143053849	T	T	143053849	3	4	20	1	0	0	0	0	1	0	0	0	5451	768	27	1	209	1	FAM131B	7	143053849	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2672981	143053849	16084814	752	17474											
OR2A2	442361	broad.mit.edu	37	chr7	143807240	143807240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtcctcaagctggcctgtGctgacacctgggttaaccaa	8	10	10	13	0	1	1	1	1	0	0	2	1	2	1	4	2	3	3	4	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:143807240G>A	uc011ktz.1	+	1	565	c.565G>A	c.(565-567)GCT>ACT	p.A189T		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					GCTGGCCTGTGCTGACACCTG	0.507													42	271					0	0	0.007835	0	0		A	143807240	A	A	143807240	3	1	20	1	0	0	0	0	1	0	0	0	10996	1319	46	2	567	2	OR2A2	7	143807240	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	753391	143807240	15331423	753	17475											
ZNF786	136051	broad.mit.edu	37	chr7	148767606	148767606	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggacaggattttgtgtgtActctgatgtgctccgcaagc	8	12	12	9	1	1	1	0	1	1	0	2	3	2	3	1	2	3	3	1	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:148767606A>G	uc003wfh.2	-	4	2395	c.2258T>C	c.(2257-2259)GTA>GCA	p.V753A	ZNF786_uc011kuk.1_Missense_Mutation_p.V716A|ZNF786_uc003wfi.2_Missense_Mutation_p.V667A	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	753	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TTTTGTGTGTACTCTGATGTG	0.517													7	378					0	0	0.004482	0	0		G	148767606	G	G	148767606	3	3	20	1	0	0	0	0	1	0	0	0	18183	391	14	3	94	3	ZNF786	7	148767606	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	4960366	148767606	10371057	754	17476											
ZNF282	8427	broad.mit.edu	37	chr7	148909543	148909543	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatttggcagacagagataTtcccacggatcccaattcag	12	9	10	10	1	1	2	1	0	0	2	3	5	3	4	2	3	0	1	2	3	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:148909543T>A	uc003wfm.2	+	6	1151	c.1046T>A	c.(1045-1047)ATT>AAT	p.I349N	ZNF282_uc011kun.1_Missense_Mutation_p.I349N|ZNF282_uc003wfn.2_Missense_Mutation_p.I289N|ZNF282_uc003wfo.2_Intron	NM_003575	NP_003566	Q9UDV7	ZN282_HUMAN	zinc finger protein 282	349					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)	Lung(243;0.145)		GACAGAGATATTCCCACGGAT	0.323													11	29					0	0	0.010729	0	0		A	148909543	A	A	148909543	3	1	20	1	0	0	0	0	1	0	0	0	17844	1493	52	5	1068	5	ZNF282	7	148909543	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	141937	148909543	10229120	755	17477											
KRBA1	84626	broad.mit.edu	37	chr7	149423093	149423093	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctcatccagcagcacCgactgggacctggattttgg	7	11	10	13	1	2	0	1	0	1	0	4	3	3	2	4	3	2	2	4	3	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:149423093C>T	uc003wfz.2	+	11	1815	c.1416C>T	c.(1414-1416)ACC>ACT	p.T472T	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_Silent_p.T140T	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	472										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCAGCAGCACCGACTGGGACC	0.647													7	13					0	0	0.004482	0	0		T	149423093	T	T	149423093	2	4	20	1	0	0	0	0	0	0	0	1	8455	639	23	1		1	KRBA1	7	149423093	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	513550	149423093	9715570	756	17478											
TMEM176B	28959	broad.mit.edu	37	chr7	150490222	150490222	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcctccttctgccattggTtctcttgacttcgccgcatc	4	15	6	16	2	2	1	0	1	2	0	7	1	4	1	4	1	1	2	4	1	0	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:150490222T>C	uc003wht.3	-	5	720	c.554A>G	c.(553-555)AAC>AGC	p.N185S	TMEM176B_uc003whu.3_Missense_Mutation_p.N185S|TMEM176B_uc003whv.3_Missense_Mutation_p.N148S|TMEM176B_uc003whw.3_Missense_Mutation_p.N185S	NM_001101313	NP_001094783	Q3YBM2	T176B_HUMAN	transmembrane protein 176B isoform a	185					cell differentiation|organ morphogenesis	integral to membrane|nuclear membrane				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTGCCATTGGTTCTCTTGACT	0.517													4	125					0	0	0.009096	0	0		C	150490222	C	C	150490222	3	2	20	1	0	0	0	0	1	0	0	0	16118	1725	60	3	270	3	TMEM176B	7	150490222	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1067129	150490222	8648441	757	17479											
SLC4A2	6522	broad.mit.edu	37	chr7	150771788	150771788	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcgttcccagtggattctcGgtgactgccccagaaaagag	10	8	12	11	2	1	3	0	1	1	2	3	4	2	4	3	2	2	1	3	2	2	2	rs17852574		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:150771788G>A	uc003wit.3	+	19	3163	c.2907G>A	c.(2905-2907)TCG>TCA	p.S969S	SLC4A2_uc011kve.1_Silent_p.S960S|SLC4A2_uc003wiu.3_Silent_p.S955S|SLC4A2_uc003wiv.3_Silent_p.S163S	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	969	Membrane (anion exchange).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GTGGATTCTCGGTGACTGCCC	0.592													25	95					0	0	0.005443	0	0		A	150771788	A	A	150771788	2	1	20	1	0	0	0	0	0	0	0	1	14679	1103	39	1		1	SLC4A2	7	150771788	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	281566	150771788	8366875	758	17480											
FASTK	10922	broad.mit.edu	37	chr7	150774091	150774091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtcccggcagaaatgccagCgttcccgcaacaccagcacc	10	4	9	18	4	0	1	0	0	0	1	2	1	2	1	5	1	4	4	5	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:150774091C>T	uc003wix.1	-	9	1549	c.1451G>A	c.(1450-1452)CGC>CAC	p.R484H	uc011kvf.1_5'Flank|FASTK_uc003wiw.1_Missense_Mutation_p.R245H|FASTK_uc003wiy.1_Missense_Mutation_p.R343H|FASTK_uc003wiz.1_Missense_Mutation_p.R457H|FASTK_uc003wja.1_3'UTR	NM_006712	NP_006703	Q14296	FASTK_HUMAN	Fas-activated serine/threonine kinase isoform 1	484	RAP.				apoptosis|induction of apoptosis by extracellular signals|regulation of RNA splicing		ATP binding|Fas-activated serine/threonine kinase activity|protein binding			lung(2)|stomach(2)	4			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)|LUSC - Lung squamous cell carcinoma(290;0.0718)|Lung(243;0.138)		GAAATGCCAGCGTTCCCGCAA	0.701													17	55					0	0	0.008871	0	0		T	150774091	T	T	150774091	3	4	20	1	0	0	0	0	1	0	0	0	5698	768	27	1	206	1	FASTK	7	150774091	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2303	150774091	8364572	759	17481											
GALNT11	63917	broad.mit.edu	37	chr7	151810452	151810452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgacacacaactctttgcGgctggcacatgtctggttgg	8	11	11	11	1	2	1	0	1	2	0	2	1	2	1	0	4	2	3	0	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:151810452G>A	uc010lqg.1	+	8	1432	c.1202G>A	c.(1201-1203)CGG>CAG	p.R401Q	GALNT11_uc011kvm.1_Missense_Mutation_p.R320Q|GALNT11_uc003wku.2_Missense_Mutation_p.R401Q|GALNT11_uc003wkw.1_Missense_Mutation_p.R149Q	NM_022087	NP_071370	Q8NCW6	GLT11_HUMAN	N-acetylgalactosaminyltransferase 11	401	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.214)	OV - Ovarian serous cystadenocarcinoma(82;0.00168)	UCEC - Uterine corpus endometrioid carcinoma (81;0.177)|BRCA - Breast invasive adenocarcinoma(188;0.0932)		AACTCTTTGCGGCTGGCACAT	0.468													36	128					0	0	0.004878	0	0		A	151810452	A	A	151810452	3	1	20	1	0	0	0	0	1	0	0	0	6224	1116	39	1	1228	1	GALNT11	7	151810452	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1036361	151810452	7328211	760	17482											
LMBR1	64327	broad.mit.edu	37	chr7	156520652	156520652	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttggcattgctgtttcaTcaaccaataggcaaagaata	13	13	7	8	0	2	1	2	0	0	1	2	1	2	1	1	2	2	4	1	2	6	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:156520652T>G	uc003wmw.3	-	12	1180	c.965A>C	c.(964-966)GAT>GCT	p.D322A	LMBR1_uc003wmv.3_Missense_Mutation_p.D170A|LMBR1_uc003wmx.3_Missense_Mutation_p.D170A|LMBR1_uc010lqn.2_Missense_Mutation_p.D363A|LMBR1_uc011kvx.1_Missense_Mutation_p.D301A	NM_022458	NP_071903	Q8WVP7	LMBR1_HUMAN	limb region 1 protein	322	Extracellular (Potential).					integral to membrane	receptor activity				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.208)		TGCTGTTTCATCAACCAATAG	0.363													7	33					0	0	0.001984	0	0		G	156520652	G	G	156520652	3	3	20	1	0	0	0	0	1	0	0	0	8857	1435	50	5	531	5	LMBR1	7	156520652	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	4710200	156520652	2618011	761	17483											
PTPRN2	5799	broad.mit.edu	37	chr7	157985114	157985114	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggaagggcaggtggcgtcGgagggcgttggccagggcag	7	4	22	8	3	0	0	0	0	0	0	1	2	0	2	1	8	0	3	1	8	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:157985114G>A	uc003wno.2	-	5	575	c.454C>T	c.(454-456)CGA>TGA	p.R152*	PTPRN2_uc003wnp.2_Nonsense_Mutation_p.R135*|PTPRN2_uc003wnq.2_Nonsense_Mutation_p.R152*|PTPRN2_uc003wnr.2_Nonsense_Mutation_p.R114*|PTPRN2_uc011kwa.1_Nonsense_Mutation_p.R175*	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	152	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		AGGTGGCGTCGGAGGGCGTTG	0.652													33	57					0	0	0.005524	0	0		A	157985114	A	A	157985114	4	1	20	1	0	0	0	0	0	1	0	0	12833	1124	39	1	2669	1	PTPRN2	7	157985114	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1464462	157985114	1153549	762	17484											
NCAPG2	54892	broad.mit.edu	37	chr7	158486107	158486107	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctgtcaataaattcttcAgcctttgccataattcttct	10	17	3	11	0	6	0	2	0	4	0	6	0	6	0	2	0	2	0	2	0	4	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:158486107A>G	uc003wnv.1	-	3	306	c.161T>C	c.(160-162)CTG>CCG	p.L54P	NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.L54P|NCAPG2_uc011kwe.1_Missense_Mutation_p.L54P	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	54					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		TAAATTCTTCAGCCTTTGCCA	0.408													9	180					0	0	0.004482	0	0		G	158486107	G	G	158486107	3	3	20	1	0	0	0	0	1	0	0	0	10227	188	7	3	3374	3	NCAPG2	7	158486107	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	500993	158486107	652556	763	17485											
ESYT2	57488	broad.mit.edu	37	chr7	158531742	158531742	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcacgaccacgataagctTgtttctctgcgagctgtgcc	8	11	10	12	3	1	0	0	0	1	0	2	3	1	0	2	0	5	4	2	0	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr7:158531742T>C	uc003wob.1	-	18	2386	c.2320A>G	c.(2320-2322)AAG>GAG	p.K774E	ESYT2_uc003wny.1_RNA|ESYT2_uc003wnz.1_Missense_Mutation_p.K213E|ESYT2_uc003woa.1_Missense_Mutation_p.K351E	NM_020728	NP_065779	A0FGR8	ESYT2_HUMAN	family with sequence similarity 62 (C2 domain	802	C2 3.					integral to membrane|plasma membrane				central_nervous_system(2)|kidney(1)	3						ACGATAAGCTTGTTTCTCTGC	0.607													21	132					0	0	0.003954	0	0		C	158531742	C	C	158531742	3	2	20	1	0	0	0	0	1	0	0	0	5273	1821	63	3	381	3	ESYT2	7	158531742	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	45635	158531742	606921	764	17486											
CSMD1	64478	broad.mit.edu	37	chr8	2808696	2808696	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcattcaccttactgcttgTtgcattgaaccagtcaacag	10	12	8	11	0	2	1	2	1	0	0	2	1	2	1	2	1	5	4	2	1	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:2808696T>C	uc011kwk.1	-	66	10534	c.10144A>G	c.(10144-10146)ACA>GCA	p.T3382A	CSMD1_uc011kwj.1_Missense_Mutation_p.T2696A|CSMD1_uc010lrg.2_Missense_Mutation_p.T1273A	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3382	Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TTACTGCTTGTTGCATTGAAC	0.468													4	38					0	0	0.009096	0	0		C	2808696	C	C	2808696	3	2	20	1	0	0	0	0	1	0	0	0	3947	1725	60	3	573	3	CSMD1	8	2808696	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08		2808696	143555326	765	17487											
CSMD1	64478	broad.mit.edu	37	chr8	3200878	3200878	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgttgaactctagccacAggtgattggatgtgctgttt	7	15	13	6	0	1	2	0	2	1	0	1	3	1	3	1	3	3	3	1	3	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:3200878A>G	uc011kwk.1	-	23	3962	c.3572T>C	c.(3571-3573)CTG>CCG	p.L1191P	CSMD1_uc011kwj.1_Missense_Mutation_p.L583P|CSMD1_uc003wqe.2_Missense_Mutation_p.L347P	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1191	Extracellular (Potential).|CUB 7.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CTCTAGCCACAGGTGATTGGA	0.428													15	73					0	0	0.00499	0	0		G	3200878	G	G	3200878	3	3	20	1	0	0	0	0	1	0	0	0	3947	188	7	3	7317	3	CSMD1	8	3200878	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	392182	3200878	143163144	766	17488											
CSMD1	64478	broad.mit.edu	37	chr8	3216843	3216843	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggactccaggatcatcAcatggctccaggtcatattc	10	9	10	12	0	3	0	3	0	0	0	6	2	5	2	2	4	0	2	2	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:3216843A>G	uc011kwk.1	-	21	3528	c.3138T>C	c.(3136-3138)TGT>TGC	p.C1046C	CSMD1_uc011kwj.1_Silent_p.C438C|CSMD1_uc003wqe.2_Silent_p.C202C	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1046	Sushi 6.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CAGGATCATCACATGGCTCCA	0.433													16	43					0	0	0.004007	0	0		G	3216843	G	G	3216843	2	3	20	1	0	0	0	0	0	0	0	1	3947	157	6	3		3	CSMD1	8	3216843	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	15965	3216843	143147179	767	17489											
MCPH1	79648	broad.mit.edu	37	chr8	6302587	6302587	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgagctgcagaagtctttcTaagaaggagagaacaagcat	15	9	11	6	0	2	4	0	1	2	3	2	6	2	5	0	1	4	3	0	1	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:6302587T>C	uc003wqi.2	+	8	1412	c.1344T>C	c.(1342-1344)TCT>TCC	p.S448S	MCPH1_uc003wqh.2_Silent_p.S448S|MCPH1_uc011kwl.1_Silent_p.S400S	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	448						microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		GAAGTCTTTCTAAGAAGGAGA	0.393													28	143					0	0	0.013726	0	0		C	6302587	C	C	6302587	2	2	20	1	0	0	0	0	0	0	0	1	9416	1509	53	3		3	MCPH1	8	6302587	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3085744	6302587	140061435	768	17490											
PRSS55	203074	broad.mit.edu	37	chr8	10383222	10383222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggggagcccaccgccctcagCcccctcatccccccagccca	6	3	8	24	1	2	0	2	0	0	0	3	1	3	1	9	2	3	0	9	2	0	0	rs148104469		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:10383222C>T	uc003wta.2	+	1	142	c.127C>T	c.(127-129)CCC>TCC	p.P43S	uc010lru.2_Intron	NM_198464	NP_940866	Q6UWB4	PRS55_HUMAN	hypothetical protein LOC203074 precursor	43	Extracellular (Potential).				proteolysis	integral to membrane	serine-type endopeptidase activity			ovary(1)	1						CCGCCCTCAGCCCCCTCATCC	0.667													8	23					0	0	0.004482	0	0		T	10383222	T	T	10383222	3	4	20	1	0	0	0	0	1	0	0	0	12656	739	26	2	129	2	PRSS55	8	10383222	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4080635	10383222	135980800	769	17491											
DLC1	10395	broad.mit.edu	37	chr8	12948849	12948849	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaaaagcttcttgcactcgGcgatcatatgggccagccct	9	9	11	12	2	2	0	1	0	1	0	3	2	2	1	2	3	3	2	2	3	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:12948849G>C	uc003wwm.2	-	14	4277	c.3833C>G	c.(3832-3834)GCC>GGC	p.A1278G	DLC1_uc003wwk.1_Missense_Mutation_p.A841G|DLC1_uc003wwl.1_Missense_Mutation_p.A875G|DLC1_uc011kxx.1_Missense_Mutation_p.A767G	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1278	Rho-GAP.				actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CTTGCACTCGGCGATCATATG	0.418													11	94					0	0	0.00245	0	0		C	12948849	C	C	12948849	3	2	20	1	0	0	0	0	1	0	0	0	4556	1203	42	5	773	5	DLC1	8	12948849	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2565627	12948849	133415173	770	17492											
FGF20	26281	broad.mit.edu	37	chr8	16850819	16850819	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagatgcattcggaagtaAgtttctcctgaaagagagaa	16	10	10	5	1	1	4	0	1	1	3	3	6	1	5	1	1	1	3	1	1	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:16850819A>C	uc003wxc.1	-	3	531	c.398T>G	c.(397-399)CTT>CGT	p.L133R	FGF20_uc010lsv.1_RNA|FGF20_uc010lsw.1_Silent_p.T98T	NM_019851	NP_062825	Q9NP95	FGF20_HUMAN	fibroblast growth factor 20	133					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	extracellular region|soluble fraction	growth factor activity			lung(1)	1				Colorectal(111;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		TTCGGAAGTAAGTTTCTCCTG	0.323													42	260					0	0	0.009718	0	0		C	16850819	C	C	16850819	3	2	20	1	0	0	0	0	1	0	0	0	5863	72	3	5	241	5	FGF20	8	16850819	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3901970	16850819	129513203	771	17493											
MTMR7	9108	broad.mit.edu	37	chr8	17157580	17157580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgccttgtgaagggctccGggatggaaatgatttcatat	10	12	12	7	2	1	2	1	2	0	0	3	4	2	4	2	3	0	1	2	3	3	3	rs140365611		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:17157580G>A	uc003wxm.2	-	14	2013	c.1774C>T	c.(1774-1776)CGG>TGG	p.R592W	MTMR7_uc011kya.1_Missense_Mutation_p.R226W|MTMR7_uc011kyb.1_Missense_Mutation_p.R183W	NM_004686	NP_004677	Q9Y216	MTMR7_HUMAN	myotubularin related protein 7	592							protein tyrosine phosphatase activity			skin(1)	1				Colorectal(111;0.112)		GAAGGGCTCCGGGATGGAAAT	0.478													58	189					0	0	0.01441	0	0		A	17157580	A	A	17157580	3	1	20	1	0	0	0	0	1	0	0	0	9966	1115	39	1	212	1	MTMR7	8	17157580	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	306761	17157580	129206442	772	17494											
ASAH1	427	broad.mit.edu	37	chr8	17916887	17916887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagacacatctttgcaggcGttctgcgatcatcaaggaag	11	10	10	10	2	5	1	3	0	2	1	5	3	5	2	0	2	2	2	0	2	2	2	rs147233112	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:17916887G>A	uc003wyl.2	-	12	1316	c.1004C>T	c.(1003-1005)ACG>ATG	p.T335M	ASAH1_uc010ltb.1_RNA|ASAH1_uc003wym.2_Missense_Mutation_p.T310M|ASAH1_uc003wyn.2_Missense_Mutation_p.T351M|ASAH1_uc003wyo.2_Missense_Mutation_p.T329M	NM_177924	NP_808592	Q13510	ASAH1_HUMAN	N-acylsphingosine amidohydrolase 1 isoform a	335					ceramide metabolic process	lysosome	ceramidase activity				0				Colorectal(111;0.0646)|COAD - Colon adenocarcinoma(73;0.228)		CTTTGCAGGCGTTCTGCGATC	0.453													26	84					0	0	0.003954	0	0		A	17916887	A	A	17916887	3	1	20	1	0	0	0	0	1	0	0	0	1007	1145	40	1	195	1	ASAH1	8	17916887	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	759307	17916887	128447135	773	17495											
LZTS1	11178	broad.mit.edu	37	chr8	20112401	20112401	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggggtgtggacgggtcaaAgtccaccccagcctggcccc	6	5	16	14	1	1	0	1	0	0	0	2	1	2	1	6	6	1	0	6	6	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:20112401A>T	uc003wzr.2	-	1	403	c.292T>A	c.(292-294)TTT>ATT	p.F98I	LZTS1_uc010ltg.1_Missense_Mutation_p.F98I	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	98					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		GACGGGTCAAAGTCCACCCCA	0.592													10	66					0	0	0.008291	0	0		T	20112401	T	T	20112401	3	4	20	1	0	0	0	0	1	0	0	0	9156	72	3	5	1510	5	LZTS1	8	20112401	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2195514	20112401	126251621	774	17496											
KIAA1967	57805	broad.mit.edu	37	chr8	22477167	22477169	+	In_Frame_Del	DEL	AGA	-	-																															acaggctgacagctgggtggAgaaggaggagccggcaccta																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:22477167_22477169delAGA	uc003xch.2	+	21	2881_2883	c.2744_2746delAGA	c.(2743-2748)GAGAAG>GAG	p.K916del	KIAA1967_uc003xci.2_In_Frame_Del_p.K916del|KIAA1967_uc003xcj.1_3'UTR	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	916					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		AGCTGGGTGGAGAAGGAGGAGCC	0.626													3	6	---	---	---	---						.	-	22477169	-	-	22477167	7	5	20	1	0	1	0	1	0	0	0	0	8281	304	11	0	2822	0	KIAA1967	8	22477167	In_Frame_Del	DEL	AGA	TCGA-BR-4362-01A-01D-1158-08	2364766	22477167	123886855	775	17497											
CHMP7	91782	broad.mit.edu	37	chr8	23115862	23115862	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcactgaggtctctcaaggCcaagcaacggacagagaagc	13	4	13	11	1	2	2	1	1	1	1	3	4	2	3	1	4	3	2	1	4	4	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:23115862C>A	uc003xdc.2	+	7	1508	c.860C>A	c.(859-861)GCC>GAC	p.A287D	CHMP7_uc011kzs.1_RNA|CHMP7_uc003xdd.2_Missense_Mutation_p.A177D|CHMP7_uc003xde.2_Missense_Mutation_p.A145D	NM_152272	NP_689485	Q8WUX9	CHMP7_HUMAN	CHMP family, member 7	287	Potential.				cellular membrane organization|late endosome to vacuole transport	cytosol|ESCRT III complex	protein transporter activity				0		Prostate(55;0.0513)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		TCTCTCAAGGCCAAGCAACGG	0.572													6	284					0.00116845	0.00118645	0.001168	1	0		A	23115862	A	A	23115862	3	1	20	1	0	0	0	0	1	0	0	0	3364	739	26	5	882	5	CHMP7	8	23115862	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	638695	23115862	123248160	776	17498											
NEFM	4741	broad.mit.edu	37	chr8	24773231	24773231	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggctctggatatagaaatCgctgcgtacaggtacgatgc	11	10	12	8	3	1	1	0	0	1	1	2	3	1	2	0	3	4	4	0	3	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:24773231C>T	uc003xed.3	+	2	1227	c.1194C>T	c.(1192-1194)ATC>ATT	p.I398I	NEFM_uc011lac.1_Silent_p.I398I|NEFM_uc010lue.2_Silent_p.I22I	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	398	Rod.|Coil 2B.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		ATATAGAAATCGCTGCGTACA	0.527													19	71					0	0	0.008871	0	0		T	24773231	T	T	24773231	2	4	20	1	0	0	0	0	0	0	0	1	10335	874	31	1		1	NEFM	8	24773231	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1657369	24773231	121590791	777	17499											
DOCK5	80005	broad.mit.edu	37	chr8	25158099	25158099	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcctttgccagtgagaacTatctaattcgttggggcagt	8	15	10	8	1	1	1	0	1	1	1	3	2	2	1	2	2	2	2	2	2	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:25158099T>C	uc003xeg.2	+	9	909	c.772T>C	c.(772-774)TAT>CAT	p.Y258H	DOCK5_uc010luf.1_RNA|DOCK5_uc003xeh.1_Intron|DOCK5_uc003xef.2_Missense_Mutation_p.Y258H	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	258						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		CAGTGAGAACTATCTAATTCG	0.433													8	31					0	0	0.004482	0	0		C	25158099	C	C	25158099	3	2	20	1	0	0	0	0	1	0	0	0	4696	1522	53	3	806	3	DOCK5	8	25158099	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	384868	25158099	121205923	778	17500											
EBF2	64641	broad.mit.edu	37	chr8	25902252	25902252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtgtcgttacctctgcgCggcgacattagcgtccacca	6	9	11	15	6	1	0	0	0	1	0	3	1	2	0	4	1	3	1	4	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:25902252C>T	uc003xes.1	-	1	141	c.124G>A	c.(124-126)GCG>ACG	p.A42T	PPP2R2A_uc003xek.2_Intron|EBF2_uc003xet.1_Missense_Mutation_p.A42T	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	42					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		TACCTCTGCGCGGCGACATTA	0.602													32	140					0	0	0.012213	0	0		T	25902252	T	T	25902252	3	4	20	1	0	0	0	0	1	0	0	0	4887	768	27	1	1667	1	EBF2	8	25902252	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	744153	25902252	120461770	779	17501											
ESCO2	157570	broad.mit.edu	37	chr8	27657160	27657160	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccagaacctgcagtctgtGggataagtagaatctgggtt	11	11	12	7	0	2	2	0	0	2	2	2	3	2	3	2	2	3	3	2	2	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:27657160G>T	uc003xgg.2	+	10	1683	c.1600G>T	c.(1600-1602)GGG>TGG	p.G534W	ESCO2_uc010luy.1_RNA	NM_001017420	NP_001017420	Q56NI9	ESCO2_HUMAN	establishment of cohesion 1 homolog 2	534					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding			central_nervous_system(1)	1		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|KIRC - Kidney renal clear cell carcinoma(542;0.0955)|Kidney(114;0.115)|Colorectal(74;0.132)		TGCAGTCTGTGGGATAAGTAG	0.453									SC_Phocomelia_syndrome				62	197					2.165e-29	2.33316e-29	0.01441	1	0		T	27657160	T	T	27657160	3	4	20	1	0	0	0	0	1	0	0	0	5257	1348	47	5	1634	5	ESCO2	8	27657160	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1754908	27657160	118706862	780	17502											
EXTL3	2137	broad.mit.edu	37	chr8	28575417	28575417	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagggcctttccatctttTcccccacactccctttgacc	5	13	4	19	0	1	1	0	1	1	0	5	1	5	1	7	1	0	0	7	1	0	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:28575417T>C	uc003xgz.1	+	3	2434	c.1841T>C	c.(1840-1842)TTC>TCC	p.F614S		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	614	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		TTCCATCTTTTCCCCCACACT	0.577													43	161					0	0	0.01441	0	0		C	28575417	C	C	28575417	3	2	20	1	0	0	0	0	1	0	0	0	5335	1783	62	3	1843	3	EXTL3	8	28575417	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	918257	28575417	117788605	781	17503											
BRF2	55290	broad.mit.edu	37	chr8	37702451	37702451	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctcagccatccgcagcaGcacagccagcagctcctgca	9	5	9	18	1	1	0	1	0	0	0	3	0	3	0	4	0	8	7	4	0	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:37702451G>A	uc003xkk.2	-	4	927	c.817C>T	c.(817-819)CTG>TTG	p.L273L		NM_018310	NP_060780	Q9HAW0	BRF2_HUMAN	RNA polymerase III transcription initiation	273					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter|transcription initiation, DNA-dependent	nucleoplasm	protein binding|zinc ion binding				0		Lung NSC(58;0.118)|all_lung(54;0.195)	BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;1.81e-10)			ATCCGCAGCAGCACAGCCAGC	0.582													4	24					0	0	0.004482	0	0		A	37702451	A	A	37702451	2	1	20	1	0	0	0	0	0	0	0	1	1514	962	34	2		2	BRF2	8	37702451	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	9127034	37702451	108661571	782	17504											
FGFR1	2260	broad.mit.edu	37	chr8	38275753	38275753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagtattattacctgtcccGaggcagctcccagcgagggt	10	9	11	11	2	0	0	0	0	0	0	2	2	2	0	3	2	3	3	3	2	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:38275753G>A	uc003xlp.2	-	11	2365	c.1423C>T	c.(1423-1425)CGG>TGG	p.R475W	FGFR1_uc010lwf.2_RNA|FGFR1_uc011lbo.1_Missense_Mutation_p.R473W|FGFR1_uc011lbp.1_Missense_Mutation_p.R386W|FGFR1_uc011lbq.1_Missense_Mutation_p.R384W|FGFR1_uc010lwk.2_Missense_Mutation_p.R465W	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	475	Cytoplasmic (Potential).				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	TACCTGTCCCGAGGCAGCTCC	0.532		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						40	183					0	0	0.010771	0	0		A	38275753	A	A	38275753	3	1	20	1	0	0	0	0	1	0	0	0	5877	1057	37	1	1081	1	FGFR1	8	38275753	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	573302	38275753	108088269	783	17505											
GINS4	84296	broad.mit.edu	37	chr8	41399516	41399516	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccctctttttcagggactaCgtgattgacctggagaaggg	8	12	12	9	1	2	3	1	2	1	1	3	5	3	4	2	3	1	0	2	3	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:41399516C>T	uc003xnx.2	+	8	792	c.582C>T	c.(580-582)TAC>TAT	p.Y194Y	GINS4_uc003xny.2_Silent_p.Y194Y	NM_032336	NP_115712	Q9BRT9	SLD5_HUMAN	GINS complex subunit 4	194	Important for GINS complex assembly.				DNA strand elongation involved in DNA replication|S phase of mitotic cell cycle	cytoplasm|nucleoplasm				skin(1)	1	Ovarian(28;0.014)|Colorectal(14;0.0202)|Lung SC(25;0.211)	all_lung(54;0.00732)|Lung NSC(58;0.0207)|Hepatocellular(245;0.0462)|Esophageal squamous(32;0.0844)	Colorectal(10;0.0014)|OV - Ovarian serous cystadenocarcinoma(14;0.00329)|LUSC - Lung squamous cell carcinoma(45;0.0137)|COAD - Colon adenocarcinoma(11;0.0147)			TCAGGGACTACGTGATTGACC	0.517													37	128					0	0	0.00623	0	0		T	41399516	T	T	41399516	2	4	20	1	0	0	0	0	0	0	0	1	6405	547	19	1		1	GINS4	8	41399516	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3123763	41399516	104964506	784	17506											
CHRNA6	8973	broad.mit.edu	37	chr8	42611479	42611479	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggatggtttctgtgatgAccagcaaaaacacagtcaga	14	9	11	7	0	2	3	1	2	1	1	2	4	2	4	1	2	2	2	1	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:42611479A>G	uc003xpj.2	-	5	909	c.863T>C	c.(862-864)GTC>GCC	p.V288A	CHRNA6_uc011lcw.1_Missense_Mutation_p.V273A	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	288	Helical; (Potential).					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			TTCTGTGATGACCAGCAAAAA	0.473													23	91					0	0	0.014323	0	0		G	42611479	G	G	42611479	3	3	20	1	0	0	0	0	1	0	0	0	3390	275	10	3	629	3	CHRNA6	8	42611479	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1211963	42611479	103752543	785	17507											
PRKDC	5591	broad.mit.edu	37	chr8	48846583	48846583	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccacgtagtctttgtatgtgGgcaccttccatttgccagtt	6	15	9	11	1	1	0	0	0	1	0	2	0	2	0	4	1	1	4	4	1	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:48846583G>T	uc003xqi.2	-	15	1622	c.1565C>A	c.(1564-1566)CCC>CAC	p.P522H	PRKDC_uc003xqj.2_Missense_Mutation_p.P522H|PRKDC_uc011ldh.1_Missense_Mutation_p.P522H	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	522					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TTTGTATGTGGGCACCTTCCA	0.468								NHEJ					25	98					2.44723e-14	2.59357e-14	0.004656	1	0		T	48846583	T	T	48846583	3	4	20	1	0	0	0	0	1	0	0	0	12543	1232	43	5	11108	5	PRKDC	8	48846583	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6235104	48846583	97517439	786	17508											
EFCAB1	79645	broad.mit.edu	37	chr8	49647703	49647703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagcttctgcagtttcttgCggttcatgtctggcgctcag	4	15	11	11	2	6	0	3	0	3	0	6	0	6	0	0	2	3	5	0	2	0	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:49647703C>T	uc003xqo.2	-	1	168	c.8G>A	c.(7-9)CGC>CAC	p.R3H	EFCAB1_uc003xqn.3_RNA|EFCAB1_uc011ldj.1_Missense_Mutation_p.R3H|EFCAB1_uc010lxx.2_RNA|EFCAB1_uc011ldk.1_RNA	NM_024593	NP_078869	Q9HAE3	EFCB1_HUMAN	EF-hand calcium binding domain 1 isoform a	3							calcium ion binding				0		all_epithelial(80;0.0134)|Lung NSC(129;0.0207)|all_lung(136;0.0464)				CAGTTTCTTGCGGTTCATGTC	0.622													40	127					0	0	0.011902	0	0		T	49647703	T	T	49647703	3	4	20	1	0	0	0	0	1	0	0	0	4939	768	27	1	651	1	EFCAB1	8	49647703	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	801120	49647703	96716319	787	17509											
SNTG1	54212	broad.mit.edu	37	chr8	51449331	51449331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatccctctacttcattcgCgcttctctcagtatgtgccc	5	15	6	15	2	4	1	2	1	2	0	7	1	5	1	2	0	2	2	2	0	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:51449331C>T	uc010lxy.1	+	12	1014	c.643C>T	c.(643-645)CGC>TGC	p.R215C	SNTG1_uc003xqs.1_Missense_Mutation_p.R215C|SNTG1_uc010lxz.1_Missense_Mutation_p.R215C|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	215					cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				ACTTCATTCGCGCTTCTCTCA	0.488													60	213					0	0	0.01441	0	0		T	51449331	T	T	51449331	3	4	20	1	0	0	0	0	1	0	0	0	14899	768	27	1	677	1	SNTG1	8	51449331	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1801628	51449331	94914691	788	17510											
PXDNL	137902	broad.mit.edu	37	chr8	52366130	52366130	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgccgtggctattgttggCatgacaggtaaatcgaccat	10	11	12	8	2	0	1	0	1	0	0	1	2	0	1	2	3	1	4	2	3	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:52366130C>A	uc003xqu.3	-	10	1299	c.1198G>T	c.(1198-1200)GCC>TCC	p.A400S		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	400	Ig-like C2-type 2.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CTATTGTTGGCATGACAGGTA	0.483													21	91					1.28384e-07	1.33249e-07	0.012319	1	0		A	52366130	A	A	52366130	3	1	20	1	0	0	0	0	1	0	0	0	12873	710	25	5	3249	5	PXDNL	8	52366130	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	916799	52366130	93997892	789	17511											
NPBWR1	2831	broad.mit.edu	37	chr8	53852727	53852727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgccgacgagctcttcaCgctggtgctgcccatcaaca	8	8	9	16	4	3	0	2	0	1	0	4	2	3	0	2	1	4	3	2	1	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:53852727C>T	uc011ldu.1	+	1	260	c.260C>T	c.(259-261)ACG>ATG	p.T87M		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	87	Helical; Name=2; (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				GAGCTCTTCACGCTGGTGCTG	0.622													10	20					0	0	0.008291	0	0		T	53852727	T	T	53852727	3	4	20	1	0	0	0	0	1	0	0	0	10587	536	19	1	262	1	NPBWR1	8	53852727	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1486597	53852727	92511295	790	17512											
MRPL15	29088	broad.mit.edu	37	chr8	55055348	55055348	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgatccaagaagtctgggTaagtttgttccacggtcatt	10	14	10	7	1	2	2	1	1	1	1	4	2	4	2	2	2	0	3	2	2	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:55055348T>C	uc003xsa.2	+	4	616	c.553_splice	c.e4+2	p.D185_splice		NM_014175	NP_054894	Q9P015	RM15_HUMAN	mitochondrial ribosomal protein L15 precursor						translation	large ribosomal subunit|mitochondrion	structural constituent of ribosome				0		Lung NSC(129;0.109)|all_epithelial(80;0.134)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;4.3e-07)|Epithelial(17;5.79e-05)|all cancers(17;0.000458)			GAAGTCTGGGTAAGTTTGTTC	0.363													4	174					0	0	0.009096	0	0		C	55055348	C	C	55055348	5	2	20	1	0	0	0	0	0	0	1	0	9798	1652	57	3	569	3	MRPL15	8	55055348	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1202621	55055348	91308674	791	17513											
MOS	4342	broad.mit.edu	37	chr8	57026447	57026447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcccccagaagcagcttcGcaggtagctctgagggactg	8	7	14	12	1	1	2	0	1	1	1	2	3	1	3	2	3	3	5	2	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:57026447G>A	uc011leb.1	-	1	95	c.95C>T	c.(94-96)GCG>GTG	p.A32V		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	32							ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			AAGCAGCTTCGCAGGTAGCTC	0.697													7	35					0	0	0.004482	0	0		A	57026447	A	A	57026447	3	1	20	1	0	0	0	0	1	0	0	0	9730	1087	38	1	948	1	MOS	8	57026447	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1971099	57026447	89337575	792	17514											
NSMAF	8439	broad.mit.edu	37	chr8	59502106	59502106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccattaacgtgtcctggcGtcttccaaatgctatggaat	9	13	8	11	2	1	0	0	0	1	0	4	1	4	1	3	2	2	1	3	2	4	3	rs146901191	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:59502106G>A	uc003xtt.2	-	26	2330	c.2116C>T	c.(2116-2118)CGC>TGC	p.R706C	NSMAF_uc011lee.1_Missense_Mutation_p.R737C	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	706					ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				GTGTCCTGGCGTCTTCCAAAT	0.373													21	77					0	0	0.014323	0	0		A	59502106	A	A	59502106	3	1	20	1	0	0	0	0	1	0	0	0	10693	1145	40	1	661	1	NSMAF	8	59502106	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2475659	59502106	86861916	793	17515											
CHD7	55636	broad.mit.edu	37	chr8	61736543	61736543	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgaagaacaggaactgcAagctgttggagggactcaag	13	6	15	7	0	1	2	1	1	0	1	1	5	1	5	0	4	4	4	0	4	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:61736543A>G	uc003xue.2	+	13	3823	c.3346A>G	c.(3346-3348)AAG>GAG	p.K1116E	CHD7_uc003xuf.2_Missense_Mutation_p.K229E	NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1116	Helicase ATP-binding.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			CAGGAACTGCAAGCTGTTGGA	0.458													27	156					0	0	0.008361	0	0		G	61736543	G	G	61736543	3	3	20	1	0	0	0	0	1	0	0	0	3333	131	5	3	3392	3	CHD7	8	61736543	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2234437	61736543	84627479	794	17516											
CHD7	55636	broad.mit.edu	37	chr8	61764728	61764728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccctaatgaagactgaccGgcgcagacggcggcctcgag	9	4	15	13	5	0	4	0	2	0	2	1	5	0	4	3	4	0	1	3	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:61764728G>A	uc003xue.2	+	29	6293	c.5816G>A	c.(5815-5817)CGG>CAG	p.R1939Q		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1939	Poly-Arg.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			AAGACTGACCGGCGCAGACGG	0.522													26	93					0	0	0.010818	0	0		A	61764728	A	A	61764728	3	1	20	1	0	0	0	0	1	0	0	0	3333	1116	39	1	5926	1	CHD7	8	61764728	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	28185	61764728	84599294	795	17517											
TTPA	7274	broad.mit.edu	37	chr8	63973933	63973933	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattccagaggaagaatgtCtgggaaatgctgaagcaagc	15	8	12	6	0	1	3	0	1	1	2	2	5	2	5	1	2	3	2	1	2	6	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:63973933C>A	uc003xux.1	-	5	747	c.715G>T	c.(715-717)GAC>TAC	p.D239Y		NM_000370	NP_000361	P49638	TTPA_HUMAN	tocopherol (alpha) transfer protein	239	CRAL-TRIO.				lipid metabolic process		transporter activity|vitamin E binding				0	Breast(64;0.0716)	all_cancers(86;0.145)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.123)			Vitamin E(DB00163)	GGAAGAATGTCTGGGAAATGC	0.393													16	90					6.94344e-10	7.28181e-10	0.006122	1	0		A	63973933	A	A	63973933	3	1	20	1	0	0	0	0	1	0	0	0	16762	913	32	5	125	5	TTPA	8	63973933	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2209205	63973933	82390089	796	17518											
BHLHE22	27319	broad.mit.edu	37	chr8	65493774	65493774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcggtggccgagagcagcGgcggcgagcagagccccgac	7	2	18	14	6	0	2	0	0	0	2	1	5	0	2	3	4	4	3	3	4	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:65493774G>A	uc003xvi.2	+	1	961	c.427G>A	c.(427-429)GGC>AGC	p.G143S	LOC401463_uc003xvh.2_Intron	NM_152414	NP_689627	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix domain containing, class	143	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						CGAGAGCAGCGGCGGCGAGCA	0.756													3	2					0	0	0.009096	0	0		A	65493774	A	A	65493774	3	1	20	1	0	0	0	0	1	0	0	0	1422	1116	39	1	429	1	BHLHE22	8	65493774	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1519841	65493774	80870248	797	17519											
C8orf44	56260	broad.mit.edu	37	chr8	67592020	67592020	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagaagcagaaaaggcaaaAggggtctttggccatcttct	13	8	13	7	0	3	2	0	0	3	2	3	3	3	2	1	5	1	2	1	5	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:67592020A>G	uc003xwo.1	+	3	464	c.311A>G	c.(310-312)AAG>AGG	p.K104R	SGK3_uc003xwp.2_5'UTR|C8orf44_uc003xwq.1_Missense_Mutation_p.K104R	NM_019607	NP_062553	Q96CB5	CH044_HUMAN	hypothetical protein LOC56260	104											0	Breast(64;0.186)		Epithelial(68;0.000959)|OV - Ovarian serous cystadenocarcinoma(28;0.00318)|all cancers(69;0.00363)|BRCA - Breast invasive adenocarcinoma(89;0.149)			AAAAGGCAAAAGGGGTCTTTG	0.413													3	158					0	0	0.009096	0	0		G	67592020	G	G	67592020	3	3	20	1	0	0	0	0	1	0	0	0	2432	72	3	3	317	3	C8orf44	8	67592020	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2098246	67592020	78772002	798	17520											
SGK3	23678	broad.mit.edu	37	chr8	67771720	67771720	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatattctgtgtgtgtatcTtctgactattctatagtgaa	9	18	7	7	0	4	2	0	2	4	0	4	2	4	2	1	0	0	1	1	0	6	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:67771720T>C	uc003xwr.2	+	17	1694	c.1395T>C	c.(1393-1395)TCT>TCC	p.S465S	SGK3_uc003xwp.2_Silent_p.S459S|SGK3_uc003xwt.2_Silent_p.S465S|SGK3_uc003xwu.2_Silent_p.S433S	NM_001033578	NP_001028750	Q96BR1	SGK3_HUMAN	serum/glucocorticoid regulated kinase 3 isoform	465	AGC-kinase C-terminal.				cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)			TGTGTGTATCTTCTGACTATT	0.383													6	204					0	0	0.001168	0	0		C	67771720	C	C	67771720	2	2	20	1	0	0	0	0	0	0	0	1	14237	1596	56	3		3	SGK3	8	67771720	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	179700	67771720	78592302	799	17521											
ARFGEF1	10565	broad.mit.edu	37	chr8	68204282	68204282	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgaggtgattcaggctcgTgatggcttactggagactgt	7	13	15	6	1	1	4	1	3	0	1	2	5	1	4	0	4	1	3	0	4	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:68204282T>C	uc003xxo.1	-	6	1106	c.716A>G	c.(715-717)CAC>CGC	p.H239R		NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	239					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			TTCAGGCTCGTGATGGCTTAC	0.403													34	227					0	0	0.004878	0	0		C	68204282	C	C	68204282	3	2	20	1	0	0	0	0	1	0	0	0	852	1696	59	3	4969	3	ARFGEF1	8	68204282	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	432562	68204282	78159740	800	17522											
PREX2	80243	broad.mit.edu	37	chr8	69005938	69005938	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagatgaagcaggggatgcTtttgactgtaaagtagaagg	13	9	16	3	0	0	4	0	2	0	2	0	6	0	5	0	4	2	4	0	4	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:69005938T>C	uc003xxv.1	+	21	2376	c.2349T>C	c.(2347-2349)GCT>GCC	p.A783A	PREX2_uc003xxu.1_Silent_p.A783A|PREX2_uc011lez.1_Silent_p.A718A	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	783					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CAGGGGATGCTTTTGACTGTA	0.403													34	188					0	0	0.004289	0	0		C	69005938	C	C	69005938	2	2	20	1	0	0	0	0	0	0	0	1	12499	1596	56	3		3	PREX2	8	69005938	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	801656	69005938	77358084	801	17523											
PREX2	80243	broad.mit.edu	37	chr8	69028025	69028025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catattctcctaaattagaaCgtaagacatcagagggcata	16	10	7	8	1	2	3	1	0	1	3	3	3	2	3	1	1	1	2	1	1	7	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:69028025C>T	uc003xxv.1	+	26	3211	c.3184C>T	c.(3184-3186)CGT>TGT	p.R1062C		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1062					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TAAATTAGAACGTAAGACATC	0.348													5	129					0	0	0.000602	0	0		T	69028025	T	T	69028025	3	4	20	1	0	0	0	0	1	0	0	0	12499	536	19	1	3515	1	PREX2	8	69028025	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	22087	69028025	77335997	802	17524											
TRPA1	8989	broad.mit.edu	37	chr8	72975152	72975152	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcataaagttaatgtgcAactgtctactgtacccatgc	12	14	6	9	0	2	0	1	0	1	0	2	0	2	0	1	0	5	3	1	0	7	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:72975152A>G	uc003xza.2	-	6	864	c.689T>C	c.(688-690)TTG>TCG	p.L230S		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	230	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GTTAATGTGCAACTGTCTACT	0.358													9	108					0	0	0.004482	0	0		G	72975152	G	G	72975152	3	3	20	1	0	0	0	0	1	0	0	0	16603	131	5	3	2758	3	TRPA1	8	72975152	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3947127	72975152	73388870	803	17525											
STAU2	27067	broad.mit.edu	37	chr8	74525998	74525998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttactattgttttagggCgttttttaaaaaatagtttt	10	21	6	4	1	0	0	0	0	0	0	0	0	0	0	1	1	1	3	1	1	7	12			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:74525998C>T	uc003xzm.2	-	9	1108	c.872G>A	c.(871-873)CGC>CAC	p.R291H	STAU2_uc011lfg.1_Missense_Mutation_p.R119H|STAU2_uc003xzn.2_Missense_Mutation_p.R259H|STAU2_uc011lfh.1_Missense_Mutation_p.R187H|STAU2_uc003xzo.2_Missense_Mutation_p.R291H|STAU2_uc003xzp.2_Missense_Mutation_p.R259H|STAU2_uc011lfi.1_Missense_Mutation_p.R253H|STAU2_uc003xzq.2_Missense_Mutation_p.R71H|STAU2_uc010lzk.2_Missense_Mutation_p.R259H|STAU2_uc010lzl.1_Missense_Mutation_p.R119H	NM_014393	NP_055208	Q9NUL3	STAU2_HUMAN	staufen homolog 2 isoform e	291	Nuclear localization signal 1 (By similarity).				transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)			TGTTTTAGGGCGTTTTTTAAA	0.348													12	59					0	0	0.013537	0	0		T	74525998	T	T	74525998	3	4	20	1	0	0	0	0	1	0	0	0	15298	768	27	1	992	1	STAU2	8	74525998	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1550846	74525998	71838024	804	17526											
ZBTB10	65986	broad.mit.edu	37	chr8	81412237	81412237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatggtctgtcttcatcacGggatcaaaaaattgccagtt	12	12	9	8	1	5	1	3	0	2	1	5	2	5	2	1	2	1	1	1	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:81412237G>A	uc003ybx.3	+	2	2079	c.1481G>A	c.(1480-1482)CGG>CAG	p.R494Q	ZBTB10_uc003ybv.3_Missense_Mutation_p.R202Q|ZBTB10_uc003ybw.3_Missense_Mutation_p.R494Q|ZBTB10_uc010lzt.2_Missense_Mutation_p.R494Q	NM_001105539	NP_001099009	Q96DT7	ZBT10_HUMAN	zinc finger and BTB domain containing 10 isoform	494					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)	1	all_cancers(3;1.68e-09)|all_epithelial(4;5.13e-11)|Lung NSC(7;1.75e-07)|all_lung(9;7.38e-07)|Breast(3;2.96e-06)		BRCA - Breast invasive adenocarcinoma(6;0.000434)|Epithelial(68;0.00486)|all cancers(69;0.0296)			TCTTCATCACGGGATCAAAAA	0.373													31	171					0	0	0.004289	0	0		A	81412237	A	A	81412237	3	1	20	1	0	0	0	0	1	0	0	0	17548	1116	39	1	1487	1	ZBTB10	8	81412237	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6886239	81412237	64951785	805	17527											
PAG1	55824	broad.mit.edu	37	chr8	81897572	81897572	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgatgtctggacttcctcGtaatgctgcatgcaggtcag	7	11	12	11	2	2	0	1	0	1	0	4	2	3	1	2	2	3	4	2	2	1	2	rs113484085		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:81897572G>A	uc003ybz.2	-	7	1026	c.315C>T	c.(313-315)TAC>TAT	p.Y105Y		NM_018440	NP_060910	Q9NWQ8	PAG1_HUMAN	phosphoprotein associated with glycosphingolipid	105	Cytoplasmic (Potential).			Y->F: No effect on interaction with FYN or CSK.	epidermal growth factor receptor signaling pathway|intracellular signal transduction|T cell receptor signaling pathway	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding|SH3/SH2 adaptor activity				0	Lung NSC(7;5.76e-06)|all_lung(9;2e-05)		BRCA - Breast invasive adenocarcinoma(6;0.0567)|Epithelial(68;0.0634)|all cancers(69;0.197)			GGACTTCCTCGTAATGCTGCA	0.498													9	38					0	0	0.006214	0	0		A	81897572	A	A	81897572	2	1	20	1	0	0	0	0	0	0	0	1	11407	1140	40	1		1	PAG1	8	81897572	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	485335	81897572	64466450	806	17528											
SNX16	64089	broad.mit.edu	37	chr8	82736084	82736084	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacgcttgtaatcctaatTgtctgtcttctaaaaagtca	13	14	6	8	1	4	0	1	0	3	0	5	1	5	0	1	0	1	2	1	0	6	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:82736084T>C	uc011lft.1	-	5	1061	c.554A>G	c.(553-555)CAA>CGA	p.Q185R	SNX16_uc003ycn.2_Missense_Mutation_p.Q185R|SNX16_uc003yco.2_Missense_Mutation_p.Q156R	NM_022133	NP_071416	P57768	SNX16_HUMAN	sorting nexin 16 isoform a	185	PX.				cell communication|early endosome to late endosome transport|endosome to lysosome transport|protein targeting to lysosome	early endosome membrane|extrinsic to endosome membrane|late endosome membrane|lysosome	identical protein binding|phosphatidylinositol binding			ovary(1)|pancreas(1)	2						TAATCCTAATTGTCTGTCTTC	0.333													17	76					0	0	0.008871	0	0		C	82736084	C	C	82736084	3	2	20	1	0	0	0	0	1	0	0	0	14912	1812	63	3	500	3	SNX16	8	82736084	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	838512	82736084	63627938	807	17529											
MMP16	4325	broad.mit.edu	37	chr8	89086858	89086858	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaacacaaaattcccgtcGctattttcataaactgcatc	15	11	4	11	2	1	1	1	0	0	1	4	1	2	1	1	0	3	2	1	0	7	5	rs143304974	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:89086858G>A	uc003yeb.3	-	7	1479	c.1197C>T	c.(1195-1197)AGC>AGT	p.S399S	MMP16_uc003yec.2_Silent_p.S399S	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	399	Hemopexin-like 2.|Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						AATTCCCGTCGCTATTTTCAT	0.413													21	101					0	0	0.014323	0	0		A	89086858	A	A	89086858	2	1	20	1	0	0	0	0	0	0	0	1	9673	1078	38	1		1	MMP16	8	89086858	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6350774	89086858	57277164	808	17530											
OSGIN2	734	broad.mit.edu	37	chr8	90937290	90937290	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacagcttcccaaaaagctgTatcctgaatatcataaagtc	16	10	5	10	0	1	1	1	1	0	0	4	1	3	1	2	0	3	3	2	0	8	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:90937290T>C	uc003yeg.2	+	6	1394	c.1048T>C	c.(1048-1050)TAT>CAT	p.Y350H	OSGIN2_uc003yeh.2_Missense_Mutation_p.Y394H	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	350					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			CAAAAAGCTGTATCCTGAATA	0.378													4	211					0	0	0.009096	0	0		C	90937290	C	C	90937290	3	2	20	1	0	0	0	0	1	0	0	0	11309	1638	57	3	1202	3	OSGIN2	8	90937290	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1850432	90937290	55426732	809	17531											
DECR1	1666	broad.mit.edu	37	chr8	91029419	91029419	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatctaaattcttttcacCtcttcaaaaagcgatgctac	13	13	4	11	1	5	0	2	0	3	0	5	1	5	0	1	0	3	2	1	0	6	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:91029419C>A	uc003yek.1	+	2	278	c.137C>A	c.(136-138)CCT>CAT	p.P46H	DECR1_uc011lgc.1_Missense_Mutation_p.P37H|DECR1_uc011lgd.1_Intron	NM_001359	NP_001350	Q16698	DECR_HUMAN	2,4-dienoyl CoA reductase 1 precursor	46					fatty acid beta-oxidation|protein homotetramerization	mitochondrial matrix|nucleus|plasma membrane	2,4-dienoyl-CoA reductase (NADPH) activity|NADPH binding|oxidoreductase activity, acting on NADH or NADPH				0			BRCA - Breast invasive adenocarcinoma(11;0.00953)			TTCTTTTCACCTCTTCAAAAA	0.353													22	84					2.21704e-12	2.33786e-12	0.00278	1	0		A	91029419	A	A	91029419	3	1	20	1	0	0	0	0	1	0	0	0	4385	681	24	5	143	5	DECR1	8	91029419	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	92129	91029419	55334603	810	17532											
DECR1	1666	broad.mit.edu	37	chr8	91055016	91055016	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgtgattcaaccagggccTataaaaaccaaagtaagttg	17	9	8	7	0	1	1	1	1	0	0	1	1	1	1	3	1	2	2	3	1	8	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:91055016T>C	uc003yek.1	+	7	867	c.726T>C	c.(724-726)CCT>CCC	p.P242P	DECR1_uc011lgc.1_Silent_p.P233P|DECR1_uc011lgd.1_RNA	NM_001359	NP_001350	Q16698	DECR_HUMAN	2,4-dienoyl CoA reductase 1 precursor	242					fatty acid beta-oxidation|protein homotetramerization	mitochondrial matrix|nucleus|plasma membrane	2,4-dienoyl-CoA reductase (NADPH) activity|NADPH binding|oxidoreductase activity, acting on NADH or NADPH				0			BRCA - Breast invasive adenocarcinoma(11;0.00953)			AACCAGGGCCTATAAAAACCA	0.313													5	282					0	0	0.00308	0	0		C	91055016	C	C	91055016	2	2	20	1	0	0	0	0	0	0	0	1	4385	1509	53	3		3	DECR1	8	91055016	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	25597	91055016	55309006	811	17533											
TMEM55A	55529	broad.mit.edu	37	chr8	92008941	92008941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaatatatgcacagcagcGtcttcgtggaagtgcactac	11	10	11	9	2	1	0	0	0	1	0	2	1	1	1	0	2	5	4	0	2	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:92008941G>A	uc003yes.2	-	6	797	c.571C>T	c.(571-573)CGC>TGC	p.R191C		NM_018710	NP_061180	Q8N4L2	TM55A_HUMAN	transmembrane protein 55A	191						integral to membrane|late endosome membrane|lysosomal membrane	hydrolase activity				0			BRCA - Breast invasive adenocarcinoma(11;0.033)			GCACAGCAGCGTCTTCGTGGA	0.358													4	18					0	0	0.001168	0	0		A	92008941	A	A	92008941	3	1	20	1	0	0	0	0	1	0	0	0	16206	1145	40	1	210	1	TMEM55A	8	92008941	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	953925	92008941	54355081	812	17534											
RBM12B	389677	broad.mit.edu	37	chr8	94747757	94747757	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaaatctctttcgtcaatActgagggacagattttttaa	12	16	6	7	1	2	2	1	1	1	1	4	3	2	3	0	1	1	0	0	1	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:94747757A>G	uc003yfz.2	-	3	1075	c.882T>C	c.(880-882)AGT>AGC	p.S294S		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	294	RRM 2.						nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			TTTCGTCAATACTGAGGGACA	0.338													3	149					0	0	0.004672	0	0		G	94747757	G	G	94747757	2	3	20	1	0	0	0	0	0	0	0	1	13139	388	14	3		3	RBM12B	8	94747757	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2738816	94747757	51616265	813	17535											
VPS13B	157680	broad.mit.edu	37	chr8	100147927	100147927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaaaataatggtactcGcgcagaatttatcttggatt	13	12	8	8	2	1	2	0	0	1	2	2	3	1	3	1	2	1	2	1	2	6	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:100147927G>A	uc003yiv.2	+	11	1640	c.1529G>A	c.(1528-1530)CGC>CAC	p.R510H	VPS13B_uc003yiw.2_Missense_Mutation_p.R510H|VPS13B_uc003yit.2_Missense_Mutation_p.R510H|VPS13B_uc003yiu.1_Missense_Mutation_p.R510H|VPS13B_uc003yix.1_5'Flank	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	510					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AATGGTACTCGCGCAGAATTT	0.358													18	68					0	0	0.007413	0	0		A	100147927	A	A	100147927	3	1	20	1	0	0	0	0	1	0	0	0	17216	1087	38	1	1609	1	VPS13B	8	100147927	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5400170	100147927	46216095	814	17536											
VPS13B	157680	broad.mit.edu	37	chr8	100779005	100779005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttttattttaacataggttCcttgtagcttggaatactgg	9	19	8	5	0	0	0	0	0	0	0	1	1	1	1	1	3	3	3	1	3	6	11			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:100779005C>T	uc003yiv.2	+	40	7240	c.7129C>T	c.(7129-7131)CCT>TCT	p.P2377S	VPS13B_uc003yiw.2_Missense_Mutation_p.P2352S	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2377					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AACATAGGTTCCTTGTAGCTT	0.289													15	61					0	0	0.004007	0	0		T	100779005	T	T	100779005	3	4	20	1	0	0	0	0	1	0	0	0	17216	855	30	4	7477	4	VPS13B	8	100779005	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	631078	100779005	45585017	815	17537											
PABPC1	26986	broad.mit.edu	37	chr8	101721808	101721808	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggttagtgaggtgagccTggcgctcttctttgcgctga	5	13	14	9	2	2	3	0	3	2	0	2	3	2	3	1	3	2	3	1	3	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:101721808T>C	uc003yjs.1	-	8	1628	c.1124A>G	c.(1123-1125)CAG>CGG	p.Q375R	PABPC1_uc011lhc.1_Missense_Mutation_p.Q343R|PABPC1_uc011lhd.1_Missense_Mutation_p.Q330R|PABPC1_uc003yjt.1_Missense_Mutation_p.Q372R|PABPC1_uc003yju.2_RNA	NM_002568	NP_002559	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	375					mRNA polyadenylation|mRNA stabilization|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|translation	catalytic step 2 spliceosome|cytosol	nucleotide binding|poly(A) RNA binding|protein C-terminus binding|translation activator activity				0	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			GAGGTGAGCCTGGCGCTCTTC	0.493													9	175					0	0	0.004482	0	0		C	101721808	C	C	101721808	3	2	20	1	0	0	0	0	1	0	0	0	11382	1580	55	3	814	3	PABPC1	8	101721808	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	942803	101721808	44642214	816	17538											
TRHR	7201	broad.mit.edu	37	chr8	110099786	110099786	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaccaaacacagcttcaGccacgagcagtggtggcctt	11	7	10	13	1	1	1	1	1	0	0	1	2	1	1	3	2	5	2	3	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:110099786G>A	uc003ymz.3	+	1	61	c.45G>A	c.(43-45)CAG>CAA	p.Q15Q		NM_003301	NP_003292	P34981	TRFR_HUMAN	thyrotropin-releasing hormone receptor	15	Extracellular (Potential).					integral to plasma membrane	thyrotropin-releasing hormone receptor activity			skin(2)|lung(1)	3			OV - Ovarian serous cystadenocarcinoma(57;2.3e-11)			CACAGCTTCAGCCACGAGCAG	0.448													26	68					0	0	0.004656	0	0		A	110099786	A	A	110099786	2	1	20	1	0	0	0	0	0	0	0	1	16506	962	34	2		2	TRHR	8	110099786	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	8377978	110099786	36264236	817	17539											
SYBU	55638	broad.mit.edu	37	chr8	110587852	110587852	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaccagtagctccctgtcAgccccttcccccgtgacctg	5	9	7	20	1	1	1	1	1	0	0	3	1	3	1	8	0	3	2	8	0	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:110587852A>G	uc003ynj.3	-	7	1438	c.1275T>C	c.(1273-1275)GCT>GCC	p.A425A	SYBU_uc003yni.3_Silent_p.A422A|SYBU_uc003ynk.3_Silent_p.A306A|SYBU_uc010mco.2_Silent_p.A424A|SYBU_uc003ynl.3_Silent_p.A424A|SYBU_uc010mcp.2_Silent_p.A425A|SYBU_uc010mcq.2_Silent_p.A425A|SYBU_uc003yno.3_Silent_p.A306A|SYBU_uc010mcr.2_Silent_p.A425A|SYBU_uc003ynm.3_Silent_p.A424A|SYBU_uc003ynn.3_Silent_p.A424A|SYBU_uc010mcs.2_Silent_p.A306A|SYBU_uc010mct.2_Silent_p.A425A|SYBU_uc010mcu.2_Silent_p.A424A|SYBU_uc003ynp.3_Silent_p.A357A|SYBU_uc010mcv.2_Silent_p.A425A|SYBU_uc003ynh.3_Silent_p.A219A|SYBU_uc011lhw.1_Silent_p.A295A	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	425						cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						GCTCCCTGTCAGCCCCTTCCC	0.527													21	122					0	0	0.014323	0	0		G	110587852	G	G	110587852	2	3	20	1	0	0	0	0	0	0	0	1	15452	175	7	3		3	SYBU	8	110587852	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	488066	110587852	35776170	818	17540											
CSMD3	114788	broad.mit.edu	37	chr8	113293501	113293501	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccatgcaggaataaatgActgaactagaaaatgttgtg	15	10	9	7	0	0	3	0	2	0	1	1	4	1	4	2	1	2	2	2	1	7	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:113293501A>C	uc003ynu.2	-	59	9569	c.9410T>G	c.(9409-9411)GTC>GGC	p.V3137G	CSMD3_uc003yns.2_Missense_Mutation_p.V2339G|CSMD3_uc003ynt.2_Missense_Mutation_p.V3097G|CSMD3_uc011lhx.1_Missense_Mutation_p.V2968G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3137	Extracellular (Potential).|Sushi 23.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GGAATAAATGACTGAACTAGA	0.428										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			5	121					0	0	0.000602	0	0		C	113293501	C	C	113293501	3	2	20	1	0	0	0	0	1	0	0	0	3949	275	10	5	1765	5	CSMD3	8	113293501	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2705649	113293501	33070521	819	17541											
CSMD3	114788	broad.mit.edu	37	chr8	113694851	113694851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tattccaggatcagggcattCattatgtccaaatgctttag	11	14	8	8	0	2	0	2	0	0	0	4	1	4	1	2	2	1	2	2	2	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:113694851C>T	uc003ynu.2	-	16	2656	c.2497G>A	c.(2497-2499)GAA>AAA	p.E833K	CSMD3_uc003yns.2_Missense_Mutation_p.E105K|CSMD3_uc003ynt.2_Missense_Mutation_p.E793K|CSMD3_uc011lhx.1_Missense_Mutation_p.E729K	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	833	Sushi 4.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TCAGGGCATTCATTATGTCCA	0.348										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			14	118					0	0	0.00499	0	0		T	113694851	T	T	113694851	3	4	20	1	0	0	0	0	1	0	0	0	3949	835	29	4	8850	4	CSMD3	8	113694851	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	401350	113694851	32669171	820	17542											
TRPS1	7227	broad.mit.edu	37	chr8	116616692	116616692	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattgtctctccttctgaacTtttggctagatcattctgat	7	18	6	10	0	4	3	1	2	3	1	6	3	5	3	1	1	1	1	1	1	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:116616692T>G	uc003ynz.2	-	3	1924	c.1465A>C	c.(1465-1467)AGT>CGT	p.S489R	TRPS1_uc011lhy.1_Missense_Mutation_p.S493R|TRPS1_uc003yny.2_Missense_Mutation_p.S502R|TRPS1_uc010mcy.2_Missense_Mutation_p.S489R	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	489					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			CCTTCTGAACTTTTGGCTAGA	0.483									Langer-Giedion_syndrome				39	135					0	0	0.00623	0	0		G	116616692	G	G	116616692	3	3	20	1	0	0	0	0	1	0	0	0	16619	1609	56	5	2396	5	TRPS1	8	116616692	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2921841	116616692	29747330	821	17543											
TRPS1	7227	broad.mit.edu	37	chr8	116616856	116616856	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactacaaaatttacaccagTagtaactggtggcctctgta	14	11	7	9	0	1	0	0	0	1	0	1	0	1	0	2	2	4	3	2	2	8	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:116616856T>C	uc003ynz.2	-	3	1760	c.1301A>G	c.(1300-1302)TAC>TGC	p.Y434C	TRPS1_uc011lhy.1_Missense_Mutation_p.Y438C|TRPS1_uc003yny.2_Missense_Mutation_p.Y447C|TRPS1_uc010mcy.2_Missense_Mutation_p.Y434C	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	434					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TTTACACCAGTAGTAACTGGT	0.473									Langer-Giedion_syndrome				9	51					0	0	0.004482	0	0		C	116616856	C	C	116616856	3	2	20	1	0	0	0	0	1	0	0	0	16619	1638	57	3	2560	3	TRPS1	8	116616856	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	164	116616856	29747166	822	17544											
RAD21	5885	broad.mit.edu	37	chr8	117859879	117859879	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgttttctgttcgtatttcGacataactcaagcaaactga	11	16	6	8	2	2	1	1	1	1	0	4	2	2	1	0	0	3	4	0	0	4	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:117859879G>A	uc003yod.2	-	14	2044	c.1756C>T	c.(1756-1758)CGA>TGA	p.R586*		NM_006265	NP_006256	O60216	RAD21_HUMAN	RAD21 homolog	586					apoptosis|cell division|chromosome segregation|double-strand break repair|mitotic metaphase/anaphase transition|mitotic prometaphase|protein localization to chromatin|reciprocal meiotic recombination|regulation of transcription from RNA polymerase II promoter	chromosome, centromeric region|cohesin complex|nuclear chromosome|nucleoplasm	protein binding			lung(1)|skin(1)	2	all_cancers(13;1.21e-21)|Lung NSC(37;0.000134)|Ovarian(258;0.0172)					TTCGTATTTCGACATAACTCA	0.383													15	63					0	0	0.00245	0	0		A	117859879	A	A	117859879	4	1	20	1	0	0	0	0	0	1	0	0	13006	1066	37	1	143	1	RAD21	8	117859879	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1243023	117859879	28504143	823	17545											
NOV	4856	broad.mit.edu	37	chr8	120430323	120430323	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagggagataactgtgtgttCgatggggtcatctaccgcag	9	10	15	7	2	2	1	1	0	1	1	3	4	2	1	1	3	2	2	1	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:120430323C>T	uc003yoq.2	+	3	557	c.336C>T	c.(334-336)TTC>TTT	p.F112F		NM_002514	NP_002505	P48745	NOV_HUMAN	nephroblastoma overexpressed precursor	112	VWFC.				regulation of cell growth		growth factor activity|insulin-like growth factor binding			ovary(2)|skin(2)|kidney(1)	5	all_cancers(13;3.84e-26)|Lung NSC(37;1.19e-08)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000507)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ACTGTGTGTTCGATGGGGTCA	0.483													38	109					0	0	0.00623	0	0		T	120430323	T	T	120430323	2	4	20	1	0	0	0	0	0	0	0	1	10572	883	31	1		1	NOV	8	120430323	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2570444	120430323	25933699	824	17546											
COL14A1	7373	broad.mit.edu	37	chr8	121259946	121259946	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcttccccggtgaaaggCtatagaattgtctacaaacc	12	10	7	12	1	2	2	0	1	2	1	3	2	3	2	4	2	2	1	4	2	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:121259946C>A	uc003yox.2	+	21	2839	c.2574C>A	c.(2572-2574)GGC>GGA	p.G858G	COL14A1_uc003yoy.2_Silent_p.G536G	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	858	Fibronectin type-III 7.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			CGGTGAAAGGCTATAGAATTG	0.443													18	110					1.55795e-14	1.65277e-14	0.012319	1	0		A	121259946	A	A	121259946	2	1	20	1	0	0	0	0	0	0	0	1	3674	784	28	5		5	COL14A1	8	121259946	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	829623	121259946	25104076	825	17547											
SQLE	6713	broad.mit.edu	37	chr8	126015640	126015640	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattcctgcagccgggtggtTatcatgttctcaaagacctt	9	13	9	10	1	2	1	2	0	1	1	4	1	3	1	3	2	2	3	3	2	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:126015640T>C	uc011liq.1	+	2	1440	c.514T>C	c.(514-516)TAT>CAT	p.Y172H		NM_003129	NP_003120	Q14534	ERG1_HUMAN	squalene epoxidase	172					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome	flavin adenine dinucleotide binding|squalene monooxygenase activity			ovary(1)|breast(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)		Butenafine(DB01091)|Naftifine(DB00735)|Terbinafine(DB00857)	GCCGGGTGGTTATCATGTTCT	0.448													21	455					0	0	0.010504	0	0		C	126015640	C	C	126015640	3	2	20	1	0	0	0	0	1	0	0	0	15153	1754	61	3	520	3	SQLE	8	126015640	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	4755694	126015640	20348382	826	17548											
GSDMC	56169	broad.mit.edu	37	chr8	130788386	130788386	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtttggtgatgggatggtAacaatttgaaactcgaggga	12	11	15	3	1	0	2	0	2	0	0	1	5	0	4	0	5	2	2	0	5	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:130788386A>G	uc003ysr.2	-	3	1248	c.366T>C	c.(364-366)GTT>GTC	p.V122V		NM_031415	NP_113603	Q9BYG8	GSDMC_HUMAN	melanoma-derived leucine zipper, extra-nuclear	122						mitochondrion				ovary(2)|skin(1)	3						ATGGGATGGTAACAATTTGAA	0.493													4	118					0	0	0.009096	0	0		G	130788386	G	G	130788386	2	3	20	1	0	0	0	0	0	0	0	1	6834	349	13	3		3	GSDMC	8	130788386	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	4772746	130788386	15575636	827	17549											
TG	7038	broad.mit.edu	37	chr8	133881992	133881992	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggactgtccagtgccagaaCgacggccgctcctgctggtg	7	7	14	13	3	0	1	0	0	0	1	2	3	2	2	4	3	3	2	4	3	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:133881992C>T	uc003ytw.2	+	3	236	c.195C>T	c.(193-195)AAC>AAT	p.N65N		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	65	Thyroglobulin type-1 1.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AGTGCCAGAACGACGGCCGCT	0.637													14	57					0	0	0.007413	0	0		T	133881992	T	T	133881992	2	4	20	1	0	0	0	0	0	0	0	1	15838	535	19	1		1	TG	8	133881992	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3093606	133881992	12482030	828	17550											
WISP1	8840	broad.mit.edu	37	chr8	134225358	134225358	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgactacagcggggaccgCccgaggtacgcaataggagt	10	6	15	10	4	0	1	0	1	0	0	0	4	0	3	2	4	3	2	2	4	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:134225358C>T	uc003yub.2	+	2	397	c.321C>T	c.(319-321)CGC>CGT	p.R107R	WISP1_uc003yuc.2_Silent_p.R107R|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Silent_p.R107R|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_RNA	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	107	IGFBP N-terminal.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GCGGGGACCGCCCGAGGTACG	0.612													17	67					0	0	0.010504	0	0		T	134225358	T	T	134225358	2	4	20	1	0	0	0	0	0	0	0	1	17398	726	26	2		2	WISP1	8	134225358	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	343366	134225358	12138664	829	17551											
COL22A1	169044	broad.mit.edu	37	chr8	139833608	139833608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctttcatggcacccacaGcgttgtactcgactgccttg	7	12	8	14	2	2	0	1	0	1	0	3	1	2	0	2	1	3	3	2	1	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:139833608G>A	uc003yvd.2	-	7	1463	c.1016C>T	c.(1015-1017)GCT>GTT	p.A339V		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	339	TSP N-terminal.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GGCACCCACAGCGTTGTACTC	0.567										HNSCC(7;0.00092)			11	220					0	0	0.010729	0	0		A	139833608	A	A	139833608	3	1	20	1	0	0	0	0	1	0	0	0	3684	971	34	2	4100	2	COL22A1	8	139833608	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5608250	139833608	6530414	830	17552											
COL22A1	169044	broad.mit.edu	37	chr8	139845316	139845316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagggaaggatcccatccGtacataggaactctgagctc	12	7	10	12	1	1	1	0	1	1	0	4	4	3	4	2	3	3	2	2	3	4	2	rs141938188		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:139845316G>A	uc003yvd.2	-	5	1258	c.811C>T	c.(811-813)CGG>TGG	p.R271W		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	271	TSP N-terminal.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GATCCCATCCGTACATAGGAA	0.507										HNSCC(7;0.00092)			13	83					0	0	0.006122	0	0		A	139845316	A	A	139845316	3	1	20	1	0	0	0	0	1	0	0	0	3684	1144	40	1	4313	1	COL22A1	8	139845316	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	11708	139845316	6518706	831	17553											
LYPD2	137797	broad.mit.edu	37	chr8	143833859	143833859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccaggagcgccagccgcGtcccccgcatggtcccggcc	4	3	14	20	6	0	0	0	0	0	0	2	1	2	1	7	3	2	1	7	3	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:143833859G>A	uc003ywz.2	-	1	94	c.11C>T	c.(10-12)ACG>ATG	p.T4M		NM_205545	NP_991108	Q6UXB3	LYPD2_HUMAN	LY6/PLAUR domain containing 2 precursor	4				T -> A (in Ref. 2; BAF83020).		anchored to membrane|plasma membrane					0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					CGCCAGCCGCGTCCCCCGCAT	0.697													9	53					0	0	0.008871	0	0		A	143833859	A	A	143833859	3	1	20	1	0	0	0	0	1	0	0	0	9128	1145	40	1	378	1	LYPD2	8	143833859	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3988543	143833859	2530163	832	17554											
TOP1MT	116447	broad.mit.edu	37	chr8	144403476	144403476	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccgggtgcagctggacGtgctccacgcggagggaaca	7	5	16	13	4	0	0	0	0	0	0	2	3	2	3	3	4	4	3	3	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:144403476G>A	uc003yxz.2	-	8	1060	c.1041C>T	c.(1039-1041)CAC>CAT	p.H347H	TOP1MT_uc011lkd.1_Silent_p.H249H|TOP1MT_uc011lke.1_Silent_p.H249H|TOP1MT_uc010mfb.2_Silent_p.H249H|TOP1MT_uc011lkf.1_Silent_p.H142H|TOP1MT_uc010mfd.1_Silent_p.H142H	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	347					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	GCAGCTGGACGTGCTCCACGC	0.617													26	85					0	0	0.008361	0	0		A	144403476	A	A	144403476	2	1	20	1	0	0	0	0	0	0	0	1	16390	1136	40	1		1	TOP1MT	8	144403476	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	569617	144403476	1960546	833	17555											
RHPN1	114822	broad.mit.edu	37	chr8	144463474	144463474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagaggccaggatgccacGcctgtcccaggggaaggggc	8	3	17	13	1	0	1	0	0	0	1	1	3	1	3	5	6	1	0	5	6	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:144463474G>A	uc003yyb.2	+	12	1581	c.1448G>A	c.(1447-1449)CGC>CAC	p.R483H		NM_052924	NP_443156	Q8TCX5	RHPN1_HUMAN	rhophilin 1	508					signal transduction	intracellular				large_intestine(1)	1	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.156)			AGGATGCCACGCCTGTCCCAG	0.627													5	29					0	0	0.006214	0	0		A	144463474	A	A	144463474	3	1	20	1	0	0	0	0	1	0	0	0	13375	1087	38	1	1494	1	RHPN1	8	144463474	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	59998	144463474	1900548	834	17556											
ZNF623	9831	broad.mit.edu	37	chr8	144732671	144732671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaaagcccttcaaatgtgCgcagtgtgggaaggcgtttt	11	10	13	7	2	1	1	1	0	0	1	1	2	1	2	1	2	2	2	1	2	4	3	rs144210785	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:144732671C>T	uc003yzd.2	+	1	718	c.629C>T	c.(628-630)GCG>GTG	p.A210V	ZNF623_uc011lkp.1_Missense_Mutation_p.A170V|ZNF623_uc003yzc.2_Missense_Mutation_p.A170V	NM_014789	NP_055604	O75123	ZN623_HUMAN	zinc finger protein 623 isoform 1	210	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;5.28e-40)|all cancers(56;5.23e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			TTCAAATGTGCGCAGTGTGGG	0.473													36	156					0	0	0.013114	0	0		T	144732671	T	T	144732671	3	4	20	1	0	0	0	0	1	0	0	0	18072	768	27	1	631	1	ZNF623	8	144732671	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	269197	144732671	1631351	835	17557											
MAPK15	225689	broad.mit.edu	37	chr8	144803497	144803497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctgcacaaacccagagccGaccctcagctgccttctagg	10	6	8	17	1	2	1	1	0	1	1	2	2	2	1	5	1	5	2	5	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:144803497G>A	uc003yzj.2	+	11	1161	c.1120G>A	c.(1120-1122)GAC>AAC	p.D374N		NM_139021	NP_620590	Q8TD08	MK15_HUMAN	mitogen-activated protein kinase 15	374					protein autophosphorylation	extracellular region	ATP binding|MAP kinase activity|SH3 domain binding			lung(2)	2	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			ACCCAGAGCCGACCCTCAGCT	0.647													36	155					0	0	0.00623	0	0		A	144803497	A	A	144803497	3	1	20	1	0	0	0	0	1	0	0	0	9295	1058	37	1	1162	1	MAPK15	8	144803497	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	70826	144803497	1560525	836	17558											
FAM83H	286077	broad.mit.edu	37	chr8	144812314	144812314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatggcgcacctgctgggCggaacggatcatcctgcggg	8	6	16	11	4	1	1	1	0	0	1	2	3	2	3	2	5	3	2	2	5	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:144812314C>T	uc003yzk.2	-	2	508	c.439G>A	c.(439-441)GCC>ACC	p.A147T	FAM83H_uc010mfk.1_5'Flank	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	147					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			ACCTGCTGGGCGGAACGGATC	0.657													8	14					0	0	0.00308	0	0		T	144812314	T	T	144812314	3	4	20	1	0	0	0	0	1	0	0	0	5654	768	27	1	3116	1	FAM83H	8	144812314	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	8817	144812314	1551708	837	17559											
EPPK1	83481	broad.mit.edu	37	chr8	144940592	144940592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaccgacagcctcaggttgCgcacggggtcgatgacgaag	9	5	14	13	5	1	1	1	1	0	0	2	4	1	1	3	3	2	2	3	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:144940592C>T	uc003zaa.1	-	2	14853	c.14840G>A	c.(14839-14841)CGC>CAC	p.R4947H		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	4947	Plectin 62.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCTCAGGTTGCGCACGGGGTC	0.726													3	13					0	0	0.004672	0	0		T	144940592	T	T	144940592	3	4	20	1	0	0	0	0	1	0	0	0	5198	768	27	1	436	1	EPPK1	8	144940592	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	128278	144940592	1423430	838	17560											
PARP10	84875	broad.mit.edu	37	chr8	145057410	145057410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaagtgccaccaagtggcGggcagcacgggcagggtggg	9	3	19	10	2	0	1	0	0	0	1	0	1	0	1	2	5	2	3	2	5	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:145057410G>A	uc003zal.3	-	8	2455	c.2347C>T	c.(2347-2349)CGC>TGC	p.R783C	PARP10_uc003zak.3_Missense_Mutation_p.R480C|PARP10_uc011lku.1_Missense_Mutation_p.R795C|PARP10_uc011lkv.1_Intron|PARP10_uc003zam.2_Missense_Mutation_p.R774C	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	783	Myc binding.					Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ACCAAGTGGCGGGCAGCACGG	0.657													7	32					0	0	0.004482	0	0		A	145057410	A	A	145057410	3	1	20	1	0	0	0	0	1	0	0	0	11474	1116	39	1	746	1	PARP10	8	145057410	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	116818	145057410	1306612	839	17561											
HSF1	3297	broad.mit.edu	37	chr8	145535505	145535505	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccatggcctcccccggCgggagcatagacgagaggtg	8	4	15	14	3	0	2	0	0	0	2	1	4	1	3	5	4	2	1	5	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:145535505C>T	uc003zbt.3	+	8	1013	c.843C>T	c.(841-843)GGC>GGT	p.G281G	HSF1_uc003zbu.3_RNA	NM_005526	NP_005517	Q00613	HSF1_HUMAN	heat shock transcription factor 1	281	Regulatory domain.					cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.12e-39)|all cancers(56;9.11e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0547)|Colorectal(110;0.055)			CCTCCCCCGGCGGGAGCATAG	0.682													13	49					0	0	0.012319	0	0		T	145535505	T	T	145535505	2	4	20	1	0	0	0	0	0	0	0	1	7411	755	27	1		1	HSF1	8	145535505	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	478095	145535505	828517	840	17562											
FBXL6	26233	broad.mit.edu	37	chr8	145579704	145579704	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtgagcccccaggggtgcTtaagaaggcagccagggcct	8	6	16	11	0	0	2	0	1	0	1	0	2	0	2	4	4	3	2	4	4	2	1	rs61747069		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:145579704T>C	uc003zcb.2	-	8	1421	c.1396A>G	c.(1396-1398)AGC>GGC	p.S466G	C8ORFK29_uc011llb.1_5'Flank|C8ORFK29_uc010mfw.2_5'Flank|C8ORFK29_uc003zby.3_5'Flank|FBXL6_uc003zbz.2_Missense_Mutation_p.S193G|FBXL6_uc003zca.2_Missense_Mutation_p.S460G|FBXL6_uc010mfx.2_Missense_Mutation_p.S227G|GPR172A_uc003zcc.1_5'Flank|GPR172A_uc003zcd.1_5'Flank|GPR172A_uc003zce.1_5'Flank|GPR172A_uc010mfy.1_5'Flank|GPR172A_uc003zcf.1_5'Flank|GPR172A_uc011llc.1_5'Flank	NM_012162	NP_036294	Q8N531	FBXL6_HUMAN	F-box and leucine-rich repeat protein 6 isoform	466	LRR 10.				proteolysis		ubiquitin-protein ligase activity			ovary(1)|lung(1)	2	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			CCAGGGGTGCTTAAGAAGGCA	0.607													16	154					0	0	0.004007	0	0		C	145579704	C	C	145579704	3	2	20	1	0	0	0	0	1	0	0	0	5737	1609	56	3	231	3	FBXL6	8	145579704	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	44199	145579704	784318	841	17563											
FBXL6	26233	broad.mit.edu	37	chr8	145580161	145580161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccctcgtcccggaggcttggGcagccacatcaggttcaaca	8	7	11	15	2	2	0	2	0	0	0	4	1	3	1	3	4	2	3	3	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:145580161G>A	uc003zcb.2	-	7	1049	c.1024C>T	c.(1024-1026)CCC>TCC	p.P342S	C8ORFK29_uc011llb.1_5'Flank|C8ORFK29_uc010mfw.2_5'Flank|C8ORFK29_uc003zby.3_5'Flank|FBXL6_uc003zbz.2_Missense_Mutation_p.P69S|FBXL6_uc003zca.2_Missense_Mutation_p.P336S|FBXL6_uc010mfx.2_Missense_Mutation_p.P103S|GPR172A_uc003zcc.1_5'Flank|GPR172A_uc003zcd.1_5'Flank|GPR172A_uc003zce.1_5'Flank|GPR172A_uc010mfy.1_5'Flank|GPR172A_uc003zcf.1_5'Flank|GPR172A_uc011llc.1_5'Flank	NM_012162	NP_036294	Q8N531	FBXL6_HUMAN	F-box and leucine-rich repeat protein 6 isoform	342	LRR 6.				proteolysis		ubiquitin-protein ligase activity			ovary(1)|lung(1)	2	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			GGAGGCTTGGGCAGCCACATC	0.647													11	48					0	0	0.003163	0	0		A	145580161	A	A	145580161	3	1	20	1	0	0	0	0	1	0	0	0	5737	1203	42	2	607	2	FBXL6	8	145580161	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	457	145580161	783861	842	17564											
ADCK5	203054	broad.mit.edu	37	chr8	145608327	145608327	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaaggtgctctccaccgcGgtagtgggggcgcccctgct	5	7	16	13	3	1	0	0	0	1	0	2	1	1	1	4	5	2	3	4	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:145608327G>A	uc003zch.2	+	3	216	c.162G>A	c.(160-162)GCG>GCA	p.A54A	ADCK5_uc003zcg.2_RNA	NM_174922	NP_777582	Q3MIX3	ADCK5_HUMAN	aarF domain containing kinase 5	54	Helical; (Potential).					integral to membrane	protein serine/threonine kinase activity			stomach(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;8.96e-41)|Epithelial(56;4.08e-40)|all cancers(56;4.51e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			TCTCCACCGCGGTAGTGGGGG	0.667													3	7					0	0	0.004672	0	0		A	145608327	A	A	145608327	2	1	20	1	0	0	0	0	0	0	0	1	291	1103	39	1		1	ADCK5	8	145608327	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	28166	145608327	755695	843	17565											
CPSF1	29894	broad.mit.edu	37	chr8	145623932	145623932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccatggtggagtcttcccGgctcagaatcaggaatccgt	9	9	11	12	2	3	1	2	0	1	1	5	3	5	3	3	4	0	1	3	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:145623932G>A	uc003zcj.2	-	18	1810	c.1735C>T	c.(1735-1737)CGG>TGG	p.R579W		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	579					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			GAGTCTTCCCGGCTCAGAATC	0.677													54	147					0	0	0.01441	0	0		A	145623932	A	A	145623932	3	1	20	1	0	0	0	0	1	0	0	0	3827	1115	39	1	2680	1	CPSF1	8	145623932	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	15605	145623932	740090	844	17566											
NFKBIL2	4796	broad.mit.edu	37	chr8	145662159	145662159	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttcgagtgcggagggtgAcggacgccccccgttcaagc	6	7	14	14	5	1	1	1	1	0	0	2	4	1	3	4	3	2	1	4	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr8:145662159A>G	uc011llg.1	-	15	1886	c.1871T>C	c.(1870-1872)GTC>GCC	p.V624A	uc011llh.1_RNA	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	624	ANK 3.				cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			GCGGAGGGTGACGGACGCCCC	0.667													13	105					0	0	0.007413	0	0		G	145662159	G	G	145662159	3	3	20	1	0	0	0	0	1	0	0	0	10401	275	10	3	2313	3	NFKBIL2	8	145662159	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	38227	145662159	701863	845	17567											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													5	134					0	0	0.012319	0	0		G	164038	G	G	164038	5	3	20	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-4362-01A-01D-1158-08		164038	141049393	846	17568											
DOCK8	81704	broad.mit.edu	37	chr9	376262	376262	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgaaggacataagggagTatttaatattgaagtgcaag	15	10	13	3	0	0	2	0	2	0	0	0	4	0	4	0	3	1	3	0	3	7	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:376262T>C	uc003zgf.2	+	19	2274	c.2162T>C	c.(2161-2163)GTA>GCA	p.V721A	DOCK8_uc010mgu.2_Missense_Mutation_p.V23A|DOCK8_uc010mgv.2_Missense_Mutation_p.V653A|DOCK8_uc010mgw.1_Missense_Mutation_p.V23A|DOCK8_uc003zgk.2_Missense_Mutation_p.V179A|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	721					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		CATAAGGGAGTATTTAATATT	0.398													53	204					0	0	0.01441	0	0		C	376262	C	C	376262	3	2	20	1	0	0	0	0	1	0	0	0	4699	1638	57	3	2236	3	DOCK8	9	376262	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	212224	376262	140837169	847	17569											
GLIS3	169792	broad.mit.edu	37	chr9	3829471	3829471	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtagtgtgggggacagaacTtctgcagctgcccataaaat	11	9	13	8	0	1	1	0	0	1	1	1	2	1	2	1	3	4	3	1	3	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:3829471T>G	uc003zhw.1	-	9	2224	c.2030A>C	c.(2029-2031)AAG>ACG	p.K677T	GLIS3_uc003zhx.1_Missense_Mutation_p.K832T|GLIS3_uc010mhf.1_Missense_Mutation_p.K226T|GLIS3_uc003zhv.1_RNA	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	677					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		GGGACAGAACTTCTGCAGCTG	0.532													14	72					0	0	0.00499	0	0		G	3829471	G	G	3829471	3	3	20	1	0	0	0	0	1	0	0	0	6462	1609	56	5	305	5	GLIS3	9	3829471	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3453209	3829471	137383960	848	17570											
INSL6	11172	broad.mit.edu	37	chr9	5185339	5185339	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgcctcttccccgggcCggggaagcggtttgcgggct	2	11	16	12	4	1	0	0	0	1	0	2	1	2	1	4	5	3	2	4	5	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:5185339C>T	uc003zix.2	-	1	280	c.264G>A	c.(262-264)CCG>CCA	p.P88P		NM_007179	NP_009110	Q9Y581	INSL6_HUMAN	insulin-like 6 precursor	88						extracellular region	hormone activity				0	all_hematologic(13;0.137)	Breast(48;0.147)|Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0128)|Lung(218;0.145)		TTCCCCGGGCCGGGGAAGCGG	0.527													11	321					0	0	0.00245	0	0		T	5185339	T	T	5185339	2	4	20	1	0	0	0	0	0	0	0	1	7786	639	23	1		1	INSL6	9	5185339	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1355868	5185339	136028092	849	17571											
CD274	29126	broad.mit.edu	37	chr9	5467858	5467858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatacacatttggaggagaCgtaatccagcattggaactt	14	10	10	7	1	0	2	0	0	0	2	1	5	1	4	1	3	3	2	1	3	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:5467858C>T	uc003zje.2	+	7	921	c.869C>T	c.(868-870)ACG>ATG	p.T290M	C9orf46_uc003zjd.2_Intron|CD274_uc010mhn.2_RNA|CD274_uc003zjf.2_Missense_Mutation_p.T176M	NM_014143	NP_054862	Q9NZQ7	PD1L1_HUMAN	CD274 molecule precursor	290	Cytoplasmic (Potential).				cell proliferation|cell surface receptor linked signaling pathway|immune response|T cell costimulation	endomembrane system|integral to membrane	receptor activity			lung(1)|central_nervous_system(1)	2	all_hematologic(13;0.158)	Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000742)|Lung(218;0.111)		TTGGAGGAGACGTAATCCAGC	0.423			T	CIITA	PMBL|Hodgkin Lymphona|								26	63					0	0	0.008361	0	0		T	5467858	T	T	5467858	3	4	20	1	0	0	0	0	1	0	0	0	2994	536	19	1	891	1	CD274	9	5467858	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	282519	5467858	135745573	850	17572											
UHRF2	115426	broad.mit.edu	37	chr9	6498070	6498070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatggattcttggtttggcGctatcttttaagaagagatg	9	15	11	6	1	2	2	0	0	2	2	2	4	2	3	1	3	0	2	1	3	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:6498070G>A	uc003zjy.2	+	12	2160	c.1820G>A	c.(1819-1821)CGC>CAC	p.R607H	UHRF2_uc003zjz.2_RNA|UHRF2_uc003zkb.2_RNA	NM_152896	NP_690856	Q96PU4	UHRF2_HUMAN	ubiquitin-like with PHD and ring finger domains	607	YDG.|Methyl-CpG binding and interaction with HDAC1.				cell cycle|cell differentiation|cell proliferation|protein autoubiquitination|regulation of cell cycle|ubiquitin-dependent protein catabolic process	nucleus	DNA binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0392)|Lung(218;0.129)		TTGGTTTGGCGCTATCTTTTA	0.383													24	90					0	0	0.004656	0	0		A	6498070	A	A	6498070	3	1	20	1	0	0	0	0	1	0	0	0	16996	1087	38	1	1866	1	UHRF2	9	6498070	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1030212	6498070	134715361	851	17573											
GLDC	2731	broad.mit.edu	37	chr9	6605272	6605272	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagctcagtgaggactccAgtatatctggaaagacagac	13	9	10	9	0	3	3	2	1	1	2	4	5	4	5	1	2	1	2	1	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:6605272A>G	uc003zkc.2	-	6	913	c.720T>C	c.(718-720)ACT>ACC	p.T240T		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	240					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	TGAGGACTCCAGTATATCTGG	0.423													17	45					0	0	0.006122	0	0		G	6605272	G	G	6605272	2	3	20	1	0	0	0	0	0	0	0	1	6448	175	7	3		3	GLDC	9	6605272	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	107202	6605272	134608159	852	17574											
KDM4C	23081	broad.mit.edu	37	chr9	7013988	7013988	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgtgcaaagtgctgcgtAcgggttcatgcaagtaaatg	10	11	12	8	2	1	0	1	0	0	0	2	0	2	0	1	1	5	6	1	1	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:7013988A>G	uc003zkh.2	+	14	2749	c.2169A>G	c.(2167-2169)GTA>GTG	p.V723V	KDM4C_uc010mhu.2_Silent_p.V745V|KDM4C_uc011lmi.1_Silent_p.V723V|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Silent_p.V723V|KDM4C_uc011lmk.1_Silent_p.V468V|KDM4C_uc011lml.1_Silent_p.V410V	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	723	PHD-type 1.				positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						AGTGCTGCGTACGGGTTCATG	0.368													75	178					0	0	0.01441	0	0		G	7013988	G	G	7013988	2	3	20	1	0	0	0	0	0	0	0	1	8146	378	14	3		3	KDM4C	9	7013988	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	408716	7013988	134199443	853	17575											
MPDZ	8777	broad.mit.edu	37	chr9	13110649	13110649	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttacctgcatttcaatggAgccagatgcatttttcagta	10	15	7	9	0	3	1	2	0	1	1	3	2	3	2	2	1	4	3	2	1	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:13110649A>G	uc010mhy.2	-	42	5779	c.5728T>C	c.(5728-5730)TCC>CCC	p.S1910P	MPDZ_uc003zkx.3_Missense_Mutation_p.S134P|MPDZ_uc003zky.3_Missense_Mutation_p.S473P|MPDZ_uc010mib.2_Missense_Mutation_p.S644P|MPDZ_uc010mhx.2_Missense_Mutation_p.S761P|MPDZ_uc011lmm.1_Missense_Mutation_p.S798P|MPDZ_uc003zkz.3_Missense_Mutation_p.S632P|MPDZ_uc010mhz.2_Missense_Mutation_p.S1906P|MPDZ_uc011lmn.1_Missense_Mutation_p.S1877P|MPDZ_uc003zlb.3_Missense_Mutation_p.S1910P	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1939	PDZ 12.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		ATTTCAATGGAGCCAGATGCA	0.418													11	41					0	0	0.010729	0	0		G	13110649	G	G	13110649	3	3	20	1	0	0	0	0	1	0	0	0	9740	304	11	3	413	3	MPDZ	9	13110649	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	6096661	13110649	128102782	854	17576											
MPDZ	8777	broad.mit.edu	37	chr9	13221391	13221391	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgatcagctactcctccagGcagaatggtttttactatca	10	13	7	11	0	2	2	2	1	0	1	4	2	4	2	2	2	3	3	2	2	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:13221391G>T	uc010mia.1	-	6	913	c.856C>A	c.(856-858)CCT>ACT	p.P286T	MPDZ_uc010mhy.2_Missense_Mutation_p.P286T|MPDZ_uc010mhz.2_Missense_Mutation_p.P286T|MPDZ_uc011lmn.1_Missense_Mutation_p.P286T|MPDZ_uc003zlb.3_Missense_Mutation_p.P286T	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	286	PDZ 2.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		ACTCCTCCAGGCAGAATGGTT	0.368													22	84					1.66031e-10	1.74469e-10	0.003954	1	0		T	13221391	T	T	13221391	3	4	20	1	0	0	0	0	1	0	0	0	9740	1203	42	5	5429	5	MPDZ	9	13221391	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	110742	13221391	127992040	855	17577											
SH3GL2	6456	broad.mit.edu	37	chr9	17795624	17795624	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttgggatttaaagagggCgatatcatcacactcactaa	14	10	10	7	1	3	1	3	0	0	1	3	4	3	2	0	2	0	1	0	2	4	5	rs146755876		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:17795624C>T	uc003zna.2	+	9	1230	c.942C>T	c.(940-942)GGC>GGT	p.G314G	SH3GL2_uc011lmy.1_Silent_p.G267G	NM_003026	NP_003017	Q99962	SH3G2_HUMAN	SH3-domain GRB2-like 2	314	SH3.				axon guidance|central nervous system development|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	cytosol|Golgi membrane|plasma membrane	identical protein binding|lipid binding			skin(1)	1				GBM - Glioblastoma multiforme(50;2.71e-10)|Lung(42;0.203)		TTAAAGAGGGCGATATCATCA	0.478													5	80					0	0	0.000602	0	0		T	17795624	T	T	17795624	2	4	20	1	0	0	0	0	0	0	0	1	14276	755	27	1		1	SH3GL2	9	17795624	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4574233	17795624	123417807	856	17578											
FAM154A	158297	broad.mit.edu	37	chr9	18928326	18928326	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacagcttttggtattgatAggcaggtggggcacatagtg	9	13	14	5	0	0	1	0	1	0	0	0	1	0	1	0	5	2	4	0	5	4	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:18928326A>G	uc003zni.1	-	4	1427	c.1149T>C	c.(1147-1149)CCT>CCC	p.P383P	FAM154A_uc010mip.1_Silent_p.P191P	NM_153707	NP_714918	Q8IYX7	F154A_HUMAN	hypothetical protein LOC158297	383										pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.53e-16)		TGGTATTGATAGGCAGGTGGG	0.582													14	51					0	0	0.00499	0	0		G	18928326	G	G	18928326	2	3	20	1	0	0	0	0	0	0	0	1	5474	407	15	3		3	FAM154A	9	18928326	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1132702	18928326	122285105	857	17579											
DENND4C	55667	broad.mit.edu	37	chr9	19305374	19305374	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttccatttcagtggcaaTgcccatatattcccctttgt	7	17	5	12	0	2	0	1	0	1	0	4	0	4	0	4	1	1	1	4	1	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:19305374T>C	uc003znq.2	+	6	661	c.628T>C	c.(628-630)TGC>CGC	p.C210R	DENND4C_uc011lnc.1_5'UTR	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	210	DENN.|Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2						TCAGTGGCAATGCCCATATAT	0.328													6	412					0	0	0.00308	0	0		C	19305374	C	C	19305374	3	2	20	1	0	0	0	0	1	0	0	0	4441	1464	51	3	650	3	DENND4C	9	19305374	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	377048	19305374	121908057	858	17580											
IFNA17	3451	broad.mit.edu	37	chr9	21227953	21227953	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggacagagatggcttgagTcttctggaactggttgccat	9	11	14	7	0	2	2	0	1	2	1	2	6	2	4	1	4	2	2	1	4	1	3	rs150705157	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:21227953T>C	uc003zos.1	-	1	269	c.220A>G	c.(220-222)ACT>GCT	p.T74A	IFNA14_uc003zoo.1_Intron	NM_021268	NP_067091	P01571	IFN17_HUMAN	interferon, alpha 17 precursor	74					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				Lung(24;2.13e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		ATGGCTTGAGTCTTCTGGAAC	0.502													38	226					0	0	0.004289	0	0		C	21227953	C	C	21227953	3	2	20	1	0	0	0	0	1	0	0	0	7552	1667	58	3	353	3	IFNA17	9	21227953	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1922579	21227953	119985478	859	17581											
CDKN2A	1029	broad.mit.edu	37	chr9	21970967	21970967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgccccccgcagccgcgcGcaggtaccgtgcgacatcgc	5	4	14	18	7	0	0	0	0	0	0	1	1	0	0	5	2	4	3	5	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:21970967G>A	uc003zpk.2	-	2	603	c.391C>T	c.(391-393)CGC>TGC	p.R131C	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_3'UTR	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	131	ANK 4.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(13)|p.R131H(4)|p.R128fs*12(3)|p.R128fs*9(2)|p.R131R(2)|p.R131L(1)|p.A118fs*10(1)|p.R131C(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		GCAGCCGCGCGCAGGTACCGT	0.682		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			8	37					0	0	0.008291	0	0		A	21970967	A	A	21970967	3	1	20	1	0	0	0	0	1	0	0	0	3164	1087	38	1	87	1	CDKN2A	9	21970967	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	743014	21970967	119242464	860	17582											
TEK	7010	broad.mit.edu	37	chr9	27206671	27206671	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctacaatttatccagtgcTtgactggaatgacatcaaat	13	13	6	9	0	1	2	1	2	0	0	3	3	3	3	2	1	2	1	2	1	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:27206671T>C	uc003zqi.3	+	15	2898	c.2456T>C	c.(2455-2457)CTT>CCT	p.L819P	TEK_uc011lno.1_Missense_Mutation_p.L776P|TEK_uc011lnp.1_Missense_Mutation_p.L671P|TEK_uc003zqj.1_Missense_Mutation_p.L753P	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	819	Cytoplasmic (Potential).				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		TATCCAGTGCTTGACTGGAAT	0.463													4	58					0	0	0.009096	0	0		C	27206671	C	C	27206671	3	2	20	1	0	0	0	0	1	0	0	0	15776	1609	56	3	2514	3	TEK	9	27206671	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	5235704	27206671	114006760	861	17583											
TEK	7010	broad.mit.edu	37	chr9	27229174	27229174	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacctacgtgaataccacgCtttatgagaagtttacttat	13	13	7	8	2	0	3	0	2	0	2	0	4	0	3	2	0	3	2	2	0	7	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:27229174C>T	uc003zqi.3	+	23	3761	c.3319C>T	c.(3319-3321)CTT>TTT	p.L1107F	TEK_uc011lno.1_Missense_Mutation_p.L1064F|TEK_uc011lnp.1_Missense_Mutation_p.L959F	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	1107	Cytoplasmic (Potential).				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		GAATACCACGCTTTATGAGAA	0.458													53	157					0	0	0.01441	0	0		T	27229174	T	T	27229174	3	4	20	1	0	0	0	0	1	0	0	0	15776	797	28	2	3409	2	TEK	9	27229174	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	22503	27229174	113984257	862	17584											
LINGO2	158038	broad.mit.edu	37	chr9	27949193	27949193	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttaaggaggctgtgaaggTatcattcccagcagcattgc	11	10	12	8	0	1	1	1	1	0	0	2	2	2	2	1	3	3	5	1	3	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:27949193T>C	uc003zqu.1	-	2	1671	c.1477A>G	c.(1477-1479)ACC>GCC	p.T493A	LINGO2_uc010mjf.1_Missense_Mutation_p.T493A|LINGO2_uc003zqv.1_Missense_Mutation_p.T493A	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	493	Ig-like C2-type.|Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		GCTGTGAAGGTATCATTCCCA	0.493													23	117					0	0	0.00278	0	0		C	27949193	C	C	27949193	3	2	20	1	0	0	0	0	1	0	0	0	8832	1638	57	3	347	3	LINGO2	9	27949193	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	720019	27949193	113264238	863	17585											
DDX58	23586	broad.mit.edu	37	chr9	32466435	32466435	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctacctcttgctcttccTctgcctattagaaaataaat	10	16	4	11	0	3	1	0	0	3	1	4	1	4	1	3	0	4	2	3	0	7	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:32466435T>C	uc003zra.2	-	16	2348	c.2190A>G	c.(2188-2190)AGA>AGG	p.R730R	DDX58_uc010mjj.2_RNA|DDX58_uc010mjk.1_Silent_p.R685R|DDX58_uc011lnr.1_Missense_Mutation_p.E526G|DDX58_uc010mji.2_Silent_p.R659R	NM_014314	NP_055129	O95786	DDX58_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	730	Helicase C-terminal.				detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		TTGCTCTTCCTCTGCCTATTA	0.313													3	52					0	0	0.004672	0	0		C	32466435	C	C	32466435	2	2	20	1	0	0	0	0	0	0	0	1	4378	1548	54	3		3	DDX58	9	32466435	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	4517242	32466435	108746996	864	17586											
TOPORS	10210	broad.mit.edu	37	chr9	32543953	32543953	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccactaggtgaatacacagaAgcatttcgttcccttgtcag	11	11	8	11	1	1	2	1	1	0	1	3	2	2	2	2	1	2	2	2	1	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:32543953A>G	uc003zrb.2	-	3	737	c.570T>C	c.(568-570)GCT>GCC	p.A190A	TOPORS_uc003zrc.2_Silent_p.A123A	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	190	E3 ubiquitin-protein ligase activity.|Required for DNA-binding.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		AATACACAGAAGCATTTCGTT	0.453													4	167					0	0	0.009096	0	0		G	32543953	G	G	32543953	2	3	20	1	0	0	0	0	0	0	0	1	16396	59	3	3		3	TOPORS	9	32543953	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	77518	32543953	108669478	865	17587											
TAF1L	138474	broad.mit.edu	37	chr9	32630337	32630337	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgtacagttccttcctcTtcatctgcaagatcaccatc	8	15	5	13	0	4	1	2	0	2	1	7	1	6	1	3	0	2	4	3	0	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:32630337T>A	uc003zrg.1	-	1	5331	c.5241A>T	c.(5239-5241)GAA>GAT	p.E1747D		NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1747					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TTCCTTCCTCTTCATCTGCAA	0.483													6	314					0	0	0.001168	0	0		A	32630337	A	A	32630337	3	1	20	1	0	0	0	0	1	0	0	0	15548	1606	56	5	243	5	TAF1L	9	32630337	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	86384	32630337	108583094	866	17588											
NFX1	4799	broad.mit.edu	37	chr9	33295421	33295421	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaagaatgtggaaacgcaCacaggtaaacctacctagat	17	7	8	9	1	0	2	0	0	0	2	0	3	0	3	2	2	3	2	2	2	8	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:33295421C>T	uc003zsq.2	+	2	1090	c.1029C>T	c.(1027-1029)CAC>CAT	p.H343H	SUGT1P1_uc010mjq.1_Intron|NFX1_uc011lnw.1_Silent_p.H343H|NFX1_uc003zso.2_Silent_p.H343H|NFX1_uc003zsp.1_Silent_p.H343H|NFX1_uc010mjr.1_Silent_p.H343H|NFX1_uc003zsr.2_Silent_p.H343H	NM_002504	NP_002495	Q12986	NFX1_HUMAN	nuclear transcription factor, X-box binding 1	343					inflammatory response|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|ligase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)	GBM - Glioblastoma multiforme(74;0.224)		TGGAAACGCACACAGGTAAAC	0.358													7	73					0	0	0.00308	0	0		T	33295421	T	T	33295421	2	4	20	1	0	0	0	0	0	0	0	1	10406	477	17	4		4	NFX1	9	33295421	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	665084	33295421	107918010	867	17589											
NFX1	4799	broad.mit.edu	37	chr9	33318813	33318813	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttggggatttcagctgttTaaagatatgtggcaagtaag	12	14	12	3	0	1	1	1	0	0	1	1	2	1	2	0	3	1	4	0	3	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:33318813T>C	uc003zsq.2	+	8	1734	c.1673T>C	c.(1672-1674)TTA>TCA	p.L558S	SUGT1P1_uc010mjq.1_Intron|NFX1_uc011lnw.1_Missense_Mutation_p.L558S|NFX1_uc003zso.2_Missense_Mutation_p.L558S|NFX1_uc003zsp.1_Missense_Mutation_p.L558S|NFX1_uc010mjr.1_Missense_Mutation_p.L558S|NFX1_uc003zsr.2_Missense_Mutation_p.L558S	NM_002504	NP_002495	Q12986	NFX1_HUMAN	nuclear transcription factor, X-box binding 1	558					inflammatory response|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|ligase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)	GBM - Glioblastoma multiforme(74;0.224)		TTCAGCTGTTTAAAGATATGT	0.383													21	505					0	0	0.014323	0	0		C	33318813	C	C	33318813	3	2	20	1	0	0	0	0	1	0	0	0	10406	1764	61	3	1703	3	NFX1	9	33318813	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	23392	33318813	107894618	868	17590											
NOL6	65083	broad.mit.edu	37	chr9	33466161	33466161	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcagctggaaggcagctcGgacccgctgcacggcctcag	7	4	15	15	4	1	0	1	0	0	0	2	2	1	2	2	4	3	6	2	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:33466161G>A	uc003zsz.2	-	18	2373	c.2272C>T	c.(2272-2274)CGA>TGA	p.R758*	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zsy.2_5'Flank|NOL6_uc003zta.2_Intron|NOL6_uc010mjv.2_Nonsense_Mutation_p.R755*|NOL6_uc011lob.1_Nonsense_Mutation_p.R706*|NOL6_uc003ztb.1_Nonsense_Mutation_p.R758*	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	758					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		AAGGCAGCTCGGACCCGCTGC	0.612													6	33					0	0	0.004007	0	0		A	33466161	A	A	33466161	4	1	20	1	0	0	0	0	0	1	0	0	10544	1124	39	1	1204	1	NOL6	9	33466161	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	147348	33466161	107747270	869	17591											
VCP	7415	broad.mit.edu	37	chr9	35065361	35065361	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagcacgcatcccaccacGgacaagaaaaatgtctcctg	14	5	7	15	2	1	1	0	0	1	1	3	2	2	2	3	1	1	2	3	1	3	0	rs121909330		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:35065361G>A	uc003zvy.2	-	5	852	c.463C>T	c.(463-465)CGT>TGT	p.R155C	VCP_uc003zvz.2_RNA|VCP_uc010mkh.1_5'UTR|VCP_uc010mki.1_Missense_Mutation_p.R110C	NM_007126	NP_009057	P55072	TERA_HUMAN	valosin-containing protein	155			R -> C (in IBMPFD; also in one patient without evidence of Paget disease of the bone).|R -> H (in IBMPFD; strongly reduced affinity for ADP and increased affinity for ATP).|R -> P (in IBMPFD).		activation of caspase activity|double-strand break repair|endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|retrograde protein transport, ER to cytosol	cytosol|endoplasmic reticulum|microsome|nucleus|proteasome complex	ATP binding|ATPase activity|lipid binding|polyubiquitin binding|protein domain specific binding|protein phosphatase binding			upper_aerodigestive_tract(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			ATCCCACCACGGACAAGAAAA	0.493													7	45					0	0	0.00308	0	0		A	35065361	A	A	35065361	3	1	20	1	0	0	0	0	1	0	0	0	17166	1116	39	1	2009	1	VCP	9	35065361	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1599200	35065361	106148070	870	17592											
TLN1	7094	broad.mit.edu	37	chr9	35719097	35719097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actggctggttgggcactgcGcagcagttctgacactgctc	6	10	13	12	1	1	1	0	1	1	0	2	1	1	1	0	3	3	7	0	3	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:35719097G>A	uc003zxt.2	-	16	2224	c.1870C>T	c.(1870-1872)CGC>TGC	p.R624C		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	624					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TGGGCACTGCGCAGCAGTTCT	0.637													8	37					0	0	0.004482	0	0		A	35719097	A	A	35719097	3	1	20	1	0	0	0	0	1	0	0	0	15972	1087	38	1	5923	1	TLN1	9	35719097	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	653736	35719097	105494334	871	17593											
OR13J1	392309	broad.mit.edu	37	chr9	35869832	35869832	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgctgaccgacgtgttgccGcatgccagcttcagcactgc	6	9	11	15	4	1	1	1	1	0	0	2	2	1	1	3	0	5	5	3	0	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:35869832G>A	uc011lph.1	-	1	567	c.567C>T	c.(565-567)TGC>TGT	p.C189C		NM_001004487	NP_001004487	Q8NGT2	O13J1_HUMAN	olfactory receptor, family 13, subfamily J,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_epithelial(49;0.169)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00494)|STAD - Stomach adenocarcinoma(86;0.194)			ACGTGTTGCCGCATGCCAGCT	0.597													17	86					0	0	0.00499	0	0		A	35869832	A	A	35869832	2	1	20	1	0	0	0	0	0	0	0	1	10963	1079	38	1		1	OR13J1	9	35869832	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	150735	35869832	105343599	872	17594											
RNF38	152006	broad.mit.edu	37	chr9	36369774	36369774	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggatgagcagcaggatgtAgcagacggggagatacattc	12	7	16	6	1	0	3	0	1	0	2	1	6	0	5	0	4	4	4	0	4	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:36369774A>G	uc003zzh.2	-	4	703	c.512T>C	c.(511-513)CTA>CCA	p.L171P	RNF38_uc003zzi.2_Missense_Mutation_p.L121P|RNF38_uc003zzj.2_Missense_Mutation_p.L88P|RNF38_uc003zzk.2_Missense_Mutation_p.L88P|RNF38_uc003zzl.2_Missense_Mutation_p.L95P|RNF38_uc003zzm.2_Missense_Mutation_p.L88P	NM_022781	NP_073618	Q9H0F5	RNF38_HUMAN	ring finger protein 38 isoform 1	171							zinc ion binding			central_nervous_system(1)	1			STAD - Stomach adenocarcinoma(86;0.228)			AGCAGGATGTAGCAGACGGGG	0.463													11	182					0	0	0.003163	0	0		G	36369774	G	G	36369774	3	3	20	1	0	0	0	0	1	0	0	0	13515	420	15	3	1071	3	RNF38	9	36369774	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	499942	36369774	104843657	873	17595											
GRHPR	9380	broad.mit.edu	37	chr9	37430513	37430513	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgccctccctcagtgtctAcccctgagctggctgcccaa	5	9	8	19	0	2	1	1	1	1	0	3	1	3	1	6	1	4	2	6	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:37430513A>G	uc003zzu.1	+	7	645	c.604A>G	c.(604-606)ACC>GCC	p.T202A	GRHPR_uc010mlv.1_Missense_Mutation_p.T122A|GRHPR_uc003zzt.1_Missense_Mutation_p.T122A|GRHPR_uc003zzv.1_Missense_Mutation_p.T59A|GRHPR_uc003zzw.1_Missense_Mutation_p.T59A	NM_012203	NP_036335	Q9UBQ7	GRHPR_HUMAN	glyoxylate reductase/hydroxypyruvate reductase	202					cellular nitrogen compound metabolic process|excretion|glyoxylate metabolic process	peroxisomal matrix	glycerate dehydrogenase activity|glyoxylate reductase (NADP) activity|hydroxypyruvate reductase activity|NAD binding|protein binding				0				GBM - Glioblastoma multiforme(29;0.00687)		CTCAGTGTCTACCCCTGAGCT	0.577													3	110					0	0	0.009096	0	0		G	37430513	G	G	37430513	3	3	20	1	0	0	0	0	1	0	0	0	6782	391	14	3	630	3	GRHPR	9	37430513	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1060739	37430513	103782918	874	17596											
POLR1E	64425	broad.mit.edu	37	chr9	37493650	37493650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaatgaatctttgaatcGtgcagtggctaaagctgcag	11	11	12	7	1	1	2	0	2	1	0	2	2	1	2	0	2	3	5	0	2	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:37493650G>A	uc003zzz.1	+	5	971	c.683G>A	c.(682-684)CGT>CAT	p.R228H	POLR1E_uc011lqj.1_Intron|POLR1E_uc003zzy.1_Missense_Mutation_p.R166H|POLR1E_uc011lqk.1_Missense_Mutation_p.R95H	NM_022490	NP_071935	Q9GZS1	RPA49_HUMAN	RNA polymerase I associated factor 53	228					rRNA transcription	cell junction|cytoplasm|nucleolus	DNA binding|DNA-directed RNA polymerase activity|protein binding				0				GBM - Glioblastoma multiforme(29;0.00851)|Lung(182;0.229)		TCTTTGAATCGTGCAGTGGCT	0.443													28	77					0	0	0.00632	0	0		A	37493650	A	A	37493650	3	1	20	1	0	0	0	0	1	0	0	0	12232	1145	40	1	519	1	POLR1E	9	37493650	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	63137	37493650	103719781	875	17597											
FRMPD1	22844	broad.mit.edu	37	chr9	37744582	37744582	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactacacctctcaggtctcAtttcccctggtgccatcagc	7	11	7	16	0	3	0	3	0	2	0	6	1	4	0	4	2	3	0	4	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:37744582A>G	uc004aag.1	+	16	2597	c.2553A>G	c.(2551-2553)TCA>TCG	p.S851S	FRMPD1_uc004aah.1_Silent_p.S851S	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	851						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		CTCAGGTCTCATTTCCCCTGG	0.557													5	91					0	0	0.001168	0	0		G	37744582	G	G	37744582	2	3	20	1	0	0	0	0	0	0	0	1	6071	204	8	3		3	FRMPD1	9	37744582	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	250932	37744582	103468849	876	17598											
FAM75A6	389730	broad.mit.edu	37	chr9	43626961	43626961	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcagaatggatgtcaaacTttcctggggaaggttaggag	12	9	15	5	0	1	1	1	0	0	1	2	4	2	4	1	6	1	2	1	6	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:43626961T>G	uc011lrb.1	-	4	1755	c.1726A>C	c.(1726-1728)AGT>CGT	p.S576R		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	576						integral to membrane					0						GATGTCAAACTTTCCTGGGGA	0.463													13	154					0	0	0.013537	0	0		G	43626961	G	G	43626961	3	3	20	1	0	0	0	0	1	0	0	0	5636	1609	56	5	2309	5	FAM75A6	9	43626961	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	5882379	43626961	97586470	877	17599											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													34	141					0	0	0.003755	0	0		G	70993145	G	G	70993145	3	3	20	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	27366184	70993145	70220286	878	17600											
TJP2	9414	broad.mit.edu	37	chr9	71836092	71836092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggaccaagaccatgcgcGcacccgagaccgcagccgtg	9	3	12	17	5	0	2	0	0	0	2	0	4	0	3	6	1	2	2	6	1	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:71836092G>A	uc004ahe.2	+	5	832	c.632G>A	c.(631-633)CGC>CAC	p.R211H	TJP2_uc011lrs.1_Missense_Mutation_p.R188H|TJP2_uc004ahb.1_Missense_Mutation_p.R188H|TJP2_uc011lrt.1_Missense_Mutation_p.R188H|TJP2_uc004ahd.2_Missense_Mutation_p.R211H|TJP2_uc004ahf.2_Missense_Mutation_p.R211H|TJP2_uc011lru.1_Missense_Mutation_p.R215H|TJP2_uc011lrv.1_Missense_Mutation_p.R233H	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)	211					cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						GACCATGCGCGCACCCGAGAC	0.776													4	15					0	0	0.009096	0	0		A	71836092	A	A	71836092	3	1	20	1	0	0	0	0	1	0	0	0	15955	1087	38	1	807	1	TJP2	9	71836092	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	842947	71836092	69377339	879	17601											
TRPM3	80036	broad.mit.edu	37	chr9	73152166	73152166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcggattttgttggactcgGcccgctccagacctgtcagg	6	10	13	12	3	1	1	1	0	0	1	3	3	2	3	3	4	1	2	3	4	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:73152166G>A	uc004aid.2	-	25	4071	c.3827C>T	c.(3826-3828)GCC>GTC	p.A1276V	TRPM3_uc004ahu.2_Missense_Mutation_p.A1118V|TRPM3_uc004ahv.2_Missense_Mutation_p.A1078V|TRPM3_uc004ahw.2_Missense_Mutation_p.A1148V|TRPM3_uc004ahx.2_Missense_Mutation_p.A1135V|TRPM3_uc004ahy.2_Missense_Mutation_p.A1138V|TRPM3_uc004ahz.2_Missense_Mutation_p.A1125V|TRPM3_uc004aia.2_Missense_Mutation_p.A1123V|TRPM3_uc004aib.2_Missense_Mutation_p.A1113V|TRPM3_uc004aic.2_Missense_Mutation_p.A1276V	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1301	Cytoplasmic (Potential).|Potential.					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GTTGGACTCGGCCCGCTCCAG	0.627													26	102					0	0	0.009535	0	0		A	73152166	A	A	73152166	3	1	20	1	0	0	0	0	1	0	0	0	16613	1203	42	2	1300	2	TRPM3	9	73152166	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1316074	73152166	68061265	880	17602											
TMEM2	23670	broad.mit.edu	37	chr9	74332975	74332975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgtggtttttcggggtttGcatcctgatgaggtcgaaat	7	14	13	7	3	0	2	0	2	0	0	3	3	1	2	1	4	1	3	1	4	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:74332975G>A	uc011lsa.1	-	13	2828	c.2288C>T	c.(2287-2289)GCA>GTA	p.A763V	TMEM2_uc010mos.2_Missense_Mutation_p.A700V|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	763						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		TTCGGGGTTTGCATCCTGATG	0.348													45	158					0	0	0.01441	0	0		A	74332975	A	A	74332975	3	1	20	1	0	0	0	0	1	0	0	0	16146	1319	46	2	1911	2	TMEM2	9	74332975	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1180809	74332975	66880456	881	17603											
RORB	6096	broad.mit.edu	37	chr9	77300472	77300472	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatccagagatagtgaatAcactgtttcctccgttatac	11	13	6	11	1	1	2	1	1	0	1	4	3	4	2	3	0	2	2	3	0	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:77300472A>G	uc004aji.2	+	10	1400	c.1351A>G	c.(1351-1353)ACA>GCA	p.T451A	RORB_uc004ajh.2_Missense_Mutation_p.T440A	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	451	Ligand-binding (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						GATAGTGAATACACTGTTTCC	0.458													11	186					0	0	0.008291	0	0		G	77300472	G	G	77300472	3	3	20	1	0	0	0	0	1	0	0	0	13554	391	14	3	1356	3	RORB	9	77300472	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2967497	77300472	63912959	882	17604											
FOXB2	442425	broad.mit.edu	37	chr9	79635851	79635851	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagggcggctccttgcactcGgtgctagtgcactcctaggg	6	9	14	12	2	0	0	0	0	0	0	3	0	2	0	2	4	3	4	2	4	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:79635851G>A	uc004ako.1	+	1	1281	c.1281G>A	c.(1279-1281)TCG>TCA	p.S427S		NM_001013735	NP_001013757	Q5VYV0	FOXB2_HUMAN	forkhead box B2	427					brain development|embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CCTTGCACTCGGTGCTAGTGC	0.726													4	15					0	0	0.009096	0	0		A	79635851	A	A	79635851	2	1	20	1	0	0	0	0	0	0	0	1	6007	1103	39	1		1	FOXB2	9	79635851	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2335379	79635851	61577580	883	17605											
TLE4	7091	broad.mit.edu	37	chr9	82321726	82321726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatggcctagacaagacacGcctgctcaagaaagatgccc	14	5	10	12	1	1	4	1	0	0	4	1	5	1	4	3	1	2	1	3	1	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:82321726G>A	uc004ald.2	+	11	1676	c.827G>A	c.(826-828)CGC>CAC	p.R276H	TLE4_uc004alc.2_Missense_Mutation_p.R283H|TLE4_uc010mpr.2_Missense_Mutation_p.R162H|TLE4_uc004ale.2_5'UTR|TLE4_uc011lsq.1_Missense_Mutation_p.R251H|TLE4_uc010mps.2_Intron|TLE4_uc004alf.2_Missense_Mutation_p.R222H	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						GACAAGACACGCCTGCTCAAG	0.517													57	232					0	0	0.01441	0	0		A	82321726	A	A	82321726	3	1	20	1	0	0	0	0	1	0	0	0	15966	1087	38	1	890	1	TLE4	9	82321726	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2685875	82321726	58891705	884	17606											
TLE1	7088	broad.mit.edu	37	chr9	84225140	84225140	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctttgaggtacttacggtttCcccccagggattcctgccag	6	12	10	13	1	0	1	0	1	0	0	2	2	2	2	5	3	3	2	5	3	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:84225140C>T	uc004aly.2	-	14	1767	c.1326G>A	c.(1324-1326)GGG>GGA	p.G442G	TLE1_uc004alz.2_Silent_p.G452G|TLE1_uc011lsr.1_Silent_p.G427G|TLE1_uc004ama.1_Silent_p.G441G	NM_005077	NP_005068	Q04724	TLE1_HUMAN	transducin-like enhancer protein 1	442	Pro/Ser-rich.				negative regulation of Wnt receptor signaling pathway|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway		transcription factor binding			ovary(1)|skin(1)	2						CTTACGGTTTCCCCCCAGGGA	0.473													9	32					0	0	0.006214	0	0		T	84225140	T	T	84225140	2	4	20	1	0	0	0	0	0	0	0	1	15963	842	30	4		4	TLE1	9	84225140	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1903414	84225140	56988291	885	17607											
FLJ46321	389763	broad.mit.edu	37	chr9	84607025	84607025	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcccatgaatccccagtacTtccccctccccaacctctgt	8	10	3	20	0	1	1	0	1	1	0	5	1	5	1	8	0	2	1	8	0	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:84607025T>G	uc004amn.2	+	4	1687	c.1640T>G	c.(1639-1641)CTT>CGT	p.L547R		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	547						integral to membrane					0						TCCCCAGTACTTCCCCCTCCC	0.502													10	194					0	0	0.008291	0	0		G	84607025	G	G	84607025	3	3	20	1	0	0	0	0	1	0	0	0	5946	1609	56	5	1654	5	FLJ46321	9	84607025	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	381885	84607025	56606406	886	17608											
DAPK1	1612	broad.mit.edu	37	chr9	90264945	90264945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaaccgagaaggagagaCgcccctcctgacagcctctg	12	4	11	14	2	1	4	0	1	1	3	2	7	2	5	5	1	2	0	5	1	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:90264945C>T	uc004apc.2	+	16	1676	c.1538C>T	c.(1537-1539)ACG>ATG	p.T513M	DAPK1_uc004ape.2_Missense_Mutation_p.T513M|DAPK1_uc004apd.2_Missense_Mutation_p.T513M|DAPK1_uc011ltg.1_Missense_Mutation_p.T513M|DAPK1_uc011lth.1_Missense_Mutation_p.T250M|DAPK1_uc004apf.1_Missense_Mutation_p.T67M	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	513	ANK 5.				apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						GAAGGAGAGACGCCCCTCCTG	0.582									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				8	55					0	0	0.004482	0	0		T	90264945	T	T	90264945	3	4	20	1	0	0	0	0	1	0	0	0	4238	536	19	1	1596	1	DAPK1	9	90264945	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	5657920	90264945	50948486	887	17609											
DIRAS2	54769	broad.mit.edu	37	chr9	93376013	93376013	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgggatgtagctctcccGgaatgtgcctttcacaaacc	8	10	10	13	3	2	0	1	0	1	0	4	2	2	2	3	2	3	2	3	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:93376013G>A	uc004aqx.1	-	2	208	c.97C>T	c.(97-99)CGG>TGG	p.R33W		NM_017594	NP_060064	Q96HU8	DIRA2_HUMAN	Di-Ras2	33	GTP.				small GTPase mediated signal transduction	intracellular|plasma membrane	GTP binding|GTPase activity				0						TAGCTCTCCCGGAATGTGCCT	0.567													68	236					0	0	0.01441	0	0		A	93376013	A	A	93376013	3	1	20	1	0	0	0	0	1	0	0	0	4537	1115	39	1	506	1	DIRAS2	9	93376013	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3111068	93376013	47837418	888	17610											
SYK	6850	broad.mit.edu	37	chr9	93650880	93650880	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgtccaagagagatgtaCgatctcatgaatctgtgctg	10	11	13	7	1	2	3	1	1	2	2	4	5	3	3	1	1	2	2	1	1	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:93650880C>T	uc004aqz.2	+	13	2011	c.1806C>T	c.(1804-1806)TAC>TAT	p.Y602Y	SYK_uc004ara.2_Silent_p.Y579Y|SYK_uc004arb.2_Silent_p.Y579Y|SYK_uc004arc.2_Silent_p.Y602Y|SYK_uc011ltr.1_RNA|SYK_uc011lts.1_RNA|SYK_uc011ltt.1_RNA	NM_003177	NP_003168	P43405	KSYK_HUMAN	spleen tyrosine kinase isoform 1	602	Protein kinase.				cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						GAGAGATGTACGATCTCATGA	0.478			T	ETV6|ITK	MDS|peripheral T-cell lymphoma								5	18					0	0	0.000602	0	0		T	93650880	T	T	93650880	2	4	20	1	0	0	0	0	0	0	0	1	15463	547	19	1		1	SYK	9	93650880	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	274867	93650880	47562551	889	17611											
AUH	549	broad.mit.edu	37	chr9	93978376	93978376	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttctatggctaaccctgTtactaaatcgacctgagaat	11	14	6	10	1	2	1	0	1	2	1	3	3	2	1	2	1	2	2	2	1	6	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:93978376T>C	uc004arf.3	-	9	942	c.907A>G	c.(907-909)ACA>GCA	p.T303A	AUH_uc004arg.3_Missense_Mutation_p.T274A	NM_001698	NP_001689	Q13825	AUHM_HUMAN	AU RNA binding protein/enoyl-Coenzyme A	303					branched chain family amino acid catabolic process|mRNA catabolic process	mitochondrial matrix	enoyl-CoA hydratase activity|methylglutaconyl-CoA hydratase activity|mRNA 3'-UTR binding				0						GCTAACCCTGTTACTAAATCG	0.318													25	95					0	0	0.00632	0	0		C	93978376	C	C	93978376	3	2	20	1	0	0	0	0	1	0	0	0	1220	1725	60	3	120	3	AUH	9	93978376	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	327496	93978376	47235055	890	17612											
WNK2	65268	broad.mit.edu	37	chr9	95997117	95997117	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagttcatggcgcccgagaTgtacgaggagcactacgatg	10	7	14	10	5	1	1	1	0	0	1	1	6	1	2	1	2	3	3	1	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:95997117T>C	uc004ati.1	+	4	1103	c.1103T>C	c.(1102-1104)ATG>ACG	p.M368T	WNK2_uc011lud.1_Missense_Mutation_p.M368T|WNK2_uc004atj.2_Missense_Mutation_p.M368T|WNK2_uc004atk.2_Missense_Mutation_p.M5T|WNK2_uc010mrc.1_Missense_Mutation_p.M368T|WNK2_uc010mrd.1_Missense_Mutation_p.M5T	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	368	Protein kinase.				intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						GCGCCCGAGATGTACGAGGAG	0.617													3	40					0	0	0.004672	0	0		C	95997117	C	C	95997117	3	2	20	1	0	0	0	0	1	0	0	0	17404	1464	51	3	1117	3	WNK2	9	95997117	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2018741	95997117	45216314	891	17613											
FAM120A	23196	broad.mit.edu	37	chr9	96233460	96233460	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatcaccatcaggaagtgaTtggtttctgcagagagaatg	12	10	13	6	0	3	3	2	1	1	2	3	6	3	5	1	3	1	2	1	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:96233460T>C	uc004atw.2	+	2	537	c.512T>C	c.(511-513)ATT>ACT	p.I171T	FAM120A_uc004atv.2_Missense_Mutation_p.I171T|FAM120A_uc004atx.2_5'UTR|FAM120A_uc004aty.2_5'UTR	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	171						cytoplasm|plasma membrane	RNA binding				0						CAGGAAGTGATTGGTTTCTGC	0.443													4	125					0	0	0.009096	0	0		C	96233460	C	C	96233460	3	2	20	1	0	0	0	0	1	0	0	0	5426	1493	52	3	518	3	FAM120A	9	96233460	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	236343	96233460	44979971	892	17614											
FAM120A	23196	broad.mit.edu	37	chr9	96320179	96320179	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagcttctccaggcagaGccacacgctccctttcccgc	6	8	8	19	2	2	1	1	0	1	1	5	1	4	1	4	1	2	4	4	1	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:96320179G>T	uc004atw.2	+	14	2580	c.2555G>T	c.(2554-2556)AGC>ATC	p.S852I	FAM120A_uc004aty.2_Missense_Mutation_p.S633I|FAM120A_uc004atz.2_Missense_Mutation_p.S501I|FAM120A_uc010mrg.2_Missense_Mutation_p.S165I	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	852	RNA binding.					cytoplasm|plasma membrane	RNA binding				0						TCCAGGCAGAGCCACACGCTC	0.642													8	23					0.00448238	0.00453615	0.004482	1	0		T	96320179	T	T	96320179	3	4	20	1	0	0	0	0	1	0	0	0	5426	971	34	5	2609	5	FAM120A	9	96320179	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	86719	96320179	44893252	893	17615											
C9orf102	375748	broad.mit.edu	37	chr9	98728851	98728851	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctgttttagcaacttcActgtgtggtggttggaagtg	6	18	12	5	0	2	0	1	0	1	0	2	1	2	1	0	3	2	3	0	3	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:98728851A>G	uc004avt.3	+	14	2376	c.1988A>G	c.(1987-1989)CAC>CGC	p.H663R	C9orf102_uc011lum.1_Missense_Mutation_p.H365R|C9orf102_uc010mry.1_Missense_Mutation_p.H365R|C9orf102_uc010mrz.2_Missense_Mutation_p.H474R|C9orf102_uc004avu.2_5'UTR	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	663	Helicase C-terminal.				DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				TAGCAACTTCACTGTGTGGTG	0.388													37	115					0	0	0.007835	0	0		G	98728851	G	G	98728851	3	3	20	1	0	0	0	0	1	0	0	0	2448	159	6	3	2042	3	C9orf102	9	98728851	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2408672	98728851	42484580	894	17616											
ZNF510	22869	broad.mit.edu	37	chr9	99537116	99537116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaaagagtgtggagaacCgtaaaggataacctgggggt	13	7	15	6	1	0	3	0	1	0	2	0	5	0	4	3	4	2	1	3	4	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:99537116C>T	uc004awn.1	-	3	272	c.83G>A	c.(82-84)CGG>CAG	p.R28Q	ZNF510_uc004awo.1_Missense_Mutation_p.R28Q	NM_014930	NP_055745	Q9Y2H8	ZN510_HUMAN	zinc finger protein 510	28					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				TGTGGAGAACCGTAAAGGATA	0.453													23	88					0	0	0.005443	0	0		T	99537116	T	T	99537116	3	4	20	1	0	0	0	0	1	0	0	0	17979	652	23	1	1984	1	ZNF510	9	99537116	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	808265	99537116	41676315	895	17617											
INVS	27130	broad.mit.edu	37	chr9	103009041	103009041	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaaatcggacatagatatTaacatggctgacaaatatgg	17	11	8	5	1	0	2	0	1	0	1	1	3	0	3	0	3	1	1	0	3	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:103009041T>C	uc004bap.1	+	8	1262	c.1050T>C	c.(1048-1050)ATT>ATC	p.I350I	INVS_uc010mta.1_Silent_p.I254I|INVS_uc011lve.1_Silent_p.I254I|INVS_uc004bao.1_Silent_p.I350I|INVS_uc004baq.1_Silent_p.I254I|INVS_uc004bar.1_Silent_p.I254I|INVS_uc010mtb.1_Silent_p.I24I	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	350	ANK 10.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				ACATAGATATTAACATGGCTG	0.398													5	212					0	0	0.000602	0	0		C	103009041	C	C	103009041	2	2	20	1	0	0	0	0	0	0	0	1	7803	1742	61	3		3	INVS	9	103009041	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3471925	103009041	38204390	896	17618											
ZNF462	58499	broad.mit.edu	37	chr9	109746489	109746489	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcgtgttgtccccattgaAgtttgccggtccaaactgtc	7	12	11	11	2	0	1	0	1	0	0	3	2	2	1	4	1	3	2	4	1	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:109746489A>C	uc004bcz.2	+	10	7144	c.6855A>C	c.(6853-6855)GAA>GAC	p.E2285D	ZNF462_uc010mto.2_Missense_Mutation_p.E2194D|ZNF462_uc004bda.2_Missense_Mutation_p.E2193D|ZNF462_uc011lvz.1_Missense_Mutation_p.E242D|uc004bdc.1_Intron	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	2285					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						TCCCCATTGAAGTTTGCCGGT	0.428													15	123					0	0	0.006122	0	0		C	109746489	C	C	109746489	3	2	20	1	0	0	0	0	1	0	0	0	17951	69	3	5	6889	5	ZNF462	9	109746489	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	6737448	109746489	31466942	897	17619											
RAD23B	5887	broad.mit.edu	37	chr9	110081036	110081036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccctccctttttagtgaCgggtcagtcttacgagaata	9	12	8	12	2	2	2	1	1	1	1	3	3	3	2	3	1	1	0	3	1	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:110081036C>T	uc004bde.2	+	6	924	c.557C>T	c.(556-558)ACG>ATG	p.T186M	RAD23B_uc011lwa.1_Missense_Mutation_p.T186M|RAD23B_uc011lwb.1_Missense_Mutation_p.T165M	NM_002874	NP_002865	P54727	RD23B_HUMAN	UV excision repair protein RAD23 homolog B	186					nucleotide-excision repair, DNA damage recognition|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|regulation of proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|nucleoplasm|proteasome complex|XPC complex	damaged DNA binding|polyubiquitin binding|single-stranded DNA binding			ovary(1)	1						TTTTTAGTGACGGGTCAGTCT	0.328								Direct_reversal_of_damage|NER					66	209					0	0	0.01441	0	0		T	110081036	T	T	110081036	3	4	20	1	0	0	0	0	1	0	0	0	13008	536	19	1	579	1	RAD23B	9	110081036	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	334547	110081036	31132395	898	17620											
ACTL7B	10880	broad.mit.edu	37	chr9	111617896	111617896	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcttgagaggcgcctcCgtgttgagcagctcatggcc	7	8	13	13	2	1	2	1	2	0	1	2	3	2	2	4	2	3	4	4	2	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:111617896C>T	uc004bdi.2	-	1	380	c.315G>A	c.(313-315)ACG>ACA	p.T105T		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	105						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						GAGGCGCCTCCGTGTTGAGCA	0.632													33	70					0	0	0.003755	0	0		T	111617896	T	T	111617896	2	4	20	1	0	0	0	0	0	0	0	1	201	639	23	1		1	ACTL7B	9	111617896	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1536860	111617896	29595535	899	17621											
ACTL7A	10881	broad.mit.edu	37	chr9	111625773	111625773	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacaccccgcaggtaaacGtgctgcctgaaagagacagt	13	6	11	11	2	0	3	0	2	0	1	0	4	0	3	3	1	3	3	3	1	3	1	rs142768089	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:111625773G>T	uc004bdj.1	+	1	1171	c.1171G>T	c.(1171-1173)GTG>TTG	p.V391L		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	391						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						GCAGGTAAACGTGCTGCCTGA	0.587													15	48					5.01169e-05	5.13589e-05	0.00499	1	0		T	111625773	T	T	111625773	3	4	20	1	0	0	0	0	1	0	0	0	200	1145	40	5	1173	5	ACTL7A	9	111625773	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	7877	111625773	29587658	900	17622											
HSDL2	84263	broad.mit.edu	37	chr9	115166397	115166397	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaagaccgcccagccacAtccaaaacttctaggcacaa	15	5	6	15	1	1	1	0	0	1	1	2	1	2	1	4	1	3	2	4	1	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:115166397A>G	uc004bga.1	+	2	233	c.140A>G	c.(139-141)CAT>CGT	p.H47R	HSDL2_uc011lwv.1_Intron|HSDL2_uc004bgb.1_5'UTR|HSDL2_uc004bgc.1_Missense_Mutation_p.H47R|HSDL2_uc011lww.1_5'UTR	NM_032303	NP_115679	Q6YN16	HSDL2_HUMAN	hydroxysteroid dehydrogenase like 2	47						peroxisome	oxidoreductase activity|sterol binding				0						GCCCAGCCACATCCAAAACTT	0.418													7	106					0	0	0.004482	0	0		G	115166397	G	G	115166397	3	3	20	1	0	0	0	0	1	0	0	0	7410	217	8	3	146	3	HSDL2	9	115166397	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3540624	115166397	26047034	901	17623											
ZNF883	169834	broad.mit.edu	37	chr9	115759687	115759687	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcacacaagaatgaatttTtagatgttcagtaaggtgtg	13	15	9	4	0	2	3	2	1	0	2	2	3	2	3	0	1	0	2	0	1	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:115759687T>G	uc011lwy.1	-	5	2092	c.853A>C	c.(853-855)AAA>CAA	p.K285Q		NM_001101338	NP_001094808	P0CG24	ZN883_HUMAN	hypothetical protein LOC169834	285	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAATGAATTTTTAGATGTTCA	0.378													69	243					0	0	0.01441	0	0		G	115759687	G	G	115759687	3	3	20	1	0	0	0	0	1	0	0	0	18223	1850	64	5	288	5	ZNF883	9	115759687	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	593290	115759687	25453744	902	17624											
COL27A1	85301	broad.mit.edu	37	chr9	117062942	117062942	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggcttcaaaggcatccaggGccctcgggggccacctggct	6	7	14	14	1	1	0	1	0	0	0	3	0	2	0	4	6	0	3	4	6	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:117062942G>C	uc011lxl.1	+	51	4676	c.4676G>C	c.(4675-4677)GGC>GCC	p.G1559A	COL27A1_uc004bii.2_RNA	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1559	Collagen-like 15.|Pro-rich.|Triple-helical region.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GGCATCCAGGGCCCTCGGGGG	0.627													10	26					0	0	0.010729	0	0		C	117062942	C	C	117062942	3	2	20	1	0	0	0	0	1	0	0	0	3688	1203	42	5	4878	5	COL27A1	9	117062942	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1303255	117062942	24150489	903	17625											
PAPPA	5069	broad.mit.edu	37	chr9	118950337	118950337	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccacgacggcggggattgCcgccacctgcgccaccctgc	5	4	14	18	5	0	0	0	0	0	0	0	2	0	1	6	4	3	0	6	4	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:118950337C>G	uc004bjn.2	+	2	1701	c.1320C>G	c.(1318-1320)TGC>TGG	p.C440W	PAPPA_uc011lxp.1_Missense_Mutation_p.C233W|PAPPA_uc011lxq.1_Missense_Mutation_p.C233W	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	440	Metalloprotease.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GCGGGGATTGCCGCCACCTGC	0.592													7	23					0	0	0.008291	0	0		G	118950337	G	G	118950337	3	3	20	1	0	0	0	0	1	0	0	0	11451	747	26	5	1326	5	PAPPA	9	118950337	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1887395	118950337	22263094	904	17626											
ASTN2	23245	broad.mit.edu	37	chr9	119413813	119413813	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggggagctcacctccttTgtgccattgtcttggatgag	6	12	12	11	0	2	1	1	1	1	0	3	3	3	3	4	3	2	1	4	3	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:119413813T>C	uc004bjs.1	-	17	3167	c.3066A>G	c.(3064-3066)ACA>ACG	p.T1022T	ASTN2_uc004bjr.1_Silent_p.T1018T|ASTN2_uc004bjt.1_Silent_p.T971T|ASTN2_uc004bjp.1_Silent_p.T115T|ASTN2_uc004bjq.1_Silent_p.T74T|ASTN2_uc011lxr.1_Silent_p.T74T|ASTN2_uc011lxs.1_Silent_p.T74T|ASTN2_uc011lxt.1_Silent_p.T74T|ASTN2_uc004bjv.1_Silent_p.T74T	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	1022	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TCACCTCCTTTGTGCCATTGT	0.557													4	33					0	0	0.009096	0	0		C	119413813	C	C	119413813	2	2	20	1	0	0	0	0	0	0	0	1	1066	1799	63	3		3	ASTN2	9	119413813	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	463476	119413813	21799618	905	17627											
TRIM32	22954	broad.mit.edu	37	chr9	119461051	119461051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcctcacctgctaaacagCggggtcctgaggcagcctcc	7	6	13	15	1	1	1	1	1	0	0	3	1	3	1	5	4	4	2	5	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:119461051C>T	uc004bjx.2	+	2	1188	c.1030C>T	c.(1030-1032)CGG>TGG	p.R344W	ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjs.1_Intron|ASTN2_uc004bjt.1_Intron|TRIM32_uc004bjw.2_Missense_Mutation_p.R344W	NM_001099679	NP_001093149	Q13049	TRI32_HUMAN	tripartite motif-containing 32	344					fat cell differentiation|innate immune response|negative regulation of apoptosis|negative regulation of fibroblast proliferation|positive regulation of cell cycle|positive regulation of cell growth|positive regulation of cell migration|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein catabolic process|positive regulation of proteolysis|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to tumor necrosis factor|response to UV	nucleus	myosin binding|protein self-association|RNA binding|Tat protein binding|transcription coactivator activity|translation initiation factor binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(2)|kidney(1)	3						TGCTAAACAGCGGGGTCCTGA	0.557									Bardet-Biedl_syndrome				21	58					0	0	0.010504	0	0		T	119461051	T	T	119461051	3	4	20	1	0	0	0	0	1	0	0	0	16532	759	27	1	1032	1	TRIM32	9	119461051	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	47238	119461051	21752380	906	17628											
DBC1	1620	broad.mit.edu	37	chr9	121929568	121929568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgaatatccaacaagaggaGcatcactgacgaagaggaat	17	5	10	9	2	1	3	1	1	0	2	2	7	2	5	2	2	2	1	2	2	6	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:121929568G>A	uc004bkc.2	-	8	2536	c.2080C>T	c.(2080-2082)CTC>TTC	p.L694F		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	694					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						AACAAGAGGAGCATCACTGAC	0.577													8	168					0	0	0.004482	0	0		A	121929568	A	A	121929568	3	1	20	1	0	0	0	0	1	0	0	0	4250	971	34	2	209	2	DBC1	9	121929568	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2468517	121929568	19283863	907	17629											
DBC1	1620	broad.mit.edu	37	chr9	121929812	121929812	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtagatgtggaccgtctcGaaaaatgttttccaccgatt	11	12	10	8	3	1	1	0	0	1	1	3	4	2	2	3	2	0	2	3	2	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:121929812G>A	uc004bkc.2	-	8	2292	c.1836C>T	c.(1834-1836)TTC>TTT	p.F612F		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	612					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GGACCGTCTCGAAAAATGTTT	0.552													5	171					0	0	0.001168	0	0		A	121929812	A	A	121929812	2	1	20	1	0	0	0	0	0	0	0	1	4250	1049	37	1		1	DBC1	9	121929812	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	244	121929812	19283619	908	17630											
DBC1	1620	broad.mit.edu	37	chr9	121971057	121971057	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacactgaggccgaaaagcTtgcgggcagtgcgttggatc	9	8	15	9	3	0	1	0	1	0	0	1	3	0	2	1	3	4	4	1	3	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:121971057T>C	uc004bkc.2	-	7	1541	c.1085A>G	c.(1084-1086)AAG>AGG	p.K362R		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	362					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GCCGAAAAGCTTGCGGGCAGT	0.587													5	87					0	0	0.000602	0	0		C	121971057	C	C	121971057	3	2	20	1	0	0	0	0	1	0	0	0	4250	1609	56	3	1208	3	DBC1	9	121971057	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	41245	121971057	19242374	909	17631											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123210224	123210224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccctccatcactgcttcagCcagaattaacttttggtgaa	10	12	6	13	0	2	2	2	1	0	1	3	2	3	2	4	1	3	1	4	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:123210224C>T	uc004bkf.2	-	22	3155	c.2974G>A	c.(2974-2976)GCT>ACT	p.A992T	CDK5RAP2_uc010mvi.2_Missense_Mutation_p.A42T|CDK5RAP2_uc004bke.2_Missense_Mutation_p.A277T|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.A992T|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.A257T|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.A257T|CDK5RAP2_uc011lya.1_Missense_Mutation_p.A257T|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.A762T|CDK5RAP2_uc004bki.2_Missense_Mutation_p.A759T	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	992	Interaction with MAPRE1.				brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						ACTGCTTCAGCCAGAATTAAC	0.498													64	229					0	0	0.01441	0	0		T	123210224	T	T	123210224	3	4	20	1	0	0	0	0	1	0	0	0	3149	739	26	2	2775	2	CDK5RAP2	9	123210224	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1239167	123210224	18003207	910	17632											
C5	727	broad.mit.edu	37	chr9	123794459	123794459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttatatttagccttgatcGtccacataccatatctgtgg	9	16	6	10	1	1	1	0	1	1	0	3	1	2	1	3	1	2	0	3	1	5	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:123794459G>A	uc004bkv.2	-	6	629	c.599C>T	c.(598-600)ACG>ATG	p.T200M	C5_uc010mvm.1_Missense_Mutation_p.T200M|C5_uc010mvn.1_Missense_Mutation_p.T200M	NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	200					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	AGCCTTGATCGTCCACATACC	0.279													15	56					0	0	0.00499	0	0		A	123794459	A	A	123794459	3	1	20	1	0	0	0	0	1	0	0	0	2283	1145	40	1	4575	1	C5	9	123794459	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	584235	123794459	17418972	911	17633											
STOM	2040	broad.mit.edu	37	chr9	124111494	124111494	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtagtttgtgccaaaagacgGgttgctgagtcagcgttggt	8	12	15	6	2	1	2	1	1	0	1	1	2	1	2	1	2	3	5	1	2	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:124111494G>T	uc004blh.2	-	5	509	c.429C>A	c.(427-429)ACC>ACA	p.T143T	STOM_uc011lyk.1_Silent_p.T92T|STOM_uc004bli.2_Intron	NM_004099	NP_004090	P27105	STOM_HUMAN	stomatin isoform a	143	Cytoplasmic (Potential).				protein homooligomerization	cytoskeleton|integral to plasma membrane|melanosome|membrane raft	protein binding				0				OV - Ovarian serous cystadenocarcinoma(323;0.00107)|GBM - Glioblastoma multiforme(294;0.0137)		CCAAAAGACGGGTTGCTGAGT	0.478													19	105					1.01871e-10	1.07102e-10	0.008871	1	0		T	124111494	T	T	124111494	2	4	20	1	0	0	0	0	0	0	0	1	15337	1219	43	5		5	STOM	9	124111494	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	317035	124111494	17101937	912	17634											
STOM	2040	broad.mit.edu	37	chr9	124116898	124116898	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggtcctttggctcctccTtgtaaaatgcgacccaatct	8	12	7	14	1	1	0	0	0	1	0	4	1	4	0	5	2	1	2	5	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:124116898T>C	uc004blh.2	-	3	299	c.219A>G	c.(217-219)CAA>CAG	p.Q73Q	STOM_uc011lyk.1_Silent_p.Q22Q|STOM_uc004bli.2_Intron	NM_004099	NP_004090	P27105	STOM_HUMAN	stomatin isoform a	73	Cytoplasmic (Potential).				protein homooligomerization	cytoskeleton|integral to plasma membrane|melanosome|membrane raft	protein binding				0				OV - Ovarian serous cystadenocarcinoma(323;0.00107)|GBM - Glioblastoma multiforme(294;0.0137)		TGGCTCCTCCTTGTAAAATGC	0.284													5	91					0	0	0.00308	0	0		C	124116898	C	C	124116898	2	2	20	1	0	0	0	0	0	0	0	1	15337	1606	56	3		3	STOM	9	124116898	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	5404	124116898	17096533	913	17635											
PTGS1	5742	broad.mit.edu	37	chr9	125154583	125154583	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactctatctttggggagagTatgatagagattggggctcc	10	12	13	6	0	2	3	0	1	2	2	3	5	3	3	1	4	1	2	1	4	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:125154583T>C	uc004bmg.1	+	11	1695	c.1560T>C	c.(1558-1560)AGT>AGC	p.S520S	PTGS1_uc011lys.1_Silent_p.S458S|PTGS1_uc010mwb.1_Silent_p.S374S|PTGS1_uc004bmf.1_Silent_p.S483S|PTGS1_uc004bmh.1_Silent_p.S411S|PTGS1_uc011lyt.1_Silent_p.S411S	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	520					cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	TTGGGGAGAGTATGATAGAGA	0.512													5	201					0	0	0.000602	0	0		C	125154583	C	C	125154583	2	2	20	1	0	0	0	0	0	0	0	1	12778	1635	57	3		3	PTGS1	9	125154583	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1037685	125154583	16058848	914	17636											
STRBP	55342	broad.mit.edu	37	chr9	125909141	125909141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaatactgtaccttcaccGctacgtgaagttttgctgtt	10	14	7	10	2	1	1	1	1	0	0	1	1	1	1	2	0	4	5	2	0	5	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:125909141G>A	uc004bns.2	-	13	1761	c.1331C>T	c.(1330-1332)GCG>GTG	p.A444V	STRBP_uc004bnt.2_Missense_Mutation_p.A262V|STRBP_uc004bnu.2_Missense_Mutation_p.A430V|STRBP_uc004bnv.2_Missense_Mutation_p.A444V|STRBP_uc004bnr.2_Missense_Mutation_p.A56V	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	444	DRBM 1.				multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2						TACCTTCACCGCTACGTGAAG	0.353													25	110					0	0	0.00333	0	0		A	125909141	A	A	125909141	3	1	20	1	0	0	0	0	1	0	0	0	15352	1087	38	1	715	1	STRBP	9	125909141	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	754558	125909141	15304290	915	17637											
HSPA5	3309	broad.mit.edu	37	chr9	127999234	127999234	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctttcgatttcttcaggTgtcaggcgattctggtcatt	6	17	9	9	2	5	0	3	0	2	0	7	2	6	0	1	3	0	0	1	3	0	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:127999234T>C	uc004bpn.2	-	8	1858	c.1602A>G	c.(1600-1602)ACA>ACG	p.T534T		NM_005347	NP_005338	P11021	GRP78_HUMAN	heat shock 70kDa protein 5	534					anti-apoptosis|cellular response to glucose starvation|ER-associated protein catabolic process|platelet activation|platelet degranulation|regulation of protein folding in endoplasmic reticulum	cell surface|endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|integral to endoplasmic reticulum membrane|melanosome|midbody|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|calcium ion binding|caspase inhibitor activity|chaperone binding|misfolded protein binding|protein binding, bridging|protein domain specific binding|ubiquitin protein ligase binding|unfolded protein binding			ovary(3)|skin(1)	4					Antihemophilic Factor(DB00025)	TTTCTTCAGGTGTCAGGCGAT	0.413										Prostate(1;0.17)			19	467					0	0	0.006122	0	0		C	127999234	C	C	127999234	2	2	20	1	0	0	0	0	0	0	0	1	7430	1683	59	3		3	HSPA5	9	127999234	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2090093	127999234	13214197	916	17638											
ZNF79	7633	broad.mit.edu	37	chr9	130197442	130197442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcctcgtgtctactccacGggacaggttcaaggagggga	8	8	15	10	2	2	0	1	0	1	0	4	3	3	3	2	5	2	1	2	5	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:130197442G>A	uc004bqw.3	+	3	593	c.179G>A	c.(178-180)CGG>CAG	p.R60Q	ZNF79_uc011maf.1_Missense_Mutation_p.R36Q|ZNF79_uc011mag.1_Missense_Mutation_p.R36Q	NM_007135	NP_009066	Q15937	ZNF79_HUMAN	zinc finger protein 79	60	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						TCTACTCCACGGGACAGGTTC	0.453													44	97					0	0	0.01441	0	0		A	130197442	A	A	130197442	3	1	20	1	0	0	0	0	1	0	0	0	18186	1116	39	1	189	1	ZNF79	9	130197442	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2198208	130197442	11015989	917	17639											
FAM129B	64855	broad.mit.edu	37	chr9	130280190	130280190	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatggcatctgtgaacgcaGggccctctaccttggagtcc	7	9	13	12	1	2	1	0	1	2	0	3	3	3	3	3	4	2	2	3	4	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:130280190G>T	uc004brh.2	-	6	822	c.620C>A	c.(619-621)CCT>CAT	p.P207H	FAM129B_uc004bri.2_Missense_Mutation_p.P194H|FAM129B_uc004brj.3_Missense_Mutation_p.P207H	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	207							protein binding				0						TGTGAACGCAGGGCCCTCTAC	0.612													4	21					0.00024832	0.000252876	0.009096	1	0		T	130280190	T	T	130280190	3	4	20	1	0	0	0	0	1	0	0	0	5448	1000	35	5	1656	5	FAM129B	9	130280190	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	82748	130280190	10933241	918	17640											
DNM1	1759	broad.mit.edu	37	chr9	130986540	130986540	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcgttcagaacggggctgTttaccccagacatggccttt	7	10	13	11	2	1	2	1	0	0	2	1	2	1	2	3	4	2	3	3	4	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:130986540T>C	uc011mau.1	+	10	1294	c.1207T>C	c.(1207-1209)TTT>CTT	p.F403L	DNM1_uc010mxr.2_Intron|DNM1_uc011mat.1_Missense_Mutation_p.F403L	NM_004408	NP_004399	Q05193	DYN1_HUMAN	dynamin 1 isoform 1	403					receptor-mediated endocytosis	microtubule	GTP binding|GTPase activity			ovary(2)	2						AACGGGGCTGTTTACCCCAGA	0.348													3	52					0	0	0.004672	0	0		C	130986540	C	C	130986540	3	2	20	1	0	0	0	0	1	0	0	0	4676	1725	60	3	1245	3	DNM1	9	130986540	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	706350	130986540	10226891	919	17641											
TRUB2	26995	broad.mit.edu	37	chr9	131076121	131076121	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaccagcctcccgtcctcAcggaagtcatctgtagcttt	7	12	7	15	2	4	0	2	0	2	0	6	1	6	1	4	1	3	2	4	1	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:131076121A>G	uc004buq.1	-	5	436	c.426T>C	c.(424-426)CGT>CGC	p.R142R		NM_015679	NP_056494	O95900	TRUB2_HUMAN	TruB pseudouridine (psi) synthase homolog 2	142					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(1)	1						TCCCGTCCTCACGGAAGTCAT	0.572													4	186					0	0	0.000602	0	0		G	131076121	G	G	131076121	2	3	20	1	0	0	0	0	0	0	0	1	16629	146	6	3		3	TRUB2	9	131076121	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	89581	131076121	10137310	920	17642											
SLC27A4	10999	broad.mit.edu	37	chr9	131110839	131110839	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagccatctgtgaggtccAtgccagcctggacccctcgc	7	7	10	17	1	1	1	0	1	1	0	3	2	2	2	6	2	3	0	6	2	0	0	rs148956936		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:131110839A>G	uc004but.2	+	4	856	c.572A>G	c.(571-573)CAT>CGT	p.H191R	SLC27A4_uc004buu.2_Intron	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	191					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						TGTGAGGTCCATGCCAGCCTG	0.632													4	137					0	0	0.001168	0	0		G	131110839	G	G	131110839	3	3	20	1	0	0	0	0	1	0	0	0	14553	217	8	3	582	3	SLC27A4	9	131110839	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	34718	131110839	10102592	921	17643											
PKN3	29941	broad.mit.edu	37	chr9	131468079	131468079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggcacctagaggctctccGgaggcagctgcatgtggagc	7	7	15	12	2	1	1	0	0	1	1	3	3	1	3	2	5	3	5	2	5	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:131468079G>A	uc004bvw.2	+	3	725	c.332G>A	c.(331-333)CGG>CAG	p.R111Q	PKN3_uc010myh.2_Missense_Mutation_p.R111Q|PKN3_uc011mbk.1_5'UTR	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	111	REM 2.				signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4						GAGGCTCTCCGGAGGCAGCTG	0.657													6	17					0	0	0.001984	0	0		A	131468079	A	A	131468079	3	1	20	1	0	0	0	0	1	0	0	0	12000	1116	39	1	342	1	PKN3	9	131468079	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	357240	131468079	9745352	922	17644											
ABL1	25	broad.mit.edu	37	chr9	133759579	133759579	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggagcgcagaggggccggCgaggaagagggccgagacat	10	1	20	10	5	0	3	0	0	0	3	0	7	0	5	3	6	1	1	3	6	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:133759579C>T	uc004bzw.2	+	11	1905	c.1902C>T	c.(1900-1902)GGC>GGT	p.G634G	ABL1_uc004bzv.2_Silent_p.G653G	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	634					actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	GAGGGGCCGGCGAGGAAGAGG	0.647			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								22	90					0	0	0.012213	0	0		T	133759579	T	T	133759579	2	4	20	1	0	0	0	0	0	0	0	1	92	755	27	1		1	ABL1	9	133759579	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2291500	133759579	7453852	923	17645											
LAMC3	10319	broad.mit.edu	37	chr9	133944392	133944392	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaggccaggcctgtgacAggtgccagctgggtttcttc	6	10	13	12	0	2	1	1	1	1	0	3	1	2	1	3	4	2	2	3	4	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:133944392A>G	uc004caa.1	+	16	2943	c.2845A>G	c.(2845-2847)AGG>GGG	p.R949G		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	949	Laminin EGF-like 10.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		GGCCTGTGACAGGTGCCAGCT	0.662													7	250					0	0	0.001984	0	0		G	133944392	G	G	133944392	3	3	20	1	0	0	0	0	1	0	0	0	8632	179	7	3	2907	3	LAMC3	9	133944392	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	184813	133944392	7269039	924	17646											
BAT2L1	84726	broad.mit.edu	37	chr9	134357813	134357813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacttgagtgccgagtctcGggagtcgtctgcgacctcct	5	11	13	12	4	2	2	0	2	2	0	5	5	3	3	3	1	2	0	3	1	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:134357813G>A	uc004can.3	+	20	5094	c.5039G>A	c.(5038-5040)CGG>CAG	p.R1680Q	BAT2L1_uc004cao.3_Missense_Mutation_p.R1037Q|BAT2L1_uc004cap.3_5'Flank	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1680							protein binding				0						GCCGAGTCTCGGGAGTCGTCT	0.602													68	297					0	0	0.01441	0	0		A	134357813	A	A	134357813	3	1	20	1	0	0	0	0	1	0	0	0	1321	1116	39	1	5117	1	BAT2L1	9	134357813	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	413421	134357813	6855618	925	17647											
RALGDS	5900	broad.mit.edu	37	chr9	135982497	135982497	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctcgatccagtgctccAccaccctggccctgtctggg	5	8	9	19	1	1	0	0	0	1	0	4	1	3	0	7	2	1	1	7	2	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:135982497A>G	uc004cco.2	-	7	1408	c.1388T>C	c.(1387-1389)GTG>GCG	p.V463A	RALGDS_uc004ccp.2_RNA|RALGDS_uc004ccq.2_Missense_Mutation_p.V451A|RALGDS_uc004ccr.2_Missense_Mutation_p.V462A|RALGDS_uc011mcv.1_Missense_Mutation_p.V434A|RALGDS_uc004ccs.2_Missense_Mutation_p.V408A|RALGDS_uc011mcw.1_Missense_Mutation_p.V534A|RALGDS_uc004ccv.1_Missense_Mutation_p.V232A|RALGDS_uc004ccu.1_Missense_Mutation_p.V232A	NM_006266	NP_006257	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	463	Ras-GEF.				nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		CCAGTGCTCCACCACCCTGGC	0.622			T	CIITA	PMBL|Hodgkin Lymphona|								4	128					0	0	0.000602	0	0		G	135982497	G	G	135982497	3	3	20	1	0	0	0	0	1	0	0	0	13041	159	6	3	1404	3	RALGDS	9	135982497	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1624684	135982497	5230934	926	17648											
C9orf96	169436	broad.mit.edu	37	chr9	136251429	136251429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgctgaagctgcggcacgCccacatctctgtgtaccagg	8	8	11	14	2	1	1	0	1	1	0	2	1	1	1	2	2	4	4	2	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:136251429C>T	uc004cdk.2	+	4	309	c.248C>T	c.(247-249)GCC>GTC	p.A83V	C9orf96_uc004cdl.2_RNA	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	83	Protein kinase.						ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		CTGCGGCACGCCCACATCTCT	0.607													17	91					0	0	0.008871	0	0		T	136251429	T	T	136251429	3	4	20	1	0	0	0	0	1	0	0	0	2511	739	26	2	262	2	C9orf96	9	136251429	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	268932	136251429	4962002	927	17649											
C9orf7	11094	broad.mit.edu	37	chr9	136328610	136328610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcttgtttcaagcttgcGcgatctctggcctcttcaac	5	15	8	13	2	5	0	2	0	3	0	7	1	5	0	1	1	3	2	1	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:136328610G>A	uc011mdg.1	+	2	229	c.127G>A	c.(127-129)GCG>ACG	p.A43T	C9orf7_uc004cec.2_Missense_Mutation_p.A43T|C9orf7_uc011mdh.1_Missense_Mutation_p.A43T|C9orf7_uc011mdi.1_Missense_Mutation_p.A43T|C9orf7_uc010nan.2_RNA	NM_017586	NP_060056	Q9UGQ2	FLOWR_HUMAN	hypothetical protein LOC11094 isoform a	43	Helical; (Potential).					integral to membrane					0				GBM - Glioblastoma multiforme(294;5.7e-39)|all cancers(34;1.83e-23)|OV - Ovarian serous cystadenocarcinoma(145;8.94e-08)|Epithelial(140;1.01e-06)		TCAAGCTTGCGCGATCTCTGG	0.612													40	164					0	0	0.011902	0	0		A	136328610	A	A	136328610	3	1	20	1	0	0	0	0	1	0	0	0	2496	1087	38	1	133	1	C9orf7	9	136328610	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	77181	136328610	4884821	928	17650											
C9orf7	11094	broad.mit.edu	37	chr9	136328658	136328658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccaccctctgaacattGcggccggcgtgtggatgatg	7	9	12	13	3	1	2	0	2	1	0	2	3	2	3	4	3	2	0	4	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:136328658G>A	uc011mdg.1	+	2	277	c.175G>A	c.(175-177)GCG>ACG	p.A59T	C9orf7_uc004cec.2_Missense_Mutation_p.A59T|C9orf7_uc011mdh.1_Missense_Mutation_p.A59T|C9orf7_uc011mdi.1_Missense_Mutation_p.A59T|C9orf7_uc010nan.2_RNA	NM_017586	NP_060056	Q9UGQ2	FLOWR_HUMAN	hypothetical protein LOC11094 isoform a	59	Helical; (Potential).					integral to membrane					0				GBM - Glioblastoma multiforme(294;5.7e-39)|all cancers(34;1.83e-23)|OV - Ovarian serous cystadenocarcinoma(145;8.94e-08)|Epithelial(140;1.01e-06)		TCTGAACATTGCGGCCGGCGT	0.622													24	143					0	0	0.003755	0	0		A	136328658	A	A	136328658	3	1	20	1	0	0	0	0	1	0	0	0	2496	1319	46	2	181	2	C9orf7	9	136328658	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	48	136328658	4884773	929	17651											
COL5A1	1289	broad.mit.edu	37	chr9	137622201	137622201	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgaggactactacacGccctcaccgtatgatgacct	10	8	8	15	2	1	3	1	3	0	0	1	4	1	4	4	1	2	1	4	1	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:137622201G>A	uc004cfe.2	+	7	1426	c.1044G>A	c.(1042-1044)ACG>ACA	p.T348T		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	348	Nonhelical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		ACTACTACACGCCCTCACCGT	0.632													6	187					0	0	0.001984	0	0		A	137622201	A	A	137622201	2	1	20	1	0	0	0	0	0	0	0	1	3699	1074	38	1		1	COL5A1	9	137622201	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1293543	137622201	3591230	930	17652											
FCN2	2220	broad.mit.edu	37	chr9	137777737	137777737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacatccacgccctgaccGcccagggtagggccgctgct	8	5	11	17	3	0	1	0	1	0	0	1	1	1	1	5	2	2	3	5	2	2	1	rs55860122		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:137777737G>A	uc004cfg.1	+	6	563	c.553G>A	c.(553-555)GCC>ACC	p.A185T	FCN2_uc004cfh.1_Missense_Mutation_p.A147T	NM_004108	NP_004099	Q15485	FCN2_HUMAN	ficolin 2 isoform a precursor	185	Fibrinogen C-terminal.				complement activation, lectin pathway|opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|calcium-dependent protein binding|receptor binding|sugar binding			large_intestine(1)	1		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.58e-08)|Epithelial(140;6.41e-08)|all cancers(34;3.96e-07)		CGCCCTGACCGCCCAGGGTAG	0.672													11	58					0	0	0.013537	0	0		A	137777737	A	A	137777737	3	1	20	1	0	0	0	0	1	0	0	0	5806	1087	38	1	575	1	FCN2	9	137777737	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	155536	137777737	3435694	931	17653											
CAMSAP1	157922	broad.mit.edu	37	chr9	138712780	138712780	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccccatcctcgtcgggggCcttcaggtcggagaggtcca	5	8	13	15	3	1	1	1	0	0	1	7	2	4	1	5	5	0	0	5	5	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:138712780C>G	uc004cgr.3	-	11	3727	c.3727G>C	c.(3727-3729)GCC>CCC	p.A1243P	CAMSAP1_uc004cgq.3_Missense_Mutation_p.A1133P|CAMSAP1_uc010nbg.2_Missense_Mutation_p.A965P	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1243						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		TCGTCGGGGGCCTTCAGGTCG	0.627													13	47					0	0	0.00245	0	0		G	138712780	G	G	138712780	3	3	20	1	0	0	0	0	1	0	0	0	2614	739	26	5	1109	5	CAMSAP1	9	138712780	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	935043	138712780	2500651	932	17654											
UBAC1	10422	broad.mit.edu	37	chr9	138847166	138847166	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcctggatgttctcttccagGatggtcctggcatcactcag	6	13	10	12	0	3	0	2	0	1	0	7	2	6	2	3	4	0	2	3	4	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:138847166G>A	uc004cgt.2	-	2	452	c.234C>T	c.(232-234)ATC>ATT	p.I78I	UBAC1_uc004cgs.1_Silent_p.I78I|UBAC1_uc004cgu.2_RNA	NM_016172	NP_057256	Q9BSL1	UBAC1_HUMAN	ubiquitin associated domain containing 1	78	Ubiquitin-like.					Golgi apparatus|plasma membrane	protein binding			skin(2)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.1e-06)|Epithelial(140;7.79e-06)		TCTCTTCCAGGATGGTCCTGG	0.582													59	529					0	0	0.01441	0	0		A	138847166	A	A	138847166	2	1	20	1	0	0	0	0	0	0	0	1	16860	1164	41	4		4	UBAC1	9	138847166	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	134386	138847166	2366265	933	17655											
NOTCH1	4851	broad.mit.edu	37	chr9	139396735	139396735	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccgctcacttgaggcccacGgagtcctcgccgaggggctc	5	7	13	16	4	1	1	1	1	0	0	5	3	3	2	4	4	0	2	4	4	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:139396735G>A	uc004chz.2	-	28	5373	c.5373C>T	c.(5371-5373)TCC>TCT	p.S1791S		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1791	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		TGAGGCCCACGGAGTCCTCGC	0.701			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			5	22					0	0	0.000602	0	0		A	139396735	A	A	139396735	2	1	20	1	0	0	0	0	0	0	0	1	10566	1103	39	1		1	NOTCH1	9	139396735	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	549569	139396735	1816696	934	17656											
LCN8	138307	broad.mit.edu	37	chr9	139649870	139649870	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggccaagcttactaaagtActtgaggacgcgaaagttcc	13	8	11	9	2	0	1	0	1	0	0	1	3	1	2	2	2	3	3	2	2	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:139649870A>G	uc004cjb.1	-	4	674	c.325T>C	c.(325-327)TAC>CAC	p.Y109H	LCN8_uc004cja.2_RNA	NM_178469	NP_848564	Q6JVE9	LCN8_HUMAN	lipocalin 8	132					transport	extracellular region	binding			pancreas(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;5.56e-06)|Epithelial(140;8.32e-05)		TTACTAAAGTACTTGAGGACG	0.652													3	43					0	0	0.004672	0	0		G	139649870	G	G	139649870	3	3	20	1	0	0	0	0	1	0	0	0	8702	391	14	3	149	3	LCN8	9	139649870	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	253135	139649870	1563561	935	17657											
ABCA2	20	broad.mit.edu	37	chr9	139911742	139911742	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtagctcaggaagtagatgAtgccaccgcaggccgaggcc	10	5	14	12	3	1	2	1	1	0	1	1	4	1	3	4	3	2	4	4	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:139911742A>G	uc011mem.1	-	17	2604	c.2456T>C	c.(2455-2457)ATC>ACC	p.I819T	ABCA2_uc011mel.1_Missense_Mutation_p.I820T|ABCA2_uc004ckl.1_Missense_Mutation_p.I750T|ABCA2_uc004ckm.1_Missense_Mutation_p.I850T|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	819	Helical; (Potential).				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GAAGTAGATGATGCCACCGCA	0.632													10	44					0	0	0.010729	0	0		G	139911742	G	G	139911742	3	3	20	1	0	0	0	0	1	0	0	0	32	333	12	3	4979	3	ABCA2	9	139911742	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	261872	139911742	1301689	936	17658											
MAN1B1	11253	broad.mit.edu	37	chr9	140002104	140002104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattctgcagagcttcagccGattcacacgggtgagcacct	9	9	11	12	2	3	2	2	1	1	1	3	4	3	2	2	1	4	3	2	1	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:140002104G>A	uc004cld.2	+	12	1921	c.1886G>A	c.(1885-1887)CGA>CAA	p.R629Q	MAN1B1_uc011mep.1_Missense_Mutation_p.R629Q|MAN1B1_uc010ncc.2_RNA|MAN1B1_uc004clf.1_Missense_Mutation_p.R302Q|MAN1B1_uc004clg.1_RNA	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	629	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		AGCTTCAGCCGATTCACACGG	0.667													48	143					0	0	0.01441	0	0		A	140002104	A	A	140002104	3	1	20	1	0	0	0	0	1	0	0	0	9230	1058	37	1	1932	1	MAN1B1	9	140002104	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	90362	140002104	1211327	937	17659											
GRIN1	2902	broad.mit.edu	37	chr9	140058119	140058119	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacttttgagaacatggcCggtgcgttctccttcatcca	7	14	8	12	2	2	1	1	1	1	1	4	2	3	1	3	2	3	1	3	2	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:140058119C>T	uc004clk.2	+	17	2772	c.2442C>T	c.(2440-2442)GCC>GCT	p.A814A	GRIN1_uc004cli.1_Silent_p.A489A|GRIN1_uc004clj.1_Silent_p.A811A|GRIN1_uc004cll.2_Silent_p.A814A|GRIN1_uc004clm.2_Silent_p.A814A|GRIN1_uc004cln.2_Silent_p.A832A|GRIN1_uc004clo.2_Silent_p.A832A	NM_007327	NP_015566	Q05586	NMDZ1_HUMAN	NMDA receptor 1 isoform NR1-3 precursor	814	Helical; (Potential).				ionotropic glutamate receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|regulation of excitatory postsynaptic membrane potential|response to ethanol|visual learning	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane|synaptic vesicle|synaptosome	calcium ion binding|calmodulin binding|extracellular-glutamate-gated ion channel activity|glutamate binding|glycine binding			skin(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;6.87e-05)|Epithelial(140;0.00095)	L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	AGAACATGGCCGGTGCGTTCT	0.597													10	50					0	0	0.013537	0	0		T	140058119	T	T	140058119	2	4	20	1	0	0	0	0	0	0	0	1	6794	666	23	1		1	GRIN1	9	140058119	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	56015	140058119	1155312	938	17660											
NELF	26012	broad.mit.edu	37	chr9	140348239	140348239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggggtcgctccaggacCggctgaagctccgctcgcgc	4	6	17	14	5	0	1	0	1	0	0	4	2	2	2	3	5	1	4	3	5	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:140348239C>T	uc004cna.2	-	8	1098	c.866G>A	c.(865-867)CGG>CAG	p.R289Q	C9orf167_uc011mew.1_Intron|NELF_uc011mex.1_Missense_Mutation_p.R86Q|NELF_uc010nci.2_Intron|NELF_uc011mey.1_Intron|NELF_uc011mez.1_Missense_Mutation_p.R266Q|NELF_uc004cmz.2_Missense_Mutation_p.R287Q|NELF_uc004cnc.2_Missense_Mutation_p.R264Q|NELF_uc004cnb.2_Intron	NM_001130969	NP_001124441	Q6X4W1	NELF_HUMAN	nasal embryonic LHRH factor isoform a	289						nucleus|plasma membrane					0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000222)|Epithelial(140;0.000888)		GCTCCAGGACCGGCTGAAGCT	0.697													4	10					0	0	0.001168	0	0		T	140348239	T	T	140348239	3	4	20	1	0	0	0	0	1	0	0	0	10351	652	23	1	762	1	NELF	9	140348239	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	290120	140348239	865192	939	17661											
EHMT1	79813	broad.mit.edu	37	chr9	140611142	140611142	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagaggcccacatggctgcGgacggtgagaccaatgggtc	9	5	17	10	2	0	2	0	1	0	2	1	5	0	3	2	6	1	1	2	6	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr9:140611142G>A	uc011mfc.1	+	3	187	c.150G>A	c.(148-150)GCG>GCA	p.A50A	EHMT1_uc004coa.2_Silent_p.A50A|EHMT1_uc004cob.1_Silent_p.A19A	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	50					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		ACATGGCTGCGGACGGTGAGA	0.562													20	108					0	0	0.008871	0	0		A	140611142	A	A	140611142	2	1	20	1	0	0	0	0	0	0	0	1	4989	1103	39	1		1	EHMT1	9	140611142	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	262903	140611142	602289	940	17662											
IL2RA	3559	broad.mit.edu	37	chr10	6061429	6061429	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaaatatggacgtctccAtggttgcagccatttctgtc	8	15	9	9	1	2	0	0	0	2	0	4	1	2	1	2	2	2	3	2	2	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:6061429A>G	uc001iiz.1	-	6	848	c.689T>C	c.(688-690)ATG>ACG	p.M230T	IL2RA_uc009xih.1_Missense_Mutation_p.M158T|IL2RA_uc001ija.1_Missense_Mutation_p.M96T	NM_000417	NP_000408	P01589	IL2RA_HUMAN	interleukin 2 receptor, alpha chain precursor	230	Extracellular (Potential).				cell proliferation	integral to membrane	interleukin-2 receptor activity			ovary(1)|skin(1)	2					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	GGACGTCTCCATGGTTGCAGC	0.443													28	102					0	0	0.004289	0	0		G	6061429	G	G	6061429	3	3	20	1	0	0	0	0	1	0	0	0	7702	217	8	3	141	3	IL2RA	10	6061429	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08		6061429	129473318	941	17663											
ITIH5	80760	broad.mit.edu	37	chr10	7618459	7618459	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgctctgcaccaccggttcGggtcccatggcagccgacat	7	7	11	16	4	1	0	0	0	1	0	3	1	2	0	4	3	2	4	4	3	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:7618459G>A	uc001ijq.2	-	10	2014	c.1935C>T	c.(1933-1935)CCC>CCT	p.P645P	ITIH5_uc001ijp.2_Silent_p.P431P|ITIH5_uc001ijr.1_Silent_p.P645P	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	645					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CCACCGGTTCGGGTCCCATGG	0.677													6	16					0	0	0.001984	0	0		A	7618459	A	A	7618459	2	1	20	1	0	0	0	0	0	0	0	1	7923	1103	39	1		1	ITIH5	10	7618459	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1557030	7618459	127916288	942	17664											
ITIH5	80760	broad.mit.edu	37	chr10	7618934	7618934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggggggataatcgatgCggatgtcagagaggagcggg	10	6	20	5	3	1	1	1	0	0	1	2	6	1	4	0	6	3	1	0	6	1	1	rs112992012	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:7618934C>T	uc001ijq.2	-	10	1539	c.1460G>A	c.(1459-1461)CGC>CAC	p.R487H	ITIH5_uc001ijp.2_Missense_Mutation_p.R273H|ITIH5_uc001ijr.1_Missense_Mutation_p.R487H	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	487					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						ATAATCGATGCGGATGTCAGA	0.592													29	65					0	0	0.00632	0	0		T	7618934	T	T	7618934	3	4	20	1	0	0	0	0	1	0	0	0	7923	768	27	1	1511	1	ITIH5	10	7618934	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	475	7618934	127915813	943	17665											
TAF3	83860	broad.mit.edu	37	chr10	8055793	8055793	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgacgactgcgatgactggTaccactggtgagtgcccagg	8	8	15	10	2	0	3	0	3	0	0	0	5	0	3	2	3	3	1	2	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:8055793T>C	uc010qbd.1	+	6	2668	c.2668T>C	c.(2668-2670)TAC>CAC	p.Y890H		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	890	PHD-type.				maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						CGATGACTGGTACCACTGGTG	0.577													3	133					0	0	0.009096	0	0		C	8055793	C	C	8055793	3	2	20	1	0	0	0	0	1	0	0	0	15550	1638	57	3	2690	3	TAF3	10	8055793	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	436859	8055793	127478954	944	17666											
MCM10	55388	broad.mit.edu	37	chr10	13231078	13231078	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcctcgtatgcagcttcAatgtaagacgttctcgggct	7	13	10	11	3	3	1	1	0	2	1	5	1	3	1	1	1	3	6	1	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:13231078A>G	uc001ima.2	+	10	1517	c.1416A>G	c.(1414-1416)TCA>TCG	p.S472S	MCM10_uc001imb.2_Silent_p.S471S|MCM10_uc001imc.2_Silent_p.S471S	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	472					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						ATGCAGCTTCAATGTAAGACG	0.473													4	130					0	0	0.009096	0	0		G	13231078	G	G	13231078	2	3	20	1	0	0	0	0	0	0	0	1	9403	117	5	3		3	MCM10	10	13231078	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	5175285	13231078	122303669	945	17667											
RPP38	10557	broad.mit.edu	37	chr10	15145991	15145991	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagactgaacctctggaaagCcaagacagagagcttttgga	14	7	12	8	0	1	4	0	1	1	3	1	8	1	6	2	2	3	1	2	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:15145991C>A	uc001iny.3	+	3	1391	c.678C>A	c.(676-678)AGC>AGA	p.S226R	RPP38_uc009xjm.2_Missense_Mutation_p.S226R|RPP38_uc001inx.3_Missense_Mutation_p.S226R	NM_183005	NP_892117	P78345	RPP38_HUMAN	ribonuclease P/MRP 38 subunit	226					tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity			ovary(1)	1						CTCTGGAAAGCCAAGACAGAG	0.443													28	78					1.80694e-10	1.89783e-10	0.009535	1	0		A	15145991	A	A	15145991	3	1	20	1	0	0	0	0	1	0	0	0	13638	738	26	5	680	5	RPP38	10	15145991	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1914913	15145991	120388756	946	17668											
FAM171A1	221061	broad.mit.edu	37	chr10	15255974	15255974	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatcgcgacatcatacatTcagtgggtctgcggtccagc	8	10	11	12	3	3	1	2	1	1	0	5	2	4	1	1	2	3	0	1	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:15255974T>C	uc001iob.2	-	8	1620	c.1613A>G	c.(1612-1614)GAA>GGA	p.E538G		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	538	Cytoplasmic (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						CATCATACATTCAGTGGGTCT	0.557													58	192					0	0	0.01441	0	0		C	15255974	C	C	15255974	3	2	20	1	0	0	0	0	1	0	0	0	5501	1783	62	3	1063	3	FAM171A1	10	15255974	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	109983	15255974	120278773	947	17669											
CUBN	8029	broad.mit.edu	37	chr10	17113457	17113457	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttcacagtgggcagaacTtccaatttcaaagacagtga	13	11	9	8	0	2	3	2	1	0	2	3	3	3	3	1	1	1	2	1	1	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:17113457T>G	uc001ioo.2	-	19	2645	c.2593A>C	c.(2593-2595)AGT>CGT	p.S865R		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	865	CUB 4.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TGGGCAGAACTTCCAATTTCA	0.383													16	81					0	0	0.006122	0	0		G	17113457	G	G	17113457	3	3	20	1	0	0	0	0	1	0	0	0	4054	1609	56	5	8474	5	CUBN	10	17113457	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1857483	17113457	118421290	948	17670											
STAM	8027	broad.mit.edu	37	chr10	17756586	17756586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacacatatcccagccaggCgccagtatatagtcctcctc	12	8	6	15	1	0	0	0	0	0	0	4	0	3	0	5	1	2	1	5	1	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:17756586C>T	uc001ipj.1	+	14	1646	c.1430C>T	c.(1429-1431)GCG>GTG	p.A477V	STAM_uc009xjw.1_Missense_Mutation_p.A135V	NM_003473	NP_003464	Q92783	STAM1_HUMAN	signal transducing adaptor molecule 1	477					cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	SH3/SH2 adaptor activity			large_intestine(1)|ovary(1)	2						CCCAGCCAGGCGCCAGTATAT	0.478													25	70					0	0	0.005443	0	0		T	17756586	T	T	17756586	3	4	20	1	0	0	0	0	1	0	0	0	15273	768	27	1	1484	1	STAM	10	17756586	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	643129	17756586	117778161	949	17671											
SLC39A12	221074	broad.mit.edu	37	chr10	18292281	18292281	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttatatttatccttggtTgaaatggtaagcttggtggc	8	18	10	5	0	1	1	0	1	1	0	2	1	2	1	1	4	1	3	1	4	5	9			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:18292281T>C	uc001ipo.2	+	12	2214	c.1941T>C	c.(1939-1941)GTT>GTC	p.V647V	SLC39A12_uc001ipn.2_Silent_p.V610V|SLC39A12_uc001ipp.2_Silent_p.V646V|SLC39A12_uc010qck.1_Silent_p.V513V|uc001ipq.1_RNA	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	647	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						TATCCTTGGTTGAAATGGTAA	0.363													39	115					0	0	0.007835	0	0		C	18292281	C	C	18292281	2	2	20	1	0	0	0	0	0	0	0	1	14640	1799	63	3		3	SLC39A12	10	18292281	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	535695	18292281	117242466	950	17672											
MLLT10	8028	broad.mit.edu	37	chr10	22021968	22021968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccttttccaacaataacaGcaaatcctagtccgtctcat	12	12	4	13	1	1	0	1	0	1	0	5	0	4	0	4	0	4	1	4	0	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:22021968G>A	uc001iqs.2	+	19	2755	c.2407G>A	c.(2407-2409)GCA>ACA	p.A803T	MLLT10_uc001iqt.2_Missense_Mutation_p.A787T|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Missense_Mutation_p.A787T|MLLT10_uc001ira.2_Missense_Mutation_p.A244T|MLLT10_uc001irb.2_RNA	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	803					positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						AACAATAACAGCAAATCCTAG	0.353			T	MLL|PICALM|CDK6	AL								19	62					0	0	0.00278	0	0		A	22021968	A	A	22021968	3	1	20	1	0	0	0	0	1	0	0	0	9644	971	34	2	2477	2	MLLT10	10	22021968	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3729687	22021968	113512779	951	17673											
ARHGAP21	57584	broad.mit.edu	37	chr10	24880871	24880871	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcatgtgggtgaccatgTgggtcatgttgtcttctgat	6	14	14	7	0	3	2	1	2	2	0	3	2	3	2	1	3	0	2	1	3	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:24880871T>C	uc001isb.2	-	22	4434	c.3947A>G	c.(3946-3948)CAC>CGC	p.H1316R	ARHGAP21_uc010qdb.1_RNA	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	1315	Rho-GAP.				signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						GGTGACCATGTGGGTCATGTT	0.448													5	176					0	0	0.001168	0	0		C	24880871	C	C	24880871	3	2	20	1	0	0	0	0	1	0	0	0	871	1696	59	3	1949	3	ARHGAP21	10	24880871	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2858903	24880871	110653876	952	17674											
ABI1	10006	broad.mit.edu	37	chr10	27066140	27066140	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaataccaatctctcttcGtgccactttctccttatgaa	11	14	3	13	1	3	1	0	1	3	0	6	1	3	1	3	0	2	0	3	0	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:27066140G>A	uc001isx.2	-	3	483	c.316C>T	c.(316-318)CGA>TGA	p.R106*	ABI1_uc001ite.2_Nonsense_Mutation_p.R106*|ABI1_uc010qdh.1_Nonsense_Mutation_p.R106*|ABI1_uc010qdi.1_Intron|ABI1_uc001isy.2_Nonsense_Mutation_p.R106*|ABI1_uc001ita.2_Nonsense_Mutation_p.R106*|ABI1_uc001isz.2_Nonsense_Mutation_p.R106*|ABI1_uc001itb.2_Nonsense_Mutation_p.R123*|ABI1_uc001itc.2_Nonsense_Mutation_p.R106*|ABI1_uc010qdj.1_Nonsense_Mutation_p.R106*|ABI1_uc001itd.2_Nonsense_Mutation_p.R106*|ABI1_uc010qdk.1_Nonsense_Mutation_p.R106*|ABI1_uc010qdg.1_Translation_Start_Site	NM_005470	NP_005461	Q8IZP0	ABI1_HUMAN	abl-interactor 1 isoform a	106	t-SNARE coiled-coil homology.				actin polymerization or depolymerization|cellular component movement|negative regulation of cell proliferation|peptidyl-tyrosine phosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	cell junction|cytoskeleton|cytosol|endoplasmic reticulum|filopodium|growth cone|lamellipodium|nucleus|soluble fraction|synapse|synaptosome	cytoskeletal protein binding			central_nervous_system(1)	1						ATCTCTCTTCGTGCCACTTTC	0.328													17	47					0	0	0.006122	0	0		A	27066140	A	A	27066140	4	1	20	1	0	0	0	0	0	1	0	0	88	1153	40	1	1250	1	ABI1	10	27066140	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2185269	27066140	108468607	953	17675											
ACBD5	91452	broad.mit.edu	37	chr10	27512341	27512341	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggacctatgacacgcagcAattcttcaactttctcagtc	11	12	6	12	1	3	1	2	1	2	0	5	2	3	2	1	1	2	2	1	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:27512341A>G	uc010qdp.1	-	5	607	c.416T>C	c.(415-417)TTG>TCG	p.L139S	ACBD5_uc010qdm.1_Missense_Mutation_p.L137S|ACBD5_uc010qdn.1_Missense_Mutation_p.L30S|ACBD5_uc010qdo.1_Missense_Mutation_p.L30S|ACBD5_uc001ito.2_Missense_Mutation_p.L104S|ACBD5_uc001itp.2_Missense_Mutation_p.L30S|ACBD5_uc001itq.2_Missense_Mutation_p.L30S|ACBD5_uc001itr.1_5'UTR	NM_145698	NP_663736	Q5T8D3	ACBD5_HUMAN	acyl-Coenzyme A binding domain containing 5	137					transport	integral to membrane|peroxisomal membrane	fatty-acyl-CoA binding				0						GACACGCAGCAATTCTTCAAC	0.328													3	107					0	0	0.009096	0	0		G	27512341	G	G	27512341	3	3	20	1	0	0	0	0	1	0	0	0	125	131	5	3	1197	3	ACBD5	10	27512341	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	446201	27512341	108022406	954	17676											
KIAA1462	57608	broad.mit.edu	37	chr10	30316940	30316940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actcaatgctgcacgactcgGccctcccagctttgcaccag	8	8	8	17	2	1	0	1	0	0	0	3	1	2	0	3	1	4	4	3	1	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:30316940G>A	uc001iux.2	-	2	2196	c.2137C>T	c.(2137-2139)CCG>TCG	p.P713S	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.P575S|KIAA1462_uc009xle.1_Missense_Mutation_p.P713S	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	713										ovary(4)	4						GCACGACTCGGCCCTCCCAGC	0.572													5	79					0	0	0.001168	0	0		A	30316940	A	A	30316940	3	1	20	1	0	0	0	0	1	0	0	0	8250	1203	42	2	1950	2	KIAA1462	10	30316940	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2804599	30316940	105217807	955	17677											
NRP1	8829	broad.mit.edu	37	chr10	33491868	33491868	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggcagttggcctggtcGtcatcacattcatccaccaa	8	11	9	13	1	3	0	3	0	0	0	5	0	4	0	3	3	0	2	3	3	1	2	rs148913335		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:33491868G>A	uc001iwx.3	-	11	2338	c.1815C>T	c.(1813-1815)GAC>GAT	p.D605D	NRP1_uc001iwv.3_Silent_p.D605D|NRP1_uc009xlz.2_Silent_p.D605D|NRP1_uc001iww.3_Silent_p.D424D|NRP1_uc001iwy.3_Silent_p.D605D|NRP1_uc001iwz.2_Silent_p.D605D|NRP1_uc001ixa.2_Intron|NRP1_uc001ixb.1_Silent_p.D605D	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	605	Extracellular (Potential).				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	TGGCCTGGTCGTCATCACATT	0.483													15	109					0	0	0.004007	0	0		A	33491868	A	A	33491868	2	1	20	1	0	0	0	0	0	0	0	1	10679	1136	40	1		1	NRP1	10	33491868	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3174928	33491868	102042879	956	17678											
GJD4	219770	broad.mit.edu	37	chr10	35897554	35897554	+	Frame_Shift_Del	DEL	A	-	-																															aggaagtctgagtgggtgtgAaaaaaacagcacctggcggt																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:35897554delA	uc001iyy.1	+	2	1271	c.1113delA	c.(1111-1113)TGAfs	p.*371fs		NM_153368	NP_699199	Q96KN9	CXD4_HUMAN	connexin40.1	371					cell communication	connexon complex|integral to membrane				large_intestine(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						AGTGGGTGTGAAAAAAACAGC	0.433													3	6	---	---	---	---						.	-	35897554	-	-	35897554	7	5	20	1	0	1	0	1	0	0	0	0	6434	259	9	0	1119	0	GJD4	10	35897554	Frame_Shift_Del	DEL	A	TCGA-BR-4362-01A-01D-1158-08	2405686	35897554	99637193	957	17679											
ZNF33B	7582	broad.mit.edu	37	chr10	43089408	43089408	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctttcccacattcattacaTtcaaagtgtttctctccttt	8	18	3	12	0	3	0	2	0	1	0	6	0	5	0	2	0	1	2	2	0	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:43089408T>C	uc001jaf.1	-	5	1105	c.990A>G	c.(988-990)GAA>GAG	p.E330E	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Silent_p.E218E|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	330	C2H2-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ATTCATTACATTCAAAGTGTT	0.408													42	258					0	0	0.010771	0	0		C	43089408	C	C	43089408	2	2	20	1	0	0	0	0	0	0	0	1	17880	1490	52	3		3	ZNF33B	10	43089408	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	7191854	43089408	92445339	958	17680											
C10orf71	118461	broad.mit.edu	37	chr10	50530925	50530925	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgttcagggagaggaaaagtAccccaaaaccagccccccac	14	3	9	15	1	1	1	1	0	0	1	1	3	1	2	6	2	3	2	6	2	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:50530925A>G	uc010qgp.1	+	3	674	c.335A>G	c.(334-336)TAC>TGC	p.Y112C		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	112											0						GAGGAAAAGTACCCCAAAACC	0.567													6	145					0	0	0.001984	0	0		G	50530925	G	G	50530925	3	3	20	1	0	0	0	0	1	0	0	0	1617	391	14	3	337	3	C10orf71	10	50530925	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	7441517	50530925	85003822	959	17681											
ERCC6	2074	broad.mit.edu	37	chr10	50678712	50678712	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcattgctagttacattactActcatgtgagggtcatcttt	9	17	7	8	0	4	1	3	1	1	0	4	1	4	1	0	1	4	2	0	1	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:50678712A>G	uc001jhs.3	-	18	3448	c.3294T>C	c.(3292-3294)AGT>AGC	p.S1098S	ERCC6_uc009xod.2_Silent_p.S258S|ERCC6_uc010qgr.1_Silent_p.S468S|ERCC6_uc001jhr.3_Silent_p.S466S	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	1098					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						TTACATTACTACTCATGTGAG	0.398								Direct_reversal_of_damage|NER					14	163					0	0	0.00499	0	0		G	50678712	G	G	50678712	2	3	20	1	0	0	0	0	0	0	0	1	5225	388	14	3		3	ERCC6	10	50678712	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	147787	50678712	84856035	960	17682											
CSTF2T	23283	broad.mit.edu	37	chr10	53458101	53458101	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctaccatccataggtagaccCctttgatctatcatggggcc	9	11	8	13	0	2	2	1	1	1	1	3	2	3	2	5	3	1	1	5	3	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:53458101C>A	uc001jjp.2	-	1	1255	c.1209G>T	c.(1207-1209)AGG>AGT	p.R403S	PRKG1_uc001jjm.2_Intron|PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron	NM_015235	NP_056050	Q9H0L4	CSTFT_HUMAN	cleavage stimulation factor, 3' pre-RNA, subunit	403	Gly-rich.				mRNA processing	nucleus	nucleotide binding|RNA binding			ovary(1)	1				COAD - Colon adenocarcinoma(2;0.00736)|Colorectal(2;0.00898)|all cancers(4;0.0188)|GBM - Glioblastoma multiforme(4;0.0778)|Epithelial(53;0.122)		TAGGTAGACCCCTTTGATCTA	0.527													13	195					0.000151284	0.000154508	0.001855	1	0		A	53458101	A	A	53458101	3	1	20	1	0	0	0	0	1	0	0	0	3988	622	22	5	645	5	CSTF2T	10	53458101	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2779389	53458101	82076646	961	17683											
PCDH15	65217	broad.mit.edu	37	chr10	55782925	55782925	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacccaaactgtagtgcacTtgaccatttattccagcatc	11	13	5	12	0	0	1	0	1	0	0	2	1	1	1	3	0	4	3	3	0	4	6	rs74905541		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:55782925T>G	uc001jju.1	-	19	2648	c.2253A>C	c.(2251-2253)CAA>CAC	p.Q751H	PCDH15_uc010qhq.1_Missense_Mutation_p.Q756H|PCDH15_uc010qhr.1_Missense_Mutation_p.Q751H|PCDH15_uc010qhs.1_Missense_Mutation_p.Q763H|PCDH15_uc010qht.1_Missense_Mutation_p.Q758H|PCDH15_uc010qhu.1_Missense_Mutation_p.Q751H|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.Q751H|PCDH15_uc010qhw.1_Missense_Mutation_p.Q714H|PCDH15_uc010qhx.1_Missense_Mutation_p.Q680H|PCDH15_uc010qhy.1_Missense_Mutation_p.Q756H|PCDH15_uc010qhz.1_Missense_Mutation_p.Q751H|PCDH15_uc010qia.1_Missense_Mutation_p.Q729H|PCDH15_uc010qib.1_Missense_Mutation_p.Q729H|PCDH15_uc001jjw.2_Missense_Mutation_p.Q751H	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	751	Extracellular (Potential).|Cadherin 7.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TGTAGTGCACTTGACCATTTA	0.363										HNSCC(58;0.16)			14	51					0	0	0.00499	0	0		G	55782925	G	G	55782925	3	3	20	1	0	0	0	0	1	0	0	0	11530	1606	56	5	5293	5	PCDH15	10	55782925	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2324824	55782925	79751822	962	17684											
ANK3	288	broad.mit.edu	37	chr10	61831056	61831056	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaattgggctgggtttgcCtggtatataagctatgagcg	8	12	16	5	1	0	1	0	1	0	0	0	2	0	2	1	4	3	4	1	4	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:61831056C>A	uc001jky.2	-	37	9775	c.9583G>T	c.(9583-9585)GGC>TGC	p.G3195C	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	3195					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CTGGGTTTGCCTGGTATATAA	0.488													31	86					2.61193e-14	2.76673e-14	0.009535	1	0		A	61831056	A	A	61831056	3	1	20	1	0	0	0	0	1	0	0	0	622	681	24	5	3891	5	ANK3	10	61831056	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6048131	61831056	73703691	963	17685											
ARID5B	84159	broad.mit.edu	37	chr10	63759903	63759903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctacccccagtactgcCggtaccgctcgatgctgaaa	9	8	9	15	3	1	1	1	1	0	0	2	2	1	1	4	1	6	5	4	1	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:63759903C>T	uc001jlt.1	+	4	582	c.556C>T	c.(556-558)CGG>TGG	p.R186W	ARID5B_uc010qil.1_Missense_Mutation_p.R186W	NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	186					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					CCAGTACTGCCGGTACCGCTC	0.522													17	50					0	0	0.010504	0	0		T	63759903	T	T	63759903	3	4	20	1	0	0	0	0	1	0	0	0	922	643	23	1	570	1	ARID5B	10	63759903	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1928847	63759903	71774844	964	17686											
JMJD1C	221037	broad.mit.edu	37	chr10	64967949	64967949	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatgttctggtatcttgccTactaaaccttcactttctgg	8	16	7	10	0	4	1	1	0	3	1	4	1	4	1	2	2	3	2	2	2	4	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:64967949T>C	uc001jmn.2	-	10	3780	c.3480A>G	c.(3478-3480)GTA>GTG	p.V1160V	JMJD1C_uc001jml.2_Silent_p.V941V|JMJD1C_uc001jmm.2_Silent_p.V872V|JMJD1C_uc010qiq.1_Silent_p.V978V|JMJD1C_uc009xpi.2_Silent_p.V978V|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Silent_p.V197V	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1160					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					GTATCTTGCCTACTAAACCTT	0.408													8	302					0	0	0.00308	0	0		C	64967949	C	C	64967949	2	2	20	1	0	0	0	0	0	0	0	1	7966	1509	53	3		3	JMJD1C	10	64967949	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1208046	64967949	70566798	965	17687											
JMJD1C	221037	broad.mit.edu	37	chr10	64979741	64979741	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtttaggctgtctatgtcGtcctagaattatagattaaa	11	15	10	5	1	1	2	0	0	1	2	3	2	2	2	1	2	0	2	1	2	8	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:64979741G>A	uc001jmn.2	-	4	750	c.450C>T	c.(448-450)GAC>GAT	p.D150D	JMJD1C_uc001jml.2_Intron|JMJD1C_uc001jmm.2_Translation_Start_Site|JMJD1C_uc010qiq.1_Translation_Start_Site|JMJD1C_uc009xpi.2_Translation_Start_Site|JMJD1C_uc009xpj.1_Intron|JMJD1C_uc001jmp.1_Intron	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	150					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TGTCTATGTCGTCCTAGAATT	0.413													25	81					0	0	0.005443	0	0		A	64979741	A	A	64979741	2	1	20	1	0	0	0	0	0	0	0	1	7966	1136	40	1		1	JMJD1C	10	64979741	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	11792	64979741	70555006	966	17688											
DNA2	1763	broad.mit.edu	37	chr10	70225564	70225564	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggcgtgtggctggatcAgagctctacaaaagcaaatc	12	10	11	8	1	2	1	1	0	1	1	3	2	2	2	0	3	3	3	0	3	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:70225564A>G	uc001jof.2	-	4	705	c.705T>C	c.(703-705)TCT>TCC	p.S235S	DNA2_uc001jog.1_Silent_p.S149S|DNA2_uc001joh.1_RNA	NM_001080449	NP_001073918	P51530	DNA2L_HUMAN	DNA replication helicase 2 homolog	149					base-excision repair|DNA replication, removal of RNA primer|mitochondrial DNA repair|mitochondrial DNA replication|positive regulation of DNA replication|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	mitochondrial nucleoid|nucleoplasm	5'-flap endonuclease activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|site-specific endodeoxyribonuclease activity, specific for altered base				0						TGGCTGGATCAGAGCTCTACA	0.338													11	27					0	0	0.010729	0	0		G	70225564	G	G	70225564	2	3	20	1	0	0	0	0	0	0	0	1	4602	175	7	3		3	DNA2	10	70225564	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	5245823	70225564	65309183	967	17689											
HK1	3098	broad.mit.edu	37	chr10	71158430	71158430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgatgacagtatcctcGtcaagacagtgtgcggggtg	8	9	14	10	3	1	2	1	1	0	1	3	3	2	2	2	2	2	1	2	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:71158430G>A	uc001jpl.3	+	17	2556	c.2455G>A	c.(2455-2457)GTC>ATC	p.V819I	HK1_uc001jpg.3_Missense_Mutation_p.V807I|HK1_uc001jph.3_Missense_Mutation_p.V823I|HK1_uc001jpi.3_Missense_Mutation_p.V823I|HK1_uc001jpj.3_Missense_Mutation_p.V854I|HK1_uc001jpk.3_Missense_Mutation_p.V818I	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	819	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						CAGTATCCTCGTCAAGACAGT	0.597													18	39					0	0	0.007413	0	0		A	71158430	A	A	71158430	3	1	20	1	0	0	0	0	1	0	0	0	7206	1145	40	1	2699	1	HK1	10	71158430	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	932866	71158430	64376317	968	17690											
UNC5B	219699	broad.mit.edu	37	chr10	73059019	73059019	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctggtggctgtggccacCgacggggactgctgagcctc	5	8	16	12	2	0	1	0	1	0	0	1	3	0	2	3	5	3	3	3	5	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:73059019C>T	uc001jro.2	+	17	3268	c.2823C>T	c.(2821-2823)ACC>ACT	p.T941T	UNC5B_uc001jrp.2_Silent_p.T930T|UNC5B_uc001jrq.1_5'Flank	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	941	Cytoplasmic (Potential).|Death.				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						CTGTGGCCACCGACGGGGACT	0.662													47	121					0	0	0.01441	0	0		T	73059019	T	T	73059019	2	4	20	1	0	0	0	0	0	0	0	1	17018	639	23	1		1	UNC5B	10	73059019	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1900589	73059019	62475728	969	17691											
NUDT13	25961	broad.mit.edu	37	chr10	74890516	74890516	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggttcagtcatgatgaggTagccacagccctgaagagaa	12	8	12	9	0	2	4	2	3	0	1	2	5	2	4	2	2	2	2	2	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:74890516T>A	uc001jtj.2	+	9	1039	c.914T>A	c.(913-915)GTA>GAA	p.V305E	NUDT13_uc010qkc.1_Missense_Mutation_p.V179E|NUDT13_uc010qkd.1_Missense_Mutation_p.V108E|NUDT13_uc009xqw.2_RNA|NUDT13_uc001jtk.2_3'UTR|NUDT13_uc010qke.1_Missense_Mutation_p.V108E|NUDT13_uc001jtl.2_Missense_Mutation_p.V216E	NM_015901	NP_056985	Q86X67	NUD13_HUMAN	nudix-type motif 13	305	Nudix hydrolase.						hydrolase activity|metal ion binding				0	Prostate(51;0.0119)					CATGATGAGGTAGCCACAGCC	0.483													4	69					0	0	0.00308	0	0		A	74890516	A	A	74890516	3	1	20	1	0	0	0	0	1	0	0	0	10748	1638	57	5	944	5	NUDT13	10	74890516	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1831497	74890516	60644231	970	17692											
PLAU	5328	broad.mit.edu	37	chr10	75676249	75676249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgaaggacaagccaggcGtctacacgagagtctcacac	12	5	10	14	2	2	2	1	1	2	1	3	4	2	3	2	2	2	0	2	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:75676249G>A	uc001jwa.2	+	11	1368	c.1222G>A	c.(1222-1224)GTC>ATC	p.V408I	C10orf55_uc001jvz.1_Intron|PLAU_uc010qkw.1_Missense_Mutation_p.V391I|PLAU_uc010qkx.1_Missense_Mutation_p.V322I|PLAU_uc001jwb.2_RNA|PLAU_uc001jwc.2_Missense_Mutation_p.V408I|PLAU_uc009xrq.1_Missense_Mutation_p.V372I	NM_002658	NP_002649	P00749	UROK_HUMAN	plasminogen activator, urokinase isoform 1	408	Peptidase S1.				blood coagulation|chemotaxis|fibrinolysis|proteolysis|regulation of cell adhesion mediated by integrin|regulation of receptor activity|regulation of smooth muscle cell migration|regulation of smooth muscle cell-matrix adhesion|signal transduction	cell surface|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(2)|kidney(1)	3	Prostate(51;0.0112)				Amiloride(DB00594)|Urokinase(DB00013)	CAAGCCAGGCGTCTACACGAG	0.602													6	23					0	0	0.001168	0	0		A	75676249	A	A	75676249	3	1	20	1	0	0	0	0	1	0	0	0	12041	1145	40	1	1298	1	PLAU	10	75676249	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	785733	75676249	59858498	971	17693											
VCL	7414	broad.mit.edu	37	chr10	75871668	75871668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccgccatcgacaaagcCgggcatcccagccgctgagg	8	5	11	17	4	0	1	0	1	0	0	3	2	2	1	5	2	2	2	5	2	1	1	rs143321584		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:75871668C>T	uc001jwd.2	+	19	2841	c.2747C>T	c.(2746-2748)CCG>CTG	p.P916L	VCL_uc009xrr.2_Intron|VCL_uc010qky.1_Missense_Mutation_p.P823L|VCL_uc001jwe.2_Intron|VCL_uc010qkz.1_Intron	NM_014000	NP_054706	P18206	VINC_HUMAN	vinculin isoform meta-VCL	916	C-terminal tail.				adherens junction assembly|apical junction assembly|cell-matrix adhesion|cellular component movement|epithelial cell-cell adhesion|lamellipodium assembly|morphogenesis of an epithelium|muscle contraction|negative regulation of cell migration|platelet activation|platelet degranulation|protein localization at cell surface	costamere|cytosol|extracellular region|focal adhesion	actin binding|alpha-catenin binding|beta-catenin binding|beta-dystroglycan binding|cadherin binding|structural molecule activity		VCL/ALK(4)	kidney(4)|ovary(1)|central_nervous_system(1)	6	Prostate(51;0.0112)					TCGACAAAGCCGGGCATCCCA	0.542													6	23					0	0	0.00308	0	0		T	75871668	T	T	75871668	3	4	20	1	0	0	0	0	1	0	0	0	17165	666	23	1	2821	1	VCL	10	75871668	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	195419	75871668	59663079	972	17694											
MYST4	23522	broad.mit.edu	37	chr10	76781836	76781836	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagagcagtgaagaagaagaGgaggaggaggacgaggagga	17	1	21	2	1	0	5	0	1	0	4	0	13	0	11	0	6	1	1	0	6	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:76781836G>A	uc001jwn.1	+	16	3712	c.3219G>A	c.(3217-3219)GAG>GAA	p.E1073E	MYST4_uc001jwm.1_Silent_p.E781E|MYST4_uc001jwo.1_Silent_p.E781E|MYST4_uc001jwp.1_Silent_p.E890E	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1073	Poly-Glu.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					aagaagaagaggaggaggagg	0.239			T	CREBBP	AML						OREG0020273	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	27					0	0	0.013537	0	0		A	76781836	A	A	76781836	2	1	20	1	0	0	0	0	0	0	0	1	10123	991	35	4		4	MYST4	10	76781836	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	910168	76781836	58752911	973	17695											
MYST4	23522	broad.mit.edu	37	chr10	76789488	76789488	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcccagatcaaagtgccAtctcagtgccatctctgcag	10	9	8	14	0	4	1	3	0	2	1	6	1	4	1	3	0	4	1	3	0	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:76789488A>G	uc001jwn.1	+	18	5399	c.4906A>G	c.(4906-4908)ATC>GTC	p.I1636V	MYST4_uc001jwo.1_Missense_Mutation_p.I1344V|MYST4_uc001jwp.1_Missense_Mutation_p.I1453V	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1636	Ser-rich.|Interaction with RUNX1 and RUNX2.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					TCAAAGTGCCATCTCAGTGCC	0.512			T	CREBBP	AML								20	79					0	0	0.014323	0	0		G	76789488	G	G	76789488	3	3	20	1	0	0	0	0	1	0	0	0	10123	217	8	3	4968	3	MYST4	10	76789488	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	7652	76789488	58745259	974	17696											
MYST4	23522	broad.mit.edu	37	chr10	76789800	76789800	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgctgcagcaaaccagcAtcagctcccctccgacctgc	9	6	8	18	1	1	0	1	0	0	0	3	1	3	0	5	0	7	6	5	0	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:76789800A>C	uc001jwn.1	+	18	5711	c.5218A>C	c.(5218-5220)ATC>CTC	p.I1740L	MYST4_uc001jwo.1_Missense_Mutation_p.I1448L|MYST4_uc001jwp.1_Missense_Mutation_p.I1557L	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1740	Ser-rich.|Interaction with RUNX1 and RUNX2.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					GCAAACCAGCATCAGCTCCCC	0.612			T	CREBBP	AML								9	29					0	0	0.010729	0	0		C	76789800	C	C	76789800	3	2	20	1	0	0	0	0	1	0	0	0	10123	217	8	5	5280	5	MYST4	10	76789800	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	312	76789800	58744947	975	17697											
SAMD8	142891	broad.mit.edu	37	chr10	76910314	76910314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcctaatcaactctgcattCgccgctggactaccaagcat	10	10	7	14	2	2	0	1	0	1	0	4	1	3	1	3	1	4	3	3	1	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:76910314C>T	uc001jwx.1	+	2	131	c.28C>T	c.(28-30)CGC>TGC	p.R10C	SAMD8_uc001jwy.1_Missense_Mutation_p.R10C	NM_144660	NP_653261	Q96LT4	SAMD8_HUMAN	sterile alpha motif domain containing 8	10					sphingomyelin biosynthetic process	integral to membrane					0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					ACTCTGCATTCGCCGCTGGAC	0.433													13	50					0	0	0.004007	0	0		T	76910314	T	T	76910314	3	4	20	1	0	0	0	0	1	0	0	0	13850	884	31	1	30	1	SAMD8	10	76910314	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	120514	76910314	58624433	976	17698											
SH2D4B	387694	broad.mit.edu	37	chr10	82331288	82331288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaagtggagatggaagaccGcaaggctgccaaagtcctgg	13	5	15	8	1	0	2	0	0	0	2	1	5	1	3	3	4	1	2	3	4	4	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:82331288G>A	uc001kck.1	+	3	879	c.449G>A	c.(448-450)CGC>CAC	p.R150H	SH2D4B_uc001kcl.1_Missense_Mutation_p.R101H	NM_207372	NP_997255	Q5SQS7	SH24B_HUMAN	SH2 domain containing 4B isoform 1	149	Glu-rich.										0			Colorectal(32;0.229)			ATGGAAGACCGCAAGGCTGCC	0.587													15	58					0	0	0.00499	0	0		A	82331288	A	A	82331288	3	1	20	1	0	0	0	0	1	0	0	0	14261	1087	38	1	500	1	SH2D4B	10	82331288	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5420974	82331288	53203459	977	17699											
PTEN	5728	broad.mit.edu	37	chr10	89717770	89717770	+	Frame_Shift_Del	DEL	A	-	-																															cacaaacagaacaagatgctAaaaaaggtttgtactttact																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:89717770delA	uc001kfb.2	+	8	1826	c.795delA	c.(793-795)CTAfs	p.L265fs		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	265	C2 tensin-type.			KMLKKDK->AAGAADA: Reduces the growth suppression activity and cells show anchorage-independent growth. Reduces binding to phospholipid membranes in vitro. Phosphatase activity towards PtdIns(3,4,5)P3 is not affected.	activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.K267fs*9(4)|p.R55fs*1(4)|p.N212fs*1(2)|p.Y27fs*1(2)|p.M264fs*8(2)|p.G165_*404del(1)|p.?(1)|p.G165_K342del(1)|p.D268fs*30(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		ACAAGATGCTAAAAAAGGTTT	0.348		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			75	53	---	---	---	---						.	-	89717770	-	-	89717770	7	5	20	1	0	1	0	1	0	0	0	0	12760	349	13	0	821	0	PTEN	10	89717770	Frame_Shift_Del	DEL	A	TCGA-BR-4362-01A-01D-1158-08	7386482	89717770	45816977	978	17700											
ACTA2	59	broad.mit.edu	37	chr10	90697858	90697858	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgctagggccgtgatctccTtctgcattcggtcggcaatg	5	12	13	11	3	2	1	0	1	2	0	5	1	2	1	2	3	2	3	2	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:90697858T>G	uc001kfp.2	-	8	1066	c.950A>C	c.(949-951)AAG>ACG	p.K317T	STAMBPL1_uc010qmx.1_Intron|ACTA2_uc010qmy.1_Missense_Mutation_p.K272T|ACTA2_uc001kfq.2_Missense_Mutation_p.K317T|uc001kfo.1_Intron	NM_001613	NP_001604	P62736	ACTA_HUMAN	alpha 2 actin	317					response to virus	cytosol	ATP binding				0		Colorectal(252;0.0161)		Colorectal(12;0.000123)|COAD - Colon adenocarcinoma(12;0.00018)		CGTGATCTCCTTCTGCATTCG	0.517													31	91					0	0	0.004289	0	0		G	90697858	G	G	90697858	3	3	20	1	0	0	0	0	1	0	0	0	192	1609	56	5	191	5	ACTA2	10	90697858	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	980088	90697858	44836889	979	17701											
IFIT2	3433	broad.mit.edu	37	chr10	91066183	91066183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaaaccaaaatgaaagagCgaaggtgtgctttgagaagg	17	6	14	4	1	0	3	0	2	0	2	0	6	0	4	1	3	3	1	1	3	6	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:91066183C>T	uc009xts.2	+	2	645	c.470C>T	c.(469-471)GCG>GTG	p.A157V	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron	NM_001547	NP_001538	P09913	IFIT2_HUMAN	interferon-induced protein with	157	TPR 2.				negative regulation of protein binding|response to virus|type I interferon-mediated signaling pathway		protein binding			ovary(1)|skin(1)	2		Colorectal(252;0.0161)				AATGAAAGAGCGAAGGTGTGC	0.483													17	66					0	0	0.00499	0	0		T	91066183	T	T	91066183	3	4	20	1	0	0	0	0	1	0	0	0	7539	768	27	1	476	1	IFIT2	10	91066183	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	368325	91066183	44468564	980	17702											
HTR7	3363	broad.mit.edu	37	chr10	92617193	92617193	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgatcacaactttctcgActctgccgtagttgatctgt	8	13	8	12	3	4	1	1	1	3	0	5	3	4	1	2	0	3	2	2	0	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:92617193A>G	uc001kha.2	-	1	479	c.236T>C	c.(235-237)GTC>GCC	p.V79A	HTR7_uc001kgz.2_Missense_Mutation_p.V79A|HTR7_uc001khb.2_Missense_Mutation_p.V79A	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	79	Extracellular (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	AACTTTCTCGACTCTGCCGTA	0.637													4	50					0	0	0.000602	0	0		G	92617193	G	G	92617193	3	3	20	1	0	0	0	0	1	0	0	0	7468	275	10	3	1223	3	HTR7	10	92617193	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1551010	92617193	42917554	981	17703											
HHEX	3087	broad.mit.edu	37	chr10	94452214	94452214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctccaacgaccagaccatcGagctggagaagaaattcgag	14	6	10	11	3	1	3	0	0	1	3	4	7	1	3	3	1	2	1	3	1	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:94452214G>A	uc001kid.2	+	2	514	c.451G>A	c.(451-453)GAG>AAG	p.E151K		NM_002729	NP_002720	Q03014	HHEX_HUMAN	hematopoietically expressed homeobox	151	Homeobox.				anterior/posterior pattern formation|B cell differentiation|cell cycle|DNA conformation change|negative regulation of angiogenesis|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|negative regulation of vascular endothelial growth factor receptor signaling pathway|poly(A)+ mRNA export from nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|protein localization to nucleus|Wnt receptor signaling pathway	cytoplasm|nucleus|protein-DNA complex	DNA bending activity|eukaryotic initiation factor 4E binding|protein homodimerization activity|repressing transcription factor binding|sequence-specific DNA binding|TBP-class protein binding|transcription regulatory region DNA binding			ovary(1)	1						CCAGACCATCGAGCTGGAGAA	0.577													20	75					0	0	0.007413	0	0		A	94452214	A	A	94452214	3	1	20	1	0	0	0	0	1	0	0	0	7107	1059	37	1	457	1	HHEX	10	94452214	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1835021	94452214	41082533	982	17704											
MYOF	26509	broad.mit.edu	37	chr10	95111577	95111577	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtggttttgctccgatGgaggaaacagatatgagcat	11	11	12	7	1	1	2	1	1	0	1	2	5	2	4	1	3	3	3	1	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:95111577G>T	uc001kin.2	-	33	3631	c.3508C>A	c.(3508-3510)CAT>AAT	p.H1170N	MYOF_uc001kio.2_Missense_Mutation_p.H1157N|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1170	Cytoplasmic (Potential).|C2 4.				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						TTGCTCCGATGGAGGAAACAG	0.438													44	120					1.4374e-25	1.54746e-25	0.01441	1	0		T	95111577	T	T	95111577	3	4	20	1	0	0	0	0	1	0	0	0	10107	1348	47	5	2765	5	MYOF	10	95111577	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	659363	95111577	40423170	983	17705											
MYOF	26509	broad.mit.edu	37	chr10	95211875	95211875	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgaaaagtccagtggtatAcccctcaagtcaaactccaa	15	8	7	11	0	2	1	2	1	0	0	4	2	4	1	4	1	2	1	4	1	7	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:95211875A>G	uc001kin.2	-	3	291	c.168T>C	c.(166-168)GGT>GGC	p.G56G	MYOF_uc001kio.2_Silent_p.G56G|MYOF_uc001kip.3_Silent_p.G56G|MYOF_uc009xuf.2_Silent_p.G38G	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	56	C2 1.|Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						CCAGTGGTATACCCCTCAAGT	0.348													9	274					0	0	0.004482	0	0		G	95211875	G	G	95211875	2	3	20	1	0	0	0	0	0	0	0	1	10107	378	14	3		3	MYOF	10	95211875	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	100298	95211875	40322872	984	17706											
NOC3L	64318	broad.mit.edu	37	chr10	96098412	96098412	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgttctgagcattgcagtActcaggctcatccagttcag	9	12	10	10	0	4	1	3	1	1	0	5	1	5	1	1	1	3	6	1	1	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:96098412A>G	uc001kjq.1	-	18	2132	c.2044T>C	c.(2044-2046)TAC>CAC	p.Y682H		NM_022451	NP_071896	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog	682						nuclear speck|nucleolus	binding			ovary(1)	1		Colorectal(252;0.0897)				GCATTGCAGTACTCAGGCTCA	0.443													5	100					0	0	0.000602	0	0		G	96098412	G	G	96098412	3	3	20	1	0	0	0	0	1	0	0	0	10533	391	14	3	374	3	NOC3L	10	96098412	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	886537	96098412	39436335	985	17707											
PDLIM1	9124	broad.mit.edu	37	chr10	97050611	97050611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaggctgctcgaagtccttgCcgcccacgaggcggaagccc	7	5	14	15	4	0	0	0	0	0	0	2	4	1	1	4	3	3	2	4	3	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:97050611C>T	uc001kkh.2	-	1	171	c.62G>A	c.(61-63)GGC>GAC	p.G21D	PDLIM1_uc001kki.2_Missense_Mutation_p.G21D|PDLIM1_uc009xuv.2_Missense_Mutation_p.G21D|PDLIM1_uc001kkj.1_Missense_Mutation_p.G21D	NM_020992	NP_066272	O00151	PDLI1_HUMAN	PDZ and LIM domain 1	21	PDZ.			G -> R (in Ref. 1; AAC05580).	response to oxidative stress	cytoplasm|cytoskeleton	zinc ion binding				0		Colorectal(252;0.083)		Epithelial(162;1.64e-06)|all cancers(201;3.71e-05)		GAAGTCCTTGCCGCCCACGAG	0.701													4	18					0	0	0.000602	0	0		T	97050611	T	T	97050611	3	4	20	1	0	0	0	0	1	0	0	0	11698	739	26	2	955	2	PDLIM1	10	97050611	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	952199	97050611	38484136	986	17708											
ZDHHC16	84287	broad.mit.edu	37	chr10	99212022	99212022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccaggccatcaccactcCgcctgggtacccaccccagg	8	5	8	20	1	1	0	1	0	0	0	2	0	2	0	8	3	2	1	8	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:99212022C>T	uc001knj.2	+	4	768	c.419C>T	c.(418-420)CCG>CTG	p.P140L	ZDHHC16_uc001knp.2_Missense_Mutation_p.P140L|ZDHHC16_uc001knk.2_Missense_Mutation_p.P140L|ZDHHC16_uc001knl.2_Missense_Mutation_p.P140L|ZDHHC16_uc001knm.2_Intron|ZDHHC16_uc001knn.2_Missense_Mutation_p.P140L|ZDHHC16_uc010qow.1_Missense_Mutation_p.P140L|ZDHHC16_uc009xvq.2_RNA|ZDHHC16_uc001kno.2_Missense_Mutation_p.P140L|ZDHHC16_uc009xvr.2_Missense_Mutation_p.P140L	NM_198046	NP_932163	Q969W1	ZDH16_HUMAN	Abl-philin 2 isoform 1	140	Cytoplasmic (Potential).				apoptosis	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1		Colorectal(252;0.0846)		Epithelial(162;5.81e-10)|all cancers(201;4.19e-08)		ATCACCACTCCGCCTGGGTAC	0.562													20	103					0	0	0.00278	0	0		T	99212022	T	T	99212022	3	4	20	1	0	0	0	0	1	0	0	0	17631	652	23	1	425	1	ZDHHC16	10	99212022	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2161411	99212022	36322725	987	17709											
PI4K2A	55361	broad.mit.edu	37	chr10	99416585	99416585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcttggttccaggttggttCattccagctctttgttgaag	5	17	10	9	0	3	1	1	1	2	0	5	1	5	1	2	3	1	5	2	3	1	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:99416585C>T	uc001kog.1	+	4	833	c.776C>T	c.(775-777)TCA>TTA	p.S259L	PI4K2A_uc010qoy.1_Missense_Mutation_p.S229L|PI4K2A_uc009xvw.1_5'UTR	NM_018425	NP_060895	Q9BTU6	P4K2A_HUMAN	phosphatidylinositol 4-kinase type 2 alpha	259	PI3K/PI4K.				phosphatidylinositol biosynthetic process	cytoplasm|integral to plasma membrane|membrane raft	1-phosphatidylinositol 4-kinase activity|ATP binding|magnesium ion binding			lung(1)|skin(1)	2		Colorectal(252;0.162)		Epithelial(162;1.24e-10)|all cancers(201;1.2e-08)		CAGGTTGGTTCATTCCAGCTC	0.473													72	200					0	0	0.01441	0	0		T	99416585	T	T	99416585	3	4	20	1	0	0	0	0	1	0	0	0	11890	838	29	4	790	4	PI4K2A	10	99416585	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	204563	99416585	36118162	988	17710											
NKX2-3	159296	broad.mit.edu	37	chr10	101294811	101294811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggaggagagcgagaggcCgaagccacgcagccgccgga	10	0	19	12	6	0	2	0	0	0	2	0	7	0	4	4	5	3	1	4	5	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:101294811C>T	uc009xwj.2	+	2	627	c.428C>T	c.(427-429)CCG>CTG	p.P143L		NM_145285	NP_660328	Q8TAU0	NKX23_HUMAN	NK2 transcription factor related, locus 3	143						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.45e-08)		AGCGAGAGGCCGAAGCCACGC	0.632													3	6					0	0	0.009096	0	0		T	101294811	T	T	101294811	3	4	20	1	0	0	0	0	1	0	0	0	10470	652	23	1	434	1	NKX2-3	10	101294811	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1878226	101294811	34239936	989	17711											
CWF19L1	55280	broad.mit.edu	37	chr10	102013291	102013291	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacattttttggtatccacTtctccctagtaaacaaaaac	13	13	3	12	0	1	0	0	0	1	0	3	0	2	0	3	1	2	2	3	1	6	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:102013291T>C	uc001kqq.1	-	6	597	c.510A>G	c.(508-510)GAA>GAG	p.E170E	CWF19L1_uc001kqs.1_5'UTR|CWF19L1_uc001kqr.1_Silent_p.E170E|CWF19L1_uc001kqt.1_5'UTR|CWF19L1_uc010qpn.1_Silent_p.E33E	NM_018294	NP_060764	Q69YN2	C19L1_HUMAN	CWF19-like 1, cell cycle control	170							catalytic activity				0		Colorectal(252;0.117)		Epithelial(162;3.78e-10)|all cancers(201;3.1e-08)		TGGTATCCACTTCTCCCTAGT	0.338													4	141					0	0	0.001168	0	0		C	102013291	C	C	102013291	2	2	20	1	0	0	0	0	0	0	0	1	4074	1606	56	3		3	CWF19L1	10	102013291	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	718480	102013291	33521456	990	17712											
LDB1	8861	broad.mit.edu	37	chr10	103867901	103867901	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttgctttcttggctggaCggaggcttgctgttccaggg	4	14	15	8	1	1	0	0	0	1	0	2	3	2	2	1	5	2	5	1	5	0	5	rs146408312		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:103867901C>T	uc009xwz.2	-	11	1528	c.1185G>A	c.(1183-1185)CCG>CCA	p.P395P	LDB1_uc001kuk.3_Silent_p.P359P	NM_001113407	NP_001106878	Q86U70	LDB1_HUMAN	LIM domain binding 1 isoform 1	395					histone H3-K4 acetylation|negative regulation of erythrocyte differentiation|negative regulation of transcription, DNA-dependent|positive regulation of hemoglobin biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription elongation, DNA-dependent|transcription, DNA-dependent|transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery	nuclear chromatin|protein complex	LIM domain binding|protein homodimerization activity|transcription corepressor activity			large_intestine(1)	1		Colorectal(252;0.122)		Epithelial(162;1.11e-07)|all cancers(201;1.82e-06)		CTTGGCTGGACGGAGGCTTGC	0.607													10	290					0	0	0.010729	0	0		T	103867901	T	T	103867901	2	4	20	1	0	0	0	0	0	0	0	1	8711	523	19	1		1	LDB1	10	103867901	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1854610	103867901	31666846	991	17713											
PSD	5662	broad.mit.edu	37	chr10	104176760	104176760	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggggagatggcacagtcGccttccgagcagaagcgcat	9	6	16	10	3	0	2	0	0	0	2	2	4	1	2	2	4	2	3	2	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:104176760G>A	uc001kvg.1	-	2	563	c.36C>T	c.(34-36)GGC>GGT	p.G12G	PSD_uc001kvh.1_Intron|PSD_uc009xxd.1_Silent_p.G12G|PSD_uc001kvi.1_Silent_p.G12G|FBXL15_uc001kvj.1_5'Flank|FBXL15_uc001kvk.2_5'Flank	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	12					regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		TGGCACAGTCGCCTTCCGAGC	0.721													4	13					0	0	0.009096	0	0		A	104176760	A	A	104176760	2	1	20	1	0	0	0	0	0	0	0	1	12668	1074	38	1		1	PSD	10	104176760	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	308859	104176760	31357987	992	17714											
C10orf78	119392	broad.mit.edu	37	chr10	105885351	105885351	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttatgagttgcagtcagcTgtgtctgaagagaacaagaa	13	11	11	6	0	2	4	1	2	1	2	2	5	2	4	0	0	3	3	0	0	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:105885351T>C	uc001kxu.2	+	4	640	c.627T>C	c.(625-627)GCT>GCC	p.A209A	C10orf78_uc001kxs.2_Silent_p.A196A|C10orf78_uc001kxt.2_Silent_p.A163A|C10orf78_uc001kxv.2_Silent_p.A271A	NM_001002759	NP_001002759	Q86XK3	SFR1_HUMAN	hypothetical protein LOC119392 isoform a	209					double-strand break repair via homologous recombination	Swi5-Sfr1 complex	protein binding				0		Colorectal(252;0.102)|Breast(234;0.122)		Epithelial(162;1.31e-09)|all cancers(201;3.84e-08)|BRCA - Breast invasive adenocarcinoma(275;0.014)		TGCAGTCAGCTGTGTCTGAAG	0.353													8	92					0	0	0.004482	0	0		C	105885351	C	C	105885351	2	2	20	1	0	0	0	0	0	0	0	1	1620	1567	55	3		3	C10orf78	10	105885351	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1708591	105885351	29649396	993	17715											
GSTO2	119391	broad.mit.edu	37	chr10	106039129	106039129	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtgtcctctgattaggTcccacatttgaccaaggagt	9	12	9	11	0	1	2	0	2	1	0	3	3	3	3	4	2	0	0	4	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:106039129T>C	uc001kyb.2	+	5	996	c.368T>C	c.(367-369)GTC>GCC	p.V123A	GSTO2_uc010qqw.1_Missense_Mutation_p.V123A|GSTO2_uc010qqx.1_Intron|GSTO2_uc001kyc.2_Missense_Mutation_p.V95A|GSTO2_uc010qqy.1_Intron	NM_183239	NP_899062	Q9H4Y5	GSTO2_HUMAN	glutathione S-transferase omega 2	123	GST C-terminal.				water-soluble vitamin metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.178)		Epithelial(162;1.14e-09)|all cancers(201;3.89e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0155)	Glutathione(DB00143)	TCTGATTAGGTCCCACATTTG	0.502													22	44					0	0	0.00333	0	0		C	106039129	C	C	106039129	3	2	20	1	0	0	0	0	1	0	0	0	6859	1681	58	3	382	3	GSTO2	10	106039129	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	153778	106039129	29495618	994	17716											
SORCS1	114815	broad.mit.edu	37	chr10	108489836	108489836	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagttctggcctcaagatgCacaaggtctggttctttatt	9	14	9	9	0	4	1	1	0	3	1	4	1	4	1	1	3	1	3	1	3	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:108489836C>T	uc001kym.2	-	6	1004	c.996G>A	c.(994-996)GTG>GTA	p.V332V	SORCS1_uc001kyl.2_Silent_p.V332V|SORCS1_uc009xxs.2_Silent_p.V332V|SORCS1_uc001kyn.1_Silent_p.V332V|SORCS1_uc001kyo.2_Silent_p.V332V	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	332	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CCTCAAGATGCACAAGGTCTG	0.388													7	91					0	0	0.00308	0	0		T	108489836	T	T	108489836	2	4	20	1	0	0	0	0	0	0	0	1	14955	697	25	2		2	SORCS1	10	108489836	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2450707	108489836	27044911	995	17717											
HABP2	3026	broad.mit.edu	37	chr10	115340373	115340373	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaacccagatgcggacgaaAagccctggtgctttattaaa	14	8	10	9	2	0	1	0	0	0	1	0	4	0	2	2	2	4	1	2	2	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:115340373A>C	uc001lai.3	+	8	863	c.760A>C	c.(760-762)AAG>CAG	p.K254Q	HABP2_uc010qrz.1_RNA	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	254	Kringle.				cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		TGCGGACGAAAAGCCCTGGTG	0.428													41	117					0	0	0.010771	0	0		C	115340373	C	C	115340373	3	2	20	1	0	0	0	0	1	0	0	0	6954	15	1	5	790	5	HABP2	10	115340373	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	6850537	115340373	20194374	996	17718											
HABP2	3026	broad.mit.edu	37	chr10	115341710	115341710	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactcctgtggaaagactgAgatagcagagaggaagatca	15	7	13	6	0	1	5	1	2	0	4	2	9	2	7	1	2	1	1	1	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:115341710A>G	uc001lai.3	+	9	1017	c.914A>G	c.(913-915)GAG>GGG	p.E305G	HABP2_uc010qrz.1_Intron	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	305					cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		GGAAAGACTGAGATAGCAGAG	0.542													56	166					0	0	0.01441	0	0		G	115341710	G	G	115341710	3	3	20	1	0	0	0	0	1	0	0	0	6954	304	11	3	948	3	HABP2	10	115341710	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1337	115341710	20193037	997	17719											
C10orf118	55088	broad.mit.edu	37	chr10	115910861	115910861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaatacctgttccatcCgttgggccatctctttgtgt	7	15	9	10	1	1	1	0	1	1	1	4	2	3	1	4	1	1	2	4	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:115910861C>T	uc001lbb.1	-	4	1530	c.878G>A	c.(877-879)CGG>CAG	p.R293Q	C10orf118_uc001lbc.1_Missense_Mutation_p.R293Q|C10orf118_uc009xye.1_RNA	NM_018017	NP_060487	Q7Z3E2	CJ118_HUMAN	CTCL tumor antigen L14-2	293	Potential.									ovary(2)	2		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0161)|all cancers(201;0.0397)		CTGTTCCATCCGTTGGGCCAT	0.363													34	117					0	0	0.005524	0	0		T	115910861	T	T	115910861	3	4	20	1	0	0	0	0	1	0	0	0	1590	652	23	1	1870	1	C10orf118	10	115910861	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	569151	115910861	19623886	998	17720											
VWA2	340706	broad.mit.edu	37	chr10	116038514	116038514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacccctgtgagcacaggaCgctggagatggtccgggagt	8	7	15	11	2	1	2	1	1	0	1	2	5	2	4	3	4	1	2	3	4	0	0	rs149756313		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:116038514C>T	uc001lbl.1	+	8	1058	c.737C>T	c.(736-738)ACG>ATG	p.T246M	VWA2_uc001lbk.1_Missense_Mutation_p.T246M|VWA2_uc009xyf.1_Translation_Start_Site	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	246						extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		GAGCACAGGACGCTGGAGATG	0.627													22	83					0	0	0.00278	0	0		T	116038514	T	T	116038514	3	4	20	1	0	0	0	0	1	0	0	0	17265	536	19	1	763	1	VWA2	10	116038514	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	127653	116038514	19496233	999	17721											
KIAA1598	57698	broad.mit.edu	37	chr10	118738812	118738812	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctaaggtcttcatattcGcctattgctaaaagaaaaaa	15	12	6	8	1	3	1	1	0	2	1	4	1	3	1	1	1	1	2	1	1	8	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:118738812G>A	uc009xyw.2	-	2	564	c.66C>T	c.(64-66)GGC>GGT	p.G22G	KIAA1598_uc001lcz.3_Silent_p.G22G|KIAA1598_uc010qso.1_Intron|KIAA1598_uc010qsp.1_Silent_p.G22G|KIAA1598_uc010qsq.1_5'UTR	NM_001127211	NP_001120683	A0MZ66	SHOT1_HUMAN	shootin1 isoform a	22	Potential.				axon guidance	axon					0				all cancers(201;0.00494)		CTTCATATTCGCCTATTGCTA	0.408													23	56					0	0	0.00632	0	0		A	118738812	A	A	118738812	2	1	20	1	0	0	0	0	0	0	0	1	8262	1074	38	1		1	KIAA1598	10	118738812	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2700298	118738812	16795935	1000	17722											
FAM45A	404636	broad.mit.edu	37	chr10	120889037	120889037	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgatgcaggttacgtcgcTggatttgtagacttggaggt	7	14	15	5	2	0	2	0	1	0	1	1	4	0	4	0	4	2	4	0	4	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:120889037T>C	uc001ldw.2	+	7	749	c.705T>C	c.(703-705)GCT>GCC	p.A235A	FAM45A_uc010qsv.1_Silent_p.A227A|FAM45A_uc010qsw.1_Silent_p.A84A|FAM45A_uc010qsx.1_RNA|FAM45A_uc010qsy.1_Silent_p.A162A|FAM45A_uc010qsz.1_Silent_p.A124A	NM_207009	NP_996892	Q8TCE6	FA45A_HUMAN	hypothetical protein LOC404636	235										ovary(1)	1		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0293)		GTTACGTCGCTGGATTTGTAG	0.448													20	61					0	0	0.010504	0	0		C	120889037	C	C	120889037	2	2	20	1	0	0	0	0	0	0	0	1	5578	1567	55	3		3	FAM45A	10	120889037	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2150225	120889037	14645710	1001	17723											
PRDX3	10935	broad.mit.edu	37	chr10	120928817	120928817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagatcgttgacgctcaaatGcttgatgactccattggggt	9	12	12	8	2	1	4	1	3	0	1	3	5	2	4	1	2	1	3	1	2	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:120928817G>A	uc001lec.2	-	6	632	c.589C>T	c.(589-591)CAT>TAT	p.H197Y		NM_006793	NP_006784	P30048	PRDX3_HUMAN	peroxiredoxin 3 isoform a precursor	197	Thioredoxin.				cell redox homeostasis|hydrogen peroxide catabolic process|mitochondrion organization|myeloid cell differentiation|negative regulation of kinase activity|positive regulation of cell proliferation|positive regulation of NF-kappaB transcription factor activity|regulation of mitochondrial membrane potential|response to lipopolysaccharide	early endosome|mitochondrion	alkyl hydroperoxide reductase activity|caspase inhibitor activity|peroxidase activity|peroxiredoxin activity|protein C-terminus binding|protein kinase binding				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0245)		ACGCTCAAATGCTTGATGACT	0.483													12	35					0	0	0.013537	0	0		A	120928817	A	A	120928817	3	1	20	1	0	0	0	0	1	0	0	0	12488	1319	46	2	189	2	PRDX3	10	120928817	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	39780	120928817	14605930	1002	17724											
PLEKHA1	59338	broad.mit.edu	37	chr10	124189429	124189429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctagtagacttggacgatgCgagccttccggtcagtgacg	8	9	13	11	4	1	2	1	1	0	1	2	5	2	3	3	2	2	1	3	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:124189429C>T	uc001lge.1	+	12	1313	c.1190C>T	c.(1189-1191)GCG>GTG	p.A397V	PLEKHA1_uc001lgf.1_3'UTR|PLEKHA1_uc001lgg.1_Missense_Mutation_p.A397V	NM_001001974	NP_001001974	Q9HB21	PKHA1_HUMAN	pleckstrin homology domain containing, family A	397					B cell receptor signaling pathway|cellular response to hydrogen peroxide|establishment of protein localization|negative regulation of protein kinase B signaling cascade|phosphatidylinositol 3-kinase cascade|ruffle organization	cytoplasm|nucleus|ruffle membrane	PDZ domain binding|phosphatidylinositol-3,4-bisphosphate binding			kidney(1)	1		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TTGGACGATGCGAGCCTTCCG	0.502													13	57					0	0	0.00245	0	0		T	124189429	T	T	124189429	3	4	20	1	0	0	0	0	1	0	0	0	12074	768	27	1	1232	1	PLEKHA1	10	124189429	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3260612	124189429	11345318	1003	17725											
HMX2	3167	broad.mit.edu	37	chr10	124909354	124909354	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgagcagctcggagcgCgcctgcctcgcctccagcct	5	7	11	18	4	0	1	0	1	0	0	3	2	1	2	6	1	6	2	6	1	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:124909354C>T	uc001lhc.1	+	2	794	c.537C>T	c.(535-537)CGC>CGT	p.R179R		NM_005519	NP_005510	A2RU54	HMX2_HUMAN	H6 family homeobox 2	179	Homeobox.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_neural(114;0.169)|Colorectal(57;0.207)|Glioma(114;0.222)		Colorectal(40;0.123)|COAD - Colon adenocarcinoma(40;0.141)		GCTCGGAGCGCGCCTGCCTCG	0.637													5	23					0	0	0.000602	0	0		T	124909354	T	T	124909354	2	4	20	1	0	0	0	0	0	0	0	1	7263	755	27	1		1	HMX2	10	124909354	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	719925	124909354	10625393	1004	17726											
C10orf137	26098	broad.mit.edu	37	chr10	127451935	127451935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttactcccagcttttgagagCaactgcaaataaaaccgcga	14	9	7	11	2	0	1	0	1	0	1	1	3	1	1	2	0	6	3	2	0	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:127451935C>T	uc001liq.1	+	25	3904	c.3611C>T	c.(3610-3612)GCA>GTA	p.A1204V	C10orf137_uc001lio.1_Missense_Mutation_p.A1170V|C10orf137_uc001lip.1_Missense_Mutation_p.A908V|C10orf137_uc001lis.1_Missense_Mutation_p.A530V|C10orf137_uc001lit.1_Missense_Mutation_p.A114V	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	1204					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				CTTTTGAGAGCAACTGCAAAT	0.468													23	95					0	0	0.00278	0	0		T	127451935	T	T	127451935	3	4	20	1	0	0	0	0	1	0	0	0	1597	710	25	2	3603	2	C10orf137	10	127451935	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2542581	127451935	8082812	1005	17727											
BCCIP	56647	broad.mit.edu	37	chr10	127516153	127516153	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaaggctcctgtgaacacTgcagaactaacagatctctt	13	10	7	11	0	1	3	0	1	1	2	3	3	2	3	1	1	4	2	1	1	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:127516153T>C	uc001ljb.3	+	3	290	c.267T>C	c.(265-267)ACT>ACC	p.T89T	BCCIP_uc001ljd.3_Silent_p.T89T|BCCIP_uc010qui.1_Silent_p.T89T|BCCIP_uc001ljc.3_Silent_p.T89T|BCCIP_uc010quj.1_Silent_p.T89T	NM_078468	NP_510868	Q9P287	BCCIP_HUMAN	BRCA2 and CDKN1A-interacting protein isoform	89	Interaction with BRCA2.				cell cycle|DNA repair|neuroendocrine cell differentiation|regulation of cyclin-dependent protein kinase activity	nuclear cyclin-dependent protein kinase holoenzyme complex	kinase regulator activity|protein binding			ovary(1)|breast(1)	2		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				CTGTGAACACTGCAGAACTAA	0.289													3	120					0	0	0.000602	0	0		C	127516153	C	C	127516153	2	2	20	1	0	0	0	0	0	0	0	1	1357	1567	55	3		3	BCCIP	10	127516153	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	64218	127516153	8018594	1006	17728											
FAM196A	642938	broad.mit.edu	37	chr10	128973736	128973736	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggcactgcatcgggggTgagcaggccagggcagtttc	8	6	17	10	1	0	1	0	1	0	0	2	2	0	1	1	5	2	5	1	5	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:128973736T>C	uc001lju.1	-	1	965	c.924A>G	c.(922-924)TCA>TCG	p.S308S	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Silent_p.S308S|FAM196A_uc001ljv.1_Silent_p.S308S|FAM196A_uc009yap.1_Silent_p.S308S	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	308										ovary(2)	2						GCATCGGGGGTGAGCAGGCCA	0.677													6	93					0	0	0.001984	0	0		C	128973736	C	C	128973736	2	2	20	1	0	0	0	0	0	0	0	1	5539	1683	59	3		3	FAM196A	10	128973736	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1457583	128973736	6561011	1007	17729											
TCERG1L	256536	broad.mit.edu	37	chr10	132944832	132944832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcctgttgaggtctccgcGgtccttcaggtccatgggct	4	12	13	12	2	2	1	1	1	1	0	6	2	5	1	4	4	0	2	4	4	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:132944832G>A	uc001lkp.2	-	7	1212	c.1126C>T	c.(1126-1128)CGC>TGC	p.R376C	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	376										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		AGGTCTCCGCGGTCCTTCAGG	0.547													22	47					0	0	0.00278	0	0		A	132944832	A	A	132944832	3	1	20	1	0	0	0	0	1	0	0	0	15711	1116	39	1	658	1	TCERG1L	10	132944832	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3971096	132944832	2589915	1008	17730											
GPR123	84435	broad.mit.edu	37	chr10	134942136	134942136	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctgttcctgttcacggcCacgtgggccttcggggcgct	3	10	14	14	5	1	0	1	0	0	0	3	0	2	0	3	4	0	4	3	4	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:134942136C>T	uc001llx.3	+	7	1240	c.804C>T	c.(802-804)GCC>GCT	p.A268A	GPR123_uc001llw.2_Silent_p.A987A	NM_001083909	NP_001077378	Q86SQ6	GP123_HUMAN	G protein-coupled receptor 123	268	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		TGTTCACGGCCACGTGGGCCT	0.677													4	9					0	0	0.00308	0	0		T	134942136	T	T	134942136	2	4	20	1	0	0	0	0	0	0	0	1	6652	581	21	4		4	GPR123	10	134942136	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1997304	134942136	592611	1009	17731											
TUBGCP2	10844	broad.mit.edu	37	chr10	135093332	135093332	+	Frame_Shift_Del	DEL	G	-	-																															cccccgcaggacaggcacttGgggggtggccttctggctcc																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr10:135093332delG	uc001lmg.1	-	18	3004	c.2647delC	c.(2647-2649)CAAfs	p.Q883fs	ADAM8_uc010quz.1_5'Flank|ADAM8_uc009ybi.2_5'Flank|ADAM8_uc010qva.1_5'Flank|ADAM8_uc009ybj.1_5'Flank|TUBGCP2_uc001lmf.1_Frame_Shift_Del_p.Q476fs|TUBGCP2_uc010qvc.1_Frame_Shift_Del_p.Q911fs|TUBGCP2_uc009ybk.1_Frame_Shift_Del_p.Q906fs|TUBGCP2_uc010qvd.1_Frame_Shift_Del_p.Q753fs|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	883					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		ACAGGCACTTGGGGGGTGGCC	0.657													3	4	---	---	---	---						.	-	135093332	-	-	135093332	7	5	20	1	0	1	0	1	0	0	0	0	16792	1357	47	0	65	0	TUBGCP2	10	135093332	Frame_Shift_Del	DEL	G	TCGA-BR-4362-01A-01D-1158-08	151196	135093332	441415	1010	17732											
NLRP6	171389	broad.mit.edu	37	chr11	281721	281721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgttctgagctactgcGtgaggtgctgccctgctgga	4	12	15	10	1	1	2	0	2	1	0	1	3	1	3	1	3	6	5	1	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:281721G>A	uc010qvs.1	+	4	1987	c.1987G>A	c.(1987-1989)GTG>ATG	p.V663M	NLRP6_uc010qvt.1_Missense_Mutation_p.V663M	NM_138329	NP_612202	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	663						cytoplasm	ATP binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.28e-28)|Epithelial(43;2.47e-27)|OV - Ovarian serous cystadenocarcinoma(40;4.66e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.0485)|LUSC - Lung squamous cell carcinoma(625;0.122)		GAGCTACTGCGTGAGGTGCTG	0.647													36	96					0	0	0.004289	0	0		A	281721	A	A	281721	3	1	20	1	0	0	0	0	1	0	0	0	10500	1145	40	1	2001	1	NLRP6	11	281721	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08		281721	134724795	1011	17733											
PTDSS2	81490	broad.mit.edu	37	chr11	490481	490481	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcagaacaaggatgaccagGgcagcaccgtcggcaacggg	12	2	16	11	3	0	2	0	1	0	1	1	3	0	3	2	5	3	4	2	5	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:490481G>C	uc001lpj.2	+	12	1539	c.1363G>C	c.(1363-1365)GGC>CGC	p.G455R		NM_030783	NP_110410	Q9BVG9	PTSS2_HUMAN	phosphatidylserine synthase 2	455	Cytoplasmic (Potential).					integral to membrane					0		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;2.76e-26)|Epithelial(43;2.56e-25)|OV - Ovarian serous cystadenocarcinoma(40;7.54e-20)|BRCA - Breast invasive adenocarcinoma(625;8.76e-05)|Lung(200;0.0407)|LUSC - Lung squamous cell carcinoma(625;0.0735)	Phosphatidylserine(DB00144)	GGATGACCAGGGCAGCACCGT	0.657													4	35					0	0	0.000602	0	0		C	490481	C	C	490481	3	2	20	1	0	0	0	0	1	0	0	0	12759	1232	43	5	1409	5	PTDSS2	11	490481	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	208760	490481	134516035	1012	17734											
C11orf35	256329	broad.mit.edu	37	chr11	556926	556926	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtgccctatcacctgcacGaaggaaggcaggcccggccg	8	4	15	14	3	1	0	1	0	0	0	1	2	1	1	4	5	2	2	4	5	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:556926G>A	uc001lpx.2	-	8	948	c.885C>T	c.(883-885)TTC>TTT	p.F295F	uc001lpy.2_5'Flank|uc001lpz.2_5'Flank	NM_173573	NP_775844	Q8IXW0	CK035_HUMAN	hypothetical protein LOC256329	295										pancreas(1)	1		all_cancers(49;2.16e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;7.18e-28)|Epithelial(43;6.93e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.97e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TCACCTGCACGAAGGAAGGCA	0.687													2	1					0	0	0.009096	0	0		A	556926	A	A	556926	2	1	20	1	0	0	0	0	0	0	0	1	1641	1049	37	1		1	C11orf35	11	556926	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	66445	556926	134449590	1013	17735											
DEAF1	10522	broad.mit.edu	37	chr11	686886	686886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactgcaagggtcggcccGcgtagcgaatgcttcttttc	6	10	13	12	4	1	0	0	0	1	0	3	1	1	0	1	3	3	4	1	3	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:686886G>A	uc001lqq.1	-	5	1469	c.776C>T	c.(775-777)GCG>GTG	p.A259V	DEAF1_uc009ycf.1_RNA	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	259	SAND.				embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		GGGTCGGCCCGCGTAGCGAAT	0.607													15	39					0	0	0.004007	0	0		A	686886	A	A	686886	3	1	20	1	0	0	0	0	1	0	0	0	4383	1087	38	1	953	1	DEAF1	11	686886	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	129960	686886	134319630	1014	17736											
PDDC1	347862	broad.mit.edu	37	chr11	770899	770899	+	Frame_Shift_Del	DEL	A	-	-																															tgcatctacccagcaggttcAtttcctgcaggacagacgtg																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:770899delA	uc001lrc.2	-	8	686	c.661delT	c.(661-663)TGAfs	p.*221fs	PDDC1_uc001lrb.2_5'Flank|PDDC1_uc010qwm.1_Frame_Shift_Del_p.*171fs|PDDC1_uc001lrd.2_Intron|PDDC1_uc001lrf.1_3'UTR|PDDC1_uc001lrg.1_RNA|PDDC1_uc009ycg.2_3'UTR|PDDC1_uc010qwn.1_RNA|PDDC1_uc010qwo.1_RNA|PDDC1_uc010qwp.1_3'UTR|PDDC1_uc010qwq.1_3'UTR|PDDC1_uc010qwr.1_3'UTR|PDDC1_uc010qws.1_3'UTR	NM_182612	NP_872418	Q8NB37	PDDC1_HUMAN	Parkinson disease 7 domain containing 1	221						extracellular region					0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;3.66e-26)|Epithelial(43;2.43e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-19)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CAGCAGGTTCATTTCCTGCAG	0.627													47	108	---	---	---	---						.	-	770899	-	-	770899	7	5	20	1	0	1	0	1	0	0	0	0	11648	230	8	0	5	0	PDDC1	11	770899	Frame_Shift_Del	DEL	A	TCGA-BR-4362-01A-01D-1158-08	84013	770899	134235617	1015	17737											
MUC6	4588	broad.mit.edu	37	chr11	1018712	1018712	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgcttgctggggttggAcgtgggcctgtcgtctgggt	1	13	20	7	2	1	0	0	0	1	0	2	1	1	1	1	6	2	3	1	6	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:1018712A>G	uc001lsw.2	-	31	4140	c.4089T>C	c.(4087-4089)CGT>CGC	p.R1363R		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1363	Pro-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CTGGGGTTGGACGTGGGCCTG	0.537													37	147					0	0	0.006999	0	0		G	1018712	G	G	1018712	2	3	20	1	0	0	0	0	0	0	0	1	9998	262	10	3		3	MUC6	11	1018712	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	247813	1018712	133987804	1016	17738											
MUC6	4588	broad.mit.edu	37	chr11	1025193	1025193	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcggtacctgggaggcacGggcgatcctgatgaggatgg	7	7	19	8	3	0	2	0	2	0	0	1	5	1	4	2	6	2	2	2	6	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:1025193G>T	uc001lsw.2	-	23	3025	c.2974C>A	c.(2974-2976)CGT>AGT	p.R992S		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	992	VWFD 3.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGGGAGGCACGGGCGATCCTG	0.667													40	110					6.7651e-33	7.31297e-33	0.01441	1	0		T	1025193	T	T	1025193	3	4	20	1	0	0	0	0	1	0	0	0	9998	1116	39	5	4389	5	MUC6	11	1025193	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6481	1025193	133981323	1017	17739											
MUC6	4588	broad.mit.edu	37	chr11	1027354	1027354	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcactgggccttgcgcacAcactcgcccttttggttcag	5	10	12	14	2	1	0	1	0	0	0	2	0	1	0	2	3	1	3	2	3	0	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:1027354A>G	uc001lsw.2	-	17	2196	c.2145T>C	c.(2143-2145)TGT>TGC	p.C715C		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	715					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCTTGCGCACACACTCGCCCT	0.637													7	212					0	0	0.001984	0	0		G	1027354	G	G	1027354	2	3	20	1	0	0	0	0	0	0	0	1	9998	157	6	3		3	MUC6	11	1027354	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2161	1027354	133979162	1018	17740											
MUC2	4583	broad.mit.edu	37	chr11	1088727	1088727	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccccggtgccccaaggacaGgcccatctatgaggaggatc	9	5	12	15	1	1	1	0	1	1	0	2	4	1	4	5	5	1	0	5	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:1088727G>T	uc001lsx.1	+	26	3539	c.3512G>T	c.(3511-3513)AGG>ATG	p.R1171M		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	1171						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	CCCAAGGACAGGCCCATCTAT	0.622													3	14					2.56e-06	2.63625e-06	0.009096	1	0		T	1088727	T	T	1088727	3	4	20	1	0	0	0	0	1	0	0	0	9993	1000	35	5	3614	5	MUC2	11	1088727	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	61373	1088727	133917789	1019	17741											
MUC5B	727897	broad.mit.edu	37	chr11	1263838	1263838	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgacctggatcctcacaaagCcgaccacaacagccactacg	13	4	7	17	3	1	0	1	0	0	0	2	3	2	1	5	1	4	0	5	1	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:1263838C>A	uc009ycr.1	+	47	7933	c.7807C>A	c.(7807-7809)CCG>ACG	p.P2603T	MUC5B_uc001ltb.2_Missense_Mutation_p.P1913T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1910	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCTCACAAAGCCGACCACAAC	0.647													17	58					1.02788e-11	1.08282e-11	0.00499	1	0		A	1263838	A	A	1263838	3	1	20	1	0	0	0	0	1	0	0	0	9997	739	26	5	5859	5	MUC5B	11	1263838	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	175111	1263838	133742678	1020	17742											
MUC5B	727897	broad.mit.edu	37	chr11	1264717	1264717	+	Frame_Shift_Del	DEL	C	-	-																															ccacacacgggcgatccctgCcccccagcagtccccacacg																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:1264717delC	uc009ycr.1	+	48	8647	c.8521delC	c.(8521-8523)CCCfs	p.P2841fs	MUC5B_uc001ltb.2_Frame_Shift_Del_p.P2206fs	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2203	7 X Cys-rich subdomain repeats.|Thr-rich.			P -> S (in Ref. 4; CAA96577).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GCGATCCCTGCCCCCCAGCAG	0.602													11	18	---	---	---	---						.	-	1264717	-	-	1264717	7	5	20	1	0	1	0	1	0	0	0	0	9997	739	26	0	6738	0	MUC5B	11	1264717	Frame_Shift_Del	DEL	C	TCGA-BR-4362-01A-01D-1158-08	879	1264717	133741799	1021	17743											
KRTAP5-5	439915	broad.mit.edu	37	chr11	1651484	1651484	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggggggtccaaggggggCtgtggctcctgtggggggtc	2	9	23	7	0	0	0	0	0	0	0	3	0	2	0	2	10	0	2	2	10	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:1651484C>A	uc001lty.2	+	1	452	c.414C>A	c.(412-414)GGC>GGA	p.G138G		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	138	8 X 4 AA repeats of C-C-X-P.					keratin filament				lung(1)	1		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		CCAAGGGGGGCTGTGGCTCCT	0.692													5	22					6.31663e-08	6.56245e-08	0.003163	1	0		A	1651484	A	A	1651484	2	1	20	1	0	0	0	0	0	0	0	1	8580	784	28	5		5	KRTAP5-5	11	1651484	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	386767	1651484	133355032	1022	17744											
TSSC4	10078	broad.mit.edu	37	chr11	2424179	2424179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggagggggcggccagaCgggctccatcctctgtggcc	4	6	17	14	2	1	1	0	0	1	1	3	2	3	2	5	6	0	1	5	6	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:2424179C>T	uc001lwj.2	+	4	677	c.316C>T	c.(316-318)CGG>TGG	p.R106W	TSSC4_uc001lwi.2_Missense_Mutation_p.R42W|TSSC4_uc001lwk.2_Missense_Mutation_p.R106W|TSSC4_uc001lwl.2_Missense_Mutation_p.R106W	NM_005706	NP_005697	Q9Y5U2	TSSC4_HUMAN	tumor suppressing subtransferable candidate 4	106											0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.00145)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGCGGCCAGACGGGCTCCATC	0.657													7	10					0	0	0.008291	0	0		T	2424179	T	T	2424179	3	4	20	1	0	0	0	0	1	0	0	0	16693	527	19	1	318	1	TSSC4	11	2424179	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	772695	2424179	132582337	1023	17745											
CHRNA10	57053	broad.mit.edu	37	chr11	3687702	3687702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcccaggctggcactgggcGgacactgggaccacagtaat	10	5	14	12	1	0	0	0	0	0	0	0	2	0	2	2	5	1	3	2	5	1	1	rs147793274	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:3687702G>A	uc001lyf.2	-	5	1060	c.988C>T	c.(988-990)CGC>TGC	p.R330C	CHRNA10_uc010qxt.1_Missense_Mutation_p.R124C|CHRNA10_uc010qxu.1_Missense_Mutation_p.R124C	NM_020402	NP_065135	Q9GZZ6	ACH10_HUMAN	cholinergic receptor, nicotinic, alpha 10	330	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|regulation of cell proliferation|synaptic transmission, cholinergic	cell junction|postsynaptic membrane	calcium channel activity|receptor activity|receptor binding			ovary(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0164)|all_neural(188;0.0577)		BRCA - Breast invasive adenocarcinoma(625;0.0344)|LUSC - Lung squamous cell carcinoma(625;0.192)	Chloroprocaine(DB01161)|Methadone(DB00333)|Nicotine(DB00184)|Pentolinium(DB01090)|Procaine(DB00721)|Trimethaphan(DB01116)	GGCACTGGGCGGACACTGGGA	0.607													15	70					0	0	0.006122	0	0		A	3687702	A	A	3687702	3	1	20	1	0	0	0	0	1	0	0	0	3385	1116	39	1	368	1	CHRNA10	11	3687702	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1263523	3687702	131318814	1024	17746											
NUP98	4928	broad.mit.edu	37	chr11	3744527	3744527	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttaatgcaacaatggtaTcatccacactgttgctgttg	10	15	8	8	0	1	0	1	0	0	0	2	0	2	0	1	1	3	6	1	1	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:3744527T>C	uc001lyh.2	-	16	2297	c.2006A>G	c.(2005-2007)GAT>GGT	p.D669G	NUP98_uc001lyi.2_Missense_Mutation_p.D669G|NUP98_uc001lyj.1_Missense_Mutation_p.D669G|NUP98_uc001lyk.1_Missense_Mutation_p.D686G	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	686					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		AACAATGGTATCATCCACACT	0.428			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								5	94					0	0	0.000602	0	0		C	3744527	C	C	3744527	3	2	20	1	0	0	0	0	1	0	0	0	10792	1435	50	3	3489	3	NUP98	11	3744527	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	56825	3744527	131261989	1025	17747											
PGAP2	27315	broad.mit.edu	37	chr11	3845180	3845180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccagcgctacgtgtggcGtttctgcatcggcctgcact	4	10	12	15	4	1	0	0	0	1	0	2	0	1	0	3	2	4	4	3	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:3845180G>A	uc001lys.2	+	4	542	c.416G>A	c.(415-417)CGT>CAT	p.R139H	PGAP2_uc001lyl.2_Missense_Mutation_p.R96H|PGAP2_uc010qxw.1_Missense_Mutation_p.R196H|PGAP2_uc010qxx.1_Silent_p.A119A|PGAP2_uc001lyp.3_Intron|PGAP2_uc010qxy.1_Missense_Mutation_p.R135H|PGAP2_uc010qxz.1_Missense_Mutation_p.R135H|PGAP2_uc001lyn.3_Silent_p.A31A|PGAP2_uc010qya.1_RNA|PGAP2_uc001lyr.2_Missense_Mutation_p.R78H|PGAP2_uc010qyb.1_Silent_p.A81A|PGAP2_uc001lyt.2_5'UTR	NM_014489	NP_055304	Q9UHJ9	PGAP2_HUMAN	FGF receptor activating protein 1 isoform 1	139					GPI anchor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein transporter activity				0						TACGTGTGGCGTTTCTGCATC	0.637													40	81					0	0	0.009718	0	0		A	3845180	A	A	3845180	3	1	20	1	0	0	0	0	1	0	0	0	11797	1145	40	1	605	1	PGAP2	11	3845180	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	100653	3845180	131161336	1026	17748											
STIM1	6786	broad.mit.edu	37	chr11	4091365	4091367	+	In_Frame_Del	DEL	GAA	-	-																															cgttactccaaggagcacatGaagaagatgatgaaggactt																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:4091365_4091367delGAA	uc001lyv.2	+	6	1291_1293	c.723_725delGAA	c.(721-726)ATGAAG>ATG	p.K243del	STIM1_uc009yef.2_In_Frame_Del_p.K243del|STIM1_uc009yeg.2_In_Frame_Del_p.K70del	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	243	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		AGGAGCACATGAAGAAGATGATG	0.517													35	77	---	---	---	---						.	-	4091367	-	-	4091365	7	5	20	1	0	1	0	1	0	0	0	0	15308	1290	45	0	745	0	STIM1	11	4091365	In_Frame_Del	DEL	GAA	TCGA-BR-4362-01A-01D-1158-08	246185	4091365	130915151	1027	17749											
OR52K2	119774	broad.mit.edu	37	chr11	4470698	4470698	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatacactggccctgcttggAaactgcactctccttctcat	8	13	6	14	0	2	0	1	0	2	0	4	1	2	1	2	2	4	2	2	2	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:4470698A>C	uc001lyz.1	+	1	129	c.129A>C	c.(127-129)GGA>GGC	p.G43G		NM_001005172	NP_001005172	Q8NGK3	O52K2_HUMAN	olfactory receptor, family 52, subfamily K,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.G43E(1)		skin(2)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.48e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0821)|LUSC - Lung squamous cell carcinoma(625;0.19)		CCCTGCTTGGAAACTGCACTC	0.532													8	138					0	0	0.005443	0	0		C	4470698	C	C	4470698	2	2	20	1	0	0	0	0	0	0	0	1	11143	233	9	5		5	OR52K2	11	4470698	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	379333	4470698	130535818	1028	17750											
OR52E8	390079	broad.mit.edu	37	chr11	5878374	5878374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagacgggcaatgcccatgtGctcacaataagtatgaggga	13	7	12	9	1	1	2	1	1	0	1	1	3	1	3	1	2	2	3	1	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:5878374G>A	uc010qzr.1	-	1	559	c.559C>T	c.(559-561)CAC>TAC	p.H187Y	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATGCCCATGTGCTCACAATAA	0.483													29	88					0	0	0.00632	0	0		A	5878374	A	A	5878374	3	1	20	1	0	0	0	0	1	0	0	0	11137	1319	46	2	396	2	OR52E8	11	5878374	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1407676	5878374	129128142	1029	17751											
OR52L1	338751	broad.mit.edu	37	chr11	6007283	6007283	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagataccatgtggccagaAgaacatggacatgatggggt	13	7	15	6	0	0	4	0	1	0	3	0	6	0	5	2	5	2	0	2	5	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:6007283A>T	uc001mcd.2	-	1	933	c.878T>A	c.(877-879)CTT>CAT	p.L293H		NM_001005173	NP_001005173	Q8NGH7	O52L1_HUMAN	olfactory receptor, family 52, subfamily L,	293	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.98e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGTGGCCAGAAGAACATGGAC	0.498													4	18					0	0	0.009096	0	0		T	6007283	T	T	6007283	3	4	20	1	0	0	0	0	1	0	0	0	11144	72	3	5	115	5	OR52L1	11	6007283	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	128909	6007283	128999233	1030	17752											
OR52L1	338751	broad.mit.edu	37	chr11	6007474	6007474	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggaaacaccaatggccagAacatccagcccaatcacaag	17	4	7	13	0	1	1	1	0	0	1	2	2	2	2	4	2	3	0	4	2	6	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:6007474A>G	uc001mcd.2	-	1	742	c.687T>C	c.(685-687)GTT>GTC	p.V229V		NM_001005173	NP_001005173	Q8NGH7	O52L1_HUMAN	olfactory receptor, family 52, subfamily L,	229	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.98e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAATGGCCAGAACATCCAGCC	0.507													3	105					0	0	0.004672	0	0		G	6007474	G	G	6007474	2	3	20	1	0	0	0	0	0	0	0	1	11144	233	9	3		3	OR52L1	11	6007474	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	191	6007474	128999042	1031	17753											
CNGA4	1262	broad.mit.edu	37	chr11	6265475	6265475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctgagctggagtccagcGcacttaagattgcttaccgc	8	10	12	11	2	0	2	0	1	0	1	1	3	1	3	2	2	4	4	2	2	2	3	rs149747380		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:6265475G>A	uc001mco.2	+	6	1671	c.1564G>A	c.(1564-1566)GCA>ACA	p.A522T	CNGA4_uc010raa.1_3'UTR|CNGA4_uc001mcn.2_3'UTR	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	522	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGAGTCCAGCGCACTTAAGAT	0.602													13	51					0	0	0.003163	0	0		A	6265475	A	A	6265475	3	1	20	1	0	0	0	0	1	0	0	0	3602	1087	38	1	1586	1	CNGA4	11	6265475	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	258001	6265475	128741041	1032	17754											
DCHS1	8642	broad.mit.edu	37	chr11	6645998	6645998	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaagccatcggcaggggaAgccaggtggtaggaaatgtg	11	6	17	7	1	0	1	0	1	0	0	1	3	0	3	2	6	2	2	2	6	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:6645998A>C	uc001mem.1	-	20	7658	c.7248T>G	c.(7246-7248)GCT>GCG	p.A2416A		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	2416	Cadherin 23.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CGGCAGGGGAAGCCAGGTGGT	0.557													6	17					0	0	0.001168	0	0		C	6645998	C	C	6645998	2	2	20	1	0	0	0	0	0	0	0	1	4290	59	3	5		5	DCHS1	11	6645998	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	380523	6645998	128360518	1033	17755											
DCHS1	8642	broad.mit.edu	37	chr11	6655431	6655431	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttgtgcacacatcaccgCtgtgggcatcaatgcggaat	9	9	13	10	2	2	0	2	0	0	0	2	1	2	1	1	3	2	4	1	3	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:6655431C>A	uc001mem.1	-	3	2314	c.1904G>T	c.(1903-1905)AGC>ATC	p.S635I		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	635	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CACATCACCGCTGTGGGCATC	0.592													37	76					1.47244e-24	1.58277e-24	0.00623	1	0		A	6655431	A	A	6655431	3	1	20	1	0	0	0	0	1	0	0	0	4290	797	28	5	8068	5	DCHS1	11	6655431	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	9433	6655431	128351085	1034	17756											
SYT9	143425	broad.mit.edu	37	chr11	7324420	7324420	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacaacaaccaggagccccTtaactacatggacacagaga	17	4	8	12	0	0	2	0	0	0	2	0	5	0	4	3	2	5	0	3	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:7324420T>G	uc001mfe.2	+	2	533	c.296T>G	c.(295-297)CTT>CGT	p.L99R	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_RNA	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	99	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		CAGGAGCCCCTTAACTACATG	0.552													39	110					0	0	0.010771	0	0		G	7324420	G	G	7324420	3	3	20	1	0	0	0	0	1	0	0	0	15506	1609	56	5	302	5	SYT9	11	7324420	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	668989	7324420	127682096	1035	17757											
SBF2	81846	broad.mit.edu	37	chr11	9983568	9983568	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatggtctaatattgcccggTtttgctggacatgcaaaccc	9	12	10	10	1	1	0	0	0	1	0	1	2	1	1	2	3	4	3	2	3	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:9983568T>G	uc001mib.2	-	16	1934	c.1796A>C	c.(1795-1797)AAC>ACC	p.N599T	SBF2_uc001mif.3_Missense_Mutation_p.N355T|SBF2_uc001mih.3_Missense_Mutation_p.N128T	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	599					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		TATTGCCCGGTTTTGCTGGAC	0.413													30	76					0	0	0.009535	0	0		G	9983568	G	G	9983568	3	3	20	1	0	0	0	0	1	0	0	0	13884	1725	60	5	3853	5	SBF2	11	9983568	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2659148	9983568	125022948	1036	17758											
SBF2	81846	broad.mit.edu	37	chr11	10022471	10022471	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatacttacaagttcatggAcatcagttttaaagacagaa	17	11	7	6	0	2	2	2	0	0	2	2	4	2	3	0	1	2	2	0	1	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:10022471A>T	uc001mib.2	-	8	989	c.851T>A	c.(850-852)GTC>GAC	p.V284D	SBF2_uc001mif.3_Missense_Mutation_p.V40D	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	284	DENN.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		AAGTTCATGGACATCAGTTTT	0.358													11	48					0	0	0.013537	0	0		T	10022471	T	T	10022471	3	4	20	1	0	0	0	0	1	0	0	0	13884	275	10	5	4830	5	SBF2	11	10022471	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	38903	10022471	124984045	1037	17759											
GALNTL4	374378	broad.mit.edu	37	chr11	11354360	11354360	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccttgcagtgatgtcccCaatgtcaattcctgagtcct	7	14	7	13	0	1	2	1	2	0	0	5	2	5	2	5	0	1	1	5	0	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:11354360C>A	uc001mjo.2	-	8	1718	c.1297G>T	c.(1297-1299)GGG>TGG	p.G433W		NM_198516	NP_940918	Q6P9A2	GLTL4_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	433	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)		GTGATGTCCCCAATGTCAATT	0.542													5	57					3.86212e-05	3.95975e-05	0.008291	1	0		A	11354360	A	A	11354360	3	1	20	1	0	0	0	0	1	0	0	0	6238	594	21	5	542	5	GALNTL4	11	11354360	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1331889	11354360	123652156	1038	17760											
USP47	55031	broad.mit.edu	37	chr11	11926990	11926990	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaggcaagctgaaggactaCgtgagatgtctggaatgtgg	12	8	15	6	1	1	2	0	2	1	1	1	5	1	4	0	4	2	2	0	4	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:11926990C>T	uc001mjq.1	+	9	1687	c.924C>T	c.(922-924)TAC>TAT	p.Y308Y	USP47_uc001mjr.2_Silent_p.Y220Y|USP47_uc001mjs.2_Silent_p.Y288Y	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	308					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		TGAAGGACTACGTGAGATGTC	0.368													20	55					0	0	0.010504	0	0		T	11926990	T	T	11926990	2	4	20	1	0	0	0	0	0	0	0	1	17104	547	19	1		1	USP47	11	11926990	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	572630	11926990	123079526	1039	17761											
USP47	55031	broad.mit.edu	37	chr11	11977643	11977643	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagaagactggacatcgtgTaacatactcacctcgtaaag	14	8	8	11	2	1	2	1	0	0	2	3	3	1	3	2	1	2	2	2	1	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:11977643T>C	uc001mjs.2	+	28	4752	c.3989T>C	c.(3988-3990)GTA>GCA	p.V1330A	USP47_uc001mjr.2_Missense_Mutation_p.V1262A|USP47_uc009ygi.2_Missense_Mutation_p.V132A	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	1350					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		GGACATCGTGTAACATACTCA	0.373													3	142					0	0	0.009096	0	0		C	11977643	C	C	11977643	3	2	20	1	0	0	0	0	1	0	0	0	17104	1638	57	3	3891	3	USP47	11	11977643	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	50653	11977643	123028873	1040	17762											
INSC	387755	broad.mit.edu	37	chr11	15222403	15222403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcactcttcaaggtttgcCggcaggacagtttccggtgc	7	11	12	11	2	2	0	1	0	1	0	3	1	3	1	2	4	3	4	2	4	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:15222403C>T	uc001mly.2	+	7	914	c.868C>T	c.(868-870)CGG>TGG	p.R290W	INSC_uc001mlz.2_Missense_Mutation_p.R243W|INSC_uc001mma.2_Missense_Mutation_p.R243W|INSC_uc010rcs.1_Missense_Mutation_p.R278W|INSC_uc001mmb.2_Missense_Mutation_p.R243W|INSC_uc001mmc.2_Intron	NM_001031853	NP_001027024	Q1MX18	INSC_HUMAN	inscuteable isoform a	290					cell differentiation|nervous system development	cytoplasm	binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)	5						CAAGGTTTGCCGGCAGGACAG	0.557													6	39					0	0	0.00308	0	0		T	15222403	T	T	15222403	3	4	20	1	0	0	0	0	1	0	0	0	7780	643	23	1	894	1	INSC	11	15222403	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3244760	15222403	119784113	1041	17763											
C11orf58	10944	broad.mit.edu	37	chr11	16769659	16769659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatagaaagaacatactggtCgtcttgttataggagatcac	14	12	9	6	1	2	3	1	0	1	3	3	4	2	3	0	2	2	1	0	2	7	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:16769659C>T	uc001mmk.2	+	3	341	c.163C>T	c.(163-165)CGT>TGT	p.R55C	C11orf58_uc010rct.1_Missense_Mutation_p.R11C	NM_014267	NP_055082	O00193	SMAP_HUMAN	small acidic protein isoform a	55											0						ACATACTGGTCGTCTTGTTAT	0.249													18	47					0	0	0.008871	0	0		T	16769659	T	T	16769659	3	4	20	1	0	0	0	0	1	0	0	0	1654	884	31	1	173	1	C11orf58	11	16769659	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1547256	16769659	118236857	1042	17764											
GTF2H1	2965	broad.mit.edu	37	chr11	18369452	18369452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagatgcagactgctttcagCcagcagtcaaaagggtatgg	12	8	13	8	0	2	2	2	0	0	2	2	3	2	2	1	2	4	4	1	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:18369452C>T	uc001moi.2	+	10	1733	c.1039C>T	c.(1039-1041)CCA>TCA	p.P347S	GTF2H1_uc001moh.2_Missense_Mutation_p.P347S|GTF2H1_uc009yhm.2_Missense_Mutation_p.P231S|GTF2H1_uc001moj.2_Missense_Mutation_p.P35S	NM_001142307	NP_001135779	P32780	TF2H1_HUMAN	general transcription factor IIH, polypeptide 1,	347					mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	protein binding				0						CTGCTTTCAGCCAGCAGTCAA	0.393								NER					18	54					0	0	0.00499	0	0		T	18369452	T	T	18369452	3	4	20	1	0	0	0	0	1	0	0	0	6876	739	26	2	1069	2	GTF2H1	11	18369452	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1599793	18369452	116637064	1043	17765											
SPTY2D1	144108	broad.mit.edu	37	chr11	18637193	18637193	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttttctcctatgctttcGttcaaggaattctcgctccc	5	19	5	12	2	3	0	1	0	2	0	7	1	4	1	2	1	1	3	2	1	3	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:18637193G>A	uc001moy.2	-	3	844	c.628C>T	c.(628-630)CGA>TGA	p.R210*	SPTY2D1_uc010rdi.1_Nonsense_Mutation_p.R210*	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	210										breast(1)	1						CTATGCTTTCGTTCAAGGAAT	0.428													83	246					0	0	0.01441	0	0		A	18637193	A	A	18637193	4	1	20	1	0	0	0	0	0	1	0	0	15151	1153	40	1	1445	1	SPTY2D1	11	18637193	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	267741	18637193	116369323	1044	17766											
E2F8	79733	broad.mit.edu	37	chr11	19259637	19259637	+	Frame_Shift_Del	DEL	T	-	-																															ggtggattctttcagaggtgTtttcattagtccccttttat																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:19259637delT	uc001mpm.2	-	3	580	c.58delA	c.(58-60)ACAfs	p.T20fs	E2F8_uc009yhv.2_RNA|E2F8_uc001mpn.3_Frame_Shift_Del_p.T20fs|E2F8_uc001mpo.1_Frame_Shift_Del_p.T20fs	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	20					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						TTCAGAGGTGTTTTCATTAGT	0.408													28	60	---	---	---	---						.	-	19259637	-	-	19259637	7	5	20	1	0	1	0	1	0	0	0	0	4879	1725	60	0	2589	0	E2F8	11	19259637	Frame_Shift_Del	DEL	T	TCGA-BR-4362-01A-01D-1158-08	622444	19259637	115746879	1045	17767											
NAV2	89797	broad.mit.edu	37	chr11	19955098	19955098	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggagactctgcccagcttCgaagagagcgaggagctgga	10	6	15	10	2	1	2	0	0	1	2	2	8	1	4	1	3	4	2	1	3	1	1	rs113762718		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:19955098C>T	uc010rdm.1	+	8	1738	c.1377C>T	c.(1375-1377)TTC>TTT	p.F459F	NAV2_uc001mpp.2_Silent_p.F372F|NAV2_uc001mpr.3_Silent_p.F436F	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	459						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						TGCCCAGCTTCGAAGAGAGCG	0.612													14	38					0	0	0.008871	0	0		T	19955098	T	T	19955098	2	4	20	1	0	0	0	0	0	0	0	1	10202	883	31	1		1	NAV2	11	19955098	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	695461	19955098	115051418	1046	17768											
PRMT3	10196	broad.mit.edu	37	chr11	20424486	20424486	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaaatacgaacagaaagcTaccgagatttcatataccaa	20	7	5	9	2	1	2	1	0	0	2	1	4	1	2	2	0	5	1	2	0	9	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:20424486T>C	uc001mqb.2	+	8	944	c.727T>C	c.(727-729)TAC>CAC	p.Y243H	PRMT3_uc001mqc.2_Missense_Mutation_p.Y166H|PRMT3_uc010rdn.1_Missense_Mutation_p.Y181H	NM_005788	NP_005779	O60678	ANM3_HUMAN	protein arginine methyltransferase 3 isoform 1	243							zinc ion binding				0						AACAGAAAGCTACCGAGATTT	0.338													13	141					0	0	0.004007	0	0		C	20424486	C	C	20424486	3	2	20	1	0	0	0	0	1	0	0	0	12560	1522	53	3	757	3	PRMT3	11	20424486	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	469388	20424486	114582030	1047	17769											
ANO5	203859	broad.mit.edu	37	chr11	22296189	22296189	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttactcaacaaatgccacAcagcctatgacaggatatgt	14	9	7	11	0	1	1	1	1	0	0	1	2	1	2	2	1	4	1	2	1	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:22296189A>G	uc001mqi.2	+	20	2627	c.2310A>G	c.(2308-2310)ACA>ACG	p.T770T	ANO5_uc001mqj.2_Silent_p.T769T	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	770	Extracellular (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						CAAATGCCACACAGCCTATGA	0.388													4	118					0	0	0.000602	0	0		G	22296189	G	G	22296189	2	3	20	1	0	0	0	0	0	0	0	1	700	146	6	3		3	ANO5	11	22296189	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1871703	22296189	112710327	1048	17770											
CCDC73	493860	broad.mit.edu	37	chr11	32635417	32635417	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtggcttcagttacctgaTtctcatcaatctgattcttt	7	19	6	9	0	5	2	3	2	3	0	6	2	5	2	1	1	1	2	1	1	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:32635417T>A	uc001mtv.2	-	16	2491	c.2447A>T	c.(2446-2448)AAT>ATT	p.N816I		NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	816										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					AGTTACCTGATTCTCATCAAT	0.333													25	108					0	0	0.00333	0	0		A	32635417	A	A	32635417	3	1	20	1	0	0	0	0	1	0	0	0	2849	1493	52	5	804	5	CCDC73	11	32635417	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	10339228	32635417	102371099	1049	17771											
QSER1	79832	broad.mit.edu	37	chr11	32953933	32953933	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccactcaggtgagcaacggaGgattacaacagaagacctcc	14	5	10	12	1	1	3	1	1	0	2	2	5	2	5	3	3	4	1	3	3	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:32953933G>T	uc001mty.2	+	4	1009	c.742G>T	c.(742-744)GGA>TGA	p.G248*	QSER1_uc001mtz.1_Intron|QSER1_uc001mua.2_5'Flank	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	248	Ser-rich.									ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					GAGCAACGGAGGATTACAACA	0.418													25	76					5.77227e-19	6.17016e-19	0.008361	1	0		T	32953933	T	T	32953933	4	4	20	1	0	0	0	0	0	1	0	0	12907	1001	35	5	748	5	QSER1	11	32953933	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	318516	32953933	102052583	1050	17772											
DEPDC7	91614	broad.mit.edu	37	chr11	33050184	33050184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagaagaaacaattgggCgtctactacaacttgtagac	15	8	10	8	1	1	3	0	0	1	3	1	3	1	3	0	2	4	2	0	2	8	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:33050184C>T	uc001mub.2	+	4	720	c.628C>T	c.(628-630)CGT>TGT	p.R210C	DEPDC7_uc001muc.2_Missense_Mutation_p.R201C	NM_001077242	NP_001070710	Q96QD5	DEPD7_HUMAN	novel 58.3 KDA protein isoform 1	210					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|skin(1)	2						AACAATTGGGCGTCTACTACA	0.383													29	59					0	0	0.007291	0	0		T	33050184	T	T	33050184	3	4	20	1	0	0	0	0	1	0	0	0	4450	768	27	1	692	1	DEPDC7	11	33050184	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	96251	33050184	101956332	1051	17773											
NAT10	55226	broad.mit.edu	37	chr11	34145925	34145925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatcagagtgaatgtatttcGagaacacaggcagactattc	14	10	10	7	1	1	4	1	1	0	3	3	6	1	4	0	1	1	2	0	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:34145925G>A	uc001mvk.2	+	11	1329	c.1085G>A	c.(1084-1086)CGA>CAA	p.R362Q	NAT10_uc010ren.1_Missense_Mutation_p.R290Q	NM_024662	NP_078938	Q9H0A0	NAT10_HUMAN	N-acetyltransferase 10 isoform a	362						nucleolus	ATP binding|N-acetyltransferase activity|protein binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0119)|all_hematologic(20;0.0231)				AATGTATTTCGAGAACACAGG	0.433													33	97					0	0	0.003271	0	0		A	34145925	A	A	34145925	3	1	20	1	0	0	0	0	1	0	0	0	10192	1058	37	1	1123	1	NAT10	11	34145925	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1095741	34145925	100860591	1052	17774											
ABTB2	25841	broad.mit.edu	37	chr11	34181842	34181842	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctctgggatgctggggatgGgactgctgccatagcagtgg	6	10	17	8	0	1	0	0	0	1	0	2	3	1	3	1	5	4	3	1	5	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:34181842G>T	uc001mvl.1	-	12	2128	c.1898C>A	c.(1897-1899)CCC>CAC	p.P633H		NM_145804	NP_665803	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing	633							DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)				GCTGGGGATGGGACTGCTGCC	0.652													6	26					4.68919e-08	4.87648e-08	0.008291	1	0		T	34181842	T	T	34181842	3	4	20	1	0	0	0	0	1	0	0	0	103	1232	43	5	645	5	ABTB2	11	34181842	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	35917	34181842	100824674	1053	17775											
SLC1A2	6506	broad.mit.edu	37	chr11	35333945	35333945	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggacatgtaatacaccaTggctctcgtgcccaagcggc	9	8	11	13	3	1	0	0	0	1	0	2	1	1	1	2	3	3	2	2	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:35333945T>C	uc001mwd.2	-	4	953	c.361A>G	c.(361-363)ATG>GTG	p.M121V	SLC1A2_uc001mwe.2_Missense_Mutation_p.M112V|SLC1A2_uc010rev.1_Missense_Mutation_p.M121V	NM_004171	NP_004162	P43004	EAA2_HUMAN	excitatory amino acid transporter 2	121	Helical; (Potential).				D-aspartate import|L-glutamate import|synaptic transmission	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|central_nervous_system(1)	3	all_lung(20;0.211)|all_epithelial(35;0.234)	all_hematologic(20;0.109)	STAD - Stomach adenocarcinoma(6;0.00731)		L-Glutamic Acid(DB00142)	TAATACACCATGGCTCTCGTG	0.498													4	117					0	0	0.009096	0	0		C	35333945	C	C	35333945	3	2	20	1	0	0	0	0	1	0	0	0	14457	1464	51	3	1395	3	SLC1A2	11	35333945	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1152103	35333945	99672571	1054	17776											
ACCSL	390110	broad.mit.edu	37	chr11	44074571	44074571	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaacacccatcctttccagCtcactgtggacaagttagag	12	9	7	13	0	1	1	1	0	0	1	3	2	3	2	3	1	2	2	3	1	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:44074571C>T	uc001mxw.1	+	7	957	c.901C>T	c.(901-903)CTC>TTC	p.L301F	ACCSL_uc009ykr.2_Missense_Mutation_p.L120F	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	301							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						TCCTTTCCAGCTCACTGTGGA	0.458													34	70					0	0	0.004289	0	0		T	44074571	T	T	44074571	3	4	20	1	0	0	0	0	1	0	0	0	134	797	28	2	927	2	ACCSL	11	44074571	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	8740626	44074571	90931945	1055	17777											
CD82	3732	broad.mit.edu	37	chr11	44626950	44626950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcattgcccaggtgacggccGgggccctcttctacttcaac	6	10	10	15	2	4	1	2	1	2	0	4	1	4	1	3	4	3	0	3	4	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:44626950G>A	uc001myc.2	+	6	555	c.307G>A	c.(307-309)GGG>AGG	p.G103R	CD82_uc001myd.2_Intron	NM_002231	NP_002222	P27701	CD82_HUMAN	CD82 antigen isoform 1	103	Helical; (Potential).					integral to plasma membrane	protein binding			ovary(1)	1						GGTGACGGCCGGGGCCCTCTT	0.602													15	61					0	0	0.006122	0	0		A	44626950	A	A	44626950	3	1	20	1	0	0	0	0	1	0	0	0	3043	1116	39	1	321	1	CD82	11	44626950	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	552379	44626950	90379566	1056	17778											
CHST1	8534	broad.mit.edu	37	chr11	45671304	45671304	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttcttcagctcctcctcCgaggcggcgatcttgtagcc	4	11	12	14	3	3	0	1	0	2	0	6	2	6	0	4	3	2	3	4	3	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:45671304C>T	uc001mys.1	-	4	1841	c.1170G>A	c.(1168-1170)TCG>TCA	p.S390S		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	390	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		GCTCCTCCTCCGAGGCGGCGA	0.692													25	58					0	0	0.007291	0	0		T	45671304	T	T	45671304	2	4	20	1	0	0	0	0	0	0	0	1	3400	639	23	1		1	CHST1	11	45671304	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1044354	45671304	89335212	1057	17779											
CREB3L1	90993	broad.mit.edu	37	chr11	46334005	46334005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggccttgaagagagtcCggaggaaaatcaagaacaag	18	4	13	6	1	1	4	1	1	0	3	2	7	2	6	2	3	1	0	2	3	7	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:46334005C>T	uc001ncf.2	+	6	1318	c.883C>T	c.(883-885)CGG>TGG	p.R295W		NM_052854	NP_443086	Q96BA8	CR3L1_HUMAN	cAMP responsive element binding protein 3-like	295	Cytoplasmic (Potential).|Basic motif.				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		FUS/CREB3L1(6)	soft_tissue(6)|ovary(2)	8				GBM - Glioblastoma multiforme(35;0.0285)		GAAGAGAGTCCGGAGGAAAAT	0.587			T	FUS	myxofibrosarcoma								8	33					0	0	0.004482	0	0		T	46334005	T	T	46334005	3	4	20	1	0	0	0	0	1	0	0	0	3859	643	23	1	905	1	CREB3L1	11	46334005	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	662701	46334005	88672511	1058	17780											
CHRM4	1132	broad.mit.edu	37	chr11	46407256	46407256	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttatcagccacggggcgCggtggcggtggcagcgctgg	4	7	18	12	5	1	0	1	0	0	0	2	0	2	0	2	7	2	2	2	7	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:46407256C>T	uc001nct.1	-	1	852	c.852G>A	c.(850-852)CCG>CCA	p.P284P		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	284	Cytoplasmic (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	CCACGGGGCGCGGTGGCGGTG	0.687													10	20					0	0	0.010729	0	0		T	46407256	T	T	46407256	2	4	20	1	0	0	0	0	0	0	0	1	3382	755	27	1		1	CHRM4	11	46407256	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	73251	46407256	88599260	1059	17781											
AMBRA1	55626	broad.mit.edu	37	chr11	46419427	46419427	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacggctgtcatgccgcccTccgccatcagcctctggatc	5	8	9	19	3	3	0	2	0	1	0	5	1	4	1	6	2	2	1	6	2	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:46419427T>C	uc010rgu.1	-	18	3830	c.3470A>G	c.(3469-3471)GAG>GGG	p.E1157G	AMBRA1_uc010rgt.1_3'UTR|AMBRA1_uc009ylc.1_Missense_Mutation_p.E1128G|AMBRA1_uc001ncu.1_Missense_Mutation_p.E1067G|AMBRA1_uc001ncv.2_Missense_Mutation_p.E1160G|AMBRA1_uc001ncw.2_Missense_Mutation_p.E1038G|AMBRA1_uc001ncx.2_Missense_Mutation_p.E1097G	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	1157					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		CATGCCGCCCTCCGCCATCAG	0.602													5	25					0	0	0.004482	0	0		C	46419427	C	C	46419427	3	2	20	1	0	0	0	0	1	0	0	0	565	1551	54	3	430	3	AMBRA1	11	46419427	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	12171	46419427	88587089	1060	17782											
ARHGAP1	392	broad.mit.edu	37	chr11	46702288	46702288	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtgtggatttcaggaaGtcgtcatatctgtaggagta	9	15	12	5	1	4	0	2	0	2	0	5	3	4	3	0	3	0	2	0	3	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:46702288G>A	uc001ndd.2	-	8	714	c.645C>T	c.(643-645)GAC>GAT	p.D215D		NM_004308	NP_004299	Q07960	RHG01_HUMAN	Rho GTPase activating protein 1	215	CRAL-TRIO.				Rho protein signal transduction	cytosol|intracellular membrane-bounded organelle	SH3 domain binding|SH3/SH2 adaptor activity			skin(1)	1		Lung NSC(402;1.76e-12)|all_lung(304;1.3e-11)		GBM - Glioblastoma multiforme(35;5.17e-06)|BRCA - Breast invasive adenocarcinoma(625;0.00112)|Lung(87;0.153)		ATTTCAGGAAGTCGTCATATC	0.607													11	23					0	0	0.001855	0	0		A	46702288	A	A	46702288	2	1	20	1	0	0	0	0	0	0	0	1	861	1020	36	4		4	ARHGAP1	11	46702288	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	282861	46702288	88304228	1061	17783											
MADD	8567	broad.mit.edu	37	chr11	47336824	47336824	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccggcacatgaagaagcaGacatttgtggtacatgcagg	13	7	13	8	1	0	3	0	1	0	2	0	3	0	3	1	3	4	4	1	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:47336824G>T	uc001ner.1	+	30	4514	c.4323G>T	c.(4321-4323)CAG>CAT	p.Q1441H	MADD_uc001neq.2_Missense_Mutation_p.Q1382H|MADD_uc001nev.1_Missense_Mutation_p.Q1339H|MADD_uc001nes.1_Missense_Mutation_p.Q1359H|MADD_uc001net.1_Missense_Mutation_p.Q1402H|MADD_uc009yln.1_Missense_Mutation_p.Q1335H|MADD_uc001neu.1_Missense_Mutation_p.Q1339H|MADD_uc001nex.2_Missense_Mutation_p.Q1441H|MADD_uc001nez.2_Missense_Mutation_p.Q1338H|MADD_uc001new.2_Missense_Mutation_p.Q1381H|MADD_uc009ylo.2_Missense_Mutation_p.Q355H	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	1441					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		TGAAGAAGCAGACATTTGTGG	0.483													18	41					1.67942e-08	1.74822e-08	0.006122	1	0		T	47336824	T	T	47336824	3	4	20	1	0	0	0	0	1	0	0	0	9170	933	33	5	4437	5	MADD	11	47336824	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	634536	47336824	87669692	1062	17784											
PSMC3	5702	broad.mit.edu	37	chr11	47441881	47441881	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcattgggcatcgggAactctatcttgcggtcaagg	7	11	11	12	2	4	0	2	0	2	0	6	1	5	1	2	4	2	1	2	4	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:47441881A>G	uc001nfh.2	-	10	1255	c.1061T>C	c.(1060-1062)TTC>TCC	p.F354S	PSMC3_uc009ylr.1_Missense_Mutation_p.F312S	NM_002804	NP_002795	P17980	PRS6A_HUMAN	proteasome 26S ATPase subunit 3	354					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|nucleoside-triphosphatase activity|protein binding|transcription coactivator activity|transcription corepressor activity			ovary(4)	4				Lung(87;0.0932)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GGGCATCGGGAACTCTATCTT	0.602													13	35					0	0	0.00245	0	0		G	47441881	G	G	47441881	3	3	20	1	0	0	0	0	1	0	0	0	12709	246	9	3	270	3	PSMC3	11	47441881	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	105057	47441881	87564635	1063	17785											
AGBL2	79841	broad.mit.edu	37	chr11	47711972	47711972	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtaaacggtatttcctgcTaggctcctgcataaagtttg	11	13	9	8	1	0	0	0	0	0	0	2	0	2	0	2	2	3	6	2	2	7	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:47711972T>C	uc001ngg.2	-	9	1387	c.1287A>G	c.(1285-1287)CTA>CTG	p.L429L	AGBL2_uc001ngf.2_RNA|AGBL2_uc010rhq.1_Silent_p.L391L|AGBL2_uc001ngh.1_Silent_p.L373L	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	429					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						TATTTCCTGCTAGGCTCCTGC	0.493													4	120					0	0	0.009096	0	0		C	47711972	C	C	47711972	2	2	20	1	0	0	0	0	0	0	0	1	376	1509	53	3		3	AGBL2	11	47711972	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	270091	47711972	87294544	1064	17786											
OR4A5	81318	broad.mit.edu	37	chr11	51412117	51412117	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatagctggcccatgcaaccTtggaaggaaatagtcttttt	12	12	9	8	0	1	0	0	0	1	0	1	2	1	2	2	3	3	2	2	3	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:51412117T>C	uc001nhi.1	-	1	279	c.279A>G	c.(277-279)CAA>CAG	p.Q93Q		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	93	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				CCATGCAACCTTGGAAGGAAA	0.448													6	88					0	0	0.001168	0	0		C	51412117	C	C	51412117	2	2	20	1	0	0	0	0	0	0	0	1	11062	1606	56	3		3	OR4A5	11	51412117	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3700145	51412117	83594399	1065	17787											
OR5L1	219437	broad.mit.edu	37	chr11	55579099	55579099	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcactgattcaggtcagcTctcggctccacacccccatg	7	10	8	16	1	3	1	2	1	1	0	5	1	4	1	3	2	2	3	3	2	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:55579099T>C	uc001nhw.1	+	1	157	c.157T>C	c.(157-159)TCT>CCT	p.S53P		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	53	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				TCAGGTCAGCTCTCGGCTCCA	0.473													98	263					0	0	0.01441	0	0		C	55579099	C	C	55579099	3	2	20	1	0	0	0	0	1	0	0	0	11189	1551	54	3	159	3	OR5L1	11	55579099	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	4166982	55579099	79427417	1066	17788											
DTX4	23220	broad.mit.edu	37	chr11	58956242	58956242	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgaagaacctaaatgggTccagtcctgtcaaccctgcc	11	8	9	13	0	1	2	1	1	0	1	3	2	3	2	5	1	3	0	5	1	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:58956242T>G	uc001nns.2	+	3	1227	c.970T>G	c.(970-972)TCC>GCC	p.S324A	DTX4_uc001nnr.2_Missense_Mutation_p.S218A	NM_015177	NP_055992	Q9Y2E6	DTX4_HUMAN	deltex 4 homolog	324					Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)				CCTAAATGGGTCCAGTCCTGT	0.453													12	48					0	0	0.00245	0	0		G	58956242	G	G	58956242	3	3	20	1	0	0	0	0	1	0	0	0	4803	1667	58	5	980	5	DTX4	11	58956242	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3377143	58956242	76050274	1067	17789											
TMEM132A	54972	broad.mit.edu	37	chr11	60696229	60696229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctgggggctgtggctcCggcgaggagaacgaccctgg	5	5	19	12	3	0	1	0	0	0	1	1	4	1	1	3	7	1	2	3	7	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:60696229C>T	uc001nqj.2	+	4	856	c.663C>T	c.(661-663)TCC>TCT	p.S221S	TMEM132A_uc001nqi.2_Silent_p.S221S|TMEM132A_uc001nqk.2_Silent_p.S234S|TMEM132A_uc001nql.1_Silent_p.S234S	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	221	Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						GCTGTGGCTCCGGCGAGGAGA	0.697													10	21					0	0	0.008291	0	0		T	60696229	T	T	60696229	2	4	20	1	0	0	0	0	0	0	0	1	16070	639	23	1		1	TMEM132A	11	60696229	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1739987	60696229	74310287	1068	17790											
CD5	921	broad.mit.edu	37	chr11	60889125	60889125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtctggtggggggcagcaGcatctgtgaaggcaccgtgg	6	7	18	10	2	2	1	0	1	2	0	2	1	2	1	2	6	2	4	2	6	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:60889125G>A	uc009ynk.2	+	6	951	c.848G>A	c.(847-849)AGC>AAC	p.S283N		NM_014207	NP_055022	P06127	CD5_HUMAN	CD5 molecule precursor	283	Extracellular (Potential).|SRCR 3.				cell proliferation|cell recognition	integral to plasma membrane	scavenger receptor activity			ovary(1)	1		all_lung(304;5.94e-05)|Lung NSC(402;7.26e-05)		BRCA - Breast invasive adenocarcinoma(625;0.000946)|Lung(977;0.0086)|LUSC - Lung squamous cell carcinoma(625;0.0528)		GGGGGCAGCAGCATCTGTGAA	0.642													24	63					0	0	0.005443	0	0		A	60889125	A	A	60889125	3	1	20	1	0	0	0	0	1	0	0	0	3024	971	34	2	870	2	CD5	11	60889125	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	192896	60889125	74117391	1069	17791											
DAGLA	747	broad.mit.edu	37	chr11	61511463	61511463	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgctgcggccaatgaCgaggaggaagaggttggcgg	9	5	18	9	3	0	2	0	1	0	1	0	5	0	4	2	6	2	2	2	6	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:61511463C>T	uc001nsa.2	+	20	2742	c.2631C>T	c.(2629-2631)GAC>GAT	p.D877D		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	877	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		CGGCCAATGACGAGGAGGAAG	0.726													16	43					0	0	0.012319	0	0		T	61511463	T	T	61511463	2	4	20	1	0	0	0	0	0	0	0	1	4229	535	19	1		1	DAGLA	11	61511463	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	622338	61511463	73495053	1070	17792											
RAB3IL1	5866	broad.mit.edu	37	chr11	61675603	61675603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catggaagagctgcgcaggcGcaacacgtccagctgggcgg	9	4	16	12	4	0	1	0	0	0	1	1	2	1	2	1	4	4	4	1	4	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:61675603G>A	uc001nso.2	-	2	345	c.187C>T	c.(187-189)CGC>TGC	p.R63C	RAB3IL1_uc001nsp.2_Missense_Mutation_p.R110C	NM_013401	NP_037533	Q8TBN0	R3GEF_HUMAN	RAB3A interacting protein (rabin3)-like 1	63							protein binding			skin(2)|central_nervous_system(1)	3						CTGCGCAGGCGCAACACGTCC	0.677													10	19					0	0	0.006214	0	0		A	61675603	A	A	61675603	3	1	20	1	0	0	0	0	1	0	0	0	12962	1087	38	1	997	1	RAB3IL1	11	61675603	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	164140	61675603	73330913	1071	17793											
EML3	256364	broad.mit.edu	37	chr11	62375291	62375291	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaggactgagtcatttgtActctgaagggaagacactag	12	9	12	8	0	2	3	1	2	1	1	2	5	2	5	1	2	1	1	1	2	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:62375291A>G	uc001ntu.1	-	11	1517	c.1209T>C	c.(1207-1209)AGT>AGC	p.S403S	EML3_uc001ntr.1_Silent_p.S375S|EML3_uc001nts.1_Silent_p.S375S|EML3_uc001ntt.1_Silent_p.S287S|EML3_uc010rly.1_Silent_p.S403S|EML3_uc009yny.1_Silent_p.S186S	NM_153265	NP_694997	Q32P44	EMAL3_HUMAN	echinoderm microtubule associated protein like	403	WD 3.					cytoplasm|microtubule	protein binding			ovary(1)	1						AGTCATTTGTACTCTGAAGGG	0.527													27	57					0	0	0.009535	0	0		G	62375291	G	G	62375291	2	3	20	1	0	0	0	0	0	0	0	1	5106	388	14	3		3	EML3	11	62375291	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	699688	62375291	72631225	1072	17794											
SLC22A24	283238	broad.mit.edu	37	chr11	62911109	62911109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggagggggacccagcagCgatgactaggggtgaatgca	11	4	17	9	1	0	2	0	2	0	0	0	5	0	4	2	5	3	2	2	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:62911109C>T	uc009yop.2	-	1	585	c.143G>A	c.(142-144)CGC>CAC	p.R48H		NM_001136506	NP_001129978			solute carrier family 22, member 24												0						GACCCAGCAGCGATGACTAGG	0.488													15	38					0	0	0.00499	0	0		T	62911109	T	T	62911109	3	4	20	1	0	0	0	0	1	0	0	0	14478	768	27	1	1550	1	SLC22A24	11	62911109	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	535818	62911109	72095407	1073	17795											
PRDX5	25824	broad.mit.edu	37	chr11	64088156	64088156	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctgccagggtttgtggaGcaggctgaggctctgaaggc	7	8	16	10	0	1	2	0	2	1	0	1	3	1	3	2	5	2	4	2	5	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:64088156G>A	uc001nzu.2	+	3	449	c.330G>A	c.(328-330)GAG>GAA	p.E110E	PRDX5_uc001nzv.2_Intron|PRDX5_uc001nzw.2_Intron|PRDX5_uc001nzx.2_RNA	NM_012094	NP_036226	P30044	PRDX5_HUMAN	peroxiredoxin 5 isoform a precursor	110	Thioredoxin.				cell redox homeostasis|cellular response to reactive oxygen species|inflammatory response|negative regulation of apoptosis	cytosolic part|mitochondrion|peroxisome	caspase inhibitor activity|peroxidase activity|peroxiredoxin activity			breast(1)	1					Auranofin(DB00995)	GGTTTGTGGAGCAGGCTGAGG	0.592													36	88					0	0	0.007835	0	0		A	64088156	A	A	64088156	2	1	20	1	0	0	0	0	0	0	0	1	12490	962	34	2		2	PRDX5	11	64088156	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1177047	64088156	70918360	1074	17796											
CCDC88B	283234	broad.mit.edu	37	chr11	64108903	64108903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcccctcagtgtgagcaccGggaactcttcatccgccaca	8	8	8	17	2	3	1	2	1	1	0	5	2	5	2	5	1	2	1	5	1	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:64108903G>A	uc001nzy.2	+	6	502	c.458G>A	c.(457-459)CGG>CAG	p.R153Q	CCDC88B_uc009ypo.1_Missense_Mutation_p.R150Q|CCDC88B_uc001nzz.1_5'Flank	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	153					microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						TGTGAGCACCGGGAACTCTTC	0.637													14	44					0	0	0.003163	0	0		A	64108903	A	A	64108903	3	1	20	1	0	0	0	0	1	0	0	0	2867	1116	39	1	480	1	CCDC88B	11	64108903	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	20747	64108903	70897613	1075	17797											
ATG2A	23130	broad.mit.edu	37	chr11	64678326	64678326	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggggccacagacactccaGcacctccagctgcccgaagt	9	4	10	18	2	0	1	0	0	0	1	2	2	2	1	6	2	3	2	6	2	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:64678326G>A	uc001obx.2	-	11	1682	c.1567C>T	c.(1567-1569)CTG>TTG	p.L523L		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	523							protein binding			ovary(1)|central_nervous_system(1)	2						AGACACTCCAGCACCTCCAGC	0.667													8	13					0	0	0.004482	0	0		A	64678326	A	A	64678326	2	1	20	1	0	0	0	0	0	0	0	1	1094	962	34	2		2	ATG2A	11	64678326	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	569423	64678326	70328190	1076	17798											
SLC22A20	440044	broad.mit.edu	37	chr11	65000689	65000689	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgggctcagcctataccTggtgcaggccctgtttggaa	6	12	13	10	0	1	0	1	0	0	0	1	1	1	1	3	4	3	4	3	4	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:65000689T>C	uc010roc.1	+	8	1115	c.1112T>C	c.(1111-1113)CTG>CCG	p.L371P		NM_001004326	NP_001004326	A6NK97	S22AK_HUMAN	solute carrier family 22, member 20	371	Extracellular (Potential).				ion transport	integral to membrane	transmembrane transporter activity			central_nervous_system(1)	1						AGCCTATACCTGGTGCAGGCC	0.597													17	41					0	0	0.010504	0	0		C	65000689	C	C	65000689	3	2	20	1	0	0	0	0	1	0	0	0	14476	1595	55	3		3	SLC22A20	11	65000689	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	322363	65000689	70005827	1077	17799											
KDM2A	22992	broad.mit.edu	37	chr11	67010480	67010480	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttccctcctacccttagAttttgctggaggagcttgcc	5	15	8	13	0	0	1	0	0	0	1	2	3	2	3	4	2	4	2	4	2	2	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:67010480A>G	uc001ojw.2	+	13	2344	c.1480A>G	c.(1480-1482)ATT>GTT	p.I494V	KDM2A_uc001ojx.2_RNA|KDM2A_uc001ojy.2_Missense_Mutation_p.I188V|KDM2A_uc010rpn.1_Missense_Mutation_p.I55V|KDM2A_uc001ojz.1_5'Flank	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	494					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						CTACCCTTAGATTTTGCTGGA	0.483													22	44					0	0	0.00333	0	0		G	67010480	G	G	67010480	3	3	20	1	0	0	0	0	1	0	0	0	8140	347	12	3	1526	3	KDM2A	11	67010480	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2009791	67010480	67996036	1078	17800											
ANKRD13D	338692	broad.mit.edu	37	chr11	67068551	67068551	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctaatggccatcagcaaCgctcactttgccaagctgcg	10	8	9	14	2	2	0	2	0	0	0	2	1	2	0	3	1	5	3	3	1	3	2	rs148986056	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:67068551C>T	uc001okc.1	+	12	1414	c.903C>T	c.(901-903)AAC>AAT	p.N301N	ANKRD13D_uc001okd.1_Silent_p.N388N|ANKRD13D_uc001oke.1_Silent_p.N301N|ANKRD13D_uc001okg.1_Silent_p.N84N|ANKRD13D_uc001okh.1_Silent_p.N84N|ANKRD13D_uc001oki.1_Silent_p.N38N|SSH3_uc001okj.2_5'Flank|SSH3_uc001okk.2_5'Flank|SSH3_uc001okl.2_5'Flank	NM_207354	NP_997237	Q6ZTN6	AN13D_HUMAN	ankyrin repeat domain 13 family, member D	301										ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			CCATCAGCAACGCTCACTTTG	0.607													16	46					0	0	0.007413	0	0		T	67068551	T	T	67068551	2	4	20	1	0	0	0	0	0	0	0	1	644	535	19	1		1	ANKRD13D	11	67068551	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	58071	67068551	67937965	1079	17801											
TBC1D10C	374403	broad.mit.edu	37	chr11	67176565	67176565	+	Frame_Shift_Del	DEL	C	-	-																															ctgggagcccttcgagccatCccccccgcgcagctgcagga																								rs147560025		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:67176565delC	uc001ola.2	+	9	983	c.954delC	c.(952-954)ATCfs	p.I318fs	PPP1CA_uc001okx.1_Intron|TBC1D10C_uc001okz.2_Frame_Shift_Del_p.P254fs|TBC1D10C_uc001olb.2_RNA	NM_198517	NP_940919	Q8IV04	TB10C_HUMAN	TBC1 domain family, member 10C	318						intracellular	Rab GTPase activator activity				0			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			TTCGAGCCATCCCCCCCGCGC	0.687													10	17	---	---	---	---						.	-	67176565	-	-	67176565	7	5	20	1	0	1	0	1	0	0	0	0	15625	845	30	0	984	0	TBC1D10C	11	67176565	Frame_Shift_Del	DEL	C	TCGA-BR-4362-01A-01D-1158-08	108014	67176565	67829951	1080	17802											
CARNS1	57571	broad.mit.edu	37	chr11	67190978	67190978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagttggtgcgggctcgcGgcctcaagctagatggctgc	6	8	16	11	3	1	2	1	0	0	2	2	2	1	2	1	4	3	4	1	4	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:67190978G>A	uc009yrp.2	+	9	1842	c.1390G>A	c.(1390-1392)GGC>AGC	p.G464S	PPP1CA_uc001okx.1_5'Flank|CARNS1_uc001olc.3_Missense_Mutation_p.G603S	NM_020811	NP_065862	A5YM72	CRNS1_HUMAN	ATP-grasp domain containing 1	464					carnosine biosynthetic process		ATP binding|carnosine synthase activity|metal ion binding				0						GCGGGCTCGCGGCCTCAAGCT	0.612													5	13					0	0	0.001168	0	0		A	67190978	A	A	67190978	3	1	20	1	0	0	0	0	1	0	0	0	2659	1116	39	1	1793	1	CARNS1	11	67190978	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	14413	67190978	67815538	1081	17803											
TBX10	347853	broad.mit.edu	37	chr11	67399140	67399140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaggagccccagcccagctGggagaggcaggcctccttga	9	4	14	14	0	0	2	0	1	0	1	1	4	1	3	5	4	3	2	5	4	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:67399140G>A	uc001omp.2	-	8	1182	c.1094C>T	c.(1093-1095)CCA>CTA	p.P365L	NUDT8_uc001omn.2_5'Flank|NUDT8_uc001omo.1_5'Flank	NM_005995	NP_005986	O75333	TBX10_HUMAN	T-box 10	365					anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						CAGCCCAGCTGGGAGAGGCAG	0.677													6	9					0	0	0.013537	0	0		A	67399140	A	A	67399140	3	1	20	1	0	0	0	0	1	0	0	0	15676	1348	47	4	67	4	TBX10	11	67399140	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	208162	67399140	67607376	1082	17804											
SAPS3	55291	broad.mit.edu	37	chr11	68370949	68370949	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgccaagacagagactgcGgtcttcaaaaggtaaccagg	14	6	12	9	1	2	2	1	0	1	2	2	4	2	2	2	3	3	1	2	3	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:68370949G>A	uc001onw.2	+	22	2706	c.2439G>A	c.(2437-2439)GCG>GCA	p.A813A	SAPS3_uc001onv.2_Silent_p.A813A|SAPS3_uc001ony.3_Silent_p.A784A|SAPS3_uc001onx.2_Silent_p.A807A|SAPS3_uc009ysh.2_Silent_p.A733A|SAPS3_uc001onu.2_Silent_p.A733A|SAPS3_uc010rqc.1_Silent_p.A581A|SAPS3_uc010rqd.1_Silent_p.A496A|SAPS3_uc001onz.2_Silent_p.A141A|SAPS3_uc001ooa.2_Silent_p.A263A	NM_001164161	NP_001157633	Q5H9R7	PP6R3_HUMAN	SAPS domain family, member 3 isoform 6	813					regulation of phosphoprotein phosphatase activity	cytoplasm|nucleus	protein phosphatase binding				0			LUAD - Lung adenocarcinoma(13;0.102)			CAGAGACTGCGGTCTTCAAAA	0.463													15	46					0	0	0.003163	0	0		A	68370949	A	A	68370949	2	1	20	1	0	0	0	0	0	0	0	1	13863	1103	39	1		1	SAPS3	11	68370949	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	971809	68370949	66635567	1083	17805											
DNAJB13	374407	broad.mit.edu	37	chr11	73677268	73677268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggttggaggcagggcacacGcatcacctttgagaaggaag	11	6	15	9	2	1	1	1	1	0	1	1	4	1	3	1	5	0	4	1	5	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:73677268G>A	uc001ouo.2	+	5	1329	c.578G>A	c.(577-579)CGC>CAC	p.R193H		NM_153614	NP_705842	P59910	DJB13_HUMAN	testis spermatogenesis apoptosis-related protein	193					apoptosis|protein folding|spermatogenesis		heat shock protein binding|unfolded protein binding				0	Breast(11;7.42e-05)					CAGGGCACACGCATCACCTTT	0.552													4	20					0	0	0.009096	0	0		A	73677268	A	A	73677268	3	1	20	1	0	0	0	0	1	0	0	0	4624	1087	38	1	596	1	DNAJB13	11	73677268	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5306319	73677268	61329248	1084	17806											
SERPINH1	871	broad.mit.edu	37	chr11	75282937	75282937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgtgttccacgccaccGcctttgagttggacacagat	8	9	10	14	3	0	2	0	1	0	1	1	3	1	3	5	1	1	2	5	1	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:75282937G>A	uc001owr.2	+	5	1295	c.1066G>A	c.(1066-1068)GCC>ACC	p.A356T	SERPINH1_uc009yug.2_Missense_Mutation_p.A356T|SERPINH1_uc001ows.2_Missense_Mutation_p.A356T|SERPINH1_uc001owt.2_Missense_Mutation_p.A139T	NM_001235	NP_001226	P50454	SERPH_HUMAN	serine (or cysteine) proteinase inhibitor, clade	356					regulation of proteolysis|response to unfolded protein	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	collagen binding|serine-type endopeptidase inhibitor activity			ovary(2)	2	Ovarian(111;0.11)					CCACGCCACCGCCTTTGAGTT	0.602													11	32					0	0	0.013537	0	0		A	75282937	A	A	75282937	3	1	20	1	0	0	0	0	1	0	0	0	14142	1087	38	1	1080	1	SERPINH1	11	75282937	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1605669	75282937	59723579	1085	17807											
RSF1	51773	broad.mit.edu	37	chr11	77378348	77378348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgatttgcatctccatgagCattgtcacaactctcctcct	8	14	5	14	0	3	2	1	2	2	0	6	2	4	2	3	0	3	2	3	0	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:77378348C>T	uc001oyn.2	-	16	4060	c.3940G>A	c.(3940-3942)GCT>ACT	p.A1314T	RSF1_uc001oym.2_Missense_Mutation_p.A1062T	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	1314					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			TCTCCATGAGCATTGTCACAA	0.537													31	87					0	0	0.009535	0	0		T	77378348	T	T	77378348	3	4	20	1	0	0	0	0	1	0	0	0	13724	710	25	2	389	2	RSF1	11	77378348	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2095411	77378348	57628168	1086	17808											
RSF1	51773	broad.mit.edu	37	chr11	77394826	77394826	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctttggatttttttgaatcTtttttcttttcttcttgatc	4	26	5	6	0	4	2	0	2	4	0	5	3	4	3	0	1	0	1	0	1	1	11			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:77394826T>C	uc001oyn.2	-	11	3114	c.2994A>G	c.(2992-2994)AAA>AAG	p.K998K	RSF1_uc001oym.2_Silent_p.K746K	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	998	Potential.				CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			TTTTTGAATCTTTTTTCTTTT	0.338													4	108					0	0	0.009096	0	0		C	77394826	C	C	77394826	2	2	20	1	0	0	0	0	0	0	0	1	13724	1606	56	3		3	RSF1	11	77394826	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	16478	77394826	57611690	1087	17809											
FAM181B	220382	broad.mit.edu	37	chr11	82444597	82444597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgcgggtggcctcgcgcaCgtcccctccttcggctcccg	2	8	12	19	7	0	0	0	0	0	0	6	0	3	0	5	3	0	2	5	3	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:82444597C>T	uc001ozp.2	-	1	310	c.175G>A	c.(175-177)GTG>ATG	p.V59M		NM_175885	NP_787081	A6NEQ2	F181B_HUMAN	hypothetical protein LOC220382	59										large_intestine(1)	1						GCCTCGCGCACGTCCCCTCCT	0.662													5	17					0	0	0.001168	0	0		T	82444597	T	T	82444597	3	4	20	1	0	0	0	0	1	0	0	0	5520	536	19	1	1109	1	FAM181B	11	82444597	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	5049771	82444597	52561919	1088	17810											
PCF11	51585	broad.mit.edu	37	chr11	82892064	82892064	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatagacgttatgacagtgTtataaatcgactgtacactg	15	12	8	6	2	0	2	0	1	0	1	1	3	0	2	0	0	1	3	0	0	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:82892064T>C	uc001ozx.3	+	12	4343	c.3998T>C	c.(3997-3999)GTT>GCT	p.V1333A		NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	1333					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						TATGACAGTGTTATAAATCGA	0.318													2	11					0	0	0.004672	0	0		C	82892064	C	C	82892064	3	2	20	1	0	0	0	0	1	0	0	0	11592	1725	60	3	4044	3	PCF11	11	82892064	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	447467	82892064	52114452	1089	17811											
DLG2	1740	broad.mit.edu	37	chr11	83770417	83770417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaaataggtcgtcttctaCgcacatacagccgaacgata	14	8	7	12	4	2	0	0	0	2	0	3	2	2	0	2	1	4	1	2	1	7	5	rs150156552		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:83770417C>T	uc001paj.2	-	6	848	c.545G>A	c.(544-546)CGT>CAT	p.R182H	DLG2_uc001pai.2_Missense_Mutation_p.R131H|DLG2_uc010rsy.1_Missense_Mutation_p.R149H|DLG2_uc010rsz.1_Missense_Mutation_p.R182H|DLG2_uc010rta.1_Missense_Mutation_p.R182H|DLG2_uc001pak.2_Missense_Mutation_p.R287H|DLG2_uc010rtb.1_Missense_Mutation_p.R149H|DLG2_uc001pal.1_Missense_Mutation_p.R182H|DLG2_uc001pam.1_Missense_Mutation_p.R221H	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	182	PDZ 1.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				TCGTCTTCTACGCACATACAG	0.453													45	90					0	0	0.01441	0	0		T	83770417	T	T	83770417	3	4	20	1	0	0	0	0	1	0	0	0	4561	536	19	1	2189	1	DLG2	11	83770417	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	878353	83770417	51236099	1090	17812											
TMEM126A	84233	broad.mit.edu	37	chr11	85367435	85367435	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcctgtctttagaaagatgTtatttcctattttgctccag	9	17	7	8	0	1	2	0	0	1	2	3	2	3	2	3	0	2	2	3	0	4	7	rs11556796		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:85367435T>C	uc001par.2	+	5	574	c.478T>C	c.(478-480)TTA>CTA	p.L160L		NM_032273	NP_115649	Q9H061	T126A_HUMAN	transmembrane protein 126A	160						integral to membrane|mitochondrion				ovary(2)	2		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				TAGAAAGATGTTATTTCCTAT	0.368													9	47					0	0	0.008291	0	0		C	85367435	C	C	85367435	2	2	20	1	0	0	0	0	0	0	0	1	16063	1722	60	3		3	TMEM126A	11	85367435	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1597018	85367435	49639081	1091	17813											
CCDC89	220388	broad.mit.edu	37	chr11	85396776	85396776	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagcggagcatcaactcgTggttggctgctagggtcata	9	10	14	8	2	2	1	2	1	0	0	3	2	2	2	0	4	4	4	0	4	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:85396776T>G	uc001pau.1	-	1	545	c.398A>C	c.(397-399)CAC>CCC	p.H133P		NM_152723	NP_689936	Q8N998	CCD89_HUMAN	coiled-coil domain containing 89	133	Potential.					cytoplasm|nucleus					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				CATCAACTCGTGGTTGGCTGC	0.522													42	117					0	0	0.010771	0	0		G	85396776	G	G	85396776	3	3	20	1	0	0	0	0	1	0	0	0	2869	1696	59	5	730	5	CCDC89	11	85396776	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	29341	85396776	49609740	1092	17814											
PICALM	8301	broad.mit.edu	37	chr11	85694973	85694973	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gattcaaagtcaacattaagGccagctgaagggtgtggctg	12	9	13	7	0	2	1	2	1	0	0	2	2	2	1	1	3	2	2	1	3	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:85694973G>T	uc001pbm.2	-	14	1738	c.1452C>A	c.(1450-1452)GGC>GGA	p.G484G	PICALM_uc001pbl.2_Silent_p.G434G|PICALM_uc001pbn.2_Silent_p.G477G|PICALM_uc010rtl.1_Silent_p.G383G|PICALM_uc001pbk.2_5'Flank|PICALM_uc010rtk.1_Silent_p.G66G|PICALM_uc001pbo.1_Silent_p.G116G	NM_007166	NP_009097	Q13492	PICAL_HUMAN	phosphatidylinositol-binding clathrin assembly	484					clathrin coat assembly|endosome transport|negative regulation of receptor-mediated endocytosis|positive regulation of transcription, DNA-dependent|receptor internalization|regulation of protein localization	clathrin coat|clathrin-coated vesicle|coated pit|Golgi apparatus|nucleus|postsynaptic membrane|presynaptic membrane	1-phosphatidylinositol binding|clathrin heavy chain binding			urinary_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(157;7.42e-07)|all_hematologic(158;0.00092)				CAACATTAAGGCCAGCTGAAG	0.323			T	MLLT10|MLL	TALL|AML|								10	44					2.31682e-05	2.37886e-05	0.003163	1	0		T	85694973	T	T	85694973	2	4	20	1	0	0	0	0	0	0	0	1	11899	1190	42	5		5	PICALM	11	85694973	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	298197	85694973	49311543	1093	17815											
FZD4	8322	broad.mit.edu	37	chr11	86663069	86663069	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taggaaaacctagaagaatcGatcaggaaggtcagtactgt	16	8	11	6	1	2	2	2	0	0	2	3	5	2	4	1	3	2	1	1	3	8	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:86663069G>A	uc001pce.2	-	2	1035	c.729C>T	c.(727-729)ATC>ATT	p.I243I	PRSS23_uc001pcc.1_RNA	NM_012193	NP_036325	Q9ULV1	FZD4_HUMAN	frizzled 4 precursor	243	Helical; Name=1; (Potential).				canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|negative regulation of cell-substrate adhesion|neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|progesterone secretion|regulation of vascular endothelial growth factor receptor signaling pathway|substrate adhesion-dependent cell spreading|vasculogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cell projection|cell surface|cytoplasm	cytokine binding|G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			large_intestine(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TAGAAGAATCGATCAGGAAGG	0.468													14	35					0	0	0.00245	0	0		A	86663069	A	A	86663069	2	1	20	1	0	0	0	0	0	0	0	1	6146	1048	37	1		1	FZD4	11	86663069	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	968096	86663069	48343447	1094	17816											
CTSC	1075	broad.mit.edu	37	chr11	88068203	88068203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgccaaggtcatcatatgCtgtatccagcttctgaaggt	10	13	9	9	0	3	1	2	1	1	0	4	1	4	1	2	2	3	3	2	2	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:88068203C>T	uc001pck.3	-	2	321	c.220G>A	c.(220-222)GCA>ACA	p.A74T	CTSC_uc001pcl.3_5'UTR|CTSC_uc001pcm.3_Missense_Mutation_p.A74T|CTSC_uc001pcn.3_Missense_Mutation_p.A74T	NM_001814	NP_001805	P53634	CATC_HUMAN	cathepsin C isoform a preproprotein	74			Missing (in PLS).		immune response	lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TCATCATATGCTGTATCCAGC	0.348													6	69					0	0	0.001168	0	0		T	88068203	T	T	88068203	3	4	20	1	0	0	0	0	1	0	0	0	4034	797	28	2	1326	2	CTSC	11	88068203	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1405134	88068203	46938313	1095	17817											
GRM5	2915	broad.mit.edu	37	chr11	88258487	88258487	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttgcttacctgctcattgTtgctctcccaccattcccca	5	15	5	16	0	2	0	1	0	1	0	4	0	3	0	5	0	4	5	5	0	1	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:88258487T>G	uc001pcq.2	-	8	2916	c.2716A>C	c.(2716-2718)ACA>CCA	p.T906P	GRM5_uc009yvm.2_Intron	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	906	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CTGCTCATTGTTGCTCTCCCA	0.507													126	361					0	0	0.01441	0	0		G	88258487	G	G	88258487	3	3	20	1	0	0	0	0	1	0	0	0	6816	1725	60	5	930	5	GRM5	11	88258487	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	190284	88258487	46748029	1096	17818											
FAT3	120114	broad.mit.edu	37	chr11	92577541	92577541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcacatgcatgggttcCggcgcaccctgcggaatgca	7	7	14	13	3	0	0	0	0	0	0	1	1	1	1	2	4	4	6	2	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:92577541C>T	uc001pdj.3	+	18	11025	c.11008C>T	c.(11008-11010)CGG>TGG	p.R3670W	FAT3_uc001pdi.3_Missense_Mutation_p.R110W	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3670	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GCATGGGTTCCGGCGCACCCT	0.582										TCGA Ovarian(4;0.039)			19	46					0	0	0.006122	0	0		T	92577541	T	T	92577541	3	4	20	1	0	0	0	0	1	0	0	0	5705	643	23	1	11078	1	FAT3	11	92577541	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4319054	92577541	42428975	1097	17819											
GPR83	10888	broad.mit.edu	37	chr11	94113477	94113477	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagggtggcctgtcctcCtgaggcttgggaggtctttg	3	11	19	8	0	1	1	0	1	1	0	3	3	3	3	3	7	0	1	3	7	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:94113477C>T	uc001pet.2	-	4	1282	c.1110G>A	c.(1108-1110)CAG>CAA	p.Q370Q		NM_016540	NP_057624	Q9NYM4	GPR83_HUMAN	G protein-coupled receptor 83 precursor	370	Cytoplasmic (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			central_nervous_system(2)|ovary(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				GCCTGTCCTCCTGAGGCTTGG	0.547													24	102					0	0	0.008361	0	0		T	94113477	T	T	94113477	2	4	20	1	0	0	0	0	0	0	0	1	6728	680	24	4		4	GPR83	11	94113477	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1535936	94113477	40893039	1098	17820											
JRKL	8690	broad.mit.edu	37	chr11	96124882	96124882	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaatgacctgaaatcattcTggaagaagctaactctgttg	13	12	9	7	0	3	3	1	2	2	1	3	4	3	4	1	1	2	3	1	1	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:96124882T>C	uc009ywu.2	+	2	1321	c.1069T>C	c.(1069-1071)TGG>CGG	p.W357R	CCDC82_uc001pfx.3_5'Flank|CCDC82_uc009ywr.2_5'Flank|CCDC82_uc009ywt.1_5'Flank|JRKL_uc001pfy.2_Missense_Mutation_p.W357R	NM_003772	NP_003763	Q9Y4A0	JERKL_HUMAN	jerky homolog-like	357	DDE.				central nervous system development|regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)		BRCA - Breast invasive adenocarcinoma(274;0.148)		GAAATCATTCTGGAAGAAGCT	0.358													28	151					0	0	0.010818	0	0		C	96124882	C	C	96124882	3	2	20	1	0	0	0	0	1	0	0	0	7981	1580	55	3	1071	3	JRKL	11	96124882	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2011405	96124882	38881634	1099	17821											
PGR	5241	broad.mit.edu	37	chr11	100996890	100996890	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggcttctgaatccggcCttgaaatgcaaaacaaagta	13	9	10	9	1	1	2	0	2	1	0	2	2	2	2	2	3	2	4	2	3	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:100996890C>T	uc001pgh.2	-	2	2381	c.1638_splice	c.e2-1	p.R546_splice	PGR_uc001pgi.2_Splice_Site_p.R546_splice|PGR_uc009yww.1_Splice_Site|PGR_uc001pgj.2_Splice_Site|PGR_uc009ywx.1_Splice_Site|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor						cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	TGAATCCGGCCTTGAAATGCA	0.388													13	22					0	0	0.003163	0	0		T	100996890	T	T	100996890	5	4	20	1	0	0	0	0	0	0	1	0	11824	695	24	4	1192	4	PGR	11	100996890	Splice_Site	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4872008	100996890	34009626	1100	17822											
TRPC6	7225	broad.mit.edu	37	chr11	101362460	101362460	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgcattgacagtttttTgtagtcattctaggaaaaac	12	14	8	7	0	2	1	1	1	1	0	2	2	2	2	0	1	2	4	0	1	4	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:101362460T>G	uc001pgk.3	-	3	1380	c.955A>C	c.(955-957)AAA>CAA	p.K319Q	TRPC6_uc009ywy.2_Intron|TRPC6_uc009ywz.1_Missense_Mutation_p.K319Q	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	319	Cytoplasmic (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		GACAGTTTTTTGTAGTCATTC	0.373													22	70					0	0	0.00278	0	0		G	101362460	G	G	101362460	3	3	20	1	0	0	0	0	1	0	0	0	16609	1821	63	5	1884	5	TRPC6	11	101362460	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	365570	101362460	33644056	1101	17823											
BIRC3	330	broad.mit.edu	37	chr11	102196012	102196012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgcagacacatgcagccCgctttaaaacattctttaac	13	10	6	12	1	1	1	0	0	1	1	1	1	1	1	1	0	5	4	1	0	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:102196012C>T	uc001pgx.2	+	3	994	c.772C>T	c.(772-774)CGC>TGC	p.R258C		NM_182962	NP_892007	Q13489	BIRC3_HUMAN	baculoviral IAP repeat-containing protein 3	258	BIR 3.				anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|skin(1)	4	all_cancers(8;0.00044)|all_epithelial(12;0.00348)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0093)	Lung(13;0.109)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0146)		ACATGCAGCCCGCTTTAAAAC	0.408			T	MALT1	MALT								28	99					0	0	0.008361	0	0		T	102196012	T	T	102196012	3	4	20	1	0	0	0	0	1	0	0	0	1437	652	23	1	774	1	BIRC3	11	102196012	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	833552	102196012	32810504	1102	17824											
DYNC2H1	79659	broad.mit.edu	37	chr11	103048288	103048288	+	Frame_Shift_Del	DEL	A	-	-																															tatttctttcctactagatcAaaaaggctttagaattgtat																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:103048288delA	uc001pho.2	+	38	6022	c.5878delA	c.(5878-5880)AAAfs	p.K1960fs	DYNC2H1_uc001phn.1_Frame_Shift_Del_p.K1960fs|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	1960	AAA 2 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CTACTAGATCAAAAAGGCTTT	0.318													12	26	---	---	---	---						.	-	103048288	-	-	103048288	7	5	20	1	0	1	0	1	0	0	0	0	4852	131	5	0	6028	0	DYNC2H1	11	103048288	Frame_Shift_Del	DEL	A	TCGA-BR-4362-01A-01D-1158-08	852276	103048288	31958228	1103	17825											
DYNC2H1	79659	broad.mit.edu	37	chr11	103070064	103070064	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgctgagtttccctggaggTtcacttctattagcaggacg	7	13	12	9	1	2	1	1	1	1	0	3	3	3	3	1	3	2	4	1	3	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:103070064T>C	uc001pho.2	+	49	8091	c.7947T>C	c.(7945-7947)GGT>GGC	p.G2649G	DYNC2H1_uc001phn.1_Silent_p.G2649G|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2649	AAA 4 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TCCCTGGAGGTTCACTTCTAT	0.433													3	59					0	0	0.004672	0	0		C	103070064	C	C	103070064	2	2	20	1	0	0	0	0	0	0	0	1	4852	1712	60	3		3	DYNC2H1	11	103070064	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	21776	103070064	31936452	1104	17826											
DDI1	414301	broad.mit.edu	37	chr11	103908639	103908639	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagacttattttcttcctgaGggagagttgcccttatgctc	7	15	9	10	0	1	3	0	1	1	2	3	4	2	3	2	1	2	2	2	1	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:103908639G>T	uc001phr.2	+	1	1332	c.1089G>T	c.(1087-1089)GAG>GAT	p.E363D	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	363					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		TTCTTCCTGAGGGAGAGTTGC	0.458													12	50					5.50884e-06	5.6591e-06	0.013537	1	0		T	103908639	T	T	103908639	3	4	20	1	0	0	0	0	1	0	0	0	4331	991	35	5	1091	5	DDI1	11	103908639	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	838575	103908639	31097877	1105	17827											
ALKBH8	91801	broad.mit.edu	37	chr11	107427686	107427686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccgggagcagctggttcCgactcacaccattacccaaa	13	6	8	14	2	1	0	1	0	0	0	2	2	2	1	4	2	4	3	4	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:107427686C>T	uc010rvr.1	-	3	248	c.173G>A	c.(172-174)CGG>CAG	p.R58Q	ALKBH8_uc010rvq.1_5'UTR|ALKBH8_uc009yxp.2_Missense_Mutation_p.R58Q|ALKBH8_uc001pjl.2_RNA	NM_138775	NP_620130	Q96BT7	ALKB8_HUMAN	alkB, alkylation repair homolog 8	58	RRM.				response to DNA damage stimulus	cytosol|nucleus	metal ion binding|nucleotide binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|protein binding|RNA binding|tRNA (uracil) methyltransferase activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00512)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.53e-05)|Epithelial(105;0.00029)|all cancers(92;0.00518)		CAGCTGGTTCCGACTCACACC	0.433													30	93					0	0	0.008361	0	0		T	107427686	T	T	107427686	3	4	20	1	0	0	0	0	1	0	0	0	533	652	23	1	1861	1	ALKBH8	11	107427686	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3519047	107427686	27578830	1106	17828											
C11orf65	160140	broad.mit.edu	37	chr11	108277568	108277568	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcttcctgaagatgatcAtttttattatgagatgtatg	10	18	7	6	0	2	4	1	3	1	2	4	5	4	4	2	0	0	1	2	0	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:108277568A>G	uc001pkh.2	-	5	421	c.351T>C	c.(349-351)AAT>AAC	p.N117N	C11orf65_uc010rvx.1_Silent_p.N68N|C11orf65_uc009yxu.1_RNA	NM_152587	NP_689800	Q8NCR3	CK065_HUMAN	hypothetical protein LOC160140	117										ovary(1)	1		all_cancers(61;1.38e-11)|all_epithelial(67;3.16e-07)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;8.21e-06)|BRCA - Breast invasive adenocarcinoma(274;1.01e-05)|all cancers(92;0.000189)|Colorectal(284;0.114)|OV - Ovarian serous cystadenocarcinoma(223;0.144)		GAAGATGATCATTTTTATTAT	0.358													5	86					0	0	0.001168	0	0		G	108277568	G	G	108277568	2	3	20	1	0	0	0	0	0	0	0	1	1658	214	8	3		3	C11orf65	11	108277568	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	849882	108277568	26728948	1107	17829											
EXPH5	23086	broad.mit.edu	37	chr11	108383615	108383615	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagatctaaagaatcacaCgaggtcttgtggccaggagt	13	8	12	8	1	3	2	1	0	2	2	3	5	3	3	1	3	0	0	1	3	3	2	rs114840330	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:108383615C>T	uc001pkk.2	-	6	2730	c.2619G>A	c.(2617-2619)TCG>TCA	p.S873S	EXPH5_uc010rvy.1_Silent_p.S685S|EXPH5_uc010rvz.1_Silent_p.S717S|EXPH5_uc010rwa.1_Silent_p.S797S	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	873					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		AAGAATCACACGAGGTCTTGT	0.413													90	222					0	0	0.01441	0	0		T	108383615	T	T	108383615	2	4	20	1	0	0	0	0	0	0	0	1	5330	523	19	1		1	EXPH5	11	108383615	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	106047	108383615	26622901	1108	17830											
FDXACB1	91893	broad.mit.edu	37	chr11	111747699	111747699	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctctacataatgccacGtggacttctccttcctctgc	6	14	6	15	1	3	0	0	0	3	0	6	1	5	1	4	1	3	0	4	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:111747699G>A	uc001pmc.3	-	3	663	c.366C>T	c.(364-366)CAC>CAT	p.H122H	ALG9_uc010rwo.1_Translation_Start_Site|FDXACB1_uc009yyi.2_Translation_Start_Site|C11orf1_uc001pmd.2_5'Flank	NM_138378	NP_612387	Q9BRP7	FDXA1_HUMAN	ferredoxin-fold anticodon binding domain	122					phenylalanyl-tRNA aminoacylation|tRNA processing		ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0						ATAATGCCACGTGGACTTCTC	0.493													4	13					0	0	0.000602	0	0		A	111747699	A	A	111747699	2	1	20	1	0	0	0	0	0	0	0	1	5820	1136	40	1		1	FDXACB1	11	111747699	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3364084	111747699	23258817	1109	17831											
ZBTB16	7704	broad.mit.edu	37	chr11	114112978	114112978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatggaggtccacgcgggcGtgcgcagctacatctgcagt	8	7	14	12	4	1	0	0	0	1	0	2	1	2	1	1	3	4	3	1	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:114112978G>A	uc001pop.2	+	5	1807	c.1543G>A	c.(1543-1545)GTG>ATG	p.V515M	ZBTB16_uc001poq.2_Missense_Mutation_p.V515M	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	515					apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		CCACGCGGGCGTGCGCAGCTA	0.622													13	39					0	0	0.001855	0	0		A	114112978	A	A	114112978	3	1	20	1	0	0	0	0	1	0	0	0	17551	1145	40	1	1557	1	ZBTB16	11	114112978	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2365279	114112978	20893538	1110	17832											
APOC3	345	broad.mit.edu	37	chr11	116701502	116701502	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcaggagcttcagaggcCgaggatgcctcccttctcag	7	9	11	14	1	3	1	3	0	1	1	6	4	5	3	4	3	2	1	4	3	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:116701502C>T	uc001ppt.1	+	3	115	c.69C>T	c.(67-69)GCC>GCT	p.A23A		NM_000040	NP_000031	P02656	APOC3_HUMAN	apolipoprotein C-III precursor	23					Cdc42 protein signal transduction|cholesterol efflux|cholesterol homeostasis|chylomicron remnant clearance|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle remodeling|lipoprotein metabolic process|negative regulation of cholesterol import|negative regulation of fatty acid biosynthetic process|negative regulation of high-density lipoprotein particle clearance|negative regulation of lipoprotein lipase activity|negative regulation of low-density lipoprotein particle clearance|negative regulation of receptor-mediated endocytosis|negative regulation of triglyceride catabolic process|negative regulation of very-low-density lipoprotein particle clearance|negative regulation of very-low-density lipoprotein particle remodeling|phospholipid efflux|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle assembly	chylomicron|intermediate-density lipoprotein particle|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	high-density lipoprotein particle receptor binding|lipase inhibitor activity|phospholipid binding				0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		CTTCAGAGGCCGAGGATGCCT	0.627													7	19					0	0	0.004482	0	0		T	116701502	T	T	116701502	2	4	20	1	0	0	0	0	0	0	0	1	799	639	23	1		1	APOC3	11	116701502	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2588524	116701502	18305014	1111	17833											
PAFAH1B2	5049	broad.mit.edu	37	chr11	117030719	117030719	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtgggagactccatggtgCagttaatgcagcaatatgag	11	10	13	7	1	0	2	0	1	0	1	2	3	1	2	1	2	3	4	1	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:117030719C>T	uc001pqe.1	+	3	253	c.151C>T	c.(151-153)CAG>TAG	p.Q51*	PAFAH1B2_uc009yzk.1_Nonsense_Mutation_p.Q51*|PAFAH1B2_uc009yzl.1_Nonsense_Mutation_p.Q51*|PAFAH1B2_uc009yzm.2_RNA|PAFAH1B2_uc009yzn.2_RNA|PAFAH1B2_uc009yzj.1_Intron	NM_002572	NP_002563	P68402	PA1B2_HUMAN	platelet-activating factor acetylhydrolase,	51					lipid catabolic process	cytoplasm	1-alkyl-2-acetylglycerophosphocholine esterase activity			kidney(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;1.68e-05)|Epithelial(105;0.000162)|all cancers(92;0.00111)		CTCCATGGTGCAGTTAATGCA	0.393			T	IGH@	MLCLS								11	322					0	0	0.013537	0	0		T	117030719	T	T	117030719	4	4	20	1	0	0	0	0	0	1	0	0	11404	711	25	2	157	2	PAFAH1B2	11	117030719	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	329217	117030719	17975797	1112	17834											
CEP164	22897	broad.mit.edu	37	chr11	117241945	117241945	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagggcgacagggaagtggAgcaagacctggtcttccaga	13	5	15	8	1	1	2	0	0	1	2	2	5	2	4	2	4	1	1	2	4	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:117241945A>T	uc001prc.2	+	9	1062	c.915A>T	c.(913-915)GGA>GGT	p.G305G	CEP164_uc001prb.2_Silent_p.G305G|CEP164_uc010rxk.1_Silent_p.G279G|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	305					cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		AGGGAAGTGGAGCAAGACCTG	0.557													58	105					0	0	0.01441	0	0		T	117241945	T	T	117241945	2	4	20	1	0	0	0	0	0	0	0	1	3252	291	11	5		5	CEP164	11	117241945	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	211226	117241945	17764571	1113	17835											
DSCAML1	57453	broad.mit.edu	37	chr11	117391893	117391893	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcggtctgggccttgcgggTagcgaagcactggtaggccc	5	7	18	11	3	1	0	0	0	1	0	1	1	1	0	2	6	3	3	2	6	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:117391893T>C	uc001prh.1	-	6	1347	c.1345A>G	c.(1345-1347)ACC>GCC	p.T449A	DSCAML1_uc001pri.1_Missense_Mutation_p.T253A	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	389	Extracellular (Potential).|Ig-like C2-type 4.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GCCTTGCGGGTAGCGAAGCAC	0.657													6	89					0	0	0.001984	0	0		C	117391893	C	C	117391893	3	2	20	1	0	0	0	0	1	0	0	0	4775	1638	57	3	5108	3	DSCAML1	11	117391893	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	149948	117391893	17614623	1114	17836											
AMICA1	120425	broad.mit.edu	37	chr11	118081424	118081424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaatagtatagcacatattCgtcctgaagggcaaaacagt	15	10	9	7	1	0	1	0	1	0	0	2	1	1	1	1	1	2	4	1	1	8	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:118081424C>T	uc001psk.2	-	4	376	c.202G>A	c.(202-204)GAA>AAA	p.E68K	AMICA1_uc001psh.2_Missense_Mutation_p.E29K|AMICA1_uc009yzw.1_RNA|AMICA1_uc001psi.2_Missense_Mutation_p.E58K|AMICA1_uc001psj.2_Missense_Mutation_p.E68K|AMICA1_uc010rxw.1_Missense_Mutation_p.E29K|AMICA1_uc010rxx.1_Missense_Mutation_p.E68K|AMICA1_uc001psl.1_Missense_Mutation_p.E24K	NM_001098526	NP_001091996	Q86YT9	JAML1_HUMAN	adhesion molecule, interacts with CXADR antigen	68	Ig-like V-type 1.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	cell junction|integral to membrane				ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		AGCACATATTCGTCCTGAAGG	0.498													25	72					0	0	0.003954	0	0		T	118081424	T	T	118081424	3	4	20	1	0	0	0	0	1	0	0	0	574	893	31	1	1010	1	AMICA1	11	118081424	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	689531	118081424	16925092	1115	17837											
MPZL3	196264	broad.mit.edu	37	chr11	118110974	118110974	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgatatgtccagtctatagtAagtttgtcagtgacatctga	11	14	9	7	1	3	2	1	2	2	0	4	3	4	2	1	0	0	2	1	0	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:118110974A>T	uc001psm.2	-	2	194	c.192T>A	c.(190-192)CTT>CTA	p.L64L	MPZL3_uc010rxy.1_Silent_p.L52L|MPZL3_uc010rxz.1_RNA|MPZL3_uc009yzy.2_Intron	NM_198275	NP_938016	Q6UWV2	MPZL3_HUMAN	myelin protein zero-like 3 precursor	64	Ig-like V-type.				cell adhesion	integral to membrane					0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		AGTCTATAGTAAGTTTGTCAG	0.433													42	115					0	0	0.01441	0	0		T	118110974	T	T	118110974	2	4	20	1	0	0	0	0	0	0	0	1	9769	349	13	5		5	MPZL3	11	118110974	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	29550	118110974	16895542	1116	17838											
MLL	4297	broad.mit.edu	37	chr11	118374596	118374596	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagcgaggcaagagatcAgctgaaggacaggtggatgg	15	4	17	5	1	1	3	1	1	0	2	1	7	1	5	0	5	2	2	0	5	4	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:118374596A>G	uc001pta.2	+	27	8003	c.7980A>G	c.(7978-7980)TCA>TCG	p.S2660S	MLL_uc001ptb.2_Silent_p.S2663S	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2660					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GCAAGAGATCAGCTGAAGGAC	0.453			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								21	57					0	0	0.00278	0	0		G	118374596	G	G	118374596	2	3	20	1	0	0	0	0	0	0	0	1	9638	175	7	3		3	MLL	11	118374596	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	263622	118374596	16631920	1117	17839											
TTC36	143941	broad.mit.edu	37	chr11	118399486	118399486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaccgtgcccaggcccggcGactccagggagacgtggcag	8	3	15	15	4	0	1	0	0	0	1	1	3	1	1	4	4	2	1	4	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:118399486G>A	uc001ptg.1	+	2	287	c.287G>A	c.(286-288)CGA>CAA	p.R96Q	TTC36_uc010ryb.1_RNA|TTC36_uc010ryc.1_Missense_Mutation_p.R37Q|TMEM25_uc010ryd.1_5'Flank|TMEM25_uc001ptk.3_5'Flank|TMEM25_uc010rye.1_5'Flank|TMEM25_uc001pth.2_5'Flank|TMEM25_uc009zad.2_5'Flank|TMEM25_uc001pti.2_5'Flank|TMEM25_uc010ryf.1_5'Flank|TMEM25_uc001ptl.2_5'Flank|TMEM25_uc001ptm.2_5'Flank	NM_001080441	NP_001073910	A6NLP5	TTC36_HUMAN	tetratricopeptide repeat domain 36	96	TPR 2.						binding				0						CAGGCCCGGCGACTCCAGGGA	0.587													4	44					0	0	0.009096	0	0		A	118399486	A	A	118399486	3	1	20	1	0	0	0	0	1	0	0	0	16730	1058	37	1	293	1	TTC36	11	118399486	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	24890	118399486	16607030	1118	17840											
CBL	867	broad.mit.edu	37	chr11	119156153	119156153	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatctgccccaagttccagTgatccctggacaggaagaga	11	8	11	11	0	1	2	0	1	1	1	3	5	3	4	4	2	1	2	4	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:119156153T>C	uc001pwe.2	+	11	1956	c.1818T>C	c.(1816-1818)AGT>AGC	p.S606S		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral	606	Pro-rich.				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		CAAGTTCCAGTGATCCCTGGA	0.562									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome				24	63					0	0	0.003954	0	0		C	119156153	C	C	119156153	2	2	20	1	0	0	0	0	0	0	0	1	2703	1693	59	3		3	CBL	11	119156153	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	756667	119156153	15850363	1119	17841											
TECTA	7007	broad.mit.edu	37	chr11	120996337	120996337	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgacaactgcacccagtgCgacgctgccactgaagccct	9	6	10	16	3	0	1	0	1	0	0	1	3	0	1	3	0	5	2	3	0	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:120996337C>T	uc010rzo.1	+	7	1530	c.1530C>T	c.(1528-1530)TGC>TGT	p.C510C		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	510	VWFD 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GCACCCAGTGCGACGCTGCCA	0.622													42	91					0	0	0.01441	0	0		T	120996337	T	T	120996337	2	4	20	1	0	0	0	0	0	0	0	1	15772	776	27	1		1	TECTA	11	120996337	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1840184	120996337	14010179	1120	17842											
TECTA	7007	broad.mit.edu	37	chr11	121037433	121037433	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccggcatcgagggggaaGattttatctcctttcagatc	9	11	11	10	2	2	2	1	0	1	2	5	4	2	3	2	3	0	2	2	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:121037433G>T	uc010rzo.1	+	17	5530	c.5530G>T	c.(5530-5532)GAT>TAT	p.D1844Y		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1844	ZP.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CGAGGGGGAAGATTTTATCTC	0.498													25	95					1.85244e-09	1.93598e-09	0.00333	1	0		T	121037433	T	T	121037433	3	4	20	1	0	0	0	0	1	0	0	0	15772	942	33	5	5596	5	TECTA	11	121037433	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	41096	121037433	13969083	1121	17843											
TECTA	7007	broad.mit.edu	37	chr11	121038774	121038774	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctgcagtccaatggcacGcatatcatgtataaaaacac	14	10	7	10	1	2	0	1	0	1	0	3	0	3	0	1	1	2	5	1	1	6	4	rs146930070		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:121038774G>A	uc010rzo.1	+	18	5598	c.5598G>A	c.(5596-5598)ACG>ACA	p.T1866T		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1866	ZP.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CCAATGGCACGCATATCATGT	0.443													30	85					0	0	0.009535	0	0		A	121038774	A	A	121038774	2	1	20	1	0	0	0	0	0	0	0	1	15772	1074	38	1		1	TECTA	11	121038774	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1341	121038774	13967742	1122	17844											
OR10G9	219870	broad.mit.edu	37	chr11	123894160	123894160	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccctcctggccaccagcacTtggctcagtggctctctgca	5	9	10	17	0	2	0	1	0	1	0	4	0	3	0	4	3	2	4	4	3	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:123894160T>C	uc010sad.1	+	1	441	c.441T>C	c.(439-441)ACT>ACC	p.T147T		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	147	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CCACCAGCACTTGGCTCAGTG	0.532													6	160					0	0	0.008291	0	0		C	123894160	C	C	123894160	2	2	20	1	0	0	0	0	0	0	0	1	10923	1596	56	3		3	OR10G9	11	123894160	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2855386	123894160	11112356	1123	17845											
OR10G7	390265	broad.mit.edu	37	chr11	123909354	123909354	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatggccaggtagcgatcatAggacatgactgtgtagagga	12	8	15	6	1	1	2	1	1	0	1	1	6	1	4	1	4	1	2	1	4	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:123909354A>G	uc001pzq.1	-	1	355	c.355T>C	c.(355-357)TAT>CAT	p.Y119H		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		TAGCGATCATAGGACATGACT	0.577													33	163					0	0	0.006999	0	0		G	123909354	G	G	123909354	3	3	20	1	0	0	0	0	1	0	0	0	10921	420	15	3	584	3	OR10G7	11	123909354	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	15194	123909354	11097162	1124	17846											
VWA5A	4013	broad.mit.edu	37	chr11	124007961	124007961	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttctgccccattgaagaTaaaatgccaatcaggtaatg	13	11	8	9	0	2	2	1	1	1	1	2	2	2	2	3	1	3	2	3	1	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:124007961T>C	uc001pzu.2	+	15	2074	c.1865T>C	c.(1864-1866)ATA>ACA	p.I622T	VWA5A_uc001pzt.2_Missense_Mutation_p.I622T	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	622										upper_aerodigestive_tract(1)|ovary(1)	2						CCATTGAAGATAAAATGCCAA	0.418													11	78					0	0	0.001855	0	0		C	124007961	C	C	124007961	3	2	20	1	0	0	0	0	1	0	0	0	17268	1406	49	3	1919	3	VWA5A	11	124007961	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	98607	124007961	10998555	1125	17847											
NFRKB	4798	broad.mit.edu	37	chr11	129745274	129745274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtgctggtgacatctggtGcaagaaactgggagtcctta	10	10	14	7	0	1	2	0	1	1	1	2	4	2	3	1	3	3	2	1	3	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr11:129745274G>A	uc001qfi.2	-	18	2033	c.1832C>T	c.(1831-1833)GCA>GTA	p.A611V	NFRKB_uc001qfg.2_Missense_Mutation_p.A636V|NFRKB_uc001qfh.2_Missense_Mutation_p.A634V|NFRKB_uc010sbw.1_Missense_Mutation_p.A621V|NFRKB_uc009zcr.2_5'Flank	NM_001143835	NP_001137307	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein	611					DNA recombination|DNA repair|inflammatory response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Ino80 complex	DNA binding|protease binding			ovary(3)	3	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0167)|Lung(977;0.171)|LUSC - Lung squamous cell carcinoma(976;0.184)		GACATCTGGTGCAAGAAACTG	0.378													10	15					0	0	0.001855	0	0		A	129745274	A	A	129745274	3	1	20	1	0	0	0	0	1	0	0	0	10403	1319	46	2	2107	2	NFRKB	11	129745274	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5737313	129745274	5261242	1126	17848											
KDM5A	5927	broad.mit.edu	37	chr12	420145	420145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacctgtgattccacttgcGgcagtgcttcaagacgcaca	9	10	9	13	2	1	2	1	1	0	1	2	2	2	2	2	1	3	3	2	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:420145G>A	uc001qif.1	-	21	3485	c.3122C>T	c.(3121-3123)CCG>CTG	p.P1041L	KDM5A_uc001qie.1_Missense_Mutation_p.P1041L|KDM5A_uc010sdn.1_Missense_Mutation_p.P1000L	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	1041					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						TTCCACTTGCGGCAGTGCTTC	0.493			T 	NUP98	AML								43	107					0	0	0.007835	0	0		A	420145	A	A	420145	3	1	20	1	0	0	0	0	1	0	0	0	8149	1116	39	1	1982	1	KDM5A	12	420145	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08		420145	133431750	1127	17849											
CCDC77	84318	broad.mit.edu	37	chr12	521059	521059	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaggagctcctggaatattAtcaaaagaagatggctgagt	15	10	11	5	0	1	3	1	1	0	2	2	5	2	5	1	3	1	2	1	3	7	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:521059A>G	uc001qig.2	+	4	365	c.185A>G	c.(184-186)TAT>TGT	p.Y62C	CCDC77_uc009zdk.2_Missense_Mutation_p.Y30C|CCDC77_uc010sdp.1_Missense_Mutation_p.Y30C|CCDC77_uc010sdq.1_Missense_Mutation_p.Y30C	NM_032358	NP_115734	Q9BR77	CCD77_HUMAN	coiled-coil domain containing 77 isoform a	62	Potential.					centrosome				ovary(1)	1	all_cancers(10;0.0149)|all_epithelial(11;0.035)|all_lung(10;0.111)|Ovarian(42;0.142)|Lung NSC(10;0.156)		OV - Ovarian serous cystadenocarcinoma(31;0.00123)|BRCA - Breast invasive adenocarcinoma(9;0.033)			CTGGAATATTATCAAAAGAAG	0.478													4	115					0	0	0.009096	0	0		G	521059	G	G	521059	3	3	20	1	0	0	0	0	1	0	0	0	2854	449	16	3	191	3	CCDC77	12	521059	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	100914	521059	133330836	1128	17850											
B4GALNT3	283358	broad.mit.edu	37	chr12	662881	662881	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaagtggtggcggccgcaGgccaggaaggacaagtggag	11	3	20	7	2	0	0	0	0	0	0	0	4	0	4	2	8	0	1	2	8	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:662881G>T	uc001qii.1	+	14	1792	c.1792G>T	c.(1792-1794)GGC>TGC	p.G598C	B4GALNT3_uc001qij.1_Missense_Mutation_p.G501C|B4GALNT3_uc001qik.1_Missense_Mutation_p.G147C	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	598	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			GGCGGCCGCAGGCCAGGAAGG	0.493													10	32					7.93312e-07	8.20547e-07	0.00245	1	0		T	662881	T	T	662881	3	4	20	1	0	0	0	0	1	0	0	0	1269	1000	35	5	1846	5	B4GALNT3	12	662881	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	141822	662881	133189014	1129	17851											
RAD52	5893	broad.mit.edu	37	chr12	1025529	1025529	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcactcttctcagctgaCggcgtggagactcgaacctg	7	9	10	15	3	3	2	2	1	2	1	5	4	3	2	2	2	2	1	2	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:1025529C>T	uc001qis.1	-	9	960	c.846G>A	c.(844-846)CCG>CCA	p.P282P	RAD52_uc001qit.1_RNA|RAD52_uc010sdt.1_Silent_p.P205P|RAD52_uc001qiu.1_Silent_p.P282P|RAD52_uc001qiv.1_RNA|RAD52_uc001qiw.1_RNA|RAD52_uc010sdu.1_Missense_Mutation_p.V300I	NM_134424	NP_602296	P43351	RAD52_HUMAN	RAD52 homolog	282					DNA recombinase assembly|mitotic recombination|reciprocal meiotic recombination	nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1	all_cancers(10;0.0119)|all_epithelial(11;0.0171)|all_lung(10;0.0521)|Ovarian(42;0.0816)|Lung NSC(10;0.0987)		OV - Ovarian serous cystadenocarcinoma(31;0.00123)|BRCA - Breast invasive adenocarcinoma(9;0.0323)			TCTCAGCTGACGGCGTGGAGA	0.428								Homologous_recombination					6	19					0	0	0.004482	0	0		T	1025529	T	T	1025529	2	4	20	1	0	0	0	0	0	0	0	1	13016	523	19	1		1	RAD52	12	1025529	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	362648	1025529	132826366	1130	17852											
USP5	8078	broad.mit.edu	37	chr12	6972488	6972488	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaggtagccttggtttctAtggcaacgaagacgaagact	13	9	11	8	2	1	2	0	0	1	2	1	4	1	2	1	3	2	3	1	3	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:6972488A>G	uc001qri.3	+	15	1960	c.1901A>G	c.(1900-1902)TAT>TGT	p.Y634C	USP5_uc001qrh.3_Intron	NM_001098536	NP_001092006	P45974	UBP5_HUMAN	ubiquitin specific peptidase 5 isoform 1	634					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process	lysosome	cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			lung(2)|breast(1)|skin(1)	4						CTTGGTTTCTATGGCAACGAA	0.592													4	121					0	0	0.000602	0	0		G	6972488	G	G	6972488	3	3	20	1	0	0	0	0	1	0	0	0	17107	449	16	3	1959	3	USP5	12	6972488	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	5946959	6972488	126879407	1131	17853											
PTPN6	5777	broad.mit.edu	37	chr12	7064594	7064594	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccgagtgttggaactgaaCaagaagcaggagtccgagga	15	5	14	7	2	0	2	0	1	0	1	1	7	1	5	2	3	4	2	2	3	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:7064594C>A	uc001qsb.2	+	6	935	c.693C>A	c.(691-693)AAC>AAA	p.N231K	PTPN6_uc001qsa.1_Missense_Mutation_p.N233K|PTPN6_uc010sfr.1_Missense_Mutation_p.N192K|PTPN6_uc009zfl.1_Missense_Mutation_p.N231K|PTPN6_uc010sfs.1_Missense_Mutation_p.N219K	NM_002831	NP_002822	P29350	PTN6_HUMAN	protein tyrosine phosphatase, non-receptor type	231					apoptosis|cell junction assembly|G-protein coupled receptor protein signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|negative regulation of peptidyl-tyrosine phosphorylation|platelet activation|positive regulation of cell proliferation|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of G1/S transition of mitotic cell cycle|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol|membrane|nucleus	protein binding|protein tyrosine phosphatase activity			breast(1)	1						TGGAACTGAACAAGAAGCAGG	0.592													43	123					1.23713e-20	1.32509e-20	0.01441	1	0		A	7064594	A	A	7064594	3	1	20	1	0	0	0	0	1	0	0	0	12817	477	17	5	733	5	PTPN6	12	7064594	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	92106	7064594	126787301	1132	17854											
C1RL	51279	broad.mit.edu	37	chr12	7249730	7249730	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgagggtcgtctgattctGggcaatgggggtgactggcc	6	9	17	9	2	2	2	0	2	2	0	3	3	2	2	2	5	0	1	2	5	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:7249730G>A	uc001qsn.2	-	6	738	c.721C>T	c.(721-723)CAG>TAG	p.Q241*	C1RL_uc009zft.2_Silent_p.P256P	NM_016546	NP_057630	Q9NZP8	C1RL_HUMAN	complement component 1, r subcomponent-like	241					complement activation, classical pathway|innate immune response|proteolysis		serine-type endopeptidase activity			pancreas(1)	1						GTCTGATTCTGGGCAATGGGG	0.622													18	26					0	0	0.012319	0	0		A	7249730	A	A	7249730	4	1	20	1	0	0	0	0	0	1	0	0	1976	1357	47	4	746	4	C1RL	12	7249730	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	185136	7249730	126602165	1133	17855											
GDF3	9573	broad.mit.edu	37	chr12	7848094	7848094	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagtacattcccgcggacGcccagctcctttacgtagca	9	8	9	15	5	0	0	0	0	0	0	2	2	2	1	3	1	4	4	3	1	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:7848094G>A	uc001qte.2	-	1	267	c.231C>T	c.(229-231)GGC>GGT	p.G77G		NM_020634	NP_065685	Q9NR23	GDF3_HUMAN	growth differentiation factor 3 precursor	77					eye development|growth|skeletal system development	extracellular space	cytokine activity|growth factor activity			skin(3)|ovary(1)|lung(1)|central_nervous_system(1)	6						TCCCGCGGACGCCCAGCTCCT	0.498													10	103					0	0	0.006214	0	0		A	7848094	A	A	7848094	2	1	20	1	0	0	0	0	0	0	0	1	6330	1074	38	1		1	GDF3	12	7848094	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	598364	7848094	126003801	1134	17856											
CLEC4A	50856	broad.mit.edu	37	chr12	8290779	8290779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgatcccaatgagcgctgcGttgtgctaaattttcgtaaa	10	13	10	8	3	0	2	0	2	0	0	2	2	1	2	1	0	3	4	1	0	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:8290779G>A	uc001qtz.1	+	6	857	c.610G>A	c.(610-612)GTT>ATT	p.V204I	CLEC4A_uc009zga.1_Missense_Mutation_p.V165I|CLEC4A_uc001qub.1_Missense_Mutation_p.V171I|CLEC4A_uc001quc.1_Missense_Mutation_p.V132I|CLEC4A_uc009zgb.1_3'UTR	NM_016184	NP_057268	Q9UMR7	CLC4A_HUMAN	C-type lectin domain family 4, member A isoform	204	Extracellular (Potential).|C-type lectin.				cell adhesion|cell surface receptor linked signaling pathway|innate immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0				Kidney(36;0.0915)		TGAGCGCTGCGTTGTGCTAAA	0.438													18	88					0	0	0.00499	0	0		A	8290779	A	A	8290779	3	1	20	1	0	0	0	0	1	0	0	0	3515	1145	40	1	632	1	CLEC4A	12	8290779	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	442685	8290779	125561116	1135	17857											
LOH12CR1	118426	broad.mit.edu	37	chr12	12514227	12514227	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctcacggaacgtcagcaAcgatcccgatgtcatcaagt	11	7	10	13	4	4	0	4	0	0	0	5	3	5	1	2	2	3	1	2	2	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:12514227A>G	uc001ral.2	+	2	512	c.146A>G	c.(145-147)AAC>AGC	p.N49S	LOH12CR1_uc009zhu.2_Intron	NM_058169	NP_477517	Q969J3	L12R1_HUMAN	LOH1CR12	49										ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.0205)		AACGTCAGCAACGATCCCGAT	0.468													5	195					0	0	0.001168	0	0		G	12514227	G	G	12514227	3	3	20	1	0	0	0	0	1	0	0	0	8909	43	2	3	152	3	LOH12CR1	12	12514227	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	4223448	12514227	121337668	1136	17858											
H2AFJ	55766	broad.mit.edu	37	chr12	14927470	14927470	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatcccgctcctcccgcgcGggcctgcagttcccggtggg	4	7	13	17	5	0	0	0	0	0	0	4	0	4	0	5	3	1	3	5	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:14927470G>A	uc009zia.2	+	1	201	c.66G>A	c.(64-66)GCG>GCA	p.A22A	H2AFJ_uc001rch.3_RNA	NM_177925	NP_808760	Q9BTM1	H2AJ_HUMAN	H2A histone family, member J	22					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)	1						CCTCCCGCGCGGGCCTGCAGT	0.677													22	45					0	0	0.00333	0	0		A	14927470	A	A	14927470	2	1	20	1	0	0	0	0	0	0	0	1	6942	1103	39	1		1	H2AFJ	12	14927470	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2413243	14927470	118924425	1137	17859											
KIAA0528	9847	broad.mit.edu	37	chr12	22625276	22625276	+	Frame_Shift_Del	DEL	A	-	-																															aatttctgtattacaactatAaaagcctgtcaaaataaatt																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:22625276delA	uc001rfq.2	-	18	2341	c.2113delT	c.(2113-2115)TATfs	p.Y705fs	KIAA0528_uc010sir.1_Frame_Shift_Del_p.Y520fs|KIAA0528_uc010sis.1_Frame_Shift_Del_p.Y705fs|KIAA0528_uc010sit.1_Frame_Shift_Del_p.Y707fs|KIAA0528_uc010siu.1_Frame_Shift_Del_p.Y705fs|KIAA0528_uc001rfr.2_Frame_Shift_Del_p.Y696fs	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	705							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						TTACAACTATAAAAGCCTGTC	0.234													4	7	---	---	---	---						.	-	22625276	-	-	22625276	7	5	20	1	0	1	0	1	0	0	0	0	8198	362	13	0	921	0	KIAA0528	12	22625276	Frame_Shift_Del	DEL	A	TCGA-BR-4362-01A-01D-1158-08	7697806	22625276	111226619	1138	17860											
ITPR2	3709	broad.mit.edu	37	chr12	26568326	26568326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataatggaaaacaggtagaCgaggatgagagccaggactg	17	5	14	5	1	0	2	0	1	0	2	0	7	0	5	1	4	2	1	1	4	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:26568326C>T	uc001rhg.2	-	51	7633	c.7216G>A	c.(7216-7218)GTC>ATC	p.V2406I	ITPR2_uc009zjg.1_Missense_Mutation_p.V557I	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	2406	Helical; (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					AACAGGTAGACGAGGATGAGA	0.413													56	137					0	0	0.01441	0	0		T	26568326	T	T	26568326	3	4	20	1	0	0	0	0	1	0	0	0	7937	536	19	1	917	1	ITPR2	12	26568326	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3943050	26568326	107283569	1139	17861											
FGD4	121512	broad.mit.edu	37	chr12	32760948	32760948	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatgctagaacctgttcagCggattccccggtatgagatg	10	10	11	10	2	1	2	1	1	0	2	2	4	2	3	3	2	3	3	3	2	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:32760948C>T	uc001rkz.2	+	8	1528	c.1051C>T	c.(1051-1053)CGG>TGG	p.R351W	FGD4_uc001rlc.2_Missense_Mutation_p.R436W|FGD4_uc001rky.2_Missense_Mutation_p.R103W|FGD4_uc001rla.2_Missense_Mutation_p.R7W|FGD4_uc010ske.1_Missense_Mutation_p.R463W|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	351	DH.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					ACCTGTTCAGCGGATTCCCCG	0.383													70	166					0	0	0.01441	0	0		T	32760948	T	T	32760948	3	4	20	1	0	0	0	0	1	0	0	0	5849	759	27	1	1073	1	FGD4	12	32760948	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6192622	32760948	101090947	1140	17862											
PKP2	5318	broad.mit.edu	37	chr12	33031126	33031126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagggatgctgtcaaaaaCggtgtcgctaacagagccat	12	7	13	9	2	1	1	1	0	0	1	2	2	1	2	1	3	4	3	1	3	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:33031126C>T	uc001rlj.3	-	3	803	c.688G>A	c.(688-690)GTT>ATT	p.V230I	PKP2_uc001rlk.3_Missense_Mutation_p.V230I|PKP2_uc010skj.1_Missense_Mutation_p.V230I	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	230					cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					CTGTCAAAAACGGTGTCGCTA	0.602													13	38					0	0	0.00499	0	0		T	33031126	T	T	33031126	3	4	20	1	0	0	0	0	1	0	0	0	12004	536	19	1	2005	1	PKP2	12	33031126	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	270178	33031126	100820769	1141	17863											
C12orf40	283461	broad.mit.edu	37	chr12	40041751	40041751	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcacctactcctcagaaacTtgcatatgaaaaaaagcaga	18	7	6	10	0	1	3	1	1	0	2	2	3	2	3	2	0	5	3	2	0	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:40041751T>G	uc001rmc.2	+	6	709	c.542T>G	c.(541-543)CTT>CGT	p.L181R	C12orf40_uc009zjv.1_RNA	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	181										ovary(6)	6						CCTCAGAAACTTGCATATGAA	0.303													8	51					0	0	0.004482	0	0		G	40041751	G	G	40041751	3	3	20	1	0	0	0	0	1	0	0	0	1689	1609	56	5	564	5	C12orf40	12	40041751	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	7010625	40041751	93810144	1142	17864											
RAPGEF3	10411	broad.mit.edu	37	chr12	48134094	48134094	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaccacacttacctcccaGgtgtgggctaggcggctgat	8	8	12	13	1	0	2	0	1	0	1	1	2	1	2	3	4	1	2	3	4	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:48134094G>T	uc009zkp.2	-	21	2630	c.2190C>A	c.(2188-2190)ACC>ACA	p.T730T	uc001rpv.2_RNA|RAPGEF3_uc001rpw.2_Silent_p.T65T|RAPGEF3_uc001rpx.2_Silent_p.T187T|RAPGEF3_uc010sln.1_Silent_p.T227T|RAPGEF3_uc001rpy.2_RNA|RAPGEF3_uc009zkq.2_Silent_p.T730T|RAPGEF3_uc001rpz.3_Silent_p.T772T	NM_001098532	NP_001092002	A8K2G5	A8K2G5_HUMAN	Rap guanine nucleotide exchange factor 3 isoform	730					regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex	cAMP-dependent protein kinase regulator activity|guanyl-nucleotide exchange factor activity			lung(2)|skin(1)|pancreas(1)	4	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.0375)		TTACCTCCCAGGTGTGGGCTA	0.627													4	82					0.000602214	0.000612082	0.000602	1	0		T	48134094	T	T	48134094	2	4	20	1	0	0	0	0	0	0	0	1	13070	987	35	5		5	RAPGEF3	12	48134094	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	8092343	48134094	85717801	1143	17865											
RAPGEF3	10411	broad.mit.edu	37	chr12	48144859	48144859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgccacagtgagcagggCgtcaggcccccgctgggaga	9	4	16	12	2	1	2	1	1	0	1	1	3	1	2	3	3	2	2	3	3	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:48144859C>T	uc009zkp.2	-	5	957	c.517G>A	c.(517-519)GCC>ACC	p.A173T	RAPGEF3_uc009zkq.2_Missense_Mutation_p.A173T|RAPGEF3_uc001rpz.3_Missense_Mutation_p.A215T|RAPGEF3_uc009zkr.2_Intron|RAPGEF3_uc009zks.2_Missense_Mutation_p.A227T|RAPGEF3_uc001rqb.3_Missense_Mutation_p.A215T	NM_001098532	NP_001092002	A8K2G5	A8K2G5_HUMAN	Rap guanine nucleotide exchange factor 3 isoform	173					regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex	cAMP-dependent protein kinase regulator activity|guanyl-nucleotide exchange factor activity			lung(2)|skin(1)|pancreas(1)	4	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.0375)		GTGAGCAGGGCGTCAGGCCCC	0.632													5	9					0	0	0.000602	0	0		T	48144859	T	T	48144859	3	4	20	1	0	0	0	0	1	0	0	0	13070	768	27	1	2220	1	RAPGEF3	12	48144859	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	10765	48144859	85707036	1144	17866											
COL2A1	1280	broad.mit.edu	37	chr12	48391986	48391986	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggttctcctttctgtcccTgaaacatgaaacattcacag	11	12	6	12	0	3	2	1	2	2	0	5	2	4	2	2	1	2	1	2	1	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:48391986T>C	uc001rqu.2	-	4	491	c.310_splice	c.e4-1	p.G104_splice	COL2A1_uc001rqv.2_Splice_Site_p.G35_splice	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor						axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	TTTCTGTCCCTGAAACATGAA	0.483													29	64					0	0	0.009535	0	0		C	48391986	C	C	48391986	5	2	20	1	0	0	0	0	0	0	1	0	3690	1594	55	3	4359	3	COL2A1	12	48391986	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	247127	48391986	85459909	1145	17867											
ANP32D	23519	broad.mit.edu	37	chr12	48866788	48866788	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccctgaaaaagttagaaaAcctcgagagcttagaccttt	14	9	8	10	1	0	4	0	1	0	3	1	5	0	4	4	0	2	2	4	0	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:48866788A>G	uc010slt.1	+	1	341	c.341A>G	c.(340-342)AAC>AGC	p.N114S		NM_012404	NP_036536	O95626	AN32D_HUMAN	acidic nuclear phosphoprotein 32D	114	LRR 5.									ovary(1)|central_nervous_system(1)	2						AAGTTAGAAAACCTCGAGAGC	0.413													5	106					0	0	0.000602	0	0		G	48866788	G	G	48866788	3	3	20	1	0	0	0	0	1	0	0	0	708	43	2	3	343	3	ANP32D	12	48866788	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	474802	48866788	84985107	1146	17868											
OR8S1	341568	broad.mit.edu	37	chr12	48921860	48921860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgcgcatgctccgcgctgCgcgcggcgcccacggccctg	2	5	14	20	8	0	0	0	0	0	0	1	0	1	0	4	2	3	3	4	2	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:48921860C>T	uc010slu.1	+	2	1054	c.1054C>T	c.(1054-1056)CGC>TGC	p.R352C		NM_001005203	NP_001005203	Q8NH09	OR8S1_HUMAN	olfactory receptor, family 8, subfamily S,	352	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CTCCGCGCTGCGCGCGGCGCC	0.662													7	12					0	0	0.001984	0	0		T	48921860	T	T	48921860	3	4	20	1	0	0	0	0	1	0	0	0	11265	768	27	1	1060	1	OR8S1	12	48921860	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	55072	48921860	84930035	1147	17869											
DNAJC22	79962	broad.mit.edu	37	chr12	49742913	49742913	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgctttgctgcccaggtgatAgttggcatctattttggcct	5	15	11	10	1	1	1	0	1	1	0	1	1	1	1	2	3	2	4	2	3	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:49742913A>G	uc001rua.2	+	2	659	c.258A>G	c.(256-258)ATA>ATG	p.I86M	DNAJC22_uc001rub.2_Missense_Mutation_p.I86M	NM_024902	NP_079178	Q8N4W6	DJC22_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 22	86	Helical; (Potential).				protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			ovary(1)	1						CCCAGGTGATAGTTGGCATCT	0.552													8	316					0	0	0.006214	0	0		G	49742913	G	G	49742913	3	3	20	1	0	0	0	0	1	0	0	0	4647	410	15	3	260	3	DNAJC22	12	49742913	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	821053	49742913	84108982	1148	17870											
NCKAP5L	57701	broad.mit.edu	37	chr12	50188924	50188924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcggtgcttgacctcggCgccaggggctcgctcctggc	2	9	16	14	4	0	1	0	1	0	0	3	1	1	1	3	5	2	4	3	5	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:50188924C>T	uc009zlk.2	-	8	2921	c.2719G>A	c.(2719-2721)GCC>ACC	p.A907T	NCKAP5L_uc001rvc.3_Missense_Mutation_p.A111T|NCKAP5L_uc001rvb.2_Missense_Mutation_p.A500T	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	903										central_nervous_system(1)	1						TTGACCTCGGCGCCAGGGGCT	0.647													7	20					0	0	0.00308	0	0		T	50188924	T	T	50188924	3	4	20	1	0	0	0	0	1	0	0	0	10243	768	27	1	1309	1	NCKAP5L	12	50188924	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	446011	50188924	83662971	1149	17871											
NCKAP5L	57701	broad.mit.edu	37	chr12	50190190	50190190	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgttccgacaggggattcGcgagttccgggggagctggg	6	8	18	9	4	0	0	0	0	0	0	3	4	2	2	2	5	1	3	2	5	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:50190190G>A	uc009zlk.2	-	8	1655	c.1453C>T	c.(1453-1455)CGA>TGA	p.R485*	NCKAP5L_uc001rvc.3_5'Flank|NCKAP5L_uc001rvb.2_Nonsense_Mutation_p.R78*	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	481	Pro-rich.									central_nervous_system(1)	1						CAGGGGATTCGCGAGTTCCGG	0.662													3	10					0	0	0.004672	0	0		A	50190190	A	A	50190190	4	1	20	1	0	0	0	0	0	1	0	0	10243	1095	38	1	2575	1	NCKAP5L	12	50190190	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1266	50190190	83661705	1150	17872											
TFCP2	7024	broad.mit.edu	37	chr12	51492670	51492670	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctgtcaattcaacagcTgttagttcttctagatagat	10	18	6	7	0	5	2	2	0	3	2	5	2	5	2	0	0	2	3	0	0	5	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:51492670T>C	uc001rxw.2	-	13	1767	c.1308A>G	c.(1306-1308)ACA>ACG	p.T436T	TFCP2_uc001rxv.1_Silent_p.T436T|TFCP2_uc009zlx.1_Silent_p.T385T|TFCP2_uc001rxx.2_Silent_p.T358T|TFCP2_uc009zly.1_Silent_p.T338T	NM_005653	NP_005644	Q12800	TFCP2_HUMAN	transcription factor CP2	436					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ATTCAACAGCTGTTAGTTCTT	0.423													9	53					0	0	0.013537	0	0		C	51492670	C	C	51492670	2	2	20	1	0	0	0	0	0	0	0	1	15820	1567	55	3		3	TFCP2	12	51492670	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1302480	51492670	82359225	1151	17873											
SLC4A8	9498	broad.mit.edu	37	chr12	51865289	51865289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccccatccacatgcacaGccagctggaccaccttagcc	10	6	6	19	0	0	0	0	0	0	0	1	1	1	1	7	1	5	2	7	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:51865289G>A	uc001rys.1	+	14	2055	c.1877G>A	c.(1876-1878)AGC>AAC	p.S626N	SLC4A8_uc010sni.1_Missense_Mutation_p.S573N|SLC4A8_uc001rym.2_Missense_Mutation_p.S573N|SLC4A8_uc001ryn.2_Missense_Mutation_p.S573N|SLC4A8_uc001ryo.2_Missense_Mutation_p.S573N|SLC4A8_uc010snj.1_Missense_Mutation_p.S653N|SLC4A8_uc001ryq.3_Missense_Mutation_p.S626N|SLC4A8_uc001ryr.2_Missense_Mutation_p.S626N|SLC4A8_uc010snk.1_Missense_Mutation_p.S573N	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	626	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		CACATGCACAGCCAGCTGGAC	0.413													4	144					0	0	0.009096	0	0		A	51865289	A	A	51865289	3	1	20	1	0	0	0	0	1	0	0	0	14684	971	34	2	1931	2	SLC4A8	12	51865289	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	372619	51865289	81986606	1152	17874											
KRT85	3891	broad.mit.edu	37	chr12	52758133	52758133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctctgctgtggctctcaggGccacctcctcttcatacctg	4	13	8	16	0	4	0	2	0	3	0	7	0	5	0	4	2	2	2	4	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:52758133G>A	uc001sag.2	-	3	767	c.647C>T	c.(646-648)GCC>GTC	p.A216V		NM_002283	NP_002274	P78386	KRT85_HUMAN	keratin 85	216	Rod.|Coil 1B.				epidermis development	keratin filament	protein binding|structural molecule activity			ovary(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		GGCTCTCAGGGCCACCTCCTC	0.562													22	73					0	0	0.00278	0	0		A	52758133	A	A	52758133	3	1	20	1	0	0	0	0	1	0	0	0	8515	1203	42	2	904	2	KRT85	12	52758133	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	892844	52758133	81093762	1153	17875											
KRT72	140807	broad.mit.edu	37	chr12	52981585	52981585	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccgggcatctttcagggcGcagtccccccgctgttcagc	4	8	12	17	3	3	0	2	0	1	0	4	0	4	0	4	2	1	4	4	2	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:52981585G>A	uc001sar.2	-	7	1226	c.1140C>T	c.(1138-1140)TGC>TGT	p.C380C	KRT72_uc001saq.2_Silent_p.C380C|KRT72_uc010sns.1_Silent_p.C338C|KRT72_uc010snt.1_Silent_p.C192C	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	380	Coil 2.|Rod.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		CTTTCAGGGCGCAGTCCCCCC	0.637													17	56					0	0	0.00499	0	0		A	52981585	A	A	52981585	2	1	20	1	0	0	0	0	0	0	0	1	8501	1079	38	1		1	KRT72	12	52981585	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	223452	52981585	80870310	1154	17876											
KRT2	3849	broad.mit.edu	37	chr12	53045454	53045454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttgagaggctgcaggaggCtctggttgacagagacttcg	8	9	16	8	2	1	3	0	2	1	2	2	6	1	4	0	4	1	5	0	4	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:53045454C>T	uc001sat.2	-	1	506	c.473G>A	c.(472-474)AGC>AAC	p.S158N		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	158	Head.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		CTGCAGGAGGCTCTGGTTGAC	0.458													28	106					0	0	0.003271	0	0		T	53045454	T	T	53045454	3	4	20	1	0	0	0	0	1	0	0	0	8473	797	28	2	1482	2	KRT2	12	53045454	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	63869	53045454	80806441	1155	17877											
CSAD	51380	broad.mit.edu	37	chr12	53554090	53554090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcctgggacccatggcagCgcttgagcaggttctgtgtg	5	10	16	10	1	1	1	0	1	1	0	1	2	1	2	2	4	2	4	2	4	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:53554090C>T	uc001sby.2	-	13	1106	c.980G>A	c.(979-981)CGC>CAC	p.R327H	CSAD_uc001sbw.2_Missense_Mutation_p.R180H|CSAD_uc009zmt.2_Missense_Mutation_p.R109H|CSAD_uc010snx.1_Missense_Mutation_p.R354H|CSAD_uc001sbz.2_Missense_Mutation_p.R327H|CSAD_uc009zmu.2_Missense_Mutation_p.R180H|CSAD_uc001sca.3_RNA	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	327					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	CCCATGGCAGCGCTTGAGCAG	0.607									Hereditary_Prostate_Cancer				14	49					0	0	0.003163	0	0		T	53554090	T	T	53554090	3	4	20	1	0	0	0	0	1	0	0	0	3928	768	27	1	517	1	CSAD	12	53554090	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	508636	53554090	80297805	1156	17878											
PFDN5	5204	broad.mit.edu	37	chr12	53691936	53691936	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcacgccatgaaacagggTaagtttttcctggggcacct	11	9	11	10	1	0	1	0	1	0	0	1	1	1	1	3	3	2	4	3	3	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:53691936T>C	uc001scl.2	+	5	505	c.388_splice	c.e5+2	p.A130_splice	PFDN5_uc001scm.2_Splice_Site_p.A85_splice|PFDN5_uc001scn.2_Splice_Site|PFDN5_uc001sco.2_Splice_Site|C12orf10_uc010sof.1_5'Flank|C12orf10_uc001scp.3_5'Flank|C12orf10_uc009zmx.2_5'Flank|C12orf10_uc001scq.3_5'Flank	NM_002624	NP_002615	Q99471	PFD5_HUMAN	prefoldin subunit 5 isoform alpha						'de novo' posttranslational protein folding|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent	nucleus|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)	1						TGAAACAGGGTAAGTTTTTCC	0.468													6	204					0	0	0.001168	0	0		C	53691936	C	C	53691936	5	2	20	1	0	0	0	0	0	0	1	0	11777	1652	57	3	408	3	PFDN5	12	53691936	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	137846	53691936	80159959	1157	17879											
AMHR2	269	broad.mit.edu	37	chr12	53825046	53825046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgagtgtgtacagcagcGcctggctgccttggcccatc	6	9	13	13	1	0	1	0	1	0	0	1	1	0	1	3	2	5	4	3	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:53825046G>A	uc001scx.1	+	11	1589	c.1511G>A	c.(1510-1512)CGC>CAC	p.R504H	AMHR2_uc009zmy.1_3'UTR	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	504	Cytoplasmic (Potential).|Protein kinase.		R -> C (in PMDS2).		Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	GTACAGCAGCGCCTGGCTGCC	0.592									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				43	87					0	0	0.009718	0	0		A	53825046	A	A	53825046	3	1	20	1	0	0	0	0	1	0	0	0	573	1087	38	1	1553	1	AMHR2	12	53825046	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	133110	53825046	80026849	1158	17880											
KIAA0748	9840	broad.mit.edu	37	chr12	55356217	55356217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacctccaacccacttacctCctccaagtcaaaagtgtcct	11	9	3	18	0	1	0	1	0	0	0	5	0	5	0	7	0	2	0	7	0	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:55356217C>T	uc001sgn.3	-	9	1575	c.1465G>A	c.(1465-1467)GAG>AAG	p.E489K	KIAA0748_uc001sgl.3_Missense_Mutation_p.E351K|KIAA0748_uc001sgm.3_Missense_Mutation_p.E236K|KIAA0748_uc010spb.1_Missense_Mutation_p.E236K|KIAA0748_uc010spc.1_Missense_Mutation_p.E351K|KIAA0748_uc010spd.1_Missense_Mutation_p.E489K|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	489										ovary(1)|central_nervous_system(1)	2						CCACTTACCTCCTCCAAGTCA	0.507													7	182					0	0	0.006214	0	0		T	55356217	T	T	55356217	3	4	20	1	0	0	0	0	1	0	0	0	8206	864	30	4	108	4	KIAA0748	12	55356217	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1531171	55356217	78495678	1159	17881											
DNAJC14	85406	broad.mit.edu	37	chr12	56221493	56221493	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaacgagtaaacagtcctActccacagtaaaacccctgg	16	6	7	12	1	0	0	0	0	0	0	2	2	2	0	4	1	4	2	4	1	7	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:56221493A>G	uc001shx.1	-	2	1154	c.950T>C	c.(949-951)GTA>GCA	p.V317A	DNAJC14_uc001shu.1_Missense_Mutation_p.V317A|DNAJC14_uc009zob.1_Missense_Mutation_p.V317A|DNAJC14_uc001shy.1_Missense_Mutation_p.V317A	NM_032364	NP_115740	Q6Y2X3	DJC14_HUMAN	dopamine receptor interacting protein	317	Helical; (Potential).				protein folding|protein transport	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|unfolded protein binding			ovary(3)|large_intestine(1)	4						AAACAGTCCTACTCCACAGTA	0.527													3	94					0	0	0.004672	0	0		G	56221493	G	G	56221493	3	3	20	1	0	0	0	0	1	0	0	0	4639	391	14	3	1182	3	DNAJC14	12	56221493	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	865276	56221493	77630402	1160	17882											
WIBG	84305	broad.mit.edu	37	chr12	56295983	56295983	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctcttgctgctgccgcctCttctcctttcgcttcaggtt	1	18	7	15	2	4	0	1	0	3	0	7	0	4	0	3	1	3	4	3	1	0	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:56295983C>G	uc001sif.1	-	3	440	c.288G>C	c.(286-288)AAG>AAC	p.K96N	WIBG_uc001sie.1_Missense_Mutation_p.K95N	NM_032345	NP_115721	Q9BRP8	WIBG_HUMAN	within bgcn homolog isoform 1	96	Potential.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation	cytoplasm|exon-exon junction complex|nucleolus|nucleoplasm	protein binding|ribosome binding|RNA binding				0						GCTGCCGCCTCTTCTCCTTTC	0.582													21	59					0	0	0.004656	0	0		G	56295983	G	G	56295983	3	3	20	1	0	0	0	0	1	0	0	0	17391	912	32	5	330	5	WIBG	12	56295983	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	74490	56295983	77555912	1161	17883											
ERBB3	2065	broad.mit.edu	37	chr12	56478854	56478854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccattgcccaacctccgcGtggtgcgagggacccaggtc	7	7	12	15	3	0	0	0	0	0	0	2	2	1	1	5	3	4	0	5	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:56478854G>A	uc001sjh.2	+	3	503	c.310G>A	c.(310-312)GTG>ATG	p.V104M	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.V45M|ERBB3_uc001sjg.2_Missense_Mutation_p.V104M	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	104	Extracellular (Potential).		V -> M (in an ovarian mucinous carcinoma sample; somatic mutation).		cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity	p.V104M(1)		lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CAACCTCCGCGTGGTGCGAGG	0.517													56	141					0	0	0.01441	0	0		A	56478854	A	A	56478854	3	1	20	1	0	0	0	0	1	0	0	0	5216	1145	40	1	320	1	ERBB3	12	56478854	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	182871	56478854	77373041	1162	17884											
ERBB3	2065	broad.mit.edu	37	chr12	56482369	56482369	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgtgtcagggcctgtcCtcctgacaagatggaagtag	9	10	12	10	0	1	2	1	1	0	1	4	3	4	3	4	2	0	1	4	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:56482369C>A	uc001sjh.2	+	8	1110	c.917C>A	c.(916-918)CCT>CAT	p.P306H	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.P247H|ERBB3_uc001sji.2_5'UTR	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	306	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			AGGGCCTGTCCTCCTGACAAG	0.478													100	266					4.09449e-47	4.43517e-47	0.01441	1	0		A	56482369	A	A	56482369	3	1	20	1	0	0	0	0	1	0	0	0	5216	681	24	5	1078	5	ERBB3	12	56482369	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3515	56482369	77369526	1163	17885											
SMARCC2	6601	broad.mit.edu	37	chr12	56559290	56559290	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagccacagccaagccaTggactgcgggtggcccagca	9	4	14	14	1	0	0	0	0	0	0	0	2	0	2	4	4	5	1	4	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:56559290T>C	uc001skb.2	-	26	3057	c.2951A>G	c.(2950-2952)CAT>CGT	p.H984R	SMARCC2_uc001skd.2_Missense_Mutation_p.H1015R|SMARCC2_uc001ska.2_Missense_Mutation_p.H1015R|SMARCC2_uc001skc.2_Missense_Mutation_p.H1014R|SMARCC2_uc010sqf.1_Missense_Mutation_p.H904R	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	984	Pro-rich.				chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			AGCCAAGCCATGGACTGCGGG	0.657													4	14					0	0	0.006214	0	0		C	56559290	C	C	56559290	3	2	20	1	0	0	0	0	1	0	0	0	14801	1464	51	3	705	3	SMARCC2	12	56559290	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	76921	56559290	77292605	1164	17886											
STAT2	6773	broad.mit.edu	37	chr12	56749288	56749288	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgttgctggctctccacaGgtgtttcgagaactggctct	6	13	11	11	1	2	1	0	0	2	1	4	2	2	1	1	3	2	5	1	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:56749288G>T	uc001slc.2	-	5	488	c.410C>A	c.(409-411)CCT>CAT	p.P137H	STAT2_uc001sld.2_Missense_Mutation_p.P133H|STAT2_uc010sqn.1_Missense_Mutation_p.P133H	NM_005419	NP_005410	P52630	STAT2_HUMAN	signal transducer and activator of transcription	137					interspecies interaction between organisms|JAK-STAT cascade|regulation of transcription from RNA polymerase II promoter|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	cytosol|nucleoplasm|plasma membrane	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						GCTCTCCACAGGTGTTTCGAG	0.468													108	362					4.53158e-46	4.90611e-46	0.01441	1	0		T	56749288	T	T	56749288	3	4	20	1	0	0	0	0	1	0	0	0	15290	1000	35	5	2225	5	STAT2	12	56749288	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	189998	56749288	77102607	1165	17887											
ATP5B	506	broad.mit.edu	37	chr12	57038606	57038606	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcatcaataggttctccAatgacattcatgattctgcc	10	15	5	11	0	5	2	3	2	2	0	6	2	5	2	2	1	1	1	2	1	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:57038606A>G	uc001slr.2	-	3	549	c.444T>C	c.(442-444)ATT>ATC	p.I148I	SNORD59B_uc001sls.1_5'Flank	NM_001686	NP_001677	P06576	ATPB_HUMAN	mitochondrial ATP synthase beta subunit	148					angiogenesis|ATP hydrolysis coupled proton transport|regulation of intracellular pH|respiratory electron transport chain	cell surface|mitochondrial nucleoid|mitochondrial proton-transporting ATP synthase, catalytic core|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|hydrogen-exporting ATPase activity, phosphorylative mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)	1						TAGGTTCTCCAATGACATTCA	0.413													29	75					0	0	0.007291	0	0		G	57038606	G	G	57038606	2	3	20	1	0	0	0	0	0	0	0	1	1149	126	5	3		3	ATP5B	12	57038606	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	289318	57038606	76813289	1166	17888											
GPR182	11318	broad.mit.edu	37	chr12	57389924	57389924	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcattgactgcttctccatgCtgcactgtgtcatcaacccc	7	13	6	15	0	4	1	3	1	1	0	5	1	4	1	3	0	4	3	3	0	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:57389924C>G	uc001smk.2	+	2	1025	c.931C>G	c.(931-933)CTG>GTG	p.L311V	RDH16_uc010sqx.1_Intron	NM_007264	NP_009195	O15218	GP182_HUMAN	G protein-coupled receptor 182	311	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(1)	1						CTTCTCCATGCTGCACTGTGT	0.542													43	300					0	0	0.010771	0	0		G	57389924	G	G	57389924	3	3	20	1	0	0	0	0	1	0	0	0	6692	796	28	5	933	5	GPR182	12	57389924	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	351318	57389924	76461971	1167	17889											
LRP1	4035	broad.mit.edu	37	chr12	57548011	57548011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtggaacagatggccatcGactggctgacaggcaacttc	11	7	12	11	2	0	2	0	1	0	1	2	4	0	3	1	4	2	2	1	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:57548011G>A	uc001snd.2	+	7	1328	c.862G>A	c.(862-864)GAC>AAC	p.D288N	LRP1_uc001snc.1_Missense_Mutation_p.D288N	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	288	Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GATGGCCATCGACTGGCTGAC	0.517													57	161					0	0	0.01441	0	0		A	57548011	A	A	57548011	3	1	20	1	0	0	0	0	1	0	0	0	8969	1058	37	1	888	1	LRP1	12	57548011	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	158087	57548011	76303884	1168	17890											
R3HDM2	22864	broad.mit.edu	37	chr12	57674225	57674225	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgctgctgctgctgctgTtgctgctgggcagtacaagg	4	12	15	10	0	0	0	0	0	0	0	0	0	0	0	0	2	9	11	0	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:57674225T>C	uc009zpm.1	-	12	1253	c.1218A>G	c.(1216-1218)CAA>CAG	p.Q406Q	R3HDM2_uc010srn.1_RNA|R3HDM2_uc001snu.2_Silent_p.Q67Q|R3HDM2_uc001snr.2_Silent_p.Q133Q|R3HDM2_uc001sns.2_Silent_p.Q406Q|R3HDM2_uc001snt.2_Silent_p.Q420Q|R3HDM2_uc009zpn.1_Silent_p.Q29Q	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	406	Gln-rich.					nucleus	nucleic acid binding			ovary(2)	2						gctgctgctgttgctgctgGG	0.478													4	61					0	0	0.000602	0	0		C	57674225	C	C	57674225	2	2	20	1	0	0	0	0	0	0	0	1	12913	1722	60	3		3	R3HDM2	12	57674225	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	126214	57674225	76177670	1169	17891											
GLI1	2735	broad.mit.edu	37	chr12	57864151	57864151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtctctcttgaacgccgcaGcagcagctccagcagcatca	10	7	9	15	2	3	1	1	1	2	0	5	1	4	1	2	0	6	6	2	0	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:57864151G>A	uc001snx.2	+	12	1706	c.1628G>A	c.(1627-1629)AGC>AAC	p.S543N	GLI1_uc009zpq.2_Missense_Mutation_p.S415N	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	543					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			GAACGCCGCAGCAGCAGCTCC	0.612													27	65					0	0	0.012213	0	0		A	57864151	A	A	57864151	3	1	20	1	0	0	0	0	1	0	0	0	6452	971	34	2	1670	2	GLI1	12	57864151	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	189926	57864151	75987744	1170	17892											
MBD6	114785	broad.mit.edu	37	chr12	57920920	57920920	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gacctgtcccccctacttttCcccccactttcagccccccc	4	10	3	24	0	1	0	1	0	0	0	3	1	3	0	10	0	2	0	10	0	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:57920920C>T	uc001soj.1	+	7	2216	c.1992C>T	c.(1990-1992)TTC>TTT	p.F664F	MBD6_uc001sok.1_Silent_p.F531F|MBD6_uc001sol.1_RNA	NM_052897	NP_443129	Q96DN6	MBD6_HUMAN	methyl-CpG binding domain protein 6	664	Pro-rich.					chromosome|nucleus	chromatin binding|DNA binding			central_nervous_system(3)|ovary(1)	4						CCCTACTTTTCCCCCCACTTT	0.647													10	21					0	0	0.008291	0	0		T	57920920	T	T	57920920	2	4	20	1	0	0	0	0	0	0	0	1	9366	854	30	4		4	MBD6	12	57920920	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	56769	57920920	75930975	1171	17893											
TBK1	29110	broad.mit.edu	37	chr12	64878159	64878159	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaacttatctacgaagggCgacgcttagtcttagaacct	13	10	9	9	3	2	2	0	0	2	2	2	4	2	2	1	1	3	1	1	1	8	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:64878159C>T	uc001ssc.1	+	9	1131	c.1069C>T	c.(1069-1071)CGA>TGA	p.R357*		NM_013254	NP_037386	Q9UHD2	TBK1_HUMAN	TANK-binding kinase 1	357	Ubiquitin-like.				I-kappaB kinase/NF-kappaB cascade|innate immune response|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription from RNA polymerase II promoter|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|large_intestine(1)|breast(1)	5				GBM - Glioblastoma multiforme(28;0.0386)		CTACGAAGGGCGACGCTTAGT	0.373													39	27					0	0	0.00623	0	0		T	64878159	T	T	64878159	4	4	20	1	0	0	0	0	0	1	0	0	15662	760	27	1	1099	1	TBK1	12	64878159	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6957239	64878159	68973736	1172	17894											
RASSF3	283349	broad.mit.edu	37	chr12	65088630	65088630	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcagaacctgaagaggCgctacacagcctacaggcag	13	4	12	12	1	0	3	0	1	0	2	0	3	0	3	2	2	6	4	2	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:65088630C>T	uc001ssd.2	+	5	775	c.655C>T	c.(655-657)CGC>TGC	p.R219C	RASSF3_uc009zqn.2_RNA|RASSF3_uc001sse.2_Missense_Mutation_p.R149C	NM_178169	NP_835463	Q86WH2	RASF3_HUMAN	Ras association (RalGDS/AF-6) domain family	219	SARAH.				signal transduction	cytoplasm|microtubule	identical protein binding				0			Lung(2;0.00133)|LUAD - Lung adenocarcinoma(6;0.0665)|LUSC - Lung squamous cell carcinoma(43;0.132)	GBM - Glioblastoma multiforme(28;0.0611)		CCTGAAGAGGCGCTACACAGC	0.562													41	78					0	0	0.005524	0	0		T	65088630	T	T	65088630	3	4	20	1	0	0	0	0	1	0	0	0	13112	768	27	1	673	1	RASSF3	12	65088630	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	210471	65088630	68763265	1173	17895											
TMBIM4	51643	broad.mit.edu	37	chr12	66531769	66531769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attaactgcttccagaaaccGtaacaggtgcaggaatagat	15	9	9	8	1	0	2	0	0	0	2	1	3	1	3	2	2	5	3	2	2	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:66531769G>A	uc001stc.2	-	7	764	c.688C>T	c.(688-690)CGG>TGG	p.R230W	LLPH_uc010ssx.1_RNA|TMBIM4_uc001std.2_Missense_Mutation_p.R199W|TMBIM4_uc009zqr.2_Missense_Mutation_p.R277W|TMBIM4_uc001ste.2_RNA|TMBIM4_uc001stf.2_3'UTR|TMBIM4_uc009zqs.2_3'UTR	NM_016056	NP_057140	Q9HC24	TMBI4_HUMAN	transmembrane BAX inhibitor motif containing 4	230						integral to membrane	protein binding			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(28;0.0745)		TCCAGAAACCGTAACAGGTGC	0.353													28	132					0	0	0.012213	0	0		A	66531769	A	A	66531769	3	1	20	1	0	0	0	0	1	0	0	0	16007	1144	40	1	32	1	TMBIM4	12	66531769	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1443139	66531769	67320126	1174	17896											
GRIP1	23426	broad.mit.edu	37	chr12	66856867	66856867	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctcccacatgcaatgcGccacatctacggaaaggaga	13	7	9	12	2	2	2	0	1	2	1	3	4	2	3	2	2	3	1	2	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:66856867G>A	uc001stk.2	-	9	1120	c.879C>T	c.(877-879)GGC>GGT	p.G293G	GRIP1_uc010sta.1_Silent_p.G237G|GRIP1_uc001stj.2_Silent_p.G23G|GRIP1_uc001stl.1_Silent_p.G237G|GRIP1_uc001stm.2_Silent_p.G293G	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	293	PDZ 3.				androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		CATGCAATGCGCCACATCTAC	0.468													8	37					0	0	0.004482	0	0		A	66856867	A	A	66856867	2	1	20	1	0	0	0	0	0	0	0	1	6803	1074	38	1		1	GRIP1	12	66856867	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	325098	66856867	66995028	1175	17897											
GRIP1	23426	broad.mit.edu	37	chr12	66909462	66909462	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacattgtttaagaatacTcatggcttcagcatgcgtag	11	13	8	9	1	2	1	2	0	0	1	3	1	3	1	1	1	3	4	1	1	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:66909462T>C	uc001stk.2	-	7	902	c.661A>G	c.(661-663)AGT>GGT	p.S221G	GRIP1_uc010sta.1_Missense_Mutation_p.S165G|GRIP1_uc001stl.1_Missense_Mutation_p.S165G|GRIP1_uc001stm.2_Missense_Mutation_p.S221G	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	221	PDZ 2.				androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		TTAAGAATACTCATGGCTTCA	0.478													44	151					0	0	0.013114	0	0		C	66909462	C	C	66909462	3	2	20	1	0	0	0	0	1	0	0	0	6803	1551	54	3	2641	3	GRIP1	12	66909462	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	52595	66909462	66942433	1176	17898											
CAND1	55832	broad.mit.edu	37	chr12	67696289	67696289	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaaggcagatgtttttcAcgcatacctttctcttttga	9	17	7	8	1	2	2	1	1	1	1	3	2	2	2	1	1	1	4	1	1	3	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:67696289A>G	uc001stn.2	+	8	1624	c.1187A>G	c.(1186-1188)CAC>CGC	p.H396R	CAND1_uc001sto.2_Missense_Mutation_p.H74R	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	396	HEAT 9.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		GATGTTTTTCACGCATACCTT	0.423													6	245					0	0	0.001168	0	0		G	67696289	G	G	67696289	3	3	20	1	0	0	0	0	1	0	0	0	2618	159	6	3	1217	3	CAND1	12	67696289	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	786827	67696289	66155606	1177	17899											
RAP1B	5908	broad.mit.edu	37	chr12	69042539	69042539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctagtcgttcttggctcagGaggcgttggaaagtctgctt	6	13	14	8	2	3	0	1	0	2	0	4	2	3	2	0	4	1	5	0	4	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:69042539G>A	uc001sub.2	+	2	198	c.35G>A	c.(34-36)CGA>CAA	p.R12Q	RAP1B_uc010ste.1_Intron|RAP1B_uc001suc.2_Missense_Mutation_p.G12E|RAP1B_uc010stf.1_Missense_Mutation_p.G12E|RAP1B_uc010stg.1_Missense_Mutation_p.G12E|RAP1B_uc010sth.1_Missense_Mutation_p.G12E|RAP1B_uc010sti.1_Missense_Mutation_p.G12E	NM_001089704	NP_001083173	P61224	RAP1B_HUMAN	SubName: Full=Ras-related protein Rap-1A; SubName: Full=cDNA FLJ75985, highly similar to Homo sapiens RAP1A, member of RAS oncogene family (RAP1A), transcript variant 2, mRNA; SubName: Full=RAP1A, member of RAS oncogene family;	12	GTP.				blood coagulation|energy reserve metabolic process|regulation of establishment of cell polarity|regulation of insulin secretion	cell-cell junction|cytosol	GDP binding|GTP binding|GTPase activity|protein binding				0	Breast(13;1.24e-05)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)	GBM - Glioblastoma multiforme(7;0.000306)		CTTGGCTCAGGAGGCGTTGGA	0.363													6	59					0	0	0.00308	0	0		A	69042539	A	A	69042539	3	1	20	1	0	0	0	0	1	0	0	0	13061	1174	41	4	37	4	RAP1B	12	69042539	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1346250	69042539	64809356	1178	17900											
YEATS4	8089	broad.mit.edu	37	chr12	69756672	69756672	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtggacagtatatgtgaaAccatatagaaatgaggtagg	16	9	12	4	0	0	3	0	2	0	1	0	4	0	4	1	3	1	2	1	3	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:69756672A>G	uc001sux.2	+	2	377	c.156A>G	c.(154-156)AAA>AAG	p.K52K		NM_006530	NP_006521	O95619	YETS4_HUMAN	glioma-amplified sequence-41	52	YEATS.				histone H2A acetylation|histone H4 acetylation|mitosis|positive regulation of transcription, DNA-dependent|regulation of growth	NuA4 histone acetyltransferase complex|nuclear matrix	DNA binding|protein C-terminus binding|sequence-specific DNA binding transcription factor activity|structural constituent of cytoskeleton				0	all_epithelial(5;9.25e-35)|Breast(13;9.83e-07)|Esophageal squamous(21;0.187)		Epithelial(6;6.89e-18)|BRCA - Breast invasive adenocarcinoma(5;3.14e-09)|Lung(24;9.68e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|OV - Ovarian serous cystadenocarcinoma(12;0.00691)|STAD - Stomach adenocarcinoma(21;0.0151)|LUSC - Lung squamous cell carcinoma(43;0.24)|Kidney(9;0.241)			TATATGTGAAACCATATAGAA	0.333													12	211					0	0	0.001855	0	0		G	69756672	G	G	69756672	2	3	20	1	0	0	0	0	0	0	0	1	17499	40	2	3		3	YEATS4	12	69756672	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	714133	69756672	64095223	1179	17901											
FRS2	10818	broad.mit.edu	37	chr12	69968485	69968485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaactttgatatcagacGcccaagtttagaacacaggc	13	11	7	10	1	1	3	1	1	0	2	1	3	1	3	1	1	2	1	1	1	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:69968485G>A	uc001suy.2	+	10	1787	c.1277G>A	c.(1276-1278)CGC>CAC	p.R426H	FRS2_uc001suz.2_Missense_Mutation_p.R426H|FRS2_uc009zrj.2_Missense_Mutation_p.R426H|FRS2_uc009zrk.2_Missense_Mutation_p.R426H	NM_006654	NP_006645	Q8WU20	FRS2_HUMAN	fibroblast growth factor receptor substrate 2	426					activation of MAPKK activity|activation of phospholipase C activity|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|transmembrane receptor protein tyrosine phosphatase signaling pathway	endomembrane system|endosome|integral to plasma membrane|membrane fraction	fibroblast growth factor receptor binding|insulin receptor binding|phosphatase activator activity|transmembrane receptor protein tyrosine kinase adaptor activity			prostate(1)|kidney(1)	2	Breast(13;2.15e-06)|Esophageal squamous(21;0.187)		Epithelial(6;2.94e-18)|Lung(24;9.68e-05)|OV - Ovarian serous cystadenocarcinoma(12;0.000984)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			GATATCAGACGCCCAAGTTTA	0.443													12	33					0	0	0.00245	0	0		A	69968485	A	A	69968485	3	1	20	1	0	0	0	0	1	0	0	0	6075	1087	38	1	1295	1	FRS2	12	69968485	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	211813	69968485	63883410	1180	17902											
PTPRB	5787	broad.mit.edu	37	chr12	70964915	70964915	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaaatcgatactcggttgcGgtatttacaaggtgaaaagg	13	11	12	5	3	0	1	0	1	0	0	2	2	0	1	0	4	3	3	0	4	8	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:70964915G>A	uc001swb.3	-	11	2637	c.2607C>T	c.(2605-2607)ACC>ACT	p.T869T	PTPRB_uc010sto.1_Silent_p.T869T|PTPRB_uc010stp.1_Silent_p.T779T|PTPRB_uc001swc.3_Silent_p.T1087T|PTPRB_uc001swa.3_Silent_p.T999T|PTPRB_uc001swd.3_Silent_p.T1086T|PTPRB_uc009zrr.1_Silent_p.T966T	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	869	Fibronectin type-III 10.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			ACTCGGTTGCGGTATTTACAA	0.453													27	43					0	0	0.004656	0	0		A	70964915	A	A	70964915	2	1	20	1	0	0	0	0	0	0	0	1	12821	1103	39	1		1	PTPRB	12	70964915	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	996430	70964915	62886980	1181	17903											
TRHDE	29953	broad.mit.edu	37	chr12	73046163	73046163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcactactggatgaggatGtctgggaattcatatggatg	10	13	13	5	0	3	1	2	1	1	0	3	5	3	5	0	4	1	0	0	4	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:73046163G>A	uc001sxa.2	+	16	2632	c.2602G>A	c.(2602-2604)GTC>ATC	p.V868I		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	868	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						GGATGAGGATGTCTGGGAATT	0.368													32	80					0	0	0.013726	0	0		A	73046163	A	A	73046163	3	1	20	1	0	0	0	0	1	0	0	0	16505	1377	48	4	2664	4	TRHDE	12	73046163	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2081248	73046163	60805732	1182	17904											
OSBPL8	114882	broad.mit.edu	37	chr12	76784295	76784295	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtcatcttgtctttctgAtgtatctgtgtcactttctt	5	21	7	8	0	7	2	2	2	5	0	7	2	7	2	0	0	0	1	0	0	1	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:76784295A>T	uc001sye.1	-	11	1552	c.1072T>A	c.(1072-1074)TCA>ACA	p.S358T	OSBPL8_uc001syf.1_Missense_Mutation_p.S316T|OSBPL8_uc001syg.1_Missense_Mutation_p.S316T|OSBPL8_uc001syh.1_Missense_Mutation_p.S333T	NM_020841	NP_065892	Q9BZF1	OSBL8_HUMAN	oxysterol-binding protein-like protein 8 isoform	358					lipid transport		lipid binding			ovary(1)	1						TGTCTTTCTGATGTATCTGTG	0.378													25	183					0	0	0.003954	0	0		T	76784295	T	T	76784295	3	4	20	1	0	0	0	0	1	0	0	0	11302	333	12	5	1653	5	OSBPL8	12	76784295	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3738132	76784295	57067600	1183	17905											
ATP2B1	490	broad.mit.edu	37	chr12	90028843	90028843	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatgacctgaccaccccTgatgacagtgaacttctgtt	10	11	8	12	0	1	6	0	6	1	0	1	6	1	6	4	0	1	1	4	0	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:90028843T>C	uc001tbh.2	-	3	773	c.592A>G	c.(592-594)AGG>GGG	p.R198G	ATP2B1_uc001tbg.2_Missense_Mutation_p.R198G	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	198	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						TGACCACCCCTGATGACAGTG	0.408													4	160					0	0	0.000602	0	0		C	90028843	C	C	90028843	3	2	20	1	0	0	0	0	1	0	0	0	1140	1579	55	3	3300	3	ATP2B1	12	90028843	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	13244548	90028843	43823052	1184	17906											
EEA1	8411	broad.mit.edu	37	chr12	93206795	93206795	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcattttgagctgtgtccaaAtgattctgaagatcagctct	10	14	9	8	0	3	4	1	3	2	1	4	4	4	4	1	0	2	3	1	0	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:93206795A>T	uc001tck.2	-	16	2269	c.2004T>A	c.(2002-2004)CAT>CAA	p.H668Q		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	668	Gln/Glu/Lys-rich.|Potential.				early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						CTGTGTCCAAATGATTCTGAA	0.348													4	116					0	0	0.000602	0	0		T	93206795	T	T	93206795	3	4	20	1	0	0	0	0	1	0	0	0	4927	98	4	5	2287	5	EEA1	12	93206795	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3177952	93206795	40645100	1185	17907											
PLXNC1	10154	broad.mit.edu	37	chr12	94642120	94642120	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagaaatcaagatcttaccAccatcctttgcaaaattaaa	17	11	3	10	0	2	2	1	0	1	2	3	2	3	2	3	0	2	1	3	0	8	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:94642120A>G	uc001tdc.2	+	14	2959	c.2710A>G	c.(2710-2712)ACC>GCC	p.T904A		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	904	Extracellular (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						AGATCTTACCACCATCCTTTG	0.388													4	114					0	0	0.009096	0	0		G	94642120	G	G	94642120	3	3	20	1	0	0	0	0	1	0	0	0	12145	159	6	3	2764	3	PLXNC1	12	94642120	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1435325	94642120	39209775	1186	17908											
ANKS1B	56899	broad.mit.edu	37	chr12	100166822	100166822	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccttttcttgacagagttTtatttcatccaagagttttg	9	19	6	7	0	2	3	1	1	1	2	4	3	4	3	2	0	0	2	2	0	2	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:100166822T>G	uc001tge.1	-	8	1423	c.1006A>C	c.(1006-1008)AAA>CAA	p.K336Q	ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Missense_Mutation_p.K302Q	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	336						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		TGACAGAGTTTTATTTCATCC	0.333													16	52					0	0	0.006122	0	0		G	100166822	G	G	100166822	3	3	20	1	0	0	0	0	1	0	0	0	689	1850	64	5	3104	5	ANKS1B	12	100166822	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	5524702	100166822	33685073	1187	17909											
UTP20	27340	broad.mit.edu	37	chr12	101763573	101763573	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatagaaacaaaagcagaGcagctgacaaaacacctctt	18	6	6	11	0	1	3	0	1	1	2	2	3	2	3	2	0	5	3	2	0	6	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:101763573G>A	uc001tia.1	+	49	6615	c.6459G>A	c.(6457-6459)GAG>GAA	p.E2153E		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	2153					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						CAAAAGCAGAGCAGCTGACAA	0.488													27	215					0	0	0.009535	0	0		A	101763573	A	A	101763573	2	1	20	1	0	0	0	0	0	0	0	1	17125	962	34	2		2	UTP20	12	101763573	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1596751	101763573	32088322	1188	17910											
UTP20	27340	broad.mit.edu	37	chr12	101767239	101767239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcgcctatctctttgacacGttccctcaggtactgtgacc	7	13	7	14	2	2	2	1	2	1	0	5	2	3	2	3	1	1	2	3	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:101767239G>A	uc001tia.1	+	53	7095	c.6939G>A	c.(6937-6939)ACG>ACA	p.T2313T		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	2313					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TCTTTGACACGTTCCCTCAGG	0.498													25	80					0	0	0.004656	0	0		A	101767239	A	A	101767239	2	1	20	1	0	0	0	0	0	0	0	1	17125	1132	40	1		1	UTP20	12	101767239	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3666	101767239	32084656	1189	17911											
MYBPC1	4604	broad.mit.edu	37	chr12	102025445	102025445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaatggatggacctggccaGcaaagccgggaagcaccttc	13	5	12	11	1	0	0	0	0	0	0	1	3	0	3	4	4	3	2	4	4	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:102025445G>A	uc001tii.2	+	5	413	c.311G>A	c.(310-312)AGC>AAC	p.S104N	MYBPC1_uc001tif.1_Missense_Mutation_p.S117N|MYBPC1_uc001tig.2_Missense_Mutation_p.S129N|MYBPC1_uc010svq.1_Missense_Mutation_p.S91N|MYBPC1_uc001tih.2_Missense_Mutation_p.S129N|MYBPC1_uc001tij.2_Missense_Mutation_p.S104N|MYBPC1_uc010svr.1_Missense_Mutation_p.S104N|MYBPC1_uc010svs.1_Missense_Mutation_p.S104N|MYBPC1_uc010svt.1_Missense_Mutation_p.S92N|MYBPC1_uc010svu.1_Missense_Mutation_p.S104N|MYBPC1_uc001tik.2_Missense_Mutation_p.S78N	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	104	Ig-like C2-type 1.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						GACCTGGCCAGCAAAGCCGGG	0.507													7	127					0	0	0.001984	0	0		A	102025445	A	A	102025445	3	1	20	1	0	0	0	0	1	0	0	0	10029	971	34	2	412	2	MYBPC1	12	102025445	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	258206	102025445	31826450	1190	17912											
PAH	5053	broad.mit.edu	37	chr12	103288514	103288514	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattcctctaattcttaccTgtgtctttcttcttatctcg	7	20	3	11	1	6	0	0	0	6	0	8	0	7	0	2	0	1	0	2	0	4	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:103288514T>G	uc001tjq.1	-	4	823	c.351A>C	c.(349-351)ACA>ACC	p.T117T	PAH_uc010swc.1_Silent_p.T117T	NM_000277	NP_000268	P00439	PH4H_HUMAN	phenylalanine hydroxylase	117					catecholamine biosynthetic process|L-phenylalanine catabolic process|neurotransmitter biosynthetic process	cytosol	phenylalanine 4-monooxygenase activity			ovary(4)	4					Epinephrine(DB00668)|L-Phenylalanine(DB00120)|Levodopa(DB01235)|Norepinephrine(DB00368)|Tetrahydrobiopterin(DB00360)	AATTCTTACCTGTGTCTTTCT	0.348													4	108					0	0	0.000602	0	0		G	103288514	G	G	103288514	2	3	20	1	0	0	0	0	0	0	0	1	11413	1594	55	5		5	PAH	12	103288514	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1263069	103288514	30563381	1191	17913											
STAB2	55576	broad.mit.edu	37	chr12	103981261	103981261	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaatatttcctcatgatgCtacaacatttagtaattttt	13	17	4	7	0	1	1	1	1	0	0	2	1	2	1	1	0	3	3	1	0	6	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:103981261C>T	uc001tjw.2	+	1	193	c.7C>T	c.(7-9)CTA>TTA	p.L3L		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	3					angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CCTCATGATGCTACAACATTT	0.383													4	52					0	0	0.009096	0	0		T	103981261	T	T	103981261	2	4	20	1	0	0	0	0	0	0	0	1	15263	796	28	2		2	STAB2	12	103981261	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	692747	103981261	29870634	1192	17914											
STAB2	55576	broad.mit.edu	37	chr12	104063344	104063344	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtgctgcaaaggcttctAtggacctgactgcaaccagt	12	9	10	10	0	1	1	0	1	1	0	1	2	1	2	2	2	4	4	2	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:104063344A>G	uc001tjw.2	+	21	2384	c.2198A>G	c.(2197-2199)TAT>TGT	p.Y733C		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	733	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						AAAGGCTTCTATGGACCTGAC	0.448													30	90					0	0	0.009535	0	0		G	104063344	G	G	104063344	3	3	20	1	0	0	0	0	1	0	0	0	15263	449	16	3	2280	3	STAB2	12	104063344	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	82083	104063344	29788551	1193	17915											
CORO1C	23603	broad.mit.edu	37	chr12	109042423	109042423	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcttggggatgctgatcagGtcgcacttcttgtttgcagt	5	16	12	8	1	3	1	1	1	2	0	4	2	3	2	0	3	2	4	0	3	0	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:109042423G>A	uc001tnj.2	-	10	1359	c.1263C>T	c.(1261-1263)GAC>GAT	p.D421D	CORO1C_uc009zva.2_Silent_p.D474D|CORO1C_uc010sxf.1_Silent_p.D384D	NM_014325	NP_055140	Q9ULV4	COR1C_HUMAN	coronin, actin binding protein, 1C isoform 1	421					actin cytoskeleton organization|phagocytosis|signal transduction	actin cytoskeleton	actin filament binding			skin(3)	3						TGCTGATCAGGTCGCACTTCT	0.517													25	96					0	0	0.004656	0	0		A	109042423	A	A	109042423	2	1	20	1	0	0	0	0	0	0	0	1	3758	1252	44	4		4	CORO1C	12	109042423	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4979079	109042423	24809472	1194	17916											
ACACB	32	broad.mit.edu	37	chr12	109702967	109702967	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtattggcgtctgcgccGcctcctcctggaggaccagg	4	9	13	15	3	1	0	0	0	1	0	3	2	3	2	6	4	1	1	6	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:109702967G>T	uc001tob.2	+	51	7114	c.6995G>T	c.(6994-6996)CGC>CTC	p.R2332L	ACACB_uc001toc.2_Missense_Mutation_p.R2332L|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.R998L	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	2332					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CGTCTGCGCCGCCTCCTCCTG	0.627													24	94					2.36697e-06	2.44105e-06	0.007291	1	0		T	109702967	T	T	109702967	3	4	20	1	0	0	0	0	1	0	0	0	107	1087	38	5	7193	5	ACACB	12	109702967	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	660544	109702967	24148928	1195	17917											
MYO1H	283446	broad.mit.edu	37	chr12	109826650	109826650	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagcgagaacctcatatacGtaacgtgacccacttctcag	12	9	7	13	3	3	2	3	1	1	1	4	3	3	2	2	0	4	1	2	0	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:109826650G>A	uc010sxn.1	+	1	126	c.126_splice	c.e1+1	p.Y42_splice		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H							myosin complex	motor activity				0						CCTCATATACGTAACGTGACC	0.478													103	319					0	0	0.01441	0	0		A	109826650	A	A	109826650	5	1	20	1	0	0	0	0	0	0	1	0	10093	1159	40	1	129	1	MYO1H	12	109826650	Splice_Site	SNP	G	TCGA-BR-4362-01A-01D-1158-08	123683	109826650	24025245	1196	17918											
KCTD10	83892	broad.mit.edu	37	chr12	109889420	109889420	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcactggtggaggtgggcccGgtcatcagggcgcttgatgt	5	10	17	9	2	3	1	3	1	0	0	3	2	3	2	1	6	0	1	1	6	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:109889420G>A	uc001toi.1	-	7	1010	c.922C>T	c.(922-924)CGG>TGG	p.R308W	KCTD10_uc001toh.1_RNA|KCTD10_uc009zvi.1_Missense_Mutation_p.R282W|KCTD10_uc001toj.1_Missense_Mutation_p.R317W|KCTD10_uc001tok.1_Missense_Mutation_p.R127W	NM_031954	NP_114160	Q9H3F6	BACD3_HUMAN	potassium channel tetramerisation domain	308					proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0						AGGTGGGCCCGGTCATCAGGG	0.711													11	33					0	0	0.001855	0	0		A	109889420	A	A	109889420	3	1	20	1	0	0	0	0	1	0	0	0	8113	1115	39	1	23	1	KCTD10	12	109889420	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	62770	109889420	23962475	1197	17919											
KCTD10	83892	broad.mit.edu	37	chr12	109889456	109889456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgtggatcctccgcacgcGctcgatccgctcccgctcct	4	9	10	18	6	0	0	0	0	0	0	6	3	5	1	5	1	0	4	5	1	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:109889456G>A	uc001toi.1	-	7	974	c.886C>T	c.(886-888)CGC>TGC	p.R296C	KCTD10_uc001toh.1_RNA|KCTD10_uc009zvi.1_Missense_Mutation_p.R270C|KCTD10_uc001toj.1_Missense_Mutation_p.R305C|KCTD10_uc001tok.1_Missense_Mutation_p.R115C	NM_031954	NP_114160	Q9H3F6	BACD3_HUMAN	potassium channel tetramerisation domain	296					proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0						CTCCGCACGCGCTCGATCCGC	0.716													10	31					0	0	0.00245	0	0		A	109889456	A	A	109889456	3	1	20	1	0	0	0	0	1	0	0	0	8113	1087	38	1	59	1	KCTD10	12	109889456	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	36	109889456	23962439	1198	17920											
GLTP	51228	broad.mit.edu	37	chr12	110290398	110290398	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcagcgttcatctgggtgtAcatctcgtagatgacatcga	9	12	10	10	3	4	2	2	1	2	1	6	3	4	2	0	1	2	3	0	1	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:110290398A>G	uc001tpm.2	-	5	706	c.592T>C	c.(592-594)TAC>CAC	p.Y198H	GLTP_uc010sxt.1_RNA	NM_016433	NP_057517	Q9NZD2	GLTP_HUMAN	glycolipid transfer protein	198						cytoplasm	glycolipid binding|glycolipid transporter activity				0		Lung NSC(355;2.38e-06)|Breast(359;0.00354)|Myeloproliferative disorder(1001;0.0122)		BRCA - Breast invasive adenocarcinoma(302;0.0025)		ATCTGGGTGTACATCTCGTAG	0.547											OREG0022112	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	553					0	0	0.001168	0	0		G	110290398	G	G	110290398	3	3	20	1	0	0	0	0	1	0	0	0	6486	391	14	3	41	3	GLTP	12	110290398	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	400942	110290398	23561497	1199	17921											
ATP2A2	488	broad.mit.edu	37	chr12	110734412	110734412	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttatacaggaaagaaaTgctgaaaatgccatcgaagc	16	10	8	7	1	1	2	0	1	1	1	2	4	1	3	1	1	4	1	1	1	7	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:110734412T>C	uc001tqk.3	+	5	896	c.333T>C	c.(331-333)AAT>AAC	p.N111N	ATP2A2_uc001tql.3_Silent_p.N111N|ATP2A2_uc010sxy.1_Silent_p.N111N	NM_170665	NP_733765	P16615	AT2A2_HUMAN	ATPase, Ca++ transporting, slow twitch 2 isoform	111	Cytoplasmic (By similarity).				ATP biosynthetic process|cell adhesion|epidermis development|platelet activation|sarcoplasmic reticulum calcium ion transport	integral to plasma membrane|microsome|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|protein C-terminus binding|S100 alpha binding			ovary(3)|skin(1)	4						AGGAAAGAAATGCTGAAAATG	0.388													12	168					0	0	0.00245	0	0		C	110734412	C	C	110734412	2	2	20	1	0	0	0	0	0	0	0	1	1138	1461	51	3		3	ATP2A2	12	110734412	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	444014	110734412	23117483	1200	17922											
BRAP	8315	broad.mit.edu	37	chr12	112116963	112116963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aataacttttacctgtgcacGaaactttatcagcaccatat	14	13	4	10	1	1	0	1	0	0	0	1	1	1	0	2	0	5	2	2	0	6	6	rs76800978	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:112116963G>A	uc001tsn.3	-	4	819	c.625C>T	c.(625-627)CGT>TGT	p.R209C	BRAP_uc010syh.1_Missense_Mutation_p.R68C|BRAP_uc009zvv.2_Missense_Mutation_p.R179C	NM_006768	NP_006759	Q7Z569	BRAP_HUMAN	BRCA1 associated protein	209					MAPKKK cascade|negative regulation of signal transduction|Ras protein signal transduction	cytoplasm|ubiquitin ligase complex	identical protein binding|nuclear localization sequence binding|nucleotide binding|ubiquitin-protein ligase activity|zinc ion binding			lung(1)	1						ACCTGTGCACGAAACTTTATC	0.328													19	57					0	0	0.010504	0	0		A	112116963	A	A	112116963	3	1	20	1	0	0	0	0	1	0	0	0	1500	1058	37	1	1189	1	BRAP	12	112116963	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1382551	112116963	21734932	1201	17923											
SLC24A6	80024	broad.mit.edu	37	chr12	113756814	113756814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagatcctctccgttgccGttggtagatccaggtgcaga	8	10	12	11	2	1	3	0	0	1	3	4	4	3	3	4	2	2	4	4	2	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:113756814G>A	uc001tvc.2	-	8	967	c.757C>T	c.(757-759)CGG>TGG	p.R253W	SLC24A6_uc001tuz.2_Translation_Start_Site|SLC24A6_uc001tva.2_RNA|SLC24A6_uc001tvb.2_Translation_Start_Site	NM_024959	NP_079235	Q6J4K2	NCKX6_HUMAN	solute carrier family 24 member 6 precursor	253	Cytoplasmic (Potential).				response to stimulus|sodium ion transport	integral to membrane|plasma membrane	calcium:cation antiporter activity			central_nervous_system(1)	1						CTCCGTTGCCGTTGGTAGATC	0.577													15	44					0	0	0.006122	0	0		A	113756814	A	A	113756814	3	1	20	1	0	0	0	0	1	0	0	0	14495	1144	40	1	1033	1	SLC24A6	12	113756814	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1639851	113756814	20095081	1202	17924											
FBXO21	23014	broad.mit.edu	37	chr12	117627076	117627076	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgaggctacaatcttccGcgcttctaacccagcttttt	9	12	7	13	3	2	0	0	0	2	0	3	2	3	0	2	1	4	3	2	1	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:117627076G>A	uc001twk.2	-	2	370	c.331C>T	c.(331-333)CGG>TGG	p.R111W	FBXO21_uc001twj.2_Missense_Mutation_p.R111W|FBXO21_uc009zwq.2_Missense_Mutation_p.R111W	NM_033624	NP_296373	O94952	FBX21_HUMAN	F-box only protein 21 isoform 1	111					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			kidney(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		ACAATCTTCCGCGCTTCTAAC	0.483													40	108					0	0	0.013114	0	0		A	117627076	A	A	117627076	3	1	20	1	0	0	0	0	1	0	0	0	5747	1086	38	1	1599	1	FBXO21	12	117627076	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3870262	117627076	16224819	1203	17925											
SRRM4	84530	broad.mit.edu	37	chr12	119419710	119419710	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgagcgttcagcaaggcgAgaagcagctttttgagaagt	11	8	15	7	3	1	2	1	1	0	2	1	5	1	2	0	2	4	4	0	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:119419710A>G	uc001txa.1	+	1	315	c.23A>G	c.(22-24)GAG>GGG	p.E8G		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	8					cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						CAGCAAGGCGAGAAGCAGCTT	0.632													5	15					0	0	0.001168	0	0		G	119419710	G	G	119419710	3	3	20	1	0	0	0	0	1	0	0	0	15196	304	11	3	25	3	SRRM4	12	119419710	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1792634	119419710	14432185	1204	17926											
CCDC64	92558	broad.mit.edu	37	chr12	120510351	120510351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggaagcctactgccaggttCgctatctgtgctcacacctt	7	11	10	13	1	2	0	1	0	1	0	3	1	2	1	3	2	4	3	3	2	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:120510351C>T	uc001txl.1	+	6	1151	c.1126C>T	c.(1126-1128)CGC>TGC	p.R376C	CCDC64_uc001txk.2_Missense_Mutation_p.R376C|CCDC64_uc009zwv.1_Intron|CCDC64_uc010sze.1_Intron|CCDC64_uc010szf.1_Missense_Mutation_p.R25C	NM_207311	NP_997194	Q6ZP65	BICR1_HUMAN	coiled-coil domain containing 64	376	Potential.				Golgi to secretory granule transport|neuron projection development	centrosome	dynactin binding|Rab GTPase binding			ovary(2)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTGCCAGGTTCGCTATCTGTG	0.522													40	92					0	0	0.011902	0	0		T	120510351	T	T	120510351	3	4	20	1	0	0	0	0	1	0	0	0	2838	884	31	1	1148	1	CCDC64	12	120510351	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1090641	120510351	13341544	1205	17927											
MLEC	9761	broad.mit.edu	37	chr12	121132904	121132904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcccttttcctaggggtacTatgacaatcccaaggtctgt	8	14	8	11	0	1	1	0	1	1	0	4	1	4	1	3	3	1	1	3	3	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:121132904T>C	uc001tyy.1	+	4	749	c.598T>C	c.(598-600)TAT>CAT	p.Y200H		NM_014730	NP_055545	Q14165	MLEC_HUMAN	malectin precursor	200	Lumenal (Potential).				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	carbohydrate binding			ovary(1)	1						CTAGGGGTACTATGACAATCC	0.493													9	451					0	0	0.008291	0	0		C	121132904	C	C	121132904	3	2	20	1	0	0	0	0	1	0	0	0	9631	1522	53	3	612	3	MLEC	12	121132904	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	622553	121132904	12718991	1206	17928											
CAMKK2	10645	broad.mit.edu	37	chr12	121678610	121678610	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgcctctcacaagagcActtcctcctcccccacgggg	7	7	9	18	1	1	1	1	0	1	1	5	2	4	2	5	3	2	1	5	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:121678610A>G	uc001tzu.2	-	17	1783	c.1659T>C	c.(1657-1659)AGT>AGC	p.S553S	CAMKK2_uc001tzt.2_Missense_Mutation_p.V539A|CAMKK2_uc001tzv.2_Silent_p.S553S|CAMKK2_uc001tzw.2_Silent_p.S510S|CAMKK2_uc001tzx.2_Missense_Mutation_p.V539A|CAMKK2_uc001tzy.2_Missense_Mutation_p.V496A|CAMKK2_uc001tzz.1_Intron|CAMKK2_uc001uaa.1_Intron	NM_006549	NP_006540	Q96RR4	KKCC2_HUMAN	calcium/calmodulin-dependent protein kinase	553					calcium-mediated signaling|MAPKKK cascade|positive regulation of transcription, DNA-dependent|protein autophosphorylation|regulation of protein kinase activity	cytoplasm	ATP binding|calcium ion binding|calmodulin binding|calmodulin-dependent protein kinase activity|protein tyrosine kinase activity			lung(1)|large_intestine(1)|stomach(1)	3	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TCACAAGAGCACTTCCTCCTC	0.652													14	60					0	0	0.00245	0	0		G	121678610	G	G	121678610	2	3	20	1	0	0	0	0	0	0	0	1	2610	159	6	3		3	CAMKK2	12	121678610	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	545706	121678610	12173285	1207	17929											
RNF34	80196	broad.mit.edu	37	chr12	121855521	121855521	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagacttggtggatctagTactgtgccatcatggactag	11	11	12	7	0	2	2	1	0	1	2	2	4	2	4	1	3	2	1	1	3	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:121855521T>C	uc001ual.1	+	3	554	c.440T>C	c.(439-441)GTA>GCA	p.V147A	RNF34_uc010szw.1_Missense_Mutation_p.V148A|RNF34_uc001uak.1_Missense_Mutation_p.V148A|RNF34_uc001uam.1_Missense_Mutation_p.V147A	NM_025126	NP_079402	Q969K3	RNF34_HUMAN	ring finger protein 34 isoform 2	147					apoptosis	endomembrane system|membrane|nuclear speck	ligase activity|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000432)|Epithelial(86;0.00233)		GTGGATCTAGTACTGTGCCAT	0.443													8	218					0	0	0.006214	0	0		C	121855521	C	C	121855521	3	2	20	1	0	0	0	0	1	0	0	0	13514	1638	57	3	463	3	RNF34	12	121855521	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	176911	121855521	11996374	1208	17930											
ORAI1	84876	broad.mit.edu	37	chr12	122079058	122079058	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcacctgtttgcgctcAtgatcagcacctgcatcctg	6	12	9	14	1	2	1	2	1	0	0	3	1	3	1	3	0	4	5	3	0	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:122079058A>G	uc010szz.1	+	3	608	c.415A>G	c.(415-417)ATG>GTG	p.M139V		NM_032790	NP_116179	Q96D31	CRCM1_HUMAN	calcium release-activated calcium channel	139	Helical; (Potential).				platelet activation|positive regulation of calcium ion transport	integral to plasma membrane	protein binding|store-operated calcium channel activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000415)|Epithelial(86;0.00148)		GTTTGCGCTCATGATCAGCAC	0.617													3	34					0	0	0.004672	0	0		G	122079058	G	G	122079058	3	3	20	1	0	0	0	0	1	0	0	0	11276	217	8	3	427	3	ORAI1	12	122079058	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	223537	122079058	11772837	1209	17931											
CLIP1	6249	broad.mit.edu	37	chr12	122826190	122826190	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctacttcctgtactctcaAtgctaggtctttctccagtt	7	16	6	12	0	3	0	1	0	3	0	6	0	4	0	2	1	4	4	2	1	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:122826190A>G	uc001ucg.1	-	10	1667	c.1561T>C	c.(1561-1563)TTG>CTG	p.L521L	CLIP1_uc001uch.1_Silent_p.L510L|CLIP1_uc001uci.1_Silent_p.L475L|CLIP1_uc001ucj.1_Silent_p.L211L|CLIP1_uc009zxo.1_Silent_p.L77L	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	521	Potential.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		TGTACTCTCAATGCTAGGTCT	0.418													4	234					0	0	0.000602	0	0		G	122826190	G	G	122826190	2	3	20	1	0	0	0	0	0	0	0	1	3535	98	4	3		3	CLIP1	12	122826190	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	747132	122826190	11025705	1210	17932											
KNTC1	9735	broad.mit.edu	37	chr12	123060120	123060120	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgccgtgctcaagatcatgTatgcggcagtggttccttgg	7	12	13	9	2	2	1	2	0	0	1	3	1	3	1	2	3	3	4	2	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:123060120T>C	uc001ucv.2	+	28	2576	c.2413T>C	c.(2413-2415)TAT>CAT	p.Y805H	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	805					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		CAAGATCATGTATGCGGCAGT	0.483													4	12					0	0	0.009096	0	0		C	123060120	C	C	123060120	3	2	20	1	0	0	0	0	1	0	0	0	8444	1638	57	3	2519	3	KNTC1	12	123060120	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	233930	123060120	10791775	1211	17933											
HIP1R	9026	broad.mit.edu	37	chr12	123334461	123334461	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acggacagctggtgaatgtcTacaccaagctgctgctgacc	10	8	11	12	1	1	2	0	2	1	0	1	3	1	3	2	2	5	4	2	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:123334461T>G	uc001udj.1	+	5	456	c.397T>G	c.(397-399)TAC>GAC	p.Y133D	HIP1R_uc001udg.1_Missense_Mutation_p.Y121D|HIP1R_uc001udi.1_Missense_Mutation_p.Y133D|HIP1R_uc001udh.2_Missense_Mutation_p.Y133D	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	133	ENTH.				receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		GGTGAATGTCTACACCAAGCT	0.582													5	53					0	0	0.001168	0	0		G	123334461	G	G	123334461	3	3	20	1	0	0	0	0	1	0	0	0	7131	1522	53	5	415	5	HIP1R	12	123334461	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	274341	123334461	10517434	1212	17934											
EIF2B1	1967	broad.mit.edu	37	chr12	124111688	124111688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaccactctggagtaggCgtgagtcaatattgtctgtg	9	11	13	8	1	3	1	1	1	2	0	3	3	3	3	1	3	0	1	1	3	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:124111688C>T	uc001ufm.2	-	5	528	c.385G>A	c.(385-387)GCC>ACC	p.A129T	EIF2B1_uc001ufn.2_Missense_Mutation_p.A129T|EIF2B1_uc010tat.1_Missense_Mutation_p.A129T	NM_001414	NP_001405	Q14232	EI2BA_HUMAN	eukaryotic translation initiation factor 2B,	129					cellular response to stimulus|oligodendrocyte development|regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex|membrane fraction|plasma membrane	protein binding|translation initiation factor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.67e-05)|Epithelial(86;0.000353)|all cancers(50;0.00489)		CTGGAGTAGGCGTGAGTCAAT	0.557													21	94					0	0	0.014323	0	0		T	124111688	T	T	124111688	3	4	20	1	0	0	0	0	1	0	0	0	5006	768	27	1	552	1	EIF2B1	12	124111688	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	777227	124111688	9740207	1213	17935											
DNAH10	196385	broad.mit.edu	37	chr12	124409638	124409638	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcagtttcccgtccccttGggttacgataacaacatcac	10	10	8	13	2	1	0	1	0	0	0	3	2	3	0	3	1	4	3	3	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:124409638G>T	uc001uft.3	+	67	11479	c.11454G>T	c.(11452-11454)TTG>TTT	p.L3818F	DNAH10_uc001ufu.3_5'UTR	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	3818	TPR 4.				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		CCGTCCCCTTGGGTTACGATA	0.473													28	48					1.39806e-14	1.48464e-14	0.008361	1	0		T	124409638	T	T	124409638	3	4	20	1	0	0	0	0	1	0	0	0	4604	1339	47	5	11720	5	DNAH10	12	124409638	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	297950	124409638	9442257	1214	17936											
DNAH10	196385	broad.mit.edu	37	chr12	124419276	124419276	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtggacctgccgatcctgaAgatcatccccattgaagccc	9	9	9	14	1	1	3	1	2	0	1	3	5	3	4	6	1	2	0	6	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:124419276A>C	uc001uft.3	+	77	13257	c.13232A>C	c.(13231-13233)AAG>ACG	p.K4411T	DNAH10_uc001ufu.3_Missense_Mutation_p.K324T	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	4411					microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		CCGATCCTGAAGATCATCCCC	0.537													6	20					0	0	0.00308	0	0		C	124419276	C	C	124419276	3	2	20	1	0	0	0	0	1	0	0	0	4604	72	3	5	13538	5	DNAH10	12	124419276	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	9638	124419276	9432619	1215	17937											
NCOR2	9612	broad.mit.edu	37	chr12	124915170	124915170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccgctcacctctgcatgCgctcctgcagctcgcgctgc	3	8	10	20	4	2	0	1	0	1	0	4	0	3	0	4	0	5	6	4	0	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:124915170C>T	uc010tba.1	-	9	1163	c.1046G>A	c.(1045-1047)CGC>CAC	p.R349H	NCOR2_uc010tay.1_Missense_Mutation_p.R349H|NCOR2_uc010taz.1_Missense_Mutation_p.R349H|NCOR2_uc010tbb.1_Missense_Mutation_p.R349H|NCOR2_uc010tbc.1_Missense_Mutation_p.R349H|NCOR2_uc001ugj.1_Missense_Mutation_p.R349H|NCOR2_uc001ugk.1_Missense_Mutation_p.R349H	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	349					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		CCTCTGCATGCGCTCCTGCAG	0.662													35	81					0	0	0.004878	0	0		T	124915170	T	T	124915170	3	4	20	1	0	0	0	0	1	0	0	0	10255	768	27	1	6678	1	NCOR2	12	124915170	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	495894	124915170	8936725	1216	17938											
NCOR2	9612	broad.mit.edu	37	chr12	124968140	124968140	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagctgggggcccaggcttAccttggtgaggtcttcagat	6	10	14	11	0	2	2	1	1	1	1	2	2	2	2	3	5	2	2	3	5	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:124968140A>G	uc010tba.1	-	3	528	c.411_splice	c.e3+1	p.K137_splice	NCOR2_uc010tay.1_Splice_Site_p.K137_splice|NCOR2_uc010taz.1_Splice_Site_p.K137_splice|NCOR2_uc010tbb.1_Splice_Site_p.K137_splice|NCOR2_uc010tbc.1_Splice_Site_p.K137_splice|NCOR2_uc001ugj.1_Splice_Site_p.K137_splice|NCOR2_uc001ugk.1_Splice_Site_p.K137_splice|uc001ugl.2_5'Flank	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2						cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GCCCAGGCTTACCTTGGTGAG	0.692													6	8					0	0	0.001984	0	0		G	124968140	G	G	124968140	5	3	20	1	0	0	0	0	0	0	1	0	10255	405	14	3	7335	3	NCOR2	12	124968140	Splice_Site	SNP	A	TCGA-BR-4362-01A-01D-1158-08	52970	124968140	8883755	1217	17939											
UBC	7316	broad.mit.edu	37	chr12	125397600	125397600	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgacctcaagggtgatggTcttgccagtgagtgtcttca	7	12	12	10	1	4	2	2	2	2	0	5	3	4	2	2	2	1	0	2	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:125397600T>C	uc001ugs.3	-	2	1166	c.718A>G	c.(718-720)ACC>GCC	p.T240A	UBC_uc001ugr.2_5'Flank|UBC_uc001ugu.1_Missense_Mutation_p.T240A|UBC_uc001ugt.2_Missense_Mutation_p.T240A|UBC_uc001ugv.2_Intron|UBC_uc001ugw.2_Missense_Mutation_p.T88A	NM_021009	NP_066289	P0CG48	UBC_HUMAN	ubiquitin C	240	Ubiquitin-like 4.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.17e-05)|Epithelial(86;0.000207)|all cancers(50;0.00308)		AGGGTGATGGTCTTGCCAGTG	0.507													12	245					0	0	0.013537	0	0		C	125397600	C	C	125397600	3	2	20	1	0	0	0	0	1	0	0	0	16868	1667	58	3	1343	3	UBC	12	125397600	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	429460	125397600	8454295	1218	17940											
EP400	57634	broad.mit.edu	37	chr12	132491389	132491389	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtaaaacagtgcagatcAttgctttttttgcccaccta	10	14	8	9	0	1	1	1	0	0	1	1	1	1	1	2	1	4	3	2	1	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:132491389A>T	uc001ujn.2	+	14	3306	c.3271A>T	c.(3271-3273)ATT>TTT	p.I1091F	EP400_uc001ujl.2_Missense_Mutation_p.I1090F|EP400_uc001ujm.2_Missense_Mutation_p.I1091F	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1127	Interactions with RUVBL1 and RUVBL2.|Helicase ATP-binding.				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		AGTGCAGATCATTGCTTTTTT	0.423													31	91					0	0	0.012213	0	0		T	132491389	T	T	132491389	3	4	20	1	0	0	0	0	1	0	0	0	5157	217	8	5	3322	5	EP400	12	132491389	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	7093789	132491389	1360506	1219	17941											
P2RX2	22953	broad.mit.edu	37	chr12	133197136	133197136	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggctttatcgtggagaaGgctggggagagcttcacaga	9	9	16	7	1	1	3	1	0	0	3	2	5	1	3	0	5	1	3	0	5	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:133197136G>T	uc001ukj.1	+	7	741	c.741G>T	c.(739-741)AAG>AAT	p.K247N	P2RX2_uc001uki.1_Missense_Mutation_p.K247N|P2RX2_uc001ukk.1_Missense_Mutation_p.K247N|P2RX2_uc001ukl.1_Missense_Mutation_p.K223N|P2RX2_uc001ukm.1_Missense_Mutation_p.K175N|P2RX2_uc001ukn.1_Missense_Mutation_p.K155N|P2RX2_uc009zyt.1_Missense_Mutation_p.K247N|P2RX2_uc001uko.1_Missense_Mutation_p.G212C	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	247	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		TCGTGGAGAAGGCTGGGGAGA	0.647													20	56					1.22574e-08	1.27721e-08	0.014323	1	0		T	133197136	T	T	133197136	3	4	20	1	0	0	0	0	1	0	0	0	11359	991	35	5	767	5	P2RX2	12	133197136	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	705747	133197136	654759	1220	17942											
POLE	5426	broad.mit.edu	37	chr12	133254211	133254211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggatgtggtagggaacatCgtactcgcgcatgtccacaa	10	8	13	10	4	0	0	0	0	0	0	3	2	1	2	1	3	2	3	1	3	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr12:133254211C>T	uc001uks.1	-	7	717	c.673G>A	c.(673-675)GAT>AAT	p.D225N	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Missense_Mutation_p.D198N	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	225					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		TAGGGAACATCGTACTCGCGC	0.522								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					21	38					0	0	0.010504	0	0		T	133254211	T	T	133254211	3	4	20	1	0	0	0	0	1	0	0	0	12215	884	31	1	6359	1	POLE	12	133254211	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	57075	133254211	597684	1221	17943											
ZMYM2	7750	broad.mit.edu	37	chr13	20638643	20638643	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattaccacctgtttttggCgaagaatatgaggaacagcc	12	12	9	8	1	0	2	0	1	0	1	0	4	0	3	3	2	3	1	3	2	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:20638643C>T	uc001umr.2	+	20	3388	c.3090C>T	c.(3088-3090)GGC>GGT	p.G1030G	ZMYM2_uc001ums.2_Silent_p.G1030G|ZMYM2_uc001umt.2_Silent_p.G1030G|ZMYM2_uc001umv.2_Silent_p.G410G|ZMYM2_uc001umw.2_Silent_p.G483G	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	1030					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		CTGTTTTTGGCGAAGAATATG	0.348													4	21					0	0	0.000602	0	0		T	20638643	T	T	20638643	2	4	20	1	0	0	0	0	0	0	0	1	17725	755	27	1		1	ZMYM2	13	20638643	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08		20638643	94531235	1222	17944											
LATS2	26524	broad.mit.edu	37	chr13	21563416	21563416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgaagctgggcctccgcGtcactggggttggcatgagc	5	9	15	12	3	1	1	1	1	0	0	3	2	2	1	2	4	2	3	2	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:21563416G>A	uc009zzs.2	-	4	868	c.503C>T	c.(502-504)ACG>ATG	p.T168M	LATS2_uc001unr.3_Missense_Mutation_p.T168M	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	168					cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		GGGCCTCCGCGTCACTGGGGT	0.617													23	83					0	0	0.004656	0	0		A	21563416	A	A	21563416	3	1	20	1	0	0	0	0	1	0	0	0	8663	1145	40	1	2783	1	LATS2	13	21563416	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	924773	21563416	93606462	1223	17945											
SGCG	6445	broad.mit.edu	37	chr13	23853606	23853606	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggttggtacagataaacTtcgagtaactggtatgtact	11	14	11	5	1	0	1	0	0	0	1	1	2	0	1	0	3	4	5	0	3	6	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:23853606T>G	uc001uom.2	+	5	649	c.494T>G	c.(493-495)CTT>CGT	p.L165R	SGCG_uc009zzv.2_Missense_Mutation_p.L165R|SGCG_uc009zzw.2_Missense_Mutation_p.L165R	NM_000231	NP_000222	Q13326	SGCG_HUMAN	gamma sarcoglycan	165	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0		all_cancers(29;4.34e-23)|all_epithelial(30;4.4e-19)|all_lung(29;2.45e-18)|Lung SC(185;0.0228)|Breast(139;0.188)		all cancers(112;0.00255)|Epithelial(112;0.0129)|OV - Ovarian serous cystadenocarcinoma(117;0.0365)|Lung(94;0.205)		ACAGATAAACTTCGAGTAACT	0.388													7	40					0	0	0.004482	0	0		G	23853606	G	G	23853606	3	3	20	1	0	0	0	0	1	0	0	0	14228	1609	56	5	508	5	SGCG	13	23853606	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2290190	23853606	91316272	1224	17946											
SACS	26278	broad.mit.edu	37	chr13	23912055	23912055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaaatcttacgttcttcatgGaaacccaagtagatccatca	14	11	6	10	1	4	1	2	0	2	1	5	3	5	2	2	1	2	2	2	1	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:23912055G>A	uc001uon.2	-	10	6549	c.5960C>T	c.(5959-5961)TCC>TTC	p.S1987F	SACS_uc001uoo.2_Missense_Mutation_p.S1840F|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1987					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GTTCTTCATGGAAACCCAAGT	0.363													31	57					0	0	0.009535	0	0		A	23912055	A	A	23912055	3	1	20	1	0	0	0	0	1	0	0	0	13829	1174	41	4	7783	4	SACS	13	23912055	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	58449	23912055	91257823	1225	17947											
SACS	26278	broad.mit.edu	37	chr13	23929676	23929676	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttggagtctttttacaatAgttacttatagcagttccca	10	16	7	8	0	1	0	0	0	1	0	2	1	2	1	1	1	3	4	1	1	6	9			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:23929676A>G	uc001uon.2	-	8	1664	c.1075T>C	c.(1075-1077)TAT>CAT	p.Y359H	SACS_uc001uoo.2_Missense_Mutation_p.Y212H|SACS_uc001uop.1_Missense_Mutation_p.Y146H|SACS_uc001uoq.1_Missense_Mutation_p.Y212H	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	359					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TTTTTACAATAGTTACTTATA	0.378													6	138					0	0	0.001168	0	0		G	23929676	G	G	23929676	3	3	20	1	0	0	0	0	1	0	0	0	13829	420	15	3	12676	3	SACS	13	23929676	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	17621	23929676	91240202	1226	17948											
RNF17	56163	broad.mit.edu	37	chr13	25367423	25367423	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctaaaaccattgctgtgttAcctcagatgggatctagccc	10	11	8	12	0	2	1	1	0	1	1	2	2	2	2	4	1	4	2	4	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:25367423A>G	uc001upr.2	+	10	1220	c.1179A>G	c.(1177-1179)TTA>TTG	p.L393L	RNF17_uc010tdd.1_Silent_p.L252L|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Silent_p.L393L|RNF17_uc001ups.2_Silent_p.L332L|RNF17_uc001upq.1_Silent_p.L393L	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	393					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		TTGCTGTGTTACCTCAGATGG	0.393													7	286					0	0	0.004482	0	0		G	25367423	G	G	25367423	2	3	20	1	0	0	0	0	0	0	0	1	13486	388	14	3		3	RNF17	13	25367423	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1437747	25367423	89802455	1227	17949											
NUPL1	9818	broad.mit.edu	37	chr13	25887102	25887102	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatctgccacaccatttgCtctacctattacctctacct	9	13	3	16	0	3	0	0	0	3	0	3	0	3	0	5	0	6	2	5	0	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:25887102C>T	uc001uqi.2	+	4	614	c.368C>T	c.(367-369)GCT>GTT	p.A123V	NUPL1_uc001uqg.1_Missense_Mutation_p.A123V|NUPL1_uc001uqj.2_Missense_Mutation_p.A111V	NM_014089	NP_054808	Q9BVL2	NUPL1_HUMAN	nucleoporin like 1 isoform a	123	14 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore					0		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.0092)|Epithelial(112;0.0477)|OV - Ovarian serous cystadenocarcinoma(117;0.165)|GBM - Glioblastoma multiforme(144;0.244)		ACACCATTTGCTCTACCTATT	0.433													5	77					0	0	0.000602	0	0		T	25887102	T	T	25887102	3	4	20	1	0	0	0	0	1	0	0	0	10793	797	28	2	382	2	NUPL1	13	25887102	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	519679	25887102	89282776	1228	17950											
BRCA2	675	broad.mit.edu	37	chr13	32913117	32913117	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggaatctttggacaaagTgaaaaacctttttgatgaaa	18	11	8	4	0	1	3	0	3	1	0	1	5	1	5	1	2	1	0	1	2	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:32913117T>C	uc001uub.1	+	11	4852	c.4625T>C	c.(4624-4626)GTG>GCG	p.V1542A		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1542	BRCA2 4.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TTGGACAAAGTGAAAAACCTT	0.388			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			5	150					0	0	0.000602	0	0		C	32913117	C	C	32913117	3	2	20	1	0	0	0	0	1	0	0	0	1502	1696	59	3	4663	3	BRCA2	13	32913117	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	7026015	32913117	82256761	1229	17951											
KL	9365	broad.mit.edu	37	chr13	33628375	33628375	+	Missense_Mutation	SNP	A	G	G																															agagagatgatgccaaatatAtgtattacctcaaaaagttc																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:33628375A>G	uc001uus.2	+	2	1299	c.1291A>G	c.(1291-1293)ATG>GTG	p.M431V	KL_uc001uur.1_Missense_Mutation_p.M124V	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	431	Glycosyl hydrolase-1 1.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		TGCCAAATATATGTATTACCT	0.363													6	226					0	0	0.001168	0	0		G	33628375	G	G	33628375	3	3	20	1	0	0	0	0	1	0	0	0	8347	449	16	3	1297	3	KL	13	33628375	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	715258	33628375	81541503	1230	17952	28	2									
KL	9365	broad.mit.edu	37	chr13	33628382	33628382	+	Missense_Mutation	SNP	A	G	G																															tgatgccaaatatatgtattAcctcaaaaagttcatcatgg																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:33628382A>G	uc001uus.2	+	2	1306	c.1298A>G	c.(1297-1299)TAC>TGC	p.Y433C	KL_uc001uur.1_Missense_Mutation_p.Y126C	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	433	Glycosyl hydrolase-1 1.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		TATATGTATTACCTCAAAAAG	0.348													6	215					0	0	0.001168	0	0		G	33628382	G	G	33628382	3	3	20	1	0	0	0	0	1	0	0	0	8347	391	14	3	1304	3	KL	13	33628382	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	7	33628382	81541496	1231	17953	28	2									
STARD13	90627	broad.mit.edu	37	chr13	33703571	33703571	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctactatctgtgggagagaGgctttcaatagaaagtgcct	11	11	12	7	0	2	2	1	0	1	2	2	4	2	3	1	2	2	2	1	2	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:33703571G>T	uc001uuw.2	-	5	1369	c.1243C>A	c.(1243-1245)CTC>ATC	p.L415I	STARD13_uc001uuu.2_Missense_Mutation_p.L407I|STARD13_uc001uuv.2_Missense_Mutation_p.L297I|STARD13_uc001uux.2_Missense_Mutation_p.L380I|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Missense_Mutation_p.L400I	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	415					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		GTGGGAGAGAGGCTTTCAATA	0.527													39	72					2.52449e-32	2.72474e-32	0.006999	1	0		T	33703571	T	T	33703571	3	4	20	1	0	0	0	0	1	0	0	0	15281	1000	35	5	2138	5	STARD13	13	33703571	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	75189	33703571	81466307	1232	17954											
DCLK1	9201	broad.mit.edu	37	chr13	36686055	36686055	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccactcccgagtccagcTtgatggcatcggtgatatcg	8	10	10	13	3	1	2	1	2	0	0	5	3	3	2	3	2	1	2	3	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:36686055T>G	uc001uvf.2	-	3	907	c.674A>C	c.(673-675)AAG>ACG	p.K225T		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	225	Doublecortin 2.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		CGAGTCCAGCTTGATGGCATC	0.498													29	169					0	0	0.009535	0	0		G	36686055	G	G	36686055	3	3	20	1	0	0	0	0	1	0	0	0	4294	1609	56	5	1579	5	DCLK1	13	36686055	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2982484	36686055	78483823	1233	17955											
FAM48A	55578	broad.mit.edu	37	chr13	37607598	37607598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaattaccgtttcattgggCgagtgttcatcttttgcttg	6	17	10	8	2	3	0	2	0	1	0	3	1	3	0	1	1	2	4	1	1	2	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:37607598C>T	uc001uwg.2	-	10	943	c.695G>A	c.(694-696)CGC>CAC	p.R232H	FAM48A_uc010abt.2_Missense_Mutation_p.R233H|FAM48A_uc001uwh.2_Missense_Mutation_p.R233H|FAM48A_uc001uwi.2_Missense_Mutation_p.R232H|FAM48A_uc001uwj.2_Missense_Mutation_p.R233H|FAM48A_uc001uwk.2_Missense_Mutation_p.R232H|FAM48A_uc010tes.1_Missense_Mutation_p.R220H|FAM48A_uc001uwl.1_Missense_Mutation_p.R232H	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A	232					autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		TTTCATTGGGCGAGTGTTCAT	0.423													93	395					0	0	0.01441	0	0		T	37607598	T	T	37607598	3	4	20	1	0	0	0	0	1	0	0	0	5586	768	27	1	1712	1	FAM48A	13	37607598	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	921543	37607598	77562280	1234	17956											
CSNK1A1L	122011	broad.mit.edu	37	chr13	37679145	37679145	+	Frame_Shift_Del	DEL	T	-	-																															atgactagcacattgttgtcTttttcctgaccataccagtg																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:37679145delT	uc001uwm.1	-	1	657	c.249delA	c.(247-249)AAAfs	p.K83fs		NM_145203	NP_660204	Q8N752	KC1AL_HUMAN	casein kinase 1, alpha 1-like	83	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)	1		Lung NSC(96;7.97e-05)|Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.109)		all cancers(112;3.58e-07)|Epithelial(112;1.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00695)|BRCA - Breast invasive adenocarcinoma(63;0.0117)|GBM - Glioblastoma multiforme(144;0.0407)		CATTGTTGTCTTTTTCCTGAC	0.468													82	122	---	---	---	---						.	-	37679145	-	-	37679145	7	5	20	1	0	1	0	1	0	0	0	0	3954	1606	56	0	768	0	CSNK1A1L	13	37679145	Frame_Shift_Del	DEL	T	TCGA-BR-4362-01A-01D-1158-08	71547	37679145	77490733	1235	17957											
FREM2	341640	broad.mit.edu	37	chr13	39264653	39264653	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagttactatatgggtgAccatcctgcctgttgatagc	10	12	11	8	0	0	2	0	2	0	0	1	3	1	3	3	2	3	2	3	2	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:39264653A>G	uc001uwv.2	+	1	3481	c.3172A>G	c.(3172-3174)ACC>GCC	p.T1058A		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1058	Extracellular (Potential).|CSPG 7.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TATATGGGTGACCATCCTGCC	0.408													31	204					0	0	0.003755	0	0		G	39264653	G	G	39264653	3	3	20	1	0	0	0	0	1	0	0	0	6059	275	10	3	3174	3	FREM2	13	39264653	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1585508	39264653	75905225	1236	17958											
FREM2	341640	broad.mit.edu	37	chr13	39343783	39343783	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaagcacagaaacaagtgCagttcaacccaggccagacc	16	3	9	13	0	1	2	1	0	0	2	1	2	1	2	3	1	4	4	3	1	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:39343783C>T	uc001uwv.2	+	4	5788	c.5479C>T	c.(5479-5481)CAG>TAG	p.Q1827*	FREM2_uc001uww.2_5'UTR	NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1827	Calx-beta 1.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GAAACAAGTGCAGTTCAACCC	0.473													25	28					0	0	0.005443	0	0		T	39343783	T	T	39343783	4	4	20	1	0	0	0	0	0	1	0	0	6059	711	25	2	5493	2	FREM2	13	39343783	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	79130	39343783	75826095	1237	17959											
C13orf23	80209	broad.mit.edu	37	chr13	39587233	39587233	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaatgaccctgggagagatActgacggattaagagatggg	13	9	14	5	1	0	4	0	2	0	2	0	8	0	6	1	3	1	0	1	3	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:39587233A>G	uc001uwy.2	-	11	3029	c.2156T>C	c.(2155-2157)GTA>GCA	p.V719A	C13orf23_uc001uwz.2_Missense_Mutation_p.V697A	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	719	Ser-rich.									ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		TGGGAGAGATACTGACGGATT	0.483													4	194					0	0	0.000602	0	0		G	39587233	G	G	39587233	3	3	20	1	0	0	0	0	1	0	0	0	1724	391	14	3	690	3	C13orf23	13	39587233	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	243450	39587233	75582645	1238	17960											
DGKH	160851	broad.mit.edu	37	chr13	42764582	42764582	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtgaaccagctaatcaGtcctctgattatgacagcac	11	10	7	13	0	2	3	1	3	1	0	3	3	3	3	3	0	3	2	3	0	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:42764582G>C	uc001uyl.1	+	16	1977	c.1956G>C	c.(1954-1956)CAG>CAC	p.Q652H	DGKH_uc010tfh.1_Missense_Mutation_p.Q652H|DGKH_uc001uym.1_Missense_Mutation_p.Q652H|DGKH_uc010tfi.1_Missense_Mutation_p.Q407H|DGKH_uc010tfj.1_Missense_Mutation_p.Q507H|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Missense_Mutation_p.Q507H|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	652					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		CAGCTAATCAGTCCTCTGATT	0.388													43	160					0	0	0.01441	0	0		C	42764582	C	C	42764582	3	2	20	1	0	0	0	0	1	0	0	0	4476	1020	36	5	2018	5	DGKH	13	42764582	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3177349	42764582	72405296	1239	17961											
SIAH3	283514	broad.mit.edu	37	chr13	46358019	46358019	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacacatgcacaggcagggCgtcaccgggttggcgtgcag	8	5	17	11	3	1	0	1	0	0	0	1	1	1	1	1	5	2	4	1	5	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:46358019C>T	uc001vap.2	-	2	391	c.309G>A	c.(307-309)ACG>ACA	p.T103T		NM_198849	NP_942146	Q8IW03	SIAH3_HUMAN	seven in absentia homolog 3	103	SIAH-type; degenerate.				multicellular organismal development|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding			ovary(1)|skin(1)	2						ACAGGCAGGGCGTCACCGGGT	0.438													48	38					0	0	0.01441	0	0		T	46358019	T	T	46358019	2	4	20	1	0	0	0	0	0	0	0	1	14326	755	27	1		1	SIAH3	13	46358019	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3593437	46358019	68811859	1240	17962											
ZC3H13	23091	broad.mit.edu	37	chr13	46549464	46549464	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttggattcctatcttctcGgatctcttctcgcttttctc	3	20	5	13	2	6	0	0	0	6	0	11	2	7	2	1	2	0	1	1	2	1	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:46549464G>A	uc010tfw.1	-	11	2428	c.2422C>T	c.(2422-2424)CGA>TGA	p.R808*	ZC3H13_uc001vas.1_Nonsense_Mutation_p.R808*|ZC3H13_uc001vat.1_Nonsense_Mutation_p.R808*	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	808	Arg/Glu-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		CTATCTTCTCGGATCTCTTCT	0.323													9	567					0	0	0.004482	0	0		A	46549464	A	A	46549464	4	1	20	1	0	0	0	0	0	1	0	0	17590	1124	39	1	2296	1	ZC3H13	13	46549464	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	191445	46549464	68620414	1241	17963											
SUCLA2	8803	broad.mit.edu	37	chr13	48562777	48562777	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattctgcccttttctcccgTttgcttggtaaacaattttt	6	20	5	10	1	2	0	0	0	2	0	3	0	2	0	2	1	3	3	2	1	4	9			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:48562777T>G	uc001vbs.2	-	4	490	c.433A>C	c.(433-435)ACG>CCG	p.T145P	SUCLA2_uc010tgb.1_Missense_Mutation_p.T85P|SUCLA2_uc010tgc.1_Missense_Mutation_p.T11P|SUCLA2_uc010tgd.1_Missense_Mutation_p.T85P|SUCLA2_uc001vbt.1_RNA|SUCLA2_uc001vbu.1_Missense_Mutation_p.T145P	NM_003850	NP_003841	Q9P2R7	SUCB1_HUMAN	succinate-CoA ligase, ADP-forming, beta subunit	145	ATP-grasp.				succinyl-CoA pathway|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			central_nervous_system(1)	1		all_cancers(8;1.13e-24)|all_epithelial(8;1.78e-13)|all_lung(13;2.85e-06)|Breast(56;0.000141)|Lung NSC(96;0.000226)|all_hematologic(8;0.000885)|Prostate(109;0.00132)|Acute lymphoblastic leukemia(8;0.0167)|Myeloproliferative disorder(33;0.039)|Hepatocellular(98;0.0556)|Lung SC(185;0.102)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(144;2.1e-06)	Succinic acid(DB00139)	TTTTCTCCCGTTTGCTTGGTA	0.353													17	135					0	0	0.004007	0	0		G	48562777	G	G	48562777	3	3	20	1	0	0	0	0	1	0	0	0	15388	1725	60	5	990	5	SUCLA2	13	48562777	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2013313	48562777	66607101	1242	17964											
FNDC3A	22862	broad.mit.edu	37	chr13	49772224	49772224	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagaaataagcgatgatgAgatagaaaatccccattatt	18	10	7	6	1	1	4	1	2	0	3	2	6	2	4	2	0	1	0	2	0	7	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:49772224A>C	uc001vcm.2	+	22	2902	c.2597A>C	c.(2596-2598)GAG>GCG	p.E866A	FNDC3A_uc001vcn.2_Missense_Mutation_p.E866A|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcq.2_Missense_Mutation_p.E810A	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	866	Fibronectin type-III 7.					Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		AGCGATGATGAGATAGAAAAT	0.453													36	185					0	0	0.004289	0	0		C	49772224	C	C	49772224	3	2	20	1	0	0	0	0	1	0	0	0	5983	304	11	5	2690	5	FNDC3A	13	49772224	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1209447	49772224	65397654	1243	17965											
ATP7B	540	broad.mit.edu	37	chr13	52515321	52515321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttgcgcctcagccactcaCggtttccaatcagcacagag	9	8	9	15	3	3	1	3	0	0	1	4	1	4	1	3	1	3	3	3	1	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:52515321C>T	uc001vfw.2	-	16	3609	c.3452G>A	c.(3451-3453)CGT>CAT	p.R1151H	ATP7B_uc010adv.2_Missense_Mutation_p.R721H|ATP7B_uc001vfx.2_Missense_Mutation_p.R944H|ATP7B_uc001vfy.2_Missense_Mutation_p.R1040H|ATP7B_uc010tgt.1_Missense_Mutation_p.R1086H|ATP7B_uc010tgu.1_Missense_Mutation_p.R1103H|ATP7B_uc010tgv.1_Missense_Mutation_p.R1073H|ATP7B_uc001vfv.2_Missense_Mutation_p.R423H|ATP7B_uc010tgs.1_Missense_Mutation_p.R362H	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	1151	Cytoplasmic (Potential).		R -> H (in WD).		ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		CAGCCACTCACGGTTTCCAAT	0.468									Wilson_disease				58	64					0	0	0.01441	0	0		T	52515321	T	T	52515321	3	4	20	1	0	0	0	0	1	0	0	0	1192	536	19	1	969	1	ATP7B	13	52515321	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2743097	52515321	62654557	1244	17966											
LECT1	11061	broad.mit.edu	37	chr13	53277901	53277901	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatacaacagattccttcGtgatccagtctagggtcgaa	11	12	8	10	2	2	2	0	1	2	1	6	3	4	2	2	1	2	0	2	1	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:53277901G>A	uc001vhf.2	-	7	945	c.834C>T	c.(832-834)CAC>CAT	p.H278H	LECT1_uc001vhg.2_Silent_p.H277H|LECT1_uc001vhh.2_Silent_p.H267H	NM_007015	NP_008946	O75829	LECT1_HUMAN	leukocyte cell derived chemotaxin 1 isoform 1	278					cartilage development|proteoglycan metabolic process	endomembrane system|extracellular region|integral to membrane				ovary(2)	2		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.38e-08)		AGATTCCTTCGTGATCCAGTC	0.448													40	122					0	0	0.00874	0	0		A	53277901	A	A	53277901	2	1	20	1	0	0	0	0	0	0	0	1	8728	1136	40	1		1	LECT1	13	53277901	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	762580	53277901	61891977	1245	17967											
PCDH9	5101	broad.mit.edu	37	chr13	67801672	67801672	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attatttaaagcaaagagtcTtttggttgcaggggcgacct	11	13	11	6	1	1	1	0	0	1	1	1	2	1	1	1	3	2	3	1	3	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:67801672T>C	uc001vik.2	-	2	1593	c.901A>G	c.(901-903)AGA>GGA	p.R301G	PCDH9_uc001vil.2_Missense_Mutation_p.R301G|PCDH9_uc010thl.1_Missense_Mutation_p.R301G|PCDH9_uc001vin.3_Missense_Mutation_p.R301G	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	301	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GCAAAGAGTCTTTTGGTTGCA	0.458													34	146					0	0	0.003271	0	0		C	67801672	C	C	67801672	3	2	20	1	0	0	0	0	1	0	0	0	11537	1617	56	3	2828	3	PCDH9	13	67801672	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	14523771	67801672	47368206	1246	17968											
TBC1D4	9882	broad.mit.edu	37	chr13	75886963	75886963	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagatccggcgaggagtgAcagaggttcctcccacactt	10	7	13	11	2	0	3	0	1	0	2	3	6	3	4	3	4	0	1	3	4	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:75886963A>G	uc001vjl.1	-	13	2641	c.2294T>C	c.(2293-2295)GTC>GCC	p.V765A	TBC1D4_uc010tht.1_5'UTR|TBC1D4_uc010thu.1_5'UTR|TBC1D4_uc010aer.2_Missense_Mutation_p.V757A|TBC1D4_uc010aes.2_Missense_Mutation_p.V702A	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	765						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		GCGAGGAGTGACAGAGGTTCC	0.498													21	67					0	0	0.012319	0	0		G	75886963	G	G	75886963	3	3	20	1	0	0	0	0	1	0	0	0	15647	275	10	3	1638	3	TBC1D4	13	75886963	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	8085291	75886963	39282915	1247	17969											
TPP2	7174	broad.mit.edu	37	chr13	103282504	103282504	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtattcactgagagagaaAttacctgcaaatcaatatac	17	10	7	7	0	2	2	2	1	0	2	2	5	2	2	1	0	3	2	1	0	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:103282504A>G	uc001vpi.3	+	10	1306	c.1203A>G	c.(1201-1203)AAA>AAG	p.K401K		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	401					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TGAGAGAGAAATTACCTGCAA	0.398													20	153					0	0	0.010504	0	0		G	103282504	G	G	103282504	2	3	20	1	0	0	0	0	0	0	0	1	16438	98	4	3		3	TPP2	13	103282504	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	27395541	103282504	11887374	1248	17970											
MYO16	23026	broad.mit.edu	37	chr13	109859071	109859071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagcagatcctgcaccacGctgagcccagggtgcctccc	7	5	12	17	1	0	2	0	1	0	1	2	2	2	2	5	2	4	4	5	2	0	0	rs139848765	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:109859071G>A	uc001vqt.1	+	35	5590	c.5464G>A	c.(5464-5466)GCT>ACT	p.A1822T	MYO16_uc010agk.1_Missense_Mutation_p.A1844T	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1822					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			CCTGCACCACGCTGAGCCCAG	0.602													17	68					0	0	0.00499	0	0		A	109859071	A	A	109859071	3	1	20	1	0	0	0	0	1	0	0	0	10082	1087	38	1	5598	1	MYO16	13	109859071	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6576567	109859071	5310807	1249	17971											
COL4A1	1282	broad.mit.edu	37	chr13	110802784	110802784	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccttcaaggtggacggcgTaggcttcctaaaacacgaca	11	8	11	11	3	1	0	1	0	0	0	2	2	2	1	2	4	2	2	2	4	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:110802784T>C	uc001vqw.3	-	52	5058	c.4936A>G	c.(4936-4938)ACG>GCG	p.T1646A	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1646	Collagen IV NC1.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			GTGGACGGCGTAGGCTTCCTA	0.532													10	43					0	0	0.010729	0	0		C	110802784	C	C	110802784	3	2	20	1	0	0	0	0	1	0	0	0	3692	1638	57	3	77	3	COL4A1	13	110802784	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	943713	110802784	4367094	1250	17972											
CARKD	55739	broad.mit.edu	37	chr13	111286940	111286940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatccctgttgtcatcgacGcggtgagttgacttctctcc	6	13	9	13	3	2	2	1	2	1	0	6	3	4	2	2	1	0	2	2	1	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:111286940G>A	uc001vrb.2	+	6	558	c.544G>A	c.(544-546)GCG>ACG	p.A182T	CARKD_uc010tji.1_Missense_Mutation_p.A119T|CARKD_uc010tjj.1_Missense_Mutation_p.A164T|CARKD_uc001vqz.2_RNA|CARKD_uc001vra.2_RNA|CARKD_uc010tjk.1_Missense_Mutation_p.A72T|CARKD_uc010tjl.1_Missense_Mutation_p.A51T|CARKD_uc001vrc.2_Missense_Mutation_p.A182T			Q8IW45	CARKD_HUMAN	RecName: Full=Carbohydrate kinase domain-containing protein; Flags: Precursor;	182	YjeF C-terminal.									skin(1)	1						TGTCATCGACGCGGTGAGTTG	0.547													20	75					0	0	0.010504	0	0		A	111286940	A	A	111286940	3	1	20	1	0	0	0	0	1	0	0	0	2657	1087	38	1	566	1	CARKD	13	111286940	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	484156	111286940	3882938	1251	17973											
ARHGEF7	8874	broad.mit.edu	37	chr13	111870075	111870075	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtagtaagagcaaagtttaActtccagcagaccaatgagg	15	8	11	7	0	0	3	0	1	0	2	1	3	1	3	2	2	3	5	2	2	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:111870075A>G	uc001vrs.2	+	6	831	c.581A>G	c.(580-582)AAC>AGC	p.N194S	ARHGEF7_uc001vrr.2_Missense_Mutation_p.N173S|ARHGEF7_uc001vrt.2_Missense_Mutation_p.N144S|ARHGEF7_uc010tjn.1_RNA|ARHGEF7_uc001vru.1_Missense_Mutation_p.N16S|ARHGEF7_uc001vrv.3_Missense_Mutation_p.N16S|ARHGEF7_uc001vrw.3_Missense_Mutation_p.N16S|ARHGEF7_uc001vrx.3_Missense_Mutation_p.N16S|ARHGEF7_uc010tjo.1_Missense_Mutation_p.N91S	NM_001113511	NP_001106983	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform c	194	SH3.				apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			GCAAAGTTTAACTTCCAGCAG	0.463													4	218					0	0	0.000602	0	0		G	111870075	G	G	111870075	3	3	20	1	0	0	0	0	1	0	0	0	911	43	2	3	603	3	ARHGEF7	13	111870075	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	583135	111870075	3299803	1252	17974											
FAM70B	348013	broad.mit.edu	37	chr13	114507957	114507957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgcaggcttccgcctgacgCccgagcccgtcccgacctgc	5	5	11	20	6	0	1	0	1	0	0	2	3	2	1	6	1	2	2	6	1	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:114507957C>T	uc001vuh.2	+	8	796	c.769C>T	c.(769-771)CCC>TCC	p.P257S		NM_182614	NP_872420	Q8WV15	FA70B_HUMAN	family with sequence similarity 70, member B	257	Pro-rich.					integral to membrane					0	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.123)|all_epithelial(44;0.133)	all cancers(43;0.181)			CCGCCTGACGCCCGAGCCCGT	0.677													14	60					0	0	0.006122	0	0		T	114507957	T	T	114507957	3	4	20	1	0	0	0	0	1	0	0	0	5620	739	26	2	799	2	FAM70B	13	114507957	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2637882	114507957	661921	1253	17975											
RASA3	22821	broad.mit.edu	37	chr13	114786967	114786967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctccaaacttcaggttactgGcattccagaggtcaactctg	10	11	8	12	0	3	1	2	0	1	1	5	1	5	1	2	3	3	2	2	3	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:114786967G>A	uc001vui.2	-	9	829	c.698C>T	c.(697-699)GCC>GTC	p.A233V	RASA3_uc010tkk.1_Missense_Mutation_p.A201V|RASA3_uc001vuj.2_5'UTR|RASA3_uc010tkl.1_RNA|RASA3_uc010aha.1_RNA	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	233	C2 2.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			CAGGTTACTGGCATTCCAGAG	0.537													13	28					0	0	0.013537	0	0		A	114786967	A	A	114786967	3	1	20	1	0	0	0	0	1	0	0	0	13087	1203	42	2	1870	2	RASA3	13	114786967	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	279010	114786967	382911	1254	17976											
CDC16	8881	broad.mit.edu	37	chr13	115007699	115007699	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctttgaagcttgatgtctActgttttgaagcgttcgatc	8	16	10	7	2	1	3	0	3	1	0	3	4	1	3	0	0	4	4	0	0	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr13:115007699A>G	uc001vuk.1	+	6	683	c.485A>G	c.(484-486)TAC>TGC	p.Y162C	CDC16_uc010tkm.1_Missense_Mutation_p.Y162C|CDC16_uc001vul.1_Missense_Mutation_p.Y162C|CDC16_uc001vum.1_Missense_Mutation_p.Y68C|CDC16_uc001vun.1_Missense_Mutation_p.Y161C|CDC16_uc001vuo.1_Missense_Mutation_p.Y161C	NM_003903	NP_003894	Q13042	CDC16_HUMAN	anaphase-promoting complex, subunit 6	162	TPR 1.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cell proliferation|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	binding				0	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)			CTTGATGTCTACTGTTTTGAA	0.388													3	192					0	0	0.004672	0	0		G	115007699	G	G	115007699	3	3	20	1	0	0	0	0	1	0	0	0	3061	391	14	3	507	3	CDC16	13	115007699	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	220732	115007699	162179	1255	17977											
OR4N2	390429	broad.mit.edu	37	chr14	20296294	20296294	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcgcatacgagggtcttcTtctgaggcaaaaaacaaggc	12	9	11	9	2	3	1	0	1	3	0	4	2	3	1	0	3	2	2	0	3	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:20296294T>G	uc010tkv.1	+	1	687	c.687T>G	c.(685-687)TCT>TCG	p.S229S		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GAGGGTCTTCTTCTGAGGCAA	0.488													22	171					0	0	0.010504	0	0		G	20296294	G	G	20296294	2	3	20	1	0	0	0	0	0	0	0	1	11096	1596	56	5		5	OR4N2	14	20296294	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08		20296294	87053246	1256	17978											
TEP1	7011	broad.mit.edu	37	chr14	20849766	20849766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcctcttcccatagcaacGtttagctgctgttctcaggg	6	13	10	12	1	2	0	1	0	2	0	4	0	3	0	2	2	4	5	2	2	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:20849766G>A	uc001vxe.2	-	31	4544	c.4504C>T	c.(4504-4506)CGT>TGT	p.R1502C	TEP1_uc010ahk.2_Missense_Mutation_p.R845C|TEP1_uc010tlf.1_Intron|TEP1_uc010tlg.1_Missense_Mutation_p.R1394C|TEP1_uc010tlh.1_Intron	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1502					telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		CCATAGCAACGTTTAGCTGCT	0.627													21	128					0	0	0.012319	0	0		A	20849766	A	A	20849766	3	1	20	1	0	0	0	0	1	0	0	0	15784	1145	40	1	3479	1	TEP1	14	20849766	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	553472	20849766	86499774	1257	17979											
FLJ10357	55701	broad.mit.edu	37	chr14	21552988	21552988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgaaagaagtgccttcGccatgtctttctcttcgagc	7	12	10	12	3	2	1	0	0	2	1	5	3	2	1	3	1	2	0	3	1	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:21552988G>A	uc001vzp.2	+	18	3895	c.3866G>A	c.(3865-3867)CGC>CAC	p.R1289H	FLJ10357_uc001vzo.1_Missense_Mutation_p.R368H|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_Missense_Mutation_p.R575H	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	1289	PH.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		AAGTGCCTTCGCCATGTCTTT	0.507													39	131					0	0	0.013114	0	0		A	21552988	A	A	21552988	3	1	20	1	0	0	0	0	1	0	0	0	5940	1087	38	1	3936	1	FLJ10357	14	21552988	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	703222	21552988	85796552	1258	17980											
RPGRIP1	57096	broad.mit.edu	37	chr14	21792816	21792816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttatggcacccgaccgttgtCgttatgtttggaaacactgc	8	13	10	10	3	0	0	0	0	0	0	1	2	0	1	2	2	2	4	2	2	3	4	rs3748360	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:21792816C>T	uc001wag.2	+	14	1802	c.1802C>T	c.(1801-1803)TCG>TTG	p.S601L	RPGRIP1_uc001wah.2_Missense_Mutation_p.S243L|RPGRIP1_uc001wai.2_Intron|RPGRIP1_uc001waj.1_Missense_Mutation_p.S66L|RPGRIP1_uc001wak.2_Missense_Mutation_p.S76L|RPGRIP1_uc010aim.2_Intron|RPGRIP1_uc001wal.2_Missense_Mutation_p.R10C|RPGRIP1_uc001wam.2_5'UTR	NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	601					response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		CGACCGTTGTCGTTATGTTTG	0.473													40	82					0	0	0.013114	0	0		T	21792816	T	T	21792816	3	4	20	1	0	0	0	0	1	0	0	0	13574	893	31	1	1856	1	RPGRIP1	14	21792816	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	239828	21792816	85556724	1259	17981											
SUPT16H	11198	broad.mit.edu	37	chr14	21830483	21830483	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacggacatacttatatTctgttcaaaggaaaagcata	15	12	6	8	1	2	0	1	0	1	0	3	2	3	2	1	2	2	2	1	2	7	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:21830483T>C	uc001wao.2	-	15	2005	c.1666A>G	c.(1666-1668)AAT>GAT	p.N556D		NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	556					DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		ATACTTATATTCTGTTCAAAG	0.363													11	36					0	0	0.010729	0	0		C	21830483	C	C	21830483	3	2	20	1	0	0	0	0	1	0	0	0	15421	1797	62	3	1525	3	SUPT16H	14	21830483	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	37667	21830483	85519057	1260	17982											
CDH24	64403	broad.mit.edu	37	chr14	23523477	23523477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtctgggtcctgggccCggagccggcccaccagtgtg	4	6	16	15	2	1	0	0	0	1	0	2	1	2	1	6	5	1	0	6	5	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:23523477C>T	uc001wil.2	-	6	1105	c.845G>A	c.(844-846)CGG>CAG	p.R282Q	CDH24_uc010akf.2_Missense_Mutation_p.R282Q|CDH24_uc001win.3_Missense_Mutation_p.R282Q	NM_022478	NP_071923	Q86UP0	CAD24_HUMAN	cadherin-like 24 isoform 1	282	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|cell-cell adhesion|homophilic cell adhesion	cell-cell junction|cell-cell junction|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|delta-catenin binding			central_nervous_system(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		GTCCTGGGCCCGGAGCCGGCC	0.627													47	129					0	0	0.01441	0	0		T	23523477	T	T	23523477	3	4	20	1	0	0	0	0	1	0	0	0	3112	652	23	1	1646	1	CDH24	14	23523477	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1692994	23523477	83826063	1261	17983											
MYH6	4624	broad.mit.edu	37	chr14	23853917	23853917	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcagctcctctgccaTcatggcggcctgtgtgcagg	4	12	11	14	1	4	0	2	0	2	0	5	0	5	0	3	3	3	2	3	3	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:23853917T>C	uc001wjv.2	-	36	5366	c.5299A>G	c.(5299-5301)ATG>GTG	p.M1767V		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1767	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TCCTCTGCCATCATGGCGGCC	0.612													26	91					0	0	0.013726	0	0		C	23853917	C	C	23853917	3	2	20	1	0	0	0	0	1	0	0	0	10056	1435	50	3	536	3	MYH6	14	23853917	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	330440	23853917	83495623	1262	17984											
DHRS2	10202	broad.mit.edu	37	chr14	24108526	24108526	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcgggcattgtgtgccaCgtggggaaggctgaggaccg	6	7	20	8	3	0	1	0	1	0	0	0	3	0	3	2	6	1	2	2	6	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:24108526C>T	uc001wkt.3	+	3	726	c.279C>T	c.(277-279)CAC>CAT	p.H93H	DHRS2_uc010aku.1_Silent_p.H93H|DHRS2_uc001wku.3_Silent_p.H93H|DHRS2_uc010akv.2_RNA|DHRS2_uc001wkv.3_Silent_p.H93H	NM_182908	NP_878912	Q13268	DHRS2_HUMAN	dehydrogenase/reductase member 2 isoform 1	71					C21-steroid hormone metabolic process|cellular response to oxidative stress|myeloid dendritic cell differentiation|negative regulation of apoptosis|negative regulation of cell proliferation|response to toxin	mitochondrion|nuclear envelope	binding|carbonyl reductase (NADPH) activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00659)		TTGTGTGCCACGTGGGGAAGG	0.657													13	37					0	0	0.00245	0	0		T	24108526	T	T	24108526	2	4	20	1	0	0	0	0	0	0	0	1	4496	535	19	1		1	DHRS2	14	24108526	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	254609	24108526	83241014	1263	17985											
STXBP6	29091	broad.mit.edu	37	chr14	25325269	25325269	+	Frame_Shift_Del	DEL	A	-	-																															gtgctggctacccactggtcAaaagcattttcaaacaacaa																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:25325269delA	uc001wpu.2	-	4	1039	c.324delT	c.(322-324)TTTfs	p.F108fs	STXBP6_uc001wpv.2_Frame_Shift_Del_p.F108fs|STXBP6_uc001wpw.2_Frame_Shift_Del_p.F108fs|STXBP6_uc001wpx.1_RNA	NM_014178	NP_054897	Q8NFX7	STXB6_HUMAN	amisyn	108					vesicle-mediated transport	cytoplasm|integral to membrane					0				GBM - Glioblastoma multiforme(265;0.0296)		CCCACTGGTCAAAAGCATTTT	0.423													27	56	---	---	---	---						.	-	25325269	-	-	25325269	7	5	20	1	0	1	0	1	0	0	0	0	15383	127	5	0	320	0	STXBP6	14	25325269	Frame_Shift_Del	DEL	A	TCGA-BR-4362-01A-01D-1158-08	1216743	25325269	82024271	1264	17986											
PRKD1	5587	broad.mit.edu	37	chr14	30068878	30068878	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacctgagtaattaaaaacTtcgttatgtgctctggcaac	12	14	7	8	1	1	1	0	1	1	0	2	1	1	1	1	1	4	4	1	1	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:30068878T>G	uc001wqh.2	-	14	2232	c.2051A>C	c.(2050-2052)AAG>ACG	p.K684T		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	684	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		AATTAAAAACTTCGTTATGTG	0.353													34	110					0	0	0.004878	0	0		G	30068878	G	G	30068878	3	3	20	1	0	0	0	0	1	0	0	0	12540	1609	56	5	707	5	PRKD1	14	30068878	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	4743609	30068878	77280662	1265	17987											
NPAS3	64067	broad.mit.edu	37	chr14	34269414	34269414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgggcctggtggagccccCgcggctgctgtcctccccca	2	6	14	19	4	0	0	0	0	0	0	2	1	2	1	6	4	2	2	6	4	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:34269414C>T	uc001wru.2	+	12	1965	c.1901C>T	c.(1900-1902)CCG>CTG	p.P634L	NPAS3_uc001wrs.2_Missense_Mutation_p.P621L|NPAS3_uc001wrt.2_Missense_Mutation_p.P602L|NPAS3_uc001wrv.2_Missense_Mutation_p.P604L	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	634					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		GTGGAGCCCCCGCGGCTGCTG	0.642													5	21					0	0	0.00245	0	0		T	34269414	T	T	34269414	3	4	20	1	0	0	0	0	1	0	0	0	10583	652	23	1	2002	1	NPAS3	14	34269414	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4200536	34269414	73080126	1266	17988											
MIPOL1	145282	broad.mit.edu	37	chr14	37754647	37754647	+	Frame_Shift_Del	DEL	A	-	-																															aagcatatggaaatgtctctAaaagtgtatgtacacattta																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:37754647delA	uc001wuc.2	+	8	1121	c.618delA	c.(616-618)CTAfs	p.L206fs	MIPOL1_uc010amr.2_Intron|MIPOL1_uc001wub.3_Frame_Shift_Del_p.L175fs|MIPOL1_uc001wud.2_Frame_Shift_Del_p.L206fs|MIPOL1_uc010ams.2_Frame_Shift_Del_p.L206fs|MIPOL1_uc001wue.2_Frame_Shift_Del_p.L175fs|MIPOL1_uc010amt.2_Frame_Shift_Del_p.L25fs	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	206	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		AAATGTCTCTAAAAGTGTATG	0.368													57	99	---	---	---	---						.	-	37754647	-	-	37754647	7	5	20	1	0	1	0	1	0	0	0	0	9611	349	13	0	636	0	MIPOL1	14	37754647	Frame_Shift_Del	DEL	A	TCGA-BR-4362-01A-01D-1158-08	3485233	37754647	69594893	1267	17989											
MIA2	117153	broad.mit.edu	37	chr14	39703369	39703370	+	Frame_Shift_Del	DEL	AA	-	-																															cttctggctatttctctgacAaagtgtctggagagtacaaa																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:39703369_39703370delAA	uc001wux.2	+	1	245_246	c.51_52delAA	c.(49-54)ACAAAGfs	p.T17fs	MIA2_uc010amy.1_5'UTR	NM_054024	NP_473365	Q96PC5	MIA2_HUMAN	melanoma inhibitory activity 2	17_18						extracellular region				ovary(1)|breast(1)	2	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0216)		TTTCTCTGACAAAGTGTCTGGA	0.426													40	90	---	---	---	---						.	-	39703370	-	-	39703369	7	5	20	1	0	1	0	1	0	0	0	0	9582	117	5	0	53	0	MIA2	14	39703369	Frame_Shift_Del	DEL	AA	TCGA-BR-4362-01A-01D-1158-08	1948722	39703369	67646171	1268	17990											
FBXO33	254170	broad.mit.edu	37	chr14	39870564	39870564	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaatagcccctgaaacacaAgtgatatagctatcaaaatg	18	8	6	9	0	1	2	1	2	0	0	1	2	1	2	2	0	3	1	2	0	9	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:39870564A>G	uc001wvk.2	-	3	1550	c.1212T>C	c.(1210-1212)ACT>ACC	p.T404T		NM_203301	NP_976046	Q7Z6M2	FBX33_HUMAN	F-box protein 33	404											0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00121)|Epithelial(34;0.169)	GBM - Glioblastoma multiforme(112;0.0425)		CTGAAACACAAGTGATATAGC	0.343													3	96					0	0	0.004672	0	0		G	39870564	G	G	39870564	2	3	20	1	0	0	0	0	0	0	0	1	5757	59	3	3		3	FBXO33	14	39870564	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	167195	39870564	67478976	1269	17991											
LRFN5	145581	broad.mit.edu	37	chr14	42356770	42356770	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaagccaggggagacccTgagcctgcaattcactggat	11	7	12	11	0	1	2	1	1	0	1	1	4	1	3	3	3	4	2	3	3	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:42356770T>C	uc001wvm.2	+	3	2140	c.942T>C	c.(940-942)CCT>CCC	p.P314P	LRFN5_uc010ana.2_Silent_p.P314P	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	314	Extracellular (Potential).|Ig-like.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		GGGGAGACCCTGAGCCTGCAA	0.458										HNSCC(30;0.082)			8	153					0	0	0.006214	0	0		C	42356770	C	C	42356770	2	2	20	1	0	0	0	0	0	0	0	1	8959	1567	55	3		3	LRFN5	14	42356770	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2486206	42356770	64992770	1270	17992											
LRFN5	145581	broad.mit.edu	37	chr14	42357187	42357187	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcaaatccagtacaatggTacttatgatgacacccttgt	12	14	6	9	0	1	2	1	2	0	0	2	2	2	2	2	1	2	2	2	1	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:42357187T>A	uc001wvm.2	+	3	2557	c.1359T>A	c.(1357-1359)GGT>GGA	p.G453G	LRFN5_uc010ana.2_Silent_p.G453G	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	453	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AGTACAATGGTACTTATGATG	0.323										HNSCC(30;0.082)			4	45					0	0	0.000602	0	0		A	42357187	A	A	42357187	2	1	20	1	0	0	0	0	0	0	0	1	8959	1625	57	5		5	LRFN5	14	42357187	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	417	42357187	64992353	1271	17993											
FAM179B	23116	broad.mit.edu	37	chr14	45501482	45501482	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaggatgccttctgtcactCatagtccagaaataatggat	14	11	8	8	0	3	1	2	0	1	1	4	3	4	3	2	2	1	0	2	2	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:45501482C>T	uc001wvv.2	+	11	3924	c.3715C>T	c.(3715-3717)CAT>TAT	p.H1239Y	FAM179B_uc001wvw.2_Missense_Mutation_p.H1239Y|FAM179B_uc010anc.2_RNA	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	1239							binding			skin(2)|upper_aerodigestive_tract(1)	3						TTCTGTCACTCATAGTCCAGA	0.378													9	52					0	0	0.006214	0	0		T	45501482	T	T	45501482	3	4	20	1	0	0	0	0	1	0	0	0	5517	826	29	4	3757	4	FAM179B	14	45501482	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3144295	45501482	61848058	1272	17994											
FAM179B	23116	broad.mit.edu	37	chr14	45542738	45542738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagtttggaggaattactcGatatgacaattttaaatgaa	16	13	9	3	1	0	3	0	2	0	1	1	6	0	5	0	2	1	1	0	2	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:45542738G>A	uc001wvv.2	+	19	5346	c.5137G>A	c.(5137-5139)GAT>AAT	p.D1713N	FAM179B_uc001wvw.2_Missense_Mutation_p.D1766N|FAM179B_uc010anc.2_RNA	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	1713							binding			skin(2)|upper_aerodigestive_tract(1)	3						GGAATTACTCGATATGACAAT	0.313													10	32					0	0	0.010729	0	0		A	45542738	A	A	45542738	3	1	20	1	0	0	0	0	1	0	0	0	5517	1058	37	1	5211	1	FAM179B	14	45542738	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	41256	45542738	61806802	1273	17995											
RPL10L	140801	broad.mit.edu	37	chr14	47120878	47120878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggaacccctcggcagaaaCgagattttgggtacggcttg	10	8	13	10	3	0	2	0	0	0	2	1	4	0	3	2	4	3	3	2	4	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:47120878C>T	uc001wwg.2	-	1	151	c.62G>A	c.(61-63)CGT>CAT	p.R21H		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	21					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						TCGGCAGAAACGAGATTTTGG	0.542													35	72					0	0	0.013114	0	0		T	47120878	T	T	47120878	3	4	20	1	0	0	0	0	1	0	0	0	13581	536	19	1	586	1	RPL10L	14	47120878	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1578140	47120878	60228662	1274	17996											
MAP4K5	11183	broad.mit.edu	37	chr14	50930796	50930796	+	Frame_Shift_Del	DEL	T	-	-																															aagtctttcagcagttggtcTtttttttgggtttttggtta																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:50930796delT	uc001wya.2	-	12	1113	c.793delA	c.(793-795)AGAfs	p.R265fs	MAP4K5_uc001wyb.2_Frame_Shift_Del_p.R265fs|MAP4K5_uc010anv.1_Frame_Shift_Del_p.R265fs	NM_006575	NP_006566	Q9Y4K4	M4K5_HUMAN	mitogen-activated protein kinase kinase kinase	265	Protein kinase.				activation of JUN kinase activity	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity	p.R265fs*8(1)		large_intestine(1)	1	all_epithelial(31;0.000415)|Breast(41;0.0102)					GCAGTTGGTCTTTTTTTTGGG	0.308													4	3	---	---	---	---						.	-	50930796	-	-	50930796	7	5	20	1	0	1	0	1	0	0	0	0	9281	1617	56	0	1831	0	MAP4K5	14	50930796	Frame_Shift_Del	DEL	T	TCGA-BR-4362-01A-01D-1158-08	3809918	50930796	56418744	1275	17997											
PYGL	5836	broad.mit.edu	37	chr14	51387719	51387719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcccgagcagaccagaggcGcatggtgttgacagtgttat	9	9	14	9	2	0	3	0	1	0	2	0	4	0	3	2	2	2	4	2	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:51387719G>A	uc001wyu.2	-	6	854	c.727C>T	c.(727-729)CGC>TGC	p.R243C	PYGL_uc010tqq.1_Missense_Mutation_p.R209C|PYGL_uc001wyv.2_5'UTR|PYGL_uc010anz.1_Missense_Mutation_p.R46C	NM_002863	NP_002854	P06737	PYGL_HUMAN	liver glycogen phosphorylase isoform 1	243					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding			skin(1)	1	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	GACCAGAGGCGCATGGTGTTG	0.498													28	79					0	0	0.009535	0	0		A	51387719	A	A	51387719	3	1	20	1	0	0	0	0	1	0	0	0	12886	1087	38	1	1876	1	PYGL	14	51387719	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	456923	51387719	55961821	1276	17998											
NID2	22795	broad.mit.edu	37	chr14	52485867	52485867	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggtccacgcaccagcaGaaaccagtgctgccatgaca	12	5	10	14	1	1	2	1	1	0	1	2	2	2	2	4	1	4	3	4	1	1	0	rs138141385		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:52485867G>T	uc001wzo.2	-	14	3174	c.2940C>A	c.(2938-2940)TTC>TTA	p.F980L	NID2_uc010tqs.1_Missense_Mutation_p.F932L|NID2_uc010tqt.1_Missense_Mutation_p.F980L|NID2_uc001wzp.2_Missense_Mutation_p.F980L	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	980	Thyroglobulin type-1 1.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CGCACCAGCAGAAACCAGTGC	0.622													13	23					0.000219431	0.000223782	0.00245	1	0		T	52485867	T	T	52485867	3	4	20	1	0	0	0	0	1	0	0	0	10434	933	33	5	1223	5	NID2	14	52485867	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1098148	52485867	54863673	1277	17999											
KIAA0831	22863	broad.mit.edu	37	chr14	55848812	55848812	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatcgtcacagacccatcGtcctgagaggtaagttgtcc	9	10	11	11	2	1	3	1	2	0	2	5	4	3	3	3	1	0	2	3	1	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:55848812G>A	uc001xbx.1	-	6	781	c.745C>T	c.(745-747)CGA>TGA	p.R249*	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbw.1_Nonsense_Mutation_p.R136*	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	249					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0						CAGACCCATCGTCCTGAGAGG	0.537													14	142					0	0	0.00245	0	0		A	55848812	A	A	55848812	4	1	20	1	0	0	0	0	0	1	0	0	8211	1153	40	1	753	1	KIAA0831	14	55848812	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3362945	55848812	51500728	1278	18000											
TBPL2	387332	broad.mit.edu	37	chr14	55903343	55903343	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtcatgggagttatggAtgccagagacaaggagtcgg	10	9	17	5	1	1	1	1	0	0	1	2	5	1	4	1	5	1	1	1	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:55903343A>T	uc001xby.2	-	2	544	c.544T>A	c.(544-546)TCC>ACC	p.S182T		NM_199047	NP_950248	Q6SJ96	TBPL2_HUMAN	TATA box binding protein like 2	182					multicellular organismal development|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding				0						GGAGTTATGGATGCCAGAGAC	0.438													5	99					0	0	0.000602	0	0		T	55903343	T	T	55903343	3	4	20	1	0	0	0	0	1	0	0	0	15671	333	12	5	607	5	TBPL2	14	55903343	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	54531	55903343	51446197	1279	18001											
PELI2	57161	broad.mit.edu	37	chr14	56757153	56757153	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accttgcgagaaaccaggtcGgcccagcaacgaggaaagct	13	4	12	12	3	0	1	0	0	0	1	1	4	0	2	3	3	5	2	3	3	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:56757153G>A	uc001xch.2	+	5	961	c.675G>A	c.(673-675)TCG>TCA	p.S225S		NM_021255	NP_067078	Q9HAT8	PELI2_HUMAN	pellino 2	225					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1						AAACCAGGTCGGCCCAGCAAC	0.557													51	102					0	0	0.01441	0	0		A	56757153	A	A	56757153	2	1	20	1	0	0	0	0	0	0	0	1	11741	1103	39	1		1	PELI2	14	56757153	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	853810	56757153	50592387	1280	18002											
C14orf37	145407	broad.mit.edu	37	chr14	58604793	58604793	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctaagaaaaacagggcatcGttttccttggtggattccgt	10	13	10	8	2	1	1	0	0	1	1	4	2	3	2	2	3	1	2	2	3	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:58604793G>A	uc001xdc.2	-	2	1395	c.1284C>T	c.(1282-1284)AAC>AAT	p.N428N	C14orf37_uc010tro.1_Silent_p.N466N|C14orf37_uc001xdd.2_Silent_p.N428N|C14orf37_uc001xde.2_Silent_p.N428N	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	428	Extracellular (Potential).					integral to membrane	binding				0						ACAGGGCATCGTTTTCCTTGG	0.413													42	93					0	0	0.009718	0	0		A	58604793	A	A	58604793	2	1	20	1	0	0	0	0	0	0	0	1	1774	1136	40	1		1	C14orf37	14	58604793	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1847640	58604793	48744747	1281	18003											
C14orf39	317761	broad.mit.edu	37	chr14	60903608	60903608	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgtgaggaagatgaaaaAccttttaaagaagaagaagg	18	10	11	2	0	0	6	0	2	0	4	0	7	0	7	1	2	1	0	1	2	8	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:60903608A>C	uc001xez.3	-	18	1829	c.1719T>G	c.(1717-1719)GGT>GGG	p.G573G	C14orf39_uc010apo.2_Silent_p.G284G	NM_174978	NP_777638	Q08AQ4	Q08AQ4_HUMAN	hypothetical protein LOC317761	573										ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)		AAGATGAAAAACCTTTTAAAG	0.308													51	168					0	0	0.01441	0	0		C	60903608	C	C	60903608	2	2	20	1	0	0	0	0	0	0	0	1	1775	30	2	5		5	C14orf39	14	60903608	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2298815	60903608	46445932	1282	18004											
C14orf39	317761	broad.mit.edu	37	chr14	60903657	60903657	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgaccctgtccaaatgaaAatggaaaactaaaatcatct	17	11	5	8	0	2	2	1	2	1	0	3	3	3	3	2	1	1	0	2	1	7	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:60903657A>T	uc001xez.3	-	18	1780	c.1670T>A	c.(1669-1671)TTT>TAT	p.F557Y	C14orf39_uc010apo.2_Missense_Mutation_p.F268Y	NM_174978	NP_777638	Q08AQ4	Q08AQ4_HUMAN	hypothetical protein LOC317761	557										ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)		TCCAAATGAAAATGGAAAACT	0.338													61	185					0	0	0.01441	0	0		T	60903657	T	T	60903657	3	4	20	1	0	0	0	0	1	0	0	0	1775	14	1	5	97	5	C14orf39	14	60903657	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	49	60903657	46445883	1283	18005											
ACTN1	87	broad.mit.edu	37	chr14	69392309	69392309	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcagcagcatgagcttcagGccatcccggaagtcctcttc	9	8	10	14	1	2	1	1	1	1	0	5	2	4	2	3	2	4	4	3	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:69392309G>A	uc001xkl.2	-	2	496	c.186C>T	c.(184-186)GGC>GGT	p.G62G	ACTN1_uc010ttb.1_5'UTR|ACTN1_uc001xkm.2_Silent_p.G62G|ACTN1_uc001xkn.2_Silent_p.G62G|ACTN1_uc001xko.1_5'UTR|ACTN1_uc010ttd.1_Silent_p.G41G	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	62	CH 1.|Actin-binding.				focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		TGAGCTTCAGGCCATCCCGGA	0.582													11	37					0	0	0.001855	0	0		A	69392309	A	A	69392309	2	1	20	1	0	0	0	0	0	0	0	1	204	1190	42	2		2	ACTN1	14	69392309	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	8488652	69392309	37957231	1284	18006											
KIAA0247	9766	broad.mit.edu	37	chr14	70171406	70171406	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggcgctcattctcctcctCgtggtgctgtttgtgctgct	1	16	12	12	2	2	0	1	0	1	0	5	0	3	0	2	2	3	5	2	2	0	2	rs150724393	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:70171406C>T	uc001xlk.2	+	4	721	c.405C>T	c.(403-405)CTC>CTT	p.L135L	KIAA0247_uc010aqz.2_Silent_p.L110L	NM_014734	NP_055549	Q92537	K0247_HUMAN	hypothetical protein LOC9766 precursor	135	Helical; (Potential).					integral to membrane				ovary(3)	3				all cancers(60;0.00155)|BRCA - Breast invasive adenocarcinoma(234;0.0164)|OV - Ovarian serous cystadenocarcinoma(108;0.0196)		TTCTCCTCCTCGTGGTGCTGT	0.527													11	55					0	0	0.013537	0	0		T	70171406	T	T	70171406	2	4	20	1	0	0	0	0	0	0	0	1	8181	871	31	1		1	KIAA0247	14	70171406	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	779097	70171406	37178134	1285	18007											
SMOC1	64093	broad.mit.edu	37	chr14	70346477	70346477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcccctgctcgcggccacCgcaccacaggccccagggta	6	5	11	19	3	0	0	0	0	0	0	2	0	1	0	7	3	1	3	7	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:70346477C>T	uc001xls.1	+	1	335	c.82C>T	c.(82-84)CGC>TGC	p.R28C	SMOC1_uc001xlt.1_Missense_Mutation_p.R28C	NM_022137	NP_071420	Q9H4F8	SMOC1_HUMAN	secreted modular calcium-binding protein 1	28					cell differentiation|eye development|limb development|regulation of osteoblast differentiation|signal transduction	basement membrane	calcium ion binding			upper_aerodigestive_tract(1)|pancreas(1)	2				all cancers(60;0.00417)|BRCA - Breast invasive adenocarcinoma(234;0.0119)|OV - Ovarian serous cystadenocarcinoma(108;0.028)		TCGCGGCCACCGCACCACAGG	0.721													3	9					0	0	0.009096	0	0		T	70346477	T	T	70346477	3	4	20	1	0	0	0	0	1	0	0	0	14826	652	23	1	84	1	SMOC1	14	70346477	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	175071	70346477	37003063	1286	18008											
SLC8A3	6547	broad.mit.edu	37	chr14	70634917	70634917	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatagacaatgaccctggCaatcttgtccccaagggaag	15	7	9	10	0	1	2	0	1	1	1	2	3	2	3	3	2	0	1	3	2	7	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:70634917C>A	uc001xly.2	-	2	977	c.223G>T	c.(223-225)GCC>TCC	p.A75S	SLC8A3_uc001xlw.2_Missense_Mutation_p.A75S|SLC8A3_uc001xlx.2_Missense_Mutation_p.A75S|SLC8A3_uc001xlz.2_Missense_Mutation_p.A75S|SLC8A3_uc010ara.2_RNA	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	75	Helical; (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		ATGACCCTGGCAATCTTGTCC	0.512													11	39					3.86212e-05	3.95975e-05	0.008291	1	0		A	70634917	A	A	70634917	3	1	20	1	0	0	0	0	1	0	0	0	14733	710	25	5	2699	5	SLC8A3	14	70634917	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	288440	70634917	36714623	1287	18009											
ADAM21	8747	broad.mit.edu	37	chr14	70924985	70924985	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacttacataattttgattGgaattgaaatttggaatcaa	15	16	7	3	0	1	2	1	2	0	0	1	4	1	4	0	2	2	1	0	2	7	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:70924985G>T	uc001xmd.2	+	1	769	c.769G>T	c.(769-771)GGA>TGA	p.G257*		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	257	Peptidase M12B.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		AATTTTGATTGGAATTGAAAT	0.368													23	55					7.41877e-09	7.73798e-09	0.012319	1	0		T	70924985	T	T	70924985	4	4	20	1	0	0	0	0	0	1	0	0	243	1349	47	5	771	5	ADAM21	14	70924985	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	290068	70924985	36424555	1288	18010											
PCNX	22990	broad.mit.edu	37	chr14	71462617	71462617	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaatgcatctgctgtaggCggtagcagtttgcacgatga	10	10	13	8	2	1	1	0	1	1	0	1	3	1	1	0	2	4	7	0	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:71462617C>T	uc001xmo.2	+	8	3050	c.2604C>T	c.(2602-2604)GGC>GGT	p.G868G	PCNX_uc001xmn.3_Intron|PCNX_uc010are.1_Intron	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	868						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		CTGCTGTAGGCGGTAGCAGTT	0.468													21	61					0	0	0.014323	0	0		T	71462617	T	T	71462617	2	4	20	1	0	0	0	0	0	0	0	1	11610	755	27	1		1	PCNX	14	71462617	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	537632	71462617	35886923	1289	18011											
RGS6	9628	broad.mit.edu	37	chr14	72924983	72924983	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcactgttcttacagttgaAgcaatacacttggggagcct	10	12	10	9	0	1	1	0	1	1	0	1	2	1	2	1	2	5	4	1	2	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:72924983A>G	uc001xna.3	+	5	763	c.240A>G	c.(238-240)GAA>GAG	p.E80E	RGS6_uc010ttn.1_Silent_p.E80E|RGS6_uc001xmx.3_Silent_p.E80E|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Silent_p.E80E|RGS6_uc010ttp.1_Silent_p.E11E|RGS6_uc001xmz.1_5'Flank|RGS6_uc010arg.2_RNA	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	80	DEP.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		TTACAGTTGAAGCAATACACT	0.458													20	51					0	0	0.014323	0	0		G	72924983	G	G	72924983	2	3	20	1	0	0	0	0	0	0	0	1	13334	69	3	3		3	RGS6	14	72924983	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1462366	72924983	34424557	1290	18012											
HEATR4	399671	broad.mit.edu	37	chr14	73985802	73985802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatagctgcttgttgtaccGatttaggttttccaggacaa	10	14	10	7	1	0	1	0	0	0	1	1	3	1	2	2	2	3	5	2	2	4	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:73985802G>A	uc010tub.1	-	5	1457	c.1135C>T	c.(1135-1137)CGG>TGG	p.R379W	HEATR4_uc010tua.1_Missense_Mutation_p.R332W	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		TTGTTGTACCGATTTAGGTTT	0.458													12	127					0	0	0.013537	0	0		A	73985802	A	A	73985802	3	1	20	1	0	0	0	0	1	0	0	0	7046	1057	37	1	2001	1	HEATR4	14	73985802	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1060819	73985802	33363738	1291	18013											
FAM161B	145483	broad.mit.edu	37	chr14	74401052	74401052	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttctagagatccttctaaAccctgctctggatctctgat	8	15	7	11	0	4	2	0	1	4	1	6	4	5	3	2	1	2	2	2	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:74401052A>G	uc001xpd.1	-	9	1957	c.1851T>C	c.(1849-1851)GGT>GGC	p.G617G		NM_152445	NP_689658			hypothetical protein LOC145483											ovary(1)	1						ATCCTTCTAAACCCTGCTCTG	0.368													9	115					0	0	0.004482	0	0		G	74401052	G	G	74401052	2	3	20	1	0	0	0	0	0	0	0	1	5484	30	2	3		3	FAM161B	14	74401052	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	415250	74401052	32948488	1292	18014											
KIAA0317	9870	broad.mit.edu	37	chr14	75130505	75130505	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcataggagtcatatgtaGggaggcacagctggttaaaa	13	10	12	6	0	2	0	2	0	0	0	2	2	2	2	0	4	1	4	0	4	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:75130505G>T	uc001xqb.2	-	20	2895	c.2390C>A	c.(2389-2391)CCT>CAT	p.P797H		NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870	797	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		GTCATATGTAGGGAGGCACAG	0.532													62	131					2.81305e-35	3.04242e-35	0.01441	1	0		T	75130505	T	T	75130505	3	4	20	1	0	0	0	0	1	0	0	0	8183	1000	35	5	85	5	KIAA0317	14	75130505	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	729453	75130505	32219035	1293	18015											
RPS6KL1	83694	broad.mit.edu	37	chr14	75373805	75373805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcccatgcccaggcgcCgggtaggctcgaactgcagc	6	7	12	16	3	1	0	0	0	1	0	3	1	1	0	3	3	4	3	3	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:75373805C>T	uc010tux.1	-	11	2090	c.1562G>A	c.(1561-1563)CGG>CAG	p.R521Q	RPS6KL1_uc001xqx.1_3'UTR|RPS6KL1_uc001xqw.2_Missense_Mutation_p.R490Q|RPS6KL1_uc010asd.1_RNA	NM_031464	NP_113652	Q9Y6S9	RPKL1_HUMAN	ribosomal protein S6 kinase-like 1	521	Protein kinase.					ribosome	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00658)		GCCCAGGCGCCGGGTAGGCTC	0.602													54	137					0	0	0.01441	0	0		T	75373805	T	T	75373805	3	4	20	1	0	0	0	0	1	0	0	0	13684	652	23	1	164	1	RPS6KL1	14	75373805	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	243300	75373805	31975735	1294	18016											
RPS6KL1	83694	broad.mit.edu	37	chr14	75376763	75376763	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggtgggggttgagctgAgccttcatcctctcctgggt	4	13	15	9	0	2	3	1	3	1	0	4	3	3	3	3	4	2	2	3	4	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:75376763A>C	uc010tux.1	-	7	1281	c.753T>G	c.(751-753)GCT>GCG	p.A251A	RPS6KL1_uc001xqx.1_Silent_p.A3A|RPS6KL1_uc001xqw.2_Silent_p.A220A|RPS6KL1_uc010asd.1_RNA	NM_031464	NP_113652	Q9Y6S9	RPKL1_HUMAN	ribosomal protein S6 kinase-like 1	251	Protein kinase.					ribosome	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00658)		GGTTGAGCTGAGCCTTCATCC	0.642													6	132					0	0	0.001984	0	0		C	75376763	C	C	75376763	2	2	20	1	0	0	0	0	0	0	0	1	13684	291	11	5		5	RPS6KL1	14	75376763	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2958	75376763	31972777	1295	18017											
NEK9	91754	broad.mit.edu	37	chr14	75580066	75580066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtttcctgagaagagggCgatctagaagttcatctgca	10	11	12	8	2	3	3	1	1	2	3	4	5	4	3	1	1	2	3	1	1	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:75580066C>T	uc001xrl.2	-	8	1068	c.914G>A	c.(913-915)CGC>CAC	p.R305H	NEK9_uc001xrk.2_5'UTR	NM_033116	NP_149107	Q8TD19	NEK9_HUMAN	NIMA-related kinase 9	305	Protein kinase.				cell division|mitosis	mitochondrion|nucleus	ATP binding|metal ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(2)|stomach(2)|ovary(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00718)		GAGAAGAGGGCGATCTAGAAG	0.398													34	108					0	0	0.00623	0	0		T	75580066	T	T	75580066	3	4	20	1	0	0	0	0	1	0	0	0	10350	768	27	1	2085	1	NEK9	14	75580066	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	203303	75580066	31769474	1296	18018											
KIAA1737	85457	broad.mit.edu	37	chr14	77576173	77576173	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgggagctcggaatgtcTgagctctgcagagcagatgg	10	8	16	7	1	2	4	0	1	2	3	3	6	2	6	0	3	4	4	0	3	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:77576173T>C	uc001xtd.2	+	3	334	c.155T>C	c.(154-156)CTG>CCG	p.L52P	KIAA1737_uc001xtc.1_5'UTR	NM_033426	NP_219494	Q9C0C6	K1737_HUMAN	KIAA1737 protein	52											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		TCGGAATGTCTGAGCTCTGCA	0.443													35	105					0	0	0.004878	0	0		C	77576173	C	C	77576173	3	2	20	1	0	0	0	0	1	0	0	0	8271	1580	55	3	161	3	KIAA1737	14	77576173	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1996107	77576173	29773367	1297	18019											
GSTZ1	2954	broad.mit.edu	37	chr14	77794336	77794336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaagaagagggccagcgtgCgtatgatttctgacctcatc	11	9	11	10	2	2	4	1	2	1	2	3	4	2	4	2	1	2	1	2	1	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:77794336C>T	uc001xtj.2	+	5	580	c.298C>T	c.(298-300)CGT>TGT	p.R100C	GSTZ1_uc001xtk.2_Intron|GSTZ1_uc010ass.2_Missense_Mutation_p.R45C|GSTZ1_uc001xtm.2_Missense_Mutation_p.R45C	NM_145870	NP_665877	O43708	MAAI_HUMAN	glutathione transferase zeta 1 isoform 1	100	GST C-terminal.				glutathione metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol|mitochondrion	glutathione peroxidase activity|glutathione transferase activity|maleylacetoacetate isomerase activity|protein homodimerization activity				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)	Glutathione(DB00143)	GGCCAGCGTGCGTATGATTTC	0.567													6	17					0	0	0.00308	0	0		T	77794336	T	T	77794336	3	4	20	1	0	0	0	0	1	0	0	0	6864	768	27	1	316	1	GSTZ1	14	77794336	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	218163	77794336	29555204	1298	18020											
NRXN3	9369	broad.mit.edu	37	chr14	79175585	79175585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttataagaataatgacatccGtctggagctgtctcgcctgg	10	12	10	9	2	2	2	0	1	2	1	4	3	3	3	2	2	1	1	2	2	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:79175585G>A	uc001xun.2	+	4	619	c.128G>A	c.(127-129)CGT>CAT	p.R43H	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.R177H	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	416	Laminin G-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		AATGACATCCGTCTGGAGCTG	0.468													26	56					0	0	0.005443	0	0		A	79175585	A	A	79175585	3	1	20	1	0	0	0	0	1	0	0	0	10686	1145	40	1	134	1	NRXN3	14	79175585	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1381249	79175585	28173955	1299	18021											
NRXN3	9369	broad.mit.edu	37	chr14	80164262	80164262	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacaacccgtaagaatcgCtctacagccagcattcaggt	13	7	7	14	2	2	1	1	0	1	1	3	1	2	1	3	1	4	3	3	1	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:80164262C>T	uc001xun.2	+	15	3278	c.2787C>T	c.(2785-2787)CGC>CGT	p.R929R	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Silent_p.R297R|NRXN3_uc010asw.2_Silent_p.R327R|NRXN3_uc001xur.3_Silent_p.R297R	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1302	Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GTAAGAATCGCTCTACAGCCA	0.418													14	69					0	0	0.00499	0	0		T	80164262	T	T	80164262	2	4	20	1	0	0	0	0	0	0	0	1	10686	784	28	2		2	NRXN3	14	80164262	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	988677	80164262	27185278	1300	18022											
EML5	161436	broad.mit.edu	37	chr14	89091345	89091345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccccagtcacgataagtcCatctcgcagggtggtgtaca	9	9	10	13	2	2	0	1	0	1	0	5	1	4	0	3	2	1	2	3	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:89091345C>T	uc001xxg.2	-	36	5053	c.4867G>A	c.(4867-4869)GGA>AGA	p.G1623R	EML5_uc001xxf.2_Missense_Mutation_p.G410R|EML5_uc001xxh.1_Missense_Mutation_p.G754R	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	1615	WD 24.					cytoplasm|microtubule				ovary(3)	3						ACGATAAGTCCATCTCGCAGG	0.463													14	40					0	0	0.003163	0	0		T	89091345	T	T	89091345	3	4	20	1	0	0	0	0	1	0	0	0	5108	603	21	4	1102	4	EML5	14	89091345	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	8927083	89091345	18258195	1301	18023											
EML5	161436	broad.mit.edu	37	chr14	89202717	89202717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttgcttacctgaccgaaCgatcatcacttccagtcaca	12	11	5	13	2	3	1	3	1	0	0	4	3	4	1	3	0	3	1	3	0	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:89202717C>T	uc001xxg.2	-	8	1226	c.1040G>A	c.(1039-1041)CGT>CAT	p.R347H		NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	347	WD 7.					cytoplasm|microtubule				ovary(3)	3						CCTGACCGAACGATCATCACT	0.328													40	135					0	0	0.01441	0	0		T	89202717	T	T	89202717	3	4	20	1	0	0	0	0	1	0	0	0	5108	536	19	1	5041	1	EML5	14	89202717	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	111372	89202717	18146823	1302	18024											
C14orf102	55051	broad.mit.edu	37	chr14	90783003	90783003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcggtgtctgtctcagacCtgctgctactcgacggccca	7	10	10	14	3	2	1	1	0	2	1	5	2	2	1	2	2	3	2	2	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:90783003C>T	uc001xyi.1	-	3	357	c.326G>A	c.(325-327)AGG>AAG	p.R109K	C14orf102_uc001xyj.1_Intron	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	109	Poly-Ser.|Potential.						protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		TGTCTCAGACCTGCTGCTACT	0.313													7	260					0	0	0.008291	0	0		T	90783003	T	T	90783003	3	4	20	1	0	0	0	0	1	0	0	0	1738	681	24	4	3216	4	C14orf102	14	90783003	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1580286	90783003	16566537	1303	18025											
C14orf159	80017	broad.mit.edu	37	chr14	91642369	91642369	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtgttctggccttctccGctgaccagtctcggagctgt	4	12	11	14	2	3	1	0	1	3	0	5	2	3	2	4	2	1	3	4	2	0	2	rs149668017	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:91642369G>A	uc001xzb.2	+	9	1452	c.684G>A	c.(682-684)CCG>CCA	p.P228P	C14orf159_uc010atv.1_RNA|C14orf159_uc001xyy.2_Silent_p.P233P|C14orf159_uc001xyx.2_Silent_p.P216P|C14orf159_uc001xyw.2_Silent_p.P233P|C14orf159_uc001xzc.2_Silent_p.P228P|C14orf159_uc001xza.2_Silent_p.P233P|C14orf159_uc001xyv.2_Silent_p.P233P|C14orf159_uc001xyz.2_Silent_p.P104P|C14orf159_uc001xze.2_Silent_p.P228P	NM_001102366	NP_001095836	Q7Z3D6	CN159_HUMAN	hypothetical protein LOC80017 isoform a	228						mitochondrion				central_nervous_system(2)|ovary(1)	3		all_cancers(154;0.0191)|all_epithelial(191;0.241)		Epithelial(152;0.141)|OV - Ovarian serous cystadenocarcinoma(161;0.207)		GGCCTTCTCCGCTGACCAGTC	0.557													19	48					0	0	0.007413	0	0		A	91642369	A	A	91642369	2	1	20	1	0	0	0	0	0	0	0	1	1758	1074	38	1		1	C14orf159	14	91642369	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	859366	91642369	15707171	1304	18026											
TC2N	123036	broad.mit.edu	37	chr14	92258779	92258779	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctaagggttctgagtgAcattgagcattctccaatgg	9	13	12	7	0	2	3	0	3	2	0	3	3	2	3	1	2	2	3	1	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:92258779A>G	uc001xzu.3	-	9	1170	c.979T>C	c.(979-981)TCA>CCA	p.S327P	TC2N_uc001xzt.3_Missense_Mutation_p.S327P|TC2N_uc010auc.2_Intron|TC2N_uc001xzv.3_Missense_Mutation_p.S327P	NM_001128595	NP_001122067	Q8N9U0	TAC2N_HUMAN	tandem C2 domains, nuclear	327						nucleus				upper_aerodigestive_tract(1)	1				COAD - Colon adenocarcinoma(157;0.218)		GTTCTGAGTGACATTGAGCAT	0.343													5	272					0	0	0.004482	0	0		G	92258779	G	G	92258779	3	3	20	1	0	0	0	0	1	0	0	0	15690	275	10	3	509	3	TC2N	14	92258779	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	616410	92258779	15090761	1305	18027											
IFI27L1	122509	broad.mit.edu	37	chr14	94568188	94568188	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggggactgtgctcgtggcGctcagtgccatgggcttcac	4	10	16	11	2	2	0	2	0	0	0	3	1	2	1	1	4	2	3	1	4	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:94568188G>A	uc001ycl.2	+	4	298	c.90G>A	c.(88-90)GCG>GCA	p.A30A	IFI27L1_uc001yck.2_Silent_p.A30A	NM_206949	NP_996832	Q96BM0	I27L1_HUMAN	interferon, alpha-inducible protein 27-like 1	30	Helical; (Potential).					integral to membrane					0						TGCTCGTGGCGCTCAGTGCCA	0.612													7	32					0	0	0.001984	0	0		A	94568188	A	A	94568188	2	1	20	1	0	0	0	0	0	0	0	1	7529	1074	38	1		1	IFI27L1	14	94568188	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2309409	94568188	12781352	1306	18028											
EML1	2009	broad.mit.edu	37	chr14	100380551	100380551	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccaatacggacagtggcCgaggggaaaggcgatgtgat	11	6	17	7	3	0	1	0	1	0	0	1	5	1	3	2	6	1	0	2	6	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:100380551C>T	uc001ygs.2	+	14	1599	c.1530C>T	c.(1528-1530)GCC>GCT	p.A510A	EML1_uc010tww.1_Silent_p.A498A|EML1_uc001ygr.2_Silent_p.A529A	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	510						cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				GGACAGTGGCCGAGGGGAAAG	0.453													22	75					0	0	0.014323	0	0		T	100380551	T	T	100380551	2	4	20	1	0	0	0	0	0	0	0	1	5104	639	23	1		1	EML1	14	100380551	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	5812363	100380551	6968989	1307	18029											
YY1	7528	broad.mit.edu	37	chr14	100728744	100728744	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacaggaaagaaacttccTcctggaggaatacctggcat	14	8	10	9	0	0	2	0	1	0	1	2	5	2	5	3	4	2	1	3	4	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:100728744T>C	uc001ygy.1	+	2	1263	c.783T>C	c.(781-783)CCT>CCC	p.P261P		NM_003403	NP_003394	P25490	TYY1_HUMAN	YY1 transcription factor	261	Involved in nuclear matrix association.				cell differentiation|cellular response to UV|double-strand break repair via homologous recombination|negative regulation of transcription from RNA polymerase II promoter|response to UV-C|spermatogenesis	Ino80 complex|nuclear matrix|plasma membrane	four-way junction DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding				0		Melanoma(154;0.152)				AGAAACTTCCTCCTGGAGGAA	0.368													29	96					0	0	0.010818	0	0		C	100728744	C	C	100728744	2	2	20	1	0	0	0	0	0	0	0	1	17533	1538	54	3		3	YY1	14	100728744	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	348193	100728744	6620796	1308	18030											
ZNF839	55778	broad.mit.edu	37	chr14	102792994	102792994	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtcagacttgtgaaaagTcatatatagggaagggggga	14	9	15	3	0	2	2	2	1	0	1	2	4	2	4	0	4	0	0	0	4	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:102792994T>C	uc001ylo.2	+	2	963	c.613T>C	c.(613-615)TCA>CCA	p.S205P	ZNF839_uc010awk.1_Missense_Mutation_p.S321P|ZNF839_uc001ylp.2_RNA|ZNF839_uc001ylq.1_Missense_Mutation_p.S205P|ZNF839_uc001ylr.2_Missense_Mutation_p.S205P	NM_018335	NP_060805	A8K0R7	ZN839_HUMAN	zinc finger protein 839	205	C2H2-type.					intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)	2						TTGTGAAAAGTCATATATAGG	0.512													4	13					0	0	0.000602	0	0		C	102792994	C	C	102792994	3	2	20	1	0	0	0	0	1	0	0	0	18213	1667	58	3	967	3	ZNF839	14	102792994	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2064250	102792994	4556546	1309	18031											
C14orf73	91828	broad.mit.edu	37	chr14	103571411	103571411	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgcctgcgaggagctcaggTagggctcgcccgctcctgtg	5	7	15	14	4	1	0	1	0	0	0	3	2	2	1	3	3	2	4	3	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:103571411T>C	uc001ymk.2	+	6	1542	c.1466_splice	c.e6+2	p.R489_splice		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	hypothetical protein LOC91828												0		Melanoma(154;0.155)	Epithelial(46;0.221)			GGAGCTCAGGTAGGGCTCGCC	0.711											OREG0022947	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	23					0	0	0.00308	0	0		C	103571411	C	C	103571411	5	2	20	1	0	0	0	0	0	0	1	0	1782	1652	57	3	1490	3	C14orf73	14	103571411	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	778417	103571411	3778129	1310	18032											
EIF5	1983	broad.mit.edu	37	chr14	103802217	103802217	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgtctgtcaatgtcaaccGcagcgtgtcagaccagttct	10	11	9	11	2	5	1	3	0	2	1	5	1	5	1	2	0	2	2	2	0	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:103802217G>T	uc001ymq.2	+	3	542	c.20G>T	c.(19-21)CGC>CTC	p.R7L	EIF5_uc001ymr.2_Missense_Mutation_p.R7L|EIF5_uc001yms.2_Missense_Mutation_p.R7L|EIF5_uc001ymt.2_Missense_Mutation_p.R7L|EIF5_uc001ymu.2_Missense_Mutation_p.R7L|SNORA28_uc001ymv.1_5'Flank	NM_001969	NP_001960	P55010	IF5_HUMAN	eukaryotic translation initiation factor 5	7					regulation of translational initiation|RNA metabolic process	cytosol	GTP binding|GTPase activity|translation initiation factor activity			pancreas(1)|breast(1)|skin(1)	3		Melanoma(154;0.155)	Epithelial(46;0.182)			AATGTCAACCGCAGCGTGTCA	0.388													11	237					3.07112e-06	3.16105e-06	0.010729	1	0		T	103802217	T	T	103802217	3	4	20	1	0	0	0	0	1	0	0	0	5048	1087	38	5	22	5	EIF5	14	103802217	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	230806	103802217	3547323	1311	18033											
EIF5	1983	broad.mit.edu	37	chr14	103802238	103802238	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcgtgtcagaccagttctAtcgctacaagatgccccgtc	9	9	9	14	3	2	2	1	0	1	2	4	2	2	2	3	0	3	2	3	0	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:103802238A>G	uc001ymq.2	+	3	563	c.41A>G	c.(40-42)TAT>TGT	p.Y14C	EIF5_uc001ymr.2_Missense_Mutation_p.Y14C|EIF5_uc001yms.2_Missense_Mutation_p.Y14C|EIF5_uc001ymt.2_Missense_Mutation_p.Y14C|EIF5_uc001ymu.2_Missense_Mutation_p.Y14C|SNORA28_uc001ymv.1_5'Flank	NM_001969	NP_001960	P55010	IF5_HUMAN	eukaryotic translation initiation factor 5	14					regulation of translational initiation|RNA metabolic process	cytosol	GTP binding|GTPase activity|translation initiation factor activity			pancreas(1)|breast(1)|skin(1)	3		Melanoma(154;0.155)	Epithelial(46;0.182)			GACCAGTTCTATCGCTACAAG	0.388													20	247					0	0	0.00333	0	0		G	103802238	G	G	103802238	3	3	20	1	0	0	0	0	1	0	0	0	5048	449	16	3	43	3	EIF5	14	103802238	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	21	103802238	3547302	1312	18034											
KLC1	3831	broad.mit.edu	37	chr14	104129110	104129110	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccccgcgcggctgcggAcgctccacaacctggtgatc	7	6	12	16	5	0	2	0	1	0	1	3	3	2	3	4	3	2	2	4	3	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:104129110A>G	uc001yno.2	+	5	951	c.643A>G	c.(643-645)ACG>GCG	p.T215A	KLC1_uc010tyd.1_Missense_Mutation_p.T374A|KLC1_uc010tye.1_Missense_Mutation_p.T211A|KLC1_uc001ynm.1_Missense_Mutation_p.T215A|KLC1_uc001ynn.1_Missense_Mutation_p.T211A|KLC1_uc010tyf.1_Missense_Mutation_p.T215A	NM_182923	NP_891553	Q07866	KLC1_HUMAN	kinesin light chain 1 isoform 2	215	TPR 1.				blood coagulation|microtubule-based movement|stress granule disassembly	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0		Melanoma(154;0.155)|all_epithelial(191;0.19)				GCGGCTGCGGACGCTCCACAA	0.657													4	78					0	0	0.001984	0	0		G	104129110	G	G	104129110	3	3	20	1	0	0	0	0	1	0	0	0	8349	275	10	3	657	3	KLC1	14	104129110	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	326872	104129110	3220430	1313	18035											
AHNAK2	113146	broad.mit.edu	37	chr14	105406625	105406625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtcttgaaagctaccccCtgctgtggcactagaaaggg	9	10	12	10	0	1	2	0	1	1	1	1	2	1	2	2	2	3	3	2	2	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:105406625C>T	uc010axc.1	-	7	15283	c.15163G>A	c.(15163-15165)GGG>AGG	p.G5055R	AHNAK2_uc001ypx.2_Missense_Mutation_p.G4955R	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5055						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			AAGCTACCCCCTGCTGTGGCA	0.542													52	126					0	0	0.01441	0	0		T	105406625	T	T	105406625	3	4	20	1	0	0	0	0	1	0	0	0	415	681	24	4	2228	4	AHNAK2	14	105406625	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1277515	105406625	1942915	1314	18036											
AHNAK2	113146	broad.mit.edu	37	chr14	105410125	105410125	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaactgggcatctgcaccTtgggcaggtgtcctttgagg	7	11	14	9	0	1	2	0	2	1	0	2	2	2	2	2	4	2	3	2	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr14:105410125T>G	uc010axc.1	-	7	11783	c.11663A>C	c.(11662-11664)AAG>ACG	p.K3888T	AHNAK2_uc001ypx.2_Missense_Mutation_p.K3788T	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3888						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CATCTGCACCTTGGGCAGGTG	0.592													16	295					0	0	0.012319	0	0		G	105410125	G	G	105410125	3	3	20	1	0	0	0	0	1	0	0	0	415	1609	56	5	5728	5	AHNAK2	14	105410125	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3500	105410125	1939415	1315	18037											
NDN	4692	broad.mit.edu	37	chr15	23931581	23931581	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggctggcccgggagccccAaaagaactcgtattcgggcg	8	5	15	13	5	0	1	0	0	0	1	2	2	0	2	3	4	2	2	3	4	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:23931581A>G	uc001ywk.2	-	1	870	c.784T>C	c.(784-786)TGG>CGG	p.W262R		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	262	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		CGGGAGCCCCAAAAGAACTCG	0.577									Prader-Willi_syndrome				4	41					0	0	0.000602	0	0		G	23931581	G	G	23931581	3	3	20	1	0	0	0	0	1	0	0	0	10266	130	5	3	185	3	NDN	15	23931581	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08		23931581	78599811	1316	18038											
SNRPN	6638	broad.mit.edu	37	chr15	25220628	25220628	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatatgaatttgatcctcTgtgattgtgatgagttcaga	11	15	10	5	0	2	6	1	5	1	1	3	6	3	6	1	0	1	2	1	0	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:25220628T>C	uc001ywp.1	+	8	1017	c.127T>C	c.(127-129)TGT>CGT	p.C43R	SNRPN_uc001ywq.1_Missense_Mutation_p.C43R|SNRPN_uc001ywr.1_Missense_Mutation_p.C43R|SNRPN_uc001yws.1_Missense_Mutation_p.C43R|SNRPN_uc001ywt.1_Missense_Mutation_p.C43R|SNRPN_uc001ywv.1_Missense_Mutation_p.C46R|SNRPN_uc001yww.1_Missense_Mutation_p.C43R|SNRPN_uc001ywx.1_Missense_Mutation_p.C43R|SNRPN_uc001ywz.1_Intron|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	43				Missing (in Ref. 8).	RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		TTTGATCCTCTGTGATTGTGA	0.463									Prader-Willi_syndrome				50	139					0	0	0.01441	0	0		C	25220628	C	C	25220628	3	2	20	1	0	0	0	0	1	0	0	0	14895	1580	55	3	133	3	SNRPN	15	25220628	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1289047	25220628	77310764	1317	18039											
OCA2	4948	broad.mit.edu	37	chr15	28202861	28202861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcagtcaggcgccagaCgtgaatctcgtgcttcagtt	8	10	12	11	3	3	3	2	2	1	1	4	3	3	3	1	1	2	3	1	1	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:28202861C>T	uc001zbh.3	-	16	1767	c.1657G>A	c.(1657-1659)GTC>ATC	p.V553I	OCA2_uc010ayv.2_Missense_Mutation_p.V529I	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	553	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		AGGCGCCAGACGTGAATCTCG	0.617									Oculocutaneous_Albinism				9	25					0	0	0.008291	0	0		T	28202861	T	T	28202861	3	4	20	1	0	0	0	0	1	0	0	0	10834	536	19	1	895	1	OCA2	15	28202861	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2982233	28202861	74328531	1318	18040											
HERC2	8924	broad.mit.edu	37	chr15	28413691	28413691	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaacgaggggcactccacCggggcgatcatggcggccgg	8	3	18	12	5	1	1	1	0	0	1	2	4	2	1	3	7	1	1	3	7	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:28413691C>T	uc001zbj.2	-	67	10381	c.10275G>A	c.(10273-10275)CCG>CCA	p.P3425P		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3425					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GGCACTCCACCGGGGCGATCA	0.617													22	34					0	0	0.00623	0	0		T	28413691	T	T	28413691	2	4	20	1	0	0	0	0	0	0	0	1	7074	639	23	1		1	HERC2	15	28413691	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	210830	28413691	74117701	1319	18041											
HERC2	8924	broad.mit.edu	37	chr15	28538101	28538101	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatataggtgcaggagtttcTtcttcatcttttttctcttt	6	22	6	7	0	5	0	1	0	4	0	6	1	5	1	0	2	1	2	0	2	3	10			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:28538101T>G	uc001zbj.2	-	4	361	c.255A>C	c.(253-255)GAA>GAC	p.E85D	HERC2_uc001zbl.1_5'UTR	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	85					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CAGGAGTTTCTTCTTCATCTT	0.393													6	95					0	0	0.001984	0	0		G	28538101	G	G	28538101	3	3	20	1	0	0	0	0	1	0	0	0	7074	1606	56	5	14609	5	HERC2	15	28538101	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	124410	28538101	73993291	1320	18042											
FMN1	342184	broad.mit.edu	37	chr15	33261050	33261050	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggggaggtgggggtgcaAgtcctgggggtggtggagca	6	6	24	5	0	0	0	0	0	0	0	1	2	1	2	1	9	2	2	1	9	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:33261050A>C	uc001zhf.3	-	4	2183	c.2183T>G	c.(2182-2184)CTT>CGT	p.L728R		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	951	FH1.|Pro-rich.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		TGGGGGTGCAAGTCCTGGGGG	0.537													9	52					0	0	0.008291	0	0		C	33261050	C	C	33261050	3	2	20	1	0	0	0	0	1	0	0	0	5963	72	3	5	1463	5	FMN1	15	33261050	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	4722949	33261050	69270342	1321	18043											
RYR3	6263	broad.mit.edu	37	chr15	34064222	34064222	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacttcagaaaacctgaaacTtgggaagttcacccattccc	13	9	7	12	0	2	2	2	1	0	1	3	4	3	3	3	1	2	1	3	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:34064222T>G	uc001zhi.2	+	63	8988	c.8918T>G	c.(8917-8919)CTT>CGT	p.L2973R	RYR3_uc010bar.2_Missense_Mutation_p.L2973R	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2973	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AACCTGAAACTTGGGAAGTTC	0.463													3	27					0	0	0.004672	0	0		G	34064222	G	G	34064222	3	3	20	1	0	0	0	0	1	0	0	0	13795	1609	56	5	9168	5	RYR3	15	34064222	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	803172	34064222	68467170	1322	18044											
SPRED1	161742	broad.mit.edu	37	chr15	38643558	38643558	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atactgccaggaaaggtttaAtcatgaagaaaatgttaggg	16	10	11	4	0	1	2	1	1	0	1	1	3	1	3	1	3	2	2	1	3	7	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:38643558A>G	uc001zka.3	+	7	1363	c.1028A>G	c.(1027-1029)AAT>AGT	p.N343S		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	343	SPR.				inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		GAAAGGTTTAATCATGAAGAA	0.398									Legius_syndrome				4	186					0	0	0.000602	0	0		G	38643558	G	G	38643558	3	3	20	1	0	0	0	0	1	0	0	0	15117	101	4	3	1054	3	SPRED1	15	38643558	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	4579336	38643558	63887834	1323	18045											
PAK6	56924	broad.mit.edu	37	chr15	40564623	40564623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccccagcgggatcccccCgcacctggcacgcccagatc	6	5	9	21	3	0	1	0	0	0	1	3	2	2	2	7	2	1	2	7	2	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:40564623C>T	uc010bbl.2	+	6	1497	c.1057C>T	c.(1057-1059)CGC>TGC	p.R353C	PAK6_uc010bbm.2_Missense_Mutation_p.R353C|PAK6_uc001zky.3_Missense_Mutation_p.R353C|PAK6_uc010bbn.2_Missense_Mutation_p.R353C|PAK6_uc001zlb.2_Missense_Mutation_p.R353C	NM_001128628	NP_001122100	Q9NQU5	PAK6_HUMAN	p21-activated kinase 6	353	Linker.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(5)|large_intestine(1)|ovary(1)|skin(1)	8		all_cancers(109;1.13e-18)|all_epithelial(112;1.62e-15)|Lung NSC(122;5.67e-11)|all_lung(180;1.41e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0823)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.51e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0544)		GGGATCCCCCCGCACCTGGCA	0.677													19	33					0	0	0.007413	0	0		T	40564623	T	T	40564623	3	4	20	1	0	0	0	0	1	0	0	0	11423	652	23	1	1067	1	PAK6	15	40564623	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1921065	40564623	61966769	1324	18046											
PLCB2	5330	broad.mit.edu	37	chr15	40590804	40590804	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgagttgatgaagtaatgaTtgagtggctgcgtcatgtcg	10	12	14	5	3	1	4	1	4	0	0	2	5	1	4	0	1	1	3	0	1	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:40590804T>A	uc001zld.2	-	10	1257	c.956A>T	c.(955-957)AAT>ATT	p.N319I	PLCB2_uc010bbo.2_Missense_Mutation_p.N319I|PLCB2_uc010ucm.1_Missense_Mutation_p.N319I	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	319	PI-PLC X-box.				activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		GAAGTAATGATTGAGTGGCTG	0.562													5	56					0	0	0.001984	0	0		A	40590804	A	A	40590804	3	1	20	1	0	0	0	0	1	0	0	0	12047	1493	52	5	2693	5	PLCB2	15	40590804	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	26181	40590804	61940588	1325	18047											
C15orf52	388115	broad.mit.edu	37	chr15	40630826	40630826	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctatgccttggttcctTgctctggtaggcttttcact	3	17	8	13	0	3	0	1	0	2	0	4	0	4	0	3	3	2	4	3	3	2	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:40630826T>G	uc001zlh.3	-	5	571	c.555A>C	c.(553-555)GCA>GCC	p.A185A	C15orf52_uc001zli.1_Silent_p.A117A|C15orf52_uc010ucn.1_5'Flank	NM_207380	NP_997263	Q6ZUT6	CO052_HUMAN	hypothetical protein LOC388115	185										large_intestine(1)	1		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.06e-06)|Colorectal(105;0.0107)|BRCA - Breast invasive adenocarcinoma(123;0.0505)|READ - Rectum adenocarcinoma(2;0.0649)|Lung(196;0.0781)|LUAD - Lung adenocarcinoma(183;0.0841)		CTTGGTTCCTTGCTCTGGTAG	0.602											OREG0023060	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	88					0	0	0.009096	0	0		G	40630826	G	G	40630826	2	3	20	1	0	0	0	0	0	0	0	1	1803	1799	63	5		5	C15orf52	15	40630826	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	40022	40630826	61900566	1326	18048											
CASC5	57082	broad.mit.edu	37	chr15	40911163	40911163	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttctaaatagggatgaAcacattgctttctgctccca	10	16	6	9	0	2	1	0	1	2	0	3	2	3	2	1	1	3	2	1	1	4	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:40911163A>G	uc010bbs.1	+	10	568	c.407A>G	c.(406-408)AAC>AGC	p.N136S	CASC5_uc010ucq.1_Intron|CASC5_uc001zme.2_Missense_Mutation_p.N110S|CASC5_uc010bbt.1_Missense_Mutation_p.N110S	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	136	Interaction with BUB1 and BUB1B.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		ATAGGGATGAACACATTGCTT	0.333													3	145					0	0	0.004672	0	0		G	40911163	G	G	40911163	3	3	20	1	0	0	0	0	1	0	0	0	2666	43	2	3	441	3	CASC5	15	40911163	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	280337	40911163	61620229	1327	18049											
CASC5	57082	broad.mit.edu	37	chr15	40917332	40917333	+	Frame_Shift_Del	DEL	AA	-	-																															atagtagagatgaggaaaatAaaaagtctcataatggagct																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:40917332_40917333delAA	uc010bbs.1	+	11	5109_5110	c.4948_4949delAA	c.(4948-4950)AAAfs	p.K1650fs	CASC5_uc010ucq.1_Frame_Shift_Del_p.K1474fs|CASC5_uc001zme.2_Frame_Shift_Del_p.K1624fs|CASC5_uc010bbt.1_Frame_Shift_Del_p.K1624fs	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	1650					acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		TGAGGAAAATAAAAAGTCTCAT	0.342													53	121	---	---	---	---						.	-	40917333	-	-	40917332	7	5	20	1	0	1	0	1	0	0	0	0	2666	363	13	0	4986	0	CASC5	15	40917332	Frame_Shift_Del	DEL	AA	TCGA-BR-4362-01A-01D-1158-08	6169	40917332	61614060	1328	18050											
VPS18	57617	broad.mit.edu	37	chr15	41192619	41192619	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcccccgccacaaagagTggctctttgccagccgggcc	7	5	12	17	2	1	1	0	0	1	1	1	1	1	1	6	2	3	2	6	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:41192619T>A	uc001zne.2	+	4	1942	c.1603T>A	c.(1603-1605)TGG>AGG	p.W535R		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	535					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		CCACAAAGAGTGGCTCTTTGC	0.587													4	125					0	0	0.001984	0	0		A	41192619	A	A	41192619	3	1	20	1	0	0	0	0	1	0	0	0	17220	1696	59	5	1617	5	VPS18	15	41192619	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	275287	41192619	61338773	1329	18051											
SPTBN5	51332	broad.mit.edu	37	chr15	42148707	42148707	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggcggccacctcgtgggcGgcaaagtgcccagcctgcac	6	4	15	16	4	0	0	0	0	0	0	1	0	0	0	4	4	3	2	4	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:42148707G>A	uc001zos.2	-	53	9126	c.8793C>T	c.(8791-8793)GCC>GCT	p.A2931A		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	2966	Spectrin 26.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		CCTCGTGGGCGGCAAAGTGCC	0.701													3	8					0	0	0.004672	0	0		A	42148707	A	A	42148707	2	1	20	1	0	0	0	0	0	0	0	1	15147	1103	39	1		1	SPTBN5	15	42148707	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	956088	42148707	60382685	1330	18052											
GANC	2595	broad.mit.edu	37	chr15	42641615	42641615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagttatatcttgatgatgGccattcattccaatacctcc	10	15	6	10	0	2	3	1	3	1	0	4	3	4	3	4	1	1	1	4	1	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:42641615G>A	uc001zpi.2	+	22	2767	c.2453G>A	c.(2452-2454)GGC>GAC	p.G818D	CAPN3_uc001zpk.1_5'UTR|CAPN3_uc001zpl.1_5'UTR	NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	818					carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		CTTGATGATGGCCATTCATTC	0.398													5	229					0	0	0.001984	0	0		A	42641615	A	A	42641615	3	1	20	1	0	0	0	0	1	0	0	0	6249	1203	42	2	2539	2	GANC	15	42641615	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	492908	42641615	59889777	1331	18053											
ZFP106	64397	broad.mit.edu	37	chr15	42734562	42734562	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctactgttccttcgttctcGtgtgaggctacagggaacct	6	14	10	11	2	2	1	0	1	2	0	5	2	3	2	2	2	3	3	2	2	3	5	rs141505106	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:42734562G>A	uc001zpw.2	-	7	3738	c.3403C>T	c.(3403-3405)CGA>TGA	p.R1135*	ZFP106_uc001zpu.2_Nonsense_Mutation_p.R320*|ZFP106_uc001zpv.2_Nonsense_Mutation_p.R320*|ZFP106_uc001zpx.2_Nonsense_Mutation_p.R363*	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1135						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		CTTCGTTCTCGTGTGAGGCTA	0.448													31	111					0	0	0.004878	0	0		A	42734562	A	A	42734562	4	1	20	1	0	0	0	0	0	1	0	0	17662	1153	40	1	2300	1	ZFP106	15	42734562	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	92947	42734562	59796830	1332	18054											
LCMT2	9836	broad.mit.edu	37	chr15	43622543	43622543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcggtgaatgagcggtgCgcggcgcgccgcgcccggaa	5	4	18	14	9	0	2	0	2	0	0	1	3	0	3	3	4	2	0	3	4	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:43622543C>T	uc001zrg.2	-	1	349	c.145G>A	c.(145-147)GCA>ACA	p.A49T	LCMT2_uc010udn.1_Intron|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	49					tRNA processing		methyltransferase activity|protein binding				0		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.1e-07)	L-Leucine(DB00149)	ATGAGCGGTGCGCGGCGCGCC	0.711													22	53					0	0	0.004656	0	0		T	43622543	T	T	43622543	3	4	20	1	0	0	0	0	1	0	0	0	8695	768	27	1	1919	1	LCMT2	15	43622543	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	887981	43622543	58908849	1333	18055											
ELL3	80237	broad.mit.edu	37	chr15	44065384	44065384	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggacaatttctggtgaaggTactcacagcgacgcttttct	9	12	11	9	2	3	1	1	1	2	0	3	3	3	2	0	3	2	2	0	3	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:44065384T>C	uc001zsw.1	-	11	1527	c.1124A>G	c.(1123-1125)TAC>TGC	p.Y375C	ELL3_uc001zsv.1_Missense_Mutation_p.Y329C|ELL3_uc001zsx.1_Missense_Mutation_p.Y259C	NM_025165	NP_079441	Q9HB65	ELL3_HUMAN	elongation factor RNA polymerase II-like 3	375					positive regulation of transcription elongation, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				ovary(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;7.81e-07)		CTGGTGAAGGTACTCACAGCG	0.428													13	207					0	0	0.003163	0	0		C	44065384	C	C	44065384	3	2	20	1	0	0	0	0	1	0	0	0	5072	1638	57	3	73	3	ELL3	15	44065384	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	442841	44065384	58466008	1334	18056											
SPG11	80208	broad.mit.edu	37	chr15	44944003	44944003	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgaaggcccagctctgcAcacttgtactgtggttacca	10	10	10	11	0	1	1	0	1	1	0	1	2	1	1	2	2	4	4	2	2	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:44944003A>G	uc001ztx.2	-	6	1173	c.1142T>C	c.(1141-1143)GTG>GCG	p.V381A	SPG11_uc010ueh.1_Missense_Mutation_p.V381A|SPG11_uc010uei.1_Missense_Mutation_p.V381A|SPG11_uc001zua.1_Missense_Mutation_p.V381A	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	381	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		CCAGCTCTGCACACTTGTACT	0.438													34	111					0	0	0.004289	0	0		G	44944003	G	G	44944003	3	3	20	1	0	0	0	0	1	0	0	0	15066	159	6	3	6329	3	SPG11	15	44944003	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	878619	44944003	57587389	1335	18057											
TRIM69	140691	broad.mit.edu	37	chr15	45059837	45059837	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaggacagttgtccttctAcaatgctaaaaccatgactc	13	10	8	10	0	1	1	0	1	1	0	3	3	2	3	2	2	3	2	2	2	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:45059837A>G	uc001zuf.2	+	8	2265	c.1370A>G	c.(1369-1371)TAC>TGC	p.Y457C	TRIM69_uc001zui.1_Missense_Mutation_p.Y253C|TRIM69_uc010bdy.1_Missense_Mutation_p.Y236C|TRIM69_uc001zug.1_Missense_Mutation_p.Y457C|TRIM69_uc001zuh.1_Missense_Mutation_p.Y298C	NM_182985	NP_892030	Q86WT6	TRI69_HUMAN	tripartite motif-containing 69 isoform a	457	B30.2/SPRY.				apoptosis	nuclear speck	zinc ion binding				0		all_cancers(109;2.47e-13)|all_epithelial(112;2.84e-11)|Lung NSC(122;2.23e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;5.5e-19)|GBM - Glioblastoma multiforme(94;1.07e-06)|Colorectal(105;0.138)|COAD - Colon adenocarcinoma(120;0.141)		TTGTCCTTCTACAATGCTAAA	0.433													4	156					0	0	0.000602	0	0		G	45059837	G	G	45059837	3	3	20	1	0	0	0	0	1	0	0	0	16568	391	14	3	1396	3	TRIM69	15	45059837	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	115834	45059837	57471555	1336	18058											
SLC12A1	6557	broad.mit.edu	37	chr15	48543969	48543969	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgacttgtaagaagccaggTaagataatgactgtctggaa	14	10	12	5	0	1	4	0	2	1	2	1	5	1	5	1	2	1	2	1	2	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:48543969T>G	uc001zwn.3	+	15	2158	c.1942_splice	c.e15+2	p.D648_splice	SLC12A1_uc010uew.1_Splice_Site_p.D454_splice|SLC12A1_uc010bem.2_Splice_Site_p.D648_splice|SLC12A1_uc001zwq.3_Splice_Site_p.D419_splice|SLC12A1_uc001zwr.3_Splice_Site_p.D375_splice	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2						potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	AGAAGCCAGGTAAGATAATGA	0.308													11	38					0	0	0.013537	0	0		G	48543969	G	G	48543969	5	3	20	1	0	0	0	0	0	0	1	0	14407	1652	57	5	2098	5	SLC12A1	15	48543969	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3484132	48543969	53987423	1337	18059											
FBN1	2200	broad.mit.edu	37	chr15	48725097	48725097	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcttctctgagcacataTcccacgggacatttgcattc	8	12	8	13	2	2	1	0	1	2	0	5	2	3	2	1	2	2	2	1	2	1	4	rs150858138	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:48725097T>C	uc001zwx.1	-	55	7033	c.6705A>G	c.(6703-6705)GGA>GGG	p.G2235G	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2235	EGF-like 38; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		TGAGCACATATCCCACGGGAC	0.478													49	121					0	0	0.01441	0	0		C	48725097	C	C	48725097	2	2	20	1	0	0	0	0	0	0	0	1	5716	1422	50	3		3	FBN1	15	48725097	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	181128	48725097	53806295	1338	18060											
FBN1	2200	broad.mit.edu	37	chr15	48936816	48936816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctttaccctttaagcgcgtCgtgtcctccaccgcctcttc	4	13	6	18	4	1	0	0	0	1	0	5	0	3	0	6	0	2	0	6	0	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:48936816C>T	uc001zwx.1	-	2	479	c.151G>A	c.(151-153)GAC>AAC	p.D51N		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	51					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		TTAAGCGCGTCGTGTCCTCCA	0.577													114	334					0	0	0.01441	0	0		T	48936816	T	T	48936816	3	4	20	1	0	0	0	0	1	0	0	0	5716	884	31	1	8724	1	FBN1	15	48936816	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	211719	48936816	53594576	1339	18061											
KIAA1370	56204	broad.mit.edu	37	chr15	52901974	52901974	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatcacaatgaatcaaatgTtgggcaattcttgcaatgat	14	12	9	6	0	3	2	2	2	1	0	3	3	3	3	0	2	1	3	0	2	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:52901974T>C	uc002acg.3	-	6	1290	c.1137A>G	c.(1135-1137)CAA>CAG	p.Q379Q	KIAA1370_uc002ach.3_RNA|KIAA1370_uc010bfg.1_Silent_p.Q291Q|KIAA1370_uc010ugf.1_Silent_p.Q386Q	NM_019600	NP_062546	Q32MH5	K1370_HUMAN	hypothetical protein LOC56204	379											0				all cancers(107;0.0803)		GAATCAAATGTTGGGCAATTC	0.423													19	59					0	0	0.008871	0	0		C	52901974	C	C	52901974	2	2	20	1	0	0	0	0	0	0	0	1	8242	1722	60	3		3	KIAA1370	15	52901974	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3965158	52901974	49629418	1340	18062											
ONECUT1	3175	broad.mit.edu	37	chr15	53081473	53081473	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtgggcatggcggccccCgggtgggcatagtgggggag	4	6	22	9	3	0	0	0	0	0	0	1	1	0	1	2	8	0	2	2	8	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:53081473C>T	uc002aci.1	-	1	737	c.609G>A	c.(607-609)CCG>CCA	p.P203P		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	203					endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		TGGCGGCCCCCGGGTGGGCAT	0.706													26	56					0	0	0.004878	0	0		T	53081473	T	T	53081473	2	4	20	1	0	0	0	0	0	0	0	1	10887	639	23	1		1	ONECUT1	15	53081473	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	179499	53081473	49449919	1341	18063											
CCPG1	9236	broad.mit.edu	37	chr15	55657475	55657475	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttcatgtatctttctgaCtaactgttgacgcttctgaa	9	17	6	9	1	5	3	1	3	4	0	5	3	5	3	0	0	1	3	0	0	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:55657475C>G	uc002acv.1	-	7	904	c.739G>C	c.(739-741)GTC>CTC	p.V247L	CCPG1_uc002acy.2_Missense_Mutation_p.V247L|CCPG1_uc002acu.1_Missense_Mutation_p.V103L|CCPG1_uc002acw.1_Intron|CCPG1_uc002acx.2_Missense_Mutation_p.V247L|CCPG1_uc010bfk.1_Missense_Mutation_p.V247L|CCPG1_uc002acz.1_Missense_Mutation_p.V247L	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2	247	Lumenal (Potential).|Interaction with MCF2L and SRC (By similarity).				cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		ATCTTTCTGACTAACTGTTGA	0.234													17	111					0	0	0.00499	0	0		G	55657475	G	G	55657475	3	3	20	1	0	0	0	0	1	0	0	0	2941	565	20	5	1542	5	CCPG1	15	55657475	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2576002	55657475	46873917	1342	18064											
RFX7	64864	broad.mit.edu	37	chr15	56393577	56393577	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctggtgctgctgccattAcagttagagctgccattgac	7	12	11	11	0	0	2	0	1	0	1	0	2	0	2	2	1	7	5	2	1	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:56393577A>G	uc010bfn.2	-	7	791	c.791T>C	c.(790-792)GTA>GCA	p.V264A	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Missense_Mutation_p.V78A	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	167					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						TGCTGCCATTACAGTTAGAGC	0.403													4	5					0	0	0.009096	0	0		G	56393577	G	G	56393577	3	3	20	1	0	0	0	0	1	0	0	0	13293	391	14	3	3603	3	RFX7	15	56393577	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	736102	56393577	46137815	1343	18065											
RNF111	54778	broad.mit.edu	37	chr15	59376343	59376343	+	Frame_Shift_Del	DEL	C	-	-																															tccaggcgggcacatgaacgCcccccaccccatccacatag																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:59376343delC	uc002afv.2	+	9	2592	c.2313delC	c.(2311-2313)CGCfs	p.R771fs	RNF111_uc002afs.2_Frame_Shift_Del_p.R771fs|RNF111_uc002aft.2_Frame_Shift_Del_p.R780fs|RNF111_uc002afu.2_Frame_Shift_Del_p.R770fs|RNF111_uc002afw.2_Frame_Shift_Del_p.R780fs|RNF111_uc002afx.2_Frame_Shift_Del_p.R297fs|RNF111_uc002afy.2_5'Flank	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	771	Pro-rich.				multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		CACATGAACGCCCCCCACCCC	0.443													19	35	---	---	---	---						.	-	59376343	-	-	59376343	7	5	20	1	0	1	0	1	0	0	0	0	13450	726	26	0	2343	0	RNF111	15	59376343	Frame_Shift_Del	DEL	C	TCGA-BR-4362-01A-01D-1158-08	2982766	59376343	43155049	1344	18066											
ANXA2	302	broad.mit.edu	37	chr15	60641385	60641385	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatcaggaccttatctcgCgtccccttgccctgaaaatc	8	11	7	15	2	2	2	1	2	1	0	5	3	3	3	4	1	1	0	4	1	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:60641385C>T	uc002agn.2	-	13	1009	c.849G>A	c.(847-849)ACG>ACA	p.T283T	ANXA2_uc002agk.2_Silent_p.T283T|ANXA2_uc002agl.2_Silent_p.T283T|ANXA2_uc002agm.2_Silent_p.T301T|ANXA2_uc010uhd.1_Intron	NM_001136015	NP_001129487	P07355	ANXA2_HUMAN	annexin A2 isoform 2	283	Annexin 4.				angiogenesis|positive regulation of vesicle fusion|skeletal system development	basement membrane|melanosome|midbody|soluble fraction	calcium ion binding|calcium-dependent phospholipid binding|cytoskeletal protein binding|phospholipase inhibitor activity			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Tenecteplase(DB00031)	CCTTATCTCGCGTCCCCTTGC	0.368													20	24					0	0	0.00278	0	0		T	60641385	T	T	60641385	2	4	20	1	0	0	0	0	0	0	0	1	718	755	27	1		1	ANXA2	15	60641385	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1265042	60641385	41890007	1345	18067											
VPS13C	54832	broad.mit.edu	37	chr15	62238081	62238081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atctcccaaaatagagacagCctaaaagtattagattaact	18	10	5	8	0	1	2	0	0	1	2	2	3	1	2	2	0	2	1	2	0	8	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:62238081C>T	uc002agz.2	-	45	5055	c.4981G>A	c.(4981-4983)GCT>ACT	p.A1661T	VPS13C_uc002aha.2_Missense_Mutation_p.A1618T|VPS13C_uc002ahb.1_Missense_Mutation_p.A1661T|VPS13C_uc002ahc.1_Missense_Mutation_p.A1618T	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	1661					protein localization					ovary(2)	2						ATAGAGACAGCCTAAAAGTAT	0.363													14	192					0	0	0.001855	0	0		T	62238081	T	T	62238081	3	4	20	1	0	0	0	0	1	0	0	0	17217	753	26	2	6472	2	VPS13C	15	62238081	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1596696	62238081	40293311	1346	18068											
ZNF609	23060	broad.mit.edu	37	chr15	64970450	64970450	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtaaggactctgtccccAaggaagatgggaaggaaagc	14	5	15	7	0	1	1	0	0	1	1	2	6	2	6	2	5	1	1	2	5	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:64970450A>G	uc002ann.2	+	5	3538	c.3538A>G	c.(3538-3540)AAG>GAG	p.K1180E		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	1180						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CTCTGTCCCCAAGGAAGATGG	0.567													19	79					0	0	0.006122	0	0		G	64970450	G	G	64970450	3	3	20	1	0	0	0	0	1	0	0	0	18060	131	5	3	3556	3	ZNF609	15	64970450	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2732369	64970450	37560942	1347	18069											
AAGAB	79719	broad.mit.edu	37	chr15	67528769	67528769	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagacactctatcgcagAccaagatcatcacctcaggt	12	9	6	14	1	5	3	4	0	1	3	6	3	5	3	2	1	0	1	2	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:67528769A>G	uc002aqk.3	-	3	443	c.338T>C	c.(337-339)GTC>GCC	p.V113A	AAGAB_uc002aql.2_Missense_Mutation_p.V4A|AAGAB_uc010uju.1_Missense_Mutation_p.V4A	NM_024666	NP_078942	Q6PD74	AAGAB_HUMAN	alpha- and gamma-adaptin-binding protein p34	113					protein transport	cytoplasm					0						TCTATCGCAGACCAAGATCAT	0.428													17	76					0	0	0.00499	0	0		G	67528769	G	G	67528769	3	3	20	1	0	0	0	0	1	0	0	0	15	275	10	3	641	3	AAGAB	15	67528769	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2558319	67528769	35002623	1348	18070											
PAQR5	54852	broad.mit.edu	37	chr15	69682068	69682068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttccatgactactacgtggCcctggctgtactgaacacca	9	11	8	13	1	0	2	0	2	0	0	1	2	1	2	3	2	4	2	3	2	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:69682068C>T	uc002arz.2	+	6	839	c.461C>T	c.(460-462)GCC>GTC	p.A154V	PAQR5_uc002asa.2_Missense_Mutation_p.A154V	NM_017705	NP_060175	Q9NXK6	MPRG_HUMAN	progestin and adipoQ receptor family member V	154	Helical; Name=4; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane	receptor activity|steroid binding			ovary(2)	2						TACTACGTGGCCCTGGCTGTA	0.582													4	72					0	0	0.009096	0	0		T	69682068	T	T	69682068	3	4	20	1	0	0	0	0	1	0	0	0	11457	739	26	2	475	2	PAQR5	15	69682068	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2153299	69682068	32849324	1349	18071											
KIF23	9493	broad.mit.edu	37	chr15	69728066	69728066	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaggaaaagtgcggatgAtcgtgtgtgtgaaccccaag	12	7	16	6	2	0	2	0	2	0	0	1	5	0	5	2	3	2	0	2	3	5	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:69728066A>G	uc002asb.2	+	12	1345	c.1228A>G	c.(1228-1230)ATC>GTC	p.I410V	KIF23_uc002asc.2_Missense_Mutation_p.I410V|KIF23_uc010bii.2_Missense_Mutation_p.I300V|KIF23_uc010ukc.1_Missense_Mutation_p.I227V|KIF23_uc010bih.1_RNA	NM_138555	NP_612565	Q02241	KIF23_HUMAN	kinesin family member 23 isoform 1	410					blood coagulation|cytokinesis|microtubule-based movement|mitosis|mitotic spindle elongation	cytosol|kinesin complex|microtubule|midbody|nucleoplasm|spindle	ATP binding|microtubule motor activity|protein binding				0						AGTGCGGATGATCGTGTGTGT	0.368													36	113					0	0	0.007835	0	0		G	69728066	G	G	69728066	3	3	20	1	0	0	0	0	1	0	0	0	8307	333	12	3	1274	3	KIF23	15	69728066	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	45998	69728066	32803326	1350	18072											
PARP6	56965	broad.mit.edu	37	chr15	72541618	72541618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaatactggagatggggCtcaggtagatgcctttgcca	11	9	14	7	0	1	2	1	0	0	2	1	4	1	3	2	5	3	2	2	5	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:72541618C>T	uc002auc.2	-	19	1988	c.1529G>A	c.(1528-1530)AGC>AAC	p.S510N	PARP6_uc002aua.2_Missense_Mutation_p.S356N|PARP6_uc002aub.2_Intron|PARP6_uc002aud.3_Intron|PARP6_uc002auf.1_Missense_Mutation_p.S511N	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	510	PARP catalytic.						NAD+ ADP-ribosyltransferase activity				0						GGAGATGGGGCTCAGGTAGAT	0.463													4	61					0	0	0.000602	0	0		T	72541618	T	T	72541618	3	4	20	1	0	0	0	0	1	0	0	0	11483	797	28	2	383	2	PARP6	15	72541618	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2813552	72541618	29989774	1351	18073											
NEO1	4756	broad.mit.edu	37	chr15	73418845	73418845	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatgtagtgttgccatgtgTtgcttcaggacttcctactc	6	15	11	9	0	1	0	1	0	0	0	3	2	2	2	2	2	3	4	2	2	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:73418845T>C	uc002avm.3	+	4	954	c.812T>C	c.(811-813)GTT>GCT	p.V271A	NEO1_uc010ukx.1_Missense_Mutation_p.V271A|NEO1_uc010uky.1_Missense_Mutation_p.V271A|NEO1_uc010ukz.1_5'UTR	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	271	Extracellular (Potential).|Ig-like C2-type 3.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						TTGCCATGTGTTGCTTCAGGA	0.413													4	175					0	0	0.009096	0	0		C	73418845	C	C	73418845	3	2	20	1	0	0	0	0	1	0	0	0	10355	1725	60	3	826	3	NEO1	15	73418845	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	877227	73418845	29112547	1352	18074											
FBXO22	26263	broad.mit.edu	37	chr15	76222249	76222249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagataaccctgaacttcGtgtggtccttgtctttggtt	6	18	9	8	1	1	2	0	1	1	1	3	2	2	2	2	2	2	1	2	2	3	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:76222249G>A	uc002bbk.2	+	6	758	c.653G>A	c.(652-654)CGT>CAT	p.R218H	FBXO22_uc002bbj.1_Missense_Mutation_p.R218H|FBXO22_uc002bbl.2_Missense_Mutation_p.R114H	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	218					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0						CCTGAACTTCGTGTGGTCCTT	0.373													66	189					0	0	0.01441	0	0		A	76222249	A	A	76222249	3	1	20	1	0	0	0	0	1	0	0	0	5748	1145	40	1	675	1	FBXO22	15	76222249	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2803404	76222249	26309143	1353	18075											
TBC1D2B	23102	broad.mit.edu	37	chr15	78317659	78317659	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctgctggctctggaccTgcagttgcatttcggaggcc	4	12	12	13	1	1	0	0	0	1	0	3	2	2	2	3	4	3	5	3	4	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:78317659T>C	uc002bcy.3	-	5	1028	c.1028A>G	c.(1027-1029)CAG>CGG	p.Q343R	TBC1D2B_uc010bla.2_Missense_Mutation_p.Q343R	NM_144572	NP_653173	Q9UPU7	TBD2B_HUMAN	TBC1 domain family, member 2B isoform a	343	Potential.					intracellular	protein binding|Rab GTPase activator activity			ovary(1)|large_intestine(1)|breast(1)	3						GCTCTGGACCTGCAGTTGCAT	0.527													3	115					0	0	0.004672	0	0		C	78317659	C	C	78317659	3	2	20	1	0	0	0	0	1	0	0	0	15644	1580	55	3	1899	3	TBC1D2B	15	78317659	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2095410	78317659	24213733	1354	18076											
MEX3B	84206	broad.mit.edu	37	chr15	82336434	82336434	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccagaggctgcctgggccGgacccgccggacccatgatg	6	5	14	16	3	0	2	0	1	0	1	1	4	1	4	6	4	1	1	6	4	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:82336434G>A	uc002bgq.1	-	2	1092	c.777C>T	c.(775-777)TCC>TCT	p.S259S		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	259					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						TGCCTGGGCCGGACCCGCCGG	0.652													14	23					0	0	0.00499	0	0		A	82336434	A	A	82336434	2	1	20	1	0	0	0	0	0	0	0	1	9528	1103	39	1		1	MEX3B	15	82336434	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4018775	82336434	20194958	1355	18077											
ALPK3	57538	broad.mit.edu	37	chr15	85360124	85360124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggccaacagccactggCgaggcaaggcgagggtcagt	9	4	17	11	2	1	0	1	0	0	0	1	2	1	0	2	5	2	2	2	5	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:85360124C>T	uc002ble.2	+	1	214	c.47C>T	c.(46-48)GCG>GTG	p.A16V		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	16					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CAGCCACTGGCGAGGCAAGGC	0.448													5	9					0	0	0.004482	0	0		T	85360124	T	T	85360124	3	4	20	1	0	0	0	0	1	0	0	0	546	768	27	1	49	1	ALPK3	15	85360124	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3023690	85360124	17171268	1356	18078											
ISG20	3669	broad.mit.edu	37	chr15	89195456	89195456	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacacgtccactgacaggcTgttgtggcgtgaggccaagc	8	7	14	12	3	0	2	0	2	0	0	1	3	1	2	2	3	1	2	2	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:89195456T>G	uc002bmv.1	+	3	637	c.344T>G	c.(343-345)CTG>CGG	p.L115R	ISG20_uc002bmu.1_RNA|ISG20_uc002bmw.1_RNA|ISG20_uc010upn.1_RNA	NM_002201	NP_002192	Q96AZ6	ISG20_HUMAN	interferon stimulated exonuclease	115					cell proliferation|DNA catabolic process, exonucleolytic|response to virus|RNA catabolic process|type I interferon-mediated signaling pathway	PML body	3'-5'-exoribonuclease activity|exoribonuclease II activity|metal ion binding|RNA binding|single-stranded DNA specific 3'-5' exodeoxyribonuclease activity				0	Lung NSC(78;0.0554)|all_lung(78;0.103)		BRCA - Breast invasive adenocarcinoma(143;0.12)			ACTGACAGGCTGTTGTGGCGT	0.557													22	58					0	0	0.009535	0	0		G	89195456	G	G	89195456	3	3	20	1	0	0	0	0	1	0	0	0	7870	1580	55	5	350	5	ISG20	15	89195456	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3835332	89195456	13335936	1357	18079											
RHCG	51458	broad.mit.edu	37	chr15	90023542	90023542	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaattctgtctctccttgCtctgctctaggttgcgtcgg	4	15	10	12	2	4	1	0	0	4	1	7	1	5	1	1	2	3	3	1	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:90023542C>A	uc002bnz.2	-	4	644	c.620G>T	c.(619-621)AGC>ATC	p.S207I	RHCG_uc002bny.2_5'Flank|RHCG_uc002boa.2_RNA|RHCG_uc010bnq.1_Missense_Mutation_p.S91I	NM_016321	NP_057405	Q9UBD6	RHCG_HUMAN	Rh family, C glycoprotein	207	Cytoplasmic (Potential).				amine transport|cellular ion homeostasis|epithelial cell differentiation|transepithelial ammonium transport	apical plasma membrane|basolateral plasma membrane|cytoplasmic vesicle|integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			kidney(1)	1	Lung NSC(78;0.0237)|all_lung(78;0.0478)					TCTCTCCTTGCTCTGCTCTAG	0.557													47	141					1.48526e-39	1.60719e-39	0.01441	1	0		A	90023542	A	A	90023542	3	1	20	1	0	0	0	0	1	0	0	0	13351	797	28	5	847	5	RHCG	15	90023542	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	828086	90023542	12507850	1358	18080											
AP3S2	10239	broad.mit.edu	37	chr15	90454008	90454008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgtccaagatgctgtgccGagatacatcgatcagttctc	10	11	10	10	2	2	2	1	0	1	2	5	4	3	2	2	0	3	2	2	0	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:90454008G>A	uc002bos.3	-	2	291	c.136C>T	c.(136-138)CGG>TGG	p.R46W	C15orf38_uc002bot.1_RNA|C15orf38_uc002bou.2_Missense_Mutation_p.R46W	NM_182616	NP_872422	P59780	AP3S2_HUMAN	hypothetical protein LOC348110	Error:Variant_position_missing_in_P59780_after_alignment					intracellular protein transport|vesicle-mediated transport	cytoplasmic vesicle membrane|Golgi apparatus|membrane coat	protein transporter activity				0	Lung NSC(78;0.0181)|all_lung(78;0.0384)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.223)			ATGCTGTGCCGAGATACATCG	0.522													16	43					0	0	0.008871	0	0		A	90454008	A	A	90454008	3	1	20	1	0	0	0	0	1	0	0	0	750	1057	37	1		1	AP3S2	15	90454008	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	430466	90454008	12077384	1359	18081											
PRC1	9055	broad.mit.edu	37	chr15	91524789	91524789	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaacaaaaggcatcttcGtcttcacacaccacatctct	14	9	4	14	1	4	0	1	0	3	0	6	1	4	0	1	1	1	1	1	1	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:91524789G>A	uc002bqm.2	-	5	769	c.612C>T	c.(610-612)GAC>GAT	p.D204D	PRC1_uc002bqn.2_Silent_p.D204D|PRC1_uc002bqo.2_Silent_p.D204D|PRC1_uc010uqs.1_Silent_p.D163D|PRC1_uc010uqt.1_Silent_p.D152D	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	204	Dimerization.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					AGGCATCTTCGTCTTCACACA	0.423													39	67					0	0	0.00874	0	0		A	91524789	A	A	91524789	2	1	20	1	0	0	0	0	0	0	0	1	12468	1136	40	1		1	PRC1	15	91524789	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1070781	91524789	11006603	1360	18082											
PGPEP1L	145814	broad.mit.edu	37	chr15	99514341	99514341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaggcagctccagagtcCgcagctgcaccactgtttca	9	8	9	15	1	1	1	1	0	0	1	3	1	3	1	3	1	4	6	3	1	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:99514341C>T	uc002bum.2	-	3	274	c.68G>A	c.(67-69)CGG>CAG	p.R23Q	PGPEP1L_uc010bop.2_5'UTR|PGPEP1L_uc002bun.2_RNA	NM_001102612	NP_001096082	A6NFU8	PGPIL_HUMAN	pyroglutamyl-peptidase 1-like protein	23					proteolysis		cysteine-type peptidase activity				0						CTCCAGAGTCCGCAGCTGCAC	0.612													15	27					0	0	0.00499	0	0		T	99514341	T	T	99514341	3	4	20	1	0	0	0	0	1	0	0	0	11823	652	23	1	534	1	PGPEP1L	15	99514341	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	7989552	99514341	3017051	1361	18083											
ADAMTS17	170691	broad.mit.edu	37	chr15	100636574	100636574	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcacctgtcccccgggcGtggctgaagtcgcccttcac	5	8	10	18	3	2	1	2	1	0	0	4	1	3	1	4	2	0	1	4	2	1	1	rs142335314		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr15:100636574G>A	uc002bvv.1	-	15	2203	c.2124C>T	c.(2122-2124)CAC>CAT	p.H708H	ADAMTS17_uc002bvx.1_Silent_p.H465H	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	708	Spacer.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		TCCCCCGGGCGTGGCTGAAGT	0.587													41	214					0	0	0.01441	0	0		A	100636574	A	A	100636574	2	1	20	1	0	0	0	0	0	0	0	1	262	1136	40	1		1	ADAMTS17	15	100636574	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1122233	100636574	1894818	1362	18084											
NPRL3	8131	broad.mit.edu	37	chr16	138812	138812	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcctctggttcagtggCgagtccccgctgggaagtag	6	10	14	11	2	3	0	2	0	1	0	5	2	5	1	3	3	0	3	3	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:138812C>T	uc002cfr.2	-	13	1527	c.1428G>A	c.(1426-1428)TCG>TCA	p.S476S	NPRL3_uc010uua.1_RNA|NPRL3_uc002cfp.1_RNA|NPRL3_uc002cfq.2_Silent_p.S297S|NPRL3_uc010uub.1_Silent_p.S451S|NPRL3_uc010uuc.1_Silent_p.S398S|NPRL3_uc002cfs.1_Silent_p.S451S	NM_001077350	NP_001070818	Q12980	NPRL3_HUMAN	conserved gene telomeric to alpha globin cluster	476							protein binding			ovary(1)	1						GGTTCAGTGGCGAGTCCCCGC	0.632													3	16					0	0	0.009096	0	0		T	138812	T	T	138812	2	4	20	1	0	0	0	0	0	0	0	1	10617	755	27	1		1	NPRL3	16	138812	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08		138812	90215941	1363	18085											
MSLN	10232	broad.mit.edu	37	chr16	816649	816649	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccttgccacaaggctccTcggcggcccctcccacaggt	5	8	9	19	2	1	0	0	0	1	0	5	0	3	0	6	4	1	1	6	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:816649T>C	uc002cjw.1	+	13	1287	c.1236T>C	c.(1234-1236)CCT>CCC	p.P412P	MSLN_uc002cjt.1_Intron|MSLN_uc002cju.1_Intron|MSLN_uc010brd.1_Intron|MSLN_uc002cjv.1_Intron|MSLN_uc002cjx.1_Intron|MSLN_uc002cjy.1_Intron	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein	412					cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)				ACAAGGCTCCTCGGCGGCCCC	0.637													9	61					0	0	0.001855	0	0		C	816649	C	C	816649	2	2	20	1	0	0	0	0	0	0	0	1	9899	1538	54	3		3	MSLN	16	816649	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	677837	816649	89538104	1364	18086											
CACNA1H	8912	broad.mit.edu	37	chr16	1257104	1257104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccctgctgtgggccatcGtcaccgtgttccaggtagtg	5	11	12	13	2	1	0	1	0	0	0	4	0	3	0	4	2	1	3	4	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:1257104G>A	uc002cks.2	+	13	3141	c.2893G>A	c.(2893-2895)GTC>ATC	p.V965I	CACNA1H_uc002ckt.2_Missense_Mutation_p.V965I|CACNA1H_uc002cku.2_5'Flank|CACNA1H_uc010brj.2_5'Flank|CACNA1H_uc002ckv.2_5'Flank	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	965	II.|Extracellular (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	GTGGGCCATCGTCACCGTGTT	0.622													3	12					0	0	0.009096	0	0		A	1257104	A	A	1257104	3	1	20	1	0	0	0	0	1	0	0	0	2548	1145	40	1	2939	1	CACNA1H	16	1257104	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	440455	1257104	89097649	1365	18087											
BAIAP3	8938	broad.mit.edu	37	chr16	1392275	1392275	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctggggtgcctcaacatAcctgtccgggtgagtgggtg	5	11	15	10	1	1	1	1	1	0	0	3	1	3	1	4	4	3	0	4	4	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:1392275A>G	uc002clk.1	+	11	1053	c.1053A>G	c.(1051-1053)ATA>ATG	p.I351M	BAIAP3_uc002clj.2_Missense_Mutation_p.I333M|BAIAP3_uc010uuz.1_Missense_Mutation_p.I316M|BAIAP3_uc010uva.1_Missense_Mutation_p.I288M|BAIAP3_uc010uvb.1_Missense_Mutation_p.I368M|BAIAP3_uc010uvc.1_Missense_Mutation_p.I316M	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	351					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				GCCTCAACATACCTGTCCGGG	0.622													3	53					0	0	0.004672	0	0		G	1392275	G	G	1392275	3	3	20	1	0	0	0	0	1	0	0	0	1305	381	14	3	1095	3	BAIAP3	16	1392275	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	135171	1392275	88962478	1366	18088											
TSC2	7249	broad.mit.edu	37	chr16	2106665	2106665	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccctgcaggtgctggaCgccgtggtctgctacaactg	5	10	13	13	2	2	0	0	0	2	0	3	1	2	1	2	3	5	3	2	3	2	1	rs35501344		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:2106665C>T	uc002con.2	+	8	775	c.669C>T	c.(667-669)GAC>GAT	p.D223D	TSC2_uc010bsd.2_Silent_p.D223D|TSC2_uc002coo.2_Silent_p.D223D|TSC2_uc010uvv.1_Silent_p.D186D|TSC2_uc010uvw.1_Silent_p.D174D|TSC2_uc002cop.2_Silent_p.D23D	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	223	Required for interaction with TSC1.				cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity	p.D223N(1)		central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				AGGTGCTGGACGCCGTGGTCT	0.642			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				19	63					0	0	0.008871	0	0		T	2106665	T	T	2106665	2	4	20	1	0	0	0	0	0	0	0	1	16632	535	19	1		1	TSC2	16	2106665	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	714390	2106665	88248088	1367	18089											
PKD1	5310	broad.mit.edu	37	chr16	2150211	2150211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcccccgttggcctccGtctccaccgaaagccagtca	7	6	9	19	3	2	0	1	0	1	0	4	1	3	0	8	2	1	1	8	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:2150211G>A	uc002cos.1	-	28	9877	c.9668C>T	c.(9667-9669)ACG>ATG	p.T3223M	PKD1_uc002cot.1_Missense_Mutation_p.T3223M|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	3223	PLAT.|Cytoplasmic (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GTTGGCCTCCGTCTCCACCGA	0.657													6	72					0	0	0.00308	0	0		A	2150211	A	A	2150211	3	1	20	1	0	0	0	0	1	0	0	0	11982	1145	40	1	3319	1	PKD1	16	2150211	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	43546	2150211	88204542	1368	18090											
TRAF7	84231	broad.mit.edu	37	chr16	2223954	2223954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagatcttcaagtgcaaaGggacctttgtgggccaccag	11	8	12	10	0	2	1	1	0	1	1	2	2	2	2	3	2	2	2	3	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:2223954G>A	uc002cow.2	+	13	1267	c.1168G>A	c.(1168-1170)GGG>AGG	p.G390R		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	390					activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						CAAGTGCAAAGGGACCTTTGT	0.632													42	104					0	0	0.009718	0	0		A	2223954	A	A	2223954	3	1	20	1	0	0	0	0	1	0	0	0	16472	1000	35	4	1214	4	TRAF7	16	2223954	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	73743	2223954	88130799	1369	18091											
PGP	283871	broad.mit.edu	37	chr16	2263803	2263803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccattttcttcttagacaCgcagtcactttcctgattat	9	16	5	11	1	3	2	1	1	2	1	4	3	4	2	2	0	0	1	2	0	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:2263803C>T	uc002cpk.1	-	2	936	c.892G>A	c.(892-894)GTG>ATG	p.V298M	C16orf79_uc002cpi.1_5'Flank|C16orf79_uc010bsh.2_5'Flank|PGP_uc010uvz.1_RNA	NM_001042371	NP_001035830	A6NDG6	PGP_HUMAN	phosphoglycolate phosphatase	298					carbohydrate metabolic process		phosphoglycolate phosphatase activity			skin(1)	1						TTCTTAGACACGCAGTCACTT	0.488													48	156					0	0	0.01441	0	0		T	2263803	T	T	2263803	3	4	20	1	0	0	0	0	1	0	0	0	11821	536	19	1	77	1	PGP	16	2263803	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	39849	2263803	88090950	1370	18092											
PRSS27	83886	broad.mit.edu	37	chr16	2763683	2763683	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagtttctgcaggatccgCggttcgggcaggaggtctgg	5	9	18	9	4	2	0	0	0	2	0	4	3	3	2	1	6	1	4	1	6	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:2763683C>T	uc002crf.2	-	5	916	c.525G>A	c.(523-525)CCG>CCA	p.P175P	PRSS27_uc002cre.2_Silent_p.P139P|PRSS27_uc002crg.2_Silent_p.P73P|PRSS27_uc010bst.1_Silent_p.P73P	NM_031948	NP_114154	Q9BQR3	PRS27_HUMAN	marapsin precursor	175	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1						GCAGGATCCGCGGTTCGGGCA	0.597													23	42					0	0	0.003954	0	0		T	2763683	T	T	2763683	2	4	20	1	0	0	0	0	0	0	0	1	12643	755	27	1		1	PRSS27	16	2763683	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	499880	2763683	87591070	1371	18093											
MEFV	4210	broad.mit.edu	37	chr16	3299587	3299587	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactgtggcaggggctggggGcttaggcttcccgggctctt	3	10	17	11	1	1	0	0	0	1	0	2	0	2	0	1	7	0	5	1	7	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:3299587G>A	uc002cun.1	-	3	1144	c.1104C>T	c.(1102-1104)AGC>AGT	p.S368S		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	368					inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	GGGGCTGGGGGCTTAGGCTTC	0.642													11	33					0	0	0.008291	0	0		A	3299587	A	A	3299587	2	1	20	1	0	0	0	0	0	0	0	1	9477	1194	42	2		2	MEFV	16	3299587	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	535904	3299587	87055166	1372	18094											
BTBD12	84464	broad.mit.edu	37	chr16	3640962	3640962	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtttctgcacctggacacCtgctaggagttgcccagaaa	9	10	10	12	0	1	1	0	0	1	1	1	3	1	3	3	2	3	4	3	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:3640962C>A	uc002cvp.2	-	12	3304	c.2677G>T	c.(2677-2679)GGT>TGT	p.G893C		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	893	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						ACCTGGACACCTGCTAGGAGT	0.612								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				6	104					2.0095e-06	2.07442e-06	0.001984	1	0		A	3640962	A	A	3640962	3	1	20	1	0	0	0	0	1	0	0	0	1543	681	24	5	2843	5	BTBD12	16	3640962	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	341375	3640962	86713791	1373	18095											
CREBBP	1387	broad.mit.edu	37	chr16	3781793	3781793	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctccttgtgcttctccAtggtggcatacagcttctgg	5	14	9	13	0	2	0	0	0	2	0	4	0	3	0	3	3	4	3	3	3	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:3781793A>G	uc002cvv.2	-	29	5078	c.4874T>C	c.(4873-4875)ATG>ACG	p.M1625T	CREBBP_uc002cvw.2_Missense_Mutation_p.M1587T	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1625	Interaction with TRERF1.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding	p.M1625L(1)		haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GTGCTTCTCCATGGTGGCATA	0.507			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				5	161					0	0	0.000602	0	0		G	3781793	G	G	3781793	3	3	20	1	0	0	0	0	1	0	0	0	3864	217	8	3	2466	3	CREBBP	16	3781793	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	140831	3781793	86572960	1374	18096											
SRL	6345	broad.mit.edu	37	chr16	4247798	4247798	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcacacaagaatattgattAcctgtatagagctgatagcg	15	11	8	7	1	1	4	1	2	0	2	1	4	1	4	1	0	3	2	1	0	7	6	rs112367857		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:4247798A>G	uc002cvz.3	-	4	389	c.376_splice	c.e4+1	p.G126_splice	SRL_uc002cvy.3_Splice_Site	NM_001098814	NP_001092284	Q86TD4	SRCA_HUMAN	sarcalumenin							sarcoplasmic reticulum lumen	GTP binding|GTPase activity			ovary(3)|skin(2)	5						AATATTGATTACCTGTATAGA	0.338													43	82					0	0	0.011902	0	0		G	4247798	G	G	4247798	5	3	20	1	0	0	0	0	0	0	1	0	15175	405	14	3	1055	3	SRL	16	4247798	Splice_Site	SNP	A	TCGA-BR-4362-01A-01D-1158-08	466005	4247798	86106955	1375	18097											
TFAP4	7023	broad.mit.edu	37	chr16	4312555	4312555	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttgctgagcttctctccGtctgtgtgggggatgagggt	4	13	15	9	1	2	2	0	2	2	0	4	3	3	3	2	3	2	2	2	3	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:4312555G>A	uc010uxg.1	-	2	491	c.237C>T	c.(235-237)GAC>GAT	p.D79D		NM_003223	NP_003214	Q01664	TFAP4_HUMAN	transcription factor AP-4 (activating enhancer	79	Helix-loop-helix motif.				DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation by host of viral transcription|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|regulation of S phase of mitotic cell cycle	transcriptional repressor complex	E-box binding|histone deacetylase binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GCTTCTCTCCGTCTGTGTGGG	0.622													45	139					0	0	0.01441	0	0		A	4312555	A	A	4312555	2	1	20	1	0	0	0	0	0	0	0	1	15817	1136	40	1		1	TFAP4	16	4312555	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	64757	4312555	86042198	1376	18098											
TFAP4	7023	broad.mit.edu	37	chr16	4322659	4322659	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggaggaggagtacacacCtacagagccctcctatcact	11	6	12	12	0	1	1	1	0	0	1	2	4	2	4	3	4	3	1	3	4	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:4322659C>A	uc010uxg.1	-	1	343	c.89G>T	c.(88-90)AGC>ATC	p.S30I		NM_003223	NP_003214	Q01664	TFAP4_HUMAN	transcription factor AP-4 (activating enhancer	30					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation by host of viral transcription|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|regulation of S phase of mitotic cell cycle	transcriptional repressor complex	E-box binding|histone deacetylase binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GAGTACACACCTACAGAGCCC	0.488													9	23					7.48243e-07	7.7431e-07	0.006214	1	0		A	4322659	A	A	4322659	3	1	20	1	0	0	0	0	1	0	0	0	15817	695	24	5	955	5	TFAP4	16	4322659	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	10104	4322659	86032094	1377	18099											
CLEC16A	23274	broad.mit.edu	37	chr16	11219992	11219992	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgtgtttgcatcggtggAcaaggtgccaggtgagccag	7	9	15	10	2	0	1	0	1	0	0	2	2	1	2	3	4	3	2	3	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:11219992A>G	uc002dao.2	+	22	2860	c.2630A>G	c.(2629-2631)GAC>GGC	p.D877G	CLEC16A_uc002dan.3_Missense_Mutation_p.D859G|CLEC16A_uc002dap.2_5'UTR	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	877										ovary(1)|central_nervous_system(1)	2						GCATCGGTGGACAAGGTGCCA	0.652													16	49					0	0	0.003163	0	0		G	11219992	G	G	11219992	3	3	20	1	0	0	0	0	1	0	0	0	3503	275	10	3	2712	3	CLEC16A	16	11219992	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	6897333	11219992	79134761	1378	18100											
RUNDC2A	84127	broad.mit.edu	37	chr16	12142408	12142408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcacagcctcctctgccGtctccatcctcatcaaacct	9	10	4	18	1	5	1	3	0	2	1	8	1	7	1	6	0	3	0	6	0	1	0	rs143274296		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:12142408G>A	uc002dbw.1	+	7	741	c.679G>A	c.(679-681)GTC>ATC	p.V227I		NM_032167	NP_115543	Q9HA26	RUN2A_HUMAN	RUN domain containing 2A	227										ovary(1)	1						CTCCTCTGCCGTCTCCATCCT	0.577			T	CIITA	PMBL|Hodgkin Lymphona|								4	61					0	0	0.000602	0	0		A	12142408	A	A	12142408	3	1	20	1	0	0	0	0	1	0	0	0	13768	1145	40	1	705	1	RUNDC2A	16	12142408	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	922416	12142408	78212345	1379	18101											
PARN	5073	broad.mit.edu	37	chr16	14540793	14540793	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaatttcttggccttttTccttccctctgagaggggct	4	19	8	10	0	2	1	0	1	2	1	4	2	4	1	3	3	0	1	3	3	1	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:14540793T>C	uc010uzd.1	-	23	1958	c.1816A>G	c.(1816-1818)AAA>GAA	p.K606E	PARN_uc010uzc.1_Missense_Mutation_p.K545E|PARN_uc010uze.1_Missense_Mutation_p.K560E|PARN_uc010uzf.1_Missense_Mutation_p.K431E	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation	606					female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2						TTGGCCTTTTTCCTTCCCTCT	0.502													36	81					0	0	0.005524	0	0		C	14540793	C	C	14540793	3	2	20	1	0	0	0	0	1	0	0	0	11472	1792	62	3	111	3	PARN	16	14540793	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2398385	14540793	75813960	1380	18102											
NOMO1	23420	broad.mit.edu	37	chr16	14976505	14976505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggcaacgaccacattgagCgggcgctcccccaccatagg	11	4	11	15	3	0	1	0	1	0	0	1	2	1	1	4	3	2	2	4	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:14976505C>T	uc002dcv.2	+	26	3148	c.3082C>T	c.(3082-3084)CGG>TGG	p.R1028W		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor	1028	Extracellular (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						CCACATTGAGCGGGCGCTCCC	0.582													30	113					0	0	0.003271	0	0		T	14976505	T	T	14976505	3	4	20	1	0	0	0	0	1	0	0	0	10550	759	27	1	3184	1	NOMO1	16	14976505	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	435712	14976505	75378248	1381	18103											
XYLT1	64131	broad.mit.edu	37	chr16	17232375	17232375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggctgttctccaggaccGtatggaagaaggactgcagg	9	7	17	8	1	1	1	0	0	1	1	2	4	1	4	2	6	1	4	2	6	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:17232375G>A	uc002dfa.2	-	8	1686	c.1601C>T	c.(1600-1602)ACG>ATG	p.T534M		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	534	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						CTCCAGGACCGTATGGAAGAA	0.502													15	46					0	0	0.00499	0	0		A	17232375	A	A	17232375	3	1	20	1	0	0	0	0	1	0	0	0	17489	1145	40	1	1298	1	XYLT1	16	17232375	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2255870	17232375	73122378	1382	18104											
ACSM2A	123876	broad.mit.edu	37	chr16	20494494	20494494	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagccccatacaagtacccaAgaaaggtaaggcctttgagc	14	6	9	12	0	0	2	0	1	0	1	0	2	0	2	4	2	4	2	4	2	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:20494494A>G	uc010bwe.2	+	14	1863	c.1624A>G	c.(1624-1626)AGA>GGA	p.R542G	ACSM2A_uc002dhf.3_Missense_Mutation_p.R542G|ACSM2A_uc002dhg.3_Missense_Mutation_p.R542G|ACSM2A_uc010vay.1_Missense_Mutation_p.R463G|ACSM2A_uc002dhh.3_Missense_Mutation_p.R172G	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	542	Coenzyme A binding.				fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CAAGTACCCAAGAAAGGTAAG	0.478													44	103					0	0	0.01441	0	0		G	20494494	G	G	20494494	3	3	20	1	0	0	0	0	1	0	0	0	183	64	3	3	1670	3	ACSM2A	16	20494494	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3262119	20494494	69860259	1383	18105											
LOC81691	81691	broad.mit.edu	37	chr16	20851786	20851786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttttgttcttgaaacccGtcaggtaagaccggaaaatt	12	12	9	8	2	2	2	1	1	1	1	2	4	2	3	2	2	1	2	2	2	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:20851786G>A	uc002dhv.2	+	15	1885	c.1622G>A	c.(1621-1623)CGT>CAT	p.R541H	ERI2_uc002dht.3_Intron|LOC81691_uc002dhx.2_Missense_Mutation_p.R541H|LOC81691_uc002dhw.2_Missense_Mutation_p.R284H|LOC81691_uc002dhy.3_Missense_Mutation_p.R541H	NM_030941	NP_112203	Q96IC2	REXON_HUMAN	exonuclease NEF-sp isoform 1	541	RRM 1.					nucleolus	exonuclease activity|nucleotide binding|RNA binding			ovary(1)|kidney(1)	2						CTTGAAACCCGTCAGGTAAGA	0.413													45	124					0	0	0.01441	0	0		A	20851786	A	A	20851786	3	1	20	1	0	0	0	0	1	0	0	0	8908	1145	40	1	1676	1	LOC81691	16	20851786	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	357292	20851786	69502967	1384	18106											
DNAH3	55567	broad.mit.edu	37	chr16	21042529	21042529	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtggctcacttggtcaaaGcacccatacagctgccccat	9	9	8	15	1	2	0	2	0	0	0	3	0	2	0	3	2	4	3	3	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:21042529G>A	uc010vbe.1	-	37	5277	c.5277C>T	c.(5275-5277)TGC>TGT	p.C1759C		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1759	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CTTGGTCAAAGCACCCATACA	0.507													9	64					0	0	0.006214	0	0		A	21042529	A	A	21042529	2	1	20	1	0	0	0	0	0	0	0	1	4609	963	34	2		2	DNAH3	16	21042529	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	190743	21042529	69312224	1385	18107											
DNAH3	55567	broad.mit.edu	37	chr16	21049222	21049222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagcacagacttgacagcgCgcataccgtagtcatagtga	13	8	10	10	3	1	3	1	2	0	1	1	3	1	3	1	0	3	3	1	0	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:21049222C>T	uc010vbe.1	-	34	4811	c.4811G>A	c.(4810-4812)CGC>CAC	p.R1604H		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1604	AAA 1 (By similarity).			YGMR -> FGLH (in Ref. 5; CAB06059).	ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CTTGACAGCGCGCATACCGTA	0.522													12	42					0	0	0.013537	0	0		T	21049222	T	T	21049222	3	4	20	1	0	0	0	0	1	0	0	0	4609	768	27	1	7654	1	DNAH3	16	21049222	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6693	21049222	69305531	1386	18108											
DNAH3	55567	broad.mit.edu	37	chr16	21109952	21109952	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaacctcaaactctgcaaaCgcccgatttaggttctttga	12	11	6	12	2	3	1	1	1	2	0	3	2	3	1	2	1	4	2	2	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:21109952C>T	uc010vbe.1	-	17	2505	c.2505G>A	c.(2503-2505)GCG>GCA	p.A835A		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	835	Stem (By similarity).|Potential.				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ACTCTGCAAACGCCCGATTTA	0.403													60	156					0	0	0.01441	0	0		T	21109952	T	T	21109952	2	4	20	1	0	0	0	0	0	0	0	1	4609	523	19	1		1	DNAH3	16	21109952	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	60730	21109952	69244801	1387	18109											
ZP2	7783	broad.mit.edu	37	chr16	21222833	21222833	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcattgaaccagcctgaGggactccaagagcctcctct	9	8	9	15	0	1	3	0	2	1	1	3	4	3	4	6	1	4	1	6	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:21222833G>T	uc002dii.2	-	1	36	c.36C>A	c.(34-36)CCC>CCA	p.P12P	ZP2_uc010bwn.1_Silent_p.P51P|ZP2_uc010bwo.2_Silent_p.P51P	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	12					binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		ACCAGCCTGAGGGACTCCAAG	0.502													41	135					9.22156e-22	9.88727e-22	0.01441	1	0		T	21222833	T	T	21222833	2	4	20	1	0	0	0	0	0	0	0	1	18241	987	35	5		5	ZP2	16	21222833	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	112881	21222833	69131920	1388	18110											
ERN2	10595	broad.mit.edu	37	chr16	23706239	23706239	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatatttcctggcttcaggTcccggtgcactgtgggagag	7	11	14	9	1	1	1	1	0	0	1	3	3	3	1	2	4	1	2	2	4	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:23706239T>C	uc002dma.3	-	17	2223	c.2054A>G	c.(2053-2055)GAC>GGC	p.D685G	ERN2_uc010bxp.2_Missense_Mutation_p.D633G	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	637	Protein kinase.|Cytoplasmic (Potential).	Proton acceptor (By similarity).			apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		TGGCTTCAGGTCCCGGTGCAC	0.632													9	30					0	0	0.010729	0	0		C	23706239	C	C	23706239	3	2	20	1	0	0	0	0	1	0	0	0	5246	1667	58	3	894	3	ERN2	16	23706239	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2483406	23706239	66648514	1389	18111											
CACNG3	10368	broad.mit.edu	37	chr16	24372978	24372978	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccagatcccgagacctgTcccccatcagcaaaggcttc	10	6	8	17	1	1	2	1	0	0	2	4	3	3	2	5	1	2	2	5	1	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:24372978T>C	uc002dmf.2	+	4	1942	c.742T>C	c.(742-744)TCC>CCC	p.S248P		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	248					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0				GBM - Glioblastoma multiforme(48;0.0809)		CCGAGACCTGTCCCCCATCAG	0.577													8	103					0	0	0.004482	0	0		C	24372978	C	C	24372978	3	2	20	1	0	0	0	0	1	0	0	0	2561	1667	58	3	756	3	CACNG3	16	24372978	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	666739	24372978	65981775	1390	18112											
TNRC6A	27327	broad.mit.edu	37	chr16	24803058	24803058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtcccaaatggcaacagccGttcagaccagcaagcacagg	13	4	10	14	2	1	1	1	0	0	1	2	1	2	1	3	2	4	4	3	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:24803058G>A	uc002dmm.2	+	6	3209	c.3095G>A	c.(3094-3096)CGT>CAT	p.R1032H	TNRC6A_uc010bxs.2_Missense_Mutation_p.R779H|TNRC6A_uc010vcc.1_Missense_Mutation_p.R779H|TNRC6A_uc002dmn.2_Missense_Mutation_p.R779H|TNRC6A_uc002dmo.2_Missense_Mutation_p.R779H	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1032	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		GGCAACAGCCGTTCAGACCAG	0.443													12	42					0	0	0.003163	0	0		A	24803058	A	A	24803058	3	1	20	1	0	0	0	0	1	0	0	0	16365	1145	40	1	3117	1	TNRC6A	16	24803058	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	430080	24803058	65551695	1391	18113											
ZKSCAN2	342357	broad.mit.edu	37	chr16	25258442	25258442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaagtgtttcataaaagcGagactctttgagaattgcca	13	12	9	7	1	2	3	1	2	1	2	2	5	2	3	1	0	2	1	1	0	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:25258442G>A	uc002dod.3	-	5	1482	c.1075C>T	c.(1075-1077)CGC>TGC	p.R359C	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.R155C|ZKSCAN2_uc002doe.2_Missense_Mutation_p.R359C	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	359					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		TCATAAAAGCGAGACTCTTTG	0.473													6	137					0	0	0.001168	0	0		A	25258442	A	A	25258442	3	1	20	1	0	0	0	0	1	0	0	0	17712	1058	37	1	1840	1	ZKSCAN2	16	25258442	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	455384	25258442	65096311	1392	18114											
GTF3C1	2975	broad.mit.edu	37	chr16	27523220	27523220	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgaaccatgacgtcggTccctggcaacacaagcacgg	11	4	11	15	4	0	1	0	1	0	0	2	2	1	1	3	3	3	3	3	3	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:27523220T>C	uc002dov.1	-	7	1016	c.976A>G	c.(976-978)ACC>GCC	p.T326A	GTF3C1_uc002dou.2_Missense_Mutation_p.T326A	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	326						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						ATGACGTCGGTCCCTGGCAAC	0.537													5	78					0	0	0.001984	0	0		C	27523220	C	C	27523220	3	2	20	1	0	0	0	0	1	0	0	0	6888	1667	58	3	5477	3	GTF3C1	16	27523220	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2264778	27523220	62831533	1393	18115											
SULT1A2	6799	broad.mit.edu	37	chr16	28604855	28604855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtggtagtaggaaaccGccacatcctttgcgttgcgg	10	9	13	9	3	0	1	0	0	0	1	1	2	1	2	3	3	3	3	3	3	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:28604855G>A	uc002dqg.1	-	5	758	c.407C>T	c.(406-408)GCG>GTG	p.A136V	uc010vct.1_Intron|SULT1A2_uc002dqh.1_Missense_Mutation_p.A136V	NM_177528	NP_803564	P50226	ST1A2_HUMAN	sulfotransferase family, cytosolic, 1A,	136	PAPS (By similarity).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine biosynthetic process|catecholamine metabolic process|steroid metabolic process|sulfation|xenobiotic metabolic process	cytosol	aryl sulfotransferase activity|flavonol 3-sulfotransferase activity				0						GTAGGAAACCGCCACATCCTT	0.577													20	37					0	0	0.012319	0	0		A	28604855	A	A	28604855	3	1	20	1	0	0	0	0	1	0	0	0	15398	1087	38	1	496	1	SULT1A2	16	28604855	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1081635	28604855	61749898	1394	18116											
ATXN2L	11273	broad.mit.edu	37	chr16	28845512	28845512	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctacatacctcagatcCacatgggaccagctgtgcag	10	9	8	14	0	2	1	1	0	1	1	4	2	3	2	4	1	4	2	4	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:28845512C>A	uc002drc.2	+	16	2320	c.2152C>A	c.(2152-2154)CAC>AAC	p.H718N	uc010vct.1_Intron|ATXN2L_uc002drb.2_Missense_Mutation_p.H718N|ATXN2L_uc002dqy.2_Missense_Mutation_p.H718N|ATXN2L_uc002dra.2_Missense_Mutation_p.H718N|ATXN2L_uc002dqz.2_Missense_Mutation_p.H718N|ATXN2L_uc010vdb.1_Missense_Mutation_p.H724N|ATXN2L_uc002dre.2_Missense_Mutation_p.H718N|ATXN2L_uc002drf.2_Missense_Mutation_p.H127N|ATXN2L_uc002drg.2_5'UTR	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	718						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						ACCTCAGATCCACATGGGACC	0.617													33	99					2.42023e-17	2.58313e-17	0.003271	1	0		A	28845512	A	A	28845512	3	1	20	1	0	0	0	0	1	0	0	0	1213	594	21	5	2214	5	ATXN2L	16	28845512	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	240657	28845512	61509241	1395	18117											
TAOK2	9344	broad.mit.edu	37	chr16	29990346	29990346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagctgtgacccacggggCgcttcagggcctggcatatc	6	7	14	14	3	1	1	1	1	0	0	2	1	1	1	2	4	1	4	2	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:29990346C>T	uc002dva.1	+	6	1187	c.404C>T	c.(403-405)GCG>GTG	p.A135V	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Missense_Mutation_p.A135V|TAOK2_uc002dvc.1_Missense_Mutation_p.A135V|TAOK2_uc010bzm.1_Missense_Mutation_p.A135V|TAOK2_uc002dvd.1_5'Flank	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	135	Protein kinase.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						ACCCACGGGGCGCTTCAGGGC	0.587													46	137					0	0	0.01441	0	0		T	29990346	T	T	29990346	3	4	20	1	0	0	0	0	1	0	0	0	15573	768	27	1	422	1	TAOK2	16	29990346	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1144834	29990346	60364407	1396	18118											
CORO1A	11151	broad.mit.edu	37	chr16	30199690	30199690	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttgcccacagtcggacctGttccaggaggacctgtaccc	7	8	10	16	1	0	0	0	0	0	0	2	3	1	3	6	3	2	2	6	3	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:30199690G>A	uc002dww.2	+	10	1196	c.1074G>A	c.(1072-1074)CTG>CTA	p.L358L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|CORO1A_uc010bzq.2_Silent_p.L358L|CORO1A_uc010bzr.2_Intron|CORO1A_uc002dwx.2_Silent_p.L252L|CORO1A_uc002dwy.1_3'UTR|LOC606724_uc002dwz.1_5'Flank	NM_007074	NP_009005	P31146	COR1A_HUMAN	coronin, actin binding protein, 1A	358					cell-substrate adhesion|innate immune response|leukocyte chemotaxis|negative regulation of actin nucleation|phagolysosome assembly|positive chemotaxis|regulation of cell shape|uropod organization	actin filament|cortical actin cytoskeleton|lamellipodium|phagocytic cup|phagocytic vesicle membrane	actin filament binding|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein homodimerization activity				0						AGTCGGACCTGTTCCAGGAGG	0.672													56	139					0	0	0.01441	0	0		A	30199690	A	A	30199690	2	1	20	1	0	0	0	0	0	0	0	1	3756	1364	48	4		4	CORO1A	16	30199690	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	209344	30199690	60155063	1397	18119											
MYLPF	29895	broad.mit.edu	37	chr16	30387188	30387188	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagagggcggaagctccagCgtcttctccatgttcgacca	8	9	12	12	3	2	1	0	0	2	1	5	3	3	2	3	2	2	3	3	2	2	3	rs140103472		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:30387188C>T	uc002dxv.1	+	2	107	c.51C>T	c.(49-51)AGC>AGT	p.S17S		NM_013292	NP_037424	Q96A32	MLRS_HUMAN	myosin light chain, phosphorylatable, fast	17					skeletal muscle tissue development	muscle myosin complex	calcium ion binding|structural constituent of muscle				0			Colorectal(24;0.193)			GAAGCTCCAGCGTCTTCTCCA	0.602													11	22					0	0	0.001855	0	0		T	30387188	T	T	30387188	2	4	20	1	0	0	0	0	0	0	0	1	10078	767	27	1		1	MYLPF	16	30387188	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	187498	30387188	59967565	1398	18120											
SRCAP	10847	broad.mit.edu	37	chr16	30734373	30734373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgactcctgttcctccattgGccccagcaccccggcctccg	4	9	8	20	2	0	1	0	1	0	0	4	1	4	1	9	2	1	2	9	2	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:30734373G>A	uc002dze.1	+	24	4367	c.3982G>A	c.(3982-3984)GCC>ACC	p.A1328T	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.A1123T|SRCAP_uc010bzz.1_Missense_Mutation_p.A898T	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1328	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			TCCTCCATTGGCCCCAGCACC	0.592													8	116					0	0	0.00308	0	0		A	30734373	A	A	30734373	3	1	20	1	0	0	0	0	1	0	0	0	15160	1203	42	2	4068	2	SRCAP	16	30734373	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	347185	30734373	59620380	1399	18121											
SRCAP	10847	broad.mit.edu	37	chr16	30750440	30750440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagctccccgtcttggacCgtgacagcacttctgttctc	5	11	9	16	2	3	1	0	1	3	0	5	2	4	2	4	1	2	3	4	1	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:30750440C>T	uc002dze.1	+	34	9464	c.9079C>T	c.(9079-9081)CGT>TGT	p.R3027C	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.R2822C	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	3027					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CGTCTTGGACCGTGACAGCAC	0.607													28	67					0	0	0.007291	0	0		T	30750440	T	T	30750440	3	4	20	1	0	0	0	0	1	0	0	0	15160	652	23	1	9205	1	SRCAP	16	30750440	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	16067	30750440	59604313	1400	18122											
SETD1A	9739	broad.mit.edu	37	chr16	30970171	30970171	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggccttctcagaaggtgtAccgctatgatggagtccact	9	10	11	11	1	1	2	1	1	1	1	3	3	2	3	3	3	1	2	3	3	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:30970171A>G	uc002ead.1	+	2	805	c.119A>G	c.(118-120)TAC>TGC	p.Y40C	SETD1A_uc002eae.1_Missense_Mutation_p.Y40C	NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	40					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						CAGAAGGTGTACCGCTATGAT	0.607													5	121					0	0	0.000602	0	0		G	30970171	G	G	30970171	3	3	20	1	0	0	0	0	1	0	0	0	14155	391	14	3	121	3	SETD1A	16	30970171	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	219731	30970171	59384582	1401	18123											
C16orf58	64755	broad.mit.edu	37	chr16	31502222	31502222	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatccacctctagctggtgCttctcggtcttccagccggc	4	12	9	16	2	4	0	1	0	3	0	7	0	6	0	4	3	3	2	4	3	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:31502222C>A	uc002eci.1	-	13	1353	c.1341G>T	c.(1339-1341)AAG>AAT	p.K447N	C16orf58_uc002ecg.2_5'Flank|C16orf58_uc002ech.1_Missense_Mutation_p.K185N	NM_022744	NP_073581	Q96GQ5	CP058_HUMAN	hypothetical protein LOC64755	447						integral to membrane				ovary(1)|breast(1)	2						CTAGCTGGTGCTTCTCGGTCT	0.622													19	49					3.28513e-13	3.47285e-13	0.003954	1	0		A	31502222	A	A	31502222	3	1	20	1	0	0	0	0	1	0	0	0	1825	796	28	5	69	5	C16orf58	16	31502222	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	532051	31502222	58852531	1402	18124											
ABCC12	94160	broad.mit.edu	37	chr16	48158156	48158156	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgcaaggagggagctctTtccacttcccacattcccac	9	9	8	15	0	1	0	0	0	1	0	4	2	4	2	3	2	3	3	3	2	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:48158156T>C	uc002efc.1	-	10	1901	c.1555A>G	c.(1555-1557)AAG>GAG	p.K519E	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.K519E	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	519	ABC transporter 1.|ATP 1 (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				AGGGAGCTCTTTCCACTTCCC	0.512													9	310					0	0	0.006214	0	0		C	48158156	C	C	48158156	3	2	20	1	0	0	0	0	1	0	0	0	52	1850	64	3	2604	3	ABCC12	16	48158156	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	16655934	48158156	42196597	1403	18125											
ABCC11	85320	broad.mit.edu	37	chr16	48248902	48248902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaggctctggacaagccCgcacttctccaatagtttcc	8	11	8	14	1	3	0	1	0	2	0	5	1	4	1	3	2	1	3	3	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:48248902C>T	uc002eff.1	-	8	1488	c.1138G>A	c.(1138-1140)GGG>AGG	p.G380R	ABCC11_uc002efg.1_Missense_Mutation_p.G380R|ABCC11_uc002efh.1_Missense_Mutation_p.G380R|ABCC11_uc010vgk.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	380	ABC transmembrane type-1 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				TGGACAAGCCCGCACTTCTCC	0.453									Cerumen_Type				20	51					0	0	0.003954	0	0		T	48248902	T	T	48248902	3	4	20	1	0	0	0	0	1	0	0	0	51	652	23	1	3098	1	ABCC11	16	48248902	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	90746	48248902	42105851	1404	18126											
ABCC11	85320	broad.mit.edu	37	chr16	48249234	48249234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgatgctgagccttcaCagccattcttgtcatgaata	9	14	9	9	0	3	3	2	3	1	0	3	3	3	3	2	0	3	1	2	0	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:48249234C>T	uc002eff.1	-	7	1323	c.973G>A	c.(973-975)GTG>ATG	p.V325M	ABCC11_uc002efg.1_Missense_Mutation_p.V325M|ABCC11_uc002efh.1_Missense_Mutation_p.V325M|ABCC11_uc010vgk.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	325	ABC transmembrane type-1 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				TGAGCCTTCACAGCCATTCTT	0.488									Cerumen_Type				16	30					0	0	0.00499	0	0		T	48249234	T	T	48249234	3	4	20	1	0	0	0	0	1	0	0	0	51	478	17	4	3267	4	ABCC11	16	48249234	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	332	48249234	42105519	1405	18127											
HEATR3	55027	broad.mit.edu	37	chr16	50102752	50102752	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgactaaggatatcatgAcccctctggttgcgctgcta	8	12	11	10	1	2	2	1	2	1	0	2	3	2	3	2	3	2	3	2	3	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:50102752A>C	uc002efw.2	+	3	535	c.373A>C	c.(373-375)ACC>CCC	p.T125P	HEATR3_uc002efx.2_Missense_Mutation_p.T39P	NM_182922	NP_891552	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3	125							binding			ovary(1)|skin(1)	2						GGATATCATGACCCCTCTGGT	0.373													87	272					0	0	0.01441	0	0		C	50102752	C	C	50102752	3	2	20	1	0	0	0	0	1	0	0	0	7045	275	10	5	383	5	HEATR3	16	50102752	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1853518	50102752	40252001	1406	18128											
NKD1	85407	broad.mit.edu	37	chr16	50667513	50667513	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagccaaggagagccagcagGgctgccggggcctgcaggca	9	2	18	12	1	0	1	0	0	0	1	0	3	0	1	4	5	5	4	4	5	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:50667513G>T	uc002egg.1	+	10	1458	c.1234G>T	c.(1234-1236)GGC>TGC	p.G412C		NM_033119	NP_149110	Q969G9	NKD1_HUMAN	naked cuticle homolog 1	412					Wnt receptor signaling pathway	cytoplasm|plasma membrane	calcium ion binding|protein binding				0		all_cancers(37;0.229)		GBM - Glioblastoma multiforme(240;0.243)		GAGCCAGCAGGGCTGCCGGGG	0.726													6	10					0.00307968	0.00311962	0.00308	1	0		T	50667513	T	T	50667513	3	4	20	1	0	0	0	0	1	0	0	0	10460	1232	43	5	1272	5	NKD1	16	50667513	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	564761	50667513	39687240	1407	18129											
SNX20	124460	broad.mit.edu	37	chr16	50707351	50707351	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcacagtgagctccttcAgggtgatgcctcggggcgtg	5	9	15	12	3	1	2	1	2	0	0	4	2	2	2	2	3	2	2	2	3	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:50707351A>G	uc002egk.2	-	4	1090	c.917T>C	c.(916-918)CTG>CCG	p.L306P	SNX20_uc010vgp.1_Intron|SNX20_uc002egi.3_Intron	NM_182854	NP_878274	Q7Z614	SNX20_HUMAN	sorting nexin 20 isoform 1	306					cell communication|protein transport	endosome membrane|nucleus|plasma membrane	phosphatidylinositol binding|protein binding			ovary(1)	1						GAGCTCCTTCAGGGTGATGCC	0.652													4	91					0	0	0.009096	0	0		G	50707351	G	G	50707351	3	3	20	1	0	0	0	0	1	0	0	0	14917	188	7	3	180	3	SNX20	16	50707351	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	39838	50707351	39647402	1408	18130											
CHD9	80205	broad.mit.edu	37	chr16	53190809	53190809	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtcagtaattcacagcaaTtttcttcacattattccttt	10	18	3	10	0	4	0	3	0	1	0	5	0	5	0	1	0	1	2	1	0	3	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:53190809T>A	uc002ehb.2	+	1	972	c.808T>A	c.(808-810)TTT>ATT	p.F270I	CHD9_uc002egy.2_Missense_Mutation_p.F270I|CHD9_uc002egz.1_Missense_Mutation_p.F270I|CHD9_uc002eha.1_Missense_Mutation_p.F270I|CHD9_uc002ehc.2_Missense_Mutation_p.F270I	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	270	Ser-rich.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				TTCACAGCAATTTTCTTCACA	0.368													8	117					0	0	0.004482	0	0		A	53190809	A	A	53190809	3	1	20	1	0	0	0	0	1	0	0	0	3335	1493	52	5	810	5	CHD9	16	53190809	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2483458	53190809	37163944	1409	18131											
SLC6A2	6530	broad.mit.edu	37	chr16	55706069	55706069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaagtacaagttcacgcCggcagccgagttttatgagt	10	10	10	11	3	1	1	1	1	0	0	2	2	2	1	3	1	2	4	3	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:55706069C>T	uc002eif.2	+	4	737	c.626C>T	c.(625-627)CCG>CTG	p.P209L	SLC6A2_uc010ccd.2_Missense_Mutation_p.P209L|SLC6A2_uc002eig.2_Missense_Mutation_p.P209L|SLC6A2_uc002eih.2_Missense_Mutation_p.P209L|SLC6A2_uc002eii.2_Missense_Mutation_p.P104L	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	209	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity	p.P209P(1)		lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	AAGTTCACGCCGGCAGCCGAG	0.547													9	37					0	0	0.008291	0	0		T	55706069	T	T	55706069	3	4	20	1	0	0	0	0	1	0	0	0	14708	652	23	1	727	1	SLC6A2	16	55706069	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2515260	55706069	34648684	1410	18132											
CES1	1066	broad.mit.edu	37	chr16	55860155	55860155	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaggaatgttctcctttcGgtttgtaaatagctctgaga	10	14	11	6	1	2	2	0	1	2	2	4	5	2	3	1	2	1	4	1	2	4	5	rs5023780		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:55860155G>A	uc002eim.2	-	3	418	c.310C>T	c.(310-312)CGA>TGA	p.R104*	CES1_uc002eil.2_Nonsense_Mutation_p.R105*|CES1_uc002ein.2_Nonsense_Mutation_p.R104*	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	104					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	TTCTCCTTTCGGTTTGTAAAT	0.488													9	200					0	0	0.00499	0	0		A	55860155	A	A	55860155	4	1	20	1	0	0	0	0	0	1	0	0	3272	1124	39	1	1441	1	CES1	16	55860155	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	154086	55860155	34494598	1411	18133											
CES1	1066	broad.mit.edu	37	chr16	55860205	55860205	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgccttgggatcttgggtgCacctggggagggggaaagaa	8	7	18	8	1	1	1	0	0	1	1	1	4	1	4	3	6	1	1	3	6	2	2	rs5023782		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:55860205C>A	uc002eim.2	-	3	368	c.260G>T	c.(259-261)TGC>TTC	p.C87F	CES1_uc002eil.2_Missense_Mutation_p.C88F|CES1_uc002ein.2_Missense_Mutation_p.C87F	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	87					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	ATCTTGGGTGCACCTGGGGAG	0.502													5	146					0.000157383	0.000160581	0.00308	1	0		A	55860205	A	A	55860205	3	1	20	1	0	0	0	0	1	0	0	0	3272	710	25	5	1491	5	CES1	16	55860205	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	50	55860205	34494548	1412	18134											
CX3CL1	6376	broad.mit.edu	37	chr16	57416565	57416565	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcccgtgccagcgcacaCggatgccttccaggactggg	6	6	15	14	3	0	0	0	0	0	0	2	2	2	2	4	4	3	1	4	4	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:57416565C>T	uc002eli.2	+	3	882	c.815C>T	c.(814-816)ACG>ATG	p.T272M		NM_002996	NP_002987	P78423	X3CL1_HUMAN	chemokine (C-X3-C motif) ligand 1 precursor	272	Mucin-like stalk.|Extracellular (Potential).				cell adhesion|cytokine-mediated signaling pathway|defense response|immune response|leukocyte adhesive activation|positive regulation of calcium-independent cell-cell adhesion|positive regulation of inflammatory response	cell surface|extracellular space|integral to membrane|plasma membrane	chemokine activity				0						CCAGCGCACACGGATGCCTTC	0.662													17	51					0	0	0.006122	0	0		T	57416565	T	T	57416565	3	4	20	1	0	0	0	0	1	0	0	0	4077	536	19	1	825	1	CX3CL1	16	57416565	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1556360	57416565	32938188	1413	18135											
CX3CL1	6376	broad.mit.edu	37	chr16	57416914	57416914	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacatcccccggagctgtggTagtaattcatatgtcctggt	8	13	10	10	1	1	0	1	0	0	0	3	1	3	1	3	3	2	3	3	3	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:57416914T>C	uc002eli.2	+	3	1231	c.1164T>C	c.(1162-1164)GGT>GGC	p.G388G		NM_002996	NP_002987	P78423	X3CL1_HUMAN	chemokine (C-X3-C motif) ligand 1 precursor	388	Cytoplasmic (Potential).				cell adhesion|cytokine-mediated signaling pathway|defense response|immune response|leukocyte adhesive activation|positive regulation of calcium-independent cell-cell adhesion|positive regulation of inflammatory response	cell surface|extracellular space|integral to membrane|plasma membrane	chemokine activity				0						GGAGCTGTGGTAGTAATTCAT	0.582													6	142					0	0	0.001984	0	0		C	57416914	C	C	57416914	2	2	20	1	0	0	0	0	0	0	0	1	4077	1625	57	3		3	CX3CL1	16	57416914	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	349	57416914	32937839	1414	18136											
GPR97	222487	broad.mit.edu	37	chr16	57702267	57702267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctggccaaggatggcgaCgcccaggggcctgggggccc	6	3	19	13	2	0	0	0	0	0	0	0	2	0	1	4	8	0	1	4	8	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:57702267C>T	uc002emh.2	+	1	111	c.8C>T	c.(7-9)ACG>ATG	p.T3M	GPR97_uc010cdc.2_Missense_Mutation_p.T3M|GPR97_uc010vhv.1_Translation_Start_Site|GPR97_uc010cdd.2_RNA	NM_170776	NP_740746	Q86Y34	GPR97_HUMAN	G protein-coupled receptor 97 precursor	3					neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1						AGGATGGCGACGCCCAGGGGC	0.726													6	4					0	0	0.001168	0	0		T	57702267	T	T	57702267	3	4	20	1	0	0	0	0	1	0	0	0	6736	536	19	1	10	1	GPR97	16	57702267	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	285353	57702267	32652486	1415	18137											
GOT2	2806	broad.mit.edu	37	chr16	58750636	58750636	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctgttcgatgaagtggcGcacagcccaggcatccttat	8	9	11	13	2	0	1	0	1	0	0	2	2	1	1	3	2	1	3	3	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:58750636G>A	uc002eof.1	-	7	898	c.784C>T	c.(784-786)CGC>TGC	p.R262C	GOT2_uc010vim.1_Missense_Mutation_p.R219C	NM_002080	NP_002071	P00505	AATM_HUMAN	aspartate aminotransferase 2 precursor	262					aspartate catabolic process|fatty acid transport|gluconeogenesis|response to ethanol	mitochondrial matrix|plasma membrane	L-aspartate:2-oxoglutarate aminotransferase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	ATGAAGTGGCGCACAGCCCAG	0.473													7	65					0	0	0.004482	0	0		A	58750636	A	A	58750636	3	1	20	1	0	0	0	0	1	0	0	0	6596	1087	38	1	524	1	GOT2	16	58750636	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1048369	58750636	31604117	1416	18138											
CDH8	1006	broad.mit.edu	37	chr16	61689544	61689544	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaggatttccactatcaCtgattatgattggtaaaaga	13	13	10	5	0	1	3	1	2	0	1	2	5	2	5	1	3	0	1	1	3	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:61689544C>G	uc002eog.1	-	11	1988	c.1736G>C	c.(1735-1737)AGT>ACT	p.S579T		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	579	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TCCACTATCACTGATTATGAT	0.423													20	62					0	0	0.007413	0	0		G	61689544	G	G	61689544	3	3	20	1	0	0	0	0	1	0	0	0	3119	565	20	5	671	5	CDH8	16	61689544	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2938908	61689544	28665209	1417	18139											
CDH11	1009	broad.mit.edu	37	chr16	65032470	65032470	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacaccgtacgcacccacaTtggacctctcaggcacgttg	9	7	8	17	3	1	0	1	0	1	0	2	1	1	1	4	2	1	4	4	2	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:65032470T>G	uc002eoi.2	-	4	952	c.518A>C	c.(517-519)AAT>ACT	p.N173T	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Missense_Mutation_p.N173T|CDH11_uc010vin.1_Missense_Mutation_p.N47T|CDH11_uc010vio.1_Missense_Mutation_p.N173T	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	173	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		CGCACCCACATTGGACCTCTC	0.572			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			17	182					0	0	0.010504	0	0		G	65032470	G	G	65032470	3	3	20	1	0	0	0	0	1	0	0	0	3100	1493	52	5	1912	5	CDH11	16	65032470	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3342926	65032470	25322283	1418	18140											
SLC9A5	6553	broad.mit.edu	37	chr16	67286608	67286608	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcctcctattgtgttGgactcaggctatttcatgcc	5	15	9	12	0	2	0	2	0	0	0	3	1	3	1	3	2	3	3	3	2	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:67286608G>A	uc002esm.2	+	2	414	c.351G>A	c.(349-351)TTG>TTA	p.L117L	SLC9A5_uc010cee.2_5'UTR|SLC9A5_uc010vji.1_5'UTR	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	117	Helical; (Potential).				regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		CTATTGTGTTGGACTCAGGCT	0.537													32	81					0	0	0.003271	0	0		A	67286608	A	A	67286608	2	1	20	1	0	0	0	0	0	0	0	1	14742	1339	47	4		4	SLC9A5	16	67286608	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2254138	67286608	23068145	1419	18141											
AGRP	181	broad.mit.edu	37	chr16	67516936	67516936	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgagcagttacctctgccaAggcctgagcctcctgcaaca	9	8	9	15	0	1	2	0	2	1	0	2	2	2	2	5	1	6	3	5	1	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:67516936A>G	uc002etg.1	-	3	508	c.208T>C	c.(208-210)TTG>CTG	p.L70L	ATP6V0D1_uc002ete.1_5'Flank|ATP6V0D1_uc010vjo.1_5'Flank	NM_001138	NP_001129	O00253	AGRP_HUMAN	agouti related protein homolog isoform 1	70					hormone-mediated signaling pathway|neuropeptide signaling pathway|regulation of feeding behavior	extracellular space|Golgi lumen	neuropeptide hormone activity				0		Acute lymphoblastic leukemia(13;0.00263)|all_hematologic(13;0.0274)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0717)|Epithelial(162;0.16)		ACCTCTGCCAAGGCCTGAGCC	0.607													48	137					0	0	0.01441	0	0		G	67516936	G	G	67516936	2	3	20	1	0	0	0	0	0	0	0	1	398	69	3	3		3	AGRP	16	67516936	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	230328	67516936	22837817	1420	18142											
TSNAXIP1	55815	broad.mit.edu	37	chr16	67861807	67861807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacgagaaggaagaagccGtggtggaaatcctccagact	13	6	14	8	2	0	4	0	1	0	3	2	7	2	6	3	3	1	0	3	3	4	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:67861807G>A	uc002euj.2	+	16	2282	c.1888G>A	c.(1888-1890)GTG>ATG	p.V630M	TSNAXIP1_uc002euf.3_3'UTR|TSNAXIP1_uc010vka.1_Missense_Mutation_p.V684M|TSNAXIP1_uc010vkb.1_Missense_Mutation_p.V615M|TSNAXIP1_uc002eug.3_Missense_Mutation_p.V338M|TSNAXIP1_uc002euh.3_Missense_Mutation_p.V338M|TSNAXIP1_uc002eui.3_Missense_Mutation_p.V338M|TSNAXIP1_uc002euk.2_Missense_Mutation_p.V363M	NM_018430	NP_060900	Q2TAA8	TXIP1_HUMAN	translin-associated factor X interacting protein	630					cell differentiation|multicellular organismal development|spermatogenesis	perinuclear region of cytoplasm					0		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00432)|Epithelial(162;0.0192)|all cancers(182;0.125)		GGAAGAAGCCGTGGTGGAAAT	0.592													53	90					0	0	0.01441	0	0		A	67861807	A	A	67861807	3	1	20	1	0	0	0	0	1	0	0	0	16658	1145	40	1	1942	1	TSNAXIP1	16	67861807	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	344871	67861807	22492946	1421	18143											
NUTF2	10204	broad.mit.edu	37	chr16	67904812	67904812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctcgccctgcacaactttgGctgacctcctctcagctagg	6	10	9	16	1	1	1	1	1	1	0	4	1	2	1	3	2	3	4	3	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:67904812G>A	uc002eup.2	+	5	479	c.380G>A	c.(379-381)GGC>GAC	p.G127D	NUTF2_uc002euq.3_RNA|EDC4_uc002eur.2_5'Flank|EDC4_uc010cer.2_5'Flank|EDC4_uc010vkg.1_5'Flank	NM_005796	NP_005787	P61970	NTF2_HUMAN	nuclear transport factor 2	127					protein transport	cytosol|nuclear pore	protein binding|transporter activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00443)|Epithelial(162;0.0199)|all cancers(182;0.129)		CACAACTTTGGCTGACCTCCT	0.502													17	59					0	0	0.007413	0	0		A	67904812	A	A	67904812	3	1	20	1	0	0	0	0	1	0	0	0	10798	1203	42	2	394	2	NUTF2	16	67904812	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	43005	67904812	22449941	1422	18144											
EDC4	23644	broad.mit.edu	37	chr16	67916384	67916384	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacacattacaagggccgaTgcaggctgcctaccgggaag	12	5	13	11	2	0	1	0	0	0	1	0	3	0	2	3	3	4	2	3	3	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:67916384T>C	uc002eur.2	+	25	3495	c.3329T>C	c.(3328-3330)ATG>ACG	p.M1110T	EDC4_uc010cer.2_Missense_Mutation_p.M729T|EDC4_uc002eus.2_Missense_Mutation_p.M840T|EDC4_uc002eut.1_Missense_Mutation_p.M1T|NRN1L_uc002euu.2_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	1110					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		CAAGGGCCGATGCAGGCTGCC	0.592													18	35					0	0	0.010504	0	0		C	67916384	C	C	67916384	3	2	20	1	0	0	0	0	1	0	0	0	4914	1464	51	3	3427	3	EDC4	16	67916384	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	11572	67916384	22438369	1423	18145											
LCAT	3931	broad.mit.edu	37	chr16	67976607	67976607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtcatagggggcggcgcGcacagtctcgtcccgcacgt	6	6	14	15	6	2	0	1	0	1	0	4	0	3	0	2	3	0	2	2	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:67976607G>A	uc002euy.1	-	4	501	c.490C>T	c.(490-492)CGC>TGC	p.R164C		NM_000229	NP_000220	P04180	LCAT_HUMAN	lecithin-cholesterol acyltransferase precursor	164			R -> C (in LCATD).|R -> H (in LCATD; also in a compound heterozygote carrying R-95 with intermediate phenotype between LCATD and FED; loss of activity).		cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|high-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|reverse cholesterol transport|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein A-I binding|phosphatidylcholine-sterol O-acyltransferase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00418)|Epithelial(162;0.0183)|all cancers(182;0.12)		GGGGCGGCGCGCACAGTCTCG	0.687													47	90					0	0	0.01441	0	0		A	67976607	A	A	67976607	3	1	20	1	0	0	0	0	1	0	0	0	8674	1087	38	1	844	1	LCAT	16	67976607	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	60223	67976607	22378146	1424	18146											
WWP2	11060	broad.mit.edu	37	chr16	69969758	69969758	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcctcttccttcccaggcGctgtaccatggaaagttcat	7	12	9	13	1	2	0	1	0	1	0	4	1	4	1	4	2	2	3	4	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:69969758G>A	uc002exu.1	+	19	1934	c.1845G>A	c.(1843-1845)GCG>GCA	p.A615A	WWP2_uc002exv.1_Silent_p.A615A|WWP2_uc010vlm.1_Silent_p.A499A|WWP2_uc010vln.1_Silent_p.A233A|WWP2_uc002exw.1_Silent_p.A176A	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	615	HECT.				entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						CTTCCCAGGCGCTGTACCATG	0.552													97	247					0	0	0.01441	0	0		A	69969758	A	A	69969758	2	1	20	1	0	0	0	0	0	0	0	1	17442	1074	38	1		1	WWP2	16	69969758	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1993151	69969758	20384995	1425	18147											
MTSS1L	92154	broad.mit.edu	37	chr16	70708260	70708260	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcttggagtaggtggcGtcctgggagacgaagccaga	8	6	20	7	2	0	2	0	0	0	2	1	5	1	3	2	6	1	2	2	6	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:70708260G>A	uc002ezj.2	-	11	1262	c.1002C>T	c.(1000-1002)GAC>GAT	p.D334D		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	334	Ser-rich.				filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						AGTAGGTGGCGTCCTGGGAGA	0.642													13	24					0	0	0.004007	0	0		A	70708260	A	A	70708260	2	1	20	1	0	0	0	0	0	0	0	1	9981	1136	40	1		1	MTSS1L	16	70708260	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	738502	70708260	19646493	1426	18148											
HYDIN	54768	broad.mit.edu	37	chr16	71025201	71025201	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttgacctgcctaccctccCcatggaaaggacaccgtaca	10	7	7	17	1	0	1	0	1	0	0	1	3	1	3	7	2	3	1	7	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:71025201C>A	uc002ezr.2	-	25	4012	c.3884G>T	c.(3883-3885)GGG>GTG	p.G1295V		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CCTACCCTCCCCATGGAAAGG	0.483													6	90					0.000157383	0.000160581	0.00308	1	0		A	71025201	A	A	71025201	3	1	20	1	0	0	0	0	1	0	0	0	7483	623	22	5	11726	5	HYDIN	16	71025201	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	316941	71025201	19329552	1427	18149											
FTSJD1	55783	broad.mit.edu	37	chr16	71317725	71317725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattcacactctgcaaatatCggaaaactggatttggaagg	14	10	9	8	1	2	0	1	0	1	0	3	3	2	3	0	4	2	1	0	4	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:71317725C>T	uc010cga.2	-	3	2505	c.2099G>A	c.(2098-2100)CGA>CAA	p.R700Q	FTSJD1_uc002ezy.3_Missense_Mutation_p.R700Q|FTSJD1_uc002ezz.3_Missense_Mutation_p.R700Q	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	700						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						CTGCAAATATCGGAAAACTGG	0.468													5	77					0	0	0.000602	0	0		T	71317725	T	T	71317725	3	4	20	1	0	0	0	0	1	0	0	0	6104	884	31	1	217	1	FTSJD1	16	71317725	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	292524	71317725	19037028	1428	18150											
PHLPP2	23035	broad.mit.edu	37	chr16	71683763	71683763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaatgggtcttgtacgtgaCgtacagcattgacagcttct	9	13	10	9	2	2	2	0	2	2	0	2	2	2	2	0	1	4	4	0	1	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:71683763C>T	uc002fax.2	-	18	3008	c.3002G>A	c.(3001-3003)CGT>CAT	p.R1001H	PHLPP2_uc002fav.2_Intron|PHLPP2_uc010cgf.2_Missense_Mutation_p.R934H	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	1001	PP2C-like.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						TTGTACGTGACGTACAGCATT	0.463													47	132					0	0	0.01441	0	0		T	71683763	T	T	71683763	3	4	20	1	0	0	0	0	1	0	0	0	11874	536	19	1	973	1	PHLPP2	16	71683763	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	366038	71683763	18670990	1429	18151											
PMFBP1	83449	broad.mit.edu	37	chr16	72173266	72173266	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggaagcaaaatcggcttgTagttttatcaaagccttttc	12	13	8	8	1	1	0	1	0	0	0	3	1	1	1	1	2	2	4	1	2	6	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:72173266T>C	uc002fcc.3	-	7	1012	c.840A>G	c.(838-840)CTA>CTG	p.L280L	PMFBP1_uc002fcd.2_Silent_p.L280L|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Silent_p.L135L	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	280										ovary(2)	2		Ovarian(137;0.179)				AATCGGCTTGTAGTTTTATCA	0.428													3	41					0	0	0.004672	0	0		C	72173266	C	C	72173266	2	2	20	1	0	0	0	0	0	0	0	1	12153	1625	57	3		3	PMFBP1	16	72173266	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	489503	72173266	18181487	1430	18152											
PMFBP1	83449	broad.mit.edu	37	chr16	72184569	72184569	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcattctagtaactcgaTgttgctcagggaagactggt	9	13	12	7	1	2	1	1	0	1	1	3	3	2	2	0	3	2	4	0	3	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:72184569T>C	uc002fcc.3	-	5	746	c.574A>G	c.(574-576)ATC>GTC	p.I192V	PMFBP1_uc002fcd.2_Missense_Mutation_p.I192V|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.I47V	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	192	Potential.									ovary(2)	2		Ovarian(137;0.179)				AGTAACTCGATGTTGCTCAGG	0.527													5	212					0	0	0.001168	0	0		C	72184569	C	C	72184569	3	2	20	1	0	0	0	0	1	0	0	0	12153	1464	51	3	2577	3	PMFBP1	16	72184569	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	11303	72184569	18170184	1431	18153											
ZFP1	162239	broad.mit.edu	37	chr16	75203278	75203278	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatctctttggaaaagcactTaatctgaacacagactttgt	13	13	7	8	0	2	2	0	1	2	1	3	4	2	3	0	1	2	1	0	1	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:75203278T>C	uc002fdo.2	+	4	434	c.270T>C	c.(268-270)CTT>CTC	p.L90L	ZFP1_uc002fdp.2_Silent_p.L35L|ZFP1_uc010cgt.2_Silent_p.L57L|ZFP1_uc010cgs.2_Silent_p.L35L|ZFP1_uc002fdq.2_Silent_p.L90L	NM_153688	NP_710155	Q6P2D0	ZFP1_HUMAN	zinc finger protein 1 homolog	90					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GAAAAGCACTTAATCTGAACA	0.343													28	92					0	0	0.008361	0	0		C	75203278	C	C	75203278	2	2	20	1	0	0	0	0	0	0	0	1	17661	1741	61	3		3	ZFP1	16	75203278	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3018709	75203278	15151475	1432	18154											
PKD1L2	114780	broad.mit.edu	37	chr16	81249951	81249951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtgtcaggggcagcggcgGcctgccctccatgccagttg	5	7	16	13	2	1	0	1	0	0	0	2	0	2	0	4	5	3	2	4	5	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:81249951G>A	uc002fgh.1	-	2	362	c.362C>T	c.(361-363)GCC>GTC	p.A121V	PKD1L2_uc002fgj.2_Missense_Mutation_p.A121V	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	121	Extracellular (Potential).|C-type lectin.				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GGCAGCGGCGGCCTGCCCTCC	0.632													17	47					0	0	0.010504	0	0		A	81249951	A	A	81249951	3	1	20	1	0	0	0	0	1	0	0	0	11984	1203	42	2	7254	2	PKD1L2	16	81249951	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6046673	81249951	9104802	1433	18155											
PLCG2	5336	broad.mit.edu	37	chr16	81934374	81934376	+	In_Frame_Del	DEL	ATC	-	-																															ccagccagctgcgggagaagAtcatcatcaaggtaggcacc																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:81934374_81934376delATC	uc002fgt.2	+	14	1503_1505	c.1351_1353delATC	c.(1351-1353)ATCdel	p.I453del	PLCG2_uc010chg.1_In_Frame_Del_p.I453del	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	453	PI-PLC X-box.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						GCGGGAGAAGATCATCATCAAGG	0.626													15	29	---	---	---	---						.	-	81934376	-	-	81934374	7	5	20	1	0	1	0	1	0	0	0	0	12055	333	12	0	1401	0	PLCG2	16	81934374	In_Frame_Del	DEL	ATC	TCGA-BR-4362-01A-01D-1158-08	684423	81934374	8420379	1434	18156											
MLYCD	23417	broad.mit.edu	37	chr16	83948956	83948956	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggcatcaccggctcctgCggcctgatggccaactaccg	8	6	12	15	3	1	2	1	1	0	1	2	2	2	2	5	4	3	2	5	4	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:83948956C>T	uc002fgz.2	+	5	1364	c.1344C>T	c.(1342-1344)TGC>TGT	p.C448C		NM_012213	NP_036345	O95822	DCMC_HUMAN	malonyl-CoA decarboxylase precursor	448					acyl-CoA metabolic process|fatty acid biosynthetic process	mitochondrion|peroxisome	malonyl-CoA decarboxylase activity|methylmalonyl-CoA decarboxylase activity				0						CCGGCTCCTGCGGCCTGATGG	0.627													21	43					0	0	0.014323	0	0		T	83948956	T	T	83948956	2	4	20	1	0	0	0	0	0	0	0	1	9656	776	27	1		1	MLYCD	16	83948956	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2014582	83948956	6405797	1435	18157											
ATP2C2	9914	broad.mit.edu	37	chr16	84494378	84494378	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccgcggccatcatcatcAgcgggaccctctttatcttc	6	12	8	15	3	5	0	3	0	2	0	7	1	6	1	3	2	1	0	3	2	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:84494378A>G	uc002fhx.2	+	24	2541	c.2452A>G	c.(2452-2454)AGC>GGC	p.S818G	ATP2C2_uc010chj.2_Missense_Mutation_p.S847G|ATP2C2_uc002fhy.2_Missense_Mutation_p.S835G|ATP2C2_uc002fhz.2_Missense_Mutation_p.S667G|ATP2C2_uc002fia.2_Missense_Mutation_p.S129G	NM_014861	NP_055676	O75185	AT2C2_HUMAN	ATPase, Ca++ transporting, type 2C, member 2	818	Helical; Name=7; (Potential).				ATP biosynthetic process	Golgi membrane|integral to membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			breast(1)|central_nervous_system(1)	2						CATCATCATCAGCGGGACCCT	0.587													16	160					0	0	0.007413	0	0		G	84494378	G	G	84494378	3	3	20	1	0	0	0	0	1	0	0	0	1145	188	7	3	2546	3	ATP2C2	16	84494378	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	545422	84494378	5860375	1436	18158											
FOXF1	2294	broad.mit.edu	37	chr16	86544748	86544748	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcctggcgctggagggcggCctgggcatgatgaacggcca	7	5	18	11	3	0	2	0	2	0	0	0	3	0	3	3	6	2	2	3	6	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:86544748C>T	uc002fjl.2	+	1	616	c.573C>T	c.(571-573)GGC>GGT	p.G191G	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	191					branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						TGGAGGGCGGCCTGGGCATGA	0.706													5	7					0	0	0.001168	0	0		T	86544748	T	T	86544748	2	4	20	1	0	0	0	0	0	0	0	1	6019	726	26	2		2	FOXF1	16	86544748	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2050370	86544748	3810005	1437	18159											
MTHFSD	64779	broad.mit.edu	37	chr16	86565850	86565850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggttcccaacgtaaacatCggctgcaagcggggcaccct	10	6	12	13	3	0	0	0	0	0	0	2	1	1	0	2	4	4	5	2	4	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:86565850C>T	uc002fjn.2	-	8	970	c.919G>A	c.(919-921)GAT>AAT	p.D307N	MTHFSD_uc010voo.1_Missense_Mutation_p.D287N|MTHFSD_uc002fjo.2_Missense_Mutation_p.D144N|MTHFSD_uc002fjm.2_Missense_Mutation_p.D306N|MTHFSD_uc010vop.1_Missense_Mutation_p.D144N|MTHFSD_uc010voq.1_Missense_Mutation_p.D306N|MTHFSD_uc010vor.1_Missense_Mutation_p.D307N	NM_001159377	NP_001152849	Q2M296	MTHSD_HUMAN	methenyltetrahydrofolate synthetase domain	307	RRM.				folic acid-containing compound biosynthetic process		5-formyltetrahydrofolate cyclo-ligase activity|ATP binding|RNA binding				0						ACGTAAACATCGGCTGCAAGC	0.682													6	9					0	0	0.001984	0	0		T	86565850	T	T	86565850	3	4	20	1	0	0	0	0	1	0	0	0	9951	884	31	1	236	1	MTHFSD	16	86565850	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	21102	86565850	3788903	1438	18160											
JPH3	57338	broad.mit.edu	37	chr16	87677940	87677940	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtcccgtatggcatggcCgcggtcatccgctcacccct	5	8	11	17	5	2	0	2	0	0	0	4	0	4	0	5	3	1	3	5	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:87677940C>T	uc002fkd.2	+	2	713	c.459C>T	c.(457-459)GCC>GCT	p.A153A	JPH3_uc010vou.1_RNA	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	153	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		ATGGCATGGCCGCGGTCATCC	0.692													24	63					0	0	0.005443	0	0		T	87677940	T	T	87677940	2	4	20	1	0	0	0	0	0	0	0	1	7978	639	23	1		1	JPH3	16	87677940	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1112090	87677940	2676813	1439	18161											
KLHDC4	54758	broad.mit.edu	37	chr16	87743249	87743249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttttctgccccgcctgcGtttcttcttttcagacttgg	2	18	7	14	2	5	1	1	0	4	1	5	1	5	1	3	1	2	1	3	1	0	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr16:87743249G>A	uc002fki.2	-	10	1115	c.1069C>T	c.(1069-1071)CGC>TGC	p.R357C	KLHDC4_uc002fkh.1_RNA|KLHDC4_uc010cht.1_Intron|KLHDC4_uc002fkj.2_Missense_Mutation_p.R326C|KLHDC4_uc002fkk.2_Missense_Mutation_p.R176C|KLHDC4_uc002fkl.2_Missense_Mutation_p.R300C|KLHDC4_uc010chu.1_Missense_Mutation_p.R176C	NM_017566	NP_060036	Q8TBB5	KLDC4_HUMAN	kelch domain containing 4	357	Kelch 5.									pancreas(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0283)		CCCCGCCTGCGTTTCTTCTTT	0.612													5	7					0	0	0.000602	0	0		A	87743249	A	A	87743249	3	1	20	1	0	0	0	0	1	0	0	0	8374	1145	40	1	501	1	KLHDC4	16	87743249	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	65309	87743249	2611504	1440	18162											
SRR	63826	broad.mit.edu	37	chr17	2227145	2227145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaggctgaaaggccagcttCttatcagtctgtttctgttt	7	15	10	9	0	4	1	1	1	3	0	4	1	4	1	1	2	1	5	1	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:2227145C>T	uc002fue.1	+	8	1069	c.1001C>T	c.(1000-1002)TCT>TTT	p.S334F	SRR_uc002fui.1_Missense_Mutation_p.S185F|TSR1_uc002fuj.2_3'UTR	NM_021947	NP_068766	Q9GZT4	SRR_HUMAN	serine racemase	334					D-serine biosynthetic process|L-serine metabolic process|protein homotetramerization|pyruvate biosynthetic process|response to lipopolysaccharide	cytoplasm|neuronal cell body|soluble fraction	ATP binding|calcium ion binding|D-serine ammonia-lyase activity|glycine binding|L-serine ammonia-lyase activity|magnesium ion binding|PDZ domain binding|protein homodimerization activity|pyridoxal phosphate binding|serine racemase activity|threonine racemase activity				0		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;3.24e-06)|READ - Rectum adenocarcinoma(1115;0.0649)	L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	AGGCCAGCTTCTTATCAGTCT	0.388													15	45					0	0	0.00499	0	0		T	2227145	T	T	2227145	3	4	20	1	0	0	0	0	1	0	0	0	15191	913	32	4	1027	4	SRR	17	2227145	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08		2227145	78968065	1441	18163											
SLC25A11	8402	broad.mit.edu	37	chr17	4842264	4842264	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgacgcagcaggccagcCgacagcctgaggagcagagg	10	2	16	13	2	0	3	0	2	0	1	0	5	0	4	4	3	4	3	4	3	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:4842264C>T	uc002fzo.1	-	3	368	c.255G>A	c.(253-255)TCG>TCA	p.S85S	SLC25A11_uc002fzp.1_Silent_p.S81S|RNF167_uc002fzq.2_5'Flank|RNF167_uc002fzr.2_5'Flank|RNF167_uc002fzs.2_5'Flank|RNF167_uc002fzt.2_5'Flank|RNF167_uc002fzu.2_5'Flank|RNF167_uc002fzv.2_5'Flank|RNF167_uc002fzw.1_5'Flank|RNF167_uc002fzx.2_5'Flank	NM_003562	NP_003553	Q02978	M2OM_HUMAN	solute carrier family 25 member 11 isoform 1	85	Helical; Name=2; (Potential).|Solcar 1.				gluconeogenesis	integral to plasma membrane|mitochondrial inner membrane	oxoglutarate:malate antiporter activity				0						GCAGGCCAGCCGACAGCCTGA	0.602													19	44					0	0	0.014323	0	0		T	4842264	T	T	4842264	2	4	20	1	0	0	0	0	0	0	0	1	14498	639	23	1		1	SLC25A11	17	4842264	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2615119	4842264	76352946	1442	18164											
ZNF594	84622	broad.mit.edu	37	chr17	5086767	5086767	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcatagggtttctctccaGtgtgaattctgtgatgtata	9	17	9	6	0	3	2	1	2	2	0	5	2	4	2	1	1	0	2	1	1	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:5086767G>C	uc010cla.1	-	2	941	c.785C>G	c.(784-786)ACT>AGT	p.T262S		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	262					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						TTTCTCTCCAGTGTGAATTCT	0.428													17	243					0	0	0.006122	0	0		C	5086767	C	C	5086767	3	2	20	1	0	0	0	0	1	0	0	0	18049	1029	36	5	1642	5	ZNF594	17	5086767	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	244503	5086767	76108443	1443	18165											
NUP88	4927	broad.mit.edu	37	chr17	5290760	5290760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcatatttgtcagctaaaCgctcagccatttcccgcaga	10	11	6	14	2	3	1	3	0	0	1	4	1	4	1	3	0	3	3	3	0	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:5290760C>T	uc002gbo.1	-	14	1888	c.1862G>A	c.(1861-1863)CGT>CAT	p.R621H	NUP88_uc002gbn.2_5'Flank|NUP88_uc010vsx.1_Missense_Mutation_p.R637H	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	621	Potential.				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1						GTCAGCTAAACGCTCAGCCAT	0.428													68	231					0	0	0.01441	0	0		T	5290760	T	T	5290760	3	4	20	1	0	0	0	0	1	0	0	0	10790	536	19	1	379	1	NUP88	17	5290760	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	203993	5290760	75904450	1444	18166											
ALOX12	239	broad.mit.edu	37	chr17	6905060	6905060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtatcacttgctgaacaCtcacctggtggctgaggtca	9	10	10	12	0	3	2	3	2	0	0	3	2	3	2	2	3	2	3	2	3	2	2	rs143493293	by1000genomes	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:6905060C>T	uc002gdx.3	+	8	1144	c.1091C>T	c.(1090-1092)ACT>ATT	p.T364I	uc002gdy.1_RNA	NM_000697	NP_000688	P18054	LOX12_HUMAN	arachidonate 12-lipoxygenase	364	Lipoxygenase.				anti-apoptosis|cellular component movement|fatty acid oxidation|leukotriene biosynthetic process|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of cell proliferation|superoxide anion generation	cytosol|sarcolemma	arachidonate 12-lipoxygenase activity|hepoxilin-epoxide hydrolase activity|iron ion binding|lipoxygenase activity|protein binding			central_nervous_system(1)	1						TTGCTGAACACTCACCTGGTG	0.527													64	151					0	0	0.01441	0	0		T	6905060	T	T	6905060	3	4	20	1	0	0	0	0	1	0	0	0	536	565	20	4	1121	4	ALOX12	17	6905060	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1614300	6905060	74290150	1445	18167											
BCL6B	255877	broad.mit.edu	37	chr17	6927125	6927125	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtcacgctgctggttggCgggcaacccctcagagcaca	8	6	13	14	3	2	1	2	0	0	1	2	2	2	1	2	3	3	5	2	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:6927125C>T	uc002geg.2	+	2	192	c.135C>T	c.(133-135)GGC>GGT	p.G45G	BCL6B_uc010clt.1_Silent_p.G45G	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	45	BTB.					nucleus	zinc ion binding			skin(1)	1						TGCTGGTTGGCGGGCAACCCC	0.667													18	32					0	0	0.007413	0	0		T	6927125	T	T	6927125	2	4	20	1	0	0	0	0	0	0	0	1	1378	755	27	1		1	BCL6B	17	6927125	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	22065	6927125	74268085	1446	18168											
ACAP1	9744	broad.mit.edu	37	chr17	7253540	7253540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgccatggaaacagccaacGctgacatcgtcaccctgtaa	12	7	8	14	3	1	1	1	1	0	0	3	2	1	2	3	1	3	2	3	1	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:7253540G>A	uc002ggd.2	+	20	2262	c.2056G>A	c.(2056-2058)GCT>ACT	p.A686T	KCTD11_uc002gge.3_5'Flank	NM_014716	NP_055531	Q15027	ACAP1_HUMAN	centaurin beta1	686	Required for interaction with GULP1.|ANK 3.				intracellular signal transduction|lipid metabolic process|protein transport|regulation of ARF GTPase activity		ARF GTPase activator activity|phospholipase C activity|protein binding|zinc ion binding			breast(2)|large_intestine(1)	3						AACAGCCAACGCTGACATCGT	0.677													15	46					0	0	0.010504	0	0		A	7253540	A	A	7253540	3	1	20	1	0	0	0	0	1	0	0	0	118	1087	38	1	2134	1	ACAP1	17	7253540	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	326415	7253540	73941670	1447	18169											
POLR2A	5430	broad.mit.edu	37	chr17	7404634	7404634	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctattggcattggggactccAttgctgattctaagacttac	9	14	9	9	0	1	2	0	1	1	1	2	3	2	3	1	3	2	2	1	3	3	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:7404634A>G	uc002ghf.3	+	13	2311	c.2077A>G	c.(2077-2079)ATT>GTT	p.I693V		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	693					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				TGGGGACTCCATTGCTGATTC	0.448													9	386					0	0	0.008291	0	0		G	7404634	G	G	7404634	3	3	20	1	0	0	0	0	1	0	0	0	12233	217	8	3	2127	3	POLR2A	17	7404634	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	151094	7404634	73790576	1448	18170											
KDM6B	23135	broad.mit.edu	37	chr17	7756423	7756423	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtcaaggacgagccagcCtactactgcaacgagtgcga	11	6	12	12	4	1	0	1	0	0	0	1	4	1	1	2	1	7	1	2	1	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:7756423C>A	uc002giw.1	+	21	5092	c.4716C>A	c.(4714-4716)GCC>GCA	p.A1572A	KDM6B_uc002gix.2_Silent_p.A874A|TMEM88_uc002giy.2_5'Flank	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	1572					inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						ACGAGCCAGCCTACTACTGCA	0.637													5	23					0.00307968	0.00311962	0.00308	1	0		A	7756423	A	A	7756423	2	1	20	1	0	0	0	0	0	0	0	1	8154	668	24	5		5	KDM6B	17	7756423	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	351789	7756423	73438787	1449	18171											
ALOXE3	59344	broad.mit.edu	37	chr17	8000064	8000064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcggctctggaaggcggCgatgctccgcctcggggcct	4	6	17	14	5	1	0	0	0	1	0	3	2	2	1	3	7	1	2	3	7	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:8000064C>T	uc010cnr.2	-	16	2387	c.2017G>A	c.(2017-2019)GCC>ACC	p.A673T	ALOXE3_uc002gka.2_Missense_Mutation_p.A829T|ALOXE3_uc010vuo.1_Missense_Mutation_p.A805T	NM_021628	NP_067641	Q9BYJ1	LOXE3_HUMAN	arachidonate lipoxygenase 3 isoform 2	673	Lipoxygenase.				leukotriene biosynthetic process		iron ion binding|lipoxygenase activity			skin(3)|lung(1)|central_nervous_system(1)	5						TGGAAGGCGGCGATGCTCCGC	0.622													35	72					0	0	0.003755	0	0		T	8000064	T	T	8000064	3	4	20	1	0	0	0	0	1	0	0	0	542	768	27	1	122	1	ALOXE3	17	8000064	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	243641	8000064	73195146	1450	18172											
TMEM107	84314	broad.mit.edu	37	chr17	8077872	8077872	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtaccaatacgtagtgcActcccaacgctcgaatatga	14	9	7	11	3	0	1	0	1	0	0	2	2	1	1	2	0	4	4	2	0	8	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:8077872A>G	uc002gkg.3	-	4	429	c.319T>C	c.(319-321)TGC>CGC	p.C107R	TMEM107_uc002gkh.3_Missense_Mutation_p.C113R|TMEM107_uc002gki.3_Missense_Mutation_p.C113R|TMEM107_uc002gkj.3_Intron|TMEM107_uc002gkk.2_3'UTR	NM_183065	NP_898888	Q6UX40	TM107_HUMAN	transmembrane protein 107 isoform 2	107						integral to membrane					0						TACGTAGTGCACTCCCAACGC	0.498													32	321					0	0	0.012213	0	0		G	8077872	G	G	8077872	3	3	20	1	0	0	0	0	1	0	0	0	16048	159	6	3	111	3	TMEM107	17	8077872	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	77808	8077872	73117338	1451	18173											
C17orf68	80169	broad.mit.edu	37	chr17	8140698	8140698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccccagtcctcacctgcaCgatgatggacacgtgggtga	9	7	12	13	2	1	2	1	2	0	0	2	5	2	3	4	2	1	1	4	2	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:8140698C>T	uc002gkq.3	-	5	846	c.787G>A	c.(787-789)GTG>ATG	p.V263M	C17orf68_uc010cnv.2_RNA	NM_025099	NP_079375	Q2NKJ3	CTC1_HUMAN	alpha accessory factor 132	263					positive regulation of DNA replication|telomere maintenance	Stn1-Ten1 complex	protein binding|single-stranded DNA binding				0						CTCACCTGCACGATGATGGAC	0.488													19	74					0	0	0.014323	0	0		T	8140698	T	T	8140698	3	4	20	1	0	0	0	0	1	0	0	0	1879	536	19	1	2942	1	C17orf68	17	8140698	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	62826	8140698	73054512	1452	18174											
NDEL1	81565	broad.mit.edu	37	chr17	8350200	8350200	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctggagcaggccaacgaCgacctggagcgagccaaaag	13	2	15	11	3	0	0	0	0	0	0	0	6	0	2	3	3	5	2	3	3	3	0	rs146379947	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:8350200C>T	uc002glj.2	+	4	566	c.369C>T	c.(367-369)GAC>GAT	p.D123D	NDEL1_uc002gli.2_Silent_p.D123D	NM_030808	NP_110435	Q9GZM8	NDEL1_HUMAN	nudE nuclear distribution gene E homolog (A.	123	Required for interaction with PAFAH1B1.|Interaction with KATNB1 (By similarity).|Potential.|Self-association (By similarity).				chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|microtubule|spindle					0						AGGCCAACGACGACCTGGAGC	0.428													7	35					0	0	0.001984	0	0		T	8350200	T	T	8350200	2	4	20	1	0	0	0	0	0	0	0	1	10263	535	19	1		1	NDEL1	17	8350200	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	209502	8350200	72845010	1453	18175											
MYH8	4626	broad.mit.edu	37	chr17	10304992	10304992	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcagctcagcattgatctcTtcctcctcctcagctctttc	5	15	5	16	0	5	1	3	1	2	0	10	1	8	1	3	0	3	3	3	0	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:10304992T>G	uc002gmm.2	-	23	2894	c.2799A>C	c.(2797-2799)GAA>GAC	p.E933D	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	933	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						CATTGATCTCTTCCTCCTCCT	0.453									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				21	623					0	0	0.012319	0	0		G	10304992	G	G	10304992	3	3	20	1	0	0	0	0	1	0	0	0	10059	1606	56	5	3086	5	MYH8	17	10304992	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1954792	10304992	70890218	1454	18176											
MYH8	4626	broad.mit.edu	37	chr17	10315783	10315783	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgcgggtgaccatccaCaggaacatcttctcgtagac	10	10	10	11	2	2	3	0	2	2	1	4	4	3	4	2	2	2	1	2	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:10315783C>T	uc002gmm.2	-	14	1415	c.1320G>A	c.(1318-1320)CTG>CTA	p.L440L	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	440	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TGACCATCCACAGGAACATCT	0.493									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				87	246					0	0	0.01441	0	0		T	10315783	T	T	10315783	2	4	20	1	0	0	0	0	0	0	0	1	10059	465	17	4		4	MYH8	17	10315783	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	10791	10315783	70879427	1455	18177											
MAP2K4	6416	broad.mit.edu	37	chr17	11984731	11984731	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactgaagatctcccctgaaCaacactgggatttcactgca	13	9	7	12	0	2	3	1	2	1	1	3	4	2	4	2	1	4	1	2	1	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:11984731C>T	uc002gnj.2	+	3	346	c.277C>T	c.(277-279)CAA>TAA	p.Q93*	MAP2K4_uc002gnk.2_Nonsense_Mutation_p.Q104*|MAP2K4_uc010vvi.1_5'UTR|MAP2K4_uc010vvj.1_Intron|MIR744_hsa-mir-744|MI0005559_5'Flank	NM_003010	NP_003001	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4	93					cellular response to mechanical stimulus|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|JUN kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.?(1)		large_intestine(14)|breast(12)|lung(8)|ovary(8)|pancreas(8)|stomach(2)|central_nervous_system(1)|biliary_tract(1)|testis(1)|endometrium(1)|urinary_tract(1)|skin(1)	58		all_cancers(5;0.0413)|Breast(5;0.000625)|all_epithelial(5;0.00978)|all_lung(20;0.0449)|Lung NSC(33;0.163)		Epithelial(2;4.12e-09)|all cancers(2;6.86e-07)|BRCA - Breast invasive adenocarcinoma(2;8.74e-07)|Colorectal(4;5.32e-05)|COAD - Colon adenocarcinoma(4;0.0039)|READ - Rectum adenocarcinoma(10;0.0681)		CTCCCCTGAACAACACTGGGA	0.418			D|Mis|N		pancreatic|breast|colorectal								33	88					0	0	0.013726	0	0		T	11984731	T	T	11984731	4	4	20	1	0	0	0	0	0	1	0	0	9257	479	17	4	287	4	MAP2K4	17	11984731	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1668948	11984731	69210479	1456	18178											
MAP2K4	6416	broad.mit.edu	37	chr17	12028611	12028611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacttgtctttatgttccagCctgaaagaatagacccaagc	12	11	7	11	0	1	3	0	1	1	2	2	3	2	3	3	0	2	1	3	0	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:12028611C>T	uc002gnj.2	+	8	883	c.814C>T	c.(814-816)CCT>TCT	p.P272S	MAP2K4_uc002gnk.2_Missense_Mutation_p.P283S|MAP2K4_uc010vvi.1_Missense_Mutation_p.P154S|MAP2K4_uc010vvj.1_Missense_Mutation_p.P144S	NM_003010	NP_003001	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4	272	Protein kinase.				cellular response to mechanical stimulus|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|JUN kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.?(3)		large_intestine(14)|breast(12)|lung(8)|ovary(8)|pancreas(8)|stomach(2)|central_nervous_system(1)|biliary_tract(1)|testis(1)|endometrium(1)|urinary_tract(1)|skin(1)	58		all_cancers(5;0.0413)|Breast(5;0.000625)|all_epithelial(5;0.00978)|all_lung(20;0.0449)|Lung NSC(33;0.163)		Epithelial(2;4.12e-09)|all cancers(2;6.86e-07)|BRCA - Breast invasive adenocarcinoma(2;8.74e-07)|Colorectal(4;5.32e-05)|COAD - Colon adenocarcinoma(4;0.0039)|READ - Rectum adenocarcinoma(10;0.0681)		TATGTTCCAGCCTGAAAGAAT	0.423			D|Mis|N		pancreatic|breast|colorectal								29	102					0	0	0.008361	0	0		T	12028611	T	T	12028611	3	4	20	1	0	0	0	0	1	0	0	0	9257	753	26	2	844	2	MAP2K4	17	12028611	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	43880	12028611	69166599	1457	18179											
CDRT4	284040	broad.mit.edu	37	chr17	15341231	15341231	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggagccatggccaatacCgaataagcgccccacattga	13	6	10	12	2	0	1	0	1	0	0	0	3	0	2	5	2	3	1	5	2	5	4	rs149000474	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:15341231C>T	uc002gop.1	-	4	596	c.315G>A	c.(313-315)TCG>TCA	p.S105S	CDRT4_uc010vvw.1_3'UTR	NM_173622	NP_775893	Q8N9R6	CDRT4_HUMAN	CMT1A duplicated region transcript 4	105											0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0874)		TGGCCAATACCGAATAAGCGC	0.483													32	99					0	0	0.003755	0	0		T	15341231	T	T	15341231	2	4	20	1	0	0	0	0	0	0	0	1	3179	639	23	1		1	CDRT4	17	15341231	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3312620	15341231	65853979	1458	18180											
TRIM16	10626	broad.mit.edu	37	chr17	15516133	15516133	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatcaattcctcttgtatagGacccctggaaaaacaaaaaa	17	9	6	9	0	2	0	1	0	1	0	3	3	3	2	3	2	1	1	3	2	8	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:15516133G>T	uc002gor.1	-	11	2271	c.1934C>A	c.(1933-1935)TCC>TAC	p.S645Y	CDRT1_uc002gov.3_Missense_Mutation_p.S335Y			O95361	TRI16_HUMAN	SubName: Full=Putative uncharacterized protein; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		TCTTGTATAGGACCCCTGGaa	0.373													13	99					2.27111e-07	2.3537e-07	0.013537	1	0		T	15516133	T	T	15516133	3	4	20	1	0	0	0	0	1	0	0	0	16517	1174	41	5		5	TRIM16	17	15516133	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	174902	15516133	65679077	1459	18181											
RAI1	10743	broad.mit.edu	37	chr17	17700590	17700590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggggggactgccctggCgcctaagaagaggagccgga	8	4	18	11	2	0	2	0	0	0	2	0	5	0	5	4	6	2	0	4	6	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:17700590C>T	uc002grm.2	+	3	4797	c.4328C>T	c.(4327-4329)GCG>GTG	p.A1443V	RAI1_uc002grn.1_Missense_Mutation_p.A1443V	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1443						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		ACTGCCCTGGCGCCTAAGAAG	0.612													18	36					0	0	0.007413	0	0		T	17700590	T	T	17700590	3	4	20	1	0	0	0	0	1	0	0	0	13032	768	27	1	4330	1	RAI1	17	17700590	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2184457	17700590	63494620	1460	18182											
SMCR8	140775	broad.mit.edu	37	chr17	18220589	18220589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccaggcaagcctcacagtaCcattgagcccccaggtggtc	9	6	11	15	0	1	1	1	1	0	0	2	1	1	1	5	3	3	2	5	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:18220589C>T	uc002gsy.3	+	1	1996	c.1486C>T	c.(1486-1488)CCA>TCA	p.P496S		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	496										central_nervous_system(1)	1						CCTCACAGTACCATTGAGCCC	0.537													28	80					0	0	0.012213	0	0		T	18220589	T	T	18220589	3	4	20	1	0	0	0	0	1	0	0	0	14817	507	18	4	1488	4	SMCR8	17	18220589	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	519999	18220589	62974621	1461	18183											
SLC47A2	146802	broad.mit.edu	37	chr17	19618075	19618075	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgaagacaaaccaactcCtacagaaactccgcagacat	16	5	6	14	2	0	3	0	0	0	3	2	4	2	3	4	0	5	1	4	0	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:19618075C>A	uc002gwe.3	-	3	428	c.253G>T	c.(253-255)GGA>TGA	p.G85*	SLC47A2_uc002gwg.3_Nonsense_Mutation_p.G85*|SLC47A2_uc002gwf.3_Nonsense_Mutation_p.G85*|SLC47A2_uc002gwh.3_RNA|SLC47A2_uc002gwi.2_RNA|SLC47A2_uc010cqs.1_RNA|SLC47A2_uc010cqt.1_RNA	NM_152908	NP_690872	Q86VL8	S47A2_HUMAN	solute carrier family 47, member 2 isoform 1	85	Helical; (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.3e-05)|all_epithelial(12;0.0024)|Breast(13;0.245)					AAACCAACTCCTACAGAAACT	0.572													21	335					1.55795e-14	1.65277e-14	0.012319	1	0		A	19618075	A	A	19618075	4	1	20	1	0	0	0	0	0	1	0	0	14673	690	24	5	1615	5	SLC47A2	17	19618075	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1397486	19618075	61577135	1462	18184											
ALDH3A1	218	broad.mit.edu	37	chr17	19645383	19645383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccctcccagctccagcGtgacaggggtcaggtgcttg	5	10	12	14	1	2	1	1	1	1	0	5	1	5	1	3	3	3	2	3	3	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:19645383G>A	uc010cqu.2	-	4	953	c.623C>T	c.(622-624)ACG>ATG	p.T208M	ALDH3A1_uc010vzd.1_Missense_Mutation_p.T208M|ALDH3A1_uc002gwj.2_Missense_Mutation_p.T208M|ALDH3A1_uc010cqv.2_Missense_Mutation_p.T208M|ALDH3A1_uc002gwk.2_Missense_Mutation_p.T325M|ALDH3A1_uc002gwl.1_Missense_Mutation_p.T135M	NM_001135168	NP_001128640	P30838	AL3A1_HUMAN	aldehyde dehydrogenase 3A1	208					cellular aldehyde metabolic process	cytosol|endoplasmic reticulum	alcohol dehydrogenase (NADP+) activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(1)|pancreas(1)	2	all_cancers(12;4.01e-05)|all_epithelial(12;0.00301)|Breast(13;0.186)			Colorectal(15;0.0829)	NADH(DB00157)	CAGCTCCAGCGTGACAGGGGT	0.632													22	54					0	0	0.012319	0	0		A	19645383	A	A	19645383	3	1	20	1	0	0	0	0	1	0	0	0	497	1145	40	1	766	1	ALDH3A1	17	19645383	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	27308	19645383	61549827	1463	18185											
NOS2	4843	broad.mit.edu	37	chr17	26108199	26108199	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgggggaacacggtgatggCcgaccttcccaggacaggaa	10	5	15	11	2	0	1	0	1	0	0	1	5	1	4	3	6	1	0	3	6	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:26108199C>T	uc002gzu.2	-	8	991	c.727G>A	c.(727-729)GCC>ACC	p.A243T	NOS2_uc010crh.1_Missense_Mutation_p.A243T|NOS2_uc010wab.1_Missense_Mutation_p.A243T	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	243					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	ACGGTGATGGCCGACCTTCCC	0.617													30	70					0	0	0.009535	0	0		T	26108199	T	T	26108199	3	4	20	1	0	0	0	0	1	0	0	0	10562	739	26	2	2814	2	NOS2	17	26108199	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6462816	26108199	55087011	1464	18186											
NOS2	4843	broad.mit.edu	37	chr17	26114723	26114723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctttgaaggagccgtaatAttggttgacaaattcgatag	12	13	10	6	2	1	2	0	2	1	0	2	4	1	3	1	2	1	2	1	2	5	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:26114723A>G	uc002gzu.2	-	5	712	c.448T>C	c.(448-450)TAT>CAT	p.Y150H	NOS2_uc010crh.1_Missense_Mutation_p.Y150H|NOS2_uc010wab.1_Missense_Mutation_p.Y150H	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	150					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GAGCCGTAATATTGGTTGACA	0.532													5	179					0	0	0.001168	0	0		G	26114723	G	G	26114723	3	3	20	1	0	0	0	0	1	0	0	0	10562	449	16	3	3105	3	NOS2	17	26114723	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	6524	26114723	55080487	1465	18187											
KIAA0100	9703	broad.mit.edu	37	chr17	26951336	26951336	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccacacaactggtcactcAtgcctgattcctcttctgtg	7	13	7	14	0	4	1	2	1	2	0	5	1	5	1	3	1	3	0	3	1	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:26951336A>G	uc002hbu.2	-	25	4766	c.4667T>C	c.(4666-4668)ATG>ACG	p.M1556T	KIAA0100_uc002hbt.2_5'Flank	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	1556						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					CTGGTCACTCATGCCTGATTC	0.453													28	71					0	0	0.007291	0	0		G	26951336	G	G	26951336	3	3	20	1	0	0	0	0	1	0	0	0	8170	217	8	3	2100	3	KIAA0100	17	26951336	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	836613	26951336	54243874	1466	18188											
TP53I13	90313	broad.mit.edu	37	chr17	27899538	27899538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcgcagcagcgcctccaCgggcagcccggggccccacc	5	2	13	21	5	0	0	0	0	0	0	2	0	1	0	6	3	3	3	6	3	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:27899538C>T	uc002hee.2	+	6	930	c.892C>T	c.(892-894)CGG>TGG	p.R298W		NM_138349	NP_612358	Q8NBR0	P5I13_HUMAN	tumor protein p53 inducible protein 13	298	Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane					0				READ - Rectum adenocarcinoma(3;0.236)		AGCGCCTCCACGGGCAGCCCG	0.711													3	16					0	0	0.001168	0	0		T	27899538	T	T	27899538	3	4	20	1	0	0	0	0	1	0	0	0	16412	527	19	1	914	1	TP53I13	17	27899538	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	948202	27899538	53295672	1467	18189											
SSH2	85464	broad.mit.edu	37	chr17	27958011	27958011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtccctgggtctgtagcaCgggaaggcctccttcagaac	8	8	12	13	1	2	1	1	0	1	1	4	2	4	2	3	3	2	2	3	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:27958011C>T	uc002heo.1	-	15	4120	c.4120G>A	c.(4120-4122)GTG>ATG	p.V1374M	SSH2_uc010wbh.1_Missense_Mutation_p.V1401M	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1374					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						GTCTGTAGCACGGGAAGGCCT	0.572													46	113					0	0	0.011902	0	0		T	27958011	T	T	27958011	3	4	20	1	0	0	0	0	1	0	0	0	15210	536	19	1	155	1	SSH2	17	27958011	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	58473	27958011	53237199	1468	18190											
CPD	1362	broad.mit.edu	37	chr17	28706682	28706683	+	Frame_Shift_Ins	INS	-	C	C																															accagtttagcaccggcgaaINSccccccgccctggacgaggt																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:28706682_28706683insC	uc002hfb.1	+	1	699_700	c.684_685insC	c.(682-687)GAACCCfs	p.E228fs	CPD_uc010wbo.1_5'Flank|CPD_uc010wbp.1_5'Flank	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	228_229	Extracellular (Potential).|Carboxypeptidase-like 1.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						GCACCGGCGAACCCCCCGCCCT	0.703													7	16	---	---	---	---						.	C	28706683	C	C	28706682	7	5	20	1	0	1	1	0	0	0	0	0	3801	40	2	0	686	0	CPD	17	28706682	Frame_Shift_Ins	INS	-	TCGA-BR-4362-01A-01D-1158-08	748671	28706682	52488528	1469	18191											
EVI2A	2123	broad.mit.edu	37	chr17	29645818	29645818	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcatgtttgtagaattacCtttataatctacttcaggag	12	15	8	6	0	2	1	1	0	1	1	2	2	2	2	1	2	2	3	1	2	6	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:29645818C>A	uc002hgm.2	-	2	429	c.214G>T	c.(214-216)GGT>TGT	p.G72C	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2A_uc002hgl.2_Missense_Mutation_p.G95C	NM_014210	NP_055025	P22794	EVI2A_HUMAN	ecotropic viral integration site 2A isoform 2	72	Extracellular (Potential).					integral to membrane	transmembrane receptor activity			ovary(1)|breast(1)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;5.94e-13)|Epithelial(4;7.98e-12)|OV - Ovarian serous cystadenocarcinoma(4;9.4e-12)|GBM - Glioblastoma multiforme(4;0.18)		GTAGAATTACCTTTATAATCT	0.368													46	120					4.00472e-15	4.25489e-15	0.01441	1	0		A	29645818	A	A	29645818	3	1	20	1	0	0	0	0	1	0	0	0	5295	681	24	5	500	5	EVI2A	17	29645818	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	939136	29645818	51549392	1470	18192											
MYO1D	4642	broad.mit.edu	37	chr17	31075962	31075962	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagatactcacactacatcGcctgcataatgtcgaattcg	13	11	6	11	3	1	1	1	0	0	1	4	2	1	1	1	0	3	1	1	0	5	5	rs117036818	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:31075962G>A	uc002hho.1	-	12	1542	c.1530C>T	c.(1528-1530)GGC>GGT	p.G510G	MYO1D_uc002hhp.1_Silent_p.G510G	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	510	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			ACACTACATCGCCTGCATAAT	0.368													46	124					0	0	0.01441	0	0		A	31075962	A	A	31075962	2	1	20	1	0	0	0	0	0	0	0	1	10089	1074	38	1		1	MYO1D	17	31075962	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1430144	31075962	50119248	1471	18193											
SPACA3	124912	broad.mit.edu	37	chr17	31322545	31322545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggctccacctctgccgcCggcatagaagccaggagcag	8	5	14	14	2	1	1	0	0	1	1	2	2	2	2	5	4	3	3	5	4	2	1	rs139396445		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:31322545C>T	uc002hhs.1	+	2	228	c.153C>T	c.(151-153)GCC>GCT	p.A51A	SPACA3_uc010cte.1_RNA	NM_173847	NP_776246	Q8IXA5	SACA3_HUMAN	sperm acrosome associated 3	51	Cytoplasmic (Potential).				cell wall macromolecule catabolic process|defense response to Gram-positive bacterium|monocyte activation|peptidoglycan catabolic process|positive regulation of macrophage activation|positive regulation of phagocytosis|response to virus	acrosomal membrane|extracellular region|integral to membrane|lysosome	bacterial cell surface binding|lysozyme activity|protein binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.193)			CCTCTGCCGCCGGCATAGAAG	0.612													14	48					0	0	0.004007	0	0		T	31322545	T	T	31322545	2	4	20	1	0	0	0	0	0	0	0	1	14998	639	23	1		1	SPACA3	17	31322545	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	246583	31322545	49872665	1472	18194											
SLFN13	146857	broad.mit.edu	37	chr17	33768287	33768287	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagtccccatcttcagtaCggaaattctgagcttcgtca	10	11	7	13	2	4	1	2	1	2	0	6	2	5	2	3	1	2	2	3	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:33768287C>T	uc002hjk.1	-	4	2351	c.2021G>A	c.(2020-2022)CGT>CAT	p.R674H	SLFN13_uc010wch.1_Missense_Mutation_p.R674H|SLFN13_uc002hjl.2_Missense_Mutation_p.R674H|SLFN13_uc010ctt.2_Missense_Mutation_p.R356H|SLFN13_uc002hjm.2_Missense_Mutation_p.R343H	NM_144682	NP_653283	Q68D06	SLN13_HUMAN	schlafen family member 13	674						intracellular	ATP binding			ovary(1)|breast(1)	2				UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		ATCTTCAGTACGGAAATTCTG	0.433													41	139					0	0	0.00874	0	0		T	33768287	T	T	33768287	3	4	20	1	0	0	0	0	1	0	0	0	14761	536	19	1	676	1	SLFN13	17	33768287	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2445742	33768287	47426923	1473	18195											
HNF1B	6928	broad.mit.edu	37	chr17	36091778	36091778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaagttggagcccaggcCgtgggctttggagggggaca	8	6	18	9	1	0	0	0	0	0	0	0	4	0	3	3	6	1	2	3	6	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:36091778C>T	uc002hok.3	-	4	1074	c.853G>A	c.(853-855)GGC>AGC	p.G285S	HNF1B_uc010wdi.1_Missense_Mutation_p.G259S|HNF1B_uc010cve.1_Missense_Mutation_p.G93S	NM_000458	NP_000449	P35680	HNF1B_HUMAN	hepatocyte nuclear factor 1-beta isoform 1	285	Homeobox; HNF1-type.		G -> D (in RCAD).		endocrine pancreas development|genitalia development|kidney development|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric nephron tubule development|regulation of pronephros size	nucleus	DNA binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			GAGCCCAGGCCGTGGGCTTTG	0.612									Hereditary_Prostate_Cancer				52	126					0	0	0.01441	0	0		T	36091778	T	T	36091778	3	4	20	1	0	0	0	0	1	0	0	0	7268	652	23	1	844	1	HNF1B	17	36091778	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2323491	36091778	45103432	1474	18196											
PNMT	5409	broad.mit.edu	37	chr17	37826335	37826335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctgacgccctggtctctgCcttctgcttggaggctgtga	3	13	13	12	1	2	2	0	2	2	0	3	3	2	3	2	3	3	3	2	3	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:37826335C>T	uc002hsi.1	+	3	764	c.542C>T	c.(541-543)GCC>GTC	p.A181V		NM_002686	NP_002677	P11086	PNMT_HUMAN	phenylethanolamine N-methyltransferase	181		S-adenosyl-L-methionine; via carbonyl oxygen.			catecholamine biosynthetic process|hormone biosynthetic process	cytosol	phenylethanolamine N-methyltransferase activity			ovary(1)	1	all_cancers(6;6.59e-85)|all_epithelial(6;2.89e-103)|Breast(7;1.05e-86)|Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;3.87e-45)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CTGGTCTCTGCCTTCTGCTTG	0.677													9	33					0	0	0.006214	0	0		T	37826335	T	T	37826335	3	4	20	1	0	0	0	0	1	0	0	0	12178	739	26	2	552	2	PNMT	17	37826335	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1734557	37826335	43368875	1475	18197											
GRB7	2886	broad.mit.edu	37	chr17	37900873	37900873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacgtggtgacgcagggccGcaagctctacgggatgccca	8	6	15	12	4	1	1	0	1	1	0	1	2	1	2	2	3	4	4	2	3	3	2	rs138362707		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:37900873G>A	uc002hsr.2	+	8	1119	c.869G>A	c.(868-870)CGC>CAC	p.R290H	GRB7_uc002hss.2_Missense_Mutation_p.R290H|GRB7_uc010cwc.2_Missense_Mutation_p.R290H|GRB7_uc002hst.2_Missense_Mutation_p.R290H	NM_005310	NP_005301	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	290	PH.				blood coagulation|epidermal growth factor receptor signaling pathway|leukocyte migration|negative regulation of translation|positive regulation of cell migration|stress granule assembly	cytosol|focal adhesion|stress granule	phosphatidylinositol binding|protein kinase binding|SH3/SH2 adaptor activity			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			ACGCAGGGCCGCAAGCTCTAC	0.607													8	22					0	0	0.004482	0	0		A	37900873	A	A	37900873	3	1	20	1	0	0	0	0	1	0	0	0	6775	1087	38	1	895	1	GRB7	17	37900873	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	74538	37900873	43294337	1476	18198											
TNS4	84951	broad.mit.edu	37	chr17	38633914	38633914	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctggctggaccatgtcatActccgcaaagaggtggcata	10	8	13	10	1	1	1	1	0	0	1	2	2	2	2	2	5	1	4	2	5	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:38633914A>G	uc010cxb.2	-	13	2238	c.2074T>C	c.(2074-2076)TAT>CAT	p.Y692H	TNS4_uc002huu.3_Missense_Mutation_p.Y105H	NM_032865	NP_116254	Q8IZW8	TENS4_HUMAN	tensin 4 precursor	692	Phosphatase tensin-type.				apoptosis|protein localization	cytoplasm|cytoskeleton|focal adhesion	actin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(5;5.91e-05)			ACCATGTCATACTCCGCAAAG	0.597													3	108					0	0	0.009096	0	0		G	38633914	G	G	38633914	3	3	20	1	0	0	0	0	1	0	0	0	16370	391	14	3	77	3	TNS4	17	38633914	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	733041	38633914	42561296	1477	18199											
KRT26	353288	broad.mit.edu	37	chr17	38928171	38928171	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaccagcacaggcaccActtcccaaccctccaccgct	13	4	5	19	1	0	1	0	0	0	1	2	1	2	1	6	1	3	3	6	1	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:38928171A>G	uc002hvf.2	-	1	241	c.195T>C	c.(193-195)AGT>AGC	p.S65S		NM_181539	NP_853517	Q7Z3Y9	K1C26_HUMAN	keratin 26	65	Head.|Gly-rich.					intermediate filament	structural molecule activity				0		Breast(137;0.00526)				CACAGGCACCACTTCCCAACC	0.527													9	155					0	0	0.004482	0	0		G	38928171	G	G	38928171	2	3	20	1	0	0	0	0	0	0	0	1	8479	156	6	3		3	KRT26	17	38928171	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	294257	38928171	42267039	1478	18200											
KRT10	3858	broad.mit.edu	37	chr17	38975866	38975866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtattcagtattctggcactCggtttcagctcgaatctgtt	7	16	9	9	2	4	0	2	0	2	0	6	1	4	0	0	2	1	6	0	2	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:38975866C>T	uc002hvi.2	-	6	1302	c.1276G>A	c.(1276-1278)GAG>AAG	p.E426K	KRT10_uc010cxd.2_RNA|TMEM99_uc002hvj.1_Intron	NM_000421	NP_000412	P13645	K1C10_HUMAN	keratin 10	426	Rod.|Gly-rich.|Coil 2.				epidermis development		protein binding|structural constituent of epidermis				0		Breast(137;0.000301)				TTCTGGCACTCGGTTTCAGCT	0.483													62	149					0	0	0.01441	0	0		T	38975866	T	T	38975866	3	4	20	1	0	0	0	0	1	0	0	0	8464	893	31	1	490	1	KRT10	17	38975866	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	47695	38975866	42219344	1479	18201											
KLHL10	317719	broad.mit.edu	37	chr17	40001941	40001941	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaatcaatggacactcatCgcccccatgcacgaacagag	14	5	7	15	2	2	1	2	0	0	1	3	3	2	2	3	1	2	1	3	1	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:40001941C>A	uc010cxr.2	+	3	1390	c.1248C>A	c.(1246-1248)ATC>ATA	p.I416I	KLHL10_uc010wfv.1_Silent_p.I410I|KLHL10_uc010wfw.1_Silent_p.I328I	NM_152467	NP_689680	Q6JEL2	KLH10_HUMAN	kelch-like 10	416	Kelch 3.					cytoplasm				ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		Breast(137;0.000162)				GGACACTCATCGCCCCCATGC	0.498													28	56					7.38237e-10	7.73828e-10	0.00632	1	0		A	40001941	A	A	40001941	2	1	20	1	0	0	0	0	0	0	0	1	8382	874	31	5		5	KLHL10	17	40001941	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1026075	40001941	41193269	1480	18202											
KCNH4	23415	broad.mit.edu	37	chr17	40330908	40330908	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctcactggtctctgggccGtagaggaaacggcagctgca	8	7	15	11	2	2	1	1	0	1	1	3	2	2	2	1	5	3	5	1	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:40330908G>A	uc002hzb.2	-	2	546	c.213C>T	c.(211-213)TAC>TAT	p.Y71Y		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	71	Cytoplasmic (Potential).|PAS.				regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	two-component sensor activity|voltage-gated potassium channel activity			large_intestine(1)	1		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TCTCTGGGCCGTAGAGGAAAC	0.627													16	39					0	0	0.010504	0	0		A	40330908	A	A	40330908	2	1	20	1	0	0	0	0	0	0	0	1	8050	1140	40	1		1	KCNH4	17	40330908	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	328967	40330908	40864302	1481	18203											
COASY	80347	broad.mit.edu	37	chr17	40717259	40717259	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccagaagcagctgaagatActcacggacattatgtggcc	12	7	10	12	1	1	3	1	1	0	2	1	4	1	4	3	2	3	2	3	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:40717259A>G	uc002hzz.2	+	7	1474	c.1317A>G	c.(1315-1317)ATA>ATG	p.I439M	COASY_uc010cyj.2_Missense_Mutation_p.I468M|COASY_uc002iab.2_Missense_Mutation_p.I144M|COASY_uc002iad.2_Missense_Mutation_p.I439M|COASY_uc002iac.2_Missense_Mutation_p.I439M|COASY_uc002iae.2_Missense_Mutation_p.I234M|MLX_uc002iaf.2_5'Flank|MLX_uc002iag.2_5'Flank|MLX_uc002iah.2_5'Flank	NM_001042529	NP_001035994	Q13057	COASY_HUMAN	coenzyme A synthase isoform a	439	DPCK.				coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial outer membrane	ATP binding|dephospho-CoA kinase activity|pantetheine-phosphate adenylyltransferase activity				0		all_cancers(22;1.06e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)		AGCTGAAGATACTCACGGACA	0.562													34	192					0	0	0.00623	0	0		G	40717259	G	G	40717259	3	3	20	1	0	0	0	0	1	0	0	0	3655	381	14	3	1430	3	COASY	17	40717259	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	386351	40717259	40477951	1482	18204											
RUNDC1	146923	broad.mit.edu	37	chr17	41143362	41143362	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggccgtgcttatgtggaaTccccagcccggaagctctcc	7	8	11	15	3	1	0	0	0	1	0	3	2	2	2	5	3	3	2	5	3	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:41143362T>C	uc002ici.1	+	5	1483	c.1471T>C	c.(1471-1473)TCC>CCC	p.S491P	RUNDC1_uc010whi.1_Missense_Mutation_p.S261P	NM_173079	NP_775102	Q96C34	RUND1_HUMAN	RUN domain containing 1	491	RUN.										0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		TTATGTGGAATCCCCAGCCCG	0.577													24	78					0	0	0.003954	0	0		C	41143362	C	C	41143362	3	2	20	1	0	0	0	0	1	0	0	0	13767	1435	50	3	1489	3	RUNDC1	17	41143362	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	426103	41143362	40051848	1483	18205											
BRCA1	672	broad.mit.edu	37	chr17	41244853	41244853	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttcacattcaaaagtgaCttttggactttgtttcttta	9	20	6	6	0	3	1	2	1	1	0	3	2	3	2	0	1	0	2	0	1	3	9			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:41244853C>G	uc002icq.2	-	10	2927	c.2695G>C	c.(2695-2697)GTC>CTC	p.V899L	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.V828L|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.V852L|BRCA1_uc002ict.2_Missense_Mutation_p.V899L|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.V899L|BRCA1_uc002ide.1_Missense_Mutation_p.V730L|BRCA1_uc010cyy.1_Missense_Mutation_p.V899L|BRCA1_uc010whs.1_Missense_Mutation_p.V899L|BRCA1_uc010cyz.2_Missense_Mutation_p.V852L|BRCA1_uc010cza.2_Missense_Mutation_p.V873L|BRCA1_uc010wht.1_Missense_Mutation_p.V603L	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	899					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TCAAAAGTGACTTTTGGACTT	0.413			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			7	134					0	0	0.001984	0	0		G	41244853	G	G	41244853	3	3	20	1	0	0	0	0	1	0	0	0	1501	565	20	5	3022	5	BRCA1	17	41244853	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	101491	41244853	39950357	1484	18206											
NBR1	4077	broad.mit.edu	37	chr17	41343459	41343459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgagctgagaagaaacaaCgtaaagcagaggtcaaggaa	18	4	13	6	2	1	3	1	1	0	3	1	6	1	4	0	2	5	3	0	2	7	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:41343459C>T	uc010czd.2	+	10	1074	c.934C>T	c.(934-936)CGT>TGT	p.R312C	NBR1_uc010diz.2_Missense_Mutation_p.R312C|NBR1_uc010whu.1_Missense_Mutation_p.R312C|NBR1_uc010whv.1_Missense_Mutation_p.R312C|NBR1_uc010whw.1_Missense_Mutation_p.R291C|NBR1_uc010whx.1_Missense_Mutation_p.R121C	NM_031862	NP_114068	Q14596	NBR1_HUMAN	neighbor of BRCA1 gene 1	312					macroautophagy|protein oligomerization	autophagic vacuole|cytoplasmic vesicle|cytosol|late endosome|lysosome|sarcomere	ubiquitin binding|zinc ion binding			skin(1)	1		Breast(137;0.00086)		BRCA - Breast invasive adenocarcinoma(366;0.0934)		GAAGAAACAACGTAAAGCAGA	0.403													4	21					0	0	0.009096	0	0		T	41343459	T	T	41343459	3	4	20	1	0	0	0	0	1	0	0	0	10219	536	19	1	968	1	NBR1	17	41343459	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	98606	41343459	39851751	1485	18207											
MPP2	4355	broad.mit.edu	37	chr17	41958098	41958098	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgatctggatcccacatgaTgagcttgttcttcaggctgc	7	12	11	11	1	3	2	1	2	2	0	4	4	4	3	1	2	2	3	1	2	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:41958098T>C	uc010wip.1	-	10	1303	c.1246A>G	c.(1246-1248)ATC>GTC	p.I416V	MPP2_uc002ien.1_Missense_Mutation_p.I388V|MPP2_uc010wim.1_Missense_Mutation_p.I360V|MPP2_uc002ieo.1_Missense_Mutation_p.I371V|MPP2_uc010win.1_Missense_Mutation_p.I232V|MPP2_uc010wio.1_Missense_Mutation_p.I360V	NM_005374	NP_005365	Q14168	MPP2_HUMAN	palmitoylated membrane protein 2	395	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane|membrane fraction	guanylate kinase activity				0		Breast(137;0.00314)		BRCA - Breast invasive adenocarcinoma(366;0.12)		TCCCACATGATGAGCTTGTTC	0.642											OREG0024443	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	70					0	0	0.009535	0	0		C	41958098	C	C	41958098	3	2	20	1	0	0	0	0	1	0	0	0	9752	1464	51	3	563	3	MPP2	17	41958098	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	614639	41958098	39237112	1486	18208											
DBF4B	80174	broad.mit.edu	37	chr17	42824781	42824781	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcagagtgcccagcaccGgagctttgccctggaagccc	7	8	11	15	1	2	1	1	0	1	1	2	3	2	3	4	2	5	2	4	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:42824781G>T	uc002ihf.2	+	12	1175	c.962G>T	c.(961-963)CGG>CTG	p.R321L	DBF4B_uc002ihe.2_Missense_Mutation_p.R135L|DBF4B_uc010wjc.1_Missense_Mutation_p.R305L	NM_145663	NP_663696	Q8NFT6	DBF4B_HUMAN	DBF4 homolog B isoform 1	321	DBF4-type.				cell cycle	nucleus	nucleic acid binding|zinc ion binding				0		Prostate(33;0.0322)				GCCCAGCACCGGAGCTTTGCC	0.622													15	63					3.99206e-14	4.22441e-14	0.007413	1	0		T	42824781	T	T	42824781	3	4	20	1	0	0	0	0	1	0	0	0	4252	1116	39	5	1053	5	DBF4B	17	42824781	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	866683	42824781	38370429	1487	18209											
KIAA1267	284058	broad.mit.edu	37	chr17	44115975	44115975	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggaggtggagagctgtcGcaccaagggactgtgtggag	9	7	19	6	1	0	2	0	1	0	1	1	6	0	5	1	5	1	2	1	5	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:44115975G>A	uc002ikb.2	-	9	2555	c.2470C>T	c.(2470-2472)CGA>TGA	p.R824*	KIAA1267_uc002ikc.2_Nonsense_Mutation_p.R824*|KIAA1267_uc002ikd.2_Nonsense_Mutation_p.R824*|KIAA1267_uc010dav.2_Nonsense_Mutation_p.R824*|KIAA1267_uc010wkb.1_Nonsense_Mutation_p.R155*|KIAA1267_uc010wkc.1_Nonsense_Mutation_p.R92*	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	824						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				GAGAGCTGTCGCACCAAGGGA	0.562													17	49					0	0	0.010504	0	0		A	44115975	A	A	44115975	4	1	20	1	0	0	0	0	0	1	0	0	8235	1095	38	1	871	1	KIAA1267	17	44115975	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1291194	44115975	37079235	1488	18210											
C17orf57	124989	broad.mit.edu	37	chr17	45473245	45473245	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgatctcagaaaggagaCgatgagtgtttctgacctgt	11	10	12	8	3	2	4	1	2	2	2	3	8	2	4	1	1	0	1	1	1	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:45473245C>G	uc002iln.2	+	17	2258	c.1847C>G	c.(1846-1848)ACG>AGG	p.T616R	C17orf57_uc002ilm.2_Missense_Mutation_p.T520R	NM_152347	NP_689560	Q8IY85	CQ057_HUMAN	hypothetical protein LOC124989	616							calcium ion binding			breast(1)|central_nervous_system(1)|skin(1)	3						AGAAAGGAGACGATGAGTGTT	0.368													10	92					0	0	0.006214	0	0		G	45473245	G	G	45473245	3	3	20	1	0	0	0	0	1	0	0	0	1868	536	19	5	1901	5	C17orf57	17	45473245	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1357270	45473245	35721965	1489	18211											
NFE2L1	4779	broad.mit.edu	37	chr17	46136704	46136704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcgcagaactgccgcaagCgcaagctggacaccatcctg	10	4	12	15	4	0	1	0	0	0	1	1	2	1	2	3	2	4	4	3	2	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:46136704C>T	uc002imz.3	+	6	2671	c.2020C>T	c.(2020-2022)CGC>TGC	p.R674C	NFE2L1_uc002ina.3_Missense_Mutation_p.R644C|NFE2L1_uc002inb.3_Missense_Mutation_p.R644C|NFE2L1_uc010wle.1_Missense_Mutation_p.R486C|NFE2L1_uc010wlf.1_Missense_Mutation_p.R518C	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	674	Basic motif.				anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						CTGCCGCAAGCGCAAGCTGGA	0.607													16	46					0	0	0.007413	0	0		T	46136704	T	T	46136704	3	4	20	1	0	0	0	0	1	0	0	0	10386	768	27	1	2038	1	NFE2L1	17	46136704	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	663459	46136704	35058506	1490	18212											
CACNA1G	8913	broad.mit.edu	37	chr17	48649364	48649364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctgtgggcagggctgcttCggaaccgatgcttcctacct	6	10	13	12	2	0	0	0	0	0	0	2	2	1	1	3	3	5	5	3	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:48649364C>T	uc002irk.1	+	5	1084	c.712C>T	c.(712-714)CGG>TGG	p.R238W	CACNA1G_uc002iri.1_Missense_Mutation_p.R238W|CACNA1G_uc002irj.1_Missense_Mutation_p.R238W|CACNA1G_uc002irl.1_Missense_Mutation_p.R238W|CACNA1G_uc002irm.1_Missense_Mutation_p.R238W|CACNA1G_uc002irn.1_Missense_Mutation_p.R238W|CACNA1G_uc002iro.1_Missense_Mutation_p.R238W|CACNA1G_uc002irp.1_Missense_Mutation_p.R238W|CACNA1G_uc002irq.1_Missense_Mutation_p.R238W|CACNA1G_uc002irr.1_Missense_Mutation_p.R238W|CACNA1G_uc002irs.1_Missense_Mutation_p.R238W|CACNA1G_uc002irt.1_Missense_Mutation_p.R238W|CACNA1G_uc002irv.1_Missense_Mutation_p.R238W|CACNA1G_uc002irw.1_Missense_Mutation_p.R238W|CACNA1G_uc002iru.1_Missense_Mutation_p.R238W|CACNA1G_uc002irx.1_Missense_Mutation_p.R151W|CACNA1G_uc002iry.1_Missense_Mutation_p.R151W|CACNA1G_uc002irz.1_Missense_Mutation_p.R151W|CACNA1G_uc002isa.1_Missense_Mutation_p.R151W|CACNA1G_uc002isb.1_Missense_Mutation_p.R151W|CACNA1G_uc002isc.1_Missense_Mutation_p.R151W|CACNA1G_uc002isd.1_Missense_Mutation_p.R151W|CACNA1G_uc002ise.1_Missense_Mutation_p.R151W|CACNA1G_uc002isf.1_Missense_Mutation_p.R151W|CACNA1G_uc002isg.1_Missense_Mutation_p.R151W|CACNA1G_uc002ish.1_Missense_Mutation_p.R151W|CACNA1G_uc002isi.1_Missense_Mutation_p.R151W	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	238	Extracellular (Potential).|I.				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	AGGGCTGCTTCGGAACCGATG	0.607													23	39					0	0	0.00333	0	0		T	48649364	T	T	48649364	3	4	20	1	0	0	0	0	1	0	0	0	2547	875	31	1	730	1	CACNA1G	17	48649364	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2512660	48649364	32545846	1491	18213											
ABCC3	8714	broad.mit.edu	37	chr17	48744971	48744971	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgatgagtgagatcctgaaCggcatcaaggtgctgaagct	11	9	13	8	1	1	5	1	5	0	1	2	6	2	5	1	2	3	3	1	2	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:48744971C>T	uc002isl.2	+	12	1568	c.1488C>T	c.(1486-1488)AAC>AAT	p.N496N	ABCC3_uc002isk.3_Silent_p.N496N	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	496	ABC transmembrane type-1 1.|Cytoplasmic (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	AGATCCTGAACGGCATCAAGG	0.587													12	58					0	0	0.013537	0	0		T	48744971	T	T	48744971	2	4	20	1	0	0	0	0	0	0	0	1	54	535	19	1		1	ABCC3	17	48744971	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	95607	48744971	32450239	1492	18214											
SPAG9	9043	broad.mit.edu	37	chr17	49098616	49098616	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaaccttcacaaatccttcGttttcttcctttaagggagt	9	16	6	10	1	2	0	1	0	1	0	5	1	4	1	3	1	1	2	3	1	3	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:49098616G>A	uc002itc.2	-	7	1103	c.894C>T	c.(892-894)AAC>AAT	p.N298N	SPAG9_uc002itb.2_Silent_p.N284N|SPAG9_uc002itd.2_Silent_p.N284N|SPAG9_uc002itf.2_Silent_p.N119N|SPAG9_uc002ita.2_Silent_p.N141N|SPAG9_uc002ite.2_Silent_p.N128N	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	298					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			CAAATCCTTCGTTTTCTTCCT	0.418													112	289					0	0	0.01441	0	0		A	49098616	A	A	49098616	2	1	20	1	0	0	0	0	0	0	0	1	15010	1136	40	1		1	SPAG9	17	49098616	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	353645	49098616	32096594	1493	18215											
ANKFN1	162282	broad.mit.edu	37	chr17	54554883	54554883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaaaaggagtcatcagcGtctctttcctggattatatc	11	13	7	10	1	4	0	3	0	1	0	7	2	5	2	1	2	1	0	1	2	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:54554883G>A	uc002iun.1	+	15	1852	c.1817G>A	c.(1816-1818)CGT>CAT	p.R606H		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	606										large_intestine(1)|ovary(1)	2						AGTCATCAGCGTCTCTTTCCT	0.363													30	91					0	0	0.008361	0	0		A	54554883	A	A	54554883	3	1	20	1	0	0	0	0	1	0	0	0	625	1145	40	1	1875	1	ANKFN1	17	54554883	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5456267	54554883	26640327	1494	18216											
COIL	8161	broad.mit.edu	37	chr17	55027965	55027965	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggagaactacatctctgaTtggcccagtctttcactgcc	8	13	8	12	0	3	2	1	1	2	1	4	3	3	2	2	2	3	0	2	2	2	4	rs143886618	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:55027965T>C	uc002iuu.2	-	2	669	c.638A>G	c.(637-639)AAT>AGT	p.N213S		NM_004645	NP_004636	P38432	COIL_HUMAN	coilin	213						Cajal body|nucleolus	protein C-terminus binding			ovary(1)	1	Breast(9;6.15e-08)					ACATCTCTGATTGGCCCAGTC	0.408													5	221					0	0	0.001984	0	0		C	55027965	C	C	55027965	3	2	20	1	0	0	0	0	1	0	0	0	3668	1493	52	3	1116	3	COIL	17	55027965	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	473082	55027965	26167245	1495	18217											
SEPT4	5414	broad.mit.edu	37	chr17	56599207	56599207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catgaattcaacatccaatgGccggagcctggggaacagga	13	6	12	10	1	1	1	1	1	0	0	2	4	2	4	3	5	3	0	3	5	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:56599207G>A	uc002iwm.1	-	7	933	c.805C>T	c.(805-807)CCA>TCA	p.P269S	SEPT4_uc002iwk.1_Missense_Mutation_p.P122S|SEPT4_uc010wnw.1_Missense_Mutation_p.P122S|SEPT4_uc002iwl.1_Missense_Mutation_p.P122S|SEPT4_uc002iwn.1_Missense_Mutation_p.P170S|SEPT4_uc002iwo.1_Missense_Mutation_p.P250S|SEPT4_uc002iwp.1_3'UTR|SEPT4_uc010wnx.1_Missense_Mutation_p.P284S|SEPT4_uc010wny.1_Missense_Mutation_p.P261S|SEPT4_uc010dcy.1_3'UTR	NM_004574	NP_004565	O43236	SEPT4_HUMAN	septin 4 isoform 1	269					apoptosis|cell cycle|cytokinesis|regulation of apoptosis	cytoskeleton|mitochondrion|nucleus	GTP binding|GTPase activity|protein binding|structural molecule activity				0	Medulloblastoma(34;0.127)|all_neural(34;0.237)					ACATCCAATGGCCGGAGCCTG	0.597													16	35					0	0	0.010504	0	0		A	56599207	A	A	56599207	3	1	20	1	0	0	0	0	1	0	0	0	14091	1203	42	2	655	2	SEPT4	17	56599207	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1571242	56599207	24596003	1496	18218											
TEX14	56155	broad.mit.edu	37	chr17	56690811	56690811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacactgaacaatgtgcCgatagtgatgcgctcgtaca	13	8	11	9	3	0	2	0	2	0	0	1	4	0	3	1	1	4	2	1	1	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:56690811C>T	uc010dcz.1	-	9	1112	c.994G>A	c.(994-996)GGC>AGC	p.G332S	TEX14_uc002iwr.1_Missense_Mutation_p.G326S|TEX14_uc002iws.1_Missense_Mutation_p.G326S|TEX14_uc010dda.1_Missense_Mutation_p.G106S	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	332	Protein kinase.					cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AACAATGTGCCGATAGTGATG	0.527													40	129					0	0	0.006999	0	0		T	56690811	T	T	56690811	3	4	20	1	0	0	0	0	1	0	0	0	15803	652	23	1	3599	1	TEX14	17	56690811	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	91604	56690811	24504399	1497	18219											
PPM1E	22843	broad.mit.edu	37	chr17	57057506	57057506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaagagaataatggagacaGcagcatggttgcccacaaat	17	6	11	7	0	0	2	0	0	0	2	0	5	0	2	1	2	3	3	1	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:57057506G>A	uc002iwx.2	+	7	1509	c.1382G>A	c.(1381-1383)AGC>AAC	p.S461N	PPM1E_uc010ddd.2_Missense_Mutation_p.S224N	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	470	PP2C-like.				protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			AATGGAGACAGCAGCATGGTT	0.483													15	53					0	0	0.006122	0	0		A	57057506	A	A	57057506	3	1	20	1	0	0	0	0	1	0	0	0	12360	971	34	2	1408	2	PPM1E	17	57057506	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	366695	57057506	24137704	1498	18220											
C17orf71	55181	broad.mit.edu	37	chr17	57289173	57289173	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactcattacctaaatcaggTagctaaaatttgttcagcat	14	13	5	9	0	3	0	3	0	0	0	3	0	3	0	1	1	3	4	1	1	6	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:57289173T>C	uc002ixi.2	+	1	1801	c.1759_splice	c.e1+2	p.G587_splice		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein						nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					CTAAATCAGGTAGCTAAAATT	0.338													5	80					0	0	0.000602	0	0		C	57289173	C	C	57289173	5	2	20	1	0	0	0	0	0	0	1	0	1881	1652	57	3	1763	3	C17orf71	17	57289173	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	231667	57289173	23906037	1499	18221											
DHX40	79665	broad.mit.edu	37	chr17	57679906	57679906	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgatttcccaaaagagacCtttgaaggccctaaacatga	15	9	8	9	0	0	4	0	3	0	1	1	5	1	4	3	1	1	0	3	1	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:57679906C>A	uc002ixn.1	+	15	1977	c.1830C>A	c.(1828-1830)ACC>ACA	p.T610T	DHX40_uc010woe.1_Silent_p.T533T|DHX40_uc010wof.1_Silent_p.T125T	NM_024612	NP_078888	Q8IX18	DHX40_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 40	610							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					CAAAAGAGACCTTTGAAGGCC	0.338													16	52					5.3912e-06	5.54096e-06	0.006122	1	0		A	57679906	A	A	57679906	2	1	20	1	0	0	0	0	0	0	0	1	4518	668	24	5		5	DHX40	17	57679906	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	390733	57679906	23515304	1500	18222											
STRADA	92335	broad.mit.edu	37	chr17	61780974	61780974	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctcagaactcccaatcGtccacctccagctcttccag	9	8	7	17	1	2	1	1	0	1	1	7	2	6	1	5	1	2	2	5	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:61780974G>A	uc002jbm.2	-	13	1440	c.1281C>T	c.(1279-1281)GAC>GAT	p.D427D	LIMD2_uc002jbl.3_5'Flank|STRADA_uc002jbn.2_Silent_p.D369D|STRADA_uc002jbo.2_Silent_p.D390D|STRADA_uc002jbp.2_3'UTR|STRADA_uc002jbq.2_Silent_p.D369D|STRADA_uc010wpq.1_3'UTR|STRADA_uc010wpr.1_3'UTR|STRADA_uc010ddw.2_Silent_p.D398D|STRADA_uc002jbr.2_3'UTR	NM_001003787	NP_001003787	Q7RTN6	STRAA_HUMAN	STE20-related kinase adaptor alpha isoform 1	427					activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|kinase binding|protein kinase activity			ovary(1)	1						ACTCCCAATCGTCCACCTCCA	0.592													8	18					0	0	0.006214	0	0		A	61780974	A	A	61780974	2	1	20	1	0	0	0	0	0	0	0	1	15349	1136	40	1		1	STRADA	17	61780974	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4101068	61780974	19414236	1501	18223											
SCN4A	6329	broad.mit.edu	37	chr17	62049563	62049563	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttggtcaagatggtgaTcatgatgaacatgctgaaca	13	10	12	6	0	2	5	2	4	0	1	2	5	2	5	0	2	3	3	0	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:62049563T>C	uc002jds.1	-	3	492	c.415A>G	c.(415-417)ATC>GTC	p.I139V		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	139	Helical; Name=S1 of repeat I; (Potential).|I.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	AAGATGGTGATCATGATGAAC	0.567													9	15					0	0	0.006214	0	0		C	62049563	C	C	62049563	3	2	20	1	0	0	0	0	1	0	0	0	13945	1435	50	3	5183	3	SCN4A	17	62049563	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	268589	62049563	19145647	1502	18224											
SMURF2	64750	broad.mit.edu	37	chr17	62587239	62587239	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgtatcattgtcatttggCccgagtttgcataaatccaa	11	14	7	9	1	2	0	2	0	0	0	3	1	3	0	2	1	1	3	2	1	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:62587239C>T	uc002jep.1	-	5	751	c.363G>A	c.(361-363)GGG>GGA	p.G121G	SMURF2_uc002jeq.1_5'UTR|SMURF2_uc002jer.1_5'UTR	NM_022739	NP_073576	Q9HAU4	SMUF2_HUMAN	SMAD specific E3 ubiquitin protein ligase 2	121					BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|membrane raft|nucleus|plasma membrane|ubiquitin ligase complex	identical protein binding|SMAD binding|ubiquitin-protein ligase activity			skin(3)|lung(1)	4	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)			TGTCATTTGGCCCGAGTTTGC	0.348													29	127					0	0	0.010818	0	0		T	62587239	T	T	62587239	2	4	20	1	0	0	0	0	0	0	0	1	14845	726	26	2		2	SMURF2	17	62587239	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	537676	62587239	18607971	1503	18225											
KIF19	124602	broad.mit.edu	37	chr17	72346594	72346594	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctggcatgggacagcttcGggagcagctcgccagcgcct	6	6	16	13	3	0	0	0	0	0	0	2	2	0	2	2	4	4	5	2	4	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:72346594G>A	uc002jkm.3	+	11	1406	c.1268G>A	c.(1267-1269)CGG>CAG	p.R423Q	KIF19_uc002jkj.2_Missense_Mutation_p.R423Q|KIF19_uc002jkk.2_Missense_Mutation_p.R381Q|KIF19_uc002jkl.2_Missense_Mutation_p.R381Q	NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	423					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						GGACAGCTTCGGGAGCAGCTC	0.652													5	8					0	0	0.001984	0	0		A	72346594	A	A	72346594	3	1	20	1	0	0	0	0	1	0	0	0	8298	1116	39	1	1310	1	KIF19	17	72346594	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	9759355	72346594	8848616	1504	18226											
NUP85	79902	broad.mit.edu	37	chr17	73227720	73227720	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagtacgcctcgggactgTttgctcatcccaggtaggaa	8	10	13	10	2	1	0	1	0	0	0	3	3	2	3	2	4	2	4	2	4	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:73227720T>C	uc002jng.1	+	13	1491	c.1231T>C	c.(1231-1233)TTT>CTT	p.F411L	NUP85_uc010dgd.1_Missense_Mutation_p.F366L|NUP85_uc010wrv.1_Missense_Mutation_p.F365L|NUP85_uc002jnh.1_Missense_Mutation_p.F14L	NM_024844	NP_079120	Q9BW27	NUP85_HUMAN	nucleoporin 85	411					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|nuclear membrane|Nup107-160 complex|spindle	protein binding			ovary(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		all cancers(21;3.45e-06)			CTCGGGACTGTTTGCTCATCC	0.547													9	139					0	0	0.008291	0	0		C	73227720	C	C	73227720	3	2	20	1	0	0	0	0	1	0	0	0	10789	1725	60	3	1281	3	NUP85	17	73227720	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	881126	73227720	7967490	1505	18227											
RECQL5	9400	broad.mit.edu	37	chr17	73654438	73654438	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtcccggtcattcctggaGtaatagagacggcaccagga	10	8	13	10	2	1	1	1	0	0	1	3	4	3	3	3	5	0	2	3	5	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:73654438G>A	uc010dgl.2	-	7	1245	c.1089C>T	c.(1087-1089)TAC>TAT	p.Y363Y	RECQL5_uc010dgk.2_Silent_p.Y336Y|RECQL5_uc002jpb.1_Silent_p.Y363Y|RECQL5_uc002joz.3_Silent_p.Y363Y|RECQL5_uc002jpa.3_Silent_p.Y363Y	NM_004259	NP_004250	O94762	RECQ5_HUMAN	RecQ protein-like 5 isoform 1	363	Helicase C-terminal.				DNA recombination|DNA repair	cytoplasm|nuclear membrane|nucleolus|nucleoplasm	ATP binding|ATP-dependent helicase activity|DNA helicase activity|nucleic acid binding			kidney(3)	3	all_cancers(13;2.73e-08)|Breast(9;6.04e-09)|all_epithelial(9;6.79e-09)		all cancers(21;1.15e-06)|Epithelial(20;2.19e-06)|Lung(188;0.101)|LUSC - Lung squamous cell carcinoma(166;0.112)			CATTCCTGGAGTAATAGAGAC	0.542								Other_identified_genes_with_known_or_suspected_DNA_repair_function					51	314					0	0	0.01441	0	0		A	73654438	A	A	73654438	2	1	20	1	0	0	0	0	0	0	0	1	13228	1024	36	4		4	RECQL5	17	73654438	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	426718	73654438	7540772	1506	18228											
RECQL5	9400	broad.mit.edu	37	chr17	73654499	73654499	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccggccagactcctggtagTacccagccatagacttggca	9	7	10	15	1	0	2	0	0	0	2	1	2	1	2	5	3	2	3	5	3	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:73654499T>C	uc010dgl.2	-	7	1184	c.1028A>G	c.(1027-1029)TAC>TGC	p.Y343C	RECQL5_uc010dgk.2_Missense_Mutation_p.Y316C|RECQL5_uc002jpb.1_Missense_Mutation_p.Y343C|RECQL5_uc002joz.3_Missense_Mutation_p.Y343C|RECQL5_uc002jpa.3_Missense_Mutation_p.Y343C	NM_004259	NP_004250	O94762	RECQ5_HUMAN	RecQ protein-like 5 isoform 1	343	Helicase C-terminal.				DNA recombination|DNA repair	cytoplasm|nuclear membrane|nucleolus|nucleoplasm	ATP binding|ATP-dependent helicase activity|DNA helicase activity|nucleic acid binding			kidney(3)	3	all_cancers(13;2.73e-08)|Breast(9;6.04e-09)|all_epithelial(9;6.79e-09)		all cancers(21;1.15e-06)|Epithelial(20;2.19e-06)|Lung(188;0.101)|LUSC - Lung squamous cell carcinoma(166;0.112)			CTCCTGGTAGTACCCAGCCAT	0.547								Other_identified_genes_with_known_or_suspected_DNA_repair_function					8	151					0	0	0.007413	0	0		C	73654499	C	C	73654499	3	2	20	1	0	0	0	0	1	0	0	0	13228	1638	57	3	2090	3	RECQL5	17	73654499	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	61	73654499	7540711	1507	18229											
UBE2O	63893	broad.mit.edu	37	chr17	74395938	74395938	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cttccatggaatggtcccggGaacactgggtgtctggggag	7	9	16	9	1	1	0	0	0	1	0	3	3	3	3	2	6	1	0	2	6	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:74395938G>C	uc002jrm.3	-	9	1285	c.1220C>G	c.(1219-1221)TCC>TGC	p.S407C	UBE2O_uc002jrn.3_Missense_Mutation_p.S407C|UBE2O_uc002jrl.3_Missense_Mutation_p.S10C	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	407							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						ATGGTCCCGGGAACACTGGGT	0.602													22	165					0	0	0.00278	0	0		C	74395938	C	C	74395938	3	2	20	1	0	0	0	0	1	0	0	0	16894	1174	41	5	2698	5	UBE2O	17	74395938	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	741439	74395938	6799272	1508	18230											
AANAT	15	broad.mit.edu	37	chr17	74465822	74465822	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgcaccgcgccttccggCagcagggcaggggccccatc	5	4	14	18	4	0	0	0	0	0	0	2	0	1	0	6	4	2	4	6	4	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:74465822C>T	uc002jro.2	+	4	628	c.394C>T	c.(394-396)CAG>TAG	p.Q132*	AANAT_uc010wte.1_RNA	NM_001088	NP_001079	Q16613	SNAT_HUMAN	arylalkylamine N-acetyltransferase	132	N-acetyltransferase.|Acetyl-CoA binding (By similarity).				circadian rhythm|melatonin biosynthetic process	cytosol	aralkylamine N-acetyltransferase activity				0						CGCCTTCCGGCAGCAGGGCAG	0.706													4	5					0	0	0.009096	0	0		T	74465822	T	T	74465822	4	4	20	1	0	0	0	0	0	1	0	0	18	711	25	2	543	2	AANAT	17	74465822	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	69884	74465822	6729388	1509	18231											
DNAH17	8632	broad.mit.edu	37	chr17	76421579	76421579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatgatggccgtgaggaacGactgggggttgaagaagccg	10	6	18	7	3	0	4	0	3	0	1	0	6	0	5	2	4	2	2	2	4	3	1	rs149945771		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:76421579G>A	uc010dhp.1	-	25	4211	c.3989C>T	c.(3988-3990)TCG>TTG	p.S1330L	DNAH17_uc002jvq.2_Missense_Mutation_p.S615L|DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			CGTGAGGAACGACTGGGGGTT	0.602													7	38					0	0	0.00308	0	0		A	76421579	A	A	76421579	3	1	20	1	0	0	0	0	1	0	0	0	4607	1059	37	1	407	1	DNAH17	17	76421579	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1955757	76421579	4773631	1510	18232											
AATK	9625	broad.mit.edu	37	chr17	79095107	79095107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcctggcctgcaggccgtCgctggacgtgtcggtgaaga	5	8	15	13	4	0	2	0	1	0	1	3	3	1	3	4	4	1	2	4	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:79095107C>T	uc010dia.2	-	11	2709	c.2629G>A	c.(2629-2631)GAC>AAC	p.D877N	AATK_uc010dhz.2_RNA	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	877						integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			TGCAGGCCGTCGCTGGACGTG	0.672													4	24					0	0	0.001168	0	0		T	79095107	T	T	79095107	3	4	20	1	0	0	0	0	1	0	0	0	26	884	31	1	1511	1	AATK	17	79095107	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2673528	79095107	2100103	1511	18233											
FASN	2194	broad.mit.edu	37	chr17	80043423	80043423	+	Frame_Shift_Del	DEL	G	-	-																															gaaggccacgatgtccccgaGggggtgcccccggagcagtg																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr17:80043423delG	uc002kdu.2	-	23	4174	c.4057delC	c.(4057-4059)CTCfs	p.L1353fs	FASN_uc002kdw.1_Frame_Shift_Del_p.L569fs	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	1353				LGDI -> SGH (in Ref. 2; AAA73576).	energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	ATGTCCCCGAGGGGGTGCCCC	0.706													6	11	---	---	---	---						.	-	80043423	-	-	80043423	7	5	20	1	0	1	0	1	0	0	0	0	5697	1000	35	0	3562	0	FASN	17	80043423	Frame_Shift_Del	DEL	G	TCGA-BR-4362-01A-01D-1158-08	948316	80043423	1151787	1512	18234											
COLEC12	81035	broad.mit.edu	37	chr18	331668	331668	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagcttctgagtacttacTtgtagtctggagatgtccca	9	13	11	8	0	2	2	0	1	2	1	3	4	3	3	1	2	3	3	1	2	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:331668T>C	uc002kkm.2	-	8	2278	c.2063A>G	c.(2062-2064)AAA>AGA	p.K688R		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	688	Extracellular (Potential).|C-type lectin.				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				GAGTACTTACTTGTAGTCTGG	0.488													16	55					0	0	0.004007	0	0		C	331668	C	C	331668	3	2	20	1	0	0	0	0	1	0	0	0	3715	1623	56	3	177	3	COLEC12	18	331668	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08		331668	77745580	1513	18235											
COLEC12	81035	broad.mit.edu	37	chr18	348092	348092	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcaggtcactttccactgCtgtgagcttgtcatcatagg	7	15	9	10	0	4	1	4	1	0	0	5	1	5	1	1	2	2	2	1	2	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:348092C>A	uc002kkm.2	-	4	468	c.253G>T	c.(253-255)GCA>TCA	p.A85S		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	85	Potential.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				CTTTCCACTGCTGTGAGCTTG	0.388													25	55					2.65835e-16	2.82868e-16	0.007291	1	0		A	348092	A	A	348092	3	1	20	1	0	0	0	0	1	0	0	0	3715	797	28	5	2003	5	COLEC12	18	348092	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	16424	348092	77729156	1514	18236											
YES1	7525	broad.mit.edu	37	chr18	732942	732942	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgcagcttcaggagctgTccatttgattggaaattttg	9	14	11	7	0	1	1	1	1	0	0	2	3	2	3	1	2	3	3	1	2	1	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:732942T>C	uc002kky.2	-	11	1536	c.1315A>G	c.(1315-1317)ACA>GCA	p.T439A	YES1_uc002kkz.2_Missense_Mutation_p.T439A	NM_005433	NP_005424	P07947	YES_HUMAN	viral oncogene yes-1 homolog 1	439	Protein kinase.				blood coagulation|leukocyte migration|regulation of vascular permeability|T cell costimulation	cytosol|plasma membrane	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|ovary(1)	3					Dasatinib(DB01254)	TCAGGAGCTGTCCATTTGATT	0.373													54	108					0	0	0.01441	0	0		C	732942	C	C	732942	3	2	20	1	0	0	0	0	1	0	0	0	17500	1667	58	3	324	3	YES1	18	732942	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	384850	732942	77344306	1515	18237											
LPIN2	9663	broad.mit.edu	37	chr18	2937883	2937883	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agggctctgggtttgggcttCactatggtacagacagtgtc	7	12	14	8	0	2	1	1	0	1	1	3	1	2	1	0	4	1	4	0	4	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:2937883C>T	uc002klo.2	-	7	1214	c.975G>A	c.(973-975)GTG>GTA	p.V325V		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	325					fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		GTTTGGGCTTCACTATGGTAC	0.473													27	104					0	0	0.005443	0	0		T	2937883	T	T	2937883	2	4	20	1	0	0	0	0	0	0	0	1	8937	813	29	4		4	LPIN2	18	2937883	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2204941	2937883	75139365	1516	18238											
LRRC30	339291	broad.mit.edu	37	chr18	7231916	7231916	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtgtagactggtgaggatCgcctggaatcccatggacaa	10	9	13	9	1	0	2	0	1	0	1	2	5	1	5	2	4	0	1	2	4	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:7231916C>T	uc010wzk.1	+	1	780	c.780C>T	c.(778-780)ATC>ATT	p.I260I		NM_001105581	NP_001099051	A6NM36	LRC30_HUMAN	leucine rich repeat containing 30	260										ovary(1)|liver(1)	2						TGGTGAGGATCGCCTGGAATC	0.587													21	190					0	0	0.00333	0	0		T	7231916	T	T	7231916	2	4	20	1	0	0	0	0	0	0	0	1	9003	874	31	1		1	LRRC30	18	7231916	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4294033	7231916	70845332	1517	18239											
KIAA0802	23255	broad.mit.edu	37	chr18	8824926	8824926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacaggaccgaggtggggCgggcagggcacgaggacagc	9	1	20	11	4	0	0	0	0	0	0	0	5	0	2	2	7	1	2	2	7	0	0	rs141975395	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:8824926C>T	uc002knr.2	+	15	3560	c.3418C>T	c.(3418-3420)CGG>TGG	p.R1140W	KIAA0802_uc002knq.2_Missense_Mutation_p.R1099W|KIAA0802_uc002kns.2_Missense_Mutation_p.R480W	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1450											0						CGAGGTGGGGCGGGCAGGGCA	0.617													26	71					0	0	0.00632	0	0		T	8824926	T	T	8824926	3	4	20	1	0	0	0	0	1	0	0	0	8210	759	27	1	3468	1	KIAA0802	18	8824926	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1593010	8824926	69252322	1518	18240											
FAM38B	63895	broad.mit.edu	37	chr18	10696408	10696408	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accccaaaggcccaaaagccGaagacaatgatgatgaagtc	17	4	9	11	1	0	4	0	3	0	1	1	5	0	4	4	1	1	0	4	1	6	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:10696408G>A	uc002kor.3	-	4	629	c.489C>T	c.(487-489)TTC>TTT	p.F163F	FAM38B_uc002koq.2_Silent_p.F61F	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2206	Helical; (Potential).					integral to membrane	ion channel activity			ovary(1)	1						CCCAAAAGCCGAAGACAATGA	0.547													26	44					0	0	0.005443	0	0		A	10696408	A	A	10696408	2	1	20	1	0	0	0	0	0	0	0	1	5569	1049	37	1		1	FAM38B	18	10696408	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1871482	10696408	67380840	1519	18241											
CHMP1B	57132	broad.mit.edu	37	chr18	11851987	11851987	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggaaatggcagatgaGgcgggcctcgacctcaacat	11	6	12	12	2	1	2	1	1	0	1	3	4	2	3	3	4	1	1	3	4	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:11851987G>T	uc002kqe.2	+	1	599	c.477G>T	c.(475-477)GAG>GAT	p.E159D	GNAL_uc002kqc.2_Intron|GNAL_uc010dkz.2_Intron|GNAL_uc002kqd.2_Intron	NM_020412	NP_065145	Q7LBR1	CHM1B_HUMAN	chromatin modifying protein 1B	159				DE->AA: Diminishes interaction with VPS4B.	cell cycle|cell division|protein transport	cytosol|late endosome membrane	protein domain specific binding				0						TGGCAGATGAGGCGGGCCTCG	0.617													13	13					1.05317e-09	1.1023e-09	0.00245	1	0		T	11851987	T	T	11851987	3	4	20	1	0	0	0	0	1	0	0	0	3356	991	35	5	479	5	CHMP1B	18	11851987	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1155579	11851987	66225261	1520	18242											
C18orf19	125228	broad.mit.edu	37	chr18	13681823	13681823	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaacatgttgcttccctTgcttatggcgaaggactcct	9	13	9	10	1	0	1	0	1	0	0	2	3	2	2	2	2	3	3	2	2	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:13681823T>C	uc010dlh.2	-	3	686	c.254A>G	c.(253-255)CAA>CGA	p.Q85R	C18orf19_uc010dlg.2_Missense_Mutation_p.Q85R|C18orf19_uc010dli.2_Missense_Mutation_p.Q85R|C18orf19_uc002ksj.3_Missense_Mutation_p.Q85R|C18orf19_uc010dlj.2_Intron	NM_001098801	NP_001092271	Q96ND0	CR019_HUMAN	hypothetical protein LOC125228	85						integral to membrane				breast(2)	2						TTGCTTCCCTTGCTTATGGCG	0.478													5	194					0	0	0.001168	0	0		C	13681823	C	C	13681823	3	2	20	1	0	0	0	0	1	0	0	0	1899	1812	63	3	576	3	C18orf19	18	13681823	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1829836	13681823	64395425	1521	18243											
LAMA3	3909	broad.mit.edu	37	chr18	21422380	21422380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaagtgaccctgagaggaCgtgtaccacacctgggccga	11	6	12	12	2	1	2	1	2	0	1	1	5	1	3	4	2	1	1	4	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:21422380C>T	uc002kuq.2	+	28	3444	c.3358C>T	c.(3358-3360)CGT>TGT	p.R1120C	LAMA3_uc002kur.2_Missense_Mutation_p.R1120C	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1120	Domain IV 1 (domain IV B).				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCTGAGAGGACGTGTACCACA	0.488													42	161					0	0	0.00874	0	0		T	21422380	T	T	21422380	3	4	20	1	0	0	0	0	1	0	0	0	8623	536	19	1	3468	1	LAMA3	18	21422380	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	7740557	21422380	56654868	1522	18244											
DSC2	1824	broad.mit.edu	37	chr18	28654830	28654830	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggctgttatcattcacGtcttgaagtataatgcccag	11	13	9	8	1	3	1	2	1	1	0	3	1	3	1	1	1	1	3	1	1	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:28654830G>A	uc002kwl.3	-	12	2161	c.1707C>T	c.(1705-1707)GAC>GAT	p.D569D	DSC2_uc002kwk.3_Silent_p.D569D	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	569	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			TATCATTCACGTCTTGAAGTA	0.398													19	30					0	0	0.010504	0	0		A	28654830	A	A	28654830	2	1	20	1	0	0	0	0	0	0	0	1	4772	1136	40	1		1	DSC2	18	28654830	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	7232450	28654830	49422418	1523	18245											
FAM59A	64762	broad.mit.edu	37	chr18	29867432	29867432	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggactgggtgagctcatcGcgggcgtagctgagcgaatt	9	8	16	8	4	1	2	1	2	0	0	2	4	1	3	0	3	3	3	0	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:29867432G>A	uc002kxl.2	-	4	1184	c.1128C>T	c.(1126-1128)CGC>CGT	p.R376R	FAM59A_uc002kxk.1_Silent_p.R376R	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	376										ovary(1)|skin(1)	2						TGAGCTCATCGCGGGCGTAGC	0.562													22	57					0	0	0.014323	0	0		A	29867432	A	A	29867432	2	1	20	1	0	0	0	0	0	0	0	1	5606	1074	38	1		1	FAM59A	18	29867432	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1212602	29867432	48209816	1524	18246											
KLHL14	57565	broad.mit.edu	37	chr18	30260447	30260447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaaagaggacacatagcGccattcattcgtttctaggt	11	11	10	9	2	2	1	1	0	1	1	3	2	2	2	1	3	1	2	1	3	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:30260447G>A	uc002kxm.1	-	6	1742	c.1354C>T	c.(1354-1356)CGC>TGC	p.R452C	KLHL14_uc010dmd.1_5'UTR	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	452	Kelch 3.					cytosol|endoplasmic reticulum membrane		p.R452C(1)		ovary(1)	1						GACACATAGCGCCATTCATTC	0.468													7	108					0	0	0.001984	0	0		A	30260447	A	A	30260447	3	1	20	1	0	0	0	0	1	0	0	0	8386	1087	38	1	548	1	KLHL14	18	30260447	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	393015	30260447	47816801	1525	18247											
DTNA	1837	broad.mit.edu	37	chr18	32346001	32346001	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtttgttcagaagaaatgCaattgtaagtatgccagttg	13	13	11	4	0	1	2	1	0	0	2	1	2	1	2	1	1	2	6	1	1	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:32346001C>T	uc010dmn.1	+	2	145	c.144C>T	c.(142-144)TGC>TGT	p.C48C	DTNA_uc002kxu.2_Silent_p.C48C|DTNA_uc010xbx.1_Silent_p.C48C|DTNA_uc002kxv.3_Silent_p.C48C|DTNA_uc002kxw.2_Silent_p.C48C|DTNA_uc002kxx.2_Silent_p.C48C|DTNA_uc010dmj.2_Silent_p.C48C|DTNA_uc002kxz.2_Silent_p.C48C|DTNA_uc002kxy.2_Silent_p.C48C|DTNA_uc010dmk.1_RNA|DTNA_uc010dml.2_Silent_p.C48C|DTNA_uc002kyb.3_Silent_p.C48C|DTNA_uc010dmm.2_Silent_p.C48C	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	48	Interaction with MAGEE1 (By similarity).				neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						AGAAGAAATGCAATTGTAAGT	0.388													14	26					0	0	0.003163	0	0		T	32346001	T	T	32346001	2	4	20	1	0	0	0	0	0	0	0	1	4794	718	25	2		2	DTNA	18	32346001	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2085554	32346001	45731247	1526	18248											
DTNA	1837	broad.mit.edu	37	chr18	32391993	32391993	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgaccaattccttcgggaAgttctcaaactacccacggc	11	10	7	13	2	1	1	1	1	1	0	4	2	2	2	3	2	2	1	3	2	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:32391993A>C	uc010dmn.1	+	5	520	c.519A>C	c.(517-519)GAA>GAC	p.E173D	DTNA_uc002kxu.2_Missense_Mutation_p.E173D|DTNA_uc010xbx.1_Missense_Mutation_p.E173D|DTNA_uc002kxv.3_Missense_Mutation_p.E173D|DTNA_uc002kxw.2_Missense_Mutation_p.E173D|DTNA_uc002kxx.2_Missense_Mutation_p.E173D|DTNA_uc010dmj.2_Missense_Mutation_p.E173D|DTNA_uc002kxz.2_Missense_Mutation_p.E173D|DTNA_uc002kxy.2_Missense_Mutation_p.E173D|DTNA_uc010dmk.1_RNA|DTNA_uc010dml.2_Missense_Mutation_p.E173D|DTNA_uc002kyb.3_Missense_Mutation_p.E173D|DTNA_uc010dmm.2_Missense_Mutation_p.E173D	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	173	Interaction with MAGEE1 (By similarity).				neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						TCCTTCGGGAAGTTCTCAAAC	0.408													29	98					0	0	0.007291	0	0		C	32391993	C	C	32391993	3	2	20	1	0	0	0	0	1	0	0	0	4794	69	3	5	537	5	DTNA	18	32391993	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	45992	32391993	45685255	1527	18249											
SLC14A2	8170	broad.mit.edu	37	chr18	43205723	43205723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaggagtaaaaggaaagacGacggggtggcccatcgggac	15	3	16	7	3	0	1	0	0	0	1	1	5	0	4	1	6	0	1	1	6	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:43205723G>A	uc010dnj.2	+	4	547	c.226G>A	c.(226-228)GAC>AAC	p.D76N	SLC14A2_uc002lbb.2_Missense_Mutation_p.D76N|SLC14A2_uc002lbe.2_Missense_Mutation_p.D76N	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	76						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						AAGGAAAGACGACGGGGTGGC	0.512													10	17					0	0	0.008291	0	0		A	43205723	A	A	43205723	3	1	20	1	0	0	0	0	1	0	0	0	14422	1058	37	1	232	1	SLC14A2	18	43205723	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	10813730	43205723	34871525	1528	18250											
SLC14A2	8170	broad.mit.edu	37	chr18	43262354	43262354	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgctcctgacgaccaataAccccgccatctacaagctcc	10	7	5	19	2	1	1	0	1	1	0	3	2	3	1	7	0	4	2	7	0	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:43262354A>C	uc010dnj.2	+	21	2954	c.2633A>C	c.(2632-2634)AAC>ACC	p.N878T	SLC14A2_uc002lbe.2_Missense_Mutation_p.N878T	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	878						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						ACGACCAATAACCCCGCCATC	0.537													9	310					0	0	0.003163	0	0		C	43262354	C	C	43262354	3	2	20	1	0	0	0	0	1	0	0	0	14422	43	2	5	2707	5	SLC14A2	18	43262354	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	56631	43262354	34814894	1529	18251											
KIAA1632	57724	broad.mit.edu	37	chr18	43532417	43532417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaacagctgaactactgaGcaatgcatagatgtaagact	16	8	9	8	0	0	5	0	2	0	3	0	5	0	5	0	0	6	4	0	0	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:43532417G>A	uc002lbm.2	-	3	1301	c.1201C>T	c.(1201-1203)CTC>TTC	p.L401F	KIAA1632_uc002lbo.1_Missense_Mutation_p.L401F	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	401					autophagy						0						GAACTACTGAGCAATGCATAG	0.423													52	104					0	0	0.01441	0	0		A	43532417	A	A	43532417	3	1	20	1	0	0	0	0	1	0	0	0	8265	971	34	2	6706	2	KIAA1632	18	43532417	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	270063	43532417	34544831	1530	18252											
RNF165	494470	broad.mit.edu	37	chr18	44036544	44036544	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagtggctcgccatgagcaAgaaatgccccatctgccgag	10	6	11	14	2	1	2	0	1	1	1	2	3	1	2	5	1	3	2	5	1	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:44036544A>C	uc002lcb.1	+	8	1037	c.986A>C	c.(985-987)AAG>ACG	p.K329T	RNF165_uc002lby.1_Missense_Mutation_p.K262T|RNF165_uc010dnn.1_Missense_Mutation_p.K125T	NM_152470	NP_689683	Q6ZSG1	RN165_HUMAN	ring finger protein 165	329	RING-type; atypical.						zinc ion binding				0				READ - Rectum adenocarcinoma(1;0.0873)		GCCATGAGCAAGAAATGCCCC	0.577													22	65					0	0	0.00333	0	0		C	44036544	C	C	44036544	3	2	20	1	0	0	0	0	1	0	0	0	13481	72	3	5	1016	5	RNF165	18	44036544	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	504127	44036544	34040704	1531	18253											
MYO5B	4645	broad.mit.edu	37	chr18	47511134	47511134	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcaaagtcctcagcatcGtccacaccctcgatggaagt	10	10	7	14	2	2	0	2	0	1	0	7	2	4	1	3	1	1	1	3	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:47511134G>A	uc002leb.2	-	8	1188	c.900C>T	c.(898-900)GAC>GAT	p.D300D	MYO5B_uc002lec.1_Silent_p.D299D	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	300	Myosin head-like.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		CCTCAGCATCGTCCACACCCT	0.557													27	59					0	0	0.008361	0	0		A	47511134	A	A	47511134	2	1	20	1	0	0	0	0	0	0	0	1	10097	1136	40	1		1	MYO5B	18	47511134	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3474590	47511134	30566114	1532	18254											
DCC	1630	broad.mit.edu	37	chr18	50278453	50278453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaaagctttcacagcactgCgcttcctctcagaaccttct	9	13	5	14	1	3	1	2	0	2	1	5	1	4	1	2	0	4	3	2	0	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:50278453C>T	uc002lfe.1	+	2	708	c.121C>T	c.(121-123)CGC>TGC	p.R41C	DCC_uc010xdr.1_5'UTR	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	41	Extracellular (Potential).|Ig-like C2-type 1.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		CACAGCACTGCGCTTCCTCTC	0.478													12	30					0	0	0.010729	0	0		T	50278453	T	T	50278453	3	4	20	1	0	0	0	0	1	0	0	0	4285	768	27	1	127	1	DCC	18	50278453	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2767319	50278453	27798795	1533	18255											
ZNF532	55205	broad.mit.edu	37	chr18	56586354	56586354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccatcgcggctctcagcGctaaaaaggcggcttcagac	9	7	11	14	4	2	1	2	0	1	1	4	1	2	1	1	3	2	3	1	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:56586354G>A	uc002lho.2	+	4	1382	c.835G>A	c.(835-837)GCT>ACT	p.A279T	ZNF532_uc002lhp.2_Missense_Mutation_p.A277T|ZNF532_uc010xeg.1_Missense_Mutation_p.A277T|ZNF532_uc002lhr.2_Missense_Mutation_p.A277T|ZNF532_uc002lhs.2_Missense_Mutation_p.A277T	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	279					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						GGCTCTCAGCGCTAAAAAGGC	0.557													43	121					0	0	0.01441	0	0		A	56586354	A	A	56586354	3	1	20	1	0	0	0	0	1	0	0	0	17997	1087	38	1	837	1	ZNF532	18	56586354	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6307901	56586354	21490894	1534	18256											
HMSD	284293	broad.mit.edu	37	chr18	61621687	61621687	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaagatggagatattcatCgaggttttcagtcacttctt	10	15	10	6	1	4	3	3	1	1	2	5	5	4	3	0	2	0	1	0	2	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:61621687C>T	uc010dqj.2	+	3	267	c.118C>T	c.(118-120)CGA>TGA	p.R40*		NM_001123366	NP_001116838	A8MTL9	HMSD_HUMAN	histocompatibility (minor) serpin domain	40						extracellular region	serine-type endopeptidase inhibitor activity				0						AGATATTCATCGAGGTTTTCA	0.348													42	146					0	0	0.01441	0	0		T	61621687	T	T	61621687	4	4	20	1	0	0	0	0	0	1	0	0	7262	876	31	1	124	1	HMSD	18	61621687	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	5035333	61621687	16455561	1535	18257											
DSEL	92126	broad.mit.edu	37	chr18	65180462	65180462	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcatgtcctgggttaaaacTtctccacccatcaatccagg	10	11	6	14	0	3	0	2	0	1	0	6	0	5	0	4	2	1	1	4	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:65180462T>G	uc002lke.1	-	2	2638	c.1414A>C	c.(1414-1416)AGT>CGT	p.S472R		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	462						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				GGGTTAAAACTTCTCCACCCA	0.443													10	97					0	0	0.010729	0	0		G	65180462	G	G	65180462	3	3	20	1	0	0	0	0	1	0	0	0	4781	1609	56	5	2258	5	DSEL	18	65180462	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3558775	65180462	12896786	1536	18258											
SOCS6	9306	broad.mit.edu	37	chr18	67993058	67993058	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttgcaaagcaaggatggtActggggaccaatcacacgtt	13	8	11	9	1	1	0	1	0	0	0	1	2	1	2	1	4	3	4	1	4	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:67993058A>G	uc002lkr.1	+	2	1470	c.1154A>G	c.(1153-1155)TAC>TGC	p.Y385C	SOCS6_uc010dqq.2_Missense_Mutation_p.Y385C	NM_004232	NP_004223	O14544	SOCS6_HUMAN	suppressor of cytokine signaling 6	385	SH2.				defense response|JAK-STAT cascade|negative regulation of signal transduction|regulation of growth	cytoplasm				large_intestine(1)|lung(1)	2		Esophageal squamous(42;0.129)|Colorectal(73;0.152)				CAAGGATGGTACTGGGGACCA	0.488													7	75					0	0	0.00308	0	0		G	67993058	G	G	67993058	3	3	20	1	0	0	0	0	1	0	0	0	14943	391	14	3	1156	3	SOCS6	18	67993058	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2812596	67993058	10084190	1537	18259											
ZNF236	7776	broad.mit.edu	37	chr18	74649204	74649204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcatgtcctcgtcgggcGtgggaggtgacgctagtgtc	4	11	17	9	4	1	1	1	1	0	0	5	2	2	2	1	4	0	1	1	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:74649204G>A	uc002lmi.2	+	26	4879	c.4681G>A	c.(4681-4683)GTG>ATG	p.V1561M	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1561					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CTCGTCGGGCGTGGGAGGTGA	0.542													17	62					0	0	0.007413	0	0		A	74649204	A	A	74649204	3	1	20	1	0	0	0	0	1	0	0	0	17814	1145	40	1	4783	1	ZNF236	18	74649204	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	6656146	74649204	3428044	1538	18260											
KCNG2	26251	broad.mit.edu	37	chr18	77659062	77659062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagtgctcccccaagtgccGcagcctgttcgtgctggaga	6	8	13	14	3	0	1	0	0	0	1	2	3	1	1	4	1	4	4	4	1	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:77659062G>A	uc010xfl.1	+	2	647	c.647G>A	c.(646-648)CGC>CAC	p.R216H		NM_012283	NP_036415	Q9UJ96	KCNG2_HUMAN	potassium voltage-gated channel, subfamily G,	216					energy reserve metabolic process|regulation of heart contraction|regulation of insulin secretion	voltage-gated potassium channel complex	delayed rectifier potassium channel activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;6.92e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0244)		CCCAAGTGCCGCAGCCTGTTC	0.706													4	15					0	0	0.000602	0	0		A	77659062	A	A	77659062	3	1	20	1	0	0	0	0	1	0	0	0	8044	1087	38	1	653	1	KCNG2	18	77659062	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3009858	77659062	418186	1539	18261											
PQLC1	80148	broad.mit.edu	37	chr18	77679327	77679327	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtgatgtagcccgccacGcccgtgaaggccaggacgca	9	5	14	13	4	0	2	0	2	0	0	0	3	0	3	4	3	1	2	4	3	3	2	rs34425104	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr18:77679327G>A	uc002lnl.2	-	5	637	c.465C>T	c.(463-465)GGC>GGT	p.G155G	PQLC1_uc010dre.2_Silent_p.G72G|PQLC1_uc002lnk.2_Silent_p.G137G|PQLC1_uc010xfm.1_Intron	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	155	Helical; (Potential).					integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		AGCCCGCCACGCCCGTGAAGG	0.632													12	40					0	0	0.00499	0	0		A	77679327	A	A	77679327	2	1	20	1	0	0	0	0	0	0	0	1	12440	1074	38	1		1	PQLC1	18	77679327	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	20265	77679327	397921	1540	18262											
PPAP2C	8612	broad.mit.edu	37	chr19	288132	288132	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtaaaatcctcgcttgtacGgggcgttcaccagcgtcagg	9	9	12	11	4	2	0	2	0	0	0	4	0	3	0	2	3	2	4	2	3	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:288132G>A	uc002loi.2	-	2	191	c.92C>T	c.(91-93)CCG>CTG	p.P31L	PPAP2C_uc002loh.2_Missense_Mutation_p.P52L|PPAP2C_uc002loj.2_5'UTR	NM_003712	NP_003703	O43688	LPP2_HUMAN	phosphatidic acid phosphatase type 2C isoform 1	31					sphingolipid metabolic process	integral to membrane|plasma membrane	phosphatidate phosphatase activity|phosphoprotein phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCGCTTGTACGGGGCGTTCAC	0.627													27	79					0	0	0.007291	0	0		A	288132	A	A	288132	3	1	20	1	0	0	0	0	1	0	0	0	12311	1116	39	1	794	1	PPAP2C	19	288132	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08		288132	58840851	1541	18263											
MIER2	54531	broad.mit.edu	37	chr19	313553	313553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccggccatctcgtgccaaCgccgcttcaccgccctgtac	5	7	9	20	5	2	0	1	0	1	0	3	0	2	0	6	1	3	2	6	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:313553C>T	uc002lok.1	-	8	755	c.746G>A	c.(745-747)CGT>CAT	p.R249H		NM_017550	NP_060020	Q8N344	MIER2_HUMAN	mesoderm induction early response 1, family	249	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		all_cancers(10;1.05e-30)|all_epithelial(18;3.04e-19)|Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;2.49e-05)|all_lung(49;4.36e-05)|Breast(49;0.000304)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCGTGCCAACGCCGCTTCAC	0.652													30	93					0	0	0.00632	0	0		T	313553	T	T	313553	3	4	20	1	0	0	0	0	1	0	0	0	9599	536	19	1	919	1	MIER2	19	313553	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	25421	313553	58815430	1542	18264											
THEG	51298	broad.mit.edu	37	chr19	362241	362241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcacacttttctggtgatgCttttgggggtggcaagctca	7	14	12	8	0	3	1	2	1	1	0	3	1	3	1	0	4	2	3	0	4	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:362241C>T	uc002lol.2	-	8	1138	c.1099G>A	c.(1099-1101)GCA>ACA	p.A367T	THEG_uc002lom.2_Missense_Mutation_p.A343T	NM_016585	NP_057669	Q9P2T0	THEG_HUMAN	Theg homolog isoform 1	367					cell differentiation|chaperone-mediated protein complex assembly|multicellular organismal development|spermatogenesis	nucleus	protein binding			ovary(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCTGGTGATGCTTTTGGGGGT	0.577													20	145					0	0	0.014323	0	0		T	362241	T	T	362241	3	4	20	1	0	0	0	0	1	0	0	0	15882	797	28	2	44	2	THEG	19	362241	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	48688	362241	58766742	1543	18265											
BSG	682	broad.mit.edu	37	chr19	580705	580705	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacgagggggagacggccAtgctggtctgcaagtcagag	10	6	16	9	2	3	2	2	0	1	2	3	4	3	2	1	4	3	2	1	4	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:580705A>G	uc002loz.2	+	5	813	c.715A>G	c.(715-717)ATG>GTG	p.M239V	BSG_uc002loy.2_Missense_Mutation_p.M59V|BSG_uc002lpa.2_Missense_Mutation_p.M123V|BSG_uc002lpb.2_RNA|BSG_uc010drr.2_Missense_Mutation_p.M123V|BSG_uc002lpc.2_Missense_Mutation_p.M286V|BSG_uc002lpd.2_5'Flank	NM_001728	NP_001719	P35613	BASI_HUMAN	basigin isoform 1 precursor	239	Extracellular (Potential).|Ig-like V-type.				blood coagulation|cell surface receptor linked signaling pathway|leukocyte migration|pyruvate metabolic process	Golgi membrane|integral to membrane|melanosome	lactate transmembrane transporter activity|mannose binding|protein binding				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGAGACGGCCATGCTGGTCTG	0.602													6	57					0	0	0.001168	0	0		G	580705	G	G	580705	3	3	20	1	0	0	0	0	1	0	0	0	1532	217	8	3	769	3	BSG	19	580705	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	218464	580705	58548278	1544	18266											
POLRMT	5442	broad.mit.edu	37	chr19	632888	632888	+	Frame_Shift_Del	DEL	G	-	-																															gcggtcttggtcttgctcctGggggctggcggacgagctcc																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:632888delG	uc002lpf.1	-	2	195	c.139delC	c.(139-141)CAGfs	p.Q47fs		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	47					transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCTTGCTCCTGGGGGCTGGCG	0.751													3	4	---	---	---	---						.	-	632888	-	-	632888	7	5	20	1	0	1	0	1	0	0	0	0	12257	1357	47	0	3633	0	POLRMT	19	632888	Frame_Shift_Del	DEL	G	TCGA-BR-4362-01A-01D-1158-08	52183	632888	58496095	1545	18267											
LPPR3	79948	broad.mit.edu	37	chr19	814902	814902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccgtgcagacaggatggCgtggatgtcgtggccggagc	7	7	17	10	4	1	1	1	0	0	1	2	4	1	4	2	5	2	1	2	5	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:814902C>T	uc002lpx.1	-	5	647	c.583G>A	c.(583-585)GCC>ACC	p.A195T	LPPR3_uc010dru.1_Missense_Mutation_p.A107T|LPPR3_uc002lpw.1_Missense_Mutation_p.A195T|LPPR3_uc002lpy.1_5'UTR	NM_024888	NP_079164	Q6T4P5	LPPR3_HUMAN	plasticity-related protein 2	195						integral to membrane	phosphatidate phosphatase activity				0						GACAGGATGGCGTGGATGTCG	0.627													7	29					0	0	0.010729	0	0		T	814902	T	T	814902	3	4	20	1	0	0	0	0	1	0	0	0	8944	768	27	1	1669	1	LPPR3	19	814902	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	182014	814902	58314081	1546	18268											
HMHA1	23526	broad.mit.edu	37	chr19	1074128	1074128	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccgccgaggaggtggaCgtgctgctacagcgctgtga	6	7	16	12	4	0	1	0	1	0	0	0	4	0	3	2	3	5	3	2	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:1074128C>T	uc002lqz.1	+	7	1047	c.816C>T	c.(814-816)GAC>GAT	p.D272D	HMHA1_uc010xgd.1_Silent_p.D288D|HMHA1_uc010xge.1_Silent_p.D112D|HMHA1_uc002lra.1_Silent_p.D112D|HMHA1_uc002lrb.1_Silent_p.D155D	NM_012292	NP_036424	Q92619	HMHA1_HUMAN	minor histocompatibility antigen HA-1	272					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGAGGTGGACGTGCTGCTAC	0.657													5	51					0	0	0.001168	0	0		T	1074128	T	T	1074128	2	4	20	1	0	0	0	0	0	0	0	1	7256	535	19	1		1	HMHA1	19	1074128	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	259226	1074128	58054855	1547	18269											
ADAMTSL5	339366	broad.mit.edu	37	chr19	1510219	1510219	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccattgtacagggcacaCtgtaggtctcggaagggcac	9	7	14	11	2	1	0	0	0	1	0	2	1	1	1	1	5	1	4	1	5	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:1510219C>T	uc002ltd.2	-	5	735	c.291G>A	c.(289-291)CAG>CAA	p.Q97Q	ADAMTSL5_uc010dsl.2_Translation_Start_Site|ADAMTSL5_uc010xgq.1_Silent_p.Q107Q	NM_213604	NP_998769	Q6ZMM2	ATL5_HUMAN	ADAMTS-like 5 precursor	97						proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACAGGGCACACTGTAGGTCTC	0.627													13	26					0	0	0.00245	0	0		T	1510219	T	T	1510219	2	4	20	1	0	0	0	0	0	0	0	1	278	564	20	4		4	ADAMTSL5	19	1510219	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	436091	1510219	57618764	1548	18270											
ATP8B3	148229	broad.mit.edu	37	chr19	1789638	1789638	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtagaggaaatccctcctgGactggccgagctcctgccac	8	7	11	15	2	0	1	0	0	0	1	3	4	3	3	5	3	2	2	5	3	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:1789638G>T	uc002ltw.2	-	23	2801	c.2567C>A	c.(2566-2568)TCC>TAC	p.S856Y	ATP8B3_uc002ltv.2_Missense_Mutation_p.S819Y|ATP8B3_uc002ltx.2_Intron	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	856	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATCCCTCCTGGACTGGCCGAG	0.706													3	5					6.4e-05	6.5505e-05	0.004672	1	0		T	1789638	T	T	1789638	3	4	20	1	0	0	0	0	1	0	0	0	1197	1174	41	5	1363	5	ATP8B3	19	1789638	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	279419	1789638	57339345	1549	18271											
ATP8B3	148229	broad.mit.edu	37	chr19	1796808	1796808	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccccgttggtccgcacgAggtgcagcagggccgcattg	5	7	15	14	5	0	0	0	0	0	0	2	1	2	0	4	3	2	5	4	3	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:1796808A>G	uc002ltw.2	-	16	1889	c.1655T>C	c.(1654-1656)CTC>CCC	p.L552P	ATP8B3_uc002ltv.2_Missense_Mutation_p.L505P|ATP8B3_uc002ltx.2_RNA	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	552	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGTCCGCACGAGGTGCAGCAG	0.697													3	31					0	0	0.009096	0	0		G	1796808	G	G	1796808	3	3	20	1	0	0	0	0	1	0	0	0	1197	304	11	3	2333	3	ATP8B3	19	1796808	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	7170	1796808	57332175	1550	18272											
AP3D1	8943	broad.mit.edu	37	chr19	2129435	2129435	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccagctcgcagatgacaTtgacggcagccgactgaacc	10	6	12	13	3	0	4	0	3	0	1	1	5	0	4	3	2	3	3	3	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:2129435T>C	uc002luz.2	-	7	837	c.614A>G	c.(613-615)AAT>AGT	p.N205S	AP3D1_uc002luy.2_Intron|AP3D1_uc002lva.2_Missense_Mutation_p.N205S	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	205	HEAT 4.				eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGATGACATTGACGGCAGC	0.577													10	44					0	0	0.001855	0	0		C	2129435	C	C	2129435	3	2	20	1	0	0	0	0	1	0	0	0	746	1493	52	3	3101	3	AP3D1	19	2129435	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	332627	2129435	56999548	1551	18273											
ZNF554	115196	broad.mit.edu	37	chr19	2823039	2823039	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttttcctccccacagcTctgcctgcccaggaacctgc	5	10	7	19	0	1	0	0	0	1	0	3	1	3	1	7	1	5	1	7	1	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:2823039T>C	uc002lwm.2	+	2	253	c.55T>C	c.(55-57)TCT>CCT	p.S19P	ZNF554_uc002lwl.2_5'UTR	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	19					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCCCACAGCTCTGCCTGCCC	0.602													4	100					0	0	0.000602	0	0		C	2823039	C	C	2823039	3	2	20	1	0	0	0	0	1	0	0	0	18010	1565	54	3	61	3	ZNF554	19	2823039	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	693604	2823039	56305944	1552	18274											
PIAS4	51588	broad.mit.edu	37	chr19	4037403	4037403	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agatcctgagcgagtgtgagGacgccgacgagatcgagtac	11	6	15	9	5	0	4	0	2	0	2	2	9	1	5	2	1	2	1	2	1	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:4037403G>T	uc002lzg.2	+	10	1184	c.1174G>T	c.(1174-1176)GAC>TAC	p.D392Y		NM_015897	NP_056981	Q8N2W9	PIAS4_HUMAN	protein inhibitor of activated STAT, 4	392					positive regulation of protein sumoylation|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|PML body	DNA binding|SUMO ligase activity|ubiquitin protein ligase binding|zinc ion binding			pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CGAGTGTGAGGACGCCGACGA	0.701													7	24					0.000274275	0.000279038	0.004482	1	0		T	4037403	T	T	4037403	3	4	20	1	0	0	0	0	1	0	0	0	11897	1174	41	5	1212	5	PIAS4	19	4037403	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1214364	4037403	55091580	1553	18275											
TMIGD2	126259	broad.mit.edu	37	chr19	4292852	4292852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttggggccccccggggcCggtataggacgttgctgtag	4	10	16	11	3	1	0	0	0	1	0	1	1	1	1	4	6	1	4	4	6	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:4292852C>T	uc002lzx.1	-	5	639	c.593G>A	c.(592-594)CGG>CAG	p.R198Q	TMIGD2_uc010dtv.1_Missense_Mutation_p.R194Q	NM_144615	NP_653216	Q96BF3	TMIG2_HUMAN	transmembrane and immunoglobulin domain	198	Cytoplasmic (Potential).					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCCCGGGGCCGGTATAGGAC	0.587													18	76					0	0	0.010504	0	0		T	4292852	T	T	4292852	3	4	20	1	0	0	0	0	1	0	0	0	16256	652	23	1	259	1	TMIGD2	19	4292852	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	255449	4292852	54836131	1554	18276											
UBXN6	80700	broad.mit.edu	37	chr19	4453937	4453937	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	catatctcaccctggtttcgGatggtgtcctgcgatgtggg	5	13	13	10	2	1	0	1	0	1	0	4	2	2	1	2	4	1	1	2	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:4453937G>A	uc002man.1	-	2	333	c.237C>T	c.(235-237)ATC>ATT	p.I79I	UBXN6_uc010dty.1_Silent_p.I26I|UBXN6_uc002mam.1_Silent_p.I26I	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	79						microtubule organizing center|nucleus	protein binding				0						CCTGGTTTCGGATGGTGTCCT	0.657													13	153					0	0	0.00245	0	0		A	4453937	A	A	4453937	2	1	20	1	0	0	0	0	0	0	0	1	16943	1164	41	4		4	UBXN6	19	4453937	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	161085	4453937	54675046	1555	18277											
UHRF1	29128	broad.mit.edu	37	chr19	4932942	4932942	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgcgagaccaggacggcgcgGgaactctacgccaacgtggt	9	4	15	13	7	1	1	0	0	1	1	1	4	1	3	2	4	3	0	2	4	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:4932942G>A	uc002mbo.2	+	5	927	c.759G>A	c.(757-759)CGG>CGA	p.R253R	UHRF1_uc010xik.1_Intron|UHRF1_uc010duf.2_RNA|UHRF1_uc002mbp.2_Silent_p.R266R	NM_001048201	NP_001041666	Q96T88	UHRF1_HUMAN	ubiquitin-like with PHD and ring finger domains	253					cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)		GGACGGCGCGGGAACTCTACG	0.667													4	26					0	0	0.009096	0	0		A	4932942	A	A	4932942	2	1	20	1	0	0	0	0	0	0	0	1	16993	1219	43	4		4	UHRF1	19	4932942	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	479005	4932942	54196041	1556	18278											
PTPRS	5802	broad.mit.edu	37	chr19	5244164	5244164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacaatcatggtggtcgCgctgagcatccgggcttgca	7	9	13	12	3	1	1	1	1	0	0	3	1	2	1	1	3	3	5	1	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:5244164C>T	uc002mbv.2	-	11	1552	c.1318G>A	c.(1318-1320)GCG>ACG	p.A440T	PTPRS_uc002mbu.1_Missense_Mutation_p.A427T|PTPRS_uc010xin.1_Missense_Mutation_p.A427T|PTPRS_uc002mbw.2_Missense_Mutation_p.A427T|PTPRS_uc002mbx.2_Missense_Mutation_p.A431T|PTPRS_uc002mby.2_Missense_Mutation_p.A427T	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	440	Extracellular (Potential).|Fibronectin type-III 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		ATGGTGGTCGCGCTGAGCATC	0.711													5	97					0	0	0.000602	0	0		T	5244164	T	T	5244164	3	4	20	1	0	0	0	0	1	0	0	0	12836	768	27	1	4640	1	PTPRS	19	5244164	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	311222	5244164	53884819	1557	18279											
ZNRF4	148066	broad.mit.edu	37	chr19	5455507	5455507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaagacacgacgcatgcCgctctgccgtccggagcact	9	7	10	15	5	2	1	1	0	1	1	3	3	3	2	3	1	3	3	3	1	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:5455507C>T	uc002mca.3	+	1	82	c.5C>T	c.(4-6)CCG>CTG	p.P2L		NM_181710	NP_859061	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4 precursor	2						integral to membrane	zinc ion binding			large_intestine(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		CGACGCATGCCGCTCTGCCGT	0.617													8	31					0	0	0.006214	0	0		T	5455507	T	T	5455507	3	4	20	1	0	0	0	0	1	0	0	0	18239	652	23	1	7	1	ZNRF4	19	5455507	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	211343	5455507	53673476	1558	18280											
LONP1	9361	broad.mit.edu	37	chr19	5699204	5699204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagccgcggagctggctaaCggcaatgaactcctgcagac	10	5	14	12	3	0	2	0	1	0	1	1	4	1	4	2	4	5	4	2	4	3	1	rs143983421		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:5699204C>T	uc002mcx.2	-	10	1552	c.1519G>A	c.(1519-1521)GTT>ATT	p.V507I	LONP1_uc002mcy.2_Missense_Mutation_p.V443I|LONP1_uc010duh.2_Missense_Mutation_p.V248I|LONP1_uc010dui.2_Missense_Mutation_p.V491I|LONP1_uc002mcz.2_Missense_Mutation_p.V311I	NM_004793	NP_004784	P36776	LONM_HUMAN	mitochondrial lon peptidase 1 precursor	507					cellular chaperone-mediated protein complex assembly|cellular response to oxidative stress|misfolded or incompletely synthesized protein catabolic process|mitochondrial DNA metabolic process|oxidation-dependent protein catabolic process|protein homooligomerization|response to hypoxia	mitochondrial nucleoid	ADP binding|ATP binding|ATP-dependent peptidase activity|DNA polymerase binding|G-quadruplex DNA binding|mitochondrial heavy strand promoter anti-sense binding|mitochondrial light strand promoter anti-sense binding|sequence-specific DNA binding|serine-type endopeptidase activity|single-stranded DNA binding|single-stranded RNA binding				0						AGCTGGCTAACGGCAATGAAC	0.647													28	38					0	0	0.008361	0	0		T	5699204	T	T	5699204	3	4	20	1	0	0	0	0	1	0	0	0	8910	536	19	1	1396	1	LONP1	19	5699204	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	243697	5699204	53429779	1559	18281											
MLLT1	4298	broad.mit.edu	37	chr19	6213094	6213094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctctgcagtttgcgcaCggtggtctcgtccagggaga	6	9	15	11	3	2	1	0	0	2	1	4	2	3	1	1	3	3	5	1	3	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:6213094C>T	uc002mek.2	-	12	1803	c.1639G>A	c.(1639-1641)GTG>ATG	p.V547M		NM_005934	NP_005925	Q03111	ENL_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	547					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|protein binding			skin(1)	1						AGTTTGCGCACGGTGGTCTCG	0.642			T	MLL	AL								19	66					0	0	0.012319	0	0		T	6213094	T	T	6213094	3	4	20	1	0	0	0	0	1	0	0	0	9643	536	19	1	44	1	MLLT1	19	6213094	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	513890	6213094	52915889	1560	18282											
FCER2	2208	broad.mit.edu	37	chr19	7754113	7754113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagagggggtgggcaggCggccgtcagggtctggtctt	4	7	22	8	2	3	1	1	0	2	1	3	1	3	1	1	8	0	2	1	8	0	1	rs149654388		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:7754113C>T	uc002mhn.2	-	11	1116	c.932G>A	c.(931-933)CGC>CAC	p.R311H	FCER2_uc010xjs.1_Missense_Mutation_p.R233H|FCER2_uc010xjt.1_Missense_Mutation_p.R233H|FCER2_uc002mhm.2_Missense_Mutation_p.R311H	NM_002002	NP_001993	P06734	FCER2_HUMAN	Fc fragment of IgE, low affinity II, receptor	311	Extracellular (Potential).				positive regulation of killing of cells of other organism|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of nitric-oxide synthase activity	extracellular region|integral to plasma membrane	IgE binding|integrin binding|receptor activity|sugar binding				0						GGTGGGCAGGCGGCCGTCAGG	0.652													13	24					0	0	0.004007	0	0		T	7754113	T	T	7754113	3	4	20	1	0	0	0	0	1	0	0	0	5790	768	27	1	37	1	FCER2	19	7754113	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1541019	7754113	51374870	1561	18283											
EVI5L	115704	broad.mit.edu	37	chr19	7914211	7914211	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcgtgggcctgctcctcAtgcaggtaggtggctggggg	4	10	17	10	1	2	0	2	0	0	0	4	0	3	0	2	6	2	4	2	6	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:7914211A>G	uc002min.2	+	5	776	c.622A>G	c.(622-624)ATG>GTG	p.M208V	EVI5L_uc010xjz.1_Missense_Mutation_p.M208V|EVI5L_uc002mio.1_5'Flank	NM_145245	NP_660288	Q96CN4	EVI5L_HUMAN	ecotropic viral integration site 5-like isoform	208	Rab-GAP TBC.					intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						CCTGCTCCTCATGCAGGTAGG	0.647													10	37					0	0	0.006214	0	0		G	7914211	G	G	7914211	3	3	20	1	0	0	0	0	1	0	0	0	5298	217	8	3	636	3	EVI5L	19	7914211	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	160098	7914211	51214772	1562	18284											
SNAPC2	6618	broad.mit.edu	37	chr19	7986931	7986931	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctgccaggtgctcaccatCgcggccacggaaccggtcac	7	5	12	17	4	2	0	2	0	0	0	3	1	2	1	5	4	3	1	5	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:7986931C>T	uc002miw.1	+	4	407	c.384C>T	c.(382-384)ATC>ATT	p.I128I	SNAPC2_uc002mix.1_RNA	NM_003083	NP_003074	Q13487	SNPC2_HUMAN	small nuclear RNA activating complex,	128					snRNA transcription|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	sequence-specific DNA binding transcription factor activity				0						TGCTCACCATCGCGGCCACGG	0.627													85	224					0	0	0.01441	0	0		T	7986931	T	T	7986931	2	4	20	1	0	0	0	0	0	0	0	1	14860	874	31	1		1	SNAPC2	19	7986931	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	72720	7986931	51142052	1563	18285											
FBN3	84467	broad.mit.edu	37	chr19	8190851	8190851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagacccagcagtgttgaCgcaacgcccgttgggacaga	12	5	13	11	3	0	3	0	1	0	2	0	5	0	4	2	1	2	4	2	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:8190851C>T	uc002mjf.2	-	21	2677	c.2656G>A	c.(2656-2658)GTC>ATC	p.V886I		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	886	EGF-like 11; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GCAGTGTTGACGCAACGCCCG	0.637													14	53					0	0	0.004007	0	0		T	8190851	T	T	8190851	3	4	20	1	0	0	0	0	1	0	0	0	5718	536	19	1	5945	1	FBN3	19	8190851	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	203920	8190851	50938132	1564	18286											
LASS4	79603	broad.mit.edu	37	chr19	8321559	8321559	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgggtttctacctctcaCtgctaatcaggctgcccttt	6	14	8	13	0	3	0	2	0	2	0	4	0	3	0	2	2	4	4	2	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:8321559C>T	uc002mjg.2	+	8	897	c.577C>T	c.(577-579)CTG>TTG	p.L193L	LASS4_uc002mjh.2_Silent_p.L142L|LASS4_uc002mji.2_Silent_p.L29L|LASS4_uc010dvz.2_Silent_p.L193L	NM_024552	NP_078828	Q9HA82	CERS4_HUMAN	LAG1 homolog, ceramide synthase 4	193	TLC.|Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(1)	1						CTACCTCTCACTGCTAATCAG	0.572													32	95					0	0	0.010818	0	0		T	8321559	T	T	8321559	2	4	20	1	0	0	0	0	0	0	0	1	8657	564	20	4		4	LASS4	19	8321559	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	130708	8321559	50807424	1565	18287											
ACTL9	284382	broad.mit.edu	37	chr19	8808899	8808899	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcccatgtcaataaccacCacgccggtctttggtggcag	8	9	11	13	2	2	0	1	0	1	0	2	0	2	0	4	3	2	1	4	3	2	2	rs138094625	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:8808899C>T	uc002mkl.2	-	1	274	c.153G>A	c.(151-153)GTG>GTA	p.V51V		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	51						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						CAATAACCACCACGCCGGTCT	0.652													10	58					0	0	0.007413	0	0		T	8808899	T	T	8808899	2	4	20	1	0	0	0	0	0	0	0	1	203	581	21	4		4	ACTL9	19	8808899	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	487340	8808899	50320084	1566	18288											
MUC16	94025	broad.mit.edu	37	chr19	9046249	9046249	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggctgtggtctctgatacTtgaggaaacacagttgaagc	11	10	13	7	0	1	3	0	3	1	0	2	5	1	4	0	3	3	2	0	3	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:9046249T>G	uc002mkp.2	-	5	35586	c.35382A>C	c.(35380-35382)CAA>CAC	p.Q11794H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11796	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTCTGATACTTGAGGAAACA	0.478													20	49					0	0	0.007413	0	0		G	9046249	G	G	9046249	3	3	20	1	0	0	0	0	1	0	0	0	9991	1606	56	5	8461	5	MUC16	19	9046249	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	237350	9046249	50082734	1567	18289											
MUC16	94025	broad.mit.edu	37	chr19	9049228	9049228	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagttgtacttgtctttgcCgccaaactggtgaccattga	8	15	9	9	1	1	2	0	2	1	0	1	2	1	2	3	1	3	2	3	1	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:9049228C>T	uc002mkp.2	-	5	32607	c.32403G>A	c.(32401-32403)GCG>GCA	p.A10801A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10803	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTGTCTTTGCCGCCAAACTGG	0.507													42	94					0	0	0.00874	0	0		T	9049228	T	T	9049228	2	4	20	1	0	0	0	0	0	0	0	1	9991	639	23	1		1	MUC16	19	9049228	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2979	9049228	50079755	1568	18290											
OR7D4	125958	broad.mit.edu	37	chr19	9324694	9324694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggcgtacatcactgaggCggtggagctgctctgggaag	8	8	16	9	2	2	1	1	1	1	0	2	3	2	3	0	5	3	3	0	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:9324694C>T	uc002mla.1	-	1	820	c.820G>A	c.(820-822)GCC>ACC	p.A274T		NM_001005191	NP_001005191	Q8NG98	OR7D4_HUMAN	olfactory receptor, family 7, subfamily D,	274	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						ATCACTGAGGCGGTGGAGCTG	0.552													26	64					0	0	0.00632	0	0		T	9324694	T	T	9324694	3	4	20	1	0	0	0	0	1	0	0	0	11239	768	27	1	122	1	OR7D4	19	9324694	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	275466	9324694	49804289	1569	18291											
ZNF559	84527	broad.mit.edu	37	chr19	9453697	9453697	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaaaccatataaggaaTgtgggcaaacctttagtaat	16	10	10	5	0	0	1	0	0	0	1	0	3	0	2	2	3	2	2	2	3	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:9453697T>G	uc002mlg.2	+	7	2217	c.1570T>G	c.(1570-1572)TGT>GGT	p.C524G	ZNF559_uc002mlf.2_Missense_Mutation_p.C293G|ZNF559_uc010dwl.1_Missense_Mutation_p.C293G|ZNF559_uc010xkn.1_Missense_Mutation_p.C516G|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Missense_Mutation_p.C588G|ZNF559_uc010dwk.1_Missense_Mutation_p.C293G|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	524					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATATAAGGAATGTGGGCAAAC	0.423													11	158					0	0	0.010729	0	0		G	9453697	G	G	9453697	3	3	20	1	0	0	0	0	1	0	0	0	18015	1464	51	5	1584	5	ZNF559	19	9453697	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	129003	9453697	49675286	1570	18292											
DNMT1	1786	broad.mit.edu	37	chr19	10251513	10251513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaaacacatccagggtcCgcagcttgggcagcttgatc	11	7	11	12	1	0	2	0	1	0	1	3	2	2	2	2	2	3	4	2	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:10251513C>T	uc002mng.2	-	31	3599	c.3419G>A	c.(3418-3420)CGG>CAG	p.R1140Q	DNMT1_uc002mne.2_5'Flank|DNMT1_uc002mnf.2_Missense_Mutation_p.R64Q|DNMT1_uc010xlc.1_Missense_Mutation_p.R1156Q|DNMT1_uc002mnh.2_Missense_Mutation_p.R1035Q|DNMT1_uc010xld.1_Missense_Mutation_p.R1140Q	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	1140	Catalytic.|Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	ATCCAGGGTCCGCAGCTTGGG	0.617													37	91					0	0	0.00874	0	0		T	10251513	T	T	10251513	3	4	20	1	0	0	0	0	1	0	0	0	4681	652	23	1	1471	1	DNMT1	19	10251513	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	797816	10251513	48877470	1571	18293											
DNMT1	1786	broad.mit.edu	37	chr19	10260184	10260184	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactttcactttgctgtggAtatatgaaagctgcatgtcc	9	15	9	8	0	1	2	1	2	0	0	2	3	2	3	1	1	3	3	1	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:10260184A>G	uc002mng.2	-	25	2663	c.2483T>C	c.(2482-2484)ATC>ACC	p.I828T	DNMT1_uc010xlc.1_Missense_Mutation_p.I844T|DNMT1_uc002mnh.2_Missense_Mutation_p.I723T|DNMT1_uc010xld.1_Missense_Mutation_p.I828T	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	828	BAH 1.				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	TTTGCTGTGGATATATGAAAG	0.567													141	384					0	0	0.01441	0	0		G	10260184	G	G	10260184	3	3	20	1	0	0	0	0	1	0	0	0	4681	333	12	3	2431	3	DNMT1	19	10260184	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	8671	10260184	48868799	1572	18294											
CARM1	10498	broad.mit.edu	37	chr19	11032425	11032425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaccaacaccatgcactacGggagctaggggcccgccccg	9	3	12	17	4	0	0	0	0	0	0	0	2	0	1	5	3	4	2	5	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:11032425G>A	uc002mpz.2	+	16	1945	c.1819G>A	c.(1819-1821)GGG>AGG	p.G607R	CARM1_uc010dxn.2_RNA|CARM1_uc002mqa.2_Missense_Mutation_p.G367R	NM_199141	NP_954592	Q86X55	CARM1_HUMAN	coactivator-associated arginine	607	Transactivation domain (By similarity).				cellular lipid metabolic process|histone H3-R2 methylation|interspecies interaction between organisms|pathogenesis|positive regulation of fat cell differentiation|regulation of estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleoplasm	beta-catenin binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-R17 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein-arginine omega-N asymmetric methyltransferase activity|transcription regulatory region DNA binding				0						CATGCACTACGGGAGCTAGGG	0.542													8	151					0	0	0.006214	0	0		A	11032425	A	A	11032425	3	1	20	1	0	0	0	0	1	0	0	0	2658	1116	39	1	1881	1	CARM1	19	11032425	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	772241	11032425	48096558	1573	18295											
RGL3	57139	broad.mit.edu	37	chr19	11526717	11526717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagcactccctggggccGcccagcccagaaaggttcgg	7	5	12	17	2	1	1	1	0	0	1	3	1	2	1	5	4	2	2	5	4	1	1	rs139040605		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:11526717G>A	uc002mrp.2	-	5	597	c.533C>T	c.(532-534)GCG>GTG	p.A178V	RGL3_uc002mrn.2_5'UTR|RGL3_uc002mrm.2_5'UTR|RGL3_uc002mro.2_Missense_Mutation_p.A178V	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	178	N-terminal Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						CCCTGGGGCCGCCCAGCCCAG	0.617													67	126					0	0	0.01441	0	0		A	11526717	A	A	11526717	3	1	20	1	0	0	0	0	1	0	0	0	13303	1087	38	1	1677	1	RGL3	19	11526717	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	494292	11526717	47602266	1574	18296											
CCDC151	115948	broad.mit.edu	37	chr19	11534692	11534692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagcagcaggtgctcgcGgtgggtctgctcgtgggttg	3	11	18	9	3	1	0	0	0	1	0	3	0	1	0	0	4	4	6	0	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:11534692G>A	uc002mrs.2	-	8	1113	c.970C>T	c.(970-972)CGC>TGC	p.R324C	CCDC151_uc002mrr.2_Missense_Mutation_p.R259C|CCDC151_uc010dxz.2_Missense_Mutation_p.R264C	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	324	Potential.									ovary(1)	1						AGGTGCTCGCGGTGGGTCTGC	0.657													12	163					0	0	0.013537	0	0		A	11534692	A	A	11534692	3	1	20	1	0	0	0	0	1	0	0	0	2789	1116	39	1	841	1	CCDC151	19	11534692	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	7975	11534692	47594291	1575	18297											
PRKCSH	5589	broad.mit.edu	37	chr19	11558373	11558373	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaggaggaggaggaggaAgaagaggctgaagaagagga	17	1	22	1	0	0	5	0	1	0	4	0	13	0	12	0	8	0	1	0	8	4	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:11558373A>G	uc002mrt.2	+	11	1305	c.969A>G	c.(967-969)GAA>GAG	p.E323E	PRKCSH_uc002mru.2_Silent_p.E323E|PRKCSH_uc010xlz.1_Silent_p.E323E|PRKCSH_uc010dya.2_Intron|PRKCSH_uc002mrv.1_Silent_p.E323E|PRKCSH_uc010dyb.2_Silent_p.E323E	NM_002743	NP_002734	P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H isoform 1	323	Glu-rich (acidic).				innate immune response|intracellular protein kinase cascade|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen	calcium ion binding|protein kinase C binding				0						aggaggaggaagaagaggctg	0.448													3	17					0	0	0.004672	0	0		G	11558373	G	G	11558373	2	3	20	1	0	0	0	0	0	0	0	1	12538	69	3	3		3	PRKCSH	19	11558373	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	23681	11558373	47570610	1576	18298											
ZNF439	90594	broad.mit.edu	37	chr19	11979192	11979192	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggactcacactggagagaaAccgtatcaatgtaaggaatg	16	7	11	7	1	2	1	2	0	0	1	2	5	2	4	1	3	1	2	1	3	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:11979192A>G	uc002mss.2	+	3	1436	c.1308A>G	c.(1306-1308)AAA>AAG	p.K436K	ZNF439_uc002msr.2_Silent_p.K300K	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	436					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CTGGAGAGAAACCGTATCAAT	0.448													11	80					0	0	0.004007	0	0		G	11979192	G	G	11979192	2	3	20	1	0	0	0	0	0	0	0	1	17936	40	2	3		3	ZNF439	19	11979192	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	420819	11979192	47149791	1577	18299											
ZNF709	163051	broad.mit.edu	37	chr19	12575998	12575998	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagggtttctctccagaGtgagttctttcatgatttcg	7	17	9	8	1	4	3	2	2	2	1	7	3	5	3	1	1	0	2	1	1	1	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:12575998G>T	uc002mtv.3	-	4	899	c.738C>A	c.(736-738)CAC>CAA	p.H246Q	ZNF709_uc002mtw.3_Missense_Mutation_p.H214Q|ZNF709_uc002mtx.3_Missense_Mutation_p.H246Q	NM_152601	NP_689814	Q8N972	ZN709_HUMAN	zinc finger protein 709 isoform a	246	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTCTCCAGAGTGAGTTCTTT	0.393													9	159					0.00448238	0.00453615	0.004482	1	0		T	12575998	T	T	12575998	3	4	20	1	0	0	0	0	1	0	0	0	18138	1020	36	5	1191	5	ZNF709	19	12575998	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	596806	12575998	46552985	1578	18300											
ASNA1	439	broad.mit.edu	37	chr19	12848425	12848425	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacatcatcgagcagcgcAgcctgaagtggatcttcgtc	10	8	11	12	3	2	1	1	1	1	0	5	3	2	2	1	1	4	3	1	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:12848425A>G	uc002muv.2	+	1	120	c.106A>G	c.(106-108)AGC>GGC	p.S36G	C19orf43_uc002muu.2_5'Flank|ASNA1_uc002muw.2_Missense_Mutation_p.S36G	NM_004317	NP_004308	O43681	ASNA_HUMAN	arsA arsenite transporter, ATP-binding, homolog	36					response to arsenic-containing substance	endoplasmic reticulum|nucleolus|soluble fraction	arsenite-transporting ATPase activity|ATP binding|metal ion binding			ovary(2)	2					Adenosine triphosphate(DB00171)	CGAGCAGCGCAGCCTGAAGTG	0.632													8	32					0	0	0.004482	0	0		G	12848425	G	G	12848425	3	3	20	1	0	0	0	0	1	0	0	0	1048	188	7	3	108	3	ASNA1	19	12848425	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	272427	12848425	46280558	1579	18301											
MAST1	22983	broad.mit.edu	37	chr19	12962928	12962928	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccactcctgccctgcctcaGgaattcaaccccgaggagtt	8	8	8	17	1	2	0	2	0	0	0	3	3	3	2	6	2	3	1	6	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:12962928G>T	uc002mvm.2	+	9	1005	c.877_splice	c.e9-1	p.E293_splice	MAST1_uc002mvk.2_Splice_Site_p.E289_splice	NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase						cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						CCCTGCCTCAGGAATTCAACC	0.647													7	100					0.00136819	0.00138861	0.013537	1	0		T	12962928	T	T	12962928	5	4	20	1	0	0	0	0	0	0	1	0	9342	1014	35	5	910	5	MAST1	19	12962928	Splice_Site	SNP	G	TCGA-BR-4362-01A-01D-1158-08	114503	12962928	46166055	1580	18302											
MAST1	22983	broad.mit.edu	37	chr19	12977542	12977542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagcccgtggaaatccGccagttctcttcctgctctc	6	10	11	14	2	2	0	0	0	2	0	6	3	4	3	4	3	2	2	4	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:12977542G>A	uc002mvm.2	+	18	2233	c.2105G>A	c.(2104-2106)CGC>CAC	p.R702H		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	702	AGC-kinase C-terminal.				cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						GTGGAAATCCGCCAGTTCTCT	0.622													11	22					0	0	0.00245	0	0		A	12977542	A	A	12977542	3	1	20	1	0	0	0	0	1	0	0	0	9342	1087	38	1	2175	1	MAST1	19	12977542	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	14614	12977542	46151441	1581	18303											
MAST1	22983	broad.mit.edu	37	chr19	12984600	12984600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatcgccgctggcacacaCgccgtcccccacgcaggcgt	6	6	10	19	6	1	0	0	0	1	0	3	0	2	0	4	2	0	3	4	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:12984600C>T	uc002mvm.2	+	26	3757	c.3629C>T	c.(3628-3630)ACG>ATG	p.T1210M		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1210					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						CTGGCACACACGCCGTCCCCC	0.677													3	3					0	0	0.009096	0	0		T	12984600	T	T	12984600	3	4	20	1	0	0	0	0	1	0	0	0	9342	536	19	1	3731	1	MAST1	19	12984600	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	7058	12984600	46144383	1582	18304											
MAST1	22983	broad.mit.edu	37	chr19	12985060	12985060	+	Frame_Shift_Del	DEL	G	-	-																															agcaaggagaaggaatccccGgggggcgccgaggcgtgcac																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:12985060delG	uc002mvm.2	+	26	4217	c.4089delG	c.(4087-4089)CCGfs	p.P1363fs		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1363					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						AGGAATCCCCGGGGGGCGCCG	0.736													5	7	---	---	---	---						.	-	12985060	-	-	12985060	7	5	20	1	0	1	0	1	0	0	0	0	9342	1103	39	0	4191	0	MAST1	19	12985060	Frame_Shift_Del	DEL	G	TCGA-BR-4362-01A-01D-1158-08	460	12985060	46143923	1583	18305											
GCDH	2639	broad.mit.edu	37	chr19	13006913	13006913	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcatccaacaagagctacAccctcaatgggaccaagacc	15	5	6	15	0	2	2	2	0	0	2	3	3	3	3	4	1	3	1	4	1	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:13006913A>G	uc002mvq.2	+	7	690	c.613A>G	c.(613-615)ACC>GCC	p.T205A	GCDH_uc010xms.1_Missense_Mutation_p.T172A|GCDH_uc002mvp.2_Missense_Mutation_p.T205A|GCDH_uc010xmt.1_Silent_p.T50T|GCDH_uc010xmu.1_Missense_Mutation_p.T161A	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a	205					lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						CAAGAGCTACACCCTCAATGG	0.602													6	129					0	0	0.001168	0	0		G	13006913	G	G	13006913	3	3	20	1	0	0	0	0	1	0	0	0	6302	159	6	3	635	3	GCDH	19	13006913	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	21853	13006913	46122070	1584	18306											
C19orf57	79173	broad.mit.edu	37	chr19	14000134	14000134	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaggcaggtggtctcgcTgccctgccagctctgaggtg	6	9	15	11	1	2	2	0	2	2	0	3	2	2	2	2	4	3	3	2	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:14000134T>C	uc002mxl.1	-	6	1594	c.1535A>G	c.(1534-1536)CAG>CGG	p.Q512R	C19orf57_uc002mxk.1_Missense_Mutation_p.Q394R|C19orf57_uc002mxm.1_Intron	NM_024323	NP_077299	Q0VDD7	CS057_HUMAN	hypothetical protein LOC79173	512					multicellular organismal development		protein binding			ovary(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			GTGGTCTCGCTGCCCTGCCAG	0.602													14	48					0	0	0.004007	0	0		C	14000134	C	C	14000134	3	2	20	1	0	0	0	0	1	0	0	0	1942	1580	55	3	390	3	C19orf57	19	14000134	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	993221	14000134	45128849	1585	18307											
LPHN1	22859	broad.mit.edu	37	chr19	14269309	14269309	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttcactgtggcattctcCgtggacaggaagaggcccag	9	8	13	11	1	2	1	1	0	1	1	3	3	2	3	2	4	1	2	2	4	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:14269309C>T	uc010xnn.1	-	13	2516	c.2220G>A	c.(2218-2220)ACG>ACA	p.T740T	LPHN1_uc010xno.1_Silent_p.T735T|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	740	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						TGGCATTCTCCGTGGACAGGA	0.587													7	42					0	0	0.006214	0	0		T	14269309	T	T	14269309	2	4	20	1	0	0	0	0	0	0	0	1	8933	639	23	1		1	LPHN1	19	14269309	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	269175	14269309	44859674	1586	18308											
LPHN1	22859	broad.mit.edu	37	chr19	14271040	14271040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaggagacgtcccccgCgtagatggagccccgggtgt	8	5	17	11	4	0	3	0	0	0	3	1	6	1	5	4	4	1	1	4	4	1	1	rs149895143	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:14271040C>T	uc010xnn.1	-	9	1995	c.1699G>A	c.(1699-1701)GCG>ACG	p.A567T	LPHN1_uc010xno.1_Missense_Mutation_p.A562T|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	567	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						ACGTCCCCCGCGTAGATGGAG	0.672													18	71					0	0	0.005443	0	0		T	14271040	T	T	14271040	3	4	20	1	0	0	0	0	1	0	0	0	8933	768	27	1	2789	1	LPHN1	19	14271040	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1731	14271040	44857943	1587	18309											
SYDE1	85360	broad.mit.edu	37	chr19	15223187	15223187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcttctcctggaccacctgCgcctcgtctcctccttccat	3	12	6	20	3	2	0	0	0	2	0	7	1	4	1	7	1	1	1	7	1	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:15223187C>T	uc002nah.1	+	7	1640	c.1609C>T	c.(1609-1611)CGC>TGC	p.R537C	SYDE1_uc002nai.1_Missense_Mutation_p.R470C|SYDE1_uc002naj.1_Missense_Mutation_p.R194C	NM_033025	NP_149014	Q6ZW31	SYDE1_HUMAN	synapse defective 1, Rho GTPase, homolog 1	537	Rho-GAP.				activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|pancreas(1)	2						GGACCACCTGCGCCTCGTCTC	0.622													3	3					0	0	0.004672	0	0		T	15223187	T	T	15223187	3	4	20	1	0	0	0	0	1	0	0	0	15460	768	27	1	1635	1	SYDE1	19	15223187	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	952147	15223187	43905796	1588	18310											
NOTCH3	4854	broad.mit.edu	37	chr19	15302455	15302455	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacactcatccacgtcctcCgtgcagaactggcctgtggc	7	9	10	15	2	1	2	1	1	0	1	4	2	4	2	4	2	2	1	4	2	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:15302455C>T	uc002nan.2	-	6	892	c.816G>A	c.(814-816)ACG>ACA	p.T272T	NOTCH3_uc002nao.1_Silent_p.T272T	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	272	Extracellular (Potential).|EGF-like 6; calcium-binding (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CCACGTCCTCCGTGCAGAACT	0.652													6	19					0	0	0.001855	0	0		T	15302455	T	T	15302455	2	4	20	1	0	0	0	0	0	0	0	1	10569	639	23	1		1	NOTCH3	19	15302455	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	79268	15302455	43826528	1589	18311											
WIZ	58525	broad.mit.edu	37	chr19	15558926	15558926	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttaccagagatgccacCtctgccatccagaatgtctc	9	11	6	15	0	3	2	0	0	3	2	6	3	4	2	5	0	3	0	5	0	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:15558926C>A	uc002nbb.3	-	2	407	c.193G>T	c.(193-195)GGT>TGT	p.G65C	MIR1470_hsa-mir-1470|MI0007075_5'Flank	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						nucleus	zinc ion binding				0						GAGATGCCACCTCTGCCATCC	0.642													43	101					7.77372e-23	8.3434e-23	0.01441	1	0		A	15558926	A	A	15558926	3	1	20	1	0	0	0	0	1	0	0	0	17401	681	24	5	2219	5	WIZ	19	15558926	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	256471	15558926	43570057	1590	18312											
OR10H5	284433	broad.mit.edu	37	chr19	15904931	15904931	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgccttcccccacctccagCtgatgctcttcctgctgttc	3	13	6	19	0	1	1	0	1	1	0	5	1	4	1	6	0	4	4	6	0	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:15904931C>G	uc010xos.1	+	1	73	c.73C>G	c.(73-75)CTG>GTG	p.L25V		NM_001004466	NP_001004466	Q8NGA6	O10H5_HUMAN	olfactory receptor, family 10, subfamily H,	25	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCACCTCCAGCTGATGCTCTT	0.597													4	243					0	0	0.001168	0	0		G	15904931	G	G	15904931	3	3	20	1	0	0	0	0	1	0	0	0	10928	796	28	5	75	5	OR10H5	19	15904931	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	346005	15904931	43224052	1591	18313											
CPAMD8	27151	broad.mit.edu	37	chr19	17014528	17014528	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaccgctgctgtctgcagaAccttctggttggtcctgtgc	4	12	12	13	1	2	1	0	0	2	1	3	1	3	1	3	2	4	5	3	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:17014528A>G	uc002nfb.2	-	33	4564	c.4532T>C	c.(4531-4533)GTT>GCT	p.V1511A	CPAMD8_uc002nfd.1_5'Flank	NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1464						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						TGTCTGCAGAACCTTCTGGTT	0.587													7	313					0	0	0.006214	0	0		G	17014528	G	G	17014528	3	3	20	1	0	0	0	0	1	0	0	0	3798	43	2	3	1306	3	CPAMD8	19	17014528	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1109597	17014528	42114455	1592	18314											
MAP1S	55201	broad.mit.edu	37	chr19	17836734	17836734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgggctcagctggcacccGctgtgcctggccttcagggg	4	8	15	14	1	2	0	2	0	0	0	2	0	2	0	3	5	2	4	3	5	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:17836734G>A	uc002nhe.1	+	5	550	c.541G>A	c.(541-543)GCT>ACT	p.A181T	MAP1S_uc010eaz.1_RNA|MAP1S_uc010eba.1_Missense_Mutation_p.A181T|MAP1S_uc002nhf.1_Intron|MAP1S_uc010xpv.1_Missense_Mutation_p.A155T	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	181	Necessary for the microtubule-organizing center localization.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						GCTGGCACCCGCTGTGCCTGG	0.682													15	35					0	0	0.004007	0	0		A	17836734	A	A	17836734	3	1	20	1	0	0	0	0	1	0	0	0	9252	1087	38	1	559	1	MAP1S	19	17836734	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	822206	17836734	41292249	1593	18315											
SLC5A5	6528	broad.mit.edu	37	chr19	17983369	17983369	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggcgtgccgtcggaggccTatcgctatggcctcaagttc	5	10	14	12	4	1	0	1	0	0	0	4	1	1	1	3	4	1	2	3	4	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:17983369T>C	uc002nhr.3	+	1	588	c.241T>C	c.(241-243)TAT>CAT	p.Y81H		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	81	Extracellular (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						GTCGGAGGCCTATCGCTATGG	0.682													4	38					0	0	0.009096	0	0		C	17983369	C	C	17983369	3	2	20	1	0	0	0	0	1	0	0	0	14693	1522	53	3	243	3	SLC5A5	19	17983369	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	146635	17983369	41145614	1594	18316											
NCAN	1463	broad.mit.edu	37	chr19	19337487	19337487	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccctgattttggaggagaAgcaggagtctcaacagaccc	13	7	11	10	0	1	3	1	1	1	2	2	6	1	5	2	3	3	1	2	3	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:19337487A>C	uc002nlz.2	+	7	1364	c.1265A>C	c.(1264-1266)AAG>ACG	p.K422T	NCAN_uc010ecc.1_5'UTR	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	422					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			TTGGAGGAGAAGCAGGAGTCT	0.622													13	25					0	0	0.00245	0	0		C	19337487	C	C	19337487	3	2	20	1	0	0	0	0	1	0	0	0	10223	72	3	5	1287	5	NCAN	19	19337487	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1354118	19337487	39791496	1595	18317											
ZNF431	170959	broad.mit.edu	37	chr19	21350433	21350433	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaagaaaaagagccctggAatatgaagagacatgagatg	19	5	12	5	0	0	5	0	2	0	4	0	8	0	6	1	1	2	1	1	1	6	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:21350433A>G	uc002npp.2	+	4	430	c.283A>G	c.(283-285)AAT>GAT	p.N95D	ZNF431_uc010ecq.2_5'UTR|ZNF431_uc010ecr.2_Missense_Mutation_p.N96D	NM_133473	NP_597730	Q8TF32	ZN431_HUMAN	zinc finger protein 431	95	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2						AGAGCCCTGGAATATGAAGAG	0.388													8	161					0	0	0.00308	0	0		G	21350433	G	G	21350433	3	3	20	1	0	0	0	0	1	0	0	0	17930	246	9	3	297	3	ZNF431	19	21350433	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2012946	21350433	37778550	1596	18318											
ZNF100	163227	broad.mit.edu	37	chr19	21927746	21927746	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaaagttattctcacccaAgaagaccaggtttctgtagt	13	13	7	8	0	2	2	1	0	2	2	3	2	2	2	2	1	0	3	2	1	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:21927746A>C	uc002nqi.2	-	3	419	c.220T>G	c.(220-222)TTG>GTG	p.L74V	ZNF100_uc002nqh.2_Missense_Mutation_p.L11V	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	74	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTCTCACCCAAGAAGACCAGG	0.383													18	153					0	0	0.008871	0	0		C	21927746	C	C	21927746	3	2	20	1	0	0	0	0	1	0	0	0	17738	69	3	5	1420	5	ZNF100	19	21927746	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	577313	21927746	37201237	1597	18319											
ZNF43	7594	broad.mit.edu	37	chr19	21992387	21992387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttatgaaaggctttcacaCatttatcaaatagaaatatt	17	15	4	5	0	2	2	2	1	0	1	2	2	2	2	0	1	0	1	0	1	7	8			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:21992387C>T	uc002nqj.2	-	4	582	c.452G>A	c.(451-453)TGT>TAT	p.C151Y	ZNF43_uc010ecv.2_Missense_Mutation_p.C145Y|ZNF43_uc002nql.2_Missense_Mutation_p.C145Y|ZNF43_uc002nqm.2_Missense_Mutation_p.C145Y|ZNF43_uc002nqk.2_Missense_Mutation_p.C81Y	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		GGCTTTCACACATTTATCAAA	0.328													21	43					0	0	0.008871	0	0		T	21992387	T	T	21992387	3	4	20	1	0	0	0	0	1	0	0	0	17928	478	17	4	1981	4	ZNF43	19	21992387	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	64641	21992387	37136596	1598	18320											
TSHZ3	57616	broad.mit.edu	37	chr19	31769144	31769144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggatttgaggatatcaagccCccccttgggactctcttcta	8	12	9	12	0	3	1	1	1	2	0	4	4	3	4	3	3	1	0	3	3	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:31769144C>T	uc002nsy.3	-	2	1620	c.1555G>A	c.(1555-1557)GGG>AGG	p.G519R		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	519					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					ATATCAAGCCCCCCCTTGGGA	0.488													74	193					0	0	0.01441	0	0		T	31769144	T	T	31769144	3	4	20	1	0	0	0	0	1	0	0	0	16651	623	22	4	1694	4	TSHZ3	19	31769144	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	9776757	31769144	27359839	1599	18321											
ZNF507	22847	broad.mit.edu	37	chr19	32873756	32873756	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcccagtgaagttctgggtAccaacgagaatgagaaactg	13	8	11	9	1	1	3	0	2	1	2	2	5	2	3	2	1	3	2	2	1	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:32873756A>G	uc002nte.2	+	7	2901	c.2629A>G	c.(2629-2631)ACC>GCC	p.T877A	ZNF507_uc002ntd.2_Missense_Mutation_p.T877A	NM_001136156	NP_001129628	Q8TCN5	ZN507_HUMAN	zinc finger protein 507	877					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|kidney(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(110;0.162)					AGTTCTGGGTACCAACGAGAA	0.453													3	87					0	0	0.004672	0	0		G	32873756	G	G	32873756	3	3	20	1	0	0	0	0	1	0	0	0	17978	391	14	3	2647	3	ZNF507	19	32873756	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1104612	32873756	26255227	1600	18322											
ANKRD27	84079	broad.mit.edu	37	chr19	33135359	33135359	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaatggttttcagggaaaAgggatctgagggtgccaaag	12	10	14	5	0	3	1	2	1	1	0	3	3	3	3	1	4	1	1	1	4	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:33135359A>G	uc002ntn.1	-	5	553	c.397T>C	c.(397-399)TTT>CTT	p.F133L	ANKRD27_uc002nto.1_Missense_Mutation_p.F133L	NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	133					early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					TTCAGGGAAAAGGGATCTGAG	0.502													124	352					0	0	0.01441	0	0		G	33135359	G	G	33135359	3	3	20	1	0	0	0	0	1	0	0	0	655	72	3	3	2855	3	ANKRD27	19	33135359	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	261603	33135359	25993624	1601	18323											
ZNF302	55900	broad.mit.edu	37	chr19	35173767	35173767	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggacttatacaaggatgTgatggtccagaattatgaga	14	10	13	4	0	0	3	0	2	0	2	1	7	1	5	1	3	1	0	1	3	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:35173767T>C	uc002nvr.1	+	4	490	c.227T>C	c.(226-228)GTG>GCG	p.V76A	ZNF302_uc010xrz.1_Missense_Mutation_p.V32A|ZNF302_uc002nvp.1_Missense_Mutation_p.V32A|ZNF302_uc002nvq.1_Missense_Mutation_p.V32A|ZNF302_uc002nvs.1_Missense_Mutation_p.V32A	NM_018443	NP_060913	Q9NR11	ZN302_HUMAN	zinc finger protein 302	Error:Variant_position_missing_in_Q9NR11_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;6.16e-07)|Lung NSC(56;9.71e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			TACAAGGATGTGATGGTCCAG	0.448													44	92					0	0	0.011902	0	0		C	35173767	C	C	35173767	3	2	20	1	0	0	0	0	1	0	0	0	17857	1696	59	3	101	3	ZNF302	19	35173767	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2038408	35173767	23955216	1602	18324											
GRAMD1A	57655	broad.mit.edu	37	chr19	35501006	35501006	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccctctcagattactcctgCgccctgcagcgtgagatcct	6	10	8	17	2	1	2	1	1	1	2	4	3	3	2	5	0	4	1	5	0	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:35501006C>T	uc010xse.1	+	5	473	c.336C>T	c.(334-336)TGC>TGT	p.C112C	GRAMD1A_uc002nxi.1_Silent_p.C199C|GRAMD1A_uc002nxk.2_Silent_p.C105C|GRAMD1A_uc002nxl.2_5'UTR|GRAMD1A_uc010xsf.1_Silent_p.C117C	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	112	GRAM.					integral to membrane					0	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			ATTACTCCTGCGCCCTGCAGC	0.647													46	147					0	0	0.01441	0	0		T	35501006	T	T	35501006	2	4	20	1	0	0	0	0	0	0	0	1	6763	776	27	1		1	GRAMD1A	19	35501006	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	327239	35501006	23627977	1603	18325											
ARHGAP33	115703	broad.mit.edu	37	chr19	36273690	36273690	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtacctgctgaggcaccTggcccgcatggcgagacaca	9	5	14	13	2	0	2	0	1	0	1	0	4	0	3	3	4	2	4	3	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:36273690T>C	uc002obr.1	+	15	1425	c.1340T>C	c.(1339-1341)CTG>CCG	p.L447P	ARHGAP33_uc002obs.1_Missense_Mutation_p.L447P|ARHGAP33_uc002obt.1_Missense_Mutation_p.L311P|ARHGAP33_uc010eel.2_Missense_Mutation_p.L35P|ARHGAP33_uc002obv.1_Missense_Mutation_p.L35P	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	447	Rho-GAP.				cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						CTGAGGCACCTGGCCCGCATG	0.662													11	23					0	0	0.008291	0	0		C	36273690	C	C	36273690	3	2	20	1	0	0	0	0	1	0	0	0	882	1580	55	3	1398	3	ARHGAP33	19	36273690	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	772684	36273690	22855293	1604	18326											
ALKBH6	84964	broad.mit.edu	37	chr19	36501501	36501501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcgtcctctggccgccGcggctcgtagaagtccagca	6	8	12	15	5	2	1	1	0	1	1	6	1	4	1	4	2	1	3	4	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:36501501G>A	uc002oct.2	-	6	521	c.421C>T	c.(421-423)CGG>TGG	p.R141W	C19orf46_uc002ocr.1_5'Flank|C19orf46_uc002ocs.1_5'Flank|C19orf46_uc002ocq.1_5'Flank|C19orf46_uc010een.1_5'Flank|ALKBH6_uc002ocv.1_Missense_Mutation_p.R169W|ALKBH6_uc002ocx.1_Missense_Mutation_p.R72W|ALKBH6_uc002ocw.1_Missense_Mutation_p.A156V|ALKBH6_uc010eeo.1_Missense_Mutation_p.R141W|ALKBH6_uc010eep.1_3'UTR	NM_032878	NP_116267	Q3KRA9	ALKB6_HUMAN	alkB, alkylation repair homolog 6 isoform 2	141	Fe2OG dioxygenase.					cytoplasm|nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0	all_lung(56;1.35e-06)|Lung NSC(56;2.15e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TCTGGCCGCCGCGGCTCGTAG	0.632													13	48					0	0	0.00278	0	0		A	36501501	A	A	36501501	3	1	20	1	0	0	0	0	1	0	0	0	531	1087	38	1	303	1	ALKBH6	19	36501501	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	227811	36501501	22627482	1605	18327											
ZNF790	388536	broad.mit.edu	37	chr19	37310989	37310989	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccattttttggtaataacTtcttggtctgacacctcgac	8	16	7	10	1	2	1	0	1	2	0	3	2	2	1	2	2	2	1	2	2	2	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:37310989T>A	uc002oew.2	-	5	376	c.257A>T	c.(256-258)AAG>ATG	p.K86M	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	86					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TGGTAATAACTTCTTGGTCTG	0.323													14	74					0	0	0.003163	0	0		A	37310989	A	A	37310989	3	1	20	1	0	0	0	0	1	0	0	0	18187	1609	56	5	1657	5	ZNF790	19	37310989	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	809488	37310989	21817994	1606	18328											
ZNF527	84503	broad.mit.edu	37	chr19	37879314	37879314	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctagcaagtcatggcctTgaatgctccagtttcagaga	11	10	11	9	0	2	2	2	1	0	1	3	3	3	2	2	2	2	4	2	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:37879314T>C	uc010efk.1	+	5	474	c.363T>C	c.(361-363)CTT>CTC	p.L121L	ZNF527_uc002ogf.3_Silent_p.L89L|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	121	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTCATGGCCTTGAATGCTCCA	0.423													21	43					0	0	0.010504	0	0		C	37879314	C	C	37879314	2	2	20	1	0	0	0	0	0	0	0	1	17993	1799	63	3		3	ZNF527	19	37879314	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	568325	37879314	21249669	1607	18329											
RYR1	6261	broad.mit.edu	37	chr19	39009883	39009883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccattgtgagccgtgcaCggccggagctcctgcagtcc	6	7	13	15	3	0	1	0	1	0	0	2	2	2	2	5	2	5	3	5	2	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:39009883C>T	uc002oit.2	+	67	10178	c.10048C>T	c.(10048-10050)CGG>TGG	p.R3350W	RYR1_uc002oiu.2_Missense_Mutation_p.R3350W|RYR1_uc002oiv.1_Missense_Mutation_p.R270W|RYR1_uc010xuf.1_Missense_Mutation_p.R270W	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3350					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GAGCCGTGCACGGCCGGAGCT	0.667													45	113					0	0	0.01441	0	0		T	39009883	T	T	39009883	3	4	20	1	0	0	0	0	1	0	0	0	13793	527	19	1	10314	1	RYR1	19	39009883	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1130569	39009883	20119100	1608	18330											
RYR1	6261	broad.mit.edu	37	chr19	39038900	39038900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaacggcatgatcgcccGgcagatggtggacatgctcg	8	7	16	10	4	0	3	0	2	0	1	2	4	0	4	1	5	2	3	1	5	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:39038900G>A	uc002oit.2	+	89	12252	c.12122G>A	c.(12121-12123)CGG>CAG	p.R4041Q	RYR1_uc002oiu.2_Missense_Mutation_p.R4036Q|RYR1_uc002oiv.1_Missense_Mutation_p.R950Q	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4041					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	ATGATCGCCCGGCAGATGGTG	0.567													22	47					0	0	0.00278	0	0		A	39038900	A	A	39038900	3	1	20	1	0	0	0	0	1	0	0	0	13793	1116	39	1	12476	1	RYR1	19	39038900	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	29017	39038900	20090083	1609	18331											
LGALS4	3960	broad.mit.edu	37	chr19	39292738	39292738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacggtaccgttgcccatgCggggattaatgtgcagagct	8	9	13	11	3	0	1	0	0	0	1	0	2	0	2	3	3	5	4	3	3	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:39292738C>T	uc002ojg.2	-	9	933	c.719G>A	c.(718-720)CGC>CAC	p.R240H		NM_006149	NP_006140	P56470	LEG4_HUMAN	galectin-4	240	Galectin 2.				cell adhesion	cytosol|plasma membrane	sugar binding			ovary(1)|skin(1)	2	all_cancers(60;1.02e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			GTTGCCCATGCGGGGATTAAT	0.562													19	49					0	0	0.00278	0	0		T	39292738	T	T	39292738	3	4	20	1	0	0	0	0	1	0	0	0	8761	768	27	1	260	1	LGALS4	19	39292738	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	253838	39292738	19836245	1610	18332											
PAPL	390928	broad.mit.edu	37	chr19	39600757	39600757	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggccggaggatgtacctctAgggatggcggcagctctcct	6	9	15	11	2	2	0	0	0	2	0	3	3	2	3	3	6	2	3	3	6	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:39600757A>G	uc002oki.2	+	13	1590	c.1316A>G	c.(1315-1317)TAG>TGG	p.*439W	PAPL_uc010egl.2_3'UTR	NM_001004318	NP_001004318	Q6ZNF0	PAPL_HUMAN	iron/zinc purple acid phosphatase-like protein	439						extracellular region	acid phosphatase activity|metal ion binding				0						ATGTACCTCTAGGGATGGCGG	0.572											OREG0025457	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	56	136					0	0	0.01441	0	0		G	39600757	G	G	39600757	4	3	20	1	0	0	0	0	0	0	0	0	11446	433	15	3	1362	3	PAPL	19	39600757	Nonstop_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	308019	39600757	19528226	1611	18333											
SAMD4B	55095	broad.mit.edu	37	chr19	39870619	39870619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctaggctttcacggagaCgcagaagaaacggctgctat	12	9	11	9	3	2	3	1	0	1	3	2	4	2	3	0	3	2	4	0	3	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:39870619C>T	uc002olb.2	+	12	2579	c.1544C>T	c.(1543-1545)ACG>ATG	p.T515M	SAMD4B_uc002ola.2_Missense_Mutation_p.T515M	NM_018028	NP_060498	Q5PRF9	SMAG2_HUMAN	sterile alpha motif domain containing 4B	515							protein binding				0	all_cancers(60;2.5e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			TTCACGGAGACGCAGAAGAAA	0.512													7	15					0	0	0.006214	0	0		T	39870619	T	T	39870619	3	4	20	1	0	0	0	0	1	0	0	0	13847	536	19	1	1574	1	SAMD4B	19	39870619	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	269862	39870619	19258364	1612	18334											
SUPT5H	6829	broad.mit.edu	37	chr19	39949665	39949665	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccagcgagaagaagaacTgggcgagtattacatgaaga	16	5	14	6	2	0	5	0	1	0	4	0	8	0	6	1	2	3	1	1	2	6	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:39949665T>C	uc002olo.3	+	7	589	c.410T>C	c.(409-411)CTG>CCG	p.L137P	SUPT5H_uc002olp.3_Missense_Mutation_p.L137P|SUPT5H_uc002olq.3_Missense_Mutation_p.L133P|SUPT5H_uc002oln.3_Missense_Mutation_p.L137P|SUPT5H_uc002olr.3_Missense_Mutation_p.L137P	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	137					cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GAAGAAGAACTGGGCGAGTAT	0.572													27	117					0	0	0.008361	0	0		C	39949665	C	C	39949665	3	2	20	1	0	0	0	0	1	0	0	0	15424	1580	55	3	432	3	SUPT5H	19	39949665	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	79046	39949665	19179318	1613	18335											
SHKBP1	92799	broad.mit.edu	37	chr19	41086254	41086254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgaagcggcggaaccGgcacagcctagtggggcctc	8	4	15	14	3	0	1	0	1	0	0	1	2	0	2	4	5	3	1	4	5	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:41086254G>A	uc002oob.2	+	7	474	c.425G>A	c.(424-426)CGG>CAG	p.R142Q	SHKBP1_uc002ooc.2_Missense_Mutation_p.R142Q|SHKBP1_uc002ood.2_Missense_Mutation_p.R142Q|SHKBP1_uc010xvl.1_Missense_Mutation_p.R65Q|SHKBP1_uc002ooe.2_5'UTR|SHKBP1_uc002oof.2_5'UTR|SHKBP1_uc010xvm.1_5'UTR|SHKBP1_uc010xvn.1_Missense_Mutation_p.R20Q	NM_138392	NP_612401	Q8TBC3	SHKB1_HUMAN	SH3KBP1 binding protein 1	142						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|pancreas(1)	2			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CGGCGGAACCGGCACAGCCTA	0.572													15	25					0	0	0.004007	0	0		A	41086254	A	A	41086254	3	1	20	1	0	0	0	0	1	0	0	0	14309	1116	39	1	451	1	SHKBP1	19	41086254	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1136589	41086254	18042729	1614	18336											
HNRNPUL1	11100	broad.mit.edu	37	chr19	41808741	41808741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggtggcttccggggccGcgggggtggtggtggcttcc	0	10	22	9	3	0	0	0	0	0	0	2	0	2	0	3	10	0	2	3	10	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:41808741G>A	uc002oqb.3	+	12	2148	c.1859G>A	c.(1858-1860)CGC>CAC	p.R620H	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Missense_Mutation_p.R520H|HNRNPUL1_uc002oqa.3_Missense_Mutation_p.R520H|HNRNPUL1_uc010ehm.2_Missense_Mutation_p.R620H|HNRNPUL1_uc002oqc.3_Missense_Mutation_p.R506H|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Missense_Mutation_p.R520H|HNRNPUL1_uc010ehn.2_Missense_Mutation_p.R520H|HNRNPUL1_uc010eho.2_Missense_Mutation_p.R520H|HNRNPUL1_uc010xvy.1_Missense_Mutation_p.R520H|HNRNPUL1_uc010ehp.2_Missense_Mutation_p.R476H|HNRNPUL1_uc002oqf.3_Missense_Mutation_p.R144H	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	620	Necessary for transcription repression.|Necessary for interaction with TP53.|Gly-rich.|1-2.|5 X 3 AA repeats of R-G-G.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						TTCCGGGGCCGCGGGGGTGGT	0.667													23	55					0	0	0.010818	0	0		A	41808741	A	A	41808741	3	1	20	1	0	0	0	0	1	0	0	0	7290	1087	38	1	1905	1	HNRNPUL1	19	41808741	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	722487	41808741	17320242	1615	18337											
B9D2	80776	broad.mit.edu	37	chr19	41860649	41860649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagttgcggagcagcaggcCgatctccaggtgcacggtgc	8	6	16	11	3	1	0	0	0	1	0	2	3	1	1	2	4	5	4	2	4	1	1	rs138230110		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:41860649C>T	uc002oqj.2	-	4	704	c.484G>A	c.(484-486)GGC>AGC	p.G162S	CYP2F1_uc010xvw.1_Intron|TGFB1_uc002oqh.1_5'Flank|TMEM91_uc002oqi.2_Intron	NM_030578	NP_085055	Q9BPU9	B9D2_HUMAN	B9 protein domain 2	162					cilium assembly|mitotic prometaphase	centrosome|cilium axoneme|cytosol|microtubule basal body|nucleus	gamma-tubulin binding			ovary(1)	1						AGCAGCAGGCCGATCTCCAGG	0.642													10	41					0	0	0.001855	0	0		T	41860649	T	T	41860649	3	4	20	1	0	0	0	0	1	0	0	0	1279	652	23	1	47	1	B9D2	19	41860649	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	51908	41860649	17268334	1616	18338											
PSG4	5672	broad.mit.edu	37	chr19	43708390	43708390	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgtgggcggattccagaaGtttaaaagtgatgctaggag	11	11	15	4	1	0	2	0	1	0	1	1	4	1	4	1	3	1	3	1	3	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:43708390G>A	uc002ovy.2	-	2	180	c.78C>T	c.(76-78)AAC>AAT	p.N26N	PSG4_uc002owa.2_RNA|PSG4_uc002owb.2_Silent_p.N26N|PSG4_uc002ovz.2_Silent_p.N26N	NM_002780	NP_002771	Q00888	PSG4_HUMAN	pregnancy specific beta-1-glycoprotein 4 isoform	26					defense response|female pregnancy	extracellular region				ovary(1)	1		Prostate(69;0.00682)				GATTCCAGAAGTTTAAAAGTG	0.468													58	133					0	0	0.01441	0	0		A	43708390	A	A	43708390	2	1	20	1	0	0	0	0	0	0	0	1	12679	1020	36	4		4	PSG4	19	43708390	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1847741	43708390	15420593	1617	18339											
ZNF283	284349	broad.mit.edu	37	chr19	44352263	44352263	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagtgggtatcaacttactCgacatcaggtatttcacact	11	13	8	9	1	3	0	3	0	0	0	4	1	3	0	0	2	2	3	0	2	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:44352263C>T	uc002oxr.3	+	7	1778	c.1510C>T	c.(1510-1512)CGA>TGA	p.R504*	ZNF283_uc002oxp.3_Nonsense_Mutation_p.R365*	NM_181845	NP_862828	Q8N7M2	ZN283_HUMAN	zinc finger protein 283	504	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				TCAACTTACTCGACATCAGGT	0.403													34	130					0	0	0.004289	0	0		T	44352263	T	T	44352263	4	4	20	1	0	0	0	0	0	1	0	0	17845	876	31	1	1524	1	ZNF283	19	44352263	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	643873	44352263	14776720	1618	18340											
ZNF285	26974	broad.mit.edu	37	chr19	44891190	44891190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcttgaactaaagcacttgCcacactcactgcatttgtag	12	11	7	11	0	1	1	1	1	0	0	1	1	1	1	1	0	5	4	1	0	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:44891190C>T	uc002ozd.3	-	4	1304	c.1217G>A	c.(1216-1218)GGC>GAC	p.G406D	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Missense_Mutation_p.G413D	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	406	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						AAAGCACTTGCCACACTCACT	0.493													21	64					0	0	0.012319	0	0		T	44891190	T	T	44891190	3	4	20	1	0	0	0	0	1	0	0	0	17847	739	26	2	559	2	ZNF285	19	44891190	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	538927	44891190	14237793	1619	18341											
ZNF229	7772	broad.mit.edu	37	chr19	44936458	44936458	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttctcctgcatcacatcttgGtacagctgcctctgggtaga	7	13	9	12	0	4	1	1	0	3	1	5	1	4	1	2	2	4	4	2	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:44936458G>A	uc002oze.1	-	5	611	c.177C>T	c.(175-177)TAC>TAT	p.Y59Y	ZNF229_uc010ejk.1_5'UTR|ZNF229_uc010ejl.1_Silent_p.Y59Y	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	59	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				TCACATCTTGGTACAGCTGCC	0.488													4	132					0	0	0.000602	0	0		A	44936458	A	A	44936458	2	1	20	1	0	0	0	0	0	0	0	1	17807	1256	44	4		4	ZNF229	19	44936458	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	45268	44936458	14192525	1620	18342											
NKPD1	284353	broad.mit.edu	37	chr19	45655788	45655788	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgctgctgctgctgcAgcaggcgcacggtgatgggc	4	8	16	13	2	0	1	0	1	0	0	0	1	0	1	1	3	7	8	1	3	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:45655788A>T	uc010xxi.1	-	4	1907	c.1907T>A	c.(1906-1908)CTG>CAG	p.L636Q		NM_198478	NP_940880			NTPase, KAP family P-loop domain containing 1												0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00863)|GBM - Glioblastoma multiforme(486;0.231)		CTGCTGCTGCAGCAGGCGCAC	0.697													3	6					0	0	0.001168	0	0		T	45655788	T	T	45655788	3	4	20	1	0	0	0	0	1	0	0	0	10465	188	7	5	595	5	NKPD1	19	45655788	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	719330	45655788	13473195	1621	18343											
PPP1R13L	10848	broad.mit.edu	37	chr19	45898859	45898859	+	Frame_Shift_Del	DEL	G	-	-																															cgggggtgctcgggtgaagaGgggggacccagggagcatgg																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:45898859delG	uc002pbn.2	-	7	1266	c.1189delC	c.(1189-1191)CTCfs	p.L397fs	PPP1R13L_uc002pbm.2_5'Flank|PPP1R13L_uc002pbo.2_Frame_Shift_Del_p.L397fs|PPP1R13L_uc002pbp.2_Frame_Shift_Del_p.L397fs	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	397	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		CGGGTGAAGAGGGGGGACCCA	0.453													2	4	---	---	---	---						.	-	45898859	-	-	45898859	7	5	20	1	0	1	0	1	0	0	0	0	12380	1000	35	0	1325	0	PPP1R13L	19	45898859	Frame_Shift_Del	DEL	G	TCGA-BR-4362-01A-01D-1158-08	243071	45898859	13230124	1622	18344											
VASP	7408	broad.mit.edu	37	chr19	46020980	46020980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttatgatgatggcaacaagcGatggctccctgctggcacgg	9	9	13	10	2	0	2	0	2	0	0	1	3	1	2	1	4	3	4	1	4	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:46020980G>A	uc002pcg.2	+	2	407	c.65G>A	c.(64-66)CGA>CAA	p.R22Q	VASP_uc010eki.2_Missense_Mutation_p.D6N|VASP_uc002pci.2_Missense_Mutation_p.R9Q	NM_003370	NP_003361	P50552	VASP_HUMAN	vasodilator-stimulated phosphoprotein	22	WH1.				axon guidance|cell junction assembly|T cell receptor signaling pathway	actin cytoskeleton|cytosol|filopodium membrane|focal adhesion|lamellipodium membrane	actin binding|profilin binding|SH3 domain binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0145)|GBM - Glioblastoma multiforme(486;0.154)		GGCAACAAGCGATGGCTCCCT	0.622													13	44					0	0	0.013537	0	0		A	46020980	A	A	46020980	3	1	20	1	0	0	0	0	1	0	0	0	17154	1058	37	1	71	1	VASP	19	46020980	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	122121	46020980	13108003	1623	18345											
EML2	24139	broad.mit.edu	37	chr19	46117919	46117919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccattccatgttcctcacaGcatccgcactggtgatctgc	7	11	7	16	1	2	1	1	1	1	0	5	1	5	1	4	1	2	3	4	1	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:46117919G>A	uc002pcn.2	-	17	1672	c.1637C>T	c.(1636-1638)GCT>GTT	p.A546V	EML2_uc002pco.2_RNA|EML2_uc002pcp.2_Missense_Mutation_p.A430V|EML2_uc010xxl.1_Missense_Mutation_p.A693V|EML2_uc010xxm.1_Missense_Mutation_p.A747V	NM_012155	NP_036287	O95834	EMAL2_HUMAN	echinoderm microtubule associated protein like	546					sensory perception of sound|visual perception	cytoplasm|intracellular membrane-bounded organelle|microtubule|microtubule associated complex	catalytic activity|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00553)|GBM - Glioblastoma multiforme(486;0.131)|Epithelial(262;0.197)		GTTCCTCACAGCATCCGCACT	0.527													78	156					0	0	0.01441	0	0		A	46117919	A	A	46117919	3	1	20	1	0	0	0	0	1	0	0	0	5105	971	34	2	324	2	EML2	19	46117919	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	96939	46117919	13011064	1624	18346											
EML2	24139	broad.mit.edu	37	chr19	46141865	46141865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgggcacagggcggcccCtcaggaacattttcacggag	9	7	13	12	2	3	0	3	0	0	0	3	2	3	2	2	5	1	1	2	5	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:46141865C>T	uc002pcn.2	-	3	112	c.77G>A	c.(76-78)AGG>AAG	p.R26K	EML2_uc002pco.2_RNA|EML2_uc002pcp.2_Intron|EML2_uc010xxl.1_Missense_Mutation_p.R173K|EML2_uc010xxm.1_Missense_Mutation_p.R227K|EML2_uc010xxn.1_RNA|EML2_uc010xxo.1_Missense_Mutation_p.R26K|EML2_uc010ekj.2_Missense_Mutation_p.R26K	NM_012155	NP_036287	O95834	EMAL2_HUMAN	echinoderm microtubule associated protein like	26					sensory perception of sound|visual perception	cytoplasm|intracellular membrane-bounded organelle|microtubule|microtubule associated complex	catalytic activity|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00553)|GBM - Glioblastoma multiforme(486;0.131)|Epithelial(262;0.197)		AGGGCGGCCCCTCAGGAACAT	0.612													30	89					0	0	0.008361	0	0		T	46141865	T	T	46141865	3	4	20	1	0	0	0	0	1	0	0	0	5105	681	24	4	1940	4	EML2	19	46141865	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	23946	46141865	12987118	1625	18347											
PRKD2	25865	broad.mit.edu	37	chr19	47178330	47178330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagatttgtccacgctgtagCgtttgcgcatcttcacctgc	6	13	10	12	3	2	1	1	0	1	1	3	2	3	1	2	0	3	4	2	0	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:47178330C>T	uc002pfh.2	-	18	2726	c.2384G>A	c.(2383-2385)CGC>CAC	p.R795H	PRKD2_uc002pfd.2_Missense_Mutation_p.R169H|PRKD2_uc010eks.2_Missense_Mutation_p.R198H|PRKD2_uc010ekt.2_Missense_Mutation_p.R62H|PRKD2_uc002pfe.2_Missense_Mutation_p.R325H|PRKD2_uc002pff.2_Missense_Mutation_p.R315H|PRKD2_uc002pfg.2_Missense_Mutation_p.R638H|PRKD2_uc002pfi.2_Missense_Mutation_p.R795H|PRKD2_uc002pfj.2_Missense_Mutation_p.R795H|PRKD2_uc010xye.1_Missense_Mutation_p.R805H|PRKD2_uc002pfk.2_Missense_Mutation_p.R638H	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	795	Protein kinase.				cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		CACGCTGTAGCGTTTGCGCAT	0.567													6	15					0	0	0.001984	0	0		T	47178330	T	T	47178330	3	4	20	1	0	0	0	0	1	0	0	0	12541	768	27	1	260	1	PRKD2	19	47178330	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1036465	47178330	11950653	1626	18348											
STRN4	29888	broad.mit.edu	37	chr19	47231155	47231155	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggtgcctcttaccttcAtgtggccggggctggggtgt	2	11	19	9	1	2	0	1	0	1	0	2	0	2	0	3	8	2	1	3	8	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:47231155A>G	uc002pfl.2	-	8	1182	c.1149T>C	c.(1147-1149)CAT>CAC	p.H383H	STRN4_uc002pfm.2_Silent_p.H383H|STRN4_uc010xyf.1_RNA|STRN4_uc010xyg.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	383						cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)		TCTTACCTTCATGTGGCCGGG	0.657													5	41					0	0	0.001168	0	0		G	47231155	G	G	47231155	2	3	20	1	0	0	0	0	0	0	0	1	15356	214	8	3		3	STRN4	19	47231155	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	52825	47231155	11897828	1627	18349											
STRN4	29888	broad.mit.edu	37	chr19	47242087	47242087	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcttgatccgccgcaccAggtccgtctttagattctcc	6	12	8	15	3	3	2	0	1	3	1	6	2	5	2	5	1	0	2	5	1	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:47242087A>G	uc002pfl.2	-	2	374	c.341T>C	c.(340-342)CTG>CCG	p.L114P	STRN4_uc002pfm.2_Missense_Mutation_p.L114P|STRN4_uc010xyf.1_RNA|STRN4_uc010xyg.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	114	Potential.					cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)		CCGCCGCACCAGGTCCGTCTT	0.582													14	102					0	0	0.006122	0	0		G	47242087	G	G	47242087	3	3	20	1	0	0	0	0	1	0	0	0	15356	188	7	3	2005	3	STRN4	19	47242087	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	10932	47242087	11886896	1628	18350											
CYTH2	9266	broad.mit.edu	37	chr19	48977543	48977543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgctttgtggccatgaacCggggcatcaacgagggcggg	8	6	17	10	4	1	1	1	1	0	0	1	2	1	1	2	5	3	2	2	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:48977543C>T	uc002pjj.3	+	7	952	c.652C>T	c.(652-654)CGG>TGG	p.R218W	CYTH2_uc002pji.2_RNA	NM_017457	NP_059431	Q99418	CYH2_HUMAN	cytohesin 2 isoform 1	218					actin cytoskeleton organization|endocytosis|regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|membrane fraction|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						GGCCATGAACCGGGGCATCAA	0.642													24	84					0	0	0.012213	0	0		T	48977543	T	T	48977543	3	4	20	1	0	0	0	0	1	0	0	0	4207	643	23	1	678	1	CYTH2	19	48977543	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1735456	48977543	10151440	1629	18351											
NUCB1	4924	broad.mit.edu	37	chr19	49409126	49409126	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcaaggccaagatggaCgccgagcaggatcccagtga	11	5	13	12	2	1	2	1	1	0	1	2	5	2	4	3	3	2	2	3	3	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:49409126C>T	uc002plb.3	+	4	432	c.360C>T	c.(358-360)GAC>GAT	p.D120D	NUCB1_uc002pla.2_Silent_p.D120D|NUCB1_uc002plc.2_Silent_p.D120D	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	120						ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		CCAAGATGGACGCCGAGCAGG	0.657													14	24					0	0	0.003163	0	0		T	49409126	T	T	49409126	2	4	20	1	0	0	0	0	0	0	0	1	10737	535	19	1		1	NUCB1	19	49409126	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	431583	49409126	9719857	1630	18352											
RPS11	6205	broad.mit.edu	37	chr19	50001234	50001234	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgccgagactatctgcactAcatccgcaagtacaaccgct	11	7	7	16	4	1	1	0	0	1	1	2	2	2	1	4	0	4	4	4	0	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:50001234A>G	uc002pob.1	+	4	364	c.284A>G	c.(283-285)TAC>TGC	p.Y95C		NM_001015	NP_001006	P62280	RS11_HUMAN	ribosomal protein S11	95					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein binding|rRNA binding|structural constituent of ribosome				0		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00206)|GBM - Glioblastoma multiforme(486;0.0245)		TATCTGCACTACATCCGCAAG	0.572													3	71					0	0	0.004672	0	0		G	50001234	G	G	50001234	3	3	20	1	0	0	0	0	1	0	0	0	13646	391	14	3	298	3	RPS11	19	50001234	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	592108	50001234	9127749	1631	18353											
TSKS	60385	broad.mit.edu	37	chr19	50266380	50266380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgggatccccttggccCggctggtcaccctccgggga	3	9	13	16	3	2	0	1	0	1	0	5	2	4	2	5	6	0	1	5	6	0	2	rs146466500		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:50266380C>T	uc002ppm.2	-	1	136	c.125G>A	c.(124-126)CGG>CAG	p.R42Q		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	42							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		CCCCTTGGCCCGGCTGGTCAC	0.617													45	114					0	0	0.01441	0	0		T	50266380	T	T	50266380	3	4	20	1	0	0	0	0	1	0	0	0	16652	652	23	1	1697	1	TSKS	19	50266380	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	265146	50266380	8862603	1632	18354											
SIGLEC11	114132	broad.mit.edu	37	chr19	50455204	50455204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcagctgctgccctcttgcGagcttccttcctgcagatct	4	13	8	16	1	3	1	1	0	2	1	5	2	5	1	3	0	6	4	3	0	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:50455204G>A	uc010ybh.1	-	10	1865	c.1774C>T	c.(1774-1776)CGC>TGC	p.R592C	SIGLEC11_uc010ybi.1_Missense_Mutation_p.R496C	NM_052884	NP_443116	Q96RL6	SIG11_HUMAN	sialic acid binding Ig-like lectin 11 isoform 1	592	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|central_nervous_system(2)|pancreas(1)	6		all_lung(116;0.00318)|all_neural(266;0.107)|Ovarian(192;0.17)		GBM - Glioblastoma multiforme(134;0.00107)|OV - Ovarian serous cystadenocarcinoma(262;0.00517)		GCCCTCTTGCGAGCTTCCTTC	0.642													7	25					0	0	0.004482	0	0		A	50455204	A	A	50455204	3	1	20	1	0	0	0	0	1	0	0	0	14332	1058	37	1	330	1	SIGLEC11	19	50455204	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	188824	50455204	8673779	1633	18355											
C19orf41	126123	broad.mit.edu	37	chr19	50666247	50666247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacaaacacgttcagcgCgtagtcccggaagaaaggcc	12	4	10	15	4	1	1	1	0	0	1	2	2	2	2	4	2	2	2	4	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:50666247C>T	uc002prp.1	-	1	292	c.205G>A	c.(205-207)GCG>ACG	p.A69T		NM_152358	NP_689571	Q6UXV1	IZUM2_HUMAN	hypothetical protein LOC126123 precursor	69	Extracellular (Potential).					integral to membrane					0		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00364)|OV - Ovarian serous cystadenocarcinoma(262;0.0052)		ACGTTCAGCGCGTAGTCCCGG	0.682													12	38					0	0	0.001855	0	0		T	50666247	T	T	50666247	3	4	20	1	0	0	0	0	1	0	0	0	1927	768	27	1	488	1	C19orf41	19	50666247	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	211043	50666247	8462736	1634	18356											
NAPSA	9476	broad.mit.edu	37	chr19	50862305	50862306	+	Frame_Shift_Ins	INS	-	C	C																															ggccgtgaggttaaaccagaINScccccccaagaaggaaggag																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:50862305_50862306insC	uc002prx.2	-	8	1050_1051	c.997_998insG	c.(997-999)GTCfs	p.V333fs	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	333					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		GTTAAACCAGACCCCCCCAAGA	0.53													38	86	---	---	---	---						.	C	50862306	C	C	50862305	7	5	20	1	0	1	1	0	0	0	0	0	10184	275	10	0	272	0	NAPSA	19	50862305	Frame_Shift_Ins	INS	-	TCGA-BR-4362-01A-01D-1158-08	196058	50862305	8266678	1635	18357											
KLK11	11012	broad.mit.edu	37	chr19	51525925	51525925	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatgccttgaagagactggTtacagaccagagggcccccg	11	7	12	11	1	0	4	0	1	0	3	0	5	0	4	4	2	2	1	4	2	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:51525925T>C	uc002pvd.1	-	6	837	c.725A>G	c.(724-726)AAC>AGC	p.N242S	KLK10_uc002puy.2_5'Flank|KLK10_uc002puz.2_5'Flank|KLK10_uc002pva.2_5'Flank|KLK11_uc002pvb.1_Missense_Mutation_p.N235S|KLK11_uc002pve.1_Missense_Mutation_p.N99S|KLK11_uc002pvf.1_Missense_Mutation_p.N210S|KLK11_uc002pvc.3_Missense_Mutation_p.N210S	NM_144947	NP_659196	Q9UBX7	KLK11_HUMAN	kallikrein 11 isoform 2 precursor	242	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00327)|GBM - Glioblastoma multiforme(134;0.00878)		AAGAGACTGGTTACAGACCAG	0.572													3	141					0	0	0.001168	0	0		C	51525925	C	C	51525925	3	2	20	1	0	0	0	0	1	0	0	0	8415	1725	60	3	127	3	KLK11	19	51525925	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	663620	51525925	7603058	1636	18358											
ETFB	2109	broad.mit.edu	37	chr19	51848577	51848577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgatcacagagagcttggagGtcaggtccacacccaggtcc	10	7	12	12	0	2	2	2	1	0	1	4	4	4	3	3	4	1	1	3	4	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:51848577G>A	uc002pwh.2	-	6	748	c.656C>T	c.(655-657)ACC>ATC	p.T219I	ETFB_uc002pwg.2_Missense_Mutation_p.T310I	NM_001985	NP_001976	P38117	ETFB_HUMAN	electron-transfer-flavoprotein, beta polypeptide	219					respiratory electron transport chain|transport	mitochondrial matrix	electron carrier activity				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000226)|OV - Ovarian serous cystadenocarcinoma(262;0.00661)		GAGCTTGGAGGTCAGGTCCAC	0.587													18	61					0	0	0.008871	0	0		A	51848577	A	A	51848577	3	1	20	1	0	0	0	0	1	0	0	0	5278	1261	44	4	115	4	ETFB	19	51848577	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	322652	51848577	7280406	1637	18359											
ZNF480	147657	broad.mit.edu	37	chr19	52825530	52825530	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatactggagagaagcctTacaaatgtgatgaatgtggc	13	12	11	5	0	0	3	0	2	0	1	0	5	0	4	1	2	3	0	1	2	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:52825530T>C	uc010ydl.1	+	5	1097	c.1027T>C	c.(1027-1029)TAC>CAC	p.Y343H	ZNF480_uc002pyv.2_Missense_Mutation_p.Y266H|ZNF480_uc010ydm.1_Missense_Mutation_p.Y300H|ZNF480_uc010epn.2_Missense_Mutation_p.Y174H|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	343	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		AGAGAAGCCTTACAAATGTGA	0.378													6	94					0	0	0.001168	0	0		C	52825530	C	C	52825530	3	2	20	1	0	0	0	0	1	0	0	0	17960	1754	61	3	1041	3	ZNF480	19	52825530	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	976953	52825530	6303453	1638	18360											
ZNF468	90333	broad.mit.edu	37	chr19	53344411	53344411	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacatttgtaaggtttctctCcagtatgaagtctatgatgg	10	15	9	7	0	2	2	0	2	2	0	4	2	3	2	1	2	0	3	1	2	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:53344411C>A	uc002qaf.2	-	4	1287	c.1136G>T	c.(1135-1137)GGA>GTA	p.G379V	ZNF468_uc002qae.2_Missense_Mutation_p.G326V	NM_001008801	NP_001008801	Q5VIY5	ZN468_HUMAN	zinc finger protein ZNF468 isoform 2	379					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0358)		AGGTTTCTCTCCAGTATGAAG	0.388													54	164					4.78724e-31	5.16434e-31	0.01441	1	0		A	53344411	A	A	53344411	3	1	20	1	0	0	0	0	1	0	0	0	17953	855	30	5	436	5	ZNF468	19	53344411	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	518881	53344411	5784572	1639	18361											
ZNF347	84671	broad.mit.edu	37	chr19	53644898	53644898	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaaggtttttctccactgtGggttgcctgatggatagcta	7	15	12	7	0	1	1	0	1	1	0	2	2	1	2	2	3	2	4	2	3	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:53644898G>T	uc002qbb.1	-	5	1252	c.1183C>A	c.(1183-1185)CAC>AAC	p.H395N	ZNF347_uc010eql.1_Missense_Mutation_p.H396N|ZNF347_uc002qbc.1_Missense_Mutation_p.H396N	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	395	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		TCTCCACTGTGGGTTGCCTGA	0.418													41	106					9.9191e-30	1.0695e-29	0.00874	1	0		T	53644898	T	T	53644898	3	4	20	1	0	0	0	0	1	0	0	0	17886	1348	47	5	1340	5	ZNF347	19	53644898	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	300487	53644898	5484085	1640	18362											
ZNF677	342926	broad.mit.edu	37	chr19	53740463	53740463	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctccagtatggattttcTtatgctgagtaagatttgaa	10	17	8	6	0	2	3	0	2	2	1	4	4	3	4	1	1	1	3	1	1	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:53740463T>A	uc002qbf.1	-	5	1702	c.1517A>T	c.(1516-1518)AAG>ATG	p.K506M	ZNF677_uc002qbg.1_Missense_Mutation_p.K506M	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	506	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		ATGGATTTTCTTATGCTGAGT	0.388													19	90					0	0	0.008871	0	0		A	53740463	A	A	53740463	3	1	20	1	0	0	0	0	1	0	0	0	18109	1609	56	5	241	5	ZNF677	19	53740463	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	95565	53740463	5388520	1641	18363											
ZNF761	388561	broad.mit.edu	37	chr19	53958901	53958901	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacttcatactggagagaaAccctacaaatgtaatgagtg	16	9	9	7	0	1	3	1	1	0	2	1	5	1	4	1	1	3	1	1	1	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:53958901A>G	uc010eqp.2	+	7	1598	c.1140A>G	c.(1138-1140)AAA>AAG	p.K380K	ZNF761_uc010ydy.1_Silent_p.K326K|ZNF761_uc002qbt.1_Silent_p.K326K	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	380					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		CTGGAGAGAAACCCTACAAAT	0.413													6	283					0	0	0.001168	0	0		G	53958901	G	G	53958901	2	3	20	1	0	0	0	0	0	0	0	1	18161	40	2	3		3	ZNF761	19	53958901	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	218438	53958901	5170082	1642	18364											
ZNF813	126017	broad.mit.edu	37	chr19	53994944	53994944	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagccctcgtaattcatacGgcaattcatactggagagaa	13	10	8	10	2	3	1	3	0	0	1	4	3	3	2	1	2	3	2	1	2	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:53994944G>A	uc002qbu.2	+	4	1586	c.1458G>A	c.(1456-1458)ACG>ACA	p.T486T	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	486	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		TAATTCATACGGCAATTCATA	0.403													7	82					0	0	0.001984	0	0		A	53994944	A	A	53994944	2	1	20	1	0	0	0	0	0	0	0	1	18200	1103	39	1		1	ZNF813	19	53994944	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	36043	53994944	5134039	1643	18365											
NLRP12	91662	broad.mit.edu	37	chr19	54297342	54297342	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaggttttgttactcgaagCgctgccaacctactgtgggt	8	13	11	9	2	0	0	0	0	0	0	1	1	0	0	2	2	5	3	2	2	5	5	rs148506660		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:54297342C>T	uc002qch.3	-	10	3367	c.3147G>A	c.(3145-3147)GCG>GCA	p.A1049A	NLRP12_uc010eqw.2_Silent_p.A275A|NLRP12_uc002qci.3_Silent_p.A992A|NLRP12_uc002qcj.3_Silent_p.A1050A|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_3'UTR	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	1049	LRR 8.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		TTACTCGAAGCGCTGCCAACC	0.463													22	59					0	0	0.005443	0	0		T	54297342	T	T	54297342	2	4	20	1	0	0	0	0	0	0	0	1	10493	755	27	1		1	NLRP12	19	54297342	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	302398	54297342	4831641	1644	18366											
PRKCG	5582	broad.mit.edu	37	chr19	54406340	54406340	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctagatcattgcctaccAgccctatgggaagtctgtcg	8	10	9	14	1	2	1	1	0	1	1	3	2	2	2	5	1	3	0	5	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:54406340A>G	uc002qcq.1	+	15	1871	c.1589A>G	c.(1588-1590)CAG>CGG	p.Q530R	PRKCG_uc010yeg.1_Missense_Mutation_p.Q530R|PRKCG_uc010yeh.1_Missense_Mutation_p.Q417R	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	530	Protein kinase.				activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		ATTGCCTACCAGCCCTATGGG	0.562													6	423					0	0	0.00308	0	0		G	54406340	G	G	54406340	3	3	20	1	0	0	0	0	1	0	0	0	12534	188	7	3	1647	3	PRKCG	19	54406340	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	108998	54406340	4722643	1645	18367											
CACNG7	59284	broad.mit.edu	37	chr19	54416138	54416138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgagcagcgtgtttggtgCgtgtggcctgctcctggtag	3	12	17	9	2	0	1	0	1	0	0	1	1	1	1	2	3	4	5	2	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:54416138C>T	uc002qcr.1	+	1	68	c.53C>T	c.(52-54)GCG>GTG	p.A18V	CACNG7_uc010era.1_Missense_Mutation_p.A18V	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	18	Helical; (Potential).				regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0711)		GTGTTTGGTGCGTGTGGCCTG	0.632													13	36					0	0	0.00245	0	0		T	54416138	T	T	54416138	3	4	20	1	0	0	0	0	1	0	0	0	2565	768	27	1	55	1	CACNG7	19	54416138	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	9798	54416138	4712845	1646	18368											
PRPF31	26121	broad.mit.edu	37	chr19	54626916	54626916	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaccatcatggtcgtcagCgtcaccgcctccaccaccca	8	6	7	20	3	3	0	3	0	0	0	5	0	4	0	7	1	1	0	7	1	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:54626916C>T	uc002qdh.2	+	6	900	c.504C>T	c.(502-504)AGC>AGT	p.S168S	PRPF31_uc010yek.1_Silent_p.S168S	NM_015629	NP_056444	Q8WWY3	PRP31_HUMAN	pre-mRNA processing factor 31 homolog	168					assembly of spliceosomal tri-snRNP	Cajal body|MLL1 complex|nuclear speck|U4 snRNP|U4/U6 x U5 tri-snRNP complex|U4atac snRNP	RNA binding|snRNP binding			ovary(1)	1	all_cancers(19;0.00681)|all_epithelial(19;0.00362)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					TGGTCGTCAGCGTCACCGCCT	0.597													19	80					0	0	0.012319	0	0		T	54626916	T	T	54626916	2	4	20	1	0	0	0	0	0	0	0	1	12588	767	27	1		1	PRPF31	19	54626916	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	210778	54626916	4502067	1647	18369											
CNOT3	4849	broad.mit.edu	37	chr19	54647433	54647433	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagacatgggtagcgtccaAcgagatcaaggacaagaggc	15	4	13	9	2	1	3	1	0	0	3	2	5	2	4	1	3	2	1	1	3	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:54647433A>G	uc002qdj.1	+	5	517	c.206A>G	c.(205-207)AAC>AGC	p.N69S	CNOT3_uc010yel.1_Missense_Mutation_p.N69S|CNOT3_uc002qdi.2_5'UTR|CNOT3_uc002qdk.1_Missense_Mutation_p.N69S|CNOT3_uc010ere.1_RNA	NM_014516	NP_055331	O75175	CNOT3_HUMAN	CCR4-NOT transcription complex, subunit 3	69					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GTAGCGTCCAACGAGATCAAG	0.443													4	98					0	0	0.009096	0	0		G	54647433	G	G	54647433	3	3	20	1	0	0	0	0	1	0	0	0	3623	43	2	3	220	3	CNOT3	19	54647433	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	20517	54647433	4481550	1648	18370											
CNOT3	4849	broad.mit.edu	37	chr19	54649502	54649502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgactcatcccaggaccccGacttcgaggagaacgagttt	10	9	10	12	3	1	2	1	1	0	1	3	7	2	3	3	2	1	1	3	2	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:54649502G>A	uc002qdj.1	+	8	963	c.652G>A	c.(652-654)GAC>AAC	p.D218N	CNOT3_uc010yel.1_Missense_Mutation_p.D218N|CNOT3_uc002qdi.2_Missense_Mutation_p.D131N|CNOT3_uc002qdk.1_Missense_Mutation_p.D218N|CNOT3_uc010ere.1_RNA	NM_014516	NP_055331	O75175	CNOT3_HUMAN	CCR4-NOT transcription complex, subunit 3	218					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CCAGGACCCCGACTTCGAGGA	0.567													17	44					0	0	0.007413	0	0		A	54649502	A	A	54649502	3	1	20	1	0	0	0	0	1	0	0	0	3623	1058	37	1	678	1	CNOT3	19	54649502	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2069	54649502	4479481	1649	18371											
LENG8	114823	broad.mit.edu	37	chr19	54967522	54967522	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgactcccactcagactcCgacagctcctactcagggaa	11	7	8	15	1	2	2	2	1	0	1	5	4	5	3	3	1	2	1	3	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:54967522C>T	uc002qfv.1	+	9	1356	c.1212C>T	c.(1210-1212)TCC>TCT	p.S404S	LENG8_uc002qfw.2_Silent_p.S441S			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	404	Ser-rich.						protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		ACTCAGACTCCGACAGCTCCT	0.662													27	81					0	0	0.010818	0	0		T	54967522	T	T	54967522	2	4	20	1	0	0	0	0	0	0	0	1	8740	639	23	1		1	LENG8	19	54967522	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	318020	54967522	4161461	1650	18372											
KIR2DL3	3804	broad.mit.edu	37	chr19	55263953	55263953	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcgtgtacacggaactTccaaatgctgagccctgatc	11	10	8	12	2	1	2	1	2	0	0	4	3	2	3	2	1	4	2	2	1	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:55263953T>C	uc002qgv.2	+	8	1026	c.1008T>C	c.(1006-1008)CTT>CTC	p.L336L	KIR2DS4_uc010yfj.1_5'Flank|KIR2DL3_uc002qgx.2_Silent_p.L336L|KIR2DL3_uc002qgy.2_Silent_p.L238L|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_Intron|KIR3DP1_uc010yfi.1_5'Flank	NM_015868	NP_056952	P43628	KI2L3_HUMAN	killer cell immunoglobulin-like receptor, two	336	Cytoplasmic (Potential).				immune response|regulation of immune response	integral to plasma membrane	antigen binding|protein binding|receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		ACACGGAACTTCCAAATGCTG	0.507													19	156					0	0	0.008871	0	0		C	55263953	C	C	55263953	2	2	20	1	0	0	0	0	0	0	0	1	8333	1770	62	3		3	KIR2DL3	19	55263953	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	296431	55263953	3865030	1651	18373											
SYT5	6861	broad.mit.edu	37	chr19	55687082	55687082	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggcaggagctcaccttgaAggcgaaggtctccccaaagt	12	6	12	11	1	2	1	1	1	1	0	3	3	2	2	3	4	1	2	3	4	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:55687082A>G	uc002qjm.1	-	4	1595	c.535T>C	c.(535-537)TTC>CTC	p.F179L	SYT5_uc002qjp.2_Missense_Mutation_p.F176L|SYT5_uc002qjn.1_Missense_Mutation_p.F179L|SYT5_uc002qjo.1_Missense_Mutation_p.F179L	NM_003180	NP_003171	O00445	SYT5_HUMAN	synaptotagmin V	179	Cytoplasmic (Potential).|C2 1.				energy reserve metabolic process|regulation of insulin secretion|synaptic transmission	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane	metal ion binding|transporter activity				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		CTCACCTTGAAGGCGAAGGTC	0.627													12	84					0	0	0.001855	0	0		G	55687082	G	G	55687082	3	3	20	1	0	0	0	0	1	0	0	0	15502	72	3	3	645	3	SYT5	19	55687082	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	423129	55687082	3441901	1652	18374											
TMEM150B	284417	broad.mit.edu	37	chr19	55828178	55828178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaatgaggatggtgcagaCgctgcagaggcccaggcgga	11	4	16	10	2	0	3	0	1	0	2	0	5	0	5	1	5	2	3	1	5	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:55828178C>T	uc010esw.1	-	7	654	c.481G>A	c.(481-483)GTC>ATC	p.V161I	TMEM150B_uc010yfu.1_Missense_Mutation_p.V161I|TMEM150B_uc010yfv.1_RNA|TMEM150B_uc010yfw.1_RNA	NM_001085488	NP_001078957	A6NC51	T150B_HUMAN	transmembrane protein 150B precursor	161	Helical; (Potential).					integral to membrane					0						ATGGTGCAGACGCTGCAGAGG	0.622													4	14					0	0	0.00308	0	0		T	55828178	T	T	55828178	3	4	20	1	0	0	0	0	1	0	0	0	16093	536	19	1	228	1	TMEM150B	19	55828178	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	141096	55828178	3300805	1653	18375											
ZNF628	89887	broad.mit.edu	37	chr19	55994860	55994860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgcgggcagtggggaaagCgggccagggggcgggagtgg	6	2	24	9	4	0	0	0	0	0	0	0	2	0	2	2	8	1	1	2	8	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:55994860C>T	uc002qld.2	+	3	2853	c.2288C>T	c.(2287-2289)GCG>GTG	p.A763V	NAT14_uc002qle.1_5'Flank	NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	763	Gly-rich.					nucleus	DNA binding|zinc ion binding				0	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0531)		GTGGGGAAAGCGGGCCAGGGG	0.756													3	6					0	0	0.009096	0	0		T	55994860	T	T	55994860	3	4	20	1	0	0	0	0	1	0	0	0	18077	768	27	1	2290	1	ZNF628	19	55994860	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	166682	55994860	3134123	1654	18376											
NLRP11	204801	broad.mit.edu	37	chr19	56321607	56321607	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaacacatctgacgaaacGtcacgaaaaaatttataatg	19	9	6	7	3	2	2	1	1	1	1	2	4	2	2	0	0	2	0	0	0	8	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:56321607G>A	uc010ygf.1	-	5	1080	c.369C>T	c.(367-369)GAC>GAT	p.D123D	NLRP11_uc002qlz.2_Silent_p.D24D|NLRP11_uc002qmb.2_Silent_p.D24D|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	123							ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		CTGACGAAACGTCACGAAAAA	0.383													17	54					0	0	0.006122	0	0		A	56321607	A	A	56321607	2	1	20	1	0	0	0	0	0	0	0	1	10492	1136	40	1		1	NLRP11	19	56321607	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	326747	56321607	2807376	1655	18377											
NLRP4	147945	broad.mit.edu	37	chr19	56369846	56369846	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaggaaaagacctggccCtgacctgccagagcactacc	14	4	10	13	0	0	4	0	1	0	3	0	5	0	5	5	2	3	1	5	2	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:56369846C>A	uc002qmd.3	+	3	1509	c.1087C>A	c.(1087-1089)CTG>ATG	p.L363M	NLRP4_uc002qmf.2_Missense_Mutation_p.L288M|NLRP4_uc010etf.2_Missense_Mutation_p.L194M	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	363	NACHT.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		AGACCTGGCCCTGACCTGCCA	0.537													18	59					3.52763e-06	3.62916e-06	0.00499	1	0		A	56369846	A	A	56369846	3	1	20	1	0	0	0	0	1	0	0	0	10498	680	24	5	1093	5	NLRP4	19	56369846	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	48239	56369846	2759137	1656	18378											
NLRP5	126206	broad.mit.edu	37	chr19	56515446	56515446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccctctcggagaaggcaCgggatgacatgaaaagtaag	15	5	13	8	2	1	3	0	2	1	1	2	6	1	4	1	3	1	2	1	3	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:56515446C>T	uc002qmj.2	+	2	427	c.427C>T	c.(427-429)CGG>TGG	p.R143W	NLRP5_uc002qmi.2_Missense_Mutation_p.R143W	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	143	DAPIN.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		GGAGAAGGCACGGGATGACAT	0.512													26	65					0	0	0.007291	0	0		T	56515446	T	T	56515446	3	4	20	1	0	0	0	0	1	0	0	0	10499	527	19	1	433	1	NLRP5	19	56515446	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	145600	56515446	2613537	1657	18379											
ZNF471	57573	broad.mit.edu	37	chr19	57036593	57036593	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtgggaaagccttcagtgTtcacataggacttattctgc	9	14	10	8	0	3	0	2	0	1	0	3	2	3	2	1	2	2	1	1	2	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:57036593T>C	uc002qnh.2	+	5	1290	c.1157T>C	c.(1156-1158)GTT>GCT	p.V386A		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	386	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		GCCTTCAGTGTTCACATAGGA	0.408													5	169					0	0	0.001168	0	0		C	57036593	C	C	57036593	3	2	20	1	0	0	0	0	1	0	0	0	17955	1725	60	3	1171	3	ZNF471	19	57036593	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	521147	57036593	2092390	1658	18380											
ZNF71	58491	broad.mit.edu	37	chr19	57133348	57133348	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagacttcctctctcacccaGcacgagcggatccacacggg	10	6	9	16	3	2	1	1	0	1	1	5	3	4	2	3	2	2	1	3	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:57133348G>A	uc002qnm.3	+	3	931	c.693G>A	c.(691-693)CAG>CAA	p.Q231Q		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	231	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		CTCTCACCCAGCACGAGCGGA	0.637													16	31					0	0	0.007413	0	0		A	57133348	A	A	57133348	2	1	20	1	0	0	0	0	0	0	0	1	18139	962	34	2		2	ZNF71	19	57133348	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	96755	57133348	1995635	1659	18381											
ZNF530	348327	broad.mit.edu	37	chr19	58117151	58117151	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actccaaaggcagatacatcCactgataagagtcacccctg	14	7	7	13	0	1	3	1	1	0	2	3	3	3	3	4	1	1	1	4	1	3	2	rs144915290		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:58117151C>A	uc002qpk.2	+	3	478	c.258C>A	c.(256-258)TCC>TCA	p.S86S	ZNF547_uc002qpm.3_Intron|ZNF530_uc002qpl.2_RNA	NM_020880	NP_065931	Q6P9A1	ZN530_HUMAN	zinc finger protein 530	86	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0443)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		CAGATACATCCACTGATAAGA	0.502													32	78					1.62565e-12	1.71596e-12	0.012213	1	0		A	58117151	A	A	58117151	2	1	20	1	0	0	0	0	0	0	0	1	17996	581	21	5		5	ZNF530	19	58117151	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	983803	58117151	1011832	1660	18382											
ZNF551	90233	broad.mit.edu	37	chr19	58198191	58198191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgttgaattatttcacctGtggggaggccttcccagccc	6	13	11	11	0	1	1	1	1	0	0	2	2	2	2	4	3	1	1	4	3	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:58198191G>A	uc002qpw.3	+	3	723	c.500G>A	c.(499-501)TGT>TAT	p.C167Y	ZNF551_uc002qpv.3_Missense_Mutation_p.C110Y|ZNF776_uc002qpx.2_Intron	NM_138347	NP_612356	Q7Z340	ZN551_HUMAN	zinc finger protein 551	183					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TATTTCACCTGTGGGGAGGCC	0.512													22	58					0	0	0.014323	0	0		A	58198191	A	A	58198191	3	1	20	1	0	0	0	0	1	0	0	0	18008	1377	48	4	510	4	ZNF551	19	58198191	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	81040	58198191	930792	1661	18383											
ZNF671	79891	broad.mit.edu	37	chr19	58232420	58232420	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctaaagaatttcccacatTcgctgcactcgtatggcctt	9	13	7	12	2	1	1	0	0	1	1	4	1	2	1	2	1	1	3	2	1	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:58232420T>C	uc002qpz.3	-	4	1133	c.1034A>G	c.(1033-1035)GAA>GGA	p.E345G	ZNF776_uc002qpx.2_Intron|ZNF671_uc010eug.2_Missense_Mutation_p.E268G|ZNF671_uc010yhf.1_Missense_Mutation_p.E247G	NM_024833	NP_079109	Q8TAW3	ZN671_HUMAN	zinc finger protein 671	345	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TTTCCCACATTCGCTGCACTC	0.448													4	128					0	0	0.009096	0	0		C	58232420	C	C	58232420	3	2	20	1	0	0	0	0	1	0	0	0	18103	1783	62	3	574	3	ZNF671	19	58232420	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	34229	58232420	896563	1662	18384											
ZNF587	84914	broad.mit.edu	37	chr19	58370966	58370966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggtcaaaagggcaacctcGttcaccatcagcgaggtcat	11	9	10	11	2	4	0	4	0	0	0	5	1	4	0	2	3	2	2	2	3	3	2	rs140156678		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:58370966G>A	uc002qql.2	+	3	1324	c.1186G>A	c.(1186-1188)GTT>ATT	p.V396I	ZNF587_uc002qqb.2_Missense_Mutation_p.V353I|ZNF587_uc010yhh.1_Missense_Mutation_p.V353I|ZNF587_uc002qqi.1_Missense_Mutation_p.V353I|ZNF587_uc002qqj.1_RNA|ZNF814_uc002qqk.2_Intron|ZNF587_uc010yhk.1_Missense_Mutation_p.V395I	NM_032828	NP_116217	Q96SQ5	ZN587_HUMAN	zinc finger protein 587	396	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)		GGGCAACCTCGTTCACCATCA	0.463													62	196					0	0	0.01441	0	0		A	58370966	A	A	58370966	3	1	20	1	0	0	0	0	1	0	0	0	18045	1145	40	1	1196	1	ZNF587	19	58370966	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	138546	58370966	758017	1663	18385											
ZNF132	7691	broad.mit.edu	37	chr19	58945384	58945384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtgtgaactttctgatgtCgaaggagatgggagctttgg	9	12	15	5	1	1	3	0	2	1	1	2	6	1	4	0	3	2	1	0	3	2	2	rs140714420		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr19:58945384C>T	uc002qst.3	-	3	1828	c.1427G>A	c.(1426-1428)CGA>CAA	p.R476Q		NM_003433	NP_003424	P52740	ZN132_HUMAN	zinc finger protein 132	476	C2H2-type 10.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0171)|Lung(386;0.182)		TTTCTGATGTCGAAGGAGATG	0.483													22	60					0	0	0.010504	0	0		T	58945384	T	T	58945384	3	4	20	1	0	0	0	0	1	0	0	0	17747	884	31	1	697	1	ZNF132	19	58945384	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	574418	58945384	183599	1664	18386											
DEFB125	245938	broad.mit.edu	37	chr20	76676	76676	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accccaaaaatgttggaagaAtaatgtaggacattgcagaa	18	8	9	6	0	0	2	0	0	0	2	0	4	0	4	2	2	1	3	2	2	7	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:76676A>C	uc002wcw.2	+	2	89	c.89A>C	c.(88-90)AAT>ACT	p.N30T		NM_153325	NP_697020	Q8N687	DB125_HUMAN	defensin, beta 125 preproprotein	30					defense response to bacterium	extracellular region				ovary(1)|central_nervous_system(1)|skin(1)	3		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.156)			TGTTGGAAGAATAATGTAGGA	0.323													6	183					0	0	0.001984	0	0		C	76676	C	C	76676	3	2	20	1	0	0	0	0	1	0	0	0	4416	101	4	5	95	5	DEFB125	20	76676	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08		76676	62948844	1665	18387											
PDYN	5173	broad.mit.edu	37	chr20	1961052	1961052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactggcgccggagaaaacCgccatagcgcttctggttgt	9	8	13	11	4	1	1	0	0	1	1	1	3	1	1	3	3	3	2	3	3	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:1961052C>T	uc010gaj.2	-	3	924	c.682G>A	c.(682-684)GGT>AGT	p.G228S	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.G228S|PDYN_uc010zpt.1_Missense_Mutation_p.G73S	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	228					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						CGGAGAAAACCGCCATAGCGC	0.542													54	97					0	0	0.01441	0	0		T	1961052	T	T	1961052	3	4	20	1	0	0	0	0	1	0	0	0	11718	652	23	1	86	1	PDYN	20	1961052	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1884376	1961052	61064468	1666	18388											
PTPRA	5786	broad.mit.edu	37	chr20	3008359	3008359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcctgtgcagggctacCggcagaaggactcctatatc	8	8	12	13	1	0	1	0	0	0	1	2	2	1	2	4	4	2	3	4	4	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:3008359C>T	uc010zqd.1	+	19	2142	c.1825C>T	c.(1825-1827)CGG>TGG	p.R609W	PTPRA_uc002whj.2_Missense_Mutation_p.R598W|PTPRA_uc002whk.2_Missense_Mutation_p.R589W|PTPRA_uc002whl.2_Missense_Mutation_p.R589W|PTPRA_uc002whm.2_Missense_Mutation_p.R365W|PTPRA_uc002whn.2_Missense_Mutation_p.R589W|PTPRA_uc002who.2_Missense_Mutation_p.R261W	NM_002836	NP_002827	P18433	PTPRA_HUMAN	protein tyrosine phosphatase, receptor type, A	598	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1						GCAGGGCTACCGGCAGAAGGA	0.527													4	84					0	0	0.000602	0	0		T	3008359	T	T	3008359	3	4	20	1	0	0	0	0	1	0	0	0	12820	643	23	1	1858	1	PTPRA	20	3008359	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1047307	3008359	60017161	1667	18389											
HSPA12B	116835	broad.mit.edu	37	chr20	3729932	3729932	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacgttcctggtggagtcaGgcgtaggagagctgtgggca	7	8	18	8	2	1	1	1	0	0	1	2	3	2	2	1	5	1	5	1	5	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:3729932G>T	uc002wjd.2	+	9	1007	c.904G>T	c.(904-906)GGC>TGC	p.G302C	HSPA12B_uc010zqi.1_Missense_Mutation_p.G301C|HSPA12B_uc002wje.2_Missense_Mutation_p.G215C|HSPA12B_uc010zqj.1_Missense_Mutation_p.G136C	NM_052970	NP_443202	Q96MM6	HS12B_HUMAN	heat shock 70kD protein 12B	302							ATP binding				0						GGTGGAGTCAGGCGTAGGAGA	0.622													7	18					0.000274275	0.000279038	0.004482	1	0		T	3729932	T	T	3729932	3	4	20	1	0	0	0	0	1	0	0	0	7421	1000	35	5	934	5	HSPA12B	20	3729932	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	721573	3729932	59295588	1668	18390											
TASP1	55617	broad.mit.edu	37	chr20	13610646	13610646	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctttgtttccaactctttgGctgttattttaccagccgaa	7	17	7	10	1	1	0	0	0	1	0	2	1	2	0	3	1	3	4	3	1	4	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:13610646G>T	uc002woi.2	-	2	197	c.80C>A	c.(79-81)GCC>GAC	p.A27D	TASP1_uc010zri.1_RNA|TASP1_uc002woh.2_Missense_Mutation_p.A27D|TASP1_uc010zrj.1_RNA|TASP1_uc010zrk.1_Missense_Mutation_p.A27D	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	27					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						CAACTCTTTGGCTGTTATTTT	0.458													32	94					1.59124e-32	1.71834e-32	0.013726	1	0		T	13610646	T	T	13610646	3	4	20	1	0	0	0	0	1	0	0	0	15614	1203	42	5	1234	5	TASP1	20	13610646	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	9880714	13610646	49414874	1669	18391											
C20orf26	26074	broad.mit.edu	37	chr20	20177224	20177224	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttctgtaggacattgagtAcatacggtcccattacaaca	12	12	7	10	1	2	1	0	1	2	0	3	2	3	2	1	2	4	2	1	2	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:20177224A>G	uc002wru.2	+	16	1677	c.1601A>G	c.(1600-1602)TAC>TGC	p.Y534C	C20orf26_uc010zse.1_Missense_Mutation_p.Y514C	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	534										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GACATTGAGTACATACGGTCC	0.398													10	80					0	0	0.010729	0	0		G	20177224	G	G	20177224	3	3	20	1	0	0	0	0	1	0	0	0	2109	391	14	3	1691	3	C20orf26	20	20177224	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	6566578	20177224	42848296	1670	18392											
CD93	22918	broad.mit.edu	37	chr20	23065849	23065849	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccttgggggcagcggcaCgtgtagtttttcccatgggg	5	11	15	10	2	0	0	0	0	0	0	1	0	1	0	2	5	2	4	2	5	2	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:23065849C>T	uc002wsv.2	-	1	1129	c.981G>A	c.(979-981)ACG>ACA	p.T327T		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	327	EGF-like 2.|Extracellular (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GGCAGCGGCACGTGTAGTTTT	0.622													24	33					0	0	0.003954	0	0		T	23065849	T	T	23065849	2	4	20	1	0	0	0	0	0	0	0	1	3050	523	19	1		1	CD93	20	23065849	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2888625	23065849	39959671	1671	18393											
CST11	140880	broad.mit.edu	37	chr20	23433327	23433327	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtccttcgcatagtttTctactgccatcacttcatgg	7	15	7	12	1	3	0	2	0	1	0	5	0	4	0	2	1	3	3	2	1	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:23433327T>C	uc002wtf.1	-	1	156	c.122A>G	c.(121-123)GAA>GGA	p.E41G	CST11_uc002wtg.1_Missense_Mutation_p.E41G	NM_130794	NP_570612	Q9H112	CST11_HUMAN	cystatin 11 isoform 1 precursor	41					defense response to bacterium	cytoplasm|nucleus	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					CGCATAGTTTTCTACTGCCAT	0.483													5	220					0	0	0.001168	0	0		C	23433327	C	C	23433327	3	2	20	1	0	0	0	0	1	0	0	0	3974	1783	62	3	306	3	CST11	20	23433327	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	367478	23433327	39592193	1672	18394											
ENTPD6	955	broad.mit.edu	37	chr20	25203547	25203547	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagtgcacaggacggaggaAgtgaagcatgtggacttcta	13	7	15	6	1	1	2	0	1	1	1	1	6	1	6	0	4	2	2	0	4	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:25203547A>G	uc002wuj.2	+	12	1299	c.1119A>G	c.(1117-1119)GAA>GAG	p.E373E	ENTPD6_uc010zsz.1_Silent_p.E155E|ENTPD6_uc002wum.2_Silent_p.E356E|ENTPD6_uc010zta.1_Silent_p.E373E|ENTPD6_uc002wun.2_Silent_p.E339E|ENTPD6_uc002wuk.2_Silent_p.E372E|ENTPD6_uc002wul.2_Silent_p.E372E|ENTPD6_uc010ztb.1_Silent_p.E345E|ENTPD6_uc010ztc.1_Silent_p.E345E|ENTPD6_uc002wuo.2_Silent_p.E125E|ENTPD6_uc010ztd.1_Silent_p.E121E|ENTPD6_uc010gdk.1_RNA|ENTPD6_uc010gdl.1_RNA	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	373	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						GGACGGAGGAAGTGAAGCATG	0.572													5	214					0	0	0.001984	0	0		G	25203547	G	G	25203547	2	3	20	1	0	0	0	0	0	0	0	1	5151	69	3	3		3	ENTPD6	20	25203547	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1770220	25203547	37821973	1673	18395											
POFUT1	23509	broad.mit.edu	37	chr20	30818680	30818680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcacttcatggcctctcCgcagtgtgtgggctacagcc	5	10	11	15	2	2	0	1	0	1	0	4	0	2	0	3	2	2	3	3	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:30818680C>T	uc002wxp.2	+	6	843	c.794C>T	c.(793-795)CCG>CTG	p.P265L	POFUT1_uc010ztt.1_Missense_Mutation_p.P157L|POFUT1_uc010ztu.1_Missense_Mutation_p.P54L	NM_015352	NP_056167	Q9H488	OFUT1_HUMAN	protein O-fucosyltransferase 1 isoform 1	265					fucose metabolic process|Notch signaling pathway|O-glycan processing|regulation of transcription, DNA-dependent	endoplasmic reticulum|membrane	peptide-O-fucosyltransferase activity			breast(1)	1			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			ATGGCCTCTCCGCAGTGTGTG	0.612													21	53					0	0	0.004656	0	0		T	30818680	T	T	30818680	3	4	20	1	0	0	0	0	1	0	0	0	12202	652	23	1	863	1	POFUT1	20	30818680	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	5615133	30818680	32206840	1674	18396											
CBFA2T2	9139	broad.mit.edu	37	chr20	32232389	32232389	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagccctcgacaagacctcGgcaaccacatcgcgttcctc	9	6	7	19	4	0	1	0	0	0	1	5	2	1	1	5	1	2	2	5	1	2	1	rs148637844		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:32232389G>A	uc002wzg.1	+	12	2289	c.1752G>A	c.(1750-1752)TCG>TCA	p.S584S	CBFA2T2_uc010zug.1_Silent_p.S358S|CBFA2T2_uc002wze.1_Silent_p.S575S|CBFA2T2_uc002wzf.1_RNA|CBFA2T2_uc002wzh.1_Silent_p.S555S|CBFA2T2_uc002wzi.1_RNA|CBFA2T2_uc002wzj.1_RNA|CBFA2T2_uc002wzk.1_Silent_p.S132S	NM_005093	NP_005084	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit	584						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2						ACAAGACCTCGGCAACCACAT	0.662													39	92					0	0	0.009718	0	0		A	32232389	A	A	32232389	2	1	20	1	0	0	0	0	0	0	0	1	2700	1103	39	1		1	CBFA2T2	20	32232389	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1413709	32232389	30793131	1675	18397											
EIF2S2	8894	broad.mit.edu	37	chr20	32684518	32684518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttggttcctactcggaCgacttgtggaggtttcatga	6	16	11	8	2	2	1	1	1	1	0	4	4	3	3	1	4	1	2	1	4	1	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:32684518C>T	uc002xaf.2	-	6	797	c.628G>A	c.(628-630)GTC>ATC	p.V210I	EIF2S2_uc002xag.2_Missense_Mutation_p.V207I|EIF2S2_uc010ges.2_Missense_Mutation_p.V150I	NM_003908	NP_003899	P20042	IF2B_HUMAN	eukaryotic translation initiation factor 2 beta	210						cytosol|eukaryotic translation initiation factor 2 complex	metal ion binding|protein binding|translation initiation factor activity			large_intestine(1)	1						CCTACTCGGACGACTTGTGGA	0.398													65	137					0	0	0.01441	0	0		T	32684518	T	T	32684518	3	4	20	1	0	0	0	0	1	0	0	0	5016	536	19	1	389	1	EIF2S2	20	32684518	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	452129	32684518	30341002	1676	18398											
C20orf4	25980	broad.mit.edu	37	chr20	34827741	34827741	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggtttctttctttctcAgctgttcatcaaagaaaaag	10	16	6	9	0	6	1	3	0	4	1	7	1	6	1	0	1	1	3	0	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:34827741A>C	uc002xfc.1	+	2	46	c.-47_splice	c.e2-2		C20orf4_uc002xfd.1_Splice_Site|C20orf4_uc002xfe.1_Splice_Site	NM_015511	NP_056326	Q9Y312	CT004_HUMAN	hypothetical protein LOC25980												0	Breast(12;0.0162)	Myeloproliferative disorder(115;0.0393)				TTTCTTTCTCAGCTGTTCATC	0.363													10	50					0	0	0.008291	0	0		C	34827741	C	C	34827741	5	2	20	1	0	0	0	0	0	0	1	0	2114	202	7	5		5	C20orf4	20	34827741	Splice_Site	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2143223	34827741	28197779	1677	18399											
CTNNBL1	56259	broad.mit.edu	37	chr20	36488350	36488350	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgacaccgaggaggagtTctacctccggcgcctggatg	9	7	13	12	3	1	1	0	1	1	0	2	5	2	4	4	4	1	1	4	4	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:36488350T>A	uc010zvw.1	+	15	1533	c.1442T>A	c.(1441-1443)TTC>TAC	p.F481Y	CTNNBL1_uc002xhh.2_Missense_Mutation_p.F294Y|CTNNBL1_uc002xhi.2_RNA|CTNNBL1_uc002xhj.2_Missense_Mutation_p.F229Y	NM_030877	NP_110517	Q8WYA6	CTBL1_HUMAN	beta catenin-like 1	481					apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)				GAGGAGGAGTTCTACCTCCGG	0.532													11	45					0	0	0.008291	0	0		A	36488350	A	A	36488350	3	1	20	1	0	0	0	0	1	0	0	0	4021	1783	62	5	1496	5	CTNNBL1	20	36488350	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1660609	36488350	26537170	1678	18400											
PLCG1	5335	broad.mit.edu	37	chr20	39788762	39788762	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggtggctccggaagcagTtttactcagtggatcggaat	9	10	13	9	2	1	0	1	0	0	0	3	3	2	3	2	5	2	3	2	5	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:39788762T>C	uc002xjp.1	+	4	602	c.481T>C	c.(481-483)TTT>CTT	p.F161L	PLCG1_uc002xjo.1_Missense_Mutation_p.F161L	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	161	EF-hand.				activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				CCGGAAGCAGTTTTACTCAGT	0.572													3	59					0	0	0.009096	0	0		C	39788762	C	C	39788762	3	2	20	1	0	0	0	0	1	0	0	0	12054	1725	60	3	495	3	PLCG1	20	39788762	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3300412	39788762	23236758	1679	18401											
PLCG1	5335	broad.mit.edu	37	chr20	39800838	39800838	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgtgtcaccagctcacTgaagggaagataatggaacg	12	9	13	7	1	2	2	2	1	0	1	2	4	2	4	1	2	2	1	1	2	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:39800838T>C	uc002xjp.1	+	25	2935	c.2814T>C	c.(2812-2814)ACT>ACC	p.T938T	PLCG1_uc002xjo.1_Silent_p.T938T|PLCG1_uc010zwe.1_Silent_p.T564T	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	938					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				ACCAGCTCACTGAAGGGAAGA	0.577													45	127					0	0	0.01441	0	0		C	39800838	C	C	39800838	2	2	20	1	0	0	0	0	0	0	0	1	12054	1567	55	3		3	PLCG1	20	39800838	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	12076	39800838	23224682	1680	18402											
CHD6	84181	broad.mit.edu	37	chr20	40049262	40049262	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggggaaaacgttttgcccctCtgcactttctttccaaggtt	7	14	9	11	1	2	0	0	0	2	0	3	1	3	1	3	3	3	3	3	3	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:40049262C>G	uc002xka.1	-	31	6191	c.6013G>C	c.(6013-6015)GAG>CAG	p.E2005Q		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2005					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TTTTGCCCCTCTGCACTTTCT	0.413													23	83					0	0	0.012319	0	0		G	40049262	G	G	40049262	3	3	20	1	0	0	0	0	1	0	0	0	3332	922	32	5	2162	5	CHD6	20	40049262	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	248424	40049262	22976258	1681	18403											
CHD6	84181	broad.mit.edu	37	chr20	40102043	40102043	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agattgatccccaggcctccCgctctggtgcacagaagaaa	11	7	10	13	1	1	4	0	1	1	3	3	4	3	4	4	2	1	2	4	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:40102043C>T	uc002xka.1	-	17	2761	c.2583G>A	c.(2581-2583)GCG>GCA	p.A861A	CHD6_uc002xkd.2_Silent_p.A839A	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	861	Helicase C-terminal.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				CCAGGCCTCCCGCTCTGGTGC	0.517													28	54					0	0	0.00632	0	0		T	40102043	T	T	40102043	2	4	20	1	0	0	0	0	0	0	0	1	3332	639	23	1		1	CHD6	20	40102043	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	52781	40102043	22923477	1682	18404											
R3HDML	140902	broad.mit.edu	37	chr20	42979427	42979427	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccaacaagttcacgtggTtctgaattttctctgggctt	9	15	8	9	1	3	1	1	1	2	0	5	1	4	1	1	2	1	3	1	2	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:42979427T>C	uc002xls.1	+	5	929	c.757T>C	c.(757-759)TTC>CTC	p.F253L		NM_178491	NP_848586	Q9H3Y0	CRSPL_HUMAN	R3H domain containing-like precursor	253						extracellular region	peptidase inhibitor activity				0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			GTTCACGTGGTTCTGAATTTT	0.507													7	172					0	0	0.004482	0	0		C	42979427	C	C	42979427	3	2	20	1	0	0	0	0	1	0	0	0	12914	1725	60	3	775	3	R3HDML	20	42979427	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2877384	42979427	20046093	1683	18405											
NCOA5	57727	broad.mit.edu	37	chr20	44695753	44695753	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctttcggcatcaaagcgTctctggatttcctcaaaata	10	12	8	11	2	3	0	2	0	1	0	6	1	4	1	2	3	1	1	2	3	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:44695753T>C	uc002xrd.2	-	4	1098	c.570A>G	c.(568-570)AGA>AGG	p.R190R	NCOA5_uc002xrc.2_Silent_p.R78R|NCOA5_uc002xre.2_Silent_p.R190R	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	190					regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				CATCAAAGCGTCTCTGGATTT	0.433													6	147					0	0	0.001168	0	0		C	44695753	C	C	44695753	2	2	20	1	0	0	0	0	0	0	0	1	10251	1664	58	3		3	NCOA5	20	44695753	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1716326	44695753	18329767	1684	18406											
ZMYND8	23613	broad.mit.edu	37	chr20	45875225	45875225	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctccgaatcgctgtgctctAcggccgtatagacatcttcc	7	11	8	15	4	2	1	0	0	2	1	5	2	4	1	4	1	2	3	4	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:45875225A>G	uc002xta.1	-	14	2005	c.1751T>C	c.(1750-1752)GTA>GCA	p.V584A	ZMYND8_uc010ghq.1_Missense_Mutation_p.V261A|ZMYND8_uc010ghr.1_Missense_Mutation_p.V559A|ZMYND8_uc002xst.1_Missense_Mutation_p.V512A|ZMYND8_uc002xsu.1_Missense_Mutation_p.V584A|ZMYND8_uc002xsv.1_Missense_Mutation_p.V512A|ZMYND8_uc002xsw.1_Missense_Mutation_p.V336A|ZMYND8_uc002xsx.1_Missense_Mutation_p.V336A|ZMYND8_uc002xsy.1_Missense_Mutation_p.V559A|ZMYND8_uc002xsz.1_Missense_Mutation_p.V521A|ZMYND8_uc010zxy.1_Missense_Mutation_p.V611A|ZMYND8_uc002xtb.1_Missense_Mutation_p.V604A|ZMYND8_uc002xss.2_Missense_Mutation_p.V584A|ZMYND8_uc010zxz.1_Missense_Mutation_p.V579A|ZMYND8_uc002xtc.1_Missense_Mutation_p.V604A|ZMYND8_uc002xtd.1_Missense_Mutation_p.V579A|ZMYND8_uc002xte.1_Missense_Mutation_p.V584A|ZMYND8_uc010zya.1_Missense_Mutation_p.V584A|ZMYND8_uc002xtf.1_Missense_Mutation_p.V604A|ZMYND8_uc002xtg.2_Missense_Mutation_p.V578A|ZMYND8_uc010ghs.1_Missense_Mutation_p.V578A	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	584							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			GCTGTGCTCTACGGCCGTATA	0.418													38	138					0	0	0.00623	0	0		G	45875225	G	G	45875225	3	3	20	1	0	0	0	0	1	0	0	0	17736	391	14	3	1795	3	ZMYND8	20	45875225	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1179472	45875225	17150295	1685	18407											
STAU1	6780	broad.mit.edu	37	chr20	47734382	47734382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgagaggtccatggggtaCgtggcctgaagagatgttat	9	10	16	6	2	0	3	0	2	0	2	1	5	1	3	2	4	1	2	2	4	3	2	rs146630196		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:47734382C>T	uc002xud.2	-	11	1852	c.1441G>A	c.(1441-1443)GTA>ATA	p.V481I	STAU1_uc002xua.2_Missense_Mutation_p.V400I|STAU1_uc002xub.2_Missense_Mutation_p.V406I|STAU1_uc002xuc.2_Missense_Mutation_p.V400I|STAU1_uc002xue.2_Missense_Mutation_p.V400I|STAU1_uc002xuf.2_Missense_Mutation_p.V406I|STAU1_uc002xug.2_Missense_Mutation_p.V481I	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	481						microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			CCATGGGGTACGTGGCCTGAA	0.542													20	66					0	0	0.010504	0	0		T	47734382	T	T	47734382	3	4	20	1	0	0	0	0	1	0	0	0	15297	536	19	1	308	1	STAU1	20	47734382	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1859157	47734382	15291138	1686	18408											
B4GALT5	9334	broad.mit.edu	37	chr20	48256306	48256306	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttccactgttaagccacTcactccgccaaagaactcgg	10	10	7	14	2	1	1	1	0	0	1	4	1	3	1	4	1	2	2	4	1	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:48256306T>G	uc002xuu.3	-	7	1020	c.826A>C	c.(826-828)AGT>CGT	p.S276R		NM_004776	NP_004767	O43286	B4GT5_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	276	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	galactosyltransferase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;2.51e-06)			GTTAAGCCACTCACTCCGCCA	0.473													8	167					0	0	0.008291	0	0		G	48256306	G	G	48256306	3	3	20	1	0	0	0	0	1	0	0	0	1275	1551	54	5	352	5	B4GALT5	20	48256306	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	521924	48256306	14769214	1687	18409											
ATP9A	10079	broad.mit.edu	37	chr20	50255941	50255941	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaagatctgtaggatggTgaagttcaggatctggtcgc	10	10	16	5	1	3	2	1	1	2	1	4	5	3	5	0	5	0	2	0	5	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:50255941T>C	uc002xwg.1	-	15	1609	c.1609A>G	c.(1609-1611)ACC>GCC	p.T537A	ATP9A_uc010gih.1_Missense_Mutation_p.T401A|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	537	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						TGTAGGATGGTGAAGTTCAGG	0.527											OREG0026043	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	152					0	0	0.00245	0	0		C	50255941	C	C	50255941	3	2	20	1	0	0	0	0	1	0	0	0	1199	1696	59	3	1590	3	ATP9A	20	50255941	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1999635	50255941	12769579	1688	18410											
TSHZ2	128553	broad.mit.edu	37	chr20	51870150	51870150	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaatgacacagggacggaCgaggagctagaaacgggccc	13	2	16	10	3	0	2	0	1	0	1	0	6	0	5	1	5	2	2	1	5	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:51870150C>T	uc002xwo.2	+	2	1109	c.153C>T	c.(151-153)GAC>GAT	p.D51D		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	51					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CAGGGACGGACGAGGAGCTAG	0.408													20	46					0	0	0.010504	0	0		T	51870150	T	T	51870150	2	4	20	1	0	0	0	0	0	0	0	1	16650	535	19	1		1	TSHZ2	20	51870150	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1614209	51870150	11155370	1689	18411											
ZNF217	7764	broad.mit.edu	37	chr20	52193331	52193331	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggggctaacttcaaggtTatgggtggtactgccatccg	7	13	13	8	1	1	0	1	0	0	0	2	0	2	0	2	5	3	3	2	5	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:52193331T>C	uc002xwq.3	-	3	2243	c.1972A>G	c.(1972-1974)AAC>GAC	p.N658D	ZNF217_uc010gij.1_Missense_Mutation_p.N650D	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	658					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			ACTTCAAGGTTATGGGTGGTA	0.463													4	264					0	0	0.009096	0	0		C	52193331	C	C	52193331	3	2	20	1	0	0	0	0	1	0	0	0	17797	1754	61	3	1182	3	ZNF217	20	52193331	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	323181	52193331	10832189	1690	18412											
ZNF217	7764	broad.mit.edu	37	chr20	52198795	52198795	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggactactctccaagcCttgctgcagtttgcttctgg	5	14	10	12	0	2	0	0	0	2	0	3	1	2	1	2	2	6	5	2	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:52198795C>A	uc002xwq.3	-	1	842	c.571G>T	c.(571-573)GGC>TGC	p.G191C	ZNF217_uc010gij.1_Missense_Mutation_p.G183C	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	191					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			CTCTCCAAGCCTTGCTGCAGT	0.507													10	340					1.58986e-06	1.64203e-06	0.008291	1	0		A	52198795	A	A	52198795	3	1	20	1	0	0	0	0	1	0	0	0	17797	681	24	5	2591	5	ZNF217	20	52198795	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	5464	52198795	10826725	1691	18413											
BCAS1	8537	broad.mit.edu	37	chr20	52645335	52645335	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgcggcttggtctccggTacgtcctggtacaggccgag	5	10	14	12	4	2	0	0	0	2	0	4	1	3	0	3	5	3	3	3	5	2	3	rs143563841		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:52645335T>C	uc002xws.2	-	4	657	c.319A>G	c.(319-321)ACC>GCC	p.T107A	BCAS1_uc010zzb.1_Missense_Mutation_p.T10A|BCAS1_uc010gim.2_Missense_Mutation_p.T10A|BCAS1_uc002xwt.2_Missense_Mutation_p.T107A|BCAS1_uc010gil.1_Missense_Mutation_p.T107A|BCAS1_uc010zzc.1_Missense_Mutation_p.T10A	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	107						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			TGGTCTCCGGTACGTCCTGGT	0.517													19	44					0	0	0.006122	0	0		C	52645335	C	C	52645335	3	2	20	1	0	0	0	0	1	0	0	0	1351	1638	57	3	1471	3	BCAS1	20	52645335	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	446540	52645335	10380185	1692	18414											
ZBP1	81030	broad.mit.edu	37	chr20	56188310	56188310	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaaatccagctgttgggTccattctggcagatcatgtt	9	13	11	8	0	2	1	1	0	1	1	4	2	4	2	2	3	1	4	2	3	1	3	rs141358064		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:56188310T>C	uc002xyo.2	-	5	860	c.579A>G	c.(577-579)GGA>GGG	p.G193G	ZBP1_uc010gjm.2_Silent_p.G192G|ZBP1_uc002xyp.2_Silent_p.G118G|ZBP1_uc010zzn.1_Silent_p.G193G	NM_030776	NP_110403	Q9H171	ZBP1_HUMAN	Z-DNA binding protein 1 isoform a	193						cytoplasm|nucleus	double-stranded RNA adenosine deaminase activity|left-handed Z-DNA binding|RNA binding			ovary(2)	2	Lung NSC(12;0.000545)|all_lung(29;0.00195)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;7.87e-13)|Epithelial(14;3.26e-09)|all cancers(14;3.62e-08)			AGCTGTTGGGTCCATTCTGGC	0.438													6	181					0	0	0.001168	0	0		C	56188310	C	C	56188310	2	2	20	1	0	0	0	0	0	0	0	1	17546	1654	58	3		3	ZBP1	20	56188310	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3542975	56188310	6837210	1693	18415											
ZNF831	128611	broad.mit.edu	37	chr20	57766920	57766920	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaggctccttgggactcTgcccccatggcgtcacctgg	6	8	13	14	1	2	1	1	0	1	1	3	3	3	2	4	4	1	1	4	4	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:57766920T>A	uc002yan.2	+	1	846	c.846T>A	c.(844-846)TCT>TCA	p.S282S		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	282						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CTTGGGACTCTGCCCCCATGG	0.662													21	92					0	0	0.014323	0	0		A	57766920	A	A	57766920	2	1	20	1	0	0	0	0	0	0	0	1	18210	1567	55	5		5	ZNF831	20	57766920	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1578610	57766920	5258600	1694	18416											
PHACTR3	116154	broad.mit.edu	37	chr20	58349364	58349364	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgtctgtcgagaacgtcCagcgtggagcggggcaagga	8	6	17	10	5	1	1	0	0	1	1	4	4	3	3	2	4	3	1	2	4	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:58349364C>T	uc002yau.2	+	7	1460	c.993C>T	c.(991-993)TCC>TCT	p.S331S	PHACTR3_uc002yat.2_Silent_p.S328S|PHACTR3_uc010zzw.1_Silent_p.S290S|PHACTR3_uc002yav.2_Silent_p.S290S|PHACTR3_uc002yaw.2_Silent_p.S290S|PHACTR3_uc002yax.2_Silent_p.S220S	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	331						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			CGAGAACGTCCAGCGTGGAGC	0.522													13	41					0	0	0.008871	0	0		T	58349364	T	T	58349364	2	4	20	1	0	0	0	0	0	0	0	1	11830	581	21	4		4	PHACTR3	20	58349364	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	582444	58349364	4676156	1695	18417											
CABLES2	81928	broad.mit.edu	37	chr20	60971390	60971390	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgctgttcctggtgtcgtActgcctcatgttcttgatga	4	16	10	11	1	2	2	1	2	1	0	4	2	3	2	3	1	3	4	3	1	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:60971390A>G	uc002ycv.2	-	3	515	c.508T>C	c.(508-510)TAC>CAC	p.Y170H		NM_031215	NP_112492	Q9BTV7	CABL2_HUMAN	Cdk5 and Abl enzyme substrate 2	170					cell cycle|cell division|regulation of cell cycle|regulation of cell division		cyclin-dependent protein kinase regulator activity			pancreas(1)	1	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			CTGGTGTCGTACTGCCTCATG	0.562													8	441					0	0	0.00308	0	0		G	60971390	G	G	60971390	3	3	20	1	0	0	0	0	1	0	0	0	2533	391	14	3	960	3	CABLES2	20	60971390	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	2622026	60971390	2054130	1696	18418											
SLCO4A1	28231	broad.mit.edu	37	chr20	61297757	61297757	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggtgccagcgggtggTggcggcaccttcctgggcgg	2	8	20	11	3	0	0	0	0	0	0	1	0	1	0	3	8	2	1	3	8	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:61297757T>C	uc002ydb.1	+	7	1507	c.1302T>C	c.(1300-1302)GGT>GGC	p.G434G	SLCO4A1_uc002ydc.1_RNA|LOC100127888_uc002ydd.2_RNA|SLCO4A1_uc002yde.1_5'Flank	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	434	Helical; Name=8; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)			CAGCGGGTGGTGGCGGCACCT	0.662													5	60					0	0	0.00308	0	0		C	61297757	C	C	61297757	2	2	20	1	0	0	0	0	0	0	0	1	14754	1683	59	3		3	SLCO4A1	20	61297757	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	326367	61297757	1727763	1697	18419											
TCFL5	10732	broad.mit.edu	37	chr20	61488984	61488984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagtgcttgtttgcatagcGctgcttctttgcgaaagaag	8	14	11	8	2	2	1	1	0	1	1	2	2	2	1	0	0	5	5	0	0	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:61488984G>A	uc002ydp.2	-	4	1094	c.1001C>T	c.(1000-1002)GCG>GTG	p.A334V	TCFL5_uc002ydo.2_Missense_Mutation_p.A107V|TCFL5_uc002ydq.2_Missense_Mutation_p.A333V	NM_006602	NP_006593	Q9UL49	TCFL5_HUMAN	transcription factor-like 5 protein	334					cell differentiation|multicellular organismal development|regulation of cell differentiation|regulation of cell proliferation|spermatogenesis|transcription from RNA polymerase II promoter		DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)	1	Breast(26;5.68e-08)					TTTGCATAGCGCTGCTTCTTT	0.388													22	69					0	0	0.00333	0	0		A	61488984	A	A	61488984	3	1	20	1	0	0	0	0	1	0	0	0	15724	1087	38	1	513	1	TCFL5	20	61488984	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	191227	61488984	1536536	1698	18420											
KCNQ2	3785	broad.mit.edu	37	chr20	62070977	62070977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcgaagaaggagacacCgatgagggtgaaggttgccg	12	4	17	8	4	0	4	0	2	0	2	0	7	0	4	2	3	2	1	2	3	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:62070977C>T	uc002yey.1	-	6	1078	c.901G>A	c.(901-903)GGT>AGT	p.G301S	KCNQ2_uc002yez.1_Missense_Mutation_p.G301S|KCNQ2_uc002yfa.1_Missense_Mutation_p.G301S|KCNQ2_uc002yfb.1_Missense_Mutation_p.G301S|KCNQ2_uc011aax.1_Missense_Mutation_p.G301S|KCNQ2_uc002yfc.1_Missense_Mutation_p.G301S	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	301	Helical; Name=Segment S6; (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	AAGGAGACACCGATGAGGGTG	0.642													5	93					0	0	0.000602	0	0		T	62070977	T	T	62070977	3	4	20	1	0	0	0	0	1	0	0	0	8099	652	23	1	1829	1	KCNQ2	20	62070977	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	581993	62070977	954543	1699	18421											
PRIC285	85441	broad.mit.edu	37	chr20	62196230	62196230	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcagcaccttggtgatGgtggcctggtccgacggggg	4	10	17	10	2	1	1	0	1	1	0	2	2	2	1	3	6	2	2	3	6	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:62196230G>T	uc002yfm.2	-	9	4837	c.3945C>A	c.(3943-3945)ACC>ACA	p.T1315T	PRIC285_uc002yfl.1_Silent_p.T746T	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1315					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CCTTGGTGATGGTGGCCTGGT	0.677													4	47					0.000602214	0.000612082	0.000602	1	0		T	62196230	T	T	62196230	2	4	20	1	0	0	0	0	0	0	0	1	12507	1335	47	5		5	PRIC285	20	62196230	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	125253	62196230	829290	1700	18422											
ARFRP1	10139	broad.mit.edu	37	chr20	62333552	62333552	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgacgtagatgacgccGtgacactccgcataatactg	12	9	9	11	4	1	4	1	3	0	1	2	4	2	4	2	0	1	2	2	0	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr20:62333552G>A	uc002yga.2	-	4	849	c.282C>T	c.(280-282)CAC>CAT	p.H94H	ARFRP1_uc002ygc.2_Silent_p.H94H|ARFRP1_uc002ygh.3_Silent_p.H94H|ARFRP1_uc011abf.1_Silent_p.H94H|ARFRP1_uc011abg.1_Silent_p.H94H|ARFRP1_uc002yge.2_RNA|ARFRP1_uc002ygd.2_RNA|ARFRP1_uc002ygf.2_Silent_p.H94H|ARFRP1_uc002ygg.2_RNA|ARFRP1_uc011abh.1_RNA	NM_003224	NP_003215	Q13795	ARFRP_HUMAN	ADP-ribosylation factor related protein 1	94					small GTPase mediated signal transduction	Golgi apparatus|membrane fraction	GTP binding|GTPase activity			breast(1)|skin(1)	2	all_cancers(38;9.53e-13)|all_epithelial(29;2.64e-14)|Lung NSC(23;7e-10)|all_lung(23;2.53e-09)		Epithelial(9;4.09e-08)|all cancers(9;1.7e-07)|OV - Ovarian serous cystadenocarcinoma(5;0.0102)			AGATGACGCCGTGACACTCCG	0.622													17	45					0	0	0.012319	0	0		A	62333552	A	A	62333552	2	1	20	1	0	0	0	0	0	0	0	1	856	1136	40	1		1	ARFRP1	20	62333552	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	137322	62333552	691968	1701	18423											
APP	351	broad.mit.edu	37	chr21	27425630	27425630	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaagaatttgcacttgtcAggaacgagaagggcatcact	13	10	11	7	1	2	2	2	0	0	2	2	4	2	3	0	2	2	3	0	2	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:27425630A>C	uc002ylz.2	-	4	590	c.390T>G	c.(388-390)CCT>CCG	p.P130P	APP_uc010glk.2_Silent_p.P125P|APP_uc002yma.2_Silent_p.P130P|APP_uc011ach.1_Silent_p.P74P|APP_uc002ymb.2_Silent_p.P130P|APP_uc010glj.2_Silent_p.P74P|APP_uc011aci.1_Silent_p.P95P|APP_uc011acj.1_Silent_p.P130P	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	130	Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				TGCACTTGTCAGGAACGAGAA	0.458													21	169					0	0	0.003954	0	0		C	27425630	C	C	27425630	2	2	20	1	0	0	0	0	0	0	0	1	815	175	7	5		5	APP	21	27425630	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08		27425630	20704265	1702	18424											
CYYR1	116159	broad.mit.edu	37	chr21	27938629	27938629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtaggagcaacagtagggCgtggttccatcacagcagta	12	8	13	8	1	1	0	1	0	0	0	2	1	2	1	1	3	3	6	1	3	5	5	rs146759335	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:27938629C>T	uc002ymd.2	-	2	454	c.132G>A	c.(130-132)ACG>ACA	p.T44T	CYYR1_uc011ack.1_RNA|CYYR1_uc002yme.2_Silent_p.T44T	NM_052954	NP_443186	Q96J86	CYYR1_HUMAN	cysteine and tyrosine-rich 1 protein precursor	44	Extracellular (Potential).					integral to membrane					0						AACAGTAGGGCGTGGTTCCAT	0.423													13	42					0	0	0.003163	0	0		T	27938629	T	T	27938629	2	4	20	1	0	0	0	0	0	0	0	1	4214	755	27	1		1	CYYR1	21	27938629	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	512999	27938629	20191266	1703	18425											
ADAMTS5	11096	broad.mit.edu	37	chr21	28296636	28296636	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaagctataacggacatcTaatggtttagtggggtctgt	13	12	11	5	1	2	0	0	0	2	0	2	1	2	1	0	4	2	2	0	4	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:28296636T>A	uc002ymg.2	-	8	3258	c.2529A>T	c.(2527-2529)TTA>TTT	p.L843F		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	843	Spacer.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						AACGGACATCTAATGGTTTAG	0.463													9	165					0	0	0.004482	0	0		A	28296636	A	A	28296636	3	1	20	1	0	0	0	0	1	0	0	0	269	1519	53	5	267	5	ADAMTS5	21	28296636	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	358007	28296636	19833259	1704	18426											
RNF160	26046	broad.mit.edu	37	chr21	30365199	30365199	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacacaacttccggcttctGgcggcggaagaggacaccct	9	6	13	13	3	1	1	0	0	1	1	2	4	2	4	2	6	1	1	2	6	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:30365199G>A	uc002ymr.2	-	1	79	c.66C>T	c.(64-66)GCC>GCT	p.A22A		NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	Error:Variant_position_missing_in_O94822_after_alignment							ligase activity|zinc ion binding				0						TCCGGCTTCTGGCGGCGGAAG	0.627													6	14					0	0	0.001168	0	0		A	30365199	A	A	30365199	2	1	20	1	0	0	0	0	0	0	0	1	13480	1335	47	4		4	RNF160	21	30365199	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	2068563	30365199	17764696	1705	18427											
TIAM1	7074	broad.mit.edu	37	chr21	32639181	32639181	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcgtgcctggtcctccgCgtcttgtgcgagaggcgcag	5	8	16	12	5	1	1	0	0	1	1	3	3	3	1	3	2	3	1	3	2	1	1	rs144300474		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:32639181C>T	uc002yow.1	-	5	580	c.108G>A	c.(106-108)ACG>ACA	p.T36T	TIAM1_uc011adk.1_Silent_p.T36T|TIAM1_uc011adl.1_Silent_p.T36T|TIAM1_uc002yox.1_Intron	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	36					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TGGTCCTCCGCGTCTTGTGCG	0.612													9	28					0	0	0.010729	0	0		T	32639181	T	T	32639181	2	4	20	1	0	0	0	0	0	0	0	1	15915	755	27	1		1	TIAM1	21	32639181	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2273982	32639181	15490714	1706	18428											
SON	6651	broad.mit.edu	37	chr21	34924556	34924556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgtcctatgctgcagaaCgttccatgatgtcatcttac	9	14	8	10	1	2	3	1	2	1	1	4	3	4	3	2	0	4	3	2	0	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:34924556C>T	uc002yse.1	+	3	3068	c.3019C>T	c.(3019-3021)CGT>TGT	p.R1007C	SON_uc002ysb.1_Missense_Mutation_p.R1007C|SON_uc002ysc.2_Missense_Mutation_p.R1007C|SON_uc002ysd.2_Translation_Start_Site|SON_uc002ysf.1_Intron|SON_uc002ysg.2_Translation_Start_Site	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	1007	1-1.|14 X 6 AA repeats of [ED]-R-S-M-M-S.				anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						TGCTGCAGAACGTTCCATGAT	0.483													33	86					0	0	0.010818	0	0		T	34924556	T	T	34924556	3	4	20	1	0	0	0	0	1	0	0	0	14951	536	19	1	3029	1	SON	21	34924556	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2285375	34924556	13205339	1707	18429											
DSCR6	53820	broad.mit.edu	37	chr21	38380463	38380463	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgccgttccagccccgcGccgtggcgaccttggatcca	4	8	12	17	5	0	0	0	0	0	0	2	2	2	1	7	2	2	2	7	2	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:38380463G>A	uc002yvv.2	+	2	321	c.111G>A	c.(109-111)GCG>GCA	p.A37A	DSCR6_uc011aec.1_5'UTR|DSCR6_uc010gnd.2_5'UTR	NM_018962	NP_061835	P57055	DSCR6_HUMAN	Down syndrome critical region protein 6	37						nucleus				breast(1)	1		Myeloproliferative disorder(46;0.0632)				CCAGCCCCGCGCCGTGGCGAC	0.587													15	53					0	0	0.00499	0	0		A	38380463	A	A	38380463	2	1	20	1	0	0	0	0	0	0	0	1	4779	1074	38	1		1	DSCR6	21	38380463	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3455907	38380463	9749432	1708	18430											
ZNF295	49854	broad.mit.edu	37	chr21	43412127	43412127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccaaggggtttttctcctGgatgcatttttatatgctgc	6	17	9	9	0	1	0	0	0	1	0	3	1	2	1	2	3	3	3	2	3	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:43412127G>A	uc002zab.3	-	3	2292	c.2078C>T	c.(2077-2079)CCA>CTA	p.P693L	ZNF295_uc002yzz.3_Intron|ZNF295_uc002yzy.3_Missense_Mutation_p.P693L|ZNF295_uc002zaa.3_Missense_Mutation_p.P693L	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	693					negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						TTTTTCTCCTGGATGCATTTT	0.433													100	254					0	0	0.01441	0	0		A	43412127	A	A	43412127	3	1	20	1	0	0	0	0	1	0	0	0	17852	1348	47	4	1126	4	ZNF295	21	43412127	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5031664	43412127	4717768	1709	18431											
RRP1B	23076	broad.mit.edu	37	chr21	45107681	45107681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaataaaaggaaacggccaCggaagaagagcccgagggcc	17	1	13	10	3	0	2	0	0	0	2	0	5	0	4	3	4	2	0	3	4	6	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:45107681C>T	uc002zdk.2	+	13	1540	c.1426C>T	c.(1426-1428)CGG>TGG	p.R476W	RRP1B_uc002zdl.2_Missense_Mutation_p.R9W	NM_015056	NP_055871	Q14684	RRP1B_HUMAN	ribosomal RNA processing 1 homolog B	476					rRNA processing	cytosol|nucleolus|preribosome, small subunit precursor	protein binding			skin(1)	1				STAD - Stomach adenocarcinoma(101;0.178)		GAAACGGCCACGGAAGAAGAG	0.617													32	84					0	0	0.012213	0	0		T	45107681	T	T	45107681	3	4	20	1	0	0	0	0	1	0	0	0	13713	527	19	1	1476	1	RRP1B	21	45107681	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1695554	45107681	3022214	1710	18432											
COL18A1	80781	broad.mit.edu	37	chr21	46907379	46907379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatgacatggaaggctccGgggggcccttctggtcaaca	9	7	15	10	1	2	1	1	1	1	0	3	3	3	3	2	7	1	1	2	7	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:46907379G>A	uc011afs.1	+	16	3118	c.3097G>A	c.(3097-3099)GGG>AGG	p.G1033R	COL18A1_uc002zhg.2_Missense_Mutation_p.G618R|COL18A1_uc002zhi.2_Missense_Mutation_p.G798R	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	1033	Nonhelical region 4 (NC4).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		GGAAGGCTCCGGGGGGCCCTT	0.647													15	62					0	0	0.00499	0	0		A	46907379	A	A	46907379	3	1	20	1	0	0	0	0	1	0	0	0	3678	1116	39	1	3273	1	COL18A1	21	46907379	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1799698	46907379	1222516	1711	18433											
COL6A1	1291	broad.mit.edu	37	chr21	47422515	47422515	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaatgtcatttcttgccaAggcctggcaccatcccaggg	8	10	9	14	0	3	0	2	0	1	0	4	0	4	0	4	3	1	1	4	3	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:47422515A>G	uc002zhu.1	+	33	2427	c.2325A>G	c.(2323-2325)CAA>CAG	p.Q775Q	COL6A1_uc010gqd.1_Silent_p.Q106Q|COL6A1_uc002zhv.1_Silent_p.Q106Q|COL6A1_uc002zhw.1_5'UTR	NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	775	VWFA 2.|C-terminal globular domain.				axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	TTTCTTGCCAAGGCCTGGCAC	0.582													4	91					0	0	0.000602	0	0		G	47422515	G	G	47422515	2	3	20	1	0	0	0	0	0	0	0	1	3702	69	3	3		3	COL6A1	21	47422515	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	515136	47422515	707380	1712	18434											
COL6A2	1292	broad.mit.edu	37	chr21	47545909	47545909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagaagacacgtgtgtttgCggtggtcatcacggacgggc	8	8	15	10	4	2	2	2	0	0	2	2	3	2	3	1	4	1	1	1	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:47545909C>T	uc002zia.1	+	26	2262	c.2180C>T	c.(2179-2181)GCG>GTG	p.A727V	COL6A2_uc002zhy.1_Missense_Mutation_p.A727V|COL6A2_uc002zhz.1_Missense_Mutation_p.A727V|COL6A2_uc002zib.1_Missense_Mutation_p.A133V|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	727	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		CGTGTGTTTGCGGTGGTCATC	0.657													20	45					0	0	0.014323	0	0		T	47545909	T	T	47545909	3	4	20	1	0	0	0	0	1	0	0	0	3703	768	27	1	2278	1	COL6A2	21	47545909	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	123394	47545909	583986	1713	18435											
LSS	4047	broad.mit.edu	37	chr21	47633708	47633708	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcagtggaggcgggcccGtccacataccagcgcacaag	11	3	14	13	3	0	0	0	0	0	0	1	1	1	1	3	4	2	2	3	4	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr21:47633708G>A	uc002zij.2	-	10	1132	c.1053C>T	c.(1051-1053)GAC>GAT	p.D351D	LSS_uc011afv.1_Silent_p.D340D|LSS_uc002zil.2_Silent_p.D351D|LSS_uc002zik.2_Silent_p.D271D	NM_001001438	NP_001001438	P48449	ERG7_HUMAN	lanosterol synthase isoform 1	351					cholesterol biosynthetic process	endoplasmic reticulum membrane	lanosterol synthase activity				0	Breast(49;0.214)					AGGCGGGCCCGTCCACATACC	0.602													5	24					0	0	0.000602	0	0		A	47633708	A	A	47633708	2	1	20	1	0	0	0	0	0	0	0	1	9083	1136	40	1		1	LSS	21	47633708	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	87799	47633708	496187	1714	18436											
CLTCL1	8218	broad.mit.edu	37	chr22	19241652	19241652	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaccaaggcaacagtgtTcacagaaacccatttccaga	14	7	8	12	0	2	2	2	0	0	2	3	2	3	2	3	2	2	2	3	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:19241652T>C	uc002zpb.2	-	3	424	c.349A>G	c.(349-351)AAC>GAC	p.N117D	CLTCL1_uc011agv.1_Missense_Mutation_p.N117D|CLTCL1_uc011agw.1_Missense_Mutation_p.N117D	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	117	Globular terminal domain.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					GCAACAGTGTTCACAGAAACC	0.463			T	?	ALCL								9	27					0	0	0.006214	0	0		C	19241652	C	C	19241652	3	2	20	1	0	0	0	0	1	0	0	0	3570	1783	62	3	4693	3	CLTCL1	22	19241652	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08		19241652	32062914	1715	18437											
TXNRD2	10587	broad.mit.edu	37	chr22	19905729	19905729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgattttgaacagcttctGccatcttcctcctgtgaaga	8	14	8	11	1	2	4	0	3	2	1	4	4	4	4	3	0	3	1	3	0	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:19905729G>A	uc011ahc.1	-	5	419	c.386C>T	c.(385-387)GCA>GTA	p.A129V	TXNRD2_uc002zql.1_5'UTR|TXNRD2_uc002zqm.1_RNA|TXNRD2_uc002zqn.1_RNA|TXNRD2_uc002zqo.1_RNA|TXNRD2_uc002zqp.1_RNA|TXNRD2_uc002zqr.1_Missense_Mutation_p.A128V|TXNRD2_uc010grv.1_Missense_Mutation_p.A129V|TXNRD2_uc002zqj.1_RNA|TXNRD2_uc002zqs.2_Missense_Mutation_p.A97V	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor	129					cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					AACAGCTTCTGCCATCTTCCT	0.493													11	39					0	0	0.001855	0	0		A	19905729	A	A	19905729	3	1	20	1	0	0	0	0	1	0	0	0	16834	1319	46	2	1240	2	TXNRD2	22	19905729	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	664077	19905729	31398837	1716	18438											
RTN4R	65078	broad.mit.edu	37	chr22	20230039	20230039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctggtgcagtaggagaCggtcgaggctgtgcagccca	7	8	17	9	2	1	1	0	0	1	1	2	3	1	1	1	5	3	5	1	5	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:20230039C>T	uc002zrv.2	-	2	818	c.617G>A	c.(616-618)CGT>CAT	p.R206H	RTN4R_uc002zru.2_5'UTR	NM_023004	NP_075380	Q9BZR6	RTN4R_HUMAN	reticulon 4 receptor precursor	206	LRR 7.				axonogenesis|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	anchored to membrane|cell surface|endoplasmic reticulum|plasma membrane	protein binding|receptor activity				0	Colorectal(54;0.0993)					CAGTAGGAGACGGTCGAGGCT	0.622													25	58					0	0	0.007291	0	0		T	20230039	T	T	20230039	3	4	20	1	0	0	0	0	1	0	0	0	13755	536	19	1	808	1	RTN4R	22	20230039	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	324310	20230039	31074527	1717	18439											
ZNF74	7625	broad.mit.edu	37	chr22	20760268	20760268	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcgggaaggccttcagctgCcactcgtccctcaacgtgca	7	8	11	15	3	2	0	2	0	0	0	4	1	3	1	3	2	5	2	3	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:20760268C>T	uc010gsm.2	+	6	1157	c.945C>T	c.(943-945)TGC>TGT	p.C315C	ZNF74_uc002zsg.2_Silent_p.C244C|ZNF74_uc002zsh.2_Silent_p.C315C|ZNF74_uc002zsi.2_Silent_p.C244C|ZNF74_uc010gsn.2_Silent_p.C244C	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	315	C2H2-type 3.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CCTTCAGCTGCCACTCGTCCC	0.657													19	20					0	0	0.008871	0	0		T	20760268	T	T	20760268	2	4	20	1	0	0	0	0	0	0	0	1	18152	747	26	2		2	ZNF74	22	20760268	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	530229	20760268	30544298	1718	18440											
LZTR1	8216	broad.mit.edu	37	chr22	21340177	21340177	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gttcgatgtgaaagactgctCctggtgcaggtgggtggccc	6	10	16	9	1	0	2	0	1	0	1	2	3	1	2	2	4	2	3	2	4	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:21340177C>G	uc002zto.2	+	3	414	c.311C>G	c.(310-312)TCC>TGC	p.S104C	LZTR1_uc002ztn.2_Missense_Mutation_p.S63C|LZTR1_uc011ahy.1_Intron|LZTR1_uc010gsr.1_5'Flank	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	104	Kelch 1.				anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			AAAGACTGCTCCTGGTGCAGG	0.582													24	35					0	0	0.005443	0	0		G	21340177	G	G	21340177	3	3	20	1	0	0	0	0	1	0	0	0	9155	855	30	5	321	5	LZTR1	22	21340177	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	579909	21340177	29964389	1719	18441											
SLC7A4	6545	broad.mit.edu	37	chr22	21385698	21385698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtagccactccaggcaCgggccacggcggcgccaccg	7	2	14	18	5	0	0	0	0	0	0	1	0	1	0	6	5	1	2	6	5	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:21385698C>T	uc002zud.2	-	2	472	c.404G>A	c.(403-405)CGT>CAT	p.R135H	SLC7A4_uc002zue.2_Missense_Mutation_p.R135H	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	135					cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	ACTCCAGGCACGGGCCACGGC	0.607													7	17					0	0	0.00308	0	0		T	21385698	T	T	21385698	3	4	20	1	0	0	0	0	1	0	0	0	14724	536	19	1	1519	1	SLC7A4	22	21385698	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	45521	21385698	29918868	1720	18442											
ZNF280A	129025	broad.mit.edu	37	chr22	22869883	22869883	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggatcttcatcatcctcCtccctttgtttggattctct	4	19	5	13	0	5	0	2	0	3	0	9	2	8	2	3	2	0	1	3	2	0	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:22869883C>A	uc002zwe.2	-	2	325	c.72G>T	c.(70-72)GAG>GAT	p.E24D	LOC96610_uc011aim.1_Intron	NM_080740	NP_542778	P59817	Z280A_HUMAN	zinc finger protein 280A	24					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		CATCATCCTCCTCCCTTTGTT	0.383													37	137					1.42033e-22	1.52364e-22	0.004289	1	0		A	22869883	A	A	22869883	3	1	20	1	0	0	0	0	1	0	0	0	17839	680	24	5	1560	5	ZNF280A	22	22869883	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1484185	22869883	28434683	1721	18443											
SUSD2	56241	broad.mit.edu	37	chr22	24581755	24581755	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcacccccgttccgcacGccaccccgagtgcccagcat	6	4	10	21	5	0	0	0	0	0	0	1	1	1	0	7	1	2	4	7	1	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:24581755G>A	uc002zzn.1	+	8	1241	c.1197G>A	c.(1195-1197)ACG>ACA	p.T399T		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	399	AMOP.|Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CGTTCCGCACGCCACCCCGAG	0.677													4	14					0	0	0.009096	0	0		A	24581755	A	A	24581755	2	1	20	1	0	0	0	0	0	0	0	1	15433	1074	38	1		1	SUSD2	22	24581755	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1711872	24581755	26722811	1722	18444											
GGT1	2678	broad.mit.edu	37	chr22	25019835	25019835	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggctttccggtttgcctaCgccaagaggaccctgcttgg	6	10	13	12	2	0	1	0	0	0	1	1	3	1	2	4	4	3	3	4	4	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:25019835C>T	uc003aan.1	+	11	1459	c.972C>T	c.(970-972)TAC>TAT	p.Y324Y	GGT1_uc003aas.1_Silent_p.Y324Y|GGT1_uc003aat.1_Silent_p.Y324Y|GGT1_uc003aau.1_Silent_p.Y324Y|GGT1_uc003aav.1_Silent_p.Y324Y|GGT1_uc003aaw.1_Silent_p.Y324Y|GGT1_uc003aax.1_Silent_p.Y324Y	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor	324	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	GGTTTGCCTACGCCAAGAGGA	0.617													10	32					0	0	0.010729	0	0		T	25019835	T	T	25019835	2	4	20	1	0	0	0	0	0	0	0	1	6376	547	19	1		1	GGT1	22	25019835	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	438080	25019835	26284731	1723	18445											
SGSM1	129049	broad.mit.edu	37	chr22	25251295	25251295	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagatgaagactgcagaTcacttctggaccgatccctc	12	8	8	13	1	2	4	1	1	1	3	4	6	3	5	3	1	1	1	3	1	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:25251295T>A	uc003abg.2	+	7	724	c.567T>A	c.(565-567)GAT>GAA	p.D189E	SGSM1_uc003abh.2_Missense_Mutation_p.D189E|SGSM1_uc010guu.1_Missense_Mutation_p.D189E|SGSM1_uc003abj.2_Missense_Mutation_p.D189E|SGSM1_uc003abi.1_Missense_Mutation_p.D164E|SGSM1_uc003abf.2_Missense_Mutation_p.D189E	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	189	RUN.					Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						AGACTGCAGATCACTTCTGGA	0.627													4	15					0	0	0.009096	0	0		A	25251295	A	A	25251295	3	1	20	1	0	0	0	0	1	0	0	0	14247	1432	50	5	593	5	SGSM1	22	25251295	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	231460	25251295	26053271	1724	18446											
SEZ6L	23544	broad.mit.edu	37	chr22	26736590	26736590	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggccagggatttatcatgaActacataggtaggtgtctca	11	11	12	7	0	2	1	2	1	1	0	3	2	2	2	1	4	2	1	1	4	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:26736590A>G	uc003acb.2	+	10	2360	c.2204A>G	c.(2203-2205)AAC>AGC	p.N735S	SEZ6L_uc003acc.2_Missense_Mutation_p.N735S|SEZ6L_uc011akc.1_Missense_Mutation_p.N735S|SEZ6L_uc003acd.2_Missense_Mutation_p.N735S|SEZ6L_uc011akd.1_Missense_Mutation_p.N735S|SEZ6L_uc003ace.2_Missense_Mutation_p.N735S|SEZ6L_uc003acf.1_Missense_Mutation_p.N508S|SEZ6L_uc010gvc.1_Missense_Mutation_p.N508S	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	735	CUB 3.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						TTTATCATGAACTACATAGGT	0.448													9	59					0	0	0.006214	0	0		G	26736590	G	G	26736590	3	3	20	1	0	0	0	0	1	0	0	0	14168	43	2	3	2242	3	SEZ6L	22	26736590	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1485295	26736590	24567976	1725	18447											
CHEK2	11200	broad.mit.edu	37	chr22	29090021	29090021	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactgtcccacacccaccTgaagccacgggtgtcttaag	9	7	10	15	1	1	1	0	1	1	0	2	1	2	1	4	2	1	1	4	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:29090021T>C	uc003adu.1	-	13	1532	c.1460A>G	c.(1459-1461)CAG>CGG	p.Q487R	CHEK2_uc003ads.1_Missense_Mutation_p.Q266R|CHEK2_uc010gvh.1_Missense_Mutation_p.Q396R|CHEK2_uc010gvi.1_Intron|CHEK2_uc010gvj.1_Intron|CHEK2_uc003adr.1_RNA|CHEK2_uc010gvk.1_RNA|CHEK2_uc003adt.1_Missense_Mutation_p.Q530R|CHEK2_uc003adv.1_Missense_Mutation_p.Q458R|CHEK2_uc003adw.1_Missense_Mutation_p.Q487R|CHEK2_uc003adx.1_Missense_Mutation_p.Q266R|CHEK2_uc003ady.1_Missense_Mutation_p.Q476R|CHEK2_uc003adz.1_Missense_Mutation_p.Q291R	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a	487					cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						CACACCCACCTGAAGCCACGG	0.478			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				21	273					0	0	0.00278	0	0		C	29090021	C	C	29090021	3	2	20	1	0	0	0	0	1	0	0	0	3338	1594	55	3	183	3	CHEK2	22	29090021	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2353431	29090021	22214545	1726	18448											
ZNRF3	84133	broad.mit.edu	37	chr22	29440867	29440867	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaaatcaagctgaagcagCgacgcagtcaggtagtgcct	13	7	11	10	2	3	1	3	1	0	0	3	2	3	1	1	1	4	4	1	1	5	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:29440867C>T	uc003aeg.2	+	5	598	c.433C>T	c.(433-435)CGA>TGA	p.R145*	ZNRF3_uc003aeh.1_Nonsense_Mutation_p.R145*	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	245	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						GCTGAAGCAGCGACGCAGTCA	0.512													28	59					0	0	0.008361	0	0		T	29440867	T	T	29440867	4	4	20	1	0	0	0	0	0	1	0	0	18238	760	27	1	447	1	ZNRF3	22	29440867	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	350846	29440867	21863699	1727	18449											
AP1B1	162	broad.mit.edu	37	chr22	29745219	29745219	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctcacctgtgtgctctcGtcatggaagccctcgaggaa	7	10	12	12	2	3	0	2	0	1	0	5	3	3	2	2	3	2	2	2	3	2	0	rs144812422		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:29745219G>A	uc003afj.2	-	11	1609	c.1425C>T	c.(1423-1425)GAC>GAT	p.D475D	AP1B1_uc003afi.2_Silent_p.D475D|AP1B1_uc003afk.2_Silent_p.D475D|AP1B1_uc003afl.2_Silent_p.D475D|AP1B1_uc011ako.1_Silent_p.D28D	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	475					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						GTGTGCTCTCGTCATGGAAGC	0.612													23	62					0	0	0.008361	0	0		A	29745219	A	A	29745219	2	1	20	1	0	0	0	0	0	0	0	1	731	1136	40	1		1	AP1B1	22	29745219	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	304352	29745219	21559347	1728	18450											
AP1B1	162	broad.mit.edu	37	chr22	29754898	29754898	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactctgtgatcttgtcaacGcggatgcagcccatggtccg	7	11	11	12	3	3	1	1	1	2	0	4	2	4	2	2	2	4	1	2	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:29754898G>A	uc003afj.2	-	5	526	c.342C>T	c.(340-342)CGC>CGT	p.R114R	AP1B1_uc003afi.2_Silent_p.R114R|AP1B1_uc003afk.2_Silent_p.R114R|AP1B1_uc003afl.2_Silent_p.R114R	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	114					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						TCTTGTCAACGCGGATGCAGC	0.637													12	14					0	0	0.013537	0	0		A	29754898	A	A	29754898	2	1	20	1	0	0	0	0	0	0	0	1	731	1074	38	1		1	AP1B1	22	29754898	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	9679	29754898	21549668	1729	18451											
MTMR3	8897	broad.mit.edu	37	chr22	30408454	30408454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgctgtggatcaggatcagCggccggtgctagtacactgc	8	9	14	10	2	2	0	2	0	0	0	2	2	2	2	1	4	5	3	1	4	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:30408454C>T	uc003agv.3	+	13	1547	c.1219C>T	c.(1219-1221)CGG>TGG	p.R407W	MTMR3_uc003agu.3_Missense_Mutation_p.R407W|MTMR3_uc003agw.3_Missense_Mutation_p.R407W	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	407	Myotubularin phosphatase.				phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			TCAGGATCAGCGGCCGGTGCT	0.522													86	418					0	0	0.01441	0	0		T	30408454	T	T	30408454	3	4	20	1	0	0	0	0	1	0	0	0	9963	759	27	1	1261	1	MTMR3	22	30408454	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	653556	30408454	20896112	1730	18452											
MORC2	22880	broad.mit.edu	37	chr22	31332627	31332627	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttttgttcagaagcctcAcacctgtagagacaaggtac	11	11	9	10	0	2	2	2	0	0	2	2	3	2	2	2	1	3	4	2	1	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:31332627A>G	uc003aje.1	-	18	2786	c.1422T>C	c.(1420-1422)TGT>TGC	p.C474C		NM_014941	NP_055756	Q9Y6X9	MORC2_HUMAN	MORC family CW-type zinc finger 2	536	CW-type.						ATP binding|zinc ion binding			ovary(1)|pancreas(1)	2						CAGAAGCCTCACACCTGTAGA	0.498													5	133					0	0	0.001168	0	0		G	31332627	G	G	31332627	2	3	20	1	0	0	0	0	0	0	0	1	9720	157	6	3		3	MORC2	22	31332627	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	924173	31332627	19971939	1731	18453											
PATZ1	23598	broad.mit.edu	37	chr22	31741479	31741479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcacgtcgcagaagcgcccgCcgtttttgcgctgctggttc	4	10	13	14	6	0	1	0	0	0	1	2	1	0	1	2	1	3	6	2	1	1	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:31741479C>T	uc003akq.2	-	1	771	c.110G>A	c.(109-111)GGC>GAC	p.G37D	PATZ1_uc003akp.2_Missense_Mutation_p.G37D|PATZ1_uc003akr.2_Missense_Mutation_p.G37D|PATZ1_uc003aks.2_Missense_Mutation_p.G37D|uc003akt.2_5'Flank	NM_014323	NP_055138	Q9HBE1	PATZ1_HUMAN	POZ (BTB) and AT hook containing zinc finger 1	37					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/PATZ1(2)	soft_tissue(2)	2						GAAGCGCCCGCCGTTTTTGCG	0.637													7	15					0	0	0.00308	0	0		T	31741479	T	T	31741479	3	4	20	1	0	0	0	0	1	0	0	0	11495	739	26	2	2256	2	PATZ1	22	31741479	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	408852	31741479	19563087	1732	18454											
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31840668	31840668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgctggtgacttggtcactCgctgttgcctgtgaacaaac	7	12	12	10	1	1	2	1	2	0	0	2	2	1	2	1	2	4	3	1	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:31840668C>T	uc003akz.1	-	15	2161	c.1997G>A	c.(1996-1998)CGA>CAA	p.R666Q	EIF4ENIF1_uc003akx.1_Missense_Mutation_p.R321Q|EIF4ENIF1_uc003aky.1_Missense_Mutation_p.R346Q|EIF4ENIF1_uc003ala.1_Missense_Mutation_p.R666Q|EIF4ENIF1_uc003alb.1_Missense_Mutation_p.R492Q|EIF4ENIF1_uc003akw.1_Missense_Mutation_p.R156Q	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	666						nucleus	protein binding|protein transporter activity			ovary(1)	1						CTTGGTCACTCGCTGTTGCCT	0.468											OREG0003516	type=REGULATORY REGION|Gene=EIF4ENIF1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	23	193					0	0	0.012319	0	0		T	31840668	T	T	31840668	3	4	20	1	0	0	0	0	1	0	0	0	5043	884	31	1	980	1	EIF4ENIF1	22	31840668	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	99189	31840668	19463898	1733	18455											
SFI1	9814	broad.mit.edu	37	chr22	31924781	31924781	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagttacctagtaccagTcatctagtgcagtatcgtgg	10	11	12	8	1	2	0	1	0	1	0	3	1	2	1	2	2	3	4	2	2	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:31924781T>C	uc003ale.2	+	3	591	c.198T>C	c.(196-198)AGT>AGC	p.S66S	SFI1_uc003ald.1_Silent_p.S66S|SFI1_uc003alf.2_Silent_p.S66S|SFI1_uc003alg.2_Intron|SFI1_uc011alp.1_Intron|SFI1_uc011alq.1_Silent_p.S66S|SFI1_uc003alh.2_Intron	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	66					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						CTAGTACCAGTCATCTAGTGC	0.488													3	160					0	0	0.009096	0	0		C	31924781	C	C	31924781	2	2	20	1	0	0	0	0	0	0	0	1	14181	1664	58	3		3	SFI1	22	31924781	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	84113	31924781	19379785	1734	18456											
DEPDC5	9681	broad.mit.edu	37	chr22	32179916	32179916	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtttcgttctacgtcggcTatggtttacatatttattca	7	19	8	7	3	2	0	1	0	1	0	4	0	2	0	0	2	2	4	0	2	5	10			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:32179916T>C	uc003als.2	+	9	649	c.507T>C	c.(505-507)GCT>GCC	p.A169A	DEPDC5_uc011als.1_Silent_p.A169A|DEPDC5_uc011alu.1_Silent_p.A169A|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Silent_p.A169A|DEPDC5_uc003alr.1_Silent_p.A169A|DEPDC5_uc011alt.1_Silent_p.A141A	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	169					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						CTACGTCGGCTATGGTTTACA	0.284													114	270					0	0	0.01441	0	0		C	32179916	C	C	32179916	2	2	20	1	0	0	0	0	0	0	0	1	4448	1509	53	3		3	DEPDC5	22	32179916	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	255135	32179916	19124650	1735	18457											
C22orf24	25775	broad.mit.edu	37	chr22	32334034	32334034	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttgatgcagccctgttgTatcctcttgagttgtcatga	6	17	9	9	0	2	3	1	3	1	0	3	3	3	3	2	0	2	4	2	0	1	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:32334034T>C	uc003aly.2	-	2	186	c.19A>G	c.(19-21)ACA>GCA	p.T7A	C22orf24_uc003alx.2_RNA	NM_015372	NP_056187	Q9Y442	CV024_HUMAN	hypothetical protein LOC25775	7						integral to membrane				central_nervous_system(1)	1						AGCCCTGTTGTATCCTCTTGA	0.358													55	344					0	0	0.01441	0	0		C	32334034	C	C	32334034	3	2	20	1	0	0	0	0	1	0	0	0	2141	1638	57	3	471	3	C22orf24	22	32334034	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	154118	32334034	18970532	1736	18458											
HMOX1	3162	broad.mit.edu	37	chr22	35785929	35785929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcacgggcaccagggcttCgccagcgggccagcaacaaa	10	3	12	16	3	1	0	1	0	0	0	2	0	1	0	4	3	3	3	4	3	2	1	rs145427664	byFrequency	TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:35785929C>T	uc003ant.1	+	4	789	c.709C>T	c.(709-711)CGC>TGC	p.R237C		NM_002133	NP_002124	P09601	HMOX1_HUMAN	heme oxygenase (decyclizing) 1	237					angiogenesis|anti-apoptosis|cell death|cellular iron ion homeostasis|endothelial cell proliferation|erythrocyte homeostasis|heme catabolic process|heme oxidation|intracellular protein kinase cascade|low-density lipoprotein particle clearance|negative regulation of leukocyte migration|negative regulation of smooth muscle cell proliferation|positive regulation of chemokine biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of smooth muscle cell proliferation|protein homooligomerization|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hydrogen peroxide|response to nicotine|smooth muscle hyperplasia|transmembrane transport|wound healing involved in inflammatory response	endoplasmic reticulum membrane|extracellular space|microsome	enzyme binding|heme binding|heme oxygenase (decyclizing) activity|protein homodimerization activity|signal transducer activity			ovary(1)	1					NADH(DB00157)	ACCAGGGCTTCGCCAGCGGGC	0.557													7	16					0	0	0.004482	0	0		T	35785929	T	T	35785929	3	4	20	1	0	0	0	0	1	0	0	0	7259	884	31	1	723	1	HMOX1	22	35785929	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3451895	35785929	15518637	1737	18459											
MYH9	4627	broad.mit.edu	37	chr22	36689461	36689461	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcccggaaggaattcttctCgtcctccacctgcttgagct	6	12	8	15	2	2	1	0	1	2	0	6	3	5	3	4	2	2	2	4	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:36689461C>T	uc003apg.2	-	30	4240	c.4009G>A	c.(4009-4011)GAG>AAG	p.E1337K		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1337	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GAATTCTTCTCGTCCTCCACC	0.622			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				27	114					0	0	0.004656	0	0		T	36689461	T	T	36689461	3	4	20	1	0	0	0	0	1	0	0	0	10060	893	31	1	1921	1	MYH9	22	36689461	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	903532	36689461	14615105	1738	18460											
MYH9	4627	broad.mit.edu	37	chr22	36695071	36695071	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaactcagctattctgtcTtccagcagtttcttttcctg	6	17	7	11	0	4	1	1	1	3	0	6	1	6	1	2	0	3	3	2	0	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:36695071T>C	uc003apg.2	-	24	3225	c.2994A>G	c.(2992-2994)GAA>GAG	p.E998E		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	998	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CTATTCTGTCTTCCAGCAGTT	0.498			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				10	238					0	0	0.001855	0	0		C	36695071	C	C	36695071	2	2	20	1	0	0	0	0	0	0	0	1	10060	1606	56	3		3	MYH9	22	36695071	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	5610	36695071	14609495	1739	18461											
MYH9	4627	broad.mit.edu	37	chr22	36714301	36714302	+	Missense_Mutation	DNP	CG	TA	TA																															aatcccgtcccaccttgatgCgcggggtgaggattcctctg																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:36714301_36714302CG>TA	uc003apg.2	-	11	1408_1409	c.1177_1178CG>TA	c.(1177-1179)CGC>TAC	p.R393Y	MYH9_uc003aph.1_Missense_Mutation_p.R257Y	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	393	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CACCTTGATGCGCGGGGTGAGG	0.54			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				99	279					0	0	0.004672	0	0		TA	36714302	TA	TA	36714301	3	4	20	1	0	0	0	0	1	0	0	0	10060	768	27	1	4828	1	MYH9	22	36714301	Missense_Mutation	DNP	CG	TCGA-BR-4362-01A-01D-1158-08	19230	36714301	14590265	1740	18462											
ELFN2	114794	broad.mit.edu	37	chr22	37769252	37769252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccggtggtgcttcttgtaggGccggaagcgctcccagatct	5	10	14	12	3	2	1	0	0	2	1	3	2	3	2	3	4	2	3	3	4	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:37769252G>A	uc003asq.3	-	3	3109	c.2323C>T	c.(2323-2325)CCC>TCC	p.P775S		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	775	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					TTCTTGTAGGGCCGGAAGCGC	0.612													25	53					0	0	0.003954	0	0		A	37769252	A	A	37769252	3	1	20	1	0	0	0	0	1	0	0	0	5066	1203	42	2	143	2	ELFN2	22	37769252	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1054951	37769252	13535314	1741	18463											
ANKRD54	129138	broad.mit.edu	37	chr22	38228694	38228694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgcagaggtcatccaggcGttctcgctgctcatgttgcc	5	11	13	12	2	3	1	2	0	1	1	5	1	4	1	2	3	3	5	2	3	0	2	rs144561541		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:38228694G>A	uc003auc.2	-	7	836	c.778C>T	c.(778-780)CGC>TGC	p.R260C	ANKRD54_uc003aud.2_Missense_Mutation_p.R137C	NM_138797	NP_620152	Q6NXT1	ANR54_HUMAN	ankyrin repeat domain 54	260											0	Melanoma(58;0.045)					TCATCCAGGCGTTCTCGCTGC	0.612													13	82					0	0	0.003163	0	0		A	38228694	A	A	38228694	3	1	20	1	0	0	0	0	1	0	0	0	680	1145	40	1	132	1	ANKRD54	22	38228694	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	459442	38228694	13075872	1742	18464											
MGAT3	4248	broad.mit.edu	37	chr22	39884545	39884545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcagacagtatgagaaccGcaccggccacatcctggtgc	10	7	10	14	2	1	2	1	1	0	2	2	3	2	2	4	2	2	2	4	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:39884545G>A	uc003axv.3	+	2	1432	c.1193G>A	c.(1192-1194)CGC>CAC	p.R398H	MGAT3_uc010gxy.2_Missense_Mutation_p.R398H	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	398	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					TATGAGAACCGCACCGGCCAC	0.642													20	34					0	0	0.010504	0	0		A	39884545	A	A	39884545	3	1	20	1	0	0	0	0	1	0	0	0	9562	1087	38	1	1195	1	MGAT3	22	39884545	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1655851	39884545	11420021	1743	18465											
SMCR7L	54471	broad.mit.edu	37	chr22	39909860	39909860	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatgagcgtgacaaacatctCttcattgacttcctgccatc	10	13	6	12	1	2	3	1	3	1	0	5	3	3	3	2	0	3	0	2	0	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:39909860C>T	uc003axx.2	+	6	1422	c.924C>T	c.(922-924)CTC>CTT	p.L308L	SMCR7L_uc003axw.2_Silent_p.L308L|SMCR7L_uc010gxz.1_Silent_p.L130L|SMCR7L_uc003axy.2_Silent_p.L130L	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	308						integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					ACAAACATCTCTTCATTGACT	0.587											OREG0026577	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	63					0	0	0.00874	0	0		T	39909860	T	T	39909860	2	4	20	1	0	0	0	0	0	0	0	1	14816	900	32	4		4	SMCR7L	22	39909860	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	25315	39909860	11394706	1744	18466											
SGSM3	27352	broad.mit.edu	37	chr22	40804113	40804113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtggaagtcctggatgagCgcagcaaagaggtgaggggg	10	6	19	6	2	0	3	0	2	0	1	2	5	1	5	1	5	2	2	1	5	2	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:40804113C>T	uc003ayu.1	+	15	1827	c.1618C>T	c.(1618-1620)CGC>TGC	p.R540C	SGSM3_uc011aos.1_Missense_Mutation_p.R473C|SGSM3_uc011aot.1_Missense_Mutation_p.R477C|SGSM3_uc010gyd.1_Missense_Mutation_p.R611C	NM_015705	NP_056520	Q96HU1	SGSM3_HUMAN	small G protein signaling modulator 3	540					cell cycle arrest|Rap protein signal transduction	cytoplasm	Rab GTPase activator activity|Rab GTPase binding			ovary(2)	2						CCTGGATGAGCGCAGCAAAGA	0.632													14	47					0	0	0.00499	0	0		T	40804113	T	T	40804113	3	4	20	1	0	0	0	0	1	0	0	0	14249	768	27	1	1672	1	SGSM3	22	40804113	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	894253	40804113	10500453	1745	18467											
SEPT3	55964	broad.mit.edu	37	chr22	42390663	42390663	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaagtgacacacaacaTccactatgagacttacaggg	16	6	9	10	0	0	2	0	2	0	1	1	4	1	3	1	2	2	0	1	2	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:42390663T>C	uc003bbr.3	+	10	1094	c.956T>C	c.(955-957)ATC>ACC	p.I319T	WBP2NL_uc011ape.1_Intron|SEPT3_uc003bbs.3_Missense_Mutation_p.I319T|SEPT3_uc010gyr.2_Missense_Mutation_p.I255T|SEPT3_uc011apj.1_Missense_Mutation_p.I255T|SEPT3_uc010gys.2_Missense_Mutation_p.I99T	NM_145733	NP_663786	Q9UH03	SEPT3_HUMAN	septin 3 isoform A	319					cell cycle|cytokinesis	cell junction|septin complex	GTP binding				0						ACACACAACATCCACTATGAG	0.567													9	86					0	0	0.006214	0	0		C	42390663	C	C	42390663	3	2	20	1	0	0	0	0	1	0	0	0	14090	1435	50	3	994	3	SEPT3	22	42390663	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1586550	42390663	8913903	1746	18468											
ATXN10	25814	broad.mit.edu	37	chr22	46136420	46136420	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaagataaccaagacaaggTaagaggatttcttagtatgt	17	11	9	4	0	1	3	0	0	1	3	1	4	1	4	1	2	1	2	1	2	8	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:46136420T>C	uc003bgm.1	+	9	1430	c.1173_splice	c.e9+2	p.K391_splice	ATXN10_uc011aqt.1_Splice_Site_p.K327_splice|ATXN10_uc003bgn.1_Splice_Site_p.K202_splice	NM_013236	NP_037368	Q9UBB4	ATX10_HUMAN	ataxin 10						cell death|neuron projection development	dendrite|neuronal cell body|perinuclear region of cytoplasm				ovary(1)|kidney(1)	2		Ovarian(80;0.00973)|all_neural(38;0.0417)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0223)		CAAGACAAGGTAAGAGGATTT	0.378													5	108					0	0	0.000602	0	0		C	46136420	C	C	46136420	5	2	20	1	0	0	0	0	0	0	1	0	1211	1652	57	3	1209	3	ATXN10	22	46136420	Splice_Site	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3745757	46136420	5168146	1747	18469											
PPARA	5465	broad.mit.edu	37	chr22	46611192	46611192	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgcggggacaaggcctcaGgctatcattacggagtccac	9	8	12	12	2	3	0	2	0	1	0	4	2	4	2	2	5	2	1	2	5	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:46611192G>T	uc003bgw.1	+	5	597	c.331G>T	c.(331-333)GGC>TGC	p.G111C	PPARA_uc003bgx.1_Missense_Mutation_p.G111C|PPARA_uc010hab.1_Missense_Mutation_p.G111C|PPARA_uc003bha.2_Missense_Mutation_p.G111C|PPARA_uc003bhb.1_Missense_Mutation_p.G111C|PPARA_uc010hac.1_Translation_Start_Site	NM_005036	NP_005027	Q07869	PPARA_HUMAN	peroxisome proliferative activated receptor,	111	Nuclear receptor.|NR C4-type.				fatty acid metabolic process|fatty acid transport|negative regulation of appetite|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|negative regulation of receptor biosynthetic process|negative regulation of sequestering of triglyceride|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fatty acid beta-oxidation|regulation of cellular ketone metabolic process by positive regulation of transcription from an RNA polymerase II promoter|regulation of glycolysis by positive regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|ligand-regulated transcription factor activity|lipid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|ubiquitin conjugating enzyme binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00522)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Clofibrate(DB00636)|Fenofibrate(DB01039)|Gemfibrozil(DB01241)|Simvastatin(DB00641)	CAAGGCCTCAGGCTATCATTA	0.572													12	41					1.3612e-06	1.40724e-06	0.003163	1	0		T	46611192	T	T	46611192	3	4	20	1	0	0	0	0	1	0	0	0	12316	1000	35	5	337	5	PPARA	22	46611192	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	474772	46611192	4693374	1748	18470											
PKDREJ	10343	broad.mit.edu	37	chr22	46655432	46655432	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggatggcttaaacaatgcAcgtcgctggtactcacagtt	10	11	11	9	2	1	0	1	0	0	0	2	1	1	1	0	3	3	5	0	3	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:46655432A>T	uc003bhh.2	-	1	3788	c.3788T>A	c.(3787-3789)GTG>GAG	p.V1263E		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1263	Cytoplasmic (Potential).|PLAT.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TAAACAATGCACGTCGCTGGT	0.468													32	110					0	0	0.012213	0	0		T	46655432	T	T	46655432	3	4	20	1	0	0	0	0	1	0	0	0	11989	159	6	5	2977	5	PKDREJ	22	46655432	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	44240	46655432	4649134	1749	18471											
CELSR1	9620	broad.mit.edu	37	chr22	46793716	46793716	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatgttcagggtggcgacGttggtgggcgtcccccccat	4	11	14	12	3	2	0	2	0	0	0	3	1	3	0	3	4	0	2	3	4	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:46793716G>A	uc003bhw.1	-	12	5556	c.5556C>T	c.(5554-5556)AAC>AAT	p.N1852N	CELSR1_uc011arc.1_Silent_p.N173N	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1852	Extracellular (Potential).|Laminin G-like 2.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GGGTGGCGACGTTGGTGGGCG	0.597													6	10					0	0	0.001984	0	0		A	46793716	A	A	46793716	2	1	20	1	0	0	0	0	0	0	0	1	3224	1136	40	1		1	CELSR1	22	46793716	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	138284	46793716	4510850	1750	18472											
TBC1D22A	25771	broad.mit.edu	37	chr22	47308004	47308004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttcatatgggcgatccGccacccagccagtggatacg	8	9	11	13	3	1	0	1	0	0	0	2	2	2	1	4	2	2	1	4	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:47308004G>A	uc003bib.2	+	8	1070	c.935G>A	c.(934-936)CGC>CAC	p.R312H	TBC1D22A_uc010haf.2_Missense_Mutation_p.R282H|TBC1D22A_uc003bic.2_Missense_Mutation_p.R253H|TBC1D22A_uc003bie.2_Missense_Mutation_p.R234H|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.R265H	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	312	Rab-GAP TBC.					intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		TGGGCGATCCGCCACCCAGCC	0.383													53	166					0	0	0.01441	0	0		A	47308004	A	A	47308004	3	1	20	1	0	0	0	0	1	0	0	0	15636	1087	38	1	965	1	TBC1D22A	22	47308004	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	514288	47308004	3996562	1751	18473											
BRD1	23774	broad.mit.edu	37	chr22	50169717	50169717	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagtgccgggtaggaggggTagccgctgcacttggcccac	6	6	16	13	2	0	0	0	0	0	0	0	1	0	1	4	5	3	4	4	5	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:50169717T>C	uc003biv.2	-	10	3306	c.2819A>G	c.(2818-2820)TAC>TGC	p.Y940C	BRD1_uc011arf.1_Missense_Mutation_p.Y666C|BRD1_uc011arg.1_Missense_Mutation_p.Y989C|BRD1_uc011arh.1_Missense_Mutation_p.Y940C|BRD1_uc003biu.3_Missense_Mutation_p.Y1071C	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	940	PWWP.				histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GTAGGAGGGGTAGCCGCTGCA	0.682													7	14					0	0	0.00245	0	0		C	50169717	C	C	50169717	3	2	20	1	0	0	0	0	1	0	0	0	1504	1638	57	3	369	3	BRD1	22	50169717	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2861713	50169717	1134849	1752	18474											
BRD1	23774	broad.mit.edu	37	chr22	50197979	50197979	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaactgcttcttccgctgaAtggccacctgattcgcaatc	9	11	7	14	2	1	2	0	2	1	0	4	2	2	2	3	1	2	3	3	1	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:50197979A>G	uc003biv.2	-	2	1884	c.1397T>C	c.(1396-1398)ATT>ACT	p.I466T	BRD1_uc011arf.1_Missense_Mutation_p.I61T|BRD1_uc011arg.1_Missense_Mutation_p.I520T|BRD1_uc011arh.1_Missense_Mutation_p.I466T|BRD1_uc003biu.3_Missense_Mutation_p.I466T	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	466					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CTTCCGCTGAATGGCCACCTG	0.507													14	64					0	0	0.006122	0	0		G	50197979	G	G	50197979	3	3	20	1	0	0	0	0	1	0	0	0	1504	101	4	3	1823	3	BRD1	22	50197979	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	28262	50197979	1106587	1753	18475											
ZBED4	9889	broad.mit.edu	37	chr22	50277790	50277790	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagttgtctcatgaggcaCgtgaggcgcgcacacccgac	9	6	12	14	4	1	2	1	2	1	0	2	3	1	2	2	2	0	3	2	2	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:50277790C>T	uc003bix.2	+	2	950	c.480C>T	c.(478-480)CAC>CAT	p.H160H		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	160	BED-type 1.					cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		TCATGAGGCACGTGAGGCGCG	0.547													25	52					0	0	0.00333	0	0		T	50277790	T	T	50277790	2	4	20	1	0	0	0	0	0	0	0	1	17545	535	19	1		1	ZBED4	22	50277790	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	79811	50277790	1026776	1754	18476											
TTLL8	164714	broad.mit.edu	37	chr22	50470360	50470360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaccttcatggcgtgggCgatggccttcttcatggacg	5	10	14	12	3	3	0	2	0	1	0	3	2	3	1	3	5	0	0	3	5	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:50470360C>T	uc011ark.1	-	11	1462	c.1462G>A	c.(1462-1464)GCC>ACC	p.A488T		NM_001080447	NP_001073916			tubulin tyrosine ligase-like family, member 8											ovary(2)	2		all_cancers(38;3.44e-07)|all_epithelial(38;2.44e-06)|all_lung(38;0.00141)|Breast(42;0.00519)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		READ - Rectum adenocarcinoma(2;0.000882)|Colorectal(2;0.00311)|BRCA - Breast invasive adenocarcinoma(115;0.226)		ATGGCGTGGGCGATGGCCTTC	0.637													7	13					0	0	0.004482	0	0		T	50470360	T	T	50470360	3	4	20	1	0	0	0	0	1	0	0	0	16759	768	27	1	1057	1	TTLL8	22	50470360	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	192570	50470360	834206	1755	18477											
SELO	83642	broad.mit.edu	37	chr22	50655450	50655450	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggacgctgccgcctggCaggctgagcacgtgcgcgtg	4	6	18	13	5	0	1	0	1	0	0	0	2	0	2	2	4	3	4	2	4	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:50655450C>T	uc011arr.1	+	8	1796	c.1738C>T	c.(1738-1740)CAG>TAG	p.Q580*	SELO_uc010hap.2_Nonsense_Mutation_p.Q391*|SELO_uc003bjy.2_Nonsense_Mutation_p.Q260*|SELO_uc003bjz.2_Nonsense_Mutation_p.Q331*	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O	580											0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		TGCCGCCTGGCAGGCTGAGCA	0.642													10	17					0	0	0.010729	0	0		T	50655450	T	T	50655450	4	4	20	1	0	0	0	0	0	1	0	0	14043	711	25	2	1768	2	SELO	22	50655450	Nonsense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	185090	50655450	649116	1756	18478											
PLXNB2	23654	broad.mit.edu	37	chr22	50714358	50714358	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtattggtagagctggtggAgtgccacgagggtgttcaag	8	11	17	5	1	1	1	1	0	0	1	1	3	1	2	1	4	2	4	1	4	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:50714358A>G	uc003bkv.3	-	36	5478	c.5372T>C	c.(5371-5373)CTC>CCC	p.L1791P	PLXNB2_uc003bkt.1_Missense_Mutation_p.L583P|PLXNB2_uc003bku.1_Missense_Mutation_p.L776P	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1791	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GAGCTGGTGGAGTGCCACGAG	0.672											OREG0026679	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	58					0	0	0.001984	0	0		G	50714358	G	G	50714358	3	3	20	1	0	0	0	0	1	0	0	0	12143	304	11	3	152	3	PLXNB2	22	50714358	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	58908	50714358	590208	1757	18479											
PLXNB2	23654	broad.mit.edu	37	chr22	50717305	50717305	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaccacgctgtctggccTgggccagcaggagcagggct	7	5	16	13	1	1	0	0	0	1	0	1	2	1	2	3	5	2	4	3	5	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:50717305T>A	uc003bkv.3	-	28	4631	c.4525A>T	c.(4525-4527)AGG>TGG	p.R1509W	PLXNB2_uc003bkt.1_Missense_Mutation_p.R301W|PLXNB2_uc003bku.1_Missense_Mutation_p.R494W	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1509	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CTGTCTGGCCTGGGCCAGCAG	0.662													3	29					0	0	0.004672	0	0		A	50717305	A	A	50717305	3	1	20	1	0	0	0	0	1	0	0	0	12143	1579	55	5	1031	5	PLXNB2	22	50717305	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2947	50717305	587261	1758	18480											
ACR	49	broad.mit.edu	37	chr22	51183154	51183154	+	Frame_Shift_Del	DEL	G	-	-																															ggtcgtgggaatcacaagctGgggggtaggctgtgcccgtg																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chr22:51183154delG	uc003bnh.3	+	5	797	c.785delG	c.(784-786)TGGfs	p.W262fs		NM_001097	NP_001088	P10323	ACRO_HUMAN	acrosin precursor	262	Peptidase S1.				acrosome matrix dispersal|activation of adenylate cyclase activity	acrosomal matrix|protein complex	amidase activity|copper ion binding|DNA binding|drug binding|fucose binding|mannose binding|protein binding|serine-type endopeptidase activity|zinc ion binding				0		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;1.1e-06)|LUAD - Lung adenocarcinoma(64;0.247)		ATCACAAGCTGGGGGGTAGGC	0.587													16	32	---	---	---	---						.	-	51183154	-	-	51183154	7	5	20	1	0	1	0	1	0	0	0	0	169	1357	47	0	803	0	ACR	22	51183154	Frame_Shift_Del	DEL	G	TCGA-BR-4362-01A-01D-1158-08	465849	51183154	121412	1759	18481											
CLCN4	1183	broad.mit.edu	37	chrX	10176320	10176320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcgcctggtgcaggaggcGcaagaccaccaggctgggga	9	4	16	12	2	0	1	0	0	0	1	1	3	0	3	3	6	1	3	3	6	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:10176320G>A	uc004csy.3	+	9	1509	c.1079G>A	c.(1078-1080)CGC>CAC	p.R360H	CLCN4_uc011mid.1_Missense_Mutation_p.R266H	NM_001830	NP_001821	P51793	CLCN4_HUMAN	chloride channel 4	360						early endosome membrane|integral to membrane|late endosome membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						TGCAGGAGGCGCAAGACCACC	0.597													6	232					0	0	0.001984	0	0		A	10176320	A	A	10176320	3	1	20	1	0	0	0	0	1	0	0	0	3468	1087	38	1	1105	1	CLCN4	23	10176320	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08		10176320	145094240	1760	18482											
FANCB	2187	broad.mit.edu	37	chrX	14883542	14883542	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctctttatctgcaaaatTtcctttagacaactggaaaa	14	13	6	8	0	2	1	0	0	2	1	3	2	3	2	1	2	2	2	1	2	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:14883542T>G	uc004cwg.1	-	3	359	c.91A>C	c.(91-93)AAT>CAT	p.N31H	FANCB_uc004cwh.1_Missense_Mutation_p.N31H	NM_001018113	NP_001018123	Q8NB91	FANCB_HUMAN	Fanconi anemia complementation group B	31					DNA repair	nucleoplasm				lung(1)	1	Hepatocellular(33;0.183)					TCTGCAAAATTTCCTTTAGAC	0.363								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				9	178					0	0	0.006214	0	0		G	14883542	G	G	14883542	3	3	20	1	0	0	0	0	1	0	0	0	5677	1841	64	5	2520	5	FANCB	23	14883542	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	4707222	14883542	140387018	1761	18483											
NHS	4810	broad.mit.edu	37	chrX	17744772	17744772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaaaccaaaggcaaagcCgaccccacctaaacgtagct	16	3	8	14	2	0	0	0	0	0	0	0	2	0	1	5	2	4	3	5	2	6	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:17744772C>T	uc004cxx.2	+	6	2821	c.2483C>T	c.(2482-2484)CCG>CTG	p.P828L	NHS_uc011mix.1_Missense_Mutation_p.P849L|NHS_uc004cxy.2_Missense_Mutation_p.P672L|NHS_uc004cxz.2_Missense_Mutation_p.P651L|NHS_uc004cya.2_Missense_Mutation_p.P551L	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	828						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					AAGGCAAAGCCGACCCCACCT	0.502													36	152					0	0	0.006999	0	0		T	17744772	T	T	17744772	3	4	20	1	0	0	0	0	1	0	0	0	10430	652	23	1	2610	1	NHS	23	17744772	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2861230	17744772	137525788	1762	18484											
NHS	4810	broad.mit.edu	37	chrX	17745811	17745811	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatctcgtcaatactccacTgaagacaccatactgtcctt	11	12	5	13	1	2	2	1	1	1	1	5	2	4	2	3	0	2	1	3	0	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:17745811T>C	uc004cxx.2	+	6	3860	c.3522T>C	c.(3520-3522)ACT>ACC	p.T1174T	NHS_uc011mix.1_Silent_p.T1195T|NHS_uc004cxy.2_Silent_p.T1018T|NHS_uc004cxz.2_Silent_p.T997T|NHS_uc004cya.2_Silent_p.T897T	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1174						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					AATACTCCACTGAAGACACCA	0.403													63	158					0	0	0.01441	0	0		C	17745811	C	C	17745811	2	2	20	1	0	0	0	0	0	0	0	1	10430	1567	55	3		3	NHS	23	17745811	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1039	17745811	137524749	1763	18485											
SH3KBP1	30011	broad.mit.edu	37	chrX	19587236	19587236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccaatgtcattgctgcGgtccgagagatctttgtcca	8	12	9	12	2	3	1	2	0	1	1	5	3	5	1	3	1	2	1	3	1	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:19587236G>A	uc004czm.2	-	13	1685	c.1369C>T	c.(1369-1371)CGC>TGC	p.R457C	SH3KBP1_uc011mje.1_Missense_Mutation_p.R196C|SH3KBP1_uc011mjf.1_Missense_Mutation_p.R219C|SH3KBP1_uc004czl.2_Missense_Mutation_p.R420C|SH3KBP1_uc010nfm.2_5'UTR	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	457					apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						TCATTGCTGCGGTCCGAGAGA	0.483													46	144					0	0	0.01441	0	0		A	19587236	A	A	19587236	3	1	20	1	0	0	0	0	1	0	0	0	14280	1116	39	1	652	1	SH3KBP1	23	19587236	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1841425	19587236	135683324	1764	18486											
SH3KBP1	30011	broad.mit.edu	37	chrX	19606847	19606847	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agagaattggtcttaggtggCcgaggcttttttggcggtat	7	14	15	5	2	1	1	0	0	1	1	1	3	1	1	1	6	0	2	1	6	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:19606847C>T	uc004czm.2	-	12	1528	c.1212G>A	c.(1210-1212)CGG>CGA	p.R404R	SH3KBP1_uc011mje.1_Silent_p.R143R|SH3KBP1_uc011mjf.1_Silent_p.R166R|SH3KBP1_uc004czl.2_Silent_p.R367R	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	404	Pro-rich.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						TCTTAGGTGGCCGAGGCTTTT	0.532													76	206					0	0	0.01441	0	0		T	19606847	T	T	19606847	2	4	20	1	0	0	0	0	0	0	0	1	14280	726	26	2		2	SH3KBP1	23	19606847	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	19611	19606847	135663713	1765	18487											
MAP7D2	256714	broad.mit.edu	37	chrX	20082870	20082870	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttttctctttcttctcGtctttctttggccaatctct	4	22	3	12	1	6	0	0	0	6	0	9	0	6	0	1	1	0	0	1	1	1	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:20082870G>A	uc004czr.1	-	2	203	c.184C>T	c.(184-186)CGA>TGA	p.R62*	MAP7D2_uc011mji.1_Nonsense_Mutation_p.R18*|MAP7D2_uc010nfo.1_Nonsense_Mutation_p.R62*|MAP7D2_uc011mjj.1_Nonsense_Mutation_p.R62*|MAP7D2_uc004czs.1_Nonsense_Mutation_p.R18*	NM_152780	NP_689993	Q96T17	MA7D2_HUMAN	MAP7 domain containing 2	62	Potential.									ovary(2)|breast(1)	3						CTTTCTTCTCGTCTTTCTTTG	0.398													41	84					0	0	0.011902	0	0		A	20082870	A	A	20082870	4	1	20	1	0	0	0	0	0	1	0	0	9286	1153	40	1	2197	1	MAP7D2	23	20082870	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	476023	20082870	135187690	1766	18488											
CNKSR2	22866	broad.mit.edu	37	chrX	21670629	21670629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactcattcatacattgaaaCgcatgtctaaatgtattctg	13	14	5	9	1	4	1	2	1	2	0	4	1	4	1	0	0	2	2	0	0	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:21670629C>T	uc004czx.1	+	22	3131	c.3095C>T	c.(3094-3096)ACG>ATG	p.T1032M	CNKSR2_uc011mjo.1_Missense_Mutation_p.T1002M	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	1032					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						TACATTGAAACGCATGTCTAA	0.378													40	93					0	0	0.007835	0	0		T	21670629	T	T	21670629	3	4	20	1	0	0	0	0	1	0	0	0	3610	536	19	1	3190	1	CNKSR2	23	21670629	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1587759	21670629	133599931	1767	18489											
ZNF645	158506	broad.mit.edu	37	chrX	22291373	22291373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaatttatatgacaaagtcGgatataaagtatgtccgcgc	14	12	8	7	3	0	1	0	1	0	0	2	2	1	2	1	1	0	1	1	1	8	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:22291373G>A	uc004dai.1	+	1	314	c.265G>A	c.(265-267)GGA>AGA	p.G89R		NM_152577	NP_689790	Q8N7E2	ZN645_HUMAN	zinc finger protein 645	89	RING-type.					intracellular	zinc ion binding			lung(1)|pancreas(1)	2						TGACAAAGTCGGATATAAAGT	0.403													25	74					0	0	0.00333	0	0		A	22291373	A	A	22291373	3	1	20	1	0	0	0	0	1	0	0	0	18086	1117	39	1	267	1	ZNF645	23	22291373	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	620744	22291373	132979187	1768	18490											
ACOT9	23597	broad.mit.edu	37	chrX	23748967	23748967	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacagtcaaatatttctctcGtaattcaggctcactgccca	12	12	5	12	1	4	0	3	0	1	0	6	0	4	0	1	1	2	2	1	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:23748967G>A	uc004dap.2	-	4	447	c.301C>T	c.(301-303)CGA>TGA	p.R101*	ACOT9_uc004dao.2_Nonsense_Mutation_p.R110*|ACOT9_uc004daq.2_Nonsense_Mutation_p.R59*|ACOT9_uc004dar.2_Nonsense_Mutation_p.R41*|ACOT9_uc011mjt.1_RNA|ACOT9_uc004das.2_Nonsense_Mutation_p.R41*|ACOT9_uc004dat.1_Nonsense_Mutation_p.R101*	NM_001033583	NP_001028755	Q9Y305	ACOT9_HUMAN	acyl-Coenzyme A thioesterase 2, mitochondrial	101					acyl-CoA metabolic process	mitochondrion	acetyl-CoA hydrolase activity|carboxylesterase activity			ovary(2)|pancreas(1)	3						TATTTCTCTCGTAATTCAGGC	0.333													29	70					0	0	0.008361	0	0		A	23748967	A	A	23748967	4	1	20	1	0	0	0	0	0	1	0	0	157	1153	40	1	1066	1	ACOT9	23	23748967	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1457594	23748967	131521593	1769	18491											
DCAF8L2	347442	broad.mit.edu	37	chrX	27765108	27765108	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtctggagccgtggcggcGacagaggcctcctcagacat	8	6	14	13	3	2	2	1	0	1	2	3	4	3	3	3	4	1	0	3	4	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:27765108G>A	uc011mjy.1	+	1	183	c.96G>A	c.(94-96)GCG>GCA	p.A32A		NM_001136533	NP_001130005			DDB1 and CUL4 associated factor 8-like 2											central_nervous_system(1)|pancreas(1)	2						CCGTGGCGGCGACAGAGGCCT	0.572													3	13					0	0	0.004672	0	0		A	27765108	A	A	27765108	2	1	20	1	0	0	0	0	0	0	0	1	4281	1045	37	1		1	DCAF8L2	23	27765108	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	4016141	27765108	127505452	1770	18492											
TAB3	257397	broad.mit.edu	37	chrX	30870905	30870905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcacttaccgtagggatcGcagtggtgcagctgactctt	8	11	12	10	2	2	1	1	1	1	0	3	3	2	2	1	2	3	4	1	2	2	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:30870905G>A	uc004dcj.2	-	7	2363	c.1700C>T	c.(1699-1701)GCG>GTG	p.A567V	TAB3_uc004dck.2_Missense_Mutation_p.A567V|TAB3_uc010ngl.2_Missense_Mutation_p.A567V	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	567					activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						CGTAGGGATCGCAGTGGTGCA	0.463													31	77					0	0	0.008361	0	0		A	30870905	A	A	30870905	3	1	20	1	0	0	0	0	1	0	0	0	15522	1087	38	1	458	1	TAB3	23	30870905	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3105797	30870905	124399655	1771	18493											
DMD	1756	broad.mit.edu	37	chrX	31496309	31496309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgatcacctcagcttggcGcagcttgaggtccagctcat	7	11	10	13	1	3	2	3	2	0	0	4	2	4	2	2	2	3	4	2	2	0	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:31496309G>A	uc004dda.1	-	59	9095	c.8851C>T	c.(8851-8853)CGC>TGC	p.R2951C	DMD_uc004dcq.1_Missense_Mutation_p.R222C|DMD_uc004dcr.1_Missense_Mutation_p.R491C|DMD_uc004dcs.1_Missense_Mutation_p.R491C|DMD_uc004dct.1_Missense_Mutation_p.R491C|DMD_uc004dcu.1_Missense_Mutation_p.R491C|DMD_uc004dcv.1_Missense_Mutation_p.R491C|DMD_uc004dcw.2_Missense_Mutation_p.R1607C|DMD_uc004dcx.2_Missense_Mutation_p.R1610C|DMD_uc004dcz.2_Missense_Mutation_p.R2828C|DMD_uc004dcy.1_Missense_Mutation_p.R2947C|DMD_uc004ddb.1_Missense_Mutation_p.R2943C	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2951	Spectrin 22.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TCAGCTTGGCGCAGCTTGAGG	0.537													10	38					0	0	0.006214	0	0		A	31496309	A	A	31496309	3	1	20	1	0	0	0	0	1	0	0	0	4586	1087	38	1	2404	1	DMD	23	31496309	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	625404	31496309	123774251	1772	18494											
FAM47B	170062	broad.mit.edu	37	chrX	34961163	34961163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagatacgcttgtttgtcGccgtgacgagtttttactcc	7	15	10	9	4	0	3	0	2	0	1	2	4	1	3	2	0	2	3	2	0	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:34961163G>A	uc004ddi.1	+	1	233	c.215G>A	c.(214-216)CGC>CAC	p.R72H		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	72										ovary(3)|breast(1)	4						CTTGTTTGTCGCCGTGACGAG	0.527													7	81					0	0	0.001984	0	0		A	34961163	A	A	34961163	3	1	20	1	0	0	0	0	1	0	0	0	5584	1087	38	1	217	1	FAM47B	23	34961163	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3464854	34961163	120309397	1773	18495											
FAM47B	170062	broad.mit.edu	37	chrX	34961839	34961839	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtatctcatctccacccGgagcctcctgagactggagt	7	9	10	15	3	2	1	1	1	2	1	5	4	3	3	4	2	1	1	4	2	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:34961839G>A	uc004ddi.1	+	1	909	c.891G>A	c.(889-891)CCG>CCA	p.P297P		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	297	Pro-rich.									ovary(3)|breast(1)	4						ATCTCCACCCGGAGCCTCCTG	0.632													33	71					0	0	0.013726	0	0		A	34961839	A	A	34961839	2	1	20	1	0	0	0	0	0	0	0	1	5584	1103	39	1		1	FAM47B	23	34961839	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	676	34961839	120308721	1774	18496											
LANCL3	347404	broad.mit.edu	37	chrX	37526606	37526606	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggacacatgtattcggTgtggggaactcacatggcag	10	9	13	9	1	1	0	1	0	0	0	2	2	1	2	1	5	1	2	1	5	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:37526606T>C	uc011mkd.1	+	4	1269	c.967T>C	c.(967-969)TGT>CGT	p.C323R	LANCL3_uc004ddp.1_Missense_Mutation_p.C323R	NM_198511	NP_940913	Q6ZV70	LANC3_HUMAN	LanC lantibiotic synthetase component C-like 3	323							catalytic activity				0						ATGTATTCGGTGTGGGGAACT	0.498													22	77					0	0	0.00278	0	0		C	37526606	C	C	37526606	3	2	20	1	0	0	0	0	1	0	0	0	8638	1696	59	3	981	3	LANCL3	23	37526606	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2564767	37526606	117743954	1775	18497											
TSPAN7	7102	broad.mit.edu	37	chrX	38535094	38535094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacacaatctgactgtggccGccaccaaagttaaccagaag	14	7	8	12	1	1	2	0	1	1	1	1	2	1	2	4	1	2	1	4	1	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:38535094G>A	uc004deg.3	+	5	646	c.577G>A	c.(577-579)GCC>ACC	p.A193T	TSPAN7_uc011mkj.1_Missense_Mutation_p.A219T|TSPAN7_uc011mkk.1_Missense_Mutation_p.A210T|TSPAN7_uc004deh.2_Missense_Mutation_p.A101T	NM_004615	NP_004606	P41732	TSN7_HUMAN	tetraspanin 7	193	Extracellular (Potential).				interspecies interaction between organisms	integral to plasma membrane				ovary(1)	1						GACTGTGGCCGCCACCAAAGT	0.517													12	32					0	0	0.00245	0	0		A	38535094	A	A	38535094	3	1	20	1	0	0	0	0	1	0	0	0	16678	1087	38	1	595	1	TSPAN7	23	38535094	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1008488	38535094	116735466	1776	18498											
RBM10	8241	broad.mit.edu	37	chrX	47045755	47045755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagggcagcggcctgggccGcaagaagcagggcattgtaa	11	4	17	9	2	0	2	0	0	0	2	0	2	0	2	2	4	2	5	2	4	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:47045755G>A	uc004dhf.2	+	23	3015	c.2636G>A	c.(2635-2637)CGC>CAC	p.R879H	RBM10_uc004dhg.2_Missense_Mutation_p.R801H|RBM10_uc004dhh.2_Missense_Mutation_p.R878H|RBM10_uc010nhq.2_Missense_Mutation_p.R802H|RBM10_uc004dhi.2_Missense_Mutation_p.R944H	NM_005676	NP_005667	P98175	RBM10_HUMAN	RNA binding motif protein 10 isoform 1	879	G-patch.				mRNA processing|RNA splicing	chromatin remodeling complex	nucleotide binding|RNA binding|zinc ion binding			ovary(1)|large_intestine(1)|prostate(1)|breast(1)|pancreas(1)	5						GGCCTGGGCCGCAAGAAGCAG	0.632													4	9					0	0	0.009096	0	0		A	47045755	A	A	47045755	3	1	20	1	0	0	0	0	1	0	0	0	13136	1087	38	1	2722	1	RBM10	23	47045755	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	8510661	47045755	108224805	1777	18499											
ARAF	369	broad.mit.edu	37	chrX	47430411	47430411	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcggcccctcttcccccaGgtgggctgggtagggggctg	3	7	18	13	1	1	0	0	0	1	0	2	1	2	0	4	6	1	3	4	6	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:47430411G>T	uc011mlq.1	+	15	1819	c.1686G>T	c.(1684-1686)CAG>CAT	p.Q562H		NM_001654	NP_001645	P10398	ARAF_HUMAN	v-raf murine sarcoma 3611 viral oncogene	562	Protein kinase.				intracellular signal transduction|negative regulation of apoptosis|positive regulation of peptidyl-serine phosphorylation		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity			large_intestine(3)|lung(2)|ovary(1)|skin(1)	7					Adenosine triphosphate(DB00171)	TCTTCCCCCAGGTGGGCTGGG	0.592													7	20					8.12818e-05	8.31345e-05	0.001984	1	0		T	47430411	T	T	47430411	3	4	20	1	0	0	0	0	1	0	0	0	837	1014	35	5	1740	5	ARAF	23	47430411	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	384656	47430411	107840149	1778	18500											
ZNF81	347344	broad.mit.edu	37	chrX	47774350	47774350	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggaattaagccttcccAgaggagaatttctgggaaat	13	12	10	6	0	1	2	0	0	1	2	2	5	2	4	2	3	1	0	2	3	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:47774350A>G	uc010nhy.1	+	6	673	c.305A>G	c.(304-306)CAG>CGG	p.Q102R		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	102						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				AAGCCTTCCCAGAGGAGAATT	0.338													9	20					0	0	0.006214	0	0		G	47774350	G	G	47774350	3	3	20	1	0	0	0	0	1	0	0	0	18199	188	7	3	319	3	ZNF81	23	47774350	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	343939	47774350	107496210	1779	18501											
ZNF81	347344	broad.mit.edu	37	chrX	47774500	47774500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacaacaaacttctgagtcGcactactttcctcaataaga	15	10	4	12	1	2	2	1	1	1	1	4	2	3	2	1	0	3	1	1	0	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:47774500G>A	uc010nhy.1	+	6	823	c.455G>A	c.(454-456)CGC>CAC	p.R152H		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	152						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				CTTCTGAGTCGCACTACTTTC	0.333													12	27					0	0	0.001855	0	0		A	47774500	A	A	47774500	3	1	20	1	0	0	0	0	1	0	0	0	18199	1087	38	1	469	1	ZNF81	23	47774500	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	150	47774500	107496060	1780	18502											
ZNF630	57232	broad.mit.edu	37	chrX	47917969	47917969	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagggtttctccccagtgTgtcttctctgatatgtaatc	6	16	10	9	0	3	1	0	1	3	0	6	2	3	2	2	2	0	2	2	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:47917969T>C	uc004div.3	-	5	2114	c.1862A>G	c.(1861-1863)CAC>CGC	p.H621R	ZNF630_uc010nhz.1_Intron|ZNF630_uc004diw.2_Missense_Mutation_p.H497R	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	621	C2H2-type 13; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2						CTCCCCAGTGTGTCTTCTCTG	0.438													9	49					0	0	0.006214	0	0		C	47917969	C	C	47917969	3	2	20	1	0	0	0	0	1	0	0	0	18079	1696	59	3	115	3	ZNF630	23	47917969	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	143469	47917969	107352591	1781	18503											
MAGIX	79917	broad.mit.edu	37	chrX	49019249	49019249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagccgcgcacagggggcGccgcgaaccctaaggggagc	8	2	18	13	5	0	0	0	0	0	0	0	3	0	2	3	5	3	1	3	5	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:49019249G>A	uc010nin.1	+	1	69	c.22G>A	c.(22-24)GCC>ACC	p.A8T	MAGIX_uc010nio.1_Missense_Mutation_p.A8T|MAGIX_uc004dmt.2_Missense_Mutation_p.A8T|MAGIX_uc004dmu.2_5'Flank|MAGIX_uc004dmw.2_5'Flank	NM_024859	NP_079135	Q9H6Y5	MAGIX_HUMAN	MAGI family member, X-linked isoform a	8											0						CACAGGGGGCGCCGCGAACCC	0.682													4	6					0	0	0.009096	0	0		A	49019249	A	A	49019249	3	1	20	1	0	0	0	0	1	0	0	0	9211	1087	38	1	24	1	MAGIX	23	49019249	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1101280	49019249	106251311	1782	18504											
CLCN5	1184	broad.mit.edu	37	chrX	49837186	49837186	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatgggccttaattcacAgtgtgagtgatgctttttcc	9	14	9	9	0	1	2	1	2	0	0	2	2	2	2	2	1	2	1	2	1	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:49837186A>G	uc004dos.1	+	3	396	c.148A>G	c.(148-150)AGT>GGT	p.S50G	CLCN5_uc004dor.1_Missense_Mutation_p.S120G|CLCN5_uc004doq.1_Missense_Mutation_p.S120G|CLCN5_uc004dot.1_Missense_Mutation_p.S50G	NM_000084	NP_000075	P51795	CLCN5_HUMAN	chloride channel 5 isoform b	50	Cytoplasmic (By similarity).				excretion	apical part of cell|endosome membrane|Golgi membrane|integral to plasma membrane	antiporter activity|ATP binding			ovary(2)|lung(1)|central_nervous_system(1)	4	Ovarian(276;0.236)					CTTAATTCACAGTGTGAGTGA	0.363													30	104					0	0	0.004878	0	0		G	49837186	G	G	49837186	3	3	20	1	0	0	0	0	1	0	0	0	3469	188	7	3	372	3	CLCN5	23	49837186	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	817937	49837186	105433374	1783	18505											
HUWE1	10075	broad.mit.edu	37	chrX	53674333	53674333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatggaactgtacagatgcCgggaaaagctgtactcaatg	13	9	11	8	1	1	1	1	0	0	1	1	3	1	3	1	2	5	3	1	2	7	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:53674333C>T	uc004dsp.2	-	6	731	c.329G>A	c.(328-330)CGG>CAG	p.R110Q		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	110					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GTACAGATGCCGGGAAAAGCT	0.438													14	50					0	0	0.003163	0	0		T	53674333	T	T	53674333	3	4	20	1	0	0	0	0	1	0	0	0	7477	652	23	1	13111	1	HUWE1	23	53674333	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3837147	53674333	101596227	1784	18506											
TSR2	90121	broad.mit.edu	37	chrX	54470968	54470968	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaagatggctggaccattgtCcggagaaaaaaatgagtggg	14	7	15	5	1	0	3	0	1	0	2	1	6	1	4	2	4	0	1	2	4	4	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:54470968C>T	uc004dte.2	+	5	563	c.561C>T	c.(559-561)GTC>GTT	p.V187V	TSR2_uc004dtf.2_Silent_p.V92V	NM_058163	NP_477511	Q969E8	TSR2_HUMAN	TSR2, 20S rRNA accumulation, homolog	187					rRNA processing		protein binding				0						GGACCATTGTCCGGAGAAAAA	0.483													14	53					0	0	0.00499	0	0		T	54470968	T	T	54470968	2	4	20	1	0	0	0	0	0	0	0	1	16691	842	30	4		4	TSR2	23	54470968	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	796635	54470968	100799592	1785	18507											
GNL3L	54552	broad.mit.edu	37	chrX	54577458	54577458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcagccgcgcatgcagcGtgggagctgttcctggaatt	7	8	15	11	4	0	0	0	0	0	0	1	2	1	2	2	2	5	5	2	2	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:54577458G>A	uc004dth.1	+	10	977	c.838G>A	c.(838-840)GTG>ATG	p.V280M	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	280	G.				ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						CGCATGCAGCGTGGGAGCTGT	0.557													9	21					0	0	0.008291	0	0		A	54577458	A	A	54577458	3	1	20	1	0	0	0	0	1	0	0	0	6553	1145	40	1	872	1	GNL3L	23	54577458	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	106490	54577458	100693102	1786	18508											
MAGED2	10916	broad.mit.edu	37	chrX	54838668	54838668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaccttagagcccactgatGcaggcatactgggaacgtaa	12	7	11	11	1	0	2	0	1	0	1	0	3	0	3	2	2	4	4	2	2	4	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:54838668G>A	uc004dtk.1	+	7	1163	c.1069G>A	c.(1069-1071)GCA>ACA	p.A357T	MAGED2_uc004dtl.1_Missense_Mutation_p.A357T|MAGED2_uc004dtm.1_Missense_Mutation_p.A272T|MAGED2_uc010nkc.1_Missense_Mutation_p.A357T|MAGED2_uc004dtn.1_Missense_Mutation_p.A357T|MAGED2_uc004dto.1_Missense_Mutation_p.A331T|SNORA11_uc004dtp.1_5'Flank	NM_177433	NP_803182	Q9UNF1	MAGD2_HUMAN	melanoma antigen family D, 2	357	MAGE.									ovary(2)|breast(1)	3						GCCCACTGATGCAGGCATACT	0.502													6	27					0	0	0.001168	0	0		A	54838668	A	A	54838668	3	1	20	1	0	0	0	0	1	0	0	0	9202	1319	46	2	1091	2	MAGED2	23	54838668	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	261210	54838668	100431892	1787	18509											
ALAS2	212	broad.mit.edu	37	chrX	55051231	55051231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcccatcctggagttccGacagcatgaagggacagtgg	9	9	12	11	1	1	1	0	1	1	0	4	4	4	3	3	3	1	2	3	3	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:55051231G>A	uc004dua.3	-	3	362	c.224C>T	c.(223-225)TCG>TTG	p.S75L	ALAS2_uc004dub.3_Missense_Mutation_p.S99L|ALAS2_uc004dud.3_Missense_Mutation_p.S75L	NM_000032	NP_000023	P22557	HEM0_HUMAN	5-aminolevulinate synthase 2 isoform a	75					cellular iron ion homeostasis|erythrocyte differentiation|heme biosynthetic process|hemoglobin biosynthetic process|oxygen homeostasis|response to hypoxia	mitochondrial inner membrane|mitochondrial matrix	5-aminolevulinate synthase activity|coenzyme binding|glycine binding|protein binding|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(1)	1					Glycine(DB00145)	CTGGAGTTCCGACAGCATGAA	0.468													45	89					0	0	0.013114	0	0		A	55051231	A	A	55051231	3	1	20	1	0	0	0	0	1	0	0	0	485	1059	37	1	1575	1	ALAS2	23	55051231	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	212563	55051231	100219329	1788	18510											
RRAGB	10325	broad.mit.edu	37	chrX	55757835	55757835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaattatttcactagccaacGggacaacatcttccgaaatg	15	10	6	10	2	2	0	1	0	1	0	3	2	3	1	2	1	3	0	2	1	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:55757835G>A	uc004dup.2	+	6	1067	c.416G>A	c.(415-417)CGG>CAG	p.R139Q	RRAGB_uc004duq.2_Missense_Mutation_p.R111Q	NM_016656	NP_057740	Q5VZM2	RRAGB_HUMAN	Ras-related GTP binding B long isoform	139					cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade|signal transduction	Golgi apparatus|lysosome|nucleus	GTP binding|protein binding				0						ACTAGCCAACGGGACAACATC	0.398													15	42					0	0	0.008871	0	0		A	55757835	A	A	55757835	3	1	20	1	0	0	0	0	1	0	0	0	13698	1116	39	1	438	1	RRAGB	23	55757835	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	706604	55757835	99512725	1789	18511											
FAAH2	158584	broad.mit.edu	37	chrX	57474979	57474979	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggctttgttggaagaaaaGctcagatatagcaatgagaa	15	10	11	5	0	1	3	1	1	0	3	1	5	1	4	0	2	2	4	0	2	7	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:57474979G>T	uc004dvc.2	+	10	1400	c.1251G>T	c.(1249-1251)AAG>AAT	p.K417N		NM_174912	NP_777572	Q6GMR7	FAAH2_HUMAN	fatty acid amide hydrolase 2	417						integral to membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|hydrolase activity			ovary(3)	3						TGGAAGAAAAGCTCAGATATA	0.348										HNSCC(52;0.14)			17	54					1.67942e-08	1.74822e-08	0.006122	1	0		T	57474979	T	T	57474979	3	4	20	1	0	0	0	0	1	0	0	0	5365	962	34	5	1289	5	FAAH2	23	57474979	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	1717144	57474979	97795581	1790	18512											
FAM123B	139285	broad.mit.edu	37	chrX	63410310	63410310	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggccaatcataggcccctgGgggttcagtatagagggaaa	12	7	14	8	0	2	1	2	0	0	1	2	2	2	2	3	5	0	2	3	5	5	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:63410310G>T	uc004dvo.2	-	2	3130	c.2857C>A	c.(2857-2859)CCA>ACA	p.P953T		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	953	Pro-rich.				Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						TAGGCCCCTGGGGGTTCAGTA	0.592													12	51					2.32078e-09	2.42424e-09	0.003163	1	0		T	63410310	T	T	63410310	3	4	20	1	0	0	0	0	1	0	0	0	5434	1232	43	5	554	5	FAM123B	23	63410310	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	5935331	63410310	91860250	1791	18513											
ZC4H2	55906	broad.mit.edu	37	chrX	64140060	64140060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctttcagtggcttatacTcatcatgcagcctccttgta	7	16	7	11	0	4	0	3	0	1	0	5	0	5	0	2	1	3	4	2	1	3	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:64140060T>C	uc004dvu.2	-	3	387	c.299A>G	c.(298-300)GAG>GGG	p.E100G	ZC4H2_uc004dvv.2_Missense_Mutation_p.E77G|ZC4H2_uc011mov.1_Missense_Mutation_p.E77G|ZC4H2_uc011mow.1_Missense_Mutation_p.E100G|ZC4H2_uc004dvw.1_Missense_Mutation_p.E100G	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	100	Potential.			E -> K (in Ref. 3; BAB14308).			metal ion binding|protein binding			ovary(1)	1						TGGCTTATACTCATCATGCAG	0.483													4	155					0	0	0.000602	0	0		C	64140060	C	C	64140060	3	2	20	1	0	0	0	0	1	0	0	0	17603	1551	54	3	406	3	ZC4H2	23	64140060	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	729750	64140060	91130500	1792	18514											
ITGB1BP2	26548	broad.mit.edu	37	chrX	70523138	70523138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcctctgaagctgctgcCgctaaatatatcccaagccc	9	10	8	14	1	1	1	0	1	1	0	2	1	2	1	4	0	5	4	4	0	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:70523138C>T	uc004dzr.1	+	5	373	c.344C>T	c.(343-345)CCG>CTG	p.P115L	BCYRN1_uc011mpt.1_Intron|ITGB1BP2_uc004dzs.1_Missense_Mutation_p.P97L	NM_012278	NP_036410	Q9UKP3	ITBP2_HUMAN	integrin beta 1 binding protein 2	115					muscle organ development|signal transduction		SH3 domain binding			ovary(1)	1	Renal(35;0.156)					AAGCTGCTGCCGCTAAATATA	0.488													13	21					0	0	0.00245	0	0		T	70523138	T	T	70523138	3	4	20	1	0	0	0	0	1	0	0	0	7908	652	23	1	362	1	ITGB1BP2	23	70523138	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6383078	70523138	84747422	1793	18515											
ACRC	93953	broad.mit.edu	37	chrX	70823496	70823496	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggaacctccaatagttatTagtgatgatgacaatgacga	15	10	9	7	1	0	4	0	4	0	0	1	6	1	5	2	1	1	1	2	1	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:70823496T>C	uc004eae.2	+	8	870	c.369T>C	c.(367-369)ATT>ATC	p.I123I	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	123						nucleus				ovary(3)	3	Renal(35;0.156)					CAATAGTTATTAGTGATGATG	0.438													4	271					0	0	0.009096	0	0		C	70823496	C	C	70823496	2	2	20	1	0	0	0	0	0	0	0	1	171	1742	61	3		3	ACRC	23	70823496	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	300358	70823496	84447064	1794	18516											
KIAA2022	340533	broad.mit.edu	37	chrX	73961039	73961039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttggacctgccgtgaaaggGtactgcagtcccacttgatt	8	12	11	10	1	0	2	0	2	0	0	1	3	1	3	3	2	3	2	3	2	2	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:73961039G>A	uc004eby.2	-	3	3970	c.3353C>T	c.(3352-3354)ACC>ATC	p.T1118I		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1118					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						CCGTGAAAGGGTACTGCAGTC	0.448													16	66					0	0	0.00278	0	0		A	73961039	A	A	73961039	3	1	20	1	0	0	0	0	1	0	0	0	8285	1261	44	4	1205	4	KIAA2022	23	73961039	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	3137543	73961039	81309521	1795	18517											
MAGT1	84061	broad.mit.edu	37	chrX	77112905	77112905	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaatctgctcagctgaaaaAccccgcacctgtaactcata	13	8	6	14	1	3	1	2	1	1	0	3	1	3	1	3	0	4	5	3	0	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:77112905A>C	uc004fof.2	-	4	638	c.576T>G	c.(574-576)GGT>GGG	p.G192G	MAGT1_uc004fog.3_Intron	NM_032121	NP_115497	Q9H0U3	MAGT1_HUMAN	magnesium transporter 1	160					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				upper_aerodigestive_tract(1)	1						CAGCTGAAAAACCCCGCACCT	0.438													5	247					0	0	0.001984	0	0		C	77112905	C	C	77112905	2	2	20	1	0	0	0	0	0	0	0	1	9214	30	2	5		5	MAGT1	23	77112905	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	3151866	77112905	78157655	1796	18518											
ATP7A	538	broad.mit.edu	37	chrX	77244200	77244200	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctattgaaggaaaaattgggAaactgcaaggtgttcagcga	15	9	12	5	1	1	1	1	1	0	0	1	4	1	3	0	3	3	2	0	3	6	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:77244200A>T	uc004ecx.3	+	3	743	c.583A>T	c.(583-585)AAA>TAA	p.K195*	ATP7A_uc004ecw.2_Nonsense_Mutation_p.K195*	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	195	HMA 2.|Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						AAAAATTGGGAAACTGCAAGG	0.398													15	474					0	0	0.008871	0	0		T	77244200	T	T	77244200	4	4	20	1	0	0	0	0	0	1	0	0	1191	247	9	5	589	5	ATP7A	23	77244200	Nonsense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	131295	77244200	78026360	1797	18519											
BRWD3	254065	broad.mit.edu	37	chrX	79932589	79932589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctggtttgtatgaatttgCtataatcatggtctccatct	8	18	8	7	0	4	1	1	1	3	0	5	1	4	1	1	2	1	3	1	2	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:79932589C>T	uc004edt.2	-	41	5191	c.4928G>A	c.(4927-4929)AGC>AAC	p.S1643N	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.S1239N|BRWD3_uc004edp.2_Missense_Mutation_p.S1472N|BRWD3_uc004edq.2_Missense_Mutation_p.S1239N|BRWD3_uc010nmj.1_Missense_Mutation_p.S1239N|BRWD3_uc004edr.2_Missense_Mutation_p.S1313N|BRWD3_uc004eds.2_Missense_Mutation_p.S1239N|BRWD3_uc004edu.2_Missense_Mutation_p.S1313N|BRWD3_uc004edv.2_Missense_Mutation_p.S1239N|BRWD3_uc004edw.2_Missense_Mutation_p.S1239N|BRWD3_uc004edx.2_Missense_Mutation_p.S1239N|BRWD3_uc004edy.2_Missense_Mutation_p.S1239N|BRWD3_uc004edz.2_Missense_Mutation_p.S1313N|BRWD3_uc004eea.2_Missense_Mutation_p.S1313N|BRWD3_uc004eeb.2_Missense_Mutation_p.S1239N|uc004edn.1_5'Flank	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	1643										ovary(4)	4						TATGAATTTGCTATAATCATG	0.413													74	374					0	0	0.01441	0	0		T	79932589	T	T	79932589	3	4	20	1	0	0	0	0	1	0	0	0	1529	797	28	2	484	2	BRWD3	23	79932589	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2688389	79932589	75337971	1798	18520											
SATL1	340562	broad.mit.edu	37	chrX	84349197	84349197	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgccagtccatgagtcgtAtgtaaagtagtacatggcaa	12	11	10	8	1	0	1	0	1	0	0	2	1	1	1	2	1	2	5	2	1	6	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:84349197A>G	uc011mqx.1	-	4	1813	c.1813T>C	c.(1813-1815)TAC>CAC	p.Y605H	SATL1_uc004een.2_Missense_Mutation_p.Y605H	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	418	N-acetyltransferase.						N-acetyltransferase activity			breast(2)	2						CATGAGTCGTATGTAAAGTAG	0.383													5	113					0	0	0.001168	0	0		G	84349197	G	G	84349197	3	3	20	1	0	0	0	0	1	0	0	0	13880	449	16	3	93	3	SATL1	23	84349197	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	4416608	84349197	70921363	1799	18521											
SATL1	340562	broad.mit.edu	37	chrX	84363029	84363029	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtgcctggttgtttcaTgccaggttggtttatgtctg	4	17	12	8	0	2	0	1	0	1	0	2	0	2	0	3	3	2	4	3	3	1	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:84363029T>A	uc011mqx.1	-	1	946	c.946A>T	c.(946-948)ATG>TTG	p.M316L	SATL1_uc004een.2_Missense_Mutation_p.M316L	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	129	Gln-rich.						N-acetyltransferase activity			breast(2)	2						GGTTGTTTCATGCCAGGTTGG	0.488													5	89					0	0	0.001168	0	0		A	84363029	A	A	84363029	3	1	20	1	0	0	0	0	1	0	0	0	13880	1464	51	5	972	5	SATL1	23	84363029	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	13832	84363029	70907531	1800	18522											
ZNF711	7552	broad.mit.edu	37	chrX	84510747	84510747	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttctacagttactataaaaAccgaagatgatgatgatgat	16	12	8	5	1	1	5	0	4	1	1	1	6	1	5	1	0	3	2	1	0	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:84510747A>G	uc004eeo.2	+	4	909	c.562A>G	c.(562-564)ACC>GCC	p.T188A	ZNF711_uc004eep.2_Missense_Mutation_p.T188A|ZNF711_uc004eeq.2_Missense_Mutation_p.T188A	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	188					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						TACTATAAAAACCGAAGATGA	0.378													7	144					0	0	0.001984	0	0		G	84510747	G	G	84510747	3	3	20	1	0	0	0	0	1	0	0	0	18141	43	2	3	568	3	ZNF711	23	84510747	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	147718	84510747	70759813	1801	18523											
DRP2	1821	broad.mit.edu	37	chrX	100505457	100505457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagccagtgtgaccagcGccaccttggtgtcctgcttc	6	9	12	14	1	0	1	0	1	0	0	2	1	1	1	5	2	3	2	5	2	0	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:100505457G>A	uc004egz.2	+	15	1955	c.1586G>A	c.(1585-1587)CGC>CAC	p.R529H	DRP2_uc011mrh.1_Missense_Mutation_p.R451H	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	529					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						TGTGACCAGCGCCACCTTGGT	0.612													42	84					0	0	0.01441	0	0		A	100505457	A	A	100505457	3	1	20	1	0	0	0	0	1	0	0	0	4770	1087	38	1	1636	1	DRP2	23	100505457	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	15994710	100505457	54765103	1802	18524											
ESX1	80712	broad.mit.edu	37	chrX	103499192	103499192	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctgttccgtactcaggtTtggaccgtgtattctcctcg	4	16	9	12	3	3	0	1	0	2	0	6	1	4	1	3	2	1	4	3	2	2	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:103499192T>C	uc004ely.2	-	2	207	c.149A>G	c.(148-150)AAA>AGA	p.K50R		NM_153448	NP_703149	Q8N693	ESX1_HUMAN	extraembryonic, spermatogenesis, homeobox	50					negative regulation of transcription, DNA-dependent|regulation of cell cycle	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GTACTCAGGTTTGGACCGTGT	0.597													13	395					0	0	0.00499	0	0		C	103499192	C	C	103499192	3	2	20	1	0	0	0	0	1	0	0	0	5271	1841	64	3	1083	3	ESX1	23	103499192	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	2993735	103499192	51771368	1803	18525											
NRK	203447	broad.mit.edu	37	chrX	105142690	105142690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgatgaggacccaagaCgctcctatgattacagagtg	12	9	11	9	1	0	5	0	3	0	2	1	6	1	6	2	1	1	1	2	1	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:105142690C>T	uc004emd.2	+	8	997	c.694C>T	c.(694-696)CGC>TGC	p.R232C	NRK_uc010npc.1_Translation_Start_Site	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	232	Protein kinase.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						GGACCCAAGACGCTCCTATGA	0.393										HNSCC(51;0.14)			5	10					0	0	0.000602	0	0		T	105142690	T	T	105142690	3	4	20	1	0	0	0	0	1	0	0	0	10674	536	19	1	724	1	NRK	23	105142690	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	1643498	105142690	50127870	1804	18526											
IRS4	8471	broad.mit.edu	37	chrX	107976465	107976465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctgtttcagcatcatagCgaatggcactgtcagcaaga	12	9	10	10	1	3	1	3	0	0	1	3	3	3	1	1	1	3	4	1	1	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:107976465C>T	uc004eoc.2	-	1	3143	c.3110G>A	c.(3109-3111)CGC>CAC	p.R1037H		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	1037						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						AGCATCATAGCGAATGGCACT	0.473													33	108					0	0	0.013726	0	0		T	107976465	T	T	107976465	3	4	20	1	0	0	0	0	1	0	0	0	7858	768	27	1	667	1	IRS4	23	107976465	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	2833775	107976465	47294095	1805	18527											
IRS4	8471	broad.mit.edu	37	chrX	107977589	107977589	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgcattctttcgtggcTcctctgtcaacacaaaaata	10	15	5	11	1	4	0	1	0	3	0	6	0	5	0	1	1	2	2	1	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:107977589T>C	uc004eoc.2	-	1	2019	c.1986A>G	c.(1984-1986)GGA>GGG	p.G662G		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	662						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						CTTTCGTGGCTCCTCTGTCAA	0.517													13	713					0	0	0.003163	0	0		C	107977589	C	C	107977589	2	2	20	1	0	0	0	0	0	0	0	1	7858	1538	54	3		3	IRS4	23	107977589	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1124	107977589	47292971	1806	18528											
HTR2C	3358	broad.mit.edu	37	chrX	114141351	114141351	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctttgatgttactgcaCggccacaccgaggaaccgcc	10	7	10	14	3	0	1	0	1	0	0	0	3	0	2	4	2	4	3	4	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:114141351C>T	uc004epu.1	+	6	1478	c.750C>T	c.(748-750)CAC>CAT	p.H250H	HTR2C_uc010nqc.1_Silent_p.H250H|HTR2C_uc004epv.1_Missense_Mutation_p.R219W	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	250	Cytoplasmic (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	TGTTACTGCACGGCCACACCG	0.512													151	362					0	0	0.01441	0	0		T	114141351	T	T	114141351	2	4	20	1	0	0	0	0	0	0	0	1	7459	535	19	1		1	HTR2C	23	114141351	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6163762	114141351	41129209	1807	18529											
WDR44	54521	broad.mit.edu	37	chrX	117480540	117480540	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagggggcggctaccccgTggggtaagtgactgcagcta	7	7	16	11	2	0	1	0	1	0	0	0	1	0	1	3	5	3	4	3	5	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:117480540T>G	uc004eqn.2	+	1	499	c.74T>G	c.(73-75)GTG>GGG	p.V25G	WDR44_uc004eqo.2_Missense_Mutation_p.V25G|WDR44_uc011mtr.1_Missense_Mutation_p.V25G	NM_019045	NP_061918	Q5JSH3	WDR44_HUMAN	WD repeat domain 44 protein	25	Binding activity.					cytosol|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm				lung(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5						GGCTACCCCGTGGGGTAAGTG	0.627													15	55					0	0	0.00499	0	0		G	117480540	G	G	117480540	3	3	20	1	0	0	0	0	1	0	0	0	17322	1696	59	5	76	5	WDR44	23	117480540	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3339189	117480540	37790020	1808	18530											
DOCK11	139818	broad.mit.edu	37	chrX	117712549	117712549	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttgccagaattgaaaaggTactacagggaaacattacac	17	8	9	7	0	0	2	0	1	0	1	0	3	0	3	1	2	5	2	1	2	7	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:117712549T>C	uc004eqp.2	+	13	1514	c.1451T>C	c.(1450-1452)GTA>GCA	p.V484A	DOCK11_uc004eqq.2_Missense_Mutation_p.V250A	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	484					blood coagulation	cytosol	GTP binding			ovary(3)	3						ATTGAAAAGGTACTACAGGGA	0.348													5	127					0	0	0.001168	0	0		C	117712549	C	C	117712549	3	2	20	1	0	0	0	0	1	0	0	0	4692	1638	57	3	1501	3	DOCK11	23	117712549	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	232009	117712549	37558011	1809	18531											
IL13RA1	3597	broad.mit.edu	37	chrX	117895240	117895240	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacagccaaactgagacacaTaatgttttctacgtaaggtt	15	11	7	8	1	1	1	0	1	1	1	1	2	1	1	1	1	4	3	1	1	5	6			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:117895240T>C	uc004eqs.2	+	6	859	c.816T>C	c.(814-816)CAT>CAC	p.H272H	IL13RA1_uc004eqr.1_Silent_p.H272H|IL13RA1_uc004eqt.1_Silent_p.H272H	NM_001560	NP_001551	P78552	I13R1_HUMAN	interleukin 13 receptor, alpha 1 precursor	272	Extracellular (Potential).					interleukin-13 receptor complex	cytokine receptor activity				0						CTGAGACACATAATGTTTTCT	0.289													11	219					0	0	0.013537	0	0		C	117895240	C	C	117895240	2	2	20	1	0	0	0	0	0	0	0	1	7645	1403	49	3		3	IL13RA1	23	117895240	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	182691	117895240	37375320	1810	18532											
CXorf56	63932	broad.mit.edu	37	chrX	118676477	118676477	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacacttacagcctcaatCtcctcttcctcttcatcaat	10	13	3	15	0	6	1	3	0	3	1	8	2	7	1	3	0	2	0	3	0	3	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:118676477C>A	uc004erk.1	-	5	550	c.504G>T	c.(502-504)GAG>GAT	p.E168D	CXorf56_uc004erj.1_Missense_Mutation_p.E119D|CXorf56_uc011mtu.1_Missense_Mutation_p.E154D	NM_022101	NP_071384	Q9H5V9	CX056_HUMAN	hypothetical protein LOC63932	168							protein binding				0						CAGCCTCAATCTCCTCTTCCT	0.502													27	115					8.16721e-17	8.70371e-17	0.010818	1	0		A	118676477	A	A	118676477	3	1	20	1	0	0	0	0	1	0	0	0	4115	912	32	5	176	5	CXorf56	23	118676477	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	781237	118676477	36594083	1811	18533											
UBE2A	7319	broad.mit.edu	37	chrX	118717213	118717213	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaacaaagctggcgtgatTgttgaccccgggtacagttt	10	11	12	8	2	0	3	0	2	0	1	0	3	0	3	2	2	3	4	2	2	4	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:118717213T>C	uc004erl.2	+	6	630	c.454T>C	c.(454-456)TGT>CGT	p.C152R	UBE2A_uc004erm.2_Missense_Mutation_p.C122R|UBE2A_uc004ern.2_RNA|UBE2A_uc004ero.2_RNA|UBE2A_uc004erp.2_Missense_Mutation_p.C77R	NM_003336	NP_003327	P49459	UBE2A_HUMAN	ubiquitin-conjugating enzyme E2A isoform 1	152					histone H2A ubiquitination|positive regulation of cell proliferation|postreplication repair|protein autoubiquitination|protein K11-linked ubiquitination|protein K48-linked ubiquitination|response to UV|ubiquitin-dependent protein catabolic process		ATP binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity				0						CTGGCGTGATTGTTGACCCCG	0.413								Direct_reversal_of_damage|Rad6_pathway					5	220					0	0	0.001168	0	0		C	118717213	C	C	118717213	3	2	20	1	0	0	0	0	1	0	0	0	16870	1812	63	3	476	3	UBE2A	23	118717213	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	40736	118717213	36553347	1812	18534											
MCTS1	28985	broad.mit.edu	37	chrX	119742168	119742168	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcatgtgtccaggcttaacTtctcctggagctaagcttta	9	14	8	10	0	2	0	1	0	1	0	4	1	3	1	2	2	3	3	2	2	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:119742168T>G	uc004esx.2	+	4	699	c.351T>G	c.(349-351)ACT>ACG	p.T117T	MCTS1_uc011mub.1_Silent_p.T118T	NM_014060	NP_054779	Q9ULC4	MCTS1_HUMAN	malignant T cell amplified sequence 1 isoform 1	117	PUA.				cell cycle|positive regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm	RNA binding				0						CAGGCTTAACTTCTCCTGGAG	0.413													9	124					0	0	0.004482	0	0		G	119742168	G	G	119742168	2	3	20	1	0	0	0	0	0	0	0	1	9420	1596	56	5		5	MCTS1	23	119742168	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	1024955	119742168	35528392	1813	18535											
ODZ1	10178	broad.mit.edu	37	chrX	123517968	123517968	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taaaagaactgaaggtgctgCcctaggctggacttactcgc	11	9	11	10	1	0	2	0	1	0	1	1	3	0	3	1	3	4	2	1	3	6	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:123517968C>T	uc004euj.2	-	29	6856	c.6792G>A	c.(6790-6792)GGG>GGA	p.G2264G	ODZ1_uc011muj.1_Silent_p.G2270G|ODZ1_uc010nqy.2_Silent_p.G2271G	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2264	YD 21.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GAAGGTGCTGCCCTAGGCTGG	0.478													61	162					0	0	0.01441	0	0		T	123517968	T	T	123517968	2	4	20	1	0	0	0	0	0	0	0	1	10853	726	26	2		2	ODZ1	23	123517968	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3775800	123517968	31752592	1814	18536											
SMARCA1	6594	broad.mit.edu	37	chrX	128599865	128599865	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgatccttcgttgaattcTtgcttctccacgttcaattt	7	18	5	11	2	3	2	1	2	2	0	6	2	4	2	2	0	1	3	2	0	2	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:128599865T>C	uc004eun.3	-	22	2886	c.2773A>G	c.(2773-2775)AGA>GGA	p.R925G	SMARCA1_uc004eup.3_Missense_Mutation_p.R913G|SMARCA1_uc011muk.1_Missense_Mutation_p.R925G|SMARCA1_uc011mul.1_Missense_Mutation_p.R913G	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	925					ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						CGTTGAATTCTTGCTTCTCCA	0.333													58	156					0	0	0.01441	0	0		C	128599865	C	C	128599865	3	2	20	1	0	0	0	0	1	0	0	0	14793	1617	56	3	403	3	SMARCA1	23	128599865	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	5081897	128599865	26670695	1815	18537											
SMARCA1	6594	broad.mit.edu	37	chrX	128621096	128621096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctcccattttttgcaggcGttcattcatctctgcagtct	5	17	6	13	1	5	0	2	0	3	0	7	0	5	0	1	1	2	3	1	1	0	5	rs140388140		TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:128621096G>A	uc004eun.3	-	17	2229	c.2116C>T	c.(2116-2118)CGC>TGC	p.R706C	SMARCA1_uc004eup.3_Missense_Mutation_p.R694C|SMARCA1_uc011muk.1_Missense_Mutation_p.R706C|SMARCA1_uc011mul.1_Missense_Mutation_p.R694C	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	706					ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						TTTTGCAGGCGTTCATTCATC	0.318													21	63					0	0	0.010504	0	0		A	128621096	A	A	128621096	3	1	20	1	0	0	0	0	1	0	0	0	14793	1145	40	1	1080	1	SMARCA1	23	128621096	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	21231	128621096	26649464	1816	18538											
ZDHHC9	51114	broad.mit.edu	37	chrX	128948693	128948693	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtgaggagggagagagaaAggatgaagaggtagaagtag	16	6	19	0	0	0	6	0	2	0	4	0	10	0	8	0	4	0	2	0	4	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:128948693A>G	uc004euv.2	-	5	935	c.566T>C	c.(565-567)CTT>CCT	p.L189P	ZDHHC9_uc004euw.2_Missense_Mutation_p.L189P|ZDHHC9_uc004eux.1_Missense_Mutation_p.L189P|ZDHHC9_uc004euy.1_Missense_Mutation_p.L116P	NM_001008222	NP_001008223	Q9Y397	ZDHC9_HUMAN	zinc finger, DHHC domain containing 9	189	Helical; (Potential).|DHHC-type.					endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1						GGAGAGAGAAAGGATGAAGAG	0.532													4	229					0	0	0.009096	0	0		G	128948693	G	G	128948693	3	3	20	1	0	0	0	0	1	0	0	0	17647	72	3	3	552	3	ZDHHC9	23	128948693	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	327597	128948693	26321867	1817	18539											
ZDHHC9	51114	broad.mit.edu	37	chrX	128957767	128957767	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttatctggaaattcttgatAcgaggcggtggtcgctggcc	7	13	13	8	3	2	1	0	1	2	0	3	3	2	2	1	5	1	1	1	5	3	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:128957767A>G	uc004euv.2	-	4	744	c.375T>C	c.(373-375)CGT>CGC	p.R125R	ZDHHC9_uc004euw.2_Silent_p.R125R|ZDHHC9_uc004eux.1_Silent_p.R125R|ZDHHC9_uc004euy.1_Silent_p.R52R	NM_001008222	NP_001008223	Q9Y397	ZDHC9_HUMAN	zinc finger, DHHC domain containing 9	125	Cytoplasmic (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1						AATTCTTGATACGAGGCGGTG	0.488													6	298					0	0	0.00308	0	0		G	128957767	G	G	128957767	2	3	20	1	0	0	0	0	0	0	0	1	17647	378	14	3		3	ZDHHC9	23	128957767	Silent	SNP	A	TCGA-BR-4362-01A-01D-1158-08	9074	128957767	26312793	1818	18540											
BCORL1	63035	broad.mit.edu	37	chrX	129149510	129149510	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgaagaacaagtcaatcCtgtcctcttgaccctcagcc	11	11	6	13	0	3	3	2	2	1	1	5	3	5	3	4	0	2	0	4	0	5	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:129149510C>A	uc004evb.1	+	4	2876	c.2762C>A	c.(2761-2763)CCT>CAT	p.P921H	BCORL1_uc010nrd.1_Missense_Mutation_p.P823H	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	921					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						CAAGTCAATCCTGTCCTCTTG	0.552													31	69					8.16721e-17	8.70371e-17	0.010818	1	0		A	129149510	A	A	129149510	3	1	20	1	0	0	0	0	1	0	0	0	1388	681	24	5	2772	5	BCORL1	23	129149510	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	191743	129149510	26121050	1819	18541											
BCORL1	63035	broad.mit.edu	37	chrX	129162713	129162713	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagtccaggggatctcggaTtcaccaaacggtttcctccc	10	9	9	13	2	2	0	1	0	1	0	6	2	5	2	4	4	1	1	4	4	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:129162713T>C	uc004evb.1	+	8	4296	c.4182T>C	c.(4180-4182)GAT>GAC	p.D1394D	BCORL1_uc010nrd.1_Silent_p.D1166D|BCORL1_uc004evc.1_Silent_p.D156D	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1394					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GGATCTCGGATTCACCAAACG	0.502											OREG0019921	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	45	192					0	0	0.010771	0	0		C	129162713	C	C	129162713	2	2	20	1	0	0	0	0	0	0	0	1	1388	1490	52	3		3	BCORL1	23	129162713	Silent	SNP	T	TCGA-BR-4362-01A-01D-1158-08	13203	129162713	26107847	1820	18542											
IGSF1	3547	broad.mit.edu	37	chrX	130410036	130410036	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccagagtcctctgctccaAcagtgtggagaaggaagtca	11	8	11	11	0	2	2	1	0	1	2	5	4	5	3	3	2	2	1	3	2	3	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:130410036A>T	uc004ewd.2	-	15	3033	c.2795T>A	c.(2794-2796)GTT>GAT	p.V932D	IGSF1_uc004ewe.3_Missense_Mutation_p.V926D|IGSF1_uc004ewf.2_Missense_Mutation_p.V912D	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	932	Extracellular (Potential).|Ig-like C2-type 9.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						CTCTGCTCCAACAGTGTGGAG	0.512													25	72					0	0	0.00333	0	0		T	130410036	T	T	130410036	3	4	20	1	0	0	0	0	1	0	0	0	7612	43	2	5	1239	5	IGSF1	23	130410036	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	1247323	130410036	24860524	1821	18543											
FAM122C	159091	broad.mit.edu	37	chrX	133941656	133941656	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagaaaatgaaactaggtTtcaagtcgctgccgagttcc	13	9	11	8	2	1	2	1	1	0	1	3	4	2	2	2	2	2	3	2	2	5	3			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:133941656T>C	uc004exz.1	+	1	433	c.28T>C	c.(28-30)TTC>CTC	p.F10L	FAM122C_uc010nru.1_Missense_Mutation_p.F46L|FAM122C_uc004exw.2_Missense_Mutation_p.F10L|FAM122C_uc004exx.2_RNA|FAM122C_uc011mvq.1_RNA|FAM122C_uc004exy.1_Missense_Mutation_p.F10L	NM_138819	NP_620174	Q6P4D5	F222C_HUMAN	hypothetical protein LOC159091	10											0	Acute lymphoblastic leukemia(192;0.000127)					GAAACTAGGTTTCAAGTCGCT	0.517													22	238					0	0	0.00278	0	0		C	133941656	C	C	133941656	3	2	20	1	0	0	0	0	1	0	0	0	5432	1841	64	3	142	3	FAM122C	23	133941656	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	3531620	133941656	21328904	1822	18544											
CXorf48	54967	broad.mit.edu	37	chrX	134303672	134303672	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccacagaaacttgtgacaActccctgcacagttgtcaac	13	8	6	14	0	1	2	1	1	0	1	2	2	2	2	2	0	4	2	2	0	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:134303672A>G	uc004eyk.1	-	2	781	c.125T>C	c.(124-126)GTT>GCT	p.V42A	CXorf48_uc004eyl.1_Missense_Mutation_p.V42A	NM_001031705	NP_001026875	Q8WUE5	CX048_HUMAN	hypothetical protein LOC54967 isoform 1	42											0	Acute lymphoblastic leukemia(192;0.000127)					ACTTGTGACAACTCCCTGCAC	0.403													10	82					0	0	0.013537	0	0		G	134303672	G	G	134303672	3	3	20	1	0	0	0	0	1	0	0	0	4114	43	2	3	693	3	CXorf48	23	134303672	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	362016	134303672	20966888	1823	18545											
ZNF449	203523	broad.mit.edu	37	chrX	134494771	134494771	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgtcataattgtgggaaaAgttttagtcgactgacagct	12	13	11	5	1	1	1	1	1	0	0	2	4	1	2	0	1	1	2	0	1	4	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:134494771A>C	uc004eys.2	+	5	1492	c.1327A>C	c.(1327-1329)AGT>CGT	p.S443R	ZNF449_uc004eyt.2_Missense_Mutation_p.S323R|ZNF449_uc004eyu.2_Missense_Mutation_p.S249R	NM_152695	NP_689908	Q6P9G9	ZN449_HUMAN	zinc finger protein 449	443	C2H2-type 5.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TTGTGGGAAAAGTTTTAGTCG	0.368													95	171					0	0	0.01441	0	0		C	134494771	C	C	134494771	3	2	20	1	0	0	0	0	1	0	0	0	17945	72	3	5	1341	5	ZNF449	23	134494771	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	191099	134494771	20775789	1824	18546											
FHL1	2273	broad.mit.edu	37	chrX	135290680	135290680	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgattgctttgtgtgtgttAcctgctctaagaagctggct	6	15	11	9	1	1	1	0	0	1	1	1	2	1	1	2	1	4	5	2	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:135290680A>G	uc004ezo.2	+	5	668	c.568A>G	c.(568-570)ACC>GCC	p.T190A	FHL1_uc010nrz.2_Missense_Mutation_p.T190A|FHL1_uc004ezm.2_RNA|FHL1_uc004ezl.2_Missense_Mutation_p.T190A|FHL1_uc004ezq.2_Intron|FHL1_uc011mvy.1_Missense_Mutation_p.T190A|FHL1_uc011mvz.1_Missense_Mutation_p.T190A|FHL1_uc004ezn.2_Missense_Mutation_p.T190A|FHL1_uc011mwa.1_Missense_Mutation_p.T219A|FHL1_uc011mwb.1_RNA|FHL1_uc004ezp.2_Missense_Mutation_p.T206A|FHL1_uc004ezr.2_Silent_p.L8L	NM_001159702	NP_001153174	Q13642	FHL1_HUMAN	four and a half LIM domains 1 isoform 1	190	LIM zinc-binding 3.				cell differentiation|cell growth|muscle organ development|organ morphogenesis	cytosol|nucleus|plasma membrane	protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(192;0.000127)					TGTGTGTGTTACCTGCTCTAA	0.527													6	462					0	0	0.001984	0	0		G	135290680	G	G	135290680	3	3	20	1	0	0	0	0	1	0	0	0	5892	391	14	3	699	3	FHL1	23	135290680	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	795909	135290680	19979880	1825	18547											
MAP7D3	79649	broad.mit.edu	37	chrX	135313712	135313712	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgacaaacctttggagcGtctctcgcttttgccttggg	6	14	10	11	2	1	1	0	1	1	0	3	2	1	2	2	2	3	1	2	2	1	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:135313712G>A	uc004ezt.2	-	8	1495	c.1404C>T	c.(1402-1404)GAC>GAT	p.D468D	MAP7D3_uc004ezs.2_Silent_p.D432D|MAP7D3_uc011mwc.1_Silent_p.D450D|MAP7D3_uc010nsa.1_Silent_p.D426D	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	468						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					CCTTTGGAGCGTCTCTCGCTT	0.423													105	148					0	0	0.01441	0	0		A	135313712	A	A	135313712	2	1	20	1	0	0	0	0	0	0	0	1	9287	1136	40	1		1	MAP7D3	23	135313712	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	23032	135313712	19956848	1826	18548											
HTATSF1	27336	broad.mit.edu	37	chrX	135593401	135593402	+	Frame_Shift_Ins	INS	-	A	A																															gatctgaagaggatagtcctINSaaaaaagagtctaaaaagaa																										TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:135593401_135593402insA	uc004ezw.2	+	10	1919_1920	c.1497_1498insA	c.(1495-1500)CCTAAAfs	p.P499fs	HTATSF1_uc004ezx.2_Frame_Shift_Ins_p.P499fs	NM_001163280	NP_001156752	O43719	HTSF1_HUMAN	HIV-1 Tat specific factor 1	499_500	Asp/Glu-rich (acidic).|Mediates interaction with the P-TEFb complex.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|viral genome replication	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AGGATAGTCCTAAAAAAGAGTC	0.441													46	74	---	---	---	---						.	A	135593402	A	A	135593401	7	5	20	1	0	1	1	0	0	0	0	0	7449	1509	53	0	1531	0	HTATSF1	23	135593401	Frame_Shift_Ins	INS	-	TCGA-BR-4362-01A-01D-1158-08	279689	135593401	19677159	1827	18549											
VGLL1	51442	broad.mit.edu	37	chrX	135630774	135630774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtctccaaatcagtggCgttactcgtctccatggaca	9	11	9	12	2	3	0	1	0	2	0	6	1	3	1	2	2	1	2	2	2	2	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:135630774C>T	uc004ezy.2	+	3	411	c.241C>T	c.(241-243)CGT>TGT	p.R81C	MIR934_hsa-mir-934|MI0005756_5'Flank	NM_016267	NP_057351	Q99990	VGLL1_HUMAN	vestigial like 1	81					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	transcription coactivator activity				0	Acute lymphoblastic leukemia(192;0.000127)					AAATCAGTGGCGTTACTCGTC	0.423													8	390					0	0	0.00308	0	0		T	135630774	T	T	135630774	3	4	20	1	0	0	0	0	1	0	0	0	17184	768	27	1	247	1	VGLL1	23	135630774	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	37373	135630774	19639786	1828	18550											
MCF2	4168	broad.mit.edu	37	chrX	138698521	138698521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tataaagggtagagccatttCaagaaaattttcaatgtctt	15	14	7	5	0	3	2	2	0	1	2	3	2	3	2	1	1	1	1	1	1	8	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:138698521C>T	uc004fau.2	-	9	1405	c.1111G>A	c.(1111-1113)GAA>AAA	p.E371K	MCF2_uc004fav.2_Missense_Mutation_p.E371K|MCF2_uc011mwl.1_Missense_Mutation_p.E332K|MCF2_uc010nsh.1_Missense_Mutation_p.E371K|MCF2_uc011mwm.1_Missense_Mutation_p.E332K|MCF2_uc011mwn.1_Missense_Mutation_p.E516K|MCF2_uc004faw.2_Missense_Mutation_p.E431K|MCF2_uc011mwo.1_Missense_Mutation_p.E431K	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	371					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					AGAGCCATTTCAAGAAAATTT	0.338													13	91					0	0	0.003163	0	0		T	138698521	T	T	138698521	3	4	20	1	0	0	0	0	1	0	0	0	9396	835	29	4	1814	4	MCF2	23	138698521	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	3067747	138698521	16572039	1829	18551											
ATP11C	286410	broad.mit.edu	37	chrX	138865330	138865330	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtataggctcaccattgcaTtacgttccacatggacttta	11	13	7	10	1	1	0	1	0	0	0	2	1	2	1	2	2	2	4	2	2	4	7			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:138865330T>C	uc004faz.2	-	17	1871	c.1772A>G	c.(1771-1773)AAT>AGT	p.N591S	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Missense_Mutation_p.N591S	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	591	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					CACCATTGCATTACGTTCCAC	0.368													6	510					0	0	0.00308	0	0		C	138865330	C	C	138865330	3	2	20	1	0	0	0	0	1	0	0	0	1122	1493	52	3	1745	3	ATP11C	23	138865330	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	166809	138865330	16405230	1830	18552											
SLITRK2	84631	broad.mit.edu	37	chrX	144905424	144905424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgataatatatttggggggaCggccctaaccaggctgaatc	11	10	12	8	1	0	2	0	2	0	0	1	3	0	3	2	5	1	1	2	5	5	5			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:144905424C>T	uc004fcd.2	+	5	2471	c.1481C>T	c.(1480-1482)ACG>ATG	p.T494M	SLITRK2_uc010nsp.2_Missense_Mutation_p.T494M|SLITRK2_uc010nso.2_Missense_Mutation_p.T494M|SLITRK2_uc011mwq.1_Missense_Mutation_p.T494M|SLITRK2_uc011mwr.1_Missense_Mutation_p.T494M|SLITRK2_uc011mws.1_Missense_Mutation_p.T494M|SLITRK2_uc004fcg.2_Missense_Mutation_p.T494M|SLITRK2_uc011mwt.1_Missense_Mutation_p.T494M	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	494	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					TTTGGGGGGACGGCCCTAACC	0.463													62	245					0	0	0.01441	0	0		T	144905424	T	T	144905424	3	4	20	1	0	0	0	0	1	0	0	0	14768	536	19	1	1483	1	SLITRK2	23	144905424	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	6040094	144905424	10365136	1831	18553											
SLITRK2	84631	broad.mit.edu	37	chrX	144905693	144905693	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtccagacagcccaaacTtgtcagatggaaccgtcttg	10	10	9	12	1	3	2	1	0	2	2	4	3	4	3	3	1	3	0	3	1	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:144905693T>A	uc004fcd.2	+	5	2740	c.1750T>A	c.(1750-1752)TTG>ATG	p.L584M	SLITRK2_uc010nsp.2_Missense_Mutation_p.L584M|SLITRK2_uc010nso.2_Missense_Mutation_p.L584M|SLITRK2_uc011mwq.1_Missense_Mutation_p.L584M|SLITRK2_uc011mwr.1_Missense_Mutation_p.L584M|SLITRK2_uc011mws.1_Missense_Mutation_p.L584M|SLITRK2_uc004fcg.2_Missense_Mutation_p.L584M|SLITRK2_uc011mwt.1_Missense_Mutation_p.L584M	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	584	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					CAGCCCAAACTTGTCAGATGG	0.468													17	87					0	0	0.00499	0	0		A	144905693	A	A	144905693	3	1	20	1	0	0	0	0	1	0	0	0	14768	1606	56	5	1752	5	SLITRK2	23	144905693	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	269	144905693	10364867	1832	18554											
MAGEA8	4107	broad.mit.edu	37	chrX	149013371	149013371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacctggagtccctgttcCgggaagcacttgatgagaaa	10	9	11	11	1	1	2	1	2	0	1	3	5	3	4	3	2	1	2	3	2	2	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:149013371C>T	uc004fdw.1	+	3	540	c.325C>T	c.(325-327)CGG>TGG	p.R109W		NM_005364	NP_005355	P43361	MAGA8_HUMAN	melanoma antigen family A, 8	109											0	Acute lymphoblastic leukemia(192;6.56e-05)					GTCCCTGTTCCGGGAAGCACT	0.542													16	294					0	0	0.006122	0	0		T	149013371	T	T	149013371	3	4	20	1	0	0	0	0	1	0	0	0	9189	643	23	1	327	1	MAGEA8	23	149013371	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	4107678	149013371	6257189	1833	18555											
MTMR1	8776	broad.mit.edu	37	chrX	149931153	149931153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtctcatcctcatctgagcGgggctcctcgccctcccact	4	10	8	19	3	3	1	2	1	2	0	8	1	6	1	4	2	1	1	4	2	0	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:149931153G>A	uc004fei.2	+	15	2084	c.1949G>A	c.(1948-1950)CGG>CAG	p.R650Q	MTMR1_uc011mya.1_Missense_Mutation_p.R556Q|MTMR1_uc004feh.1_Missense_Mutation_p.R658Q|MTMR1_uc004fej.2_RNA|MTMR1_uc010ntf.2_Intron	NM_003828	NP_003819	Q13613	MTMR1_HUMAN	myotubularin-related protein 1	650						plasma membrane	protein tyrosine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TCATCTGAGCGGGGCTCCTCG	0.677													14	81					0	0	0.006122	0	0		A	149931153	A	A	149931153	3	1	20	1	0	0	0	0	1	0	0	0	9956	1116	39	1	2007	1	MTMR1	23	149931153	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	917782	149931153	5339407	1834	18556											
PASD1	139135	broad.mit.edu	37	chrX	150839574	150839574	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaactggaactgatgaagaAgttgaaggagcagctagaag	16	6	15	4	0	0	5	0	3	0	2	0	8	0	8	0	3	4	3	0	3	7	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:150839574A>C	uc004fev.3	+	12	1468	c.1136A>C	c.(1135-1137)AAG>ACG	p.K379T		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	379	Potential.					nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CTGATGAAGAAGTTGAAGGAG	0.448													165	215					0	0	0.01441	0	0		C	150839574	C	C	150839574	3	2	20	1	0	0	0	0	1	0	0	0	11490	72	3	5	1178	5	PASD1	23	150839574	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	908421	150839574	4430986	1835	18557											
MAGEA10	4109	broad.mit.edu	37	chrX	151304043	151304043	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtctcactttgggatTgaagatcttcttcaggcatg	7	15	10	9	0	4	2	2	1	3	1	5	3	4	3	1	2	0	1	1	2	1	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:151304043T>C	uc004ffk.2	-	5	458	c.50A>G	c.(49-51)CAA>CGA	p.Q17R	MAGEA10_uc004ffl.2_Missense_Mutation_p.Q17R	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	17											0	Acute lymphoblastic leukemia(192;6.56e-05)					ACTTTGGGATTGAAGATCTTC	0.532													8	148					0	0	0.004482	0	0		C	151304043	C	C	151304043	3	2	20	1	0	0	0	0	1	0	0	0	9182	1812	63	3	1063	3	MAGEA10	23	151304043	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	464469	151304043	3966517	1836	18558											
NSDHL	50814	broad.mit.edu	37	chrX	152031181	152031181	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtgtcatctttgagggCgtcgatatcaagaatggaac	11	10	12	8	2	3	2	2	1	1	1	4	4	3	3	1	2	1	0	1	2	4	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:152031181C>T	uc004fgt.1	+	6	717	c.456C>T	c.(454-456)GGC>GGT	p.G152G	NSDHL_uc004fgs.1_Silent_p.G152G	NM_001129765	NP_001123237	Q15738	NSDHL_HUMAN	NAD(P) dependent steroid dehydrogenase-like	152					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity|sterol-4-alpha-carboxylate 3-dehydrogenase (decarboxylating) activity				0	Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	TCTTTGAGGGCGTCGATATCA	0.413													51	192					0	0	0.01441	0	0		T	152031181	T	T	152031181	2	4	20	1	0	0	0	0	0	0	0	1	10689	755	27	1		1	NSDHL	23	152031181	Silent	SNP	C	TCGA-BR-4362-01A-01D-1158-08	727138	152031181	3239379	1837	18559											
ZNF275	10838	broad.mit.edu	37	chrX	152613218	152613218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagtgtggcaaggccttcCgtgggccctctgacctcatc	5	9	13	14	2	2	1	1	1	1	0	4	2	3	1	4	3	0	1	4	3	1	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:152613218C>T	uc004fhg.1	+	5	1154	c.977C>T	c.(976-978)CCG>CTG	p.P326L	ZNF275_uc011mym.1_Missense_Mutation_p.R359C|ZNF275_uc011myn.1_Missense_Mutation_p.R296C			A6NFS0	A6NFS0_HUMAN	SubName: Full=cDNA FLJ16723 fis, clone UTERU3004418, highly similar to Zinc finger protein 275; SubName: Full=Putative uncharacterized protein ZNF275;	326						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CAAGGCCTTCCGTGGGCCCTC	0.667													5	23					0	0	0.001168	0	0		T	152613218	T	T	152613218	3	4	20	1	0	0	0	0	1	0	0	0	17835	652	23	1	991	1	ZNF275	23	152613218	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	582037	152613218	2657342	1838	18560											
ATP2B3	492	broad.mit.edu	37	chrX	152813346	152813346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcagcccctgaagagcgcgGagggtggggagatggaggag	9	4	21	7	2	0	3	0	1	0	2	0	7	0	6	2	6	3	1	2	6	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:152813346G>A	uc004fht.1	+	7	1138	c.1012G>A	c.(1012-1014)GAG>AAG	p.E338K	ATP2B3_uc004fhs.1_Missense_Mutation_p.E338K	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	338	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GAAGAGCGCGGAGGGTGGGGA	0.587													4	148					0	0	0.009096	0	0		A	152813346	A	A	152813346	3	1	20	1	0	0	0	0	1	0	0	0	1142	1175	41	4	1038	4	ATP2B3	23	152813346	Missense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	200128	152813346	2457214	1839	18561											
SRPK3	26576	broad.mit.edu	37	chrX	153050913	153050913	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgctgcccatgatggagTacatccccgaaaagcgggcc	9	8	11	13	2	1	1	0	1	1	0	2	3	2	2	4	2	4	2	4	2	3	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:153050913T>C	uc004fil.2	+	15	1674	c.1642T>C	c.(1642-1644)TAC>CAC	p.Y548H	SRPK3_uc004fik.2_Missense_Mutation_p.Y614H|SRPK3_uc010nul.2_Missense_Mutation_p.Y472H|SRPK3_uc004fin.2_Missense_Mutation_p.Y547H|SRPK3_uc004fim.2_Missense_Mutation_p.Y514H	NM_014370	NP_055185	Q9UPE1	SRPK3_HUMAN	serine arginine rich protein-specific kinase 3	548	Protein kinase.				cell differentiation|muscle organ development|muscle tissue development		ATP binding|protein serine/threonine kinase activity			pancreas(2)|lung(1)	3	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CATGATGGAGTACATCCCCGA	0.617													38	222					0	0	0.010771	0	0		C	153050913	C	C	153050913	3	2	20	1	0	0	0	0	1	0	0	0	15186	1638	57	3	1700	3	SRPK3	23	153050913	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	237567	153050913	2219647	1840	18562											
ARHGAP4	393	broad.mit.edu	37	chrX	153184481	153184481	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctccggagcacctgccccagGgccaggtggaaccctgtgtc	6	6	13	16	1	0	0	0	0	0	0	2	2	1	2	6	4	3	1	6	4	1	0			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:153184481G>T	uc004fjk.1	-	7	879	c.837C>A	c.(835-837)GCC>GCA	p.A279A	ARHGAP4_uc011mzf.1_Silent_p.A256A|ARHGAP4_uc004fjl.1_Silent_p.A319A|ARHGAP4_uc010nup.1_RNA	NM_001666	NP_001657	P98171	RHG04_HUMAN	Rho GTPase activating protein 4 isoform 2	279					apoptosis|cytoskeleton organization|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|Rho protein signal transduction	cytosol|focal adhesion|nucleus	Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			central_nervous_system(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCTGCCCCAGGGCCAGGTGGA	0.662													21	87					7.45023e-12	7.85234e-12	0.010504	1	0		T	153184481	T	T	153184481	2	4	20	1	0	0	0	0	0	0	0	1	885	1219	43	5		5	ARHGAP4	23	153184481	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	133568	153184481	2086079	1841	18563											
ARHGAP4	393	broad.mit.edu	37	chrX	153184643	153184643	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacgtcatgcaggtagtagTtactgacagcagcgttgaca	12	9	12	8	2	1	3	1	2	0	1	1	3	1	3	0	1	4	6	0	1	3	4			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:153184643T>C	uc004fjk.1	-	6	818	c.776A>G	c.(775-777)AAC>AGC	p.N259S	ARHGAP4_uc011mzf.1_Missense_Mutation_p.N236S|ARHGAP4_uc004fjl.1_Missense_Mutation_p.N299S|ARHGAP4_uc010nup.1_RNA	NM_001666	NP_001657	P98171	RHG04_HUMAN	Rho GTPase activating protein 4 isoform 2	259					apoptosis|cytoskeleton organization|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|Rho protein signal transduction	cytosol|focal adhesion|nucleus	Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			central_nervous_system(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CAGGTAGTAGTTACTGACAGC	0.577													25	169					0	0	0.009535	0	0		C	153184643	C	C	153184643	3	2	20	1	0	0	0	0	1	0	0	0	885	1725	60	3	2132	3	ARHGAP4	23	153184643	Missense_Mutation	SNP	T	TCGA-BR-4362-01A-01D-1158-08	162	153184643	2085917	1842	18564											
HCFC1	3054	broad.mit.edu	37	chrX	153219884	153219884	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcccgtctcgtgggtctcGcatggcgggttggagcacac	4	9	16	12	4	2	0	0	0	2	0	4	1	2	1	1	4	2	3	1	4	0	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:153219884G>A	uc004fjp.2	-	17	4494	c.3966C>T	c.(3964-3966)TGC>TGT	p.C1322C		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1322	HCF repeat 6.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CGTGGGTCTCGCATGGCGGGT	0.687													129	180					0	0	0.01441	0	0		A	153219884	A	A	153219884	2	1	20	1	0	0	0	0	0	0	0	1	7007	1079	38	1		1	HCFC1	23	153219884	Silent	SNP	G	TCGA-BR-4362-01A-01D-1158-08	35241	153219884	2050676	1843	18565											
IRAK1	3654	broad.mit.edu	37	chrX	153278860	153278860	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacccccgccaccactgcctGcagcttctctagcctctcgt	5	9	6	21	2	2	0	0	0	2	0	4	0	2	0	6	0	4	2	6	0	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:153278860G>A	uc004fjs.1	-	12	1643	c.1564C>T	c.(1564-1566)CAG>TAG	p.Q522*	IRAK1_uc004fjr.1_Intron|IRAK1_uc004fjt.1_Nonsense_Mutation_p.Q443*|IRAK1_uc010nur.2_Intron	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	522					activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACCACTGCCTGCAGCTTCTCT	0.657													10	29					0	0	0.004007	0	0		A	153278860	A	A	153278860	4	1	20	1	0	0	0	0	0	1	0	0	7837	1328	46	2	586	2	IRAK1	23	153278860	Nonsense_Mutation	SNP	G	TCGA-BR-4362-01A-01D-1158-08	58976	153278860	1991700	1844	18566											
TKTL1	8277	broad.mit.edu	37	chrX	153524229	153524229	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaatggcggatgctgaggCgagggctgagttcccggagg	8	7	18	8	3	0	2	0	2	0	0	1	5	1	4	1	6	1	3	1	6	1	2			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:153524229C>T	uc004fkg.2	+	1	203	c.17C>T	c.(16-18)GCG>GTG	p.A6V	TEX28_uc004fke.2_5'Flank|TEX28_uc004fkf.2_5'Flank|TEX28_uc010nut.1_5'Flank|TKTL1_uc011mzl.1_Missense_Mutation_p.A6V|TKTL1_uc011mzm.1_Missense_Mutation_p.A6V	NM_012253	NP_036385	P51854	TKTL1_HUMAN	transketolase-like 1 isoform a	6					glucose catabolic process|thiamine metabolic process	cytoplasm|nucleus	metal ion binding|transketolase activity			ovary(3)|skin(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.82e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GATGCTGAGGCGAGGGCTGAG	0.612													30	108					0	0	0.009535	0	0		T	153524229	T	T	153524229	3	4	20	1	0	0	0	0	1	0	0	0	15960	768	27	1	19	1	TKTL1	23	153524229	Missense_Mutation	SNP	C	TCGA-BR-4362-01A-01D-1158-08	245369	153524229	1746331	1845	18567											
ATP6AP1	537	broad.mit.edu	37	chrX	153662013	153662013	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggtcctgagcacactcAagtccgaagatgtcccatac	11	7	10	13	1	1	2	1	1	0	1	4	3	4	2	3	2	2	2	3	2	3	1			TCGA-BR-4362-01A-01D-1158-08	TCGA-BR-4362-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c824bccc-3bd3-4e33-ad4b-37018dc74b4e	dc77607d-9541-41dd-a2cb-e9416278f52e	g.chrX:153662013A>G	uc004flf.1	+	6	692	c.631A>G	c.(631-633)AAG>GAG	p.K211E	ATP6AP1_uc004flg.1_RNA|ATP6AP1_uc004flh.1_Missense_Mutation_p.K171E	NM_001183	NP_001174	Q15904	VAS1_HUMAN	ATPase, H+ transporting, lysosomal accessory	211					ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain|vacuolar membrane	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(3)|breast(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GAGCACACTCAAGTCCGAAGA	0.607													54	87					0	0	0.01441	0	0		G	153662013	G	G	153662013	3	3	20	1	0	0	0	0	1	0	0	0	1166	131	5	3	653	3	ATP6AP1	23	153662013	Missense_Mutation	SNP	A	TCGA-BR-4362-01A-01D-1158-08	137784	153662013	1608547	1846	18568											
RERE	473	broad.mit.edu	37	chr1	8418972	8418972	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatgcgctgagctggacGccttctgcagaaggaaaaga	11	8	12	10	2	2	3	1	1	1	2	2	5	2	5	1	2	3	3	1	2	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:8418972G>A	uc001ape.2	-	21	4433	c.3623C>T	c.(3622-3624)GCG>GTG	p.A1208V	RERE_uc001apf.2_Missense_Mutation_p.A1208V|RERE_uc001apd.2_Missense_Mutation_p.A654V	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1208	Potential.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		TGAGCTGGACGCCTTCTGCAG	0.642													28	75					0	0	0.00632	0	0		A	8418972	A	A	8418972	3	1	21	1	0	0	0	0	1	0	0	0	13256	1087	38	1	1093	1	RERE	1	8418972	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08		8418972	240831649	1	18569											
SRM	6723	broad.mit.edu	37	chr1	11116784	11116784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtagccaatggccatgcctgGcaggaacttcttggagactt	9	10	12	10	0	1	1	0	0	1	1	1	3	1	2	3	4	3	2	3	4	3	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:11116784G>A	uc001arz.1	-	4	503	c.412C>T	c.(412-414)CCA>TCA	p.P138S	SRM_uc001ary.1_5'UTR	NM_003132	NP_003123	P19623	SPEE_HUMAN	spermidine synthase	138					spermidine biosynthetic process	cytosol	protein homodimerization activity|spermidine synthase activity				0	Ovarian(185;0.249)	Lung NSC(185;1.74e-05)|all_lung(284;2.05e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.228)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.14e-07)|COAD - Colon adenocarcinoma(227;7.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)|STAD - Stomach adenocarcinoma(313;0.192)	S-Adenosylmethionine(DB00118)|Spermine(DB00127)	GCCATGCCTGGCAGGAACTTC	0.572													23	47					0	0	0.013726	0	0		A	11116784	A	A	11116784	3	1	21	1	0	0	0	0	1	0	0	0	15176	1203	42	2	516	2	SRM	1	11116784	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2697812	11116784	238133837	2	18570											
NPPB	4879	broad.mit.edu	37	chr1	11918372	11918372	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcgtggtgcccgcagggtgTagaggaccattttgcggtgc	5	11	16	9	3	0	1	0	0	0	1	1	2	0	2	2	4	3	2	2	4	1	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:11918372T>C	uc001atj.2	-	2	389	c.287A>G	c.(286-288)TAC>TGC	p.Y96C		NM_002521	NP_002512	P16860	ANFB_HUMAN	natriuretic peptide precursor B preproprotein	96					body fluid secretion|cGMP biosynthetic process|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation	extracellular space	diuretic hormone activity			ovary(2)	2	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)	Carvedilol(DB01136)|Nesiritide(DB04899)|Testosterone(DB00624)	CCGCAGGGTGTAGAGGACCAT	0.647													10	36					0	0	0.016723	0	0		C	11918372	C	C	11918372	3	2	21	1	0	0	0	0	1	0	0	0	10611	1638	57	3	125	3	NPPB	1	11918372	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	801588	11918372	237332249	3	18571											
SPEN	23013	broad.mit.edu	37	chr1	16237752	16237753	+	Frame_Shift_Del	DEL	TT	-	-																															gactgcatcaaaaggaaaacTtttctttggcatgcagattg																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:16237752_16237753delTT	uc001axk.1	+	5	1403_1404	c.1199_1200delTT	c.(1198-1200)CTTfs	p.L400fs	SPEN_uc010obp.1_Frame_Shift_Del_p.L359fs	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	400	RRM 2.|By similarity.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AAAGGAAAACTTTTCTTTGGCA	0.431													29	58	---	---	---	---						.	-	16237753	-	-	16237752	7	5	21	1	0	1	0	1	0	0	0	0	15063	1609	56	0	1217	0	SPEN	1	16237752	Frame_Shift_Del	DEL	TT	TCGA-BR-4363-01A-01D-1158-08	4319380	16237752	233012869	4	18572											
KIAA0090	23065	broad.mit.edu	37	chr1	19577930	19577930	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaaacttgcccacttggTcttcgtagaccgcggccgca	9	9	9	14	4	2	1	1	0	1	1	3	1	2	1	3	2	2	2	3	2	3	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:19577930T>A	uc001bbo.2	-	1	117	c.74A>T	c.(73-75)GAC>GTC	p.D25V	KIAA0090_uc001bbp.2_Missense_Mutation_p.D25V|KIAA0090_uc001bbq.2_Missense_Mutation_p.D25V|KIAA0090_uc001bbr.2_Missense_Mutation_p.D25V|MRTO4_uc001bbs.2_5'Flank	NM_015047	NP_055862	Q8N766	K0090_HUMAN	hypothetical protein LOC23065 precursor	25	Extracellular (Potential).					integral to membrane	protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|Breast(348;0.00366)|all_lung(284;0.00519)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;3.84e-05)|Kidney(64;0.000191)|KIRC - Kidney renal clear cell carcinoma(64;0.00274)|GBM - Glioblastoma multiforme(114;0.005)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0656)		GCCCACTTGGTCTTCGTAGAC	0.562													14	39					0	0	0.020292	0	0		A	19577930	A	A	19577930	3	1	21	1	0	0	0	0	1	0	0	0	8169	1667	58	5	2999	5	KIAA0090	1	19577930	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	3340178	19577930	229672691	5	18573											
PINK1	65018	broad.mit.edu	37	chr1	20964564	20964564	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaccaggagaagggcaggAgcgagctccgggggcccctg	8	3	18	12	2	0	1	0	0	0	1	1	4	1	2	4	5	3	3	4	5	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:20964564A>C	uc001bdm.2	+	2	711	c.617A>C	c.(616-618)GAG>GCG	p.E206A		NM_032409	NP_115785	Q9BXM7	PINK1_HUMAN	PTEN induced putative kinase 1 precursor	206	Protein kinase.|Cytoplasmic (Potential).				cell death|intracellular protein kinase cascade|mitochondrion degradation|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of release of cytochrome c from mitochondria|regulation of protein complex assembly|regulation of protein ubiquitination|response to stress	cytosol|integral to membrane|mitochondrial outer membrane	ATP binding|C3HC4-type RING finger domain binding|calcium-dependent protein kinase activity|magnesium ion binding|protein serine/threonine kinase activity|ubiquitin protein ligase binding			ovary(2)|central_nervous_system(1)	3		all_lung(284;2.72e-05)|Lung NSC(340;2.94e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.21e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000146)|Kidney(64;0.000182)|GBM - Glioblastoma multiforme(114;0.000497)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GAAGGGCAGGAGCGAGCTCCG	0.577													20	46					0	0	0.010504	0	0		C	20964564	C	C	20964564	3	2	21	1	0	0	0	0	1	0	0	0	11951	304	11	5	623	5	PINK1	1	20964564	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	1386634	20964564	228286057	6	18574											
ECE1	1889	broad.mit.edu	37	chr1	21599193	21599193	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccatgctggatgcttaccGaggaggtgcttgatgattgc	7	12	13	9	1	0	2	0	2	0	0	1	5	1	4	2	3	5	3	2	3	1	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:21599193G>A	uc001bek.2	-	4	567	c.492C>T	c.(490-492)CTC>CTT	p.L164L	ECE1_uc001bem.2_Silent_p.L148L|ECE1_uc001bej.2_Silent_p.L152L|ECE1_uc001bei.2_Silent_p.L161L|ECE1_uc010odl.1_Silent_p.L164L|ECE1_uc009vqa.1_Silent_p.L164L	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	164	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		Lung NSC(340;1.14e-05)|all_lung(284;1.23e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00147)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0183)|OV - Ovarian serous cystadenocarcinoma(117;4.83e-27)|COAD - Colon adenocarcinoma(152;1.36e-06)|GBM - Glioblastoma multiforme(114;1.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000162)|STAD - Stomach adenocarcinoma(196;0.00326)|KIRC - Kidney renal clear cell carcinoma(1967;0.00755)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.206)		GATGCTTACCGAGGAGGTGCT	0.597													16	43					0	0	0.007413	0	0		A	21599193	A	A	21599193	2	1	21	1	0	0	0	0	0	0	0	1	4895	1072	37	1		1	ECE1	1	21599193	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	634629	21599193	227651428	7	18575											
LUZP1	7798	broad.mit.edu	37	chr1	23418659	23418660	+	Frame_Shift_Ins	INS	-	C	C																															aaatagggaggttctaggtgINScccctcgggttttagccttt																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:23418659_23418660insC	uc001bgk.2	-	4	2479_2480	c.2095_2096insG	c.(2095-2097)GCAfs	p.A699fs	LUZP1_uc010odv.1_Frame_Shift_Ins_p.A699fs|LUZP1_uc001bgl.2_Frame_Shift_Ins_p.A699fs|LUZP1_uc001bgm.1_Frame_Shift_Ins_p.A699fs	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	699						nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		GGTTCTAGGTGCCCCTCGGGTT	0.465													246	538	---	---	---	---						.	C	23418660	C	C	23418659	7	5	21	1	0	1	1	0	0	0	0	0	9104	1319	46	0	1142	0	LUZP1	1	23418659	Frame_Shift_Ins	INS	-	TCGA-BR-4363-01A-01D-1158-08	1819466	23418659	225831962	8	18576											
ARID1A	8289	broad.mit.edu	37	chr1	27101117	27101117	+	Frame_Shift_Del	DEL	C	-	-																															gccgagaccgtgtctctgcaCcccctggcaccaatgcccag																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:27101117delC	uc001bmv.1	+	18	4772	c.4399delC	c.(4399-4401)CCCfs	p.P1467fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.P1466fs|ARID1A_uc001bmu.1_Intron|ARID1A_uc001bmw.1_Frame_Shift_Del_p.P1084fs|ARID1A_uc001bmx.1_Frame_Shift_Del_p.P313fs|ARID1A_uc009vsm.1_Intron|ARID1A_uc009vsn.1_5'UTR	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1467					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TGTCTCTGCACCCCCTGGCAC	0.607			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								50	101	---	---	---	---						.	-	27101117	-	-	27101117	7	5	21	1	0	1	0	1	0	0	0	0	913	507	18	0	4469	0	ARID1A	1	27101117	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08	3682458	27101117	222149504	9	18577											
PTPRU	10076	broad.mit.edu	37	chr1	29581889	29581889	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaagtgcgaatccaccctgGcacccgggcacctgcggacc	8	4	12	17	3	0	0	0	0	0	0	1	2	1	1	5	3	2	3	5	3	2	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:29581889G>T	uc001bru.2	+	2	286	c.176G>T	c.(175-177)GGC>GTC	p.G59V	PTPRU_uc001brv.2_Missense_Mutation_p.G59V|PTPRU_uc001brw.2_Missense_Mutation_p.G59V|PTPRU_uc009vtq.2_Missense_Mutation_p.G59V|PTPRU_uc009vtr.2_Missense_Mutation_p.G59V	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	59	Extracellular (Potential).|MAM.				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		ATCCACCCTGGCACCCGGGCA	0.507													33	107					6.53348e-20	7.49743e-20	0.017118	1	0		T	29581889	T	T	29581889	3	4	21	1	0	0	0	0	1	0	0	0	12838	1203	42	5	182	5	PTPRU	1	29581889	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2480772	29581889	219668732	10	18578											
SDC3	9672	broad.mit.edu	37	chr1	31349751	31349752	+	Frame_Shift_Ins	INS	-	C	C																															cactgtggccacagtcgggtINScccctgtgcttgtggcagca																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:31349751_31349752insC	uc001bse.2	-	3	564_565	c.517_518insG	c.(517-519)GACfs	p.D173fs	SDC3_uc001bsd.2_Frame_Shift_Ins_p.D115fs	NM_014654	NP_055469	O75056	SDC3_HUMAN	syndecan 3	173	Extracellular (Potential).|Ser/Thr-rich (mucin-like).					integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)|Colorectal(325;0.0466)|all_neural(195;0.0966)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)		STAD - Stomach adenocarcinoma(196;0.0197)|READ - Rectum adenocarcinoma(331;0.0649)		CACAGTCGGGTCCCCTGTGCTT	0.644													18	37	---	---	---	---						.	C	31349752	C	C	31349751	7	5	21	1	0	1	1	0	0	0	0	0	13978	1667	58	0	822	0	SDC3	1	31349751	Frame_Shift_Ins	INS	-	TCGA-BR-4363-01A-01D-1158-08	1767862	31349751	217900870	11	18579											
RBBP4	5928	broad.mit.edu	37	chr1	33134451	33134451	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacttagtgcttcagatgAccatgtgtgtatccttccca	8	15	7	11	0	1	2	1	1	0	1	3	2	3	2	3	0	2	2	3	0	3	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:33134451A>G	uc001bvr.2	+	5	755	c.596A>G	c.(595-597)GAC>GGC	p.D199G	RBBP4_uc001bvs.2_Missense_Mutation_p.D198G|RBBP4_uc010ohj.1_5'UTR|RBBP4_uc010ohk.1_Missense_Mutation_p.D164G	NM_005610	NP_005601	Q09028	RBBP4_HUMAN	retinoblastoma binding protein 4 isoform a	199	WD 2.				cell cycle|CenH3-containing nucleosome assembly at centromere|DNA replication|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|ESC/E(Z) complex|NuRD complex|NURF complex|Sin3 complex	histone binding|histone deacetylase binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				GCTTCAGATGACCATGTGTGT	0.463													27	63					0	0	0.008361	0	0		G	33134451	G	G	33134451	3	3	21	1	0	0	0	0	1	0	0	0	13126	275	10	3	614	3	RBBP4	1	33134451	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	1784700	33134451	216116170	12	18580											
EPHA10	284656	broad.mit.edu	37	chr1	38227120	38227120	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaatcccgcgctgcagctGcagcggcccacaggcaccag	8	4	13	16	3	0	0	0	0	0	0	1	1	1	1	3	3	4	5	3	3	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:38227120G>A	uc009vvi.2	-	3	893	c.807C>T	c.(805-807)TGC>TGT	p.C269C	EPHA10_uc001cbw.3_Silent_p.C269C	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	269	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CGCTGCAGCTGCAGCGGCCCA	0.687													15	33					0	0	0.004007	0	0		A	38227120	A	A	38227120	2	1	21	1	0	0	0	0	0	0	0	1	5174	1311	46	2		2	EPHA10	1	38227120	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	5092669	38227120	211023501	13	18581											
RLF	6018	broad.mit.edu	37	chr1	40705156	40705156	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgttgtttgcgttaagtaCggtaccaaaattaaggagga	12	13	11	5	2	0	0	0	0	0	0	0	2	0	2	1	3	3	5	1	3	6	7	rs145611435	byFrequency	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:40705156C>T	uc001cfc.3	+	8	4813	c.4782C>T	c.(4780-4782)TAC>TAT	p.Y1594Y	RLF_uc001cfd.3_Silent_p.Y1285Y	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	1594					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			GCGTTAAGTACGGTACCAAAA	0.428													25	73					0	0	0.016522	0	0		T	40705156	T	T	40705156	2	4	21	1	0	0	0	0	0	0	0	1	13414	547	19	1		1	RLF	1	40705156	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2478036	40705156	208545465	14	18582											
SLFNL1	200172	broad.mit.edu	37	chr1	41483496	41483496	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctactcccacgagcaggctGccgccctcgctgttgaggaa	7	8	11	15	3	1	1	0	1	1	0	3	3	2	2	3	2	3	4	3	2	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:41483496G>A	uc001cgm.1	-	3	988	c.768C>T	c.(766-768)GGC>GGT	p.G256G	SLFNL1_uc009vwf.1_Silent_p.G256G|SLFNL1_uc001cgn.1_Silent_p.G197G|SLFNL1_uc009vwg.1_Silent_p.G256G	NM_144990	NP_659427	Q499Z3	SLNL1_HUMAN	schlafen-like 1	256							ATP binding			skin(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0393)				CGAGCAGGCTGCCGCCCTCGC	0.667													17	48					0	0	0.008871	0	0		A	41483496	A	A	41483496	2	1	21	1	0	0	0	0	0	0	0	1	14763	1306	46	2		2	SLFNL1	1	41483496	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	778340	41483496	207767125	15	18583											
TIE1	7075	broad.mit.edu	37	chr1	43772883	43772883	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcctacatggaggtgtctgCcacgaccatgacggcgaatg	9	8	13	11	3	1	1	0	1	1	0	1	4	1	2	3	3	3	0	3	3	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:43772883C>T	uc001ciu.2	+	5	790	c.711C>T	c.(709-711)TGC>TGT	p.C237C	TIE1_uc010okd.1_Silent_p.C237C|TIE1_uc010oke.1_Silent_p.C192C|TIE1_uc009vwq.2_Intron|TIE1_uc010okf.1_5'UTR|TIE1_uc010okg.1_5'UTR|TIE1_uc010okc.1_Silent_p.C237C	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	237	Extracellular (Potential).|EGF-like 1.				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GAGGTGTCTGCCACGACCATG	0.632													40	25					0	0	0.00623	0	0		T	43772883	T	T	43772883	2	4	21	1	0	0	0	0	0	0	0	1	15918	747	26	2		2	TIE1	1	43772883	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2289387	43772883	205477738	16	18584											
DMRTB1	63948	broad.mit.edu	37	chr1	53927224	53927224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatgcacccctactgccCgttcccgctgggctacctgg	5	8	10	18	2	0	0	0	0	0	0	1	0	1	0	5	2	5	5	5	2	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:53927224C>T	uc001cvq.1	+	2	711	c.656C>T	c.(655-657)CCG>CTG	p.P219L		NM_033067	NP_149056	Q96MA1	DMRTB_HUMAN	DMRT-like family B with proline-rich C-terminal,	219	Pro-rich.				sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						CCCTACTGCCCGTTCCCGCTG	0.657													53	127					0	0	0.01441	0	0		T	53927224	T	T	53927224	3	4	21	1	0	0	0	0	1	0	0	0	4596	652	23	1	662	1	DMRTB1	1	53927224	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	10154341	53927224	195323397	17	18585											
BRDT	676	broad.mit.edu	37	chr1	92428391	92428391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatactaagaaaaatgggcGattgacaaatcaacttcagt	19	9	7	6	1	2	2	2	1	0	1	2	3	2	2	0	1	2	0	0	1	7	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:92428391G>A	uc001dok.3	+	2	429	c.80G>A	c.(79-81)CGA>CAA	p.R27Q	BRDT_uc001dol.3_Missense_Mutation_p.R27Q|BRDT_uc010osz.1_Missense_Mutation_p.R27Q|BRDT_uc009wdf.2_Intron|BRDT_uc010ota.1_Missense_Mutation_p.R27Q|BRDT_uc010otb.1_Missense_Mutation_p.R27Q|BRDT_uc001dom.3_Missense_Mutation_p.R27Q	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	27					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		AAAAATGGGCGATTGACAAAT	0.378													14	194					0	0	0.003163	0	0		A	92428391	A	A	92428391	3	1	21	1	0	0	0	0	1	0	0	0	1511	1058	37	1	82	1	BRDT	1	92428391	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	38501167	92428391	156822230	18	18586											
ABCA4	24	broad.mit.edu	37	chr1	94502716	94502716	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacctcttccaggggagtGtcagaaattccaaaactgct	11	12	8	10	0	2	1	1	0	1	1	4	2	4	2	3	2	3	1	3	2	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:94502716G>A	uc001dqh.2	-	25	3902	c.3798C>T	c.(3796-3798)GAC>GAT	p.D1266D		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1266	Cytoplasmic.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CCAGGGGAGTGTCAGAAATTC	0.453													45	101					0	0	0.01441	0	0		A	94502716	A	A	94502716	2	1	21	1	0	0	0	0	0	0	0	1	34	1368	48	4		4	ABCA4	1	94502716	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2074325	94502716	154747905	19	18587											
GPR61	83873	broad.mit.edu	37	chr1	110085827	110085827	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctgtggctggcaatgcCgctgtgatggccgtgatcgc	5	10	15	11	3	0	2	0	2	0	0	1	2	0	2	2	3	2	4	2	3	1	0	rs138020817	byFrequency	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:110085827C>T	uc001dxy.2	+	2	866	c.183C>T	c.(181-183)GCC>GCT	p.A61A		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	61	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		CTGGCAATGCCGCTGTGATGG	0.612													45	81					0	0	0.01441	0	0		T	110085827	T	T	110085827	2	4	21	1	0	0	0	0	0	0	0	1	6717	639	23	1		1	GPR61	1	110085827	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	15583111	110085827	139164794	20	18588											
SLC16A4	9122	broad.mit.edu	37	chr1	110921593	110921593	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaggagaaaagaccaagtAaatatgtagaagaaaggatt	20	7	11	3	0	0	5	0	1	0	4	0	7	0	6	1	2	0	2	1	2	9	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:110921593A>G	uc001dzo.1	-	6	1094	c.912T>C	c.(910-912)TTT>TTC	p.F304F	SLC16A4_uc009wfs.1_Silent_p.F256F|SLC16A4_uc001dzp.1_Intron|SLC16A4_uc010ovy.1_Silent_p.F242F|SLC16A4_uc001dzq.1_Intron|SLC16A4_uc010ovz.1_Silent_p.F194F	NM_004696	NP_004687	O15374	MOT5_HUMAN	solute carrier family 16, member 4	304	Helical; (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			ovary(3)	3		all_cancers(81;0.000476)|all_epithelial(167;0.000401)|all_lung(203;0.00277)|Lung NSC(277;0.0043)		Lung(183;0.0251)|all cancers(265;0.0766)|Epithelial(280;0.0807)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.14)	Pyruvic acid(DB00119)	AAGACCAAGTAAATATGTAGA	0.393													30	107					0	0	0.007291	0	0		G	110921593	G	G	110921593	2	3	21	1	0	0	0	0	0	0	0	1	14435	359	13	3		3	SLC16A4	1	110921593	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	835766	110921593	138329028	21	18589											
HIPK1	204851	broad.mit.edu	37	chr1	114483597	114483597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcttggagttcctaggcCgggggacatttggacaggtg	8	10	16	7	1	1	0	0	0	1	0	2	3	2	3	2	6	0	1	2	6	2	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:114483597C>T	uc001eem.2	+	2	753	c.592C>T	c.(592-594)CGG>TGG	p.R198W	HIPK1_uc001eel.2_Missense_Mutation_p.R198W|HIPK1_uc001een.2_Missense_Mutation_p.R198W	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	198	Protein kinase.|ATP (Probable).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTTCCTAGGCCGGGGGACATT	0.498													23	77					0	0	0.014323	0	0		T	114483597	T	T	114483597	3	4	21	1	0	0	0	0	1	0	0	0	7132	643	23	1	594	1	HIPK1	1	114483597	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3562004	114483597	134767024	22	18590											
ATP1A1	476	broad.mit.edu	37	chr1	116931263	116931263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttcttttccaaagcaaGcccttgtgattcgaaatggt	9	16	8	8	1	1	1	0	1	1	0	3	2	2	1	2	1	2	2	2	1	3	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:116931263G>A	uc001ege.2	+	6	844	c.505G>A	c.(505-507)GCC>ACC	p.A169T	ATP1A1_uc010owv.1_Missense_Mutation_p.A138T|ATP1A1_uc010oww.1_Missense_Mutation_p.A169T|ATP1A1_uc010owx.1_Missense_Mutation_p.A138T	NM_000701	NP_000692	P05023	AT1A1_HUMAN	Na+/K+ -ATPase alpha 1 subunit isoform a	169	Cytoplasmic (Potential).				ATP biosynthetic process	melanosome|sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Captopril(DB01197)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Esomeprazole(DB00736)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Ouabain(DB01092)|Pantoprazole(DB00213)|Trichlormethiazide(DB01021)	TCCAAAGCAAGCCCTTGTGAT	0.393													13	108					0	0	0.004007	0	0		A	116931263	A	A	116931263	3	1	21	1	0	0	0	0	1	0	0	0	1129	971	34	2	543	2	ATP1A1	1	116931263	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2447666	116931263	132319358	23	18591											
TTF2	8458	broad.mit.edu	37	chr1	117632754	117632754	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctcaaagaaaggaggagAacggttaagtattttaacca	16	9	11	5	1	1	2	1	0	0	2	1	4	1	3	1	4	2	3	1	4	6	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:117632754A>G	uc001egy.2	+	14	2440	c.2420A>G	c.(2419-2421)GAA>GGA	p.E807G		NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	807					mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		AAAGGAGGAGAACGGTTAAGT	0.448													77	168					0	0	0.01441	0	0		G	117632754	G	G	117632754	3	3	21	1	0	0	0	0	1	0	0	0	16745	246	9	3	2474	3	TTF2	1	117632754	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	701491	117632754	131617867	24	18592											
PDE4DIP	9659	broad.mit.edu	37	chr1	144881535	144881535	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcgttgtttgcattgtgAcagctgggagcgcaggtgct	7	12	15	7	2	0	1	0	1	0	0	0	2	0	2	0	2	5	6	0	2	1	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:144881535A>G	uc001elw.3	-	25	3952	c.3661T>C	c.(3661-3663)TCA>CCA	p.S1221P	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.S1177P|PDE4DIP_uc001elv.3_Missense_Mutation_p.S228P	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1221	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TTGCATTGTGACAGCTGGGAG	0.542			T	PDGFRB	MPD								48	212					0	0	0.01441	0	0		G	144881535	G	G	144881535	3	3	21	1	0	0	0	0	1	0	0	0	11662	275	10	3	3459	3	PDE4DIP	1	144881535	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	27248781	144881535	104369086	25	18593											
PDE4DIP	9659	broad.mit.edu	37	chr1	144915576	144915576	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcgctgtagacgctggcAcagctcctctgctatctcac	6	12	8	15	2	2	1	1	0	2	1	5	1	3	1	1	1	2	6	1	1	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:144915576A>G	uc001elw.3	-	14	2140	c.1849T>C	c.(1849-1851)TGC>CGC	p.C617R	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.C683R|PDE4DIP_uc001emc.1_Missense_Mutation_p.C617R|PDE4DIP_uc001emd.1_Missense_Mutation_p.C617R|PDE4DIP_uc001emb.1_Missense_Mutation_p.C780R|PDE4DIP_uc001eme.1_Missense_Mutation_p.C146R|PDE4DIP_uc001emf.1_Missense_Mutation_p.C402R	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	617	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		AGACGCTGGCACAGCTCCTCT	0.478			T	PDGFRB	MPD								37	174					0	0	0.006999	0	0		G	144915576	G	G	144915576	3	3	21	1	0	0	0	0	1	0	0	0	11662	159	6	3	5325	3	PDE4DIP	1	144915576	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	34041	144915576	104335045	26	18594											
PI4KB	5298	broad.mit.edu	37	chr1	151288916	151288916	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggccagaagtgggctcagaAgttggcttcaagggggcagg	9	6	19	7	0	2	2	2	0	0	2	2	2	2	2	1	6	0	4	1	6	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:151288916A>C	uc001ext.2	-	2	457	c.42T>G	c.(40-42)ACT>ACG	p.T14T	PI4KB_uc001exr.2_Silent_p.T26T|PI4KB_uc001exs.2_Silent_p.T14T|PI4KB_uc001exu.2_Silent_p.T14T|PI4KB_uc010pcw.1_Intron|PI4KB_uc009wmq.1_Silent_p.T26T	NM_002651	NP_002642	Q9UBF8	PI4KB_HUMAN	catalytic phosphatidylinositol 4-kinase beta	14					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|receptor-mediated endocytosis	endosome|Golgi apparatus|mitochondrial outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum membrane	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			ovary(2)|skin(2)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TGGGCTCAGAAGTTGGCTTCA	0.567													16	56					0	0	0.008871	0	0		C	151288916	C	C	151288916	2	2	21	1	0	0	0	0	0	0	0	1	11893	59	3	5		5	PI4KB	1	151288916	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	6373340	151288916	97961705	27	18595											
TDRKH	11022	broad.mit.edu	37	chr1	151747603	151747603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcttcaggaagctcaattgCgtatcctttgtgtactaatt	9	16	8	8	1	3	0	2	0	1	0	4	1	4	1	1	1	3	3	1	1	5	7			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:151747603C>T	uc009wnb.1	-	11	1656	c.1474G>A	c.(1474-1476)GCA>ACA	p.A492T	TDRKH_uc001eyy.2_Missense_Mutation_p.A268T|TDRKH_uc001ezb.3_Missense_Mutation_p.A488T|TDRKH_uc001ezc.3_Missense_Mutation_p.A447T|TDRKH_uc001eza.3_Missense_Mutation_p.A492T|TDRKH_uc001ezd.3_Missense_Mutation_p.A492T|TDRKH_uc010pdn.1_Missense_Mutation_p.A268T	NM_006862	NP_006853	Q9Y2W6	TDRKH_HUMAN	tudor and KH domain containing isoform a	492							RNA binding			ovary(1)|pancreas(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			AGCTCAATTGCGTATCCTTTG	0.408													26	99					0	0	0.004656	0	0		T	151747603	T	T	151747603	3	4	21	1	0	0	0	0	1	0	0	0	15762	768	27	1	223	1	TDRKH	1	151747603	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	458687	151747603	97503018	28	18596											
S100A8	6279	broad.mit.edu	37	chr1	153362988	153362988	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgtcgatgatagagttcaaGgctttctccagctcggtcaa	10	11	10	10	3	3	2	2	1	1	1	6	3	3	2	1	2	1	3	1	2	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:153362988G>T	uc001fbs.2	-	2	79	c.24C>A	c.(22-24)GCC>GCA	p.A8A		NM_002964	NP_002955	P05109	S10A8_HUMAN	S100 calcium-binding protein A8	8					chemotaxis	cytoplasm|cytoskeleton|plasma membrane	calcium ion binding|protein binding				0	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			TAGAGTTCAAGGCTTTCTCCA	0.507													76	188					1.39159e-27	1.62082e-27	0.01441	1	0		T	153362988	T	T	153362988	2	4	21	1	0	0	0	0	0	0	0	1	13811	987	35	5		5	S100A8	1	153362988	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1615385	153362988	95887633	29	18597											
ILF2	3608	broad.mit.edu	37	chr1	153634950	153634952	+	In_Frame_Del	DEL	CTT	-	-																															tcctcttcttcctctccttcCttcttctctggtggcttctc																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:153634950_153634952delCTT	uc001fcr.2	-	14	1174_1176	c.1093_1095delAAG	c.(1093-1095)AAGdel	p.K365del	ILF2_uc010pdy.1_In_Frame_Del_p.K327del|ILF2_uc009wok.2_In_Frame_Del_p.K343del	NM_004515	NP_004506	Q12905	ILF2_HUMAN	interleukin enhancer binding factor 2	365					immune response|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|ribonucleoprotein complex	ATP binding|DNA binding|double-stranded RNA binding|protein binding|transferase activity				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			cctctccttccttcttctCTGGT	0.296													35	69	---	---	---	---						.	-	153634952	-	-	153634950	7	5	21	1	0	1	0	1	0	0	0	0	7727	680	24	0	81	0	ILF2	1	153634950	In_Frame_Del	DEL	CTT	TCGA-BR-4363-01A-01D-1158-08	271962	153634950	95615671	30	18598											
CHRNB2	1141	broad.mit.edu	37	chr1	154543725	154543725	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtctcctatgatggcagCatcttctggctgccgcctgc	4	12	12	13	1	3	1	0	1	3	0	4	1	3	1	3	3	3	3	3	3	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:154543725C>T	uc001ffg.2	+	5	690	c.426C>T	c.(424-426)AGC>AGT	p.S142S		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	142	Extracellular (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	ATGATGGCAGCATCTTCTGGC	0.532													53	83					0	0	0.01441	0	0		T	154543725	T	T	154543725	2	4	21	1	0	0	0	0	0	0	0	1	3394	709	25	2		2	CHRNB2	1	154543725	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	908775	154543725	94706896	31	18599											
ASH1L	55870	broad.mit.edu	37	chr1	155450332	155450332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcaactttggcaatcggcGtttaaggaagtcatgatcta	11	12	10	8	2	3	1	2	1	1	0	4	2	3	2	0	3	1	3	0	3	5	4	rs150671158	by1000genomes	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:155450332G>A	uc009wqq.2	-	3	2809	c.2329C>T	c.(2329-2331)CGC>TGC	p.R777C	ASH1L_uc001fkt.2_Missense_Mutation_p.R777C|ASH1L_uc009wqr.1_Missense_Mutation_p.R777C	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	777					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			GGCAATCGGCGTTTAAGGAAG	0.393													107	248					0	0	0.01441	0	0		A	155450332	A	A	155450332	3	1	21	1	0	0	0	0	1	0	0	0	1042	1145	40	1	6669	1	ASH1L	1	155450332	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	906607	155450332	93800289	32	18600											
IFI16	3428	broad.mit.edu	37	chr1	158988127	158988127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagccatttgaatatgagAccccagaaatggagaaaaaa	20	6	8	7	0	0	4	0	2	0	3	0	6	0	4	3	1	1	0	3	1	7	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:158988127A>G	uc001ftf.1	+	6	1265	c.658A>G	c.(658-660)ACC>GCC	p.T220A	IFI16_uc001ftg.2_Missense_Mutation_p.T220A|IFI16_uc010pis.1_Missense_Mutation_p.T164A	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	220	HIN-200 1.				cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					TGAATATGAGACCCCAGAAAT	0.403													24	53					0	0	0.014323	0	0		G	158988127	G	G	158988127	3	3	21	1	0	0	0	0	1	0	0	0	7527	275	10	3	672	3	IFI16	1	158988127	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	3537795	158988127	90262494	33	18601											
CCDC19	25790	broad.mit.edu	37	chr1	159846359	159846359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctaccgaagaatcctctCgaactcatcccggtcccgtt	8	10	6	17	4	2	1	1	0	1	1	7	3	6	1	5	1	2	1	5	1	4	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:159846359C>T	uc001fui.2	-	10	1357	c.1339G>A	c.(1339-1341)GAG>AAG	p.E447K	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.E362K|CCDC19_uc001ful.2_Missense_Mutation_p.E362K|CCDC19_uc009wtc.1_3'UTR	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	447	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			AGAATCCTCTCGAACTCATCC	0.537													8	24					0	0	0.00308	0	0		T	159846359	T	T	159846359	3	4	21	1	0	0	0	0	1	0	0	0	2798	893	31	1	328	1	CCDC19	1	159846359	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	858232	159846359	89404262	34	18602											
NR1I3	9970	broad.mit.edu	37	chr1	161201029	161201029	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctacctggaaccccactgtgGgagatactaggattaggagc	11	8	12	10	0	0	1	0	0	0	1	0	5	0	4	3	4	4	0	3	4	5	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:161201029G>T	uc001fzx.2	-	7	904	c.701C>A	c.(700-702)CCC>CAC	p.P234H	TOMM40L_uc009wuf.1_Intron|NR1I3_uc001fzf.2_Intron|NR1I3_uc001fzg.2_Intron|NR1I3_uc001fzh.2_Intron|NR1I3_uc001fzi.2_Intron|NR1I3_uc001fzj.2_Intron|NR1I3_uc001fzk.2_Intron|NR1I3_uc001fzl.2_Intron|NR1I3_uc001fzm.2_Intron|NR1I3_uc001fzn.2_Intron|NR1I3_uc009wug.2_Intron|NR1I3_uc001fzp.2_Missense_Mutation_p.P234H|NR1I3_uc001fzo.2_Intron|NR1I3_uc001fzq.2_Intron|NR1I3_uc001fzr.2_Intron|NR1I3_uc001fzs.2_Intron|NR1I3_uc001fzt.2_Intron|NR1I3_uc001fzu.2_Intron|NR1I3_uc001fzv.2_Intron|NR1I3_uc001fzw.2_Missense_Mutation_p.P234H|NR1I3_uc001fzy.2_Intron|NR1I3_uc001fzz.2_Intron|NR1I3_uc001gaa.2_Intron|NR1I3_uc001gab.2_Intron|NR1I3_uc001gac.2_Missense_Mutation_p.P205H|NR1I3_uc010pkm.1_Intron|NR1I3_uc010pkn.1_3'UTR	NM_001077480	NP_001070948	Q14994	NR1I3_HUMAN	constitutive androstane receptor isoform 2	234					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	androgen receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(1)|skin(1)	2	all_cancers(52;1.86e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			CCCCACTGTGGGAGATACTAG	0.517													22	48					1.87028e-06	2.05525e-06	0.012319	1	0		T	161201029	T	T	161201029	3	4	21	1	0	0	0	0	1	0	0	0	10640	1232	43	5	479	5	NR1I3	1	161201029	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1354670	161201029	88049592	35	18603											
ALDH9A1	223	broad.mit.edu	37	chr1	165638534	165638534	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgacaaacccaaggactcGctccaggtgtggtcggttga	9	10	12	10	2	0	2	0	2	0	0	3	3	1	3	2	4	1	2	2	4	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:165638534G>A	uc001gdh.1	-	7	1189	c.1084C>T	c.(1084-1086)CGA>TGA	p.R362*	ALDH9A1_uc010pky.1_Nonsense_Mutation_p.R268*|ALDH9A1_uc010pkz.1_Nonsense_Mutation_p.R352*|ALDH9A1_uc010pla.1_Nonsense_Mutation_p.R268*	NM_000696	NP_000687	P49189	AL9A1_HUMAN	aldehyde dehydrogenase 9A1	338					carnitine biosynthetic process|cellular aldehyde metabolic process|hormone metabolic process|neurotransmitter biosynthetic process	cytosol|plasma membrane	3-chloroallyl aldehyde dehydrogenase activity|4-trimethylammoniobutyraldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aminobutyraldehyde dehydrogenase activity				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				NADH(DB00157)	CCAAGGACTCGCTCCAGGTGT	0.463													46	126					0	0	0.01441	0	0		A	165638534	A	A	165638534	4	1	21	1	0	0	0	0	0	1	0	0	506	1095	38	1	492	1	ALDH9A1	1	165638534	Nonsense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	4437505	165638534	83612087	36	18604											
KLHL20	27252	broad.mit.edu	37	chr1	173720977	173720977	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatccagtgatgagctaaaCgttcgcagtgaagaacaagt	15	9	10	7	2	0	4	0	3	0	1	2	4	1	4	1	0	3	3	1	0	6	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:173720977C>T	uc001gjc.2	+	4	851	c.672C>T	c.(670-672)AAC>AAT	p.N224N	KLHL20_uc010pmr.1_Silent_p.N35N|KLHL20_uc009wwf.2_Silent_p.N206N	NM_014458	NP_055273	Q9Y2M5	KLH20_HUMAN	kelch-like 20	224	BACK.				cytoskeleton organization|negative regulation of apoptosis|proteasomal ubiquitin-dependent protein catabolic process|response to interferon-alpha	actin cytoskeleton|cell surface|Cul3-RING ubiquitin ligase complex|Golgi apparatus|perinuclear region of cytoplasm|PML body	actin binding|interferon-gamma binding|ubiquitin-protein ligase activity			ovary(1)	1						ATGAGCTAAACGTTCGCAGTG	0.398													18	40					0	0	0.00499	0	0		T	173720977	T	T	173720977	2	4	21	1	0	0	0	0	0	0	0	1	8391	535	19	1		1	KLHL20	1	173720977	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	8082443	173720977	75529644	37	18605											
ASTN1	460	broad.mit.edu	37	chr1	176926923	176926923	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccaaaggaatctaagagaAcctccaggctgtcgaaggag	14	5	12	10	1	1	1	0	0	1	1	3	5	2	3	3	3	1	1	3	3	5	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:176926923A>G	uc001glc.2	-	11	1990	c.1778T>C	c.(1777-1779)GTT>GCT	p.V593A	ASTN1_uc001glb.1_Missense_Mutation_p.V593A|ASTN1_uc001gld.1_Missense_Mutation_p.V593A|ASTN1_uc009wwx.1_Missense_Mutation_p.V593A	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	601					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						ATCTAAGAGAACCTCCAGGCT	0.527													17	32					0	0	0.006122	0	0		G	176926923	G	G	176926923	3	3	21	1	0	0	0	0	1	0	0	0	1065	43	2	3	2162	3	ASTN1	1	176926923	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	3205946	176926923	72323698	38	18606											
RALGPS2	55103	broad.mit.edu	37	chr1	178854243	178854243	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgtctccacagagtggaCgaaaaagtgtggcagctgaa	13	6	14	8	2	1	2	0	1	1	1	2	5	1	3	1	2	2	2	1	2	3	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:178854243C>T	uc001glz.2	+	12	1275	c.937C>T	c.(937-939)CGA>TGA	p.R313*	RALGPS2_uc010pnb.1_Nonsense_Mutation_p.R313*	NM_152663	NP_689876	Q86X27	RGPS2_HUMAN	Ral GEF with PH domain and SH3 binding motif 2	313					small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0						ACAGAGTGGACGAAAAAGTGT	0.433													16	53					0	0	0.00632	0	0		T	178854243	T	T	178854243	4	4	21	1	0	0	0	0	0	1	0	0	13043	528	19	1	979	1	RALGPS2	1	178854243	Nonsense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1927320	178854243	70396378	39	18607											
LAMC1	3915	broad.mit.edu	37	chr1	183111832	183111832	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggactataaccgagatatCgaggagatcatgaaggacat	16	8	11	6	2	1	3	1	1	0	2	2	8	1	5	1	3	1	0	1	3	4	3	rs139212722		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:183111832C>T	uc001gpy.3	+	28	4994	c.4737C>T	c.(4735-4737)ATC>ATT	p.I1579I		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	1579	Potential.|Domain II and I.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACCGAGATATCGAGGAGATCA	0.473													20	47					0	0	0.016522	0	0		T	183111832	T	T	183111832	2	4	21	1	0	0	0	0	0	0	0	1	8630	874	31	1		1	LAMC1	1	183111832	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	4257589	183111832	66138789	40	18608											
RGS13	6003	broad.mit.edu	37	chr1	192628502	192628502	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgacaagagagactatcaTcaggaacattcaggaaccca	16	7	8	10	1	3	2	3	0	0	2	4	6	3	4	1	2	2	0	1	2	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:192628502T>C	uc001gsj.2	+	7	610	c.329T>C	c.(328-330)ATC>ACC	p.I110T	RGS13_uc001gsk.2_Missense_Mutation_p.I110T	NM_002927	NP_002918	O14921	RGS13_HUMAN	regulator of G-protein signalling 13	110	RGS.					plasma membrane	GTPase activator activity|signal transducer activity				0						GAGACTATCATCAGGAACATT	0.353													24	45					0	0	0.021523	0	0		C	192628502	C	C	192628502	3	2	21	1	0	0	0	0	1	0	0	0	13321	1435	50	3	343	3	RGS13	1	192628502	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	9516670	192628502	56622119	41	18609											
CFHR1	3078	broad.mit.edu	37	chr1	196799764	196799764	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaacttgagggtaacaagCgaataacatgtagaaatgga	18	8	10	5	1	1	2	1	1	0	1	1	4	1	3	0	2	4	2	0	2	7	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:196799764C>T	uc001gtn.2	+	5	856	c.742C>T	c.(742-744)CGA>TGA	p.R248*	CFHR1_uc001gtm.2_Nonsense_Mutation_p.R152*	NM_002113	NP_002104	Q03591	FHR1_HUMAN	complement factor H-related 1 precursor	248	Sushi 4.				complement activation	extracellular space					0						GGGTAACAAGCGAATAACATG	0.403													39	111					0	0	0.013114	0	0		T	196799764	T	T	196799764	4	4	21	1	0	0	0	0	0	1	0	0	3287	760	27	1	760	1	CFHR1	1	196799764	Nonsense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	4171262	196799764	52450857	42	18610											
ASPM	259266	broad.mit.edu	37	chr1	197060039	197060039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttacggaggagaaaatggcGcactgctttctgtattactg	10	13	11	7	2	1	1	0	0	1	1	1	3	1	2	0	3	3	3	0	3	5	5	rs140679756		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:197060039G>A	uc001gtu.2	-	23	9834	c.9577C>T	c.(9577-9579)CGC>TGC	p.R3193C	ASPM_uc001gtv.2_Missense_Mutation_p.R1608C|ASPM_uc001gtw.3_Missense_Mutation_p.R1041C	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	3193	IQ 38.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						AGAAAATGGCGCACTGCTTTC	0.343													19	61					0	0	0.014323	0	0		A	197060039	A	A	197060039	3	1	21	1	0	0	0	0	1	0	0	0	1057	1087	38	1	880	1	ASPM	1	197060039	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	260275	197060039	52190582	43	18611											
C1orf106	55765	broad.mit.edu	37	chr1	200880598	200880598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtggattccttccgggCgggtcctgagggccgaggtc	4	8	18	11	3	0	1	0	1	0	0	4	3	3	2	4	6	0	0	4	6	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:200880598C>T	uc001gvo.2	+	9	1262	c.1232C>T	c.(1231-1233)GCG>GTG	p.A411V	C1orf106_uc010ppm.1_Missense_Mutation_p.A326V	NM_018265	NP_060735	Q3KP66	CA106_HUMAN	hypothetical protein LOC55765 isoform 1	411										skin(2)|ovary(1)	3						TCCTTCCGGGCGGGTCCTGAG	0.642													93	244					0	0	0.01441	0	0		T	200880598	T	T	200880598	3	4	21	1	0	0	0	0	1	0	0	0	1983	768	27	1	1266	1	C1orf106	1	200880598	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3820559	200880598	48370023	44	18612											
UBE2T	29089	broad.mit.edu	37	chr1	202304780	202304780	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatttgatacctacgagctcGcaggtcatccatttggtctt	8	14	9	10	2	2	1	1	1	1	0	4	3	3	1	2	2	3	2	2	2	2	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:202304780G>A	uc001gxx.3	-	2	239	c.103C>T	c.(103-105)CGA>TGA	p.R35*		NM_014176	NP_054895	Q9NPD8	UBE2T_HUMAN	ubiquitin-conjugating enzyme E2T	35					DNA repair|protein K11-linked ubiquitination|protein K27-linked ubiquitination|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|protein K63-linked ubiquitination	nucleoplasm	ATP binding|ubiquitin-protein ligase activity				0						CTACGAGCTCGCAGGTCATCC	0.433													41	74					0	0	0.00874	0	0		A	202304780	A	A	202304780	4	1	21	1	0	0	0	0	0	1	0	0	16899	1095	38	1	514	1	UBE2T	1	202304780	Nonsense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1424182	202304780	46945841	45	18613											
PIK3C2B	5287	broad.mit.edu	37	chr1	204413529	204413529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatccactgcacagccataCgacgcacctcctggtccggg	9	6	9	17	3	0	0	0	0	0	0	3	1	3	0	5	2	3	2	5	2	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:204413529C>T	uc001haw.2	-	18	3181	c.2702G>A	c.(2701-2703)CGT>CAT	p.R901H	PIK3C2B_uc010pqv.1_Missense_Mutation_p.R873H	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	901					cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			CACAGCCATACGACGCACCTC	0.587													8	16					0	0	0.010729	0	0		T	204413529	T	T	204413529	3	4	21	1	0	0	0	0	1	0	0	0	11929	536	19	1	2270	1	PIK3C2B	1	204413529	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2108749	204413529	44837092	46	18614											
C1orf107	27042	broad.mit.edu	37	chr1	210006641	210006641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacacgagtcactgttcaGcctggaaaccaattttctgg	13	10	8	10	1	3	0	2	0	1	0	3	2	3	1	2	2	3	1	2	2	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:210006641G>A	uc001hhr.1	+	4	576	c.500G>A	c.(499-501)AGC>AAC	p.S167N	C1orf107_uc009xcu.1_5'UTR	NM_014388	NP_055203	Q68CQ4	DIEXF_HUMAN	digestive-organ expansion factor homolog	167	Glu-rich.				multicellular organismal development	nucleus					0				OV - Ovarian serous cystadenocarcinoma(81;0.0367)		TCACTGTTCAGCCTGGAAACC	0.478													34	104					0	0	0.005524	0	0		A	210006641	A	A	210006641	3	1	21	1	0	0	0	0	1	0	0	0	1984	971	34	2	514	2	C1orf107	1	210006641	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	5593112	210006641	39243980	47	18615											
NVL	4931	broad.mit.edu	37	chr1	224495799	224495799	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaataaaccatcctcctTcagaatctttggcaggggtc	10	12	8	11	0	3	1	2	0	1	1	6	1	5	1	3	3	1	1	3	3	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:224495799T>C	uc001hok.2	-	6	552	c.509A>G	c.(508-510)GAA>GGA	p.E170G	NVL_uc001hol.2_Missense_Mutation_p.E64G|NVL_uc010pvd.1_Intron|NVL_uc010pve.1_Intron|NVL_uc010pvf.1_RNA	NM_002533	NP_002524	O15381	NVL_HUMAN	nuclear VCP-like isoform 1	170						aggresome|cytoplasm|nucleolus	ATP binding|nucleoside-triphosphatase activity			skin(2)	2				GBM - Glioblastoma multiforme(131;0.00501)		CCATCCTCCTTCAGAATCTTT	0.423													9	249					0	0	0.004482	0	0		C	224495799	C	C	224495799	3	2	21	1	0	0	0	0	1	0	0	0	10799	1783	62	3	2133	3	NVL	1	224495799	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	14489158	224495799	24754822	48	18616											
JMJD4	65094	broad.mit.edu	37	chr1	227920368	227920368	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgatgcccgagcaggaccTcatgatgacctgggcagagg	9	7	15	10	1	1	4	1	3	0	1	1	6	1	5	3	3	2	3	3	3	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:227920368T>G	uc001hrb.2	-	6	1117	c.1117A>C	c.(1117-1119)AGG>CGG	p.R373R	SNAP47_uc001hqz.2_Intron|SNAP47_uc001hra.2_Intron|SNAP47_uc001hrd.2_5'Flank|SNAP47_uc001hre.2_5'Flank|SNAP47_uc001hrf.2_5'Flank|LOC100130093_uc001hqx.3_RNA|LOC100130093_uc001hqy.3_RNA|JMJD4_uc001hrc.2_Silent_p.R357R	NM_023007	NP_075383	Q9H9V9	JMJD4_HUMAN	jumonji domain containing 4 isoform 1	373											0		Prostate(94;0.0885)				GAGCAGGACCTCATGATGACC	0.582													13	36					0	0	0.020292	0	0		G	227920368	G	G	227920368	2	3	21	1	0	0	0	0	0	0	0	1	7967	1550	54	5		5	JMJD4	1	227920368	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	3424569	227920368	21330253	49	18617											
PRSS38	339501	broad.mit.edu	37	chr1	228003829	228003829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaggggaaaatcctgggcGgcgtccctgcgcccgagagg	7	5	18	11	4	0	1	0	0	0	1	2	4	2	3	3	6	1	0	3	6	2	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:228003829G>A	uc001hrh.2	+	2	187	c.187G>A	c.(187-189)GGC>AGC	p.G63S		NM_183062	NP_898885	A1L453	PRS38_HUMAN	marapsin 2 precursor	63	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)|pancreas(1)	2						AATCCTGGGCGGCGTCCCTGC	0.612													42	70					0	0	0.01441	0	0		A	228003829	A	A	228003829	3	1	21	1	0	0	0	0	1	0	0	0	12649	1116	39	1	193	1	PRSS38	1	228003829	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	83461	228003829	21246792	50	18618											
OBSCN	84033	broad.mit.edu	37	chr1	228404718	228404718	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcctgtgtcctgcaggcctCgcgcgctttctgcacaagga	6	9	12	14	3	1	0	0	0	1	0	3	1	2	1	3	2	3	3	3	2	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:228404718C>T	uc009xez.1	+	8	2426	c.2382C>T	c.(2380-2382)CTC>CTT	p.L794L	OBSCN_uc001hsn.2_Silent_p.L794L	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	794					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CTGCAGGCCTCGCGCGCTTTC	0.652													9	13					0	0	0.008291	0	0		T	228404718	T	T	228404718	2	4	21	1	0	0	0	0	0	0	0	1	10831	871	31	1		1	OBSCN	1	228404718	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	400889	228404718	20845903	51	18619											
ABCB10	23456	broad.mit.edu	37	chr1	229685122	229685122	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgacatcaatgatcttccCcaggaagaaaggggcagaca	15	6	11	9	0	2	4	1	2	1	2	3	6	3	5	2	3	0	1	2	3	3	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:229685122C>T	uc001htp.3	-	2	620	c.577G>A	c.(577-579)GGG>AGG	p.G193R		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	193	Mitochondrial intermembrane (Potential).|Mitochondrial matrix (Potential).|ABC transmembrane type-1.					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				ATGATCTTCCCCAGGAAGAAA	0.517													16	49					0	0	0.00499	0	0		T	229685122	T	T	229685122	3	4	21	1	0	0	0	0	1	0	0	0	41	623	22	4	1687	4	ABCB10	1	229685122	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1280404	229685122	19565499	52	18620											
C1orf198	84886	broad.mit.edu	37	chr1	230979323	230979323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttggcctccctgtccttcGgggcaggttcctgccggtag	2	11	13	15	2	0	0	0	0	0	0	4	0	3	0	6	5	1	3	6	5	1	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:230979323G>A	uc001hub.2	-	3	748	c.704C>T	c.(703-705)CCG>CTG	p.P235L	C1orf198_uc009xfh.1_Missense_Mutation_p.P105L|C1orf198_uc001huc.1_Missense_Mutation_p.P18L|C1orf198_uc001hud.1_Missense_Mutation_p.P197L	NM_032800	NP_116189	Q9H425	CA198_HUMAN	hypothetical protein LOC84886 isoform 1	235											0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				CCTGTCCTTCGGGGCAGGTTC	0.637													17	52					0	0	0.012319	0	0		A	230979323	A	A	230979323	3	1	21	1	0	0	0	0	1	0	0	0	2029	1116	39	1	287	1	C1orf198	1	230979323	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1294201	230979323	18271298	53	18621											
RYR2	6262	broad.mit.edu	37	chr1	237666765	237666765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccccacagtttccctgaCgcaagctgccttcacaccca	8	7	8	18	1	1	1	1	1	0	0	2	1	2	1	5	1	2	3	5	1	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:237666765C>T	uc001hyl.1	+	22	2693	c.2573C>T	c.(2572-2574)ACG>ATG	p.T858M		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	858	Cytoplasmic (By similarity).|1.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GTTTCCCTGACGCAAGCTGCC	0.493													7	106					0	0	0.001984	0	0		T	237666765	T	T	237666765	3	4	21	1	0	0	0	0	1	0	0	0	13794	536	19	1	2659	1	RYR2	1	237666765	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	6687442	237666765	11583856	54	18622											
KIF26B	55083	broad.mit.edu	37	chr1	245848974	245848974	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccctatcgtgccagccctgCagaagacccggggcgacagc	8	5	12	16	3	0	2	0	0	0	2	2	3	1	2	4	2	4	1	4	2	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:245848974C>T	uc001ibf.1	+	12	3129	c.2689C>T	c.(2689-2691)CAG>TAG	p.Q897*	KIF26B_uc001ibg.1_Nonsense_Mutation_p.Q515*|KIF26B_uc001ibh.1_Nonsense_Mutation_p.Q139*	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	897					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			GCCAGCCCTGCAGAAGACCCG	0.647													6	16					0	0	0.004482	0	0		T	245848974	T	T	245848974	4	4	21	1	0	0	0	0	0	1	0	0	8311	711	25	2	2735	2	KIF26B	1	245848974	Nonsense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	8182209	245848974	3401647	55	18623											
ZNF669	79862	broad.mit.edu	37	chr1	247267342	247267342	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccgctgcccgccccgcccGgcccggccctgaacagaaga	6	4	11	20	5	0	3	0	1	0	2	1	3	1	3	7	2	2	1	7	2	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:247267342G>C	uc001ice.2	-	1	333	c.160C>G	c.(160-162)CGG>GGG	p.R54G	ZNF669_uc001icf.2_Intron	NM_024804	NP_079080	Q96BR6	ZN669_HUMAN	zinc finger protein 669 isoform 1	54					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;4.09e-05)|all_epithelial(71;6.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0283)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00427)			cgccccgcccggcccggcccT	0.617													3	4					0	0	0.014758	0	0		C	247267342	C	C	247267342	3	2	21	1	0	0	0	0	1	0	0	0	18101	1115	39	5	1250	5	ZNF669	1	247267342	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1418368	247267342	1983279	56	18624											
OR2G3	81469	broad.mit.edu	37	chr1	247769005	247769005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctacctcctgacccttGtgggaaacttcaccataatc	9	13	5	14	0	3	1	1	1	2	0	5	2	4	2	4	1	2	0	4	1	3	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr1:247769005G>A	uc010pyz.1	+	1	118	c.118G>A	c.(118-120)GTG>ATG	p.V40M		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			CCTGACCCTTGTGGGAAACTT	0.448													90	232					0	0	0.01441	0	0		A	247769005	A	A	247769005	3	1	21	1	0	0	0	0	1	0	0	0	11018	1377	48	4	120	4	OR2G3	1	247769005	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	501663	247769005	1481616	57	18625											
SMC6	79677	broad.mit.edu	37	chr2	17847726	17847726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaagataaactgtctaaaaCgctgggaatctgccatcttc	13	10	8	10	1	3	1	0	0	3	1	4	2	3	2	1	1	3	2	1	1	6	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:17847726C>T	uc002rco.2	-	27	3418	c.3122G>A	c.(3121-3123)CGT>CAT	p.R1041H	SMC6_uc010exo.2_Missense_Mutation_p.R1041H|SMC6_uc002rcn.2_Missense_Mutation_p.R1041H	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	1041					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CTGTCTAAAACGCTGGGAATC	0.348													5	29					0	0	0.001984	0	0		T	17847726	T	T	17847726	3	4	21	1	0	0	0	0	1	0	0	0	14812	536	19	1	161	1	SMC6	2	17847726	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08		17847726	225351647	58	18626											
C2orf43	60526	broad.mit.edu	37	chr2	20990057	20990057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtctttgggagccaacgCatgcccagcatgactgatag	9	10	11	11	1	1	2	0	2	1	0	1	3	1	3	2	1	4	2	2	1	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:20990057C>T	uc002rec.2	-	3	289	c.256G>A	c.(256-258)GCG>ACG	p.A86T	C2orf43_uc002rea.1_Missense_Mutation_p.A86T|C2orf43_uc002reb.1_RNA|C2orf43_uc010yka.1_Intron|C2orf43_uc010ykb.1_5'UTR|C2orf43_uc010ykc.1_Intron|C2orf43_uc010ykd.1_Missense_Mutation_p.A86T|C2orf43_uc010yke.1_Intron|C2orf43_uc010ykf.1_Intron	NM_021925	NP_068744	Q9H6V9	CB043_HUMAN	hypothetical protein LOC60526	86											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAGCCAACGCATGCCCAGCA	0.423													83	135					0	0	0.01441	0	0		T	20990057	T	T	20990057	3	4	21	1	0	0	0	0	1	0	0	0	2170	710	25	2	741	2	C2orf43	2	20990057	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3142331	20990057	222209316	59	18627											
C2orf43	60526	broad.mit.edu	37	chr2	21001136	21001136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgaaagaggtctgtccaggGcccacattttagaacctggg	11	9	12	9	0	1	3	0	1	1	2	2	3	2	3	3	3	1	0	3	3	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:21001136G>A	uc002rec.2	-	2	121	c.88C>T	c.(88-90)CCC>TCC	p.P30S	C2orf43_uc002rea.1_Missense_Mutation_p.P30S|C2orf43_uc002reb.1_Intron|C2orf43_uc010yka.1_Missense_Mutation_p.P30S|C2orf43_uc010ykb.1_Intron|C2orf43_uc010ykc.1_Missense_Mutation_p.P30S|C2orf43_uc010ykd.1_Missense_Mutation_p.P30S|C2orf43_uc010yke.1_Missense_Mutation_p.P30S|C2orf43_uc010ykf.1_Intron	NM_021925	NP_068744	Q9H6V9	CB043_HUMAN	hypothetical protein LOC60526	30											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCTGTCCAGGGCCCACATTTT	0.433													43	103					0	0	0.010771	0	0		A	21001136	A	A	21001136	3	1	21	1	0	0	0	0	1	0	0	0	2170	1203	42	2	913	2	C2orf43	2	21001136	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	11079	21001136	222198237	60	18628											
KIF3C	3797	broad.mit.edu	37	chr2	26174773	26174773	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagttctcgatgattaggtAcctgggagcaggaatgaagg	12	9	15	5	1	1	2	0	2	1	0	2	6	1	4	1	4	2	3	1	4	5	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:26174773A>G	uc002rgu.2	-	5	2548	c.1891T>C	c.(1891-1893)TAC>CAC	p.Y631H	KIF3C_uc010eyj.1_RNA|KIF3C_uc010ykr.1_Missense_Mutation_p.Y631H	NM_002254	NP_002245	O14782	KIF3C_HUMAN	kinesin family member 3C	631	Globular (Potential).				blood coagulation|microtubule-based movement	cytosol|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATGATTAGGTACCTGGGAGCA	0.522													55	79					0	0	0.01441	0	0		G	26174773	G	G	26174773	3	3	21	1	0	0	0	0	1	0	0	0	8318	405	14	3	506	3	KIF3C	2	26174773	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	5173637	26174773	217024600	61	18629											
CAD	790	broad.mit.edu	37	chr2	27446475	27446475	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgcttgttggtgggctCtgggcgctgctttctgacat	2	14	14	11	1	2	1	0	1	2	0	2	1	2	1	1	3	2	5	1	3	0	3	rs142425046		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:27446475C>A	uc002rji.2	+	7	1016	c.854C>A	c.(853-855)TCT>TAT	p.S285Y	CAD_uc010eyw.2_Missense_Mutation_p.S285Y	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	285	Glutamine amidotransferase type-1.|GATase (Glutamine amidotransferase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	TTGGTGGGCTCTGGGCGCTGC	0.567													81	196					1.38806e-43	1.63576e-43	0.01441	1	0		A	27446475	A	A	27446475	3	1	21	1	0	0	0	0	1	0	0	0	2568	913	32	5	880	5	CAD	2	27446475	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1271702	27446475	215752898	62	18630											
IFT172	26160	broad.mit.edu	37	chr2	27695182	27695182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagttccagccaatccacacGgctctcatggctgacggtgc	9	8	10	14	2	1	1	1	1	1	0	4	1	3	1	3	3	2	3	3	3	2	1	rs143520040		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:27695182G>A	uc002rku.2	-	15	1510	c.1459C>T	c.(1459-1461)CGT>TGT	p.R487C	IFT172_uc002rkw.2_Missense_Mutation_p.R487C|IFT172_uc010yls.1_Missense_Mutation_p.R466C|IFT172_uc010ezc.2_Missense_Mutation_p.R487C|IFT172_uc002rkv.2_Missense_Mutation_p.R461C	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	487	WD 8.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CAATCCACACGGCTCTCATGG	0.478													13	48					0	0	0.012319	0	0		A	27695182	A	A	27695182	3	1	21	1	0	0	0	0	1	0	0	0	7573	1116	39	1	3926	1	IFT172	2	27695182	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	248707	27695182	215504191	63	18631											
GALNT14	79623	broad.mit.edu	37	chr2	31154985	31154985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacgtaggggtgcttcttcCggaagacgtgccccactcgg	8	8	13	12	4	1	1	0	0	1	1	3	2	2	2	3	4	3	2	3	4	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:31154985C>T	uc002rnr.2	-	10	1626	c.1007G>A	c.(1006-1008)CGG>CAG	p.R336Q	GALNT14_uc002rnq.2_Missense_Mutation_p.R316Q|GALNT14_uc002rns.2_Missense_Mutation_p.R341Q|GALNT14_uc010ymr.1_Missense_Mutation_p.R301Q|GALNT14_uc010ezo.1_Missense_Mutation_p.R303Q|GALNT14_uc010ezp.1_3'UTR	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	336	Lumenal (Potential).|Catalytic subdomain B.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					GTGCTTCTTCCGGAAGACGTG	0.592													37	78					0	0	0.006999	0	0		T	31154985	T	T	31154985	3	4	21	1	0	0	0	0	1	0	0	0	6227	652	23	1	675	1	GALNT14	2	31154985	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3459803	31154985	212044388	64	18632											
RASGRP3	25780	broad.mit.edu	37	chr2	33783395	33783395	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcctggaagcccctcgcTgcccccaggtaatgccctct	6	8	9	18	1	1	0	0	0	1	0	2	1	1	1	6	2	4	2	6	2	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:33783395T>C	uc002rox.2	+	17	2324	c.1697T>C	c.(1696-1698)CTG>CCG	p.L566P	RASGRP3_uc010ync.1_Missense_Mutation_p.L566P|RASGRP3_uc002roy.2_Missense_Mutation_p.L565P	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	566					MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					AGCCCCTCGCTGCCCCCAGGT	0.577													9	27					0	0	0.008291	0	0		C	33783395	C	C	33783395	3	2	21	1	0	0	0	0	1	0	0	0	13101	1580	55	3	1751	3	RASGRP3	2	33783395	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	2628410	33783395	209415978	65	18633											
OXER1	165140	broad.mit.edu	37	chr2	42990108	42990108	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctgcactttcagcttcccTatggcctccgccttcctaga	5	12	6	18	1	1	1	1	0	0	1	4	1	4	1	6	1	2	2	6	1	2	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:42990108T>C	uc002rss.2	-	1	1294	c.1212A>G	c.(1210-1212)ATA>ATG	p.I404M		NM_148962	NP_683765	Q8TDS5	OXER1_HUMAN	G-protein coupled receptor TG1019	404	Cytoplasmic (Potential).				regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	5(S)-hydroxyperoxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding|5-hydroxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding|5-oxo-6E,8Z,11Z,14Z-icosatetraenoic acid binding|G-protein coupled receptor activity			breast(1)	1						TCAGCTTCCCTATGGCCTCCG	0.677													24	63					0	0	0.009535	0	0		C	42990108	C	C	42990108	3	2	21	1	0	0	0	0	1	0	0	0	11350	1512	53	3	63	3	OXER1	2	42990108	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	9206713	42990108	200209265	66	18634											
GPR75	10936	broad.mit.edu	37	chr2	54081206	54081206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgacttgagcgttcttccGcagggtctgagcaatcatga	8	12	11	10	2	4	4	1	4	3	0	5	4	5	4	1	1	2	3	1	1	1	3	rs143781055		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:54081206G>A	uc002rxo.3	-	2	959	c.688C>T	c.(688-690)CGG>TGG	p.R230W	ASB3_uc002rxi.3_Intron	NM_006794	NP_006785	O95800	GPR75_HUMAN	G protein-coupled receptor 75	230	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|skin(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			GCGTTCTTCCGCAGGGTCTGA	0.522													34	75					0	0	0.015359	0	0		A	54081206	A	A	54081206	3	1	21	1	0	0	0	0	1	0	0	0	6723	1086	38	1	938	1	GPR75	2	54081206	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	11091098	54081206	189118167	67	18635											
USP34	9736	broad.mit.edu	37	chr2	61416142	61416142	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctcttgcagagttggaatTagagctgggtttaactgttt	9	15	12	5	0	1	2	0	0	1	2	1	3	1	3	0	2	4	6	0	2	3	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:61416142T>C	uc002sbe.2	-	79	9958	c.9936A>G	c.(9934-9936)CTA>CTG	p.L3312L	USP34_uc002sbd.2_Silent_p.L114L	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	3312					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			GAGTTGGAATTAGAGCTGGGT	0.423													9	92					0	0	0.004482	0	0		C	61416142	C	C	61416142	2	2	21	1	0	0	0	0	0	0	0	1	17091	1741	61	3		3	USP34	2	61416142	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	7334936	61416142	181783231	68	18636											
C2orf42	54980	broad.mit.edu	37	chr2	70392254	70392254	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctaagatttgtttaacttgCaggatattagtgatatgcca	12	16	8	5	0	1	2	0	1	1	1	1	3	1	3	1	1	3	2	1	1	5	8			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:70392254C>A	uc002sgh.2	-	8	1651	c.1323G>T	c.(1321-1323)CTG>CTT	p.L441L		NM_017880	NP_060350	Q9NWW7	CB042_HUMAN	hypothetical protein LOC54980	441											0						GTTTAACTTGCAGGATATTAG	0.408													38	113					9.39024e-22	1.08289e-21	0.009718	1	0		A	70392254	A	A	70392254	2	1	21	1	0	0	0	0	0	0	0	1	2169	697	25	5		5	C2orf42	2	70392254	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	8976112	70392254	172807119	69	18637											
C2orf42	54980	broad.mit.edu	37	chr2	70408792	70408792	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaccgtccagagctcagcTgagtgatgatcgtcccatcc	10	8	9	14	2	1	4	1	3	0	1	5	4	4	4	4	0	3	2	4	0	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:70408792T>C	uc002sgh.2	-	3	654	c.326A>G	c.(325-327)CAG>CGG	p.Q109R		NM_017880	NP_060350	Q9NWW7	CB042_HUMAN	hypothetical protein LOC54980	109											0						AGAGCTCAGCTGAGTGATGAT	0.557													19	47					0	0	0.008871	0	0		C	70408792	C	C	70408792	3	2	21	1	0	0	0	0	1	0	0	0	2169	1580	55	3	1430	3	C2orf42	2	70408792	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	16538	70408792	172790581	70	18638											
DYSF	8291	broad.mit.edu	37	chr2	71766292	71766292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcccttgctctagggaccGcctgactcacaatgacatcg	8	9	9	15	2	2	2	1	2	1	0	4	3	3	3	3	1	1	2	3	1	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:71766292G>A	uc002sie.2	+	16	1779	c.1403G>A	c.(1402-1404)CGC>CAC	p.R468H	DYSF_uc010feg.2_Missense_Mutation_p.R499H|DYSF_uc010feh.2_Missense_Mutation_p.R468H|DYSF_uc002sig.3_Missense_Mutation_p.R468H|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.R468H|DYSF_uc010fef.2_Missense_Mutation_p.R499H|DYSF_uc010fei.2_Missense_Mutation_p.R499H|DYSF_uc010fek.2_Missense_Mutation_p.R500H|DYSF_uc010fej.2_Missense_Mutation_p.R469H|DYSF_uc010fel.2_Missense_Mutation_p.R469H|DYSF_uc010feo.2_Missense_Mutation_p.R500H|DYSF_uc010fem.2_Missense_Mutation_p.R469H|DYSF_uc010fen.2_Missense_Mutation_p.R500H|DYSF_uc002sif.2_Missense_Mutation_p.R469H	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	468	Cytoplasmic (Potential).|C2 3.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						TCTAGGGACCGCCTGACTCAC	0.552													28	60					0	0	0.010818	0	0		A	71766292	A	A	71766292	3	1	21	1	0	0	0	0	1	0	0	0	4865	1087	38	1	1657	1	DYSF	2	71766292	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1357500	71766292	171433081	71	18639											
KDM3A	55818	broad.mit.edu	37	chr2	86683981	86683981	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcatgttgaagttgtacaCgataaccttgtgacatgtgg	11	14	10	6	1	1	2	1	2	0	0	1	3	1	2	1	1	2	3	1	1	3	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:86683981C>T	uc002sri.3	+	7	1062	c.735C>T	c.(733-735)CAC>CAT	p.H245H	KDM3A_uc010ytj.1_Silent_p.H245H|KDM3A_uc010ytk.1_Silent_p.H193H	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	245					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						AAGTTGTACACGATAACCTTG	0.353													32	89					0	0	0.013726	0	0		T	86683981	T	T	86683981	2	4	21	1	0	0	0	0	0	0	0	1	8142	535	19	1		1	KDM3A	2	86683981	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	14917689	86683981	156515392	72	18640											
SULT1C4	27233	broad.mit.edu	37	chr2	108994703	108994703	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggatagtgtggtagtgtgGtggatagagtgctgcctcta	7	13	16	5	0	1	1	0	0	1	1	1	3	1	3	1	4	2	2	1	4	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:108994703G>A	uc002tea.1	+	1	283	c.-90G>A	c.(-92--88)TGGTG>TGATG		SULT1C4_uc002tdz.2_Translation_Start_Site|SULT1C4_uc010ywr.1_RNA|SULT1C4_uc002teb.1_Translation_Start_Site	NM_006588	NP_006579	O75897	ST1C4_HUMAN	sulfotransferase family, cytosolic, 1C, member						3'-phosphoadenosine 5'-phosphosulfate metabolic process|sulfation|xenobiotic metabolic process	cytosol	sulfotransferase activity				0						TGGTAGTGTGGTGGATAGAGT	0.522													29	45					0	0	0.007291	0	0		A	108994703	A	A	108994703	1	1	21	1	0	0	0	0	0	0	0	0	15404	1276	44	4		4	SULT1C4	2	108994703	Translation_Start_Site	SNP	G	TCGA-BR-4363-01A-01D-1158-08	22310722	108994703	134204670	73	18641											
GCC2	9648	broad.mit.edu	37	chr2	109116015	109116015	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctaacaccagcttctcAaaagtgaaataagaagattg	16	11	6	8	0	2	3	1	1	2	2	4	3	2	3	1	0	2	1	1	0	6	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:109116015A>G	uc002tec.2	+	22	4943	c.4789A>G	c.(4789-4791)AAA>GAA	p.K1597E	GCC2_uc002ted.2_Missense_Mutation_p.K1496E	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	1597	Mediates interaction with RAB6A.|Potential.|Mediates interaction with RAB9A.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						CCAGCTTCTCAAAAGTGAAAT	0.388													15	68					0	0	0.007413	0	0		G	109116015	G	G	109116015	3	3	21	1	0	0	0	0	1	0	0	0	6301	131	5	3	4875	3	GCC2	2	109116015	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	121312	109116015	134083358	74	18642											
TMEM87B	84910	broad.mit.edu	37	chr2	112832491	112832491	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttactcttttttccagaaTaaagaactaataaatatcag	17	15	3	6	0	2	2	1	0	1	2	3	2	3	2	1	0	2	0	1	0	9	9	rs141654814		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:112832491T>C	uc002thm.2	+	5	822	c.453T>C	c.(451-453)AAT>AAC	p.N151N	TMEM87B_uc010fkg.2_Intron|TMEM87B_uc010fkh.2_Intron	NM_032824	NP_116213	Q96K49	TM87B_HUMAN	transmembrane protein 87B precursor	151						integral to membrane					0						TTTTCCAGAATAAAGAACTAA	0.259													9	17					0	0	0.006214	0	0		C	112832491	C	C	112832491	2	2	21	1	0	0	0	0	0	0	0	1	16236	1403	49	3		3	TMEM87B	2	112832491	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	3716476	112832491	130366882	75	18643											
TMEM177	80775	broad.mit.edu	37	chr2	120438597	120438597	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcagggccagccagctccGctccctccacagctgcagag	7	5	10	19	1	1	1	1	0	0	1	4	1	4	1	6	1	4	4	6	1	0	0	rs116090839	by1000genomes	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:120438597G>A	uc010flg.1	+	2	641	c.168G>A	c.(166-168)CCG>CCA	p.P56P	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Silent_p.P56P|TMEM177_uc002tmd.2_Silent_p.P56P|TMEM177_uc010flh.2_Silent_p.P56P	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	56						integral to membrane				ovary(1)	1	Colorectal(110;0.196)					AGCCAGCTCCGCTCCCTCCAC	0.582													83	188					0	0	0.01441	0	0		A	120438597	A	A	120438597	2	1	21	1	0	0	0	0	0	0	0	1	16119	1074	38	1		1	TMEM177	2	120438597	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	7606106	120438597	122760776	76	18644											
TUBA3D	113457	broad.mit.edu	37	chr2	132237023	132237023	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagtcctggaccggatccgCaaactggtaagaagagaagg	13	6	13	9	2	0	2	0	0	0	2	2	5	2	4	3	4	1	2	3	4	5	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:132237023C>T	uc002tsu.3	+	3	476	c.369C>T	c.(367-369)CGC>CGT	p.R123R		NM_080386	NP_525125	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	123					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(221;0.13)		ACCGGATCCGCAAACTGGTAA	0.483													57	145					0	0	0.01441	0	0		T	132237023	T	T	132237023	2	4	21	1	0	0	0	0	0	0	0	1	16773	697	25	2		2	TUBA3D	2	132237023	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	11798426	132237023	110962350	77	18645											
R3HDM1	23518	broad.mit.edu	37	chr2	136393550	136393550	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagagataactctagcttTgacaaagatgataaccaggt	17	9	9	6	0	1	5	0	2	1	3	1	6	1	5	1	1	3	1	1	1	5	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:136393550T>C	uc002tuo.2	+	10	1159	c.789T>C	c.(787-789)TTT>TTC	p.F263F	R3HDM1_uc010fni.2_Silent_p.F261F|R3HDM1_uc002tup.2_Silent_p.F207F|R3HDM1_uc010zbh.1_Silent_p.F95F	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	263							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		ACTCTAGCTTTGACAAAGATG	0.313													46	79					0	0	0.01441	0	0		C	136393550	C	C	136393550	2	2	21	1	0	0	0	0	0	0	0	1	12912	1809	63	3		3	R3HDM1	2	136393550	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	4156527	136393550	106805823	78	18646											
MCM6	4175	broad.mit.edu	37	chr2	136602247	136602247	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctctttaatgctgactcGtcctcttctgcaacaaaaaa	11	13	4	13	1	3	1	0	1	3	0	6	1	5	1	2	0	3	2	2	0	5	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:136602247G>A	uc002tuw.2	-	16	2293	c.2217C>T	c.(2215-2217)GAC>GAT	p.D739D		NM_005915	NP_005906	Q14566	MCM6_HUMAN	minichromosome maintenance complex component 6	739					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|identical protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.166)	Atorvastatin(DB01076)	ATGCTGACTCGTCCTCTTCTG	0.368													42	117					0	0	0.011902	0	0		A	136602247	A	A	136602247	2	1	21	1	0	0	0	0	0	0	0	1	9409	1136	40	1		1	MCM6	2	136602247	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	208697	136602247	106597126	79	18647											
RIF1	55183	broad.mit.edu	37	chr2	152324577	152324577	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagatgacattgatagaCggtgctctattgttaggtcc	9	13	12	7	1	1	4	0	2	1	2	2	4	2	4	1	3	1	3	1	3	3	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:152324577C>T	uc002txm.2	+	31	6794	c.6664C>T	c.(6664-6666)CGG>TGG	p.R2222W	RIF1_uc002txl.2_Missense_Mutation_p.R2222W|RIF1_uc002txn.2_Missense_Mutation_p.R2222W|RIF1_uc002txo.2_Missense_Mutation_p.R2222W|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	2222	Interaction with condensed chromosomes in telophase.				cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		CATTGATAGACGGTGCTCTAT	0.393													35	72					0	0	0.019004	0	0		T	152324577	T	T	152324577	3	4	21	1	0	0	0	0	1	0	0	0	13384	527	19	1	6782	1	RIF1	2	152324577	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	15722330	152324577	90874796	80	18648											
NEB	4703	broad.mit.edu	37	chr2	152363488	152363488	+	Frame_Shift_Del	DEL	T	-	-																															cgtgtcttgaacaactgtaaTttttcctttactgtttttaa																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:152363488delT	uc010fnx.2	-	135	18579	c.18388delA	c.(18388-18390)ATTfs	p.I6130fs	NEB_uc002txr.2_Frame_Shift_Del_p.I2553fs|RIF1_uc002txp.2_Intron|NEB_uc010zca.1_5'Flank|NEB_uc010zcb.1_5'UTR|NEB_uc002txt.3_Frame_Shift_Del_p.I635fs	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	6130	Nebulin 168.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		ACAACTGTAATTTTTCCTTTA	0.308													40	80	---	---	---	---						.	-	152363488	-	-	152363488	7	5	21	1	0	1	0	1	0	0	0	0	10321	1493	52	0	2166	0	NEB	2	152363488	Frame_Shift_Del	DEL	T	TCGA-BR-4363-01A-01D-1158-08	38911	152363488	90835885	81	18649											
NR4A2	4929	broad.mit.edu	37	chr2	157186441	157186441	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctaccttaatggaggactgCtgtccggacaggggcatttg	8	11	13	9	1	1	0	0	0	1	0	2	3	2	3	2	5	2	2	2	5	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:157186441C>T	uc002tyz.3	-	3	680	c.258G>A	c.(256-258)CAG>CAA	p.Q86Q	NR4A2_uc002tyx.3_Silent_p.Q23Q|NR4A2_uc010zcf.1_Silent_p.Q86Q|NR4A2_uc010zcg.1_5'Flank	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	86	Gln-rich.				cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						TGGAGGACTGCTGTCCGGACA	0.557													32	85					0	0	0.015359	0	0		T	157186441	T	T	157186441	2	4	21	1	0	0	0	0	0	0	0	1	10652	796	28	2		2	NR4A2	2	157186441	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	4822953	157186441	86012932	82	18650											
PLA2R1	22925	broad.mit.edu	37	chr2	160798419	160798419	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagccaccgttatgcttgTatatgcagaaggaaagtgtg	13	10	12	6	1	0	2	0	0	0	2	0	3	0	3	2	1	3	4	2	1	6	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:160798419T>C	uc002ube.1	-	30	4469	c.4262A>G	c.(4261-4263)TAC>TGC	p.Y1421C	PLA2R1_uc010zcp.1_Missense_Mutation_p.Y1419C	NM_007366	NP_031392	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1 isoform 1 precursor	1421	Cytoplasmic (Potential).				endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding			skin(2)|ovary(1)	3						GTTATGCTTGTATATGCAGAA	0.408													20	49					0	0	0.01892	0	0		C	160798419	C	C	160798419	3	2	21	1	0	0	0	0	1	0	0	0	12029	1638	57	3	133	3	PLA2R1	2	160798419	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	3611978	160798419	82400954	83	18651											
XIRP2	129446	broad.mit.edu	37	chr2	168100214	168100214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggagatgtaagaacagcacGgtggatgtttgaaacacagc	14	7	14	6	1	0	3	0	1	0	2	0	5	0	4	0	3	4	3	0	3	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:168100214G>A	uc002udx.2	+	8	2330	c.2312G>A	c.(2311-2313)CGG>CAG	p.R771Q	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.R596Q|XIRP2_uc010fpq.2_Missense_Mutation_p.R549Q|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	596	Xin 7.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGAACAGCACGGTGGATGTTT	0.393													26	69					0	0	0.021523	0	0		A	168100214	A	A	168100214	3	1	21	1	0	0	0	0	1	0	0	0	17456	1116	39	1	2342	1	XIRP2	2	168100214	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	7301795	168100214	75099159	84	18652											
LRP2	4036	broad.mit.edu	37	chr2	170059292	170059292	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cactttccatctcatcactgCcatccccacagtcgttgtca	8	12	4	17	1	3	0	3	0	1	0	7	0	5	0	4	0	1	1	4	0	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:170059292C>A	uc002ues.2	-	43	8396	c.8183G>T	c.(8182-8184)GGC>GTC	p.G2728V		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2728	LDL-receptor class A 16.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CTCATCACTGCCATCCCCACA	0.498													9	135					2.17888e-05	2.38688e-05	0.006214	1	0		A	170059292	A	A	170059292	3	1	21	1	0	0	0	0	1	0	0	0	8974	739	26	5	5932	5	LRP2	2	170059292	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1959078	170059292	73140081	85	18653											
TTN	7273	broad.mit.edu	37	chr2	179395182	179395182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttagtttctgatatttttGataccttctcatggatactc	8	20	5	8	0	3	2	1	2	3	0	5	3	3	3	1	1	2	1	1	1	4	8			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:179395182G>A	uc010zfg.1	-	307	98680	c.98456C>T	c.(98455-98457)TCA>TTA	p.S32819L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S26514L|TTN_uc010zfi.1_Missense_Mutation_p.S26447L|TTN_uc010zfj.1_Missense_Mutation_p.S26322L|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33746							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGATATTTTTGATACCTTCTC	0.373													38	73					0	0	0.011902	0	0		A	179395182	A	A	179395182	3	1	21	1	0	0	0	0	1	0	0	0	16761	1294	45	4	1839	4	TTN	2	179395182	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	9335890	179395182	63804191	86	18654											
TTN	7273	broad.mit.edu	37	chr2	179580341	179580341	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcacagccaccgagtcaacGaatgacattctgaatttact	14	9	7	11	2	2	2	1	2	1	0	2	4	2	2	2	0	4	1	2	0	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:179580341G>A	uc010zfg.1	-	86	22292	c.22068C>T	c.(22066-22068)TTC>TTT	p.F7356F	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.F4017F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8283							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCGAGTCAACGAATGACATTC	0.463													15	29					0	0	0.006122	0	0		A	179580341	A	A	179580341	2	1	21	1	0	0	0	0	0	0	0	1	16761	1049	37	1		1	TTN	2	179580341	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	185159	179580341	63619032	87	18655											
TTN	7273	broad.mit.edu	37	chr2	179667001	179667001	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctaaaggagatctgcacGccgggcagagtggaagtgga	11	6	16	8	3	1	2	0	0	1	2	2	5	1	4	1	4	1	3	1	4	3	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:179667001G>A	uc002und.2	-	3	384	c.159C>T	c.(157-159)GGC>GGT	p.G53G	TTN_uc010zfg.1_Silent_p.G53G|TTN_uc010zfh.1_Silent_p.G53G|TTN_uc010zfi.1_Silent_p.G53G|TTN_uc010zfj.1_Silent_p.G53G|TTN_uc002unb.2_Silent_p.G53G			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	53							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGATCTGCACGCCGGGCAGAG	0.517													16	55					0	0	0.006122	0	0		A	179667001	A	A	179667001	2	1	21	1	0	0	0	0	0	0	0	1	16761	1074	38	1		1	TTN	2	179667001	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	86660	179667001	63532372	88	18656											
SPATS2L	26010	broad.mit.edu	37	chr2	201284108	201284108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acggccccatgaatggctgcGagaaggacagctcgtccaca	11	5	12	13	3	0	2	0	1	0	1	2	4	1	3	3	3	2	2	3	3	2	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:201284108G>A	uc002uvn.3	+	6	686	c.334G>A	c.(334-336)GAG>AAG	p.E112K	SPATS2L_uc010fst.2_Missense_Mutation_p.E112K|SPATS2L_uc002uvo.3_Missense_Mutation_p.E52K|SPATS2L_uc002uvp.3_Missense_Mutation_p.E112K|SPATS2L_uc002uvq.3_Missense_Mutation_p.E112K|SPATS2L_uc002uvr.3_Missense_Mutation_p.E112K|SPATS2L_uc010zhc.1_Missense_Mutation_p.E142K	NM_015535	NP_056350	Q9NUQ6	SPS2L_HUMAN	SPATS2-like protein isoform a	112						cytoplasm|nucleolus				ovary(2)|pancreas(1)	3						GAATGGCTGCGAGAAGGACAG	0.527													5	25					0	0	0.001168	0	0		A	201284108	A	A	201284108	3	1	21	1	0	0	0	0	1	0	0	0	15045	1059	37	1	348	1	SPATS2L	2	201284108	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	21617107	201284108	41915265	89	18657											
CASP8	841	broad.mit.edu	37	chr2	202131514	202131514	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctcaaatttctgcctacaGgtgggtggaaactcccattg	9	11	11	10	0	2	0	1	0	1	0	3	1	3	1	2	4	3	1	2	4	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:202131514G>T	uc002uxr.1	+	3	514	c.305G>T	c.(304-306)AGG>ATG	p.R102M	CASP8_uc010ftc.1_Missense_Mutation_p.R102M|CASP8_uc002uxo.1_Missense_Mutation_p.R102M|CASP8_uc002uxp.1_Missense_Mutation_p.R102M|CASP8_uc002uxq.1_Missense_Mutation_p.R102M|CASP8_uc002uxs.1_Missense_Mutation_p.R102M|CASP8_uc002uxt.1_Missense_Mutation_p.R161M|CASP8_uc002uxu.1_RNA|CASP8_uc010ftd.1_Intron|CASP8_uc002uxv.1_Missense_Mutation_p.R102M|CASP8_uc002uxw.1_Missense_Mutation_p.R102M|CASP8_uc002uxy.1_Missense_Mutation_p.R102M|CASP8_uc002uxx.1_Missense_Mutation_p.R102M|CASP8_uc010ftf.2_Missense_Mutation_p.R102M	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	102	DED 2.				activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						TCTGCCTACAGGTGGGTGGAA	0.493										HNSCC(4;0.00038)			18	45					2.37509e-13	2.69459e-13	0.010504	1	0		T	202131514	T	T	202131514	3	4	21	1	0	0	0	0	1	0	0	0	2680	1014	35	5	488	5	CASP8	2	202131514	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	847406	202131514	41067859	90	18658											
IHH	3549	broad.mit.edu	37	chr2	219920518	219920518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctgacaaggccacacgcGccccactctccaggcgtacc	8	4	10	19	4	1	1	0	1	1	0	2	1	1	1	5	3	1	2	5	3	2	1	rs142245478		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:219920518G>A	uc002vjo.1	-	3	647	c.647C>T	c.(646-648)GCG>GTG	p.A216V		NM_002181	NP_002172	Q14623	IHH_HUMAN	Indian hedgehog homolog precursor	216					cell-cell signaling|intein-mediated protein splicing|proteolysis	extracellular space|plasma membrane	cholesterol binding|patched binding|peptidase activity			breast(1)	1		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000188)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGCCACACGCGCCCCACTCTC	0.657													19	40					0	0	0.014323	0	0		A	219920518	A	A	219920518	3	1	21	1	0	0	0	0	1	0	0	0	7623	1087	38	1	592	1	IHH	2	219920518	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	17789004	219920518	23278855	91	18659											
SPEG	10290	broad.mit.edu	37	chr2	220344783	220344783	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactccaggagagccccagTactgccagtatggcacacct	10	7	10	14	0	0	2	0	1	0	1	1	3	1	2	5	2	3	3	5	2	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:220344783T>C	uc010fwg.2	+	25	5263	c.5263T>C	c.(5263-5265)TAC>CAC	p.Y1755H		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1755	Protein kinase 1.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		AGAGCCCCAGTACTGCCAGTA	0.592													26	69					0	0	0.004656	0	0		C	220344783	C	C	220344783	3	2	21	1	0	0	0	0	1	0	0	0	15061	1638	57	3	5373	3	SPEG	2	220344783	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	424265	220344783	22854590	92	18660											
OBSL1	23363	broad.mit.edu	37	chr2	220420875	220420875	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatggacaggcgagagtcGtggggcaggggctgcccacc	7	4	18	12	2	0	1	0	0	0	1	1	3	0	2	3	6	1	2	3	6	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:220420875G>A	uc010fwk.2	-	14	4533	c.4476C>T	c.(4474-4476)CAC>CAT	p.H1492H	OBSL1_uc002vmh.1_Silent_p.H391H|OBSL1_uc010zli.1_Silent_p.H299H|OBSL1_uc010fwl.1_Silent_p.H967H	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	1492	Ig-like 12.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		GGCGAGAGTCGTGGGGCAGGG	0.677													10	16					0	0	0.010729	0	0		A	220420875	A	A	220420875	2	1	21	1	0	0	0	0	0	0	0	1	10832	1136	40	1		1	OBSL1	2	220420875	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	76092	220420875	22778498	93	18661											
MOGAT1	116255	broad.mit.edu	37	chr2	223553100	223553100	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcactgtgatgctgatcatAcacaactatttgttccttta	11	16	5	9	0	2	2	2	2	0	0	3	2	3	2	1	0	3	2	1	0	4	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:223553100A>G	uc010fws.1	+	2	180	c.132A>G	c.(130-132)ATA>ATG	p.I44M	MOGAT1_uc010fwt.1_Missense_Mutation_p.I4M	NM_058165	NP_477513	Q96PD6	MOGT1_HUMAN	monoacylglycerol O-acyltransferase 1	44	Helical; (Potential).				glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			breast(1)	1		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;2.06e-07)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0105)		TGCTGATCATACACAACTATT	0.443													4	14					0	0	0.014758	0	0		G	223553100	G	G	223553100	3	3	21	1	0	0	0	0	1	0	0	0	9712	381	14	3	138	3	MOGAT1	2	223553100	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	3132225	223553100	19646273	94	18662											
ANO7	50636	broad.mit.edu	37	chr2	242129505	242129505	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcgacgggcccaggaagaGgacagcaccgtcctgatcga	10	3	15	13	5	0	2	0	1	0	1	2	6	1	4	3	4	1	1	3	4	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr2:242129505G>T	uc002wax.2	+	2	292	c.189G>T	c.(187-189)GAG>GAT	p.E63D	ANO7_uc002waw.2_Missense_Mutation_p.E63D	NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	63	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						CCCAGGAAGAGGACAGCACCG	0.672													6	8					8.12818e-05	8.86251e-05	0.001984	1	0		T	242129505	T	T	242129505	3	4	21	1	0	0	0	0	1	0	0	0	702	991	35	5	195	5	ANO7	2	242129505	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	18576405	242129505	1069868	95	18663											
ITPR1	3708	broad.mit.edu	37	chr3	4706906	4706906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctcggggaccagcggcacGctcctttcagacacatctgc	8	7	11	15	3	2	1	1	0	1	1	4	2	3	2	2	3	3	3	2	3	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:4706906G>A	uc003bqa.2	+	17	1987	c.1639G>A	c.(1639-1641)GCT>ACT	p.A547T	ITPR1_uc010hca.1_Missense_Mutation_p.A532T|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Missense_Mutation_p.A532T	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	547	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		CCAGCGGCACGCTCCTTTCAG	0.527													5	90					0	0	0.001984	0	0		A	4706906	A	A	4706906	3	1	21	1	0	0	0	0	1	0	0	0	7936	1087	38	1	1697	1	ITPR1	3	4706906	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08		4706906	193315524	96	18664											
TATDN2	9797	broad.mit.edu	37	chr3	10312453	10312453	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcagctccttccctaaggaAtttcagggctgcatctctga	9	11	9	12	0	2	1	1	1	1	0	5	2	4	2	2	2	3	4	2	2	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:10312453A>T	uc003bvg.2	+	4	2168	c.1587A>T	c.(1585-1587)GAA>GAT	p.E529D	TATDN2_uc003bvf.2_Missense_Mutation_p.E529D|TATDN2_uc011atr.1_Missense_Mutation_p.E529D|TATDN2_uc011ats.1_RNA|TATDN2_uc011att.1_RNA	NM_014760	NP_055575	Q93075	TATD2_HUMAN	TatD DNase domain containing 2	529						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding			pancreas(2)	2						TCCCTAAGGAATTTCAGGGCT	0.488													66	187					0	0	0.01441	0	0		T	10312453	T	T	10312453	3	4	21	1	0	0	0	0	1	0	0	0	15617	98	4	5	1597	5	TATDN2	3	10312453	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	5605547	10312453	187709977	97	18665											
GHRL	51738	broad.mit.edu	37	chr3	10328491	10328491	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attccaacatcaaagggggcGttgaactaggaggcagggca	13	6	14	8	1	1	1	1	1	0	0	2	2	2	2	1	5	2	3	1	5	4	3	rs149447194	byFrequency	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:10328491G>A	uc010hdf.2	-	4	366	c.231C>T	c.(229-231)AAC>AAT	p.N77N	GHRLOS_uc011atw.1_Intron|GHRLOS_uc011atx.1_Intron|GHRLOS_uc011aty.1_Intron|GHRLOS_uc011atz.1_Intron|GHRLOS_uc011aua.1_Intron|GHRLOS_uc010hdl.2_Intron|GHRLOS_uc011aub.1_Intron|GHRLOS_uc010hdm.2_Intron|GHRLOS_uc011auc.1_Intron|GHRLOS_uc011aud.1_Intron|GHRLOS_uc011aue.1_Intron|GHRLOS_uc011auf.1_Intron|GHRLOS_uc011aug.1_Intron|GHRLOS_uc011auh.1_Intron|GHRLOS_uc011aui.1_Intron|GHRLOS_uc011auj.1_Intron|GHRLOS_uc010hdn.2_Intron|GHRL_uc010hda.1_RNA|GHRL_uc010hdb.1_RNA|GHRL_uc003bvj.1_Intron|GHRL_uc003bvk.3_RNA|GHRL_uc010hdk.2_Silent_p.N64N|GHRL_uc010hdc.2_Silent_p.N26N|GHRL_uc010hdd.2_Intron|GHRL_uc010hde.2_Silent_p.N76N|GHRL_uc010hdi.2_Silent_p.N77N|GHRL_uc010hdh.2_Silent_p.N77N|GHRL_uc010hdj.2_Silent_p.N65N|GHRLOS_uc011auk.1_5'Flank	NM_016362	NP_057446	Q9UBU3	GHRL_HUMAN	ghrelin/obestatin isoform 1 preproprotein	77					actin polymerization or depolymerization|activation of MAPK activity|adult feeding behavior|cartilage development|cortisol secretion|decidualization|dendrite development|elevation of cytosolic calcium ion concentration|G-protein coupled receptor protein signaling pathway|glucose metabolic process|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of angiogenesis|negative regulation of circadian sleep/wake cycle, REM sleep|negative regulation of endothelial cell proliferation|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of circadian sleep/wake cycle, non-REM sleep|positive regulation of corticotropin secretion|positive regulation of cortisol secretion|positive regulation of growth hormone secretion|positive regulation of insulin secretion|positive regulation of synaptogenesis|response to estrogen stimulus	axon|endoplasmic reticulum lumen|extracellular space|stored secretory granule	ghrelin receptor binding|growth hormone-releasing hormone activity|protein tyrosine kinase activator activity			ovary(1)	1						CAAAGGGGGCGTTGAACTAGG	0.587											OREG0015386	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	31					0	0	0.016723	0	0		A	10328491	A	A	10328491	2	1	21	1	0	0	0	0	0	0	0	1	6389	1136	40	1		1	GHRL	3	10328491	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	16038	10328491	187693939	98	18666											
ATP2B2	491	broad.mit.edu	37	chr3	10442673	10442673	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccttgtccacggacttgcGcacctggtcagactctccag	6	10	10	15	2	2	1	1	0	1	1	5	2	4	2	4	2	1	1	4	2	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:10442673G>A	uc003bvt.2	-	5	1184	c.745C>T	c.(745-747)CGC>TGC	p.R249C	ATP2B2_uc003bvv.2_Missense_Mutation_p.R249C|ATP2B2_uc003bvw.2_Missense_Mutation_p.R249C|ATP2B2_uc010hdp.2_Missense_Mutation_p.R249C|ATP2B2_uc010hdo.2_5'UTR	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	249	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						ACGGACTTGCGCACCTGGTCA	0.597													37	85					0	0	0.019004	0	0		A	10442673	A	A	10442673	3	1	21	1	0	0	0	0	1	0	0	0	1141	1087	38	1	3062	1	ATP2B2	3	10442673	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	114182	10442673	187579757	99	18667											
RAF1	5894	broad.mit.edu	37	chr3	12645699	12645699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacattaggtgtggatgtcGacctctgcctctgggagagg	7	10	16	8	1	2	1	0	0	2	1	3	5	2	3	2	5	1	0	2	5	1	1	rs80338796		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:12645699G>A	uc003bxf.3	-	7	1185	c.770C>T	c.(769-771)TCG>TTG	p.S257L	RAF1_uc011aut.1_Missense_Mutation_p.S42L|RAF1_uc011auu.1_Missense_Mutation_p.S175L	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	257			S -> L (in NS5 and LEOPARD2; shows in vitro greater kinase activity and enhanced ERK activation than wild-type).		activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	TGTGGATGTCGACCTCTGCCT	0.527			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				41	143					0	0	0.006999	0	0		A	12645699	A	A	12645699	3	1	21	1	0	0	0	0	1	0	0	0	13027	1059	37	1	1220	1	RAF1	3	12645699	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2203026	12645699	185376731	100	18668											
FBLN2	2199	broad.mit.edu	37	chr3	13679190	13679190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcttccgcattggccccgCgccagccttcacgggggaca	6	8	11	16	4	2	0	1	0	1	0	3	1	3	1	5	3	1	1	5	3	1	4	rs112412824		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:13679190C>T	uc011avb.1	+	17	3451	c.3326C>T	c.(3325-3327)GCG>GTG	p.A1109V	FBLN2_uc011auz.1_Missense_Mutation_p.A1135V|FBLN2_uc011ava.1_Missense_Mutation_p.A1156V|FBLN2_uc011avc.1_Missense_Mutation_p.A1156V	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	1109	Domain III.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			ATTGGCCCCGCGCCAGCCTTC	0.622													15	24					0	0	0.006122	0	0		T	13679190	T	T	13679190	3	4	21	1	0	0	0	0	1	0	0	0	5713	768	27	1	2223	1	FBLN2	3	13679190	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1033491	13679190	184343240	101	18669											
OXSM	54995	broad.mit.edu	37	chr3	25835771	25835771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaggacatctgctgggagCtgcaggggcagtcgaggcag	10	5	17	9	1	1	0	0	0	1	0	2	3	1	2	0	5	4	5	0	5	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:25835771C>T	uc003cdn.2	+	3	1273	c.1166C>T	c.(1165-1167)GCT>GTT	p.A389V	OXSM_uc011awp.1_Missense_Mutation_p.A114V|OXSM_uc010hfh.2_Missense_Mutation_p.A306V	NM_017897	NP_060367	Q9NWU1	OXSM_HUMAN	3-oxoacyl-ACP synthase, mitochondrial isoform 1	389					acyl-CoA metabolic process|medium-chain fatty acid biosynthetic process|short-chain fatty acid biosynthetic process	mitochondrion	3-oxoacyl-[acyl-carrier-protein] synthase activity			ovary(1)|breast(1)	2						CTGCTGGGAGCTGCAGGGGCA	0.443													41	122					0	0	0.01441	0	0		T	25835771	T	T	25835771	3	4	21	1	0	0	0	0	1	0	0	0	11354	797	28	2	1172	2	OXSM	3	25835771	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	12156581	25835771	172186659	102	18670											
SCN11A	11280	broad.mit.edu	37	chr3	38936341	38936341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaaaacaaaaagcccggcGgaatcgatccagtgctaact	16	5	8	12	3	0	0	0	0	0	0	2	2	1	1	2	2	4	1	2	2	6	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:38936341G>A	uc011ays.1	-	15	2717	c.2518C>T	c.(2518-2520)CGC>TGC	p.R840C	SCN11A_uc010hhn.1_5'UTR	NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	840					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	AAAGCCCGGCGGAATCGATCC	0.458													29	39					0	0	0.008361	0	0		A	38936341	A	A	38936341	3	1	21	1	0	0	0	0	1	0	0	0	13938	1116	39	1	2905	1	SCN11A	3	38936341	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	13100570	38936341	159086089	103	18671											
SCN11A	11280	broad.mit.edu	37	chr3	38951623	38951623	+	Frame_Shift_Del	DEL	A	-	-																															atggcaagaaaagaccagccAaagttgtcaaaattcgtata																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:38951623delA	uc011ays.1	-	8	1234	c.1035delT	c.(1033-1035)TTTfs	p.F345fs		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	345	I.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	AAGACCAGCCAAAGTTGTCAA	0.333													33	42	---	---	---	---						.	-	38951623	-	-	38951623	7	5	21	1	0	1	0	1	0	0	0	0	13938	127	5	0	4416	0	SCN11A	3	38951623	Frame_Shift_Del	DEL	A	TCGA-BR-4363-01A-01D-1158-08	15282	38951623	159070807	104	18672											
USP19	10869	broad.mit.edu	37	chr3	49153503	49153503	+	Frame_Shift_Del	DEL	C	-	-																															gtgcagccggggcctccaggCccccccagcgctgactctgc																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:49153503delC	uc003cwd.1	-	9	1306	c.1145delG	c.(1144-1146)GGCfs	p.G382fs	USP19_uc003cwa.2_Frame_Shift_Del_p.G188fs|USP19_uc003cvz.3_Frame_Shift_Del_p.G483fs|USP19_uc011bcg.1_Frame_Shift_Del_p.G473fs|USP19_uc003cwb.2_Frame_Shift_Del_p.G468fs|USP19_uc003cwc.1_Frame_Shift_Del_p.G138fs|USP19_uc011bch.1_Frame_Shift_Del_p.G483fs|USP19_uc011bci.1_Frame_Shift_Del_p.G468fs	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	382	CS 2.|Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GGCCTCCAGGCCCCCCCAGCG	0.602													15	25	---	---	---	---						.	-	49153503	-	-	49153503	7	5	21	1	0	1	0	1	0	0	0	0	17076	739	26	0	2883	0	USP19	3	49153503	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08	10201880	49153503	148868927	105	18673											
DAG1	1605	broad.mit.edu	37	chr3	49568688	49568688	+	Frame_Shift_Del	DEL	A	-	-																															atggctggcccgggaaatgcAaaaaaggtggtggagaatgg																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:49568688delA	uc003cxc.3	+	3	1162	c.744delA	c.(742-744)GCAfs	p.A248fs		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	248	Required for laminin recognition.			A -> P (in Ref. 1; AAA81779).	cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		CGGGAAATGCAAAAAAGGTGG	0.527													21	18	---	---	---	---						.	-	49568688	-	-	49568688	7	5	21	1	0	1	0	1	0	0	0	0	4228	117	5	0	750	0	DAG1	3	49568688	Frame_Shift_Del	DEL	A	TCGA-BR-4363-01A-01D-1158-08	415185	49568688	148453742	106	18674											
DAG1	1605	broad.mit.edu	37	chr3	49568877	49568877	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctcttcccaaacgcgtccgGaggcagatccatgctacacc	9	7	8	17	3	1	1	0	0	1	1	4	2	4	2	5	2	3	2	5	2	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:49568877G>A	uc003cxc.3	+	3	1351	c.933G>A	c.(931-933)CGG>CGA	p.R311R		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	311	Required for laminin recognition.				cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		AACGCGTCCGGAGGCAGATCC	0.627													5	85					0	0	0.014758	0	0		A	49568877	A	A	49568877	2	1	21	1	0	0	0	0	0	0	0	1	4228	1161	41	4		4	DAG1	3	49568877	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	189	49568877	148453553	107	18675											
HYAL3	8372	broad.mit.edu	37	chr3	50332546	50332546	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccttgtagagctgctccTgagggtccaggtcagggaat	8	9	15	9	0	1	2	1	1	0	1	3	3	3	3	3	4	2	3	3	4	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:50332546T>G	uc003czd.1	-	2	761	c.488A>C	c.(487-489)CAG>CCG	p.Q163P	HYAL3_uc003czc.1_Missense_Mutation_p.Q163P|HYAL3_uc003cze.1_Intron|HYAL3_uc003czf.1_Intron|HYAL3_uc003czg.1_Missense_Mutation_p.Q163P	NM_003549	NP_003540	O43820	HYAL3_HUMAN	hyaluronoglucosaminidase 3 precursor	163					carbohydrate metabolic process	extracellular region|lysosome	hyalurononglucosaminidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GAGCTGCTCCTGAGGGTCCAG	0.642													22	44					0	0	0.016522	0	0		G	50332546	G	G	50332546	3	3	21	1	0	0	0	0	1	0	0	0	7481	1580	55	5	777	5	HYAL3	3	50332546	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	763669	50332546	147689884	108	18676											
TLR9	54106	broad.mit.edu	37	chr3	52257641	52257641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcgccagtttgacgatgcGgttgtaggacaacagcagat	11	8	14	8	3	0	2	0	1	0	1	0	4	0	3	1	3	3	4	1	3	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:52257641G>A	uc003dda.1	-	2	1325	c.691C>T	c.(691-693)CGC>TGC	p.R231C	TLR9_uc003ddb.2_Missense_Mutation_p.R328C	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	231	LRR 7.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	TTGACGATGCGGTTGTAGGAC	0.617													13	17					0	0	0.013537	0	0		A	52257641	A	A	52257641	3	1	21	1	0	0	0	0	1	0	0	0	15983	1116	39	1	2411	1	TLR9	3	52257641	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1925095	52257641	145764789	109	18677											
BAP1	8314	broad.mit.edu	37	chr3	52440912	52440912	+	Frame_Shift_Del	DEL	C	-	-																															gtctgtccactcctcgtcctCcccccagggccctagtggag																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:52440912delC	uc003ddx.2	-	8	707	c.592delG	c.(592-594)GAGfs	p.E198fs	BAP1_uc010hmh.2_5'Flank	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	198					monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		TCCTCGTCCTCCCCCCAGGGC	0.607			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								5	5	---	---	---	---						.	-	52440912	-	-	52440912	7	5	21	1	0	1	0	1	0	0	0	0	1312	864	30	0	1637	0	BAP1	3	52440912	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08	183271	52440912	145581518	110	18678											
DNAH12	201625	broad.mit.edu	37	chr3	57493550	57493550	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttcagtgattcacagtcAattggacctttagctctatt	9	17	7	8	0	4	1	3	1	1	0	4	2	4	2	1	1	1	2	1	1	3	8			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:57493550A>G	uc003dit.2	-	8	898	c.717T>C	c.(715-717)ATT>ATC	p.I239I	DNAH12_uc003diu.2_Silent_p.I239I	NM_178504	NP_848599	Q6ZR08	DYH12_HUMAN	dynein heavy chain domain 2 isoform 1	239	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			pancreas(1)|skin(1)	2						ATTCACAGTCAATTGGACCTT	0.284													19	56					0	0	0.006122	0	0		G	57493550	G	G	57493550	2	3	21	1	0	0	0	0	0	0	0	1	4606	126	5	3		3	DNAH12	3	57493550	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	5052638	57493550	140528880	111	18679											
NFKBIZ	64332	broad.mit.edu	37	chr3	101574616	101574616	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagtcatagcccacaatgCtgtggtccatgaactccaga	11	9	9	12	0	1	2	1	1	0	1	3	2	3	2	3	1	4	2	3	1	3	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:101574616C>A	uc003dvp.2	+	9	1809	c.1694C>A	c.(1693-1695)GCT>GAT	p.A565D	NFKBIZ_uc003dvo.2_Missense_Mutation_p.A465D|NFKBIZ_uc010hpo.2_Missense_Mutation_p.A465D|NFKBIZ_uc003dvq.2_Missense_Mutation_p.A443D	NM_031419	NP_113607	Q9BYH8	IKBZ_HUMAN	nuclear factor of kappa light polypeptide gene	565	Interaction with NFKB1/p50 (By similarity).|ANK 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(2)	2						GCCCACAATGCTGTGGTCCAT	0.448													6	99					0.00198382	0.00213642	0.001984	1	0		A	101574616	A	A	101574616	3	1	21	1	0	0	0	0	1	0	0	0	10402	797	28	5	1728	5	NFKBIZ	3	101574616	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	44081066	101574616	96447814	112	18680											
GUCA1C	9626	broad.mit.edu	37	chr3	108634981	108634981	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagctccattaccatcattGtttatatcgatcttatggaa	11	16	6	8	1	2	0	1	0	1	0	4	2	3	1	2	1	2	3	2	1	6	7			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:108634981G>A	uc003dxj.2	-	3	503	c.435C>T	c.(433-435)AAC>AAT	p.N145N	GUCA1C_uc003dxk.2_Silent_p.N145N	NM_005459	NP_005450	O95843	GUC1C_HUMAN	guanylate cyclase activator 1C	145	3.|EF-hand 4.				signal transduction|visual perception		calcium ion binding|calcium sensitive guanylate cyclase activator activity				0						TACCATCATTGTTTATATCGA	0.418													52	95					0	0	0.01441	0	0		A	108634981	A	A	108634981	2	1	21	1	0	0	0	0	0	0	0	1	6906	1368	48	4		4	GUCA1C	3	108634981	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	7060365	108634981	89387449	113	18681											
TMPRSS7	344805	broad.mit.edu	37	chr3	111766802	111766802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttttgcccatccggagcaGcatcttgtacaggtacgatg	8	11	10	12	2	1	0	0	0	1	0	2	2	2	1	3	2	5	4	3	2	2	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:111766802G>A	uc010hqb.2	+	5	739	c.569G>A	c.(568-570)AGC>AAC	p.S190N	TMPRSS7_uc011bhr.1_Missense_Mutation_p.S45N	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	316	Extracellular (Potential).|CUB 1.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						ATCCGGAGCAGCATCTTGTAC	0.443													36	71					0	0	0.021022	0	0		A	111766802	A	A	111766802	3	1	21	1	0	0	0	0	1	0	0	0	16277	971	34	2	583	2	TMPRSS7	3	111766802	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	3131821	111766802	86255628	114	18682											
C3orf15	89876	broad.mit.edu	37	chr3	119459550	119459550	+	Frame_Shift_Del	DEL	T	-	-																															gcatgagcacaaggttttccTttttttgttttcttgttact																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:119459550delT	uc010hqy.1	+	13	1765	c.1688delT	c.(1687-1689)CTTfs	p.L563fs	C3orf15_uc003ede.3_Intron|C3orf15_uc010hqz.2_Intron|C3orf15_uc011bjd.1_Intron|C3orf15_uc011bje.1_Intron|C3orf15_uc010hra.1_Frame_Shift_Del_p.L324fs	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	399	Potential.					mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		AAGGTTTTCCTTTTTTTGTTT	0.363													9	20	---	---	---	---						.	-	119459550	-	-	119459550	7	5	21	1	0	1	0	1	0	0	0	0	2212	1624	56	0		0	C3orf15	3	119459550	Frame_Shift_Del	DEL	T	TCGA-BR-4363-01A-01D-1158-08	7692748	119459550	78562880	115	18683											
CASR	846	broad.mit.edu	37	chr3	121981056	121981056	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacagctcgacagccttcCgacccctctgtacaggggat	9	7	10	15	2	1	0	0	0	1	0	3	3	2	1	4	2	4	3	4	2	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:121981056C>T	uc003eev.3	+	4	1546	c.1174C>T	c.(1174-1176)CGA>TGA	p.R392*	CASR_uc003eew.3_Nonsense_Mutation_p.R392*	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	392	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	GACAGCCTTCCGACCCCTCTG	0.493													26	65					0	0	0.004656	0	0		T	121981056	T	T	121981056	4	4	21	1	0	0	0	0	0	1	0	0	2685	644	23	1	1184	1	CASR	3	121981056	Nonsense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2521506	121981056	76041374	116	18684											
HEG1	57493	broad.mit.edu	37	chr3	124732092	124732092	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggggtgctctggctcttaagGtctgcagtttgactactatg	6	14	13	8	0	3	1	0	1	3	0	3	1	3	1	0	4	3	4	0	4	3	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:124732092G>A	uc003ehs.3	-	6	2399	c.2331C>T	c.(2329-2331)GAC>GAT	p.D777D	HEG1_uc011bke.1_Silent_p.D877D	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	777	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						GGCTCTTAAGGTCTGCAGTTT	0.488													80	187					0	0	0.01441	0	0		A	124732092	A	A	124732092	2	1	21	1	0	0	0	0	0	0	0	1	7060	1252	44	4		4	HEG1	3	124732092	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2751036	124732092	73290338	117	18685											
KY	339855	broad.mit.edu	37	chr3	134348463	134348463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtacctgtgtcatacatacGtttagccaaggagaacttct	12	12	8	9	1	2	1	1	0	1	1	2	2	2	1	2	1	5	2	2	1	6	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:134348463G>A	uc010hty.2	-	4	399	c.337C>T	c.(337-339)CGT>TGT	p.R113C	KY_uc011blw.1_Missense_Mutation_p.R113C|KY_uc011blx.1_Missense_Mutation_p.R92C|KY_uc003eqs.1_Missense_Mutation_p.R133C	NM_178554	NP_848649	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase	113						cytoskeleton|Z disc	peptidase activity			ovary(2)	2						TCATACATACGTTTAGCCAAG	0.532													4	9					0	0	0.009096	0	0		A	134348463	A	A	134348463	3	1	21	1	0	0	0	0	1	0	0	0	8602	1159	40	1	1680	1	KY	3	134348463	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	9616371	134348463	63673967	118	18686											
EPHB1	2047	broad.mit.edu	37	chr3	134960059	134960059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaagttcacttcagccagcGacgtttggagctatgggatc	9	10	12	10	2	2	0	2	0	0	0	3	3	2	2	1	2	3	4	1	2	2	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:134960059G>A	uc003eqt.2	+	13	2636	c.2416G>A	c.(2416-2418)GAC>AAC	p.D806N	EPHB1_uc003equ.2_Missense_Mutation_p.D367N	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	806	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						TTCAGCCAGCGACGTTTGGAG	0.527													98	224					0	0	0.01441	0	0		A	134960059	A	A	134960059	3	1	21	1	0	0	0	0	1	0	0	0	5182	1058	37	1	2466	1	EPHB1	3	134960059	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	611596	134960059	63062371	119	18687											
PLSCR5	389158	broad.mit.edu	37	chr3	146307501	146307501	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctagatctgcaggaacaTgaattccgaaattgtcagca	14	10	8	9	1	3	2	1	1	2	1	4	4	4	3	1	1	3	2	1	1	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:146307501T>C	uc003ewb.2	-	6	1720	c.716A>G	c.(715-717)CAT>CGT	p.H239R	PLSCR5_uc010hvb.2_Missense_Mutation_p.H227R|PLSCR5_uc010hvc.2_Missense_Mutation_p.H239R	NM_001085420	NP_001078889	A0PG75	PLS5_HUMAN	phospholipid scramblase family, member 5	239											0						TGCAGGAACATGAATTCCGAA	0.373													34	88					0	0	0.021022	0	0		C	146307501	C	C	146307501	3	2	21	1	0	0	0	0	1	0	0	0	12132	1464	51	3	107	3	PLSCR5	3	146307501	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	11347442	146307501	51714929	120	18688											
ZIC1	7545	broad.mit.edu	37	chr3	147128660	147128660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccatgcacgagctagttaCgcacgtcaccgtggagcacg	10	6	11	14	5	1	0	1	0	0	0	1	2	1	1	2	1	4	5	2	1	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:147128660C>T	uc003ewe.2	+	1	1480	c.761C>T	c.(760-762)ACG>ATG	p.T254M		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	254	C2H2-type 1; atypical.				behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GAGCTAGTTACGCACGTCACC	0.557													25	75					0	0	0.005443	0	0		T	147128660	T	T	147128660	3	4	21	1	0	0	0	0	1	0	0	0	17703	536	19	1	763	1	ZIC1	3	147128660	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	821159	147128660	50893770	121	18689											
MED12L	116931	broad.mit.edu	37	chr3	150845627	150845627	+	Frame_Shift_Del	DEL	A	-	-																															tttaggttcctatccttagtAaaaaagaggatgtttttgca																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:150845627delA	uc003eyp.2	+	4	450	c.412delA	c.(412-414)AAAfs	p.K138fs	MED12L_uc011bnz.1_Frame_Shift_Del_p.K138fs|MED12L_uc003eym.1_Frame_Shift_Del_p.K138fs|MED12L_uc003eyn.2_Frame_Shift_Del_p.K138fs|MED12L_uc003eyo.2_Frame_Shift_Del_p.K138fs	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	138					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TATCCTTAGTAAAAAAGAGGA	0.333													21	38	---	---	---	---						.	-	150845627	-	-	150845627	7	5	21	1	0	1	0	1	0	0	0	0	9447	363	13	0	426	0	MED12L	3	150845627	Frame_Shift_Del	DEL	A	TCGA-BR-4363-01A-01D-1158-08	3716967	150845627	47176803	122	18690											
MED12L	116931	broad.mit.edu	37	chr3	151093846	151093846	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcattgcttaaaagaaccTgaaagattatgtacagacaa	18	9	8	6	0	0	4	0	1	0	3	0	5	0	4	1	0	4	3	1	0	7	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:151093846T>C	uc003eyp.2	+	26	3830	c.3792T>C	c.(3790-3792)CCT>CCC	p.P1264P	MED12L_uc011bnz.1_Silent_p.P1124P|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Silent_p.P427P	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1264					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TAAAAGAACCTGAAAGATTAT	0.353													33	83					0	0	0.019004	0	0		C	151093846	C	C	151093846	2	2	21	1	0	0	0	0	0	0	0	1	9447	1567	55	3		3	MED12L	3	151093846	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	248219	151093846	46928584	123	18691											
PLCH1	23007	broad.mit.edu	37	chr3	155206450	155206450	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggccagctcatacctaccAggcactaagctgctgaaggt	12	7	10	12	0	1	1	1	1	0	0	1	1	1	1	3	3	5	4	3	3	5	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:155206450A>G	uc011bok.1	-	19	2779	c.2502T>C	c.(2500-2502)CCT>CCC	p.P834P	PLCH1_uc011boj.1_Silent_p.P834P|PLCH1_uc011bol.1_Silent_p.P816P	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	834					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CATACCTACCAGGCACTAAGC	0.418													12	59					0	0	0.020292	0	0		G	155206450	G	G	155206450	2	3	21	1	0	0	0	0	0	0	0	1	12056	202	7	3		3	PLCH1	3	155206450	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	4112604	155206450	42815980	124	18692											
SERPINI1	5274	broad.mit.edu	37	chr3	167540780	167540780	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctctttttgcagataataAggagatttttctttccaaag	11	18	6	6	0	2	2	0	0	2	2	4	3	3	2	1	1	1	1	1	1	3	8			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:167540780A>G	uc003ffa.3	+	7	1184	c.986A>G	c.(985-987)AAG>AGG	p.K329R	SERPINI1_uc003ffb.3_Missense_Mutation_p.K329R	NM_001122752	NP_001116224	Q99574	NEUS_HUMAN	neuroserpin precursor	329					central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1						GCAGATAATAAGGAGATTTTT	0.338													3	122					0	0	0.004672	0	0		G	167540780	G	G	167540780	3	3	21	1	0	0	0	0	1	0	0	0	14143	72	3	3	1008	3	SERPINI1	3	167540780	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	12334330	167540780	30481650	125	18693											
LRRC31	79782	broad.mit.edu	37	chr3	169572662	169572662	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatctaggacttgtagatgCtttagcatgaccaactgagc	12	11	10	8	0	1	4	0	2	1	2	1	5	1	5	1	1	4	3	1	1	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:169572662C>A	uc003fgc.1	-	6	1007	c.930G>T	c.(928-930)AAG>AAT	p.K310N	LRRC31_uc010hwp.1_Missense_Mutation_p.K254N	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	310										ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			CTTGTAGATGCTTTAGCATGA	0.428													6	138					5.4927e-09	6.08369e-09	0.004482	1	0		A	169572662	A	A	169572662	3	1	21	1	0	0	0	0	1	0	0	0	9004	796	28	5	744	5	LRRC31	3	169572662	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2031882	169572662	28449768	126	18694											
IGF2BP2	10644	broad.mit.edu	37	chr3	185407313	185407313	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagagtggtccccacgctgGgctcgctgagggggcgaagg	7	5	19	10	3	0	2	0	1	0	1	2	4	1	2	2	5	0	3	2	5	2	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr3:185407313G>T	uc003fpo.2	-	6	586	c.507C>A	c.(505-507)GCC>GCA	p.A169A	IGF2BP2_uc010hyi.2_Silent_p.A112A|IGF2BP2_uc010hyj.2_Silent_p.A106A|IGF2BP2_uc010hyk.2_Silent_p.A33A|IGF2BP2_uc010hyl.2_Silent_p.A106A|IGF2BP2_uc003fpp.2_Silent_p.A169A|IGF2BP2_uc003fpq.2_Silent_p.A174A	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	169					anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			CCCCACGCTGGGCTCGCTGAG	0.612													10	148					0.00621372	0.00668142	0.006214	1	0		T	185407313	T	T	185407313	2	4	21	1	0	0	0	0	0	0	0	1	7590	1219	43	5		5	IGF2BP2	3	185407313	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	15834651	185407313	12615117	127	18695											
HTT	3064	broad.mit.edu	37	chr4	3136230	3136230	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctattggctggtgaggAcagagcttctggaaaccctt	8	12	12	9	0	1	2	0	1	1	1	2	4	2	4	2	4	2	3	2	4	2	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:3136230A>G	uc011bvq.1	+	20	2747	c.2602A>G	c.(2602-2604)ACA>GCA	p.T868A		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	866					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GCTGGTGAGGACAGAGCTTCT	0.463													6	140					0	0	0.004007	0	0		G	3136230	G	G	3136230	3	3	21	1	0	0	0	0	1	0	0	0	7473	275	10	3	2670	3	HTT	4	3136230	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08		3136230	188018046	128	18696											
TADA2B	93624	broad.mit.edu	37	chr4	7056038	7056038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccgctgcgggatgattacGagatcgagtatgaccaggat	10	9	14	8	4	0	3	0	2	0	1	1	7	0	5	2	2	3	2	2	2	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:7056038G>A	uc003gjw.3	+	2	671	c.520G>A	c.(520-522)GAG>AAG	p.E174K	TADA2B_uc010idi.2_Missense_Mutation_p.E99K	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	174					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0						GGATGATTACGAGATCGAGTA	0.627													8	20					0	0	0.004482	0	0		A	7056038	A	A	7056038	3	1	21	1	0	0	0	0	1	0	0	0	15536	1059	37	1	526	1	TADA2B	4	7056038	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	3919808	7056038	184098238	129	18697											
SRP72	6731	broad.mit.edu	37	chr4	57354156	57354156	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taatattgagaagcatagagGagttaaagcataaaccaggc	18	8	10	5	0	0	2	0	1	0	2	0	4	0	3	1	2	3	3	1	2	8	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:57354156G>T	uc003hbv.2	+	12	1241	c.1201G>T	c.(1201-1203)GAG>TAG	p.E401*	SRP72_uc010ihe.2_Nonsense_Mutation_p.E340*|SRP72_uc003hbw.1_Nonsense_Mutation_p.E162*	NM_006947	NP_008878	O76094	SRP72_HUMAN	signal recognition particle 72kDa	401					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|nucleolus|plasma membrane|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding			ovary(1)	1	Glioma(25;0.08)|all_neural(26;0.101)					AAGCATAGAGGAGTTAAAGCA	0.259													13	22					7.93312e-07	8.73142e-07	0.020292	1	0		T	57354156	T	T	57354156	4	4	21	1	0	0	0	0	0	1	0	0	15182	1175	41	5	1247	5	SRP72	4	57354156	Nonsense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	50298118	57354156	133800120	130	18698											
REST	5978	broad.mit.edu	37	chr4	57797557	57797557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaagttggcttagtgcctGttaaagatagctggcttcta	9	15	11	6	0	1	2	0	1	1	1	1	2	1	2	1	2	2	5	1	2	6	7			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:57797557G>A	uc003hch.2	+	4	2880	c.2533G>A	c.(2533-2535)GTT>ATT	p.V845I	REST_uc003hci.2_Missense_Mutation_p.V845I|REST_uc010ihf.2_Missense_Mutation_p.V519I	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	845					cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					CTTAGTGCCTGTTAAAGATAG	0.443													114	229					0	0	0.01441	0	0		A	57797557	A	A	57797557	3	1	21	1	0	0	0	0	1	0	0	0	13259	1377	48	4	2543	4	REST	4	57797557	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	443401	57797557	133356719	131	18699											
ANKRD17	26057	broad.mit.edu	37	chr4	74005551	74005551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatccacttgctgtaaccGtgcatagtctccctcagaaa	11	10	8	12	1	2	1	1	0	1	1	4	2	3	2	3	1	3	3	3	1	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:74005551G>A	uc003hgp.2	-	15	2899	c.2782C>T	c.(2782-2784)CGG>TGG	p.R928W	ANKRD17_uc003hgo.2_Missense_Mutation_p.R815W|ANKRD17_uc003hgq.2_Intron|ANKRD17_uc003hgr.2_Missense_Mutation_p.R928W|ANKRD17_uc011cbd.1_Missense_Mutation_p.R493W	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	928	Gln-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TGCTGTAACCGTGCATAGTCT	0.498													46	109					0	0	0.011902	0	0		A	74005551	A	A	74005551	3	1	21	1	0	0	0	0	1	0	0	0	646	1144	40	1	5109	1	ANKRD17	4	74005551	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	16207994	74005551	117148725	132	18700											
HELQ	113510	broad.mit.edu	37	chr4	84370031	84370031	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaatctcagccacgagggTttttccaccacttgttggca	10	12	8	11	1	1	0	1	0	1	0	3	1	2	0	3	2	1	3	3	2	2	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:84370031T>G	uc003hom.2	-	3	1275	c.1096A>C	c.(1096-1098)ACC>CCC	p.T366P	HELQ_uc010ikb.2_Missense_Mutation_p.T366P|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA|HELQ_uc003hon.1_Missense_Mutation_p.T260P	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	366	ATP (By similarity).|Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						GCCACGAGGGTTTTTCCACCA	0.353								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					36	76					0	0	0.017118	0	0		G	84370031	G	G	84370031	3	3	21	1	0	0	0	0	1	0	0	0	7063	1725	60	5	2273	5	HELQ	4	84370031	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	10364480	84370031	106784245	133	18701											
NKX6-1	4825	broad.mit.edu	37	chr4	85414492	85414492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtaggaggccgccgccgcCgccgctgctggacttgtgct	4	7	15	15	5	0	0	0	0	0	0	0	2	0	2	5	3	2	4	5	3	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:85414492C>T	uc003hpa.1	-	3	1060	c.1054G>A	c.(1054-1056)GGC>AGC	p.G352S		NM_006168	NP_006159	P78426	NKX61_HUMAN	NK6 transcription factor related, locus 1	352	Poly-Gly.|Involved in DNA-binding (By similarity).				detection of glucose|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|type B pancreatic cell maturation	nucleus					0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.0013)		CCGCCGCCGCCGCCGCTGCTG	0.657													25	36					0	0	0.008361	0	0		T	85414492	T	T	85414492	3	4	21	1	0	0	0	0	1	0	0	0	10476	652	23	1	53	1	NKX6-1	4	85414492	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1044461	85414492	105739784	134	18702											
SPARCL1	8404	broad.mit.edu	37	chr4	88414917	88414917	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcagtgccgccatcatcGccatcatcatcgccatcatc	9	9	5	18	3	5	0	5	0	0	0	8	0	5	0	5	0	1	0	5	0	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:88414917G>A	uc010ikm.2	-	5	1607	c.1035C>T	c.(1033-1035)GGC>GGT	p.G345G	SPARCL1_uc011cdc.1_Silent_p.G220G|SPARCL1_uc003hqs.3_Silent_p.G345G|SPARCL1_uc011cdd.1_Silent_p.G220G|SPARCL1_uc003hqt.2_Silent_p.G345G	NM_001128310	NP_001121782	Q14515	SPRL1_HUMAN	SPARC-like 1 precursor	345					signal transduction	extracellular space|proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00118)		CGCcatcatcgccatcatcat	0.438													50	84					0	0	0.01441	0	0		A	88414917	A	A	88414917	2	1	21	1	0	0	0	0	0	0	0	1	15021	1074	38	1		1	SPARCL1	4	88414917	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	3000425	88414917	102739359	135	18703											
DMP1	1758	broad.mit.edu	37	chr4	88583274	88583274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagtggagatgacacctttgGtgacgatgacagtggcccag	10	8	14	9	1	0	4	0	3	0	1	0	6	0	4	2	3	0	0	2	3	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:88583274G>A	uc003hqv.2	+	6	448	c.344G>A	c.(343-345)GGT>GAT	p.G115D	DMP1_uc003hqw.2_Missense_Mutation_p.G99D	NM_004407	NP_004398	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1 isoform 1	115					biomineral tissue development|ossification	cytoplasm|nucleus|proteinaceous extracellular matrix	calcium ion binding|integrin binding			pancreas(1)|skin(1)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)		GACACCTTTGGTGACGATGAC	0.488													30	39					0	0	0.007291	0	0		A	88583274	A	A	88583274	3	1	21	1	0	0	0	0	1	0	0	0	4589	1261	44	4	362	4	DMP1	4	88583274	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	168357	88583274	102571002	136	18704											
RG9MTD2	93587	broad.mit.edu	37	chr4	100479282	100479282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaacatctcttcgaacaCgttttctgtcatgtccatct	10	14	5	12	2	4	0	1	0	3	0	7	2	5	0	1	0	3	1	1	0	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:100479282C>T	uc003huy.2	-	3	585	c.272G>A	c.(271-273)CGT>CAT	p.R91H	RG9MTD2_uc003huz.3_Missense_Mutation_p.R91H|RG9MTD2_uc003hva.3_Missense_Mutation_p.R91H	NM_152292	NP_689505	Q8TBZ6	RG9D2_HUMAN	RNA (guanine-9-) methyltransferase domain	91							methyltransferase activity			ovary(2)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;1.7e-08)		TCTTCGAACACGTTTTCTGTC	0.348													20	33					0	0	0.012319	0	0		T	100479282	T	T	100479282	3	4	21	1	0	0	0	0	1	0	0	0	13297	536	19	1	771	1	RG9MTD2	4	100479282	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	11896008	100479282	90674994	137	18705											
CFI	3426	broad.mit.edu	37	chr4	110681532	110681532	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caatggaagcctttgccttgGcatgctgtgcaaacataagc	11	10	10	10	0	0	0	0	0	0	0	0	1	0	1	2	2	6	3	2	2	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:110681532G>A	uc003hzr.3	-	6	985	c.777C>T	c.(775-777)TGC>TGT	p.C259C	CFI_uc003hzq.2_Silent_p.C56C|CFI_uc011cft.1_Silent_p.C259C|CFI_uc003hzs.3_Silent_p.C259C	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	259	LDL-receptor class A 2.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		CTTTGCCTTGGCATGCTGTGC	0.403													12	102					0	0	0.013537	0	0		A	110681532	A	A	110681532	2	1	21	1	0	0	0	0	0	0	0	1	3292	1195	42	2		2	CFI	4	110681532	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	10202250	110681532	80472744	138	18706											
QRFPR	84109	broad.mit.edu	37	chr4	122257967	122257967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaactggagtctacctcaaGttgttgcacgtgccacatgg	9	11	10	11	1	3	0	2	0	1	0	3	1	3	1	2	2	4	3	2	2	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:122257967G>A	uc010inj.1	-	3	935	c.556C>T	c.(556-558)CTT>TTT	p.L186F	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Missense_Mutation_p.L186F	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	186	Extracellular (Potential).					plasma membrane	neuropeptide Y receptor activity				0						TCTACCTCAAGTTGTTGCACG	0.418													113	320					0	0	0.01441	0	0		A	122257967	A	A	122257967	3	1	21	1	0	0	0	0	1	0	0	0	12903	1029	36	4	755	4	QRFPR	4	122257967	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	11576435	122257967	68896309	139	18707											
ANXA5	308	broad.mit.edu	37	chr4	122602903	122602903	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctgtcagtactttttcaTttgttccagctccctgtttg	4	21	6	10	0	3	0	2	0	1	0	5	0	5	0	2	0	2	4	2	0	1	7			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:122602903T>C	uc003idu.3	-	5	387	c.317A>G	c.(316-318)AAT>AGT	p.N106S	ANXA5_uc003idv.3_Missense_Mutation_p.N106S|ANXA5_uc003idw.3_RNA|ANXA5_uc010inm.2_Missense_Mutation_p.N106S|ANXA5_uc010inn.2_Missense_Mutation_p.N46S|ANXA5_uc010ino.2_Intron	NM_001154	NP_001145	P08758	ANXA5_HUMAN	annexin 5	106	Annexin 2.				anti-apoptosis|blood coagulation|negative regulation of coagulation|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity			ovary(1)	1						TACTTTTTCATTTGTTCCAGC	0.308													39	111					0	0	0.009718	0	0		C	122602903	C	C	122602903	3	2	21	1	0	0	0	0	1	0	0	0	721	1493	52	3	677	3	ANXA5	4	122602903	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	344936	122602903	68551373	140	18708											
KIAA1109	84162	broad.mit.edu	37	chr4	123192637	123192637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaataacaaaaaggaatctcGaaacaagaattcattaggaa	22	7	7	5	1	2	1	1	0	1	1	3	5	2	3	0	2	2	0	0	2	10	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:123192637G>A	uc003ieh.2	+	45	8003	c.7958G>A	c.(7957-7959)CGA>CAA	p.R2653Q	KIAA1109_uc003iel.1_Missense_Mutation_p.R588Q|KIAA1109_uc003iek.2_Missense_Mutation_p.R1272Q	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2653					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAGGAATCTCGAAACAAGAAT	0.368													16	62					0	0	0.003163	0	0		A	123192637	A	A	123192637	3	1	21	1	0	0	0	0	1	0	0	0	8224	1058	37	1	8136	1	KIAA1109	4	123192637	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	589734	123192637	67961639	141	18709											
INPP4B	8821	broad.mit.edu	37	chr4	143094842	143094842	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggagaatgctggcttgcAgaattaagcagtaggtctgc	10	11	13	7	0	2	2	0	0	2	2	2	3	2	2	0	3	4	5	0	3	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:143094842A>G	uc003iix.3	-	17	1897	c.1302T>C	c.(1300-1302)TCT>TCC	p.S434S	INPP4B_uc003iiw.3_Silent_p.S434S|INPP4B_uc011chm.1_RNA|INPP4B_uc011chn.1_Silent_p.S249S|INPP4B_uc011cho.1_RNA|INPP4B_uc011chp.1_Silent_p.S305S	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	434					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					GCTGGCTTGCAGAATTAAGCA	0.383													38	98					0	0	0.006999	0	0		G	143094842	G	G	143094842	2	3	21	1	0	0	0	0	0	0	0	1	7769	175	7	3		3	INPP4B	4	143094842	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	19902205	143094842	48059434	142	18710											
NR3C2	4306	broad.mit.edu	37	chr4	149356493	149356493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatagcagaggaagggatgCtggcctctgggtaatagctc	11	8	14	8	0	1	1	0	0	1	1	2	3	1	3	1	4	3	4	1	4	5	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:149356493C>T	uc003ilj.3	-	2	1854	c.1520G>A	c.(1519-1521)AGC>AAC	p.S507N	NR3C2_uc003ilk.3_Missense_Mutation_p.S507N|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	507	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	GGAAGGGATGCTGGCCTCTGG	0.502													32	76					0	0	0.021022	0	0		T	149356493	T	T	149356493	3	4	21	1	0	0	0	0	1	0	0	0	10650	797	28	2	1466	2	NR3C2	4	149356493	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	6261651	149356493	41797783	143	18711											
RBM46	166863	broad.mit.edu	37	chr4	155720669	155720669	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacaaactctgtactacgtTagaagatgcaaaggaactgg	16	8	10	7	1	1	3	0	0	1	3	1	4	1	4	0	2	5	3	0	2	7	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:155720669T>C	uc003ioo.2	+	4	1528	c.1355T>C	c.(1354-1356)TTA>TCA	p.L452S	RBM46_uc011cim.1_Missense_Mutation_p.L452S|RBM46_uc003iop.1_Missense_Mutation_p.L452S	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	452							nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				TGTACTACGTTAGAAGATGCA	0.348													8	24					0	0	0.00308	0	0		C	155720669	C	C	155720669	3	2	21	1	0	0	0	0	1	0	0	0	13165	1764	61	3	1365	3	RBM46	4	155720669	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	6364176	155720669	35433607	144	18712											
CPE	1363	broad.mit.edu	37	chr4	166388881	166388881	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgtgggtcgaagcaatgcCcagggaatagatctgaaccg	11	9	13	8	2	1	2	0	1	1	1	2	4	1	3	2	2	3	1	2	2	5	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:166388881C>T	uc003irg.3	+	3	823	c.546C>T	c.(544-546)GCC>GCT	p.A182A		NM_001873	NP_001864	P16870	CBPE_HUMAN	carboxypeptidase E preproprotein	182					cardiac left ventricle morphogenesis|neuropeptide signaling pathway|protein modification process	extracellular region|nucleus|plasma membrane	metallocarboxypeptidase activity|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0962)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.137)	Glucagon recombinant(DB00040)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GAAGCAATGCCCAGGGAATAG	0.378													37	81					0	0	0.006999	0	0		T	166388881	T	T	166388881	2	4	21	1	0	0	0	0	0	0	0	1	3802	610	22	4		4	CPE	4	166388881	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	10668212	166388881	24765395	145	18713											
KIAA1712	80817	broad.mit.edu	37	chr4	175220290	175220290	+	Frame_Shift_Del	DEL	A	-	-																															gtaatggcaacaggtgacttAaaaagaagcttacggaacct																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:175220290delA	uc003itr.2	+	3	432	c.18delA	c.(16-18)TTAfs	p.L6fs	KIAA1712_uc010iro.2_Frame_Shift_Del_p.L6fs|KIAA1712_uc003its.2_RNA	NM_001040157	NP_001035247	Q9C0F1	CEP44_HUMAN	HBV PreS1-transactivated protein 3 isoform a	6						centrosome|midbody|spindle pole					0		Prostate(90;0.00276)|Melanoma(52;0.0179)|Renal(120;0.0376)|Breast(14;0.0991)|all_hematologic(60;0.124)|all_neural(102;0.196)		all cancers(43;4.06e-18)|Epithelial(43;1.18e-15)|OV - Ovarian serous cystadenocarcinoma(60;4.65e-09)|GBM - Glioblastoma multiforme(59;0.00098)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0949)		CAGGTGACTTAAAAAGAAGCT	0.363													39	86	---	---	---	---						.	-	175220290	-	-	175220290	7	5	21	1	0	1	0	1	0	0	0	0	8269	359	13	0	20	0	KIAA1712	4	175220290	Frame_Shift_Del	DEL	A	TCGA-BR-4363-01A-01D-1158-08	8831409	175220290	15933986	146	18714											
TLR3	7098	broad.mit.edu	37	chr4	186997931	186997931	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgatgatctacccacaaacaTaacagtgttgaaccttaccc	14	9	5	13	1	1	2	0	2	1	0	1	3	1	2	3	0	5	1	3	0	5	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr4:186997931T>C	uc003iyq.2	+	2	259	c.158T>C	c.(157-159)ATA>ACA	p.I53T		NM_003265	NP_003256	O15455	TLR3_HUMAN	toll-like receptor 3 precursor	53	LRR 1.|Lumenal (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|defense response to bacterium|defense response to virus|detection of virus|hyperosmotic response|I-kappaB phosphorylation|inflammatory response|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of osteoclast differentiation|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|toll-like receptor 3 signaling pathway	endoplasmic reticulum membrane|endosome membrane|integral to plasma membrane	double-stranded RNA binding|transmembrane receptor activity			ovary(2)|prostate(1)|lung(1)|breast(1)	5		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		CCCACAAACATAACAGTGTTG	0.473													32	71					0	0	0.01441	0	0		C	186997931	C	C	186997931	3	2	21	1	0	0	0	0	1	0	0	0	15977	1406	49	3	160	3	TLR3	4	186997931	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	11777641	186997931	4156345	147	18715											
DNAH5	1767	broad.mit.edu	37	chr5	13928247	13928247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatagtaaaacatgaggtgtCggagacctccaacagcaaaa	17	6	10	8	1	0	2	0	1	0	1	2	4	1	2	2	2	3	2	2	2	6	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:13928247C>T	uc003jfd.2	-	3	275	c.233G>A	c.(232-234)CGA>CAA	p.R78Q	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	78	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CATGAGGTGTCGGAGACCTCC	0.348									Kartagener_syndrome				18	56					0	0	0.010504	0	0		T	13928247	T	T	13928247	3	4	21	1	0	0	0	0	1	0	0	0	4610	884	31	1	13949	1	DNAH5	5	13928247	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08		13928247	166987013	148	18716											
FBXL7	23194	broad.mit.edu	37	chr5	15936714	15936714	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcgcggcgcactgcacgCagctcacccacctctacctg	7	6	8	20	4	2	0	1	0	1	0	3	0	2	0	4	1	3	4	4	1	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:15936714C>T	uc003jfn.1	+	4	1376	c.895C>T	c.(895-897)CAG>TAG	p.Q299*		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	299	LRR 5.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						GCACTGCACGCAGCTCACCCA	0.627													12	28					0	0	0.013537	0	0		T	15936714	T	T	15936714	4	4	21	1	0	0	0	0	0	1	0	0	5738	711	25	2	909	2	FBXL7	5	15936714	Nonsense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2008467	15936714	164978546	149	18717											
AMACR	23600	broad.mit.edu	37	chr5	34004802	34004802	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagattcagcggggcataCggattctcaccacttctgcc	9	9	11	12	2	3	1	2	0	2	1	4	3	3	2	2	4	3	1	2	4	1	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:34004802C>T	uc003jig.2	-	3	511	c.429G>A	c.(427-429)CCG>CCA	p.P143P	AMACR_uc003jih.2_Intron|AMACR_uc003jii.2_Silent_p.P143P|AMACR_uc003jij.2_Silent_p.P143P|AMACR_uc003jil.1_Silent_p.P143P|AMACR_uc003jik.1_Intron	NM_014324	NP_055139	Q9UHK6	AMACR_HUMAN	alpha-methylacyl-CoA racemase isoform 1	143					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	mitochondrion|peroxisomal matrix	alpha-methylacyl-CoA racemase activity				0						GCGGGGCATACGGATTCTCAC	0.408													39	76					0	0	0.007835	0	0		T	34004802	T	T	34004802	2	4	21	1	0	0	0	0	0	0	0	1	562	523	19	1		1	AMACR	5	34004802	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	18068088	34004802	146910458	150	18718											
CKMT2	1160	broad.mit.edu	37	chr5	80550869	80550869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcgggtgcgcactggcCgcagcatccgtgggctgagc	4	8	15	14	4	1	1	0	1	1	0	3	1	2	1	2	3	3	4	2	3	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:80550869C>T	uc003khc.3	+	6	747	c.505C>T	c.(505-507)CGC>TGC	p.R169C	RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Missense_Mutation_p.R169C|CKMT2_uc003khd.3_Missense_Mutation_p.R169C|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816	P17540	KCRS_HUMAN	sarcomeric mitochondrial creatine kinase	169	Phosphagen kinase C-terminal.				creatine metabolic process|muscle contraction	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;2.29e-44)|Epithelial(54;1.05e-38)|all cancers(79;4.15e-34)	Creatine(DB00148)	GCGCACTGGCCGCAGCATCCG	0.657													10	26					0	0	0.010729	0	0		T	80550869	T	T	80550869	3	4	21	1	0	0	0	0	1	0	0	0	3454	652	23	1	519	1	CKMT2	5	80550869	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	46546067	80550869	100364391	151	18719											
GPR98	84059	broad.mit.edu	37	chr5	90000297	90000297	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtcattctgtatgatgtcaGgacacaaggtaattcagaat	14	12	9	6	0	4	2	3	1	1	1	4	3	4	3	0	2	0	2	0	2	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:90000297G>T	uc003kju.2	+	36	8474	c.8378G>T	c.(8377-8379)AGG>ATG	p.R2793M	GPR98_uc003kjt.2_Missense_Mutation_p.R499M|GPR98_uc003kjv.2_Missense_Mutation_p.R393M	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2793	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TATGATGTCAGGACACAAGGT	0.303													4	12					0.000602214	0.00065054	0.014758	1	0		T	90000297	T	T	90000297	3	4	21	1	0	0	0	0	1	0	0	0	6737	1000	35	5	8520	5	GPR98	5	90000297	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	9449428	90000297	90914963	152	18720											
FSTL4	23105	broad.mit.edu	37	chr5	132560966	132560966	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acactgctgatgtggagttcGctcccattggctgcagacag	8	10	12	11	1	0	2	0	1	0	1	2	3	1	3	1	2	2	5	1	2	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:132560966G>A	uc003kyn.1	-	10	1406	c.1188C>T	c.(1186-1188)AGC>AGT	p.S396S	FSTL4_uc003kym.1_Missense_Mutation_p.A3V	NM_015082	NP_055897	Q6MZW2	FSTL4_HUMAN	follistatin-like 4 precursor	396	Ig-like 2.					extracellular region	calcium ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(142;0.244)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TGTGGAGTTCGCTCCCATTGG	0.532													41	115					0	0	0.01441	0	0		A	132560966	A	A	132560966	2	1	21	1	0	0	0	0	0	0	0	1	6093	1078	38	1		1	FSTL4	5	132560966	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	42560669	132560966	48354294	153	18721											
NEUROG1	4762	broad.mit.edu	37	chr5	134871302	134871302	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacagtcttcctcgtcggTgaggaagccggataggtcac	8	8	14	11	3	2	1	1	1	1	0	5	3	3	3	2	5	1	1	2	5	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:134871302T>C	uc003lax.2	-	1	338	c.79A>G	c.(79-81)ACC>GCC	p.T27A		NM_006161	NP_006152	Q92886	NGN1_HUMAN	neurogenin 1	27					positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter	nucleus	chromatin binding|E-box binding|sequence-specific DNA binding transcription factor activity|transcription factor binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TCCTCGTCGGTGAGGAAGCCG	0.522													3	11					0	0	0.014758	0	0		C	134871302	C	C	134871302	3	2	21	1	0	0	0	0	1	0	0	0	10371	1696	59	3	638	3	NEUROG1	5	134871302	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	2310336	134871302	46043958	154	18722											
KLHL3	26249	broad.mit.edu	37	chr5	136964109	136964109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtggcgtacagctgtcCgctaagcactccaacccctg	8	8	9	16	2	0	0	0	0	0	0	2	0	2	0	5	1	4	4	5	1	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:136964109C>T	uc010jek.2	-	13	1912	c.1468G>A	c.(1468-1470)GGA>AGA	p.G490R	KLHL3_uc011cyc.1_Missense_Mutation_p.G225R|KLHL3_uc003lbr.3_Missense_Mutation_p.G408R|KLHL3_uc011cyd.1_RNA	NM_017415	NP_059111	Q9UH77	KLHL3_HUMAN	kelch-like 3	490	Kelch 4.					cytoplasm|cytoskeleton	actin binding|structural molecule activity				0		all_hematologic(541;3.67e-07)|Breast(839;7.61e-05)|Prostate(281;0.000825)|Ovarian(839;0.0481)|all_lung(232;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	GBM - Glioblastoma multiforme(465;0.0223)		TACAGCTGTCCGCTAAGCACT	0.448													62	173					0	0	0.01441	0	0		T	136964109	T	T	136964109	3	4	21	1	0	0	0	0	1	0	0	0	8399	661	23	1	307	1	KLHL3	5	136964109	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2092807	136964109	43951151	155	18723											
PCDHA3	56145	broad.mit.edu	37	chr5	140182453	140182453	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaggtgttcgtgctggaCgagaacgacaacgcgccggc	8	6	15	12	6	0	1	0	0	0	1	1	4	0	2	1	3	4	3	1	3	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:140182453C>T	uc003lhf.2	+	1	1671	c.1671C>T	c.(1669-1671)GAC>GAT	p.D557D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.D557D	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	557	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGTGCTGGACGAGAACGACA	0.687													49	115					0	0	0.01441	0	0		T	140182453	T	T	140182453	2	4	21	1	0	0	0	0	0	0	0	1	11544	535	19	1		1	PCDHA3	5	140182453	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3218344	140182453	40732807	156	18724											
PCDHA11	56138	broad.mit.edu	37	chr5	140250586	140250586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgggcgagataagcacaaCgcgtgccctggacgaggcag	11	3	15	12	5	0	1	0	0	0	1	0	4	0	2	1	3	3	2	1	3	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:140250586C>T	uc003lia.2	+	1	2756	c.1898C>T	c.(1897-1899)ACG>ATG	p.T633M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.T633M	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	633	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATAAGCACAACGCGTGCCCTG	0.662													30	62					0	0	0.008361	0	0		T	140250586	T	T	140250586	3	4	21	1	0	0	0	0	1	0	0	0	11540	536	19	1	1900	1	PCDHA11	5	140250586	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	68133	140250586	40664674	157	18725											
PCDHA13	56136	broad.mit.edu	37	chr5	140264030	140264030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgctgcggtgctcggcacCgcccaccgagggcgcgtgcg	3	5	17	16	8	0	0	0	0	0	0	1	1	0	0	3	3	4	3	3	3	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:140264030C>T	uc003lif.2	+	1	2177	c.2177C>T	c.(2176-2178)CCG>CTG	p.P726L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.P726L|PCDHA13_uc003lid.2_Missense_Mutation_p.P726L	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	726	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTCGGCACCGCCCACCGAG	0.647													7	109					0	0	0.00308	0	0		T	140264030	T	T	140264030	3	4	21	1	0	0	0	0	1	0	0	0	11542	652	23	1	2179	1	PCDHA13	5	140264030	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	13444	140264030	40651230	158	18726											
PCDHB3	56132	broad.mit.edu	37	chr5	140482030	140482030	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacggcgactcgggccagaaCgcctggctgtcgtaccagct	7	6	14	14	5	0	1	0	0	0	1	2	3	0	1	3	3	3	3	3	3	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:140482030C>T	uc003lio.2	+	1	1797	c.1797C>T	c.(1795-1797)AAC>AAT	p.N599N	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	599	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGGGCCAGAACGCCTGGCTGT	0.716													12	49					0	0	0.01892	0	0		T	140482030	T	T	140482030	2	4	21	1	0	0	0	0	0	0	0	1	11562	535	19	1		1	PCDHB3	5	140482030	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	218000	140482030	40433230	159	18727											
PCDHB5	26167	broad.mit.edu	37	chr5	140515675	140515675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcactggacggtggggctcCgcccaggtccgggaccacca	6	5	15	15	3	0	0	0	0	0	0	2	2	2	2	5	6	1	2	5	6	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:140515675C>T	uc003liq.2	+	1	876	c.659C>T	c.(658-660)CCG>CTG	p.P220L		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	220	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGTGGGGCTCCGCCCAGGTCC	0.557													71	109					0	0	0.01441	0	0		T	140515675	T	T	140515675	3	4	21	1	0	0	0	0	1	0	0	0	11564	652	23	1	661	1	PCDHB5	5	140515675	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	33645	140515675	40399585	160	18728											
PCDHB16	57717	broad.mit.edu	37	chr5	140563517	140563517	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctacaccctgttcgtccgCgagaacaacagccccgccct	8	7	7	19	4	0	1	0	0	0	1	3	2	2	1	6	0	4	1	6	0	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:140563517C>T	uc003liv.2	+	1	2538	c.1383C>T	c.(1381-1383)CGC>CGT	p.R461R	PCDHB16_uc010jfw.1_Silent_p.R133R	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	461	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding	p.R461H(1)		ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGTTCGTCCGCGAGAACAACA	0.587													36	104					0	0	0.007835	0	0		T	140563517	T	T	140563517	2	4	21	1	0	0	0	0	0	0	0	1	11560	755	27	1		1	PCDHB16	5	140563517	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	47842	140563517	40351743	161	18729											
PCDHB14	56122	broad.mit.edu	37	chr5	140604527	140604527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagactcaggcaccaacGcccaggtcaactactcgctg	12	5	9	15	2	2	1	2	0	0	1	3	2	2	1	2	2	3	2	2	2	3	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:140604527G>A	uc003ljb.2	+	1	1450	c.1450G>A	c.(1450-1452)GCC>ACC	p.A484T	PCDHB14_uc011dal.1_Missense_Mutation_p.A331T	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	484	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGCACCAACGCCCAGGTCAA	0.642													49	93					0	0	0.01441	0	0		A	140604527	A	A	140604527	3	1	21	1	0	0	0	0	1	0	0	0	11558	1087	38	1	1452	1	PCDHB14	5	140604527	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	41010	140604527	40310733	162	18730											
PCDHGA3	56112	broad.mit.edu	37	chr5	140724254	140724254	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttgcctctgatggtggCgaccctgtccactctggcaa	5	11	12	13	1	2	1	0	1	2	0	3	2	3	1	3	4	1	2	3	4	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:140724254C>T	uc003ljm.1	+	1	654	c.654C>T	c.(652-654)GGC>GGT	p.G218G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Silent_p.G218G	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	218	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGATGGTGGCGACCCTGTCC	0.532													16	47					0	0	0.004007	0	0		T	140724254	T	T	140724254	2	4	21	1	0	0	0	0	0	0	0	1	11574	755	27	1		1	PCDHGA3	5	140724254	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	119727	140724254	40191006	163	18731											
PCDHGA3	56112	broad.mit.edu	37	chr5	140724659	140724659	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attacaatcacgtctctcacAagctcagtcccagaagaggg	13	8	8	12	1	4	2	3	0	1	2	6	2	5	2	1	1	2	1	1	1	4	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:140724659A>G	uc003ljm.1	+	1	1059	c.1059A>G	c.(1057-1059)ACA>ACG	p.T353T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.T113T|PCDHGA3_uc011dap.1_Silent_p.T353T	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	353	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTCTCTCACAAGCTCAGTCC	0.478													36	75					0	0	0.015359	0	0		G	140724659	G	G	140724659	2	3	21	1	0	0	0	0	0	0	0	1	11574	117	5	3		3	PCDHGA3	5	140724659	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	405	140724659	40190601	164	18732											
JAKMIP2	9832	broad.mit.edu	37	chr5	147012314	147012314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagttcttgttgtaaccGgtgattttctgcctcctgtt	4	19	9	9	1	2	1	0	1	2	0	3	1	3	1	3	1	2	5	3	1	2	8			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:147012314G>A	uc003loq.1	-	13	2087	c.1705C>T	c.(1705-1707)CGG>TGG	p.R569W	JAKMIP2_uc011dbx.1_Missense_Mutation_p.R527W|JAKMIP2_uc003lor.1_Missense_Mutation_p.R548W|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.R569W	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	569	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTTGTAACCGGTGATTTTCT	0.378													6	369					0	0	0.001984	0	0		A	147012314	A	A	147012314	3	1	21	1	0	0	0	0	1	0	0	0	7957	1115	39	1	763	1	JAKMIP2	5	147012314	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	6287655	147012314	33902946	165	18733											
ARHGEF37	389337	broad.mit.edu	37	chr5	148980674	148980674	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctttgttccttccagttgCcgcagggagatctggatgtc	5	15	11	10	1	2	1	0	0	2	1	5	3	4	2	3	2	1	3	3	2	0	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:148980674C>T	uc003lra.1	+	3	254	c.190C>T	c.(190-192)CCG>TCG	p.P64S		NM_001001669	NP_001001669	A1IGU5	ARH37_HUMAN	hypothetical protein LOC389337	64	DH.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0						CTTCCAGTTGCCGCAGGGAGA	0.468													95	230					0	0	0.01441	0	0		T	148980674	T	T	148980674	3	4	21	1	0	0	0	0	1	0	0	0	906	739	26	2	196	2	ARHGEF37	5	148980674	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1968360	148980674	31934586	166	18734											
RBM22	55696	broad.mit.edu	37	chr5	150072483	150072483	+	Frame_Shift_Del	DEL	G	-	-																															gtgggggtggagcaatgccaGggggcggtggcagagcaatg																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:150072483delG	uc003lst.2	-	10	1228	c.1106delC	c.(1105-1107)CCTfs	p.P369fs		NM_018047	NP_060517	Q9NW64	RBM22_HUMAN	RNA binding motif protein 22	369	Pro-rich.				protein import into nucleus, translocation	catalytic step 2 spliceosome|cytoplasm	calcium-dependent protein binding|nucleotide binding|RNA binding|zinc ion binding				0		Medulloblastoma(196;0.167)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGCAATGCCAGGGGGCGGTGG	0.537													65	147	---	---	---	---						.	-	150072483	-	-	150072483	7	5	21	1	0	1	0	1	0	0	0	0	13147	1000	35	0	164	0	RBM22	5	150072483	Frame_Shift_Del	DEL	G	TCGA-BR-4363-01A-01D-1158-08	1091809	150072483	30842777	167	18735											
GABRA6	2559	broad.mit.edu	37	chr5	161113339	161113339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggctatgacaatcggctgCggccgggatttggaggtaag	10	8	16	7	3	0	1	0	1	0	0	1	3	0	3	1	6	1	3	1	6	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:161113339C>T	uc003lyu.2	+	2	480	c.142C>T	c.(142-144)CGG>TGG	p.R48W		NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	48	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CAATCGGCTGCGGCCGGGATT	0.483										TCGA Ovarian(5;0.080)			22	79					0	0	0.009535	0	0		T	161113339	T	T	161113339	3	4	21	1	0	0	0	0	1	0	0	0	6179	759	27	1	148	1	GABRA6	5	161113339	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	11040856	161113339	19801921	168	18736											
ODZ2	57451	broad.mit.edu	37	chr5	167673994	167673994	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttgggcaccggacgccAggtgttctacaagtatggga	8	11	13	9	2	1	0	0	0	1	0	1	2	1	2	2	4	1	3	2	4	3	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:167673994A>G	uc010jjd.2	+	27	6023	c.6023A>G	c.(6022-6024)CAG>CGG	p.Q2008R	ODZ2_uc003lzr.3_Missense_Mutation_p.Q1778R|ODZ2_uc003lzt.3_Missense_Mutation_p.Q1381R|ODZ2_uc010jje.2_Missense_Mutation_p.Q1272R	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		ACCGGACGCCAGGTGTTCTAC	0.502													23	71					0	0	0.01892	0	0		G	167673994	G	G	167673994	3	3	21	1	0	0	0	0	1	0	0	0	10854	188	7	3	6129	3	ODZ2	5	167673994	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	6560655	167673994	13241266	169	18737											
KCNMB1	3779	broad.mit.edu	37	chr5	169805926	169805926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggctctgaccttctccaCgtcggcccgggccgtctggt	2	12	12	15	4	3	1	0	1	3	0	5	1	3	1	4	4	0	1	4	4	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:169805926C>T	uc003maq.1	-	4	758	c.358G>A	c.(358-360)GTG>ATG	p.V120M	KCNIP1_uc003map.2_Intron	NM_004137	NP_004128	Q16558	KCMB1_HUMAN	potassium large conductance calcium-activated	120	Extracellular (Potential).				platelet activation|synaptic transmission		calcium-activated potassium channel activity|potassium channel regulator activity			ovary(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0165)|all_lung(126;0.026)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.175)		ACCTTCTCCACGTCGGCCCGG	0.577													23	41					0	0	0.007291	0	0		T	169805926	T	T	169805926	3	4	21	1	0	0	0	0	1	0	0	0	8090	536	19	1	221	1	KCNMB1	5	169805926	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2131932	169805926	11109334	170	18738											
CPEB4	80315	broad.mit.edu	37	chr5	173359456	173359456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcttttaccttcaggtcGtctaaactattcatatccag	9	16	4	12	1	4	0	2	0	2	0	6	0	5	0	3	1	2	0	3	1	5	8	rs142106976		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:173359456G>A	uc003mcs.3	+	3	2617	c.1211G>A	c.(1210-1212)CGT>CAT	p.R404H	CPEB4_uc010jju.1_Intron|CPEB4_uc010jjv.2_Intron|CPEB4_uc011dfg.1_Intron|CPEB4_uc003mct.3_Missense_Mutation_p.R22H|CPEB4_uc003mcu.3_Intron	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	404							nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CCTTCAGGTCGTCTAAACTAT	0.348													22	65					0	0	0.012319	0	0		A	173359456	A	A	173359456	3	1	21	1	0	0	0	0	1	0	0	0	3806	1145	40	1	1221	1	CPEB4	5	173359456	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	3553530	173359456	7555804	171	18739											
MAML1	9794	broad.mit.edu	37	chr5	179195922	179195922	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagccgcctgccgtgtcCgtggccagctcccacaacag	7	5	10	19	3	0	0	0	0	0	0	2	0	2	0	7	1	4	1	7	1	1	0	rs141541345	byFrequency	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr5:179195922C>T	uc003mkm.2	+	3	2066	c.1803C>T	c.(1801-1803)TCC>TCT	p.S601S	MAML1_uc003mkn.1_Silent_p.S601S	NM_014757	NP_055572	Q92585	MAML1_HUMAN	mastermind-like 1	601					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	peptide antigen binding|protein kinase binding|transcription coactivator activity			lung(4)|ovary(2)	6	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTGCCGTGTCCGTGGCCAGCT	0.577													33	125					0	0	0.01441	0	0		T	179195922	T	T	179195922	2	4	21	1	0	0	0	0	0	0	0	1	9223	639	23	1		1	MAML1	5	179195922	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	5836466	179195922	1719338	172	18740											
RIOK1	83732	broad.mit.edu	37	chr6	7417589	7417589	+	Frame_Shift_Del	DEL	C	-	-																															aaaaaagatggtcaaggaagCccagagagagaaaagaaaaa																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:7417589delC	uc003mxn.2	+	17	1796	c.1622delC	c.(1621-1623)GCCfs	p.A541fs	RIOK1_uc003mxo.2_Frame_Shift_Del_p.A300fs	NM_031480	NP_113668	Q9BRS2	RIOK1_HUMAN	RIO kinase 1 isoform 1	541							ATP binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|skin(1)	4	Ovarian(93;0.0418)					GTCAAGGAAGCCCAGAGAGAG	0.289													2	4	---	---	---	---						.	-	7417589	-	-	7417589	7	5	21	1	0	1	0	1	0	0	0	0	13402	739	26	0	1688	0	RIOK1	6	7417589	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08		7417589	163697478	173	18741											
HIVEP1	3096	broad.mit.edu	37	chr6	12122268	12122268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaaaaacacttgaggagcGgatatcgaagcttatctcag	15	8	9	9	2	1	1	1	1	1	0	3	4	1	3	0	2	3	1	0	2	5	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:12122268G>A	uc003nac.2	+	4	2419	c.2240G>A	c.(2239-2241)CGG>CAG	p.R747Q	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	747					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				CTTGAGGAGCGGATATCGAAG	0.502													20	34					0	0	0.008871	0	0		A	12122268	A	A	12122268	3	1	21	1	0	0	0	0	1	0	0	0	7202	1116	39	1	2250	1	HIVEP1	6	12122268	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	4704679	12122268	158992799	174	18742											
JARID2	3720	broad.mit.edu	37	chr6	15511598	15511598	+	Frame_Shift_Del	DEL	C	-	-																															cctgctgcaagccaatggcaCcccagggctgcagatgctgg																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:15511598delC	uc003nbj.2	+	13	3162	c.2918delC	c.(2917-2919)ACCfs	p.T973fs	JARID2_uc011div.1_Frame_Shift_Del_p.T801fs	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	973	JmjC.				central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				GCCAATGGCACCCCAGGGCTG	0.557													36	55	---	---	---	---						.	-	15511598	-	-	15511598	7	5	21	1	0	1	0	1	0	0	0	0	7961	507	18	0	2968	0	JARID2	6	15511598	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08	3389330	15511598	155603469	175	18743											
CDKAL1	54901	broad.mit.edu	37	chr6	21231094	21231094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataggacttcagaaatgggCttgggaaccagctgagttca	12	10	12	7	0	2	2	2	1	0	1	2	4	2	4	1	3	2	3	1	3	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:21231094C>T	uc003ndc.1	+	16	1738	c.1564C>T	c.(1564-1566)CTT>TTT	p.L522F	CDKAL1_uc003ndd.1_Missense_Mutation_p.L522F|CDKAL1_uc003nde.1_Missense_Mutation_p.L431F|CDKAL1_uc003ndf.1_Missense_Mutation_p.L35F|CDKAL1_uc003ndg.2_RNA	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	522					RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			CAGAAATGGGCTTGGGAACCA	0.458													23	26					0	0	0.012319	0	0		T	21231094	T	T	21231094	3	4	21	1	0	0	0	0	1	0	0	0	3155	797	28	2	1618	2	CDKAL1	6	21231094	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	5719496	21231094	149883973	176	18744											
HIST1H4F	8361	broad.mit.edu	37	chr6	26240923	26240923	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaatggatgttgtctacgcGctcaagcgccagggacgcac	9	7	13	12	4	2	0	1	0	1	0	2	2	2	2	1	2	2	4	1	2	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:26240923G>A	uc003nhe.1	+	1	270	c.270G>A	c.(268-270)GCG>GCA	p.A90A		NM_003540	NP_003531	P62805	H4_HUMAN	histone cluster 1, H4f	90					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.0945)|Acute lymphoblastic leukemia(11;0.167)				TTGTCTACGCGCTCAAGCGCC	0.542													24	30					0	0	0.01892	0	0		A	26240923	A	A	26240923	2	1	21	1	0	0	0	0	0	0	0	1	7186	1074	38	1		1	HIST1H4F	6	26240923	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	5009829	26240923	144874144	177	18745											
FKSG83	83954	broad.mit.edu	37	chr6	27293382	27293382	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttttcttttatgggactaaCgtgtgtctttccacttatat	7	20	7	7	1	2	0	0	0	2	0	3	1	3	1	1	1	1	1	1	1	4	8			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:27293382C>T	uc010jqt.2	+	1	805	c.321C>T	c.(319-321)AAC>AAT	p.N107N	FKSG83_uc010jqs.1_3'UTR	NM_032030	NP_114419	Q3KNW7	Q3KNW7_HUMAN	FKSG83	107						integral to membrane	pheromone receptor activity				0						ATGGGACTAACGTGTGTCTTT	0.393													61	98					0	0	0.01441	0	0		T	27293382	T	T	27293382	2	4	21	1	0	0	0	0	0	0	0	1	5932	535	19	1		1	FKSG83	6	27293382	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1052459	27293382	143821685	178	18746											
OR10C1	442194	broad.mit.edu	37	chr6	29408587	29408587	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcgccctaaggccagctaCgatccggccactgaccctct	8	8	8	17	3	1	1	0	1	1	0	3	2	2	1	5	2	2	1	5	2	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:29408587C>T	uc011dlp.1	+	1	795	c.795C>T	c.(793-795)TAC>TAT	p.Y265Y	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGGCCAGCTACGATCCGGCCA	0.577													108	140					0	0	0.01441	0	0		T	29408587	T	T	29408587	2	4	21	1	0	0	0	0	0	0	0	1	10917	547	19	1		1	OR10C1	6	29408587	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2115205	29408587	141706480	179	18747											
TRIM10	10107	broad.mit.edu	37	chr6	30128498	30128498	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctccaggtctgggcctggTatctcacagtagcgggtaag	7	10	13	11	1	2	0	1	0	2	0	5	0	4	0	3	4	1	3	3	4	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:30128498T>C	uc003npo.3	-	1	214	c.138A>G	c.(136-138)ATA>ATG	p.I46M	TRIM10_uc003npn.2_Missense_Mutation_p.I46M|TRIM15_uc010jrx.2_5'Flank	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	46	RING-type.					cytoplasm	zinc ion binding				0						CTGGGCCTGGTATCTCACAGT	0.617													71	116					0	0	0.01441	0	0		C	30128498	C	C	30128498	3	2	21	1	0	0	0	0	1	0	0	0	16512	1628	57	3	1423	3	TRIM10	6	30128498	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	719911	30128498	140986569	180	18748											
HLA-B	3106	broad.mit.edu	37	chr6	31322269	31322270	+	Frame_Shift_Del	DEL	GA	-	-																															atctcaccttttcaagctgtGagagacacatcagagccctg																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:31322269_31322270delGA	uc003nth.2	-	7	1133_1134	c.1079_1080delTC	c.(1078-1080)CTCfs	p.L360fs	HLA-C_uc003ntb.2_Intron|HLA-C_uc003ntc.1_RNA|HLA-B_uc010jsm.1_Intron|HLA-B_uc011dnk.1_Intron|HLA-B_uc003ntf.2_Intron|HLA-B_uc003ntg.1_Frame_Shift_Del_p.L239fs|HLA-B_uc003nti.1_RNA	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B	360	Cytoplasmic (Potential).				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						TTCAAGCTGTGAGAGACACATC	0.589									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				25	40	---	---	---	---						.	-	31322270	-	-	31322269	7	5	21	1	0	1	0	1	0	0	0	0	7212	1277	45	0	12	0	HLA-B	6	31322269	Frame_Shift_Del	DEL	GA	TCGA-BR-4363-01A-01D-1158-08	1193771	31322269	139792798	181	18749											
GRM4	2914	broad.mit.edu	37	chr6	34029800	34029800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgactgggcgatgcacaCgccccctgcaggaggggcac	8	3	14	16	3	0	0	0	0	0	0	0	3	0	1	3	4	2	3	3	4	0	0	rs144674222		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:34029800C>T	uc003oir.3	-	3	912	c.742G>A	c.(742-744)GTG>ATG	p.V248M	GRM4_uc011dsn.1_Missense_Mutation_p.V248M|GRM4_uc010jvh.2_Missense_Mutation_p.V248M|GRM4_uc010jvi.2_Translation_Start_Site|GRM4_uc003oio.2_Translation_Start_Site|GRM4_uc003oip.2_RNA|GRM4_uc011dsl.1_Missense_Mutation_p.V108M|GRM4_uc003oiq.2_Missense_Mutation_p.V115M|GRM4_uc011dsm.1_Missense_Mutation_p.V79M	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	248	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	GCGATGCACACGCCCCCTGCA	0.642													20	29					0	0	0.01892	0	0		T	34029800	T	T	34029800	3	4	21	1	0	0	0	0	1	0	0	0	6815	536	19	1	2028	1	GRM4	6	34029800	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2707531	34029800	137085267	182	18750											
TCP11	6954	broad.mit.edu	37	chr6	35096881	35096882	+	Frame_Shift_Ins	INS	-	G	G																															caagagcacagctgaagtcaINSgggggagttgctgatagttg																								rs11539274		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:35096881_35096882insG	uc003okd.2	-	4	534_535	c.353_354insC	c.(352-354)CCTfs	p.P118fs	TCP11_uc003ojz.1_Frame_Shift_Ins_p.P43fs|TCP11_uc003oka.2_Frame_Shift_Ins_p.P43fs|TCP11_uc003okb.2_Frame_Shift_Ins_p.P42fs|TCP11_uc003okc.2_Frame_Shift_Ins_p.P42fs|TCP11_uc011dsu.1_Frame_Shift_Ins_p.P100fs|TCP11_uc011dsv.1_Frame_Shift_Ins_p.P67fs|TCP11_uc011dsw.1_Frame_Shift_Ins_p.P72fs	NM_001093728	NP_001087197	Q8WWU5	TCP11_HUMAN	t-complex 11 isoform 1	105					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(3)|skin(2)	5						AGCTGAAGTCAGGGGGAGTTGC	0.431													22	50	---	---	---	---						.	G	35096882	G	G	35096881	7	5	21	1	0	1	1	0	0	0	0	0	15738	175	7	0	1224	0	TCP11	6	35096881	Frame_Shift_Ins	INS	-	TCGA-BR-4363-01A-01D-1158-08	1067081	35096881	136018186	183	18751											
TBC1D22B	55633	broad.mit.edu	37	chr6	37250063	37250063	+	Frame_Shift_Del	DEL	C	-	-																															ggatcagaacgcttctggggCccccccaatgactgtccggg																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:37250063delC	uc003onn.2	+	4	670	c.524delC	c.(523-525)GCCfs	p.A175fs	TBC1D22B_uc010jwt.2_RNA	NM_017772	NP_060242	Q9NU19	TB22B_HUMAN	TBC1 domain family, member 22B	175						intracellular	Rab GTPase activator activity				0			OV - Ovarian serous cystadenocarcinoma(102;0.241)			GCTTCTGGGGCCCCCCCAATG	0.572													30	39	---	---	---	---						.	-	37250063	-	-	37250063	7	5	21	1	0	1	0	1	0	0	0	0	15637	739	26	0	538	0	TBC1D22B	6	37250063	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08	2153182	37250063	133865004	184	18752											
PRICKLE4	29964	broad.mit.edu	37	chr6	41752759	41752759	+	Frame_Shift_Del	DEL	G	-	-																															aagcaggaagccctgggacaGggggtagcccgcctggtact																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:41752759delG	uc011duf.1	+	5	575	c.327delG	c.(325-327)CAGfs	p.Q109fs	PRICKLE4_uc003ord.2_RNA|TOMM6_uc003org.2_5'Flank|TOMM6_uc011dug.1_5'Flank	NM_013397	NP_037529	Q2TBC4	PRIC4_HUMAN	over-expressed breast tumor protein	69	PET.					nucleus	zinc ion binding				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CCCTGGGACAGGGGGTAGCCC	0.612													38	66	---	---	---	---						.	-	41752759	-	-	41752759	7	5	21	1	0	1	0	1	0	0	0	0	12511	991	35	0	337	0	PRICKLE4	6	41752759	Frame_Shift_Del	DEL	G	TCGA-BR-4363-01A-01D-1158-08	4502696	41752759	129362308	185	18753											
TTBK1	84630	broad.mit.edu	37	chr6	43227330	43227330	+	Frame_Shift_Del	DEL	C	-	-																															ccccagctccccagtgcgtgCccccccagactcccccacaa																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:43227330delC	uc003ouq.1	+	12	1589	c.1310delC	c.(1309-1311)GCCfs	p.A437fs		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	437						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			CCAGTGCGTGCCCCCCCAGAC	0.672													5	8	---	---	---	---						.	-	43227330	-	-	43227330	7	5	21	1	0	1	0	1	0	0	0	0	16702	739	26	0	1352	0	TTBK1	6	43227330	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08	1474571	43227330	127887737	186	18754											
C6orf142	90523	broad.mit.edu	37	chr6	54095592	54095592	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcctgctaagtcactgctGcatccacagaccctctcaca	9	9	5	18	0	2	1	2	0	1	1	5	1	4	1	4	0	3	3	4	0	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:54095592G>A	uc003pcg.3	+	11	1307	c.1194G>A	c.(1192-1194)CTG>CTA	p.L398L	C6orf142_uc003pch.3_Intron|C6orf142_uc011dxa.1_Silent_p.L933L	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523	398						nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					AGTCACTGCTGCATCCACAGA	0.512													129	139					0	0	0.01441	0	0		A	54095592	A	A	54095592	2	1	21	1	0	0	0	0	0	0	0	1	2336	1306	46	2		2	C6orf142	6	54095592	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	10868262	54095592	117019475	187	18755											
COL19A1	1310	broad.mit.edu	37	chr6	70639396	70639396	+	Frame_Shift_Del	DEL	T	-	-																															gggagatgtgttgaactacaTttttagaaatcgagaactcc																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:70639396delT	uc003pfc.1	+	6	587	c.470delT	c.(469-471)ATTfs	p.I157fs	COL19A1_uc010kam.1_Frame_Shift_Del_p.I53fs	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	157	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TTGAACTACATTTTTAGAAAT	0.368													40	69	---	---	---	---						.	-	70639396	-	-	70639396	7	5	21	1	0	1	0	1	0	0	0	0	3679	1493	52	0	488	0	COL19A1	6	70639396	Frame_Shift_Del	DEL	T	TCGA-BR-4363-01A-01D-1158-08	16543804	70639396	100475671	188	18756											
DDX43	55510	broad.mit.edu	37	chr6	74111617	74111617	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctgttggaaaagatggaAgcacagataacaatgttgtt	14	12	10	5	0	1	2	0	0	1	2	1	4	1	4	0	2	2	4	0	2	5	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:74111617A>C	uc003pgw.2	+	4	816	c.472A>C	c.(472-474)AGC>CGC	p.S158R	DDX43_uc011dyn.1_RNA	NM_018665	NP_061135	Q9NXZ2	DDX43_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 43	158						intracellular	ATP binding|ATP-dependent RNA helicase activity|RNA binding			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4						AAAAGATGGAAGCACAGATAA	0.313													12	167					0	0	0.016723	0	0		C	74111617	C	C	74111617	3	2	21	1	0	0	0	0	1	0	0	0	4366	72	3	5	486	5	DDX43	6	74111617	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	3472221	74111617	97003450	189	18757											
COL12A1	1303	broad.mit.edu	37	chr6	75853001	75853001	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctggtgttttgtatcgAacaatatatttacgcacttt	9	19	6	7	2	2	0	0	0	2	0	3	1	2	0	0	1	2	3	0	1	6	9			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:75853001A>G	uc003phs.2	-	26	4960	c.4794T>C	c.(4792-4794)GTT>GTC	p.V1598V	COL12A1_uc003pht.2_Silent_p.V434V	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1598	Fibronectin type-III 11.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTTTGTATCGAACAATATATT	0.368													41	109					0	0	0.011902	0	0		G	75853001	G	G	75853001	2	3	21	1	0	0	0	0	0	0	0	1	3672	233	9	3		3	COL12A1	6	75853001	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	1741384	75853001	95262066	190	18758											
KIAA0776	23376	broad.mit.edu	37	chr6	96986656	96986656	+	Frame_Shift_Del	DEL	C	-	-																															aatgactgtacagaactgttCcgtgagctgatgcaccagaa																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:96986656delC	uc003por.2	+	10	1176	c.1128delC	c.(1126-1128)TTCfs	p.F376fs	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	376					negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		CAGAACTGTTCCGTGAGCTGA	0.373													40	64	---	---	---	---						.	-	96986656	-	-	96986656	7	5	21	1	0	1	0	1	0	0	0	0	8209	854	30	0	1166	0	KIAA0776	6	96986656	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08	21133655	96986656	74128411	191	18759											
MCHR2	84539	broad.mit.edu	37	chr6	100368816	100368816	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgatccatgtactttcCtaaaagtgtgatttcagagt	11	15	9	6	0	1	3	1	2	0	1	3	3	3	3	2	1	1	1	2	1	3	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:100368816C>T	uc003pqh.1	-	6	1338	c.1023G>A	c.(1021-1023)TAG>TAA	p.*341*	MCHR2_uc003pqi.1_Silent_p.*341*	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	341						integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		ATGTACTTTCCTAAAAGTGTG	0.403													28	108					0	0	0.00632	0	0		T	100368816	T	T	100368816	2	4	21	1	0	0	0	0	0	0	0	1	9401	692	24	4		4	MCHR2	6	100368816	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3382160	100368816	70746251	192	18760											
PREP	5550	broad.mit.edu	37	chr6	105825262	105825262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagtaaaagcagtctcaccGttttcctttcttgaagtggc	9	14	8	10	1	3	1	2	1	2	0	5	1	4	1	2	1	1	3	2	1	3	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:105825262G>A	uc003prc.2	-	3	456	c.253C>T	c.(253-255)CGG>TGG	p.R85W		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	85					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)	CAGTCTCACCGTTTTCCTTTC	0.328													44	130					0	0	0.01441	0	0		A	105825262	A	A	105825262	3	1	21	1	0	0	0	0	1	0	0	0	12496	1159	40	1	1931	1	PREP	6	105825262	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	5456446	105825262	65289805	193	18761											
SOBP	55084	broad.mit.edu	37	chr6	107956521	107956521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcggatgctgcccaagaccGgctgcgtgatccagcctgtg	6	8	14	13	3	0	2	0	1	0	1	1	3	1	3	4	2	5	2	4	2	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:107956521G>A	uc003prx.2	+	6	2977	c.2473G>A	c.(2473-2475)GGC>AGC	p.G825S		NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	825							metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)		GCCCAAGACCGGCTGCGTGAT	0.662													26	44					0	0	0.009535	0	0		A	107956521	A	A	107956521	3	1	21	1	0	0	0	0	1	0	0	0	14937	1116	39	1	2495	1	SOBP	6	107956521	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2131259	107956521	63158546	194	18762											
FYN	2534	broad.mit.edu	37	chr6	111995792	111995792	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattgtgaacctcccgtacaGggctgcctcgggggccgtcc	5	8	14	14	3	0	1	0	1	0	0	3	2	2	1	5	3	3	2	5	3	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:111995792G>T	uc003pvj.2	-	12	1655	c.1315C>A	c.(1315-1317)CTG>ATG	p.L439M	FYN_uc003pvi.2_Missense_Mutation_p.L384M|FYN_uc003pvk.2_Missense_Mutation_p.L439M|FYN_uc003pvh.2_Missense_Mutation_p.L436M	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	439	Protein kinase.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	CTCCCGTACAGGGCTGCCTCG	0.537													50	136					1.03172e-35	1.2077e-35	0.01441	1	0		T	111995792	T	T	111995792	3	4	21	1	0	0	0	0	1	0	0	0	6140	991	35	5	306	5	FYN	6	111995792	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	4039271	111995792	59119275	195	18763											
HS3ST5	222537	broad.mit.edu	37	chr6	114378456	114378456	+	Frame_Shift_Del	DEL	A	-	-																															tgtcctcccagtgatctggtAaaatttttgattaaaaggat																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:114378456delA	uc003pwg.3	-	2	1038	c.1006delT	c.(1006-1008)TACfs	p.Y336fs	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Frame_Shift_Del_p.Y336fs	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	336	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		GTGATCTGGTAAAATTTTTGA	0.428													56	112	---	---	---	---						.	-	114378456	-	-	114378456	7	5	21	1	0	1	0	1	0	0	0	0	7384	362	13	0	38	0	HS3ST5	6	114378456	Frame_Shift_Del	DEL	A	TCGA-BR-4363-01A-01D-1158-08	2382664	114378456	56736611	196	18764											
RSPH4A	345895	broad.mit.edu	37	chr6	116949263	116949263	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagaaatttttcactgggCgattggatgctcccatcata	11	13	8	9	1	3	1	3	0	0	1	4	3	4	2	1	2	1	1	1	2	3	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:116949263C>T	uc003pxe.2	+	3	1538	c.1393C>T	c.(1393-1395)CGA>TGA	p.R465*	RSPH4A_uc010kee.2_Nonsense_Mutation_p.R465*	NM_001010892	NP_001010892	Q5TD94	RSH4A_HUMAN	radial spoke head 4 homolog A isoform 1	465					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton|radial spoke					0						TTTCACTGGGCGATTGGATGC	0.418									Kartagener_syndrome				28	80					0	0	0.008361	0	0		T	116949263	T	T	116949263	4	4	21	1	0	0	0	0	0	1	0	0	13731	760	27	1	1403	1	RSPH4A	6	116949263	Nonsense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2570807	116949263	54165804	197	18765											
FAM184A	79632	broad.mit.edu	37	chr6	119345681	119345681	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgacttctctagacatggTcactatgcgttggacatgct	8	14	9	10	2	2	1	1	0	1	1	4	3	2	2	0	2	2	2	0	2	2	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:119345681T>C	uc003pyj.2	-	2	805	c.457A>G	c.(457-459)ACC>GCC	p.T153A	FAM184A_uc003pyk.3_Missense_Mutation_p.T33A|FAM184A_uc003pyl.3_Missense_Mutation_p.T33A	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	153	Potential.									ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						CTAGACATGGTCACTATGCGT	0.403													42	105					0	0	0.009718	0	0		C	119345681	C	C	119345681	3	2	21	1	0	0	0	0	1	0	0	0	5522	1667	58	3	3033	3	FAM184A	6	119345681	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	2396418	119345681	51769386	198	18766											
GJA1	2697	broad.mit.edu	37	chr6	121768435	121768435	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatggtaaggtgaaaatgCgaggggggttgctgcgaacc	11	7	17	6	2	0	1	0	1	0	0	0	3	0	1	1	5	5	4	1	5	4	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:121768435C>T	uc003pyr.2	+	2	692	c.442C>T	c.(442-444)CGA>TGA	p.R148*	GJA1_uc011ebo.1_Nonsense_Mutation_p.R49*|GJA1_uc011ebp.1_Intron	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	148	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	GGTGAAAATGCGAGGGGGGTT	0.453													33	94					0	0	0.010818	0	0		T	121768435	T	T	121768435	4	4	21	1	0	0	0	0	0	1	0	0	6415	760	27	1	444	1	GJA1	6	121768435	Nonsense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2422754	121768435	49346632	199	18767											
ENPP1	5167	broad.mit.edu	37	chr6	132185669	132185669	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaccatttgaagaaaggaTtttagctgttcttcagtggc	11	14	10	6	0	2	2	1	1	1	1	2	3	2	3	1	2	2	3	1	2	4	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:132185669T>G	uc011ecf.1	+	10	1069	c.1049T>G	c.(1048-1050)ATT>AGT	p.I350S	ENPP1_uc003qcy.2_5'UTR	NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	350	Phosphodiesterase.|Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	GAAGAAAGGATTTTAGCTGTT	0.294													12	30					0	0	0.013537	0	0		G	132185669	G	G	132185669	3	3	21	1	0	0	0	0	1	0	0	0	5137	1493	52	5	1087	5	ENPP1	6	132185669	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	10417234	132185669	38929398	200	18768											
TAAR1	134864	broad.mit.edu	37	chr6	132966641	132966641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgtaatatatctcttcagCgcctttgaagtttagctcca	9	17	6	9	1	2	1	1	1	1	0	4	1	3	1	2	0	2	3	2	0	5	8			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:132966641C>T	uc003qdm.1	-	1	502	c.502G>A	c.(502-504)GCT>ACT	p.A168T		NM_138327	NP_612200	Q96RJ0	TAAR1_HUMAN	trace amine associated receptor 1	168	Extracellular (Potential).					plasma membrane					0	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00616)|GBM - Glioblastoma multiforme(226;0.0154)	Amphetamine(DB00182)	ATCTCTTCAGCGCCTTTGAAG	0.373													29	105					0	0	0.010818	0	0		T	132966641	T	T	132966641	3	4	21	1	0	0	0	0	1	0	0	0	15514	768	27	1	521	1	TAAR1	6	132966641	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	780972	132966641	38148426	201	18769											
GRM1	2911	broad.mit.edu	37	chr6	146673425	146673425	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactatgtccaggacagtaAgatggggtttgtcatcaatg	13	11	11	6	0	2	1	2	0	0	1	3	2	3	2	1	3	1	2	1	3	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:146673425A>T	uc010khw.1	+	5	1696	c.1226A>T	c.(1225-1227)AAG>ATG	p.K409M	GRM1_uc010khv.1_Missense_Mutation_p.K409M|GRM1_uc003qll.2_Missense_Mutation_p.K409M|GRM1_uc011edz.1_Missense_Mutation_p.K409M|GRM1_uc011eea.1_Missense_Mutation_p.K409M	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	409	Extracellular (Potential).	Glutamate (By similarity).			synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CAGGACAGTAAGATGGGGTTT	0.483													56	107					0	0	0.01441	0	0		T	146673425	T	T	146673425	3	4	21	1	0	0	0	0	1	0	0	0	6812	72	3	5	1240	5	GRM1	6	146673425	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	13706784	146673425	24441642	202	18770											
SYNE1	23345	broad.mit.edu	37	chr6	152740715	152740715	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccactttaccttatgccgagTaagggctacttgatggtcca	9	12	9	11	1	0	1	0	1	0	0	1	2	1	1	4	2	3	2	4	2	4	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:152740715T>A	uc010kiw.2	-	40	6012	c.5410A>T	c.(5410-5412)ACT>TCT	p.T1804S	SYNE1_uc003qot.3_Missense_Mutation_p.T1811S|SYNE1_uc003qou.3_Missense_Mutation_p.T1804S|SYNE1_uc010kjb.1_Missense_Mutation_p.T1787S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1804	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTATGCCGAGTAAGGGCTACT	0.318										HNSCC(10;0.0054)			18	38					0	0	0.008871	0	0		A	152740715	A	A	152740715	3	1	21	1	0	0	0	0	1	0	0	0	15470	1638	57	5	21484	5	SYNE1	6	152740715	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	6067290	152740715	18374352	203	18771											
SYNE1	23345	broad.mit.edu	37	chr6	152740727	152740727	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgccgagtaagggctacttGatggtccattatgctaatct	10	13	10	8	1	1	1	0	1	1	0	2	2	2	1	2	2	3	3	2	2	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:152740727G>A	uc010kiw.2	-	40	6000	c.5398C>T	c.(5398-5400)CAA>TAA	p.Q1800*	SYNE1_uc003qot.3_Nonsense_Mutation_p.Q1807*|SYNE1_uc003qou.3_Nonsense_Mutation_p.Q1800*|SYNE1_uc010kjb.1_Nonsense_Mutation_p.Q1783*	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1800	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AGGGCTACTTGATGGTCCATT	0.338										HNSCC(10;0.0054)			24	44					0	0	0.021523	0	0		A	152740727	A	A	152740727	4	1	21	1	0	0	0	0	0	1	0	0	15470	1299	45	4	21496	4	SYNE1	6	152740727	Nonsense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	12	152740727	18374340	204	18772											
SNX9	51429	broad.mit.edu	37	chr6	158349639	158349639	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcacccacagagagcagaAgtgcgaggctgtggggaagt	11	6	15	9	1	1	2	1	0	0	2	1	5	1	3	1	3	2	2	1	3	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:158349639A>C	uc003qqv.1	+	12	1366	c.1193A>C	c.(1192-1194)AAG>ACG	p.K398T		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	398	BAR.				cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)		AGAGAGCAGAAGTGCGAGGCT	0.582													3	17					0	0	0.009096	0	0		C	158349639	C	C	158349639	3	2	21	1	0	0	0	0	1	0	0	0	14934	72	3	5	1239	5	SNX9	6	158349639	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	5608912	158349639	12765428	205	18773											
UNC93A	54346	broad.mit.edu	37	chr6	167721271	167721271	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctctgcacccccaggcgcGgtgacccacgtgtcctgcat	5	7	10	19	3	1	1	0	1	1	0	2	1	2	1	5	2	2	2	5	2	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:167721271G>A	uc003qvq.2	+	7	1156	c.981G>A	c.(979-981)GCG>GCA	p.A327A	UNC93A_uc003qvr.2_Silent_p.A285A	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	327	Helical; (Potential).					integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CCCCAGGCGCGGTGACCCACG	0.627													28	82					0	0	0.008361	0	0		A	167721271	A	A	167721271	2	1	21	1	0	0	0	0	0	0	0	1	17022	1103	39	1		1	UNC93A	6	167721271	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	9371632	167721271	3393796	206	18774											
MLLT4	4301	broad.mit.edu	37	chr6	168294542	168294542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcatgtgtcttaaccccagGgagaaggaatcactttgcct	10	10	11	10	0	2	1	1	0	1	1	2	3	2	2	3	3	2	1	3	3	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr6:168294542G>A	uc003qwd.2	+	9	1317	c.1175G>A	c.(1174-1176)GGG>GAG	p.G392E	MLLT4_uc003qwb.1_Intron|MLLT4_uc003qwc.1_Missense_Mutation_p.G393E|MLLT4_uc003qwf.2_Intron	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	393					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		TTAACCCCAGGGAGAAGGAAT	0.473			T	MLL	AL								3	4					0	0	0.004672	0	0		A	168294542	A	A	168294542	3	1	21	1	0	0	0	0	1	0	0	0	9647	1246	43	4	1212	4	MLLT4	6	168294542	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	573271	168294542	2820525	207	18775											
USP42	84132	broad.mit.edu	37	chr7	6196693	6196693	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagtatggccagggtaagaGgagatacttggaattaggaa	14	9	15	3	0	0	3	0	1	0	2	0	6	0	5	1	5	1	2	1	5	6	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:6196693G>T	uc011jwo.1	+	16	4073	c.3950G>T	c.(3949-3951)AGG>ATG	p.R1317M	USP42_uc011jwp.1_Intron|USP42_uc011jwq.1_Intron	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	1317					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		CAGGGTAAGAGGAGATACTTG	0.433													4	18					0.00909568	0.00975035	0.009096	1	0		T	6196693	T	T	6196693	3	4	21	1	0	0	0	0	1	0	0	0	17099	1015	35	5		5	USP42	7	6196693	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08		6196693	152941970	208	18776											
DNAH11	8701	broad.mit.edu	37	chr7	21939646	21939646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagtggcccctggataaaaCgcgcttgactgctgatgtta	9	11	12	9	2	0	3	0	3	0	0	0	4	0	4	2	2	2	3	2	2	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:21939646C>T	uc003svc.2	+	82	13263	c.13232C>T	c.(13231-13233)ACG>ATG	p.T4411M		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4411					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTGGATAAAACGCGCTTGACT	0.428									Kartagener_syndrome				17	32					0	0	0.004007	0	0		T	21939646	T	T	21939646	3	4	21	1	0	0	0	0	1	0	0	0	4605	536	19	1	13555	1	DNAH11	7	21939646	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	15742953	21939646	137199017	209	18777											
PLEKHA8	84725	broad.mit.edu	37	chr7	30088859	30088859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagggaattgatgtgggaaCtttgctgaaatcaacctgta	12	11	13	5	0	1	2	1	2	0	0	1	5	1	5	1	3	3	2	1	3	5	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:30088859C>T	uc003tam.1	+	5	549	c.458C>T	c.(457-459)ACT>ATT	p.T153I	PLEKHA8_uc003tao.2_Missense_Mutation_p.T37I|PLEKHA8_uc003tap.1_Missense_Mutation_p.T153I|PLEKHA8_uc003tan.2_Missense_Mutation_p.T153I	NM_032639	NP_116028	Q96JA3	PKHA8_HUMAN	pleckstrin homology domain containing, family A	153					protein transport	cytoplasm	glycolipid binding|glycolipid transporter activity			breast(3)|ovary(1)	4						GATGTGGGAACTTTGCTGAAA	0.453													103	265					0	0	0.01441	0	0		T	30088859	T	T	30088859	3	4	21	1	0	0	0	0	1	0	0	0	12081	565	20	4	476	4	PLEKHA8	7	30088859	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	8149213	30088859	129049804	210	18778											
SFRP4	6424	broad.mit.edu	37	chr7	37956066	37956066	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatagggatgcgcaccgccTcgcagggcgcgccgcgcacg	7	3	15	16	8	0	0	0	0	0	0	1	1	0	1	3	2	1	3	3	2	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:37956066T>A	uc003tfo.3	-	1	460	c.74A>T	c.(73-75)GAG>GTG	p.E25V		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	25	FZ.				brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1						GCGCACCGCCTCGCAGGGCGC	0.687													29	57					0	0	0.005443	0	0		A	37956066	A	A	37956066	3	1	21	1	0	0	0	0	1	0	0	0	14188	1551	54	5	990	5	SFRP4	7	37956066	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	7867207	37956066	121182597	211	18779											
HECW1	23072	broad.mit.edu	37	chr7	43532713	43532713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagattgtggcatttcttcGccagccaaacatttttgaaa	12	13	7	9	1	1	2	0	1	1	1	2	2	1	2	2	1	2	1	2	1	3	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:43532713G>A	uc003tid.1	+	19	3976	c.3371G>A	c.(3370-3372)CGC>CAC	p.R1124H	HECW1_uc011kbi.1_Missense_Mutation_p.R1090H	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1124					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity	p.R1103H(1)		ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GCATTTCTTCGCCAGCCAAAC	0.463													19	28					0	0	0.016522	0	0		A	43532713	A	A	43532713	3	1	21	1	0	0	0	0	1	0	0	0	7058	1087	38	1	3437	1	HECW1	7	43532713	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	5576647	43532713	115605950	212	18780											
STK17A	9263	broad.mit.edu	37	chr7	43664348	43664348	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaggacaatgcagacagtcTgaaaaagagaaaatggagca	19	5	11	6	0	1	3	0	1	1	2	1	6	1	5	0	2	2	2	0	2	6	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:43664348T>A	uc003tih.2	+	7	1303	c.1152T>A	c.(1150-1152)TCT>TCA	p.S384S	C7orf44_uc003til.2_Intron|C7orf44_uc003tii.2_Intron|C7orf44_uc003tij.2_Intron|C7orf44_uc010kxu.1_Intron|C7orf44_uc003tik.2_Intron	NM_004760	NP_004751	Q9UEE5	ST17A_HUMAN	serine/threonine kinase 17a	384					apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			skin(2)	2						GCAGACAGTCTGAAAAAGAGA	0.348													32	62					0	0	0.013726	0	0		A	43664348	A	A	43664348	2	1	21	1	0	0	0	0	0	0	0	1	15315	1567	55	5		5	STK17A	7	43664348	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	131635	43664348	115474315	213	18781											
TNS3	64759	broad.mit.edu	37	chr7	47408673	47408673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaacgttgctgccaaaacCgtcagataggagtgagttct	12	9	10	10	2	2	2	1	1	1	1	2	3	2	3	3	1	4	3	3	1	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:47408673C>T	uc003tnv.2	-	17	1937	c.1570G>A	c.(1570-1572)GGT>AGT	p.G524S	TNS3_uc003tnw.2_Missense_Mutation_p.G524S	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	524						focal adhesion	protein binding			ovary(4)	4						CTGCCAAAACCGTCAGATAGG	0.632													16	58					0	0	0.014323	0	0		T	47408673	T	T	47408673	3	4	21	1	0	0	0	0	1	0	0	0	16369	652	23	1	2827	1	TNS3	7	47408673	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3744325	47408673	111729990	214	18782											
POM121L12	285877	broad.mit.edu	37	chr7	53104085	53104085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctctgaagccgagcctcGgcccctggagcctcagtttt	5	9	12	15	2	2	1	1	1	1	0	3	3	2	2	6	3	3	1	6	3	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:53104085G>A	uc003tpz.2	+	1	737	c.721G>A	c.(721-723)GGC>AGC	p.G241S		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	241											0						GCCGAGCCTCGGCCCCTGGAG	0.647													18	34					0	0	0.014323	0	0		A	53104085	A	A	53104085	3	1	21	1	0	0	0	0	1	0	0	0	12260	1116	39	1	723	1	POM121L12	7	53104085	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	5695412	53104085	106034578	215	18783											
TYW1	55253	broad.mit.edu	37	chr7	66648139	66648139	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaactgtctacagactgacGctcgtgaaagcatggaacgt	12	8	11	10	4	1	3	0	2	1	1	2	5	1	4	0	1	4	2	0	1	4	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:66648139G>A	uc003tvn.2	+	14	1874	c.1725G>A	c.(1723-1725)ACG>ACA	p.T575T	TYW1_uc010lai.2_RNA|TYW1_uc011kef.1_Silent_p.T189T	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	575					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				ACAGACTGACGCTCGTGAAAG	0.517													9	30					0	0	0.006214	0	0		A	66648139	A	A	66648139	2	1	21	1	0	0	0	0	0	0	0	1	16844	1074	38	1		1	TYW1	7	66648139	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	13544054	66648139	92490524	216	18784											
WBSCR28	135886	broad.mit.edu	37	chr7	73279550	73279550	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacccaggctgatgtgggcTggcatgtggggcagcaccaa	8	6	17	10	0	0	1	0	1	0	0	0	2	0	2	2	6	1	5	2	6	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:73279550T>C	uc003tzk.2	+	2	336	c.300T>C	c.(298-300)GCT>GCC	p.A100A	RFC2_uc011kfa.1_Intron|WBSCR28_uc003tzl.2_5'UTR	NM_182504	NP_872310	Q6UE05	WBS28_HUMAN	hypothetical protein LOC135886	100						integral to membrane				breast(1)	1		Lung NSC(55;0.159)				TGATGTGGGCTGGCATGTGGG	0.647													22	48					0	0	0.012319	0	0		C	73279550	C	C	73279550	2	2	21	1	0	0	0	0	0	0	0	1	17293	1567	55	3		3	WBSCR28	7	73279550	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	6631411	73279550	85859113	217	18785											
ABCB4	5244	broad.mit.edu	37	chr7	87032452	87032452	+	Frame_Shift_Del	DEL	T	-	-																															gttgggaggccacacacaccTtttcactttcagtatccaga																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:87032452delT	uc003uiv.1	-	27	3729	c.3653delA	c.(3652-3654)AAGfs	p.K1218fs	ABCB4_uc003uiw.1_Frame_Shift_Del_p.K1211fs|ABCB4_uc003uix.1_Frame_Shift_Del_p.K1164fs	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	1218	ABC transporter 2.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CACACACACCTTTTCACTTTC	0.423													109	226	---	---	---	---						.	-	87032452	-	-	87032452	7	5	21	1	0	1	0	1	0	0	0	0	43	1623	56	0	215	0	ABCB4	7	87032452	Frame_Shift_Del	DEL	T	TCGA-BR-4363-01A-01D-1158-08	13752902	87032452	72106211	218	18786											
TRRAP	8295	broad.mit.edu	37	chr7	98581951	98581951	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgctacctccagctggcAggcgtcatgggcaaaaacga	13	6	11	11	2	1	0	1	0	0	0	2	1	2	0	2	3	4	4	2	3	4	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:98581951A>G	uc003upp.2	+	60	9479	c.9270A>G	c.(9268-9270)GCA>GCG	p.A3090A	TRRAP_uc011kis.1_Silent_p.A3061A|TRRAP_uc003upr.2_Silent_p.A2778A	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3090	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TCCAGCTGGCAGGCGTCATGG	0.493													33	127					0	0	0.019004	0	0		G	98581951	G	G	98581951	2	3	21	1	0	0	0	0	0	0	0	1	16627	175	7	3		3	TRRAP	7	98581951	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	11549499	98581951	60556712	219	18787											
MEPCE	56257	broad.mit.edu	37	chr7	100028448	100028448	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catagacaccggggacagcaCcaccagcagcagcaggcagc	13	1	12	15	1	0	1	0	0	0	1	0	2	0	2	3	3	5	5	3	3	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:100028448C>T	uc003uuw.2	+	1	920	c.807C>T	c.(805-807)CAC>CAT	p.H269H	ZCWPW1_uc003uut.2_5'Flank|ZCWPW1_uc011kjr.1_5'Flank|ZCWPW1_uc003uuu.1_5'Flank|ZCWPW1_uc011kjt.1_5'Flank|ZCWPW1_uc011kju.1_5'Flank|MEPCE_uc003uuv.2_5'UTR	NM_019606	NP_062552	Q7L2J0	MEPCE_HUMAN	bin3, bicoid-interacting 3	269							methyltransferase activity			upper_aerodigestive_tract(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GGGGACAGCACCACCAGCAGC	0.637													61	122					0	0	0.01441	0	0		T	100028448	T	T	100028448	2	4	21	1	0	0	0	0	0	0	0	1	9495	506	18	4		4	MEPCE	7	100028448	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1446497	100028448	59110215	220	18788											
GIGYF1	64599	broad.mit.edu	37	chr7	100281778	100281778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgcactgtgggagctggCggctgcaaatgggacagtgg	7	6	19	9	3	0	0	0	0	0	0	0	2	0	2	0	5	2	4	0	5	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:100281778C>T	uc003uwg.1	-	15	2742	c.1733G>A	c.(1732-1734)CGC>CAC	p.R578H		NM_022574	NP_072096	O75420	PERQ1_HUMAN	PERQ amino acid rich, with GYF domain 1	578	Gln-rich.									large_intestine(1)|central_nervous_system(1)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					TGGGAGCTGGCGGCTGCAAAT	0.687													9	17					0	0	0.013537	0	0		T	100281778	T	T	100281778	3	4	21	1	0	0	0	0	1	0	0	0	6392	768	27	1	1414	1	GIGYF1	7	100281778	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	253330	100281778	58856885	221	18789											
SLC12A9	56996	broad.mit.edu	37	chr7	100463572	100463572	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaagatgaacaagaatgTggtgctggcccgggccagcg	10	6	14	11	2	1	3	1	1	0	2	1	3	1	3	3	3	3	1	3	3	4	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:100463572T>C	uc003uwp.2	+	14	2232	c.2090T>C	c.(2089-2091)GTG>GCG	p.V697A	SLC12A9_uc011kki.1_Missense_Mutation_p.V228A|SLC12A9_uc003uwr.2_Missense_Mutation_p.V433A|SLC12A9_uc003uws.2_Missense_Mutation_p.V228A|SLC12A9_uc003uwt.2_Missense_Mutation_p.V433A|SLC12A9_uc003uwv.2_Missense_Mutation_p.V228A|TRIP6_uc010lhk.1_5'Flank|TRIP6_uc003uww.2_5'Flank	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	697	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					AACAAGAATGTGGTGCTGGCC	0.697													9	116					0	0	0.008291	0	0		C	100463572	C	C	100463572	3	2	21	1	0	0	0	0	1	0	0	0	14415	1696	59	3	2140	3	SLC12A9	7	100463572	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	181794	100463572	58675091	222	18790											
RELN	5649	broad.mit.edu	37	chr7	103293015	103293015	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctgttaccaggctgatgCgttccacatcccagattgat	9	12	8	12	1	0	3	0	2	0	1	2	3	2	3	4	1	3	3	4	1	2	4	rs138532222		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:103293015C>T	uc003vca.2	-	14	1906	c.1746G>A	c.(1744-1746)ACG>ACA	p.T582T	RELN_uc010liz.2_Silent_p.T582T	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	582					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CAGGCTGATGCGTTCCACATC	0.403													13	66					0	0	0.016723	0	0		T	103293015	T	T	103293015	2	4	21	1	0	0	0	0	0	0	0	1	13245	755	27	1		1	RELN	7	103293015	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2829443	103293015	55845648	223	18791											
ORC5L	5001	broad.mit.edu	37	chr7	103844608	103844608	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctctaaagttttcaacaaCgtttgtgttacataggtctt	11	16	6	8	1	3	0	1	0	2	0	3	0	3	0	1	1	3	3	1	1	6	7	rs142978774		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:103844608C>T	uc003vcb.2	-	2	258	c.147G>A	c.(145-147)ACG>ACA	p.T49T	ORC5L_uc011klp.1_5'UTR|ORC5L_uc003vcc.2_Silent_p.T49T|ORC5L_uc003vcd.2_Silent_p.T49T	NM_002553	NP_002544	O43913	ORC5_HUMAN	origin recognition complex subunit 5 isoform 1	49					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	cytoplasm|nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|identical protein binding				0						TTTTCAACAACGTTTGTGTTA	0.303													8	21					0	0	0.006214	0	0		T	103844608	T	T	103844608	2	4	21	1	0	0	0	0	0	0	0	1	11284	523	19	1		1	ORC5L	7	103844608	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	551593	103844608	55294055	224	18792											
NAMPT	10135	broad.mit.edu	37	chr7	105891627	105891627	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgccattcttgaagacagTatggagaagatcctgcataa	13	11	9	8	0	1	4	0	1	1	3	2	5	2	4	2	1	2	2	2	1	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:105891627T>C	uc003vdq.2	-	11	1686	c.1378A>G	c.(1378-1380)ACT>GCT	p.T460A		NM_005746	NP_005737	P43490	NAMPT_HUMAN	nicotinamide phosphoribosyltransferase	460					cell-cell signaling|NAD biosynthetic process|nicotinamide metabolic process|positive regulation of cell proliferation|positive regulation of nitric-oxide synthase biosynthetic process|signal transduction|water-soluble vitamin metabolic process	cytosol	cytokine activity|nicotinamide phosphoribosyltransferase activity|nicotinate phosphoribosyltransferase activity|nicotinate-nucleotide diphosphorylase (carboxylating) activity			large_intestine(1)	1						TTGAAGACAGTATGGAGAAGA	0.343													41	91					0	0	0.013114	0	0		C	105891627	C	C	105891627	3	2	21	1	0	0	0	0	1	0	0	0	10167	1638	57	3	101	3	NAMPT	7	105891627	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	2047019	105891627	53247036	225	18793											
RBM28	55131	broad.mit.edu	37	chr7	127953322	127953322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcactttgcctttgtccCgcaacctgaaataacatggc	9	12	7	13	1	1	1	1	1	0	0	2	1	2	1	3	1	3	2	3	1	3	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:127953322C>T	uc003vmp.2	-	18	2166	c.2051G>A	c.(2050-2052)CGG>CAG	p.R684Q	RBM28_uc003vmo.2_Missense_Mutation_p.R226Q|RBM28_uc011koj.1_Missense_Mutation_p.R543Q	NM_018077	NP_060547	Q9NW13	RBM28_HUMAN	RNA binding motif protein 28	684					mRNA processing|RNA splicing	Golgi apparatus|nucleolus|spliceosomal complex	nucleotide binding|RNA binding			ovary(2)	2						GCCTTTGTCCCGCAACCTGAA	0.493													50	124					0	0	0.01441	0	0		T	127953322	T	T	127953322	3	4	21	1	0	0	0	0	1	0	0	0	13153	652	23	1	236	1	RBM28	7	127953322	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	22061695	127953322	31185341	226	18794											
ZYX	7791	broad.mit.edu	37	chr7	143079975	143079975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctgcagccgggggcacaGcacccctgcctccttggaag	7	5	13	16	1	0	0	0	0	0	0	1	1	1	1	6	3	5	3	6	3	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:143079975G>A	uc003wcw.2	+	5	738	c.583G>A	c.(583-585)GCA>ACA	p.A195T	ZYX_uc011ktd.1_Missense_Mutation_p.A38T|ZYX_uc003wcx.2_Missense_Mutation_p.A195T|ZYX_uc011kte.1_Missense_Mutation_p.A164T|ZYX_uc011ktf.1_Missense_Mutation_p.A38T	NM_001010972	NP_001010972	Q15942	ZYX_HUMAN	zyxin	195					cell adhesion|cell-cell signaling|interspecies interaction between organisms|signal transduction	cell-cell adherens junction|cytoplasm|focal adhesion|integral to plasma membrane|nucleus|stress fiber	protein binding|zinc ion binding				0	Melanoma(164;0.205)					CGGGGGCACAGCACCCCTGCC	0.592													20	66					0	0	0.012319	0	0		A	143079975	A	A	143079975	3	1	21	1	0	0	0	0	1	0	0	0	18279	971	34	2	597	2	ZYX	7	143079975	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	15126653	143079975	16058688	227	18795											
EPHA1	2041	broad.mit.edu	37	chr7	143091370	143091370	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaagctccacacatcgcTggctgtggtgaagatccgat	10	8	10	13	2	0	2	0	1	0	1	3	3	2	2	3	2	1	3	3	2	2	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:143091370T>C	uc003wcz.2	-	15	2506	c.2419A>G	c.(2419-2421)AGC>GGC	p.S807G		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	807	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				CACACATCGCTGGCTGTGGTG	0.537													51	91					0	0	0.01441	0	0		C	143091370	C	C	143091370	3	2	21	1	0	0	0	0	1	0	0	0	5173	1580	55	3	527	3	EPHA1	7	143091370	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	11395	143091370	16047293	228	18796											
OR2F1	26211	broad.mit.edu	37	chr7	143658000	143658000	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaattctctgggttaacaTcaaagctggcaacttgactc	12	11	9	9	0	2	1	1	1	1	0	4	2	2	2	0	3	3	3	0	3	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:143658000T>C	uc003wds.1	+	1	981	c.937T>C	c.(937-939)TCA>CCA	p.S313P		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	313	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					TGGGTTAACATCAAAGCTGGC	0.438													31	58					0	0	0.012213	0	0		C	143658000	C	C	143658000	3	2	21	1	0	0	0	0	1	0	0	0	11015	1435	50	3	939	3	OR2F1	7	143658000	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	566630	143658000	15480663	229	18797											
ZNF862	643641	broad.mit.edu	37	chr7	149544928	149544928	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctacctttcccacctcAgtacaggcagtggacacatc	11	8	7	15	0	1	0	1	0	0	0	3	1	2	1	4	2	3	2	4	2	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:149544928A>G	uc010lpn.2	+	4	538	c.346A>G	c.(346-348)AGT>GGT	p.S116G	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	116					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						TTCCCACCTCAGTACAGGCAG	0.557													4	19					0	0	0.014758	0	0		G	149544928	G	G	149544928	3	3	21	1	0	0	0	0	1	0	0	0	18220	188	7	3	360	3	ZNF862	7	149544928	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	5886928	149544928	9593735	230	18798											
ZNF775	285971	broad.mit.edu	37	chr7	150094965	150094965	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcgctcaccatccaccagCgcatccacacgggtgagcgg	8	4	12	17	5	1	1	1	1	0	0	3	1	3	1	4	3	2	2	4	3	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:150094965C>T	uc003whf.1	+	3	1521	c.1396C>T	c.(1396-1398)CGC>TGC	p.R466C	LOC728743_uc003whg.2_5'Flank	NM_173680	NP_775951	Q96BV0	ZN775_HUMAN	zinc finger protein 775	466	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.0173)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CATCCACCAGCGCATCCACAC	0.701													4	8					0	0	0.014758	0	0		T	150094965	T	T	150094965	3	4	21	1	0	0	0	0	1	0	0	0	18173	768	27	1	1402	1	ZNF775	7	150094965	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	550037	150094965	9043698	231	18799											
ASB10	136371	broad.mit.edu	37	chr7	150878058	150878058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggccagacacggacggCgccatggttgagcagagccc	8	4	14	15	3	0	3	0	1	0	2	0	4	0	4	4	4	2	2	4	4	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:150878058C>T	uc003wjm.1	-	3	1333	c.1207G>A	c.(1207-1209)GCC>ACC	p.A403T	ASB10_uc003wjl.1_Missense_Mutation_p.A403T|ASB10_uc003wjn.1_Missense_Mutation_p.A343T	NM_001142459	NP_001135931	Q8WXI3	ASB10_HUMAN	ankyrin repeat and SOCS box-containing 10	358	ANK 7.				intracellular signal transduction						0			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ACACGGACGGCGCCATGGTTG	0.701													4	24					0	0	0.014758	0	0		T	150878058	T	T	150878058	3	4	21	1	0	0	0	0	1	0	0	0	1015	768	27	1	343	1	ASB10	7	150878058	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	783093	150878058	8260605	232	18800											
SMARCD3	6604	broad.mit.edu	37	chr7	150937306	150937306	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcaatgtcatagcacgcCgtcttcttctggtctgaagg	8	12	10	11	3	6	1	2	1	4	0	6	1	6	1	1	2	1	1	1	2	3	3	rs1050109		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:150937306C>T	uc003wjs.2	-	10	1166	c.1065G>A	c.(1063-1065)ACG>ACA	p.T355T	SMARCD3_uc003wjt.2_Silent_p.T342T|SMARCD3_uc003wju.2_Silent_p.T342T	NM_001003801	NP_001003801	Q6STE5	SMRD3_HUMAN	SWI/SNF related, matrix associated, actin	355					cellular lipid metabolic process|chromatin modification|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	nuclear hormone receptor binding|protein binding|transcription coactivator activity|transcription factor binding			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CATAGCACGCCGTCTTCTTCT	0.622													25	50					0	0	0.021523	0	0		T	150937306	T	T	150937306	2	4	21	1	0	0	0	0	0	0	0	1	14804	639	23	1		1	SMARCD3	7	150937306	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	59248	150937306	8201357	233	18801											
NOM1	64434	broad.mit.edu	37	chr7	156762298	156762298	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccacttcttgctaaagaaCgcacaggcccacagaagcgc	13	5	9	14	2	1	2	0	0	1	2	1	2	1	2	2	1	4	2	2	1	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr7:156762298C>T	uc003wmy.2	+	11	2499	c.2484C>T	c.(2482-2484)AAC>AAT	p.N828N		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	828					RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		TGCTAAAGAACGCACAGGCCC	0.488													70	177					0	0	0.01441	0	0		T	156762298	T	T	156762298	2	4	21	1	0	0	0	0	0	0	0	1	10549	535	19	1		1	NOM1	7	156762298	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	5824992	156762298	2376365	234	18802											
SGK223	157285	broad.mit.edu	37	chr8	8176270	8176270	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgatgatgagccggggCagctgcttctcccggggccc	4	9	15	13	2	1	3	0	3	1	0	2	3	1	3	3	4	4	4	3	4	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:8176270C>T	uc003wsh.3	-	5	3615	c.3615G>A	c.(3613-3615)CTG>CTA	p.L1205L		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	1205	Protein kinase.						ATP binding|non-membrane spanning protein tyrosine kinase activity				0						TGAGCCGGGGCAGCTGCTTCT	0.692													6	7					0	0	0.001168	0	0		T	8176270	T	T	8176270	2	4	21	1	0	0	0	0	0	0	0	1	14235	697	25	2		2	SGK223	8	8176270	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08		8176270	138187752	235	18803											
FAM167A	83648	broad.mit.edu	37	chr8	11282089	11282089	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcagcttgttgatgtcGccacgcaggcgcatgagctg	7	12	12	10	3	1	2	1	2	0	0	2	2	1	2	1	1	2	5	1	1	0	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:11282089G>A	uc010lry.1	-	3	1058	c.438C>T	c.(436-438)GGC>GGT	p.G146G	C8orf12_uc003wtu.2_Intron|C8orf12_uc003wtv.2_Intron|FAM167A_uc003wtw.2_Silent_p.G146G	NM_053279	NP_444509	Q96KS9	F167A_HUMAN	hypothetical protein LOC83648	146	Potential.										0						TGTTGATGTCGCCACGCAGGC	0.632													12	29					0	0	0.016723	0	0		A	11282089	A	A	11282089	2	1	21	1	0	0	0	0	0	0	0	1	5494	1074	38	1		1	FAM167A	8	11282089	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	3105819	11282089	135081933	236	18804											
VPS37A	137492	broad.mit.edu	37	chr8	17125856	17125856	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggataaacaaggagtgtAtgttacctctccattagtaa	15	12	8	6	0	1	0	0	0	1	0	2	2	1	2	2	2	2	3	2	2	8	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:17125856A>G	uc003wxj.2	+	3	643	c.290A>G	c.(289-291)TAT>TGT	p.Y97C	VPS37A_uc003wxk.2_Missense_Mutation_p.Y72C	NM_152415	NP_689628	Q8NEZ2	VP37A_HUMAN	hepatocellular carcinoma related protein 1	97					cellular membrane organization|endosome transport|protein transport	centrosome|late endosome membrane|nucleus					0				Colorectal(111;0.0553)|COAD - Colon adenocarcinoma(73;0.212)		CAAGGAGTGTATGTTACCTCT	0.333													21	70					0	0	0.012319	0	0		G	17125856	G	G	17125856	3	3	21	1	0	0	0	0	1	0	0	0	17231	449	16	3	300	3	VPS37A	8	17125856	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	5843767	17125856	129238166	237	18805											
SLC18A1	6570	broad.mit.edu	37	chr8	20008200	20008200	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcttgttggccaacacAccaaagaggttggtgccaat	11	9	9	12	0	1	1	0	0	1	1	1	1	1	1	4	3	2	2	4	3	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:20008200A>G	uc011kyq.1	-	12	1542	c.1071T>C	c.(1069-1071)GGT>GGC	p.G357G	SLC18A1_uc003wzl.2_Silent_p.G144G|SLC18A1_uc003wzm.2_Silent_p.G357G|SLC18A1_uc011kyr.1_Silent_p.G357G|SLC18A1_uc003wzn.2_Silent_p.G325G|SLC18A1_uc010ltf.2_RNA|SLC18A1_uc003wzo.2_Silent_p.G325G	NM_001135691	NP_001129163	P54219	VMAT1_HUMAN	solute carrier family 18 (vesicular monoamine),	357	Helical; (Potential).				neurotransmitter transport	clathrin sculpted monoamine transport vesicle membrane|integral to membrane|membrane fraction	drug transmembrane transporter activity|monoamine transmembrane transporter activity			ovary(2)	2				Colorectal(74;0.0747)		TGGCCAACACACCAAAGAGGT	0.498													59	192					0	0	0.01441	0	0		G	20008200	G	G	20008200	2	3	21	1	0	0	0	0	0	0	0	1	14450	146	6	3		3	SLC18A1	8	20008200	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	2882344	20008200	126355822	238	18806											
DOCK5	80005	broad.mit.edu	37	chr8	25199933	25199933	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagcgtgctcttctgcaaaTtcattcaaagcattcctgac	10	12	6	13	1	4	1	2	1	2	0	5	1	5	1	2	0	4	3	2	0	2	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:25199933T>G	uc003xeg.2	+	25	2664	c.2527T>G	c.(2527-2529)TTC>GTC	p.F843V	DOCK5_uc010luf.1_RNA|DOCK5_uc003xeh.1_Missense_Mutation_p.F557V|DOCK5_uc003xei.2_Missense_Mutation_p.F413V|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	843						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		CTTCTGCAAATTCATTCAAAG	0.448													5	9					0	0	0.001168	0	0		G	25199933	G	G	25199933	3	3	21	1	0	0	0	0	1	0	0	0	4696	1493	52	5	2625	5	DOCK5	8	25199933	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	5191733	25199933	121164089	239	18807											
XKR4	114786	broad.mit.edu	37	chr8	56435947	56435947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccatcagctacatggccGtcatcatccagttctgctgg	8	10	9	14	1	4	0	3	0	1	0	5	0	5	0	3	2	4	3	3	2	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:56435947G>A	uc003xsf.2	+	3	1146	c.1114G>A	c.(1114-1116)GTC>ATC	p.V372I		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	372	Helical; (Potential).					integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			CTACATGGCCGTCATCATCCA	0.582													129	91					0	0	0.01441	0	0		A	56435947	A	A	56435947	3	1	21	1	0	0	0	0	1	0	0	0	17459	1145	40	1	1124	1	XKR4	8	56435947	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	31236014	56435947	89928075	240	18808											
VCPIP1	80124	broad.mit.edu	37	chr8	67547095	67547095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcaatttttttcgctgggCctcaaccaaatcaggatcaa	11	12	7	11	1	3	0	3	0	0	0	4	1	3	1	2	2	2	2	2	2	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:67547095C>T	uc003xwn.2	-	3	3569	c.3310G>A	c.(3310-3312)GCC>ACC	p.A1104T		NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	1104					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			TTTCGCTGGGCCTCAACCAAA	0.448													50	174					0	0	0.01441	0	0		T	67547095	T	T	67547095	3	4	21	1	0	0	0	0	1	0	0	0	17167	739	26	2	362	2	VCPIP1	8	67547095	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	11111148	67547095	78816927	241	18809											
EYA1	2138	broad.mit.edu	37	chr8	72184073	72184073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcccatctgaacctcgacGcaatcgatcagaatctgaat	12	11	6	12	3	3	3	1	2	2	1	6	5	4	3	2	0	1	1	2	0	4	1	rs142104253		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:72184073G>A	uc003xys.3	-	9	1173	c.886C>T	c.(886-888)CGT>TGT	p.R296C	EYA1_uc003xyr.3_Missense_Mutation_p.R291C|EYA1_uc003xyt.3_Missense_Mutation_p.R263C|EYA1_uc010lzf.2_Missense_Mutation_p.R223C|EYA1_uc003xyu.2_Missense_Mutation_p.R296C|EYA1_uc011lfe.1_Missense_Mutation_p.R290C|EYA1_uc003xyv.2_Missense_Mutation_p.R174C	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	296					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			GAACCTCGACGCAATCGATCA	0.463													100	464					0	0	0.01441	0	0		A	72184073	A	A	72184073	3	1	21	1	0	0	0	0	1	0	0	0	5336	1087	38	1	928	1	EYA1	8	72184073	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	4636978	72184073	74179949	242	18810											
HNF4G	3174	broad.mit.edu	37	chr8	76456180	76456180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcaagggtttcttcagaCgcagcattcgtaagagtcac	10	10	12	9	2	3	2	2	0	1	2	4	2	3	2	0	2	2	5	0	2	2	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:76456180C>T	uc003yaq.2	+	3	382	c.112C>T	c.(112-114)CGC>TGC	p.R38C	HNF4G_uc003yap.1_Missense_Mutation_p.R38C|HNF4G_uc003yar.2_Missense_Mutation_p.R75C	NM_004133	NP_004124	Q14541	HNF4G_HUMAN	hepatocyte nuclear factor 4, gamma	38	Nuclear receptor.				endocrine pancreas development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1	Breast(64;0.0448)		BRCA - Breast invasive adenocarcinoma(89;0.161)			TTTCTTCAGACGCAGCATTCG	0.448													119	100					0	0	0.01441	0	0		T	76456180	T	T	76456180	3	4	21	1	0	0	0	0	1	0	0	0	7270	536	19	1	229	1	HNF4G	8	76456180	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	4272107	76456180	69907842	243	18811											
ZFHX4	79776	broad.mit.edu	37	chr8	77764274	77764274	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcacgaattacaacagcaagCcgcattctttcagcctcagt	12	9	7	13	2	3	0	2	0	1	0	3	1	3	0	2	0	5	3	2	0	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:77764274C>A	uc003yav.2	+	10	5369	c.4982C>A	c.(4981-4983)GCC>GAC	p.A1661D	ZFHX4_uc003yau.1_Missense_Mutation_p.A1706D|ZFHX4_uc003yaw.1_Missense_Mutation_p.A1661D	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1661	Gln-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CAACAGCAAGCCGCATTCTTT	0.463										HNSCC(33;0.089)			37	127					2.32173e-10	2.59205e-10	0.021022	1	0		A	77764274	A	A	77764274	3	1	21	1	0	0	0	0	1	0	0	0	17660	739	26	5	5151	5	ZFHX4	8	77764274	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1308094	77764274	68599748	244	18812											
SLC7A13	157724	broad.mit.edu	37	chr8	87229783	87229784	+	Frame_Shift_Ins	INS	-	A	A																															tagaccataatgaacccgtgINSaaaaaaatatagtttatcaa																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:87229783_87229784insA	uc003ydq.1	-	3	1192_1193	c.1094_1095insT	c.(1093-1095)TTCfs	p.F365fs	SLC7A13_uc003ydr.1_Frame_Shift_Ins_p.F356fs	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	365	Helical; Name=10; (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						ATGAACCCGTGAAAAAAATATA	0.337													55	59	---	---	---	---						.	A	87229784	A	A	87229783	7	5	21	1	0	1	1	0	0	0	0	0	14720	1281	45	0	325	0	SLC7A13	8	87229783	Frame_Shift_Ins	INS	-	TCGA-BR-4363-01A-01D-1158-08	9465509	87229783	59134239	245	18813											
CPNE3	8895	broad.mit.edu	37	chr8	87560586	87560586	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctccagactcccttcatTacatcagccccaatggcgtt	8	11	7	15	1	3	1	2	0	1	1	5	1	4	1	4	2	2	1	4	2	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:87560586T>C	uc003ydv.2	+	12	1099	c.937T>C	c.(937-939)TAC>CAC	p.Y313H	CPNE3_uc003ydw.1_Missense_Mutation_p.Y29H	NM_003909	NP_003900	O75131	CPNE3_HUMAN	copine III	313	VWFA.				lipid metabolic process|vesicle-mediated transport	cytosol	calcium-dependent phospholipid binding|protein serine/threonine kinase activity|transporter activity			ovary(1)|skin(1)	2						CTCCCTTCATTACATCAGCCC	0.478													31	161					0	0	0.008361	0	0		C	87560586	C	C	87560586	3	2	21	1	0	0	0	0	1	0	0	0	3816	1754	61	3	975	3	CPNE3	8	87560586	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	330803	87560586	58803436	246	18814											
ZFPM2	23414	broad.mit.edu	37	chr8	106573672	106573672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgggaacaacctgggggcCgtttcctgggaagatggact	9	8	16	8	1	0	1	0	0	0	1	1	4	1	4	3	5	2	1	3	5	3	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:106573672C>T	uc003ymd.2	+	4	406	c.383C>T	c.(382-384)CCG>CTG	p.P128L		NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	128					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			ACCTGGGGGCCGTTTCCTGGG	0.438													5	86					0	0	0.001168	0	0		T	106573672	T	T	106573672	3	4	21	1	0	0	0	0	1	0	0	0	17683	652	23	1	397	1	ZFPM2	8	106573672	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	19013086	106573672	39790350	247	18815											
PKHD1L1	93035	broad.mit.edu	37	chr8	110453038	110453038	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgaaatcaccataaggggTtttggattcagcacaatacc	14	10	8	9	0	2	1	2	1	0	0	2	2	2	2	2	3	2	2	2	3	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:110453038T>C	uc003yne.2	+	33	4160	c.4056T>C	c.(4054-4056)GGT>GGC	p.G1352G		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1352	Extracellular (Potential).|IPT/TIG 7.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CCATAAGGGGTTTTGGATTCA	0.378										HNSCC(38;0.096)			7	280					0	0	0.004482	0	0		C	110453038	C	C	110453038	2	2	21	1	0	0	0	0	0	0	0	1	11991	1712	60	3		3	PKHD1L1	8	110453038	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	3879366	110453038	35910984	248	18816											
CSMD3	114788	broad.mit.edu	37	chr8	114186058	114186058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccagttacacagctgtagCggatcttgtccccgacgtcg	8	10	10	13	4	1	0	0	0	1	0	4	2	3	1	3	1	3	3	3	1	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:114186058C>T	uc003ynu.2	-	4	761	c.602G>A	c.(601-603)CGC>CAC	p.R201H	CSMD3_uc003ynt.2_Missense_Mutation_p.R161H|CSMD3_uc011lhx.1_Missense_Mutation_p.R201H|CSMD3_uc010mcx.1_Missense_Mutation_p.R201H	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	201	Extracellular (Potential).|Sushi 1.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ACAGCTGTAGCGGATCTTGTC	0.458										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			46	190					0	0	0.013114	0	0		T	114186058	T	T	114186058	3	4	21	1	0	0	0	0	1	0	0	0	3949	768	27	1	10793	1	CSMD3	8	114186058	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3733020	114186058	32177964	249	18817											
TNFRSF11B	4982	broad.mit.edu	37	chr8	119945336	119945336	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcagtatagacactcGtcactggtgtgccagctgtc	7	10	13	11	1	1	1	1	0	0	1	3	1	1	1	1	2	3	4	1	2	2	2	rs144654126	byFrequency	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:119945336G>A	uc003yon.3	-	2	557	c.234C>T	c.(232-234)GAC>GAT	p.D78D	TNFRSF11B_uc010mdc.1_RNA	NM_002546	NP_002537	O00300	TR11B_HUMAN	osteoprotegerin precursor	78	TNFR-Cys 2.				apoptosis|skeletal system development		cytokine activity|receptor activity			central_nervous_system(2)	2	all_cancers(13;3.71e-26)|Lung NSC(37;1.69e-07)|Ovarian(258;0.018)|all_neural(195;0.0592)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00193)			ATAGACACTCGTCACTGGTGT	0.567													53	215					0	0	0.01441	0	0		A	119945336	A	A	119945336	2	1	21	1	0	0	0	0	0	0	0	1	16310	1136	40	1		1	TNFRSF11B	8	119945336	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	5759278	119945336	26418686	250	18818											
HAS2	3037	broad.mit.edu	37	chr8	122627103	122627103	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggttgcccataaattctTgattgtaccaatcttccaca	11	15	5	10	0	2	1	0	1	2	0	3	1	3	1	3	1	2	2	3	1	4	8			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:122627103T>C	uc003yph.2	-	4	1443	c.905A>G	c.(904-906)CAA>CGA	p.Q302R		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	302	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			CATAAATTCTTGATTGTACCA	0.458													99	423					0	0	0.01441	0	0		C	122627103	C	C	122627103	3	2	21	1	0	0	0	0	1	0	0	0	6978	1812	63	3	757	3	HAS2	8	122627103	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	2681767	122627103	23736919	251	18819											
ZHX2	22882	broad.mit.edu	37	chr8	123964445	123964445	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcgagactcggcggggTggagctcctccaagacacat	8	7	12	14	3	1	2	0	0	1	2	5	4	3	3	3	4	1	1	3	4	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:123964445T>G	uc003ypk.1	+	3	1262	c.695T>G	c.(694-696)GTG>GGG	p.V232G		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	232	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			CTCGGCGGGGTGGAGCTCCTC	0.582													8	177					0	0	0.01441	0	0		G	123964445	G	G	123964445	3	3	21	1	0	0	0	0	1	0	0	0	17701	1696	59	5	697	5	ZHX2	8	123964445	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	1337342	123964445	22399577	252	18820											
FAM83A	84985	broad.mit.edu	37	chr8	124195533	124195533	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagaccgtcaagcacaacaAcatcagagacctcgtccgcc	13	4	7	17	3	2	2	2	0	0	2	4	3	3	2	5	0	3	1	5	0	3	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:124195533A>G	uc003ypv.2	+	2	2451	c.437A>G	c.(436-438)AAC>AGC	p.N146S	FAM83A_uc003ypw.2_Missense_Mutation_p.N146S|FAM83A_uc003ypy.2_Missense_Mutation_p.N146S|FAM83A_uc003ypx.2_Missense_Mutation_p.N146S|FAM83A_uc003ypz.2_Missense_Mutation_p.N146S	NM_032899	NP_116288	Q86UY5	FA83A_HUMAN	hypothetical protein LOC84985 isoform a	146										ovary(3)|skin(1)	4	Lung NSC(37;1.55e-09)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			AAGCACAACAACATCAGAGAC	0.612													22	146					0	0	0.010504	0	0		G	124195533	G	G	124195533	3	3	21	1	0	0	0	0	1	0	0	0	5647	43	2	3	439	3	FAM83A	8	124195533	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	231088	124195533	22168489	253	18821											
FAM135B	51059	broad.mit.edu	37	chr8	139158276	139158276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgaaagtctttaccagccGgaggtctgcactgttcccta	9	12	9	11	1	2	1	0	1	2	0	3	2	3	2	3	2	3	2	3	2	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:139158276G>A	uc003yuy.2	-	15	3637	c.3466C>T	c.(3466-3468)CGG>TGG	p.R1156W	FAM135B_uc003yux.2_Missense_Mutation_p.R1057W|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.R718W|FAM135B_uc003yvb.2_Missense_Mutation_p.P683L	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1156										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			TTTACCAGCCGGAGGTCTGCA	0.438										HNSCC(54;0.14)			28	100					0	0	0.009535	0	0		A	139158276	A	A	139158276	3	1	21	1	0	0	0	0	1	0	0	0	5460	1115	39	1	778	1	FAM135B	8	139158276	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	14962743	139158276	7205746	254	18822											
EEF1D	1936	broad.mit.edu	37	chr8	144663405	144663405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccggggcctcaccgccacGcagactctggttctccactt	5	8	10	18	3	3	1	1	0	2	1	4	1	3	1	5	3	0	2	5	3	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr8:144663405G>A	uc011lki.1	-	4	552	c.283C>T	c.(283-285)CGT>TGT	p.R95C	NAPRT1_uc003yym.3_5'Flank|NAPRT1_uc003yyn.3_5'Flank|NAPRT1_uc011lkh.1_5'Flank|NAPRT1_uc003yyo.3_5'Flank|EEF1D_uc003yyp.1_Missense_Mutation_p.R437C|EEF1D_uc003yyq.1_Missense_Mutation_p.R511C|EEF1D_uc011lkj.1_Missense_Mutation_p.R460C|EEF1D_uc003yyr.2_Missense_Mutation_p.R461C|EEF1D_uc003yyt.2_Missense_Mutation_p.R461C|EEF1D_uc011lkk.1_Missense_Mutation_p.R95C|EEF1D_uc003yys.2_Missense_Mutation_p.R95C|EEF1D_uc003yyv.2_Missense_Mutation_p.R71C|EEF1D_uc003yyu.2_Missense_Mutation_p.R95C|EEF1D_uc011lkl.1_Intron	NM_001130057	NP_001123529	P29692	EF1D_HUMAN	eukaryotic translation elongation factor 1 delta	95					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|signal transducer activity|translation elongation factor activity			ovary(1)|kidney(1)|skin(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			TCACCGCCACGCAGACTCTGG	0.687													7	41					0	0	0.013537	0	0		A	144663405	A	A	144663405	3	1	21	1	0	0	0	0	1	0	0	0	4932	1087	38	1	582	1	EEF1D	8	144663405	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	5505129	144663405	1700617	255	18823											
DOCK8	81704	broad.mit.edu	37	chr9	332451	332451	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactgtgcagagccctacacGgttatcaaagaaagtgatgg	13	8	12	8	1	1	3	1	1	0	2	1	4	1	3	1	2	3	2	1	2	4	2	rs139297216		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:332451G>A	uc003zgf.2	+	10	1210	c.1098G>A	c.(1096-1098)ACG>ACA	p.T366T	DOCK8_uc011lls.1_Silent_p.T366T|DOCK8_uc010mgu.2_5'UTR|DOCK8_uc010mgv.2_Silent_p.T298T|DOCK8_uc003zgg.2_Silent_p.T298T|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	366	DHR-1.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		AGCCCTACACGGTTATCAAAG	0.348													30	65					0	0	0.017118	0	0		A	332451	A	A	332451	2	1	21	1	0	0	0	0	0	0	0	1	4699	1103	39	1		1	DOCK8	9	332451	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08		332451	140880980	256	18824											
DOCK8	81704	broad.mit.edu	37	chr9	414890	414890	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgaaggtcaaaatcgccgcCctttacctacctttagttgg	9	12	9	11	2	1	1	1	1	0	0	2	1	1	1	4	2	2	1	4	2	6	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:414890C>T	uc003zgf.2	+	29	3751	c.3639C>T	c.(3637-3639)GCC>GCT	p.A1213A	DOCK8_uc010mgu.2_Silent_p.A515A|DOCK8_uc010mgv.2_Silent_p.A1113A|DOCK8_uc003zgk.2_Silent_p.A671A	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	1213					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		AAATCGCCGCCCTTTACCTAC	0.478													92	169					0	0	0.01441	0	0		T	414890	T	T	414890	2	4	21	1	0	0	0	0	0	0	0	1	4699	610	22	4		4	DOCK8	9	414890	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	82439	414890	140798541	257	18825											
INSL6	11172	broad.mit.edu	37	chr9	5185595	5185595	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggacaagcggaggagcCgcggcatccctgtgacccca	9	3	15	14	3	0	1	0	1	0	0	1	4	1	4	4	4	2	2	4	4	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:5185595C>T	uc003zix.2	-	1	24	c.8G>A	c.(7-9)CGG>CAG	p.R3Q		NM_007179	NP_009110	Q9Y581	INSL6_HUMAN	insulin-like 6 precursor	3						extracellular region	hormone activity				0	all_hematologic(13;0.137)	Breast(48;0.147)|Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0128)|Lung(218;0.145)		GCGGAGGAGCCGCGGCATCCC	0.672													7	9					0	0	0.008291	0	0		T	5185595	T	T	5185595	3	4	21	1	0	0	0	0	1	0	0	0	7786	652	23	1	641	1	INSL6	9	5185595	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	4770705	5185595	136027836	258	18826											
PSIP1	11168	broad.mit.edu	37	chr9	15468838	15468838	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgactaactttgaatcgccGtatctgagaaaacaatatac	15	11	6	9	2	1	3	0	3	1	1	2	4	1	3	1	0	3	1	1	0	8	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:15468838G>A	uc003zlv.3	-	14	1540	c.1210C>T	c.(1210-1212)CGG>TGG	p.R404W	PSIP1_uc003zlw.3_Missense_Mutation_p.R404W	NM_033222	NP_150091	O75475	PSIP1_HUMAN	PC4 and SFRS1 interacting protein 1 isoform 2	404					initiation of viral infection|interspecies interaction between organisms|nuclear mRNA 5'-splice site recognition|provirus integration|regulation of transcription, DNA-dependent|response to heat|response to oxidative stress|transcription, DNA-dependent	cytosol|nuclear heterochromatin|nuclear periphery|nucleoplasm|nucleoplasm|transcriptionally active chromatin	activating transcription factor binding|chromatin binding|DNA secondary structure binding|RNA polymerase II transcription coactivator activity			breast(1)	1				GBM - Glioblastoma multiforme(50;2.38e-06)		TTGAATCGCCGTATCTGAGAA	0.303													20	47					0	0	0.008871	0	0		A	15468838	A	A	15468838	3	1	21	1	0	0	0	0	1	0	0	0	12685	1144	40	1	394	1	PSIP1	9	15468838	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	10283243	15468838	125744593	259	18827											
B4GALT1	2683	broad.mit.edu	37	chr9	33115994	33115994	+	Frame_Shift_Del	DEL	A	-	-																															agttatgaccattacctgttAaaaatgtcatcatcttctcc																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:33115994delA	uc003zsg.2	-	4	1143	c.954delT	c.(952-954)TTTfs	p.F318fs		NM_001497	NP_001488	P15291	B4GT1_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	318	Lumenal (Potential).				oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	basolateral plasma membrane|brush border membrane|desmosome|external side of plasma membrane|extracellular region|glycocalyx|Golgi cisterna membrane|Golgi trans cisterna|integral to membrane	alpha-tubulin binding|beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|beta-tubulin binding|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity|protein binding|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(29;0.0084)	GBM - Glioblastoma multiforme(74;0.121)	N-Acetyl-D-glucosamine(DB00141)	ATTACCTGTTAAAAATGTCAT	0.398													38	72	---	---	---	---						.	-	33115994	-	-	33115994	7	5	21	1	0	1	0	1	0	0	0	0	1271	359	13	0	254	0	B4GALT1	9	33115994	Frame_Shift_Del	DEL	A	TCGA-BR-4363-01A-01D-1158-08	17647156	33115994	108097437	260	18828											
CNTFR	1271	broad.mit.edu	37	chr9	34564807	34564807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcacgtcagagcccaggcGctcgtactgcacatggggtg	7	8	14	12	3	2	1	2	0	0	1	3	1	2	1	1	3	3	3	1	3	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:34564807G>A	uc003zup.1	-	4	390	c.109C>T	c.(109-111)CGC>TGC	p.R37C	CNTFR_uc003zuq.1_Missense_Mutation_p.R37C	NM_147164	NP_671693	P26992	CNTFR_HUMAN	ciliary neurotrophic factor receptor	37	Ig-like C2-type.				nervous system development	anchored to membrane|extrinsic to membrane|plasma membrane	ciliary neurotrophic factor receptor activity|receptor binding			ovary(3)|central_nervous_system(1)|skin(1)	5	all_epithelial(49;0.0899)		STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.00494)		GAGCCCAGGCGCTCGTACTGC	0.652													27	53					0	0	0.007291	0	0		A	34564807	A	A	34564807	3	1	21	1	0	0	0	0	1	0	0	0	3641	1087	38	1	1037	1	CNTFR	9	34564807	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1448813	34564807	106648624	261	18829											
RUSC2	9853	broad.mit.edu	37	chr9	35557979	35557979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggcacaagccgggatcccGgggtgaaggtaggcaaggaa	11	5	17	8	2	0	1	0	1	0	0	1	3	1	3	2	7	1	3	2	7	5	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:35557979G>A	uc003zww.2	+	6	3307	c.3052G>A	c.(3052-3054)GGG>AGG	p.G1018R	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.G1018R	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	1018						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			CCGGGATCCCGGGGTGAAGGT	0.557													24	83					0	0	0.01892	0	0		A	35557979	A	A	35557979	3	1	21	1	0	0	0	0	1	0	0	0	13776	1116	39	1	3070	1	RUSC2	9	35557979	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	993172	35557979	105655452	262	18830											
TLN1	7094	broad.mit.edu	37	chr9	35717226	35717226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataacggccagcaggcccaGcccctgtggcatgggctttc	7	7	12	15	1	0	0	0	0	0	0	1	0	0	0	4	4	3	3	4	4	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:35717226G>A	uc003zxt.2	-	19	2729	c.2375C>T	c.(2374-2376)GCT>GTT	p.A792V		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	792					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			AGCAGGCCCAGCCCCTGTGGC	0.587													5	43					0	0	0.001168	0	0		A	35717226	A	A	35717226	3	1	21	1	0	0	0	0	1	0	0	0	15972	971	34	2	5406	2	TLN1	9	35717226	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	159247	35717226	105496205	263	18831											
FGD3	89846	broad.mit.edu	37	chr9	95738590	95738590	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggacccattgctgccctaGggatgccagacactgggcct	8	7	12	14	0	0	1	0	0	0	1	0	3	0	3	4	3	3	1	4	3	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:95738590G>T	uc004asw.2	+	3	680	c.52G>T	c.(52-54)GGG>TGG	p.G18W	FGD3_uc004asx.2_Missense_Mutation_p.G18W|FGD3_uc004asz.2_Missense_Mutation_p.G18W	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	18					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						TGCTGCCCTAGGGATGCCAGA	0.652													7	11					0.000274275	0.000297202	0.004482	1	0		T	95738590	T	T	95738590	3	4	21	1	0	0	0	0	1	0	0	0	5848	1000	35	5	54	5	FGD3	9	95738590	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	60021364	95738590	45474841	264	18832											
C9orf129	445577	broad.mit.edu	37	chr9	96080715	96080715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacggcgggacgctggggCagggcacactggcggagctg	7	3	21	10	4	0	1	0	0	0	1	0	4	0	3	0	7	1	4	0	7	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:96080715C>T	uc010mre.2	-	5	920	c.556G>A	c.(556-558)GCC>ACC	p.A186T	WNK2_uc011lud.1_3'UTR|WNK2_uc004atj.2_Intron|WNK2_uc004atk.2_3'UTR	NM_001098808	NP_001092278	Q5T035	CI129_HUMAN	hypothetical protein LOC445577	186										ovary(1)	1						GACGCTGGGGCAGGGCACACT	0.592													31	82					0	0	0.00623	0	0		T	96080715	T	T	96080715	3	4	21	1	0	0	0	0	1	0	0	0	2459	710	25	2	38	2	C9orf129	9	96080715	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	342125	96080715	45132716	265	18833											
PHF2	5253	broad.mit.edu	37	chr9	96437269	96437269	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taagtcccggtcgaagaaaaGgaaaggctcagacgacgctc	14	5	12	10	4	1	2	1	0	0	2	4	5	2	3	1	3	0	2	1	3	5	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:96437269G>T	uc004aub.2	+	19	2834	c.2687G>T	c.(2686-2688)AGG>ATG	p.R896M	PHF2_uc011lug.1_Missense_Mutation_p.R779M|PHF2_uc004auc.2_Missense_Mutation_p.R316M	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	896					liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		TCGAAGAAAAGGAAAGGCTCA	0.572													17	69					3.51602e-12	3.97611e-12	0.008871	1	0		T	96437269	T	T	96437269	3	4	21	1	0	0	0	0	1	0	0	0	11849	1000	35	5	2761	5	PHF2	9	96437269	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	356554	96437269	44776162	266	18834											
SLC35D2	11046	broad.mit.edu	37	chr9	99098997	99098998	+	Splice_Site	INS	-	C	C																															tacttatctatggtttcttaINSccccaaaaaacaggaaagaa																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:99098997_99098998insC	uc004awc.2	-	9	828	c.752_splice	c.e9+1	p.G251_splice	SLC35D2_uc010msd.2_Splice_Site|SLC35D2_uc010mse.2_Splice_Site_p.G204_splice|SLC35D2_uc010msf.2_Intron|SLC35D2_uc004awd.2_Intron	NM_007001	NP_008932	Q76EJ3	S35D2_HUMAN	solute carrier family 35, member D2							Golgi membrane|integral to membrane	nucleotide-sugar transmembrane transporter activity				0		Acute lymphoblastic leukemia(62;0.0167)				ATGGTTTCTTACCCCAAAAAAC	0.327													6	5	---	---	---	---						.	C	99098998	C	C	99098997	8	5	21	1	0	1	1	0	0	0	1	0	14607	405	14	0	275	0	SLC35D2	9	99098997	Splice_Site	INS	-	TCGA-BR-4363-01A-01D-1158-08	2661728	99098997	42114434	267	18835											
PTPN3	5774	broad.mit.edu	37	chr9	112207535	112207535	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacattgtacggcataggAcgctagaaccactgctgagt	11	10	10	10	2	0	2	0	1	0	1	0	3	0	3	1	2	4	4	1	2	5	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:112207535A>T	uc004bed.2	-	7	563	c.451T>A	c.(451-453)TCC>ACC	p.S151T	PTPN3_uc004beb.2_Missense_Mutation_p.S20T|PTPN3_uc004bec.2_Missense_Mutation_p.S20T|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Missense_Mutation_p.S151T|PTPN3_uc011lwh.1_Missense_Mutation_p.S42T	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	151	FERM.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						ACGGCATAGGACGCTAGAACC	0.458													14	48					0	0	0.006122	0	0		T	112207535	T	T	112207535	3	4	21	1	0	0	0	0	1	0	0	0	12814	275	10	5	2370	5	PTPN3	9	112207535	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	13108538	112207535	29005896	268	18836											
ZNF483	158399	broad.mit.edu	37	chr9	114305357	114305357	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacacctaaaaattcatacCggaaggagagaatatgaatg	19	7	9	6	1	1	2	1	1	0	1	1	6	1	4	2	2	2	0	2	2	9	4	rs142474847		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:114305357C>T	uc004bff.2	+	6	2366	c.2142C>T	c.(2140-2142)ACC>ACT	p.T714T	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	714					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						AAATTCATACCGGAAGGAGAG	0.403													4	148					0	0	0.009096	0	0		T	114305357	T	T	114305357	2	4	21	1	0	0	0	0	0	0	0	1	17961	639	23	1		1	ZNF483	9	114305357	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2097822	114305357	26908074	269	18837											
DAB2IP	153090	broad.mit.edu	37	chr9	124441061	124441061	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacgccgttccgggtcacgGtaactatctctgcgtcacca	7	9	9	16	5	3	0	2	0	1	0	5	0	4	0	4	2	2	2	4	2	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:124441061G>A	uc004bln.2	+	2	213	c.144_splice	c.e2+1	p.T48_splice		NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform						activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						CCGGGTCACGGTAACTATCTC	0.572													4	0					0	0	0.014758	0	0		A	124441061	A	A	124441061	5	1	21	1	0	0	0	0	0	0	1	0	4222	1275	44	4	151	4	DAB2IP	9	124441061	Splice_Site	SNP	G	TCGA-BR-4363-01A-01D-1158-08	10135704	124441061	16772370	270	18838											
DAB2IP	153090	broad.mit.edu	37	chr9	124535255	124535255	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcacctccgagggcgcGccaggccggccccagctgtt	5	4	14	18	4	0	0	0	0	0	0	1	1	1	0	7	4	1	3	7	4	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:124535255G>A	uc004bln.2	+	12	2433	c.2364G>A	c.(2362-2364)GCG>GCA	p.A788A	DAB2IP_uc004blo.2_Silent_p.A692A|DAB2IP_uc004blp.2_Silent_p.A221A	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	816					activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						CCGAGGGCGCGCCAGGCCGGC	0.726													10	36					0	0	0.016723	0	0		A	124535255	A	A	124535255	2	1	21	1	0	0	0	0	0	0	0	1	4222	1074	38	1		1	DAB2IP	9	124535255	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	94194	124535255	16678176	271	18839											
SH2D3C	10044	broad.mit.edu	37	chr9	130502091	130502091	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggctcagggccctctggTggggccgagtcacactccag	6	6	15	14	1	3	0	2	0	1	0	4	1	4	0	3	5	0	1	3	5	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:130502091T>C	uc004bsc.2	-	11	2419	c.2277A>G	c.(2275-2277)CCA>CCG	p.P759P	SH2D3C_uc010mxo.2_Silent_p.P599P|SH2D3C_uc004bry.2_Silent_p.P601P|SH2D3C_uc004brz.3_Silent_p.P405P|SH2D3C_uc011mak.1_Silent_p.P405P|SH2D3C_uc004bsa.2_Silent_p.P602P|SH2D3C_uc004bsb.2_Silent_p.P691P	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a	759	Ras-GEF.				JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						GGCCCTCTGGTGGGGCCGAGT	0.682													7	8					0	0	0.001984	0	0		C	130502091	C	C	130502091	2	2	21	1	0	0	0	0	0	0	0	1	14259	1683	59	3		3	SH2D3C	9	130502091	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	5966836	130502091	10711340	272	18840											
WDR34	89891	broad.mit.edu	37	chr9	131396974	131396974	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccctacgtacctgtggAagggggaacagctcacagag	10	6	13	12	1	1	1	1	0	0	1	1	3	1	3	3	3	5	2	3	3	4	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:131396974A>G	uc004bvq.1	-	7	1332	c.1208T>C	c.(1207-1209)TTC>TCC	p.F403S	WDR34_uc004bvs.1_Missense_Mutation_p.F394S|WDR34_uc004bvr.1_Missense_Mutation_p.F375S	NM_052844	NP_443076	Q96EX3	WDR34_HUMAN	WD repeat domain 34	403	WD 3.					cytoplasm				central_nervous_system(2)|skin(1)	3						GTACCTGTGGAAGGGGGAACA	0.657													3	10					0	0	0.004672	0	0		G	131396974	G	G	131396974	3	3	21	1	0	0	0	0	1	0	0	0	17314	246	9	3	414	3	WDR34	9	131396974	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	894883	131396974	9816457	273	18841											
UCK1	83549	broad.mit.edu	37	chr9	134400578	134400578	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaccattcagaatgtccTggatgtgctgcacgatcagg	9	11	11	10	1	3	1	3	0	0	1	4	3	4	2	2	2	2	2	2	2	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:134400578T>C	uc004cay.2	-	7	784	c.683A>G	c.(682-684)CAG>CGG	p.Q228R	UCK1_uc010mzk.2_Missense_Mutation_p.Q219R|UCK1_uc004cba.2_Silent_p.P196P|UCK1_uc004caz.2_RNA	NM_031432	NP_113620	Q9HA47	UCK1_HUMAN	uridine-cytidine kinase 1 isoform a	228					pyrimidine base metabolic process|pyrimidine nucleoside salvage	cytosol	ATP binding|phosphotransferase activity, alcohol group as acceptor|uridine kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;2.34e-05)|Epithelial(140;0.000219)		CAGAATGTCCTGGATGTGCTG	0.602													21	46					0	0	0.014323	0	0		C	134400578	C	C	134400578	3	2	21	1	0	0	0	0	1	0	0	0	16949	1580	55	3	154	3	UCK1	9	134400578	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	3003604	134400578	6812853	274	18842											
COL5A1	1289	broad.mit.edu	37	chr9	137710590	137710590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccggaccggatggccttcGagggatccctggccctgtgg	4	7	16	14	3	0	0	0	0	0	0	2	4	1	3	5	6	0	0	5	6	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:137710590G>A	uc004cfe.2	+	55	4701	c.4319G>A	c.(4318-4320)CGA>CAA	p.R1440Q		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1440	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GATGGCCTTCGAGGGATCCCT	0.682													8	13					0	0	0.006214	0	0		A	137710590	A	A	137710590	3	1	21	1	0	0	0	0	1	0	0	0	3699	1058	37	1	4537	1	COL5A1	9	137710590	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	3310012	137710590	3502841	275	18843											
COL5A1	1289	broad.mit.edu	37	chr9	137716476	137716476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagaggtcatccagcccctgCcaatccaggcatccaggacg	10	5	11	15	1	1	1	1	0	0	1	4	3	4	2	6	3	2	1	6	3	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:137716476C>T	uc004cfe.2	+	62	5111	c.4729C>T	c.(4729-4731)CCA>TCA	p.P1577S	uc004cff.2_Intron	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1577	Nonhelical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		CCAGCCCCTGCCAATCCAGGC	0.647													17	22					0	0	0.008871	0	0		T	137716476	T	T	137716476	3	4	21	1	0	0	0	0	1	0	0	0	3699	739	26	2	4975	2	COL5A1	9	137716476	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	5886	137716476	3496955	276	18844											
COL5A1	1289	broad.mit.edu	37	chr9	137727007	137727007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacgacgaggagatgtcctAtgacaacaacccctacatcc	14	6	7	14	2	0	2	0	1	0	1	2	5	2	2	4	1	4	0	4	1	5	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr9:137727007A>G	uc004cfe.2	+	65	5709	c.5327A>G	c.(5326-5328)TAT>TGT	p.Y1776C	uc004cff.2_Intron	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1776	Fibrillar collagen NC1.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GAGATGTCCTATGACAACAAC	0.667													20	38					0	0	0.014323	0	0		G	137727007	G	G	137727007	3	3	21	1	0	0	0	0	1	0	0	0	3699	449	16	3	5585	3	COL5A1	9	137727007	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	10531	137727007	3486424	277	18845											
ZMYND11	10771	broad.mit.edu	37	chr10	298390	298390	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacgcggagcacaagcgcAcctgccgccggaaaagatga	12	2	14	13	5	0	2	0	1	0	1	0	4	0	4	3	3	3	3	3	3	3	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:298390A>G	uc010pzt.1	+	15	2217	c.1789A>G	c.(1789-1791)ACC>GCC	p.T597A	ZMYND11_uc010pzu.1_Missense_Mutation_p.T597A|ZMYND11_uc010pzv.1_Missense_Mutation_p.T542A|ZMYND11_uc010pzw.1_Missense_Mutation_p.T512A|ZMYND11_uc001ifm.2_Missense_Mutation_p.T543A|ZMYND11_uc009xhg.2_Missense_Mutation_p.T580A|ZMYND11_uc009xhh.2_Missense_Mutation_p.T471A|ZMYND11_uc010pzy.1_Missense_Mutation_p.T449A	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	557	MYND-type.				cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GCACAAGCGCACCTGCCGCCG	0.542													39	105					0	0	0.011902	0	0		G	298390	G	G	298390	3	3	21	1	0	0	0	0	1	0	0	0	17731	159	6	3	1864	3	ZMYND11	10	298390	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08		298390	135236357	278	18846											
LARP4B	23185	broad.mit.edu	37	chr10	890939	890939	+	Frame_Shift_Del	DEL	T	-	-																															agataagcagaattccaatgTttttttaagtacttctcggg																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:890939delT	uc001ifs.1	-	5	528	c.487delA	c.(487-489)ACAfs	p.T163fs		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	163	HTH La-type RNA-binding.						nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						AATTCCAATGTTTTTTTAAGT	0.353													45	104	---	---	---	---						.	-	890939	-	-	890939	7	5	21	1	0	1	0	1	0	0	0	0	8647	1725	60	0	1781	0	LARP4B	10	890939	Frame_Shift_Del	DEL	T	TCGA-BR-4363-01A-01D-1158-08	592549	890939	134643808	279	18847											
PFKP	5214	broad.mit.edu	37	chr10	3155656	3155656	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgcgtgggcattgccgaCggccacaggatgctcgccat	6	7	15	13	5	0	0	0	0	0	0	1	2	0	1	3	3	3	2	3	3	0	1	rs148946725		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:3155656C>T	uc001igp.2	+	13	1353	c.1317C>T	c.(1315-1317)GAC>GAT	p.D439D	PFKP_uc001igq.2_Silent_p.D431D|PFKP_uc009xhr.2_Silent_p.D401D|PFKP_uc009xhs.1_Silent_p.D223D|PFKP_uc009xht.2_Silent_p.D177D|PFKP_uc009xhu.2_Translation_Start_Site	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	439					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		GCATTGCCGACGGCCACAGGA	0.617													10	14					0	0	0.006122	0	0		T	3155656	T	T	3155656	2	4	21	1	0	0	0	0	0	0	0	1	11785	535	19	1		1	PFKP	10	3155656	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2264717	3155656	132379091	280	18848											
TAF3	83860	broad.mit.edu	37	chr10	8007107	8007107	+	Frame_Shift_Del	DEL	A	-	-																															gcagagagatagggagagggAaaaagacaagaacaaggaca																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:8007107delA	uc010qbd.1	+	3	1634	c.1634delA	c.(1633-1635)GAAfs	p.E545fs		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	545	Lys-rich.				maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						agggagagggaaaaagacaag	0.204													18	38	---	---	---	---						.	-	8007107	-	-	8007107	7	5	21	1	0	1	0	1	0	0	0	0	15550	246	9	0	1644	0	TAF3	10	8007107	Frame_Shift_Del	DEL	A	TCGA-BR-4363-01A-01D-1158-08	4851451	8007107	127527640	281	18849											
UPF2	26019	broad.mit.edu	37	chr10	11997436	11997436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taacagctgattccaccattCggtaattgtaaagttctcct	11	14	6	10	1	1	1	0	1	1	0	4	1	2	1	3	1	2	4	3	1	4	7			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:11997436C>T	uc001ila.2	-	13	3119	c.2645G>A	c.(2644-2646)CGA>CAA	p.R882Q	UPF2_uc001ilb.2_Missense_Mutation_p.R882Q|UPF2_uc001ilc.2_Missense_Mutation_p.R882Q|UPF2_uc009xiz.1_Missense_Mutation_p.R882Q	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	882	Sufficient for interaction with UPF3A and UPF3B.|MIF4G 3.|Sufficient for interaction with EIF4A1 and EIF1.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				TTCCACCATTCGGTAATTGTA	0.403													29	63					0	0	0.009535	0	0		T	11997436	T	T	11997436	3	4	21	1	0	0	0	0	1	0	0	0	17030	884	31	1	1209	1	UPF2	10	11997436	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3990329	11997436	123537311	282	18850											
CDC123	8872	broad.mit.edu	37	chr10	12291660	12291660	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttaccggctacccaaggaCtttgtagacctctctactgg	9	11	9	12	1	1	1	0	0	1	1	2	2	1	2	3	3	3	3	3	3	5	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:12291660C>T	uc001ill.2	+	12	1211	c.927C>T	c.(925-927)GAC>GAT	p.D309D	CDC123_uc001ilm.2_Silent_p.D321D	NM_006023	NP_006014	O75794	CD123_HUMAN	cell division cycle 123	309					cell cycle arrest|cell division|positive regulation of cell proliferation|regulation of mitotic cell cycle	cytoplasm				central_nervous_system(1)	1						TACCCAAGGACTTTGTAGACC	0.463													48	81					0	0	0.01441	0	0		T	12291660	T	T	12291660	2	4	21	1	0	0	0	0	0	0	0	1	3058	564	20	4		4	CDC123	10	12291660	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	294224	12291660	123243087	283	18851											
CCDC3	83643	broad.mit.edu	37	chr10	12940431	12940431	+	Frame_Shift_Del	DEL	G	-	-																															gcccgttacccccgcaggtaGggggggcgcacgggcccccg																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:12940431delG	uc001ilq.1	-	3	932	c.798delC	c.(796-798)CCCfs	p.P266fs	CCDC3_uc009xjb.1_RNA|CCDC3_uc001ilr.2_RNA|CCDC3_uc009xjc.1_RNA	NM_031455	NP_113643	Q9BQI4	CCDC3_HUMAN	coiled-coil domain containing 3 precursor	266						endoplasmic reticulum|extracellular region				ovary(1)	1		Ovarian(717;0.0822)	BRCA - Breast invasive adenocarcinoma(52;0.163)			CCCGCAGGTAGGGGGGGCGCA	0.642													17	34	---	---	---	---						.	-	12940431	-	-	12940431	7	5	21	1	0	1	0	1	0	0	0	0	2807	987	35	0	18	0	CCDC3	10	12940431	Frame_Shift_Del	DEL	G	TCGA-BR-4363-01A-01D-1158-08	648771	12940431	122594316	284	18852											
BEND7	222389	broad.mit.edu	37	chr10	13541863	13541863	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaactgtccactctggggCggtagctcattccacacacc	9	8	10	14	1	2	1	1	0	1	1	4	2	4	1	3	3	2	2	3	3	2	2	rs113945389	byFrequency	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:13541863C>T	uc001imm.2	-	3	504	c.207G>A	c.(205-207)CCG>CCA	p.P69P	BEND7_uc001imo.3_Silent_p.P69P	NM_152751	NP_689964	Q8N7W2	BEND7_HUMAN	BEN domain containing 7 isoform 1	121							protein binding			ovary(1)|breast(1)	2						CACTCTGGGGCGGTAGCTCAT	0.577													34	79					0	0	0.013726	0	0		T	13541863	T	T	13541863	2	4	21	1	0	0	0	0	0	0	0	1	1404	755	27	1		1	BEND7	10	13541863	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	601432	13541863	121992884	285	18853											
HSPA14	51182	broad.mit.edu	37	chr10	14896175	14896175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgagccatgatgaaattaacGaacagtgctgaagtagcgaa	16	7	11	7	3	0	3	0	3	0	0	0	6	0	3	1	0	5	2	1	0	6	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:14896175G>A	uc001inf.2	+	9	927	c.786G>A	c.(784-786)ACG>ACA	p.T262T		NM_016299	NP_057383	Q0VDF9	HSP7E_HUMAN	heat shock 70kDa protein 14 isoform 1	262					'de novo' cotranslational protein folding	cytosol	ATP binding|protein binding			ovary(2)|breast(2)|lung(1)	5						TGAAATTAACGAACAGTGCTG	0.378													39	81					0	0	0.01441	0	0		A	14896175	A	A	14896175	2	1	21	1	0	0	0	0	0	0	0	1	7423	1045	37	1		1	HSPA14	10	14896175	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1354312	14896175	120638572	286	18854											
PLXDC2	84898	broad.mit.edu	37	chr10	20290849	20290849	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagcgtcggccaagactcTcctgagcccagaagcttcac	10	6	10	15	2	2	3	1	1	1	2	4	3	2	3	3	1	3	2	3	1	3	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:20290849T>C	uc001iqg.1	+	2	895	c.258T>C	c.(256-258)TCT>TCC	p.S86S	PLXDC2_uc001iqh.1_Silent_p.S86S	NM_032812	NP_116201	Q6UX71	PXDC2_HUMAN	plexin domain containing 2 precursor	86	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4						GCCAAGACTCTCCTGAGCCCA	0.493													12	39					0	0	0.010729	0	0		C	20290849	C	C	20290849	2	2	21	1	0	0	0	0	0	0	0	1	12137	1538	54	3		3	PLXDC2	10	20290849	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	5394674	20290849	115243898	287	18855											
SVIL	6840	broad.mit.edu	37	chr10	29811362	29811362	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttaatagacatggttttGctgggtgagtcaagaaggcc	10	13	12	6	0	2	3	1	1	1	2	2	3	2	3	1	3	1	2	1	3	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:29811362G>A	uc001iut.1	-	16	4119	c.3366C>T	c.(3364-3366)AGC>AGT	p.S1122S	SVIL_uc010qdw.1_Silent_p.S20S|SVIL_uc001iuu.1_Silent_p.S696S	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1122					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				ACATGGTTTTGCTGGGTGAGT	0.483													27	48					0	0	0.00632	0	0		A	29811362	A	A	29811362	2	1	21	1	0	0	0	0	0	0	0	1	15446	1310	46	2		2	SVIL	10	29811362	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	9520513	29811362	105723385	288	18856											
GPRIN2	9721	broad.mit.edu	37	chr10	47000018	47000018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaggtgccgtcccctgtgCgggatgtgcgatgggatgct	5	9	18	9	3	0	0	0	0	0	0	1	4	1	3	3	4	4	1	3	4	0	0	rs114077038	by1000genomes	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:47000018C>T	uc001jec.2	+	3	1273	c.1138C>T	c.(1138-1140)CGG>TGG	p.R380W	GPRIN2_uc010qfq.1_Missense_Mutation_p.R143W	NM_014696	NP_055511	O60269	GRIN2_HUMAN	G protein-regulated inducer of neurite outgrowth	380											0						GTCCCCTGTGCGGGATGTGCG	0.647													14	109					0	0	0.020292	0	0		T	47000018	T	T	47000018	3	4	21	1	0	0	0	0	1	0	0	0	6746	759	27	1	1140	1	GPRIN2	10	47000018	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	17188656	47000018	88534729	289	18857											
GDF10	2662	broad.mit.edu	37	chr10	48429407	48429407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggcccaggggcagcgggCggcctgaagcgttcttggcc	4	5	19	13	4	1	1	0	1	1	0	1	1	1	1	3	6	2	2	3	6	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:48429407C>T	uc001jfb.2	-	2	935	c.479G>A	c.(478-480)CGC>CAC	p.R160H	GDF10_uc009xnp.2_Missense_Mutation_p.R159H|GDF10_uc009xnq.1_Missense_Mutation_p.R160H	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	160					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						GGGCAGCGGGCGGCCTGAAGC	0.682													5	21					0	0	0.00308	0	0		T	48429407	T	T	48429407	3	4	21	1	0	0	0	0	1	0	0	0	6326	768	27	1	965	1	GDF10	10	48429407	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1429389	48429407	87105340	290	18858											
C10orf128	170371	broad.mit.edu	37	chr10	50374941	50374941	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccccaggcgtgcttttcaGgtcggaagagtcgtcgtcaa	7	9	13	12	4	2	1	2	0	0	1	5	2	2	2	2	3	1	1	2	3	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:50374941G>T	uc001jhn.3	-	3	237	c.211C>A	c.(211-213)CTG>ATG	p.L71M	C10orf128_uc001jhl.3_RNA|C10orf128_uc001jhm.3_Missense_Mutation_p.L71M|C10orf128_uc010qgo.1_Missense_Mutation_p.L71M|C10orf128_uc001jho.3_Missense_Mutation_p.L71M	NM_001010863	NP_001010863	Q5T292	CJ128_HUMAN	hypothetical protein LOC170371 precursor	71	Cytoplasmic (Potential).					integral to membrane				lung(1)	1						GTGCTTTTCAGGTCGGAAGAG	0.622													27	100					3.99451e-17	4.56143e-17	0.009535	1	0		T	50374941	T	T	50374941	3	4	21	1	0	0	0	0	1	0	0	0	1595	991	35	5	122	5	C10orf128	10	50374941	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1945534	50374941	85159806	291	18859											
ANK3	288	broad.mit.edu	37	chr10	62021641	62021641	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgaaatccacagcagcCgctcggtttaacagcaacgt	11	7	11	12	4	0	1	0	1	0	0	2	1	1	1	2	2	5	4	2	2	3	2	rs146748344		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:62021641C>T	uc001jky.2	-	7	966	c.774G>A	c.(772-774)GCG>GCA	p.A258A	ANK3_uc010qih.1_Silent_p.A241A|ANK3_uc001jkz.3_Silent_p.A252A|ANK3_uc001jlb.1_5'UTR	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	258	ANK 6.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CCACAGCAGCCGCTCGGTTTA	0.438													18	43					0	0	0.012319	0	0		T	62021641	T	T	62021641	2	4	21	1	0	0	0	0	0	0	0	1	622	639	23	1		1	ANK3	10	62021641	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	11646700	62021641	73513106	292	18860											
ZNF365	22891	broad.mit.edu	37	chr10	64136621	64136621	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttaaacagacaggtggaCgtggccgtggaaatgatagc	12	7	14	8	2	0	2	0	1	0	1	0	4	0	4	2	4	2	0	2	4	4	2	rs150802191		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:64136621C>T	uc001jmc.2	+	2	984	c.669C>T	c.(667-669)GAC>GAT	p.D223D	ZNF365_uc001jly.3_Silent_p.D238D|ZNF365_uc001jmb.3_Silent_p.D223D|ZNF365_uc001jlz.3_Silent_p.D223D|ZNF365_uc001jma.3_Intron	NM_199451	NP_955523	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform C	Error:Variant_position_missing_in_Q70YC4_after_alignment										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GACAGGTGGACGTGGCCGTGG	0.512													64	127					0	0	0.01441	0	0		T	64136621	T	T	64136621	2	4	21	1	0	0	0	0	0	0	0	1	17894	535	19	1		1	ZNF365	10	64136621	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2114980	64136621	71398126	293	18861											
CCAR1	55749	broad.mit.edu	37	chr10	70525719	70525719	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatattttgcctgatgaaccGgccatcattgtacatccaaa	12	13	6	10	1	1	2	1	2	0	0	2	2	2	2	4	1	3	1	4	1	5	6	rs149316365		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:70525719G>A	uc001joo.2	+	17	2300	c.2181G>A	c.(2179-2181)CCG>CCA	p.P727P	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Silent_p.P532P|CCAR1_uc009xpx.1_Silent_p.P701P|CCAR1_uc001jon.1_Silent_p.P673P|CCAR1_uc010qiz.1_Silent_p.P712P|CCAR1_uc010qja.1_Silent_p.P712P|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	727	Glu-rich.				apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						CTGATGAACCGGCCATCATTG	0.383													36	89					0	0	0.00623	0	0		A	70525719	A	A	70525719	2	1	21	1	0	0	0	0	0	0	0	1	2733	1103	39	1		1	CCAR1	10	70525719	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	6389098	70525719	65009028	294	18862											
VCL	7414	broad.mit.edu	37	chr10	75877825	75877825	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagaacctcatgcagtcTgtgaaggagactgtgcggga	10	7	14	10	1	2	3	1	1	1	2	2	5	2	4	2	2	3	1	2	2	2	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:75877825T>C	uc001jwd.2	+	22	3397	c.3303T>C	c.(3301-3303)TCT>TCC	p.S1101S	VCL_uc009xrr.2_Silent_p.S782S|VCL_uc001jwe.2_Silent_p.S1033S|VCL_uc010qkz.1_Silent_p.S294S	NM_014000	NP_054706	P18206	VINC_HUMAN	vinculin isoform meta-VCL	1101	C-terminal tail.				adherens junction assembly|apical junction assembly|cell-matrix adhesion|cellular component movement|epithelial cell-cell adhesion|lamellipodium assembly|morphogenesis of an epithelium|muscle contraction|negative regulation of cell migration|platelet activation|platelet degranulation|protein localization at cell surface	costamere|cytosol|extracellular region|focal adhesion	actin binding|alpha-catenin binding|beta-catenin binding|beta-dystroglycan binding|cadherin binding|structural molecule activity		VCL/ALK(4)	kidney(4)|ovary(1)|central_nervous_system(1)	6	Prostate(51;0.0112)					TCATGCAGTCTGTGAAGGAGA	0.512													75	140					0	0	0.01441	0	0		C	75877825	C	C	75877825	2	2	21	1	0	0	0	0	0	0	0	1	17165	1567	55	3		3	VCL	10	75877825	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	5352106	75877825	59656922	295	18863											
LRIT2	340745	broad.mit.edu	37	chr10	85984651	85984651	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagagcttgttcccctcCagtctcagctccctcagttc	6	11	8	16	0	2	1	2	0	1	1	7	2	5	1	4	0	3	5	4	0	0	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:85984651C>T	uc001kcy.2	-	2	338	c.330G>A	c.(328-330)CTG>CTA	p.L110L	LRIT2_uc010qmc.1_Silent_p.L110L	NM_001017924	NP_001017924	A6NDA9	LRIT2_HUMAN	leucine rich repeat containing 22 precursor	110	LRR 2.					integral to membrane				ovary(2)	2						TGTTCCCCTCCAGTCTCAGCT	0.527													78	174					0	0	0.01441	0	0		T	85984651	T	T	85984651	2	4	21	1	0	0	0	0	0	0	0	1	8966	581	21	4		4	LRIT2	10	85984651	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	10106826	85984651	49550096	296	18864											
TNKS2	80351	broad.mit.edu	37	chr10	93622745	93622745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttatgaggcctgaaggtatgGtcgatggataaatagttatt	12	14	12	3	1	0	2	0	2	0	0	1	4	0	3	1	4	0	2	1	4	7	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:93622745G>A	uc001khp.2	+	27	3787	c.3490G>A	c.(3490-3492)GTC>ATC	p.V1164I		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1164	PARP catalytic.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				TGAAGGTATGGTCGATGGATA	0.323													5	11					0	0	0.001168	0	0		A	93622745	A	A	93622745	3	1	21	1	0	0	0	0	1	0	0	0	16346	1261	44	4	3596	4	TNKS2	10	93622745	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	7638094	93622745	41912002	297	18865											
SLIT1	6585	broad.mit.edu	37	chr10	98799862	98799862	+	Frame_Shift_Del	DEL	C	-	-																															actgtgggcggggcaggcagCccccctcctcctggcctagg																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:98799862delC	uc001kmw.2	-	21	2432	c.2180delG	c.(2179-2181)GGCfs	p.G727fs	SLIT1_uc009xvh.1_Frame_Shift_Del_p.G737fs	NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	727	LRRNT 4.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		GGGCAGGCAGCCCCCCTCCTC	0.697													8	10	---	---	---	---						.	-	98799862	-	-	98799862	7	5	21	1	0	1	0	1	0	0	0	0	14764	739	26	0	2492	0	SLIT1	10	98799862	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08	5177117	98799862	36734885	298	18866											
CRTAC1	55118	broad.mit.edu	37	chr10	99683148	99683148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacaacttgtcggtgtacGtggccacccctggagagagg	9	8	14	10	2	0	2	0	1	0	1	1	4	0	3	3	4	3	1	3	4	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:99683148G>A	uc001kou.1	-	4	787	c.431C>T	c.(430-432)ACG>ATG	p.T144M	CRTAC1_uc001kov.2_Missense_Mutation_p.T133M|CRTAC1_uc001kot.1_Translation_Start_Site	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	144	FG-GAP 2; atypical.					proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		GTCGGTGTACGTGGCCACCCC	0.572													49	74					0	0	0.01441	0	0		A	99683148	A	A	99683148	3	1	21	1	0	0	0	0	1	0	0	0	3899	1145	40	1	1602	1	CRTAC1	10	99683148	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	883286	99683148	35851599	299	18867											
SEC31B	25956	broad.mit.edu	37	chr10	102247423	102247423	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagccttcaggataggcaTgaagctggacacctcgctga	11	7	12	11	1	1	2	1	2	0	0	2	5	1	4	2	3	2	3	2	3	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:102247423T>G	uc001krc.1	-	26	3592	c.3490A>C	c.(3490-3492)ATG>CTG	p.M1164L	SEC31B_uc010qpo.1_Missense_Mutation_p.M1163L|SEC31B_uc001krd.1_Missense_Mutation_p.M701L|SEC31B_uc001krf.1_Missense_Mutation_p.M597L|SEC31B_uc001kre.1_Missense_Mutation_p.M595L	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B	1164					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		AGGATAGGCATGAAGCTGGAC	0.562													6	20					0	0	0.004482	0	0		G	102247423	G	G	102247423	3	3	21	1	0	0	0	0	1	0	0	0	14024	1464	51	5	53	5	SEC31B	10	102247423	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	2564275	102247423	33287324	300	18868											
SUFU	51684	broad.mit.edu	37	chr10	104356986	104356986	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgacctgagccggcccccCgaggatgacgaggacagccg	9	3	15	14	4	0	3	0	3	0	0	0	8	0	5	6	3	2	0	6	3	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:104356986C>T	uc001kvy.1	+	7	992	c.846C>T	c.(844-846)CCC>CCT	p.P282P	SUFU_uc001kvw.1_Silent_p.P282P|SUFU_uc001kvx.2_Silent_p.P282P|SUFU_uc009xxe.1_RNA|SUFU_uc009xxf.1_RNA	NM_016169	NP_057253	Q9UMX1	SUFU_HUMAN	suppressor of fused	282					negative regulation of transcription from RNA polymerase II promoter|proteolysis|skeletal system development	cytoplasm|nucleus	identical protein binding|protein binding|signal transducer activity|transcription corepressor activity|transcription factor binding			central_nervous_system(4)|skin(2)|breast(1)	7		Colorectal(252;0.207)		Epithelial(162;1.36e-08)|all cancers(201;3.81e-07)|BRCA - Breast invasive adenocarcinoma(275;0.242)		GCCGGCCCCCCGAGGATGACG	0.597			D|F|S		medulloblastoma	medulloblastoma			Medulloblastoma_associated_with_Germline_SUFU_Mutation		OREG0020482	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	52	93					0	0	0.01441	0	0		T	104356986	T	T	104356986	2	4	21	1	0	0	0	0	0	0	0	1	15393	639	23	1		1	SUFU	10	104356986	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2109563	104356986	31177761	301	18869											
SH3PXD2A	9644	broad.mit.edu	37	chr10	105362278	105362278	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagaggggtcaggttgctcGttctcatccagcaccaaata	10	9	10	12	1	2	1	2	0	1	1	5	1	3	1	3	3	2	4	3	3	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:105362278G>A	uc001kxj.1	-	14	2753	c.2613C>T	c.(2611-2613)AAC>AAT	p.N871N	SH3PXD2A_uc010qqr.1_Intron|SH3PXD2A_uc010qqs.1_Silent_p.N706N|SH3PXD2A_uc010qqt.1_Silent_p.N748N|SH3PXD2A_uc009xxn.1_Silent_p.N706N|SH3PXD2A_uc010qqu.1_Silent_p.N814N	NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	899	SH3 4.				cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)		CAGGTTGCTCGTTCTCATCCA	0.607													38	83					0	0	0.00623	0	0		A	105362278	A	A	105362278	2	1	21	1	0	0	0	0	0	0	0	1	14281	1136	40	1		1	SH3PXD2A	10	105362278	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1005292	105362278	30172469	302	18870											
TCF7L2	6934	broad.mit.edu	37	chr10	114925622	114925622	+	Frame_Shift_Del	DEL	C	-	-																															agccgctttgcagcctgccgCcccctcctcatcaattgcac																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:114925622delC	uc001lae.3	+	14	2207	c.1700delC	c.(1699-1701)GCCfs	p.A567fs	TCF7L2_uc001lac.3_Frame_Shift_Del_p.A561fs|TCF7L2_uc010qrk.1_3'UTR|TCF7L2_uc010qrl.1_Frame_Shift_Del_p.A544fs|TCF7L2_uc010qrm.1_3'UTR|TCF7L2_uc010qrn.1_3'UTR|TCF7L2_uc001lad.3_3'UTR|TCF7L2_uc001lag.3_3'UTR|TCF7L2_uc001laf.3_Frame_Shift_Del_p.A544fs|TCF7L2_uc010qro.1_3'UTR|TCF7L2_uc001lah.2_3'UTR|TCF7L2_uc010qrp.1_3'UTR|TCF7L2_uc010qrq.1_3'UTR|TCF7L2_uc010qrr.1_Frame_Shift_Del_p.A499fs|TCF7L2_uc010qrs.1_Frame_Shift_Del_p.A455fs|TCF7L2_uc010qrt.1_Frame_Shift_Del_p.A455fs|TCF7L2_uc010qru.1_3'UTR|TCF7L2_uc010qrv.1_3'UTR|TCF7L2_uc010qrw.1_3'UTR|TCF7L2_uc010qrx.1_3'UTR	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	584					anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		CAGCCTGCCGCCCCCTCCTCA	0.687													46	86	---	---	---	---						.	-	114925622	-	-	114925622	7	5	21	1	0	1	0	1	0	0	0	0	15723	739	26	0	2031	0	TCF7L2	10	114925622	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08	9563344	114925622	20609125	303	18871											
NRAP	4892	broad.mit.edu	37	chr10	115364629	115364629	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggtcgtctcttacactctgGggccctatgagtttccctcg	4	13	11	13	2	2	1	0	1	2	0	6	1	3	1	2	3	1	1	2	3	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr10:115364629G>T	uc001laj.2	-	35	4130	c.3966C>A	c.(3964-3966)CCC>CCA	p.P1322P	NRAP_uc009xyb.2_Silent_p.P111P|NRAP_uc001lak.2_Silent_p.P1287P|NRAP_uc001lal.3_Silent_p.P1322P	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	1322	Nebulin 35.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		TTACACTCTGGGGCCCTATGA	0.577													43	101					5.20006e-24	6.02656e-24	0.011902	1	0		T	115364629	T	T	115364629	2	4	21	1	0	0	0	0	0	0	0	1	10657	1219	43	5		5	NRAP	10	115364629	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	439007	115364629	20170118	304	18872											
RIC8A	60626	broad.mit.edu	37	chr11	212613	212613	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagggatggccacctccccAggtgctgccccctctgcggg	4	8	13	16	1	1	0	0	0	1	0	2	1	2	1	6	4	3	1	6	4	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:212613A>G	uc001log.2	+	7	1391	c.1066_splice	c.e7-2	p.V356_splice	RIC8A_uc001lof.2_Missense_Mutation_p.Q361R|RIC8A_uc001loh.2_Splice_Site_p.V349_splice	NM_021932	NP_068751	Q9NPQ8	RIC8A_HUMAN	resistance to inhibitors of cholinesterase 8							cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity				0		all_cancers(49;9.23e-07)|all_epithelial(84;0.000315)|Breast(177;0.00122)|Ovarian(85;0.0202)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.45e-27)|Epithelial(43;2.94e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.86e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		CCACCTCCCCAGGTGCTGCCC	0.607													6	21					0	0	0.001168	0	0		G	212613	G	G	212613	5	3	21	1	0	0	0	0	0	0	1	0	13380	188	7	3	1108	3	RIC8A	11	212613	Splice_Site	SNP	A	TCGA-BR-4363-01A-01D-1158-08		212613	134793903	305	18873											
PKP3	11187	broad.mit.edu	37	chr11	400055	400055	+	Frame_Shift_Del	DEL	C	-	-																															ctcacagacctggtgttgagCcccctgtcgggggctggggg																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:400055delC	uc001lpc.2	+	6	1438	c.1362delC	c.(1360-1362)AGCfs	p.S454fs		NM_007183	NP_009114	Q9Y446	PKP3_HUMAN	plakophilin 3	454	ARM 4.				cell adhesion	desmosome|nucleus	binding			skin(1)	1		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGGTGTTGAGCCCCCTGTCGG	0.657													10	18	---	---	---	---						.	-	400055	-	-	400055	7	5	21	1	0	1	0	1	0	0	0	0	12005	738	26	0	1384	0	PKP3	11	400055	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08	187442	400055	134606461	306	18874											
ANO9	338440	broad.mit.edu	37	chr11	428612	428612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgcggtagaccaccaggaCgtgggccatgccgatcatga	10	5	14	12	4	1	2	1	1	0	1	1	5	1	3	4	3	1	1	4	3	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:428612C>T	uc001lpi.2	-	13	1133	c.1048G>A	c.(1048-1050)GTC>ATC	p.V350I	ANO9_uc001lph.2_Missense_Mutation_p.V43I|ANO9_uc010qvv.1_Missense_Mutation_p.V206I	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	350	Helical; (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						ACCACCAGGACGTGGGCCATG	0.721													20	34					0	0	0.008871	0	0		T	428612	T	T	428612	3	4	21	1	0	0	0	0	1	0	0	0	704	536	19	1	1344	1	ANO9	11	428612	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	28557	428612	134577904	307	18875											
OR51G2	81282	broad.mit.edu	37	chr11	4936206	4936206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaggcgatggacagcaCggtgcgcaggatcagagcat	10	5	16	10	3	1	1	1	0	0	1	1	5	1	4	1	5	3	3	1	5	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:4936206C>T	uc001lzr.1	-	1	688	c.688G>A	c.(688-690)GTG>ATG	p.V230M		NM_001005238	NP_001005238	Q8NGK0	O51G2_HUMAN	olfactory receptor, family 51, subfamily G,	230	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATGGACAGCACGGTGCGCAGG	0.522													5	83					0	0	0.014758	0	0		T	4936206	T	T	4936206	3	4	21	1	0	0	0	0	1	0	0	0	11118	536	19	1	260	1	OR51G2	11	4936206	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	4507594	4936206	130070310	308	18876											
UBQLNL	143630	broad.mit.edu	37	chr11	5536466	5536466	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtctggagctacttagAgaaacagtggcatccttgta	10	12	11	8	0	2	1	0	0	2	1	3	3	3	2	1	2	3	3	1	2	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:5536466A>T	uc001maz.3	-	1	1491	c.1206T>A	c.(1204-1206)TCT>TCA	p.S402S	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	402										large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		AGCTACTTAGAGAAACAGTGG	0.498													39	93					0	0	0.00623	0	0		T	5536466	T	T	5536466	2	4	21	1	0	0	0	0	0	0	0	1	16926	291	11	5		5	UBQLNL	11	5536466	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	600260	5536466	129470050	309	18877											
CNGA4	1262	broad.mit.edu	37	chr11	6261463	6261463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgaaccgctttctccgcGcgccccgcctcttcgaggcc	3	8	11	19	6	2	1	0	1	2	0	4	2	2	1	6	2	1	2	6	2	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:6261463G>A	uc001mco.2	+	4	546	c.439G>A	c.(439-441)GCG>ACG	p.A147T	CNGA4_uc010raa.1_Intron|CNGA4_uc001mcn.2_Missense_Mutation_p.A107T	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	147	Extracellular (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTTTCTCCGCGCGCCCCGCCT	0.587													78	137					0	0	0.01441	0	0		A	6261463	A	A	6261463	3	1	21	1	0	0	0	0	1	0	0	0	3602	1087	38	1	453	1	CNGA4	11	6261463	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	724997	6261463	128745053	310	18878											
ILK	3611	broad.mit.edu	37	chr11	6630785	6630785	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcccagtgctaggtgcctgCcagtctccacctgctcctca	5	10	8	18	0	2	0	1	0	1	0	5	0	4	0	6	1	4	2	6	1	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:6630785C>T	uc001mee.2	+	9	906	c.771C>T	c.(769-771)TGC>TGT	p.C257C	ILK_uc001mef.2_Silent_p.C257C|ILK_uc010rap.1_Silent_p.C123C|ILK_uc010raq.1_Silent_p.C196C|ILK_uc001meg.2_Silent_p.C103C|ILK_uc001meh.2_Silent_p.C257C|ILK_uc001mei.2_5'Flank	NM_001014794	NP_001014794	Q13418	ILK_HUMAN	integrin-linked kinase	257	Protein kinase.				cell junction assembly|cell proliferation|cell-matrix adhesion|integrin-mediated signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent	cytosol|focal adhesion	ATP binding|protein serine/threonine kinase activity			central_nervous_system(1)	1		Breast(177;7.61e-05)|Medulloblastoma(188;0.00263)|all_neural(188;0.026)|all_lung(207;0.152)		Epithelial(150;5.49e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00012)|Lung(200;0.00942)|LUSC - Lung squamous cell carcinoma(625;0.0163)		TAGGTGCCTGCCAGTCTCCAC	0.498													59	110					0	0	0.01441	0	0		T	6630785	T	T	6630785	2	4	21	1	0	0	0	0	0	0	0	1	7729	747	26	2		2	ILK	11	6630785	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	369322	6630785	128375731	311	18879											
ZNF215	7762	broad.mit.edu	37	chr11	6953704	6953704	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggccccatgaagccctgagCcaactctgggagctctgtct	7	8	12	14	0	3	2	0	2	3	0	3	3	3	3	4	2	4	1	4	2	2	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:6953704C>A	uc001mey.2	+	3	789	c.201C>A	c.(199-201)AGC>AGA	p.S67R	ZNF215_uc010raw.1_Missense_Mutation_p.S67R|ZNF215_uc010rax.1_5'UTR|ZNF215_uc001mez.1_Missense_Mutation_p.S67R	NM_013250	NP_037382	Q9UL58	ZN215_HUMAN	zinc finger protein 215	67	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;6.33e-08)|BRCA - Breast invasive adenocarcinoma(625;0.134)		AAGCCCTGAGCCAACTCTGGG	0.483													12	95					1.61879e-10	1.81015e-10	0.013537	1	0		A	6953704	A	A	6953704	3	1	21	1	0	0	0	0	1	0	0	0	17796	738	26	5	203	5	ZNF215	11	6953704	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	322919	6953704	128052812	312	18880											
MICALCL	84953	broad.mit.edu	37	chr11	12315408	12315408	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacaggagctggacagggCaagagctatctcccttggct	10	7	14	10	0	1	1	0	0	1	1	2	4	1	4	1	5	2	4	1	5	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:12315408C>T	uc001mkg.1	+	3	721	c.430C>T	c.(430-432)CAA>TAA	p.Q144*		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	144					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		CTGGACAGGGCAAGAGCTATC	0.587													22	42					0	0	0.014323	0	0		T	12315408	T	T	12315408	4	4	21	1	0	0	0	0	0	1	0	0	9590	711	25	2	436	2	MICALCL	11	12315408	Nonsense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	5361704	12315408	122691108	313	18881											
FBXO3	26273	broad.mit.edu	37	chr11	33773099	33773099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtctctgatgatggggaagCcacctgatacaacatttttg	10	12	11	8	0	1	3	0	3	1	0	2	4	1	4	2	3	3	0	2	3	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:33773099C>T	uc001muz.2	-	7	807	c.779G>A	c.(778-780)GGC>GAC	p.G260D	FBXO3_uc010rej.1_5'UTR|FBXO3_uc001muy.2_Missense_Mutation_p.G147D|FBXO3_uc009ykb.2_RNA|FBXO3_uc001mva.1_Missense_Mutation_p.G260D|FBXO3_uc001mvb.1_Missense_Mutation_p.G255D|FBXO3_uc010rek.1_RNA	NM_012175	NP_036307	Q9UK99	FBX3_HUMAN	F-box only protein 3 isoform 1	260					proteolysis	nucleus	ubiquitin-protein ligase activity			pancreas(1)	1		Lung NSC(402;0.0804)		BRCA - Breast invasive adenocarcinoma(625;0.00315)|Lung(977;0.00488)|LUSC - Lung squamous cell carcinoma(625;0.008)		GATGGGGAAGCCACCTGATAC	0.328													12	51					0	0	0.020292	0	0		T	33773099	T	T	33773099	3	4	21	1	0	0	0	0	1	0	0	0	5753	739	26	2	665	2	FBXO3	11	33773099	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	21457691	33773099	101233417	314	18882											
CAT	847	broad.mit.edu	37	chr11	34485651	34485651	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtggttttgttttgaaGgtggtgctccaaattactac	7	16	12	6	0	0	1	0	1	0	0	1	1	1	1	1	4	3	3	1	4	4	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:34485651G>T	uc001mvm.2	+	10	1279	c.1196_splice	c.e10-1	p.G399_splice	CAT_uc009ykc.1_Splice_Site|CAT_uc001mvn.2_Splice_Site_p.G8_splice	NM_001752	NP_001743	P04040	CATA_HUMAN	catalase						hydrogen peroxide catabolic process|negative regulation of apoptosis|positive regulation of cell division|protein tetramerization|purine base metabolic process|purine nucleotide catabolic process|UV protection	peroxisomal matrix|peroxisomal membrane	catalase activity|heme binding|NADP binding|protein homodimerization activity			ovary(2)|pancreas(1)	3		Lung NSC(402;2.76e-08)|Acute lymphoblastic leukemia(5;0.00143)|all_hematologic(20;0.0116)|Melanoma(852;0.027)		BRCA - Breast invasive adenocarcinoma(625;0.000995)	Fomepizole(DB01213)	TTGTTTTGAAGGTGGTGCTCC	0.423													76	145					9.11151e-29	1.06301e-28	0.01441	1	0		T	34485651	T	T	34485651	5	4	21	1	0	0	0	0	0	0	1	0	2689	1014	35	5	1233	5	CAT	11	34485651	Splice_Site	SNP	G	TCGA-BR-4363-01A-01D-1158-08	712552	34485651	100520865	315	18883											
CHST1	8534	broad.mit.edu	37	chr11	45671729	45671729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgccagagccggtacgtgtCgcggaaggtctcgctgcgcg	5	6	16	14	8	1	1	0	0	1	1	3	2	1	2	3	3	3	2	3	3	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:45671729C>T	uc001mys.1	-	4	1416	c.745G>A	c.(745-747)GAC>AAC	p.D249N		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	249	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CGGTACGTGTCGCGGAAGGTC	0.647													35	69					0	0	0.011902	0	0		T	45671729	T	T	45671729	3	4	21	1	0	0	0	0	1	0	0	0	3400	884	31	1	494	1	CHST1	11	45671729	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	11186078	45671729	89334787	316	18884											
CKAP5	9793	broad.mit.edu	37	chr11	46842731	46842731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagaagaatcttaccttgtGttcacatttctgatcaactg	11	14	6	10	0	4	3	2	1	2	2	4	3	4	3	2	0	2	1	2	0	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:46842731G>A	uc001ndi.1	-	2	162	c.52C>T	c.(52-54)CAC>TAC	p.H18Y	CKAP5_uc009ylg.1_5'Flank|CKAP5_uc001ndj.1_Missense_Mutation_p.H18Y	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	18					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						CTTACCTTGTGTTCACATTTC	0.388													74	144					0	0	0.01441	0	0		A	46842731	A	A	46842731	3	1	21	1	0	0	0	0	1	0	0	0	3448	1377	48	4	6218	4	CKAP5	11	46842731	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1171002	46842731	88163785	317	18885											
KBTBD4	55709	broad.mit.edu	37	chr11	47599113	47599113	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccacatcacctgaaggcAgtttcccacttgcactgtgc	9	9	8	15	0	1	1	1	1	0	0	2	1	2	1	3	1	3	3	3	1	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:47599113A>G	uc001nfx.2	-	2	610	c.439T>C	c.(439-441)TGC>CGC	p.C147R	NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_Missense_Mutation_p.C172R|KBTBD4_uc001nfz.2_Missense_Mutation_p.C163R|KBTBD4_uc001nfy.2_Missense_Mutation_p.C147R|NDUFS3_uc010rhn.1_5'Flank|NDUFS3_uc001nga.2_5'Flank	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4	147	BACK.									ovary(1)|central_nervous_system(1)	2						ACCTGAAGGCAGTTTCCCACT	0.532													53	171					0	0	0.01441	0	0		G	47599113	G	G	47599113	3	3	21	1	0	0	0	0	1	0	0	0	8011	188	7	3	1129	3	KBTBD4	11	47599113	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	756382	47599113	87407403	318	18886											
FIBP	9158	broad.mit.edu	37	chr11	65653077	65653077	+	Frame_Shift_Del	DEL	T	-	-																															ccgaagctcagatactgcagTtttttcttccctgtctcaaa																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:65653077delT	uc001ogd.2	-	5	691	c.570delA	c.(568-570)AAAfs	p.K190fs	FIBP_uc009yqu.2_Frame_Shift_Del_p.K187fs|FIBP_uc001oge.2_Frame_Shift_Del_p.K190fs	NM_198897	NP_942600	O43427	FIBP_HUMAN	FGF intracellular binding protein isoform a	190					fibroblast growth factor receptor signaling pathway	endomembrane system|membrane|microsome|mitochondrion|nucleus	fibroblast growth factor binding			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.166)		GATACTGCAGTTTTTTCTTCC	0.537											OREG0021089	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	74	139	---	---	---	---						.	-	65653077	-	-	65653077	7	5	21	1	0	1	0	1	0	0	0	0	5900	1722	60	0	548	0	FIBP	11	65653077	Frame_Shift_Del	DEL	T	TCGA-BR-4363-01A-01D-1158-08	18053964	65653077	69353439	319	18887											
SLC29A2	3177	broad.mit.edu	37	chr11	66135294	66135294	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacatgaggatgcccacacaGggcgtgataaagtaccccag	13	5	12	11	1	0	2	0	2	0	0	0	4	0	3	3	2	2	1	3	2	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:66135294G>T	uc001oht.2	-	6	826	c.597C>A	c.(595-597)CCC>CCA	p.P199P	SLC29A2_uc001ohs.2_Silent_p.P79P|SLC29A2_uc010rpb.1_RNA|SLC29A2_uc009yrf.2_Silent_p.P79P|SLC29A2_uc001ohu.2_Silent_p.P199P|SLC29A2_uc001ohv.2_Silent_p.P199P|uc001ohw.1_5'Flank	NM_001532	NP_001523	Q14542	S29A2_HUMAN	solute carrier family 29 (nucleoside	199	Helical; (Potential).				cell proliferation|nucleobase, nucleoside and nucleotide metabolic process	basolateral plasma membrane|integral to plasma membrane|nuclear membrane|nucleolus	nucleoside transmembrane transporter activity			ovary(1)	1						TGCCCACACAGGGCGTGATAA	0.622													16	25					1.5739e-10	1.76276e-10	0.004007	1	0		T	66135294	T	T	66135294	2	4	21	1	0	0	0	0	0	0	0	1	14560	987	35	5		5	SLC29A2	11	66135294	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	482217	66135294	68871222	320	18888											
KDM2A	22992	broad.mit.edu	37	chr11	67021880	67021880	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctactctctcacagagctcAatatggcaggtatgccgcta	10	10	9	12	1	3	1	2	0	1	1	4	1	3	1	1	2	3	5	1	2	5	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:67021880A>G	uc001ojw.2	+	20	4162	c.3298A>G	c.(3298-3300)AAT>GAT	p.N1100D	KDM2A_uc001ojx.2_RNA|KDM2A_uc001ojy.2_Missense_Mutation_p.N794D|KDM2A_uc001ojz.1_Missense_Mutation_p.N558D|KDM2A_uc001oka.2_Missense_Mutation_p.N224D	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	1100	LRR 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						CACAGAGCTCAATATGGCAGG	0.537													3	108					0	0	0.004672	0	0		G	67021880	G	G	67021880	3	3	21	1	0	0	0	0	1	0	0	0	8140	130	5	3	3372	3	KDM2A	11	67021880	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	886586	67021880	67984636	321	18889											
MRGPRD	116512	broad.mit.edu	37	chr11	68747740	68747740	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagagcacaaaccagtagAtgctcagaggcagggaacag	16	4	13	8	0	1	3	1	0	0	3	1	4	1	4	1	2	4	5	1	2	4	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:68747740A>G	uc010rqf.1	-	1	716	c.716T>C	c.(715-717)ATC>ACC	p.I239T		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	239	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			AAACCAGTAGATGCTCAGAGG	0.627													11	29					0	0	0.020292	0	0		G	68747740	G	G	68747740	3	3	21	1	0	0	0	0	1	0	0	0	9781	333	12	3	252	3	MRGPRD	11	68747740	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	1725860	68747740	66258776	322	18890											
CCND1	595	broad.mit.edu	37	chr11	69465973	69465973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacatggaccccaaggccGccgaggaggaggaagaggag	14	1	17	9	2	0	2	0	0	0	2	0	8	0	7	4	6	1	0	4	6	3	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:69465973G>A	uc001opa.2	+	5	1020	c.811G>A	c.(811-813)GCC>ACC	p.A271T		NM_053056	NP_444284	P24385	CCND1_HUMAN	cyclin D1	271					cell division|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|mitotic cell cycle G1/S transition DNA damage checkpoint|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation|response to drug|response to UV-A|S phase of mitotic cell cycle	cyclin-dependent protein kinase holoenzyme complex|cytosol|membrane|nucleoplasm	protein kinase binding			ovary(1)|lung(1)	2	all_cancers(3;2.01e-114)|all_epithelial(3;3.59e-122)|Breast(3;5.4e-34)|all_lung(4;1.99e-21)|Lung NSC(4;4.65e-21)|Hepatocellular(3;8.22e-16)|Melanoma(5;1.89e-05)|Ovarian(3;0.0348)		Epithelial(3;7.2e-57)|all cancers(3;7.75e-51)|BRCA - Breast invasive adenocarcinoma(2;4.9e-48)|Lung(3;1.13e-16)|LUSC - Lung squamous cell carcinoma(11;3.74e-15)|STAD - Stomach adenocarcinoma(18;0.0278)|LUAD - Lung adenocarcinoma(13;0.0537)		Arsenic trioxide(DB01169)	CCCCAAGGCCGCCgaggagga	0.582			T	IGH@|FSTL3	CLL|B-ALL|breast					Multiple Myeloma(6;0.086)			14	33					0	0	0.003163	0	0		A	69465973	A	A	69465973	3	1	21	1	0	0	0	0	1	0	0	0	2919	1087	38	1	829	1	CCND1	11	69465973	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	718233	69465973	65540543	323	18891											
INPPL1	3636	broad.mit.edu	37	chr11	71948748	71948748	+	Frame_Shift_Del	DEL	C	-	-																															caggccccctggagctgcagCccccccggggactgccctcg																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:71948748delC	uc001osf.2	+	26	3607	c.3460delC	c.(3460-3462)CCCfs	p.P1154fs	INPPL1_uc001osg.2_Frame_Shift_Del_p.P912fs	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	1154					actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						GGAGCTGCAGCCCCCCCGGGG	0.697													16	36	---	---	---	---						.	-	71948748	-	-	71948748	7	5	21	1	0	1	0	1	0	0	0	0	7777	739	26	0	3562	0	INPPL1	11	71948748	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08	2482775	71948748	63057768	324	18892											
CHRDL2	25884	broad.mit.edu	37	chr11	74421903	74421903	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagttcttactgtgcagctGcagaggacacactggttggg	8	10	15	8	0	1	1	0	0	1	1	1	3	1	3	0	4	4	5	0	4	1	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:74421903G>A	uc001ovi.2	-	4	676	c.423C>T	c.(421-423)TGC>TGT	p.C141C	CHRDL2_uc001ovg.2_Silent_p.C25C|CHRDL2_uc001ovh.2_Silent_p.C141C|CHRDL2_uc001ovk.1_Silent_p.C141C			Q6WN34	CRDL2_HUMAN	RecName: Full=Chordin-like protein 2; AltName: Full=Chordin-related protein 2; AltName: Full=Breast tumor novel factor 1;          Short=BNF-1; Flags: Precursor;	141	VWFC 2.				cartilage development|cell differentiation|ossification	extracellular region|mitochondrion					0	Hepatocellular(1;0.098)					CTGTGCAGCTGCAGAGGACAC	0.587													12	23					0	0	0.004007	0	0		A	74421903	A	A	74421903	2	1	21	1	0	0	0	0	0	0	0	1	3377	1311	46	2		2	CHRDL2	11	74421903	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2473155	74421903	60584613	325	18893											
UVRAG	7405	broad.mit.edu	37	chr11	75694509	75694509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagaagaaagctttgggaCgggaggtggcattactgcat	11	8	16	6	1	0	2	0	0	0	2	0	4	0	4	0	5	3	4	0	5	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:75694509C>T	uc001oxc.2	+	8	1019	c.778C>T	c.(778-780)CGG>TGG	p.R260W	UVRAG_uc010rrw.1_Missense_Mutation_p.R159W|UVRAG_uc001oxd.2_Translation_Start_Site|UVRAG_uc010rrx.1_Translation_Start_Site|UVRAG_uc009yuh.1_RNA	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	260	Potential.				DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						AGCTTTGGGACGGGAGGTGGC	0.388													23	43					0	0	0.014323	0	0		T	75694509	T	T	75694509	3	4	21	1	0	0	0	0	1	0	0	0	17134	527	19	1	808	1	UVRAG	11	75694509	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1272606	75694509	59312007	326	18894											
WNT11	7481	broad.mit.edu	37	chr11	75907667	75907667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatgagctccaggttgctgCggcacagctgcacctgtgca	7	8	13	13	1	0	1	0	1	0	0	1	1	1	1	2	2	6	8	2	2	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:75907667C>T	uc001oxe.2	-	2	302	c.179G>A	c.(178-180)CGC>CAC	p.R60H	WNT11_uc001oxf.1_Missense_Mutation_p.R60H	NM_004626	NP_004617	O96014	WNT11_HUMAN	wingless-type MMTV integration site family,	60					adrenal gland development|anterior/posterior pattern formation|artery morphogenesis|axis specification|bone mineralization|cellular response to retinoic acid|cloacal septation|embryonic skeletal system development|endoderm development|lung-associated mesenchyme development|mesonephric duct development|negative regulation of apoptosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell migration|negative regulation of transcription, DNA-dependent|neuroendocrine cell differentiation|neuron differentiation|osteoblast differentiation|outflow tract morphogenesis|palate development|positive regulation of cell migration|positive regulation of protein kinase C signaling cascade|positive regulation of stress fiber assembly|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor-beta2 production|protein localization at cell surface|protein phosphorylation|tight junction assembly|ureteric bud morphogenesis|ventricular septum morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|protein kinase activator activity|Ras GTPase activator activity|transcription regulatory region DNA binding			lung(1)|skin(1)	2						CAGGTTGCTGCGGCACAGCTG	0.652													33	59					0	0	0.013726	0	0		T	75907667	T	T	75907667	3	4	21	1	0	0	0	0	1	0	0	0	17410	768	27	1	901	1	WNT11	11	75907667	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	213158	75907667	59098849	327	18895											
PCF11	51585	broad.mit.edu	37	chr11	82877632	82877632	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaaaagactgaagaggagCgaccacaagaaactacaaat	21	4	9	7	1	0	5	0	2	0	3	0	7	0	6	1	1	3	0	1	1	7	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:82877632C>T	uc001ozx.3	+	5	2038	c.1693C>T	c.(1693-1695)CGA>TGA	p.R565*	PCF11_uc010rsu.1_Nonsense_Mutation_p.R565*	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	565					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						TGAAGAGGAGCGACCACAAGA	0.423													31	77					0	0	0.009535	0	0		T	82877632	T	T	82877632	4	4	21	1	0	0	0	0	0	1	0	0	11592	760	27	1	1711	1	PCF11	11	82877632	Nonsense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	6969965	82877632	52128884	328	18896											
C11orf73	51501	broad.mit.edu	37	chr11	86017511	86017511	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgccatcttcaaaatttcAggtcttaaatctggtaagaa	14	13	7	7	0	5	1	2	0	3	1	5	1	5	1	1	2	1	1	1	2	6	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:86017511A>G	uc001pbu.2	+	2	493	c.255A>G	c.(253-255)TCA>TCG	p.S85S	C11orf73_uc001pbt.2_Silent_p.S85S|C11orf73_uc010rto.1_Intron|C11orf73_uc010rtp.1_Intron|C11orf73_uc001pbv.2_RNA	NM_016401	NP_057485	Q53FT3	CK073_HUMAN	lethal, Chr 7, Rinchik 6	85						cytoplasm					0		Acute lymphoblastic leukemia(157;1.17e-07)|all_hematologic(158;0.000556)				TCAAAATTTCAGGTCTTAAAT	0.323													3	83					0	0	0.004672	0	0		G	86017511	G	G	86017511	2	3	21	1	0	0	0	0	0	0	0	1	1664	175	7	3		3	C11orf73	11	86017511	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	3139879	86017511	48989005	329	18897											
FAT3	120114	broad.mit.edu	37	chr11	92616283	92616283	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtggggacggccgcaacGtctaccaggaggtggggccc	7	4	18	12	3	1	0	0	0	1	0	1	2	1	2	3	7	2	2	3	7	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:92616283G>A	uc001pdj.3	+	23	12678	c.12661G>A	c.(12661-12663)GTC>ATC	p.V4221I	FAT3_uc001pdi.3_Missense_Mutation_p.V661I	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4221	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CGGCCGCAACGTCTACCAGGA	0.652										TCGA Ovarian(4;0.039)			38	85					0	0	0.011902	0	0		A	92616283	A	A	92616283	3	1	21	1	0	0	0	0	1	0	0	0	5705	1145	40	1	12751	1	FAT3	11	92616283	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	6598772	92616283	42390233	330	18898											
MTNR1B	4544	broad.mit.edu	37	chr11	92702954	92702954	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgggcagtgcgcccgggCtggtcgggggctggcagcgc	2	5	23	11	4	0	0	0	0	0	0	1	0	0	0	1	7	2	4	1	7	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:92702954C>T	uc001pdk.1	+	1	166	c.63C>T	c.(61-63)GGC>GGT	p.G21G		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	21	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	TGCGCCCGGGCTGGTCGGGGG	0.736													7	10					0	0	0.001984	0	0		T	92702954	T	T	92702954	2	4	21	1	0	0	0	0	0	0	0	1	9970	784	28	2		2	MTNR1B	11	92702954	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	86671	92702954	42303562	331	18899											
C11orf54	28970	broad.mit.edu	37	chr11	93494832	93494832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgatcaaccaaaagagaCgcattcaattgggcgagatt	15	9	9	8	2	2	3	2	1	0	2	2	5	2	3	1	1	1	1	1	1	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:93494832C>T	uc009ywi.2	+	10	1257	c.926C>T	c.(925-927)ACG>ATG	p.T309M	C11orf54_uc001pef.2_Missense_Mutation_p.T259M|C11orf54_uc001peg.2_Missense_Mutation_p.T309M|C11orf54_uc001peh.2_Missense_Mutation_p.T309M|C11orf54_uc001pei.2_Missense_Mutation_p.T290M|C11orf54_uc001pej.2_Missense_Mutation_p.T290M|C11orf54_uc001pek.2_Missense_Mutation_p.T198M	NM_014039	NP_054758	Q9H0W9	CK054_HUMAN	hypothetical protein LOC28970	309						nucleus	hydrolase activity, acting on ester bonds|protein binding|zinc ion binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CCAAAAGAGACGCATTCAATT	0.294													36	99					0	0	0.005524	0	0		T	93494832	T	T	93494832	3	4	21	1	0	0	0	0	1	0	0	0	1652	536	19	1	802	1	C11orf54	11	93494832	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	791878	93494832	41511684	332	18900											
SESN3	143686	broad.mit.edu	37	chr11	94922973	94922973	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttgtgatcagccaaggTcgatgtgctagcagcttatt	8	15	10	8	1	2	1	1	1	1	0	3	2	2	1	1	1	4	3	1	1	3	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:94922973T>C	uc001pfk.1	-	4	717	c.495A>G	c.(493-495)CGA>CGG	p.R165R	SESN3_uc010rug.1_Intron|SESN3_uc001pfl.2_Silent_p.R165R	NM_144665	NP_653266	P58005	SESN3_HUMAN	sestrin 3	165					cell cycle arrest	nucleus					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.234)		TCAGCCAAGGTCGATGTGCTA	0.333													23	52					0	0	0.01892	0	0		C	94922973	C	C	94922973	2	2	21	1	0	0	0	0	0	0	0	1	14151	1654	58	3		3	SESN3	11	94922973	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	1428141	94922973	40083543	333	18901											
PGR	5241	broad.mit.edu	37	chr11	100999546	100999546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcttcagctctggaatatgCgccctccacgtccgacagcg	8	8	10	15	4	2	0	1	0	1	0	4	2	4	1	3	1	4	2	3	1	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:100999546C>T	uc001pgh.2	-	1	999	c.256G>A	c.(256-258)GCA>ACA	p.A86T	PGR_uc001pgi.2_Missense_Mutation_p.A86T|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	86	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	CTGGAATATGCGCCCTCCACG	0.602													18	35					0	0	0.008871	0	0		T	100999546	T	T	100999546	3	4	21	1	0	0	0	0	1	0	0	0	11824	768	27	1	2577	1	PGR	11	100999546	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	6076573	100999546	34006970	334	18902											
MMP3	4314	broad.mit.edu	37	chr11	102713563	102713563	+	Frame_Shift_Del	DEL	T	-	-																															gaacttctgcatttctcggaTttttttaacaacaggaccac																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:102713563delT	uc001phj.1	-	2	255	c.190delA	c.(190-192)ATCfs	p.I64fs		NM_002422	NP_002413	P08254	MMP3_HUMAN	matrix metalloproteinase 3 preproprotein	64					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			lung(1)|kidney(1)	2		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.0142)	Marimastat(DB00786)|Simvastatin(DB00641)	ATTTCTCGGATTTTTTTAACA	0.438													16	29	---	---	---	---						.	-	102713563	-	-	102713563	7	5	21	1	0	1	0	1	0	0	0	0	9684	1493	52	0	1279	0	MMP3	11	102713563	Frame_Shift_Del	DEL	T	TCGA-BR-4363-01A-01D-1158-08	1714017	102713563	32292953	335	18903											
ZW10	9183	broad.mit.edu	37	chr11	113629418	113629418	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttgtaggtaagattccaaActgctggtatctaagaaaaa	15	12	9	5	0	1	2	0	0	1	2	2	2	2	2	1	2	2	5	1	2	7	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:113629418A>C	uc001poe.2	-	6	628	c.591T>G	c.(589-591)AGT>AGG	p.S197R	ZW10_uc009yyv.2_RNA	NM_004724	NP_004715	O43264	ZW10_HUMAN	centromere/kinetochore protein zw10	197	Interaction with RINT1.				cell division|ER to Golgi vesicle-mediated transport|establishment of mitotic spindle orientation|meiosis|mitotic cell cycle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|protein complex assembly|protein localization to kinetochore|protein transport|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|endoplasmic reticulum membrane|kinetochore microtubule|nucleus|spindle pole	centromeric DNA binding|protein binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.84e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000237)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.94e-06)|Epithelial(105;0.000103)|all cancers(92;0.000786)		AAGATTCCAAACTGCTGGTAT	0.403													28	45					0	0	0.005443	0	0		C	113629418	C	C	113629418	3	2	21	1	0	0	0	0	1	0	0	0	18272	40	2	5	1792	5	ZW10	11	113629418	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	10915855	113629418	21377098	336	18904											
C11orf71	54494	broad.mit.edu	37	chr11	114270731	114270731	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctaatgcaatcaaacgcTgttgcagcacacttcttagg	11	11	7	12	1	2	0	1	0	1	0	3	0	3	0	1	1	4	5	1	1	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:114270731T>G	uc001pou.3	-	1	525	c.323A>C	c.(322-324)CAG>CCG	p.Q108P	C11orf71_uc001pot.1_Missense_Mutation_p.Q108P|RBM7_uc001pov.2_5'Flank|RBM7_uc001pow.2_5'Flank|RBM7_uc001pox.2_5'Flank	NM_019021	NP_061894	Q6IPW1	CK071_HUMAN	hypothetical protein LOC54494	108											0		all_cancers(61;1.15e-11)|all_epithelial(67;5.3e-06)|all_hematologic(158;0.000303)|Acute lymphoblastic leukemia(157;0.000966)|Melanoma(852;0.00153)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.0818)|Prostate(24;0.104)		BRCA - Breast invasive adenocarcinoma(274;2.6e-06)|Epithelial(105;4.31e-05)|all cancers(92;0.00036)		AATCAAACGCTGTTGCAGCAC	0.517													20	51					0	0	0.014323	0	0		G	114270731	G	G	114270731	3	3	21	1	0	0	0	0	1	0	0	0	1663	1580	55	5	128	5	C11orf71	11	114270731	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	641313	114270731	20735785	337	18905											
ROBO4	54538	broad.mit.edu	37	chr11	124767016	124767016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgggggcaccatgctcaggGgctgcccattcagcaaccag	8	6	13	14	0	2	0	2	0	0	0	2	0	2	0	3	4	4	4	3	4	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:124767016G>A	uc001qbg.2	-	2	352	c.212C>T	c.(211-213)CCC>CTC	p.P71L	ROBO4_uc010sas.1_Intron|ROBO4_uc001qbh.2_Intron|ROBO4_uc010sat.1_5'Flank	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	71	Ig-like C2-type 1.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		CATGCTCAGGGGCTGCCCATT	0.687													10	12					0	0	0.013537	0	0		A	124767016	A	A	124767016	3	1	21	1	0	0	0	0	1	0	0	0	13541	1232	43	4	2879	4	ROBO4	11	124767016	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	10496285	124767016	10239500	338	18906											
TMEM45B	120224	broad.mit.edu	37	chr11	129724691	129724691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggacagactggttatggCtgtggcagtattcatggaag	9	11	16	5	0	1	1	1	0	0	1	1	3	1	3	0	6	0	4	0	6	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr11:129724691C>T	uc001qfe.1	+	3	426	c.365C>T	c.(364-366)GCT>GTT	p.A122V	TMEM45B_uc001qff.1_Missense_Mutation_p.A122V	NM_138788	NP_620143	Q96B21	TM45B_HUMAN	transmembrane protein 45B	122	Helical; (Potential).					integral to membrane					0	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.012)|Lung(977;0.179)|LUSC - Lung squamous cell carcinoma(976;0.189)		CTGGTTATGGCTGTGGCAGTA	0.458													19	65					0	0	0.012319	0	0		T	129724691	T	T	129724691	3	4	21	1	0	0	0	0	1	0	0	0	16195	797	28	2	371	2	TMEM45B	11	129724691	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	4957675	129724691	5281825	339	18907											
B4GALNT3	283358	broad.mit.edu	37	chr12	661272	661272	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgactatacccgcctgaGccacatggagacccacaata	14	6	7	14	1	0	3	0	2	0	1	0	4	0	3	4	1	2	0	4	1	5	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:661272G>T	uc001qii.1	+	12	1151	c.1151G>T	c.(1150-1152)AGC>ATC	p.S384I	B4GALNT3_uc001qij.1_Missense_Mutation_p.S286I|B4GALNT3_uc001qik.1_5'Flank	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	384	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			ACCCGCCTGAGCCACATGGAG	0.483													47	116					4.46115e-38	5.24841e-38	0.01441	1	0		T	661272	T	T	661272	3	4	21	1	0	0	0	0	1	0	0	0	1269	971	34	5	1197	5	B4GALNT3	12	661272	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08		661272	133190623	340	18908											
TEAD4	7004	broad.mit.edu	37	chr12	3104142	3104142	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaaaatcatcctgtcggaCgagggcaagatgtatggtaa	13	8	12	8	3	1	1	1	0	0	1	3	3	2	2	1	3	0	4	1	3	5	2	rs148965461	byFrequency	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:3104142C>T	uc010sej.1	+	3	484	c.207C>T	c.(205-207)GAC>GAT	p.D69D	TEAD4_uc010sek.1_Silent_p.D69D|TEAD4_uc001qln.2_Intron	NM_003213	NP_003204	Q15561	TEAD4_HUMAN	TEA domain family member 4 isoform 1	70	TEA.				hippo signaling cascade|muscle organ development|skeletal system development		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(42;0.211)		OV - Ovarian serous cystadenocarcinoma(31;0.000563)|COAD - Colon adenocarcinoma(12;0.0831)			TCCTGTCGGACGAGGGCAAGA	0.627													59	106					0	0	0.01441	0	0		T	3104142	T	T	3104142	2	4	21	1	0	0	0	0	0	0	0	1	15766	535	19	1		1	TEAD4	12	3104142	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2442870	3104142	130747753	341	18909											
NDUFA9	4704	broad.mit.edu	37	chr12	4778941	4778941	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaggaattgttaatgcagTtaaggatcctgatgccaatg	14	11	10	6	0	0	1	0	1	0	0	1	3	1	3	2	2	2	3	2	2	5	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:4778941T>C	uc001qnc.2	+	8	768	c.758T>C	c.(757-759)GTT>GCT	p.V253A	NDUFA9_uc010ses.1_Missense_Mutation_p.V34A	NM_005002	NP_004993	Q16795	NDUA9_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	253					mitochondrial electron transport, NADH to ubiquinone|sodium ion transport	mitochondrial matrix|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	GTTAATGCAGTTAAGGATCCT	0.333													36	126					0	0	0.009718	0	0		C	4778941	C	C	4778941	3	2	21	1	0	0	0	0	1	0	0	0	10291	1725	60	3	788	3	NDUFA9	12	4778941	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	1674799	4778941	129072954	342	18910											
KCNA6	3742	broad.mit.edu	37	chr12	4919240	4919240	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcccttacgctggcggcGccgggggaggtccgtgggcc	5	6	17	13	5	0	0	0	0	0	0	2	1	2	1	4	6	1	1	4	6	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:4919240G>A	uc001qng.2	+	1	899	c.33G>A	c.(31-33)GCG>GCA	p.A11A		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	11						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						CGCTGGCGGCGCCGGGGGAGG	0.711										HNSCC(72;0.22)			7	26					0	0	0.004482	0	0		A	4919240	A	A	4919240	2	1	21	1	0	0	0	0	0	0	0	1	8023	1074	38	1		1	KCNA6	12	4919240	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	140299	4919240	128932655	343	18911											
CHD4	1108	broad.mit.edu	37	chr12	6701626	6701626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcatgttcttgaacacatCggctttgagccgccgcaaca	9	9	11	12	3	1	2	0	2	1	0	2	2	1	2	2	2	3	4	2	2	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:6701626C>T	uc001qpo.2	-	19	3045	c.2881G>A	c.(2881-2883)GAT>AAT	p.D961N	CHD4_uc001qpn.2_Missense_Mutation_p.D954N|CHD4_uc001qpp.2_Missense_Mutation_p.D958N	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	961					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TTGAACACATCGGCTTTGAGC	0.507													8	125					0	0	0.00308	0	0		T	6701626	T	T	6701626	3	4	21	1	0	0	0	0	1	0	0	0	3330	884	31	1	2945	1	CHD4	12	6701626	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1782386	6701626	127150269	344	18912											
PZP	5858	broad.mit.edu	37	chr12	9301589	9301589	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaacatttccatgctctgtAtctatggagaaaagaaaaac	17	10	6	8	0	2	2	0	0	2	2	3	3	3	2	1	1	3	2	1	1	7	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:9301589A>G	uc001qvl.2	-	36	4457	c.4428T>C	c.(4426-4428)GAT>GAC	p.D1476D	PZP_uc009zgl.2_Silent_p.D1262D	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						CATGCTCTGTATCTATGGAGA	0.373													23	61					0	0	0.01892	0	0		G	9301589	G	G	9301589	2	3	21	1	0	0	0	0	0	0	0	1	12894	463	16	3		3	PZP	12	9301589	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	2599963	9301589	124550306	345	18913											
SOX5	6660	broad.mit.edu	37	chr12	23689454	23689454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccttgtattcaccaatgcGcagctttttgccatccacca	8	13	6	14	1	1	0	1	0	0	0	2	0	2	0	5	0	4	3	5	0	2	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:23689454G>A	uc001rfw.2	-	14	2023	c.1921C>T	c.(1921-1923)CGC>TGC	p.R641C	SOX5_uc001rfx.2_Missense_Mutation_p.R628C|SOX5_uc001rfy.2_Missense_Mutation_p.R520C|SOX5_uc001rfv.2_Missense_Mutation_p.R255C|SOX5_uc010siv.1_Missense_Mutation_p.R628C|SOX5_uc010siw.1_RNA	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	641					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TCACCAATGCGCAGCTTTTTG	0.522													23	77					0	0	0.01892	0	0		A	23689454	A	A	23689454	3	1	21	1	0	0	0	0	1	0	0	0	14979	1087	38	1	378	1	SOX5	12	23689454	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	14387865	23689454	110162441	346	18914											
FAR2	55711	broad.mit.edu	37	chr12	29469849	29469849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaaatgctaattttaccaGcaacagcttcacatcacagt	14	10	5	12	0	2	0	2	0	0	0	2	0	2	0	2	0	5	3	2	0	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:29469849G>A	uc001ris.3	+	9	1178	c.1031G>A	c.(1030-1032)AGC>AAC	p.S344N	FAR2_uc001rit.2_Missense_Mutation_p.S344N|FAR2_uc009zjm.2_Missense_Mutation_p.S247N|uc001riu.1_Intron	NM_018099	NP_060569	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	344					ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0						AATTTTACCAGCAACAGCTTC	0.488													104	203					0	0	0.01441	0	0		A	29469849	A	A	29469849	3	1	21	1	0	0	0	0	1	0	0	0	5689	971	34	2	1061	2	FAR2	12	29469849	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	5780395	29469849	104382046	347	18915											
PUS7L	83448	broad.mit.edu	37	chr12	44148200	44148200	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttcccacgtttgtgtgcTttttcccgaaatcttactgt	5	19	6	11	2	1	0	0	0	1	0	3	1	3	0	2	0	2	2	2	0	2	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:44148200T>C	uc001rnq.3	-	2	1338	c.849A>G	c.(847-849)AAA>AAG	p.K283K	PUS7L_uc001rnr.3_Silent_p.K283K|PUS7L_uc001rns.3_Silent_p.K283K|PUS7L_uc009zkb.2_Intron	NM_001098615	NP_001092085	Q9H0K6	PUS7L_HUMAN	pseudouridylate synthase 7 homolog (S.	283					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)		GTTTGTGTGCTTTTTCCCGAA	0.353													73	205					0	0	0.01441	0	0		C	44148200	C	C	44148200	2	2	21	1	0	0	0	0	0	0	0	1	12859	1606	56	3		3	PUS7L	12	44148200	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	14678351	44148200	89703695	348	18916											
ARID2	196528	broad.mit.edu	37	chr12	46285639	46285639	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatgtatatccagggcagTgtctttgggaaggttgtgag	10	12	15	4	0	1	2	0	1	1	1	2	3	2	3	1	3	0	3	1	3	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:46285639T>C	uc001ros.1	+	17	4999	c.4999T>C	c.(4999-5001)TGT>CGT	p.C1667R	ARID2_uc001ror.2_Missense_Mutation_p.C1667R|ARID2_uc009zkg.1_Missense_Mutation_p.C1123R|ARID2_uc009zkh.1_Missense_Mutation_p.C1294R|ARID2_uc001rou.1_Missense_Mutation_p.C1001R	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1667					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TCCAGGGCAGTGTCTTTGGGA	0.393													14	234					0	0	0.003163	0	0		C	46285639	C	C	46285639	3	2	21	1	0	0	0	0	1	0	0	0	915	1696	59	3	5065	3	ARID2	12	46285639	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	2137439	46285639	87566256	349	18917											
HDAC7	51564	broad.mit.edu	37	chr12	48185439	48185439	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaggagcacgtgccgctcAgagtggaccgactgcagctc	9	6	14	12	3	1	2	1	0	0	2	2	5	1	4	2	2	4	4	2	2	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:48185439A>G	uc010slo.1	-	15	2058	c.1863T>C	c.(1861-1863)TCT>TCC	p.S621S	HDAC7_uc009zku.2_RNA|HDAC7_uc001rqe.2_Silent_p.S55S|HDAC7_uc001rqj.3_Silent_p.S584S|HDAC7_uc001rqk.3_Silent_p.S604S	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	582	Histone deacetylase.				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		CGTGCCGCTCAGAGTGGACCG	0.637													5	15					0	0	0.001984	0	0		G	48185439	G	G	48185439	2	3	21	1	0	0	0	0	0	0	0	1	7028	175	7	3		3	HDAC7	12	48185439	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	1899800	48185439	85666456	350	18918											
TROAP	10024	broad.mit.edu	37	chr12	49724166	49724166	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggagtgcggggaaccacAgccctgccctccggcagagc	9	3	15	14	2	0	2	0	0	0	2	1	4	1	4	4	4	5	1	4	4	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:49724166A>G	uc001rtx.3	+	13	1705	c.1538A>G	c.(1537-1539)CAG>CGG	p.Q513R	TROAP_uc009zlh.2_Missense_Mutation_p.Q513R|TROAP_uc001rty.2_Missense_Mutation_p.Q221R	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	513	Cys-rich.				cell adhesion	cytoplasm				ovary(1)	1						GGGGAACCACAGCCCTGCCCT	0.592													41	121					0	0	0.01441	0	0		G	49724166	G	G	49724166	3	3	21	1	0	0	0	0	1	0	0	0	16601	188	7	3	1686	3	TROAP	12	49724166	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	1538727	49724166	84127729	351	18919											
C1QL4	338761	broad.mit.edu	37	chr12	49729777	49729777	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgccgtcgccgccgcgcaTgagcacgtggtaagcgaaga	8	5	16	12	7	0	2	0	1	0	1	1	3	0	2	3	2	3	3	3	2	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:49729777T>C	uc001rtz.1	-	1	1195	c.484A>G	c.(484-486)ATG>GTG	p.M162V		NM_001008223	NP_001008224	Q86Z23	C1QL4_HUMAN	complement component 1, q subcomponent-like 4	162	C1q.					collagen					0						CCGCCGCGCATGAGCACGTGG	0.627													4	15					0	0	0.001168	0	0		C	49729777	C	C	49729777	3	2	21	1	0	0	0	0	1	0	0	0	1964	1464	51	3	240	3	C1QL4	12	49729777	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	5611	49729777	84122118	352	18920											
FAM186B	84070	broad.mit.edu	37	chr12	49993929	49993929	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgccgctgctgccacatCtcctcctcctccagccacag	5	10	6	20	1	2	0	0	0	2	0	6	0	5	0	7	0	4	2	7	0	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:49993929C>A	uc001ruo.2	-	4	1667	c.1494G>T	c.(1492-1494)GAG>GAT	p.E498D	FAM186B_uc010smk.1_Missense_Mutation_p.E408D	NM_032130	NP_115506	Q8IYM0	F186B_HUMAN	hypothetical protein LOC84070	498						protein complex				ovary(1)	1						GCTGCCACATCTCCTCCTCCT	0.632													12	30					4.4004e-07	4.85849e-07	0.01892	1	0		A	49993929	A	A	49993929	3	1	21	1	0	0	0	0	1	0	0	0	5523	912	32	5	1203	5	FAM186B	12	49993929	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	264152	49993929	83857966	353	18921											
HOXC9	3225	broad.mit.edu	37	chr12	54394139	54394139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttccgtcctgtagcttcgCgcccaagccggcagtgttca	5	12	10	14	4	1	0	1	0	0	0	4	0	3	0	4	1	2	4	4	1	2	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:54394139C>T	uc001sep.2	+	2	265	c.167C>T	c.(166-168)GCG>GTG	p.A56V	HOXC9_uc001seq.2_Missense_Mutation_p.A56V	NM_006897	NP_008828	P31274	HXC9_HUMAN	homeobox C9	56					multicellular organismal development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)|skin(1)	3						TGTAGCTTCGCGCCCAAGCCG	0.687													11	27					0	0	0.00499	0	0		T	54394139	T	T	54394139	3	4	21	1	0	0	0	0	1	0	0	0	7333	768	27	1	169	1	HOXC9	12	54394139	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	4400210	54394139	79457756	354	18922											
DGKA	1606	broad.mit.edu	37	chr12	56332996	56332996	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagatgatgaaagagatTgactatgatggcagtggctc	13	9	14	5	0	0	6	0	4	0	2	1	8	0	6	0	3	0	2	0	3	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:56332996T>C	uc001sij.2	+	8	765	c.501T>C	c.(499-501)ATT>ATC	p.I167I	DGKA_uc009zoc.1_Silent_p.I167I|DGKA_uc001sih.1_Silent_p.I55I|DGKA_uc001sii.1_Silent_p.I25I|DGKA_uc009zod.1_Silent_p.I86I|DGKA_uc009zoe.1_Silent_p.I167I|DGKA_uc001sik.2_Silent_p.I167I|DGKA_uc001sil.2_Silent_p.I167I|DGKA_uc001sim.2_Silent_p.I167I|DGKA_uc001sin.2_Silent_p.I167I|DGKA_uc009zof.2_5'UTR|DGKA_uc001sio.2_5'UTR	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	167	EF-hand 2.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	TGAAAGAGATTGACTATGATG	0.542													7	88					0	0	0.004482	0	0		C	56332996	C	C	56332996	2	2	21	1	0	0	0	0	0	0	0	1	4471	1800	63	3		3	DGKA	12	56332996	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	1938857	56332996	77518899	355	18923											
ESYT1	23344	broad.mit.edu	37	chr12	56525096	56525096	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagcaggagtcaagggcaTgcaggtaggccagatgtcag	13	5	15	8	0	2	1	2	0	0	1	2	2	2	2	1	4	2	4	1	4	3	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:56525096T>C	uc001sjq.2	+	5	760	c.710T>C	c.(709-711)ATG>ACG	p.M237T	ESYT1_uc001sjr.2_Missense_Mutation_p.M237T	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	237						integral to membrane				ovary(4)|skin(1)	5						GTCAAGGGCATGCAGGTAGGC	0.473													56	105					0	0	0.01441	0	0		C	56525096	C	C	56525096	3	2	21	1	0	0	0	0	1	0	0	0	5272	1464	51	3	728	3	ESYT1	12	56525096	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	192100	56525096	77326799	356	18924											
R3HDM2	22864	broad.mit.edu	37	chr12	57648686	57648686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggggctggggaacacaGccacaatggtgtacaaggca	12	4	15	10	0	0	0	0	0	0	0	0	1	0	1	2	6	3	3	2	6	4	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:57648686G>A	uc009zpm.1	-	22	2836	c.2801C>T	c.(2800-2802)GCT>GTT	p.A934V	R3HDM2_uc010srn.1_Intron|R3HDM2_uc001snu.2_Missense_Mutation_p.A629V|R3HDM2_uc001snr.2_Missense_Mutation_p.A661V|R3HDM2_uc001sns.2_Missense_Mutation_p.A934V|R3HDM2_uc001snt.2_Missense_Mutation_p.A948V|R3HDM2_uc009zpn.1_Intron	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	934						nucleus	nucleic acid binding			ovary(2)	2						GGGGAACACAGCCACAATGGT	0.587													22	41					0	0	0.007291	0	0		A	57648686	A	A	57648686	3	1	21	1	0	0	0	0	1	0	0	0	12913	971	34	2	133	2	R3HDM2	12	57648686	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1123590	57648686	76203209	357	18925											
PPM1H	57460	broad.mit.edu	37	chr12	63113972	63113972	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgtcatattaaagtccCtgtagagcatcttctttcca	10	14	6	11	0	3	1	1	0	2	1	5	1	5	1	3	0	2	2	3	0	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:63113972C>A	uc001srk.3	-	6	1201	c.1052G>T	c.(1051-1053)AGG>ATG	p.R351M		NM_020700	NP_065751	Q9ULR3	PPM1H_HUMAN	protein phosphatase 1H (PP2C domain containing)	351	PP2C-like.						phosphoprotein phosphatase activity			lung(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;0.000443)|BRCA - Breast invasive adenocarcinoma(9;0.209)	GBM - Glioblastoma multiforme(28;0.0126)		ATTAAAGTCCCTGTAGAGCAT	0.468													30	131					8.4185e-14	9.56648e-14	0.012213	1	0		A	63113972	A	A	63113972	3	1	21	1	0	0	0	0	1	0	0	0	12363	681	24	5	512	5	PPM1H	12	63113972	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	5465286	63113972	70737923	358	18926											
TMBIM4	51643	broad.mit.edu	37	chr12	66531853	66531853	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggtgacagtttatgcaTcagtgagtgtgtgtcataga	10	14	12	5	0	3	3	3	2	0	1	3	3	3	3	0	1	1	2	0	1	2	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:66531853T>A	uc001stc.2	-	7	680	c.604A>T	c.(604-606)ATG>TTG	p.M202L	LLPH_uc010ssx.1_RNA|TMBIM4_uc001std.2_Missense_Mutation_p.M171L|TMBIM4_uc009zqr.2_Missense_Mutation_p.M249L|TMBIM4_uc001ste.2_RNA|TMBIM4_uc001stf.2_3'UTR|TMBIM4_uc009zqs.2_3'UTR	NM_016056	NP_057140	Q9HC24	TMBI4_HUMAN	transmembrane BAX inhibitor motif containing 4	202						integral to membrane	protein binding			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(28;0.0745)		AGTTTATGCATCAGTGAGTGT	0.423													51	85					0	0	0.01441	0	0		A	66531853	A	A	66531853	3	1	21	1	0	0	0	0	1	0	0	0	16007	1435	50	5	116	5	TMBIM4	12	66531853	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	3417881	66531853	67320042	359	18927											
CAND1	55832	broad.mit.edu	37	chr12	67696213	67696213	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcatgaaatgcttccagaaTtctacaagaccgtctctcct	11	11	7	12	1	2	3	0	1	2	2	5	3	4	3	3	1	2	2	3	1	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:67696213T>A	uc001stn.2	+	8	1548	c.1111T>A	c.(1111-1113)TTC>ATC	p.F371I	CAND1_uc001sto.2_Missense_Mutation_p.F49I	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	371	HEAT 9.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		GCTTCCAGAATTCTACAAGAC	0.423													109	223					0	0	0.01441	0	0		A	67696213	A	A	67696213	3	1	21	1	0	0	0	0	1	0	0	0	2618	1493	52	5	1141	5	CAND1	12	67696213	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	1164360	67696213	66155682	360	18928											
PTPRB	5787	broad.mit.edu	37	chr12	70949083	70949083	+	Frame_Shift_Del	DEL	G	-	-																															gaatgtgtgggggtggaggaGgggggcctggaaaaagaggt																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:70949083delG	uc001swb.3	-	18	4376	c.4346delC	c.(4345-4347)CCTfs	p.P1449fs	PTPRB_uc010sto.1_Frame_Shift_Del_p.P1359fs|PTPRB_uc010stp.1_Frame_Shift_Del_p.P1359fs|PTPRB_uc001swc.3_Frame_Shift_Del_p.P1667fs|PTPRB_uc001swa.3_Frame_Shift_Del_p.P1579fs	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1449	Fibronectin type-III 17.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			GGGTGGAGGAGGGGGGCCTGG	0.478													11	25	---	---	---	---						.	-	70949083	-	-	70949083	7	5	21	1	0	1	0	1	0	0	0	0	12821	1000	35	0	1707	0	PTPRB	12	70949083	Frame_Shift_Del	DEL	G	TCGA-BR-4363-01A-01D-1158-08	3252870	70949083	62902812	361	18929											
NAV3	89795	broad.mit.edu	37	chr12	78583914	78583914	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacctatttggcaaacaaacTtgctgaatatgtaataacca	16	11	6	8	0	0	1	0	1	0	0	0	2	0	1	2	1	4	3	2	1	7	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:78583914T>G	uc001syp.2	+	34	6379	c.6206T>G	c.(6205-6207)CTT>CGT	p.L2069R	NAV3_uc001syo.2_Missense_Mutation_p.L2047R|NAV3_uc010sub.1_Missense_Mutation_p.L1526R|NAV3_uc009zsf.2_Missense_Mutation_p.L878R	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2069						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GCAAACAAACTTGCTGAATAT	0.373										HNSCC(70;0.22)			12	101					0	0	0.013537	0	0		G	78583914	G	G	78583914	3	3	21	1	0	0	0	0	1	0	0	0	10203	1609	56	5	6270	5	NAV3	12	78583914	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	7634831	78583914	55267981	362	18930											
STAB2	55576	broad.mit.edu	37	chr12	104156095	104156095	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagggatcttctttgccaTcatcctggtgactggggctg	6	12	13	10	0	3	1	1	1	2	0	4	2	4	2	2	4	2	2	2	4	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:104156095T>C	uc001tjw.2	+	67	7589	c.7403T>C	c.(7402-7404)ATC>ACC	p.I2468T	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2468	Helical; (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						TTCTTTGCCATCATCCTGGTG	0.488													32	106					0	0	0.013726	0	0		C	104156095	C	C	104156095	3	2	21	1	0	0	0	0	1	0	0	0	15263	1435	50	3	7669	3	STAB2	12	104156095	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	25572181	104156095	29695800	363	18931											
NUAK1	9891	broad.mit.edu	37	chr12	106460931	106460931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagggattccagtgtgggCatttcagggctgaccagggc	8	8	16	9	0	1	1	1	1	0	0	2	3	2	2	2	4	0	2	2	4	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:106460931C>T	uc001tlj.1	-	7	3015	c.1635G>A	c.(1633-1635)ATG>ATA	p.M545I		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	545							ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						CCAGTGTGGGCATTTCAGGGC	0.612													17	37					0	0	0.014323	0	0		T	106460931	T	T	106460931	3	4	21	1	0	0	0	0	1	0	0	0	10731	710	25	2	354	2	NUAK1	12	106460931	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2304836	106460931	27390964	364	18932											
UBE3B	89910	broad.mit.edu	37	chr12	109967832	109967832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaactcctgaactgcagcGtctcatctctggcgacaatg	9	10	8	14	2	3	1	2	1	2	0	6	2	4	1	1	1	4	1	1	1	3	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:109967832G>A	uc001top.2	+	25	3368	c.2765G>A	c.(2764-2766)CGT>CAT	p.R922H	UBE3B_uc001toq.2_Missense_Mutation_p.R922H|UBE3B_uc001tos.2_Missense_Mutation_p.R349H|UBE3B_uc001tot.2_Missense_Mutation_p.R40H|UBE3B_uc010sxp.1_Missense_Mutation_p.R40H	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	922	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						GAACTGCAGCGTCTCATCTCT	0.488													46	96					0	0	0.01441	0	0		A	109967832	A	A	109967832	3	1	21	1	0	0	0	0	1	0	0	0	16906	1145	40	1	2855	1	UBE3B	12	109967832	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	3506901	109967832	23884063	365	18933											
GIT2	9815	broad.mit.edu	37	chr12	110370843	110370843	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggcagccttggcgatgtcGtacgcacactggatgacctg	7	10	13	11	3	0	1	0	1	0	0	1	3	0	2	2	3	2	3	2	3	1	3	rs150244358		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:110370843G>A	uc001tps.2	-	20	2385	c.2220C>T	c.(2218-2220)TAC>TAT	p.Y740Y	TCHP_uc001tpo.1_RNA|GIT2_uc001tpr.2_3'UTR|GIT2_uc001tpq.2_Silent_p.Y710Y|GIT2_uc001tpv.2_Silent_p.Y662Y|GIT2_uc001tpu.2_Silent_p.Y660Y|GIT2_uc001tpt.2_Silent_p.Y612Y|GIT2_uc010sxu.1_Silent_p.Y648Y	NM_057169	NP_476510	Q14161	GIT2_HUMAN	G protein-coupled receptor kinase interacting	740					regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	nucleoplasm	ARF GTPase activator activity|protein binding|zinc ion binding			central_nervous_system(1)	1						TGGCGATGTCGTACGCACACT	0.448													22	52					0	0	0.016522	0	0		A	110370843	A	A	110370843	2	1	21	1	0	0	0	0	0	0	0	1	6412	1140	40	1		1	GIT2	12	110370843	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	403011	110370843	23481052	366	18934											
IFT81	28981	broad.mit.edu	37	chr12	110643263	110643263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tataggaagttagaagactcCgtgaagaatgtcttcaagaa	16	10	10	5	1	2	5	1	1	1	4	3	6	3	6	1	1	0	1	1	1	9	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:110643263C>T	uc001tqi.2	+	16	1790	c.1660C>T	c.(1660-1662)CGT>TGT	p.R554C	IFT81_uc001tqh.2_Missense_Mutation_p.R554C|IFT81_uc001tqj.2_RNA	NM_001143779	NP_001137251	Q8WYA0	IFT81_HUMAN	intraflagellar transport 81-like isoform 1	554	Potential.				cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1						TAGAAGACTCCGTGAAGAATG	0.303													12	22					0	0	0.013537	0	0		T	110643263	T	T	110643263	3	4	21	1	0	0	0	0	1	0	0	0	7581	652	23	1	1830	1	IFT81	12	110643263	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	272420	110643263	23208632	367	18935											
PPP1CC	5501	broad.mit.edu	37	chr12	111158948	111158948	+	Frame_Shift_Del	DEL	T	-	-																															gtctcgtggcatttggcttcTttttctctgcaggctttaaa																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:111158948delT	uc001tru.2	-	7	1150	c.905delA	c.(904-906)AAGfs	p.K302fs		NM_002710	NP_002701	P36873	PP1G_HUMAN	protein phosphatase 1, catalytic subunit, gamma	302					cell division|glycogen metabolic process|mitotic prometaphase|triglyceride catabolic process	cleavage furrow|condensed chromosome kinetochore|cytosol|midbody|MLL5-L complex|nuclear speck|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|protein binding|protein kinase binding|protein serine/threonine phosphatase activity			lung(2)|central_nervous_system(1)	3						ATTTGGCTTCTTTTTCTCTGC	0.398													107	188	---	---	---	---						.	-	111158948	-	-	111158948	7	5	21	1	0	1	0	1	0	0	0	0	12373	1609	56	0	70	0	PPP1CC	12	111158948	Frame_Shift_Del	DEL	T	TCGA-BR-4363-01A-01D-1158-08	515685	111158948	22692947	368	18936											
OAS1	4938	broad.mit.edu	37	chr12	113348996	113348996	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgaagcagcgccccaccAagctcaagagcctcatccgc	10	5	8	18	2	2	2	2	1	0	1	4	2	4	2	6	0	4	2	6	0	3	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:113348996A>G	uc001tud.2	+	3	716	c.610A>G	c.(610-612)AAG>GAG	p.K204E	OAS1_uc010syn.1_Missense_Mutation_p.K203E|OAS1_uc010syo.1_Missense_Mutation_p.Q187R|OAS1_uc001tub.2_Missense_Mutation_p.K204E|OAS1_uc001tuc.2_Missense_Mutation_p.K204E|OAS1_uc009zwf.2_Missense_Mutation_p.K203E	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	204					interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						GCGCCCCACCAAGCTCAAGAG	0.527													23	60					0	0	0.004656	0	0		G	113348996	G	G	113348996	3	3	21	1	0	0	0	0	1	0	0	0	10818	131	5	3	620	3	OAS1	12	113348996	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	2190048	113348996	20502899	369	18937											
CCDC62	84660	broad.mit.edu	37	chr12	123270349	123270349	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcgagaacaagctcttacGacaatgataaagctaaaggt	16	8	9	8	2	1	2	0	1	1	1	2	4	1	2	0	1	4	3	0	1	8	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:123270349G>A	uc001udc.2	+	4	625	c.480G>A	c.(478-480)ACG>ACA	p.T160T	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Silent_p.T160T|CCDC62_uc001ude.2_Intron	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	160	Potential.					cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		AAGCTCTTACGACAATGATAA	0.403													56	122					0	0	0.01441	0	0		A	123270349	A	A	123270349	2	1	21	1	0	0	0	0	0	0	0	1	2836	1045	37	1		1	CCDC62	12	123270349	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	9921353	123270349	10581546	370	18938											
EIF2B1	1967	broad.mit.edu	37	chr12	124106442	124106442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtcttgtccagtctgcGcgaccttgagagtgtctgcc	5	12	13	11	2	3	2	0	2	3	1	4	4	4	2	3	1	2	0	3	1	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:124106442G>A	uc001ufm.2	-	9	922	c.779C>T	c.(778-780)GCG>GTG	p.A260V	EIF2B1_uc001ufn.2_Missense_Mutation_p.A258V	NM_001414	NP_001405	Q14232	EI2BA_HUMAN	eukaryotic translation initiation factor 2B,	260					cellular response to stimulus|oligodendrocyte development|regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex|membrane fraction|plasma membrane	protein binding|translation initiation factor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.67e-05)|Epithelial(86;0.000353)|all cancers(50;0.00489)		TCCAGTCTGCGCGACCTTGAG	0.522													13	29					0	0	0.00499	0	0		A	124106442	A	A	124106442	3	1	21	1	0	0	0	0	1	0	0	0	5006	1087	38	1	142	1	EIF2B1	12	124106442	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	836093	124106442	9745453	371	18939											
GOLGA3	2802	broad.mit.edu	37	chr12	133359063	133359063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttttatcttcttcctaaagCctctggattcttgaagctga	8	17	7	9	0	4	2	0	2	4	0	5	3	5	3	2	1	2	2	2	1	4	7			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr12:133359063C>T	uc001ukz.1	-	17	3843	c.3284G>A	c.(3283-3285)GGC>GAC	p.G1095D	GOLGA3_uc001ula.1_Missense_Mutation_p.G1095D	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1095	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CTTCCTAAAGCCTCTGGATTC	0.448													32	106					0	0	0.012213	0	0		T	133359063	T	T	133359063	3	4	21	1	0	0	0	0	1	0	0	0	6569	739	26	2	1244	2	GOLGA3	12	133359063	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	9252621	133359063	492832	372	18940											
LNX2	222484	broad.mit.edu	37	chr13	28136741	28136741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagctgttcaccagagtcccGtttatgaagagccacttgga	11	10	10	10	1	1	3	1	1	0	2	2	4	2	4	3	1	2	3	3	1	3	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr13:28136741G>A	uc001url.3	-	5	1342	c.1033C>T	c.(1033-1035)CGG>TGG	p.R345W	LNX2_uc001urm.1_Missense_Mutation_p.R345W	NM_153371	NP_699202	Q8N448	LNX2_HUMAN	ligand of numb-protein X 2	345	PDZ 2.						zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	6		Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.113)|all cancers(112;0.127)|Epithelial(112;0.248)		CCAGAGTCCCGTTTATGAAGA	0.498													56	109					0	0	0.01441	0	0		A	28136741	A	A	28136741	3	1	21	1	0	0	0	0	1	0	0	0	8883	1144	40	1	1063	1	LNX2	13	28136741	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08		28136741	87033137	373	18941											
SLC7A1	6541	broad.mit.edu	37	chr13	30104821	30104821	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatattttgttgaccatggcCgactctttcacaccaagagt	11	13	7	10	1	2	2	1	1	1	1	2	3	2	2	3	1	0	1	3	1	3	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr13:30104821C>T	uc001uso.2	-	5	945	c.558G>A	c.(556-558)TCG>TCA	p.S186S		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	186	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	TGACCATGGCCGACTCTTTCA	0.433													4	109					0	0	0.009096	0	0		T	30104821	T	T	30104821	2	4	21	1	0	0	0	0	0	0	0	1	14717	639	23	1		1	SLC7A1	13	30104821	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1968080	30104821	85065057	374	18942											
DNAJC15	29103	broad.mit.edu	37	chr13	43643080	43643080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttaggtcgctacgcatttCggatctggaaacctctagaa	11	12	9	9	3	2	1	0	0	2	1	4	3	2	3	1	3	2	2	1	3	5	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr13:43643080C>T	uc001uyy.2	+	3	576	c.175C>T	c.(175-177)CGG>TGG	p.R59W		NM_013238	NP_037370	Q9Y5T4	DJC15_HUMAN	DNAJ domain-containing	59						integral to membrane	heat shock protein binding				0		Lung NSC(96;4.3e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0737)		CTACGCATTTCGGATCTGGAA	0.333													17	35					0	0	0.006122	0	0		T	43643080	T	T	43643080	3	4	21	1	0	0	0	0	1	0	0	0	4640	875	31	1	185	1	DNAJC15	13	43643080	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	13538259	43643080	71526798	375	18943											
COG3	83548	broad.mit.edu	37	chr13	46083903	46083903	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggaatgtggtatcctacGgttcgaagaactcttgtctg	9	13	11	8	2	2	1	0	0	2	1	4	3	3	2	1	3	2	2	1	3	5	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr13:46083903G>A	uc001vak.2	+	15	1772	c.1671G>A	c.(1669-1671)ACG>ACA	p.T557T	COG3_uc001vaj.1_Silent_p.T557T|COG3_uc010tfv.1_Silent_p.T394T|COG3_uc010aci.2_Silent_p.T333T	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3	557					ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)		GGTATCCTACGGTTCGAAGAA	0.388													83	153					0	0	0.01441	0	0		A	46083903	A	A	46083903	2	1	21	1	0	0	0	0	0	0	0	1	3662	1103	39	1		1	COG3	13	46083903	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2440823	46083903	69085975	376	18944											
DHRS12	79758	broad.mit.edu	37	chr13	52351200	52351200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cataaggtcaactcaccactCgggggtcgtgttctttctcc	7	12	9	13	2	4	0	2	0	2	0	7	0	4	0	2	3	1	1	2	3	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr13:52351200C>T	uc001vfq.2	-	6	554	c.506G>A	c.(505-507)CGA>CAA	p.R169Q	DHRS12_uc001vfr.1_Missense_Mutation_p.R120Q|DHRS12_uc001vfs.1_Missense_Mutation_p.R120Q			A0PJE2	DHR12_HUMAN	RecName: Full=Dehydrogenase/reductase SDR family member 12;          EC=1.1.-.-;	169							binding|oxidoreductase activity				0		Breast(56;0.00173)|Prostate(109;0.00899)|Lung NSC(96;0.0199)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.81e-08)		ACTCACCACTCGGGGGTCGTG	0.567													29	53					0	0	0.012213	0	0		T	52351200	T	T	52351200	3	4	21	1	0	0	0	0	1	0	0	0	4494	884	31	1	646	1	DHRS12	13	52351200	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	6267297	52351200	62818678	377	18945											
DOCK9	23348	broad.mit.edu	37	chr13	99481946	99481946	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgatgatggacagggacTgctggaatctggttccccca	8	11	13	9	0	1	2	0	2	1	0	2	5	2	5	2	4	1	3	2	4	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr13:99481946T>C	uc001vnt.2	-	42	4689	c.4634A>G	c.(4633-4635)CAG>CGG	p.Q1545R	DOCK9_uc001vnw.2_Missense_Mutation_p.Q1544R|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.Q1545R|DOCK9_uc001vnq.2_Missense_Mutation_p.Q117R|DOCK9_uc001vnr.2_Missense_Mutation_p.Q188R|DOCK9_uc010tin.1_Missense_Mutation_p.Q188R|DOCK9_uc001vns.2_Missense_Mutation_p.Q117R|DOCK9_uc010tio.1_Missense_Mutation_p.Q237R|DOCK9_uc010tip.1_Missense_Mutation_p.Q255R|DOCK9_uc001vnu.1_Missense_Mutation_p.Q117R|DOCK9_uc010tiq.1_Missense_Mutation_p.Q523R	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1545	DHR-2.				blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					GGACAGGGACTGCTGGAATCT	0.498													3	22					0	0	0.004672	0	0		C	99481946	C	C	99481946	3	2	21	1	0	0	0	0	1	0	0	0	4700	1580	55	3	1631	3	DOCK9	13	99481946	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	47130746	99481946	15687932	378	18946											
ARGLU1	55082	broad.mit.edu	37	chr13	107219984	107219984	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcttctgcttctcgtccAggctgctgcgcttgctcacc	2	13	9	17	3	3	0	1	0	2	0	6	0	4	0	2	1	4	6	2	1	0	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr13:107219984A>G	uc001vqk.3	-	1	531	c.284T>C	c.(283-285)CTG>CCG	p.L95P		NM_018011	NP_060481	Q9NWB6	ARGL1_HUMAN	arginine and glutamate rich 1	95											0	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					CTTCTCGTCCAGGCTGCTGCG	0.582													35	94					0	0	0.010771	0	0		G	107219984	G	G	107219984	3	3	21	1	0	0	0	0	1	0	0	0	860	188	7	3	553	3	ARGLU1	13	107219984	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	7738038	107219984	7949894	379	18947											
MYO16	23026	broad.mit.edu	37	chr13	109475609	109475609	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcattcacgatcttccCgtactgtcgagtaagctgta	10	12	9	10	3	3	1	2	0	1	1	5	4	4	1	1	0	2	4	1	0	3	5	rs141132835	byFrequency	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr13:109475609C>T	uc001vqt.1	+	9	1140	c.1014C>T	c.(1012-1014)CCC>CCT	p.P338P	MYO16_uc010agk.1_Silent_p.P360P|MYO16_uc001vqu.1_Silent_p.P138P	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	338					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity	p.P338T(1)		ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			ACGATCTTCCCGTACTGTCGA	0.428													66	194					0	0	0.01441	0	0		T	109475609	T	T	109475609	2	4	21	1	0	0	0	0	0	0	0	1	10082	639	23	1		1	MYO16	13	109475609	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2255625	109475609	5694269	380	18948											
COL4A1	1282	broad.mit.edu	37	chr13	110838771	110838771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggcctccaggaaagcctgCttgtcctttgtcaccaatgg	8	10	11	12	0	1	0	1	0	0	0	3	1	3	1	5	3	2	1	5	3	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr13:110838771C>T	uc001vqw.3	-	26	1980	c.1858G>A	c.(1858-1860)GCA>ACA	p.A620T	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	620	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			GGAAAGCCTGCTTGTCCTTTG	0.617													93	178					0	0	0.01441	0	0		T	110838771	T	T	110838771	3	4	21	1	0	0	0	0	1	0	0	0	3692	797	28	2	3259	2	COL4A1	13	110838771	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1363162	110838771	4331107	381	18949											
F10	2159	broad.mit.edu	37	chr13	113783899	113783899	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcatacgaagaggcccgCgaggtctttgaggacagcga	10	7	14	10	4	2	2	1	1	1	1	2	6	2	3	1	3	3	1	1	3	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr13:113783899C>T	uc001vsx.2	+	2	261	c.204C>T	c.(202-204)CGC>CGT	p.R68R	F10_uc010agq.1_RNA|F10_uc001vsy.2_Silent_p.R68R|F10_uc001vsz.2_Silent_p.R68R	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	68	Gla.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAGAGGCCCGCGAGGTCTTTG	0.592													40	93					0	0	0.01441	0	0		T	113783899	T	T	113783899	2	4	21	1	0	0	0	0	0	0	0	1	5344	755	27	1		1	F10	13	113783899	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2945128	113783899	1385979	382	18950											
TMCO3	55002	broad.mit.edu	37	chr13	114188557	114188557	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcttcttaatgttaacggTaattctcaaactatgtgtta	12	18	5	6	1	3	0	1	0	3	0	4	0	3	0	0	1	2	3	0	1	7	8			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr13:114188557T>C	uc001vtu.3	+	9	1900	c.1539_splice	c.e9+2	p.T513_splice	TMCO3_uc001vtt.3_Missense_Mutation_p.V514A	NM_017905	NP_060375	Q6UWJ1	TMCO3_HUMAN	transmembrane and coiled-coil domains 3							integral to membrane	solute:hydrogen antiporter activity				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0145)|all_epithelial(44;0.00286)|all_lung(25;0.0273)|Breast(118;0.0411)|Lung NSC(25;0.0983)	all cancers(43;0.0317)			ATGTTAACGGTAATTCTCAAA	0.338													46	83					0	0	0.013114	0	0		C	114188557	C	C	114188557	5	2	21	1	0	0	0	0	0	0	1	0	16022	1652	57	3	1571	3	TMCO3	13	114188557	Splice_Site	SNP	T	TCGA-BR-4363-01A-01D-1158-08	404658	114188557	981321	383	18951											
EDDM3A	10876	broad.mit.edu	37	chr14	21216035	21216035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atatgtatgggccccaggtgCcctcaaagtactcgagtgtc	9	10	11	11	1	1	0	1	0	0	0	3	1	1	0	3	2	2	2	3	2	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:21216035C>T	uc001vyb.2	+	2	363	c.296C>T	c.(295-297)GCC>GTC	p.A99V	EDDM3A_uc001vyc.2_Missense_Mutation_p.A99V	NM_006683	NP_006674	Q14507	EP3A_HUMAN	human epididymis-specific 3 alpha precursor	99					sperm displacement	extracellular space					0						GCCCCAGGTGCCCTCAAAGTA	0.443													15	44					0	0	0.003163	0	0		T	21216035	T	T	21216035	3	4	21	1	0	0	0	0	1	0	0	0	4915	739	26	2	298	2	EDDM3A	14	21216035	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08		21216035	86133505	384	18952											
SLC25A21	89874	broad.mit.edu	37	chr14	37641501	37641501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttacctgcagaaccaccggCcacgatctgccgagaagcct	10	6	9	16	3	1	2	0	0	1	2	1	4	1	2	6	1	5	1	6	1	3	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:37641501C>T	uc001wtz.1	-	1	365	c.55G>A	c.(55-57)GCC>ACC	p.A19T	uc001wua.2_5'UTR	NM_030631	NP_085134	Q9BQT8	ODC_HUMAN	solute carrier family 25 (mitochondrial	19	Helical; Name=1; (Potential).|Solcar 1.				lysine catabolic process	integral to membrane|mitochondrial inner membrane	alpha-ketoglutarate transmembrane transporter activity|binding			skin(1)	1	Esophageal squamous(585;0.164)|Breast(36;0.179)|Hepatocellular(127;0.213)		Lung(8;2.16e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.0112)|all cancers(34;0.0274)|LUSC - Lung squamous cell carcinoma(13;0.149)	GBM - Glioblastoma multiforme(112;0.00204)		GAACCACCGGCCACGATCTGC	0.642													3	8					0	0	0.004672	0	0		T	37641501	T	T	37641501	3	4	21	1	0	0	0	0	1	0	0	0	14509	739	26	2	889	2	SLC25A21	14	37641501	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	16425466	37641501	69708039	385	18953											
PPIL5	122769	broad.mit.edu	37	chr14	50074337	50074337	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttactgtgggcttgtcCgagttgatatgcgtatgctt	5	17	11	8	2	1	1	0	1	1	0	2	2	2	1	1	1	3	4	1	1	3	7			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:50074337C>T	uc001wwn.2	+	3	826	c.502C>T	c.(502-504)CGA>TGA	p.R168*	SDCCAG1_uc010anj.1_Intron|PPIL5_uc001wwo.2_Intron|PPIL5_uc010ank.2_Nonsense_Mutation_p.R109*|PPIL5_uc001wwp.2_RNA	NM_152329	NP_689542	Q96L50	LLR1_HUMAN	peptidylprolyl isomerase (cyclophilin)-like 5	168	LRR 1.										0	all_epithelial(31;0.0021)|Breast(41;0.0124)					TGGGCTTGTCCGAGTTGATAT	0.358													20	57					0	0	0.010504	0	0		T	50074337	T	T	50074337	4	4	21	1	0	0	0	0	0	1	0	0	12352	644	23	1	512	1	PPIL5	14	50074337	Nonsense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	12432836	50074337	57275203	386	18954											
TRIM9	114088	broad.mit.edu	37	chr14	51467459	51467459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatccatcggcgggcaccGtggacagaggtggctgtttc	6	10	15	10	3	0	1	0	0	0	1	3	2	1	2	2	5	0	4	2	5	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:51467459G>A	uc001wyx.3	-	6	2171	c.1406C>T	c.(1405-1407)ACG>ATG	p.T469M	TRIM9_uc001wyy.2_Missense_Mutation_p.T465M|TRIM9_uc001wyz.3_Missense_Mutation_p.T469M	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	469	Fibronectin type-III.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					GGCGGGCACCGTGGACAGAGG	0.547													14	30					0	0	0.010504	0	0		A	51467459	A	A	51467459	3	1	21	1	0	0	0	0	1	0	0	0	16575	1145	40	1	796	1	TRIM9	14	51467459	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1393122	51467459	55882081	387	18955											
NID2	22795	broad.mit.edu	37	chr14	52478375	52478375	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accatcctctcccggcagtcGtaatcaattcccacgattat	10	11	5	15	3	2	0	1	0	1	0	6	1	4	0	4	1	0	2	4	1	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:52478375G>A	uc001wzo.2	-	17	3681	c.3447C>T	c.(3445-3447)TAC>TAT	p.Y1149Y	NID2_uc010tqs.1_Silent_p.Y1101Y|NID2_uc010tqt.1_Silent_p.Y1149Y	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	1149						basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CCCGGCAGTCGTAATCAATTC	0.488													72	175					0	0	0.01441	0	0		A	52478375	A	A	52478375	2	1	21	1	0	0	0	0	0	0	0	1	10434	1140	40	1		1	NID2	14	52478375	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1010916	52478375	54871165	388	18956											
PSMC6	5706	broad.mit.edu	37	chr14	53194281	53194281	+	Frame_Shift_Del	DEL	A	-	-																															gacttcatgaaagcagtcagAaaagtggctgattctaagaa																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:53194281delA	uc010tqx.1	+	14	1158	c.1158delA	c.(1156-1158)AGAfs	p.R386fs	STYX_uc010tqy.1_5'Flank|STYX_uc001xaa.2_5'Flank|PSMC6_uc001wzy.2_RNA	NM_002806	NP_002797	P62333	PRS10_HUMAN	proteasome 26S ATPase subunit 6	372					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding, bridging			lung(1)	1	Breast(41;0.176)					AAGCAGTCAGAAAAGTGGCTG	0.368													42	78	---	---	---	---						.	-	53194281	-	-	53194281	7	5	21	1	0	1	0	1	0	0	0	0	12713	243	9	0	1212	0	PSMC6	14	53194281	Frame_Shift_Del	DEL	A	TCGA-BR-4363-01A-01D-1158-08	715906	53194281	54155259	389	18957											
FERMT2	10979	broad.mit.edu	37	chr14	53386064	53386064	+	Frame_Shift_Del	DEL	T	-	-																															agagcatggtcagaccaatcTttttttacatctataaaaaa																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:53386064delT	uc001xad.2	-	3	223	c.168delA	c.(166-168)AAAfs	p.K56fs	FERMT2_uc001xac.2_Frame_Shift_Del_p.K56fs|FERMT2_uc001xae.2_Frame_Shift_Del_p.K56fs|FERMT2_uc001xaf.2_Frame_Shift_Del_p.K56fs	NM_006832	NP_006823	Q96AC1	FERM2_HUMAN	fermitin family homolog 2 isoform 1	56					actin cytoskeleton organization|cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytosol|focal adhesion|stress fiber	binding				0	Breast(41;0.0342)					CAGACCAATCTTTTTTTACAT	0.338													47	99	---	---	---	---						.	-	53386064	-	-	53386064	7	5	21	1	0	1	0	1	0	0	0	0	5832	1606	56	0	1963	0	FERMT2	14	53386064	Frame_Shift_Del	DEL	T	TCGA-BR-4363-01A-01D-1158-08	191783	53386064	53963476	390	18958											
DAAM1	23002	broad.mit.edu	37	chr14	59834294	59834294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaaaaggaggaagaagaaCgtcgagctcgcatggaagct	17	4	14	6	3	0	3	0	0	0	3	2	7	0	6	0	3	3	3	0	3	6	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:59834294C>T	uc001xdz.1	+	25	3129	c.3004C>T	c.(3004-3006)CGT>TGT	p.R1002C	DAAM1_uc001xea.1_Missense_Mutation_p.R992C|DAAM1_uc001xec.1_RNA	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of	1002	FH2.				actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		GGAAGAAGAACGTCGAGCTCG	0.413													29	53					0	0	0.007291	0	0		T	59834294	T	T	59834294	3	4	21	1	0	0	0	0	1	0	0	0	4218	536	19	1	3098	1	DAAM1	14	59834294	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	6448230	59834294	47515246	391	18959											
SYNE2	23224	broad.mit.edu	37	chr14	64514742	64514742	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgtggaaatggctatgTcaaaacaactttctcttaat	13	13	7	8	0	2	0	1	0	1	0	3	1	2	1	0	2	3	2	0	2	6	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:64514742T>C	uc001xgm.2	+	46	7476	c.7246T>C	c.(7246-7248)TCA>CCA	p.S2416P	SYNE2_uc001xgl.2_Missense_Mutation_p.S2416P	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2416	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AATGGCTATGTCAAAACAACT	0.313													15	57					0	0	0.004007	0	0		C	64514742	C	C	64514742	3	2	21	1	0	0	0	0	1	0	0	0	15471	1667	58	3	7424	3	SYNE2	14	64514742	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	4680448	64514742	42834798	392	18960											
SPTB	6710	broad.mit.edu	37	chr14	65253382	65253382	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgatacctgcatgctgctGcaggagctgctcagcctctg	6	11	11	13	0	2	1	1	1	1	0	2	2	2	2	2	1	8	6	2	1	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:65253382G>A	uc001xht.2	-	15	3355	c.3301C>T	c.(3301-3303)CAG>TAG	p.Q1101*	SPTB_uc001xhr.2_Nonsense_Mutation_p.Q1101*|SPTB_uc001xhs.2_Nonsense_Mutation_p.Q1101*|SPTB_uc001xhu.2_Nonsense_Mutation_p.Q1101*	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1101	Spectrin 8.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		GCATGCTGCTGCAGGAGCTGC	0.587													20	46					0	0	0.007413	0	0		A	65253382	A	A	65253382	4	1	21	1	0	0	0	0	0	1	0	0	15143	1328	46	2	3838	2	SPTB	14	65253382	Nonsense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	738640	65253382	42096158	393	18961											
ZFYVE26	23503	broad.mit.edu	37	chr14	68234521	68234521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggggactctcaccacaaacGagtatggagggctttcattc	10	10	11	10	1	2	0	2	0	1	0	4	3	2	2	1	4	1	2	1	4	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:68234521G>A	uc001xka.2	-	31	5829	c.5690C>T	c.(5689-5691)TCG>TTG	p.S1897L	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.S1897L	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1897					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		CACCACAAACGAGTATGGAGG	0.473													33	121					0	0	0.015359	0	0		A	68234521	A	A	68234521	3	1	21	1	0	0	0	0	1	0	0	0	17693	1059	37	1	1977	1	ZFYVE26	14	68234521	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2981139	68234521	39115019	394	18962											
C14orf43	91748	broad.mit.edu	37	chr14	74193673	74193673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgggagcccacgttgatcCgtctagaggagtgaaaaggg	11	6	15	9	3	1	3	0	2	1	1	2	5	2	5	3	3	1	1	3	3	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:74193673C>T	uc001xot.2	-	6	2948	c.2165G>A	c.(2164-2166)CGG>CAG	p.R722Q	C14orf43_uc001xos.2_5'UTR|C14orf43_uc001xou.2_Missense_Mutation_p.R722Q|C14orf43_uc010tud.1_Missense_Mutation_p.R722Q|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	722	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		CACGTTGATCCGTCTAGAGGA	0.607													15	44					0	0	0.020292	0	0		T	74193673	T	T	74193673	3	4	21	1	0	0	0	0	1	0	0	0	1777	652	23	1	1000	1	C14orf43	14	74193673	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	5959152	74193673	33155867	395	18963											
C14orf118	55668	broad.mit.edu	37	chr14	76633039	76633039	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtagcagcagtgacacTgggctctttaccaatgatga	10	11	12	8	0	1	3	0	3	1	0	1	3	1	3	1	1	3	4	1	1	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:76633039T>C	uc001xsh.2	+	3	782	c.696T>C	c.(694-696)ACT>ACC	p.T232T	C14orf118_uc001xsi.2_Silent_p.T232T|C14orf118_uc001xsj.1_Silent_p.T232T|C14orf118_uc001xsk.1_Silent_p.T232T|C14orf118_uc001xsl.2_RNA	NM_017926	NP_060396	Q9NWQ4	CN118_HUMAN	hypothetical protein LOC55668 isoform 1	232										ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.0172)		GCAGTGACACTGGGCTCTTTA	0.423													14	35					0	0	0.008871	0	0		C	76633039	C	C	76633039	2	2	21	1	0	0	0	0	0	0	0	1	1744	1567	55	3		3	C14orf118	14	76633039	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	2439366	76633039	30716501	396	18964											
C14orf4	64207	broad.mit.edu	37	chr14	77492310	77492310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgactcaggtggggtggtcCggttggaatggggtcccaga	6	9	18	8	1	1	2	1	1	0	1	3	3	3	3	2	8	0	1	2	8	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:77492310C>T	uc001xsy.2	-	1	2725	c.1826G>A	c.(1825-1827)CGG>CAG	p.R609Q		NM_024496	NP_078772	Q9H1B7	I2BPL_HUMAN	chromosome 14 open reading frame 4	609	Pro-rich.					nucleus					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.00347)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)		TGGGGTGGTCCGGTTGGAATG	0.507													5	15					0	0	0.001168	0	0		T	77492310	T	T	77492310	3	4	21	1	0	0	0	0	1	0	0	0	1776	652	23	1	568	1	C14orf4	14	77492310	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	859271	77492310	29857230	397	18965											
C14orf148	122945	broad.mit.edu	37	chr14	77889102	77889102	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattatataatagtttgcagAagaaggttgcatgggcacaa	16	11	10	4	0	0	2	0	0	0	2	0	2	0	2	0	2	2	5	0	2	8	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:77889102A>G	uc001xtr.2	-	1	278	c.131T>C	c.(130-132)TTC>TCC	p.F44S	C14orf148_uc010tvi.1_Missense_Mutation_p.F44S	NM_001113475	NP_001106946	Q6NXP6	CN148_HUMAN	hypothetical protein LOC122945 isoform 1	44					proline biosynthetic process		binding|pyrroline-5-carboxylate reductase activity				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0277)		TAGTTTGCAGAAGAAGGTTGC	0.423													92	201					0	0	0.01441	0	0		G	77889102	G	G	77889102	3	3	21	1	0	0	0	0	1	0	0	0	1754	246	9	3	1041	3	C14orf148	14	77889102	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	396792	77889102	29460438	398	18966											
SPTLC2	9517	broad.mit.edu	37	chr14	78018519	78018519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggaggtgacaatgacgtgGcatacactgcactatgagaa	14	7	12	8	1	0	3	0	3	0	1	0	5	0	4	0	3	2	2	0	3	4	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:78018519G>A	uc001xub.2	-	9	1411	c.1223C>T	c.(1222-1224)GCC>GTC	p.A408V		NM_004863	NP_004854	O15270	SPTC2_HUMAN	serine palmitoyltransferase, long chain base	408						integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups			upper_aerodigestive_tract(1)|ovary(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0346)	L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	CAATGACGTGGCATACACTGC	0.488													12	36					0	0	0.020292	0	0		A	78018519	A	A	78018519	3	1	21	1	0	0	0	0	1	0	0	0	15149	1203	42	2	481	2	SPTLC2	14	78018519	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	129417	78018519	29331021	399	18967											
PTPN21	11099	broad.mit.edu	37	chr14	88938739	88938739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcactccccatcaactagcCgtttcttaagaattctttca	11	13	4	13	1	4	1	2	0	2	1	5	1	5	1	3	0	3	2	3	0	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:88938739C>T	uc001xwv.3	-	15	3051	c.2720G>A	c.(2719-2721)CGG>CAG	p.R907Q	PTPN21_uc010twc.1_Missense_Mutation_p.R703Q	NM_007039	NP_008970	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type	907	Tyrosine-protein phosphatase.					cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			ovary(3)|skin(1)	4						ATCAACTAGCCGTTTCTTAAG	0.368													15	38					0	0	0.020292	0	0		T	88938739	T	T	88938739	3	4	21	1	0	0	0	0	1	0	0	0	12811	652	23	1	824	1	PTPN21	14	88938739	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	10920220	88938739	18410801	400	18968											
TTC7B	145567	broad.mit.edu	37	chr14	91211166	91211166	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttggagatacaggagtgcGatgtcccctgctttctcata	8	13	10	10	1	2	1	1	0	2	1	4	4	3	2	2	2	3	1	2	2	2	4	rs141007402	byFrequency	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:91211166G>A	uc001xyp.2	-	4	668	c.546C>T	c.(544-546)ATC>ATT	p.I182I		NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	182							binding			ovary(2)	2		Melanoma(154;0.222)				ACAGGAGTGCGATGTCCCCTG	0.443													61	103					0	0	0.01441	0	0		A	91211166	A	A	91211166	2	1	21	1	0	0	0	0	0	0	0	1	16739	1048	37	1		1	TTC7B	14	91211166	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2272427	91211166	16138374	401	18969											
BCL11B	64919	broad.mit.edu	37	chr14	99641482	99641482	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccgccgttctcgcggttgCggctcagctccgagtccatg	4	9	12	16	6	2	0	1	0	1	0	5	1	4	0	4	2	2	4	4	2	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:99641482C>T	uc001yga.2	-	4	1958	c.1691G>A	c.(1690-1692)CGC>CAC	p.R564H	BCL11B_uc001ygb.2_Missense_Mutation_p.R493H	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	564						nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		CTCGCGGTTGCGGCTCAGCTC	0.423			T	TLX3	T-ALL								3	7					0	0	0.001984	0	0		T	99641482	T	T	99641482	3	4	21	1	0	0	0	0	1	0	0	0	1365	768	27	1	997	1	BCL11B	14	99641482	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	8430316	99641482	7708058	402	18970											
KLC1	3831	broad.mit.edu	37	chr14	104121009	104121009	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagtaattcaggggctggaAgctttgaagaatgagcacaa	15	8	12	6	0	1	3	1	2	0	1	1	4	1	4	0	3	2	4	0	3	6	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr14:104121009A>G	uc001yno.2	+	2	416	c.108A>G	c.(106-108)GAA>GAG	p.E36E	KLC1_uc010tyd.1_Silent_p.E195E|KLC1_uc010tye.1_Silent_p.E32E|KLC1_uc001ynm.1_Silent_p.E36E|KLC1_uc001ynn.1_Silent_p.E32E|KLC1_uc010tyf.1_Silent_p.E36E	NM_182923	NP_891553	Q07866	KLC1_HUMAN	kinesin light chain 1 isoform 2	36					blood coagulation|microtubule-based movement|stress granule disassembly	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0		Melanoma(154;0.155)|all_epithelial(191;0.19)				AGGGGCTGGAAGCTTTGAAGA	0.373													4	134					0	0	0.014758	0	0		G	104121009	G	G	104121009	2	3	21	1	0	0	0	0	0	0	0	1	8349	69	3	3		3	KLC1	14	104121009	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	4479527	104121009	3228531	403	18971											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42139856	42139856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctctccacaggggtccggcGgacacccgaggaggcggcag	7	4	16	14	4	1	0	0	0	1	0	4	3	3	2	3	7	0	1	3	7	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:42139856G>A	uc010bco.2	+	20	2245	c.2144G>A	c.(2143-2145)CGG>CAG	p.R715Q	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.R946Q|JMJD7-PLA2G4B_uc010bcn.2_Missense_Mutation_p.G884R|JMJD7-PLA2G4B_uc001zoq.3_Missense_Mutation_p.R416Q	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	715	PLA2c.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						GGGGTCCGGCGGACACCCGAG	0.632													23	47					0	0	0.016522	0	0		A	42139856	A	A	42139856	3	1	21	1	0	0	0	0	1	0	0	0	7971	1116	39	1	2935	1	JMJD7-PLA2G4B	15	42139856	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08		42139856	60391536	404	18972											
SPTBN5	51332	broad.mit.edu	37	chr15	42170721	42170721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgagtctcagcctggcGccgggcccgttgggccactt	3	8	15	15	3	1	1	1	1	1	0	2	1	1	1	5	4	1	1	5	4	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:42170721G>A	uc001zos.2	-	17	3517	c.3184C>T	c.(3184-3186)CGC>TGC	p.R1062C		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	1097					actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		TCAGCCTGGCGCCGGGCCCGT	0.637													8	24					0	0	0.004482	0	0		A	42170721	A	A	42170721	3	1	21	1	0	0	0	0	1	0	0	0	15147	1087	38	1	7943	1	SPTBN5	15	42170721	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	30865	42170721	60360671	405	18973											
DUOX1	53905	broad.mit.edu	37	chr15	45433228	45433228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgaacaatttgtgcggctaCgggatggtgaccgctactgg	8	11	14	8	3	0	2	0	2	0	0	0	3	0	3	1	4	4	2	1	4	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:45433228C>T	uc001zus.1	+	14	1871	c.1525C>T	c.(1525-1527)CGG>TGG	p.R509W	DUOX1_uc001zut.1_Missense_Mutation_p.R509W|DUOX1_uc010bee.1_Translation_Start_Site	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	509	Peroxidase-like; mediates peroxidase activity.|Extracellular (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		TGTGCGGCTACGGGATGGTGA	0.612													47	128					0	0	0.01441	0	0		T	45433228	T	T	45433228	3	4	21	1	0	0	0	0	1	0	0	0	4806	527	19	1	1571	1	DUOX1	15	45433228	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3262507	45433228	57098164	406	18974											
ALDH1A2	8854	broad.mit.edu	37	chr15	58256130	58256130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagggactccccactacgcGcctcttggcccgctccacgc	7	6	9	19	4	1	0	0	0	1	0	3	1	3	1	5	2	1	1	5	2	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:58256130G>A	uc002aex.2	-	9	1097	c.1039C>T	c.(1039-1041)CGC>TGC	p.R347C	ALDH1A2_uc002aey.2_Missense_Mutation_p.R309C|ALDH1A2_uc010ugv.1_Missense_Mutation_p.R326C|ALDH1A2_uc010ugw.1_Missense_Mutation_p.R318C|ALDH1A2_uc002aew.2_Missense_Mutation_p.R251C	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	347					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	CCCACTACGCGCCTCTTGGCC	0.527													37	103					0	0	0.021022	0	0		A	58256130	A	A	58256130	3	1	21	1	0	0	0	0	1	0	0	0	491	1087	38	1	537	1	ALDH1A2	15	58256130	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	12822902	58256130	44275262	407	18975											
RNF111	54778	broad.mit.edu	37	chr15	59376343	59376343	+	Frame_Shift_Del	DEL	C	-	-																															tccaggcgggcacatgaacgCcccccaccccatccacatag																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:59376343delC	uc002afv.2	+	9	2592	c.2313delC	c.(2311-2313)CGCfs	p.R771fs	RNF111_uc002afs.2_Frame_Shift_Del_p.R771fs|RNF111_uc002aft.2_Frame_Shift_Del_p.R780fs|RNF111_uc002afu.2_Frame_Shift_Del_p.R770fs|RNF111_uc002afw.2_Frame_Shift_Del_p.R780fs|RNF111_uc002afx.2_Frame_Shift_Del_p.R297fs|RNF111_uc002afy.2_5'Flank	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	771	Pro-rich.				multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		CACATGAACGCCCCCCACCCC	0.443													29	59	---	---	---	---						.	-	59376343	-	-	59376343	7	5	21	1	0	1	0	1	0	0	0	0	13450	726	26	0	2343	0	RNF111	15	59376343	Frame_Shift_Del	DEL	C	TCGA-BR-4363-01A-01D-1158-08	1120213	59376343	43155049	408	18976											
CSNK1G1	53944	broad.mit.edu	37	chr15	64496717	64496717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtctgtgaagagggtccGtaaatactcataatcaggtt	12	11	12	6	1	3	2	2	1	1	1	4	3	4	2	1	3	1	2	1	3	5	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:64496717G>A	uc002anf.2	-	9	1402	c.922C>T	c.(922-924)CGG>TGG	p.R308W	CSNK1G1_uc002ane.2_RNA|CSNK1G1_uc002ang.1_Missense_Mutation_p.R308W|CSNK1G1_uc002anh.1_Missense_Mutation_p.R308W|CSNK1G1_uc002anj.2_Missense_Mutation_p.R290W	NM_022048	NP_071331	Q9HCP0	KC1G1_HUMAN	casein kinase 1, gamma 1	308	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0						AAGAGGGTCCGTAAATACTCA	0.413													50	90					0	0	0.01441	0	0		A	64496717	A	A	64496717	3	1	21	1	0	0	0	0	1	0	0	0	3957	1144	40	1	362	1	CSNK1G1	15	64496717	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	5120374	64496717	38034675	409	18977											
NPTN	27020	broad.mit.edu	37	chr15	73879916	73879916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgctgacaaagtgatataCgcagtggtattcgcctgaat	12	10	11	8	3	0	3	0	3	0	0	1	3	0	3	1	1	2	3	1	1	5	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:73879916C>T	uc002avs.2	-	4	852	c.655G>A	c.(655-657)GTA>ATA	p.V219I	NPTN_uc010bjc.2_Missense_Mutation_p.V219I|NPTN_uc002avt.2_Missense_Mutation_p.V103I|NPTN_uc002avr.2_Missense_Mutation_p.V103I|NPTN_uc010ula.1_Intron	NM_012428	NP_036560	Q9Y639	NPTN_HUMAN	neuroplastin isoform b precursor	219	Ig-like 2.|Extracellular (Potential).				elevation of cytosolic calcium ion concentration|homophilic cell adhesion|long-term synaptic potentiation|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of long-term neuronal synaptic plasticity|positive regulation of neuron projection development|positive regulation of protein phosphorylation	integral to membrane|plasma membrane|presynaptic membrane	cell adhesion molecule binding|type 1 fibroblast growth factor receptor binding				0						AAGTGATATACGCAGTGGTAT	0.473													19	67					0	0	0.012319	0	0		T	73879916	T	T	73879916	3	4	21	1	0	0	0	0	1	0	0	0	10620	536	19	1	561	1	NPTN	15	73879916	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	9383199	73879916	28651476	410	18978											
C15orf59	388135	broad.mit.edu	37	chr15	74043456	74043456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcccgaggtccggggCgccccgaatgttcatcgttt	4	9	15	13	5	1	0	1	0	0	0	3	2	2	0	4	4	1	3	4	4	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:74043456C>T	uc002avy.2	-	1	361	c.16G>A	c.(16-18)GCC>ACC	p.A6T		NM_001039614	NP_001034703	Q2T9L4	CO059_HUMAN	hypothetical protein LOC388135	6										pancreas(1)	1						AGGTCCGGGGCGCCCCGAATG	0.672													19	45					0	0	0.01892	0	0		T	74043456	T	T	74043456	3	4	21	1	0	0	0	0	1	0	0	0	1810	768	27	1	873	1	C15orf59	15	74043456	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	163540	74043456	28487936	411	18979											
LMAN1L	79748	broad.mit.edu	37	chr15	75112400	75112400	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagatgatcatgatgtccTgtccttcctgaccttcagcc	7	13	7	14	0	2	4	2	3	0	1	6	4	6	4	6	0	1	0	6	0	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:75112400T>C	uc002ayt.1	+	7	736	c.734T>C	c.(733-735)CTG>CCG	p.L245P	LMAN1L_uc010bkd.2_3'UTR|LMAN1L_uc010ulo.1_3'UTR|LMAN1L_uc010bke.1_Intron	NM_021819	NP_068591	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like precursor	245	Lumenal (Potential).|L-type lectin-like.					ER-Golgi intermediate compartment membrane|integral to membrane	sugar binding				0						CATGATGTCCTGTCCTTCCTG	0.597													54	132					0	0	0.01441	0	0		C	75112400	C	C	75112400	3	2	21	1	0	0	0	0	1	0	0	0	8854	1580	55	3	760	3	LMAN1L	15	75112400	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	1068944	75112400	27418992	412	18980											
SCAMP5	192683	broad.mit.edu	37	chr15	75309055	75309055	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttcacaccctgctcctaCgtctgctggtttcggcccat	4	13	7	17	2	3	0	1	0	2	0	5	0	4	0	3	2	3	3	3	2	1	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:75309055C>T	uc002azk.1	+	4	420	c.258C>T	c.(256-258)TAC>TAT	p.Y86Y	SCAMP5_uc002azl.1_Silent_p.Y86Y|SCAMP5_uc002azm.1_Silent_p.Y86Y|SCAMP5_uc002azn.1_Silent_p.Y86Y|SCAMP5_uc010uly.1_Intron	NM_138967	NP_620417	Q8TAC9	SCAM5_HUMAN	secretory carrier membrane protein 5	86	Helical; (Potential).				exocytosis|negative regulation of endocytosis|positive regulation of calcium ion-dependent exocytosis|positive regulation of cytokine secretion|protein transport|response to endoplasmic reticulum stress	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane|trans-Golgi network membrane	protein binding			ovary(1)	1						CCTGCTCCTACGTCTGCTGGT	0.587													36	64					0	0	0.006999	0	0		T	75309055	T	T	75309055	2	4	21	1	0	0	0	0	0	0	0	1	13899	547	19	1		1	SCAMP5	15	75309055	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	196655	75309055	27222337	413	18981											
SH2D7	646892	broad.mit.edu	37	chr15	78393576	78393576	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggatccctgggggctacCtggaggcaggagtttccaaa	9	8	15	9	0	0	0	0	0	0	0	2	3	2	3	3	6	1	3	3	6	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:78393576C>A	uc010blb.1	+	5	981	c.981C>A	c.(979-981)ACC>ACA	p.T327T		NM_001101404	NP_001094874	A6NKC9	SH2D7_HUMAN	SH2 domain containing 7	327											0						TGGGGGCTACCTGGAGGCAGG	0.612													11	23					0.00136819	0.00147571	0.013537	1	0		A	78393576	A	A	78393576	2	1	21	1	0	0	0	0	0	0	0	1	14264	668	24	5		5	SH2D7	15	78393576	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3084521	78393576	24137816	414	18982											
KIAA1199	57214	broad.mit.edu	37	chr15	81176682	81176682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggaagcaaacacttcctgCaccttggatttaggtactgc	10	11	10	10	0	0	0	0	0	0	0	1	2	1	2	2	3	5	3	2	3	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:81176682C>T	uc002bfw.1	+	6	1044	c.784C>T	c.(784-786)CAC>TAC	p.H262Y	KIAA1199_uc010unn.1_Missense_Mutation_p.H262Y	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	262										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						ACACTTCCTGCACCTTGGATT	0.493													17	43					0	0	0.006122	0	0		T	81176682	T	T	81176682	3	4	21	1	0	0	0	0	1	0	0	0	8229	710	25	2	802	2	KIAA1199	15	81176682	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2783106	81176682	21354710	415	18983											
AP3B2	8120	broad.mit.edu	37	chr15	83331474	83331474	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaattcttggatgctgatGccagcaggcagtttgggagt	9	11	15	6	0	1	1	0	1	1	0	1	4	1	4	1	4	3	4	1	4	1	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:83331474G>A	uc010uoh.1	-	22	2925	c.2748C>T	c.(2746-2748)GGC>GGT	p.G916G	AP3B2_uc010uoi.1_Silent_p.G935G|AP3B2_uc010uoj.1_Silent_p.G884G|AP3B2_uc010bmp.2_5'Flank|AP3B2_uc010uog.1_Silent_p.G552G	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	916					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			GGATGCTGATGCCAGCAGGCA	0.572													8	27					0	0	0.006214	0	0		A	83331474	A	A	83331474	2	1	21	1	0	0	0	0	0	0	0	1	745	1306	46	2		2	AP3B2	15	83331474	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2154792	83331474	19199918	416	18984											
ALPK3	57538	broad.mit.edu	37	chr15	85400935	85400935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccaggtgggggcagccaccgGaggtctggtgccctcagcca	6	5	16	14	1	2	0	1	0	1	0	2	1	2	1	5	6	3	1	5	6	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:85400935G>A	uc002ble.2	+	6	3739	c.3572G>A	c.(3571-3573)GGA>GAA	p.G1191E		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1191					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GCAGCCACCGGAGGTCTGGTG	0.607													35	56					0	0	0.00874	0	0		A	85400935	A	A	85400935	3	1	21	1	0	0	0	0	1	0	0	0	546	1174	41	4	3594	4	ALPK3	15	85400935	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2069461	85400935	17130457	417	18985											
C15orf42	90381	broad.mit.edu	37	chr15	90168613	90168613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcccaggaggaagagggCggtgggctgtggcgccggct	5	5	21	10	3	0	1	0	0	0	1	0	3	0	3	2	8	0	2	2	8	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:90168613C>T	uc002boe.2	+	20	5072	c.5072C>T	c.(5071-5073)GCG>GTG	p.A1691V	C15orf42_uc010upv.1_RNA	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1691					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			AGGAAGAGGGCGGTGGGCTGT	0.602													24	89					0	0	0.00632	0	0		T	90168613	T	T	90168613	3	4	21	1	0	0	0	0	1	0	0	0	1799	768	27	1	5150	1	C15orf42	15	90168613	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	4767678	90168613	12362779	418	18986											
ANPEP	290	broad.mit.edu	37	chr15	90342507	90342507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctggccaggttgaaggCgtcattaatgatctgtgccc	8	11	11	11	1	3	2	2	2	1	0	3	2	3	2	3	3	1	1	3	3	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr15:90342507C>T	uc002bop.3	-	14	2285	c.1993G>A	c.(1993-1995)GCC>ACC	p.A665T		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	665	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	AGGTTGAAGGCGTCATTAATG	0.577													15	47					0	0	0.007413	0	0		T	90342507	T	T	90342507	3	4	21	1	0	0	0	0	1	0	0	0	710	768	27	1	942	1	ANPEP	15	90342507	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	173894	90342507	12188885	419	18987											
RHBDF1	64285	broad.mit.edu	37	chr16	115006	115006	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgctgtccctgcgggccTcactcatggttcctggcaga	4	11	12	14	2	2	1	2	0	0	1	5	1	4	1	3	3	2	3	3	3	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:115006T>C	uc002cfl.3	-	5	156	c.8A>G	c.(7-9)GAG>GGG	p.E3G	RHBDF1_uc010uty.1_Missense_Mutation_p.E3G|RHBDF1_uc010utz.1_Missense_Mutation_p.E3G|RHBDF1_uc010bqo.1_RNA	NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	3	Cytoplasmic (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				CCTGCGGGCCTCACTCATGGT	0.592													24	66					0	0	0.00632	0	0		C	115006	C	C	115006	3	2	21	1	0	0	0	0	1	0	0	0	13344	1551	54	3	2627	3	RHBDF1	16	115006	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08		115006	90239747	420	18988											
METRN	79006	broad.mit.edu	37	chr16	767234	767234	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaccccactgcgctgtggCgtccacccgggcccaggcac	5	5	12	19	4	0	0	0	0	0	0	1	0	1	0	5	3	2	3	5	3	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:767234C>T	uc002cjd.2	+	4	846	c.729C>T	c.(727-729)GGC>GGT	p.G243G	uc010bra.1_5'Flank	NM_024042	NP_076947	Q9UJH8	METRN_HUMAN	meteorin, glial cell differentiation regulator	243											0		Hepatocellular(780;0.00335)				TGCGCTGTGGCGTCCACCCGG	0.711													4	4					0	0	0.009096	0	0		T	767234	T	T	767234	2	4	21	1	0	0	0	0	0	0	0	1	9506	755	27	1		1	METRN	16	767234	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	652228	767234	89587519	421	18989											
PTX4	390667	broad.mit.edu	37	chr16	1536245	1536245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaccagcctgcgatccaCgtggagccagtacctgccct	7	6	11	17	2	0	0	0	0	0	0	1	2	1	1	7	2	5	1	7	2	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:1536245C>T	uc010uvf.1	-	3	1117	c.1117G>A	c.(1117-1119)GTG>ATG	p.V373M		NM_001013658	NP_001013680	Q96A99	PTX4_HUMAN	neuronal pentraxin II-like	378	Pentaxin.					extracellular region	metal ion binding				0						CTGCGATCCACGTGGAGCCAG	0.677													4	14					0	0	0.00308	0	0		T	1536245	T	T	1536245	3	4	21	1	0	0	0	0	1	0	0	0	12848	536	19	1	307	1	PTX4	16	1536245	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	769011	1536245	88818508	422	18990											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1818554	1818554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggccagctgcccctgcctcGgaggtcgagggccagaagct	6	5	16	14	2	0	1	0	0	0	1	2	3	0	2	5	4	4	2	5	4	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:1818554G>A	uc002cmk.2	+	31	3936	c.3816G>A	c.(3814-3816)TCG>TCA	p.S1272S	MAPK8IP3_uc002cml.2_Silent_p.S1266S|MAPK8IP3_uc010uvl.1_Silent_p.S1273S	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	1272					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						CCCCTGCCTCGGAGGTCGAGG	0.682													6	2					0	0	0.00308	0	0		A	1818554	A	A	1818554	2	1	21	1	0	0	0	0	0	0	0	1	9304	1103	39	1		1	MAPK8IP3	16	1818554	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	282309	1818554	88536199	423	18991											
CLDN9	9080	broad.mit.edu	37	chr16	3063873	3063873	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctacctgggctgggcggcGgctgcactgcttatgctggg	3	10	16	12	2	1	0	0	0	1	0	1	0	1	0	1	5	4	5	1	5	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:3063873G>T	uc010uwo.1	+	1	1417	c.510G>T	c.(508-510)GCG>GCT	p.A170A		NM_020982	NP_066192	O95484	CLD9_HUMAN	claudin 9	170	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						GCTGGGCGGCGGCTGCACTGC	0.721													24	40					2.4375e-19	2.79255e-19	0.007291	1	0		T	3063873	T	T	3063873	2	4	21	1	0	0	0	0	0	0	0	1	3495	1103	39	5		5	CLDN9	16	3063873	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1245319	3063873	87290880	424	18992											
ADCY9	115	broad.mit.edu	37	chr16	4016487	4016487	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcggtgttcagccctgaCgccgccatgtacgtggctcc	4	9	13	15	5	1	1	1	1	0	0	2	1	2	1	4	2	3	3	4	2	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:4016487C>T	uc002cvx.2	-	11	3890	c.3351G>A	c.(3349-3351)GCG>GCA	p.A1117A		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	1117	Guanylate cyclase 2.|Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						TCAGCCCTGACGCCGCCATGT	0.617													24	66					0	0	0.01892	0	0		T	4016487	T	T	4016487	2	4	21	1	0	0	0	0	0	0	0	1	301	523	19	1		1	ADCY9	16	4016487	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	952614	4016487	86338266	425	18993											
CLN3	1201	broad.mit.edu	37	chr16	28488902	28488902	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgacagggagatccccaGtgtgtcagagatgcaggtgg	9	6	15	11	1	1	2	1	0	0	2	2	5	2	2	4	3	1	1	4	3	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:28488902G>T	uc002dpo.2	-	15	1575	c.1252C>A	c.(1252-1254)CTG>ATG	p.L418M	uc010vct.1_Intron|CLN3_uc002dpl.2_Missense_Mutation_p.L340M|CLN3_uc010vcu.1_Missense_Mutation_p.L318M|CLN3_uc002dpn.2_Missense_Mutation_p.L319M|CLN3_uc002dpm.2_Missense_Mutation_p.L364M|CLN3_uc010vcv.1_Missense_Mutation_p.L394M|CLN3_uc010byd.2_Missense_Mutation_p.L321M|CLN3_uc002dpp.2_Missense_Mutation_p.L418M|CLN3_uc002dpt.1_Missense_Mutation_p.L318M|CLN3_uc002dpq.1_Missense_Mutation_p.L370M|CLN3_uc010bye.1_Missense_Mutation_p.L401M|CLN3_uc002dpr.1_RNA|CLN3_uc010byf.1_RNA|CLN3_uc002dps.1_Missense_Mutation_p.L291M|CLN3_uc002dpu.1_Missense_Mutation_p.L316M	NM_000086	NP_000077	Q13286	CLN3_HUMAN	ceroid-lipofuscinosis, neuronal 3	418	Helical; (Potential).				amyloid precursor protein catabolic process|arginine transport|associative learning|autophagic vacuole fusion|cell death|cellular amino acid metabolic process|cytosolic calcium ion homeostasis|galactosylceramide metabolic process|globoside metabolic process|glucosylceramide metabolic process|ionotropic glutamate receptor signaling pathway|lysosomal lumen acidification|lysosomal lumen pH elevation|negative regulation of catalytic activity|negative regulation of macroautophagy|negative regulation of neuron apoptosis|negative regulation of proteolysis|neuromuscular process controlling balance|neurotransmitter metabolic process|protein catabolic process|protein folding|protein processing|receptor-mediated endocytosis|regulation of action potential|sphingomyelin metabolic process|vacuolar transport	autophagic vacuole|caveola|cytosol|early endosome|Golgi membrane|Golgi stack|integral to endoplasmic reticulum membrane|late endosome|lysosomal membrane|membrane fraction|mitochondrion|neuron projection|nucleus|synaptic vesicle|trans-Golgi network	unfolded protein binding				0						GAGATCCCCAGTGTGTCAGAG	0.607													19	66					7.01153e-11	7.87813e-11	0.007291	1	0		T	28488902	T	T	28488902	3	4	21	1	0	0	0	0	1	0	0	0	3546	1020	36	5	68	5	CLN3	16	28488902	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	24472415	28488902	61865851	426	18994											
SEZ6L2	26470	broad.mit.edu	37	chr16	29888645	29888645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggatttgggggcccgggcGgtgcctgaaactgcagtgtg	5	9	18	9	2	0	1	0	1	0	0	0	2	0	2	2	5	3	1	2	5	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:29888645G>A	uc002duq.3	-	11	2096	c.1856C>T	c.(1855-1857)CCG>CTG	p.P619L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.P549L|SEZ6L2_uc002dur.3_Missense_Mutation_p.P549L|SEZ6L2_uc002dus.3_Missense_Mutation_p.P505L|SEZ6L2_uc010vec.1_Missense_Mutation_p.P619L|SEZ6L2_uc010ved.1_Missense_Mutation_p.P575L	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	619	CUB 3.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						GGGCCCGGGCGGTGCCTGAAA	0.687													12	25					0	0	0.016723	0	0		A	29888645	A	A	29888645	3	1	21	1	0	0	0	0	1	0	0	0	14169	1116	39	1	947	1	SEZ6L2	16	29888645	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1399743	29888645	60466108	427	18995											
SRCAP	10847	broad.mit.edu	37	chr16	30723591	30723591	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctctgacaggtaaagacGcccattcccctgcttctgcg	7	10	8	16	2	2	2	0	1	2	1	4	2	3	2	4	1	2	2	4	1	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:30723591G>A	uc002dze.1	+	13	2209	c.1824G>A	c.(1822-1824)ACG>ACA	p.T608T	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Silent_p.T465T|SRCAP_uc010bzz.1_Silent_p.T178T	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	608					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			AGGTAAAGACGCCCATTCCCC	0.493													36	121					0	0	0.019004	0	0		A	30723591	A	A	30723591	2	1	21	1	0	0	0	0	0	0	0	1	15160	1074	38	1		1	SRCAP	16	30723591	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	834946	30723591	59631162	428	18996											
SETD1A	9739	broad.mit.edu	37	chr16	30982823	30982823	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcatcctcctcctcctcCtcgtcctcatcctcctcgtc	2	14	2	23	2	2	0	2	0	0	0	14	0	11	0	9	0	0	0	9	0	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:30982823C>G	uc002ead.1	+	13	3827	c.3141C>G	c.(3139-3141)TCC>TCG	p.S1047S		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1047	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						cctcctcctcctcgtcctcat	0.413													37	74					0	0	0.019004	0	0		G	30982823	G	G	30982823	2	3	21	1	0	0	0	0	0	0	0	1	14155	668	24	5		5	SETD1A	16	30982823	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	259232	30982823	59371930	429	18997											
ABCC11	85320	broad.mit.edu	37	chr16	48234332	48234332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggtcggaatagacggcgCgggccaggctgatcctctgt	7	7	16	11	5	1	2	0	1	1	1	3	4	2	3	2	5	0	1	2	5	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:48234332C>T	uc002eff.1	-	14	2287	c.1937G>A	c.(1936-1938)CGC>CAC	p.R646H	ABCC11_uc002efg.1_Missense_Mutation_p.R646H|ABCC11_uc002efh.1_Missense_Mutation_p.R646H|ABCC11_uc010vgk.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	646	ABC transporter 1.|Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				ATAGACGGCGCGGGCCAGGCT	0.587									Cerumen_Type				14	39					0	0	0.020292	0	0		T	48234332	T	T	48234332	3	4	21	1	0	0	0	0	1	0	0	0	51	768	27	1	2275	1	ABCC11	16	48234332	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	17251509	48234332	42120421	430	18998											
N4BP1	9683	broad.mit.edu	37	chr16	48577044	48577044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgagggagccagtggCttgaaggggctccctgaatc	7	8	16	10	0	0	3	0	3	0	0	2	4	1	4	2	4	2	4	2	4	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:48577044C>T	uc002efp.2	-	7	2699	c.2462G>A	c.(2461-2463)AGC>AAC	p.S821N		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	821					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				GAGCCAGTGGCTTGAAGGGGC	0.632													7	9					0	0	0.004482	0	0		T	48577044	T	T	48577044	3	4	21	1	0	0	0	0	1	0	0	0	10127	797	28	2	232	2	N4BP1	16	48577044	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	342712	48577044	41777709	431	18999											
SALL1	6299	broad.mit.edu	37	chr16	51175880	51175880	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaggggggctgggggagaAggtttcgggtggggaggctg	6	6	26	3	1	0	1	0	0	0	1	1	4	0	3	0	11	0	3	0	11	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:51175880A>C	uc010vgs.1	-	2	284	c.253T>G	c.(253-255)TTC>GTC	p.F85V	SALL1_uc010vgr.1_5'UTR|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	85					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			CTGGGGGAGAAGGTTTCGGGT	0.423													46	124					0	0	0.01441	0	0		C	51175880	C	C	51175880	3	2	21	1	0	0	0	0	1	0	0	0	13835	72	3	5	3729	5	SALL1	16	51175880	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	2598836	51175880	39178873	432	19000											
RBL2	5934	broad.mit.edu	37	chr16	53488589	53488589	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagccatcaataaggcctaTgaggagtatgttttatctgt	13	13	9	6	0	2	1	1	1	1	0	2	2	2	2	2	2	1	2	2	2	6	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:53488589T>C	uc002ehi.3	+	8	1132	c.1014T>C	c.(1012-1014)TAT>TAC	p.Y338Y	RBL2_uc010vgv.1_Silent_p.Y264Y|RBL2_uc002ehj.2_Silent_p.Y48Y|RBL2_uc010vgw.1_Silent_p.Y122Y	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	338					cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						ATAAGGCCTATGAGGAGTATG	0.363													31	100					0	0	0.017118	0	0		C	53488589	C	C	53488589	2	2	21	1	0	0	0	0	0	0	0	1	13135	1471	51	3		3	RBL2	16	53488589	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	2312709	53488589	36866164	433	19001											
CDH11	1009	broad.mit.edu	37	chr16	65006929	65006929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgtcgaggtcagtgtgaCgatcgatggaatacctaagc	11	10	12	8	3	2	1	1	1	1	0	4	5	2	2	1	2	2	0	1	2	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:65006929C>T	uc002eoi.2	-	9	1702	c.1268G>A	c.(1267-1269)CGT>CAT	p.R423H	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Missense_Mutation_p.R423H|CDH11_uc010vin.1_Missense_Mutation_p.R297H	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	423	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		GTCAGTGTGACGATCGATGGA	0.373			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			32	59					0	0	0.010818	0	0		T	65006929	T	T	65006929	3	4	21	1	0	0	0	0	1	0	0	0	3100	536	19	1	1142	1	CDH11	16	65006929	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	11518340	65006929	25347824	434	19002											
RANBP10	57610	broad.mit.edu	37	chr16	67762413	67762413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccatctccatctcactgtCgctgtggggaggggttgagg	5	11	14	11	1	2	1	1	1	2	0	6	2	3	2	2	5	0	2	2	5	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:67762413C>T	uc002eud.2	-	11	1470	c.1354G>A	c.(1354-1356)GAC>AAC	p.D452N	RANBP10_uc010ceo.2_Missense_Mutation_p.D223N|RANBP10_uc010vju.1_Missense_Mutation_p.D426N|RANBP10_uc010vjv.1_Missense_Mutation_p.D365N|RANBP10_uc010vjw.1_Missense_Mutation_p.D143N	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	452	Ser-rich.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		ATCTCACTGTCGCTGTGGGGA	0.587													13	51					0	0	0.00499	0	0		T	67762413	T	T	67762413	3	4	21	1	0	0	0	0	1	0	0	0	13051	898	31	1	524	1	RANBP10	16	67762413	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2755484	67762413	22592340	435	19003											
TERF2	7014	broad.mit.edu	37	chr16	69390851	69390851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgatccttaatcatcaCagctgttcggttaacaaatg	12	11	7	11	2	2	0	2	0	0	0	4	1	3	0	2	1	3	3	2	1	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:69390851C>T	uc002exd.2	-	10	1578	c.1453G>A	c.(1453-1455)GTG>ATG	p.V485M		NM_005652	NP_005643	Q15554	TERF2_HUMAN	telomeric repeat binding factor 2	485	HTH myb-type.|H-T-H motif.				age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)				TTAATCATCACAGCTGTTCGG	0.438													61	133					0	0	0.01441	0	0		T	69390851	T	T	69390851	3	4	21	1	0	0	0	0	1	0	0	0	15787	478	17	4	53	4	TERF2	16	69390851	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1628438	69390851	20963902	436	19004											
MTSS1L	92154	broad.mit.edu	37	chr16	70708346	70708346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcgccaggctgcggtagcGacaggtggaactgggtgagt	7	7	18	9	3	0	1	0	1	0	0	0	3	0	2	1	5	4	2	1	5	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:70708346G>A	uc002ezj.2	-	11	1176	c.916C>T	c.(916-918)CGC>TGC	p.R306C		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	306	Ser-rich.				filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						CTGCGGTAGCGACAGGTGGAA	0.652													9	31					0	0	0.010729	0	0		A	70708346	A	A	70708346	3	1	21	1	0	0	0	0	1	0	0	0	9981	1058	37	1	1347	1	MTSS1L	16	70708346	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1317495	70708346	19646407	437	19005											
PSMD7	5713	broad.mit.edu	37	chr16	74339301	74339301	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagctacctggaaaaagtCgccacaggcaagctgcccat	13	5	11	12	1	0	0	0	0	0	0	1	2	0	2	3	3	4	3	3	3	4	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:74339301C>T	uc002fcq.2	+	7	777	c.645C>T	c.(643-645)GTC>GTT	p.V215V	PSMD7_uc010vmr.1_Silent_p.V138V	NM_002811	NP_002802	P51665	PSD7_HUMAN	proteasome 26S non-ATPase subunit 7	215					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding				0						TGGAAAAAGTCGCCACAGGCA	0.557													19	38					0	0	0.006122	0	0		T	74339301	T	T	74339301	2	4	21	1	0	0	0	0	0	0	0	1	12725	871	31	1		1	PSMD7	16	74339301	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3630955	74339301	16015452	438	19006											
ADAMTS18	170692	broad.mit.edu	37	chr16	77353831	77353831	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggtattcaaacgtggtcCcagcgaaggggaactcccca	10	7	12	12	2	1	0	1	0	0	0	3	2	3	1	3	4	3	2	3	4	4	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:77353831C>A	uc002ffc.3	-	16	2866	c.2447G>T	c.(2446-2448)GGG>GTG	p.G816V	ADAMTS18_uc010chc.1_Missense_Mutation_p.G404V|ADAMTS18_uc002ffe.1_Missense_Mutation_p.G512V	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	816	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						AAACGTGGTCCCAGCGAAGGG	0.572													21	71					1.10923e-09	1.23053e-09	0.016522	1	0		A	77353831	A	A	77353831	3	1	21	1	0	0	0	0	1	0	0	0	263	623	22	5	1250	5	ADAMTS18	16	77353831	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3014530	77353831	13000922	439	19007											
CDH15	1013	broad.mit.edu	37	chr16	89258129	89258129	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtgaacgaccatgcacCtgtgctggccccgccgccgc	6	5	14	16	4	0	1	0	1	0	0	0	3	0	2	6	3	3	2	6	3	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:89258129C>A	uc002fmt.2	+	10	1519	c.1442C>A	c.(1441-1443)CCT>CAT	p.P481H		NM_004933	NP_004924	P55291	CAD15_HUMAN	cadherin 15 preproprotein	481	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	calcium ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0261)		GACCATGCACCTGTGCTGGCC	0.731													3	15					0.00909568	0.00975035	0.009096	1	0		A	89258129	A	A	89258129	3	1	21	1	0	0	0	0	1	0	0	0	3103	681	24	5	1480	5	CDH15	16	89258129	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	11904298	89258129	1096624	440	19008											
SPG7	6687	broad.mit.edu	37	chr16	89592837	89592837	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatatcgaggccaaggacaGgatcccagtttcctacaagc	13	7	10	11	1	0	0	0	0	0	0	3	4	2	2	3	3	2	1	3	3	5	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:89592837G>T	uc002fnj.2	+	5	740	c.719G>T	c.(718-720)AGG>ATG	p.R240M	SPG7_uc002fni.2_Missense_Mutation_p.R240M	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1	240	Mitochondrial intermembrane (Potential).				cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		GCCAAGGACAGGATCCCAGTT	0.428													41	138					1.52319e-26	1.77115e-26	0.00874	1	0		T	89592837	T	T	89592837	3	4	21	1	0	0	0	0	1	0	0	0	15069	1000	35	5	737	5	SPG7	16	89592837	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	334708	89592837	761916	441	19009											
DBNDD1	79007	broad.mit.edu	37	chr16	90075763	90075763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacctcctcctccacaggcGtgtggccattgtcccctgtc	4	10	9	18	2	0	0	0	0	0	0	5	1	4	0	7	2	0	0	7	2	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr16:90075763G>A	uc002fqf.1	-	2	295	c.107C>T	c.(106-108)ACG>ATG	p.T36M	DBNDD1_uc002fqe.1_Missense_Mutation_p.T56M|DBNDD1_uc002fqg.1_RNA	NM_001042610	NP_001036075	Q9H9R9	DBND1_HUMAN	dysbindin (dystrobrevin binding protein 1)	36						cytoplasm					0		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0275)		CTCCACAGGCGTGTGGCCATT	0.662													60	114					0	0	0.01441	0	0		A	90075763	A	A	90075763	3	1	21	1	0	0	0	0	1	0	0	0	4256	1145	40	1	381	1	DBNDD1	16	90075763	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	482926	90075763	278990	442	19010											
OR3A2	4995	broad.mit.edu	37	chr17	3181654	3181654	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcaggagagctggaagagCtgtgggaggtcacagtagaa	13	5	18	5	0	1	3	1	0	0	3	1	7	1	5	0	4	3	4	0	4	3	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:3181654C>A	uc002fvg.2	-	1	615	c.576G>T	c.(574-576)CAG>CAT	p.Q192H		NM_002551	NP_002542	P47893	OR3A2_HUMAN	olfactory receptor, family 3, subfamily A,	192	Extracellular (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						GCTGGAAGAGCTGTGGGAGGT	0.542													29	63					9.62906e-15	1.09599e-14	0.00623	1	0		A	3181654	A	A	3181654	3	1	21	1	0	0	0	0	1	0	0	0	11057	796	28	5	393	5	OR3A2	17	3181654	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08		3181654	78013556	443	19011											
MINK1	50488	broad.mit.edu	37	chr17	4796057	4796057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcactggagcggaaccgcGtgggaggtatgtgagccagg	8	6	18	9	3	1	1	1	1	0	0	1	4	1	4	2	5	3	2	2	5	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:4796057G>A	uc010vsl.1	+	19	2501	c.2305G>A	c.(2305-2307)GTG>ATG	p.V769M	MINK1_uc010vsk.1_Missense_Mutation_p.V732M|MINK1_uc010vsm.1_Missense_Mutation_p.V749M|MINK1_uc010vsn.1_Missense_Mutation_p.V732M|MINK1_uc010vso.1_Missense_Mutation_p.V677M|MINK1_uc010vsp.1_Missense_Mutation_p.V222M	NM_153827	NP_722549	Q8N4C8	MINK1_HUMAN	misshapen-like kinase 1 isoform 3	769					JNK cascade	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)|skin(1)	6						GCGGAACCGCGTGGGAGGTAT	0.677													11	12					0	0	0.008291	0	0		A	4796057	A	A	4796057	3	1	21	1	0	0	0	0	1	0	0	0	9605	1145	40	1	2118	1	MINK1	17	4796057	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1614403	4796057	76399153	444	19012											
PITPNM3	83394	broad.mit.edu	37	chr17	6367557	6367557	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcggcacattgtatgtgaTgcgaccactgctgttggtga	7	11	13	10	3	0	2	0	2	0	0	0	3	0	2	2	2	2	4	2	2	1	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:6367557T>C	uc002gdd.3	-	16	2240	c.2089A>G	c.(2089-2091)ATC>GTC	p.I697V	PITPNM3_uc010cln.2_Missense_Mutation_p.I661V|PITPNM3_uc010clm.2_Missense_Mutation_p.I180V|PITPNM3_uc002gdc.3_Missense_Mutation_p.I288V	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	697					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		TTGTATGTGATGCGACCACTG	0.597													33	82					0	0	0.013726	0	0		C	6367557	C	C	6367557	3	2	21	1	0	0	0	0	1	0	0	0	11971	1464	51	3	855	3	PITPNM3	17	6367557	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	1571500	6367557	74827653	445	19013											
PITPNM3	83394	broad.mit.edu	37	chr17	6381912	6381912	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggacttcaggaactctctGtagacctggttggctcgctc	7	11	12	11	1	2	1	1	0	1	1	5	4	2	3	1	4	1	4	1	4	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:6381912G>T	uc002gdd.3	-	7	883	c.732C>A	c.(730-732)TAC>TAA	p.Y244*	PITPNM3_uc010cln.2_Nonsense_Mutation_p.Y208*|PITPNM3_uc002gdc.3_5'UTR	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	244					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		GGAACTCTCTGTAGACCTGGT	0.647													19	33					7.92952e-12	8.95269e-12	0.021523	1	0		T	6381912	T	T	6381912	4	4	21	1	0	0	0	0	0	1	0	0	11971	1372	48	5	2248	5	PITPNM3	17	6381912	Nonsense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	14355	6381912	74813298	446	19014											
TXNDC17	84817	broad.mit.edu	37	chr17	6544415	6544417	+	In_Frame_Del	DEL	GAG	-	-																															tcgtgccaatggcccgctatGaggaggtgagcgtgtccggc																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:6544415_6544417delGAG	uc002gdf.3	+	1	194_196	c.13_15delGAG	c.(13-15)GAGdel	p.E6del	KIAA0753_uc002gde.3_5'Flank|KIAA0753_uc010vte.1_5'Flank	NM_032731	NP_116120	Q9BRA2	TXD17_HUMAN	thioredoxin-like 5	6					tumor necrosis factor-mediated signaling pathway	cytosol	electron carrier activity|peroxidase activity|protein binding|protein-disulfide reductase activity			ovary(1)	1						GGCCCGCTATGAGGAGGTGAGCG	0.65													10	23	---	---	---	---						.	-	6544417	-	-	6544415	7	5	21	1	0	1	0	1	0	0	0	0	16822	1291	45	0	15	0	TXNDC17	17	6544415	In_Frame_Del	DEL	GAG	TCGA-BR-4363-01A-01D-1158-08	162503	6544415	74650795	447	19015											
NLGN2	57555	broad.mit.edu	37	chr17	7320661	7320661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgtcaccgtggccgtgggtgCctccctcctcttcctcaaca	4	10	9	18	3	3	0	2	0	1	0	6	0	6	0	6	2	2	0	6	2	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:7320661C>T	uc002ggt.1	+	7	2124	c.2051C>T	c.(2050-2052)GCC>GTC	p.A684V	FGF11_uc010vtw.1_5'Flank	NM_020795	NP_065846	Q8NFZ4	NLGN2_HUMAN	neuroligin 2 precursor	684	Helical; (Potential).				cell-cell junction maintenance|neuron cell-cell adhesion|positive regulation of synaptogenesis|regulation of inhibitory postsynaptic membrane potential|synapse assembly	cell surface|integral to plasma membrane|postsynaptic membrane	neurexin binding|receptor activity			central_nervous_system(1)	1		Prostate(122;0.157)				GCCGTGGGTGCCTCCCTCCTC	0.701													16	24					0	0	0.00499	0	0		T	7320661	T	T	7320661	3	4	21	1	0	0	0	0	1	0	0	0	10481	739	26	2	2077	2	NLGN2	17	7320661	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	776246	7320661	73874549	448	19016											
ZBTB4	57659	broad.mit.edu	37	chr17	7366997	7366997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggagaaaggggagcctccGgggctccctggctgtaggtc	6	8	17	10	1	0	1	0	0	0	1	3	3	2	2	3	7	1	3	3	7	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:7366997G>A	uc002ghc.3	-	4	1554	c.1304C>T	c.(1303-1305)CCG>CTG	p.P435L	ZBTB4_uc002ghd.3_Missense_Mutation_p.P435L	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	435	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		GGGAGCCTCCGGGGCTCCCTG	0.662													34	123					0	0	0.021022	0	0		A	7366997	A	A	7366997	3	1	21	1	0	0	0	0	1	0	0	0	17566	1116	39	1	1741	1	ZBTB4	17	7366997	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	46336	7366997	73828213	449	19017											
TP53	7157	broad.mit.edu	37	chr17	7577036	7577036	+	Frame_Shift_Del	DEL	G	-	-																															tacctcgcttagtgctccctGggggcagctcgtggtgaggc																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:7577036delG	uc002gim.2	-	8	1096	c.902delC	c.(901-903)CCAfs	p.P301fs	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Frame_Shift_Del_p.P301fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.P169fs|TP53_uc010cng.1_Frame_Shift_Del_p.P169fs|TP53_uc002gii.1_Frame_Shift_Del_p.P169fs|TP53_uc010cnh.1_Frame_Shift_Del_p.P301fs|TP53_uc010cni.1_Frame_Shift_Del_p.P301fs|TP53_uc002gij.2_Frame_Shift_Del_p.P301fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	301	Interaction with HIPK1 (By similarity).|Interaction with CARM1.		P -> T (in a sporadic cancer; somatic mutation).|P -> A (in sporadic cancers; somatic mutation).|P -> Q (in sporadic cancers; somatic mutation).|P -> L (in sporadic cancers; somatic mutation).|P -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P301fs*44(9)|p.0?(7)|p.G302fs*4(4)|p.?(3)|p.P301fs*5(3)|p.P301S(3)|p.P301_S303delPGS(1)|p.L299fs*2(1)|p.P301P(1)|p.L265_K305del41(1)|p.P301Q(1)|p.P301fs*45(1)|p.P301T(1)|p.G293fs*1(1)|p.P301L(1)|p.P301A(1)|p.E298_P301delELPP(1)|p.H296_S303delHHELPPGS(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		AGTGCTCCCTGGGGGCAGCTC	0.557		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			57	126	---	---	---	---						.	-	7577036	-	-	7577036	7	5	21	1	0	1	0	1	0	0	0	0	16407	1348	47	0	384	0	TP53	17	7577036	Frame_Shift_Del	DEL	G	TCGA-BR-4363-01A-01D-1158-08	210039	7577036	73618174	450	19018											
TP53	7157	broad.mit.edu	37	chr17	7578263	7578263	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcaaatttccttccactcGgataagatgctgaggagggg	11	9	12	9	2	0	2	0	1	0	1	3	4	2	4	2	4	1	2	2	4	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:7578263G>A	uc002gim.2	-	6	780	c.586C>T	c.(586-588)CGA>TGA	p.R196*	TP53_uc002gig.1_Nonsense_Mutation_p.R196*|TP53_uc002gih.2_Nonsense_Mutation_p.R196*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R64*|TP53_uc010cng.1_Nonsense_Mutation_p.R64*|TP53_uc002gii.1_Nonsense_Mutation_p.R64*|TP53_uc010cnh.1_Nonsense_Mutation_p.R196*|TP53_uc010cni.1_Nonsense_Mutation_p.R196*|TP53_uc002gij.2_Nonsense_Mutation_p.R196*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.R103*|TP53_uc002gio.2_Nonsense_Mutation_p.R64*|TP53_uc010vug.1_Nonsense_Mutation_p.R157*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	196	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> S (in a sporadic cancer; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R196*(125)|p.R196P(12)|p.0?(7)|p.R196R(5)|p.R196fs*51(4)|p.A189_V197delAPPQHLIRV(4)|p.R196Q(3)|p.K164_P219del(1)|p.R196L(1)|p.I195fs*50(1)|p.P191fs*6(1)|p.I195_G199delIRVEG(1)|p.R64*(1)|p.I195fs*12(1)|p.R103*(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CCTTCCACTCGGATAAGATGC	0.552		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			15	44					0	0	0.004007	0	0		A	7578263	A	A	7578263	4	1	21	1	0	0	0	0	0	1	0	0	16407	1124	39	1	708	1	TP53	17	7578263	Nonsense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1227	7578263	73616947	451	19019											
DNAH2	146754	broad.mit.edu	37	chr17	7674152	7674152	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcacgctttgtcaaggcCtttgagaaggatgtggacca	10	10	12	9	1	2	1	2	1	0	1	2	4	2	3	2	3	0	2	2	3	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:7674152C>A	uc002giu.1	+	26	4277	c.4263C>A	c.(4261-4263)GCC>GCA	p.A1421A		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1421	TPR 1.|Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TTGTCAAGGCCTTTGAGAAGG	0.493													76	151					4.8811e-34	5.70412e-34	0.01441	1	0		A	7674152	A	A	7674152	2	1	21	1	0	0	0	0	0	0	0	1	4608	668	24	5		5	DNAH2	17	7674152	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	95889	7674152	73521058	452	19020											
LSMD1	84316	broad.mit.edu	37	chr17	7760123	7760123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggtgtccgggtaccatggCcaggcccagcacacggggct	6	6	16	13	2	0	0	0	0	0	0	1	0	1	0	4	6	2	3	4	6	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:7760123C>T	uc002giz.2	-	3	403	c.304G>A	c.(304-306)GCC>ACC	p.A102T	LSMD1_uc002gja.2_Missense_Mutation_p.A150T|CYB5D1_uc010cnn.1_5'Flank|CYB5D1_uc002gjb.3_5'Flank			Q9BRA0	LSMD1_HUMAN	RecName: Full=LSM domain-containing protein 1; AltName: Full=Phosphonoformate immuno-associated protein 2;	102						cytoplasm|nucleus				ovary(1)	1		all_cancers(10;0.11)|Prostate(122;0.219)				GGTACCATGGCCAGGCCCAGC	0.587											OREG0024146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	115					0	0	0.00623	0	0		T	7760123	T	T	7760123	3	4	21	1	0	0	0	0	1	0	0	0	9080	739	26	2	77	2	LSMD1	17	7760123	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	85971	7760123	73435087	453	19021											
MYH10	4628	broad.mit.edu	37	chr17	8409738	8409738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggtcctgcaggtcggtcGtctccccgtcgagttttctt	2	15	11	13	4	3	0	0	0	3	0	8	1	4	0	3	3	1	2	3	3	0	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:8409738G>A	uc002gll.2	-	25	3287	c.3191C>T	c.(3190-3192)ACG>ATG	p.T1064M	MYH10_uc002glm.2_Missense_Mutation_p.T1095M|MYH10_uc010cnx.2_Missense_Mutation_p.T1073M	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1064	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						CAGGTCGGTCGTCTCCCCGTC	0.532													38	96					0	0	0.009718	0	0		A	8409738	A	A	8409738	3	1	21	1	0	0	0	0	1	0	0	0	10048	1145	40	1	2807	1	MYH10	17	8409738	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	649615	8409738	72785472	454	19022											
PIK3R6	146850	broad.mit.edu	37	chr17	8732080	8732080	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggggccatgcacgcttctTgatgccccctttgcgctgca	5	10	11	15	2	1	1	0	1	1	0	1	1	1	1	3	2	4	4	3	2	0	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:8732080T>C	uc002glq.1	-	11	1357	c.1117A>G	c.(1117-1119)AAG>GAG	p.K373E	PIK3R6_uc002glr.1_RNA|PIK3R6_uc002gls.1_RNA	NM_001010855	NP_001010855	Q5UE93	PI3R6_HUMAN	phosphoinositide-3-kinase, regulatory subunit 6	373					platelet activation	cytosol					0						GCACGCTTCTTGATGCCCCCT	0.687													10	11					0	0	0.006214	0	0		C	8732080	C	C	8732080	3	2	21	1	0	0	0	0	1	0	0	0	11942	1821	63	3	1186	3	PIK3R6	17	8732080	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	322342	8732080	72463130	455	19023											
DNAH9	1770	broad.mit.edu	37	chr17	11520904	11520904	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccgggaaggctgactgtgCtgctccaggagatttgcaac	8	8	13	12	1	0	2	0	1	0	1	1	4	1	3	3	3	4	4	3	3	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:11520904C>T	uc002gne.2	+	5	1149	c.1081C>T	c.(1081-1083)CTG>TTG	p.L361L		NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	361	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GCTGACTGTGCTGCTCCAGGA	0.617													20	56					0	0	0.016522	0	0		T	11520904	T	T	11520904	2	4	21	1	0	0	0	0	0	0	0	1	4614	796	28	2		2	DNAH9	17	11520904	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2788824	11520904	69674306	456	19024											
PMP22	5376	broad.mit.edu	37	chr17	15134393	15134393	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcagcactcatcacgcaCagacctggggaaggagaggg	11	3	15	12	2	2	2	2	0	0	2	2	4	2	3	2	4	1	3	2	4	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:15134393C>T	uc002goj.2	-	4	373	c.324G>A	c.(322-324)CTG>CTA	p.L108L	PMP22_uc002gok.2_Silent_p.L108L|PMP22_uc002gol.2_Silent_p.L108L	NM_153322	NP_696997	Q01453	PMP22_HUMAN	peripheral myelin protein 22	108	Helical; (By similarity).				peripheral nervous system development|synaptic transmission	integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0884)|BRCA - Breast invasive adenocarcinoma(8;4.92e-06)		TCATCACGCACAGACCTGGGG	0.622													19	42					0	0	0.012319	0	0		T	15134393	T	T	15134393	2	4	21	1	0	0	0	0	0	0	0	1	12158	465	17	4		4	PMP22	17	15134393	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	3613489	15134393	66060817	457	19025											
TRPV2	51393	broad.mit.edu	37	chr17	16332204	16332204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgagtggtacctgcccctgCttgtgtctgcgctggtgctg	2	13	14	12	2	1	0	0	0	1	0	2	1	1	0	3	2	5	4	3	2	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:16332204C>T	uc002gpy.2	+	10	1862	c.1495C>T	c.(1495-1497)CTT>TTT	p.L499F	TRPV2_uc002gpz.2_Missense_Mutation_p.L69F	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	499	Helical; (Potential).				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CCTGCCCCTGCTTGTGTCTGC	0.582													7	153					0	0	0.001984	0	0		T	16332204	T	T	16332204	3	4	21	1	0	0	0	0	1	0	0	0	16622	797	28	2	1529	2	TRPV2	17	16332204	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1197811	16332204	64863006	458	19026											
MPRIP	23164	broad.mit.edu	37	chr17	17078646	17078646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcagagatcacacggttgCggacgctgctgactggggac	8	7	15	11	3	1	2	1	1	0	1	1	5	1	4	0	4	3	4	0	4	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:17078646C>T	uc002gqu.1	+	19	2685	c.2629C>T	c.(2629-2631)CGG>TGG	p.R877W	MPRIP_uc002gqv.1_Missense_Mutation_p.R877W|MPRIP_uc002gqw.1_Missense_Mutation_p.R632W|MPRIP_uc002gqx.1_Missense_Mutation_p.R1106W|MPRIP_uc002gqy.1_Missense_Mutation_p.R1106W|MPRIP_uc010cpl.1_Intron|MPRIP_uc010cpm.1_Intron	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	877	Interaction with PPP1R12A.|Potential.					cytoplasm|cytoskeleton	actin binding				0						CACACGGTTGCGGACGCTGCT	0.627													14	38					0	0	0.020292	0	0		T	17078646	T	T	17078646	3	4	21	1	0	0	0	0	1	0	0	0	9761	759	27	1	2703	1	MPRIP	17	17078646	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	746442	17078646	64116564	459	19027											
SLC5A10	125206	broad.mit.edu	37	chr17	18923663	18923663	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaaacaccccagaaacaCgccttctgggcccgtgtctg	9	6	10	16	2	2	1	0	0	2	1	2	1	2	1	5	2	2	0	5	2	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:18923663C>T	uc002guu.1	+	15	1751	c.1710C>T	c.(1708-1710)CAC>CAT	p.H570H	SLC5A10_uc002gur.1_Silent_p.H540H|SLC5A10_uc002gut.1_Silent_p.H586H|SLC5A10_uc002guv.1_Silent_p.H543H|SLC5A10_uc010vyl.1_Silent_p.H534H	NM_001042450	NP_001035915	A0PJK1	SC5AA_HUMAN	solute carrier family 5 (sodium/glucose	570	Cytoplasmic (Potential).				sodium ion transport|transmembrane transport	integral to membrane	transporter activity			ovary(1)	1						CCCAGAAACACGCCTTCTGGG	0.552													50	166					0	0	0.01441	0	0		T	18923663	T	T	18923663	2	4	21	1	0	0	0	0	0	0	0	1	14687	535	19	1		1	SLC5A10	17	18923663	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1845017	18923663	62271547	460	19028											
MAPK7	5598	broad.mit.edu	37	chr17	19285498	19285498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggctctacctctggccctGtaccccagcctgcctgccca	4	8	9	20	1	2	0	0	0	2	0	2	0	2	0	7	2	5	2	7	2	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:19285498G>A	uc002gvn.2	+	5	2268	c.1882G>A	c.(1882-1884)GTA>ATA	p.V628I	MAPK7_uc002gvo.2_Missense_Mutation_p.V489I|MAPK7_uc002gvq.2_Missense_Mutation_p.V628I|MAPK7_uc002gvp.2_Missense_Mutation_p.V628I|uc010vyt.1_5'Flank	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	628	May not be required for kinase activity; required to stimulate MEF2C activity (By similarity).|Pro-rich.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					CTCTGGCCCTGTACCCCAGCC	0.632													9	27					0	0	0.006214	0	0		A	19285498	A	A	19285498	3	1	21	1	0	0	0	0	1	0	0	0	9300	1377	48	4	1896	4	MAPK7	17	19285498	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	361835	19285498	61909712	461	19029											
KCNJ12	3768	broad.mit.edu	37	chr17	21318889	21318889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccacctgtgtggacatcCgctggcggtacatgctgctc	6	10	11	14	2	1	0	1	0	0	0	3	1	2	1	3	3	3	4	3	3	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:21318889C>T	uc002gyv.1	+	3	940	c.235C>T	c.(235-237)CGC>TGC	p.R79C		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	79	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	TGTGGACATCCGCTGGCGGTA	0.567										Prostate(3;0.18)			8	79					0	0	0.003163	0	0		T	21318889	T	T	21318889	3	4	21	1	0	0	0	0	1	0	0	0	8062	652	23	1	237	1	KCNJ12	17	21318889	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2033391	21318889	59876321	462	19030											
NLK	51701	broad.mit.edu	37	chr17	26449711	26449711	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatctggtctcttgcaaaAgggtcttccgggaattgaag	11	11	12	7	1	3	2	0	1	3	1	5	3	4	3	1	3	1	1	1	3	5	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:26449711A>G	uc010crj.2	+	2	753	c.541A>G	c.(541-543)AGG>GGG	p.R181G	NLK_uc010cri.1_RNA	NM_016231	NP_057315	Q9UBE8	NLK_HUMAN	nemo like kinase	181	Protein kinase.				intracellular protein kinase cascade|negative regulation of Wnt receptor signaling pathway|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|serine phosphorylation of STAT3 protein|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|MAP kinase activity|SH2 domain binding|transcription factor binding|ubiquitin protein ligase binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_lung(13;0.000343)|Lung NSC(42;0.00184)			UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		CTCTTGCAAAAGGGTCTTCCG	0.398													37	94					0	0	0.019004	0	0		G	26449711	G	G	26449711	3	3	21	1	0	0	0	0	1	0	0	0	10485	63	3	3	547	3	NLK	17	26449711	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	5130822	26449711	54745499	463	19031											
FOXN1	8456	broad.mit.edu	37	chr17	26854350	26854350	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcctcccttgcagcatatgTactgctcctcccagcccccc	6	9	6	20	0	0	0	0	0	0	0	3	0	3	0	7	0	6	4	7	0	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:26854350T>C	uc010crm.2	+	4	868	c.670T>C	c.(670-672)TAC>CAC	p.Y224H	FOXN1_uc002hbj.2_Missense_Mutation_p.Y224H	NM_003593	NP_003584	O15353	FOXN1_HUMAN	forkhead box N1	224					defense response|embryo development|epithelial cell proliferation|keratinocyte differentiation|organ morphogenesis|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|thymus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	Lung NSC(42;0.00431)					GCAGCATATGTACTGCTCCTC	0.587													8	24					0	0	0.00308	0	0		C	26854350	C	C	26854350	3	2	21	1	0	0	0	0	1	0	0	0	6033	1638	57	3	680	3	FOXN1	17	26854350	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	404639	26854350	54340860	464	19032											
GOSR1	9527	broad.mit.edu	37	chr17	28811743	28811743	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtgtcccctccttgaaTgcagccctgatgcatacatt	8	11	9	13	0	0	2	0	2	0	0	2	2	2	2	4	1	4	3	4	1	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:28811743T>C	uc002hfe.2	+	4	329	c.303T>C	c.(301-303)AAT>AAC	p.N101N	GOSR1_uc002hfd.2_Silent_p.N99N|GOSR1_uc002hff.2_Silent_p.N36N|GOSR1_uc002hfc.1_Silent_p.N101N	NM_004871	NP_004862	O95249	GOSR1_HUMAN	golgi SNAP receptor complex member 1 isoform 1	101	Cytoplasmic (Potential).				intra-Golgi vesicle-mediated transport|protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|SNARE complex	SNAP receptor activity				0						CCTCCTTGAATGCAGCCCTGA	0.358													30	78					0	0	0.019004	0	0		C	28811743	C	C	28811743	2	2	21	1	0	0	0	0	0	0	0	1	6592	1461	51	3		3	GOSR1	17	28811743	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	1957393	28811743	52383467	465	19033											
TMEM132E	124842	broad.mit.edu	37	chr17	32964419	32964419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctgccagaaaaccaaacGcaagagtgtgctcgccacga	14	4	11	12	3	0	2	0	0	0	2	1	4	0	2	3	0	5	3	3	0	4	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:32964419G>A	uc002hif.2	+	10	2451	c.2123G>A	c.(2122-2124)CGC>CAC	p.R708H		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	708	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		AAAACCAAACGCAAGAGTGTG	0.652													32	74					0	0	0.012213	0	0		A	32964419	A	A	32964419	3	1	21	1	0	0	0	0	1	0	0	0	16073	1087	38	1	2161	1	TMEM132E	17	32964419	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	4152676	32964419	48230791	466	19034											
FBXO47	494188	broad.mit.edu	37	chr17	37099048	37099048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccaaagccaaaaagactaCgagccttgccagttcaatgg	15	7	8	11	1	1	1	1	0	0	1	1	2	1	1	4	1	5	1	4	1	6	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:37099048C>T	uc002hrc.2	-	9	1266	c.1066G>A	c.(1066-1068)GTA>ATA	p.V356I		NM_001008777	NP_001008777	Q5MNV8	FBX47_HUMAN	F-box protein 47	356											0						AAAAAGACTACGAGCCTTGCC	0.403													30	84					0	0	0.007291	0	0		T	37099048	T	T	37099048	3	4	21	1	0	0	0	0	1	0	0	0	5770	536	19	1	304	1	FBXO47	17	37099048	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	4134629	37099048	44096162	467	19035											
WNK4	65266	broad.mit.edu	37	chr17	40940150	40940150	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccttatcctgtttcaggcTtttgccctatccattccacg	6	15	5	15	1	1	0	1	0	0	0	4	0	4	0	5	1	1	2	5	1	2	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:40940150T>C	uc002ibj.2	+	9	1887	c.1866T>C	c.(1864-1866)GCT>GCC	p.A622A	WNK4_uc010wgx.1_Silent_p.A286A|WNK4_uc002ibk.1_Silent_p.A394A|WNK4_uc010wgy.1_5'UTR	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	622					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		TGTTTCAGGCTTTTGCCCTAT	0.522													135	320					0	0	0.01441	0	0		C	40940150	C	C	40940150	2	2	21	1	0	0	0	0	0	0	0	1	17406	1596	56	3		3	WNK4	17	40940150	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	3841102	40940150	40255060	468	19036											
BECN1	8678	broad.mit.edu	37	chr17	40970864	40970864	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcctccccaatcagagTgaagctgttggcactttctg	9	11	10	11	0	2	3	1	1	1	2	3	3	3	3	3	1	2	3	3	1	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:40970864T>G	uc002ibo.3	-	5	427	c.292A>C	c.(292-294)ACT>CCT	p.T98P	BECN1_uc010whb.1_Missense_Mutation_p.T11P|BECN1_uc010whc.1_Intron|BECN1_uc002ibn.2_Missense_Mutation_p.T98P	NM_003766	NP_003757	Q14457	BECN1_HUMAN	beclin 1	98					anti-apoptosis|cell cycle|cellular defense response|cytokinesis|response to virus	membrane	protein binding			ovary(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0745)		CCAATCAGAGTGAAGCTGTTG	0.597													19	47					0	0	0.01892	0	0		G	40970864	G	G	40970864	3	3	21	1	0	0	0	0	1	0	0	0	1397	1696	59	5	1092	5	BECN1	17	40970864	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	30714	40970864	40224346	469	19037											
AOC2	314	broad.mit.edu	37	chr17	40997723	40997723	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctatgaagtcagtgtccaGgagtgtgtatctatctatgg	9	13	12	7	0	3	1	1	1	2	0	4	2	4	2	2	2	0	1	2	2	5	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:40997723G>T	uc002ibu.2	+	1	1115	c.1080G>T	c.(1078-1080)CAG>CAT	p.Q360H	AOC2_uc002ibt.2_Missense_Mutation_p.Q360H	NM_009590	NP_033720	O75106	AOC2_HUMAN	amine oxidase, copper containing 2 isoform b	360					catecholamine metabolic process|visual perception	cytoplasm|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|electron carrier activity|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			ovary(2)	2		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		TCAGTGTCCAGGAGTGTGTAT	0.527													41	156					8.01111e-26	9.2998e-26	0.010771	1	0		T	40997723	T	T	40997723	3	4	21	1	0	0	0	0	1	0	0	0	727	991	35	5	1082	5	AOC2	17	40997723	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	26859	40997723	40197487	470	19038											
ARL4D	379	broad.mit.edu	37	chr17	41477611	41477611	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgcaaggctgcagcgctGtggacggtctgggcctgcag	6	8	17	10	2	1	0	0	0	1	0	1	1	1	1	1	4	4	5	1	4	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:41477611G>C	uc002idt.2	+	2	692	c.511G>C	c.(511-513)GTG>CTG	p.V171L		NM_001661	NP_001652	P49703	ARL4D_HUMAN	ADP-ribosylation factor-like 4D	171					protein secretion|small GTPase mediated signal transduction	cytoplasm|nucleolus|plasma membrane	GTP binding|GTPase activity|protein binding			ovary(1)	1		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.155)		CTGCAGCGCTGTGGACGGTCT	0.632													6	9					0	0	0.004482	0	0		C	41477611	C	C	41477611	3	2	21	1	0	0	0	0	1	0	0	0	939	1377	48	5	513	5	ARL4D	17	41477611	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	479888	41477611	39717599	471	19039											
DHX8	1659	broad.mit.edu	37	chr17	41568548	41568548	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagatccagttgttaaacCtaaaacagaaaaagaaaagc	22	6	6	7	0	0	3	0	0	0	3	1	3	1	3	2	0	3	2	2	0	9	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:41568548C>A	uc002idu.1	+	4	396	c.323C>A	c.(322-324)CCT>CAT	p.P108H	DHX8_uc010wif.1_Missense_Mutation_p.P17H|DHX8_uc010wig.1_Missense_Mutation_p.P108H	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	108						catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		GTTGTTAAACCTAAAACAGAA	0.328													22	56					6.44725e-10	7.175e-10	0.014323	1	0		A	41568548	A	A	41568548	3	1	21	1	0	0	0	0	1	0	0	0	4521	681	24	5	337	5	DHX8	17	41568548	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	90937	41568548	39626662	472	19040											
FMNL1	752	broad.mit.edu	37	chr17	43314678	43314678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttgtcatgaaccacccaGcctgtgtcaatgagattgct	9	11	9	12	0	2	2	2	2	0	1	2	3	2	2	4	0	3	1	4	0	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:43314678G>A	uc002iin.2	+	8	954	c.754G>A	c.(754-756)GCC>ACC	p.A252T		NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	252	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						GAACCACCCAGCCTGTGTCAA	0.403													32	46					0	0	0.017118	0	0		A	43314678	A	A	43314678	3	1	21	1	0	0	0	0	1	0	0	0	5965	971	34	2	784	2	FMNL1	17	43314678	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1746130	43314678	37880532	473	19041											
FAM117A	81558	broad.mit.edu	37	chr17	47799955	47799955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcttgccaggacaggggcGtctgcagggagagaaacaca	11	5	15	10	1	2	1	0	0	2	1	2	4	2	3	1	4	3	2	1	4	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:47799955G>A	uc002ipk.2	-	3	437	c.368C>T	c.(367-369)ACG>ATG	p.T123M	FAM117A_uc010wlz.1_Translation_Start_Site	NM_030802	NP_110429	Q9C073	F117A_HUMAN	family with sequence similarity 117, member A	123										ovary(1)	1						GGACAGGGGCGTCTGCAGGGA	0.577													6	32					0	0	0.001168	0	0		A	47799955	A	A	47799955	3	1	21	1	0	0	0	0	1	0	0	0	5420	1159	40	1	1017	1	FAM117A	17	47799955	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	4485277	47799955	33395255	474	19042											
ACSF2	80221	broad.mit.edu	37	chr17	48539865	48539865	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagtggtggcggctggcagCacacggcagcatctggacca	9	5	16	11	2	1	0	0	0	1	0	1	2	1	1	1	6	2	5	1	6	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:48539865C>T	uc002iqu.2	+	6	815	c.711C>T	c.(709-711)AGC>AGT	p.S237S	ACSF2_uc010wml.1_Silent_p.S194S|ACSF2_uc010wmm.1_Silent_p.S262S|ACSF2_uc010wmn.1_Silent_p.S224S|ACSF2_uc010wmo.1_Silent_p.S77S	NM_025149	NP_079425	Q96CM8	ACSF2_HUMAN	acyl-CoA synthetase family member 2 precursor	237					fatty acid metabolic process	mitochondrion	ATP binding|ligase activity				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			CGGCTGGCAGCACACGGCAGC	0.612													14	48					0	0	0.020292	0	0		T	48539865	T	T	48539865	2	4	21	1	0	0	0	0	0	0	0	1	175	709	25	2		2	ACSF2	17	48539865	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	739910	48539865	32655345	475	19043											
BZRAP1	9256	broad.mit.edu	37	chr17	56389796	56389796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttgaggaccaccagacGgcgggggtaaggcacggcag	9	4	17	11	3	0	2	0	1	0	1	0	3	0	3	2	6	1	4	2	6	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:56389796G>A	uc002ivx.3	-	17	3257	c.2386C>T	c.(2386-2388)CGT>TGT	p.R796C	BZRAP1_uc010dcs.2_Missense_Mutation_p.R736C|BZRAP1_uc010wnt.1_Missense_Mutation_p.R796C	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	796	Fibronectin type-III 1.					mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					ACCACCAGACGGCGGGGGTAA	0.662													8	20					0	0	0.016723	0	0		A	56389796	A	A	56389796	3	1	21	1	0	0	0	0	1	0	0	0	1580	1116	39	1	3247	1	BZRAP1	17	56389796	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	7849931	56389796	24805414	476	19044											
USP32	84669	broad.mit.edu	37	chr17	58288792	58288792	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactgtgtcagtggctgtgTgttactaacacactggatgc	9	13	11	8	0	1	0	1	0	0	0	1	1	1	1	0	2	4	2	0	2	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:58288792T>C	uc002iyo.1	-	20	2549	c.2263A>G	c.(2263-2265)ACA>GCA	p.T755A	USP32_uc002iyn.1_Missense_Mutation_p.T425A	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	755					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			AGTGGCTGTGTGTTACTAACA	0.428													9	153					0	0	0.00499	0	0		C	58288792	C	C	58288792	3	2	21	1	0	0	0	0	1	0	0	0	17089	1696	59	3	2611	3	USP32	17	58288792	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	1898996	58288792	22906418	477	19045											
CASKIN2	57513	broad.mit.edu	37	chr17	73498994	73498994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggggctgggatctccacCgctgggctgtggggcaggct	3	7	21	10	1	1	0	0	0	1	0	2	1	1	1	2	8	0	5	2	8	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:73498994C>T	uc002joc.2	-	18	2711	c.2161G>A	c.(2161-2163)GGT>AGT	p.G721S	CASKIN2_uc010wsc.1_Missense_Mutation_p.G639S	NM_020753	NP_065804	Q8WXE0	CSKI2_HUMAN	cask-interacting protein 2 isoform a	721	Pro-rich.					cytoplasm				pancreas(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGATCTCCACCGCTGGGCTGT	0.677													17	26					0	0	0.014323	0	0		T	73498994	T	T	73498994	3	4	21	1	0	0	0	0	1	0	0	0	2670	652	23	1	1459	1	CASKIN2	17	73498994	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	15210202	73498994	7696216	478	19046											
TBCD	6904	broad.mit.edu	37	chr17	80714084	80714084	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcctcatctgttggacccGcaccttggtaagaatagaag	11	9	10	11	1	2	2	1	0	1	2	2	3	2	3	3	2	1	3	3	2	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr17:80714084G>A	uc002kfz.2	+	2	358	c.228G>A	c.(226-228)CCG>CCA	p.P76P	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Silent_p.P76P	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	76					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			TGTTGGACCCGCACCTTGGTA	0.433													5	10					0	0	0.004482	0	0		A	80714084	A	A	80714084	2	1	21	1	0	0	0	0	0	0	0	1	15658	1074	38	1		1	TBCD	17	80714084	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	7215090	80714084	481126	479	19047											
USP14	9097	broad.mit.edu	37	chr18	211160	211160	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattaagtttgatgatgacaAagtcagcatcgtaacaccag	15	10	9	7	1	1	3	1	3	0	0	2	4	1	3	1	0	2	3	1	0	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr18:211160A>C	uc002kkf.1	+	16	1577	c.1361A>C	c.(1360-1362)AAA>ACA	p.K454T	USP14_uc002kkg.1_Missense_Mutation_p.K419T|USP14_uc010wyr.1_Missense_Mutation_p.K443T	NM_005151	NP_005142	P54578	UBP14_HUMAN	ubiquitin specific protease 14 isoform a	454					regulation of chemotaxis|regulation of proteasomal protein catabolic process|ubiquitin-dependent protein catabolic process	cell surface|cytoplasmic membrane-bounded vesicle|plasma membrane|proteasome complex	cysteine-type endopeptidase activity|endopeptidase inhibitor activity|proteasome binding|tRNA guanylyltransferase activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)	2		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				GATGATGACAAAGTCAGCATC	0.403													21	48					0	0	0.010504	0	0		C	211160	C	C	211160	3	2	21	1	0	0	0	0	1	0	0	0	17071	14	1	5	1423	5	USP14	18	211160	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08		211160	77866088	480	19048											
FAM59A	64762	broad.mit.edu	37	chr18	29867460	29867460	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgagcgaattgggcacgTggttgtggccagagcaccga	9	7	16	9	3	0	2	0	1	0	1	0	4	0	2	2	3	3	4	2	3	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr18:29867460T>C	uc002kxl.2	-	4	1156	c.1100A>G	c.(1099-1101)CAC>CGC	p.H367R	FAM59A_uc002kxk.1_Missense_Mutation_p.H367R	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	367										ovary(1)|skin(1)	2						ATTGGGCACGTGGTTGTGGCC	0.552													25	60					0	0	0.015359	0	0		C	29867460	C	C	29867460	3	2	21	1	0	0	0	0	1	0	0	0	5606	1696	59	3	1539	3	FAM59A	18	29867460	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	29656300	29867460	48209788	481	19049											
SETBP1	26040	broad.mit.edu	37	chr18	42531918	42531918	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccccagcgacagcggcatTgggacagacaacaacagcac	14	3	10	14	2	0	1	0	0	0	1	1	3	1	2	2	2	5	2	2	2	2	1	rs36110095		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr18:42531918T>C	uc010dni.2	+	4	2909	c.2613T>C	c.(2611-2613)ATT>ATC	p.I871I		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	871			I -> T (in SGMFS).			nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		ACAGCGGCATTGGGACAGACA	0.567									Schinzel-Giedion_syndrome				17	32					0	0	0.00499	0	0		C	42531918	C	C	42531918	2	2	21	1	0	0	0	0	0	0	0	1	14154	1800	63	3		3	SETBP1	18	42531918	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	12664458	42531918	35545330	482	19050											
KIAA0427	9811	broad.mit.edu	37	chr18	46385731	46385731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgcagagtacaggccGgctgctggaggaacagctgc	9	5	16	11	1	0	1	0	0	0	1	0	3	0	3	1	4	7	7	1	4	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr18:46385731G>A	uc002ldc.2	+	12	1883	c.1598G>A	c.(1597-1599)CGG>CAG	p.R533Q	KIAA0427_uc002ldd.2_Missense_Mutation_p.R535Q|KIAA0427_uc002lde.3_Missense_Mutation_p.R162Q	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	533	MIF4G.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						AGTACAGGCCGGCTGCTGGAG	0.632													52	90					0	0	0.01441	0	0		A	46385731	A	A	46385731	3	1	21	1	0	0	0	0	1	0	0	0	8192	1116	39	1	1646	1	KIAA0427	18	46385731	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	3853813	46385731	31691517	483	19051											
DCC	1630	broad.mit.edu	37	chr18	50278508	50278508	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggggaggaaatgtcctccTcgactgctccgcggagtccg	6	7	15	13	5	0	0	0	0	0	0	5	4	4	3	4	4	1	1	4	4	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr18:50278508T>C	uc002lfe.1	+	2	763	c.176T>C	c.(175-177)CTC>CCC	p.L59P	DCC_uc010xdr.1_5'UTR	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	59	Extracellular (Potential).|Ig-like C2-type 1.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AATGTCCTCCTCGACTGCTCC	0.507													27	50					0	0	0.005443	0	0		C	50278508	C	C	50278508	3	2	21	1	0	0	0	0	1	0	0	0	4285	1551	54	3	182	3	DCC	18	50278508	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	3892777	50278508	27798740	484	19052											
ZNF407	55628	broad.mit.edu	37	chr18	72776341	72776341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagagcagctggccagcGtggtcatctacacccaggag	9	5	15	12	1	2	1	1	0	1	1	2	2	2	2	2	4	4	3	2	4	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr18:72776341G>A	uc002llw.2	+	8	6721	c.6664G>A	c.(6664-6666)GTG>ATG	p.V2222M		NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	2222					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		GCTGGCCAGCGTGGTCATCTA	0.662													6	8					0	0	0.001984	0	0		A	72776341	A	A	72776341	3	1	21	1	0	0	0	0	1	0	0	0	17912	1145	40	1	6824	1	ZNF407	18	72776341	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	22497833	72776341	5300907	485	19053											
ZNF236	7776	broad.mit.edu	37	chr18	74649233	74649233	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgctagtgtcacgctgacGctggccgatactcagggtat	8	9	13	11	4	2	1	2	1	0	0	2	3	2	1	1	2	1	4	1	2	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr18:74649233G>A	uc002lmi.2	+	26	4908	c.4710G>A	c.(4708-4710)ACG>ACA	p.T1570T	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1570					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TCACGCTGACGCTGGCCGATA	0.577													6	23					0	0	0.006214	0	0		A	74649233	A	A	74649233	2	1	21	1	0	0	0	0	0	0	0	1	17814	1074	38	1		1	ZNF236	18	74649233	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1872892	74649233	3428015	486	19054											
HCN2	610	broad.mit.edu	37	chr19	605189	605189	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatgctgcaggacttcccGcgcaactgctgggtgtccat	6	10	11	14	2	0	0	0	0	0	0	2	1	2	1	3	2	4	4	3	2	2	2	rs139997813	byFrequency	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:605189G>A	uc002lpe.2	+	3	1238	c.1185G>A	c.(1183-1185)CCG>CCA	p.P395P		NM_001194	NP_001185	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic	395	Extracellular (Potential).				cell-cell signaling|muscle contraction	voltage-gated potassium channel complex	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGACTTCCCGCGCAACTGCT	0.652													33	46					0	0	0.015359	0	0		A	605189	A	A	605189	2	1	21	1	0	0	0	0	0	0	0	1	7013	1074	38	1		1	HCN2	19	605189	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08		605189	58523794	487	19055											
ELANE	1991	broad.mit.edu	37	chr19	852928	852928	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgagcgcggccccacgcGtggcccttcatggtgtccct	3	7	14	17	6	1	0	1	0	0	0	2	1	2	0	4	4	1	0	4	4	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:852928G>A	uc002lqb.2	+	2	158	c.120G>A	c.(118-120)GCG>GCA	p.A40A		NM_001972	NP_001963	P08246	ELNE_HUMAN	neutrophil elastase preproprotein	40	Peptidase S1.				cellular calcium ion homeostasis|negative regulation of chemokine biosynthetic process|negative regulation of chemotaxis|negative regulation of inflammatory response|negative regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of MAP kinase activity|positive regulation of smooth muscle cell proliferation|protein catabolic process|proteolysis|response to UV	cell surface|extracellular region|stored secretory granule	bacterial cell surface binding|cytokine binding|heparin binding			pancreas(1)	1					Alpha-1-proteinase inhibitor(DB00058)|Filgrastim(DB00099)|Pegfilgrastim(DB00019)	GGCCCCACGCGTGGCCCTTCA	0.716									Kostmann_syndrome				14	16					0	0	0.016723	0	0		A	852928	A	A	852928	2	1	21	1	0	0	0	0	0	0	0	1	5056	1132	40	1		1	ELANE	19	852928	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	247739	852928	58276055	488	19056											
LMNB2	84823	broad.mit.edu	37	chr19	2435142	2435142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacctccaccaggcgccgctCgtgccgccgccgcgtctccc	3	5	10	23	7	1	0	0	0	1	0	4	0	2	0	8	1	1	1	8	1	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:2435142C>T	uc002lvy.2	-	5	739	c.652G>A	c.(652-654)GAG>AAG	p.E218K	LMNB2_uc002lwa.1_Missense_Mutation_p.E238K	NM_032737	NP_116126	Q03252	LMNB2_HUMAN	lamin B2	218	Rod.|Linker 2.					nuclear inner membrane	structural molecule activity			large_intestine(1)|ovary(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGCGCCGCTCGTGCCGCCGC	0.687													9	14					0	0	0.020292	0	0		T	2435142	T	T	2435142	3	4	21	1	0	0	0	0	1	0	0	0	8867	893	31	1	1182	1	LMNB2	19	2435142	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1582214	2435142	56693841	489	19057											
DPP9	91039	broad.mit.edu	37	chr19	4704312	4704312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagaccccatggtggggcGtggcctggaaacatacaggg	10	6	16	9	1	0	1	0	0	0	1	0	2	0	2	3	6	2	1	3	6	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:4704312G>A	uc002mba.2	-	6	689	c.431C>T	c.(430-432)ACG>ATG	p.T144M	DPP9_uc002mbb.2_Missense_Mutation_p.T144M|DPP9_uc002mbc.2_Missense_Mutation_p.T144M	NM_139159	NP_631898	Q86TI2	DPP9_HUMAN	dipeptidylpeptidase 9	115					proteolysis	cytosol|membrane	aminopeptidase activity|serine-type peptidase activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00884)		ATGGTGGGGCGTGGCCTGGAA	0.647													37	66					0	0	0.021022	0	0		A	4704312	A	A	4704312	3	1	21	1	0	0	0	0	1	0	0	0	4739	1145	40	1	2315	1	DPP9	19	4704312	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2269170	4704312	54424671	490	19058											
UHRF1	29128	broad.mit.edu	37	chr19	4941597	4941597	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgaagtcttcaagattgaGcggccgggtgaagggagccc	10	6	16	9	3	2	3	1	2	1	1	2	6	2	4	2	3	2	0	2	3	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:4941597G>A	uc002mbo.2	+	6	1011	c.843G>A	c.(841-843)GAG>GAA	p.E281E	UHRF1_uc010xik.1_Intron|UHRF1_uc010duf.2_RNA|UHRF1_uc002mbp.2_Silent_p.E294E	NM_001048201	NP_001041666	Q96T88	UHRF1_HUMAN	ubiquitin-like with PHD and ring finger domains	281					cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)		TCAAGATTGAGCGGCCGGGTG	0.602													6	27					0	0	0.001168	0	0		A	4941597	A	A	4941597	2	1	21	1	0	0	0	0	0	0	0	1	16993	962	34	2		2	UHRF1	19	4941597	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	237285	4941597	54187386	491	19059											
XAB2	56949	broad.mit.edu	37	chr19	7690872	7690872	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcggatgatggcgtccacaTtgagggactgtaccttgtcc	7	10	13	11	3	0	2	0	2	0	0	2	4	2	4	3	3	1	1	3	3	1	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:7690872T>C	uc002mgx.2	-	6	742	c.716A>G	c.(715-717)AAT>AGT	p.N239S		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	239	HAT 7.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						GGCGTCCACATTGAGGGACTG	0.627								Direct_reversal_of_damage|NER					22	48					0	0	0.016522	0	0		C	7690872	C	C	7690872	3	2	21	1	0	0	0	0	1	0	0	0	17444	1493	52	3	1907	3	XAB2	19	7690872	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	2749275	7690872	51438111	492	19060											
PCP2	126006	broad.mit.edu	37	chr19	7697386	7697386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccatgaggctgtccatctCgggggtggggtcgctctctg	3	11	16	11	2	2	1	0	1	2	0	7	1	4	1	2	5	0	2	2	5	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:7697386C>T	uc002mgz.2	-	3	411	c.184G>A	c.(184-186)GAG>AAG	p.E62K	XAB2_uc002mgx.2_5'Flank	NM_174895	NP_777555	Q8IVA1	PCP2_HUMAN	Purkinje cell protein 2	62					signal transduction		GTPase activator activity				0						CTGTCCATCTCGGGGGTGGGG	0.657													38	102					0	0	0.005524	0	0		T	7697386	T	T	7697386	3	4	21	1	0	0	0	0	1	0	0	0	11616	893	31	1	234	1	PCP2	19	7697386	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	6514	7697386	51431597	493	19061											
OR7D4	125958	broad.mit.edu	37	chr19	9325158	9325158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggccacaaaccggtcatagGccatcacggccagtaggaaa	13	5	11	12	2	2	0	2	0	0	0	2	1	2	1	4	5	1	1	4	5	4	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:9325158G>A	uc002mla.1	-	1	356	c.356C>T	c.(355-357)GCC>GTC	p.A119V		NM_001005191	NP_001005191	Q8NG98	OR7D4_HUMAN	olfactory receptor, family 7, subfamily D,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						CCGGTCATAGGCCATCACGGC	0.517													19	42					0	0	0.021523	0	0		A	9325158	A	A	9325158	3	1	21	1	0	0	0	0	1	0	0	0	11239	1203	42	2	586	2	OR7D4	19	9325158	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1627772	9325158	49803825	494	19062											
EPOR	2057	broad.mit.edu	37	chr19	11488894	11488894	+	Frame_Shift_Del	DEL	G	-	-																															ggacgcaagagctgggagctGgggtccaggatagtgtactc																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:11488894delG	uc002mrj.1	-	8	1429	c.1293delC	c.(1291-1293)CCCfs	p.P431fs	EPOR_uc002mrh.2_Frame_Shift_Del_p.P90fs|EPOR_uc002mri.2_Frame_Shift_Del_p.P258fs|EPOR_uc002mrk.1_Frame_Shift_Del_p.P258fs|EPOR_uc002mrl.1_RNA|EPOR_uc010xlx.1_RNA|EPOR_uc010xly.1_Frame_Shift_Del_p.P258fs	NM_000121	NP_000112	P19235	EPOR_HUMAN	erythropoietin receptor precursor	431	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	erythropoietin receptor activity|identical protein binding			ovary(1)	1					Darbepoetin alfa(DB00012)|Epoetin alfa(DB00016)	GCTGGGAGCTGGGGTCCAGGA	0.582											OREG0025254	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	35	---	---	---	---						.	-	11488894	-	-	11488894	7	5	21	1	0	1	0	1	0	0	0	0	5197	1335	47	0	237	0	EPOR	19	11488894	Frame_Shift_Del	DEL	G	TCGA-BR-4363-01A-01D-1158-08	2163736	11488894	47640089	495	19063											
TNPO2	30000	broad.mit.edu	37	chr19	12821569	12821569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattggcgaggacgtccagtGcagccgctgagcacttccct	7	8	12	14	3	0	1	0	1	0	0	2	3	2	2	3	2	3	3	3	2	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:12821569G>A	uc002muo.2	-	12	1321	c.1136C>T	c.(1135-1137)GCA>GTA	p.A379V	TNPO2_uc002mup.2_Missense_Mutation_p.A471V|TNPO2_uc002muq.2_Missense_Mutation_p.A379V|TNPO2_uc002mur.2_Missense_Mutation_p.A379V	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	379					intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						GACGTCCAGTGCAGCCGCTGA	0.647													6	16					0	0	0.00308	0	0		A	12821569	A	A	12821569	3	1	21	1	0	0	0	0	1	0	0	0	16361	1319	46	2	1609	2	TNPO2	19	12821569	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1332675	12821569	46307414	496	19064											
EMR3	84658	broad.mit.edu	37	chr19	14736376	14736376	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactcagattttgattttacGatctctctaaaccacttttg	10	17	5	9	1	3	2	1	1	2	1	4	4	3	2	1	0	2	0	1	0	3	7	rs147270469	by1000genomes	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:14736376G>A	uc002mzi.3	-	15	1996	c.1848C>T	c.(1846-1848)ATC>ATT	p.I616I	EMR3_uc010dzp.2_Silent_p.I564I|EMR3_uc010xnv.1_Silent_p.I490I	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	616	Cytoplasmic (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						TTGATTTTACGATCTCTCTAA	0.403													63	162					0	0	0.01441	0	0		A	14736376	A	A	14736376	2	1	21	1	0	0	0	0	0	0	0	1	5114	1048	37	1		1	EMR3	19	14736376	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1914807	14736376	44392607	497	19065											
CYP4F2	8529	broad.mit.edu	37	chr19	15989624	15989624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaagtccgccctctgcgCgcaggaccagctccggcttc	6	6	11	18	4	1	0	0	0	1	0	4	1	3	1	5	2	2	3	5	2	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:15989624C>T	uc002nbs.1	-	13	1570	c.1520G>A	c.(1519-1521)CGC>CAC	p.R507H	CYP4F2_uc010xot.1_Missense_Mutation_p.R358H	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	507					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						GCCCTCTGCGCGCAGGACCAG	0.612													9	28					0	0	0.016723	0	0		T	15989624	T	T	15989624	3	4	21	1	0	0	0	0	1	0	0	0	4191	768	27	1	46	1	CYP4F2	19	15989624	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1253248	15989624	43139359	498	19066											
CPAMD8	27151	broad.mit.edu	37	chr19	17015120	17015121	+	Missense_Mutation	DNP	CA	GC	GC																															gcggcagccacgtcacccagCagagtgtaggtcagaagggc																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:17015120_17015121CA>GC	uc002nfb.2	-	32	4339_4340	c.4307_4308TG>GC	c.(4306-4308)CTG>CGC	p.L1436R	CPAMD8_uc002nfd.1_5'Flank	NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1389						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						CGTCACCCAGCAGAGTGTAGGT	0.629													14	59					0	0	0.004672	0	0		GC	17015121	GC	GC	17015120	3	3	21	1	0	0	0	0	1	0	0	0	3798	697	25	5	1534	5	CPAMD8	19	17015120	Missense_Mutation	DNP	CA	TCGA-BR-4363-01A-01D-1158-08	1025496	17015120	42113863	499	19067											
NCAN	1463	broad.mit.edu	37	chr19	19338902	19338902	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctacagatgaaggacccActgtgaatcccatggattcc	11	10	9	11	0	0	3	0	2	0	1	2	5	2	5	3	2	2	1	3	2	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:19338902A>G	uc002nlz.2	+	8	2572	c.2473A>G	c.(2473-2475)ACT>GCT	p.T825A	NCAN_uc010ecc.1_Missense_Mutation_p.T389A	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	825					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			TGAAGGACCCACTGTGAATCC	0.557													30	59					0	0	0.017118	0	0		G	19338902	G	G	19338902	3	3	21	1	0	0	0	0	1	0	0	0	10223	159	6	3	2499	3	NCAN	19	19338902	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	2323782	19338902	39790081	500	19068											
WTIP	126374	broad.mit.edu	37	chr19	34991049	34991049	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctaggactgcgggctgcagCtgagcggggaggagggacgc	7	4	20	10	3	0	1	0	1	0	0	0	5	0	5	1	6	4	3	1	6	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:34991049C>T	uc002nvm.2	+	8	1168	c.1168C>T	c.(1168-1170)CTG>TTG	p.L390L		NM_001080436	NP_001073905			Wilms tumor 1 interacting protein												0	all_lung(56;5.94e-07)|Lung NSC(56;9.35e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			CGGGCTGCAGCTGAGCGGGGA	0.682													17	23					0	0	0.007413	0	0		T	34991049	T	T	34991049	2	4	21	1	0	0	0	0	0	0	0	1	17436	796	28	2		2	WTIP	19	34991049	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	15652147	34991049	24137934	501	19069											
MAG	4099	broad.mit.edu	37	chr19	35793406	35793406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggccgtagagggggagacGgtctctatcttgtgctccac	6	10	15	10	2	2	2	0	0	2	2	4	3	3	2	2	4	1	2	2	4	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:35793406G>A	uc002nyy.1	+	7	1175	c.1026G>A	c.(1024-1026)ACG>ACA	p.T342T	MAG_uc002nyx.1_Silent_p.T342T|MAG_uc010eds.1_Silent_p.T317T|MAG_uc002nyz.1_Silent_p.T342T	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	342	Ig-like C2-type 3.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			AGGGGGAGACGGTCTCTATCT	0.577													27	39					0	0	0.005443	0	0		A	35793406	A	A	35793406	2	1	21	1	0	0	0	0	0	0	0	1	9180	1103	39	1		1	MAG	19	35793406	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	802357	35793406	23335577	502	19070											
TMEM147	10430	broad.mit.edu	37	chr19	36038232	36038232	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acattttcctgcaggaccttCgtccacctctgctcgctggg	5	12	9	15	2	1	0	0	0	1	0	5	1	3	1	4	2	2	3	4	2	0	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:36038232C>T	uc002oaj.1	+	7	655	c.558C>T	c.(556-558)TTC>TTT	p.F186F	uc010eec.1_5'Flank|uc002oag.2_5'Flank|TMEM147_uc002oai.1_Silent_p.F137F|TMEM147_uc002oak.1_Silent_p.F141F	NM_032635	NP_116024	Q9BVK8	TM147_HUMAN	transmembrane protein 147	186	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	protein binding				0	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GCAGGACCTTCGTCCACCTCT	0.572													42	91					0	0	0.00874	0	0		T	36038232	T	T	36038232	2	4	21	1	0	0	0	0	0	0	0	1	16086	883	31	1		1	TMEM147	19	36038232	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	244826	36038232	23090751	503	19071											
WDR62	284403	broad.mit.edu	37	chr19	36558338	36558338	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttggaagtctccactgAgacaaaggtgagtttctgtc	9	13	11	8	0	3	2	0	2	3	1	5	4	3	3	1	2	0	2	1	2	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:36558338A>G	uc002odc.2	+	6	783	c.692A>G	c.(691-693)GAG>GGG	p.E231G	WDR62_uc002odd.2_Missense_Mutation_p.E231G|WDR62_uc002odb.2_Missense_Mutation_p.E231G	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	231	WD 3.				cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GTCTCCACTGAGACAAAGGTG	0.532													34	81					0	0	0.00623	0	0		G	36558338	G	G	36558338	3	3	21	1	0	0	0	0	1	0	0	0	17339	304	11	3	714	3	WDR62	19	36558338	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	520106	36558338	22570645	504	19072											
WDR62	284403	broad.mit.edu	37	chr19	36595830	36595830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggacccccgtccccacCgacgctgtaccccctggcca	6	4	8	23	3	0	0	0	0	0	0	1	2	1	1	9	2	1	2	9	2	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:36595830C>T	uc002odc.2	+	32	4548	c.4457C>T	c.(4456-4458)CCG>CTG	p.P1486L	WDR62_uc002odd.2_Missense_Mutation_p.P1491L	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	1486					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CCGTCCCCACCGACGCTGTAC	0.687													7	15					0	0	0.00308	0	0		T	36595830	T	T	36595830	3	4	21	1	0	0	0	0	1	0	0	0	17339	652	23	1	4598	1	WDR62	19	36595830	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	37492	36595830	22533153	505	19073											
ZNF571	51276	broad.mit.edu	37	chr19	38055639	38055639	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agccacgactaaaggccctcCcacattccttacattcatag	12	9	5	15	1	1	0	1	0	0	0	3	1	3	0	4	1	2	0	4	1	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:38055639C>A	uc002ogt.2	-	4	1792	c.1691G>T	c.(1690-1692)GGG>GTG	p.G564V	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Missense_Mutation_p.G564V	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	564	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AAAGGCCCTCCCACATTCCTT	0.438													27	80					3.6726e-16	4.18701e-16	0.021523	1	0		A	38055639	A	A	38055639	3	1	21	1	0	0	0	0	1	0	0	0	18028	623	22	5	142	5	ZNF571	19	38055639	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1459809	38055639	21073344	506	19074											
RYR1	6261	broad.mit.edu	37	chr19	38990408	38990408	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggccatccgcatctcCgaggaccctgcgagggatgg	9	5	15	12	3	1	1	0	0	1	1	3	6	2	3	4	4	1	1	4	4	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:38990408C>T	uc002oit.2	+	44	7291	c.7161C>T	c.(7159-7161)TCC>TCT	p.S2387S	RYR1_uc002oiu.2_Silent_p.S2387S|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2387	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TCCGCATCTCCGAGGACCCTG	0.706													4	9					0	0	0.009096	0	0		T	38990408	T	T	38990408	2	4	21	1	0	0	0	0	0	0	0	1	13793	639	23	1		1	RYR1	19	38990408	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	934769	38990408	20138575	507	19075											
SARS2	54938	broad.mit.edu	37	chr19	39410406	39410406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatcttggcccatacccggCggagaagcttgttgaatgtg	8	11	12	10	2	1	2	0	1	1	1	1	3	1	2	2	3	2	2	2	3	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:39410406C>T	uc002oka.2	-	7	915	c.755G>A	c.(754-756)CGC>CAC	p.R252H	SARS2_uc002ojz.2_Missense_Mutation_p.R62H|SARS2_uc010xup.1_Missense_Mutation_p.R254H|SARS2_uc002okb.2_Missense_Mutation_p.R252H|SARS2_uc010xuq.1_Missense_Mutation_p.R252H|SARS2_uc010xur.1_RNA	NM_017827	NP_060297	Q9NP81	SYSM_HUMAN	seryl-tRNA synthetase 2 isoform b precursor	252					seryl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|serine-tRNA ligase activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(60;2.74e-06)|all_epithelial(25;4.36e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			CCATACCCGGCGGAGAAGCTT	0.602													23	38					0	0	0.01892	0	0		T	39410406	T	T	39410406	3	4	21	1	0	0	0	0	1	0	0	0	13870	768	27	1	841	1	SARS2	19	39410406	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	419998	39410406	19718577	508	19076											
NCCRP1	342897	broad.mit.edu	37	chr19	39691287	39691287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attccgccattatggtcccgGtgtgcgctttatccacttcc	5	14	8	14	3	0	0	0	0	0	0	4	0	4	0	5	2	1	1	5	2	2	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:39691287G>A	uc002okq.1	+	6	738	c.719G>A	c.(718-720)GGT>GAT	p.G240D		NM_001001414	NP_001001414	Q6ZVX7	NCRP1_HUMAN	non-specific cytotoxic cell receptor protein 1	240	FBA.				protein catabolic process					ovary(1)	1						TATGGTCCCGGTGTGCGCTTT	0.622													139	259					0	0	0.01441	0	0		A	39691287	A	A	39691287	3	1	21	1	0	0	0	0	1	0	0	0	10232	1261	44	4	741	4	NCCRP1	19	39691287	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	280881	39691287	19437696	509	19077											
IL28B	282617	broad.mit.edu	37	chr19	39734754	39734754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctccagaaccttcagcGtcagggccagctcagcctcc	7	7	10	17	1	3	1	3	0	0	1	5	1	5	1	6	2	4	1	6	2	1	1	rs145428712	byFrequency	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:39734754G>A	uc010xut.1	-	3	306	c.302C>T	c.(301-303)ACG>ATG	p.T101M	IL28B_uc010xuu.1_Missense_Mutation_p.T101M	NM_172139	NP_742151	Q8IZI9	IL28B_HUMAN	interleukin 28B	101					response to virus	extracellular space	cytokine activity				0	all_cancers(60;2.81e-07)|all_lung(34;7.81e-08)|Lung NSC(34;9.29e-08)|all_epithelial(25;3.9e-07)|Ovarian(47;0.0315)		Epithelial(26;1.55e-27)|all cancers(26;1.41e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			AACCTTCAGCGTCAGGGCCAG	0.483													18	38					0	0	0.012319	0	0		A	39734754	A	A	39734754	3	1	21	1	0	0	0	0	1	0	0	0	7699	1145	40	1	299	1	IL28B	19	39734754	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	43467	39734754	19394229	510	19078											
C19orf47	126526	broad.mit.edu	37	chr19	40842077	40842077	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcacccaccacggtcacGcccagctcattcattatctc	9	10	5	17	2	5	0	4	0	1	0	6	0	5	0	3	1	1	1	3	1	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:40842077G>A	uc002oni.3	-	4	274	c.273C>T	c.(271-273)GGC>GGT	p.G91G	C19orf47_uc002ong.2_5'UTR|C19orf47_uc002onh.2_Silent_p.G24G	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526	91										ovary(1)|skin(1)	2			Lung(22;0.000636)			CCACGGTCACGCCCAGCTCAT	0.577													29	49					0	0	0.010818	0	0		A	40842077	A	A	40842077	2	1	21	1	0	0	0	0	0	0	0	1	1933	1074	38	1		1	C19orf47	19	40842077	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1107323	40842077	18286906	511	19079											
SPTBN4	57731	broad.mit.edu	37	chr19	40996063	40996063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttctgaaggagcagcgcGtgcacctggagaacgtgggt	9	8	16	8	3	1	2	0	1	1	1	1	4	1	3	1	3	4	3	1	3	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:40996063G>A	uc002ony.2	+	4	489	c.403G>A	c.(403-405)GTG>ATG	p.V135M	SPTBN4_uc002onx.2_Missense_Mutation_p.V135M|SPTBN4_uc002onz.2_Missense_Mutation_p.V135M	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	135	CH 1.|Actin-binding.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GGAGCAGCGCGTGCACCTGGA	0.647													33	61					0	0	0.012213	0	0		A	40996063	A	A	40996063	3	1	21	1	0	0	0	0	1	0	0	0	15146	1145	40	1	413	1	SPTBN4	19	40996063	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	153986	40996063	18132920	512	19080											
CIC	23152	broad.mit.edu	37	chr19	42795129	42795129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacaagaagtcggcagcaGccacctcaccagccccacac	12	2	9	18	2	1	1	1	0	0	1	2	2	1	2	5	2	3	2	5	2	2	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:42795129G>A	uc002otf.1	+	10	2249	c.2209G>A	c.(2209-2211)GCC>ACC	p.A737T		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	737	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding	p.A737A(1)		ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				GTCGGCAGCAGCCACCTCACC	0.647			T	DUX4	soft tissue sarcoma								27	33					0	0	0.008361	0	0		A	42795129	A	A	42795129	3	1	21	1	0	0	0	0	1	0	0	0	3427	971	34	2	2247	2	CIC	19	42795129	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1799066	42795129	16333854	513	19081											
PHLDB3	653583	broad.mit.edu	37	chr19	44005952	44005954	+	In_Frame_Del	DEL	CTC	-	-																															tccagcagctcccgcagctgCtcctcctcccggcgagcggc																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:44005952_44005954delCTC	uc002own.3	-	4	725_727	c.466_468delGAG	c.(466-468)GAGdel	p.E156del	PHLDB3_uc002owo.2_In_Frame_Del_p.E156del	NM_198850	NP_942147	Q6NSJ2	PHLB3_HUMAN	pleckstrin homology-like domain, family B,	156	Potential.										0		Prostate(69;0.0153)				CCCGCAGCTGCTCCTCCTCCCGG	0.704													4	3	---	---	---	---						.	-	44005954	-	-	44005952	7	5	21	1	0	1	0	1	0	0	0	0	11872	796	28	0	1506	0	PHLDB3	19	44005952	In_Frame_Del	DEL	CTC	TCGA-BR-4363-01A-01D-1158-08	1210823	44005952	15123031	514	19082											
ZNF285	26974	broad.mit.edu	37	chr19	44892073	44892073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatctgaagagaaatgcctgCccactcttcactgagggaaa	14	8	9	10	0	3	3	1	2	2	1	3	5	3	4	2	1	2	0	2	1	4	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:44892073C>T	uc002ozd.3	-	4	421	c.334G>A	c.(334-336)GCA>ACA	p.A112T	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Missense_Mutation_p.A119T	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	112					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						GAAATGCCTGCCCACTCTTCA	0.398													63	141					0	0	0.01441	0	0		T	44892073	T	T	44892073	3	4	21	1	0	0	0	0	1	0	0	0	17847	739	26	2	1442	2	ZNF285	19	44892073	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	886121	44892073	14236910	515	19083											
IGFL3	388555	broad.mit.edu	37	chr19	46627291	46627291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcaggtggagccacagcGgcgggtctcctttaaggata	8	8	16	9	2	1	0	0	0	1	0	2	2	1	2	2	6	3	1	2	6	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:46627291G>A	uc002pea.1	-	3	227	c.202C>T	c.(202-204)CGC>TGC	p.R68C		NM_207393	NP_997276	Q6UXB1	IGFL3_HUMAN	IGF-like family member 3 precursor	68						extracellular region	protein binding				0		Ovarian(192;0.0175)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00473)|GBM - Glioblastoma multiforme(486;0.0149)|Epithelial(262;0.239)		GAGCCACAGCGGCGGGTCTCC	0.557													9	174					0	0	0.020292	0	0		A	46627291	A	A	46627291	3	1	21	1	0	0	0	0	1	0	0	0	7604	1116	39	1	183	1	IGFL3	19	46627291	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1735218	46627291	12501692	516	19084											
ZC3H4	23211	broad.mit.edu	37	chr19	47570582	47570582	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtagggggatcaggtcctcGggattccagagcacggtgcg	7	7	18	9	3	1	1	1	0	0	1	4	3	3	3	2	6	2	2	2	6	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:47570582G>A	uc002pga.3	-	15	2981	c.2943C>T	c.(2941-2943)CCC>CCT	p.P981P	ZC3H4_uc002pgb.1_Intron	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	981							nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		TCAGGTCCTCGGGATTCCAGA	0.682													54	124					0	0	0.01441	0	0		A	47570582	A	A	47570582	2	1	21	1	0	0	0	0	0	0	0	1	17595	1103	39	1		1	ZC3H4	19	47570582	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	943291	47570582	11558401	517	19085											
TRPM4	54795	broad.mit.edu	37	chr19	49685882	49685882	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacgccctgctgaatgaccgGcctgagttcgtgcgcttgct	5	10	13	13	4	0	3	0	3	0	0	1	4	0	3	3	1	3	4	3	1	1	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:49685882G>T	uc002pmw.2	+	11	1383	c.1311G>T	c.(1309-1311)CGG>CGT	p.R437R	TRPM4_uc010emu.2_Silent_p.R437R|TRPM4_uc010yak.1_5'UTR|TRPM4_uc002pmx.2_Silent_p.R263R|TRPM4_uc010emv.2_Silent_p.R322R|TRPM4_uc010yal.1_Silent_p.R83R|TRPM4_uc002pmy.2_5'UTR	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	437	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		TGAATGACCGGCCTGAGTTCG	0.597													21	57					2.89027e-11	3.25271e-11	0.014323	1	0		T	49685882	T	T	49685882	2	4	21	1	0	0	0	0	0	0	0	1	16614	1190	42	5		5	TRPM4	19	49685882	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2115300	49685882	9443101	518	19086											
SLC6A16	28968	broad.mit.edu	37	chr19	49794007	49794007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtggcccaacaggatcGtcaggtctgcaaggaacctg	9	7	15	10	1	2	0	1	0	1	0	3	2	2	2	2	6	3	1	2	6	3	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:49794007G>A	uc002pmz.2	-	11	2030	c.1796C>T	c.(1795-1797)ACG>ATG	p.T599M	SLC6A16_uc002pna.2_Missense_Mutation_p.T599M	NM_014037	NP_054756	Q9GZN6	S6A16_HUMAN	solute carrier family 6, member 16	599						integral to membrane|intracellular	neurotransmitter:sodium symporter activity			skin(2)|ovary(1)|kidney(1)	4		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00099)|GBM - Glioblastoma multiforme(486;0.0336)		CAACAGGATCGTCAGGTCTGC	0.562													12	19					0	0	0.010729	0	0		A	49794007	A	A	49794007	3	1	21	1	0	0	0	0	1	0	0	0	14704	1145	40	1	422	1	SLC6A16	19	49794007	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	108125	49794007	9334976	519	19087											
IL4I1	259307	broad.mit.edu	37	chr19	50393802	50393802	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacagcacaagcccggacaGcgagctcagcagcgcgcgcg	11	1	13	16	6	1	0	1	0	0	0	1	2	1	1	1	1	7	3	1	1	2	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:50393802G>A	uc002pqt.1	-	8	907	c.829C>T	c.(829-831)CTG>TTG	p.L277L	IL4I1_uc002pqv.1_Silent_p.L286L|IL4I1_uc010eno.1_Silent_p.L285L|IL4I1_uc002pqw.1_Silent_p.L285L|IL4I1_uc002pqu.1_Silent_p.L299L	NM_152899	NP_690863	Q96RQ9	OXLA_HUMAN	interleukin 4 induced 1 isoform 1 precursor	277						lysosome	L-amino-acid oxidase activity			lung(1)|ovary(1)|prostate(1)	3		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00245)|OV - Ovarian serous cystadenocarcinoma(262;0.0169)		AGCCCGGACAGCGAGCTCAGC	0.716													4	14					0	0	0.014758	0	0		A	50393802	A	A	50393802	2	1	21	1	0	0	0	0	0	0	0	1	7713	962	34	2		2	IL4I1	19	50393802	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	599795	50393802	8735181	520	19088											
LRRC4B	94030	broad.mit.edu	37	chr19	51021562	51021562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaccactgcccccagggcCgcccccgccgctgccggtgc	4	3	11	23	4	0	0	0	0	0	0	0	0	0	0	9	2	3	1	9	2	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:51021562C>T	uc002pss.2	-	3	1545	c.1408G>A	c.(1408-1410)GGC>AGC	p.G470S		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	470	Gly-rich.|Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		cccccagggccgcccccgccg	0.418													6	11					0	0	0.010729	0	0		T	51021562	T	T	51021562	3	4	21	1	0	0	0	0	1	0	0	0	9025	652	23	1	737	1	LRRC4B	19	51021562	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	627760	51021562	8107421	521	19089											
SHANK1	50944	broad.mit.edu	37	chr19	51219975	51219975	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccatcatgctgaagtgggCgtcgtctgggacggacattg	8	9	15	9	3	2	1	1	1	1	0	3	4	2	3	1	3	1	1	1	3	1	1	rs150390491		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:51219975C>T	uc002psx.1	-	1	221	c.202G>A	c.(202-204)GCC>ACC	p.A68T		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	68					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		CTGAAGTGGGCGTCGTCTGGG	0.672													32	68					0	0	0.009535	0	0		T	51219975	T	T	51219975	3	4	21	1	0	0	0	0	1	0	0	0	14289	768	27	1	6375	1	SHANK1	19	51219975	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	198413	51219975	7909008	522	19090											
KLK14	43847	broad.mit.edu	37	chr19	51582715	51582715	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcctcaccgatggggcTggatatagttccccagcctg	7	9	13	12	1	1	0	1	0	0	0	3	3	3	2	5	4	1	2	5	4	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:51582715T>G	uc002pvs.1	-	5	724	c.505A>C	c.(505-507)AGC>CGC	p.S169R		NM_022046	NP_071329	Q9P0G3	KLK14_HUMAN	kallikrein 14 preproprotein	169	Peptidase S1.				epidermis morphogenesis|fertilization|negative regulation of G-protein coupled receptor protein signaling pathway|positive regulation of G-protein coupled receptor protein signaling pathway|proteolysis|seminal clot liquefaction	extracellular space	serine-type endopeptidase activity			skin(1)	1		all_neural(266;0.0199)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00422)		CCGATGGGGCTGGATATAGTT	0.398													4	14					0	0	0.001168	0	0		G	51582715	G	G	51582715	3	3	21	1	0	0	0	0	1	0	0	0	8418	1580	55	5	310	5	KLK14	19	51582715	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	362740	51582715	7546268	523	19091											
LILRB5	10990	broad.mit.edu	37	chr19	54760565	54760565	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggggcccctgacaccAgagggtcacgggcttccccc	6	5	12	18	1	1	2	1	1	0	1	3	2	3	2	6	4	0	1	6	4	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:54760565A>C	uc002qex.2	-	3	253	c.142T>G	c.(142-144)TGG>GGG	p.W48G	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.W48G|LILRB5_uc002qey.2_Missense_Mutation_p.W48G|LILRB5_uc002qez.2_Missense_Mutation_p.W48G|LILRB5_uc002qfa.1_Missense_Mutation_p.W38G|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	48	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CCCTGACACCAGAGGGTCACG	0.627													56	141					0	0	0.01441	0	0		C	54760565	C	C	54760565	3	2	21	1	0	0	0	0	1	0	0	0	8810	188	7	5	1677	5	LILRB5	19	54760565	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	3177850	54760565	4368418	524	19092											
ZNF582	147948	broad.mit.edu	37	chr19	56896019	56896019	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctcacaatctttacatTcatacggtttctcaccagta	10	15	3	13	1	4	0	3	0	3	0	6	0	4	0	2	1	2	2	2	1	4	7			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:56896019T>G	uc002qmz.1	-	5	926	c.767A>C	c.(766-768)GAA>GCA	p.E256A	ZNF582_uc002qmy.2_Missense_Mutation_p.E287A	NM_144690	NP_653291	Q96NG8	ZN582_HUMAN	zinc finger protein 582	256	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|large_intestine(1)	4		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0547)		ATCTTTACATTCATACGGTTT	0.408													27	40					0	0	0.005443	0	0		G	56896019	G	G	56896019	3	3	21	1	0	0	0	0	1	0	0	0	18039	1783	62	5	790	5	ZNF582	19	56896019	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	2135454	56896019	2232964	525	19093											
ZBTB45	84878	broad.mit.edu	37	chr19	59028872	59028872	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagcttgtcttggaagaAgggtgagccggccgccagca	9	6	15	11	2	1	2	0	1	1	1	1	3	1	3	3	3	4	3	3	3	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr19:59028872A>T	uc002qtd.2	-	2	461	c.169T>A	c.(169-171)TTC>ATC	p.F57I	ZBTB45_uc002qte.2_Missense_Mutation_p.F57I|ZBTB45_uc002qtf.2_Missense_Mutation_p.F57I	NM_032792	NP_116181	Q96K62	ZBT45_HUMAN	zinc finger and BTB domain containing 45	57	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0165)|Lung(386;0.18)		TCTTGGAAGAAGGGTGAGCCG	0.637											OREG0025700	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	24					0	0	0.006122	0	0		T	59028872	T	T	59028872	3	4	21	1	0	0	0	0	1	0	0	0	17571	72	3	5	1374	5	ZBTB45	19	59028872	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	2132853	59028872	100111	526	19094											
CDS2	8760	broad.mit.edu	37	chr20	5165505	5165505	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactttggttcatttctaggTtcattgtccccatatcttgt	6	20	6	9	0	4	0	2	0	2	0	5	0	5	0	2	2	1	2	2	2	3	9			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:5165505T>C	uc002wls.2	+	8	930	c.673T>C	c.(673-675)TTC>CTC	p.F225L	CDS2_uc002wlr.1_Missense_Mutation_p.F147L|CDS2_uc010zqt.1_RNA|CDS2_uc002wlu.2_Missense_Mutation_p.F170L|CDS2_uc010zqu.1_Missense_Mutation_p.F105L|CDS2_uc002wlv.2_Missense_Mutation_p.F127L|CDS2_uc010zqv.1_Missense_Mutation_p.F46L	NM_003818	NP_003809	O95674	CDS2_HUMAN	phosphatidate cytidylyltransferase 2	225	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphatidate cytidylyltransferase activity				0						CATTTCTAGGTTCATTGTCCC	0.403													6	307					0	0	0.001168	0	0		C	5165505	C	C	5165505	3	2	21	1	0	0	0	0	1	0	0	0	3181	1739	60	3	703	3	CDS2	20	5165505	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08		5165505	57860015	527	19095											
ANKRD5	63926	broad.mit.edu	37	chr20	10033880	10033880	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaactaaaaggcaagacacCtcctatactgaagactgaag	19	6	7	9	0	0	4	0	2	0	2	1	4	1	4	2	1	2	1	2	1	9	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:10033880C>A	uc002wno.2	+	9	2384	c.1991C>A	c.(1990-1992)CCT>CAT	p.P664H	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Missense_Mutation_p.P664H|ANKRD5_uc010gbz.2_Missense_Mutation_p.P475H	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	664							calcium ion binding			ovary(1)|breast(1)	2						GGCAAGACACCTCCTATACTG	0.353													38	75					2.19358e-23	2.53384e-23	0.005524	1	0		A	10033880	A	A	10033880	3	1	21	1	0	0	0	0	1	0	0	0	676	681	24	5	2017	5	ANKRD5	20	10033880	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	4868375	10033880	52991640	528	19096											
ANKRD5	63926	broad.mit.edu	37	chr20	10036224	10036224	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagagaggtttacacatgaGgtggacttcgacgattttat	11	12	12	6	3	0	2	0	1	0	1	1	7	0	3	0	3	1	1	0	3	2	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:10036224G>T	uc002wno.2	+	11	2640	c.2247G>T	c.(2245-2247)GAG>GAT	p.E749D	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Missense_Mutation_p.E749D|ANKRD5_uc010gbz.2_Missense_Mutation_p.E560D	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	749							calcium ion binding			ovary(1)|breast(1)	2						TTACACATGAGGTGGACTTCG	0.448													33	49					2.81731e-10	3.14032e-10	0.010818	1	0		T	10036224	T	T	10036224	3	4	21	1	0	0	0	0	1	0	0	0	676	991	35	5	2281	5	ANKRD5	20	10036224	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2344	10036224	52989296	529	19097											
MKKS	8195	broad.mit.edu	37	chr20	10394237	10394237	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctatttattgcattatcacGttttaacattaaaaattatt	14	20	2	5	1	2	0	1	0	1	0	2	0	2	0	0	0	2	2	0	0	8	10			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:10394237G>A	uc002wnt.1	-	3	813	c.-74C>T	c.(-76--72)AACGT>AATGT		MKKS_uc002wnu.1_Translation_Start_Site|MKKS_uc010zrd.1_Intron	NM_018848	NP_061336	Q9NPJ1	MKKS_HUMAN	McKusick-Kaufman syndrome protein						brain morphogenesis|cerebral cortex development|convergent extension involved in gastrulation|detection of mechanical stimulus involved in sensory perception of sound|fat cell differentiation|flagellum assembly|gonad development|heart looping|hippocampus development|intracellular transport|melanosome transport|photoreceptor cell maintenance|pigment granule aggregation in cell center|protein folding|regulation of cilium beat frequency involved in ciliary motility|sensory perception of smell|social behavior|spermatid development|striatum development	cytosol|microtubule organizing center|motile cilium	ATP binding|unfolded protein binding				0						GCATTATCACGTTTTAACATT	0.299									Bardet-Biedl_syndrome				23	50					0	0	0.016522	0	0		A	10394237	A	A	10394237	1	1	21	1	0	0	0	0	0	0	0	0	9618	1160	40	1		1	MKKS	20	10394237	Translation_Start_Site	SNP	G	TCGA-BR-4363-01A-01D-1158-08	358013	10394237	52631283	530	19098											
C20orf134	170487	broad.mit.edu	37	chr20	32255583	32255583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtccctggacttcgagggcGacctccgcgaccccgcccgc	4	6	12	19	6	0	0	0	0	0	0	3	4	2	1	6	2	0	0	6	2	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:32255583G>A	uc002wzt.2	+	1	1280	c.280G>A	c.(280-282)GAC>AAC	p.D94N	NECAB3_uc002wzm.3_Intron|NECAB3_uc002wzn.3_Intron|NECAB3_uc002wzo.3_Intron|NECAB3_uc002wzp.3_Intron|NECAB3_uc002wzq.3_Intron|NECAB3_uc002wzr.3_Intron|NECAB3_uc010geo.2_Intron	NM_001024675	NP_001019846	Q5JWF8	CT134_HUMAN	hypothetical protein LOC170487	94										pancreas(1)	1						CTTCGAGGGCGACCTCCGCGA	0.672													11	22					0	0	0.010729	0	0		A	32255583	A	A	32255583	3	1	21	1	0	0	0	0	1	0	0	0	2090	1058	37	1	282	1	C20orf134	20	32255583	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	21861346	32255583	30769937	531	19099											
DLGAP4	22839	broad.mit.edu	37	chr20	35060141	35060141	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgaaaggcctcggtgacagCcgcccccgccacctctccga	8	5	10	18	4	1	2	0	2	1	0	3	3	1	2	7	2	1	0	7	2	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:35060141C>T	uc002xff.2	+	3	456	c.21C>T	c.(19-21)AGC>AGT	p.S7S	DLGAP4_uc010zvp.1_Silent_p.S7S	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	7					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				TCGGTGACAGCCGCCCCCGCC	0.706													10	23					0	0	0.008291	0	0		T	35060141	T	T	35060141	2	4	21	1	0	0	0	0	0	0	0	1	4568	738	26	2		2	DLGAP4	20	35060141	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2804558	35060141	27965379	532	19100											
ZNF334	55713	broad.mit.edu	37	chr20	45130805	45130805	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attctctgatgcgcagtaagGgctgactgacagaagaaggt	12	9	13	7	1	1	5	0	3	1	2	2	5	1	5	0	2	1	3	0	2	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:45130805G>A	uc002xsc.2	-	5	1357	c.1173C>T	c.(1171-1173)GCC>GCT	p.A391A	ZNF334_uc002xsa.2_Silent_p.A414A|ZNF334_uc002xsb.2_Silent_p.A353A|ZNF334_uc002xsd.2_Silent_p.A353A|ZNF334_uc010ghl.2_Silent_p.A390A	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	391	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				GCGCAGTAAGGGCTGACTGAC	0.418													7	227					0	0	0.001984	0	0		A	45130805	A	A	45130805	2	1	21	1	0	0	0	0	0	0	0	1	17876	1219	43	4		4	ZNF334	20	45130805	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	10070664	45130805	17894715	533	19101											
ZNFX1	57169	broad.mit.edu	37	chr20	47865975	47865975	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccgcactagcgagaggaGgatgatgtcattctcttccc	8	10	11	12	2	2	2	1	1	1	1	5	5	4	4	2	2	1	2	2	2	1	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:47865975G>T	uc002xui.2	-	14	3833	c.3586C>A	c.(3586-3588)CTC>ATC	p.L1196I		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	1196							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			AGCGAGAGGAGGATGATGTCA	0.532													81	152					5.66823e-36	6.64616e-36	0.01441	1	0		T	47865975	T	T	47865975	3	4	21	1	0	0	0	0	1	0	0	0	18230	1000	35	5	2174	5	ZNFX1	20	47865975	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2735170	47865975	15159545	534	19102											
PTGIS	5740	broad.mit.edu	37	chr20	48129730	48129730	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctgccatgggcatggccaGgtccaccacaacctcgcggg	7	6	13	15	2	1	0	0	0	1	0	3	0	2	0	5	4	2	1	5	4	1	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:48129730G>T	uc002xut.2	-	8	1147	c.1093C>A	c.(1093-1095)CTG>ATG	p.L365M	PTGIS_uc010zyi.1_Missense_Mutation_p.L226M	NM_000961	NP_000952	Q16647	PTGIS_HUMAN	prostaglandin I2 synthase	365					hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|prostaglandin-I synthase activity			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(12;2.37e-05)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)		Phenylbutazone(DB00812)	GGCATGGCCAGGTCCACCACA	0.612													26	69					3.99451e-17	4.56143e-17	0.009535	1	0		T	48129730	T	T	48129730	3	4	21	1	0	0	0	0	1	0	0	0	12775	991	35	5	421	5	PTGIS	20	48129730	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	263755	48129730	14895790	535	19103											
NFATC2	4773	broad.mit.edu	37	chr20	50139969	50139969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcgaggggctccgggagcGctggggtgaggctccgggcg	3	4	23	11	6	0	1	0	1	0	0	2	3	2	2	2	8	1	3	2	8	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:50139969G>A	uc002xwd.2	-	2	1031	c.811C>T	c.(811-813)CGC>TGC	p.R271C	NFATC2_uc002xwc.2_Missense_Mutation_p.R271C|NFATC2_uc010zyv.1_Missense_Mutation_p.R52C|NFATC2_uc010zyw.1_Missense_Mutation_p.R52C|NFATC2_uc010zyx.1_Missense_Mutation_p.R251C|NFATC2_uc010zyy.1_Missense_Mutation_p.R52C|NFATC2_uc010zyz.1_Missense_Mutation_p.R52C|NFATC2_uc002xwe.2_Missense_Mutation_p.R251C	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	271	3 X approximate SP repeats.				B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					CTCCGGGAGCGCTGGGGTGAG	0.731													13	17					0	0	0.013537	0	0		A	50139969	A	A	50139969	3	1	21	1	0	0	0	0	1	0	0	0	10381	1087	38	1	2050	1	NFATC2	20	50139969	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2010239	50139969	12885551	536	19104											
C20orf177	63939	broad.mit.edu	37	chr20	58519082	58519082	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaaatcccaagtaccccaCgcttcttcccagccgagaag	12	7	7	15	2	1	1	0	0	1	1	3	2	3	1	5	0	2	3	5	0	5	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:58519082C>T	uc002yba.2	+	5	499	c.84C>T	c.(82-84)CAC>CAT	p.H28H	C20orf177_uc010zzx.1_Intron|C20orf177_uc002ybc.2_Silent_p.H28H	NM_022106	NP_071389	Q9NTX9	CT177_HUMAN	hypothetical protein LOC63939	28										ovary(2)|breast(1)	3	all_lung(29;0.00693)		BRCA - Breast invasive adenocarcinoma(7;1.22e-08)			AAGTACCCCACGCTTCTTCCC	0.448													34	63					0	0	0.017118	0	0		T	58519082	T	T	58519082	2	4	21	1	0	0	0	0	0	0	0	1	2099	535	19	1		1	C20orf177	20	58519082	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	8379113	58519082	4506438	537	19105											
DIDO1	11083	broad.mit.edu	37	chr20	61541269	61541269	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatggtgcagtttgggcagaTatagtcttccccattccttt	8	15	9	9	0	1	1	0	0	1	1	3	1	3	1	3	2	1	3	3	2	3	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:61541269T>C	uc002ydr.1	-	4	1207	c.943A>G	c.(943-945)ATC>GTC	p.I315V	DIDO1_uc002yds.1_Missense_Mutation_p.I315V|DIDO1_uc002ydt.1_Missense_Mutation_p.I315V|DIDO1_uc002ydu.1_Missense_Mutation_p.I315V|DIDO1_uc002ydv.1_Missense_Mutation_p.I315V|DIDO1_uc002ydw.1_Missense_Mutation_p.I315V|DIDO1_uc002ydx.1_Missense_Mutation_p.I315V|DIDO1_uc011aao.1_Missense_Mutation_p.I315V	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	315	PHD-type.				apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					TTTGGGCAGATATAGTCTTCC	0.493													25	69					0	0	0.005443	0	0		C	61541269	C	C	61541269	3	2	21	1	0	0	0	0	1	0	0	0	4528	1406	49	3	5961	3	DIDO1	20	61541269	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	3022187	61541269	1484251	538	19106											
MYT1	4661	broad.mit.edu	37	chr20	62839241	62839241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtcgaagtcaccaccgagcGctcccaggacctgtgtcccc	7	6	10	18	4	1	0	1	0	0	0	4	3	3	1	6	1	1	1	6	1	1	0	rs139069988		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr20:62839241G>A	uc002yii.2	+	7	1056	c.692G>A	c.(691-693)CGC>CAC	p.R231H	MYT1_uc002yih.2_Intron|MYT1_uc002yij.2_5'UTR	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	231	Glu-rich.				cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					ACCACCGAGCGCTCCCAGGAC	0.557													14	28					0	0	0.003163	0	0		A	62839241	A	A	62839241	3	1	21	1	0	0	0	0	1	0	0	0	10124	1087	38	1	710	1	MYT1	20	62839241	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1297972	62839241	186279	539	19107											
KRTAP26-1	388818	broad.mit.edu	37	chr21	31691822	31691822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgaggctgctggacacaaCgtgaagactttgaggacgat	11	9	13	8	2	1	4	0	3	1	1	1	7	1	6	0	3	2	2	0	3	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr21:31691822C>T	uc002ynw.2	-	1	786	c.532G>A	c.(532-534)GTT>ATT	p.V178I		NM_203405	NP_981950	Q6PEX3	KR261_HUMAN	keratin associated protein 26-1	178						intermediate filament				ovary(1)	1						CTGGACACAACGTGAAGACTT	0.557													87	128					0	0	0.01441	0	0		T	31691822	T	T	31691822	3	4	21	1	0	0	0	0	1	0	0	0	8559	536	19	1	104	1	KRTAP26-1	21	31691822	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08		31691822	16438073	540	19108											
TIAM1	7074	broad.mit.edu	37	chr21	32617973	32617973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcgtagaaaaatagcgtgCatcctgaggaaacagaacag	16	7	10	8	2	1	3	0	1	1	2	3	4	2	4	1	1	4	2	1	1	6	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr21:32617973C>T	uc002yow.1	-	7	1887	c.1415G>A	c.(1414-1416)TGC>TAC	p.C472Y	TIAM1_uc011adk.1_Missense_Mutation_p.C472Y|TIAM1_uc011adl.1_Missense_Mutation_p.C472Y|TIAM1_uc002yox.1_Missense_Mutation_p.C80Y	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	472	PH 1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						AAATAGCGTGCATCCTGAGGA	0.527													6	12					0	0	0.008291	0	0		T	32617973	T	T	32617973	3	4	21	1	0	0	0	0	1	0	0	0	15915	710	25	2	3452	2	TIAM1	21	32617973	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	926151	32617973	15511922	541	19109											
RIPK4	54101	broad.mit.edu	37	chr21	43162041	43162041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgcagcaggctggcacCgctgtccagtgccaggtcca	7	6	14	14	1	0	0	0	0	0	0	2	0	2	0	4	4	3	5	4	4	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr21:43162041C>T	uc002yzn.1	-	8	1360	c.1312G>A	c.(1312-1314)GGT>AGT	p.G438S		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	438						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						AGGCTGGCACCGCTGTCCAGT	0.627													32	39					0	0	0.01441	0	0		T	43162041	T	T	43162041	3	4	21	1	0	0	0	0	1	0	0	0	13408	652	23	1	1046	1	RIPK4	21	43162041	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	10544068	43162041	4967854	542	19110											
PKNOX1	5316	broad.mit.edu	37	chr21	44437072	44437072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcagggaattgtggtgccgGcgtccgcgctgcagcaggga	6	7	17	11	4	1	0	1	0	0	0	2	2	2	2	2	4	3	3	2	4	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr21:44437072G>A	uc002zcq.1	+	6	765	c.577G>A	c.(577-579)GCG>ACG	p.A193T	PKNOX1_uc002zcp.1_Missense_Mutation_p.A193T|PKNOX1_uc011aex.1_Missense_Mutation_p.A76T|PKNOX1_uc002zcr.2_Missense_Mutation_p.A193T	NM_004571	NP_004562	P55347	PKNX1_HUMAN	PBX/knotted 1 homeobox 1	193							sequence-specific DNA binding			large_intestine(2)	2						TGTGGTGCCGGCGTCCGCGCT	0.512													20	18					0	0	0.012319	0	0		A	44437072	A	A	44437072	3	1	21	1	0	0	0	0	1	0	0	0	12001	1203	42	2	595	2	PKNOX1	21	44437072	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1275031	44437072	3692823	543	19111											
CECR2	27443	broad.mit.edu	37	chr22	17983977	17983977	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcgcgagaggacctcccttCgagaacggcagctctacaag	10	7	11	13	4	1	2	0	0	1	2	4	5	2	3	2	2	3	2	2	2	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr22:17983977C>T	uc010gqw.1	+	6	799	c.673C>T	c.(673-675)CGA>TGA	p.R225*	CECR2_uc010gqv.1_Nonsense_Mutation_p.R104*|CECR2_uc002zml.2_Nonsense_Mutation_p.R104*|CECR2_uc002zmm.1_Nonsense_Mutation_p.R104*	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	267					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		GACCTCCCTTCGAGAACGGCA	0.582													23	51					0	0	0.021523	0	0		T	17983977	T	T	17983977	4	4	21	1	0	0	0	0	0	1	0	0	3209	876	31	1	697	1	CECR2	22	17983977	Nonsense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08		17983977	33320589	544	19112											
CECR2	27443	broad.mit.edu	37	chr22	18021539	18021539	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgctgcagaggccagcagtAccaggaacatttggccctct	9	8	12	12	0	1	1	0	0	1	1	1	2	1	2	3	3	5	4	3	3	2	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr22:18021539A>G	uc010gqw.1	+	14	1956	c.1830A>G	c.(1828-1830)GTA>GTG	p.V610V	CECR2_uc010gqv.1_Silent_p.V469V|CECR2_uc002zml.2_Silent_p.V469V	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	652					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		GGCCAGCAGTACCAGGAACAT	0.542													28	72					0	0	0.007291	0	0		G	18021539	G	G	18021539	2	3	21	1	0	0	0	0	0	0	0	1	3209	378	14	3		3	CECR2	22	18021539	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	37562	18021539	33283027	545	19113											
CYTSA	23384	broad.mit.edu	37	chr22	24717989	24717989	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatggacaatttagacagTgagtgcagtgaggtctacca	12	10	11	8	0	1	3	0	2	1	1	2	4	2	4	2	2	2	1	2	2	3	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr22:24717989T>C	uc002zzw.2	+	5	1348	c.1041T>C	c.(1039-1041)AGT>AGC	p.S347S	CYTSA_uc002zzv.3_Silent_p.S347S|CYTSA_uc011ajq.1_Silent_p.S347S	NM_015330	NP_056145	Q69YQ0	CYTSA_HUMAN	cytospin A	347					cell cycle|cell division						0						ATTTAGACAGTGAGTGCAGTG	0.542													23	85					0	0	0.016522	0	0		C	24717989	C	C	24717989	2	2	21	1	0	0	0	0	0	0	0	1	4212	1693	59	3		3	CYTSA	22	24717989	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	6696450	24717989	26586577	546	19114											
PIK3IP1	113791	broad.mit.edu	37	chr22	31679239	31679239	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcatctccctctcacatActttctgatcatgctgttct	6	16	5	14	0	5	1	2	1	4	0	7	1	5	1	1	0	3	4	1	0	1	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr22:31679239A>G	uc003akm.2	-	6	813	c.623T>C	c.(622-624)GTA>GCA	p.V208A	PIK3IP1_uc003akl.2_RNA|PIK3IP1_uc011alo.1_3'UTR|PIK3IP1_uc003akn.2_Missense_Mutation_p.V188A	NM_052880	NP_443112	Q96FE7	P3IP1_HUMAN	HGFL protein isoform 1	208	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						CCTCTCACATACTTTCTGATC	0.483													13	46					0	0	0.020292	0	0		G	31679239	G	G	31679239	3	3	21	1	0	0	0	0	1	0	0	0	11936	391	14	3	172	3	PIK3IP1	22	31679239	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	6961250	31679239	19625327	547	19115											
L3MBTL2	83746	broad.mit.edu	37	chr22	41620769	41620769	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaccccaccttccggaaGatctactgtgatgccgttcc	8	10	7	16	2	2	2	1	1	1	1	4	3	4	3	6	1	2	1	6	1	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr22:41620769G>T	uc003azo.2	+	10	1269	c.1215G>T	c.(1213-1215)AAG>AAT	p.K405N	L3MBTL2_uc010gyi.1_Missense_Mutation_p.K314N|L3MBTL2_uc003azn.2_RNA	NM_031488	NP_113676	Q969R5	LMBL2_HUMAN	l(3)mbt-like 2	405	MBT 3.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	methylated histone residue binding|transcription corepressor activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3						CCTTCCGGAAGATCTACTGTG	0.582													18	53					3.51602e-12	3.97611e-12	0.008871	1	0		T	41620769	T	T	41620769	3	4	21	1	0	0	0	0	1	0	0	0	8608	933	33	5	1253	5	L3MBTL2	22	41620769	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	9941530	41620769	9683797	548	19116											
ARFGAP3	26286	broad.mit.edu	37	chr22	43227589	43227589	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtggtttccacaggcctTgatgttaaagaagatggttc	12	12	11	6	0	0	3	0	1	0	2	2	3	1	3	2	3	0	3	2	3	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr22:43227589T>C	uc003bdd.2	-	6	751	c.531A>G	c.(529-531)TCA>TCG	p.S177S	ARFGAP3_uc010gzf.2_Silent_p.S133S|ARFGAP3_uc011apu.1_Silent_p.S105S	NM_014570	NP_055385	Q9NP61	ARFG3_HUMAN	ADP-ribosylation factor GTPase activating	177					intracellular protein transport|protein secretion|regulation of ARF GTPase activity|vesicle-mediated transport	cytosol|Golgi membrane	ARF GTPase activator activity|protein transporter activity|zinc ion binding			breast(1)	1						CCACAGGCCTTGATGTTAAAG	0.408													38	78					0	0	0.010771	0	0		C	43227589	C	C	43227589	2	2	21	1	0	0	0	0	0	0	0	1	851	1799	63	3		3	ARFGAP3	22	43227589	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	1606820	43227589	8076977	549	19117											
TTLL1	25809	broad.mit.edu	37	chr22	43442547	43442547	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggattcggtcattggcAgtgctggacgtgagagacgg	8	10	17	6	3	1	3	1	2	0	1	2	6	1	5	0	5	1	2	0	5	0	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr22:43442547A>G	uc003bdi.2	-	10	1252	c.1011T>C	c.(1009-1011)ACT>ACC	p.T337T	TTLL1_uc010gzh.2_Silent_p.T308T|TTLL1_uc003bdj.2_Silent_p.T223T|TTLL1_uc003bdh.2_Silent_p.T299T	NM_012263	NP_036395	O95922	TTLL1_HUMAN	tubulin tyrosine ligase-like family, member 1	337	TTL.				protein polyglutamylation	cytoplasm|microtubule	ATP binding|tubulin-glutamic acid ligase activity|tubulin-tyrosine ligase activity			skin(1)	1		Ovarian(80;0.0694)		BRCA - Breast invasive adenocarcinoma(115;0.00461)		GGTCATTGGCAGTGCTGGACG	0.507													5	172					0	0	0.014758	0	0		G	43442547	G	G	43442547	2	3	21	1	0	0	0	0	0	0	0	1	16748	175	7	3		3	TTLL1	22	43442547	Silent	SNP	A	TCGA-BR-4363-01A-01D-1158-08	214958	43442547	7862019	550	19118											
RIBC2	26150	broad.mit.edu	37	chr22	45818216	45818216	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtttgacgagacagccaaGcacctccagaagctggaaag	14	5	11	11	1	0	3	0	1	0	2	1	5	1	4	3	1	3	3	3	1	3	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr22:45818216G>A	uc011aqs.1	+	5	797	c.588G>A	c.(586-588)AAG>AAA	p.K196K		NM_015653	NP_056468	Q9H4K1	RIBC2_HUMAN	RIB43A domain with coiled-coils 2	128											0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		AGACAGCCAAGCACCTCCAGA	0.547													15	358					0	0	0.003163	0	0		A	45818216	A	A	45818216	2	1	21	1	0	0	0	0	0	0	0	1	13378	962	34	2		2	RIBC2	22	45818216	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2375669	45818216	5486350	551	19119											
SBF1	6305	broad.mit.edu	37	chr22	50906280	50906280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggcgctcggagttgatgtCggtgaggacagcaacaaaga	11	7	16	7	3	0	3	0	2	0	1	2	5	0	5	0	4	2	3	0	4	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chr22:50906280C>T	uc003blh.2	-	3	409	c.214G>A	c.(214-216)GAC>AAC	p.D72N	SBF1_uc011arx.1_5'Flank|SBF1_uc003bli.2_Missense_Mutation_p.D72N	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	72	UDENN.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		GAGTTGATGTCGGTGAGGACA	0.602													11	18					0	0	0.008291	0	0		T	50906280	T	T	50906280	3	4	21	1	0	0	0	0	1	0	0	0	13883	884	31	1	5623	1	SBF1	22	50906280	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	5088064	50906280	398286	552	19120											
TLR8	51311	broad.mit.edu	37	chrX	12940244	12940244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgactgaaaatgattcaCggtataacaatatgtatgtc	14	14	7	6	1	2	3	1	3	1	0	3	3	2	3	0	1	1	2	0	1	7	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:12940244C>T	uc004cve.2	+	2	3153	c.3085C>T	c.(3085-3087)CGG>TGG	p.R1029W	TLR8_uc004cvd.2_Missense_Mutation_p.R1047W	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	1029	Cytoplasmic (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						AAATGATTCACGGTATAACAA	0.403													99	257					0	0	0.01441	0	0		T	12940244	T	T	12940244	3	4	21	1	0	0	0	0	1	0	0	0	15982	527	19	1	3091	1	TLR8	23	12940244	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08		12940244	142330316	553	19121											
PHKA2	5256	broad.mit.edu	37	chrX	18969298	18969298	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggccccactggtcgtcGcccaccaccgtgccacaggt	6	6	12	17	3	0	0	0	0	0	0	2	0	0	0	6	4	1	0	6	4	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:18969298G>A	uc004cyv.3	-	4	808	c.378C>T	c.(376-378)GGC>GGT	p.G126G	PHKA2_uc010nfh.1_Intron|PHKA2_uc010nfi.1_Silent_p.G68G	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	126					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					ACTGGTCGTCGCCCACCACCG	0.622													8	162					0	0	0.00308	0	0		A	18969298	A	A	18969298	2	1	21	1	0	0	0	0	0	0	0	1	11863	1074	38	1		1	PHKA2	23	18969298	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	6029054	18969298	136301262	554	19122											
GPR64	10149	broad.mit.edu	37	chrX	19031842	19031842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctggtagtgttgacattcGcaggggcagacacggtggga	8	8	17	8	3	0	2	0	1	0	1	1	3	0	3	0	5	0	5	0	5	1	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:19031842G>A	uc004cyx.2	-	16	1225	c.1061C>T	c.(1060-1062)GCG>GTG	p.A354V	GPR64_uc004cyy.2_Missense_Mutation_p.A351V|GPR64_uc004cyz.2_Missense_Mutation_p.A340V|GPR64_uc004czb.2_Missense_Mutation_p.A354V|GPR64_uc004czc.2_Missense_Mutation_p.A338V|GPR64_uc004czd.2_Missense_Mutation_p.A330V|GPR64_uc004cze.2_Missense_Mutation_p.A324V|GPR64_uc004czf.2_Missense_Mutation_p.A316V|GPR64_uc004cza.2_Missense_Mutation_p.A332V|GPR64_uc004cyw.2_Missense_Mutation_p.A338V|GPR64_uc010nfj.2_Missense_Mutation_p.A324V	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	354	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					GTTGACATTCGCAGGGGCAGA	0.527													56	166					0	0	0.01441	0	0		A	19031842	A	A	19031842	3	1	21	1	0	0	0	0	1	0	0	0	6720	1087	38	1	2048	1	GPR64	23	19031842	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	62544	19031842	136238718	555	19123											
SAT1	6303	broad.mit.edu	37	chrX	23801523	23801523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgactgcagtgacatactgCggctgatcaaggtagcggag	10	7	14	10	3	1	2	1	2	0	0	1	4	1	3	1	3	4	3	1	3	3	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:23801523C>T	uc004dau.2	+	1	249	c.55C>T	c.(55-57)CGG>TGG	p.R19W	SAT1_uc010nfv.2_Missense_Mutation_p.R19W|SAT1_uc004dav.2_RNA	NM_002970	NP_002961	P21673	SAT1_HUMAN	diamine N-acetyltransferase 1	19	N-acetyltransferase.				angiogenesis|polyamine biosynthetic process	cytosol	diamine N-acetyltransferase activity|protein binding				0					Spermine(DB00127)	TGACATACTGCGGCTGATCAA	0.597											OREG0019712	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	28					0	0	0.006214	0	0		T	23801523	T	T	23801523	3	4	21	1	0	0	0	0	1	0	0	0	13876	759	27	1	57	1	SAT1	23	23801523	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	4769681	23801523	131469037	556	19124											
FAM48B1	100130302	broad.mit.edu	37	chrX	24382737	24382737	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagggcccagtccagggagcCcaggctttggggagcagttt	7	7	17	10	0	0	0	0	0	0	0	1	3	1	2	3	5	2	3	3	5	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:24382737C>A	uc011mjx.1	+	1	1860	c.1860C>A	c.(1858-1860)GCC>GCA	p.A620A		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						TCCAGGGAGCCCAGGCTTTGG	0.602													10	38					1.05317e-09	1.17019e-09	0.020292	1	0		A	24382737	A	A	24382737	2	1	21	1	0	0	0	0	0	0	0	1	5587	610	22	5		5	FAM48B1	23	24382737	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	581214	24382737	130887823	557	19125											
FAM47A	158724	broad.mit.edu	37	chrX	34150134	34150134	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcccgcttttggggtcagCttggggacctctgagagata	6	11	14	10	1	2	2	1	1	1	1	2	4	2	3	2	4	2	2	2	4	1	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:34150134C>G	uc004ddg.2	-	1	295	c.262G>C	c.(262-264)GCT>CCT	p.A88P		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	88										ovary(4)|central_nervous_system(1)	5						TTGGGGTCAGCTTGGGGACCT	0.542													6	235					0	0	0.001168	0	0		G	34150134	G	G	34150134	3	3	21	1	0	0	0	0	1	0	0	0	5583	797	28	5	2117	5	FAM47A	23	34150134	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	9767397	34150134	121120426	558	19126											
FAM47C	442444	broad.mit.edu	37	chrX	37028447	37028447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactggagtgtcccatctctGcccagagcctcccaagactc	8	9	8	16	0	1	2	0	0	1	2	5	3	3	3	4	1	3	0	4	1	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:37028447G>A	uc004ddl.1	+	1	1978	c.1964G>A	c.(1963-1965)TGC>TAC	p.C655Y		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	655										ovary(3)	3						TCCCATCTCTGCCCAGAGCCT	0.642													35	128					0	0	0.006999	0	0		A	37028447	A	A	37028447	3	1	21	1	0	0	0	0	1	0	0	0	5585	1319	46	2	1966	2	FAM47C	23	37028447	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	2878313	37028447	118242113	559	19127											
KDM6A	7403	broad.mit.edu	37	chrX	44935952	44935952	+	Frame_Shift_Del	DEL	A	-	-																															ttttttccaggaatctaggtAaaaatggcttatctaacagt																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:44935952delA	uc004dge.3	+	18	3088	c.2713delA	c.(2713-2715)AAAfs	p.K905fs	KDM6A_uc010nhk.2_Frame_Shift_Del_p.K871fs|KDM6A_uc011mkz.1_Frame_Shift_Del_p.K957fs|KDM6A_uc011mla.1_Frame_Shift_Del_p.K860fs|KDM6A_uc011mlb.1_Frame_Shift_Del_p.K912fs|KDM6A_uc011mlc.1_Frame_Shift_Del_p.K609fs|KDM6A_uc011mld.1_Frame_Shift_Del_p.K544fs	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	905					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						GAATCTAGGTAAAAATGGCTT	0.338			D|N|F|S		renal|oesophageal SCC|MM								44	87	---	---	---	---						.	-	44935952	-	-	44935952	7	5	21	1	0	1	0	1	0	0	0	0	8153	363	13	0	2783	0	KDM6A	23	44935952	Frame_Shift_Del	DEL	A	TCGA-BR-4363-01A-01D-1158-08	7907505	44935952	110334608	560	19128											
SLC9A7	84679	broad.mit.edu	37	chrX	46508232	46508232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctgcccaggaagatggcaaCctgaccacaaggtagaaggt	13	6	12	10	0	1	3	0	1	1	2	1	4	1	4	3	4	2	2	3	4	5	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:46508232C>T	uc004dgu.1	-	11	1356	c.1348G>A	c.(1348-1350)GTT>ATT	p.V450I		NM_032591	NP_115980	Q96T83	SL9A7_HUMAN	solute carrier family 9, member 7	450	Helical; (Potential).				regulation of pH	Golgi membrane|integral to membrane|recycling endosome membrane|trans-Golgi network	potassium:hydrogen antiporter activity|protein homodimerization activity|sodium:hydrogen antiporter activity			ovary(2)	2						AAGATGGCAACCTGACCACAA	0.502													15	77					0	0	0.003163	0	0		T	46508232	T	T	46508232	3	4	21	1	0	0	0	0	1	0	0	0	14744	521	18	4	857	4	SLC9A7	23	46508232	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1572280	46508232	108762328	561	19129											
KCND1	3750	broad.mit.edu	37	chrX	48826129	48826129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atagtagaaaacgagggctgCggtgctcgtgtgtggattct	9	11	15	6	3	1	1	0	0	1	1	2	3	1	2	0	3	3	3	0	3	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:48826129C>T	uc004dlx.1	-	1	2123	c.550G>A	c.(550-552)GCA>ACA	p.A184T	KCND1_uc004dlw.1_5'Flank	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	184	Cytoplasmic (Potential).					voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						ACGAGGGCTGCGGTGCTCGTG	0.662													12	17					0	0	0.003163	0	0		T	48826129	T	T	48826129	3	4	21	1	0	0	0	0	1	0	0	0	8034	768	27	1	1417	1	KCND1	23	48826129	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2317897	48826129	106444431	562	19130											
CCNB3	85417	broad.mit.edu	37	chrX	50085219	50085219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtcctttgagatgaccCatgagaccctgtacttggca	9	11	11	10	0	0	3	0	3	0	2	1	5	1	3	3	2	1	2	3	2	1	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:50085219C>T	uc004dox.3	+	9	3833	c.3535C>T	c.(3535-3537)CAT>TAT	p.H1179Y	CCNB3_uc004doy.2_Missense_Mutation_p.H1179Y|CCNB3_uc004doz.2_Missense_Mutation_p.H75Y|CCNB3_uc010njq.2_Missense_Mutation_p.H71Y|CCNB3_uc004dpa.2_Missense_Mutation_p.H18Y	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1179					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					TGAGATGACCCATGAGACCCT	0.488													50	227					0	0	0.01441	0	0		T	50085219	T	T	50085219	3	4	21	1	0	0	0	0	1	0	0	0	2917	594	21	4	3561	4	CCNB3	23	50085219	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	1259090	50085219	105185341	563	19131											
SMC1A	8243	broad.mit.edu	37	chrX	53438754	53438754	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccagatccagacggtccTggtcagctttctggtctcga	6	12	10	13	2	3	2	1	0	2	2	7	3	6	2	3	3	1	1	3	3	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:53438754T>C	uc004dsg.2	-	7	1280	c.1211A>G	c.(1210-1212)CAG>CGG	p.Q404R	SMC1A_uc011moe.1_Missense_Mutation_p.Q382R|SMC1A_uc011mof.1_Missense_Mutation_p.Q170R	NM_006306	NP_006297	Q14683	SMC1A_HUMAN	structural maintenance of chromosomes 1A	404	Potential.				cell cycle checkpoint|cell division|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic sister chromatid cohesion|mitotic spindle organization|negative regulation of DNA endoreduplication|nuclear mRNA splicing, via spliceosome|response to radiation|signal transduction in response to DNA damage	cohesin core heterodimer|condensed chromosome kinetochore|condensed nuclear chromosome|cytoplasm|meiotic cohesin complex|nucleoplasm	ATP binding|chromatin binding|microtubule motor activity|protein heterodimerization activity			ovary(5)|central_nervous_system(1)	6						CAGACGGTCCTGGTCAGCTTT	0.463													81	314					0	0	0.01441	0	0		C	53438754	C	C	53438754	3	2	21	1	0	0	0	0	1	0	0	0	14806	1580	55	3	2566	3	SMC1A	23	53438754	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	3353535	53438754	101831806	564	19132											
HUWE1	10075	broad.mit.edu	37	chrX	53600835	53600835	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtaggcattaaaggttTgctgcccttgcctttctgtt	6	15	12	8	0	1	0	0	0	1	0	1	1	1	1	2	4	3	5	2	4	3	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:53600835T>C	uc004dsp.2	-	47	6589	c.6187A>G	c.(6187-6189)AAA>GAA	p.K2063E	HUWE1_uc004dsn.2_Missense_Mutation_p.K887E	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2063					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						ATTAAAGGTTTGCTGCCCTTG	0.493													46	158					0	0	0.01441	0	0		C	53600835	C	C	53600835	3	2	21	1	0	0	0	0	1	0	0	0	7477	1821	63	3	7089	3	HUWE1	23	53600835	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	162081	53600835	101669725	565	19133											
TRO	7216	broad.mit.edu	37	chrX	54956889	54956889	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctttgatggtgggctaggTaccagcgctggcttcggtgg	4	11	18	8	2	0	1	0	1	0	0	1	1	0	1	1	7	2	5	1	7	2	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:54956889T>C	uc004dtq.2	+	12	3839	c.3732T>C	c.(3730-3732)GGT>GGC	p.G1244G	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Silent_p.G775G|TRO_uc004dtw.2_Silent_p.G847G|TRO_uc004dtx.2_Silent_p.G627G	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	1244	44.|62 X 10 AA approximate tandem repeats.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GTGGGCTAGGTACCAGCGCTG	0.612													36	107					0	0	0.00623	0	0		C	54956889	C	C	54956889	2	2	21	1	0	0	0	0	0	0	0	1	16600	1625	57	3		3	TRO	23	54956889	Silent	SNP	T	TCGA-BR-4363-01A-01D-1158-08	1356054	54956889	100313671	566	19134											
AR	367	broad.mit.edu	37	chrX	66765158	66765158	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgccagtttgctgctgcTgcagcagcagcagcagcagc	7	6	14	14	2	0	0	0	0	0	0	0	0	0	0	1	1	10	10	1	1	0	1	rs78686797		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:66765158T>A	uc004dwu.1	+	1	1285	c.170T>A	c.(169-171)CTG>CAG	p.L57Q	AR_uc011mpd.1_Missense_Mutation_p.L57Q|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.L57Q	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	57	Poly-Leu.|Modulating.		L -> Q (in prostate cancer).		cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	TTGCTGCTGCTgcagcagcag	0.338									Androgen_Insensitivity_Syndrome				3	14					0	0	0.009096	0	0		A	66765158	A	A	66765158	3	1	21	1	0	0	0	0	1	0	0	0	836	1580	55	5	172	5	AR	23	66765158	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	11808269	66765158	88505402	567	19135											
OTUD6A	139562	broad.mit.edu	37	chrX	69283028	69283028	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcaccacggcatggggaggCcagctggagctgagggccct	7	4	17	13	2	0	1	0	1	0	0	0	3	0	3	3	6	2	4	3	6	0	0			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:69283028C>T	uc004dxu.1	+	1	688	c.654C>T	c.(652-654)GGC>GGT	p.G218G		NM_207320	NP_997203	Q7L8S5	OTU6A_HUMAN	OTU domain containing 6A	218	OTU.									lung(1)|skin(1)	2						CATGGGGAGGCCAGCTGGAGC	0.617													24	72					0	0	0.01892	0	0		T	69283028	T	T	69283028	2	4	21	1	0	0	0	0	0	0	0	1	11335	726	26	2		2	OTUD6A	23	69283028	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	2517870	69283028	85987532	568	19136											
PDZD11	51248	broad.mit.edu	37	chrX	69509183	69509183	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tagtcatcataaggaatccgGctgtccatctcgggcaaggc	10	9	11	11	2	3	0	2	0	1	0	6	1	5	1	2	4	0	2	2	4	4	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:69509183G>A	uc004dyd.1	-	2	111	c.9C>T	c.(7-9)AGC>AGT	p.S3S	KIF4A_uc004dyg.2_5'Flank|KIF4A_uc010nkw.2_5'Flank|PDZD11_uc004dye.1_Silent_p.S35S|KIF4A_uc004dyf.1_5'Flank	NM_016484	NP_057568	Q5EBL8	PDZ11_HUMAN	PDZ domain containing 11	3						basolateral plasma membrane|cytosol|extracellular region	protein C-terminus binding				0						AAGGAATCCGGCTGTCCATCT	0.512													4	24					0	0	0.014758	0	0		A	69509183	A	A	69509183	2	1	21	1	0	0	0	0	0	0	0	1	11719	1194	42	2		2	PDZD11	23	69509183	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	226155	69509183	85761377	569	19137											
IL2RG	3561	broad.mit.edu	37	chrX	70327614	70327614	+	Frame_Shift_Del	DEL	G	-	-																															caggctttagggtgtaacatGggggggcccagtaggggcta																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:70327614delG	uc004dyw.1	-	8	1096	c.1082delC	c.(1081-1083)CCAfs	p.P361fs	CXorf65_uc011mpo.1_5'Flank|CXorf65_uc011mpp.1_5'Flank|IL2RG_uc004dyv.1_Frame_Shift_Del_p.P90fs|IL2RG_uc004dyx.1_Frame_Shift_Del_p.P171fs	NM_000206	NP_000197	P31785	IL2RG_HUMAN	interleukin 2 receptor, gamma precursor	361	Cytoplasmic (Potential).				immune response|interleukin-4-mediated signaling pathway|interspecies interaction between organisms	external side of plasma membrane|integral to plasma membrane	cytokine receptor activity|interleukin-2 binding			pancreas(1)	1	Renal(35;0.156)				Aldesleukin(DB00041)|Denileukin diftitox(DB00004)	GGTGTAACATGGGGGGGCCCA	0.582									Severe_Combined_Immunodeficiency_X-linked				29	37	---	---	---	---						.	-	70327614	-	-	70327614	7	5	21	1	0	1	0	1	0	0	0	0	7704	1348	47	0	31	0	IL2RG	23	70327614	Frame_Shift_Del	DEL	G	TCGA-BR-4363-01A-01D-1158-08	818431	70327614	84942946	570	19138											
TAF1	6872	broad.mit.edu	37	chrX	70602920	70602920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaactccggcagttccatcGcccacctctgaaaaagtact	12	8	6	15	2	1	1	0	1	1	0	4	1	3	1	4	1	2	3	4	1	4	2	rs143439292		TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:70602920G>A	uc004dzu.3	+	12	1901	c.1850G>A	c.(1849-1851)CGC>CAC	p.R617H	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.R638H	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	617					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				CAGTTCCATCGCCCACCTCTG	0.483													23	67					0	0	0.01892	0	0		A	70602920	A	A	70602920	3	1	21	1	0	0	0	0	1	0	0	0	15538	1087	38	1	1959	1	TAF1	23	70602920	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	275306	70602920	84667640	571	19139											
HDX	139324	broad.mit.edu	37	chrX	83724526	83724526	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaagaggttcctgttgttgCtgttccagattcagagttct	8	15	10	8	0	2	3	1	0	1	3	4	3	4	3	2	1	1	6	2	1	1	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:83724526C>G	uc004eek.1	-	3	314	c.205G>C	c.(205-207)GCA>CCA	p.A69P	HDX_uc011mqv.1_Missense_Mutation_p.A69P|HDX_uc004eel.1_Missense_Mutation_p.A11P	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	69						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						CCTGTTGTTGCTGTTCCAGAT	0.403													29	87					0	0	0.008361	0	0		G	83724526	G	G	83724526	3	3	21	1	0	0	0	0	1	0	0	0	7042	797	28	5	1899	5	HDX	23	83724526	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	13121606	83724526	71546034	572	19140											
KLHL4	56062	broad.mit.edu	37	chrX	86887291	86887291	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatggccgtaggcttcaatTtggagtcgcagttattgata	10	13	12	6	2	1	1	1	1	0	0	2	3	1	2	1	3	0	4	1	3	5	6			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:86887291T>G	uc004efb.2	+	7	1588	c.1406T>G	c.(1405-1407)TTT>TGT	p.F469C	KLHL4_uc004efa.2_Missense_Mutation_p.F469C	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	469	Kelch 1.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						AGGCTTCAATTTGGAGTCGCA	0.393													6	139					0	0	0.00308	0	0		G	86887291	G	G	86887291	3	3	21	1	0	0	0	0	1	0	0	0	8407	1841	64	5	1432	5	KLHL4	23	86887291	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	3162765	86887291	68383269	573	19141											
NOX1	27035	broad.mit.edu	37	chrX	100099016	100099016	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcggtgacagcatttgcgCaggctctttgccaaagtccg	8	11	11	11	3	1	1	0	1	1	0	3	1	2	1	2	2	3	3	2	2	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:100099016C>T	uc004egj.2	-	13	1826	c.1620G>A	c.(1618-1620)CTG>CTA	p.L540L	NOX1_uc004egl.3_Silent_p.L491L|NOX1_uc010nne.2_Silent_p.L503L	NM_007052	NP_008983	Q9Y5S8	NOX1_HUMAN	NADPH oxidase 1 isoform long	540	Cytoplasmic (Potential).				angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1						AGCATTTGCGCAGGCTCTTTG	0.418													12	36					0	0	0.010729	0	0		T	100099016	T	T	100099016	2	4	21	1	0	0	0	0	0	0	0	1	10575	697	25	2		2	NOX1	23	100099016	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	13211725	100099016	55171544	574	19142											
CAPN6	827	broad.mit.edu	37	chrX	110489890	110489890	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagttggaccacccttcttaCgcaggtacagagacttcaga	11	9	9	12	1	2	2	1	0	1	2	2	4	2	3	2	2	2	3	2	2	2	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:110489890C>T	uc004epc.1	-	13	2009	c.1841G>A	c.(1840-1842)CGT>CAT	p.R614H	CAPN6_uc011msu.1_Missense_Mutation_p.R359H	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	614	C2.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						ACCCTTCTTACGCAGGTACAG	0.507													8	149					0	0	0.006214	0	0		T	110489890	T	T	110489890	3	4	21	1	0	0	0	0	1	0	0	0	2633	536	19	1	88	1	CAPN6	23	110489890	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	10390874	110489890	44780670	575	19143											
KIAA1210	57481	broad.mit.edu	37	chrX	118222233	118222233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggattcatcaagggctggCaaagaagtttaggaggcaga	14	8	14	5	0	2	2	2	0	0	2	2	4	2	4	0	5	0	4	0	5	5	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:118222233C>T	uc004era.3	-	11	2960	c.2960G>A	c.(2959-2961)TGC>TAC	p.C987Y		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	987										ovary(4)|skin(1)	5						CAAGGGCTGGCAAAGAAGTTT	0.458													30	97					0	0	0.008361	0	0		T	118222233	T	T	118222233	3	4	21	1	0	0	0	0	1	0	0	0	8230	710	25	2	2185	2	KIAA1210	23	118222233	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	7732343	118222233	37048327	576	19144											
GRIA3	2892	broad.mit.edu	37	chrX	122319737	122319737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcgctttccgctttgccGtgcagttatacaacaccaac	10	10	7	14	3	0	0	0	0	0	0	1	0	1	0	3	0	6	4	3	0	4	4			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:122319737G>A	uc004etq.3	+	3	456	c.163G>A	c.(163-165)GTG>ATG	p.V55M	GRIA3_uc004etr.3_Missense_Mutation_p.V55M|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.V39M|GRIA3_uc010nqs.1_Missense_Mutation_p.V55M	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	55	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	CCGCTTTGCCGTGCAGTTATA	0.473													38	109					0	0	0.019004	0	0		A	122319737	A	A	122319737	3	1	21	1	0	0	0	0	1	0	0	0	6785	1145	40	1	169	1	GRIA3	23	122319737	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	4097504	122319737	32950823	577	19145											
GRIA3	2892	broad.mit.edu	37	chrX	122537342	122537342	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacagtgcatcctcagagaAtcggaccatagtagtgacta	13	9	10	9	1	1	3	1	2	0	1	3	5	2	4	2	1	1	2	2	1	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:122537342A>G	uc004etq.3	+	10	1558	c.1265A>G	c.(1264-1266)AAT>AGT	p.N422S	GRIA3_uc004etr.3_Missense_Mutation_p.N422S|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.N406S	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	422	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	TCCTCAGAGAATCGGACCATA	0.433													88	277					0	0	0.01441	0	0		G	122537342	G	G	122537342	3	3	21	1	0	0	0	0	1	0	0	0	6785	101	4	3	1299	3	GRIA3	23	122537342	Missense_Mutation	SNP	A	TCGA-BR-4363-01A-01D-1158-08	217605	122537342	32733218	578	19146											
XPNPEP2	7512	broad.mit.edu	37	chrX	128890517	128890518	+	Frame_Shift_Ins	INS	-	G	G																															agatgtacctgctggactctINSggggggcagtactggtatgt																										TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:128890517_128890518insG	uc004eut.1	+	14	1597_1598	c.1353_1354insG	c.(1351-1356)TCTGGGfs	p.S451fs		NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound	451_452					cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						TGCTGGACTCTGGGGGGCAGTA	0.545													74	113	---	---	---	---						.	G	128890518	G	G	128890517	7	5	21	1	0	1	1	0	0	0	0	0	17469	1567	55	0	1407	0	XPNPEP2	23	128890517	Frame_Shift_Ins	INS	-	TCGA-BR-4363-01A-01D-1158-08	6353175	128890517	26380043	579	19147											
BCORL1	63035	broad.mit.edu	37	chrX	129147951	129147951	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacccatgcctgctgccacGccagctgccattcccacctc	7	7	6	21	1	0	0	0	0	0	0	2	0	1	0	7	0	5	2	7	0	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:129147951G>A	uc004evb.1	+	4	1317	c.1203G>A	c.(1201-1203)ACG>ACA	p.T401T	BCORL1_uc010nrd.1_Silent_p.T303T	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	401	Pro-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						ctgctgccacgccagctgcca	0.154													8	30					0	0	0.004482	0	0		A	129147951	A	A	129147951	2	1	21	1	0	0	0	0	0	0	0	1	1388	1074	38	1		1	BCORL1	23	129147951	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	257434	129147951	26122609	580	19148											
ZNF280C	55609	broad.mit.edu	37	chrX	129370483	129370483	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatgtcactggaggagaGccaattaaaggcaatgaagt	15	7	14	5	0	1	2	1	1	0	1	1	6	1	4	1	4	1	1	1	4	5	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:129370483G>A	uc004evm.2	-	7	778	c.624C>T	c.(622-624)GGC>GGT	p.G208G	ZNF280C_uc010nrf.1_Silent_p.G208G	NM_017666	NP_060136	Q8ND82	Z280C_HUMAN	zinc finger protein 280C	208	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)	3						CTGGAGGAGAGCCAATTAAAG	0.333													45	162					0	0	0.01441	0	0		A	129370483	A	A	129370483	2	1	21	1	0	0	0	0	0	0	0	1	17841	958	34	2		2	ZNF280C	23	129370483	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	222532	129370483	25900077	581	19149											
FHL1	2273	broad.mit.edu	37	chrX	135292049	135292049	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtttggtaaaggctccagTgtggtggcctatgaaggaca	9	10	16	6	0	0	1	0	1	0	0	1	2	1	2	2	6	0	3	2	6	4	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:135292049T>C	uc004ezo.2	+	7	1008	c.908T>C	c.(907-909)GTG>GCG	p.V303A	FHL1_uc010nrz.2_Silent_p.S236S|FHL1_uc004ezm.2_RNA|FHL1_uc004ezl.2_Silent_p.S236S|FHL1_uc004ezq.2_Missense_Mutation_p.V174A|FHL1_uc011mvy.1_Silent_p.S236S|FHL1_uc011mvz.1_Silent_p.S236S|FHL1_uc004ezn.2_Silent_p.S236S|FHL1_uc011mwa.1_Silent_p.S265S|FHL1_uc011mwb.1_RNA|FHL1_uc004ezp.2_Silent_p.S252S|FHL1_uc004ezr.2_Missense_Mutation_p.V55A	NM_001159702	NP_001153174	Q13642	FHL1_HUMAN	four and a half LIM domains 1 isoform 1	303					cell differentiation|cell growth|muscle organ development|organ morphogenesis	cytosol|nucleus|plasma membrane	protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(192;0.000127)					AAGGCTCCAGTGTGGTGGCCT	0.363											OREG0019943	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	62	189					0	0	0.01441	0	0		C	135292049	C	C	135292049	3	2	21	1	0	0	0	0	1	0	0	0	5892	1696	59	3	1047	3	FHL1	23	135292049	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	5921566	135292049	19978511	582	19150											
ARHGEF6	9459	broad.mit.edu	37	chrX	135789067	135789067	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaatgttaactatttacCtgtgctgagtgagcacattt	11	14	10	6	0	0	2	0	2	0	0	0	3	0	3	1	1	4	3	1	1	4	5			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:135789067C>A	uc004fab.2	-	9	1508	c.1046G>T	c.(1045-1047)AGT>ATT	p.S349I	ARHGEF6_uc011mwd.1_Missense_Mutation_p.S222I|ARHGEF6_uc011mwe.1_Missense_Mutation_p.S195I	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	349	DH.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					AACTATTTACCTGTGCTGAGT	0.413													91	301					4.85238e-36	5.6991e-36	0.01441	1	0		A	135789067	A	A	135789067	3	1	21	1	0	0	0	0	1	0	0	0	910	695	24	5	1340	5	ARHGEF6	23	135789067	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	497018	135789067	19481493	583	19151											
MAGEA10	4109	broad.mit.edu	37	chrX	151303089	151303089	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggctctctcttcctcatctTtcaaagcctcctcataccac	7	13	4	17	0	6	0	3	0	3	0	9	0	8	0	4	1	2	1	4	1	2	3			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:151303089T>C	uc004ffk.2	-	5	1412	c.1004A>G	c.(1003-1005)AAA>AGA	p.K335R	MAGEA10_uc004ffl.2_Missense_Mutation_p.K335R	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	335											0	Acute lymphoblastic leukemia(192;6.56e-05)					TTCCTCATCTTTCAAAGCCTC	0.483													115	334					0	0	0.01441	0	0		C	151303089	C	C	151303089	3	2	21	1	0	0	0	0	1	0	0	0	9182	1841	64	3	109	3	MAGEA10	23	151303089	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	15514022	151303089	3967471	584	19152											
HAUS7	55559	broad.mit.edu	37	chrX	152721808	152721808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcctcctcctcggacttgGcagaggcactggccctgcag	5	9	11	16	1	1	1	0	0	1	1	5	2	3	2	4	4	1	3	4	4	0	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:152721808G>A	uc004fho.1	-	7	1208	c.650C>T	c.(649-651)GCC>GTC	p.A217V	HAUS7_uc004fhl.2_RNA|HAUS7_uc004fhm.2_RNA|HAUS7_uc004fhn.1_Missense_Mutation_p.A217V|HAUS7_uc004fhp.1_RNA|HAUS7_uc011myq.1_RNA	NM_017518	NP_059988	Q99871	HAUS7_HUMAN	HAUS augmin-like complex subunit 7	217	Potential.				cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleolus|plasma membrane|spindle	thioesterase binding				0						CTCGGACTTGGCAGAGGCACT	0.617													23	86					0	0	0.015359	0	0		A	152721808	A	A	152721808	3	1	21	1	0	0	0	0	1	0	0	0	6987	1203	42	2	472	2	HAUS7	23	152721808	Missense_Mutation	SNP	G	TCGA-BR-4363-01A-01D-1158-08	1418719	152721808	2548752	585	19153											
ATP2B3	492	broad.mit.edu	37	chrX	152813345	152813345	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcagcccctgaagagcgcGgagggtggggagatggagga	10	4	20	7	2	0	3	0	1	0	2	0	7	0	6	2	6	3	1	2	6	1	0	rs142541769	byFrequency	TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:152813345G>A	uc004fht.1	+	7	1137	c.1011G>A	c.(1009-1011)GCG>GCA	p.A337A	ATP2B3_uc004fhs.1_Silent_p.A337A	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	337	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TGAAGAGCGCGGAGGGTGGGG	0.592													87	87					0	0	0.01441	0	0		A	152813345	A	A	152813345	2	1	21	1	0	0	0	0	0	0	0	1	1142	1103	39	1		1	ATP2B3	23	152813345	Silent	SNP	G	TCGA-BR-4363-01A-01D-1158-08	91537	152813345	2457215	586	19154											
PLXNB3	5365	broad.mit.edu	37	chrX	153036432	153036432	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccccagggcctgcctgccTccttccactgctggctggag	3	10	11	17	0	0	0	0	0	0	0	3	1	3	1	7	3	3	2	7	3	0	2			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:153036432T>G	uc004fii.2	+	12	2323	c.2149T>G	c.(2149-2151)TCC>GCC	p.S717A	PLXNB3_uc011mzb.1_Silent_p.P172P|PLXNB3_uc011mzc.1_Missense_Mutation_p.S399A|PLXNB3_uc010nuk.2_Missense_Mutation_p.S740A|PLXNB3_uc011mzd.1_Missense_Mutation_p.S356A	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	717	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CCTGCCTGCCTCCTTCCACTG	0.647													31	122					0	0	0.01441	0	0		G	153036432	G	G	153036432	3	3	21	1	0	0	0	0	1	0	0	0	12144	1551	54	5	2309	5	PLXNB3	23	153036432	Missense_Mutation	SNP	T	TCGA-BR-4363-01A-01D-1158-08	223087	153036432	2234128	587	19155											
ARHGAP4	393	broad.mit.edu	37	chrX	153175711	153175711	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggaagacccgatcgggCtgcactatgagcgtctgcac	8	6	15	12	4	1	2	0	1	1	1	2	4	1	3	1	3	3	3	1	3	2	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:153175711C>T	uc004fjk.1	-	17	2112	c.2070G>A	c.(2068-2070)CAG>CAA	p.Q690Q	ARHGAP4_uc004fjj.1_Silent_p.Q41Q|ARHGAP4_uc011mzf.1_Silent_p.Q667Q|ARHGAP4_uc004fjl.1_Silent_p.Q730Q|ARHGAP4_uc010nup.1_Intron	NM_001666	NP_001657	P98171	RHG04_HUMAN	Rho GTPase activating protein 4 isoform 2	690	Rho-GAP.				apoptosis|cytoskeleton organization|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|Rho protein signal transduction	cytosol|focal adhesion|nucleus	Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			central_nervous_system(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCCGATCGGGCTGCACTATGA	0.701													9	38					0	0	0.020292	0	0		T	153175711	T	T	153175711	2	4	21	1	0	0	0	0	0	0	0	1	885	796	28	2		2	ARHGAP4	23	153175711	Silent	SNP	C	TCGA-BR-4363-01A-01D-1158-08	139279	153175711	2094849	588	19156											
FLNA	2316	broad.mit.edu	37	chrX	153585838	153585838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcgtccccggtgggcaCggcacgcacgcggtacgggg	4	4	19	14	7	0	0	0	0	0	0	1	0	1	0	2	7	1	5	2	7	1	1			TCGA-BR-4363-01A-01D-1158-08	TCGA-BR-4363-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b31fcaf7-ccd9-4320-a1ae-e59c4450386c	8814f33d-2e46-4c3f-9a03-0c1c2d9ec106	g.chrX:153585838C>T	uc004fkk.2	-	29	5158	c.4909G>A	c.(4909-4911)GTG>ATG	p.V1637M	FLNA_uc011mzn.1_Translation_Start_Site|FLNA_uc010nuu.1_Missense_Mutation_p.V1637M	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1637			Missing (in otopalatodigital spectrum disorder).		actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCGGTGGGCACGGCACGCACG	0.657													30	46					0	0	0.013726	0	0		T	153585838	T	T	153585838	3	4	21	1	0	0	0	0	1	0	0	0	5947	536	19	1	3114	1	FLNA	23	153585838	Missense_Mutation	SNP	C	TCGA-BR-4363-01A-01D-1158-08	410127	153585838	1684722	589	19157											
CAMTA1	23261	broad.mit.edu	37	chr1	7725165	7725165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacgtcgccgaggtggtctCggccgcctcggcccagggca	4	5	16	16	6	1	0	0	0	1	0	4	1	1	0	4	5	0	2	4	5	0	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:7725165C>T	uc001aoi.2	+	9	2765	c.2558C>T	c.(2557-2559)TCG>TTG	p.S853L		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	853					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		GAGGTGGTCTCGGCCGCCTCG	0.672													58	29					0	0	0.01441	0	0		T	7725165	T	T	7725165	3	4	22	1	0	0	0	0	1	0	0	0	2616	893	31	1	2592	1	CAMTA1	1	7725165	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08		7725165	241525456	1	19158											
ZNF643	65243	broad.mit.edu	37	chr1	40928715	40928715	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcatcgcttactcaacaTgttagaattcataccgggga	11	12	7	11	2	3	1	3	0	0	1	4	2	3	2	2	2	3	2	2	2	5	5			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:40928715T>A	uc001cfn.1	+	5	1356	c.1059T>A	c.(1057-1059)CAT>CAA	p.H353Q	ZNF643_uc001cfl.1_Missense_Mutation_p.H251Q|ZNF643_uc001cfm.1_Missense_Mutation_p.H219Q	NM_023070	NP_075558	Q9UJL9	ZN643_HUMAN	zinc finger protein 643	353	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;5.25e-18)			TTACTCAACATGTTAGAATTC	0.428													35	98					0	0	0.003271	0	0		A	40928715	A	A	40928715	3	1	22	1	0	0	0	0	1	0	0	0	18084	1461	51	5	1077	5	ZNF643	1	40928715	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	33203550	40928715	208321906	2	19159											
C1orf168	199920	broad.mit.edu	37	chr1	57258418	57258418	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atttaataggtcctggaagaGgtggagcatcaagattttga	13	12	12	4	0	1	3	1	1	0	2	2	5	2	5	1	4	1	1	1	4	4	5			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:57258418G>C	uc001cym.3	-	2	474	c.68C>G	c.(67-69)CCT>CGT	p.P23R	C1orf168_uc009vzu.1_RNA|C1orf168_uc009vzv.1_Missense_Mutation_p.P23R	NM_001004303	NP_001004303	Q5VWT5	CA168_HUMAN	hypothetical protein LOC199920	23										ovary(3)|skin(2)	5						TCCTGGAAGAGGTGGAGCATC	0.398													13	441					0	0	0.006122	0	0		C	57258418	C	C	57258418	3	2	22	1	0	0	0	0	1	0	0	0	2015	1000	35	5	2194	5	C1orf168	1	57258418	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	16329703	57258418	191992203	3	19160											
WDR78	79819	broad.mit.edu	37	chr1	67306240	67306240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaagtcgttccaagttggcgGgtattgttgattcttctgca	8	15	11	7	2	2	1	0	1	2	0	4	1	3	1	1	2	1	5	1	2	3	7			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:67306240G>A	uc001dcx.2	-	9	1462	c.1406C>T	c.(1405-1407)CCC>CTC	p.P469L	WDR78_uc001dcy.2_Missense_Mutation_p.P469L|WDR78_uc009waw.2_Missense_Mutation_p.P215L|WDR78_uc009wax.2_RNA	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	469										ovary(2)	2						CAAGTTGGCGGGTATTGTTGA	0.408													77	113					0	0	0.01441	0	0		A	67306240	A	A	67306240	3	1	22	1	0	0	0	0	1	0	0	0	17354	1232	43	4	1233	4	WDR78	1	67306240	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	10047822	67306240	181944381	4	19161											
LPHN2	23266	broad.mit.edu	37	chr1	82372880	82372880	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagatggagaatacagactgCtacctccccgatgccttcaa	12	8	8	13	1	1	3	1	0	0	3	2	5	2	3	4	1	4	1	4	1	4	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:82372880C>T	uc001dit.3	+	4	433	c.252C>T	c.(250-252)TGC>TGT	p.C84C	LPHN2_uc001dis.2_Silent_p.C84C|LPHN2_uc001diu.2_Silent_p.C84C|LPHN2_uc001div.2_Silent_p.C84C|LPHN2_uc009wcd.2_Silent_p.C84C	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	84	Extracellular (Potential).|SUEL-type lectin.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		ATACAGACTGCTACCTCCCCG	0.408													65	138					0	0	0.01441	0	0		T	82372880	T	T	82372880	2	4	22	1	0	0	0	0	0	0	0	1	8934	805	28	2		2	LPHN2	1	82372880	Silent	SNP	C	TCGA-BR-4366-01A-01D-1158-08	15066640	82372880	166877741	5	19162											
SLC44A3	126969	broad.mit.edu	37	chr1	95357932	95357932	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtccctctgttattggtagcTttttttgcctacttagtagc	5	19	8	9	0	1	0	0	0	1	0	2	0	2	0	2	1	4	4	2	1	5	9			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:95357932T>C	uc001dqv.3	+	14	1823	c.1716T>C	c.(1714-1716)GCT>GCC	p.A572A	SLC44A3_uc001dqx.3_Silent_p.A571A|SLC44A3_uc010otq.1_Silent_p.A504A|SLC44A3_uc010otr.1_Silent_p.A536A|SLC44A3_uc001dqw.3_Silent_p.A524A|SLC44A3_uc010ots.1_Silent_p.A492A|SLC44A3_uc009wds.2_Silent_p.A475A|SLC44A3_uc010ott.1_Silent_p.A491A	NM_001114106	NP_001107578	Q8N4M1	CTL3_HUMAN	solute carrier family 44, member 3 isoform 1	572	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			kidney(1)	1		all_lung(203;0.000712)|Lung NSC(277;0.00316)		all cancers(265;0.039)|Epithelial(280;0.124)	Choline(DB00122)	TATTGGTAGCTTTTTTTGCCT	0.423													10	355					0	0	0.013537	0	0		C	95357932	C	C	95357932	2	2	22	1	0	0	0	0	0	0	0	1	14662	1596	56	3		3	SLC44A3	1	95357932	Silent	SNP	T	TCGA-BR-4366-01A-01D-1158-08	12985052	95357932	153892689	6	19163											
DPYD	1806	broad.mit.edu	37	chr1	98039509	98039509	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcagaaattcacacttttcTtccttagcaagttccatcta	11	14	5	11	0	3	1	1	0	2	1	5	1	5	1	2	1	1	3	2	1	4	7			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:98039509T>A	uc001drv.2	-	11	1283	c.1146A>T	c.(1144-1146)GAA>GAT	p.E382D		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	382					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	CACACTTTTCTTCCTTAGCAA	0.368													38	60					0	0	0.006999	0	0		A	98039509	A	A	98039509	3	1	22	1	0	0	0	0	1	0	0	0	4751	1606	56	5	1983	5	DPYD	1	98039509	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	2681577	98039509	151211112	7	19164											
CELSR2	1952	broad.mit.edu	37	chr1	109806965	109806965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagccggcggtgtggcccGtggctttcggggctgtttgc	1	10	18	12	4	0	0	0	0	0	0	1	0	0	0	3	6	2	3	3	6	0	2	rs142723500		TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:109806965G>A	uc001dxa.3	+	10	5328	c.5267G>A	c.(5266-5268)CGT>CAT	p.R1756H		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	1756	Extracellular (Potential).|Laminin G-like 2.				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		GGTGTGGCCCGTGGCTTTCGG	0.672											OREG0013632	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	116					0	0	0.001984	0	0		A	109806965	A	A	109806965	3	1	22	1	0	0	0	0	1	0	0	0	3225	1145	40	1	5305	1	CELSR2	1	109806965	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	11767456	109806965	139443656	8	19165											
OVGP1	5016	broad.mit.edu	37	chr1	111957318	111957318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacccatcctggggtgagtgCccacctcagaagtcaaattc	10	9	9	13	0	2	2	2	1	0	1	4	2	3	2	4	2	2	0	4	2	3	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:111957318C>T	uc001eba.2	-	11	1861	c.1805G>A	c.(1804-1806)GGC>GAC	p.G602D	OVGP1_uc001eaz.2_Missense_Mutation_p.G564D|OVGP1_uc010owb.1_Missense_Mutation_p.G250D	NM_002557	NP_002548	Q12889	OVGP1_HUMAN	oviductal glycoprotein 1 precursor	602					chitin catabolic process|female pregnancy|single fertilization	transport vesicle	cation binding|chitinase activity			ovary(4)|large_intestine(1)	5		all_cancers(81;8.18e-06)|all_epithelial(167;5.64e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000302)		Lung(183;0.0253)|Colorectal(144;0.033)|all cancers(265;0.0552)|Epithelial(280;0.0802)|COAD - Colon adenocarcinoma(174;0.123)|LUSC - Lung squamous cell carcinoma(189;0.14)		GGGGTGAGTGCCCACCTCAGA	0.537													48	92					0	0	0.013114	0	0		T	111957318	T	T	111957318	3	4	22	1	0	0	0	0	1	0	0	0	11344	739	26	2	235	2	OVGP1	1	111957318	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	2150353	111957318	137293303	9	19166											
MOV10	4343	broad.mit.edu	37	chr1	113239107	113239107	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacttcacacacatcttcatCgatgaggctggccactgcat	10	10	7	14	1	3	1	2	1	1	0	4	2	3	1	1	2	1	2	1	2	0	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:113239107C>T	uc001eck.2	+	13	2202	c.1932C>T	c.(1930-1932)ATC>ATT	p.I644I	MOV10_uc001ecl.2_Intron|MOV10_uc001ecn.2_Silent_p.I644I|MOV10_uc001ecm.2_Silent_p.I584I|MOV10_uc009wgj.1_3'UTR	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	644					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		ACATCTTCATCGATGAGGCTG	0.567													6	210					0	0	0.006214	0	0		T	113239107	T	T	113239107	2	4	22	1	0	0	0	0	0	0	0	1	9736	874	31	1		1	MOV10	1	113239107	Silent	SNP	C	TCGA-BR-4366-01A-01D-1158-08	1281789	113239107	136011514	10	19167											
FMO5	2330	broad.mit.edu	37	chr1	146658693	146658693	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtgcagggtcccagtaatAagtgtaatgccagcttgggg	10	9	15	7	0	0	0	0	0	0	0	1	1	1	0	2	3	3	4	2	3	3	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:146658693A>G	uc001epi.2	-	9	1777	c.1388T>C	c.(1387-1389)TTA>TCA	p.L463S	FMO5_uc001eph.3_Intron|FMO5_uc001epj.2_3'UTR	NM_001461	NP_001452	P49326	FMO5_HUMAN	flavin containing monooxygenase 5 isoform 1	463						integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			ovary(3)	3	all_hematologic(923;0.0487)					TCCCAGTAATAAGTGTAATGC	0.532													80	186					0	0	0.01441	0	0		G	146658693	G	G	146658693	3	3	22	1	0	0	0	0	1	0	0	0	5972	372	13	3	360	3	FMO5	1	146658693	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	33419586	146658693	102591928	11	19168											
SPTA1	6708	broad.mit.edu	37	chr1	158585084	158585084	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggtcccactgctgagccaatCcaatggtgctgtatttgata	9	12	10	10	0	0	2	0	2	0	0	2	2	2	2	3	2	3	3	3	2	4	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:158585084C>G	uc001fst.1	-	48	6909	c.6710G>C	c.(6709-6711)GGA>GCA	p.G2237A		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2237	Spectrin 21.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CTGAGCCAATCCAATGGTGCT	0.527													72	578					0	0	0.01441	0	0		G	158585084	G	G	158585084	3	3	22	1	0	0	0	0	1	0	0	0	15141	855	30	5	569	5	SPTA1	1	158585084	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	11926391	158585084	90665537	12	19169											
OR10J5	127385	broad.mit.edu	37	chr1	159505686	159505686	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgatgttagcaaccagagTtaaaatgtagacagttagga	16	10	11	4	0	0	3	0	1	0	2	0	5	0	4	1	1	2	5	1	1	6	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:159505686T>G	uc010piw.1	-	1	112	c.112A>C	c.(112-114)ACT>CCT	p.T38P		NM_001004469	NP_001004469	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_hematologic(112;0.0429)					GCAACCAGAGTTAAAATGTAG	0.398													59	386					0	0	0.01441	0	0		G	159505686	G	G	159505686	3	3	22	1	0	0	0	0	1	0	0	0	10931	1725	60	5	819	5	OR10J5	1	159505686	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	920602	159505686	89744935	13	19170											
OLFML2B	25903	broad.mit.edu	37	chr1	161967674	161967674	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtggggctggcaggggttGttccccacccagcaggagca	6	6	17	12	1	0	0	0	0	0	0	1	1	1	1	3	6	2	6	3	6	0	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:161967674G>T	uc001gbu.2	-	6	1839	c.1415C>A	c.(1414-1416)ACA>AAA	p.T472K	OLFML2B_uc010pkq.1_Missense_Mutation_p.T473K	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	472										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			GGCAGGGGTTGTTCCCCACCC	0.567													117	356					5.78353e-53	6.81631e-53	0.01441	1	0		T	161967674	T	T	161967674	3	4	22	1	0	0	0	0	1	0	0	0	10877	1377	48	5	849	5	OLFML2B	1	161967674	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	2461988	161967674	87282947	14	19171											
SLC19A2	10560	broad.mit.edu	37	chr1	169446719	169446719	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaaagtggcacttcgacAgtaacttgtgactttctggt	10	12	9	10	1	1	1	0	1	1	0	2	2	1	1	1	2	1	2	1	2	2	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:169446719A>C	uc001gge.3	-	2	685	c.481T>G	c.(481-483)TGT>GGT	p.C161G	SLC19A2_uc001ggf.3_Intron	NM_006996	NP_008927	O60779	S19A2_HUMAN	solute carrier family 19, member 2	161	Cytoplasmic (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|folic acid transporter activity|reduced folate carrier activity|thiamine uptake transmembrane transporter activity				0	all_hematologic(923;0.208)					GCACTTCGACAGTAACTTGTG	0.483													27	252					0	0	0.00632	0	0		C	169446719	C	C	169446719	3	2	22	1	0	0	0	0	1	0	0	0	14454	188	7	5	1032	5	SLC19A2	1	169446719	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	7479045	169446719	79803902	15	19172											
FMO1	2326	broad.mit.edu	37	chr1	171251385	171251385	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatctgcaaaagccaaccCtggccattattggcctcatc	11	9	6	15	0	2	0	1	0	1	0	3	0	2	0	4	2	3	1	4	2	4	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:171251385C>T	uc009wvz.2	+	7	1232	c.1096C>T	c.(1096-1098)CTG>TTG	p.L366L	FMO1_uc010pme.1_Silent_p.L303L|FMO1_uc001ghl.2_Silent_p.L366L|FMO1_uc001ghm.2_Silent_p.L366L|FMO1_uc001ghn.2_Silent_p.L366L	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	366					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AAAGCCAACCCTGGCCATTAT	0.473													58	262					0	0	0.01441	0	0		T	171251385	T	T	171251385	2	4	22	1	0	0	0	0	0	0	0	1	5968	680	24	4		4	FMO1	1	171251385	Silent	SNP	C	TCGA-BR-4366-01A-01D-1158-08	1804666	171251385	77999236	16	19173											
HMCN1	83872	broad.mit.edu	37	chr1	185959498	185959498	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaagaggtaacacttccAtgtgaagtgaagagcttacc	13	8	13	7	0	0	4	0	2	0	2	1	5	1	5	2	3	3	2	2	3	5	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:185959498A>G	uc001grq.1	+	22	3529	c.3300A>G	c.(3298-3300)CCA>CCG	p.P1100P	HMCN1_uc001grr.1_Silent_p.P441P	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1100	Ig-like C2-type 8.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TAACACTTCCATGTGAAGTGA	0.483													57	313					0	0	0.01441	0	0		G	185959498	G	G	185959498	2	3	22	1	0	0	0	0	0	0	0	1	7236	204	8	3		3	HMCN1	1	185959498	Silent	SNP	A	TCGA-BR-4366-01A-01D-1158-08	14708113	185959498	63291123	17	19174											
PRG4	10216	broad.mit.edu	37	chr1	186276189	186276189	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaagaagcctgccccaacTacccccaaggagcctgcacc	11	3	7	20	0	0	1	0	0	0	1	0	2	0	2	8	1	6	1	8	1	5	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:186276189T>C	uc001gru.3	+	7	1389	c.1338T>C	c.(1336-1338)ACT>ACC	p.T446T	PRG4_uc001grt.3_Silent_p.T405T|PRG4_uc009wyl.2_Silent_p.T353T|PRG4_uc009wym.2_Silent_p.T312T|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	446	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|13.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CTGCCCCAACTACCCCCAAGG	0.657													4	139					0	0	0.001984	0	0		C	186276189	C	C	186276189	2	2	22	1	0	0	0	0	0	0	0	1	12503	1509	53	3		3	PRG4	1	186276189	Silent	SNP	T	TCGA-BR-4366-01A-01D-1158-08	316691	186276189	62974432	18	19175											
MARK1	4139	broad.mit.edu	37	chr1	220825398	220825398	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgctgtcccctcagcaCgaccccgccaccagaagtcc	7	6	7	21	2	2	1	1	0	1	1	4	2	4	1	8	0	2	2	8	0	1	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:220825398C>T	uc001hmn.3	+	15	2239	c.1642C>T	c.(1642-1644)CGA>TGA	p.R548*	MARK1_uc009xdw.2_Nonsense_Mutation_p.R548*|MARK1_uc010pun.1_Nonsense_Mutation_p.R548*|MARK1_uc001hmm.3_Nonsense_Mutation_p.R526*	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1	548					intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		CCCCTCAGCACGACCCCGCCA	0.512													124	29					0	0	0.01441	0	0		T	220825398	T	T	220825398	4	4	22	1	0	0	0	0	0	1	0	0	9330	528	19	1	1700	1	MARK1	1	220825398	Nonsense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	34549209	220825398	28425223	19	19176											
OR2G6	391211	broad.mit.edu	37	chr1	248685614	248685614	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctcctatggctttatcactCaagctgtgttaaggataaaa	12	14	7	8	0	3	0	2	0	1	0	4	1	3	1	1	2	1	3	1	2	6	5			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr1:248685614C>G	uc001ien.1	+	1	667	c.667C>G	c.(667-669)CAA>GAA	p.Q223E		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	223	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTTTATCACTCAAGCTGTGTT	0.468													30	159					0	0	0.012213	0	0		G	248685614	G	G	248685614	3	3	22	1	0	0	0	0	1	0	0	0	11019	827	29	5	669	5	OR2G6	1	248685614	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	27860216	248685614	565007	20	19177											
SPTBN1	6711	broad.mit.edu	37	chr2	54891664	54891664	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acgagctctaaagagtccagCcccatcccctccccgacctc	9	6	6	20	2	1	1	0	0	1	1	5	3	4	1	8	0	2	1	8	0	2	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr2:54891664C>A	uc002rxu.2	+	33	6744	c.6495C>A	c.(6493-6495)AGC>AGA	p.S2165R	SPTBN1_uc010you.1_Missense_Mutation_p.S155R	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	2165					actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			AAGAGTCCAGCCCCATCCCCT	0.597													7	387					8.12818e-05	8.81507e-05	0.001984	1	0		A	54891664	A	A	54891664	3	1	22	1	0	0	0	0	1	0	0	0	15144	738	26	5	6821	5	SPTBN1	2	54891664	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08		54891664	188307709	21	19178											
FER1L5	90342	broad.mit.edu	37	chr2	97361584	97361584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggccaacatcgacttcCtccagccctacttctgtgac	8	9	7	17	1	1	1	0	1	1	0	4	2	3	1	5	1	3	0	5	1	2	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr2:97361584C>T	uc010fia.2	+	35	4081	c.4081C>T	c.(4081-4083)CTC>TTC	p.L1361F	FER1L5_uc002sws.3_Missense_Mutation_p.L79F|FER1L5_uc010fib.1_RNA|FER1L5_uc002swt.3_Missense_Mutation_p.L79F|FER1L5_uc010yus.1_Missense_Mutation_p.L78F	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1361						integral to membrane				ovary(1)	1						CATCGACTTCCTCCAGCCCTA	0.617													9	16					0	0	0.008291	0	0		T	97361584	T	T	97361584	3	4	22	1	0	0	0	0	1	0	0	0	5828	681	24	4	4219	4	FER1L5	2	97361584	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	42469920	97361584	145837789	22	19179											
SH3RF3	344558	broad.mit.edu	37	chr2	110053479	110053479	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccactgccaccaggcccGccctgcccatcaccactccc	6	5	7	23	1	1	0	1	0	0	0	2	0	2	0	8	2	2	0	8	2	0	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr2:110053479G>A	uc010ywt.1	+	7	1705	c.1705G>A	c.(1705-1707)GCC>ACC	p.A569T		NM_001099289	NP_001092759	Q8TEJ3	SH3R3_HUMAN	SH3 domain containing ring finger 3	569							zinc ion binding			ovary(1)	1						CACCAGGCCCGCCCTGCCCAT	0.657													26	42					0	0	0.005524	0	0		A	110053479	A	A	110053479	3	1	22	1	0	0	0	0	1	0	0	0	14285	1087	38	1	1731	1	SH3RF3	2	110053479	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	12691895	110053479	133145894	23	19180											
ZC3H6	376940	broad.mit.edu	37	chr2	113088706	113088706	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caacaaccttccacagaactCagcactcctactgatccaag	14	7	4	16	0	1	2	1	1	0	1	4	2	4	2	4	0	5	1	4	0	5	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr2:113088706C>G	uc002thq.1	+	12	2605	c.2211C>G	c.(2209-2211)CTC>CTG	p.L737L		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	737							nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						CCACAGAACTCAGCACTCCTA	0.408													17	27					0	0	0.006122	0	0		G	113088706	G	G	113088706	2	3	22	1	0	0	0	0	0	0	0	1	17596	813	29	5		5	ZC3H6	2	113088706	Silent	SNP	C	TCGA-BR-4366-01A-01D-1158-08	3035227	113088706	130110667	24	19181											
LRP1B	53353	broad.mit.edu	37	chr2	141272221	141272221	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gacagaagatacacaacttaCcacaaatgctgtcactttca	16	9	5	11	0	2	2	2	0	0	2	2	3	2	2	1	0	4	1	1	0	5	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr2:141272221C>T	uc002tvj.1	-	51	9241	c.8269_splice	c.e51+1	p.G2757_splice		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACACAACTTACCACAAATGCT	0.318										TSP Lung(27;0.18)			57	109					0	0	0.01441	0	0		T	141272221	T	T	141272221	5	4	22	1	0	0	0	0	0	0	1	0	8973	521	18	4	5693	4	LRP1B	2	141272221	Splice_Site	SNP	C	TCGA-BR-4366-01A-01D-1158-08	28183515	141272221	101927152	25	19182											
LRP1B	53353	broad.mit.edu	37	chr2	141625336	141625336	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaaagggatgggaaaggtAttcatgacctcggatgattt	13	10	13	5	1	1	2	1	2	0	0	2	5	1	5	1	4	1	2	1	4	3	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr2:141625336A>T	uc002tvj.1	-	27	5374	c.4402T>A	c.(4402-4404)TAC>AAC	p.Y1468N	LRP1B_uc010fnl.1_Missense_Mutation_p.Y650N	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1468	Extracellular (Potential).|LDL-receptor class B 12.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TGGGAAAGGTATTCATGACCT	0.423										TSP Lung(27;0.18)			58	101					0	0	0.01441	0	0		T	141625336	T	T	141625336	3	4	22	1	0	0	0	0	1	0	0	0	8973	449	16	5	9657	5	LRP1B	2	141625336	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	353115	141625336	101574037	26	19183											
ARHGAP15	55843	broad.mit.edu	37	chr2	144245037	144245037	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgaagaccttccctgaaaActctgcaagaaaaaggactt	15	7	7	12	1	1	3	0	1	1	2	2	5	2	4	3	1	2	1	3	1	6	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr2:144245037A>C	uc002tvm.3	+	9	950	c.799A>C	c.(799-801)ACT>CCT	p.T267P	ARHGAP15_uc002tvn.2_Missense_Mutation_p.T33P	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	267					regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		TTCCCTGAAAACTCTGCAAGA	0.373													52	101					0	0	0.01441	0	0		C	144245037	C	C	144245037	3	2	22	1	0	0	0	0	1	0	0	0	866	43	2	5	829	5	ARHGAP15	2	144245037	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	2619701	144245037	98954336	27	19184											
ZEB2	9839	broad.mit.edu	37	chr2	145147197	145147197	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcgaactcctcgtcgcCatcctgtctgcccagcttcc	4	11	6	20	3	1	0	0	0	1	0	8	1	5	0	6	0	3	1	6	0	1	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr2:145147197C>A	uc002tvu.2	-	10	3946	c.3466G>T	c.(3466-3468)GGC>TGC	p.G1156C	ZEB2_uc002tvv.2_Missense_Mutation_p.G1150C|ZEB2_uc010zbm.1_Missense_Mutation_p.G1127C|ZEB2_uc010fnp.2_Intron	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	1156	Glu-rich (acidic).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TCCTCGTCGCCATCCTGTCTG	0.532													111	242					2.32265e-44	2.72352e-44	0.01441	1	0		A	145147197	A	A	145147197	3	1	22	1	0	0	0	0	1	0	0	0	17649	594	21	5	182	5	ZEB2	2	145147197	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	902160	145147197	98052176	28	19185											
DNAH7	56171	broad.mit.edu	37	chr2	196636411	196636411	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttttgaatatttacgcaCgaatctcttatggtcttcag	9	17	7	8	2	3	1	1	1	2	0	4	2	3	1	0	1	1	2	0	1	5	7			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr2:196636411C>T	uc002utj.3	-	61	11507	c.11406G>A	c.(11404-11406)TCG>TCA	p.S3802S	DNAH7_uc002uti.3_Silent_p.S285S	NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3802					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TATTTACGCACGAATCTCTTA	0.328													93	186					0	0	0.01441	0	0		T	196636411	T	T	196636411	2	4	22	1	0	0	0	0	0	0	0	1	4612	523	19	1		1	DNAH7	2	196636411	Silent	SNP	C	TCGA-BR-4366-01A-01D-1158-08	51489214	196636411	46562962	29	19186											
GTF3C3	9330	broad.mit.edu	37	chr2	197639881	197639881	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actcttggtcattgctgtctGatattttgtctctcgatact	6	19	7	9	1	4	1	1	1	3	0	6	2	4	1	0	1	2	1	0	1	2	6			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr2:197639881G>C	uc002uts.2	-	13	1880	c.1790C>G	c.(1789-1791)TCA>TGA	p.S597*	GTF3C3_uc010zgu.1_Nonsense_Mutation_p.S568*	NM_012086	NP_036218	Q9Y5Q9	TF3C3_HUMAN	general transcription factor IIIC, polypeptide	597						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(3)|breast(3)|pancreas(1)	7						ATTGCTGTCTGATATTTTGTC	0.348													39	48					0	0	0.006999	0	0		C	197639881	C	C	197639881	4	2	22	1	0	0	0	0	0	1	0	0	6890	1294	45	5	894	5	GTF3C3	2	197639881	Nonsense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	1003470	197639881	45559492	30	19187											
ALPP	250	broad.mit.edu	37	chr2	233243531	233243531	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatgctggggccctgcatgCtgctgctgctgctgctgctg	3	11	14	13	0	0	0	0	0	0	0	0	0	0	0	1	2	9	9	1	2	0	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr2:233243531C>G	uc002vsq.2	+	1	184	c.19C>G	c.(19-21)CTG>GTG	p.L7V	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	7						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		GCCCTGCAtgctgctgctgct	0.542													25	34					0	0	0.005524	0	0		G	233243531	G	G	233243531	3	3	22	1	0	0	0	0	1	0	0	0	548	796	28	5	21	5	ALPP	2	233243531	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	35603650	233243531	9955842	31	19188											
CNTN6	27255	broad.mit.edu	37	chr3	1394007	1394007	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatgatgtattttctttttaGaatatttctcttggaggatg	10	20	8	3	0	2	2	0	1	2	1	3	4	2	4	0	2	0	1	0	2	5	9			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:1394007G>C	uc003boz.2	+	12	1632	c.1365_splice	c.e12-1	p.R455_splice	CNTN6_uc011asj.1_Splice_Site_p.R383_splice|CNTN6_uc003bpa.2_Splice_Site_p.R455_splice	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor						axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TTTCTTTTTAGAATATTTCTC	0.328													34	34					0	0	0.003271	0	0		C	1394007	C	C	1394007	5	2	22	1	0	0	0	0	0	0	1	0	3648	956	33	5	1406	5	CNTN6	3	1394007	Splice_Site	SNP	G	TCGA-BR-4366-01A-01D-1158-08		1394007	196628423	32	19189											
CNTN6	27255	broad.mit.edu	37	chr3	1424781	1424781	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcccactgtctcccttTgaagtcaaagtgggtgtgta	9	13	9	10	0	3	1	2	1	1	0	5	1	4	1	2	1	0	1	2	1	3	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:1424781T>G	uc003boz.2	+	18	2589	c.2322T>G	c.(2320-2322)TTT>TTG	p.F774L	CNTN6_uc011asj.1_Missense_Mutation_p.F702L|CNTN6_uc003bpa.2_Missense_Mutation_p.F774L	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	774	Fibronectin type-III 2.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TGTCTCCCTTTGAAGTCAAAG	0.468													49	59					0	0	0.01441	0	0		G	1424781	G	G	1424781	3	3	22	1	0	0	0	0	1	0	0	0	3648	1809	63	5	2388	5	CNTN6	3	1424781	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	30774	1424781	196597649	33	19190											
SLC25A38	54977	broad.mit.edu	37	chr3	39433101	39433101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctatcactgtaatcaagaCgcgctatgaggtgagttcaa	13	10	9	9	2	3	3	3	2	0	1	3	3	3	3	1	1	0	3	1	1	5	4	rs143865753		TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:39433101C>T	uc003cjo.2	+	4	847	c.446C>T	c.(445-447)ACG>ATG	p.T149M		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	149	Solcar 2.				erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		GTAATCAAGACGCGCTATGAG	0.562													86	145					0	0	0.01441	0	0		T	39433101	T	T	39433101	3	4	22	1	0	0	0	0	1	0	0	0	14527	536	19	1	460	1	SLC25A38	3	39433101	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	38008320	39433101	158589329	34	19191											
P4HTM	54681	broad.mit.edu	37	chr3	49027828	49027828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggcgaggacgcaccggtgCgtccgctgtgcaagccccgc	6	4	15	16	7	0	0	0	0	0	0	1	2	1	1	4	3	3	3	4	3	1	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:49027828C>T	uc003cvg.2	+	1	488	c.139C>T	c.(139-141)CGT>TGT	p.R47C	P4HTM_uc003cvh.2_Missense_Mutation_p.R47C	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	47	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	CGCACCGGTGCGTCCGCTGTG	0.731													6	8					0	0	0.010729	0	0		T	49027828	T	T	49027828	3	4	22	1	0	0	0	0	1	0	0	0	11379	768	27	1	141	1	P4HTM	3	49027828	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	9594727	49027828	148994602	35	19192											
LAMB2	3913	broad.mit.edu	37	chr3	49160188	49160188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcttgaagttcctggttggCctgttccacctgtcccctgg	3	15	10	13	0	1	1	0	1	1	0	4	1	4	1	6	3	0	3	6	3	1	5			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:49160188C>T	uc003cwe.2	-	27	4821	c.4522G>A	c.(4522-4524)GCC>ACC	p.A1508T	USP19_uc003cvz.3_5'Flank|USP19_uc011bcg.1_5'Flank|USP19_uc003cwb.2_5'Flank|USP19_uc003cwd.1_5'Flank|USP19_uc011bch.1_5'Flank|USP19_uc011bci.1_5'Flank	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1508	Potential.|Domain I.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TCCTGGTTGGCCTGTTCCACC	0.597													4	212					0	0	0.000602	0	0		T	49160188	T	T	49160188	3	4	22	1	0	0	0	0	1	0	0	0	8627	739	26	2	898	2	LAMB2	3	49160188	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	132360	49160188	148862242	36	19193											
TMEM115	11070	broad.mit.edu	37	chr3	50396054	50396054	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatggtttgcttgagtgcCaccaggacgccacctaggaa	9	8	11	13	1	0	1	0	1	0	0	0	3	0	3	5	3	2	2	5	3	2	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:50396054C>G	uc003dan.1	-	1	886	c.441G>C	c.(439-441)GTG>GTC	p.V147V		NM_007024	NP_008955	Q12893	TM115_HUMAN	PL6 protein	147	Helical; (Potential).				negative regulation of cell proliferation	Golgi apparatus|integral to membrane|nucleus					0				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GCTTGAGTGCCACCAGGACGC	0.517													25	39					0	0	0.007291	0	0		G	50396054	G	G	50396054	2	3	22	1	0	0	0	0	0	0	0	1	16054	581	21	5		5	TMEM115	3	50396054	Silent	SNP	C	TCGA-BR-4366-01A-01D-1158-08	1235866	50396054	147626376	37	19194											
HTR1F	3355	broad.mit.edu	37	chr3	88040851	88040851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaagaattagttgttaatGtctgtgacaaatgtaaaatt	17	15	7	2	0	1	2	0	1	1	1	1	2	1	2	0	0	0	3	0	0	8	6			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:88040851G>A	uc003dqr.2	+	2	1110	c.952G>A	c.(952-954)GTC>ATC	p.V318I		NM_000866	NP_000857	P30939	5HT1F_HUMAN	5-hydroxytryptamine (serotonin) receptor 1F	318	Extracellular (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	serotonin binding|serotonin receptor activity			ovary(3)	3	all_cancers(8;0.147)	Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00664)	Eletriptan(DB00216)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Zolmitriptan(DB00315)	AGTTGTTAATGTCTGTGACAA	0.348													36	37					0	0	0.013726	0	0		A	88040851	A	A	88040851	3	1	22	1	0	0	0	0	1	0	0	0	7456	1377	48	4	954	4	HTR1F	3	88040851	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	37644797	88040851	109981579	38	19195											
DZIP3	9666	broad.mit.edu	37	chr3	108380769	108380769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	actatggagaaactgaaaagGaaaggcttgctcgtcaaagg	16	7	12	6	1	1	2	1	1	0	1	2	4	1	3	0	4	2	2	0	4	6	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:108380769G>A	uc003dxd.2	+	20	2667	c.2245G>A	c.(2245-2247)GAA>AAA	p.E749K	DZIP3_uc003dxf.1_Missense_Mutation_p.E749K|DZIP3_uc011bhm.1_Missense_Mutation_p.E200K	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	749					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						AACTGAAAAGGAAAGGCTTGC	0.348													29	60					0	0	0.010818	0	0		A	108380769	A	A	108380769	3	1	22	1	0	0	0	0	1	0	0	0	4871	1175	41	4	2319	4	DZIP3	3	108380769	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	20339918	108380769	89641661	39	19196											
ITGB5	3693	broad.mit.edu	37	chr3	124527925	124527925	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggataggataccccatCttggcaggtagcagtaaaga	14	7	11	9	0	1	1	0	0	1	1	1	3	1	3	3	4	2	4	3	4	5	5			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:124527925C>A	uc003eho.2	-	9	1504	c.1207G>T	c.(1207-1209)GAT>TAT	p.D403Y	ITGB5_uc010hrx.2_Intron	NM_002213	NP_002204	P18084	ITB5_HUMAN	integrin, beta 5 precursor	403	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)		GATACCCCATCTTGGCAGGTA	0.463													64	110					7.81431e-29	8.98062e-29	0.01441	1	0		A	124527925	A	A	124527925	3	1	22	1	0	0	0	0	1	0	0	0	7914	913	32	5	1220	5	ITGB5	3	124527925	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	16147156	124527925	73494505	40	19197											
COL6A6	131873	broad.mit.edu	37	chr3	130381114	130381114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taaacctgaccacagttatgGtgtgaagtttgtgaagtcct	11	13	10	7	0	0	3	0	3	0	0	1	3	1	3	3	1	1	2	3	1	5	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:130381114G>A	uc010htl.2	+	34	6495	c.6464G>A	c.(6463-6465)GGT>GAT	p.G2155D	COL6A6_uc003eni.3_Missense_Mutation_p.G254D	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	2155	VWFA 9.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CACAGTTATGGTGTGAAGTTT	0.418													127	220					0	0	0.01441	0	0		A	130381114	A	A	130381114	3	1	22	1	0	0	0	0	1	0	0	0	3706	1261	44	4	6598	4	COL6A6	3	130381114	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	5853189	130381114	67641316	41	19198											
STAG1	10274	broad.mit.edu	37	chr3	136342064	136342064	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgctgccagcatcggaaTgggcagtagtttcattagtt	8	12	12	9	2	1	0	1	0	0	0	3	1	1	1	1	2	2	7	1	2	3	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:136342064T>C	uc003era.1	-	3	348	c.56A>G	c.(55-57)CAT>CGT	p.H19R	STAG1_uc003erb.1_Missense_Mutation_p.H19R|STAG1_uc003erc.1_5'UTR|STAG1_uc010hua.1_5'UTR|STAG1_uc003ere.2_Missense_Mutation_p.H19R	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	19					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						AGCATCGGAATGGGCAGTAGT	0.388													108	166					0	0	0.01441	0	0		C	136342064	C	C	136342064	3	2	22	1	0	0	0	0	1	0	0	0	15267	1464	51	3	3848	3	STAG1	3	136342064	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	5960950	136342064	61680366	42	19199											
ATP1B3	483	broad.mit.edu	37	chr3	141644421	141644421	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaggtcagctttgctcctAacaacactgggaaagaagta	13	10	9	9	0	2	1	2	0	0	1	3	2	3	2	1	2	4	3	1	2	5	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:141644421A>G	uc003eug.1	+	7	892	c.718A>G	c.(718-720)AAC>GAC	p.N240D	ATP1B3_uc011bne.1_RNA|ATP1B3_uc003euh.1_Missense_Mutation_p.N226D|ATP1B3_uc003eui.1_RNA	NM_001679	NP_001670	P54709	AT1B3_HUMAN	Na+/K+ -ATPase beta 3 subunit	240	Extracellular (Potential).				ATP biosynthetic process|blood coagulation|leukocyte migration	melanosome|sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity				0						CTTTGCTCCTAACAACACTGG	0.388													131	194					0	0	0.01441	0	0		G	141644421	G	G	141644421	3	3	22	1	0	0	0	0	1	0	0	0	1135	362	13	3	744	3	ATP1B3	3	141644421	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	5302357	141644421	56378009	43	19200											
PHC3	80012	broad.mit.edu	37	chr3	169840471	169840471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggggttctatccatcCggacacattcatctgactct	7	13	10	11	1	4	1	1	1	3	0	6	2	6	2	2	4	0	1	2	4	1	3	rs146149780	by1000genomes	TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr3:169840471C>T	uc010hws.1	-	9	1878	c.1814G>A	c.(1813-1815)CGG>CAG	p.R605Q	PHC3_uc003fgl.2_Missense_Mutation_p.R617Q|PHC3_uc011bpq.1_Missense_Mutation_p.R564Q	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	605	Pro-rich.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			TCTATCCATCCGGACACATTC	0.433													45	119					0	0	0.01441	0	0		T	169840471	T	T	169840471	3	4	22	1	0	0	0	0	1	0	0	0	11837	652	23	1	1165	1	PHC3	3	169840471	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	28196050	169840471	28181959	44	19201											
IL8	3576	broad.mit.edu	37	chr4	74607379	74607379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagagtggaccacactgcgCcaacacagaaattatgtaag	15	7	10	9	1	0	2	0	1	0	2	0	4	0	3	2	1	2	1	2	1	4	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr4:74607379C>T	uc003hhe.2	+	2	286	c.185C>T	c.(184-186)GCC>GTC	p.A62V	IL8_uc011cbh.1_Missense_Mutation_p.A62V	NM_000584	NP_000575	P10145	IL8_HUMAN	interleukin 8 precursor	62					angiogenesis|calcium-mediated signaling|cell cycle arrest|cellular response to lipopolysaccharide|embryonic digestive tract development|G-protein coupled receptor protein signaling pathway|immune response|induction of positive chemotaxis|inflammatory response|negative regulation of cell proliferation|neutrophil activation|neutrophil chemotaxis|positive regulation of neutrophil chemotaxis|regulation of cell adhesion|regulation of retroviral genome replication	extracellular space|intracellular	chemokine activity|interleukin-8 receptor binding			ovary(2)	2	Breast(15;0.00102)		all cancers(17;0.00169)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)	LUSC - Lung squamous cell carcinoma(721;0.008)	Ketoprofen(DB01009)|Salbutamol(DB01001)|Simvastatin(DB00641)|Zileuton(DB00744)	CCACACTGCGCCAACACAGAA	0.318													19	46					0	0	0.008871	0	0		T	74607379	T	T	74607379	3	4	22	1	0	0	0	0	1	0	0	0	7722	739	26	2	191	2	IL8	4	74607379	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08		74607379	116546897	45	19202											
G3BP2	9908	broad.mit.edu	37	chr4	76570710	76570710	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccttggaggaggtcctctTccatcacgatcacgcatcat	8	10	8	15	2	4	0	3	0	1	0	6	3	6	2	4	3	0	1	4	3	0	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr4:76570710T>C	uc003hir.2	-	12	1518	c.1353A>G	c.(1351-1353)GGA>GGG	p.G451G	G3BP2_uc003his.2_Silent_p.G451G|G3BP2_uc003hit.2_Silent_p.G418G	NM_012297	NP_036429	Q9UN86	G3BP2_HUMAN	Ras-GTPase activating protein SH3 domain-binding	451	Gly-rich.				cytoplasmic sequestering of NF-kappaB|mRNA transport|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	GTPase activator activity|nucleotide binding|receptor signaling complex scaffold activity|RNA binding			breast(2)|central_nervous_system(1)	3			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			GAGGTCCTCTTCCATCACGAT	0.577													4	148					0	0	0.009096	0	0		C	76570710	C	C	76570710	2	2	22	1	0	0	0	0	0	0	0	1	6156	1770	62	3		3	G3BP2	4	76570710	Silent	SNP	T	TCGA-BR-4366-01A-01D-1158-08	1963331	76570710	114583566	46	19203											
PAQR3	152559	broad.mit.edu	37	chr4	79860320	79860320	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggggcaccaggaccggcCagtactggtagctgcccagc	8	4	14	15	2	0	0	0	0	0	0	0	1	0	1	4	5	4	4	4	5	2	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr4:79860320C>T	uc003hlp.1	-	1	263	c.59G>A	c.(58-60)TGG>TAG	p.W20*	PAQR3_uc003hlm.2_RNA|PAQR3_uc003hln.2_RNA|PAQR3_uc003hlq.1_5'UTR	NM_001040202	NP_001035292	Q6TCH7	PAQR3_HUMAN	progestin and adipoQ receptor family member III	20	Cytoplasmic (Potential).					Golgi membrane|integral to membrane	receptor activity				0						CAGGACCGGCCAGTACTGGTA	0.667													60	27					0	0	0.01441	0	0		T	79860320	T	T	79860320	4	4	22	1	0	0	0	0	0	1	0	0	11455	595	21	4	900	4	PAQR3	4	79860320	Nonsense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	3289610	79860320	111293956	47	19204											
NAA11	84779	broad.mit.edu	37	chr4	80246965	80246965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttcatctggtagttctcagGaaggcaaaggaggttgcagt	10	12	13	6	0	3	0	2	0	2	0	4	2	3	2	0	5	1	5	0	5	3	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr4:80246965G>A	uc003hlt.3	-	1	207	c.67C>T	c.(67-69)CCT>TCT	p.P23S		NM_032693	NP_116082	Q9BSU3	NAA11_HUMAN	alpha-N-acetyltransferase 1B	23	Interaction with NAA15 (By similarity).|N-acetyltransferase.					cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2						TAGTTCTCAGGAAGGCAAAGG	0.498													5	64					0	0	0.000602	0	0		A	80246965	A	A	80246965	3	1	22	1	0	0	0	0	1	0	0	0	10135	1174	41	4	626	4	NAA11	4	80246965	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	386645	80246965	110907311	48	19205											
PRSS12	8492	broad.mit.edu	37	chr4	119252907	119252907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcagatcacttctgcatcgGcatcatcccattggtcatca	9	12	7	13	1	5	1	4	0	1	1	7	1	6	1	1	2	2	3	1	2	0	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr4:119252907G>A	uc003ica.1	-	4	982	c.935C>T	c.(934-936)GCC>GTC	p.A312V		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	312	SRCR 2.					membrane	scavenger receptor activity			skin(1)	1						TTCTGCATCGGCATCATCCCA	0.493													4	54					0	0	0.001168	0	0		A	119252907	A	A	119252907	3	1	22	1	0	0	0	0	1	0	0	0	12637	1203	42	2	1732	2	PRSS12	4	119252907	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	39005942	119252907	71901369	49	19206											
CTNND2	1501	broad.mit.edu	37	chr5	11098707	11098707	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttccagctccctgcagccaAgttctgcagggcgcctgccg	5	8	11	17	2	1	0	0	0	1	0	3	0	3	0	5	1	5	4	5	1	1	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr5:11098707A>C	uc003jfa.1	-	15	2762	c.2617T>G	c.(2617-2619)TTG>GTG	p.L873V	CTNND2_uc010itt.2_Missense_Mutation_p.L782V|CTNND2_uc011cmy.1_Missense_Mutation_p.L536V|CTNND2_uc011cmz.1_Missense_Mutation_p.L440V|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.L440V	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	873	ARM 7.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						CCTGCAGCCAAGTTCTGCAGG	0.493													6	199					0	0	0.004482	0	0		C	11098707	C	C	11098707	3	2	22	1	0	0	0	0	1	0	0	0	4023	69	3	5	1092	5	CTNND2	5	11098707	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08		11098707	169816553	50	19207											
RXFP3	51289	broad.mit.edu	37	chr5	33937955	33937955	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctgtgccaggtatacgcGttccctgtgagcgtgtgcct	4	13	12	12	3	0	1	0	1	0	0	2	1	2	1	4	1	4	2	4	1	2	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr5:33937955G>A	uc003jic.1	+	1	1467	c.1110G>A	c.(1108-1110)GCG>GCA	p.A370A		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	370	Helical; Name=7; (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						AGGTATACGCGTTCCCTGTGA	0.617													66	264					0	0	0.01441	0	0		A	33937955	A	A	33937955	2	1	22	1	0	0	0	0	0	0	0	1	13786	1132	40	1		1	RXFP3	5	33937955	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	22839248	33937955	146977305	51	19208											
LIFR	3977	broad.mit.edu	37	chr5	38510603	38510603	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttccaaatatgttatcttcGgttgtaaaaactacatttgt	12	17	6	6	1	1	0	0	0	1	0	3	0	2	0	1	1	2	4	1	1	7	8	rs61748202	byFrequency	TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr5:38510603G>A	uc010ive.1	-	7	1286	c.954C>T	c.(952-954)ACC>ACT	p.T318T	LIFR_uc003jli.2_Silent_p.T318T	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	318	Extracellular (Potential).				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					TGTTATCTTCGGTTGTAAAAA	0.348			T	PLAG1	salivary adenoma								35	134					0	0	0.003271	0	0		A	38510603	A	A	38510603	2	1	22	1	0	0	0	0	0	0	0	1	8796	1103	39	1		1	LIFR	5	38510603	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	4572648	38510603	142404657	52	19209											
FGF10	2255	broad.mit.edu	37	chr5	44388771	44388771	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaggcacaatgtgtcagtAtccatttccacattgtactg	10	13	8	10	0	1	1	1	1	0	0	3	1	3	1	2	1	1	3	2	1	3	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr5:44388771A>C	uc003jog.1	-	1	14	c.14T>G	c.(13-15)ATA>AGA	p.I5R		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	5					actin cytoskeleton reorganization|activation of MAPK activity|bud outgrowth involved in lung branching|ERK1 and ERK2 cascade|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|insulin receptor signaling pathway|lacrimal gland development|lung saccule development|mesonephros development|negative regulation of cell cycle arrest|positive regulation of ATPase activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of DNA repair|positive regulation of DNA replication|positive regulation of epithelial cell migration|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of ERK1 and ERK2 cascade|positive regulation of hair follicle cell proliferation|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of lymphocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of urothelial cell proliferation|protein localization at cell surface|radial glial cell differentiation|regulation of saliva secretion|response to protein stimulus|secretion by lung epithelial cell involved in lung growth|tear secretion|thymus development|urothelial cell proliferation	cell surface|extracellular space|nucleus|plasma membrane	chemoattractant activity|growth factor activity|heparin binding|type 2 fibroblast growth factor receptor binding			lung(3)	3	Lung NSC(6;1.12e-06)					ATGTGTCAGTATCCATTTCCA	0.517													25	149					0	0	0.005443	0	0		C	44388771	C	C	44388771	3	2	22	1	0	0	0	0	1	0	0	0	5853	449	16	5	624	5	FGF10	5	44388771	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	5878168	44388771	136526489	53	19210											
SNCAIP	9627	broad.mit.edu	37	chr5	121739511	121739511	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagtcacatcactcaagacGatcccagaactgtgccgaag	13	7	8	13	2	4	2	4	0	0	2	5	4	5	2	2	0	2	0	2	0	3	0	rs149915358	byFrequency	TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr5:121739511G>A	uc003ksw.1	+	3	287	c.81G>A	c.(79-81)ACG>ACA	p.T27T	SNCAIP_uc011cwl.1_5'UTR|SNCAIP_uc010jct.2_Silent_p.T27T|SNCAIP_uc003ksx.1_Silent_p.T74T|SNCAIP_uc003ksy.1_Missense_Mutation_p.R12Q|SNCAIP_uc003ksz.1_Missense_Mutation_p.R12Q|SNCAIP_uc010jcu.2_Missense_Mutation_p.R12Q|SNCAIP_uc011cwm.1_Missense_Mutation_p.R12Q|SNCAIP_uc003kta.1_Missense_Mutation_p.R10Q|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.R12Q|SNCAIP_uc010jcx.1_Silent_p.T27T	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	27					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		CACTCAAGACGATCCCAGAAC	0.453													123	157					0	0	0.01441	0	0		A	121739511	A	A	121739511	2	1	22	1	0	0	0	0	0	0	0	1	14866	1045	37	1		1	SNCAIP	5	121739511	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	77350740	121739511	59175749	54	19211											
PCDHA3	56145	broad.mit.edu	37	chr5	140180983	140180983	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgcctgttccgggtggcGtccaaaagacacggggacct	7	6	14	14	5	0	1	0	0	0	1	2	2	2	2	5	4	0	1	5	4	2	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr5:140180983G>A	uc003lhf.2	+	1	201	c.201G>A	c.(199-201)GCG>GCA	p.A67A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.A67A	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	67	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCGGGTGGCGTCCAAAAGAC	0.632													111	182					0	0	0.01441	0	0		A	140180983	A	A	140180983	2	1	22	1	0	0	0	0	0	0	0	1	11544	1132	40	1		1	PCDHA3	5	140180983	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	18441472	140180983	40734277	55	19212											
PCDHGA10	56106	broad.mit.edu	37	chr5	140794719	140794719	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggccagccccctctctcCgccactgtcacgctcaccgt	5	7	7	22	4	3	0	2	0	1	0	5	0	4	0	6	1	1	1	6	1	0	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr5:140794719C>T	uc003lkl.1	+	1	1977	c.1977C>T	c.(1975-1977)TCC>TCT	p.S659S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Silent_p.S659S|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	659	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCCTCTCTCCGCCACTGTCA	0.672													32	48					0	0	0.01441	0	0		T	140794719	T	T	140794719	2	4	22	1	0	0	0	0	0	0	0	1	11570	639	23	1		1	PCDHGA10	5	140794719	Silent	SNP	C	TCGA-BR-4366-01A-01D-1158-08	613736	140794719	40120541	56	19213											
PCDHGB7	56099	broad.mit.edu	37	chr5	140799123	140799123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgcgggtgctgtaccctgCgctgggtcccgacggctccg	3	7	15	16	6	0	0	0	0	0	0	2	1	2	0	4	3	3	4	4	3	1	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr5:140799123C>T	uc003lkn.1	+	1	1842	c.1697C>T	c.(1696-1698)GCG>GTG	p.A566V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.A566V|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	566	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGTACCCTGCGCTGGGTCCC	0.726													20	34					0	0	0.010504	0	0		T	140799123	T	T	140799123	3	4	22	1	0	0	0	0	1	0	0	0	11587	768	27	1	1699	1	PCDHGB7	5	140799123	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	4404	140799123	40116137	57	19214											
TNIP1	10318	broad.mit.edu	37	chr5	150422226	150422226	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagcttctgacgcagctCagtgatctgggttcagaggc	8	9	13	11	1	4	3	2	2	2	1	4	3	4	3	1	2	3	4	1	2	0	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr5:150422226C>A	uc003ltf.2	-	11	1598	c.1009G>T	c.(1009-1011)GAG>TAG	p.E337*	TNIP1_uc010jhl.2_RNA|TNIP1_uc010jhm.2_Nonsense_Mutation_p.E337*|TNIP1_uc010jhn.2_Nonsense_Mutation_p.E337*|TNIP1_uc011dco.1_Nonsense_Mutation_p.E337*|TNIP1_uc003lth.2_RNA|TNIP1_uc003lti.2_Nonsense_Mutation_p.E337*|TNIP1_uc003ltg.2_Nonsense_Mutation_p.E284*|TNIP1_uc003ltj.2_Nonsense_Mutation_p.E337*|TNIP1_uc010jho.1_RNA|TNIP1_uc010jhq.1_Nonsense_Mutation_p.E284*|TNIP1_uc010jhp.1_Nonsense_Mutation_p.E284*|TNIP1_uc010jhr.1_Nonsense_Mutation_p.E337*|TNIP1_uc003ltk.2_Nonsense_Mutation_p.E337*	NM_006058	NP_006049	Q15025	TNIP1_HUMAN	TNFAIP3 interacting protein 1	337	Potential.|Interacts with Nef.				defense response|glycoprotein biosynthetic process|negative regulation of viral genome replication|translation	cytoplasm|nucleus	protein binding			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.0911)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGACGCAGCTCAGTGATCTGG	0.612													25	38					7.92952e-12	8.76421e-12	0.003954	1	0		A	150422226	A	A	150422226	4	1	22	1	0	0	0	0	0	1	0	0	16339	835	29	5	933	5	TNIP1	5	150422226	Nonsense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	9623103	150422226	30493034	58	19215											
SLC36A2	153201	broad.mit.edu	37	chr5	150723081	150723081	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcctcacctcttacagaAgcgctgggcacacttgacca	9	11	7	14	1	2	2	1	1	1	1	3	2	3	2	3	1	2	2	3	1	2	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr5:150723081A>G	uc003lty.2	-	3	464	c.334T>C	c.(334-336)TTC>CTC	p.F112L	GM2A_uc011dcs.1_Intron|SLC36A2_uc003ltz.2_RNA|SLC36A2_uc003lua.2_5'UTR|SLC36A2_uc010jhv.2_Missense_Mutation_p.F112L|SLC36A2_uc011dct.1_Missense_Mutation_p.F112L	NM_181776	NP_861441	Q495M3	S36A2_HUMAN	solute carrier family 36, member 2	112	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	cytoplasm|integral to membrane|plasma membrane	glycine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTCTTACAGAAGCGCTGGGCA	0.512													7	164					0	0	0.006214	0	0		G	150723081	G	G	150723081	3	3	22	1	0	0	0	0	1	0	0	0	14619	72	3	3	1149	3	SLC36A2	5	150723081	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	300855	150723081	30192179	59	19216											
EBF1	1879	broad.mit.edu	37	chr5	158204508	158204508	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaacaccagggatgtgccGaggaggggtctgcacacgga	11	4	15	11	2	1	0	0	0	1	0	1	4	1	3	2	5	3	1	2	5	1	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr5:158204508G>T	uc010jip.2	-	10	1251	c.949C>A	c.(949-951)CGG>AGG	p.R317R	EBF1_uc011ddw.1_Silent_p.R185R|EBF1_uc011ddx.1_Silent_p.R318R|EBF1_uc003lxl.3_Silent_p.R286R	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	317	IPT/TIG.				multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGGATGTGCCGAGGAGGGGTC	0.468			T	HMGA2	lipoma								66	124					1.53134e-21	1.71718e-21	0.01441	1	0		T	158204508	T	T	158204508	2	4	22	1	0	0	0	0	0	0	0	1	4886	1057	37	5		5	EBF1	5	158204508	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	7481427	158204508	22710752	60	19217											
SQSTM1	8878	broad.mit.edu	37	chr5	179263587	179263587	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattcaaagcatcccccgccGttgtgaccacttttgcccac	8	11	6	16	2	1	1	1	1	0	0	2	1	2	1	5	0	2	2	5	0	2	5	rs11548636		TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr5:179263587G>A	uc003mkw.3	+	8	1412	c.1317G>A	c.(1315-1317)CCG>CCA	p.P439P	SQSTM1_uc011dgr.1_Silent_p.P355P|SQSTM1_uc011dgs.1_Silent_p.P355P|SQSTM1_uc003mkv.3_Missense_Mutation_p.R356H|SQSTM1_uc003mkx.2_Silent_p.P355P	NM_003900	NP_003891	Q13501	SQSTM_HUMAN	sequestosome 1 isoform 1	439	Interaction with NTRK1 (By similarity).				anti-apoptosis|apoptosis|cell differentiation|endosome transport|induction of apoptosis by extracellular signals|intracellular signal transduction|macroautophagy|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein localization|regulation of I-kappaB kinase/NF-kappaB cascade|ubiquitin-dependent protein catabolic process	cytosol|late endosome|nucleoplasm	protein kinase C binding|receptor tyrosine kinase binding|SH2 domain binding|ubiquitin binding|zinc ion binding		SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(89;0.000205)|all_epithelial(37;7.15e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0395)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ATCCCCCGCCGTTGTGACCAC	0.542									Paget_Disease_of_Bone				63	99					0	0	0.01441	0	0		A	179263587	A	A	179263587	2	1	22	1	0	0	0	0	0	0	0	1	15155	1132	40	1		1	SQSTM1	5	179263587	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	21059079	179263587	1651673	61	19218											
RIMS1	22999	broad.mit.edu	37	chr6	72955550	72955550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcctgagagctcccaccCtccactggagtccagtgagt	8	9	10	14	0	0	2	0	2	0	1	4	5	4	3	5	1	1	1	5	1	0	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr6:72955550C>T	uc003pga.2	+	11	2191	c.2114C>T	c.(2113-2115)CCT>CTT	p.P705L	RIMS1_uc011dyb.1_Missense_Mutation_p.P331L|RIMS1_uc003pgc.2_Missense_Mutation_p.P331L|RIMS1_uc010kaq.2_Missense_Mutation_p.P179L|RIMS1_uc011dyc.1_Missense_Mutation_p.P179L|RIMS1_uc010kar.2_Missense_Mutation_p.P98L|RIMS1_uc011dyd.1_Missense_Mutation_p.P164L|RIMS1_uc003pgb.3_Missense_Mutation_p.P331L|RIMS1_uc010kas.1_Missense_Mutation_p.P164L	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	705					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				AGCTCCCACCCTCCACTGGAG	0.363													4	63					0	0	0.001168	0	0		T	72955550	T	T	72955550	3	4	22	1	0	0	0	0	1	0	0	0	13392	681	24	4	2319	4	RIMS1	6	72955550	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08		72955550	98159517	62	19219											
C6orf186	728464	broad.mit.edu	37	chr6	110620262	110620262	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgctgactctccagaaTgtgagctgacttgacactag	11	10	11	9	0	1	5	0	4	1	1	2	5	1	5	1	1	2	2	1	1	3	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr6:110620262T>C	uc010kdu.1	-	4	649	c.649A>G	c.(649-651)ATT>GTT	p.I217V	C6orf186_uc003pub.2_Missense_Mutation_p.I20V	NM_001123364	NP_001116836	Q5JXM2	CF186_HUMAN	chromosome 6 open reading frame 186 precursor	217						extracellular region					0						CTCTCCAGAATGTGAGCTGAC	0.478													47	75					0	0	0.01441	0	0		C	110620262	C	C	110620262	3	2	22	1	0	0	0	0	1	0	0	0	2350	1464	51	3	459	3	C6orf186	6	110620262	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	37664712	110620262	60494805	63	19220											
PEX3	8504	broad.mit.edu	37	chr6	143792193	143792193	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttggtggatatatttacctgGataatgcagcagttggcaaa	12	13	11	5	0	0	0	0	0	0	0	0	2	0	2	1	4	3	4	1	4	5	7			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr6:143792193G>T	uc003qjl.2	+	5	689	c.427G>T	c.(427-429)GAT>TAT	p.D143Y	PEX3_uc011edx.1_Missense_Mutation_p.D143Y	NM_003630	NP_003621	P56589	PEX3_HUMAN	peroxisomal biogenesis factor 3	143	Cytoplasmic (Potential).				protein import into peroxisome membrane|transmembrane transport	integral to peroxisomal membrane	protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;5.73e-06)|GBM - Glioblastoma multiforme(68;0.0117)		TATTTACCTGGATAATGCAGC	0.373													79	141					5.72486e-32	6.64544e-32	0.01441	1	0		T	143792193	T	T	143792193	3	4	22	1	0	0	0	0	1	0	0	0	11766	1174	41	5	445	5	PEX3	6	143792193	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	33171931	143792193	27322874	64	19221											
UST	10090	broad.mit.edu	37	chr6	149394999	149394999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggaaacatgactgtgaCggtgaagaagactgtcccct	11	9	12	9	1	0	5	0	3	0	2	1	6	1	6	2	2	1	1	2	2	3	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr6:149394999C>T	uc003qmg.2	+	8	1264	c.968C>T	c.(967-969)ACG>ATG	p.T323M		NM_005715	NP_005706	Q9Y2C2	UST_HUMAN	uronyl-2-sulfotransferase	323	Lumenal (Potential).				protein sulfation	Golgi membrane|integral to membrane	sulfotransferase activity			ovary(2)	2		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.78e-10)|GBM - Glioblastoma multiforme(68;0.138)		ATGACTGTGACGGTGAAGAAG	0.537													23	139					0	0	0.003954	0	0		T	149394999	T	T	149394999	3	4	22	1	0	0	0	0	1	0	0	0	17119	536	19	1	998	1	UST	6	149394999	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	5602806	149394999	21720068	65	19222											
KATNA1	11104	broad.mit.edu	37	chr6	149944303	149944303	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacagctttccctctgtcaTtgtgaacattctgtgcagat	9	14	8	10	0	3	2	1	1	2	1	4	3	4	2	1	0	4	2	1	0	2	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr6:149944303T>C	uc003qmr.1	-	3	482	c.437A>G	c.(436-438)AAT>AGT	p.N146S	KATNA1_uc003qms.2_Missense_Mutation_p.N146S|KATNA1_uc003qmt.2_Missense_Mutation_p.N146S|KATNA1_uc011eed.1_Missense_Mutation_p.N146S	NM_007044	NP_008975	O75449	KTNA1_HUMAN	katanin p60 subunit A 1	146	Interaction with microtubule.				cell division|interphase of mitotic cell cycle|mitosis	microtubule|microtubule organizing center|spindle pole	ATP binding|microtubule binding|microtubule-severing ATPase activity|protein heterodimerization activity			skin(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;2.95e-12)|GBM - Glioblastoma multiforme(68;0.173)		CCCTCTGTCATTGTGAACATT	0.368													89	213					0	0	0.01441	0	0		C	149944303	C	C	149944303	3	2	22	1	0	0	0	0	1	0	0	0	8000	1493	52	3	1070	3	KATNA1	6	149944303	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	549304	149944303	21170764	66	19223											
ARID1B	57492	broad.mit.edu	37	chr6	157527345	157527345	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcgagtactttagaaaatgCctgattgacatttttggaat	12	15	9	5	1	0	3	0	2	0	1	1	5	0	4	1	1	2	1	1	1	5	6			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr6:157527345C>A	uc003qqn.2	+	20	5168	c.5016C>A	c.(5014-5016)TGC>TGA	p.C1672*	ARID1B_uc003qqo.2_Nonsense_Mutation_p.C1632*|ARID1B_uc003qqp.2_Nonsense_Mutation_p.C1619*	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1677					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TTAGAAAATGCCTGATTGACA	0.433													270	488					1.84379e-132	2.18418e-132	0.01441	1	0		A	157527345	A	A	157527345	4	1	22	1	0	0	0	0	0	1	0	0	914	747	26	5	5148	5	ARID1B	6	157527345	Nonsense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	7583042	157527345	13587722	67	19224											
TAX1BP1	8887	broad.mit.edu	37	chr7	27832693	27832693	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctttctaggacaagacTgatacactggaacacgaact	13	11	8	9	1	2	2	0	1	2	1	2	5	2	4	0	2	3	1	0	2	5	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr7:27832693T>C	uc003szl.2	+	10	1430	c.1272T>C	c.(1270-1272)ACT>ACC	p.T424T	TAX1BP1_uc011jzo.1_Silent_p.T424T|TAX1BP1_uc003szk.2_Silent_p.T424T|TAX1BP1_uc011jzp.1_Silent_p.T267T	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	424	Potential.				anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)			AGGACAAGACTGATACACTGG	0.323													9	48					0	0	0.004482	0	0		C	27832693	C	C	27832693	2	2	22	1	0	0	0	0	0	0	0	1	15619	1567	55	3		3	TAX1BP1	7	27832693	Silent	SNP	T	TCGA-BR-4366-01A-01D-1158-08		27832693	131305970	68	19225											
IKZF1	10320	broad.mit.edu	37	chr7	50468108	50468108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgagaactcgcaggacgCgctccgcgtggtcagcacca	8	5	12	16	6	1	1	1	0	0	1	4	3	3	2	3	2	2	3	3	2	1	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr7:50468108C>T	uc003tow.3	+	9	1511	c.1343C>T	c.(1342-1344)GCG>GTG	p.A448V	IKZF1_uc003tox.3_Missense_Mutation_p.A406V|IKZF1_uc003toy.3_Missense_Mutation_p.A406V|IKZF1_uc011kck.1_Missense_Mutation_p.A361V|IKZF1_uc003toz.3_Missense_Mutation_p.A418V|IKZF1_uc010kyx.2_Missense_Mutation_p.A188V|IKZF1_uc003tpa.3_Missense_Mutation_p.A190V	NM_006060	NP_006051	Q13422	IKZF1_HUMAN	zinc finger protein, subfamily 1A, 1 (Ikaros)	448					cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding			haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				TCGCAGGACGCGCTCCGCGTG	0.652			D		ALL								14	27					0	0	0.004007	0	0		T	50468108	T	T	50468108	3	4	22	1	0	0	0	0	1	0	0	0	7630	768	27	1	1369	1	IKZF1	7	50468108	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	22635415	50468108	108670555	69	19226											
CCDC132	55610	broad.mit.edu	37	chr7	92935138	92935138	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctccttttttaacatctAggaatttaaattcatggaac	12	16	6	7	0	2	0	1	0	1	0	3	2	3	2	1	3	2	1	1	3	6	7			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr7:92935138A>G	uc003umo.2	+	18	1581	c.1453_splice	c.e18-2	p.E485_splice	CCDC132_uc003umq.2_Splice_Site|CCDC132_uc003ump.2_Splice_Site_p.E455_splice|CCDC132_uc003umr.2_Splice_Site|CCDC132_uc011khz.1_Splice_Site_p.E205_splice	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a												0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			TTTAACATCTAGGAATTTAAA	0.368													43	74					0	0	0.013114	0	0		G	92935138	G	G	92935138	5	3	22	1	0	0	0	0	0	0	1	0	2770	434	15	3	1563	3	CCDC132	7	92935138	Splice_Site	SNP	A	TCGA-BR-4366-01A-01D-1158-08	42467030	92935138	66203525	70	19227											
COL1A2	1278	broad.mit.edu	37	chr7	94059632	94059632	+	Missense_Mutation	SNP	A	C	C																															atcacgcctgcccttccttgAtattgcacctttggacatcg																										TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr7:94059632A>C	uc003ung.1	+	52	4499	c.4028A>C	c.(4027-4029)GAT>GCT	p.D1343A	COL1A2_uc011kib.1_Missense_Mutation_p.D195A	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1343	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CCCTTCCTTGATATTGCACCT	0.363										HNSCC(75;0.22)			132	166					0	0	0.01441	0	0		C	94059632	C	C	94059632	3	2	22	1	0	0	0	0	1	0	0	0	3681	333	12	5	4234	5	COL1A2	7	94059632	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	1124494	94059632	65079031	71	19228	29	2									
COL1A2	1278	broad.mit.edu	37	chr7	94059634	94059634	+	Missense_Mutation	SNP	A	T	T																															cacgcctgcccttccttgatAttgcacctttggacatcggt																										TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr7:94059634A>T	uc003ung.1	+	52	4501	c.4030A>T	c.(4030-4032)ATT>TTT	p.I1344F	COL1A2_uc011kib.1_Missense_Mutation_p.I196F	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1344	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CTTCCTTGATATTGCACCTTT	0.363										HNSCC(75;0.22)			131	172					0	0	0.01441	0	0		T	94059634	T	T	94059634	3	4	22	1	0	0	0	0	1	0	0	0	3681	449	16	5	4236	5	COL1A2	7	94059634	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	2	94059634	65079029	72	19229	29	2									
CTTNBP2	83992	broad.mit.edu	37	chr7	117431934	117431934	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggattcgtgggtttagacctGgatgcaaagaggtgttggca	9	11	16	5	1	0	2	0	0	0	2	1	4	0	4	1	5	1	4	1	5	2	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr7:117431934G>C	uc003vjf.2	-	4	1408	c.1316C>G	c.(1315-1317)CCA>CGA	p.P439R		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	439	Pro-rich.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GTTTAGACCTGGATGCAAAGA	0.498													5	396					0	0	0.000602	0	0		C	117431934	C	C	117431934	3	2	22	1	0	0	0	0	1	0	0	0	4048	1348	47	5	3755	5	CTTNBP2	7	117431934	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	23372300	117431934	41706729	73	19230											
ZNF800	168850	broad.mit.edu	37	chr7	127014104	127014104	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatttgttccctttaattcaTtctgtggagaatgggtaatg	9	17	10	5	0	2	1	1	0	1	1	3	3	3	1	1	2	0	2	1	2	3	7			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr7:127014104T>G	uc003vlx.1	-	5	1549	c.1286A>C	c.(1285-1287)AAT>ACT	p.N429T	ZNF800_uc003vlw.1_Missense_Mutation_p.N332T|ZNF800_uc003vly.1_Missense_Mutation_p.N429T|ZNF800_uc010lla.2_Missense_Mutation_p.N429T	NM_176814	NP_789784	Q2TB10	ZN800_HUMAN	zinc finger protein 800	429					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTTTAATTCATTCTGTGGAGA	0.368													10	203					0	0	0.010729	0	0		G	127014104	G	G	127014104	3	3	22	1	0	0	0	0	1	0	0	0	18194	1493	52	5	716	5	ZNF800	7	127014104	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	9582170	127014104	32124559	74	19231											
CHRM2	1129	broad.mit.edu	37	chr7	136700630	136700630	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtgactcatgtaccccaActaataccaccgtggaggta	14	8	8	11	1	1	1	1	1	0	0	1	2	1	2	4	2	3	2	4	2	6	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr7:136700630A>G	uc003vtf.1	+	4	1641	c.1018A>G	c.(1018-1020)ACT>GCT	p.T340A	CHRM2_uc003vtg.1_Missense_Mutation_p.T340A|CHRM2_uc003vtj.1_Missense_Mutation_p.T340A|CHRM2_uc003vtk.1_Missense_Mutation_p.T340A|CHRM2_uc003vtl.1_Missense_Mutation_p.T340A|CHRM2_uc003vtm.1_Missense_Mutation_p.T340A|CHRM2_uc003vti.1_Missense_Mutation_p.T340A|CHRM2_uc003vto.1_Missense_Mutation_p.T340A|CHRM2_uc003vtn.1_Missense_Mutation_p.T340A|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	340	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	ATGTACCCCAACTAATACCAC	0.473													25	112					0	0	0.007291	0	0		G	136700630	G	G	136700630	3	3	22	1	0	0	0	0	1	0	0	0	3380	43	2	3	1020	3	CHRM2	7	136700630	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	9686526	136700630	22438033	75	19232											
CNTNAP2	26047	broad.mit.edu	37	chr7	147869380	147869380	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgggctgcatccgctccttGaggatgaatggggtgacact	7	10	14	10	1	0	3	0	3	0	0	2	4	2	4	2	4	1	3	2	4	1	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr7:147869380G>C	uc003weu.1	+	18	3336	c.2820G>C	c.(2818-2820)TTG>TTC	p.L940F		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	940	Laminin G-like 3.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TCCGCTCCTTGAGGATGAATG	0.542										HNSCC(39;0.1)			18	85					0	0	0.014323	0	0		C	147869380	C	C	147869380	3	2	22	1	0	0	0	0	1	0	0	0	3650	1281	45	5	2890	5	CNTNAP2	7	147869380	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	11168750	147869380	11269283	76	19233											
TMUB1	83590	broad.mit.edu	37	chr7	150779627	150779627	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaggacggtcacctcatcAcccaccccttcaatcagggt	12	7	7	15	1	5	0	5	0	0	0	5	1	5	1	4	3	0	0	4	3	3	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr7:150779627A>G	uc003wjb.2	-	1	139	c.24T>C	c.(22-24)GGT>GGC	p.G8G	FASTK_uc003wiw.1_5'Flank|FASTK_uc003wix.1_5'Flank|FASTK_uc003wiy.1_5'Flank|FASTK_uc003wiz.1_5'Flank|FASTK_uc003wja.1_5'Flank|TMUB1_uc003wjc.2_Silent_p.G8G|TMUB1_uc003wjd.2_Silent_p.G8G	NM_031434	NP_113622	Q9BVT8	TMUB1_HUMAN	transmembrane and ubiquitin-like domain	8						cytoplasm|integral to membrane|nucleus					0			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TCACCTCATCACCCACCCCTT	0.682													27	59					0	0	0.008361	0	0		G	150779627	G	G	150779627	2	3	22	1	0	0	0	0	0	0	0	1	16289	146	6	3		3	TMUB1	7	150779627	Silent	SNP	A	TCGA-BR-4366-01A-01D-1158-08	2910247	150779627	8359036	77	19234											
DEFB136	613210	broad.mit.edu	37	chr8	11831582	11831582	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatacggctttctggctaGtgcaggtgcgaactttgact	9	12	11	9	2	1	1	0	1	1	0	1	2	1	1	0	3	5	3	0	3	4	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr8:11831582G>C	uc011kxm.1	-	2	101	c.101C>G	c.(100-102)ACT>AGT	p.T34S		NM_001033018	NP_001028190	Q30KP8	DB136_HUMAN	beta-defensin 136 precursor	34					defense response to bacterium	extracellular region					0			STAD - Stomach adenocarcinoma(15;0.033)	COAD - Colon adenocarcinoma(149;0.163)		TTTCTGGCTAGTGCAGGTGCG	0.453													67	312					0	0	0.01441	0	0		C	11831582	C	C	11831582	3	2	22	1	0	0	0	0	1	0	0	0	4426	1029	36	5	137	5	DEFB136	8	11831582	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08		11831582	134532440	78	19235											
ATP6V1B2	526	broad.mit.edu	37	chr8	20067922	20067922	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagtttactggggatattctCcgaacaccggtgtctgagga	9	11	13	8	2	2	1	0	1	2	0	3	5	2	3	2	4	2	1	2	4	3	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr8:20067922C>T	uc003wzp.2	+	4	571	c.357C>T	c.(355-357)CTC>CTT	p.L119L		NM_001693	NP_001684	P21281	VATB2_HUMAN	vacuolar H+ATPase B2	119					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|endomembrane system|Golgi apparatus|melanosome|plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0				Colorectal(74;0.0535)|COAD - Colon adenocarcinoma(73;0.211)		GGGATATTCTCCGAACACCGG	0.358													109	124					0	0	0.01441	0	0		T	20067922	T	T	20067922	2	4	22	1	0	0	0	0	0	0	0	1	1180	842	30	4		4	ATP6V1B2	8	20067922	Silent	SNP	C	TCGA-BR-4366-01A-01D-1158-08	8236340	20067922	126296100	79	19236											
SCARA3	51435	broad.mit.edu	37	chr8	27528492	27528492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgttggcggcagaggccCgaaaggagaccccggcagct	8	4	16	13	3	0	2	0	0	0	2	0	4	0	2	4	5	1	4	4	5	1	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr8:27528492C>T	uc003xga.1	+	6	1586	c.1445C>T	c.(1444-1446)CCG>CTG	p.P482L	SCARA3_uc003xgb.1_Intron	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	482	Collagen-like 1.|Extracellular (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		GGCAGAGGCCCGAAAGGAGAC	0.662													69	156					0	0	0.01441	0	0		T	27528492	T	T	27528492	3	4	22	1	0	0	0	0	1	0	0	0	13904	652	23	1	1467	1	SCARA3	8	27528492	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	7460570	27528492	118835530	80	19237											
SFRP1	6422	broad.mit.edu	37	chr8	41122917	41122917	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcttcaggtccttcttcttGatgggccccaacttcagggg	5	14	10	12	0	5	1	2	1	3	0	6	1	6	1	3	4	1	0	3	4	1	6			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr8:41122917G>C	uc003xnt.2	-	3	1016	c.714C>G	c.(712-714)ATC>ATG	p.I238M		NM_003012	NP_003003	Q8N474	SFRP1_HUMAN	secreted frizzled-related protein 1 precursor	238	NTR.				brain development|canonical Wnt receptor signaling pathway|cellular response to BMP stimulus|cellular response to estradiol stimulus|cellular response to fibroblast growth factor stimulus|cellular response to heparin|cellular response to hypoxia|cellular response to interleukin-1|cellular response to prostaglandin E stimulus|cellular response to starvation|cellular response to transforming growth factor beta stimulus|cellular response to tumor necrosis factor|cellular response to vitamin D|DNA fragmentation involved in apoptotic nuclear change|dorsal/ventral axis specification|hemopoietic progenitor cell differentiation|hemopoietic stem cell differentiation|menstrual cycle phase|negative regulation of androgen receptor signaling pathway|negative regulation of B cell differentiation|negative regulation of bone remodeling|negative regulation of canonical Wnt receptor signaling pathway involved in controlling type B pancreatic cell proliferation|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cysteine-type endopeptidase activity|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast apoptosis|negative regulation of fibroblast proliferation|negative regulation of insulin secretion|negative regulation of ossification|negative regulation of osteoblast proliferation|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|osteoblast differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell growth|positive regulation of epithelial cell proliferation|positive regulation of fat cell differentiation|positive regulation of fibroblast apoptosis|positive regulation of focal adhesion assembly|positive regulation of non-canonical Wnt receptor signaling pathway|positive regulation of Rac GTPase activity|positive regulation of smoothened signaling pathway|positive regulation of stress fiber assembly|positive regulation of transcription, DNA-dependent|regulation of angiogenesis|regulation of cell cycle process|response to drug|response to organic cyclic compound|vasculature development	cell surface|cytosol|extracellular space|plasma membrane|proteinaceous extracellular matrix	cysteine-type endopeptidase activity|drug binding|frizzled binding|heparin binding|identical protein binding|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1	Breast(1;9.19e-13)|Ovarian(28;0.00769)|Colorectal(14;0.0305)|Lung SC(25;0.211)	all_lung(54;0.0034)|Lung NSC(58;0.0134)|Hepatocellular(245;0.023)|Esophageal squamous(32;0.0559)	BRCA - Breast invasive adenocarcinoma(1;1.11e-10)|LUSC - Lung squamous cell carcinoma(45;0.00894)|COAD - Colon adenocarcinoma(11;0.0174)			CCTTCTTCTTGATGGGCCCCA	0.488													3	208					0	0	0.004672	0	0		C	41122917	C	C	41122917	3	2	22	1	0	0	0	0	1	0	0	0	14186	1280	45	5	234	5	SFRP1	8	41122917	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	13594425	41122917	105241105	81	19238											
CSPP1	79848	broad.mit.edu	37	chr8	68084687	68084687	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccatggatatatttgatatGgctagacatcggttgcaagc	11	12	10	8	1	0	2	0	1	0	1	1	3	0	3	1	3	2	3	1	3	5	6			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr8:68084687G>C	uc003xxi.2	+	25	2986	c.2955G>C	c.(2953-2955)ATG>ATC	p.M985I	CSPP1_uc003xxj.2_Missense_Mutation_p.M950I|CSPP1_uc003xxk.2_Missense_Mutation_p.M605I|CSPP1_uc010lyw.2_Missense_Mutation_p.M45I	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	985						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			TATTTGATATGGCTAGACATC	0.378													21	107					0	0	0.014323	0	0		C	68084687	C	C	68084687	3	2	22	1	0	0	0	0	1	0	0	0	3965	1348	47	5	3053	5	CSPP1	8	68084687	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	26961770	68084687	78279335	82	19239											
STAU2	27067	broad.mit.edu	37	chr8	74516095	74516095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttggccatattctggtcCggcctaaaaattaatttaag	11	13	7	10	1	1	0	0	0	1	0	2	0	2	0	4	3	0	0	4	3	6	7	rs142831475		TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr8:74516095C>T	uc003xzm.2	-	10	1131	c.895G>A	c.(895-897)GGA>AGA	p.G299R	STAU2_uc011lfg.1_Missense_Mutation_p.G127R|STAU2_uc003xzn.2_Missense_Mutation_p.G267R|STAU2_uc011lfh.1_Missense_Mutation_p.G195R|STAU2_uc003xzo.2_Missense_Mutation_p.G299R|STAU2_uc003xzp.2_Missense_Mutation_p.G267R|STAU2_uc011lfi.1_Missense_Mutation_p.G261R|STAU2_uc003xzq.2_Missense_Mutation_p.G79R|STAU2_uc010lzk.2_Missense_Mutation_p.G267R|STAU2_uc010lzl.1_Missense_Mutation_p.G127R	NM_014393	NP_055208	Q9NUL3	STAU2_HUMAN	staufen homolog 2 isoform e	299					transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)			TATTCTGGTCCGGCCTAAAAA	0.418													32	77					0	0	0.012213	0	0		T	74516095	T	T	74516095	3	4	22	1	0	0	0	0	1	0	0	0	15298	661	23	1	965	1	STAU2	8	74516095	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	6431408	74516095	71847927	83	19240											
CNBD1	168975	broad.mit.edu	37	chr8	88365898	88365898	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttgtttatatggggaaacTtaaggagaaggagtcctttg	12	13	12	4	0	0	1	0	0	0	1	1	4	1	3	1	4	1	1	1	4	5	6			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr8:88365898T>C	uc003ydy.2	+	10	1235	c.1187T>C	c.(1186-1188)CTT>CCT	p.L396P		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	396	cNMP.									ovary(3)	3						ATGGGGAAACTTAAGGAGAAG	0.323													33	76					0	0	0.003755	0	0		C	88365898	C	C	88365898	3	2	22	1	0	0	0	0	1	0	0	0	3594	1609	56	3	1225	3	CNBD1	8	88365898	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	13849803	88365898	57998124	84	19241											
DCAF13	25879	broad.mit.edu	37	chr8	104427572	104427572	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctccgcgagtcacgtgacTggaagtagtctgggaaaagc	10	7	14	10	4	2	1	1	1	1	0	3	4	3	3	1	2	1	2	1	2	4	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr8:104427572T>G	uc003yln.2	+	1	631	c.354T>G	c.(352-354)ACT>ACG	p.T118T	SLC25A32_uc003yll.2_5'Flank|SLC25A32_uc011lhr.1_5'Flank|DCAF13_uc003ylm.1_5'UTR|DCAF13_uc003ylo.2_5'UTR	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	Error:Variant_position_missing_in_Q9NV06_after_alignment					rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						GTCACGTGACTGGAAGTAGTC	0.637													19	93					0	0	0.010504	0	0		G	104427572	G	G	104427572	2	3	22	1	0	0	0	0	0	0	0	1	4269	1567	55	5		5	DCAF13	8	104427572	Silent	SNP	T	TCGA-BR-4366-01A-01D-1158-08	16061674	104427572	41936450	85	19242											
TG	7038	broad.mit.edu	37	chr8	134146930	134146930	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgtttcagatggagccaaGggcgggcagtcagcagagag	10	7	16	8	1	3	2	2	0	1	2	3	4	3	3	1	3	2	3	1	3	1	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr8:134146930G>A	uc003ytw.2	+	48	8240	c.8199G>A	c.(8197-8199)AAG>AAA	p.K2733K	TG_uc010mdw.2_Silent_p.K1492K|TG_uc011ljb.1_Silent_p.K1102K|TG_uc011ljc.1_Silent_p.K866K	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2733					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		ATGGAGCCAAGGGCGGGCAGT	0.547													79	45					0	0	0.01441	0	0		A	134146930	A	A	134146930	2	1	22	1	0	0	0	0	0	0	0	1	15838	991	35	4		4	TG	8	134146930	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	29719358	134146930	12217092	86	19243											
FAM135B	51059	broad.mit.edu	37	chr8	139164785	139164785	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggctccctcagggtagaacTtagtggatcacagggctcag	9	8	14	10	0	3	1	3	0	0	1	4	2	4	2	1	4	1	3	1	4	3	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr8:139164785T>G	uc003yuy.2	-	13	2104	c.1933A>C	c.(1933-1935)AGT>CGT	p.S645R	FAM135B_uc003yux.2_Missense_Mutation_p.S546R|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.S207R|FAM135B_uc003yvb.2_Missense_Mutation_p.S207R	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	645										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			AGGGTAGAACTTAGTGGATCA	0.488										HNSCC(54;0.14)			64	172					0	0	0.01441	0	0		G	139164785	G	G	139164785	3	3	22	1	0	0	0	0	1	0	0	0	5460	1609	56	5	2319	5	FAM135B	8	139164785	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	5017855	139164785	7199237	87	19244											
AK3	50808	broad.mit.edu	37	chr9	4741007	4741007	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcagctcgaagtgtgtagtGatgcgcgacgacacggtgcc	8	9	14	10	5	1	1	1	1	0	0	2	4	1	1	1	1	3	2	1	1	2	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr9:4741007G>A	uc003ziq.1	-	1	221	c.81C>T	c.(79-81)ATC>ATT	p.I27I	AK3_uc011lma.1_Silent_p.I27I|AK3_uc003zir.1_Intron	NM_016282	NP_057366	Q9UIJ7	KAD3_HUMAN	adenylate kinase 3	27					blood coagulation	mitochondrial matrix	ATP binding|GTP binding|nucleoside triphosphate adenylate kinase activity			ovary(2)	2	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0302)		AGTGTGTAGTGATGCGCGACG	0.721													11	19					0	0	0.008291	0	0		A	4741007	A	A	4741007	2	1	22	1	0	0	0	0	0	0	0	1	441	1280	45	4		4	AK3	9	4741007	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08		4741007	136472424	88	19245											
GLDC	2731	broad.mit.edu	37	chr9	6610217	6610217	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacagctgcagtgcctctgCggctgcagtcccctcatcca	6	8	10	17	1	2	0	1	0	1	0	4	0	4	0	4	1	5	5	4	1	0	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr9:6610217C>A	uc003zkc.2	-	4	803	c.610G>T	c.(610-612)GCA>TCA	p.A204S		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	204					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	AGTGCCTCTGCGGCTGCAGTC	0.403													16	18					1.15088e-07	1.25402e-07	0.004007	1	0		A	6610217	A	A	6610217	3	1	22	1	0	0	0	0	1	0	0	0	6448	768	27	5	2540	5	GLDC	9	6610217	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	1869210	6610217	134603214	89	19246											
CDKN2A	1029	broad.mit.edu	37	chr9	21971119	21971119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcagcgtcgtgcacgggtCgggtgagagtggcggggtcg	4	6	23	8	6	0	1	0	1	0	1	3	2	0	1	0	6	2	2	0	6	0	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr9:21971119C>T	uc003zpk.2	-	2	451	c.239G>A	c.(238-240)CGA>CAA	p.R80Q	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Silent_p.P135P	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	80	ANK 3.		R -> P (in CMM2; loss of CDK4 binding).|R -> L (in a head and neck tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.R80*(85)|p.?(13)|p.R80Q(2)|p.T79fs*37(1)|p.L65fs*38(1)|p.R80fs*66(1)|p.A76fs*64(1)|p.T79fs*65(1)|p.E61_L94del(1)|p.A68fs*3(1)|p.R80fs*34(1)|p.R80?(1)|p.R80L(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		GTGCACGGGTCGGGTGAGAGT	0.731		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			16	18					0	0	0.00632	0	0		T	21971119	T	T	21971119	3	4	22	1	0	0	0	0	1	0	0	0	3164	884	31	1	239	1	CDKN2A	9	21971119	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	15360902	21971119	119242312	90	19247											
NOL6	65083	broad.mit.edu	37	chr9	33466322	33466322	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaccggtcatgggctccacGtaggccggacagggcttatc	7	9	13	12	3	1	0	1	0	0	0	3	1	2	1	3	5	1	3	3	5	3	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr9:33466322G>A	uc003zsz.2	-	17	2294	c.2193C>T	c.(2191-2193)TAC>TAT	p.Y731Y	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zsy.2_5'Flank|NOL6_uc003zta.2_Intron|NOL6_uc010mjv.2_Silent_p.Y728Y|NOL6_uc011lob.1_Silent_p.Y679Y|NOL6_uc003ztb.1_Silent_p.Y731Y	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	731					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		TGGGCTCCACGTAGGCCGGAC	0.607											OREG0019137	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	64	96					0	0	0.01441	0	0		A	33466322	A	A	33466322	2	1	22	1	0	0	0	0	0	0	0	1	10544	1140	40	1		1	NOL6	9	33466322	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	11495203	33466322	107747109	91	19248											
TLN1	7094	broad.mit.edu	37	chr9	35700205	35700205	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccttgcaagcccgaagcaTatctgcaatagcacggcggc	11	7	10	13	3	1	0	0	0	1	0	1	1	1	0	2	2	6	4	2	2	6	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr9:35700205T>C	uc003zxt.2	-	49	6997	c.6643A>G	c.(6643-6645)ATG>GTG	p.M2215V		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	2215					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GCCCGAAGCATATCTGCAATA	0.547													3	110					0	0	0.009096	0	0		C	35700205	C	C	35700205	3	2	22	1	0	0	0	0	1	0	0	0	15972	1406	49	3	1018	3	TLN1	9	35700205	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	2233883	35700205	105513226	92	19249											
SEMA4D	10507	broad.mit.edu	37	chr9	91993768	91993768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgctcggtctcatagcCggtgtccagggctggcttgg	3	12	15	11	2	2	0	1	0	2	0	5	0	3	0	2	5	2	3	2	5	1	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr9:91993768C>T	uc004aqo.1	-	18	3012	c.2440G>A	c.(2440-2442)GGC>AGC	p.G814S	SEMA4D_uc011ltm.1_Intron|SEMA4D_uc011ltn.1_Intron|SEMA4D_uc011lto.1_Intron|SEMA4D_uc004aqp.1_Missense_Mutation_p.G812S	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	814	Cytoplasmic (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						GTCTCATAGCCGGTGTCCAGG	0.577													49	100					0	0	0.01441	0	0		T	91993768	T	T	91993768	3	4	22	1	0	0	0	0	1	0	0	0	14059	652	23	1	722	1	SEMA4D	9	91993768	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	56293563	91993768	49219663	93	19250											
MEGF9	1955	broad.mit.edu	37	chr9	123370282	123370282	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacattcaggttccaattcaCtcgattctaaaagagagaat	15	11	6	9	1	3	2	2	0	1	2	5	4	4	2	1	1	0	1	1	1	4	5			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr9:123370282C>G	uc004bkj.1	-	7	1205	c.1205G>C	c.(1204-1206)AGT>ACT	p.S402T	MEGF9_uc011lyb.1_Missense_Mutation_p.S357T	NM_001080497	NP_001073966	Q9H1U4	MEGF9_HUMAN	multiple EGF-like-domains 9	365	Laminin EGF-like 4.|Extracellular (Potential).					integral to membrane	calcium ion binding				0						TTCCAATTCACTCGATTCTAA	0.328													3	114					0	0	0.004672	0	0		G	123370282	G	G	123370282	3	3	22	1	0	0	0	0	1	0	0	0	9482	565	20	5	722	5	MEGF9	9	123370282	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	31376514	123370282	17843149	94	19251											
ARMC3	219681	broad.mit.edu	37	chr10	23321810	23321810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtatgtagcagaaaaaatggGtggtaagattccaaaagaga	18	8	12	3	0	0	3	0	0	0	3	1	4	1	3	1	2	1	4	1	2	8	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr10:23321810G>A	uc001irm.3	+	18	2350	c.2267G>A	c.(2266-2268)GGT>GAT	p.G756D	ARMC3_uc010qcv.1_Missense_Mutation_p.G749D|ARMC3_uc010qcw.1_Missense_Mutation_p.G493D	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	756							binding				0						GAAAAAATGGGTGGTAAGATT	0.338													18	7					0	0	0.007413	0	0		A	23321810	A	A	23321810	3	1	22	1	0	0	0	0	1	0	0	0	953	1261	44	4	2333	4	ARMC3	10	23321810	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08		23321810	112212937	95	19252											
ENTPD7	57089	broad.mit.edu	37	chr10	101421366	101421366	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggagtgcttcattaccaCgagataggcaatacgaaagg	14	9	11	7	2	1	1	1	0	0	1	1	4	1	2	1	3	3	2	1	3	5	5			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr10:101421366C>G	uc001kqa.3	+	3	350	c.172C>G	c.(172-174)CGA>GGA	p.R58G	ENTPD7_uc009xwl.2_Missense_Mutation_p.R60G|SLC25A28_uc001kpy.2_5'Flank	NM_020354	NP_065087	Q9NQZ7	ENTP7_HUMAN	ectonucleoside triphosphate diphosphohydrolase	58	Vesicular (Potential).					cytoplasmic vesicle membrane|integral to membrane	hydrolase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)		TTCATTACCACGAGATAGGCA	0.403													19	54					0	0	0.010504	0	0		G	101421366	G	G	101421366	3	3	22	1	0	0	0	0	1	0	0	0	5152	528	19	5	178	5	ENTPD7	10	101421366	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	78099556	101421366	34113381	96	19253											
ACTR1A	10121	broad.mit.edu	37	chr10	104241914	104241914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagagcaactcaggggcccGgaatcgggaaggaccaatct	13	4	14	10	2	2	1	1	0	1	1	3	5	2	4	2	5	2	1	2	5	5	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr10:104241914G>A	uc001kvv.2	-	8	877	c.769C>T	c.(769-771)CGG>TGG	p.R257W	ACTR1A_uc010qqn.1_Missense_Mutation_p.R183W|ACTR1A_uc010qqo.1_Missense_Mutation_p.R210W	NM_005736	NP_005727	P61163	ACTZ_HUMAN	ARP1 actin-related protein 1 homolog A,	257					G2/M transition of mitotic cell cycle|vesicle-mediated transport	centrosome|cytosol|dynactin complex	ATP binding			central_nervous_system(1)	1		Colorectal(252;0.122)		Epithelial(162;5.34e-09)|all cancers(201;1.43e-07)|BRCA - Breast invasive adenocarcinoma(275;0.222)		TCAGGGGCCCGGAATCGGGAA	0.582													55	244					0	0	0.01441	0	0		A	104241914	A	A	104241914	3	1	22	1	0	0	0	0	1	0	0	0	209	1115	39	1	377	1	ACTR1A	10	104241914	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	2820548	104241914	31292833	97	19254											
PLEKHA1	59338	broad.mit.edu	37	chr10	124159876	124159876	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggttagcgatgctactaaGctaaggccaaaggcggagtt	12	9	13	7	2	0	0	0	0	0	0	0	2	0	1	1	4	4	4	1	4	6	6			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr10:124159876G>C	uc001lge.1	+	4	339	c.216G>C	c.(214-216)AAG>AAC	p.K72N	PLEKHA1_uc001lgf.1_Missense_Mutation_p.K72N|PLEKHA1_uc001lgg.1_Missense_Mutation_p.K72N|PLEKHA1_uc001lgh.2_Missense_Mutation_p.K72N	NM_001001974	NP_001001974	Q9HB21	PKHA1_HUMAN	pleckstrin homology domain containing, family A	72	PH 1.				B cell receptor signaling pathway|cellular response to hydrogen peroxide|establishment of protein localization|negative regulation of protein kinase B signaling cascade|phosphatidylinositol 3-kinase cascade|ruffle organization	cytoplasm|nucleus|ruffle membrane	PDZ domain binding|phosphatidylinositol-3,4-bisphosphate binding			kidney(1)	1		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				ATGCTACTAAGCTAAGGCCAA	0.333													188	127					0	0	0.01441	0	0		C	124159876	C	C	124159876	3	2	22	1	0	0	0	0	1	0	0	0	12074	962	34	5	226	5	PLEKHA1	10	124159876	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	19917962	124159876	11374871	98	19255											
GPR26	2849	broad.mit.edu	37	chr10	125434364	125434364	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgtctggaggagcagaaGcggaggcgacagcgagccac	10	3	17	11	4	1	1	0	0	1	1	1	6	1	4	1	4	4	2	1	4	1	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr10:125434364G>A	uc001lhh.2	+	2	752	c.699G>A	c.(697-699)AAG>AAA	p.K233K		NM_153442	NP_703143	Q8NDV2	GPR26_HUMAN	G protein-coupled receptor 26	233	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1		Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)				AGGAGCAGAAGCGGAGGCGAC	0.562													9	64					0	0	0.008291	0	0		A	125434364	A	A	125434364	2	1	22	1	0	0	0	0	0	0	0	1	6699	962	34	2		2	GPR26	10	125434364	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	1274488	125434364	10100383	99	19256											
ADAM8	101	broad.mit.edu	37	chr10	135085440	135085440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggtacaggccacgcccaCggggttcttgctgtggtcct	5	10	13	13	2	1	0	0	0	1	0	2	0	2	0	3	5	2	3	3	5	1	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr10:135085440C>T	uc010qva.1	-	10	910	c.859G>A	c.(859-861)GTG>ATG	p.V287M	ADAM8_uc010quz.1_Missense_Mutation_p.V326M|ADAM8_uc009ybi.2_Missense_Mutation_p.V326M|ADAM8_uc010qvb.1_3'UTR			P78325	ADAM8_HUMAN	SubName: Full=cDNA FLJ50704, highly similar to ADAM 8 (EC 3.4.24.-) (A disintegrinand metalloproteinase domain 8);	287					integrin-mediated signaling pathway|proteolysis		metalloendopeptidase activity	p.N287N(1)		large_intestine(2)|central_nervous_system(1)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;7.72e-06)|OV - Ovarian serous cystadenocarcinoma(35;8.23e-06)|Epithelial(32;1.02e-05)		GCCACGCCCACGGGGTTCTTG	0.647													66	184					0	0	0.01441	0	0		T	135085440	T	T	135085440	3	4	22	1	0	0	0	0	1	0	0	0	252	536	19	1	1468	1	ADAM8	10	135085440	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	9651076	135085440	449307	100	19257											
QSER1	79832	broad.mit.edu	37	chr11	32975670	32975670	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagcggaggagaaggccAatacagagagcgtgatgaat	17	4	15	5	2	0	5	0	2	0	3	0	8	0	6	1	3	3	0	1	3	5	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr11:32975670A>G	uc001mty.2	+	5	4325	c.4058A>G	c.(4057-4059)CAA>CGA	p.Q1353R	QSER1_uc001mtz.1_Missense_Mutation_p.Q1114R|QSER1_uc001mua.2_Missense_Mutation_p.Q858R	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	1353										ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					GGAGAAGGCCAATACAGAGAG	0.428													50	60					0	0	0.01441	0	0		G	32975670	G	G	32975670	3	3	22	1	0	0	0	0	1	0	0	0	12907	130	5	3	4068	3	QSER1	11	32975670	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08		32975670	102030846	101	19258											
CAPRIN1	4076	broad.mit.edu	37	chr11	34107866	34107866	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtaggattcaatgctggaTtttgaaaatcagacacttga	13	13	9	6	0	2	3	2	2	0	1	2	5	2	5	0	2	1	2	0	2	4	5			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr11:34107866T>C	uc001mvh.1	+	11	1326	c.1137T>C	c.(1135-1137)GAT>GAC	p.D379D	CAPRIN1_uc001mvg.2_Silent_p.D379D|CAPRIN1_uc001mvi.2_Silent_p.D379D|CAPRIN1_uc001mvj.1_Silent_p.D298D	NM_005898	NP_005889	Q14444	CAPR1_HUMAN	membrane component chromosome 11 surface marker	379	G3BP1-binding.				negative regulation of translation|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis	cytoplasmic mRNA processing body|cytosol|dendrite|integral to plasma membrane|stress granule	protein binding|RNA binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.00045)|all_hematologic(20;0.0016)				CAATGCTGGATTTTGAAAATC	0.383													15	96					0	0	0.00245	0	0		C	34107866	C	C	34107866	2	2	22	1	0	0	0	0	0	0	0	1	2638	1490	52	3		3	CAPRIN1	11	34107866	Silent	SNP	T	TCGA-BR-4366-01A-01D-1158-08	1132196	34107866	100898650	102	19259											
HRASLS5	117245	broad.mit.edu	37	chr11	63233831	63233831	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaagtaatgctgcccacCtcaaactcctcacctggaga	12	8	8	13	0	2	1	2	0	0	1	3	3	3	2	4	2	3	2	4	2	3	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr11:63233831C>G	uc001nwy.2	-	5	672	c.498G>C	c.(496-498)GAG>GAC	p.E166D	HRASLS5_uc001nwz.2_Missense_Mutation_p.E156D|HRASLS5_uc010rmq.1_Missense_Mutation_p.E166D|HRASLS5_uc009yos.2_RNA	NM_054108	NP_473449	Q96KN8	HRSL5_HUMAN	HRAS-like suppressor family, member 5 isoform 1	166										ovary(1)	1						TGCTGCCCACCTCAAACTCCT	0.498													19	38					0	0	0.014323	0	0		G	63233831	G	G	63233831	3	3	22	1	0	0	0	0	1	0	0	0	7367	680	24	5	349	5	HRASLS5	11	63233831	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	29125965	63233831	71772685	103	19260											
PGR	5241	broad.mit.edu	37	chr11	100912766	100912766	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcaaaccaattgccttgatGagctctctaatgtagcttga	11	13	7	10	0	2	3	1	3	1	0	3	3	2	3	2	0	4	3	2	0	4	5			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr11:100912766G>C	uc001pgh.2	-	7	3299	c.2556C>G	c.(2554-2556)CTC>CTG	p.L852L	PGR_uc001pgg.2_Silent_p.L233L|PGR_uc001pgi.2_Silent_p.L750L|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	852	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	TTGCCTTGATGAGCTCTCTAA	0.403													31	65					0	0	0.009535	0	0		C	100912766	C	C	100912766	2	2	22	1	0	0	0	0	0	0	0	1	11824	1277	45	5		5	PGR	11	100912766	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	37678935	100912766	34093750	104	19261											
OR8B12	219858	broad.mit.edu	37	chr11	124413458	124413458	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtgaccgtgtagaaaccCagaaacaggaagaagagggg	16	3	15	7	2	0	5	0	1	0	4	0	6	0	6	2	4	2	1	2	4	5	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr11:124413458C>A	uc010sam.1	-	1	93	c.93G>T	c.(91-93)CTG>CTT	p.L31L		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	31	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		TGTAGAAACCCAGAAACAGGA	0.512													46	89					4.10826e-27	4.69806e-27	0.01441	1	0		A	124413458	A	A	124413458	2	1	22	1	0	0	0	0	0	0	0	1	11245	581	21	5		5	OR8B12	11	124413458	Silent	SNP	C	TCGA-BR-4366-01A-01D-1158-08	23500692	124413458	10593058	105	19262											
CLEC2B	9976	broad.mit.edu	37	chr12	10005899	10005899	+	Nonstop_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccattatcttagacattaacTtagtgtattcttttcctgca	10	18	4	9	0	2	1	0	0	2	1	3	1	3	1	2	0	2	2	2	0	5	8			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr12:10005899T>G	uc001qwn.2	-	5	1107	c.450A>C	c.(448-450)TAA>TAC	p.*150Y		NM_005127	NP_005118	Q92478	CLC2B_HUMAN	C-type lectin, superfamily member 2	150						integral to plasma membrane	sugar binding				0						AGACATTAACTTAGTGTATTC	0.358													12	21					0	0	0.010729	0	0		G	10005899	G	G	10005899	4	3	22	1	0	0	0	0	0	0	0	0	3510	1616	56	5	3	5	CLEC2B	12	10005899	Nonstop_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08		10005899	123845996	106	19263											
MRPS35	60488	broad.mit.edu	37	chr12	27869258	27869258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagagaaaatggctgttgAccaggactggcctagtgttt	11	10	13	7	0	0	2	0	1	0	1	0	5	0	3	2	3	0	3	2	3	3	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr12:27869258A>G	uc001rih.2	+	3	236	c.188A>G	c.(187-189)GAC>GGC	p.D63G	MRPS35_uc001rii.2_Missense_Mutation_p.D63G	NM_021821	NP_068593	P82673	RT35_HUMAN	mitochondrial ribosomal protein S35 precursor	63					DNA damage response, detection of DNA damage	mitochondrial small ribosomal subunit					0	Lung SC(9;0.0873)					ATGGCTGTTGACCAGGACTGG	0.388													19	60					0	0	0.009535	0	0		G	27869258	G	G	27869258	3	3	22	1	0	0	0	0	1	0	0	0	9862	275	10	3	198	3	MRPS35	12	27869258	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	17863359	27869258	105982637	107	19264											
TMTC1	83857	broad.mit.edu	37	chr12	29670473	29670473	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtgctcccaaaggtgacaAtatctcagctttgtgtgcca	10	11	9	11	0	1	1	1	1	1	0	3	1	2	1	2	1	3	2	2	1	3	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr12:29670473A>G	uc001rjb.2	-	14	2206	c.1732T>C	c.(1732-1734)TTG>CTG	p.L578L	TMTC1_uc001riz.2_Silent_p.L335L|TMTC1_uc001rja.2_Silent_p.L422L|TMTC1_uc001riy.2_Silent_p.L31L	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	686	TPR 7.					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					AAAGGTGACAATATCTCAGCT	0.458													116	127					0	0	0.01441	0	0		G	29670473	G	G	29670473	2	3	22	1	0	0	0	0	0	0	0	1	16285	98	4	3		3	TMTC1	12	29670473	Silent	SNP	A	TCGA-BR-4366-01A-01D-1158-08	1801215	29670473	104181422	108	19265											
YARS2	51067	broad.mit.edu	37	chr12	32908507	32908507	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttgtggcccgctcgctgcAaatgaaacaggcccagcagc	9	6	12	14	3	0	1	0	1	0	0	1	1	0	1	2	2	4	5	2	2	2	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr12:32908507A>C	uc001rli.2	-	1	368	c.302T>G	c.(301-303)TTG>TGG	p.L101W		NM_001040436	NP_001035526	Q9Y2Z4	SYYM_HUMAN	tyrosyl-tRNA synthetase 2, mitochondrial	101					tyrosyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|RNA binding|tyrosine-tRNA ligase activity				0	Lung NSC(5;2.43e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)				L-Tyrosine(DB00135)	CGCTCGCTGCAAATGAAACAG	0.642											OREG0021729	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	89					0	0	0.000602	0	0		C	32908507	C	C	32908507	3	2	22	1	0	0	0	0	1	0	0	0	17494	131	5	5	1151	5	YARS2	12	32908507	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	3238034	32908507	100943388	109	19266											
LRRK2	120892	broad.mit.edu	37	chr12	40653377	40653377	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagtgcagctggaggcgcTtcgagctattttacatttta	9	13	10	9	2	0	0	0	0	0	0	1	2	0	1	1	2	4	4	1	2	3	6			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr12:40653377T>G	uc001rmg.3	+	13	1635	c.1514T>G	c.(1513-1515)CTT>CGT	p.L505R	LRRK2_uc001rmh.1_Missense_Mutation_p.L127R	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	505					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CTGGAGGCGCTTCGAGCTATT	0.388													12	184					0	0	0.00245	0	0		G	40653377	G	G	40653377	3	3	22	1	0	0	0	0	1	0	0	0	9051	1609	56	5	1564	5	LRRK2	12	40653377	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	7744870	40653377	93198518	110	19267											
ACSS3	79611	broad.mit.edu	37	chr12	81627146	81627146	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agggatattatgataccatgGatgctggttacatggatgaa	13	12	12	4	0	0	2	0	2	0	0	0	5	0	5	1	4	3	2	1	4	5	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr12:81627146G>C	uc001szl.1	+	13	1706	c.1615G>C	c.(1615-1617)GAT>CAT	p.D539H	ACSS3_uc001szm.1_Missense_Mutation_p.D538H|ACSS3_uc001szn.1_Missense_Mutation_p.D221H	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	539						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TGATACCATGGATGCTGGTTA	0.343													68	138					0	0	0.01441	0	0		C	81627146	C	C	81627146	3	2	22	1	0	0	0	0	1	0	0	0	190	1174	41	5	1665	5	ACSS3	12	81627146	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	40973769	81627146	52224749	111	19268			1	4		3	3	92	G		1.220043e-07
ACSS3	79611	broad.mit.edu	37	chr12	81627200	81627200	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttatgtctcgagtggatGatgtaataaatgttgcaggt	11	15	12	3	1	1	1	0	1	1	0	2	3	1	2	0	2	1	4	0	2	4	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr12:81627200G>T	uc001szl.1	+	13	1760	c.1669G>T	c.(1669-1671)GAT>TAT	p.D557Y	ACSS3_uc001szm.1_Missense_Mutation_p.D556Y|ACSS3_uc001szn.1_Missense_Mutation_p.D239Y	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	557						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TCGAGTGGATGATGTAATAAA	0.373													60	114					1.3268e-25	1.50241e-25	0.01441	1	0		T	81627200	T	T	81627200	3	4	22	1	0	0	0	0	1	0	0	0	190	1290	45	5	1719	5	ACSS3	12	81627200	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	54	81627200	52224695	112	19269			1	4		3	3	92	G		1.220043e-07
ACSS3	79611	broad.mit.edu	37	chr12	81627237	81627237	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtcacagaatttctgcagGcgccattgaagaggtattga	12	10	12	7	1	2	4	1	2	1	2	2	4	2	4	1	3	1	2	1	3	3	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr12:81627237G>T	uc001szl.1	+	13	1797	c.1706G>T	c.(1705-1707)GGC>GTC	p.G569V	ACSS3_uc001szm.1_Missense_Mutation_p.G568V|ACSS3_uc001szn.1_Missense_Mutation_p.G251V	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	569						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						ATTTCTGCAGGCGCCATTGAA	0.398													64	124					2.01871e-26	2.29716e-26	0.01441	1	0		T	81627237	T	T	81627237	3	4	22	1	0	0	0	0	1	0	0	0	190	1203	42	5	1756	5	ACSS3	12	81627237	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	37	81627237	52224658	113	19270			1	4		3	3	92	G		1.220043e-07
ALDH1L2	160428	broad.mit.edu	37	chr12	105433501	105433501	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccaatacctcttcatgaTctgtttgccaataggagtgg	12	12	8	9	0	3	1	1	1	2	0	3	2	3	2	3	2	3	1	3	2	5	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr12:105433501T>G	uc001tlc.2	-	17	2162	c.2035A>C	c.(2035-2037)ATC>CTC	p.I679L	ALDH1L2_uc009zuo.2_Missense_Mutation_p.I134L|ALDH1L2_uc009zup.2_RNA	NM_001034173	NP_001029345	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	679	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1						CTCTTCATGATCTGTTTGCCA	0.388													54	34					0	0	0.01441	0	0		G	105433501	G	G	105433501	3	3	22	1	0	0	0	0	1	0	0	0	495	1435	50	5	764	5	ALDH1L2	12	105433501	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	23806264	105433501	28418394	114	19271											
NCOR2	9612	broad.mit.edu	37	chr12	124950804	124950804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggcttctcaggctcgggcGgcttggcagcctcctcctcc	2	9	13	17	3	1	0	1	0	1	0	6	0	4	0	4	5	1	4	4	5	0	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr12:124950804G>A	uc010tba.1	-	5	737	c.620C>T	c.(619-621)CCG>CTG	p.P207L	NCOR2_uc010tay.1_Missense_Mutation_p.P207L|NCOR2_uc010taz.1_Missense_Mutation_p.P207L|NCOR2_uc010tbb.1_Missense_Mutation_p.P207L|NCOR2_uc010tbc.1_Missense_Mutation_p.P207L|NCOR2_uc001ugj.1_Missense_Mutation_p.P207L|NCOR2_uc001ugk.1_Missense_Mutation_p.P207L	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	207	Potential.				cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		AGGCTCGGGCGGCTTGGCAGC	0.682													43	29					0	0	0.013114	0	0		A	124950804	A	A	124950804	3	1	22	1	0	0	0	0	1	0	0	0	10255	1116	39	1	7120	1	NCOR2	12	124950804	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	19517303	124950804	8901091	115	19272											
ZNF10	7556	broad.mit.edu	37	chr12	133733085	133733085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagtcttacagccagagatCtcaccttgttgtgcatcata	12	12	7	10	0	3	1	2	0	2	1	4	2	3	1	2	0	3	2	2	0	3	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr12:133733085C>T	uc009zzb.2	+	5	1700	c.1253C>T	c.(1252-1254)TCT>TTT	p.S418F	ZNF268_uc010tbv.1_Intron|ZNF10_uc001ulq.2_Missense_Mutation_p.S418F	NM_015394	NP_056209	P21506	ZNF10_HUMAN	zinc finger protein 10	418	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;1.28e-06)|all_epithelial(31;0.0051)|Lung NSC(355;0.00948)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		AGCCAGAGATCTCACCTTGTT	0.413													98	185					0	0	0.01441	0	0		T	133733085	T	T	133733085	3	4	22	1	0	0	0	0	1	0	0	0	17737	913	32	4	1267	4	ZNF10	12	133733085	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	8782281	133733085	118810	116	19273											
PSPC1	55269	broad.mit.edu	37	chr13	20277329	20277329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatgtttaatatctacgacGcttattagggccttcaaagt	12	14	8	7	2	2	0	1	0	1	0	2	2	2	0	1	1	1	2	1	1	7	7			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr13:20277329G>A	uc001uml.2	-	9	1744	c.1558C>T	c.(1558-1560)CGT>TGT	p.R520C	PSPC1_uc001umj.1_Intron|PSPC1_uc001umk.1_Intron	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	520					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		TATCTACGACGCTTATTAGGG	0.433													8	164					0	0	0.013537	0	0		A	20277329	A	A	20277329	3	1	22	1	0	0	0	0	1	0	0	0	12738	1087	38	1	17	1	PSPC1	13	20277329	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08		20277329	94892549	117	19274											
PABPC3	5042	broad.mit.edu	37	chr13	25671314	25671314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcactagtgcaaaggttatGatggaaggtggtcgcagcaa	13	9	13	6	1	1	1	1	1	0	0	2	2	1	2	0	4	2	4	0	4	5	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr13:25671314G>A	uc001upy.2	+	1	1039	c.978G>A	c.(976-978)ATG>ATA	p.M326I		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	326	RRM 4.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		CAAAGGTTATGATGGAAGGTG	0.408													143	381					0	0	0.01441	0	0		A	25671314	A	A	25671314	3	1	22	1	0	0	0	0	1	0	0	0	11384	1290	45	4	980	4	PABPC3	13	25671314	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	5393985	25671314	89498564	118	19275											
KDELC1	79070	broad.mit.edu	37	chr13	103445952	103445952	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaaatcatgtgttgtaccTtgttatcctttaaggtgtag	12	16	8	5	0	1	0	1	0	0	0	2	0	2	0	2	1	1	4	2	1	7	7			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr13:103445952T>G	uc001vpq.3	-	3	977	c.593A>C	c.(592-594)AAG>ACG	p.K198T	KDELC1_uc001vpr.3_5'UTR	NM_024089	NP_076994	Q6UW63	KDEL1_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 1 precursor	198						endoplasmic reticulum lumen				ovary(1)	1	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					GTGTTGTACCTTGTTATCCTT	0.348													62	104					0	0	0.01441	0	0		G	103445952	G	G	103445952	3	3	22	1	0	0	0	0	1	0	0	0	8133	1623	56	5	947	5	KDELC1	13	103445952	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	77774638	103445952	11723926	119	19276											
CARS2	79587	broad.mit.edu	37	chr13	111298372	111298372	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggcccaggatggcatcaAccaccctgggtgtgtcaaaa	12	6	11	12	0	2	0	2	0	0	0	2	1	2	1	3	4	1	1	3	4	4	0	rs146878400		TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr13:111298372A>G	uc001vrd.2	-	12	1299	c.1259T>C	c.(1258-1260)GTT>GCT	p.V420A	CARS2_uc010tjm.1_RNA	NM_024537	NP_078813	Q9HA77	SYCM_HUMAN	cysteinyl-tRNA synthetase 2, mitochondrial	420					cysteinyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|cysteine-tRNA ligase activity|metal ion binding				0	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.163)		L-Cysteine(DB00151)	GATGGCATCAACCACCCTGGG	0.612													79	182					0	0	0.01441	0	0		G	111298372	G	G	111298372	3	3	22	1	0	0	0	0	1	0	0	0	2661	43	2	3	451	3	CARS2	13	111298372	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	7852420	111298372	3871506	120	19277											
TOX4	9878	broad.mit.edu	37	chr14	21961177	21961177	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ccattctgcagcagcctcctCcactccaggccatgcaacag	9	7	7	18	0	1	0	0	0	1	0	4	0	4	0	6	1	5	3	6	1	1	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr14:21961177C>G	uc001waz.2	+	7	1505	c.1402C>G	c.(1402-1404)CCA>GCA	p.P468A	TOX4_uc001way.2_Missense_Mutation_p.P338A|TOX4_uc001wba.2_RNA|TOX4_uc010tlu.1_Missense_Mutation_p.P445A|TOX4_uc010tlv.1_Missense_Mutation_p.P338A	NM_014828	NP_055643	O94842	TOX4_HUMAN	epidermal Langerhans cell protein LCP1	468	Gln/Pro-rich.					chromatin|nucleus|PTW/PP1 phosphatase complex	DNA binding|protein binding			ovary(1)	1	all_cancers(95;0.000465)		Epithelial(56;6.61e-06)|all cancers(55;5.15e-05)	GBM - Glioblastoma multiforme(265;0.0149)		GCAGCCTCCTCCACTCCAGGC	0.542													72	178					0	0	0.01441	0	0		G	21961177	G	G	21961177	3	3	22	1	0	0	0	0	1	0	0	0	16406	855	30	5	1428	5	TOX4	14	21961177	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08		21961177	85388363	121	19278											
G2E3	55632	broad.mit.edu	37	chr14	31085623	31085623	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttggaaacaagtgtaataaCtgtttagcaattcccatcac	14	12	7	8	0	1	0	1	0	0	0	2	1	2	1	1	1	3	4	1	1	6	6			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr14:31085623C>G	uc001wqk.2	+	15	2158	c.2004C>G	c.(2002-2004)AAC>AAG	p.N668K	G2E3_uc010tpf.1_Missense_Mutation_p.N622K|G2E3_uc001wql.1_Missense_Mutation_p.N180K	NM_017769	NP_060239	Q7L622	G2E3_HUMAN	G2/M-phase specific E3 ubiquitin ligase	668	HECT.				apoptosis|multicellular organismal development|protein modification process	Golgi apparatus|nucleolus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						AGTGTAATAACTGTTTAGCAA	0.378													23	8					0	0	0.012319	0	0		G	31085623	G	G	31085623	3	3	22	1	0	0	0	0	1	0	0	0	6154	564	20	5	2058	5	G2E3	14	31085623	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	9124446	31085623	76263917	122	19279											
OCA2	4948	broad.mit.edu	37	chr15	28228581	28228581	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaatgtttgtgaagatcacTtctgcaatcaggacttgtct	10	14	8	9	0	4	2	2	1	2	1	4	3	4	3	1	1	1	2	1	1	3	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr15:28228581T>G	uc001zbh.3	-	14	1523	c.1413A>C	c.(1411-1413)GAA>GAC	p.E471D	OCA2_uc010ayv.2_Missense_Mutation_p.E447D	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	471	Extracellular (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		TGAAGATCACTTCTGCAATCA	0.463									Oculocutaneous_Albinism				20	68					0	0	0.012319	0	0		G	28228581	G	G	28228581	3	3	22	1	0	0	0	0	1	0	0	0	10834	1606	56	5	1147	5	OCA2	15	28228581	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08		28228581	74302811	123	19280											
CLN6	54982	broad.mit.edu	37	chr15	68504080	68504080	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggtggtgctggtagccaCtgaagagcaggcggtggttg	8	8	18	7	1	0	2	0	1	0	1	0	2	0	2	1	6	3	4	1	6	2	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr15:68504080C>A	uc002arf.2	-	4	577	c.419G>T	c.(418-420)AGT>ATT	p.S140I	CLN6_uc010ujy.1_Intron|CLN6_uc010ujz.1_Missense_Mutation_p.S172I	NM_017882	NP_060352	Q9NWW5	CLN6_HUMAN	CLN6 protein	140					cell death|cholesterol metabolic process|ganglioside metabolic process|glycosaminoglycan metabolic process|lysosomal lumen acidification|positive regulation of proteolysis|protein catabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	protein homodimerization activity				0						CTGGTAGCCACTGAAGAGCAG	0.587													73	117					3.47606e-37	4.0554e-37	0.01441	1	0		A	68504080	A	A	68504080	3	1	22	1	0	0	0	0	1	0	0	0	3548	565	20	5	532	5	CLN6	15	68504080	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	40275499	68504080	34027312	124	19281											
ADPGK	83440	broad.mit.edu	37	chr15	73052844	73052844	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aagaagctcatgtagctttgGaccaactggaccgcaaagaa	15	7	10	9	1	1	2	1	0	0	2	1	4	1	4	2	2	3	4	2	2	6	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr15:73052844G>C	uc002avg.3	-	4	641	c.547C>G	c.(547-549)CCA>GCA	p.P183A	ADPGK_uc010ukw.1_Missense_Mutation_p.P125A|ADPGK_uc002avf.3_Missense_Mutation_p.P183A|ADPGK_uc002avi.3_Missense_Mutation_p.P61A|ADPGK_uc002avh.3_5'UTR	NM_031284	NP_112574	Q9BRR6	ADPGK_HUMAN	ADP-dependent glucokinase	183	ADPK.				glycolysis	extracellular region	ADP-specific glucokinase activity|metal ion binding				0						TGTAGCTTTGGACCAACTGGA	0.498													74	116					0	0	0.01441	0	0		C	73052844	C	C	73052844	3	2	22	1	0	0	0	0	1	0	0	0	330	1174	41	5	959	5	ADPGK	15	73052844	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	4548764	73052844	29478548	125	19282											
IFT140	9742	broad.mit.edu	37	chr16	1614069	1614069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcgcggcgtctcctgcaCggcttcgcatacaaacagcc	8	6	12	15	5	1	0	0	0	1	0	3	1	1	1	2	3	5	3	2	3	2	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr16:1614069C>T	uc002cmb.2	-	17	2358	c.1996G>A	c.(1996-1998)GTG>ATG	p.V666M	IFT140_uc002clz.2_Missense_Mutation_p.V317M	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	666										ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				GTCTCCTGCACGGCTTCGCAT	0.572													5	69					0	0	0.000602	0	0		T	1614069	T	T	1614069	3	4	22	1	0	0	0	0	1	0	0	0	7572	536	19	1	2452	1	IFT140	16	1614069	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08		1614069	88740684	126	19283											
DCUN1D3	123879	broad.mit.edu	37	chr16	20873428	20873428	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acataaagtgtttgtgactaAcctggtgaatttgcacatgg	12	13	10	6	0	0	2	0	2	0	0	0	2	0	2	1	2	2	2	1	2	4	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr16:20873428A>C	uc002dhz.2	-	2	572	c.431_splice	c.e2+1	p.R144_splice	ERI2_uc002dht.3_Intron	NM_173475	NP_775746	Q8IWE4	DCNL3_HUMAN	DCN1, defective in cullin neddylation 1, domain						negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|positive regulation of apoptosis|response to gamma radiation|response to UV-C	perinuclear region of cytoplasm				ovary(2)	2				GBM - Glioblastoma multiforme(48;0.249)		TTTGTGACTAACCTGGTGAAT	0.517													19	56					0	0	0.007413	0	0		C	20873428	C	C	20873428	5	2	22	1	0	0	0	0	0	0	1	0	4318	57	2	5	489	5	DCUN1D3	16	20873428	Splice_Site	SNP	A	TCGA-BR-4366-01A-01D-1158-08	19259359	20873428	69481325	127	19284											
CDH8	1006	broad.mit.edu	37	chr16	61747758	61747758	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tatttaccttcatttttcttGatggtgaaattcggattgtt	8	21	7	5	1	2	2	1	2	1	0	3	3	2	3	1	2	1	1	1	2	3	10			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr16:61747758G>C	uc002eog.1	-	10	1893	c.1641C>G	c.(1639-1641)ATC>ATG	p.I547M		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	547	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		CATTTTTCTTGATGGTGAAAT	0.313													15	29					0	0	0.003163	0	0		C	61747758	C	C	61747758	3	2	22	1	0	0	0	0	1	0	0	0	3119	1280	45	5	770	5	CDH8	16	61747758	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	40874330	61747758	28606995	128	19285											
CDH8	1006	broad.mit.edu	37	chr16	61935315	61935315	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatttgaaatatggtcccAgctccatcacctgataggat	11	14	7	9	0	1	2	1	2	0	0	3	3	3	3	3	2	1	1	3	2	4	5			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr16:61935315A>C	uc002eog.1	-	3	567	c.315T>G	c.(313-315)GCT>GCG	p.A105A		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	105	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		ATATGGTCCCAGCTCCATCAC	0.408													20	51					0	0	0.008871	0	0		C	61935315	C	C	61935315	2	2	22	1	0	0	0	0	0	0	0	1	3119	175	7	5		5	CDH8	16	61935315	Silent	SNP	A	TCGA-BR-4366-01A-01D-1158-08	187557	61935315	28419438	129	19286											
TP53	7157	broad.mit.edu	37	chr17	7578431	7578431	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaacctccgtcatgtgctGtgactgcttgtagatggcca	8	11	10	12	1	1	2	1	1	0	1	2	2	2	2	3	1	3	3	3	1	2	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr17:7578431G>A	uc002gim.2	-	5	693	c.499C>T	c.(499-501)CAG>TAG	p.Q167*	TP53_uc002gig.1_Nonsense_Mutation_p.Q167*|TP53_uc002gih.2_Nonsense_Mutation_p.Q167*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.Q35*|TP53_uc010cng.1_Nonsense_Mutation_p.Q35*|TP53_uc002gii.1_Nonsense_Mutation_p.Q35*|TP53_uc010cnh.1_Nonsense_Mutation_p.Q167*|TP53_uc010cni.1_Nonsense_Mutation_p.Q167*|TP53_uc002gij.2_Nonsense_Mutation_p.Q167*|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Nonsense_Mutation_p.Q74*|TP53_uc002gio.2_Nonsense_Mutation_p.Q35*|TP53_uc010vug.1_Nonsense_Mutation_p.Q128*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	167	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		QH -> HD (in a sporadic cancer; somatic mutation).|Q -> K (in LFS; germline mutation and in a sporadic cancer; somatic mutation).|Q -> L (in sporadic cancers; somatic mutation).|QH -> YL (in a sporadic cancer; somatic mutation).|Q -> R (in sporadic cancers; somatic mutation).|Q -> H (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Q167*(19)|p.Q167fs*14(8)|p.0?(7)|p.Q167R(4)|p.Q167L(3)|p.Q167H(3)|p.Q167Q(3)|p.Q167fs*13(3)|p.Q167fs*3(3)|p.K164fs*3(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.Q167K(1)|p.Y163fs*1(1)|p.P151_V173del23(1)|p.Q167E(1)|p.Q167del(1)|p.Q167fs*12(1)|p.S149fs*72(1)|p.Q167_H168>HD(1)|p.Q167_H168>YL(1)|p.Q167fs*4(1)|p.Q165_M169delQSQHM(1)|p.A159_Q167delAMAIYKQSQ(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GTCATGTGCTGTGACTGCTTG	0.642		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			82	20					0	0	0.01441	0	0		A	7578431	A	A	7578431	4	1	22	1	0	0	0	0	0	1	0	0	16407	1386	48	4	799	4	TP53	17	7578431	Nonsense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08		7578431	73616779	130	19287											
FLCN	201163	broad.mit.edu	37	chr17	17127308	17127308	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagggccaggagttgatGaggtagatccggtccatcat	11	8	15	7	1	1	3	1	2	0	1	3	5	3	5	3	5	0	2	3	5	2	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr17:17127308G>T	uc002gra.3	-	6	1050	c.546C>A	c.(544-546)CTC>CTA	p.L182L	PLD6_uc010cpn.2_Intron|FLCN_uc002grb.3_Silent_p.L182L	NM_144997	NP_659434	Q8NFG4	FLCN_HUMAN	folliculin isoform 1	182					regulation of protein phosphorylation	cytoplasm|nucleus|plasma membrane	protein binding			thyroid(1)|haematopoietic_and_lymphoid_tissue(1)|lung(1)	3						AGGAGTTGATGAGGTAGATCC	0.582									Birt-Hogg-Dub__syndrome|Familial_Non-VHL_Clear_Cell_Renal_Cancer				16	61					3.99206e-14	4.43349e-14	0.007413	1	0		T	17127308	T	T	17127308	2	4	22	1	0	0	0	0	0	0	0	1	5935	1277	45	5		5	FLCN	17	17127308	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	9548877	17127308	64067902	131	19288											
ULK2	9706	broad.mit.edu	37	chr17	19687073	19687073	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgagcccctctaggctgggGggtgaagcaccgtaaggcac	9	6	15	11	1	1	2	0	2	1	0	1	2	1	2	3	5	2	4	3	5	3	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr17:19687073G>A	uc002gwm.3	-	22	2906	c.2397C>T	c.(2395-2397)CCC>CCT	p.P799P	ULK2_uc002gwn.2_Silent_p.P799P	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	799					signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					CTAGGCTGGGGGGTGAAGCAC	0.602													165	58					0	0	0.01441	0	0		A	19687073	A	A	19687073	2	1	22	1	0	0	0	0	0	0	0	1	17002	1219	43	4		4	ULK2	17	19687073	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	2559765	19687073	61508137	132	19289											
UTP6	55813	broad.mit.edu	37	chr17	30207692	30207692	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttcgttgtaggctgctcTtctgtctgtgactcaatctc	4	18	9	10	1	5	1	1	1	4	0	7	1	5	1	0	1	1	5	0	1	2	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr17:30207692T>C	uc002hgr.2	-	11	950	c.867A>G	c.(865-867)GAA>GAG	p.E289E	UTP6_uc002hgq.2_Silent_p.E105E|UTP6_uc010cst.2_Silent_p.E138E|UTP6_uc010wbw.1_Silent_p.E289E	NM_018428	NP_060898	Q9NYH9	UTP6_HUMAN	hepatocellular carcinoma-associated antigen 66	289					rRNA processing	nucleolus	binding			ovary(1)	1		all_hematologic(16;0.0149)|Ovarian(249;0.021)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|Breast(31;0.231)				TAGGCTGCTCTTCTGTCTGTG	0.488													7	273					0	0	0.00308	0	0		C	30207692	C	C	30207692	2	2	22	1	0	0	0	0	0	0	0	1	17128	1606	56	3		3	UTP6	17	30207692	Silent	SNP	T	TCGA-BR-4366-01A-01D-1158-08	10520619	30207692	50987518	133	19290											
RAPGEFL1	51195	broad.mit.edu	37	chr17	38346698	38346698	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcagagaaggtccttcTccagcccactgaggactgtg	8	9	11	13	0	1	2	0	1	1	1	4	4	3	3	4	2	2	1	4	2	1	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr17:38346698T>C	uc010cwu.1	+	7	999	c.509T>C	c.(508-510)CTC>CCC	p.L170P	RAPGEFL1_uc010wfd.1_Missense_Mutation_p.L106P	NM_016339	NP_057423	Q9UHV5	RPGFL_HUMAN	Rap guanine nucleotide exchange factor	376					G-protein coupled receptor protein signaling pathway|nervous system development|small GTPase mediated signal transduction	intracellular|membrane fraction	guanyl-nucleotide exchange factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						AAGGTCCTTCTCCAGCCCACT	0.557													38	68					0	0	0.00623	0	0		C	38346698	C	C	38346698	3	2	22	1	0	0	0	0	1	0	0	0	13074	1551	54	3	527	3	RAPGEFL1	17	38346698	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	8139006	38346698	42848512	134	19291											
KRT33A	3883	broad.mit.edu	37	chr17	39506755	39506755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgctgtgaccgctcccGgatgaggttctccagctccg	4	10	12	15	3	1	2	0	2	1	0	4	3	3	3	4	2	3	5	4	2	0	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr17:39506755G>A	uc002hwk.1	-	1	302	c.265C>T	c.(265-267)CGG>TGG	p.R89W		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	89	Coil 1A.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				GACCGCTCCCGGATGAGGTTC	0.607													40	59					0	0	0.007835	0	0		A	39506755	A	A	39506755	3	1	22	1	0	0	0	0	1	0	0	0	8485	1115	39	1	977	1	KRT33A	17	39506755	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	1160057	39506755	41688455	135	19292											
PRPSAP1	5635	broad.mit.edu	37	chr17	74328423	74328423	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgctctgcttgctgtagggGaagtaggggatgaccccaat	8	11	14	8	0	1	1	0	1	1	0	1	3	1	3	2	4	3	5	2	4	4	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr17:74328423G>A	uc010wta.1	-	4	830	c.384C>T	c.(382-384)TTC>TTT	p.F128F	PRPSAP1_uc010wtb.1_Silent_p.F25F	NM_002766	NP_002757	Q14558	KPRA_HUMAN	phosphoribosyl pyrophosphate	99					nucleotide biosynthetic process		enzyme inhibitor activity|identical protein binding|magnesium ion binding|ribose phosphate diphosphokinase activity			ovary(1)	1						TGCTGTAGGGGAAGTAGGGGA	0.537													99	168					0	0	0.01441	0	0		A	74328423	A	A	74328423	2	1	22	1	0	0	0	0	0	0	0	1	12603	1165	41	4		4	PRPSAP1	17	74328423	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	34821668	74328423	6866787	136	19293											
B3GNTL1	146712	broad.mit.edu	37	chr17	80915242	80915242	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggatgctcaccttgcgcTggctgccggcagtcaagctg	6	8	14	13	2	2	0	2	0	0	0	2	1	2	1	2	3	4	6	2	3	1	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr17:80915242T>G	uc002kgg.1	-	9	868	c.854A>C	c.(853-855)CAG>CCG	p.Q285P	B3GNTL1_uc002kgf.1_Missense_Mutation_p.Q174P|B3GNTL1_uc002kge.1_RNA	NM_001009905	NP_001009905	Q67FW5	B3GNL_HUMAN	UDP-GlcNAc:betaGal	285							transferase activity, transferring glycosyl groups			ovary(1)|pancreas(1)	2	Breast(20;0.000443)|all_neural(118;0.0779)	all_cancers(8;0.0396)|all_epithelial(8;0.0556)	BRCA - Breast invasive adenocarcinoma(99;0.0517)|OV - Ovarian serous cystadenocarcinoma(97;0.0868)			CACCTTGCGCTGGCTGCCGGC	0.692													7	62					0	0	0.008291	0	0		G	80915242	G	G	80915242	3	3	22	1	0	0	0	0	1	0	0	0	1266	1580	55	5	247	5	B3GNTL1	17	80915242	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	6586819	80915242	279968	137	19294											
ROCK1	6093	broad.mit.edu	37	chr18	18539829	18539829	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caataccatagatggattggAttgctccttatcttgttcgt	9	16	8	8	1	1	1	0	0	1	1	3	3	2	3	2	2	2	2	2	2	4	7			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr18:18539829A>G	uc002kte.2	-	29	4425	c.3484T>C	c.(3484-3486)TCC>CCC	p.S1162P		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	1162	PH.|Auto-inhibitory.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					GATGGATTGGATTGCTCCTTA	0.313													4	29					0	0	0.009096	0	0		G	18539829	G	G	18539829	3	3	22	1	0	0	0	0	1	0	0	0	13542	333	12	3	600	3	ROCK1	18	18539829	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08		18539829	59537419	138	19295											
ASXL3	80816	broad.mit.edu	37	chr18	31319396	31319396	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaaactttcatgcatctttGatgtcagaaatatctccaat	14	14	5	8	0	4	2	2	1	2	1	5	3	4	2	1	0	2	1	1	0	5	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr18:31319396G>A	uc010dmg.1	+	11	2083	c.2028G>A	c.(2026-2028)TTG>TTA	p.L676L	ASXL3_uc002kxq.2_Silent_p.L383L	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	676	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						ATGCATCTTTGATGTCAGAAA	0.373													15	185					0	0	0.00245	0	0		A	31319396	A	A	31319396	2	1	22	1	0	0	0	0	0	0	0	1	1069	1281	45	4		4	ASXL3	18	31319396	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	12779567	31319396	46757852	139	19296											
SHC2	25759	broad.mit.edu	37	chr19	422149	422149	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtgcacagcttaccacGccctcggggtccacgagcag	8	6	11	16	3	0	0	0	0	0	0	2	1	1	0	4	2	4	3	4	2	1	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr19:422149G>A	uc002loq.3	-	11	1617	c.1617C>T	c.(1615-1617)GGC>GGT	p.G539G	SHC2_uc002lop.3_Silent_p.G280G	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	539	SH2.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCTTACCACGCCCTCGGGGT	0.682													8	20					0	0	0.004482	0	0		A	422149	A	A	422149	2	1	22	1	0	0	0	0	0	0	0	1	14296	1074	38	1		1	SHC2	19	422149	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08		422149	58706834	140	19297											
MUC16	94025	broad.mit.edu	37	chr19	9007487	9007487	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccattgactggtacttacTtgtggggctggggacggggg	5	11	18	7	1	0	1	0	1	0	0	0	2	0	2	1	7	3	2	1	7	2	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr19:9007487T>C	uc002mkp.2	-	43	39685	c.39481A>G	c.(39481-39483)ACC>GCC	p.T13161A	MUC16_uc010dwi.2_5'Flank|MUC16_uc010dwj.2_5'Flank|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13163	Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGGTACTTACTTGTGGGGCTG	0.458													13	6					0	0	0.004007	0	0		C	9007487	C	C	9007487	3	2	22	1	0	0	0	0	1	0	0	0	9991	1623	56	3	4210	3	MUC16	19	9007487	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	8585338	9007487	50121496	141	19298											
ELAVL3	1995	broad.mit.edu	37	chr19	11565551	11565551	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgaacagctgccacagcacGctctcgtctgcctccggtga	7	7	10	17	4	2	1	0	1	2	0	4	2	3	1	4	1	5	3	4	1	1	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr19:11565551G>A	uc002mry.1	-	7	1274	c.894C>T	c.(892-894)AGC>AGT	p.S298S	ELAVL3_uc002mrx.1_Silent_p.S291S	NM_001420	NP_001411	Q14576	ELAV3_HUMAN	ELAV-like protein 3 isoform 1	298	RRM 3.				cell differentiation|nervous system development		AU-rich element binding|nucleotide binding			ovary(1)|breast(1)|skin(1)	3						GCCACAGCACGCTCTCGTCTG	0.522													39	51					0	0	0.01441	0	0		A	11565551	A	A	11565551	2	1	22	1	0	0	0	0	0	0	0	1	5059	1078	38	1		1	ELAVL3	19	11565551	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	2558064	11565551	47563432	142	19299											
SLC1A6	6511	broad.mit.edu	37	chr19	15067316	15067316	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcccatagcggtgatgaGggcttgtagcatgcccccaa	8	8	13	12	2	0	2	0	2	0	0	0	2	0	2	3	2	4	3	3	2	3	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr19:15067316G>T	uc002naa.1	-	6	1149	c.1141C>A	c.(1141-1143)CTC>ATC	p.L381I	SLC1A6_uc010dzu.1_Intron|SLC1A6_uc010xod.1_Missense_Mutation_p.L317I	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	381	Helical; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	GCGGTGATGAGGGCTTGTAGC	0.582													11	26					6.31663e-08	6.91536e-08	0.003163	1	0		T	15067316	T	T	15067316	3	4	22	1	0	0	0	0	1	0	0	0	14461	1000	35	5	569	5	SLC1A6	19	15067316	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	3501765	15067316	44061667	143	19300											
CCDC105	126402	broad.mit.edu	37	chr19	15121880	15121880	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagatgatcaaaggcggCggcaccttggagaagccgcc	10	5	16	10	3	1	3	1	1	0	2	1	5	1	3	3	5	1	1	3	5	2	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr19:15121880C>T	uc002nae.2	+	1	342	c.243C>T	c.(241-243)GGC>GGT	p.G81G	SLC1A6_uc010xod.1_5'Flank	NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	81					microtubule cytoskeleton organization	microtubule				ovary(1)	1						TCAAAGGCGGCGGCACCTTGG	0.701													5	7					0	0	0.000602	0	0		T	15121880	T	T	15121880	2	4	22	1	0	0	0	0	0	0	0	1	2743	755	27	1		1	CCDC105	19	15121880	Silent	SNP	C	TCGA-BR-4366-01A-01D-1158-08	54564	15121880	44007103	144	19301											
EPHX3	79852	broad.mit.edu	37	chr19	15342603	15342603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaccagttctcagggaagcCgtgcagaaacagcatgaggg	12	6	14	9	1	1	2	1	1	1	1	2	3	1	3	2	2	5	4	2	2	3	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr19:15342603C>T	uc002nap.2	-	2	522	c.313G>A	c.(313-315)GGC>AGC	p.G105S	EPHX3_uc002naq.2_Missense_Mutation_p.G105S	NM_024794	NP_079070	Q9H6B9	EPHX3_HUMAN	abhydrolase domain containing 9 precursor	105						extracellular region	hydrolase activity				0						TCAGGGAAGCCGTGCAGAAAC	0.672													35	60					0	0	0.004289	0	0		T	15342603	T	T	15342603	3	4	22	1	0	0	0	0	1	0	0	0	5189	652	23	1	793	1	EPHX3	19	15342603	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	220723	15342603	43786380	145	19302											
ZNF257	113835	broad.mit.edu	37	chr19	22271961	22271961	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggcaaagcctttaaccAgtcttcacaccttactcaac	11	11	6	13	0	3	0	2	0	1	0	3	0	3	0	3	1	4	1	3	1	4	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr19:22271961A>G	uc010ecx.2	+	4	1578	c.1409A>G	c.(1408-1410)CAG>CGG	p.Q470R	ZNF257_uc010ecy.2_Missense_Mutation_p.Q438R	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	470	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				GCCTTTAACCAGTCTTCACAC	0.408													15	67					0	0	0.00499	0	0		G	22271961	G	G	22271961	3	3	22	1	0	0	0	0	1	0	0	0	17825	188	7	3	1423	3	ZNF257	19	22271961	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	6929358	22271961	36857022	146	19303			2	5		3	3	65	A		6.006957e-08
ZNF257	113835	broad.mit.edu	37	chr19	22271975	22271975	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaccagtcttcacaccttActcaacataaaataattcat	16	13	1	11	0	4	0	3	0	1	0	4	0	4	0	2	0	3	0	2	0	6	6			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr19:22271975A>T	uc010ecx.2	+	4	1592	c.1423A>T	c.(1423-1425)ACT>TCT	p.T475S	ZNF257_uc010ecy.2_Missense_Mutation_p.T443S	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	475	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTCACACCTTACTCAACATAA	0.393													8	71					0	0	0.004482	0	0		T	22271975	T	T	22271975	3	4	22	1	0	0	0	0	1	0	0	0	17825	391	14	5	1437	5	ZNF257	19	22271975	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	14	22271975	36857008	147	19304			2	5		3	3	65	A		6.006957e-08
ZNF257	113835	broad.mit.edu	37	chr19	22272025	22272025	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagccctacaaatgtgaagaAtgtggcaaagcctttaaccg	15	8	9	9	1	0	2	0	1	0	1	0	2	0	2	3	1	4	1	3	1	7	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr19:22272025A>G	uc010ecx.2	+	4	1642	c.1473A>G	c.(1471-1473)GAA>GAG	p.E491E	ZNF257_uc010ecy.2_Silent_p.E459E	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	491	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				AATGTGAAGAATGTGGCAAAG	0.398													9	82					0	0	0.006214	0	0		G	22272025	G	G	22272025	2	3	22	1	0	0	0	0	0	0	0	1	17825	98	4	3		3	ZNF257	19	22272025	Silent	SNP	A	TCGA-BR-4366-01A-01D-1158-08	50	22272025	36856958	148	19305			2	5		3	3	65	A		6.006957e-08
ZNF536	9745	broad.mit.edu	37	chr19	30935907	30935907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccagcatggcccacggcGtcccggagggggacaagcac	8	4	14	15	3	1	0	0	0	1	0	3	2	2	2	3	5	2	2	3	5	1	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr19:30935907G>A	uc002nsu.1	+	2	1576	c.1438G>A	c.(1438-1440)GTC>ATC	p.V480I	ZNF536_uc010edd.1_Missense_Mutation_p.V480I	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	480					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GGCCCACGGCGTCCCGGAGGG	0.662													54	591					0	0	0.01441	0	0		A	30935907	A	A	30935907	3	1	22	1	0	0	0	0	1	0	0	0	17999	1145	40	1	1440	1	ZNF536	19	30935907	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	8663882	30935907	28193076	149	19306											
SPTBN4	57731	broad.mit.edu	37	chr19	41000878	41000878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcaatgccctcattcaccGgcacaggtaccacctggcct	8	9	7	17	1	3	0	3	0	0	0	3	0	3	0	5	3	2	2	5	3	2	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr19:41000878G>A	uc002ony.2	+	6	748	c.662G>A	c.(661-663)CGG>CAG	p.R221Q	SPTBN4_uc002onx.2_Missense_Mutation_p.R221Q|SPTBN4_uc002onz.2_Missense_Mutation_p.R221Q	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	221	Actin-binding.|CH 2.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CTCATTCACCGGCACAGGTAC	0.502													33	24					0	0	0.003271	0	0		A	41000878	A	A	41000878	3	1	22	1	0	0	0	0	1	0	0	0	15146	1116	39	1	680	1	SPTBN4	19	41000878	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	10064971	41000878	18128105	150	19307											
TGM3	7053	broad.mit.edu	37	chr20	2321089	2321089	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccccatcagcgtgccgacCctagggcccaaggaggggtc	7	5	13	16	2	1	0	1	0	0	0	3	2	2	1	5	4	2	0	5	4	2	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr20:2321089C>T	uc002wfx.3	+	13	2041	c.1944C>T	c.(1942-1944)ACC>ACT	p.T648T		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	648					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	GCGTGCCGACCCTAGGGCCCA	0.617													9	298					0	0	0.013537	0	0		T	2321089	T	T	2321089	2	4	22	1	0	0	0	0	0	0	0	1	15856	610	22	4		4	TGM3	20	2321089	Silent	SNP	C	TCGA-BR-4366-01A-01D-1158-08		2321089	60704431	151	19308											
JAG1	182	broad.mit.edu	37	chr20	10625604	10625604	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccattatggcaggggtTgggcaggcagctactgtttc	6	10	14	11	0	0	0	0	0	0	0	1	0	0	0	2	5	2	6	2	5	2	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr20:10625604T>G	uc002wnw.2	-	18	2767	c.2251A>C	c.(2251-2253)AAC>CAC	p.N751H	JAG1_uc010gcd.1_Missense_Mutation_p.N309H	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	751	Extracellular (Potential).|EGF-like 14.				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						TGGCAGGGGTTGGGCAGGCAG	0.577									Alagille_Syndrome				18	368					0	0	0.005443	0	0		G	10625604	G	G	10625604	3	3	22	1	0	0	0	0	1	0	0	0	7950	1812	63	5	1441	5	JAG1	20	10625604	Missense_Mutation	SNP	T	TCGA-BR-4366-01A-01D-1158-08	8304515	10625604	52399916	152	19309											
PHF20	51230	broad.mit.edu	37	chr20	34501210	34501210	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaataaagagaagaaattcaAggagtttgtgagagtgaagc	18	8	13	2	0	1	4	1	2	0	3	1	8	1	5	0	1	1	1	0	1	7	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr20:34501210A>G	uc002xek.1	+	11	1712	c.1601A>G	c.(1600-1602)AAG>AGG	p.K534R	PHF20_uc002xei.1_Missense_Mutation_p.K534R|PHF20_uc010gfo.1_Missense_Mutation_p.K534R|PHF20_uc002xej.1_Missense_Mutation_p.K418R|PHF20_uc002xem.1_RNA	NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	534	Lys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					aagaaattcaaggagtttgtg	0.199													4	27					0	0	0.009096	0	0		G	34501210	G	G	34501210	3	3	22	1	0	0	0	0	1	0	0	0	11850	72	3	3	1639	3	PHF20	20	34501210	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	23875606	34501210	28524310	153	19310											
MATN4	8785	broad.mit.edu	37	chr20	43926920	43926920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggggccgtgcaccctgcGcctcggagaagctgtgctcc	5	6	14	16	4	0	1	0	0	0	1	2	2	1	1	4	3	4	3	4	3	1	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr20:43926920G>A	uc002xnn.2	-	7	1503	c.1316C>T	c.(1315-1317)GCG>GTG	p.A439V	MATN4_uc002xno.2_Missense_Mutation_p.A398V|MATN4_uc002xnp.2_Missense_Mutation_p.A357V|MATN4_uc010zwr.1_Missense_Mutation_p.A387V|MATN4_uc002xnr.1_Missense_Mutation_p.A439V	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	480	VWFA 2.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				TGCACCCTGCGCCTCGGAGAA	0.677													38	170					0	0	0.009718	0	0		A	43926920	A	A	43926920	3	1	22	1	0	0	0	0	1	0	0	0	9354	1087	38	1	445	1	MATN4	20	43926920	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	9425710	43926920	19098600	154	19311											
NFATC2	4773	broad.mit.edu	37	chr20	50139845	50139845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcccacaaggcgagtccGtggcgaggctgttcagggca	8	6	16	11	3	1	0	1	0	0	0	3	3	3	1	2	5	0	3	2	5	1	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr20:50139845G>A	uc002xwd.2	-	2	1155	c.935C>T	c.(934-936)ACG>ATG	p.T312M	NFATC2_uc002xwc.2_Missense_Mutation_p.T312M|NFATC2_uc010zyv.1_Missense_Mutation_p.T93M|NFATC2_uc010zyw.1_Missense_Mutation_p.T93M|NFATC2_uc010zyx.1_Missense_Mutation_p.T292M|NFATC2_uc010zyy.1_Missense_Mutation_p.T93M|NFATC2_uc010zyz.1_Missense_Mutation_p.T93M|NFATC2_uc002xwe.2_Missense_Mutation_p.T292M	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	312					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					AGGCGAGTCCGTGGCGAGGCT	0.687													58	82					0	0	0.01441	0	0		A	50139845	A	A	50139845	3	1	22	1	0	0	0	0	1	0	0	0	10381	1145	40	1	1926	1	NFATC2	20	50139845	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	6212925	50139845	12885675	155	19312											
ZNF217	7764	broad.mit.edu	37	chr20	52193274	52193274	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacaatccacacttggccTgtatctgcagtcagctgcgg	8	10	11	12	1	2	1	1	1	1	0	3	1	3	1	2	2	3	3	2	2	2	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr20:52193274T>G	uc002xwq.3	-	3	2300	c.2029A>C	c.(2029-2031)AGG>CGG	p.R677R	ZNF217_uc010gij.1_Silent_p.R669R	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	677					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			ACACTTGGCCTGTATCTGCAG	0.473													692	213					0	0	0.01441	0	0		G	52193274	G	G	52193274	2	3	22	1	0	0	0	0	0	0	0	1	17797	1579	55	5		5	ZNF217	20	52193274	Silent	SNP	T	TCGA-BR-4366-01A-01D-1158-08	2053429	52193274	10832246	156	19313											
RAE1	8480	broad.mit.edu	37	chr20	55949675	55949675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgcaggtaaatggaatcGcgttccatcctgttcatggc	8	12	10	11	2	1	0	1	0	0	0	4	1	3	1	3	3	1	4	3	3	3	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr20:55949675G>A	uc002xyg.2	+	11	1179	c.838G>A	c.(838-840)GCG>ACG	p.A280T	RAE1_uc010gis.1_Missense_Mutation_p.A233T|RAE1_uc010git.1_Missense_Mutation_p.A280T|RAE1_uc002xyh.2_Missense_Mutation_p.A280T|RAE1_uc002xyi.2_Missense_Mutation_p.A280T	NM_003610	NP_003601	P78406	RAE1L_HUMAN	RAE1 (RNA export 1, S.pombe) homolog	280	WD 4.				carbohydrate metabolic process|glucose transport|mRNA export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|cytoskeleton|nuclear outer membrane|nuclear pore	microtubule binding|RNA binding				0	Lung NSC(12;0.00263)|all_lung(29;0.00828)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;3.7e-14)|Epithelial(14;1.07e-09)|all cancers(14;1.11e-08)			AAATGGAATCGCGTTCCATCC	0.493													172	390					0	0	0.01441	0	0		A	55949675	A	A	55949675	3	1	22	1	0	0	0	0	1	0	0	0	13023	1087	38	1	876	1	RAE1	20	55949675	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	3756401	55949675	7075845	157	19314											
LAMA5	3911	broad.mit.edu	37	chr20	60887023	60887023	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taatggggggcaccatcggcGaagcccgcttgagttttcac	8	9	13	11	3	1	1	1	1	0	0	2	2	1	1	2	4	1	3	2	4	2	4	rs139135120		TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr20:60887023G>A	uc002ycq.2	-	70	9655	c.9588C>T	c.(9586-9588)TTC>TTT	p.F3196F		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3196	Laminin G-like 3.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CACCATCGGCGAAGCCCGCTT	0.652													60	166					0	0	0.01441	0	0		A	60887023	A	A	60887023	2	1	22	1	0	0	0	0	0	0	0	1	8625	1049	37	1		1	LAMA5	20	60887023	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	4937348	60887023	2138497	158	19315											
TPTE	7179	broad.mit.edu	37	chr21	10906954	10906954	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtcattttctcgccaaaaAgtatctccacggcaaaatct	14	11	5	11	2	4	0	1	0	3	0	6	0	4	0	2	1	0	2	2	1	6	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr21:10906954A>C	uc002yip.1	-	24	1975	c.1607T>G	c.(1606-1608)CTT>CGT	p.L536R	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.L518R|TPTE_uc002yir.1_Missense_Mutation_p.L498R|TPTE_uc010gkv.1_Missense_Mutation_p.L398R	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	536	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CTCGCCAAAAAGTATCTCCAC	0.378													4	101					0	0	0.009096	0	0		C	10906954	C	C	10906954	3	2	22	1	0	0	0	0	1	0	0	0	16456	72	3	5	52	5	TPTE	21	10906954	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08		10906954	37222941	159	19316											
DONSON	29980	broad.mit.edu	37	chr21	34957049	34957049	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctctgctggaaggtacaaCggagctcagaggagagtttg	10	8	16	7	1	2	2	1	0	1	2	2	5	2	4	0	5	4	5	0	5	3	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr21:34957049C>G	uc002ysk.2	-	4	699	c.632G>C	c.(631-633)CGT>CCT	p.R211P	DONSON_uc002ysn.1_Missense_Mutation_p.R94P|DONSON_uc002ysi.1_Intron|DONSON_uc002ysj.2_5'UTR|DONSON_uc002ysl.2_5'UTR|DONSON_uc010gme.2_Missense_Mutation_p.R184P|DONSON_uc002ysm.2_Missense_Mutation_p.R211P	NM_017613	NP_060083	Q9NYP3	DONS_HUMAN	downstream neighbor of SON	211					multicellular organismal development	nucleus				ovary(1)|central_nervous_system(1)	2						GAAGGTACAACGGAGCTCAGA	0.443													28	32					0	0	0.00632	0	0		G	34957049	G	G	34957049	3	3	22	1	0	0	0	0	1	0	0	0	4712	536	19	5	1096	5	DONSON	21	34957049	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	24050095	34957049	13172846	160	19317											
ELFN2	114794	broad.mit.edu	37	chr22	37769783	37769783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcgaaaggaagctgggccGctccagggccccggggccag	8	2	18	13	3	0	0	0	0	0	0	1	2	1	1	5	6	1	2	5	6	2	0			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr22:37769783G>A	uc003asq.3	-	3	2578	c.1792C>T	c.(1792-1794)CGG>TGG	p.R598W		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	598	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					AAGCTGGGCCGCTCCAGGGCC	0.711													8	6					0	0	0.001855	0	0		A	37769783	A	A	37769783	3	1	22	1	0	0	0	0	1	0	0	0	5066	1086	38	1	674	1	ELFN2	22	37769783	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08		37769783	13534783	161	19318											
KCNJ4	3761	broad.mit.edu	37	chr22	38823394	38823394	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaagatgcggtccaggccGatgtcatagcccacgttgag	10	7	14	10	3	1	2	1	1	0	1	2	4	2	3	3	3	2	1	3	3	2	2			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr22:38823394G>A	uc003avs.1	-	2	841	c.744C>T	c.(742-744)ATC>ATT	p.I248I	KCNJ4_uc003avt.1_Silent_p.I248I	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	248	Cytoplasmic (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					GGTCCAGGCCGATGTCATAGC	0.632													28	49					0	0	0.013726	0	0		A	38823394	A	A	38823394	2	1	22	1	0	0	0	0	0	0	0	1	8069	1048	37	1		1	KCNJ4	22	38823394	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	1053611	38823394	12481172	162	19319											
EFCAB6	64800	broad.mit.edu	37	chr22	43926804	43926804	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgggctgaatacgcagcAgagcagagtaaaaagatggc	14	8	13	6	1	0	4	0	1	0	3	0	4	0	4	0	2	3	5	0	2	5	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chr22:43926804A>T	uc003bdy.1	-	31	4489	c.4274T>A	c.(4273-4275)CTG>CAG	p.L1425Q	EFCAB6_uc003bdz.1_Missense_Mutation_p.L1273Q|EFCAB6_uc010gzi.1_Missense_Mutation_p.L1273Q	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1425	Interaction with AR.|Interaction with PARK7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				AATACGCAGCAGAGCAGAGTA	0.542													8	91					0	0	0.004482	0	0		T	43926804	T	T	43926804	3	4	22	1	0	0	0	0	1	0	0	0	4945	188	7	5	239	5	EFCAB6	22	43926804	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	5103410	43926804	7377762	163	19320											
P2RY8	286530	broad.mit.edu	37	chrX	1585028	1585028	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggtccctgcacacgcggCcaccgcgtaacgacggcggc	7	3	13	18	7	0	0	0	0	0	0	1	1	1	0	4	4	2	2	4	4	1	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chrX:1585028C>A	uc004cpz.2	-	2	672	c.424G>T	c.(424-426)GCC>TCC	p.A142S		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	142	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCACACGCGGCCACCGCGTAA	0.682			T	CRLF2	B-ALL|Downs associated ALL								14	27					4.7546e-09	5.23006e-09	0.004007	1	0		A	1585028	A	A	1585028	3	1	22	1	0	0	0	0	1	0	0	0	11374	739	26	5	659	5	P2RY8	23	1585028	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08		1585028	153685532	164	19321											
FRMPD4	9758	broad.mit.edu	37	chrX	12736052	12736052	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caagctggccgatggtgaggGgaaggcaccccctaatggga	10	5	16	10	1	0	1	0	1	0	0	0	4	0	3	3	6	1	2	3	6	3	1			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chrX:12736052G>C	uc004cuz.1	+	16	3613	c.3107G>C	c.(3106-3108)GGG>GCG	p.G1036A	FRMPD4_uc011mij.1_Missense_Mutation_p.G1028A	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	1036					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						GATGGTGAGGGGAAGGCACCC	0.512													72	22					0	0	0.01441	0	0		C	12736052	C	C	12736052	3	2	22	1	0	0	0	0	1	0	0	0	6073	1232	43	5	3169	5	FRMPD4	23	12736052	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	11151024	12736052	142534508	165	19322											
FANCB	2187	broad.mit.edu	37	chrX	14883234	14883234	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggccattaaggacccttagGccatccttcatctcatagcc	9	10	8	14	0	2	0	2	0	1	0	4	1	3	1	5	3	1	0	5	3	3	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chrX:14883234G>A	uc004cwg.1	-	3	667	c.399C>T	c.(397-399)GGC>GGT	p.G133G	FANCB_uc004cwh.1_Silent_p.G133G	NM_001018113	NP_001018123	Q8NB91	FANCB_HUMAN	Fanconi anemia complementation group B	133					DNA repair	nucleoplasm				lung(1)	1	Hepatocellular(33;0.183)					GGACCCTTAGGCCATCCTTCA	0.333								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				47	10					0	0	0.01441	0	0		A	14883234	A	A	14883234	2	1	22	1	0	0	0	0	0	0	0	1	5677	1190	42	2		2	FANCB	23	14883234	Silent	SNP	G	TCGA-BR-4366-01A-01D-1158-08	2147182	14883234	140387326	166	19323											
NHS	4810	broad.mit.edu	37	chrX	17745707	17745707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaagaagaaaacaatacaGatctcccttatttagaggaa	21	8	6	6	0	1	4	0	0	1	4	2	5	1	5	1	1	2	0	1	1	10	4			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chrX:17745707G>A	uc004cxx.2	+	6	3756	c.3418G>A	c.(3418-3420)GAT>AAT	p.D1140N	NHS_uc011mix.1_Missense_Mutation_p.D1161N|NHS_uc004cxy.2_Missense_Mutation_p.D984N|NHS_uc004cxz.2_Missense_Mutation_p.D963N|NHS_uc004cya.2_Missense_Mutation_p.D863N	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1140						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					AAACAATACAGATCTCCCTTA	0.413													43	90					0	0	0.01441	0	0		A	17745707	A	A	17745707	3	1	22	1	0	0	0	0	1	0	0	0	10430	942	33	4	3545	4	NHS	23	17745707	Missense_Mutation	SNP	G	TCGA-BR-4366-01A-01D-1158-08	2862473	17745707	137524853	167	19324											
IL1RAPL1	11141	broad.mit.edu	37	chrX	29417401	29417401	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggaggctttgttgtgagaAgaactactgaattaactgtt	12	14	11	4	0	0	3	0	2	0	2	0	5	0	4	0	2	3	3	0	2	5	5			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chrX:29417401A>C	uc004dby.2	+	5	1187	c.679A>C	c.(679-681)AGA>CGA	p.R227R		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	227	Ig-like C2-type 2.|Extracellular (Potential).				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						TGTTGTGAGAAGAACTACTGA	0.308													3	68					0	0	0.009096	0	0		C	29417401	C	C	29417401	2	2	22	1	0	0	0	0	0	0	0	1	7677	64	3	5		5	IL1RAPL1	23	29417401	Silent	SNP	A	TCGA-BR-4366-01A-01D-1158-08	11671694	29417401	125853159	168	19325											
MAOA	4128	broad.mit.edu	37	chrX	43603732	43603732	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccctggggtttgtgctgtAcaaatacaagctcctgccac	8	11	10	12	0	0	0	0	0	0	0	1	0	1	0	3	2	6	4	3	2	4	3			TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chrX:43603732A>T	uc004dfy.2	+	15	1737	c.1556A>T	c.(1555-1557)TAC>TTC	p.Y519F	MAOA_uc011mkw.1_Missense_Mutation_p.Y386F	NM_000240	NP_000231	P21397	AOFA_HUMAN	monoamine oxidase A	519	Mitochondrial intermembrane.				behavior|neurotransmitter biosynthetic process|neurotransmitter catabolic process|neurotransmitter secretion|xenobiotic metabolic process	integral to membrane|mitochondrial outer membrane	primary amine oxidase activity|protein binding			breast(2)|ovary(1)	3					Almotriptan(DB00918)|Carbidopa(DB00190)|Clonazepam(DB01068)|Dopamine(DB00988)|Fluvoxamine(DB00176)|Ginkgo biloba(DB01381)|Imipramine(DB00458)|Isocarboxazid(DB01247)|Levodopa(DB01235)|Linezolid(DB00601)|Lorazepam(DB00186)|Moclobemide(DB01171)|Nicotine(DB00184)|Norepinephrine(DB00368)|Phenelzine(DB00780)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Pseudoephedrine(DB00852)|Rasagiline(DB01367)|Riboflavin(DB00140)|Rizatriptan(DB00953)|Selegiline(DB01037)|Sumatriptan(DB00669)|Testosterone(DB00624)|Tranylcypromine(DB00752)|Zolmitriptan(DB00315)	TTTGTGCTGTACAAATACAAG	0.458													7	90					0	0	0.001984	0	0		T	43603732	T	T	43603732	3	4	22	1	0	0	0	0	1	0	0	0	9243	391	14	5	1614	5	MAOA	23	43603732	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	14186331	43603732	111666828	169	19326											
PABPC5	140886	broad.mit.edu	37	chrX	90690690	90690690	+	Missense_Mutation	SNP	C	A	A																															gacatgctctataagaagttCaggcctgctggccctctgcg																										TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chrX:90690690C>A	uc004efg.2	+	2	554	c.114C>A	c.(112-114)TTC>TTA	p.F38L	PABPC5_uc004eff.1_Intron	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	38	RRM 1.					cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						ATAAGAAGTTCAGGCCTGCTG	0.562													20	6					0.000175454	0.000189392	0.010504	1	0		A	90690690	A	A	90690690	3	1	22	1	0	0	0	0	1	0	0	0	11386	825	29	5	116	5	PABPC5	23	90690690	Missense_Mutation	SNP	C	TCGA-BR-4366-01A-01D-1158-08	47086958	90690690	64579870	170	19327	30	2									
PABPC5	140886	broad.mit.edu	37	chrX	90690691	90690691	+	Missense_Mutation	SNP	A	G	G																															acatgctctataagaagttcAggcctgctggccctctgcga																										TCGA-BR-4366-01A-01D-1158-08	TCGA-BR-4366-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb78138d-9862-4c8e-ac8f-a5a2a31628cc	993d8925-5c1f-43d2-9000-0f6c8f754710	g.chrX:90690691A>G	uc004efg.2	+	2	555	c.115A>G	c.(115-117)AGG>GGG	p.R39G	PABPC5_uc004eff.1_Intron	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	39	RRM 1.					cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						TAAGAAGTTCAGGCCTGCTGG	0.567													20	6					0	0	0.010504	0	0		G	90690691	G	G	90690691	3	3	22	1	0	0	0	0	1	0	0	0	11386	179	7	3	117	3	PABPC5	23	90690691	Missense_Mutation	SNP	A	TCGA-BR-4366-01A-01D-1158-08	1	90690691	64579869	171	19328	30	2									
UBE2J2	118424	broad.mit.edu	37	chr1	1190730	1190730	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgcgaggtttgggacggcCcccggcgcatgcccgttgag	4	7	16	14	5	0	1	0	1	0	0	0	3	0	2	4	4	2	3	4	4	0	2	rs139942147		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:1190730C>A	uc001adn.2	-	7	943	c.633G>T	c.(631-633)GGG>GGT	p.G211G	UBE2J2_uc001adm.2_Silent_p.G176G|UBE2J2_uc001ado.2_Silent_p.G227G|UBE2J2_uc001adp.2_Silent_p.G211G|UBE2J2_uc001adq.2_Silent_p.G159G|UBE2J2_uc001adr.2_Silent_p.G159G|UBE2J2_uc001ads.2_Silent_p.G159G	NM_194458	NP_919440	Q8N2K1	UB2J2_HUMAN	ubiquitin conjugating enzyme E2, J2 isoform 3	211	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ATP binding|ubiquitin-protein ligase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.66e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.53e-21)|Colorectal(212;0.00019)|COAD - Colon adenocarcinoma(227;0.000215)|Kidney(185;0.00255)|BRCA - Breast invasive adenocarcinoma(365;0.00266)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0371)|Lung(427;0.205)		TTGGGACGGCCCCCGGCGCAT	0.647													25	93					1.66031e-10	1.77212e-10	0.003954	1	0		A	1190730	A	A	1190730	2	1	23	1	0	0	0	0	0	0	0	1	16887	610	22	5		5	UBE2J2	1	1190730	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08		1190730	248059891	1	19329											
PRKCZ	5590	broad.mit.edu	37	chr1	2103590	2103590	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacaacgtcctcctggatgcGgacgggcacatcaagctcac	10	6	11	14	3	2	0	2	0	0	0	4	3	4	2	2	3	3	2	2	3	2	0	rs148343947		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:2103590G>A	uc001aiq.2	+	12	1319	c.1158G>A	c.(1156-1158)GCG>GCA	p.A386A	PRKCZ_uc001air.2_Silent_p.A203A|PRKCZ_uc010nyw.1_Silent_p.A282A|PRKCZ_uc001ais.2_Silent_p.A203A|PRKCZ_uc009vla.2_Silent_p.A210A|PRKCZ_uc010nyx.1_RNA|PRKCZ_uc001ait.2_Silent_p.A234A	NM_002744	NP_002735	Q05513	KPCZ_HUMAN	protein kinase C, zeta isoform 1	386	Protein kinase.				anti-apoptosis|intracellular signal transduction|negative regulation of insulin receptor signaling pathway|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein complex assembly|peptidyl-serine phosphorylation|platelet activation	endosome	ATP binding|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(2)	6	all_cancers(77;0.000177)|all_epithelial(69;6.41e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;1.14e-19)|all_lung(118;1.22e-08)|Lung NSC(185;1.24e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;2.96e-37)|OV - Ovarian serous cystadenocarcinoma(86;3.3e-23)|GBM - Glioblastoma multiforme(42;2.85e-08)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.00294)|BRCA - Breast invasive adenocarcinoma(365;0.00493)|STAD - Stomach adenocarcinoma(132;0.00669)|KIRC - Kidney renal clear cell carcinoma(229;0.0411)|Lung(427;0.213)		TCCTGGATGCGGACGGGCACA	0.632													14	40					0	0	0.00245	0	0		A	2103590	A	A	2103590	2	1	23	1	0	0	0	0	0	0	0	1	12539	1103	39	1		1	PRKCZ	1	2103590	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	912860	2103590	247147031	2	19330											
ACTRT2	140625	broad.mit.edu	37	chr1	2938800	2938800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcagtcaccaagctccacGtggcgggcagggacatcacg	10	4	13	14	4	2	0	2	0	0	0	3	1	3	1	2	3	1	3	2	3	1	0	rs147956405	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:2938800G>A	uc001ajz.2	+	1	755	c.550G>A	c.(550-552)GTG>ATG	p.V184M		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	184						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		CAAGCTCCACGTGGCGGGCAG	0.647													15	59					0	0	0.007413	0	0		A	2938800	A	A	2938800	3	1	23	1	0	0	0	0	1	0	0	0	219	1145	40	1	552	1	ACTRT2	1	2938800	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	835210	2938800	246311821	3	19331											
PRDM16	63976	broad.mit.edu	37	chr1	3319548	3319548	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaggactgcgagcggatgttCcccaacaagtacaggtgcca	12	6	12	11	2	0	0	0	0	0	0	1	3	1	2	3	3	5	2	3	3	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:3319548C>T	uc001akf.2	+	6	950	c.870C>T	c.(868-870)TTC>TTT	p.F290F	PRDM16_uc001akc.2_Silent_p.F290F|PRDM16_uc001akd.2_Silent_p.F290F|PRDM16_uc001ake.2_Silent_p.F290F|PRDM16_uc009vlh.2_5'UTR	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	290	C2H2-type 2.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		AGCGGATGTTCCCCAACAAGT	0.453			T	EVI1	MDS|AML								12	52					0	0	0.001855	0	0		T	3319548	T	T	3319548	2	4	23	1	0	0	0	0	0	0	0	1	12479	854	30	4		4	PRDM16	1	3319548	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	380748	3319548	245931073	4	19332											
NPHP4	261734	broad.mit.edu	37	chr1	5933359	5933359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacttccaaggtgacacggCgtccatgcccttctcgttgc	6	10	11	14	3	1	1	0	1	1	0	4	2	3	2	3	3	2	1	3	3	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:5933359C>T	uc001alq.1	-	23	3534	c.3268G>A	c.(3268-3270)GCC>ACC	p.A1090T		NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	1090					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		GGTGACACGGCGTCCATGCCC	0.587													13	45					0	0	0.00245	0	0		T	5933359	T	T	5933359	3	4	23	1	0	0	0	0	1	0	0	0	10600	768	27	1	1044	1	NPHP4	1	5933359	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2613811	5933359	243317262	5	19333											
CLSTN1	22883	broad.mit.edu	37	chr1	9795564	9795564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtctgcgaattccgggcGtggggaactgccgggagttc	6	9	17	9	4	1	1	0	1	1	0	3	4	2	3	2	4	3	1	2	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:9795564G>A	uc001aqh.2	-	13	2603	c.1844C>T	c.(1843-1845)ACG>ATG	p.T615M	CLSTN1_uc001aqi.2_Missense_Mutation_p.T605M|CLSTN1_uc010oag.1_Missense_Mutation_p.T596M|CLSTN1_uc001aqf.2_5'Flank	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	615	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		AATTCCGGGCGTGGGGAACTG	0.507													31	127					0	0	0.010818	0	0		A	9795564	A	A	9795564	3	1	23	1	0	0	0	0	1	0	0	0	3564	1145	40	1	1129	1	CLSTN1	1	9795564	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3862205	9795564	239455057	6	19334											
CLSTN1	22883	broad.mit.edu	37	chr1	9811549	9811549	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accatctttgtcaacagtaaAgggcacgtctggagtgatga	12	10	11	8	1	3	2	1	2	2	0	3	3	3	3	1	2	1	2	1	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:9811549A>G	uc001aqh.2	-	5	1390	c.631T>C	c.(631-633)TTT>CTT	p.F211L	CLSTN1_uc001aqi.2_Missense_Mutation_p.F201L|CLSTN1_uc010oag.1_Missense_Mutation_p.F211L	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	211	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		TCAACAGTAAAGGGCACGTCT	0.527													3	80					0	0	0.004672	0	0		G	9811549	G	G	9811549	3	3	23	1	0	0	0	0	1	0	0	0	3564	72	3	3	2374	3	CLSTN1	1	9811549	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	15985	9811549	239439072	7	19335											
CLSTN1	22883	broad.mit.edu	37	chr1	9833363	9833363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgcatctttatccagcgCgatcagtggggggtcgagga	8	8	16	9	4	2	0	1	0	1	0	4	3	3	1	1	5	1	1	1	5	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:9833363C>T	uc001aqh.2	-	2	940	c.181G>A	c.(181-183)GCG>ACG	p.A61T	CLSTN1_uc001aqi.2_Missense_Mutation_p.A61T|CLSTN1_uc010oag.1_Missense_Mutation_p.A61T	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	61	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		TTATCCAGCGCGATCAGTGGG	0.542													11	43					0	0	0.010729	0	0		T	9833363	T	T	9833363	3	4	23	1	0	0	0	0	1	0	0	0	3564	768	27	1	2836	1	CLSTN1	1	9833363	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	21814	9833363	239417258	8	19336											
PTCHD2	57540	broad.mit.edu	37	chr1	11589888	11589888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcggcttcaacccctgcGtgaacacgggctgcgggaag	7	7	13	14	4	1	1	1	1	0	0	2	2	1	2	3	3	4	2	3	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:11589888G>A	uc001ash.3	+	15	3112	c.2974G>A	c.(2974-2976)GTG>ATG	p.V992M		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	992	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity	p.V1209M(1)		skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CAACCCCTGCGTGAACACGGG	0.642													7	31					0	0	0.004482	0	0		A	11589888	A	A	11589888	3	1	23	1	0	0	0	0	1	0	0	0	12755	1145	40	1	3028	1	PTCHD2	1	11589888	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1756525	11589888	237660733	9	19337											
MFN2	9927	broad.mit.edu	37	chr1	12061540	12061540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgatcccaggccggggaccGcatcttctttgtgtctgcta	5	12	11	13	3	3	0	0	0	3	0	5	2	4	1	3	3	1	2	3	3	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:12061540G>A	uc001atn.3	+	9	1352	c.899G>A	c.(898-900)CGC>CAC	p.R300H	MFN2_uc009vni.2_Missense_Mutation_p.R300H	NM_014874	NP_055689	O95140	MFN2_HUMAN	mitofusin 2	300	Cytoplasmic (Potential).				blood coagulation|mitochondrial fusion|mitochondrial membrane organization|mitochondrion localization|negative regulation of Ras protein signal transduction|negative regulation of smooth muscle cell proliferation|protein targeting to mitochondrion	cytosol|integral to membrane|intrinsic to mitochondrial outer membrane	GTP binding|GTPase activity|ubiquitin protein ligase binding			ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.25e-06)|COAD - Colon adenocarcinoma(227;0.000302)|BRCA - Breast invasive adenocarcinoma(304;0.000329)|Kidney(185;0.000896)|KIRC - Kidney renal clear cell carcinoma(229;0.00274)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		GCCGGGGACCGCATCTTCTTT	0.567													7	27					0	0	0.004482	0	0		A	12061540	A	A	12061540	3	1	23	1	0	0	0	0	1	0	0	0	9542	1087	38	1	925	1	MFN2	1	12061540	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	471652	12061540	237189081	10	19338											
PRDM2	7799	broad.mit.edu	37	chr1	14106911	14106911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtcattcagtgcagcctaCgtgtagtgctgtaaagaaaa	14	10	10	7	1	2	1	2	0	0	1	2	1	2	1	1	0	4	4	1	0	7	4	rs145695645		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:14106911C>T	uc001avi.2	+	8	3477	c.2621C>T	c.(2620-2622)ACG>ATG	p.T874M	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.T874M|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.T673M|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	874						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GTGCAGCCTACGTGTAGTGCT	0.428													34	99					0	0	0.003755	0	0		T	14106911	T	T	14106911	3	4	23	1	0	0	0	0	1	0	0	0	12480	536	19	1	2647	1	PRDM2	1	14106911	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2045371	14106911	235143710	11	19339											
TMEM51	55092	broad.mit.edu	37	chr1	15546202	15546202	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccgcagtatgatgaagTccaggagaaggcccccgaca	12	5	11	13	2	0	3	0	2	0	1	2	5	2	3	5	2	0	2	5	2	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:15546202T>A	uc001avw.3	+	4	1244	c.725T>A	c.(724-726)GTC>GAC	p.V242D	TMEM51_uc010obk.1_Missense_Mutation_p.V242D|TMEM51_uc001avz.2_3'UTR|TMEM51_uc001avy.2_Missense_Mutation_p.V242D|TMEM51_uc001avx.2_Missense_Mutation_p.V242D	NM_001136216	NP_001129688	Q9NW97	TMM51_HUMAN	transmembrane protein 51	242						integral to membrane					0		Renal(390;0.00145)|Breast(348;0.00186)|Colorectal(325;0.00215)|all_lung(284;0.00459)|Lung NSC(340;0.0104)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;2.07e-06)|COAD - Colon adenocarcinoma(227;7.14e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000175)|KIRC - Kidney renal clear cell carcinoma(229;0.00141)|STAD - Stomach adenocarcinoma(313;0.00644)|READ - Rectum adenocarcinoma(331;0.0751)		TATGATGAAGTCCAGGAGAAG	0.562													5	139					0	0	0.001984	0	0		A	15546202	A	A	15546202	3	1	23	1	0	0	0	0	1	0	0	0	16202	1667	58	5	731	5	TMEM51	1	15546202	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1439291	15546202	233704419	12	19340											
SPEN	23013	broad.mit.edu	37	chr1	16261327	16261327	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgattctgtcacagcatcGcagcctccatccaaaggccc	9	8	7	17	1	2	1	1	1	1	0	5	1	4	1	5	1	2	2	5	1	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:16261327G>A	uc001axk.1	+	11	8796	c.8592G>A	c.(8590-8592)TCG>TCA	p.S2864S	SPEN_uc010obp.1_Silent_p.S2823S	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2864	Interaction with RBPSUH (By similarity).				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		TCACAGCATCGCAGCCTCCAT	0.562													9	37					0	0	0.006214	0	0		A	16261327	A	A	16261327	2	1	23	1	0	0	0	0	0	0	0	1	15063	1074	38	1		1	SPEN	1	16261327	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	715125	16261327	232989294	13	19341											
NECAP2	55707	broad.mit.edu	37	chr1	16774560	16774560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgttgttccccagggcgaCgggcgtttattggaattggc	5	13	15	8	3	0	0	0	0	0	0	1	2	1	1	2	4	0	3	2	4	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:16774560C>T	uc001ayo.2	+	4	394	c.304C>T	c.(304-306)CGG>TGG	p.R102W	NECAP2_uc001ayp.3_RNA|NECAP2_uc010ocd.1_Missense_Mutation_p.R76W|NECAP2_uc001ayq.2_Missense_Mutation_p.R102W	NM_018090	NP_060560	Q9NVZ3	NECP2_HUMAN	NECAP endocytosis associated 2 isoform 1	102					endocytosis|protein transport	clathrin vesicle coat|coated pit|plasma membrane					0		Colorectal(325;0.000147)|Renal(390;0.00145)|Lung NSC(340;0.00215)|Breast(348;0.00224)|all_lung(284;0.00351)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(227;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|Kidney(64;0.000181)|KIRC - Kidney renal clear cell carcinoma(64;0.00268)|STAD - Stomach adenocarcinoma(196;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		CCCAGGGCGACGGGCGTTTAT	0.527													49	143					0	0	0.01441	0	0		T	16774560	T	T	16774560	3	4	23	1	0	0	0	0	1	0	0	0	10327	527	19	1	318	1	NECAP2	1	16774560	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	513233	16774560	232476061	14	19342											
UBR4	23352	broad.mit.edu	37	chr1	19465685	19465685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtagaaccatctgtcgctgCtgtactgccctcgtcgtctg	5	12	11	13	3	2	1	0	0	2	1	5	1	2	1	2	1	4	4	2	1	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:19465685C>T	uc001bbi.2	-	59	8627	c.8623G>A	c.(8623-8625)GCA>ACA	p.A2875T	UBR4_uc001bbk.1_Missense_Mutation_p.A522T	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2875					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TCTGTCGCTGCTGTACTGCCC	0.483													4	142					0	0	0.001984	0	0		T	19465685	T	T	19465685	3	4	23	1	0	0	0	0	1	0	0	0	16930	797	28	2	7120	2	UBR4	1	19465685	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2691125	19465685	229784936	15	19343											
HNRNPR	10236	broad.mit.edu	37	chr1	23640194	23640194	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctcacaaacaaaacttttAcctagtaagcaacaaataaa	20	10	2	9	0	1	0	1	0	1	0	2	0	1	0	1	0	5	2	1	0	10	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:23640194A>G	uc001bgr.3	-	9	1178	c.1019T>C	c.(1018-1020)GTA>GCA	p.V340A	HNRNPR_uc001bgo.2_5'Flank|HNRNPR_uc001bgp.3_Missense_Mutation_p.V343A|HNRNPR_uc009vqk.2_Missense_Mutation_p.V242A|HNRNPR_uc001bgs.3_Missense_Mutation_p.V239A|HNRNPR_uc010odw.1_Missense_Mutation_p.V302A|HNRNPR_uc010odx.1_Missense_Mutation_p.V180A|HNRNPR_uc009vql.2_Missense_Mutation_p.V201A	NM_005826	NP_005817	O43390	HNRPR_HUMAN	heterogeneous nuclear ribonucleoprotein R	340						catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00394)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;6.83e-27)|Colorectal(126;6.01e-08)|COAD - Colon adenocarcinoma(152;3.32e-06)|GBM - Glioblastoma multiforme(114;6.69e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00357)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0875)|LUSC - Lung squamous cell carcinoma(448;0.19)		CAAAACTTTTACCTAGTAAGC	0.338													13	50					0	0	0.003163	0	0		G	23640194	G	G	23640194	3	3	23	1	0	0	0	0	1	0	0	0	7288	405	14	3	894	3	HNRNPR	1	23640194	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	4174509	23640194	225610427	16	19344											
MYOM3	127294	broad.mit.edu	37	chr1	24416564	24416564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcccgcgtaccttcaaaagCgtctgtgctgatggtgatct	8	12	10	11	3	3	2	1	2	2	0	4	2	4	2	2	1	3	2	2	1	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:24416564C>T	uc001bin.3	-	13	1640	c.1477G>A	c.(1477-1479)GCT>ACT	p.A493T	MYOM3_uc001bim.3_Missense_Mutation_p.A150T|MYOM3_uc001bio.2_Missense_Mutation_p.A493T|MYOM3_uc001bip.1_Missense_Mutation_p.A150T	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	493										skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		CCTTCAAAAGCGTCTGTGCTG	0.552													9	41					0	0	0.010729	0	0		T	24416564	T	T	24416564	3	4	23	1	0	0	0	0	1	0	0	0	10111	768	27	1	2936	1	MYOM3	1	24416564	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	776370	24416564	224834057	17	19345											
CNKSR1	10256	broad.mit.edu	37	chr1	26508408	26508408	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagatccgagacttgttggaGgagctgagccaggtcttgca	9	9	15	8	1	1	3	0	1	1	2	2	7	2	5	2	3	3	3	2	3	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:26508408G>T	uc001bln.3	+	4	511	c.453G>T	c.(451-453)GAG>GAT	p.E151D	CNKSR1_uc010oex.1_RNA|CNKSR1_uc001blm.3_Missense_Mutation_p.E151D|CNKSR1_uc009vsd.2_Translation_Start_Site|CNKSR1_uc009vse.2_Translation_Start_Site|CNKSR1_uc001blo.2_Translation_Start_Site	NM_006314	NP_006305	Q969H4	CNKR1_HUMAN	connector enhancer of kinase suppressor of Ras	151	CRIC.				Rho protein signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cell cortex|cell-cell junction	protein binding, bridging			lung(1)|kidney(1)	2		Colorectal(325;3.46e-05)|all_lung(284;0.000116)|Lung NSC(340;0.000154)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.72e-26)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|BRCA - Breast invasive adenocarcinoma(304;0.000959)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00823)|READ - Rectum adenocarcinoma(331;0.0649)		ACTTGTTGGAGGAGCTGAGCC	0.512													23	80					1.22574e-08	1.29675e-08	0.014323	1	0		T	26508408	T	T	26508408	3	4	23	1	0	0	0	0	1	0	0	0	3609	991	35	5	467	5	CNKSR1	1	26508408	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2091844	26508408	222742213	18	19346											
EPB41	2035	broad.mit.edu	37	chr1	29342251	29342251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	taaagttttatccacctgacCcagcacagttaacagaagac	15	9	6	11	0	0	3	0	1	0	2	1	3	1	3	3	0	2	3	3	0	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:29342251C>T	uc001brm.1	+	5	884	c.877C>T	c.(877-879)CCA>TCA	p.P293S	EPB41_uc001brg.1_Missense_Mutation_p.P84S|EPB41_uc001brh.1_Missense_Mutation_p.P84S|EPB41_uc001bri.1_Missense_Mutation_p.P258S|EPB41_uc001brj.1_Missense_Mutation_p.P84S|EPB41_uc009vtk.1_Missense_Mutation_p.P258S|EPB41_uc001brk.2_Missense_Mutation_p.P293S|EPB41_uc001brl.1_Missense_Mutation_p.P293S|EPB41_uc009vtl.1_Missense_Mutation_p.P84S|EPB41_uc009vtm.1_5'UTR	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1	293	FERM.				blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)		TCCACCTGACCCAGCACAGTT	0.274													11	37					0	0	0.010729	0	0		T	29342251	T	T	29342251	3	4	23	1	0	0	0	0	1	0	0	0	5159	623	22	4	895	4	EPB41	1	29342251	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2833843	29342251	219908370	19	19347											
PEF1	553115	broad.mit.edu	37	chr1	32096261	32096261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgaagtcctcgaagctgaGccgaatgttgccttgtacag	10	9	12	10	3	0	1	0	1	0	0	2	5	1	1	3	0	4	3	3	0	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:32096261G>A	uc001bth.1	-	5	820	c.808C>T	c.(808-810)CTC>TTC	p.L270F	HCRTR1_uc010ogl.1_Intron|PEF1_uc001bte.1_3'UTR|PEF1_uc001btf.1_Missense_Mutation_p.L109F|PEF1_uc001btg.1_Missense_Mutation_p.L200F	NM_012392	NP_036524	Q9UBV8	PEF1_HUMAN	penta-EF-hand domain containing 1	270	EF-hand 5.|Required for interaction with PDCD6.				response to calcium ion	cytoplasm|membrane	calcium ion binding|protein heterodimerization activity				0		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)|all_neural(195;0.186)		STAD - Stomach adenocarcinoma(196;0.0546)		TCGAAGCTGAGCCGAATGTTG	0.567													7	34					0	0	0.00308	0	0		A	32096261	A	A	32096261	3	1	23	1	0	0	0	0	1	0	0	0	11737	971	34	2	50	2	PEF1	1	32096261	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2754010	32096261	217154360	20	19348											
COL16A1	1307	broad.mit.edu	37	chr1	32164183	32164183	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaccagggcaaactcctcCgggagaccccgagggaatac	12	3	12	14	2	0	1	0	0	0	1	2	4	2	2	5	3	3	2	5	3	3	1	rs76478494	by1000genomes	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:32164183C>T	uc001btk.1	-	5	656	c.291G>A	c.(289-291)CCG>CCA	p.P97P	COL16A1_uc001btj.1_5'UTR|COL16A1_uc001btl.3_Silent_p.P97P	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	97	TSP N-terminal.				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		CAAACTCCTCCGGGAGACCCC	0.567													20	68					0	0	0.008871	0	0		T	32164183	T	T	32164183	2	4	23	1	0	0	0	0	0	0	0	1	3676	639	23	1		1	COL16A1	1	32164183	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	67922	32164183	217086438	21	19349											
BAI2	576	broad.mit.edu	37	chr1	32205538	32205538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttctacctagattatctGtgacaatcagagagctctgg	10	13	8	10	0	4	3	1	1	3	2	5	4	5	3	2	1	2	1	2	1	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:32205538G>A	uc001btn.2	-	14	2510	c.2156C>T	c.(2155-2157)ACA>ATA	p.T719I	BAI2_uc010ogo.1_Missense_Mutation_p.T361I|BAI2_uc010ogp.1_Missense_Mutation_p.T652I|BAI2_uc010ogq.1_Missense_Mutation_p.T719I|BAI2_uc001bto.2_Missense_Mutation_p.T719I|BAI2_uc001btq.1_Missense_Mutation_p.T652I|BAI2_uc010ogr.1_Silent_p.H528H	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	719	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		TAGATTATCTGTGACAATCAG	0.537													9	41					0	0	0.006214	0	0		A	32205538	A	A	32205538	3	1	23	1	0	0	0	0	1	0	0	0	1300	1377	48	4	2681	4	BAI2	1	32205538	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	41355	32205538	217045083	22	19350											
NCDN	23154	broad.mit.edu	37	chr1	36030950	36030950	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctagccctgtcccctgagTatgagggcatctgggccgac	6	9	13	13	1	1	2	0	2	1	0	2	3	2	2	4	2	2	3	4	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:36030950T>C	uc001bza.2	+	8	2003	c.1876T>C	c.(1876-1878)TAT>CAT	p.Y626H	NCDN_uc001bzb.2_Missense_Mutation_p.Y626H|NCDN_uc001bzc.2_Missense_Mutation_p.Y609H	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	626					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GTCCCCTGAGTATGAGGGCAT	0.677													6	106					0	0	0.001168	0	0		C	36030950	C	C	36030950	3	2	23	1	0	0	0	0	1	0	0	0	10233	1638	57	3	1902	3	NCDN	1	36030950	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	3825412	36030950	213219671	23	19351											
MEAF6	64769	broad.mit.edu	37	chr1	37961520	37961520	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttaacttcagatcaatcCtgtgacagaaaagataaaag	17	11	7	6	0	2	4	2	1	0	3	3	4	3	4	1	0	1	1	1	0	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:37961520C>T	uc001cbg.1	-	6	551	c.534_splice	c.e6-1	p.R178_splice	MEAF6_uc001cbd.1_Splice_Site_p.R156_splice|MEAF6_uc001cbe.1_Splice_Site_p.E188_splice|MEAF6_uc009vvd.1_Splice_Site|MEAF6_uc001cbf.1_Splice_Site|MEAF6_uc001cbh.1_Intron	NM_022756	NP_073593	Q9HAF1	EAF6_HUMAN	MYST/Esa1-associated factor 6						histone H2A acetylation|histone H3-K14 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|NuA4 histone acetyltransferase complex|nucleolus	protein binding				0						CAGATCAATCCTGTGACAGAA	0.358													26	93					0	0	0.003954	0	0		T	37961520	T	T	37961520	5	4	23	1	0	0	0	0	0	0	1	0	9439	695	24	4	50	4	MEAF6	1	37961520	Splice_Site	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1930570	37961520	211289101	24	19352											
GNL2	29889	broad.mit.edu	37	chr1	38059433	38059433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcatgttttggcctcctgCtccctgcactcgatctacaa	6	13	6	16	1	2	0	1	0	1	0	5	1	4	0	4	1	3	3	4	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:38059433C>T	uc001cbk.2	-	2	242	c.79G>A	c.(79-81)GCA>ACA	p.A27T	GNL2_uc010oif.1_5'UTR|GNL2_uc009vve.2_Missense_Mutation_p.A27T	NM_013285	NP_037417	Q13823	NOG2_HUMAN	guanine nucleotide binding protein-like 2	27					ribosome biogenesis	nucleolus	GTP binding|GTPase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)				TGGCCTCCTGCTCCCTGCACT	0.483													21	96					0	0	0.00333	0	0		T	38059433	T	T	38059433	3	4	23	1	0	0	0	0	1	0	0	0	6551	797	28	2	2176	2	GNL2	1	38059433	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	97913	38059433	211191188	25	19353											
INPP5B	3633	broad.mit.edu	37	chr1	38354008	38354008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttacattgtatgttcccGcaaaaaacctgtcaccaaag	14	11	5	11	1	1	0	1	0	0	0	2	0	2	0	3	0	2	3	3	0	6	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:38354008G>A	uc001ccg.1	-	10	900	c.806C>T	c.(805-807)GCG>GTG	p.A269V	INPP5B_uc009vvk.1_Missense_Mutation_p.A210V|INPP5B_uc001ccf.1_Missense_Mutation_p.A105V|INPP5B_uc010oij.1_RNA	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	349					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GTATGTTCCCGCAAAAAACCT	0.458													27	81					0	0	0.005443	0	0		A	38354008	A	A	38354008	3	1	23	1	0	0	0	0	1	0	0	0	7771	1087	38	1	1995	1	INPP5B	1	38354008	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	294575	38354008	210896613	26	19354											
UTP11L	51118	broad.mit.edu	37	chr1	38484942	38484942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagttgaacagtttgatgtcGcaactcacctgcaaacagcc	12	10	8	11	1	1	2	1	2	0	0	2	2	1	2	2	0	5	4	2	0	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:38484942G>A	uc001ccn.3	+	6	545	c.454G>A	c.(454-456)GCA>ACA	p.A152T	UTP11L_uc009vvm.2_Missense_Mutation_p.A83T|UTP11L_uc010oil.1_Intron|UTP11L_uc001cco.3_Missense_Mutation_p.A83T	NM_016037	NP_057121	Q9Y3A2	UTP11_HUMAN	UTP11-like, U3 small nucleolar	152					induction of apoptosis|nerve growth factor receptor signaling pathway|nervous system development|rRNA processing	cytoplasm|extracellular space|nucleolus|small-subunit processome	protein binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GTTTGATGTCGCAACTCACCT	0.448													43	158					0	0	0.007835	0	0		A	38484942	A	A	38484942	3	1	23	1	0	0	0	0	1	0	0	0	17120	1087	38	1	476	1	UTP11L	1	38484942	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	130934	38484942	210765679	27	19355											
SMAP2	64744	broad.mit.edu	37	chr1	40872413	40872413	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgactttcacagggccgCgatgggcctcttggaacatt	7	11	11	12	2	2	1	1	1	1	0	3	3	3	2	3	3	1	0	3	3	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:40872413C>T	uc001cfj.2	+	2	174	c.109C>T	c.(109-111)CGA>TGA	p.R37*	SMAP2_uc010ojh.1_Nonsense_Mutation_p.R37*|SMAP2_uc001cfk.2_Nonsense_Mutation_p.R7*|SMAP2_uc010oji.1_5'UTR	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	37	C4-type.|Arf-GAP.				regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)			CACAGGGCCGCGATGGGCCTC	0.433													24	77					0	0	0.005443	0	0		T	40872413	T	T	40872413	4	4	23	1	0	0	0	0	0	1	0	0	14792	760	27	1	115	1	SMAP2	1	40872413	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2387471	40872413	208378208	28	19356											
SMAP2	64744	broad.mit.edu	37	chr1	40874380	40874380	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actttatgaagcctatcttcCtgagacctttcggcgacctc	8	13	7	13	2	1	2	0	2	1	1	4	4	2	2	4	1	1	0	4	1	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:40874380C>A	uc001cfj.2	+	3	358	c.293C>A	c.(292-294)CCT>CAT	p.P98H	SMAP2_uc010ojh.1_Missense_Mutation_p.P98H|SMAP2_uc001cfk.2_Missense_Mutation_p.P68H|SMAP2_uc010oji.1_Missense_Mutation_p.P15H	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	98	Arf-GAP.				regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)			GCCTATCTTCCTGAGACCTTT	0.458													4	122					0.00909568	0.00923866	0.009096	1	0		A	40874380	A	A	40874380	3	1	23	1	0	0	0	0	1	0	0	0	14792	681	24	5	303	5	SMAP2	1	40874380	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1967	40874380	208376241	29	19357											
FOXJ3	22887	broad.mit.edu	37	chr1	42693608	42693608	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaggcagcacatcttccttCggattggtgtctattgccca	7	13	10	11	1	2	0	0	0	2	0	4	1	3	1	2	3	2	3	2	3	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:42693608C>T	uc001che.2	-	7	786	c.474G>A	c.(472-474)CCG>CCA	p.P158P	FOXJ3_uc001chf.2_Silent_p.P158P|FOXJ3_uc001chg.2_Silent_p.P158P|FOXJ3_uc001chh.1_Silent_p.P158P	NM_014947	NP_055762	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	158	Fork-head.				embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)	2	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CATCTTCCTTCGGATTGGTGT	0.373													15	46					0	0	0.004007	0	0		T	42693608	T	T	42693608	2	4	23	1	0	0	0	0	0	0	0	1	6027	871	31	1		1	FOXJ3	1	42693608	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1819228	42693608	206557013	30	19358											
SLC2A1	6513	broad.mit.edu	37	chr1	43396302	43396302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccccagcttacctgggCgatgaggatgccgacgacga	8	6	13	14	4	0	1	0	1	0	0	0	6	0	2	5	2	4	1	5	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:43396302C>T	uc001cik.2	-	4	1036	c.511G>A	c.(511-513)GCC>ACC	p.A171T		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	171	Helical; Name=5; (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	CTTACCTGGGCGATGAGGATG	0.642													4	14					0	0	0.000602	0	0		T	43396302	T	T	43396302	3	4	23	1	0	0	0	0	1	0	0	0	14563	768	27	1	995	1	SLC2A1	1	43396302	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	702694	43396302	205854319	31	19359											
TIE1	7075	broad.mit.edu	37	chr1	43779013	43779013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggcctcaacgccagcaCgcgctacctcttccgcatgc	6	7	9	19	5	2	0	1	0	1	0	3	0	3	0	5	1	4	3	5	1	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:43779013C>T	uc001ciu.2	+	13	2214	c.2135C>T	c.(2134-2136)ACG>ATG	p.T712M	TIE1_uc010okd.1_Missense_Mutation_p.T712M|TIE1_uc010oke.1_Missense_Mutation_p.T667M|TIE1_uc009vwq.2_Missense_Mutation_p.T668M|TIE1_uc010okf.1_Missense_Mutation_p.T357M|TIE1_uc010okg.1_Missense_Mutation_p.T357M	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	712	Fibronectin type-III 3.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AACGCCAGCACGCGCTACCTC	0.647													20	120					0	0	0.00333	0	0		T	43779013	T	T	43779013	3	4	23	1	0	0	0	0	1	0	0	0	15918	536	19	1	2185	1	TIE1	1	43779013	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	382711	43779013	205471608	32	19360											
SLC6A9	6536	broad.mit.edu	37	chr1	44476464	44476464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcccacggcatagcccaCgctcgtcagtacaaactcga	11	5	9	16	4	1	0	1	0	0	0	3	1	1	0	2	2	3	3	2	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:44476464C>T	uc001cll.2	-	3	532	c.340G>A	c.(340-342)GTG>ATG	p.V114M	SLC6A9_uc009vxe.2_Translation_Start_Site|SLC6A9_uc010okm.1_Missense_Mutation_p.V41M|SLC6A9_uc001clm.2_Missense_Mutation_p.V60M|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Missense_Mutation_p.V60M|SLC6A9_uc001cln.2_Missense_Mutation_p.V41M|SLC6A9_uc010oko.1_Intron|SLC6A9_uc010okp.1_Intron	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	114	Helical; Name=1; (Potential).					integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	GCATAGCCCACGCTCGTCAGT	0.627													19	62					0	0	0.007413	0	0		T	44476464	T	T	44476464	3	4	23	1	0	0	0	0	1	0	0	0	14716	536	19	1	1828	1	SLC6A9	1	44476464	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	697451	44476464	204774157	33	19361											
EIF2B3	8891	broad.mit.edu	37	chr1	45407285	45407285	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaaacaggtccacaaccTcatgtaaggcaacgtctgtt	12	10	7	12	1	3	0	1	0	2	0	4	0	4	0	2	2	3	3	2	2	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:45407285T>G	uc001cmt.1	-	4	474	c.347A>C	c.(346-348)GAG>GCG	p.E116A	EIF2B3_uc001cmu.1_Missense_Mutation_p.E116A|EIF2B3_uc001cmv.1_Missense_Mutation_p.E116A|EIF2B3_uc001cmw.2_Missense_Mutation_p.E116A	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,	116					negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GTCCACAACCTCATGTAAGGC	0.418													40	164					0	0	0.00874	0	0		G	45407285	G	G	45407285	3	3	23	1	0	0	0	0	1	0	0	0	5008	1551	54	5	1084	5	EIF2B3	1	45407285	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	930821	45407285	203843336	34	19362											
HECTD3	79654	broad.mit.edu	37	chr1	45473964	45473964	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggcaggtaccaggtggTgcaggacactatcgaggatc	10	6	14	11	1	0	0	0	0	0	0	2	3	0	2	2	6	2	3	2	6	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:45473964T>C	uc009vxk.2	-	9	1366	c.1268A>G	c.(1267-1269)CAC>CGC	p.H423R	HECTD3_uc001cmx.3_5'Flank|HECTD3_uc001cmy.3_Missense_Mutation_p.H33R|HECTD3_uc010olh.1_Missense_Mutation_p.H139R	NM_024602	NP_078878	Q5T447	HECD3_HUMAN	HECT domain containing 3	423					proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	ubiquitin-protein ligase activity				0	Acute lymphoblastic leukemia(166;0.155)					TACCAGGTGGTGCAGGACACT	0.527													8	66					0	0	0.004482	0	0		C	45473964	C	C	45473964	3	2	23	1	0	0	0	0	1	0	0	0	7057	1696	59	3	1369	3	HECTD3	1	45473964	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	66679	45473964	203776657	35	19363											
CYP4B1	1580	broad.mit.edu	37	chr1	47283696	47283696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acagtgctgtatggcccgacCctgaggtaccctttccctgg	6	10	11	14	1	0	1	0	1	0	0	1	2	1	1	4	3	2	3	4	3	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:47283696C>T	uc001cqm.3	+	10	1348	c.1264C>T	c.(1264-1266)CCT>TCT	p.P422S	CYP4B1_uc001cqn.3_Missense_Mutation_p.P423S|CYP4B1_uc009vym.2_Missense_Mutation_p.P408S|CYP4B1_uc010omk.1_Missense_Mutation_p.P259S	NM_000779	NP_000770	P13584	CP4B1_HUMAN	cytochrome P450, family 4, subfamily B,	422					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					ATGGCCCGACCCTGAGGTACC	0.582													48	136					0	0	0.01441	0	0		T	47283696	T	T	47283696	3	4	23	1	0	0	0	0	1	0	0	0	4188	623	22	4	1305	4	CYP4B1	1	47283696	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1809732	47283696	201966925	36	19364											
PODN	127435	broad.mit.edu	37	chr1	53547667	53547667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaggtttaacaagctggCtgtgggctccgtggtggaca	9	9	14	9	1	0	0	0	0	0	0	1	1	1	1	1	5	2	4	1	5	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:53547667C>T	uc001cuv.2	+	10	1827	c.1820C>T	c.(1819-1821)GCT>GTT	p.A607V	PODN_uc001cuw.2_Missense_Mutation_p.A588V|PODN_uc010onr.1_Missense_Mutation_p.A588V|PODN_uc010ons.1_Missense_Mutation_p.A465V	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	559	LRR 19.				negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding			ovary(1)|pancreas(1)	2						AACAAGCTGGCTGTGGGCTCC	0.572													13	70					0	0	0.004007	0	0		T	53547667	T	T	53547667	3	4	23	1	0	0	0	0	1	0	0	0	12197	797	28	2	1858	2	PODN	1	53547667	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	6263971	53547667	195702954	37	19365											
SLC1A7	6512	broad.mit.edu	37	chr1	53580635	53580635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatccagggaggcaagtcCggacatcaagctgggagggc	10	4	17	10	1	1	0	1	0	0	0	3	3	3	3	2	6	1	3	2	6	2	0	rs146594134		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:53580635C>T	uc001cuy.2	-	3	394	c.226G>A	c.(226-228)GGA>AGA	p.G76R	SLC1A7_uc001cuz.3_Missense_Mutation_p.G76R|uc001cva.1_RNA	NM_006671	NP_006662	O00341	EAA5_HUMAN	solute carrier family 1 (glutamate transporter),	76	Helical; (Potential).					integral to membrane|plasma membrane	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|large_intestine(1)	3				Colorectal(1306;0.234)	L-Glutamic Acid(DB00142)	GAGGCAAGTCCGGACATCAAG	0.657													7	32					0	0	0.001984	0	0		T	53580635	T	T	53580635	3	4	23	1	0	0	0	0	1	0	0	0	14462	661	23	1	1492	1	SLC1A7	1	53580635	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	32968	53580635	195669986	38	19366											
LRP8	7804	broad.mit.edu	37	chr1	53727864	53727864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagtctacccagtacaagCgctggctcagcagatcttgg	9	9	12	11	1	3	1	1	0	2	1	3	2	3	2	1	3	4	4	1	3	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:53727864C>T	uc001cvi.1	-	12	1932	c.1790G>A	c.(1789-1791)CGC>CAC	p.R597H	LRP8_uc001cvh.1_Missense_Mutation_p.R150H|LRP8_uc001cvk.1_Missense_Mutation_p.R427H|LRP8_uc001cvj.1_Missense_Mutation_p.R597H|LRP8_uc001cvl.1_Missense_Mutation_p.R468H|LRP8_uc001cvm.1_Missense_Mutation_p.R182H	NM_004631	NP_004622	Q14114	LRP8_HUMAN	low density lipoprotein receptor-related protein	597	LDL-receptor class B 4.|Extracellular (Potential).				cytokine-mediated signaling pathway|endocytosis|lipid metabolic process|platelet activation|proteolysis	caveola	calcium ion binding|very-low-density lipoprotein particle receptor activity				0						CCAGTACAAGCGCTGGCTCAG	0.542													19	90					0	0	0.014323	0	0		T	53727864	T	T	53727864	3	4	23	1	0	0	0	0	1	0	0	0	8981	768	27	1	1133	1	LRP8	1	53727864	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	147229	53727864	195522757	39	19367											
TMEM61	199964	broad.mit.edu	37	chr1	55457572	55457572	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcttcccagtggccgagggGcccccaacaccacctgcata	9	5	10	17	1	0	0	0	0	0	0	1	1	1	0	6	3	3	2	6	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:55457572G>C	uc001cyd.2	+	3	703	c.429G>C	c.(427-429)GGG>GGC	p.G143G		NM_182532	NP_872338	Q8N0U2	TMM61_HUMAN	transmembrane protein 61	143						integral to membrane					0						TGGCCGAGGGGCCCCCAACAC	0.642													25	79					0	0	0.013726	0	0		C	55457572	C	C	55457572	2	2	23	1	0	0	0	0	0	0	0	1	16213	1190	42	5		5	TMEM61	1	55457572	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1729708	55457572	193793049	40	19368											
BSND	7809	broad.mit.edu	37	chr1	55472853	55472853	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagaaggtggccctggCgacgttcaggcctggatgga	8	6	19	8	2	1	1	1	0	0	1	1	6	1	4	2	8	0	1	2	8	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:55472853C>T	uc001cye.2	+	3	699	c.456C>T	c.(454-456)GGC>GGT	p.G152G		NM_057176	NP_476517	Q8WZ55	BSND_HUMAN	barttin	152	Cytoplasmic (Potential).					basolateral plasma membrane|cytoplasm|integral to plasma membrane|protein complex				ovary(1)|skin(1)	2						GTGGCCCTGGCGACGTTCAGG	0.617													12	62					0	0	0.013537	0	0		T	55472853	T	T	55472853	2	4	23	1	0	0	0	0	0	0	0	1	1534	755	27	1		1	BSND	1	55472853	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	15281	55472853	193777768	41	19369											
PGM1	5236	broad.mit.edu	37	chr1	64059334	64059334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcaggaggccacgctggtgGtgggcggggacggccggttc	4	5	22	10	4	0	0	0	0	0	0	1	2	0	2	2	10	0	3	2	10	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:64059334G>A	uc001dbh.2	+	1	388	c.175G>A	c.(175-177)GTG>ATG	p.V59M	PGM1_uc010ooy.1_5'Flank	NM_002633	NP_002624	P36871	PGM1_HUMAN	phosphoglucomutase 1	59					cellular calcium ion homeostasis|galactose catabolic process|glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity			ovary(2)|kidney(1)	3						CACGCTGGTGGTGGGCGGGGA	0.667													4	7					0	0	0.009096	0	0		A	64059334	A	A	64059334	3	1	23	1	0	0	0	0	1	0	0	0	11816	1261	44	4	177	4	PGM1	1	64059334	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	8586481	64059334	185191287	42	19370											
SGIP1	84251	broad.mit.edu	37	chr1	67147821	67147821	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtcccacaggccccccaGggcctcctgggcctcctcgc	4	5	11	21	1	0	0	0	0	0	0	4	0	3	0	8	4	0	0	8	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:67147821G>T	uc001dcr.2	+	15	1301	c.1084G>T	c.(1084-1086)GGG>TGG	p.G362W	SGIP1_uc010opd.1_Intron|SGIP1_uc001dcs.2_Intron|SGIP1_uc001dct.2_Intron|SGIP1_uc009wat.2_Missense_Mutation_p.G129W	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	362	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						AGGCCCCCCAGGGCCTCCTGG	0.567													81	276					4.78148e-37	5.33039e-37	0.01441	1	0		T	67147821	T	T	67147821	3	4	23	1	0	0	0	0	1	0	0	0	14231	1000	35	5	1142	5	SGIP1	1	67147821	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3088487	67147821	182102800	43	19371											
SERBP1	26135	broad.mit.edu	37	chr1	67891817	67891817	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caaaaacaagaaacaacttaCctatcaactgaaaattcgcc	20	7	3	11	1	1	2	1	1	0	1	2	2	1	2	2	0	5	0	2	0	10	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:67891817C>A	uc001ddv.2	-	2	604	c.464_splice	c.e2+1	p.R155_splice	SERBP1_uc001ddx.2_Splice_Site_p.R155_splice|SERBP1_uc001ddy.2_Splice_Site_p.R155_splice|SERBP1_uc001ddw.2_Splice_Site_p.R155_splice	NM_001018067	NP_001018077	Q8NC51	PAIRB_HUMAN	SERPINE1 mRNA binding protein 1 isoform 1						regulation of mRNA stability	nucleus|perinuclear region of cytoplasm	mRNA 3'-UTR binding|protein binding			skin(1)	1						aaaCAACTTACCTATCAACTG	0.224													6	171					3.59834e-05	3.70871e-05	0.001168	1	0		A	67891817	A	A	67891817	5	1	23	1	0	0	0	0	0	0	1	0	14100	521	18	5	789	5	SERBP1	1	67891817	Splice_Site	SNP	C	TCGA-BR-4368-01A-01D-1158-08	743996	67891817	181358804	44	19372											
LRRC7	57554	broad.mit.edu	37	chr1	70504040	70504040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcacatcttcgcatggaCgcaggcctttgatcaggcaa	11	8	11	11	2	2	1	1	1	1	0	3	3	2	2	1	3	1	4	1	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:70504040C>T	uc001dep.2	+	19	2449	c.2419C>T	c.(2419-2421)CGC>TGC	p.R807C	LRRC7_uc009wbg.2_Missense_Mutation_p.R91C|LRRC7_uc001deq.2_Missense_Mutation_p.R48C	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	807						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TTCGCATGGACGCAGGCCTTT	0.483													5	89					0	0	0.000602	0	0		T	70504040	T	T	70504040	3	4	23	1	0	0	0	0	1	0	0	0	9038	536	19	1	2493	1	LRRC7	1	70504040	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2612223	70504040	178746581	45	19373											
LHX8	431707	broad.mit.edu	37	chr1	75622692	75622692	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtctccacccatgttagaaGaaatggcttattctgcctac	10	13	7	11	0	2	2	0	0	2	2	3	2	2	2	3	1	2	2	3	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:75622692G>C	uc001dgo.2	+	9	1589	c.925G>C	c.(925-927)GAA>CAA	p.E309Q	LHX8_uc001dgq.2_Missense_Mutation_p.E248Q	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	309						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CATGTTAGAAGAAATGGCTTA	0.498													5	119					0	0	0.001168	0	0		C	75622692	C	C	75622692	3	2	23	1	0	0	0	0	1	0	0	0	8792	943	33	5	955	5	LHX8	1	75622692	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5118652	75622692	173627929	46	19374											
USP33	23032	broad.mit.edu	37	chr1	78187594	78187594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccaaaaccagctagggaCacatgagacaacaaacctga	18	3	7	13	0	0	2	0	2	0	1	0	4	0	3	4	1	4	1	4	1	5	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:78187594C>T	uc001dht.2	-	15	2019	c.1672G>A	c.(1672-1674)GTC>ATC	p.V558I	USP33_uc001dhs.2_Missense_Mutation_p.V279I|USP33_uc001dhu.2_Missense_Mutation_p.V527I|USP33_uc001dhv.2_Missense_Mutation_p.V363I|USP33_uc001dhw.2_Intron	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	558					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						CAGCTAGGGACACATGAGACA	0.383													13	47					0	0	0.001855	0	0		T	78187594	T	T	78187594	3	4	23	1	0	0	0	0	1	0	0	0	17090	478	17	4	1212	4	USP33	1	78187594	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2564902	78187594	171063027	47	19375											
LPAR3	23566	broad.mit.edu	37	chr1	85279838	85279838	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accaccaggcccggggtccaGcataccacaaacgcccctgc	10	3	9	19	2	0	0	0	0	0	0	1	0	1	0	7	3	4	1	7	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:85279838G>A	uc001dkl.2	-	2	792	c.753C>T	c.(751-753)TGC>TGT	p.C251C	LPAR3_uc009wcj.1_Silent_p.C251C	NM_012152	NP_036284	Q9UBY5	LPAR3_HUMAN	lysophosphatidic acid receptor 3	251	Helical; Name=6; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane|intracellular membrane-bounded organelle				lung(3)|ovary(2)	5						CCGGGGTCCAGCATACCACAA	0.577													20	80					0	0	0.010504	0	0		A	85279838	A	A	85279838	2	1	23	1	0	0	0	0	0	0	0	1	8924	963	34	2		2	LPAR3	1	85279838	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	7092244	85279838	163970783	48	19376											
GBP5	115362	broad.mit.edu	37	chr1	89733134	89733134	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaccctgatcaattttgtTcacagtattgtacacaaagg	13	12	7	9	0	2	1	2	1	0	0	2	1	2	1	1	1	2	4	1	1	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:89733134T>C	uc001dnc.2	-	5	931	c.394A>G	c.(394-396)AAC>GAC	p.N132D	GBP5_uc001dnd.2_Missense_Mutation_p.N132D|GBP5_uc001dne.1_Missense_Mutation_p.N132D	NM_052942	NP_443174	Q96PP8	GBP5_HUMAN	guanylate-binding protein 5	132						plasma membrane	GTP binding|GTPase activity			ovary(1)	1				all cancers(265;0.00784)|Epithelial(280;0.0286)		TCAATTTTGTTCACAGTATTG	0.438													18	61					0	0	0.010504	0	0		C	89733134	C	C	89733134	3	2	23	1	0	0	0	0	1	0	0	0	6292	1783	62	3	1398	3	GBP5	1	89733134	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	4453296	89733134	159517487	49	19377											
LRRC8C	84230	broad.mit.edu	37	chr1	90178423	90178423	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcactgtggaaatgaaaggCctgaagacagatttggacct	14	9	11	7	0	1	4	1	2	0	2	1	6	1	6	2	3	0	0	2	3	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:90178423C>T	uc001dnl.3	+	3	536	c.294C>T	c.(292-294)GGC>GGT	p.G98G		NM_032270	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member	98						endoplasmic reticulum membrane|integral to membrane				ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		AAATGAAAGGCCTGAAGACAG	0.478													22	111					0	0	0.014323	0	0		T	90178423	T	T	90178423	2	4	23	1	0	0	0	0	0	0	0	1	9041	726	26	2		2	LRRC8C	1	90178423	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	445289	90178423	159072198	50	19378											
DNTTIP2	30836	broad.mit.edu	37	chr1	94343392	94343392	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagtactactttctggatgCgcttgaatcccattagcagc	9	12	8	12	1	1	1	0	1	1	0	2	2	2	2	2	1	5	3	2	1	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:94343392C>T	uc001dqf.2	-	2	137	c.99G>A	c.(97-99)GCG>GCA	p.A33A	DNTTIP2_uc010otm.1_RNA|DNTTIP2_uc009wdo.1_Intron	NM_014597	NP_055412	Q5QJE6	TDIF2_HUMAN	deoxynucleotidyltransferase, terminal,	33					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_lung(203;0.0111)|Lung NSC(277;0.0347)		all cancers(265;0.00679)|GBM - Glioblastoma multiforme(16;0.0278)|Epithelial(280;0.128)		TTTCTGGATGCGCTTGAATCC	0.443													7	32					0	0	0.004482	0	0		T	94343392	T	T	94343392	2	4	23	1	0	0	0	0	0	0	0	1	4688	755	27	1		1	DNTTIP2	1	94343392	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4164969	94343392	154907229	51	19379											
DPYD	1806	broad.mit.edu	37	chr1	98058829	98058829	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgaagacgatgaacacaCggcgagctccacaacgtaga	14	6	10	11	4	1	4	0	2	1	2	2	6	2	4	1	1	3	2	1	1	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:98058829C>T	uc001drv.2	-	10	1210	c.1073G>A	c.(1072-1074)CGT>CAT	p.R358H		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	358					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	GATGAACACACGGCGAGCTCC	0.468													30	136					0	0	0.010818	0	0		T	98058829	T	T	98058829	3	4	23	1	0	0	0	0	1	0	0	0	4751	536	19	1	2060	1	DPYD	1	98058829	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3715437	98058829	151191792	52	19380											
AGL	178	broad.mit.edu	37	chr1	100336320	100336320	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacatttttcagtccatcCgaaaaataatttgggaggat	13	14	8	6	1	1	1	1	1	0	0	3	4	3	3	2	2	0	0	2	2	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:100336320C>T	uc001dsi.1	+	7	1253	c.853C>T	c.(853-855)CGA>TGA	p.R285*	AGL_uc001dsj.1_Nonsense_Mutation_p.R285*|AGL_uc001dsk.1_Nonsense_Mutation_p.R285*|AGL_uc001dsl.1_Nonsense_Mutation_p.R285*|AGL_uc001dsm.1_Nonsense_Mutation_p.R269*|AGL_uc001dsn.1_Nonsense_Mutation_p.R268*	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	285	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		TCAGTCCATCCGAAAAATAAT	0.284													7	44					0	0	0.001984	0	0		T	100336320	T	T	100336320	4	4	23	1	0	0	0	0	0	1	0	0	384	644	23	1	944	1	AGL	1	100336320	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2277491	100336320	148914301	53	19381											
SASS6	163786	broad.mit.edu	37	chr1	100568561	100568561	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttggcagatatcgaatgagGgaaggtattctggaatgcaa	13	11	13	4	1	1	2	0	1	1	1	2	5	1	4	0	4	1	3	0	4	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:100568561G>T	uc001dsu.2	-	14	1765	c.1624C>A	c.(1624-1626)CCT>ACT	p.P542T	SASS6_uc009wdz.2_Missense_Mutation_p.P375T	NM_194292	NP_919268	Q6UVJ0	SAS6_HUMAN	spindle assembly abnormal protein 6	542					centriole replication	centriole				upper_aerodigestive_tract(1)|ovary(1)	2		all_epithelial(167;4.58e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.085)|all cancers(265;0.139)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.197)		ATCGAATGAGGGAAGGTATTC	0.388													29	101					2.12542e-12	2.28891e-12	0.00632	1	0		T	100568561	T	T	100568561	3	4	23	1	0	0	0	0	1	0	0	0	13875	1232	43	5	365	5	SASS6	1	100568561	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	232241	100568561	148682060	54	19382											
VCAM1	7412	broad.mit.edu	37	chr1	101186087	101186087	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatatcttgctcagattggTgactccgtctcattgacttg	8	15	9	9	1	3	4	2	2	2	2	5	4	4	4	1	1	1	1	1	1	1	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:101186087T>C	uc001dti.2	+	2	240	c.120T>C	c.(118-120)GGT>GGC	p.G40G	VCAM1_uc001dtj.2_Silent_p.G40G|VCAM1_uc010ouj.1_Silent_p.G40G	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	40	Ig-like C2-type 1.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	CTCAGATTGGTGACTCCGTCT	0.438													36	107					0	0	0.005524	0	0		C	101186087	C	C	101186087	2	2	23	1	0	0	0	0	0	0	0	1	17163	1683	59	3		3	VCAM1	1	101186087	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	617526	101186087	148064534	55	19383											
SARS	6301	broad.mit.edu	37	chr1	109777940	109777940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaccgggatgagtggctcCggccggaggacctgcccatc	6	6	15	14	3	0	1	0	1	0	0	2	4	1	4	5	5	2	2	5	5	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:109777940C>T	uc001dwu.1	+	7	931	c.856C>T	c.(856-858)CGG>TGG	p.R286W	SARS_uc001dwt.1_Missense_Mutation_p.R286W|SARS_uc001dwv.1_Missense_Mutation_p.R286W|SARS_uc001dww.1_Missense_Mutation_p.R219W|SARS_uc001dwx.1_Missense_Mutation_p.R238W|SARS_uc009wfa.1_Missense_Mutation_p.R286W|SARS_uc001dwy.1_Missense_Mutation_p.R111W|SARS_uc001dwz.1_Missense_Mutation_p.R111W	NM_006513	NP_006504	P49591	SYSC_HUMAN	seryl-tRNA synthetase	286					seryl-tRNA aminoacylation|tRNA processing	cytosol	ATP binding|protein binding|RNA binding|serine-tRNA ligase activity			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0301)|Lung(183;0.0677)|COAD - Colon adenocarcinoma(174;0.116)|Epithelial(280;0.233)	L-Serine(DB00133)	TGAGTGGCTCCGGCCGGAGGA	0.587													25	116					0	0	0.008361	0	0		T	109777940	T	T	109777940	3	4	23	1	0	0	0	0	1	0	0	0	13869	643	23	1	882	1	SARS	1	109777940	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	8591853	109777940	139472681	56	19384											
CELSR2	1952	broad.mit.edu	37	chr1	109806835	109806835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggagccagcggggggcccGgccatgccattctgtccttc	4	8	15	14	2	1	0	0	0	1	0	3	1	2	1	5	5	3	0	5	5	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:109806835G>A	uc001dxa.3	+	10	5198	c.5137G>A	c.(5137-5139)GGC>AGC	p.G1713S		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	1713	Extracellular (Potential).|Laminin G-like 2.				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		CGGGGGGCCCGGCCATGCCAT	0.657											OREG0013632	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	63					0	0	0.004007	0	0		A	109806835	A	A	109806835	3	1	23	1	0	0	0	0	1	0	0	0	3225	1116	39	1	5175	1	CELSR2	1	109806835	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	28895	109806835	139443786	57	19385											
PSRC1	84722	broad.mit.edu	37	chr1	109824371	109824371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcgtcaaagagttcacaGtgggcagcaggtctcggaca	10	7	13	11	3	3	1	2	0	1	1	5	2	4	2	1	3	1	3	1	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:109824371G>A	uc001dxg.2	-	4	511	c.389C>T	c.(388-390)ACT>ATT	p.T130I	PSRC1_uc001dxb.2_5'UTR|PSRC1_uc001dxc.2_Missense_Mutation_p.T130I|PSRC1_uc001dxd.2_Missense_Mutation_p.T130I|PSRC1_uc001dxe.2_Missense_Mutation_p.T130I|PSRC1_uc001dxf.2_Missense_Mutation_p.T130I|PSRC1_uc001dxh.2_Missense_Mutation_p.T130I|PSRC1_uc001dxi.2_Missense_Mutation_p.T130I|PSRC1_uc001dxj.2_Missense_Mutation_p.T130I	NM_001032290	NP_001027461	Q6PGN9	PSRC1_HUMAN	proline/serine-rich coiled-coil 1 isoform c	130	4 X 4 AA repeats of P-X-X-P.				cell division|microtubule bundle formation|mitotic metaphase plate congression|negative regulation of cell growth|positive regulation of microtubule polymerization|positive regulation of transcription, DNA-dependent|regulation of mitotic spindle organization	cytosol|midbody|spindle pole	microtubule binding				0		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0286)|Lung(183;0.0658)|COAD - Colon adenocarcinoma(174;0.112)|Epithelial(280;0.188)|all cancers(265;0.213)		AGAGTTCACAGTGGGCAGCAG	0.642													24	108					0	0	0.003954	0	0		A	109824371	A	A	109824371	3	1	23	1	0	0	0	0	1	0	0	0	12741	1029	36	4	693	4	PSRC1	1	109824371	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	17536	109824371	139426250	58	19386											
SORT1	6272	broad.mit.edu	37	chr1	109884778	109884778	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgtggatccttcttgttgtAtcctagaacagatgtcaata	11	14	8	8	1	2	2	1	0	1	2	4	3	4	3	2	1	1	2	2	1	5	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:109884778A>G	uc001dxm.1	-	9	1015	c.966T>C	c.(964-966)GAT>GAC	p.D322D	SORT1_uc010ovi.1_Silent_p.D185D	NM_002959	NP_002950	Q99523	SORT_HUMAN	sortilin 1 preproprotein	322	Extracellular (Potential).				endocytosis|endosome to lysosome transport|endosome transport via multivesicular body sorting pathway|glucose import|Golgi to endosome transport|induction of apoptosis by extracellular signals|myotube differentiation|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|neuropeptide signaling pathway|ossification|plasma membrane to endosome transport|regulation of gene expression|response to insulin stimulus|vesicle organization	cell surface|coated pit|early endosome|endoplasmic reticulum membrane|endosome membrane|Golgi cisterna membrane|integral to membrane|lysosomal membrane|microsome|nuclear membrane|perinuclear region of cytoplasm|plasma membrane	enzyme binding|nerve growth factor binding|nerve growth factor receptor activity|neurotensin receptor activity, non-G-protein coupled			ovary(1)	1		all_epithelial(167;4.69e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0529)|Colorectal(144;0.142)|Epithelial(280;0.145)|Kidney(133;0.169)|all cancers(265;0.184)		TTCTTGTTGTATCCTAGAACA	0.423													3	61					0	0	0.004672	0	0		G	109884778	G	G	109884778	2	3	23	1	0	0	0	0	0	0	0	1	14960	446	16	3		3	SORT1	1	109884778	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	60407	109884778	139365843	59	19387											
RBM15	64783	broad.mit.edu	37	chr1	110883026	110883026	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggagagagaaagagactaCccgttctatgagagagtgcg	13	7	14	7	2	1	5	0	1	1	4	1	9	1	5	1	1	2	1	1	1	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:110883026C>T	uc001dzl.1	+	1	1082	c.999C>T	c.(997-999)TAC>TAT	p.Y333Y	RBM15_uc001dzm.1_Silent_p.Y333Y|uc001dzj.2_5'Flank	NM_022768	NP_073605	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	333					interspecies interaction between organisms	nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		AAAGAGACTACCCGTTCTATG	0.587			T	MKL1	acute megakaryocytic leukemia								10	88					0	0	0.003163	0	0		T	110883026	T	T	110883026	2	4	23	1	0	0	0	0	0	0	0	1	13141	518	18	4		4	RBM15	1	110883026	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	998248	110883026	138367595	60	19388											
RAP1A	5906	broad.mit.edu	37	chr1	112246040	112246040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctattacagctcagtccaCgtttaacgacttacaggacc	11	12	6	12	2	2	0	1	0	1	0	3	2	3	1	2	1	4	2	2	1	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:112246040C>T	uc001ebi.2	+	5	370	c.266C>T	c.(265-267)ACG>ATG	p.T89M	RAP1A_uc001ebk.2_Missense_Mutation_p.T89M|RAP1A_uc001ebl.2_Missense_Mutation_p.T89M|RAP1A_uc001ebm.2_RNA	NM_002884	NP_002875	P62834	RAP1A_HUMAN	RAP1A, member of RAS oncogene family precursor	89					activation of MAPKK activity|blood coagulation|energy reserve metabolic process|nerve growth factor receptor signaling pathway|regulation of insulin secretion	cytosol|plasma membrane	GTP binding|GTPase activity				0		all_cancers(81;6.79e-06)|all_epithelial(167;2.42e-05)|all_lung(203;0.000105)|Lung NSC(277;0.00021)		Lung(183;0.0183)|Colorectal(144;0.0418)|LUSC - Lung squamous cell carcinoma(189;0.0966)|all cancers(265;0.098)|Epithelial(280;0.0981)|COAD - Colon adenocarcinoma(174;0.141)		GCTCAGTCCACGTTTAACGAC	0.373													20	77					0	0	0.010504	0	0		T	112246040	T	T	112246040	3	4	23	1	0	0	0	0	1	0	0	0	13060	536	19	1	280	1	RAP1A	1	112246040	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1363014	112246040	137004581	61	19389											
TRIM33	51592	broad.mit.edu	37	chr1	114969882	114969882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagggacaggatcacacCgtgctttcaaaatatgacgc	13	7	10	11	2	2	1	2	1	0	0	2	3	2	3	1	2	2	2	1	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:114969882C>T	uc001eew.2	-	8	1421	c.1337G>A	c.(1336-1338)CGG>CAG	p.R446Q	TRIM33_uc010owr.1_Missense_Mutation_p.R54Q|TRIM33_uc010ows.1_Missense_Mutation_p.R54Q|TRIM33_uc001eex.2_Missense_Mutation_p.R446Q	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	446					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGGATCACACCGTGCTTTCAA	0.363			T	RET	papillary thyroid								20	102					0	0	0.007413	0	0		T	114969882	T	T	114969882	3	4	23	1	0	0	0	0	1	0	0	0	16533	652	23	1	2098	1	TRIM33	1	114969882	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2723842	114969882	134280739	62	19390											
NHLH2	4808	broad.mit.edu	37	chr1	116380938	116380938	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcccagggactccggatccGagtgcgccgagctgggatgg	6	5	17	13	5	0	0	0	0	0	0	2	5	2	3	4	4	2	1	4	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:116380938G>A	uc009wgz.2	-	2	561	c.56C>T	c.(55-57)TCG>TTG	p.S19L	NHLH2_uc001efy.2_Missense_Mutation_p.S19L	NM_001111061	NP_001104531	Q02577	HEN2_HUMAN	nescient helix loop helix 2	19					cell differentiation|central nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0	Lung SC(450;0.184)	all_cancers(81;1.75e-06)|all_epithelial(167;1.16e-06)|all_lung(203;9.55e-06)|Lung NSC(69;5.83e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		CTCCGGATCCGAGTGCGCCGA	0.632													5	27					0	0	0.000602	0	0		A	116380938	A	A	116380938	3	1	23	1	0	0	0	0	1	0	0	0	10423	1059	37	1	355	1	NHLH2	1	116380938	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1411056	116380938	132869683	63	19391											
WARS2	10352	broad.mit.edu	37	chr1	119575803	119575803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgccactatgttggacaCgccagcgcggccagccgggt	7	5	13	16	5	0	0	0	0	0	0	0	1	0	1	5	3	2	1	5	3	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:119575803C>T	uc001ehn.2	-	6	842	c.814G>A	c.(814-816)GTG>ATG	p.V272M	WARS2_uc010oxf.1_Missense_Mutation_p.V178M|WARS2_uc001ehm.2_3'UTR|WARS2_uc010oxg.1_Missense_Mutation_p.V215M|WARS2_uc010oxh.1_3'UTR	NM_015836	NP_056651	Q9UGM6	SYWM_HUMAN	mitochondrial tryptophanyl tRNA synthetase 2	272					tryptophanyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|tryptophan-tRNA ligase activity				0	all_neural(166;0.187)	all_lung(203;2.48e-06)|Lung NSC(69;1.74e-05)|all_epithelial(167;0.000564)		Lung(183;0.0629)	L-Tryptophan(DB00150)	ATGTTGGACACGCCAGCGCGG	0.627													12	38					0	0	0.00333	0	0		T	119575803	T	T	119575803	3	4	23	1	0	0	0	0	1	0	0	0	17276	536	19	1	272	1	WARS2	1	119575803	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3194865	119575803	129674818	64	19392											
ADAM30	11085	broad.mit.edu	37	chr1	120436658	120436658	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgctttagattcttcctGtccagtttttgctttagatt	5	22	7	7	0	1	2	0	0	1	2	3	2	3	2	2	0	2	4	2	0	2	10			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:120436658G>A	uc001eij.2	-	1	2456	c.2302C>T	c.(2302-2304)CAG>TAG	p.Q768*		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	768	5 X 9 AA approximate repeats.|5.|Cytoplasmic (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		GATTCTTCCTGTCCAGTTTTT	0.358													90	389					0	0	0.01441	0	0		A	120436658	A	A	120436658	4	1	23	1	0	0	0	0	0	1	0	0	248	1386	48	4	74	4	ADAM30	1	120436658	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	860855	120436658	128813963	65	19393											
NOTCH2	4853	broad.mit.edu	37	chr1	120462980	120462980	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtccatggccgtcgatcaAtggggtcatcttcttctgag	6	13	12	10	2	5	1	2	1	3	0	7	2	6	1	2	3	0	0	2	3	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:120462980A>T	uc001eik.2	-	30	5607	c.5351T>A	c.(5350-5352)ATT>AAT	p.I1784N		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1784	Cytoplasmic (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCGTCGATCAATGGGGTCATC	0.532			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				23	73					0	0	0.00278	0	0		T	120462980	T	T	120462980	3	4	23	1	0	0	0	0	1	0	0	0	10567	101	4	5	2084	5	NOTCH2	1	120462980	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	26322	120462980	128787641	66	19394											
PDE4DIP	9659	broad.mit.edu	37	chr1	144904690	144904690	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctgcttgtaaggcctcAttgagccgactccgttcatc	6	13	8	14	2	3	1	2	1	1	0	6	2	4	1	3	1	2	3	3	1	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:144904690A>G	uc001elw.3	-	20	2913	c.2622T>C	c.(2620-2622)AAT>AAC	p.N874N	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Silent_p.N940N|PDE4DIP_uc001emc.1_Silent_p.N874N|PDE4DIP_uc001emd.1_Silent_p.N874N|PDE4DIP_uc001emb.1_Silent_p.N1037N|PDE4DIP_uc001eme.1_Intron|PDE4DIP_uc001emf.1_Silent_p.N659N	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	874	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GTAAGGCCTCATTGAGCCGAC	0.448			T	PDGFRB	MPD								12	247					0	0	0.013537	0	0		G	144904690	G	G	144904690	2	3	23	1	0	0	0	0	0	0	0	1	11662	214	8	3		3	PDE4DIP	1	144904690	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	24441710	144904690	104345931	67	19395											
PDE4DIP	9659	broad.mit.edu	37	chr1	144922006	144922006	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagcactctgaagatcaagCagagctacctgttgctgagc	13	8	10	10	0	2	4	1	2	1	2	2	4	2	4	1	0	6	5	1	0	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:144922006C>T	uc001elw.3	-	9	1314	c.1023G>A	c.(1021-1023)CTG>CTA	p.L341L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Silent_p.L407L|PDE4DIP_uc001emc.1_Silent_p.L341L|PDE4DIP_uc001emd.1_Silent_p.L341L|PDE4DIP_uc001emb.1_Silent_p.L504L|PDE4DIP_uc001eme.1_5'UTR|PDE4DIP_uc001emf.1_Silent_p.L128L	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	341					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GAAGATCAAGCAGAGCTACCT	0.483			T	PDGFRB	MPD								32	225					0	0	0.012213	0	0		T	144922006	T	T	144922006	2	4	23	1	0	0	0	0	0	0	0	1	11662	697	25	2		2	PDE4DIP	1	144922006	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	17316	144922006	104328615	68	19396											
NOTCH2NL	388677	broad.mit.edu	37	chr1	145281505	145281505	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtgagactgatgtcaaTgagtgtgacattccaggaca	13	10	12	6	0	1	4	1	4	0	1	2	6	2	5	1	1	0	0	1	1	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:145281505T>C	uc001emn.3	+	4	805	c.435T>C	c.(433-435)AAT>AAC	p.N145N	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_5'UTR|NOTCH2NL_uc001emm.3_Silent_p.N145N|NOTCH2NL_uc001emo.2_Silent_p.N145N|NOTCH2NL_uc010oyh.1_RNA	NM_203458	NP_982283	Q7Z3S9	NT2NL_HUMAN	Notch homolog 2 N-terminal like protein	145	EGF-like 5; calcium-binding (Potential).				cell differentiation|multicellular organismal development|Notch signaling pathway	cytoplasm|extracellular region	calcium ion binding			ovary(1)	1						CTGATGTCAATGAGTGTGACA	0.547													12	380					0	0	0.013537	0	0		C	145281505	C	C	145281505	2	2	23	1	0	0	0	0	0	0	0	1	10568	1461	51	3		3	NOTCH2NL	1	145281505	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	359499	145281505	103969116	69	19397											
HFE2	148738	broad.mit.edu	37	chr1	145416569	145416569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caaggtagcagaggatgtggCcatggccttctcagctgaac	10	8	13	10	0	1	2	1	1	1	1	2	3	1	3	2	4	3	3	2	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:145416569C>T	uc001eni.2	+	4	1239	c.914C>T	c.(913-915)GCC>GTC	p.A305V	NBPF10_uc001emp.3_Intron|HFE2_uc001enj.2_Missense_Mutation_p.A79V|HFE2_uc001enk.2_Missense_Mutation_p.A192V|HFE2_uc001enl.2_Missense_Mutation_p.A79V	NM_213653	NP_998818	Q6ZVN8	RGMC_HUMAN	hemojuvelin isoform a precursor	305					axon guidance	anchored to membrane				ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GAGGATGTGGCCATGGCCTTC	0.552													8	117					0	0	0.006214	0	0		T	145416569	T	T	145416569	3	4	23	1	0	0	0	0	1	0	0	0	7098	739	26	2	924	2	HFE2	1	145416569	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	135064	145416569	103834052	70	19398											
ANKRD34A	284615	broad.mit.edu	37	chr1	145473759	145473759	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtacggaggtcatcatcaTcaccaccgatacctcgccct	9	8	9	15	3	4	0	4	0	0	0	5	2	4	1	4	3	2	1	4	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:145473759T>C	uc001enq.1	+	4	1724	c.431T>C	c.(430-432)ATC>ACC	p.I144T	NBPF10_uc001emp.3_Intron	NM_001039888	NP_001034977	Q69YU3	AN34A_HUMAN	ankyrin repeat domain 34	144											0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GTCATCATCATCACCACCGAT	0.652													6	59					0	0	0.001168	0	0		C	145473759	C	C	145473759	3	2	23	1	0	0	0	0	1	0	0	0	662	1435	50	3	433	3	ANKRD34A	1	145473759	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	57190	145473759	103776862	71	19399											
ANKRD35	148741	broad.mit.edu	37	chr1	145562723	145562723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgatgagcgggaagaGccaggagatcggaaagctga	13	3	17	8	3	0	4	0	2	0	2	1	8	0	6	2	4	3	1	2	4	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:145562723G>A	uc001eob.1	+	10	2519	c.2411G>A	c.(2410-2412)AGC>AAC	p.S804N	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Missense_Mutation_p.S647N	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	804	Potential.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					AGCGGGAAGAGCCAGGAGATC	0.617													7	22					0	0	0.001984	0	0		A	145562723	A	A	145562723	3	1	23	1	0	0	0	0	1	0	0	0	664	971	34	2	2449	2	ANKRD35	1	145562723	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	88964	145562723	103687898	72	19400											
GJA5	2702	broad.mit.edu	37	chr1	147231341	147231341	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcccaggaagctccaatcGcccatcttggcacagccagg	9	8	9	15	1	1	0	0	0	1	0	4	1	3	1	4	3	2	2	4	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:147231341G>A	uc001eps.1	-	2	147	c.6C>T	c.(4-6)GGC>GGT	p.G2G	GJA5_uc001ept.1_Silent_p.G2G	NM_181703	NP_859054	P36382	CXA5_HUMAN	connexin 40	2	Cytoplasmic (Potential).				angiogenesis|cell-cell junction assembly|muscle contraction	integral to membrane				ovary(1)	1	all_hematologic(923;0.0276)		LUSC - Lung squamous cell carcinoma(543;0.202)			AGCTCCAATCGCCCATCTTGG	0.498													13	79					0	0	0.004007	0	0		A	147231341	A	A	147231341	2	1	23	1	0	0	0	0	0	0	0	1	6419	1074	38	1		1	GJA5	1	147231341	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1668618	147231341	102019280	73	19401											
MTMR11	10903	broad.mit.edu	37	chr1	149905749	149905749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctaaccatcacactgaccGgtccacggccctgatgaaag	11	6	8	16	2	1	3	1	3	0	0	2	3	2	3	5	2	1	0	5	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:149905749G>A	uc001etl.3	-	8	1021	c.770C>T	c.(769-771)CCG>CTG	p.P257L	MTMR11_uc001etm.1_Missense_Mutation_p.P185L|MTMR11_uc010pbm.1_Missense_Mutation_p.P229L|MTMR11_uc010pbn.1_Missense_Mutation_p.P99L	NM_001145862	NP_001139334	A4FU01	MTMRB_HUMAN	myotubularin related protein 11 isoform a	257	Myotubularin phosphatase.						phosphatase activity			central_nervous_system(1)	1	Breast(34;0.0009)|Ovarian(49;0.0377)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			CACACTGACCGGTCCACGGCC	0.562													42	185					0	0	0.01441	0	0		A	149905749	A	A	149905749	3	1	23	1	0	0	0	0	1	0	0	0	9958	1130	39	1	1438	1	MTMR11	1	149905749	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2674408	149905749	99344872	74	19402											
OTUD7B	56957	broad.mit.edu	37	chr1	149939441	149939441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagatgcccctagacaggcGtttttctgcaatgagaaatg	11	10	12	8	1	1	3	0	1	1	3	1	5	1	3	2	2	2	2	2	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:149939441G>A	uc001etn.2	-	4	636	c.280C>T	c.(280-282)CGC>TGC	p.R94C	OTUD7B_uc001eto.2_Intron	NM_020205	NP_064590	Q6GQQ9	OTU7B_HUMAN	zinc finger protein Cezanne	94					negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)			CTAGACAGGCGTTTTTCTGCA	0.537													18	60					0	0	0.008871	0	0		A	149939441	A	A	149939441	3	1	23	1	0	0	0	0	1	0	0	0	11338	1145	40	1	2287	1	OTUD7B	1	149939441	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	33692	149939441	99311180	75	19403											
ANP32E	81611	broad.mit.edu	37	chr1	150199124	150199124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcttcatcatcttcatcgCcatctttaaaaaatcattta	12	16	1	12	1	7	0	4	0	3	0	8	0	7	0	2	0	0	0	2	0	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:150199124C>T	uc001etw.2	-	5	867	c.497G>A	c.(496-498)GGC>GAC	p.G166D	ANP32E_uc010pbt.1_RNA|ANP32E_uc010pbu.1_Missense_Mutation_p.G118D|ANP32E_uc010pbv.1_Missense_Mutation_p.G125D|ANP32E_uc001etv.3_Missense_Mutation_p.G166D|ANP32E_uc010pbw.1_Missense_Mutation_p.A111T	NM_030920	NP_112182	Q9BTT0	AN32E_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32	166	Asp/Glu-rich (highly acidic).					cytoplasmic membrane-bounded vesicle|nucleus	phosphatase inhibitor activity				0	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			ATCTTCATCGCCATCTTTAAA	0.294													10	50					0	0	0.006214	0	0		T	150199124	T	T	150199124	3	4	23	1	0	0	0	0	1	0	0	0	709	739	26	2	321	2	ANP32E	1	150199124	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	259683	150199124	99051497	76	19404											
TARS2	80222	broad.mit.edu	37	chr1	150476841	150476841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccacgatgccctgggcCggccacatcagtgtgggaca	8	6	12	15	2	1	0	1	0	0	0	2	2	2	1	5	3	1	0	5	3	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:150476841C>T	uc001euq.2	+	14	1655	c.1648C>T	c.(1648-1650)CGG>TGG	p.R550W	TARS2_uc001eur.2_Missense_Mutation_p.R468W|TARS2_uc009wlt.2_Missense_Mutation_p.R176W|TARS2_uc009wls.2_Missense_Mutation_p.R420W	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	550					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	TGCCCTGGGCCGGCCACATCA	0.453													9	52					0	0	0.010729	0	0		T	150476841	T	T	150476841	3	4	23	1	0	0	0	0	1	0	0	0	15585	643	23	1	1702	1	TARS2	1	150476841	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	277717	150476841	98773780	77	19405											
TARS2	80222	broad.mit.edu	37	chr1	150479415	150479415	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggccagaaagagcaaagtAagagaacagtgaacattcgg	17	6	12	6	1	0	4	0	1	0	3	1	5	0	4	1	2	3	2	1	2	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:150479415A>G	uc001euq.2	+	18	2039	c.2032A>G	c.(2032-2034)AAG>GAG	p.K678E	TARS2_uc001eur.2_Missense_Mutation_p.K596E|TARS2_uc009wlt.2_Missense_Mutation_p.K304E|TARS2_uc009wls.2_Missense_Mutation_p.K548E|ECM1_uc010pce.1_5'Flank|ECM1_uc010pcf.1_5'Flank|ECM1_uc001eus.2_5'Flank|ECM1_uc001eut.2_5'Flank|ECM1_uc001euu.2_5'Flank|ECM1_uc001euv.2_5'Flank|ECM1_uc009wlu.2_5'Flank	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	678					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	AGAGCAAAGTAAGAGAACAGT	0.512													19	59					0	0	0.012319	0	0		G	150479415	G	G	150479415	3	3	23	1	0	0	0	0	1	0	0	0	15585	363	13	3	2102	3	TARS2	1	150479415	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2574	150479415	98771206	78	19406											
TCHH	7062	broad.mit.edu	37	chr1	152081942	152081942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaatcttccaactgccGgaactgttcattctctctgc	7	13	8	13	1	4	0	1	0	3	0	6	2	5	2	2	2	4	1	2	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:152081942G>A	uc001ezp.2	-	2	3751	c.3751C>T	c.(3751-3753)CGG>TGG	p.R1251W	TCHH_uc009wne.1_Missense_Mutation_p.R1251W	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1251					keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCAACTGCCGGAACTGTTCA	0.507													32	111					0	0	0.012213	0	0		A	152081942	A	A	152081942	3	1	23	1	0	0	0	0	1	0	0	0	15725	1115	39	1	2084	1	TCHH	1	152081942	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1602527	152081942	97168679	79	19407											
FLG2	388698	broad.mit.edu	37	chr1	152329498	152329498	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgttctctaattcttgacTgagtagagtttgattcatgc	8	19	8	6	0	3	4	1	3	2	1	4	4	3	4	0	0	1	3	0	0	2	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:152329498T>C	uc001ezw.3	-	3	837	c.764A>G	c.(763-765)CAG>CGG	p.Q255R	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	255	Ser-rich.|Filaggrin 1.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AATTCTTGACTGAGTAGAGTT	0.453													50	190					0	0	0.01441	0	0		C	152329498	C	C	152329498	3	2	23	1	0	0	0	0	1	0	0	0	5937	1580	55	3	6415	3	FLG2	1	152329498	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	247556	152329498	96921123	80	19408											
DENND4B	9909	broad.mit.edu	37	chr1	153912194	153912194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggctccttggacttcgcGctccagccgggccctgcggc	4	7	14	16	4	0	0	0	0	0	0	3	2	2	1	4	4	2	2	4	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:153912194G>A	uc001fdd.1	-	12	2091	c.1690C>T	c.(1690-1692)CGC>TGC	p.R564C		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	564	dDENN.									ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TGGACTTCGCGCTCCAGCCGG	0.657													8	51					0	0	0.013537	0	0		A	153912194	A	A	153912194	3	1	23	1	0	0	0	0	1	0	0	0	4440	1087	38	1	2868	1	DENND4B	1	153912194	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1582696	153912194	95338427	81	19409											
SLC39A1	27173	broad.mit.edu	37	chr1	153932959	153932959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctcgctgcagccctaccGccagcccctcgaacacggag	7	5	11	18	4	1	0	0	0	1	0	3	2	1	1	5	2	5	2	5	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:153932959G>A	uc001fdh.2	-	4	759	c.590C>T	c.(589-591)GCG>GTG	p.A197V	CRTC2_uc010ped.1_5'Flank|SLC39A1_uc001fdi.2_Missense_Mutation_p.A197V|SLC39A1_uc001fdj.2_Missense_Mutation_p.A197V|SLC39A1_uc001fdk.2_Missense_Mutation_p.A197V|SLC39A1_uc010pee.1_Missense_Mutation_p.A95V|SLC39A1_uc001fdl.2_Missense_Mutation_p.A197V	NM_014437	NP_055252	Q9NY26	S39A1_HUMAN	solute carrier family 39 (zinc transporter),	197	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|membrane fraction|plasma membrane	zinc ion transmembrane transporter activity				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)	Colorectal(1306;0.019)		CAGCCCTACCGCCAGCCCCTC	0.677													11	37					0	0	0.013537	0	0		A	153932959	A	A	153932959	3	1	23	1	0	0	0	0	1	0	0	0	14637	1087	38	1	388	1	SLC39A1	1	153932959	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	20765	153932959	95317662	82	19410											
PKLR	5313	broad.mit.edu	37	chr1	155264954	155264954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccgtcgtcaatgtagatgCggccccccaccggcacgacc	7	5	11	18	5	1	1	1	0	0	1	2	2	1	1	6	2	1	2	6	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:155264954C>T	uc001fkb.3	-	5	686	c.647G>A	c.(646-648)CGC>CAC	p.R216H	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Missense_Mutation_p.R185H	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	216					endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	AATGTAGATGCGGCCCCCCAC	0.652													34	99					0	0	0.003271	0	0		T	155264954	T	T	155264954	3	4	23	1	0	0	0	0	1	0	0	0	11995	768	27	1	1105	1	PKLR	1	155264954	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1331995	155264954	93985667	83	19411											
ARHGEF2	9181	broad.mit.edu	37	chr1	155927507	155927507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaggcagacactcacgtgCgcacgctctgctgaatgacc	9	6	12	14	3	2	3	1	2	1	1	2	3	2	3	1	2	2	5	1	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:155927507C>T	uc001fmt.2	-	13	1830	c.1712G>A	c.(1711-1713)CGC>CAC	p.R571H	ARHGEF2_uc001fmr.2_Missense_Mutation_p.R543H|ARHGEF2_uc001fms.2_Missense_Mutation_p.R570H|ARHGEF2_uc001fmu.2_Missense_Mutation_p.R615H	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	571	PH.				actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					CACTCACGTGCGCACGCTCTG	0.572													11	50					0	0	0.00245	0	0		T	155927507	T	T	155927507	3	4	23	1	0	0	0	0	1	0	0	0	903	768	27	1	1288	1	ARHGEF2	1	155927507	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	662553	155927507	93323114	84	19412											
BCAN	63827	broad.mit.edu	37	chr1	156621478	156621478	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggcccctaggacgctcCtaggtaagtcggatccctta	9	8	11	13	2	0	1	0	0	0	1	3	3	2	3	4	4	0	2	4	4	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:156621478C>A	uc001fpp.2	+	7	1630	c.1294C>A	c.(1294-1296)CTA>ATA	p.L432I	BCAN_uc001fpo.2_Missense_Mutation_p.L432I	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	432	Glu-rich.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TAGGACGCTCCTAGGTAAGTC	0.552													39	107					2.24893e-16	2.45817e-16	0.009718	1	0		A	156621478	A	A	156621478	3	1	23	1	0	0	0	0	1	0	0	0	1346	680	24	5	1316	5	BCAN	1	156621478	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	693971	156621478	92629143	85	19413											
CRABP2	1382	broad.mit.edu	37	chr1	156670692	156670692	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcctcccatccacagtctGctcctcaaactcctccccaa	8	8	5	20	0	2	0	1	0	1	0	7	0	7	0	7	1	2	1	7	1	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:156670692G>A	uc001fpr.2	-	2	360	c.223C>T	c.(223-225)CAG>TAG	p.Q75*		NM_001878	NP_001869	P29373	RABP2_HUMAN	cellular retinoic acid binding protein 2	75					epidermis development|regulation of transcription, DNA-dependent|signal transduction	cytoplasm|nucleus	retinal binding|retinol binding|transporter activity			upper_aerodigestive_tract(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)				Alitretinoin(DB00523)	TCCACAGTCTGCTCCTCAAAC	0.547													28	66					0	0	0.008361	0	0		A	156670692	A	A	156670692	4	1	23	1	0	0	0	0	0	1	0	0	3847	1328	46	2	205	2	CRABP2	1	156670692	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	49214	156670692	92579929	86	19414											
SH2D2A	9047	broad.mit.edu	37	chr1	156779494	156779494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgcatcgggactggggCttgcccctgtttgatgattg	4	15	13	9	1	1	2	0	2	1	0	2	3	1	3	2	3	2	3	2	3	0	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:156779494C>T	uc001fqd.2	-	6	813	c.673G>A	c.(673-675)GCC>ACC	p.A225T	SH2D2A_uc001fqc.1_Missense_Mutation_p.A197T|SH2D2A_uc009wsh.2_Missense_Mutation_p.A235T|SH2D2A_uc001fqe.2_Missense_Mutation_p.A207T|SH2D2A_uc010phs.1_Missense_Mutation_p.A225T	NM_003975	NP_003966	Q9NP31	SH22A_HUMAN	SH2 domain protein 2A isoform 2	225	Pro-rich.				angiogenesis|cell differentiation|signal transduction	cytoplasm|soluble fraction	SH3 domain binding|SH3/SH2 adaptor activity				0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GGGACTGGGGCTTGCCCCTGT	0.607													53	171					0	0	0.01441	0	0		T	156779494	T	T	156779494	3	4	23	1	0	0	0	0	1	0	0	0	14257	797	28	2	508	2	SH2D2A	1	156779494	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	108802	156779494	92471127	87	19415											
OR6N1	128372	broad.mit.edu	37	chr1	158736446	158736446	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaagatgatgaattctgcTacctggctccagttccctgt	8	12	8	13	0	1	3	0	2	1	1	3	3	3	3	4	1	2	3	4	1	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:158736446T>C	uc010piq.1	-	1	27	c.27A>G	c.(25-27)GTA>GTG	p.V9V		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	9	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TGAATTCTGCTACCTGGCTCC	0.458													8	42					0	0	0.004482	0	0		C	158736446	C	C	158736446	2	2	23	1	0	0	0	0	0	0	0	1	11225	1509	53	3		3	OR6N1	1	158736446	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1956952	158736446	90514175	88	19416											
UHMK1	127933	broad.mit.edu	37	chr1	162470799	162470799	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagagtgatacagaatgtAcctcagctgttgatctgtgg	10	12	12	7	0	2	4	1	2	1	2	2	4	2	4	1	1	4	4	1	1	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:162470799A>G	uc001gcc.1	+	3	794	c.658A>G	c.(658-660)ACC>GCC	p.T220A	UHMK1_uc001gcb.1_Missense_Mutation_p.T146A|UHMK1_uc009wuu.1_Missense_Mutation_p.T220A	NM_175866	NP_787062	Q8TAS1	UHMK1_HUMAN	kinase interacting stathmin	220	Protein kinase.				cell cycle arrest|neuron projection development|peptidyl-serine phosphorylation|positive regulation of translational initiation|protein autophosphorylation|regulation of protein export from nucleus	axon|dendrite cytoplasm|neuronal RNA granule|nucleus	protein binding|protein serine/threonine kinase activity|ribonucleoprotein binding|RNA binding				0	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			TACAGAATGTACCTCAGCTGT	0.438													4	72					0	0	0.009096	0	0		G	162470799	G	G	162470799	3	3	23	1	0	0	0	0	1	0	0	0	16992	391	14	3	718	3	UHMK1	1	162470799	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	3734353	162470799	86779822	89	19417											
LRRC52	440699	broad.mit.edu	37	chr1	165513785	165513785	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccttgtttatttggactgTcagaacaaccggattcgaga	11	12	10	8	2	1	2	1	0	0	2	2	6	1	4	2	2	2	1	2	2	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:165513785T>A	uc001gde.2	+	1	308	c.252T>A	c.(250-252)TGT>TGA	p.C84*	LOC400794_uc001gdc.2_Intron|LOC400794_uc001gdd.2_Intron|LOC400794_uc009wvd.2_Intron	NM_001005214	NP_001005214	Q8N7C0	LRC52_HUMAN	leucine rich repeat containing 52 precursor	84	LRR 2.|Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)					ATTTGGACTGTCAGAACAACC	0.488													75	223					0	0	0.01441	0	0		A	165513785	A	A	165513785	4	1	23	1	0	0	0	0	0	1	0	0	9028	1673	58	5	254	5	LRRC52	1	165513785	Nonsense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	3042986	165513785	83736836	90	19418											
TBX19	9095	broad.mit.edu	37	chr1	168282167	168282167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtccacctggacagcagtggCctcgcatcccttcgcgggct	5	8	12	16	3	0	0	0	0	0	0	4	1	2	1	4	3	1	3	4	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:168282167C>T	uc001gfl.2	+	8	1325	c.1274C>T	c.(1273-1275)GCC>GTC	p.A425V	TBX19_uc001gfj.3_Missense_Mutation_p.A293V|TBX19_uc001gfm.2_Missense_Mutation_p.A128V	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	425					anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					ACAGCAGTGGCCTCGCATCCC	0.622													12	70					0	0	0.013537	0	0		T	168282167	T	T	168282167	3	4	23	1	0	0	0	0	1	0	0	0	15679	739	26	2	1304	2	TBX19	1	168282167	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2768382	168282167	80968454	91	19419											
NME7	29922	broad.mit.edu	37	chr1	169292503	169292503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtccgctttaaaaaggtgcGatgattctttacatcatgct	10	14	9	8	2	2	1	1	1	1	0	3	2	3	1	1	2	3	2	1	2	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:169292503G>A	uc001gfu.2	-	3	368	c.130C>T	c.(130-132)CGC>TGC	p.R44C	NME7_uc010plq.1_RNA|NME7_uc001gft.2_Missense_Mutation_p.R8C|NME7_uc001gfv.1_Missense_Mutation_p.R44C	NM_013330	NP_037462	Q9Y5B8	NDK7_HUMAN	nucleoside diphosphate kinase 7 isoform a	44	DM10.				CTP biosynthetic process|GTP biosynthetic process|UTP biosynthetic process	centrosome	ATP binding|metal ion binding|nucleoside diphosphate kinase activity			central_nervous_system(1)	1	all_hematologic(923;0.208)					AAAAAGGTGCGATGATTCTTT	0.313													19	134					0	0	0.014323	0	0		A	169292503	A	A	169292503	3	1	23	1	0	0	0	0	1	0	0	0	10515	1058	37	1	1040	1	NME7	1	169292503	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1010336	169292503	79958118	92	19420											
BLZF1	8548	broad.mit.edu	37	chr1	169347718	169347718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctttctgaacagttagaaCgtatgtcaatacagtgtgat	13	13	9	6	1	2	3	1	2	1	1	2	3	2	3	0	0	4	3	0	0	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:169347718C>T	uc001gfx.1	+	4	1056	c.619C>T	c.(619-621)CGT>TGT	p.R207C	BLZF1_uc001gfy.2_Missense_Mutation_p.R207C|BLZF1_uc009wvp.1_Missense_Mutation_p.R184C	NM_003666	NP_003657	Q9H2G9	GO45_HUMAN	basic leucine zipper nuclear factor 1	207	Potential.				cell proliferation|Golgi organization|Golgi to plasma membrane protein transport|regulation of cell growth|regulation of transcription from RNA polymerase II promoter	Golgi lumen|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|ubiquitin protein ligase binding			skin(1)	1	all_hematologic(923;0.208)					ACAGTTAGAACGTATGTCAAT	0.393													22	109					0	0	0.00278	0	0		T	169347718	T	T	169347718	3	4	23	1	0	0	0	0	1	0	0	0	1454	536	19	1	629	1	BLZF1	1	169347718	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	55215	169347718	79902903	93	19421											
BAT2L2	23215	broad.mit.edu	37	chr1	171511137	171511137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtgatttcaatgagaggcGagagagggatgaaaaaaaaa	19	6	13	3	1	1	4	1	3	0	2	1	8	1	5	0	2	0	0	0	2	5	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:171511137G>A	uc010pmg.1	+	16	4792	c.4526G>A	c.(4525-4527)CGA>CAA	p.R1509Q	BAT2L2_uc010pmh.1_Missense_Mutation_p.R486Q	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	1509							protein C-terminus binding				0						AATGAGAGGCGAGAGAGGGAT	0.398													21	73					0	0	0.008871	0	0		A	171511137	A	A	171511137	3	1	23	1	0	0	0	0	1	0	0	0	1322	1058	37	1	4584	1	BAT2L2	1	171511137	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2163419	171511137	77739484	94	19422											
TNR	7143	broad.mit.edu	37	chr1	175292549	175292549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagacggtggttgtaggggcGcatcttcatttccacaaagg	9	10	14	8	2	2	1	1	0	1	1	3	2	3	1	1	5	0	3	1	5	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:175292549G>A	uc001gkp.1	-	21	4102	c.4021C>T	c.(4021-4023)CGC>TGC	p.R1341C	TNR_uc009wwu.1_Missense_Mutation_p.R1341C	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1341	Fibrinogen C-terminal.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TTGTAGGGGCGCATCTTCATT	0.512													6	136					0	0	0.001984	0	0		A	175292549	A	A	175292549	3	1	23	1	0	0	0	0	1	0	0	0	16363	1087	38	1	59	1	TNR	1	175292549	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3781412	175292549	73958072	95	19423											
ZNF648	127665	broad.mit.edu	37	chr1	182026465	182026465	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtactttcctgctgttccgCgcttttgccaggaccgcggc	3	13	11	14	4	0	0	0	0	0	0	2	1	2	1	4	2	3	4	4	2	1	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:182026465C>T	uc001goz.2	-	2	889	c.681G>A	c.(679-681)GCG>GCA	p.A227A		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	227					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGCTGTTCCGCGCTTTTGCCA	0.701													5	12					0	0	0.001984	0	0		T	182026465	T	T	182026465	2	4	23	1	0	0	0	0	0	0	0	1	18088	755	27	1		1	ZNF648	1	182026465	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	6733916	182026465	67224156	96	19424											
TEDDM1	127670	broad.mit.edu	37	chr1	182369414	182369414	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgaacatggtgaggtgctgCcactctttggggtacatgaa	10	11	13	7	0	1	3	0	3	1	0	1	3	1	3	1	4	4	2	1	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:182369414C>A	uc001gpe.2	-	1	338	c.207G>T	c.(205-207)TGG>TGT	p.W69C		NM_172000	NP_741997	Q5T9Z0	TEDM1_HUMAN	putative membrane protein HE9	69						integral to membrane				ovary(2)	2						TGAGGTGCTGCCACTCTTTGG	0.498													24	47					3.01185e-09	3.19237e-09	0.003954	1	0		A	182369414	A	A	182369414	3	1	23	1	0	0	0	0	1	0	0	0	15774	740	26	5	618	5	TEDDM1	1	182369414	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	342949	182369414	66881207	97	19425											
RGS16	6004	broad.mit.edu	37	chr1	182569617	182569617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtctgcaggttcatcctcGtcagctcgtgggtctcatgg	5	12	12	12	2	4	0	3	0	2	0	8	0	5	0	1	3	2	3	1	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:182569617G>A	uc001gpl.3	-	5	573	c.419C>T	c.(418-420)ACG>ATG	p.T140M		NM_002928	NP_002919	O15492	RGS16_HUMAN	regulator of G-protein signalling 16	140	RGS.				negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity			ovary(1)	1						GTTCATCCTCGTCAGCTCGTG	0.587													18	78					0	0	0.007413	0	0		A	182569617	A	A	182569617	3	1	23	1	0	0	0	0	1	0	0	0	13323	1145	40	1	193	1	RGS16	1	182569617	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	200203	182569617	66681004	98	19426											
GLT25D2	23127	broad.mit.edu	37	chr1	183933050	183933050	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcactcattgcttcaatctGcacatggatgaggttctcga	9	13	8	11	1	5	1	3	1	2	0	6	3	5	2	0	2	2	3	0	2	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:183933050G>A	uc001gqr.2	-	6	1309	c.937C>T	c.(937-939)CAG>TAG	p.Q313*	GLT25D2_uc010poj.1_Nonsense_Mutation_p.Q313*|GLT25D2_uc001gqq.2_Nonsense_Mutation_p.Q50*|GLT25D2_uc001gqs.2_Nonsense_Mutation_p.Q193*	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	313					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						GCTTCAATCTGCACATGGATG	0.547													9	60					0	0	0.008291	0	0		A	183933050	A	A	183933050	4	1	23	1	0	0	0	0	0	1	0	0	6482	1328	46	2	971	2	GLT25D2	1	183933050	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1363433	183933050	65317571	99	19427											
FAM129A	116496	broad.mit.edu	37	chr1	184764680	184764680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttcattttcttggggaaCgtggctctccccattcgtat	5	17	8	11	2	4	0	1	0	3	0	6	1	4	1	2	3	1	2	2	3	2	7	rs140276880		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:184764680C>T	uc001gra.2	-	14	2412	c.2218G>A	c.(2218-2220)GTT>ATT	p.V740I	FAM129A_uc001grb.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	740	Glu-rich.				negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						TCTTGGGGAACGTGGCTCTCC	0.532													60	197					0	0	0.01441	0	0		T	184764680	T	T	184764680	3	4	23	1	0	0	0	0	1	0	0	0	5447	536	19	1	572	1	FAM129A	1	184764680	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	831630	184764680	64485941	100	19428											
HMCN1	83872	broad.mit.edu	37	chr1	185958730	185958730	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagtatgtctgcactgcCaccaatacagccggctacgc	9	7	12	13	2	1	0	0	0	1	0	1	1	1	1	3	3	5	3	3	3	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:185958730C>G	uc001grq.1	+	21	3388	c.3159C>G	c.(3157-3159)GCC>GCG	p.A1053A	HMCN1_uc001grr.1_Silent_p.A394A	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1053	Ig-like C2-type 7.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TCTGCACTGCCACCAATACAG	0.483													20	40					0	0	0.012319	0	0		G	185958730	G	G	185958730	2	3	23	1	0	0	0	0	0	0	0	1	7236	581	21	5		5	HMCN1	1	185958730	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1194050	185958730	63291891	101	19429											
HMCN1	83872	broad.mit.edu	37	chr1	185966629	185966629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaaagagtggccaatcaaCgcattgaatttccatgtcct	14	10	8	9	1	1	3	1	1	0	2	3	3	3	3	3	1	1	1	3	1	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:185966629C>T	uc001grq.1	+	25	4076	c.3847C>T	c.(3847-3849)CGC>TGC	p.R1283C		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1283	Ig-like C2-type 10.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GGCCAATCAACGCATTGAATT	0.348													17	77					0	0	0.008871	0	0		T	185966629	T	T	185966629	3	4	23	1	0	0	0	0	1	0	0	0	7236	536	19	1	3945	1	HMCN1	1	185966629	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	7899	185966629	63283992	102	19430											
HMCN1	83872	broad.mit.edu	37	chr1	186106003	186106003	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaaagaagatacctctGaatttgaatgtgttgctcga	13	12	9	7	1	2	5	1	2	1	3	3	6	2	5	1	0	2	2	1	0	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:186106003G>T	uc001grq.1	+	87	13745	c.13516G>T	c.(13516-13518)GAA>TAA	p.E4506*	HMCN1_uc001grs.1_Nonsense_Mutation_p.E75*	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4506	Ig-like C2-type 44.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AGATACCTCTGAATTTGAATG	0.433													35	130					4.11147e-13	4.43912e-13	0.003755	1	0		T	186106003	T	T	186106003	4	4	23	1	0	0	0	0	0	1	0	0	7236	1291	45	5	13862	5	HMCN1	1	186106003	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	139374	186106003	63144618	103	19431											
PRG4	10216	broad.mit.edu	37	chr1	186276379	186276379	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggagcctgcacccaccAccaccaaggagccttcaccc	11	3	7	20	0	1	0	1	0	0	0	1	2	1	2	8	2	3	1	8	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:186276379A>G	uc001gru.3	+	7	1579	c.1528A>G	c.(1528-1530)ACC>GCC	p.T510A	PRG4_uc001grt.3_Missense_Mutation_p.T469A|PRG4_uc009wyl.2_Missense_Mutation_p.T417A|PRG4_uc009wym.2_Missense_Mutation_p.T376A|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	510	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|21.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						TGCACCCACCACCACCAAGGA	0.637													32	99					0	0	0.007835	0	0		G	186276379	G	G	186276379	3	3	23	1	0	0	0	0	1	0	0	0	12503	159	6	3	1550	3	PRG4	1	186276379	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	170376	186276379	62974242	104	19432											
TPR	7175	broad.mit.edu	37	chr1	186292897	186292897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgtggtgggcgtctcggtGactgaggtgctcgaggggcc	4	9	20	8	3	1	2	0	2	1	0	3	4	1	2	1	6	1	1	1	6	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:186292897G>A	uc001grv.2	-	43	6515	c.6218C>T	c.(6217-6219)TCA>TTA	p.S2073L		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	2073					carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		GCGTCTCGGTGACTGAGGTGC	0.507			T	NTRK1	papillary thyroid								10	134					0	0	0.013537	0	0		A	186292897	A	A	186292897	3	1	23	1	0	0	0	0	1	0	0	0	16442	1294	45	4	909	4	TPR	1	186292897	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	16518	186292897	62957724	105	19433											
CRB1	23418	broad.mit.edu	37	chr1	197404527	197404527	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacactgtgaactcaacatCgatgaatgcttttcaaaccc	15	10	5	11	1	2	2	2	2	0	0	3	3	2	2	1	0	5	1	1	0	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:197404527C>T	uc001gtz.2	+	9	3669	c.3534C>T	c.(3532-3534)ATC>ATT	p.I1178I	CRB1_uc010poz.1_Silent_p.I1154I|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Silent_p.I1066I|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Silent_p.I659I|CRB1_uc001gub.1_Silent_p.I827I	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1178	EGF-like 16; calcium-binding (Potential).|Extracellular (Potential).				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						AACTCAACATCGATGAATGCT	0.488													12	52					0	0	0.010729	0	0		T	197404527	T	T	197404527	2	4	23	1	0	0	0	0	0	0	0	1	3851	874	31	1		1	CRB1	1	197404527	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	11111630	197404527	51846094	106	19434											
PPP1R12B	4660	broad.mit.edu	37	chr1	202464774	202464774	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggcggcccaaggaacgAcgaagaggcacaggcatcaa	15	1	15	10	3	1	1	1	0	0	1	1	5	1	3	1	6	1	2	1	6	4	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:202464774A>G	uc001gya.1	+	17	2556	c.2412A>G	c.(2410-2412)CGA>CGG	p.R804R	PPP1R12B_uc001gxz.1_Silent_p.R804R|PPP1R12B_uc001gyb.1_Silent_p.R30R|PPP1R12B_uc001gyc.1_Silent_p.R30R	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	804					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			CCAAGGAACGACGAAGAGGCA	0.463													4	60					0	0	0.001168	0	0		G	202464774	G	G	202464774	2	3	23	1	0	0	0	0	0	0	0	1	12377	262	10	3		3	PPP1R12B	1	202464774	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	5060247	202464774	46785847	107	19435											
CYB5R1	51706	broad.mit.edu	37	chr1	202934510	202934510	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcattaccttttccagtgTaagtgagcaacccgcttggc	8	12	10	11	1	1	1	1	1	0	0	2	1	2	1	3	2	3	3	3	2	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:202934510T>C	uc001gyt.2	-	5	535	c.464A>G	c.(463-465)TAC>TGC	p.Y155C	CYB5R1_uc010pqe.1_RNA	NM_016243	NP_057327	Q9UHQ9	NB5R1_HUMAN	cytochrome b5 reductase 1	155	FAD-binding FR-type.|FAD (By similarity).				sterol biosynthetic process	integral to membrane	cytochrome-b5 reductase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(75;0.141)			TTTTCCAGTGTAAGTGAGCAA	0.517													62	225					0	0	0.01441	0	0		C	202934510	C	C	202934510	3	2	23	1	0	0	0	0	1	0	0	0	4129	1638	57	3	473	3	CYB5R1	1	202934510	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	469736	202934510	46316111	108	19436											
TMEM183A	92703	broad.mit.edu	37	chr1	202990020	202990020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggactgctgcctactgcagGtcaccaccctcaatttcatc	9	10	7	15	0	3	0	3	0	0	0	4	1	3	1	3	2	4	2	3	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:202990020G>A	uc001gyu.1	+	7	947	c.889G>A	c.(889-891)GTC>ATC	p.V297I	TMEM183A_uc001gyv.1_RNA|TMEM183A_uc001gyw.1_Missense_Mutation_p.V296I|TMEM183A_uc001gyx.1_Missense_Mutation_p.G293D|TMEM183A_uc001gyy.2_5'Flank	NM_001079809	NP_001073277	Q8IXX5	T183A_HUMAN	transmembrane protein 183B	297						integral to membrane					0			BRCA - Breast invasive adenocarcinoma(75;0.18)			CCTACTGCAGGTCACCACCCT	0.458													38	120					0	0	0.01441	0	0		A	202990020	A	A	202990020	3	1	23	1	0	0	0	0	1	0	0	0	16127	1261	44	4	915	4	TMEM183A	1	202990020	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	55510	202990020	46260601	109	19437											
PPFIA4	8497	broad.mit.edu	37	chr1	203033065	203033065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagtgcctggtggacgcccGcatgctggaccacctcacca	7	6	13	15	2	1	0	1	0	0	0	1	3	1	3	5	4	2	2	5	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:203033065G>A	uc001gyz.2	+	12	2059	c.1466G>A	c.(1465-1467)CGC>CAC	p.R489H	PPFIA4_uc009xaj.2_Missense_Mutation_p.R1120H|PPFIA4_uc010pqf.1_Missense_Mutation_p.R702H|PPFIA4_uc001gza.2_Missense_Mutation_p.R480H|PPFIA4_uc001gzb.1_Missense_Mutation_p.R175H|PPFIA4_uc001gzc.1_Missense_Mutation_p.R31H	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	489	SAM 2.				cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						GTGGACGCCCGCATGCTGGAC	0.622													19	43					0	0	0.010504	0	0		A	203033065	A	A	203033065	3	1	23	1	0	0	0	0	1	0	0	0	12331	1087	38	1	1512	1	PPFIA4	1	203033065	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	43045	203033065	46217556	110	19438											
PLEKHA6	22874	broad.mit.edu	37	chr1	204234077	204234077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggccaactgaccttaaacGtgtgtttccggctgatgttg	9	12	11	9	2	0	2	0	2	0	0	1	2	1	2	3	2	2	3	3	2	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:204234077G>A	uc001hau.2	-	6	691	c.374C>T	c.(373-375)ACG>ATG	p.T125M		NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	125	PH.									ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			GACCTTAAACGTGTGTTTCCG	0.582													45	181					0	0	0.01441	0	0		A	204234077	A	A	204234077	3	1	23	1	0	0	0	0	1	0	0	0	12079	1145	40	1	2840	1	PLEKHA6	1	204234077	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1201012	204234077	45016544	111	19439											
LAMB3	3914	broad.mit.edu	37	chr1	209807865	209807865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctgccagctctgaggcCgaccctggcggacccgaggg	6	5	14	16	3	1	1	0	1	1	0	2	4	2	2	5	4	2	1	5	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:209807865C>T	uc001hhg.2	-	5	881	c.491G>A	c.(490-492)CGG>CAG	p.R164Q	LAMB3_uc009xco.2_Missense_Mutation_p.R164Q|LAMB3_uc001hhh.2_Missense_Mutation_p.R164Q|LAMB3_uc010psl.1_RNA|LAMB3_uc009xcp.1_Intron	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	164	Laminin N-terminal.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		GCTCTGAGGCCGACCCTGGCG	0.597													13	67					0	0	0.00245	0	0		T	209807865	T	T	209807865	3	4	23	1	0	0	0	0	1	0	0	0	8628	652	23	1	3099	1	LAMB3	1	209807865	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5573788	209807865	39442756	112	19440											
HHAT	55733	broad.mit.edu	37	chr1	210761245	210761245	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcttctttctctaggtaTgtgtacattccagtgggcgg	5	15	11	10	1	3	0	0	0	3	0	5	0	4	0	2	3	1	2	2	3	3	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:210761245T>G	uc009xcx.2	+	10	1213	c.1047T>G	c.(1045-1047)TAT>TAG	p.Y349*	HHAT_uc010psq.1_Nonsense_Mutation_p.Y212*|HHAT_uc001hhz.3_Nonsense_Mutation_p.Y349*|HHAT_uc010psr.1_Nonsense_Mutation_p.Y350*|HHAT_uc010pss.1_Nonsense_Mutation_p.Y304*|HHAT_uc009xcy.2_Nonsense_Mutation_p.Y284*|HHAT_uc010pst.1_Nonsense_Mutation_p.Y286*|HHAT_uc010psu.1_Nonsense_Mutation_p.Y284*|HHAT_uc001hia.3_Nonsense_Mutation_p.Y39*	NM_001122834	NP_001116306	Q5VTY9	HHAT_HUMAN	hedgehog acyltransferase	349					multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)		TCTCTAGGTATGTGTACATTC	0.537													4	67					0	0	0.00308	0	0		G	210761245	G	G	210761245	4	3	23	1	0	0	0	0	0	1	0	0	7105	1471	51	5	1179	5	HHAT	1	210761245	Nonsense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	953380	210761245	38489376	113	19441											
KCNH1	3756	broad.mit.edu	37	chr1	211307209	211307209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccgaatgcacctcttacCattggaccgccgaacaatat	13	9	6	13	3	1	0	0	0	1	0	2	3	2	1	5	1	3	1	5	1	6	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:211307209C>T	uc001hib.2	-	1	249	c.79G>A	c.(79-81)GAT>AAT	p.D27N	KCNH1_uc001hic.2_Missense_Mutation_p.D27N	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	27	Cytoplasmic (Potential).|PAS.				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		CACCTCTTACCATTGGACCGC	0.582											OREG0014229	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	118					0	0	0.00333	0	0		T	211307209	T	T	211307209	3	4	23	1	0	0	0	0	1	0	0	0	8047	608	21	4	2934	4	KCNH1	1	211307209	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	545964	211307209	37943412	114	19442											
PROX1	5629	broad.mit.edu	37	chr1	214170906	214170906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggccaaactccttacaacCggaaggcaaacatttggctg	12	8	10	11	1	0	0	0	0	0	0	1	1	1	1	3	4	4	2	3	4	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:214170906C>T	uc001hkh.2	+	2	1300	c.1028C>T	c.(1027-1029)CCG>CTG	p.P343L	PROX1_uc001hkg.1_Missense_Mutation_p.P343L	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	343					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		TCCTTACAACCGGAAGGCAAA	0.512													12	70					0	0	0.001855	0	0		T	214170906	T	T	214170906	3	4	23	1	0	0	0	0	1	0	0	0	12582	652	23	1	1030	1	PROX1	1	214170906	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2863697	214170906	35079715	115	19443											
CENPF	1063	broad.mit.edu	37	chr1	214818951	214818951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagaggtgaaggaaaagaCggaactccttcagactttgt	13	8	13	7	1	1	4	1	1	0	3	2	6	2	6	1	4	1	1	1	4	4	2	rs150986314	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:214818951C>T	uc001hkm.2	+	13	6212	c.6038C>T	c.(6037-6039)ACG>ATG	p.T2013M		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2109	Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		AAGGAAAAGACGGAACTCCTT	0.443													19	98					0	0	0.008871	0	0		T	214818951	T	T	214818951	3	4	23	1	0	0	0	0	1	0	0	0	3234	536	19	1	6084	1	CENPF	1	214818951	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	648045	214818951	34431670	116	19444											
KCTD3	51133	broad.mit.edu	37	chr1	215792267	215792267	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgactgtactacaatatcCtcatttacagtgagggaatg	12	13	9	7	0	1	2	1	2	0	0	2	3	2	3	1	1	3	2	1	1	6	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:215792267C>A	uc001hks.2	+	16	1896	c.1602C>A	c.(1600-1602)TCC>TCA	p.S534S	KCTD3_uc001hkt.2_Silent_p.S534S|KCTD3_uc010pub.1_Silent_p.S432S|KCTD3_uc009xdn.2_Silent_p.S258S	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	534						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		CTACAATATCCTCATTTACAG	0.428													28	77					6.07407e-21	6.69583e-21	0.007291	1	0		A	215792267	A	A	215792267	2	1	23	1	0	0	0	0	0	0	0	1	8126	668	24	5		5	KCTD3	1	215792267	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	973316	215792267	33458354	117	19445											
TGFB2	7042	broad.mit.edu	37	chr1	218607536	218607536	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtaactgatgctgttcAtgaatggcttcaccataaag	12	12	9	8	1	2	2	2	2	0	0	2	3	2	2	1	1	2	4	1	1	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:218607536A>G	uc001hlm.2	+	3	1276	c.623A>G	c.(622-624)CAT>CGT	p.H208R	TGFB2_uc001hln.2_Missense_Mutation_p.H236R|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	208					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		GATGCTGTTCATGAATGGCTT	0.413													25	85					0	0	0.005443	0	0		G	218607536	G	G	218607536	3	3	23	1	0	0	0	0	1	0	0	0	15843	217	8	3	721	3	TGFB2	1	218607536	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2815269	218607536	30643085	118	19446											
EPRS	2058	broad.mit.edu	37	chr1	220162058	220162058	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctggttgggcttgaatcCgaactttgagataatggggg	8	14	14	5	1	1	2	0	2	1	1	2	4	2	2	1	4	1	2	1	4	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:220162058C>T	uc001hly.1	-	19	2919	c.2649G>A	c.(2647-2649)TCG>TCA	p.S883S	EPRS_uc010puf.1_Silent_p.S634S|EPRS_uc001hlz.1_Silent_p.S890S	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	883	3 X 57 AA approximate repeats.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	GGCTTGAATCCGAACTTTGAG	0.428													44	132					0	0	0.01441	0	0		T	220162058	T	T	220162058	2	4	23	1	0	0	0	0	0	0	0	1	5199	639	23	1		1	EPRS	1	220162058	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1554522	220162058	29088563	119	19447											
TMEM63A	9725	broad.mit.edu	37	chr1	226040398	226040398	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgggacaagtgatgctgtAggccacgatgacagtgaaga	13	7	15	6	1	0	4	0	3	0	1	0	7	0	5	1	2	1	2	1	2	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:226040398A>G	uc001hpm.1	-	20	2120	c.1870T>C	c.(1870-1872)TAC>CAC	p.Y624H		NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	624	Helical; (Potential).					integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					GTGATGCTGTAGGCCACGATG	0.562													5	43					0	0	0.000602	0	0		G	226040398	G	G	226040398	3	3	23	1	0	0	0	0	1	0	0	0	16215	420	15	3	573	3	TMEM63A	1	226040398	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	5878340	226040398	23210223	120	19448											
C1orf55	163859	broad.mit.edu	37	chr1	226175780	226175780	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccttcttctcctgggtctcTtctgtttctgtaaccatcct	3	18	6	14	0	5	0	0	0	5	0	8	0	6	0	4	1	1	2	4	1	1	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:226175780T>A	uc001hpu.3	-	6	1004	c.951A>T	c.(949-951)GAA>GAT	p.E317D	C1orf55_uc001hpv.2_Missense_Mutation_p.E317D	NM_152608	NP_689821	Q6IQ49	CA055_HUMAN	hypothetical protein LOC163859	317										lung(1)	1	Breast(184;0.197)					CCTGGGTCTCTTCTGTTTCTG	0.493													5	248					0	0	0.001984	0	0		A	226175780	A	A	226175780	3	1	23	1	0	0	0	0	1	0	0	0	2050	1606	56	5	412	5	C1orf55	1	226175780	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	135382	226175780	23074841	121	19449											
MRPL55	128308	broad.mit.edu	37	chr1	228294490	228294490	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctggtccagaactgtcGgtagcgctccacatgcaagt	8	9	12	12	2	0	1	0	0	0	1	4	1	3	1	3	3	3	3	3	3	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:228294490G>A	uc001hry.2	-	3	1102	c.358C>T	c.(358-360)CGA>TGA	p.R120*	MRPL55_uc001hrz.3_Nonsense_Mutation_p.R156*|MRPL55_uc009xex.2_Nonsense_Mutation_p.R120*|MRPL55_uc001hsa.3_Nonsense_Mutation_p.R120*|MRPL55_uc001hsb.3_Nonsense_Mutation_p.R120*|MRPL55_uc001hsc.3_Nonsense_Mutation_p.R120*|MRPL55_uc001hsd.3_Nonsense_Mutation_p.R120*|MRPL55_uc001hse.3_Nonsense_Mutation_p.R120*|MRPL55_uc001hsf.3_Nonsense_Mutation_p.R120*|MRPL55_uc001hsg.3_Nonsense_Mutation_p.R120*	NM_181465	NP_852130	Q7Z7F7	RM55_HUMAN	mitochondrial ribosomal protein L55 isoform a	120					translation	mitochondrial large ribosomal subunit	structural constituent of ribosome			central_nervous_system(1)	1		Prostate(94;0.0405)				CAGAACTGTCGGTAGCGCTCC	0.587													30	106					0	0	0.00632	0	0		A	228294490	A	A	228294490	4	1	23	1	0	0	0	0	0	1	0	0	9837	1124	39	1	32	1	MRPL55	1	228294490	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2118710	228294490	20956131	122	19450											
OBSCN	84033	broad.mit.edu	37	chr1	228529196	228529196	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaccgcgccttcgaggtgtGgcaggagcgggaggactcgg	6	6	19	10	5	0	1	0	1	0	0	2	5	0	4	2	6	1	1	2	6	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:228529196G>T	uc009xez.1	+	74	17959	c.17915G>T	c.(17914-17916)TGG>TTG	p.W5972L	OBSCN_uc001hsn.2_Missense_Mutation_p.W5972L|OBSCN_uc001hsr.1_Missense_Mutation_p.W601L	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5972	PH.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TTCGAGGTGTGGCAGGAGCGG	0.642													4	15					0.00024832	0.000254222	0.009096	1	0		T	228529196	T	T	228529196	3	4	23	1	0	0	0	0	1	0	0	0	10831	1357	47	5	18205	5	OBSCN	1	228529196	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	234706	228529196	20721425	123	19451											
TRIM11	81559	broad.mit.edu	37	chr1	228582822	228582822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcgctcctggcccagcaCgcaggggccggggtcaaagc	8	3	16	14	3	1	0	1	0	0	0	2	1	2	0	3	5	3	3	3	5	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:228582822C>T	uc001hss.2	-	6	1246	c.991G>A	c.(991-993)GTG>ATG	p.V331M	TRIM11_uc010pvx.1_Missense_Mutation_p.V330M	NM_145214	NP_660215	Q96F44	TRI11_HUMAN	tripartite motif-containing 11	331	B30.2/SPRY.				response to virus	cytoplasm|nucleus	protein binding|zinc ion binding			lung(3)|ovary(1)	4		Prostate(94;0.0724)				TGGCCCAGCACGCAGGGGCCG	0.697													5	14					0	0	0.001984	0	0		T	228582822	T	T	228582822	3	4	23	1	0	0	0	0	1	0	0	0	16513	536	19	1	419	1	TRIM11	1	228582822	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	53626	228582822	20667799	124	19452											
RHOU	58480	broad.mit.edu	37	chr1	228879181	228879181	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgtcccaaagcccccatcatCctagttggaacgcagtcgga	10	8	9	14	2	1	0	1	0	0	0	4	2	3	2	4	2	2	2	4	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:228879181C>T	uc001htf.2	+	3	1092	c.471C>T	c.(469-471)ATC>ATT	p.I157I		NM_021205	NP_067028	Q7L0Q8	RHOU_HUMAN	ras homolog gene family, member U	157					regulation of small GTPase mediated signal transduction	cell projection|cytosol|focal adhesion|Golgi membrane|podosome	GTP binding|metal ion binding|protein binding				0	Breast(184;0.162)	Prostate(94;0.183)				CCCCCATCATCCTAGTTGGAA	0.522													38	117					0	0	0.005524	0	0		T	228879181	T	T	228879181	2	4	23	1	0	0	0	0	0	0	0	1	13370	845	30	4		4	RHOU	1	228879181	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	296359	228879181	20371440	125	19453											
COG2	22796	broad.mit.edu	37	chr1	230820911	230820911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtcagatgagatgttcttgCcattactggtgcatcgcctg	7	13	12	9	1	2	2	1	1	1	2	3	3	2	2	2	2	3	2	2	2	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:230820911C>T	uc001htw.2	+	12	1460	c.1309C>T	c.(1309-1311)CCA>TCA	p.P437S	COG2_uc001htx.2_Missense_Mutation_p.P437S|COG2_uc010pwc.1_Missense_Mutation_p.P310S	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	437					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				GATGTTCTTGCCATTACTGGT	0.468													7	185					0	0	0.001984	0	0		T	230820911	T	T	230820911	3	4	23	1	0	0	0	0	1	0	0	0	3661	739	26	2	1355	2	COG2	1	230820911	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1941730	230820911	18429710	126	19454											
CAPN9	10753	broad.mit.edu	37	chr1	230928178	230928178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccacatggcacagaccagcGgcaatgggaagctggagttt	11	6	13	11	1	0	1	0	0	0	1	0	3	0	3	2	4	2	4	2	4	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:230928178G>A	uc001htz.1	+	16	1842	c.1729G>A	c.(1729-1731)GGC>AGC	p.G577S	CAPN9_uc009xfg.1_Missense_Mutation_p.G514S|CAPN9_uc001hua.1_Missense_Mutation_p.G551S	NM_006615	NP_006606	O14815	CAN9_HUMAN	calpain 9 isoform 1	577	1 (Potential).|EF-hand 2.|Domain IV.				digestion|proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)				ACAGACCAGCGGCAATGGGAA	0.567													27	120					0	0	0.007291	0	0		A	230928178	A	A	230928178	3	1	23	1	0	0	0	0	1	0	0	0	2635	1116	39	1	1791	1	CAPN9	1	230928178	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	107267	230928178	18322443	127	19455											
EGLN1	54583	broad.mit.edu	37	chr1	231503356	231503356	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtgctctctcatctgcaTcaaaataccaaacagttatt	12	13	4	12	1	4	0	2	0	2	0	6	0	4	0	1	0	4	3	1	0	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:231503356T>C	uc001huv.2	-	4	4331	c.1175A>G	c.(1174-1176)GAT>GGT	p.D392G	EGLN1_uc001huu.3_Missense_Mutation_p.D94G	NM_022051	NP_071334	Q9GZT9	EGLN1_HUMAN	egl nine homolog 1	392	Fe2OG dioxygenase.				negative regulation of sequence-specific DNA binding transcription factor activity|oxygen homeostasis|response to hypoxia	cytosol	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptidyl-proline dioxygenase activity|protein binding|zinc ion binding				0		Prostate(94;0.194)|Acute lymphoblastic leukemia(190;0.244)			Vitamin C(DB00126)	CTCATCTGCATCAAAATACCA	0.378													17	79					0	0	0.006122	0	0		C	231503356	C	C	231503356	3	2	23	1	0	0	0	0	1	0	0	0	4974	1435	50	3	113	3	EGLN1	1	231503356	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	575178	231503356	17747265	128	19456											
TARBP1	6894	broad.mit.edu	37	chr1	234541716	234541716	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagtcagggcatcaaattCttcaacacttaacactttac	14	11	6	10	0	4	0	3	0	1	0	4	1	4	1	0	2	3	1	0	2	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:234541716C>A	uc001hwd.2	-	24	3922	c.3922G>T	c.(3922-3924)GAA>TAA	p.E1308*		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	1308					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			GCATCAAATTCTTCAACACTT	0.463													21	90					6.33239e-15	6.89016e-15	0.010504	1	0		A	234541716	A	A	234541716	4	1	23	1	0	0	0	0	0	1	0	0	15580	922	32	5	971	5	TARBP1	1	234541716	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3038360	234541716	14708905	129	19457											
ACTN2	88	broad.mit.edu	37	chr1	236907942	236907942	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggcaaagagcagatcttGctgcagaaggattacgagtc	13	7	13	8	1	1	3	0	0	1	3	2	5	1	4	0	2	4	5	0	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:236907942G>T	uc001hyf.2	+	12	1476	c.1272G>T	c.(1270-1272)TTG>TTT	p.L424F	ACTN2_uc001hyg.2_Missense_Mutation_p.L216F|ACTN2_uc009xgi.1_Missense_Mutation_p.L424F|ACTN2_uc010pxu.1_Missense_Mutation_p.L113F|ACTN2_uc001hyh.2_Missense_Mutation_p.L112F	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	424	Spectrin 2.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			AGCAGATCTTGCTGCAGAAGG	0.597													8	29					7.48243e-07	7.80291e-07	0.006214	1	0		T	236907942	T	T	236907942	3	4	23	1	0	0	0	0	1	0	0	0	205	1310	46	5	1318	5	ACTN2	1	236907942	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2366226	236907942	12342679	130	19458											
RYR2	6262	broad.mit.edu	37	chr1	237664023	237664023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaataggttgtattgctcGtactgtaagctcaccaaacc	11	11	7	12	1	1	0	1	0	0	0	2	0	1	0	3	1	4	6	3	1	6	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:237664023G>A	uc001hyl.1	+	21	2336	c.2216G>A	c.(2215-2217)CGT>CAT	p.R739H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	739	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TGTATTGCTCGTACTGTAAGC	0.393													65	281					0	0	0.01441	0	0		A	237664023	A	A	237664023	3	1	23	1	0	0	0	0	1	0	0	0	13794	1145	40	1	2298	1	RYR2	1	237664023	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	756081	237664023	11586598	131	19459											
OPN3	23596	broad.mit.edu	37	chr1	241757740	241757740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcattcctacaaaggaCgaacttggattacatcaact	13	13	5	10	1	3	0	2	0	1	0	4	3	4	2	1	2	4	0	1	2	5	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:241757740C>T	uc001hza.2	-	4	1344	c.1199G>A	c.(1198-1200)CGT>CAT	p.R400H	KMO_uc009xgp.2_3'UTR|OPN3_uc001hzb.2_RNA|OPN3_uc001hzc.2_RNA	NM_014322	NP_055137	Q9H1Y3	OPN3_HUMAN	opsin 3	400	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|visual perception	integral to plasma membrane	G-protein coupled photoreceptor activity				0	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			CTACAAAGGACGAACTTGGAT	0.408													26	101					0	0	0.003954	0	0		T	241757740	T	T	241757740	3	4	23	1	0	0	0	0	1	0	0	0	10900	536	19	1	13	1	OPN3	1	241757740	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4093717	241757740	7492881	132	19460											
CHML	1122	broad.mit.edu	37	chr1	241797190	241797190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacattattggttccaggagCctctggctgcttatcatcac	8	14	8	11	0	3	0	2	0	1	0	4	1	4	1	2	3	3	3	2	3	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:241797190C>T	uc001hzd.2	-	1	2043	c.1879G>A	c.(1879-1881)GCT>ACT	p.A627T	OPN3_uc001hza.2_Intron|OPN3_uc001hzb.2_Intron|OPN3_uc001hzc.2_Intron	NM_001821	NP_001812	P26374	RAE2_HUMAN	choroideremia-like Rab escort protein 2	627					intracellular protein transport|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(4)|skin(2)	6	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			GTTCCAGGAGCCTCTGGCTGC	0.423													47	161					0	0	0.01441	0	0		T	241797190	T	T	241797190	3	4	23	1	0	0	0	0	1	0	0	0	3354	739	26	2	95	2	CHML	1	241797190	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	39450	241797190	7453431	133	19461											
SDCCAG8	10806	broad.mit.edu	37	chr1	243433519	243433519	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtgtgggaaatgaggaCgccaggacagcctggcccga	11	4	15	11	2	0	1	0	1	0	0	0	5	0	4	4	4	1	0	4	4	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:243433519C>T	uc001hzw.2	+	2	336	c.180C>T	c.(178-180)GAC>GAT	p.D60D	SDCCAG8_uc010pyk.1_Intron|SDCCAG8_uc010pyl.1_Intron	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	60					establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		GAAATGAGGACGCCAGGACAG	0.458													14	37					0	0	0.004007	0	0		T	243433519	T	T	243433519	2	4	23	1	0	0	0	0	0	0	0	1	13984	535	19	1		1	SDCCAG8	1	243433519	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1636329	243433519	5817102	134	19462											
C1orf101	257044	broad.mit.edu	37	chr1	244769065	244769065	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggaaatacacggcagggAtgactatagctttaataata	15	10	11	5	1	0	1	0	1	0	0	0	3	0	3	0	3	2	2	0	3	7	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:244769065A>T	uc001iam.2	+	18	2431	c.2372A>T	c.(2371-2373)GAT>GTT	p.D791V	C1orf101_uc001iak.1_Missense_Mutation_p.D345V|C1orf101_uc001ial.2_Missense_Mutation_p.D791V|C1orf101_uc010pym.1_Missense_Mutation_p.D640V|C1orf101_uc010pyn.1_Missense_Mutation_p.D724V	NM_001130957	NP_001124429	Q5SY80	CA101_HUMAN	hypothetical protein LOC257044 isoform 1	791	Extracellular (Potential).					integral to membrane				ovary(1)|breast(1)	2	all_cancers(71;2.99e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)		all cancers(7;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.001)|GBM - Glioblastoma multiforme(7;0.0154)			CACGGCAGGGATGACTATAGC	0.338													13	85					0	0	0.00245	0	0		T	244769065	T	T	244769065	3	4	23	1	0	0	0	0	1	0	0	0	1979	333	12	5	2442	5	C1orf101	1	244769065	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1335546	244769065	4481556	135	19463											
AHCTF1	25909	broad.mit.edu	37	chr1	247048893	247048893	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagggcttgtctgtgctcGccctgactcatgaatgcctg	5	12	12	12	1	2	3	1	3	1	0	3	3	2	3	2	1	2	2	2	1	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:247048893G>A	uc001ibu.1	-	20	2569	c.2562C>T	c.(2560-2562)GGC>GGT	p.G854G	AHCTF1_uc001ibv.1_Silent_p.G863G|AHCTF1_uc009xgs.1_5'UTR	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	854	Necessary for cytoplasmic localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			GTCTGTGCTCGCCCTGACTCA	0.413													7	20					0	0	0.001984	0	0		A	247048893	A	A	247048893	2	1	23	1	0	0	0	0	0	0	0	1	408	1074	38	1		1	AHCTF1	1	247048893	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2279828	247048893	2201728	136	19464											
OR2AK2	391191	broad.mit.edu	37	chr1	248129152	248129152	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttctatcaatgctttcatAcatacattgtatgtgtttca	10	18	6	7	0	4	0	3	0	1	0	4	0	4	0	0	1	3	4	0	1	5	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:248129152A>G	uc010pzd.1	+	1	519	c.519A>G	c.(517-519)ATA>ATG	p.I173M	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	173	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.G167fs*43(1)		ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			ATGCTTTCATACATACATTGT	0.428													19	218					0	0	0.008871	0	0		G	248129152	G	G	248129152	3	3	23	1	0	0	0	0	1	0	0	0	11005	381	14	3	521	3	OR2AK2	1	248129152	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1080259	248129152	1121469	137	19465											
OR2L3	391192	broad.mit.edu	37	chr1	248224720	248224720	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcagcacccacctcactgTagtaactttctactatgcac	10	11	5	15	0	2	0	1	0	1	0	2	0	2	0	2	0	5	5	2	0	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr1:248224720T>C	uc001idx.1	+	1	737	c.737T>C	c.(736-738)GTA>GCA	p.V246A	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			CACCTCACTGTAGTAACTTTC	0.488													5	203					0	0	0.000602	0	0		C	248224720	C	C	248224720	3	2	23	1	0	0	0	0	1	0	0	0	11027	1638	57	3	739	3	OR2L3	1	248224720	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	95568	248224720	1025901	138	19466											
ASAP2	8853	broad.mit.edu	37	chr2	9525431	9525431	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgttgaatatgaatggCgactactccacgaagacctg	12	10	9	10	3	1	3	1	2	0	1	2	5	2	3	2	1	1	1	2	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:9525431C>T	uc002qzh.2	+	21	2414	c.2074C>T	c.(2074-2076)CGA>TGA	p.R692*	ASAP2_uc002qzi.2_Nonsense_Mutation_p.R692*	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	692					regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						ATATGAATGGCGACTACTCCA	0.453													9	52					0	0	0.004482	0	0		T	9525431	T	T	9525431	4	4	23	1	0	0	0	0	0	1	0	0	1012	760	27	1	2156	1	ASAP2	2	9525431	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08		9525431	233673942	139	19467											
GREB1	9687	broad.mit.edu	37	chr2	11736258	11736258	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgacattgacattttgcTggacaaatttcaccaggaaa	13	11	10	7	0	1	2	1	2	0	0	1	4	1	4	1	3	1	1	1	3	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:11736258T>C	uc002rbk.1	+	13	2147	c.1847T>C	c.(1846-1848)CTG>CCG	p.L616P	GREB1_uc002rbo.1_Missense_Mutation_p.L250P	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	616						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GACATTTTGCTGGACAAATTT	0.378													34	128					0	0	0.007835	0	0		C	11736258	C	C	11736258	3	2	23	1	0	0	0	0	1	0	0	0	6776	1580	55	3	2001	3	GREB1	2	11736258	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2210827	11736258	231463115	140	19468											
ITSN2	50618	broad.mit.edu	37	chr2	24521655	24521655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctcccattctaagcgaCgttgtcgttcaagttcctgt	6	16	7	12	3	3	0	1	0	2	0	7	1	5	0	2	0	1	3	2	0	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:24521655C>T	uc002rfe.2	-	13	1631	c.1373G>A	c.(1372-1374)CGT>CAT	p.R458H	ITSN2_uc002rff.2_Missense_Mutation_p.R458H|ITSN2_uc002rfg.2_Missense_Mutation_p.R458H|ITSN2_uc010eyd.2_Missense_Mutation_p.R483H	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	458	Potential.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTCTAAGCGACGTTGTCGTTC	0.338													35	105					0	0	0.004878	0	0		T	24521655	T	T	24521655	3	4	23	1	0	0	0	0	1	0	0	0	7943	536	19	1	3883	1	ITSN2	2	24521655	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	12785397	24521655	218677718	141	19469											
ASXL2	55252	broad.mit.edu	37	chr2	25965592	25965592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacttgtgtcacccttgccaGcactctgggaaacctggggc	8	9	11	13	0	2	0	1	0	1	0	2	1	2	1	3	3	4	1	3	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:25965592G>A	uc002rgs.2	-	12	3835	c.3614C>T	c.(3613-3615)GCT>GTT	p.A1205V	ASXL2_uc002rgt.1_Missense_Mutation_p.A688V	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1205					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACCCTTGCCAGCACTCTGGGA	0.483													26	88					0	0	0.003954	0	0		A	25965592	A	A	25965592	3	1	23	1	0	0	0	0	1	0	0	0	1068	971	34	2	697	2	ASXL2	2	25965592	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1443937	25965592	217233781	142	19470											
KIF3C	3797	broad.mit.edu	37	chr2	26178514	26178514	+	Missense_Mutation	SNP	T	A	A																															gagcatcatctcctgctgcaTctcccgctcacgacgtttct																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:26178514T>A	uc002rgu.2	-	3	2323	c.1666A>T	c.(1666-1668)ATG>TTG	p.M556L	KIF3C_uc010eyj.1_RNA|KIF3C_uc010ykr.1_Missense_Mutation_p.M556L	NM_002254	NP_002245	O14782	KIF3C_HUMAN	kinesin family member 3C	556	Potential.				blood coagulation|microtubule-based movement	cytosol|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCTGCTGCATCTCCCGCTCA	0.592													27	98					0	0	0.004878	0	0		A	26178514	A	A	26178514	3	1	23	1	0	0	0	0	1	0	0	0	8318	1435	50	5	739	5	KIF3C	2	26178514	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	212922	26178514	217020859	143	19471	31	2									
KIF3C	3797	broad.mit.edu	37	chr2	26178519	26178519	+	Missense_Mutation	SNP	C	T	T																															tcatctcctgctgcatctccCgctcacgacgtttctaggcc																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:26178519C>T	uc002rgu.2	-	3	2318	c.1661G>A	c.(1660-1662)CGG>CAG	p.R554Q	KIF3C_uc010eyj.1_RNA|KIF3C_uc010ykr.1_Missense_Mutation_p.R554Q	NM_002254	NP_002245	O14782	KIF3C_HUMAN	kinesin family member 3C	554	Potential.				blood coagulation|microtubule-based movement	cytosol|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGCATCTCCCGCTCACGACG	0.597													30	90					0	0	0.009535	0	0		T	26178519	T	T	26178519	3	4	23	1	0	0	0	0	1	0	0	0	8318	652	23	1	744	1	KIF3C	2	26178519	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5	26178519	217020854	144	19472	31	2									
HADHB	3032	broad.mit.edu	37	chr2	26492864	26492864	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttggctagagcagcgcttAcgtaagtaaatgcagtttca	12	12	10	7	2	1	1	1	0	0	1	1	1	1	1	0	1	4	7	0	1	5	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:26492864A>T	uc002rgz.2	+	5	504	c.253A>T	c.(253-255)ACG>TCG	p.T85S	HADHB_uc010ykv.1_Missense_Mutation_p.T63S|HADHB_uc010ykw.1_Intron|HADHB_uc002rha.2_Missense_Mutation_p.T85S|HADHB_uc010ykx.1_Missense_Mutation_p.T11S	NM_000183	NP_000174	P55084	ECHB_HUMAN	mitochondrial trifunctional protein, beta	85					fatty acid beta-oxidation	mitochondrial nucleoid	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acyltransferase activity|enoyl-CoA hydratase activity|protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGCAGCGCTTACGTAAGTAAA	0.348													6	98					0	0	0.001984	0	0		T	26492864	T	T	26492864	3	4	23	1	0	0	0	0	1	0	0	0	6960	405	14	5	267	5	HADHB	2	26492864	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	314345	26492864	216706509	145	19473											
C2orf18	54978	broad.mit.edu	37	chr2	26998046	26998046	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcttttcctgcccccagcGctctgtgacatgacagggac	6	11	9	15	1	2	2	0	2	2	0	3	3	3	3	3	1	2	1	3	1	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:26998046G>A	uc002rhp.1	+	3	361	c.285G>A	c.(283-285)GCG>GCA	p.A95A	C2orf18_uc002rhq.1_Intron|C2orf18_uc010eyo.1_Silent_p.A42A|C2orf18_uc010ylc.1_Intron	NM_017877	NP_060347	Q8N357	CB018_HUMAN	ANT2-binding protein precursor	95	Helical; (Potential).					integral to membrane|lysosomal membrane					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGCCCCCAGCGCTCTGTGACA	0.602													20	71					0	0	0.010504	0	0		A	26998046	A	A	26998046	2	1	23	1	0	0	0	0	0	0	0	1	2161	1074	38	1		1	C2orf18	2	26998046	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	505182	26998046	216201327	146	19474											
ABHD1	84696	broad.mit.edu	37	chr2	27351875	27351875	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggccaagcagcctgacaGcagccaagaccctgatccta	11	5	10	15	0	0	3	0	2	0	1	1	3	1	3	5	1	4	2	5	1	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:27351875G>A	uc002rit.2	+	3	498	c.338G>A	c.(337-339)AGC>AAC	p.S113N	ABHD1_uc002riu.2_RNA|ABHD1_uc002riv.2_RNA	NM_032604	NP_115993	Q96SE0	ABHD1_HUMAN	abhydrolase domain-containing protein 1	113						integral to membrane	carboxylesterase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGCCTGACAGCAGCCAAGAC	0.522													25	81					0	0	0.005443	0	0		A	27351875	A	A	27351875	3	1	23	1	0	0	0	0	1	0	0	0	73	971	34	2	348	2	ABHD1	2	27351875	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	353829	27351875	215847498	147	19475											
HEATR5B	54497	broad.mit.edu	37	chr2	37241024	37241024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagtttttccatggtcGtggcactctctcggtacagc	6	12	10	13	2	1	0	0	0	1	0	5	0	2	0	2	3	3	3	2	3	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:37241024G>A	uc002rpp.1	-	27	4340	c.4244C>T	c.(4243-4245)ACG>ATG	p.T1415M	HEATR5B_uc010ezy.1_Translation_Start_Site|HEATR5B_uc002rpq.3_Translation_Start_Site	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1415							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				TTCCATGGTCGTGGCACTCTC	0.443													5	169					0	0	0.001168	0	0		A	37241024	A	A	37241024	3	1	23	1	0	0	0	0	1	0	0	0	7048	1145	40	1	2011	1	HEATR5B	2	37241024	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	9889149	37241024	205958349	148	19476											
TMEM178	130733	broad.mit.edu	37	chr2	39944310	39944310	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggctttattgtggcagcTggaggtctctgcatcgctta	6	15	12	8	1	1	0	0	0	1	0	3	1	1	1	0	4	2	5	0	4	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:39944310T>C	uc002rrt.2	+	4	838	c.813T>C	c.(811-813)GCT>GCC	p.A271A	TMEM178_uc010fam.1_Silent_p.A225A	NM_152390	NP_689603	Q8NBL3	TM178_HUMAN	transmembrane protein 178 precursor	271	Helical; (Potential).					integral to membrane					0		all_hematologic(82;0.248)				TTGTGGCAGCTGGAGGTCTCT	0.512													19	95					0	0	0.014323	0	0		C	39944310	C	C	39944310	2	2	23	1	0	0	0	0	0	0	0	1	16120	1567	55	3		3	TMEM178	2	39944310	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2703286	39944310	203255063	149	19477											
MSH6	2956	broad.mit.edu	37	chr2	48026138	48026138	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccaagaatactttgagagCtttctctgcccctcaaaatt	13	12	5	11	0	2	2	1	1	1	2	3	3	2	2	3	0	4	1	3	0	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:48026138C>A	uc002rwd.3	+	4	1168	c.1016C>A	c.(1015-1017)GCT>GAT	p.A339D	MSH6_uc002rwc.2_Missense_Mutation_p.A339D|MSH6_uc010fbj.2_Missense_Mutation_p.A37D|MSH6_uc010yoi.1_Missense_Mutation_p.A209D|MSH6_uc010yoj.1_Missense_Mutation_p.A37D	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	339					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ACTTTGAGAGCTTTCTCTGCC	0.448			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				47	205					3.77016e-25	4.17801e-25	0.013114	1	0		A	48026138	A	A	48026138	3	1	23	1	0	0	0	0	1	0	0	0	9892	797	28	5	1030	5	MSH6	2	48026138	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	8081828	48026138	195173235	150	19478											
LHCGR	3973	broad.mit.edu	37	chr2	48915426	48915426	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatgtaattgctgacacCgacaaggggcaacatagcaa	14	8	9	10	1	1	1	1	1	0	0	1	2	1	1	1	2	3	4	1	2	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:48915426C>T	uc002rwu.3	-	11	1580	c.1510G>A	c.(1510-1512)GGT>AGT	p.G504S	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	504	Helical; Name=4; (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	TTGCTGACACCGACAAGGGGC	0.428									Familial_Male-Limited_Precocious_Puberty				20	118					0	0	0.012319	0	0		T	48915426	T	T	48915426	3	4	23	1	0	0	0	0	1	0	0	0	8778	652	23	1	593	1	LHCGR	2	48915426	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	889288	48915426	194283947	151	19479											
GPR75	10936	broad.mit.edu	37	chr2	54080276	54080276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atagcctccatgactttaaaCggaggggactggaatctgct	11	10	11	9	1	1	1	0	1	1	0	2	4	2	4	2	4	3	1	2	4	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:54080276C>T	uc002rxo.3	-	2	1889	c.1618G>A	c.(1618-1620)GTT>ATT	p.V540I	ASB3_uc002rxi.3_Intron	NM_006794	NP_006785	O95800	GPR75_HUMAN	G protein-coupled receptor 75	540	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|skin(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TGACTTTAAACGGAGGGGACT	0.393													14	92					0	0	0.003163	0	0		T	54080276	T	T	54080276	3	4	23	1	0	0	0	0	1	0	0	0	6723	536	19	1	8	1	GPR75	2	54080276	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5164850	54080276	189119097	152	19480											
MXD1	4084	broad.mit.edu	37	chr2	70164409	70164409	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccgttcaccaaatcgacCagcttcagcgagagcagcga	13	5	10	13	4	2	1	2	0	0	1	3	4	2	1	3	0	5	3	3	0	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:70164409C>T	uc002sfy.2	+	5	621	c.361C>T	c.(361-363)CAG>TAG	p.Q121*	MXD1_uc010yqp.1_Nonsense_Mutation_p.Q121*|MXD1_uc010yqq.1_Nonsense_Mutation_p.Q58*|MXD1_uc010yqr.1_RNA|MXD1_uc010yqs.1_Nonsense_Mutation_p.Q111*	NM_002357	NP_002348	Q05195	MAD1_HUMAN	MAX dimerization protein 1	121					cell proliferation|multicellular organismal development	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						CCAAATCGACCAGCTTCAGCG	0.552													37	120					0	0	0.01441	0	0		T	70164409	T	T	70164409	4	4	23	1	0	0	0	0	0	1	0	0	10017	595	21	4	379	4	MXD1	2	70164409	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	16084133	70164409	173034964	153	19481											
ASPRV1	151516	broad.mit.edu	37	chr2	70188638	70188638	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccacagagcagtgtcggCgcaatcacgctggaaaacgg	13	4	12	12	4	1	1	1	0	0	1	2	2	1	2	1	3	3	3	1	3	4	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:70188638C>T	uc002sfz.3	-	1	760	c.183G>A	c.(181-183)GCG>GCA	p.A61A		NM_152792	NP_690005	Q53RT3	APRV1_HUMAN	aspartic peptidase, retroviral-like 1 precursor	61	Helical; (Potential).				protein maturation by peptide bond cleavage|skin development		aspartic-type endopeptidase activity			ovary(1)	1						GCAGTGTCGGCGCAATCACGC	0.642													16	56					0	0	0.003163	0	0		T	70188638	T	T	70188638	2	4	23	1	0	0	0	0	0	0	0	1	1059	755	27	1		1	ASPRV1	2	70188638	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	24229	70188638	173010735	154	19482											
DYSF	8291	broad.mit.edu	37	chr2	71894590	71894590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagcagggcctggtccCggagcacgtggagtcacggc	7	5	16	13	3	2	0	2	0	0	0	3	2	3	2	2	5	3	3	2	5	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:71894590C>T	uc002sie.2	+	47	5661	c.5285C>T	c.(5284-5286)CCG>CTG	p.P1762L	DYSF_uc010feg.2_Missense_Mutation_p.P1793L|DYSF_uc010feh.2_Missense_Mutation_p.P1769L|DYSF_uc002sig.3_Missense_Mutation_p.P1748L|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.P1783L|DYSF_uc010fef.2_Missense_Mutation_p.P1800L|DYSF_uc010fei.2_Missense_Mutation_p.P1779L|DYSF_uc010fek.2_Missense_Mutation_p.P1780L|DYSF_uc010fej.2_Missense_Mutation_p.P1770L|DYSF_uc010fel.2_Missense_Mutation_p.P1749L|DYSF_uc010feo.2_Missense_Mutation_p.P1794L|DYSF_uc010fem.2_Missense_Mutation_p.P1784L|DYSF_uc010fen.2_Missense_Mutation_p.P1801L|DYSF_uc002sif.2_Missense_Mutation_p.P1763L|DYSF_uc010yqy.1_Missense_Mutation_p.P643L|DYSF_uc010yqz.1_Missense_Mutation_p.P523L	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1762	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GGCCTGGTCCCGGAGCACGTG	0.637													37	81					0	0	0.005524	0	0		T	71894590	T	T	71894590	3	4	23	1	0	0	0	0	1	0	0	0	4865	652	23	1	5730	1	DYSF	2	71894590	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1705952	71894590	171304783	155	19483											
EGR4	1961	broad.mit.edu	37	chr2	73518943	73518943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcgggcagaagcagcgcGtgctgcatttgccgccgcgg	5	5	17	14	7	0	1	0	0	0	1	0	1	0	1	3	2	5	4	3	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:73518943G>A	uc010yrj.1	-	2	1487	c.1412C>T	c.(1411-1413)ACG>ATG	p.T471M	EGR4_uc010yrk.1_Missense_Mutation_p.T470M	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	367						intracellular	nucleic acid binding|zinc ion binding				0						GAAGCAGCGCGTGCTGCATTT	0.726													3	15					0	0	0.00308	0	0		A	73518943	A	A	73518943	3	1	23	1	0	0	0	0	1	0	0	0	4980	1145	40	1	361	1	EGR4	2	73518943	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1624353	73518943	169680430	156	19484											
ALMS1	7840	broad.mit.edu	37	chr2	73677057	73677057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactagcagaccagaagactGgcacaccaactgtaacctca	15	5	8	13	0	1	3	1	0	0	3	1	4	1	3	3	1	3	3	3	1	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:73677057G>A	uc002sje.1	+	10	3517	c.3406G>A	c.(3406-3408)GGC>AGC	p.G1136S	ALMS1_uc002sjf.1_Missense_Mutation_p.G1092S|ALMS1_uc002sjg.2_Missense_Mutation_p.G522S|ALMS1_uc002sjh.1_Missense_Mutation_p.G522S	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1134	34 X 47 AA approximate tandem repeat.|13.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CCAGAAGACTGGCACACCAAC	0.483													48	200					0	0	0.01441	0	0		A	73677057	A	A	73677057	3	1	23	1	0	0	0	0	1	0	0	0	535	1348	47	4	3430	4	ALMS1	2	73677057	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	158114	73677057	169522316	157	19485											
DCTN1	1639	broad.mit.edu	37	chr2	74597938	74597938	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagcgttcctttgcctccagCgcctccttggcttcctgagg	3	13	10	15	2	0	1	0	1	0	0	4	1	4	1	6	2	3	2	6	2	1	5	rs151107870		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:74597938C>T	uc002skx.2	-	10	1169	c.858G>A	c.(856-858)GCG>GCA	p.A286A	DCTN1_uc002skv.2_Silent_p.A152A|DCTN1_uc002sku.2_Silent_p.A152A|DCTN1_uc002skw.1_Silent_p.A262A|DCTN1_uc010ffd.2_Silent_p.A266A|DCTN1_uc002sky.2_Silent_p.A249A	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	286	Potential.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						TTGCCTCCAGCGCCTCCTTGG	0.567													32	119					0	0	0.00623	0	0		T	74597938	T	T	74597938	2	4	23	1	0	0	0	0	0	0	0	1	4309	755	27	1		1	DCTN1	2	74597938	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	920881	74597938	168601435	158	19486											
LOXL3	84695	broad.mit.edu	37	chr2	74761465	74761465	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgacactcagtgtcttcGagacagaaactagctttgtg	10	12	9	10	1	2	3	1	1	1	2	4	4	3	3	1	0	2	1	1	0	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:74761465G>A	uc002smp.1	-	11	1989	c.1917C>T	c.(1915-1917)CTC>CTT	p.L639L	LOXL3_uc002smo.1_Silent_p.L278L|LOXL3_uc010ffm.1_Silent_p.L583L|LOXL3_uc002smq.1_Silent_p.L494L|LOXL3_uc010ffn.1_Silent_p.L494L	NM_032603	NP_115992	P58215	LOXL3_HUMAN	lysyl oxidase-like 3 precursor	639	Lysyl-oxidase like.					extracellular space|membrane	copper ion binding|protein-lysine 6-oxidase activity|scavenger receptor activity				0						CAGTGTCTTCGAGACAGAAAC	0.507													35	83					0	0	0.005524	0	0		A	74761465	A	A	74761465	2	1	23	1	0	0	0	0	0	0	0	1	8919	1045	37	1		1	LOXL3	2	74761465	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	163527	74761465	168437908	159	19487											
REG1A	5967	broad.mit.edu	37	chr2	79348754	79348754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaaggcaccaatgcctatcGctcctactgctactacttta	11	11	6	13	1	0	1	0	0	0	1	2	1	1	1	3	1	5	3	3	1	7	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:79348754G>A	uc002snz.2	+	3	234	c.131G>A	c.(130-132)CGC>CAC	p.R44H	REG1A_uc010ffx.1_Missense_Mutation_p.R44H|REG1A_uc010ysd.1_Missense_Mutation_p.R44H	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	44	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						AATGCCTATCGCTCCTACTGC	0.537													67	230					0	0	0.01441	0	0		A	79348754	A	A	79348754	3	1	23	1	0	0	0	0	1	0	0	0	13235	1087	38	1	137	1	REG1A	2	79348754	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4587289	79348754	163850619	160	19488											
MAT2A	4144	broad.mit.edu	37	chr2	85769750	85769750	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggcggttggggtgctcaTggaggaggtgccttttcagg	5	12	18	6	1	2	0	2	0	0	0	2	2	2	2	1	8	2	2	1	8	1	4	rs144914741	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:85769750T>C	uc002spr.2	+	7	954	c.831T>C	c.(829-831)CAT>CAC	p.H277H	MAT2A_uc010ysr.1_Silent_p.H277H|MAT2A_uc010fgk.2_Silent_p.H251H|MAT2A_uc010fgl.2_Silent_p.H214H	NM_005911	NP_005902	P31153	METK2_HUMAN	methionine adenosyltransferase II, alpha	277					methylation|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0					L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	GGGGTGCTCATGGAGGAGGTG	0.478													15	46					0	0	0.00499	0	0		C	85769750	C	C	85769750	2	2	23	1	0	0	0	0	0	0	0	1	9348	1461	51	3		3	MAT2A	2	85769750	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	6420996	85769750	157429623	161	19489											
EIF2AK3	9451	broad.mit.edu	37	chr2	88892797	88892797	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaatacacacttctcatTgccactgcgaggtccgacag	10	10	8	13	2	2	1	1	1	2	0	4	3	3	1	2	1	3	0	2	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:88892797T>C	uc002stc.3	-	4	962	c.760A>G	c.(760-762)AAT>GAT	p.N254D		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	254	Lumenal (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						CACTTCTCATTGCCACTGCGA	0.393													4	133					0	0	0.000602	0	0		C	88892797	C	C	88892797	3	2	23	1	0	0	0	0	1	0	0	0	5004	1812	63	3	2646	3	EIF2AK3	2	88892797	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	3123047	88892797	154306576	162	19490											
ADRA2B	151	broad.mit.edu	37	chr2	96781451	96781451	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcccttgtagatgaggggCggcagcgagatgacggcggc	7	6	18	10	5	0	4	0	2	0	2	1	5	0	4	1	5	1	2	1	5	1	2	rs13306147		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:96781451C>T	uc002svi.2	-	1	438	c.438G>A	c.(436-438)CCG>CCA	p.P146P		NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor	146	Helical; Name=4; (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	AGATGAGGGGCGGCAGCGAGA	0.677													4	35					0	0	0.000602	0	0		T	96781451	T	T	96781451	2	4	23	1	0	0	0	0	0	0	0	1	338	755	27	1		1	ADRA2B	2	96781451	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	7888654	96781451	146417922	163	19491											
C2orf55	343990	broad.mit.edu	37	chr2	99413824	99413824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctaagcacctggcctctctCgggcaccttggcttgctttc	4	13	9	15	1	2	0	0	0	2	0	5	0	2	0	3	3	2	4	3	3	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:99413824C>T	uc002szf.1	-	8	2887	c.2593G>A	c.(2593-2595)GAG>AAG	p.E865K		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	865											0						TGGCCTCTCTCGGGCACCTTG	0.612													33	137					0	0	0.003755	0	0		T	99413824	T	T	99413824	3	4	23	1	0	0	0	0	1	0	0	0	2179	893	31	1	307	1	C2orf55	2	99413824	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2632373	99413824	143785549	164	19492											
IL1RL2	8808	broad.mit.edu	37	chr2	102805670	102805670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattctagcaaaatcccaGtgtccaaaatcatacagtct	17	10	4	10	0	3	0	1	0	2	0	5	0	5	0	2	0	2	1	2	0	8	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:102805670G>A	uc002tbs.2	+	3	319	c.193G>A	c.(193-195)GTG>ATG	p.V65M	IL1RL2_uc002tbt.2_Intron	NM_003854	NP_003845	Q9HB29	ILRL2_HUMAN	interleukin 1 receptor-like 2 precursor	65	Extracellular (Potential).|Ig-like C2-type 1.				cellular defense response|innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity			ovary(2)	2						CAAAATCCCAGTGTCCAAAAT	0.413													23	56					0	0	0.012319	0	0		A	102805670	A	A	102805670	3	1	23	1	0	0	0	0	1	0	0	0	7680	1029	36	4	199	4	IL1RL2	2	102805670	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3391846	102805670	140393703	165	19493											
NCK2	8440	broad.mit.edu	37	chr2	106497989	106497989	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcaccgtcatggagaagtgCagcgacggttggtggcgggg	7	7	19	8	4	2	1	2	0	0	1	2	3	2	1	1	6	2	2	1	6	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:106497989C>G	uc002tdg.2	+	4	874	c.432C>G	c.(430-432)TGC>TGG	p.C144W	NCK2_uc002tdh.2_Intron|NCK2_uc002tdi.2_Missense_Mutation_p.C144W	NM_003581	NP_003572	O43639	NCK2_HUMAN	NCK adaptor protein 2 isoform A	144	SH3 2.				axon guidance|epidermal growth factor receptor signaling pathway|negative regulation of cell proliferation|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of epidermal growth factor receptor activity|regulation of translation|signal complex assembly|T cell activation	cytosol|endoplasmic reticulum	cytoskeletal adaptor activity|receptor signaling complex scaffold activity			ovary(1)|lung(1)	2						TGGAGAAGTGCAGCGACGGTT	0.637													5	52					0	0	0.003163	0	0		G	106497989	G	G	106497989	3	3	23	1	0	0	0	0	1	0	0	0	10239	718	25	5	438	5	NCK2	2	106497989	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3692319	106497989	136701384	166	19494											
ST6GAL2	84620	broad.mit.edu	37	chr2	107446579	107446579	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctttagtgttctcctggaTaatatcccagagctgccata	9	14	7	11	0	2	1	0	0	2	1	4	2	3	2	3	1	2	2	3	1	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:107446579T>C	uc002tdq.2	-	5	1380	c.1261A>G	c.(1261-1263)ATC>GTC	p.I421V	ST6GAL2_uc002tdr.2_Missense_Mutation_p.I421V|ST6GAL2_uc002tds.3_Missense_Mutation_p.I421V	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	421	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						TTCTCCTGGATAATATCCCAG	0.393													24	98					0	0	0.00333	0	0		C	107446579	C	C	107446579	3	2	23	1	0	0	0	0	1	0	0	0	15247	1406	49	3	423	3	ST6GAL2	2	107446579	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	948590	107446579	135752794	167	19495											
EDAR	10913	broad.mit.edu	37	chr2	109524475	109524475	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggatgaggcatcgttctcGctgcaaaaacaagagcgatg	12	8	12	9	4	1	2	0	1	1	1	4	4	1	3	0	2	3	4	0	2	3	1	rs143674939		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:109524475G>A	uc002teq.3	-	10	1235	c.804C>T	c.(802-804)AGC>AGT	p.S268S	EDAR_uc010fjn.2_Silent_p.S300S|EDAR_uc010yws.1_Silent_p.S300S	NM_022336	NP_071731	Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor precursor	268	Cytoplasmic (Potential).				apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1						CATCGTTCTCGCTGCAAAAAC	0.607													11	24					0	0	0.013537	0	0		A	109524475	A	A	109524475	2	1	23	1	0	0	0	0	0	0	0	1	4911	1101	38	1		1	EDAR	2	109524475	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2077896	109524475	133674898	168	19496											
ANAPC1	64682	broad.mit.edu	37	chr2	112614416	112614416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggtatgttggtcactgaaCcaaagatgagctgggtttta	10	13	12	6	0	1	3	1	2	0	1	1	3	1	3	1	3	2	4	1	3	4	4	rs4067733	by1000genomes	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:112614416C>T	uc002thi.2	-	12	1653	c.1406G>A	c.(1405-1407)GGT>GAT	p.G469D		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	469					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						GGTCACTGAACCAAAGATGAG	0.274													4	112					0	0	0.009096	0	0		T	112614416	T	T	112614416	3	4	23	1	0	0	0	0	1	0	0	0	598	507	18	4	4576	4	ANAPC1	2	112614416	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3089941	112614416	130584957	169	19497											
PSD4	23550	broad.mit.edu	37	chr2	113950132	113950132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatcgcctggagggcttcCggaagtctgaagtggctgcc	6	10	14	11	2	2	1	0	1	2	0	4	3	3	3	3	4	1	2	3	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:113950132C>T	uc002tjc.2	+	6	1987	c.1804C>T	c.(1804-1806)CGG>TGG	p.R602W	PSD4_uc002tjd.2_Missense_Mutation_p.R223W|PSD4_uc002tje.2_Missense_Mutation_p.R573W|PSD4_uc002tjf.2_Missense_Mutation_p.R223W	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	602	SEC7.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						GGAGGGCTTCCGGAAGTCTGA	0.597													21	68					0	0	0.014323	0	0		T	113950132	T	T	113950132	3	4	23	1	0	0	0	0	1	0	0	0	12671	643	23	1	1822	1	PSD4	2	113950132	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1335716	113950132	129249241	170	19498											
DDX18	8886	broad.mit.edu	37	chr2	118583858	118583858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaaggaatatattcatcGtgtgggtagaacagccagag	15	8	11	7	1	1	2	1	0	0	2	2	3	1	3	2	2	2	1	2	2	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:118583858G>A	uc002tlh.1	+	11	1634	c.1535G>A	c.(1534-1536)CGT>CAT	p.R512H		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	512	Helicase C-terminal.						ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4						TATATTCATCGTGTGGGTAGA	0.458													9	33					0	0	0.004482	0	0		A	118583858	A	A	118583858	3	1	23	1	0	0	0	0	1	0	0	0	4348	1145	40	1	1577	1	DDX18	2	118583858	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4633726	118583858	124615515	171	19499											
STEAP3	55240	broad.mit.edu	37	chr2	120005432	120005432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggccctggggctcttcGtctgcttctatgcctacaac	4	13	10	14	1	3	0	0	0	3	0	4	0	3	0	2	3	5	3	2	3	3	4	rs139584756	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:120005432G>A	uc002tlp.2	+	4	827	c.670G>A	c.(670-672)GTC>ATC	p.V224I	STEAP3_uc002tlq.2_Missense_Mutation_p.V234I|STEAP3_uc002tlr.2_Missense_Mutation_p.V224I|STEAP3_uc010fle.2_Missense_Mutation_p.V224I	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	224	Helical; (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						GGGGCTCTTCGTCTGCTTCTA	0.632													18	84					0	0	0.00499	0	0		A	120005432	A	A	120005432	3	1	23	1	0	0	0	0	1	0	0	0	15304	1145	40	1	710	1	STEAP3	2	120005432	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1421574	120005432	123193941	172	19500											
INHBB	3625	broad.mit.edu	37	chr2	121107175	121107175	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacttccgcctcatcggcTggaacgactggatcatagca	9	10	10	12	3	2	1	2	1	0	0	4	4	3	3	2	3	2	2	2	3	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:121107175T>C	uc002tmn.2	+	2	995	c.949T>C	c.(949-951)TGG>CGG	p.W317R		NM_002193	NP_002184	P09529	INHBB_HUMAN	inhibin beta B subunit preproprotein	317					activin receptor signaling pathway|cellular response to insulin stimulus|cellular response to starvation|defense response|fat cell differentiation|growth|negative regulation of follicle-stimulating hormone secretion|negative regulation of hepatocyte growth factor biosynthetic process|negative regulation of insulin secretion|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation	extracellular region|perinuclear region of cytoplasm	cytokine activity|growth factor activity|hormone activity|host cell surface receptor binding|protein homodimerization activity			pancreas(2)|skin(1)	3		Prostate(154;0.122)				CCTCATCGGCTGGAACGACTG	0.622													25	69					0	0	0.009535	0	0		C	121107175	C	C	121107175	3	2	23	1	0	0	0	0	1	0	0	0	7758	1580	55	3	955	3	INHBB	2	121107175	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1101743	121107175	122092198	173	19501											
GLI2	2736	broad.mit.edu	37	chr2	121744020	121744020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccaggggccgacacctcagCcctggctgccccctccgctg	4	5	11	21	2	1	0	1	0	0	0	2	1	2	0	7	3	2	2	7	3	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:121744020C>T	uc010flp.2	+	12	2153	c.2123C>T	c.(2122-2124)GCC>GTC	p.A708V	GLI2_uc002tmq.1_Missense_Mutation_p.A380V|GLI2_uc002tmr.1_Missense_Mutation_p.A363V|GLI2_uc002tmt.3_Missense_Mutation_p.A380V|GLI2_uc002tmu.3_Missense_Mutation_p.A363V|GLI2_uc002tmw.1_Missense_Mutation_p.A691V	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	708					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				GACACCTCAGCCCTGGCTGCC	0.652													8	34					0	0	0.004482	0	0		T	121744020	T	T	121744020	3	4	23	1	0	0	0	0	1	0	0	0	6453	739	26	2	2169	2	GLI2	2	121744020	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	636845	121744020	121455353	174	19502											
SAP130	79595	broad.mit.edu	37	chr2	128700069	128700069	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttgggataatcccttcctGcaggttagtaagtctttcat	8	16	8	9	0	2	0	1	0	1	0	4	1	4	1	2	2	1	3	2	2	3	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:128700069G>A	uc002tpp.2	-	19	3049	c.2917C>T	c.(2917-2919)CAG>TAG	p.Q973*	SAP130_uc002tpn.2_Nonsense_Mutation_p.Q733*|SAP130_uc002tpo.2_Nonsense_Mutation_p.Q753*|SAP130_uc010fmd.2_Nonsense_Mutation_p.Q1008*	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	973	Interactions with SIN3A and HDAC1.				histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		ATCCCTTCCTGCAGGTTAGTA	0.423													20	100					0	0	0.010504	0	0		A	128700069	A	A	128700069	4	1	23	1	0	0	0	0	0	1	0	0	13856	1328	46	2	237	2	SAP130	2	128700069	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	6956049	128700069	114499304	175	19503											
UGGT1	56886	broad.mit.edu	37	chr2	128865513	128865513	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatgttcttccttgacaggTaccgattattcctactatca	10	16	5	10	1	2	1	1	1	1	0	4	2	4	1	3	1	2	2	3	1	5	9			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:128865513T>C	uc002tps.2	+	4	457	c.279T>C	c.(277-279)GGT>GGC	p.G93G	UGGT1_uc010fme.1_Intron|UGGT1_uc002tpr.2_Silent_p.G69G	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	93					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						CCTTGACAGGTACCGATTATT	0.378													35	152					0	0	0.006999	0	0		C	128865513	C	C	128865513	2	2	23	1	0	0	0	0	0	0	0	1	16967	1652	57	3		3	UGGT1	2	128865513	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	165444	128865513	114333860	176	19504											
NCKAP5	344148	broad.mit.edu	37	chr2	133543248	133543248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagcaaagccacttgggagcGaagaatcaatacttagcctt	14	9	9	9	1	1	1	1	0	0	1	1	3	1	2	2	1	5	1	2	1	7	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:133543248G>A	uc002ttp.2	-	14	1510	c.1136C>T	c.(1135-1137)TCG>TTG	p.S379L	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	379	Ser-rich.						protein binding				0						ACTTGGGAGCGAAGAATCAAT	0.388													8	27					0	0	0.006214	0	0		A	133543248	A	A	133543248	3	1	23	1	0	0	0	0	1	0	0	0	10242	1059	37	1	4621	1	NCKAP5	2	133543248	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4677735	133543248	109656125	177	19505											
MGAT5	4249	broad.mit.edu	37	chr2	135102526	135102526	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaaggttgtaggaaacCgatctggctgcccaactgta	12	9	12	8	1	1	2	0	1	1	1	1	4	1	3	2	3	3	4	2	3	6	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:135102526C>T	uc002ttv.1	+	8	1148	c.1003C>T	c.(1003-1005)CGA>TGA	p.R335*		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	335	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		TGTAGGAAACCGATCTGGCTG	0.388													20	105					0	0	0.012319	0	0		T	135102526	T	T	135102526	4	4	23	1	0	0	0	0	0	1	0	0	9566	644	23	1	1033	1	MGAT5	2	135102526	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1559278	135102526	108096847	178	19506											
LCT	3938	broad.mit.edu	37	chr2	136561685	136561685	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtctgtggtaggtcccagTggtaaatggtcacctgggaa	8	10	15	8	1	2	0	1	0	1	0	3	1	3	1	2	5	0	2	2	5	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:136561685T>C	uc002tuu.1	-	11	4489	c.4478A>G	c.(4477-4479)CAC>CGC	p.H1493R		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1493	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TAGGTCCCAGTGGTAAATGGT	0.532													7	51					0	0	0.001984	0	0		C	136561685	C	C	136561685	3	2	23	1	0	0	0	0	1	0	0	0	8709	1696	59	3	1333	3	LCT	2	136561685	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1459159	136561685	106637688	179	19507											
LCT	3938	broad.mit.edu	37	chr2	136566693	136566693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgggggaaattcccctgagCcataacctagccatgccagg	10	7	11	13	0	0	1	0	1	0	0	1	2	1	2	6	3	4	0	6	3	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:136566693C>T	uc002tuu.1	-	8	3235	c.3224G>A	c.(3223-3225)GGC>GAC	p.G1075D		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1075	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TTCCCCTGAGCCATAACCTAG	0.507													10	47					0	0	0.006214	0	0		T	136566693	T	T	136566693	3	4	23	1	0	0	0	0	1	0	0	0	8709	739	26	2	2599	2	LCT	2	136566693	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5008	136566693	106632680	180	19508											
LRP1B	53353	broad.mit.edu	37	chr2	141625218	141625218	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggctgtgcactggttttcTgaatcacactgacattctgc	8	14	9	10	0	3	2	1	2	2	0	3	2	3	2	0	2	2	3	0	2	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:141625218T>C	uc002tvj.1	-	27	5492	c.4520A>G	c.(4519-4521)CAG>CGG	p.Q1507R	LRP1B_uc010fnl.1_Missense_Mutation_p.Q689R	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1507	Extracellular (Potential).|LDL-receptor class B 13.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACTGGTTTTCTGAATCACACT	0.473										TSP Lung(27;0.18)			7	189					0	0	0.00308	0	0		C	141625218	C	C	141625218	3	2	23	1	0	0	0	0	1	0	0	0	8973	1580	55	3	9539	3	LRP1B	2	141625218	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	5058525	141625218	101574155	181	19509											
RND3	390	broad.mit.edu	37	chr2	151326739	151326739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tagctgctccaatctgtttgGccatatttgccccctgagaa	8	13	8	12	0	1	1	0	1	1	1	2	2	2	1	4	1	3	3	4	1	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:151326739G>A	uc002txe.2	-	5	741	c.497C>T	c.(496-498)GCC>GTC	p.A166V	RND3_uc002txf.2_Missense_Mutation_p.A165V|RND3_uc002txg.2_Missense_Mutation_p.A166V|RND3_uc010zbv.1_Intron|RND3_uc010zbw.1_Intron	NM_005168	NP_005159	P61587	RND3_HUMAN	ras homolog gene family, member E precursor	166					actin cytoskeleton organization|cell adhesion|small GTPase mediated signal transduction	Golgi membrane	GTP binding|GTPase activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.106)		AATCTGTTTGGCCATATTTGC	0.403													21	65					0	0	0.014323	0	0		A	151326739	A	A	151326739	3	1	23	1	0	0	0	0	1	0	0	0	13446	1203	42	2	241	2	RND3	2	151326739	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	9701521	151326739	91872634	182	19510											
RIF1	55183	broad.mit.edu	37	chr2	152273371	152273371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtttaacaaaggagagacGcattctgctgttgttgattt	10	15	10	6	1	1	2	0	1	1	1	1	4	1	3	0	1	2	5	0	1	2	6	rs149505451	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:152273371G>A	uc002txm.2	+	6	589	c.459G>A	c.(457-459)ACG>ACA	p.T153T	RIF1_uc002txl.2_Silent_p.T153T|RIF1_uc010fnv.1_Silent_p.T117T|RIF1_uc002txn.2_Silent_p.T153T|RIF1_uc002txo.2_Silent_p.T153T|RIF1_uc010zby.1_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	153					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		AAGGAGAGACGCATTCTGCTG	0.299													16	47					0	0	0.003163	0	0		A	152273371	A	A	152273371	2	1	23	1	0	0	0	0	0	0	0	1	13384	1074	38	1		1	RIF1	2	152273371	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	946632	152273371	90926002	183	19511											
NEB	4703	broad.mit.edu	37	chr2	152476209	152476209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaccacattatcttggggTcatcgtgtactgctcgggcg	6	11	14	10	3	2	0	1	0	1	0	4	1	2	1	1	4	2	2	1	4	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:152476209T>C	uc010fnx.2	-	69	10090	c.9899A>G	c.(9898-9900)GAC>GGC	p.D3300G		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3300	Nebulin 90.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TATCTTGGGGTCATCGTGTAC	0.448													4	77					0	0	0.009096	0	0		C	152476209	C	C	152476209	3	2	23	1	0	0	0	0	1	0	0	0	10321	1667	58	3	15498	3	NEB	2	152476209	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	202838	152476209	90723164	184	19512											
NEB	4703	broad.mit.edu	37	chr2	152500546	152500546	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctgtcactctggatcttgGccacatgcatggaccacatc	8	10	8	15	0	3	0	1	0	2	0	4	2	3	2	3	3	1	1	3	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:152500546G>A	uc010fnx.2	-	57	7933	c.7742C>T	c.(7741-7743)GCC>GTC	p.A2581V		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2581	Nebulin 69.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CTGGATCTTGGCCACATGCAT	0.527													102	404					0	0	0.01441	0	0		A	152500546	A	A	152500546	3	1	23	1	0	0	0	0	1	0	0	0	10321	1203	42	2	18448	2	NEB	2	152500546	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	24337	152500546	90698827	185	19513											
CYTIP	9595	broad.mit.edu	37	chr2	158272530	158272530	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggagctcagccagctctTacagctgctctcactggata	9	10	9	13	0	3	0	2	0	2	0	4	2	3	2	1	2	6	4	1	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:158272530T>C	uc002tzj.1	-	8	811	c.739A>G	c.(739-741)AAG>GAG	p.K247E	CYTIP_uc010zcl.1_Missense_Mutation_p.K141E	NM_004288	NP_004279	O60759	CYTIP_HUMAN	cytohesin 1 interacting protein	247	Ser-rich.				regulation of cell adhesion	cell cortex|early endosome	protein binding			ovary(1)|kidney(1)|skin(1)	3						AGCCAGCTCTTACAGCTGCTC	0.557													4	90					0	0	0.009096	0	0		C	158272530	C	C	158272530	3	2	23	1	0	0	0	0	1	0	0	0	4210	1763	61	3	344	3	CYTIP	2	158272530	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	5771984	158272530	84926843	186	19514											
PKP4	8502	broad.mit.edu	37	chr2	159499197	159499197	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctattgatgcagaagtaaGggagcttgttacaggtaggt	12	12	13	4	0	1	2	0	1	1	1	1	3	1	3	0	3	3	5	0	3	5	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:159499197G>T	uc002tzv.2	+	11	2155	c.1895G>T	c.(1894-1896)AGG>ATG	p.R632M	PKP4_uc002tzt.1_Missense_Mutation_p.R484M|PKP4_uc002tzu.2_Missense_Mutation_p.R632M|PKP4_uc002tzw.2_Missense_Mutation_p.R632M|PKP4_uc002tzx.2_Missense_Mutation_p.R289M|PKP4_uc002tzy.1_Missense_Mutation_p.R290M|PKP4_uc002tzz.1_Missense_Mutation_p.R630M|PKP4_uc002uaa.2_Missense_Mutation_p.R484M	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	632	ARM 4.				cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						GCAGAAGTAAGGGAGCTTGTT	0.408										HNSCC(62;0.18)			4	97					0.00909568	0.00923866	0.009096	1	0		T	159499197	T	T	159499197	3	4	23	1	0	0	0	0	1	0	0	0	12006	1000	35	5	1933	5	PKP4	2	159499197	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1226667	159499197	83700176	187	19515											
RBMS1	5937	broad.mit.edu	37	chr2	161223832	161223832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctgagttgctactgctgCtactgttgttattactgctg	6	17	9	9	0	0	1	0	1	0	0	1	1	1	1	1	0	7	7	1	0	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:161223832C>T	uc002ubo.2	-	2	590	c.146G>A	c.(145-147)AGC>AAC	p.S49N	RBMS1_uc002ubj.2_Missense_Mutation_p.S16N|RBMS1_uc002ubk.2_Missense_Mutation_p.S16N|RBMS1_uc002ubl.2_Missense_Mutation_p.S47N|RBMS1_uc002ubn.2_Missense_Mutation_p.S49N|RBMS1_uc002ubi.3_Missense_Mutation_p.S49N|RBMS1_uc002ubm.2_Missense_Mutation_p.S16N|RBMS1_uc002ubp.2_Missense_Mutation_p.S49N|RBMS1_uc010fox.2_Missense_Mutation_p.S49N	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	49					DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						gctactgctgctactgttgtt	0.448													22	70					0	0	0.014323	0	0		T	161223832	T	T	161223832	3	4	23	1	0	0	0	0	1	0	0	0	13173	797	28	2	1122	2	RBMS1	2	161223832	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1724635	161223832	81975541	188	19516											
TTC21B	79809	broad.mit.edu	37	chr2	166747406	166747406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caattttgctctggagttacGtttctcagccattgagaaaa	11	14	8	8	1	2	1	1	1	2	1	3	3	2	2	1	1	3	3	1	1	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:166747406G>A	uc002udk.2	-	23	3176	c.3043C>T	c.(3043-3045)CGT>TGT	p.R1015C	TTC21B_uc002udj.1_RNA	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	1015						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						CTGGAGTTACGTTTCTCAGCC	0.328													11	43					0	0	0.010729	0	0		A	166747406	A	A	166747406	3	1	23	1	0	0	0	0	1	0	0	0	16714	1145	40	1	935	1	TTC21B	2	166747406	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5523574	166747406	76451967	189	19517											
NOSTRIN	115677	broad.mit.edu	37	chr2	169718513	169718513	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagactttgcaaggccttGtattcttttcaagccaggca	10	12	9	10	0	2	1	1	0	1	1	2	1	2	1	2	2	3	4	2	2	3	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:169718513G>A	uc002ueg.2	+	15	1342	c.1338G>A	c.(1336-1338)TTG>TTA	p.L446L	NOSTRIN_uc002uef.2_Silent_p.L503L|NOSTRIN_uc002uei.2_Silent_p.L329L|NOSTRIN_uc010fpu.2_Silent_p.L418L|NOSTRIN_uc002ueh.2_Silent_p.L368L|NOSTRIN_uc002uej.2_Silent_p.L329L|NOSTRIN_uc002uek.2_Silent_p.L130L	NM_001039724	NP_001034813	Q8IVI9	NOSTN_HUMAN	nitric oxide synthase trafficker isoform 2	446	SH3.				endocytosis|nitric oxide metabolic process|regulation of nitric-oxide synthase activity	cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	protein binding				0						GCAAGGCCTTGTATTCTTTTC	0.403													36	105					0	0	0.003755	0	0		A	169718513	A	A	169718513	2	1	23	1	0	0	0	0	0	0	0	1	10565	1368	48	4		4	NOSTRIN	2	169718513	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2971107	169718513	73480860	190	19518											
LRP2	4036	broad.mit.edu	37	chr2	170099926	170099926	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttaccacaaccaacctcAtcagatccatcaacacaatc	16	7	1	17	0	3	1	3	0	0	1	5	1	4	1	4	0	4	0	4	0	5	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:170099926A>G	uc002ues.2	-	23	3750	c.3537T>C	c.(3535-3537)GAT>GAC	p.D1179D	LRP2_uc010zdf.1_Silent_p.D1042D	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1179	LDL-receptor class A 11.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AACCAACCTCATCAGATCCAT	0.328													15	93					0	0	0.003954	0	0		G	170099926	G	G	170099926	2	3	23	1	0	0	0	0	0	0	0	1	8974	214	8	3		3	LRP2	2	170099926	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	381413	170099926	73099447	191	19519											
SP5	389058	broad.mit.edu	37	chr2	171572828	171572828	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcccctggcattgctggcCgccacctgtagccgcatcgg	4	8	12	17	4	0	0	0	0	0	0	2	0	0	0	6	3	2	4	6	3	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:171572828C>T	uc002uge.2	+	2	277	c.111C>T	c.(109-111)GCC>GCT	p.A37A	LOC440925_uc002ugd.2_5'Flank	NM_001003845	NP_001003845	Q6BEB4	SP5_HUMAN	Sp5 transcription factor	37					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CATTGCTGGCCGCCACCTGTA	0.612													10	28					0	0	0.010729	0	0		T	171572828	T	T	171572828	2	4	23	1	0	0	0	0	0	0	0	1	14992	639	23	1		1	SP5	2	171572828	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1472902	171572828	71626545	192	19520											
TTC30B	150737	broad.mit.edu	37	chr2	178416719	178416719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagttggtattctatagctGccttaaggttgaaggcttcc	8	15	10	8	0	2	1	1	1	1	0	3	1	3	1	2	3	2	5	2	3	5	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:178416719G>A	uc002uln.2	-	1	806	c.773C>T	c.(772-774)GCA>GTA	p.A258V	TTC30B_uc010zfc.1_Missense_Mutation_p.A30V	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	258					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			TTCTATAGCTGCCTTAAGGTT	0.527													6	180					0	0	0.001984	0	0		A	178416719	A	A	178416719	3	1	23	1	0	0	0	0	1	0	0	0	16725	1319	46	2	1228	2	TTC30B	2	178416719	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	6843891	178416719	64782654	193	19521											
TTN	7273	broad.mit.edu	37	chr2	179397575	179397575	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatgcgcttgggtcgtttCtgtacaactctgtcaagttt	6	15	11	9	3	3	0	1	0	2	0	4	1	3	1	0	2	3	4	0	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:179397575C>A	uc010zfg.1	-	307	96287	c.96063G>T	c.(96061-96063)CAG>CAT	p.Q32021H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q25716H|TTN_uc010zfi.1_Missense_Mutation_p.Q25649H|TTN_uc010zfj.1_Missense_Mutation_p.Q25524H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32948							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGGTCGTTTCTGTACAACTC	0.448													19	76					5.03518e-11	5.3914e-11	0.007413	1	0		A	179397575	A	A	179397575	3	1	23	1	0	0	0	0	1	0	0	0	16761	912	32	5	4232	5	TTN	2	179397575	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	980856	179397575	63801798	194	19522											
TTN	7273	broad.mit.edu	37	chr2	179416834	179416834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttagtttgtgaagtttcccGcttctcgatgctgtaacaag	8	15	10	8	2	1	1	0	1	1	0	3	2	2	1	1	0	2	6	1	0	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:179416834G>A	uc010zfg.1	-	284	83313	c.83089C>T	c.(83089-83091)CGG>TGG	p.R27697W	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R21392W|TTN_uc010zfi.1_Missense_Mutation_p.R21325W|TTN_uc010zfj.1_Missense_Mutation_p.R21200W	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28624							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAAGTTTCCCGCTTCTCGATG	0.413													32	139					0	0	0.009535	0	0		A	179416834	A	A	179416834	3	1	23	1	0	0	0	0	1	0	0	0	16761	1086	38	1	17298	1	TTN	2	179416834	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	19259	179416834	63782539	195	19523											
TTN	7273	broad.mit.edu	37	chr2	179422586	179422586	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtaacttgacttccaccGtcatacttaggtggctccca	8	13	8	12	1	1	1	1	1	0	0	3	1	3	1	3	3	2	2	3	3	3	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:179422586G>A	uc010zfg.1	-	277	80015	c.79791C>T	c.(79789-79791)GAC>GAT	p.D26597D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.D20292D|TTN_uc010zfi.1_Silent_p.D20225D|TTN_uc010zfj.1_Silent_p.D20100D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27524							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GACTTCCACCGTCATACTTAG	0.438													83	292					0	0	0.01441	0	0		A	179422586	A	A	179422586	2	1	23	1	0	0	0	0	0	0	0	1	16761	1136	40	1		1	TTN	2	179422586	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5752	179422586	63776787	196	19524											
TTN	7273	broad.mit.edu	37	chr2	179444665	179444665	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgatggttcatttgcttaCgggaagctttgacagcatca	10	13	11	7	1	2	2	2	2	0	0	2	4	2	3	0	2	4	4	0	2	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:179444665C>T	uc010zfg.1	-	267	59868	c.59644_splice	c.e267+1	p.Q19882_splice	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Splice_Site_p.Q13577_splice|TTN_uc010zfi.1_Splice_Site_p.Q13510_splice|TTN_uc010zfj.1_Splice_Site_p.Q13385_splice|uc002umv.1_3'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A								ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATTTGCTTACGGGAAGCTTT	0.413													19	90					0	0	0.007413	0	0		T	179444665	T	T	179444665	5	4	23	1	0	0	0	0	0	0	1	0	16761	550	19	1	40810	1	TTN	2	179444665	Splice_Site	SNP	C	TCGA-BR-4368-01A-01D-1158-08	22079	179444665	63754708	197	19525											
TTN	7273	broad.mit.edu	37	chr2	179542346	179542346	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attccaagaagagctgctatAcctggtgcaggtactggcac	11	9	11	10	0	0	2	0	0	0	2	1	2	1	2	2	3	5	5	2	3	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:179542346A>G	uc010zfg.1	-	143	30783	c.30559_splice	c.e143+1	p.V10187_splice	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Splice_Site_p.V6848_splice|TTN_uc010fre.1_Intron|TTN_uc002una.1_Splice_Site|TTN_uc010frf.1_Splice_Site	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A								ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAGCTGCTATACCTGGTGCAG	0.418													2	32					0	0	0.004672	0	0		G	179542346	G	G	179542346	5	3	23	1	0	0	0	0	0	0	1	0	16761	405	14	3	70104	3	TTN	2	179542346	Splice_Site	SNP	A	TCGA-BR-4368-01A-01D-1158-08	97681	179542346	63657027	198	19526											
TTN	7273	broad.mit.edu	37	chr2	179605782	179605782	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcaagtgcttcaactgcggGaccctttaagggtgtctgtg	7	12	13	9	1	3	0	2	0	1	0	3	1	3	1	1	2	3	1	1	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:179605782G>T	uc010zfh.1	-	46	11889	c.11665C>A	c.(11665-11667)CCC>ACC	p.P3889T	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.P3822T|TTN_uc010zfj.1_Missense_Mutation_p.P3697T|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	3829							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCAACTGCGGGACCCTTTAAG	0.458													57	231					1.88225e-35	2.09694e-35	0.01441	1	0		T	179605782	T	T	179605782	3	4	23	1	0	0	0	0	1	0	0	0	16761	1174	41	5	92611	5	TTN	2	179605782	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	63436	179605782	63593591	199	19527											
TTN	7273	broad.mit.edu	37	chr2	179666960	179666960	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctttagtcacggcggggAtcgtcagtttagcgcggcca	6	10	15	10	5	2	0	2	0	0	0	3	1	2	1	1	5	1	2	1	5	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:179666960A>T	uc002und.2	-	3	425	c.200T>A	c.(199-201)ATC>AAC	p.I67N	TTN_uc010zfg.1_Missense_Mutation_p.I67N|TTN_uc010zfh.1_Missense_Mutation_p.I67N|TTN_uc010zfi.1_Missense_Mutation_p.I67N|TTN_uc010zfj.1_Missense_Mutation_p.I67N|TTN_uc002unb.2_Missense_Mutation_p.I67N			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	67							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CACGGCGGGGATCGTCAGTTT	0.547													7	96					0	0	0.00308	0	0		T	179666960	T	T	179666960	3	4	23	1	0	0	0	0	1	0	0	0	16761	333	12	5	111228	5	TTN	2	179666960	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	61178	179666960	63532413	200	19528											
ITGAV	3685	broad.mit.edu	37	chr2	187541976	187541976	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaacaagaaagggagcAgcttcaacctcatgaaaatg	19	5	10	7	0	2	4	2	1	0	3	2	5	2	5	1	1	4	2	1	1	7	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:187541976A>G	uc002upq.2	+	30	3380	c.3104A>G	c.(3103-3105)CAG>CGG	p.Q1035R	ITGAV_uc010frs.2_Missense_Mutation_p.Q999R|ITGAV_uc010zfv.1_Missense_Mutation_p.Q989R	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	1035	Cytoplasmic (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		GAAAGGGAGCAGCTTCAACCT	0.378													9	34					0	0	0.008291	0	0		G	187541976	G	G	187541976	3	3	23	1	0	0	0	0	1	0	0	0	7904	188	7	3	3273	3	ITGAV	2	187541976	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	7875016	187541976	55657397	201	19529											
DNAH7	56171	broad.mit.edu	37	chr2	196722261	196722261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttgtcatattcatgaaGtgactgcagaaacctcatgt	11	13	8	9	0	3	3	3	2	0	1	4	3	4	3	2	0	2	1	2	0	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:196722261G>A	uc002utj.3	-	44	8355	c.8254C>T	c.(8254-8256)CTT>TTT	p.L2752F		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2752	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TATTCATGAAGTGACTGCAGA	0.373													25	88					0	0	0.005443	0	0		A	196722261	A	A	196722261	3	1	23	1	0	0	0	0	1	0	0	0	4612	1029	36	4	3908	4	DNAH7	2	196722261	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	9180285	196722261	46477112	202	19530											
SATB2	23314	broad.mit.edu	37	chr2	200246470	200246470	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagacatcttgtagcatgtcGgccactgtcgcgtcgggtgc	6	11	13	11	4	1	1	0	0	1	1	4	1	1	1	1	2	2	2	1	2	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:200246470G>A	uc002uuy.1	-	4	1237	c.420C>T	c.(418-420)GCC>GCT	p.A140A	SATB2_uc010fsq.1_Intron|SATB2_uc002uuz.1_Silent_p.A140A|SATB2_uc002uva.1_Silent_p.A140A	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	140						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GTAGCATGTCGGCCACTGTCG	0.463													9	62					0	0	0.003163	0	0		A	200246470	A	A	200246470	2	1	23	1	0	0	0	0	0	0	0	1	13879	1103	39	1		1	SATB2	2	200246470	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3524209	200246470	42952903	203	19531											
RAPH1	65059	broad.mit.edu	37	chr2	204304285	204304285	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccttctgttgatcagacaGcagttcagggggtggtggag	8	10	16	7	0	3	2	2	1	1	1	3	3	3	3	1	4	2	3	1	4	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:204304285G>A	uc002vad.2	-	14	3853	c.3628C>T	c.(3628-3630)CTG>TTG	p.L1210L		NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	1210					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10						TGATCAGACAGCAGTTCAGGG	0.567													5	40					0	0	0.001168	0	0		A	204304285	A	A	204304285	2	1	23	1	0	0	0	0	0	0	0	1	13075	962	34	2		2	RAPH1	2	204304285	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4057815	204304285	38895088	204	19532											
ABCA12	26154	broad.mit.edu	37	chr2	215809820	215809820	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcggatccatgccagagctCggctcatccttaatagaaag	11	10	9	11	2	1	2	1	0	0	2	5	3	3	3	3	2	2	2	3	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:215809820C>T	uc002vew.2	-	49	7468	c.7248G>A	c.(7246-7248)CCG>CCA	p.P2416P	ABCA12_uc002vev.2_Silent_p.P2098P|ABCA12_uc010zjn.1_Silent_p.P1343P	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	2416	ABC transporter 2.				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TGCCAGAGCTCGGCTCATCCT	0.368													5	22					0	0	0.001168	0	0		T	215809820	T	T	215809820	2	4	23	1	0	0	0	0	0	0	0	1	30	871	31	1		1	ABCA12	2	215809820	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	11505535	215809820	27389553	205	19533											
ABCA12	26154	broad.mit.edu	37	chr2	215843717	215843717	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgtgattggatcattgcTgtcacggccatggtgtcaca	9	12	12	8	1	3	2	3	1	0	1	3	3	3	3	1	3	1	1	1	3	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:215843717T>C	uc002vew.2	-	32	5008	c.4788A>G	c.(4786-4788)ACA>ACG	p.T1596T	ABCA12_uc002vev.2_Silent_p.T1278T|ABCA12_uc010zjn.1_Silent_p.T523T	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1596					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GGATCATTGCTGTCACGGCCA	0.443													10	53					0	0	0.006214	0	0		C	215843717	C	C	215843717	2	2	23	1	0	0	0	0	0	0	0	1	30	1567	55	3		3	ABCA12	2	215843717	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	33897	215843717	27355656	206	19534											
SMARCAL1	50485	broad.mit.edu	37	chr2	217280167	217280167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcgtaaggaacggcgatcGtttccaggtgttgattgggt	7	12	16	6	4	0	1	0	1	0	0	2	3	1	2	1	4	2	3	1	4	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:217280167G>A	uc002vgc.3	+	3	1070	c.740G>A	c.(739-741)CGT>CAT	p.R247H	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.R247H|SMARCAL1_uc010fvg.2_Missense_Mutation_p.R247H	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	247					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		AACGGCGATCGTTTCCAGGTG	0.468									Schimke_Immuno-Osseous_Dysplasia				30	114					0	0	0.005524	0	0		A	217280167	A	A	217280167	3	1	23	1	0	0	0	0	1	0	0	0	14798	1145	40	1	742	1	SMARCAL1	2	217280167	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1436450	217280167	25919206	207	19535											
SLC11A1	6556	broad.mit.edu	37	chr2	219259385	219259385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtcacctcttccatcatGgtgctagtctgcgccatcaa	7	12	8	14	2	5	0	3	0	2	0	7	0	6	0	3	1	2	1	3	1	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:219259385G>A	uc002vhv.2	+	14	1759	c.1419G>A	c.(1417-1419)ATG>ATA	p.M473I	SLC11A1_uc010zkc.1_Missense_Mutation_p.M406I|SLC11A1_uc002vhu.1_Missense_Mutation_p.M268I|SLC11A1_uc002vhw.2_Missense_Mutation_p.M355I|SLC11A1_uc010fvr.2_Missense_Mutation_p.M268I	NM_000578	NP_000569	P49279	NRAM1_HUMAN	natural resistance-associated macrophage protein	473	Helical; (Potential).				activation of protein kinase activity|antigen processing and presentation of peptide antigen|cadmium ion transmembrane transport|cellular cadmium ion homeostasis|cellular iron ion homeostasis|defense response to Gram-negative bacterium|defense response to protozoan|divalent metal ion export|inflammatory response|interleukin-2 production|interleukin-3 production|iron ion transport|L-arginine import|macrophage activation|MHC class II biosynthetic process|mRNA stabilization|multicellular organismal iron ion homeostasis|negative regulation of cytokine production|nitrite transport|phagocytosis|positive regulation of dendritic cell antigen processing and presentation|positive regulation of interferon-gamma production|positive regulation of phagocytosis|positive regulation of T-helper 1 type immune response|positive regulation of transcription from RNA polymerase II promoter|respiratory burst|response to interferon-gamma|response to lipopolysaccharide|T cell cytokine production|T cell proliferation involved in immune response|vacuolar acidification|wound healing	integral to plasma membrane|late endosome membrane|lysosome|phagocytic vesicle membrane|tertiary granule membrane	manganese ion transmembrane transporter activity|metal ion:hydrogen antiporter activity|protein homodimerization activity			ovary(3)|central_nervous_system(1)	4		Renal(207;0.0474)		Epithelial(149;1.16e-06)|all cancers(144;0.000195)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTTCCATCATGGTGCTAGTCT	0.607													17	118					0	0	0.006122	0	0		A	219259385	A	A	219259385	3	1	23	1	0	0	0	0	1	0	0	0	14405	1348	47	4	1473	4	SLC11A1	2	219259385	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1979218	219259385	23939988	208	19536											
STK36	27148	broad.mit.edu	37	chr2	219562280	219562280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatggaagtatcctcatGtccatcctgaagcatctgct	10	11	8	12	0	2	1	1	1	1	0	5	2	5	2	3	1	3	4	3	1	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:219562280G>A	uc002viu.2	+	24	3122	c.2856G>A	c.(2854-2856)ATG>ATA	p.M952I	STK36_uc002viv.2_Missense_Mutation_p.M931I|STK36_uc002viw.2_Missense_Mutation_p.M130I|STK36_uc002vix.2_Missense_Mutation_p.V14I	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	952					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		GTATCCTCATGTCCATCCTGA	0.582													22	81					0	0	0.00333	0	0		A	219562280	A	A	219562280	3	1	23	1	0	0	0	0	1	0	0	0	15327	1377	48	4	2946	4	STK36	2	219562280	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	302895	219562280	23637093	209	19537											
WNT6	7475	broad.mit.edu	37	chr2	219736229	219736229	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcgggagacggccttcgtGttcgccatcactgcggccgg	5	9	14	13	6	1	1	1	0	0	1	4	2	1	1	3	4	1	1	3	4	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:219736229G>A	uc002vjc.1	+	3	539	c.324G>A	c.(322-324)GTG>GTA	p.V108V		NM_006522	NP_006513	Q9Y6F9	WNT6_HUMAN	wingless-type MMTV integration site family,	108					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|cornea development in camera-type eye|neuron differentiation|odontogenesis of dentine-containing tooth|positive regulation of gene expression|positive regulation of tooth mineralization|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			ovary(2)|skin(1)	3		Renal(207;0.0474)		Epithelial(149;4.53e-07)|all cancers(144;9.3e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CGGCCTTCGTGTTCGCCATCA	0.612													6	38					0	0	0.006214	0	0		A	219736229	A	A	219736229	2	1	23	1	0	0	0	0	0	0	0	1	17419	1364	48	4		4	WNT6	2	219736229	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	173949	219736229	23463144	210	19538											
WNT10A	80326	broad.mit.edu	37	chr2	219745808	219745808	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctcctgttcttcctactgCtgctggctgctgccatgccc	2	14	9	16	0	1	0	0	0	1	0	3	0	3	0	4	1	7	6	4	1	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:219745808C>T	uc002vjd.1	+	1	554	c.91C>T	c.(91-93)CTG>TTG	p.L31L		NM_025216	NP_079492	Q9GZT5	WN10A_HUMAN	wingless-type MMTV integration site family,	31					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to transforming growth factor beta stimulus|female gonad development|hair follicle morphogenesis|odontogenesis|regulation of odontogenesis of dentine-containing tooth|sebaceous gland development|skin development|tongue development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			lung(1)|skin(1)	2		Renal(207;0.0474)		Epithelial(149;4.26e-07)|all cancers(144;8.8e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTTCCTACTGCTGCTGGCTGC	0.711													6	6					0	0	0.001984	0	0		T	219745808	T	T	219745808	2	4	23	1	0	0	0	0	0	0	0	1	17408	796	28	2		2	WNT10A	2	219745808	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	9579	219745808	23453565	211	19539											
WNT10A	80326	broad.mit.edu	37	chr2	219754704	219754704	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctgggtctttaaccacAggtttccgagagagcgcttt	7	14	11	9	2	2	1	0	0	2	1	3	3	3	1	2	2	2	3	2	2	1	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:219754704A>G	uc002vjd.1	+	3	840	c.377_splice	c.e3-2	p.G126_splice		NM_025216	NP_079492	Q9GZT5	WN10A_HUMAN	wingless-type MMTV integration site family,						anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to transforming growth factor beta stimulus|female gonad development|hair follicle morphogenesis|odontogenesis|regulation of odontogenesis of dentine-containing tooth|sebaceous gland development|skin development|tongue development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			lung(1)|skin(1)	2		Renal(207;0.0474)		Epithelial(149;4.26e-07)|all cancers(144;8.8e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTTTAACCACAGGTTTCCGAG	0.378													29	95					0	0	0.013726	0	0		G	219754704	G	G	219754704	5	3	23	1	0	0	0	0	0	0	1	0	17408	202	7	3	385	3	WNT10A	2	219754704	Splice_Site	SNP	A	TCGA-BR-4368-01A-01D-1158-08	8896	219754704	23444669	212	19540											
ACCN4	55515	broad.mit.edu	37	chr2	220396848	220396848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtgtcctgccaggaacagCgggtgagcatctcctgctag	7	10	13	11	1	1	1	0	1	1	0	3	2	2	2	3	2	5	2	3	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:220396848C>T	uc002vma.2	+	3	1248	c.1234C>T	c.(1234-1236)CGG>TGG	p.R412W	ACCN4_uc010fwi.1_Missense_Mutation_p.R412W|ACCN4_uc010fwj.1_Missense_Mutation_p.R412W|ACCN4_uc002vly.1_Missense_Mutation_p.R412W|ACCN4_uc002vlz.2_Missense_Mutation_p.R412W|ACCN4_uc002vmb.2_Missense_Mutation_p.R66W	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	412	Extracellular (Potential).					integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		CCAGGAACAGCGGGTGAGCAT	0.632													21	84					0	0	0.003954	0	0		T	220396848	T	T	220396848	3	4	23	1	0	0	0	0	1	0	0	0	131	759	27	1	1244	1	ACCN4	2	220396848	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	642144	220396848	22802525	213	19541											
INHA	3623	broad.mit.edu	37	chr2	220439886	220439886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggtctccctctgctctgCgcctgctgcagaggcctccg	2	11	11	17	2	3	1	0	0	3	1	5	1	4	1	4	2	4	3	4	2	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:220439886C>T	uc002vmk.1	+	2	883	c.739C>T	c.(739-741)CGC>TGC	p.R247C		NM_002191	NP_002182	P05111	INHA_HUMAN	inhibin alpha subunit precursor	247					cell cycle arrest|cell surface receptor linked signaling pathway|cell-cell signaling|erythrocyte differentiation|hemoglobin biosynthetic process|induction of apoptosis|negative regulation of B cell differentiation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|regulation of cell proliferation|response to external stimulus|skeletal system development	inhibin A complex|inhibin-betaglycan-ActRII complex	cytokine activity|growth factor activity|hormone activity|signal transducer activity			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;4.58e-07)|all cancers(144;4.31e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		CTCTGCTCTGCGCCTGCTGCA	0.642													14	56					0	0	0.004007	0	0		T	220439886	T	T	220439886	3	4	23	1	0	0	0	0	1	0	0	0	7756	768	27	1	745	1	INHA	2	220439886	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	43038	220439886	22759487	214	19542											
SLC4A3	6508	broad.mit.edu	37	chr2	220500084	220500084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagcattgtgatcccccCgtccgaggtggagggccgtg	5	8	16	12	3	0	1	0	1	0	0	2	3	2	2	5	4	1	2	5	4	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:220500084C>T	uc002vmp.3	+	13	2107	c.1838C>T	c.(1837-1839)CCG>CTG	p.P613L	SLC4A3_uc002vmo.3_Missense_Mutation_p.P640L|SLC4A3_uc010fwm.2_Missense_Mutation_p.P163L|SLC4A3_uc010fwn.1_Missense_Mutation_p.P122L	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	613	Cytoplasmic.				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GTGATCCCCCCGTCCGAGGTG	0.612													12	50					0	0	0.004007	0	0		T	220500084	T	T	220500084	3	4	23	1	0	0	0	0	1	0	0	0	14680	652	23	1	1965	1	SLC4A3	2	220500084	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	60198	220500084	22699289	215	19543											
GPR55	9290	broad.mit.edu	37	chr2	231775249	231775249	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaccaggacccagatggtGcagcagatcccaaagatctt	13	6	9	13	0	1	3	0	0	1	3	2	4	2	4	3	2	2	2	3	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:231775249G>A	uc002vrg.2	-	2	622	c.429C>T	c.(427-429)TGC>TGT	p.C143C	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Silent_p.C143C	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	143	Helical; Name=4; (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		CCCAGATGGTGCAGCAGATCC	0.527													24	85					0	0	0.00333	0	0		A	231775249	A	A	231775249	2	1	23	1	0	0	0	0	0	0	0	1	6714	1311	46	2		2	GPR55	2	231775249	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	11275165	231775249	11424124	216	19544											
ALPPL2	251	broad.mit.edu	37	chr2	233274566	233274566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccttgctgctgctggggaCggccactgctccctgagtgt	4	10	14	13	1	0	1	0	1	0	0	1	3	1	2	3	3	4	4	3	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:233274566C>T	uc002vss.3	+	11	1636	c.1583C>T	c.(1582-1584)ACG>ATG	p.T528M		NM_031313	NP_112603	P10696	PPBN_HUMAN	placental-like alkaline phosphatase	528					phosphorylation	anchored to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			skin(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)|Levamisole(DB00848)	CTGCTGGGGACGGCCACTGCT	0.736													3	6					0	0	0.004672	0	0		T	233274566	T	T	233274566	3	4	23	1	0	0	0	0	1	0	0	0	549	536	19	1	1625	1	ALPPL2	2	233274566	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1499317	233274566	9924807	217	19545											
ECEL1	9427	broad.mit.edu	37	chr2	233349233	233349233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgcatgtagtctgtcGccagcagcaccacctcctct	6	10	8	17	1	2	0	0	0	2	0	4	0	3	0	5	0	4	5	5	0	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:233349233G>A	uc002vsv.2	-	6	1338	c.1133C>T	c.(1132-1134)GCG>GTG	p.A378V	ECEL1_uc010fya.1_Missense_Mutation_p.A378V|ECEL1_uc010fyb.1_Missense_Mutation_p.A85V	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	378	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GTAGTCTGTCGCCAGCAGCAC	0.582													53	174					0	0	0.01441	0	0		A	233349233	A	A	233349233	3	1	23	1	0	0	0	0	1	0	0	0	4897	1087	38	1	1246	1	ECEL1	2	233349233	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	74667	233349233	9850140	218	19546											
UGT1A1	54658	broad.mit.edu	37	chr2	234668982	234668982	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacttgtcctgggcctgctgCtgtgtgtgctgggcccagtg	2	12	15	12	0	0	0	0	0	0	0	1	0	1	0	3	2	3	3	3	2	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:234668982C>T	uc002vvb.2	+	1	64	c.49C>T	c.(49-51)CTG>TTG	p.L17L	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron|UGT1A9_uc002vva.2_Intron|UGT1A1_uc010znc.1_Silent_p.L17L	NM_000463	NP_000454	P22309	UD11_HUMAN	UDP glycosyltransferase 1 family, polypeptide A1	17					bilirubin conjugation|digestion|estrogen metabolic process|flavone metabolic process|heme catabolic process	endoplasmic reticulum membrane|microsome	enzyme binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding|steroid binding			central_nervous_system(1)|skin(1)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;4.1e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000435)|Lung(119;0.00211)|LUSC - Lung squamous cell carcinoma(224;0.0054)	Abacavir(DB01048)|Adenine(DB00173)|Diclofenac(DB00586)|Estradiol(DB00783)|Ezetimibe(DB00973)|Irinotecan(DB00762)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Propofol(DB00818)|Rifampin(DB01045)|Troglitazone(DB00197)	GGGCCTGCTGCTGTGTGTGCT	0.592											OREG0003837	type=REGULATORY REGION|Gene=UGT1A1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	9	35					0	0	0.004482	0	0		T	234668982	T	T	234668982	2	4	23	1	0	0	0	0	0	0	0	1	16970	796	28	2		2	UGT1A1	2	234668982	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1319749	234668982	8530391	219	19547											
COL6A3	1293	broad.mit.edu	37	chr2	238289604	238289604	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggtgccagcaagccaggCagcatgccttgcaatggggc	10	5	15	11	0	0	1	0	0	0	1	0	1	0	1	3	4	6	4	3	4	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:238289604C>T	uc002vwl.2	-	5	2136	c.1851G>A	c.(1849-1851)CTG>CTA	p.L617L	COL6A3_uc002vwo.2_Silent_p.L411L|COL6A3_uc010znj.1_Silent_p.L210L|COL6A3_uc002vwq.2_Silent_p.L411L|COL6A3_uc002vwr.2_Silent_p.L210L|COL6A3_uc010znk.1_Silent_p.L617L	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	617	VWFA 3.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GCAAGCCAGGCAGCATGCCTT	0.597													9	46					0	0	0.008291	0	0		T	238289604	T	T	238289604	2	4	23	1	0	0	0	0	0	0	0	1	3704	697	25	2		2	COL6A3	2	238289604	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3620622	238289604	4909769	220	19548											
RNPEPL1	57140	broad.mit.edu	37	chr2	241516387	241516387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctgacctccacagggtgCggcgcttcctggagagccag	7	7	13	14	2	0	2	0	1	0	1	3	3	3	2	5	3	2	1	5	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:241516387C>T	uc002vzi.2	+	10	1764	c.1171C>T	c.(1171-1173)CGG>TGG	p.R391W	RNPEPL1_uc010fzf.2_Missense_Mutation_p.R297W|RNPEPL1_uc002vzj.2_Missense_Mutation_p.R39W	NM_018226	NP_060696	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like	391					leukotriene biosynthetic process|proteolysis		aminopeptidase activity|metallopeptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)		CCACAGGGTGCGGCGCTTCCT	0.647													15	69					0	0	0.007413	0	0		T	241516387	T	T	241516387	3	4	23	1	0	0	0	0	1	0	0	0	13535	759	27	1	1201	1	RNPEPL1	2	241516387	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3226783	241516387	1682986	221	19549											
PASK	23178	broad.mit.edu	37	chr2	242065690	242065690	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcaggccagcagccccGcgcatcacgatcacgggcgt	7	4	13	17	6	2	0	2	0	0	0	2	1	2	0	3	2	3	4	3	2	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:242065690G>A	uc002wao.1	-	10	2732	c.2640C>T	c.(2638-2640)CGC>CGT	p.R880R	PASK_uc010zol.1_Silent_p.R694R|PASK_uc010zom.1_Silent_p.R845R|PASK_uc010fzl.1_Silent_p.R880R|PASK_uc010zon.1_Silent_p.R661R|PASK_uc002wap.2_Silent_p.R423R|PASK_uc002waq.2_Silent_p.R880R	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	880					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CAGCAGCCCCGCGCATCACGA	0.642													29	88					0	0	0.008361	0	0		A	242065690	A	A	242065690	2	1	23	1	0	0	0	0	0	0	0	1	11491	1074	38	1		1	PASK	2	242065690	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	549303	242065690	1133683	222	19550											
PASK	23178	broad.mit.edu	37	chr2	242079329	242079329	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaccaccgcagcgtggcCgtcggcctccatgtgctcct	7	7	10	17	4	0	0	0	0	0	0	3	0	2	0	6	2	3	2	6	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr2:242079329C>A	uc002wao.1	-	4	663	c.571G>T	c.(571-573)GGC>TGC	p.G191C	PASK_uc010zol.1_Intron|PASK_uc010zom.1_Missense_Mutation_p.G191C|PASK_uc010fzl.1_Missense_Mutation_p.G191C|PASK_uc010zon.1_Intron|PASK_uc002waq.2_Missense_Mutation_p.G191C	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	191					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		GCAGCGTGGCCGTCGGCCTCC	0.607													10	39					1.58986e-06	1.65283e-06	0.008291	1	0		A	242079329	A	A	242079329	3	1	23	1	0	0	0	0	1	0	0	0	11491	652	23	5	3460	5	PASK	2	242079329	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	13639	242079329	1120044	223	19551											
CHL1	10752	broad.mit.edu	37	chr3	447269	447269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgacagcttagtcgaatacGgagagggagaccatggtctc	11	8	13	9	2	1	3	0	1	1	2	3	6	1	3	1	3	2	1	1	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:447269G>A	uc003bou.2	+	27	3773	c.3502G>A	c.(3502-3504)GGA>AGA	p.G1168R	CHL1_uc003bot.2_Missense_Mutation_p.G1184R|CHL1_uc011asi.1_Missense_Mutation_p.G1131R	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	1168	Cytoplasmic (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		AGTCGAATACGGAGAGGGAGA	0.458													32	78					0	0	0.013726	0	0		A	447269	A	A	447269	3	1	23	1	0	0	0	0	1	0	0	0	3352	1117	39	1	3652	1	CHL1	3	447269	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08		447269	197575161	224	19552											
CNTN6	27255	broad.mit.edu	37	chr3	1339624	1339624	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgcgttttcctgaaactaTacaagctgcaaaggattcat	13	12	8	8	1	1	1	1	1	0	0	2	2	2	2	1	1	5	3	1	1	5	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:1339624T>C	uc003boz.2	+	7	977	c.710T>C	c.(709-711)ATA>ACA	p.I237T	CNTN6_uc010hbo.2_Missense_Mutation_p.I232T|CNTN6_uc011asj.1_Missense_Mutation_p.I165T|CNTN6_uc003bpa.2_Missense_Mutation_p.I237T	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	237	Ig-like C2-type 3.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		CCTGAAACTATACAAGCTGCA	0.323													7	128					0	0	0.006214	0	0		C	1339624	C	C	1339624	3	2	23	1	0	0	0	0	1	0	0	0	3648	1406	49	3	732	3	CNTN6	3	1339624	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	892355	1339624	196682806	225	19553											
BRPF1	7862	broad.mit.edu	37	chr3	9784805	9784805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaccgggcagcagtgcggCttcgtgagcagggtggtgct	5	9	17	10	3	1	1	0	1	1	0	2	1	1	1	1	4	5	5	1	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:9784805C>T	uc003bse.2	+	7	2560	c.2161C>T	c.(2161-2163)CTT>TTT	p.L721F	BRPF1_uc003bsf.2_Missense_Mutation_p.L727F|BRPF1_uc003bsg.2_Missense_Mutation_p.L721F|BRPF1_uc011ati.1_Missense_Mutation_p.L721F	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	721	Required for RUNX1 and RUNX2 transcriptional activation.|Interaction with MEAF6 and ING5.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					AGCAGTGCGGCTTCGTGAGCA	0.562													4	108					0	0	0.009096	0	0		T	9784805	T	T	9784805	3	4	23	1	0	0	0	0	1	0	0	0	1523	797	28	2	2201	2	BRPF1	3	9784805	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	8445181	9784805	188237625	226	19554											
BRPF1	7862	broad.mit.edu	37	chr3	9786077	9786077	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacggaggcagtcctgtgggGcccccccagctccccatcat	6	6	11	18	1	1	0	1	0	0	0	3	1	3	1	6	4	1	2	6	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:9786077G>C	uc003bse.2	+	9	3186	c.2787G>C	c.(2785-2787)GGG>GGC	p.G929G	BRPF1_uc003bsf.2_Silent_p.G935G|BRPF1_uc003bsg.2_Silent_p.G928G|BRPF1_uc011ati.1_Intron	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	929	Required for RUNX1 and RUNX2 transcriptional activation.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					GTCCTGTGGGGCCCCCCCAGC	0.662													5	22					0	0	0.001168	0	0		C	9786077	C	C	9786077	2	2	23	1	0	0	0	0	0	0	0	1	1523	1190	42	5		5	BRPF1	3	9786077	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1272	9786077	188236353	227	19555											
FANCD2	2177	broad.mit.edu	37	chr3	10133927	10133927	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacttcagtatcctcatcaaCttgataaaggtgagtatgga	13	12	9	7	0	3	2	3	2	0	0	4	4	4	3	1	2	1	2	1	2	5	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:10133927C>G	uc003buw.2	+	38	3918	c.3840C>G	c.(3838-3840)AAC>AAG	p.N1280K	FANCD2_uc003bux.1_Missense_Mutation_p.N1280K|FANCD2_uc003buy.1_Missense_Mutation_p.N1280K|FANCD2_uc010hcw.1_RNA|C3orf24_uc003buz.2_Intron	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	1280					DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		TCCTCATCAACTTGATAAAGG	0.458			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				6	240					0	0	0.001168	0	0		G	10133927	G	G	10133927	3	3	23	1	0	0	0	0	1	0	0	0	5679	564	20	5	3986	5	FANCD2	3	10133927	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	347850	10133927	187888503	228	19556											
NUP210	23225	broad.mit.edu	37	chr3	13367333	13367333	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcccagcgacctcatagtAaaccgtcacggatcccacgg	10	6	10	15	4	2	0	2	0	0	0	3	2	3	1	4	2	3	1	4	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:13367333A>G	uc003bxv.1	-	33	4689	c.4606T>C	c.(4606-4608)TAC>CAC	p.Y1536H		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1536	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					ACCTCATAGTAAACCGTCACG	0.642													26	161					0	0	0.004656	0	0		G	13367333	G	G	13367333	3	3	23	1	0	0	0	0	1	0	0	0	10779	362	13	3	1089	3	NUP210	3	13367333	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	3233406	13367333	184655097	229	19557											
GRIP2	80852	broad.mit.edu	37	chr3	14538015	14538015	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccctctgccaaggccggtgGccaggcctgccctcgagggc	4	5	14	18	2	1	0	0	0	1	0	2	1	1	0	7	5	2	0	7	5	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:14538015G>A	uc011avi.1	-	23	3027	c.3027C>T	c.(3025-3027)GGC>GGT	p.G1009G	GRIP2_uc010heh.2_RNA|GRIP2_uc011avh.1_Silent_p.G540G	NM_001080423	NP_001073892	Q9C0E4	GRIP2_HUMAN	glutamate receptor interacting protein 2	911					synaptic transmission	cytosol|plasma membrane	protein binding			pancreas(1)	1						AAGGCCGGTGGCCAGGCCTGC	0.572													10	21					0	0	0.008291	0	0		A	14538015	A	A	14538015	2	1	23	1	0	0	0	0	0	0	0	1	6804	1190	42	2		2	GRIP2	3	14538015	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1170682	14538015	183484415	230	19558											
NEK10	152110	broad.mit.edu	37	chr3	27161323	27161323	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggtaatctgctgtgaaaaAgttgggctcaatcggttctg	10	13	12	6	1	3	1	1	1	2	0	4	1	3	1	0	3	1	5	0	3	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:27161323A>G	uc010hfk.2	-	14	1454	c.1225T>C	c.(1225-1227)TTT>CTT	p.F409L	NEK10_uc010hfj.2_Missense_Mutation_p.F352L			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	1097							ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						GCTGTGAAAAAGTTGGGCTCA	0.428													6	128					0	0	0.001984	0	0		G	27161323	G	G	27161323	3	3	23	1	0	0	0	0	1	0	0	0	10341	87	3	3		3	NEK10	3	27161323	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	12623308	27161323	170861107	231	19559											
RBMS3	27303	broad.mit.edu	37	chr3	29781250	29781250	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacctatacatctcaaatCtccccatttctatggatgag	13	12	4	12	0	3	1	1	1	3	0	5	2	3	2	3	1	2	0	3	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:29781250C>A	uc003cel.2	+	5	669	c.439C>A	c.(439-441)CTC>ATC	p.L147I	RBMS3_uc003cek.2_Missense_Mutation_p.L147I|RBMS3_uc010hfq.2_Missense_Mutation_p.L147I|RBMS3_uc003cem.2_Missense_Mutation_p.L146I|RBMS3_uc010hfr.2_Missense_Mutation_p.L147I	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	147	RRM 2.					cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				CATCTCAAATCTCCCCATTTC	0.393													9	318					7.48243e-07	7.80291e-07	0.006214	1	0		A	29781250	A	A	29781250	3	1	23	1	0	0	0	0	1	0	0	0	13175	913	32	5	457	5	RBMS3	3	29781250	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2619927	29781250	168241180	232	19560											
GPD1L	23171	broad.mit.edu	37	chr3	32200470	32200470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggaaatgattgcttttGccaggatcttctgcaaaggc	10	13	10	8	0	3	1	1	1	2	0	3	3	3	3	1	3	3	2	1	3	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:32200470G>A	uc003cew.2	+	6	781	c.721G>A	c.(721-723)GCC>ACC	p.A241T		NM_015141	NP_055956	Q8N335	GPD1L_HUMAN	glycerol-3-phosphate dehydrogenase 1-like	241					glycerol-3-phosphate catabolic process	glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|NAD binding|protein homodimerization activity				0						GATTGCTTTTGCCAGGATCTT	0.597													7	126					0	0	0.004482	0	0		A	32200470	A	A	32200470	3	1	23	1	0	0	0	0	1	0	0	0	6620	1319	46	2	743	2	GPD1L	3	32200470	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2419220	32200470	165821960	233	19561											
SUSD5	26032	broad.mit.edu	37	chr3	33195131	33195131	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttggtttcaggttcaccTgggaccaattttacaccact	9	13	7	12	0	2	0	2	0	0	0	2	1	2	1	4	3	1	2	4	3	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:33195131T>G	uc003cfo.1	-	5	1411	c.993A>C	c.(991-993)CCA>CCC	p.P331P		NM_015551	NP_056366	O60279	SUSD5_HUMAN	sushi domain containing 5 precursor	331	Extracellular (Potential).				cell adhesion	integral to membrane	hyaluronic acid binding			ovary(1)|central_nervous_system(1)	2						CAGGTTCACCTGGGACCAATT	0.517													4	82					0	0	0.009096	0	0		G	33195131	G	G	33195131	2	3	23	1	0	0	0	0	0	0	0	1	15436	1567	55	5		5	SUSD5	3	33195131	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	994661	33195131	164827299	234	19562											
PDCD6IP	10015	broad.mit.edu	37	chr3	33887074	33887074	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaaagaccatgcagggCagtgaggtaagaaggacact	15	4	13	9	0	0	3	0	1	0	2	0	4	0	4	2	3	2	4	2	3	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:33887074C>T	uc003cfx.2	+	12	1790	c.1635C>T	c.(1633-1635)GGC>GGT	p.G545G	PDCD6IP_uc003cfy.2_Silent_p.G550G|PDCD6IP_uc011axw.1_Silent_p.G326G	NM_013374	NP_037506	Q8WUM4	PDC6I_HUMAN	programmed cell death 6 interacting protein	545	Interaction with EIAV p9.|Self-association.				apoptosis|cell cycle|cell division|interspecies interaction between organisms|protein transport	cytosol|melanosome|microtubule organizing center	calcium-dependent protein binding			ovary(1)|skin(1)	2						CCATGCAGGGCAGTGAGGTAA	0.438													18	76					0	0	0.008871	0	0		T	33887074	T	T	33887074	2	4	23	1	0	0	0	0	0	0	0	1	11643	697	25	2		2	PDCD6IP	3	33887074	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	691943	33887074	164135356	235	19563											
STAC	6769	broad.mit.edu	37	chr3	36485060	36485060	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtctgcatccaggtggcAaggctcatgcctttcaggaa	8	10	12	11	0	3	0	2	0	1	0	4	1	4	1	2	5	2	3	2	5	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:36485060A>G	uc003cgh.1	+	2	355	c.316A>G	c.(316-318)AAG>GAG	p.K106E	STAC_uc010hgd.1_RNA|STAC_uc011aya.1_Missense_Mutation_p.K106E	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	106					intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						TCCAGGTGGCAAGGCTCATGC	0.572													7	239					0	0	0.001984	0	0		G	36485060	G	G	36485060	3	3	23	1	0	0	0	0	1	0	0	0	15264	131	5	3	322	3	STAC	3	36485060	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2597986	36485060	161537370	236	19564											
TRANK1	9881	broad.mit.edu	37	chr3	36884133	36884133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccagcactggtgcttggCgtagtaatctccctgtgcaa	7	12	10	12	1	1	0	0	0	1	0	3	0	2	0	2	2	3	5	2	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:36884133C>T	uc003cgj.2	-	8	3780	c.3478G>A	c.(3478-3480)GCC>ACC	p.A1160T		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1710	TPR 3.				DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TGGTGCTTGGCGTAGTAATCT	0.488													4	21					0	0	0.009096	0	0		T	36884133	T	T	36884133	3	4	23	1	0	0	0	0	1	0	0	0	16480	768	27	1	3677	1	TRANK1	3	36884133	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	399073	36884133	161138297	237	19565											
ITGA9	3680	broad.mit.edu	37	chr3	37574834	37574834	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcattacggtggatgtctCcatcttcctcccgggctcca	5	13	9	14	2	3	0	1	0	2	0	7	1	6	1	4	3	1	1	4	3	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:37574834C>A	uc003chd.2	+	14	1456	c.1403C>A	c.(1402-1404)TCC>TAC	p.S468Y	ITGA9_uc003chc.2_Missense_Mutation_p.S468Y	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	468	Extracellular (Potential).|FG-GAP 7.				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		GTGGATGTCTCCATCTTCCTC	0.547													14	62					1.15088e-07	1.20918e-07	0.004007	1	0		A	37574834	A	A	37574834	3	1	23	1	0	0	0	0	1	0	0	0	7899	855	30	5	1457	5	ITGA9	3	37574834	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	690701	37574834	160447596	238	19566											
VILL	50853	broad.mit.edu	37	chr3	38048186	38048186	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcgtggaccctgcccgcAgggaggtgggcaccccctca	6	4	16	15	2	1	0	1	0	0	0	1	2	1	2	4	5	1	2	4	5	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:38048186A>C	uc003chj.2	+	19	2738	c.2452A>C	c.(2452-2454)AGG>CGG	p.R818R	VILL_uc003chl.2_Silent_p.R818R	NM_015873	NP_056957	O15195	VILL_HUMAN	villin-like protein	818	HP.				actin filament capping|cytoskeleton organization	actin cytoskeleton	actin binding|structural constituent of cytoskeleton				0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		CCCTGCCCGCAGGGAGGTGGG	0.672													25	53					0	0	0.012213	0	0		C	38048186	C	C	38048186	2	2	23	1	0	0	0	0	0	0	0	1	17191	179	7	5		5	VILL	3	38048186	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	473352	38048186	159974244	239	19567											
SCN10A	6336	broad.mit.edu	37	chr3	38763831	38763831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgatacggtagcaagtcttgCgcacctgccagcccacatcc	9	7	9	16	3	1	0	0	0	1	0	2	1	2	0	4	1	5	3	4	1	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:38763831C>T	uc003ciq.2	-	19	3425	c.3425G>A	c.(3424-3426)CGC>CAC	p.R1142H		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1142					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GCAAGTCTTGCGCACCTGCCA	0.552													19	107					0	0	0.00278	0	0		T	38763831	T	T	38763831	3	4	23	1	0	0	0	0	1	0	0	0	13937	768	27	1	2481	1	SCN10A	3	38763831	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	715645	38763831	159258599	240	19568											
TTC21A	199223	broad.mit.edu	37	chr3	39170206	39170206	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactctgctgtgctcctcctAggtccgagatcaccccctct	5	11	7	18	1	3	1	1	0	2	1	6	2	6	1	5	1	2	2	5	1	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:39170206A>G	uc003cjc.2	+	14	1879	c.1702_splice	c.e14-2	p.V568_splice	TTC21A_uc003cje.2_Splice_Site_p.V569_splice|TTC21A_uc003cjd.2_Splice_Site|TTC21A_uc011ayx.1_Splice_Site_p.V520_splice	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2								binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		TGCTCCTCCTAGGTCCGAGAT	0.567													5	292					0	0	0.000602	0	0		G	39170206	G	G	39170206	5	3	23	1	0	0	0	0	0	0	1	0	16713	434	15	3	1757	3	TTC21A	3	39170206	Splice_Site	SNP	A	TCGA-BR-4368-01A-01D-1158-08	406375	39170206	158852224	241	19569											
KBTBD5	131377	broad.mit.edu	37	chr3	42727821	42727821	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcctttctggaaagccgCgtggagcgccaccctctcgt	5	8	12	16	6	2	0	0	0	2	0	3	2	2	2	4	2	2	0	4	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:42727821C>T	uc003clv.1	+	1	811	c.711C>T	c.(709-711)CGC>CGT	p.R237R		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	237	BACK.									ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		TGGAAAGCCGCGTGGAGCGCC	0.706													12	16					0	0	0.001855	0	0		T	42727821	T	T	42727821	2	4	23	1	0	0	0	0	0	0	0	1	8012	755	27	1		1	KBTBD5	3	42727821	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3557615	42727821	155294609	242	19570											
CCBP2	1238	broad.mit.edu	37	chr3	42906869	42906869	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcagccagcatctagactAcgcactccaggtaacagaga	13	6	10	12	1	2	2	1	0	1	2	3	3	3	2	2	2	4	3	2	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:42906869A>G	uc003cme.2	+	3	1054	c.875A>G	c.(874-876)TAC>TGC	p.Y292C	CCBP2_uc003cmd.1_Intron|CCBP2_uc003cmf.2_Missense_Mutation_p.Y292C|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Intron	NM_001296	NP_001287	O00590	CCBP2_HUMAN	chemokine binding protein 2	292	Extracellular (Potential).				chemotaxis|immune response|multicellular organismal development	integral to plasma membrane	C-X-C chemokine receptor activity	p.Y292Y(1)		lung(4)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.241)		CATCTAGACTACGCACTCCAG	0.522													11	357					0	0	0.003163	0	0		G	42906869	G	G	42906869	3	3	23	1	0	0	0	0	1	0	0	0	2737	391	14	3	877	3	CCBP2	3	42906869	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	179048	42906869	155115561	243	19571											
CYP8B1	1582	broad.mit.edu	37	chr3	42916264	42916264	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgggtgcagccctcagccGcagcgtctcctccaccacgc	5	6	12	18	3	2	0	1	0	1	0	4	0	3	0	5	2	4	2	5	2	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:42916264G>A	uc003cmh.2	-	1	1370	c.1045C>T	c.(1045-1047)CGG>TGG	p.R349W	CCBP2_uc003cmd.1_Intron|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Missense_Mutation_p.R349W	NM_004391	NP_004382	Q9UNU6	CP8B1_HUMAN	cytochrome P450, family 8, subfamily B,	349					bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	7alpha-hydroxycholest-4-en-3-one 12alpha-hydroxylase activity|electron carrier activity|heme binding|oxygen binding|sterol 12-alpha-hydroxylase activity			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.213)|Kidney(284;0.249)		GCCCTCAGCCGCAGCGTCTCC	0.587													23	54					0	0	0.007291	0	0		A	42916264	A	A	42916264	3	1	23	1	0	0	0	0	1	0	0	0	4201	1086	38	1	464	1	CYP8B1	3	42916264	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	9395	42916264	155106166	244	19572											
LARS2	23395	broad.mit.edu	37	chr3	45527192	45527192	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcattttcagattgcctcAcgcctgtaatggctgtgaac	8	14	8	11	1	3	2	3	1	1	1	4	2	3	2	2	1	2	2	2	1	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:45527192A>G	uc003cop.1	+	11	1212	c.1027A>G	c.(1027-1029)ACG>GCG	p.T343A	LARS2_uc010hit.1_Missense_Mutation_p.T300A	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial	343					leucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|leucine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.0122)|KIRC - Kidney renal clear cell carcinoma(197;0.0313)|Kidney(197;0.0372)	L-Leucine(DB00149)	AGATTGCCTCACGCCTGTAAT	0.453													106	187					0	0	0.01441	0	0		G	45527192	G	G	45527192	3	3	23	1	0	0	0	0	1	0	0	0	8651	159	6	3	1061	3	LARS2	3	45527192	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2610928	45527192	152495238	245	19573											
PRSS50	29122	broad.mit.edu	37	chr3	46754421	46754421	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccctgtgggtgtcctcCgcacacatcatctgggactt	5	13	9	14	1	3	0	1	0	2	0	6	1	5	1	3	2	0	1	3	2	0	2	rs138214038	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:46754421C>T	uc003cqe.1	-	5	950	c.891G>A	c.(889-891)GCG>GCA	p.A297A	PRSS50_uc003cqf.1_Silent_p.A211A	NM_013270	NP_037402	Q9UI38	TSP50_HUMAN	testes-specific protease 50 precursor	297	Peptidase S1.				proteolysis	endoplasmic reticulum	serine-type endopeptidase activity|threonine-type endopeptidase activity				0						GGGTGTCCTCCGCACACATCA	0.488													97	189					0	0	0.01441	0	0		T	46754421	T	T	46754421	2	4	23	1	0	0	0	0	0	0	0	1	12653	639	23	1		1	PRSS50	3	46754421	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1227229	46754421	151268009	246	19574											
PTPN23	25930	broad.mit.edu	37	chr3	47448823	47448823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgacactgtgcaagacGcgcttcgcttcactatggat	9	10	10	12	3	1	2	1	1	0	1	2	3	1	3	1	1	2	3	1	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:47448823G>A	uc003crf.1	+	11	985	c.889G>A	c.(889-891)GCG>ACG	p.A297T	PTPN23_uc011baw.1_Missense_Mutation_p.A262T|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.A167T	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	297	BRO1.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TGTGCAAGACGCGCTTCGCTT	0.597													57	118					0	0	0.01441	0	0		A	47448823	A	A	47448823	3	1	23	1	0	0	0	0	1	0	0	0	12813	1087	38	1	931	1	PTPN23	3	47448823	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	694402	47448823	150573607	247	19575											
PTPN23	25930	broad.mit.edu	37	chr3	47452588	47452588	+	Frame_Shift_Del	DEL	C	-	-																															cctggtccggtaccccctcgCcccccagcagcagaaccacc																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:47452588delC	uc003crf.1	+	20	3396	c.3300delC	c.(3298-3300)CGCfs	p.R1100fs	PTPN23_uc011baw.1_Frame_Shift_Del_p.R1065fs|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Frame_Shift_Del_p.R970fs|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1100	Pro-rich.|His.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TACCCCCTCGCCCCCCAGCAG	0.692													14	22	---	---	---	---						.	-	47452588	-	-	47452588	7	5	23	1	0	1	0	1	0	0	0	0	12813	726	26	0	3378	0	PTPN23	3	47452588	Frame_Shift_Del	DEL	C	TCGA-BR-4368-01A-01D-1158-08	3765	47452588	150569842	248	19576											
DHX30	22907	broad.mit.edu	37	chr3	47888228	47888228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggagggcgtgagccacGtcatcgtggatgaggtgcat	7	8	17	9	3	1	2	1	2	0	0	2	4	1	4	2	4	2	1	2	4	0	0	rs36045705	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:47888228G>A	uc003cru.2	+	11	2092	c.1666G>A	c.(1666-1668)GTC>ATC	p.V556I	DHX30_uc003crt.2_Missense_Mutation_p.V517I|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	556	Helicase ATP-binding.					mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding	p.V556I(1)		ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		CGTGAGCCACGTCATCGTGGA	0.637													14	41					0	0	0.008871	0	0		A	47888228	A	A	47888228	3	1	23	1	0	0	0	0	1	0	0	0	4510	1145	40	1	1711	1	DHX30	3	47888228	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	435640	47888228	150134202	249	19577											
DHX30	22907	broad.mit.edu	37	chr3	47890951	47890951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atccctgcaggtgaggcaggGcaaggtcacccggcagggga	9	4	17	11	1	1	1	1	1	0	0	2	2	2	2	2	7	1	4	2	7	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:47890951G>A	uc003cru.2	+	20	3524	c.3098G>A	c.(3097-3099)GGC>GAC	p.G1033D	DHX30_uc003crt.2_Missense_Mutation_p.G994D|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	1033						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		GTGAGGCAGGGCAAGGTCACC	0.587													25	39					0	0	0.005443	0	0		A	47890951	A	A	47890951	3	1	23	1	0	0	0	0	1	0	0	0	4510	1203	42	2	3179	2	DHX30	3	47890951	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2723	47890951	150131479	250	19578											
COL7A1	1294	broad.mit.edu	37	chr3	48605162	48605162	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctctcctttgtgtcctGccagcccggggcggcctggg	2	10	13	16	2	1	0	0	0	1	0	4	0	3	0	6	4	2	0	6	4	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:48605162G>A	uc003ctz.2	-	107	7965	c.7964C>T	c.(7963-7965)GCA>GTA	p.A2655V		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2655	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TTTGTGTCCTGCCAGCCCGGG	0.667													22	244					0	0	0.004656	0	0		A	48605162	A	A	48605162	3	1	23	1	0	0	0	0	1	0	0	0	3707	1319	46	2	918	2	COL7A1	3	48605162	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	714211	48605162	149417268	251	19579											
TMEM89	440955	broad.mit.edu	37	chr3	48658932	48658932	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgagcgccgccgcccctgCagtatcttgcggcagatcat	6	9	12	14	4	2	2	1	1	1	1	2	2	2	2	4	1	3	3	4	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:48658932C>T	uc011bbo.1	-	1	258	c.258G>A	c.(256-258)CTG>CTA	p.L86L		NM_001008269	NP_001008270	A2RUT3	TMM89_HUMAN	transmembrane protein 89 precursor	86	Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(193;0.000286)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		GCCGCCCCTGCAGTATCTTGC	0.627													6	38					0	0	0.008291	0	0		T	48658932	T	T	48658932	2	4	23	1	0	0	0	0	0	0	0	1	16238	697	25	2		2	TMEM89	3	48658932	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	53770	48658932	149363498	252	19580											
PRKAR2A	5576	broad.mit.edu	37	chr3	48789046	48789046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggttgcccagatccacgCtggagccaaacatcttcacc	10	7	9	15	2	2	1	1	0	1	1	3	3	3	2	4	2	3	2	4	2	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:48789046C>T	uc010hki.1	-	11	1428	c.1187G>A	c.(1186-1188)AGC>AAC	p.S396N	PRKAR2A_uc003cux.1_Missense_Mutation_p.S396N|PRKAR2A_uc003cuy.1_Missense_Mutation_p.S374N	NM_004157	NP_004148	P13861	KAP2_HUMAN	cAMP-dependent protein kinase, regulatory	396	cAMP 2.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|membrane fraction	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000176)|Kidney(197;0.00246)|KIRC - Kidney renal clear cell carcinoma(197;0.00261)		CAGATCCACGCTGGAGCCAAA	0.522													4	43					0	0	0.000602	0	0		T	48789046	T	T	48789046	3	4	23	1	0	0	0	0	1	0	0	0	12527	797	28	2	31	2	PRKAR2A	3	48789046	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	130114	48789046	149233384	253	19581											
C3orf62	375341	broad.mit.edu	37	chr3	49314258	49314258	+	Frame_Shift_Del	DEL	T	-	-																															tcctttctgcatcttcttagTttttcagacatttctcctaa																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:49314258delT	uc003cwn.2	-	1	251	c.48delA	c.(46-48)AAAfs	p.K16fs	C3orf62_uc003cwm.2_5'Flank	NM_198562	NP_940964	Q6ZUJ4	CC062_HUMAN	hypothetical protein LOC375341	16											0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		ATCTTCTTAGTTTTTCAGACA	0.448													34	75	---	---	---	---						.	-	49314258	-	-	49314258	7	5	23	1	0	1	0	1	0	0	0	0	2241	1722	60	0	767	0	C3orf62	3	49314258	Frame_Shift_Del	DEL	T	TCGA-BR-4368-01A-01D-1158-08	525212	49314258	148708172	254	19582											
BSN	8927	broad.mit.edu	37	chr3	49693698	49693698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggtggaatcacagccgtgCcactcaccagtctgacacgt	9	8	10	14	2	3	1	2	1	1	0	3	2	3	2	3	2	2	0	3	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:49693698C>T	uc003cxe.3	+	5	6823	c.6709C>T	c.(6709-6711)CCA>TCA	p.P2237S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2237					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CACAGCCGTGCCACTCACCAG	0.602													11	77					0	0	0.008291	0	0		T	49693698	T	T	49693698	3	4	23	1	0	0	0	0	1	0	0	0	1533	739	26	2	6727	2	BSN	3	49693698	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	379440	49693698	148328732	255	19583											
RBM6	10180	broad.mit.edu	37	chr3	50106123	50106123	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaattgcctctcttctcagCaaaacctggaaatccaccgg	12	9	7	13	1	2	1	1	0	2	1	5	2	3	2	4	2	3	1	4	2	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:50106123C>T	uc003cyc.2	+	18	3077	c.2944C>T	c.(2944-2946)CAA>TAA	p.Q982*	RBM6_uc003cyd.2_Nonsense_Mutation_p.Q460*|RBM6_uc003cye.2_Nonsense_Mutation_p.Q460*|RBM6_uc011bdi.1_Nonsense_Mutation_p.Q324*|RBM6_uc010hld.1_RNA|RBM6_uc010hle.1_RNA|RBM6_uc010hlf.1_RNA	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	982					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		CTCTTCTCAGCAAAACCTGGA	0.438													12	51					0	0	0.013537	0	0		T	50106123	T	T	50106123	4	4	23	1	0	0	0	0	0	1	0	0	13169	724	25	2	3010	2	RBM6	3	50106123	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	412425	50106123	147916307	256	19584											
SEMA3B	7869	broad.mit.edu	37	chr3	50313251	50313251	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagtggactttccagcgCgcaggggtgacagcccacac	8	6	15	12	2	0	1	0	1	0	0	1	3	1	3	2	4	2	1	2	4	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:50313251C>T	uc003cyu.2	+	18	2063	c.1821C>T	c.(1819-1821)CGC>CGT	p.R607R	SEMA3B_uc003cyt.2_Silent_p.R606R|SEMA3B_uc003cyv.2_Silent_p.R494R|SEMA3B_uc003cyw.2_Silent_p.R330R|SEMA3B_uc010hli.2_Silent_p.R499R|SEMA3B_uc003cyx.2_Silent_p.R493R|SEMA3B_uc003cyy.2_Silent_p.R264R|SEMA3B_uc011bdo.1_Silent_p.R264R	NM_004636	NP_004627	Q13214	SEM3B_HUMAN	semaphorin 3B isoform 1 precursor	607	Ig-like C2-type.				axon guidance|cell-cell signaling	endoplasmic reticulum|extracellular region|membrane	receptor activity			lung(2)|central_nervous_system(2)|kidney(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		CTTTCCAGCGCGCAGGGGTGA	0.692													19	27					0	0	0.010504	0	0		T	50313251	T	T	50313251	2	4	23	1	0	0	0	0	0	0	0	1	14050	755	27	1		1	SEMA3B	3	50313251	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	207128	50313251	147709179	257	19585											
HYAL2	8692	broad.mit.edu	37	chr3	50357842	50357842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagtgaagatgggtggtgCtgtgggcttgagctccatgg	6	10	18	7	0	0	3	0	2	0	1	1	3	1	3	2	4	2	3	2	4	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:50357842C>T	uc003czu.2	-	2	299	c.79G>A	c.(79-81)GCA>ACA	p.A27T	HYAL2_uc003czx.2_Missense_Mutation_p.A27T|HYAL2_uc003czv.2_Missense_Mutation_p.A27T|HYAL2_uc003czw.2_Missense_Mutation_p.A27T|HYAL2_uc010hlj.2_Missense_Mutation_p.A27T	NM_033158	NP_149348	Q12891	HYAL2_HUMAN	hyaluronoglucosaminidase 2 precursor	27						anchored to membrane|lysosome|plasma membrane	hyalurononglucosaminidase activity|receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)	Hyaluronidase(DB00070)	ATGGGTGGTGCTGTGGGCTTG	0.657													3	30					0	0	0.004672	0	0		T	50357842	T	T	50357842	3	4	23	1	0	0	0	0	1	0	0	0	7480	797	28	2	1354	2	HYAL2	3	50357842	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	44591	50357842	147664588	258	19586											
DOCK3	1795	broad.mit.edu	37	chr3	51395259	51395259	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcacccagctcaaggagcTtatgcaggagcaggtatgtc	11	8	12	10	0	2	0	2	0	0	0	3	3	2	2	1	3	4	5	1	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:51395259T>G	uc011bds.1	+	45	4777	c.4754T>G	c.(4753-4755)CTT>CGT	p.L1585R		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1585	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		CTCAAGGAGCTTATGCAGGAG	0.502													11	102					0	0	0.008291	0	0		G	51395259	G	G	51395259	3	3	23	1	0	0	0	0	1	0	0	0	4694	1609	56	5	4932	5	DOCK3	3	51395259	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1037417	51395259	146627171	259	19587											
GRM2	2912	broad.mit.edu	37	chr3	51752116	51752116	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggtggactcgacaacGtcatcgctttgaagacccca	10	8	12	11	3	1	2	1	1	0	1	3	5	1	3	2	3	1	1	2	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:51752116G>A	uc010hlv.2	+	6	2846	c.2607G>A	c.(2605-2607)ACG>ACA	p.T869T	GRM2_uc003dbo.3_Silent_p.T251T|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	869	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	ACTCGACAACGTCATCGCTTT	0.597													50	237					0	0	0.01441	0	0		A	51752116	A	A	51752116	2	1	23	1	0	0	0	0	0	0	0	1	6813	1132	40	1		1	GRM2	3	51752116	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	356857	51752116	146270314	260	19588											
PARP3	10039	broad.mit.edu	37	chr3	51979569	51979569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctctgagcaggagaagaCggtggaggaggtgccacacc	11	5	16	9	1	1	3	0	1	1	2	2	6	1	5	2	5	2	1	2	5	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:51979569C>T	uc003dby.2	+	7	1291	c.920C>T	c.(919-921)ACG>ATG	p.T307M	PARP3_uc003dbz.2_Missense_Mutation_p.T314M	NM_005485	NP_005476	Q9Y6F1	PARP3_HUMAN	poly (ADP-ribose) polymerase family, member 3	307					DNA repair|protein ADP-ribosylation	centriole|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CAGGAGAAGACGGTGGAGGAG	0.607													9	98					0	0	0.004482	0	0		T	51979569	T	T	51979569	3	4	23	1	0	0	0	0	1	0	0	0	11481	536	19	1	967	1	PARP3	3	51979569	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	227453	51979569	146042861	261	19589											
DNAH1	25981	broad.mit.edu	37	chr3	52391956	52391956	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactactagagatcttgtcGcagacaaaggaccccacggc	13	6	10	12	2	1	2	0	0	1	2	2	5	1	3	2	2	2	1	2	2	4	3	rs149752071	by1000genomes	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:52391956G>A	uc011bef.1	+	24	4284	c.4023G>A	c.(4021-4023)TCG>TCA	p.S1341S		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1341	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		AGATCTTGTCGCAGACAAAGG	0.632													7	59					0	0	0.004482	0	0		A	52391956	A	A	52391956	2	1	23	1	0	0	0	0	0	0	0	1	4603	1074	38	1		1	DNAH1	3	52391956	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	412387	52391956	145630474	262	19590											
DNAH1	25981	broad.mit.edu	37	chr3	52422920	52422920	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggcgatgtcctggtggcCgctggctttgtggcctacct	2	12	14	13	3	0	0	0	0	0	0	2	1	2	0	5	5	1	2	5	5	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:52422920C>T	uc011bef.1	+	59	9723	c.9462C>T	c.(9460-9462)GCC>GCT	p.A3154A	DNAH1_uc003ddv.2_Silent_p.A12A	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3219					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TCCTGGTGGCCGCTGGCTTTG	0.607													4	35					0	0	0.009096	0	0		T	52422920	T	T	52422920	2	4	23	1	0	0	0	0	0	0	0	1	4603	639	23	1		1	DNAH1	3	52422920	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	30964	52422920	145599510	263	19591											
STAB1	23166	broad.mit.edu	37	chr3	52553354	52553354	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgaacggcatcctgcacttCattgaccgtgtcctgctgcc	6	11	10	14	2	1	2	1	2	0	0	3	2	3	2	4	1	4	3	4	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:52553354C>T	uc003dej.2	+	49	5183	c.5109C>T	c.(5107-5109)TTC>TTT	p.F1703F	STAB1_uc003dek.1_5'UTR|STAB1_uc003del.2_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1703	Extracellular (Potential).|FAS1 5.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		TCCTGCACTTCATTGACCGTG	0.642													6	237					0	0	0.001168	0	0		T	52553354	T	T	52553354	2	4	23	1	0	0	0	0	0	0	0	1	15262	825	29	4		4	STAB1	3	52553354	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	130434	52553354	145469076	264	19592											
PRKCD	5580	broad.mit.edu	37	chr3	53220294	53220294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaccatggttgagaagcggGtgctgacacttgccgcagag	9	7	15	10	2	0	3	0	2	0	2	0	4	0	3	2	2	3	4	2	2	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:53220294G>A	uc003dgl.2	+	13	1551	c.1198G>A	c.(1198-1200)GTG>ATG	p.V400M	PRKCD_uc003dgm.2_Missense_Mutation_p.V400M	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta	400	Protein kinase.				activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)		TGAGAAGCGGGTGCTGACACT	0.592													17	93					0	0	0.010504	0	0		A	53220294	A	A	53220294	3	1	23	1	0	0	0	0	1	0	0	0	12531	1261	44	4	1240	4	PRKCD	3	53220294	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	666940	53220294	144802136	265	19593											
CACNA1D	776	broad.mit.edu	37	chr3	53531320	53531320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaggctgcccaaactatgaGcacctctgcacccccacctg	10	6	7	18	0	1	1	0	1	1	0	1	1	1	1	5	1	4	3	5	1	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:53531320G>A	uc003dgv.3	+	2	372	c.209G>A	c.(208-210)AGC>AAC	p.S70N	CACNA1D_uc003dgu.3_Missense_Mutation_p.S70N|CACNA1D_uc003dgy.3_Missense_Mutation_p.S70N	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	70	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	CAAACTATGAGCACCTCTGCA	0.532													47	68					0	0	0.01441	0	0		A	53531320	A	A	53531320	3	1	23	1	0	0	0	0	1	0	0	0	2544	971	34	2	215	2	CACNA1D	3	53531320	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	311026	53531320	144491110	266	19594											
CHDH	55349	broad.mit.edu	37	chr3	53856589	53856589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaatagcaccctgctcaCaagcgtctcggcctcggcct	8	8	8	17	3	3	0	2	0	1	0	5	0	3	0	3	2	3	2	3	2	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:53856589C>T	uc003dgz.2	-	4	1224	c.784G>A	c.(784-786)GTG>ATG	p.V262M		NM_018397	NP_060867	Q8NE62	CHDH_HUMAN	choline dehydrogenase precursor	262					alcohol metabolic process		choline dehydrogenase activity|flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		Hepatocellular(537;0.152)		BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)	Choline(DB00122)	ACCCTGCTCACAAGCGTCTCG	0.632													5	87					0	0	0.000602	0	0		T	53856589	T	T	53856589	3	4	23	1	0	0	0	0	1	0	0	0	3336	478	17	4	1024	4	CHDH	3	53856589	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	325269	53856589	144165841	267	19595											
LRTM1	57408	broad.mit.edu	37	chr3	54952605	54952605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggtgcagccatagatggCagctgccaacatcatgagac	13	7	11	10	0	1	2	1	1	0	2	1	3	1	2	2	2	5	3	2	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:54952605C>T	uc003dhl.2	-	3	1053	c.919G>A	c.(919-921)GCC>ACC	p.A307T	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	307	Helical; (Potential).					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		CCATAGATGGCAGCTGCCAAC	0.542													26	125					0	0	0.010818	0	0		T	54952605	T	T	54952605	3	4	23	1	0	0	0	0	1	0	0	0	9062	710	25	2	122	2	LRTM1	3	54952605	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1096016	54952605	143069825	268	19596											
C3orf63	23272	broad.mit.edu	37	chr3	56657240	56657240	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatgtctgatgagtgagaAcattaaaatgactaaactga	19	10	8	4	0	1	5	0	5	1	1	1	6	1	5	0	0	2	0	0	0	7	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:56657240A>G	uc003did.3	-	23	4756	c.4655T>C	c.(4654-4656)GTT>GCT	p.V1552A	C3orf63_uc003dib.3_Missense_Mutation_p.V671A|C3orf63_uc003dic.3_Missense_Mutation_p.V1176A|C3orf63_uc003die.3_3'UTR	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	1613										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		ATGAGTGAGAACATTAAAATG	0.343													7	102					0	0	0.001984	0	0		G	56657240	G	G	56657240	3	3	23	1	0	0	0	0	1	0	0	0	2242	43	2	3	178	3	C3orf63	3	56657240	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1704635	56657240	141365190	269	19597											
C3orf63	23272	broad.mit.edu	37	chr3	56681079	56681079	+	Frame_Shift_Del	DEL	A	-	-																															cctgaaccaaaacctcgcttAaaaaattcacttacatactt																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:56681079delA	uc003did.3	-	14	1787	c.1686delT	c.(1684-1686)TTTfs	p.F562fs	C3orf63_uc003dic.3_Frame_Shift_Del_p.F166fs|C3orf63_uc003die.3_Frame_Shift_Del_p.F562fs	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	562										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		AACCTCGCTTAAAAAATTCAC	0.289													40	58	---	---	---	---						.	-	56681079	-	-	56681079	7	5	23	1	0	1	0	1	0	0	0	0	2242	359	13	0	3430	0	C3orf63	3	56681079	Frame_Shift_Del	DEL	A	TCGA-BR-4368-01A-01D-1158-08	23839	56681079	141341351	270	19598											
FLNB	2317	broad.mit.edu	37	chr3	58155348	58155348	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttagccctggctcagccaaCgagacctcatccatcctggt	8	9	9	15	1	2	1	2	0	0	1	4	2	4	1	5	2	3	2	5	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:58155348C>T	uc003djj.2	+	45	7614	c.7449C>T	c.(7447-7449)AAC>AAT	p.N2483N	FLNB_uc010hne.2_Silent_p.N2514N|FLNB_uc003djk.2_Silent_p.N2472N|FLNB_uc010hnf.2_Silent_p.N2459N|FLNB_uc003djl.2_Silent_p.N2303N|FLNB_uc003djm.2_Silent_p.N2290N|uc003djn.2_Intron	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	2483	Hinge 2 (By similarity).|Interaction with INPPL1.|Self-association site, tail (By similarity).				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		GCTCAGCCAACGAGACCTCAT	0.582													48	110					0	0	0.01441	0	0		T	58155348	T	T	58155348	2	4	23	1	0	0	0	0	0	0	0	1	5948	535	19	1		1	FLNB	3	58155348	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1474269	58155348	139867082	271	19599											
CADPS	8618	broad.mit.edu	37	chr3	62535675	62535675	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggcttgtgtgactgcccCgtggcccgatacatggcctg	6	9	13	13	2	0	1	0	1	0	0	0	2	0	1	4	3	2	1	4	3	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:62535675C>T	uc003dll.2	-	11	2229	c.1869G>A	c.(1867-1869)ACG>ACA	p.T623T	CADPS_uc003dlk.1_Silent_p.T127T|CADPS_uc003dlm.2_Silent_p.T623T|CADPS_uc003dln.2_Silent_p.T623T	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	623	PH.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		GTGACTGCCCCGTGGCCCGAT	0.547													40	100					0	0	0.01441	0	0		T	62535675	T	T	62535675	2	4	23	1	0	0	0	0	0	0	0	1	2573	639	23	1		1	CADPS	3	62535675	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4380327	62535675	135486755	272	19600											
ATXN7	6314	broad.mit.edu	37	chr3	63973915	63973915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagaacgtcacaggagccgCaccaaaaccctcacggagtg	13	4	10	14	3	2	1	2	0	0	1	2	3	2	3	3	2	3	1	3	2	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:63973915C>T	uc003dlw.3	+	9	1829	c.1276C>T	c.(1276-1278)CAC>TAC	p.H426Y	ATXN7_uc003dlv.2_Missense_Mutation_p.H426Y|ATXN7_uc010hnv.2_Missense_Mutation_p.H426Y|ATXN7_uc011bfn.1_Missense_Mutation_p.H281Y	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	426	Pro-rich.				cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		ACAGGAGCCGCACCAAAACCC	0.557													101	161					0	0	0.01441	0	0		T	63973915	T	T	63973915	3	4	23	1	0	0	0	0	1	0	0	0	1216	710	25	2	1370	2	ATXN7	3	63973915	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1438240	63973915	134048515	273	19601											
IMPG2	50939	broad.mit.edu	37	chr3	100964716	100964716	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccagtctgaagcactgcCggggtgacagaatgaagagt	13	6	14	8	1	1	5	0	3	1	2	1	5	1	5	2	2	3	1	2	2	4	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:100964716C>T	uc003duq.1	-	12	1676	c.1473G>A	c.(1471-1473)CCG>CCA	p.P491P	IMPG2_uc011bhe.1_Silent_p.P354P	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	491	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GAAGCACTGCCGGGGTGACAG	0.478													32	120					0	0	0.01441	0	0		T	100964716	T	T	100964716	2	4	23	1	0	0	0	0	0	0	0	1	7745	639	23	1		1	IMPG2	3	100964716	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	36990801	100964716	97057714	274	19602											
DPPA4	55211	broad.mit.edu	37	chr3	109049450	109049450	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggaggccagcaaagcCtctggggcagaagttgtcac	10	5	14	12	0	2	1	1	0	1	1	2	2	2	2	3	4	2	3	3	4	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:109049450C>A	uc003dxq.3	-	5	655	c.600G>T	c.(598-600)GAG>GAT	p.E200D	DPPA4_uc011bho.1_Intron|DPPA4_uc011bhp.1_Missense_Mutation_p.E200D	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	200						nucleus	protein binding			upper_aerodigestive_tract(1)	1						CCAGCAAAGCCTCTGGGGCAG	0.567													50	103					5.82388e-19	6.40322e-19	0.01441	1	0		A	109049450	A	A	109049450	3	1	23	1	0	0	0	0	1	0	0	0	4742	680	24	5	326	5	DPPA4	3	109049450	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	8084734	109049450	88972980	275	19603											
PVRL3	25945	broad.mit.edu	37	chr3	110852822	110852822	+	Frame_Shift_Del	DEL	A	-	-																															gattcttacccagacagtgtAaaaaaagaaaacaaaaatcc																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:110852822delA	uc003dxt.1	+	6	1410	c.1410delA	c.(1408-1410)GTAfs	p.V470fs	PVRL3_uc003dxu.1_Intron	NM_015480	NP_056295	Q9NQS3	PVRL3_HUMAN	poliovirus receptor-related 3 precursor	470	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane	cell adhesion molecule binding|protein homodimerization activity			upper_aerodigestive_tract(2)	2						CAGACAGTGTAAAAAAAGAAA	0.333													22	40	---	---	---	---						.	-	110852822	-	-	110852822	7	5	23	1	0	1	0	1	0	0	0	0	12866	349	13	0	1432	0	PVRL3	3	110852822	Frame_Shift_Del	DEL	A	TCGA-BR-4368-01A-01D-1158-08	1803372	110852822	87169608	276	19604											
PHLDB2	90102	broad.mit.edu	37	chr3	111604188	111604188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattagctccatttcaggaCgtgatgacctgatggattat	10	14	10	7	1	1	3	1	3	0	0	2	5	2	5	2	2	1	2	2	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:111604188C>T	uc010hqa.2	+	2	1675	c.1264C>T	c.(1264-1266)CGT>TGT	p.R422C	PHLDB2_uc003dyc.2_Missense_Mutation_p.R449C|PHLDB2_uc003dyd.2_Missense_Mutation_p.R422C|PHLDB2_uc003dyg.2_Missense_Mutation_p.R422C|PHLDB2_uc003dyh.2_Missense_Mutation_p.R422C|PHLDB2_uc003dye.3_Missense_Mutation_p.R422C|PHLDB2_uc003dyf.3_Missense_Mutation_p.R422C	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	422						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						CATTTCAGGACGTGATGACCT	0.517													54	107					0	0	0.01441	0	0		T	111604188	T	T	111604188	3	4	23	1	0	0	0	0	1	0	0	0	11871	536	19	1	1351	1	PHLDB2	3	111604188	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	751366	111604188	86418242	277	19605											
CCDC52	152185	broad.mit.edu	37	chr3	113212908	113212908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaatacctgtgcgcctacGaggaaacagctcttttgctg	9	12	10	10	2	1	1	0	1	1	0	1	3	1	2	2	1	6	2	2	1	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:113212908G>A	uc003eag.3	-	5	664	c.373C>T	c.(373-375)CGT>TGT	p.R125C	CCDC52_uc003eaf.3_RNA|CCDC52_uc003eah.1_Missense_Mutation_p.R21C	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52	125					cell division|mitosis	centriole|spindle	protein binding				0						GTGCGCCTACGAGGAAACAGC	0.373													11	69					0	0	0.013537	0	0		A	113212908	A	A	113212908	3	1	23	1	0	0	0	0	1	0	0	0	2825	1058	37	1	2250	1	CCDC52	3	113212908	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1608720	113212908	84809522	278	19606											
ZBTB20	26137	broad.mit.edu	37	chr3	114058088	114058088	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctttttgcagatgtagcActcgtaggacttctctcccc	6	15	7	13	1	2	1	0	0	2	1	5	2	3	2	2	1	2	4	2	1	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:114058088A>G	uc003ebi.2	-	5	2170	c.1990T>C	c.(1990-1992)TGC>CGC	p.C664R	ZBTB20_uc003ebj.2_Missense_Mutation_p.C591R|ZBTB20_uc010hqp.2_Missense_Mutation_p.C591R|ZBTB20_uc003ebk.2_Missense_Mutation_p.C591R|ZBTB20_uc003ebl.2_Missense_Mutation_p.C591R|ZBTB20_uc003ebm.2_Missense_Mutation_p.C591R|ZBTB20_uc003ebn.2_Missense_Mutation_p.C591R	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	664	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		CAGATGTAGCACTCGTAGGAC	0.587													40	193					0	0	0.01441	0	0		G	114058088	G	G	114058088	3	3	23	1	0	0	0	0	1	0	0	0	17554	159	6	3	239	3	ZBTB20	3	114058088	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	845180	114058088	83964342	279	19607											
ZBTB20	26137	broad.mit.edu	37	chr3	114070354	114070354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgttctgtgacacgatgcGcgtgcactcgtcgatgactg	7	10	12	12	6	1	2	0	2	1	0	3	4	1	2	0	0	2	2	0	0	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:114070354G>A	uc003ebi.2	-	4	751	c.571C>T	c.(571-573)CGC>TGC	p.R191C	ZBTB20_uc003ebj.2_Missense_Mutation_p.R118C|ZBTB20_uc010hqp.2_Missense_Mutation_p.R118C|ZBTB20_uc003ebk.2_Missense_Mutation_p.R118C|ZBTB20_uc003ebl.2_Missense_Mutation_p.R118C|ZBTB20_uc003ebm.2_Missense_Mutation_p.R118C|ZBTB20_uc003ebn.2_Missense_Mutation_p.R118C|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	191					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GACACGATGCGCGTGCACTCG	0.642													27	49					0	0	0.008361	0	0		A	114070354	A	A	114070354	3	1	23	1	0	0	0	0	1	0	0	0	17554	1087	38	1	1662	1	ZBTB20	3	114070354	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	12266	114070354	83952076	280	19608											
SLC15A2	6565	broad.mit.edu	37	chr3	121658261	121658261	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaacaaaatgtccattgcGtggcagctaccacaatatgc	13	8	8	12	1	0	0	0	0	0	0	1	0	1	0	3	1	5	2	3	1	6	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:121658261G>A	uc003eep.2	+	20	1980	c.1827G>A	c.(1825-1827)GCG>GCA	p.A609A	SLC15A2_uc011bjn.1_Silent_p.A578A	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a	609				A -> R (in Ref. 1; AAB34388).	protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	TGTCCATTGCGTGGCAGCTAC	0.443													64	91					0	0	0.01441	0	0		A	121658261	A	A	121658261	2	1	23	1	0	0	0	0	0	0	0	1	14424	1132	40	1		1	SLC15A2	3	121658261	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	7587907	121658261	76364169	281	19609											
MYLK	4638	broad.mit.edu	37	chr3	123419170	123419170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggcttggcattgcccatggGcttcagggtctcggcaggct	5	10	15	11	1	2	0	1	0	1	0	3	0	2	0	1	6	1	5	1	6	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:123419170G>A	uc003ego.2	-	18	3427	c.3145C>T	c.(3145-3147)CCC>TCC	p.P1049S	MYLK_uc011bjw.1_Missense_Mutation_p.P1049S|MYLK_uc003egp.2_Missense_Mutation_p.P980S|MYLK_uc003egq.2_Missense_Mutation_p.P1049S|MYLK_uc003egr.2_Missense_Mutation_p.P980S|MYLK_uc003egs.2_Missense_Mutation_p.P873S|MYLK_uc003egt.2_Missense_Mutation_p.P240S	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1049	6 X 12 AA approximate tandem repeats.|2-5.			KPM -> EAH (in Ref. 1 and 7).	aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		TTGCCCATGGGCTTCAGGGTC	0.547													188	311					0	0	0.01441	0	0		A	123419170	A	A	123419170	3	1	23	1	0	0	0	0	1	0	0	0	10074	1203	42	2	2667	2	MYLK	3	123419170	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1760909	123419170	74603260	282	19610											
ROPN1B	152015	broad.mit.edu	37	chr3	125701223	125701223	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctacacgtatattgcCgaagtggatggggagatctg	9	13	12	7	2	2	1	0	0	2	1	3	4	2	2	1	3	2	1	1	3	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:125701223C>T	uc003eih.2	+	5	735	c.507C>T	c.(505-507)GCC>GCT	p.A169A	ROPN1B_uc010hsb.2_Silent_p.A169A|ROPN1B_uc010hsc.2_Silent_p.A77A	NM_001012337	NP_001012337	Q9BZX4	ROP1B_HUMAN	ropporin, rhophilin associated protein 1B	169					acrosome reaction|cell-cell adhesion|cytokinesis|fusion of sperm to egg plasma membrane|Rho protein signal transduction|sperm motility|spermatogenesis	cytoplasm|flagellum	cAMP-dependent protein kinase regulator activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling complex scaffold activity				0				GBM - Glioblastoma multiforme(114;0.151)		CGTATATTGCCGAAGTGGATG	0.438													21	123					0	0	0.005443	0	0		T	125701223	T	T	125701223	2	4	23	1	0	0	0	0	0	0	0	1	13549	639	23	1		1	ROPN1B	3	125701223	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2282053	125701223	72321207	283	19611											
ABTB1	80325	broad.mit.edu	37	chr3	127396115	127396115	+	Frame_Shift_Del	DEL	C	-	-																															tgctggccgattgtgccctgCcccccgagctccgagtaagt																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:127396115delC	uc003ejt.2	+	8	836	c.748delC	c.(748-750)CCCfs	p.P250fs	ABTB1_uc003ejr.2_Frame_Shift_Del_p.P108fs|ABTB1_uc003ejs.2_Frame_Shift_Del_p.P225fs|ABTB1_uc003eju.2_Frame_Shift_Del_p.P108fs|ABTB1_uc010hsm.2_Frame_Shift_Del_p.P10fs	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	250						cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						TTGTGCCCTGCCCCCCGAGCT	0.637													7	14	---	---	---	---						.	-	127396115	-	-	127396115	7	5	23	1	0	1	0	1	0	0	0	0	102	739	26	0	778	0	ABTB1	3	127396115	Frame_Shift_Del	DEL	C	TCGA-BR-4368-01A-01D-1158-08	1694892	127396115	70626315	284	19612											
ABTB1	80325	broad.mit.edu	37	chr3	127396654	127396654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccgacgtcttcactcacGtgctctactacatgtacagc	9	10	6	16	3	4	0	2	0	2	0	4	1	4	0	1	0	5	2	1	0	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:127396654G>A	uc003ejt.2	+	10	1085	c.997G>A	c.(997-999)GTG>ATG	p.V333M	ABTB1_uc003ejr.2_Missense_Mutation_p.V191M|ABTB1_uc003ejs.2_Missense_Mutation_p.V308M|ABTB1_uc003eju.2_Missense_Mutation_p.V191M|ABTB1_uc010hsm.2_Missense_Mutation_p.V60M	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	333	BTB 2.					cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						CTTCACTCACGTGCTCTACTA	0.647													8	19					0	0	0.006214	0	0		A	127396654	A	A	127396654	3	1	23	1	0	0	0	0	1	0	0	0	102	1145	40	1	1035	1	ABTB1	3	127396654	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	539	127396654	70625776	285	19613											
CCRL1	51554	broad.mit.edu	37	chr3	132319752	132319752	+	Frame_Shift_Del	DEL	C	-	-																															ctgccatcttgctgagcataCcccagctggttttttataca																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:132319752delC	uc003eow.2	+	2	594	c.511delC	c.(511-513)CCCfs	p.P171fs	ACAD11_uc003eov.3_Intron|ACAD11_uc011blr.1_Intron|CCRL1_uc003eox.2_Frame_Shift_Del_p.P171fs	NM_016557	NP_057641	Q9NPB9	CCRL1_HUMAN	chemokine (C-C motif) receptor-like 1	171	Helical; Name=4; (Potential).				chemotaxis|immune response	integral to plasma membrane	C-C chemokine receptor activity				0						GCTGAGCATACCCCAGCTGGT	0.448													17	35	---	---	---	---						.	-	132319752	-	-	132319752	7	5	23	1	0	1	0	1	0	0	0	0	2952	507	18	0	513	0	CCRL1	3	132319752	Frame_Shift_Del	DEL	C	TCGA-BR-4368-01A-01D-1158-08	4923098	132319752	65702678	286	19614											
ACAD11	84129	broad.mit.edu	37	chr3	132349315	132349315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccatcttaaaatatgaaaggGcaagaaagaaattccagtta	19	9	7	6	0	1	3	0	1	1	2	2	3	2	3	2	1	0	2	2	1	8	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:132349315G>A	uc003eov.3	-	7	1309	c.929C>T	c.(928-930)GCC>GTC	p.A310V	ACAD11_uc003eoy.2_Missense_Mutation_p.A310V	NM_032169	NP_115545	Q709F0	ACD11_HUMAN	putative acyl-CoA dehydrogenase	310						peroxisome	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|transferase activity, transferring phosphorus-containing groups			ovary(1)	1						ATATGAAAGGGCAAGAAAGAA	0.353													34	77					0	0	0.003271	0	0		A	132349315	A	A	132349315	3	1	23	1	0	0	0	0	1	0	0	0	109	1203	42	2	1469	2	ACAD11	3	132349315	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	29563	132349315	65673115	287	19615											
UBA5	79876	broad.mit.edu	37	chr3	132387690	132387690	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgattatgacaaggtggAactagccaatatgaatagac	15	11	9	6	0	0	4	0	3	0	1	0	5	0	5	1	2	2	0	1	2	8	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:132387690A>T	uc003epa.3	+	4	568	c.326A>T	c.(325-327)GAA>GTA	p.E109V	NPHP3_uc003eoz.1_Intron|UBA5_uc010htr.2_Missense_Mutation_p.E53V|UBA5_uc010htt.2_Missense_Mutation_p.E109V|UBA5_uc003epb.3_Missense_Mutation_p.E53V	NM_024818	NP_079094	Q9GZZ9	UBA5_HUMAN	ubiquitin-activating enzyme 5 isoform 1	109					protein ufmylation	aggresome|cytoplasm|cytoplasm|nucleus	ATP binding|cofactor binding|metal ion binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding|UFM1 activating enzyme activity			kidney(1)	1						GACAAGGTGGAACTAGCCAAT	0.318													5	82					0	0	0.001984	0	0		T	132387690	T	T	132387690	3	4	23	1	0	0	0	0	1	0	0	0	16856	246	9	5	340	5	UBA5	3	132387690	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	38375	132387690	65634740	288	19616											
TOPBP1	11073	broad.mit.edu	37	chr3	133371424	133371424	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacatattgattcacttacGcaacttgcatttatgttgga	11	17	6	7	1	1	1	1	1	0	0	1	2	1	2	0	1	4	3	0	1	5	9			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:133371424G>A	uc003eps.2	-	8	1104	c.972C>T	c.(970-972)TGC>TGT	p.C324C		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	324					DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						ATTCACTTACGCAACTTGCAT	0.328								Other_conserved_DNA_damage_response_genes					18	34					0	0	0.006122	0	0		A	133371424	A	A	133371424	2	1	23	1	0	0	0	0	0	0	0	1	16395	1079	38	1		1	TOPBP1	3	133371424	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	983734	133371424	64651006	289	19617											
DBR1	51163	broad.mit.edu	37	chr3	137880841	137880841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcactcagcctcttcaatgGcaccttggttaagtcctctc	8	13	6	14	0	5	0	3	0	2	0	7	0	6	0	3	2	1	2	3	2	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:137880841G>A	uc003erv.2	-	8	1661	c.1525C>T	c.(1525-1527)CCA>TCA	p.P509S	DBR1_uc003eru.2_Missense_Mutation_p.P458S|DBR1_uc003ert.2_Missense_Mutation_p.P277S	NM_016216	NP_057300	Q9UK59	DBR1_HUMAN	debranching enzyme homolog 1	509						nucleus	metal ion binding|RNA lariat debranching enzyme activity				0						CTCTTCAATGGCACCTTGGTT	0.448													86	184					0	0	0.01441	0	0		A	137880841	A	A	137880841	3	1	23	1	0	0	0	0	1	0	0	0	4260	1203	42	2	113	2	DBR1	3	137880841	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4509417	137880841	60141589	290	19618											
MED12L	116931	broad.mit.edu	37	chr3	150883689	150883689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttggatcgtcactgttttGaccgaactgattccagcaat	9	15	8	9	2	1	2	1	2	0	0	3	4	2	3	2	1	2	2	2	1	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:150883689G>A	uc003eyp.2	+	10	1452	c.1414G>A	c.(1414-1416)GAC>AAC	p.D472N	MED12L_uc011bnz.1_Missense_Mutation_p.D332N|MED12L_uc003eyn.2_Missense_Mutation_p.D472N|MED12L_uc003eyo.2_Missense_Mutation_p.D472N	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	472					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TCACTGTTTTGACCGAACTGA	0.363													11	181					0	0	0.008291	0	0		A	150883689	A	A	150883689	3	1	23	1	0	0	0	0	1	0	0	0	9447	1290	45	4	1452	4	MED12L	3	150883689	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	13002848	150883689	47138741	291	19619											
IGSF10	285313	broad.mit.edu	37	chr3	151161469	151161469	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcttccggaatgaactgTgatctctttggtacgtctct	7	15	10	9	2	2	2	0	2	2	0	5	3	3	3	1	2	3	2	1	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:151161469T>C	uc011bod.1	-	5	5266	c.5266A>G	c.(5266-5268)ACA>GCA	p.T1756A	IGSF10_uc011bob.1_5'Flank|IGSF10_uc011boc.1_5'Flank	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1756	Ig-like C2-type 4.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GAATGAACTGTGATCTCTTTG	0.498													33	69					0	0	0.013726	0	0		C	151161469	C	C	151161469	3	2	23	1	0	0	0	0	1	0	0	0	7613	1696	59	3	2661	3	IGSF10	3	151161469	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	277780	151161469	46860961	292	19620											
PTX3	5806	broad.mit.edu	37	chr3	157154774	157154774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctggtctgcagtgttggccGagaactcggatgattatgat	8	13	13	7	2	2	3	0	2	2	1	3	5	2	4	1	3	2	2	1	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:157154774G>A	uc003fbl.3	+	1	195	c.52G>A	c.(52-54)GAG>AAG	p.E18K	VEPH1_uc003fbj.1_Intron|VEPH1_uc003fbk.1_Intron|VEPH1_uc010hvu.1_Intron	NM_002852	NP_002843	P26022	PTX3_HUMAN	pentraxin 3 precursor	18					inflammatory response	extracellular region				central_nervous_system(1)	1			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			AGTGTTGGCCGAGAACTCGGA	0.473													39	175					0	0	0.00623	0	0		A	157154774	A	A	157154774	3	1	23	1	0	0	0	0	1	0	0	0	12847	1059	37	1	54	1	PTX3	3	157154774	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5993305	157154774	40867656	293	19621											
TBL1XR1	79718	broad.mit.edu	37	chr3	176756141	176756141	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taataggtctgtcttgtcctAatttacagacatgaatgcac	12	14	7	8	0	2	2	0	1	2	1	3	2	3	2	1	1	2	1	1	1	5	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:176756141A>G	uc003fiw.3	-	11	1267	c.1007T>C	c.(1006-1008)TTA>TCA	p.L336S	TBL1XR1_uc003fix.3_Missense_Mutation_p.L336S|TBL1XR1_uc011bpz.1_Missense_Mutation_p.L8S	NM_024665	NP_078941	Q9BZK7	TBL1R_HUMAN	transducin (beta)-like 1 X-linked receptor 1	336	WD 4.				canonical Wnt receptor signaling pathway|cellular lipid metabolic process|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein N-terminus binding|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(143;1.44e-17)|Ovarian(172;0.00163)|Breast(254;0.214)	Acute lymphoblastic leukemia(1;0.00599)|all_hematologic(1;0.0632)|Prostate(884;0.215)	OV - Ovarian serous cystadenocarcinoma(80;9.83e-31)			GTCTTGTCCTAATTTACAGAC	0.373													3	5					0	0	0.000602	0	0		G	176756141	G	G	176756141	3	3	23	1	0	0	0	0	1	0	0	0	15665	372	13	3	561	3	TBL1XR1	3	176756141	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	19601367	176756141	21266289	294	19622											
ECE2	9718	broad.mit.edu	37	chr3	184005700	184005700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctttggggtccctcttcGtgaaggccacgtttgaccgg	4	13	13	11	3	1	2	0	2	1	0	3	2	2	2	3	4	1	2	3	4	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:184005700G>A	uc003fni.3	+	11	1731	c.1693G>A	c.(1693-1695)GTG>ATG	p.V565M	ECE2_uc011brh.1_Missense_Mutation_p.V418M|ECE2_uc003fnl.3_Missense_Mutation_p.V493M|ECE2_uc003fnm.3_Missense_Mutation_p.V447M|ECE2_uc003fnk.3_Missense_Mutation_p.V418M|ECE2_uc011bri.1_Missense_Mutation_p.V480M|ECE2_uc010hxv.2_Missense_Mutation_p.V209M	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	565	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GTCCCTCTTCGTGAAGGCCAC	0.493													47	78					0	0	0.01441	0	0		A	184005700	A	A	184005700	3	1	23	1	0	0	0	0	1	0	0	0	4896	1145	40	1	2299	1	ECE2	3	184005700	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	7249559	184005700	14016730	295	19623											
TRA2B	6434	broad.mit.edu	37	chr3	185641637	185641637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggcaaatcctcttgaacGcctagactgctggtcatata	13	10	8	10	1	2	2	1	1	1	1	3	2	3	2	2	2	2	2	2	2	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:185641637G>A	uc003fpv.2	-	4	745	c.469C>T	c.(469-471)CGT>TGT	p.R157C	TRA2B_uc003fpt.2_RNA|TRA2B_uc003fpu.2_RNA|TRA2B_uc010hym.2_Missense_Mutation_p.R57C|TRA2B_uc003fpw.2_Missense_Mutation_p.R157C	NM_004593	NP_004584	P62995	TRA2B_HUMAN	splicing factor, arginine/serine-rich 10	157	RRM.				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)	2						CCTCTTGAACGCCTAGACTGC	0.398													27	104					0	0	0.003954	0	0		A	185641637	A	A	185641637	3	1	23	1	0	0	0	0	1	0	0	0	16460	1087	38	1	421	1	TRA2B	3	185641637	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1635937	185641637	12380793	296	19624											
KNG1	3827	broad.mit.edu	37	chr3	186456933	186456933	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgacttcgtggccagggaaAccacatgttccaaggaaagt	12	9	11	9	1	0	1	0	1	0	0	2	3	1	3	3	3	1	1	3	3	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:186456933A>G	uc011bsa.1	+	8	1188	c.976A>G	c.(976-978)ACC>GCC	p.T326A	KNG1_uc003fqr.2_Missense_Mutation_p.T326A	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	326	Cystatin 3.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	GGCCAGGGAAACCACATGTTC	0.378													11	56					0	0	0.006122	0	0		G	186456933	G	G	186456933	3	3	23	1	0	0	0	0	1	0	0	0	8443	43	2	3	1006	3	KNG1	3	186456933	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	815296	186456933	11565497	297	19625											
IL1RAP	3556	broad.mit.edu	37	chr3	190366179	190366179	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagcagacgcctcctggtTgttctaagccccaactacgt	11	9	8	13	2	1	1	0	0	1	1	2	1	2	1	4	1	4	3	4	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:190366179T>C	uc003fsm.1	+	12	1604	c.1398T>C	c.(1396-1398)GTT>GTC	p.V466V	IL1RAP_uc010hzg.1_Silent_p.V466V|IL1RAP_uc003fsn.1_RNA|IL1RAP_uc003fso.1_Silent_p.V466V|IL1RAP_uc003fsp.1_RNA|IL1RAP_uc003fsq.2_Intron	NM_002182	NP_002173	Q9NPH3	IL1AP_HUMAN	interleukin 1 receptor accessory protein isoform	466	Cytoplasmic (Potential).|TIR.				inflammatory response|innate immune response|protein complex assembly	extracellular region|integral to plasma membrane				ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0733)|Breast(254;0.21)		Lung(62;1.95e-06)|LUSC - Lung squamous cell carcinoma(58;2.05e-06)	GBM - Glioblastoma multiforme(93;0.00851)		GCCTCCTGGTTGTTCTAAGCC	0.507													6	314					0	0	0.001168	0	0		C	190366179	C	C	190366179	2	2	23	1	0	0	0	0	0	0	0	1	7676	1799	63	3		3	IL1RAP	3	190366179	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	3909246	190366179	7656251	298	19626											
CPN2	1370	broad.mit.edu	37	chr3	194062974	194062974	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctggagctggttccccTgcaggtggagggactccagg	5	7	18	11	0	0	0	0	0	0	0	2	3	2	3	4	7	2	3	4	7	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:194062974T>C	uc003fts.2	-	2	548	c.458A>G	c.(457-459)CAG>CGG	p.Q153R		NM_001080513	NP_001073982	P22792	CPN2_HUMAN	carboxypeptidase N, polypeptide 2	153	LRR 3.				protein stabilization	extracellular region	enzyme regulator activity			ovary(5)	5	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.65e-05)		CTGGTTCCCCTGCAGGTGGAG	0.642													16	60					0	0	0.00499	0	0		C	194062974	C	C	194062974	3	2	23	1	0	0	0	0	1	0	0	0	3813	1580	55	3	1183	3	CPN2	3	194062974	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	3696795	194062974	3959456	299	19627											
FAM43A	131583	broad.mit.edu	37	chr3	194408798	194408798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcccgccaggccgacggcGccagtgcagacgagccccac	7	2	13	19	6	0	1	0	0	0	1	1	3	1	1	6	2	2	1	6	2	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:194408798G>A	uc003fuj.2	+	1	2177	c.1243G>A	c.(1243-1245)GCC>ACC	p.A415T		NM_153690	NP_710157	Q8N2R8	FA43A_HUMAN	hypothetical protein LOC131583	415										central_nervous_system(1)	1	all_cancers(143;2.04e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.147)	OV - Ovarian serous cystadenocarcinoma(49;8.37e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;1.78e-05)		GGCCGACGGCGCCAGTGCAGA	0.741													4	3					0	0	0.000602	0	0		A	194408798	A	A	194408798	3	1	23	1	0	0	0	0	1	0	0	0	5576	1087	38	1	1245	1	FAM43A	3	194408798	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	345824	194408798	3613632	300	19628											
LRRC33	375387	broad.mit.edu	37	chr3	196387199	196387199	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttcgggctcacgcggctgCgggtcctcaacgtcagctac	6	8	12	15	5	3	0	3	0	0	0	5	0	4	0	1	3	4	3	1	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:196387199C>T	uc003fwv.2	+	3	789	c.685C>T	c.(685-687)CGG>TGG	p.R229W		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	229	Extracellular (Potential).|LRR 8.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		CACGCGGCTGCGGGTCCTCAA	0.647													28	44					0	0	0.004289	0	0		T	196387199	T	T	196387199	3	4	23	1	0	0	0	0	1	0	0	0	9006	759	27	1	691	1	LRRC33	3	196387199	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1978401	196387199	1635231	301	19629											
PAK2	5062	broad.mit.edu	37	chr3	196539089	196539089	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgtgttttctccctctaGggcttctggtacagttttca	4	19	9	9	0	4	0	1	0	3	0	5	0	4	0	1	2	1	4	1	2	2	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:196539089G>A	uc003fwy.3	+	9	1096	c.774_splice	c.e9-1	p.G258_splice		NM_002577	NP_002568	Q13177	PAK2_HUMAN	p21-activated kinase 2						axon guidance|cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of apoptosis|regulation of defense response to virus by virus|regulation of growth|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|nucleus|perinuclear region of cytoplasm|plasma membrane	ATP binding|identical protein binding|protein kinase binding|protein serine/threonine kinase activity|protein tyrosine kinase activator activity			ovary(1)|lung(1)	2	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00405)		TCTCCCTCTAGGGCTTCTGGT	0.378													15	112					0	0	0.004007	0	0		A	196539089	A	A	196539089	5	1	23	1	0	0	0	0	0	0	1	0	11420	1014	35	4	803	4	PAK2	3	196539089	Splice_Site	SNP	G	TCGA-BR-4368-01A-01D-1158-08	151890	196539089	1483341	302	19630											
KIAA0226	9711	broad.mit.edu	37	chr3	197444966	197444966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccaaaccctccaccgtcGtcttcaaattacccagcaac	13	8	3	17	2	2	0	1	0	1	0	4	0	3	0	5	0	5	1	5	0	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr3:197444966G>A	uc003fyc.2	-	2	284	c.101C>T	c.(100-102)ACG>ATG	p.T34M	KIAA0226_uc003fyd.3_Translation_Start_Site|KIAA0226_uc003fyf.2_Intron|KIAA0226_uc003fyg.2_Missense_Mutation_p.T27M	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	34					autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		CTCCACCGTCGTCTTCAAATT	0.502													6	93					0	0	0.001984	0	0		A	197444966	A	A	197444966	3	1	23	1	0	0	0	0	1	0	0	0	8178	1145	40	1	2942	1	KIAA0226	3	197444966	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	905877	197444966	577464	303	19631											
FAM193A	8603	broad.mit.edu	37	chr4	2695386	2695386	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccgaggaatagccccacGggcttggcccccctcccagc	6	4	11	20	2	0	0	0	0	0	0	1	2	1	1	8	3	2	1	8	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:2695386G>A	uc010icl.2	+	14	2355	c.2004G>A	c.(2002-2004)ACG>ACA	p.T668T	FAM193A_uc010ick.2_Silent_p.T868T|FAM193A_uc003gfd.2_Silent_p.T668T|FAM193A_uc011bvm.1_Silent_p.T690T|FAM193A_uc011bvn.1_Silent_p.T668T|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Silent_p.T522T	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	668										ovary(3)	3						ATAGCCCCACGGGCTTGGCCC	0.627													37	148					0	0	0.01441	0	0		A	2695386	A	A	2695386	2	1	23	1	0	0	0	0	0	0	0	1	5535	1103	39	1		1	FAM193A	4	2695386	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08		2695386	188458890	304	19632											
TMEM128	85013	broad.mit.edu	37	chr4	4248030	4248030	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaatggatattaagtctTggaagaggtttctccttttt	10	16	9	6	0	2	2	0	0	2	2	3	4	2	4	2	3	0	1	2	3	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:4248030T>C	uc003ghr.1	-	2	168	c.138A>G	c.(136-138)CCA>CCG	p.P46P	TMEM128_uc003ghq.1_Silent_p.P22P|TMEM128_uc003ghs.2_Silent_p.P46P|TMEM128_uc011bvv.1_Silent_p.P46P|TMEM128_uc011bvw.1_Silent_p.P46P	NM_032927	NP_116316	Q5BJH2	TM128_HUMAN	transmembrane protein 128	46						integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (64;0.166)		TATTAAGTCTTGGAAGAGGTT	0.358													20	120					0	0	0.012319	0	0		C	4248030	C	C	4248030	2	2	23	1	0	0	0	0	0	0	0	1	16066	1799	63	3		3	TMEM128	4	4248030	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1552644	4248030	186906246	305	19633											
MAN2B2	23324	broad.mit.edu	37	chr4	6588761	6588761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgaaacatttgggatccggCcacagttctcctggcacgtt	9	11	10	11	2	1	1	0	1	1	0	3	2	2	2	3	3	1	3	3	3	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:6588761C>T	uc003gjf.1	+	4	466	c.430C>T	c.(430-432)CCA>TCA	p.P144S	MAN2B2_uc003gje.1_Missense_Mutation_p.P144S|MAN2B2_uc011bwf.1_Missense_Mutation_p.P144S	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	144					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						TGGGATCCGGCCACAGTTCTC	0.632													20	56					0	0	0.00278	0	0		T	6588761	T	T	6588761	3	4	23	1	0	0	0	0	1	0	0	0	9235	739	26	2	444	2	MAN2B2	4	6588761	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2340731	6588761	184565515	306	19634											
C4orf23	152992	broad.mit.edu	37	chr4	8477523	8477523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgggagagttcacatccGcgactggcgagaggagacac	12	5	15	9	3	1	3	1	0	0	3	2	8	2	3	1	3	0	1	1	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:8477523G>A	uc003glg.1	+	11	1570	c.1382G>A	c.(1381-1383)CGC>CAC	p.R461H	C4orf23_uc003glh.1_Missense_Mutation_p.R298H|C4orf23_uc003gli.1_RNA	NM_152544	NP_689757	Q8IYL2	TRM44_HUMAN	hypothetical protein LOC152992 isoform 2	690					tRNA processing	cytoplasm	methyltransferase activity|nucleic acid binding|zinc ion binding				0						GTTCACATCCGCGACTGGCGA	0.498													23	69					0	0	0.00632	0	0		A	8477523	A	A	8477523	3	1	23	1	0	0	0	0	1	0	0	0	2259	1087	38	1	2111	1	C4orf23	4	8477523	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1888762	8477523	182676753	307	19635											
CPZ	8532	broad.mit.edu	37	chr4	8603054	8603054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtgctggccccccggtGtgagggcggctgggtgcgca	2	8	19	12	3	0	1	0	1	0	0	0	1	0	1	3	5	3	4	3	5	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:8603054G>A	uc003glm.2	+	3	452	c.326G>A	c.(325-327)TGT>TAT	p.C109Y	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Translation_Start_Site|CPZ_uc003glo.2_Missense_Mutation_p.C98Y|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	109	FZ.				proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						GCCCCCCGGTGTGAGGGCGGC	0.687													5	19					0	0	0.001168	0	0		A	8603054	A	A	8603054	3	1	23	1	0	0	0	0	1	0	0	0	3842	1377	48	4	336	4	CPZ	4	8603054	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	125531	8603054	182551222	308	19636											
CPEB2	132864	broad.mit.edu	37	chr4	15060834	15060834	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatacgtccttggaatttAagtgatagtgattttgtaat	13	16	8	4	1	0	2	0	2	0	0	1	3	1	3	1	1	1	1	1	1	6	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:15060834A>G	uc003gni.1	+	9	1356	c.1269A>G	c.(1267-1269)TTA>TTG	p.L423L	CPEB2_uc003gnj.1_Silent_p.L393L|CPEB2_uc003gnk.1_Silent_p.L431L|CPEB2_uc003gnl.1_Silent_p.L404L|CPEB2_uc003gnm.1_Silent_p.L401L|CPEB2_uc003gnn.1_Silent_p.L396L	NM_182485	NP_872291	Q7Z5Q1	CPEB2_HUMAN	cytoplasmic polyadenylation element binding	423	RRM 1.				regulation of translation	cytoplasm	nucleotide binding|RNA binding			skin(1)	1						CTTGGAATTTAAGTGATAGTG	0.373													21	91					0	0	0.014323	0	0		G	15060834	G	G	15060834	2	3	23	1	0	0	0	0	0	0	0	1	3804	359	13	3		3	CPEB2	4	15060834	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	6457780	15060834	176093442	309	19637											
LDB2	9079	broad.mit.edu	37	chr4	16504380	16504380	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattgttgaagtcctcctcGtcgtccatgccgttggccgc	5	12	11	13	4	0	1	0	1	0	0	5	2	3	1	5	1	1	2	5	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:16504380G>A	uc003goz.2	-	8	1324	c.1008C>T	c.(1006-1008)GAC>GAT	p.D336D	LDB2_uc003gpa.2_3'UTR|LDB2_uc003gpb.2_Silent_p.D334D|LDB2_uc011bxh.1_Silent_p.D308D|LDB2_uc010iee.2_3'UTR|LDB2_uc003goy.2_Silent_p.D211D|LDB2_uc011bxi.1_3'UTR	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	336	LIM-binding domain (LID) (By similarity).						LIM domain binding|transcription cofactor activity				0						AGTCCTCCTCGTCGTCCATGC	0.542													14	304					0	0	0.00245	0	0		A	16504380	A	A	16504380	2	1	23	1	0	0	0	0	0	0	0	1	8712	1136	40	1		1	LDB2	4	16504380	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1443546	16504380	174649896	310	19638											
SLIT2	9353	broad.mit.edu	37	chr4	20620584	20620584	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggctcctcctttgtggaCgaggttgagaaagtggtgaa	9	10	15	7	2	0	2	0	2	0	1	2	6	2	3	2	4	0	2	2	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:20620584C>T	uc003gpr.1	+	37	4746	c.4542C>T	c.(4540-4542)GAC>GAT	p.D1514D	SLIT2_uc003gps.1_Silent_p.D1506D	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1514	CTCK.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CCTTTGTGGACGAGGTTGAGA	0.547													8	48					0	0	0.00308	0	0		T	20620584	T	T	20620584	2	4	23	1	0	0	0	0	0	0	0	1	14765	535	19	1		1	SLIT2	4	20620584	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4116204	20620584	170533692	311	19639											
LGI2	55203	broad.mit.edu	37	chr4	25005545	25005545	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctgggagcggctggacAggatgagatgcgattttcca	9	8	16	8	2	0	1	0	1	0	1	1	7	1	5	2	5	2	1	2	5	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:25005545A>G	uc003grf.2	-	8	1265	c.1166T>C	c.(1165-1167)CTG>CCG	p.L389P		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	389	EAR 4.					extracellular region					0		Breast(46;0.173)				GCGGCTGGACAGGATGAGATG	0.507													14	209					0	0	0.006122	0	0		G	25005545	G	G	25005545	3	3	23	1	0	0	0	0	1	0	0	0	8768	188	7	3	475	3	LGI2	4	25005545	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	4384961	25005545	166148731	312	19640											
SLC34A2	10568	broad.mit.edu	37	chr4	25664381	25664381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctgccgtcctactccaCggctacactgatagatgagc	9	10	8	14	2	1	3	0	2	1	1	3	3	3	3	3	1	4	1	3	1	3	4	rs114109706	by1000genomes	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:25664381C>T	uc003grr.2	+	3	248	c.167C>T	c.(166-168)ACG>ATG	p.T56M	SLC34A2_uc003grs.2_Missense_Mutation_p.T55M|SLC34A2_uc010iev.2_Missense_Mutation_p.T55M	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	56	Cytoplasmic (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				TCCTACTCCACGGCTACACTG	0.517													38	148					0	0	0.00623	0	0		T	25664381	T	T	25664381	3	4	23	1	0	0	0	0	1	0	0	0	14593	536	19	1	173	1	SLC34A2	4	25664381	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	658836	25664381	165489895	313	19641											
RFC1	5981	broad.mit.edu	37	chr4	39310257	39310257	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaggttgtaaaatcaccGtgttttttatcttcggaaga	11	15	10	5	2	2	2	1	1	1	1	3	3	2	3	1	2	0	3	1	2	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:39310257G>A	uc003gty.1	-	13	2018	c.1884C>T	c.(1882-1884)CAC>CAT	p.H628H	RFC1_uc003gtx.1_Silent_p.H628H	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit	628					DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4						TAAAATCACCGTGTTTTTTAT	0.388													43	170					0	0	0.013114	0	0		A	39310257	A	A	39310257	2	1	23	1	0	0	0	0	0	0	0	1	13269	1159	40	1		1	RFC1	4	39310257	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	13645876	39310257	151844019	314	19642											
N4BP2	55728	broad.mit.edu	37	chr4	40115053	40115053	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtctttgttgtatgtagtCtcagaaacacaaatataaag	14	15	7	5	0	2	1	1	0	2	1	3	1	2	1	0	0	1	3	0	0	7	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:40115053C>A	uc003guy.3	+	7	1927	c.1589C>A	c.(1588-1590)TCT>TAT	p.S530Y	N4BP2_uc010ifq.2_Missense_Mutation_p.S450Y|N4BP2_uc010ifr.2_Missense_Mutation_p.S450Y	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	530						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						TGTATGTAGTCTCAGAAACAC	0.308													31	131					1.56442e-22	1.72682e-22	0.012213	1	0		A	40115053	A	A	40115053	3	1	23	1	0	0	0	0	1	0	0	0	10128	927	32	5	1607	5	N4BP2	4	40115053	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	804796	40115053	151039223	315	19643											
SHISA3	152573	broad.mit.edu	37	chr4	42403231	42403231	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agccccagggcaccctcccgGcagtccagcacagccacgag	9	2	11	19	2	0	0	0	0	0	0	2	1	2	0	6	2	3	3	6	2	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:42403231G>A	uc003gwp.2	+	2	698	c.480G>A	c.(478-480)CGG>CGA	p.R160R		NM_001080505	NP_001073974	A0PJX4	SHSA3_HUMAN	shisa homolog 3 precursor	160	Cytoplasmic (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|skin(1)	2						CACCCTCCCGGCAGTCCAGCA	0.677													16	114					0	0	0.004878	0	0		A	42403231	A	A	42403231	2	1	23	1	0	0	0	0	0	0	0	1	14306	1190	42	2		2	SHISA3	4	42403231	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2288178	42403231	148751045	316	19644											
ATP10D	57205	broad.mit.edu	37	chr4	47559941	47559942	+	Frame_Shift_Del	DEL	AG	-	-																															tcagcttgctgcacagaaacAgagaaacaacacggtgatgc																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:47559941_47559942delAG	uc003gxk.1	+	12	2249_2250	c.2085_2086delAG	c.(2083-2088)ACAGAGfs	p.T695fs	ATP10D_uc003gxl.1_Intron	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	695_696	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						GCACAGAAACAGAGAAACAACA	0.559													30	68	---	---	---	---						.	-	47559942	-	-	47559941	7	5	23	1	0	1	0	1	0	0	0	0	1119	175	7	0	2127	0	ATP10D	4	47559941	Frame_Shift_Del	DEL	AG	TCGA-BR-4368-01A-01D-1158-08	5156710	47559941	143594335	317	19645											
SLC10A4	201780	broad.mit.edu	37	chr4	48490497	48490497	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttttcataatgaccggCactatgttaggacctgaact	10	13	8	10	1	1	2	1	2	0	0	2	3	2	3	3	2	1	2	3	2	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:48490497C>T	uc003gyc.2	+	3	1074	c.855C>T	c.(853-855)GGC>GGT	p.G285G	ZAR1_uc003gyd.2_5'Flank	NM_152679	NP_689892	Q96EP9	NTCP4_HUMAN	solute carrier family 10, member 4	285	Helical; (Potential).					integral to membrane	bile acid:sodium symporter activity			central_nervous_system(1)	1						TAATGACCGGCACTATGTTAG	0.443													46	224					0	0	0.01441	0	0		T	48490497	T	T	48490497	2	4	23	1	0	0	0	0	0	0	0	1	14401	697	25	2		2	SLC10A4	4	48490497	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	930556	48490497	142663779	318	19646											
SGCB	6443	broad.mit.edu	37	chr4	52896001	52896001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagccatttggtccaatgCgaatcacggcccaaataaca	14	7	7	13	2	1	0	1	0	0	0	2	1	2	0	3	2	3	0	3	2	4	2	rs104893869		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:52896001C>T	uc003gzj.2	-	3	332	c.272G>A	c.(271-273)CGC>CAC	p.R91H	SGCB_uc011bzp.1_Missense_Mutation_p.R21H	NM_000232	NP_000223	Q16585	SGCB_HUMAN	sarcoglycan, beta	91	Extracellular (Potential).		R -> C (in LGMD2E).|R -> L (in LGMD2E).		cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma					0			GBM - Glioblastoma multiforme(4;7.63e-12)|LUSC - Lung squamous cell carcinoma(32;0.00204)			TGGTCCAATGCGAATCACGGC	0.388													4	75					0	0	0.001168	0	0		T	52896001	T	T	52896001	3	4	23	1	0	0	0	0	1	0	0	0	14225	768	27	1	700	1	SGCB	4	52896001	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4405504	52896001	138258275	319	19647											
TMEM165	55858	broad.mit.edu	37	chr4	56283253	56283253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagttttgtttggctatGccaccacagtcatccccagg	7	13	8	13	0	1	0	1	0	0	0	3	0	3	0	5	2	1	3	5	2	1	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:56283253G>A	uc003hax.2	+	3	715	c.448G>A	c.(448-450)GCC>ACC	p.A150T	TMEM165_uc011bzy.1_Missense_Mutation_p.A87T	NM_018475	NP_060945	Q9HC07	TM165_HUMAN	transmembrane protein 165	150						integral to membrane					0	Lung NSC(11;0.00545)|Glioma(25;0.08)|all_neural(26;0.101)|all_epithelial(27;0.135)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0103)			GTTTGGCTATGCCACCACAGT	0.383													16	60					0	0	0.00499	0	0		A	56283253	A	A	56283253	3	1	23	1	0	0	0	0	1	0	0	0	16105	1319	46	2	458	2	TMEM165	4	56283253	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3387252	56283253	134871023	320	19648											
POLR2B	5431	broad.mit.edu	37	chr4	57860640	57860640	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggaaagagatggtgctcCttcaccaatgatgcccaatg	11	10	11	9	0	1	2	1	1	0	1	2	4	2	3	3	2	2	1	3	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:57860640C>A	uc003hcl.1	+	4	357	c.314C>A	c.(313-315)CCT>CAT	p.P105H	POLR2B_uc011cae.1_Missense_Mutation_p.P98H|POLR2B_uc011caf.1_Missense_Mutation_p.P30H	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	105					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					GATGGTGCTCCTTCACCAATG	0.353													10	32					3.27435e-08	3.45318e-08	0.00245	1	0		A	57860640	A	A	57860640	3	1	23	1	0	0	0	0	1	0	0	0	12234	681	24	5	328	5	POLR2B	4	57860640	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1577387	57860640	133293636	321	19649											
POLR2B	5431	broad.mit.edu	37	chr4	57861549	57861549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacccaccagtactatatggGttagcatgctggcaagagga	12	8	12	9	0	0	1	0	0	0	1	0	3	0	2	2	3	3	5	2	3	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:57861549G>A	uc003hcl.1	+	6	752	c.709G>A	c.(709-711)GTT>ATT	p.V237I	POLR2B_uc011cae.1_Missense_Mutation_p.V230I|POLR2B_uc011caf.1_Missense_Mutation_p.V162I	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	237					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					TACTATATGGGTTAGCATGCT	0.403													19	76					0	0	0.00333	0	0		A	57861549	A	A	57861549	3	1	23	1	0	0	0	0	1	0	0	0	12234	1261	44	4	731	4	POLR2B	4	57861549	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	909	57861549	133292727	322	19650											
IGFBP7	3490	broad.mit.edu	37	chr4	57907023	57907023	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggacaggtgtcgggattccGatgacctcacagctcaagta	11	8	12	10	2	2	1	2	1	0	0	4	4	3	3	2	3	1	2	2	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:57907023G>A	uc003hcn.2	-	2	574	c.552C>T	c.(550-552)ATC>ATT	p.I184I	IGFBP7_uc011cag.1_Silent_p.I184I	NM_001553	NP_001544	Q16270	IBP7_HUMAN	insulin-like growth factor binding protein 7	184	Ig-like C2-type.				cell adhesion|negative regulation of cell proliferation|regulation of cell growth	extracellular space	insulin-like growth factor binding			lung(2)|central_nervous_system(1)	3	Glioma(25;0.08)|all_neural(26;0.181)				Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TCGGGATTCCGATGACCTCAC	0.537													11	24					0	0	0.010729	0	0		A	57907023	A	A	57907023	2	1	23	1	0	0	0	0	0	0	0	1	7600	1048	37	1		1	IGFBP7	4	57907023	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	45474	57907023	133247253	323	19651											
LPHN3	23284	broad.mit.edu	37	chr4	62801758	62801758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taccttaaagcaaaatggccGaaatggtaggttagagttta	15	11	10	5	1	0	1	0	0	0	1	0	2	0	1	2	3	2	4	2	3	9	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:62801758G>A	uc010ihh.2	+	12	2383	c.2210G>A	c.(2209-2211)CGA>CAA	p.R737Q	LPHN3_uc003hcq.3_Missense_Mutation_p.R737Q|LPHN3_uc003hct.2_Missense_Mutation_p.R130Q	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	724	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						CAAAATGGCCGAAATGGTAGG	0.398													4	11					0	0	0.009096	0	0		A	62801758	A	A	62801758	3	1	23	1	0	0	0	0	1	0	0	0	8935	1058	37	1	2256	1	LPHN3	4	62801758	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4894735	62801758	128352518	324	19652											
UGT2A3	79799	broad.mit.edu	37	chr4	69795767	69795767	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atctaggggctttacaggttGatcatggtgaattcttgata	10	15	11	5	0	3	3	1	3	2	0	3	3	3	3	0	4	1	2	0	4	4	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:69795767G>A	uc003hef.2	-	6	1379	c.1348C>T	c.(1348-1350)CAA>TAA	p.Q450*	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	450	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						TTTACAGGTTGATCATGGTGA	0.428													22	142					0	0	0.00333	0	0		A	69795767	A	A	69795767	4	1	23	1	0	0	0	0	0	1	0	0	16981	1299	45	4	239	4	UGT2A3	4	69795767	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	6994009	69795767	121358509	325	19653											
ADAMTS3	9508	broad.mit.edu	37	chr4	73184422	73184422	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaggagacagtcataggaaCtgtaggaagaaaaatattgc	18	7	11	5	0	1	2	1	0	0	2	1	5	1	4	0	3	2	1	0	3	8	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:73184422C>T	uc003hgk.1	-	10	1390	c.1353_splice	c.e10-1	p.H451_splice		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1						collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GTCATAGGAACTGTAGGAAGA	0.323													3	59					0	0	0.009096	0	0		T	73184422	T	T	73184422	5	4	23	1	0	0	0	0	0	0	1	0	267	579	20	4	2317	4	ADAMTS3	4	73184422	Splice_Site	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3388655	73184422	117969854	326	19654											
SHROOM3	57619	broad.mit.edu	37	chr4	77661573	77661573	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagagccgcctgccccctcGcacccgcacacatccagtct	8	5	8	20	3	1	1	0	0	1	1	3	2	2	1	6	0	2	2	6	0	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:77661573G>A	uc011cbx.1	+	5	3200	c.2247G>A	c.(2245-2247)TCG>TCA	p.S749S	SHROOM3_uc011cbz.1_Silent_p.S573S|SHROOM3_uc003hkf.1_Silent_p.S624S|SHROOM3_uc003hkg.2_Silent_p.S527S	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	749					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			CTGCCCCCTCGCACCCGCACA	0.697													7	30					0	0	0.004482	0	0		A	77661573	A	A	77661573	2	1	23	1	0	0	0	0	0	0	0	1	14320	1074	38	1		1	SHROOM3	4	77661573	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4477151	77661573	113492703	327	19655											
C4orf22	255119	broad.mit.edu	37	chr4	81884720	81884720	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactatcctgacagaactctAcgtacaagctgtcatttttg	11	13	6	11	1	2	2	1	1	1	1	3	2	3	2	1	0	4	2	1	0	5	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:81884720A>G	uc003hmf.2	+	6	705	c.656A>G	c.(655-657)TAC>TGC	p.Y219C	C4orf22_uc010ijp.2_Missense_Mutation_p.Y236C	NM_152770	NP_689983	Q6V702	CD022_HUMAN	hypothetical protein LOC255119	219										skin(2)	2						ACAGAACTCTACGTACAAGCT	0.338													5	33					0	0	0.001168	0	0		G	81884720	G	G	81884720	3	3	23	1	0	0	0	0	1	0	0	0	2258	391	14	3	678	3	C4orf22	4	81884720	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	4223147	81884720	109269556	328	19656											
PRKG2	5593	broad.mit.edu	37	chr4	82090847	82090847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtttctgtattgttcatctCtagcttgggctgtcctcctc	4	18	8	11	0	3	0	1	0	2	0	7	0	5	0	2	1	1	5	2	1	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:82090847C>T	uc003hmh.2	-	4	832	c.818G>A	c.(817-819)AGA>AAA	p.R273K	PRKG2_uc011cch.1_Missense_Mutation_p.R273K	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	273	cGMP 1.				platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						TTGTTCATCTCTAGCTTGGGC	0.363													14	86					0	0	0.006122	0	0		T	82090847	T	T	82090847	3	4	23	1	0	0	0	0	1	0	0	0	12545	913	32	4	1530	4	PRKG2	4	82090847	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	206127	82090847	109063429	329	19657											
LIN54	132660	broad.mit.edu	37	chr4	83867618	83867618	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgatggtctgcacagttgAtttcactgcctattaaacaa	12	13	8	8	0	2	2	1	2	1	0	2	2	2	2	1	1	3	2	1	1	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:83867618A>G	uc003hnx.3	-	5	1339	c.961T>C	c.(961-963)TCA>CCA	p.S321P	LIN54_uc003hnz.3_Missense_Mutation_p.S100P|LIN54_uc003hny.3_5'UTR|LIN54_uc010ijt.2_Missense_Mutation_p.S232P|LIN54_uc010iju.2_Intron|LIN54_uc010ijv.2_Missense_Mutation_p.S100P	NM_194282	NP_919258	Q6MZP7	LIN54_HUMAN	lin-54 homolog isoform a	321					cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Hepatocellular(203;0.114)				TGCACAGTTGATTTCACTGCC	0.388													8	83					0	0	0.008291	0	0		G	83867618	G	G	83867618	3	3	23	1	0	0	0	0	1	0	0	0	8826	333	12	3	1324	3	LIN54	4	83867618	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1776771	83867618	107286658	330	19658											
HELQ	113510	broad.mit.edu	37	chr4	84367233	84367233	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcttccttcaccaatcaTgtgcaacttcgagatttttt	9	15	6	11	2	2	1	2	0	0	1	4	2	3	1	2	1	2	2	2	1	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:84367233T>C	uc003hom.2	-	5	1578	c.1399A>G	c.(1399-1401)ATG>GTG	p.M467V	HELQ_uc010ikb.2_Missense_Mutation_p.M400V|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	467	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						TCACCAATCATGTGCAACTTC	0.328								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					6	178					0	0	0.001984	0	0		C	84367233	C	C	84367233	3	2	23	1	0	0	0	0	1	0	0	0	7063	1464	51	3	1962	3	HELQ	4	84367233	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	499615	84367233	106787043	331	19659											
ARHGAP24	83478	broad.mit.edu	37	chr4	86916256	86916256	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacagaatggaacggtgcgCatgggcattttgaacagcga	12	8	14	7	3	0	2	0	1	0	1	0	4	0	3	0	3	5	3	0	3	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:86916256C>T	uc003hpk.2	+	9	1898	c.1449C>T	c.(1447-1449)CGC>CGT	p.R483R	ARHGAP24_uc003hpl.2_Silent_p.R388R|ARHGAP24_uc010ikf.2_Silent_p.R398R|ARHGAP24_uc003hpm.2_Silent_p.R390R	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1	483					angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		GAACGGTGCGCATGGGCATTT	0.522													21	82					0	0	0.003954	0	0		T	86916256	T	T	86916256	2	4	23	1	0	0	0	0	0	0	0	1	873	697	25	2		2	ARHGAP24	4	86916256	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2549023	86916256	104238020	332	19660											
KLHL8	57563	broad.mit.edu	37	chr4	88091651	88091651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtattcattggtgccactGtactccactgatcagattct	9	14	8	10	0	3	2	2	1	1	1	4	3	4	2	2	1	2	2	2	1	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:88091651G>A	uc011cdb.1	-	7	1710	c.1325C>T	c.(1324-1326)ACA>ATA	p.T442I	KLHL8_uc003hql.1_Missense_Mutation_p.T442I|KLHL8_uc003hqm.1_Missense_Mutation_p.T366I|KLHL8_uc003hqn.1_Missense_Mutation_p.T259I|KLHL8_uc010ikj.1_Missense_Mutation_p.T91I	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8	442	Kelch 3.										0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		TGGTGCCACTGTACTCCACTG	0.408													15	126					0	0	0.00499	0	0		A	88091651	A	A	88091651	3	1	23	1	0	0	0	0	1	0	0	0	8411	1377	48	4	553	4	KLHL8	4	88091651	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1175395	88091651	103062625	333	19661											
GRID2	2895	broad.mit.edu	37	chr4	94376883	94376883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtggtggactttacgacacGttacatggactactcagtgg	9	12	12	8	2	1	0	1	0	0	0	1	3	1	2	0	4	3	1	0	4	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:94376883G>A	uc011cdt.1	+	11	1874	c.1616G>A	c.(1615-1617)CGT>CAT	p.R539H	GRID2_uc011cdu.1_Missense_Mutation_p.R444H	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	539	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	TTTACGACACGTTACATGGAC	0.443													41	104					0	0	0.010771	0	0		A	94376883	A	A	94376883	3	1	23	1	0	0	0	0	1	0	0	0	6788	1145	40	1	1658	1	GRID2	4	94376883	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	6285232	94376883	96777393	334	19662											
BMPR1B	658	broad.mit.edu	37	chr4	96052564	96052564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttagtactcaaggcaaacCagcaattgcccatcgagatc	13	9	7	12	1	1	1	1	0	0	1	3	2	1	1	2	1	4	3	2	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:96052564C>T	uc003htm.3	+	10	1251	c.977C>T	c.(976-978)CCA>CTA	p.P326L	BMPR1B_uc010ilb.2_Missense_Mutation_p.P326L|BMPR1B_uc003htn.3_Missense_Mutation_p.P326L	NM_001203	NP_001194	O00238	BMR1B_HUMAN	bone morphogenetic protein receptor, type IB	326	Cytoplasmic (Potential).|Protein kinase.				BMP signaling pathway|cartilage condensation|eye development|limb morphogenesis|ovarian cumulus expansion|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	receptor complex	ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta receptor activity			lung(4)|skin(2)|stomach(1)|breast(1)	8		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.51e-07)		CAAGGCAAACCAGCAATTGCC	0.413													15	74					0	0	0.003163	0	0		T	96052564	T	T	96052564	3	4	23	1	0	0	0	0	1	0	0	0	1471	594	21	4	1003	4	BMPR1B	4	96052564	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1675681	96052564	95101712	335	19663											
TET2	54790	broad.mit.edu	37	chr4	106156409	106156409	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttagaagaacaccaccactAccccaaccaaagtaacacaa	19	5	3	14	0	0	2	0	0	0	2	0	2	0	2	5	0	4	1	5	0	8	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:106156409A>G	uc003hxk.2	+	3	1696	c.1310A>G	c.(1309-1311)TAC>TGC	p.Y437C	TET2_uc011cez.1_Missense_Mutation_p.Y458C|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Missense_Mutation_p.Y437C|TET2_uc003hxi.1_Missense_Mutation_p.Y437C	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	437					cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		CACCACCACTACCCCAACCAA	0.463			Mis N|F		MDS								11	57					0	0	0.008291	0	0		G	106156409	G	G	106156409	3	3	23	1	0	0	0	0	1	0	0	0	15795	391	14	3	1312	3	TET2	4	106156409	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	10103845	106156409	84997867	336	19664											
PAPSS1	9061	broad.mit.edu	37	chr4	108615044	108615044	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaggactaaagccaagAtttttattgagaccttgacg	12	13	8	8	1	2	3	1	2	1	2	2	5	2	4	2	1	1	0	2	1	4	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:108615044A>G	uc003hyk.2	-	3	378	c.294T>C	c.(292-294)AAT>AAC	p.N98N	PAPSS1_uc011cfh.1_RNA	NM_005443	NP_005434	O43252	PAPS1_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase	98	Adenylyl-sulfate kinase.				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|sulfate adenylyltransferase (ATP) activity			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.49e-05)		TAAAGCCAAGATTTTTATTGA	0.443													11	71					0	0	0.008291	0	0		G	108615044	G	G	108615044	2	3	23	1	0	0	0	0	0	0	0	1	11453	330	12	3		3	PAPSS1	4	108615044	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2458635	108615044	82539232	337	19665											
LEF1	51176	broad.mit.edu	37	chr4	109084737	109084737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tacttactgttctcgggatgGgtggagaaagagatccattt	10	13	12	6	1	1	2	0	0	1	2	3	5	2	3	1	3	2	1	1	3	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:109084737G>A	uc003hyt.1	-	3	1056	c.401C>T	c.(400-402)CCC>CTC	p.P134L	LEF1_uc011cfj.1_Missense_Mutation_p.P19L|LEF1_uc011cfk.1_Missense_Mutation_p.P66L|LEF1_uc003hyu.1_Missense_Mutation_p.P134L|LEF1_uc003hyv.1_Missense_Mutation_p.P134L|LEF1_uc010imb.1_RNA	NM_016269	NP_057353	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1 isoform 1	134	Pro-rich.				canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		TCTCGGGATGGGTGGAGAAAG	0.383													28	119					0	0	0.009535	0	0		A	109084737	A	A	109084737	3	1	23	1	0	0	0	0	1	0	0	0	8730	1232	43	4	918	4	LEF1	4	109084737	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	469693	109084737	82069539	338	19666											
PITX2	5308	broad.mit.edu	37	chr4	111553611	111553611	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggagtctttggagaagagAcattcaacggccgccggctg	9	8	14	10	4	2	2	1	0	1	2	3	5	2	3	2	4	1	1	2	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:111553611A>G	uc003iad.2	-	3	654	c.72T>C	c.(70-72)TGT>TGC	p.C24C	PITX2_uc003iae.2_Intron|PITX2_uc010iml.2_5'UTR|PITX2_uc003iaf.2_Silent_p.C24C	NM_153426	NP_700475	Q99697	PITX2_HUMAN	paired-like homeodomain transcription factor 2	24					determination of left/right symmetry|organ morphogenesis	transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription factor binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00222)		TGGAGAAGAGACATTCAACGG	0.662													10	78					0	0	0.001855	0	0		G	111553611	G	G	111553611	2	3	23	1	0	0	0	0	0	0	0	1	11974	273	10	3		3	PITX2	4	111553611	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2468874	111553611	79600665	339	19667											
USP53	54532	broad.mit.edu	37	chr4	120177651	120177651	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaccttttacagaatttgTgcggtacatttctacaacag	11	15	6	9	1	2	1	0	0	2	1	2	1	2	1	1	1	6	1	1	1	6	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:120177651T>C	uc003ics.3	+	8	1608	c.542T>C	c.(541-543)GTG>GCG	p.V181A	USP53_uc003icr.3_Missense_Mutation_p.V181A|USP53_uc003icu.3_5'UTR	NM_019050	NP_061923	Q70EK8	UBP53_HUMAN	ubiquitin specific protease 53	181					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			ovary(1)|breast(1)|kidney(1)|skin(1)	4						ACAGAATTTGTGCGGTACATT	0.318													20	107					0	0	0.012319	0	0		C	120177651	C	C	120177651	3	2	23	1	0	0	0	0	1	0	0	0	17110	1696	59	3	560	3	USP53	4	120177651	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	8624040	120177651	70976625	340	19668											
USP53	54532	broad.mit.edu	37	chr4	120193037	120193037	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccttgtagagggtaaagtGcatggtgataattggcagat	11	11	15	4	0	0	3	0	1	0	2	0	3	0	3	1	4	1	4	1	4	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:120193037G>A	uc003ics.3	+	15	3088	c.2022G>A	c.(2020-2022)GTG>GTA	p.V674V	USP53_uc003icr.3_Silent_p.V674V|USP53_uc003icu.3_Silent_p.V297V|USP53_uc003ict.2_Silent_p.V297V	NM_019050	NP_061923	Q70EK8	UBP53_HUMAN	ubiquitin specific protease 53	674					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			ovary(1)|breast(1)|kidney(1)|skin(1)	4						AGGGTAAAGTGCATGGTGATA	0.393													40	152					0	0	0.006999	0	0		A	120193037	A	A	120193037	2	1	23	1	0	0	0	0	0	0	0	1	17110	1306	46	2		2	USP53	4	120193037	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	15386	120193037	70961239	341	19669											
ADAD1	132612	broad.mit.edu	37	chr4	123301319	123301319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcaaccagcgacaaagaCgataactacacccacaggat	17	5	7	12	2	1	1	1	0	0	1	1	4	1	2	2	1	4	1	2	1	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:123301319C>T	uc003ieo.2	+	3	327	c.95C>T	c.(94-96)ACG>ATG	p.T32M	ADAD1_uc003iep.2_Missense_Mutation_p.T32M|ADAD1_uc003ieq.2_Missense_Mutation_p.T14M	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	32					multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						GCGACAAAGACGATAACTACA	0.473													10	51					0	0	0.001855	0	0		T	123301319	T	T	123301319	3	4	23	1	0	0	0	0	1	0	0	0	231	536	19	1	97	1	ADAD1	4	123301319	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3108282	123301319	67852957	342	19670											
FAT4	79633	broad.mit.edu	37	chr4	126370100	126370100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatggatagaggccagagaCggtggtttccctcctttctc	7	12	12	10	1	1	2	0	0	1	2	4	4	3	3	3	4	0	2	3	4	2	4	rs146157250	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:126370100C>T	uc003ifj.3	+	9	7929	c.7929C>T	c.(7927-7929)GAC>GAT	p.D2643D	FAT4_uc011cgp.1_Silent_p.D941D|FAT4_uc003ifi.1_Silent_p.D121D	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2643	Extracellular (Potential).|Cadherin 25.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						aggccagagacggtggtttcc	0.134													13	38					0	0	0.001855	0	0		T	126370100	T	T	126370100	2	4	23	1	0	0	0	0	0	0	0	1	5706	535	19	1		1	FAT4	4	126370100	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3068781	126370100	64784176	343	19671											
LARP1B	55132	broad.mit.edu	37	chr4	129012184	129012184	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagatagagaaaaaagggaTgatcaagatgacgtttccag	17	7	12	5	2	1	5	1	2	0	3	2	8	2	6	1	1	0	1	1	1	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:129012184T>C	uc003iga.2	+	6	518	c.387T>C	c.(385-387)GAT>GAC	p.D129D	LARP1B_uc003ifw.1_Silent_p.D82D|LARP1B_uc003ifx.2_Silent_p.D129D|LARP1B_uc003ify.2_Silent_p.D129D|LARP1B_uc003ifz.1_Silent_p.D129D	NM_018078	NP_060548	Q659C4	LAR1B_HUMAN	La ribonucleoprotein domain family member 2	129	Arg-rich.						RNA binding				0						AAAAAAGGGATGATCAAGATG	0.398													30	107					0	0	0.009535	0	0		C	129012184	C	C	129012184	2	2	23	1	0	0	0	0	0	0	0	1	8645	1461	51	3		3	LARP1B	4	129012184	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2642084	129012184	62142092	344	19672											
GAB1	2549	broad.mit.edu	37	chr4	144387375	144387375	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaaatccacaccaccacgTaaggtgagtgacatgtgaca	14	6	11	10	1	0	3	0	3	0	0	1	4	1	4	3	2	0	1	3	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:144387375T>C	uc003ije.2	+	9	2282	c.1923T>C	c.(1921-1923)CGT>CGC	p.R641R	GAB1_uc003ijd.2_Silent_p.R671R|GAB1_uc011chq.1_Silent_p.R538R	NM_002039	NP_002030	Q13480	GAB1_HUMAN	GRB2-associated binding protein 1 isoform b	641					cell proliferation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			breast(2)|lung(1)|skin(1)	4	all_hematologic(180;0.158)					CACCACCACGTAAGGTGAGTG	0.398													13	67					0	0	0.004007	0	0		C	144387375	C	C	144387375	2	2	23	1	0	0	0	0	0	0	0	1	6162	1625	57	3		3	GAB1	4	144387375	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	15375191	144387375	46766901	345	19673											
DCHS2	54798	broad.mit.edu	37	chr4	155254486	155254486	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcggtgctgctgcaggcTggggcgctgccgagctgcgc	3	7	17	14	4	0	0	0	0	0	0	1	1	0	0	2	4	6	6	2	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:155254486T>C	uc003inw.2	-	9	1377	c.1377A>G	c.(1375-1377)CCA>CCG	p.P459P	DCHS2_uc003inx.2_Silent_p.P958P	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	459	Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TGCTGCAGGCTGGGGCGCTGC	0.607													26	60					0	0	0.003755	0	0		C	155254486	C	C	155254486	2	2	23	1	0	0	0	0	0	0	0	1	4291	1567	55	3		3	DCHS2	4	155254486	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	10867111	155254486	35899790	346	19674											
LRAT	9227	broad.mit.edu	37	chr4	155665562	155665562	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgctctttagttcgggCgccgcgggcgaagacaaagg	8	8	14	11	6	2	1	1	0	1	1	3	2	2	1	1	3	0	2	1	3	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:155665562C>T	uc003iom.1	+	1	411	c.84C>T	c.(82-84)GGC>GGT	p.G28G	uc003iol.2_Intron|LRAT_uc003ion.1_Silent_p.G28G	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	28	Cytoplasmic (By similarity).				response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)	TTAGTTCGGGCGCCGCGGGCG	0.572													21	63					0	0	0.00278	0	0		T	155665562	T	T	155665562	2	4	23	1	0	0	0	0	0	0	0	1	8948	755	27	1		1	LRAT	4	155665562	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	411076	155665562	35488714	347	19675											
RBM46	166863	broad.mit.edu	37	chr4	155720533	155720533	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attactgcaacaaaaataacTgggcaccaccagaatattat	18	9	5	9	0	0	1	0	0	0	1	0	1	0	1	2	1	4	2	2	1	8	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:155720533T>A	uc003ioo.2	+	4	1392	c.1219T>A	c.(1219-1221)TGG>AGG	p.W407R	RBM46_uc011cim.1_Missense_Mutation_p.W407R|RBM46_uc003iop.1_Missense_Mutation_p.W407R	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	407							nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				CAAAAATAACTGGGCACCACC	0.328													15	45					0	0	0.004007	0	0		A	155720533	A	A	155720533	3	1	23	1	0	0	0	0	1	0	0	0	13165	1580	55	5	1229	5	RBM46	4	155720533	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	54971	155720533	35433743	348	19676											
GRIA2	2891	broad.mit.edu	37	chr4	158254500	158254500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcaaaactaatgggcccCggaaggtaaatccttagtga	14	8	10	9	1	1	1	1	1	0	0	2	2	2	2	3	3	2	2	3	3	7	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:158254500C>T	uc003ipm.3	+	8	1609	c.1150C>T	c.(1150-1152)CGG>TGG	p.R384W	GRIA2_uc011cit.1_Missense_Mutation_p.R337W|GRIA2_uc003ipl.3_Missense_Mutation_p.R384W|GRIA2_uc003ipk.3_Missense_Mutation_p.R337W|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	384	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	TAATGGGCCCCGGAAGGTAAA	0.398													5	22					0	0	0.000602	0	0		T	158254500	T	T	158254500	3	4	23	1	0	0	0	0	1	0	0	0	6784	643	23	1	1180	1	GRIA2	4	158254500	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2533967	158254500	32899776	349	19677											
TRIM60	166655	broad.mit.edu	37	chr4	165961522	165961522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaatgccatgtgtgaaaaaCacaaccagtttctgaccctc	14	9	7	11	0	1	3	0	2	1	1	2	3	1	3	3	0	3	1	3	0	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:165961522C>T	uc003iqy.1	+	3	468	c.298C>T	c.(298-300)CAC>TAC	p.H100Y	TRIM60_uc010iqx.1_Missense_Mutation_p.H100Y	NM_152620	NP_689833	Q495X7	TRI60_HUMAN	ring finger protein 129	100	B box-type.					intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0844)		GTGTGAAAAACACAACCAGTT	0.428													22	59					0	0	0.010504	0	0		T	165961522	T	T	165961522	3	4	23	1	0	0	0	0	1	0	0	0	16561	478	17	4	300	4	TRIM60	4	165961522	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	7707022	165961522	25192754	350	19678											
DDX60L	91351	broad.mit.edu	37	chr4	169393087	169393087	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcatttaatatgctggaataCctaaaataaaaatcaaagag	20	11	5	5	0	2	1	2	0	0	1	2	2	2	2	1	1	2	1	1	1	10	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:169393087C>T	uc003irq.3	-	4	296	c.75G>A	c.(73-75)GGG>GGA	p.G25G	DDX60L_uc003irr.1_Silent_p.G25G|DDX60L_uc003irt.1_Silent_p.G25G	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	25							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		TGCTGGAATACCTAAAATAAA	0.289													3	12					0	0	0.004672	0	0		T	169393087	T	T	169393087	2	4	23	1	0	0	0	0	0	0	0	1	4382	521	18	4		4	DDX60L	4	169393087	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3431565	169393087	21761189	351	19679											
IRF2	3660	broad.mit.edu	37	chr4	185339800	185339800	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaggcaaggaattcatggCgcatctgaaattcgccttcc	11	10	9	11	2	3	1	2	1	1	0	5	2	4	2	2	3	0	2	2	3	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:185339800C>G	uc003iwf.3	-	4	450	c.250G>C	c.(250-252)GCC>CCC	p.A84P		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	84	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		GAATTCATGGCGCATCTGAAA	0.398													4	58					0	0	0.000602	0	0		G	185339800	G	G	185339800	3	3	23	1	0	0	0	0	1	0	0	0	7844	768	27	5	823	5	IRF2	4	185339800	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	15946713	185339800	5814476	352	19680											
CCDC110	256309	broad.mit.edu	37	chr4	186379494	186379494	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcattttctatgcttcttacGtaattttctaaaagtatttt	10	22	3	6	1	4	0	1	0	3	0	4	0	4	0	0	0	2	3	0	0	6	12			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:186379494G>A	uc003ixu.3	-	6	2323	c.2247C>T	c.(2245-2247)TAC>TAT	p.Y749Y	CCDC110_uc003ixv.3_Silent_p.Y712Y|CCDC110_uc011ckt.1_Silent_p.Y749Y	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	749	Potential.					nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		TGCTTCTTACGTAATTTTCTA	0.284													6	22					0	0	0.001984	0	0		A	186379494	A	A	186379494	2	1	23	1	0	0	0	0	0	0	0	1	2750	1140	40	1		1	CCDC110	4	186379494	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1039694	186379494	4774782	353	19681											
SORBS2	8470	broad.mit.edu	37	chr4	186583258	186583258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtgagtaaattacttacCgagggatgtgccgtgctgca	10	10	13	8	3	0	1	0	1	0	0	0	3	0	2	2	2	5	3	2	2	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr4:186583258C>T	uc003iyl.2	-	5	952	c.94G>A	c.(94-96)GAT>AAT	p.D32N	SORBS2_uc003iyh.2_Missense_Mutation_p.D211N|SORBS2_uc011ckw.1_Missense_Mutation_p.D101N|SORBS2_uc003iyi.2_Missense_Mutation_p.D118N|SORBS2_uc011ckx.1_Missense_Mutation_p.D78N|SORBS2_uc003iyk.2_Missense_Mutation_p.D118N|SORBS2_uc003iym.2_Missense_Mutation_p.D132N|SORBS2_uc003iyn.1_Missense_Mutation_p.D78N|SORBS2_uc011cky.1_Missense_Mutation_p.D95N|SORBS2_uc003iyp.2_Missense_Mutation_p.D132N|SORBS2_uc003iyd.2_Missense_Mutation_p.D211N|SORBS2_uc003iye.2_Missense_Mutation_p.D32N|SORBS2_uc003iya.2_Missense_Mutation_p.D32N|SORBS2_uc003iyb.2_Missense_Mutation_p.D32N|SORBS2_uc003iyc.2_Missense_Mutation_p.D32N|SORBS2_uc003iyg.2_Missense_Mutation_p.D118N|SORBS2_uc003iyf.2_Missense_Mutation_p.D95N	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	32						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		AATTACTTACCGAGGGATGTG	0.527													12	28					0	0	0.013537	0	0		T	186583258	T	T	186583258	3	4	23	1	0	0	0	0	1	0	0	0	14953	666	23	1	3616	1	SORBS2	4	186583258	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	203764	186583258	4571018	354	19682											
ZDHHC11	79844	broad.mit.edu	37	chr5	840720	840720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagggtctgcacctgcaccGggaacagggggaggaacagc	10	4	16	11	1	2	0	1	0	1	0	2	3	2	3	2	5	5	2	2	5	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:840720G>A	uc011cma.1	-	5	1058	c.674C>T	c.(673-675)CCG>CTG	p.P225L	ZDHHC11_uc003jbj.2_RNA|ZDHHC11_uc010itd.1_RNA|ZDHHC11_uc003jbk.2_Missense_Mutation_p.P12L	NM_024786	NP_079062	Q9H8X9	ZDH11_HUMAN	zinc finger, DHHC-type containing 11	225						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)|pancreas(1)	2			Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)			CACCTGCACCGGGAACAGGGG	0.587													68	485					0	0	0.01441	0	0		A	840720	A	A	840720	3	1	23	1	0	0	0	0	1	0	0	0	17626	1116	39	1	596	1	ZDHHC11	5	840720	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08		840720	180074540	355	19683											
IRX1	79192	broad.mit.edu	37	chr5	3599758	3599758	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaagcatcgacattgacaaGatcgacgagcacgatggcga	15	5	12	9	5	0	2	0	1	0	1	2	8	0	2	0	1	2	2	0	1	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:3599758G>C	uc003jde.2	+	2	748	c.696G>C	c.(694-696)AAG>AAC	p.K232N		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	232						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						ACATTGACAAGATCGACGAGC	0.642													7	29					0	0	0.010729	0	0		C	3599758	C	C	3599758	3	2	23	1	0	0	0	0	1	0	0	0	7859	933	33	5	702	5	IRX1	5	3599758	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2759038	3599758	177315502	356	19684											
ADAMTS16	170690	broad.mit.edu	37	chr5	5306831	5306831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggcagctggtttgcctcacCctggtctcaggtaggggagg	5	9	17	10	0	2	0	2	0	1	0	3	1	2	1	2	7	2	4	2	7	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:5306831C>T	uc003jdl.2	+	21	3539	c.3401C>T	c.(3400-3402)CCC>CTC	p.P1134L		NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1134	TSP type-1 6.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TTTGCCTCACCCTGGTCTCAG	0.697													6	15					0	0	0.001984	0	0		T	5306831	T	T	5306831	3	4	23	1	0	0	0	0	1	0	0	0	261	623	22	4	3483	4	ADAMTS16	5	5306831	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1707073	5306831	175608429	357	19685											
SEMA5A	9037	broad.mit.edu	37	chr5	9154620	9154620	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgcgtgtgcggtagaactgGcacctcttcagggggatctt	6	11	14	10	2	3	1	1	0	2	1	3	2	3	2	1	4	3	2	1	4	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:9154620G>A	uc003jek.2	-	12	2173	c.1461C>T	c.(1459-1461)TGC>TGT	p.C487C		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	487	Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						GGTAGAACTGGCACCTCTTCA	0.637													17	70					0	0	0.006122	0	0		A	9154620	A	A	9154620	2	1	23	1	0	0	0	0	0	0	0	1	14062	1195	42	2		2	SEMA5A	5	9154620	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3847789	9154620	171760640	358	19686											
FAM173B	134145	broad.mit.edu	37	chr5	10239372	10239372	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaagcccagtaagtaagAacccccagttgcttttctgc	11	9	7	14	0	1	1	0	0	1	1	1	1	1	1	4	0	4	4	4	0	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:10239372A>G	uc003jeo.2	-	2	142	c.113T>C	c.(112-114)TTC>TCC	p.F38S	FAM173B_uc003jep.2_RNA|FAM173B_uc010itr.2_Missense_Mutation_p.F38S	NM_199133	NP_954584	Q6P4H8	F173B_HUMAN	hypothetical protein LOC134145	38	Helical; (Potential).					integral to membrane				kidney(1)|central_nervous_system(1)	2						AGTAAGTAAGAACCCCCAGTT	0.478													27	96					0	0	0.005443	0	0		G	10239372	G	G	10239372	3	3	23	1	0	0	0	0	1	0	0	0	5505	246	9	3	604	3	FAM173B	5	10239372	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1084752	10239372	170675888	359	19687											
CCT5	22948	broad.mit.edu	37	chr5	10260965	10260965	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgatgatgaagcaaatcActtacttcttcagaacaact	14	13	5	9	0	3	4	2	3	1	1	3	4	3	4	0	0	4	1	0	0	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:10260965A>G	uc003jeq.2	+	7	1106	c.935A>G	c.(934-936)CAC>CGC	p.H312R	CCT5_uc011cmq.1_Missense_Mutation_p.H159R|CCT5_uc003jer.2_Missense_Mutation_p.H312R|CCT5_uc010its.2_Missense_Mutation_p.H312R|CCT5_uc011cmr.1_Missense_Mutation_p.H257R|CCT5_uc011cms.1_Missense_Mutation_p.H274R|CCT5_uc011cmt.1_Missense_Mutation_p.H219R	NM_012073	NP_036205	P48643	TCPE_HUMAN	chaperonin containing TCP1, subunit 5 (epsilon)	312					'de novo' posttranslational protein folding|response to virus	microtubule organizing center|nucleolus	ATP binding|unfolded protein binding			ovary(2)	2						GAAGCAAATCACTTACTTCTT	0.448													19	457					0	0	0.010504	0	0		G	10260965	G	G	10260965	3	3	23	1	0	0	0	0	1	0	0	0	2959	159	6	3	961	3	CCT5	5	10260965	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	21593	10260965	170654295	360	19688											
DNAH5	1767	broad.mit.edu	37	chr5	13928247	13928247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatagtaaaacatgaggtgtCggagacctccaacagcaaaa	17	6	10	8	1	0	2	0	1	0	1	2	4	1	2	2	2	3	2	2	2	6	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:13928247C>T	uc003jfd.2	-	3	275	c.233G>A	c.(232-234)CGA>CAA	p.R78Q	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	78	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CATGAGGTGTCGGAGACCTCC	0.348									Kartagener_syndrome				10	62					0	0	0.008291	0	0		T	13928247	T	T	13928247	3	4	23	1	0	0	0	0	1	0	0	0	4610	884	31	1	13949	1	DNAH5	5	13928247	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3667282	13928247	166987013	361	19689											
ANKH	56172	broad.mit.edu	37	chr5	14713763	14713763	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcagccacccggtgagatgCgccctcactgtgactgttgg	7	9	12	13	2	2	2	2	2	0	1	2	3	2	2	3	2	2	1	3	2	0	1	rs146419748		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:14713763C>T	uc003jfm.3	-	10	1486	c.1155G>A	c.(1153-1155)GCG>GCA	p.A385A	ANKH_uc003jfl.3_Silent_p.A98A	NM_054027	NP_473368	Q9HCJ1	ANKH_HUMAN	progressive ankylosis protein	385	Cytoplasmic (Potential).				locomotory behavior|regulation of bone mineralization|skeletal system development	integral to plasma membrane|outer membrane	inorganic diphosphate transmembrane transporter activity|inorganic phosphate transmembrane transporter activity			upper_aerodigestive_tract(1)	1						CGGTGAGATGCGCCCTCACTG	0.617													9	60					0	0	0.004482	0	0		T	14713763	T	T	14713763	2	4	23	1	0	0	0	0	0	0	0	1	627	755	27	1		1	ANKH	5	14713763	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	785516	14713763	166201497	362	19690											
CDH6	1004	broad.mit.edu	37	chr5	31267788	31267788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaggaatacacaggatccGattatcagtatgtgggcaag	13	9	13	6	1	1	0	1	0	0	0	2	4	2	3	1	4	1	2	1	4	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:31267788G>A	uc003jhe.1	+	2	534	c.208G>A	c.(208-210)GAT>AAT	p.D70N	CDH6_uc003jhd.1_Missense_Mutation_p.D70N	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	70	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						CACAGGATCCGATTATCAGTA	0.443													20	67					0	0	0.00278	0	0		A	31267788	A	A	31267788	3	1	23	1	0	0	0	0	1	0	0	0	3117	1058	37	1	210	1	CDH6	5	31267788	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	16554025	31267788	149647472	363	19691											
PDZD2	23037	broad.mit.edu	37	chr5	32061224	32061224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgttcgccttgtcatcggccGgcaccctaatccaaaggtga	8	9	10	14	4	1	1	1	1	0	0	4	1	2	1	4	3	0	2	4	3	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:32061224G>A	uc003jhl.2	+	14	2823	c.2435G>A	c.(2434-2436)CGG>CAG	p.R812Q	PDZD2_uc003jhm.2_Missense_Mutation_p.R812Q|PDZD2_uc011cnx.1_Missense_Mutation_p.R638Q	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	812	PDZ 4.				cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GTCATCGGCCGGCACCCTAAT	0.522													12	37					0	0	0.013537	0	0		A	32061224	A	A	32061224	3	1	23	1	0	0	0	0	1	0	0	0	11720	1116	39	1	2485	1	PDZD2	5	32061224	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	793436	32061224	148854036	364	19692											
SLC45A2	51151	broad.mit.edu	37	chr5	33963963	33963963	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctttgcaacctctgtaagtgGggcttcagagatactgcaca	10	11	10	10	0	2	1	1	0	1	1	2	2	2	1	1	2	4	4	1	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:33963963G>T	uc003jid.2	-	3	813	c.721C>A	c.(721-723)CCA>ACA	p.P241T	SLC45A2_uc003jie.2_Missense_Mutation_p.P241T|SLC45A2_uc003jif.3_Intron|SLC45A2_uc011coe.1_Intron	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	241	Cytoplasmic (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						TCTGTAAGTGGGGCTTCAGAG	0.473													30	90					2.61193e-14	2.831e-14	0.009535	1	0		T	33963963	T	T	33963963	3	4	23	1	0	0	0	0	1	0	0	0	14666	1232	43	5	906	5	SLC45A2	5	33963963	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1902739	33963963	146951297	365	19693											
SPEF2	79925	broad.mit.edu	37	chr5	35694403	35694403	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaaaggatccacaacatgTattttcagctggtccagttt	11	13	7	10	0	1	0	1	0	0	0	4	1	4	1	3	2	2	3	3	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:35694403T>C	uc003jjo.2	+	13	2024	c.1913T>C	c.(1912-1914)GTA>GCA	p.V638A	SPEF2_uc003jjq.3_Missense_Mutation_p.V638A|SPEF2_uc003jjp.1_Missense_Mutation_p.V129A	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	638					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CCACAACATGTATTTTCAGCT	0.318													6	21					0	0	0.004482	0	0		C	35694403	C	C	35694403	3	2	23	1	0	0	0	0	1	0	0	0	15060	1638	57	3	1984	3	SPEF2	5	35694403	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1730440	35694403	145220857	366	19694											
PARP8	79668	broad.mit.edu	37	chr5	50090845	50090845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaagtcacacaggacctttgGccgctccttgtccagcgatc	9	9	9	14	2	1	0	1	0	0	0	4	2	3	1	4	2	1	1	4	2	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:50090845G>A	uc003jon.3	+	13	1204	c.1022G>A	c.(1021-1023)GGC>GAC	p.G341D	PARP8_uc011cpz.1_Missense_Mutation_p.G233D|PARP8_uc003joo.2_Missense_Mutation_p.G341D|PARP8_uc003jop.2_Missense_Mutation_p.G341D	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	341						intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				AGGACCTTTGGCCGCTCCTTG	0.522													35	86					0	0	0.003271	0	0		A	50090845	A	A	50090845	3	1	23	1	0	0	0	0	1	0	0	0	11484	1203	42	2	1068	2	PARP8	5	50090845	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	14396442	50090845	130824415	367	19695											
CDC20B	166979	broad.mit.edu	37	chr5	54423154	54423154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaagcatatttctcagcCgctttttagttaccacatcc	10	13	5	13	1	1	0	1	0	1	0	3	1	2	0	4	0	3	3	4	0	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:54423154C>T	uc003jpo.1	-	8	1095	c.920G>A	c.(919-921)CGG>CAG	p.R307Q	CDC20B_uc003jpn.1_Missense_Mutation_p.R307Q|CDC20B_uc010ivu.1_Missense_Mutation_p.R307Q|CDC20B_uc010ivv.1_Missense_Mutation_p.R307Q	NM_152623	NP_689836	Q86Y33	CD20B_HUMAN	CDC20 cell division cycle 20 homolog B isoform	307	WD 2.										0		Lung NSC(810;0.000744)|Breast(144;0.159)|Prostate(74;0.194)	LUSC - Lung squamous cell carcinoma(15;0.225)			ATTTCTCAGCCGCTTTTTAGT	0.438													25	122					0	0	0.00333	0	0		T	54423154	T	T	54423154	3	4	23	1	0	0	0	0	1	0	0	0	3063	652	23	1	659	1	CDC20B	5	54423154	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4332309	54423154	126492106	368	19696											
RAB3C	115827	broad.mit.edu	37	chr5	58120900	58120900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacatactcttgggacaatgCccaagttattctggttggga	11	12	10	8	0	2	0	0	0	2	0	2	2	2	2	1	3	3	2	1	3	5	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:58120900C>T	uc003jrp.2	+	4	504	c.407C>T	c.(406-408)GCC>GTC	p.A136V		NM_138453	NP_612462	Q96E17	RAB3C_HUMAN	RAB3C, member RAS oncogene family	136					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)|central_nervous_system(1)	2		all_cancers(5;9.93e-10)|all_epithelial(5;1.49e-10)|all_lung(5;8.97e-05)|Lung NSC(5;0.000139)|Prostate(74;0.0664)		OV - Ovarian serous cystadenocarcinoma(10;1.8e-34)		TGGGACAATGCCCAAGTTATT	0.413													18	73					0	0	0.00499	0	0		T	58120900	T	T	58120900	3	4	23	1	0	0	0	0	1	0	0	0	12958	739	26	2	421	2	RAB3C	5	58120900	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3697746	58120900	122794360	369	19697											
IPO11	51194	broad.mit.edu	37	chr5	61822085	61822085	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagatggtttagaattatgGtaagaggaaaaacttaatac	18	11	10	2	0	0	3	0	0	0	3	0	5	0	4	0	3	2	2	0	3	9	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:61822085G>C	uc003jtc.2	+	21	2202	c.2012_splice	c.e21+1	p.W671_splice	IPO11_uc011cqr.1_Splice_Site_p.W711_splice|IPO11_uc003jtd.1_Splice_Site|IPO11_uc010iwr.2_Intron	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2							cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		TAGAATTATGGTAAGAGGAAA	0.383													4	92					0	0	0.009096	0	0		C	61822085	C	C	61822085	5	2	23	1	0	0	0	0	0	0	1	0	7809	1275	44	5	2215	5	IPO11	5	61822085	Splice_Site	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3701185	61822085	119093175	370	19698											
ERBB2IP	55914	broad.mit.edu	37	chr5	65319175	65319175	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggatggatgctaatagaCtgacttttattccaggggta	10	15	11	5	0	0	2	0	1	0	1	1	4	1	4	1	4	1	2	1	4	4	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:65319175C>A	uc003juk.1	+	9	963	c.655C>A	c.(655-657)CTG>ATG	p.L219M	ERBB2IP_uc003juh.1_Missense_Mutation_p.L219M|ERBB2IP_uc003jui.1_Missense_Mutation_p.L219M|ERBB2IP_uc003juj.1_Missense_Mutation_p.L219M|ERBB2IP_uc011cqx.1_Missense_Mutation_p.L219M|ERBB2IP_uc011cqy.1_Missense_Mutation_p.L219M|ERBB2IP_uc011cqz.1_Missense_Mutation_p.L219M|ERBB2IP_uc010iwx.1_Missense_Mutation_p.L219M|ERBB2IP_uc003jul.1_Missense_Mutation_p.L219M	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	219	LRR 9.				basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		TGCTAATAGACTGACTTTTAT	0.348													17	121					1.00905e-13	1.09086e-13	0.008871	1	0		A	65319175	A	A	65319175	3	1	23	1	0	0	0	0	1	0	0	0	5215	564	20	5	681	5	ERBB2IP	5	65319175	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3497090	65319175	115596085	371	19699											
CCDC125	202243	broad.mit.edu	37	chr5	68590716	68590716	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatgacaaaggcaggctccGaggaccgcaagctttaaatt	13	7	10	11	2	0	1	0	1	0	0	1	3	1	2	3	3	1	4	3	3	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:68590716G>A	uc003jvv.1	-	8	871	c.828C>T	c.(826-828)CTC>CTT	p.L276L	CCDC125_uc003jvx.1_Silent_p.L275L|CCDC125_uc003jvy.1_RNA|CCDC125_uc003jvw.2_Silent_p.L151L	NM_176816	NP_789786	Q86Z20	CC125_HUMAN	coiled-coil domain containing 125	276						cytoplasm					0		Lung NSC(167;7.26e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.2e-56)|Epithelial(20;2.31e-52)|all cancers(19;5.85e-48)|Lung(70;0.0183)		GGCAGGCTCCGAGGACCGCAA	0.488													43	128					0	0	0.007835	0	0		A	68590716	A	A	68590716	2	1	23	1	0	0	0	0	0	0	0	1	2764	1045	37	1		1	CCDC125	5	68590716	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3271541	68590716	112324544	372	19700											
GTF2H2C	728340	broad.mit.edu	37	chr5	68875669	68875669	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgctagctcaagttcTgaatgctcacttattcgtat	8	15	6	12	1	3	1	2	1	1	0	5	1	4	1	2	0	3	5	2	0	5	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:68875669T>C	uc003jwx.3	+	11	806	c.735T>C	c.(733-735)TCT>TCC	p.S245S	GTF2H2C_uc003jww.1_3'UTR|GTF2H2C_uc003jwz.3_Silent_p.S245S|GTF2H2C_uc011cre.1_Silent_p.S188S|GTF2H2C_uc003jwy.3_Silent_p.S245S|GTF2H2C_uc003jxa.1_5'Flank	NM_001098728	NP_001092198	Q6P1K8	T2H2L_HUMAN	general transcription factor IIH, polypeptide	245					DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding				0						GCTCAAGTTCTGAATGCTCAC	0.328													75	323					0	0	0.01441	0	0		C	68875669	C	C	68875669	2	2	23	1	0	0	0	0	0	0	0	1	6878	1567	55	3		3	GTF2H2C	5	68875669	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	284953	68875669	112039591	373	19701											
CARTPT	9607	broad.mit.edu	37	chr5	71015123	71015123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgacgagtttcagaacgatGgagagctcccgcgtgaggct	10	7	14	10	5	1	3	1	1	0	2	2	7	2	3	1	2	2	3	1	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:71015123G>A	uc003kbv.1	+	1	130	c.3G>A	c.(1-3)ATG>ATA	p.M1I		NM_004291	NP_004282	Q16568	CART_HUMAN	cocaine- and amphetamine-regulated transcript	1					activation of MAPKK activity|adult feeding behavior|cellular glucose homeostasis|cellular response to starvation|circadian regulation of gene expression|negative regulation of appetite|negative regulation of bone resorption|negative regulation of osteoclast differentiation|neuropeptide signaling pathway|positive regulation of blood pressure|positive regulation of epinephrine secretion|positive regulation of transmission of nerve impulse|synaptic transmission	extracellular space				ovary(1)	1		Lung NSC(167;0.00153)|Ovarian(174;0.0175)|Prostate(74;0.11)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;8.4e-56)	Amphetamine(DB00182)	TCAGAACGATGGAGAGCTCCC	0.652													17	95					0	0	0.006122	0	0		A	71015123	A	A	71015123	3	1	23	1	0	0	0	0	1	0	0	0	2662	1348	47	4	5	4	CARTPT	5	71015123	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2139454	71015123	109900137	374	19702											
ZNF366	167465	broad.mit.edu	37	chr5	71756924	71756924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtagaattggaagcccaCgttgcacaggtcgatcatct	10	9	12	10	3	2	1	1	0	1	1	3	3	2	2	1	3	2	3	1	3	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:71756924C>T	uc003kce.1	-	2	586	c.400G>A	c.(400-402)GTG>ATG	p.V134M		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	134					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		TGGAAGCCCACGTTGCACAGG	0.607													46	181					0	0	0.01441	0	0		T	71756924	T	T	71756924	3	4	23	1	0	0	0	0	1	0	0	0	17895	536	19	1	1850	1	ZNF366	5	71756924	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	741801	71756924	109158336	375	19703											
DMGDH	29958	broad.mit.edu	37	chr5	78324348	78324348	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatcatcactaagatctTcagaggtcagtttctgaagg	14	11	8	8	0	6	3	4	1	2	2	6	3	6	3	0	2	1	1	0	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:78324348T>C	uc003kfs.2	-	12	1946	c.1940A>G	c.(1939-1941)GAA>GGA	p.E647G	DMGDH_uc011cte.1_Missense_Mutation_p.E497G|DMGDH_uc011ctf.1_Missense_Mutation_p.E446G|DMGDH_uc011ctg.1_Missense_Mutation_p.E267G	NM_013391	NP_037523	Q9UI17	M2GD_HUMAN	dimethylglycine dehydrogenase precursor	647					choline metabolic process|glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|dimethylglycine dehydrogenase activity|electron carrier activity			ovary(2)|liver(1)|skin(1)	4		all_lung(232;0.000638)|Lung NSC(167;0.00173)|Ovarian(174;0.0262)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;6.52e-45)|Epithelial(54;5.96e-40)|all cancers(79;3.56e-35)		ACTAAGATCTTCAGAGGTCAG	0.388													4	271					0	0	0.009096	0	0		C	78324348	C	C	78324348	3	2	23	1	0	0	0	0	1	0	0	0	4587	1783	62	3	680	3	DMGDH	5	78324348	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	6567424	78324348	102590912	376	19704											
EDIL3	10085	broad.mit.edu	37	chr5	83476311	83476311	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatttcacaggttcctccAttatggcatggattaggagt	9	15	9	8	0	1	0	1	0	0	0	3	2	3	2	2	4	0	2	2	4	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:83476311A>G	uc003kio.1	-	4	674	c.255T>C	c.(253-255)AAT>AAC	p.N85N	EDIL3_uc003kip.1_Silent_p.N75N	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like	85	EGF-like 2.				cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)		AGGTTCCTCCATTATGGCATG	0.393													4	30					0	0	0.000602	0	0		G	83476311	G	G	83476311	2	3	23	1	0	0	0	0	0	0	0	1	4921	214	8	3		3	EDIL3	5	83476311	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	5151963	83476311	97438949	377	19705											
CETN3	1070	broad.mit.edu	37	chr5	89695208	89695208	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttgtcaaattcttctaTcatagctcgaagttcttcat	10	18	4	9	1	7	0	3	0	4	0	8	1	7	0	0	0	1	2	0	0	4	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:89695208T>C	uc003kjo.2	-	4	552	c.427A>G	c.(427-429)ATA>GTA	p.I143V		NM_004365	NP_004356	O15182	CETN3_HUMAN	centrin 3	143	EF-hand 4.				cell division|centrosome cycle|mitosis	centriole	calcium ion binding				0		all_cancers(142;7.93e-09)|all_epithelial(76;2.13e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;1.42e-32)|Epithelial(54;1.45e-26)|all cancers(79;2.87e-23)		AATTCTTCTATCATAGCTCGA	0.343													10	70					0	0	0.006214	0	0		C	89695208	C	C	89695208	3	2	23	1	0	0	0	0	1	0	0	0	3279	1435	50	3	84	3	CETN3	5	89695208	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	6218897	89695208	91220052	378	19706											
MBLAC2	153364	broad.mit.edu	37	chr5	89757254	89757254	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcagtgatccatcatacacGacgtctccactgaagagaat	14	9	7	11	2	3	3	2	2	1	1	5	5	4	3	2	0	1	0	2	0	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:89757254G>A	uc003kjp.2	-	2	1046	c.570C>T	c.(568-570)GTC>GTT	p.V190V		NM_203406	NP_981951	Q68D91	MBLC2_HUMAN	beta-lactamase-like	190							hydrolase activity|metal ion binding				0						CATCATACACGACGTCTCCAC	0.463													19	77					0	0	0.012319	0	0		A	89757254	A	A	89757254	2	1	23	1	0	0	0	0	0	0	0	1	9370	1045	37	1		1	MBLAC2	5	89757254	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	62046	89757254	91158006	379	19707											
GPR98	84059	broad.mit.edu	37	chr5	90052364	90052364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctacaggacagccaagtgtgCggaggcccggaatggaaata	13	5	14	9	2	0	0	0	0	0	0	0	4	0	4	2	5	3	0	2	5	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:90052364C>T	uc003kju.2	+	56	11770	c.11674C>T	c.(11674-11676)CGG>TGG	p.R3892W	GPR98_uc003kjt.2_Missense_Mutation_p.R1598W|GPR98_uc003kjv.2_Missense_Mutation_p.R1492W	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3892	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GCCAAGTGTGCGGAGGCCCGG	0.438													5	130					0	0	0.000602	0	0		T	90052364	T	T	90052364	3	4	23	1	0	0	0	0	1	0	0	0	6737	759	27	1	11896	1	GPR98	5	90052364	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	295110	90052364	90862896	380	19708											
SPATA9	83890	broad.mit.edu	37	chr5	94994442	94994442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaatgtctggcttctccGgcaatgacctataaggtttt	9	14	9	9	1	2	2	0	2	2	0	3	2	2	2	2	3	0	3	2	3	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:94994442G>A	uc003klj.1	-	5	806	c.650C>T	c.(649-651)CCG>CTG	p.P217L	SPATA9_uc010jbh.1_Intron|SPATA9_uc003klh.1_RNA|SPATA9_uc003kli.1_RNA	NM_031952	NP_114158	Q9BWV2	SPAT9_HUMAN	spermatogenesis associated 9	217					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane					0		all_cancers(142;1.28e-06)|all_epithelial(76;1.55e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.00473)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.91e-16)		TGGCTTCTCCGGCAATGACCT	0.408													13	50					0	0	0.001855	0	0		A	94994442	A	A	94994442	3	1	23	1	0	0	0	0	1	0	0	0	15041	1116	39	1	118	1	SPATA9	5	94994442	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4942078	94994442	85920818	381	19709											
LNPEP	4012	broad.mit.edu	37	chr5	96328734	96328734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttaggtttctatatatgctGtaccagaaaagattggtcaa	13	15	8	5	0	2	2	1	0	1	2	2	2	2	2	1	2	2	3	1	2	8	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:96328734G>A	uc003kmv.1	+	5	1661	c.1147G>A	c.(1147-1149)GTA>ATA	p.V383I	LNPEP_uc003kmw.1_Missense_Mutation_p.V369I	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1	383	Extracellular (Potential).				cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		TATATATGCTGTACCAGAAAA	0.343													23	100					0	0	0.003954	0	0		A	96328734	A	A	96328734	3	1	23	1	0	0	0	0	1	0	0	0	8881	1377	48	4	1165	4	LNPEP	5	96328734	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1334292	96328734	84586526	382	19710											
ST8SIA4	7903	broad.mit.edu	37	chr5	100147699	100147699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cataataatgatatttgaccGcttttccatttaaatcctta	13	17	3	8	1	0	2	0	2	0	0	2	2	2	2	3	0	0	1	3	0	6	9			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:100147699G>A	uc003knk.2	-	5	1260	c.932C>T	c.(931-933)GCG>GTG	p.A311V		NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	311	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		ATATTTGACCGCTTTTCCATT	0.373													9	43					0	0	0.006214	0	0		A	100147699	A	A	100147699	3	1	23	1	0	0	0	0	1	0	0	0	15259	1087	38	1	151	1	ST8SIA4	5	100147699	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3818965	100147699	80767561	383	19711											
SLCO4C1	353189	broad.mit.edu	37	chr5	101631748	101631748	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcgacagtgaccggagcttCtcttcggagacattgggagg	9	8	15	9	3	1	2	0	1	1	1	3	6	1	4	1	4	2	1	1	4	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:101631748C>T	uc003knm.2	-	1	506	c.219G>A	c.(217-219)GAG>GAA	p.E73E		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	73	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		ACCGGAGCTTCTCTTCGGAGA	0.572													17	89					0	0	0.010504	0	0		T	101631748	T	T	101631748	2	4	23	1	0	0	0	0	0	0	0	1	14755	912	32	4		4	SLCO4C1	5	101631748	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1484049	101631748	79283512	384	19712											
EPB41L4A	64097	broad.mit.edu	37	chr5	111576418	111576418	+	Frame_Shift_Del	DEL	A	-	-																															atttttacatcaatttacctAaaaaatgtatgatgttccac																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:111576418delA	uc003kpv.1	-	10	1159	c.885delT	c.(883-885)TTTfs	p.F295fs		NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	295	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		CAATTTACCTAAAAAATGTAT	0.303													10	22	---	---	---	---						.	-	111576418	-	-	111576418	7	5	23	1	0	1	0	1	0	0	0	0	5163	359	13	0	1231	0	EPB41L4A	5	111576418	Frame_Shift_Del	DEL	A	TCGA-BR-4368-01A-01D-1158-08	9944670	111576418	69338842	385	19713											
SEMA6A	57556	broad.mit.edu	37	chr5	115813758	115813758	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaaggggaacctttatcAcacaggtagagaacgcaaca	15	5	11	10	1	1	1	1	0	0	1	1	3	1	2	2	4	3	2	2	4	6	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:115813758A>G	uc010jck.2	-	14	2229	c.1520T>C	c.(1519-1521)GTG>GCG	p.V507A	SEMA6A_uc003krx.3_Missense_Mutation_p.V507A|SEMA6A_uc003krw.3_Missense_Mutation_p.V39A|SEMA6A_uc010jcj.2_Missense_Mutation_p.V51A	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	507	Sema.|Extracellular (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		AACCTTTATCACACAGGTAGA	0.448													13	131					0	0	0.001855	0	0		G	115813758	G	G	115813758	3	3	23	1	0	0	0	0	1	0	0	0	14064	159	6	3	1596	3	SEMA6A	5	115813758	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	4237340	115813758	65101502	386	19714											
FTMT	94033	broad.mit.edu	37	chr5	121188033	121188033	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgggaggagaccgagcaCgcggagaagctgatgaggct	10	4	17	10	4	0	4	0	2	0	2	1	8	1	5	2	4	2	3	2	4	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:121188033C>T	uc003kss.2	+	1	384	c.375C>T	c.(373-375)CAC>CAT	p.H125H		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	125	Ferritin-like diiron.	Iron 1.			cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		AGACCGAGCACGCGGAGAAGC	0.587													9	56					0	0	0.001855	0	0		T	121188033	T	T	121188033	2	4	23	1	0	0	0	0	0	0	0	1	6099	535	19	1		1	FTMT	5	121188033	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5374275	121188033	59727227	387	19715											
GRAMD3	65983	broad.mit.edu	37	chr5	125759363	125759363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgctcgggaagagggagaGcaaacttggctcagcccagt	11	6	15	9	1	1	2	1	0	0	2	2	4	1	3	1	3	4	3	1	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:125759363G>A	uc003ktu.2	+	1	495	c.65G>A	c.(64-66)AGC>AAC	p.S22N	GRAMD3_uc011cwt.1_Intron|GRAMD3_uc011cwv.1_Missense_Mutation_p.A16T|GRAMD3_uc011cww.1_5'UTR|GRAMD3_uc011cwx.1_RNA|GRAMD3_uc011cwu.1_Intron	NM_023927	NP_076416	Q96HH9	GRAM3_HUMAN	GRAM domain containing 3 isoform 2	22										central_nervous_system(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0401)|OV - Ovarian serous cystadenocarcinoma(64;0.0604)|all cancers(49;0.108)		AAGAGGGAGAGCAAACTTGGC	0.577													6	20					0	0	0.001984	0	0		A	125759363	A	A	125759363	3	1	23	1	0	0	0	0	1	0	0	0	6767	971	34	2	199	2	GRAMD3	5	125759363	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4571330	125759363	55155897	388	19716											
ADAMTS19	171019	broad.mit.edu	37	chr5	128984535	128984535	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatggtcccagaaaacaatAcagaatatgtgagaatccac	18	8	7	8	0	0	3	0	1	0	3	2	4	2	3	2	1	2	0	2	1	8	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:128984535A>G	uc003kvb.1	+	13	2030	c.2030A>G	c.(2029-2031)TAC>TGC	p.Y677C	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	677	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		AGAAAACAATACAGAATATGT	0.378													17	89					0	0	0.00499	0	0		G	128984535	G	G	128984535	3	3	23	1	0	0	0	0	1	0	0	0	264	391	14	3	2080	3	ADAMTS19	5	128984535	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	3225172	128984535	51930725	389	19717											
C5orf56	441108	broad.mit.edu	37	chr5	131796357	131796357	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccccgtggagtacagccaTgctgtctgctgcttacagcc	6	11	10	14	1	1	0	0	0	1	0	2	1	2	1	4	1	7	4	4	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:131796357T>C	uc003kwy.1	+	4	323	c.192T>C	c.(190-192)CAT>CAC	p.H64H	C5orf56_uc003kwz.1_Intron|C5orf56_uc010jds.1_Intron|IRF1_uc003kxd.2_Intron	NM_001013717	NP_001013739	Q8N8D9	CE056_HUMAN	hypothetical protein LOC441108	64											0						agtacagccatgctgtctgct	0.05													37	153					0	0	0.01441	0	0		C	131796357	C	C	131796357	2	2	23	1	0	0	0	0	0	0	0	1	2315	1461	51	3		3	C5orf56	5	131796357	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2811822	131796357	49118903	390	19718											
C5orf56	441108	broad.mit.edu	37	chr5	131822135	131822135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagacatcgagcgccctcCgaccaaccctgcagcctgca	10	4	9	18	3	0	1	0	0	0	1	2	3	1	1	5	0	5	3	5	0	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:131822135C>T	uc010jds.1	+	4	471	c.296C>T	c.(295-297)CCG>CTG	p.P99L	IRF1_uc003kxd.2_Intron|IRF1_uc003kxa.2_Intron|IRF1_uc003kxb.2_Intron|IRF1_uc010jdt.1_Intron			Q8N8D9	CE056_HUMAN	Homo sapiens full length insert cDNA clone ZA99C08.	Error:Variant_position_missing_in_Q8N8D9_after_alignment											0						GAGCGCCCTCCGACCAACCCT	0.577													6	35					0	0	0.00308	0	0		T	131822135	T	T	131822135	3	4	23	1	0	0	0	0	1	0	0	0	2315	667	23	1		1	C5orf56	5	131822135	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	25778	131822135	49093125	391	19719											
FSTL4	23105	broad.mit.edu	37	chr5	132560966	132560966	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acactgctgatgtggagttcGctcccattggctgcagacag	8	10	12	11	1	0	2	0	1	0	1	2	3	1	3	1	2	2	5	1	2	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:132560966G>A	uc003kyn.1	-	10	1406	c.1188C>T	c.(1186-1188)AGC>AGT	p.S396S	FSTL4_uc003kym.1_Missense_Mutation_p.A3V	NM_015082	NP_055897	Q6MZW2	FSTL4_HUMAN	follistatin-like 4 precursor	396	Ig-like 2.					extracellular region	calcium ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(142;0.244)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TGTGGAGTTCGCTCCCATTGG	0.532													29	99					0	0	0.009535	0	0		A	132560966	A	A	132560966	2	1	23	1	0	0	0	0	0	0	0	1	6093	1078	38	1		1	FSTL4	5	132560966	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	738831	132560966	48354294	392	19720											
PSD2	84249	broad.mit.edu	37	chr5	139193088	139193088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatccagcagcgggcccGtgacagccctgagccagggg	7	4	14	16	2	1	2	1	2	0	0	2	2	2	2	5	3	4	1	5	3	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:139193088G>A	uc003leu.1	+	3	771	c.566G>A	c.(565-567)CGT>CAT	p.R189H		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	189					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCGGGCCCGTGACAGCCCT	0.682													22	59					0	0	0.00278	0	0		A	139193088	A	A	139193088	3	1	23	1	0	0	0	0	1	0	0	0	12669	1145	40	1	572	1	PSD2	5	139193088	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	6632122	139193088	41722172	393	19721											
SLC35A4	113829	broad.mit.edu	37	chr5	139946788	139946788	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgggggtatgccaggcctgGgccgtcccaggcaggcccgc	5	5	17	14	2	0	0	0	0	0	0	1	0	1	0	5	6	1	2	5	6	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:139946788G>T	uc003lgg.1	+	3	762	c.34G>T	c.(34-36)GGC>TGC	p.G12C	APBB3_uc003lgc.1_5'Flank|APBB3_uc003lgd.1_5'Flank|APBB3_uc003lge.1_5'Flank|APBB3_uc003lgf.1_5'Flank|APBB3_uc010jfp.1_5'Flank|APBB3_uc011czi.1_5'Flank|APBB3_uc010jfr.1_5'Flank|SLC35A4_uc003lgh.1_Missense_Mutation_p.G12C	NM_080670	NP_542401	Q96G79	S35A4_HUMAN	solute carrier family 35, member A4	12						Golgi membrane|integral to membrane	sugar:hydrogen symporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCAGGCCTGGGCCGTCCCAG	0.607													24	131					9.39395e-14	1.01622e-13	0.00632	1	0		T	139946788	T	T	139946788	3	4	23	1	0	0	0	0	1	0	0	0	14598	1232	43	5	36	5	SLC35A4	5	139946788	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	753700	139946788	40968472	394	19722											
DND1	373863	broad.mit.edu	37	chr5	140052887	140052887	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgccatacttcctctgcccGttcacctgcaccaggcggat	6	9	8	18	3	2	0	1	0	1	0	3	1	3	1	6	2	3	2	6	2	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140052887G>A	uc003lgt.2	-	2	155	c.111C>T	c.(109-111)AAC>AAT	p.N37N		NM_194249	NP_919225	Q8IYX4	DND1_HUMAN	dead end homolog 1	37					multicellular organismal development|negative regulation of gene silencing by miRNA	cytoplasm|nucleus	AU-rich element binding|nucleotide binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCTCTGCCCGTTCACCTGCA	0.667													13	71					0	0	0.00278	0	0		A	140052887	A	A	140052887	2	1	23	1	0	0	0	0	0	0	0	1	4672	1136	40	1		1	DND1	5	140052887	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	106099	140052887	40862373	395	19723											
PCDHA1	56147	broad.mit.edu	37	chr5	140166202	140166202	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcatccacctggagttgatCgccgacaggccgctgcaggt	8	7	13	13	3	0	1	0	1	0	0	2	3	1	2	4	3	2	4	4	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140166202C>T	uc003lhb.2	+	1	327	c.327C>T	c.(325-327)ATC>ATT	p.I109I	PCDHA1_uc003lha.2_Silent_p.I109I|PCDHA1_uc003lgz.2_Silent_p.I109I	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	109	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGAGTTGATCGCCGACAGGC	0.498													33	114					0	0	0.009535	0	0		T	140166202	T	T	140166202	2	4	23	1	0	0	0	0	0	0	0	1	11538	874	31	1		1	PCDHA1	5	140166202	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	113315	140166202	40749058	396	19724											
PCDHA2	56146	broad.mit.edu	37	chr5	140174554	140174554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattgaggattggtaatggCgtcttctatcagaaggggcc	10	11	13	7	1	3	2	1	1	2	1	3	3	3	3	1	5	0	1	1	5	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140174554C>T	uc003lhd.2	+	1	111	c.5C>T	c.(4-6)GCG>GTG	p.A2V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.A2V|PCDHA2_uc011czy.1_Missense_Mutation_p.A2V	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	2					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGGTAATGGCGTCTTCTATC	0.502													19	86					0	0	0.014323	0	0		T	140174554	T	T	140174554	3	4	23	1	0	0	0	0	1	0	0	0	11543	768	27	1	7	1	PCDHA2	5	140174554	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	8352	140174554	40740706	397	19725											
PCDHA5	56143	broad.mit.edu	37	chr5	140202649	140202649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtgaccgcgcgggacggggGctcgccttcgctgtgggcca	3	6	19	13	6	0	1	0	1	0	0	2	2	0	2	3	5	0	2	3	5	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140202649G>A	uc003lhl.2	+	1	1289	c.1289G>A	c.(1288-1290)GGC>GAC	p.G430D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.G430D|PCDHA5_uc003lhj.1_Missense_Mutation_p.G430D	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	430	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGGACGGGGGCTCGCCTTCG	0.647													30	104					0	0	0.009535	0	0		A	140202649	A	A	140202649	3	1	23	1	0	0	0	0	1	0	0	0	11546	1203	42	2	1291	2	PCDHA5	5	140202649	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	28095	140202649	40712611	398	19726											
PCDHA7	56141	broad.mit.edu	37	chr5	140215225	140215225	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaccgcgagagtgtgtcCgcctatgagctggtggttac	6	10	15	10	3	0	2	0	1	0	1	1	4	1	3	3	3	2	2	3	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140215225C>T	uc003lhq.2	+	1	1257	c.1257C>T	c.(1255-1257)TCC>TCT	p.S419S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.S419S	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	419	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAGTGTGTCCGCCTATGAGC	0.627													53	150					0	0	0.01441	0	0		T	140215225	T	T	140215225	2	4	23	1	0	0	0	0	0	0	0	1	11548	639	23	1		1	PCDHA7	5	140215225	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	12576	140215225	40700035	399	19727											
PCDHA7	56141	broad.mit.edu	37	chr5	140215333	140215333	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacgacaacgccccggcgttCgcgcagcccgagtatacggt	9	5	12	15	8	0	0	0	0	0	0	1	2	0	0	3	2	4	3	3	2	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140215333C>T	uc003lhq.2	+	1	1365	c.1365C>T	c.(1363-1365)TTC>TTT	p.F455F	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.F455F	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	455	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCCGGCGTTCGCGCAGCCCG	0.677													22	83					0	0	0.005443	0	0		T	140215333	T	T	140215333	2	4	23	1	0	0	0	0	0	0	0	1	11548	883	31	1		1	PCDHA7	5	140215333	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	108	140215333	40699927	400	19728											
PCDHAC2	56134	broad.mit.edu	37	chr5	140348144	140348144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgagatggtgcctcgaactgCccctgctggctacctggtca	6	9	12	14	2	1	1	1	0	0	1	2	3	1	1	4	3	5	2	4	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140348144C>T	uc003lii.2	+	1	2033	c.1793C>T	c.(1792-1794)GCC>GTC	p.A598V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Missense_Mutation_p.A598V	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	598	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTCGAACTGCCCCTGCTGGC	0.522													18	57					0	0	0.006122	0	0		T	140348144	T	T	140348144	3	4	23	1	0	0	0	0	1	0	0	0	11552	739	26	2	1795	2	PCDHAC2	5	140348144	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	132811	140348144	40567116	401	19729											
PCDHB1	29930	broad.mit.edu	37	chr5	140431398	140431398	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagtcctggtggagccgctgCagtccttccgggccgaggtc	4	9	15	13	3	0	0	0	0	0	0	4	2	3	1	5	4	2	2	5	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140431398C>T	uc003lik.1	+	1	420	c.343C>T	c.(343-345)CAG>TAG	p.Q115*		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	115	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGAGCCGCTGCAGTCCTTCCG	0.507													4	78					0	0	0.000602	0	0		T	140431398	T	T	140431398	4	4	23	1	0	0	0	0	0	1	0	0	11553	711	25	2	345	2	PCDHB1	5	140431398	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	83254	140431398	40483862	402	19730											
PCDHB1	29930	broad.mit.edu	37	chr5	140431483	140431483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagccgcttttaaagattcCggagagcacccctttgggtt	8	11	12	10	2	0	2	0	0	0	2	1	4	1	3	4	3	2	3	4	3	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140431483C>T	uc003lik.1	+	1	505	c.428C>T	c.(427-429)CCG>CTG	p.P143L		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	143	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTAAAGATTCCGGAGAGCACC	0.552													9	48					0	0	0.006214	0	0		T	140431483	T	T	140431483	3	4	23	1	0	0	0	0	1	0	0	0	11553	652	23	1	430	1	PCDHB1	5	140431483	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	85	140431483	40483777	403	19731											
PCDHB5	26167	broad.mit.edu	37	chr5	140515561	140515561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcacactttcatgttgctaCgcataatcgcggagatggca	10	12	9	10	3	2	1	2	0	0	1	3	2	2	1	0	2	2	4	0	2	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140515561C>T	uc003liq.2	+	1	762	c.545C>T	c.(544-546)ACG>ATG	p.T182M		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	182	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CATGTTGCTACGCATAATCGC	0.502													28	107					0	0	0.007291	0	0		T	140515561	T	T	140515561	3	4	23	1	0	0	0	0	1	0	0	0	11564	536	19	1	547	1	PCDHB5	5	140515561	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	84078	140515561	40399699	404	19732											
PCDHB6	56130	broad.mit.edu	37	chr5	140531365	140531365	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccatcaacgcggacaacggCcacctgtttgccctcaggtc	8	8	9	16	3	2	0	2	0	0	0	4	1	3	1	4	3	3	1	4	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140531365C>T	uc003lir.2	+	1	1527	c.1527C>T	c.(1525-1527)GGC>GGT	p.G509G	PCDHB6_uc011dah.1_Silent_p.G373G	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	509	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGGACAACGGCCACCTGTTTG	0.672													23	126					0	0	0.00623	0	0		T	140531365	T	T	140531365	2	4	23	1	0	0	0	0	0	0	0	1	11565	726	26	2		2	PCDHB6	5	140531365	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	15804	140531365	40383895	405	19733											
PCDHB8	56128	broad.mit.edu	37	chr5	140558115	140558115	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttagatataggccaaaacaAtattgagaactatataatca	19	11	5	6	0	1	2	1	1	0	2	1	3	1	2	1	1	2	0	1	1	11	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140558115A>G	uc011dai.1	+	1	686	c.500A>G	c.(499-501)AAT>AGT	p.N167S	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	167	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCCAAAACAATATTGAGAAC	0.463													25	358					0	0	0.003954	0	0		G	140558115	G	G	140558115	3	3	23	1	0	0	0	0	1	0	0	0	11567	101	4	3	502	3	PCDHB8	5	140558115	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	26750	140558115	40357145	406	19734											
PCDHB8	56128	broad.mit.edu	37	chr5	140559035	140559035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccctgcacatcggcagcGtcagcgccacagacagagac	10	3	11	17	4	1	2	1	0	0	2	2	3	1	2	3	1	3	2	3	1	0	0	rs149925643		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140559035G>A	uc011dai.1	+	1	1606	c.1420G>A	c.(1420-1422)GTC>ATC	p.V474I	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	474	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CATCGGCAGCGTCAGCGCCAC	0.662													28	313					0	0	0.01441	0	0		A	140559035	A	A	140559035	3	1	23	1	0	0	0	0	1	0	0	0	11567	1145	40	1	1422	1	PCDHB8	5	140559035	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	920	140559035	40356225	407	19735											
PCDHB9	56127	broad.mit.edu	37	chr5	140568598	140568598	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccgctgcagaacggctcCgcgccctgcaccgagctggt	6	6	12	17	5	0	1	0	0	0	1	1	2	1	1	4	2	5	5	4	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140568598C>T	uc003liw.1	+	3	1707	c.1707C>T	c.(1705-1707)TCC>TCT	p.S569S		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	569	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGAACGGCTCCGCGCCCTGCA	0.716													11	35					0	0	0.008871	0	0		T	140568598	T	T	140568598	2	4	23	1	0	0	0	0	0	0	0	1	11568	652	23	1		1	PCDHB9	5	140568598	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	9563	140568598	40346662	408	19736											
PCDHB12	56124	broad.mit.edu	37	chr5	140588900	140588900	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggaaaaagaaatgctcttaGaaatcccagagaacagtcct	17	8	8	8	0	1	3	0	0	1	3	3	5	3	4	2	1	2	1	2	1	6	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140588900G>C	uc003liz.2	+	1	610	c.421G>C	c.(421-423)GAA>CAA	p.E141Q	PCDHB12_uc011dak.1_Intron	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	141	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AATGCTCTTAGAAATCCCAGA	0.393													24	123					0	0	0.004656	0	0		C	140588900	C	C	140588900	3	2	23	1	0	0	0	0	1	0	0	0	11556	943	33	5	423	5	PCDHB12	5	140588900	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	20302	140588900	40326360	409	19737											
PCDHGA1	56114	broad.mit.edu	37	chr5	140712592	140712592	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actatgcggacacactcatcAgccaggagagctgtgagaaa	14	6	11	10	1	2	2	2	1	0	2	2	5	2	3	1	2	3	1	1	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140712592A>G	uc003lji.1	+	1	2341	c.2341A>G	c.(2341-2343)AGC>GGC	p.S781G	PCDHGA1_uc011dan.1_Missense_Mutation_p.S781G	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	781	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACACTCATCAGCCAGGAGAG	0.498													39	137					0	0	0.01441	0	0		G	140712592	G	G	140712592	3	3	23	1	0	0	0	0	1	0	0	0	11569	188	7	3	2343	3	PCDHGA1	5	140712592	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	123692	140712592	40202668	410	19738											
PCDHGB1	56104	broad.mit.edu	37	chr5	140731932	140731932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtgctctttctcctcgCggtgattctagcgatcgccc	4	13	9	15	4	4	1	1	1	3	0	7	2	4	1	2	1	2	1	2	1	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140731932C>T	uc003ljo.1	+	1	2105	c.2105C>T	c.(2104-2106)GCG>GTG	p.A702V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGA4_uc003ljq.1_5'Flank|PCDHGB1_uc011daq.1_Missense_Mutation_p.A702V|PCDHGA4_uc003ljp.1_5'Flank	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	702	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTCTCCTCGCGGTGATTCTA	0.617													56	172					0	0	0.01441	0	0		T	140731932	T	T	140731932	3	4	23	1	0	0	0	0	1	0	0	0	11581	768	27	1	2107	1	PCDHGB1	5	140731932	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	19340	140731932	40183328	411	19739											
PCDHGA10	56106	broad.mit.edu	37	chr5	140794669	140794669	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggacagagacgcgctcAagcaaagcctcgtagtggcc	10	6	13	12	3	1	1	1	0	0	1	2	3	1	2	2	2	3	4	2	2	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140794669A>G	uc003lkl.1	+	1	1927	c.1927A>G	c.(1927-1929)AAG>GAG	p.K643E	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.K643E|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	643	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGACGCGCTCAAGCAAAGCCT	0.697													24	89					0	0	0.009535	0	0		G	140794669	G	G	140794669	3	3	23	1	0	0	0	0	1	0	0	0	11570	131	5	3	1929	3	PCDHGA10	5	140794669	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	62737	140794669	40120591	412	19740											
PCDHGA12	26025	broad.mit.edu	37	chr5	140811073	140811073	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcagcccgagtaccgcgcGagcgttccggagaatctggc	7	6	14	14	6	2	1	1	0	1	1	3	4	3	1	3	2	3	3	3	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140811073G>A	uc003lkt.1	+	1	916	c.747G>A	c.(745-747)GCG>GCA	p.A249A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.A249A	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	249	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTACCGCGCGAGCGTTCCGG	0.632													22	81					0	0	0.00333	0	0		A	140811073	A	A	140811073	2	1	23	1	0	0	0	0	0	0	0	1	11572	1045	37	1		1	PCDHGA12	5	140811073	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	16404	140811073	40104187	413	19741											
PCDHGA12	26025	broad.mit.edu	37	chr5	140812291	140812291	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggccagccccctctctcCgccactgtcacgctcaccgt	5	7	7	22	4	3	0	2	0	1	0	5	0	4	0	6	1	1	1	6	1	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:140812291C>T	uc003lkt.1	+	1	2134	c.1965C>T	c.(1963-1965)TCC>TCT	p.S655S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.S655S	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	655	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCCTCTCTCCGCCACTGTCA	0.682													13	69					0	0	0.00333	0	0		T	140812291	T	T	140812291	2	4	23	1	0	0	0	0	0	0	0	1	11572	639	23	1		1	PCDHGA12	5	140812291	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1218	140812291	40102969	414	19742											
PRELID2	153768	broad.mit.edu	37	chr5	145199532	145199532	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttaaaatttctggaaccacGttctgacagattgcaatcct	12	13	6	10	1	2	2	0	1	2	1	3	3	3	3	2	1	2	2	2	1	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:145199532G>A	uc003lnp.1	-	3	236	c.183C>T	c.(181-183)AAC>AAT	p.N61N	PRELID2_uc003lnq.1_Silent_p.N61N|PRELID2_uc003lno.1_Silent_p.N32N|PRELID2_uc003lnr.1_Silent_p.N61N	NM_182960	NP_892005	Q8N945	PRLD2_HUMAN	PRELI domain containing 2 isoform a	61	PRELI/MSF1.										0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTGGAACCACGTTCTGACAGA	0.284													37	94					0	0	0.00623	0	0		A	145199532	A	A	145199532	2	1	23	1	0	0	0	0	0	0	0	1	12494	1136	40	1		1	PRELID2	5	145199532	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4387241	145199532	35715728	415	19743											
DPYSL3	1809	broad.mit.edu	37	chr5	146788290	146788290	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttcatcccctgtaacttaCctcttctggcctgctcagta	6	14	5	16	0	4	0	2	0	2	0	5	0	5	0	5	1	3	3	5	1	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:146788290C>T	uc003lon.1	-	7	800	c.690_splice	c.e7+1	p.E230_splice	DPYSL3_uc003loo.2_Splice_Site_p.E344_splice	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3						axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGTAACTTACCTCTTCTGGC	0.433													21	73					0	0	0.00278	0	0		T	146788290	T	T	146788290	5	4	23	1	0	0	0	0	0	0	1	0	4754	521	18	4	1053	4	DPYSL3	5	146788290	Splice_Site	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1588758	146788290	34126970	416	19744											
FBXO38	81545	broad.mit.edu	37	chr5	147813209	147813209	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttgtaggttcttgtattAaaatccaagaatcttgttgg	10	17	9	5	0	2	1	0	0	2	1	3	1	3	1	1	2	1	5	1	2	6	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:147813209A>G	uc003lpf.1	+	17	2886	c.2766A>G	c.(2764-2766)TTA>TTG	p.L922L	FBXO38_uc003lpg.1_Silent_p.L847L|FBXO38_uc003lph.2_Silent_p.L677L	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	922						cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCTTGTATTAAAATCCAAGA	0.333													36	112					0	0	0.003755	0	0		G	147813209	G	G	147813209	2	3	23	1	0	0	0	0	0	0	0	1	5760	359	13	3		3	FBXO38	5	147813209	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1024919	147813209	33102051	417	19745											
ADRB2	154	broad.mit.edu	37	chr5	148206896	148206896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caggccttacctccttcttgCccattcagatgcactggtac	7	12	7	15	0	2	1	1	0	1	1	3	1	3	1	4	2	4	2	4	2	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:148206896C>T	uc003lpr.1	+	1	741	c.502C>T	c.(502-504)CCC>TCC	p.P168S	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	168	Helical; Name=4.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	CTCCTTCTTGCCCATTCAGAT	0.517													54	153					0	0	0.01441	0	0		T	148206896	T	T	148206896	3	4	23	1	0	0	0	0	1	0	0	0	341	739	26	2	504	2	ADRB2	5	148206896	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	393687	148206896	32708364	418	19746											
FAT2	2196	broad.mit.edu	37	chr5	150931050	150931050	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtggcaatggtgcgggacCcatctgtcacctcaacagtc	8	9	12	12	1	3	0	2	0	1	0	4	1	3	1	2	3	2	1	2	3	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:150931050C>T	uc003lue.3	-	6	4287	c.4274G>A	c.(4273-4275)GGG>GAG	p.G1425E	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1425	Extracellular (Potential).|Cadherin 12.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGTGCGGGACCCATCTGTCAC	0.532													28	82					0	0	0.007291	0	0		T	150931050	T	T	150931050	3	4	23	1	0	0	0	0	1	0	0	0	5704	623	22	4	8847	4	FAT2	5	150931050	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2724154	150931050	29984210	419	19747											
FAT2	2196	broad.mit.edu	37	chr5	150946645	150946645	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtttgagggatatcactccGgagaaatgatttagatcaaa	14	11	10	6	2	2	4	2	2	0	2	3	6	3	5	1	2	0	1	1	2	4	4	rs79269043	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:150946645G>A	uc003lue.3	-	1	1861	c.1848C>T	c.(1846-1848)TCC>TCT	p.S616S	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Silent_p.S616S	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	616	Extracellular (Potential).|Cadherin 5.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATATCACTCCGGAGAAATGAT	0.403													28	71					0	0	0.007291	0	0		A	150946645	A	A	150946645	2	1	23	1	0	0	0	0	0	0	0	1	5704	1103	39	1		1	FAT2	5	150946645	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	15595	150946645	29968615	420	19748											
FAM71B	153745	broad.mit.edu	37	chr5	156590335	156590335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttttgatagctgctcccGccagcgctgtggtcacttga	6	13	11	11	2	1	2	1	2	0	0	2	3	2	2	2	1	3	3	2	1	1	4	rs146575394		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:156590335G>A	uc003lwn.2	-	2	1041	c.941C>T	c.(940-942)GCG>GTG	p.A314V		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	314	Ala-rich.					nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AGCTGCTCCCGCCAGCGCTGT	0.527													41	145					0	0	0.007835	0	0		A	156590335	A	A	156590335	3	1	23	1	0	0	0	0	1	0	0	0	5622	1087	38	1	880	1	FAM71B	5	156590335	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5643690	156590335	24324925	421	19749											
EBF1	1879	broad.mit.edu	37	chr5	158204430	158204430	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggttcttacctgtataaaTgaatctgcctggtgttcctt	7	17	9	8	0	2	1	0	1	2	0	3	1	3	1	3	2	2	3	3	2	5	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:158204430T>C	uc010jip.2	-	10	1329	c.1027A>G	c.(1027-1029)ATT>GTT	p.I343V	EBF1_uc011ddw.1_Missense_Mutation_p.I211V|EBF1_uc011ddx.1_Missense_Mutation_p.I344V|EBF1_uc003lxl.3_Missense_Mutation_p.I312V	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	343	IPT/TIG.				multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCTGTATAAATGAATCTGCCT	0.473			T	HMGA2	lipoma								22	87					0	0	0.012319	0	0		C	158204430	C	C	158204430	3	2	23	1	0	0	0	0	1	0	0	0	4886	1464	51	3	776	3	EBF1	5	158204430	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1614095	158204430	22710830	422	19750											
GABRA6	2559	broad.mit.edu	37	chr5	161116284	161116284	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatcaatgctgactgtccCatgaggctggttaactttcc	9	12	8	12	0	1	2	1	2	0	0	3	2	3	2	3	2	2	3	3	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:161116284C>T	uc003lyu.2	+	5	809	c.471C>T	c.(469-471)CCC>CCT	p.P157P	GABRA6_uc003lyv.2_5'Flank	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	157	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CTGACTGTCCCATGAGGCTGG	0.413										TCGA Ovarian(5;0.080)			13	90					0	0	0.003163	0	0		T	161116284	T	T	161116284	2	4	23	1	0	0	0	0	0	0	0	1	6179	581	21	4		4	GABRA6	5	161116284	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2911854	161116284	19798976	423	19751											
HMMR	3161	broad.mit.edu	37	chr5	162909718	162909718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catcattacaggaaaaagcgGccaaggctgggaaaaatgca	17	5	11	8	1	1	0	1	0	0	0	1	2	1	2	1	4	3	2	1	4	6	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:162909718G>A	uc003lzf.2	+	13	1635	c.1453G>A	c.(1453-1455)GCC>ACC	p.A485T	HMMR_uc003lzh.2_Missense_Mutation_p.A486T|HMMR_uc003lzg.2_Missense_Mutation_p.A470T|HMMR_uc011dem.1_Missense_Mutation_p.A399T|uc003lzi.2_RNA	NM_012484	NP_036616	O75330	HMMR_HUMAN	hyaluronan-mediated motility receptor isoform b	485						cell surface|cytoplasm	hyaluronic acid binding				0	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0296)|OV - Ovarian serous cystadenocarcinoma(192;0.0423)|Epithelial(171;0.0848)		GGAAAAAGCGGCCAAGGCTGG	0.373													18	59					0	0	0.007413	0	0		A	162909718	A	A	162909718	3	1	23	1	0	0	0	0	1	0	0	0	7258	1203	42	2	1506	2	HMMR	5	162909718	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1793434	162909718	18005542	424	19752											
WWC1	23286	broad.mit.edu	37	chr5	167850695	167850695	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagctggactcagagctgCagagcaaggtggagttcctg	10	7	15	9	0	1	2	1	0	0	2	2	4	2	4	1	3	5	6	1	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:167850695C>T	uc003lzu.2	+	11	1525	c.1432C>T	c.(1432-1434)CAG>TAG	p.Q478*	WWC1_uc003lzv.2_Nonsense_Mutation_p.Q478*|WWC1_uc011den.1_Nonsense_Mutation_p.Q478*|WWC1_uc003lzw.2_Nonsense_Mutation_p.Q277*	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	478					cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		CTCAGAGCTGCAGAGCAAGGT	0.622													27	135					0	0	0.00632	0	0		T	167850695	T	T	167850695	4	4	23	1	0	0	0	0	0	1	0	0	17437	711	25	2	1474	2	WWC1	5	167850695	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4940977	167850695	13064565	425	19753											
LCP2	3937	broad.mit.edu	37	chr5	169697783	169697783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggatggagttctgcagagCttcctcgtcattggagggtg	7	11	15	8	1	2	1	1	0	1	1	4	4	3	4	1	4	2	3	1	4	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:169697783C>T	uc003man.1	-	7	670	c.463G>A	c.(463-465)GCT>ACT	p.A155T	LCP2_uc011det.1_5'UTR|LCP2_uc010jjo.1_5'Flank	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	155					immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		TTCTGCAGAGCTTCCTCGTCA	0.577													17	52					0	0	0.006122	0	0		T	169697783	T	T	169697783	3	4	23	1	0	0	0	0	1	0	0	0	8708	797	28	2	1198	2	LCP2	5	169697783	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1847088	169697783	11217477	426	19754											
STK10	6793	broad.mit.edu	37	chr5	171481591	171481591	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgcagctgctgcagctcGctcatgttgctctcacactg	6	11	9	15	1	2	0	2	0	1	0	4	0	2	0	1	0	6	8	1	0	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:171481591G>A	uc003mbo.1	-	17	2934	c.2634C>T	c.(2632-2634)AGC>AGT	p.S878S		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	878	Gln-rich.|Potential.						ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GCTGCAGCTCGCTCATGTTGC	0.627													29	83					0	0	0.007291	0	0		A	171481591	A	A	171481591	2	1	23	1	0	0	0	0	0	0	0	1	15311	1078	38	1		1	STK10	5	171481591	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1783808	171481591	9433669	427	19755											
KIAA1191	57179	broad.mit.edu	37	chr5	175774604	175774604	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccctggaaagagggctcTagaagccagtgggtgtgagc	11	7	15	8	0	1	3	0	1	1	2	2	4	2	4	2	3	2	1	2	3	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:175774604T>C	uc003mdw.2	-	9	1289	c.917A>G	c.(916-918)TAG>TGG	p.*306W	KIAA1191_uc003mdx.2_Nonstop_Mutation_p.*287W|KIAA1191_uc003mdy.2_Nonstop_Mutation_p.*306W|KIAA1191_uc003mea.2_Nonstop_Mutation_p.*99W|KIAA1191_uc003mdz.2_RNA	NM_020444	NP_065177	Q96A73	K1191_HUMAN	hypothetical protein LOC57179 isoform a	306							protein binding			ovary(1)	1	all_cancers(89;0.00575)|Renal(175;0.000269)|Lung NSC(126;0.0105)|all_lung(126;0.0168)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.101)		AAGAGGGCTCTAGAAGCCAGT	0.483													5	181					0	0	0.000602	0	0		C	175774604	C	C	175774604	4	2	23	1	0	0	0	0	0	0	0	0	8228	1535	53	3	4	3	KIAA1191	5	175774604	Nonstop_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	4293013	175774604	5140656	428	19756											
EIF4E1B	253314	broad.mit.edu	37	chr5	176070674	176070674	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaagaatgaccgcagcCgggcctggcaggacaacctg	10	6	12	13	2	2	2	1	1	1	1	2	3	2	3	4	3	2	2	4	3	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:176070674C>T	uc010jkf.1	+	5	819	c.235C>T	c.(235-237)CGG>TGG	p.R79W		NM_001099408	NP_001092878	A6NMX2	I4E1B_HUMAN	eukaryotic translation initiation factor 4E	79					regulation of translation	cytoplasm|mRNA cap binding complex	translation initiation factor activity				0	all_cancers(89;0.00185)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGACCGCAGCCGGGCCTGGCA	0.647													6	21					0	0	0.001168	0	0		T	176070674	T	T	176070674	3	4	23	1	0	0	0	0	1	0	0	0	5037	643	23	1	245	1	EIF4E1B	5	176070674	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	296070	176070674	4844586	429	19757											
NSD1	64324	broad.mit.edu	37	chr5	176673695	176673695	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggcactaccaagatattTgacaagccaaggaagcgaaa	18	6	9	8	1	0	2	0	1	0	1	0	4	0	3	2	2	3	1	2	2	8	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:176673695T>C	uc003mfr.3	+	10	4533	c.4395T>C	c.(4393-4395)TTT>TTC	p.F1465F	NSD1_uc003mft.3_Silent_p.F1196F|NSD1_uc003mfs.1_Silent_p.F1362F|NSD1_uc011dfx.1_Silent_p.F1113F	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1465					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		CCAAGATATTTGACAAGCCAA	0.398			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			5	48					0	0	0.000602	0	0		C	176673695	C	C	176673695	2	2	23	1	0	0	0	0	0	0	0	1	10688	1809	63	3		3	NSD1	5	176673695	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	603021	176673695	4241565	430	19758											
ADAMTS2	9509	broad.mit.edu	37	chr5	178555066	178555066	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacattcagtgagtcctcAtggatcatgtatttgtacgt	9	15	9	8	2	3	1	3	1	0	0	5	3	4	2	1	1	1	2	1	1	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:178555066A>G	uc003mjw.2	-	17	2511	c.2511T>C	c.(2509-2511)CAT>CAC	p.H837H		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	837	Spacer.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		GTGAGTCCTCATGGATCATGT	0.572													8	109					0	0	0.00308	0	0		G	178555066	G	G	178555066	2	3	23	1	0	0	0	0	0	0	0	1	265	214	8	3		3	ADAMTS2	5	178555066	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1881371	178555066	2360194	431	19759											
GFPT2	9945	broad.mit.edu	37	chr5	179751867	179751867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagagcttgtatttgctccGgactccgatgagcagggggc	7	9	16	9	2	0	2	0	1	0	1	2	5	2	3	2	4	3	4	2	4	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:179751867G>A	uc003mlw.1	-	8	723	c.625C>T	c.(625-627)CGG>TGG	p.R209W		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	209	Glutamine amidotransferase type-2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	TATTTGCTCCGGACTCCGATG	0.547													4	111					0	0	0.001168	0	0		A	179751867	A	A	179751867	3	1	23	1	0	0	0	0	1	0	0	0	6361	1115	39	1	1471	1	GFPT2	5	179751867	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1196801	179751867	1163393	432	19760											
FLT4	2324	broad.mit.edu	37	chr5	180041166	180041166	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaggggccatccacttcAggggcagccgggcctgggga	6	7	16	12	1	2	0	2	0	0	0	3	1	3	1	4	7	1	1	4	7	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:180041166A>G	uc003mma.3	-	24	3312	c.3233T>C	c.(3232-3234)CTG>CCG	p.L1078P	FLT4_uc003mlz.3_Missense_Mutation_p.L1078P	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	1078	Cytoplasmic (Potential).|Protein kinase.				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	CATCCACTTCAGGGGCAGCCG	0.617									Congenital_Hereditary_Lymphedema				5	40					0	0	0.013537	0	0		G	180041166	G	G	180041166	3	3	23	1	0	0	0	0	1	0	0	0	5958	188	7	3	894	3	FLT4	5	180041166	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	289299	180041166	874094	433	19761											
MGAT1	4245	broad.mit.edu	37	chr5	180219105	180219105	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggccgccgcatccagtcGtcccagaaggcctttggcca	6	7	11	17	4	0	1	0	0	0	1	4	1	3	1	7	3	0	1	7	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr5:180219105G>A	uc003mmg.3	-	2	1362	c.867C>T	c.(865-867)GAC>GAT	p.D289D	MGAT1_uc010jlf.2_Silent_p.D289D|MGAT1_uc010jlg.2_Silent_p.D289D|MGAT1_uc003mmh.3_Silent_p.D289D|MGAT1_uc010jlh.2_Silent_p.D289D|MGAT1_uc003mmi.3_Silent_p.D289D	NM_002406	NP_002397	P26572	MGAT1_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	289	Lumenal (Potential).	Proton acceptor (Potential).			post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(1)	1	all_cancers(89;1.11e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.0027)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00356)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCATCCAGTCGTCCCAGAAGG	0.662													6	24					0	0	0.008291	0	0		A	180219105	A	A	180219105	2	1	23	1	0	0	0	0	0	0	0	1	9560	1136	40	1		1	MGAT1	5	180219105	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	177939	180219105	696155	434	19762											
DUSP22	56940	broad.mit.edu	37	chr6	348224	348224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcctgtgccaaccccaacGtgggcttccagagacagctc	9	7	10	15	1	0	1	0	0	0	1	3	3	2	1	5	1	4	2	5	1	2	1	rs140673019		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:348224G>A	uc003msx.2	+	6	824	c.385G>A	c.(385-387)GTG>ATG	p.V129M	DUSP22_uc011dhn.1_Missense_Mutation_p.V129M|DUSP22_uc003msy.1_Missense_Mutation_p.V86M	NM_020185	NP_064570	Q9NRW4	DUS22_HUMAN	dual specificity phosphatase 22	129	Tyrosine-protein phosphatase.				apoptosis|cell proliferation|inactivation of MAPK activity|multicellular organismal development|positive regulation of JNK cascade|regulation of cell proliferation|transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(77;0.228)	Breast(5;0.0249)|all_hematologic(90;0.0489)		OV - Ovarian serous cystadenocarcinoma(45;0.0277)|BRCA - Breast invasive adenocarcinoma(62;0.0669)		CAACCCCAACGTGGGCTTCCA	0.572													19	244					0	0	0.010504	0	0		A	348224	A	A	348224	3	1	23	1	0	0	0	0	1	0	0	0	4827	1145	40	1	407	1	DUSP22	6	348224	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08		348224	170766843	435	19763											
IRF4	3662	broad.mit.edu	37	chr6	397130	397130	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcacaactacatgatgcCacccctcgaccgaagctgga	11	7	9	14	2	1	1	1	1	0	0	2	4	1	2	4	2	4	2	4	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:397130C>A	uc003msz.3	+	5	628	c.515C>A	c.(514-516)CCA>CAA	p.P172Q	IRF4_uc010jne.1_Missense_Mutation_p.P172Q|IRF4_uc003mta.3_RNA|IRF4_uc003mtb.3_Missense_Mutation_p.P171Q|IRF4_uc003mtc.1_Missense_Mutation_p.P2Q	NM_002460	NP_002451	Q15306	IRF4_HUMAN	interferon regulatory factor 4	172					interferon-gamma-mediated signaling pathway|positive regulation of interleukin-10 biosynthetic process|positive regulation of interleukin-13 biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of transcription, DNA-dependent|regulation of T-helper cell differentiation|T cell activation|type I interferon-mediated signaling pathway	cytoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1		Breast(5;0.0155)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.03)|BRCA - Breast invasive adenocarcinoma(62;0.0702)		TACATGATGCCACCCCTCGAC	0.582			T	IGH@	MM 								7	246					8.12818e-05	8.3519e-05	0.001984	1	0		A	397130	A	A	397130	3	1	23	1	0	0	0	0	1	0	0	0	7848	594	21	5	529	5	IRF4	6	397130	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	48906	397130	170717937	436	19764											
NQO2	4835	broad.mit.edu	37	chr6	3012850	3012850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaagcaaaggtctctggCtagcgacatcactgatgagc	12	8	10	11	1	2	2	1	2	1	0	3	3	2	2	0	2	4	2	0	2	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:3012850C>T	uc003mus.2	+	4	583	c.245C>T	c.(244-246)GCT>GTT	p.A82V	NQO2_uc003mup.1_Missense_Mutation_p.A82V|NQO2_uc003mut.2_Missense_Mutation_p.A82V	NM_000904	NP_000895	P16083	NQO2_HUMAN	NAD(P)H dehydrogenase, quinone 2	82						cytoplasm|nucleus	coenzyme binding|dihydronicotinamide riboside quinone reductase activity|electron carrier activity|metal ion binding|NADPH dehydrogenase (quinone) activity			ovary(1)	1	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Menadione(DB00170)|NADH(DB00157)	AGGTCTCTGGCTAGCGACATC	0.418													35	72					0	0	0.004289	0	0		T	3012850	T	T	3012850	3	4	23	1	0	0	0	0	1	0	0	0	10631	797	28	2	255	2	NQO2	6	3012850	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2615720	3012850	168102217	437	19765											
TUBB2A	7280	broad.mit.edu	37	chr6	3154797	3154797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtggtcagcttcagggtgCggaagcagatgtcatacagg	9	8	17	7	1	3	1	3	0	0	1	3	2	3	2	0	5	4	2	0	5	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:3154797C>T	uc003mvc.2	-	4	724	c.638G>A	c.(637-639)CGC>CAC	p.R213H	TUBB2A_uc003mvb.2_Missense_Mutation_p.R206H|TUBB2A_uc003mvd.2_Missense_Mutation_p.R176H	NM_001069	NP_001060	Q13885	TBB2A_HUMAN	tubulin, beta 2	213					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			skin(1)	1	Ovarian(93;0.0386)	all_hematologic(90;0.0895)				CTTCAGGGTGCGGAAGCAGAT	0.612													28	130					0	0	0.005524	0	0		T	3154797	T	T	3154797	3	4	23	1	0	0	0	0	1	0	0	0	16780	768	27	1	703	1	TUBB2A	6	3154797	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	141947	3154797	167960270	438	19766											
PRPF4B	8899	broad.mit.edu	37	chr6	4052975	4052975	+	Frame_Shift_Del	DEL	A	-	-																															atgaacttacgagaggtgttAaaaaaatatggtaaagatgt																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:4052975delA	uc003mvv.2	+	11	2425	c.2334delA	c.(2332-2334)TTAfs	p.L778fs	PRPF4B_uc003mvw.2_RNA|C6orf146_uc010jnq.1_Intron|PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	778	Protein kinase.					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				GAGAGGTGTTAAAAAAATATG	0.299													17	36	---	---	---	---						.	-	4052975	-	-	4052975	7	5	23	1	0	1	0	1	0	0	0	0	12595	359	13	0	2376	0	PRPF4B	6	4052975	Frame_Shift_Del	DEL	A	TCGA-BR-4368-01A-01D-1158-08	898178	4052975	167062092	439	19767											
RREB1	6239	broad.mit.edu	37	chr6	7182150	7182150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacccctgtcccaatgacGtcaagttcgcccgctggctt	8	10	8	15	3	1	1	1	1	0	0	3	1	2	1	4	1	1	3	4	1	4	3	rs149124719		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:7182150G>A	uc003mxc.2	+	4	396	c.6G>A	c.(4-6)ACG>ACA	p.T2T	RREB1_uc010jnw.2_Silent_p.T2T|RREB1_uc003mxb.2_Silent_p.T2T|RREB1_uc010jnx.2_Silent_p.T2T|RREB1_uc003mxd.2_Silent_p.T2T	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	2					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				TCCCAATGACGTCAAGTTCGC	0.478													56	310					0	0	0.01441	0	0		A	7182150	A	A	7182150	2	1	23	1	0	0	0	0	0	0	0	1	13704	1132	40	1		1	RREB1	6	7182150	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3129175	7182150	163932917	440	19768											
TXNDC5	81567	broad.mit.edu	37	chr6	7889011	7889011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccgtcgctccagtctctGtgcgctgcagctgcgactcc	3	11	10	17	4	2	0	0	0	2	0	7	1	4	0	3	0	4	4	3	0	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:7889011G>A	uc003mxv.2	-	7	922	c.890C>T	c.(889-891)ACA>ATA	p.T297I	TXNDC5_uc003mxw.2_Missense_Mutation_p.T254I|TXNDC5_uc010jnz.2_Missense_Mutation_p.T189I|TXNDC5_uc010joa.1_Missense_Mutation_p.T189I	NM_030810	NP_110437	Q8NBS9	TXND5_HUMAN	thioredoxin domain containing 5 isoform 1	297					anti-apoptosis|cell redox homeostasis|cellular membrane organization|glycerol ether metabolic process|post-Golgi vesicle-mediated transport	endoplasmic reticulum lumen|lysosomal lumen	electron carrier activity|isomerase activity|protein disulfide oxidoreductase activity				0	Ovarian(93;0.0398)					TCCAGTCTCTGTGCGCTGCAG	0.652													37	223					0	0	0.013114	0	0		A	7889011	A	A	7889011	3	1	23	1	0	0	0	0	1	0	0	0	16825	1377	48	4	424	4	TXNDC5	6	7889011	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	706861	7889011	163226056	441	19769											
TFAP2A	7020	broad.mit.edu	37	chr6	10402804	10402804	+	Frame_Shift_Del	DEL	T	-	-																															tttaatcctattttgtccagTttttctcttaaagatcttcc																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:10402804delT	uc003myr.2	-	5	1056	c.804delA	c.(802-804)AAAfs	p.K268fs	TFAP2A_uc003myq.2_Frame_Shift_Del_p.K262fs|TFAP2A_uc003mys.2_RNA|TFAP2A_uc011dih.1_Frame_Shift_Del_p.K268fs|TFAP2A_uc003myt.2_Frame_Shift_Del_p.K264fs|TFAP2A_uc003myu.1_Frame_Shift_Del_p.K268fs	NM_003220	NP_003211	P05549	AP2A_HUMAN	transcription factor AP-2 alpha isoform a	268					ectoderm development|positive regulation of bone mineralization|positive regulation of tooth mineralization|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	centrosome|Golgi apparatus|nucleus	chromatin binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding			ovary(1)	1	Breast(50;0.0427)|Ovarian(93;0.0991)	all_hematologic(90;0.107)				TTTTGTCCAGTTTTTCTCTTA	0.423													19	44	---	---	---	---						.	-	10402804	-	-	10402804	7	5	23	1	0	1	0	1	0	0	0	0	15812	1722	60	0	521	0	TFAP2A	6	10402804	Frame_Shift_Del	DEL	T	TCGA-BR-4368-01A-01D-1158-08	2513793	10402804	160712263	442	19770											
HIST1H2AA	221613	broad.mit.edu	37	chr6	25726410	25726410	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcagtcttcttgggcagcaGcactgcctgaatgttaggca	8	11	11	11	0	3	1	1	1	2	0	3	1	3	1	1	2	3	5	1	2	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:25726410G>A	uc003nfc.2	-	1	381	c.346C>T	c.(346-348)CTG>TTG	p.L116L	HIST1H2BA_uc003nfd.2_5'Flank	NM_170745	NP_734466	Q96QV6	H2A1A_HUMAN	histone cluster 1, H2aa	116					nucleosome assembly	nucleosome|nucleus	DNA binding				0						TTGGGCAGCAGCACTGCCTGA	0.493													67	319					0	0	0.01441	0	0		A	25726410	A	A	25726410	2	1	23	1	0	0	0	0	0	0	0	1	7144	962	34	2		2	HIST1H2AA	6	25726410	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	15323606	25726410	145388657	443	19771											
BTN2A1	11120	broad.mit.edu	37	chr6	26459819	26459819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgctgaggacatggaggtgCggtggttccggtctcagttc	6	11	16	8	2	1	1	1	1	1	0	4	3	2	3	1	6	2	3	1	6	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:26459819C>T	uc003nib.1	+	3	405	c.193C>T	c.(193-195)CGG>TGG	p.R65W	BTN2A1_uc003nic.1_Missense_Mutation_p.R65W|BTN2A1_uc003nid.1_5'UTR|BTN2A1_uc011dko.1_Missense_Mutation_p.R4W	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1	65	Extracellular (Potential).|Ig-like V-type.				lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						CATGGAGGTGCGGTGGTTCCG	0.547													7	102					0	0	0.004482	0	0		T	26459819	T	T	26459819	3	4	23	1	0	0	0	0	1	0	0	0	1563	759	27	1	199	1	BTN2A1	6	26459819	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	733409	26459819	144655248	444	19772											
HIST1H4I	8294	broad.mit.edu	37	chr6	27107305	27107305	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatccgggacgccgtgacctAcacggagcacgccaagcgca	10	3	13	15	6	0	1	0	1	0	0	1	4	1	3	4	2	3	2	4	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:27107305A>G	uc003niy.1	+	1	218	c.218A>G	c.(217-219)TAC>TGC	p.Y73C	HIST1H2BK_uc003nix.1_Intron	NM_003495	NP_003486	P62805	H4_HUMAN	histone cluster 1, H4i	73					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			lung(1)	1						GCCGTGACCTACACGGAGCAC	0.642			T	BCL6	NHL								17	105					0	0	0.004007	0	0		G	27107305	G	G	27107305	3	3	23	1	0	0	0	0	1	0	0	0	7189	391	14	3	220	3	HIST1H4I	6	27107305	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	647486	27107305	144007762	445	19773											
ZNF165	7718	broad.mit.edu	37	chr6	28056594	28056594	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaatacagtcagaggtgaAataataagccacgatggatg	19	7	10	5	1	1	2	1	1	0	1	1	4	1	3	1	2	2	0	1	2	6	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:28056594A>G	uc003nkg.2	+	5	1888	c.804A>G	c.(802-804)GAA>GAG	p.E268E	ZNF165_uc003nkh.2_Silent_p.E268E|ZNF165_uc003nki.3_Silent_p.E268E|ZSCAN12P1_uc003nkj.3_5'Flank	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	268					viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TCAGAGGTGAAATAATAAGCC	0.423													3	105					0	0	0.004672	0	0		G	28056594	G	G	28056594	2	3	23	1	0	0	0	0	0	0	0	1	17765	11	1	3		3	ZNF165	6	28056594	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	949289	28056594	143058473	446	19774											
ZNF165	7718	broad.mit.edu	37	chr6	28057166	28057166	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaaccctatgaatgcaGtgagtgtggaagagccttca	15	8	11	7	0	1	4	1	2	0	2	1	5	1	5	2	1	3	1	2	1	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:28057166G>T	uc003nkg.2	+	5	2460	c.1376G>T	c.(1375-1377)AGT>ATT	p.S459I	ZNF165_uc003nkh.2_Missense_Mutation_p.S459I|ZNF165_uc003nki.3_Missense_Mutation_p.S459I|ZSCAN12P1_uc003nkj.3_5'Flank	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	459	C2H2-type 6.				viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TATGAATGCAGTGAGTGTGGA	0.408													28	57					2.12542e-12	2.28891e-12	0.00632	1	0		T	28057166	T	T	28057166	3	4	23	1	0	0	0	0	1	0	0	0	17765	1029	36	5	1386	5	ZNF165	6	28057166	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	572	28057166	143057901	447	19775											
RNF39	80352	broad.mit.edu	37	chr6	30043318	30043318	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggacacgtcgccagctgCtccagacgctccaccagccc	9	4	10	18	3	0	2	0	0	0	2	3	3	2	3	5	1	3	3	5	1	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:30043318C>T	uc003npe.2	-	1	311	c.249G>A	c.(247-249)GAG>GAA	p.E83E	RNF39_uc003npd.2_Silent_p.E83E	NM_025236	NP_079512	Q9H2S5	RNF39_HUMAN	ring finger protein 39 isoform 1	83						cytoplasm	zinc ion binding				0						TCGCCAGCTGCTCCAGACGCT	0.716													6	10					0	0	0.001168	0	0		T	30043318	T	T	30043318	2	4	23	1	0	0	0	0	0	0	0	1	13516	796	28	2		2	RNF39	6	30043318	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1986152	30043318	141071749	448	19776											
DPCR1	135656	broad.mit.edu	37	chr6	30919763	30919763	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacacccagaaaagaccacGtcaaccacagagaaaaccac	20	1	6	14	1	1	3	1	0	0	3	1	5	1	3	4	0	3	0	4	0	6	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:30919763G>A	uc003nsg.2	+	2	3522	c.3522G>A	c.(3520-3522)ACG>ACA	p.T1174T		NM_080870	NP_543146	Q3MIW9	DPCR1_HUMAN	diffuse panbronchiolitis critical region 1	305	Extracellular (Potential).|Thr-rich.					integral to membrane					0						AAAAGACCACGTCAACCACAG	0.468													20	93					0	0	0.008871	0	0		A	30919763	A	A	30919763	2	1	23	1	0	0	0	0	0	0	0	1	4718	1132	40	1		1	DPCR1	6	30919763	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	876445	30919763	140195304	449	19777											
POU5F1	5460	broad.mit.edu	37	chr6	31132537	31132537	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagaggaaaggacactggTccccctgagaaaggagaccc	13	3	13	12	0	0	3	0	1	0	3	1	7	1	5	4	4	0	0	4	4	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:31132537T>C	uc003nsv.2	-	5	978	c.924A>G	c.(922-924)GGA>GGG	p.G308G	POU5F1_uc003nsu.2_Silent_p.G213G|uc011dnf.1_5'Flank	NM_002701	NP_002692	Q01860	PO5F1_HUMAN	POU domain, class 5, transcription factor 1	308					anatomical structure morphogenesis|blastocyst development|BMP signaling pathway involved in heart induction|cardiac cell fate determination|cell fate commitment involved in formation of primary germ layers|mRNA transcription from RNA polymerase II promoter|negative regulation of gene silencing by miRNA|positive regulation of catenin import into nucleus|positive regulation of SMAD protein import into nucleus|positive regulation of transcription from RNA polymerase II promoter|regulation of asymmetric cell division|regulation of heart induction by regulation of canonical Wnt receptor signaling pathway|regulation of methylation-dependent chromatin silencing|response to wounding|somatic stem cell maintenance|somatic stem cell maintenance	cytosol|nucleoplasm|transcription factor complex	miRNA binding|sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|ubiquitin protein ligase binding		EWSR1/POU5F1(10)	skin(7)|salivary_gland(2)|bone(2)|lung(1)|ovary(1)	13						AGGACACTGGTCCCCCTGAGA	0.587			T	EWSR1	sarcoma								5	21					0	0	0.001984	0	0		C	31132537	C	C	31132537	2	2	23	1	0	0	0	0	0	0	0	1	12300	1654	58	3		3	POU5F1	6	31132537	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	212774	31132537	139982530	450	19778											
LTA	4049	broad.mit.edu	37	chr6	31541350	31541350	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggaaccctggctgcactcGatgtaccacggggctgcgtt	7	8	13	13	3	0	0	0	0	0	0	1	2	0	1	2	4	4	5	2	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:31541350G>A	uc011dnu.1	+	4	711	c.498G>A	c.(496-498)TCG>TCA	p.S166S	LTA_uc003nue.1_Silent_p.S166S|LTA_uc003nuf.2_Intron|LTA_uc003nuh.2_Intron|LTA_uc003nug.2_Missense_Mutation_p.D76N|LTA_uc010jsr.2_RNA|TNF_uc003nui.2_5'Flank|TNF_uc003nuj.2_5'Flank	NM_001159740	NP_001153212	P01374	TNFB_HUMAN	lymphotoxin alpha precursor	166					cell-cell signaling|induction of apoptosis|signal transduction	extracellular space|membrane	cytokine activity|tumor necrosis factor receptor binding				0					Etanercept(DB00005)	GGCTGCACTCGATGTACCACG	0.592													136	236					0	0	0.01441	0	0		A	31541350	A	A	31541350	2	1	23	1	0	0	0	0	0	0	0	1	9086	1045	37	1		1	LTA	6	31541350	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	408813	31541350	139573717	451	19779											
APOM	55937	broad.mit.edu	37	chr6	31624328	31624328	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagttggcaacttttgaccCtgtggacaacattgtcttca	9	13	10	9	0	2	1	1	1	1	0	2	3	2	3	1	3	2	2	1	3	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:31624328C>A	uc003nvl.2	+	2	267	c.194C>A	c.(193-195)CCT>CAT	p.P65H	APOM_uc003nvk.2_Translation_Start_Site	NM_019101	NP_061974	O95445	APOM_HUMAN	apolipoprotein M	65					cholesterol efflux|high-density lipoprotein particle assembly|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|negative regulation of plasma lipoprotein particle oxidation|reverse cholesterol transport	discoidal high-density lipoprotein particle|integral to plasma membrane|low-density lipoprotein particle|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	binding|lipid transporter activity				0						ACTTTTGACCCTGTGGACAAC	0.552													5	176					4.096e-09	4.33876e-09	0.001168	1	0		A	31624328	A	A	31624328	3	1	23	1	0	0	0	0	1	0	0	0	812	681	24	5	200	5	APOM	6	31624328	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	82978	31624328	139490739	452	19780											
C6orf47	57827	broad.mit.edu	37	chr6	31627258	31627258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggttccccccgcagccagCccaacagcttctcacgccta	7	7	7	20	2	1	0	1	0	1	0	3	0	2	0	6	1	4	3	6	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:31627258C>T	uc003nvm.1	-	1	1292	c.467G>A	c.(466-468)GGC>GAC	p.G156D		NM_021184	NP_067007	O95873	CF047_HUMAN	G4 protein	156										ovary(1)	1						CCGCAGCCAGCCCAACAGCTT	0.647													26	133					0	0	0.013726	0	0		T	31627258	T	T	31627258	3	4	23	1	0	0	0	0	1	0	0	0	2367	739	26	2	421	2	C6orf47	6	31627258	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2930	31627258	139487809	453	19781											
DDAH2	23564	broad.mit.edu	37	chr6	31696024	31696024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccatgccgcagagaccgcGcaggtgggagggacccgaga	9	2	16	14	4	0	2	0	0	0	2	0	6	0	4	5	3	1	2	5	3	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:31696024G>A	uc003nwp.2	-	4	1148	c.517C>T	c.(517-519)CGC>TGC	p.R173C	DDAH2_uc003nwq.2_Missense_Mutation_p.R173C	NM_013974	NP_039268	O95865	DDAH2_HUMAN	dimethylarginine dimethylaminohydrolase 2	173					anti-apoptosis|arginine catabolic process|citrulline metabolic process|nitric oxide biosynthetic process|nitric oxide mediated signal transduction	cytoplasm	dimethylargininase activity|protein binding				0					L-Citrulline(DB00155)	CAGAGACCGCGCAGGTGGGAG	0.667													15	42					0	0	0.00499	0	0		A	31696024	A	A	31696024	3	1	23	1	0	0	0	0	1	0	0	0	4325	1087	38	1	352	1	DDAH2	6	31696024	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	68766	31696024	139419043	454	19782											
HSPA1L	3305	broad.mit.edu	37	chr6	31779156	31779156	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctccacccagatcaaaaatCaggacatgtcgttctccttg	11	10	6	14	1	3	1	2	0	1	1	6	2	4	2	4	1	0	1	4	1	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:31779156C>G	uc003nxh.2	-	2	777	c.594G>C	c.(592-594)CTG>CTC	p.L198L	HSPA1L_uc010jte.2_Silent_p.L198L	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	198					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						GATCAAAAATCAGGACATGTC	0.468													7	168					0	0	0.001984	0	0		G	31779156	G	G	31779156	2	3	23	1	0	0	0	0	0	0	0	1	7426	813	29	5		5	HSPA1L	6	31779156	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	83132	31779156	139335911	455	19783											
EHMT2	10919	broad.mit.edu	37	chr6	31856457	31856457	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcttgggtgcctccatgcgGcagctgcacaggggcaactc	7	8	13	13	1	1	0	0	0	1	0	3	0	2	0	2	4	5	4	2	4	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:31856457G>A	uc003nxz.1	-	11	1294	c.1284C>T	c.(1282-1284)TGC>TGT	p.C428C	EHMT2_uc003nxy.1_Silent_p.C219C|EHMT2_uc011don.1_Silent_p.C451C|EHMT2_uc003nya.1_Silent_p.C394C	NM_006709	NP_006700	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	428					DNA methylation|peptidyl-lysine dimethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			ovary(1)	1						CCTCCATGCGGCAGCTGCACA	0.622													12	54					0	0	0.013537	0	0		A	31856457	A	A	31856457	2	1	23	1	0	0	0	0	0	0	0	1	4990	1195	42	2		2	EHMT2	6	31856457	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	77301	31856457	139258610	456	19784											
SKIV2L	6499	broad.mit.edu	37	chr6	31936718	31936718	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcgggtggcttgtgccaTgagcagccatgagttgctcc	6	9	16	10	1	0	2	0	2	0	0	1	2	1	2	3	3	4	4	3	3	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:31936718T>C	uc003nyn.1	+	26	3640	c.3251T>C	c.(3250-3252)ATG>ACG	p.M1084T	SKIV2L_uc011dou.1_Missense_Mutation_p.M926T|SKIV2L_uc011dov.1_Missense_Mutation_p.M891T|STK19_uc003nyt.2_5'Flank|STK19_uc011dow.1_5'Flank|STK19_uc011dox.1_5'Flank|STK19_uc003nyv.2_5'Flank|STK19_uc003nyw.2_5'Flank	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	1084						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						GCTTGTGCCATGAGCAGCCAT	0.592													13	63					0	0	0.010504	0	0		C	31936718	C	C	31936718	3	2	23	1	0	0	0	0	1	0	0	0	14384	1464	51	3	3353	3	SKIV2L	6	31936718	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	80261	31936718	139178349	457	19785											
C4A	720	broad.mit.edu	37	chr6	31997538	31997538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcggcctggctcacccGtcagggcagcttccaagggg	5	6	16	14	2	2	0	2	0	0	0	3	0	3	0	3	6	2	4	3	6	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:31997538G>A	uc011dpd.1	+	29	3923	c.3872G>A	c.(3871-3873)CGT>CAT	p.R1291H	C4A_uc011dpe.1_Missense_Mutation_p.R1291H	NM_007293	NP_009224	P0C0L4	CO4A_HUMAN	complement component 4A preproprotein	1291					complement activation, classical pathway|inflammatory response|innate immune response	extracellular space	endopeptidase inhibitor activity				0						TGGCTCACCCGTCAGGGCAGC	0.647													13	113					0	0	0.004007	0	0		A	31997538	A	A	31997538	3	1	23	1	0	0	0	0	1	0	0	0	2250	1145	40	1	8711	1	C4A	6	31997538	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	60820	31997538	139117529	458	19786											
TNXB	7148	broad.mit.edu	37	chr6	32023661	32023661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggacaccgggcccacacGccgcccctcgtggaggccgt	5	4	15	17	5	0	0	0	0	0	0	1	2	0	2	6	5	0	0	6	5	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:32023661G>A	uc003nzl.2	-	24	8636	c.8434C>T	c.(8434-8436)CGT>TGT	p.R2812C		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2870	Fibronectin type-III 20.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GGGCCCACACGCCGCCCCTCG	0.607													11	73					0	0	0.003163	0	0		A	32023661	A	A	32023661	3	1	23	1	0	0	0	0	1	0	0	0	16371	1087	38	1	6363	1	TNXB	6	32023661	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	26123	32023661	139091406	459	19787											
RING1	6015	broad.mit.edu	37	chr6	33178996	33178996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccacaacgatgagtggggggGaaggagagcccggggaggga	11	2	21	7	2	0	2	0	1	0	1	0	7	0	5	2	7	2	0	2	7	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:33178996G>A	uc003odk.2	+	5	711	c.517G>A	c.(517-519)GAA>AAA	p.E173K	RING1_uc011dqx.1_Missense_Mutation_p.E173K|RING1_uc003odl.2_Missense_Mutation_p.E144K	NM_002931	NP_002922	Q06587	RING1_HUMAN	ring finger protein 1	173	Necessary for transcriptional repression (By similarity).				histone H2A monoubiquitination|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear speck|PcG protein complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						GAGTGGGGGGGAAGGAGAGCC	0.627													46	263					0	0	0.011902	0	0		A	33178996	A	A	33178996	3	1	23	1	0	0	0	0	1	0	0	0	13399	1175	41	4	531	4	RING1	6	33178996	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1155335	33178996	137936071	460	19788											
SYNGAP1	8831	broad.mit.edu	37	chr6	33411215	33411215	+	Silent	SNP	C	T	T																															tcccatcaccaccaccaccaCcatcaccaccaccgaggtgg																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:33411215C>T	uc011dri.1	+	15	3081	c.2886C>T	c.(2884-2886)CAC>CAT	p.H962H	SYNGAP1_uc010juy.2_Silent_p.H933H|SYNGAP1_uc010juz.2_Silent_p.H674H	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	962					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						accaccaccaccatcaccacc	0.557													48	241					0	0	0.01441	0	0		T	33411215	T	T	33411215	2	4	23	1	0	0	0	0	0	0	0	1	15472	506	18	4		4	SYNGAP1	6	33411215	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	232219	33411215	137703852	461	19789	32	2									
SYNGAP1	8831	broad.mit.edu	37	chr6	33411218	33411218	+	Silent	SNP	T	C	C																															catcaccaccaccaccaccaTcaccaccaccgaggtggaga																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:33411218T>C	uc011dri.1	+	15	3084	c.2889T>C	c.(2887-2889)CAT>CAC	p.H963H	SYNGAP1_uc010juy.2_Silent_p.H934H|SYNGAP1_uc010juz.2_Silent_p.H675H	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	963					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						accaccaccatcaccaccacc	0.557													48	248					0	0	0.01441	0	0		C	33411218	C	C	33411218	2	2	23	1	0	0	0	0	0	0	0	1	15472	1432	50	3		3	SYNGAP1	6	33411218	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	3	33411218	137703849	462	19790	32	2									
UHRF1BP1	54887	broad.mit.edu	37	chr6	34825969	34825969	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcccttgtcttctctgcGtcaggcatgattgccaccaa	7	11	9	14	1	3	1	1	1	2	0	4	1	3	1	3	2	2	1	3	2	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:34825969G>A	uc003oju.3	+	14	2070	c.1836G>A	c.(1834-1836)GCG>GCA	p.A612A	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	612										ovary(3)	3						TCTTCTCTGCGTCAGGCATGA	0.488													50	117					0	0	0.01441	0	0		A	34825969	A	A	34825969	2	1	23	1	0	0	0	0	0	0	0	1	16994	1132	40	1		1	UHRF1BP1	6	34825969	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1414751	34825969	136289098	463	19791											
CLPS	1208	broad.mit.edu	37	chr6	35763018	35763018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccctcacaggtcaggccacGctcacagggacacttgtagt	9	8	10	14	1	3	0	3	0	0	0	4	1	4	1	2	3	0	2	2	3	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:35763018G>A	uc003ole.1	-	3	281	c.244C>T	c.(244-246)CGT>TGT	p.R82C	CLPS_uc003olf.1_Missense_Mutation_p.R41C	NM_001832	NP_001823	P04118	COL_HUMAN	colipase preproprotein	82					lipid catabolic process|lipid digestion|retinoid metabolic process|steroid metabolic process	extracellular region					0						GTCAGGCCACGCTCACAGGGA	0.542													18	34					0	0	0.007413	0	0		A	35763018	A	A	35763018	3	1	23	1	0	0	0	0	1	0	0	0	3556	1087	38	1	98	1	CLPS	6	35763018	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	937049	35763018	135352049	464	19792											
PPIL1	51645	broad.mit.edu	37	chr6	36823635	36823635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcacgtcgtccacagggCggtcctgggagtttgtttct	4	14	12	11	3	3	0	1	0	2	0	6	1	5	1	2	3	0	2	2	3	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:36823635C>T	uc003omu.2	-	4	707	c.455G>A	c.(454-456)CGC>CAC	p.R152H		NM_016059	NP_057143	Q9Y3C6	PPIL1_HUMAN	peptidylprolyl isomerase-like 1	152	PPIase cyclophilin-type.				protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1						GTCCACAGGGCGGTCCTGGGA	0.532													48	110					0	0	0.01441	0	0		T	36823635	T	T	36823635	3	4	23	1	0	0	0	0	1	0	0	0	12348	768	27	1	49	1	PPIL1	6	36823635	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1060617	36823635	134291432	465	19793											
DNAH8	1769	broad.mit.edu	37	chr6	38941437	38941437	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaacttatttttggatacagGgtggttgggtattactacaa	11	15	11	4	0	0	0	0	0	0	0	0	2	0	1	0	4	4	2	0	4	7	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:38941437G>T	uc003ooe.1	+	82	12475	c.11875G>T	c.(11875-11877)GGT>TGT	p.G3959C	DNAH8_uc003oog.1_Missense_Mutation_p.G408C	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTGGATACAGGGTGGTTGGGT	0.338													7	43					0.000442599	0.000452291	0.006214	1	0		T	38941437	T	T	38941437	3	4	23	1	0	0	0	0	1	0	0	0	4613	1246	43	5	12193	5	DNAH8	6	38941437	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2117802	38941437	132173630	466	19794											
DAAM2	23500	broad.mit.edu	37	chr6	39828752	39828752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagaggctatgtttgcactgCcccctgagaagaaatggcag	11	8	13	9	0	0	3	0	1	0	3	0	5	0	3	2	2	2	4	2	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:39828752C>T	uc003oow.2	+	3	373	c.217C>T	c.(217-219)CCC>TCC	p.P73S	DAAM2_uc010jxc.2_Missense_Mutation_p.P73S|DAAM2_uc003oox.2_Missense_Mutation_p.P73S|DAAM2_uc003oov.3_Missense_Mutation_p.P73S|DAAM2_uc003ooy.3_Missense_Mutation_p.P73S	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	73	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GTTTGCACTGCCCCCTGAGAA	0.488													5	18					0	0	0.001168	0	0		T	39828752	T	T	39828752	3	4	23	1	0	0	0	0	1	0	0	0	4219	739	26	2	223	2	DAAM2	6	39828752	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	887315	39828752	131286315	467	19795											
DAAM2	23500	broad.mit.edu	37	chr6	39843178	39843178	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagattgtcctccaggAtgagcggggtgtggaccctg	7	8	15	11	1	0	2	0	1	0	1	2	4	2	4	4	4	2	1	4	4	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:39843178A>G	uc003oow.2	+	11	1391	c.1235A>G	c.(1234-1236)GAT>GGT	p.D412G	DAAM2_uc010jxc.2_Missense_Mutation_p.D412G|DAAM2_uc003oox.2_Missense_Mutation_p.D412G	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	412	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GTCCTCCAGGATGAGCGGGGT	0.552													4	138					0	0	0.000602	0	0		G	39843178	G	G	39843178	3	3	23	1	0	0	0	0	1	0	0	0	4219	333	12	3	1273	3	DAAM2	6	39843178	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	14426	39843178	131271889	468	19796											
DAAM2	23500	broad.mit.edu	37	chr6	39856508	39856508	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttgaagatggatgagcAggaggaccttgctaaggaca	13	8	13	7	0	1	3	0	2	1	1	1	7	1	7	1	4	2	2	1	4	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:39856508A>T	uc003oow.2	+	17	2270	c.2114A>T	c.(2113-2115)CAG>CTG	p.Q705L	DAAM2_uc003oox.2_Missense_Mutation_p.Q705L|uc003ooz.1_5'Flank	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	705	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					ATGGATGAGCAGGAGGACCTT	0.577													17	48					0	0	0.00499	0	0		T	39856508	T	T	39856508	3	4	23	1	0	0	0	0	1	0	0	0	4219	188	7	5	2176	5	DAAM2	6	39856508	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	13330	39856508	131258559	469	19797											
TREML2	79865	broad.mit.edu	37	chr6	41162312	41162312	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcattgctgggagacgcGgtcactgtctgggaccccat	6	9	14	12	2	2	1	1	0	1	1	2	3	2	2	2	4	1	2	2	4	0	1	rs141822677	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:41162312G>A	uc010jxm.1	-	3	815	c.636C>T	c.(634-636)ACC>ACT	p.T212T		NM_024807	NP_079083	Q5T2D2	TRML2_HUMAN	triggering receptor expressed on myeloid	212	Extracellular (Potential).				T cell activation	cell surface|integral to membrane|plasma membrane	protein binding|receptor activity			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					TGGGAGACGCGGTCACTGTCT	0.627													13	39					0	0	0.004007	0	0		A	41162312	A	A	41162312	2	1	23	1	0	0	0	0	0	0	0	1	16499	1103	39	1		1	TREML2	6	41162312	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1305804	41162312	129952755	470	19798											
FOXP4	116113	broad.mit.edu	37	chr6	41557560	41557560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatggcccacctgcacatgCggccctcggagcccaagccc	7	5	11	18	2	0	1	0	1	0	0	1	2	0	2	5	3	4	1	5	3	1	0	rs140387832		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:41557560C>T	uc003oql.2	+	10	1575	c.1117C>T	c.(1117-1119)CGG>TGG	p.R373W	FOXP4_uc003oqm.2_Missense_Mutation_p.R371W|FOXP4_uc003oqn.2_Missense_Mutation_p.R372W	NM_001012426	NP_001012426	Q8IVH2	FOXP4_HUMAN	forkhead box P4 isoform 1	373					embryonic foregut morphogenesis|heart development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					CCTGCACATGCGGCCCTCGGA	0.692											OREG0004066	type=REGULATORY REGION|Gene=FOXP4|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	12	49					0	0	0.013537	0	0		T	41557560	T	T	41557560	3	4	23	1	0	0	0	0	1	0	0	0	6043	759	27	1	1151	1	FOXP4	6	41557560	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	395248	41557560	129557507	471	19799											
BYSL	705	broad.mit.edu	37	chr6	41897948	41897948	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagtcatgtcagaggtgtcGggcttccctatgccccagct	7	10	11	13	1	2	1	2	0	0	1	4	1	3	1	3	2	2	2	3	2	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:41897948G>A	uc003orl.2	+	3	846	c.510G>A	c.(508-510)TCG>TCA	p.S170S		NM_004053	NP_004044	Q13895	BYST_HUMAN	bystin	170					cell adhesion|female pregnancy|ribosome biogenesis	cytoplasm|nucleolus					0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000473)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CAGAGGTGTCGGGCTTCCCTA	0.592													12	82					0	0	0.010729	0	0		A	41897948	A	A	41897948	2	1	23	1	0	0	0	0	0	0	0	1	1579	1103	39	1		1	BYSL	6	41897948	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	340388	41897948	129217119	472	19800											
KLHDC3	116138	broad.mit.edu	37	chr6	42986253	42986253	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttggctggactgtccccCgactccagtgctgcctgagg	4	9	14	14	1	0	1	0	1	0	0	2	3	2	2	4	4	2	3	4	4	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:42986253C>A	uc003otl.2	+	6	861	c.692C>A	c.(691-693)CCG>CAG	p.P231Q	KLHDC3_uc003otm.2_RNA|KLHDC3_uc010jyf.2_Missense_Mutation_p.P207Q|KLHDC3_uc003otn.2_Missense_Mutation_p.P115Q|KLHDC3_uc003oto.2_Missense_Mutation_p.P172Q	NM_057161	NP_476502	Q9BQ90	KLDC3_HUMAN	kelch domain containing 3	231	Kelch 4.				reciprocal meiotic recombination	cytoplasm|nuclear chromatin	chromatin binding|protein binding			upper_aerodigestive_tract(1)	1			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GACTGTCCCCCGACTCCAGTG	0.577													23	135					1.08312e-15	1.18082e-15	0.009535	1	0		A	42986253	A	A	42986253	3	1	23	1	0	0	0	0	1	0	0	0	8373	652	23	5	710	5	KLHDC3	6	42986253	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1088305	42986253	128128814	473	19801											
PTK7	5754	broad.mit.edu	37	chr6	43110015	43110015	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgcaacatcaagcacacGgaggcccccctctatgtcgt	10	7	9	15	2	2	0	1	0	1	0	3	1	2	1	3	2	4	3	3	2	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:43110015G>A	uc003oub.1	+	13	2223	c.2025G>A	c.(2023-2025)ACG>ACA	p.T675T	PTK7_uc003ouc.1_Intron|PTK7_uc003oud.1_Silent_p.T635T|PTK7_uc003oue.1_Silent_p.T545T|PTK7_uc003ouf.1_RNA|PTK7_uc003oug.1_RNA|PTK7_uc011dve.1_Silent_p.T683T|PTK7_uc010jyj.1_Intron	NM_002821	NP_002812	Q13308	PTK7_HUMAN	PTK7 protein tyrosine kinase 7 isoform a	675	Ig-like C2-type 7.|Extracellular (Potential).				actin cytoskeleton reorganization|canonical Wnt receptor signaling pathway|cell adhesion|cell migration	cell-cell junction|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			ovary(2)|large_intestine(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00784)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			TCAAGCACACGGAGGCCCCCC	0.587													6	52					0	0	0.004482	0	0		A	43110015	A	A	43110015	2	1	23	1	0	0	0	0	0	0	0	1	12788	1103	39	1		1	PTK7	6	43110015	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	123762	43110015	128005052	474	19802											
CUL9	23113	broad.mit.edu	37	chr6	43152098	43152098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggtgcccttagggcctcGgctgcaggcatatcctgaag	7	9	13	12	1	0	1	0	1	0	0	2	1	1	1	3	4	2	3	3	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:43152098G>A	uc003ouk.2	+	2	125	c.50G>A	c.(49-51)CGG>CAG	p.R17Q	CUL9_uc003ouj.1_Missense_Mutation_p.R17Q|CUL9_uc003oul.2_Missense_Mutation_p.R17Q|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_5'Flank	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	17					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TTAGGGCCTCGGCTGCAGGCA	0.552													11	22					0	0	0.008291	0	0		A	43152098	A	A	43152098	3	1	23	1	0	0	0	0	1	0	0	0	4064	1116	39	1	52	1	CUL9	6	43152098	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	42083	43152098	127962969	475	19803											
TDRD6	221400	broad.mit.edu	37	chr6	46657163	46657163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgggattaatctgaaccGtgtgtttggagtacagtcgt	10	13	13	5	2	1	2	0	1	1	1	2	4	1	4	1	2	2	2	1	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:46657163G>A	uc003oyj.2	+	1	1298	c.1298G>A	c.(1297-1299)CGT>CAT	p.R433H	TDRD6_uc010jze.2_Missense_Mutation_p.R427H	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	433					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			AATCTGAACCGTGTGTTTGGA	0.463													44	87					0	0	0.013114	0	0		A	46657163	A	A	46657163	3	1	23	1	0	0	0	0	1	0	0	0	15759	1145	40	1	1300	1	TDRD6	6	46657163	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3505065	46657163	124457904	476	19804											
TDRD6	221400	broad.mit.edu	37	chr6	46657579	46657579	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgtattcttagttgacCgaggcaattcggaaaatgtg	11	13	12	5	2	1	1	0	1	1	0	2	4	1	3	1	3	0	3	1	3	5	5	rs141346043		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:46657579C>T	uc003oyj.2	+	1	1714	c.1714C>T	c.(1714-1716)CGA>TGA	p.R572*	TDRD6_uc010jze.2_Nonsense_Mutation_p.R566*	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	572	Tudor 3.				cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			CTTAGTTGACCGAGGCAATTC	0.443													82	223					0	0	0.01441	0	0		T	46657579	T	T	46657579	4	4	23	1	0	0	0	0	0	1	0	0	15759	644	23	1	1716	1	TDRD6	6	46657579	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	416	46657579	124457488	477	19805											
PKHD1	5314	broad.mit.edu	37	chr6	51890007	51890007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtctggcacacaacgtggCttgcattaaaaaaagttaca	14	11	8	8	1	1	0	0	0	1	0	1	0	1	0	0	2	3	4	0	2	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:51890007C>T	uc003pah.1	-	32	4877	c.4601G>A	c.(4600-4602)AGC>AAC	p.S1534N	PKHD1_uc003pai.2_Missense_Mutation_p.S1534N	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1534	Extracellular (Potential).|IPT/TIG 10.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CACAACGTGGCTTGCATTAAA	0.453													10	82					0	0	0.010729	0	0		T	51890007	T	T	51890007	3	4	23	1	0	0	0	0	1	0	0	0	11990	797	28	2	7806	2	PKHD1	6	51890007	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5232428	51890007	119225060	478	19806											
GCM1	8521	broad.mit.edu	37	chr6	52993662	52993662	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagctattaaatgtccactgTaactaccaggcaattggacg	13	11	8	9	1	0	0	0	0	0	0	1	1	1	1	2	2	3	3	2	2	7	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:52993662T>C	uc003pbp.2	-	6	862	c.653A>G	c.(652-654)TAC>TGC	p.Y218C		NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	218						transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					ATGTCCACTGTAACTACCAGG	0.433													26	115					0	0	0.003954	0	0		C	52993662	C	C	52993662	3	2	23	1	0	0	0	0	1	0	0	0	6312	1638	57	3	661	3	GCM1	6	52993662	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1103655	52993662	118121405	479	19807											
TINAG	27283	broad.mit.edu	37	chr6	54208091	54208091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttataaatggcctggatggaCtcatggcccattggatcaaa	12	11	10	8	0	2	0	2	0	0	0	2	3	2	3	2	5	0	0	2	5	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:54208091C>T	uc003pcj.2	+	5	838	c.692C>T	c.(691-693)ACT>ATT	p.T231I	TINAG_uc010jzt.2_Intron	NM_014464	NP_055279	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	231					cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			CCTGGATGGACTCATGGCCCA	0.373													20	89					0	0	0.007413	0	0		T	54208091	T	T	54208091	3	4	23	1	0	0	0	0	1	0	0	0	15946	565	20	4	710	4	TINAG	6	54208091	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1214429	54208091	116906976	480	19808											
BMP5	653	broad.mit.edu	37	chr6	55620357	55620357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcagccacatgagcgtactaCcatatttctatattttttca	11	15	5	10	1	2	1	1	1	1	0	2	1	2	1	2	0	4	2	2	0	5	9			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:55620357C>T	uc003pcq.2	-	7	2051	c.1339G>A	c.(1339-1341)GTA>ATA	p.V447I	BMP5_uc011dxf.1_Missense_Mutation_p.V410I	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	447					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			GAGCGTACTACCATATTTCTA	0.333													15	50					0	0	0.006122	0	0		T	55620357	T	T	55620357	3	4	23	1	0	0	0	0	1	0	0	0	1464	507	18	4	29	4	BMP5	6	55620357	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1412266	55620357	115494710	481	19809											
COL21A1	81578	broad.mit.edu	37	chr6	55939064	55939064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttccaggctggcctggtgagCcattgcttcccattaaaccc	7	11	9	14	0	0	1	0	1	0	0	2	1	2	1	5	3	3	2	5	3	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:55939064C>T	uc003pcs.2	-	20	2163	c.1931G>A	c.(1930-1932)GGC>GAC	p.G644D	COL21A1_uc010jzz.2_Missense_Mutation_p.G29D|COL21A1_uc011dxg.1_Missense_Mutation_p.G29D|COL21A1_uc011dxh.1_Missense_Mutation_p.G29D|COL21A1_uc003pcr.2_Missense_Mutation_p.A2T	NM_030820	NP_110447	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1 precursor	644	Collagen-like 3.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(2)	2	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			GCCTGGTGAGCCATTGCTTCC	0.328													39	88					0	0	0.01441	0	0		T	55939064	T	T	55939064	3	4	23	1	0	0	0	0	1	0	0	0	3683	739	26	2	986	2	COL21A1	6	55939064	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	318707	55939064	115176003	482	19810											
COL12A1	1303	broad.mit.edu	37	chr6	75898209	75898209	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catggttcagtgaaggtgtgGaggcaatttgtttgagttct	8	15	14	4	0	2	2	1	2	1	0	2	3	2	3	0	4	0	4	0	4	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:75898209G>T	uc003phs.2	-	8	1032	c.866C>A	c.(865-867)TCC>TAC	p.S289Y	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_5'UTR	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	289	VWFA 1.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TGAAGGTGTGGAGGCAATTTG	0.408													51	118					6.3008e-33	7.01481e-33	0.01441	1	0		T	75898209	T	T	75898209	3	4	23	1	0	0	0	0	1	0	0	0	3672	1174	41	5	8561	5	COL12A1	6	75898209	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	19959145	75898209	95216858	483	19811											
COX7A2	1347	broad.mit.edu	37	chr6	75950905	75950905	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtacctggaacagttttTgcttctccggaactttattt	8	17	7	9	1	2	0	1	0	1	0	3	2	2	2	2	2	4	3	2	2	4	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:75950905T>C	uc003phv.1	-	2	170	c.95A>G	c.(94-96)CAA>CGA	p.Q32R		NM_001865	NP_001856	P14406	CX7A2_HUMAN	cytochrome c oxidase subunit VIIa polypeptide 2	32						mitochondrial respiratory chain	cytochrome-c oxidase activity|electron carrier activity				0						GAACAGTTTTTGCTTCTCCGG	0.338													7	292					0	0	0.001984	0	0		C	75950905	C	C	75950905	3	2	23	1	0	0	0	0	1	0	0	0	3783	1812	63	3	168	3	COX7A2	6	75950905	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	52696	75950905	95164162	484	19812											
HTR1B	3351	broad.mit.edu	37	chr6	78172363	78172363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcggttatcagctgggctCgggtcaagcgcttgccggtc	5	10	15	11	4	2	0	2	0	0	0	5	0	2	0	1	4	3	4	1	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:78172363C>T	uc003pil.1	-	1	758	c.758G>A	c.(757-759)CGA>CAA	p.R253Q		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	253	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	CAGCTGGGCTCGGGTCAAGCG	0.617													29	156					0	0	0.008361	0	0		T	78172363	T	T	78172363	3	4	23	1	0	0	0	0	1	0	0	0	7453	884	31	1	418	1	HTR1B	6	78172363	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2221458	78172363	92942704	485	19813											
DOPEY1	23033	broad.mit.edu	37	chr6	83839167	83839167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctagagtgctcaagtttcCcagtttacattgctgagggg	8	13	11	9	0	1	2	1	1	0	1	3	2	3	2	2	2	3	4	2	2	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:83839167C>T	uc003pjs.1	+	16	2541	c.2281C>T	c.(2281-2283)CCA>TCA	p.P761S	DOPEY1_uc011dyy.1_Missense_Mutation_p.P752S|DOPEY1_uc010kbl.1_Missense_Mutation_p.P752S	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	761					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		CTCAAGTTTCCCAGTTTACAT	0.383													15	75					0	0	0.006122	0	0		T	83839167	T	T	83839167	3	4	23	1	0	0	0	0	1	0	0	0	4713	623	22	4	2335	4	DOPEY1	6	83839167	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5666804	83839167	87275900	486	19814											
PM20D2	135293	broad.mit.edu	37	chr6	89871861	89871861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagttctacactctgcggaCggccaaagctctggcaatga	10	9	10	12	2	4	1	1	1	3	0	4	2	4	2	1	3	3	3	1	3	3	2	rs147495131	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:89871861C>T	uc003pmz.2	+	7	1285	c.1190C>T	c.(1189-1191)ACG>ATG	p.T397M		NM_001010853	NP_001010853	Q8IYS1	P20D2_HUMAN	aminoacylase 1-like 2	397							hydrolase activity				0		all_cancers(76;9.47e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00813)		ACTCTGCGGACGGCCAAAGCT	0.398													66	112					0	0	0.01441	0	0		T	89871861	T	T	89871861	3	4	23	1	0	0	0	0	1	0	0	0	12148	536	19	1	1216	1	PM20D2	6	89871861	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	6032694	89871861	81243206	487	19815											
ASCC3	10973	broad.mit.edu	37	chr6	101053555	101053555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaactgcggcctcccagcaCgccccatcatctggaggaca	9	5	10	17	3	2	0	1	0	1	0	3	3	3	2	4	3	3	1	4	3	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:101053555C>T	uc003pqk.2	-	33	5395	c.5066G>A	c.(5065-5067)CGT>CAT	p.R1689H		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1689	Helicase C-terminal 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CCTCCCAGCACGCCCCATCAT	0.383													7	50					0	0	0.004482	0	0		T	101053555	T	T	101053555	3	4	23	1	0	0	0	0	1	0	0	0	1034	536	19	1	1582	1	ASCC3	6	101053555	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	11181694	101053555	70061512	488	19816											
BEND3	57673	broad.mit.edu	37	chr6	107392009	107392009	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgagatgccatacagaggcTtcttgtaggaaggggtggtg	9	9	17	6	1	1	2	0	0	1	2	1	4	1	3	1	5	2	2	1	5	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:107392009T>C	uc003prs.2	-	5	1036	c.386A>G	c.(385-387)AAG>AGG	p.K129R		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	129										ovary(3)	3						ATACAGAGGCTTCTTGTAGGA	0.587													5	206					0	0	0.001168	0	0		C	107392009	C	C	107392009	3	2	23	1	0	0	0	0	1	0	0	0	1400	1609	56	3	2104	3	BEND3	6	107392009	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	6338454	107392009	63723058	489	19817											
WASF1	8936	broad.mit.edu	37	chr6	110423044	110423044	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggtggtgggggtggaggCagcccctgaacttcaccttg	5	8	18	10	1	1	1	1	1	0	0	1	2	1	2	3	7	2	1	3	7	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:110423044C>T	uc003ptv.1	-	10	2106	c.1269G>A	c.(1267-1269)CTG>CTA	p.L423L	WASF1_uc003ptw.1_Silent_p.L423L|WASF1_uc003ptx.1_Silent_p.L423L|WASF1_uc003pty.1_Silent_p.L423L	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	423					actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)		GGGGTGGAGGCAGCCCCTGAA	0.577													39	87					0	0	0.00874	0	0		T	110423044	T	T	110423044	2	4	23	1	0	0	0	0	0	0	0	1	17278	697	25	2		2	WASF1	6	110423044	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3031035	110423044	60692023	490	19818											
KIAA1919	91749	broad.mit.edu	37	chr6	111583579	111583579	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggatatttgagtggctcTgtgattggtggatttcttgt	5	19	14	3	0	2	2	0	2	2	0	2	4	2	4	0	4	0	1	0	4	1	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:111583579T>C	uc003puv.3	+	2	569	c.147T>C	c.(145-147)TCT>TCC	p.S49S		NM_153369	NP_699200	Q5TF39	NAGT1_HUMAN	sodium-dependent glucose transporter 1	49	Helical; (Potential).				carbohydrate transport|sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(3)	3		all_cancers(87;2.35e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.055)|all cancers(137;0.0871)|Epithelial(106;0.0884)		TGAGTGGCTCTGTGATTGGTG	0.373													171	284					0	0	0.01441	0	0		C	111583579	C	C	111583579	2	2	23	1	0	0	0	0	0	0	0	1	8278	1567	55	3		3	KIAA1919	6	111583579	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1160535	111583579	59531488	491	19819											
ZUFSP	221302	broad.mit.edu	37	chr6	116966982	116966982	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttgagactgctagcctcTatgtcttgctttaataattt	8	18	7	8	0	2	1	0	1	2	1	2	2	2	1	1	0	4	3	1	0	4	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:116966982T>C	uc003pxf.1	-	9	1830	c.1584A>G	c.(1582-1584)ATA>ATG	p.I528M	ZUFSP_uc010kef.1_Missense_Mutation_p.I332M	NM_145062	NP_659499	Q96AP4	ZUFSP_HUMAN	zinc finger with UFM1-specific peptidase domain	528						intracellular	zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(226;0.0258)|all cancers(137;0.0368)|OV - Ovarian serous cystadenocarcinoma(136;0.0464)|Epithelial(106;0.186)		TGCTAGCCTCTATGTCTTGCT	0.368													79	145					0	0	0.01441	0	0		C	116966982	C	C	116966982	3	2	23	1	0	0	0	0	1	0	0	0	18271	1512	53	3	160	3	ZUFSP	6	116966982	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	5383403	116966982	54148085	492	19820											
ZUFSP	221302	broad.mit.edu	37	chr6	116987852	116987852	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttcacatgagtttccatAtcttcactgtgctcctctat	7	18	5	11	0	4	1	2	1	2	0	6	1	6	1	2	0	1	3	2	0	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:116987852A>G	uc003pxf.1	-	2	750	c.504T>C	c.(502-504)GAT>GAC	p.D168D	ZUFSP_uc010kef.1_Intron	NM_145062	NP_659499	Q96AP4	ZUFSP_HUMAN	zinc finger with UFM1-specific peptidase domain	168	C2H2-type 2.					intracellular	zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(226;0.0258)|all cancers(137;0.0368)|OV - Ovarian serous cystadenocarcinoma(136;0.0464)|Epithelial(106;0.186)		GAGTTTCCATATCTTCACTGT	0.353													4	86					0	0	0.000602	0	0		G	116987852	G	G	116987852	2	3	23	1	0	0	0	0	0	0	0	1	18271	446	16	3		3	ZUFSP	6	116987852	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	20870	116987852	54127215	493	19821											
FAM184A	79632	broad.mit.edu	37	chr6	119297156	119297156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttgatgatgattatgccGtaacaaatcaattgcagctg	12	14	8	7	1	2	3	1	3	1	0	2	3	2	3	1	0	4	3	1	0	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:119297156G>A	uc003pyj.2	-	12	2857	c.2509C>T	c.(2509-2511)CGG>TGG	p.R837W	FAM184A_uc003pyk.3_Missense_Mutation_p.R717W|FAM184A_uc003pyl.3_Missense_Mutation_p.R717W|FAM184A_uc003pyi.2_RNA	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	837										ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						TGATTATGCCGTAACAAATCA	0.378													8	78					0	0	0.006214	0	0		A	119297156	A	A	119297156	3	1	23	1	0	0	0	0	1	0	0	0	5522	1144	40	1	941	1	FAM184A	6	119297156	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2309304	119297156	51817911	494	19822											
LAMA2	3908	broad.mit.edu	37	chr6	129663524	129663524	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctggtgacttctgtgaaCgatgtgctcttggatactat	7	15	11	8	1	2	2	0	2	2	0	2	4	2	3	0	2	4	2	0	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:129663524C>T	uc003qbn.2	+	30	4453	c.4348C>T	c.(4348-4350)CGA>TGA	p.R1450*	LAMA2_uc003qbo.2_Nonsense_Mutation_p.R1450*	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1450	Laminin EGF-like 15.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		CTTCTGTGAACGATGTGCTCT	0.378													22	113					0	0	0.014323	0	0		T	129663524	T	T	129663524	4	4	23	1	0	0	0	0	0	1	0	0	8622	528	19	1	4466	1	LAMA2	6	129663524	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	10366368	129663524	41451543	495	19823											
TAAR6	319100	broad.mit.edu	37	chr6	132891518	132891518	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctacgcgaacgtgaatGggtcctgtgtgaaaatcccc	9	10	12	10	3	0	2	0	2	0	0	2	3	2	2	3	1	3	1	3	1	5	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:132891518G>T	uc011eck.1	+	1	58	c.58G>T	c.(58-60)GGG>TGG	p.G20W		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	20	Extracellular (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		GAACGTGAATGGGTCCTGTGT	0.502													19	97					6.49762e-13	7.00642e-13	0.006122	1	0		T	132891518	T	T	132891518	3	4	23	1	0	0	0	0	1	0	0	0	15517	1348	47	5	60	5	TAAR6	6	132891518	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3227994	132891518	38223549	496	19824											
HEBP2	23593	broad.mit.edu	37	chr6	138727269	138727269	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcattgaagatagagccGaaatgactgtgtttgtacgg	11	13	11	6	2	2	4	1	2	1	2	2	5	2	4	1	1	2	2	1	1	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:138727269G>T	uc003qhw.1	+	3	697	c.400G>T	c.(400-402)GAA>TAA	p.E134*		NM_014320	NP_055135	Q9Y5Z4	HEBP2_HUMAN	heme binding protein 2	134						mitochondrion					0	Breast(32;0.0933)			GBM - Glioblastoma multiforme(68;0.000732)|OV - Ovarian serous cystadenocarcinoma(155;0.00171)		AGATAGAGCCGAAATGACTGT	0.413													9	420					7.48243e-07	7.80291e-07	0.006214	1	0		T	138727269	T	T	138727269	4	4	23	1	0	0	0	0	0	1	0	0	7053	1059	37	5	410	5	HEBP2	6	138727269	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5835751	138727269	32387798	497	19825											
FUCA2	2519	broad.mit.edu	37	chr6	143825243	143825243	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaaggaagagcggatgaaAccattcaaaaagggaatagt	18	6	11	6	1	2	2	2	1	0	1	2	5	2	5	1	3	2	0	1	3	7	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:143825243A>G	uc003qjm.2	-	3	651	c.559T>C	c.(559-561)TTT>CTT	p.F187L	FUCA2_uc003qjn.2_5'Flank	NM_032020	NP_114409	Q9BTY2	FUCO2_HUMAN	fucosidase, alpha-L- 2, plasma precursor	187					fucose metabolic process	extracellular region	alpha-L-fucosidase activity|cation binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;7.45e-06)|GBM - Glioblastoma multiforme(68;0.0142)		AGCGGATGAAACCATTCAAAA	0.443													23	116					0	0	0.00278	0	0		G	143825243	G	G	143825243	3	3	23	1	0	0	0	0	1	0	0	0	6109	43	2	3	864	3	FUCA2	6	143825243	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	5097974	143825243	27289824	498	19826											
GRM1	2911	broad.mit.edu	37	chr6	146720745	146720745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccacctctgatgttgtccGcatgcatgttggcgatggca	7	11	11	12	2	1	1	0	1	1	0	2	2	2	1	3	2	1	5	3	2	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:146720745G>A	uc010khw.1	+	8	3040	c.2570G>A	c.(2569-2571)CGC>CAC	p.R857H	GRM1_uc010khv.1_Missense_Mutation_p.R857H|GRM1_uc003qll.2_Missense_Mutation_p.R857H|GRM1_uc011edz.1_Missense_Mutation_p.R857H|GRM1_uc011eea.1_Missense_Mutation_p.R857H	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	857	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GATGTTGTCCGCATGCATGTT	0.532													9	46					0	0	0.004482	0	0		A	146720745	A	A	146720745	3	1	23	1	0	0	0	0	1	0	0	0	6812	1087	38	1	2596	1	GRM1	6	146720745	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2895502	146720745	24394322	499	19827											
SYNE1	23345	broad.mit.edu	37	chr6	152777037	152777037	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacctgaaaagcaacatgaAtatctgcaatctgtctttgt	13	14	6	8	0	3	2	0	2	3	0	3	2	3	2	1	0	4	2	1	0	7	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:152777037A>G	uc010kiw.2	-	23	3313	c.2711T>C	c.(2710-2712)ATT>ACT	p.I904T	SYNE1_uc003qot.3_Missense_Mutation_p.I911T|SYNE1_uc003qou.3_Missense_Mutation_p.I904T|SYNE1_uc010kjb.1_Missense_Mutation_p.I887T|SYNE1_uc003qow.2_Missense_Mutation_p.I199T|SYNE1_uc003qox.1_Missense_Mutation_p.I420T|SYNE1_uc003qoz.2_Missense_Mutation_p.I336T|SYNE1_uc003qoy.2_Missense_Mutation_p.I471T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	904	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AGCAACATGAATATCTGCAAT	0.423										HNSCC(10;0.0054)			30	55					0	0	0.008361	0	0		G	152777037	G	G	152777037	3	3	23	1	0	0	0	0	1	0	0	0	15470	101	4	3	24251	3	SYNE1	6	152777037	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	6056292	152777037	18338030	500	19828											
TIAM2	26230	broad.mit.edu	37	chr6	155450812	155450812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcattgcctccaccccacCgggcgaagaccgcaagagcc	10	3	11	17	3	0	2	0	0	0	2	1	4	1	2	7	1	3	2	7	1	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:155450812C>T	uc003qqb.2	+	6	1728	c.455C>T	c.(454-456)CCG>CTG	p.P152L	TIAM2_uc003qqe.2_Missense_Mutation_p.P152L	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	152					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		TCCACCCCACCGGGCGAAGAC	0.577													23	63					0	0	0.005443	0	0		T	155450812	T	T	155450812	3	4	23	1	0	0	0	0	1	0	0	0	15916	652	23	1	457	1	TIAM2	6	155450812	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2673775	155450812	15664255	501	19829											
ARID1B	57492	broad.mit.edu	37	chr6	157522469	157522469	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctgccgtctatgaagatgCagaaggtcatgcccacggtc	9	10	11	11	2	3	3	1	1	2	2	4	3	3	3	2	2	3	1	2	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:157522469C>T	uc003qqn.2	+	18	4839	c.4687C>T	c.(4687-4689)CAG>TAG	p.Q1563*	ARID1B_uc003qqo.2_Nonsense_Mutation_p.Q1523*|ARID1B_uc003qqp.2_Nonsense_Mutation_p.Q1510*	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1568	Pro-rich.				chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TATGAAGATGCAGAAGGTCAT	0.592													85	188					0	0	0.01441	0	0		T	157522469	T	T	157522469	4	4	23	1	0	0	0	0	0	1	0	0	914	711	25	2	4811	2	ARID1B	6	157522469	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2071657	157522469	13592598	502	19830											
SYNJ2	8871	broad.mit.edu	37	chr6	158483059	158483059	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgccacgcgggcgacacGcctatgatcaattttgactt	8	12	9	12	4	2	2	1	2	1	0	2	3	2	2	2	1	1	0	2	1	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:158483059G>A	uc003qqx.1	+	8	1065	c.990G>A	c.(988-990)ACG>ACA	p.T330T	SYNJ2_uc011efm.1_Intron|SYNJ2_uc003qqw.1_Silent_p.T330T|SYNJ2_uc003qqy.1_Silent_p.T43T|SYNJ2_uc011efn.1_Intron|SYNJ2_uc010kjo.1_Silent_p.T279T|SYNJ2_uc003qqz.1_5'UTR	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	330	SAC.						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		CGGGCGACACGCCTATGATCA	0.383													164	317					0	0	0.01441	0	0		A	158483059	A	A	158483059	2	1	23	1	0	0	0	0	0	0	0	1	15478	1074	38	1		1	SYNJ2	6	158483059	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	960590	158483059	12632008	503	19831											
SLC22A2	6582	broad.mit.edu	37	chr6	160679392	160679392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttacctcggtgacgatggacGagccaggcgtctcgtacacc	8	8	12	13	5	1	1	0	1	1	0	3	4	1	2	3	3	3	1	3	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:160679392G>A	uc003qtf.2	-	1	568	c.398C>T	c.(397-399)TCG>TTG	p.S133L	SLC22A2_uc003qte.1_Missense_Mutation_p.S133L|SLC22A2_uc003qth.1_Missense_Mutation_p.S133L	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	133	Extracellular (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		GACGATGGACGAGCCAGGCGT	0.627													25	112					0	0	0.013726	0	0		A	160679392	A	A	160679392	3	1	23	1	0	0	0	0	1	0	0	0	14475	1059	37	1	1313	1	SLC22A2	6	160679392	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2196333	160679392	10435675	504	19832											
AGPAT4	56895	broad.mit.edu	37	chr6	161574397	161574397	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctacatttctcaagctcctCacggtgatggcgaagccctt	8	11	8	14	2	2	1	2	1	1	0	4	2	3	1	3	2	3	1	3	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr6:161574397C>T	uc003qtr.1	-	5	872	c.645G>A	c.(643-645)GTG>GTA	p.V215V	AGPAT4_uc003qts.1_Silent_p.V75V|AGPAT4_uc011egb.1_Intron|AGPAT4_uc003qtt.1_RNA|AGPAT4_uc011egc.1_3'UTR|AGPAT4_uc011egd.1_3'UTR|AGPAT4_uc011ege.1_3'UTR	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	215					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		TCAAGCTCCTCACGGTGATGG	0.612											OREG0017775	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	11					0	0	0.001984	0	0		T	161574397	T	T	161574397	2	4	23	1	0	0	0	0	0	0	0	1	389	813	29	4		4	AGPAT4	6	161574397	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	895005	161574397	9540670	505	19833											
GPR146	115330	broad.mit.edu	37	chr7	1098028	1098028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctccagcagctttgtgacaCcacttctctaccgctacatg	8	12	6	15	1	2	1	0	1	2	0	4	1	2	1	3	0	4	3	3	0	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:1098028C>T	uc003sjw.2	+	2	953	c.877C>T	c.(877-879)CCA>TCA	p.P293S	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPR146_uc003sjx.3_Missense_Mutation_p.P293S|GPR146_uc003sjy.1_Missense_Mutation_p.P293S	NM_138445	NP_612454	Q96CH1	GP146_HUMAN	G protein-coupled receptor 146	293	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		CTTTGTGACACCACTTCTCTA	0.582													15	113					0	0	0.004007	0	0		T	1098028	T	T	1098028	3	4	23	1	0	0	0	0	1	0	0	0	6667	507	18	4	879	4	GPR146	7	1098028	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08		1098028	158040635	506	19834											
INTS1	26173	broad.mit.edu	37	chr7	1535894	1535894	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcggtgatgtgcaccacgaAgcgctcctgcaggtgcagca	8	7	14	12	3	0	1	0	1	0	0	2	2	1	1	2	2	5	5	2	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:1535894A>T	uc003skn.2	-	12	1710	c.1609T>A	c.(1609-1611)TTC>ATC	p.F537I	INTS1_uc003skp.1_5'Flank	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	537					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		TGCACCACGAAGCGCTCCTGC	0.642													5	54					0	0	0.001168	0	0		T	1535894	T	T	1535894	3	4	23	1	0	0	0	0	1	0	0	0	7791	72	3	5	5111	5	INTS1	7	1535894	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	437866	1535894	157602769	507	19835											
EIF3B	8662	broad.mit.edu	37	chr7	2414230	2414230	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacagttcgtggtgttggcGggcctgaggaggtaggtgtc	5	10	20	6	2	0	1	0	1	0	0	2	3	0	3	1	7	0	3	1	7	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:2414230G>A	uc003slx.2	+	13	1961	c.1878G>A	c.(1876-1878)GCG>GCA	p.A626A	EIF3B_uc003sly.2_Silent_p.A626A|EIF3B_uc003sma.2_Silent_p.A354A|EIF3B_uc003smb.2_5'Flank	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,	626					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		TGGTGTTGGCGGGCCTGAGGA	0.627													37	167					0	0	0.004878	0	0		A	2414230	A	A	2414230	2	1	23	1	0	0	0	0	0	0	0	1	5019	1103	39	1		1	EIF3B	7	2414230	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	878336	2414230	156724433	508	19836											
CHST12	55501	broad.mit.edu	37	chr7	2473129	2473129	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaccacaccagcctgccCgcctcggcgcgcgaggcctt	6	4	11	20	5	0	0	0	0	0	0	1	1	0	0	7	2	3	0	7	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:2473129C>T	uc003smc.2	+	2	990	c.855C>T	c.(853-855)CCC>CCT	p.P285P	CHST12_uc003smd.2_Silent_p.P285P	NM_018641	NP_061111	Q9NRB3	CHSTC_HUMAN	carbohydrate sulfotransferase 12	285	Lumenal (Potential).				dermatan sulfate biosynthetic process	integral to Golgi membrane	3'-phosphoadenosine 5'-phosphosulfate binding|chondroitin 4-sulfotransferase activity|protein binding			kidney(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0847)|OV - Ovarian serous cystadenocarcinoma(56;2.25e-13)		CCAGCCTGCCCGCCTCGGCGC	0.652													12	66					0	0	0.004656	0	0		T	2473129	T	T	2473129	2	4	23	1	0	0	0	0	0	0	0	1	3403	639	23	1		1	CHST12	7	2473129	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	58899	2473129	156665534	509	19837											
CARD11	84433	broad.mit.edu	37	chr7	2962768	2962768	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgccgccatcccctcaccaGcagcagctggtggccctcac	6	7	9	19	1	2	0	2	0	0	0	3	0	3	0	6	2	4	3	6	2	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:2962768G>A	uc003smv.2	-	16	2544	c.2140C>T	c.(2140-2142)CTG>TTG	p.L714L		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	714	PDZ.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		CCCCTCACCAGCAGCAGCTGG	0.647			Mis		DLBCL								17	42					0	0	0.00333	0	0		A	2962768	A	A	2962768	2	1	23	1	0	0	0	0	0	0	0	1	2648	962	34	2		2	CARD11	7	2962768	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	489639	2962768	156175895	510	19838											
RADIL	55698	broad.mit.edu	37	chr7	4917262	4917262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatggtgtccacctccttgGctgccagctcctccacgtcc	4	11	9	17	1	0	1	0	1	0	0	5	1	5	1	7	2	2	2	7	2	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:4917262G>A	uc003snj.1	-	2	682	c.509C>T	c.(508-510)GCC>GTC	p.A170V	RADIL_uc003sng.1_RNA|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	170					cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		CACCTCCTTGGCTGCCAGCTC	0.602													21	101					0	0	0.012319	0	0		A	4917262	A	A	4917262	3	1	23	1	0	0	0	0	1	0	0	0	13022	1203	42	2	2774	2	RADIL	7	4917262	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1954494	4917262	154221401	511	19839											
SLC29A4	222962	broad.mit.edu	37	chr7	5338627	5338627	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccctccaggagcacccAgccccggccctggcccccaa	6	4	8	23	1	0	0	0	0	0	0	3	1	3	1	9	3	2	1	9	3	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:5338627A>G	uc003sod.2	+	8	1052	c.891A>G	c.(889-891)CCA>CCG	p.P297P	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Silent_p.P297P|SLC29A4_uc003soe.2_Silent_p.P283P|SLC29A4_uc010ksw.2_RNA	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	297	Cytoplasmic (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		AGGAGCACCCAGCCCCGGCCC	0.672													22	45					0	0	0.00632	0	0		G	5338627	G	G	5338627	2	3	23	1	0	0	0	0	0	0	0	1	14562	175	7	3		3	SLC29A4	7	5338627	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	421365	5338627	153800036	512	19840											
CYTH3	9265	broad.mit.edu	37	chr7	6205435	6205435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcttccaggtcttcacaCgccctcctagaagcagaagg	9	7	11	14	2	2	2	1	0	1	2	4	2	4	2	3	3	1	2	3	3	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:6205435C>T	uc003spt.2	-	10	934	c.830G>A	c.(829-831)CGT>CAT	p.R277H	CYTH3_uc011jws.1_Missense_Mutation_p.R192H	NM_004227	NP_004218	O43739	CYH3_HUMAN	cytohesin 3	278	PH.				regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|membrane fraction|plasma membrane	1-phosphatidylinositol binding|ARF guanyl-nucleotide exchange factor activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity				0						GGTCTTCACACGCCCTCCTAG	0.602													12	57					0	0	0.001855	0	0		T	6205435	T	T	6205435	3	4	23	1	0	0	0	0	1	0	0	0	4208	536	19	1	385	1	CYTH3	7	6205435	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	866808	6205435	152933228	513	19841											
AHR	196	broad.mit.edu	37	chr7	17379837	17379837	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagtactgccaggccaacaGgcatttttaaacaaggtaag	14	8	9	10	0	0	0	0	0	0	0	0	0	0	0	3	3	4	3	3	3	6	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:17379837G>T	uc011jxz.1	+	10	3001	c.2388G>T	c.(2386-2388)CAG>CAT	p.Q796H	AHR_uc003stt.3_RNA	NM_001621	NP_001612	P35869	AHR_HUMAN	aryl hydrocarbon receptor precursor	796					apoptosis|blood vessel development|cell cycle|regulation of B cell proliferation|response to stress|transcription from RNA polymerase II promoter|xenobiotic metabolic process	cytosolic aryl hydrocarbon receptor complex|transcription factor complex	Hsp90 protein binding|ligand-dependent nuclear receptor activity|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			urinary_tract(1)|kidney(1)|pancreas(1)	3	Lung NSC(10;0.0392)|all_lung(11;0.0754)					CAGGCCAACAGGCATTTTTAA	0.428													33	55					1.26612e-14	1.37497e-14	0.003271	1	0		T	17379837	T	T	17379837	3	4	23	1	0	0	0	0	1	0	0	0	416	991	35	5	2426	5	AHR	7	17379837	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	11174402	17379837	141758826	514	19842											
FERD3L	222894	broad.mit.edu	37	chr7	19184632	19184632	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcagctggtcaaaggcctcGttgaggttgaacatccgctt	8	10	12	11	3	1	2	1	2	0	0	3	2	2	2	2	3	2	5	2	3	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:19184632G>A	uc003suo.1	-	1	413	c.354C>T	c.(352-354)AAC>AAT	p.N118N	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	118	Helix-loop-helix motif.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						CAAAGGCCTCGTTGAGGTTGA	0.587													12	59					0	0	0.001855	0	0		A	19184632	A	A	19184632	2	1	23	1	0	0	0	0	0	0	0	1	5830	1136	40	1		1	FERD3L	7	19184632	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1804795	19184632	139954031	515	19843											
TWISTNB	221830	broad.mit.edu	37	chr7	19738156	19738156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcctcccagatgccattcGcattattagtattctgcagg	8	13	7	13	1	1	1	0	0	1	1	4	1	3	1	4	1	2	3	4	1	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:19738156G>A	uc003sup.1	-	4	821	c.800C>T	c.(799-801)GCG>GTG	p.A267V		NM_001002926	NP_001002926	Q3B726	RPA43_HUMAN	TWIST neighbor	267	Lys-rich.					microtubule cytoskeleton|nucleolus	DNA-directed RNA polymerase activity			ovary(1)	1						GATGCCATTCGCATTATTAGT	0.478													24	841					0	0	0.004656	0	0		A	19738156	A	A	19738156	3	1	23	1	0	0	0	0	1	0	0	0	16810	1087	38	1	220	1	TWISTNB	7	19738156	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	553524	19738156	139400507	516	19844											
SP8	221833	broad.mit.edu	37	chr7	20824665	20824665	+	Frame_Shift_Del	DEL	C	-	-																															gagtgcagcgaggtttggagCcccccggcggcagggtgcag																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:20824665delC	uc003suy.2	-	3	958	c.717delG	c.(715-717)GGGfs	p.G239fs	SP8_uc003suz.2_Frame_Shift_Del_p.G257fs	NM_198956	NP_945194	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor isoform 2	239					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						AGGTTTGGAGCCCCCCGGCGG	0.711													12	25	---	---	---	---						.	-	20824665	-	-	20824665	7	5	23	1	0	1	0	1	0	0	0	0	14995	726	26	0	759	0	SP8	7	20824665	Frame_Shift_Del	DEL	C	TCGA-BR-4368-01A-01D-1158-08	1086509	20824665	138313998	517	19845											
IGF2BP3	10643	broad.mit.edu	37	chr7	23401218	23401218	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttccgagtcagtgttcacTagaggaagagaaaaacgaag	15	8	12	6	2	2	2	2	0	0	2	3	6	3	3	1	1	1	2	1	1	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:23401218T>C	uc003swg.2	-	5	604	c.338_splice	c.e5-1	p.V113_splice		NM_006547	NP_006538	O00425	IF2B3_HUMAN	insulin-like growth factor 2 mRNA binding						anatomical structure morphogenesis|negative regulation of translation|translation	cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			ovary(2)	2						CAGTGTTCACTAGAGGAAGAG	0.348													4	127					0	0	0.001168	0	0		C	23401218	C	C	23401218	5	2	23	1	0	0	0	0	0	0	1	0	7591	1536	53	3	1447	3	IGF2BP3	7	23401218	Splice_Site	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2576553	23401218	135737445	518	19846											
PLEKHA8	84725	broad.mit.edu	37	chr7	30113715	30113715	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatggtaaaacattgcggcaAcaccatggctgggtagttcg	11	10	12	8	2	0	0	0	0	0	0	1	0	0	0	1	4	3	5	1	4	5	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:30113715A>G	uc003tam.1	+	13	1420	c.1329A>G	c.(1327-1329)CAA>CAG	p.Q443Q	PLEKHA8_uc003tao.2_Silent_p.Q327Q|PLEKHA8_uc003tap.1_Silent_p.Q443Q|PLEKHA8_uc003tan.2_Intron	NM_032639	NP_116028	Q96JA3	PKHA8_HUMAN	pleckstrin homology domain containing, family A	443					protein transport	cytoplasm	glycolipid binding|glycolipid transporter activity			breast(3)|ovary(1)	4						CATTGCGGCAACACCATGGCT	0.393													3	58					0	0	0.000602	0	0		G	30113715	G	G	30113715	2	3	23	1	0	0	0	0	0	0	0	1	12081	58	2	3		3	PLEKHA8	7	30113715	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	6712497	30113715	129024948	519	19847											
NOD1	10392	broad.mit.edu	37	chr7	30491514	30491514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggactgctggtcaccccCggggcccagctccggcaaag	8	5	13	15	2	1	0	1	0	0	0	2	1	2	1	4	5	2	3	4	5	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:30491514C>T	uc003tav.2	-	6	2042	c.1519G>A	c.(1519-1521)GGG>AGG	p.G507R		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	507	NACHT.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						TGGTCACCCCCGGGGCCCAGC	0.627													19	86					0	0	0.006122	0	0		T	30491514	T	T	30491514	3	4	23	1	0	0	0	0	1	0	0	0	10535	652	23	1	1378	1	NOD1	7	30491514	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	377799	30491514	128647149	520	19848											
ANLN	54443	broad.mit.edu	37	chr7	36489380	36489380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttgaattaattactgtccGaccacaaagagaagatgacc	15	11	7	8	1	0	4	0	2	0	2	1	6	1	4	3	0	1	0	3	0	5	4	rs140729544		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:36489380G>A	uc003tff.2	+	23	3389	c.3185G>A	c.(3184-3186)CGA>CAA	p.R1062Q	ANLN_uc011kaz.1_Missense_Mutation_p.R974Q|ANLN_uc003tfg.2_Missense_Mutation_p.R1025Q|ANLN_uc010kxe.2_Missense_Mutation_p.R1024Q	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	1062	PH.|Localization to the cleavage furrow.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						ATTACTGTCCGACCACAAAGA	0.403													37	57					0	0	0.004289	0	0		A	36489380	A	A	36489380	3	1	23	1	0	0	0	0	1	0	0	0	694	1058	37	1	3275	1	ANLN	7	36489380	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5997866	36489380	122649283	521	19849											
AOAH	313	broad.mit.edu	37	chr7	36677512	36677512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtagtgtaaatttccatGtctcctataaaaacaaagtt	14	15	5	7	0	2	0	0	0	2	0	4	0	3	0	2	0	1	3	2	0	8	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:36677512G>A	uc003tfh.3	-	5	796	c.395C>T	c.(394-396)ACA>ATA	p.T132I	AOAH_uc010kxf.2_Missense_Mutation_p.T132I|AOAH_uc011kba.1_Missense_Mutation_p.T100I	NM_001637	NP_001628	P28039	AOAH_HUMAN	acyloxyacyl hydrolase precursor	132					inflammatory response|lipid metabolic process	extracellular region	acyloxyacyl hydrolase activity|lipoprotein lipase activity			skin(1)	1						AAATTTCCATGTCTCCTATAA	0.358													11	40					0	0	0.010729	0	0		A	36677512	A	A	36677512	3	1	23	1	0	0	0	0	1	0	0	0	726	1377	48	4	1741	4	AOAH	7	36677512	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	188132	36677512	122461151	522	19850											
MRPS24	64951	broad.mit.edu	37	chr7	43906548	43906548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaaacatcctccaccgttCgctctgcggcatggtcctct	7	10	9	15	3	2	0	0	0	2	0	6	1	5	1	4	3	2	3	4	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:43906548C>T	uc003tit.1	-	4	305	c.254G>A	c.(253-255)CGA>CAA	p.R85Q		NM_032014	NP_114403	Q96EL2	RT24_HUMAN	mitochondrial ribosomal protein S24 precursor	85					translation	mitochondrial large ribosomal subunit|mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0						CTCCACCGTTCGCTCTGCGGC	0.562													17	74					0	0	0.007413	0	0		T	43906548	T	T	43906548	3	4	23	1	0	0	0	0	1	0	0	0	9853	884	31	1	253	1	MRPS24	7	43906548	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	7229036	43906548	115232115	523	19851											
AEBP1	165	broad.mit.edu	37	chr7	44152488	44152488	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcatcgtcaacggggccaAgtggaacccccggaccggga	9	3	16	13	4	1	0	1	0	0	0	2	3	1	3	4	6	2	1	4	6	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:44152488A>G	uc003tkb.2	+	18	2854	c.2549A>G	c.(2548-2550)AAG>AGG	p.K850R	AEBP1_uc003tkc.3_Missense_Mutation_p.K425R|AEBP1_uc003tkd.2_Missense_Mutation_p.K100R	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	850	Interaction with PTEN (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AACGGGGCCAAGTGGAACCCC	0.682													28	137					0	0	0.009535	0	0		G	44152488	G	G	44152488	3	3	23	1	0	0	0	0	1	0	0	0	349	72	3	3	2619	3	AEBP1	7	44152488	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	245940	44152488	114986175	524	19852											
ZPBP	11055	broad.mit.edu	37	chr7	50022992	50022992	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcattccatatcctggaaAgcagcgattaatccaaacca	15	10	5	11	1	1	0	1	0	0	0	4	2	4	1	4	1	3	1	4	1	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:50022992A>C	uc003tou.2	-	7	977	c.907T>G	c.(907-909)TTT>GTT	p.F303V	ZPBP_uc011kci.1_Missense_Mutation_p.F229V|ZPBP_uc010kyw.2_Missense_Mutation_p.F302V	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	303					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					TATCCTGGAAAGCAGCGATTA	0.333													24	36					0	0	0.00632	0	0		C	50022992	C	C	50022992	3	2	23	1	0	0	0	0	1	0	0	0	18244	72	3	5	156	5	ZPBP	7	50022992	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	5870504	50022992	109115671	525	19853											
FIGNL1	63979	broad.mit.edu	37	chr7	50514362	50514362	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttgcagtagctgactcAcctacaggtgctgagaatgt	11	12	10	8	0	1	2	1	2	0	1	1	3	1	2	1	1	4	4	1	1	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:50514362A>G	uc003tpc.2	-	4	1001	c.624T>C	c.(622-624)GGT>GGC	p.G208G	FIGNL1_uc003tpb.2_Silent_p.G97G|FIGNL1_uc003tpd.2_Silent_p.G208G|FIGNL1_uc003tpe.2_Silent_p.G208G|FIGNL1_uc010kyy.2_Silent_p.G208G	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	208					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)				TAGCTGACTCACCTACAGGTG	0.433													84	140					0	0	0.01441	0	0		G	50514362	G	G	50514362	2	3	23	1	0	0	0	0	0	0	0	1	5906	146	6	3		3	FIGNL1	7	50514362	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	491370	50514362	108624301	526	19854											
POM121L12	285877	broad.mit.edu	37	chr7	53104115	53104115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctcagtttttgtgatgatGcttggccttccgtgctggtc	3	16	12	10	1	1	2	1	2	0	0	3	2	2	2	3	2	2	3	3	2	0	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:53104115G>A	uc003tpz.2	+	1	767	c.751G>A	c.(751-753)GCT>ACT	p.A251T		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	251											0						TTGTGATGATGCTTGGCCTTC	0.637													33	76					0	0	0.00623	0	0		A	53104115	A	A	53104115	3	1	23	1	0	0	0	0	1	0	0	0	12260	1319	46	2	753	2	POM121L12	7	53104115	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2589753	53104115	106034548	527	19855											
ZNF716	441234	broad.mit.edu	37	chr7	57528978	57528978	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagagaaaccttacacaTgtgaagaacgtggcaaagtc	15	7	11	8	1	0	3	0	1	0	2	1	5	0	4	1	2	3	1	1	2	5	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:57528978T>C	uc011kdi.1	+	4	923	c.811T>C	c.(811-813)TGT>CGT	p.C271R		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						ACCTTACACATGTGAAGAACG	0.418													14	30					0	0	0.00245	0	0		C	57528978	C	C	57528978	3	2	23	1	0	0	0	0	1	0	0	0	18144	1464	51	3	825	3	ZNF716	7	57528978	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	4424863	57528978	101609685	528	19856											
POM121	9883	broad.mit.edu	37	chr7	72412589	72412589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacccttcaggcagagaCggctaccaaaccccaagcca	13	4	7	17	1	1	1	1	0	0	1	2	2	2	1	6	2	4	2	6	2	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:72412589C>T	uc003twk.2	+	11	2057	c.2057C>T	c.(2056-2058)ACG>ATG	p.T686M	POM121_uc003twj.2_Missense_Mutation_p.T421M|POM121_uc010lam.1_Missense_Mutation_p.T421M	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	686	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				CAGGCAGAGACGGCTACCAAA	0.607													31	72					0	0	0.010818	0	0		T	72412589	T	T	72412589	3	4	23	1	0	0	0	0	1	0	0	0	12258	536	19	1	1300	1	POM121	7	72412589	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	14883611	72412589	86726074	529	19857											
BAZ1B	9031	broad.mit.edu	37	chr7	72857062	72857062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acacagcactcacctgaaggGccagctgaagcggtacttca	12	6	10	13	1	2	2	2	2	0	0	2	2	2	2	2	2	4	3	2	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:72857062G>A	uc003tyc.2	-	18	4432	c.4087C>T	c.(4087-4089)CCC>TCC	p.P1363S		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	1363	Bromo.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				CACCTGAAGGGCCAGCTGAAG	0.592													20	51					0	0	0.014323	0	0		A	72857062	A	A	72857062	3	1	23	1	0	0	0	0	1	0	0	0	1331	1203	42	2	372	2	BAZ1B	7	72857062	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	444473	72857062	86281601	530	19858											
MLXIPL	51085	broad.mit.edu	37	chr7	73011248	73011248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaagtggtggctccagggCttgctccggcttagctgtgc	5	11	14	11	1	0	0	0	0	0	0	2	0	2	0	2	4	4	5	2	4	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:73011248C>T	uc003tyn.1	-	10	1666	c.1618G>A	c.(1618-1620)GCC>ACC	p.A540T	MLXIPL_uc003tyj.1_5'UTR|MLXIPL_uc003tyk.1_Missense_Mutation_p.A540T|MLXIPL_uc003tyl.1_Missense_Mutation_p.A540T|MLXIPL_uc003tym.1_Missense_Mutation_p.A540T|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_Missense_Mutation_p.A447T|MLXIPL_uc003tyq.1_Missense_Mutation_p.A282T	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	540					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				GGCTCCAGGGCTTGCTCCGGC	0.667													10	17					0	0	0.013537	0	0		T	73011248	T	T	73011248	3	4	23	1	0	0	0	0	1	0	0	0	9655	797	28	2	972	2	MLXIPL	7	73011248	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	154186	73011248	86127415	531	19859											
PCLO	27445	broad.mit.edu	37	chr7	82764703	82764703	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatctgcctcagggggctgCttggccttggctgaaggaga	7	9	16	9	0	2	2	1	1	1	1	2	4	2	2	2	5	2	3	2	5	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:82764703C>T	uc003uhx.2	-	3	2452	c.2163G>A	c.(2161-2163)AAG>AAA	p.K721K	PCLO_uc003uhv.2_Silent_p.K721K	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	667	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CAGGGGGCTGCTTGGCCTTGG	0.537													29	35					0	0	0.00632	0	0		T	82764703	T	T	82764703	2	4	23	1	0	0	0	0	0	0	0	1	11602	796	28	2		2	PCLO	7	82764703	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	9753455	82764703	76373960	532	19860											
ABCB4	5244	broad.mit.edu	37	chr7	87038559	87038559	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagaacttacaggcttcAgcccctcttcactgtagctg	9	11	8	13	0	4	1	3	0	1	1	4	2	4	1	2	1	4	3	2	1	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:87038559A>G	uc003uiv.1	-	24	3150	c.3074T>C	c.(3073-3075)CTG>CCG	p.L1025P	ABCB4_uc003uiw.1_Missense_Mutation_p.L1025P|ABCB4_uc003uix.1_Missense_Mutation_p.L978P	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	1025	Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					TACAGGCTTCAGCCCCTCTTC	0.423													18	65					0	0	0.006122	0	0		G	87038559	G	G	87038559	3	3	23	1	0	0	0	0	1	0	0	0	43	188	7	3	806	3	ABCB4	7	87038559	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	4273856	87038559	72100104	533	19861											
PEX1	5189	broad.mit.edu	37	chr7	92129019	92129019	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agataagtagacaacataccTtgacacttataaaattcatt	18	12	4	7	0	1	3	1	1	0	2	1	3	1	3	1	0	2	1	1	0	7	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:92129019T>C	uc003uly.2	-	16	2813	c.2717A>G	c.(2716-2718)AAG>AGG	p.K906R	PEX1_uc011khr.1_Missense_Mutation_p.K698R|PEX1_uc010ley.2_Missense_Mutation_p.K849R|PEX1_uc011khs.1_Missense_Mutation_p.K584R|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	906					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			ACAACATACCTTGACACTTAT	0.244													20	137					0	0	0.012319	0	0		C	92129019	C	C	92129019	3	2	23	1	0	0	0	0	1	0	0	0	11754	1623	56	3	1170	3	PEX1	7	92129019	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	5090460	92129019	67009644	534	19862											
CDK6	1021	broad.mit.edu	37	chr7	92355017	92355017	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttatttgtccgctgctggTcaccagaatgttctgtggtt	5	18	10	8	1	2	1	1	0	1	1	3	1	3	1	2	2	1	4	2	2	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:92355017T>A	uc011khw.1	-	4	872	c.460A>T	c.(460-462)ACC>TCC	p.T154S	CDK6_uc010lez.2_Missense_Mutation_p.T154S	NM_001259	NP_001250	Q00534	CDK6_HUMAN	cyclin-dependent kinase 6	154	Protein kinase.				cell dedifferentiation|cell division|G1 phase of mitotic cell cycle|gliogenesis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|negative regulation of osteoblast differentiation|positive regulation of cell-matrix adhesion|positive regulation of fibroblast proliferation|regulation of erythrocyte differentiation|regulation of gene expression|response to virus	cyclin-dependent protein kinase holoenzyme complex|cytosol|nucleus|ruffle	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			central_nervous_system(1)|skin(1)	2	all_cancers(62;8.72e-12)|all_epithelial(64;3.65e-10)|Breast(17;0.000675)|all_lung(186;0.0392)|Lung NSC(181;0.053)|all_neural(327;0.219)|all_hematologic(106;0.237)		STAD - Stomach adenocarcinoma(4;6.16e-07)|GBM - Glioblastoma multiforme(5;1.2e-06)|all cancers(6;3.1e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			CCGCTGCTGGTCACCAGAATG	0.468			T	MLLT10	ALL								19	156					0	0	0.007413	0	0		A	92355017	A	A	92355017	3	1	23	1	0	0	0	0	1	0	0	0	3151	1667	58	5	540	5	CDK6	7	92355017	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	225998	92355017	66783646	535	19863											
SAMD9	54809	broad.mit.edu	37	chr7	92732375	92732375	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgaagaacaaattctcagtTagcatatccaacataatttg	16	12	5	8	1	1	1	1	0	1	1	4	2	2	1	1	0	3	2	1	0	7	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:92732375T>C	uc003umf.2	-	3	3292	c.3036A>G	c.(3034-3036)CTA>CTG	p.L1012L	SAMD9_uc003umg.2_Silent_p.L1012L	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1012						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			AATTCTCAGTTAGCATATCCA	0.383													15	109					0	0	0.003163	0	0		C	92732375	C	C	92732375	2	2	23	1	0	0	0	0	0	0	0	1	13851	1741	61	3		3	SAMD9	7	92732375	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	377358	92732375	66406288	536	19864											
CASD1	64921	broad.mit.edu	37	chr7	94184878	94184878	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtactgatacctggaaacccTatgctcaacatcattgtcag	12	11	7	11	0	3	1	3	1	0	0	3	2	3	2	2	1	5	2	2	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:94184878T>C	uc003uni.3	+	18	2429	c.2202T>C	c.(2200-2202)CCT>CCC	p.P734P	CASD1_uc003unj.3_Silent_p.P734P	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	734	Helical; (Potential).					integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			CTGGAAACCCTATGCTCAACA	0.373													3	72					0	0	0.004672	0	0		C	94184878	C	C	94184878	2	2	23	1	0	0	0	0	0	0	0	1	2667	1509	53	3		3	CASD1	7	94184878	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1452503	94184878	64953785	537	19865											
LMTK2	22853	broad.mit.edu	37	chr7	97822305	97822305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagggagaaacccagcccaCgtgtttagatgttattgtcc	11	10	10	10	1	0	2	0	0	0	2	1	3	1	2	3	1	2	2	3	1	3	4	rs61734172	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:97822305C>T	uc003upd.1	+	11	2821	c.2528C>T	c.(2527-2529)ACG>ATG	p.T843M		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	843					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					ACCCAGCCCACGTGTTTAGAT	0.557													45	116					0	0	0.01441	0	0		T	97822305	T	T	97822305	3	4	23	1	0	0	0	0	1	0	0	0	8876	536	19	1	2570	1	LMTK2	7	97822305	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3637427	97822305	61316358	538	19866											
BAIAP2L1	55971	broad.mit.edu	37	chr7	97946560	97946560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgtgttcatatttgagtgCgtttcggcttccttggcttt	3	21	10	7	2	1	1	1	1	0	0	3	1	2	1	1	2	1	4	1	2	1	8	rs151171453		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:97946560C>T	uc003upj.2	-	6	720	c.457G>A	c.(457-459)GCA>ACA	p.A153T		NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1	153	Potential.|IMD.				filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			TATTTGAGTGCGTTTCGGCTT	0.348													52	246					0	0	0.01441	0	0		T	97946560	T	T	97946560	3	4	23	1	0	0	0	0	1	0	0	0	1303	768	27	1	1114	1	BAIAP2L1	7	97946560	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	124255	97946560	61192103	539	19867											
ARPC1A	10552	broad.mit.edu	37	chr7	98957328	98957328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaactgaggaccgcaacaCggccttggagacgctgcacc	11	4	11	15	3	0	2	0	1	0	1	0	4	0	3	3	3	3	3	3	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:98957328C>T	uc003upx.1	+	8	1097	c.950C>T	c.(949-951)ACG>ATG	p.T317M	ARPC1A_uc010lfu.1_RNA|ARPC1A_uc003upy.1_Missense_Mutation_p.T303M|ARPC1A_uc011kit.1_RNA	NM_006409	NP_006400	Q92747	ARC1A_HUMAN	actin related protein 2/3 complex subunit 1A	317					actin cytoskeleton organization|regulation of actin filament polymerization	actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	all_cancers(62;4.46e-09)|all_epithelial(64;3.44e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0258)		STAD - Stomach adenocarcinoma(171;0.215)			GACCGCAACACGGCCTTGGAG	0.537													17	51					0	0	0.00499	0	0		T	98957328	T	T	98957328	3	4	23	1	0	0	0	0	1	0	0	0	970	536	19	1	976	1	ARPC1A	7	98957328	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1010768	98957328	60181335	540	19868											
CYP3A43	64816	broad.mit.edu	37	chr7	99461224	99461224	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttttggagctggacccCgaaactgcattggcatgagg	9	10	12	10	1	0	1	0	1	0	0	0	4	0	3	3	4	4	3	3	4	2	4	rs149091175		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:99461224C>T	uc003urx.1	+	12	1421	c.1318C>T	c.(1318-1320)CGA>TGA	p.R440*	CYP3A43_uc003ury.1_Nonsense_Mutation_p.R441*|CYP3A43_uc003urz.1_Intron|CYP3A43_uc003usa.1_RNA|CYP3A43_uc010lgi.1_Nonsense_Mutation_p.R330*|CYP3A43_uc003usb.1_Intron	NM_057095	NP_476436	Q9HB55	CP343_HUMAN	cytochrome P450, family 3, subfamily A,	440			Missing (in allele CYP3A43*2).		xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)				Cetirizine(DB00341)|Doxycycline(DB00254)	AGCTGGACCCCGAAACTGCAT	0.398													15	112					0	0	0.00245	0	0		T	99461224	T	T	99461224	4	4	23	1	0	0	0	0	0	1	0	0	4182	644	23	1	1367	1	CYP3A43	7	99461224	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	503896	99461224	59677439	541	19869											
SPDYE3	441272	broad.mit.edu	37	chr7	99913460	99913460	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaagatctgagggtgtcAgacaaggtaaggttgttctc	12	10	13	6	0	3	3	1	1	2	2	4	4	3	3	0	3	0	3	0	3	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:99913460A>G	uc003uug.1	+	2	363	c.123A>G	c.(121-123)TCA>TCG	p.S41S		NM_001004351	NP_001004351	A6NKU9	SPDE3_HUMAN	speedy homolog E3	418											0						TGAGGGTGTCAGACAAGGTAA	0.522													7	328					0	0	0.00308	0	0		G	99913460	G	G	99913460	2	3	23	1	0	0	0	0	0	0	0	1	15055	175	7	3		3	SPDYE3	7	99913460	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	452236	99913460	59225203	542	19870											
ZAN	7455	broad.mit.edu	37	chr7	100350276	100350276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaccatccccatggaaaaaCccaccatctccacagaaaaa	17	5	3	16	0	2	1	1	0	1	1	4	2	3	2	6	1	1	0	6	1	4	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:100350276C>T	uc003uwj.2	+	14	2713	c.2548C>T	c.(2548-2550)CCC>TCC	p.P850S	ZAN_uc003uwk.2_Missense_Mutation_p.P850S|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	850	66 X heptapeptide repeats (approximate) (mucin-like domain).|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CATGGAAAAACCCACCATCTC	0.502													20	120					0	0	0.00278	0	0		T	100350276	T	T	100350276	3	4	23	1	0	0	0	0	1	0	0	0	17539	507	18	4	2598	4	ZAN	7	100350276	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	436816	100350276	58788387	543	19871											
ACHE	43	broad.mit.edu	37	chr7	100488914	100488914	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgagcccccgccgtgtaCgggggccattgtggggcctt	3	9	16	13	3	0	1	0	1	0	0	0	1	0	1	5	4	3	2	5	4	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:100488914C>T	uc003uxd.2	-	3	1755	c.1599G>A	c.(1597-1599)CCG>CCA	p.P533P	UFSP1_uc003uxc.3_5'Flank|ACHE_uc003uxe.2_Silent_p.P533P|ACHE_uc003uxf.2_Silent_p.P533P|ACHE_uc003uxg.2_Silent_p.P533P|ACHE_uc003uxh.2_Silent_p.P445P|ACHE_uc003uxi.2_Silent_p.P533P	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	533					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	CCGCCGTGTACGGGGGCCATT	0.706													5	86					0	0	0.001168	0	0		T	100488914	T	T	100488914	2	4	23	1	0	0	0	0	0	0	0	1	141	523	19	1		1	ACHE	7	100488914	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	138638	100488914	58649749	544	19872											
AP1S1	1174	broad.mit.edu	37	chr7	100799894	100799894	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcggttcatgctattatTcagccggcagggaaaactgc	10	10	12	9	2	2	0	2	0	0	0	2	2	2	1	1	3	5	3	1	3	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:100799894T>G	uc003uxv.3	+	2	133	c.23T>G	c.(22-24)TTC>TGC	p.F8C		NM_001283	NP_001274	P61966	AP1S1_HUMAN	adaptor-related protein complex 1, sigma 1	8					intracellular protein transport|post-Golgi vesicle-mediated transport|receptor-mediated endocytosis|regulation of defense response to virus by virus|response to virus|viral reproduction	AP-1 adaptor complex|coated pit|cytosol|lysosomal membrane	protein binding|protein transporter activity				0	Lung NSC(181;0.168)|all_lung(186;0.215)					ATGCTATTATTCAGCCGGCAG	0.522													7	9					0	0	0.004482	0	0		G	100799894	G	G	100799894	3	3	23	1	0	0	0	0	1	0	0	0	736	1783	62	5	29	5	AP1S1	7	100799894	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	310980	100799894	58338769	545	19873											
CLDN15	24146	broad.mit.edu	37	chr7	100880766	100880766	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgacgttcccgtgcacagTggacactcgccagtagctgt	8	9	12	12	3	0	1	0	1	0	0	2	3	1	2	2	1	2	4	2	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:100880766T>C	uc003uyg.1	-	1	351	c.97A>G	c.(97-99)ACT>GCT	p.T33A	CLDN15_uc003uyh.1_Missense_Mutation_p.T33A|CLDN15_uc003uyi.2_Missense_Mutation_p.T33A	NM_014343	NP_055158	P56746	CLD15_HUMAN	claudin 15	33	Extracellular (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					CCGTGCACAGTGGACACTCGC	0.572													4	38					0	0	0.009096	0	0		C	100880766	C	C	100880766	3	2	23	1	0	0	0	0	1	0	0	0	3479	1696	59	3	609	3	CLDN15	7	100880766	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	80872	100880766	58257897	546	19874											
FBXL13	222235	broad.mit.edu	37	chr7	102518012	102518012	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcaaatgttcacaatttcGtaaactcaagtagtttaaat	16	14	5	6	1	3	0	3	0	0	0	4	0	3	0	0	0	1	4	0	0	8	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:102518012G>A	uc003vaq.2	-	16	1964	c.1537C>T	c.(1537-1539)CGA>TGA	p.R513*	FBXL13_uc010liq.1_Intron|FBXL13_uc010lir.1_Nonsense_Mutation_p.R513*|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Nonsense_Mutation_p.R513*	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	513	LRR 11.										0						TCACAATTTCGTAAACTCAAG	0.323													31	38					0	0	0.010818	0	0		A	102518012	A	A	102518012	4	1	23	1	0	0	0	0	0	1	0	0	5723	1153	40	1	690	1	FBXL13	7	102518012	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1637246	102518012	56620651	547	19875											
SYPL1	6856	broad.mit.edu	37	chr7	105739652	105739652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagttttattctcagtaactGcaggaggacaattcacttga	12	13	8	8	0	2	1	2	1	1	0	3	3	2	3	0	2	2	3	0	2	3	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:105739652G>A	uc003vdp.2	-	3	282	c.200C>T	c.(199-201)GCA>GTA	p.A67V	SYPL1_uc003vdo.2_Missense_Mutation_p.A49V	NM_006754	NP_006745	Q16563	SYPL1_HUMAN	synaptophysin-like 1 isoform a	67	MARVEL.|Vesicular (Potential).				synaptic transmission	cytoplasmic vesicle membrane|integral to plasma membrane|melanosome|synaptic vesicle	transporter activity				0						CTCAGTAACTGCAGGAGGACA	0.348													24	107					0	0	0.00632	0	0		A	105739652	A	A	105739652	3	1	23	1	0	0	0	0	1	0	0	0	15487	1319	46	2	595	2	SYPL1	7	105739652	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3221640	105739652	53399011	548	19876											
PIK3CG	5294	broad.mit.edu	37	chr7	106509611	106509611	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcctaagcatcagcccacCcctgacccggaaggggaccg	9	4	11	17	2	1	1	1	1	0	0	1	3	1	3	6	3	3	1	6	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:106509611C>T	uc003vdv.3	+	2	1690	c.1605C>T	c.(1603-1605)ACC>ACT	p.T535T	PIK3CG_uc003vdu.2_Silent_p.T535T|PIK3CG_uc003vdw.2_Silent_p.T535T	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	535					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						ATCAGCCCACCCCTGACCCGG	0.542													47	101					0	0	0.01441	0	0		T	106509611	T	T	106509611	2	4	23	1	0	0	0	0	0	0	0	1	11935	610	22	4		4	PIK3CG	7	106509611	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	769959	106509611	52629052	549	19877											
COG5	10466	broad.mit.edu	37	chr7	106871061	106871061	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagaattcggtcttaccTgaatgatctcagcatccgat	13	11	7	10	2	2	3	1	2	2	1	5	4	3	3	2	1	2	1	2	1	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:106871061T>C	uc003ved.2	-	18	2722	c.2197A>G	c.(2197-2199)AGA>GGA	p.R733G	COG5_uc003vec.2_Missense_Mutation_p.R754G|COG5_uc003vee.2_Missense_Mutation_p.R754G	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	733					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						CGGTCTTACCTGAATGATCTC	0.313													20	208					0	0	0.014323	0	0		C	106871061	C	C	106871061	3	2	23	1	0	0	0	0	1	0	0	0	3664	1594	55	3	342	3	COG5	7	106871061	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	361450	106871061	52267602	550	19878											
LRRN3	54674	broad.mit.edu	37	chr7	110763732	110763732	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgagctgatttccatcgatAgtcttgctgtggataacctg	8	14	10	9	1	1	2	0	2	1	0	3	4	2	3	2	1	3	2	2	1	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:110763732A>G	uc003vft.3	+	4	1950	c.904A>G	c.(904-906)AGT>GGT	p.S302G	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.S302G|LRRN3_uc003vfs.3_Missense_Mutation_p.S302G	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	302	Extracellular (Potential).|LRR 10.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		TTCCATCGATAGTCTTGCTGT	0.363													54	97					0	0	0.01441	0	0		G	110763732	G	G	110763732	3	3	23	1	0	0	0	0	1	0	0	0	9054	420	15	3	906	3	LRRN3	7	110763732	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	3892671	110763732	48374931	551	19879											
LRRN3	54674	broad.mit.edu	37	chr7	110764048	110764048	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaattccaaggtcagaatgTtcggcaagtgcatttcaggg	11	11	12	7	1	2	2	2	1	0	1	4	2	3	2	1	3	1	3	1	3	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:110764048T>A	uc003vft.3	+	4	2266	c.1220T>A	c.(1219-1221)GTT>GAT	p.V407D	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.V407D|LRRN3_uc003vfs.3_Missense_Mutation_p.V407D	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	407	Extracellular (Potential).|LRRCT.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		GGTCAGAATGTTCGGCAAGTG	0.438													38	87					0	0	0.004289	0	0		A	110764048	A	A	110764048	3	1	23	1	0	0	0	0	1	0	0	0	9054	1725	60	5	1222	5	LRRN3	7	110764048	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	316	110764048	48374615	552	19880											
GPR37	2861	broad.mit.edu	37	chr7	124386748	124386748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcactccatgaaggccCgactgaagggtttgcagaga	12	6	13	10	1	0	3	0	2	0	1	1	5	1	3	2	2	3	4	2	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:124386748C>T	uc003vli.2	-	2	2324	c.1673G>A	c.(1672-1674)CGG>CAG	p.R558Q		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	558	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CATGAAGGCCCGACTGAAGGG	0.488													5	125					0	0	0.001168	0	0		T	124386748	T	T	124386748	3	4	23	1	0	0	0	0	1	0	0	0	6706	652	23	1	172	1	GPR37	7	124386748	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	13622700	124386748	34751915	553	19881											
ZNF800	168850	broad.mit.edu	37	chr7	127013401	127013401	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaactgttcctcaccagacAagagccttagatcttgtact	11	13	6	11	0	2	3	1	0	1	3	3	3	3	3	3	0	3	2	3	0	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:127013401A>G	uc003vlx.1	-	5	2252	c.1989T>C	c.(1987-1989)CTT>CTC	p.L663L	ZNF800_uc003vlw.1_Silent_p.L566L|ZNF800_uc003vly.1_Silent_p.L663L|ZNF800_uc010lla.2_Silent_p.L663L	NM_176814	NP_789784	Q2TB10	ZN800_HUMAN	zinc finger protein 800	663					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTCACCAGACAAGAGCCTTAG	0.368													35	55					0	0	0.004878	0	0		G	127013401	G	G	127013401	2	3	23	1	0	0	0	0	0	0	0	1	18194	117	5	3		3	ZNF800	7	127013401	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2626653	127013401	32125262	554	19882											
ZNF800	168850	broad.mit.edu	37	chr7	127014560	127014560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactagaacattcttactgCgtcctttagaggattggttt	10	15	9	7	1	1	2	0	0	1	2	2	4	2	3	1	2	4	1	1	2	5	7	rs141987989	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:127014560C>T	uc003vlx.1	-	5	1093	c.830G>A	c.(829-831)CGC>CAC	p.R277H	ZNF800_uc003vlw.1_Missense_Mutation_p.R180H|ZNF800_uc003vly.1_Missense_Mutation_p.R277H|ZNF800_uc010lla.2_Missense_Mutation_p.R277H	NM_176814	NP_789784	Q2TB10	ZN800_HUMAN	zinc finger protein 800	277					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATTCTTACTGCGTCCTTTAGA	0.368													59	125					0	0	0.01441	0	0		T	127014560	T	T	127014560	3	4	23	1	0	0	0	0	1	0	0	0	18194	768	27	1	1172	1	ZNF800	7	127014560	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1159	127014560	32124103	555	19883											
FSCN3	29999	broad.mit.edu	37	chr7	127236057	127236057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttcatctcagtcatctacGgcaagtgctggacccaacac	10	9	9	13	1	4	0	3	0	2	0	5	1	4	1	1	3	3	3	1	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:127236057G>A	uc003vmd.1	+	2	1060	c.841G>A	c.(841-843)GAT>AAT	p.D281N	FSCN3_uc003vmc.1_3'UTR|FSCN3_uc011kog.1_RNA|FSCN3_uc011koh.1_Missense_Mutation_p.D147N|FSCN3_uc010llc.1_Missense_Mutation_p.D281N	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	281						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						AGTCATCTACGGCAAGTGCTG	0.517													24	36					0	0	0.00333	0	0		A	127236057	A	A	127236057	3	1	23	1	0	0	0	0	1	0	0	0	6083	1130	39	1	847	1	FSCN3	7	127236057	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	221497	127236057	31902606	556	19884											
FAM71F1	84691	broad.mit.edu	37	chr7	128356976	128356976	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccaacatcctactcatggCcagtgtcaaatggcaccagg	11	7	8	15	0	2	0	2	0	0	0	3	0	3	0	5	3	2	1	5	3	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:128356976C>A	uc003vno.1	+	2	412	c.359C>A	c.(358-360)GCC>GAC	p.A120D	FAM71F1_uc010llo.1_Missense_Mutation_p.A21D|FAM71F1_uc011koq.1_Silent_p.G44G|FAM71F1_uc003vnm.1_RNA|FAM71F1_uc003vnn.1_Silent_p.G41G|FAM71F1_uc010llp.1_RNA|FAM71F1_uc003vnp.1_Missense_Mutation_p.A120D	NM_032599	NP_115988	Q96KD3	F71F1_HUMAN	testes development-related NYD-SP18	120										skin(1)	1						CTACTCATGGCCAGTGTCAAA	0.562													17	28					5.3912e-06	5.58398e-06	0.006122	1	0		A	128356976	A	A	128356976	3	1	23	1	0	0	0	0	1	0	0	0	5626	739	26	5	365	5	FAM71F1	7	128356976	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1120919	128356976	30781687	557	19885											
AHCYL2	23382	broad.mit.edu	37	chr7	129062714	129062714	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccagaactgacctgggagCgagtgagatctcaagttgac	12	7	12	10	1	1	4	1	3	1	2	2	7	1	5	2	1	2	1	2	1	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:129062714C>T	uc011kov.1	+	13	1549	c.1495C>T	c.(1495-1497)CGA>TGA	p.R499*	AHCYL2_uc003vot.2_Nonsense_Mutation_p.R498*|AHCYL2_uc003vov.2_Nonsense_Mutation_p.R396*|AHCYL2_uc011kow.1_Nonsense_Mutation_p.R397*|AHCYL2_uc011kox.1_Nonsense_Mutation_p.R396*	NM_015328	NP_056143	Q96HN2	SAHH3_HUMAN	S-adenosylhomocysteine hydrolase-like 2 isoform	499					one-carbon metabolic process		adenosylhomocysteinase activity			ovary(2)	2						GACCTGGGAGCGAGTGAGATC	0.512													16	94					0	0	0.00499	0	0		T	129062714	T	T	129062714	4	4	23	1	0	0	0	0	0	1	0	0	411	760	27	1	1667	1	AHCYL2	7	129062714	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	705738	129062714	30075949	558	19886											
CPA2	1358	broad.mit.edu	37	chr7	129929544	129929544	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agccgaggagacctggcttgGcttgaaggcaatcatggagc	10	7	15	9	1	1	2	1	1	0	1	1	5	1	3	2	5	2	3	2	5	2	2	rs148949036		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:129929544G>C	uc003vpq.2	+	11	1236	c.1217G>C	c.(1216-1218)GGC>GCC	p.G406A		NM_001869	NP_001860	P48052	CBPA2_HUMAN	carboxypeptidase A2 (pancreatic) precursor	406					proteolysis|vacuolar protein catabolic process	extracellular region|vacuole	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					ACCTGGCTTGGCTTGAAGGCA	0.527													5	139					0	0	0.001984	0	0		C	129929544	C	C	129929544	3	2	23	1	0	0	0	0	1	0	0	0	3793	1203	42	5	1259	5	CPA2	7	129929544	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	866830	129929544	29209119	559	19887											
CPA4	51200	broad.mit.edu	37	chr7	129946724	129946724	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatcctgatggatatgtgtAtactcaaactcaagtgagta	14	12	8	7	0	2	2	2	2	0	0	3	3	3	3	1	1	2	2	1	1	7	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:129946724A>G	uc003vpr.2	+	7	736	c.689A>G	c.(688-690)TAT>TGT	p.Y230C	CPA4_uc011kpd.1_Missense_Mutation_p.Y197C|CPA4_uc011kpe.1_Missense_Mutation_p.Y126C	NM_016352	NP_057436	Q9UI42	CBPA4_HUMAN	carboxypeptidase A4 preproprotein	230					histone acetylation|proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					GGATATGTGTATACTCAAACT	0.423													5	63					0	0	0.001168	0	0		G	129946724	G	G	129946724	3	3	23	1	0	0	0	0	1	0	0	0	3795	449	16	3	715	3	CPA4	7	129946724	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	17180	129946724	29191939	560	19888											
CPA1	1357	broad.mit.edu	37	chr7	130021652	130021652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgttcgccttccggtcccGggcgcgctccaccgacactt	4	9	11	17	6	0	0	0	0	0	0	4	2	3	0	5	2	0	2	5	2	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:130021652G>A	uc003vpx.2	+	3	401	c.329G>A	c.(328-330)CGG>CAG	p.R110Q	CPA1_uc011kpf.1_Missense_Mutation_p.R22Q|CPA1_uc003vpw.2_Intron	NM_001868	NP_001859	P15085	CBPA1_HUMAN	carboxypeptidase A1 precursor	110					proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					TTCCGGTCCCGGGCGCGCTCC	0.627											OREG0018314	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	24					0	0	0.004007	0	0		A	130021652	A	A	130021652	3	1	23	1	0	0	0	0	1	0	0	0	3792	1116	39	1	339	1	CPA1	7	130021652	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	74928	130021652	29117011	561	19889											
CPA1	1357	broad.mit.edu	37	chr7	130025028	130025028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcggagacttaccacGgcaagtttgccaattccgaa	10	9	9	13	3	0	1	0	0	0	1	2	3	1	1	4	2	3	3	4	2	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:130025028G>A	uc003vpx.2	+	8	901	c.829G>A	c.(829-831)GGC>AGC	p.G277S	CPA1_uc003vpw.2_Missense_Mutation_p.G111S	NM_001868	NP_001859	P15085	CBPA1_HUMAN	carboxypeptidase A1 precursor	277					proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					GACTTACCACGGCAAGTTTGC	0.557													19	80					0	0	0.006122	0	0		A	130025028	A	A	130025028	3	1	23	1	0	0	0	0	1	0	0	0	3792	1116	39	1	859	1	CPA1	7	130025028	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3376	130025028	29113635	562	19890											
PLXNA4	91584	broad.mit.edu	37	chr7	132174136	132174136	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagacgtcatgcggtccCtgtcctccgtgaagacggga	8	8	13	12	4	1	4	1	2	0	2	4	5	4	5	3	2	1	0	3	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:132174136C>A	uc003vra.3	-	3	1515	c.1286G>T	c.(1285-1287)AGG>ATG	p.R429M	PLXNA4_uc003vrc.2_Missense_Mutation_p.R429M|PLXNA4_uc003vrb.2_Missense_Mutation_p.R429M	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	429	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CATGCGGTCCCTGTCCTCCGT	0.532													9	55					1.58986e-06	1.65283e-06	0.008291	1	0		A	132174136	A	A	132174136	3	1	23	1	0	0	0	0	1	0	0	0	12141	681	24	5	4832	5	PLXNA4	7	132174136	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2149108	132174136	26964527	563	19891											
CHCHD3	54927	broad.mit.edu	37	chr7	132754985	132754985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcgatcaatcacattttccGaaagctggaaaagcaacatc	15	10	6	10	2	2	0	2	0	0	0	5	3	3	1	1	1	3	2	1	1	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:132754985G>A	uc003vre.2	-	2	222	c.86C>T	c.(85-87)TCG>TTG	p.S29L	CHCHD3_uc010lmi.2_RNA|CHCHD3_uc003vrf.2_Missense_Mutation_p.S29L|CHCHD3_uc010lmj.2_Intron|CHCHD3_uc011kpn.1_Missense_Mutation_p.S29L	NM_017812	NP_060282	Q9NX63	CHCH3_HUMAN	coiled-coil-helix-coiled-coil-helix domain	29					inner mitochondrial membrane organization|mitochondrial fusion	mitochondrial inner membrane	protein complex scaffold				0						CACATTTTCCGAAAGCTGGAA	0.368													8	56					0	0	0.00308	0	0		A	132754985	A	A	132754985	3	1	23	1	0	0	0	0	1	0	0	0	3320	1059	37	1	625	1	CHCHD3	7	132754985	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	580849	132754985	26383678	564	19892											
WDR91	29062	broad.mit.edu	37	chr7	134891882	134891882	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaacaaaccttctgacgcAgaacttcattttcttcttga	12	13	5	11	1	4	4	1	2	3	2	4	4	4	4	1	0	3	1	1	0	3	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:134891882A>G	uc003vsp.2	-	4	646	c.584T>C	c.(583-585)CTG>CCG	p.L195P	WDR91_uc010lmq.2_5'UTR|WDR91_uc010lmr.2_RNA	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91	195	Potential.									breast(2)|ovary(1)|skin(1)	4						CTTCTGACGCAGAACTTCATT	0.443													14	105					0	0	0.00245	0	0		G	134891882	G	G	134891882	3	3	23	1	0	0	0	0	1	0	0	0	17364	188	7	3	1707	3	WDR91	7	134891882	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2136897	134891882	24246781	565	19893											
STRA8	346673	broad.mit.edu	37	chr7	134925394	134925394	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtcccaggcccgccacCgagccaccctggcagcgctc	5	4	12	20	3	0	0	0	0	0	0	2	1	1	0	6	3	2	3	6	3	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:134925394C>T	uc011kpx.1	+	2	184	c.184C>T	c.(184-186)CGA>TGA	p.R62*		NM_182489	NP_872295	Q7Z7C7	STRA8_HUMAN	STRA8	62					DNA replication|regulation of transcription, DNA-dependent	cytoplasm|nucleus					0						GGCCCGCCACCGAGCCACCCT	0.607													16	90					0	0	0.005443	0	0		T	134925394	T	T	134925394	4	4	23	1	0	0	0	0	0	1	0	0	15348	644	23	1	190	1	STRA8	7	134925394	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	33512	134925394	24213269	566	19894											
NUP205	23165	broad.mit.edu	37	chr7	135272360	135272360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgggcagatgaagatgctcGaatgattcacatgagtatgc	12	10	12	7	2	1	5	1	3	0	2	3	6	1	5	0	1	2	3	0	1	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:135272360G>A	uc003vsw.2	+	9	1287	c.1256G>A	c.(1255-1257)CGA>CAA	p.R419Q	NUP205_uc011kqa.1_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	419					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						GAAGATGCTCGAATGATTCAC	0.343													9	65					0	0	0.004482	0	0		A	135272360	A	A	135272360	3	1	23	1	0	0	0	0	1	0	0	0	10778	1058	37	1	1290	1	NUP205	7	135272360	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	346966	135272360	23866303	567	19895											
NUP205	23165	broad.mit.edu	37	chr7	135310094	135310094	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagcactttatacttatgaAtctaaaatggtaaggctttc	15	14	6	6	0	1	1	0	1	1	0	2	1	1	1	0	2	2	3	0	2	8	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:135310094A>G	uc003vsw.2	+	32	4693	c.4662A>G	c.(4660-4662)GAA>GAG	p.E1554E	NUP205_uc003vsx.2_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1554					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						ATACTTATGAATCTAAAATGG	0.378													11	146					0	0	0.010729	0	0		G	135310094	G	G	135310094	2	3	23	1	0	0	0	0	0	0	0	1	10778	98	4	3		3	NUP205	7	135310094	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	37734	135310094	23828569	568	19896											
C7orf34	135927	broad.mit.edu	37	chr7	142637594	142637594	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcagcttctgctttagtctgGccagtgtcatggttttctca	5	17	9	10	0	5	0	3	0	3	0	6	0	5	0	1	2	2	3	1	2	1	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:142637594G>A	uc003wca.2	+	2	405	c.364G>A	c.(364-366)GCC>ACC	p.A122T		NM_178829	NP_849151	Q96L11	CG034_HUMAN	hypothetical protein LOC135927	97						extracellular region					0	Melanoma(164;0.059)					CTTTAGTCTGGCCAGTGTCAT	0.557													5	243					0	0	0.001168	0	0		A	142637594	A	A	142637594	3	1	23	1	0	0	0	0	1	0	0	0	2392	1203	42	2	370	2	C7orf34	7	142637594	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	7327500	142637594	16501069	569	19897											
KEL	3792	broad.mit.edu	37	chr7	142638384	142638384	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttcaagagagcaccacgTgcacagcggaaatacctggc	12	5	13	11	2	1	1	1	0	0	1	1	3	1	2	2	3	4	3	2	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:142638384T>C	uc003wcb.2	-	19	2364	c.2154A>G	c.(2152-2154)GCA>GCG	p.A718A		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	718	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					GAGCACCACGTGCACAGCGGA	0.602													40	85					0	0	0.00874	0	0		C	142638384	C	C	142638384	2	2	23	1	0	0	0	0	0	0	0	1	8158	1683	59	3		3	KEL	7	142638384	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	790	142638384	16500279	570	19898											
KEL	3792	broad.mit.edu	37	chr7	142643397	142643397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacttcatccatcgtgggCgggcaggctatggagacaaa	10	7	13	11	3	1	1	1	0	0	1	3	2	2	1	1	4	0	3	1	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:142643397C>T	uc003wcb.2	-	11	1421	c.1211G>A	c.(1210-1212)CGC>CAC	p.R404H		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	404	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					CCATCGTGGGCGGGCAGGCTA	0.567													5	25					0	0	0.000602	0	0		T	142643397	T	T	142643397	3	4	23	1	0	0	0	0	1	0	0	0	8158	768	27	1	1023	1	KEL	7	142643397	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5013	142643397	16495266	571	19899											
GIMAP8	155038	broad.mit.edu	37	chr7	150174435	150174435	+	Frame_Shift_Del	DEL	A	-	-																															gcgctgtttgtcctgctgtgAaaaaggggacacattttttg																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:150174435delA	uc003whj.2	+	5	1895	c.1565delA	c.(1564-1566)GAAfs	p.E522fs		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	522						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		TCCTGCTGTGAAAAAGGGGAC	0.517													35	71	---	---	---	---						.	-	150174435	-	-	150174435	7	5	23	1	0	1	0	1	0	0	0	0	6400	246	9	0	1579	0	GIMAP8	7	150174435	Frame_Shift_Del	DEL	A	TCGA-BR-4368-01A-01D-1158-08	7531038	150174435	8964228	572	19900											
CHPF2	54480	broad.mit.edu	37	chr7	150935717	150935717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggggctagggggccgtGcccagctggctatggctctc	4	8	18	11	1	1	0	0	0	1	0	2	1	1	1	2	7	2	4	2	7	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:150935717G>A	uc003wjr.1	+	4	3782	c.2269G>A	c.(2269-2271)GCC>ACC	p.A757T	CHPF2_uc003wjq.1_Missense_Mutation_p.A749T	NM_019015	NP_061888	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	757	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(1)	1						AGGGGGCCGTGCCCAGCTGGC	0.622													8	24					0	0	0.010729	0	0		A	150935717	A	A	150935717	3	1	23	1	0	0	0	0	1	0	0	0	3372	1319	46	2	2283	2	CHPF2	7	150935717	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	761282	150935717	8202946	573	19901											
PRKAG2	51422	broad.mit.edu	37	chr7	151372719	151372719	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacggagaggaggagaggccGgaggctgcagaagaaacacc	14	1	18	8	2	0	4	0	0	0	4	0	9	0	6	2	6	2	2	2	6	2	0	rs141804012		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:151372719G>A	uc003wkk.2	-	4	1082	c.471C>T	c.(469-471)TCC>TCT	p.S157S	PRKAG2_uc011kvl.1_Silent_p.S33S|PRKAG2_uc003wkj.2_Silent_p.S113S|PRKAG2_uc010lqe.1_RNA|PRKAG2_uc003wkm.1_Silent_p.S157S	NM_016203	NP_057287	Q9UGJ0	AAKG2_HUMAN	AMP-activated protein kinase gamma2 subunit	157					ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)		AGGAGAGGCCGGAGGCTGCAG	0.592													30	121					0	0	0.00632	0	0		A	151372719	A	A	151372719	2	1	23	1	0	0	0	0	0	0	0	1	12523	1103	39	1		1	PRKAG2	7	151372719	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	437002	151372719	7765944	574	19902											
MLL3	58508	broad.mit.edu	37	chr7	151845959	151845959	+	Frame_Shift_Del	DEL	T	-	-																															ttccatttcattcctctccaTtttttattgagcggcctgca																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:151845959delT	uc003wla.2	-	52	13272	c.13053delA	c.(13051-13053)AAAfs	p.K4351fs	MLL3_uc003wkz.2_Frame_Shift_Del_p.K3469fs|MLL3_uc003wkx.2_Frame_Shift_Del_p.K509fs|MLL3_uc003wky.2_Frame_Shift_Del_p.K1915fs	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4351					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTCCTCTCCATTTTTTATTGA	0.443			N		medulloblastoma								40	59	---	---	---	---						.	-	151845959	-	-	151845959	7	5	23	1	0	1	0	1	0	0	0	0	9640	1490	52	0	1714	0	MLL3	7	151845959	Frame_Shift_Del	DEL	T	TCGA-BR-4368-01A-01D-1158-08	473240	151845959	7292704	575	19903											
PTPRN2	5799	broad.mit.edu	37	chr7	157959937	157959937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggtaggtcagcgcagacGtgtgggccacataggtcagg	9	6	18	8	2	2	1	2	0	0	1	2	2	2	1	1	5	1	2	1	5	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr7:157959937G>A	uc003wno.2	-	6	717	c.596C>T	c.(595-597)ACG>ATG	p.T199M	PTPRN2_uc003wnp.2_Missense_Mutation_p.T182M|PTPRN2_uc003wnq.2_Missense_Mutation_p.T199M|PTPRN2_uc003wnr.2_Missense_Mutation_p.T161M|PTPRN2_uc011kwa.1_Missense_Mutation_p.T222M	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	199	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CAGCGCAGACGTGTGGGCCAC	0.622													15	86					0	0	0.004007	0	0		A	157959937	A	A	157959937	3	1	23	1	0	0	0	0	1	0	0	0	12833	1145	40	1	2523	1	PTPRN2	7	157959937	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	6113978	157959937	1178726	576	19904											
ARHGEF10	9639	broad.mit.edu	37	chr8	1808270	1808270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgtaccctgcggctatgCggtgccctccaacctgcccc	4	8	10	19	2	0	0	0	0	0	0	1	0	1	0	7	2	6	2	7	2	3	2	rs151080025	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:1808270C>T	uc003wpr.2	+	4	579	c.401C>T	c.(400-402)GCG>GTG	p.A134V	ARHGEF10_uc003wpq.1_Missense_Mutation_p.A158V|ARHGEF10_uc003wps.2_Missense_Mutation_p.A134V|ARHGEF10_uc003wpt.2_Missense_Mutation_p.A48V|ARHGEF10_uc010lrd.1_Missense_Mutation_p.A48V|ARHGEF10_uc003wpu.2_Missense_Mutation_p.A48V	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	158					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TGCGGCTATGCGGTGCCCTCC	0.667													13	86					0	0	0.003163	0	0		T	1808270	T	T	1808270	3	4	23	1	0	0	0	0	1	0	0	0	894	768	27	1	411	1	ARHGEF10	8	1808270	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08		1808270	144555752	577	19905											
MYOM2	9172	broad.mit.edu	37	chr8	2044088	2044088	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttgtgcttccttgcagcCgtcccgtcccatccttatgg	3	14	10	14	2	0	0	0	0	0	0	4	0	4	0	5	2	3	3	5	2	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:2044088C>A	uc003wpx.3	+	18	2265	c.2127C>A	c.(2125-2127)ACC>ACA	p.T709T	MYOM2_uc011kwi.1_Silent_p.T134T	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	709					muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		TCCTTGCAGCCGTCCCGTCCC	0.622													40	177					1.06522e-23	1.17657e-23	0.013114	1	0		A	2044088	A	A	2044088	2	1	23	1	0	0	0	0	0	0	0	1	10110	666	23	5		5	MYOM2	8	2044088	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	235818	2044088	144319934	578	19906											
CSMD1	64478	broad.mit.edu	37	chr8	2796120	2796120	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagggctataccactgtaCagactgtgttcagagttgtg	9	12	12	8	0	1	3	1	1	0	2	1	3	1	3	1	1	2	4	1	1	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:2796120C>A	uc011kwk.1	-	70	11075	c.10685G>T	c.(10684-10686)TGT>TTT	p.C3562F	CSMD1_uc011kwj.1_Missense_Mutation_p.C2876F|CSMD1_uc010lrg.2_Missense_Mutation_p.C1453F	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3562	Cytoplasmic (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TACCACTGTACAGACTGTGTT	0.463													6	18					0.00198382	0.00201866	0.001984	1	0		A	2796120	A	A	2796120	3	1	23	1	0	0	0	0	1	0	0	0	3947	478	17	5	16	5	CSMD1	8	2796120	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	752032	2796120	143567902	579	19907											
CSMD1	64478	broad.mit.edu	37	chr8	2857552	2857552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacggaagttcccacaagccGgaaaccaggattgcactggt	12	6	11	12	2	0	0	0	0	0	0	1	3	1	3	3	4	3	2	3	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:2857552G>A	uc011kwk.1	-	53	8524	c.8134C>T	c.(8134-8136)CGG>TGG	p.R2712W	CSMD1_uc011kwj.1_Missense_Mutation_p.R2041W|CSMD1_uc010lrg.2_Missense_Mutation_p.R722W	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2712	Extracellular (Potential).|Sushi 18.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CCCACAAGCCGGAAACCAGGA	0.527													35	169					0	0	0.01441	0	0		A	2857552	A	A	2857552	3	1	23	1	0	0	0	0	1	0	0	0	3947	1115	39	1	2635	1	CSMD1	8	2857552	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	61432	2857552	143506470	580	19908											
CSMD1	64478	broad.mit.edu	37	chr8	3216699	3216699	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccttggcagaggtgcactCcacacacggcggcccccacc	8	4	10	19	2	0	1	0	0	0	1	1	1	1	1	5	4	1	2	5	4	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:3216699C>A	uc011kwk.1	-	21	3672	c.3282G>T	c.(3280-3282)TGG>TGT	p.W1094C	CSMD1_uc011kwj.1_Missense_Mutation_p.W486C|CSMD1_uc003wqe.2_Missense_Mutation_p.W250C	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1094	Sushi 6.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GAGGTGCACTCCACACACGGC	0.572													12	116					0.000308642	0.000315785	0.003163	1	0		A	3216699	A	A	3216699	3	1	23	1	0	0	0	0	1	0	0	0	3947	856	30	5	7615	5	CSMD1	8	3216699	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	359147	3216699	143147323	581	19909											
ANGPT2	285	broad.mit.edu	37	chr8	6372237	6372237	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctctgaaaatcaacgctGccatcctcacgtcgctgaat	10	10	7	14	3	3	2	2	2	1	0	6	2	5	2	3	0	2	2	3	0	4	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:6372237G>A	uc003wqj.3	-	6	1322	c.993C>T	c.(991-993)GGC>GGT	p.G331G	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Silent_p.G330G|ANGPT2_uc010lri.2_Silent_p.G279G|ANGPT2_uc003wql.3_Silent_p.G330G	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	331	Fibrinogen C-terminal.				angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		AATCAACGCTGCCATCCTCAC	0.448													46	226					0	0	0.01441	0	0		A	6372237	A	A	6372237	2	1	23	1	0	0	0	0	0	0	0	1	611	1306	46	2		2	ANGPT2	8	6372237	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3155538	6372237	139991785	582	19910											
PRSS55	203074	broad.mit.edu	37	chr8	10389018	10389018	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggccctgccacatggcgCgaatgctgggtggcaggttg	5	7	16	13	3	0	0	0	0	0	0	0	1	0	0	3	5	2	3	3	5	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:10389018C>T	uc003wta.2	+	3	576	c.561C>T	c.(559-561)CGC>CGT	p.R187R	uc010lru.2_Intron|PRSS55_uc003wtb.2_RNA	NM_198464	NP_940866	Q6UWB4	PRS55_HUMAN	hypothetical protein LOC203074 precursor	187	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane	serine-type endopeptidase activity			ovary(1)	1						CCACATGGCGCGAATGCTGGG	0.602													17	81					0	0	0.014323	0	0		T	10389018	T	T	10389018	2	4	23	1	0	0	0	0	0	0	0	1	12656	755	27	1		1	PRSS55	8	10389018	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4016781	10389018	135975004	583	19911											
AMAC1L2	83650	broad.mit.edu	37	chr8	11188883	11188883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgccctgctacttaaactgCgtggcgacccccttctggga	6	11	10	14	2	1	0	0	0	1	0	1	2	1	1	3	2	5	1	3	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:11188883C>T	uc003wtp.1	+	1	389	c.268C>T	c.(268-270)CGT>TGT	p.R90C		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	90	DUF6 1.					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		ACTTAAACTGCGTGGCGACCC	0.582													61	338					0	0	0.01441	0	0		T	11188883	T	T	11188883	3	4	23	1	0	0	0	0	1	0	0	0	560	768	27	1	270	1	AMAC1L2	8	11188883	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	799865	11188883	135175139	584	19912											
MTUS1	57509	broad.mit.edu	37	chr8	17542025	17542025	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggctggatacataagcttcGaggattcttttgcctgctct	7	15	10	9	1	2	0	0	0	2	0	3	3	2	2	1	3	4	3	1	3	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:17542025G>A	uc003wxv.2	-	7	3124	c.2650C>T	c.(2650-2652)CGA>TGA	p.R884*	MTUS1_uc003wxt.2_Nonsense_Mutation_p.R131*|MTUS1_uc011kyg.1_Nonsense_Mutation_p.R29*|MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Nonsense_Mutation_p.R830*|MTUS1_uc003wxs.2_Nonsense_Mutation_p.R50*|hsa-mir-548v|MI0014174_5'Flank	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	884						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		CATAAGCTTCGAGGATTCTTT	0.398													6	346					0	0	0.001168	0	0		A	17542025	A	A	17542025	4	1	23	1	0	0	0	0	0	1	0	0	9983	1066	37	1	1198	1	MTUS1	8	17542025	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	6353142	17542025	128821997	585	19913											
GFRA2	2675	broad.mit.edu	37	chr8	21608373	21608373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaggagcgcagcttcttgCagttgtcattcaggttgcag	8	11	14	8	1	3	0	2	0	1	0	3	2	3	2	0	3	4	6	0	3	0	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:21608373C>T	uc003wzu.1	-	4	1196	c.521G>A	c.(520-522)TGC>TAC	p.C174Y	GFRA2_uc003wzv.1_Missense_Mutation_p.C69Y|GFRA2_uc003wzw.1_Missense_Mutation_p.C41Y|DOK2_uc003wzx.1_Intron	NM_001495	NP_001486	O00451	GFRA2_HUMAN	GDNF family receptor alpha 2 isoform a	174						anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity				0				Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)		CAGCTTCTTGCAGTTGTCATT	0.617													11	76					0	0	0.008291	0	0		T	21608373	T	T	21608373	3	4	23	1	0	0	0	0	1	0	0	0	6363	710	25	2	897	2	GFRA2	8	21608373	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4066348	21608373	124755649	586	19914											
XPO7	23039	broad.mit.edu	37	chr8	21839264	21839264	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttatcagacccaaacaattAccatgagttttgcagactac	14	12	5	10	0	1	3	1	1	0	2	1	3	1	3	2	0	4	2	2	0	5	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:21839264A>G	uc003xaa.3	+	10	1082	c.980A>G	c.(979-981)TAC>TGC	p.Y327C	XPO7_uc010lti.2_Missense_Mutation_p.Y336C|XPO7_uc010ltk.2_Missense_Mutation_p.Y328C	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	327				Missing (in Ref. 3; BAA34465).	mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		CCAAACAATTACCATGAGTTT	0.403													26	113					0	0	0.005443	0	0		G	21839264	G	G	21839264	3	3	23	1	0	0	0	0	1	0	0	0	17475	391	14	3	1070	3	XPO7	8	21839264	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	230891	21839264	124524758	587	19915											
BMP1	649	broad.mit.edu	37	chr8	22051620	22051620	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctatcgtctccactgacagCcgcctctgggttgaattccg	6	11	9	15	3	2	2	0	2	2	0	5	2	3	2	5	1	1	1	5	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:22051620C>T	uc003xbg.2	+	10	1474	c.1230C>T	c.(1228-1230)AGC>AGT	p.S410S	BMP1_uc003xba.2_Silent_p.S410S|BMP1_uc003xbb.2_Silent_p.S410S|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Silent_p.S159S|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Silent_p.S159S|BMP1_uc011kzc.1_Silent_p.S159S|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	410	CUB 1.				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		CCACTGACAGCCGCCTCTGGG	0.592													33	66					0	0	0.003755	0	0		T	22051620	T	T	22051620	2	4	23	1	0	0	0	0	0	0	0	1	1457	738	26	2		2	BMP1	8	22051620	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	212356	22051620	124312402	588	19916											
BMP1	649	broad.mit.edu	37	chr8	22052262	22052262	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgccacgacagctgtgcctAcgactatctggaggtgcgcg	7	7	14	13	5	1	0	0	0	1	0	1	3	1	1	2	2	4	1	2	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:22052262A>G	uc003xbg.2	+	12	1713	c.1469A>G	c.(1468-1470)TAC>TGC	p.Y490C	BMP1_uc003xba.2_Missense_Mutation_p.Y490C|BMP1_uc003xbb.2_Missense_Mutation_p.Y490C|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Missense_Mutation_p.Y239C|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Missense_Mutation_p.Y239C|BMP1_uc011kzc.1_Missense_Mutation_p.Y239C|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	490	CUB 2.				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		AGCTGTGCCTACGACTATCTG	0.612													17	60					0	0	0.00499	0	0		G	22052262	G	G	22052262	3	3	23	1	0	0	0	0	1	0	0	0	1457	391	14	3	1515	3	BMP1	8	22052262	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	642	22052262	124311760	589	19917											
BIN3	55909	broad.mit.edu	37	chr8	22488003	22488003	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatggccgtgtccagggcCgtcaccatgttcagaaggtc	7	10	12	12	2	3	1	3	0	0	1	5	1	4	1	4	3	0	1	4	3	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:22488003C>T	uc003xcl.2	-	5	346	c.249G>A	c.(247-249)ACG>ACA	p.T83T	BIN3_uc003xck.2_Silent_p.T35T|BIN3_uc010ltw.2_Silent_p.T29T	NM_018688	NP_061158	Q9NQY0	BIN3_HUMAN	bridging integrator 3	83	BAR.				actin filament organization|barrier septum formation|cell cycle|protein localization|unidimensional cell growth	cytoplasm|cytoskeleton	cytoskeletal adaptor activity				0		Prostate(55;0.0424)|Breast(100;0.102)|all_epithelial(46;0.143)		BRCA - Breast invasive adenocarcinoma(99;0.00664)|Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)		TGTCCAGGGCCGTCACCATGT	0.552													37	211					0	0	0.00874	0	0		T	22488003	T	T	22488003	2	4	23	1	0	0	0	0	0	0	0	1	1435	639	23	1		1	BIN3	8	22488003	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	435741	22488003	123876019	590	19918											
RHOBTB2	23221	broad.mit.edu	37	chr8	22862133	22862133	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcgaccaatatcgtgtgtgCcaggaggtaaggctgcagga	11	8	14	8	2	0	0	0	0	0	0	2	3	0	2	2	4	2	3	2	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:22862133C>T	uc003xcq.2	+	2	723	c.186C>T	c.(184-186)TGC>TGT	p.C62C	RHOBTB2_uc003xcp.2_Silent_p.C84C|RHOBTB2_uc011kzp.1_Silent_p.C69C	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	62	Rho-like.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		ATCGTGTGTGCCAGGAGGTAA	0.622											OREG0018628	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	26					0	0	0.001984	0	0		T	22862133	T	T	22862133	2	4	23	1	0	0	0	0	0	0	0	1	13359	747	26	2		2	RHOBTB2	8	22862133	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	374130	22862133	123501889	591	19919											
RHOBTB2	23221	broad.mit.edu	37	chr8	22865598	22865598	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggctgccatgtttggggggCcatttgtggagagctccacc	5	11	15	10	0	0	1	0	0	0	1	1	2	1	1	4	5	2	3	4	5	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:22865598C>G	uc003xcq.2	+	6	2131	c.1594C>G	c.(1594-1596)CCA>GCA	p.P532A	RHOBTB2_uc003xcp.2_Missense_Mutation_p.P554A|RHOBTB2_uc011kzp.1_Missense_Mutation_p.P539A|uc003xcr.2_RNA	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	532	BTB 2.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		GTTTGGGGGGCCATTTGTGGA	0.567													18	87					0	0	0.008361	0	0		G	22865598	G	G	22865598	3	3	23	1	0	0	0	0	1	0	0	0	13359	739	26	5	1697	5	RHOBTB2	8	22865598	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3465	22865598	123498424	592	19920											
LOXL2	4017	broad.mit.edu	37	chr8	23191025	23191025	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgcaggtgacattcttcatGgggtccagtgacacctgggg	7	10	14	10	1	2	2	1	2	1	0	4	2	3	2	2	5	0	1	2	5	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:23191025G>A	uc003xdh.1	-	5	1194	c.855C>T	c.(853-855)CCC>CCT	p.P285P	uc003xdj.2_5'Flank|uc003xdi.2_5'Flank	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	285	SRCR 2.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		CATTCTTCATGGGGTCCAGTG	0.617													24	131					0	0	0.003954	0	0		A	23191025	A	A	23191025	2	1	23	1	0	0	0	0	0	0	0	1	8918	1335	47	4		4	LOXL2	8	23191025	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	325427	23191025	123172997	593	19921											
SLC25A37	51312	broad.mit.edu	37	chr8	23429231	23429231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacggtgtaccagctcaacGgcctggccggctacttcaaa	9	7	12	13	3	2	0	2	0	0	0	2	1	2	1	3	5	4	3	3	5	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:23429231G>A	uc003xdo.2	+	4	1033	c.880G>A	c.(880-882)GGC>AGC	p.G294S	SLC25A37_uc003xdp.2_RNA|SLC25A37_uc010ltz.2_RNA|SLC25A37_uc003xdq.2_RNA|uc003xds.2_5'Flank	NM_016612	NP_057696	Q9NYZ2	MFRN1_HUMAN	solute carrier family 25, member 37	294	Solcar 3.				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Prostate(55;0.114)		Colorectal(74;0.0198)|COAD - Colon adenocarcinoma(73;0.0751)		CCAGCTCAACGGCCTGGCCGG	0.577													4	30					0	0	0.000602	0	0		A	23429231	A	A	23429231	3	1	23	1	0	0	0	0	1	0	0	0	14526	1116	39	1	894	1	SLC25A37	8	23429231	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	238206	23429231	122934791	594	19922											
ADAM7	8756	broad.mit.edu	37	chr8	24321458	24321458	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaaggagaagcgttcaccagGcatcctcagatcatggtatc	13	8	10	10	1	3	2	3	0	0	2	5	3	4	2	2	3	1	3	2	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:24321458G>A	uc003xeb.2	+	4	410	c.297G>A	c.(295-297)AGG>AGA	p.R99R	ADAM7_uc003xea.1_Silent_p.R99R	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	99	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		CGTTCACCAGGCATCCTCAGA	0.428													19	87					0	0	0.012319	0	0		A	24321458	A	A	24321458	2	1	23	1	0	0	0	0	0	0	0	1	251	1194	42	2		2	ADAM7	8	24321458	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	892227	24321458	122042564	595	19923											
EBF2	64641	broad.mit.edu	37	chr8	25708244	25708244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgggaggatggaggatgtgCtggaagacccaacggtggga	11	6	19	5	1	0	1	0	0	0	1	0	7	0	7	1	7	2	1	1	7	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:25708244C>T	uc003xes.1	-	15	1579	c.1562G>A	c.(1561-1563)AGC>AAC	p.S521N	PPP2R2A_uc003xek.2_Intron|EBF2_uc010lug.1_RNA	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	521	Pro/Ser/Thr-rich.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		GGAGGATGTGCTGGAAGACCC	0.443													20	75					0	0	0.008871	0	0		T	25708244	T	T	25708244	3	4	23	1	0	0	0	0	1	0	0	0	4887	797	28	2	173	2	EBF2	8	25708244	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1386786	25708244	120655778	596	19924											
SCARA3	51435	broad.mit.edu	37	chr8	27507225	27507225	+	Missense_Mutation	SNP	C	T	T																															tggcttcattatagtgaggtCggccggcggcgatggagatg																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:27507225C>T	uc003xga.1	+	2	155	c.14C>T	c.(13-15)TCG>TTG	p.S5L	SCARA3_uc003xgb.1_Missense_Mutation_p.S5L	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	5	Cytoplasmic (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity	p.S5L(1)		skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		ATAGTGAGGTCGGCCGGCGGC	0.592													8	34					0	0	0.008291	0	0		T	27507225	T	T	27507225	3	4	23	1	0	0	0	0	1	0	0	0	13904	893	31	1	20	1	SCARA3	8	27507225	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1798981	27507225	118856797	597	19925	33	2									
SCARA3	51435	broad.mit.edu	37	chr8	27507232	27507232	+	Silent	SNP	C	T	T																															attatagtgaggtcggccggCggcgatggagatgccttgtg																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:27507232C>T	uc003xga.1	+	2	162	c.21C>T	c.(19-21)GGC>GGT	p.G7G	SCARA3_uc003xgb.1_Silent_p.G7G	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	7	Cytoplasmic (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		GGTCGGCCGGCGGCGATGGAG	0.592													9	39					0	0	0.013537	0	0		T	27507232	T	T	27507232	2	4	23	1	0	0	0	0	0	0	0	1	13904	755	27	1		1	SCARA3	8	27507232	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	7	27507232	118856790	598	19926	33	2									
MAK16	84549	broad.mit.edu	37	chr8	33354189	33354189	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgccttcgacaaagcccTggaacaacaggaggcagaga	14	5	11	11	1	1	1	1	0	0	1	2	5	1	3	2	3	4	1	2	3	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:33354189T>C	uc003xjj.2	+	8	609	c.569T>C	c.(568-570)CTG>CCG	p.L190P	C8orf41_uc010lvu.1_Intron	NM_032509	NP_115898	Q9BXY0	MAK16_HUMAN	MAK16 homolog	190						nucleolus				ovary(1)	1						GACAAAGCCCTGGAACAACAG	0.363													12	52					0	0	0.00245	0	0		C	33354189	C	C	33354189	3	2	23	1	0	0	0	0	1	0	0	0	9216	1580	55	3	599	3	MAK16	8	33354189	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	5846957	33354189	113009833	599	19927											
UNC5D	137970	broad.mit.edu	37	chr8	35624428	35624428	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcccctgcaggaagtcccGttctcccgcgtgtggtgcag	4	10	12	15	3	2	0	0	0	2	0	5	1	3	1	4	2	2	3	4	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:35624428G>A	uc003xjr.1	+	15	2650	c.2322G>A	c.(2320-2322)CCG>CCA	p.P774P	UNC5D_uc003xjs.1_Silent_p.P769P|UNC5D_uc003xju.1_Silent_p.P350P	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	774	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		AGGAAGTCCCGTTCTCCCGCG	0.527													24	86					0	0	0.00333	0	0		A	35624428	A	A	35624428	2	1	23	1	0	0	0	0	0	0	0	1	17021	1132	40	1		1	UNC5D	8	35624428	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2270239	35624428	110739594	600	19928											
ASH2L	9070	broad.mit.edu	37	chr8	37986420	37986420	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggattttatattaatcttcCtgaagacacagagacagcca	14	11	8	8	0	1	3	0	1	1	2	2	5	2	4	2	1	1	0	2	1	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:37986420C>A	uc003xkt.3	+	12	1536	c.1478C>A	c.(1477-1479)CCT>CAT	p.P493H	ASH2L_uc011lbk.1_Missense_Mutation_p.P354H|ASH2L_uc003xku.3_Missense_Mutation_p.P399H|ASH2L_uc010lwa.2_Missense_Mutation_p.P399H	NM_004674	NP_004665	Q9UBL3	ASH2L_HUMAN	ash2-like isoform a	493	B30.2/SPRY.				hemopoiesis|histone H3-K4 methylation|positive regulation of cell proliferation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription from RNA polymerase II promoter	Set1C/COMPASS complex	metal ion binding|protein binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2	Colorectal(12;0.000501)	Lung NSC(58;0.0295)|all_lung(54;0.0413)				ATTAATCTTCCTGAAGACACA	0.493													107	454					2.73351e-49	3.05136e-49	0.01441	1	0		A	37986420	A	A	37986420	3	1	23	1	0	0	0	0	1	0	0	0	1043	681	24	5	1524	5	ASH2L	8	37986420	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2361992	37986420	108377602	601	19929											
LSM1	27257	broad.mit.edu	37	chr8	38027335	38027335	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cttactatttctcctagtagGaccacattttctcctctgac	8	16	4	13	0	3	1	0	1	3	0	5	2	3	2	3	1	1	1	3	1	4	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:38027335G>A	uc003xkw.2	-	3	404	c.216C>T	c.(214-216)GTC>GTT	p.V72V	LSM1_uc003xkx.2_RNA	NM_014462	NP_055277	O15116	LSM1_HUMAN	Lsm1 protein	72					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|mRNA processing|RNA splicing, via transesterification reactions	cytosol|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0	Colorectal(12;0.000442)					CTCCTAGTAGGACCACATTTT	0.363													14	243					0	0	0.003163	0	0		A	38027335	A	A	38027335	2	1	23	1	0	0	0	0	0	0	0	1	9068	1161	41	4		4	LSM1	8	38027335	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	40915	38027335	108336687	602	19930											
CHRNA6	8973	broad.mit.edu	37	chr8	42611455	42611455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgggaccaccagagatGtggatgggatggtttctgtg	8	10	16	7	0	1	1	0	0	1	1	1	5	1	4	3	4	0	1	3	4	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:42611455G>A	uc003xpj.2	-	5	933	c.887C>T	c.(886-888)ACA>ATA	p.T296I	CHRNA6_uc011lcw.1_Missense_Mutation_p.T281I	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	296						cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			CACCAGAGATGTGGATGGGAT	0.473													25	99					0	0	0.004656	0	0		A	42611455	A	A	42611455	3	1	23	1	0	0	0	0	1	0	0	0	3390	1377	48	4	605	4	CHRNA6	8	42611455	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4584120	42611455	103752567	603	19931											
MCM4	4173	broad.mit.edu	37	chr8	48878843	48878843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttccagtgccaagtgtgtgCccacacgacccgggtggaga	8	7	13	13	2	0	1	0	0	0	1	1	3	1	1	4	2	2	0	4	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:48878843C>T	uc003xqk.1	+	9	1024	c.929C>T	c.(928-930)GCC>GTC	p.A310V	MCM4_uc003xql.1_Missense_Mutation_p.A310V|MCM4_uc011ldi.1_Missense_Mutation_p.A297V	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	310					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				CAAGTGTGTGCCCACACGACC	0.617													15	82					0	0	0.006122	0	0		T	48878843	T	T	48878843	3	4	23	1	0	0	0	0	1	0	0	0	9407	739	26	2	959	2	MCM4	8	48878843	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	6267388	48878843	97485179	604	19932											
PXDNL	137902	broad.mit.edu	37	chr8	52321490	52321490	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctccgagctcccgtaaacGttggagccatcgatgtaggc	8	8	12	13	5	0	0	0	0	0	0	3	3	2	1	3	2	3	5	3	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:52321490G>A	uc003xqu.3	-	17	2795	c.2694C>T	c.(2692-2694)AAC>AAT	p.N898N	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	898					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TCCCGTAAACGTTGGAGCCAT	0.622													14	56					0	0	0.003163	0	0		A	52321490	A	A	52321490	2	1	23	1	0	0	0	0	0	0	0	1	12873	1136	40	1		1	PXDNL	8	52321490	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3442647	52321490	94042532	605	19933											
ST18	9705	broad.mit.edu	37	chr8	53079492	53079492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccctgtcacgtgtcccgtgCcatcacatccagggatcggg	6	8	12	15	3	2	0	2	0	0	0	5	1	4	1	4	2	1	0	4	2	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:53079492C>T	uc003xqz.2	-	6	1280	c.1124G>A	c.(1123-1125)GGC>GAC	p.G375D	ST18_uc011ldq.1_Missense_Mutation_p.G22D|ST18_uc011ldr.1_Missense_Mutation_p.G340D|ST18_uc011lds.1_Missense_Mutation_p.G280D|ST18_uc003xra.2_Missense_Mutation_p.G375D|ST18_uc003xrb.2_Missense_Mutation_p.G375D	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	375	C2HC-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				GTGTCCCGTGCCATCACATCC	0.537													30	137					0	0	0.007291	0	0		T	53079492	T	T	53079492	3	4	23	1	0	0	0	0	1	0	0	0	15237	739	26	2	2083	2	ST18	8	53079492	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	758002	53079492	93284530	606	19934											
RP1	6101	broad.mit.edu	37	chr8	55533959	55533959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccccaccccgtagccgtcGctgctcccggcatgccccgc	3	5	10	23	6	0	0	0	0	0	0	2	0	1	0	8	1	3	4	8	1	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:55533959G>A	uc003xsd.1	+	2	581	c.433G>A	c.(433-435)GCT>ACT	p.A145T	RP1_uc011ldy.1_Missense_Mutation_p.A145T	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	145					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CGTAGCCGTCGCTGCTCCCGG	0.701													17	89					0	0	0.008871	0	0		A	55533959	A	A	55533959	3	1	23	1	0	0	0	0	1	0	0	0	13557	1087	38	1	435	1	RP1	8	55533959	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2454467	55533959	90830063	607	19935											
RP1	6101	broad.mit.edu	37	chr8	55534032	55534032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgacccgaagacgaggcgtgCggttcttctgagcaggaggg	8	6	17	10	5	2	2	0	1	2	1	2	6	2	3	1	4	2	2	1	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:55534032C>T	uc003xsd.1	+	2	654	c.506C>T	c.(505-507)GCG>GTG	p.A169V	RP1_uc011ldy.1_Missense_Mutation_p.A169V	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	169	Doublecortin 2.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			ACGAGGCGTGCGGTTCTTCTG	0.647													27	173					0	0	0.007291	0	0		T	55534032	T	T	55534032	3	4	23	1	0	0	0	0	1	0	0	0	13557	768	27	1	508	1	RP1	8	55534032	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	73	55534032	90829990	608	19936											
TGS1	96764	broad.mit.edu	37	chr8	56698411	56698411	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagaagtatgggattgccActtcaatttggtaggataac	13	12	11	5	0	1	1	1	1	0	1	1	4	1	3	1	3	2	2	1	3	5	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:56698411A>G	uc003xsj.3	+	3	687	c.300A>G	c.(298-300)CCA>CCG	p.P100P	TGS1_uc010lyh.2_Silent_p.P4P	NM_024831	NP_079107	Q96RS0	TGS1_HUMAN	trimethylguanosine synthase homolog	100					cellular lipid metabolic process|ncRNA metabolic process|regulation of transcription, DNA-dependent|RNA capping|spliceosomal snRNP assembly|transcription, DNA-dependent	Cajal body|cytosol	RNA trimethylguanosine synthase activity			ovary(1)|lung(1)|breast(1)	3		all_lung(136;0.119)|all_epithelial(80;0.125)|Lung NSC(129;0.147)	Epithelial(17;0.00027)|all cancers(17;0.00251)			TGGGATTGCCACTTCAATTTG	0.363													20	103					0	0	0.00333	0	0		G	56698411	G	G	56698411	2	3	23	1	0	0	0	0	0	0	0	1	15862	146	6	3		3	TGS1	8	56698411	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1164379	56698411	89665611	609	19937											
CYP7B1	9420	broad.mit.edu	37	chr8	65528501	65528501	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttgtcacaaacaataacTtttccatatatagttgtaaa	15	16	4	6	0	1	0	1	0	0	0	2	0	2	0	1	0	2	3	1	0	8	10			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:65528501T>C	uc003xvj.2	-	3	801	c.597A>G	c.(595-597)AAA>AAG	p.K199K		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	199					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				AAACAATAACTTTTCCATATA	0.328													11	51					0	0	0.010729	0	0		C	65528501	C	C	65528501	2	2	23	1	0	0	0	0	0	0	0	1	4200	1606	56	3		3	CYP7B1	8	65528501	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	8830090	65528501	80835521	610	19938											
ADHFE1	137872	broad.mit.edu	37	chr8	67361171	67361171	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccctccacatgcctgccCgagtggtcgccaacagtggc	8	6	10	17	2	0	0	0	0	0	0	2	1	1	0	5	2	3	0	5	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:67361171C>T	uc003xwb.3	+	8	734	c.700C>T	c.(700-702)CGA>TGA	p.R234*	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Nonsense_Mutation_p.R186*|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_RNA|ADHFE1_uc011les.1_Nonsense_Mutation_p.R164*|ADHFE1_uc011leq.1_RNA|ADHFE1_uc011ler.1_RNA	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	234					2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			CATGCCTGCCCGAGTGGTCGC	0.498													54	258					0	0	0.01441	0	0		T	67361171	T	T	67361171	4	4	23	1	0	0	0	0	0	1	0	0	314	644	23	1	730	1	ADHFE1	8	67361171	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1832670	67361171	79002851	611	19939											
PREX2	80243	broad.mit.edu	37	chr8	68956736	68956736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttaagacggttgaagaacaGcaaggcatctacagatggac	15	7	11	8	1	1	4	0	1	1	3	1	5	1	5	0	3	3	3	0	3	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:68956736G>A	uc003xxv.1	+	8	881	c.854G>A	c.(853-855)AGC>AAC	p.S285N	PREX2_uc003xxu.1_Missense_Mutation_p.S285N|PREX2_uc011lez.1_Missense_Mutation_p.S220N	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	285	PH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TTGAAGAACAGCAAGGCATCT	0.388													9	94					0	0	0.006214	0	0		A	68956736	A	A	68956736	3	1	23	1	0	0	0	0	1	0	0	0	12499	971	34	2	884	2	PREX2	8	68956736	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1595565	68956736	77407286	612	19940											
SULF1	23213	broad.mit.edu	37	chr8	70541824	70541824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagaggaaggagaagagaCggcagaggaagggggaagag	17	0	22	2	1	0	5	0	0	0	5	0	11	0	8	0	7	0	1	0	7	4	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:70541824C>T	uc010lza.1	+	19	2911	c.2194C>T	c.(2194-2196)CGG>TGG	p.R732W	SULF1_uc003xyd.2_Missense_Mutation_p.R732W|SULF1_uc003xye.2_Missense_Mutation_p.R732W|SULF1_uc003xyf.2_Missense_Mutation_p.R732W|SULF1_uc003xyg.2_Missense_Mutation_p.R732W|SULF1_uc003xyh.1_RNA|SULF1_uc003xyi.1_Translation_Start_Site	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	732					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			GGAGAAGAGACGGCAGAGGAA	0.537													19	120					0	0	0.007413	0	0		T	70541824	T	T	70541824	3	4	23	1	0	0	0	0	1	0	0	0	15395	527	19	1	2252	1	SULF1	8	70541824	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1585088	70541824	75822198	613	19941											
XKR9	389668	broad.mit.edu	37	chr8	71646272	71646272	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggttgttaggtataatatgGgcatttaaaaacaacaccca	15	12	8	6	0	0	0	0	0	0	0	0	0	0	0	1	3	2	4	1	3	8	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:71646272G>A	uc003xyq.2	+	5	1269	c.735G>A	c.(733-735)TGG>TGA	p.W245*	XKR9_uc010lze.2_Nonsense_Mutation_p.W245*|XKR9_uc010lzd.2_Nonsense_Mutation_p.W113*	NM_001011720	NP_001011720	Q5GH70	XKR9_HUMAN	XK, Kell blood group complex subunit-related	245						integral to membrane				ovary(1)|skin(1)	2	Breast(64;0.0716)		Epithelial(68;0.00301)|all cancers(69;0.0165)|OV - Ovarian serous cystadenocarcinoma(28;0.0524)|BRCA - Breast invasive adenocarcinoma(89;0.166)			GTATAATATGGGCATTTAAAA	0.274													7	61					0	0	0.004482	0	0		A	71646272	A	A	71646272	4	1	23	1	0	0	0	0	0	1	0	0	17464	1241	43	4	745	4	XKR9	8	71646272	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1104448	71646272	74717750	614	19942											
CRISPLD1	83690	broad.mit.edu	37	chr8	75898440	75898440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaccttcataataaattacGaagtcaggtgtatccaacag	15	10	8	8	1	2	0	2	0	0	0	3	2	3	1	2	2	2	1	2	2	7	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:75898440G>A	uc003yan.2	+	2	593	c.218G>A	c.(217-219)CGA>CAA	p.R73Q		NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	73						extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			AATAAATTACGAAGTCAGGTG	0.398													19	124					0	0	0.007413	0	0		A	75898440	A	A	75898440	3	1	23	1	0	0	0	0	1	0	0	0	3885	1058	37	1	220	1	CRISPLD1	8	75898440	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4252168	75898440	70465582	615	19943											
ZFHX4	79776	broad.mit.edu	37	chr8	77766151	77766151	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacttgattacgcatcagAaaaagcagtgttacaaggat	15	11	9	6	1	1	3	1	2	0	1	1	4	1	4	0	1	3	3	0	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:77766151A>G	uc003yav.2	+	10	7246	c.6859A>G	c.(6859-6861)AAA>GAA	p.K2287E	ZFHX4_uc003yau.1_Missense_Mutation_p.K2332E|ZFHX4_uc003yaw.1_Missense_Mutation_p.K2287E	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2287	C2H2-type 15; degenerate.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TACGCATCAGAAAAAGCAGTG	0.423										HNSCC(33;0.089)			34	176					0	0	0.003271	0	0		G	77766151	G	G	77766151	3	3	23	1	0	0	0	0	1	0	0	0	17660	247	9	3	7028	3	ZFHX4	8	77766151	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1867711	77766151	68597871	616	19944											
PSKH2	85481	broad.mit.edu	37	chr8	87076335	87076335	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactgcactggtataaggCttccttagcaaaacctcagg	11	10	8	12	0	1	0	1	0	0	0	3	0	3	0	3	3	3	4	3	3	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:87076335C>A	uc011lfy.1	-	2	711	c.711G>T	c.(709-711)AAG>AAT	p.K237N		NM_033126	NP_149117	Q96QS6	KPSH2_HUMAN	protein serine kinase H2	237	Protein kinase.						ATP binding|protein serine/threonine kinase activity			stomach(2)|lung(2)|ovary(1)	5			STAD - Stomach adenocarcinoma(118;0.129)			TGGTATAAGGCTTCCTTAGCA	0.463													11	98					6.40141e-05	6.59373e-05	0.010729	1	0		A	87076335	A	A	87076335	3	1	23	1	0	0	0	0	1	0	0	0	12687	796	28	5	452	5	PSKH2	8	87076335	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	9310184	87076335	59287687	617	19945											
DECR1	1666	broad.mit.edu	37	chr8	91013752	91013752	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagggttttctttactcTggggtcccggctgccctgtg	2	13	14	12	1	2	0	0	0	2	0	3	0	3	0	3	5	2	2	3	5	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:91013752T>C	uc003yek.1	+	1	173	c.32T>C	c.(31-33)CTG>CCG	p.L11P	DECR1_uc011lgc.1_5'UTR|DECR1_uc011lgd.1_RNA	NM_001359	NP_001350	Q16698	DECR_HUMAN	2,4-dienoyl CoA reductase 1 precursor	11					fatty acid beta-oxidation|protein homotetramerization	mitochondrial matrix|nucleus|plasma membrane	2,4-dienoyl-CoA reductase (NADPH) activity|NADPH binding|oxidoreductase activity, acting on NADH or NADPH				0			BRCA - Breast invasive adenocarcinoma(11;0.00953)			TTCTTTACTCTGGGGTCCCGG	0.672											OREG0018857	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	35					0	0	0.001168	0	0		C	91013752	C	C	91013752	3	2	23	1	0	0	0	0	1	0	0	0	4385	1580	55	3	34	3	DECR1	8	91013752	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	3937417	91013752	55350270	618	19946											
DECR1	1666	broad.mit.edu	37	chr8	91031391	91031391	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactgatcaaagttgcaggAcatcctaatgtaagtgtagc	14	10	10	7	0	1	1	1	1	0	0	2	3	2	2	1	1	3	4	1	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:91031391A>T	uc003yek.1	+	4	549	c.408A>T	c.(406-408)GGA>GGT	p.G136G	DECR1_uc011lgc.1_Silent_p.G127G|DECR1_uc011lgd.1_RNA	NM_001359	NP_001350	Q16698	DECR_HUMAN	2,4-dienoyl CoA reductase 1 precursor	136					fatty acid beta-oxidation|protein homotetramerization	mitochondrial matrix|nucleus|plasma membrane	2,4-dienoyl-CoA reductase (NADPH) activity|NADPH binding|oxidoreductase activity, acting on NADH or NADPH				0			BRCA - Breast invasive adenocarcinoma(11;0.00953)			AAGTTGCAGGACATCCTAATG	0.363													7	44					0	0	0.004482	0	0		T	91031391	T	T	91031391	2	4	23	1	0	0	0	0	0	0	0	1	4385	262	10	5		5	DECR1	8	91031391	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	17639	91031391	55332631	619	19947											
RUNX1T1	862	broad.mit.edu	37	chr8	93029539	93029539	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaggagtcagcctagattgCgtcttcacatccacaggtga	10	9	12	10	1	3	2	2	1	1	1	4	4	4	4	2	3	2	0	2	3	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:93029539C>T	uc003yfd.2	-	2	225	c.141G>A	c.(139-141)ACG>ACA	p.T47T	RUNX1T1_uc003yfc.1_Silent_p.T20T|RUNX1T1_uc003yfe.1_Silent_p.T10T|RUNX1T1_uc010mao.2_Silent_p.T20T|RUNX1T1_uc011lgi.1_Silent_p.T58T|RUNX1T1_uc003yfh.1_Silent_p.T10T|RUNX1T1_uc003yfb.1_Silent_p.T10T|RUNX1T1_uc003yff.1_Silent_p.T10T|RUNX1T1_uc003yfg.1_Silent_p.T10T	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	47					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GCCTAGATTGCGTCTTCACAT	0.478													17	118					0	0	0.00499	0	0		T	93029539	T	T	93029539	2	4	23	1	0	0	0	0	0	0	0	1	13772	755	27	1		1	RUNX1T1	8	93029539	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1998148	93029539	53334483	620	19948											
CDH17	1015	broad.mit.edu	37	chr8	95188800	95188800	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgccttactgagccttcGtactttgactggagaaacgt	8	14	9	10	2	1	3	0	2	1	1	2	4	1	3	2	1	5	1	2	1	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:95188800G>A	uc003ygh.2	-	5	518	c.393C>T	c.(391-393)TAC>TAT	p.Y131Y	CDH17_uc011lgo.1_Silent_p.Y131Y|CDH17_uc011lgp.1_Silent_p.Y131Y	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	131	Extracellular (Potential).|Cadherin 2.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			CTGAGCCTTCGTACTTTGACT	0.507													38	147					0	0	0.00623	0	0		A	95188800	A	A	95188800	2	1	23	1	0	0	0	0	0	0	0	1	3105	1140	40	1		1	CDH17	8	95188800	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2159261	95188800	51175222	621	19949											
KIAA1429	25962	broad.mit.edu	37	chr8	95531575	95531575	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgacataaaaaaaagaagAcccttctgtgactgtgcaag	16	8	8	9	1	1	3	0	1	1	2	2	4	2	3	2	0	1	1	2	0	6	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:95531575A>G	uc003ygo.1	-	9	2164	c.2151T>C	c.(2149-2151)GGT>GGC	p.G717G	KIAA1429_uc003ygp.2_Silent_p.G717G|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	717					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			AAAAAAGAAGACCCTTCTGTG	0.413													7	96					0	0	0.001984	0	0		G	95531575	G	G	95531575	2	3	23	1	0	0	0	0	0	0	0	1	8247	262	10	3		3	KIAA1429	8	95531575	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	342775	95531575	50832447	622	19950											
INTS8	55656	broad.mit.edu	37	chr8	95888348	95888348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaattgactacaaaacagCgtttaaatctctgcaagaac	18	9	6	8	1	1	3	0	1	1	2	2	3	1	3	0	0	5	2	0	0	8	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:95888348C>T	uc003yhb.2	+	24	2861	c.2735C>T	c.(2734-2736)GCG>GTG	p.A912V	INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Missense_Mutation_p.A722V	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	912					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					TACAAAACAGCGTTTAAATCT	0.308													13	77					0	0	0.013537	0	0		T	95888348	T	T	95888348	3	4	23	1	0	0	0	0	1	0	0	0	7800	768	27	1	2829	1	INTS8	8	95888348	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	356773	95888348	50475674	623	19951											
CCNE2	9134	broad.mit.edu	37	chr8	95906149	95906149	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgatgtttcttggtgacCtcctctcttctttttttgac	4	21	6	10	0	3	3	0	3	3	0	5	3	4	3	2	1	1	1	2	1	1	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:95906149C>T	uc003yhc.2	-	4	244	c.135G>A	c.(133-135)GAG>GAA	p.E45E	C8orf38_uc003yhe.1_5'Flank|C8orf38_uc003yhf.2_5'Flank|CCNE2_uc003yhd.2_Silent_p.E45E	NM_057749	NP_477097	O96020	CCNE2_HUMAN	cyclin E2	45					cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	cytosol|nucleoplasm	protein kinase binding				0	Breast(36;8.75e-07)					TCTTGGTGACCTCCTCTCTTC	0.393													31	211					0	0	0.003271	0	0		T	95906149	T	T	95906149	2	4	23	1	0	0	0	0	0	0	0	1	2924	680	24	4		4	CCNE2	8	95906149	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	17801	95906149	50457873	624	19952											
C8orf38	137682	broad.mit.edu	37	chr8	96044227	96044227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctgtctgttacaggaaaCgggattatgaaggttattta	11	16	10	4	1	2	1	0	1	2	0	2	3	2	3	0	3	2	2	0	3	6	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:96044227C>T	uc003yhj.2	+	2	218	c.202C>T	c.(202-204)CGG>TGG	p.R68W	C8orf38_uc003yhe.1_RNA|C8orf38_uc003yhf.2_Translation_Start_Site|C8orf38_uc011lgs.1_RNA|C8orf38_uc003yhi.2_Missense_Mutation_p.R16W|C8orf38_uc003yhk.2_RNA|C8orf38_uc003yhl.2_Translation_Start_Site	NM_152416	NP_689629	Q330K2	CH038_HUMAN	hypothetical protein LOC137682 precursor	68					biosynthetic process	mitochondrion	transferase activity				0	Breast(36;3.32e-06)					TTACAGGAAACGGGATTATGA	0.418													26	103					0	0	0.004656	0	0		T	96044227	T	T	96044227	3	4	23	1	0	0	0	0	1	0	0	0	2427	527	19	1	208	1	C8orf38	8	96044227	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	138078	96044227	50319795	625	19953											
MATN2	4147	broad.mit.edu	37	chr8	99030335	99030335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctcgctgaggatgggaaaCgctgccgaagtaagtagcct	10	7	15	9	3	0	1	0	1	0	0	1	4	0	3	2	3	3	5	2	3	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:99030335C>T	uc003yic.2	+	12	2041	c.1810C>T	c.(1810-1812)CGC>TGC	p.R604C	MATN2_uc010mbh.1_Missense_Mutation_p.R563C|MATN2_uc003yid.2_Missense_Mutation_p.R604C|MATN2_uc003yie.1_Missense_Mutation_p.R604C|MATN2_uc010mbi.1_Missense_Mutation_p.R437C|MATN2_uc010mbj.1_Missense_Mutation_p.R103C	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	604	EGF-like 9.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			GGATGGGAAACGCTGCCGAAG	0.473													27	190					0	0	0.005443	0	0		T	99030335	T	T	99030335	3	4	23	1	0	0	0	0	1	0	0	0	9352	536	19	1	1852	1	MATN2	8	99030335	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2986108	99030335	47333687	626	19954											
OSR2	116039	broad.mit.edu	37	chr8	99961765	99961765	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atccatgagaggacccacacGgacgagaggccgtacacgtg	12	4	13	12	4	0	2	0	1	0	2	1	6	1	4	3	3	1	1	3	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:99961765G>A	uc003yir.2	+	2	1120	c.585G>A	c.(583-585)ACG>ACA	p.T195T	OSR2_uc010mbn.2_Silent_p.T195T|OSR2_uc003yiq.2_Silent_p.T195T|OSR2_uc011lgx.1_Silent_p.T316T	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	195					bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding			central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			GGACCCACACGGACGAGAGGC	0.537													34	146					0	0	0.003755	0	0		A	99961765	A	A	99961765	2	1	23	1	0	0	0	0	0	0	0	1	11313	1103	39	1		1	OSR2	8	99961765	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	931430	99961765	46402257	627	19955											
GRHL2	79977	broad.mit.edu	37	chr8	102589722	102589722	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcactctcggcagcatacGgcgaagcagagggtccttga	9	7	14	11	3	1	2	0	1	1	1	3	3	2	2	1	4	3	4	1	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:102589722G>A	uc010mbu.2	+	7	1308	c.978G>A	c.(976-978)ACG>ACA	p.T326T		NM_024915	NP_079191	Q6ISB3	GRHL2_HUMAN	transcription factor CP2-like 3	326						cytoplasm|nucleus	DNA binding			ovary(2)|skin(1)	3	all_cancers(14;4.39e-08)|all_epithelial(15;4.09e-10)|Lung NSC(17;7.11e-06)|all_lung(17;1.44e-05)		Epithelial(11;5.81e-09)|all cancers(13;3.81e-07)|OV - Ovarian serous cystadenocarcinoma(57;0.000213)			GGCAGCATACGGCGAAGCAGA	0.498													4	59					0	0	0.009096	0	0		A	102589722	A	A	102589722	2	1	23	1	0	0	0	0	0	0	0	1	6780	1103	39	1		1	GRHL2	8	102589722	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2627957	102589722	43774300	628	19956											
RIMS2	9699	broad.mit.edu	37	chr8	105001565	105001565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaggggcttcgagggacccGcactatgaccggacattata	11	7	12	11	3	0	1	0	1	0	0	1	4	0	3	2	4	0	2	2	4	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:105001565G>A	uc003yls.2	+	15	2535	c.2294G>A	c.(2293-2295)CGC>CAC	p.R765H	RIMS2_uc003ylp.2_Missense_Mutation_p.R987H|RIMS2_uc003ylw.2_Missense_Mutation_p.R779H|RIMS2_uc003ylq.2_Missense_Mutation_p.R779H|RIMS2_uc003ylr.2_Missense_Mutation_p.R826H	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1049					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CGAGGGACCCGCACTATGACC	0.378										HNSCC(12;0.0054)			36	134					0	0	0.007835	0	0		A	105001565	A	A	105001565	3	1	23	1	0	0	0	0	1	0	0	0	13393	1087	38	1	3152	1	RIMS2	8	105001565	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2411843	105001565	41362457	629	19957											
TM7SF4	81501	broad.mit.edu	37	chr8	105361024	105361024	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaagcatgcacgatgttttAttcttcttgtctttctctct	6	19	5	11	1	5	0	0	0	5	0	6	1	5	0	1	0	2	3	1	0	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:105361024A>T	uc003ylx.1	+	2	293	c.244A>T	c.(244-246)ATT>TTT	p.I82F		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	82					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			ACGATGTTTTATTCTTCTTGT	0.498													28	106					0	0	0.005443	0	0		T	105361024	T	T	105361024	3	4	23	1	0	0	0	0	1	0	0	0	16001	449	16	5	246	5	TM7SF4	8	105361024	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	359459	105361024	41002998	630	19958											
LRP12	29967	broad.mit.edu	37	chr8	105509656	105509656	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggtatttcccatggcaaaCagaacccatctacttggtaa	13	10	8	10	0	1	1	0	0	1	1	2	1	2	1	2	3	3	3	2	3	5	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:105509656C>A	uc003yma.2	-	5	1219	c.1124G>T	c.(1123-1125)TGT>TTT	p.C375F	LRP12_uc003ymb.2_Missense_Mutation_p.C356F|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	375	Extracellular (Potential).|LDL-receptor class A 3.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CCATGGCAAACAGAACCCATC	0.448													30	126					2.65835e-16	2.90379e-16	0.007291	1	0		A	105509656	A	A	105509656	3	1	23	1	0	0	0	0	1	0	0	0	8972	478	17	5	1467	5	LRP12	8	105509656	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	148632	105509656	40854366	631	19959											
LRP12	29967	broad.mit.edu	37	chr8	105509809	105509809	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacgcaaaagcttgtgtggaTtctcctctaatccatcatat	11	13	6	11	1	3	0	1	0	2	0	5	1	4	1	2	1	1	2	2	1	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:105509809T>A	uc003yma.2	-	5	1066	c.971A>T	c.(970-972)AAT>ATT	p.N324I	LRP12_uc003ymb.2_Missense_Mutation_p.N305I|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	324	Extracellular (Potential).|CUB 2.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CTTGTGTGGATTCTCCTCTAA	0.383													17	77					0	0	0.004007	0	0		A	105509809	A	A	105509809	3	1	23	1	0	0	0	0	1	0	0	0	8972	1493	52	5	1620	5	LRP12	8	105509809	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	153	105509809	40854213	632	19960											
ZFPM2	23414	broad.mit.edu	37	chr8	106815407	106815407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgctgaagaaagattctctgCcattgttgcccaaaaatcga	13	10	8	10	2	1	3	0	1	1	2	3	4	1	3	2	0	2	2	2	0	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:106815407C>T	uc003ymd.2	+	8	3120	c.3097C>T	c.(3097-3099)CCA>TCA	p.P1033S	ZFPM2_uc011lhs.1_Missense_Mutation_p.P764S	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	1033					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AGATTCTCTGCCATTGTTGCC	0.458													8	46					0	0	0.004482	0	0		T	106815407	T	T	106815407	3	4	23	1	0	0	0	0	1	0	0	0	17683	739	26	2	3127	2	ZFPM2	8	106815407	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1305598	106815407	39548615	633	19961											
TRPS1	7227	broad.mit.edu	37	chr8	116599521	116599521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctctccaagtcacattgcGaaggtcatcactggaactct	10	10	7	14	1	5	0	3	0	2	0	6	2	5	1	2	2	2	0	2	2	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:116599521G>A	uc003ynz.2	-	4	2827	c.2368C>T	c.(2368-2370)CGC>TGC	p.R790C	TRPS1_uc011lhy.1_Missense_Mutation_p.R794C|TRPS1_uc003yny.2_Missense_Mutation_p.R803C|TRPS1_uc010mcy.2_Missense_Mutation_p.R790C	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	790	Mediates interaction with GLI3.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GTCACATTGCGAAGGTCATCA	0.567									Langer-Giedion_syndrome				102	513					0	0	0.01441	0	0		A	116599521	A	A	116599521	3	1	23	1	0	0	0	0	1	0	0	0	16619	1058	37	1	1489	1	TRPS1	8	116599521	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	9784114	116599521	29764501	634	19962											
COL14A1	7373	broad.mit.edu	37	chr8	121237389	121237389	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacctctcacagagtatacTattgctattttctccatcta	11	15	3	12	0	3	1	1	0	3	1	5	1	3	1	2	0	2	2	2	0	5	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:121237389T>C	uc003yox.2	+	15	2065	c.1800T>C	c.(1798-1800)ACT>ACC	p.T600T	COL14A1_uc003yoy.2_Silent_p.T278T	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	600	Fibronectin type-III 4.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			CAGAGTATACTATTGCTATTT	0.403													3	127					0	0	0.009096	0	0		C	121237389	C	C	121237389	2	2	23	1	0	0	0	0	0	0	0	1	3674	1509	53	3		3	COL14A1	8	121237389	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	4637868	121237389	25126633	635	19963											
MTBP	27085	broad.mit.edu	37	chr8	121466147	121466147	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacaagcttcctgctcctggTaatattttatgactgctttc	8	16	7	10	0	0	1	0	1	0	0	3	2	2	1	2	1	3	4	2	1	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:121466147T>C	uc003ypc.1	+	5	529	c.484_splice	c.e5+2	p.G162_splice	MTBP_uc011lie.1_Splice_Site	NM_022045	NP_071328	Q96DY7	MTBP_HUMAN	Mdm2, transformed 3T3 cell double minute 2, p53						cell cycle arrest					skin(2)|ovary(1)	3	Lung NSC(37;5.68e-08)|Ovarian(258;0.00769)|all_neural(195;0.0804)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00503)			CTGCTCCTGGTAATATTTTAT	0.313													9	44					0	0	0.008291	0	0		C	121466147	C	C	121466147	5	2	23	1	0	0	0	0	0	0	1	0	9930	1652	57	3	504	3	MTBP	8	121466147	Splice_Site	SNP	T	TCGA-BR-4368-01A-01D-1158-08	228758	121466147	24897875	636	19964											
FAM91A1	157769	broad.mit.edu	37	chr8	124799557	124799557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggacacacgaagcgcatcGcattcctgtttgactccact	10	9	8	14	3	0	1	0	1	0	0	3	3	2	2	2	1	1	3	2	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:124799557G>A	uc003yqv.2	+	13	1196	c.1135G>A	c.(1135-1137)GCA>ACA	p.A379T	FAM91A1_uc011lik.1_Missense_Mutation_p.A379T|FAM91A1_uc011lil.1_Missense_Mutation_p.A137T	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769	379										ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			GAAGCGCATCGCATTCCTGTT	0.378													20	80					0	0	0.003954	0	0		A	124799557	A	A	124799557	3	1	23	1	0	0	0	0	1	0	0	0	5665	1087	38	1	1185	1	FAM91A1	8	124799557	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3333410	124799557	21564465	637	19965											
FER1L6	654463	broad.mit.edu	37	chr8	125131143	125131143	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagctgagaaaaatcctgTtggaaaagcccgaaaggagc	17	5	12	7	1	0	2	0	1	0	2	1	6	1	4	2	2	3	2	2	2	6	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:125131143T>C	uc003yqw.2	+	40	5554	c.5348T>C	c.(5347-5349)GTT>GCT	p.V1783A	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1783	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			AAAAATCCTGTTGGAAAAGCC	0.498													3	58					0	0	0.004672	0	0		C	125131143	C	C	125131143	3	2	23	1	0	0	0	0	1	0	0	0	5829	1725	60	3	5502	3	FER1L6	8	125131143	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	331586	125131143	21232879	638	19966											
MTSS1	9788	broad.mit.edu	37	chr8	125740157	125740157	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatggtctggaagaggcCtccgagcgcgctgcattcct	7	9	14	11	3	1	2	0	1	1	1	3	5	3	3	3	3	2	2	3	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:125740157C>A	uc003yrk.2	-	1	574	c.40G>T	c.(40-42)GGC>TGC	p.G14C	MTSS1_uc003yrj.2_Missense_Mutation_p.G14C|MTSS1_uc003yrl.2_Missense_Mutation_p.G14C	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	14	IMD.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			TGGAAGAGGCCTCCGAGCGCG	0.557													5	42					3.59834e-05	3.70871e-05	0.001168	1	0		A	125740157	A	A	125740157	3	1	23	1	0	0	0	0	1	0	0	0	9980	681	24	5	2283	5	MTSS1	8	125740157	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	609014	125740157	20623865	639	19967											
ASAP1	50807	broad.mit.edu	37	chr8	131072914	131072914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcttgcttttggatggCgtctctggactgcacatttg	6	15	12	8	1	1	1	0	0	1	1	2	3	1	3	0	3	3	3	0	3	0	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:131072914C>T	uc003yta.1	-	27	3131	c.3103G>A	c.(3103-3105)GCC>ACC	p.A1035T	ASAP1_uc003ysz.1_Missense_Mutation_p.A846T|ASAP1_uc011liw.1_Missense_Mutation_p.A1028T	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	1035					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TTTTGGATGGCGTCTCTGGAC	0.542													51	278					0	0	0.01441	0	0		T	131072914	T	T	131072914	3	4	23	1	0	0	0	0	1	0	0	0	1011	768	27	1	298	1	ASAP1	8	131072914	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5332757	131072914	15291108	640	19968											
ASAP1	50807	broad.mit.edu	37	chr8	131370319	131370319	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccgcgtggtgaagctggAcgtggtgggcgagttgtagt	6	9	19	7	4	0	1	0	1	0	0	0	3	0	2	1	4	2	3	1	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:131370319A>G	uc003yta.1	-	2	158	c.130T>C	c.(130-132)TCC>CCC	p.S44P	ASAP1_uc011liw.1_Missense_Mutation_p.S37P	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	44					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						GTGAAGCTGGACGTGGTGGGC	0.682													8	33					0	0	0.001855	0	0		G	131370319	G	G	131370319	3	3	23	1	0	0	0	0	1	0	0	0	1011	275	10	3	3371	3	ASAP1	8	131370319	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	297405	131370319	14993703	641	19969											
KCNQ3	3786	broad.mit.edu	37	chr8	133144483	133144483	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtcttcgatttctgatgTggatggtctggctacatatg	6	17	12	6	1	3	1	0	1	3	0	4	3	3	2	0	4	1	1	0	4	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:133144483T>C	uc003ytj.2	-	14	2053	c.1828A>G	c.(1828-1830)ACA>GCA	p.T610A	KCNQ3_uc010mdt.2_Missense_Mutation_p.T598A	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	610					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			ATTTCTGATGTGGATGGTCTG	0.383													11	60					0	0	0.007413	0	0		C	133144483	C	C	133144483	3	2	23	1	0	0	0	0	1	0	0	0	8100	1696	59	3	798	3	KCNQ3	8	133144483	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1774164	133144483	13219539	642	19970											
FAM135B	51059	broad.mit.edu	37	chr8	139189644	139189644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtgctccatgtaaaagaagGcctcagaaaaccttcggacc	13	7	10	11	1	1	2	1	0	0	2	3	3	2	3	4	3	2	2	4	3	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:139189644G>A	uc003yuy.2	-	11	1220	c.1049C>T	c.(1048-1050)GCC>GTC	p.A350V	FAM135B_uc003yux.2_Missense_Mutation_p.A251V|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	350										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			GTAAAAGAAGGCCTCAGAAAA	0.403										HNSCC(54;0.14)			3	23					0	0	0.000602	0	0		A	139189644	A	A	139189644	3	1	23	1	0	0	0	0	1	0	0	0	5460	1203	42	2	3211	2	FAM135B	8	139189644	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	6045161	139189644	7174378	643	19971											
EIF2C2	27161	broad.mit.edu	37	chr8	141570576	141570576	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttagagcagccttcggaCgcggtgaagaaggagcggcc	9	5	18	9	4	0	3	0	1	0	2	1	5	0	5	2	5	3	2	2	5	3	2	rs144947708	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:141570576C>T	uc003yvn.2	-	5	592	c.552G>A	c.(550-552)GCG>GCA	p.A184A	EIF2C2_uc010men.2_Silent_p.A107A|EIF2C2_uc010meo.2_Silent_p.A184A	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	184					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			AGCCTTCGGACGCGGTGAAGA	0.602													17	63					0	0	0.006122	0	0		T	141570576	T	T	141570576	2	4	23	1	0	0	0	0	0	0	0	1	5012	523	19	1		1	EIF2C2	8	141570576	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2380932	141570576	4793446	644	19972											
PTP4A3	11156	broad.mit.edu	37	chr8	142441117	142441117	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggttcaaagacccacacacGcacaagacccggtgctgcgt	11	5	10	15	4	1	2	1	0	0	2	1	2	1	2	2	2	2	3	2	2	2	1	rs145258592		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:142441117G>A	uc003ywg.1	+	5	829	c.495G>A	c.(493-495)ACG>ACA	p.T165T	PTP4A3_uc003ywh.1_Silent_p.T140T|PTP4A3_uc010met.1_Missense_Mutation_p.R79H	NM_032611	NP_116000	O75365	TP4A3_HUMAN	protein tyrosine phosphatase type IVA, member 3	165						early endosome|plasma membrane	identical protein binding|prenylated protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0	all_cancers(97;2.55e-15)|all_epithelial(106;1.39e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0474)			ACCCACACACGCACAAGACCC	0.617													26	100					0	0	0.004656	0	0		A	142441117	A	A	142441117	2	1	23	1	0	0	0	0	0	0	0	1	12795	1074	38	1		1	PTP4A3	8	142441117	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	870541	142441117	3922905	645	19973											
JRK	8629	broad.mit.edu	37	chr8	143747298	143747298	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgaagaaccggagcagctgCgccttgtgggccctgatgtc	7	7	15	12	3	0	2	0	1	0	1	1	4	0	3	3	2	4	2	3	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:143747298C>T	uc003ywo.2	-	2	694	c.180G>A	c.(178-180)GCG>GCA	p.A60A	JRK_uc003ywp.2_Silent_p.A60A|JRK_uc010mew.1_Silent_p.A60A	NM_001077527	NP_001070995			jerky isoform b												0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;2.31e-05)				ggagcagctgcgccttgtggg	0													5	24					0	0	0.00308	0	0		T	143747298	T	T	143747298	2	4	23	1	0	0	0	0	0	0	0	1	7980	755	27	1		1	JRK	8	143747298	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1306181	143747298	2616724	646	19974											
SLURP1	57152	broad.mit.edu	37	chr8	143823232	143823232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctcacctgcctccaccGtcaccagcgtggtcatgcag	6	8	10	17	2	3	0	3	0	0	0	4	0	4	0	6	2	3	1	6	2	0	0	rs149132807		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:143823232G>A	uc003ywy.2	-	2	193	c.167C>T	c.(166-168)ACG>ATG	p.T56M		NM_020427	NP_065160	P55000	SLUR1_HUMAN	ARS component B precursor	56	UPAR/Ly6.				cell activation|cell adhesion	extracellular space	cytokine activity				0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					TGCCTCCACCGTCACCAGCGT	0.652													8	35					0	0	0.006214	0	0		A	143823232	A	A	143823232	3	1	23	1	0	0	0	0	1	0	0	0	14781	1145	40	1	152	1	SLURP1	8	143823232	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	75934	143823232	2540790	647	19975											
RHPN1	114822	broad.mit.edu	37	chr8	144457822	144457822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgcagatgcggacgggcGctgagaacctctacaggtca	10	6	14	11	3	2	2	1	1	1	2	2	4	2	3	1	3	5	3	1	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:144457822G>A	uc003yyb.2	+	2	293	c.160G>A	c.(160-162)GCT>ACT	p.A54T		NM_052924	NP_443156	Q8TCX5	RHPN1_HUMAN	rhophilin 1	54	REM.				signal transduction	intracellular				large_intestine(1)	1	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.156)			GCGGACGGGCGCTGAGAACCT	0.667													6	22					0	0	0.001168	0	0		A	144457822	A	A	144457822	3	1	23	1	0	0	0	0	1	0	0	0	13375	1087	38	1	166	1	RHPN1	8	144457822	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	634590	144457822	1906200	648	19976											
ZC3H3	23144	broad.mit.edu	37	chr8	144620861	144620861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgggaagctcgccttgaCggcaatcacactctcactga	10	8	11	12	2	2	2	2	2	1	0	4	4	2	4	1	3	1	2	1	3	2	1	rs75499773		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:144620861C>T	uc003yyd.2	-	2	705	c.676G>A	c.(676-678)GTC>ATC	p.V226I		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	226					mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			CTCGCCTTGACGGCAATCACA	0.662													11	39					0	0	0.001855	0	0		T	144620861	T	T	144620861	3	4	23	1	0	0	0	0	1	0	0	0	17594	536	19	1	2214	1	ZC3H3	8	144620861	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	163039	144620861	1743161	649	19977											
SCRIB	23513	broad.mit.edu	37	chr8	144874253	144874253	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccggccttcctgggacCtgctgaggaccatctgtgct	4	10	12	15	1	1	1	0	1	1	0	2	3	2	3	6	3	3	2	6	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:144874253C>A	uc003yzp.1	-	33	4572	c.4565G>T	c.(4564-4566)AGG>ATG	p.R1522M	SCRIB_uc003yzn.1_Missense_Mutation_p.R255M|SCRIB_uc003yzo.1_Missense_Mutation_p.R1522M	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	1522					activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			TTCCTGGGACCTGCTGAGGAC	0.692													6	18					8.12818e-05	8.3519e-05	0.001984	1	0		A	144874253	A	A	144874253	3	1	23	1	0	0	0	0	1	0	0	0	13962	681	24	5	422	5	SCRIB	8	144874253	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	253392	144874253	1489769	650	19978											
EPPK1	83481	broad.mit.edu	37	chr8	144944997	144944997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaaggcctgctgggtggCactgtccaccagcggggact	6	7	16	12	1	0	0	0	0	0	0	1	2	1	2	3	6	2	2	3	6	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:144944997C>T	uc003zaa.1	-	1	2438	c.2425G>A	c.(2425-2427)GCC>ACC	p.A809T		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	809						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TGCTGGGTGGCACTGTCCACC	0.627													7	34					0	0	0.008291	0	0		T	144944997	T	T	144944997	3	4	23	1	0	0	0	0	1	0	0	0	5198	710	25	2	4841	2	EPPK1	8	144944997	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	70744	144944997	1419025	651	19979											
EPPK1	83481	broad.mit.edu	37	chr8	144945237	144945237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgcacggggtcgatgaCgccgcccgtggcgatctggg	4	7	18	12	6	1	1	0	1	1	0	2	3	1	1	2	4	1	2	2	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:144945237C>T	uc003zaa.1	-	1	2198	c.2185G>A	c.(2185-2187)GTC>ATC	p.V729I		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	729	Plectin 14.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGGTCGATGACGCCGCCCGTG	0.662													21	126					0	0	0.014323	0	0		T	144945237	T	T	144945237	3	4	23	1	0	0	0	0	1	0	0	0	5198	536	19	1	5081	1	EPPK1	8	144945237	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	240	144945237	1418785	652	19980											
PARP10	84875	broad.mit.edu	37	chr8	145057230	145057230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccttcagcgtctgccccGccactgatgcatggggaaaa	8	7	11	15	2	2	1	1	1	1	0	2	2	2	2	5	2	3	1	5	2	2	1	rs141244035	by1000genomes	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:145057230G>A	uc003zal.3	-	9	2534	c.2426C>T	c.(2425-2427)GCG>GTG	p.A809V	PARP10_uc003zak.3_Missense_Mutation_p.A506V|PARP10_uc011lku.1_Missense_Mutation_p.A821V|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Missense_Mutation_p.A800V	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	809	PARP catalytic.|Myc binding.					Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CGTCTGCCCCGCCACTGATGC	0.657													14	41					0	0	0.007413	0	0		A	145057230	A	A	145057230	3	1	23	1	0	0	0	0	1	0	0	0	11474	1087	38	1	663	1	PARP10	8	145057230	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	111993	145057230	1306792	653	19981											
GPR172A	79581	broad.mit.edu	37	chr8	145584144	145584144	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttcctggccatgggtgTgctgtgcaggtacacaagga	7	10	14	10	0	0	0	0	0	0	0	1	1	1	1	2	4	4	4	2	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:145584144T>C	uc003zcc.1	+	3	1149	c.992T>C	c.(991-993)GTG>GCG	p.V331A	FBXL6_uc003zbz.2_5'Flank|FBXL6_uc003zca.2_5'Flank|FBXL6_uc003zcb.2_5'Flank|FBXL6_uc010mfx.2_5'Flank|GPR172A_uc003zcd.1_Missense_Mutation_p.V331A|GPR172A_uc003zce.1_Missense_Mutation_p.V331A|GPR172A_uc010mfy.1_Missense_Mutation_p.V331A|GPR172A_uc003zcf.1_Missense_Mutation_p.V331A|GPR172A_uc011llc.1_Missense_Mutation_p.V243A	NM_024531	NP_078807	Q9HAB3	RFT3_HUMAN	G protein-coupled receptor 172A precursor	331	Helical; (Potential).					integral to plasma membrane	receptor activity|riboflavin transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			GCCATGGGTGTGCTGTGCAGG	0.647													6	173					0	0	0.00308	0	0		C	145584144	C	C	145584144	3	2	23	1	0	0	0	0	1	0	0	0	6684	1696	59	3	998	3	GPR172A	8	145584144	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	526914	145584144	779878	654	19982											
CPSF1	29894	broad.mit.edu	37	chr8	145624413	145624413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacaatctccaggtccggctCggggctgttctgaaactgca	8	9	11	13	2	2	1	0	1	2	0	5	1	3	1	2	4	2	4	2	4	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr8:145624413C>T	uc003zcj.2	-	16	1558	c.1483G>A	c.(1483-1485)GAG>AAG	p.E495K		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	495					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			AGGTCCGGCTCGGGGCTGTTC	0.483													5	21					0	0	0.000602	0	0		T	145624413	T	T	145624413	3	4	23	1	0	0	0	0	1	0	0	0	3827	893	31	1	2940	1	CPSF1	8	145624413	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	40269	145624413	739609	655	19983											
FOXD4	2298	broad.mit.edu	37	chr9	116989	116989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accgcgcccttggtgggagcGcagccgttggcgcagtcctc	4	7	15	15	5	0	0	0	0	0	0	2	1	1	1	4	3	2	3	4	3	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:116989G>A	uc003zfz.2	-	1	1429	c.1131C>T	c.(1129-1131)TGC>TGT	p.C377C		NM_207305	NP_997188	Q12950	FOXD4_HUMAN	forkhead box D4	377					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	all_lung(41;0.218)	all_cancers(5;0.0395)|Acute lymphoblastic leukemia(5;1.91e-07)|all_hematologic(5;1.95e-06)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		TGGTGGGAGCGCAGCCGTTGG	0.692													17	59					0	0	0.00278	0	0		A	116989	A	A	116989	2	1	23	1	0	0	0	0	0	0	0	1	6013	1079	38	1		1	FOXD4	9	116989	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08		116989	141096442	656	19984											
CBWD1	55871	broad.mit.edu	37	chr9	121993	121993	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgatttgttctctcagtgTcatccttccagctcactgga	7	15	7	12	1	4	0	3	0	1	0	8	2	6	1	2	1	1	2	2	1	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:121993T>C	uc003zga.3	-	14	1155	c.1049A>G	c.(1048-1050)GAC>GGC	p.D350G	CBWD1_uc010mgs.2_RNA|CBWD1_uc003zgb.3_Missense_Mutation_p.D314G|CBWD1_uc003zgc.3_Missense_Mutation_p.D331G	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1	350	CobW C-terminal.						ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		TCTCTCAGTGTCATCCTTCCA	0.418													17	68					0	0	0.007413	0	0		C	121993	C	C	121993	3	2	23	1	0	0	0	0	1	0	0	0	2715	1667	58	3	146	3	CBWD1	9	121993	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	5004	121993	141091438	657	19985											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													4	51					0	0	0.013537	0	0		G	164038	G	G	164038	5	3	23	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-4368-01A-01D-1158-08	42045	164038	141049393	658	19986											
KCNV2	169522	broad.mit.edu	37	chr9	2718573	2718573	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctccgtggtggcgctggcGctcaacaccgtggaggagat	6	8	16	11	4	2	1	1	0	1	1	3	3	2	2	2	5	1	2	2	5	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:2718573G>A	uc003zho.1	+	1	1048	c.834G>A	c.(832-834)GCG>GCA	p.A278A		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	278	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		TGGCGCTGGCGCTCAACACCG	0.677													6	22					0	0	0.006214	0	0		A	2718573	A	A	2718573	2	1	23	1	0	0	0	0	0	0	0	1	8111	1074	38	1		1	KCNV2	9	2718573	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2554535	2718573	138494858	659	19987											
JAK2	3717	broad.mit.edu	37	chr9	5054649	5054649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgaataaggtacagatttcGcagatttattcagcaattca	14	12	8	7	2	2	2	2	0	0	2	3	3	2	2	0	1	2	3	0	1	5	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:5054649G>A	uc010mhm.2	+	6	814	c.701G>A	c.(700-702)CGC>CAC	p.R234H	JAK2_uc003ziw.2_Missense_Mutation_p.R234H	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	234	Interaction with cytokine/interferon/growth hormone receptors (By similarity).|FERM.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		TACAGATTTCGCAGATTTATT	0.368		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				25	100					0	0	0.003954	0	0		A	5054649	A	A	5054649	3	1	23	1	0	0	0	0	1	0	0	0	7954	1087	38	1	719	1	JAK2	9	5054649	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2336076	5054649	136158782	660	19988											
GLDC	2731	broad.mit.edu	37	chr9	6553433	6553433	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggggccgcactgacggttcCcacaggacaggcatcctcat	8	7	12	14	2	1	1	1	1	0	0	3	2	3	2	3	5	0	3	3	5	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:6553433C>A	uc003zkc.2	-	20	2585	c.2392G>T	c.(2392-2394)GGA>TGA	p.G798*		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	798					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	CTGACGGTTCCCACAGGACAG	0.512													22	62					7.87624e-14	8.52583e-14	0.00278	1	0		A	6553433	A	A	6553433	4	1	23	1	0	0	0	0	0	1	0	0	6448	632	22	5	694	5	GLDC	9	6553433	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1498784	6553433	134659998	661	19989											
KDM4C	23081	broad.mit.edu	37	chr9	7015923	7015923	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cggtgcaaaagaaatgcgtgGacagcagtaagtagcttatt	14	9	12	6	2	0	1	0	0	0	1	0	2	0	2	0	2	4	5	0	2	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:7015923G>C	uc003zkh.2	+	15	2833	c.2253G>C	c.(2251-2253)TGG>TGC	p.W751C	KDM4C_uc010mhu.2_Missense_Mutation_p.W773C|KDM4C_uc011lmi.1_Missense_Mutation_p.W751C|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Missense_Mutation_p.W751C|KDM4C_uc011lmk.1_Missense_Mutation_p.W496C|KDM4C_uc011lml.1_Missense_Mutation_p.W438C	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	751					positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						GAAATGCGTGGACAGCAGTAA	0.408													12	70					0	0	0.013537	0	0		C	7015923	C	C	7015923	3	2	23	1	0	0	0	0	1	0	0	0	8146	1183	41	5	2377	5	KDM4C	9	7015923	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	462490	7015923	134197508	662	19990											
BNC2	54796	broad.mit.edu	37	chr9	16436812	16436812	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcttcaggtgaacagcattGtaatgaattttgagagtacc	13	13	9	6	0	2	3	1	3	1	1	2	4	2	3	1	1	3	3	1	1	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:16436812G>T	uc003zml.2	-	6	1520	c.1380C>A	c.(1378-1380)TAC>TAA	p.Y460*	BNC2_uc011lmw.1_Nonsense_Mutation_p.Y365*|BNC2_uc003zmm.2_Nonsense_Mutation_p.Y418*|BNC2_uc003zmq.1_Nonsense_Mutation_p.Y474*|BNC2_uc003zmr.1_Nonsense_Mutation_p.Y497*|BNC2_uc003zmp.1_Nonsense_Mutation_p.Y488*|BNC2_uc010mij.1_Nonsense_Mutation_p.Y382*|BNC2_uc011lmv.1_Nonsense_Mutation_p.Y286*|BNC2_uc003zmo.1_Nonsense_Mutation_p.Y382*|BNC2_uc003zmj.2_Nonsense_Mutation_p.Y225*|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Nonsense_Mutation_p.Y225*|BNC2_uc003zmn.1_Nonsense_Mutation_p.Y225*	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	460	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		GAACAGCATTGTAATGAATTT	0.453													23	61					1.96895e-08	2.08171e-08	0.00278	1	0		T	16436812	T	T	16436812	4	4	23	1	0	0	0	0	0	1	0	0	1476	1372	48	5	1927	5	BNC2	9	16436812	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	9420889	16436812	124776619	663	19991											
DENND4C	55667	broad.mit.edu	37	chr9	19316732	19316732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaattcaagaggcatttttgCgctttatggcgtctatttta	10	17	8	6	2	2	1	1	0	1	1	2	1	2	1	0	2	1	2	0	2	5	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:19316732C>T	uc003znq.2	+	8	1027	c.994C>T	c.(994-996)CGC>TGC	p.R332C	DENND4C_uc011lnc.1_5'UTR	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	332	dDENN.					integral to membrane				ovary(1)|skin(1)	2						GGCATTTTTGCGCTTTATGGC	0.413													6	221					0	0	0.001168	0	0		T	19316732	T	T	19316732	3	4	23	1	0	0	0	0	1	0	0	0	4441	768	27	1	1024	1	DENND4C	9	19316732	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2879920	19316732	121896699	664	19992											
CDKN2A	1029	broad.mit.edu	37	chr9	21994370	21994370	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagctcggcagccgctgcGccgccctttggcaccagagg	5	5	14	17	5	0	1	0	0	0	1	1	2	0	1	5	3	3	4	5	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:21994370G>A	uc003zpl.2	-	1	121	c.84C>T	c.(82-84)GGC>GGT	p.G28G	MTAP_uc003zpi.1_Intron|CDKN2BAS_uc010miw.1_5'Flank|CDKN2BAS_uc010mix.1_5'Flank|CDKN2BAS_uc003zpm.2_5'Flank	NM_058195	NP_478102	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 4	Error:Variant_position_missing_in_P42771_after_alignment					cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(197)|p.V28_E33del(2)|p.V28V(2)|p.V28_V51del(1)|p.V28fs*26(1)|p.V28G(1)|p.V28fs*15(1)|p.V28M(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CAGCCGCTGCGCCGCCCTTTG	0.726		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			4	13					0	0	0.001168	0	0		A	21994370	A	A	21994370	2	1	23	1	0	0	0	0	0	0	0	1	3164	1074	38	1		1	CDKN2A	9	21994370	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2677638	21994370	119219061	665	19993											
NFX1	4799	broad.mit.edu	37	chr9	33351731	33351731	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctgactgtggtcacccGtgtatggcaccctgccatac	8	9	11	13	1	1	2	1	1	0	1	1	2	1	2	3	2	3	3	3	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:33351731G>A	uc003zsq.2	+	16	2659	c.2598G>A	c.(2596-2598)CCG>CCA	p.P866P	SUGT1P1_uc010mjq.1_Intron|NFX1_uc003zsp.1_Silent_p.P866P|NFX1_uc010mjr.1_Silent_p.P867P|NFX1_uc003zsr.2_Silent_p.P867P	NM_002504	NP_002495	Q12986	NFX1_HUMAN	nuclear transcription factor, X-box binding 1	866	NF-X1-type 8.				inflammatory response|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|ligase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)	GBM - Glioblastoma multiforme(74;0.224)		GTGGTCACCCGTGTATGGCAC	0.552													9	33					0	0	0.010729	0	0		A	33351731	A	A	33351731	2	1	23	1	0	0	0	0	0	0	0	1	10406	1132	40	1		1	NFX1	9	33351731	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	11357361	33351731	107861700	666	19994											
UNC13B	10497	broad.mit.edu	37	chr9	35313894	35313894	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtactttttctctgttacaAgttttcctgaggagaatgca	9	17	8	7	0	1	2	0	1	1	1	3	3	2	2	1	1	3	4	1	1	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:35313894A>G	uc003zwq.2	+	10	1369	c.1077_splice	c.e10-2	p.S359_splice	UNC13B_uc010mkl.1_Splice_Site_p.S359_splice|UNC13B_uc003zwr.2_Splice_Site_p.S359_splice	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like						excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			CTCTGTTACAAGTTTTCCTGA	0.433													4	89					0	0	0.009096	0	0		G	35313894	G	G	35313894	5	3	23	1	0	0	0	0	0	0	1	0	17011	86	3	3	1113	3	UNC13B	9	35313894	Splice_Site	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1962163	35313894	105899537	667	19995											
ALDH1B1	219	broad.mit.edu	37	chr9	38395863	38395863	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatcccctacaaccagctgTtcatcaacaatgaatggcaa	15	8	5	13	0	2	1	2	1	0	0	3	1	3	1	3	1	4	3	3	1	6	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:38395863T>C	uc004aay.2	+	2	230	c.118T>C	c.(118-120)TTC>CTC	p.F40L		NM_000692	NP_000683	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1B1 precursor	40					carbohydrate metabolic process	mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity			skin(1)	1				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)	NADH(DB00157)	CAACCAGCTGTTCATCAACAA	0.607													16	129					0	0	0.010504	0	0		C	38395863	C	C	38395863	3	2	23	1	0	0	0	0	1	0	0	0	493	1725	60	3	120	3	ALDH1B1	9	38395863	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	3081969	38395863	102817568	668	19996											
TRPM3	80036	broad.mit.edu	37	chr9	73213556	73213556	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccataccttcactttctGtagcaacttccctggctctg	7	13	6	15	0	3	0	1	0	2	0	4	0	4	0	3	1	4	3	3	1	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:73213556G>A	uc004aid.2	-	20	3035	c.2791C>T	c.(2791-2793)CAG>TAG	p.Q931*	TRPM3_uc004ahu.2_Nonsense_Mutation_p.Q761*|TRPM3_uc004ahv.2_Nonsense_Mutation_p.Q733*|TRPM3_uc004ahw.2_Nonsense_Mutation_p.Q803*|TRPM3_uc004ahx.2_Nonsense_Mutation_p.Q790*|TRPM3_uc004ahy.2_Nonsense_Mutation_p.Q793*|TRPM3_uc004ahz.2_Nonsense_Mutation_p.Q780*|TRPM3_uc004aia.2_Nonsense_Mutation_p.Q778*|TRPM3_uc004aib.2_Nonsense_Mutation_p.Q768*|TRPM3_uc004aic.2_Nonsense_Mutation_p.Q931*	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	956	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						TTCACTTTCTGTAGCAACTTC	0.498													23	98					0	0	0.004289	0	0		A	73213556	A	A	73213556	4	1	23	1	0	0	0	0	0	1	0	0	16613	1386	48	4	2356	4	TRPM3	9	73213556	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	34817693	73213556	67999875	669	19997											
ALDH1A1	216	broad.mit.edu	37	chr9	75543858	75543858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcccaacctgcacagtagCgcaatgttttgatgcagcct	10	9	9	13	1	0	1	0	1	0	0	0	1	0	1	3	0	6	5	3	0	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:75543858C>T	uc004ajd.2	-	4	445	c.392G>A	c.(391-393)CGC>CAC	p.R131H	ALDH1A1_uc011lsh.1_Missense_Mutation_p.R52H	NM_000689	NP_000680	P00352	AL1A1_HUMAN	aldehyde dehydrogenase 1A1	131					cellular aldehyde metabolic process|ethanol oxidation|xenobiotic metabolic process	cytosol	aldehyde dehydrogenase (NAD) activity|androgen binding|Ras GTPase activator activity|retinal dehydrogenase activity			ovary(3)|lung(1)	4					NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	TGCACAGTAGCGCAATGTTTT	0.428													34	142					0	0	0.003755	0	0		T	75543858	T	T	75543858	3	4	23	1	0	0	0	0	1	0	0	0	490	768	27	1	1153	1	ALDH1A1	9	75543858	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2330302	75543858	65669573	670	19998											
RASEF	158158	broad.mit.edu	37	chr9	85677651	85677651	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatactgcctcggcgtcggcCggccgcacccgcagctccgt	5	6	12	18	7	0	0	0	0	0	0	3	0	1	0	5	3	3	3	5	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:85677651C>T	uc004amo.1	-	1	393	c.132G>A	c.(130-132)CCG>CCA	p.P44P	RASEF_uc004amp.1_Silent_p.P44P	NM_152573	NP_689786	Q8IZ41	RASEF_HUMAN	RAS and EF-hand domain containing	44	EF-hand 2.				protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3						CGGCGTCGGCCGGCCGCACCC	0.741													4	4					0	0	0.001168	0	0		T	85677651	T	T	85677651	2	4	23	1	0	0	0	0	0	0	0	1	13093	639	23	1		1	RASEF	9	85677651	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	10133793	85677651	55535780	671	19999											
AGTPBP1	23287	broad.mit.edu	37	chr9	88193897	88193897	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtataacttctttgtactcCtatttccctccaaactacaa	11	15	3	12	0	1	0	0	0	1	0	4	0	4	0	3	1	4	2	3	1	7	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:88193897C>A	uc011ltd.1	-	23	3313	c.3280G>T	c.(3280-3282)GGA>TGA	p.G1094*	AGTPBP1_uc004aod.3_Nonsense_Mutation_p.G720*|AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Nonsense_Mutation_p.G1054*|AGTPBP1_uc011lte.1_Nonsense_Mutation_p.G1106*	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	1094					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						CTTTGTACTCCTATTTCCCTC	0.398													26	126					8.58068e-18	9.40349e-18	0.007291	1	0		A	88193897	A	A	88193897	4	1	23	1	0	0	0	0	0	1	0	0	400	690	24	5	412	5	AGTPBP1	9	88193897	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2516246	88193897	53019534	672	20000											
GOLM1	51280	broad.mit.edu	37	chr9	88694210	88694210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggcggcgacttcatgctgCgacgcccgtttcccaagccc	5	7	13	16	5	1	0	1	0	0	0	2	2	2	0	3	3	3	2	3	3	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:88694210C>T	uc004aol.2	-	2	224	c.26G>A	c.(25-27)CGC>CAC	p.R9H	GOLM1_uc010mqd.1_RNA|GOLM1_uc004aom.2_Missense_Mutation_p.R9H	NM_016548	NP_057632	Q8NBJ4	GOLM1_HUMAN	golgi membrane protein 1	9	Cytoplasmic (Potential).					Golgi apparatus|integral to plasma membrane					0						CTTCATGCTGCGACGCCCGTT	0.527													10	25					0	0	0.008291	0	0		T	88694210	T	T	88694210	3	4	23	1	0	0	0	0	1	0	0	0	6582	768	27	1	1215	1	GOLM1	9	88694210	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	500313	88694210	52519221	673	20001											
SUSD3	203328	broad.mit.edu	37	chr9	95840243	95840243	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgctgcctcctcaagtgCgtgaagaagagcaagcggcg	10	6	13	12	3	1	3	1	1	0	2	2	3	2	3	3	1	5	2	3	1	4	0	rs149186318	by1000genomes	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:95840243C>T	uc004atb.2	+	3	429	c.393C>T	c.(391-393)TGC>TGT	p.C131C	SUSD3_uc004atc.2_Silent_p.C118C	NM_145006	NP_659443	Q96L08	SUSD3_HUMAN	sushi domain containing 3	131	Cytoplasmic (Potential).					integral to membrane				breast(2)|skin(2)|ovary(1)|lung(1)	6						TCCTCAAGTGCGTGAAGAAGA	0.607													25	99					0	0	0.00632	0	0		T	95840243	T	T	95840243	2	4	23	1	0	0	0	0	0	0	0	1	15434	776	27	1		1	SUSD3	9	95840243	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	7146033	95840243	45373188	674	20002											
FAM22G	441457	broad.mit.edu	37	chr9	99697697	99697697	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgcgggaatggcagcacacGagcaactttgaccggatgat	12	7	13	9	3	0	2	0	2	0	0	0	5	0	4	1	3	4	3	1	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:99697697G>A	uc004awq.1	+	3	1516	c.801G>A	c.(799-801)ACG>ACA	p.T267T	HIATL2_uc004awr.1_Intron	NM_001045477	NP_001038942	Q5VZR2	FA22G_HUMAN	hypothetical protein LOC441457	267										skin(1)	1		Acute lymphoblastic leukemia(62;0.0527)				GGCAGCACACGAGCAACTTTG	0.627													17	60					0	0	0.010504	0	0		A	99697697	A	A	99697697	2	1	23	1	0	0	0	0	0	0	0	1	5557	1045	37	1		1	FAM22G	9	99697697	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3857454	99697697	41515734	675	20003											
INVS	27130	broad.mit.edu	37	chr9	103008902	103008902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaagttttcttacaggaaaCggttaaagtgtttttaaaac	14	15	7	5	1	2	0	1	0	1	0	2	1	2	1	0	2	3	3	0	2	7	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:103008902C>T	uc004bap.1	+	8	1123	c.911C>T	c.(910-912)ACG>ATG	p.T304M	INVS_uc010mta.1_Missense_Mutation_p.T208M|INVS_uc011lve.1_Missense_Mutation_p.T208M|INVS_uc004bao.1_Missense_Mutation_p.T304M|INVS_uc004baq.1_Missense_Mutation_p.T208M|INVS_uc004bar.1_Missense_Mutation_p.T208M|INVS_uc010mtb.1_Translation_Start_Site	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	304	ANK 9.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				TTACAGGAAACGGTTAAAGTG	0.343													10	39					0	0	0.006214	0	0		T	103008902	T	T	103008902	3	4	23	1	0	0	0	0	1	0	0	0	7803	536	19	1	937	1	INVS	9	103008902	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3311205	103008902	38204529	676	20004											
MURC	347273	broad.mit.edu	37	chr9	103340555	103340555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacaaagtagcctccatcGtggacagtgtgcaggcaagc	11	7	13	10	1	0	0	0	0	0	0	2	2	1	2	2	3	3	3	2	3	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:103340555G>A	uc004bba.2	+	1	220	c.130G>A	c.(130-132)GTG>ATG	p.V44M		NM_001018116	NP_001018126	Q5BKX8	MURC_HUMAN	muscle-related coiled-coil protein	44	Potential.				cell differentiation|muscle organ development|transcription, DNA-dependent					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0461)				AGCCTCCATCGTGGACAGTGT	0.463													27	48					0	0	0.004656	0	0		A	103340555	A	A	103340555	3	1	23	1	0	0	0	0	1	0	0	0	10005	1145	40	1	132	1	MURC	9	103340555	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	331653	103340555	37872876	677	20005											
RNF20	56254	broad.mit.edu	37	chr9	104324640	104324640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgctatgacacccgccagcGcaaatgtcccaagtgtaatg	12	7	9	13	3	0	1	0	1	0	0	1	1	1	1	3	0	1	3	3	0	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:104324640G>A	uc004bbn.2	+	20	2954	c.2864G>A	c.(2863-2865)CGC>CAC	p.R955H		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	955	RING-type.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		ACCCGCCAGCGCAAATGTCCC	0.448													16	75					0	0	0.008871	0	0		A	104324640	A	A	104324640	3	1	23	1	0	0	0	0	1	0	0	0	13498	1087	38	1	2938	1	RNF20	9	104324640	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	984085	104324640	36888791	678	20006											
GRIN3A	116443	broad.mit.edu	37	chr9	104449155	104449155	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcatgaccccaaactgggTtgtaatttcgaaaatccgcc	11	9	10	11	2	0	1	0	1	0	0	2	2	1	1	4	2	1	3	4	2	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:104449155T>C	uc004bbp.1	-	2	1628	c.1027A>G	c.(1027-1029)ACC>GCC	p.T343A	GRIN3A_uc004bbq.1_Missense_Mutation_p.T343A	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	343	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	CCAAACTGGGTTGTAATTTCG	0.517													18	48					0	0	0.006122	0	0		C	104449155	C	C	104449155	3	2	23	1	0	0	0	0	1	0	0	0	6799	1725	60	3	2352	3	GRIN3A	9	104449155	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	124515	104449155	36764276	679	20007											
CDC26	246184	broad.mit.edu	37	chr9	116029676	116029676	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatggctccttctccatcaCtgcctcctacaacttccaca	9	11	3	18	0	2	0	1	0	1	0	6	0	5	0	5	1	3	1	5	1	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:116029676C>A	uc004bgw.2	-	4	484	c.125G>T	c.(124-126)AGT>ATT	p.S42I	FKBP15_uc010muu.1_Intron	NM_139286	NP_644815	Q8NHZ8	CDC26_HUMAN	CDC26 subunit of anaphase promoting complex	42					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm					0						TTCTCCATCACTGCCTCCTAC	0.388													22	129					2.80507e-11	3.00735e-11	0.012213	1	0		A	116029676	A	A	116029676	3	1	23	1	0	0	0	0	1	0	0	0	3068	565	20	5	136	5	CDC26	9	116029676	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	11580521	116029676	25183755	680	20008											
TLR4	7099	broad.mit.edu	37	chr9	120474910	120474910	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaatctttcaaattaccTgagtatttttctaatctgac	12	17	3	9	0	4	2	1	2	3	0	5	2	5	2	2	0	1	1	2	0	5	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:120474910T>C	uc004bjz.2	+	3	795	c.504T>C	c.(502-504)CCT>CCC	p.P168P	TLR4_uc004bka.2_Silent_p.P128P|TLR4_uc004bkb.2_5'UTR	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	168	Extracellular (Potential).|LRR 5.				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TCAAATTACCTGAGTATTTTT	0.373													28	108					0	0	0.007291	0	0		C	120474910	C	C	120474910	2	2	23	1	0	0	0	0	0	0	0	1	15978	1567	55	3		3	TLR4	9	120474910	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	4445234	120474910	20738521	681	20009											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123220813	123220813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttctaggcagccaggtgCgtgggccccatcacaatctg	7	10	11	13	1	4	0	1	0	3	0	4	0	4	0	3	3	2	1	3	3	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:123220813C>T	uc004bkf.2	-	20	2471	c.2290G>A	c.(2290-2292)GCA>ACA	p.A764T	CDK5RAP2_uc004bke.2_Missense_Mutation_p.A49T|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.A764T|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.A29T|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.A29T|CDK5RAP2_uc011lya.1_Missense_Mutation_p.A29T|CDK5RAP2_uc004bkh.1_Intron|CDK5RAP2_uc004bki.2_Missense_Mutation_p.A531T	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	764					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						CAGCCAGGTGCGTGGGCCCCA	0.458													21	66					0	0	0.012319	0	0		T	123220813	T	T	123220813	3	4	23	1	0	0	0	0	1	0	0	0	3149	768	27	1	3467	1	CDK5RAP2	9	123220813	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2745903	123220813	17992618	682	20010											
FBXW2	26190	broad.mit.edu	37	chr9	123526872	123526872	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaacaccaggtgaatacTgtggtcaggcatgctggtgg	10	8	13	10	0	1	1	1	1	0	0	1	1	1	1	2	5	3	2	2	5	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:123526872T>C	uc004bkl.1	-	8	1491	c.1330A>G	c.(1330-1332)AGT>GGT	p.S444G	FBXW2_uc011lyc.1_Missense_Mutation_p.S315G|FBXW2_uc004bkn.2_Missense_Mutation_p.S476G|FBXW2_uc004bkm.1_Missense_Mutation_p.S444G|FBXW2_uc010mvj.1_Missense_Mutation_p.S379G	NM_012164	NP_036296	Q9UKT8	FBXW2_HUMAN	F-box and WD repeat domain containing 2	444					proteolysis		protein binding|ubiquitin-protein ligase activity			urinary_tract(1)|ovary(1)|pancreas(1)|skin(1)	4						AGGTGAATACTGTGGTCAGGC	0.592													4	176					0	0	0.009096	0	0		C	123526872	C	C	123526872	3	2	23	1	0	0	0	0	1	0	0	0	5780	1580	55	3	38	3	FBXW2	9	123526872	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	306059	123526872	17686559	683	20011											
C5	727	broad.mit.edu	37	chr9	123723809	123723809	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagactttctgaattttgatAttggaagtgctataaaacat	14	15	7	5	0	1	3	0	2	1	1	1	4	1	4	0	1	2	1	0	1	6	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:123723809A>G	uc004bkv.2	-	37	4569	c.4539T>C	c.(4537-4539)AAT>AAC	p.N1513N		NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	1513					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	GAATTTTGATATTGGAAGTGC	0.363													14	55					0	0	0.00245	0	0		G	123723809	G	G	123723809	2	3	23	1	0	0	0	0	0	0	0	1	2283	446	16	3		3	C5	9	123723809	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	196937	123723809	17489622	684	20012											
ZBTB26	57684	broad.mit.edu	37	chr9	125681387	125681387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaacaccctggtacactttGggcactggtgatgccactgt	9	10	11	11	0	0	1	0	1	0	0	0	2	0	1	2	3	3	2	2	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:125681387G>A	uc004bnj.2	-	2	1039	c.827C>T	c.(826-828)CCA>CTA	p.P276L	ZBTB26_uc004bnk.2_Missense_Mutation_p.P276L	NM_020924	NP_065975	Q9HCK0	ZBT26_HUMAN	zinc finger and BTB domain containing 26	276	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGTACACTTTGGGCACTGGTG	0.453													35	134					0	0	0.004878	0	0		A	125681387	A	A	125681387	3	1	23	1	0	0	0	0	1	0	0	0	17558	1348	47	4	502	4	ZBTB26	9	125681387	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1957578	125681387	15532044	685	20013											
SCAI	286205	broad.mit.edu	37	chr9	127733710	127733710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaatcttgtgaggagcaagCgaagaaattcatctccaaaa	17	9	8	7	1	3	2	1	1	2	1	4	4	3	3	1	1	2	1	1	1	7	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:127733710C>T	uc004bpe.2	-	17	1694	c.1613G>A	c.(1612-1614)CGC>CAC	p.R538H	SCAI_uc004bpd.2_Missense_Mutation_p.R561H|SCAI_uc010mwu.2_RNA	NM_001144877	NP_001138349	Q8N9R8	SCAI_HUMAN	suppressor of cancer cell invasion isoform 2	538					negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|integral to membrane|nucleus	protein binding|transcription corepressor activity			ovary(2)|breast(2)|central_nervous_system(1)	5						GAGGAGCAAGCGAAGAAATTC	0.358													6	34					0	0	0.00308	0	0		T	127733710	T	T	127733710	3	4	23	1	0	0	0	0	1	0	0	0	13894	768	27	1	215	1	SCAI	9	127733710	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2052323	127733710	13479721	686	20014											
TTC16	158248	broad.mit.edu	37	chr9	130486410	130486410	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccgacaggggcaccatgtAccgacggctccaggagttcg	8	5	13	15	4	0	0	0	0	0	0	2	3	1	1	5	4	1	4	5	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:130486410A>G	uc004brq.1	+	8	951	c.884A>G	c.(883-885)TAC>TGC	p.Y295C	PTRH1_uc011mah.1_Intron|TTC16_uc011mai.1_Missense_Mutation_p.Y282C|TTC16_uc004brr.1_Missense_Mutation_p.Y240C|TTC16_uc010mxn.1_5'UTR	NM_144965	NP_659402	Q8NEE8	TTC16_HUMAN	tetratricopeptide repeat domain 16	295	TPR 5.						binding				0						GGCACCATGTACCGACGGCTC	0.672													7	28					0	0	0.00308	0	0		G	130486410	G	G	130486410	3	3	23	1	0	0	0	0	1	0	0	0	16709	391	14	3	914	3	TTC16	9	130486410	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2752700	130486410	10727021	687	20015											
PTGES2	80142	broad.mit.edu	37	chr9	130884666	130884666	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcgagattcggcttctggCcccccatgaagggccggtcc	6	7	13	15	3	1	2	0	1	1	1	3	3	2	2	5	4	1	1	5	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:130884666C>T	uc004bti.2	-	6	1458	c.980G>A	c.(979-981)GGC>GAC	p.G327D	PTGES2_uc004btj.2_RNA|PTGES2_uc004btk.2_Missense_Mutation_p.G136D|PTGES2_uc004btl.2_Missense_Mutation_p.G136D|PTGES2_uc004btm.2_RNA	NM_025072	NP_079348	Q9H7Z7	PGES2_HUMAN	prostaglandin E synthase 2	327	GST C-terminal.|Cytoplasmic (Potential).				cell redox homeostasis|prostaglandin biosynthetic process	Golgi membrane|integral to membrane|mitochondrion|perinuclear region of cytoplasm	electron carrier activity|prostaglandin-E synthase activity|protein binding|protein disulfide oxidoreductase activity				0						CGGCTTCTGGCCCCCCATGAA	0.637													17	70					0	0	0.012319	0	0		T	130884666	T	T	130884666	3	4	23	1	0	0	0	0	1	0	0	0	12770	739	26	2	161	2	PTGES2	9	130884666	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	398256	130884666	10328765	688	20016											
GOLGA2	2801	broad.mit.edu	37	chr9	131022375	131022375	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtttccttcagctcgctcaGcttctcctgcagctcgccca	4	12	7	18	3	3	0	2	0	1	0	7	0	4	0	3	0	4	6	3	0	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:131022375G>A	uc011maw.1	-	18	1784	c.1771C>T	c.(1771-1773)CTG>TTG	p.L591L	GOLGA2_uc010mxw.2_Intron|GOLGA2_uc004buh.2_Silent_p.L64L	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	591	Potential.					Golgi cisterna membrane	protein binding			ovary(1)	1						AGCTCGCTCAGCTTCTCCTGC	0.622													20	76					0	0	0.00278	0	0		A	131022375	A	A	131022375	2	1	23	1	0	0	0	0	0	0	0	1	6567	962	34	2		2	GOLGA2	9	131022375	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	137709	131022375	10191056	689	20017											
ZER1	10444	broad.mit.edu	37	chr9	131495728	131495728	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccatttccttggtctcctgCcgtgcggtcgccatcttaat	4	14	9	14	3	2	0	0	0	2	0	5	0	3	0	5	2	2	0	5	2	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:131495728C>T	uc004bwa.1	-	15	2653	c.2220G>A	c.(2218-2220)CGG>CGA	p.R740R		NM_006336	NP_006327	Q7Z7L7	ZER1_HUMAN	zyg-11 homolog B (C. elegans)-like	740	ARM 5.				ATP hydrolysis coupled proton transport|regulation of ubiquitin-protein ligase activity	Cul2-RING ubiquitin ligase complex|vacuolar proton-transporting V-type ATPase, V1 domain	protein binding|proton-transporting ATPase activity, rotational mechanism|ubiquitin-protein ligase activity			ovary(1)	1						TGGTCTCCTGCCGTGCGGTCG	0.572											OREG0019523	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	28					0	0	0.004482	0	0		T	131495728	T	T	131495728	2	4	23	1	0	0	0	0	0	0	0	1	17650	726	26	2		2	ZER1	9	131495728	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	473353	131495728	9717703	690	20018											
FAM73B	84895	broad.mit.edu	37	chr9	131832626	131832626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctgcagctgtcccggcGccgcagcgagatattgctgg	6	8	13	14	4	0	1	0	0	0	1	2	2	2	1	3	2	4	4	3	2	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:131832626G>A	uc004bxa.2	+	16	1862	c.1676G>A	c.(1675-1677)CGC>CAC	p.R559H	FAM73B_uc004bwy.2_RNA|FAM73B_uc004bwz.2_RNA|FAM73B_uc004bxb.2_Missense_Mutation_p.R135H	NM_032809	NP_116198	Q7L4E1	FA73B_HUMAN	hypothetical protein LOC84895	559						integral to membrane				skin(1)	1						CTGTCCCGGCGCCGCAGCGAG	0.667													7	39					0	0	0.004482	0	0		A	131832626	A	A	131832626	3	1	23	1	0	0	0	0	1	0	0	0	5632	1087	38	1	1734	1	FAM73B	9	131832626	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	336898	131832626	9380805	691	20019											
PPP2R4	5524	broad.mit.edu	37	chr9	131898802	131898802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catacaggatggagccagccGgcagccagggagtgtggggt	9	5	18	9	1	0	0	0	0	0	0	0	3	0	3	3	6	4	1	3	6	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:131898802G>A	uc004bxm.1	+	8	985	c.718G>A	c.(718-720)GGC>AGC	p.G240S	PPP2R4_uc004bxl.1_Missense_Mutation_p.G205S|PPP2R4_uc011mbo.1_Missense_Mutation_p.G240S|PPP2R4_uc010myr.1_Intron|PPP2R4_uc004bxn.1_Missense_Mutation_p.G205S|PPP2R4_uc004bxo.1_Missense_Mutation_p.G163S|PPP2R4_uc011mbp.1_Missense_Mutation_p.G176S|PPP2R4_uc011mbq.1_Missense_Mutation_p.G163S|PPP2R4_uc010mys.1_Missense_Mutation_p.G170S|PPP2R4_uc011mbr.1_5'Flank	NM_178001	NP_821068	Q15257	PTPA_HUMAN	protein phosphatase 2A, regulatory subunit B'	240	ATP.			G->D: Impairs ATPase activity of the PP2A(D):PPP2R4 complex; no effect on interaction with the PP2A(D) complex.	ATP catabolic process|negative regulation of phosphoprotein phosphatase activity|negative regulation of protein dephosphorylation|positive regulation of apoptosis|positive regulation of phosphoprotein phosphatase activity|positive regulation of protein dephosphorylation	calcium channel complex|cytoplasm|nucleus|protein phosphatase type 2A complex|soluble fraction	ATP binding|peptidyl-prolyl cis-trans isomerase activity|protein heterodimerization activity|protein homodimerization activity|protein phosphatase 2A binding|protein phosphatase type 2A regulator activity|protein tyrosine phosphatase activator activity|receptor binding			ovary(1)|lung(1)|pancreas(1)	3		Medulloblastoma(224;0.235)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)		GGAGCCAGCCGGCAGCCAGGG	0.537													85	224					0	0	0.01441	0	0		A	131898802	A	A	131898802	3	1	23	1	0	0	0	0	1	0	0	0	12413	1116	39	1	748	1	PPP2R4	9	131898802	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	66176	131898802	9314629	692	20020											
RAPGEF1	2889	broad.mit.edu	37	chr9	134455650	134455650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggggcagtggcactcacGcctgctggaagcagcgcatg	7	5	15	14	3	1	0	1	0	0	0	1	1	1	1	2	4	3	5	2	4	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:134455650G>A	uc004cbc.2	-	23	3213	c.3083C>T	c.(3082-3084)GCG>GTG	p.A1028V	RAPGEF1_uc004cbb.2_Missense_Mutation_p.A1046V	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	1028	Ras-GEF.				activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		TGGCACTCACGCCTGCTGGAA	0.642													11	37					0	0	0.00245	0	0		A	134455650	A	A	134455650	3	1	23	1	0	0	0	0	1	0	0	0	13068	1101	38	1	158	1	RAPGEF1	9	134455650	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2556848	134455650	6757781	693	20021											
RAPGEF1	2889	broad.mit.edu	37	chr9	134464198	134464198	+	Frame_Shift_Del	DEL	C	-	-																															ggcttctcacctggctgctaCcccccgggctgccaggggct																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:134464198delC	uc004cbc.2	-	17	2615	c.2485delG	c.(2485-2487)GTAfs	p.V829fs	RAPGEF1_uc004cbb.2_Frame_Shift_Del_p.V847fs	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	829					activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		CTGGCTGCTACCCCCCGGGCT	0.657													5	6	---	---	---	---						.	-	134464198	-	-	134464198	7	5	23	1	0	1	0	1	0	0	0	0	13068	507	18	0	780	0	RAPGEF1	9	134464198	Frame_Shift_Del	DEL	C	TCGA-BR-4368-01A-01D-1158-08	8548	134464198	6749233	694	20022											
SETX	23064	broad.mit.edu	37	chr9	135176111	135176111	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtatctttcttctcttcattTattctctcaggagctaaaaa	10	18	4	9	0	6	0	2	0	4	0	8	1	6	1	0	1	1	2	0	1	5	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:135176111T>C	uc004cbk.2	-	12	5637	c.5454A>G	c.(5452-5454)ATA>ATG	p.I1818M	SETX_uc004cbj.2_Missense_Mutation_p.I1437M|SETX_uc010mzt.2_Missense_Mutation_p.I1437M	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1818					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		TCTCTTCATTTATTCTCTCAG	0.368													29	123					0	0	0.005443	0	0		C	135176111	C	C	135176111	3	2	23	1	0	0	0	0	1	0	0	0	14166	1744	61	3	2639	3	SETX	9	135176111	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	711913	135176111	6037320	695	20023											
RALGDS	5900	broad.mit.edu	37	chr9	135978272	135978272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcagcttgatctgggCgatcacctcgaactcctggg	7	9	12	13	2	2	1	1	1	1	0	4	3	3	1	2	2	4	3	2	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:135978272C>T	uc004cco.2	-	13	1827	c.1807G>A	c.(1807-1809)GCC>ACC	p.A603T	RALGDS_uc004ccn.2_5'Flank|RALGDS_uc004ccp.2_RNA|RALGDS_uc004ccq.2_Missense_Mutation_p.A591T|RALGDS_uc004ccr.2_Missense_Mutation_p.A602T|RALGDS_uc011mcv.1_Missense_Mutation_p.A574T|RALGDS_uc004ccs.2_Missense_Mutation_p.A548T|RALGDS_uc011mcw.1_Missense_Mutation_p.A674T|RALGDS_uc004ccv.1_Missense_Mutation_p.A372T|RALGDS_uc004ccu.1_Missense_Mutation_p.A372T	NM_006266	NP_006257	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	603	Ras-GEF.				nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		TTGATCTGGGCGATCACCTCG	0.647			T	CIITA	PMBL|Hodgkin Lymphona|						OREG0019581	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	34					0	0	0.010729	0	0		T	135978272	T	T	135978272	3	4	23	1	0	0	0	0	1	0	0	0	13041	768	27	1	961	1	RALGDS	9	135978272	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	802161	135978272	5235159	696	20024											
ADAMTS13	11093	broad.mit.edu	37	chr9	136319630	136319630	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagctcgaccaaggccaGgacgtggaggtggacgaggc	9	4	18	10	3	0	0	0	0	0	0	1	5	0	3	2	6	2	2	2	6	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:136319630G>T	uc004cdv.3	+	24	3582	c.3138G>T	c.(3136-3138)CAG>CAT	p.Q1046H	ADAMTS13_uc004cdp.3_Missense_Mutation_p.Q273H|ADAMTS13_uc004cdt.1_Missense_Mutation_p.Q1046H|ADAMTS13_uc004cdu.1_Missense_Mutation_p.Q1015H|ADAMTS13_uc004cdw.3_Missense_Mutation_p.Q1046H|ADAMTS13_uc004cdx.3_Missense_Mutation_p.Q1015H|ADAMTS13_uc004cdz.3_Missense_Mutation_p.Q716H|ADAMTS13_uc004cea.1_5'Flank|ADAMTS13_uc004ceb.3_5'Flank	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1046	TSP type-1 7.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		ACCAAGGCCAGGACGTGGAGG	0.662													10	69					2.80697e-09	2.97709e-09	0.010729	1	0		T	136319630	T	T	136319630	3	4	23	1	0	0	0	0	1	0	0	0	258	991	35	5	3232	5	ADAMTS13	9	136319630	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	341358	136319630	4893801	697	20025											
LCN9	392399	broad.mit.edu	37	chr9	138557130	138557130	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccgtctcggagactgactAcaggctgttcatcaccttcc	7	10	10	14	2	3	2	2	1	1	1	5	3	4	2	3	3	1	2	3	3	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:138557130A>G	uc004cgk.1	+	4	347	c.347A>G	c.(346-348)TAC>TGC	p.Y116C		NM_001001676	NP_001001676	Q8WX39	LCN9_HUMAN	lipocalin 9	116						extracellular region	pheromone binding|transporter activity			large_intestine(2)	2		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;3.43e-07)|Epithelial(140;1.97e-06)|all cancers(34;6.1e-05)		GAGACTGACTACAGGCTGTTC	0.632													2	3					0	0	0.004672	0	0		G	138557130	G	G	138557130	3	3	23	1	0	0	0	0	1	0	0	0	8703	391	14	3	361	3	LCN9	9	138557130	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2237500	138557130	2656301	698	20026											
KCNT1	57582	broad.mit.edu	37	chr9	138667192	138667192	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcccaactcgccctacatCggcagctccccaaccctgtg	7	7	6	21	2	0	0	0	0	0	0	4	0	2	0	6	1	4	2	6	1	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:138667192C>T	uc011mdq.1	+	20	2354	c.2280C>T	c.(2278-2280)ATC>ATT	p.I760I	KCNT1_uc011mdr.1_Silent_p.I587I|KCNT1_uc010nbf.2_Silent_p.I715I|KCNT1_uc004cgo.1_Silent_p.I509I	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	760						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		CGCCCTACATCGGCAGCTCCC	0.662													20	48					0	0	0.004656	0	0		T	138667192	T	T	138667192	2	4	23	1	0	0	0	0	0	0	0	1	8107	874	31	1		1	KCNT1	9	138667192	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	110062	138667192	2546239	699	20027											
CAMSAP1	157922	broad.mit.edu	37	chr9	138742178	138742178	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgttattaccttcaacactAatggcgcatacagcatatct	12	13	5	11	2	2	0	1	0	1	0	3	0	2	0	1	1	4	3	1	1	6	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:138742178A>G	uc004cgr.3	-	6	938	c.938T>C	c.(937-939)TTA>TCA	p.L313S	CAMSAP1_uc004cgq.3_Missense_Mutation_p.L203S|CAMSAP1_uc010nbg.2_Missense_Mutation_p.L35S	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	313	CH.					cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		CTTCAACACTAATGGCGCATA	0.338													3	84					0	0	0.004672	0	0		G	138742178	G	G	138742178	3	3	23	1	0	0	0	0	1	0	0	0	2614	372	13	3	3918	3	CAMSAP1	9	138742178	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	74986	138742178	2471253	700	20028											
C9orf69	90120	broad.mit.edu	37	chr9	139008560	139008560	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgccgcagtgaacaggcTgcagctaaagtagagtagga	13	5	15	8	2	0	2	0	1	0	1	0	4	0	3	1	2	4	6	1	2	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:139008560T>C	uc004cgx.3	-	2	712	c.261A>G	c.(259-261)GCA>GCG	p.A87A	C9orf69_uc004cgy.2_RNA	NM_152833	NP_690046			hypothetical protein LOC90120												0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.58e-07)|Epithelial(140;6.42e-06)		GTGAACAGGCTGCAGCTAAAG	0.622													11	59					0	0	0.00245	0	0		C	139008560	C	C	139008560	2	2	23	1	0	0	0	0	0	0	0	1	2495	1567	55	3		3	C9orf69	9	139008560	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	266382	139008560	2204871	701	20029											
SEC16A	9919	broad.mit.edu	37	chr9	139358175	139358175	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcatctcctcctgctcagaCgtgtgctgcagcaaggccta	7	9	10	15	2	2	1	1	0	1	1	4	1	3	1	3	1	4	5	3	1	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:139358175C>T	uc004chx.2	-	10	4773	c.4464G>A	c.(4462-4464)ACG>ACA	p.T1488T	SEC16A_uc004chv.3_Silent_p.T878T|SEC16A_uc004chw.2_Silent_p.T1488T|SEC16A_uc010nbn.2_Silent_p.T1488T	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1310					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		CCTGCTCAGACGTGTGCTGCA	0.642													4	92					0	0	0.000602	0	0		T	139358175	T	T	139358175	2	4	23	1	0	0	0	0	0	0	0	1	14011	523	19	1		1	SEC16A	9	139358175	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	349615	139358175	1855256	702	20030											
KIAA1984	84960	broad.mit.edu	37	chr9	139694927	139694927	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctgctgtatttggacctGctggattatctgaagacagt	9	13	10	9	0	1	2	0	1	1	1	1	4	1	4	2	2	2	3	2	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:139694927G>A	uc004cjf.2	+	5	573	c.525G>A	c.(523-525)CTG>CTA	p.L175L		NM_001039374	NP_001034463	Q5T5S1	K1984_HUMAN	hypothetical protein LOC84960	175	Potential.									ovary(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.33e-06)|Epithelial(140;0.000124)		ATTTGGACCTGCTGGATTATC	0.627													7	23					0	0	0.001984	0	0		A	139694927	A	A	139694927	2	1	23	1	0	0	0	0	0	0	0	1	8282	1306	46	2		2	KIAA1984	9	139694927	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	336752	139694927	1518504	703	20031											
ABCA2	20	broad.mit.edu	37	chr9	139905558	139905558	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatcttgtcaaactggcCtgcggggagacagctcaggg	8	9	13	11	1	4	1	3	0	1	1	4	2	4	1	1	4	3	1	1	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:139905558C>A	uc011mem.1	-	38	6069	c.5921_splice	c.e38-1	p.G1974_splice	ABCA2_uc011mel.1_Splice_Site_p.G1975_splice|ABCA2_uc004ckl.1_Splice_Site_p.G1905_splice|ABCA2_uc004ckm.1_Splice_Site_p.G2005_splice	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2						cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		TCAAACTGGCCTGCGGGGAGA	0.662													15	49					1.99824e-07	2.09553e-07	0.00499	1	0		A	139905558	A	A	139905558	5	1	23	1	0	0	0	0	0	0	1	0	32	695	24	5	1431	5	ABCA2	9	139905558	Splice_Site	SNP	C	TCGA-BR-4368-01A-01D-1158-08	210631	139905558	1307873	704	20032											
CACNA1B	774	broad.mit.edu	37	chr9	140880954	140880954	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcttgctcttcctgttcaTtgtggtcttcgccctgctgg	1	18	9	13	1	4	0	1	0	3	0	6	0	5	0	2	2	2	3	2	2	0	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:140880954T>C	uc004cog.2	+	14	2004	c.1859T>C	c.(1858-1860)ATT>ACT	p.I620T	CACNA1B_uc011mfd.1_Missense_Mutation_p.I151T	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	620	Helical; Name=S5 of repeat II; (Potential).|II.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TTCCTGTTCATTGTGGTCTTC	0.607													16	33					0	0	0.004007	0	0		C	140880954	C	C	140880954	3	2	23	1	0	0	0	0	1	0	0	0	2542	1493	52	3	1913	3	CACNA1B	9	140880954	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	975396	140880954	332477	705	20033											
CACNA1B	774	broad.mit.edu	37	chr9	140968005	140968005	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggctgatcaagctgctccgCcagggctacaccatccgcat	8	7	10	16	3	1	1	1	1	0	0	3	1	3	1	4	2	3	5	4	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr9:140968005C>T	uc004cog.2	+	32	4885	c.4740C>T	c.(4738-4740)CGC>CGT	p.R1580R	CACNA1B_uc004coi.2_Silent_p.R792R|CACNA1B_uc004cok.1_5'Flank|CACNA1B_uc010ncp.1_5'Flank	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	1580	Helical; Name=S4 of repeat IV; (Potential).|IV.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	AGCTGCTCCGCCAGGGCTACA	0.572													16	77					0	0	0.012319	0	0		T	140968005	T	T	140968005	2	4	23	1	0	0	0	0	0	0	0	1	2542	726	26	2		2	CACNA1B	9	140968005	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	87051	140968005	245426	706	20034											
CELF2	10659	broad.mit.edu	37	chr10	11317065	11317065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaacctgggtgcgttcagcGgcattcaacaaatggcaggt	10	8	13	10	2	2	0	2	0	0	0	2	0	2	0	1	4	4	4	1	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:11317065G>A	uc001iki.3	+	8	894	c.802G>A	c.(802-804)GGC>AGC	p.G268S	CELF2_uc010qbi.1_Missense_Mutation_p.G40S|CELF2_uc010qbj.1_Missense_Mutation_p.G268S|CELF2_uc001ikk.2_Missense_Mutation_p.G275S|CELF2_uc001ikl.3_Missense_Mutation_p.G275S|CELF2_uc010qbk.1_RNA|CELF2_uc010qbl.1_Missense_Mutation_p.G244S|CELF2_uc010qbm.1_Missense_Mutation_p.G40S|CELF2_uc001iko.3_Missense_Mutation_p.G244S|CELF2_uc001ikp.3_Missense_Mutation_p.G244S|CELF2_uc010qbn.1_Missense_Mutation_p.G252S|CELF2_uc010qbo.1_Missense_Mutation_p.G157S|CELF2_uc010qbp.1_Missense_Mutation_p.G40S	NM_001025077	NP_001020248	O95319	CELF2_HUMAN	CUG triplet repeat, RNA binding protein 2	268	Necessary for RNA-binding, TNNT2 exon 5 and NMDA R1 exon 21 inclusion.				mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0						TGCGTTCAGCGGCATTCAACA	0.542													39	216					0	0	0.013114	0	0		A	11317065	A	A	11317065	3	1	23	1	0	0	0	0	1	0	0	0	3219	1116	39	1	910	1	CELF2	10	11317065	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08		11317065	124217682	707	20035											
USP6NL	9712	broad.mit.edu	37	chr10	11505504	11505504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctgatatttgaagtggCgttgctattttggttggcag	6	17	12	6	1	0	2	0	2	0	0	1	2	1	2	1	3	1	4	1	3	3	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:11505504C>T	uc001ikt.3	-	15	1744	c.1423G>A	c.(1423-1425)GCC>ACC	p.A475T	USP6NL_uc001iks.1_Missense_Mutation_p.A492T	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	475						intracellular	Rab GTPase activator activity				0						TTTGAAGTGGCGTTGCTATTT	0.453													42	224					0	0	0.013114	0	0		T	11505504	T	T	11505504	3	4	23	1	0	0	0	0	1	0	0	0	17113	768	27	1	1067	1	USP6NL	10	11505504	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	188439	11505504	124029243	708	20036											
ECHDC3	79746	broad.mit.edu	37	chr10	11789445	11789445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcatgacgctgacagcaacGatctgaaagtcattatcatc	13	11	7	10	2	4	3	3	3	1	0	5	4	4	3	0	0	2	2	0	0	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:11789445G>A	uc001ikw.3	+	2	488	c.268G>A	c.(268-270)GAT>AAT	p.D90N	ECHDC3_uc009xix.2_5'UTR	NM_024693	NP_078969	Q96DC8	ECHD3_HUMAN	enoyl Coenzyme A hydratase domain containing 3	90						mitochondrion	catalytic activity				0						TGACAGCAACGATCTGAAAGT	0.448													91	165					0	0	0.01441	0	0		A	11789445	A	A	11789445	3	1	23	1	0	0	0	0	1	0	0	0	4901	1058	37	1	274	1	ECHDC3	10	11789445	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	283941	11789445	123745302	709	20037											
C10orf47	254427	broad.mit.edu	37	chr10	11894126	11894126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgacatgaactcagacaCgtcccccagctgcaggctcc	10	7	8	16	1	2	3	1	2	1	1	4	3	4	3	3	1	3	3	3	1	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:11894126C>T	uc001ikx.2	+	2	204	c.50C>T	c.(49-51)ACG>ATG	p.T17M	uc001iky.1_Intron	NM_153256	NP_694988	Q86WR7	CJ047_HUMAN	hypothetical protein LOC254427	17	Ser-rich.									central_nervous_system(1)	1						AACTCAGACACGTCCCCCAGC	0.602													10	31					0	0	0.010729	0	0		T	11894126	T	T	11894126	3	4	23	1	0	0	0	0	1	0	0	0	1608	536	19	1	52	1	C10orf47	10	11894126	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	104681	11894126	123640621	710	20038											
CUBN	8029	broad.mit.edu	37	chr10	16979614	16979614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcaatggtaggtaaaacaCcatcaggtgcatccactgca	14	7	10	10	0	1	0	1	0	0	0	2	1	2	0	2	3	4	5	2	3	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:16979614C>T	uc001ioo.2	-	39	5955	c.5903G>A	c.(5902-5904)GGT>GAT	p.G1968D		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1968					cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AGGTAAAACACCATCAGGTGC	0.413													10	24					0	0	0.008291	0	0		T	16979614	T	T	16979614	3	4	23	1	0	0	0	0	1	0	0	0	4054	507	18	4	5084	4	CUBN	10	16979614	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5085488	16979614	118555133	711	20039											
CUBN	8029	broad.mit.edu	37	chr10	17107617	17107617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgcttgtgagagatggcGggatcgactttccacagtat	9	11	12	9	2	0	2	0	1	0	1	2	5	1	3	1	2	1	2	1	2	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:17107617G>A	uc001ioo.2	-	22	3081	c.3029C>T	c.(3028-3030)CCG>CTG	p.P1010L		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1010	CUB 5.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GAGAGATGGCGGGATCGACTT	0.393													8	217					0	0	0.004482	0	0		A	17107617	A	A	17107617	3	1	23	1	0	0	0	0	1	0	0	0	4054	1116	39	1	8026	1	CUBN	10	17107617	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	128003	17107617	118427130	712	20040											
PTPLA	9200	broad.mit.edu	37	chr10	17636319	17636319	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcacatgcggcaaggcAgcgtatattgtaagaagttc	11	12	10	8	2	2	1	1	0	1	1	3	1	2	1	0	2	2	5	0	2	5	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:17636319A>G	uc001ipg.2	-	6	704	c.669T>C	c.(667-669)GCT>GCC	p.A223A		NM_014241	NP_055056	B0YJ81	HACD1_HUMAN	protein tyrosine phosphatase-like, member A	223	Lumenal (Potential).				fatty acid biosynthetic process|multicellular organismal development|signal transduction	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein tyrosine phosphatase activity			central_nervous_system(1)|skin(1)	2						GCGGCAAGGCAGCGTATATTG	0.323													12	51					0	0	0.013537	0	0		G	17636319	G	G	17636319	2	3	23	1	0	0	0	0	0	0	0	1	12797	175	7	3		3	PTPLA	10	17636319	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	528702	17636319	117898428	713	20041											
NEBL	10529	broad.mit.edu	37	chr10	21147169	21147169	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctagatgaaccacttacGccgctgagcattttgctggc	8	10	10	13	3	0	3	0	2	0	1	0	3	0	3	3	1	4	4	3	1	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:21147169G>A	uc001iqi.2	-	9	1300	c.903C>T	c.(901-903)GGC>GGT	p.G301G	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	301	Nebulin 8.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						AACCACTTACGCCGCTGAGCA	0.448													24	42					0	0	0.00278	0	0		A	21147169	A	A	21147169	2	1	23	1	0	0	0	0	0	0	0	1	10322	1101	38	1		1	NEBL	10	21147169	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3510850	21147169	114387578	714	20042											
KIAA1217	56243	broad.mit.edu	37	chr10	24727369	24727369	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacaaggatcctgcacatgcGtttaatcacacaccaaaaac	17	7	5	12	1	1	0	1	0	0	0	2	1	2	1	2	1	4	2	2	1	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:24727369G>A	uc001iru.3	+	5	1210	c.807G>A	c.(805-807)GCG>GCA	p.A269A	KIAA1217_uc001irs.2_Silent_p.A189A|KIAA1217_uc001irt.3_Silent_p.A269A|KIAA1217_uc010qcy.1_Silent_p.A269A|KIAA1217_uc010qcz.1_Silent_p.A269A|KIAA1217_uc001irv.1_Silent_p.A119A|KIAA1217_uc010qda.1_RNA	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	269					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						CTGCACATGCGTTTAATCACA	0.408													5	183					0	0	0.000602	0	0		A	24727369	A	A	24727369	2	1	23	1	0	0	0	0	0	0	0	1	8232	1132	40	1		1	KIAA1217	10	24727369	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3580200	24727369	110807378	715	20043											
MYO3A	53904	broad.mit.edu	37	chr10	26359255	26359255	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctatgtatagtgcattgtTatttctggagaaagtggtgc	9	17	11	4	0	2	1	0	0	2	1	2	2	2	1	0	2	2	3	0	2	5	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:26359255T>C	uc001isn.2	+	14	1644	c.1284T>C	c.(1282-1284)GTT>GTC	p.V428V	MYO3A_uc009xko.1_Silent_p.V428V|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Silent_p.V428V	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	428	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						AGTGCATTGTTATTTCTGGAG	0.343													16	78					0	0	0.006122	0	0		C	26359255	C	C	26359255	2	2	23	1	0	0	0	0	0	0	0	1	10094	1741	61	3		3	MYO3A	10	26359255	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1631886	26359255	109175492	716	20044											
SVIL	6840	broad.mit.edu	37	chr10	29821497	29821497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgttggcagatgccaggaacGcacttcggagctgggcgaca	9	6	15	11	4	0	1	0	0	0	1	1	4	0	3	1	4	3	4	1	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:29821497G>A	uc001iut.1	-	8	2552	c.1799C>T	c.(1798-1800)GCG>GTG	p.A600V	SVIL_uc001iuu.1_Intron|SVIL_uc009xld.1_Missense_Mutation_p.A600V	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	600					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TGCCAGGAACGCACTTCGGAG	0.582													10	51					0	0	0.008291	0	0		A	29821497	A	A	29821497	3	1	23	1	0	0	0	0	1	0	0	0	15446	1087	38	1	4969	1	SVIL	10	29821497	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3462242	29821497	105713250	717	20045											
ZNF438	220929	broad.mit.edu	37	chr10	31134090	31134090	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagaaacgtgtggaggccagGacactcagggccctggcagg	10	4	17	10	1	1	1	1	0	0	1	1	4	1	3	2	6	1	1	2	6	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:31134090G>T	uc010qdz.1	-	8	2722	c.2287C>A	c.(2287-2289)CCT>ACT	p.P763T	ZNF438_uc001ivn.2_Missense_Mutation_p.P714T|ZNF438_uc010qdy.1_Missense_Mutation_p.P753T|ZNF438_uc001ivo.3_Missense_Mutation_p.P327T|ZNF438_uc009xlg.2_Missense_Mutation_p.P763T|ZNF438_uc001ivp.3_Missense_Mutation_p.P753T|ZNF438_uc010qea.1_Missense_Mutation_p.P763T|ZNF438_uc010qeb.1_Missense_Mutation_p.P763T	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	763					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				TGGAGGCCAGGACACTCAGGG	0.547													94	180					6.46527e-39	7.21225e-39	0.01441	1	0		T	31134090	T	T	31134090	3	4	23	1	0	0	0	0	1	0	0	0	17935	1174	41	5	203	5	ZNF438	10	31134090	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1312593	31134090	104400657	718	20046											
ZNF438	220929	broad.mit.edu	37	chr10	31139183	31139183	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatggtgaatgacatggcaGcattctggacgttaggactt	10	12	13	6	1	1	3	0	3	1	0	1	5	1	5	0	4	1	3	0	4	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:31139183G>A	uc010qdz.1	-	7	586	c.151C>T	c.(151-153)CTG>TTG	p.L51L	ZNF438_uc001ivn.2_Silent_p.L2L|ZNF438_uc010qdy.1_Silent_p.L41L|ZNF438_uc001ivo.3_5'UTR|ZNF438_uc009xlg.2_Silent_p.L51L|ZNF438_uc001ivp.3_Silent_p.L41L|ZNF438_uc010qea.1_Silent_p.L51L|ZNF438_uc010qeb.1_Silent_p.L51L|ZNF438_uc010qec.1_5'UTR	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	51					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				TGACATGGCAGCATTCTGGAC	0.488													30	183					0	0	0.012213	0	0		A	31139183	A	A	31139183	2	1	23	1	0	0	0	0	0	0	0	1	17935	962	34	2		2	ZNF438	10	31139183	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5093	31139183	104395564	719	20047											
RASGEF1A	221002	broad.mit.edu	37	chr10	43696165	43696165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagggggtcgcagcacaCgcccaggatgtccttctggg	7	6	14	14	2	1	0	0	0	1	0	3	1	2	1	3	4	1	2	3	4	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:43696165C>T	uc001jap.1	-	5	712	c.631G>A	c.(631-633)GTG>ATG	p.V211M	RASGEF1A_uc001jao.1_Missense_Mutation_p.V219M	NM_145313	NP_660356	Q8N9B8	RGF1A_HUMAN	RasGEF domain family, member 1A	211					cell migration|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						TCGCAGCACACGCCCAGGATG	0.652													15	54					0	0	0.00499	0	0		T	43696165	T	T	43696165	3	4	23	1	0	0	0	0	1	0	0	0	13094	536	19	1	850	1	RASGEF1A	10	43696165	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	12556982	43696165	91838582	720	20048											
RASSF4	83937	broad.mit.edu	37	chr10	45487447	45487447	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaataatcaaactgaccaTgaagtaagcagcacttaaac	20	7	6	8	0	1	3	1	2	0	1	1	3	1	3	1	0	4	3	1	0	7	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:45487447T>C	uc001jbo.2	+	10	1036	c.902T>C	c.(901-903)ATG>ACG	p.M301T	RASSF4_uc001jbp.2_Missense_Mutation_p.M332T|RASSF4_uc009xmn.2_Missense_Mutation_p.M231T|RASSF4_uc001jbq.2_Missense_Mutation_p.M198T|RASSF4_uc001jbt.2_Missense_Mutation_p.M258T	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	301	SARAH.				cell cycle|signal transduction		protein binding			large_intestine(1)	1						AAACTGACCATGAAGTAAGCA	0.453													16	34					0	0	0.00499	0	0		C	45487447	C	C	45487447	3	2	23	1	0	0	0	0	1	0	0	0	13113	1464	51	3	936	3	RASSF4	10	45487447	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1791282	45487447	90047300	721	20049											
ANUBL1	93550	broad.mit.edu	37	chr10	46121425	46121425	+	Frame_Shift_Del	DEL	G	-	-																															aactcctgtatgttctaactGgggagaacttttcctaaagt																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:46121425delG	uc001jcp.3	-	7	2088	c.1846delC	c.(1846-1848)CAGfs	p.Q616fs	ANUBL1_uc001jcl.3_Frame_Shift_Del_p.Q136fs|ANUBL1_uc001jcm.3_Frame_Shift_Del_p.Q616fs|ANUBL1_uc009xmu.2_Frame_Shift_Del_p.Q542fs|ANUBL1_uc001jcn.3_Frame_Shift_Del_p.Q542fs|ANUBL1_uc001jco.3_Intron	NM_001128324	NP_001121796	Q86XD8	ANUB1_HUMAN	AN1, ubiquitin-like, homolog	616							zinc ion binding				0						TGTTCTAACTGGGGAGAACTT	0.408													48	108	---	---	---	---						.	-	46121425	-	-	46121425	7	5	23	1	0	1	0	1	0	0	0	0	713	1357	47	0	353	0	ANUBL1	10	46121425	Frame_Shift_Del	DEL	G	TCGA-BR-4368-01A-01D-1158-08	633978	46121425	89413322	722	20050											
SLC18A3	6572	broad.mit.edu	37	chr10	50820184	50820184	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctctatgctcccgtcttGctgctgctccgcaacgtggg	3	12	11	15	3	2	0	0	0	2	0	4	0	4	0	2	1	6	6	2	1	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:50820184G>A	uc001jhw.2	+	1	1838	c.1398G>A	c.(1396-1398)TTG>TTA	p.L466L	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	466	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CTCCCGTCTTGCTGCTGCTCC	0.647													14	54					0	0	0.004007	0	0		A	50820184	A	A	50820184	2	1	23	1	0	0	0	0	0	0	0	1	14452	1310	46	2		2	SLC18A3	10	50820184	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4698759	50820184	84714563	723	20051											
CHAT	1103	broad.mit.edu	37	chr10	50863204	50863204	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgattccaggagggacgCgtggacaacatcagatcggc	10	5	14	12	5	1	1	1	0	0	1	3	5	2	4	2	4	1	0	2	4	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:50863204C>T	uc001jhz.2	+	12	1851	c.1698C>T	c.(1696-1698)CGC>CGT	p.R566R	CHAT_uc001jhv.1_Silent_p.R448R|CHAT_uc001jhx.1_Silent_p.R448R|CHAT_uc001jhy.1_Silent_p.R448R|CHAT_uc001jia.2_Silent_p.R448R|CHAT_uc010qgs.1_Silent_p.R448R	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	566					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	AGGAGGGACGCGTGGACAACA	0.597													18	74					0	0	0.010504	0	0		T	50863204	T	T	50863204	2	4	23	1	0	0	0	0	0	0	0	1	3316	755	27	1		1	CHAT	10	50863204	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	43020	50863204	84671543	724	20052											
PRKG1	5592	broad.mit.edu	37	chr10	52913011	52913011	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccaggagattgtggattgTatgtacccggtggagtatgg	9	12	15	5	1	0	1	0	0	0	1	1	4	1	3	2	5	1	3	2	5	3	5	rs56398862		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:52913011T>C	uc001jjm.2	+	2	548	c.354T>C	c.(352-354)TGT>TGC	p.C118C	PRKG1_uc001jjn.2_Silent_p.C133C|PRKG1_uc001jjo.2_Silent_p.C133C|PRKG1_uc010qhp.1_Silent_p.C118C	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	118	cGMP 1.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		TTGTGGATTGTATGTACCCGG	0.458													6	102					0	0	0.001168	0	0		C	52913011	C	C	52913011	2	2	23	1	0	0	0	0	0	0	0	1	12544	1644	57	3		3	PRKG1	10	52913011	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2049807	52913011	82621736	725	20053											
PRKG1	5592	broad.mit.edu	37	chr10	54042012	54042012	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagatcatcctgaacaaaGgccatgacatttcagccgac	14	7	8	12	1	2	3	2	2	0	1	3	5	3	3	3	1	2	0	3	1	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:54042012G>T	uc001jjm.2	+	14	1794	c.1600G>T	c.(1600-1602)GGC>TGC	p.G534C	PRKG1_uc001jjo.2_Missense_Mutation_p.G549C|PRKG1_uc009xow.1_Missense_Mutation_p.G252C|uc001jjq.1_Intron	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	534	Protein kinase.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		CCTGAACAAAGGCCATGACAT	0.423													16	98					1.5739e-10	1.6831e-10	0.004007	1	0		T	54042012	T	T	54042012	3	4	23	1	0	0	0	0	1	0	0	0	12544	1000	35	5	1969	5	PRKG1	10	54042012	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1129001	54042012	81492735	726	20054											
PCDH15	65217	broad.mit.edu	37	chr10	55582333	55582333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caataggtaacatacaaataGgtgtctctctcctagagagt	14	11	8	8	0	2	1	0	0	2	1	4	2	2	1	1	2	2	1	1	2	7	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:55582333G>A	uc001jju.1	-	33	5548	c.5153C>T	c.(5152-5154)CCT>CTT	p.P1718L	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.P1715L|PCDH15_uc010qhw.1_Missense_Mutation_p.P1678L|PCDH15_uc010qhx.1_Missense_Mutation_p.P1649L|PCDH15_uc010qhy.1_Missense_Mutation_p.P1725L|PCDH15_uc010qhz.1_Missense_Mutation_p.P1720L|PCDH15_uc010qia.1_Missense_Mutation_p.P1698L|PCDH15_uc010qib.1_Missense_Mutation_p.P1695L	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1718	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CATACAAATAGGTGTCTCTCT	0.363										HNSCC(58;0.16)			13	93					0	0	0.013537	0	0		A	55582333	A	A	55582333	3	1	23	1	0	0	0	0	1	0	0	0	11530	1000	35	4	2324	4	PCDH15	10	55582333	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1540321	55582333	79952414	727	20055											
BICC1	80114	broad.mit.edu	37	chr10	60549123	60549123	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcagcatatatcacaaacGtacaatatttcagtatcatt	16	14	3	8	1	4	0	4	0	0	0	4	0	4	0	0	0	3	3	0	0	7	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:60549123G>A	uc001jki.1	+	7	702	c.702G>A	c.(700-702)ACG>ACA	p.T234T		NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	234					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						TATCACAAACGTACAATATTT	0.413													28	168					0	0	0.005443	0	0		A	60549123	A	A	60549123	2	1	23	1	0	0	0	0	0	0	0	1	1428	1132	40	1		1	BICC1	10	60549123	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4966790	60549123	74985624	728	20056											
ANK3	288	broad.mit.edu	37	chr10	61847936	61847936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcgaattcttttagttaggGcaccctctgggaaagatgct	9	13	10	9	1	2	1	0	0	2	1	3	3	2	2	1	2	1	3	1	2	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:61847936G>A	uc001jky.2	-	29	3701	c.3509C>T	c.(3508-3510)GCC>GTC	p.A1170V	ANK3_uc001jkw.2_Missense_Mutation_p.A304V|ANK3_uc009xpa.2_Missense_Mutation_p.A304V|ANK3_uc001jkx.2_Missense_Mutation_p.A348V|ANK3_uc010qih.1_Missense_Mutation_p.A1171V|ANK3_uc001jkz.3_Missense_Mutation_p.A1164V|ANK3_uc001jla.1_Missense_Mutation_p.A236V|ANK3_uc001jlb.1_Missense_Mutation_p.A688V	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1170					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTTAGTTAGGGCACCCTCTGG	0.488													8	211					0	0	0.004482	0	0		A	61847936	A	A	61847936	3	1	23	1	0	0	0	0	1	0	0	0	622	1203	42	2	9997	2	ANK3	10	61847936	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1298813	61847936	73686811	729	20057											
EGR2	1959	broad.mit.edu	37	chr10	64575649	64575649	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actccgttcatctggtcaaaGgggcctcccagttcggcatt	7	11	10	13	2	3	0	2	0	1	0	6	0	5	0	3	4	0	3	3	4	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:64575649G>C	uc010qim.1	-	2	295	c.141C>G	c.(139-141)CCC>CCG	p.P47P	EGR2_uc010qin.1_5'UTR|EGR2_uc001jmi.2_Silent_p.P47P|EGR2_uc010qio.1_Silent_p.P60P|EGR2_uc009xph.2_Silent_p.P47P	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	47					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					TCTGGTCAAAGGGGCCTCCCA	0.642													5	141					0	0	0.000602	0	0		C	64575649	C	C	64575649	2	2	23	1	0	0	0	0	0	0	0	1	4978	987	35	5		5	EGR2	10	64575649	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2727713	64575649	70959098	730	20058											
JMJD1C	221037	broad.mit.edu	37	chr10	64974663	64974663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttttagggtctcttctcctgCcttctcattattatggggtt	4	20	8	9	0	3	0	1	0	3	0	6	0	3	0	2	3	1	1	2	3	3	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:64974663C>T	uc001jmn.2	-	8	1564	c.1264G>A	c.(1264-1266)GCA>ACA	p.A422T	JMJD1C_uc001jml.2_Missense_Mutation_p.A203T|JMJD1C_uc001jmm.2_Missense_Mutation_p.A134T|JMJD1C_uc010qiq.1_Missense_Mutation_p.A240T|JMJD1C_uc009xpi.2_Missense_Mutation_p.A240T|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmp.1_Missense_Mutation_p.A134T	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	422					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TCTTCTCCTGCCTTCTCATTA	0.368													39	105					0	0	0.010771	0	0		T	64974663	T	T	64974663	3	4	23	1	0	0	0	0	1	0	0	0	7966	739	26	2	6434	2	JMJD1C	10	64974663	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	399014	64974663	70560084	731	20059											
PBLD	64081	broad.mit.edu	37	chr10	70051980	70051980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagtgacaaacgtgagcGtgctattcatgttttctggc	9	13	11	8	2	3	3	2	2	1	1	3	3	3	3	0	1	3	2	0	1	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:70051980G>A	uc001jns.1	-	5	502	c.299C>T	c.(298-300)ACG>ATG	p.T100M	PBLD_uc001jnr.1_Missense_Mutation_p.T67M|PBLD_uc001jnt.1_Missense_Mutation_p.T100M|PBLD_uc001jnu.1_Missense_Mutation_p.T100M|PBLD_uc001jnv.1_Missense_Mutation_p.T67M	NM_022129	NP_071412	P30039	PBLD_HUMAN	MAWD binding protein isoform a	100					biosynthetic process		isomerase activity			skin(2)|ovary(1)	3						AAACGTGAGCGTGCTATTCAT	0.463													36	56					0	0	0.003755	0	0		A	70051980	A	A	70051980	3	1	23	1	0	0	0	0	1	0	0	0	11508	1145	40	1	680	1	PBLD	10	70051980	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5077317	70051980	65482767	732	20060											
HNRNPH3	3189	broad.mit.edu	37	chr10	70098402	70098402	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggagctgggcgtggaagtAtgtatgacagaatgcgacga	12	8	16	5	3	0	2	0	1	0	1	0	6	0	4	0	3	2	3	0	3	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:70098402A>G	uc001jnw.3	+	4	623	c.394A>G	c.(394-396)ATG>GTG	p.M132V	HNRNPH3_uc001jnx.3_Intron|HNRNPH3_uc009xpu.2_Missense_Mutation_p.M1V|HNRNPH3_uc010qiv.1_Intron|HNRNPH3_uc001jny.3_Missense_Mutation_p.M83V	NM_012207	NP_036339	P31942	HNRH3_HUMAN	heterogeneous nuclear ribonucleoprotein H3	132	Gly-rich.				nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|protein binding|RNA binding			ovary(2)	2						GCGTGGAAGTATGTATGACAG	0.438													34	135					0	0	0.004878	0	0		G	70098402	G	G	70098402	3	3	23	1	0	0	0	0	1	0	0	0	7284	449	16	3	404	3	HNRNPH3	10	70098402	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	46422	70098402	65436345	733	20061											
DDX50	79009	broad.mit.edu	37	chr10	70696705	70696705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accataggtctctggcttccGtttcttacgctgctgttgat	5	16	9	11	2	2	1	0	1	2	0	4	1	3	1	2	2	2	5	2	2	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:70696705G>A	uc001jou.2	+	12	1716	c.1609G>A	c.(1609-1611)GTT>ATT	p.V537I	DDX50_uc010qjc.1_Missense_Mutation_p.V537I	NM_024045	NP_076950	Q9BQ39	DDX50_HUMAN	nucleolar protein GU2	537						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1						TCTGGCTTCCGTTTCTTACGC	0.388													51	97					0	0	0.01441	0	0		A	70696705	A	A	70696705	3	1	23	1	0	0	0	0	1	0	0	0	4371	1145	40	1	1655	1	DDX50	10	70696705	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	598303	70696705	64838042	734	20062											
ADAMTS14	140766	broad.mit.edu	37	chr10	72496472	72496472	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaagcagctgtggtgcAgccatcctgacaacccgtac	9	7	10	15	1	0	1	0	1	0	0	1	1	1	1	4	1	7	5	4	1	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:72496472A>G	uc001jrh.2	+	10	1522	c.1522A>G	c.(1522-1524)AGC>GGC	p.S508G	ADAMTS14_uc001jrg.2_Missense_Mutation_p.S511G|ADAMTS14_uc001jri.1_Missense_Mutation_p.S31G	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	508	Disintegrin.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						GCTGTGGTGCAGCCATCCTGA	0.587													15	76					0	0	0.007413	0	0		G	72496472	G	G	72496472	3	3	23	1	0	0	0	0	1	0	0	0	259	188	7	3	1569	3	ADAMTS14	10	72496472	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1799767	72496472	63038275	735	20063											
KIAA0913	23053	broad.mit.edu	37	chr10	75557154	75557154	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcatggccagcattgacagCagtgcccctgaaacaacatc	12	6	10	13	0	0	2	0	2	0	0	1	2	0	2	3	2	5	3	3	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:75557154C>T	uc009xrl.2	+	18	3470	c.3438C>T	c.(3436-3438)AGC>AGT	p.S1146S	KIAA0913_uc001jve.2_Silent_p.S1151S|KIAA0913_uc001jvf.2_Silent_p.S1146S|KIAA0913_uc001jvh.2_RNA|KIAA0913_uc001jvi.2_Silent_p.S581S|KIAA0913_uc010qkr.1_Silent_p.S569S|KIAA0913_uc001jvj.2_Silent_p.S569S|KIAA0913_uc009xrn.1_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	1146	Ser-rich.						zinc ion binding			breast(1)	1	Prostate(51;0.0112)					GCATTGACAGCAGTGCCCCTG	0.567													31	42					0	0	0.004878	0	0		T	75557154	T	T	75557154	2	4	23	1	0	0	0	0	0	0	0	1	8216	709	25	2		2	KIAA0913	10	75557154	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3060682	75557154	59977593	736	20064											
MYST4	23522	broad.mit.edu	37	chr10	76790548	76790548	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatgaacatgaacactcTcaacgccatgaatgggtaca	16	7	8	10	1	1	3	1	3	1	0	2	4	1	3	1	1	5	1	1	1	6	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:76790548T>C	uc001jwn.1	+	18	6459	c.5966T>C	c.(5965-5967)CTC>CCC	p.L1989P	MYST4_uc001jwo.1_Missense_Mutation_p.L1697P|MYST4_uc001jwp.1_Missense_Mutation_p.L1806P	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1989	Interaction with RUNX1 and RUNX2.|Met-rich.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					ATGAACACTCTCAACGCCATG	0.483			T	CREBBP	AML								5	166					0	0	0.000602	0	0		C	76790548	C	C	76790548	3	2	23	1	0	0	0	0	1	0	0	0	10123	1551	54	3	6028	3	MYST4	10	76790548	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1233394	76790548	58744199	737	20065											
KCNMA1	3778	broad.mit.edu	37	chr10	78771771	78771771	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgggatctgtgatgtcAtcatgacaggccttgcagta	8	14	11	8	0	3	2	2	2	1	0	3	3	3	3	1	2	1	2	1	2	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:78771771A>G	uc001jxn.2	-	18	2223	c.2046T>C	c.(2044-2046)GAT>GAC	p.D682D	KCNMA1_uc001jxj.2_Silent_p.D686D|KCNMA1_uc001jxk.1_Silent_p.D297D|KCNMA1_uc009xrt.1_Silent_p.D502D|KCNMA1_uc001jxl.1_Silent_p.D336D|KCNMA1_uc001jxo.2_Silent_p.D682D|KCNMA1_uc001jxm.2_Silent_p.D682D|KCNMA1_uc001jxq.2_Silent_p.D682D	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	682	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	CTGTGATGTCATCATGACAGG	0.418													13	147					0	0	0.00245	0	0		G	78771771	G	G	78771771	2	3	23	1	0	0	0	0	0	0	0	1	8089	214	8	3		3	KCNMA1	10	78771771	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1981223	78771771	56762976	738	20066											
DLG5	9231	broad.mit.edu	37	chr10	79581412	79581412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttgggccaggtcccgcCgctgttggagccttcagagt	4	9	15	13	2	1	1	1	0	0	1	2	2	2	2	5	4	1	2	5	4	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:79581412C>T	uc001jzk.2	-	15	2900	c.2830G>A	c.(2830-2832)GGC>AGC	p.G944S	DLG5_uc001jzi.2_5'Flank|DLG5_uc001jzj.2_Intron|DLG5_uc009xru.1_RNA|DLG5_uc001jzl.3_Missense_Mutation_p.G548S	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	944					cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			CAGGTCCCGCCGCTGTTGGAG	0.607													12	13					0	0	0.001855	0	0		T	79581412	T	T	79581412	3	4	23	1	0	0	0	0	1	0	0	0	4564	652	23	1	3001	1	DLG5	10	79581412	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	809641	79581412	55953335	739	20067											
LDB3	11155	broad.mit.edu	37	chr10	88441340	88441340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgccttctcctcactcgccGaggcctctgaccctggccct	3	9	8	21	3	3	1	1	1	2	0	5	2	3	1	7	2	0	0	7	2	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:88441340G>A	uc001kdv.2	+	4	492	c.469G>A	c.(469-471)GAG>AAG	p.E157K	LDB3_uc010qml.1_Missense_Mutation_p.E157K|LDB3_uc010qmm.1_Missense_Mutation_p.E157K|LDB3_uc001kdu.2_Intron|LDB3_uc009xsz.2_Intron|LDB3_uc001kdr.2_Intron|LDB3_uc009xsy.2_Missense_Mutation_p.E157K|LDB3_uc001kds.2_Missense_Mutation_p.E157K|LDB3_uc001kdt.2_RNA	NM_007078	NP_009009	O75112	LDB3_HUMAN	LIM domain binding 3 isoform 1	157						cytoskeleton|perinuclear region of cytoplasm|pseudopodium	zinc ion binding			ovary(1)	1						CTCACTCGCCGAGGCCTCTGA	0.736													13	54					0	0	0.00245	0	0		A	88441340	A	A	88441340	3	1	23	1	0	0	0	0	1	0	0	0	8713	1059	37	1	483	1	LDB3	10	88441340	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	8859928	88441340	47093407	740	20068											
GLUD1	2746	broad.mit.edu	37	chr10	88822563	88822563	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccccttggctgatgggtttAccagtaacacaggcgtgtgc	7	10	12	12	1	0	1	0	1	0	0	0	1	0	1	3	3	3	3	3	3	2	4	rs144831842		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:88822563A>G	uc001keh.2	-	6	868	c.771T>C	c.(769-771)GGT>GGC	p.G257G	GLUD1_uc001keg.2_Silent_p.G90G|GLUD1_uc010qmp.1_Silent_p.G124G	NM_005271	NP_005262	P00367	DHE3_HUMAN	glutamate dehydrogenase 1 precursor	257					glutamate biosynthetic process|glutamate catabolic process|positive regulation of insulin secretion	mitochondrial matrix	ADP binding|ATP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|identical protein binding|leucine binding|NAD+ binding				0					L-Glutamic Acid(DB00142)|NADH(DB00157)	TGATGGGTTTACCAGTAACAC	0.418													24	46					0	0	0.00632	0	0		G	88822563	G	G	88822563	2	3	23	1	0	0	0	0	0	0	0	1	6491	378	14	3		3	GLUD1	10	88822563	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	381223	88822563	46712184	741	20069											
CH25H	9023	broad.mit.edu	37	chr10	90967020	90967020	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccggagctgcaaaggacCtgggggtcggagcagttgtg	7	7	18	9	2	0	0	0	0	0	0	1	3	0	3	2	5	4	4	2	5	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:90967020C>A	uc001kfz.2	-	1	52	c.30G>T	c.(28-30)CAG>CAT	p.Q10H		NM_003956	NP_003947	O95992	CH25H_HUMAN	cholesterol 25-hydroxylase	10					bile acid biosynthetic process|fatty acid biosynthetic process|sterol biosynthetic process	cytosol|endoplasmic reticulum membrane|integral to membrane	cholesterol 25-hydroxylase activity|iron ion binding				0		Colorectal(252;0.0161)		GBM - Glioblastoma multiforme(2;0.000133)		TGCAAAGGACCTGGGGGTCGG	0.637													8	13					0.000157383	0.000161517	0.00308	1	0		A	90967020	A	A	90967020	3	1	23	1	0	0	0	0	1	0	0	0	3310	680	24	5	792	5	CH25H	10	90967020	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2144457	90967020	44567727	742	20070											
PLCE1	51196	broad.mit.edu	37	chr10	96014707	96014707	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagaagagcccactcttTgaccacagctgggtccccca	9	8	8	16	0	1	3	0	1	1	2	3	3	3	3	5	1	2	1	5	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:96014707T>A	uc001kjk.2	+	11	4089	c.3455T>A	c.(3454-3456)TTG>TAG	p.L1152*	PLCE1_uc010qnx.1_Nonsense_Mutation_p.L1152*|PLCE1_uc001kjm.2_Nonsense_Mutation_p.L844*	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1152					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GCCCACTCTTTGACCACAGCT	0.542													65	280					0	0	0.01441	0	0		A	96014707	A	A	96014707	4	1	23	1	0	0	0	0	0	1	0	0	12053	1821	63	5	3779	5	PLCE1	10	96014707	Nonsense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	5047687	96014707	39520040	743	20071											
TCTN3	26123	broad.mit.edu	37	chr10	97446824	97446824	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagactgtgaagttatagtAagaggcagcattgagggctg	13	10	14	4	0	0	4	0	2	0	2	0	4	0	4	0	2	1	5	0	2	5	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:97446824A>G	uc001klb.3	-	6	1073	c.829T>C	c.(829-831)TAC>CAC	p.Y277H	TCTN3_uc001kla.3_Missense_Mutation_p.Y126H|TCTN3_uc010qoi.1_Missense_Mutation_p.Y198H|TCTN3_uc001kld.2_Missense_Mutation_p.Y295H|TCTN3_uc009xux.1_Missense_Mutation_p.Y126H|TCTN3_uc009xuy.1_RNA	NM_015631	NP_056446	Q6NUS6	TECT3_HUMAN	tectonic 3 isoform a precursor	277	Extracellular (Potential).				apoptosis	integral to membrane					0		Colorectal(252;0.0815)		Epithelial(162;1.69e-07)|all cancers(201;5.63e-06)		AAGTTATAGTAAGAGGCAGCA	0.423													20	90					0	0	0.014323	0	0		G	97446824	G	G	97446824	3	3	23	1	0	0	0	0	1	0	0	0	15749	362	13	3	1030	3	TCTN3	10	97446824	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1432117	97446824	38087923	744	20072											
RRP12	23223	broad.mit.edu	37	chr10	99126211	99126211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgtgcttacccaggactCgttgggccaccttgggatcc	5	10	11	15	1	0	0	0	0	0	0	2	2	1	2	5	3	2	2	5	3	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:99126211C>T	uc001knf.2	-	28	3522	c.3383G>A	c.(3382-3384)CGA>CAA	p.R1128Q	RRP12_uc001kne.2_Missense_Mutation_p.R143Q|RRP12_uc009xvl.2_Missense_Mutation_p.R245Q|RRP12_uc009xvm.2_Missense_Mutation_p.R846Q|RRP12_uc010qou.1_Missense_Mutation_p.R1067Q|RRP12_uc009xvn.2_Missense_Mutation_p.R1028Q	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	1128						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		ACCCAGGACTCGTTGGGCCAC	0.627													45	158					0	0	0.01441	0	0		T	99126211	T	T	99126211	3	4	23	1	0	0	0	0	1	0	0	0	13711	884	31	1	538	1	RRP12	10	99126211	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1679387	99126211	36408536	745	20073											
CRTAC1	55118	broad.mit.edu	37	chr10	99677257	99677257	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatgtcactctgcatacCtgtatatttgctgaccccag	8	13	6	14	0	2	1	1	1	1	0	3	1	3	1	4	0	3	3	4	0	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:99677257C>A	uc001kou.1	-	5	1071	c.715G>T	c.(715-717)GGG>TGG	p.G239W	CRTAC1_uc001kov.2_Missense_Mutation_p.G228W|CRTAC1_uc001kot.1_Missense_Mutation_p.G29W	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	239						proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		CTCTGCATACCTGTATATTTG	0.577													22	31					7.41877e-09	7.85352e-09	0.012319	1	0		A	99677257	A	A	99677257	3	1	23	1	0	0	0	0	1	0	0	0	3899	695	24	5	1314	5	CRTAC1	10	99677257	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	551046	99677257	35857490	746	20074											
NKX2-3	159296	broad.mit.edu	37	chr10	101294790	101294790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggccggagactgcaaggCggcggaggagagcgagaggc	10	1	21	9	5	0	3	0	0	0	3	0	8	0	4	1	7	2	1	1	7	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:101294790C>T	uc009xwj.2	+	2	606	c.407C>T	c.(406-408)GCG>GTG	p.A136V		NM_145285	NP_660328	Q8TAU0	NKX23_HUMAN	NK2 transcription factor related, locus 3	136						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.45e-08)		GACTGCAAGGCGGCGGAGGAG	0.642													6	5					0	0	0.001168	0	0		T	101294790	T	T	101294790	3	4	23	1	0	0	0	0	1	0	0	0	10470	768	27	1	413	1	NKX2-3	10	101294790	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1617533	101294790	34239957	747	20075											
COX15	1355	broad.mit.edu	37	chr10	101486818	101486818	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtaggcagcaggcaggatGtacacaaggcctacaaggcg	14	4	14	9	1	0	0	0	0	0	0	0	1	0	1	1	5	3	5	1	5	6	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:101486818G>A	uc001kqb.3	-	4	1106	c.489C>T	c.(487-489)TAC>TAT	p.Y163Y	COX15_uc001kqc.3_Silent_p.Y163Y|COX15_uc010qpj.1_5'UTR	NM_078470	NP_510870	Q7KZN9	COX15_HUMAN	COX15 homolog isoform 1	163	Helical; (Potential).				heme a biosynthetic process|respiratory chain complex IV assembly|respiratory gaseous exchange	integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;3.08e-10)|all cancers(201;2.43e-08)		CAGGCAGGATGTACACAAGGC	0.517													6	87					0	0	0.001984	0	0		A	101486818	A	A	101486818	2	1	23	1	0	0	0	0	0	0	0	1	3767	1372	48	4		4	COX15	10	101486818	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	192028	101486818	34047929	748	20076											
CUTC	51076	broad.mit.edu	37	chr10	101514331	101514332	+	Missense_Mutation	DNP	CA	TG	TG																															acaaaggatccttgagggttCaggtgctacagaattccact																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:101514331_101514332CA>TG	uc001kqd.3	+	8	795_796	c.647_648CA>TG	c.(646-648)TCA>TTG	p.S216L	CUTC_uc001kqe.3_RNA	NM_015960	NP_057044	Q9NTM9	CUTC_HUMAN	cutC copper transporter homolog	216					copper ion homeostasis|copper ion transport|protein tetramerization	cytoplasm|nucleus	copper ion binding			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3e-10)|all cancers(201;2.37e-08)		CTTGAGGGTTCAGGTGCTACAG	0.356													11	428					0	0	0.004672	0	0		TG	101514332	TG	TG	101514331	3	4	23	1	0	0	0	0	1	0	0	0	4066	838	29	4	677	4	CUTC	10	101514331	Missense_Mutation	DNP	CA	TCGA-BR-4368-01A-01D-1158-08	27513	101514331	34020416	749	20077											
ABCC2	1244	broad.mit.edu	37	chr10	101590172	101590172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagagagaacagctttcGtcgaacacttagccgcaggt	13	7	12	9	3	0	3	0	0	0	3	2	6	0	3	1	1	4	2	1	1	4	2	rs149359610		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:101590172G>A	uc001kqf.2	+	20	2868	c.2729G>A	c.(2728-2730)CGT>CAT	p.R910H		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	910	Cytoplasmic (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	AACAGCTTTCGTCGAACACTT	0.478													13	143					0	0	0.00499	0	0		A	101590172	A	A	101590172	3	1	23	1	0	0	0	0	1	0	0	0	53	1145	40	1	2807	1	ABCC2	10	101590172	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	75841	101590172	33944575	750	20078											
ABCC2	1244	broad.mit.edu	37	chr10	101590491	101590491	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agttctaggtccaatggcagGcatctgaagtccctgagaaa	12	9	11	9	0	2	2	0	2	2	1	4	3	4	2	2	3	0	3	2	3	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:101590491G>A	uc001kqf.2	+	21	2905	c.2766G>A	c.(2764-2766)AGG>AGA	p.R922R		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	922	Cytoplasmic (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	CCAATGGCAGGCATCTGAAGT	0.468													6	107					0	0	0.001984	0	0		A	101590491	A	A	101590491	2	1	23	1	0	0	0	0	0	0	0	1	53	1194	42	2		2	ABCC2	10	101590491	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	319	101590491	33944256	751	20079											
CPN1	1369	broad.mit.edu	37	chr10	101835823	101835823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagctcgcggcccaacgcttCgttgccgtgcatgttcccca	5	9	10	17	5	0	0	0	0	0	0	3	0	1	0	4	1	4	5	4	1	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:101835823C>T	uc001kql.2	-	2	525	c.265G>A	c.(265-267)GAA>AAA	p.E89K		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	89	Catalytic.	Zinc; catalytic.			proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		CCCAACGCTTCGTTGCCGTGC	0.562													30	71					0	0	0.003755	0	0		T	101835823	T	T	101835823	3	4	23	1	0	0	0	0	1	0	0	0	3812	893	31	1	1143	1	CPN1	10	101835823	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	245332	101835823	33698924	752	20080											
CWF19L1	55280	broad.mit.edu	37	chr10	101997844	101997844	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaccatttccctcgactctTaaagaaccgtctcagagtgg	11	10	7	13	2	2	2	1	0	2	2	5	3	3	2	3	1	1	0	3	1	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:101997844T>A	uc001kqq.1	-	11	1276	c.1189A>T	c.(1189-1191)AAG>TAG	p.K397*	CWF19L1_uc001kqs.1_Nonsense_Mutation_p.K149*|CWF19L1_uc001kqr.1_Nonsense_Mutation_p.K397*|CWF19L1_uc001kqt.1_Nonsense_Mutation_p.K101*|CWF19L1_uc010qpn.1_Nonsense_Mutation_p.K260*|SNORA12_uc001kqu.1_5'Flank	NM_018294	NP_060764	Q69YN2	C19L1_HUMAN	CWF19-like 1, cell cycle control	397							catalytic activity				0		Colorectal(252;0.117)		Epithelial(162;3.78e-10)|all cancers(201;3.1e-08)		CCTCGACTCTTAAAGAACCGT	0.483													6	265					0	0	0.001984	0	0		A	101997844	A	A	101997844	4	1	23	1	0	0	0	0	0	1	0	0	4074	1763	61	5	443	5	CWF19L1	10	101997844	Nonsense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	162021	101997844	33536903	753	20081											
C10orf76	79591	broad.mit.edu	37	chr10	103799868	103799868	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccacgtttctctacctgtgCcatggttagagaatctgtga	8	14	9	10	1	2	2	0	1	2	1	4	3	3	2	3	1	2	2	3	1	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:103799868C>T	uc009xwy.1	-	2	106	c.4G>A	c.(4-6)GCA>ACA	p.A2T	C10orf76_uc001kui.2_Missense_Mutation_p.A2T	NM_024541	NP_078817	Q5T2E6	CJ076_HUMAN	hypothetical protein LOC79591	2						integral to membrane					0		Colorectal(252;0.123)		Epithelial(162;2.41e-08)|all cancers(201;6.41e-07)		TCTACCTGTGCCATGGTTAGA	0.294													44	109					0	0	0.013114	0	0		T	103799868	T	T	103799868	3	4	23	1	0	0	0	0	1	0	0	0	1619	739	26	2	2165	2	C10orf76	10	103799868	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1802024	103799868	31734879	754	20082											
AS3MT	57412	broad.mit.edu	37	chr10	104632870	104632870	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaggtggaagtggctgaaaAgtatcttgactatcacatgg	12	12	12	5	0	2	2	1	2	1	0	2	3	2	3	0	4	0	2	0	4	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:104632870A>C	uc001kwk.2	+	5	478	c.338A>C	c.(337-339)AAG>ACG	p.K113T	AS3MT_uc001kwj.2_Missense_Mutation_p.K115T|AS3MT_uc009xxh.2_Missense_Mutation_p.K113T	NM_020682	NP_065733	Q9HBK9	AS3MT_HUMAN	arsenic (+3 oxidation state) methyltransferase	113					arsonoacetate metabolic process|toxin metabolic process	cytosol	arsenite methyltransferase activity|methylarsonite methyltransferase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;5.87e-09)|all cancers(201;1.58e-07)|BRCA - Breast invasive adenocarcinoma(275;0.223)		GTGGCTGAAAAGTATCTTGAC	0.323													30	80					0	0	0.00623	0	0		C	104632870	C	C	104632870	3	2	23	1	0	0	0	0	1	0	0	0	1006	72	3	5	356	5	AS3MT	10	104632870	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	833002	104632870	30901877	755	20083											
INA	9118	broad.mit.edu	37	chr10	105037797	105037797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagtatgagtccctggccGctaagaacctgcagtccgcg	8	7	11	15	3	0	2	0	1	0	1	2	2	2	2	5	1	2	3	5	1	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:105037797G>A	uc001kws.2	+	1	878	c.829G>A	c.(829-831)GCT>ACT	p.A277T	uc001kwr.2_5'Flank|INA_uc009xxj.2_Missense_Mutation_p.A277T	NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	277	Coil 2.|Rod.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		GTCCCTGGCCGCTAAGAACCT	0.657													3	33					0	0	0.004672	0	0		A	105037797	A	A	105037797	3	1	23	1	0	0	0	0	1	0	0	0	7746	1087	38	1	831	1	INA	10	105037797	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	404927	105037797	30496950	756	20084											
SH3PXD2A	9644	broad.mit.edu	37	chr10	105361647	105361647	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accatccaggatctggcagtAccaccagccattagggttcc	10	8	9	14	0	1	0	0	0	1	0	3	1	3	1	6	3	2	3	6	3	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:105361647A>G	uc001kxj.1	-	14	3384	c.3244T>C	c.(3244-3246)TAC>CAC	p.Y1082H	SH3PXD2A_uc010qqr.1_Intron|SH3PXD2A_uc010qqs.1_Missense_Mutation_p.Y917H|SH3PXD2A_uc010qqt.1_Missense_Mutation_p.Y959H|SH3PXD2A_uc009xxn.1_Missense_Mutation_p.Y917H|SH3PXD2A_uc010qqu.1_Missense_Mutation_p.Y1025H	NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	1110	SH3 5.				cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)		ATCTGGCAGTACCACCAGCCA	0.567													37	132					0	0	0.010771	0	0		G	105361647	G	G	105361647	3	3	23	1	0	0	0	0	1	0	0	0	14281	391	14	3	77	3	SH3PXD2A	10	105361647	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	323850	105361647	30173100	757	20085											
SORCS1	114815	broad.mit.edu	37	chr10	108923733	108923733	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccattctactcacgctgctGttgtggccagaccagtggac	7	10	10	14	1	2	1	1	0	1	1	2	2	2	2	3	2	2	3	3	2	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:108923733G>A	uc001kym.2	-	1	560	c.552C>T	c.(550-552)AAC>AAT	p.N184N	SORCS1_uc001kyl.2_Silent_p.N184N|SORCS1_uc009xxs.2_Silent_p.N184N|SORCS1_uc001kyn.1_Silent_p.N184N|SORCS1_uc001kyo.2_Silent_p.N184N	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	184	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TCACGCTGCTGTTGTGGCCAG	0.557													15	53					0	0	0.014323	0	0		A	108923733	A	A	108923733	2	1	23	1	0	0	0	0	0	0	0	1	14955	1368	48	4		4	SORCS1	10	108923733	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3562086	108923733	26611014	758	20086											
HABP2	3026	broad.mit.edu	37	chr10	115343921	115343921	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctagcattgctcaagttaAagccagtggatggtcactgt	11	11	10	9	0	2	0	2	0	0	0	2	1	2	1	2	2	3	3	2	2	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:115343921A>C	uc001lai.3	+	11	1355	c.1252A>C	c.(1252-1254)AAG>CAG	p.K418Q	HABP2_uc010qrz.1_RNA	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	418	Peptidase S1.				cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		GCTCAAGTTAAAGCCAGTGGA	0.507													25	56					0	0	0.008361	0	0		C	115343921	C	C	115343921	3	2	23	1	0	0	0	0	1	0	0	0	6954	15	1	5	1294	5	HABP2	10	115343921	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	6420188	115343921	20190826	759	20087											
NRAP	4892	broad.mit.edu	37	chr10	115377303	115377303	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaagcatctggatgctgacGgtacttcttctgttgagcag	9	12	11	9	1	3	2	0	2	3	0	3	3	3	3	0	2	4	5	0	2	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:115377303G>T	uc001laj.2	-	26	3048	c.2884C>A	c.(2884-2886)CGT>AGT	p.R962S	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Missense_Mutation_p.R927S|NRAP_uc001lal.3_Missense_Mutation_p.R962S	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	962	Nebulin 24.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		GGATGCTGACGGTACTTCTTC	0.403													17	162					2.35188e-11	2.5247e-11	0.006122	1	0		T	115377303	T	T	115377303	3	4	23	1	0	0	0	0	1	0	0	0	10657	1116	39	5	2376	5	NRAP	10	115377303	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	33382	115377303	20157444	760	20088											
NRAP	4892	broad.mit.edu	37	chr10	115383322	115383322	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcttggctttggctgccAggaaggtcaaggaatcaaga	10	9	12	10	0	3	1	2	0	1	1	3	3	3	3	2	5	1	2	2	5	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:115383322A>G	uc001laj.2	-	23	2587	c.2423T>C	c.(2422-2424)CTG>CCG	p.L808P	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Missense_Mutation_p.L773P|NRAP_uc001lal.3_Missense_Mutation_p.L808P	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	808	Nebulin 20.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		tttggctgccaggaaggtcaa	0.398													42	121					0	0	0.007835	0	0		G	115383322	G	G	115383322	3	3	23	1	0	0	0	0	1	0	0	0	10657	188	7	3	2849	3	NRAP	10	115383322	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	6019	115383322	20151425	761	20089											
VWA2	340706	broad.mit.edu	37	chr10	116037686	116037686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacaggtgggaggagctgCatgcactggccagcgagcct	8	5	17	11	1	0	0	0	0	0	0	0	3	0	2	2	5	5	4	2	5	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:116037686C>T	uc001lbl.1	+	7	901	c.580C>T	c.(580-582)CAT>TAT	p.H194Y	VWA2_uc001lbk.1_Missense_Mutation_p.H194Y|VWA2_uc009xyf.1_5'UTR	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	194	VWFA 1.					extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		GGAGGAGCTGCATGCACTGGC	0.617													9	21					0	0	0.010729	0	0		T	116037686	T	T	116037686	3	4	23	1	0	0	0	0	1	0	0	0	17265	710	25	2	602	2	VWA2	10	116037686	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	654364	116037686	19497061	762	20090											
PNLIPRP1	5407	broad.mit.edu	37	chr10	118360629	118360629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaggatgcccacagatgggtCactatgctgataaatttgct	12	11	10	8	0	1	2	1	1	0	1	1	3	1	3	1	2	3	2	1	2	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:118360629C>T	uc001lco.1	+	10	997	c.979C>T	c.(979-981)CAC>TAC	p.H327Y	PNLIPRP1_uc001lcp.2_Missense_Mutation_p.H327Y	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	327					lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		ACAGATGGGTCACTATGCTGA	0.443													5	161					0	0	0.000602	0	0		T	118360629	T	T	118360629	3	4	23	1	0	0	0	0	1	0	0	0	12169	826	29	4	1013	4	PNLIPRP1	10	118360629	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2322943	118360629	17174118	763	20091											
KCNK18	338567	broad.mit.edu	37	chr10	118969040	118969040	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctaccccgtcaccaggcttGgcaagtacttgtgcatgctc	7	11	9	14	1	2	0	1	0	1	0	3	0	2	0	3	2	4	5	3	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:118969040G>T	uc010qsr.1	+	3	385	c.385G>T	c.(385-387)GGC>TGC	p.G129C		NM_181840	NP_862823	Q7Z418	KCNKI_HUMAN	potassium channel, subfamily K, member 18	129						integral to membrane|plasma membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;0.19)		all cancers(201;0.0211)		CACCAGGCTTGGCAAGTACTT	0.493													14	255					7.53681e-25	8.34664e-25	0.00632	1	0		T	118969040	T	T	118969040	3	4	23	1	0	0	0	0	1	0	0	0	8081	1348	47	5	395	5	KCNK18	10	118969040	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	608411	118969040	16565707	764	20092											
C10orf46	143384	broad.mit.edu	37	chr10	120514110	120514110	+	Frame_Shift_Del	DEL	C	-	-																															gcgggcaccgccagcagctgCccccccggaggctctcgggc																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:120514110delC	uc001lds.1	-	1	649	c.165delG	c.(163-165)GGGfs	p.G55fs	C10orf46_uc010qst.1_RNA	NM_153810	NP_722517	Q86Y37	CJ046_HUMAN	chromosome 10 open reading frame 46	55	Pro-rich.				ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding				0		Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0131)		CCAGCAGCTGCCCCCCCGGAG	0.736													11	10	---	---	---	---						.	-	120514110	-	-	120514110	7	5	23	1	0	1	0	1	0	0	0	0	1607	726	26	0	980	0	C10orf46	10	120514110	Frame_Shift_Del	DEL	C	TCGA-BR-4368-01A-01D-1158-08	1545070	120514110	15020637	765	20093											
SEC23IP	11196	broad.mit.edu	37	chr10	121658058	121658058	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagtgatccttttgggAatattggacagtcaccatta	11	12	10	8	0	1	1	1	1	0	0	2	3	2	3	2	2	1	2	2	2	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:121658058A>G	uc001leu.1	+	2	355	c.283A>G	c.(283-285)AAT>GAT	p.N95D	SEC23IP_uc010qtc.1_Intron	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	95	Interaction with SEC23A.				Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		TCCTTTTGGGAATATTGGACA	0.473													10	207					0	0	0.008291	0	0		G	121658058	G	G	121658058	3	3	23	1	0	0	0	0	1	0	0	0	14018	246	9	3	289	3	SEC23IP	10	121658058	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1143948	121658058	13876689	766	20094											
PLEKHA1	59338	broad.mit.edu	37	chr10	124186520	124186520	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggcgccattgtagcacaGcggggtcccggcagatctgc	6	8	14	13	3	2	1	0	0	2	1	3	1	3	1	2	4	3	3	2	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:124186520G>A	uc001lge.1	+	11	996	c.873G>A	c.(871-873)CAG>CAA	p.Q291Q	PLEKHA1_uc001lgf.1_Silent_p.Q291Q|PLEKHA1_uc001lgg.1_Silent_p.Q291Q|PLEKHA1_uc001lgh.2_Silent_p.Q291Q	NM_001001974	NP_001001974	Q9HB21	PKHA1_HUMAN	pleckstrin homology domain containing, family A	291					B cell receptor signaling pathway|cellular response to hydrogen peroxide|establishment of protein localization|negative regulation of protein kinase B signaling cascade|phosphatidylinositol 3-kinase cascade|ruffle organization	cytoplasm|nucleus|ruffle membrane	PDZ domain binding|phosphatidylinositol-3,4-bisphosphate binding			kidney(1)	1		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TTGTAGCACAGCGGGGTCCCG	0.488													21	58					0	0	0.003954	0	0		A	124186520	A	A	124186520	2	1	23	1	0	0	0	0	0	0	0	1	12074	962	34	2		2	PLEKHA1	10	124186520	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2528462	124186520	11348227	767	20095											
PLEKHA1	59338	broad.mit.edu	37	chr10	124189240	124189240	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcgcagcaactctttggTctcaacctttaccatggaga	9	12	7	13	1	3	1	1	0	3	1	5	2	3	1	2	2	4	2	2	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:124189240T>C	uc001lge.1	+	12	1124	c.1001T>C	c.(1000-1002)GTC>GCC	p.V334A	PLEKHA1_uc001lgf.1_3'UTR|PLEKHA1_uc001lgg.1_Missense_Mutation_p.V334A	NM_001001974	NP_001001974	Q9HB21	PKHA1_HUMAN	pleckstrin homology domain containing, family A	334					B cell receptor signaling pathway|cellular response to hydrogen peroxide|establishment of protein localization|negative regulation of protein kinase B signaling cascade|phosphatidylinositol 3-kinase cascade|ruffle organization	cytoplasm|nucleus|ruffle membrane	PDZ domain binding|phosphatidylinositol-3,4-bisphosphate binding			kidney(1)	1		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				AACTCTTTGGTCTCAACCTTT	0.542													14	71					0	0	0.012319	0	0		C	124189240	C	C	124189240	3	2	23	1	0	0	0	0	1	0	0	0	12074	1667	58	3	1043	3	PLEKHA1	10	124189240	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2720	124189240	11345507	768	20096											
HTRA1	5654	broad.mit.edu	37	chr10	124249045	124249045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtggtgaccaacaagcaccGggtcaaagttgagctgaaga	13	6	13	9	2	1	4	1	3	0	1	1	4	1	4	2	2	3	3	2	2	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:124249045G>A	uc001lgj.2	+	3	808	c.680G>A	c.(679-681)CGG>CAG	p.R227Q		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	227	Serine protease.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				AACAAGCACCGGGTCAAAGTT	0.493													17	91					0	0	0.00499	0	0		A	124249045	A	A	124249045	3	1	23	1	0	0	0	0	1	0	0	0	7469	1116	39	1	690	1	HTRA1	10	124249045	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	59805	124249045	11285702	769	20097											
CUZD1	50624	broad.mit.edu	37	chr10	124596473	124596473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgaaggtgggagtcacacGgccacagacttgtccaatca	11	8	11	11	2	2	1	2	0	0	1	4	3	3	2	2	3	0	0	2	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:124596473G>A	uc001lgq.2	-	5	1023	c.691C>T	c.(691-693)CGT>TGT	p.R231C	CUZD1_uc001lgp.2_5'UTR|CUZD1_uc009yad.2_5'UTR|CUZD1_uc009yaf.2_Intron|CUZD1_uc001lgr.2_5'UTR|CUZD1_uc010qty.1_Intron|CUZD1_uc009yae.2_Intron|CUZD1_uc001lgs.2_Missense_Mutation_p.R231C|CUZD1_uc010qtz.1_Missense_Mutation_p.R231C	NM_022034	NP_071317	Q86UP6	CUZD1_HUMAN	CUB and zona pellucida-like domains 1 precursor	231	Extracellular (Potential).|CUB 2.				cell cycle|cell division|cell proliferation|substrate-dependent cell migration, cell attachment to substrate|trypsinogen activation	integral to membrane|transport vesicle membrane|zymogen granule membrane				ovary(1)|skin(1)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.126)|COAD - Colon adenocarcinoma(40;0.141)		GGAGTCACACGGCCACAGACT	0.463													17	109					0	0	0.006122	0	0		A	124596473	A	A	124596473	3	1	23	1	0	0	0	0	1	0	0	0	4069	1116	39	1	1152	1	CUZD1	10	124596473	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	347428	124596473	10938274	770	20098											
ZRANB1	54764	broad.mit.edu	37	chr10	126631072	126631072	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagtgcacaatgtcagaaCgtggaattaagtgggcttgt	13	10	13	5	1	1	2	1	0	0	2	1	3	1	3	0	2	2	2	0	2	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:126631072C>T	uc001lic.2	+	1	381	c.10C>T	c.(10-12)CGT>TGT	p.R4C	ZRANB1_uc010qug.1_Missense_Mutation_p.R30C	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	4	RanBP2-type 1.				positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)		AATGTCAGAACGTGGAATTAA	0.388													7	193					0	0	0.00308	0	0		T	126631072	T	T	126631072	3	4	23	1	0	0	0	0	1	0	0	0	18247	536	19	1	12	1	ZRANB1	10	126631072	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2034599	126631072	8903675	771	20099											
FANK1	92565	broad.mit.edu	37	chr10	127697821	127697821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtcctagaaatggccagaGtttttgacagacaggttggg	10	11	14	6	0	0	4	0	1	0	3	1	4	1	4	2	3	0	2	2	3	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:127697821G>A	uc001ljh.3	+	10	1062	c.958G>A	c.(958-960)GTT>ATT	p.V320I	FANK1_uc009yan.2_Missense_Mutation_p.V346I|FANK1_uc001lji.2_Missense_Mutation_p.V314I	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains	320						cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)				AATGGCCAGAGTTTTTGACAG	0.408													9	290					0	0	0.004482	0	0		A	127697821	A	A	127697821	3	1	23	1	0	0	0	0	1	0	0	0	5686	1029	36	4	996	4	FANK1	10	127697821	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1066749	127697821	7836926	772	20100											
ADAM12	8038	broad.mit.edu	37	chr10	127726832	127726832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggtgggtaggaatctggcGgcttcctcatcaggcctttt	5	13	13	10	2	3	0	2	0	1	0	5	1	4	1	2	6	0	2	2	6	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:127726832G>A	uc001ljk.2	-	20	2749	c.2336C>T	c.(2335-2337)CCG>CTG	p.P779L	ADAM12_uc010qul.1_Missense_Mutation_p.P730L	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	779	Cytoplasmic (Potential).				cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		GGAATCTGGCGGCTTCCTCAT	0.557													8	21					0	0	0.004482	0	0		A	127726832	A	A	127726832	3	1	23	1	0	0	0	0	1	0	0	0	236	1116	39	1	409	1	ADAM12	10	127726832	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	29011	127726832	7807915	773	20101											
MKI67	4288	broad.mit.edu	37	chr10	129903029	129903029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgaggtttctcttgggccGttgctttgtgcttgctgggg	1	16	15	9	1	1	1	0	1	1	0	2	1	1	1	2	4	3	5	2	4	0	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:129903029G>A	uc001lke.2	-	13	7270	c.7075C>T	c.(7075-7077)CGG>TGG	p.R2359W	MKI67_uc001lkf.2_Missense_Mutation_p.R1999W|MKI67_uc009yav.1_Missense_Mutation_p.R1934W|MKI67_uc009yaw.1_Missense_Mutation_p.R1509W	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2359	16 X 122 AA approximate repeats.|12.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				CTCTTGGGCCGTTGCTTTGTG	0.502													19	836					0	0	0.010504	0	0		A	129903029	A	A	129903029	3	1	23	1	0	0	0	0	1	0	0	0	9616	1144	40	1	2707	1	MKI67	10	129903029	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2176197	129903029	5631718	774	20102											
STK32C	282974	broad.mit.edu	37	chr10	134041580	134041580	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgcactgctgcttgttcAtgtacttcatggcgtacatc	7	14	9	11	2	2	0	2	0	0	0	3	1	2	0	0	1	5	6	0	1	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr10:134041580A>G	uc001lle.1	-	3	511	c.371T>C	c.(370-372)ATG>ACG	p.M124T	STK32C_uc001lld.1_Missense_Mutation_p.M7T|STK32C_uc010quu.1_Missense_Mutation_p.M137T|STK32C_uc009ybc.1_Missense_Mutation_p.M7T|STK32C_uc009ybd.1_Missense_Mutation_p.M7T|STK32C_uc001llb.2_5'UTR|STK32C_uc001llc.1_RNA	NM_173575	NP_775846	Q86UX6	ST32C_HUMAN	serine/threonine kinase 32C	124	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|breast(1)	5		all_cancers(35;2.72e-11)|all_epithelial(44;2.33e-08)|Lung NSC(174;0.000855)|all_lung(145;0.00146)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.112)|Melanoma(40;0.124)|Glioma(114;0.203)		Epithelial(32;3.99e-05)|all cancers(32;5.58e-05)|OV - Ovarian serous cystadenocarcinoma(35;9.96e-05)|BRCA - Breast invasive adenocarcinoma(275;0.222)		CTGCTTGTTCATGTACTTCAT	0.607													23	61					0	0	0.004656	0	0		G	134041580	G	G	134041580	3	3	23	1	0	0	0	0	1	0	0	0	15324	217	8	3	1129	3	STK32C	10	134041580	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	4138551	134041580	1493167	775	20103											
ANO9	338440	broad.mit.edu	37	chr11	432030	432030	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcttgttgttcatgacaacGaagttcacgattcggattct	9	15	9	8	3	4	1	2	1	2	0	5	4	4	2	0	1	1	3	0	1	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:432030G>A	uc001lpi.2	-	5	460	c.375C>T	c.(373-375)TTC>TTT	p.F125F	ANO9_uc001lph.2_5'Flank|ANO9_uc010qvv.1_5'UTR	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	125	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						TCATGACAACGAAGTTCACGA	0.622													29	55					0	0	0.003755	0	0		A	432030	A	A	432030	2	1	23	1	0	0	0	0	0	0	0	1	704	1049	37	1		1	ANO9	11	432030	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08		432030	134574486	776	20104											
PTDSS2	81490	broad.mit.edu	37	chr11	489433	489433	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatcgccttccagttcacGccgtacagctgggttcgctt	6	11	11	13	4	1	0	1	0	0	0	4	1	2	1	3	2	2	5	3	2	1	5	rs75188178	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:489433G>A	uc001lpj.2	+	9	1064	c.888G>A	c.(886-888)ACG>ACA	p.T296T		NM_030783	NP_110410	Q9BVG9	PTSS2_HUMAN	phosphatidylserine synthase 2	296	Cytoplasmic (Potential).					integral to membrane					0		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;2.76e-26)|Epithelial(43;2.56e-25)|OV - Ovarian serous cystadenocarcinoma(40;7.54e-20)|BRCA - Breast invasive adenocarcinoma(625;8.76e-05)|Lung(200;0.0407)|LUSC - Lung squamous cell carcinoma(625;0.0735)	Phosphatidylserine(DB00144)	TCCAGTTCACGCCGTACAGCT	0.667													19	29					0	0	0.010504	0	0		A	489433	A	A	489433	2	1	23	1	0	0	0	0	0	0	0	1	12759	1074	38	1		1	PTDSS2	11	489433	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	57403	489433	134517083	777	20105											
EPS8L2	64787	broad.mit.edu	37	chr11	724757	724757	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaccagccatggccaagtaCgtcaagatcctgtatgactt	12	9	8	12	1	1	2	1	1	0	1	2	2	2	2	4	1	2	2	4	1	4	3	rs139122869	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:724757C>T	uc001lqt.2	+	16	1735	c.1488C>T	c.(1486-1488)TAC>TAT	p.Y496Y	EPS8L2_uc001lqu.2_Silent_p.Y496Y|EPS8L2_uc010qwk.1_Silent_p.Y512Y|EPS8L2_uc001lqv.2_Silent_p.Y451Y|EPS8L2_uc001lqw.2_Silent_p.Y108Y|EPS8L2_uc001lqx.2_Silent_p.Y108Y|EPS8L2_uc001lqy.2_Silent_p.Y4Y	NM_022772	NP_073609	Q9H6S3	ES8L2_HUMAN	epidermal growth factor receptor pathway	496	SH3.					cytoplasm				pancreas(1)	1		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.37e-27)|Epithelial(43;2.81e-26)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-20)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGGCCAAGTACGTCAAGATCC	0.602													10	71					0	0	0.010729	0	0		T	724757	T	T	724757	2	4	23	1	0	0	0	0	0	0	0	1	5204	547	19	1		1	EPS8L2	11	724757	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	235324	724757	134281759	778	20106											
SLC25A22	79751	broad.mit.edu	37	chr11	792014	792014	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggcgcgatgaccagcgcGcggcagtaggcgcccttcag	7	4	17	13	6	1	1	1	1	0	0	1	2	1	1	2	4	1	2	2	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:792014G>A	uc001lri.2	-	10	1215	c.873C>T	c.(871-873)CGC>CGT	p.R291R	CEND1_uc001lrh.1_5'Flank|SLC25A22_uc009yci.2_Silent_p.R291R|SLC25A22_uc001lrj.2_Silent_p.R291R	NM_024698	NP_078974	Q9H936	GHC1_HUMAN	mitochondrial glutamate carrier 1	291	Solcar 3.					integral to membrane|mitochondrial inner membrane|nucleus	L-glutamate transmembrane transporter activity|protein binding|symporter activity				0		all_cancers(49;4.75e-06)|all_epithelial(84;0.00204)|Breast(177;0.00234)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;6.27e-26)|Epithelial(43;4.84e-25)|OV - Ovarian serous cystadenocarcinoma(40;2.72e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	L-Glutamic Acid(DB00142)	TGACCAGCGCGCGGCAGTAGG	0.687													10	12					0	0	0.006214	0	0		A	792014	A	A	792014	2	1	23	1	0	0	0	0	0	0	0	1	14510	1074	38	1		1	SLC25A22	11	792014	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	67257	792014	134214502	779	20107											
MUC5B	727897	broad.mit.edu	37	chr11	1268464	1268464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccccagtgccgaacaccacgGccaccacacacgggcggtcc	9	2	10	20	4	0	0	0	0	0	0	1	1	1	0	7	3	2	0	7	3	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:1268464G>A	uc009ycr.1	+	50	12064	c.11938G>A	c.(11938-11940)GCC>ACC	p.A3980T	MUC5B_uc001ltb.2_Missense_Mutation_p.A3455T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3452	7 X Cys-rich subdomain repeats.|Thr-rich.|17 X approximate tandem repeats, Ser/Thr- rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GAACACCACGGCCACCACACA	0.542													11	54					0	0	0.00245	0	0		A	1268464	A	A	1268464	3	1	23	1	0	0	0	0	1	0	0	0	9997	1203	42	2	10485	2	MUC5B	11	1268464	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	476450	1268464	133738052	780	20108											
MOB2	81532	broad.mit.edu	37	chr11	1491525	1491525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggtcgtccatgatggcGgtctctttggggtccagcag	5	11	16	9	2	1	2	0	2	1	0	5	2	3	2	2	5	1	1	2	5	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:1491525G>A	uc010qwz.1	-	5	874	c.684C>T	c.(682-684)ACC>ACT	p.T228T	MOB2_uc001lto.1_Silent_p.T112T|MOB2_uc001ltp.1_5'UTR|MOB2_uc001ltq.1_Silent_p.T191T|MOB2_uc010qwy.1_Silent_p.T112T	NM_053005	NP_443731	Q70IA6	MOB2_HUMAN	HCCA2 protein	197						nucleus|perinuclear region of cytoplasm	metal ion binding				0						CCATGATGGCGGTCTCTTTGG	0.667													22	111					0	0	0.00333	0	0		A	1491525	A	A	1491525	2	1	23	1	0	0	0	0	0	0	0	1	9699	1103	39	1		1	MOB2	11	1491525	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	223061	1491525	133514991	781	20109											
MOB2	81532	broad.mit.edu	37	chr11	1501680	1501680	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagaactcggagatggtgCtatactgcaggttgatgtgg	9	11	15	6	1	0	3	0	1	0	2	1	4	0	3	0	4	5	4	0	4	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:1501680C>A	uc010qwz.1	-	3	498	c.308G>T	c.(307-309)AGC>ATC	p.S103I	MOB2_uc001lto.1_5'UTR|MOB2_uc001ltp.1_5'UTR|MOB2_uc001ltq.1_Missense_Mutation_p.S66I|MOB2_uc010qwy.1_5'UTR	NM_053005	NP_443731	Q70IA6	MOB2_HUMAN	HCCA2 protein	72						nucleus|perinuclear region of cytoplasm	metal ion binding				0						GGAGATGGTGCTATACTGCAG	0.567													32	62					2.51541e-25	2.78937e-25	0.004878	1	0		A	1501680	A	A	1501680	3	1	23	1	0	0	0	0	1	0	0	0	9699	797	28	5	510	5	MOB2	11	1501680	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	10155	1501680	133504836	782	20110											
CD81	975	broad.mit.edu	37	chr11	2411682	2411682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtggccctgtggctccGccatgacccgcagaccacca	6	6	13	16	2	0	2	0	1	0	1	1	2	1	2	6	3	0	2	6	3	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:2411682G>A	uc001lwf.1	+	2	340	c.107G>A	c.(106-108)CGC>CAC	p.R36H	CD81_uc001lwg.1_Missense_Mutation_p.R29H	NM_004356	NP_004347	P60033	CD81_HUMAN	CD81 antigen	36	Extracellular (Potential).				activation of MAPK activity|cell proliferation|phosphatidylinositol biosynthetic process|positive regulation of 1-phosphatidylinositol 4-kinase activity|positive regulation of cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|protein localization|regulation of immune response|virion attachment, binding of host cell surface receptor	integral to plasma membrane	protein binding				0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.000338)|LUSC - Lung squamous cell carcinoma(625;0.191)		CTGTGGCTCCGCCATGACCCG	0.627													23	154					0	0	0.005443	0	0		A	2411682	A	A	2411682	3	1	23	1	0	0	0	0	1	0	0	0	3042	1087	38	1	113	1	CD81	11	2411682	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	910002	2411682	132594834	783	20111											
CD81	975	broad.mit.edu	37	chr11	2417118	2417118	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttgactgctgtggctccaGcacactgactgctttgacca	7	11	10	13	0	0	3	0	3	0	0	1	3	1	3	2	1	3	5	2	1	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:2417118G>T	uc001lwf.1	+	6	712	c.479G>T	c.(478-480)AGC>ATC	p.S160I	CD81_uc001lwg.1_Missense_Mutation_p.S153I|CD81_uc001lwh.1_5'Flank	NM_004356	NP_004347	P60033	CD81_HUMAN	CD81 antigen	160	Extracellular (Potential).				activation of MAPK activity|cell proliferation|phosphatidylinositol biosynthetic process|positive regulation of 1-phosphatidylinositol 4-kinase activity|positive regulation of cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|protein localization|regulation of immune response|virion attachment, binding of host cell surface receptor	integral to plasma membrane	protein binding				0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.000338)|LUSC - Lung squamous cell carcinoma(625;0.191)		TGTGGCTCCAGCACACTGACT	0.612													16	39					9.95505e-16	1.08601e-15	0.014323	1	0		T	2417118	T	T	2417118	3	4	23	1	0	0	0	0	1	0	0	0	3042	971	34	5	501	5	CD81	11	2417118	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5436	2417118	132589398	784	20112											
TRPM5	29850	broad.mit.edu	37	chr11	2436251	2436251	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcagccacttctggccCgtgggccgcttggccgggcc	3	7	14	17	3	1	0	0	0	1	0	2	0	2	0	6	4	2	2	6	4	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:2436251C>T	uc001lwm.3	-	10	1515	c.1506G>A	c.(1504-1506)ACG>ACA	p.T502T	TRPM5_uc010qxl.1_Silent_p.T502T|TRPM5_uc009ydn.2_Silent_p.T504T	NM_014555	NP_055370	Q9NZQ8	TRPM5_HUMAN	transient receptor potential cation channel,	502	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity|voltage-gated ion channel activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Medulloblastoma(188;0.0049)|Breast(177;0.00586)|all_epithelial(84;0.0075)|Ovarian(85;0.0256)|all_neural(188;0.0311)		BRCA - Breast invasive adenocarcinoma(625;0.00147)|LUSC - Lung squamous cell carcinoma(625;0.191)		ACTTCTGGCCCGTGGGCCGCT	0.711													11	13					0	0	0.013537	0	0		T	2436251	T	T	2436251	2	4	23	1	0	0	0	0	0	0	0	1	16615	639	23	1		1	TRPM5	11	2436251	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	19133	2436251	132570265	785	20113											
OSBPL5	114879	broad.mit.edu	37	chr11	3140787	3140787	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggactcaccatctgactcGgaggcggccctgaagatcag	10	6	13	12	2	3	3	2	2	1	1	4	5	3	5	2	4	0	0	2	4	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:3140787G>A	uc001lxk.2	-	7	839	c.681C>T	c.(679-681)TCC>TCT	p.S227S	OSBPL5_uc010qxq.1_Silent_p.S138S|OSBPL5_uc009ydw.2_Silent_p.S159S|OSBPL5_uc001lxl.2_Silent_p.S159S|OSBPL5_uc009ydx.2_Silent_p.S251S	NM_020896	NP_065947	Q9H0X9	OSBL5_HUMAN	oxysterol-binding protein-like protein 5 isoform	227	PH.				cholesterol metabolic process|cholesterol transport|Golgi to plasma membrane transport	cytosol	oxysterol binding|protein binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		CATCTGACTCGGAGGCGGCCC	0.632													9	107					0	0	0.010729	0	0		A	3140787	A	A	3140787	2	1	23	1	0	0	0	0	0	0	0	1	11299	1103	39	1		1	OSBPL5	11	3140787	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	704536	3140787	131865729	786	20114											
STIM1	6786	broad.mit.edu	37	chr11	4104524	4104524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgaggtgacagcagcattgCgggagcgcctgcaccgctgg	7	5	17	12	4	0	1	0	1	0	0	0	3	0	2	2	3	5	4	2	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:4104524C>T	uc001lyv.2	+	10	1838	c.1270C>T	c.(1270-1272)CGG>TGG	p.R424W	STIM1_uc009yef.2_Missense_Mutation_p.R424W|STIM1_uc009yeg.2_Missense_Mutation_p.R251W	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	424	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		AGCAGCATTGCGGGAGCGCCT	0.557													32	88					0	0	0.006999	0	0		T	4104524	T	T	4104524	3	4	23	1	0	0	0	0	1	0	0	0	15308	759	27	1	1308	1	STIM1	11	4104524	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	963737	4104524	130901992	787	20115											
OR51B4	79339	broad.mit.edu	37	chr11	5323054	5323054	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatgaggacaagaagagtGccatttccaaaaaggacgga	18	5	11	7	1	0	3	0	1	0	2	1	6	1	6	2	3	1	0	2	3	5	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:5323054G>A	uc010qza.1	-	1	123	c.123C>T	c.(121-123)GGC>GGT	p.G41G	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033179	NP_149419	Q9Y5P0	O51B4_HUMAN	olfactory receptor, family 51, subfamily B,	41	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAAGAAGAGTGCCATTTCCAA	0.498													25	89					0	0	0.00278	0	0		A	5323054	A	A	5323054	2	1	23	1	0	0	0	0	0	0	0	1	11109	1306	46	2		2	OR51B4	11	5323054	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1218530	5323054	129683462	788	20116											
OR52E4	390081	broad.mit.edu	37	chr11	5905736	5905736	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccatgttgtctatgattGatctgggtctgtccacatcc	6	15	10	10	0	3	2	0	2	3	0	5	2	5	2	3	2	0	1	3	2	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:5905736G>T	uc010qzs.1	+	1	214	c.214G>T	c.(214-216)GAT>TAT	p.D72Y	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	72	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTCTATGATTGATCTGGGTCT	0.448													36	134					1.36161e-19	1.49903e-19	0.004289	1	0		T	5905736	T	T	5905736	3	4	23	1	0	0	0	0	1	0	0	0	11135	1290	45	5	216	5	OR52E4	11	5905736	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	582682	5905736	129100780	789	20117											
OR52E4	390081	broad.mit.edu	37	chr11	5906312	5906312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttttcttttatgacacatCgttttggccaaaacattccc	9	18	4	10	1	1	1	0	1	1	0	3	1	2	1	2	1	1	1	2	1	3	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:5906312C>T	uc010qzs.1	+	1	790	c.790C>T	c.(790-792)CGT>TGT	p.R264C	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TATGACACATCGTTTTGGCCA	0.428													40	174					0	0	0.009718	0	0		T	5906312	T	T	5906312	3	4	23	1	0	0	0	0	1	0	0	0	11135	884	31	1	792	1	OR52E4	11	5906312	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	576	5906312	129100204	790	20118											
OR56A4	120793	broad.mit.edu	37	chr11	6024037	6024037	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaggctgagcaggtagtaCaggggctggtgcagagaggc	10	5	20	6	0	0	2	0	1	0	1	0	4	0	3	0	7	3	6	0	7	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:6024037C>T	uc010qzv.1	-	1	342	c.342G>A	c.(340-342)CTG>CTA	p.L114L		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	62	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCAGGTAGTACAGGGGCTGGT	0.602													29	58					0	0	0.01441	0	0		T	6024037	T	T	6024037	2	4	23	1	0	0	0	0	0	0	0	1	11154	465	17	4		4	OR56A4	11	6024037	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	117725	6024037	128982479	791	20119											
CNGA4	1262	broad.mit.edu	37	chr11	6262667	6262667	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccttactctcaggtatcaGcacctgcagatcaacaagaa	13	9	7	12	0	3	2	3	0	1	2	5	2	4	2	2	1	4	3	2	1	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:6262667G>A	uc001mco.2	+	5	1031	c.924G>A	c.(922-924)CAG>CAA	p.Q308Q	CNGA4_uc010raa.1_Silent_p.Q77Q|CNGA4_uc001mcn.2_Silent_p.Q268Q	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	308	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCAGGTATCAGCACCTGCAGA	0.547													6	133					0	0	0.001984	0	0		A	6262667	A	A	6262667	2	1	23	1	0	0	0	0	0	0	0	1	3602	962	34	2		2	CNGA4	11	6262667	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	238630	6262667	128743849	792	20120											
OR2D2	120776	broad.mit.edu	37	chr11	6913404	6913404	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaagaagggcgcactgggTacacccaaaaatgaggaaaa	17	4	12	8	1	0	2	0	1	0	1	0	3	0	3	1	3	2	3	1	3	7	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:6913404T>C	uc010rau.1	-	1	328	c.328A>G	c.(328-330)ACC>GCC	p.T110A		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GCGCACTGGGTACACCCAAAA	0.478													27	62					0	0	0.00632	0	0		C	6913404	C	C	6913404	3	2	23	1	0	0	0	0	1	0	0	0	11013	1638	57	3	601	3	OR2D2	11	6913404	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	650737	6913404	128093112	793	20121											
SYT9	143425	broad.mit.edu	37	chr11	7324616	7324616	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcacagagccaacctcgtcGgcccggtcagtaatgccttc	8	8	10	15	3	2	1	2	0	0	1	5	1	2	1	4	2	3	1	4	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:7324616G>A	uc001mfe.2	+	2	729	c.492G>A	c.(490-492)TCG>TCA	p.S164S	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_RNA	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	164	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		CAACCTCGTCGGCCCGGTCAG	0.587													5	30					0	0	0.001168	0	0		A	7324616	A	A	7324616	2	1	23	1	0	0	0	0	0	0	0	1	15506	1103	39	1		1	SYT9	11	7324616	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	411212	7324616	127681900	794	20122											
FAR1	84188	broad.mit.edu	37	chr11	13734540	13734540	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacatcatggtgtataattgTacaacaggcagcactaatcc	15	10	7	9	0	1	0	1	0	0	0	2	0	2	0	1	2	4	4	1	2	6	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:13734540T>C	uc001mld.2	+	8	1070	c.915T>C	c.(913-915)TGT>TGC	p.C305C	FAR1_uc009ygp.2_Silent_p.C305C	NM_032228	NP_115604	Q8WVX9	FACR1_HUMAN	fatty acyl CoA reductase 1	305					ether lipid biosynthetic process	integral to membrane|peroxisomal matrix|peroxisomal membrane	protein binding			ovary(1)|skin(1)	2						TGTATAATTGTACAACAGGCA	0.353													6	219					0	0	0.001984	0	0		C	13734540	C	C	13734540	2	2	23	1	0	0	0	0	0	0	0	1	5688	1644	57	3		3	FAR1	11	13734540	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	6409924	13734540	121271976	795	20123											
PIK3C2A	5286	broad.mit.edu	37	chr11	17111327	17111327	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctgataccatttaaccgtCtctttgctcaagttgaaatc	11	14	6	10	1	2	2	1	2	1	0	4	2	2	2	2	0	4	3	2	0	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:17111327C>T	uc001mmq.3	-	32	5085	c.5019G>A	c.(5017-5019)GAG>GAA	p.E1673E	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Silent_p.E1293E|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	1673					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	ATTTAACCGTCTCTTTGCTCA	0.398													105	189					0	0	0.01441	0	0		T	17111327	T	T	17111327	2	4	23	1	0	0	0	0	0	0	0	1	11928	912	32	4		4	PIK3C2A	11	17111327	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3376787	17111327	117895189	796	20124											
ABCC8	6833	broad.mit.edu	37	chr11	17419240	17419240	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccgctcaccattagggcGtaggtaaggcccaggcccac	8	6	12	15	2	1	0	1	0	0	0	1	0	1	0	4	4	1	3	4	4	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:17419240G>A	uc001mnc.2	-	31	3984	c.3858C>T	c.(3856-3858)TAC>TAT	p.Y1286Y		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1286	Helical; Name=17; (By similarity).|ABC transmembrane type-1 2.				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	CCATTAGGGCGTAGGTAAGGC	0.632													18	40					0	0	0.006122	0	0		A	17419240	A	A	17419240	2	1	23	1	0	0	0	0	0	0	0	1	58	1140	40	1		1	ABCC8	11	17419240	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	307913	17419240	117587276	797	20125											
MYOD1	4654	broad.mit.edu	37	chr11	17741370	17741370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccgcgacgtagacctgaCggcccccgacggctctctct	5	7	11	18	6	2	2	0	1	2	1	4	4	3	2	4	2	0	3	4	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:17741370C>T	uc001mni.2	+	1	261	c.41C>T	c.(40-42)ACG>ATG	p.T14M		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	14					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						GTAGACCTGACGGCCCCCGAC	0.652													16	94					0	0	0.00499	0	0		T	17741370	T	T	17741370	3	4	23	1	0	0	0	0	1	0	0	0	10106	536	19	1	43	1	MYOD1	11	17741370	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	322130	17741370	117265146	798	20126											
KCNC1	3746	broad.mit.edu	37	chr11	17793391	17793391	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttacctacatcgagggCgtctgtgtggtctggttcac	5	14	11	11	2	3	0	1	0	2	0	5	1	4	0	2	3	2	1	2	3	2	4	rs147271572	by1000genomes	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:17793391C>T	uc001mnk.3	+	2	805	c.750C>T	c.(748-750)GGC>GGT	p.G250G	KCNC1_uc009yhc.1_Silent_p.G250G	NM_004976	NP_004967	P48547	KCNC1_HUMAN	Shaw-related voltage-gated potassium channel	250	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)	1						ACATCGAGGGCGTCTGTGTGG	0.537													46	177					0	0	0.01441	0	0		T	17793391	T	T	17793391	2	4	23	1	0	0	0	0	0	0	0	1	8030	755	27	1		1	KCNC1	11	17793391	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	52021	17793391	117213125	799	20127											
MRGPRX3	117195	broad.mit.edu	37	chr11	18158919	18158919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcctgggctgccgcatgcGcaggaacgctgtctccatct	5	9	12	15	3	2	0	0	0	2	0	4	1	3	1	3	2	3	5	3	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:18158919G>A	uc001mnu.2	+	3	531	c.170G>A	c.(169-171)CGC>CAC	p.R57H		NM_054031	NP_473372	Q96LB0	MRGX3_HUMAN	MAS-related GPR, member X3	57	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						TGCCGCATGCGCAGGAACGCT	0.577													26	125					0	0	0.007291	0	0		A	18158919	A	A	18158919	3	1	23	1	0	0	0	0	1	0	0	0	9786	1087	38	1	172	1	MRGPRX3	11	18158919	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	365528	18158919	116847597	800	20128											
MRGPRX2	117194	broad.mit.edu	37	chr11	19076991	19076991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctcgacatctccggggtgCcctgacggaagcatccttca	7	10	10	14	3	3	1	1	1	2	0	6	3	4	2	3	3	2	1	3	3	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:19076991C>T	uc001mph.2	-	2	1047	c.959G>A	c.(958-960)GGC>GAC	p.G320D		NM_054030	NP_473371	Q96LB1	MRGX2_HUMAN	MAS-related GPR, member X2	320	Cytoplasmic (Potential).				sensory perception of pain|sleep	plasma membrane	G-protein coupled receptor activity|neuropeptide binding			ovary(1)	1						CTCCGGGGTGCCCTGACGGAA	0.562													38	72					0	0	0.003755	0	0		T	19076991	T	T	19076991	3	4	23	1	0	0	0	0	1	0	0	0	9785	739	26	2	37	2	MRGPRX2	11	19076991	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	918072	19076991	115929525	801	20129											
LUZP2	338645	broad.mit.edu	37	chr11	24759794	24759794	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgaagtctcttcaggaggcCctgcaaaatcagcttaagga	13	9	10	9	0	3	1	2	1	1	0	4	3	3	3	1	3	2	2	1	3	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:24759794C>A	uc001mqs.2	+	4	513	c.279C>A	c.(277-279)GCC>GCA	p.A93A	LUZP2_uc009yif.2_Silent_p.A7A|LUZP2_uc009yig.2_Silent_p.A93A	NM_001009909	NP_001009909	Q86TE4	LUZP2_HUMAN	leucine zipper protein 2 precursor	93	Potential.					extracellular region				ovary(1)|skin(1)	2						TTCAGGAGGCCCTGCAAAATC	0.363													9	46					1.12685e-05	1.16571e-05	0.004482	1	0		A	24759794	A	A	24759794	2	1	23	1	0	0	0	0	0	0	0	1	9105	610	22	5		5	LUZP2	11	24759794	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5682803	24759794	110246722	802	20130											
FBXO3	26273	broad.mit.edu	37	chr11	33790478	33790478	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctttttaatagcagcatAatggtcaatgtatcttccta	11	15	7	8	0	2	0	1	0	1	0	3	0	3	0	2	2	2	3	2	2	6	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:33790478A>G	uc001muz.2	-	3	305	c.277T>C	c.(277-279)TAT>CAT	p.Y93H	FBXO3_uc001muy.2_5'UTR|FBXO3_uc009ykb.2_RNA|FBXO3_uc001mva.1_Missense_Mutation_p.Y93H|FBXO3_uc001mvb.1_Missense_Mutation_p.Y88H|FBXO3_uc010rek.1_RNA	NM_012175	NP_036307	Q9UK99	FBX3_HUMAN	F-box only protein 3 isoform 1	93					proteolysis	nucleus	ubiquitin-protein ligase activity			pancreas(1)	1		Lung NSC(402;0.0804)		BRCA - Breast invasive adenocarcinoma(625;0.00315)|Lung(977;0.00488)|LUSC - Lung squamous cell carcinoma(625;0.008)		ATAGCAGCATAATGGTCAATG	0.393													80	163					0	0	0.01441	0	0		G	33790478	G	G	33790478	3	3	23	1	0	0	0	0	1	0	0	0	5753	362	13	3	1183	3	FBXO3	11	33790478	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	9030684	33790478	101216038	803	20131											
CD44	960	broad.mit.edu	37	chr11	35250752	35250752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagccaagtggactcaacGgagaggccagcaagtctcag	14	4	13	10	1	2	1	2	0	1	1	3	4	2	2	2	3	3	1	2	3	4	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:35250752G>A	uc001mvu.2	+	18	2535	c.2101G>A	c.(2101-2103)GGA>AGA	p.G701R	CD44_uc001mvv.2_Missense_Mutation_p.G658R|CD44_uc001mvw.2_Missense_Mutation_p.G452R|CD44_uc001mvx.2_Missense_Mutation_p.G320R|CD44_uc001mvy.2_Missense_Mutation_p.R113Q|CD44_uc001mwc.3_Missense_Mutation_p.G388R|CD44_uc010rer.1_Missense_Mutation_p.G299R|CD44_uc009ykh.2_RNA	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	701	Cytoplasmic (Potential).				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	all_cancers(35;0.212)|all_lung(20;0.0874)|all_epithelial(35;0.112)	all_hematologic(20;0.107)	STAD - Stomach adenocarcinoma(6;0.00731)		Hyaluronidase(DB00070)	TGGACTCAACGGAGAGGCCAG	0.458													32	162					0	0	0.003271	0	0		A	35250752	A	A	35250752	3	1	23	1	0	0	0	0	1	0	0	0	3020	1117	39	1	2171	1	CD44	11	35250752	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1460274	35250752	99755764	804	20132											
CHST1	8534	broad.mit.edu	37	chr11	45672030	45672030	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcggcggaagatcctgtcGgtggtgtggttgaccggcgg	4	8	19	10	6	0	2	0	1	0	1	2	3	1	3	3	7	0	1	3	7	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:45672030G>A	uc001mys.1	-	4	1115	c.444C>T	c.(442-444)ACC>ACT	p.T148T		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	148	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		AGATCCTGTCGGTGGTGTGGT	0.687													27	43					0	0	0.003271	0	0		A	45672030	A	A	45672030	2	1	23	1	0	0	0	0	0	0	0	1	3400	1103	39	1		1	CHST1	11	45672030	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	10421278	45672030	89334486	805	20133											
PEX16	9409	broad.mit.edu	37	chr11	45935969	45935969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtgatgctgctgctgccGtccctcccgctgctggggag	2	10	14	15	3	0	1	0	1	0	0	3	2	2	2	3	2	5	5	3	2	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:45935969G>A	uc001nbu.2	-	7	904	c.592C>T	c.(592-594)CGG>TGG	p.R198W	PEX16_uc001nbt.2_Missense_Mutation_p.R198W	NM_004813	NP_004804	Q9Y5Y5	PEX16_HUMAN	peroxisomal biogenesis factor 16 isoform 1	198	Cytoplasmic (Potential).				ER-dependent peroxisome organization|peroxisome membrane biogenesis|protein import into peroxisome matrix|protein import into peroxisome membrane	endoplasmic reticulum membrane|integral to peroxisomal membrane	protein C-terminus binding			ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.223)		TGCTGCTGCCGTCCCTCCCGC	0.682													29	36					0	0	0.010818	0	0		A	45935969	A	A	45935969	3	1	23	1	0	0	0	0	1	0	0	0	11762	1144	40	1	531	1	PEX16	11	45935969	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	263939	45935969	89070547	806	20134											
AMBRA1	55626	broad.mit.edu	37	chr11	46564318	46564318	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgtccgggtccactcagAtcctgtcaacccaggagcta	9	9	9	14	1	2	1	2	0	0	1	5	2	5	2	4	2	3	1	4	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:46564318A>C	uc010rgu.1	-	7	1609	c.1249T>G	c.(1249-1251)TCT>GCT	p.S417A	AMBRA1_uc010rgt.1_5'UTR|AMBRA1_uc009ylc.1_Missense_Mutation_p.S417A|AMBRA1_uc001ncu.1_Missense_Mutation_p.S327A|AMBRA1_uc001ncv.2_Missense_Mutation_p.S327A|AMBRA1_uc001ncw.2_Missense_Mutation_p.S327A|AMBRA1_uc001ncx.2_Missense_Mutation_p.S417A	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	417					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		GTCCACTCAGATCCTGTCAAC	0.592													7	155					0	0	0.001984	0	0		C	46564318	C	C	46564318	3	2	23	1	0	0	0	0	1	0	0	0	565	333	12	5	2695	5	AMBRA1	11	46564318	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	628349	46564318	88442198	807	20135											
RAPSN	5913	broad.mit.edu	37	chr11	47464296	47464296	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggcccggtacttcaggCtccagcctttgccatagttg	6	12	10	13	1	2	0	2	0	0	0	3	0	3	0	4	3	3	3	4	3	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:47464296C>A	uc001nfi.1	-	3	816	c.602G>T	c.(601-603)AGC>ATC	p.S201I	RAPSN_uc001nfj.1_Missense_Mutation_p.S201I|RAPSN_uc009yls.1_Missense_Mutation_p.S201I	NM_005055	NP_005046	Q13702	RAPSN_HUMAN	43 kD receptor-associated protein of the synapse	201					synaptic transmission, cholinergic	cell junction|cytoskeleton|postsynaptic membrane	acetylcholine receptor binding|zinc ion binding			ovary(1)	1						GTACTTCAGGCTCCAGCCTTT	0.612													7	132					8.12818e-05	8.3519e-05	0.001984	1	0		A	47464296	A	A	47464296	3	1	23	1	0	0	0	0	1	0	0	0	13076	797	28	5	660	5	RAPSN	11	47464296	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	899978	47464296	87542220	808	20136											
NUP160	23279	broad.mit.edu	37	chr11	47828658	47828658	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagcaccagagtctgttaAttccagtactgataagtgtt	13	13	8	7	0	1	2	0	1	1	1	2	2	2	2	2	0	2	4	2	0	5	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:47828658A>T	uc001ngm.2	-	19	2495	c.2410T>A	c.(2410-2412)TTA>ATA	p.L804I	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	804					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						GAGTCTGTTAATTCCAGTACT	0.363													36	61					0	0	0.007835	0	0		T	47828658	T	T	47828658	3	4	23	1	0	0	0	0	1	0	0	0	10776	98	4	5	1972	5	NUP160	11	47828658	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	364362	47828658	87177858	809	20137											
OR4X1	390113	broad.mit.edu	37	chr11	48285771	48285771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatggtgatggcctatgaccGctatgtggccatctgcaagc	8	10	13	10	1	1	2	0	2	1	0	1	3	1	2	3	3	2	2	3	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:48285771G>A	uc010rht.1	+	1	359	c.359G>A	c.(358-360)CGC>CAC	p.R120H		NM_001004726	NP_001004726	Q8NH49	OR4X1_HUMAN	olfactory receptor, family 4, subfamily X,	120	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3						GCCTATGACCGCTATGTGGCC	0.542													14	91					0	0	0.00245	0	0		A	48285771	A	A	48285771	3	1	23	1	0	0	0	0	1	0	0	0	11103	1087	38	1	361	1	OR4X1	11	48285771	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	457113	48285771	86720745	810	20138											
OR4C13	283092	broad.mit.edu	37	chr11	49974702	49974702	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgtgtctcccacatcaCagttgtcatcttatccttta	8	16	4	13	0	4	0	2	0	2	0	6	0	5	0	3	0	1	1	3	0	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:49974702C>A	uc010rhz.1	+	1	728	c.728C>A	c.(727-729)ACA>AAA	p.T243K		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						TCCCACATCACAGTTGTCATC	0.458													33	192					8.16721e-17	8.93288e-17	0.010818	1	0		A	49974702	A	A	49974702	3	1	23	1	0	0	0	0	1	0	0	0	11066	478	17	5	730	5	OR4C13	11	49974702	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1688931	49974702	85031814	811	20139											
OR5AP2	338675	broad.mit.edu	37	chr11	56409492	56409492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaaattctcccagacaCgagaactgggtagagcaggg	15	5	12	9	1	1	3	0	0	1	3	2	4	1	3	1	2	3	3	1	2	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:56409492C>T	uc001njb.1	-	1	424	c.424G>A	c.(424-426)GTG>ATG	p.V142M		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						CTCCCAGACACGAGAACTGGG	0.488													16	84					0	0	0.004007	0	0		T	56409492	T	T	56409492	3	4	23	1	0	0	0	0	1	0	0	0	11163	536	19	1	530	1	OR5AP2	11	56409492	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	6434790	56409492	78597024	812	20140											
SSRP1	6749	broad.mit.edu	37	chr11	57093923	57093923	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcctctgagctggggggAgtactggctagttcttcttc	5	13	14	9	0	3	1	0	1	3	0	5	3	4	2	1	4	2	4	1	4	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:57093923A>G	uc001njt.2	-	17	2355	c.2088T>C	c.(2086-2088)ACT>ACC	p.T696T	TNKS1BP1_uc001njs.2_5'Flank|TNKS1BP1_uc009ymd.1_5'Flank	NM_003146	NP_003137	Q08945	SSRP1_HUMAN	structure specific recognition protein 1	696	Ser-rich.				DNA repair|DNA replication|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|cytoplasm|nucleoplasm	DNA binding|protein binding			ovary(2)	2						AGCTGGGGGGAGTACTGGCTA	0.557													21	132					0	0	0.009535	0	0		G	57093923	G	G	57093923	2	3	23	1	0	0	0	0	0	0	0	1	15219	291	11	3		3	SSRP1	11	57093923	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	684431	57093923	77912593	813	20141											
PRG3	10394	broad.mit.edu	37	chr11	57147021	57147021	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aataggtagcggcagatcttGcaccttggacttccctgcac	9	10	10	12	1	1	1	0	0	1	1	2	2	2	2	2	3	3	4	2	3	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:57147021G>A	uc001njv.1	-	3	431	c.321C>T	c.(319-321)TGC>TGT	p.C107C		NM_006093	NP_006084	Q9Y2Y8	PRG3_HUMAN	proteoglycan 3 precursor	107	C-type lectin.				basophil activation|histamine biosynthetic process|immune response|leukotriene biosynthetic process|negative regulation of translation|neutrophil activation|positive regulation of interleukin-8 biosynthetic process|superoxide anion generation		sugar binding				0						GGCAGATCTTGCACCTTGGAC	0.537													69	148					0	0	0.01441	0	0		A	57147021	A	A	57147021	2	1	23	1	0	0	0	0	0	0	0	1	12502	1311	46	2		2	PRG3	11	57147021	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	53098	57147021	77859495	814	20142											
RTN4RL2	349667	broad.mit.edu	37	chr11	57235469	57235469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagtcgctgcatttgtaccGctgccagctcagcagcctgc	6	9	11	15	2	1	0	1	0	0	0	2	0	1	0	3	0	7	7	3	0	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:57235469G>A	uc010rjt.1	+	2	419	c.419G>A	c.(418-420)CGC>CAC	p.R140H		NM_178570	NP_848665	Q86UN3	R4RL2_HUMAN	reticulon 4 receptor-like 2 precursor	140	LRR 4.				axon regeneration	anchored to plasma membrane	receptor activity				0						CATTTGTACCGCTGCCAGCTC	0.657													10	78					0	0	0.013537	0	0		A	57235469	A	A	57235469	3	1	23	1	0	0	0	0	1	0	0	0	13757	1087	38	1	425	1	RTN4RL2	11	57235469	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	88448	57235469	77771047	815	20143											
SERPING1	710	broad.mit.edu	37	chr11	57373915	57373915	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttgatcccaagaaaacCagaatggaaccctttcactt	15	10	5	11	0	1	3	1	1	0	2	2	4	2	4	3	1	2	0	3	1	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:57373915C>A	uc001nkp.1	+	6	1115	c.924C>A	c.(922-924)ACC>ACA	p.T308T	SERPING1_uc001nkq.1_Silent_p.T308T|SERPING1_uc010rju.1_Silent_p.T256T|SERPING1_uc010rjv.1_Silent_p.T313T|SERPING1_uc001nkr.1_Silent_p.T308T|SERPING1_uc009ymi.1_Silent_p.T317T|SERPING1_uc009ymj.1_Silent_p.T308T|SERPING1_uc001nks.1_5'UTR	NM_000062	NP_000053	P05155	IC1_HUMAN	serpin peptidase inhibitor, clade G, member 1	308					blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1						CCAAGAAAACCAGAATGGAAC	0.433									Hereditary_Angioedema				31	163					1.30897e-18	1.43824e-18	0.009535	1	0		A	57373915	A	A	57373915	2	1	23	1	0	0	0	0	0	0	0	1	14141	581	21	5		5	SERPING1	11	57373915	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	138446	57373915	77632601	816	20144											
CTNND1	1500	broad.mit.edu	37	chr11	57582936	57582936	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgatcgggggatctaggCgacatggagccattgaaggg	10	7	17	7	3	1	1	0	1	1	0	3	6	1	3	1	5	1	0	1	5	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:57582936C>T	uc001nmc.3	+	19	3343	c.2772C>T	c.(2770-2772)GGC>GGT	p.G924G	CTNND1_uc001nlh.1_Silent_p.G924G|CTNND1_uc001nlu.3_Silent_p.G817G|CTNND1_uc001nlt.3_Silent_p.G817G|CTNND1_uc001nls.3_Silent_p.G796G|CTNND1_uc001nlw.3_Silent_p.G817G|CTNND1_uc001nmf.3_Silent_p.G924G|CTNND1_uc001nmd.3_Silent_p.G870G|CTNND1_uc001nlk.3_Silent_p.G870G|CTNND1_uc001nme.3_Silent_p.G918G|CTNND1_uc001nll.3_Silent_p.G864G|CTNND1_uc001nmg.3_Silent_p.G864G|CTNND1_uc001nlj.3_Silent_p.G864G|CTNND1_uc001nlr.3_Silent_p.G864G|CTNND1_uc001nlp.3_Silent_p.G843G|CTNND1_uc001nlx.3_Silent_p.G601G|CTNND1_uc001nlz.3_Silent_p.G601G|CTNND1_uc009ymn.2_Silent_p.G595G|CTNND1_uc001nlm.3_Silent_p.G918G|CTNND1_uc001nly.3_Silent_p.G595G|CTNND1_uc001nmb.3_Silent_p.G595G|CTNND1_uc001nma.3_Silent_p.G574G|CTNND1_uc001nmi.3_Silent_p.G823G|CTNND1_uc001nmh.3_Silent_p.G918G|CTNND1_uc001nlq.3_Silent_p.G823G|CTNND1_uc001nln.3_Silent_p.G918G|CTNND1_uc001nli.3_Silent_p.G897G|CTNND1_uc001nlo.3_Silent_p.G817G|CTNND1_uc001nlv.3_Silent_p.G817G	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	924					adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				GGGATCTAGGCGACATGGAGC	0.388													11	19					0	0	0.00245	0	0		T	57582936	T	T	57582936	2	4	23	1	0	0	0	0	0	0	0	1	4022	755	27	1		1	CTNND1	11	57582936	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	209021	57582936	77423580	817	20145											
OR4D11	219986	broad.mit.edu	37	chr11	59271831	59271831	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctatgtctatgcccggccCttcactgccctccccacaga	7	10	6	18	1	3	1	1	0	2	1	4	1	4	1	5	1	2	0	5	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:59271831C>A	uc001noa.1	+	1	783	c.783C>A	c.(781-783)CCC>CCA	p.P261P		NM_001004706	NP_001004706	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						ATGCCCGGCCCTTCACTGCCC	0.552													9	451					0.000673444	0.000686937	0.008291	1	0		A	59271831	A	A	59271831	2	1	23	1	0	0	0	0	0	0	0	1	11074	668	24	5		5	OR4D11	11	59271831	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1688895	59271831	75734685	818	20146											
OR4D9	390199	broad.mit.edu	37	chr11	59282549	59282549	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttacctgtgaatctcaccTtcatacgcccatgtacttcc	9	13	5	14	1	2	1	2	1	1	0	4	1	3	1	4	0	3	2	4	0	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:59282549T>A	uc010rkv.1	+	1	164	c.164T>A	c.(163-165)CTT>CAT	p.L55H		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GAATCTCACCTTCATACGCCC	0.443													8	302					0	0	0.004482	0	0		A	59282549	A	A	59282549	3	1	23	1	0	0	0	0	1	0	0	0	11078	1609	56	5	166	5	OR4D9	11	59282549	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	10718	59282549	75723967	819	20147											
CCDC86	79080	broad.mit.edu	37	chr11	60615436	60615436	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaagcccctgcgcacatcGtggcagcggaagatgaagga	12	4	14	11	3	0	2	0	1	0	1	1	5	0	4	2	3	3	2	2	3	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:60615436G>A	uc001nqa.2	+	2	967	c.798G>A	c.(796-798)TCG>TCA	p.S266S	CCDC86_uc001nqb.2_Silent_p.S10S	NM_024098	NP_077003	Q9H6F5	CCD86_HUMAN	coiled-coil domain containing 86	266					interspecies interaction between organisms	nucleus					0						TGCGCACATCGTGGCAGCGGA	0.627													64	115					0	0	0.01441	0	0		A	60615436	A	A	60615436	2	1	23	1	0	0	0	0	0	0	0	1	2864	1132	40	1		1	CCDC86	11	60615436	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1332887	60615436	74391080	820	20148											
ZP1	22917	broad.mit.edu	37	chr11	60640952	60640952	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcagaggacagaccccAacctggtcctgctgctgcac	8	8	10	15	0	1	2	0	0	1	2	2	3	2	3	4	2	5	4	4	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:60640952A>G	uc001nqd.2	+	8	1365	c.1345A>G	c.(1345-1347)AAC>GAC	p.N449D	ZP1_uc001nqe.2_Missense_Mutation_p.N156D	NM_207341	NP_997224	P60852	ZP1_HUMAN	zona pellucida glycoprotein 1 precursor	449	Extracellular (Potential).|ZP.				single fertilization	integral to membrane|plasma membrane|proteinaceous extracellular matrix					0						GACAGACCCCAACCTGGTCCT	0.632													31	70					0	0	0.010818	0	0		G	60640952	G	G	60640952	3	3	23	1	0	0	0	0	1	0	0	0	18240	130	5	3	1375	3	ZP1	11	60640952	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	25516	60640952	74365564	821	20149											
SLC15A3	51296	broad.mit.edu	37	chr11	60704755	60704755	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggacgccctctcatagcgtCcagcgatccagacaaatagg	11	6	11	13	3	1	1	1	0	1	1	4	3	3	2	3	2	2	0	3	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:60704755C>A	uc001nqn.2	-	8	1916	c.1682G>T	c.(1681-1683)GGA>GTA	p.G561V	SLC15A3_uc001nqo.2_3'UTR	NM_016582	NP_057666	Q8IY34	S15A3_HUMAN	solute carrier family 15, member 3	561					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0						CTCATAGCGTCCAGCGATCCA	0.597													22	42					8.10497e-08	8.52621e-08	0.010504	1	0		A	60704755	A	A	60704755	3	1	23	1	0	0	0	0	1	0	0	0	14425	855	30	5	67	5	SLC15A3	11	60704755	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	63803	60704755	74301761	822	20150											
SLC15A3	51296	broad.mit.edu	37	chr11	60714281	60714281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgggtggcgtcgcggcCgagatccatcacctgccatt	5	7	15	14	6	1	1	1	0	0	1	3	2	2	1	4	4	1	0	4	4	0	1	rs140918009		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:60714281C>T	uc001nqn.2	-	2	805	c.571G>A	c.(571-573)GGC>AGC	p.G191S	SLC15A3_uc001nqo.2_Missense_Mutation_p.G191S	NM_016582	NP_057666	Q8IY34	S15A3_HUMAN	solute carrier family 15, member 3	191					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0						GCGTCGCGGCCGAGATCCATC	0.587													41	80					0	0	0.00874	0	0		T	60714281	T	T	60714281	3	4	23	1	0	0	0	0	1	0	0	0	14425	652	23	1	1202	1	SLC15A3	11	60714281	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	9526	60714281	74292235	823	20151											
DDB1	1642	broad.mit.edu	37	chr11	61094348	61094348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacctcataggtttttacGtgccgcccctgagggtcctg	6	11	11	13	2	1	1	1	1	0	0	2	2	2	1	5	2	2	1	5	2	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:61094348G>A	uc001nrc.3	-	5	793	c.567C>T	c.(565-567)CAC>CAT	p.H189H	DDB1_uc010rle.1_Intron|DDB1_uc010rlf.1_Silent_p.H189H|DDB1_uc010rlg.1_RNA|DDB1_uc001nrd.2_Silent_p.H189H|DDB1_uc009ynl.1_Silent_p.H76H	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	189	Interaction with CDT1.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						AGGTTTTTACGTGCCGCCCCT	0.512								NER					49	227					0	0	0.01441	0	0		A	61094348	A	A	61094348	2	1	23	1	0	0	0	0	0	0	0	1	4326	1136	40	1		1	DDB1	11	61094348	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	380067	61094348	73912168	824	20152											
TMEM138	51524	broad.mit.edu	37	chr11	61136177	61136177	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagttcatgcaagttcgaaGgtgacctcttgtcacactga	10	11	11	9	1	3	2	2	2	1	0	4	4	3	3	1	2	1	3	1	2	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:61136177G>T	uc001nrl.1	+	5	661	c.485G>T	c.(484-486)AGG>ATG	p.R162M	TMEM138_uc001nrm.2_3'UTR	NM_016464	NP_057548	Q9NPI0	TM138_HUMAN	transmembrane protein 138	162						integral to membrane					0						CAAGTTCGAAGGTGACCTCTT	0.493													10	40					7.48243e-07	7.80291e-07	0.006214	1	0		T	61136177	T	T	61136177	3	4	23	1	0	0	0	0	1	0	0	0	16078	1000	35	5	499	5	TMEM138	11	61136177	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	41829	61136177	73870339	825	20153											
TUT1	64852	broad.mit.edu	37	chr11	62343367	62343367	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgcaaggggtaaagggatCggcgtagcagagagcaggga	12	4	20	5	2	0	1	0	0	0	1	1	4	0	3	0	6	3	5	0	6	4	2	rs149885942		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:62343367C>T	uc001nto.2	-	9	1976	c.1938G>A	c.(1936-1938)CCG>CCA	p.P646P	EEF1G_uc001ntm.1_5'Flank|EEF1G_uc010rlw.1_5'Flank|TUT1_uc001ntp.1_Silent_p.P142P	NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	608					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						GTAAAGGGATCGGCGTAGCAG	0.627													11	166					0	0	0.008291	0	0		T	62343367	T	T	62343367	2	4	23	1	0	0	0	0	0	0	0	1	16806	871	31	1		1	TUT1	11	62343367	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1207190	62343367	72663149	826	20154											
TUT1	64852	broad.mit.edu	37	chr11	62346056	62346056	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactgagggagacatcaccGtggagacctgaaggccgatg	11	7	14	9	2	1	4	1	2	0	2	1	7	1	4	3	3	1	0	3	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:62346056G>A	uc001nto.2	-	5	1289	c.1251C>T	c.(1249-1251)CAC>CAT	p.H417H	TUT1_uc001ntp.1_5'Flank	NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	379					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						AGACATCACCGTGGAGACCTG	0.393													41	79					0	0	0.009718	0	0		A	62346056	A	A	62346056	2	1	23	1	0	0	0	0	0	0	0	1	16806	1136	40	1		1	TUT1	11	62346056	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2689	62346056	72660460	827	20155											
STIP1	10963	broad.mit.edu	37	chr11	63960668	63960668	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaccacgtgctgtacagcaAccgttctgctgcctatgcca	9	9	8	15	2	1	0	0	0	1	0	1	0	1	0	4	0	8	5	4	0	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:63960668A>G	uc001nyk.1	+	2	275	c.128A>G	c.(127-129)AAC>AGC	p.N43S	STIP1_uc001nyj.2_Missense_Mutation_p.N43S|STIP1_uc010rnb.1_Missense_Mutation_p.N43S	NM_006819	NP_006810	P31948	STIP1_HUMAN	stress-induced-phosphoprotein 1	43	TPR 2.				axon guidance|response to stress	Golgi apparatus|nucleus				ovary(2)|liver(1)	3						CTGTACAGCAACCGTTCTGCT	0.527													6	120					0	0	0.010729	0	0		G	63960668	G	G	63960668	3	3	23	1	0	0	0	0	1	0	0	0	15310	43	2	3	134	3	STIP1	11	63960668	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1614612	63960668	71045848	828	20156											
NRXN2	9379	broad.mit.edu	37	chr11	64418979	64418979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actggtccatgtagggctggCcattgaacacgagcccactc	9	8	11	13	1	0	1	0	1	0	0	2	2	1	1	3	3	2	2	3	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:64418979C>T	uc001oar.2	-	15	3105	c.2666G>A	c.(2665-2667)GGC>GAC	p.G889D	NRXN2_uc001oas.2_Missense_Mutation_p.G849D|NRXN2_uc001oaq.2_Missense_Mutation_p.G556D	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	271	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						GTAGGGCTGGCCATTGAACAC	0.577											OREG0021057	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	24					0	0	0.013537	0	0		T	64418979	T	T	64418979	3	4	23	1	0	0	0	0	1	0	0	0	10685	739	26	2	2781	2	NRXN2	11	64418979	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	458311	64418979	70587537	829	20157											
ATG2A	23130	broad.mit.edu	37	chr11	64669492	64669492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catcactgtccagggtgtctCcatcgccctcctcttccctt	4	13	6	18	1	3	0	1	0	2	0	8	0	6	0	5	1	0	0	5	1	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:64669492C>T	uc001obx.2	-	29	4176	c.4061G>A	c.(4060-4062)GGA>GAA	p.G1354E	ATG2A_uc001obw.2_Missense_Mutation_p.G119E	NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1354							protein binding			ovary(1)|central_nervous_system(1)	2						CAGGGTGTCTCCATCGCCCTC	0.632													31	105					0	0	0.012213	0	0		T	64669492	T	T	64669492	3	4	23	1	0	0	0	0	1	0	0	0	1094	855	30	4	1807	4	ATG2A	11	64669492	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	250513	64669492	70337024	830	20158											
RIN1	9610	broad.mit.edu	37	chr11	66102359	66102359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagggcataggcggaaggCtagggccactgcctgctggc	7	5	19	10	1	0	0	0	0	0	0	0	2	0	2	2	7	2	3	2	7	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:66102359C>T	uc001ohn.1	-	6	1038	c.911G>A	c.(910-912)AGC>AAC	p.S304N	RIN1_uc010roy.1_5'UTR|RIN1_uc009yrd.1_5'UTR|RIN1_uc010roz.1_Missense_Mutation_p.S199N|RIN1_uc010rpa.1_Missense_Mutation_p.S199N	NM_004292	NP_004283	Q13671	RIN1_HUMAN	ras inhibitor RIN1	304	Ras and 14-3-3 protein binding region.				endocytosis|signal transduction	cytoplasm|cytoskeleton|plasma membrane	GTPase activator activity|protein binding			lung(2)|breast(1)	3						AGGCGGAAGGCTAGGGCCACT	0.711													4	3					0	0	0.001168	0	0		T	66102359	T	T	66102359	3	4	23	1	0	0	0	0	1	0	0	0	13396	797	28	2	1460	2	RIN1	11	66102359	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1432867	66102359	68904157	831	20159											
SLC29A2	3177	broad.mit.edu	37	chr11	66131829	66131829	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggcacgtggcacagcaTgaagaggggcacgaacagga	12	3	17	9	2	0	2	0	1	0	1	0	4	0	3	0	6	2	4	0	6	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:66131829T>C	uc001oht.2	-	11	1355	c.1126A>G	c.(1126-1128)ATG>GTG	p.M376V	SLC29A2_uc001ohs.2_Missense_Mutation_p.M256V|SLC29A2_uc010rpb.1_RNA|SLC29A2_uc009yrf.2_Missense_Mutation_p.M256V|SLC29A2_uc001ohu.2_Missense_Mutation_p.M376V|SLC29A2_uc001ohv.2_Missense_Mutation_p.H331R	NM_001532	NP_001523	Q14542	S29A2_HUMAN	solute carrier family 29 (nucleoside	376	Helical; (Potential).				cell proliferation|nucleobase, nucleoside and nucleotide metabolic process	basolateral plasma membrane|integral to plasma membrane|nuclear membrane|nucleolus	nucleoside transmembrane transporter activity			ovary(1)	1						TGGCACAGCATGAAGAGGGGC	0.602													10	46					0	0	0.010729	0	0		C	66131829	C	C	66131829	3	2	23	1	0	0	0	0	1	0	0	0	14560	1464	51	3	252	3	SLC29A2	11	66131829	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	29470	66131829	68874687	832	20160											
PELI3	246330	broad.mit.edu	37	chr11	66235678	66235678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggaacaagggctcttgcGttctctcctctcccggtgaa	6	10	13	12	2	3	1	0	1	3	0	6	2	4	2	2	4	2	2	2	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:66235678G>A	uc001oic.3	+	2	243	c.79G>A	c.(79-81)GTT>ATT	p.V27I	PELI3_uc001oib.2_Missense_Mutation_p.V27I|PELI3_uc001oid.3_Missense_Mutation_p.V27I|PELI3_uc001oie.3_5'UTR	NM_145065	NP_659502	Q8N2H9	PELI3_HUMAN	pellino 3 alpha isoform 1	27						cytosol	protein binding			ovary(1)	1						GGGCTCTTGCGTTCTCTCCTC	0.607													15	91					0	0	0.00499	0	0		A	66235678	A	A	66235678	3	1	23	1	0	0	0	0	1	0	0	0	11742	1145	40	1	81	1	PELI3	11	66235678	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	103849	66235678	68770838	833	20161											
BBS1	582	broad.mit.edu	37	chr11	66290971	66290971	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgagctgagcgcccagcCtgtgggacttatccgggtac	7	8	13	13	3	0	1	0	1	0	0	2	3	1	2	3	2	4	2	3	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:66290971C>A	uc001oij.1	+	10	887	c.875C>A	c.(874-876)CCT>CAT	p.P292H	BBS1_uc001oii.1_Missense_Mutation_p.P329H|BBS1_uc010rpf.1_RNA|BBS1_uc010rpg.1_Missense_Mutation_p.P195H|BBS1_uc001oik.1_Missense_Mutation_p.P216H|BBS1_uc001oil.1_Intron|ZDHHC24_uc001oim.1_Intron|ZDHHC24_uc009yrg.1_Intron|BBS1_uc010rph.1_5'Flank	NM_024649	NP_078925	Q8NFJ9	BBS1_HUMAN	Bardet-Biedl syndrome 1	292					nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	BBSome|cilium membrane|cytoplasm	protein binding			ovary(1)	1						AGCGCCCAGCCTGTGGGACTT	0.577									Bardet-Biedl_syndrome				36	77					5.71845e-15	6.23022e-15	0.005524	1	0		A	66290971	A	A	66290971	3	1	23	1	0	0	0	0	1	0	0	0	1336	681	24	5	913	5	BBS1	11	66290971	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	55293	66290971	68715545	834	20162											
BBS1	582	broad.mit.edu	37	chr11	66297418	66297418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagccactcaagctgcacGccgtggtgagcatctgggtg	8	7	15	11	2	2	2	1	1	1	1	2	3	2	2	2	2	4	3	2	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:66297418G>A	uc001oij.1	+	14	1480	c.1468G>A	c.(1468-1470)GCC>ACC	p.A490T	BBS1_uc001oii.1_Missense_Mutation_p.A527T|BBS1_uc010rpg.1_Missense_Mutation_p.A393T|BBS1_uc001oik.1_Missense_Mutation_p.A414T|BBS1_uc001oil.1_Missense_Mutation_p.A361T|ZDHHC24_uc001oim.1_Intron|ZDHHC24_uc009yrg.1_Intron|BBS1_uc010rph.1_Missense_Mutation_p.A158T	NM_024649	NP_078925	Q8NFJ9	BBS1_HUMAN	Bardet-Biedl syndrome 1	490					nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	BBSome|cilium membrane|cytoplasm	protein binding			ovary(1)	1						CAAGCTGCACGCCGTGGTGAG	0.667									Bardet-Biedl_syndrome				6	12					0	0	0.006214	0	0		A	66297418	A	A	66297418	3	1	23	1	0	0	0	0	1	0	0	0	1336	1087	38	1	1522	1	BBS1	11	66297418	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	6447	66297418	68709098	835	20163											
RBM14	10432	broad.mit.edu	37	chr11	66392333	66392333	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgcagcttcttcgctcaActcctatggggctcagggtt	6	12	11	12	1	3	0	2	0	1	0	5	0	4	0	1	3	4	6	1	3	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:66392333A>G	uc001oit.2	+	2	1125	c.986A>G	c.(985-987)AAC>AGC	p.N329S	RBM14_uc009yrh.2_Intron|RBM14_uc009yri.2_Intron|RBM4_uc009yrj.2_Intron|RBM4_uc009yrk.2_Intron	NM_006328	NP_006319	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	329	TRBP-interacting domain.|Ala-rich.				DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|histone deacetylation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus	mediator complex|ribonucleoprotein complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|protein binding, bridging|RNA binding|RNA polymerase II transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						TCTTCGCTCAACTCCTATGGG	0.612													7	95					0	0	0.00308	0	0		G	66392333	G	G	66392333	3	3	23	1	0	0	0	0	1	0	0	0	13140	43	2	3	992	3	RBM14	11	66392333	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	94915	66392333	68614183	836	20164											
RBM4B	83759	broad.mit.edu	37	chr11	66436179	66436179	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagaattccgtgtagctgcGgaagcctgagataattcact	12	10	11	8	2	1	2	1	1	0	2	2	5	2	3	2	1	3	2	2	1	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:66436179G>A	uc001oja.2	-	2	1665	c.996C>T	c.(994-996)TCC>TCT	p.S332S	RBM4B_uc001ojb.2_Silent_p.S332S	NM_031492	NP_113680	Q9BQ04	RBM4B_HUMAN	RNA binding motif protein 4B	332	Interaction with TNPO3 (By similarity).				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|RNA splicing	nucleolus	nucleotide binding|RNA binding|zinc ion binding				0						GTGTAGCTGCGGAAGCCTGAG	0.557													24	64					0	0	0.003954	0	0		A	66436179	A	A	66436179	2	1	23	1	0	0	0	0	0	0	0	1	13167	1103	39	1		1	RBM4B	11	66436179	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	43846	66436179	68570337	837	20165											
C11orf80	79703	broad.mit.edu	37	chr11	66605896	66605896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggacgcacctgataacaGcagcctggagctcctagcag	11	6	12	12	1	0	2	0	2	0	0	1	4	1	4	3	2	5	4	3	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:66605896G>A	uc001ojf.2	+	15	1734	c.1727G>A	c.(1726-1728)AGC>AAC	p.S576N	C11orf80_uc001ojg.2_Missense_Mutation_p.S343N|C11orf80_uc001ojh.2_Missense_Mutation_p.S344N|C11orf80_uc001oji.2_Missense_Mutation_p.S344N|C11orf80_uc010rpl.1_Missense_Mutation_p.S210N|C11orf80_uc001ojj.2_Missense_Mutation_p.S174N	NM_024650	NP_078926	Q8N6T0	CK080_HUMAN	hypothetical protein LOC79703	421											0						CCTGATAACAGCAGCCTGGAG	0.433													20	42					0	0	0.010504	0	0		A	66605896	A	A	66605896	3	1	23	1	0	0	0	0	1	0	0	0	1667	971	34	2	1785	2	C11orf80	11	66605896	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	169717	66605896	68400620	838	20166											
SYT12	91683	broad.mit.edu	37	chr11	66807288	66807288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttctcacccctagagagtgCctgcctggaatgcccagcgg	7	9	11	14	1	1	1	1	0	1	1	2	3	1	2	5	2	4	0	5	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:66807288C>T	uc009yrl.2	+	4	465	c.235C>T	c.(235-237)CCT>TCT	p.P79S	SYT12_uc001oju.2_Missense_Mutation_p.P79S	NM_177963	NP_808878	Q8IV01	SYT12_HUMAN	synaptotagmin XII	79	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane				ovary(1)	1						CTAGAGAGTGCCTGCCTGGAA	0.597													8	167					0	0	0.00308	0	0		T	66807288	T	T	66807288	3	4	23	1	0	0	0	0	1	0	0	0	15493	739	26	2	245	2	SYT12	11	66807288	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	201392	66807288	68199228	839	20167											
RPS6KB2	6199	broad.mit.edu	37	chr11	67200454	67200454	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaccgactttggactctgCaaggagtctatccatgaggg	9	10	12	10	1	2	2	0	2	2	0	3	5	3	4	2	3	1	1	2	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:67200454C>T	uc001old.2	+	8	730	c.648C>T	c.(646-648)TGC>TGT	p.C216C	RPS6KB2_uc001olf.2_Silent_p.C16C|RPS6KB2_uc001olg.2_Silent_p.C216C|RPS6KB2_uc009yrq.2_Silent_p.C16C|RPS6KB2_uc001ole.2_RNA|RPS6KB2_uc001olh.2_RNA|RPS6KB2_uc009yrr.2_Silent_p.C47C	NM_003952	NP_003943	Q9UBS0	KS6B2_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	216	Protein kinase.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of translational initiation|translation	nucleoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|stomach(1)|lung(1)|salivary_gland(1)	7			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			TTGGACTCTGCAAGGAGTCTA	0.622													10	51					0	0	0.008291	0	0		T	67200454	T	T	67200454	2	4	23	1	0	0	0	0	0	0	0	1	13682	718	25	2		2	RPS6KB2	11	67200454	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	393166	67200454	67806062	840	20168											
CORO1B	57175	broad.mit.edu	37	chr11	67208620	67208620	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagagcgccagctgccgCtcgctcattcggctgaagcc	6	7	11	17	4	1	2	1	1	0	1	4	2	2	2	4	1	4	4	4	1	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:67208620C>T	uc001olj.1	-	5	768	c.732G>A	c.(730-732)GAG>GAA	p.E244E	CORO1B_uc009yrs.1_RNA|CORO1B_uc001olk.1_Silent_p.E244E|CORO1B_uc009yrt.1_RNA|CORO1B_uc009yru.1_RNA|CORO1B_uc001oll.1_Silent_p.E244E|CORO1B_uc010rps.1_Silent_p.E244E	NM_020441	NP_065174	Q9BR76	COR1B_HUMAN	coronin, actin binding protein, 1B	244	WD 4.				actin cytoskeleton organization	actin cytoskeleton|cytoplasm	actin filament binding			large_intestine(1)|ovary(1)	2			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			CCAGCTGCCGCTCGCTCATTC	0.672													63	112					0	0	0.01441	0	0		T	67208620	T	T	67208620	2	4	23	1	0	0	0	0	0	0	0	1	3757	796	28	2		2	CORO1B	11	67208620	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	8166	67208620	67797896	841	20169											
LRP5	4041	broad.mit.edu	37	chr11	68192599	68192599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcaccaacatgcaggaccGggcagccaagatcgaacgcg	12	4	11	14	4	1	1	1	0	0	1	2	3	1	2	3	2	4	2	3	2	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:68192599G>A	uc001ont.2	+	15	3341	c.3266G>A	c.(3265-3267)CGG>CAG	p.R1089Q	LRP5_uc009ysg.2_Missense_Mutation_p.R499Q	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1089	LDL-receptor class B 18.|Beta-propeller 4.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						ATGCAGGACCGGGCAGCCAAG	0.672													8	80					0	0	0.00308	0	0		A	68192599	A	A	68192599	3	1	23	1	0	0	0	0	1	0	0	0	8978	1116	39	1	3324	1	LRP5	11	68192599	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	983979	68192599	66813917	842	20170											
SHANK2	22941	broad.mit.edu	37	chr11	70332838	70332838	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctgctcgcggagggcactGctgggctgctctcgggcccc	2	7	16	16	4	1	0	0	0	1	0	3	1	1	1	2	4	3	6	2	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:70332838G>A	uc001oqc.2	-	21	3638	c.3560C>T	c.(3559-3561)GCA>GTA	p.A1187V	SHANK2_uc010rqn.1_Missense_Mutation_p.A599V|SHANK2_uc001opz.2_Missense_Mutation_p.A592V|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	808					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			GGAGGGCACTGCTGGGCTGCT	0.687													7	60					0	0	0.001984	0	0		A	70332838	A	A	70332838	3	1	23	1	0	0	0	0	1	0	0	0	14290	1319	46	2	1997	2	SHANK2	11	70332838	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2140239	70332838	64673678	843	20171											
KRTAP5-7	440050	broad.mit.edu	37	chr11	71238792	71238792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccagttgctgcaatccctGctgctcccagtctagctgct	5	12	9	15	0	1	0	0	0	1	0	4	0	4	0	3	0	6	7	3	0	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:71238792G>A	uc001oqq.1	+	1	480	c.446G>A	c.(445-447)TGC>TAC	p.C149Y		NM_001012503	NP_001012521	Q6L8G8	KRA57_HUMAN	keratin associated protein 5-7	149	7 X 4 AA repeats of C-C-X-P.					keratin filament					0						tgcaatccctgctgctCCCAG	0.264													7	213					0	0	0.00308	0	0		A	71238792	A	A	71238792	3	1	23	1	0	0	0	0	1	0	0	0	8582	1319	46	2	448	2	KRTAP5-7	11	71238792	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	905954	71238792	63767724	844	20172											
FOLR3	2352	broad.mit.edu	37	chr11	71850033	71850033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctggaagaagaatgcctgCtgcacggccagcaccagcca	11	4	11	15	1	0	2	0	0	0	2	0	3	0	3	5	2	5	3	5	2	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:71850033C>T	uc001ory.1	+	3	373	c.323C>T	c.(322-324)GCT>GTT	p.A108V	FOLR3_uc001orx.1_Silent_p.C65C			P41439	FOLR3_HUMAN	SubName: Full=FOLR3 protein; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					folic acid transport	extracellular region|extrinsic to membrane|membrane fraction	folic acid binding|receptor activity				0					Folic Acid(DB00158)	AGAATGCCTGCTGCACGGCCA	0.587													26	37					0	0	0.003954	0	0		T	71850033	T	T	71850033	3	4	23	1	0	0	0	0	1	0	0	0	5997	805	28	2	201	2	FOLR3	11	71850033	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	611241	71850033	63156483	845	20173											
INPPL1	3636	broad.mit.edu	37	chr11	71948521	71948521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaccagggccagtggtccGgggccgtggtggggctgagg	4	8	20	9	2	0	1	0	1	0	0	1	1	1	1	4	8	1	1	4	8	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:71948521G>A	uc001osf.2	+	26	3380	c.3233G>A	c.(3232-3234)CGG>CAG	p.R1078Q	INPPL1_uc001osg.2_Missense_Mutation_p.R836Q	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	1078	Pro-rich.				actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						CCAGTGGTCCGGGGCCGTGGT	0.692													18	46					0	0	0.010504	0	0		A	71948521	A	A	71948521	3	1	23	1	0	0	0	0	1	0	0	0	7777	1116	39	1	3335	1	INPPL1	11	71948521	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	98488	71948521	63057995	846	20174											
KCTD21	283219	broad.mit.edu	37	chr11	77885584	77885584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttccccccgacgttcagcGtgatggggtcggacatggca	6	8	14	13	4	1	1	1	1	0	0	3	3	2	2	3	4	1	3	3	4	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:77885584G>A	uc001ozb.2	-	2	92	c.17C>T	c.(16-18)ACG>ATG	p.T6M		NM_001029859	NP_001025030	Q4G0X4	KCD21_HUMAN	potassium channel tetramerisation domain	6	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.46e-24)			GACGTTCAGCGTGATGGGGTC	0.552													10	25					0	0	0.013537	0	0		A	77885584	A	A	77885584	3	1	23	1	0	0	0	0	1	0	0	0	8125	1145	40	1	769	1	KCTD21	11	77885584	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5937063	77885584	57120932	847	20175											
ANKRD42	338699	broad.mit.edu	37	chr11	82936061	82936061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttttacagtttatccaggggGctgagtatgaaggaaaagac	13	11	12	5	0	0	3	0	2	0	1	1	4	1	4	1	3	1	3	1	3	6	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:82936061G>A	uc001ozz.1	+	6	1089	c.667G>A	c.(667-669)GCT>ACT	p.A223T	ANKRD42_uc010rsv.1_Missense_Mutation_p.A251T|ANKRD42_uc001paa.2_Missense_Mutation_p.A251T|ANKRD42_uc001pab.1_Missense_Mutation_p.A250T	NM_182603	NP_872409	Q8N9B4	ANR42_HUMAN	ankyrin repeat domain 42	223	ANK 6.									skin(1)	1						TATCCAGGGGGCTGAGTATGA	0.313													16	98					0	0	0.004007	0	0		A	82936061	A	A	82936061	3	1	23	1	0	0	0	0	1	0	0	0	670	1203	42	2	689	2	ANKRD42	11	82936061	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5050477	82936061	52070455	848	20176											
FAT3	120114	broad.mit.edu	37	chr11	92088255	92088255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaagcaagtggtgccatcCgcttgagcaaagagcttgat	13	9	11	8	1	0	3	0	2	0	1	1	3	1	3	2	1	4	4	2	1	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:92088255C>T	uc001pdj.3	+	1	2994	c.2977C>T	c.(2977-2979)CGC>TGC	p.R993C		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	993	Cadherin 9.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TGGTGCCATCCGCTTGAGCAA	0.463										TCGA Ovarian(4;0.039)			22	24					0	0	0.010504	0	0		T	92088255	T	T	92088255	3	4	23	1	0	0	0	0	1	0	0	0	5705	652	23	1	2979	1	FAT3	11	92088255	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	9152194	92088255	42918261	849	20177											
FAT3	120114	broad.mit.edu	37	chr11	92543082	92543082	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggccaaggccactgaCgggggtggcaggttctgcca	7	7	16	11	1	1	2	0	2	1	0	1	2	1	2	3	6	1	2	3	6	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:92543082C>T	uc001pdj.3	+	12	9338	c.9321C>T	c.(9319-9321)GAC>GAT	p.D3107D		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3107	Cadherin 28.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGGCCACTGACGGGGGTGGCA	0.522										TCGA Ovarian(4;0.039)			10	80					0	0	0.008291	0	0		T	92543082	T	T	92543082	2	4	23	1	0	0	0	0	0	0	0	1	5705	535	19	1		1	FAT3	11	92543082	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	454827	92543082	42463434	850	20178											
FAT3	120114	broad.mit.edu	37	chr11	92600334	92600334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgcctgcaagcgcagccCgtgccagcacgggggcagct	7	3	15	16	5	0	0	0	0	0	0	0	1	0	0	3	2	6	5	3	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:92600334C>T	uc001pdj.3	+	21	12103	c.12086C>T	c.(12085-12087)CCG>CTG	p.P4029L	FAT3_uc001pdi.3_Missense_Mutation_p.P469L	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4029	EGF-like 2.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AAGCGCAGCCCGTGCCAGCAC	0.672										TCGA Ovarian(4;0.039)			4	8					0	0	0.001984	0	0		T	92600334	T	T	92600334	3	4	23	1	0	0	0	0	1	0	0	0	5705	652	23	1	12168	1	FAT3	11	92600334	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	57252	92600334	42406182	851	20179											
MAML2	84441	broad.mit.edu	37	chr11	95712232	95712232	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtttagggcagggcccatGttatcattttgttggctgag	6	15	13	7	0	1	1	1	1	0	0	1	1	1	1	1	3	0	5	1	3	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:95712232G>A	uc001pfw.1	-	5	4636	c.3351C>T	c.(3349-3351)AAC>AAT	p.N1117N		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	1117					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				CAGGGCCCATGTTATCATTTT	0.423			T	MECT1|CRTC3	salivary gland mucoepidermoid								37	78					0	0	0.006999	0	0		A	95712232	A	A	95712232	2	1	23	1	0	0	0	0	0	0	0	1	9224	1368	48	4		4	MAML2	11	95712232	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3111898	95712232	39294284	852	20180											
MAML2	84441	broad.mit.edu	37	chr11	95825802	95825802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatggtccagcagaagaggGcaaggctgaccagttggtag	11	7	16	7	0	0	4	0	2	0	2	1	4	1	4	2	4	1	5	2	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:95825802G>A	uc001pfw.1	-	2	2678	c.1393C>T	c.(1393-1395)CCC>TCC	p.P465S		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	465					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				GCAGAAGAGGGCAAGGCTGAC	0.493			T	MECT1|CRTC3	salivary gland mucoepidermoid								10	91					0	0	0.008291	0	0		A	95825802	A	A	95825802	3	1	23	1	0	0	0	0	1	0	0	0	9224	1203	42	2	2093	2	MAML2	11	95825802	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	113570	95825802	39180714	853	20181											
CNTN5	53942	broad.mit.edu	37	chr11	100126491	100126491	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccattgcctttgacctataGgacccccaggcccacctggg	7	9	9	16	0	0	1	0	1	0	0	1	2	1	2	7	3	1	0	7	3	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:100126491G>T	uc001pga.2	+	17	2345	c.2006_splice	c.e17-1	p.G669_splice	CNTN5_uc001pfz.2_Splice_Site_p.G669_splice|CNTN5_uc001pgb.2_Splice_Site_p.G595_splice|CNTN5_uc010ruk.1_Splice_Site	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long						cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		TTGACCTATAGGACCCCCAGG	0.448													37	92					9.62906e-15	1.04704e-14	0.00623	1	0		T	100126491	T	T	100126491	5	4	23	1	0	0	0	0	0	0	1	0	3647	1014	35	5	2063	5	CNTN5	11	100126491	Splice_Site	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4300689	100126491	34880025	854	20182											
KIAA1377	57562	broad.mit.edu	37	chr11	101833873	101833873	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgttacgactttaggaGgatctggagcagaccatatg	14	10	11	6	1	1	1	0	0	1	1	1	5	1	4	1	3	2	2	1	3	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:101833873G>T	uc001pgm.2	+	6	2377	c.2107G>T	c.(2107-2109)GGA>TGA	p.G703*	KIAA1377_uc001pgn.2_Nonsense_Mutation_p.G659*|KIAA1377_uc010run.1_Nonsense_Mutation_p.G504*|KIAA1377_uc009yxa.1_Nonsense_Mutation_p.G504*	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	703							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		GACTTTAGGAGGATCTGGAGC	0.378													11	200					0.00010058	0.000103285	0.013537	1	0		T	101833873	T	T	101833873	4	4	23	1	0	0	0	0	0	1	0	0	8243	1001	35	5	2129	5	KIAA1377	11	101833873	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1707382	101833873	33172643	855	20183											
MMP8	4317	broad.mit.edu	37	chr11	102585436	102585436	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccactcagagcccagtattgGttgcctgtcaatgattcagg	9	11	10	11	0	3	2	3	1	0	1	3	2	3	2	3	2	2	2	3	2	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:102585436G>A	uc001phe.2	-	8	1140	c.1041C>T	c.(1039-1041)AAC>AAT	p.N347N	MMP8_uc010rut.1_Intron|MMP8_uc010ruu.1_Silent_p.N324N	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	347	Hemopexin-like 2.				collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		CCCAGTATTGGTTGCCTGTCA	0.328													34	92					0	0	0.011902	0	0		A	102585436	A	A	102585436	2	1	23	1	0	0	0	0	0	0	0	1	9686	1252	44	4		4	MMP8	11	102585436	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	751563	102585436	32421080	856	20184											
KIAA1826	84437	broad.mit.edu	37	chr11	105881195	105881195	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacttacttcaggactctgCggatccctttcttcctcttc	6	16	5	14	1	4	0	1	0	3	0	7	2	6	2	2	2	3	0	2	2	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:105881195C>T	uc001piy.2	-	2	623	c.450G>A	c.(448-450)CCG>CCA	p.P150P	KIAA1826_uc001piz.2_Silent_p.P150P	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	150						nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		CAGGACTCTGCGGATCCCTTT	0.418													28	100					0	0	0.008361	0	0		T	105881195	T	T	105881195	2	4	23	1	0	0	0	0	0	0	0	1	8276	755	27	1		1	KIAA1826	11	105881195	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3295759	105881195	29125321	857	20185											
RAB39	54734	broad.mit.edu	37	chr11	107799397	107799397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacccagggccgcttccccGggctgcgctcccccgcctgc	2	6	11	22	4	1	0	1	0	0	0	3	0	3	0	7	2	2	3	7	2	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:107799397G>A	uc001pjt.2	+	1	121	c.103G>A	c.(103-105)GGG>AGG	p.G35R		NM_017516	NP_059986	Q14964	RB39A_HUMAN	RAB39, member RAS oncogene family	35					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0				BRCA - Breast invasive adenocarcinoma(274;3.04e-05)|Epithelial(105;8.56e-05)|all cancers(92;0.00179)		CCGCTTCCCCGGGCTGCGCTC	0.667													12	13					0	0	0.006122	0	0		A	107799397	A	A	107799397	3	1	23	1	0	0	0	0	1	0	0	0	12954	1116	39	1	105	1	RAB39	11	107799397	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1918202	107799397	27207119	858	20186											
LAYN	143903	broad.mit.edu	37	chr11	111430909	111430909	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcccggacctagaggtctAcaatgtcataagaaaacaaa	17	6	8	10	1	2	2	1	0	1	2	2	3	2	3	2	2	3	0	2	2	7	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:111430909A>G	uc001plr.1	+	8	1211	c.875A>G	c.(874-876)TAC>TGC	p.Y292C	LAYN_uc001plp.1_Missense_Mutation_p.Y284C|LAYN_uc001plq.1_3'UTR|LAYN_uc001pls.1_3'UTR|LAYN_uc010rwg.1_Missense_Mutation_p.Y139C|LAYN_uc010rwh.1_Missense_Mutation_p.Y140C	NM_178834	NP_849156	Q6UX15	LAYN_HUMAN	layilin	292	Cytoplasmic (Potential).					cell surface|integral to membrane|ruffle	hyaluronic acid binding|sugar binding				0		all_cancers(61;9.06e-10)|all_epithelial(67;1.34e-05)|Melanoma(852;1.74e-05)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.086)		Epithelial(105;1.5e-06)|BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|all cancers(92;2.45e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0476)		CTAGAGGTCTACAATGTCATA	0.512													43	48					0	0	0.00874	0	0		G	111430909	G	G	111430909	3	3	23	1	0	0	0	0	1	0	0	0	8665	391	14	3	877	3	LAYN	11	111430909	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	3631512	111430909	23575607	859	20187											
BACE1	23621	broad.mit.edu	37	chr11	117186302	117186302	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtagtagccctgccccgaCttgcccctcaggttgtccac	6	9	9	17	2	1	0	1	0	0	0	2	1	2	0	6	1	3	3	6	1	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:117186302C>T	uc001pqz.2	-	1	671	c.210G>A	c.(208-210)AAG>AAA	p.K70K	BACE1_uc001pqw.2_Silent_p.K70K|BACE1_uc001pqx.2_Silent_p.K70K|BACE1_uc001pqy.2_Silent_p.K70K|BACE1_uc001pra.1_Silent_p.K70K	NM_012104	NP_036236	P56817	BACE1_HUMAN	beta-site APP-cleaving enzyme 1 isoform A	70	Extracellular (Potential).				beta-amyloid metabolic process|membrane protein ectodomain proteolysis	cell surface|cytoplasmic vesicle membrane|endoplasmic reticulum|endosome|integral to plasma membrane|trans-Golgi network	aspartic-type endopeptidase activity|beta-aspartyl-peptidase activity|protein binding			ovary(1)	1	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000563)|all cancers(92;0.0032)		CCTGCCCCGACTTGCCCCTCA	0.701													5	18					0	0	0.001168	0	0		T	117186302	T	T	117186302	2	4	23	1	0	0	0	0	0	0	0	1	1282	564	20	4		4	BACE1	11	117186302	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5755393	117186302	17820214	860	20188											
NLRX1	79671	broad.mit.edu	37	chr11	119044614	119044614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgccaacttgtggcccagcGctacacgcccctgaaggagg	8	6	13	14	2	0	1	0	1	0	0	0	2	0	2	4	3	4	1	4	3	3	2	rs146004436	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:119044614G>A	uc001pvu.2	+	5	871	c.656G>A	c.(655-657)CGC>CAC	p.R219H	NLRX1_uc010rzc.1_Missense_Mutation_p.R41H|NLRX1_uc001pvv.2_Missense_Mutation_p.R219H|NLRX1_uc001pvw.2_Missense_Mutation_p.R219H|NLRX1_uc001pvx.2_Missense_Mutation_p.R219H	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	219	Required for interaction with MAVS.|NACHT.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		GTGGCCCAGCGCTACACGCCC	0.647													12	59					0	0	0.00245	0	0		A	119044614	A	A	119044614	3	1	23	1	0	0	0	0	1	0	0	0	10504	1087	38	1	670	1	NLRX1	11	119044614	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1858312	119044614	15961902	861	20189											
CBL	867	broad.mit.edu	37	chr11	119169107	119169107	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcccatgccaacactggtcCcgaggagtcagaaaatgagg	13	5	12	11	1	1	2	1	1	0	1	2	4	2	3	3	3	3	0	3	3	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:119169107C>A	uc001pwe.2	+	15	2429	c.2291C>A	c.(2290-2292)CCC>CAC	p.P764H		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral	764	Interaction with CD2AP.|Asp/Glu-rich (acidic).				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		AACACTGGTCCCGAGGAGTCA	0.502									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome				30	62					1.22384e-17	1.34032e-17	0.013726	1	0		A	119169107	A	A	119169107	3	1	23	1	0	0	0	0	1	0	0	0	2703	623	22	5	2349	5	CBL	11	119169107	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	124493	119169107	15837409	862	20190											
OR6X1	390260	broad.mit.edu	37	chr11	123624522	123624522	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcgaggcacaggtagagaaAgtcttttggtggccagtggc	9	9	16	7	1	1	1	0	0	1	1	1	3	1	1	1	5	1	2	1	5	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:123624522A>C	uc010rzy.1	-	1	705	c.705T>G	c.(703-705)ACT>ACG	p.T235T		NM_001005188	NP_001005188	Q8NH79	OR6X1_HUMAN	olfactory receptor, family 6, subfamily X,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		AGGTAGAGAAAGTCTTTTGGT	0.468													11	95					0	0	0.014323	0	0		C	123624522	C	C	123624522	2	2	23	1	0	0	0	0	0	0	0	1	11231	59	3	5		5	OR6X1	11	123624522	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	4455415	123624522	11381994	863	20191											
FEZ1	9638	broad.mit.edu	37	chr11	125330401	125330401	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagggccctcaccttcataGgaccagttgttgttgaaggt	8	11	11	11	0	2	1	2	1	0	0	2	2	2	2	4	3	0	3	4	3	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:125330401G>T	uc001qbx.2	-	5	812	c.660C>A	c.(658-660)TCC>TCA	p.S220S	FEZ1_uc010sbc.1_Silent_p.S191S	NM_005103	NP_005094	Q99689	FEZ1_HUMAN	zygin 1 isoform 1	220					axon guidance|cell adhesion|transport	microtubule|plasma membrane				central_nervous_system(3)|ovary(1)	4	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0934)		CACCTTCATAGGACCAGTTGT	0.582													34	73					7.53189e-24	8.32472e-24	0.007835	1	0		T	125330401	T	T	125330401	2	4	23	1	0	0	0	0	0	0	0	1	5837	987	35	5		5	FEZ1	11	125330401	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1705879	125330401	9676115	864	20192											
CDON	50937	broad.mit.edu	37	chr11	125880287	125880287	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accatgttcatttgcagcttCgcagatgtatttccccgcat	8	14	7	12	2	1	1	1	0	0	1	3	1	2	1	3	0	2	6	3	0	1	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:125880287C>T	uc009zbw.2	-	8	1629	c.1501G>A	c.(1501-1503)GAA>AAA	p.E501K	CDON_uc001qdc.3_Missense_Mutation_p.E501K|CDON_uc001qdd.3_RNA	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	501	Ig-like C2-type 5.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		TTTGCAGCTTCGCAGATGTAT	0.443													8	36					0	0	0.00308	0	0		T	125880287	T	T	125880287	3	4	23	1	0	0	0	0	1	0	0	0	3173	893	31	1	2345	1	CDON	11	125880287	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	549886	125880287	9126229	865	20193											
ARHGAP32	9743	broad.mit.edu	37	chr11	128851757	128851757	+	Frame_Shift_Del	DEL	T	-	-																															gagcccaaacaattgctagaTtttttgcatgcatatttgtg																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:128851757delT	uc009zcp.2	-	15	1559	c.1559delA	c.(1558-1560)AATfs	p.N520fs	ARHGAP32_uc009zcq.1_Frame_Shift_Del_p.N480fs|ARHGAP32_uc009zco.2_5'UTR|ARHGAP32_uc001qez.2_Frame_Shift_Del_p.N171fs	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	520	Rho-GAP.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						AATTGCTAGATTTTTTGCATG	0.333													46	68	---	---	---	---						.	-	128851757	-	-	128851757	7	5	23	1	0	1	0	1	0	0	0	0	881	1493	52	0	4736	0	ARHGAP32	11	128851757	Frame_Shift_Del	DEL	T	TCGA-BR-4368-01A-01D-1158-08	2971470	128851757	6154759	866	20194											
PRDM10	56980	broad.mit.edu	37	chr11	129785641	129785641	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtgtgtgtgctcagcaTggggtctggctctccaggac	4	11	16	10	0	3	0	1	0	2	0	4	1	3	1	1	5	2	3	1	5	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:129785641T>C	uc001qfm.2	-	17	2684	c.2452A>G	c.(2452-2454)ATG>GTG	p.M818V	PRDM10_uc001qfj.2_Missense_Mutation_p.M732V|PRDM10_uc001qfk.2_Missense_Mutation_p.M728V|PRDM10_uc001qfl.2_Missense_Mutation_p.M732V|PRDM10_uc010sbx.1_Missense_Mutation_p.M728V|PRDM10_uc001qfn.2_Missense_Mutation_p.M814V|PRDM10_uc009zcs.1_Missense_Mutation_p.M1V	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	818					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		GTGCTCAGCATGGGGTCTGGC	0.627													28	171					0	0	0.012213	0	0		C	129785641	C	C	129785641	3	2	23	1	0	0	0	0	1	0	0	0	12473	1464	51	3	1054	3	PRDM10	11	129785641	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	933884	129785641	5220875	867	20195											
OPCML	4978	broad.mit.edu	37	chr11	132812832	132812832	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctccctacctgagggtggcGctctccccctgccggaccgt	3	8	12	18	3	1	1	0	1	1	0	3	2	2	2	6	3	2	2	6	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:132812832G>T	uc001qgs.2	-	1	206	c.156C>A	c.(154-156)AGC>AGA	p.S52R	OPCML_uc001qgu.2_Missense_Mutation_p.S45R|OPCML_uc010sck.1_Missense_Mutation_p.S52R|OPCML_uc001qgt.2_Missense_Mutation_p.S52R|OPCML_uc010scl.1_Missense_Mutation_p.S11R	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	52	Ig-like C2-type 1.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		TGAGGGTGGCGCTCTCCCCCT	0.677													21	81					2.61193e-14	2.831e-14	0.009535	1	0		T	132812832	T	T	132812832	3	4	23	1	0	0	0	0	1	0	0	0	10893	1078	38	5	909	5	OPCML	11	132812832	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3027191	132812832	2193684	868	20196											
IGSF9B	22997	broad.mit.edu	37	chr11	133800877	133800877	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagccttgccggccacgtAccgatgacggtgaggtgggt	6	7	15	13	4	0	2	0	2	0	0	0	3	0	2	5	4	3	1	5	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:133800877A>G	uc001qgx.3	-	11	1750	c.1519_splice	c.e11+1	p.G507_splice	IGSF9B_uc001qgy.1_Splice_Site_p.G349_splice	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B							integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		CCGGCCACGTACCGATGACGG	0.692													5	7					0	0	0.000602	0	0		G	133800877	G	G	133800877	5	3	23	1	0	0	0	0	0	0	1	0	7622	405	14	3	2564	3	IGSF9B	11	133800877	Splice_Site	SNP	A	TCGA-BR-4368-01A-01D-1158-08	988045	133800877	1205639	869	20197											
NCAPD3	23310	broad.mit.edu	37	chr11	134022868	134022868	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttttcagaggggtctttcGgagggacctcctgctgcagg	5	12	15	9	1	2	1	1	0	1	1	4	3	3	3	2	5	2	3	2	5	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr11:134022868G>A	uc001qhd.1	-	35	5074	c.4468C>T	c.(4468-4470)CGA>TGA	p.R1490*	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA|NCAPD3_uc001qhc.1_Silent_p.S440S	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	1490					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		GGGGTCTTTCGGAGGGACCTC	0.597													9	229					0	0	0.013537	0	0		A	134022868	A	A	134022868	4	1	23	1	0	0	0	0	0	1	0	0	10225	1124	39	1	32	1	NCAPD3	11	134022868	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	221991	134022868	983648	870	20198											
SLC6A12	6539	broad.mit.edu	37	chr12	313794	313794	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctggtgtattggcccaaCgccacctccaggaagaacac	10	7	11	13	1	0	1	0	0	0	1	1	2	1	2	4	4	2	2	4	4	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:313794C>T	uc001qhz.2	-	5	828	c.285G>A	c.(283-285)GCG>GCA	p.A95A	SLC6A12_uc001qia.2_Silent_p.A95A|SLC6A12_uc001qib.2_Silent_p.A95A|SLC6A12_uc009zdh.1_Silent_p.A95A|SLC6A12_uc009zdi.1_RNA	NM_003044	NP_003035	P48065	S6A12_HUMAN	solute carrier family 6 (neurotransmitter	95					cellular nitrogen compound metabolic process|neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(10;0.0172)|all_epithelial(11;0.0283)|all_lung(10;0.0392)|Lung NSC(10;0.0567)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00227)			ATTGGCCCAACGCCACCTCCA	0.587													8	64					0	0	0.00308	0	0		T	313794	T	T	313794	2	4	23	1	0	0	0	0	0	0	0	1	14700	523	19	1		1	SLC6A12	12	313794	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08		313794	133538101	871	20199											
CACNA1C	775	broad.mit.edu	37	chr12	2795379	2795379	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgaagcgacagaaggacCgagggggagacatctctcag	12	5	15	9	2	3	3	1	1	2	2	4	7	3	4	1	3	1	0	1	3	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:2795379C>T	uc009zdu.1	+	48	6290	c.5977C>T	c.(5977-5979)CGA>TGA	p.R1993*	CACNA1C_uc009zdv.1_Nonsense_Mutation_p.R1907*|CACNA1C_uc001qkb.2_Nonsense_Mutation_p.R1910*|CACNA1C_uc001qkc.2_Nonsense_Mutation_p.R1929*|CACNA1C_uc001qke.2_Nonsense_Mutation_p.R1899*|CACNA1C_uc001qkf.2_Nonsense_Mutation_p.R1918*|CACNA1C_uc001qjz.2_Nonsense_Mutation_p.R1910*|CACNA1C_uc001qkd.2_Nonsense_Mutation_p.R1929*|CACNA1C_uc001qkg.2_Nonsense_Mutation_p.R1916*|CACNA1C_uc009zdw.1_Nonsense_Mutation_p.R1951*|CACNA1C_uc001qkh.2_Nonsense_Mutation_p.R1918*|CACNA1C_uc001qkl.2_Nonsense_Mutation_p.R1958*|CACNA1C_uc001qkn.2_Nonsense_Mutation_p.R1910*|CACNA1C_uc001qko.2_Nonsense_Mutation_p.R1930*|CACNA1C_uc001qkp.2_Nonsense_Mutation_p.R1910*|CACNA1C_uc001qkr.2_Nonsense_Mutation_p.R1927*|CACNA1C_uc001qku.2_Nonsense_Mutation_p.R1945*|CACNA1C_uc001qkq.2_Nonsense_Mutation_p.R1938*|CACNA1C_uc001qks.2_Nonsense_Mutation_p.R1910*|CACNA1C_uc001qkt.2_Nonsense_Mutation_p.R1929*|CACNA1C_uc001qki.1_Nonsense_Mutation_p.R1717*|CACNA1C_uc001qkj.1_Nonsense_Mutation_p.R1681*|CACNA1C_uc001qkk.1_Nonsense_Mutation_p.R1646*|CACNA1C_uc001qkm.1_Nonsense_Mutation_p.R1706*|CACNA1C_uc010sea.1_Nonsense_Mutation_p.R601*|uc001qkx.1_Intron|CACNA1C_uc001qky.1_Nonsense_Mutation_p.R228*	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1993	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	ACAGAAGGACCGAGGGGGAGA	0.582													29	118					0	0	0.012213	0	0		T	2795379	T	T	2795379	4	4	23	1	0	0	0	0	0	1	0	0	2543	644	23	1	6615	1	CACNA1C	12	2795379	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2481585	2795379	131056516	872	20200											
VWF	7450	broad.mit.edu	37	chr12	6122709	6122709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtagggaggtcttcgattCgctggagcttcaccacgttg	6	12	14	9	3	2	0	1	0	1	0	4	3	2	2	1	4	1	4	1	4	1	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:6122709C>T	uc001qnn.1	-	32	5808	c.5558G>A	c.(5557-5559)CGA>CAA	p.R1853Q	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1853	VWFA 3; main binding site for collagens type I and III.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	GTCTTCGATTCGCTGGAGCTT	0.512													15	100					0	0	0.004007	0	0		T	6122709	T	T	6122709	3	4	23	1	0	0	0	0	1	0	0	0	17272	884	31	1	2967	1	VWF	12	6122709	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3327330	6122709	127729186	873	20201											
ACRBP	84519	broad.mit.edu	37	chr12	6753627	6753627	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcttgtgttcttgtgtcGgctcctgcctgtgctccact	1	16	10	14	1	1	0	0	0	1	0	4	0	3	0	4	1	3	4	4	1	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:6753627G>A	uc001qpu.1	-	5	668	c.620C>T	c.(619-621)CCG>CTG	p.P207L	ACRBP_uc010sfg.1_Missense_Mutation_p.P174L	NM_032489	NP_115878	Q8NEB7	ACRBP_HUMAN	proacrosin binding protein sp32 precursor	207						acrosomal vesicle|extracellular region				central_nervous_system(1)	1						TTCTTGTGTCGGCTCCTGCCT	0.333													6	60					0	0	0.001984	0	0		A	6753627	A	A	6753627	3	1	23	1	0	0	0	0	1	0	0	0	170	1116	39	1	1035	1	ACRBP	12	6753627	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	630918	6753627	127098268	874	20202											
CD163L1	283316	broad.mit.edu	37	chr12	7522128	7522128	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccagagcagagccacaGcccagctgctgacacaccac	12	2	10	17	0	0	3	0	1	0	2	0	3	0	3	4	0	6	4	4	0	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:7522128G>A	uc001qsy.2	-	15	3890	c.3864C>T	c.(3862-3864)GGC>GGT	p.G1288G	CD163L1_uc010sge.1_Silent_p.G1298G	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	1288	SRCR 12.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						CAGAGCCACAGCCCAGCTGCT	0.602													73	124					0	0	0.01441	0	0		A	7522128	A	A	7522128	2	1	23	1	0	0	0	0	0	0	0	1	2971	958	34	2		2	CD163L1	12	7522128	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	768501	7522128	126329767	875	20203											
MGST1	4257	broad.mit.edu	37	chr12	16510630	16510630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacagagtagaacgtgtacGcaggtaaaccagtgtctctt	12	10	11	8	2	1	3	0	1	1	2	2	3	1	3	1	1	3	4	1	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:16510630G>A	uc001rdf.2	+	3	283	c.218G>A	c.(217-219)CGC>CAC	p.R73H	MGST1_uc001rdg.2_Missense_Mutation_p.R73H|MGST1_uc009zih.1_RNA|MGST1_uc001rdh.2_Missense_Mutation_p.R73H|MGST1_uc001rdi.2_Missense_Mutation_p.R73H	NM_145792	NP_665735	P10620	MGST1_HUMAN	microsomal glutathione S-transferase 1	73	Helical; (By similarity).	Glutathione (By similarity).			protein homotrimerization|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane	glutathione transferase activity				0		Hepatocellular(102;0.121)			Glutathione(DB00143)	GAACGTGTACGCAGGTAAACC	0.398													23	52					0	0	0.00278	0	0		A	16510630	A	A	16510630	3	1	23	1	0	0	0	0	1	0	0	0	9578	1087	38	1	224	1	MGST1	12	16510630	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	8988502	16510630	117341265	876	20204											
ABCC9	10060	broad.mit.edu	37	chr12	22005061	22005061	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttgatcttgccgattcatAagtgttttccagtgttcata	8	18	7	8	1	4	1	2	1	2	0	5	2	5	1	2	0	1	2	2	0	2	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:22005061A>G	uc001rfi.1	-	22	2759	c.2739T>C	c.(2737-2739)CTT>CTC	p.L913L	ABCC9_uc001rfh.2_Silent_p.L913L|ABCC9_uc001rfj.1_Silent_p.L877L	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	913	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GCCGATTCATAAGTGTTTTCC	0.358													8	61					0	0	0.004482	0	0		G	22005061	G	G	22005061	2	3	23	1	0	0	0	0	0	0	0	1	59	349	13	3		3	ABCC9	12	22005061	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	5494431	22005061	111846834	877	20205											
KRAS	3845	broad.mit.edu	37	chr12	25398281	25398281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaggcactcttgcctacgCcaccagctccaactaccaca	11	7	5	18	1	2	0	1	0	1	0	3	0	3	0	5	1	5	2	5	1	4	3	rs112445441		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:25398281C>T	uc001rgp.1	-	2	219	c.38G>A	c.(37-39)GGC>GAC	p.G13D	KRAS_uc001rgq.1_Missense_Mutation_p.G13D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	13	GTP.		G -> R (in pylocytic astrocytoma; somatic mutation; increase activation of the Ras pathway).|G -> D (in a breast carcinoma cell line and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G13D(2647)|p.G13C(182)|p.G13S(58)|p.G13R(41)|p.G13V(27)|p.G13A(24)|p.G13G(11)|p.G13E(4)|p.G12_G13insG(4)|p.G13N(3)|p.G13I(1)|p.G13_V14>DI(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CTTGCCTACGCCACCAGCTCC	0.338	G13D(NCIH647_LUNG)|G13D(MDAMB231_BREAST)|G13D(NCIH747_LARGE_INTESTINE)|G13D(T84_LARGE_INTESTINE)|G13D(LOVO_LARGE_INTESTINE)|G13D(DLD1_LARGE_INTESTINE)|G13D(DV90_LUNG)|G13D(HCT15_LARGE_INTESTINE)|G13D(HCT116_LARGE_INTESTINE)|G13D(TOLEDO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G13D(NOMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			8	12					0	0	0.004482	0	0		T	25398281	T	T	25398281	3	4	23	1	0	0	0	0	1	0	0	0	8454	739	26	2	668	2	KRAS	12	25398281	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3393220	25398281	108453614	878	20206											
C12orf72	254013	broad.mit.edu	37	chr12	31820594	31820594	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttaagttgcaggaatggcTattacactaaattgtgaatt	13	16	8	4	0	0	1	0	1	0	0	0	2	0	2	0	2	2	3	0	2	7	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:31820594T>A	uc009zjr.2	+	4	668	c.459T>A	c.(457-459)GCT>GCA	p.A153A	C12orf72_uc001rkl.2_Silent_p.A153A|C12orf72_uc001rkm.2_Silent_p.A153A	NM_001135864	NP_001129336	Q8IXQ9	MET20_HUMAN	hypothetical protein LOC254013	153						cytoplasm	protein methyltransferase activity				0						CAGGAATGGCTATTACACTAA	0.299													29	34					0	0	0.012213	0	0		A	31820594	A	A	31820594	2	1	23	1	0	0	0	0	0	0	0	1	1716	1509	53	5		5	C12orf72	12	31820594	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	6422313	31820594	102031301	879	20207											
LRRK2	120892	broad.mit.edu	37	chr12	40697791	40697791	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcaatgatattcagtaccTaccaggtcccgcacactgga	12	8	8	13	1	1	1	1	1	0	0	2	2	2	2	3	2	3	3	3	2	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:40697791T>C	uc001rmg.3	+	27	3753	c.3632T>C	c.(3631-3633)CTA>CCA	p.L1211P	LRRK2_uc001rmh.1_Missense_Mutation_p.L833P|LRRK2_uc009zjw.2_Missense_Mutation_p.L49P|LRRK2_uc001rmi.2_Missense_Mutation_p.L44P	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1211	LRR 9.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				ATTCAGTACCTACCAGGTCCC	0.358													19	91					0	0	0.014323	0	0		C	40697791	C	C	40697791	3	2	23	1	0	0	0	0	1	0	0	0	9051	1522	53	3	3738	3	LRRK2	12	40697791	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	8877197	40697791	93154104	880	20208											
PRICKLE1	144165	broad.mit.edu	37	chr12	42860065	42860065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagccacagcagaaggggcGgccgtccttcatgatatacc	11	6	11	13	2	1	2	1	1	0	1	2	2	2	2	4	3	3	1	4	3	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:42860065G>A	uc010skv.1	-	6	993	c.706C>T	c.(706-708)CGC>TGC	p.R236C	PRICKLE1_uc001rnl.2_Missense_Mutation_p.R236C|PRICKLE1_uc010skw.1_Missense_Mutation_p.R236C|PRICKLE1_uc001rnm.2_Missense_Mutation_p.R236C	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	236	LIM zinc-binding 2.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		CAGAAGGGGCGGCCGTCCTTC	0.547													9	62					0	0	0.001855	0	0		A	42860065	A	A	42860065	3	1	23	1	0	0	0	0	1	0	0	0	12508	1116	39	1	1801	1	PRICKLE1	12	42860065	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2162274	42860065	90991830	881	20209											
PUS7L	83448	broad.mit.edu	37	chr12	44148382	44148382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggaattttctttctttgcatCcaaatatttaaaaaagtcaa	15	16	4	6	0	3	0	1	0	2	0	4	1	4	1	1	1	1	1	1	1	7	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:44148382C>T	uc001rnq.3	-	2	1156	c.667G>A	c.(667-669)GAT>AAT	p.D223N	PUS7L_uc001rnr.3_Missense_Mutation_p.D223N|PUS7L_uc001rns.3_Missense_Mutation_p.D223N|PUS7L_uc009zkb.2_Intron	NM_001098615	NP_001092085	Q9H0K6	PUS7L_HUMAN	pseudouridylate synthase 7 homolog (S.	223					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)		TTCTTTGCATCCAAATATTTA	0.303													6	63					0	0	0.001168	0	0		T	44148382	T	T	44148382	3	4	23	1	0	0	0	0	1	0	0	0	12859	855	30	4	1470	4	PUS7L	12	44148382	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1288317	44148382	89703513	882	20210											
SLC38A2	54407	broad.mit.edu	37	chr12	46760899	46760899	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgatccagatgctgcaagCtttccaactaatccaaatgc	13	11	6	11	0	0	2	0	1	0	1	3	2	3	2	3	0	5	3	3	0	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:46760899C>A	uc001rpg.2	-	6	881	c.441G>T	c.(439-441)AAG>AAT	p.K147N	SLC38A2_uc010sli.1_5'Flank|SLC38A2_uc001rph.2_Missense_Mutation_p.K47N	NM_018976	NP_061849	Q96QD8	S38A2_HUMAN	solute carrier family 38, member 2	147	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|glutamate secretion|neurotransmitter secretion|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			urinary_tract(1)|skin(1)	2	Lung SC(27;0.192)|Renal(347;0.236)		OV - Ovarian serous cystadenocarcinoma(5;0.0048)|Epithelial(2;0.0374)	GBM - Glioblastoma multiforme(48;0.226)		ATGCTGCAAGCTTTCCAACTA	0.348													8	153					3.09899e-07	3.24178e-07	0.004482	1	0		A	46760899	A	A	46760899	3	1	23	1	0	0	0	0	1	0	0	0	14629	796	28	5	1123	5	SLC38A2	12	46760899	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2612517	46760899	87090996	883	20211											
LALBA	3906	broad.mit.edu	37	chr12	48962351	48962351	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggcacacattatgtcaTcagtaatgtcatcatccagg	11	13	7	10	0	5	0	4	0	1	0	6	0	6	0	1	2	0	2	1	2	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:48962351T>C	uc001rrt.2	-	3	343	c.317A>G	c.(316-318)GAT>GGT	p.D106G		NM_002289	NP_002280	P00709	LALBA_HUMAN	lactalbumin, alpha- precursor	106					cell-cell signaling|defense response to bacterium|induction of apoptosis|lactose biosynthetic process|signal transduction	extracellular space	calcium ion binding|lactose synthase activity				0						CATTATGTCATCAGTAATGTC	0.438													21	92					0	0	0.00278	0	0		C	48962351	C	C	48962351	3	2	23	1	0	0	0	0	1	0	0	0	8620	1435	50	3	119	3	LALBA	12	48962351	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2201452	48962351	84889544	884	20212											
CCNT1	904	broad.mit.edu	37	chr12	49110331	49110331	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccccatgtcctgaagcagaTtggccgcctgctggcgataa	8	8	12	13	2	0	2	0	1	0	1	1	3	1	2	5	2	2	2	5	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:49110331T>C	uc001rse.1	-	1	451	c.128A>G	c.(127-129)AAT>AGT	p.N43S	CCNT1_uc009zkz.1_5'UTR	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	43					cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						CTGAAGCAGATTGGCCGCCTG	0.557											OREG0021767	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	258					0	0	0.00308	0	0		C	49110331	C	C	49110331	3	2	23	1	0	0	0	0	1	0	0	0	2937	1493	52	3	2088	3	CCNT1	12	49110331	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	147980	49110331	84741564	885	20213											
MLL2	8085	broad.mit.edu	37	chr12	49443667	49443667	+	Frame_Shift_Del	DEL	C	-	-																															actccatggacagggagccaCccccctccgggtctggagag																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:49443667delC	uc001rta.3	-	11	3704	c.3704delG	c.(3703-3705)GGTfs	p.G1235fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1235					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CAGGGAGCCACCCCCCTCCGG	0.592			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			53	112	---	---	---	---						.	-	49443667	-	-	49443667	7	5	23	1	0	1	0	1	0	0	0	0	9639	507	18	0	13085	0	MLL2	12	49443667	Frame_Shift_Del	DEL	C	TCGA-BR-4368-01A-01D-1158-08	333336	49443667	84408228	886	20214											
MLL2	8085	broad.mit.edu	37	chr12	49446436	49446436	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggctgcccttggcatgcaAcgtacagagcatcgggctcg	7	9	13	12	3	0	1	0	0	0	1	2	1	0	1	1	3	5	6	1	3	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:49446436A>G	uc001rta.3	-	9	1169	c.1169T>C	c.(1168-1170)GTT>GCT	p.V390A		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	390	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TTGGCATGCAACGTACAGAGC	0.597			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			3	43					0	0	0.009096	0	0		G	49446436	G	G	49446436	3	3	23	1	0	0	0	0	1	0	0	0	9639	43	2	3	15628	3	MLL2	12	49446436	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2769	49446436	84405459	887	20215											
DHH	50846	broad.mit.edu	37	chr12	49488122	49488122	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctccgctggcccactggcGcccagggtccgctctggcac	3	6	12	20	3	1	0	0	0	1	0	3	0	3	0	5	4	0	3	5	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:49488122G>A	uc001rtf.2	-	1	481	c.174C>T	c.(172-174)GGC>GGT	p.G58G		NM_021044	NP_066382	O43323	DHH_HUMAN	desert hedgehog preproprotein	58					cell-cell signaling|proteolysis	extracellular space|plasma membrane	calcium ion binding|peptidase activity|zinc ion binding			lung(1)|breast(1)	2						GCCCACTGGCGCCCAGGGTCC	0.612													18	72					0	0	0.008871	0	0		A	49488122	A	A	49488122	2	1	23	1	0	0	0	0	0	0	0	1	4489	1074	38	1		1	DHH	12	49488122	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	41686	49488122	84363773	888	20216											
DIP2B	57609	broad.mit.edu	37	chr12	51086785	51086785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatgctgggctgtggcacGgcatgtttgcggtaagctac	7	10	16	8	2	0	0	0	0	0	0	0	1	0	1	0	5	4	7	0	5	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:51086785G>A	uc001rwv.2	+	14	1864	c.1708G>A	c.(1708-1710)GGC>AGC	p.G570S	DIP2B_uc009zlt.2_5'UTR	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	570						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						GCTGTGGCACGGCATGTTTGC	0.388													21	97					0	0	0.00278	0	0		A	51086785	A	A	51086785	3	1	23	1	0	0	0	0	1	0	0	0	4534	1116	39	1	1762	1	DIP2B	12	51086785	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1598663	51086785	82765110	889	20217											
DAZAP2	9802	broad.mit.edu	37	chr12	51636117	51636117	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgtcatttcctttcagcctCcacctcctggatgccctccc	5	13	5	18	0	2	0	2	0	0	0	6	1	6	1	7	1	2	0	7	1	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:51636117C>A	uc010snd.1	+	4	489	c.305C>A	c.(304-306)TCC>TAC	p.S102Y	DAZAP2_uc001ryb.2_Missense_Mutation_p.P106T|DAZAP2_uc010snc.1_Missense_Mutation_p.P46T|DAZAP2_uc010sne.1_Missense_Mutation_p.P96T|DAZAP2_uc010snf.1_Intron	NM_001136266	NP_001129738	Q15038	DAZP2_HUMAN	DAZ associated protein 2 isoform c	102	Pro-rich.						WW domain binding				0						CTTTCAGCCTCCACCTCCTGG	0.542													15	812					2.23348e-06	2.31621e-06	0.004007	1	0		A	51636117	A	A	51636117	3	1	23	1	0	0	0	0	1	0	0	0	4248	855	30	5	396	5	DAZAP2	12	51636117	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	549332	51636117	82215778	890	20218											
KRT7	3855	broad.mit.edu	37	chr12	52635388	52635388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagatggccaaatgcagcCgggctgaggctgaagcctgg	10	5	17	9	1	0	3	0	2	0	1	0	4	0	3	3	5	3	3	3	5	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:52635388C>T	uc001saa.1	+	5	953	c.826C>T	c.(826-828)CGG>TGG	p.R276W	KRT7_uc009zmf.1_Missense_Mutation_p.R276W	NM_005556	NP_005547	P08729	K2C7_HUMAN	keratin 7	276	Rod.|Coil 2.				cytoskeleton organization|DNA replication|interphase|interspecies interaction between organisms|regulation of translation	Golgi apparatus|keratin filament|nucleus	protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.105)		CAAATGCAGCCGGGCTGAGGC	0.597													25	60					0	0	0.00632	0	0		T	52635388	T	T	52635388	3	4	23	1	0	0	0	0	1	0	0	0	8499	643	23	1	844	1	KRT7	12	52635388	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	999271	52635388	81216507	891	20219											
KRT82	3888	broad.mit.edu	37	chr12	52794311	52794311	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtcagggctgtgggtacCtcctcatacaggcttttcag	8	11	12	10	0	3	0	3	0	0	0	4	0	4	0	2	4	2	3	2	4	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:52794311C>T	uc001sai.1	-	4	892	c.777G>A	c.(775-777)GAG>GAA	p.E259E		NM_033033	NP_149022	Q9NSB4	KRT82_HUMAN	keratin 82	259	Coil 1B.|Rod.					keratin filament	protein binding|structural constituent of epidermis			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.193)		CTGTGGGTACCTCCTCATACA	0.592													22	68					0	0	0.004656	0	0		T	52794311	T	T	52794311	2	4	23	1	0	0	0	0	0	0	0	1	8512	695	24	4		4	KRT82	12	52794311	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	158923	52794311	81057584	892	20220											
KRT6B	3854	broad.mit.edu	37	chr12	52841159	52841159	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaggcctaagccactgcCgacaccgctggcaccgccat	9	4	9	19	3	0	0	0	0	0	0	0	1	0	0	7	2	2	2	7	2	1	1	rs150021015	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:52841159C>A	uc001sak.2	-	9	1558	c.1510G>T	c.(1510-1512)GGC>TGC	p.G504C		NM_005555	NP_005546	P04259	K2C6B_HUMAN	keratin 6B	504	Tail.				ectoderm development	keratin filament	structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.083)		AAGCCACTGCCGACACCGCTG	0.612													7	17					2.74318e-10	2.92606e-10	0.006214	1	0		A	52841159	A	A	52841159	3	1	23	1	0	0	0	0	1	0	0	0	8497	652	23	5	188	5	KRT6B	12	52841159	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	46848	52841159	81010736	893	20221											
KRT74	121391	broad.mit.edu	37	chr12	52967139	52967139	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcagcaccttgatctgttcCcgctcctgggcgcgcacctt	4	12	9	16	3	2	1	1	1	1	0	4	1	4	1	4	1	1	4	4	1	0	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:52967139C>T	uc001sap.1	-	1	471	c.423G>A	c.(421-423)CGG>CGA	p.R141R		NM_175053	NP_778223	Q7RTS7	K2C74_HUMAN	keratin 6 irs4	141	Coil 1A.|Rod.					keratin filament	structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.191)		TGATCTGTTCCCGCTCCTGGG	0.597													23	145					0	0	0.00333	0	0		T	52967139	T	T	52967139	2	4	23	1	0	0	0	0	0	0	0	1	8503	610	22	4		4	KRT74	12	52967139	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	125980	52967139	80884756	894	20222											
SPRYD3	84926	broad.mit.edu	37	chr12	53462074	53462074	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgatgcttttgcccttcccTaagtactccagcagctgtgg	7	12	9	13	1	0	0	0	0	0	0	2	1	2	0	3	1	5	4	3	1	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:53462074T>C	uc001sbt.1	-	7	729	c.708A>G	c.(706-708)TTA>TTG	p.L236L	SPRYD3_uc010snw.1_Silent_p.L62L	NM_032840	NP_116229	Q8NCJ5	SPRY3_HUMAN	SPRY domain containing 3	236										central_nervous_system(1)	1						TGCCCTTCCCTAAGTACTCCA	0.642													5	253					0	0	0.001168	0	0		C	53462074	C	C	53462074	2	2	23	1	0	0	0	0	0	0	0	1	15134	1519	53	3		3	SPRYD3	12	53462074	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	494935	53462074	80389821	895	20223											
ESPL1	9700	broad.mit.edu	37	chr12	53680216	53680216	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatacacactgttggcactGgagggcctgaaccagccatc	10	7	11	13	0	0	1	0	1	0	0	1	2	0	2	3	3	3	3	3	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:53680216G>A	uc001sck.2	+	18	3787	c.3696G>A	c.(3694-3696)CTG>CTA	p.L1232L	ESPL1_uc001scj.2_Silent_p.L907L|ESPL1_uc010soe.1_Intron	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1232					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						TGTTGGCACTGGAGGGCCTGA	0.547													22	181					0	0	0.014323	0	0		A	53680216	A	A	53680216	2	1	23	1	0	0	0	0	0	0	0	1	5261	1335	47	4		4	ESPL1	12	53680216	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	218142	53680216	80171679	896	20224											
PFDN5	5204	broad.mit.edu	37	chr12	53691682	53691682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacacgtgctcatcgatGtgggaactgggtactatgta	10	11	13	7	2	1	0	1	0	0	0	2	3	1	2	0	3	4	3	0	3	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:53691682G>A	uc001scl.2	+	4	373	c.256G>A	c.(256-258)GTG>ATG	p.V86M	PFDN5_uc001scm.2_Missense_Mutation_p.V41M|PFDN5_uc001scn.2_RNA|PFDN5_uc001sco.2_RNA|C12orf10_uc010sof.1_5'Flank|C12orf10_uc001scp.3_5'Flank|C12orf10_uc009zmx.2_5'Flank|C12orf10_uc001scq.3_5'Flank	NM_002624	NP_002615	Q99471	PFD5_HUMAN	prefoldin subunit 5 isoform alpha	86					'de novo' posttranslational protein folding|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent	nucleus|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)	1						GCTCATCGATGTGGGAACTGG	0.507													51	120					0	0	0.01441	0	0		A	53691682	A	A	53691682	3	1	23	1	0	0	0	0	1	0	0	0	11777	1377	48	4	270	4	PFDN5	12	53691682	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	11466	53691682	80160213	897	20225											
MAP3K12	7786	broad.mit.edu	37	chr12	53876462	53876462	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttccagttcccagaagccCcacaccttcaccaggcccta	9	7	5	20	0	1	1	1	0	0	1	3	1	3	1	8	1	1	1	8	1	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:53876462C>A	uc001sdm.1	-	12	2124	c.2026G>T	c.(2026-2028)GGG>TGG	p.G676W	MAP3K12_uc001sdn.1_Missense_Mutation_p.G709W	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	676					histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						CCCAGAAGCCCCACACCTTCA	0.662													51	309					1.83081e-24	2.02619e-24	0.01441	1	0		A	53876462	A	A	53876462	3	1	23	1	0	0	0	0	1	0	0	0	9264	623	22	5	569	5	MAP3K12	12	53876462	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	184780	53876462	79975433	898	20226											
HOXC13	3229	broad.mit.edu	37	chr12	54338839	54338839	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgcgggcgcaagaaacgCgtgccctacactaaggtgca	10	4	14	13	6	0	1	0	0	0	1	0	1	0	1	1	3	4	2	1	3	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:54338839C>T	uc001sei.2	+	2	907	c.792C>T	c.(790-792)CGC>CGT	p.R264R	HOXC13_uc010sop.1_RNA	NM_017410	NP_059106	P31276	HXC13_HUMAN	homeobox C13	264	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						GCAAGAAACGCGTGCCCTACA	0.617			T	NUP98	AML								72	148					0	0	0.01441	0	0		T	54338839	T	T	54338839	2	4	23	1	0	0	0	0	0	0	0	1	7328	755	27	1		1	HOXC13	12	54338839	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	462377	54338839	79513056	899	20227											
NFE2	4778	broad.mit.edu	37	chr12	54686821	54686821	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctcaagagattcagcatcGctatagttgagggataatcc	13	10	10	8	1	2	2	2	1	0	1	4	4	3	3	1	1	2	4	1	1	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:54686821G>A	uc009znk.2	-	2	969	c.459C>T	c.(457-459)AGC>AGT	p.S153S	NFE2_uc001sfq.2_Silent_p.S153S|NFE2_uc001sfr.3_Silent_p.S153S|NFE2_uc009znl.2_Silent_p.S153S	NM_006163	NP_006154	Q16621	NFE2_HUMAN	nuclear factor, erythroid derived 2 isoform 1	153	Transactivation domain.				blood circulation|blood coagulation|multicellular organismal development|nucleosome disassembly|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	actin cytoskeleton|cytoplasm|PML body	protein dimerization activity|protein N-terminus binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|WW domain binding				0						ATTCAGCATCGCTATAGTTGA	0.567													37	156					0	0	0.006999	0	0		A	54686821	A	A	54686821	2	1	23	1	0	0	0	0	0	0	0	1	10385	1078	38	1		1	NFE2	12	54686821	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	347982	54686821	79165074	900	20228											
NCKAP1L	3071	broad.mit.edu	37	chr12	54925553	54925553	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgtgctaaagcgcatgAccatcattggggttatcctc	12	11	9	9	1	1	1	1	1	0	0	3	1	2	1	2	2	2	3	2	2	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:54925553A>G	uc001sgc.3	+	25	2804	c.2725A>G	c.(2725-2727)ACC>GCC	p.T909A	NCKAP1L_uc010sox.1_Missense_Mutation_p.T451A|NCKAP1L_uc010soy.1_Missense_Mutation_p.T859A	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	909					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						AAAGCGCATGACCATCATTGG	0.498													21	90					0	0	0.003954	0	0		G	54925553	G	G	54925553	3	3	23	1	0	0	0	0	1	0	0	0	10241	275	10	3	2823	3	NCKAP1L	12	54925553	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	238732	54925553	78926342	901	20229											
OR6C65	403282	broad.mit.edu	37	chr12	55794998	55794998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aattctgaagattccctctgCccagcaaaggaaaaaggctt	14	9	8	10	0	2	2	0	1	2	1	3	3	3	3	2	2	2	2	2	2	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:55794998C>T	uc010spl.1	+	1	686	c.686C>T	c.(685-687)GCC>GTC	p.A229V		NM_001005518	NP_001005518	A6NJZ3	O6C65_HUMAN	olfactory receptor, family 6, subfamily C,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATTCCCTCTGCCCAGCAAAGG	0.398													42	213					0	0	0.010771	0	0		T	55794998	T	T	55794998	3	4	23	1	0	0	0	0	1	0	0	0	11214	739	26	2	688	2	OR6C65	12	55794998	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	869445	55794998	78056897	902	20230											
OR6C2	341416	broad.mit.edu	37	chr12	55846033	55846033	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaataagaacttttatcctGctgggactgacaggtgaccc	11	11	10	9	0	0	3	0	2	0	1	1	4	1	4	2	2	2	2	2	2	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:55846033G>T	uc001sgz.1	+	1	36	c.36G>T	c.(34-36)CTG>CTT	p.L12L		NM_054105	NP_473446	Q9NZP2	OR6C2_HUMAN	olfactory receptor, family 6, subfamily C,	12	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CTTTTATCCTGCTGGGACTGA	0.398													19	104					9.95505e-16	1.08601e-15	0.014323	1	0		T	55846033	T	T	55846033	2	4	23	1	0	0	0	0	0	0	0	1	11210	1306	46	5		5	OR6C2	12	55846033	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	51035	55846033	78005862	903	20231											
ERBB3	2065	broad.mit.edu	37	chr12	56477656	56477656	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccttgagattgtgctcacGggacacaatgccgacctctc	10	9	9	13	2	2	1	1	1	1	1	3	4	2	2	3	1	3	1	3	1	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:56477656G>A	uc001sjh.2	+	2	397	c.204G>A	c.(202-204)ACG>ACA	p.T68T	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Silent_p.T9T|ERBB3_uc001sjg.2_Silent_p.T68T	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	68	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			TTGTGCTCACGGGACACAATG	0.547													67	169					0	0	0.01441	0	0		A	56477656	A	A	56477656	2	1	23	1	0	0	0	0	0	0	0	1	5216	1103	39	1		1	ERBB3	12	56477656	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	631623	56477656	77374239	904	20232											
ZC3H10	84872	broad.mit.edu	37	chr12	56515173	56515173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaacaaaatgctcagttccGcaatcaggccaaggtcataa	15	7	9	10	1	3	0	3	0	0	0	4	1	4	1	2	3	2	3	2	3	6	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:56515173G>A	uc001sjp.1	+	3	1016	c.827G>A	c.(826-828)CGC>CAC	p.R276H		NM_032786	NP_116175	Q96K80	ZC3HA_HUMAN	zinc finger CCCH-type containing 10	276	Potential.						nucleic acid binding|zinc ion binding				0			OV - Ovarian serous cystadenocarcinoma(18;0.12)			GCTCAGTTCCGCAATCAGGCC	0.537													14	81					0	0	0.00245	0	0		A	56515173	A	A	56515173	3	1	23	1	0	0	0	0	1	0	0	0	17584	1087	38	1	829	1	ZC3H10	12	56515173	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	37517	56515173	77336722	905	20233											
BAZ2A	11176	broad.mit.edu	37	chr12	56993616	56993616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcatcattgtcacccttcCggcagactagacatgtctgg	9	11	8	13	1	4	2	3	0	1	2	5	2	5	2	2	2	0	1	2	2	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:56993616C>T	uc001slq.1	-	26	5242	c.5048G>A	c.(5047-5049)CGG>CAG	p.R1683Q	BAZ2A_uc001slp.1_Missense_Mutation_p.R1681Q|BAZ2A_uc001slo.1_Missense_Mutation_p.R489Q|BAZ2A_uc009zov.1_Missense_Mutation_p.R649Q|BAZ2A_uc009zow.1_Missense_Mutation_p.R1651Q	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1683	PHD-type.				chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						GTCACCCTTCCGGCAGACTAG	0.582													4	29					0	0	0.009096	0	0		T	56993616	T	T	56993616	3	4	23	1	0	0	0	0	1	0	0	0	1332	652	23	1	685	1	BAZ2A	12	56993616	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	478443	56993616	76858279	906	20234											
ATP5B	506	broad.mit.edu	37	chr12	57033821	57033821	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctcactgccaacaatgttGggatccatgatacgagaggt	11	10	11	9	1	1	2	1	1	0	1	2	4	2	3	2	2	4	2	2	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:57033821G>T	uc001slr.2	-	8	1335	c.1230C>A	c.(1228-1230)CCC>CCA	p.P410P		NM_001686	NP_001677	P06576	ATPB_HUMAN	mitochondrial ATP synthase beta subunit	410					angiogenesis|ATP hydrolysis coupled proton transport|regulation of intracellular pH|respiratory electron transport chain	cell surface|mitochondrial nucleoid|mitochondrial proton-transporting ATP synthase, catalytic core|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|hydrogen-exporting ATPase activity, phosphorylative mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)	1						CAACAATGTTGGGATCCATGA	0.502													31	59					4.65686e-17	5.09676e-17	0.003755	1	0		T	57033821	T	T	57033821	2	4	23	1	0	0	0	0	0	0	0	1	1149	1335	47	5		5	ATP5B	12	57033821	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	40205	57033821	76818074	907	20235											
LRP1	4035	broad.mit.edu	37	chr12	57571281	57571281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatgagtggggctgggcGccgcaccgtgcaccgggaga	6	5	17	13	4	0	2	0	1	0	1	1	3	1	2	4	4	1	3	4	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:57571281G>A	uc001snd.2	+	26	4734	c.4268G>A	c.(4267-4269)CGC>CAC	p.R1423H		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1423	LDL-receptor class B 10.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity	p.R1423C(1)		ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GGGGCTGGGCGCCGCACCGTG	0.667													16	55					0	0	0.006122	0	0		A	57571281	A	A	57571281	3	1	23	1	0	0	0	0	1	0	0	0	8969	1087	38	1	4370	1	LRP1	12	57571281	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	537460	57571281	76280614	908	20236											
LRP1	4035	broad.mit.edu	37	chr12	57584720	57584720	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccatcgaccaccgtgcCgagaagctctacttctctga	8	9	9	15	3	2	2	0	1	2	1	4	4	2	2	4	1	3	1	4	1	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:57584720C>T	uc001snd.2	+	43	7630	c.7164C>T	c.(7162-7164)GCC>GCT	p.A2388A		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	2388	Extracellular (Potential).|LDL-receptor class B 23.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	ACCACCGTGCCGAGAAGCTCT	0.627													7	40					0	0	0.004482	0	0		T	57584720	T	T	57584720	2	4	23	1	0	0	0	0	0	0	0	1	8969	639	23	1		1	LRP1	12	57584720	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	13439	57584720	76267175	909	20237											
FAM19A2	338811	broad.mit.edu	37	chr12	62147455	62147455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctccatcctttccgatccGgaagaactttacattcttct	9	14	5	13	2	2	1	0	0	2	1	6	3	6	2	4	1	3	1	4	1	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:62147455G>A	uc001sqw.2	-	4	1845	c.332C>T	c.(331-333)CCG>CTG	p.P111L	FAM19A2_uc001sqv.2_RNA|FAM19A2_uc001sqx.2_Missense_Mutation_p.P111L|FAM19A2_uc001sqy.2_RNA	NM_178539	NP_848634	Q8N3H0	F19A2_HUMAN	family with sequence similarity 19 (chemokine	111						cytoplasm				ovary(1)	1			GBM - Glioblastoma multiforme(1;0.00484)	GBM - Glioblastoma multiforme(3;0.02)		TTTCCGATCCGGAAGAACTTT	0.408													28	68					0	0	0.00632	0	0		A	62147455	A	A	62147455	3	1	23	1	0	0	0	0	1	0	0	0	5543	1116	39	1	71	1	FAM19A2	12	62147455	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4562735	62147455	71704440	910	20238											
C12orf56	115749	broad.mit.edu	37	chr12	64784109	64784109	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccaggtcaatggccacGacgtcccgcagagccactac	10	5	9	17	3	2	1	2	0	0	1	3	2	3	1	4	2	2	1	4	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:64784109G>T	uc001ssa.3	-	1	237	c.237C>A	c.(235-237)GTC>GTA	p.V79V	uc001srx.2_Intron	NM_001099676	NP_001093146	Q8IXR9	CL056_HUMAN	hypothetical protein LOC115749	79											0			GBM - Glioblastoma multiforme(3;0.000582)	GBM - Glioblastoma multiforme(28;0.0259)		CAATGGCCACGACGTCCCGCA	0.677													10	23					2.27111e-07	2.37872e-07	0.013537	1	0		T	64784109	T	T	64784109	2	4	23	1	0	0	0	0	0	0	0	1	1703	1045	37	5		5	C12orf56	12	64784109	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2636654	64784109	69067786	911	20239											
IRAK3	11213	broad.mit.edu	37	chr12	66605356	66605356	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagattcaaaacctaacataTgctgtcaaattatttaaaca	18	12	4	7	0	2	1	2	0	0	1	2	2	2	1	1	0	4	1	1	0	8	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:66605356T>C	uc001sth.2	+	5	669	c.567T>C	c.(565-567)TAT>TAC	p.Y189Y	IRAK3_uc010ssy.1_Silent_p.Y128Y	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	189	Protein kinase.				interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		ACCTAACATATGCTGTCAAAT	0.308													10	105					0	0	0.010729	0	0		C	66605356	C	C	66605356	2	2	23	1	0	0	0	0	0	0	0	1	7840	1471	51	3		3	IRAK3	12	66605356	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1821247	66605356	67246539	912	20240											
MDM2	4193	broad.mit.edu	37	chr12	69229704	69229704	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaatttgaagttgaatctctCgactcagaagattatagcct	13	13	8	7	1	2	4	1	2	1	2	4	6	2	4	1	0	1	1	1	0	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:69229704C>T	uc001sui.2	+	9	1067	c.780C>T	c.(778-780)CTC>CTT	p.L260L	MDM2_uc009zri.2_Silent_p.L215L|MDM2_uc009zqx.2_Silent_p.L205L|MDM2_uc009zqw.2_Intron|MDM2_uc001suk.2_Intron|MDM2_uc009zqy.1_Silent_p.L249L|MDM2_uc001sun.3_Silent_p.L79L|MDM2_uc009zqz.2_Intron|MDM2_uc009zra.2_Silent_p.L84L|MDM2_uc001sum.1_Intron|MDM2_uc009zrd.2_5'UTR|MDM2_uc009zrc.2_Intron|MDM2_uc009zre.2_Intron|MDM2_uc009zrf.2_Intron|MDM2_uc001suo.2_Silent_p.L54L|MDM2_uc009zrg.2_Intron|MDM2_uc009zrh.2_Silent_p.L54L	NM_002392	NP_002383	Q00987	MDM2_HUMAN	mouse double minute 2 homolog isoform MDM2	254	ARF-binding.|Asp/Glu-rich (acidic).|Interaction with MTBP (By similarity).|Region II.				cellular response to hypoxia|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|establishment of protein localization|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein complex assembly|protein destabilization|protein localization to nucleus|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to antibiotic|synaptic transmission	cytosol|endocytic vesicle membrane|insoluble fraction|nucleolus|nucleoplasm|plasma membrane|protein complex	enzyme binding|identical protein binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|central_nervous_system(1)	3	all_cancers(1;8.46e-121)|all_epithelial(5;3.21e-36)|Lung NSC(4;2.16e-33)|all_lung(4;3.03e-31)|Glioma(1;1.9e-09)|Breast(13;1.59e-06)|all_neural(1;1.03e-05)|Melanoma(1;0.0171)|Renal(347;0.0684)		all cancers(2;8.67e-65)|GBM - Glioblastoma multiforme(2;8.89e-62)|BRCA - Breast invasive adenocarcinoma(5;2.43e-08)|Lung(24;1.5e-05)|LUAD - Lung adenocarcinoma(15;8.5e-05)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			TTGAATCTCTCGACTCAGAAG	0.353			A		sarcoma|glioma|colorectal|other								25	133					0	0	0.003954	0	0		T	69229704	T	T	69229704	2	4	23	1	0	0	0	0	0	0	0	1	9431	871	31	1		1	MDM2	12	69229704	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2624348	69229704	64622191	913	20241											
YEATS4	8089	broad.mit.edu	37	chr12	69783974	69783974	+	Frame_Shift_Del	DEL	A	-	-																															aaaaattagaagctgctaagAaaaaaacaagctttgagatt																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:69783974delA	uc001sux.2	+	7	783	c.562delA	c.(562-564)AAAfs	p.K188fs		NM_006530	NP_006521	O95619	YETS4_HUMAN	glioma-amplified sequence-41	188	Interaction with MLLT10.|Potential.|Interaction with TACC1.				histone H2A acetylation|histone H4 acetylation|mitosis|positive regulation of transcription, DNA-dependent|regulation of growth	NuA4 histone acetyltransferase complex|nuclear matrix	DNA binding|protein C-terminus binding|sequence-specific DNA binding transcription factor activity|structural constituent of cytoskeleton				0	all_epithelial(5;9.25e-35)|Breast(13;9.83e-07)|Esophageal squamous(21;0.187)		Epithelial(6;6.89e-18)|BRCA - Breast invasive adenocarcinoma(5;3.14e-09)|Lung(24;9.68e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|OV - Ovarian serous cystadenocarcinoma(12;0.00691)|STAD - Stomach adenocarcinoma(21;0.0151)|LUSC - Lung squamous cell carcinoma(43;0.24)|Kidney(9;0.241)			AGCTGCTAAGAAAAAAACAAG	0.289													15	31	---	---	---	---						.	-	69783974	-	-	69783974	7	5	23	1	0	1	0	1	0	0	0	0	17499	247	9	0	588	0	YEATS4	12	69783974	Frame_Shift_Del	DEL	A	TCGA-BR-4368-01A-01D-1158-08	554270	69783974	64067921	914	20242											
RAB3IP	117177	broad.mit.edu	37	chr12	70194001	70194001	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgttaggctgacttatccTtgtataatgaattccgattg	9	18	8	6	1	0	2	0	2	0	0	2	3	2	2	2	1	0	3	2	1	5	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:70194001T>G	uc001svp.2	+	7	1396	c.949T>G	c.(949-951)TTG>GTG	p.L317V	RAB3IP_uc001svm.2_Missense_Mutation_p.L301V|RAB3IP_uc001svn.2_Missense_Mutation_p.L301V|RAB3IP_uc001svo.2_Intron|RAB3IP_uc001svq.2_Missense_Mutation_p.L317V|RAB3IP_uc001svr.2_RNA|RAB3IP_uc001svs.2_Intron|RAB3IP_uc001svt.2_Missense_Mutation_p.L95V	NM_175623	NP_783322	Q96QF0	RAB3I_HUMAN	RAB3A interacting protein isoform alpha 2	317					cilium assembly|Golgi to plasma membrane transport|protein localization to organelle|protein transport	actin cortical patch|centrosome|cytosol|lamellipodium|microtubule basal body|nucleus	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Esophageal squamous(21;0.187)		Lung(24;0.000381)|OV - Ovarian serous cystadenocarcinoma(12;0.00168)|STAD - Stomach adenocarcinoma(21;0.00694)			TGACTTATCCTTGTATAATGA	0.343													12	64					0	0	0.013537	0	0		G	70194001	G	G	70194001	3	3	23	1	0	0	0	0	1	0	0	0	12963	1606	56	5	975	5	RAB3IP	12	70194001	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	410027	70194001	63657894	915	20243											
LGR5	8549	broad.mit.edu	37	chr12	71966693	71966693	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttccagcagttgcttagcctCcgatcgctgtgagtatcacc	7	12	9	13	2	1	1	1	1	0	0	4	2	3	1	4	0	3	5	4	0	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:71966693C>T	uc001swl.2	+	13	1248	c.1200C>T	c.(1198-1200)CTC>CTT	p.L400L	LGR5_uc001swm.2_Silent_p.L376L|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	400	LRR 15.|Extracellular (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						TGCTTAGCCTCCGATCGCTGT	0.418													4	135					0	0	0.000602	0	0		T	71966693	T	T	71966693	2	4	23	1	0	0	0	0	0	0	0	1	8773	842	30	4		4	LGR5	12	71966693	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1772692	71966693	61885202	916	20244											
KCNC2	3747	broad.mit.edu	37	chr12	75442042	75442042	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctagagcgtctgatggggagCctttctgggggtgatagtgg	6	11	18	6	1	2	3	0	2	2	1	2	4	2	4	1	5	2	0	1	5	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:75442042C>T	uc001sxg.1	-	4	2215	c.1671G>A	c.(1669-1671)AGG>AGA	p.R557R	KCNC2_uc009zry.2_Silent_p.R557R|KCNC2_uc001sxe.2_Silent_p.R557R|KCNC2_uc001sxf.2_Intron|KCNC2_uc010stw.1_Intron	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	557	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						TGATGGGGAGCCTTTCTGGGG	0.507													5	172					0	0	0.000602	0	0		T	75442042	T	T	75442042	2	4	23	1	0	0	0	0	0	0	0	1	8031	738	26	2		2	KCNC2	12	75442042	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3475349	75442042	58409853	917	20245											
E2F7	144455	broad.mit.edu	37	chr12	77436967	77436967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattggctatgtcatagaggCgtcgtacctttgcttgaaga	9	13	11	8	2	1	3	1	1	0	2	2	3	1	3	1	2	2	3	1	2	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:77436967C>T	uc001sym.3	-	7	1237	c.1001G>A	c.(1000-1002)CGC>CAC	p.R334H		NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	334	Potential.			R->A: Loss of DNA-binding and inhibition of E2F1-dependent activation.	cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						GTCATAGAGGCGTCGTACCTT	0.463													15	116					0	0	0.003163	0	0		T	77436967	T	T	77436967	3	4	23	1	0	0	0	0	1	0	0	0	4878	768	27	1	1762	1	E2F7	12	77436967	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1994925	77436967	56414928	918	20246											
PPFIA2	8499	broad.mit.edu	37	chr12	81799628	81799628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctgactctgtggatccctCgcttgatgccatttttcttt	4	19	7	11	1	3	2	0	2	3	0	5	3	4	3	2	1	1	1	2	1	0	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:81799628C>T	uc001szo.1	-	8	861	c.700G>A	c.(700-702)GAG>AAG	p.E234K	PPFIA2_uc010sue.1_Missense_Mutation_p.E134K|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	160										ovary(3)|lung(2)|pancreas(1)	6						GTGGATCCCTCGCTTGATGCC	0.398													3	13					0	0	0.004672	0	0		T	81799628	T	T	81799628	3	4	23	1	0	0	0	0	1	0	0	0	12329	893	31	1	3173	1	PPFIA2	12	81799628	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4362661	81799628	52052267	919	20247											
VEZT	55591	broad.mit.edu	37	chr12	95694231	95694231	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcagatggaagtggtctgAccactgcccctccaactccc	10	7	9	15	0	1	2	0	1	1	1	3	3	3	3	5	2	3	1	5	2	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:95694231A>G	uc001tdz.2	+	12	2227	c.2122A>G	c.(2122-2124)ACC>GCC	p.T708A	VEZT_uc009ztb.1_RNA|VEZT_uc009ztc.1_Missense_Mutation_p.T73A|VEZT_uc001tdy.2_RNA	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	708						acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						AAGTGGTCTGACCACTGCCCC	0.493													10	53					0	0	0.006214	0	0		G	95694231	G	G	95694231	3	3	23	1	0	0	0	0	1	0	0	0	17182	275	10	3	2168	3	VEZT	12	95694231	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	13894603	95694231	38157664	920	20248											
CCDC38	120935	broad.mit.edu	37	chr12	96275317	96275317	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaaactgtcttctgaaccGaaactttcagccaggctgta	11	11	7	12	1	3	1	1	1	2	0	4	2	4	1	3	1	4	2	3	1	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:96275317G>A	uc001tek.1	-	11	1170	c.936C>T	c.(934-936)TTC>TTT	p.F312F		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	312										skin(1)	1						CTTCTGAACCGAAACTTTCAG	0.343													26	29					0	0	0.005443	0	0		A	96275317	A	A	96275317	2	1	23	1	0	0	0	0	0	0	0	1	2813	1049	37	1		1	CCDC38	12	96275317	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	581086	96275317	37576578	921	20249											
CCDC38	120935	broad.mit.edu	37	chr12	96300205	96300205	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggtcattaataaattcaTggacagtcctttttgtgtcg	9	17	8	7	1	3	0	2	0	1	0	5	1	4	1	1	2	0	0	1	2	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:96300205T>C	uc001tek.1	-	5	563	c.329A>G	c.(328-330)CAT>CGT	p.H110R		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	110										skin(1)	1						AATAAATTCATGGACAGTCCT	0.343													12	97					0	0	0.003163	0	0		C	96300205	C	C	96300205	3	2	23	1	0	0	0	0	1	0	0	0	2813	1464	51	3	1410	3	CCDC38	12	96300205	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	24888	96300205	37551690	922	20250											
FICD	11153	broad.mit.edu	37	chr12	108913233	108913233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactctgggttcaaggagaCgcttcctgtgaagccctaac	9	9	10	13	1	2	2	1	1	1	1	3	3	3	2	3	2	2	2	3	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:108913233C>T	uc001tmx.1	+	3	1504	c.1358C>T	c.(1357-1359)ACG>ATG	p.T453M		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	453					negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0						TTCAAGGAGACGCTTCCTGTG	0.488													22	23					0	0	0.00333	0	0		T	108913233	T	T	108913233	3	4	23	1	0	0	0	0	1	0	0	0	5901	536	19	1	1364	1	FICD	12	108913233	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	12613028	108913233	24938662	923	20251											
CORO1C	23603	broad.mit.edu	37	chr12	109041214	109041214	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatctgctgttctaactTggaaatacgctcatcttgat	9	15	7	10	1	4	1	1	1	3	0	4	2	4	2	1	1	4	3	1	1	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:109041214T>C	uc001tnj.2	-	11	1486	c.1390A>G	c.(1390-1392)AAG>GAG	p.K464E	CORO1C_uc009zva.2_Missense_Mutation_p.K517E|CORO1C_uc010sxf.1_Missense_Mutation_p.K427E	NM_014325	NP_055140	Q9ULV4	COR1C_HUMAN	coronin, actin binding protein, 1C isoform 1	464	Potential.				actin cytoskeleton organization|phagocytosis|signal transduction	actin cytoskeleton	actin filament binding			skin(3)	3						TGTTCTAACTTGGAAATACGC	0.403													91	178					0	0	0.01441	0	0		C	109041214	C	C	109041214	3	2	23	1	0	0	0	0	1	0	0	0	3758	1821	63	3	38	3	CORO1C	12	109041214	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	127981	109041214	24810681	924	20252											
ALKBH2	121642	broad.mit.edu	37	chr12	109526014	109526014	+	Frame_Shift_Del	DEL	T	-	-																															aactgttaaaaatgtttttaTtttttagtaagcaaaatttt																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:109526014delT	uc001tnx.2	-	4	1176	c.783delA	c.(781-783)AAAfs	p.K261fs	ALKBH2_uc001tny.2_Frame_Shift_Del_p.K261fs|ALKBH2_uc010sxj.1_Frame_Shift_Del_p.K261fs|ALKBH2_uc009zvd.2_3'UTR|ALKBH2_uc010sxk.1_3'UTR	NM_001145374	NP_001138846	Q6NS38	ALKB2_HUMAN	AlkB homolog 2	261					DNA dealkylation involved in DNA repair|oxidative DNA demethylation	nucleoplasm	cytosine C-5 DNA demethylase activity|damaged DNA binding|DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0					Vitamin C(DB00126)	AATGTTTTTATTTTTTAGTAA	0.418								Direct_reversal_of_damage					51	96	---	---	---	---						.	-	109526014	-	-	109526014	7	5	23	1	0	1	0	1	0	0	0	0	527	1490	52	0	6	0	ALKBH2	12	109526014	Frame_Shift_Del	DEL	T	TCGA-BR-4368-01A-01D-1158-08	484800	109526014	24325881	925	20253											
CUX2	23316	broad.mit.edu	37	chr12	111729244	111729244	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgcctgtgtttgaggcGgcacgcagcctagacgacag	7	7	14	13	4	0	2	0	1	0	1	0	3	0	2	3	2	2	3	3	2	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:111729244G>A	uc001tsa.1	+	5	477	c.324G>A	c.(322-324)GCG>GCA	p.A108A	CUX2_uc001tsb.1_Silent_p.A163A	NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	108						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						TGTTTGAGGCGGCACGCAGCC	0.652													56	96					0	0	0.01441	0	0		A	111729244	A	A	111729244	2	1	23	1	0	0	0	0	0	0	0	1	4068	1103	39	1		1	CUX2	12	111729244	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2203230	111729244	22122651	926	20254											
CUX2	23316	broad.mit.edu	37	chr12	111758485	111758485	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccgagcagtacgagctgtAcatgtaccgtgaggtagaca	11	7	12	11	3	0	2	0	1	0	1	0	4	0	2	3	1	5	6	3	1	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:111758485A>G	uc001tsa.1	+	17	2825	c.2672A>G	c.(2671-2673)TAC>TGC	p.Y891C		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	891	CUT 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						TACGAGCTGTACATGTACCGT	0.667													5	25					0	0	0.001168	0	0		G	111758485	G	G	111758485	3	3	23	1	0	0	0	0	1	0	0	0	4068	391	14	3	2738	3	CUX2	12	111758485	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	29241	111758485	22093410	927	20255											
PTPN11	5781	broad.mit.edu	37	chr12	112924286	112924286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctctactccaggggaataCggagagaacggtctggcaat	11	7	14	9	2	2	1	0	0	2	1	3	4	3	3	1	6	3	2	1	6	5	2	rs121918467		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:112924286C>T	uc001ttx.2	+	11	1612	c.1232C>T	c.(1231-1233)ACG>ATG	p.T411M	PTPN11_uc001ttw.1_Missense_Mutation_p.T411M	NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	415	Tyrosine-protein phosphatase.		T -> M (in NS1).		axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding			haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						CAGGGGAATACGGAGAGAACG	0.527			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				12	75					0	0	0.001855	0	0		T	112924286	T	T	112924286	3	4	23	1	0	0	0	0	1	0	0	0	12803	536	19	1	1274	1	PTPN11	12	112924286	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1165801	112924286	20927609	928	20256											
NOS1	4842	broad.mit.edu	37	chr12	117655869	117655869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcatcggtgtcttttttgCtctcttcaatgaaggcaatg	8	16	8	9	1	4	1	2	1	2	0	6	1	4	1	0	2	1	2	0	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:117655869C>T	uc001twm.1	-	28	4957	c.4271G>A	c.(4270-4272)AGC>AAC	p.S1424N		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1424					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GTCTTTTTTGCTCTCTTCAAT	0.507													39	390					0	0	0.005524	0	0		T	117655869	T	T	117655869	3	4	23	1	0	0	0	0	1	0	0	0	10560	797	28	2	41	2	NOS1	12	117655869	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4731583	117655869	16196026	929	20257											
NOS1	4842	broad.mit.edu	37	chr12	117705943	117705943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctaagttcatcttcttggCcacttcctgaaagaggaagg	10	12	10	9	0	4	2	1	1	3	1	5	3	5	3	2	3	0	1	2	3	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:117705943C>T	uc001twm.1	-	11	2532	c.1846G>A	c.(1846-1848)GCC>ACC	p.A616T		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	616					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	ATCTTCTTGGCCACTTCCTGA	0.473													13	60					0	0	0.013537	0	0		T	117705943	T	T	117705943	3	4	23	1	0	0	0	0	1	0	0	0	10560	739	26	2	2534	2	NOS1	12	117705943	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	50074	117705943	16145952	930	20258											
CIT	11113	broad.mit.edu	37	chr12	120210640	120210640	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggttctgcagcttctccagCtccctctcggctcgctcctt	2	13	8	18	3	3	0	0	0	3	0	8	0	5	0	3	2	3	6	3	2	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:120210640C>T	uc001txi.1	-	17	2069	c.2016G>A	c.(2014-2016)GAG>GAA	p.E672E	CIT_uc001txh.1_Silent_p.E206E|CIT_uc001txj.1_Silent_p.E672E	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	672	Potential.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		GCTTCTCCAGCTCCCTCTCGG	0.582													63	259					0	0	0.01441	0	0		T	120210640	T	T	120210640	2	4	23	1	0	0	0	0	0	0	0	1	3441	796	28	2		2	CIT	12	120210640	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2504697	120210640	13641255	931	20259											
RNF10	9921	broad.mit.edu	37	chr12	120990439	120990439	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaggcagtggacatggtagCtggggaaagaggaacaagtg	14	5	18	4	0	0	1	0	0	0	1	0	5	0	4	0	6	2	3	0	6	5	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:120990439C>T	uc001typ.3	+	3	975	c.492C>T	c.(490-492)AGC>AGT	p.S164S	RNF10_uc010szk.1_RNA|RNF10_uc001tyq.3_Silent_p.S70S	NM_014868	NP_055683	Q8N5U6	RNF10_HUMAN	ring finger protein 10	164	Interaction with MEOX2.				negative regulation of Schwann cell proliferation|positive regulation of myelination|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GACATGGTAGCTGGGGAAAGA	0.473													30	68					0	0	0.009535	0	0		T	120990439	T	T	120990439	2	4	23	1	0	0	0	0	0	0	0	1	13447	796	28	2		2	RNF10	12	120990439	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	779799	120990439	12861456	932	20260											
ANAPC5	51433	broad.mit.edu	37	chr12	121765029	121765029	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggcctgttgcagtgccAtggtgctgggtggggagagg	4	10	20	7	0	1	1	0	0	1	1	1	2	1	1	2	6	3	3	2	6	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:121765029A>G	uc001uag.2	-	11	1432	c.1310T>C	c.(1309-1311)ATG>ACG	p.M437T	ANAPC5_uc010szu.1_Missense_Mutation_p.M103T|ANAPC5_uc001uae.2_Missense_Mutation_p.M1T|ANAPC5_uc010szv.1_Missense_Mutation_p.M39T|ANAPC5_uc001uaf.2_RNA|ANAPC5_uc001uah.2_Missense_Mutation_p.M325T|ANAPC5_uc001uai.1_Missense_Mutation_p.M39T	NM_016237	NP_057321	Q9UJX4	APC5_HUMAN	anaphase-promoting complex subunit 5 isoform a	437					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding|ubiquitin-protein ligase activity			skin(3)|breast(2)|kidney(1)	6	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TTGCAGTGCCATGGTGCTGGG	0.582													4	58					0	0	0.000602	0	0		G	121765029	G	G	121765029	3	3	23	1	0	0	0	0	1	0	0	0	605	217	8	3	985	3	ANAPC5	12	121765029	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	774590	121765029	12086866	933	20261											
KDM2B	84678	broad.mit.edu	37	chr12	121880054	121880054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacctccctgtgcatgaCgtgggctgccccatcgtcca	6	8	9	18	2	0	1	0	1	0	0	3	1	2	1	6	1	2	2	6	1	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:121880054C>T	uc001uat.2	-	19	3294	c.3190G>A	c.(3190-3192)GTC>ATC	p.V1064I	KDM2B_uc001uaq.2_Missense_Mutation_p.V504I|KDM2B_uc010szy.1_Missense_Mutation_p.V504I|KDM2B_uc001uar.2_Missense_Mutation_p.V655I|KDM2B_uc001uas.2_Missense_Mutation_p.V995I|KDM2B_uc001uau.2_Intron|KDM2B_uc001uao.2_Missense_Mutation_p.V312I|KDM2B_uc010szx.1_Missense_Mutation_p.V312I|KDM2B_uc001uap.2_RNA	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	1064	F-box.				embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						CTGTGCATGACGTGGGCTGCC	0.652													9	22					0	0	0.006214	0	0		T	121880054	T	T	121880054	3	4	23	1	0	0	0	0	1	0	0	0	8141	536	19	1	892	1	KDM2B	12	121880054	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	115025	121880054	11971841	934	20262											
VPS33A	65082	broad.mit.edu	37	chr12	122751031	122751031	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaccacggacgcagtcaCgtgaccaaacgtccacgtga	12	4	12	13	5	1	2	1	2	0	0	2	5	2	4	3	2	1	1	3	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:122751031C>T	uc001ucd.2	-	1	38	c.-75G>A	c.(-77--73)ACGTG>ACATG		VPS33A_uc001ucc.2_RNA|VPS33A_uc001uce.2_Translation_Start_Site	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A						lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		GACGCAGTCACGTGACCAAAC	0.652													4	19					0	0	0.001984	0	0		T	122751031	T	T	122751031	1	4	23	1	0	0	0	0	0	0	0	0	17227	551	19	1		1	VPS33A	12	122751031	Translation_Start_Site	SNP	C	TCGA-BR-4368-01A-01D-1158-08	870977	122751031	11100864	935	20263											
CCDC62	84660	broad.mit.edu	37	chr12	123290732	123290732	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccaagattcccactctttgGgttcttcaaaatctgccttg	8	15	6	12	0	4	1	1	0	3	1	6	1	6	1	3	1	1	1	3	1	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:123290732G>T	uc001udc.2	+	10	1886	c.1741G>T	c.(1741-1743)GGT>TGT	p.G581C	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Missense_Mutation_p.G581C|CCDC62_uc001ude.2_Missense_Mutation_p.G342C	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	581						cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		CCACTCTTTGGGTTCTTCAAA	0.358													61	108					2.73361e-28	3.03534e-28	0.01441	1	0		T	123290732	T	T	123290732	3	4	23	1	0	0	0	0	1	0	0	0	2836	1232	43	5	1779	5	CCDC62	12	123290732	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	539701	123290732	10561163	936	20264											
DNAH10	196385	broad.mit.edu	37	chr12	124305198	124305198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgtcaggaactggctaacGctgagaaacttttcgatctt	10	11	10	10	3	2	1	1	1	1	1	3	4	2	2	1	2	3	2	1	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:124305198G>A	uc001uft.3	+	23	3743	c.3718G>A	c.(3718-3720)GCT>ACT	p.A1240T		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1240	TPR 1.|Stem (By similarity).|Potential.				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		ACTGGCTAACGCTGAGAAACT	0.428													6	108					0	0	0.00308	0	0		A	124305198	A	A	124305198	3	1	23	1	0	0	0	0	1	0	0	0	4604	1087	38	1	3808	1	DNAH10	12	124305198	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1014466	124305198	9546697	937	20265											
BRI3BP	140707	broad.mit.edu	37	chr12	125497154	125497154	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acactgtggaaagtctggacCgagctcttggatgttcttgg	8	12	13	8	1	3	0	0	0	3	0	3	4	3	3	1	4	1	2	1	4	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:125497154C>T	uc001uha.1	+	2	431	c.288C>T	c.(286-288)ACC>ACT	p.T96T		NM_080626	NP_542193	Q8WY22	BRI3B_HUMAN	BRI3-binding protein	96						integral to membrane|mitochondrial outer membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.35e-05)|Epithelial(86;0.000426)|all cancers(50;0.00576)		AAGTCTGGACCGAGCTCTTGG	0.483													107	255					0	0	0.01441	0	0		T	125497154	T	T	125497154	2	4	23	1	0	0	0	0	0	0	0	1	1516	639	23	1		1	BRI3BP	12	125497154	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1191956	125497154	8354741	938	20266											
GPR133	283383	broad.mit.edu	37	chr12	131593289	131593289	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accccctgccaagtgatggcCgtgctcctacactacttctt	7	11	7	16	1	1	1	0	1	1	0	2	1	2	1	5	1	4	1	5	1	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:131593289C>T	uc001uit.3	+	18	2467	c.1908C>T	c.(1906-1908)GCC>GCT	p.A636A	GPR133_uc010tbm.1_Silent_p.A668A|GPR133_uc009zyo.2_Intron|GPR133_uc001uiv.1_Silent_p.A155A|GPR133_uc009zyp.2_RNA	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	636	Helical; Name=3; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		AAGTGATGGCCGTGCTCCTAC	0.577													82	313					0	0	0.01441	0	0		T	131593289	T	T	131593289	2	4	23	1	0	0	0	0	0	0	0	1	6658	639	23	1		1	GPR133	12	131593289	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	6096135	131593289	2258606	939	20267											
MMP17	4326	broad.mit.edu	37	chr12	132329951	132329951	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctggacagcgtggacgcCgtgtacgagcgcaccagcga	9	4	14	14	6	0	0	0	0	0	0	0	4	0	2	3	2	4	2	3	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:132329951C>T	uc001ujc.1	+	8	1260	c.1161C>T	c.(1159-1161)GCC>GCT	p.A387A	MMP17_uc001ujd.1_Silent_p.A303A	NM_016155	NP_057239	Q9ULZ9	MMP17_HUMAN	matrix metalloproteinase 17 preproprotein	387	Hemopexin-like 2.				proteolysis	anchored to membrane|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.82e-07)|Epithelial(86;1.51e-06)|all cancers(50;2.35e-05)		GCGTGGACGCCGTGTACGAGC	0.692													13	20					0	0	0.001855	0	0		T	132329951	T	T	132329951	2	4	23	1	0	0	0	0	0	0	0	1	9674	639	23	1		1	MMP17	12	132329951	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	736662	132329951	1521944	940	20268											
EP400	57634	broad.mit.edu	37	chr12	132547164	132547164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcaacagacgacgaCgacctctcaggtgcaagttc	12	5	11	13	3	1	1	1	0	1	1	3	4	1	1	1	1	4	5	1	1	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:132547164C>T	uc001ujn.2	+	46	8287	c.8252C>T	c.(8251-8253)ACG>ATG	p.T2751M	EP400_uc001ujl.2_Missense_Mutation_p.T2750M|EP400_uc001ujm.2_Missense_Mutation_p.T2670M|EP400_uc001ujp.2_Translation_Start_Site	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2787	Interaction with ZNF42 (By similarity).				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		cagACGACGACGACCTCTCAG	0.343													9	22					0	0	0.006214	0	0		T	132547164	T	T	132547164	3	4	23	1	0	0	0	0	1	0	0	0	5157	536	19	1	8431	1	EP400	12	132547164	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	217213	132547164	1304731	941	20269											
GOLGA3	2802	broad.mit.edu	37	chr12	133381582	133381582	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagggcggccagctgggcCtgcagctcagccttctcttt	4	10	13	14	1	2	1	1	1	1	0	3	1	2	1	3	3	4	3	3	3	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:133381582C>A	uc001ukz.1	-	7	1876	c.1317G>T	c.(1315-1317)CAG>CAT	p.Q439H	GOLGA3_uc001ula.1_Missense_Mutation_p.Q439H|GOLGA3_uc001ulb.2_Missense_Mutation_p.Q439H	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	439	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CCAGCTGGGCCTGCAGCTCAG	0.557													17	34					2.27731e-05	2.35149e-05	0.012319	1	0		A	133381582	A	A	133381582	3	1	23	1	0	0	0	0	1	0	0	0	6569	680	24	5	3389	5	GOLGA3	12	133381582	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	834418	133381582	470313	942	20270											
GOLGA3	2802	broad.mit.edu	37	chr12	133385003	133385003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcccaccttaggcccccgagGgacactggtgcgcaggaagg	8	4	15	14	2	0	0	0	0	0	0	0	3	0	2	4	5	1	1	4	5	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr12:133385003G>A	uc001ukz.1	-	5	1211	c.652C>T	c.(652-654)CCT>TCT	p.P218S	GOLGA3_uc001ula.1_Missense_Mutation_p.P218S|GOLGA3_uc001ulb.2_Missense_Mutation_p.P218S	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	218	Golgi-targeting domain.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GGCCCCCGAGGGACACTGGTG	0.517													99	464					0	0	0.01441	0	0		A	133385003	A	A	133385003	3	1	23	1	0	0	0	0	1	0	0	0	6569	1232	43	4	4062	4	GOLGA3	12	133385003	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3421	133385003	466892	943	20271											
PSPC1	55269	broad.mit.edu	37	chr13	20279895	20279895	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccattggtgggccaggtatAgttgctctgttgttcatatt	6	16	11	8	0	2	0	1	0	1	0	2	0	2	0	2	3	1	5	2	3	3	8			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:20279895A>G	uc001uml.2	-	8	1479	c.1293T>C	c.(1291-1293)ACT>ACC	p.T431T	PSPC1_uc001umj.1_Intron|PSPC1_uc001umk.1_Intron	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	431	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		GGCCAGGTATAGTTGCTCTGT	0.483													8	114					0	0	0.010729	0	0		G	20279895	G	G	20279895	2	3	23	1	0	0	0	0	0	0	0	1	12738	407	15	3		3	PSPC1	13	20279895	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08		20279895	94889983	944	20272											
LATS2	26524	broad.mit.edu	37	chr13	21563291	21563291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaaaggtagtccacgtacgGccgcggcatctcctccagcg	9	6	12	14	5	1	0	0	0	1	0	4	1	3	0	4	3	2	3	4	3	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:21563291G>A	uc009zzs.2	-	4	993	c.628C>T	c.(628-630)CCG>TCG	p.P210S	LATS2_uc001unr.3_Missense_Mutation_p.P210S	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	210					cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		TCCACGTACGGCCGCGGCATC	0.701													10	44					0	0	0.010729	0	0		A	21563291	A	A	21563291	3	1	23	1	0	0	0	0	1	0	0	0	8663	1203	42	2	2658	2	LATS2	13	21563291	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1283396	21563291	93606587	945	20273											
SACS	26278	broad.mit.edu	37	chr13	23911749	23911749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtaacacgaagaactcccGagaactcatcaactttttca	15	9	6	11	2	3	2	3	0	0	2	4	5	4	2	1	0	4	1	1	0	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:23911749G>A	uc001uon.2	-	10	6855	c.6266C>T	c.(6265-6267)TCG>TTG	p.S2089L	SACS_uc001uoo.2_Missense_Mutation_p.S1942L|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2089					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AAGAACTCCCGAGAACTCATC	0.383													15	56					0	0	0.003163	0	0		A	23911749	A	A	23911749	3	1	23	1	0	0	0	0	1	0	0	0	13829	1059	37	1	7477	1	SACS	13	23911749	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2348458	23911749	91258129	946	20274											
CENPJ	55835	broad.mit.edu	37	chr13	25473679	25473679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttaaactcttctattcgagCtaattcttttgctttctgtt	7	22	4	8	1	4	0	0	0	4	0	5	1	4	0	0	0	3	3	0	0	4	11			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:25473679C>T	uc001upt.3	-	9	3122	c.2869G>A	c.(2869-2871)GCT>ACT	p.A957T	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA|CENPJ_uc001upu.2_5'UTR	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	957					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		TCTATTCGAGCTAATTCTTTT	0.368													9	39					0	0	0.004482	0	0		T	25473679	T	T	25473679	3	4	23	1	0	0	0	0	1	0	0	0	3237	797	28	2	1183	2	CENPJ	13	25473679	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1561930	25473679	89696199	947	20275											
MTMR6	9107	broad.mit.edu	37	chr13	25828013	25828013	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgaattcaaaggcttgtGgaaactgttcggtcaaatgc	12	11	10	8	1	2	1	2	1	0	0	3	2	2	2	0	3	2	2	0	3	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:25828013G>A	uc001uqf.3	-	11	1554	c.1235C>T	c.(1234-1236)CCA>CTA	p.P412L	MTMR6_uc001uqe.1_Missense_Mutation_p.P412L	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	412	Myotubularin phosphatase.					cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		AAAGGCTTGTGGAAACTGTTC	0.438													15	65					0	0	0.003163	0	0		A	25828013	A	A	25828013	3	1	23	1	0	0	0	0	1	0	0	0	9965	1348	47	4	646	4	MTMR6	13	25828013	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	354334	25828013	89341865	948	20276											
USP12	219333	broad.mit.edu	37	chr13	27664254	27664254	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgatgtattttgttccacGtcaacagaaaggtctaaaaa	15	13	7	6	1	2	2	1	1	1	1	3	2	3	2	1	1	1	2	1	1	6	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:27664254G>A	uc001uqy.2	-	5	868	c.615C>T	c.(613-615)GAC>GAT	p.D205D		NM_182488	NP_872294	O75317	UBP12_HUMAN	ubiquitin thiolesterase 12	205					protein deubiquitination|ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)	1		Lung SC(185;0.0161)		all cancers(112;0.0508)|GBM - Glioblastoma multiforme(144;0.168)|Epithelial(112;0.244)|OV - Ovarian serous cystadenocarcinoma(117;0.246)		TTTGTTCCACGTCAACAGAAA	0.269													12	54					0	0	0.003163	0	0		A	27664254	A	A	27664254	2	1	23	1	0	0	0	0	0	0	0	1	17069	1136	40	1		1	USP12	13	27664254	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1836241	27664254	87505624	949	20277											
SLC7A1	6541	broad.mit.edu	37	chr13	30097437	30097437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagggagcccacggccaCtgcgtacttggcaccttccc	7	6	12	16	2	0	1	0	0	0	1	1	2	1	2	4	3	3	3	4	3	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:30097437C>T	uc001uso.2	-	7	1402	c.1015G>A	c.(1015-1017)GTG>ATG	p.V339M		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	339	Helical; (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	CCCACGGCCACTGCGTACTTG	0.622													31	151					0	0	0.013726	0	0		T	30097437	T	T	30097437	3	4	23	1	0	0	0	0	1	0	0	0	14717	565	20	4	902	4	SLC7A1	13	30097437	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2433183	30097437	85072441	950	20278											
STARD13	90627	broad.mit.edu	37	chr13	33704275	33704275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgctctcactgctggtcGtgttcctcatccccgtgcct	3	12	10	16	3	2	0	2	0	1	0	6	1	4	1	4	2	2	3	4	2	0	1	rs149234861	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:33704275G>A	uc001uuw.2	-	5	665	c.539C>T	c.(538-540)ACG>ATG	p.T180M	STARD13_uc001uuu.2_Missense_Mutation_p.T172M|STARD13_uc001uuv.2_Missense_Mutation_p.T62M|STARD13_uc001uux.2_Missense_Mutation_p.T145M|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Missense_Mutation_p.T165M	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	180					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		ACTGCTGGTCGTGTTCCTCAT	0.622													12	35					0	0	0.010729	0	0		A	33704275	A	A	33704275	3	1	23	1	0	0	0	0	1	0	0	0	15281	1145	40	1	2842	1	STARD13	13	33704275	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3606838	33704275	81465603	951	20279											
POSTN	10631	broad.mit.edu	37	chr13	38148746	38148746	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggctgaagactgccttcaatCactttaatttttggttccac	9	15	7	10	0	2	2	2	1	0	1	3	2	3	2	2	2	1	2	2	2	3	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:38148746C>T	uc001uwo.3	-	17	2170	c.2052G>A	c.(2050-2052)GTG>GTA	p.V684V	POSTN_uc010tet.1_Intron|POSTN_uc001uwp.3_Intron|POSTN_uc001uwr.2_Intron|POSTN_uc001uwq.2_Intron|POSTN_uc010teu.1_Intron|POSTN_uc010tev.1_Intron|POSTN_uc010tew.1_Intron	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	684					cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		TGCCTTCAATCACTTTAATTT	0.289													4	24					0	0	0.009096	0	0		T	38148746	T	T	38148746	2	4	23	1	0	0	0	0	0	0	0	1	12278	813	29	4		4	POSTN	13	38148746	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4444471	38148746	77021132	952	20280											
FNDC3A	22862	broad.mit.edu	37	chr13	49705409	49705409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtcccaactatgatgcCgcctccaccacgtcatatgt	8	11	6	16	2	1	1	1	1	0	0	4	1	4	1	6	0	2	0	6	0	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:49705409C>T	uc001vcm.2	+	5	694	c.389C>T	c.(388-390)CCG>CTG	p.P130L	FNDC3A_uc001vcl.1_Missense_Mutation_p.P130L|FNDC3A_uc001vcn.2_Missense_Mutation_p.P130L|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcp.1_Missense_Mutation_p.P74L|FNDC3A_uc001vcq.2_Missense_Mutation_p.P74L	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	130	Pro-rich.					Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		ACTATGATGCCGCCTCCACCA	0.507													33	187					0	0	0.003271	0	0		T	49705409	T	T	49705409	3	4	23	1	0	0	0	0	1	0	0	0	5983	652	23	1	414	1	FNDC3A	13	49705409	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	11556663	49705409	65464469	953	20281											
UTP14C	9724	broad.mit.edu	37	chr13	52605100	52605100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagctgactactcccaaggtCgtcaccaagccaggccatat	12	7	8	14	1	1	1	1	1	0	0	3	1	2	1	4	2	3	1	4	2	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:52605100C>T	uc001vgb.2	+	2	2695	c.2160C>T	c.(2158-2160)GTC>GTT	p.V720V	UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	720					cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)		CTCCCAAGGTCGTCACCAAGC	0.502													35	114					0	0	0.005524	0	0		T	52605100	T	T	52605100	2	4	23	1	0	0	0	0	0	0	0	1	17122	871	31	1		1	UTP14C	13	52605100	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2899691	52605100	62564778	954	20282											
NEK5	341676	broad.mit.edu	37	chr13	52684545	52684545	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgttcttgctaagaaaaatgTtctataaatggagaaaatgt	16	13	8	4	1	2	2	0	0	2	2	2	3	2	2	0	1	1	3	0	1	8	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:52684545T>C	uc001vge.2	-	7	538	c.398A>G	c.(397-399)AAC>AGC	p.N133S	NEK5_uc001vgf.2_Missense_Mutation_p.N133S	NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	133	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		AAGAAAAATGTTCTATAAATG	0.358													3	125					0	0	0.004672	0	0		C	52684545	C	C	52684545	3	2	23	1	0	0	0	0	1	0	0	0	10346	1739	60	3	1792	3	NEK5	13	52684545	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	79445	52684545	62485333	955	20283											
THSD1	55901	broad.mit.edu	37	chr13	52952361	52952361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgatccggaacttgtttgCtgcagcttcttccgggcttt	4	17	10	10	2	1	1	0	1	1	0	3	2	3	2	2	2	4	5	2	2	1	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:52952361C>T	uc001vgo.2	-	5	2289	c.1744G>A	c.(1744-1746)GCA>ACA	p.A582T	THSD1_uc001vgp.2_Missense_Mutation_p.A529T|THSD1_uc010tgz.1_Missense_Mutation_p.A203T|THSD1_uc010aea.2_Missense_Mutation_p.A43T	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	582	Cytoplasmic (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		AACTTGTTTGCTGCAGCTTCT	0.572													36	153					0	0	0.006999	0	0		T	52952361	T	T	52952361	3	4	23	1	0	0	0	0	1	0	0	0	15902	797	28	2	818	2	THSD1	13	52952361	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	267816	52952361	62217517	956	20284											
THSD1	55901	broad.mit.edu	37	chr13	52952664	52952664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtgggcccgtctccccCatccgagaagctcccgcgct	4	6	10	21	5	1	1	0	0	1	1	4	2	3	1	7	1	1	2	7	1	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:52952664C>T	uc001vgo.2	-	5	1986	c.1441G>A	c.(1441-1443)GGG>AGG	p.G481R	THSD1_uc001vgp.2_Missense_Mutation_p.G428R|THSD1_uc010tgz.1_Missense_Mutation_p.G102R|THSD1_uc010aea.2_5'UTR	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	481	Cytoplasmic (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		CCGTCTCCCCCATCCGAGAAG	0.652													18	66					0	0	0.006122	0	0		T	52952664	T	T	52952664	3	4	23	1	0	0	0	0	1	0	0	0	15902	594	21	4	1121	4	THSD1	13	52952664	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	303	52952664	62217214	957	20285											
PCDH8	5100	broad.mit.edu	37	chr13	53422421	53422421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactttcatatgcaggtcctCggccagggtcccgatgaccg	7	10	11	13	3	1	1	1	1	0	0	4	2	3	1	4	3	2	1	4	3	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:53422421C>T	uc001vhi.2	-	1	354	c.151G>A	c.(151-153)GAG>AAG	p.E51K	PCDH8_uc001vhj.2_Missense_Mutation_p.E51K	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	51	Extracellular (Potential).|Cadherin 1.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		TGCAGGTCCTCGGCCAGGGTC	0.607													24	159					0	0	0.00333	0	0		T	53422421	T	T	53422421	3	4	23	1	0	0	0	0	1	0	0	0	11536	893	31	1	3073	1	PCDH8	13	53422421	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	469757	53422421	61747457	958	20286											
PCDH17	27253	broad.mit.edu	37	chr13	58207121	58207121	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctcggagaacgctgctccGggcacccgcttccccctcac	6	7	9	19	4	2	1	1	0	1	1	5	2	4	1	4	2	2	4	4	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:58207121G>A	uc001vhq.1	+	1	1333	c.441G>A	c.(439-441)CCG>CCA	p.P147P	PCDH17_uc010aec.1_Silent_p.P147P	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	147	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		ACGCTGCTCCGGGCACCCGCT	0.617													11	25					0	0	0.010729	0	0		A	58207121	A	A	58207121	2	1	23	1	0	0	0	0	0	0	0	1	11531	1103	39	1		1	PCDH17	13	58207121	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4784700	58207121	56962757	959	20287											
PCDH17	27253	broad.mit.edu	37	chr13	58208648	58208648	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttctgggaggacgtgacGcccgtggtggagctggtggt	4	10	18	9	3	1	1	0	1	1	0	1	4	1	4	2	6	1	1	2	6	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:58208648G>A	uc001vhq.1	+	1	2860	c.1968G>A	c.(1966-1968)ACG>ACA	p.T656T	PCDH17_uc010aec.1_Silent_p.T656T	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	656	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		AGGACGTGACGCCCGTGGTGG	0.642													44	186					0	0	0.01441	0	0		A	58208648	A	A	58208648	2	1	23	1	0	0	0	0	0	0	0	1	11531	1074	38	1		1	PCDH17	13	58208648	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1527	58208648	56961230	960	20288											
PCDH20	64881	broad.mit.edu	37	chr13	61987429	61987429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacaattaggtagggggtgCgctccccattctcattctcc	7	12	10	12	1	2	1	1	1	2	0	5	1	3	1	3	3	1	2	3	3	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:61987429C>T	uc001vid.3	-	2	1167	c.803G>A	c.(802-804)CGC>CAC	p.R268H	PCDH20_uc010thj.1_Missense_Mutation_p.R268H	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	241	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		GTAGGGGGTGCGCTCCCCATT	0.522													21	60					0	0	0.00278	0	0		T	61987429	T	T	61987429	3	4	23	1	0	0	0	0	1	0	0	0	11534	768	27	1	2056	1	PCDH20	13	61987429	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3778781	61987429	53182449	961	20289											
PCDH9	5101	broad.mit.edu	37	chr13	67477738	67477738	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgctgtgtgagttacaCtgaaagagattaccaaataa	14	13	8	6	0	0	3	0	2	0	1	0	4	0	3	1	0	3	2	1	0	5	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:67477738C>T	uc001vik.2	-	3	3729	c.3037_splice	c.e3-1	p.C1013_splice	PCDH9_uc010aei.2_Splice_Site|PCDH9_uc001vil.2_Intron|PCDH9_uc010thl.1_Splice_Site_p.C1013_splice	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GTGAGTTACACTGAAAGAGAT	0.413													5	31					0	0	0.000602	0	0		T	67477738	T	T	67477738	5	4	23	1	0	0	0	0	0	0	1	0	11537	579	20	4	689	4	PCDH9	13	67477738	Splice_Site	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5490309	67477738	47692140	962	20290											
PCDH9	5101	broad.mit.edu	37	chr13	67801412	67801412	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgtccttatctgaaacTgtaattagggcaatctttgt	9	17	8	7	0	3	1	0	1	3	0	4	1	4	1	1	1	1	2	1	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:67801412T>G	uc001vik.2	-	2	1853	c.1161A>C	c.(1159-1161)ACA>ACC	p.T387T	PCDH9_uc001vil.2_Silent_p.T387T|PCDH9_uc010thl.1_Silent_p.T387T|PCDH9_uc001vin.3_Silent_p.T387T	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	387	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		TATCTGAAACTGTAATTAGGG	0.378													43	146					0	0	0.00874	0	0		G	67801412	G	G	67801412	2	3	23	1	0	0	0	0	0	0	0	1	11537	1567	55	5		5	PCDH9	13	67801412	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	323674	67801412	47368466	963	20291											
LMO7	4008	broad.mit.edu	37	chr13	76432062	76432062	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgcccgatcagctggaCggccaaccgccatgtgatgt	7	9	11	14	3	1	1	1	1	0	0	2	3	2	2	5	2	3	1	5	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:76432062C>T	uc001vjv.2	+	27	4831	c.4071C>T	c.(4069-4071)GAC>GAT	p.D1357D	LMO7_uc010thv.1_Missense_Mutation_p.R1345W|LMO7_uc010thw.1_Missense_Mutation_p.R1271W|LMO7_uc001vjx.1_RNA	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	Error:Variant_position_missing_in_Q8WWI1_after_alignment						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		ATCAGCTGGACGGCCAACCGC	0.438													16	63					0	0	0.00499	0	0		T	76432062	T	T	76432062	2	4	23	1	0	0	0	0	0	0	0	1	8872	536	19	1		1	LMO7	13	76432062	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	8630650	76432062	38737816	964	20292											
UGGT2	55757	broad.mit.edu	37	chr13	96601605	96601605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccaaattatgaaaattgCgccttatggaaggtacactt	14	12	7	8	1	1	1	1	1	0	0	1	2	1	2	2	2	2	1	2	2	7	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:96601605C>T	uc001vmt.2	-	13	1609	c.1439G>A	c.(1438-1440)CGC>CAC	p.R480H		NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	480					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						ATGAAAATTGCGCCTTATGGA	0.274													8	17					0	0	0.008291	0	0		T	96601605	T	T	96601605	3	4	23	1	0	0	0	0	1	0	0	0	16968	768	27	1	3219	1	UGGT2	13	96601605	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	20169543	96601605	18568273	965	20293											
IPO5	3843	broad.mit.edu	37	chr13	98671871	98671871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtaagagttattcagtctgCggattctaagaccaaagaaa	15	10	10	6	1	3	3	1	0	2	3	3	4	3	4	1	2	1	2	1	2	5	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:98671871C>T	uc001vne.2	+	27	3107	c.2927C>T	c.(2926-2928)GCG>GTG	p.A976V		NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	958	HEAT 6.				interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						ATTCAGTCTGCGGATTCTAAG	0.383													23	63					0	0	0.003954	0	0		T	98671871	T	T	98671871	3	4	23	1	0	0	0	0	1	0	0	0	7812	768	27	1	3025	1	IPO5	13	98671871	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2070266	98671871	16498007	966	20294											
TMTC4	84899	broad.mit.edu	37	chr13	101287385	101287385	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcgaccacgaagcccactcGgaagaacaggttactcgcgg	11	5	12	13	5	0	1	0	0	0	1	2	4	0	2	2	3	4	1	2	3	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:101287385G>A	uc001vou.2	-	10	1370	c.1210C>T	c.(1210-1212)CGA>TGA	p.R404*	TMTC4_uc001vot.2_Nonsense_Mutation_p.R423*|TMTC4_uc010tja.1_Nonsense_Mutation_p.R293*|TMTC4_uc001vov.1_Nonsense_Mutation_p.R149*|TMTC4_uc001vow.1_Nonsense_Mutation_p.R187*	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	404						integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					AAGCCCACTCGGAAGAACAGG	0.498													4	22					0	0	0.000602	0	0		A	101287385	A	A	101287385	4	1	23	1	0	0	0	0	0	1	0	0	16288	1124	39	1	1051	1	TMTC4	13	101287385	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2615514	101287385	13882493	967	20295											
ITGBL1	9358	broad.mit.edu	37	chr13	102250558	102250558	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaggctggtatgggaaGaagtgtgagcacccacagtc	13	6	14	8	0	0	2	0	1	0	1	1	3	0	3	1	3	2	4	1	3	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:102250558G>T	uc001vpb.2	+	7	1143	c.924G>T	c.(922-924)AAG>AAT	p.K308N	ITGBL1_uc010agb.2_Missense_Mutation_p.K259N|ITGBL1_uc001vpc.3_Missense_Mutation_p.K167N	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	308	VI.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GGTATGGGAAGAAGTGTGAGC	0.498													22	84					3.62473e-10	3.86148e-10	0.012319	1	0		T	102250558	T	T	102250558	3	4	23	1	0	0	0	0	1	0	0	0	7918	933	33	5	950	5	ITGBL1	13	102250558	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	963173	102250558	12919320	968	20296											
ERCC5	2073	broad.mit.edu	37	chr13	103518646	103518646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggagagcaacctcttagCacagcagaattcactgaaag	14	8	9	10	0	3	3	1	1	2	2	3	4	3	3	1	1	4	3	1	1	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:103518646C>T	uc001vpw.2	+	10	2677	c.2234C>T	c.(2233-2235)GCA>GTA	p.A745V	ERCC5_uc001vpu.1_Missense_Mutation_p.A1199V|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Missense_Mutation_p.A577V	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	745					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AACCTCTTAGCACAGCAGAAT	0.413			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				14	77					0	0	0.00245	0	0		T	103518646	T	T	103518646	3	4	23	1	0	0	0	0	1	0	0	0	5224	710	25	2	2272	2	ERCC5	13	103518646	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1268088	103518646	11651232	969	20297											
EFNB2	1948	broad.mit.edu	37	chr13	107164918	107164918	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctgaaattctagacccCagaggttagggctgaattct	10	13	9	9	0	4	4	0	2	4	2	4	4	4	4	2	2	0	2	2	2	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:107164918C>A	uc001vqi.2	-	2	390	c.365G>T	c.(364-366)TGG>TTG	p.W122L		NM_004093	NP_004084	P52799	EFNB2_HUMAN	ephrin B2 precursor	122	Extracellular (Potential).			LW->YM: Complete loss of Nipah protein G binding.	cell differentiation|cell-cell signaling|interspecies interaction between organisms|nervous system development	integral to plasma membrane	ephrin receptor binding			ovary(1)	1	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					TTCTAGACCCCAGAGGTTAGG	0.313													26	79					1.64293e-13	1.775e-13	0.00333	1	0		A	107164918	A	A	107164918	3	1	23	1	0	0	0	0	1	0	0	0	4962	595	21	5	652	5	EFNB2	13	107164918	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3646272	107164918	8004960	970	20298											
COL4A1	1282	broad.mit.edu	37	chr13	110838886	110838886	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggggggccacgctctcctttCaatcctacagaaccctgatg	8	9	10	14	1	2	2	1	1	1	1	4	2	3	2	4	3	2	1	4	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:110838886C>T	uc001vqw.3	-	26	1865	c.1743G>A	c.(1741-1743)TTG>TTA	p.L581L	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	581	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			GCTCTCCTTTCAATCCTACAG	0.542													16	57					0	0	0.00499	0	0		T	110838886	T	T	110838886	2	4	23	1	0	0	0	0	0	0	0	1	3692	825	29	4		4	COL4A1	13	110838886	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3673968	110838886	4330992	971	20299											
ING1	3621	broad.mit.edu	37	chr13	111371924	111371924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgagaaccgtgagaacgCgtccagcaaccacgaccacg	14	2	10	15	6	0	2	0	1	0	2	1	5	1	2	4	0	5	1	4	0	4	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:111371924C>T	uc001vri.2	+	2	1346	c.914C>T	c.(913-915)GCG>GTG	p.A305V	ING1_uc001vrf.2_Missense_Mutation_p.A118V|ING1_uc001vrg.2_Missense_Mutation_p.A93V|ING1_uc001vrh.2_Missense_Mutation_p.A162V	NM_005537	NP_005528	Q9UK53	ING1_HUMAN	inhibitor of growth family, member 1 isoform D	305					cell cycle|negative regulation of cell growth|negative regulation of cell proliferation	nucleus	zinc ion binding			ovary(1)	1	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.188)			CGTGAGAACGCGTCCAGCAAC	0.657													4	24					0	0	0.000602	0	0		T	111371924	T	T	111371924	3	4	23	1	0	0	0	0	1	0	0	0	7751	768	27	1	1068	1	ING1	13	111371924	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	533038	111371924	3797954	972	20300											
ARHGEF7	8874	broad.mit.edu	37	chr13	111932912	111932912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattgagcggatattagtgtCgtgcaacaaccagcaggatc	12	9	12	8	2	0	1	0	1	0	0	2	4	0	3	1	2	5	2	1	2	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:111932912C>T	uc001vrs.2	+	16	1926	c.1676C>T	c.(1675-1677)TCG>TTG	p.S559L	ARHGEF7_uc001vrr.2_Missense_Mutation_p.S538L|ARHGEF7_uc001vrt.2_Missense_Mutation_p.S509L|ARHGEF7_uc010tjn.1_RNA|ARHGEF7_uc001vru.1_Missense_Mutation_p.S381L|ARHGEF7_uc001vrv.3_Missense_Mutation_p.S381L|ARHGEF7_uc001vrw.3_Missense_Mutation_p.S381L|ARHGEF7_uc001vrx.3_Missense_Mutation_p.S381L|ARHGEF7_uc010tjo.1_Missense_Mutation_p.S456L|ARHGEF7_uc010tjp.1_Missense_Mutation_p.S303L|ARHGEF7_uc001vry.1_5'Flank	NM_001113511	NP_001106983	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform c	559	PH.				apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			ATATTAGTGTCGTGCAACAAC	0.507													31	99					0	0	0.013726	0	0		T	111932912	T	T	111932912	3	4	23	1	0	0	0	0	1	0	0	0	911	893	31	1	1738	1	ARHGEF7	13	111932912	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	560988	111932912	3236966	973	20301											
SOX1	6656	broad.mit.edu	37	chr13	112722343	112722343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacaagtaccggccgcgccGcaagaccaagacgctgctca	11	5	10	15	5	1	2	1	0	0	2	1	2	1	2	4	1	3	4	4	1	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:112722343G>A	uc001vsb.1	+	1	431	c.371G>A	c.(370-372)CGC>CAC	p.R124H		NM_005986	NP_005977	O00570	SOX1_HUMAN	SRY (sex determining region Y)-box 1	124					chromatin organization	nucleus	core promoter sequence-specific DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	all_lung(23;0.000652)|Lung NSC(43;0.017)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	all_cancers(25;0.000331)|Lung NSC(25;0.0496)|all_lung(25;0.0831)|all_epithelial(44;0.0868)|Breast(118;0.231)		OV - Ovarian serous cystadenocarcinoma(48;0.132)		CGGCCGCGCCGCAAGACCAAG	0.493													8	30					0	0	0.004482	0	0		A	112722343	A	A	112722343	3	1	23	1	0	0	0	0	1	0	0	0	14965	1087	38	1	373	1	SOX1	13	112722343	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	789431	112722343	2447535	974	20302											
F7	2155	broad.mit.edu	37	chr13	113768274	113768274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggccggaactgtgagacgCgtaaggccccactttgggtc	8	7	15	11	3	0	1	0	1	0	1	1	3	0	2	3	4	1	1	3	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:113768274C>T	uc001vsv.2	+	5	481	c.430C>T	c.(430-432)CAC>TAC	p.H144Y	F7_uc010agp.1_Missense_Mutation_p.H137Y|F7_uc001vsw.2_Missense_Mutation_p.H122Y|F7_uc010tjt.1_Missense_Mutation_p.H75Y	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	144					anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	CTGTGAGACGCGTAAGGCCCC	0.632													6	48					0	0	0.001168	0	0		T	113768274	T	T	113768274	3	4	23	1	0	0	0	0	1	0	0	0	5357	782	27	1	448	1	F7	13	113768274	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1045931	113768274	1401604	975	20303											
TMCO3	55002	broad.mit.edu	37	chr13	114193765	114193765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggtcaccgaggagatcGccacctccatcgaacccatc	9	6	9	17	4	1	1	1	0	0	1	5	4	2	1	6	2	1	0	6	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr13:114193765G>A	uc001vtu.3	+	10	1994	c.1633G>A	c.(1633-1635)GCC>ACC	p.A545T		NM_017905	NP_060375	Q6UWJ1	TMCO3_HUMAN	transmembrane and coiled-coil domains 3	545						integral to membrane	solute:hydrogen antiporter activity				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0145)|all_epithelial(44;0.00286)|all_lung(25;0.0273)|Breast(118;0.0411)|Lung NSC(25;0.0983)	all cancers(43;0.0317)			CGAGGAGATCGCCACCTCCAT	0.557													15	54					0	0	0.00499	0	0		A	114193765	A	A	114193765	3	1	23	1	0	0	0	0	1	0	0	0	16022	1087	38	1	1667	1	TMCO3	13	114193765	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	425491	114193765	976113	976	20304											
OR4K15	81127	broad.mit.edu	37	chr14	20444458	20444458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaagcatggcgaaggccCgctccacattgactgctcac	9	7	10	15	2	1	1	1	1	0	0	2	2	2	1	2	2	3	4	2	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:20444458C>T	uc010tkx.1	+	1	781	c.781C>T	c.(781-783)CGC>TGC	p.R261C		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	261	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GGCGAAGGCCCGCTCCACATT	0.458													15	122					0	0	0.003163	0	0		T	20444458	T	T	20444458	3	4	23	1	0	0	0	0	1	0	0	0	11089	652	23	1	783	1	OR4K15	14	20444458	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08		20444458	86905082	977	20305											
MMP14	4323	broad.mit.edu	37	chr14	23315098	23315098	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaggtggacgaggagggCggcggggcggtgagcgcggc	6	4	24	7	6	0	2	0	2	0	0	0	5	0	4	0	9	1	0	0	9	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:23315098C>T	uc001whc.2	+	10	1833	c.1599C>T	c.(1597-1599)GGC>GGT	p.G533G		NM_004995	NP_004986	P50281	MMP14_HUMAN	matrix metalloproteinase 14 preproprotein	533	Extracellular (Potential).					extracellular matrix|integral to plasma membrane|melanosome	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0	all_cancers(95;9.47e-05)			GBM - Glioblastoma multiforme(265;0.00551)		ACGAGGAGGGCGGCGGGGCGG	0.682													8	18					0	0	0.006214	0	0		T	23315098	T	T	23315098	2	4	23	1	0	0	0	0	0	0	0	1	9671	755	27	1		1	MMP14	14	23315098	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2870640	23315098	84034442	978	20306											
JPH4	84502	broad.mit.edu	37	chr14	24045135	24045135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccactcgccctcgtagcGcagcccgttggagcgctggc	5	6	13	17	5	0	0	0	0	0	0	2	1	0	1	3	2	4	4	3	2	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:24045135G>A	uc001wkq.2	-	4	1828	c.910C>T	c.(910-912)CGC>TGC	p.R304C	JPH4_uc010tnr.1_5'Flank|JPH4_uc001wkr.2_Missense_Mutation_p.R304C|JPH4_uc001wks.2_Missense_Mutation_p.R304C	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	304	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		CCCTCGTAGCGCAGCCCGTTG	0.701													5	9					0	0	0.00308	0	0		A	24045135	A	A	24045135	3	1	23	1	0	0	0	0	1	0	0	0	7979	1087	38	1	992	1	JPH4	14	24045135	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	730037	24045135	83304405	979	20307											
DCAF11	80344	broad.mit.edu	37	chr14	24589026	24589026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcaaagtgtgggatcgacGcaccatgcgggaggatgacc	10	6	15	10	3	0	1	0	1	0	0	1	5	0	4	2	3	2	2	2	3	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:24589026G>A	uc001wlv.2	+	11	1293	c.1013G>A	c.(1012-1014)CGC>CAC	p.R338H	DCAF11_uc001wlw.2_Missense_Mutation_p.R338H|DCAF11_uc001wlz.2_Missense_Mutation_p.R238H|DCAF11_uc001wly.2_Missense_Mutation_p.R294H|DCAF11_uc001wme.2_Missense_Mutation_p.R298H|DCAF11_uc010tny.1_Missense_Mutation_p.R205H|DCAF11_uc001wmd.2_Missense_Mutation_p.R338H|DCAF11_uc001wmc.2_Missense_Mutation_p.R238H|DCAF11_uc001wmb.3_Missense_Mutation_p.R312H|DCAF11_uc001wma.3_Missense_Mutation_p.R338H	NM_001163484	NP_001156956	Q8TEB1	DCA11_HUMAN	DDB1 and CUL4 associated factor 11 isoform 1	338	WD 4.					CUL4 RING ubiquitin ligase complex	protein binding				0						TGGGATCGACGCACCATGCGG	0.552													8	27					0	0	0.00308	0	0		A	24589026	A	A	24589026	3	1	23	1	0	0	0	0	1	0	0	0	4265	1087	38	1	1051	1	DCAF11	14	24589026	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	543891	24589026	82760514	980	20308											
ADCY4	196883	broad.mit.edu	37	chr14	24802094	24802094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggacaggggacgcgtccagCgctgcagtcgctgctcccgg	5	5	16	15	6	0	0	0	0	0	0	3	2	2	2	2	4	3	4	2	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:24802094C>T	uc001wov.2	-	2	266	c.260G>A	c.(259-261)CGC>CAC	p.R87H	ADCY4_uc001wow.2_Missense_Mutation_p.R87H|ADCY4_uc010toh.1_5'UTR|ADCY4_uc001wox.2_Missense_Mutation_p.R87H|ADCY4_uc001woy.2_Missense_Mutation_p.R87H|ADCY4_uc001woz.3_Missense_Mutation_p.R87H	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	87					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		ACGCGTCCAGCGCTGCAGTCG	0.697											OREG0022624	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	27					0	0	0.001984	0	0		T	24802094	T	T	24802094	3	4	23	1	0	0	0	0	1	0	0	0	296	768	27	1	3069	1	ADCY4	14	24802094	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	213068	24802094	82547446	981	20309											
NFATC4	4776	broad.mit.edu	37	chr14	24842495	24842495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatcacaggcaagatggtggCcacggccagctatgaagccg	11	6	13	11	2	1	2	1	1	0	1	1	2	1	2	3	4	2	2	3	4	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:24842495C>T	uc001wpc.2	+	4	1799	c.1478C>T	c.(1477-1479)GCC>GTC	p.A493V	NFATC4_uc010tok.1_Missense_Mutation_p.A556V|NFATC4_uc010tol.1_Missense_Mutation_p.A556V|NFATC4_uc010alr.2_Missense_Mutation_p.A556V|NFATC4_uc010als.2_Missense_Mutation_p.A506V|NFATC4_uc010tom.1_Missense_Mutation_p.A506V|NFATC4_uc010ton.1_Missense_Mutation_p.A506V|NFATC4_uc010too.1_Missense_Mutation_p.A506V|NFATC4_uc010alt.2_Missense_Mutation_p.A525V|NFATC4_uc010top.1_Missense_Mutation_p.A525V|NFATC4_uc010toq.1_Missense_Mutation_p.A525V|NFATC4_uc010alu.2_Missense_Mutation_p.A185V|NFATC4_uc010tor.1_Missense_Mutation_p.A493V|NFATC4_uc010tos.1_Missense_Mutation_p.A423V|NFATC4_uc010tot.1_Missense_Mutation_p.A481V|NFATC4_uc010tou.1_Missense_Mutation_p.A423V|NFATC4_uc010tov.1_Missense_Mutation_p.A481V|NFATC4_uc010tow.1_Missense_Mutation_p.A423V|NFATC4_uc010alv.2_Missense_Mutation_p.A481V|NFATC4_uc010tox.1_Missense_Mutation_p.A423V|NFATC4_uc001wpd.2_Missense_Mutation_p.A28V|NFATC4_uc010toy.1_Missense_Mutation_p.A28V|NFATC4_uc010toz.1_Missense_Mutation_p.A28V|NFATC4_uc010tpa.1_5'Flank|NFATC4_uc010tpb.1_5'Flank	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	493	RHD.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		AAGATGGTGGCCACGGCCAGC	0.547													5	43					0	0	0.000602	0	0		T	24842495	T	T	24842495	3	4	23	1	0	0	0	0	1	0	0	0	10384	739	26	2	1685	2	NFATC4	14	24842495	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	40401	24842495	82507045	982	20310											
FOXG1	2290	broad.mit.edu	37	chr14	29237000	29237000	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggggaggggggcaaggaggGcgagaagaagaacggcaagt	13	1	22	5	3	0	3	0	0	0	3	0	6	0	5	0	8	1	2	0	8	5	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:29237000G>C	uc001wqe.2	+	1	714	c.515G>C	c.(514-516)GGC>GCC	p.G172A		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	172	Gly-rich.				axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		ggcaaggagggcgagaagaag	0.323													3	34					0	0	0.004672	0	0		C	29237000	C	C	29237000	3	2	23	1	0	0	0	0	1	0	0	0	6021	1203	42	5	517	5	FOXG1	14	29237000	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4394505	29237000	78112540	983	20311											
HECTD1	25831	broad.mit.edu	37	chr14	31582679	31582679	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacccagactttgttccatgCtcacaaaaatcctatagaaa	16	10	4	11	0	1	2	1	0	0	2	3	2	3	2	3	0	2	2	3	0	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:31582679C>T	uc001wrc.1	-	33	6357	c.5868G>A	c.(5866-5868)GAG>GAA	p.E1956E	HECTD1_uc001wra.1_Silent_p.E82E|HECTD1_uc001wrb.1_Silent_p.E82E|HECTD1_uc001wrd.1_Silent_p.E1424E	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1956					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		TTGTTCCATGCTCACAAAAAT	0.363													9	201					0	0	0.004482	0	0		T	31582679	T	T	31582679	2	4	23	1	0	0	0	0	0	0	0	1	7055	796	28	2		2	HECTD1	14	31582679	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2345679	31582679	75766861	984	20312											
SRP54	6729	broad.mit.edu	37	chr14	35498275	35498275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttttgctctaggtggtatgGcaggacttcagtcaatgatg	8	14	12	7	0	3	1	2	1	1	0	3	2	3	2	0	4	1	3	0	4	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:35498275G>A	uc001wso.2	+	16	1783	c.1432G>A	c.(1432-1434)GCA>ACA	p.A478T	SRP54_uc010tpp.1_Missense_Mutation_p.A429T|SRP54_uc010tpq.1_Missense_Mutation_p.A414T	NM_003136	NP_003127	P61011	SRP54_HUMAN	signal recognition particle 54kDa isoform 1	478	M-domain.				GTP catabolic process|response to drug|SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition|SRP-dependent cotranslational protein targeting to membrane, translocation	cytosol|nuclear speck|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|drug binding|endoplasmic reticulum signal peptide binding|GDP binding|GTP binding|nucleoside-triphosphatase activity|ribonucleoprotein binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;2.48e-05)|Lung(238;3.13e-05)|Epithelial(34;0.0314)|all cancers(34;0.0797)|BRCA - Breast invasive adenocarcinoma(188;0.243)	GBM - Glioblastoma multiforme(112;0.0396)		AGGTGGTATGGCAGGACTTCA	0.363													22	35					0	0	0.003954	0	0		A	35498275	A	A	35498275	3	1	23	1	0	0	0	0	1	0	0	0	15180	1203	42	2	1490	2	SRP54	14	35498275	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3915596	35498275	71851265	985	20313											
INSM2	84684	broad.mit.edu	37	chr14	36004658	36004658	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagccaccgctgcctcagggCccctacacggagggggtgtt	6	6	15	14	2	1	0	1	0	0	0	1	2	1	1	5	4	3	2	5	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:36004658C>A	uc001wth.1	+	1	1411	c.1200C>A	c.(1198-1200)GGC>GGA	p.G400G		NM_032594	NP_115983	Q96T92	INSM2_HUMAN	insulinoma-associated protein IA-6	400					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)|skin(1)	2	Breast(36;0.122)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(9;2.16e-07)|Lung(238;2.63e-07)|Epithelial(34;0.00145)|all cancers(34;0.00452)	GBM - Glioblastoma multiforme(112;0.0223)		TGCCTCAGGGCCCCTACACGG	0.682													7	63					1.6384e-10	1.75096e-10	0.001984	1	0		A	36004658	A	A	36004658	2	1	23	1	0	0	0	0	0	0	0	1	7788	726	26	5		5	INSM2	14	36004658	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	506383	36004658	71344882	986	20314											
SSTR1	6751	broad.mit.edu	37	chr14	38679662	38679662	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggttgactattacgccacCgcgctcaagagccgtgccta	8	8	10	15	5	1	2	1	1	0	1	1	2	1	2	5	1	3	2	5	1	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:38679662C>T	uc001wul.1	+	3	1685	c.1068C>T	c.(1066-1068)ACC>ACT	p.T356T	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	356	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	ATTACGCCACCGCGCTCAAGA	0.582													13	87					0	0	0.006122	0	0		T	38679662	T	T	38679662	2	4	23	1	0	0	0	0	0	0	0	1	15222	639	23	1		1	SSTR1	14	38679662	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2675004	38679662	68669878	987	20315											
LRFN5	145581	broad.mit.edu	37	chr14	42356185	42356185	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaattacaaatgatatgttCagtggtctttccaatcttca	14	15	5	7	0	4	1	2	1	2	0	5	1	5	1	1	1	1	1	1	1	6	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:42356185C>T	uc001wvm.2	+	3	1555	c.357C>T	c.(355-357)TTC>TTT	p.F119F	LRFN5_uc010ana.2_Silent_p.F119F	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	119	Extracellular (Potential).|LRR 3.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		ATGATATGTTCAGTGGTCTTT	0.378										HNSCC(30;0.082)			18	64					0	0	0.008871	0	0		T	42356185	T	T	42356185	2	4	23	1	0	0	0	0	0	0	0	1	8959	825	29	4		4	LRFN5	14	42356185	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3676523	42356185	64993355	988	20316											
FAM179B	23116	broad.mit.edu	37	chr14	45542625	45542625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagctggaggaaatatacGaacagccacagctaaattat	16	8	10	7	1	0	0	0	0	0	0	0	4	0	3	1	3	5	2	1	3	7	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:45542625G>A	uc001wvv.2	+	19	5233	c.5024G>A	c.(5023-5025)CGA>CAA	p.R1675Q	FAM179B_uc001wvw.2_Missense_Mutation_p.R1728Q|FAM179B_uc010anc.2_RNA	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	1675							binding			skin(2)|upper_aerodigestive_tract(1)	3						GGAAATATACGAACAGCCACA	0.428													16	88					0	0	0.010504	0	0		A	45542625	A	A	45542625	3	1	23	1	0	0	0	0	1	0	0	0	5517	1058	37	1	5098	1	FAM179B	14	45542625	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3186440	45542625	61806915	989	20317											
SAV1	60485	broad.mit.edu	37	chr14	51111571	51111571	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaggaggaagtccttctcGctcaagaggatggctccagt	9	9	12	11	1	2	1	1	0	1	1	6	4	5	4	3	4	0	2	3	4	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:51111571G>A	uc001wyg.1	-	4	858	c.697C>T	c.(697-699)CGA>TGA	p.R233*	SAV1_uc001wyh.1_Nonsense_Mutation_p.R233*	NM_021818	NP_068590	Q9H4B6	SAV1_HUMAN	WW45 protein	233					hippo signaling cascade	cytoplasm|nucleus	identical protein binding			breast(1)	1	all_epithelial(31;0.000611)|Breast(41;0.0333)					AGTCCTTCTCGCTCAAGAGGA	0.458													19	89					0	0	0.012319	0	0		A	51111571	A	A	51111571	4	1	23	1	0	0	0	0	0	1	0	0	13881	1095	38	1	466	1	SAV1	14	51111571	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5568946	51111571	56237969	990	20318											
DDHD1	80821	broad.mit.edu	37	chr14	53522429	53522429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agattctccatagtgtcggcGggacaaaactggtgaggtca	11	9	13	8	2	2	2	1	1	1	1	4	3	2	3	1	4	1	0	1	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:53522429G>A	uc001xai.2	-	10	2424	c.2194C>T	c.(2194-2196)CGC>TGC	p.R732C	DDHD1_uc001xaj.2_Missense_Mutation_p.R739C|DDHD1_uc001xah.2_Missense_Mutation_p.R732C|DDHD1_uc001xag.2_Missense_Mutation_p.R314C|DDHD1_uc001xak.1_Missense_Mutation_p.R128C	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	732	DDHD.				lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					TAGTGTCGGCGGGACAAAACT	0.408													39	181					0	0	0.006999	0	0		A	53522429	A	A	53522429	3	1	23	1	0	0	0	0	1	0	0	0	4329	1116	39	1	524	1	DDHD1	14	53522429	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2410858	53522429	53827111	991	20319											
RTN1	6252	broad.mit.edu	37	chr14	60063471	60063471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggaaatcagtttactcagCatgcctcttagcgcctggga	9	11	11	10	1	3	0	2	0	1	0	3	2	3	2	2	2	4	2	2	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:60063471C>T	uc001xen.1	-	9	2532	c.2323G>A	c.(2323-2325)GCT>ACT	p.A775T	RTN1_uc001xem.1_Missense_Mutation_p.A355T|RTN1_uc001xek.1_Missense_Mutation_p.A207T|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Missense_Mutation_p.A192T	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	775	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		GTTTACTCAGCATGCCTCTTA	0.393													6	139					0	0	0.001984	0	0		T	60063471	T	T	60063471	3	4	23	1	0	0	0	0	1	0	0	0	13750	710	25	2	11	2	RTN1	14	60063471	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	6541042	60063471	47286069	992	20320											
TRMT5	57570	broad.mit.edu	37	chr14	61446285	61446285	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgccctttttagggatcGcatcaatttactgactattt	8	17	7	9	1	1	1	1	1	0	0	2	2	1	2	1	1	3	2	1	1	4	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:61446285G>A	uc001xff.3	-	2	422	c.331C>T	c.(331-333)CGA>TGA	p.R111*	SLC38A6_uc001xfg.1_5'Flank|SLC38A6_uc001xfh.1_5'Flank|SLC38A6_uc001xfi.2_5'Flank|SLC38A6_uc001xfj.1_5'Flank|SLC38A6_uc001xfk.2_5'Flank|SLC38A6_uc010trz.1_5'Flank	NM_020810	NP_065861	Q32P41	TRMT5_HUMAN	tRNA methyltransferase 5	111						cytoplasm	tRNA (guanine-N1-)-methyltransferase activity			central_nervous_system(2)|large_intestine(1)	3				OV - Ovarian serous cystadenocarcinoma(108;0.0873)		TTTAGGGATCGCATCAATTTA	0.403													51	225					0	0	0.01441	0	0		A	61446285	A	A	61446285	4	1	23	1	0	0	0	0	0	1	0	0	16593	1095	38	1	1214	1	TRMT5	14	61446285	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1382814	61446285	45903255	993	20321											
SYNE2	23224	broad.mit.edu	37	chr14	64520155	64520155	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatctcaattacagcagcCattacttataaatttggaaa	18	12	4	7	0	1	0	1	0	1	0	2	1	1	1	1	1	4	1	1	1	9	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:64520155C>A	uc001xgm.2	+	48	9754	c.9524C>A	c.(9523-9525)CCA>CAA	p.P3175Q	SYNE2_uc001xgl.2_Missense_Mutation_p.P3175Q|SYNE2_uc010apw.1_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3175	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TTACAGCAGCCATTACTTATA	0.308													22	39					6.33239e-15	6.89016e-15	0.010504	1	0		A	64520155	A	A	64520155	3	1	23	1	0	0	0	0	1	0	0	0	15471	594	21	5	9710	5	SYNE2	14	64520155	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3073870	64520155	42829385	994	20322											
FUT8	2530	broad.mit.edu	37	chr14	66209091	66209091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttcgagagaagatagaaaCggtcaagtaccccacatatc	16	7	9	9	2	1	3	1	0	0	3	3	5	1	3	2	1	2	2	2	1	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:66209091C>T	uc001xin.2	+	11	2888	c.1691C>T	c.(1690-1692)ACG>ATG	p.T564M	FUT8_uc001xio.2_Missense_Mutation_p.T564M|FUT8_uc010tsp.1_Missense_Mutation_p.T401M|FUT8_uc001xir.3_RNA|FUT8_uc001xip.2_Missense_Mutation_p.T564M|FUT8_uc001xiq.2_Missense_Mutation_p.T435M|FUT8_uc001xis.2_Missense_Mutation_p.T158M	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a	564	Lumenal (Potential).				in utero embryonic development|L-fucose catabolic process|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in Golgi|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	glycoprotein 6-alpha-L-fucosyltransferase activity|SH3 domain binding			ovary(1)	1				all cancers(60;0.00109)|OV - Ovarian serous cystadenocarcinoma(108;0.00242)|BRCA - Breast invasive adenocarcinoma(234;0.0114)		AAGATAGAAACGGTCAAGTAC	0.443													5	42					0	0	0.000602	0	0		T	66209091	T	T	66209091	3	4	23	1	0	0	0	0	1	0	0	0	6124	536	19	1	1824	1	FUT8	14	66209091	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1688936	66209091	41140449	995	20323											
PLEK2	26499	broad.mit.edu	37	chr14	67864541	67864541	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttccagttgtggacaatgtgGccctatggacagacaagaaa	13	9	11	8	0	0	2	0	0	0	2	1	4	1	4	2	3	0	1	2	3	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:67864541G>A	uc001xjh.1	-	2	97	c.45C>T	c.(43-45)GGC>GGT	p.G15G		NM_016445	NP_057529	Q9NYT0	PLEK2_HUMAN	pleckstrin 2	15	PH 1.				actin cytoskeleton organization|intracellular signal transduction	cytoplasm|cytoskeleton|lamellipodium membrane				ovary(1)|pancreas(1)	2				all cancers(60;0.000728)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.00953)		GGACAATGTGGCCCTATGGAC	0.582													4	19					0	0	0.009096	0	0		A	67864541	A	A	67864541	2	1	23	1	0	0	0	0	0	0	0	1	12073	1190	42	2		2	PLEK2	14	67864541	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1655450	67864541	39484999	996	20324											
RDH12	145226	broad.mit.edu	37	chr14	68191306	68191306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccagagagctcgctagccGaggtaagtgtttccccttta	8	10	12	11	2	0	1	0	0	0	1	2	3	1	1	4	2	2	4	4	2	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:68191306G>A	uc001xjz.3	+	4	509	c.185G>A	c.(184-186)CGA>CAA	p.R62Q		NM_152443	NP_689656	Q96NR8	RDH12_HUMAN	retinol dehydrogenase 12	62					photoreceptor cell maintenance|response to stimulus|retinol metabolic process	intracellular	binding|retinol dehydrogenase activity			ovary(1)	1				all cancers(60;0.000704)|OV - Ovarian serous cystadenocarcinoma(108;0.00161)|BRCA - Breast invasive adenocarcinoma(234;0.00953)	Vitamin A(DB00162)	CTCGCTAGCCGAGGTAAGTGT	0.552													27	53					0	0	0.008361	0	0		A	68191306	A	A	68191306	3	1	23	1	0	0	0	0	1	0	0	0	13216	1058	37	1	191	1	RDH12	14	68191306	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	326765	68191306	39158234	997	20325											
DCAF5	8816	broad.mit.edu	37	chr14	69521511	69521511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtgctccgctcaggggacGaggttggggaggaggagagg	9	5	21	6	2	1	1	1	0	0	1	2	6	2	4	1	8	1	3	1	8	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:69521511G>A	uc001xkp.2	-	9	2111	c.1892C>T	c.(1891-1893)TCG>TTG	p.S631L	DCAF5_uc001xkq.2_Missense_Mutation_p.S630L	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	631						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						CTCAGGGGACGAGGTTGGGGA	0.493													35	116					0	0	0.004878	0	0		A	69521511	A	A	69521511	3	1	23	1	0	0	0	0	1	0	0	0	4276	1059	37	1	940	1	DCAF5	14	69521511	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1330205	69521511	37828029	998	20326											
DPF3	8110	broad.mit.edu	37	chr14	73140953	73140953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggggccacactcaccagagCgtccacagtctgcgcaggac	10	4	12	15	2	2	1	1	0	1	1	3	2	3	2	3	3	2	1	3	3	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:73140953C>T	uc001xnc.2	-	8	879	c.866G>A	c.(865-867)CGC>CAC	p.R289H	DPF3_uc001xnd.1_RNA|DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Missense_Mutation_p.R289H|DPF3_uc010ttq.1_Missense_Mutation_p.R299H	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	289	PHD-type 1.				chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		CTCACCAGAGCGTCCACAGTC	0.577													5	17					0	0	0.000602	0	0		T	73140953	T	T	73140953	3	4	23	1	0	0	0	0	1	0	0	0	4724	768	27	1	215	1	DPF3	14	73140953	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3619442	73140953	34208587	999	20327											
DCAF4	26094	broad.mit.edu	37	chr14	73425386	73425386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctactgagaaccataccctCcccgtaccctgcctccaagg	9	7	6	19	1	0	1	0	1	0	1	2	2	2	1	8	1	5	1	8	1	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:73425386C>T	uc001xng.2	+	14	1581	c.1361C>T	c.(1360-1362)TCC>TTC	p.S454F	DCAF4_uc001xnj.2_Missense_Mutation_p.S448F|DCAF4_uc010ttr.1_Missense_Mutation_p.S433F|DCAF4_uc001xnh.2_Missense_Mutation_p.S354F|DCAF4_uc010tts.1_Missense_Mutation_p.S394F|DCAF4_uc010ttt.1_Missense_Mutation_p.S240F|DCAF4_uc001xni.2_Missense_Mutation_p.S284F	NM_015604	NP_056419	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4 isoform 1	454						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)|skin(1)	3						ACCATACCCTCCCCGTACCCT	0.657													20	76					0	0	0.00278	0	0		T	73425386	T	T	73425386	3	4	23	1	0	0	0	0	1	0	0	0	4273	855	30	4	1414	4	DCAF4	14	73425386	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	284433	73425386	33924154	1000	20328											
PAPLN	89932	broad.mit.edu	37	chr14	73732083	73732083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcttgtttggcaggctgcGtttggaccagaaccagcccc	6	10	12	13	1	0	1	0	0	0	1	0	2	0	2	4	3	4	5	4	3	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:73732083G>A	uc010ttx.1	+	22	3294	c.3131G>A	c.(3130-3132)CGT>CAT	p.R1044H	PAPLN_uc001xnw.3_Missense_Mutation_p.R1017H|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.R1028H|PAPLN_uc010arm.2_Missense_Mutation_p.R243H|PAPLN_uc010arn.2_Missense_Mutation_p.R244H	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	1044	Ig-like C2-type 2.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GGCAGGCTGCGTTTGGACCAG	0.677													13	63					0	0	0.006122	0	0		A	73732083	A	A	73732083	3	1	23	1	0	0	0	0	1	0	0	0	11447	1145	40	1	3132	1	PAPLN	14	73732083	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	306697	73732083	33617457	1001	20329											
C14orf43	91748	broad.mit.edu	37	chr14	74193655	74193655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggatttctgcctggaacCgggagcccacgttgatccgt	7	9	14	11	3	1	1	0	1	1	0	2	4	2	4	4	4	3	1	4	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:74193655C>T	uc001xot.2	-	6	2966	c.2183G>A	c.(2182-2184)CGG>CAG	p.R728Q	C14orf43_uc001xos.2_5'UTR|C14orf43_uc001xou.2_Missense_Mutation_p.R728Q|C14orf43_uc010tud.1_Missense_Mutation_p.R728Q|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	728	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		TGCCTGGAACCGGGAGCCCAC	0.597													21	53					0	0	0.010504	0	0		T	74193655	T	T	74193655	3	4	23	1	0	0	0	0	1	0	0	0	1777	652	23	1	982	1	C14orf43	14	74193655	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	461572	74193655	33155885	1002	20330											
YLPM1	56252	broad.mit.edu	37	chr14	75276988	75276988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgagccttattttgatcGtcaaagtaatgtcatagcag	11	14	9	7	2	2	2	2	2	0	0	4	2	2	2	1	0	2	2	1	0	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:75276988G>A	uc001xqj.3	+	9	5217	c.5093G>A	c.(5092-5094)CGT>CAT	p.R1698H	YLPM1_uc001xql.3_RNA|YLPM1_uc001xqm.1_Missense_Mutation_p.R181H	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1503	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		TATTTTGATCGTCAAAGTAAT	0.393													17	74					0	0	0.00499	0	0		A	75276988	A	A	75276988	3	1	23	1	0	0	0	0	1	0	0	0	17512	1145	40	1	5127	1	YLPM1	14	75276988	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1083333	75276988	32072552	1003	20331											
MLH3	27030	broad.mit.edu	37	chr14	75513336	75513336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctgtggcatcttctaccGgattcattaacattccactg	9	13	6	13	1	3	0	1	0	2	0	4	1	4	1	3	2	2	1	3	2	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:75513336G>A	uc001xrd.1	-	2	3239	c.3023C>T	c.(3022-3024)CCG>CTG	p.P1008L	MLH3_uc001xre.1_Missense_Mutation_p.P1008L|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	1008					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		ATCTTCTACCGGATTCATTAA	0.393								MMR					39	175					0	0	0.007835	0	0		A	75513336	A	A	75513336	3	1	23	1	0	0	0	0	1	0	0	0	9636	1116	39	1	1386	1	MLH3	14	75513336	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	236348	75513336	31836204	1004	20332											
ZDHHC22	283576	broad.mit.edu	37	chr14	77600239	77600239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgcaggccaggccgatggcGaaccagaggtagagcatgag	11	3	17	10	3	0	3	0	1	0	2	0	5	0	3	3	4	2	3	3	4	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:77600239G>A	uc010asp.2	-	3	782	c.579C>T	c.(577-579)TTC>TTT	p.F193F		NM_174976	NP_777636	Q8N966	ZDH22_HUMAN	zinc finger, DHHC domain containing 22	193						integral to membrane	acyltransferase activity|zinc ion binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0277)		GGCCGATGGCGAACCAGAGGT	0.652													4	16					0	0	0.001168	0	0		A	77600239	A	A	77600239	2	1	23	1	0	0	0	0	0	0	0	1	17638	1049	37	1		1	ZDHHC22	14	77600239	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2086903	77600239	29749301	1005	20333											
TMED8	283578	broad.mit.edu	37	chr14	77809701	77809701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctggatgagtaggtacccGgatggtcaccacctcaccac	9	8	10	14	1	3	1	2	1	1	0	3	3	3	3	4	4	1	2	4	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:77809701G>A	uc001xto.1	-	5	580	c.580C>T	c.(580-582)CGG>TGG	p.R194W	TMED8_uc010ast.1_RNA|TMED8_uc001xtn.1_Missense_Mutation_p.R38W	NM_213601	NP_998766	Q6PL24	TMED8_HUMAN	transmembrane emp24 protein transport domain	194	GOLD.				transport	integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		GTAGGTACCCGGATGGTCACC	0.517													8	33					0	0	0.006214	0	0		A	77809701	A	A	77809701	3	1	23	1	0	0	0	0	1	0	0	0	16036	1115	39	1	404	1	TMED8	14	77809701	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	209462	77809701	29539839	1006	20334											
C14orf174	161394	broad.mit.edu	37	chr14	77857438	77857438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccctatagggatattatcGgcttatatttagagcaaaaa	14	14	7	6	1	0	1	0	0	0	1	2	2	1	2	1	2	1	2	1	2	9	9			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:77857438G>A	uc001xtq.1	+	3	1876	c.1876G>A	c.(1876-1878)GGC>AGC	p.G626S		NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	626											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		GGATATTATCGGCTTATATTT	0.418													21	75					0	0	0.014323	0	0		A	77857438	A	A	77857438	3	1	23	1	0	0	0	0	1	0	0	0	1762	1116	39	1	1886	1	C14orf174	14	77857438	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	47737	77857438	29492102	1007	20335											
VIPAR	63894	broad.mit.edu	37	chr14	77907427	77907427	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accgcaagctcttctgttctAtctaggaacctgggaagaag	11	10	10	10	1	4	1	0	0	4	1	4	3	4	3	2	2	2	3	2	2	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:77907427A>G	uc001xtt.1	-	12	1082	c.744T>C	c.(742-744)GAT>GAC	p.D248D	VIPAR_uc001xtu.1_Silent_p.D248D|VIPAR_uc010tvj.1_Silent_p.D199D|VIPAR_uc001xtv.1_Silent_p.D248D	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894	248					endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1						CTTCTGTTCTATCTAGGAACC	0.373													4	101					0	0	0.001168	0	0		G	77907427	G	G	77907427	2	3	23	1	0	0	0	0	0	0	0	1	17194	446	16	3		3	VIPAR	14	77907427	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	49989	77907427	29442113	1008	20336											
TSHR	7253	broad.mit.edu	37	chr14	81609460	81609460	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcataacaacgctcattattAcgtcttctttgaagaacaag	14	13	5	9	2	4	2	2	1	2	1	4	2	4	2	0	0	4	1	0	0	7	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:81609460A>G	uc001xvd.1	+	10	1214	c.1058A>G	c.(1057-1059)TAC>TGC	p.Y353C		NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	353	Extracellular (Potential).				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	GCTCATTATTACGTCTTCTTT	0.448			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						6	131					0	0	0.00308	0	0		G	81609460	G	G	81609460	3	3	23	1	0	0	0	0	1	0	0	0	16648	391	14	3	1233	3	TSHR	14	81609460	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	3702033	81609460	25740080	1009	20337											
SEL1L	6400	broad.mit.edu	37	chr14	81943446	81943446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgactgttcccaacagcagcGcaatgatggtcatgaggtaa	12	9	11	9	1	1	3	1	3	0	0	2	3	2	3	1	2	3	4	1	2	3	2	rs141918133		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:81943446G>A	uc010tvv.1	-	21	2372	c.2255C>T	c.(2254-2256)GCG>GTG	p.A752V		NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	752	Mediates retention to the endoplasmic reticulum.|Helical; (Potential).				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		CAACAGCAGCGCAATGATGGT	0.512													13	78					0	0	0.001855	0	0		A	81943446	A	A	81943446	3	1	23	1	0	0	0	0	1	0	0	0	14035	1087	38	1	133	1	SEL1L	14	81943446	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	333986	81943446	25406094	1010	20338											
SERPINA6	866	broad.mit.edu	37	chr14	94776089	94776089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttacctgctggtcaggcctgCggaccacctgttaatcgtgt	6	12	11	12	2	1	0	1	0	0	0	2	1	1	1	4	3	3	2	4	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:94776089C>T	uc001ycv.2	-	3	972	c.868G>A	c.(868-870)GCA>ACA	p.A290T	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	290					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	GTCAGGCCTGCGGACCACCTG	0.562													11	63					0	0	0.001855	0	0		T	94776089	T	T	94776089	3	4	23	1	0	0	0	0	1	0	0	0	14118	768	27	1	361	1	SERPINA6	14	94776089	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	12832643	94776089	12573451	1011	20339											
DEGS2	123099	broad.mit.edu	37	chr14	100616037	100616037	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcatcagggccttgatggcCgggtacttggctgcaaggaa	8	8	15	10	2	1	1	1	1	0	0	1	2	1	2	2	5	2	4	2	5	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:100616037C>T	uc001ygx.2	-	2	181	c.93G>A	c.(91-93)CCG>CCA	p.P31P		NM_206918	NP_996801	Q6QHC5	DEGS2_HUMAN	degenerative spermatocyte homolog 2, lipid	31					fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	sphingosine hydroxylase activity				0		Melanoma(154;0.212)				CCTTGATGGCCGGGTACTTGG	0.701													7	29					0	0	0.010729	0	0		T	100616037	T	T	100616037	2	4	23	1	0	0	0	0	0	0	0	1	4429	639	23	1		1	DEGS2	14	100616037	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5839948	100616037	6733503	1012	20340											
WARS	7453	broad.mit.edu	37	chr14	100801237	100801237	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtcgaaggacagcttcCggggagtcatgaactctttc	11	9	12	9	2	2	1	1	1	1	0	5	5	3	3	1	3	2	1	1	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:100801237C>A	uc001yhf.1	-	10	1475	c.1391G>T	c.(1390-1392)CGG>CTG	p.R464L	WARS_uc001yhe.1_Missense_Mutation_p.R270L|WARS_uc001yhg.1_Missense_Mutation_p.R464L|WARS_uc001yhh.1_Missense_Mutation_p.R464L|WARS_uc001yhi.1_Missense_Mutation_p.R423L|WARS_uc001yhj.1_Missense_Mutation_p.R423L|WARS_uc001yhk.1_Missense_Mutation_p.R423L|WARS_uc001yhl.1_Missense_Mutation_p.R464L	NM_173701	NP_776049	P23381	SYWC_HUMAN	tryptophanyl-tRNA synthetase isoform a	464					angiogenesis|negative regulation of cell proliferation|regulation of angiogenesis|tryptophanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|protein binding|tryptophan-tRNA ligase activity			breast(1)	1		all_cancers(154;0.00223)|all_lung(585;2.48e-06)|all_epithelial(191;0.000564)|Melanoma(154;0.152)			L-Tryptophan(DB00150)	GGACAGCTTCCGGGGAGTCAT	0.478													11	82					2.61681e-11	2.80731e-11	0.00245	1	0		A	100801237	A	A	100801237	3	1	23	1	0	0	0	0	1	0	0	0	17275	652	23	5	28	5	WARS	14	100801237	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	185200	100801237	6548303	1013	20341											
DYNC1H1	1778	broad.mit.edu	37	chr14	102452687	102452687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcaaggaaggtgcagcagCgcaacctcggtgtctcgggg	8	5	18	10	3	1	0	0	0	1	0	3	1	1	1	1	6	4	4	1	6	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:102452687C>T	uc001yks.2	+	8	2289	c.2125C>T	c.(2125-2127)CGC>TGC	p.R709C		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	709	Interaction with DYNC1LI2 (By similarity).|Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						GGTGCAGCAGCGCAACCTCGG	0.537													10	34					0	0	0.008291	0	0		T	102452687	T	T	102452687	3	4	23	1	0	0	0	0	1	0	0	0	4847	768	27	1	2155	1	DYNC1H1	14	102452687	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1651450	102452687	4896853	1014	20342											
DYNC1H1	1778	broad.mit.edu	37	chr14	102466418	102466418	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagagagaagtgtgcaaaGgccaaggaggcgctggaatt	14	5	16	6	1	0	2	0	0	0	2	0	6	0	4	1	4	1	2	1	4	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:102466418G>A	uc001yks.2	+	17	4061	c.3897G>A	c.(3895-3897)AAG>AAA	p.K1299K		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1299	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						AGTGTGCAAAGGCCAAGGAGG	0.557													10	58					0	0	0.006214	0	0		A	102466418	A	A	102466418	2	1	23	1	0	0	0	0	0	0	0	1	4847	991	35	4		4	DYNC1H1	14	102466418	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	13731	102466418	4883122	1015	20343											
TECPR2	9895	broad.mit.edu	37	chr14	102912234	102912234	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgggaacctgtggttcagaActggcattatttccaagaag	12	11	11	7	0	1	2	1	0	0	2	2	3	2	3	2	3	2	2	2	3	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:102912234A>C	uc001ylw.1	+	13	3173	c.3025A>C	c.(3025-3027)ACT>CCT	p.T1009P	TECPR2_uc010awl.2_Missense_Mutation_p.T1009P|TECPR2_uc010txx.1_Missense_Mutation_p.T172P	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1009	TECPR 2.						protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						GTGGTTCAGAACTGGCATTAT	0.542													35	105					0	0	0.005524	0	0		C	102912234	C	C	102912234	3	2	23	1	0	0	0	0	1	0	0	0	15769	43	2	5	3071	5	TECPR2	14	102912234	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	445816	102912234	4437306	1016	20344											
AHNAK2	113146	broad.mit.edu	37	chr14	105409908	105409908	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgtctttggccgtcatGtccttgtcggccagggacag	4	13	13	11	2	2	0	1	0	1	0	4	1	3	1	3	3	1	1	3	3	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:105409908G>A	uc010axc.1	-	7	12000	c.11880C>T	c.(11878-11880)GAC>GAT	p.D3960D	AHNAK2_uc001ypx.2_Silent_p.D3860D	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3960						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			TGGCCGTCATGTCCTTGTCGG	0.612													7	290					0	0	0.01441	0	0		A	105409908	A	A	105409908	2	1	23	1	0	0	0	0	0	0	0	1	415	1368	48	4		4	AHNAK2	14	105409908	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2497674	105409908	1939632	1017	20345											
AHNAK2	113146	broad.mit.edu	37	chr14	105410506	105410506	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcagagacacctccacaTcaggggctgtgacttccgcc	8	7	12	14	1	1	2	1	1	0	1	3	3	3	2	4	3	0	2	4	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:105410506T>C	uc010axc.1	-	7	11402	c.11282A>G	c.(11281-11283)GAT>GGT	p.D3761G	AHNAK2_uc001ypx.2_Missense_Mutation_p.D3661G	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3761						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CACCTCCACATCAGGGGCTGT	0.607													9	411					0	0	0.006214	0	0		C	105410506	C	C	105410506	3	2	23	1	0	0	0	0	1	0	0	0	415	1435	50	3	6109	3	AHNAK2	14	105410506	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	598	105410506	1939034	1018	20346											
AHNAK2	113146	broad.mit.edu	37	chr14	105412039	105412039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctttcaggtccagcttggggCccttgatgtctatctggggg	4	13	14	10	0	3	1	1	1	2	0	4	1	4	1	2	5	1	1	2	5	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:105412039C>T	uc010axc.1	-	7	9869	c.9749G>A	c.(9748-9750)GGC>GAC	p.G3250D	AHNAK2_uc001ypx.2_Missense_Mutation_p.G3150D	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3250						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CAGCTTGGGGCCCTTGATGTC	0.622													33	219					0	0	0.005524	0	0		T	105412039	T	T	105412039	3	4	23	1	0	0	0	0	1	0	0	0	415	739	26	2	7642	2	AHNAK2	14	105412039	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1533	105412039	1937501	1019	20347											
CRIP1	1396	broad.mit.edu	37	chr14	105954725	105954725	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagccatgtttgggcctaaaGgtatgctcccgtcatcccca	8	10	9	14	1	1	0	1	0	0	0	3	0	3	0	5	2	2	3	5	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr14:105954725G>T	uc001yri.3	+	4	307	c.193G>T	c.(193-195)GGC>TGC	p.G65C	C14orf80_uc001yrj.2_5'Flank|C14orf80_uc001yrk.2_5'Flank|C14orf80_uc001yrn.2_5'Flank|C14orf80_uc001yro.2_5'Flank|C14orf80_uc001yrm.2_5'Flank	NM_001311	NP_001302	P50238	CRIP1_HUMAN	cysteine-rich protein 1 (intestinal)	65	Gly-rich.				cell proliferation	cytoplasm	zinc ion binding				0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0188)	Epithelial(152;0.235)		TGGGCCTAAAGGTATGCTCCC	0.547													3	21					2.0095e-06	2.0865e-06	0.001984	1	0		T	105954725	T	T	105954725	3	4	23	1	0	0	0	0	1	0	0	0	3877	1014	35	5	203	5	CRIP1	14	105954725	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	542686	105954725	1394815	1020	20348											
CYFIP1	23191	broad.mit.edu	37	chr15	22962283	22962283	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgttttgaccaatttgtttAcaagctagcagaccagatat	13	14	7	7	0	0	3	0	1	0	2	0	3	0	3	2	0	3	4	2	0	5	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:22962283A>G	uc001yus.2	+	19	2215	c.2111A>G	c.(2110-2112)TAC>TGC	p.Y704C	CYFIP1_uc001yut.2_Missense_Mutation_p.Y704C|CYFIP1_uc010aya.1_Missense_Mutation_p.Y732C|CYFIP1_uc001yuu.2_Missense_Mutation_p.Y273C	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	704				Y->D: Constitutive induction of the formation of actin filaments; when associated with D-697.	axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		CAATTTGTTTACAAGCTAGCA	0.343													5	144					0	0	0.001168	0	0		G	22962283	G	G	22962283	3	3	23	1	0	0	0	0	1	0	0	0	4140	391	14	3	2562	3	CYFIP1	15	22962283	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08		22962283	79569109	1021	20349											
CYFIP1	23191	broad.mit.edu	37	chr15	22999391	22999391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaaggagcgcctctgctGcggcctgtccatgtttgagg	7	9	14	11	2	1	1	0	1	1	0	2	3	2	2	3	3	3	2	3	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:22999391G>A	uc001yus.2	+	29	3367	c.3263G>A	c.(3262-3264)TGC>TAC	p.C1088Y	CYFIP1_uc001yut.2_Missense_Mutation_p.C1088Y|CYFIP1_uc001yuu.2_Missense_Mutation_p.C657Y|CYFIP1_uc001yuv.2_Missense_Mutation_p.C282Y	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	1088					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		CGCCTCTGCTGCGGCCTGTCC	0.607													22	52					0	0	0.003954	0	0		A	22999391	A	A	22999391	3	1	23	1	0	0	0	0	1	0	0	0	4140	1319	46	2	3754	2	CYFIP1	15	22999391	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	37108	22999391	79532001	1022	20350											
HERC2	8924	broad.mit.edu	37	chr15	28473545	28473545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatggtttgcaggggaacCggctggatacctaatgagca	10	9	15	7	1	0	2	0	2	0	0	0	4	0	4	2	5	4	4	2	5	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:28473545C>T	uc001zbj.2	-	35	5389	c.5283G>A	c.(5281-5283)CCG>CCA	p.P1761P		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1761					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GCAGGGGAACCGGCTGGATAC	0.527													11	28					0	0	0.001855	0	0		T	28473545	T	T	28473545	2	4	23	1	0	0	0	0	0	0	0	1	7074	639	23	1		1	HERC2	15	28473545	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5474154	28473545	74057847	1023	20351											
MTMR15	22909	broad.mit.edu	37	chr15	31206224	31206224	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgttggtcaacctcggcCgaatggagtttcctagttac	7	13	10	11	2	1	0	1	0	0	0	4	2	3	1	4	3	2	3	4	3	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:31206224C>T	uc001zff.2	+	5	2032	c.1741C>T	c.(1741-1743)CGA>TGA	p.R581*	MTMR15_uc001zfe.2_Nonsense_Mutation_p.R186*	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a	581					double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		CAACCTCGGCCGAATGGAGTT	0.458								Direct_reversal_of_damage|Editing_and_processing_nucleases					23	71					0	0	0.003954	0	0		T	31206224	T	T	31206224	4	4	23	1	0	0	0	0	0	1	0	0	9961	644	23	1	1780	1	MTMR15	15	31206224	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2732679	31206224	71325168	1024	20352											
SLC12A6	9990	broad.mit.edu	37	chr15	34531214	34531214	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcgctttgacgccagccatTaggccagcccatcaccaccg	8	8	8	17	3	1	1	1	1	0	0	2	1	1	1	6	1	2	1	6	1	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:34531214T>C	uc001zhw.2	-	19	2748	c.2584A>G	c.(2584-2586)AAT>GAT	p.N862D	SLC12A6_uc001zhv.2_Missense_Mutation_p.N811D|SLC12A6_uc001zhx.2_Missense_Mutation_p.N847D|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.N803D|SLC12A6_uc001zib.2_Missense_Mutation_p.N853D|SLC12A6_uc001zic.2_Missense_Mutation_p.N862D|SLC12A6_uc010bau.2_Missense_Mutation_p.N862D|SLC12A6_uc001zid.2_Missense_Mutation_p.N803D|SLC12A6_uc001zht.2_RNA|SLC12A6_uc001zhu.2_Missense_Mutation_p.N674D	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	862					angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	CGCCAGCCATTAGGCCAGCCC	0.537													7	304					0	0	0.004482	0	0		C	34531214	C	C	34531214	3	2	23	1	0	0	0	0	1	0	0	0	14412	1754	61	3	896	3	SLC12A6	15	34531214	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	3324990	34531214	68000178	1025	20353											
LPCAT4	254531	broad.mit.edu	37	chr15	34652368	34652368	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccatccagagctgctaGtgcaagggccacatctcgga	9	6	11	15	1	1	1	0	0	1	1	3	2	2	2	4	2	3	3	4	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:34652368G>C	uc001zig.2	-	12	1280	c.1186C>G	c.(1186-1188)CTA>GTA	p.L396V		NM_153613	NP_705841	Q643R3	LPCT4_HUMAN	lysophosphatidylcholine acyltransferase 4	396					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|calcium ion binding				0						AGAGCTGCTAGTGCAAGGGCC	0.592													34	125					0	0	0.004878	0	0		C	34652368	C	C	34652368	3	2	23	1	0	0	0	0	1	0	0	0	8931	1020	36	5	400	5	LPCAT4	15	34652368	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	121154	34652368	67879024	1026	20354											
IVD	3712	broad.mit.edu	37	chr15	40700156	40700156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggaattttggaagcagctgGggaacctgggcgtattgggc	9	9	17	6	1	0	0	0	0	0	0	0	3	0	3	1	6	3	3	1	6	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:40700156G>A	uc001zls.3	+	3	596	c.262G>A	c.(262-264)GGG>AGG	p.G88R	IVD_uc001zlq.2_Missense_Mutation_p.G58R	NM_002225	NP_002216	P26440	IVD_HUMAN	isovaleryl Coenzyme A dehydrogenase isoform 1	85					leucine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|isovaleryl-CoA dehydrogenase activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;1.52e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.65e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0808)		GAAGCAGCTGGGGAACCTGGG	0.478													21	98					0	0	0.014323	0	0		A	40700156	A	A	40700156	3	1	23	1	0	0	0	0	1	0	0	0	7944	1232	43	4	272	4	IVD	15	40700156	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	6047788	40700156	61831236	1027	20355											
CASC5	57082	broad.mit.edu	37	chr15	40915554	40915554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggggccctgtagaggtagCtgataacatggaattgtcta	11	11	13	6	0	1	2	0	1	1	1	1	3	1	3	1	4	2	3	1	4	6	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:40915554C>T	uc010bbs.1	+	11	3331	c.3170C>T	c.(3169-3171)GCT>GTT	p.A1057V	CASC5_uc010ucq.1_Missense_Mutation_p.A881V|CASC5_uc001zme.2_Missense_Mutation_p.A1031V|CASC5_uc010bbt.1_Missense_Mutation_p.A1031V	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	1057	2 X 104 AA approximate repeats.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		GTAGAGGTAGCTGATAACATG	0.423													9	48					0	0	0.006214	0	0		T	40915554	T	T	40915554	3	4	23	1	0	0	0	0	1	0	0	0	2666	797	28	2	3208	2	CASC5	15	40915554	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	215398	40915554	61615838	1028	20356											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42132848	42132848	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttcacttcaggatccacaGgcagctcaaggtgggccagg	9	8	12	12	0	3	0	3	0	0	0	4	1	4	1	2	5	1	2	2	5	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:42132848G>T	uc010bco.2	+	3	310	c.209G>T	c.(208-210)AGG>ATG	p.R70M	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.R301M|JMJD7-PLA2G4B_uc010bcn.2_Missense_Mutation_p.R301M|JMJD7-PLA2G4B_uc001zoq.3_Translation_Start_Site|JMJD7-PLA2G4B_uc001zor.1_5'Flank	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	70	C2.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						AGGATCCACAGGCAGCTCAAG	0.632													19	58					1.01871e-10	1.09009e-10	0.008871	1	0		T	42132848	T	T	42132848	3	4	23	1	0	0	0	0	1	0	0	0	7971	1000	35	5	932	5	JMJD7-PLA2G4B	15	42132848	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1217294	42132848	60398544	1029	20357											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42134398	42134398	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgtcccctgcaggatgcccCcgaggagcaactaaaggcgc	9	6	12	14	2	0	0	0	0	0	0	1	3	1	2	4	3	4	2	4	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:42134398C>A	uc010bco.2	+	9	730	c.629C>A	c.(628-630)CCC>CAC	p.P210H	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.P441H|JMJD7-PLA2G4B_uc010bcn.2_Missense_Mutation_p.P441H|JMJD7-PLA2G4B_uc001zoq.3_5'UTR|JMJD7-PLA2G4B_uc001zor.1_5'Flank	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	210					arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						CAGGATGCCCCCGAGGAGCAA	0.572													27	89					8.58068e-18	9.40349e-18	0.007291	1	0		A	42134398	A	A	42134398	3	1	23	1	0	0	0	0	1	0	0	0	7971	623	22	5	1376	5	JMJD7-PLA2G4B	15	42134398	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1550	42134398	60396994	1030	20358											
CAPN3	825	broad.mit.edu	37	chr15	42681202	42681202	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcacaggaggggtggcaGagttttttgagatcagggat	10	11	15	5	0	2	2	2	1	0	2	2	5	2	4	0	5	0	2	0	5	0	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:42681202G>T	uc001zpn.1	+	5	1015	c.709G>T	c.(709-711)GAG>TAG	p.E237*	CAPN3_uc001zpk.1_Nonsense_Mutation_p.E10*|CAPN3_uc001zpl.1_Nonsense_Mutation_p.E150*|CAPN3_uc010udf.1_Nonsense_Mutation_p.E150*|CAPN3_uc010udg.1_Nonsense_Mutation_p.E150*|CAPN3_uc001zpo.1_Nonsense_Mutation_p.E237*|CAPN3_uc001zpp.1_Nonsense_Mutation_p.E237*	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	237	Calpain catalytic.				muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)		AGGGGTGGCAGAGTTTTTTGA	0.502													35	112					6.53348e-20	7.19753e-20	0.003755	1	0		T	42681202	T	T	42681202	4	4	23	1	0	0	0	0	0	1	0	0	2631	943	33	5	779	5	CAPN3	15	42681202	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	546804	42681202	59850190	1031	20359											
ZFP106	64397	broad.mit.edu	37	chr15	42743249	42743249	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtattcctgtagttatCaagctaaaatcaaagagagg	14	12	8	7	0	2	1	2	0	0	1	4	2	4	1	2	1	1	4	2	1	7	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:42743249C>A	uc001zpw.2	-	2	1487	c.1152G>T	c.(1150-1152)TTG>TTT	p.L384F	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Missense_Mutation_p.L167F|ZFP106_uc001zpy.1_Missense_Mutation_p.L407F	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	384						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		CTGTAGTTATCAAGCTAAAAT	0.388													66	212					1.72039e-30	1.91281e-30	0.01441	1	0		A	42743249	A	A	42743249	3	1	23	1	0	0	0	0	1	0	0	0	17662	825	29	5	4571	5	ZFP106	15	42743249	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	62047	42743249	59788143	1032	20360											
TGM7	116179	broad.mit.edu	37	chr15	43585663	43585663	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaccggtctcagccacaaaGgtgatgtggtcgttctggga	8	10	13	10	2	3	1	2	1	2	0	5	2	3	2	2	4	1	1	2	4	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:43585663G>T	uc001zrf.1	-	2	182	c.177C>A	c.(175-177)ACC>ACA	p.T59T		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	59					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	CAGCCACAAAGGTGATGTGGT	0.627													52	192					6.26901e-30	6.96557e-30	0.01441	1	0		T	43585663	T	T	43585663	2	4	23	1	0	0	0	0	0	0	0	1	15860	987	35	5		5	TGM7	15	43585663	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	842414	43585663	58945729	1033	20361											
MAP1A	4130	broad.mit.edu	37	chr15	43816368	43816368	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaccatctcacccacctcCtcactggaagaagacaaggg	12	6	9	14	0	2	2	2	0	1	2	4	3	3	3	4	3	1	1	4	3	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:43816368C>A	uc001zrt.2	+	4	3164	c.2697C>A	c.(2695-2697)TCC>TCA	p.S899S		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	899						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	CACCCACCTCCTCACTGGAAG	0.537													14	64					1.49906e-05	1.54884e-05	0.00245	1	0		A	43816368	A	A	43816368	2	1	23	1	0	0	0	0	0	0	0	1	9245	668	24	5		5	MAP1A	15	43816368	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	230705	43816368	58715024	1034	20362											
DUOX1	53905	broad.mit.edu	37	chr15	45454089	45454089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgcttagcctgcacatccGggcagcagggccctggacca	8	5	12	16	2	0	0	0	0	0	0	1	1	1	1	4	3	3	4	4	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:45454089G>A	uc001zus.1	+	31	4356	c.4010G>A	c.(4009-4011)CGG>CAG	p.R1337Q	DUOX1_uc001zut.1_Missense_Mutation_p.R1337Q|DUOX1_uc010bee.1_Missense_Mutation_p.R717Q	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	1337	Cytoplasmic (Potential).|FAD-binding FR-type.				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		CTGCACATCCGGGCAGCAGGG	0.637													10	50					0	0	0.010729	0	0		A	45454089	A	A	45454089	3	1	23	1	0	0	0	0	1	0	0	0	4806	1116	39	1	4124	1	DUOX1	15	45454089	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1637721	45454089	57077303	1035	20363											
SPATA5L1	79029	broad.mit.edu	37	chr15	45694912	45694912	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agatcccggaggagtctcagCctgaatcgcctcctcctagt	8	9	10	14	2	1	2	1	1	1	1	6	4	4	4	5	2	1	0	5	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:45694912C>T	uc001zve.2	+	1	394	c.285C>T	c.(283-285)AGC>AGT	p.S95S	uc001zvd.2_5'Flank|SPATA5L1_uc001zvf.2_RNA	NM_024063	NP_076968	Q9BVQ7	SPA5L_HUMAN	spermatogenesis associated 5-like 1	95						cytoplasm	ATP binding|nucleoside-triphosphatase activity			ovary(3)|skin(1)	4		Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;7.31e-17)|GBM - Glioblastoma multiforme(94;6.28e-07)		GGAGTCTCAGCCTGAATCGCC	0.746													3	5					0	0	0.004672	0	0		T	45694912	T	T	45694912	2	4	23	1	0	0	0	0	0	0	0	1	15037	738	26	2		2	SPATA5L1	15	45694912	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	240823	45694912	56836480	1036	20364											
ATP8B4	79895	broad.mit.edu	37	chr15	50271884	50271884	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaatgttaagaatccggAgaacacagagctcttctctc	13	9	8	11	1	2	4	0	0	2	4	5	5	3	4	2	1	2	2	2	1	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:50271884A>G	uc001zxu.2	-	12	1106	c.964T>C	c.(964-966)TCC>CCC	p.S322P	ATP8B4_uc010ber.2_Missense_Mutation_p.S195P|ATP8B4_uc010ufd.1_Missense_Mutation_p.S195P|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	322	Extracellular (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		AAGAATCCGGAGAACACAGAG	0.343													36	135					0	0	0.003271	0	0		G	50271884	G	G	50271884	3	3	23	1	0	0	0	0	1	0	0	0	1198	304	11	3	2682	3	ATP8B4	15	50271884	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	4576972	50271884	52259508	1037	20365											
MAPK6	5597	broad.mit.edu	37	chr15	52356399	52356399	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcatcatatttagataaCttagtttggagagagagtga	14	14	9	4	0	3	4	3	1	0	3	3	6	3	4	0	1	1	1	0	1	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:52356399C>T	uc002abp.2	+	6	2162	c.1368C>T	c.(1366-1368)AAC>AAT	p.N456N		NM_002748	NP_002739	Q16659	MK06_HUMAN	mitogen-activated protein kinase 6	456					cell cycle		ATP binding|MAP kinase activity			lung(3)|ovary(1)	4				all cancers(107;0.0028)		ATTTAGATAACTTAGTTTGGA	0.333													9	31					0	0	0.004482	0	0		T	52356399	T	T	52356399	2	4	23	1	0	0	0	0	0	0	0	1	9299	564	20	4		4	MAPK6	15	52356399	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2084515	52356399	50174993	1038	20366											
RAB27A	5873	broad.mit.edu	37	chr15	55522599	55522599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cataactgaagatctcatacCtctcctgccctgctgtgtcc	8	12	6	15	0	2	2	1	1	2	1	5	2	3	2	4	0	4	1	4	0	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:55522599C>T	uc002aco.2	-	4	472	c.239G>A	c.(238-240)AGG>AAG	p.R80K	RAB27A_uc002acr.2_Missense_Mutation_p.R80K|RAB27A_uc002acp.2_Missense_Mutation_p.R80K|RAB27A_uc002acq.2_Missense_Mutation_p.R80K	NM_183234	NP_899057	P51159	RB27A_HUMAN	Ras-related protein Rab-27A	80					small GTPase mediated signal transduction	dendrite|exocytic vesicle|late endosome|lysosome|melanosome	GTP binding|GTPase activity			ovary(1)	1				all cancers(107;0.0273)|GBM - Glioblastoma multiforme(80;0.0993)		GATCTCATACCTCTCCTGCCC	0.488													9	116					0	0	0.006214	0	0		T	55522599	T	T	55522599	3	4	23	1	0	0	0	0	1	0	0	0	12939	695	24	4	442	4	RAB27A	15	55522599	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3166200	55522599	47008793	1039	20367											
FAM63B	54629	broad.mit.edu	37	chr15	59102469	59102469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttgcacaaactacagaCaggcctggatgtaaatgtaa	16	10	8	7	0	0	1	0	0	0	1	0	2	0	2	1	2	3	3	1	2	6	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:59102469C>T	uc002afj.2	+	4	1206	c.1004C>T	c.(1003-1005)ACA>ATA	p.T335I	FAM63B_uc002afi.2_Missense_Mutation_p.T335I|FAM63B_uc002afk.2_RNA|FAM63B_uc002afl.2_RNA	NM_001040450	NP_001035540	Q8NBR6	FA63B_HUMAN	hypothetical protein LOC54629 isoform a	335										central_nervous_system(1)	1						AAACTACAGACAGGCCTGGAT	0.358													34	159					0	0	0.010771	0	0		T	59102469	T	T	59102469	3	4	23	1	0	0	0	0	1	0	0	0	5611	478	17	4	1018	4	FAM63B	15	59102469	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3579870	59102469	43428923	1040	20368											
HERC1	8925	broad.mit.edu	37	chr15	63952005	63952005	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgatgctcccagtggatcGctgtcagggaactgaactgg	9	9	13	10	1	1	2	1	2	0	0	3	4	2	4	1	3	3	2	1	3	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:63952005G>A	uc002amp.2	-	47	9502	c.9354C>T	c.(9352-9354)AGC>AGT	p.S3118S		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	3118					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						CCAGTGGATCGCTGTCAGGGA	0.438													13	48					0	0	0.004007	0	0		A	63952005	A	A	63952005	2	1	23	1	0	0	0	0	0	0	0	1	7073	1078	38	1		1	HERC1	15	63952005	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4849536	63952005	38579387	1041	20369											
CILP	8483	broad.mit.edu	37	chr15	65499120	65499120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggggcgttctggcttacCtggtgggcagaggaagcgta	6	9	19	7	2	1	1	0	0	1	1	1	2	1	2	1	6	2	4	1	6	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:65499120C>T	uc002aon.2	-	4	605	c.424G>A	c.(424-426)GGA>AGA	p.G142R		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	142					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						TCTGGCTTACCTGGTGGGCAG	0.612													39	123					0	0	0.005524	0	0		T	65499120	T	T	65499120	3	4	23	1	0	0	0	0	1	0	0	0	3432	695	24	4	3154	4	CILP	15	65499120	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1547115	65499120	37032272	1042	20370											
DPP8	54878	broad.mit.edu	37	chr15	65739248	65739248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttttagagcagcaatacGtgatccaaggttttcttgaa	12	13	8	8	1	1	3	0	2	1	1	2	3	2	3	1	1	3	3	1	1	5	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:65739248G>A	uc002aov.2	-	20	4249	c.2671C>T	c.(2671-2673)CGT>TGT	p.R891C	DPP8_uc002aow.2_Missense_Mutation_p.R891C|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.R875C|DPP8_uc002aoy.2_Missense_Mutation_p.R840C|DPP8_uc002aoz.2_Missense_Mutation_p.R775C|DPP8_uc010bhj.2_Missense_Mutation_p.R891C|DPP8_uc002apa.2_Missense_Mutation_p.R684C|DPP8_uc010bhi.2_Missense_Mutation_p.R194C	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	891					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						GCAGCAATACGTGATCCAAGG	0.383													26	162					0	0	0.00632	0	0		A	65739248	A	A	65739248	3	1	23	1	0	0	0	0	1	0	0	0	4738	1145	40	1	29	1	DPP8	15	65739248	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	240128	65739248	36792144	1043	20371											
TIPIN	54962	broad.mit.edu	37	chr15	66629397	66629397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcatttaaagtattggCaatagcatcattacatggat	13	15	6	7	0	3	0	2	0	1	0	3	1	3	1	0	2	2	3	0	2	6	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:66629397C>T	uc002apr.2	-	8	891	c.805G>A	c.(805-807)GCC>ACC	p.A269T	TIPIN_uc010ujn.1_Missense_Mutation_p.A168T|TIPIN_uc010ujo.1_Missense_Mutation_p.A168T	NM_017858	NP_060328	Q9BVW5	TIPIN_HUMAN	TIMELESS interacting protein	269					cell division|DNA replication checkpoint|intra-S DNA damage checkpoint|mitosis|positive regulation of cell proliferation|regulation of DNA replication involved in S phase|replication fork protection	cytoplasm|nuclear chromatin	protein binding			ovary(1)	1						AAAGTATTGGCAATAGCATCA	0.383													34	138					0	0	0.013726	0	0		T	66629397	T	T	66629397	3	4	23	1	0	0	0	0	1	0	0	0	15950	710	25	2	104	2	TIPIN	15	66629397	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	890149	66629397	35901995	1044	20372											
MAP2K1	5604	broad.mit.edu	37	chr15	66729203	66729203	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcgttctacagcgatggCgagatcagtatctgcatgga	9	10	14	8	3	3	1	1	0	2	1	3	4	3	2	0	3	4	3	0	3	2	3	rs146415623		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:66729203C>T	uc010bhq.2	+	3	886	c.411C>T	c.(409-411)GGC>GGT	p.G137G	MAP2K1_uc010ujp.1_Silent_p.G115G	NM_002755	NP_002746	Q02750	MP2K1_HUMAN	mitogen-activated protein kinase kinase 1	137	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|plasma membrane	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						ACAGCGATGGCGAGATCAGTA	0.532									Cardiofaciocutaneous_syndrome				5	126					0	0	0.001984	0	0		T	66729203	T	T	66729203	2	4	23	1	0	0	0	0	0	0	0	1	9254	755	27	1		1	MAP2K1	15	66729203	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	99806	66729203	35802189	1045	20373											
SMAD3	4088	broad.mit.edu	37	chr15	67477177	67477177	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcgctatggctggcacccGgccaccgtctgcaagatccc	7	6	11	17	3	1	1	0	0	1	1	2	1	2	1	4	3	2	4	4	3	2	1	rs150994304		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:67477177G>A	uc002aqj.2	+	7	1282	c.984G>A	c.(982-984)CCG>CCA	p.P328P	SMAD3_uc010ujr.1_Silent_p.P223P|SMAD3_uc010ujs.1_Silent_p.P284P|SMAD3_uc010ujt.1_Silent_p.P133P	NM_005902	NP_005893	P84022	SMAD3_HUMAN	mothers against decapentaplegic homolog 3	328	MH2.				activation of caspase activity|cell cycle arrest|cell-cell junction organization|evasion of host defenses by virus|immune response|induction of apoptosis|negative regulation of cell growth|negative regulation of mitotic cell cycle|negative regulation of protein catabolic process|negative regulation of protein phosphorylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|protein stabilization|regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|transport|wound healing	cytosol|nuclear inner membrane|receptor complex	beta-catenin binding|co-SMAD binding|metal ion binding|protein homodimerization activity|protein kinase binding|R-SMAD binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor binding|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|ubiquitin protein ligase binding			large_intestine(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5				Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(7;0.125)		GCTGGCACCCGGCCACCGTCT	0.597													12	24					0	0	0.004007	0	0		A	67477177	A	A	67477177	2	1	23	1	0	0	0	0	0	0	0	1	14784	1103	39	1		1	SMAD3	15	67477177	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	747974	67477177	35054215	1046	20374											
LBXCOR1	390598	broad.mit.edu	37	chr15	68118543	68118543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgtggccctgggcatcaCgtgcgtgcagtgcacgccgg	4	6	16	15	6	1	0	1	0	0	0	1	0	1	0	3	3	3	3	3	3	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:68118543C>T	uc002aqy.1	+	2	350	c.350C>T	c.(349-351)ACG>ATG	p.T117M		NM_001031807	NP_001026977	P84550	SKOR1_HUMAN	transcriptional corepressor Corl1	126					negative regulation of BMP signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|dendrite|neuronal cell body|nucleus	nucleotide binding|SMAD binding|transcription repressor activity				0						CTGGGCATCACGTGCGTGCAG	0.642													19	91					0	0	0.003954	0	0		T	68118543	T	T	68118543	3	4	23	1	0	0	0	0	1	0	0	0	8671	536	19	1	356	1	LBXCOR1	15	68118543	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	641366	68118543	34412849	1047	20375											
MYO9A	4649	broad.mit.edu	37	chr15	72190884	72190884	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagctctcactatcaggtgtAccccgtggagactgaaggcc	9	8	12	12	1	2	2	2	1	1	1	3	4	2	2	3	3	2	2	3	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:72190884A>G	uc002atl.3	-	25	4433	c.3960T>C	c.(3958-3960)GGT>GGC	p.G1320G	MYO9A_uc010biq.2_Silent_p.G940G|MYO9A_uc002atn.1_Silent_p.G1301G|MYO9A_uc002atk.2_Silent_p.G44G|MYO9A_uc002atm.1_Silent_p.G44G	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	1320	Tail.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						TATCAGGTGTACCCCGTGGAG	0.463													22	110					0	0	0.012319	0	0		G	72190884	G	G	72190884	2	3	23	1	0	0	0	0	0	0	0	1	10102	378	14	3		3	MYO9A	15	72190884	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	4072341	72190884	30340508	1048	20376											
HEXA	3073	broad.mit.edu	37	chr15	72637826	72637826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtgtgacaaacgttcatagGcaaatgtcaggtcagatgtc	13	10	11	7	1	3	2	3	1	0	1	4	2	3	2	0	2	1	2	0	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:72637826G>A	uc002aun.3	-	13	1694	c.1487C>T	c.(1486-1488)GCC>GTC	p.A496V	uc002aug.2_RNA|CELF6_uc002auk.3_RNA|HEXA_uc010ukn.1_Missense_Mutation_p.A507V|HEXA_uc002auo.3_Missense_Mutation_p.A359V|HEXA_uc010bix.2_Missense_Mutation_p.A496V	NM_000520	NP_000511	P06865	HEXA_HUMAN	hexosaminidase A preproprotein	496					cell death	lysosome	beta-N-acetylhexosaminidase activity|cation binding|protein heterodimerization activity			ovary(3)|upper_aerodigestive_tract(1)	4						ACGTTCATAGGCAAATGTCAG	0.582													15	52					0	0	0.007413	0	0		A	72637826	A	A	72637826	3	1	23	1	0	0	0	0	1	0	0	0	7089	1203	42	2	110	2	HEXA	15	72637826	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	446942	72637826	29893566	1049	20377											
HCN4	10021	broad.mit.edu	37	chr15	73635953	73635953	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaatccgctgcgggtccaGgatgatctctgtgttgtcct	5	15	11	10	2	1	1	0	1	1	0	5	2	4	2	3	2	1	2	3	2	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:73635953G>A	uc002avp.2	-	2	1976	c.982C>T	c.(982-984)CTG>TTG	p.L328L		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	328	Cytoplasmic (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		TGCGGGTCCAGGATGATCTCT	0.488													3	50					0	0	0.004672	0	0		A	73635953	A	A	73635953	2	1	23	1	0	0	0	0	0	0	0	1	7015	991	35	4		4	HCN4	15	73635953	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	998127	73635953	28895439	1050	20378											
ISLR2	57611	broad.mit.edu	37	chr15	74425464	74425464	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgacctgcgcaacctgagCgcgctgcagctgctcaaaat	10	6	11	14	4	1	1	1	1	0	0	1	2	1	1	2	0	7	5	2	0	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:74425464C>T	uc002axd.2	+	4	1138	c.369C>T	c.(367-369)AGC>AGT	p.S123S	ISLR2_uc002axe.2_Silent_p.S123S|ISLR2_uc010bjg.2_Silent_p.S123S|ISLR2_uc010bjf.2_Silent_p.S123S	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	123	LRR 3.|Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						GCAACCTGAGCGCGCTGCAGC	0.617													16	99					0	0	0.004007	0	0		T	74425464	T	T	74425464	2	4	23	1	0	0	0	0	0	0	0	1	7875	767	27	1		1	ISLR2	15	74425464	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	789511	74425464	28105928	1051	20379											
CCDC33	80125	broad.mit.edu	37	chr15	74626275	74626275	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggccaagctggaacaCgctcagagccggatcctgtc	8	7	11	15	2	1	1	1	0	0	1	4	3	3	3	4	3	3	2	4	3	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:74626275C>T	uc002axo.2	+	17	2386	c.1992C>T	c.(1990-1992)CAC>CAT	p.H664H	CCDC33_uc002axp.2_Silent_p.H520H|CCDC33_uc002axq.2_Silent_p.H291H|CCDC33_uc002axr.2_Silent_p.H257H	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	867	Potential.						protein binding			ovary(3)|skin(2)	5						AGCTGGAACACGCTCAGAGCC	0.567													14	44					0	0	0.001855	0	0		T	74626275	T	T	74626275	2	4	23	1	0	0	0	0	0	0	0	1	2809	535	19	1		1	CCDC33	15	74626275	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	200811	74626275	27905117	1052	20380											
LMAN1L	79748	broad.mit.edu	37	chr15	75117834	75117834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcaggagctgaacaagaGccttcaggagtgtctgtcca	11	7	13	10	0	2	2	1	1	1	1	3	4	3	4	2	3	3	2	2	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:75117834G>A	uc002ayt.1	+	14	1471	c.1469G>A	c.(1468-1470)AGC>AAC	p.S490N	LMAN1L_uc010bke.1_Missense_Mutation_p.S478N|CPLX3_uc002ayu.1_5'Flank	NM_021819	NP_068591	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like precursor	490	Cytoplasmic (Potential).					ER-Golgi intermediate compartment membrane|integral to membrane	sugar binding				0						CTGAACAAGAGCCTTCAGGAG	0.577													69	274					0	0	0.01441	0	0		A	75117834	A	A	75117834	3	1	23	1	0	0	0	0	1	0	0	0	8854	971	34	2	1523	2	LMAN1L	15	75117834	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	491559	75117834	27413558	1053	20381											
CSPG4	1464	broad.mit.edu	37	chr15	75968944	75968944	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tatgctgcctctggctcctcCcgatctgaaaccacccggag	7	9	9	16	2	2	1	0	1	2	0	4	3	4	2	5	2	3	2	5	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:75968944C>T	uc002baw.2	-	10	6009	c.5916G>A	c.(5914-5916)CGG>CGA	p.R1972R		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1972	Extracellular (Potential).|CSPG 14.|Cysteine-containing.|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						CTGGCTCCTCCCGATCTGAAA	0.662													7	100					0	0	0.001855	0	0		T	75968944	T	T	75968944	2	4	23	1	0	0	0	0	0	0	0	1	3963	610	22	4		4	CSPG4	15	75968944	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	851110	75968944	26562448	1054	20382											
ADAMTS7	11173	broad.mit.edu	37	chr15	79083119	79083119	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggtgttgtctgcatggtgCgtgatctttaggtcctcctg	4	15	14	8	1	2	1	0	1	2	0	4	1	4	1	2	3	2	2	2	3	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:79083119C>T	uc002bej.3	-	6	1132	c.921G>A	c.(919-921)ACG>ACA	p.T307T	ADAMTS7_uc010und.1_Silent_p.T307T|ADAMTS7_uc002bek.1_Silent_p.T307T	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	307	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						CTGCATGGTGCGTGATCTTTA	0.562													27	73					0	0	0.012213	0	0		T	79083119	T	T	79083119	2	4	23	1	0	0	0	0	0	0	0	1	271	755	27	1		1	ADAMTS7	15	79083119	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3114175	79083119	23448273	1055	20383											
AP3B2	8120	broad.mit.edu	37	chr15	83334219	83334219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccgctgacctccacgttgCgcacagatgggtctggggct	5	8	13	15	3	1	2	0	1	1	1	2	2	2	2	4	3	1	4	4	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:83334219C>T	uc010uoh.1	-	16	2138	c.1961G>A	c.(1960-1962)CGC>CAC	p.R654H	AP3B2_uc010uoi.1_Missense_Mutation_p.R654H|AP3B2_uc010uoj.1_Missense_Mutation_p.R622H|AP3B2_uc010bmp.2_5'Flank|AP3B2_uc010uog.1_Missense_Mutation_p.R290H|AP3B2_uc002biy.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	654	Glu/Ser-rich.				endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			CTCCACGTTGCGCACAGATGG	0.458													14	81					0	0	0.003163	0	0		T	83334219	T	T	83334219	3	4	23	1	0	0	0	0	1	0	0	0	745	768	27	1	1331	1	AP3B2	15	83334219	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4251100	83334219	19197173	1056	20384											
AKAP13	11214	broad.mit.edu	37	chr15	86123335	86123335	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacttctagtggcgatttggTtgcaaaactgtgtgataaca	11	13	11	6	1	1	1	0	1	1	0	1	3	1	1	0	2	3	2	0	2	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:86123335T>C	uc002blv.1	+	7	2206	c.2036T>C	c.(2035-2037)GTT>GCT	p.V679A	AKAP13_uc002blt.1_Missense_Mutation_p.V679A|AKAP13_uc002blu.1_Missense_Mutation_p.V679A|AKAP13_uc010bne.1_5'Flank	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	679					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						GGCGATTTGGTTGCAAAACTG	0.483													7	180					0	0	0.001984	0	0		C	86123335	C	C	86123335	3	2	23	1	0	0	0	0	1	0	0	0	449	1725	60	3	2058	3	AKAP13	15	86123335	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2789116	86123335	16408057	1057	20385											
KLHL25	64410	broad.mit.edu	37	chr15	86311780	86311780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaccatcatccacttgttgGccccagggtcgtatttctcc	6	12	7	16	1	2	0	1	0	1	0	5	0	3	0	6	2	0	2	6	2	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:86311780G>A	uc002bly.2	-	2	1465	c.1262C>T	c.(1261-1263)GCC>GTC	p.A421V		NM_022480	NP_071925	Q9H0H3	ENC2_HUMAN	BTB/POZ KELCH domain protein	421	Kelch 3.					cytoplasm				ovary(2)	2						CCACTTGTTGGCCCCAGGGTC	0.587													8	78					0	0	0.004482	0	0		A	86311780	A	A	86311780	3	1	23	1	0	0	0	0	1	0	0	0	8396	1203	42	2	511	2	KLHL25	15	86311780	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	188445	86311780	16219612	1058	20386											
KIF7	374654	broad.mit.edu	37	chr15	90171797	90171797	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggctcagccgcctcccgCtgcctcagttcctcggggga	4	7	14	16	3	2	0	2	0	0	0	5	1	4	1	5	4	2	3	5	4	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:90171797C>T	uc002bof.2	-	19	3962	c.3885G>A	c.(3883-3885)CAG>CAA	p.Q1295Q	KIF7_uc010upw.1_Silent_p.Q781Q|C15orf42_uc010upv.1_Intron	NM_198525	NP_940927	Q2M1P5	KIF7_HUMAN	kinesin family member 7	1295					microtubule-based movement|negative regulation of smoothened signaling pathway|positive regulation of smoothened signaling pathway	cilium	ATP binding|microtubule motor activity|protein binding			ovary(2)|lung(1)	3	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			CCGCCTCCCGCTGCCTCAGTT	0.682													11	60					0	0	0.00245	0	0		T	90171797	T	T	90171797	2	4	23	1	0	0	0	0	0	0	0	1	8325	796	28	2		2	KIF7	15	90171797	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3860017	90171797	12359595	1059	20387											
ASB7	140460	broad.mit.edu	37	chr15	101152629	101152629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgggtttttctagaacacGgaggtgagttttgtagaagc	9	14	13	5	2	1	3	0	1	1	2	2	4	1	4	0	3	2	3	0	3	4	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr15:101152629G>A	uc002bwk.2	+	4	977	c.208G>A	c.(208-210)GGA>AGA	p.G70R	ASB7_uc002bwj.2_Missense_Mutation_p.G70R	NM_198243	NP_937886	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box-containing protein 7	70	ANK 2.				intracellular signal transduction					skin(1)	1	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			TCTAGAACACGGAGGTGAGTT	0.398													7	94					0	0	0.004482	0	0		A	101152629	A	A	101152629	3	1	23	1	0	0	0	0	1	0	0	0	1029	1117	39	1	210	1	ASB7	15	101152629	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	10980832	101152629	1378763	1060	20388											
AXIN1	8312	broad.mit.edu	37	chr16	396309	396309	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctcatcttcatttaaggtCggcaggtatccagatatgcc	9	13	8	11	1	3	1	2	0	1	1	6	1	5	1	3	3	1	2	3	3	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:396309C>T	uc002cgp.1	-	2	894	c.717G>A	c.(715-717)CCG>CCA	p.P239P	AXIN1_uc002cgq.1_Silent_p.P239P	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	239	Interaction with TP53 (By similarity).				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				CATTTAAGGTCGGCAGGTATC	0.542													30	158					0	0	0.009535	0	0		T	396309	T	T	396309	2	4	23	1	0	0	0	0	0	0	0	1	1237	871	31	1		1	AXIN1	16	396309	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08		396309	89958444	1061	20389											
DECR2	26063	broad.mit.edu	37	chr16	461554	461554	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcaaagggctgccggatttCgcatccttctctgctaagct	7	12	10	12	2	2	0	1	0	1	0	5	1	3	1	2	2	3	4	2	2	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:461554C>T	uc002chb.2	+	8	961	c.855C>T	c.(853-855)TTC>TTT	p.F285F	DECR2_uc002chc.2_Silent_p.F201F|DECR2_uc010bqv.2_Silent_p.F201F|DECR2_uc002chd.2_Silent_p.F201F|DECR2_uc002che.1_RNA	NM_020664	NP_065715	Q9NUI1	DECR2_HUMAN	2,4-dienoyl CoA reductase 2	285						peroxisome	2,4-dienoyl-CoA reductase (NADPH) activity|binding				0		Hepatocellular(16;0.00015)				TGCCGGATTTCGCATCCTTCT	0.622													41	50					0	0	0.010771	0	0		T	461554	T	T	461554	2	4	23	1	0	0	0	0	0	0	0	1	4386	883	31	1		1	DECR2	16	461554	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	65245	461554	89893199	1062	20390											
WFIKKN1	117166	broad.mit.edu	37	chr16	683373	683373	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctctggcactacgacccGcagcggggcggctgcatgac	6	6	14	15	4	1	1	0	1	1	0	2	2	2	1	2	4	3	4	2	4	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:683373G>A	uc002cht.1	+	2	1205	c.963G>A	c.(961-963)CCG>CCA	p.P321P	WFIKKN1_uc002chs.1_3'UTR	NM_053284	NP_444514	Q96NZ8	WFKN1_HUMAN	WAP, follistatin/kazal, immunoglobulin, kunitz	321	BPTI/Kunitz inhibitor 1.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity				0		Hepatocellular(780;0.00335)				ACTACGACCCGCAGCGGGGCG	0.726													6	11					0	0	0.004482	0	0		A	683373	A	A	683373	2	1	23	1	0	0	0	0	0	0	0	1	17384	1074	38	1		1	WFIKKN1	16	683373	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	221819	683373	89671380	1063	20391											
BAIAP3	8938	broad.mit.edu	37	chr16	1394682	1394682	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagttctgctacagtgtgtaCgccagcctcttccacaggtg	7	11	10	13	1	2	0	0	0	2	0	3	0	3	0	3	1	4	3	3	1	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:1394682C>T	uc002clk.1	+	19	1845	c.1845C>T	c.(1843-1845)TAC>TAT	p.Y615Y	BAIAP3_uc002clj.2_Silent_p.Y597Y|BAIAP3_uc010uuz.1_Silent_p.Y580Y|BAIAP3_uc010uva.1_Silent_p.Y552Y|BAIAP3_uc010uvc.1_Silent_p.Y544Y	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	615					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				ACAGTGTGTACGCCAGCCTCT	0.647													6	85					0	0	0.001984	0	0		T	1394682	T	T	1394682	2	4	23	1	0	0	0	0	0	0	0	1	1305	547	19	1		1	BAIAP3	16	1394682	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	711309	1394682	88960071	1064	20392											
GNPTG	84572	broad.mit.edu	37	chr16	1411874	1411874	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgccatctgtgtccccaggTacaagtatgagttctgcccg	8	11	10	12	1	2	1	0	1	2	0	3	1	3	1	4	1	3	3	4	1	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:1411874T>C	uc002clm.2	+	5	270	c.235T>C	c.(235-237)TAC>CAC	p.Y79H		NM_032520	NP_115909	Q9UJJ9	GNPTG_HUMAN	N-acetylglucosamine-1-phosphotransferase, gamma	79	PRKCSH.					extracellular region|Golgi apparatus	protein binding			central_nervous_system(1)	1		Hepatocellular(780;0.0893)				TGTCCCCAGGTACAAGTATGA	0.652													33	41					0	0	0.013726	0	0		C	1411874	C	C	1411874	3	2	23	1	0	0	0	0	1	0	0	0	6561	1652	57	3	253	3	GNPTG	16	1411874	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	17192	1411874	88942879	1065	20393											
TBL3	10607	broad.mit.edu	37	chr16	2024837	2024837	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacttccgaggctcgccCggtgtcgtgcagtgagttgg	5	9	14	13	4	0	1	0	1	0	0	3	2	1	1	3	3	1	3	3	3	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:2024837C>T	uc002cnu.1	+	6	555	c.453C>T	c.(451-453)CCC>CCT	p.P151P	TBL3_uc002cnv.1_Silent_p.P37P|TBL3_uc010bsb.1_5'UTR|TBL3_uc010bsc.1_Silent_p.P37P|TBL3_uc010uvt.1_5'Flank|TBL3_uc002cnw.1_5'Flank	NM_006453	NP_006444	Q12788	TBL3_HUMAN	transducin beta-like 3	151	WD 3.				G-protein signaling, coupled to cGMP nucleotide second messenger|rRNA processing	nucleolus|small-subunit processome	receptor signaling protein activity				0						GAGGCTCGCCCGGTGTCGTGC	0.682													15	58					0	0	0.007413	0	0		T	2024837	T	T	2024837	2	4	23	1	0	0	0	0	0	0	0	1	15668	639	23	1		1	TBL3	16	2024837	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	612963	2024837	88329916	1066	20394											
PKD1	5310	broad.mit.edu	37	chr16	2158560	2158560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgccgggcagggccacaCgcgctgggcgccccggccgc	4	1	16	20	7	0	0	0	0	0	0	0	0	0	0	6	4	0	2	6	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:2158560C>T	uc002cos.1	-	15	6817	c.6608G>A	c.(6607-6609)CGT>CAT	p.R2203H	PKD1_uc002cot.1_Missense_Mutation_p.R2203H	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2203	Extracellular (Potential).|REJ.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CAGGGCCACACGCGCTGGGCG	0.692													5	7					0	0	0.010729	0	0		T	2158560	T	T	2158560	3	4	23	1	0	0	0	0	1	0	0	0	11982	536	19	1	6431	1	PKD1	16	2158560	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	133723	2158560	88196193	1067	20395											
PKD1	5310	broad.mit.edu	37	chr16	2163281	2163281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgagccggcctccaccaCggggctgtacctctgcgggg	4	6	15	16	4	1	0	0	0	1	0	3	1	3	0	6	5	3	2	6	5	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:2163281C>T	uc002cos.1	-	12	3075	c.2866G>A	c.(2866-2868)GTG>ATG	p.V956M	PKD1_uc002cot.1_Missense_Mutation_p.V956M	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	956	Extracellular (Potential).|PKD 4.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GCCTCCACCACGGGGCTGTAC	0.617													26	187					0	0	0.003271	0	0		T	2163281	T	T	2163281	3	4	23	1	0	0	0	0	1	0	0	0	11982	536	19	1	10185	1	PKD1	16	2163281	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4721	2163281	88191472	1068	20396											
ABCA3	21	broad.mit.edu	37	chr16	2347854	2347854	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgtgagttccacttgtcCtccaggccgatgatgtgcag	6	11	11	13	2	0	2	0	2	0	0	4	3	4	2	5	1	1	2	5	1	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:2347854C>A	uc002cpy.1	-	16	2677	c.1965G>T	c.(1963-1965)GAG>GAT	p.E655D	ABCA3_uc010bsk.1_Missense_Mutation_p.E597D|ABCA3_uc010bsl.1_Missense_Mutation_p.E655D	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	655	ABC transporter 1.				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				TCCACTTGTCCTCCAGGCCGA	0.627													5	199					0.00116845	0.00119041	0.001168	1	0		A	2347854	A	A	2347854	3	1	23	1	0	0	0	0	1	0	0	0	33	680	24	5	3221	5	ABCA3	16	2347854	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	184573	2347854	88006899	1069	20397											
ZNF174	7727	broad.mit.edu	37	chr16	3458393	3458393	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaaggagcaaagccatgtgCagtgtcagctggcagatcca	13	7	12	9	0	1	1	1	0	0	1	2	2	2	2	2	2	4	4	2	2	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:3458393C>T	uc002cvc.2	+	3	1513	c.698C>T	c.(697-699)GCA>GTA	p.A233V		NM_003450	NP_003441	Q15697	ZN174_HUMAN	zinc finger protein 174 isoform a	233					negative regulation of transcription from RNA polymerase II promoter|viral reproduction	actin cytoskeleton|cytoplasm|nucleus	protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0						AAGCCATGTGCAGTGTCAGCT	0.483													25	139					0	0	0.004656	0	0		T	3458393	T	T	3458393	3	4	23	1	0	0	0	0	1	0	0	0	17769	710	25	2	792	2	ZNF174	16	3458393	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1110539	3458393	86896360	1070	20398											
BTBD12	84464	broad.mit.edu	37	chr16	3640516	3640516	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccgcggggactcccgccCtggggaggccccaataggaa	8	3	15	15	3	0	0	0	0	0	0	1	4	1	3	5	6	0	0	5	6	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:3640516C>T	uc002cvp.2	-	12	3750	c.3123G>A	c.(3121-3123)CAG>CAA	p.Q1041Q		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1041	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						GACTCCCGCCCTGGGGAGGCC	0.672								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				53	111					0	0	0.01441	0	0		T	3640516	T	T	3640516	2	4	23	1	0	0	0	0	0	0	0	1	1543	680	24	4		4	BTBD12	16	3640516	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	182123	3640516	86714237	1071	20399											
TRAP1	10131	broad.mit.edu	37	chr16	3736128	3736128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcattggagatcagctcccGtataaacacctacaggaata	14	8	9	10	1	1	1	1	0	0	1	2	3	2	2	2	3	3	3	2	3	6	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:3736128G>A	uc002cvt.3	-	4	429	c.340C>T	c.(340-342)CGG>TGG	p.R114W	TRAP1_uc010uxf.1_Missense_Mutation_p.R61W	NM_016292	NP_057376	Q12931	TRAP1_HUMAN	TNF receptor-associated protein 1 precursor	114					cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)				ATCAGCTCCCGTATAAACACC	0.478													28	64					0	0	0.008361	0	0		A	3736128	A	A	3736128	3	1	23	1	0	0	0	0	1	0	0	0	16481	1144	40	1	1834	1	TRAP1	16	3736128	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	95612	3736128	86618625	1072	20400											
ADCY9	115	broad.mit.edu	37	chr16	4164370	4164370	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcgaggtggcatgcctcttGacagaattctcactctcctc	7	12	8	14	1	3	2	1	1	3	1	7	3	3	2	2	2	1	1	2	2	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:4164370G>A	uc002cvx.2	-	2	1613	c.1074C>T	c.(1072-1074)GTC>GTT	p.V358V		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	358	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						CATGCCTCTTGACAGAATTCT	0.468													72	115					0	0	0.01441	0	0		A	4164370	A	A	4164370	2	1	23	1	0	0	0	0	0	0	0	1	301	1277	45	4		4	ADCY9	16	4164370	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	428242	4164370	86190383	1073	20401											
CORO7	79585	broad.mit.edu	37	chr16	4410338	4410338	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagacaatgcgagctccGcgtcctcccttgggccctgg	6	7	11	17	3	0	1	0	0	0	1	3	2	3	1	5	2	2	1	5	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:4410338G>A	uc002cwh.3	-	21	2169	c.2049C>T	c.(2047-2049)CGC>CGT	p.R683R	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Silent_p.R683R|CORO7_uc002cwg.3_Silent_p.R463R|CORO7_uc010uxh.1_Silent_p.R665R|CORO7_uc010uxi.1_Silent_p.R598R|CORO7_uc002cwi.1_Silent_p.R463R	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	683						cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						TGCGAGCTCCGCGTCCTCCCT	0.617													17	48					0	0	0.00499	0	0		A	4410338	A	A	4410338	2	1	23	1	0	0	0	0	0	0	0	1	3762	1074	38	1		1	CORO7	16	4410338	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	245968	4410338	85944415	1074	20402											
TXNDC11	51061	broad.mit.edu	37	chr16	11773386	11773386	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgtggagcaggctgtgctGctcttccagggcccgctgct	3	10	15	13	2	1	0	0	0	1	0	2	1	2	1	2	3	5	6	2	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:11773386G>T	uc010buu.1	-	13	2685	c.2623C>A	c.(2623-2625)CAG>AAG	p.Q875K	TXNDC11_uc002dbg.1_Missense_Mutation_p.Q848K	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	875	Potential.				cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						AGGCTGTGCTGCTCTTCCAGG	0.657													17	40					5.35267e-07	5.59582e-07	0.007413	1	0		T	11773386	T	T	11773386	3	4	23	1	0	0	0	0	1	0	0	0	16818	1328	46	5	338	5	TXNDC11	16	11773386	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	7363048	11773386	78581367	1075	20403											
TMC7	79905	broad.mit.edu	37	chr16	19051753	19051753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccaggctttgagatccGtctgacaatccttaggtaat	9	14	8	10	1	2	2	0	2	2	1	5	3	4	2	3	2	0	2	3	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:19051753G>A	uc002dfq.2	+	9	1452	c.1322G>A	c.(1321-1323)CGT>CAT	p.R441H	TMC7_uc010vao.1_3'UTR|TMC7_uc002dfp.2_Missense_Mutation_p.R441H|TMC7_uc010vap.1_Missense_Mutation_p.R331H	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	441	Cytoplasmic (Potential).					integral to membrane				skin(2)|ovary(1)	3						TTTGAGATCCGTCTGACAATC	0.284													34	70					0	0	0.003271	0	0		A	19051753	A	A	19051753	3	1	23	1	0	0	0	0	1	0	0	0	16015	1145	40	1	1356	1	TMC7	16	19051753	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	7278367	19051753	71303000	1076	20404											
GPRC5B	51704	broad.mit.edu	37	chr16	19883732	19883732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcaccagcctccgcacgcGccatgcctggctcagcaggc	6	4	11	20	4	1	0	1	0	0	0	2	0	2	0	6	2	3	4	6	2	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:19883732G>A	uc002dgt.2	-	2	544	c.436C>T	c.(436-438)CGC>TGC	p.R146C	GPRC5B_uc010vav.1_Missense_Mutation_p.R172C	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	146	Helical; Name=3; (Potential).									lung(1)|breast(1)|skin(1)	3						CTCCGCACGCGCCATGCCTGG	0.667													14	46					0	0	0.004007	0	0		A	19883732	A	A	19883732	3	1	23	1	0	0	0	0	1	0	0	0	6741	1087	38	1	787	1	GPRC5B	16	19883732	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	831979	19883732	70471021	1077	20405											
DNAH3	55567	broad.mit.edu	37	chr16	21170726	21170726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcccggatggggaggggCggccagtgtgagctcgaggc	5	5	22	9	3	0	1	0	1	0	0	1	4	0	3	2	8	1	1	2	8	0	0	rs150677996	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:21170726C>T	uc010vbe.1	-	1	37	c.37G>A	c.(37-39)GCC>ACC	p.A13T	TMEM159_uc002dif.3_Intron|TMEM159_uc002dig.3_Intron|TMEM159_uc010vbf.1_Intron|TMEM159_uc002dih.3_Intron	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	13	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TGGGGAGGGGCGGCCAGTGTG	0.632													36	150					0	0	0.004878	0	0		T	21170726	T	T	21170726	3	4	23	1	0	0	0	0	1	0	0	0	4609	768	27	1	12560	1	DNAH3	16	21170726	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1286994	21170726	69184027	1078	20406											
ZP2	7783	broad.mit.edu	37	chr16	21216851	21216851	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggcagggtcagagtttTggctcttgcaccatcaccaa	8	11	10	12	0	4	1	2	0	2	1	4	1	4	1	2	3	1	4	2	3	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:21216851T>G	uc002dii.2	-	7	583	c.583A>C	c.(583-585)AAA>CAA	p.K195Q	ZP2_uc010bwn.1_Missense_Mutation_p.K234Q|ZP2_uc010bwo.2_Missense_Mutation_p.K234Q	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	195	Extracellular (Potential).				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		GTCAGAGTTTTGGCTCTTGCA	0.507													58	99					0	0	0.01441	0	0		G	21216851	G	G	21216851	3	3	23	1	0	0	0	0	1	0	0	0	18241	1821	63	5	1706	5	ZP2	16	21216851	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	46125	21216851	69137902	1079	20407											
EEF2K	29904	broad.mit.edu	37	chr16	22291646	22291646	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatgctggccagggaggccGagatgctgttcacaggaggc	8	7	17	9	1	1	2	1	1	0	1	1	5	1	4	2	5	2	3	2	5	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:22291646G>A	uc002dki.2	+	17	2502	c.2017G>A	c.(2017-2019)GAG>AAG	p.E673K	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	673					insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		CAGGGAGGCCGAGATGCTGTT	0.637													18	40					0	0	0.012319	0	0		A	22291646	A	A	22291646	3	1	23	1	0	0	0	0	1	0	0	0	4936	1059	37	1	2079	1	EEF2K	16	22291646	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1074795	22291646	68063107	1080	20408											
USP31	57478	broad.mit.edu	37	chr16	23091344	23091344	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgtagtcctcagggtccCtcccgagtccatagggccgt	7	9	12	13	2	1	1	1	0	0	1	5	2	5	1	5	2	0	1	5	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:23091344C>A	uc002dll.2	-	13	2099	c.2099G>T	c.(2098-2100)AGG>ATG	p.R700M	USP31_uc010bxm.2_Missense_Mutation_p.G5W	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	700					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		CTCAGGGTCCCTCCCGAGTCC	0.582													13	84					3.27435e-08	3.45318e-08	0.00245	1	0		A	23091344	A	A	23091344	3	1	23	1	0	0	0	0	1	0	0	0	17088	681	24	5	1975	5	USP31	16	23091344	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	799698	23091344	67263409	1081	20409											
COG7	91949	broad.mit.edu	37	chr16	23444982	23444982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttgccaggctgctaaaaGctgcacctgcagagacagaa	12	7	10	12	0	1	2	0	0	1	2	1	3	1	2	2	1	5	5	2	1	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:23444982G>A	uc002dlo.2	-	6	882	c.694C>T	c.(694-696)CTT>TTT	p.L232F		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	232					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		GCTGCTAAAAGCTGCACCTGC	0.527													20	59					0	0	0.008871	0	0		A	23444982	A	A	23444982	3	1	23	1	0	0	0	0	1	0	0	0	3666	971	34	2	1666	2	COG7	16	23444982	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	353638	23444982	66909771	1082	20410											
PALB2	79728	broad.mit.edu	37	chr16	23637590	23637590	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtataaagtttttcccaCtgccaagcatccagagcttt	11	12	7	11	0	0	1	0	0	0	1	2	1	2	1	3	1	3	4	3	1	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:23637590C>T	uc002dlx.1	-	7	2915	c.2715G>A	c.(2713-2715)CAG>CAA	p.Q905Q		NM_024675	NP_078951	Q86YC2	PALB2_HUMAN	partner and localizer of BRCA2	905	Interaction with RAD51 and BRCA2.|WD 1.				double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)		GTTTTTCCCACTGCCAAGCAT	0.458			F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				11	103					0	0	0.010729	0	0		T	23637590	T	T	23637590	2	4	23	1	0	0	0	0	0	0	0	1	11425	564	20	4		4	PALB2	16	23637590	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	192608	23637590	66717163	1083	20411											
LCMT1	51451	broad.mit.edu	37	chr16	25123281	25123281	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgcagacgacgagggcgTgcgcggcacctgcgaagatg	9	3	17	12	8	0	2	0	0	0	2	0	6	0	2	1	2	2	2	1	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:25123281T>C	uc002dnx.1	+	1	235	c.77T>C	c.(76-78)GTG>GCG	p.V26A	LCMT1_uc002dny.1_Missense_Mutation_p.V26A|LCMT1_uc002dnz.1_5'UTR|LCMT1_uc002doa.1_5'UTR|LCMT1_uc002dnw.1_RNA	NM_016309	NP_057393	Q9UIC8	LCMT1_HUMAN	leucine carboxyl methyltransferase 1 isoform a	26							protein binding|protein C-terminal carboxyl O-methyltransferase activity|S-adenosylmethionine-dependent methyltransferase activity				0				GBM - Glioblastoma multiforme(48;0.0336)	L-Leucine(DB00149)	GACGAGGGCGTGCGCGGCACC	0.687													8	18					0	0	0.004482	0	0		C	25123281	C	C	25123281	3	2	23	1	0	0	0	0	1	0	0	0	8694	1696	59	3	79	3	LCMT1	16	25123281	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1485691	25123281	65231472	1084	20412											
GTF3C1	2975	broad.mit.edu	37	chr16	27556722	27556722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttcctctccttaaagtagCggcatgagccctggatgcca	8	12	9	12	1	1	1	0	1	1	0	3	2	2	2	4	2	3	2	4	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:27556722C>T	uc002dov.1	-	2	384	c.344G>A	c.(343-345)CGC>CAC	p.R115H	GTF3C1_uc002dou.2_Missense_Mutation_p.R115H	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	115						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CTTAAAGTAGCGGCATGAGCC	0.468													66	113					0	0	0.01441	0	0		T	27556722	T	T	27556722	3	4	23	1	0	0	0	0	1	0	0	0	6888	768	27	1	6129	1	GTF3C1	16	27556722	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2433441	27556722	62798031	1085	20413											
CD19	930	broad.mit.edu	37	chr16	28946835	28946835	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actttggcttatctgatcttCtgcctgtgttcccttgtggg	3	18	10	10	0	3	1	0	1	3	0	4	1	4	1	2	2	1	2	2	2	1	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:28946835C>T	uc002drs.2	+	5	968	c.906C>T	c.(904-906)TTC>TTT	p.F302F	uc010vct.1_Intron|CD19_uc010byo.1_Silent_p.F302F	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	302	Helical; (Potential).				cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						ATCTGATCTTCTGCCTGTGTT	0.542													5	111					0	0	0.000602	0	0		T	28946835	T	T	28946835	2	4	23	1	0	0	0	0	0	0	0	1	2976	912	32	4		4	CD19	16	28946835	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1390113	28946835	61407918	1086	20414											
TBC1D10B	26000	broad.mit.edu	37	chr16	30369641	30369641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggcccagcactggctctgCggacggggggcggcggggac	5	3	20	13	4	1	0	0	0	1	0	1	2	1	2	1	9	2	2	1	9	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:30369641C>T	uc002dxu.2	-	9	2069	c.2051G>A	c.(2050-2052)CGC>CAC	p.R684H	CD2BP2_uc002dxs.2_5'Flank|TBC1D10B_uc002dxt.2_Missense_Mutation_p.R109H	NM_015527	NP_056342	Q4KMP7	TB10B_HUMAN	TBC1 domain family, member 10B	684						cytoplasm	Rab GTPase activator activity				0			Colorectal(24;0.193)			ACTGGCTCTGCGGACGGGGGG	0.721													4	2					0	0	0.000602	0	0		T	30369641	T	T	30369641	3	4	23	1	0	0	0	0	1	0	0	0	15624	768	27	1	379	1	TBC1D10B	16	30369641	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1422806	30369641	59985112	1087	20415											
C16orf93	90835	broad.mit.edu	37	chr16	30768963	30768963	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgatgtaggctcggaggAcgtggatgtggcctgcaggg	6	10	18	7	2	1	1	0	1	1	0	2	4	1	4	1	6	1	3	1	6	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:30768963A>G	uc002dzm.2	-	9	1161	c.830T>C	c.(829-831)GTC>GCC	p.V277A	C16orf93_uc002dzn.2_Missense_Mutation_p.V342A|C16orf93_uc002dzo.2_Missense_Mutation_p.V240A	NM_001014979	NP_001014979	A1A4V9	CP093_HUMAN	hypothetical protein LOC90835	277											0						GGCTCGGAGGACGTGGATGTG	0.617													3	105					0	0	0.009096	0	0		G	30768963	G	G	30768963	3	3	23	1	0	0	0	0	1	0	0	0	1849	275	10	3	169	3	C16orf93	16	30768963	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	399322	30768963	59585790	1088	20416											
RNF40	9810	broad.mit.edu	37	chr16	30780556	30780556	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgacaggtcaggcttttgAggacatgcaggaacagaacg	12	8	14	7	1	1	3	1	2	0	1	1	5	1	5	0	4	3	2	0	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:30780556A>G	uc002dzq.2	+	16	2420	c.2297A>G	c.(2296-2298)GAG>GGG	p.E766G	RNF40_uc010caa.2_Missense_Mutation_p.E766G|RNF40_uc010cab.2_Missense_Mutation_p.E666G|RNF40_uc010vfa.1_Missense_Mutation_p.E98G|RNF40_uc002dzr.2_Missense_Mutation_p.E766G|RNF40_uc010vfb.1_Missense_Mutation_p.E458G|RNF40_uc010vfc.1_Missense_Mutation_p.E98G	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	766	Potential.				histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			CAGGCTTTTGAGGACATGCAG	0.537													63	129					0	0	0.01441	0	0		G	30780556	G	G	30780556	3	3	23	1	0	0	0	0	1	0	0	0	13518	304	11	3	2355	3	RNF40	16	30780556	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	11593	30780556	59574197	1089	20417											
SETD1A	9739	broad.mit.edu	37	chr16	30990956	30990956	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagaggccacagagacatcGgacgaggccgagcgccctag	11	3	14	13	4	1	2	1	0	0	2	2	6	1	3	3	3	1	0	3	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:30990956G>A	uc002ead.1	+	14	4535	c.3849G>A	c.(3847-3849)TCG>TCA	p.S1283S		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1283					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						CAGAGACATCGGACGAGGCCG	0.711													6	27					0	0	0.001984	0	0		A	30990956	A	A	30990956	2	1	23	1	0	0	0	0	0	0	0	1	14155	1103	39	1		1	SETD1A	16	30990956	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	210400	30990956	59363797	1090	20418											
HSD3B7	80270	broad.mit.edu	37	chr16	30999231	30999231	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggagttcctgggcccctgCggactgcggctggtgggcgc	3	8	18	12	3	0	0	0	0	0	0	1	2	1	2	3	6	2	2	3	6	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:30999231C>T	uc002eaf.2	+	7	943	c.837C>T	c.(835-837)TGC>TGT	p.C279C	HSD3B7_uc010cac.2_3'UTR|HSD3B7_uc002eag.2_3'UTR|HSD3B7_uc002eah.2_Silent_p.C279C	NM_025193	NP_079469	Q9H2F3	3BHS7_HUMAN	hydroxy-delta-5-steroid dehydrogenase, 3 beta-	279					bile acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|cholest-5-ene-3-beta,7-alpha-diol 3-beta-dehydrogenase activity				0						TGGGCCCCTGCGGACTGCGGC	0.642													52	260					0	0	0.01441	0	0		T	30999231	T	T	30999231	2	4	23	1	0	0	0	0	0	0	0	1	7408	776	27	1		1	HSD3B7	16	30999231	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	8275	30999231	59355522	1091	20419											
ZNF668	79759	broad.mit.edu	37	chr16	31073185	31073185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggccagagtgcaccagcGcgtgccgcttgaggtcccag	6	6	15	14	3	0	2	0	1	0	1	1	2	1	2	4	2	3	3	4	2	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:31073185G>A	uc010caf.2	-	3	1421	c.1064C>T	c.(1063-1065)GCG>GTG	p.A355V	ZNF668_uc002eao.2_Missense_Mutation_p.A355V	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	355	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						GTGCACCAGCGCGTGCCGCTT	0.682													49	100					0	0	0.01441	0	0		A	31073185	A	A	31073185	3	1	23	1	0	0	0	0	1	0	0	0	18100	1087	38	1	799	1	ZNF668	16	31073185	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	73954	31073185	59281568	1092	20420											
PYCARD	29108	broad.mit.edu	37	chr16	31212940	31212941	+	Frame_Shift_Del	DEL	TG	-	-																															ggtcctccaccaggtaggacTgggactcccttagggcctgg																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:31212940_31212941delTG	uc010cak.2	-	3	793_794	c.553_554delCA	c.(553-555)CAGfs	p.Q185fs	PYCARD_uc002ebm.2_Frame_Shift_Del_p.Q166fs	NM_013258	NP_037390	Q9ULZ3	ASC_HUMAN	PYD and CARD domain containing isoform a	185	CARD.				induction of apoptosis|positive regulation of interleukin-1 beta secretion|positive regulation of NF-kappaB transcription factor activity|proteolysis|tumor necrosis factor-mediated signaling pathway	IkappaB kinase complex	caspase activator activity|cysteine-type endopeptidase activity|protein homodimerization activity|Pyrin domain binding				0						CAGGTAGGACTGGGACTCCCTT	0.589													73	132	---	---	---	---						.	-	31212941	-	-	31212940	7	5	23	1	0	1	0	1	0	0	0	0	12879	1580	55	0	37	0	PYCARD	16	31212940	Frame_Shift_Del	DEL	TG	TCGA-BR-4368-01A-01D-1158-08	139755	31212940	59141813	1093	20421											
ITGAM	3684	broad.mit.edu	37	chr16	31336659	31336659	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatgatggtgaggactcCtacaggacacaggtcacctt	13	8	11	9	0	1	3	1	2	0	1	2	5	2	5	2	4	1	0	2	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:31336659C>A	uc002ebq.2	+	20	2537	c.2439C>A	c.(2437-2439)TCC>TCA	p.S813S	ITGAM_uc002ebr.2_Silent_p.S814S|ITGAM_uc010can.2_Silent_p.S219S|ITGAM_uc002ebs.1_Silent_p.S219S|ITGAM_uc010vfj.1_RNA	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	813	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						GTGAGGACTCCTACAGGACAC	0.577													10	58					9.70103e-10	1.02955e-09	0.008291	1	0		A	31336659	A	A	31336659	2	1	23	1	0	0	0	0	0	0	0	1	7903	668	24	5		5	ITGAM	16	31336659	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	123719	31336659	59018094	1094	20422											
ITGAD	3681	broad.mit.edu	37	chr16	31422507	31422507	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatgagcagacccgagggggCcaggtgtccgtgtgtccctt	6	9	15	11	2	0	2	0	1	0	1	2	3	2	2	4	3	1	1	4	3	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:31422507C>G	uc002ebv.1	+	13	1516	c.1467C>G	c.(1465-1467)GGC>GGG	p.G489G	ITGAD_uc010cap.1_Silent_p.G489G	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	489	Extracellular (Potential).|FG-GAP 5.				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						CCCGAGGGGGCCAGGTGTCCG	0.642													63	104					0	0	0.01441	0	0		G	31422507	G	G	31422507	2	3	23	1	0	0	0	0	0	0	0	1	7900	726	26	5		5	ITGAD	16	31422507	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	85848	31422507	58932246	1095	20423											
ZNF267	10308	broad.mit.edu	37	chr16	31926819	31926819	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaaagaatgtggcaaagccTttcgctgtagttcatacctt	11	13	9	8	1	1	1	1	0	0	1	2	1	1	1	2	1	2	5	2	1	6	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:31926819T>C	uc002ecs.3	+	4	1458	c.1249T>C	c.(1249-1251)TTT>CTT	p.F417L		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	417	C2H2-type 4.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						TGGCAAAGCCTTTCGCTGTAG	0.363													6	78					0	0	0.001168	0	0		C	31926819	C	C	31926819	3	2	23	1	0	0	0	0	1	0	0	0	17831	1609	56	3	1263	3	ZNF267	16	31926819	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	504312	31926819	58427934	1096	20424											
NOD2	64127	broad.mit.edu	37	chr16	50744556	50744556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctatgatggagcagagaCgctctgcctggaggacatat	11	9	12	9	1	1	2	0	1	1	1	1	6	1	5	2	3	3	2	2	3	3	3	rs148516118	by1000genomes	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:50744556C>T	uc002egm.1	+	4	839	c.734C>T	c.(733-735)ACG>ATG	p.T245M	NOD2_uc010cbk.1_Missense_Mutation_p.T218M|NOD2_uc002egl.1_Missense_Mutation_p.T23M|NOD2_uc010cbl.1_Missense_Mutation_p.T23M|NOD2_uc010cbm.1_Missense_Mutation_p.T23M|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	245					activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				GGAGCAGAGACGCTCTGCCTG	0.582													28	47					0	0	0.007291	0	0		T	50744556	T	T	50744556	3	4	23	1	0	0	0	0	1	0	0	0	10536	536	19	1	748	1	NOD2	16	50744556	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	18817737	50744556	39610197	1097	20425											
CES7	221223	broad.mit.edu	37	chr16	55893467	55893467	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaattcttaccataggcaGcaggaagccacactcgtggt	12	8	10	11	1	1	1	0	0	1	1	2	2	1	2	2	3	3	2	2	3	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:55893467G>A	uc002eip.2	-	8	1197	c.1048C>T	c.(1048-1050)CTG>TTG	p.L350L	CES7_uc002eio.2_Silent_p.L350L|CES7_uc002eiq.2_Silent_p.L111L|CES7_uc002eir.2_Silent_p.L244L	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	350						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		ACCATAGGCAGCAGGAAGCCA	0.463													12	18					0	0	0.003163	0	0		A	55893467	A	A	55893467	2	1	23	1	0	0	0	0	0	0	0	1	3275	962	34	2		2	CES7	16	55893467	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5148911	55893467	34461286	1098	20426											
GPR56	9289	broad.mit.edu	37	chr16	57689865	57689865	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaaagtagccaacctcacGgagcccgtggtgctcacttt	10	8	9	14	2	2	0	2	0	0	0	2	1	2	1	4	2	4	2	4	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:57689865G>A	uc002emb.2	+	8	1270	c.978G>A	c.(976-978)ACG>ACA	p.T326T	GPR56_uc002elz.1_Silent_p.T156T|GPR56_uc002ema.1_Silent_p.T151T|GPR56_uc002emc.2_Silent_p.T326T|GPR56_uc002emf.2_Silent_p.T326T|GPR56_uc010vhs.1_Silent_p.T326T|GPR56_uc002emd.2_Silent_p.T326T|GPR56_uc002eme.2_Silent_p.T326T|GPR56_uc010vht.1_Silent_p.T331T|GPR56_uc002emg.3_Silent_p.T326T|GPR56_uc010vhu.1_Silent_p.T151T	NM_005682	NP_005673	Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56 isoform a	326	Extracellular (Potential).				brain development|cell adhesion|cell-cell signaling|neuropeptide signaling pathway	integral to plasma membrane	G-protein coupled receptor activity				0						CCAACCTCACGGAGCCCGTGG	0.567													32	170					0	0	0.013726	0	0		A	57689865	A	A	57689865	2	1	23	1	0	0	0	0	0	0	0	1	6715	1103	39	1		1	GPR56	16	57689865	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1796398	57689865	32664888	1099	20427											
CCDC135	84229	broad.mit.edu	37	chr16	57731887	57731887	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctgagggagaaggtggAggaggaggaggaggccgagc	10	3	23	5	1	0	2	0	1	0	1	1	9	1	7	2	9	1	0	2	9	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:57731887A>T	uc002emi.2	+	2	115	c.26A>T	c.(25-27)GAG>GTG	p.E9V	CCDC135_uc002emj.2_Missense_Mutation_p.E9V|CCDC135_uc002emk.2_Missense_Mutation_p.E9V	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	9	Potential.					cytoplasm				central_nervous_system(1)	1						gagaaggtggaggaggaggag	0.448													7	154					0	0	0.001984	0	0		T	57731887	T	T	57731887	3	4	23	1	0	0	0	0	1	0	0	0	2772	304	11	5	28	5	CCDC135	16	57731887	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	42022	57731887	32622866	1100	20428											
ZNF319	57567	broad.mit.edu	37	chr16	58031166	58031166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgctcggcgctgtgtgtgCgctcatgctgccgcaggtcc	2	9	15	15	5	1	0	1	0	0	0	3	0	2	0	3	2	3	5	3	2	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:58031166C>T	uc002emx.1	-	2	1627	c.1004G>A	c.(1003-1005)CGC>CAC	p.R335H		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	335	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCTGTGTGTGCGCTCATGCTG	0.682													8	28					0	0	0.008291	0	0		T	58031166	T	T	58031166	3	4	23	1	0	0	0	0	1	0	0	0	17862	768	27	1	748	1	ZNF319	16	58031166	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	299279	58031166	32323587	1101	20429											
ZNF319	57567	broad.mit.edu	37	chr16	58031252	58031252	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctccccacttggcgtgcaCgggtgctgcagcagctccga	5	7	13	16	4	0	0	0	0	0	0	2	1	2	0	3	2	5	6	3	2	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:58031252C>T	uc002emx.1	-	2	1541	c.918G>A	c.(916-918)CCG>CCA	p.P306P		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	306	C2H2-type 7; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTGGCGTGCACGGGTGCTGCA	0.672													14	25					0	0	0.00499	0	0		T	58031252	T	T	58031252	2	4	23	1	0	0	0	0	0	0	0	1	17862	523	19	1		1	ZNF319	16	58031252	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	86	58031252	32323501	1102	20430											
DYNC1LI2	1783	broad.mit.edu	37	chr16	66776563	66776563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaatccacacgttgcagcGcgtgtgatctgagaaaacaa	14	7	10	10	3	1	3	0	2	1	2	2	4	2	3	1	0	3	2	1	0	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:66776563G>A	uc002eqb.1	-	4	338	c.307C>T	c.(307-309)CGC>TGC	p.R103C	DYNC1LI2_uc010vis.1_Intron|DYNC1LI2_uc010vit.1_Missense_Mutation_p.R103C|DYNC1LI2_uc010viu.1_Missense_Mutation_p.R64C	NM_006141	NP_006132	O43237	DC1L2_HUMAN	dynein, cytoplasmic, light intermediate	103					transport	centrosome|cytoplasmic dynein complex|microtubule	ATP binding|motor activity			central_nervous_system(3)|skin(1)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0907)|Epithelial(162;0.212)		ACGTTGCAGCGCGTGTGATCT	0.468													19	32					0	0	0.007413	0	0		A	66776563	A	A	66776563	3	1	23	1	0	0	0	0	1	0	0	0	4851	1087	38	1	1211	1	DYNC1LI2	16	66776563	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	8745311	66776563	23578190	1103	20431											
CES2	8824	broad.mit.edu	37	chr16	66974560	66974560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agagtggcgtggccctcctgCccggcctcattgccagctca	5	8	12	16	2	2	1	2	0	0	1	3	1	3	1	5	3	3	1	5	3	0	1	rs147942040		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:66974560C>T	uc002eqr.2	+	5	1970	c.970C>T	c.(970-972)CCC>TCC	p.P324S	CES2_uc002eqq.2_Missense_Mutation_p.P324S|CES2_uc002eqs.2_Missense_Mutation_p.P167S	NM_003869	NP_003860	O00748	EST2_HUMAN	carboxylesterase 2 isoform 1	260					catabolic process	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0663)|Epithelial(162;0.166)		GGCCCTCCTGCCCGGCCTCAT	0.617													11	90					0	0	0.00245	0	0		T	66974560	T	T	66974560	3	4	23	1	0	0	0	0	1	0	0	0	3273	739	26	2	988	2	CES2	16	66974560	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	197997	66974560	23380193	1104	20432											
CES8	283848	broad.mit.edu	37	chr16	67037211	67037211	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcacacagatcctggtaaActgcctgagggcactatcag	12	7	10	12	0	1	2	1	1	0	1	2	2	2	2	2	2	3	3	2	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:67037211A>T	uc002eqv.2	+	7	891	c.848A>T	c.(847-849)AAC>ATC	p.N283I	CES8_uc010vix.1_Missense_Mutation_p.N283I|CES8_uc002eqw.2_Missense_Mutation_p.N283I|CES8_uc002eqy.2_Missense_Mutation_p.N185I|CES8_uc002eqx.2_Missense_Mutation_p.N89I|CES8_uc010viy.1_Missense_Mutation_p.N189I|CES8_uc010viz.1_Missense_Mutation_p.N185I|CES8_uc002eqz.2_5'Flank	NM_173815	NP_776176	Q5XG92	EST4A_HUMAN	carboxylesterase 8 (putative)	283						extracellular region	carboxylesterase activity				0						ATCCTGGTAAACTGCCTGAGG	0.547													9	76					0	0	0.010729	0	0		T	67037211	T	T	67037211	3	4	23	1	0	0	0	0	1	0	0	0	3276	43	2	5	955	5	CES8	16	67037211	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	62651	67037211	23317542	1105	20433											
PLEKHG4	25894	broad.mit.edu	37	chr16	67320703	67320703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacaggatgagtttgtggtgCgcactgggcgccacaagtcc	8	8	15	10	2	0	1	0	1	0	0	1	3	1	2	2	3	1	2	2	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:67320703C>T	uc002eso.3	+	16	5341	c.2806C>T	c.(2806-2808)CGC>TGC	p.R936C	PLEKHG4_uc002esp.3_Missense_Mutation_p.R743C|PLEKHG4_uc002esq.3_Missense_Mutation_p.R936C|PLEKHG4_uc010cef.2_Missense_Mutation_p.R936C|PLEKHG4_uc002ess.3_Missense_Mutation_p.R936C|PLEKHG4_uc010ceg.2_Missense_Mutation_p.R855C	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	936	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		GTTTGTGGTGCGCACTGGGCG	0.597													16	66					0	0	0.00499	0	0		T	67320703	T	T	67320703	3	4	23	1	0	0	0	0	1	0	0	0	12090	768	27	1	2868	1	PLEKHG4	16	67320703	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	283492	67320703	23034050	1106	20434											
ATP6V0D1	9114	broad.mit.edu	37	chr16	67487596	67487596	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaagttaccataatcagtGctctgcagatgcagtttcaa	13	11	9	8	0	3	1	2	0	1	1	3	2	3	2	1	1	4	5	1	1	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:67487596G>A	uc002ete.1	-	2	253	c.153C>T	c.(151-153)AGC>AGT	p.S51S	ATP6V0D1_uc010vjo.1_Silent_p.S51S|ATP6V0D1_uc010vjn.1_5'UTR	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit	51					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		CATAATCAGTGCTCTGCAGAT	0.572													31	70					0	0	0.013726	0	0		A	67487596	A	A	67487596	2	1	23	1	0	0	0	0	0	0	0	1	1174	1310	46	2		2	ATP6V0D1	16	67487596	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	166893	67487596	22867157	1107	20435											
EDC4	23644	broad.mit.edu	37	chr16	67913593	67913593	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagctgcctgcacctgcCgacttcctcagtctgagcag	6	9	12	14	1	2	1	1	1	1	0	3	3	3	2	4	1	5	3	4	1	0	1	rs144307755		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:67913593C>T	uc002eur.2	+	15	1903	c.1737C>T	c.(1735-1737)GCC>GCT	p.A579A	EDC4_uc010cer.2_Silent_p.A198A|EDC4_uc010vkg.1_Silent_p.A511A|EDC4_uc010ces.1_Silent_p.A367A|EDC4_uc002eus.2_Silent_p.A309A|EDC4_uc002eut.1_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	579					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		CTGCACCTGCCGACTTCCTCA	0.622													31	163					0	0	0.012213	0	0		T	67913593	T	T	67913593	2	4	23	1	0	0	0	0	0	0	0	1	4914	639	23	1		1	EDC4	16	67913593	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	425997	67913593	22441160	1108	20436											
DDX28	55794	broad.mit.edu	37	chr16	68056553	68056553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caagagccgttgaagcagcgGcaggaggtagctgagagtct	11	6	16	8	2	1	3	0	2	1	2	1	5	1	4	1	3	4	5	1	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:68056553G>A	uc002evh.1	-	1	1407	c.553C>T	c.(553-555)CCG>TCG	p.P185S	DUS2L_uc002evi.2_5'Flank|DUS2L_uc002evj.2_5'Flank|DUS2L_uc010vkk.1_5'Flank	NM_018380	NP_060850	Q9NUL7	DDX28_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 28	185	Helicase ATP-binding.|Nuclear export signal (Potential).					mitochondrial nucleoid|nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0116)|Epithelial(162;0.0474)|all cancers(182;0.233)		TGAAGCAGCGGCAGGAGGTAG	0.627													7	48					0	0	0.00308	0	0		A	68056553	A	A	68056553	3	1	23	1	0	0	0	0	1	0	0	0	4358	1203	42	2	1073	2	DDX28	16	68056553	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	142960	68056553	22298200	1109	20437											
DUS2L	54920	broad.mit.edu	37	chr16	68104958	68104958	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggaacccatctatcttcCtcaaggagggtctgcggccc	7	10	11	13	1	4	0	1	0	3	0	5	2	5	2	3	4	2	0	3	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:68104958C>T	uc002evi.2	+	12	906	c.757C>T	c.(757-759)CTC>TTC	p.L253F	DUS2L_uc002evj.2_Missense_Mutation_p.L253F|DUS2L_uc010vkk.1_Missense_Mutation_p.L218F|DUS2L_uc010cez.2_Missense_Mutation_p.L166F	NM_017803	NP_060273	Q9NX74	DUS2L_HUMAN	dihydrouridine synthase 2-like, SMM1 homolog	253					tRNA processing	endoplasmic reticulum	double-stranded RNA binding|flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0131)|Epithelial(162;0.0564)		ATCTATCTTCCTCAAGGAGGG	0.512													13	112					0	0	0.004007	0	0		T	68104958	T	T	68104958	3	4	23	1	0	0	0	0	1	0	0	0	4812	681	24	4	795	4	DUS2L	16	68104958	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	48405	68104958	22249795	1110	20438											
SLC7A6	9057	broad.mit.edu	37	chr16	68321694	68321694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgtcaagtggggcacacGtgtgcaggacacgttcactt	9	10	12	10	2	2	0	2	0	0	0	2	1	2	1	0	3	1	3	0	3	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:68321694G>A	uc002evt.1	+	5	878	c.569G>A	c.(568-570)CGT>CAT	p.R190H	SLC7A6_uc010cfb.1_RNA|SLC7A6_uc002evu.1_Missense_Mutation_p.R190H|SLC7A6_uc002evv.1_RNA|SLC7A6_uc010cfc.1_Intron	NM_001076785	NP_001070253	Q92536	YLAT2_HUMAN	solute carrier family 7 (cationic amino acid	190	Cytoplasmic (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|antiporter activity			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.0948)		TGGGGCACACGTGTGCAGGAC	0.552													40	94					0	0	0.011902	0	0		A	68321694	A	A	68321694	3	1	23	1	0	0	0	0	1	0	0	0	14726	1145	40	1	575	1	SLC7A6	16	68321694	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	216736	68321694	22033059	1111	20439											
AARS	16	broad.mit.edu	37	chr16	70303552	70303552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttgtcaggccggccaccatCagccagtgccacagtgatgg	8	7	13	13	1	2	1	2	1	0	0	2	1	2	1	5	3	2	1	5	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:70303552C>T	uc002eyn.1	-	7	1041	c.931G>A	c.(931-933)GAT>AAT	p.D311N	AARS_uc010vlu.1_Missense_Mutation_p.D141N	NM_001605	NP_001596	P49588	SYAC_HUMAN	alanyl-tRNA synthetase	311					alanyl-tRNA aminoacylation|tRNA processing	cytosol|soluble fraction	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			pancreas(1)	1		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)	L-Alanine(DB00160)	CGGCCACCATCAGCCAGTGCC	0.572													7	214					0	0	0.001984	0	0		T	70303552	T	T	70303552	3	4	23	1	0	0	0	0	1	0	0	0	19	826	29	4	2035	4	AARS	16	70303552	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1981858	70303552	20051201	1112	20440											
DDX19B	11269	broad.mit.edu	37	chr16	70363861	70363861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcgtgaggaagagaccctgGacaccatcaagcagtactat	14	6	11	10	1	1	2	1	1	0	1	1	5	1	4	2	2	3	2	2	2	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:70363861G>A	uc002eyo.2	+	9	1042	c.913G>A	c.(913-915)GAC>AAC	p.D305N	DDX19B_uc010vly.1_Missense_Mutation_p.D305N|DDX19A_uc002eys.2_Intron|DDX19B_uc010vlv.1_Missense_Mutation_p.D279N|DDX19B_uc010vlw.1_Missense_Mutation_p.D196N|DDX19B_uc002eyp.2_Missense_Mutation_p.D274N|DDX19B_uc002eyq.2_Missense_Mutation_p.D196N|DDX19B_uc002eyr.2_Missense_Mutation_p.D154N|DDX19B_uc010vlx.1_Missense_Mutation_p.D154N|uc002eyt.2_Intron	NM_007242	NP_009173	Q9UMR2	DD19B_HUMAN	DEAD (Asp-Glu-Ala-As) box polypeptide 19 isoform	305					mRNA export from nucleus|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			kidney(1)	1		Ovarian(137;0.0694)				AGAGACCCTGGACACCATCAA	0.517													44	193					0	0	0.01441	0	0		A	70363861	A	A	70363861	3	1	23	1	0	0	0	0	1	0	0	0	4350	1174	41	4	947	4	DDX19B	16	70363861	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	60309	70363861	19990892	1113	20441											
IL34	146433	broad.mit.edu	37	chr16	70693979	70693979	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcccagagccctcattgcaGtatgcggccacccagctgta	9	7	10	15	1	1	1	1	0	0	1	1	1	1	1	4	1	5	4	4	1	2	3	rs145782768		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:70693979G>C	uc002ezh.1	+	6	1001	c.618G>C	c.(616-618)CAG>CAC	p.Q206H	IL34_uc002ezi.1_Missense_Mutation_p.Q205H	NM_152456	NP_689669	Q6ZMJ4	IL34_HUMAN	interleukin 34 precursor	206					positive regulation of cell proliferation|positive regulation of protein phosphorylation	extracellular space	cytokine activity|growth factor activity|macrophage colony-stimulating factor receptor binding			central_nervous_system(1)|skin(1)	2						CCTCATTGCAGTATGCGGCCA	0.637													5	299					0	0	0.001168	0	0		C	70693979	C	C	70693979	3	2	23	1	0	0	0	0	1	0	0	0	7710	1020	36	5	640	5	IL34	16	70693979	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	330118	70693979	19660774	1114	20442											
FTSJD1	55783	broad.mit.edu	37	chr16	71317774	71317774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaacacatagcaggactgCgcaggtcctcaggggatcag	12	5	12	12	1	2	0	2	0	0	0	3	2	3	2	2	4	3	2	2	4	2	1	rs148258352	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:71317774C>T	uc010cga.2	-	3	2456	c.2050G>A	c.(2050-2052)GCA>ACA	p.A684T	FTSJD1_uc002ezy.3_Missense_Mutation_p.A684T|FTSJD1_uc002ezz.3_Missense_Mutation_p.A684T	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	684						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						AGCAGGACTGCGCAGGTCCTC	0.433													19	103					0	0	0.007413	0	0		T	71317774	T	T	71317774	3	4	23	1	0	0	0	0	1	0	0	0	6104	768	27	1	266	1	FTSJD1	16	71317774	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	623795	71317774	19036979	1115	20443											
ZNF821	55565	broad.mit.edu	37	chr16	71894461	71894461	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgcacacaagcagaatTccagcagggtacactggagg	12	8	12	9	0	0	1	0	0	0	1	1	2	1	2	1	3	4	5	1	3	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:71894461T>C	uc010vmj.1	-	7	1075	c.699A>G	c.(697-699)GGA>GGG	p.G233G	ATXN1L_uc010vmi.1_Intron|ZNF821_uc002fbe.2_Silent_p.G83G|ZNF821_uc002fbf.2_Silent_p.G191G|ZNF821_uc002fbg.3_Silent_p.G83G|ZNF821_uc002fbh.3_Silent_p.G191G|ZNF821_uc002fbi.3_Silent_p.G30G	NM_017530	NP_060000	O75541	ZN821_HUMAN	zinc finger protein 821	233					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CAAGCAGAATTCCAGCAGGGT	0.517													50	105					0	0	0.01441	0	0		C	71894461	C	C	71894461	2	2	23	1	0	0	0	0	0	0	0	1	18203	1770	62	3		3	ZNF821	16	71894461	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	576687	71894461	18460292	1116	20444											
ZFHX3	463	broad.mit.edu	37	chr16	72822157	72822157	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctgtaggggaacaggcCttccatgccatacataggct	10	8	13	10	0	0	0	0	0	0	0	1	1	1	1	3	5	3	3	3	5	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:72822157C>A	uc002fck.2	-	10	10691	c.10018G>T	c.(10018-10020)GGC>TGC	p.G3340C	ZFHX3_uc002fcl.2_Missense_Mutation_p.G2426C	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3340					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GGGAACAGGCCTTCCATGCCA	0.582													26	47					1.66031e-10	1.77212e-10	0.003954	1	0		A	72822157	A	A	72822157	3	1	23	1	0	0	0	0	1	0	0	0	17659	681	24	5	1097	5	ZFHX3	16	72822157	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	927696	72822157	17532596	1117	20445											
ZFHX3	463	broad.mit.edu	37	chr16	72828501	72828501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtcctttcctttcccgagCtcgggtgttctgaaaccaga	6	13	9	13	2	1	2	0	1	1	1	5	3	4	2	4	1	2	2	4	1	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:72828501C>T	uc002fck.2	-	9	8753	c.8080G>A	c.(8080-8082)GCT>ACT	p.A2694T	ZFHX3_uc002fcl.2_Missense_Mutation_p.A1780T	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2694	Homeobox 3.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CTTTCCCGAGCTCGGGTGTTC	0.532													8	217					0	0	0.004482	0	0		T	72828501	T	T	72828501	3	4	23	1	0	0	0	0	1	0	0	0	17659	797	28	2	3039	2	ZFHX3	16	72828501	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	6344	72828501	17526252	1118	20446											
WWOX	51741	broad.mit.edu	37	chr16	78466573	78466573	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcatcctggaaatatgaTgtactccaacattcatcgca	13	11	7	10	1	1	1	1	1	0	0	4	2	3	2	2	1	3	3	2	1	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:78466573T>C	uc002ffk.2	+	8	1105	c.980T>C	c.(979-981)ATG>ACG	p.M327T	WWOX_uc010vnk.1_Missense_Mutation_p.M214T|WWOX_uc002ffl.2_Intron|WWOX_uc010che.2_Intron	NM_016373	NP_057457	Q9NZC7	WWOX_HUMAN	WW domain-containing oxidoreductase isoform 1	327	Interaction with MAPT (By similarity).				apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)		GGAAATATGATGTACTCCAAC	0.557													5	362					0	0	0.000602	0	0		C	78466573	C	C	78466573	3	2	23	1	0	0	0	0	1	0	0	0	17440	1464	51	3	1072	3	WWOX	16	78466573	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	5638072	78466573	11888180	1119	20447											
HSDL1	83693	broad.mit.edu	37	chr16	84163662	84163662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagagatcgtgacgatggCacctttctttctctccacca	10	11	8	12	2	2	3	0	1	2	2	5	5	3	3	3	1	0	1	3	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:84163662C>T	uc002fhk.2	-	4	779	c.595G>A	c.(595-597)GCC>ACC	p.A199T	HSDL1_uc010vnv.1_Missense_Mutation_p.A144T	NM_031463	NP_113651	Q3SXM5	HSDL1_HUMAN	hydroxysteroid dehydrogenase like 1 isoform a	199						mitochondrion	oxidoreductase activity|protein binding				0						GTGACGATGGCACCTTTCTTT	0.488													9	169					0	0	0.004482	0	0		T	84163662	T	T	84163662	3	4	23	1	0	0	0	0	1	0	0	0	7409	710	25	2	409	2	HSDL1	16	84163662	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5697089	84163662	6191091	1120	20448											
USP10	9100	broad.mit.edu	37	chr16	84806187	84806187	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactctggaaaaactccctcCtgtcctcgtgctgcacctga	8	10	8	15	1	1	1	0	1	1	0	5	3	4	2	4	1	3	2	4	1	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:84806187C>A	uc002fii.2	+	12	2181	c.2039C>A	c.(2038-2040)CCT>CAT	p.P680H	USP10_uc010voe.1_Missense_Mutation_p.P684H|USP10_uc010vof.1_Missense_Mutation_p.P242H|USP10_uc002fij.2_Missense_Mutation_p.P206H	NM_005153	NP_005144	Q14694	UBP10_HUMAN	ubiquitin specific protease 10	680					DNA damage response, signal transduction by p53 class mediator|DNA repair|protein deubiquitination|ubiquitin-dependent protein catabolic process	early endosome|intermediate filament cytoskeleton|nucleus	cystic fibrosis transmembrane conductance regulator binding|p53 binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						AAACTCCCTCCTGTCCTCGTG	0.453													13	295					4.36969e-10	4.65214e-10	0.001855	1	0		A	84806187	A	A	84806187	3	1	23	1	0	0	0	0	1	0	0	0	17067	681	24	5	2085	5	USP10	16	84806187	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	642525	84806187	5548566	1121	20449											
KIAA0513	9764	broad.mit.edu	37	chr16	85116175	85116175	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgccgctccagaggggAtgctggagaggaggaggaga	9	5	19	8	1	0	3	0	0	0	3	1	8	1	6	2	6	3	3	2	6	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:85116175A>G	uc002fiu.2	+	10	1206	c.986A>G	c.(985-987)GAT>GGT	p.D329G	KIAA0513_uc010voj.1_Intron	NM_014732	NP_055547	O60268	K0513_HUMAN	hypothetical protein LOC9764	329						cytoplasm				breast(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.234)		TCCAGAGGGGATGCTGGAGAG	0.517													4	113					0	0	0.001984	0	0		G	85116175	G	G	85116175	3	3	23	1	0	0	0	0	1	0	0	0	8197	333	12	3	1020	3	KIAA0513	16	85116175	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	309988	85116175	5238578	1122	20450											
KIAA0182	23199	broad.mit.edu	37	chr16	85701834	85701834	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgcagtcctccagccgCgcccctccaccccagcacaa	8	4	8	21	2	0	0	0	0	0	0	3	1	3	0	8	0	4	3	8	0	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:85701834C>T	uc002fix.2	+	14	3293	c.3219C>T	c.(3217-3219)CGC>CGT	p.R1073R	KIAA0182_uc002fiw.2_Silent_p.R969R|KIAA0182_uc002fiy.2_Silent_p.R1000R|KIAA0182_uc002fiz.2_Silent_p.R215R|KIAA0182_uc010cho.2_Silent_p.R253R	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	1073							protein binding			large_intestine(3)|ovary(1)|skin(1)	5						CCTCCAGCCGCGCCCCTCCAC	0.592													9	168					0	0	0.008291	0	0		T	85701834	T	T	85701834	2	4	23	1	0	0	0	0	0	0	0	1	8175	755	27	1		1	KIAA0182	16	85701834	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	585659	85701834	4652919	1123	20451											
ZFPM1	161882	broad.mit.edu	37	chr16	88599110	88599110	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaaggtgcacacggacacGctgagcggtaggcaccgcag	10	4	14	13	4	1	1	1	1	0	0	1	2	1	2	1	4	2	5	1	4	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:88599110G>A	uc002fkv.2	+	8	1068	c.1035G>A	c.(1033-1035)ACG>ACA	p.T345T		NM_153813	NP_722520	Q8IX07	FOG1_HUMAN	zinc finger protein, multitype 1	345					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|transcription factor binding|zinc ion binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0478)		ACACGGACACGCTGAGCGGTA	0.692													6	27					0	0	0.001168	0	0		A	88599110	A	A	88599110	2	1	23	1	0	0	0	0	0	0	0	1	17682	1074	38	1		1	ZFPM1	16	88599110	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2897276	88599110	1755643	1124	20452											
CBFA2T3	863	broad.mit.edu	37	chr16	88952449	88952449	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggggaggaggcgctggcGtccagcaggagctgctcatg	7	6	19	9	2	1	0	1	0	0	0	2	3	2	3	1	6	3	4	1	6	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:88952449G>A	uc002fmm.1	-	6	999	c.813C>T	c.(811-813)GAC>GAT	p.D271D	CBFA2T3_uc002fml.1_Silent_p.D185D|CBFA2T3_uc010cif.1_Silent_p.D210D|CBFA2T3_uc002fmn.1_Silent_p.D246D	NM_005187	NP_005178	O75081	MTG16_HUMAN	myeloid translocation gene on chromosome 16	271	Mediates localization to the nucleus (By similarity).|Mediates interaction with PDE7A (in isoform 2).				cell proliferation|granulocyte differentiation	Golgi membrane|nucleolus|nucleoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(3)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(80;0.0275)		AGGCGCTGGCGTCCAGCAGGA	0.657			T	RUNX1	AML								3	6					0	0	0.004672	0	0		A	88952449	A	A	88952449	2	1	23	1	0	0	0	0	0	0	0	1	2701	1136	40	1		1	CBFA2T3	16	88952449	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	353339	88952449	1402304	1125	20453											
ANKRD11	29123	broad.mit.edu	37	chr16	89349001	89349001	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctccaggaaggcagtcaGccccggctcctgccctcggt	6	6	12	17	2	1	0	1	0	0	0	4	2	3	1	6	4	2	2	6	4	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:89349001G>A	uc002fmx.1	-	9	4410	c.3949C>T	c.(3949-3951)CTG>TTG	p.L1317L	ANKRD11_uc002fmy.1_Silent_p.L1317L|ANKRD11_uc002fnc.1_Silent_p.L1317L|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Silent_p.L1274L	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1317	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		AAGGCAGTCAGCCCCGGCTCC	0.582													14	77					0	0	0.001855	0	0		A	89349001	A	A	89349001	2	1	23	1	0	0	0	0	0	0	0	1	639	962	34	2		2	ANKRD11	16	89349001	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	396552	89349001	1005752	1126	20454											
ANKRD11	29123	broad.mit.edu	37	chr16	89352509	89352509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acaggaggttcaccatcgtgGgggagttggccactttcagc	8	9	14	10	1	2	0	2	0	0	0	3	2	2	2	2	5	1	2	2	5	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:89352509G>A	uc002fmx.1	-	8	1291	c.830C>T	c.(829-831)CCC>CTC	p.P277L	ANKRD11_uc002fmy.1_Missense_Mutation_p.P277L|ANKRD11_uc002fnc.1_Missense_Mutation_p.P277L|ANKRD11_uc002fnb.1_Missense_Mutation_p.P234L	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	277	ANK 4.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CACCATCGTGGGGGAGTTGGC	0.577													119	195					0	0	0.01441	0	0		A	89352509	A	A	89352509	3	1	23	1	0	0	0	0	1	0	0	0	639	1232	43	4	7185	4	ANKRD11	16	89352509	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3508	89352509	1002244	1127	20455											
SPATA2L	124044	broad.mit.edu	37	chr16	89763857	89763857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgagtggcctggacggcagGcgggcagggctgcacagtgg	6	4	21	10	3	0	0	0	0	0	0	0	2	0	1	1	7	1	4	1	7	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:89763857G>A	uc002foj.2	-	3	1225	c.1160C>T	c.(1159-1161)GCC>GTC	p.A387V	SPATA2L_uc002fok.2_Intron	NM_152339	NP_689552	Q8IUW3	SPA2L_HUMAN	spermatogenesis associated 2-like	387											0		Lung NSC(15;0.00043)|all_lung(18;0.000665)|all_hematologic(23;0.0355)		BRCA - Breast invasive adenocarcinoma(80;0.0272)		TGGACGGCAGGCGGGCAGGGC	0.687													7	14					0	0	0.003163	0	0		A	89763857	A	A	89763857	3	1	23	1	0	0	0	0	1	0	0	0	15034	1203	42	2	118	2	SPATA2L	16	89763857	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	411348	89763857	590896	1128	20456											
C16orf7	9605	broad.mit.edu	37	chr16	89777784	89777784	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgacaggtcccccggatTcctcttgagcttggccttcc	5	11	11	14	1	1	2	0	2	1	0	4	4	4	3	5	3	1	1	5	3	0	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:89777784T>C	uc002fom.1	-	9	909	c.784A>G	c.(784-786)AAT>GAT	p.N262D	C16orf7_uc002fol.1_Missense_Mutation_p.N192D|uc002fon.1_5'Flank	NM_004913	NP_004904	Q9Y2B5	CP007_HUMAN	chromosome 16 open reading frame 7	262					ATP synthesis coupled proton transport		GTPase activator activity|transporter activity				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		TCCCCCGGATTCCTCTTGAGC	0.662													4	16					0	0	0.001168	0	0		C	89777784	C	C	89777784	3	2	23	1	0	0	0	0	1	0	0	0	1831	1783	62	3	1139	3	C16orf7	16	89777784	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	13927	89777784	576969	1129	20457											
TCF25	22980	broad.mit.edu	37	chr16	89970558	89970558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctcgagtcttgcagtgtgCggcccgacgccagcgtttcc	4	10	13	14	5	1	0	0	0	1	0	3	2	2	0	3	1	4	3	3	1	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:89970558C>T	uc002fpb.2	+	13	1496	c.1414C>T	c.(1414-1416)CGG>TGG	p.R472W	TCF25_uc002fpc.2_Missense_Mutation_p.R237W|TCF25_uc002fpd.1_5'UTR	NM_014972	NP_055787	Q9BQ70	TCF25_HUMAN	NULP1	472					heart development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(9;4.71e-08)|Lung NSC(15;0.000192)|all_lung(18;0.000319)|all_neural(9;0.0122)|all_hematologic(23;0.027)		BRCA - Breast invasive adenocarcinoma(80;0.0288)		TTGCAGTGTGCGGCCCGACGC	0.517													7	5					0	0	0.00308	0	0		T	89970558	T	T	89970558	3	4	23	1	0	0	0	0	1	0	0	0	15718	759	27	1	1464	1	TCF25	16	89970558	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	192774	89970558	384195	1130	20458											
TUBB3	10381	broad.mit.edu	37	chr16	90001975	90001975	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accttcatcgggaacagcacGgccatccaggagctgttcaa	11	7	10	13	2	2	0	2	0	0	0	4	2	3	2	3	3	3	3	3	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr16:90001975G>A	uc002fph.1	+	4	1181	c.1116G>A	c.(1114-1116)ACG>ACA	p.T372T	TUBB3_uc002fpf.2_Silent_p.T719T|TUBB3_uc010ciz.1_Silent_p.T300T|TUBB3_uc002fpg.1_Silent_p.T226T|TUBB3_uc002fpi.1_Silent_p.T300T|TUBB3_uc002fpj.1_Silent_p.T300T|TUBB3_uc010cjb.1_Silent_p.T226T|TUBB3_uc002fpk.1_Silent_p.T226T	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	372					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GGAACAGCACGGCCATCCAGG	0.622													58	238					0	0	0.01441	0	0		A	90001975	A	A	90001975	2	1	23	1	0	0	0	0	0	0	0	1	16783	1103	39	1		1	TUBB3	16	90001975	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	31417	90001975	352778	1131	20459											
SLC43A2	124935	broad.mit.edu	37	chr17	1520045	1520045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgctgtgccgcccactGtgccattggtgacattctct	4	13	10	14	1	2	1	0	1	2	0	3	1	2	1	3	1	3	2	3	1	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:1520045G>A	uc002fsv.2	-	3	268	c.179C>T	c.(178-180)ACA>ATA	p.T60I	SLC43A2_uc002fsu.2_Missense_Mutation_p.T60I|SLC43A2_uc002fsw.2_Missense_Mutation_p.T60I|SLC43A2_uc002fsx.2_Missense_Mutation_p.T60I	NM_152346	NP_689559	Q8N370	LAT4_HUMAN	solute carrier family 43, member 2	60					cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0883)		GCCGCCCACTGTGCCATTGGT	0.577													16	54					0	0	0.00499	0	0		A	1520045	A	A	1520045	3	1	23	1	0	0	0	0	1	0	0	0	14658	1377	48	4	1578	4	SLC43A2	17	1520045	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08		1520045	79675165	1132	20460											
PRPF8	10594	broad.mit.edu	37	chr17	1584919	1584919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggagctgattagccaggCggtagagagtcgacatcata	12	8	13	8	2	2	2	2	1	0	1	3	5	2	3	1	3	2	2	1	3	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:1584919C>T	uc002fte.2	-	6	833	c.719G>A	c.(718-720)CGC>CAC	p.R240H		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	240						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		ATTAGCCAGGCGGTAGAGAGT	0.468													34	168					0	0	0.012213	0	0		T	1584919	T	T	1584919	3	4	23	1	0	0	0	0	1	0	0	0	12597	768	27	1	6440	1	PRPF8	17	1584919	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	64874	1584919	79610291	1133	20461											
SMG6	23293	broad.mit.edu	37	chr17	2203910	2203910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagatttccagatctggaCgcctgttatctttgcgcggc	7	14	10	10	3	2	2	0	0	2	2	3	3	3	3	2	2	1	1	2	2	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:2203910C>T	uc002fub.1	-	2	192	c.137G>A	c.(136-138)CGT>CAT	p.R46H	SMG6_uc002fud.1_Missense_Mutation_p.R15H	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	46					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						CAGATCTGGACGCCTGTTATC	0.448													26	108					0	0	0.00333	0	0		T	2203910	T	T	2203910	3	4	23	1	0	0	0	0	1	0	0	0	14822	536	19	1	4194	1	SMG6	17	2203910	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	618991	2203910	78991300	1134	20462											
TRPV3	162514	broad.mit.edu	37	chr17	3436182	3436182	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtgctccatcagcagctgCacaatctcgggctggttggt	6	11	12	12	2	2	0	1	0	1	0	5	0	3	0	1	3	4	6	1	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:3436182C>T	uc002fvt.1	-	8	1156	c.834G>A	c.(832-834)GTG>GTA	p.V278V	TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Silent_p.V262V|TRPV3_uc010vri.1_Silent_p.V233V|TRPV3_uc010vrj.1_Silent_p.V262V|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Silent_p.V262V|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Silent_p.V278V|TRPV3_uc002fvu.2_Silent_p.V278V|TRPV3_uc010vrn.1_5'Flank	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	278	ANK 2.|Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	TCAGCAGCTGCACAATCTCGG	0.627													14	44					0	0	0.004007	0	0		T	3436182	T	T	3436182	2	4	23	1	0	0	0	0	0	0	0	1	16623	697	25	2		2	TRPV3	17	3436182	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1232272	3436182	77759028	1135	20463											
ZZEF1	23140	broad.mit.edu	37	chr17	4020386	4020386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcgctggagagccgattgcGgtgcaggaagcgcagtatca	9	6	16	10	5	1	1	1	0	0	1	1	4	1	2	1	3	4	4	1	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:4020386G>A	uc002fxe.2	-	3	638	c.574C>T	c.(574-576)CGC>TGC	p.R192C	ZZEF1_uc002fxk.1_Missense_Mutation_p.R192C	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	192							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						AGCCGATTGCGGTGCAGGAAG	0.502													44	120					0	0	0.01441	0	0		A	4020386	A	A	4020386	3	1	23	1	0	0	0	0	1	0	0	0	18280	1116	39	1	8523	1	ZZEF1	17	4020386	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	584204	4020386	77174824	1136	20464											
SPAG7	9552	broad.mit.edu	37	chr17	4862892	4862892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcttggctctgatctcattCatagcctcttcaatggagcg	7	15	8	11	1	6	1	3	1	4	0	7	2	6	2	1	2	2	1	1	2	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:4862892C>T	uc002gae.2	-	7	654	c.621G>A	c.(619-621)ATG>ATA	p.M207I	SPAG7_uc002gad.2_Missense_Mutation_p.M156I|SPAG7_uc002gaf.2_3'UTR	NM_004890	NP_004881	O75391	SPAG7_HUMAN	sperm associated antigen 7	207						nucleus	nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)	2						TGATCTCATTCATAGCCTCTT	0.622													27	107					0	0	0.008361	0	0		T	4862892	T	T	4862892	3	4	23	1	0	0	0	0	1	0	0	0	15008	826	29	4	66	4	SPAG7	17	4862892	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	842506	4862892	76332318	1137	20465											
ZFP3	124961	broad.mit.edu	37	chr17	4995874	4995874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttattagacatattagaattCatactggtgagaagccctat	14	14	7	6	0	1	3	1	1	0	3	1	4	1	3	1	1	2	0	1	1	8	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:4995874C>T	uc002gaq.2	+	2	1200	c.1075C>T	c.(1075-1077)CAT>TAT	p.H359Y		NM_153018	NP_694563	Q96NJ6	ZFP3_HUMAN	zinc finger protein-3	359	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TATTAGAATTCATACTGGTGA	0.423													4	51					0	0	0.000602	0	0		T	4995874	T	T	4995874	3	4	23	1	0	0	0	0	1	0	0	0	17668	826	29	4	1077	4	ZFP3	17	4995874	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	132982	4995874	76199336	1138	20466											
USP6	9098	broad.mit.edu	37	chr17	5050419	5050419	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagtacaactctcagtgagCggatttttgtgtgcatttga	11	14	10	6	1	1	2	1	2	1	0	2	3	1	3	0	1	4	2	0	1	3	4	rs147105926	by1000genomes	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:5050419C>T	uc002gau.1	+	29	4591	c.2361C>T	c.(2359-2361)AGC>AGT	p.S787S	USP6_uc002gav.1_Silent_p.S787S|USP6_uc010ckz.1_Silent_p.S470S	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	787					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						TCTCAGTGAGCGGATTTTTGT	0.393			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								18	127					0	0	0.007413	0	0		T	5050419	T	T	5050419	2	4	23	1	0	0	0	0	0	0	0	1	17112	767	27	1		1	USP6	17	5050419	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	54545	5050419	76144791	1139	20467											
PHF23	79142	broad.mit.edu	37	chr17	7139893	7139893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtcgggggcctgcagaCgagagaaagtggaccttggg	9	6	17	9	2	0	2	0	0	0	2	1	5	0	3	2	4	1	1	2	4	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:7139893C>T	uc002gfa.2	-	4	580	c.353G>A	c.(352-354)CGT>CAT	p.R118H	DVL2_uc002gez.1_5'Flank|DVL2_uc010vtr.1_5'Flank|DVL2_uc010clz.1_5'Flank|PHF23_uc010vtt.1_Intron|PHF23_uc010cma.2_5'UTR	NM_024297	NP_077273	Q9BUL5	PHF23_HUMAN	PHD finger protein 23	118							zinc ion binding				0						GGCCTGCAGACGAGAGAAAGT	0.542													38	169					0	0	0.00623	0	0		T	7139893	T	T	7139893	3	4	23	1	0	0	0	0	1	0	0	0	11854	536	19	1	866	1	PHF23	17	7139893	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2089474	7139893	74055317	1140	20468											
PHF23	79142	broad.mit.edu	37	chr17	7140733	7140733	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggggaatgtaaccagcatAtgccaaaacaaaactgcaga	18	5	10	8	0	0	1	0	0	0	1	0	2	0	2	2	2	6	3	2	2	7	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:7140733A>G	uc002gfa.2	-	3	357	c.130T>C	c.(130-132)TAT>CAT	p.Y44H	DVL2_uc002gez.1_5'Flank|DVL2_uc010vtr.1_5'Flank|DVL2_uc010clz.1_5'Flank|PHF23_uc010vtt.1_Missense_Mutation_p.Y44H|PHF23_uc010cma.2_5'UTR	NM_024297	NP_077273	Q9BUL5	PHF23_HUMAN	PHD finger protein 23	44							zinc ion binding				0						TAACCAGCATATGCCAAAACA	0.453													47	144					0	0	0.01441	0	0		G	7140733	G	G	7140733	3	3	23	1	0	0	0	0	1	0	0	0	11854	449	16	3	1093	3	PHF23	17	7140733	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	840	7140733	74054477	1141	20469											
TNK1	8711	broad.mit.edu	37	chr17	7291907	7291907	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctagggagaggcttcccTggcccaaaagaaaaccccca	12	5	9	15	0	1	2	0	0	1	2	2	3	2	2	5	3	1	1	5	3	5	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:7291907T>C	uc002ggi.3	+	11	1835	c.1675T>C	c.(1675-1677)TGG>CGG	p.W559R	TNK1_uc002ggj.3_Missense_Mutation_p.W554R|TNK1_uc010cmf.2_RNA|TNK1_uc002ggk.3_Intron	NM_003985	NP_003976	Q13470	TNK1_HUMAN	tyrosine kinase, non-receptor, 1	559	Pro-rich.				protein autophosphorylation	membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(122;0.157)				GAGGCTTCCCTGGCCCAAAAG	0.622													14	37					0	0	0.003163	0	0		C	7291907	C	C	7291907	3	2	23	1	0	0	0	0	1	0	0	0	16342	1580	55	3	1698	3	TNK1	17	7291907	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	151174	7291907	73903303	1142	20470											
SENP3	26168	broad.mit.edu	37	chr17	7466947	7466947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgccatccccctgttgtcGttttgactccccccgggggc	2	11	12	16	2	0	1	0	1	0	0	3	1	2	1	6	3	1	2	6	3	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:7466947G>A	uc002ghm.2	+	2	827	c.554G>A	c.(553-555)CGT>CAT	p.R185H	EIF4A1_uc002gho.1_5'Flank|SENP3_uc002ghn.1_5'Flank	NM_015670	NP_056485	Q9H4L4	SENP3_HUMAN	SUMO1/sentrin/SMT3 specific protease 3	185					proteolysis	MLL1 complex|nucleolus	cysteine-type peptidase activity			ovary(1)|central_nervous_system(1)	2		Prostate(122;0.157)				CCCTGTTGTCGTTTTGACTCC	0.562													3	12					0	0	0.004672	0	0		A	7466947	A	A	7466947	3	1	23	1	0	0	0	0	1	0	0	0	14073	1145	40	1	556	1	SENP3	17	7466947	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	175040	7466947	73728263	1143	20471											
DNAH2	146754	broad.mit.edu	37	chr17	7644225	7644225	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacggaacaagaaatggcCagacctggagccctacgtgg	13	5	13	10	2	0	3	0	1	0	2	0	5	0	5	3	4	4	0	3	4	5	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:7644225C>A	uc002giu.1	+	10	1618	c.1604C>A	c.(1603-1605)CCA>CAA	p.P535Q	DNAH2_uc002git.2_Missense_Mutation_p.P617Q|DNAH2_uc010vuk.1_Missense_Mutation_p.P535Q	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	535	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				AAGAAATGGCCAGACCTGGAG	0.572													43	112					2.77807e-22	3.06445e-22	0.013114	1	0		A	7644225	A	A	7644225	3	1	23	1	0	0	0	0	1	0	0	0	4608	594	21	5	1642	5	DNAH2	17	7644225	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	177278	7644225	73550985	1144	20472											
SLC25A35	399512	broad.mit.edu	37	chr17	8194159	8194159	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catcccagagcacttccttaCcttgccctgtgcatctgtgg	6	12	8	15	0	1	1	0	0	1	1	3	1	3	1	4	1	4	2	4	1	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:8194159C>T	uc002gla.3	-	4	774	c.729_splice	c.e4+1	p.K243_splice	SLC25A35_uc002gku.1_Splice_Site_p.K243_splice|SLC25A35_uc002gkt.2_Splice_Site_p.K243_splice|SLC25A35_uc002gkz.1_Splice_Site	NM_201520	NP_958928	Q3KQZ1	S2535_HUMAN	solute carrier family 25, member 35						transport	integral to membrane|mitochondrial inner membrane					0						CACTTCCTTACCTTGCCCTGT	0.587													38	111					0	0	0.009718	0	0		T	8194159	T	T	8194159	5	4	23	1	0	0	0	0	0	0	1	0	14524	521	18	4	169	4	SLC25A35	17	8194159	Splice_Site	SNP	C	TCGA-BR-4368-01A-01D-1158-08	549934	8194159	73001051	1145	20473											
MYH10	4628	broad.mit.edu	37	chr17	8417117	8417117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctcacctttgtgaagactCgccaccactgccagtgccgt	8	9	9	15	2	1	2	1	1	0	1	2	2	1	2	5	0	3	1	5	0	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:8417117C>T	uc002gll.2	-	20	2603	c.2507G>A	c.(2506-2508)CGA>CAA	p.R836Q	MYH10_uc002glm.2_Missense_Mutation_p.R867Q|MYH10_uc010cnx.2_Missense_Mutation_p.R845Q	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	836					actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TGTGAAGACTCGCCACCACTG	0.488													17	65					0	0	0.007413	0	0		T	8417117	T	T	8417117	3	4	23	1	0	0	0	0	1	0	0	0	10048	884	31	1	3511	1	MYH10	17	8417117	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	222958	8417117	72778093	1146	20474											
PIK3R6	146850	broad.mit.edu	37	chr17	8731436	8731436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtccagtcacctcaggcGccagcacggggatgtagtag	8	6	15	12	3	2	0	2	0	0	0	3	1	3	1	3	4	1	3	3	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:8731436G>A	uc002glq.1	-	12	1625	c.1385C>T	c.(1384-1386)GCG>GTG	p.A462V	PIK3R6_uc002glr.1_RNA|PIK3R6_uc002gls.1_RNA	NM_001010855	NP_001010855	Q5UE93	PI3R6_HUMAN	phosphoinositide-3-kinase, regulatory subunit 6	462					platelet activation	cytosol					0						CACCTCAGGCGCCAGCACGGG	0.587													29	49					0	0	0.009535	0	0		A	8731436	A	A	8731436	3	1	23	1	0	0	0	0	1	0	0	0	11942	1087	38	1	914	1	PIK3R6	17	8731436	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	314319	8731436	72463774	1147	20475											
MYH13	8735	broad.mit.edu	37	chr17	10248525	10248525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtatctctctaccttctcGatgagctcgatgcaggcagc	8	11	9	13	2	3	1	0	1	3	0	6	3	3	1	1	1	4	4	1	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:10248525G>A	uc002gmk.1	-	15	1668	c.1578C>T	c.(1576-1578)ATC>ATT	p.I526I	MYH13_uc010vvf.1_Silent_p.I201I	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	526	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						CTACCTTCTCGATGAGCTCGA	0.542													23	106					0	0	0.00333	0	0		A	10248525	A	A	10248525	2	1	23	1	0	0	0	0	0	0	0	1	10050	1048	37	1		1	MYH13	17	10248525	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1517089	10248525	70946685	1148	20476											
C17orf48	56985	broad.mit.edu	37	chr17	10608264	10608264	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggatgataaacccaatccTgaagccctaagtgacagttc	14	9	8	10	0	0	3	0	3	0	0	2	4	1	4	3	1	2	1	3	1	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:10608264T>C	uc002gmt.2	+	2	96	c.21T>C	c.(19-21)CCT>CCC	p.P7P	C17orf48_uc002gmu.2_RNA|C17orf48_uc002gmv.2_RNA|C17orf48_uc010vvg.1_Silent_p.P7P	NM_020233	NP_064618	Q3LIE5	ADPRM_HUMAN	ADP-ribose/CDP-alcohol pyrophosphatase	7							ADP-ribose diphosphatase activity|CDP-glycerol diphosphatase activity|metal ion binding				0						AACCCAATCCTGAAGCCCTAA	0.363													7	157					0	0	0.004482	0	0		C	10608264	C	C	10608264	2	2	23	1	0	0	0	0	0	0	0	1	1862	1567	55	3		3	C17orf48	17	10608264	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	359739	10608264	70586946	1149	20477											
DNAH9	1770	broad.mit.edu	37	chr17	11775045	11775045	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaccttggcttcttcacaaAgaaataccggcagagcctcc	11	9	7	14	1	2	2	1	0	1	2	3	2	3	2	4	2	3	2	4	2	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:11775045A>G	uc002gne.2	+	52	10252	c.10184A>G	c.(10183-10185)AAG>AGG	p.K3395R	DNAH9_uc010coo.2_Missense_Mutation_p.K2689R	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3395					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TTCTTCACAAAGAAATACCGG	0.408													45	127					0	0	0.01441	0	0		G	11775045	G	G	11775045	3	3	23	1	0	0	0	0	1	0	0	0	4614	72	3	3	10390	3	DNAH9	17	11775045	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1166781	11775045	69420165	1150	20478											
MYOCD	93649	broad.mit.edu	37	chr17	12639605	12639605	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcgggatccccgccagaCgctaaagcctcagatacccc	10	5	9	17	3	2	2	2	0	0	2	3	3	3	3	6	1	3	1	6	1	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:12639605C>T	uc002gnn.2	+	6	842	c.543C>T	c.(541-543)GAC>GAT	p.D181D	MYOCD_uc002gno.2_Silent_p.D181D|MYOCD_uc002gnp.1_Silent_p.D85D	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	181	HDAC5-binding (By similarity).				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CCCCGCCAGACGCTAAAGCCT	0.488													38	149					0	0	0.00623	0	0		T	12639605	T	T	12639605	2	4	23	1	0	0	0	0	0	0	0	1	10105	535	19	1		1	MYOCD	17	12639605	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	864560	12639605	68555605	1151	20479											
NCOR1	9611	broad.mit.edu	37	chr17	15935741	15935741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcacatgcaatcggtgttgGtggagtactgctgagcatcc	9	10	13	9	1	0	1	0	1	0	0	2	2	1	2	1	3	5	6	1	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:15935741G>A	uc002gpo.2	-	46	7432	c.7192C>T	c.(7192-7194)CCA>TCA	p.P2398S	NCOR1_uc002gpn.2_Missense_Mutation_p.P2295S|NCOR1_uc002gpl.2_Missense_Mutation_p.P412S|NCOR1_uc002gpm.2_Missense_Mutation_p.P917S|NCOR1_uc010vwb.1_Missense_Mutation_p.P982S|NCOR1_uc010coy.2_Missense_Mutation_p.P1306S	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	2398	Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		ATCGGTGTTGGTGGAGTACTG	0.498													28	89					0	0	0.010818	0	0		A	15935741	A	A	15935741	3	1	23	1	0	0	0	0	1	0	0	0	10254	1261	44	4	134	4	NCOR1	17	15935741	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3296136	15935741	65259469	1152	20480											
TRPV2	51393	broad.mit.edu	37	chr17	16325986	16325986	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcaatgcctgcattctGccactgctgcagatcgacag	9	9	11	12	1	2	1	1	0	1	1	3	3	2	2	2	1	5	3	2	1	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:16325986G>A	uc002gpy.2	+	4	775	c.408G>A	c.(406-408)CTG>CTA	p.L136L	TRPV2_uc002gpz.2_5'UTR	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	136	Cytoplasmic (Potential).|Required for interaction with SLC50A1 (By similarity).|ANK 2.				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CCTGCATTCTGCCACTGCTGC	0.577													5	27					0	0	0.001168	0	0		A	16325986	A	A	16325986	2	1	23	1	0	0	0	0	0	0	0	1	16622	1306	46	2		2	TRPV2	17	16325986	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	390245	16325986	64869224	1153	20481											
RAI1	10743	broad.mit.edu	37	chr17	17698291	17698291	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttgcagctggacaagggcGgcaatgccaaggacttcagc	10	6	13	12	1	1	0	1	0	0	0	1	2	1	2	2	4	4	3	2	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:17698291G>T	uc002grm.2	+	3	2498	c.2029G>T	c.(2029-2031)GGC>TGC	p.G677C	RAI1_uc002grn.1_Missense_Mutation_p.G677C	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	677						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		GGACAAGGGCGGCAATGCCAA	0.637													19	63					4.96729e-08	5.232e-08	0.008871	1	0		T	17698291	T	T	17698291	3	4	23	1	0	0	0	0	1	0	0	0	13032	1116	39	5	2031	5	RAI1	17	17698291	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1372305	17698291	63496919	1154	20482											
FBXW10	10517	broad.mit.edu	37	chr17	18647574	18647574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatcatggaaaacctggaatCaaggctcaagaatgccccct	14	7	9	11	0	3	1	3	0	0	1	3	4	3	3	3	3	2	1	3	3	6	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:18647574C>T	uc002guk.2	+	1	249	c.17C>T	c.(16-18)TCA>TTA	p.S6L	FBXW10_uc002guj.2_Missense_Mutation_p.S6L|FBXW10_uc002gul.2_Missense_Mutation_p.S6L|FBXW10_uc010cqh.1_Missense_Mutation_p.S6L	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	6										ovary(1)	1						AACCTGGAATCAAGGCTCAAG	0.498													53	142					0	0	0.01441	0	0		T	18647574	T	T	18647574	3	4	23	1	0	0	0	0	1	0	0	0	5777	838	29	4	19	4	FBXW10	17	18647574	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	949283	18647574	62547636	1155	20483											
KIAA0100	9703	broad.mit.edu	37	chr17	26960768	26960768	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgtactggaatatttcCgctggggtagaggaacaaag	12	10	13	6	1	0	1	0	0	0	1	1	3	1	3	1	4	2	3	1	4	6	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:26960768C>T	uc002hbu.2	-	18	3363	c.3264G>A	c.(3262-3264)TCG>TCA	p.S1088S		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	1088						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					GGAATATTTCCGCTGGGGTAG	0.532													9	26					0	0	0.006214	0	0		T	26960768	T	T	26960768	2	4	23	1	0	0	0	0	0	0	0	1	8170	666	23	1		1	KIAA0100	17	26960768	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	8313194	26960768	54234442	1156	20484											
SUPT6H	6830	broad.mit.edu	37	chr17	27013675	27013675	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacactcatcccaccagggaCgcccagatgttgattgaaga	13	7	9	12	1	1	4	1	2	0	2	2	5	2	5	3	1	1	1	3	1	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:27013675C>T	uc002hby.2	+	21	2658	c.2568C>T	c.(2566-2568)GAC>GAT	p.D856D	SUPT6H_uc010crt.2_Silent_p.D856D|SUPT6H_uc002hbz.1_5'Flank	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	856					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					CCACCAGGGACGCCCAGATGT	0.512													27	119					0	0	0.008361	0	0		T	27013675	T	T	27013675	2	4	23	1	0	0	0	0	0	0	0	1	15425	535	19	1		1	SUPT6H	17	27013675	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	52907	27013675	54181535	1157	20485											
C17orf63	55731	broad.mit.edu	37	chr17	27086113	27086113	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttggcgatctggccctcAcacactgaggtagtgctgat	7	10	14	10	1	2	2	1	2	1	0	2	3	2	2	1	4	1	3	1	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:27086113A>T	uc002hct.1	-	3	1131	c.864T>A	c.(862-864)TGT>TGA	p.C288*	C17orf63_uc010wax.1_Nonsense_Mutation_p.C288*|C17orf63_uc010way.1_Nonsense_Mutation_p.C288*|C17orf63_uc002hcw.2_Nonsense_Mutation_p.C160*	NM_018182	NP_060652	Q8WU58	CQ063_HUMAN	hypothetical protein LOC55731	288										ovary(1)	1	all_epithelial(6;5.06e-20)|Lung NSC(42;0.01)		Epithelial(11;3.38e-06)|all cancers(11;2.46e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.104)			TCTGGCCCTCACACACTGAGG	0.597													9	15					0	0	0.004482	0	0		T	27086113	T	T	27086113	4	4	23	1	0	0	0	0	0	1	0	0	1874	157	6	5		5	C17orf63	17	27086113	Nonsense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	72438	27086113	54109097	1158	20486											
SUZ12	23512	broad.mit.edu	37	chr17	30310094	30310094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccaataagcaagaaaagaGcaacatgggagactattctt	17	8	9	7	0	1	3	0	0	1	3	2	4	2	3	1	1	3	2	1	1	7	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:30310094G>A	uc002hgs.2	+	9	1216	c.994G>A	c.(994-996)GCA>ACA	p.A332T	SUZ12_uc002hgt.2_Missense_Mutation_p.A309T	NM_015355	NP_056170	Q15022	SUZ12_HUMAN	joined to JAZF1	332					negative regulation of cell differentiation|transcription, DNA-dependent	ESC/E(Z) complex	histone methyltransferase activity|methylated histone residue binding|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.041)|Ovarian(249;0.182)|Breast(31;0.231)				CAAGAAAAGAGCAACATGGGA	0.398			T	JAZF1	endometrial stromal tumours								15	119					0	0	0.007413	0	0		A	30310094	A	A	30310094	3	1	23	1	0	0	0	0	1	0	0	0	15441	971	34	2	1028	2	SUZ12	17	30310094	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3223981	30310094	50885116	1159	20487											
RHBDL3	162494	broad.mit.edu	37	chr17	30616026	30616026	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttcatgatcacagtcacGctgctggaggcaaggacaag	11	8	13	9	1	3	1	3	1	0	0	3	3	3	3	0	4	1	4	0	4	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:30616026G>A	uc002hhe.1	+	4	524	c.510G>A	c.(508-510)ACG>ACA	p.T170T	RHBDL3_uc010csw.1_Silent_p.T162T|RHBDL3_uc010csx.1_Silent_p.T170T|RHBDL3_uc010csy.1_Silent_p.T72T|RHBDL3_uc002hhf.1_Silent_p.T72T	NM_138328	NP_612201	P58872	RHBL3_HUMAN	rhomboid protease 3	170	Helical; (Potential).				proteolysis	integral to membrane	calcium ion binding|serine-type endopeptidase activity			ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)				TCACAGTCACGCTGCTGGAGG	0.607													14	48					0	0	0.00245	0	0		A	30616026	A	A	30616026	2	1	23	1	0	0	0	0	0	0	0	1	13348	1074	38	1		1	RHBDL3	17	30616026	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	305932	30616026	50579184	1160	20488											
CCL13	6357	broad.mit.edu	37	chr17	32684573	32684573	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagaggctgaagagctatgtGatcaccaccagcaggtgtcc	11	7	12	11	0	1	4	1	2	0	2	2	4	2	4	3	2	2	3	3	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:32684573G>A	uc002hic.2	+	2	231	c.156G>A	c.(154-156)GTG>GTA	p.V52V		NM_005408	NP_005399	Q99616	CCL13_HUMAN	small inducible cytokine A13 precursor	52					cell-cell signaling|cellular calcium ion homeostasis|chemotaxis|immune response|inflammatory response	extracellular space	chemokine activity|signal transducer activity				0		Ovarian(249;0.0443)|Breast(31;0.151)				AGAGCTATGTGATCACCACCA	0.483													6	131					0	0	0.001168	0	0		A	32684573	A	A	32684573	2	1	23	1	0	0	0	0	0	0	0	1	2887	1277	45	4		4	CCL13	17	32684573	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2068547	32684573	48510637	1161	20489											
TMEM132E	124842	broad.mit.edu	37	chr17	32963111	32963111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcatcacacagcttcaggCccaggtggtggccagcctgg	8	6	13	14	0	2	0	2	0	0	0	2	0	2	0	3	5	3	2	3	5	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:32963111C>T	uc002hif.2	+	9	2121	c.1793C>T	c.(1792-1794)GCC>GTC	p.A598V		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	598	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		CAGCTTCAGGCCCAGGTGGTG	0.662													4	19					0	0	0.009096	0	0		T	32963111	T	T	32963111	3	4	23	1	0	0	0	0	1	0	0	0	16073	739	26	2	1827	2	TMEM132E	17	32963111	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	278538	32963111	48232099	1162	20490											
SLFN5	162394	broad.mit.edu	37	chr17	33585942	33585942	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggagtaggattggatgTgcctccaattttcagaagcc	10	12	11	8	0	2	1	2	0	0	1	3	4	3	4	3	3	2	1	3	3	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:33585942T>C	uc002hjf.3	+	2	350	c.233T>C	c.(232-234)GTG>GCG	p.V78A	SLFN5_uc002hje.2_Missense_Mutation_p.V78A|SLFN5_uc010wcg.1_Missense_Mutation_p.V78A	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	78					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		GGATTGGATGTGCCTCCAATT	0.433													29	131					0	0	0.010818	0	0		C	33585942	C	C	33585942	3	2	23	1	0	0	0	0	1	0	0	0	14762	1696	59	3	235	3	SLFN5	17	33585942	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	622831	33585942	47609268	1163	20491											
ACACA	31	broad.mit.edu	37	chr17	35470033	35470033	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcacgctacctgctttctcGgtcagcatacatctccatgt	7	12	8	14	2	3	0	1	0	2	0	5	0	3	0	2	2	4	4	2	2	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:35470033G>A	uc002hnm.2	-	51	6522	c.6331C>T	c.(6331-6333)CGA>TGA	p.R2111*	ACACA_uc002hnk.2_Nonsense_Mutation_p.R2033*|ACACA_uc002hnl.2_Nonsense_Mutation_p.R2053*|ACACA_uc002hnn.2_Nonsense_Mutation_p.R2111*|ACACA_uc002hno.2_Nonsense_Mutation_p.R2148*|ACACA_uc010cuy.2_Nonsense_Mutation_p.R756*|ACACA_uc010wdb.1_Nonsense_Mutation_p.R149*|ACACA_uc010wdc.1_Nonsense_Mutation_p.R237*	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	2111	Carboxyltransferase.				acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	CTGCTTTCTCGGTCAGCATAC	0.552													21	39					0	0	0.014323	0	0		A	35470033	A	A	35470033	4	1	23	1	0	0	0	0	0	1	0	0	106	1124	39	1	733	1	ACACA	17	35470033	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1884091	35470033	45725177	1164	20492											
GRB7	2886	broad.mit.edu	37	chr17	37900851	37900851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgtgaacgagtccaacGtgtacgtggtgacgcagggc	10	7	15	9	4	0	3	0	2	0	1	1	4	1	3	1	2	3	2	1	2	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:37900851G>A	uc002hsr.2	+	8	1097	c.847G>A	c.(847-849)GTG>ATG	p.V283M	GRB7_uc002hss.2_Missense_Mutation_p.V283M|GRB7_uc010cwc.2_Missense_Mutation_p.V283M|GRB7_uc002hst.2_Missense_Mutation_p.V283M	NM_005310	NP_005301	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	283	PH.				blood coagulation|epidermal growth factor receptor signaling pathway|leukocyte migration|negative regulation of translation|positive regulation of cell migration|stress granule assembly	cytosol|focal adhesion|stress granule	phosphatidylinositol binding|protein kinase binding|SH3/SH2 adaptor activity			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CGAGTCCAACGTGTACGTGGT	0.582													4	25					0	0	0.001168	0	0		A	37900851	A	A	37900851	3	1	23	1	0	0	0	0	1	0	0	0	6775	1145	40	1	873	1	GRB7	17	37900851	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2430818	37900851	43294359	1165	20493											
IKZF3	22806	broad.mit.edu	37	chr17	37922143	37922143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttacactcgaaagggtcaCggaagccgtggcagcccatg	10	7	13	11	3	1	0	1	0	0	0	2	2	1	1	2	3	3	2	2	3	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:37922143C>T	uc002hsu.2	-	8	1492	c.1430G>A	c.(1429-1431)CGT>CAT	p.R477H	IKZF3_uc002htd.2_Missense_Mutation_p.R443H|IKZF3_uc010cwd.2_Missense_Mutation_p.R334H|IKZF3_uc002hsv.2_Missense_Mutation_p.R404H|IKZF3_uc010cwe.2_Missense_Mutation_p.R343H|IKZF3_uc010cwf.2_Missense_Mutation_p.R295H|IKZF3_uc010cwg.2_Missense_Mutation_p.R256H|IKZF3_uc002hsw.2_Missense_Mutation_p.R438H|IKZF3_uc002hsx.2_Missense_Mutation_p.R421H|IKZF3_uc002hsy.2_Missense_Mutation_p.R438H|IKZF3_uc002hsz.2_Missense_Mutation_p.R382H|IKZF3_uc002hta.2_Missense_Mutation_p.R399H|IKZF3_uc002htb.2_RNA|IKZF3_uc010cwh.2_Missense_Mutation_p.R390H|IKZF3_uc002htc.2_Missense_Mutation_p.R230H|IKZF3_uc010wel.1_Missense_Mutation_p.R230H	NM_012481	NP_036613	Q9UKT9	IKZF3_HUMAN	aiolos isoform 1	477					B cell activation|mesoderm development|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)|kidney(2)|skin(2)	6	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GAAAGGGTCACGGAAGCCGTG	0.527													5	108					0	0	0.001168	0	0		T	37922143	T	T	37922143	3	4	23	1	0	0	0	0	1	0	0	0	7632	536	19	1	103	1	IKZF3	17	37922143	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	21292	37922143	43273067	1166	20494											
IKZF3	22806	broad.mit.edu	37	chr17	37947745	37947745	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaggtgacacttaaaaggTttttcccctgtgtgcagttt	9	14	10	8	0	0	2	0	1	0	1	1	2	1	2	2	2	1	3	2	2	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:37947745T>G	uc002hsu.2	-	5	578	c.516A>C	c.(514-516)AAA>AAC	p.K172N	IKZF3_uc002htd.2_Missense_Mutation_p.K138N|IKZF3_uc010cwd.2_Intron|IKZF3_uc002hsv.2_Missense_Mutation_p.K138N|IKZF3_uc010cwe.2_Intron|IKZF3_uc010cwf.2_Intron|IKZF3_uc010cwg.2_Intron|IKZF3_uc002hsw.2_Missense_Mutation_p.K172N|IKZF3_uc002hsx.2_Intron|IKZF3_uc002hsy.2_Missense_Mutation_p.K172N|IKZF3_uc002hsz.2_Intron|IKZF3_uc002hta.2_Missense_Mutation_p.K172N|IKZF3_uc002htb.2_RNA|IKZF3_uc010cwh.2_Missense_Mutation_p.K85N|IKZF3_uc002htc.2_Intron	NM_012481	NP_036613	Q9UKT9	IKZF3_HUMAN	aiolos isoform 1	172					B cell activation|mesoderm development|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)|kidney(2)|skin(2)	6	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			ACTTAAAAGGTTTTTCCCCTG	0.458													39	140					0	0	0.009718	0	0		G	37947745	G	G	37947745	3	3	23	1	0	0	0	0	1	0	0	0	7632	1722	60	5	1029	5	IKZF3	17	37947745	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	25602	37947745	43247465	1167	20495											
KRT31	3881	broad.mit.edu	37	chr17	39551538	39551538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgatctccagggcgttgaCtgtgcgtctcagctcgatga	6	11	12	12	4	2	2	1	2	2	0	6	4	2	2	1	1	2	2	1	1	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:39551538C>T	uc002hwn.2	-	5	888	c.835G>A	c.(835-837)GTC>ATC	p.V279I	KRT31_uc010cxn.2_Missense_Mutation_p.V279I	NM_002277	NP_002268	Q15323	K1H1_HUMAN	keratin 31	279	Coil 2.|Rod.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000496)				AGGGCGTTGACTGTGCGTCTC	0.602													29	116					0	0	0.012213	0	0		T	39551538	T	T	39551538	3	4	23	1	0	0	0	0	1	0	0	0	8483	565	20	4	427	4	KRT31	17	39551538	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1603793	39551538	41643672	1168	20496											
DNAJC7	7266	broad.mit.edu	37	chr17	40134291	40134291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acctggatggtgcatcaaggCccgtttccgataagctttct	8	12	10	11	2	2	0	1	0	1	0	3	2	3	1	3	3	2	3	3	3	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:40134291C>T	uc002hyo.2	-	11	1450	c.1213G>A	c.(1213-1215)GCC>ACC	p.A405T	DNAJC7_uc010cxu.2_Missense_Mutation_p.A349T|DNAJC7_uc010cxv.2_Intron|DNAJC7_uc010wgb.1_Missense_Mutation_p.A349T|DNAJC7_uc010wgc.1_Missense_Mutation_p.A263T|DNAJC7_uc002hyp.2_Missense_Mutation_p.A349T	NM_003315	NP_003306	Q99615	DNJC7_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 7	405	J.				chaperone cofactor-dependent protein refolding	cytoplasm|cytoskeleton|nucleus	heat shock protein binding|unfolded protein binding			ovary(1)	1		all_cancers(22;0.00273)|Breast(137;0.00104)|all_epithelial(22;0.0305)				TGCATCAAGGCCCGTTTCCGA	0.542													11	43					0	0	0.008291	0	0		T	40134291	T	T	40134291	3	4	23	1	0	0	0	0	1	0	0	0	4660	739	26	2	287	2	DNAJC7	17	40134291	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	582753	40134291	41060919	1169	20497											
STAT5A	6776	broad.mit.edu	37	chr17	40452261	40452262	+	Frame_Shift_Ins	INS	-	GG	GG																															agcagctggccgggaacggcINSgggccccccgagggcagcct																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:40452261_40452262insGG	uc002hzj.1	+	8	1437_1438	c.795_796insGG	c.(793-798)GGCGGGfs	p.G265fs	STAT5A_uc010cya.1_Frame_Shift_Ins_p.G265fs|STAT5A_uc010cyb.1_Frame_Shift_Ins_p.G265fs|STAT5A_uc010cyc.1_Frame_Shift_Ins_p.G235fs	NM_003152	NP_003143	P42229	STA5A_HUMAN	signal transducer and activator of transcription	265_266					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|oxaloacetate metabolic process|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_cancers(22;1.56e-06)|all_epithelial(22;3.17e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)		CCGGGAACGGCGGGCCCCCCGA	0.688													2	4	---	---	---	---						.	GG	40452262	GG	GG	40452261	7	5	23	1	0	1	1	0	0	0	0	0	15293	755	27	0	817	0	STAT5A	17	40452261	Frame_Shift_Ins	INS	-	TCGA-BR-4368-01A-01D-1158-08	317970	40452261	40742949	1170	20498											
NBR1	4077	broad.mit.edu	37	chr17	41341613	41341613	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccatattctagttcagagaAcaagtggttaacgaaacggt	14	11	9	7	2	2	1	1	0	1	1	3	3	3	1	1	2	3	2	1	2	6	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:41341613A>G	uc010czd.2	+	8	629	c.489A>G	c.(487-489)GAA>GAG	p.E163E	NBR1_uc010diz.2_Silent_p.E163E|NBR1_uc010whu.1_Silent_p.E163E|NBR1_uc010whv.1_Silent_p.E163E|NBR1_uc010whw.1_Silent_p.E142E|NBR1_uc010whx.1_5'Flank	NM_031862	NP_114068	Q14596	NBR1_HUMAN	neighbor of BRCA1 gene 1	163					macroautophagy|protein oligomerization	autophagic vacuole|cytoplasmic vesicle|cytosol|late endosome|lysosome|sarcomere	ubiquitin binding|zinc ion binding			skin(1)	1		Breast(137;0.00086)		BRCA - Breast invasive adenocarcinoma(366;0.0934)		AGTTCAGAGAACAAGTGGTTA	0.393													16	62					0	0	0.00499	0	0		G	41341613	G	G	41341613	2	3	23	1	0	0	0	0	0	0	0	1	10219	40	2	3		3	NBR1	17	41341613	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	889352	41341613	39853597	1171	20499											
TMEM101	84336	broad.mit.edu	37	chr17	42090431	42090431	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccggtggactgcagggagcgGctgcgaggtttccggcggta	5	7	19	10	5	0	0	0	0	0	0	1	3	1	2	2	7	3	4	2	7	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:42090431G>A	uc002ieu.2	-	3	436	c.411C>T	c.(409-411)AGC>AGT	p.S137S	TMEM101_uc010wis.1_Silent_p.S79S	NM_032376	NP_115752	Q96IK0	TM101_HUMAN	transmembrane protein 101	137					positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		Breast(137;0.0264)|Prostate(33;0.0861)		BRCA - Breast invasive adenocarcinoma(366;0.113)		GCAGGGAGCGGCTGCGAGGTT	0.617													7	41					0	0	0.00308	0	0		A	42090431	A	A	42090431	2	1	23	1	0	0	0	0	0	0	0	1	16041	1194	42	2		2	TMEM101	17	42090431	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	748818	42090431	39104779	1172	20500											
FZD2	2535	broad.mit.edu	37	chr17	42635524	42635524	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtcggccagaaccactcCgaggacggagctcccgcgct	7	5	13	16	6	0	1	0	0	0	1	3	4	2	3	4	3	3	2	4	3	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:42635524C>T	uc002igx.1	+	1	600	c.468C>T	c.(466-468)TCC>TCT	p.S156S		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	156	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		AGAACCACTCCGAGGACGGAG	0.428													4	22					0	0	0.00308	0	0		T	42635524	T	T	42635524	2	4	23	1	0	0	0	0	0	0	0	1	6144	639	23	1		1	FZD2	17	42635524	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	545093	42635524	38559686	1173	20501											
C1QL1	10882	broad.mit.edu	37	chr17	43044868	43044868	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactggtgccgtcgccgccGcgcatgaggacatggtaggt	7	8	15	11	5	0	1	0	1	0	0	1	2	0	2	3	4	2	2	3	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:43044868G>A	uc002ihv.2	-	1	777	c.549C>T	c.(547-549)CGC>CGT	p.R183R		NM_006688	NP_006679	O75973	C1QRF_HUMAN	complement component 1, q subcomponent-like 1	183	C1q.				locomotory behavior	collagen					0		Prostate(33;0.155)				CGTCGCCGCCGCGCATGAGGA	0.642													7	37					0	0	0.004482	0	0		A	43044868	A	A	43044868	2	1	23	1	0	0	0	0	0	0	0	1	1961	1074	38	1		1	C1QL1	17	43044868	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	409344	43044868	38150342	1174	20502											
PLCD3	113026	broad.mit.edu	37	chr17	43195441	43195441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatggccatgatagatgaCgggctcccctcctggcccct	6	9	12	14	1	0	3	0	2	0	1	2	3	2	3	6	4	0	2	6	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:43195441C>T	uc002iib.2	-	7	1294	c.1180G>A	c.(1180-1182)GTC>ATC	p.V394I		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	394	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	TGATAGATGACGGGCTCCCCT	0.642													5	19					0	0	0.000602	0	0		T	43195441	T	T	43195441	3	4	23	1	0	0	0	0	1	0	0	0	12051	536	19	1	1224	1	PLCD3	17	43195441	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	150573	43195441	37999769	1175	20503											
TBX21	30009	broad.mit.edu	37	chr17	45822678	45822678	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcccctgctggggccccTtctccttttgataaggaagc	5	12	9	15	0	1	1	0	1	1	0	4	2	3	2	6	3	2	1	6	3	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:45822678T>G	uc002ilv.1	+	6	1765	c.1554T>G	c.(1552-1554)CCT>CCG	p.P518P		NM_013351	NP_037483	Q9UL17	TBX21_HUMAN	T-box 21	518					lymphocyte migration|multicellular organismal development|positive regulation of transcription, DNA-dependent|response to virus	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						CTGGGGCCCCTTCTCCTTTTG	0.498													10	65					0	0	0.008291	0	0		G	45822678	G	G	45822678	2	3	23	1	0	0	0	0	0	0	0	1	15682	1596	56	5		5	TBX21	17	45822678	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2627237	45822678	35372532	1176	20504											
HOXB3	3213	broad.mit.edu	37	chr17	46629792	46629792	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtacgaggaatagcctccGaagagagcagccgcggcgtt	10	5	16	10	5	0	1	0	0	0	1	1	5	1	2	3	3	4	3	3	3	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:46629792G>A	uc002inn.2	-	1	445	c.45C>T	c.(43-45)TTC>TTT	p.F15F	HOXB3_uc010wlm.1_Intron|HOXB3_uc010dbf.2_Silent_p.F15F|HOXB3_uc010dbg.2_Silent_p.F15F|HOXB3_uc002ino.2_Silent_p.F15F|HOXB3_uc010wlk.1_Intron|HOXB3_uc010wll.1_Intron	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	15					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AATAGCCTCCGAAGAGAGCAG	0.632													7	31					0	0	0.010729	0	0		A	46629792	A	A	46629792	2	1	23	1	0	0	0	0	0	0	0	1	7318	1049	37	1		1	HOXB3	17	46629792	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	807114	46629792	34565418	1177	20505											
IGF2BP1	10642	broad.mit.edu	37	chr17	47118830	47118830	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggaacctgaagaaggtagaGcaagataccgagacaaaaat	19	4	11	7	2	0	5	0	1	0	4	0	7	0	6	2	2	3	2	2	2	8	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:47118830G>T	uc002iom.2	+	8	1243	c.909G>T	c.(907-909)GAG>GAT	p.E303D	IGF2BP1_uc010dbj.2_Missense_Mutation_p.E164D	NM_006546	NP_006537	Q9NZI8	IF2B1_HUMAN	insulin-like growth factor 2 mRNA binding	303	Necessary for interaction with ELAVL4 and binding to TAU mRNA (By similarity).|KH 2.				CRD-mediated mRNA stabilization|negative regulation of translation|regulation of mRNA stability involved in response to stress	CRD-mediated mRNA stability complex|cytosol|dendritic spine|lamellipodium|nucleus|plasma membrane|stress granule	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			kidney(1)	1						AGAAGGTAGAGCAAGATACCG	0.502													15	65					1.02788e-11	1.10483e-11	0.00499	1	0		T	47118830	T	T	47118830	3	4	23	1	0	0	0	0	1	0	0	0	7589	962	34	5	939	5	IGF2BP1	17	47118830	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	489038	47118830	34076380	1178	20506											
SPAG9	9043	broad.mit.edu	37	chr17	49057256	49057256	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgcacttggctctccttcCtgggatgtgcatcaaaagat	8	12	10	11	1	2	1	1	0	1	1	5	2	3	2	2	2	1	3	2	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:49057256C>A	uc002itc.2	-	26	3469	c.3260G>T	c.(3259-3261)AGG>ATG	p.R1087M	SPAG9_uc002itb.2_Missense_Mutation_p.R1073M|SPAG9_uc002itd.2_Missense_Mutation_p.R1077M|SPAG9_uc002ita.2_Missense_Mutation_p.R930M	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	1087					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			GCTCTCCTTCCTGGGATGTGC	0.448													15	65					6.31663e-08	6.64908e-08	0.003163	1	0		A	49057256	A	A	49057256	3	1	23	1	0	0	0	0	1	0	0	0	15010	681	24	5	725	5	SPAG9	17	49057256	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1938426	49057256	32137954	1179	20507											
PCTP	58488	broad.mit.edu	37	chr17	53851106	53851106	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtctaccttcggcagcggCgagacctggacatggaaggg	9	7	15	10	3	1	1	0	0	1	1	2	4	1	3	2	5	2	1	2	5	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:53851106C>T	uc002iul.3	+	4	470	c.361C>T	c.(361-363)CGA>TGA	p.R121*	PCTP_uc002ium.3_Nonsense_Mutation_p.R49*|PCTP_uc010dcg.2_Intron|PCTP_uc010dch.2_RNA	NM_021213	NP_067036	Q9UKL6	PPCT_HUMAN	phosphatidylcholine transfer protein isoform 1	121	START.					cytosol	phosphatidylcholine binding|phosphatidylcholine transmembrane transporter activity			lung(1)	1			BRCA - Breast invasive adenocarcinoma(1;0.00207)			TCGGCAGCGGCGAGACCTGGA	0.567													10	19					0	0	0.004007	0	0		T	53851106	T	T	53851106	4	4	23	1	0	0	0	0	0	1	0	0	11626	760	27	1	375	1	PCTP	17	53851106	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4793850	53851106	27344104	1180	20508											
TRIM25	7706	broad.mit.edu	37	chr17	54972887	54972887	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatgataacttaccctccAagccagcttgttttaaatcc	11	12	4	14	0	0	1	0	1	0	0	2	1	2	1	5	0	4	2	5	0	5	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:54972887A>G	uc002iut.2	-	7	1319	c.1259T>C	c.(1258-1260)TTG>TCG	p.L420S	TRIM25_uc010dcj.2_Missense_Mutation_p.L212S	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25	420	Interaction with influenza A virus NS1.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)					CTTACCCTCCAAGCCAGCTTG	0.527													42	153					0	0	0.01441	0	0		G	54972887	G	G	54972887	3	3	23	1	0	0	0	0	1	0	0	0	16525	131	5	3	645	3	TRIM25	17	54972887	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1121781	54972887	26222323	1181	20509											
AKAP1	8165	broad.mit.edu	37	chr17	55191844	55191844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcctgatggcatcaccGtggaggtcattgtggtcaac	7	11	13	10	1	3	1	3	1	0	0	3	2	3	2	2	4	3	2	2	4	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:55191844G>A	uc002iux.2	+	6	2359	c.2128G>A	c.(2128-2130)GTG>ATG	p.V710M	AKAP1_uc010wnl.1_Missense_Mutation_p.V710M|AKAP1_uc002iuy.2_RNA|AKAP1_uc010dcm.2_Missense_Mutation_p.V710M	NM_003488	NP_003479	Q92667	AKAP1_HUMAN	A-kinase anchor protein 1 precursor	710					blood coagulation	cytosol|integral to membrane|mitochondrial outer membrane	protein binding|RNA binding			ovary(1)	1	Breast(9;5.46e-08)					TGGCATCACCGTGGAGGTCAT	0.567											OREG0024595	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	61					0	0	0.004656	0	0		A	55191844	A	A	55191844	3	1	23	1	0	0	0	0	1	0	0	0	445	1145	40	1	2146	1	AKAP1	17	55191844	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	218957	55191844	26003366	1182	20510											
LPO	4025	broad.mit.edu	37	chr17	56342193	56342193	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcccagaatttccaatgtCttcaccttcgccttccgctt	7	14	5	15	2	2	1	1	0	1	1	6	2	5	1	5	0	0	1	5	0	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:56342193C>A	uc002ivt.2	+	10	1693	c.1377C>A	c.(1375-1377)GTC>GTA	p.V459V	LPO_uc010wns.1_Silent_p.V400V|LPO_uc010dcp.2_Silent_p.V376V|LPO_uc010dcq.2_Silent_p.V130V|LPO_uc010dcr.2_Silent_p.V22V	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	459					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						TTTCCAATGTCTTCACCTTCG	0.517													15	54					6.94344e-10	7.37357e-10	0.006122	1	0		A	56342193	A	A	56342193	2	1	23	1	0	0	0	0	0	0	0	1	8940	900	32	5		5	LPO	17	56342193	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1150349	56342193	24853017	1183	20511											
RNF43	54894	broad.mit.edu	37	chr17	56435035	56435035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccaggcctggaggtccaCagatcaaggggtgtgcctct	7	9	14	11	0	2	1	1	0	1	1	4	2	4	2	4	5	1	0	4	5	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:56435035C>T	uc002iwf.2	-	8	4058	c.2102G>A	c.(2101-2103)TGT>TAT	p.C701Y	RNF43_uc010wnv.1_Missense_Mutation_p.C660Y|RNF43_uc002iwh.3_Missense_Mutation_p.C701Y|RNF43_uc002iwg.3_Missense_Mutation_p.C701Y|RNF43_uc010dcw.2_Missense_Mutation_p.C574Y	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	701	Pro-rich.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGGAGGTCCACAGATCAAGGG	0.592													25	225					0	0	0.007291	0	0		T	56435035	T	T	56435035	3	4	23	1	0	0	0	0	1	0	0	0	13520	478	17	4	257	4	RNF43	17	56435035	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	92842	56435035	24760175	1184	20512											
RNF43	54894	broad.mit.edu	37	chr17	56435709	56435709	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagttgaccacagagtcActggaagagccatgacaggg	12	6	14	9	0	1	4	1	2	0	2	1	5	1	5	2	2	2	2	2	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:56435709A>G	uc002iwf.2	-	8	3384	c.1428T>C	c.(1426-1428)AGT>AGC	p.S476S	RNF43_uc010wnv.1_Silent_p.S435S|RNF43_uc002iwh.3_Silent_p.S476S|RNF43_uc002iwg.3_Silent_p.S476S|RNF43_uc010dcw.2_Silent_p.S349S	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	476	Cytoplasmic (Potential).|Ser-rich.					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CCACAGAGTCACTGGAAGAGC	0.567													20	85					0	0	0.00278	0	0		G	56435709	G	G	56435709	2	3	23	1	0	0	0	0	0	0	0	1	13520	156	6	3		3	RNF43	17	56435709	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	674	56435709	24759501	1185	20513											
TRIM37	4591	broad.mit.edu	37	chr17	57134370	57134370	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcgaatgatattttttgtAggatcattacaggactggtg	10	16	10	5	1	2	1	1	1	1	0	3	4	2	3	0	3	1	1	0	3	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:57134370A>G	uc002iwy.3	-	13	1509	c.1065T>C	c.(1063-1065)CCT>CCC	p.P355P	TRIM37_uc002iwz.3_Silent_p.P355P|TRIM37_uc002ixa.3_Silent_p.P233P|TRIM37_uc010woc.1_Silent_p.P321P	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	355	MATH.					perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TATTTTTTGTAGGATCATTAC	0.333									Mulibrey_Nanism				19	80					0	0	0.006122	0	0		G	57134370	G	G	57134370	2	3	23	1	0	0	0	0	0	0	0	1	16537	407	15	3		3	TRIM37	17	57134370	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	698661	57134370	24060840	1186	20514											
USP32	84669	broad.mit.edu	37	chr17	58288786	58288786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gataaaatactgtgtcagtgGctgtgtgttactaacacact	12	13	9	7	0	1	0	1	0	0	0	1	1	1	0	0	1	3	2	0	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:58288786G>A	uc002iyo.1	-	20	2555	c.2269C>T	c.(2269-2271)CCA>TCA	p.P757S	USP32_uc002iyn.1_Missense_Mutation_p.P427S	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	757					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			TGTGTCAGTGGCTGTGTGTTA	0.433													33	108					0	0	0.01441	0	0		A	58288786	A	A	58288786	3	1	23	1	0	0	0	0	1	0	0	0	17089	1203	42	2	2605	2	USP32	17	58288786	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1154416	58288786	22906424	1187	20515											
CSHL1	1444	broad.mit.edu	37	chr17	61988105	61988105	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgccacccctgacccgcacCcattccccaagagcttataa	10	8	5	18	1	0	2	0	1	0	1	1	2	1	2	7	0	2	2	7	0	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:61988105C>A	uc002jda.1	-	2	252	c.190G>T	c.(190-192)GAA>TAA	p.E64*	CSHL1_uc002jcz.1_Missense_Mutation_p.D64Y|CSHL1_uc002jdb.1_Intron|CSHL1_uc002jdc.1_Intron|CSHL1_uc002jdd.1_Intron|CSHL1_uc002jde.2_Missense_Mutation_p.G92C|CSHL1_uc002jdf.2_Intron|CSHL1_uc002jdg.2_Missense_Mutation_p.G64C|CSHL1_uc002jdh.2_Intron	NM_022579	NP_072101	Q14406	CSHL_HUMAN	chorionic somatomammotropin hormone-like 1	64						extracellular region	hormone activity|metal ion binding				0						TGACCCGCACCCATTCCCCAA	0.532													56	222					3.94896e-32	4.39355e-32	0.01441	1	0		A	61988105	A	A	61988105	4	1	23	1	0	0	0	0	0	1	0	0	3945	637	22	5	494	5	CSHL1	17	61988105	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3699319	61988105	19207105	1188	20516											
POLG2	11232	broad.mit.edu	37	chr17	62481916	62481916	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaatcatagaggtaggccaGcatgcctcggtctaggtccc	10	8	12	11	1	2	2	1	0	1	2	4	2	3	2	3	4	2	2	3	4	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:62481916G>T	uc002jei.2	-	5	1122	c.1039C>A	c.(1039-1041)CTG>ATG	p.L347M	POLG2_uc010deg.1_Missense_Mutation_p.L347M	NM_007215	NP_009146	Q9UHN1	DPOG2_HUMAN	DNA polymerase subunit gamma-2, mitochondrial	347					DNA repair|DNA-dependent DNA replication|glycyl-tRNA aminoacylation	mitochondrial chromosome	ATP binding|DNA-directed DNA polymerase activity|glycine-tRNA ligase activity|identical protein binding|single-stranded DNA binding			central_nervous_system(1)	1	Breast(5;2.15e-14)		BRCA - Breast invasive adenocarcinoma(8;4.97e-11)			AGGTAGGCCAGCATGCCTCGG	0.408													14	73					7.93312e-07	8.26777e-07	0.00245	1	0		T	62481916	T	T	62481916	3	4	23	1	0	0	0	0	1	0	0	0	12220	962	34	5	434	5	POLG2	17	62481916	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	493811	62481916	18713294	1189	20517											
LRRC37A3	374819	broad.mit.edu	37	chr17	62856577	62856577	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggcttggtgtagacggcGtttcccgctaacttctcagg	7	11	13	10	3	1	1	1	0	1	1	3	2	2	1	1	4	1	4	1	4	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:62856577G>A	uc002jey.2	-	11	4218	c.3687C>T	c.(3685-3687)AAC>AAT	p.N1229N	LRRC37A3_uc010wqg.1_Silent_p.N347N|LRRC37A3_uc002jex.1_Silent_p.N206N|LRRC37A3_uc010wqf.1_Silent_p.N267N|LRRC37A3_uc010dek.1_Silent_p.N235N	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1229	Extracellular (Potential).					integral to membrane					0						TGTAGACGGCGTTTCCCGCTA	0.572													32	102					0	0	0.003755	0	0		A	62856577	A	A	62856577	2	1	23	1	0	0	0	0	0	0	0	1	9011	1136	40	1		1	LRRC37A3	17	62856577	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	374661	62856577	18338633	1190	20518											
BPTF	2186	broad.mit.edu	37	chr17	65850305	65850305	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcatggcagagatgcatgTtgtgcttttgaaagcagttc	10	13	11	7	0	1	2	1	1	0	1	2	3	1	2	0	1	3	6	0	1	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:65850305T>C	uc002jgf.2	+	2	924	c.863T>C	c.(862-864)GTT>GCT	p.V288A	BPTF_uc002jge.2_Missense_Mutation_p.V288A|BPTF_uc010wqm.1_Missense_Mutation_p.V288A	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	288	DDT.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			GAGATGCATGTTGTGCTTTTG	0.433													49	167					0	0	0.01441	0	0		C	65850305	C	C	65850305	3	2	23	1	0	0	0	0	1	0	0	0	1498	1725	60	3	869	3	BPTF	17	65850305	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2993728	65850305	15344905	1191	20519											
CDC42EP4	23580	broad.mit.edu	37	chr17	71282556	71282556	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggaagtcgcccagcggggcGctgatcatctcggccgtgag	6	6	16	13	6	2	2	1	2	1	0	4	3	2	3	2	4	1	1	2	4	1	0	rs141752695		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:71282556G>A	uc002jjn.2	-	2	231	c.84C>T	c.(82-84)AGC>AGT	p.S28S	CDC42EP4_uc002jjo.2_Silent_p.S28S|CDC42EP4_uc002jjp.1_Silent_p.S28S	NM_012121	NP_036253	Q9H3Q1	BORG4_HUMAN	Cdc42 effector protein 4	28	CRIB.				positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|cytoplasm|endomembrane system|membrane|microtubule cytoskeleton	GTP-Rho binding				0			LUSC - Lung squamous cell carcinoma(166;0.0352)|Lung(188;0.0711)			CCAGCGGGGCGCTGATCATCT	0.662													9	39					0	0	0.008291	0	0		A	71282556	A	A	71282556	2	1	23	1	0	0	0	0	0	0	0	1	3081	1078	38	1		1	CDC42EP4	17	71282556	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5432251	71282556	9912654	1192	20520											
GPRC5C	55890	broad.mit.edu	37	chr17	72436848	72436848	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtccagcccagagcaaagCtaccagggggacatgtaccc	13	4	11	13	0	0	1	0	0	0	1	1	2	1	2	4	2	5	3	4	2	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:72436848C>A	uc002jks.2	+	1	972	c.933C>A	c.(931-933)AGC>AGA	p.S311R	GPRC5C_uc002jkp.2_Missense_Mutation_p.S356R|GPRC5C_uc002jkq.2_Intron|GPRC5C_uc002jkr.2_Missense_Mutation_p.S323R|GPRC5C_uc002jkt.2_Missense_Mutation_p.S311R|GPRC5C_uc002jku.2_5'Flank	NM_018653	NP_061123	Q9NQ84	GPC5C_HUMAN	G protein-coupled receptor family C, group 5,	311	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to plasma membrane	G-protein coupled receptor activity|protein binding			ovary(2)|prostate(1)|central_nervous_system(1)|pancreas(1)	5						CAGAGCAAAGCTACCAGGGGG	0.612													16	49					2.23348e-06	2.31621e-06	0.004007	1	0		A	72436848	A	A	72436848	3	1	23	1	0	0	0	0	1	0	0	0	6742	796	28	5	1082	5	GPRC5C	17	72436848	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1154292	72436848	8758362	1193	20521											
OTOP3	347741	broad.mit.edu	37	chr17	72937882	72937882	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctctaccaagatccccaCgcggggcccctctgggtgcg	5	7	13	16	3	2	1	0	0	2	1	3	1	3	1	5	3	3	1	5	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:72937882C>T	uc010wrr.1	+	2	468	c.468C>T	c.(466-468)CAC>CAT	p.H156H	OTOP3_uc010wrq.1_Silent_p.H138H	NM_178233	NP_839947	Q7RTS5	OTOP3_HUMAN	otopetrin 3	156						integral to membrane|intracellular	zinc ion binding			ovary(1)	1	all_lung(278;0.151)|Lung NSC(278;0.185)					AAGATCCCCACGCGGGGCCCC	0.687													5	39					0	0	0.001984	0	0		T	72937882	T	T	72937882	2	4	23	1	0	0	0	0	0	0	0	1	11326	535	19	1		1	OTOP3	17	72937882	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	501034	72937882	8257328	1194	20522											
OTOP3	347741	broad.mit.edu	37	chr17	72942905	72942905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaacgtgggccgccacGtggcaccccacatgggtgcc	8	4	15	14	3	0	1	0	0	0	1	0	2	0	2	5	4	2	1	5	4	2	0	rs141385371		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:72942905G>A	uc010wrr.1	+	6	955	c.955G>A	c.(955-957)GTG>ATG	p.V319M	OTOP3_uc010wrq.1_Missense_Mutation_p.V301M	NM_178233	NP_839947	Q7RTS5	OTOP3_HUMAN	otopetrin 3	319						integral to membrane|intracellular	zinc ion binding			ovary(1)	1	all_lung(278;0.151)|Lung NSC(278;0.185)					GGGCCGCCACGTGGCACCCCA	0.637													47	219					0	0	0.01441	0	0		A	72942905	A	A	72942905	3	1	23	1	0	0	0	0	1	0	0	0	11326	1145	40	1	977	1	OTOP3	17	72942905	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5023	72942905	8252305	1195	20523											
ITGB4	3691	broad.mit.edu	37	chr17	73738521	73738521	+	Frame_Shift_Del	DEL	C	-	-																															caggtggaacagagggccttCcacgacctcaaggtggcccc																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:73738521delC	uc002jpg.2	+	24	2920	c.2733delC	c.(2731-2733)TTCfs	p.F911fs	ITGB4_uc002jph.2_Frame_Shift_Del_p.F911fs|ITGB4_uc002jpi.3_Frame_Shift_Del_p.F911fs|ITGB4_uc010dgp.1_Frame_Shift_Del_p.P924fs|ITGB4_uc002jpj.2_Frame_Shift_Del_p.F911fs	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	911	Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			AGAGGGCCTTCCACGACCTCA	0.657													9	20	---	---	---	---						.	-	73738521	-	-	73738521	7	5	23	1	0	1	0	1	0	0	0	0	7913	854	30	0	2823	0	ITGB4	17	73738521	Frame_Shift_Del	DEL	C	TCGA-BR-4368-01A-01D-1158-08	795616	73738521	7456689	1196	20524											
ST6GALNAC1	55808	broad.mit.edu	37	chr17	74623163	74623163	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttaccggaacacgtagtcGtgactgtctatctcctggcc	7	11	10	13	3	2	1	0	1	2	0	4	2	2	2	3	2	2	2	3	2	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:74623163G>A	uc002jsh.2	-	4	1332	c.1158C>T	c.(1156-1158)CAC>CAT	p.H386H	ST6GALNAC1_uc002jsi.2_Silent_p.H254H|ST6GALNAC1_uc002jsj.2_RNA	NM_018414	NP_060884	Q9NSC7	SIA7A_HUMAN	sialyltransferase 7A	386	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity				0						ACACGTAGTCGTGACTGTCTA	0.433													5	50					0	0	0.00308	0	0		A	74623163	A	A	74623163	2	1	23	1	0	0	0	0	0	0	0	1	15248	1136	40	1		1	ST6GALNAC1	17	74623163	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	884642	74623163	6572047	1197	20525											
CYTH1	9267	broad.mit.edu	37	chr17	76696462	76696462	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacaatatcgctgggcaaaCgcctccatcatccggtcgat	10	9	9	13	4	1	1	1	1	0	0	5	2	3	1	3	2	1	2	3	2	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:76696462C>T	uc002jvw.2	-	7	572	c.501G>A	c.(499-501)GCG>GCA	p.A167A	CYTH1_uc010wtw.1_Silent_p.A108A|CYTH1_uc010wtx.1_Silent_p.A108A	NM_017456	NP_059430	Q15438	CYH1_HUMAN	cytohesin 1 isoform 2	167	SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						GCTGGGCAAACGCCTCCATCA	0.512													5	11					0	0	0.001984	0	0		T	76696462	T	T	76696462	2	4	23	1	0	0	0	0	0	0	0	1	4206	523	19	1		1	CYTH1	17	76696462	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2073299	76696462	4498748	1198	20526											
GAA	2548	broad.mit.edu	37	chr17	78086728	78086728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtcggggccgacgtctgcGgcttcctgggcaacacctca	5	8	14	14	4	2	0	1	0	1	0	4	1	3	0	3	5	2	2	3	5	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:78086728G>A	uc002jxo.2	+	15	2124	c.1942G>A	c.(1942-1944)GGC>AGC	p.G648S	GAA_uc002jxp.2_Missense_Mutation_p.G648S|GAA_uc002jxq.2_Missense_Mutation_p.G648S	NM_001079803	NP_001073271	P10253	LYAG_HUMAN	acid alpha-glucosidase preproprotein	648			G -> S (in GSD2).		cardiac muscle contraction|diaphragm contraction|glycogen catabolic process|lysosome organization|tongue morphogenesis|vacuolar sequestering|ventricular cardiac muscle tissue morphogenesis	lysosomal membrane	carbohydrate binding|maltose alpha-glucosidase activity			ovary(1)	1	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)		Acarbose(DB00284)	CGACGTCTGCGGCTTCCTGGG	0.637													4	12					0	0	0.009096	0	0		A	78086728	A	A	78086728	3	1	23	1	0	0	0	0	1	0	0	0	6161	1116	39	1	1992	1	GAA	17	78086728	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1390266	78086728	3108482	1199	20527											
SLC26A11	284129	broad.mit.edu	37	chr17	78195443	78195443	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctgctgctgctcccctgcGgccctgcagaggaggctgcc	3	7	14	17	1	0	1	0	0	0	1	1	2	1	2	5	3	6	5	5	3	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:78195443G>A	uc002jyb.1	+	3	353	c.84G>A	c.(82-84)GCG>GCA	p.A28A	SGSH_uc002jxz.3_5'Flank|SGSH_uc002jya.3_5'Flank|SGSH_uc002jxy.2_5'Flank|SGSH_uc010wue.1_5'Flank|SLC26A11_uc002jyc.1_Silent_p.A28A|SLC26A11_uc002jyd.1_Silent_p.A28A|SLC26A11_uc010dhv.1_Silent_p.A28A	NM_173626	NP_775897	Q86WA9	S2611_HUMAN	solute carrier family 26, member 11	28	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|plasma membrane	anion:anion antiporter activity|secondary active sulfate transmembrane transporter activity				0	all_neural(118;0.0538)		OV - Ovarian serous cystadenocarcinoma(97;0.0344)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			GCTCCCCTGCGGCCCTGCAGA	0.687													9	25					0	0	0.010729	0	0		A	78195443	A	A	78195443	2	1	23	1	0	0	0	0	0	0	0	1	14541	1103	39	1		1	SLC26A11	17	78195443	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	108715	78195443	2999767	1200	20528											
RNF213	57674	broad.mit.edu	37	chr17	78337427	78337427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaccctggacgcatttgccGcaatggcctgcacggagatg	9	7	13	12	3	0	2	0	0	0	2	0	4	0	3	3	3	2	3	3	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:78337427G>A	uc002jyh.1	+	16	6029	c.5806G>A	c.(5806-5808)GCA>ACA	p.A1936T	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.A318T	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			CGCATTTGCCGCAATGGCCTG	0.627													6	34					0	0	0.001984	0	0		A	78337427	A	A	78337427	3	1	23	1	0	0	0	0	1	0	0	0	13502	1087	38	1	12064	1	RNF213	17	78337427	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	141984	78337427	2857783	1201	20529											
RPTOR	57521	broad.mit.edu	37	chr17	78882653	78882653	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcagatttggagagtccTgctgcacctggctgctgacc	7	10	11	13	0	1	3	1	1	0	2	2	4	2	3	3	2	3	4	3	2	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:78882653T>C	uc002jyt.1	+	21	3249	c.2444T>C	c.(2443-2445)CTG>CCG	p.L815P	RPTOR_uc010wug.1_Missense_Mutation_p.L657P	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	815					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						TGGAGAGTCCTGCTGCACCTG	0.522													77	297					0	0	0.01441	0	0		C	78882653	C	C	78882653	3	2	23	1	0	0	0	0	1	0	0	0	13690	1580	55	3	2526	3	RPTOR	17	78882653	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	545226	78882653	2312557	1202	20530											
C17orf56	146705	broad.mit.edu	37	chr17	79205464	79205464	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagctcaactcctgctgAcagtcactcagggccaccac	11	6	7	17	0	3	1	3	1	0	0	4	1	4	1	4	1	3	2	4	1	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:79205464A>G	uc002jzu.1	-	9	751	c.729T>C	c.(727-729)TGT>TGC	p.C243C	C17orf56_uc002jzr.1_5'Flank|C17orf56_uc002jzs.1_Silent_p.C159C|C17orf56_uc002jzt.1_Silent_p.C159C|C17orf56_uc002jzv.1_Silent_p.C91C|uc002jzw.1_RNA	NM_144679	NP_653280	Q96N21	CQ056_HUMAN	hypothetical protein LOC146705	243						integral to membrane					0	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			ACTCCTGCTGACAGTCACTCA	0.652													9	17					0	0	0.008291	0	0		G	79205464	G	G	79205464	2	3	23	1	0	0	0	0	0	0	0	1	1867	273	10	3		3	C17orf56	17	79205464	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	322811	79205464	1989746	1203	20531											
FASN	2194	broad.mit.edu	37	chr17	80049540	80049540	+	Frame_Shift_Del	DEL	G	-	-																															aggttgggggcccagagcccGtgctccagggacagcagcac																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:80049540delG	uc002kdu.2	-	9	1167	c.1050delC	c.(1048-1050)CACfs	p.H350fs	FASN_uc002kdw.1_5'Flank	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	350	Beta-ketoacyl synthase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	CCCAGAGCCCGTGCTCCAGGG	0.697													3	6	---	---	---	---						.	-	80049540	-	-	80049540	7	5	23	1	0	1	0	1	0	0	0	0	5697	1136	40	0	6625	0	FASN	17	80049540	Frame_Shift_Del	DEL	G	TCGA-BR-4368-01A-01D-1158-08	844076	80049540	1145670	1204	20532											
C17orf101	79701	broad.mit.edu	37	chr17	80361822	80361822	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcgctcaccttgtccacGtgcgcatgccagtactcgtc	5	9	11	16	5	1	0	1	0	0	0	4	0	2	0	3	1	3	3	3	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr17:80361822G>A	uc002keu.1	-	7	791	c.690C>T	c.(688-690)CAC>CAT	p.H230H	C17orf101_uc002ket.1_Silent_p.H230H|C17orf101_uc010dip.1_RNA	NM_024648	NP_078924	Q6PK18	CQ101_HUMAN	hypothetical protein LOC79701 isoform 1	230	Fe2OG dioxygenase.|Lumenal (Potential).	Iron (By similarity).				integral to membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(1)	1						CCTTGTCCACGTGCGCATGCC	0.672													3	13					0	0	0.004672	0	0		A	80361822	A	A	80361822	2	1	23	1	0	0	0	0	0	0	0	1	1851	1136	40	1		1	C17orf101	17	80361822	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	312282	80361822	833388	1205	20533											
USP14	9097	broad.mit.edu	37	chr18	211247	211247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgttctactctatgggcctcGcagagttgaaataatggaag	11	11	11	8	2	2	2	0	1	2	1	3	3	2	3	1	2	1	3	1	2	5	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:211247G>A	uc002kkf.1	+	16	1664	c.1448G>A	c.(1447-1449)CGC>CAC	p.R483H	USP14_uc002kkg.1_Missense_Mutation_p.R448H|USP14_uc010wyr.1_Missense_Mutation_p.R472H	NM_005151	NP_005142	P54578	UBP14_HUMAN	ubiquitin specific protease 14 isoform a	483					regulation of chemotaxis|regulation of proteasomal protein catabolic process|ubiquitin-dependent protein catabolic process	cell surface|cytoplasmic membrane-bounded vesicle|plasma membrane|proteasome complex	cysteine-type endopeptidase activity|endopeptidase inhibitor activity|proteasome binding|tRNA guanylyltransferase activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)	2		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				TATGGGCCTCGCAGAGTTGAA	0.363													20	81					0	0	0.012319	0	0		A	211247	A	A	211247	3	1	23	1	0	0	0	0	1	0	0	0	17071	1087	38	1	1510	1	USP14	18	211247	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08		211247	77866001	1206	20534											
EPB41L3	23136	broad.mit.edu	37	chr18	5410606	5410606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcggctgcggtgtccgtgcGctcactgtcagtctgttgac	3	12	14	12	4	3	1	2	1	1	0	5	1	4	1	1	2	2	3	1	2	0	1	rs143942399		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:5410606G>A	uc002kmt.1	-	14	2166	c.2080C>T	c.(2080-2082)CGC>TGC	p.R694C	EPB41L3_uc010wzh.1_Missense_Mutation_p.R525C|EPB41L3_uc002kmu.1_Missense_Mutation_p.R525C|EPB41L3_uc010dkq.1_Missense_Mutation_p.R416C|EPB41L3_uc002kms.1_5'UTR|EPB41L3_uc010wze.1_5'UTR|EPB41L3_uc010wzf.1_5'UTR|EPB41L3_uc010wzg.1_5'UTR|EPB41L3_uc010dkr.2_Missense_Mutation_p.R86C	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	694	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GTGTCCGTGCGCTCACTGTCA	0.557													9	28					0	0	0.004482	0	0		A	5410606	A	A	5410606	3	1	23	1	0	0	0	0	1	0	0	0	5162	1087	38	1	1219	1	EPB41L3	18	5410606	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5199359	5410606	72666642	1207	20535											
TUBB6	84617	broad.mit.edu	37	chr18	12308306	12308306	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgccatgagggagatcgtGcacatccaggcgggccagtg	8	5	15	13	3	0	2	0	1	0	1	2	3	1	2	4	3	1	1	4	3	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:12308306G>A	uc002kqw.2	+	1	60	c.15G>A	c.(13-15)GTG>GTA	p.V5V	TUBB6_uc002kqv.2_5'UTR|TUBB6_uc010dld.2_RNA|TUBB6_uc002kqx.2_Silent_p.V5V|TUBB6_uc002kqy.2_Silent_p.V5V	NM_032525	NP_115914	Q9BUF5	TBB6_HUMAN	tubulin, beta 6	5					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0				READ - Rectum adenocarcinoma(1;0.0649)		GGGAGATCGTGCACATCCAGG	0.532													4	12					0	0	0.001984	0	0		A	12308306	A	A	12308306	2	1	23	1	0	0	0	0	0	0	0	1	16786	1306	46	2		2	TUBB6	18	12308306	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	6897700	12308306	65768942	1208	20536											
CEP192	55125	broad.mit.edu	37	chr18	13056468	13056468	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctgtggcttctcaggaggCcttccctatccagctgttgc	4	13	11	13	0	2	0	1	0	2	0	5	1	4	1	3	3	2	3	3	3	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:13056468C>T	uc010xac.1	+	19	3959	c.3879C>T	c.(3877-3879)GGC>GGT	p.G1293G	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Silent_p.G818G|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_5'UTR|CEP192_uc002krs.1_Silent_p.G1034G	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1293										ovary(4)|pancreas(1)	5						TCTCAGGAGGCCTTCCCTATC	0.532													15	49					0	0	0.007413	0	0		T	13056468	T	T	13056468	2	4	23	1	0	0	0	0	0	0	0	1	3254	726	26	2		2	CEP192	18	13056468	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	748162	13056468	65020780	1209	20537											
MC2R	4158	broad.mit.edu	37	chr18	13885348	13885348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgaaaaagtacatgggtGcctggagattcttattcttg	12	13	11	5	0	2	3	0	1	2	2	2	4	2	3	1	2	2	1	1	2	4	5	rs140534585		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:13885348G>A	uc002ksp.1	-	2	347	c.170C>T	c.(169-171)GCA>GTA	p.A57V		NM_000529	NP_000520	Q01718	ACTHR_HUMAN	melanocortin 2 receptor	57	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	corticotropin receptor activity|protein binding			ovary(4)|skin(1)	5					Corticotropin(DB01285)|Cosyntropin(DB01284)	GTACATGGGTGCCTGGAGATT	0.418													24	67					0	0	0.014323	0	0		A	13885348	A	A	13885348	3	1	23	1	0	0	0	0	1	0	0	0	9382	1319	46	2	727	2	MC2R	18	13885348	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	828880	13885348	64191900	1210	20538											
OSBPL1A	114876	broad.mit.edu	37	chr18	21913010	21913010	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagggtgtatttcctaacTgatccgaacagttaacatca	13	11	8	9	1	1	1	1	1	0	0	3	2	3	1	2	1	3	3	2	1	5	4	rs141897082	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:21913010T>C	uc002kve.2	-	7	695	c.521A>G	c.(520-522)CAG>CGG	p.Q174R		NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	174					cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					ATTTCCTAACTGATCCGAACA	0.393													25	109					0	0	0.003954	0	0		C	21913010	C	C	21913010	3	2	23	1	0	0	0	0	1	0	0	0	11296	1580	55	3	2419	3	OSBPL1A	18	21913010	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	8027662	21913010	56164238	1211	20539											
ZNF521	25925	broad.mit.edu	37	chr18	22805411	22805411	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctcgcaagtgtttttctAacaaaatgatcgcatggaag	12	14	8	7	2	2	1	0	1	2	0	4	2	2	2	0	1	1	3	0	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:22805411A>G	uc002kvk.2	-	4	2718	c.2471T>C	c.(2470-2472)TTA>TCA	p.L824S	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.L824S|ZNF521_uc002kvl.2_Missense_Mutation_p.L604S	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	824	C2H2-type 20.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					GTGTTTTTCTAACAAAATGAT	0.463			T	PAX5	ALL								41	137					0	0	0.007835	0	0		G	22805411	G	G	22805411	3	3	23	1	0	0	0	0	1	0	0	0	17990	372	13	3	1484	3	ZNF521	18	22805411	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	892401	22805411	55271837	1212	20540											
TAF4B	6875	broad.mit.edu	37	chr18	23845164	23845164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gattaaaagtaacagtggtcCgttgatgttggtatctcctc	10	14	10	7	1	1	1	0	1	1	0	4	2	2	1	2	2	1	4	2	2	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:23845164C>T	uc002kvu.3	+	2	863	c.374C>T	c.(373-375)CCG>CTG	p.P125L	TAF4B_uc002kvs.3_RNA|TAF4B_uc002kvt.3_Missense_Mutation_p.P125L	NM_005640	NP_005631	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding	125					transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			AACAGTGGTCCGTTGATGTTG	0.388													44	192					0	0	0.009718	0	0		T	23845164	T	T	23845164	3	4	23	1	0	0	0	0	1	0	0	0	15552	652	23	1	380	1	TAF4B	18	23845164	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1039753	23845164	54232084	1213	20541											
CHST9	83539	broad.mit.edu	37	chr18	24496680	24496680	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattggggtgttcaaatttgTccctaaaggctgatactaat	11	15	9	6	0	1	1	1	1	0	0	2	1	2	1	1	3	1	2	1	3	6	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:24496680T>C	uc002kwd.2	-	5	1073	c.875A>G	c.(874-876)GAC>GGC	p.D292G	C18orf16_uc002kwb.2_Intron|C18orf16_uc010xbm.1_Intron|CHST9_uc002kwc.2_Missense_Mutation_p.D207G|CHST9_uc002kwe.2_Missense_Mutation_p.D292G	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	292	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					TTCAAATTTGTCCCTAAAGGC	0.373													6	221					0	0	0.001984	0	0		C	24496680	C	C	24496680	3	2	23	1	0	0	0	0	1	0	0	0	3414	1667	58	3	460	3	CHST9	18	24496680	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	651516	24496680	53580568	1214	20542											
DSC3	1825	broad.mit.edu	37	chr18	28605830	28605830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttctttatcaactccacGtccacttattgagtagaaga	12	13	7	9	1	2	3	1	1	1	2	4	3	4	3	2	1	1	2	2	1	5	6	rs137869359		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:28605830G>A	uc002kwj.3	-	5	681	c.526C>T	c.(526-528)CGT>TGT	p.R176C	DSC3_uc002kwi.3_Missense_Mutation_p.R176C	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	176	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			TCAACTCCACGTCCACTTATT	0.313													7	13					0	0	0.00308	0	0		A	28605830	A	A	28605830	3	1	23	1	0	0	0	0	1	0	0	0	4773	1145	40	1	2243	1	DSC3	18	28605830	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4109150	28605830	49471418	1215	20543											
DSG3	1830	broad.mit.edu	37	chr18	29036431	29036431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attggttcatggagaattgcGaatagaggtaaagtatgaaa	16	11	12	2	1	1	3	1	1	0	2	1	5	1	3	0	3	1	3	0	3	7	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:29036431G>A	uc002kws.2	+	2	186	c.77G>A	c.(76-78)CGA>CAA	p.R26Q		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	26					cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GGAGAATTGCGAATAGAGGTA	0.199													15	54					0	0	0.00499	0	0		A	29036431	A	A	29036431	3	1	23	1	0	0	0	0	1	0	0	0	4784	1058	37	1	83	1	DSG3	18	29036431	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	430601	29036431	49040817	1216	20544											
FHOD3	80206	broad.mit.edu	37	chr18	34340718	34340718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgccacccccgcgctgggcGtccgcacacgcagccgagca	7	2	12	20	7	0	0	0	0	0	0	1	1	1	0	5	1	2	4	5	1	0	0	rs149906669		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:34340718G>A	uc002kzt.1	+	22	4094	c.3997G>A	c.(3997-3999)GTC>ATC	p.V1333I	FHOD3_uc002kzs.1_Missense_Mutation_p.V1350I|FHOD3_uc010dmz.1_Missense_Mutation_p.V1065I|FHOD3_uc010dnb.1_Intron	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	1333					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CGCGCTGGGCGTCCGCACACG	0.677													10	17					0	0	0.010729	0	0		A	34340718	A	A	34340718	3	1	23	1	0	0	0	0	1	0	0	0	5897	1145	40	1	4138	1	FHOD3	18	34340718	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5304287	34340718	43736530	1217	20545											
SETBP1	26040	broad.mit.edu	37	chr18	42530073	42530073	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatccccgctcttgagccCgtggcttcctttgcaaaggc	7	10	10	14	2	1	2	0	1	1	1	3	2	3	2	4	2	2	3	4	2	2	3	rs141858699		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:42530073C>A	uc010dni.2	+	4	1064	c.768C>A	c.(766-768)CCC>CCA	p.P256P		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	256						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		CTCTTGAGCCCGTGGCTTCCT	0.537									Schinzel-Giedion_syndrome				25	101					4.74835e-14	5.14329e-14	0.010818	1	0		A	42530073	A	A	42530073	2	1	23	1	0	0	0	0	0	0	0	1	14154	639	23	5		5	SETBP1	18	42530073	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	8189355	42530073	35547175	1218	20546											
SETBP1	26040	broad.mit.edu	37	chr18	42643634	42643634	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaaggcagaggaagtccCgagggagtgagagcgaggtc	13	3	17	8	2	0	2	0	1	0	2	2	7	1	4	2	4	1	1	2	4	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:42643634C>T	uc010dni.2	+	6	5058	c.4762C>T	c.(4762-4764)CGA>TGA	p.R1588*		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1588						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GAGGAAGTCCCGAGGGAGTGA	0.682									Schinzel-Giedion_syndrome				6	13					0	0	0.001984	0	0		T	42643634	T	T	42643634	4	4	23	1	0	0	0	0	0	1	0	0	14154	644	23	1	4973	1	SETBP1	18	42643634	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	113561	42643634	35433614	1219	20547											
SLC14A1	6563	broad.mit.edu	37	chr18	43311097	43311097	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggacttcttgttcagaaccCctggtgggctctcactggct	6	12	11	12	0	3	1	2	0	2	1	4	2	3	2	2	4	1	3	2	4	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:43311097C>A	uc010xcn.1	+	5	588	c.269C>A	c.(268-270)CCC>CAC	p.P90H	SLC14A1_uc010dnk.2_Missense_Mutation_p.P146H|SLC14A1_uc002lbf.3_Missense_Mutation_p.P90H|SLC14A1_uc002lbg.3_RNA|SLC14A1_uc010xco.1_5'UTR|SLC14A1_uc002lbh.3_Intron|SLC14A1_uc002lbi.3_Intron|SLC14A1_uc002lbj.3_Missense_Mutation_p.P146H|SLC14A1_uc002lbk.3_Missense_Mutation_p.P90H	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	90	Helical; (Potential).					integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						GTTCAGAACCCCTGGTGGGCT	0.547													4	101					1.23904e-05	1.28098e-05	0.000602	1	0		A	43311097	A	A	43311097	3	1	23	1	0	0	0	0	1	0	0	0	14421	623	22	5	447	5	SLC14A1	18	43311097	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	667463	43311097	34766151	1220	20548											
PSTPIP2	9050	broad.mit.edu	37	chr18	43579446	43579446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggttggcactccggctgaCggcctgttctgcctcatctt	4	12	11	14	2	3	1	1	1	2	0	4	1	4	1	3	4	1	4	3	4	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:43579446C>T	uc002lbp.3	-	7	568	c.472G>A	c.(472-474)GTC>ATC	p.V158I	PSTPIP2_uc002lbq.3_Missense_Mutation_p.V158I	NM_024430	NP_077748	Q9H939	PPIP2_HUMAN	proline-serine-threonine phosphatase interacting	158	Potential.					membrane				ovary(1)	1						CTCCGGCTGACGGCCTGTTCT	0.468													30	111					0	0	0.012213	0	0		T	43579446	T	T	43579446	3	4	23	1	0	0	0	0	1	0	0	0	12744	536	19	1	564	1	PSTPIP2	18	43579446	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	268349	43579446	34497802	1221	20549											
TCEB3C	162699	broad.mit.edu	37	chr18	44555033	44555033	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctggaggcaatgaatcCtccataattcatctgtctct	10	13	7	11	0	3	1	1	1	2	0	7	2	6	2	3	2	0	1	3	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:44555033C>A	uc010xdb.1	-	1	1417	c.1181G>T	c.(1180-1182)AGG>ATG	p.R394M	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	394	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						GCAATGAATCCTCCATAATTC	0.577													9	558					8.34094e-07	8.6874e-07	0.008871	1	0		A	44555033	A	A	44555033	3	1	23	1	0	0	0	0	1	0	0	0	15708	681	24	5	2106	5	TCEB3C	18	44555033	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	975587	44555033	33522215	1222	20550											
TCEB3C	162699	broad.mit.edu	37	chr18	44555131	44555131	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagaacgggttcaagaacCgagtaggggaccccttccac	11	6	11	13	2	1	2	1	0	0	2	3	4	3	3	5	3	2	2	5	3	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:44555131C>T	uc010xdb.1	-	1	1319	c.1083G>A	c.(1081-1083)TCG>TCA	p.S361S	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	361	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						GTTCAAGAACCGAGTAGGGGA	0.622													11	644					0	0	0.003163	0	0		T	44555131	T	T	44555131	2	4	23	1	0	0	0	0	0	0	0	1	15708	639	23	1		1	TCEB3C	18	44555131	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	98	44555131	33522117	1223	20551											
KATNAL2	83473	broad.mit.edu	37	chr18	44601710	44601710	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctggacgagctggagtcGgtgatgagtcagagaggcac	9	8	16	8	2	1	3	1	2	0	1	3	7	2	5	1	4	1	2	1	4	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:44601710G>A	uc002lco.2	+	11	1049	c.855G>A	c.(853-855)TCG>TCA	p.S285S	KATNAL2_uc010dnq.1_Silent_p.S64S|KATNAL2_uc002lcp.3_Silent_p.S212S	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2	357						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						AGCTGGAGTCGGTGATGAGTC	0.502													3	26					0	0	0.004672	0	0		A	44601710	A	A	44601710	2	1	23	1	0	0	0	0	0	0	0	1	8002	1103	39	1		1	KATNAL2	18	44601710	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	46579	44601710	33475538	1224	20552											
SMAD7	4092	broad.mit.edu	37	chr18	46448038	46448038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggttgtacacccacacacCatccacctcccgcgtcagct	8	7	7	19	3	1	0	1	0	0	0	3	0	3	0	5	1	2	3	5	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:46448038C>T	uc002ldg.2	-	4	1272	c.985G>A	c.(985-987)GGT>AGT	p.G329S	SMAD7_uc002ldf.2_Missense_Mutation_p.G141S|SMAD7_uc010xde.1_Missense_Mutation_p.G114S	NM_005904	NP_005895	O15105	SMAD7_HUMAN	SMAD family member 7	329	MH2.				adherens junction assembly|artery morphogenesis|BMP signaling pathway|cellular protein complex localization|negative regulation of BMP signaling pathway|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of pathway-restricted SMAD protein phosphorylation|negative regulation of peptidyl-serine phosphorylation|negative regulation of peptidyl-threonine phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of ubiquitin-protein ligase activity|pathway-restricted SMAD protein phosphorylation|positive regulation of anti-apoptosis|positive regulation of cell-cell adhesion|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein stabilization|regulation of activin receptor signaling pathway|response to laminar fluid shear stress|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	centrosome|cytosol|nucleolus|plasma membrane|transcription factor complex	activin binding|beta-catenin binding|I-SMAD binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor, inhibitory cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding				0	Colorectal(1;0.0518)					ACCCACACACCATCCACCTCC	0.577													4	31					0	0	0.001984	0	0		T	46448038	T	T	46448038	3	4	23	1	0	0	0	0	1	0	0	0	14788	594	21	4	299	4	SMAD7	18	46448038	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1846328	46448038	31629210	1225	20553											
KIAA1468	57614	broad.mit.edu	37	chr18	59936122	59936122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attcctcagcaggaaatgggGtcctcactaaagctacagtc	12	9	9	11	0	2	0	2	0	0	0	5	1	4	1	2	3	3	2	2	3	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:59936122G>A	uc002lil.2	+	20	2916	c.2701G>A	c.(2701-2703)GTC>ATC	p.V901I	KIAA1468_uc002lik.1_Missense_Mutation_p.V897I|KIAA1468_uc010xel.1_Missense_Mutation_p.V901I|KIAA1468_uc002lim.2_Missense_Mutation_p.V545I	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	901							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				AGGAAATGGGGTCCTCACTAA	0.289													7	12					0	0	0.001984	0	0		A	59936122	A	A	59936122	3	1	23	1	0	0	0	0	1	0	0	0	8252	1261	44	4	2779	4	KIAA1468	18	59936122	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	13488084	59936122	18141126	1226	20554											
DSEL	92126	broad.mit.edu	37	chr18	65180208	65180208	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacaaataccatttccccAtgttgagaggcagtgattat	12	12	7	10	0	1	2	1	2	0	1	2	3	2	2	3	1	1	2	3	1	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:65180208A>G	uc002lke.1	-	2	2892	c.1668T>C	c.(1666-1668)CAT>CAC	p.H556H		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	546						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				CCATTTCCCCATGTTGAGAGG	0.483													22	72					0	0	0.00278	0	0		G	65180208	G	G	65180208	2	3	23	1	0	0	0	0	0	0	0	1	4781	214	8	3		3	DSEL	18	65180208	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	5244086	65180208	12897040	1227	20555											
CBLN2	147381	broad.mit.edu	37	chr18	70209175	70209175	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggtgacggcgccgtccGccgacgggctggagtcgcac	6	4	18	13	7	0	1	0	1	0	0	2	4	1	3	3	5	0	2	3	5	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:70209175G>A	uc002lku.2	-	2	456	c.221C>T	c.(220-222)GCG>GTG	p.A74V	CBLN2_uc002lkv.2_Missense_Mutation_p.A74V	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	74						integral to membrane					0		Esophageal squamous(42;0.131)				GGCGCCGTCCGCCGACGGGCT	0.716													5	13					0	0	0.001168	0	0		A	70209175	A	A	70209175	3	1	23	1	0	0	0	0	1	0	0	0	2708	1087	38	1	465	1	CBLN2	18	70209175	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5028967	70209175	7868073	1228	20556											
NFATC1	4772	broad.mit.edu	37	chr18	77193701	77193701	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacggagggcagccggggggCcgtgaaggcgtcggccggag	6	2	23	10	6	0	1	0	1	0	0	1	4	0	3	3	8	1	1	3	8	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:77193701C>G	uc010xfg.1	+	3	1802	c.1349C>G	c.(1348-1350)GCC>GGC	p.A450G	NFATC1_uc002lnc.1_Missense_Mutation_p.A450G|NFATC1_uc010xff.1_Missense_Mutation_p.A450G|NFATC1_uc002lnd.2_Missense_Mutation_p.A450G|NFATC1_uc002lne.2_5'UTR|NFATC1_uc010xfh.1_Missense_Mutation_p.A450G|NFATC1_uc010xfi.1_Missense_Mutation_p.A437G|NFATC1_uc010xfj.1_5'UTR|NFATC1_uc002lnf.2_Missense_Mutation_p.A437G|NFATC1_uc002lng.2_Missense_Mutation_p.A437G|NFATC1_uc010xfk.1_Missense_Mutation_p.A437G	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	450	RHD.				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		AGCCGGGGGGCCGTGAAGGCG	0.632													28	67					0	0	0.005524	0	0		G	77193701	G	G	77193701	3	3	23	1	0	0	0	0	1	0	0	0	10380	739	26	5	1451	5	NFATC1	18	77193701	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	6984526	77193701	883547	1229	20557											
PQLC1	80148	broad.mit.edu	37	chr18	77664092	77664092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagcacctgcagcaggcCgcacacggagaactgcagag	12	2	12	15	2	0	2	0	0	0	2	0	3	0	2	3	2	5	5	3	2	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr18:77664092C>T	uc002lnl.2	-	6	872	c.700G>A	c.(700-702)GGC>AGC	p.G234S	PQLC1_uc010dre.2_Missense_Mutation_p.G151S|PQLC1_uc002lnk.2_Missense_Mutation_p.G216S|PQLC1_uc010xfm.1_3'UTR	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	234	Helical; (Potential).					integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		TGCAGCAGGCCGCACACGGAG	0.667													10	35					0	0	0.010729	0	0		T	77664092	T	T	77664092	3	4	23	1	0	0	0	0	1	0	0	0	12440	652	23	1	119	1	PQLC1	18	77664092	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	470391	77664092	413156	1230	20558											
MIER2	54531	broad.mit.edu	37	chr19	308804	308804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggagggctgcacgcacgtgGttccggacgggacgtacttc	6	7	17	11	5	0	0	0	0	0	0	2	3	1	3	1	5	2	5	1	5	1	3	rs150878648		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:308804G>A	uc002lok.1	-	11	1115	c.1106C>T	c.(1105-1107)ACC>ATC	p.T369I		NM_017550	NP_060020	Q8N344	MIER2_HUMAN	mesoderm induction early response 1, family	369					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		all_cancers(10;1.05e-30)|all_epithelial(18;3.04e-19)|Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;2.49e-05)|all_lung(49;4.36e-05)|Breast(49;0.000304)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACGCACGTGGTTCCGGACGG	0.687													14	34					0	0	0.001855	0	0		A	308804	A	A	308804	3	1	23	1	0	0	0	0	1	0	0	0	9599	1261	44	4	547	4	MIER2	19	308804	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08		308804	58820179	1231	20559											
PALM	5064	broad.mit.edu	37	chr19	726187	726187	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggagcggctgcaggccatcGcagtgagtttccgccgcccc	6	6	14	15	4	0	1	0	1	0	0	2	2	1	2	5	3	2	4	5	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:726187G>A	uc002lpm.1	+	2	249	c.55G>A	c.(55-57)GCA>ACA	p.A19T	PALM_uc010xft.1_Missense_Mutation_p.A19T|PALM_uc002lpn.1_Missense_Mutation_p.A19T|PALM_uc010xfu.1_5'Flank	NM_002579	NP_002570	O75781	PALM_HUMAN	paralemmin isoform 1	19	Potential.				cellular component movement|negative regulation of adenylate cyclase activity|negative regulation of dopamine receptor signaling pathway|positive regulation of filopodium assembly|regulation of cell shape	cytoplasmic membrane-bounded vesicle|filopodium membrane|integral to plasma membrane					0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)|Lung(535;0.201)		GCAGGCCATCGCAGTGAGTTT	0.612													15	67					0	0	0.004007	0	0		A	726187	A	A	726187	3	1	23	1	0	0	0	0	1	0	0	0	11427	1087	38	1	61	1	PALM	19	726187	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	417383	726187	58402796	1232	20560											
PALM	5064	broad.mit.edu	37	chr19	746564	746564	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaatgatcttcatgggttAccagaacgtggaggatgagg	12	9	13	7	1	2	3	1	2	1	1	2	5	2	5	1	4	2	1	1	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:746564A>G	uc002lpm.1	+	9	1108	c.914A>G	c.(913-915)TAC>TGC	p.Y305C	PALM_uc002lpn.1_Missense_Mutation_p.Y261C|PALM_uc010xfu.1_Missense_Mutation_p.Y170C	NM_002579	NP_002570	O75781	PALM_HUMAN	paralemmin isoform 1	305					cellular component movement|negative regulation of adenylate cyclase activity|negative regulation of dopamine receptor signaling pathway|positive regulation of filopodium assembly|regulation of cell shape	cytoplasmic membrane-bounded vesicle|filopodium membrane|integral to plasma membrane					0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)|Lung(535;0.201)		TTCATGGGTTACCAGAACGTG	0.647													4	58					0	0	0.009096	0	0		G	746564	G	G	746564	3	3	23	1	0	0	0	0	1	0	0	0	11427	391	14	3	948	3	PALM	19	746564	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	20377	746564	58382419	1233	20561											
MBD3	53615	broad.mit.edu	37	chr19	1581136	1581136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctttgcacaggggctgcGtggtgttgagccatacgccg	6	9	16	10	3	0	1	0	1	0	0	0	1	0	1	2	4	4	4	2	4	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:1581136G>A	uc002ltl.1	-	5	654	c.632C>T	c.(631-633)ACG>ATG	p.T211M	MBD3_uc002ltj.2_Missense_Mutation_p.T211M|MBD3_uc002ltk.2_Missense_Mutation_p.T179M	NM_003926	NP_003917	O95983	MBD3_HUMAN	methyl-CpG binding domain protein 3	211					transcription, DNA-dependent	NuRD complex	DNA binding|protein binding			ovary(1)|pancreas(1)|skin(1)	3		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.179)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGGGGCTGCGTGGTGTTGAG	0.657													11	37					0	0	0.00245	0	0		A	1581136	A	A	1581136	3	1	23	1	0	0	0	0	1	0	0	0	9362	1145	40	1	251	1	MBD3	19	1581136	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	834572	1581136	57547847	1234	20562											
FAM108A1	81926	broad.mit.edu	37	chr19	1879997	1879997	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctgcccgagctggcaccGtagccggagtagtcgtagga	7	6	16	12	4	0	0	0	0	0	0	1	3	0	2	4	4	3	5	4	4	3	3	rs139072903	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:1879997G>A	uc002lug.2	-	3	856	c.450C>T	c.(448-450)TAC>TAT	p.Y150Y	FAM108A1_uc002lud.2_Silent_p.Y132Y|FAM108A1_uc002lue.2_Silent_p.Y150Y|FAM108A1_uc002luf.2_Silent_p.Y201Y	NM_001130111	NP_001123583	Q96GS6	F18A1_HUMAN	hypothetical protein LOC81926 isoform 2	150						extracellular region	hydrolase activity				0		Ovarian(11;0.000137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCTGGCACCGTAGCCGGAGT	0.667													20	36					0	0	0.008871	0	0		A	1879997	A	A	1879997	2	1	23	1	0	0	0	0	0	0	0	1	5402	1140	40	1		1	FAM108A1	19	1879997	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	298861	1879997	57248986	1235	20563											
TMPRSS9	360200	broad.mit.edu	37	chr19	2421894	2421894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgaggaggcccctggcGtgttttatctggcagggatc	5	10	15	11	2	1	0	0	0	1	0	2	3	1	2	3	5	1	2	3	5	1	2	rs151191920		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:2421894G>A	uc010xgx.1	+	13	2095	c.2095G>A	c.(2095-2097)GTG>ATG	p.V699M		NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	699	Extracellular (Potential).|Peptidase S1 2.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGCCCCTGGCGTGTTTTATCT	0.612													31	122					0	0	0.003755	0	0		A	2421894	A	A	2421894	3	1	23	1	0	0	0	0	1	0	0	0	16278	1145	40	1	2145	1	TMPRSS9	19	2421894	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	541897	2421894	56707089	1236	20564											
SLC39A3	29985	broad.mit.edu	37	chr19	2733010	2733010	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaccgccagcttggccgcGtcccgcaggggcatggcact	5	6	15	15	4	0	1	0	1	0	0	1	1	1	1	4	4	1	4	4	4	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:2733010G>A	uc002lwg.2	-	3	938	c.684C>T	c.(682-684)GAC>GAT	p.D228D	SLC39A3_uc010xgy.1_Silent_p.D228D	NM_144564	NP_653165	Q9BRY0	S39A3_HUMAN	solute carrier family 39 (zinc transporter),	228	Cytoplasmic (Potential).					integral to membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTTGGCCGCGTCCCGCAGGG	0.706													18	47					0	0	0.012319	0	0		A	2733010	A	A	2733010	2	1	23	1	0	0	0	0	0	0	0	1	14644	1136	40	1		1	SLC39A3	19	2733010	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	311116	2733010	56395973	1237	20565											
DOHH	83475	broad.mit.edu	37	chr19	3496662	3496662	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtgcttgagcagggcggAatcgtcatcgaaggcctggc	7	8	15	11	4	1	1	1	1	0	0	4	3	1	2	1	4	2	2	1	4	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:3496662A>G	uc002lxs.2	-	2	314	c.151T>C	c.(151-153)TCC>CCC	p.S51P	DOHH_uc010xhl.1_Missense_Mutation_p.S51P	NM_031304	NP_112594	Q9BU89	DOHH_HUMAN	deoxyhypusine hydroxylase/monooxygenase	51					peptidyl-lysine modification to hypusine|post-translational protein modification	cytosol	deoxyhypusine monooxygenase activity|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCAGGGCGGAATCGTCATCG	0.677													11	50					0	0	0.010729	0	0		G	3496662	G	G	3496662	3	3	23	1	0	0	0	0	1	0	0	0	4701	246	9	3	773	3	DOHH	19	3496662	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	763652	3496662	55632321	1238	20566											
C19orf28	126321	broad.mit.edu	37	chr19	3546152	3546152	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagctcatggagccgtacacGaacgctccgctgttctgtgg	8	9	12	12	4	2	0	1	0	1	0	3	2	3	1	2	2	4	5	2	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:3546152G>A	uc002lxz.2	-	8	1379	c.1209C>T	c.(1207-1209)TTC>TTT	p.F403F	C19orf28_uc002lxw.2_Silent_p.F403F|C19orf28_uc002lxx.2_Silent_p.F403F|C19orf28_uc002lxy.2_Silent_p.F394F	NM_174983	NP_778148	Q6NUT3	CS028_HUMAN	hypothetical protein LOC126321 isoform c	403	Helical; (Potential).				transmembrane transport	integral to membrane				breast(1)|pancreas(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00251)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCCGTACACGAACGCTCCGC	0.637													13	56					0	0	0.012319	0	0		A	3546152	A	A	3546152	2	1	23	1	0	0	0	0	0	0	0	1	1920	1049	37	1		1	C19orf28	19	3546152	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	49490	3546152	55582831	1239	20567											
C19orf28	126321	broad.mit.edu	37	chr19	3547329	3547329	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggacaagaagccgctgaGgtacatcaccaggggaatgg	13	4	16	8	1	1	2	1	1	0	1	1	5	1	5	2	6	2	2	2	6	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:3547329G>T	uc002lxz.2	-	6	1134	c.964C>A	c.(964-966)CTC>ATC	p.L322I	C19orf28_uc002lxw.2_Missense_Mutation_p.L322I|C19orf28_uc002lxx.2_Missense_Mutation_p.L322I|C19orf28_uc002lxy.2_Missense_Mutation_p.L313I	NM_174983	NP_778148	Q6NUT3	CS028_HUMAN	hypothetical protein LOC126321 isoform c	322	Helical; (Potential).				transmembrane transport	integral to membrane				breast(1)|pancreas(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00251)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGCCGCTGAGGTACATCACC	0.632													16	78					3.51602e-12	3.78405e-12	0.008871	1	0		T	3547329	T	T	3547329	3	4	23	1	0	0	0	0	1	0	0	0	1920	1000	35	5	705	5	C19orf28	19	3547329	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1177	3547329	55581654	1240	20568											
C19orf29	58509	broad.mit.edu	37	chr19	3613306	3613306	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtccacctcggcctccgcGgggccgccctccgaggaggg	3	4	15	19	6	0	0	0	0	0	0	4	2	3	1	8	5	0	0	8	5	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:3613306G>A	uc002lyh.2	-	9	1589	c.1536C>T	c.(1534-1536)CCC>CCT	p.P512P	C19orf29_uc010xho.1_5'UTR|C19orf29_uc010dtn.2_Silent_p.P360P|C19orf29_uc002lyi.3_Silent_p.P512P|C19orf29_uc010dto.2_RNA|C19orf29_uc010xhp.1_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	512						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGCCTCCGCGGGGCCGCCCT	0.786													3	14					0	0	0.004672	0	0		A	3613306	A	A	3613306	2	1	23	1	0	0	0	0	0	0	0	1	1921	1103	39	1		1	C19orf29	19	3613306	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	65977	3613306	55515677	1241	20569											
C19orf29	58509	broad.mit.edu	37	chr19	3624077	3624077	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgagtccgactgagaggacCcatctcttgagtgccacttg	8	10	11	12	1	1	3	0	3	1	1	3	6	2	4	3	1	1	0	3	1	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:3624077C>A	uc002lyh.2	-	2	304	c.251G>T	c.(250-252)GGG>GTG	p.G84V	C19orf29_uc002lyi.3_Missense_Mutation_p.G84V|C19orf29_uc010dto.2_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	84						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGAGAGGACCCATCTCTTGA	0.672													39	125					1.57019e-19	1.72752e-19	0.007835	1	0		A	3624077	A	A	3624077	3	1	23	1	0	0	0	0	1	0	0	0	1921	623	22	5	2061	5	C19orf29	19	3624077	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	10771	3624077	55504906	1242	20570											
TJP3	27134	broad.mit.edu	37	chr19	3734422	3734422	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccgaggccagccagacCgactctcccgtgtaagtatc	9	6	10	16	3	1	1	0	0	1	1	3	3	1	1	6	1	2	2	6	1	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:3734422C>T	uc010xhv.1	+	7	1074	c.1074C>T	c.(1072-1074)ACC>ACT	p.T358T	TJP3_uc010xhs.1_Silent_p.T325T|TJP3_uc010xht.1_Silent_p.T289T|TJP3_uc010xhu.1_Silent_p.T334T|TJP3_uc010xhw.1_Silent_p.T344T	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	339						tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGCCAGACCGACTCTCCCG	0.647													6	25					0	0	0.00308	0	0		T	3734422	T	T	3734422	2	4	23	1	0	0	0	0	0	0	0	1	15956	639	23	1		1	TJP3	19	3734422	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	110345	3734422	55394561	1243	20571											
TJP3	27134	broad.mit.edu	37	chr19	3746525	3746525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaccccctccgccatcgagCgcctcaactatgtgcagtac	8	8	8	17	3	1	1	1	1	0	0	3	2	2	1	5	0	4	2	5	0	3	2	rs142262857		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:3746525C>T	uc010xhv.1	+	16	2152	c.2152C>T	c.(2152-2154)CGC>TGC	p.R718C	TJP3_uc010xhs.1_Missense_Mutation_p.R685C|TJP3_uc010xht.1_Missense_Mutation_p.R649C|TJP3_uc010xhu.1_Missense_Mutation_p.R694C|TJP3_uc010xhw.1_Missense_Mutation_p.R704C	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	699	Guanylate kinase-like.					tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCCATCGAGCGCCTCAACTA	0.652													25	72					0	0	0.007291	0	0		T	3746525	T	T	3746525	3	4	23	1	0	0	0	0	1	0	0	0	15956	768	27	1	2214	1	TJP3	19	3746525	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	12103	3746525	55382458	1244	20572											
SHD	56961	broad.mit.edu	37	chr19	4283236	4283236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accacatctccagggcgtttGcaggtgcttctcagacccac	8	9	9	15	1	2	1	1	0	2	1	4	1	2	1	3	2	2	3	3	2	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:4283236G>A	uc002lzw.2	+	3	2052	c.589G>A	c.(589-591)GCA>ACA	p.A197T	SHD_uc010dtu.2_Missense_Mutation_p.A197T	NM_020209	NP_064594	Q96IW2	SHD_HUMAN	Src homology 2 domain containing transforming	197											0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0337)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGGGCGTTTGCAGGTGCTTC	0.532													16	48					0	0	0.003163	0	0		A	4283236	A	A	4283236	3	1	23	1	0	0	0	0	1	0	0	0	14300	1319	46	2	599	2	SHD	19	4283236	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	536711	4283236	54845747	1245	20573											
TICAM1	148022	broad.mit.edu	37	chr19	4816902	4816902	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcggagctgagctgggcCggggagctctccaggggcag	5	6	20	10	2	1	1	0	1	1	0	3	3	1	3	2	6	3	4	2	6	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:4816902C>T	uc002mbi.2	-	2	1739	c.1488G>A	c.(1486-1488)CCG>CCA	p.P496P		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	496					apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		TGAGCTGGGCCGGGGAGCTCT	0.652													14	39					0	0	0.00499	0	0		T	4816902	T	T	4816902	2	4	23	1	0	0	0	0	0	0	0	1	15917	639	23	1		1	TICAM1	19	4816902	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	533666	4816902	54312081	1246	20574											
UHRF1	29128	broad.mit.edu	37	chr19	4947210	4947210	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcttgtgatcagaaactcAccaacaccaacaggtttgtg	13	10	8	10	0	3	2	2	1	1	1	3	2	3	2	2	1	3	1	2	1	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:4947210A>T	uc002mbo.2	+	11	1672	c.1504A>T	c.(1504-1506)ACC>TCC	p.T502S	UHRF1_uc010xik.1_RNA|UHRF1_uc010duf.2_RNA|UHRF1_uc002mbp.2_Missense_Mutation_p.T515S	NM_001048201	NP_001041666	Q96T88	UHRF1_HUMAN	ubiquitin-like with PHD and ring finger domains	502	YDG.|Methyl-CpG binding and interaction with HDAC1.				cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)		TCAGAAACTCACCAACACCAA	0.478													4	113					0	0	0.009096	0	0		T	4947210	T	T	4947210	3	4	23	1	0	0	0	0	1	0	0	0	16993	159	6	5	1581	5	UHRF1	19	4947210	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	130308	4947210	54181773	1247	20575											
KDM4B	23030	broad.mit.edu	37	chr19	5047503	5047503	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggacgtggcccagtggaAcatcgggagcctccggacca	10	4	14	13	3	0	0	0	0	0	0	2	4	1	4	4	5	2	0	4	5	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:5047503A>G	uc002mbq.3	+	6	675	c.449A>G	c.(448-450)AAC>AGC	p.N150S	KDM4B_uc010xil.1_Missense_Mutation_p.N150S|KDM4B_uc010xim.1_Missense_Mutation_p.N150S	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	150	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						GCCCAGTGGAACATCGGGAGC	0.667													11	46					0	0	0.010729	0	0		G	5047503	G	G	5047503	3	3	23	1	0	0	0	0	1	0	0	0	8145	43	2	3	463	3	KDM4B	19	5047503	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	100293	5047503	54081480	1248	20576											
PTPRS	5802	broad.mit.edu	37	chr19	5238970	5238970	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaccacgggggtgaaggcGcccaggccctgcggcgagcg	6	2	18	15	6	0	1	0	1	0	0	0	2	0	1	3	5	2	1	3	5	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:5238970G>A	uc002mbv.2	-	13	2043	c.1809C>T	c.(1807-1809)GGC>GGT	p.G603G	PTPRS_uc002mbu.1_Silent_p.G590G|PTPRS_uc010xin.1_Silent_p.G590G|PTPRS_uc002mbw.2_Silent_p.G590G|PTPRS_uc002mbx.2_Silent_p.G594G|PTPRS_uc002mby.2_Silent_p.G590G	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	603	Extracellular (Potential).|Fibronectin type-III 3.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GGGTGAAGGCGCCCAGGCCCT	0.706													18	58					0	0	0.010504	0	0		A	5238970	A	A	5238970	2	1	23	1	0	0	0	0	0	0	0	1	12836	1074	38	1		1	PTPRS	19	5238970	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	191467	5238970	53890013	1249	20577											
LONP1	9361	broad.mit.edu	37	chr19	5711821	5711821	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaagtcctcgtggacaacGttctctacctccaccatgag	9	10	9	13	2	1	1	0	1	1	0	5	3	3	3	4	2	2	1	4	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:5711821G>A	uc002mcx.2	-	4	864	c.831C>T	c.(829-831)AAC>AAT	p.N277N	LONP1_uc002mcy.2_Silent_p.N213N|LONP1_uc010duh.2_Silent_p.N18N|LONP1_uc010dui.2_Intron|LONP1_uc002mcz.2_Silent_p.N81N	NM_004793	NP_004784	P36776	LONM_HUMAN	mitochondrial lon peptidase 1 precursor	277	Lon.				cellular chaperone-mediated protein complex assembly|cellular response to oxidative stress|misfolded or incompletely synthesized protein catabolic process|mitochondrial DNA metabolic process|oxidation-dependent protein catabolic process|protein homooligomerization|response to hypoxia	mitochondrial nucleoid	ADP binding|ATP binding|ATP-dependent peptidase activity|DNA polymerase binding|G-quadruplex DNA binding|mitochondrial heavy strand promoter anti-sense binding|mitochondrial light strand promoter anti-sense binding|sequence-specific DNA binding|serine-type endopeptidase activity|single-stranded DNA binding|single-stranded RNA binding				0						CGTGGACAACGTTCTCTACCT	0.682													37	122					0	0	0.004878	0	0		A	5711821	A	A	5711821	2	1	23	1	0	0	0	0	0	0	0	1	8910	1136	40	1		1	LONP1	19	5711821	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	472851	5711821	53417162	1250	20578											
DUS3L	56931	broad.mit.edu	37	chr19	5786792	5786792	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggctggcggcctgcacgCactcctcgatgtactgccag	5	8	14	14	3	0	0	0	0	0	0	2	1	1	0	3	4	3	4	3	4	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:5786792C>A	uc002mdc.2	-	9	1551	c.1454G>T	c.(1453-1455)TGC>TTC	p.C485F	PRR22_uc002mdb.1_5'Flank|PRR22_uc010xiv.1_5'Flank|DUS3L_uc002mdd.2_Missense_Mutation_p.C243F|DUS3L_uc010duk.2_Missense_Mutation_p.C150F	NM_020175	NP_064560	Q96G46	DUS3L_HUMAN	dihydrouridine synthase 3-like isoform 1	485					tRNA processing		flavin adenine dinucleotide binding|nucleic acid binding|tRNA dihydrouridine synthase activity|zinc ion binding				0						GGCCTGCACGCACTCCTCGAT	0.622													7	25					0.00307968	0.00313188	0.00308	1	0		A	5786792	A	A	5786792	3	1	23	1	0	0	0	0	1	0	0	0	4813	710	25	5	518	5	DUS3L	19	5786792	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	74971	5786792	53342191	1251	20579											
RFX2	5990	broad.mit.edu	37	chr19	6002844	6002844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggttgagggacgtgtagCgccgcagcgtctgggcgaag	6	7	20	8	5	1	1	0	1	1	0	1	3	1	2	1	4	2	3	1	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:6002844C>T	uc002meb.2	-	14	1807	c.1538G>A	c.(1537-1539)CGC>CAC	p.R513H	RFX2_uc002mec.2_Missense_Mutation_p.R488H	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	513					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						GGACGTGTAGCGCCGCAGCGT	0.662													4	21					0	0	0.009096	0	0		T	6002844	T	T	6002844	3	4	23	1	0	0	0	0	1	0	0	0	13288	768	27	1	653	1	RFX2	19	6002844	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	216052	6002844	53126139	1252	20580											
RFX2	5990	broad.mit.edu	37	chr19	6040186	6040186	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggcaccgcctggggcctcGaagtaagaagccgtgctgct	7	7	15	12	3	0	1	0	0	0	1	1	2	0	1	4	3	3	4	4	3	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:6040186G>A	uc002meb.2	-	5	596	c.327C>T	c.(325-327)TTC>TTT	p.F109F	RFX2_uc002mec.2_Silent_p.F109F|RFX2_uc010xiy.1_Silent_p.F64F	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	109					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						CTGGGGCCTCGAAGTAAGAAG	0.642													33	108					0	0	0.004878	0	0		A	6040186	A	A	6040186	2	1	23	1	0	0	0	0	0	0	0	1	13288	1049	37	1		1	RFX2	19	6040186	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	37342	6040186	53088797	1253	20581											
VAV1	7409	broad.mit.edu	37	chr19	6825086	6825086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcttgaagcccctgcaacGgttcctgaaacctcaagaca	11	10	7	13	1	2	3	1	2	1	1	3	3	3	3	4	1	4	2	4	1	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:6825086G>A	uc002mfu.1	+	7	774	c.677G>A	c.(676-678)CGG>CAG	p.R226Q	VAV1_uc010xjh.1_Missense_Mutation_p.R194Q|VAV1_uc010dva.1_Missense_Mutation_p.R226Q|VAV1_uc002mfv.1_Missense_Mutation_p.R171Q	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	226	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						CCCCTGCAACGGTTCCTGAAA	0.473													46	185					0	0	0.01441	0	0		A	6825086	A	A	6825086	3	1	23	1	0	0	0	0	1	0	0	0	17157	1116	39	1	703	1	VAV1	19	6825086	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	784900	6825086	52303897	1254	20582											
EMR1	2015	broad.mit.edu	37	chr19	6924823	6924823	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctccacctgcacctctgCgtgtgtctcctcttggcgaa	5	12	8	16	2	3	0	0	0	3	0	5	1	4	0	5	1	3	1	5	1	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:6924823C>T	uc002mfw.2	+	15	1964	c.1926C>T	c.(1924-1926)TGC>TGT	p.C642C	EMR1_uc010dvc.2_Intron|EMR1_uc010dvb.2_Silent_p.C590C|EMR1_uc010xji.1_Silent_p.C501C|EMR1_uc010xjj.1_Silent_p.C465C	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	642	Helical; Name=2; (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					TGCACCTCTGCGTGTGTCTCC	0.527													12	86					0	0	0.003163	0	0		T	6924823	T	T	6924823	2	4	23	1	0	0	0	0	0	0	0	1	5112	776	27	1		1	EMR1	19	6924823	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	99737	6924823	52204160	1255	20583											
EMR1	2015	broad.mit.edu	37	chr19	6935074	6935074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttaatgccgaagtctcaaCgctaaaagacaccaggtaaa	16	8	8	9	2	1	1	1	0	1	1	2	2	1	1	2	1	2	3	2	1	7	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:6935074C>T	uc002mfw.2	+	18	2404	c.2366C>T	c.(2365-2367)ACG>ATG	p.T789M	EMR1_uc010dvc.2_Missense_Mutation_p.T724M|EMR1_uc010dvb.2_Missense_Mutation_p.T770M|EMR1_uc010xji.1_Missense_Mutation_p.T648M|EMR1_uc010xjj.1_Missense_Mutation_p.T612M	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	789	Cytoplasmic (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					GAAGTCTCAACGCTAAAAGAC	0.478													27	121					0	0	0.008361	0	0		T	6935074	T	T	6935074	3	4	23	1	0	0	0	0	1	0	0	0	5112	536	19	1	2436	1	EMR1	19	6935074	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	10251	6935074	52193909	1256	20584											
EMR1	2015	broad.mit.edu	37	chr19	6937643	6937643	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttgctgtcctccatgcCatccgcttccaagacggtga	7	11	9	14	2	1	2	0	1	1	1	5	3	5	2	5	1	2	2	5	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:6937643C>A	uc002mfw.2	+	20	2677	c.2639C>A	c.(2638-2640)CCA>CAA	p.P880Q	EMR1_uc010dvc.2_Missense_Mutation_p.P815Q|EMR1_uc010dvb.2_Missense_Mutation_p.P861Q|EMR1_uc010xji.1_Missense_Mutation_p.P739Q|EMR1_uc010xjj.1_Missense_Mutation_p.P703Q	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	880	Cytoplasmic (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					TCCTCCATGCCATCCGCTTCC	0.587													27	98					2.79863e-10	2.98331e-10	0.004656	1	0		A	6937643	A	A	6937643	3	1	23	1	0	0	0	0	1	0	0	0	5112	594	21	5	2717	5	EMR1	19	6937643	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2569	6937643	52191340	1257	20585											
PNPLA6	10908	broad.mit.edu	37	chr19	7625616	7625616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaaatgctcacagaccggcGgtctacagaccttaatgaga	14	7	10	10	2	2	3	1	1	1	3	2	5	2	3	2	2	2	1	2	2	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:7625616G>A	uc010xjq.1	+	31	4007	c.3812G>A	c.(3811-3813)CGG>CAG	p.R1271Q	PNPLA6_uc002mgq.1_Missense_Mutation_p.R1223Q|PNPLA6_uc010xjp.1_Missense_Mutation_p.R1196Q|PNPLA6_uc002mgr.1_Missense_Mutation_p.R1223Q|PNPLA6_uc002mgs.2_Missense_Mutation_p.R1261Q|PNPLA6_uc002mgt.1_RNA	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	1262	Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						ACAGACCGGCGGTCTACAGAC	0.577													6	24					0	0	0.008291	0	0		A	7625616	A	A	7625616	3	1	23	1	0	0	0	0	1	0	0	0	12188	1116	39	1	3930	1	PNPLA6	19	7625616	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	687973	7625616	51503367	1258	20586											
MAP2K7	5609	broad.mit.edu	37	chr19	7975347	7975347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgtgcagcaaatgcggCgctccgggaacaaggaggag	10	5	16	10	3	0	0	0	0	0	0	1	3	1	3	2	4	5	3	2	4	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:7975347C>T	uc002mit.2	+	5	522	c.457C>T	c.(457-459)CGC>TGC	p.R153C	MAP2K7_uc002miv.2_Missense_Mutation_p.R153C|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.R153C|MAP2K7_uc010dvv.2_Missense_Mutation_p.R28C	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	153	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	GCAAATGCGGCGCTCCGGGAA	0.632													5	9					0	0	0.000602	0	0		T	7975347	T	T	7975347	3	4	23	1	0	0	0	0	1	0	0	0	9260	768	27	1	475	1	MAP2K7	19	7975347	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	349731	7975347	51153636	1259	20587											
ANGPTL4	51129	broad.mit.edu	37	chr19	8431200	8431200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcacaatgtcagccgcctgCaccgtgagtgtctgcccctc	6	9	9	17	2	3	1	2	1	1	0	4	1	3	1	5	0	3	1	5	0	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:8431200C>T	uc002mjq.1	+	3	739	c.544C>T	c.(544-546)CAC>TAC	p.H182Y	ANGPTL4_uc002mjr.1_Missense_Mutation_p.H182Y|ANGPTL4_uc010xkc.1_Missense_Mutation_p.H15Y	NM_139314	NP_647475	Q9BY76	ANGL4_HUMAN	angiopoietin-like 4 protein isoform a precursor	182	Fibrinogen C-terminal.				angiogenesis|cell differentiation|cellular lipid metabolic process|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|positive regulation of angiogenesis|response to hypoxia|signal transduction|triglyceride homeostasis	extracellular space|proteinaceous extracellular matrix	enzyme inhibitor activity|receptor binding			ovary(1)	1						CAGCCGCCTGCACCGTGAGTG	0.622													7	23					0	0	0.010729	0	0		T	8431200	T	T	8431200	3	4	23	1	0	0	0	0	1	0	0	0	616	710	25	2	554	2	ANGPTL4	19	8431200	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	455853	8431200	50697783	1260	20588											
MUC16	94025	broad.mit.edu	37	chr19	9067398	9067398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaggtctcagtagcaccaGtggtcaacttgtgaaggaca	12	9	12	8	0	2	2	2	1	1	1	3	3	2	3	1	3	2	2	1	3	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:9067398G>A	uc002mkp.2	-	3	20252	c.20048C>T	c.(20047-20049)ACT>ATT	p.T6683I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6685	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGTAGCACCAGTGGTCAACTT	0.517													63	208					0	0	0.01441	0	0		A	9067398	A	A	9067398	3	1	23	1	0	0	0	0	1	0	0	0	9991	1029	36	4	23803	4	MUC16	19	9067398	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	636198	9067398	50061585	1261	20589											
MUC16	94025	broad.mit.edu	37	chr19	9068980	9068980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggacctgtttgtgtggCgatggtcttgtgtgtagata	8	14	15	4	1	1	2	0	0	1	2	1	4	1	3	1	3	0	2	1	3	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:9068980C>T	uc002mkp.2	-	3	18670	c.18466G>A	c.(18466-18468)GCC>ACC	p.A6156T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6158	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTTTGTGTGGCGATGGTCTTG	0.507													18	58					0	0	0.008871	0	0		T	9068980	T	T	9068980	3	4	23	1	0	0	0	0	1	0	0	0	9991	768	27	1	25385	1	MUC16	19	9068980	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1582	9068980	50060003	1262	20590											
ZNF317	57693	broad.mit.edu	37	chr19	9270841	9270841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacgctcacttgttcgaaGtctttggcatggaccctcat	9	13	8	11	2	3	0	2	0	1	0	4	2	3	1	1	2	1	3	1	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:9270841G>A	uc002mku.2	+	7	795	c.520G>A	c.(520-522)GTC>ATC	p.V174I	ZNF317_uc002mkv.2_Missense_Mutation_p.V33I|ZNF317_uc002mkw.2_Missense_Mutation_p.V142I|ZNF317_uc002mkx.2_Missense_Mutation_p.V89I|ZNF317_uc002mky.2_Missense_Mutation_p.V57I	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	174					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTGTTCGAAGTCTTTGGCAT	0.527													3	53					0	0	0.004672	0	0		A	9270841	A	A	9270841	3	1	23	1	0	0	0	0	1	0	0	0	17860	1029	36	4	542	4	ZNF317	19	9270841	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	201861	9270841	49858142	1263	20591											
ZNF317	57693	broad.mit.edu	37	chr19	9271917	9271917	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggagaaaccgtacgaatgCgatcactgtgggaaggcctt	11	7	15	8	3	1	1	1	0	0	1	1	5	1	2	2	4	3	1	2	4	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:9271917C>T	uc002mku.2	+	7	1871	c.1596C>T	c.(1594-1596)TGC>TGT	p.C532C	ZNF317_uc002mkv.2_Silent_p.C391C|ZNF317_uc002mkw.2_Silent_p.C500C|ZNF317_uc002mkx.2_Silent_p.C447C|ZNF317_uc002mky.2_Silent_p.C415C	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	532	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGTACGAATGCGATCACTGTG	0.567													15	49					0	0	0.003163	0	0		T	9271917	T	T	9271917	2	4	23	1	0	0	0	0	0	0	0	1	17860	776	27	1		1	ZNF317	19	9271917	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1076	9271917	49857066	1264	20592											
ZNF559	84527	broad.mit.edu	37	chr19	9453476	9453476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaagcctttagatactcctCgcaccttagtcaacataaaa	15	10	5	11	1	1	1	1	0	0	1	3	2	2	1	3	0	3	1	3	0	7	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:9453476C>T	uc002mlg.2	+	7	1996	c.1349C>T	c.(1348-1350)TCG>TTG	p.S450L	ZNF559_uc002mlf.2_Missense_Mutation_p.S219L|ZNF559_uc010dwl.1_Missense_Mutation_p.S219L|ZNF559_uc010xkn.1_Missense_Mutation_p.S442L|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Missense_Mutation_p.S514L|ZNF559_uc010dwk.1_Missense_Mutation_p.S219L|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	450	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGATACTCCTCGCACCTTAGT	0.428													4	81					0	0	0.009096	0	0		T	9453476	T	T	9453476	3	4	23	1	0	0	0	0	1	0	0	0	18015	893	31	1	1363	1	ZNF559	19	9453476	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	181559	9453476	49675507	1265	20593											
ZNF426	79088	broad.mit.edu	37	chr19	9640164	9640164	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtagaggttttctcacacAgggtaaggaaatcttttcca	12	12	9	8	0	2	1	1	0	2	1	4	2	3	2	1	3	0	3	1	3	3	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:9640164A>G	uc002mlq.2	-	8	821	c.557T>C	c.(556-558)CTG>CCG	p.L186P	ZNF426_uc010dws.2_Missense_Mutation_p.L148P	NM_024106	NP_077011	Q9BUY5	ZN426_HUMAN	zinc finger protein 426	186					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTTCTCACACAGGGTAAGGAA	0.403													27	89					0	0	0.00632	0	0		G	9640164	G	G	9640164	3	3	23	1	0	0	0	0	1	0	0	0	17925	188	7	3	1111	3	ZNF426	19	9640164	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	186688	9640164	49488819	1266	20594											
LDLR	3949	broad.mit.edu	37	chr19	11224014	11224014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggaagatgacgctggaccGgagcgagtacaccagcctca	12	4	13	12	3	1	2	1	1	0	1	1	6	1	5	3	3	3	2	3	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:11224014G>A	uc002mqk.3	+	9	1415	c.1247G>A	c.(1246-1248)CGG>CAG	p.R416Q	LDLR_uc010xlk.1_Missense_Mutation_p.R416Q|LDLR_uc010xll.1_Missense_Mutation_p.R375Q|LDLR_uc010xlm.1_Missense_Mutation_p.R269Q|LDLR_uc010xln.1_Missense_Mutation_p.R289Q|LDLR_uc010xlo.1_Missense_Mutation_p.R248Q	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	416	LDL-receptor class B 1.|Extracellular (Potential).		R -> Q (in FH; German patient).|R -> W (in FH).		cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		Lung NSC(9;0.000245)|Renal(1328;0.0007)|Hepatocellular(1079;0.0524)		GBM - Glioblastoma multiforme(1328;1.36e-05)|STAD - Stomach adenocarcinoma(1328;0.000766)|Lung(535;0.197)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	ACGCTGGACCGGAGCGAGTAC	0.622													17	55					0	0	0.006122	0	0		A	11224014	A	A	11224014	3	1	23	1	0	0	0	0	1	0	0	0	8720	1116	39	1	1281	1	LDLR	19	11224014	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1583850	11224014	47904969	1267	20595											
EPOR	2057	broad.mit.edu	37	chr19	11493831	11493831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cccagcgctcgccgcttcctCccagaaacacaccaagtcct	9	6	6	20	3	0	1	0	0	0	1	4	1	3	1	6	0	2	2	6	0	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:11493831C>T	uc002mrj.1	-	2	329	c.193G>A	c.(193-195)GAG>AAG	p.E65K	EPOR_uc002mrh.2_5'Flank|EPOR_uc002mri.2_5'UTR|EPOR_uc002mrk.1_5'UTR|EPOR_uc002mrl.1_RNA|EPOR_uc010xlx.1_RNA|EPOR_uc010xly.1_5'UTR|RGL3_uc002mrn.2_3'UTR|RGL3_uc002mrm.2_3'UTR	NM_000121	NP_000112	P19235	EPOR_HUMAN	erythropoietin receptor precursor	65	Extracellular (Potential).					extracellular region|integral to plasma membrane	erythropoietin receptor activity|identical protein binding			ovary(1)	1					Darbepoetin alfa(DB00012)|Epoetin alfa(DB00016)	GCCGCTTCCTCCCAGAAACAC	0.682													10	47					0	0	0.010729	0	0		T	11493831	T	T	11493831	3	4	23	1	0	0	0	0	1	0	0	0	5197	864	30	4	1361	4	EPOR	19	11493831	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	269817	11493831	47635152	1268	20596											
ZNF442	79973	broad.mit.edu	37	chr19	12461820	12461820	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtcttcgaaggtttccCgaagaactgaaggttttccc	9	13	10	9	2	1	2	0	1	1	1	4	4	3	2	2	2	1	2	2	2	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:12461820C>T	uc002mtr.1	-	6	1190	c.579G>A	c.(577-579)TCG>TCA	p.S193S	ZNF442_uc010xmk.1_Silent_p.S124S	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	193	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						GAAGGTTTCCCGAAGAACTGA	0.413													33	169					0	0	0.010818	0	0		T	12461820	T	T	12461820	2	4	23	1	0	0	0	0	0	0	0	1	17940	639	23	1		1	ZNF442	19	12461820	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	967989	12461820	46667163	1269	20597											
DAND5	199699	broad.mit.edu	37	chr19	13080535	13080535	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggggccctgcctacaggcTcagggaggcctgaaccccag	7	4	15	15	1	1	1	1	1	0	0	1	2	1	2	5	5	3	1	5	5	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:13080535T>C	uc002mwc.1	+	1	104	c.61T>C	c.(61-63)TCA>CCA	p.S21P	DAND5_uc010dyz.1_Missense_Mutation_p.S51P	NM_152654	NP_689867	Q8N907	DAND5_HUMAN	dante precursor	21						extracellular region				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(19;1.87e-18)			GCCTACAGGCTCAGGGAGGCC	0.547													31	170					0	0	0.009535	0	0		C	13080535	C	C	13080535	3	2	23	1	0	0	0	0	1	0	0	0	4233	1551	54	3	63	3	DAND5	19	13080535	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	618715	13080535	46048448	1270	20598											
TRMT1	55621	broad.mit.edu	37	chr19	13220273	13220273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtagtacagaggcacgtccGggagctcctgcgatggggga	8	7	17	9	3	0	1	0	0	0	1	2	4	2	3	2	4	3	4	2	4	2	2	rs150358822		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:13220273G>A	uc002mwj.2	-	11	1569	c.1319C>T	c.(1318-1320)CCG>CTG	p.P440L	TRMT1_uc010xmy.1_Missense_Mutation_p.P44L|TRMT1_uc002mwk.2_Missense_Mutation_p.P411L|TRMT1_uc002mwl.3_Missense_Mutation_p.P440L|TRMT1_uc010xmz.1_Missense_Mutation_p.P226L	NM_017722	NP_060192	Q9NXH9	TRM1_HUMAN	tRNA methyltransferase 1 isoform 1	440							RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.08e-22)	GBM - Glioblastoma multiforme(1328;0.0356)		AGGCACGTCCGGGAGCTCCTG	0.642													21	78					0	0	0.014323	0	0		A	13220273	A	A	13220273	3	1	23	1	0	0	0	0	1	0	0	0	16587	1116	39	1	684	1	TRMT1	19	13220273	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	139738	13220273	45908710	1271	20599											
CACNA1A	773	broad.mit.edu	37	chr19	13419248	13419248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actttgtgactttgaaaataCgcaataacctgagggctcgt	12	12	9	8	2	0	3	0	3	0	0	1	3	0	3	1	1	2	2	1	1	5	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:13419248C>T	uc010dze.2	-	13	2002	c.1766G>A	c.(1765-1767)CGT>CAT	p.R589H	CACNA1A_uc010dzc.2_Missense_Mutation_p.R114H|CACNA1A_uc002mwy.3_Missense_Mutation_p.R588H|CACNA1A_uc010xne.1_Missense_Mutation_p.R114H	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	589	Helical; Name=S4 of repeat II; (Potential).|II.				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	TTTGAAAATACGCAATAACCT	0.507													4	17					0	0	0.009096	0	0		T	13419248	T	T	13419248	3	4	23	1	0	0	0	0	1	0	0	0	2541	536	19	1	6008	1	CACNA1A	19	13419248	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	198975	13419248	45709735	1272	20600											
OR10H1	26539	broad.mit.edu	37	chr19	15918055	15918055	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttccagagactggggacTtttgggcttcaggtaaatga	9	12	12	8	0	1	2	1	1	0	1	3	4	3	3	2	4	0	2	2	4	2	5	rs147484502		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:15918055T>C	uc002nbq.2	-	1	882	c.793A>G	c.(793-795)AGT>GGT	p.S265G		NM_013940	NP_039228	Q9Y4A9	O10H1_HUMAN	olfactory receptor, family 10, subfamily H,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GACTGGGGACTTTTGGGCTTC	0.557													9	86					0	0	0.003163	0	0		C	15918055	C	C	15918055	3	2	23	1	0	0	0	0	1	0	0	0	10924	1609	56	3	167	3	OR10H1	19	15918055	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2498807	15918055	43210928	1273	20601											
SIN3B	23309	broad.mit.edu	37	chr19	16980447	16980447	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccaccagctgctgcaccaGttcgtgcccagcctcttctt	6	11	7	17	1	2	0	0	0	2	0	4	0	3	0	5	0	5	4	5	0	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:16980447G>C	uc002ney.1	+	14	2093	c.2079G>C	c.(2077-2079)CAG>CAC	p.Q693H	SIN3B_uc002nez.1_Missense_Mutation_p.Q661H|SIN3B_uc010xpi.1_Missense_Mutation_p.Q251H	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	693					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						TGCTGCACCAGTTCGTGCCCA	0.647													5	21					0	0	0.001984	0	0		C	16980447	C	C	16980447	3	2	23	1	0	0	0	0	1	0	0	0	14351	1020	36	5	2133	5	SIN3B	19	16980447	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1062392	16980447	42148536	1274	20602											
CPAMD8	27151	broad.mit.edu	37	chr19	17137400	17137400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcgcacgccgtcccgcgccGacagcagcaggagcaggagc	8	1	15	17	7	0	0	0	0	0	0	1	3	1	2	3	2	4	4	3	2	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:17137400G>A	uc002nfb.2	-	1	226	c.194C>T	c.(193-195)TCG>TTG	p.S65L		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	18						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						GTCCCGCGCCGACAGCAGCAG	0.587													4	3					0	0	0.009096	0	0		A	17137400	A	A	17137400	3	1	23	1	0	0	0	0	1	0	0	0	3798	1059	37	1	5772	1	CPAMD8	19	17137400	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	156953	17137400	41991583	1275	20603											
NR2F6	2063	broad.mit.edu	37	chr19	17343237	17343237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcagtgtctcaatgggcGtcttccccaccaggcgcatg	7	10	11	13	2	3	1	2	1	2	0	5	1	4	1	3	2	0	1	3	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:17343237G>A	uc002nfq.2	-	4	1261	c.1139C>T	c.(1138-1140)ACG>ATG	p.T380M		NM_005234	NP_005225	P10588	NR2F6_HUMAN	nuclear receptor subfamily 2, group F, member 6	380	Important for dimerization (By similarity).|Ligand-binding (By similarity).				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding				0						CTCAATGGGCGTCTTCCCCAC	0.667													19	59					0	0	0.012319	0	0		A	17343237	A	A	17343237	3	1	23	1	0	0	0	0	1	0	0	0	10648	1145	40	1	79	1	NR2F6	19	17343237	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	205837	17343237	41785746	1276	20604											
ANO8	57719	broad.mit.edu	37	chr19	17441686	17441686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccccaggtgagtccagcGtcccccacttatatgccagc	7	9	8	17	1	0	1	0	1	0	0	3	1	3	1	6	1	3	0	6	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:17441686G>A	uc002ngf.2	-	8	1103	c.944C>T	c.(943-945)ACG>ATG	p.T315M	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	315	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						TGAGTCCAGCGTCCCCCACTT	0.592													40	154					0	0	0.009718	0	0		A	17441686	A	A	17441686	3	1	23	1	0	0	0	0	1	0	0	0	703	1145	40	1	2798	1	ANO8	19	17441686	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	98449	17441686	41687297	1277	20605											
UPF1	5976	broad.mit.edu	37	chr19	18967769	18967769	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgctccattttaatcgaCgaaagcacccaggccaccga	11	8	7	15	4	0	0	0	0	0	0	3	3	2	0	5	1	1	2	5	1	2	3	rs140516243		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:18967769C>T	uc002nkg.2	+	14	2216	c.1941C>T	c.(1939-1941)GAC>GAT	p.D647D	UPF1_uc002nkf.2_Silent_p.D636D|UPF1_uc002nkh.2_5'Flank	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	647				DE->AA: Loss of ATPase activity and helicase activity.	cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TTTTAATCGACGAAAGCACCC	0.622													10	77					0	0	0.008291	0	0		T	18967769	T	T	18967769	2	4	23	1	0	0	0	0	0	0	0	1	17029	535	19	1		1	UPF1	19	18967769	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1526083	18967769	40161214	1278	20606											
TMEM161A	54929	broad.mit.edu	37	chr19	19245687	19245687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaccaccagctgtactcCgaggaccgcctggggggagg	7	5	16	13	2	1	0	1	0	0	0	2	3	2	2	5	6	2	2	5	6	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:19245687C>T	uc002nlg.2	-	2	43	c.13G>A	c.(13-15)GGA>AGA	p.G5R	TMEM161A_uc010eca.2_RNA|TMEM161A_uc002nlh.2_Missense_Mutation_p.G5R|TMEM161A_uc002nli.2_Missense_Mutation_p.G5R|TMEM161A_uc002nlj.2_Intron	NM_017814	NP_060284	Q9NX61	T161A_HUMAN	transmembrane protein 161A precursor	5					cellular response to oxidative stress|cellular response to UV|negative regulation of apoptosis|positive regulation of DNA repair|response to retinoic acid	integral to membrane				breast(2)	2			OV - Ovarian serous cystadenocarcinoma(5;1.19e-05)|Epithelial(12;0.0011)			AGCTGTACTCCGAGGACCGCC	0.627													4	9					0	0	0.009096	0	0		T	19245687	T	T	19245687	3	4	23	1	0	0	0	0	1	0	0	0	16101	661	23	1	1470	1	TMEM161A	19	19245687	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	277918	19245687	39883296	1279	20607											
ZNF536	9745	broad.mit.edu	37	chr19	30936135	30936135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagacactttggcaaacgccGgggttctgtttgataaggag	11	10	13	7	2	1	2	0	1	1	1	1	3	1	3	1	4	1	3	1	4	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:30936135G>A	uc002nsu.1	+	2	1804	c.1666G>A	c.(1666-1668)GGG>AGG	p.G556R	ZNF536_uc010edd.1_Missense_Mutation_p.G556R	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	556					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GGCAAACGCCGGGGTTCTGTT	0.542													32	123					0	0	0.00623	0	0		A	30936135	A	A	30936135	3	1	23	1	0	0	0	0	1	0	0	0	17999	1116	39	1	1668	1	ZNF536	19	30936135	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	11690448	30936135	28192848	1280	20608											
ZNF536	9745	broad.mit.edu	37	chr19	31039610	31039610	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaccacctgggcaaagcGaaacgcaaagataacaccat	17	3	8	13	2	0	1	0	0	0	1	0	2	0	1	4	1	4	2	4	1	5	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:31039610G>T	uc002nsu.1	+	4	3222	c.3084G>T	c.(3082-3084)GCG>GCT	p.A1028A	ZNF536_uc010edd.1_Silent_p.A1028A	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1028					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TGGGCAAAGCGAAACGCAAAG	0.542													12	53					3.27435e-08	3.45318e-08	0.00245	1	0		T	31039610	T	T	31039610	2	4	23	1	0	0	0	0	0	0	0	1	17999	1045	37	5		5	ZNF536	19	31039610	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	103475	31039610	28089373	1281	20609											
ZNF536	9745	broad.mit.edu	37	chr19	31039805	31039805	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actctgggagagcagaagagCggtgcatggaccggccacgt	10	5	16	10	3	1	3	0	0	1	3	1	5	1	4	2	4	3	2	2	4	1	0	rs147863190		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:31039805C>T	uc002nsu.1	+	4	3417	c.3279C>T	c.(3277-3279)AGC>AGT	p.S1093S	ZNF536_uc010edd.1_Silent_p.S1093S	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1093					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					AGCAGAAGAGCGGTGCATGGA	0.537													13	70					0	0	0.001855	0	0		T	31039805	T	T	31039805	2	4	23	1	0	0	0	0	0	0	0	1	17999	767	27	1		1	ZNF536	19	31039805	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	195	31039805	28089178	1282	20610											
SLC7A9	11136	broad.mit.edu	37	chr19	33355638	33355638	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacgaagatcccagagccAatgatggtgcccacgatgat	14	6	11	10	2	0	4	0	2	0	2	1	7	1	4	3	1	3	0	3	1	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:33355638A>G	uc002ntv.3	-	3	249	c.132T>C	c.(130-132)ATT>ATC	p.I44I	SLC7A9_uc002ntt.3_Intron|SLC7A9_uc002ntu.3_Silent_p.I44I|SLC7A9_uc002ntw.3_Intron	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	44	Helical; (Potential).		I -> T (in CSNU; type I).		blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	TCCCAGAGCCAATGATGGTGC	0.627													63	186					0	0	0.01441	0	0		G	33355638	G	G	33355638	2	3	23	1	0	0	0	0	0	0	0	1	14730	126	5	3		3	SLC7A9	19	33355638	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2315833	33355638	25773345	1283	20611											
PEPD	5184	broad.mit.edu	37	chr19	34002042	34002042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctcagtgacaccgaacGcccagtgaaagaaggactcc	12	5	11	13	2	1	3	1	2	0	1	2	5	2	4	3	2	1	1	3	2	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:34002042G>A	uc002nur.3	-	3	356	c.221C>T	c.(220-222)GCG>GTG	p.A74V	PEPD_uc010xrr.1_Missense_Mutation_p.A74V|PEPD_uc010xrs.1_Intron	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	74					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)					GACACCGAACGCCCAGTGAAA	0.572													6	27					0	0	0.00308	0	0		A	34002042	A	A	34002042	3	1	23	1	0	0	0	0	1	0	0	0	11747	1087	38	1	1312	1	PEPD	19	34002042	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	646404	34002042	25126941	1284	20612											
KCTD15	79047	broad.mit.edu	37	chr19	34297866	34297866	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagattttccgctacgtccTgagcttcctgcggacgtcca	6	11	11	13	4	0	2	0	1	0	1	4	4	4	3	4	2	3	2	4	2	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:34297866T>C	uc002nuy.3	+	5	609	c.341T>C	c.(340-342)CTG>CCG	p.L114P	KCTD15_uc002nuv.2_Missense_Mutation_p.L114P|KCTD15_uc002nuw.3_Missense_Mutation_p.L114P|KCTD15_uc010xrt.1_Missense_Mutation_p.L114P|KCTD15_uc002nux.3_Missense_Mutation_p.L114P	NM_001129994	NP_001123466	Q96SI1	KCD15_HUMAN	potassium channel tetramerisation domain	114	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	Esophageal squamous(110;0.162)					CGCTACGTCCTGAGCTTCCTG	0.537													18	88					0	0	0.010504	0	0		C	34297866	C	C	34297866	3	2	23	1	0	0	0	0	1	0	0	0	8118	1580	55	3	351	3	KCTD15	19	34297866	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	295824	34297866	24831117	1285	20613											
PDCD2L	84306	broad.mit.edu	37	chr19	34895868	34895868	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcccagtgcctgcaggtGccagagagagaggcgcagga	9	4	16	12	2	0	2	0	0	0	2	1	5	1	3	3	3	3	3	3	3	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:34895868G>A	uc002nvj.2	+	3	342	c.309G>A	c.(307-309)GTG>GTA	p.V103V		NM_032346	NP_115722	Q9BRP1	PDD2L_HUMAN	programmed cell death 2-like	103						cytoplasm				ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			GCCTGCAGGTGCCAGAGAGAG	0.582													12	39					0	0	0.013537	0	0		A	34895868	A	A	34895868	2	1	23	1	0	0	0	0	0	0	0	1	11639	1306	46	2		2	PDCD2L	19	34895868	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	598002	34895868	24233115	1286	20614											
MLL4	9757	broad.mit.edu	37	chr19	36210710	36210710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcgccccgaggtcggggtcGcaagcataagacgacccccc	9	3	13	16	5	0	1	0	0	0	1	2	3	0	1	5	3	2	2	5	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:36210710G>A	uc010eei.2	+	3	461	c.461G>A	c.(460-462)CGC>CAC	p.R154H		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	154					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGTCGGGGTCGCAAGCATAAG	0.557													8	216					0	0	0.006214	0	0		A	36210710	A	A	36210710	3	1	23	1	0	0	0	0	1	0	0	0	9641	1087	38	1	471	1	MLL4	19	36210710	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1314842	36210710	22918273	1287	20615											
ZNF790	388536	broad.mit.edu	37	chr19	37310215	37310215	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atccacgagtaaaagctttcCcacactccttacattcataa	14	11	3	13	1	1	0	1	0	0	0	4	1	4	0	3	0	2	2	3	0	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:37310215C>A	uc002oew.2	-	5	1150	c.1031G>T	c.(1030-1032)GGG>GTG	p.G344V	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	344	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AAAAGCTTTCCCACACTCCTT	0.383													19	67					2.35188e-11	2.5247e-11	0.006122	1	0		A	37310215	A	A	37310215	3	1	23	1	0	0	0	0	1	0	0	0	18187	623	22	5	883	5	ZNF790	19	37310215	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1099505	37310215	21818768	1288	20616											
ZNF829	374899	broad.mit.edu	37	chr19	37383204	37383204	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgagttttgattaaaggtCtttccacatatcttacattc	10	18	6	7	0	2	2	0	2	2	0	4	2	3	2	1	1	1	1	1	1	4	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:37383204C>A	uc002ofa.1	-	6	851	c.489G>T	c.(487-489)AAG>AAT	p.K163N	ZNF345_uc002oez.2_Intron	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	163	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GATTAAAGGTCTTTCCACATA	0.368													7	29					8.12818e-05	8.3519e-05	0.001984	1	0		A	37383204	A	A	37383204	3	1	23	1	0	0	0	0	1	0	0	0	18207	912	32	5	813	5	ZNF829	19	37383204	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	72989	37383204	21745779	1289	20617											
HKR1	284459	broad.mit.edu	37	chr19	37854119	37854119	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttatgtctgcctggagtgCgggcagtgctttagcctgaa	6	12	13	10	1	1	1	0	1	1	0	1	2	1	2	3	2	4	2	3	2	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:37854119C>T	uc002ogb.2	+	6	1691	c.1422C>T	c.(1420-1422)TGC>TGT	p.C474C	HKR1_uc002ofx.2_Silent_p.C190C|HKR1_uc002ofy.2_Silent_p.C190C|HKR1_uc002oga.2_Silent_p.C456C|HKR1_uc010xto.1_Silent_p.C456C|HKR1_uc002ogc.2_Silent_p.C455C|HKR1_uc010xtp.1_Silent_p.C413C|HKR1_uc002ogd.2_Silent_p.C413C	NM_181786	NP_861451	P10072	HKR1_HUMAN	GLI-Kruppel family member HKR1	474	C2H2-type 7.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GCCTGGAGTGCGGGCAGTGCT	0.502													19	85					0	0	0.007413	0	0		T	37854119	T	T	37854119	2	4	23	1	0	0	0	0	0	0	0	1	7210	776	27	1		1	HKR1	19	37854119	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	470915	37854119	21274864	1290	20618											
ZNF607	84775	broad.mit.edu	37	chr19	38190221	38190221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagtatgaatactctgatGtactttaaggcctgctttga	10	15	8	8	0	1	3	0	3	1	0	2	3	2	3	2	1	3	3	2	1	5	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:38190221G>A	uc002ohc.1	-	5	1407	c.811C>T	c.(811-813)CAT>TAT	p.H271Y	ZNF607_uc002ohb.1_Missense_Mutation_p.H270Y	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	271	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			ATACTCTGATGTACTTTAAGG	0.428													17	52					0	0	0.004007	0	0		A	38190221	A	A	38190221	3	1	23	1	0	0	0	0	1	0	0	0	18058	1377	48	4	1283	4	ZNF607	19	38190221	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	336102	38190221	20938762	1291	20619											
SIPA1L3	23094	broad.mit.edu	37	chr19	38579399	38579399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgtggatgagaagctggggCcagtggctgtgagcattaag	9	8	18	6	1	0	2	0	2	0	1	0	4	0	3	1	4	2	3	1	4	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:38579399C>T	uc002ohk.2	+	4	2082	c.1573C>T	c.(1573-1575)CCA>TCA	p.P525S		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	525					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GAAGCTGGGGCCAGTGGCTGT	0.582													11	36					0	0	0.007413	0	0		T	38579399	T	T	38579399	3	4	23	1	0	0	0	0	1	0	0	0	14356	739	26	2	1579	2	SIPA1L3	19	38579399	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	389178	38579399	20549584	1292	20620											
GGN	199720	broad.mit.edu	37	chr19	38876201	38876201	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccagtctgagaggccccGctgccaccaccccctccacc	6	4	8	23	1	1	1	0	1	1	1	2	2	2	1	10	1	1	1	10	1	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:38876201G>A	uc002oij.1	-	3	1836	c.1701C>T	c.(1699-1701)AGC>AGT	p.S567S	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Intron	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	567	Interactions with ZNF403/GGNBP2 and OAZ3 (By similarity).|Poly-Gly.				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GAGAGGCCCCGCTGCCACCAC	0.657													5	20					0	0	0.00308	0	0		A	38876201	A	A	38876201	2	1	23	1	0	0	0	0	0	0	0	1	6373	1078	38	1		1	GGN	19	38876201	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	296802	38876201	20252782	1293	20621											
CLC	1178	broad.mit.edu	37	chr19	40225698	40225698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accagtagacaaagaggcagCctctgtgtatggcacctgcc	11	7	11	12	0	1	2	0	0	1	2	1	2	1	2	4	2	2	4	4	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:40225698C>T	uc002omh.2	-	2	107	c.31G>A	c.(31-33)GCT>ACT	p.A11T		NM_001828	NP_001819	Q05315	LPPL_HUMAN	Charcot-Leyden crystal protein	11	Galectin.				lipid catabolic process|multicellular organismal development		carboxylesterase activity|lysophospholipase activity|sugar binding				0	all_cancers(60;2.99e-06)|all_lung(34;4.7e-08)|Lung NSC(34;5.46e-08)|Ovarian(47;0.06)	Renal(1328;0.000147)|Hepatocellular(1079;0.0202)|Myeloproliferative disorder(2;0.0255)	Epithelial(26;6.43e-25)|OV - Ovarian serous cystadenocarcinoma(5;1.07e-24)|all cancers(26;8.38e-23)	GBM - Glioblastoma multiforme(1328;4.97e-06)|STAD - Stomach adenocarcinoma(1328;0.00655)		AAAGAGGCAGCCTCTGTGTAT	0.547													15	38					0	0	0.006122	0	0		T	40225698	T	T	40225698	3	4	23	1	0	0	0	0	1	0	0	0	3459	739	26	2	409	2	CLC	19	40225698	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1349497	40225698	18903285	1294	20622											
PSMC4	5704	broad.mit.edu	37	chr19	40480659	40480659	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagatcggcatcgatcccccCcgaggcgtcctcatgtatgg	7	8	11	15	4	1	1	1	0	0	1	5	3	3	1	4	3	0	2	4	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:40480659C>A	uc002omq.2	+	6	634	c.597C>A	c.(595-597)CCC>CCA	p.P199P	PSMC4_uc002omr.2_Silent_p.P168P	NM_006503	NP_006494	P43686	PRS6B_HUMAN	proteasome 26S ATPase subunit 4 isoform 1	199					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding			ovary(1)	1	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TCGATCCCCCCCGAGGCGTCC	0.622													10	41					2.27111e-07	2.37872e-07	0.013537	1	0		A	40480659	A	A	40480659	2	1	23	1	0	0	0	0	0	0	0	1	12711	610	22	5		5	PSMC4	19	40480659	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	254961	40480659	18648324	1295	20623											
SPTBN4	57731	broad.mit.edu	37	chr19	40978686	40978686	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgagtgctcccggatcaAggccttggcaggtacctgga	7	10	13	11	1	1	1	1	1	0	0	2	3	2	3	3	5	2	3	3	5	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:40978686A>G	uc002ony.2	+	2	244	c.158A>G	c.(157-159)AAG>AGG	p.K53R	SPTBN4_uc002onx.2_Missense_Mutation_p.K53R|SPTBN4_uc002onz.2_Missense_Mutation_p.K53R	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	53	Actin-binding.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TCCCGGATCAAGGCCTTGGCA	0.687													3	13					0	0	0.004672	0	0		G	40978686	G	G	40978686	3	3	23	1	0	0	0	0	1	0	0	0	15146	72	3	3	160	3	SPTBN4	19	40978686	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	498027	40978686	18150297	1296	20624											
SPTBN4	57731	broad.mit.edu	37	chr19	41060057	41060057	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctcctgcccccagggccTgcggcgggagatccaggcgc	5	5	14	17	3	0	1	0	0	0	1	2	2	2	1	6	4	3	0	6	4	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:41060057T>C	uc002ony.2	+	23	4765	c.4679T>C	c.(4678-4680)CTG>CCG	p.L1560P	SPTBN4_uc002onx.2_Missense_Mutation_p.L1560P|SPTBN4_uc002onz.2_Missense_Mutation_p.L1560P|SPTBN4_uc010egx.2_Missense_Mutation_p.L303P|SPTBN4_uc010egy.1_Missense_Mutation_p.L236P|SPTBN4_uc002ooa.2_Missense_Mutation_p.L236P	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1560	Spectrin 13.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCCCAGGGCCTGCGGCGGGAG	0.746													2	8					0	0	0.004672	0	0		C	41060057	C	C	41060057	3	2	23	1	0	0	0	0	1	0	0	0	15146	1580	55	3	4765	3	SPTBN4	19	41060057	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	81371	41060057	18068926	1297	20625											
HNRNPUL1	11100	broad.mit.edu	37	chr19	41778132	41778132	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtactttgagcaccgagaGgataggaggtgggtgtatga	10	9	18	4	1	0	3	0	2	0	1	0	6	0	5	1	5	2	3	1	5	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:41778132G>T	uc002oqb.3	+	3	853	c.564G>T	c.(562-564)GAG>GAT	p.E188D	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Missense_Mutation_p.E88D|HNRNPUL1_uc002oqa.3_Missense_Mutation_p.E88D|HNRNPUL1_uc010ehm.2_Missense_Mutation_p.E188D|HNRNPUL1_uc002oqc.3_Missense_Mutation_p.E145D|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Missense_Mutation_p.E88D|HNRNPUL1_uc010ehn.2_Missense_Mutation_p.E88D|HNRNPUL1_uc010eho.2_Missense_Mutation_p.E88D|HNRNPUL1_uc010xvy.1_Missense_Mutation_p.E88D|HNRNPUL1_uc010ehp.2_Missense_Mutation_p.E44D|HNRNPUL1_uc010ehl.1_Missense_Mutation_p.E88D	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	188					nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						AGCACCGAGAGGATAGGAGGT	0.532													59	255					2.67592e-24	2.95954e-24	0.01441	1	0		T	41778132	T	T	41778132	3	4	23	1	0	0	0	0	1	0	0	0	7290	991	35	5	574	5	HNRNPUL1	19	41778132	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	718075	41778132	17350851	1298	20626											
DMRTC2	63946	broad.mit.edu	37	chr19	42352907	42352907	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatcccccggaagcctcGcccttgtcctggactccggt	5	8	10	18	3	0	0	0	0	0	0	4	2	3	2	7	3	2	0	7	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:42352907G>A	uc002ors.2	+	5	575	c.492G>A	c.(490-492)TCG>TCA	p.S164S	DMRTC2_uc002orr.1_Silent_p.S41S|DMRTC2_uc010xwe.1_Silent_p.S164S	NM_001040283	NP_001035373	Q8IXT2	DMRTD_HUMAN	DMRT-like family C2	164	Pro-rich.				cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0						CGGAAGCCTCGCCCTTGTCCT	0.647													66	180					0	0	0.01441	0	0		A	42352907	A	A	42352907	2	1	23	1	0	0	0	0	0	0	0	1	4597	1074	38	1		1	DMRTC2	19	42352907	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	574775	42352907	16776076	1299	20627											
ATP1A3	478	broad.mit.edu	37	chr19	42482921	42482921	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accagcaggtatcggttgtcGttggggtcctcggtctcatg	5	12	14	10	3	1	0	1	0	1	0	6	0	2	0	2	5	1	4	2	5	1	3	rs138797500		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:42482921G>A	uc002osg.2	-	12	1621	c.1467C>T	c.(1465-1467)AAC>AAT	p.N489N	ATP1A3_uc010xwf.1_Silent_p.N500N|ATP1A3_uc010xwg.1_Silent_p.N459N|ATP1A3_uc010xwh.1_Silent_p.N502N|ATP1A3_uc002osh.2_Silent_p.N489N	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	489	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						ATCGGTTGTCGTTGGGGTCCT	0.647													28	96					0	0	0.009535	0	0		A	42482921	A	A	42482921	2	1	23	1	0	0	0	0	0	0	0	1	1131	1136	40	1		1	ATP1A3	19	42482921	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	130014	42482921	16646062	1300	20628											
ATP1A3	478	broad.mit.edu	37	chr19	42492106	42492106	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgttgtcaccagaggggtcGtcctcggtgcccgcctggat	5	9	14	13	4	1	1	1	0	0	1	4	2	2	2	4	4	1	1	4	4	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:42492106G>A	uc002osg.2	-	4	493	c.339C>T	c.(337-339)GAC>GAT	p.D113D	ATP1A3_uc010xwf.1_Silent_p.D124D|ATP1A3_uc010xwg.1_Silent_p.D83D|ATP1A3_uc010xwh.1_Silent_p.D126D|ATP1A3_uc002osh.2_Silent_p.D113D	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	113	Extracellular (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						CAGAGGGGTCGTCCTCGGTGC	0.587													41	150					0	0	0.009718	0	0		A	42492106	A	A	42492106	2	1	23	1	0	0	0	0	0	0	0	1	1131	1136	40	1		1	ATP1A3	19	42492106	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	9185	42492106	16636877	1301	20629											
CIC	23152	broad.mit.edu	37	chr19	42797376	42797376	+	Frame_Shift_Del	DEL	C	-	-																															actcccacggcccggagcagCcccccactgcccccacctgc																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:42797376delC	uc002otf.1	+	15	3778	c.3738delC	c.(3736-3738)AGCfs	p.S1246fs		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1246	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				CCCGGAGCAGCCCCCCACTGC	0.706			T	DUX4	soft tissue sarcoma								4	9	---	---	---	---						.	-	42797376	-	-	42797376	7	5	23	1	0	1	0	1	0	0	0	0	3427	738	26	0	3796	0	CIC	19	42797376	Frame_Shift_Del	DEL	C	TCGA-BR-4368-01A-01D-1158-08	305270	42797376	16331607	1302	20630											
PSG8	440533	broad.mit.edu	37	chr19	43259305	43259305	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaggctctgaccatttaGccaccaaatgtaggtgtagt	10	10	12	9	1	1	1	0	1	1	0	1	2	1	2	3	3	1	3	3	3	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:43259305G>A	uc002ouo.2	-	4	921	c.823C>T	c.(823-825)CTA>TTA	p.L275L	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc010eim.2_Intron|PSG8_uc002oui.2_Silent_p.L114L|PSG8_uc002ouh.2_Silent_p.L275L|PSG8_uc010ein.2_Silent_p.L153L|PSG8_uc002ouj.3_Silent_p.L57L|PSG8_uc002ouk.3_Silent_p.L114L|PSG8_uc002oul.3_Silent_p.L275L|PSG8_uc002oum.3_Silent_p.L182L|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Silent_p.L182L	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	275	Ig-like C2-type 2.					extracellular region					0		Prostate(69;0.00899)				TGACCATTTAGCCACCAAATG	0.468													73	222					0	0	0.01441	0	0		A	43259305	A	A	43259305	2	1	23	1	0	0	0	0	0	0	0	1	12683	962	34	2		2	PSG8	19	43259305	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	461929	43259305	15869678	1303	20631											
SYMPK	8189	broad.mit.edu	37	chr19	46332457	46332457	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctggccaggatctttaTgcggacctggtgggagggtg	6	9	18	8	1	1	0	0	0	1	0	1	3	1	3	2	7	1	1	2	7	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:46332457T>C	uc002pdn.2	-	14	2001	c.1756A>G	c.(1756-1758)ATA>GTA	p.I586V	SYMPK_uc002pdo.1_Missense_Mutation_p.I586V|SYMPK_uc002pdp.1_Missense_Mutation_p.I586V	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	586					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		AGGATCTTTATGCGGACCTGG	0.632													9	44					0	0	0.004482	0	0		C	46332457	C	C	46332457	3	2	23	1	0	0	0	0	1	0	0	0	15464	1464	51	3	2124	3	SYMPK	19	46332457	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	3073152	46332457	12796526	1304	20632											
PPP5C	5536	broad.mit.edu	37	chr19	46888085	46888085	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatggtgactttgtggacCgaggctccttctctgtagaa	8	14	11	8	1	1	2	0	1	1	1	3	4	2	3	2	3	0	2	2	3	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:46888085C>A	uc002pem.2	+	7	883	c.823C>A	c.(823-825)CGA>AGA	p.R275R	PPP5C_uc010xya.1_Silent_p.R142R|PPP5C_uc002pen.2_Silent_p.R253R|PPP5C_uc010xyb.1_Silent_p.R133R	NM_006247	NP_006238	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	275	Catalytic.				mitosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein dephosphorylation|transcription, DNA-dependent	Golgi apparatus|nucleus	metal ion binding|protein binding|protein serine/threonine phosphatase activity|signal transducer activity			lung(1)|pancreas(1)	2		Ovarian(192;0.0731)|all_neural(266;0.196)		OV - Ovarian serous cystadenocarcinoma(262;0.000196)|all cancers(93;0.00192)|GBM - Glioblastoma multiforme(486;0.0499)|Epithelial(262;0.0504)		CTTTGTGGACCGAGGCTCCTT	0.547													17	107					4.96729e-08	5.232e-08	0.008871	1	0		A	46888085	A	A	46888085	2	1	23	1	0	0	0	0	0	0	0	1	12428	644	23	5		5	PPP5C	19	46888085	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	555628	46888085	12240898	1305	20633											
CCDC8	83987	broad.mit.edu	37	chr19	46915402	46915402	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaggccagccgggcctcGcccaccccggggcccgccct	3	3	15	20	4	0	0	0	0	0	0	1	1	0	1	8	5	1	0	8	5	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:46915402G>A	uc002pep.2	-	1	1518	c.666C>T	c.(664-666)GGC>GGT	p.G222G		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	222						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		GCCGGGCCTCGCCCACCCCGG	0.701													4	21					0	0	0.004482	0	0		A	46915402	A	A	46915402	2	1	23	1	0	0	0	0	0	0	0	1	2856	1074	38	1		1	CCDC8	19	46915402	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	27317	46915402	12213581	1306	20634											
TMEM143	55260	broad.mit.edu	37	chr19	48866695	48866695	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgagagggcccgggggggCccgaggagcgcgggcaacag	8	1	22	10	4	0	1	0	1	0	1	0	5	0	2	2	6	2	1	2	6	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:48866695C>G	uc002pix.1	-	2	126	c.117G>C	c.(115-117)GGG>GGC	p.G39G	TMEM143_uc002piw.1_RNA|TMEM143_uc002piy.1_Silent_p.G39G|TMEM143_uc010xzn.1_Silent_p.G39G|TMEM143_uc010elw.1_Silent_p.G39G|TMEM143_uc010xzo.1_Intron|TMEM143_uc010xzp.1_Silent_p.G39G|TMEM143_uc010xzq.1_Silent_p.G39G|SYNGR4_uc002piz.2_5'Flank	NM_018273	NP_060743	Q96AN5	TM143_HUMAN	transmembrane protein 143	39						integral to membrane|mitochondrion					0		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000149)|all cancers(93;0.000198)|Epithelial(262;0.0151)|GBM - Glioblastoma multiforme(486;0.0157)		CCCGGGGGGGCCCGAGGAGCG	0.677													14	54					0	0	0.00333	0	0		G	48866695	G	G	48866695	2	3	23	1	0	0	0	0	0	0	0	1	16082	726	26	5		5	TMEM143	19	48866695	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1951293	48866695	10262288	1307	20635											
KCNJ14	3770	broad.mit.edu	37	chr19	48965204	48965204	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggcgcgcgctacctgAgcgacctgttcaccacatgc	7	6	12	16	4	1	1	1	1	0	0	1	2	1	1	4	1	3	2	4	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:48965204A>C	uc002pje.1	+	2	628	c.223A>C	c.(223-225)AGC>CGC	p.S75R	KCNJ14_uc002pjf.1_Missense_Mutation_p.S75R	NM_013348	NP_037480	Q9UNX9	IRK14_HUMAN	potassium inwardly-rectifying channel J14	75	Cytoplasmic (By similarity).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			skin(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000109)|all cancers(93;0.000129)|Epithelial(262;0.0081)|GBM - Glioblastoma multiforme(486;0.0222)		GCGCTACCTGAGCGACCTGTT	0.662													11	23					0	0	0.013537	0	0		C	48965204	C	C	48965204	3	2	23	1	0	0	0	0	1	0	0	0	8064	304	11	5	225	5	KCNJ14	19	48965204	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	98509	48965204	10163779	1308	20636											
PPP1R15A	23645	broad.mit.edu	37	chr19	49377689	49377689	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagaggacacagaggaggAggaagatgaggacagtgata	17	3	18	3	0	0	5	0	2	0	3	0	11	0	10	0	6	0	0	0	6	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:49377689A>G	uc002pky.3	+	2	1468	c.1199A>G	c.(1198-1200)GAG>GGG	p.E400G		NM_014330	NP_055145	O75807	PR15A_HUMAN	protein phosphatase 1, regulatory subunit 15A	400	4 X 34 AA approximate repeats.|Glu-rich.|2.|Interaction with SMAD7.				apoptosis|cell cycle arrest|regulation of translation|response to DNA damage stimulus	endoplasmic reticulum	protein binding			lung(1)	1		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000244)|all cancers(93;0.000694)|GBM - Glioblastoma multiforme(486;0.0222)|Epithelial(262;0.033)		ACAGAGGAGGAGGAAGATGAG	0.537													45	152					0	0	0.01441	0	0		G	49377689	G	G	49377689	3	3	23	1	0	0	0	0	1	0	0	0	12385	304	11	3	1201	3	PPP1R15A	19	49377689	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	412485	49377689	9751294	1309	20637											
NUCB1	4924	broad.mit.edu	37	chr19	49425616	49425616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagccggtgaccagaaggagGtggacacttcagaaaagaaa	16	4	13	8	1	1	4	1	1	0	3	1	6	1	6	2	4	1	0	2	4	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:49425616G>A	uc002plb.3	+	13	1393	c.1321G>A	c.(1321-1323)GTG>ATG	p.V441M	NUCB1_uc002plc.2_Missense_Mutation_p.V441M|NUCB1_uc002pld.2_Missense_Mutation_p.V104M	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	441						ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		CCAGAAGGAGGTGGACACTTC	0.517													6	136					0	0	0.010729	0	0		A	49425616	A	A	49425616	3	1	23	1	0	0	0	0	1	0	0	0	10737	1261	44	4	1367	4	NUCB1	19	49425616	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	47927	49425616	9703367	1310	20638											
KCNA7	3743	broad.mit.edu	37	chr19	49573562	49573562	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacgcccgcaatggcacacaGagagcccactatcttgccac	11	5	8	17	2	1	1	0	0	1	1	1	2	1	1	3	1	2	2	3	1	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:49573562G>C	uc002pmg.2	-	2	1485	c.1129C>G	c.(1129-1131)CTG>GTG	p.L377V		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	377	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)		ATGGCACACAGAGAGCCCACT	0.557													3	43					0	0	0.009096	0	0		C	49573562	C	C	49573562	3	2	23	1	0	0	0	0	1	0	0	0	8024	933	33	5	245	5	KCNA7	19	49573562	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	147946	49573562	9555421	1311	20639											
KCNA7	3743	broad.mit.edu	37	chr19	49575520	49575520	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgggcagccctcgtccTcgcgcaggcgtgccagggcc	4	4	15	18	5	0	0	0	0	0	0	3	0	1	0	5	3	2	3	5	3	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:49575520T>G	uc002pmg.2	-	1	679	c.323A>C	c.(322-324)GAG>GCG	p.E108A		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	108						voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)		GCCCTCGTCCTCGCGCAGGCG	0.761													4	7					0	0	0.001168	0	0		G	49575520	G	G	49575520	3	3	23	1	0	0	0	0	1	0	0	0	8024	1551	54	5	1055	5	KCNA7	19	49575520	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1958	49575520	9553463	1312	20640											
SCAF1	58506	broad.mit.edu	37	chr19	50148366	50148366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgccagacagagaccccaCgctttctccttctgccttta	7	11	6	17	2	2	2	0	0	2	2	4	3	3	2	6	0	1	1	6	0	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:50148366C>T	uc002poq.2	+	2	207	c.83C>T	c.(82-84)ACG>ATG	p.T28M		NM_021228	NP_067051	Q9H7N4	SFR19_HUMAN	SR-related CTD-associated factor 1	28					mRNA processing|RNA splicing	nucleus	RNA binding				0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00113)|GBM - Glioblastoma multiforme(134;0.0204)		AGAGACCCCACGCTTTCTCCT	0.632													11	40					0	0	0.001855	0	0		T	50148366	T	T	50148366	3	4	23	1	0	0	0	0	1	0	0	0	13893	536	19	1	85	1	SCAF1	19	50148366	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	572846	50148366	8980617	1313	20641											
BCL2L12	83596	broad.mit.edu	37	chr19	50173596	50173596	+	Frame_Shift_Del	DEL	C	-	-																															caagccgagcatgccccgggCccccgcctccttccccggag																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:50173596delC	uc002ppa.2	+	6	1487	c.805delC	c.(805-807)CCCfs	p.P269fs	BCL2L12_uc002ppb.2_Frame_Shift_Del_p.P268fs	NM_138639	NP_619580	Q9HB09	B2L12_HUMAN	BCL2-like 12 isoform 1	269					apoptosis					central_nervous_system(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.000681)|GBM - Glioblastoma multiforme(134;0.0214)		ATGCCCCGGGCCCCCGCCTCC	0.731													6	8	---	---	---	---						.	-	50173596	-	-	50173596	7	5	23	1	0	1	0	1	0	0	0	0	1371	739	26	0	827	0	BCL2L12	19	50173596	Frame_Shift_Del	DEL	C	TCGA-BR-4368-01A-01D-1158-08	25230	50173596	8955387	1314	20642											
AP2A1	160	broad.mit.edu	37	chr19	50302683	50302683	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctggagagcatgtgcacGctggccagctccgagttctc	6	8	13	14	2	1	1	0	0	1	1	3	3	2	1	3	2	3	5	3	2	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:50302683G>A	uc002ppn.2	+	9	1276	c.1065G>A	c.(1063-1065)ACG>ACA	p.T355T	AP2A1_uc010enj.1_RNA|AP2A1_uc002ppo.2_Silent_p.T355T|AP2A1_uc002ppp.1_5'Flank	NM_014203	NP_055018	O95782	AP2A1_HUMAN	adaptor-related protein complex 2, alpha 1	355					axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|Golgi to endosome transport|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|clathrin coat of trans-Golgi network vesicle|cytosol	protein binding|protein transporter activity			ovary(2)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0023)|GBM - Glioblastoma multiforme(134;0.0157)		GCATGTGCACGCTGGCCAGCT	0.642													6	15					0	0	0.00308	0	0		A	50302683	A	A	50302683	2	1	23	1	0	0	0	0	0	0	0	1	739	1074	38	1		1	AP2A1	19	50302683	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	129087	50302683	8826300	1315	20643											
ZNF432	9668	broad.mit.edu	37	chr19	52538109	52538109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgatgttcaatcagacGgctcttcatagtgaagactt	10	13	9	9	2	4	4	3	2	1	2	5	4	4	4	0	1	0	3	0	1	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:52538109G>A	uc002pyk.2	-	5	1141	c.823C>T	c.(823-825)CGT>TGT	p.R275C		NM_014650	NP_055465	O94892	ZN432_HUMAN	zinc finger protein 432	275	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|pancreas(1)	3		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.0054)|OV - Ovarian serous cystadenocarcinoma(262;0.0182)		TCAATCAGACGGCTCTTCATA	0.393													30	107					0	0	0.009535	0	0		A	52538109	A	A	52538109	3	1	23	1	0	0	0	0	1	0	0	0	17931	1116	39	1	1139	1	ZNF432	19	52538109	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2235426	52538109	6590874	1316	20644											
NLRP12	91662	broad.mit.edu	37	chr19	54314259	54314259	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggacttgcctatccctgcCgcgccttgcatgaccacggt	6	10	10	15	3	0	1	0	1	0	0	1	2	1	2	5	2	3	1	5	2	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:54314259C>T	uc002qch.3	-	3	874	c.654G>A	c.(652-654)GCG>GCA	p.A218A	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Silent_p.A218A|NLRP12_uc002qcj.3_Silent_p.A218A|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Silent_p.A218A	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	218	NACHT.|ATP (Potential).				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		CTATCCCTGCCGCGCCTTGCA	0.592													25	74					0	0	0.007291	0	0		T	54314259	T	T	54314259	2	4	23	1	0	0	0	0	0	0	0	1	10493	639	23	1		1	NLRP12	19	54314259	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1776150	54314259	4814724	1317	20645											
EPS8L1	54869	broad.mit.edu	37	chr19	55593853	55593853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgggggggccggagttcgCgagcagtgtgcggcggccgc	3	5	22	11	7	0	0	0	0	0	0	2	2	0	1	2	6	2	2	2	6	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:55593853C>T	uc002qis.3	+	12	1201	c.1097C>T	c.(1096-1098)GCG>GTG	p.A366V	EPS8L1_uc010ess.1_Missense_Mutation_p.A348V|EPS8L1_uc010est.1_Missense_Mutation_p.A366V|EPS8L1_uc010yfr.1_Missense_Mutation_p.A302V|EPS8L1_uc010esu.1_RNA|EPS8L1_uc002qiu.2_Missense_Mutation_p.A239V|EPS8L1_uc002qiv.2_Missense_Mutation_p.A12V|EPS8L1_uc002qiw.2_Missense_Mutation_p.A113V	NM_133180	NP_573441	Q8TE68	ES8L1_HUMAN	epidermal growth factor receptor pathway	366						cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		CCGGAGTTCGCGAGCAGTGTG	0.657													4	14					0	0	0.001168	0	0		T	55593853	T	T	55593853	3	4	23	1	0	0	0	0	1	0	0	0	5203	768	27	1	1191	1	EPS8L1	19	55593853	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1279594	55593853	3535130	1318	20646											
ZNF628	89887	broad.mit.edu	37	chr19	55995118	55995118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcacaggaagtaaccaCggtccagctccagccagcac	12	3	10	16	1	0	0	0	0	0	0	2	1	2	1	5	2	5	4	5	2	2	1	rs151142470	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:55995118C>T	uc002qld.2	+	3	3111	c.2546C>T	c.(2545-2547)ACG>ATG	p.T849M	NAT14_uc002qle.1_5'Flank	NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	849	3.|4 X approximate tandem repeats.					nucleus	DNA binding|zinc ion binding				0	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0531)		GAAGTAACCACGGTCCAGCTC	0.657													9	30					0	0	0.003163	0	0		T	55995118	T	T	55995118	3	4	23	1	0	0	0	0	1	0	0	0	18077	536	19	1	2548	1	ZNF628	19	55995118	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	401265	55995118	3133865	1319	20647											
NLRP4	147945	broad.mit.edu	37	chr19	56379209	56379209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccttttgtgtgaagcccTgtgcagcccagacacggtcc	6	9	11	15	1	0	2	0	1	0	1	1	2	1	2	5	1	3	1	5	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:56379209T>C	uc002qmd.3	+	6	2743	c.2321T>C	c.(2320-2322)CTG>CCG	p.L774P	NLRP4_uc002qmf.2_Missense_Mutation_p.L699P|NLRP4_uc010etf.2_Intron	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	774	LRR 4.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		TGTGAAGCCCTGTGCAGCCCA	0.537													25	82					0	0	0.004656	0	0		C	56379209	C	C	56379209	3	2	23	1	0	0	0	0	1	0	0	0	10498	1580	55	3	2339	3	NLRP4	19	56379209	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	384091	56379209	2749774	1320	20648											
ZFP28	140612	broad.mit.edu	37	chr19	57065621	57065621	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagctttcatacagaacacAtcccttatccgtcactggag	13	10	6	12	1	2	1	2	0	0	1	4	2	4	2	2	1	3	1	2	1	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:57065621A>T	uc002qnj.2	+	8	1538	c.1467A>T	c.(1465-1467)ACA>ACT	p.T489T	uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	489	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		TACAGAACACATCCCTTATCC	0.478													19	81					0	0	0.007413	0	0		T	57065621	T	T	57065621	2	4	23	1	0	0	0	0	0	0	0	1	17667	204	8	5		5	ZFP28	19	57065621	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	686412	57065621	2063362	1321	20649											
ZNF71	58491	broad.mit.edu	37	chr19	57133351	57133351	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcctctctcacccagcaCgagcggatccacacggggga	9	6	10	16	3	2	0	1	0	1	0	5	3	4	2	3	3	2	1	3	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:57133351C>T	uc002qnm.3	+	3	934	c.696C>T	c.(694-696)CAC>CAT	p.H232H		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	232	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		TCACCCAGCACGAGCGGATCC	0.642													17	47					0	0	0.00499	0	0		T	57133351	T	T	57133351	2	4	23	1	0	0	0	0	0	0	0	1	18139	535	19	1		1	ZNF71	19	57133351	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	67730	57133351	1995632	1322	20650											
AURKC	6795	broad.mit.edu	37	chr19	57746748	57746748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgggttcaggcccactcccGaagggtgctgcctccctgtg	4	9	13	15	1	1	0	1	0	0	0	3	1	3	0	4	3	2	2	4	3	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:57746748G>A	uc002qoe.2	+	7	1082	c.893G>A	c.(892-894)CGA>CAA	p.R298Q	AURKC_uc002qoc.2_Missense_Mutation_p.R279Q|AURKC_uc002qod.2_Missense_Mutation_p.R264Q|AURKC_uc010etv.2_Missense_Mutation_p.R295Q	NM_001015878	NP_001015878	Q9UQB9	AURKC_HUMAN	aurora kinase C isoform 1	298					cell cycle|cytokinesis	condensed chromosome|cytoplasm|midbody|spindle midzone	ATP binding|protein serine/threonine kinase activity			lung(4)|ovary(2)	6		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0122)		GCCCACTCCCGAAGGGTGCTG	0.617													27	113					0	0	0.005443	0	0		A	57746748	A	A	57746748	3	1	23	1	0	0	0	0	1	0	0	0	1225	1058	37	1	924	1	AURKC	19	57746748	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	613397	57746748	1382235	1323	20651											
ZNF772	400720	broad.mit.edu	37	chr19	57987127	57987127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcctgggagaagtacaCgaacacgtcctcaaagttca	12	8	8	13	2	2	1	2	0	0	1	5	3	5	1	3	1	2	2	3	1	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:57987127C>T	uc002qot.2	-	3	361	c.100G>A	c.(100-102)GTG>ATG	p.V34M	ZNF547_uc002qpm.3_Intron|ZNF772_uc010ygy.1_Missense_Mutation_p.V34M|ZNF772_uc010ygz.1_Intron|ZNF772_uc010yha.1_Missense_Mutation_p.V21M|ZNF772_uc002qou.2_Intron	NM_001024596	NP_001019767	Q68DY9	ZN772_HUMAN	zinc finger protein 772 isoform 1	34	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)|Lung(386;0.174)		GAGAAGTACACGAACACGTCC	0.567													10	62					0	0	0.003163	0	0		T	57987127	T	T	57987127	3	4	23	1	0	0	0	0	1	0	0	0	18170	536	19	1	1381	1	ZNF772	19	57987127	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	240379	57987127	1141856	1324	20652											
ZNF154	7710	broad.mit.edu	37	chr19	58213887	58213887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacaagtgtgtgtttacCgctgaatgcttttgtgtgtt	7	17	11	6	1	0	2	0	2	0	0	0	2	0	2	1	0	3	4	1	0	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:58213887C>T	uc010euf.2	-	3	670	c.430G>A	c.(430-432)GGT>AGT	p.G144S	ZNF776_uc002qpx.2_Intron|ZNF154_uc002qpy.2_RNA	NM_001085384	NP_001078853	Q13106	ZN154_HUMAN	zinc finger protein 154	144	C2H2-type 2; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GTGTGTTTACCGCTGAATGCT	0.443													98	356					0	0	0.01441	0	0		T	58213887	T	T	58213887	3	4	23	1	0	0	0	0	1	0	0	0	17760	652	23	1	887	1	ZNF154	19	58213887	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	226760	58213887	915096	1325	20653											
ZNF552	79818	broad.mit.edu	37	chr19	58320008	58320008	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagctgtaatggcttttTcccccatgaaacagagacac	12	9	7	13	0	0	2	0	1	0	1	1	3	1	2	3	1	2	3	3	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:58320008T>C	uc002qqg.2	-	3	794	c.624A>G	c.(622-624)GGA>GGG	p.G208G	ZNF587_uc002qqb.2_Intron|ZNF552_uc010yhg.1_Silent_p.G204G	NM_024762	NP_079038	Q9H707	ZN552_HUMAN	zinc finger protein 552	208					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		AATGGCTTTTTCCCCCATGAA	0.463													30	99					0	0	0.010818	0	0		C	58320008	C	C	58320008	2	2	23	1	0	0	0	0	0	0	0	1	18009	1770	62	3		3	ZNF552	19	58320008	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08	106121	58320008	808975	1326	20654											
ZNF418	147686	broad.mit.edu	37	chr19	58438151	58438151	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgttcaatgaggtgggaCttgcccctaaataatttcct	9	14	10	8	0	1	1	1	1	0	0	2	2	2	2	3	3	1	1	3	3	4	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:58438151C>T	uc002qqs.1	-	4	1690	c.1398G>A	c.(1396-1398)AAG>AAA	p.K466K	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Silent_p.K381K	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	466	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0158)		TGAGGTGGGACTTGCCCCTAA	0.443													8	243					0	0	0.006214	0	0		T	58438151	T	T	58438151	2	4	23	1	0	0	0	0	0	0	0	1	17920	564	20	4		4	ZNF418	19	58438151	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	118143	58438151	690832	1327	20655											
ZBTB45	84878	broad.mit.edu	37	chr19	59025430	59025430	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagcgccatcagggcgcAgggtgcgccgccaggtggcg	5	3	17	16	5	1	0	1	0	0	0	1	0	1	0	5	4	2	1	5	4	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr19:59025430A>C	uc002qtd.2	-	3	1819	c.1527T>G	c.(1525-1527)CCT>CCG	p.P509P	SLC27A5_uc002qtc.2_5'Flank|ZBTB45_uc002qte.2_Silent_p.P509P|ZBTB45_uc002qtf.2_Silent_p.P509P	NM_032792	NP_116181	Q96K62	ZBT45_HUMAN	zinc finger and BTB domain containing 45	509					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0165)|Lung(386;0.18)		ATCAGGGCGCAGGGTGCGCCG	0.766													3	10					0	0	0.004672	0	0		C	59025430	C	C	59025430	2	2	23	1	0	0	0	0	0	0	0	1	17571	175	7	5		5	ZBTB45	19	59025430	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	587279	59025430	103553	1328	20656											
RBCK1	10616	broad.mit.edu	37	chr20	398429	398429	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagtgggtgattgggcaGcggctggcacgagaccagga	9	5	18	9	2	0	2	0	1	0	1	0	4	0	3	1	5	2	4	1	5	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:398429G>A	uc002wdp.3	+	4	1008	c.315G>A	c.(313-315)CAG>CAA	p.Q105Q	RBCK1_uc010zpl.1_Silent_p.Q105Q|RBCK1_uc010zpm.1_RNA|RBCK1_uc002wdq.3_Silent_p.Q63Q|RBCK1_uc010fzy.2_RNA|RBCK1_uc002wdr.3_5'UTR	NM_031229	NP_112506	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing	105	Interaction with IRF3.|Ubiquitin-like.|Interaction with RNF31.|Interaction with TAB2.				interspecies interaction between organisms|negative regulation of NF-kappaB transcription factor activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|proteasomal ubiquitin-dependent protein catabolic process|protein linear polyubiquitination|T cell receptor signaling pathway	LUBAC complex	protein binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)				TGATTGGGCAGCGGCTGGCAC	0.483													11	33					0	0	0.00245	0	0		A	398429	A	A	398429	2	1	23	1	0	0	0	0	0	0	0	1	13132	962	34	2		2	RBCK1	20	398429	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08		398429	62627091	1329	20657											
RBCK1	10616	broad.mit.edu	37	chr20	409197	409197	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggccctgcgggctcagaaCgatgtggctgcccggcagac	6	6	15	14	3	1	2	1	0	0	2	1	3	1	2	2	4	3	3	2	4	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:409197C>T	uc002wdp.3	+	10	1965	c.1272C>T	c.(1270-1272)AAC>AAT	p.N424N	RBCK1_uc010zpm.1_RNA|RBCK1_uc002wdq.3_Silent_p.N382N|RBCK1_uc010fzy.2_RNA|RBCK1_uc002wdr.3_Silent_p.N254N	NM_031229	NP_112506	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing	424					interspecies interaction between organisms|negative regulation of NF-kappaB transcription factor activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|proteasomal ubiquitin-dependent protein catabolic process|protein linear polyubiquitination|T cell receptor signaling pathway	LUBAC complex	protein binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)				GGGCTCAGAACGATGTGGCTG	0.602													3	24					0	0	0.009096	0	0		T	409197	T	T	409197	2	4	23	1	0	0	0	0	0	0	0	1	13132	535	19	1		1	RBCK1	20	409197	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	10768	409197	62616323	1330	20658											
ZNF343	79175	broad.mit.edu	37	chr20	2465000	2465000	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgttgccttttctaggacTtgctgactgtctttggagtg	5	17	11	8	0	2	1	0	1	2	0	2	3	2	3	1	2	2	2	1	2	1	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:2465000T>G	uc002wge.1	-	6	1095	c.607A>C	c.(607-609)AGT>CGT	p.S203R	ZNF343_uc010gao.1_Missense_Mutation_p.S203R|ZNF343_uc002wgd.1_Missense_Mutation_p.S113R	NM_024325	NP_077301	Q6P1L6	ZN343_HUMAN	zinc finger protein 343	203					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TTTCTAGGACTTGCTGACTGT	0.522													28	131					0	0	0.00632	0	0		G	2465000	G	G	2465000	3	3	23	1	0	0	0	0	1	0	0	0	17883	1609	56	5	1196	5	ZNF343	20	2465000	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2055803	2465000	60560520	1331	20659											
JAG1	182	broad.mit.edu	37	chr20	10622291	10622291	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgcagctctgcccgctgggGcactcgctgtgccctttgtg	3	11	13	14	2	1	0	0	0	1	0	2	0	1	0	2	2	4	5	2	2	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:10622291G>A	uc002wnw.2	-	23	3249	c.2733C>T	c.(2731-2733)TGC>TGT	p.C911C	JAG1_uc010gcd.1_Silent_p.C469C	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	911	Extracellular (Potential).		C -> Y (in ALGS1).		angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						GCCCGCTGGGGCACTCGCTGT	0.617									Alagille_Syndrome				4	66					0	0	0.000602	0	0		A	10622291	A	A	10622291	2	1	23	1	0	0	0	0	0	0	0	1	7950	1195	42	2		2	JAG1	20	10622291	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	8157291	10622291	52403229	1332	20660											
SEL1L2	80343	broad.mit.edu	37	chr20	13839964	13839964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattgaacatggcttgcgCgttgtggtatttgttggctg	6	15	14	6	2	0	2	0	1	0	1	0	2	0	2	0	3	2	5	0	3	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:13839964C>T	uc010gcf.2	-	18	1844	c.1762G>A	c.(1762-1764)GCG>ACG	p.A588T	SEL1L2_uc002woq.3_Missense_Mutation_p.A449T|SEL1L2_uc010zrl.1_Intron|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	588	Extracellular (Potential).|Sel1-like 11.					integral to membrane	binding			ovary(2)	2						ATGGCTTGCGCGTTGTGGTAT	0.403													12	17					0	0	0.003163	0	0		T	13839964	T	T	13839964	3	4	23	1	0	0	0	0	1	0	0	0	14036	768	27	1	316	1	SEL1L2	20	13839964	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3217673	13839964	49185556	1333	20661											
FLRT3	23767	broad.mit.edu	37	chr20	14308143	14308143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggaagatgctccaggctgCgctgatcatggtcagcagtg	9	8	15	9	1	2	2	2	1	0	1	3	4	3	3	1	3	3	4	1	3	1	0	rs142379846		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:14308143C>T	uc002wov.1	-	3	477	c.10G>A	c.(10-12)GCA>ACA	p.A4T	MACROD2_uc002wot.2_Intron|MACROD2_uc002wou.2_Intron|FLRT3_uc002wow.1_Missense_Mutation_p.A4T	NM_198391	NP_938205	Q9NZU0	FLRT3_HUMAN	fibronectin leucine rich transmembrane protein 3	4					cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			kidney(1)	1		Colorectal(1;0.0464)	COAD - Colon adenocarcinoma(2;0.129)	Colorectal(1;0.0393)		CTCCAGGCTGCGCTGATCATG	0.438													8	39					0	0	0.00308	0	0		T	14308143	T	T	14308143	3	4	23	1	0	0	0	0	1	0	0	0	5954	768	27	1	1943	1	FLRT3	20	14308143	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	468179	14308143	48717377	1334	20662											
SLC24A3	57419	broad.mit.edu	37	chr20	19673915	19673915	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttccagcgggtaaactggAaacagtgaaatgggcgttca	12	10	12	7	2	1	1	1	1	0	0	2	2	2	2	1	3	3	2	1	3	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:19673915A>G	uc002wrl.2	+	13	1534	c.1337A>G	c.(1336-1338)GAA>GGA	p.E446G		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	446	Cytoplasmic (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						GGTAAACTGGAAACAGTGAAA	0.433											OREG0025804	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	73					0	0	0.004672	0	0		G	19673915	G	G	19673915	3	3	23	1	0	0	0	0	1	0	0	0	14492	246	9	3	1387	3	SLC24A3	20	19673915	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	5365772	19673915	43351605	1335	20663											
TMEM90B	79953	broad.mit.edu	37	chr20	24524024	24524024	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcctctattcagagggCgtgctgcgctcctgggggga	6	10	14	11	2	3	1	2	0	1	1	5	2	5	2	2	4	2	2	2	4	1	2	rs146291718	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:24524024C>T	uc002wtw.1	+	2	924	c.291C>T	c.(289-291)GGC>GGT	p.G97G		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	97	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						ATTCAGAGGGCGTGCTGCGCT	0.652													29	87					0	0	0.008361	0	0		T	24524024	T	T	24524024	2	4	23	1	0	0	0	0	0	0	0	1	16244	755	27	1		1	TMEM90B	20	24524024	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4850109	24524024	38501496	1336	20664											
ASXL1	171023	broad.mit.edu	37	chr20	31023213	31023213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acagttctttgcattggataCccatcccatcgaatgatgag	11	12	8	10	1	1	2	0	2	1	0	3	4	2	3	2	1	2	2	2	1	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:31023213C>T	uc002wxs.2	+	12	3124	c.2698C>T	c.(2698-2700)CCC>TCC	p.P900S	ASXL1_uc010geb.2_Missense_Mutation_p.P791S	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	900					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						GCATTGGATACCCATCCCATC	0.478			F|N|Mis		MDS|CMML								36	104					0	0	0.004878	0	0		T	31023213	T	T	31023213	3	4	23	1	0	0	0	0	1	0	0	0	1067	507	18	4	2754	4	ASXL1	20	31023213	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	6499189	31023213	32002307	1337	20665											
DNMT3B	1789	broad.mit.edu	37	chr20	31375119	31375119	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaccatcgacctcacagaCgacacagaggacacacatgg	14	5	8	14	2	1	2	1	0	0	2	2	5	1	3	2	2	1	0	2	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:31375119C>T	uc002wyc.2	+	6	837	c.516C>T	c.(514-516)GAC>GAT	p.D172D	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Silent_p.D172D|DNMT3B_uc002wye.2_Silent_p.D172D|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Silent_p.D130D|DNMT3B_uc010zua.1_Silent_p.D96D|DNMT3B_uc002wyf.2_Silent_p.D184D	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	172	Interaction with DNMT1 and DNMT3A.				negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						ACCTCACAGACGACACAGAGG	0.652													28	147					0	0	0.004656	0	0		T	31375119	T	T	31375119	2	4	23	1	0	0	0	0	0	0	0	1	4683	535	19	1		1	DNMT3B	20	31375119	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	351906	31375119	31650401	1338	20666											
C20orf70	140683	broad.mit.edu	37	chr20	31756984	31756984	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaaacttgttctcctgtgCggcgtgctcactgggacctc	5	12	12	12	2	2	0	1	0	1	0	4	2	2	2	2	3	3	2	2	3	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:31756984C>T	uc002wyo.1	+	2	104	c.33C>T	c.(31-33)TGC>TGT	p.C11C		NM_080574	NP_542141	Q96DR5	SPLC2_HUMAN	chromosome 20 open reading frame 70 precursor	11						extracellular region	lipid binding			ovary(1)|central_nervous_system(1)	2						TTCTCCTGTGCGGCGTGCTCA	0.493													40	152					0	0	0.010771	0	0		T	31756984	T	T	31756984	2	4	23	1	0	0	0	0	0	0	0	1	2119	776	27	1		1	C20orf70	20	31756984	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	381865	31756984	31268536	1339	20667											
ZNF341	84905	broad.mit.edu	37	chr20	32328795	32328795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacaggccagagtgtcaatgCgccccctgctatccagccat	9	7	10	15	1	1	1	1	0	0	1	2	2	2	1	5	1	3	1	5	1	2	1	rs151120596	by1000genomes	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:32328795C>T	uc002wzy.2	+	2	139	c.119C>T	c.(118-120)GCG>GTG	p.A40V	ZNF341_uc002wzx.2_Missense_Mutation_p.A40V|ZNF341_uc010geq.2_Missense_Mutation_p.R16C|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	40					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						AGTGTCAATGCGCCCCCTGCT	0.557													10	50					0	0	0.010729	0	0		T	32328795	T	T	32328795	3	4	23	1	0	0	0	0	1	0	0	0	17882	768	27	1	125	1	ZNF341	20	32328795	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	571811	32328795	30696725	1340	20668											
AHCY	191	broad.mit.edu	37	chr20	32878577	32878577	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgttgatggggtcaatctcGgtgatgatgacgcgggctcc	6	10	16	9	4	2	4	1	4	1	0	4	4	3	4	1	4	0	2	1	4	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:32878577G>A	uc002xai.2	-	6	865	c.726C>T	c.(724-726)ACC>ACT	p.T242T	AHCY_uc002xaj.2_Silent_p.T214T	NM_000687	NP_000678	P23526	SAHH_HUMAN	adenosylhomocysteinase isoform 1	242					methylation|xenobiotic metabolic process	cytosol|melanosome	adenosylhomocysteinase activity|protein binding				0						GGTCAATCTCGGTGATGATGA	0.632													36	193					0	0	0.003755	0	0		A	32878577	A	A	32878577	2	1	23	1	0	0	0	0	0	0	0	1	409	1103	39	1		1	AHCY	20	32878577	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	549782	32878577	30146943	1341	20669											
DLGAP4	22839	broad.mit.edu	37	chr20	35060160	35060160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgcccccgccacctctccGacagcctagacccaccccac	7	3	6	25	3	1	1	0	0	1	1	2	2	1	1	10	0	1	0	10	0	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:35060160G>A	uc002xff.2	+	3	475	c.40G>A	c.(40-42)GAC>AAC	p.D14N	DLGAP4_uc010zvp.1_Missense_Mutation_p.D14N	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	14					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				CCACCTCTCCGACAGCCTAGA	0.726													16	49					0	0	0.006122	0	0		A	35060160	A	A	35060160	3	1	23	1	0	0	0	0	1	0	0	0	4568	1058	37	1	42	1	DLGAP4	20	35060160	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2181583	35060160	27965360	1342	20670											
RPN2	6185	broad.mit.edu	37	chr20	35852284	35852284	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctattttcctctagctcAgagtcaagatctccactgaa	10	14	5	12	0	5	3	2	1	3	2	8	3	6	3	2	0	1	1	2	0	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:35852284A>G	uc002xgp.2	+	10	1400	c.1096A>G	c.(1096-1098)AGA>GGA	p.R366G	RPN2_uc002xgo.3_Missense_Mutation_p.R366G|RPN2_uc010gfw.2_Missense_Mutation_p.R209G|RPN2_uc002xgq.2_Missense_Mutation_p.R334G	NM_002951	NP_002942	P04844	RPN2_HUMAN	ribophorin II isoform 1 precursor	366	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|nucleus|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CCTCTAGCTCAGAGTCAAGAT	0.423													12	54					0	0	0.013537	0	0		G	35852284	G	G	35852284	3	3	23	1	0	0	0	0	1	0	0	0	13633	180	7	3	1134	3	RPN2	20	35852284	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	792124	35852284	27173236	1343	20671											
KIAA0406	9675	broad.mit.edu	37	chr20	36640052	36640052	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttagcatctgagttccgcaGcatgacttccaggacctttg	8	12	10	11	1	1	2	0	2	1	0	3	3	3	3	3	1	2	5	3	1	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:36640052G>A	uc002xhl.2	-	3	2376	c.2167C>T	c.(2167-2169)CTG>TTG	p.L723L	KIAA0406_uc002xhm.2_Silent_p.L723L	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	723							binding				0		Myeloproliferative disorder(115;0.00874)				GAGTTCCGCAGCATGACTTCC	0.463													9	43					0	0	0.006214	0	0		A	36640052	A	A	36640052	2	1	23	1	0	0	0	0	0	0	0	1	8189	962	34	2		2	KIAA0406	20	36640052	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	787768	36640052	26385468	1344	20672											
ZHX3	23051	broad.mit.edu	37	chr20	39831909	39831909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggagcccttcaagttccGgcagtggtatctacgatcac	8	11	10	12	2	4	0	2	0	2	0	5	2	5	1	2	3	2	3	2	3	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:39831909G>A	uc002xjs.1	-	3	2026	c.1648C>T	c.(1648-1650)CGG>TGG	p.R550W	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Missense_Mutation_p.R550W|ZHX3_uc002xjt.1_Missense_Mutation_p.R550W|ZHX3_uc002xju.1_Missense_Mutation_p.R550W|ZHX3_uc002xjv.1_Missense_Mutation_p.R550W|ZHX3_uc002xjw.1_Missense_Mutation_p.R550W|ZHX3_uc010ggg.1_Missense_Mutation_p.R550W	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	550	Required for nuclear localization.|Homeobox 2.				negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				TTCAAGTTCCGGCAGTGGTAT	0.537													28	79					0	0	0.00632	0	0		A	39831909	A	A	39831909	3	1	23	1	0	0	0	0	1	0	0	0	17702	1115	39	1	1230	1	ZHX3	20	39831909	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3191857	39831909	23193611	1345	20673											
PTPRT	11122	broad.mit.edu	37	chr20	41101110	41101110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggttgtagctatggcagcGggtcaccgcgtagccgaagg	8	7	17	9	4	1	0	1	0	0	0	1	2	1	0	2	4	3	5	2	4	4	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:41101110G>A	uc002xkg.2	-	8	1430	c.1246C>T	c.(1246-1248)CGC>TGC	p.R416C	PTPRT_uc010ggj.2_Missense_Mutation_p.R416C	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	416	Extracellular (Potential).|Fibronectin type-III 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CTATGGCAGCGGGTCACCGCG	0.587													6	36					0	0	0.00308	0	0		A	41101110	A	A	41101110	3	1	23	1	0	0	0	0	1	0	0	0	12837	1116	39	1	3236	1	PTPRT	20	41101110	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1269201	41101110	21924410	1346	20674											
ADA	100	broad.mit.edu	37	chr20	43255112	43255112	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcactcagcctggttccagGggattggctccactttggag	6	11	12	12	0	2	0	2	0	0	0	4	2	4	2	3	5	1	2	3	5	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:43255112G>T	uc002xmj.2	-	4	475	c.347C>A	c.(346-348)CCC>CAC	p.P116H	ADA_uc010ggt.2_RNA	NM_000022	NP_000013	P00813	ADA_HUMAN	adenosine deaminase	116					adenosine catabolic process|cell adhesion|hypoxanthine salvage|inosine biosynthetic process|negative regulation of adenosine receptor signaling pathway|purine nucleotide salvage|purine ribonucleoside monophosphate biosynthetic process|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation	cell junction|cytoplasmic membrane-bounded vesicle lumen|cytosol|external side of plasma membrane|lysosome	adenosine deaminase activity|protein binding|zinc ion binding			pancreas(2)|ovary(1)	3		all_lung(126;1.24e-07)|Lung NSC(126;1.94e-07)|Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)		Adenosine(DB00640)|Cladribine(DB00242)|Dipyridamole(DB00975)|Erythromycin(DB00199)|Fludarabine(DB01073)|Idoxuridine(DB00249)|Nelarabine(DB01280)|Pentostatin(DB00552)|Theophylline(DB00277)|Vidarabine(DB00194)	CTGGTTCCAGGGGATTGGCTC	0.592									Adenosine_Deaminase_Deficiency				9	73					5.50884e-06	5.70231e-06	0.013537	1	0		T	43255112	T	T	43255112	3	4	23	1	0	0	0	0	1	0	0	0	230	1232	43	5	780	5	ADA	20	43255112	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2154002	43255112	19770408	1347	20675											
MMP9	4318	broad.mit.edu	37	chr20	44639209	44639209	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtggagcgcggtgacgccGctcaccttcactcgcgtgta	5	9	13	14	6	2	1	2	1	0	0	3	2	2	2	2	2	1	2	2	2	1	2	rs149020208		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:44639209G>A	uc002xqz.2	+	3	478	c.459G>A	c.(457-459)CCG>CCA	p.P153P		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	153					collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	CGGTGACGCCGCTCACCTTCA	0.607													6	23					0	0	0.001984	0	0		A	44639209	A	A	44639209	2	1	23	1	0	0	0	0	0	0	0	1	9687	1074	38	1		1	MMP9	20	44639209	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1384097	44639209	18386311	1348	20676											
CDH22	64405	broad.mit.edu	37	chr20	44869687	44869687	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgatgtcctgcaccttgatGatgaactccgactcgggctc	7	12	10	12	2	0	4	0	4	0	0	4	5	2	4	3	1	2	2	3	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:44869687G>A	uc002xrm.2	-	2	866	c.465C>T	c.(463-465)ATC>ATT	p.I155I	CDH22_uc010ghk.1_Silent_p.I155I	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	155	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				GCACCTTGATGATGAACTCCG	0.642													15	77					0	0	0.00499	0	0		A	44869687	A	A	44869687	2	1	23	1	0	0	0	0	0	0	0	1	3110	1280	45	4		4	CDH22	20	44869687	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	230478	44869687	18155833	1349	20677											
ZNF334	55713	broad.mit.edu	37	chr20	45130930	45130930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttccacattccttgcattCgtaaggcttctcccctgtgt	6	16	6	13	1	1	0	0	0	1	0	5	0	3	0	4	1	1	3	4	1	1	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:45130930C>T	uc002xsc.2	-	5	1232	c.1048G>A	c.(1048-1050)GAA>AAA	p.E350K	ZNF334_uc002xsa.2_Missense_Mutation_p.E373K|ZNF334_uc002xsb.2_Missense_Mutation_p.E312K|ZNF334_uc002xsd.2_Missense_Mutation_p.E312K|ZNF334_uc010ghl.2_Missense_Mutation_p.E349K	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	350	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				TCCTTGCATTCGTAAGGCTTC	0.438													77	215					0	0	0.01441	0	0		T	45130930	T	T	45130930	3	4	23	1	0	0	0	0	1	0	0	0	17876	893	31	1	998	1	ZNF334	20	45130930	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	261243	45130930	17894590	1350	20678											
SLC9A8	23315	broad.mit.edu	37	chr20	48503378	48503378	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggcaggaccttaagggcttCgtgtggctggacgccaagta	8	8	15	10	3	0	0	0	0	0	0	1	2	0	2	2	5	0	4	2	5	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:48503378C>T	uc002xuv.1	+	15	1791	c.1581C>T	c.(1579-1581)TTC>TTT	p.F527F	SLC9A8_uc010zym.1_Silent_p.F227F|SLC9A8_uc010gid.2_Silent_p.F151F	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	527						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			TTAAGGGCTTCGTGTGGCTGG	0.627													28	79					0	0	0.009535	0	0		T	48503378	T	T	48503378	2	4	23	1	0	0	0	0	0	0	0	1	14745	883	31	1		1	SLC9A8	20	48503378	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3372448	48503378	14522142	1351	20679											
KCNG1	3755	broad.mit.edu	37	chr20	49626608	49626608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgcaggccttgagctggcCcaggcgcgtcagcgggaact	6	6	17	12	3	1	1	1	1	0	0	1	2	1	2	2	5	4	2	2	5	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:49626608C>T	uc002xwa.3	-	2	563	c.268G>A	c.(268-270)GGC>AGC	p.G90S	KCNG1_uc002xwb.2_Missense_Mutation_p.G90S	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	90	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						TTGAGCTGGCCCAGGCGCGTC	0.632													4	45					0	0	0.009096	0	0		T	49626608	T	T	49626608	3	4	23	1	0	0	0	0	1	0	0	0	8043	623	22	4	1281	4	KCNG1	20	49626608	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1123230	49626608	13398912	1352	20680											
TFAP2C	7022	broad.mit.edu	37	chr20	55206380	55206380	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcgccgaatatcagccGccaccctactttccccctcc	7	8	7	19	3	1	0	1	0	0	0	4	2	3	1	7	1	2	0	7	1	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:55206380G>A	uc002xya.2	+	2	411	c.168G>A	c.(166-168)CCG>CCA	p.P56P	TFAP2C_uc010zzi.1_5'UTR	NM_003222	NP_003213	Q92754	AP2C_HUMAN	transcription factor AP-2 gamma	56	Gln/Pro-rich (transactivation domain).				cell-cell signaling|male gonad development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Colorectal(105;0.229)			AATATCAGCCGCCACCCTACT	0.687													12	44					0	0	0.00499	0	0		A	55206380	A	A	55206380	2	1	23	1	0	0	0	0	0	0	0	1	15814	1074	38	1		1	TFAP2C	20	55206380	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	5579772	55206380	7819140	1353	20681											
APCDD1L	164284	broad.mit.edu	37	chr20	57042206	57042206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagcccgtgggccggtagtGccgcctctccgccgggtcgg	2	7	17	15	6	1	0	0	0	1	0	3	0	1	0	6	4	2	2	6	4	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:57042206G>A	uc002xze.1	-	3	883	c.697C>T	c.(697-699)CAC>TAC	p.H233Y	APCDD1L_uc010zzp.1_Missense_Mutation_p.H244Y	NM_153360	NP_699191	Q8NCL9	APCDL_HUMAN	adenomatosis polyposis coli down-regulated	233						integral to membrane				ovary(1)	1	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)			GGCCGGTAGTGCCGCCTCTCC	0.741													9	33					0	0	0.003163	0	0		A	57042206	A	A	57042206	3	1	23	1	0	0	0	0	1	0	0	0	766	1319	46	2	816	2	APCDD1L	20	57042206	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1835826	57042206	5983314	1354	20682											
ZNF831	128611	broad.mit.edu	37	chr20	57769140	57769140	+	Frame_Shift_Del	DEL	G	-	-																															gggagaaaaggggcacagttGgggggggacaagggggacag																								rs55786258	by1000genomes	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:57769140delG	uc002yan.2	+	1	3066	c.3066delG	c.(3064-3066)TTGfs	p.L1022fs		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1022						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGGCACAGTTGGGGGGGGACA	0.682													18	28	---	---	---	---						.	-	57769140	-	-	57769140	7	5	23	1	0	1	0	1	0	0	0	0	18210	1339	47	0	3068	0	ZNF831	20	57769140	Frame_Shift_Del	DEL	G	TCGA-BR-4368-01A-01D-1158-08	726934	57769140	5256380	1355	20683											
TAF4	6874	broad.mit.edu	37	chr20	60585189	60585189	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgccgtcccaagtgaagcCgtctgggcagcgccacccag	7	5	13	16	4	1	1	0	1	1	0	3	1	2	1	5	1	2	1	5	1	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:60585189C>T	uc002ybs.2	-	4	1674	c.1674G>A	c.(1672-1674)ACG>ACA	p.T558T		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	558					interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			CAAGTGAAGCCGTCTGGGCAG	0.622													10	52					0	0	0.013537	0	0		T	60585189	T	T	60585189	2	4	23	1	0	0	0	0	0	0	0	1	15551	639	23	1		1	TAF4	20	60585189	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2816049	60585189	2440331	1356	20684											
SLCO4A1	28231	broad.mit.edu	37	chr20	61291766	61291766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgcctcttccacaggaCggagctgaccaccgagagcc	9	5	10	17	2	1	2	0	1	1	1	2	5	2	4	6	2	3	1	6	2	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:61291766C>T	uc002ydb.1	+	4	1095	c.890C>T	c.(889-891)ACG>ATG	p.T297M	SLCO4A1_uc002ydc.1_RNA	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	297	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)			TTCCACAGGACGGAGCTGACC	0.687													10	29					0	0	0.00245	0	0		T	61291766	T	T	61291766	3	4	23	1	0	0	0	0	1	0	0	0	14754	536	19	1	900	1	SLCO4A1	20	61291766	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	706577	61291766	1733754	1357	20685											
DIDO1	11083	broad.mit.edu	37	chr20	61528133	61528133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaccactcgatggggtagCggagagccatggcctcttgg	8	7	15	11	2	1	1	0	0	1	1	2	3	1	1	3	5	3	2	3	5	1	2	rs138811075		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:61528133C>T	uc002ydr.1	-	7	2068	c.1804G>A	c.(1804-1806)GCT>ACT	p.A602T	DIDO1_uc002yds.1_Missense_Mutation_p.A602T|DIDO1_uc002ydt.1_Missense_Mutation_p.A602T|DIDO1_uc002ydu.1_Missense_Mutation_p.A602T	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	602					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GATGGGGTAGCGGAGAGCCAT	0.592													11	120					0	0	0.004007	0	0		T	61528133	T	T	61528133	3	4	23	1	0	0	0	0	1	0	0	0	4528	768	27	1	4987	1	DIDO1	20	61528133	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	236367	61528133	1497387	1358	20686											
COL20A1	57642	broad.mit.edu	37	chr20	61944531	61944531	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagggaggcacacagagtaCgacgtcaccatcttggccta	11	7	11	12	2	2	1	1	0	1	1	2	3	2	2	2	3	1	2	2	3	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:61944531C>T	uc011aau.1	+	17	2239	c.2139C>T	c.(2137-2139)TAC>TAT	p.Y713Y	COL20A1_uc011aav.1_Silent_p.Y534Y	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	713	Fibronectin type-III 5.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					ACACAGAGTACGACGTCACCA	0.657													5	21					0	0	0.001168	0	0		T	61944531	T	T	61944531	2	4	23	1	0	0	0	0	0	0	0	1	3682	547	19	1		1	COL20A1	20	61944531	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	416398	61944531	1080989	1359	20687											
ZGPAT	84619	broad.mit.edu	37	chr20	62365068	62365068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgactcagacagcgacggtaCgggtgactccagctatgcca	10	6	12	13	4	1	2	1	1	0	1	2	4	2	2	2	2	4	2	2	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:62365068C>T	uc002ygk.2	+	4	1026	c.848C>T	c.(847-849)ACG>ATG	p.T283M	ZGPAT_uc002ygi.2_Missense_Mutation_p.T283M|ZGPAT_uc002ygj.2_Missense_Mutation_p.T283M|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Missense_Mutation_p.T283M|ZGPAT_uc002ygm.2_Intron|ZGPAT_uc002ygn.3_RNA|LIME1_uc011abi.1_5'Flank|LIME1_uc002ygp.3_5'Flank	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	283					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					AGCGACGGTACGGGTGACTCC	0.667													27	104					0	0	0.013726	0	0		T	62365068	T	T	62365068	3	4	23	1	0	0	0	0	1	0	0	0	17699	536	19	1	858	1	ZGPAT	20	62365068	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	420537	62365068	660452	1360	20688											
ZBTB46	140685	broad.mit.edu	37	chr20	62421359	62421359	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctctgagaaagagttctgtActgcaccgtccttggcagaa	10	10	11	10	1	2	3	0	1	2	3	3	4	3	3	2	1	2	5	2	1	3	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:62421359A>G	uc002ygv.1	-	2	953	c.752T>C	c.(751-753)GTA>GCA	p.V251A	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	251					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					AGAGTTCTGTACTGCACCGTC	0.587													4	58					0	0	0.009096	0	0		G	62421359	G	G	62421359	3	3	23	1	0	0	0	0	1	0	0	0	17572	391	14	3	1033	3	ZBTB46	20	62421359	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	56291	62421359	604161	1361	20689											
PCMTD2	55251	broad.mit.edu	37	chr20	62891516	62891516	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacattcacctctcagccccGtgcatctactcggaggtgat	9	10	8	14	2	3	1	2	1	2	0	5	2	3	2	3	2	4	1	3	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr20:62891516G>A	uc002yil.3	+	2	398	c.198G>A	c.(196-198)CCG>CCA	p.P66P	PCMTD2_uc002yim.3_Silent_p.P66P	NM_018257	NP_060727	Q9NV79	PCMD2_HUMAN	protein-L-isoaspartate (D-aspartate)	66						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					TCTCAGCCCCGTGCATCTACT	0.493													40	146					0	0	0.00874	0	0		A	62891516	A	A	62891516	2	1	23	1	0	0	0	0	0	0	0	1	11606	1132	40	1		1	PCMTD2	20	62891516	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	470157	62891516	134004	1362	20690											
BTG3	10950	broad.mit.edu	37	chr21	18966420	18966420	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaacgaagttagtgaggTgctaacatgtgaggattaat	16	10	11	4	1	0	2	0	2	0	0	0	4	0	3	0	2	3	2	0	2	6	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:18966420T>C	uc002ykk.2	-	5	1010	c.750A>G	c.(748-750)GCA>GCG	p.A250A	BTG3_uc002ykl.2_Silent_p.A294A	NM_006806	NP_006797	Q14201	BTG3_HUMAN	B-cell translocation gene 3 isoform b	250					negative regulation of cell proliferation|negative regulation of mitotic cell cycle	cytoplasm					0				Epithelial(23;0.000283)|all cancers(11;0.0012)|Lung(58;0.0191)|OV - Ovarian serous cystadenocarcinoma(11;0.0206)|COAD - Colon adenocarcinoma(22;0.0315)|LUSC - Lung squamous cell carcinoma(23;0.0703)|Colorectal(24;0.0971)		GTTAGTGAGGTGCTAACATGT	0.373													4	55					0	0	0.009096	0	0		C	18966420	C	C	18966420	2	2	23	1	0	0	0	0	0	0	0	1	1558	1683	59	3		3	BTG3	21	18966420	Silent	SNP	T	TCGA-BR-4368-01A-01D-1158-08		18966420	29163475	1363	20691											
NCAM2	4685	broad.mit.edu	37	chr21	22906922	22906922	+	Nonsense_Mutation	SNP	G	T	T																															atgaaagagttactaatcacGaagatgggagcccagtaaat																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:22906922G>T	uc002yld.1	+	17	2596	c.2347G>T	c.(2347-2349)GAA>TAA	p.E783*	NCAM2_uc011acb.1_Nonsense_Mutation_p.E641*	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	783	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TACTAATCACGAAGATGGGAG	0.413													7	53					5.18039e-06	5.36894e-06	0.00308	1	0		T	22906922	T	T	22906922	4	4	23	1	0	0	0	0	0	1	0	0	10222	1059	37	5	2413	5	NCAM2	21	22906922	Nonsense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3940502	22906922	25222973	1364	20692	34	2									
NCAM2	4685	broad.mit.edu	37	chr21	22906925	22906925	+	Missense_Mutation	SNP	G	A	A																															aaagagttactaatcacgaaGatgggagcccagtaaatgag																										TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:22906925G>A	uc002yld.1	+	17	2599	c.2350G>A	c.(2350-2352)GAT>AAT	p.D784N	NCAM2_uc011acb.1_Missense_Mutation_p.D642N	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	784	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TAATCACGAAGATGGGAGCCC	0.413													7	51					0	0	0.00308	0	0		A	22906925	A	A	22906925	3	1	23	1	0	0	0	0	1	0	0	0	10222	942	33	4	2416	4	NCAM2	21	22906925	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3	22906925	25222970	1365	20693	34	2									
RWDD2B	10069	broad.mit.edu	37	chr21	30380587	30380587	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaatttcaggcagaactgcCgggtatttaaagggaagaat	14	10	12	5	1	1	2	1	0	0	2	1	3	1	3	1	3	2	3	1	3	7	5	rs145317909	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:30380587C>T	uc002yms.2	-	3	423	c.336G>A	c.(334-336)CCG>CCA	p.P112P	RWDD2B_uc002ymt.2_Silent_p.P83P|RWDD2B_uc002ymu.2_Intron|RWDD2B_uc002ymv.2_Silent_p.P32P	NM_016940	NP_058636	P57060	RWD2B_HUMAN	RWD domain containing 2B	112	RWD.										0						GCAGAACTGCCGGGTATTTAA	0.383													21	72					0	0	0.010504	0	0		T	30380587	T	T	30380587	2	4	23	1	0	0	0	0	0	0	0	1	13781	639	23	1		1	RWDD2B	21	30380587	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	7473662	30380587	17749308	1366	20694											
BACH1	571	broad.mit.edu	37	chr21	30701983	30701983	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagagaaaacttgactgtaTacagaatcttgaatcagaaa	19	9	7	6	0	2	5	1	2	1	3	2	6	2	5	0	0	2	1	0	0	8	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:30701983T>C	uc002ynj.2	+	4	1860	c.1745T>C	c.(1744-1746)ATA>ACA	p.I582T	BACH1_uc002ynk.2_Missense_Mutation_p.I582T|BACH1_uc002ynl.2_RNA	NM_001186	NP_001177	O14867	BACH1_HUMAN	BTB and CNC homology 1 transcription factor	582						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|liver(1)	2						CTTGACTGTATACAGAATCTT	0.348													3	20					0	0	0.004672	0	0		C	30701983	C	C	30701983	3	2	23	1	0	0	0	0	1	0	0	0	1284	1406	49	3	1755	3	BACH1	21	30701983	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	321396	30701983	17427912	1367	20695											
TIAM1	7074	broad.mit.edu	37	chr21	32638992	32638992	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcagtgtaagacacaggTctcaagcccatgtccactcg	11	8	10	12	1	2	1	2	0	1	1	5	2	3	1	2	1	1	1	2	1	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:32638992T>G	uc002yow.1	-	5	769	c.297A>C	c.(295-297)AGA>AGC	p.R99S	TIAM1_uc011adk.1_Missense_Mutation_p.R99S|TIAM1_uc011adl.1_Missense_Mutation_p.R99S|TIAM1_uc002yox.1_Intron	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	99					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						AAGACACAGGTCTCAAGCCCA	0.572													14	69					0	0	0.00499	0	0		G	32638992	G	G	32638992	3	3	23	1	0	0	0	0	1	0	0	0	15915	1664	58	5	4578	5	TIAM1	21	32638992	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1937009	32638992	15490903	1368	20696											
SFRS15	57466	broad.mit.edu	37	chr21	33063217	33063217	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taacaccaagttctacatccCaatactgcttataatctgcc	13	12	3	13	0	2	0	0	0	2	0	3	0	3	0	3	0	5	2	3	0	7	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:33063217C>A	uc002ypd.2	-	15	2204	c.1778G>T	c.(1777-1779)TGG>TTG	p.W593L	SFRS15_uc002ype.2_Missense_Mutation_p.W593L|SFRS15_uc010glu.2_Missense_Mutation_p.W578L|SFRS15_uc002ypf.1_Missense_Mutation_p.W267L	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	593						nucleus	nucleotide binding|RNA binding				0						TTCTACATCCCAATACTGCTT	0.383													23	88					1.28384e-07	1.34803e-07	0.012319	1	0		A	33063217	A	A	33063217	3	1	23	1	0	0	0	0	1	0	0	0	14196	595	21	5	1689	5	SFRS15	21	33063217	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	424225	33063217	15066678	1369	20697											
IFNAR1	3454	broad.mit.edu	37	chr21	34697419	34697419	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgccgtggcgccatgggTgttgtccgcagccgcaggtg	3	8	17	13	6	0	0	0	0	0	0	2	0	1	0	4	3	1	3	4	3	0	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:34697419T>C	uc002yrn.2	+	1	206	c.59T>C	c.(58-60)GTG>GCG	p.V20A	IFNAR1_uc011adv.1_Intron	NM_000629	NP_000620	P17181	INAR1_HUMAN	interferon-alpha receptor 1 precursor	20					JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	integral to plasma membrane	type I interferon receptor activity			central_nervous_system(1)|skin(1)	2					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	GCGCCATGGGTGTTGTCCGCA	0.692													6	13					0	0	0.001984	0	0		C	34697419	C	C	34697419	3	2	23	1	0	0	0	0	1	0	0	0	7560	1696	59	3	61	3	IFNAR1	21	34697419	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1634202	34697419	13432476	1370	20698											
IFNAR1	3454	broad.mit.edu	37	chr21	34713411	34713411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttatgaagaaattaaattgCgtataagagcagaaaaagaa	21	10	8	2	1	0	5	0	1	0	4	0	5	0	5	0	0	2	2	0	0	10	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:34713411C>T	uc002yrn.2	+	3	454	c.307C>T	c.(307-309)CGT>TGT	p.R103C	IFNAR1_uc011adv.1_Missense_Mutation_p.R34C	NM_000629	NP_000620	P17181	INAR1_HUMAN	interferon-alpha receptor 1 precursor	103	Extracellular (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	integral to plasma membrane	type I interferon receptor activity			central_nervous_system(1)|skin(1)	2					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	AATTAAATTGCGTATAAGAGC	0.328													16	67					0	0	0.004007	0	0		T	34713411	T	T	34713411	3	4	23	1	0	0	0	0	1	0	0	0	7560	768	27	1	317	1	IFNAR1	21	34713411	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	15992	34713411	13416484	1371	20699											
DONSON	29980	broad.mit.edu	37	chr21	34951696	34951696	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgcaggcagatgttaaatAcagcagttggctcgtgtgga	10	12	13	6	1	0	1	0	0	0	1	1	2	0	2	0	3	3	6	0	3	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:34951696A>G	uc002ysk.2	-	9	1590	c.1523T>C	c.(1522-1524)GTA>GCA	p.V508A	DONSON_uc002ysi.1_Missense_Mutation_p.V268A|DONSON_uc002ysj.2_Missense_Mutation_p.V141A|DONSON_uc002ysl.2_Missense_Mutation_p.V141A|DONSON_uc010gme.2_Missense_Mutation_p.V481A|DONSON_uc002ysm.2_Missense_Mutation_p.V508A	NM_017613	NP_060083	Q9NYP3	DONS_HUMAN	downstream neighbor of SON	508					multicellular organismal development	nucleus				ovary(1)|central_nervous_system(1)	2						GATGTTAAATACAGCAGTTGG	0.438													5	126					0	0	0.001168	0	0		G	34951696	G	G	34951696	3	3	23	1	0	0	0	0	1	0	0	0	4712	391	14	3	185	3	DONSON	21	34951696	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	238285	34951696	13178199	1372	20700											
DOPEY2	9980	broad.mit.edu	37	chr21	37571453	37571453	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgtttgcaccctgcccTgcccagtggtgtccacttaa	6	12	9	14	0	1	0	1	0	0	0	2	0	2	0	4	1	3	2	4	1	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:37571453T>A	uc002yvg.2	+	3	303	c.224T>A	c.(223-225)CTG>CAG	p.L75Q	DOPEY2_uc011aeb.1_Missense_Mutation_p.L75Q	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	75					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						CACCCTGCCCTGCCCAGTGGT	0.488													19	65					0	0	0.007413	0	0		A	37571453	A	A	37571453	3	1	23	1	0	0	0	0	1	0	0	0	4714	1580	55	5	230	5	DOPEY2	21	37571453	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	2619757	37571453	10558442	1373	20701											
DOPEY2	9980	broad.mit.edu	37	chr21	37664445	37664445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggacacagagggccctGccttcctgtcggatgtagag	9	8	14	10	1	0	2	0	0	0	2	2	4	1	4	3	3	1	1	3	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:37664445G>A	uc002yvg.2	+	36	6638	c.6559G>A	c.(6559-6561)GCC>ACC	p.A2187T	DOPEY2_uc011aeb.1_Missense_Mutation_p.A2136T	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	2187					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						AGAGGGCCCTGCCTTCCTGTC	0.458													6	141					0	0	0.001984	0	0		A	37664445	A	A	37664445	3	1	23	1	0	0	0	0	1	0	0	0	4714	1319	46	2	6697	2	DOPEY2	21	37664445	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	92992	37664445	10465450	1374	20702											
DSCAM	1826	broad.mit.edu	37	chr21	41719642	41719642	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagcggacagcttgtcctTgcgcacaaagcactggtatg	9	10	12	10	2	0	1	0	1	0	0	1	2	1	2	1	2	4	4	1	2	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:41719642T>C	uc002yyq.1	-	6	1617	c.1165A>G	c.(1165-1167)AAG>GAG	p.K389E	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	389	Extracellular (Potential).|Ig-like C2-type 4.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				AGCTTGTCCTTGCGCACAAAG	0.507													8	304					0	0	0.00308	0	0		C	41719642	C	C	41719642	3	2	23	1	0	0	0	0	1	0	0	0	4774	1821	63	3	4985	3	DSCAM	21	41719642	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	4055197	41719642	6410253	1375	20703											
DSCAM	1826	broad.mit.edu	37	chr21	41725614	41725614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagctccacacgctgcccagCcatggctttgcgatggtcaa	8	8	10	15	2	1	0	1	0	0	0	2	1	2	0	3	2	4	3	3	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:41725614C>T	uc002yyq.1	-	5	1164	c.712G>A	c.(712-714)GCT>ACT	p.A238T	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	238	Extracellular (Potential).|Ig-like C2-type 3.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CGCTGCCCAGCCATGGCTTTG	0.547													10	20					0	0	0.006214	0	0		T	41725614	T	T	41725614	3	4	23	1	0	0	0	0	1	0	0	0	4774	739	26	2	5442	2	DSCAM	21	41725614	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5972	41725614	6404281	1376	20704											
POFUT2	23275	broad.mit.edu	37	chr21	46703350	46703350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctgatcaatacacggccGctcgtccaccttctcttccc	7	10	7	17	3	2	1	1	1	1	0	6	2	4	1	4	1	2	2	4	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:46703350G>A	uc002zhc.2	-	3	500	c.475C>T	c.(475-477)CGG>TGG	p.R159W	POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Missense_Mutation_p.R159W|POFUT2_uc011afp.1_Missense_Mutation_p.R159W	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	159					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)		ATACACGGCCGCTCGTCCACC	0.527													80	228					0	0	0.01441	0	0		A	46703350	A	A	46703350	3	1	23	1	0	0	0	0	1	0	0	0	12203	1086	38	1	981	1	POFUT2	21	46703350	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4977736	46703350	1426545	1377	20705											
COL18A1	80781	broad.mit.edu	37	chr21	46896330	46896330	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgccacccttggctggaggCagcagcacggaagattccag	10	5	13	13	2	0	1	0	0	0	1	1	3	1	3	3	4	2	4	3	4	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:46896330C>T	uc011afs.1	+	5	2130	c.2109C>T	c.(2107-2109)GGC>GGT	p.G703G	COL18A1_uc002zhg.2_Silent_p.G288G|COL18A1_uc002zhi.2_Silent_p.G468G	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	703	Nonhelical region 1 (NC1).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		TGGCTGGAGGCAGCAGCACGG	0.567													8	35					0	0	0.008291	0	0		T	46896330	T	T	46896330	2	4	23	1	0	0	0	0	0	0	0	1	3678	697	25	2		2	COL18A1	21	46896330	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	192980	46896330	1233565	1378	20706											
PCNT	5116	broad.mit.edu	37	chr21	47746486	47746486	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacccctgatggggcaggaGgggcctttgcagctcaggta	8	7	15	11	0	1	1	1	1	0	0	1	2	1	2	3	6	2	4	3	6	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr21:47746486G>T	uc002zji.3	+	2	357	c.250G>T	c.(250-252)GGG>TGG	p.G84W	PCNT_uc002zjj.2_Translation_Start_Site|C21orf58_uc011afx.1_5'Flank|C21orf58_uc002zjf.2_5'Flank|C21orf58_uc010gqj.1_5'Flank|C21orf58_uc002zjg.1_5'Flank	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	84					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TGGGGCAGGAGGGGCCTTTGC	0.483													22	104					5.26018e-13	5.67572e-13	0.012319	1	0		T	47746486	T	T	47746486	3	4	23	1	0	0	0	0	1	0	0	0	11609	1000	35	5	256	5	PCNT	21	47746486	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	850156	47746486	383409	1379	20707											
MICAL3	57553	broad.mit.edu	37	chr22	18305761	18305761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgggtccccatcctctgctgCctccccttctatctcggctg	2	13	8	18	1	3	0	0	0	3	0	7	0	6	0	6	2	2	2	6	2	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:18305761C>T	uc002zng.3	-	23	3612	c.3259G>A	c.(3259-3261)GCA>ACA	p.A1087T	MICAL3_uc011agl.1_Intron	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	1087	Glu-rich.					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		TCCTCTGCTGCCTCCCCTTCT	0.572													14	47					0	0	0.007413	0	0		T	18305761	T	T	18305761	3	4	23	1	0	0	0	0	1	0	0	0	9589	739	26	2	2789	2	MICAL3	22	18305761	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08		18305761	32998805	1380	20708											
HIRA	7290	broad.mit.edu	37	chr22	19319037	19319037	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcggaggttctgcccgaTgactggtagcagctccttca	8	10	12	11	2	2	1	1	1	1	0	4	4	3	2	2	3	3	4	2	3	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:19319037T>C	uc002zpf.1	-	25	3200	c.2980A>G	c.(2980-2982)ATC>GTC	p.I994V	HIRA_uc011agx.1_Missense_Mutation_p.H830R|HIRA_uc010grn.1_Missense_Mutation_p.I787V|HIRA_uc010gro.1_Missense_Mutation_p.I950V	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	994	Interaction with histone H4.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					TTCTGCCCGATGACTGGTAGC	0.592													15	41					0	0	0.006122	0	0		C	19319037	C	C	19319037	3	2	23	1	0	0	0	0	1	0	0	0	7136	1464	51	3	77	3	HIRA	22	19319037	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	1013276	19319037	31985529	1381	20709											
HIRA	7290	broad.mit.edu	37	chr22	19371200	19371200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccggccatctgctgtcCgagtctcaacttgtttcttc	4	16	7	14	2	4	0	1	0	4	0	8	1	5	0	3	1	2	2	3	1	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:19371200C>T	uc002zpf.1	-	13	1578	c.1358G>A	c.(1357-1359)CGG>CAG	p.R453Q	HIRA_uc011agx.1_Missense_Mutation_p.R319Q|HIRA_uc010grn.1_Missense_Mutation_p.R453Q|HIRA_uc010gro.1_Missense_Mutation_p.R409Q|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	453	Interaction with CCNA1.|Interaction with ASF1A.|Required for repression of histone gene transcription.			Missing: Impairs binding to ASF1A.	chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					ATCTGCTGTCCGAGTCTCAAC	0.418													36	91					0	0	0.004289	0	0		T	19371200	T	T	19371200	3	4	23	1	0	0	0	0	1	0	0	0	7136	652	23	1	1747	1	HIRA	22	19371200	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	52163	19371200	31933366	1382	20710											
TXNRD2	10587	broad.mit.edu	37	chr22	19868175	19868175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcagatctgaggacccGccgaagagccgctgcaccag	10	5	11	15	3	2	3	1	1	1	2	3	5	3	4	5	1	2	2	5	1	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:19868175G>A	uc011ahc.1	-	13	1185	c.1152C>T	c.(1150-1152)GGC>GGT	p.G384G	TXNRD2_uc002zql.1_Silent_p.G138G|TXNRD2_uc002zqm.1_RNA|TXNRD2_uc002zqn.1_RNA|TXNRD2_uc002zqo.1_RNA|TXNRD2_uc002zqp.1_RNA|TXNRD2_uc002zqr.1_Silent_p.G383G|TXNRD2_uc002zqj.1_RNA|TXNRD2_uc002zqq.1_Silent_p.G34G	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor	384					cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					CTGAGGACCCGCCGAAGAGCC	0.632													9	24					0	0	0.008291	0	0		A	19868175	A	A	19868175	2	1	23	1	0	0	0	0	0	0	0	1	16834	1074	38	1		1	TXNRD2	22	19868175	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	496975	19868175	31436391	1383	20711											
HIC2	23119	broad.mit.edu	37	chr22	21799992	21799992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccacctcactcccgatgacGcagcccagctgagcgacagc	9	4	9	19	3	1	2	1	2	0	0	2	4	2	2	4	0	4	2	4	0	0	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:21799992G>A	uc002zur.3	+	3	1038	c.808G>A	c.(808-810)GCA>ACA	p.A270T	HIC2_uc002zus.3_Missense_Mutation_p.A270T	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	270					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				TCCCGATGACGCAGCCCAGCT	0.672													18	67					0	0	0.008361	0	0		A	21799992	A	A	21799992	3	1	23	1	0	0	0	0	1	0	0	0	7118	1087	38	1	814	1	HIC2	22	21799992	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1931817	21799992	29504574	1384	20712											
ZNF70	7621	broad.mit.edu	37	chr22	24086656	24086656	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcccgcattccctgcactcGtagggcctctttccggtgtg	3	13	10	15	3	1	0	0	0	1	0	5	0	4	0	4	2	1	3	4	2	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:24086656G>A	uc002zxs.2	-	2	1133	c.672C>T	c.(670-672)TAC>TAT	p.Y224Y	ZNF70_uc002zxr.1_5'Flank	NM_021916	NP_068735	Q9UC06	ZNF70_HUMAN	zinc finger protein 70	224	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						CCCTGCACTCGTAGGGCCTCT	0.562													15	80					0	0	0.00245	0	0		A	24086656	A	A	24086656	2	1	23	1	0	0	0	0	0	0	0	1	18128	1140	40	1		1	ZNF70	22	24086656	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2286664	24086656	27217910	1385	20713											
ADRBK2	157	broad.mit.edu	37	chr22	26114215	26114215	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattttgtattcctcagattAcgctctggggaaggactgta	9	14	11	7	1	2	1	1	0	1	1	3	4	3	3	1	3	1	3	1	3	4	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:26114215A>G	uc003abx.3	+	19	1805	c.1658A>G	c.(1657-1659)TAC>TGC	p.Y553C	ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	553							ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	TCCTCAGATTACGCTCTGGGG	0.403													7	172					0	0	0.004482	0	0		G	26114215	G	G	26114215	3	3	23	1	0	0	0	0	1	0	0	0	344	391	14	3	1732	3	ADRBK2	22	26114215	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2027559	26114215	25190351	1386	20714											
ADRBK2	157	broad.mit.edu	37	chr22	26117303	26117303	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtggaagaaactcaaattaAagacaaaaaatgcattttgt	19	11	7	4	0	1	2	1	0	0	2	1	3	1	3	0	1	2	1	0	1	8	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:26117303A>T	uc003abx.3	+	20	1991	c.1844A>T	c.(1843-1845)AAA>ATA	p.K615I	ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	615	PH.						ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	ACTCAAATTAAAGACAAAAAA	0.274													10	75					0	0	0.010729	0	0		T	26117303	T	T	26117303	3	4	23	1	0	0	0	0	1	0	0	0	344	14	1	5	1922	5	ADRBK2	22	26117303	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	3088	26117303	25187263	1387	20715											
TFIP11	24144	broad.mit.edu	37	chr22	26888055	26888055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggacaaagaccactcccCggtcgatgtagatcacaatg	12	7	9	13	2	1	2	1	0	0	2	3	4	2	3	4	2	0	1	4	2	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:26888055C>T	uc003acr.2	-	14	2812	c.2438G>A	c.(2437-2439)CGG>CAG	p.R813Q	TFIP11_uc003acq.2_Missense_Mutation_p.R172Q|TFIP11_uc003acs.2_Missense_Mutation_p.R813Q|TFIP11_uc003act.2_Missense_Mutation_p.R813Q|uc003acu.1_RNA	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	813					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						GACCACTCCCCGGTCGATGTA	0.567													8	31					0	0	0.004482	0	0		T	26888055	T	T	26888055	3	4	23	1	0	0	0	0	1	0	0	0	15832	652	23	1	79	1	TFIP11	22	26888055	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	770752	26888055	24416511	1388	20716											
CRYBB1	1414	broad.mit.edu	37	chr22	26997907	26997907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagacccagagactgggtgCgtcgtccccctggatctcta	7	9	12	13	2	1	2	0	0	1	2	4	4	2	3	3	2	1	1	3	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:26997907C>T	uc003acy.1	-	5	581	c.511G>A	c.(511-513)GCA>ACA	p.A171T		NM_001887	NP_001878	P53674	CRBB1_HUMAN	crystallin, beta B1	171	Beta/gamma crystallin 'Greek key' 3.				visual perception		structural constituent of eye lens			ovary(1)	1						AGACTGGGTGCGTCGTCCCCC	0.612													23	40					0	0	0.00333	0	0		T	26997907	T	T	26997907	3	4	23	1	0	0	0	0	1	0	0	0	3913	768	27	1	255	1	CRYBB1	22	26997907	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	109852	26997907	24306659	1389	20717											
EMID1	129080	broad.mit.edu	37	chr22	29654828	29654828	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagagctggggtctggggcGggccctgccggcacaggcac	5	4	18	14	2	1	1	0	0	1	1	1	1	1	1	3	7	2	3	3	7	0	0	rs138894145		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:29654828G>A	uc003aen.2	+	15	1296	c.1221G>A	c.(1219-1221)GCG>GCA	p.A407A	EMID1_uc003aem.2_Silent_p.A409A|EMID1_uc003aeo.2_Silent_p.A411A|EMID1_uc003aep.2_Silent_p.A388A	NM_133455	NP_597712	Q96A84	EMID1_HUMAN	EMI domain containing 1	407						collagen					0						GGTCTGGGGCGGGCCCTGCCG	0.677													10	59					0	0	0.003163	0	0		A	29654828	A	A	29654828	2	1	23	1	0	0	0	0	0	0	0	1	5099	1103	39	1		1	EMID1	22	29654828	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	2656921	29654828	21649738	1390	20718											
OSBP2	23762	broad.mit.edu	37	chr22	31289636	31289636	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcgccagtcaggggacatCgagattgtgaaccataagac	12	8	11	10	2	1	3	1	1	0	2	3	5	1	4	2	2	1	0	2	2	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:31289636C>T	uc003aiy.1	+	11	2210	c.2106C>T	c.(2104-2106)ATC>ATT	p.I702I	OSBP2_uc011ala.1_Silent_p.I536I|OSBP2_uc010gwc.1_Silent_p.I529I|OSBP2_uc011alb.1_Silent_p.I653I|OSBP2_uc003aiz.1_Silent_p.I701I|OSBP2_uc003aja.1_Silent_p.I335I|OSBP2_uc011alc.1_Silent_p.I444I|OSBP2_uc003ajb.2_Silent_p.I247I|OSBP2_uc011ald.1_Silent_p.I246I|OSBP2_uc010gwd.1_Silent_p.I247I	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	702					lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						CAGGGGACATCGAGATTGTGA	0.627													13	79					0	0	0.003163	0	0		T	31289636	T	T	31289636	2	4	23	1	0	0	0	0	0	0	0	1	11293	874	31	1		1	OSBP2	22	31289636	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1634808	31289636	20014930	1391	20719											
SFI1	9814	broad.mit.edu	37	chr22	31971347	31971347	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaactggccaggaagatggcCctgcggcgcgcctttactca	9	7	12	13	3	1	1	1	0	0	1	1	2	1	2	3	4	3	0	3	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:31971347C>A	uc003ale.2	+	10	1446	c.1053C>A	c.(1051-1053)GCC>GCA	p.A351A	SFI1_uc003ald.1_Silent_p.A327A|SFI1_uc003alf.2_Silent_p.A351A|SFI1_uc003alg.2_Silent_p.A269A|SFI1_uc011alp.1_Silent_p.A269A|SFI1_uc011alq.1_Silent_p.A327A|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_RNA	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	351	HAT 4.				G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						GGAAGATGGCCCTGCGGCGCG	0.562													12	72					0.00185496	0.00188868	0.001855	1	0		A	31971347	A	A	31971347	2	1	23	1	0	0	0	0	0	0	0	1	14181	610	22	5		5	SFI1	22	31971347	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	681711	31971347	19333219	1392	20720											
APOL3	80833	broad.mit.edu	37	chr22	36537739	36537739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtgtatgagtgctccaCgatgctggtggtgatcccag	7	12	14	8	1	0	3	0	3	0	0	2	4	2	3	2	2	2	3	2	2	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:36537739C>T	uc003aot.2	-	3	756	c.718G>A	c.(718-720)GTG>ATG	p.V240M	APOL3_uc003aoq.2_Missense_Mutation_p.V169M|APOL3_uc003aor.2_Missense_Mutation_p.V169M|APOL3_uc003aos.2_Missense_Mutation_p.V169M|APOL3_uc003aou.2_Missense_Mutation_p.V40M|APOL3_uc003aov.2_Missense_Mutation_p.V40M	NM_145640	NP_663615	O95236	APOL3_HUMAN	apolipoprotein L3 isoform 1	240					inflammatory response|lipoprotein metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|extracellular region	lipid binding|lipid transporter activity|signal transducer activity				0						GAGTGCTCCACGATGCTGGTG	0.532													15	44					0	0	0.00245	0	0		T	36537739	T	T	36537739	3	4	23	1	0	0	0	0	1	0	0	0	807	536	19	1	494	1	APOL3	22	36537739	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4566392	36537739	14766827	1393	20721											
C22orf33	339669	broad.mit.edu	37	chr22	37387547	37387547	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcatccgtcttcctgccatgCcagtgttctaagtccctcac	6	13	6	16	1	4	0	2	0	2	0	7	0	7	0	5	0	2	1	5	0	1	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:37387547C>T	uc003aqf.2	-	5	866	c.720G>A	c.(718-720)TGG>TGA	p.W240*	C22orf33_uc003aqe.2_Nonsense_Mutation_p.W155*	NM_001163857	NP_001157329	O43247	EAN57_HUMAN	hypothetical protein LOC339669 isoform 1	240											0						TCCTGCCATGCCAGTGTTCTA	0.542													32	163					0	0	0.013726	0	0		T	37387547	T	T	37387547	4	4	23	1	0	0	0	0	0	1	0	0	2148	740	26	2	130	2	C22orf33	22	37387547	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	849808	37387547	13917019	1394	20722											
POLR2F	5435	broad.mit.edu	37	chr22	38363644	38363644	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgccacagggcccgaaagatCcccatcatcattcgccgtta	10	8	8	15	3	2	1	2	0	0	1	4	2	3	1	5	1	1	1	5	1	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:38363644C>T	uc003aul.2	+	5	427	c.306C>T	c.(304-306)ATC>ATT	p.I102I	POLR2F_uc010gxi.2_3'UTR|POLR2F_uc003aum.2_Intron	NM_021974	NP_068809	P61218	RPAB2_HUMAN	DNA directed RNA polymerase II polypeptide F	102					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase II promoter|transcription elongation from RNA polymerase III promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex|nucleolus	DNA binding|DNA-directed RNA polymerase activity			breast(1)	1	Melanoma(58;0.045)					CCCGAAAGATCCCCATCATCA	0.562													26	73					0	0	0.00632	0	0		T	38363644	T	T	38363644	2	4	23	1	0	0	0	0	0	0	0	1	12238	845	30	4		4	POLR2F	22	38363644	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	976097	38363644	12940922	1395	20723											
CYP2D6	1565	broad.mit.edu	37	chr22	42524899	42524899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtgagggaggcgatcaCgttgctcacggctttgtcca	7	9	15	10	3	2	1	2	1	0	0	3	3	3	2	1	4	1	4	1	4	0	2	rs77578877		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:42524899C>T	uc003bce.2	-	4	643	c.553G>A	c.(553-555)GTG>ATG	p.V185M	uc003bcd.1_Intron|CYP2D6_uc010gyu.2_Translation_Start_Site|CYP2D6_uc003bcf.2_Missense_Mutation_p.V134M	NM_000106	NP_000097	Q6NWU0	Q6NWU0_HUMAN	cytochrome P450, family 2, subfamily D,	185							electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen			breast(1)|skin(1)	2						GAGGCGATCACGTTGCTCACG	0.672													3	8					0	0	0.004672	0	0		T	42524899	T	T	42524899	3	4	23	1	0	0	0	0	1	0	0	0	4172	536	19	1	964	1	CYP2D6	22	42524899	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4161255	42524899	8779667	1396	20724											
MPPED1	758	broad.mit.edu	37	chr22	43870822	43870822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcaccgtgcggggcttcCggatctatggctccccatgg	5	9	14	13	3	2	0	1	0	1	0	4	1	4	1	4	6	1	2	4	6	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:43870822C>T	uc011apv.1	+	4	836	c.613C>T	c.(613-615)CGG>TGG	p.R205W	MPPED1_uc011apw.1_Missense_Mutation_p.R99W|MPPED1_uc011apx.1_Missense_Mutation_p.R47W|MPPED1_uc011apy.1_Missense_Mutation_p.R205W|MPPED1_uc011apz.1_Missense_Mutation_p.R238W	NM_001044370	NP_001037835	O15442	MPPD1_HUMAN	metallophosphoesterase domain containing 1	205							hydrolase activity				0		all_neural(38;0.0244)|Ovarian(80;0.0694)				GCGGGGCTTCCGGATCTATGG	0.498													17	42					0	0	0.006122	0	0		T	43870822	T	T	43870822	3	4	23	1	0	0	0	0	1	0	0	0	9759	643	23	1	623	1	MPPED1	22	43870822	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1345923	43870822	7433744	1397	20725											
SMC1B	27127	broad.mit.edu	37	chr22	45755790	45755790	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctaatcgtttctgttcCagagaagtttgaatacttac	10	17	6	8	1	2	2	0	1	2	1	5	3	3	2	1	0	2	3	1	0	5	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:45755790C>T	uc003bgc.2	-	18	2809	c.2757G>A	c.(2755-2757)CTG>CTA	p.L919L	SMC1B_uc003bgd.2_Silent_p.L919L	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	919	Potential.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GTTTCTGTTCCAGAGAAGTTT	0.363													14	60					0	0	0.001855	0	0		T	45755790	T	T	45755790	2	4	23	1	0	0	0	0	0	0	0	1	14807	581	21	4		4	SMC1B	22	45755790	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1884968	45755790	5548776	1398	20726											
SMC1B	27127	broad.mit.edu	37	chr22	45809346	45809346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctcagttaccagagcCgttggggccgatgatgcagg	8	8	15	10	2	1	2	1	1	0	1	1	3	1	2	3	3	5	5	3	3	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:45809346C>T	uc003bgc.2	-	1	155	c.103G>A	c.(103-105)GGC>AGC	p.G35S	SMC1B_uc003bgd.2_Missense_Mutation_p.G35S|RIBC2_uc011aqs.1_5'Flank	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	35	ATP (Potential).				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TTACCAGAGCCGTTGGGGCCG	0.687													4	12					0	0	0.009096	0	0		T	45809346	T	T	45809346	3	4	23	1	0	0	0	0	1	0	0	0	14807	652	23	1	3704	1	SMC1B	22	45809346	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	53556	45809346	5495220	1399	20727											
FBLN1	2192	broad.mit.edu	37	chr22	45996231	45996231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgggcccatttcatgccGtcctgaagctggagatgaac	8	10	12	11	2	1	3	1	2	0	1	3	4	2	3	3	2	3	1	3	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:45996231G>A	uc003bgj.1	+	17	2164	c.2017G>A	c.(2017-2019)GTC>ATC	p.V673I	FBLN1_uc003bgk.1_RNA	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	673					interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		ATTTCATGCCGTCCTGAAGCT	0.577													95	372					0	0	0.01441	0	0		A	45996231	A	A	45996231	3	1	23	1	0	0	0	0	1	0	0	0	5712	1145	40	1	2563	1	FBLN1	22	45996231	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	186885	45996231	5308335	1400	20728											
FBLN1	2192	broad.mit.edu	37	chr22	45996292	45996292	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcccaccgaaatgttgtcaAcgtccacatcttcgtctctg	8	12	6	15	3	3	0	1	0	2	0	7	1	5	0	3	0	1	1	3	0	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:45996292A>G	uc003bgj.1	+	17	2225	c.2078A>G	c.(2077-2079)AAC>AGC	p.N693S	FBLN1_uc003bgk.1_RNA	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	693					interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		AATGTTGTCAACGTCCACATC	0.597													12	297					0	0	0.010729	0	0		G	45996292	G	G	45996292	3	3	23	1	0	0	0	0	1	0	0	0	5712	43	2	3	2624	3	FBLN1	22	45996292	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	61	45996292	5308274	1401	20729											
PIM3	415116	broad.mit.edu	37	chr22	50356388	50356388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccgctaccaccgctaccacgGgcgctcggccaccgtgtggt	5	6	12	18	6	0	0	0	0	0	0	1	0	0	0	6	3	2	3	6	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:50356388G>A	uc003bjb.2	+	5	1121	c.668G>A	c.(667-669)GGG>GAG	p.G223E	PIM3_uc011arj.1_5'UTR	NM_001001852	NP_001001852	Q86V86	PIM3_HUMAN	serine/threonine protein kinase pim-3	223	Protein kinase.				cell cycle|negative regulation of apoptosis|regulation of mitotic cell cycle		ATP binding|protein binding|protein serine/threonine kinase activity				0		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.196)|LUAD - Lung adenocarcinoma(64;0.247)		CGCTACCACGGGCGCTCGGCC	0.667													4	73					0	0	0.001984	0	0		A	50356388	A	A	50356388	3	1	23	1	0	0	0	0	1	0	0	0	11948	1232	43	4	686	4	PIM3	22	50356388	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4360096	50356388	948178	1402	20730											
PANX2	56666	broad.mit.edu	37	chr22	50615790	50615790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagaagtacctggagcgcCgcggccgcagcaacttcctg	8	6	13	14	5	0	1	0	0	0	1	2	3	1	2	4	2	4	3	4	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:50615790C>T	uc003bjn.3	+	2	649	c.649C>T	c.(649-651)CGC>TGC	p.R217C	PANX2_uc003bjp.3_Missense_Mutation_p.R83C|PANX2_uc003bjo.3_Missense_Mutation_p.R217C	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	217	Cytoplasmic (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		CCTGGAGCGCCGCGGCCGCAG	0.652													7	11					0	0	0.001984	0	0		T	50615790	T	T	50615790	3	4	23	1	0	0	0	0	1	0	0	0	11440	652	23	1	655	1	PANX2	22	50615790	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	259402	50615790	688776	1403	20731											
MAPK12	6300	broad.mit.edu	37	chr22	50694077	50694077	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgctgcacaaactcagcCggaggcgtccccgtcacctt	8	6	10	17	4	2	0	2	0	0	0	3	1	3	1	5	2	4	2	5	2	1	1	rs138308621		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:50694077C>T	uc003bkm.1	-	9	889	c.738G>A	c.(736-738)CCG>CCA	p.P246P	MAPK12_uc003bkn.2_Silent_p.P65P|MAPK12_uc003bko.2_Silent_p.P156P|MAPK12_uc003bkl.1_Silent_p.P236P|MAPK12_uc003bkp.2_Silent_p.P31P|MAPK12_uc003bkq.2_Silent_p.P65P	NM_002969	NP_002960	P53778	MK12_HUMAN	mitogen-activated protein kinase 12	246	Protein kinase.				cell cycle arrest|DNA damage induced protein phosphorylation|muscle organ development|myoblast differentiation|nerve growth factor receptor signaling pathway|positive regulation of muscle cell differentiation|Ras protein signal transduction	mitochondrion|nucleoplasm	ATP binding|magnesium ion binding|MAP kinase activity|protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CAAACTCAGCCGGAGGCGTCC	0.667													23	98					0	0	0.00632	0	0		T	50694077	T	T	50694077	2	4	23	1	0	0	0	0	0	0	0	1	9292	639	23	1		1	MAPK12	22	50694077	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	78287	50694077	610489	1404	20732											
KLHDC7B	113730	broad.mit.edu	37	chr22	50987980	50987980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggggtcacctcttctaccGcctgctcaggtacagccccg	5	8	11	17	3	4	0	2	0	2	0	4	0	4	0	5	3	4	2	5	3	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chr22:50987980G>A	uc003bmi.2	+	1	1519	c.1385G>A	c.(1384-1386)CGC>CAC	p.R462H		NM_138433	NP_612442	Q96G42	KLD7B_HUMAN	kelch domain containing 7B	462	Kelch 4.									central_nervous_system(1)	1		all_cancers(38;1.53e-10)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		OV - Ovarian serous cystadenocarcinoma(4;7.49e-69)|all cancers(3;9.79e-66)|Epithelial(4;1.3e-63)|GBM - Glioblastoma multiforme(4;0.000399)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CTCTTCTACCGCCTGCTCAGG	0.677													23	80					0	0	0.005443	0	0		A	50987980	A	A	50987980	3	1	23	1	0	0	0	0	1	0	0	0	8377	1087	38	1	1387	1	KLHDC7B	22	50987980	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	293903	50987980	316586	1405	20733											
PPP2R3B	28227	broad.mit.edu	37	chrX	299579	299579	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgatgttgaagaaggtgtcGaagaagacgttagccagctt	12	10	13	6	3	0	4	0	1	0	3	2	6	0	4	1	1	2	3	1	1	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:299579G>A	uc004cpg.2	-	11	1605	c.1404C>T	c.(1402-1404)TTC>TTT	p.F468F	PPP2R3B_uc004cpf.2_Silent_p.F69F	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	468					cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AGAAGGTGTCGAAGAAGACGT	0.507													13	85					0	0	0.003163	0	0		A	299579	A	A	299579	2	1	23	1	0	0	0	0	0	0	0	1	12411	1049	37	1		1	PPP2R3B	23	299579	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08		299579	154970981	1406	20734											
ARSF	416	broad.mit.edu	37	chrX	3021856	3021856	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcgtcccaggaattgtcCgatggcctggaaaggtacca	9	8	12	12	3	0	0	0	0	0	0	3	3	3	2	5	4	1	1	5	4	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:3021856C>T	uc004cre.1	+	9	1377	c.1156C>T	c.(1156-1158)CGA>TGA	p.R386*	ARSF_uc004crf.1_Nonsense_Mutation_p.R386*	NM_004042	NP_004033	P54793	ARSF_HUMAN	arylsulfatase F precursor	386						extracellular region	arylsulfatase activity|metal ion binding			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AGGAATTGTCCGATGGCCTGG	0.458													30	106					0	0	0.010818	0	0		T	3021856	T	T	3021856	4	4	23	1	0	0	0	0	0	1	0	0	992	644	23	1	1186	1	ARSF	23	3021856	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2722277	3021856	152248704	1407	20735											
MXRA5	25878	broad.mit.edu	37	chrX	3229209	3229209	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgttccggatggtggcGggcgctgtcaccaccttgac	4	11	14	12	3	2	1	1	1	1	0	3	2	3	2	3	4	0	2	3	4	0	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:3229209G>A	uc004crg.3	-	7	7192	c.7035C>T	c.(7033-7035)CCC>CCT	p.P2345P		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2345	Ig-like C2-type 8.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GGATGGTGGCGGGCGCTGTCA	0.562													29	125					0	0	0.004878	0	0		A	3229209	A	A	3229209	2	1	23	1	0	0	0	0	0	0	0	1	10021	1103	39	1		1	MXRA5	23	3229209	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	207353	3229209	152041351	1408	20736											
PRKX	5613	broad.mit.edu	37	chrX	3592808	3592808	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccgaacgtcccagtgcCtggagagagaagaaatcgac	12	4	12	13	4	0	3	0	0	0	3	2	7	1	3	4	1	2	0	4	1	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:3592808C>A	uc010nde.2	-	2	534	c.167_splice	c.e2-1	p.G56_splice		NM_005044	NP_005035	P51817	PRKX_HUMAN	protein kinase, X-linked								ATP binding|cAMP-dependent protein kinase activity			skin(2)|lung(1)	3		all_lung(23;0.000396)|Lung NSC(23;0.00123)				GTCCCAGTGCCTGGAGAGAGA	0.557													31	91					4.34311e-12	4.6712e-12	0.003271	1	0		A	3592808	A	A	3592808	5	1	23	1	0	0	0	0	0	0	1	0	12549	695	24	5	938	5	PRKX	23	3592808	Splice_Site	SNP	C	TCGA-BR-4368-01A-01D-1158-08	363599	3592808	151677752	1409	20737											
FAM9A	171482	broad.mit.edu	37	chrX	8767015	8767015	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgtgtttacctgtgtgcTtcttcgccggggcggcccta	2	13	14	12	3	1	0	0	0	1	0	2	0	1	0	3	4	2	3	3	4	2	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:8767015T>C	uc004csg.2	-	3	323	c.212A>G	c.(211-213)AAG>AGG	p.K71R		NM_174951	NP_777611	Q8IZU1	FAM9A_HUMAN	family with sequence similarity 9, member A	71						nucleolus					0		Hepatocellular(5;0.219)				ACCTGTGTGCTTCTTCGCCGG	0.622													11	50					0	0	0.013537	0	0		C	8767015	C	C	8767015	3	2	23	1	0	0	0	0	1	0	0	0	5673	1609	56	3	814	3	FAM9A	23	8767015	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	5174207	8767015	146503545	1410	20738											
CTPS2	56474	broad.mit.edu	37	chrX	16685651	16685651	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttaccagaggaactggggCatttggcctaaactctgtgg	10	10	12	9	0	1	1	0	0	1	1	1	2	1	2	2	5	3	1	2	5	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:16685651C>T	uc004cxk.2	-	13	2026	c.1282G>A	c.(1282-1284)GCC>ACC	p.A428T	CTPS2_uc004cxl.2_Missense_Mutation_p.A428T|CTPS2_uc004cxm.2_Missense_Mutation_p.A428T	NM_001144002	NP_001137474	Q9NRF8	PYRG2_HUMAN	cytidine triphosphate synthase II	428	Glutamine amidotransferase type-1.				glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine nucleotide biosynthetic process	cytosol	ATP binding|CTP synthase activity			ovary(1)	1	Hepatocellular(33;0.0997)					GGAACTGGGGCATTTGGCCTA	0.383													37	163					0	0	0.01441	0	0		T	16685651	T	T	16685651	3	4	23	1	0	0	0	0	1	0	0	0	4026	710	25	2	502	2	CTPS2	23	16685651	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	7918636	16685651	138584909	1411	20739											
CDKL5	6792	broad.mit.edu	37	chrX	18525131	18525131	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaatttcttccttcagaCggttttggatcttactgcac	8	16	8	9	1	3	2	1	1	2	2	4	4	4	3	1	2	2	2	1	2	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:18525131C>T	uc004cym.2	+	2	168	c.-85C>T	c.(-87--83)GACGG>GATGG		CDKL5_uc004cyn.2_Translation_Start_Site	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5						neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					TTCCTTCAGACGGTTTTGGAT	0.368													7	28					0	0	0.001984	0	0		T	18525131	T	T	18525131	1	4	23	1	0	0	0	0	0	0	0	0	3160	551	19	1		1	CDKL5	23	18525131	Translation_Start_Site	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1839480	18525131	136745429	1412	20740											
MAP3K15	389840	broad.mit.edu	37	chrX	19416470	19416470	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccatttgcatcatggtcaTactcatactgaagaaggaaa	15	10	7	9	0	3	2	3	1	0	1	3	3	3	3	1	2	3	1	1	2	5	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:19416470T>C	uc004czk.1	-	16	2002	c.365A>G	c.(364-366)TAT>TGT	p.Y122C	MAP3K15_uc004czj.1_Missense_Mutation_p.Y82C	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	647							ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					ATCATGGTCATACTCATACTG	0.443													7	286					0	0	0.00308	0	0		C	19416470	C	C	19416470	3	2	23	1	0	0	0	0	1	0	0	0	9267	1406	49	3	2061	3	MAP3K15	23	19416470	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	891339	19416470	135854090	1413	20741											
EIF1AX	1964	broad.mit.edu	37	chrX	20153899	20153899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgacataacctctttacaCcatcgaaacacattgcttct	12	13	4	12	1	2	1	0	1	2	0	3	2	2	1	2	0	4	1	2	0	3	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:20153899C>T	uc004czt.2	-	3	369	c.161G>A	c.(160-162)GGT>GAT	p.G54D		NM_001412	NP_001403	P47813	IF1AX_HUMAN	X-linked eukaryotic translation initiation	54	S1-like.					cytosol	translation initiation factor activity			ovary(1)	1						CCTCTTTACACCATCGAAACA	0.373													35	197					0	0	0.006999	0	0		T	20153899	T	T	20153899	3	4	23	1	0	0	0	0	1	0	0	0	4998	507	18	4	293	4	EIF1AX	23	20153899	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	737429	20153899	135116661	1414	20742											
DCAF8L1	139425	broad.mit.edu	37	chrX	27998141	27998141	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaacacatttgattgtgtcAttatttctgtgccccttata	9	19	5	8	0	2	1	1	1	1	0	2	1	2	1	2	0	2	0	2	0	4	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:27998141A>G	uc004dbx.1	-	1	1426	c.1311T>C	c.(1309-1311)AAT>AAC	p.N437N		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	437	WD 6.									ovary(3)|skin(1)	4						TGATTGTGTCATTATTTCTGT	0.448													4	64					0	0	0.009096	0	0		G	27998141	G	G	27998141	2	3	23	1	0	0	0	0	0	0	0	1	4280	214	8	3		3	DCAF8L1	23	27998141	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	7844242	27998141	127272419	1415	20743											
DCAF8L1	139425	broad.mit.edu	37	chrX	27998625	27998625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacgcttagtattctcgCaatatgatgcattaattagt	12	14	6	9	2	1	1	0	1	1	0	2	1	1	1	1	0	1	4	1	0	6	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:27998625C>T	uc004dbx.1	-	1	942	c.827G>A	c.(826-828)TGC>TAC	p.C276Y		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	276	WD 2.									ovary(3)|skin(1)	4						AGTATTCTCGCAATATGATGC	0.502													13	75					0	0	0.00245	0	0		T	27998625	T	T	27998625	3	4	23	1	0	0	0	0	1	0	0	0	4280	710	25	2	979	2	DCAF8L1	23	27998625	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	484	27998625	127271935	1416	20744											
DCAF8L1	139425	broad.mit.edu	37	chrX	27998761	27998761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accactctcaaagttcagtaCtggcttctgccgcacccagt	9	10	7	15	1	3	0	2	0	2	0	4	0	3	0	3	1	2	4	3	1	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:27998761C>T	uc004dbx.1	-	1	806	c.691G>A	c.(691-693)GTA>ATA	p.V231I		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	231	WD 1.									ovary(3)|skin(1)	4						AAGTTCAGTACTGGCTTCTGC	0.502													8	35					0	0	0.00499	0	0		T	27998761	T	T	27998761	3	4	23	1	0	0	0	0	1	0	0	0	4280	565	20	4	1115	4	DCAF8L1	23	27998761	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	136	27998761	127271799	1417	20745											
USP9X	8239	broad.mit.edu	37	chrX	41012336	41012336	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagactatatgctagaggTatgtattgtaagctaaaata	16	13	9	3	0	0	2	0	1	0	2	0	3	0	2	0	1	2	5	0	1	9	9			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:41012336T>C	uc004dfb.2	+	14	2530	c.1897_splice	c.e14+2	p.D633_splice	USP9X_uc004dfc.2_Splice_Site_p.D633_splice	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform						BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						ATGCTAGAGGTATGTATTGTA	0.328													17	81					0	0	0.007413	0	0		C	41012336	C	C	41012336	5	2	23	1	0	0	0	0	0	0	1	0	17116	1652	57	3	1949	3	USP9X	23	41012336	Splice_Site	SNP	T	TCGA-BR-4368-01A-01D-1158-08	13013575	41012336	114258224	1418	20746											
UBA1	7317	broad.mit.edu	37	chrX	47058955	47058955	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcgctgagctcaacagctAtgtgcctgtcactgcctaca	8	10	8	15	1	2	1	2	1	0	0	3	1	2	1	3	0	6	3	3	0	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:47058955A>C	uc004dhj.3	+	5	573	c.422A>C	c.(421-423)TAT>TCT	p.Y141S	UBA1_uc004dhk.3_Missense_Mutation_p.Y141S	NM_153280	NP_695012	P22314	UBA1_HUMAN	ubiquitin-activating enzyme E1	141	1-1.|2 approximate repeats.				cell death|protein modification process		ATP binding|ligase activity|protein binding|small protein activating enzyme activity			ovary(1)	1						CTCAACAGCTATGTGCCTGTC	0.557													6	199					0	0	0.001984	0	0		C	47058955	C	C	47058955	3	2	23	1	0	0	0	0	1	0	0	0	16853	449	16	5	436	5	UBA1	23	47058955	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	6046619	47058955	108211605	1419	20747											
SSX5	6758	broad.mit.edu	37	chrX	48054732	48054732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggtcacctcaccttttgCatcttctctggtatttgaga	7	15	8	11	0	4	1	2	1	2	1	5	2	4	1	2	2	1	3	2	2	1	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:48054732C>T	uc004dja.1	-	2	116	c.63G>A	c.(61-63)ATG>ATA	p.M21I	SSX5_uc004diz.1_Missense_Mutation_p.M21I	NM_175723	NP_783729	O60225	SSX5_HUMAN	synovial sarcoma, X breakpoint 5 isoform b	21	KRAB-related.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding				0						TCACCTTTTGCATCTTCTCTG	0.542													55	210					0	0	0.01441	0	0		T	48054732	T	T	48054732	3	4	23	1	0	0	0	0	1	0	0	0	15233	710	25	2	654	2	SSX5	23	48054732	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	995777	48054732	107215828	1420	20748											
CCNB3	85417	broad.mit.edu	37	chrX	50053728	50053728	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcccagtgttgacacagaAgctcactttaaggaaacttt	13	10	9	9	0	1	2	1	1	0	1	1	4	1	3	1	1	3	2	1	1	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:50053728A>G	uc004dox.3	+	6	2857	c.2559A>G	c.(2557-2559)GAA>GAG	p.E853E	CCNB3_uc004doy.2_Silent_p.E853E|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	853					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					TTGACACAGAAGCTCACTTTA	0.532													6	34					0	0	0.001168	0	0		G	50053728	G	G	50053728	2	3	23	1	0	0	0	0	0	0	0	1	2917	69	3	3		3	CCNB3	23	50053728	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1998996	50053728	105216832	1421	20749											
SMC1A	8243	broad.mit.edu	37	chrX	53426512	53426512	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taattctttccttccttaccTttttgagcttttctatctca	6	22	2	11	0	3	1	1	1	3	0	6	1	5	1	3	0	2	1	3	0	3	10			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:53426512T>C	uc004dsg.2	-	16	2630	c.2561A>G	c.(2560-2562)AAG>AGG	p.K854R	SMC1A_uc011moe.1_Missense_Mutation_p.K832R	NM_006306	NP_006297	Q14683	SMC1A_HUMAN	structural maintenance of chromosomes 1A	854	Potential.				cell cycle checkpoint|cell division|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic sister chromatid cohesion|mitotic spindle organization|negative regulation of DNA endoreduplication|nuclear mRNA splicing, via spliceosome|response to radiation|signal transduction in response to DNA damage	cohesin core heterodimer|condensed chromosome kinetochore|condensed nuclear chromosome|cytoplasm|meiotic cohesin complex|nucleoplasm	ATP binding|chromatin binding|microtubule motor activity|protein heterodimerization activity			ovary(5)|central_nervous_system(1)	6						CTTCCTTACCTTTTTGAGCTT	0.323													3	118					0	0	0.009096	0	0		C	53426512	C	C	53426512	3	2	23	1	0	0	0	0	1	0	0	0	14806	1623	56	3	1180	3	SMC1A	23	53426512	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	3372784	53426512	101844048	1422	20750											
HUWE1	10075	broad.mit.edu	37	chrX	53586422	53586422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctaccaggaggcgggccCgaccccggctttgtagggga	6	6	16	13	3	0	0	0	0	0	0	0	3	0	2	5	6	2	2	5	6	2	3	rs146149373		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:53586422C>T	uc004dsp.2	-	57	8210	c.7808G>A	c.(7807-7809)CGG>CAG	p.R2603Q	HUWE1_uc004dsn.2_Missense_Mutation_p.R1427Q|uc004dss.2_5'Flank|MIRLET7F2_hsa-let-7f-2|MI0000068_5'Flank	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2603					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GAGGCGGGCCCGACCCCGGCT	0.567													11	55					0	0	0.010729	0	0		T	53586422	T	T	53586422	3	4	23	1	0	0	0	0	1	0	0	0	7477	652	23	1	5428	1	HUWE1	23	53586422	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	159910	53586422	101684138	1423	20751											
HUWE1	10075	broad.mit.edu	37	chrX	53590731	53590731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgtactgttcccagatcCgccatccctctcaagcaact	10	11	5	15	1	1	1	1	0	1	1	5	1	4	1	4	0	3	3	4	0	4	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:53590731C>T	uc004dsp.2	-	52	7483	c.7081G>A	c.(7081-7083)GGA>AGA	p.G2361R	HUWE1_uc004dsn.2_Missense_Mutation_p.G1185R	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2361	Glu-rich.				base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						TTCCCAGATCCGCCATCCCTC	0.453													11	29					0	0	0.013537	0	0		T	53590731	T	T	53590731	3	4	23	1	0	0	0	0	1	0	0	0	7477	661	23	1	6175	1	HUWE1	23	53590731	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	4309	53590731	101679829	1424	20752											
GNL3L	54552	broad.mit.edu	37	chrX	54578085	54578085	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccaactcagaggtgggCaccatcctgcgtaactgcgt	8	7	13	13	2	1	1	1	0	0	1	2	1	2	1	3	3	4	2	3	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:54578085C>T	uc004dth.1	+	11	1087	c.948C>T	c.(946-948)GGC>GGT	p.G316G	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	316	G.				ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						CAGAGGTGGGCACCATCCTGC	0.612													11	46					0	0	0.010729	0	0		T	54578085	T	T	54578085	2	4	23	1	0	0	0	0	0	0	0	1	6553	697	25	2		2	GNL3L	23	54578085	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	987354	54578085	100692475	1425	20753											
GNL3L	54552	broad.mit.edu	37	chrX	54578110	54578110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcgtaactgcgtccacGtgcagaagctggcagaccct	8	8	11	14	3	0	2	0	0	0	2	2	2	2	2	3	1	5	4	3	1	2	1	rs148611493		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:54578110G>A	uc004dth.1	+	11	1112	c.973G>A	c.(973-975)GTG>ATG	p.V325M	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	325					ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						CTGCGTCCACGTGCAGAAGCT	0.627													17	47					0	0	0.008871	0	0		A	54578110	A	A	54578110	3	1	23	1	0	0	0	0	1	0	0	0	6553	1145	40	1	1011	1	GNL3L	23	54578110	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	25	54578110	100692450	1426	20754											
TRO	7216	broad.mit.edu	37	chrX	54955519	54955519	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcactagctccagcttcAgcagcgcagccagcattagc	10	7	10	14	1	1	1	1	1	0	0	2	1	2	1	2	0	8	6	2	0	2	3			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:54955519A>G	uc004dtq.2	+	12	2469	c.2362A>G	c.(2362-2364)AGC>GGC	p.S788G	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Missense_Mutation_p.S319G|TRO_uc004dtw.2_Missense_Mutation_p.S391G|TRO_uc004dtx.2_Missense_Mutation_p.S171G	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	788	4.|62 X 10 AA approximate tandem repeats.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						CTCCAGCTTCAGCAGCGCAGC	0.532													22	93					0	0	0.00333	0	0		G	54955519	G	G	54955519	3	3	23	1	0	0	0	0	1	0	0	0	16600	188	7	3	2404	3	TRO	23	54955519	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	377409	54955519	100315041	1427	20755											
TRO	7216	broad.mit.edu	37	chrX	54955602	54955602	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcattagctttggtggCatgccttgtaccagtgccag	7	11	12	11	0	0	0	0	0	0	0	0	0	0	0	4	2	5	4	4	2	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:54955602C>T	uc004dtq.2	+	12	2552	c.2445C>T	c.(2443-2445)GGC>GGT	p.G815G	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Silent_p.G346G|TRO_uc004dtw.2_Silent_p.G418G|TRO_uc004dtx.2_Silent_p.G198G	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	815	62 X 10 AA approximate tandem repeats.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GCTTTGGTGGCATGCCTTGTA	0.547													14	63					0	0	0.003163	0	0		T	54955602	T	T	54955602	2	4	23	1	0	0	0	0	0	0	0	1	16600	697	25	2		2	TRO	23	54955602	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	83	54955602	100314958	1428	20756											
LAS1L	81887	broad.mit.edu	37	chrX	64734815	64734815	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgggtcctcggtctgacctgGcattcggcctaggggaaatg	6	10	15	10	2	1	1	0	1	1	0	4	2	2	2	3	6	0	1	3	6	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:64734815G>A	uc004dwa.1	-	13	2038	c.1966C>T	c.(1966-1968)CCA>TCA	p.P656S	LAS1L_uc004dwc.1_Missense_Mutation_p.P639S|LAS1L_uc004dwd.1_Missense_Mutation_p.P597S|LAS1L_uc004dvy.1_Missense_Mutation_p.P169S|LAS1L_uc004dvz.1_Missense_Mutation_p.P169S	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	656						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						GTCTGACCTGGCATTCGGCCT	0.562													10	43					0	0	0.010729	0	0		A	64734815	A	A	64734815	3	1	23	1	0	0	0	0	1	0	0	0	8652	1203	42	2	246	2	LAS1L	23	64734815	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	9779213	64734815	90535745	1429	20757											
AR	367	broad.mit.edu	37	chrX	66937333	66937333	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctccaggcttccgcaacttAcacgtggacgaccagatggc	9	8	10	14	3	1	1	0	0	1	1	3	3	2	2	3	3	2	2	3	3	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:66937333A>G	uc004dwu.1	+	5	3302	c.2187A>G	c.(2185-2187)TTA>TTG	p.L729L	AR_uc004dwv.1_Silent_p.L197L	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	728	Ligand-binding.|Interaction with MYST2.		L -> S (in PAIS).		cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding	p.L729I(1)		ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	TCCGCAACTTACACGTGGACG	0.557									Androgen_Insensitivity_Syndrome				15	41					0	0	0.00245	0	0		G	66937333	G	G	66937333	2	3	23	1	0	0	0	0	0	0	0	1	836	388	14	3		3	AR	23	66937333	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2202518	66937333	88333227	1430	20758											
PJA1	64219	broad.mit.edu	37	chrX	68381384	68381384	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccttgcttgctggtggAttggccacctctacatccac	5	13	8	15	0	2	0	0	0	2	0	4	1	3	1	4	3	3	2	4	3	1	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:68381384A>T	uc004dxh.2	-	2	1984	c.1698T>A	c.(1696-1698)AAT>AAA	p.N566K	PJA1_uc011mpi.1_Missense_Mutation_p.N284K|PJA1_uc004dxg.2_Missense_Mutation_p.N378K|PJA1_uc004dxi.2_Missense_Mutation_p.N511K	NM_145119	NP_660095	Q8NG27	PJA1_HUMAN	praja 1 isoform a	566							zinc ion binding				0						TTGCTGGTGGATTGGCCACCT	0.557													10	102					0	0	0.008291	0	0		T	68381384	T	T	68381384	3	4	23	1	0	0	0	0	1	0	0	0	11980	330	12	5	237	5	PJA1	23	68381384	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	1444051	68381384	86889176	1431	20759											
FAM155B	27112	broad.mit.edu	37	chrX	68749653	68749653	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccggtctctgggggctccCgcctcagccctagcaggatc	4	8	13	16	2	2	0	1	0	1	0	5	1	3	1	4	4	3	2	4	4	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:68749653C>T	uc004dxk.2	+	3	1321	c.1273C>T	c.(1273-1275)CGC>TGC	p.R425C		NM_015686	NP_056501	O75949	F155B_HUMAN	transmembrane protein 28	426						integral to membrane				ovary(1)|breast(1)	2						TGGGGGCTCCCGCCTCAGCCC	0.517													10	68					0	0	0.010729	0	0		T	68749653	T	T	68749653	3	4	23	1	0	0	0	0	1	0	0	0	5477	652	23	1	1283	1	FAM155B	23	68749653	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	368269	68749653	86520907	1432	20760											
IGBP1	3476	broad.mit.edu	37	chrX	69385717	69385717	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagctcagcaacaggaagaAcaagaagaaaaggaggaaga	21	1	13	6	0	1	4	1	0	0	4	1	7	1	7	0	3	4	3	0	3	8	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:69385717A>G	uc004dxv.2	+	6	1405	c.906A>G	c.(904-906)GAA>GAG	p.E302E	IGBP1_uc004dxw.2_Silent_p.E302E	NM_001551	NP_001542	P78318	IGBP1_HUMAN	immunoglobulin binding protein 1	302					B cell activation|negative regulation of caspase activity|negative regulation of stress-activated MAPK cascade|negative regulation of transcription from RNA polymerase II promoter|regulation of microtubule-based movement|response to interleukin-1|response to tumor necrosis factor|signal transduction	cytoplasm	protein phosphatase type 2A regulator activity			kidney(1)|pancreas(1)	2						AACAGGAAGAACAAGAAGAAA	0.473													9	21					0	0	0.004482	0	0		G	69385717	G	G	69385717	2	3	23	1	0	0	0	0	0	0	0	1	7583	40	2	3		3	IGBP1	23	69385717	Silent	SNP	A	TCGA-BR-4368-01A-01D-1158-08	636064	69385717	85884843	1433	20761											
ARR3	407	broad.mit.edu	37	chrX	69496058	69496058	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaatccagcagccctcAggggcccctcacagtcctac	9	6	9	17	0	2	1	2	1	0	0	4	1	4	1	5	2	4	2	5	2	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:69496058A>G	uc004dyb.2	+	6	340	c.272A>G	c.(271-273)CAG>CGG	p.Q91R	ARR3_uc004dya.2_Missense_Mutation_p.Q91R	NM_004312	NP_004303	P36575	ARRC_HUMAN	arrestin 3, retinal (X-arrestin)	91					signal transduction|visual perception	cytoplasm|soluble fraction				large_intestine(2)|ovary(2)	4						AGCAGCCCTCAGGGGCCCCTC	0.577													8	44					0	0	0.004482	0	0		G	69496058	G	G	69496058	3	3	23	1	0	0	0	0	1	0	0	0	980	188	7	3	290	3	ARR3	23	69496058	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	110341	69496058	85774502	1434	20762											
DLG3	1741	broad.mit.edu	37	chrX	69712027	69712027	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcagcttctcttatggtGacattctgcatgtcattaat	8	16	8	9	0	4	1	2	1	2	0	5	1	4	1	0	2	2	3	0	2	2	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:69712027G>T	uc004dyi.1	+	11	1919	c.1591G>T	c.(1591-1593)GAC>TAC	p.D531Y	DLG3_uc004dyj.1_Missense_Mutation_p.D194Y|DLG3_uc011mpn.1_Missense_Mutation_p.D47Y	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	531	SH3.				axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					CTCTTATGGTGACATTCTGCA	0.527													5	24					2.0095e-06	2.0865e-06	0.001984	1	0		T	69712027	T	T	69712027	3	4	23	1	0	0	0	0	1	0	0	0	4562	1290	45	5	1771	5	DLG3	23	69712027	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	215969	69712027	85558533	1435	20763											
NLGN3	54413	broad.mit.edu	37	chrX	70367840	70367840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcagctcccccgatcggcGagaaacgtttcctgccccct	7	7	9	18	5	0	1	0	0	0	1	3	3	2	1	5	1	3	3	5	1	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:70367840G>A	uc004dzd.1	+	1	441	c.241G>A	c.(241-243)GAG>AAG	p.E81K	NLGN3_uc010nlb.1_Missense_Mutation_p.E81K|NLGN3_uc004dzb.2_Missense_Mutation_p.E81K|NLGN3_uc004dzc.2_Intron|NLGN3_uc011mps.1_Missense_Mutation_p.E81K|NLGN3_uc011mpr.1_Missense_Mutation_p.E81K	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	81	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					CCCGATCGGCGAGAAACGTTT	0.632													8	38					0	0	0.00308	0	0		A	70367840	A	A	70367840	3	1	23	1	0	0	0	0	1	0	0	0	10482	1059	37	1	243	1	NLGN3	23	70367840	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	655813	70367840	84902720	1436	20764											
PHKA1	5255	broad.mit.edu	37	chrX	71813009	71813009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactggaactctattcagtGccccatccagccttcttcgg	8	11	7	15	1	3	0	1	0	2	0	5	1	4	1	4	2	4	0	4	2	3	4			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:71813009G>A	uc004eax.3	-	29	3489	c.3188C>T	c.(3187-3189)GCA>GTA	p.A1063V	PHKA1_uc004eay.3_Missense_Mutation_p.A1050V|PHKA1_uc011mqi.1_Missense_Mutation_p.A991V|PHKA1_uc010nll.2_Missense_Mutation_p.A95V	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	1063	Calmodulin-binding (Potential).				glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					TCTATTCAGTGCCCCATCCAG	0.423													39	161					0	0	0.009718	0	0		A	71813009	A	A	71813009	3	1	23	1	0	0	0	0	1	0	0	0	11862	1319	46	2	499	2	PHKA1	23	71813009	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1445169	71813009	83457551	1437	20765											
ATRX	546	broad.mit.edu	37	chrX	76937945	76937945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcagcaacttttctaacttCcaaagaagtaaaactctgct	14	13	4	10	0	3	1	1	0	2	1	4	1	4	1	1	0	5	3	1	0	6	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:76937945C>T	uc004ecp.3	-	9	3035	c.2803G>A	c.(2803-2805)GAA>AAA	p.E935K	ATRX_uc004ecq.3_Missense_Mutation_p.E897K|ATRX_uc004eco.3_Missense_Mutation_p.E720K|ATRX_uc004ecr.2_Missense_Mutation_p.E867K|ATRX_uc010nlx.1_Missense_Mutation_p.E906K|ATRX_uc010nly.1_Missense_Mutation_p.E880K	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	935					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TTTCTAACTTCCAAAGAAGTA	0.378			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						36	197					0	0	0.003755	0	0		T	76937945	T	T	76937945	3	4	23	1	0	0	0	0	1	0	0	0	1209	864	30	4	4783	4	ATRX	23	76937945	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5124936	76937945	78332615	1438	20766											
LPAR4	2846	broad.mit.edu	37	chrX	78010323	78010323	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccggtccatagtgtcagaGtggtgaacccctgcagccag	9	8	12	12	1	1	2	1	1	0	1	2	2	2	2	5	2	4	1	5	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:78010323G>A	uc010nme.2	+	2	362	c.-43G>A	c.(-45--41)GAGTG>GAATG			NM_005296	NP_005287	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4							integral to plasma membrane	lipid binding|purinergic nucleotide receptor activity, G-protein coupled			ovary(3)	3						TAGTGTCAGAGTGGTGAACCC	0.418													13	28					0	0	0.013537	0	0		A	78010323	A	A	78010323	1	1	23	1	0	0	0	0	0	0	0	0	8925	1044	36	4		4	LPAR4	23	78010323	Translation_Start_Site	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1072378	78010323	77260237	1439	20767											
RPA4	29935	broad.mit.edu	37	chrX	96139888	96139888	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaatgatgctggggataaCgatgagagtcaccgcaattt	12	10	13	6	2	1	3	1	3	0	1	1	6	1	4	1	2	2	2	1	2	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:96139888C>T	uc004efv.3	+	1	877	c.579C>T	c.(577-579)AAC>AAT	p.N193N	DIAPH2_uc004eft.3_Intron|DIAPH2_uc004efu.3_Intron|DIAPH2_uc004efs.2_Intron	NM_013347	NP_037479	Q13156	RFA4_HUMAN	replication protein A4, 34kDa	193					DNA damage checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair	DNA replication factor A complex|nucleoplasm	single-stranded DNA binding				0						CTGGGGATAACGATGAGAGTC	0.502								Other_identified_genes_with_known_or_suspected_DNA_repair_function					29	117					0	0	0.00632	0	0		T	96139888	T	T	96139888	2	4	23	1	0	0	0	0	0	0	0	1	13564	535	19	1		1	RPA4	23	96139888	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	18129565	96139888	59130672	1440	20768											
SRPX2	27286	broad.mit.edu	37	chrX	99924335	99924335	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggggcgcatccgggagcaaCagctgtcagccaacatcatc	10	6	12	13	2	2	0	2	0	0	0	4	1	3	1	2	3	5	3	2	3	2	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:99924335C>T	uc004egb.2	+	10	1666	c.1186C>T	c.(1186-1188)CAG>TAG	p.Q396*		NM_014467	NP_055282	O60687	SRPX2_HUMAN	sushi-repeat-containing protein, X-linked 2	396					angiogenesis|cell motility|cell-cell adhesion|positive regulation of cell migration involved in sprouting angiogenesis|regulation of phosphorylation	cytoplasm|extracellular region	receptor binding			ovary(2)	2						CCGGGAGCAACAGCTGTCAGC	0.637													8	24					0	0	0.004482	0	0		T	99924335	T	T	99924335	4	4	23	1	0	0	0	0	0	1	0	0	15190	479	17	4	1220	4	SRPX2	23	99924335	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3784447	99924335	55346225	1441	20769											
BTK	695	broad.mit.edu	37	chrX	100609618	100609618	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaaaaagccacactcacCtggacaggccgaaatcagat	16	5	9	11	1	2	2	2	1	0	1	2	5	2	3	3	2	1	0	3	2	3	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:100609618C>A	uc004ehg.2	-	16	1824	c.1631G>T	c.(1630-1632)AGG>ATG	p.R544M	BTK_uc004ehf.2_Missense_Mutation_p.R44M|BTK_uc010nnh.2_Intron|BTK_uc010nni.2_Intron|BTK_uc004ehe.2_RNA|BTK_uc010nnj.2_Intron|BTK_uc010nnk.2_Intron|BTK_uc010nnl.2_Intron|BTK_uc010nnm.2_Missense_Mutation_p.R114M|BTK_uc010nnn.2_Missense_Mutation_p.R368M|BTK_uc010nno.2_Missense_Mutation_p.R578M|BTK_uc004ehh.1_RNA	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	544	Protein kinase.		R -> K (in XLA).|R -> G (in XLA).		calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						CCACACTCACCTGGACAGGCC	0.423									Agammaglobulinemia_X-linked				8	347					0.000442599	0.000452291	0.006214	1	0		A	100609618	A	A	100609618	3	1	23	1	0	0	0	0	1	0	0	0	1560	695	24	5	364	5	BTK	23	100609618	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	685283	100609618	54660942	1442	20770											
BHLHB9	80823	broad.mit.edu	37	chrX	102005017	102005017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agagtttattaacgaagtagGtgtagtgacacttattgaaa	15	13	10	3	1	0	3	0	2	0	1	0	4	0	3	0	1	1	3	0	1	7	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:102005017G>A	uc010nog.2	+	4	1665	c.1094G>A	c.(1093-1095)GGT>GAT	p.G365D	BHLHB9_uc011mrq.1_Missense_Mutation_p.G365D|BHLHB9_uc011mrr.1_Missense_Mutation_p.G365D|BHLHB9_uc011mrs.1_Missense_Mutation_p.G365D|BHLHB9_uc011mrt.1_Missense_Mutation_p.G365D|BHLHB9_uc004ejo.2_Missense_Mutation_p.G365D|BHLHB9_uc011mru.1_Missense_Mutation_p.G365D|BHLHB9_uc011mrv.1_Missense_Mutation_p.G365D	NM_001142526	NP_001135998	Q6PI77	BHLH9_HUMAN	basic helix-loop-helix domain containing, class	365						cytoplasm|nucleus	binding			ovary(2)	2						AACGAAGTAGGTGTAGTGACA	0.388													14	63					0	0	0.001855	0	0		A	102005017	A	A	102005017	3	1	23	1	0	0	0	0	1	0	0	0	1421	1261	44	4	1096	4	BHLHB9	23	102005017	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1395399	102005017	53265543	1443	20771											
GLRA4	441509	broad.mit.edu	37	chrX	102979004	102979004	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggctatccacccggtgcAcctgatgctgtacagcacat	8	9	9	15	1	0	1	0	1	0	0	1	1	1	1	4	2	4	5	4	2	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:102979004A>G	uc011mse.1	-	4	915	c.494_splice	c.e4+1	p.R165_splice	GLRA4_uc010nou.2_Splice_Site_p.R165_splice	NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor							cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						CACCCGGTGCACCTGATGCTG	0.527													59	289					0	0	0.01441	0	0		G	102979004	G	G	102979004	5	3	23	1	0	0	0	0	0	0	1	0	6472	173	6	3	876	3	GLRA4	23	102979004	Splice_Site	SNP	A	TCGA-BR-4368-01A-01D-1158-08	973987	102979004	52291556	1444	20772											
ESX1	80712	broad.mit.edu	37	chrX	103495262	103495262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggcacaggcgccatgcGtggcccgggtggcacaggcg	5	4	20	12	4	0	0	0	0	0	0	0	0	0	0	2	7	1	2	2	7	0	0	rs148783552	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:103495262G>A	uc004ely.2	-	4	926	c.868C>T	c.(868-870)CGC>TGC	p.R290C		NM_153448	NP_703149	Q8N693	ESX1_HUMAN	extraembryonic, spermatogenesis, homeobox	290	6.|15 X 9 AA tandem repeats of P-P-x-x-P-x- P-P-x.				negative regulation of transcription, DNA-dependent|regulation of cell cycle	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGCGCCATGCGTGGCCCGGGT	0.572													8	63					0	0	0.006214	0	0		A	103495262	A	A	103495262	3	1	23	1	0	0	0	0	1	0	0	0	5271	1145	40	1	356	1	ESX1	23	103495262	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	516258	103495262	51775298	1445	20773											
LHFPL1	340596	broad.mit.edu	37	chrX	111914251	111914251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttacctccaacaaactgcGctgctcccatgcaacgtccc	9	9	5	18	2	1	0	0	0	1	0	4	0	4	0	4	0	7	3	4	0	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:111914251G>A	uc004epq.2	-	2	701	c.368C>T	c.(367-369)GCG>GTG	p.A123V	LHFPL1_uc004epp.2_Missense_Mutation_p.A146V|LHFPL1_uc010nqa.2_Intron|LHFPL1_uc010nqb.2_Missense_Mutation_p.A123V	NM_178175	NP_835469	Q86WI0	LHPL1_HUMAN	lipoma HMGIC fusion partner-like 1 precursor	123	Helical; (Potential).					integral to membrane					0						AACAAACTGCGCTGCTCCCAT	0.577													16	50					0	0	0.006122	0	0		A	111914251	A	A	111914251	3	1	23	1	0	0	0	0	1	0	0	0	8780	1087	38	1	306	1	LHFPL1	23	111914251	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	8418989	111914251	43356309	1446	20774											
AMOT	154796	broad.mit.edu	37	chrX	112058802	112058802	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgctgctgctgctgttgTtggtggtgatggtgatgatg	3	15	18	5	0	0	3	0	3	0	0	0	3	0	3	0	4	4	7	0	4	0	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:112058802T>G	uc004epr.2	-	2	1176	c.1176A>C	c.(1174-1176)CAA>CAC	p.Q392H	AMOT_uc004eps.2_5'UTR|AMOT_uc004ept.1_Missense_Mutation_p.Q392H	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	392					actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						gctgctgttgttggtggtgat	0.338													14	48					0	0	0.003163	0	0		G	112058802	G	G	112058802	3	3	23	1	0	0	0	0	1	0	0	0	582	1722	60	5	2118	5	AMOT	23	112058802	Missense_Mutation	SNP	T	TCGA-BR-4368-01A-01D-1158-08	144551	112058802	43211758	1447	20775											
SLC6A14	11254	broad.mit.edu	37	chrX	115582757	115582757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgtctcactagcgtgtttGctggatttgctattttttct	5	20	8	8	1	2	0	1	0	2	0	3	1	2	1	0	1	3	3	0	1	2	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:115582757G>A	uc004eqi.2	+	8	1185	c.1081G>A	c.(1081-1083)GCT>ACT	p.A361T		NM_007231	NP_009162	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid	361	Helical; Name=7; (Potential).				cellular amino acid metabolic process|response to toxin	integral to membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)|pancreas(1)	3					L-Proline(DB00172)	TAGCGTGTTTGCTGGATTTGC	0.358													39	192					0	0	0.009718	0	0		A	115582757	A	A	115582757	3	1	23	1	0	0	0	0	1	0	0	0	14702	1319	46	2	1111	2	SLC6A14	23	115582757	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	3523955	115582757	39687803	1448	20776											
WDR44	54521	broad.mit.edu	37	chrX	117529236	117529236	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaaaagcacctgatgggCagactgtagcaggtgaagtg	13	7	15	6	0	0	3	0	2	0	1	0	4	0	4	1	3	2	4	1	3	4	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:117529236C>T	uc004eqn.2	+	6	1407	c.982C>T	c.(982-984)CAG>TAG	p.Q328*	WDR44_uc004eqo.2_Nonsense_Mutation_p.Q328*|WDR44_uc011mtr.1_Nonsense_Mutation_p.Q303*|WDR44_uc010nqi.2_Nonsense_Mutation_p.Q38*	NM_019045	NP_061918	Q5JSH3	WDR44_HUMAN	WD repeat domain 44 protein	328						cytosol|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm				lung(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5						ACCTGATGGGCAGACTGTAGC	0.348													14	41					0	0	0.00499	0	0		T	117529236	T	T	117529236	4	4	23	1	0	0	0	0	0	1	0	0	17322	711	25	2	1004	2	WDR44	23	117529236	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1946479	117529236	37741324	1449	20777											
ZBTB33	10009	broad.mit.edu	37	chrX	119387551	119387551	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctaaaattgttcgtgttaGatcagatttgcttgatgagt	10	18	9	4	1	2	4	1	2	1	2	3	4	2	4	0	0	1	3	0	0	3	7			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:119387551G>C	uc004esn.1	+	2	509	c.281G>C	c.(280-282)AGA>ACA	p.R94T	ZBTB33_uc010nqm.1_Missense_Mutation_p.R94T	NM_006777	NP_006768	Q86T24	KAISO_HUMAN	kaiso	94	BTB.|Self-association (By similarity).|Interaction with NCOR1.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleolus|plasma membrane	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						GTTCGTGTTAGATCAGATTTG	0.358													31	117					0	0	0.009535	0	0		C	119387551	C	C	119387551	3	2	23	1	0	0	0	0	1	0	0	0	17561	942	33	5	283	5	ZBTB33	23	119387551	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1858315	119387551	35883009	1450	20778											
ODZ1	10178	broad.mit.edu	37	chrX	123785941	123785941	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggagtcctgcttgaccaGctgtttgccatccattagtt	6	15	9	11	0	0	1	0	1	0	0	2	2	2	2	4	1	3	4	4	1	1	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:123785941G>T	uc004euj.2	-	8	1466	c.1402C>A	c.(1402-1404)CTG>ATG	p.L468M	ODZ1_uc011muj.1_Missense_Mutation_p.L467M|ODZ1_uc010nqy.2_Missense_Mutation_p.L468M	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	468	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TGCTTGACCAGCTGTTTGCCA	0.418													13	58					3.27435e-08	3.45318e-08	0.00245	1	0		T	123785941	T	T	123785941	3	4	23	1	0	0	0	0	1	0	0	0	10853	962	34	5	6896	5	ODZ1	23	123785941	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	4398390	123785941	31484619	1451	20779											
DCAF12L2	340578	broad.mit.edu	37	chrX	125298898	125298898	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccggatgttctgctggCgctggcgcggatccaggaag	5	7	19	10	4	1	0	0	0	1	0	2	3	2	3	2	7	1	3	2	7	1	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:125298898C>T	uc004euk.1	-	1	1037	c.1010G>A	c.(1009-1011)CGC>CAC	p.R337H		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	337										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						GTTCTGCTGGCGCTGGCGCGG	0.622													30	104					0	0	0.009535	0	0		T	125298898	T	T	125298898	3	4	23	1	0	0	0	0	1	0	0	0	4268	768	27	1	385	1	DCAF12L2	23	125298898	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1512957	125298898	29971662	1452	20780											
IGSF1	3547	broad.mit.edu	37	chrX	130419221	130419221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagcatctggatatgagtgCggcagatgtaaaccccttca	11	9	12	9	1	2	2	1	1	1	1	2	4	2	4	2	3	3	3	2	3	3	3	rs149790689		TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:130419221C>T	uc004ewd.2	-	5	837	c.599G>A	c.(598-600)CGC>CAC	p.R200H	IGSF1_uc004ewe.3_Missense_Mutation_p.R189H|IGSF1_uc004ewf.2_Missense_Mutation_p.R180H|IGSF1_uc004ewg.2_Missense_Mutation_p.R200H	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	200	Ig-like C2-type 2.|Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GATATGAGTGCGGCAGATGTA	0.552													30	133					0	0	0.010818	0	0		T	130419221	T	T	130419221	3	4	23	1	0	0	0	0	1	0	0	0	7612	768	27	1	3552	1	IGSF1	23	130419221	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	5120323	130419221	24851339	1453	20781											
TFDP3	51270	broad.mit.edu	37	chrX	132351232	132351232	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcaggtcactggcagaaagCcacgtgccattagacctgga	11	7	12	11	1	2	2	2	0	0	2	2	3	2	3	3	3	2	1	3	3	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:132351232C>A	uc004exb.1	-	1	1145	c.1056G>T	c.(1054-1056)TGG>TGT	p.W352C		NM_016521	NP_057605	Q5H9I0	TFDP3_HUMAN	transcription factor Dp family, member 3	352						transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TGGCAGAAAGCCACGTGCCAT	0.567													5	152					0.00116845	0.00119041	0.001168	1	0		A	132351232	A	A	132351232	3	1	23	1	0	0	0	0	1	0	0	0	15824	740	26	5	165	5	TFDP3	23	132351232	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1932011	132351232	22919328	1454	20782											
GPC3	2719	broad.mit.edu	37	chrX	132887715	132887715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaccacattgcagtaacCgccacagggtttaaccatca	13	8	7	13	1	1	1	1	1	0	0	1	1	1	1	4	1	3	3	4	1	2	4	rs141100113	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:132887715C>T	uc004exe.1	-	3	1016	c.826G>A	c.(826-828)GGT>AGT	p.G276S	GPC3_uc004exd.1_Missense_Mutation_p.G148S|GPC3_uc010nrn.1_Missense_Mutation_p.G276S|GPC3_uc011mvh.1_Missense_Mutation_p.G260S|GPC3_uc010nro.1_Missense_Mutation_p.G222S|GPC3_uc010nrp.1_Missense_Mutation_p.G148S	NM_004484	NP_004475	P51654	GPC3_HUMAN	glypican 3 isoform 2 precursor	276						extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding|peptidyl-dipeptidase inhibitor activity			lung(2)|prostate(1)|breast(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					TTGCAGTAACCGCCACAGGGT	0.483			T|D|Mis|N|F|S			Wilms tumour			Simpson-Golabi-Behmel_syndrome				37	119					0	0	0.01441	0	0		T	132887715	T	T	132887715	3	4	23	1	0	0	0	0	1	0	0	0	6614	652	23	1	1013	1	GPC3	23	132887715	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	536483	132887715	22382845	1455	20783											
MAP7D3	79649	broad.mit.edu	37	chrX	135313852	135313852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccttgggggctacttctgCgctccccttgggaggtgctt	2	13	13	13	1	1	0	0	0	1	0	3	1	3	1	3	4	3	3	3	4	1	5			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:135313852C>T	uc004ezt.2	-	8	1355	c.1264G>A	c.(1264-1266)GCA>ACA	p.A422T	MAP7D3_uc004ezs.2_Missense_Mutation_p.A386T|MAP7D3_uc011mwc.1_Missense_Mutation_p.A404T|MAP7D3_uc010nsa.1_Missense_Mutation_p.A380T	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	422						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					GCTACTTCTGCGCTCCCCTTG	0.612													40	124					0	0	0.00874	0	0		T	135313852	T	T	135313852	3	4	23	1	0	0	0	0	1	0	0	0	9287	768	27	1	1410	1	MAP7D3	23	135313852	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	2426137	135313852	19956708	1456	20784											
SLITRK2	84631	broad.mit.edu	37	chrX	144904851	144904851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagggctccgaaagccagccGgccgcccaaaatgagaaatc	13	3	11	14	3	0	1	0	1	0	1	2	3	1	1	5	2	2	1	5	2	4	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:144904851G>A	uc004fcd.2	+	5	1898	c.908G>A	c.(907-909)CGG>CAG	p.R303Q	SLITRK2_uc010nsp.2_Missense_Mutation_p.R303Q|SLITRK2_uc010nso.2_Missense_Mutation_p.R303Q|SLITRK2_uc011mwq.1_Missense_Mutation_p.R303Q|SLITRK2_uc011mwr.1_Missense_Mutation_p.R303Q|SLITRK2_uc011mws.1_Missense_Mutation_p.R303Q|SLITRK2_uc004fcg.2_Missense_Mutation_p.R303Q|SLITRK2_uc011mwt.1_Missense_Mutation_p.R303Q	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	303	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					AAAGCCAGCCGGCCGCCCAAA	0.547													22	98					0	0	0.00278	0	0		A	144904851	A	A	144904851	3	1	23	1	0	0	0	0	1	0	0	0	14768	1116	39	1	910	1	SLITRK2	23	144904851	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	9590999	144904851	10365709	1457	20785											
FMR1NB	158521	broad.mit.edu	37	chrX	147106459	147106459	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaacaaagaaggaagcgaaAgaggaagtctgaaatgttac	20	5	12	4	1	1	3	0	1	1	2	1	7	1	5	0	2	3	1	0	2	8	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:147106459A>G	uc004fcm.2	+	5	781	c.707A>G	c.(706-708)AAG>AGG	p.K236R		NM_152578	NP_689791	Q8N0W7	FMR1N_HUMAN	fragile X mental retardation 1 neighbor	236	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					AGGAAGCGAAAGAGGAAGTCT	0.413													3	110					0	0	0.004672	0	0		G	147106459	G	G	147106459	3	3	23	1	0	0	0	0	1	0	0	0	5975	72	3	3	725	3	FMR1NB	23	147106459	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	2201608	147106459	8164101	1458	20786											
GPR50	9248	broad.mit.edu	37	chrX	150348463	150348463	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctgccacagcctccagtaCgaacggatcttcagtgtgcg	9	9	10	13	3	3	0	1	0	2	0	4	2	4	1	3	1	5	1	3	1	2	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:150348463C>T	uc010ntg.1	+	2	543	c.408C>T	c.(406-408)TAC>TAT	p.Y136Y	uc004fes.1_5'Flank|GPR50_uc011myc.1_Silent_p.Y136Y	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	136	Cytoplasmic (Potential).				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GCCTCCAGTACGAACGGATCT	0.542													29	78					0	0	0.005524	0	0		T	150348463	T	T	150348463	2	4	23	1	0	0	0	0	0	0	0	1	6712	547	19	1		1	GPR50	23	150348463	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	3242004	150348463	4922097	1459	20787											
CNGA2	1260	broad.mit.edu	37	chrX	150911109	150911109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacctcttcatccgattgcGcacaggtcagtgagcaactg	9	9	11	12	2	3	1	2	1	1	0	4	3	4	2	2	2	3	2	2	2	1	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:150911109G>A	uc004fey.1	+	6	808	c.584G>A	c.(583-585)CGC>CAC	p.R195H		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	195	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ATCCGATTGCGCACAGGTCAG	0.478													23	115					0	0	0.00278	0	0		A	150911109	A	A	150911109	3	1	23	1	0	0	0	0	1	0	0	0	3600	1087	38	1	602	1	CNGA2	23	150911109	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	562646	150911109	4359451	1460	20788											
ATP2B3	492	broad.mit.edu	37	chrX	152845658	152845658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaacaacgccatagacagcGgcatctacctgaccacgcat	14	5	7	15	3	1	2	0	1	1	1	1	2	1	2	3	1	4	2	3	1	4	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:152845658G>A	uc004fht.1	+	20	3691	c.3565G>A	c.(3565-3567)GGC>AGC	p.G1189S	ATP2B3_uc004fhs.1_3'UTR|ATP2B3_uc010nuf.1_Missense_Mutation_p.G326S|ATP2B3_uc004fhu.1_Missense_Mutation_p.G141S	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	1189	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CATAGACAGCGGCATCTACCT	0.627													19	129					0	0	0.007413	0	0		A	152845658	A	A	152845658	3	1	23	1	0	0	0	0	1	0	0	0	1142	1116	39	1	3801	1	ATP2B3	23	152845658	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	1934549	152845658	2424902	1461	20789											
SRPK3	26576	broad.mit.edu	37	chrX	153046961	153046961	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacatctcccctgggcaggCggctaccaccctgtgaagat	8	8	10	15	1	1	2	0	1	1	1	2	2	1	2	4	3	2	2	4	3	3	2			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:153046961C>T	uc004fil.2	+	3	224	c.192C>T	c.(190-192)GGC>GGT	p.G64G	SRPK3_uc004fik.2_Silent_p.G130G|SRPK3_uc010nul.2_Silent_p.G22G|SRPK3_uc004fin.2_Silent_p.G64G|SRPK3_uc004fim.2_Silent_p.G64G	NM_014370	NP_055185	Q9UPE1	SRPK3_HUMAN	serine arginine rich protein-specific kinase 3	64					cell differentiation|muscle organ development|muscle tissue development		ATP binding|protein serine/threonine kinase activity			pancreas(2)|lung(1)	3	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CCTGGGCAGGCGGCTACCACC	0.657													8	42					0	0	0.006214	0	0		T	153046961	T	T	153046961	2	4	23	1	0	0	0	0	0	0	0	1	15186	782	27	1		1	SRPK3	23	153046961	Silent	SNP	C	TCGA-BR-4368-01A-01D-1158-08	201303	153046961	2223599	1462	20790											
SRPK3	26576	broad.mit.edu	37	chrX	153048550	153048550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtggcaacaggcaggggCgccgcccccctcccgctcca	6	3	14	18	3	0	0	0	0	0	0	2	1	2	1	6	5	1	3	6	5	1	0			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:153048550C>T	uc004fil.2	+	7	757	c.725C>T	c.(724-726)GCG>GTG	p.A242V	SRPK3_uc004fik.2_Missense_Mutation_p.A308V|SRPK3_uc010nul.2_Missense_Mutation_p.A200V|SRPK3_uc004fin.2_Missense_Mutation_p.A242V|SRPK3_uc004fim.2_Missense_Mutation_p.A242V	NM_014370	NP_055185	Q9UPE1	SRPK3_HUMAN	serine arginine rich protein-specific kinase 3	242	Protein kinase.				cell differentiation|muscle organ development|muscle tissue development		ATP binding|protein serine/threonine kinase activity			pancreas(2)|lung(1)	3	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CAGGCAGGGGCGCCGCCCCCC	0.667													15	35					0	0	0.00278	0	0		T	153048550	T	T	153048550	3	4	23	1	0	0	0	0	1	0	0	0	15186	768	27	1	751	1	SRPK3	23	153048550	Missense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	1589	153048550	2222010	1463	20791											
IRAK1	3654	broad.mit.edu	37	chrX	153278550	153278550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagctcgattctcctgccGtgtccccctgaggacagccg	5	8	10	18	3	1	1	0	1	1	0	4	3	2	2	6	1	3	1	6	1	0	1	rs35638718	byFrequency	TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:153278550G>A	uc004fjs.1	-	12	1953	c.1874C>T	c.(1873-1875)ACG>ATG	p.T625M	IRAK1_uc004fjr.1_Missense_Mutation_p.T595M|IRAK1_uc004fjt.1_Missense_Mutation_p.T546M|IRAK1_uc010nur.2_Intron	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	625					activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TTCTCCTGCCGTGTCCCCCTG	0.682													7	30					0	0	0.008291	0	0		A	153278550	A	A	153278550	3	1	23	1	0	0	0	0	1	0	0	0	7837	1145	40	1	276	1	IRAK1	23	153278550	Missense_Mutation	SNP	G	TCGA-BR-4368-01A-01D-1158-08	230000	153278550	1992010	1464	20792											
FLNA	2316	broad.mit.edu	37	chrX	153577241	153577241	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcaccacaacgcggtagggGctgcctgggatgtgctcgtc	6	7	16	12	3	0	0	0	0	0	0	2	1	0	1	2	5	3	4	2	5	2	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:153577241G>A	uc004fkk.2	-	48	8169	c.7920C>T	c.(7918-7920)AGC>AGT	p.S2640S	FLNA_uc004fki.2_Silent_p.S680S|FLNA_uc011mzn.1_Silent_p.S773S|FLNA_uc010nuu.1_Silent_p.S2632S	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2640	Self-association site, tail.|Filamin 24.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CGCGGTAGGGGCTGCCTGGGA	0.677													17	39					0	0	0.006122	0	0		A	153577241	A	A	153577241	2	1	23	1	0	0	0	0	0	0	0	1	5947	1194	42	2		2	FLNA	23	153577241	Silent	SNP	G	TCGA-BR-4368-01A-01D-1158-08	298691	153577241	1693319	1465	20793											
FUNDC2	65991	broad.mit.edu	37	chrX	154255310	154255310	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctctacgtgtgtcctcgCgagacaagctcaccgaaatg	10	9	9	13	4	2	1	1	0	1	1	5	3	4	1	3	0	2	1	3	0	3	1			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:154255310C>T	uc004fmw.2	+	1	247	c.97C>T	c.(97-99)CGA>TGA	p.R33*	F8_uc011mzx.1_5'Flank	NM_023934	NP_076423	Q9BWH2	FUND2_HUMAN	FUN14 domain containing 2	33						mitochondrion					0	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TGTGTCCTCGCGAGACAAGCT	0.537													4	14					0	0	0.000602	0	0		T	154255310	T	T	154255310	4	4	23	1	0	0	0	0	0	1	0	0	6112	760	27	1	99	1	FUNDC2	23	154255310	Nonsense_Mutation	SNP	C	TCGA-BR-4368-01A-01D-1158-08	678069	154255310	1015250	1466	20794											
VAMP7	6845	broad.mit.edu	37	chrX	155119136	155119136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatagactgaagccatggcgAttctttttgctgttgttgcc	7	15	11	8	1	1	2	0	1	1	1	1	4	1	2	2	1	3	3	2	1	2	6			TCGA-BR-4368-01A-01D-1158-08	TCGA-BR-4368-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f320a44-6403-4052-a943-34da7c12efd4	c4eb03db-0517-4ea5-af47-2b5bd1dc43af	g.chrX:155119136A>G	uc004fnr.2	+	2	181	c.7A>G	c.(7-9)ATT>GTT	p.I3V	VAMP7_uc004fnt.2_Missense_Mutation_p.I3V|VAMP7_uc011naa.1_5'UTR|VAMP7_uc011nab.1_5'UTR|VAMP7_uc004fns.2_Missense_Mutation_p.I3V|VAMP7_uc011nac.1_5'UTR	NM_005638	NP_005629	P51809	VAMP7_HUMAN	vesicle-associated membrane protein 7 isoform 1	3	Cytoplasmic (Potential).				calcium ion-dependent exocytosis|endosome to lysosome transport|eosinophil degranulation|ER to Golgi vesicle-mediated transport|neutrophil degranulation|phagocytosis, engulfment|post-Golgi vesicle-mediated transport|protein transport|vesicle fusion	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|phagocytic vesicle membrane|plasma membrane|SNARE complex|transport vesicle membrane	protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					AGCCATGGCGATTCTTTTTGC	0.398													8	133					0	0	0.008291	0	0		G	155119136	G	G	155119136	3	3	23	1	0	0	0	0	1	0	0	0	17143	333	12	3	9	3	VAMP7	23	155119136	Missense_Mutation	SNP	A	TCGA-BR-4368-01A-01D-1158-08	863826	155119136	151424	1467	20795											
AKR7A2	8574	broad.mit.edu	37	chr1	19632583	19632583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggggcgctggcgccatatgCggcctgcagggccttctcca	4	7	16	14	3	1	0	0	0	1	0	2	0	1	0	4	5	2	2	4	5	1	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:19632583C>T	uc001bbw.2	-	6	869	c.847G>A	c.(847-849)GCA>ACA	p.A283T	AKR7A2_uc001bbx.2_Missense_Mutation_p.A248T	NM_003689	NP_003680	O43488	ARK72_HUMAN	aldo-keto reductase family 7, member A2	283					carbohydrate metabolic process|cellular aldehyde metabolic process	Golgi apparatus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00461)|BRCA - Breast invasive adenocarcinoma(304;1.83e-05)|Kidney(64;0.000167)|GBM - Glioblastoma multiforme(114;0.00115)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GCGCCATATGCGGCCTGCAGG	0.632													4	145					0	0	0.009096	0	0		T	19632583	T	T	19632583	3	4	24	1	0	0	0	0	1	0	0	0	475	768	27	1	240	1	AKR7A2	1	19632583	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08		19632583	229618038	1	20796											
SLC9A1	6548	broad.mit.edu	37	chr1	27434258	27434258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgagggtctcgctgacgCtgctccacatcttcaggaag	9	9	12	11	2	3	3	1	2	2	1	5	4	4	4	1	2	1	3	1	2	1	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:27434258C>T	uc001bnm.2	-	4	1789	c.1163G>A	c.(1162-1164)AGC>AAC	p.S388N	SLC9A1_uc010ofk.1_Missense_Mutation_p.S49N|SLC9A1_uc001bnn.2_Missense_Mutation_p.S388N	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	388					regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	CTCGCTGACGCTGCTCCACAT	0.582													7	6					0	0	0.038147	0	0		T	27434258	T	T	27434258	3	4	24	1	0	0	0	0	1	0	0	0	14734	797	28	2	1320	2	SLC9A1	1	27434258	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	7801675	27434258	221816363	2	20797											
RBBP4	5928	broad.mit.edu	37	chr1	33134400	33134400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acatcagaaggaaggctatgGgctttcttggaacccaaatc	13	9	10	9	0	2	1	1	0	1	1	3	3	2	3	1	4	1	2	1	4	5	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:33134400G>A	uc001bvr.2	+	5	704	c.545G>A	c.(544-546)GGG>GAG	p.G182E	RBBP4_uc001bvs.2_Missense_Mutation_p.G181E|RBBP4_uc010ohj.1_5'UTR|RBBP4_uc010ohk.1_Missense_Mutation_p.G147E	NM_005610	NP_005601	Q09028	RBBP4_HUMAN	retinoblastoma binding protein 4 isoform a	182	WD 2.				cell cycle|CenH3-containing nucleosome assembly at centromere|DNA replication|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|ESC/E(Z) complex|NuRD complex|NURF complex|Sin3 complex	histone binding|histone deacetylase binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				GAAGGCTATGGGCTTTCTTGG	0.488													44	113					0	0	0.048971	0	0		A	33134400	A	A	33134400	3	1	24	1	0	0	0	0	1	0	0	0	13126	1232	43	4	563	4	RBBP4	1	33134400	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	5700142	33134400	216116221	3	20798											
MAP7D1	55700	broad.mit.edu	37	chr1	36642154	36642154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgggggcagccccgctcCggtgcgccgccggccggagg	2	2	19	18	8	0	0	0	0	0	0	1	1	1	1	7	6	2	2	7	6	0	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:36642154C>T	uc001bzz.2	+	7	1421	c.1205C>T	c.(1204-1206)CCG>CTG	p.P402L	MAP7D1_uc001caa.2_Missense_Mutation_p.P370L|MAP7D1_uc001cab.2_Missense_Mutation_p.P365L|MAP7D1_uc001cac.2_Missense_Mutation_p.P102L|MAP7D1_uc001cad.2_5'Flank	NM_018067	NP_060537	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	402						cytoplasm|spindle				ovary(3)|breast(2)	5		Myeloproliferative disorder(586;0.0393)				AGCCCCGCTCCGGTGCGCCGC	0.781													3	18					0	0	0.004672	0	0		T	36642154	T	T	36642154	3	4	24	1	0	0	0	0	1	0	0	0	9285	652	23	1	1231	1	MAP7D1	1	36642154	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	3507754	36642154	212608467	4	20799											
RLF	6018	broad.mit.edu	37	chr1	40703533	40703533	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccatttgtgcttctaaaagGccctgtacagaggataccat	11	12	8	10	0	1	1	0	0	1	1	2	2	2	2	3	2	3	2	3	2	4	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:40703533G>T	uc001cfc.3	+	8	3190	c.3159G>T	c.(3157-3159)AGG>AGT	p.R1053S	RLF_uc001cfd.3_Missense_Mutation_p.R744S	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	1053					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			CTTCTAAAAGGCCCTGTACAG	0.398													9	129					0.00448238	0.00455269	0.047766	1	0		T	40703533	T	T	40703533	3	4	24	1	0	0	0	0	1	0	0	0	13414	1194	42	5	3189	5	RLF	1	40703533	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	4061379	40703533	208547088	5	20800											
SLFNL1	200172	broad.mit.edu	37	chr1	41483646	41483646	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagagctggtccttgcccacGatctgctggtgcacaatggc	8	9	12	12	1	1	1	0	0	1	1	2	2	2	1	2	3	4	3	2	3	2	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:41483646G>A	uc001cgm.1	-	3	838	c.618C>T	c.(616-618)ATC>ATT	p.I206I	SLFNL1_uc009vwf.1_Silent_p.I206I|SLFNL1_uc001cgn.1_Silent_p.I147I|SLFNL1_uc009vwg.1_Silent_p.I206I	NM_144990	NP_659427	Q499Z3	SLNL1_HUMAN	schlafen-like 1	206							ATP binding			skin(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0393)				CCTTGCCCACGATCTGCTGGT	0.657													17	27					0	0	0.038395	0	0		A	41483646	A	A	41483646	2	1	24	1	0	0	0	0	0	0	0	1	14763	1048	37	1		1	SLFNL1	1	41483646	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	780113	41483646	207766975	6	20801											
PIK3R3	8503	broad.mit.edu	37	chr1	46597556	46597556	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atataaaatatcagttctgtCgaatagggcatcatcacctc	14	12	6	9	1	4	0	3	0	1	0	6	1	4	0	1	1	0	2	1	1	6	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:46597556C>T	uc001cpb.3	-	1	825	c.69G>A	c.(67-69)TCG>TCA	p.S23S	PIK3R3_uc009vyb.2_Silent_p.S23S|PIK3R3_uc009vyc.2_Silent_p.S40S|PIK3R3_uc001cpc.3_Silent_p.S23S|PIK3R3_uc010olw.1_Intron	NM_003629	NP_003620	Q92569	P55G_HUMAN	phosphoinositide-3-kinase, regulatory subunit 3	23					insulin receptor signaling pathway|platelet activation|T cell costimulation		1-phosphatidylinositol-3-kinase activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					TCAGTTCTGTCGAATAGGGCA	0.463													39	175					0	0	0.09836	0	0		T	46597556	T	T	46597556	2	4	24	1	0	0	0	0	0	0	0	1	11939	871	31	1		1	PIK3R3	1	46597556	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	5113910	46597556	202653065	7	20802											
WDR78	79819	broad.mit.edu	37	chr1	67356850	67356850	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcattacctgtgaaactagtCaatctttcccgtttatagga	11	15	6	9	1	3	1	2	1	1	0	4	2	4	2	2	1	2	1	2	1	6	6			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:67356850C>T	uc001dcx.2	-	4	686	c.630G>A	c.(628-630)TTG>TTA	p.L210L	WDR78_uc001dcy.2_Silent_p.L210L|WDR78_uc001dcz.2_Silent_p.L210L|WDR78_uc009wax.2_5'Flank	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	210										ovary(2)	2						TGAAACTAGTCAATCTTTCCC	0.343													71	262					0	0	0.048971	0	0		T	67356850	T	T	67356850	2	4	24	1	0	0	0	0	0	0	0	1	17354	825	29	4		4	WDR78	1	67356850	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	20759294	67356850	181893771	8	20803											
SLC35D1	23169	broad.mit.edu	37	chr1	67512967	67512967	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttgaatctaatttttgtTttacgtatgcaccatttgct	8	21	5	7	1	1	1	0	1	1	0	1	1	1	1	1	0	3	4	1	0	4	9			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:67512967T>G	uc001ddk.2	-	7	1001	c.617A>C	c.(616-618)AAA>ACA	p.K206T	SLC35D1_uc010oph.1_Missense_Mutation_p.K127T	NM_015139	NP_055954	Q9NTN3	S35D1_HUMAN	solute carrier family 35 (UDP-glucuronic	206					chondroitin sulfate biosynthetic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	integral to endoplasmic reticulum membrane	UDP-glucuronic acid transmembrane transporter activity|UDP-N-acetylgalactosamine transmembrane transporter activity				0					Lorazepam(DB00186)	TAATTTTTGTTTTACGTATGC	0.353													5	53					0	0	0.014758	0	0		G	67512967	G	G	67512967	3	3	24	1	0	0	0	0	1	0	0	0	14606	1841	64	5	474	5	SLC35D1	1	67512967	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	156117	67512967	181737654	9	20804											
COL24A1	255631	broad.mit.edu	37	chr1	86355275	86355275	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtcctctgtcacctgtacTtccaggcaatccctgtaaac	10	11	6	14	0	2	0	1	0	1	0	5	0	5	0	4	1	2	3	4	1	5	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:86355275T>G	uc001dlj.2	-	32	2986	c.2944A>C	c.(2944-2946)AGT>CGT	p.S982R	COL24A1_uc001dli.2_Missense_Mutation_p.S118R|COL24A1_uc010osd.1_Missense_Mutation_p.S282R|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	982	Collagen-like 8.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		TCACCTGTACTTCCAGGCAAT	0.373													25	105					0	0	0.034045	0	0		G	86355275	G	G	86355275	3	3	24	1	0	0	0	0	1	0	0	0	3686	1609	56	5	2316	5	COL24A1	1	86355275	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	18842308	86355275	162895346	10	20805											
HFM1	164045	broad.mit.edu	37	chr1	91850767	91850767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttctgtgacagccttcaagGaacctaaaccattttctgtt	10	15	6	10	0	3	1	1	1	2	0	3	2	3	2	3	1	3	1	3	1	4	6			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:91850767G>A	uc001doa.3	-	6	879	c.779C>T	c.(778-780)TCC>TTC	p.S260F	HFM1_uc010osu.1_Intron|HFM1_uc010osv.1_Intron|HFM1_uc001doc.1_Missense_Mutation_p.S260F	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	260							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		AGCCTTCAAGGAACCTAAACC	0.254													17	48					0	0	0.038395	0	0		A	91850767	A	A	91850767	3	1	24	1	0	0	0	0	1	0	0	0	7099	1174	41	4	3664	4	HFM1	1	91850767	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	5495492	91850767	157399854	11	20806											
AP4B1	10717	broad.mit.edu	37	chr1	114437899	114437899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacccagccctactcattgCgatggtctggatgttcacta	9	11	9	12	1	3	1	2	0	1	1	3	3	3	2	2	2	3	1	2	2	2	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:114437899C>T	uc001eeb.2	-	10	2151	c.2008G>A	c.(2008-2010)GCA>ACA	p.A670T	uc001edv.1_Intron|AP4B1_uc001eec.2_Missense_Mutation_p.A502T|AP4B1_uc001eed.2_Missense_Mutation_p.A670T|AP4B1_uc010owp.1_Missense_Mutation_p.A571T|AP4B1_uc001eea.1_3'UTR|AP4B1_uc001eee.1_3'UTR	NM_006594	NP_006585	Q9Y6B7	AP4B1_HUMAN	adaptor-related protein complex 4, beta 1	670					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|soluble fraction|trans-Golgi network	protein binding|protein transporter activity			ovary(3)|central_nervous_system(1)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.1e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTACTCATTGCGATGGTCTGG	0.502													31	69					0	0	0.064281	0	0		T	114437899	T	T	114437899	3	4	24	1	0	0	0	0	1	0	0	0	751	768	27	1	215	1	AP4B1	1	114437899	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	22587132	114437899	134812722	12	20807											
TDRD10	126668	broad.mit.edu	37	chr1	154516536	154516536	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggcggggctgctggtgAcgagtatcgtcccgaagacc	7	6	18	10	4	0	2	0	1	0	1	2	5	1	3	2	5	1	3	2	5	2	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:154516536A>G	uc009wow.2	+	9	1439	c.601A>G	c.(601-603)ACG>GCG	p.T201A	TDRD10_uc001ffd.2_Missense_Mutation_p.T201A|TDRD10_uc001ffe.2_Missense_Mutation_p.T122A	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	201							nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			GCTGCTGGTGACGAGTATCGT	0.622													22	185					0	0	0.076483	0	0		G	154516536	G	G	154516536	3	3	24	1	0	0	0	0	1	0	0	0	15756	275	10	3	631	3	TDRD10	1	154516536	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	40078637	154516536	94734085	13	20808											
CD1E	913	broad.mit.edu	37	chr1	158324409	158324409	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcactgttccagttatacTtccatagttttatccagata	11	16	5	9	0	1	1	1	0	0	1	4	1	4	1	3	0	1	3	3	0	5	8			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:158324409T>G	uc001fse.2	+	2	540	c.301T>G	c.(301-303)TTC>GTC	p.F101V	CD1E_uc010pid.1_Missense_Mutation_p.F99V|CD1E_uc010pie.1_Intron|CD1E_uc010pif.1_Intron|CD1E_uc001fsd.2_Missense_Mutation_p.F101V|CD1E_uc001fsk.2_Missense_Mutation_p.F101V|CD1E_uc001fsj.2_Missense_Mutation_p.F101V|CD1E_uc001fsc.2_Intron|CD1E_uc010pig.1_Intron|CD1E_uc001fsa.2_Intron|CD1E_uc001fsf.2_Missense_Mutation_p.F101V|CD1E_uc001fry.2_Missense_Mutation_p.F101V|CD1E_uc001fsg.2_Intron|CD1E_uc001fsh.2_Intron|CD1E_uc001fsi.2_Missense_Mutation_p.F101V|CD1E_uc009wsv.2_Intron|CD1E_uc001frz.2_Missense_Mutation_p.F101V|CD1E_uc009wsw.2_5'Flank	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	101					antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					CCAGTTATACTTCCATAGTTT	0.453													26	74					0	0	0.030593	0	0		G	158324409	G	G	158324409	3	3	24	1	0	0	0	0	1	0	0	0	2981	1609	56	5	307	5	CD1E	1	158324409	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	3807873	158324409	90926212	14	20809											
OR10Z1	128368	broad.mit.edu	37	chr1	158576892	158576892	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatctcctacgcctacatcTtggcagcaatactgaggatc	10	10	7	14	1	2	1	0	1	2	0	4	2	2	2	3	2	4	2	3	2	4	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:158576892T>C	uc010pio.1	+	1	664	c.664T>C	c.(664-666)TTG>CTG	p.L222L		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					CGCCTACATCTTGGCAGCAAT	0.512													57	320					0	0	0.048971	0	0		C	158576892	C	C	158576892	2	2	24	1	0	0	0	0	0	0	0	1	10942	1606	56	3		3	OR10Z1	1	158576892	Silent	SNP	T	TCGA-BR-4369-01A-01D-1158-08	252483	158576892	90673729	15	20810											
SPTA1	6708	broad.mit.edu	37	chr1	158606534	158606534	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatagtcctgggagctcActcgtatcaacttctcccta	8	12	6	15	1	3	0	2	0	1	0	7	1	5	1	3	1	2	2	3	1	4	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:158606534A>C	uc001fst.1	-	37	5406	c.5207T>G	c.(5206-5208)GTG>GGG	p.V1736G		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1736	Spectrin 17.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CTGGGAGCTCACTCGTATCAA	0.473													66	201					0	0	0.048971	0	0		C	158606534	C	C	158606534	3	2	24	1	0	0	0	0	1	0	0	0	15141	159	6	5	2116	5	SPTA1	1	158606534	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	29642	158606534	90644087	16	20811											
CADM3	57863	broad.mit.edu	37	chr1	159169651	159169651	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcttccttggccactacTtgatccggcacaaaggtcag	9	11	8	13	1	3	1	2	1	1	0	5	1	5	1	3	3	1	1	3	3	2	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:159169651T>G	uc001ftl.2	+	8	1205	c.1063T>G	c.(1063-1065)TTG>GTG	p.L355V	CADM3_uc001ftk.2_Missense_Mutation_p.L389V|uc001ftm.1_Splice_Site	NM_001127173	NP_001120645	Q8N126	CADM3_HUMAN	cell adhesion molecule 3 isoform 2	355	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|heterophilic cell-cell adhesion|homophilic cell adhesion	cell-cell junction|integral to membrane	protein homodimerization activity			ovary(2)	2	all_hematologic(112;0.0429)					TGGCCACTACTTGATCCGGCA	0.567													16	67					0	0	0.038395	0	0		G	159169651	G	G	159169651	3	3	24	1	0	0	0	0	1	0	0	0	2571	1606	56	5	1199	5	CADM3	1	159169651	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	563117	159169651	90080970	17	20812											
FCRLA	84824	broad.mit.edu	37	chr1	161682977	161682977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgggcctctgcctccgcCgccaaccccatcttctgagg	4	8	9	20	2	3	1	0	1	3	0	4	1	4	1	8	2	2	0	8	2	1	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:161682977C>T	uc001gbe.2	+	6	1198	c.956C>T	c.(955-957)CCG>CTG	p.P319L	FCRLA_uc001gbd.2_Missense_Mutation_p.P313L|FCRLA_uc001gbf.2_Missense_Mutation_p.P224L|FCRLA_uc001gbg.2_Missense_Mutation_p.P173L|FCRLA_uc009wuo.2_Missense_Mutation_p.P179L|FCRLA_uc009wup.2_Missense_Mutation_p.P129L|FCRLA_uc009wuq.2_Missense_Mutation_p.P78L	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	296	Pro-rich.				cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			CTGCCTCCGCCGCCAACCCCA	0.572													52	158					0	0	0.048971	0	0		T	161682977	T	T	161682977	3	4	24	1	0	0	0	0	1	0	0	0	5814	652	23	1	978	1	FCRLA	1	161682977	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	2513326	161682977	87567644	18	20813											
PIGC	5279	broad.mit.edu	37	chr1	172411186	172411186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcatgcagggaccggggaaGacgtgatgccaagcatacag	12	4	16	9	2	0	2	0	1	0	1	0	4	0	4	2	4	4	3	2	4	3	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:172411186G>A	uc001gil.2	-	2	858	c.577C>T	c.(577-579)CTT>TTT	p.L193F	PIGC_uc001gii.1_Intron|PIGC_uc001gij.1_Intron|C1orf105_uc001gik.2_Intron|PIGC_uc001gin.2_Missense_Mutation_p.L193F|PIGC_uc001gio.2_Missense_Mutation_p.L193F	NM_153747	NP_714969	Q92535	PIGC_HUMAN	phosphatidylinositol glycan, class C	193					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity			lung(1)	1						GACCGGGGAAGACGTGATGCC	0.483													35	94					0	0	0.059317	0	0		A	172411186	A	A	172411186	3	1	24	1	0	0	0	0	1	0	0	0	11905	942	33	4	320	4	PIGC	1	172411186	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	10728209	172411186	76839435	19	20814											
TNFSF18	8995	broad.mit.edu	37	chr1	173010835	173010835	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcagaagatgccatttgcCattttgagggtaatggtcct	9	14	11	7	0	1	3	1	1	0	2	2	3	2	3	3	2	2	2	3	2	2	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:173010835C>T	uc001giu.2	-	3	273	c.272G>A	c.(271-273)TGG>TAG	p.W91*		NM_005092	NP_005083	Q9UNG2	TNF18_HUMAN	tumor necrosis factor (ligand) superfamily,	91	Extracellular (Potential).				anti-apoptosis|cell-cell signaling|immune response|signal transduction	extracellular space|integral to membrane	cytokine activity|tumor necrosis factor receptor binding			central_nervous_system(1)	1						TGCCATTTGCCATTTTGAGGG	0.348													39	233					0	0	0.11126	0	0		T	173010835	T	T	173010835	4	4	24	1	0	0	0	0	0	1	0	0	16334	595	21	4	331	4	TNFSF18	1	173010835	Nonsense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	599649	173010835	76239786	20	20815											
CR2	1380	broad.mit.edu	37	chr1	207640231	207640231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaataatatgtgggggcCgacacgactaccaacctgtg	13	7	11	10	2	0	0	0	0	0	0	0	2	0	0	3	2	3	1	3	2	5	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:207640231C>T	uc001hfw.2	+	2	513	c.419C>T	c.(418-420)CCG>CTG	p.P140L	CR2_uc001hfv.2_Missense_Mutation_p.P140L|CR2_uc009xch.2_Missense_Mutation_p.P140L	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	140	Sushi 2.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						ATGTGGGGGCCGACACGACTA	0.478													5	122					0	0	0.021553	0	0		T	207640231	T	T	207640231	3	4	24	1	0	0	0	0	1	0	0	0	3845	652	23	1	425	1	CR2	1	207640231	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	34629396	207640231	41610390	21	20816											
CENPF	1063	broad.mit.edu	37	chr1	214814102	214814102	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggagaacaaggaagcatGccttcagagaggagtgaatg	15	7	14	5	0	1	3	1	1	0	2	1	7	1	5	1	3	3	1	1	3	4	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:214814102G>T	uc001hkm.2	+	12	2595	c.2421G>T	c.(2419-2421)ATG>ATT	p.M807I		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	807					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		AAGGAAGCATGCCTTCAGAGA	0.393													22	73					3.8784e-16	4.15085e-16	0.062417	1	0		T	214814102	T	T	214814102	3	4	24	1	0	0	0	0	1	0	0	0	3234	1319	46	5	2463	5	CENPF	1	214814102	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	7173871	214814102	34436519	22	20817											
ESRRG	2104	broad.mit.edu	37	chr1	216692753	216692753	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctggtccgccagggacagCgtggagaagcctgcatggaa	10	6	15	10	2	1	1	0	0	1	1	2	4	2	3	3	4	3	1	3	4	2	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:216692753C>T	uc001hkw.1	-	6	1039	c.873G>A	c.(871-873)ACG>ACA	p.T291T	ESRRG_uc001hky.1_Silent_p.T268T|ESRRG_uc009xdp.1_Silent_p.T268T|ESRRG_uc001hkz.1_Silent_p.T229T|ESRRG_uc010puc.1_Silent_p.T268T|ESRRG_uc001hla.1_Silent_p.T268T|ESRRG_uc001hlb.1_Silent_p.T268T|ESRRG_uc010pud.1_Silent_p.T99T|ESRRG_uc001hlc.1_Silent_p.T268T|ESRRG_uc001hld.1_Silent_p.T268T|ESRRG_uc001hkx.1_Silent_p.T303T|ESRRG_uc009xdo.1_Silent_p.T268T|ESRRG_uc001hle.1_Silent_p.T268T	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	291					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	CCAGGGACAGCGTGGAGAAGC	0.453													13	48					0	0	0.105934	0	0		T	216692753	T	T	216692753	2	4	24	1	0	0	0	0	0	0	0	1	5270	755	27	1		1	ESRRG	1	216692753	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	1878651	216692753	32557868	23	20818											
EPRS	2058	broad.mit.edu	37	chr1	220193402	220193402	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcactgtgttgttgagatttAgccgactatattcccaaata	11	14	8	8	1	0	1	0	1	0	1	1	3	1	1	2	0	1	3	2	0	5	8			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:220193402A>T	uc001hly.1	-	10	1547	c.1277T>A	c.(1276-1278)CTA>CAA	p.L426Q	EPRS_uc010puf.1_Missense_Mutation_p.L177Q|EPRS_uc001hlz.1_Missense_Mutation_p.L426Q|EPRS_uc009xdt.1_Intron	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	426	Glutamyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	GTTGAGATTTAGCCGACTATA	0.363													74	158					0	0	0.048971	0	0		T	220193402	T	T	220193402	3	4	24	1	0	0	0	0	1	0	0	0	5199	420	15	5	3353	5	EPRS	1	220193402	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	3500649	220193402	29057219	24	20819											
KIAA1804	84451	broad.mit.edu	37	chr1	233498012	233498012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagtcgtttaaagctcaaaGatggacatcgaatcagttta	15	11	9	6	2	2	1	2	0	0	1	4	4	2	2	0	1	1	3	0	1	6	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:233498012G>A	uc001hvt.3	+	5	1786	c.1525G>A	c.(1525-1527)GAT>AAT	p.D509N	KIAA1804_uc001hvs.1_Missense_Mutation_p.D509N	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	509					activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				AAAGCTCAAAGATGGACATCG	0.378													10	123					0	0	0.080935	0	0		A	233498012	A	A	233498012	3	1	24	1	0	0	0	0	1	0	0	0	8275	942	33	4	1543	4	KIAA1804	1	233498012	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	13304610	233498012	15752609	25	20820											
AHCTF1	25909	broad.mit.edu	37	chr1	247054343	247054343	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtgggaaaccacaaacttAttgcttaagtctatcagtcc	13	11	8	9	0	2	0	1	0	1	0	3	1	3	1	2	2	3	1	2	2	5	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:247054343A>G	uc001ibu.1	-	15	1972	c.1965T>C	c.(1963-1965)AAT>AAC	p.N655N	AHCTF1_uc001ibv.1_Silent_p.N664N|AHCTF1_uc009xgs.1_5'UTR	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	655	Necessary for cytoplasmic localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			CCACAAACTTATTGCTTAAGT	0.353													25	64					0	0	0.037714	0	0		G	247054343	G	G	247054343	2	3	24	1	0	0	0	0	0	0	0	1	408	446	16	3		3	AHCTF1	1	247054343	Silent	SNP	A	TCGA-BR-4369-01A-01D-1158-08	13556331	247054343	2196278	26	20821											
ZNF670	93474	broad.mit.edu	37	chr1	247201286	247201286	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagttctttcatgttcacgaAgataacttgaataattgaag	14	14	8	5	1	3	3	2	2	1	1	3	5	3	3	0	0	1	2	0	0	5	7			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:247201286A>C	uc001icd.1	-	4	806	c.635T>G	c.(634-636)CTT>CGT	p.L212R	ZNF695_uc001ica.2_Intron|ZNF695_uc001icb.1_Intron	NM_033213	NP_149990	Q9BS34	ZN670_HUMAN	zinc finger protein 670	212	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00427)			ATGTTCACGAAGATAACTTGA	0.348													22	69					0	0	0.069288	0	0		C	247201286	C	C	247201286	3	2	24	1	0	0	0	0	1	0	0	0	18102	72	3	5	538	5	ZNF670	1	247201286	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	146943	247201286	2049335	27	20822											
OR2L3	391192	broad.mit.edu	37	chr1	248224727	248224727	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccacctcactgtagtaacTttctactatgcaccttttgt	9	15	4	13	0	2	0	1	0	1	0	2	0	2	0	3	0	3	3	3	0	4	7			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr1:248224727T>C	uc001idx.1	+	1	744	c.744T>C	c.(742-744)ACT>ACC	p.T248T	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			CTGTAGTAACTTTCTACTATG	0.502													29	354					0	0	0.041601	0	0		C	248224727	C	C	248224727	2	2	24	1	0	0	0	0	0	0	0	1	11027	1596	56	3		3	OR2L3	1	248224727	Silent	SNP	T	TCGA-BR-4369-01A-01D-1158-08	1023441	248224727	1025894	28	20823											
SNTG2	54221	broad.mit.edu	37	chr2	1271173	1271173	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgctggttgcaagcaaacTtgtatctgggtcttcaagat	10	13	10	8	0	3	1	1	0	2	1	3	1	3	1	0	2	4	5	0	2	4	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:1271173T>A	uc002qwq.2	+	14	1242	c.1114T>A	c.(1114-1116)TTG>ATG	p.L372M	SNTG2_uc010ewi.2_Missense_Mutation_p.L245M	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	372	PH.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		GCAAGCAAACTTGTATCTGGG	0.522													6	12					0	0	0.021553	0	0		A	1271173	A	A	1271173	3	1	24	1	0	0	0	0	1	0	0	0	14900	1606	56	5	1168	5	SNTG2	2	1271173	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08		1271173	241928200	29	20824											
PAPOLG	64895	broad.mit.edu	37	chr2	61021178	61021178	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgtagtaggacgaaatgTcattcctagaatcacaacac	15	9	7	10	2	2	1	2	0	0	1	3	3	3	2	2	1	2	2	2	1	7	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:61021178T>C	uc002sai.2	+	19	2072	c.1841T>C	c.(1840-1842)GTC>GCC	p.V614A	PAPOLG_uc002saj.2_Missense_Mutation_p.V303A|PAPOLG_uc002sak.2_Missense_Mutation_p.V149A|PAPOLG_uc010fch.2_Missense_Mutation_p.V303A	NM_022894	NP_075045	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma	614					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(2;0.0797)		LUSC - Lung squamous cell carcinoma(5;1.19e-07)|Lung(5;2.86e-06)|Epithelial(17;0.0768)			GGACGAAATGTCATTCCTAGA	0.408													56	135					0	0	0.048971	0	0		C	61021178	C	C	61021178	3	2	24	1	0	0	0	0	1	0	0	0	11450	1667	58	3	1915	3	PAPOLG	2	61021178	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	59750005	61021178	182178195	30	20825											
PROKR1	10887	broad.mit.edu	37	chr2	68882442	68882442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctacggcttcaccatcGtgcgcgacttcttccccacc	5	11	6	19	4	3	0	1	0	2	0	5	1	4	0	5	1	2	1	5	1	1	5	rs143892402	byFrequency	TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:68882442G>A	uc010yqj.1	+	2	916	c.916G>A	c.(916-918)GTG>ATG	p.V306M	PROKR1_uc002ses.2_RNA	NM_138964	NP_620414	Q8TCW9	PKR1_HUMAN	G protein-coupled receptor 73	306	Extracellular (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1						CTTCACCATCGTGCGCGACTT	0.587													13	89					0	0	0.09319	0	0		A	68882442	A	A	68882442	3	1	24	1	0	0	0	0	1	0	0	0	12574	1145	40	1	922	1	PROKR1	2	68882442	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	7861264	68882442	174316931	31	20826											
REG3G	130120	broad.mit.edu	37	chr2	79255020	79255020	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaaaatccctccaccatcTtaaaccctggccactgtggg	12	8	7	14	0	1	1	0	0	1	1	3	1	3	1	5	2	1	0	5	2	4	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:79255020T>G	uc002snw.2	+	5	506	c.421T>G	c.(421-423)TTA>GTA	p.L141V	REG3G_uc002snx.2_Missense_Mutation_p.L141V|REG3G_uc010ffu.2_Missense_Mutation_p.L95V	NM_198448	NP_940850	Q6UW15	REG3G_HUMAN	regenerating islet-derived 3 gamma precursor	141	C-type lectin.				acute-phase response	extracellular region	sugar binding				0						CTCCACCATCTTAAACCCTGG	0.498													73	180					0	0	0.048971	0	0		G	79255020	G	G	79255020	3	3	24	1	0	0	0	0	1	0	0	0	13238	1606	56	5	435	5	REG3G	2	79255020	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	10372578	79255020	163944353	32	20827											
EIF2AK3	9451	broad.mit.edu	37	chr2	88889965	88889965	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatacatttactcacccaaGtaaacactgttttctgtggc	12	13	6	10	0	2	1	1	0	1	1	2	1	2	1	1	1	3	2	1	1	5	6			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:88889965G>A	uc002stc.3	-	6	1363	c.1161C>T	c.(1159-1161)TAC>TAT	p.Y387Y		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	387	Lumenal (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						ACTCACCCAAGTAAACACTGT	0.358													43	151					0	0	0.048971	0	0		A	88889965	A	A	88889965	2	1	24	1	0	0	0	0	0	0	0	1	5004	1024	36	4		4	EIF2AK3	2	88889965	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	9634945	88889965	154309408	33	20828											
TEKT4	150483	broad.mit.edu	37	chr2	95540714	95540714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggagctggaggacgcgCggtacaagctgcatcaccac	10	5	15	11	3	1	1	1	1	0	0	1	4	1	4	1	4	4	4	1	4	2	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:95540714C>T	uc002stw.1	+	4	1000	c.907C>T	c.(907-909)CGG>TGG	p.R303W	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	303					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						GGAGGACGCGCGGTACAAGCT	0.667													8	27					0	0	0.058154	0	0		T	95540714	T	T	95540714	3	4	24	1	0	0	0	0	1	0	0	0	15780	759	27	1	921	1	TEKT4	2	95540714	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	6650749	95540714	147658659	34	20829											
RNF149	284996	broad.mit.edu	37	chr2	101893708	101893708	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcacgtgtgctaggagaTgggtcctccatgccgagagt	7	9	16	9	2	0	2	0	0	0	2	2	4	2	2	3	3	2	2	3	3	1	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:101893708T>A	uc002taz.1	-	7	1297	c.1195A>T	c.(1195-1197)ATC>TTC	p.I399F	RNF149_uc002tax.1_Intron	NM_173647	NP_775918	Q8NC42	RN149_HUMAN	ring finger protein 149 precursor	399						integral to membrane	ligase activity|zinc ion binding			ovary(1)|breast(1)	2						TGCTAGGAGATGGGTCCTCCA	0.448													12	28					0	0	0.028581	0	0		A	101893708	A	A	101893708	3	1	24	1	0	0	0	0	1	0	0	0	13475	1464	51	5	11	5	RNF149	2	101893708	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	6352994	101893708	141305665	35	20830											
CNTNAP5	129684	broad.mit.edu	37	chr2	124999958	124999958	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaaacagtacaaacaagaAgacagcatctgggtaggaca	18	5	11	7	0	1	2	0	0	1	2	1	4	1	4	0	3	4	3	0	3	6	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:124999958A>C	uc002tno.2	+	3	733	c.369A>C	c.(367-369)GAA>GAC	p.E123D	CNTNAP5_uc010flu.2_Missense_Mutation_p.E123D	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	123	F5/8 type C.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		ACAAACAAGAAGACAGCATCT	0.448													3	43					0	0	0.004672	0	0		C	124999958	C	C	124999958	3	2	24	1	0	0	0	0	1	0	0	0	3653	69	3	5	379	5	CNTNAP5	2	124999958	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	23106250	124999958	118199415	36	20831											
ERCC3	2071	broad.mit.edu	37	chr2	128051203	128051203	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacctgcttccccgccgcCgagggaaccgcttcctgagg	5	7	11	18	4	0	1	0	1	0	0	3	3	3	2	8	2	2	2	8	2	1	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:128051203C>A	uc002toh.1	-	2	215	c.120G>T	c.(118-120)TCG>TCT	p.S40S	ERCC3_uc002toe.1_5'Flank|ERCC3_uc002tof.1_5'UTR|ERCC3_uc002tog.1_5'UTR|ERCC3_uc010flx.1_5'UTR|ERCC3_uc010yzh.1_RNA|ERCC3_uc010fly.2_Silent_p.S40S	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	40					cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		TCCCCGCCGCCGAGGGAACCG	0.567			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				9	154					4.68919e-08	4.87751e-08	0.069234	1	0		A	128051203	A	A	128051203	2	1	24	1	0	0	0	0	0	0	0	1	5222	639	23	5		5	ERCC3	2	128051203	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	3051245	128051203	115148170	37	20832											
NCKAP5	344148	broad.mit.edu	37	chr2	133539979	133539979	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcttcgattgtgggtgAgaggggggcttctgaactca	6	14	14	7	1	3	2	1	2	2	1	4	4	3	2	0	4	1	1	0	4	1	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:133539979A>G	uc002ttp.2	-	14	4779	c.4405T>C	c.(4405-4407)TCA>CCA	p.S1469P	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1469							protein binding				0						ATTGTGGGTGAGAGGGGGGCT	0.493													13	99					0	0	0.09319	0	0		G	133539979	G	G	133539979	3	3	24	1	0	0	0	0	1	0	0	0	10242	304	11	3	1352	3	NCKAP5	2	133539979	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	5488776	133539979	109659394	38	20833											
CCNT2	905	broad.mit.edu	37	chr2	135711860	135711860	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagcagtgatggcatttcctCtagctccagctcttcaagga	9	11	10	11	0	3	1	1	1	2	0	5	3	5	2	2	2	3	4	2	2	2	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:135711860C>G	uc002tuc.1	+	9	1867	c.1835C>G	c.(1834-1836)TCT>TGT	p.S612C	CCNT2_uc002tub.1_Missense_Mutation_p.S612C|CCNT2_uc010zbf.1_Missense_Mutation_p.S437C|CCNT2_uc002tud.1_Missense_Mutation_p.S275C	NM_058241	NP_490595	O60583	CCNT2_HUMAN	cyclin T2 isoform b	612	Poly-Ser.				cell cycle|cell division|interspecies interaction between organisms|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein kinase binding			ovary(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.107)		GGCATTTCCTCTAGCTCCAGC	0.502													77	129					0	0	0.048971	0	0		G	135711860	G	G	135711860	3	3	24	1	0	0	0	0	1	0	0	0	2938	913	32	5	1869	5	CCNT2	2	135711860	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	2171881	135711860	107487513	39	20834											
THSD7B	80731	broad.mit.edu	37	chr2	138373777	138373777	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacaatgcagagaagaacTcgccacctgctaagaccatc	15	5	7	14	1	0	3	0	0	0	3	2	4	0	3	3	0	3	2	3	0	4	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:138373777T>G	uc002tva.1	+	17	3369	c.3369T>G	c.(3367-3369)ACT>ACG	p.T1123T	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AGAGAAGAACTCGCCACCTGC	0.423													19	194					0	0	0.069288	0	0		G	138373777	G	G	138373777	2	3	24	1	0	0	0	0	0	0	0	1	15905	1538	54	5		5	THSD7B	2	138373777	Silent	SNP	T	TCGA-BR-4369-01A-01D-1158-08	2661917	138373777	104825596	40	20835											
SCN3A	6328	broad.mit.edu	37	chr2	165984255	165984255	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgaggctggggttgtttatGaatgacatataatcattttc	10	16	11	4	0	1	3	1	3	0	0	2	3	1	3	0	3	0	3	0	3	4	7			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:165984255G>A	uc002ucx.2	-	18	3771	c.3279C>T	c.(3277-3279)TTC>TTT	p.F1093F	SCN3A_uc002ucy.2_Silent_p.F1044F|SCN3A_uc002ucz.2_Silent_p.F1044F|SCN3A_uc002uda.1_Silent_p.F913F|SCN3A_uc002udb.1_Silent_p.F913F	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1093						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	GGTTGTTTATGAATGACATAT	0.403													10	133					0	0	0.069234	0	0		A	165984255	A	A	165984255	2	1	24	1	0	0	0	0	0	0	0	1	13943	1281	45	4		4	SCN3A	2	165984255	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	27610478	165984255	77215118	41	20836											
GAD1	2571	broad.mit.edu	37	chr2	171687621	171687621	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggcatggagggcttcaacTtggagctctctgaccacccc	9	8	11	13	0	2	1	1	1	1	0	3	3	2	3	3	4	2	3	3	4	2	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:171687621T>G	uc002ugi.2	+	5	888	c.466T>G	c.(466-468)TTG>GTG	p.L156V	GAD1_uc002ugh.2_Missense_Mutation_p.L156V	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	156					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GGGCTTCAACTTGGAGCTCTC	0.542													59	151					0	0	0.048971	0	0		G	171687621	G	G	171687621	3	3	24	1	0	0	0	0	1	0	0	0	6193	1606	56	5	480	5	GAD1	2	171687621	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	5703366	171687621	71511752	42	20837											
GPR155	151556	broad.mit.edu	37	chr2	175335232	175335232	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatggttcaccacactgtcGcccttgtccaagagttccac	8	11	8	14	1	1	1	1	0	0	1	4	1	3	1	4	1	0	3	4	1	2	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:175335232G>A	uc002uit.2	-	5	1303	c.912C>T	c.(910-912)GGC>GGT	p.G304G	GPR155_uc002uiu.2_Silent_p.G304G|GPR155_uc002uiv.2_Silent_p.G304G|GPR155_uc010fqs.2_Silent_p.G304G	NM_001033045	NP_001028217	Q7Z3F1	GP155_HUMAN	G protein-coupled receptor 155 isoform 9	304					intracellular signal transduction|transmembrane transport	integral to membrane				ovary(1)	1						CCACACTGTCGCCCTTGTCCA	0.408													47	92					0	0	0.048971	0	0		A	175335232	A	A	175335232	2	1	24	1	0	0	0	0	0	0	0	1	6675	1074	38	1		1	GPR155	2	175335232	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	3647611	175335232	67864141	43	20838											
PRKRA	8575	broad.mit.edu	37	chr2	179301024	179301024	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaatgccaagtacatcctAaagaatgtcctactacattt	15	11	6	9	0	0	1	0	0	0	1	2	2	2	2	3	1	4	1	3	1	8	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:179301024A>T	uc002umf.2	-	7	833	c.632T>A	c.(631-633)TTA>TAA	p.L211*	PRKRA_uc002umc.2_Nonsense_Mutation_p.L43*|PRKRA_uc002umd.2_Nonsense_Mutation_p.L186*|PRKRA_uc002ume.2_Nonsense_Mutation_p.L200*|PRKRA_uc002umg.2_Nonsense_Mutation_p.L98*|PRKRA_uc002umh.1_5'Flank	NM_003690	NP_003681	O75569	PRKRA_HUMAN	protein kinase, interferon-inducible double	211	Sufficient for self-association and interaction with TARBP2.				immune response|negative regulation of cell proliferation|production of siRNA involved in RNA interference|response to virus	perinuclear region of cytoplasm	double-stranded RNA binding|enzyme activator activity|protein homodimerization activity			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.00634)|all cancers(119;0.0265)			AGTACATCCTAAAGAATGTCC	0.388													62	170					0	0	0.048971	0	0		T	179301024	T	T	179301024	4	4	24	1	0	0	0	0	0	1	0	0	12546	372	13	5	317	5	PRKRA	2	179301024	Nonsense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	3965792	179301024	63898349	44	20839											
TTN	7273	broad.mit.edu	37	chr2	179398169	179398169	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcccattttaatgttggTggggggatgccagacactct	7	14	11	9	0	2	1	0	0	2	1	3	2	2	2	2	4	1	1	2	4	1	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:179398169T>G	uc010zfg.1	-	307	95693	c.95469A>C	c.(95467-95469)CCA>CCC	p.P31823P	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.P25518P|TTN_uc010zfi.1_Silent_p.P25451P|TTN_uc010zfj.1_Silent_p.P25326P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32750							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTAATGTTGGTGGGGGGATGC	0.458													8	113					0	0	0.080935	0	0		G	179398169	G	G	179398169	2	3	24	1	0	0	0	0	0	0	0	1	16761	1683	59	5		5	TTN	2	179398169	Silent	SNP	T	TCGA-BR-4369-01A-01D-1158-08	97145	179398169	63801204	45	20840											
ORMDL1	94101	broad.mit.edu	37	chr2	190636564	190636564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggaattagtacactcaggaGagaagctgtgtttaggatga	13	10	14	4	0	1	2	1	1	0	1	1	6	1	5	0	3	2	3	0	3	5	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:190636564G>A	uc002urb.3	-	3	1178	c.391C>T	c.(391-393)CTC>TTC	p.L131F	ORMDL1_uc002urc.3_Missense_Mutation_p.L131F|ORMDL1_uc002urd.3_Missense_Mutation_p.L131F|ORMDL1_uc002ure.3_Missense_Mutation_p.L131F	NM_016467	NP_057551	Q9P0S3	ORML1_HUMAN	ORM1-like 1	131					ceramide metabolic process	endoplasmic reticulum membrane|integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(117;0.00177)|Epithelial(96;0.0317)|all cancers(119;0.0889)			ACACTCAGGAGAGAAGCTGTG	0.318													16	113					0	0	0.038395	0	0		A	190636564	A	A	190636564	3	1	24	1	0	0	0	0	1	0	0	0	11288	942	33	4	74	4	ORMDL1	2	190636564	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	11238395	190636564	52562809	46	20841											
NDUFS1	4719	broad.mit.edu	37	chr2	207014614	207014614	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaacctttcatgataacaGaatcgagggatctgcatgcc	13	9	9	10	1	2	2	1	1	1	1	3	5	2	3	2	1	4	1	2	1	3	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:207014614G>T	uc002vbe.2	-	4	316	c.189C>A	c.(187-189)TTC>TTA	p.F63L	NDUFS1_uc010ziq.1_Missense_Mutation_p.F77L|NDUFS1_uc010zir.1_Intron|NDUFS1_uc010zis.1_Missense_Mutation_p.F6L|NDUFS1_uc010zit.1_Intron|NDUFS1_uc010ziu.1_Intron	NM_005006	NP_004997	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1,	63	2Fe-2S ferredoxin-type.				apoptosis|ATP metabolic process|mitochondrial electron transport, NADH to ubiquinone|reactive oxygen species metabolic process|regulation of mitochondrial membrane potential|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	CATGATAACAGAATCGAGGGA	0.368													13	188					2.31682e-05	2.39067e-05	0.024245	1	0		T	207014614	T	T	207014614	3	4	24	1	0	0	0	0	1	0	0	0	10310	933	33	5	2058	5	NDUFS1	2	207014614	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	16378050	207014614	36184759	47	20842											
PTH2R	5746	broad.mit.edu	37	chr2	209324631	209324631	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtctcaggtgctgggaacTtagtgctggagacatcaagt	10	11	13	7	0	2	1	2	0	1	1	3	3	2	2	0	3	3	2	0	3	3	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:209324631T>G	uc002vdb.2	+	9	1139	c.926T>G	c.(925-927)CTT>CGT	p.L309R	PTH2R_uc010zjb.1_Missense_Mutation_p.L320R	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	309	Extracellular (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		TGCTGGGAACTTAGTGCTGGA	0.338													87	194					0	0	0.048971	0	0		G	209324631	G	G	209324631	3	3	24	1	0	0	0	0	1	0	0	0	12783	1609	56	5	960	5	PTH2R	2	209324631	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	2310017	209324631	33874742	48	20843											
CPS1	1373	broad.mit.edu	37	chr2	211512654	211512654	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggcagttcctctatacaAgaatggtgtcaagatcatgg	11	11	10	9	0	3	2	2	0	1	2	4	2	4	2	2	3	1	2	2	3	5	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:211512654A>G	uc002vee.3	+	26	3341	c.3209A>G	c.(3208-3210)AAG>AGG	p.K1070R	CPS1_uc010fur.2_Missense_Mutation_p.K1076R|CPS1_uc010fus.2_Missense_Mutation_p.K619R	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1070					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		CCTCTATACAAGAATGGTGTC	0.507													52	131					0	0	0.048971	0	0		G	211512654	G	G	211512654	3	3	24	1	0	0	0	0	1	0	0	0	3826	72	3	3	3333	3	CPS1	2	211512654	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	2188023	211512654	31686719	49	20844											
SPEG	10290	broad.mit.edu	37	chr2	220315878	220315878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcttcggatgactcctacGtgtccgctggagaagagccc	8	9	12	12	3	1	3	0	1	1	2	4	5	3	4	3	2	2	1	3	2	2	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:220315878G>A	uc010fwg.2	+	5	2134	c.2134G>A	c.(2134-2136)GTG>ATG	p.V712M	SPEG_uc002vlm.2_RNA|SPEG_uc010fwh.1_Translation_Start_Site|SPEG_uc002vln.1_Translation_Start_Site|SPEG_uc002vlp.1_Translation_Start_Site	NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	712					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity	p.V712_P722del(1)		stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		TGACTCCTACGTGTCCGCTGG	0.592													115	253					0	0	0.048971	0	0		A	220315878	A	A	220315878	3	1	24	1	0	0	0	0	1	0	0	0	15061	1145	40	1	2152	1	SPEG	2	220315878	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	8803224	220315878	22883495	50	20845											
SPHKAP	80309	broad.mit.edu	37	chr2	228882722	228882722	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgttttccactggagttgtCaaggcaaatcgctgcaattt	9	15	9	8	1	1	0	1	0	0	0	3	1	2	1	1	2	1	5	1	2	3	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr2:228882722C>G	uc002vpq.2	-	7	2895	c.2848G>C	c.(2848-2850)GAC>CAC	p.D950H	SPHKAP_uc002vpp.2_Missense_Mutation_p.D950H|SPHKAP_uc010zlx.1_Missense_Mutation_p.D950H	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	950						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CTGGAGTTGTCAAGGCAAATC	0.468													69	230					0	0	0.048971	0	0		G	228882722	G	G	228882722	3	3	24	1	0	0	0	0	1	0	0	0	15073	826	29	5	2278	5	SPHKAP	2	228882722	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	8566844	228882722	14316651	51	20846											
CHL1	10752	broad.mit.edu	37	chr3	403458	403458	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacagtgctttcttacattgCgagttctttgcttcacctga	7	17	7	10	1	3	1	1	1	2	0	3	2	3	1	1	0	5	3	1	0	2	7			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr3:403458C>T	uc003bou.2	+	12	1606	c.1335C>T	c.(1333-1335)TGC>TGT	p.C445C	CHL1_uc003bot.2_Silent_p.C461C|CHL1_uc003bow.1_Silent_p.C445C|CHL1_uc011asi.1_Silent_p.C461C	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	445	Ig-like C2-type 5.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		TCTTACATTGCGAGTTCTTTG	0.408													28	182					0	0	0.034045	0	0		T	403458	T	T	403458	2	4	24	1	0	0	0	0	0	0	0	1	3352	776	27	1		1	CHL1	3	403458	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08		403458	197618972	52	20847											
SLC6A6	6533	broad.mit.edu	37	chr3	14520637	14520637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaggacatgattggctatCggcccgggccctggatgaag	8	9	15	9	2	0	3	0	3	0	0	1	5	0	5	2	5	0	1	2	5	2	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr3:14520637C>T	uc010heg.2	+	20	1786	c.1495C>T	c.(1495-1497)CGG>TGG	p.R499W	SLC6A6_uc003byq.2_Missense_Mutation_p.R499W|SLC6A6_uc003byr.2_RNA	NM_001134367	NP_001127839	P31641	SC6A6_HUMAN	solute carrier family 6 (neurotransmitter	499					cellular amino acid metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity|taurine:sodium symporter activity			ovary(1)	1						GATTGGCTATCGGCCCGGGCC	0.532													24	105					0	0	0.108266	0	0		T	14520637	T	T	14520637	3	4	24	1	0	0	0	0	1	0	0	0	14713	875	31	1	1541	1	SLC6A6	3	14520637	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	14117179	14520637	183501793	53	20848											
OXNAD1	92106	broad.mit.edu	37	chr3	16344234	16344234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agactacacaaatcaatgcgGaactcaagccatacatcacg	17	6	6	12	2	3	1	3	0	0	1	3	2	3	2	1	1	5	0	1	1	6	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr3:16344234G>A	uc003caw.2	+	8	1220	c.763G>A	c.(763-765)GAA>AAA	p.E255K	OXNAD1_uc003cax.2_Missense_Mutation_p.E255K|OXNAD1_uc011awb.1_Missense_Mutation_p.E273K	NM_138381	NP_612390	Q96HP4	OXND1_HUMAN	oxidoreductase NAD-binding domain containing 1	255							oxidoreductase activity			skin(1)	1						AATCAATGCGGAACTCAAGCC	0.383													5	16					0	0	0.021553	0	0		A	16344234	A	A	16344234	3	1	24	1	0	0	0	0	1	0	0	0	11352	1175	41	4	785	4	OXNAD1	3	16344234	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	1823597	16344234	181678196	54	20849											
C3orf23	285343	broad.mit.edu	37	chr3	44434444	44434444	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttaaaagatgaactgtctCatcaattgcaactctcagat	14	13	6	8	0	3	3	3	1	2	2	5	3	3	3	0	0	3	2	0	0	5	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr3:44434444C>A	uc010him.2	+	6	915	c.670C>A	c.(670-672)CAT>AAT	p.H224N	C3orf23_uc003cnd.3_Missense_Mutation_p.H224N|C3orf23_uc003cne.3_Missense_Mutation_p.H80N	NM_173826	NP_776187	Q8N3R3	CC023_HUMAN	hypothetical protein LOC285343 isoform 1	224						mitochondrion				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(197;0.0468)|Kidney(197;0.0585)		TGAACTGTCTCATCAATTGCA	0.333													31	98					3.90053e-15	4.14031e-15	0.050027	1	0		A	44434444	A	A	44434444	3	1	24	1	0	0	0	0	1	0	0	0	2219	826	29	5	740	5	C3orf23	3	44434444	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	28090210	44434444	153587986	55	20850											
KLHDC8B	200942	broad.mit.edu	37	chr3	49212502	49212502	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccctctcctgcagggtcctgGaccaaattgccccgcagcct	6	8	9	18	1	1	0	0	0	1	0	3	1	2	1	7	2	3	2	7	2	1	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr3:49212502G>A	uc003cwh.2	+	5	959	c.774G>A	c.(772-774)TGG>TGA	p.W258*	KLHDC8B_uc003cwi.1_3'UTR	NM_173546	NP_775817	Q8IXV7	KLD8B_HUMAN	kelch domain containing 8B	258	Kelch 6.					cytoplasm					0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CAGGGTCCTGGACCAAATTGC	0.597													21	101					0	0	0.062417	0	0		A	49212502	A	A	49212502	4	1	24	1	0	0	0	0	0	1	0	0	8379	1183	41	4	788	4	KLHDC8B	3	49212502	Nonsense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	4778058	49212502	148809928	56	20851											
PDHB	5162	broad.mit.edu	37	chr3	58419403	58419403	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaaagcgcctcttcagcagCccggagacctggcagggaga	10	5	14	12	2	2	3	1	1	1	2	2	5	2	3	3	3	3	2	3	3	1	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr3:58419403C>T	uc003dkf.3	-	2	80	c.51G>A	c.(49-51)GGG>GGA	p.G17G	PDHB_uc003dke.3_5'UTR|PDHB_uc003dkg.3_Intron|PDHB_uc010hnl.2_Intron|PDHB_uc011bff.1_Silent_p.G17G	NM_000925	NP_000916	P11177	ODPB_HUMAN	pyruvate dehydrogenase (lipoamide) beta	17					glycolysis|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(55;0.000179)|Kidney(10;0.00231)|KIRC - Kidney renal clear cell carcinoma(10;0.00258)|OV - Ovarian serous cystadenocarcinoma(275;0.187)	NADH(DB00157)|Pyruvic acid(DB00119)	TCTTCAGCAGCCCGGAGACCT	0.706													7	19					0	0	0.02938	0	0		T	58419403	T	T	58419403	2	4	24	1	0	0	0	0	0	0	0	1	11685	726	26	2		2	PDHB	3	58419403	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	9206901	58419403	139603027	57	20852											
HTR1F	3355	broad.mit.edu	37	chr3	88040723	88040723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtctgaattcaagcatgAgaaatcttggagaaggcaaa	16	8	11	6	0	3	3	1	2	2	2	3	5	3	3	0	3	1	2	0	3	5	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr3:88040723A>G	uc003dqr.2	+	2	982	c.824A>G	c.(823-825)GAG>GGG	p.E275G		NM_000866	NP_000857	P30939	5HT1F_HUMAN	5-hydroxytryptamine (serotonin) receptor 1F	275	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	serotonin binding|serotonin receptor activity			ovary(3)	3	all_cancers(8;0.147)	Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00664)	Eletriptan(DB00216)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Zolmitriptan(DB00315)	TTCAAGCATGAGAAATCTTGG	0.408													7	45					0	0	0.038147	0	0		G	88040723	G	G	88040723	3	3	24	1	0	0	0	0	1	0	0	0	7456	304	11	3	826	3	HTR1F	3	88040723	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	29621320	88040723	109981707	58	20853											
ARHGAP31	57514	broad.mit.edu	37	chr3	119132796	119132796	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggagctctcatcgttgccaCctcctgctctgaagaccagc	8	9	9	15	1	2	2	1	1	2	1	5	3	3	3	4	1	4	3	4	1	1	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr3:119132796C>A	uc003ecj.3	+	12	2552	c.2020C>A	c.(2020-2022)CCT>ACT	p.P674T		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	674	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						ATCGTTGCCACCTCCTGCTCT	0.522													47	268					7.05377e-20	7.61219e-20	0.048971	1	0		A	119132796	A	A	119132796	3	1	24	1	0	0	0	0	1	0	0	0	880	507	18	5	2066	5	ARHGAP31	3	119132796	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	31092073	119132796	78889634	59	20854											
TRH	7200	broad.mit.edu	37	chr3	129694763	129694763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccagcaggaggcagtgaCggccgcggagcatccgggcc	7	2	18	14	4	0	1	0	1	0	0	1	3	1	3	4	6	2	3	4	6	0	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr3:129694763C>T	uc003enc.2	+	2	665	c.104C>T	c.(103-105)ACG>ATG	p.T35M		NM_007117	NP_009048	P20396	TRH_HUMAN	thyrotropin-releasing hormone	35					cell-cell signaling|hormone-mediated signaling pathway	extracellular region|soluble fraction	neuropeptide hormone activity|thyrotropin-releasing hormone activity			ovary(1)	1						GAGGCAGTGACGGCCGCGGAG	0.692													3	10					0	0	0.009096	0	0		T	129694763	T	T	129694763	3	4	24	1	0	0	0	0	1	0	0	0	16504	536	19	1	106	1	TRH	3	129694763	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	10561967	129694763	68327667	60	20855											
CPNE4	131034	broad.mit.edu	37	chr3	131442333	131442333	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccaaggaagtcggcctccTtcagcccattgtggttgctg	7	10	11	13	1	1	0	1	0	0	0	3	1	2	1	4	3	2	2	4	3	2	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr3:131442333T>G	uc003eok.2	-	3	752	c.317A>C	c.(316-318)AAG>ACG	p.K106T	CPNE4_uc011blq.1_Missense_Mutation_p.K124T|CPNE4_uc003eol.2_Missense_Mutation_p.K124T|CPNE4_uc003eom.2_Missense_Mutation_p.K106T	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	106	C2 1.									upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						GTCGGCCTCCTTCAGCCCATT	0.542													114	211					0	0	0.048971	0	0		G	131442333	G	G	131442333	3	3	24	1	0	0	0	0	1	0	0	0	3817	1609	56	5	1412	5	CPNE4	3	131442333	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	1747570	131442333	66580097	61	20856											
KCNMB2	10242	broad.mit.edu	37	chr3	178560470	178560470	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacctaaatgtggaaaaaaTtttgaagaatccatgtccct	16	12	6	7	0	0	2	0	1	0	1	2	3	2	3	3	1	1	0	3	1	8	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr3:178560470T>G	uc003fjd.2	+	5	796	c.453T>G	c.(451-453)AAT>AAG	p.N151K	uc003fjb.1_Intron|uc003fjc.1_Intron|KCNMB2_uc003fje.2_Missense_Mutation_p.N151K|KCNMB2_uc003fjf.2_Missense_Mutation_p.N151K|KCNMB2_uc011bqa.1_Intron|KCNMB2_uc011bqb.1_RNA	NM_181361	NP_852006	Q9Y691	KCMB2_HUMAN	calcium-activated potassium channel beta 2	151	Extracellular (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of vasoconstriction	voltage-gated potassium channel complex	calcium-activated potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(1)	1	all_cancers(143;5.38e-18)|Ovarian(172;0.00769)|Breast(254;0.125)		OV - Ovarian serous cystadenocarcinoma(80;1.32e-27)|GBM - Glioblastoma multiforme(14;0.0321)|BRCA - Breast invasive adenocarcinoma(182;0.0841)			GTGGAAAAAATTTTGAAGAAT	0.403													62	96					0	0	0.048971	0	0		G	178560470	G	G	178560470	3	3	24	1	0	0	0	0	1	0	0	0	8091	1490	52	5	467	5	KCNMB2	3	178560470	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	47118137	178560470	19461960	62	20857											
KLHL24	54800	broad.mit.edu	37	chr3	183396874	183396874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttatatatttggttaaacagGaaaactgtggtatgtctgtg	12	16	10	3	0	1	0	0	0	1	0	1	1	1	1	0	3	2	2	0	3	8	6			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr3:183396874G>A	uc003flv.2	+	8	1898	c.1603G>A	c.(1603-1605)GAA>AAA	p.E535K	KLHL24_uc003flw.2_Missense_Mutation_p.E535K	NM_017644	NP_060114	Q6TFL4	KLH24_HUMAN	DRE1 protein	535	Kelch 5.					axon|cytoplasm|perikaryon				ovary(1)	1	all_cancers(143;2.88e-10)|Ovarian(172;0.0303)		all cancers(12;1.43e-42)|Epithelial(37;1.73e-36)|OV - Ovarian serous cystadenocarcinoma(80;8.75e-22)			GGTTAAACAGGAAAACTGTGG	0.338													19	107					0	0	0.043863	0	0		A	183396874	A	A	183396874	3	1	24	1	0	0	0	0	1	0	0	0	8395	1188	41	4	1625	4	KLHL24	3	183396874	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	4836404	183396874	14625556	63	20858											
GAK	2580	broad.mit.edu	37	chr4	843686	843686	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagctctgctcaccttgtcGgggtgcacagccagcaccgc	6	7	12	16	2	2	0	1	0	1	0	3	0	2	0	3	2	5	5	3	2	0	1	rs56278731	byFrequency	TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr4:843686G>C	uc003gbm.3	-	27	4027	c.3828C>G	c.(3826-3828)CCC>CCG	p.P1276P	GAK_uc003gbn.3_Silent_p.P1197P|GAK_uc003gbk.3_Silent_p.P73P|GAK_uc010ibi.2_Silent_p.P501P|GAK_uc010ibj.2_RNA|GAK_uc003gbl.3_Silent_p.P1129P	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	1276	J.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		TCACCTTGTCGGGGTGCACAG	0.532													9	33					0	0	0.080935	0	0		C	843686	C	C	843686	2	2	24	1	0	0	0	0	0	0	0	1	6210	1103	39	5		5	GAK	4	843686	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08		843686	190310590	64	20859											
EVC2	132884	broad.mit.edu	37	chr4	5617166	5617166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaccttttccaccaggtcttCagaggcctgttcctcacaga	8	11	8	14	0	3	2	2	0	1	2	5	3	5	2	5	2	0	1	5	2	0	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr4:5617166C>T	uc003gij.2	-	16	2866	c.2812G>A	c.(2812-2814)GAA>AAA	p.E938K	EVC2_uc011bwb.1_Missense_Mutation_p.E378K|EVC2_uc003gik.2_Missense_Mutation_p.E858K	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	938						integral to membrane				large_intestine(3)|ovary(2)	5						ACCAGGTCTTCAGAGGCCTGT	0.507													34	60					0	0	0.050027	0	0		T	5617166	T	T	5617166	3	4	24	1	0	0	0	0	1	0	0	0	5294	835	29	4	1142	4	EVC2	4	5617166	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	4773480	5617166	185537110	65	20860											
GRXCR1	389207	broad.mit.edu	37	chr4	42895288	42895288	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgggtggaggtgaccatgcTtaaaagggagatgaagccag	13	7	16	5	0	0	3	0	2	0	1	0	5	0	4	2	4	2	1	2	4	3	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr4:42895288T>G	uc003gwt.2	+	1	5	c.5T>G	c.(4-6)CTT>CGT	p.L2R		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	2					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity	p.L2H(1)		ovary(1)	1						GTGACCATGCTTAAAAGGGAG	0.488													46	91					0	0	0.045515	0	0		G	42895288	G	G	42895288	3	3	24	1	0	0	0	0	1	0	0	0	6828	1609	56	5	7	5	GRXCR1	4	42895288	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	37278122	42895288	148258988	66	20861											
CORIN	10699	broad.mit.edu	37	chr4	47682178	47682178	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagttgacctcgtcagacTtatccacacagtcgtggtca	10	10	9	12	2	2	2	2	1	0	1	5	2	3	2	2	1	1	2	2	1	1	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr4:47682178T>G	uc003gxm.2	-	8	1205	c.1112A>C	c.(1111-1113)AAG>ACG	p.K371T	CORIN_uc011bzf.1_Missense_Mutation_p.K232T|CORIN_uc011bzg.1_Missense_Mutation_p.K304T|CORIN_uc011bzh.1_Intron|CORIN_uc011bzi.1_Intron|CORIN_uc003gxn.3_3'UTR	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	371	Extracellular (Potential).|LDL-receptor class A 3.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						CTCGTCAGACTTATCCACACA	0.507													23	42					0	0	0.099896	0	0		G	47682178	G	G	47682178	3	3	24	1	0	0	0	0	1	0	0	0	3755	1609	56	5	2076	5	CORIN	4	47682178	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	4786890	47682178	143472098	67	20862											
RG9MTD2	93587	broad.mit.edu	37	chr4	100470429	100470429	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaggctttgtctgtgggaAcagctcctttccgttggggc	5	12	13	11	1	1	0	0	0	1	0	3	1	3	1	2	4	2	3	2	4	1	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr4:100470429A>C	uc003huy.2	-	8	1149	c.836T>G	c.(835-837)GTT>GGT	p.V279G	RG9MTD2_uc003huz.3_Missense_Mutation_p.V279G|RG9MTD2_uc003hva.3_Missense_Mutation_p.V279G	NM_152292	NP_689505	Q8TBZ6	RG9D2_HUMAN	RNA (guanine-9-) methyltransferase domain	279							methyltransferase activity			ovary(2)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;1.7e-08)		GTCTGTGGGAACAGCTCCTTT	0.438													50	140					0	0	0.048971	0	0		C	100470429	C	C	100470429	3	2	24	1	0	0	0	0	1	0	0	0	13297	43	2	5	187	5	RG9MTD2	4	100470429	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	52788251	100470429	90683847	68	20863											
FAT4	79633	broad.mit.edu	37	chr4	126411219	126411219	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgctggggtgatttgctGtgcattaatcagtggtatgc	6	14	13	8	0	1	1	1	1	0	0	1	1	1	1	1	3	4	4	1	3	2	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr4:126411219G>A	uc003ifj.3	+	17	13242	c.13242G>A	c.(13240-13242)CTG>CTA	p.L4414L	FAT4_uc011cgp.1_Silent_p.L2655L|FAT4_uc003ifi.1_Silent_p.L1891L	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4414	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GTGATTTGCTGTGCATTAATC	0.577													33	266					0	0	0.045705	0	0		A	126411219	A	A	126411219	2	1	24	1	0	0	0	0	0	0	0	1	5706	1364	48	4		4	FAT4	4	126411219	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	25940790	126411219	64743057	69	20864											
KIAA0922	23240	broad.mit.edu	37	chr4	154525488	154525488	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaacgggagctctgtccactGaagacctccaagaaactacc	13	6	9	13	1	1	3	0	1	1	2	3	5	3	4	4	1	4	1	4	1	5	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr4:154525488G>A	uc003inm.3	+	25	3373	c.3321G>A	c.(3319-3321)CTG>CTA	p.L1107L	KIAA0922_uc010ipp.2_Silent_p.L1108L|KIAA0922_uc010ipq.2_Silent_p.L876L	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	1107	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				TCTGTCCACTGAAGACCTCCA	0.428													32	80					0	0	0.050027	0	0		A	154525488	A	A	154525488	2	1	24	1	0	0	0	0	0	0	0	1	8217	1277	45	4		4	KIAA0922	4	154525488	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	28114269	154525488	36628788	70	20865											
TRIML1	339976	broad.mit.edu	37	chr4	189068336	189068336	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtcagagagcctgtgtgtaAggttggtgtcttcctggact	6	13	14	8	1	2	1	1	0	1	1	3	3	3	2	2	3	1	2	2	3	1	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr4:189068336A>C	uc003izm.1	+	6	1332	c.1217A>C	c.(1216-1218)AAG>ACG	p.K406T	TRIML1_uc003izn.1_Missense_Mutation_p.K130T	NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	406	B30.2/SPRY.				multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		CCTGTGTGTAAGGTTGGTGTC	0.483													38	158					0	0	0.086207	0	0		C	189068336	C	C	189068336	3	2	24	1	0	0	0	0	1	0	0	0	16576	72	3	5	1239	5	TRIML1	4	189068336	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	34542848	189068336	2085940	71	20866											
ADAMTS16	170690	broad.mit.edu	37	chr5	5303848	5303848	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgctgccacaagcccaagaAgctgcagtggctggtgtccg	8	6	14	13	2	0	1	0	0	0	1	1	1	1	1	3	2	4	4	3	2	3	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:5303848A>C	uc003jdl.2	+	20	3293	c.3155A>C	c.(3154-3156)AAG>ACG	p.K1052T	ADAMTS16_uc003jdk.1_Missense_Mutation_p.K1052T	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1052	TSP type-1 5.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						AAGCCCAAGAAGCTGCAGTGG	0.612													7	26					0	0	0.080935	0	0		C	5303848	C	C	5303848	3	2	24	1	0	0	0	0	1	0	0	0	261	72	3	5	3233	5	ADAMTS16	5	5303848	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08		5303848	175611412	72	20867											
ADAMTS16	170690	broad.mit.edu	37	chr5	5319202	5319202	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacgggatgtgcagccacaAgttctacggcaagcagtgct	10	7	13	11	2	1	0	0	0	1	0	1	1	1	1	1	2	5	6	1	2	3	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:5319202A>G	uc003jdl.2	+	23	3764	c.3626A>G	c.(3625-3627)AAG>AGG	p.K1209R		NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1209	PLAC.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding	p.K1209M(1)		ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TGCAGCCACAAGTTCTACGGC	0.522													7	16					0	0	0.047766	0	0		G	5319202	G	G	5319202	3	3	24	1	0	0	0	0	1	0	0	0	261	72	3	3	3716	3	ADAMTS16	5	5319202	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	15354	5319202	175596058	73	20868											
SPEF2	79925	broad.mit.edu	37	chr5	35705878	35705878	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaaaagtaaaagaaattcTtacgactgaaatagcaaaaa	23	8	6	4	1	1	3	0	2	1	1	1	4	1	3	0	0	2	2	0	0	10	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:35705878T>C	uc003jjo.2	+	18	2744	c.2633T>C	c.(2632-2634)CTT>CCT	p.L878P	SPEF2_uc003jjq.3_Missense_Mutation_p.L873P|SPEF2_uc003jjp.1_Missense_Mutation_p.L364P	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	878	Potential.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AAAGAAATTCTTACGACTGAA	0.274													12	30					0	0	0.080935	0	0		C	35705878	C	C	35705878	3	2	24	1	0	0	0	0	1	0	0	0	15060	1609	56	3	2724	3	SPEF2	5	35705878	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	30386676	35705878	145209382	74	20869											
LIFR	3977	broad.mit.edu	37	chr5	38527279	38527279	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acgttttgttcatttagtgtGaatttacttgtagaacttcc	9	19	7	6	1	1	2	1	1	0	1	2	2	2	2	1	0	2	3	1	0	5	10			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:38527279G>C	uc010ive.1	-	4	707	c.375C>G	c.(373-375)TTC>TTG	p.F125L	LIFR_uc003jli.2_Missense_Mutation_p.F125L	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	125	Extracellular (Potential).|Fibronectin type-III 1.				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					CATTTAGTGTGAATTTACTTG	0.289			T	PLAG1	salivary adenoma								4	32					0	0	0.009096	0	0		C	38527279	C	C	38527279	3	2	24	1	0	0	0	0	1	0	0	0	8796	1281	45	5	2986	5	LIFR	5	38527279	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	2821401	38527279	142387981	75	20870											
HCN1	348980	broad.mit.edu	37	chr5	45262335	45262335	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcgagggctgcgaggcGgagagtggcctgacttcccg	6	5	19	11	4	0	2	0	1	0	1	1	5	1	2	2	5	2	2	2	5	0	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:45262335G>A	uc003jok.2	-	8	2386	c.2361C>T	c.(2359-2361)TCC>TCT	p.S787S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	787	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GCTGCGAGGCGGAGAGTGGCC	0.622													13	108					0	0	0.028581	0	0		A	45262335	A	A	45262335	2	1	24	1	0	0	0	0	0	0	0	1	7012	1103	39	1		1	HCN1	5	45262335	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	6735056	45262335	135652925	76	20871											
PIK3R1	5295	broad.mit.edu	37	chr5	67591121	67591121	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattaaaccagaccttatcCagctgagaaagacgagagac	16	6	9	10	1	0	4	0	1	0	4	1	7	1	4	3	0	2	2	3	0	4	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:67591121C>T	uc003jva.2	+	13	2274	c.1714C>T	c.(1714-1716)CAG>TAG	p.Q572*	PIK3R1_uc003jvb.2_Nonsense_Mutation_p.Q572*|PIK3R1_uc003jvc.2_Nonsense_Mutation_p.Q272*|PIK3R1_uc003jvd.2_Nonsense_Mutation_p.Q302*|PIK3R1_uc003jve.2_Nonsense_Mutation_p.Q251*|PIK3R1_uc011crb.1_Nonsense_Mutation_p.Q242*	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	572					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.L570_D578del(1)|p.L570_Q572del(1)|p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoproterenol(DB01064)	AGACCTTATCCAGCTGAGAAA	0.373			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			37	102					0	0	0.104719	0	0		T	67591121	T	T	67591121	4	4	24	1	0	0	0	0	0	1	0	0	11937	595	21	4	1890	4	PIK3R1	5	67591121	Nonsense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	22328786	67591121	113324139	77	20872											
GPR98	84059	broad.mit.edu	37	chr5	90119348	90119348	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaacttcagtctgtgtcaGggaccacaacctgtacaatg	12	9	10	10	0	3	0	2	0	1	0	3	2	3	2	2	2	3	1	2	2	4	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:90119348G>C	uc003kju.2	+	76	16399	c.16303G>C	c.(16303-16305)GGG>CGG	p.G5435R	GPR98_uc003kjt.2_Missense_Mutation_p.G3141R|GPR98_uc003kjw.2_Missense_Mutation_p.G1096R	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	5435	Calx-beta 35.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GTCTGTGTCAGGGACCACAAC	0.438													6	84					0	0	0.058154	0	0		C	90119348	C	C	90119348	3	2	24	1	0	0	0	0	1	0	0	0	6737	1000	35	5	16605	5	GPR98	5	90119348	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	22528227	90119348	90795912	78	20873											
APC	324	broad.mit.edu	37	chr5	112177050	112177050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaaagcagccaataaatcGaggtcagcctaaacccatac	16	6	7	12	1	1	0	1	0	0	0	2	1	1	0	3	1	6	2	3	1	7	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:112177050G>A	uc010jby.2	+	16	6139	c.5759G>A	c.(5758-5760)CGA>CAA	p.R1920Q	APC_uc011cvt.1_Missense_Mutation_p.R1902Q|APC_uc003kpz.3_Missense_Mutation_p.R1920Q|APC_uc003kpy.3_Missense_Mutation_p.R1920Q|APC_uc010jbz.2_Missense_Mutation_p.R1637Q|APC_uc010jca.2_Missense_Mutation_p.R1220Q	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1920	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		CCAATAAATCGAGGTCAGCCT	0.423		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			12	85					0	0	0.043863	0	0		A	112177050	A	A	112177050	3	1	24	1	0	0	0	0	1	0	0	0	763	1058	37	1	5817	1	APC	5	112177050	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	22057702	112177050	68738210	79	20874											
KCNN2	3781	broad.mit.edu	37	chr5	113740479	113740479	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagactttaatgactatatgCccaggaactgtactcttggt	12	13	8	8	0	1	2	0	1	1	1	1	3	1	3	1	2	3	1	1	2	6	6			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:113740479C>T	uc003kqo.2	+	3	1384	c.927C>T	c.(925-927)TGC>TGT	p.C309C		NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	309	Helical; Name=Segment S5; (Potential).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		TGACTATATGCCCAGGAACTG	0.373													38	232					0	0	0.086207	0	0		T	113740479	T	T	113740479	2	4	24	1	0	0	0	0	0	0	0	1	8095	747	26	2		2	KCNN2	5	113740479	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	1563429	113740479	67174781	80	20875											
PCDHA3	56145	broad.mit.edu	37	chr5	140182956	140182956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgctctgcggtgctccgCgccgccaaccgaaggcgact	6	7	12	16	6	1	0	0	0	1	0	2	2	2	0	4	2	5	2	4	2	3	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:140182956C>T	uc003lhf.2	+	1	2174	c.2174C>T	c.(2173-2175)GCG>GTG	p.A725V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.A725V	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	725	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGTGCTCCGCGCCGCCAACC	0.637													26	276					0	0	0.037714	0	0		T	140182956	T	T	140182956	3	4	24	1	0	0	0	0	1	0	0	0	11544	768	27	1	2176	1	PCDHA3	5	140182956	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	26442477	140182956	40732304	81	20876											
PCDHAC1	56135	broad.mit.edu	37	chr5	140307553	140307553	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctgcccctggcacagtgaTtgctctctttagtgtaaagg	7	12	11	11	1	1	1	0	1	1	0	2	1	1	1	2	2	2	4	2	2	3	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:140307553T>A	uc003lih.2	+	1	1252	c.1076T>A	c.(1075-1077)ATT>AAT	p.I359N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.I359N	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	359	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCACAGTGATTGCTCTCTTT	0.527													42	124					0	0	0.104719	0	0		A	140307553	A	A	140307553	3	1	24	1	0	0	0	0	1	0	0	0	11551	1493	52	5	1078	5	PCDHAC1	5	140307553	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	124597	140307553	40607707	82	20877											
PCDHB5	26167	broad.mit.edu	37	chr5	140516111	140516111	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccggaaactgtagttgcCgttttcagtgtttctgatcc	6	14	10	11	2	2	1	1	1	1	0	3	2	3	2	4	1	2	4	4	1	2	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:140516111C>T	uc003liq.2	+	1	1312	c.1095C>T	c.(1093-1095)GCC>GCT	p.A365A		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	365	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGTAGTTGCCGTTTTCAGTG	0.488													17	169					0	0	0.0333	0	0		T	140516111	T	T	140516111	2	4	24	1	0	0	0	0	0	0	0	1	11564	639	23	1		1	PCDHB5	5	140516111	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	208558	140516111	40399149	83	20878											
PCDHB9	56127	broad.mit.edu	37	chr5	140568302	140568302	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagccccgccctgcacatcGgcagtgtcagcgccacagac	9	4	10	18	3	1	1	1	0	0	1	2	1	1	1	4	1	3	2	4	1	0	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:140568302G>A	uc003liw.1	+	3	1411	c.1411G>A	c.(1411-1413)GGC>AGC	p.G471S		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	471	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTGCACATCGGCAGTGTCAG	0.652													121	223					0	0	0.048971	0	0		A	140568302	A	A	140568302	3	1	24	1	0	0	0	0	1	0	0	0	11568	1103	39	1	1412	1	PCDHB9	5	140568302	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	52191	140568302	40346958	84	20879											
PCDHGA1	56114	broad.mit.edu	37	chr5	140712418	140712418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggcgctggcacaagtcaCgtctgctacaggcttcggga	7	8	14	12	4	2	0	1	0	1	0	3	1	2	1	0	4	3	4	0	4	2	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:140712418C>T	uc003lji.1	+	1	2167	c.2167C>T	c.(2167-2169)CGT>TGT	p.R723C	PCDHGA1_uc011dan.1_Missense_Mutation_p.R723C	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	723	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCACAAGTCACGTCTGCTACA	0.657													21	131					0	0	0.099896	0	0		T	140712418	T	T	140712418	3	4	24	1	0	0	0	0	1	0	0	0	11569	536	19	1	2169	1	PCDHGA1	5	140712418	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	144116	140712418	40202842	85	20880											
PCDHGC4	56098	broad.mit.edu	37	chr5	140865132	140865132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agatgtgaatgatcacgcccCccgttttccgcggcagcagc	8	8	11	14	4	1	3	1	2	0	1	2	3	2	3	4	1	2	3	4	1	1	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:140865132C>T	uc003lky.1	+	1	392	c.392C>T	c.(391-393)CCC>CTC	p.P131L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Missense_Mutation_p.P131L	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	131	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATCACGCCCCCCGTTTTCCG	0.572													6	152					0	0	0.021553	0	0		T	140865132	T	T	140865132	3	4	24	1	0	0	0	0	1	0	0	0	11589	623	22	4	394	4	PCDHGC4	5	140865132	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	152714	140865132	40050128	86	20881											
LARP1	23367	broad.mit.edu	37	chr5	154183812	154183812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacccacccttggagagcCatgtgggctgggtgatggat	9	8	14	10	0	0	2	0	1	0	1	0	4	0	3	3	4	2	1	3	4	1	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:154183812C>T	uc003lvp.2	+	14	2920	c.2491C>T	c.(2491-2493)CAT>TAT	p.H831Y	LARP1_uc003lvo.2_Missense_Mutation_p.H754Y	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	831							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CTTGGAGAGCCATGTGGGCTG	0.532													30	189					0	0	0.054565	0	0		T	154183812	T	T	154183812	3	4	24	1	0	0	0	0	1	0	0	0	8644	594	21	4	2314	4	LARP1	5	154183812	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	13318680	154183812	26731448	87	20882											
GABRA1	2554	broad.mit.edu	37	chr5	161300185	161300185	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggttaaaatttaaaggAcctatgacagtcctccggtt	14	11	9	7	1	0	1	0	1	0	0	2	3	2	2	3	3	0	2	3	3	6	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:161300185A>C	uc010jiw.2	+	6	786	c.318A>C	c.(316-318)GGA>GGC	p.G106G	GABRA1_uc010jix.2_Silent_p.G106G|GABRA1_uc010jiy.2_Silent_p.G106G|GABRA1_uc003lyx.3_Silent_p.G106G|GABRA1_uc010jiz.2_Silent_p.G106G|GABRA1_uc010jja.2_Silent_p.G106G|GABRA1_uc010jjb.2_Silent_p.G106G	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	106	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	AATTTAAAGGACCTATGACAG	0.388													13	163					0	0	0.105934	0	0		C	161300185	C	C	161300185	2	2	24	1	0	0	0	0	0	0	0	1	6174	262	10	5		5	GABRA1	5	161300185	Silent	SNP	A	TCGA-BR-4369-01A-01D-1158-08	7116373	161300185	19615075	88	20883											
GFPT2	9945	broad.mit.edu	37	chr5	179729482	179729482	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcggaatcacgctcaGgatgccctggaggcagtcca	9	6	13	13	2	2	0	2	0	0	0	3	3	3	3	2	4	3	3	2	4	1	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr5:179729482G>A	uc003mlw.1	-	18	2043	c.1945C>T	c.(1945-1947)CTG>TTG	p.L649L		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	649	SIS 2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	ATCACGCTCAGGATGCCCTGG	0.527													20	111					0	0	0.062417	0	0		A	179729482	A	A	179729482	2	1	24	1	0	0	0	0	0	0	0	1	6361	991	35	4		4	GFPT2	5	179729482	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	18429297	179729482	1185778	89	20884											
DSP	1832	broad.mit.edu	37	chr6	7583269	7583269	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattctaccagggagacacAgtcacagttagaaacagaac	16	6	10	9	0	2	3	1	0	1	3	2	5	2	4	1	2	3	1	1	2	4	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr6:7583269A>G	uc003mxp.1	+	24	6053	c.5774A>G	c.(5773-5775)CAG>CGG	p.Q1925R	DSP_uc003mxq.1_Missense_Mutation_p.Q1326R	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1925	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		AGGGAGACACAGTCACAGTTA	0.493													32	135					0	0	0.045705	0	0		G	7583269	G	G	7583269	3	3	24	1	0	0	0	0	1	0	0	0	4787	188	7	3	5868	3	DSP	6	7583269	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08		7583269	163531798	90	20885											
HIST1H2BG	8339	broad.mit.edu	37	chr6	26216771	26216771	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacggagtagctctccttaCgactgcgcttgcgcttcttg	6	12	10	13	4	2	0	0	0	2	0	3	2	2	1	1	1	4	4	1	1	2	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr6:26216771C>G	uc003ngz.2	-	1	102	c.101G>C	c.(100-102)CGT>CCT	p.R34P	HIST1H2AE_uc003nha.1_5'Flank	NM_003518	NP_003509	P62807	H2B1C_HUMAN	histone cluster 1, H2bg	34					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			ovary(1)	1		all_hematologic(11;0.196)				GCTCTCCTTACGACTGCGCTT	0.522													63	271					0	0	0.048971	0	0		G	26216771	G	G	26216771	3	3	24	1	0	0	0	0	1	0	0	0	7162	536	19	5	283	5	HIST1H2BG	6	26216771	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	18633502	26216771	144898296	91	20886											
SCAND3	114821	broad.mit.edu	37	chr6	28554203	28554204	+	Missense_Mutation	DNP	CC	TA	TA																															caggatggtcaggaactgctCcagcaccaacaattccagga																										TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr6:28554203_28554204CC>TA	uc003nlo.2	-	1	909_910	c.291_292GG>TA	c.(289-294)CTGGAG>CTTAAG	p.E98K	uc003nlp.1_5'Flank	NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	98	SCAN box.				DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGGAACTGCTCCAGCACCAACA	0.554													31	217					0	0	0.004672	0	0		TA	28554204	TA	TA	28554203	3	4	24	1	0	0	0	0	1	0	0	0	13901	864	30	4	3701	4	SCAND3	6	28554203	Missense_Mutation	DNP	CC	TCGA-BR-4369-01A-01D-1158-08	2337432	28554203	142560864	92	20887											
EHMT2	10919	broad.mit.edu	37	chr6	31852223	31852223	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcccaccccaagtcggagcTtgcggttgagttgaagcgca	8	9	12	12	3	0	2	0	2	0	0	2	3	1	3	3	2	3	4	3	2	2	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr6:31852223T>A	uc003nxz.1	-	21	2727	c.2717A>T	c.(2716-2718)AAG>ATG	p.K906M	EHMT2_uc003nxv.1_Translation_Start_Site|EHMT2_uc003nxw.1_Translation_Start_Site|EHMT2_uc003nxx.1_Missense_Mutation_p.K104M|EHMT2_uc003nxy.1_Missense_Mutation_p.K704M|EHMT2_uc011don.1_Missense_Mutation_p.K929M|EHMT2_uc003nya.1_Missense_Mutation_p.K872M	NM_006709	NP_006700	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	906					DNA methylation|peptidyl-lysine dimethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			ovary(1)	1						AAGTCGGAGCTTGCGGTTGAG	0.637													37	221					0	0	0.080422	0	0		A	31852223	A	A	31852223	3	1	24	1	0	0	0	0	1	0	0	0	4990	1609	56	5	947	5	EHMT2	6	31852223	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	3298020	31852223	139262844	93	20888											
TFAP2B	7021	broad.mit.edu	37	chr6	50803904	50803904	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctctgctcagttcaacttcGaagtacaaagtaactgtggg	11	12	9	9	1	3	0	2	0	1	0	5	1	3	0	0	1	4	4	0	1	5	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr6:50803904G>A	uc003pag.2	+	4	898	c.732G>A	c.(730-732)TCG>TCA	p.S244S		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	244					nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					GTTCAACTTCGAAGTACAAAG	0.537													16	132					0	0	0.028581	0	0		A	50803904	A	A	50803904	2	1	24	1	0	0	0	0	0	0	0	1	15813	1045	37	1		1	TFAP2B	6	50803904	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	18951681	50803904	120311163	94	20889											
BAI3	577	broad.mit.edu	37	chr6	70071176	70071176	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatggaaaccttgccgcaTgaaaggctattgcactacaa	13	8	10	10	1	0	1	0	1	0	0	0	2	0	2	2	3	4	4	2	3	5	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr6:70071176T>C	uc003pev.3	+	29	4459	c.4011T>C	c.(4009-4011)CAT>CAC	p.H1337H	BAI3_uc010kak.2_Silent_p.H1337H|BAI3_uc011dxx.1_Silent_p.H543H	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1337	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				CCTTGCCGCATGAAAGGCTAT	0.408													37	117					0	0	0.069456	0	0		C	70071176	C	C	70071176	2	2	24	1	0	0	0	0	0	0	0	1	1301	1461	51	3		3	BAI3	6	70071176	Silent	SNP	T	TCGA-BR-4369-01A-01D-1158-08	19267272	70071176	101043891	95	20890											
SERAC1	84947	broad.mit.edu	37	chr6	158540190	158540190	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaataaaaaggacatctgcTttaatgggctgactaatagg	15	11	10	5	0	1	2	0	2	1	0	1	3	1	3	0	3	1	2	0	3	7	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr6:158540190T>G	uc003qrc.2	-	12	1321	c.1179A>C	c.(1177-1179)AAA>AAC	p.K393N	SERAC1_uc003qrb.2_Missense_Mutation_p.K121N	NM_032861	NP_116250	Q96JX3	SRAC1_HUMAN	serine active site containing 1	393					GPI anchor metabolic process|intracellular protein transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	binding|hydrolase activity, acting on ester bonds				0		Breast(66;0.00519)|Ovarian(120;0.123)|Prostate(117;0.178)		OV - Ovarian serous cystadenocarcinoma(65;1.37e-18)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)		GGACATCTGCTTTAATGGGCT	0.428													3	24					0	0	0.009096	0	0		G	158540190	G	G	158540190	3	3	24	1	0	0	0	0	1	0	0	0	14099	1606	56	5	809	5	SERAC1	6	158540190	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	88469014	158540190	12574877	96	20891											
WIPI2	26100	broad.mit.edu	37	chr7	5256764	5256764	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacgacaactgctacttggcGtacccagggagcgcgaccat	11	6	11	13	4	0	0	0	0	0	0	0	3	0	1	2	2	6	2	2	2	4	3	rs149226373	byFrequency	TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:5256764G>A	uc003snv.2	+	6	738	c.522G>A	c.(520-522)GCG>GCA	p.A174A	WIPI2_uc003snw.2_Silent_p.A174A|WIPI2_uc003snx.2_Silent_p.A156A|WIPI2_uc003sny.2_Silent_p.A156A|WIPI2_uc010ksv.2_Silent_p.A30A|WIPI2_uc003snz.2_Silent_p.A115A|WIPI2_uc003soa.2_Silent_p.A115A	NM_015610	NP_056425	Q9Y4P8	WIPI2_HUMAN	WD repeat domain, phosphoinositide interacting 2	174					autophagic vacuole assembly	cytosol|PAS complex|pre-autophagosomal structure membrane	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding			ovary(2)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0925)|OV - Ovarian serous cystadenocarcinoma(56;2.59e-14)		GCTACTTGGCGTACCCAGGGA	0.512													16	174					0	0	0.038395	0	0		A	5256764	A	A	5256764	2	1	24	1	0	0	0	0	0	0	0	1	17397	1132	40	1		1	WIPI2	7	5256764	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08		5256764	153881899	97	20892											
TMEM196	256130	broad.mit.edu	37	chr7	19765389	19765389	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggctgaaaagaggatCatctgataagaaaaagaaag	20	5	11	5	0	2	5	1	2	1	3	2	6	2	6	0	2	1	2	0	2	6	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:19765389C>A	uc011jyg.1	-	3	292	c.207G>T	c.(205-207)ATG>ATT	p.M69I	TMEM196_uc003sur.2_RNA	NM_152774	NP_689987	Q5HYL7	TM196_HUMAN	transmembrane protein 196	75	Helical; (Potential).					integral to membrane					0						AAAAGAGGATCATCTGATAAG	0.473													11	122					1.08611e-07	1.12521e-07	0.080935	1	0		A	19765389	A	A	19765389	3	1	24	1	0	0	0	0	1	0	0	0	16143	826	29	5	319	5	TMEM196	7	19765389	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	14508625	19765389	139373274	98	20893											
ADCY1	107	broad.mit.edu	37	chr7	45725707	45725707	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcctggtgggcaccctcccGctagccatatttttccgggt	4	12	11	14	2	0	0	0	0	0	0	2	0	2	0	5	3	2	2	5	3	2	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:45725707G>T	uc003tne.3	+	13	2238	c.2220G>T	c.(2218-2220)CCG>CCT	p.P740P		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	740	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GCACCCTCCCGCTAGCCATAT	0.617													4	119					0.00448238	0.00455269	0.047766	1	0		T	45725707	T	T	45725707	2	4	24	1	0	0	0	0	0	0	0	1	292	1074	38	5		5	ADCY1	7	45725707	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	25960318	45725707	113412956	99	20894											
ADCY1	107	broad.mit.edu	37	chr7	45753346	45753346	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctaccactttgtgtgcCgaggcaaagtcagtgtcaag	9	9	11	12	1	2	0	2	0	0	0	2	1	2	0	4	1	2	1	4	1	3	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:45753346C>T	uc003tne.3	+	20	3130	c.3112C>T	c.(3112-3114)CGA>TGA	p.R1038*		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	1038	Cytoplasmic (Potential).|Interaction with calmodulin (By similarity).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CTTTGTGTGCCGAGGCAAAGT	0.537													19	153					0	0	0.062417	0	0		T	45753346	T	T	45753346	4	4	24	1	0	0	0	0	0	1	0	0	292	644	23	1	3190	1	ADCY1	7	45753346	Nonsense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	27639	45753346	113385317	100	20895											
IGFBP3	3486	broad.mit.edu	37	chr7	45954522	45954522	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaccagcagaagccccgcTtcctgcctttggaagggcga	9	6	11	15	2	0	1	0	0	0	1	1	3	1	2	5	2	3	2	5	2	2	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:45954522T>G	uc003tns.2	-	4	905	c.773A>C	c.(772-774)AAG>ACG	p.K258T	IGFBP3_uc003tnq.2_RNA|IGFBP3_uc003tnr.2_Missense_Mutation_p.K264T|IGFBP3_uc003tnt.2_Missense_Mutation_p.K161T	NM_000598	NP_000589	P17936	IBP3_HUMAN	insulin-like growth factor binding protein 3	258	Thyroglobulin type-1.				negative regulation of protein phosphorylation|negative regulation of signal transduction|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|positive regulation of apoptosis|positive regulation of myoblast differentiation|protein phosphorylation|regulation of cell growth	nucleus	insulin-like growth factor I binding|metal ion binding|protein tyrosine phosphatase activator activity			large_intestine(2)|lung(1)	3					Mecasermin(DB01277)	GAAGCCCCGCTTCCTGCCTTT	0.587													8	101					0	0	0.058154	0	0		G	45954522	G	G	45954522	3	3	24	1	0	0	0	0	1	0	0	0	7596	1609	56	5	106	5	IGFBP3	7	45954522	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	201176	45954522	113184141	101	20896											
ABCA13	154664	broad.mit.edu	37	chr7	48550761	48550761	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttactttccgcaagaacTtggcagccacggccctcctg	7	11	8	15	2	0	1	0	0	0	1	2	1	2	1	4	2	3	2	4	2	3	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:48550761T>G	uc003toq.2	+	51	13631	c.13606T>G	c.(13606-13608)TTG>GTG	p.L4536V	ABCA13_uc010kys.1_Missense_Mutation_p.L1611V|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Missense_Mutation_p.L266V	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4536	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CCGCAAGAACTTGGCAGCCAC	0.458													26	87					0	0	0.030593	0	0		G	48550761	G	G	48550761	3	3	24	1	0	0	0	0	1	0	0	0	31	1606	56	5	13637	5	ABCA13	7	48550761	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	2596239	48550761	110587902	102	20897											
BCL7B	9275	broad.mit.edu	37	chr7	72954381	72954381	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactctggttgctgttttcGtctgaaaaccaaacagaaca	13	11	8	9	1	2	2	0	1	2	1	3	3	2	2	1	1	5	3	1	1	5	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:72954381G>A	uc003tyf.1	-	4	383	c.267C>T	c.(265-267)GAC>GAT	p.D89D	BCL7B_uc010lbf.1_RNA|BCL7B_uc003tye.1_RNA|BCL7B_uc003tyg.1_Intron	NM_001707	NP_001698	Q9BQE9	BCL7B_HUMAN	B-cell CLL/lymphoma 7B	89							actin binding			ovary(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				TGCTGTTTTCGTCTGAAAACC	0.547													6	36					0	0	0.02938	0	0		A	72954381	A	A	72954381	2	1	24	1	0	0	0	0	0	0	0	1	1380	1159	40	1		1	BCL7B	7	72954381	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	24403620	72954381	86184282	103	20898											
PTPN12	5782	broad.mit.edu	37	chr7	77212905	77212905	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caaaagcatatgtagcaactCaaggacctttagcaaataca	18	8	6	9	0	1	0	1	0	0	0	1	1	1	1	1	1	5	4	1	1	9	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:77212905C>G	uc003ugh.2	+	4	410	c.319C>G	c.(319-321)CAA>GAA	p.Q107E	PTPN12_uc011kgp.1_5'UTR|PTPN12_uc011kgq.1_Intron|PTPN12_uc010ldq.1_RNA|PTPN12_uc010ldr.1_Intron	NM_002835	NP_002826	Q05209	PTN12_HUMAN	protein tyrosine phosphatase, non-receptor type	107	Tyrosine-protein phosphatase.					soluble fraction	non-membrane spanning protein tyrosine phosphatase activity|SH3 domain binding			ovary(1)|breast(1)|pancreas(1)	3						TGTAGCAACTCAAGGACCTTT	0.294													35	87					0	0	0.080422	0	0		G	77212905	G	G	77212905	3	3	24	1	0	0	0	0	1	0	0	0	12804	827	29	5	333	5	PTPN12	7	77212905	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	4258524	77212905	81925758	104	20899											
TRRAP	8295	broad.mit.edu	37	chr7	98513368	98513368	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacttgcacaagattgtgaAcagctctatggagctcgcgc	10	10	10	11	2	2	2	1	1	1	1	3	3	2	3	0	1	4	3	0	1	3	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:98513368A>T	uc003upp.2	+	19	2431	c.2222A>T	c.(2221-2223)AAC>ATC	p.N741I	TRRAP_uc011kis.1_Missense_Mutation_p.N741I|TRRAP_uc003upr.2_Missense_Mutation_p.N433I	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	741					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			AAGATTGTGAACAGCTCTATG	0.527													13	200					0	0	0.0333	0	0		T	98513368	T	T	98513368	3	4	24	1	0	0	0	0	1	0	0	0	16627	43	2	5	2292	5	TRRAP	7	98513368	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	21300463	98513368	60625295	105	20900											
MOGAT3	346606	broad.mit.edu	37	chr7	100839530	100839530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggctgagaagagaccgCgaccccagaagatgcaagga	14	3	15	9	2	0	4	0	1	0	4	0	8	0	5	3	3	1	2	3	3	3	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:100839530C>T	uc003uyc.2	-	6	976	c.809G>A	c.(808-810)CGC>CAC	p.R270H	MOGAT3_uc010lhr.2_Intron	NM_178176	NP_835470	Q86VF5	MOGT3_HUMAN	monoacylglycerol O-acyltransferase 3	270					glycerol metabolic process|lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity|diacylglycerol O-acyltransferase activity			ovary(2)	2	Lung NSC(181;0.168)|all_lung(186;0.215)					GAAGAGACCGCGACCCCAGAA	0.602													4	21					0	0	0.021553	0	0		T	100839530	T	T	100839530	3	4	24	1	0	0	0	0	1	0	0	0	9714	768	27	1	224	1	MOGAT3	7	100839530	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	2326162	100839530	58299133	106	20901											
MLL5	55904	broad.mit.edu	37	chr7	104753038	104753038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagggcattttttgccctCtcagaaccctaccattcacc	8	12	5	16	0	2	1	2	0	1	1	4	1	3	1	5	1	3	1	5	1	2	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:104753038C>T	uc003vcm.2	+	27	5369	c.4835C>T	c.(4834-4836)TCT>TTT	p.S1612F	MLL5_uc010ljc.2_Missense_Mutation_p.S1612F|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Missense_Mutation_p.S346F	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1612	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						TTTTTGCCCTCTCAGAACCCT	0.542													25	195					0	0	0.0918	0	0		T	104753038	T	T	104753038	3	4	24	1	0	0	0	0	1	0	0	0	9642	913	32	4	4933	4	MLL5	7	104753038	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	3913508	104753038	54385625	107	20902											
FOXP2	93986	broad.mit.edu	37	chr7	114174676	114174676	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatttttacttctaggctcTccaggcagcaagacaacttc	10	13	6	12	0	3	1	1	0	2	1	5	1	3	1	1	2	3	3	1	2	4	6			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:114174676T>G	uc003vhb.2	+	3	547	c.173T>G	c.(172-174)CTC>CGC	p.L58R	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Missense_Mutation_p.L58R|FOXP2_uc003vha.2_5'UTR|FOXP2_uc011kmu.1_Missense_Mutation_p.L58R|FOXP2_uc011kmv.1_Missense_Mutation_p.L58R|FOXP2_uc003vgt.1_RNA|FOXP2_uc003vgv.1_Missense_Mutation_p.L58R|FOXP2_uc003vgw.2_Missense_Mutation_p.L58R|FOXP2_uc003vgx.2_Missense_Mutation_p.L58R|FOXP2_uc003vhd.2_Missense_Mutation_p.L58R|FOXP2_uc003vhc.2_Missense_Mutation_p.L58R	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	58	Gln-rich.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						TTCTAGGCTCTCCAGGCAGCA	0.353													23	168					0	0	0.099896	0	0		G	114174676	G	G	114174676	3	3	24	1	0	0	0	0	1	0	0	0	6041	1551	54	5	179	5	FOXP2	7	114174676	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	9421638	114174676	44963987	108	20903											
AHCYL2	23382	broad.mit.edu	37	chr7	129066383	129066383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggactcaacaagaatgggcCcttcaagcctaattactaca	14	8	8	11	0	2	1	2	0	0	1	2	2	2	2	2	2	4	0	2	2	7	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:129066383C>T	uc011kov.1	+	16	1862	c.1808C>T	c.(1807-1809)CCC>CTC	p.P603L	AHCYL2_uc003vot.2_Missense_Mutation_p.P602L|AHCYL2_uc003vov.2_Missense_Mutation_p.P500L|AHCYL2_uc011kow.1_Missense_Mutation_p.P501L|AHCYL2_uc011kox.1_Missense_Mutation_p.P500L	NM_015328	NP_056143	Q96HN2	SAHH3_HUMAN	S-adenosylhomocysteine hydrolase-like 2 isoform	603					one-carbon metabolic process		adenosylhomocysteinase activity			ovary(2)	2						AAGAATGGGCCCTTCAAGCCT	0.527													42	67					0	0	0.09836	0	0		T	129066383	T	T	129066383	3	4	24	1	0	0	0	0	1	0	0	0	411	623	22	4	1992	4	AHCYL2	7	129066383	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	14891707	129066383	30072280	109	20904											
ACTR3C	653857	broad.mit.edu	37	chr7	149986639	149986639	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgtaatatctctacctgcaAtcgggatgtgtttgatgcag	10	13	10	8	2	1	1	0	1	1	0	3	2	1	2	1	1	3	4	1	1	4	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:149986639A>G	uc003wgu.1	-	4	387	c.197T>C	c.(196-198)ATT>ACT	p.I66T		NM_001040135	NP_001035225	Q9C0K3	ARP3C_HUMAN	actin-related protein 3-beta isoform 2	66					regulation of actin filament polymerization	cytoskeleton	actin binding|ATP binding				0						TCTACCTGCAATCGGGATGTG	0.488													12	35					0	0	0.028581	0	0		G	149986639	G	G	149986639	3	3	24	1	0	0	0	0	1	0	0	0	214	101	4	3	451	3	ACTR3C	7	149986639	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	20920256	149986639	9152024	110	20905											
MLL3	58508	broad.mit.edu	37	chr7	151874791	151874791	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctcagattagaagatgcctCtacaacgctgccaggtggag	11	9	11	10	1	2	3	1	0	2	3	3	4	2	4	2	2	4	1	2	2	4	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr7:151874791C>G	uc003wla.2	-	38	7966	c.7747G>C	c.(7747-7749)GAG>CAG	p.E2583Q	MLL3_uc003wkz.2_Missense_Mutation_p.E1644Q|MLL3_uc003wky.2_Missense_Mutation_p.E92Q	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2583	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GAAGATGCCTCTACAACGCTG	0.557			N		medulloblastoma								63	84					0	0	0.048971	0	0		G	151874791	G	G	151874791	3	3	24	1	0	0	0	0	1	0	0	0	9640	922	32	5	7076	5	MLL3	7	151874791	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	1888152	151874791	7263872	111	20906											
GSR	2936	broad.mit.edu	37	chr8	30546716	30546716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttggtattcgggacccGcccaatggcccagagcaggc	7	7	13	14	2	0	1	0	0	0	1	2	2	1	2	4	4	1	2	4	4	2	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:30546716G>A	uc003xih.1	-	9	1094	c.1003C>T	c.(1003-1005)CGG>TGG	p.R335W		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	335					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)	TTCGGGACCCGCCCAATGGCC	0.488													27	35					0	0	0.099896	0	0		A	30546716	A	A	30546716	3	1	24	1	0	0	0	0	1	0	0	0	6844	1086	38	1	585	1	GSR	8	30546716	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08		30546716	115817306	112	20907											
UNC5D	137970	broad.mit.edu	37	chr8	35631916	35631916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccctactccatcagacagCggatttgtgctacatttgat	9	14	7	11	1	1	2	1	1	0	1	3	3	3	3	2	1	4	1	2	1	2	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:35631916C>T	uc003xjr.1	+	16	2906	c.2578C>T	c.(2578-2580)CGG>TGG	p.R860W	UNC5D_uc003xjs.1_Missense_Mutation_p.R855W|UNC5D_uc003xju.1_Missense_Mutation_p.R436W	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	860	Death.|Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CATCAGACAGCGGATTTGTGC	0.488													34	85					0	0	0.059317	0	0		T	35631916	T	T	35631916	3	4	24	1	0	0	0	0	1	0	0	0	17021	759	27	1	2640	1	UNC5D	8	35631916	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	5085200	35631916	110732106	113	20908											
PXDNL	137902	broad.mit.edu	37	chr8	52321637	52321637	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgccccgggggtcggcGtgccgggtgttcatggggaa	3	8	21	9	4	1	0	1	0	0	0	2	1	1	1	3	7	2	1	3	7	1	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:52321637G>A	uc003xqu.3	-	17	2648	c.2547C>T	c.(2545-2547)CAC>CAT	p.H849H	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	849					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GGGGGTCGGCGTGCCGGGTGT	0.692													20	43					0	0	0.083992	0	0		A	52321637	A	A	52321637	2	1	24	1	0	0	0	0	0	0	0	1	12873	1136	40	1		1	PXDNL	8	52321637	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	16689721	52321637	94042385	114	20909											
MOS	4342	broad.mit.edu	37	chr8	57026167	57026167	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaccctgcgggcgtgcgCgtgctggcagccaccacgcg	4	6	16	15	6	0	0	0	0	0	0	0	1	0	1	3	3	4	2	3	3	0	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:57026167C>T	uc011leb.1	-	1	375	c.375G>A	c.(373-375)ACG>ACA	p.T125T		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	125	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			CGGGCGTGCGCGTGCTGGCAG	0.612													97	197					0	0	0.048971	0	0		T	57026167	T	T	57026167	2	4	24	1	0	0	0	0	0	0	0	1	9730	755	27	1		1	MOS	8	57026167	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	4704530	57026167	89337855	115	20910											
CYP7B1	9420	broad.mit.edu	37	chr8	65536991	65536991	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtgaaagtgtcaccatgTtgcttttgaagtgttttcat	9	17	9	6	0	2	2	2	2	0	0	2	2	2	2	1	0	1	3	1	0	2	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:65536991T>G	uc003xvj.2	-	2	432	c.228A>C	c.(226-228)CAA>CAC	p.Q76H		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	76					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				TGTCACCATGTTGCTTTTGAA	0.383													36	264					0	0	0.080422	0	0		G	65536991	G	G	65536991	3	3	24	1	0	0	0	0	1	0	0	0	4200	1722	60	5	1312	5	CYP7B1	8	65536991	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	8510824	65536991	80827031	116	20911											
CNGB3	54714	broad.mit.edu	37	chr8	87645052	87645052	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaaaacaatttcaaataaAgtttgtggttctggaaggcc	15	12	9	5	0	2	1	1	1	1	0	2	2	2	2	1	3	1	2	1	3	7	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:87645052A>C	uc003ydx.2	-	11	1294	c.1248T>G	c.(1246-1248)ACT>ACG	p.T416T	CNGB3_uc010maj.2_Silent_p.T278T	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	416	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						TTTCAAATAAAGTTTGTGGTT	0.338													77	74					0	0	0.048971	0	0		C	87645052	C	C	87645052	2	2	24	1	0	0	0	0	0	0	0	1	3604	59	3	5		5	CNGB3	8	87645052	Silent	SNP	A	TCGA-BR-4369-01A-01D-1158-08	22108061	87645052	58718970	117	20912											
CNGB3	54714	broad.mit.edu	37	chr8	87751922	87751922	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttcagacgtgactggagTtgacttggttttgagagatt	8	15	12	6	1	2	5	1	3	1	2	2	7	2	6	0	2	0	2	0	2	0	6			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:87751922T>G	uc003ydx.2	-	2	218	c.172A>C	c.(172-174)ACT>CCT	p.T58P		NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	58	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						GTGACTGGAGTTGACTTGGTT	0.318													36	185					0	0	0.09836	0	0		G	87751922	G	G	87751922	3	3	24	1	0	0	0	0	1	0	0	0	3604	1725	60	5	2325	5	CNGB3	8	87751922	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	106870	87751922	58612100	118	20913											
CNBD1	168975	broad.mit.edu	37	chr8	87899806	87899806	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacattaattatggccagtTgaatgcattatgccacatta	13	13	7	8	0	0	1	0	1	0	0	0	1	0	1	2	1	2	3	2	1	5	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:87899806T>C	uc003ydy.2	+	2	173	c.125T>C	c.(124-126)TTG>TCG	p.L42S		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	42										ovary(3)	3						TATGGCCAGTTGAATGCATTA	0.284													5	12					0	0	0.038147	0	0		C	87899806	C	C	87899806	3	2	24	1	0	0	0	0	1	0	0	0	3594	1821	63	3	131	3	CNBD1	8	87899806	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	147884	87899806	58464216	119	20914											
MMP16	4325	broad.mit.edu	37	chr8	89068435	89068435	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accatgagggggaattccacTtccaagggttatcaagtcat	12	10	10	9	0	2	1	2	1	0	0	4	2	4	2	3	3	0	1	3	3	4	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:89068435T>C	uc003yeb.3	-	8	1576	c.1294A>G	c.(1294-1296)AGT>GGT	p.S432G		NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	432	Hemopexin-like 2.|Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						GGAATTCCACTTCCAAGGGTT	0.418													52	216					0	0	0.048971	0	0		C	89068435	C	C	89068435	3	2	24	1	0	0	0	0	1	0	0	0	9673	1609	56	3	541	3	MMP16	8	89068435	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	1168629	89068435	57295587	120	20915											
RIMS2	9699	broad.mit.edu	37	chr8	105160990	105160990	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgggcaccagtggcaaaaAgcggcgctctagccttggtg	8	8	14	11	2	1	0	0	0	1	0	1	0	1	0	2	4	2	3	2	4	3	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:105160990A>G	uc003yls.2	+	23	3543	c.3302A>G	c.(3301-3303)AAG>AGG	p.K1101R	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Missense_Mutation_p.K1090R|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGTGGCAAAAAGCGGCGCTCT	0.522										HNSCC(12;0.0054)			22	137					0	0	0.076483	0	0		G	105160990	G	G	105160990	3	3	24	1	0	0	0	0	1	0	0	0	13393	87	3	3		3	RIMS2	8	105160990	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	16092555	105160990	41203032	121	20916											
RIMS2	9699	broad.mit.edu	37	chr8	105263384	105263384	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagagtccacaaggaaaagTtttacaggtatctacttaat	16	11	8	6	0	1	1	0	0	1	1	2	3	2	2	1	2	2	2	1	2	7	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:105263384T>A	uc003yls.2	+	27	4119	c.3878T>A	c.(3877-3879)GTT>GAT	p.V1293D	RIMS2_uc003ylp.2_Missense_Mutation_p.V1275D|RIMS2_uc003ylw.2_Missense_Mutation_p.V1282D|RIMS2_uc003ylq.2_Missense_Mutation_p.V1089D|RIMS2_uc003ylr.2_Missense_Mutation_p.V1114D	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1337	C2 2.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CAAGGAAAAGTTTTACAGGTA	0.368										HNSCC(12;0.0054)			8	31					0	0	0.047766	0	0		A	105263384	A	A	105263384	3	1	24	1	0	0	0	0	1	0	0	0	13393	1725	60	5	4110	5	RIMS2	8	105263384	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	102394	105263384	41100638	122	20917											
CSMD3	114788	broad.mit.edu	37	chr8	113933947	113933947	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgccctgtaggacataatcTtcatcacaagagaactgcac	13	8	8	12	1	3	1	2	0	1	1	3	3	3	2	1	1	2	2	1	1	4	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:113933947T>G	uc003ynu.2	-	10	1701	c.1542A>C	c.(1540-1542)GAA>GAC	p.E514D	CSMD3_uc003ynt.2_Missense_Mutation_p.E474D|CSMD3_uc011lhx.1_Missense_Mutation_p.E410D	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	514	Extracellular (Potential).|Sushi 2.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GGACATAATCTTCATCACAAG	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			76	162					0	0	0.048971	0	0		G	113933947	G	G	113933947	3	3	24	1	0	0	0	0	1	0	0	0	3949	1606	56	5	9829	5	CSMD3	8	113933947	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	8670563	113933947	32430075	123	20918											
TRPS1	7227	broad.mit.edu	37	chr8	116599678	116599678	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtcaattttgggctcctcTttgatggtggatatggcatg	8	15	12	6	0	2	1	1	1	1	0	3	2	3	2	1	4	0	2	1	4	3	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:116599678T>G	uc003ynz.2	-	4	2670	c.2211A>C	c.(2209-2211)AAA>AAC	p.K737N	TRPS1_uc011lhy.1_Missense_Mutation_p.K741N|TRPS1_uc003yny.2_Missense_Mutation_p.K750N|TRPS1_uc010mcy.2_Missense_Mutation_p.K737N	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	737	Mediates interaction with GLI3.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TGGGCTCCTCTTTGATGGTGG	0.498									Langer-Giedion_syndrome				168	351					0	0	0.048971	0	0		G	116599678	G	G	116599678	3	3	24	1	0	0	0	0	1	0	0	0	16619	1606	56	5	1646	5	TRPS1	8	116599678	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	2665731	116599678	29764344	124	20919											
OC90	729330	broad.mit.edu	37	chr8	133048652	133048652	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatcagtctgtcagcctcAgtctctgcagccactgtgaa	8	11	10	12	0	5	2	3	2	2	0	6	2	5	2	2	0	3	1	2	0	1	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr8:133048652A>G	uc003ytg.2	-	8	645	c.645T>C	c.(643-645)ACT>ACC	p.T215T	OC90_uc011lix.1_Intron	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	231					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			TGTCAGCCTCAGTCTCTGCAG	0.453													39	62					0	0	0.092188	0	0		G	133048652	G	G	133048652	2	3	24	1	0	0	0	0	0	0	0	1	10833	203	7	3		3	OC90	8	133048652	Silent	SNP	A	TCGA-BR-4369-01A-01D-1158-08	16448974	133048652	13315370	125	20920											
KCNV2	169522	broad.mit.edu	37	chr9	2718193	2718193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agacagacgaatacttcttcGaccgcgacccggccgtcttc	9	8	9	15	6	2	2	0	0	2	2	4	5	2	2	3	1	1	0	3	1	2	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr9:2718193G>A	uc003zho.1	+	1	668	c.454G>A	c.(454-456)GAC>AAC	p.D152N		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	152	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		ATACTTCTTCGACCGCGACCC	0.652													12	13					0	0	0.080935	0	0		A	2718193	A	A	2718193	3	1	24	1	0	0	0	0	1	0	0	0	8111	1058	37	1	456	1	KCNV2	9	2718193	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08		2718193	138495238	126	20921											
PTPRD	5789	broad.mit.edu	37	chr9	8376048	8376048	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgatcaggccaggcggTgaactggaattgtctcactt	10	10	11	10	1	2	2	2	2	1	0	3	3	2	3	2	4	1	0	2	4	2	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr9:8376048T>G	uc003zkk.2	-	38	5260	c.4549A>C	c.(4549-4551)ACC>CCC	p.T1517P	PTPRD_uc003zkp.2_Missense_Mutation_p.T1111P|PTPRD_uc003zkq.2_Missense_Mutation_p.T1110P|PTPRD_uc003zkr.2_Missense_Mutation_p.T1101P|PTPRD_uc003zks.2_Missense_Mutation_p.T1110P|PTPRD_uc003zkl.2_Missense_Mutation_p.T1508P|PTPRD_uc003zkm.2_Missense_Mutation_p.T1504P|PTPRD_uc003zkn.2_Missense_Mutation_p.T1106P|PTPRD_uc003zko.2_Missense_Mutation_p.T1107P	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1517	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		GGCCAGGCGGTGAACTGGAAT	0.458										TSP Lung(15;0.13)			26	28					0	0	0.108266	0	0		G	8376048	G	G	8376048	3	3	24	1	0	0	0	0	1	0	0	0	12824	1696	59	5	1221	5	PTPRD	9	8376048	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	5657855	8376048	132837383	127	20922											
KIF27	55582	broad.mit.edu	37	chr9	86506355	86506355	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaagtcactgacaggttaAgttttgttagttcttcactc	11	15	8	7	0	3	2	2	1	1	1	4	2	3	2	0	1	0	4	0	1	4	6			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr9:86506355A>C	uc004ana.2	-	6	1808	c.1664T>G	c.(1663-1665)CTT>CGT	p.L555R	KIF27_uc010mpw.2_Missense_Mutation_p.L555R|KIF27_uc010mpx.2_Missense_Mutation_p.L555R	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	555	Potential.				cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						TGACAGGTTAAGTTTTGTTAG	0.358													30	72					0	0	0.034045	0	0		C	86506355	C	C	86506355	3	2	24	1	0	0	0	0	1	0	0	0	8312	72	3	5	2593	5	KIF27	9	86506355	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	78130307	86506355	54707076	128	20923											
NXNL2	158046	broad.mit.edu	37	chr9	91150520	91150520	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctatacggcgctggtggcCgaggcgcggcggcccgcgcc	3	6	17	15	8	1	0	0	0	1	0	1	1	1	0	3	6	1	1	3	6	2	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr9:91150520C>T	uc011ltj.1	+	1	505	c.171C>T	c.(169-171)GCC>GCT	p.A57A	NXNL2_uc004aqa.2_Silent_p.A57A	NM_001161625	NP_001155097	Q5VZ03	NXNL2_HUMAN	nucleoredoxin-like 2 isoform 1	57	Thioredoxin.										0						CGCTGGTGGCCGAGGCGCGGC	0.692													10	8					0	0	0.0333	0	0		T	91150520	T	T	91150520	2	4	24	1	0	0	0	0	0	0	0	1	10808	639	23	1		1	NXNL2	9	91150520	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	4644165	91150520	50062911	129	20924											
TLR4	7099	broad.mit.edu	37	chr9	120475898	120475898	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcacagagctgagaaacTtgaccttcctggacctctct	9	12	7	13	0	3	3	1	2	2	2	5	5	4	4	3	1	2	1	3	1	1	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr9:120475898T>G	uc004bjz.2	+	3	1783	c.1492T>G	c.(1492-1494)TTG>GTG	p.L498V	TLR4_uc004bka.2_Missense_Mutation_p.L458V|TLR4_uc004bkb.2_Missense_Mutation_p.L298V	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	498	LRR 16.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						GCTGAGAAACTTGACCTTCCT	0.448													41	130					0	0	0.09836	0	0		G	120475898	G	G	120475898	3	3	24	1	0	0	0	0	1	0	0	0	15978	1606	56	5	1502	5	TLR4	9	120475898	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	29325378	120475898	20737533	130	20925											
SPTAN1	6709	broad.mit.edu	37	chr9	131329152	131329152	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaagctggaagattcctatCgattccagttctttcaaaga	13	12	8	8	1	2	3	1	0	1	3	5	5	4	4	2	1	1	2	2	1	4	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr9:131329152C>T	uc004bvl.3	+	2	246	c.133C>T	c.(133-135)CGA>TGA	p.R45*	SPTAN1_uc011mbg.1_Nonsense_Mutation_p.R45*|SPTAN1_uc011mbh.1_Nonsense_Mutation_p.R57*|SPTAN1_uc004bvm.3_Nonsense_Mutation_p.R45*|SPTAN1_uc004bvn.3_Nonsense_Mutation_p.R45*	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	45	Spectrin 2.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						AGATTCCTATCGATTCCAGTT	0.468													62	146					0	0	0.048971	0	0		T	131329152	T	T	131329152	4	4	24	1	0	0	0	0	0	1	0	0	15142	876	31	1	135	1	SPTAN1	9	131329152	Nonsense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	10853254	131329152	9884279	131	20926											
FAM78A	286336	broad.mit.edu	37	chr9	134136516	134136516	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctctggtcccggtagataTtggtgagcttggccacgttg	6	12	14	9	2	1	2	0	1	1	1	2	2	2	2	2	4	2	4	2	4	2	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr9:134136516T>A	uc004cak.2	-	2	885	c.545A>T	c.(544-546)AAT>ATT	p.N182I	FAM78A_uc004caj.2_Missense_Mutation_p.N179I	NM_033387	NP_203745	Q5JUQ0	FA78A_HUMAN	hypothetical protein LOC286336	182										ovary(1)	1	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.15e-05)|Epithelial(140;0.000267)		CCGGTAGATATTGGTGAGCTT	0.572													31	152					0	0	0.059317	0	0		A	134136516	A	A	134136516	3	1	24	1	0	0	0	0	1	0	0	0	5640	1493	52	5	310	5	FAM78A	9	134136516	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	2807364	134136516	7076915	132	20927											
CUBN	8029	broad.mit.edu	37	chr10	17087092	17087092	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgctgccgtggctagattTcaaccaccagtagcattcag	9	10	10	12	2	2	1	2	0	0	1	2	1	2	1	3	1	4	4	3	1	3	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr10:17087092T>G	uc001ioo.2	-	25	3638	c.3586A>C	c.(3586-3588)AAA>CAA	p.K1196Q		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1196	CUB 7.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TGGCTAGATTTCAACCACCAG	0.463													31	103					0	0	0.080422	0	0		G	17087092	G	G	17087092	3	3	24	1	0	0	0	0	1	0	0	0	4054	1792	62	5	7457	5	CUBN	10	17087092	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08		17087092	118447655	133	20928											
NRG3	10718	broad.mit.edu	37	chr10	84744903	84744903	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaatacatcaataaatatgCaactgccttcaagagagaca	19	8	6	8	0	2	2	2	0	0	2	2	4	2	2	1	0	4	1	1	0	8	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr10:84744903C>T	uc001kco.2	+	9	1660	c.1633C>T	c.(1633-1635)CAA>TAA	p.Q545*	NRG3_uc010qlz.1_Nonsense_Mutation_p.Q544*|NRG3_uc001kcp.2_Nonsense_Mutation_p.Q348*|NRG3_uc001kcq.2_Nonsense_Mutation_p.Q195*|NRG3_uc001kcr.2_Nonsense_Mutation_p.Q219*	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	569	Cytoplasmic (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		AATAAATATGCAACTGCCTTC	0.418													9	495					0	0	0.058154	0	0		T	84744903	T	T	84744903	4	4	24	1	0	0	0	0	0	1	0	0	10668	711	25	2	1911	2	NRG3	10	84744903	Nonsense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	67657811	84744903	50789844	134	20929											
BTAF1	9044	broad.mit.edu	37	chr10	93786897	93786897	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttatccagaaacgtgtggTtaacgtataccgattgataa	13	13	8	7	3	1	2	0	1	1	1	2	3	2	2	2	1	3	2	2	1	6	6			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr10:93786897T>G	uc001khr.2	+	37	5344	c.5246T>G	c.(5245-5247)GTT>GGT	p.V1749G		NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	1749	Helicase C-terminal.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				AAACGTGTGGTTAACGTATAC	0.373													41	75					0	0	0.042209	0	0		G	93786897	G	G	93786897	3	3	24	1	0	0	0	0	1	0	0	0	1539	1725	60	5	5392	5	BTAF1	10	93786897	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	9041994	93786897	41747850	135	20930											
TACC2	10579	broad.mit.edu	37	chr10	124008265	124008265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgtggagaagtctctggccGacctcttcagaagatatgag	10	9	12	10	2	3	4	1	1	2	3	4	6	3	4	3	2	0	0	3	2	3	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr10:124008265G>A	uc001lfv.2	+	20	8860	c.8500G>A	c.(8500-8502)GAC>AAC	p.D2834N	TACC2_uc001lfw.2_Missense_Mutation_p.D980N|TACC2_uc009xzx.2_Missense_Mutation_p.D2712N|TACC2_uc010qtv.1_Missense_Mutation_p.D2761N|TACC2_uc001lfx.2_Missense_Mutation_p.D461N|TACC2_uc001lfy.2_Missense_Mutation_p.D457N|TACC2_uc001lfz.2_Missense_Mutation_p.D912N|TACC2_uc001lga.2_Missense_Mutation_p.D882N|TACC2_uc009xzy.2_Missense_Mutation_p.D894N|TACC2_uc001lgb.2_Missense_Mutation_p.D792N	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	2834	Potential.					microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				GTCTCTGGCCGACCTCTTCAG	0.572													7	231					0	0	0.02938	0	0		A	124008265	A	A	124008265	3	1	24	1	0	0	0	0	1	0	0	0	15527	1058	37	1	8646	1	TACC2	10	124008265	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	30221368	124008265	11526482	136	20931											
FAM196A	642938	broad.mit.edu	37	chr10	128974010	128974010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctggtaatcgggctcttcgGatggaggccgagtggagttt	6	11	17	7	3	1	0	0	0	1	0	3	4	1	3	1	6	0	4	1	6	1	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr10:128974010G>A	uc001lju.1	-	1	691	c.650C>T	c.(649-651)TCC>TTC	p.S217F	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.S217F|FAM196A_uc001ljv.1_Missense_Mutation_p.S217F|FAM196A_uc009yap.1_Missense_Mutation_p.S217F	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	217										ovary(2)	2						GGGCTCTTCGGATGGAGGCCG	0.627													10	45					0	0	0.069234	0	0		A	128974010	A	A	128974010	3	1	24	1	0	0	0	0	1	0	0	0	5539	1174	41	4	801	4	FAM196A	10	128974010	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	4965745	128974010	6560737	137	20932											
OR52N4	390072	broad.mit.edu	37	chr11	5776694	5776694	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcggcagaaggcctttaatAcctgcactgcccacatttgt	9	11	8	13	1	0	1	0	0	0	1	1	1	0	1	3	2	3	2	3	2	3	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr11:5776694A>G	uc001mbu.2	+	1	772	c.724A>G	c.(724-726)ACC>GCC	p.T242A	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005175	NP_001005175	Q8NGI2	O52N4_HUMAN	olfactory receptor, family 52, subfamily N,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;1.87e-10)|LUSC - Lung squamous cell carcinoma(625;0.114)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.197)		GGCCTTTAATACCTGCACTGC	0.498													242	96					0	0	0.048971	0	0		G	5776694	G	G	5776694	3	3	24	1	0	0	0	0	1	0	0	0	11148	391	14	3	726	3	OR52N4	11	5776694	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08		5776694	129229822	138	20933											
OVCH2	341277	broad.mit.edu	37	chr11	7722004	7722004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggcccctttcttattcCggcacatgagtgaacctcct	7	12	7	15	1	1	2	0	2	1	0	4	2	4	2	6	2	1	1	6	2	2	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr11:7722004C>T	uc010rbf.1	-	7	740	c.740G>A	c.(739-741)CGG>CAG	p.R247Q		NM_198185	NP_937828			ovochymase 2 precursor												0				Epithelial(150;7.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.197)		TTTCTTATTCCGGCACATGAG	0.512													33	10					0	0	0.064281	0	0		T	7722004	T	T	7722004	3	4	24	1	0	0	0	0	1	0	0	0	11343	652	23	1	989	1	OVCH2	11	7722004	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	1945310	7722004	127284512	139	20934											
OR4C15	81309	broad.mit.edu	37	chr11	55322842	55322842	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaacaggccatgaggagaAtatggaacagactgatggtg	16	7	13	5	0	0	4	0	2	0	2	0	6	0	5	1	4	2	0	1	4	5	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr11:55322842A>C	uc010rig.1	+	1	1060	c.1060A>C	c.(1060-1062)ATA>CTA	p.I354L		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CATGAGGAGAATATGGAACAG	0.318										HNSCC(20;0.049)			132	65					0	0	0.048971	0	0		C	55322842	C	C	55322842	3	2	24	1	0	0	0	0	1	0	0	0	11067	101	4	5	1062	5	OR4C15	11	55322842	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	47600838	55322842	79683674	140	20935											
OR8H1	219469	broad.mit.edu	37	chr11	56057755	56057755	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccaaagaataagactttcTtggttttaaataagtaaaaa	18	13	5	5	0	1	2	0	0	1	2	2	2	2	2	1	1	0	2	1	1	9	7			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr11:56057755T>G	uc010rje.1	-	1	784	c.784A>C	c.(784-786)AGA>CGA	p.R262R		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					TAAGACTTTCTTGGTTTTAAA	0.358													118	69					0	0	0.048971	0	0		G	56057755	G	G	56057755	2	3	24	1	0	0	0	0	0	0	0	1	11256	1617	56	5		5	OR8H1	11	56057755	Silent	SNP	T	TCGA-BR-4369-01A-01D-1158-08	734913	56057755	78948761	141	20936											
FAT3	120114	broad.mit.edu	37	chr11	92616518	92616518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaccctgccgctccgactGcgactccatccggaagaatg	8	7	10	16	4	1	1	1	0	0	1	4	4	4	2	5	1	2	1	5	1	2	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr11:92616518G>A	uc001pdj.3	+	23	12913	c.12896G>A	c.(12895-12897)TGC>TAC	p.C4299Y	FAT3_uc001pdi.3_Missense_Mutation_p.C739Y	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4299	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CGCTCCGACTGCGACTCCATC	0.657										TCGA Ovarian(4;0.039)			35	12					0	0	0.048971	0	0		A	92616518	A	A	92616518	3	1	24	1	0	0	0	0	1	0	0	0	5705	1319	46	2	12986	2	FAT3	11	92616518	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	36558763	92616518	42389998	142	20937											
DDI1	414301	broad.mit.edu	37	chr11	103907674	103907674	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcggagtccagagtccccGtcgaagagatccagatcatc	12	6	11	12	3	1	3	1	0	0	3	6	6	4	4	4	1	1	0	4	1	2	0	rs147776291	byFrequency	TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr11:103907674G>T	uc001phr.2	+	1	367	c.124G>T	c.(124-126)GTC>TTC	p.V42F	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	42	Ubiquitin-like.				proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		CAGAGTCCCCGTCGAAGAGAT	0.577													46	323					3.21987e-24	3.48932e-24	0.048971	1	0		T	103907674	T	T	103907674	3	4	24	1	0	0	0	0	1	0	0	0	4331	1145	40	5	126	5	DDI1	11	103907674	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	11291156	103907674	31098842	143	20938											
KCNA5	3741	broad.mit.edu	37	chr12	5154807	5154807	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggcaagatcgtgggctcGctgtgtgccatcgccggggt	4	8	19	10	4	0	1	0	0	0	1	3	1	0	1	2	5	1	3	2	5	1	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr12:5154807G>A	uc001qni.2	+	1	1723	c.1494G>A	c.(1492-1494)TCG>TCA	p.S498S		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	498	Helical; Name=Segment S6; (Potential).					Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						TCGTGGGCTCGCTGTGTGCCA	0.612													64	204					0	0	0.048971	0	0		A	5154807	A	A	5154807	2	1	24	1	0	0	0	0	0	0	0	1	8022	1074	38	1		1	KCNA5	12	5154807	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08		5154807	128697088	144	20939											
GNB3	2784	broad.mit.edu	37	chr12	6954785	6954785	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggccatctgcacgggctcGgatgacgcttcctgccgctt	5	9	13	14	4	1	1	0	1	1	0	3	3	2	2	3	3	2	4	3	3	0	2	rs112732503		TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr12:6954785G>A	uc001qrd.2	+	10	1140	c.735G>A	c.(733-735)TCG>TCA	p.S245S	GNB3_uc001qrc.2_Silent_p.S201S|GNB3_uc009zfe.2_Silent_p.S244S|CDCA3_uc001qre.2_3'UTR|uc001qrf.1_RNA	NM_002075	NP_002066	P16520	GBB3_HUMAN	guanine nucleotide-binding protein, beta-3	245	WD 5.				cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of blood pressure|synaptic transmission	plasma membrane	GTPase activity|GTPase binding|signal transducer activity				0						GCACGGGCTCGGATGACGCTT	0.632													56	138					0	0	0.048971	0	0		A	6954785	A	A	6954785	2	1	24	1	0	0	0	0	0	0	0	1	6534	1103	39	1		1	GNB3	12	6954785	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	1799978	6954785	126897110	145	20940											
CD163L1	283316	broad.mit.edu	37	chr12	7528460	7528460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcccacagaaagagatatgGcatctccacagtttaattct	13	11	6	11	0	2	2	0	0	2	2	4	3	3	2	2	1	0	2	2	1	3	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr12:7528460G>A	uc001qsy.2	-	10	2548	c.2522C>T	c.(2521-2523)GCC>GTC	p.A841V	CD163L1_uc010sge.1_Missense_Mutation_p.A851V	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	841	SRCR 8.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						AAGAGATATGGCATCTCCACA	0.453													28	167					0	0	0.037714	0	0		A	7528460	A	A	7528460	3	1	24	1	0	0	0	0	1	0	0	0	2971	1203	42	2	1879	2	CD163L1	12	7528460	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	573675	7528460	126323435	146	20941											
LST-3TM12	338821	broad.mit.edu	37	chr12	21200087	21200087	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctacattgcttctcttacTtatatcattaaaatggtgga	12	16	6	7	0	2	0	1	0	1	0	3	1	2	1	0	2	4	2	0	2	6	7			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr12:21200087T>G	uc010sin.1	+	7	930	c.930T>G	c.(928-930)ACT>ACG	p.T310T	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Silent_p.T357T	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	310						membrane	transporter activity				0						CTTCTCTTACTTATATCATTA	0.338													6	34					0	0	0.021553	0	0		G	21200087	G	G	21200087	2	3	24	1	0	0	0	0	0	0	0	1	9084	1596	56	5		5	LST-3TM12	12	21200087	Silent	SNP	T	TCGA-BR-4369-01A-01D-1158-08	13671627	21200087	112651808	147	20942											
SH2B3	10019	broad.mit.edu	37	chr12	111884628	111884628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgcacacggcttgagatGcctgacaacctttacacctt	9	11	9	12	1	0	2	0	2	0	1	0	3	0	2	3	2	4	2	3	2	2	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr12:111884628G>A	uc001tse.2	+	3	1161	c.804G>A	c.(802-804)ATG>ATA	p.M268I	SH2B3_uc010syf.1_Missense_Mutation_p.M268I|SH2B3_uc001tsf.2_Missense_Mutation_p.M268I|SH2B3_uc010syg.1_Missense_Mutation_p.M66I	NM_005475	NP_005466	Q9UQQ2	SH2B3_HUMAN	SH2B adaptor protein 3	268	PH.				blood coagulation	cytosol	signal transducer activity			ovary(1)	1						GGCTTGAGATGCCTGACAACC	0.522													5	39					0	0	0.014758	0	0		A	111884628	A	A	111884628	3	1	24	1	0	0	0	0	1	0	0	0	14254	1319	46	2	810	2	SH2B3	12	111884628	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	90684541	111884628	21967267	148	20943											
SACS	26278	broad.mit.edu	37	chr13	23905608	23905608	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcactcctaaactgtcaAgtttctcaccaatcctgtaa	12	14	3	12	0	3	0	3	0	1	0	6	0	5	0	3	0	1	2	3	0	5	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr13:23905608A>C	uc001uon.2	-	10	12996	c.12407T>G	c.(12406-12408)CTT>CGT	p.L4136R	SACS_uc001uoo.2_Missense_Mutation_p.L3989R|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	4136					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TAAACTGTCAAGTTTCTCACC	0.383													61	172					0	0	0.048971	0	0		C	23905608	C	C	23905608	3	2	24	1	0	0	0	0	1	0	0	0	13829	72	3	5	1336	5	SACS	13	23905608	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08		23905608	91264270	149	20944											
DCLK1	9201	broad.mit.edu	37	chr13	36686252	36686252	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgaagacactgcccgagaAgccgaggtggtcttgacgtt	10	8	14	9	3	1	4	0	2	1	2	1	6	1	4	2	2	2	1	2	2	2	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr13:36686252A>C	uc001uvf.2	-	3	710	c.477T>G	c.(475-477)GCT>GCG	p.A159A		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	159					cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		CTGCCCGAGAAGCCGAGGTGG	0.517													20	141					0	0	0.108266	0	0		C	36686252	C	C	36686252	2	2	24	1	0	0	0	0	0	0	0	1	4294	59	3	5		5	DCLK1	13	36686252	Silent	SNP	A	TCGA-BR-4369-01A-01D-1158-08	12780644	36686252	78483626	150	20945											
SPG20	23111	broad.mit.edu	37	chr13	36888456	36888456	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactaacttccacgggttttTcttctggttgaatccgctct	6	16	8	11	2	3	1	0	1	3	0	5	2	5	1	2	2	1	3	2	2	2	6			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr13:36888456T>C	uc001uvn.2	-	7	1661	c.1391A>G	c.(1390-1392)GAA>GGA	p.E464G	SPG20_uc010ten.1_Missense_Mutation_p.E454G|SPG20_uc001uvm.2_Missense_Mutation_p.E464G|SPG20_uc001uvo.2_Missense_Mutation_p.E464G|SPG20_uc001uvq.2_Missense_Mutation_p.E464G	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	464					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		CACGGGTTTTTCTTCTGGTTG	0.478													66	209					0	0	0.048971	0	0		C	36888456	C	C	36888456	3	2	24	1	0	0	0	0	1	0	0	0	15067	1783	62	3	625	3	SPG20	13	36888456	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	202204	36888456	78281422	151	20946											
FOXO1	2308	broad.mit.edu	37	chr13	41134248	41134248	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagcaactccttcaagagTccaggcgcacagttatactg	11	9	9	12	1	2	1	2	0	0	1	4	1	4	1	2	1	3	3	2	1	4	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr13:41134248T>C	uc001uxl.3	-	2	1765	c.1380A>G	c.(1378-1380)GGA>GGG	p.G460G	FOXO1_uc010acc.1_Silent_p.G275G	NM_002015	NP_002006	Q12778	FOXO1_HUMAN	forkhead box O1	460					anti-apoptosis|blood vessel development|embryo development|endocrine pancreas development|insulin receptor signaling pathway|negative regulation of stress-activated MAPK cascade|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|response to DNA damage stimulus|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding		PAX3/FOXO1(749)|PAX7/FOXO1(197)	soft_tissue(946)|lung(1)|central_nervous_system(1)	948		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)		CCTTCAAGAGTCCAGGCGCAC	0.517													33	72					0	0	0.050027	0	0		C	41134248	C	C	41134248	2	2	24	1	0	0	0	0	0	0	0	1	6037	1654	58	3		3	FOXO1	13	41134248	Silent	SNP	T	TCGA-BR-4369-01A-01D-1158-08	4245792	41134248	74035630	152	20947											
COCH	1690	broad.mit.edu	37	chr14	31349900	31349900	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtggctctaatgttgggaAttggaacagaaggaccacat	14	9	12	6	0	1	1	0	0	1	1	1	4	1	4	1	4	1	2	1	4	5	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr14:31349900A>T	uc001wqr.2	+	8	669	c.589A>T	c.(589-591)ATT>TTT	p.I197F	COCH_uc001wqp.2_Missense_Mutation_p.I197F|COCH_uc001wqq.3_Missense_Mutation_p.I197F|uc001wqs.2_Intron|COCH_uc001wqt.1_Missense_Mutation_p.I4F	NM_004086	NP_004077	O43405	COCH_HUMAN	cochlin precursor	197	VWFA 1.				sensory perception of sound	proteinaceous extracellular matrix				pancreas(1)|central_nervous_system(1)|skin(1)	3	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.00645)		AATGTTGGGAATTGGAACAGA	0.343													39	246					0	0	0.039052	0	0		T	31349900	T	T	31349900	3	4	24	1	0	0	0	0	1	0	0	0	3659	101	4	5	615	5	COCH	14	31349900	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08		31349900	75999640	153	20948											
EXOC5	10640	broad.mit.edu	37	chr14	57675476	57675476	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aactaccagaagattgcaaaGagcatgcagagtatcaaaaa	20	6	8	7	0	1	4	1	0	0	4	1	4	1	4	1	0	5	4	1	0	7	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr14:57675476G>C	uc001xct.2	-	18	2229	c.1978C>G	c.(1978-1980)CTT>GTT	p.L660V	EXOC5_uc001xcs.2_Missense_Mutation_p.L339V|EXOC5_uc010trg.1_Missense_Mutation_p.L605V|EXOC5_uc010trh.1_Missense_Mutation_p.L595V	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	660					exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						AGATTGCAAAGAGCATGCAGA	0.348													37	54					0	0	0.059317	0	0		C	57675476	C	C	57675476	3	2	24	1	0	0	0	0	1	0	0	0	5315	942	33	5	152	5	EXOC5	14	57675476	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	26325576	57675476	49674064	154	20949											
ARID4A	5926	broad.mit.edu	37	chr14	58832906	58832906	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ataaacacagagaaaaacatCcgaattcatcccctaggaca	19	6	5	11	1	1	1	1	0	0	1	3	4	3	2	3	1	2	0	3	1	6	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr14:58832906C>G	uc001xdp.2	+	22	3735	c.3481C>G	c.(3481-3483)CCG>GCG	p.P1161A	ARID4A_uc001xdo.2_Intron|ARID4A_uc001xdq.2_Intron	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	1161					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						AGAAAAACATCCGAATTCATC	0.373													18	205					0	0	0.038395	0	0		G	58832906	G	G	58832906	3	3	24	1	0	0	0	0	1	0	0	0	919	855	30	5	3563	5	ARID4A	14	58832906	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	1157430	58832906	48516634	155	20950											
RTL1	388015	broad.mit.edu	37	chr14	101350961	101350961	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccactggggggctccttCttttcctgggctgggccgct	1	11	16	13	1	1	0	0	0	1	0	3	0	3	0	4	6	0	3	4	6	0	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr14:101350961C>A	uc010txj.1	-	1	224	c.165G>T	c.(163-165)AAG>AAT	p.K55N	uc010txk.1_5'Flank|MIR136_hsa-mir-136|MI0000475_5'Flank	NM_001134888	NP_001128360	A6NKG5	RTL1_HUMAN	retrotransposon-like 1	55										pancreas(1)	1						GGGGCTCCTTCTTTTCCTGGG	0.622													13	25					3.27435e-08	3.41959e-08	0.020292	1	0		A	101350961	A	A	101350961	3	1	24	1	0	0	0	0	1	0	0	0	13749	912	32	5	3915	5	RTL1	14	101350961	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	42518055	101350961	5998579	156	20951											
TNFAIP2	7127	broad.mit.edu	37	chr14	103592889	103592891	+	In_Frame_Del	DEL	AGA	-	-																															ggcggcgaagaagaagaaggAgaagaagaagaagtccaaag																										TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr14:103592889_103592891delAGA	uc001ymm.1	+	1	226_228	c.95_97delAGA	c.(94-99)GAGAAG>GAG	p.K36del	TNFAIP2_uc010awo.1_5'UTR|TNFAIP2_uc010txz.1_5'Flank	NM_006291	NP_006282	Q03169	TNAP2_HUMAN	tumor necrosis factor, alpha-induced protein 2	36	Lys-rich (basic).				angiogenesis|cell differentiation	extracellular space				central_nervous_system(1)	1		Melanoma(154;0.155)	Epithelial(46;0.191)			aagaagaaggagaagaagaagaa	0.552													4	3	---	---	---	---						.	-	103592891	-	-	103592889	7	5	24	1	0	1	0	1	0	0	0	0	16298	304	11	0	97	0	TNFAIP2	14	103592889	In_Frame_Del	DEL	AGA	TCGA-BR-4369-01A-01D-1158-08	2241928	103592889	3756651	157	20952											
OR4N4	283694	broad.mit.edu	37	chr15	22382668	22382668	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctatttatttctgggcaacTtggccttcctggatgcatcc	6	16	8	11	0	2	0	0	0	2	0	4	1	4	1	3	3	2	2	3	3	3	6			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr15:22382668T>G	uc001yuc.1	+	7	1177	c.196T>G	c.(196-198)TTG>GTG	p.L66V	LOC727924_uc001yub.1_RNA|OR4N4_uc010tzv.1_Missense_Mutation_p.L66V	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TCTGGGCAACTTGGCCTTCCT	0.468													18	488					0	0	0.048971	0	0		G	22382668	G	G	22382668	3	3	24	1	0	0	0	0	1	0	0	0	11097	1606	56	5	198	5	OR4N4	15	22382668	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08		22382668	80148724	158	20953											
ACAN	176	broad.mit.edu	37	chr15	89392845	89392845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcctccgctaccccatcGtcaccccaaggcctgcctgc	6	6	8	21	2	1	0	1	0	0	0	3	0	2	0	8	1	4	2	8	1	2	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr15:89392845G>A	uc010upo.1	+	10	2283	c.1909G>A	c.(1909-1911)GTC>ATC	p.V637I	ACAN_uc002bmx.2_Missense_Mutation_p.V637I|ACAN_uc010upp.1_Missense_Mutation_p.V637I|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	637					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CTACCCCATCGTCACCCCAAG	0.692													8	16					0	0	0.047766	0	0		A	89392845	A	A	89392845	3	1	24	1	0	0	0	0	1	0	0	0	117	1145	40	1	1943	1	ACAN	15	89392845	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	67010177	89392845	13138547	159	20954											
SNX29	92017	broad.mit.edu	37	chr16	12662459	12662459	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccccgggagacccgcaaCgtggagccccagagcggtga	9	2	15	15	4	0	3	0	1	0	2	0	5	0	4	5	3	4	1	5	3	1	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr16:12662459C>T	uc002dby.3	+	14	1316	c.1260C>T	c.(1258-1260)AAC>AAT	p.N420N		NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	420					cell communication		phosphatidylinositol binding			ovary(1)	1						AGACCCGCAACGTGGAGCCCC	0.697													23	42					0	0	0.069288	0	0		T	12662459	T	T	12662459	2	4	24	1	0	0	0	0	0	0	0	1	14923	535	19	1		1	SNX29	16	12662459	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08		12662459	77692294	160	20955											
GPR139	124274	broad.mit.edu	37	chr16	20043132	20043132	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgcagtgtgagtttgcCggcgagatccaggggctact	7	11	15	8	2	0	3	0	2	0	1	1	4	1	3	2	3	3	3	2	3	1	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr16:20043132C>T	uc002dgu.1	-	2	1149	c.987G>A	c.(985-987)CCG>CCA	p.P329P	GPR139_uc010vaw.1_Silent_p.P236P	NM_001002911	NP_001002911	Q6DWJ6	GP139_HUMAN	G protein-coupled receptor 139	329	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)	2						GTGAGTTTGCCGGCGAGATCC	0.473													76	244					0	0	0.048971	0	0		T	20043132	T	T	20043132	2	4	24	1	0	0	0	0	0	0	0	1	6663	639	23	1		1	GPR139	16	20043132	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	7380673	20043132	70311621	161	20956											
ACSM2B	348158	broad.mit.edu	37	chr16	20559473	20559473	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagaagggactcccctcCagcgaggcagttctgtagat	10	8	13	10	1	1	2	0	0	1	2	3	5	3	4	3	3	1	3	3	3	3	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr16:20559473C>A	uc002dhj.3	-	9	1219	c.1009G>T	c.(1009-1011)GGA>TGA	p.G337*	ACSM2B_uc002dhk.3_Nonsense_Mutation_p.G337*|ACSM2B_uc010bwf.1_Nonsense_Mutation_p.G337*	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	337					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						GACTCCCCTCCAGCGAGGCAG	0.522													127	242					6.69922e-78	7.29033e-78	0.048971	1	0		A	20559473	A	A	20559473	4	1	24	1	0	0	0	0	0	1	0	0	184	603	21	5	752	5	ACSM2B	16	20559473	Nonsense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	516341	20559473	69795280	162	20957											
MMP2	4313	broad.mit.edu	37	chr16	55516874	55516874	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagagctgcaacctgtttgtGctgaaggacacactaaagaa	14	8	11	8	0	0	3	0	1	0	2	0	5	0	4	1	1	4	4	1	1	5	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr16:55516874G>C	uc002ehz.3	+	2	518	c.207G>C	c.(205-207)GTG>GTC	p.V69V	MMP2_uc010vhd.1_5'UTR|MMP2_uc010ccc.2_Silent_p.V19V	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	69					angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	ACCTGTTTGTGCTGAAGGACA	0.512													52	106					0	0	0.048971	0	0		C	55516874	C	C	55516874	2	2	24	1	0	0	0	0	0	0	0	1	9676	1306	46	5		5	MMP2	16	55516874	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	34957401	55516874	34837879	163	20958											
ADAT1	23536	broad.mit.edu	37	chr16	75636996	75636996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcatcacctgagggagtgtgGccacttgtcccttgcaattc	7	11	11	12	0	1	1	1	1	0	0	3	2	2	2	3	2	1	2	3	2	1	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr16:75636996G>A	uc002feo.1	-	10	1465	c.1363C>T	c.(1363-1365)CCA>TCA	p.P455S	ADAT1_uc002fep.1_Missense_Mutation_p.P306S	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	455	A to I editase.				tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						AGGGAGTGTGGCCACTTGTCC	0.438													122	549					0	0	0.048971	0	0		A	75636996	A	A	75636996	3	1	24	1	0	0	0	0	1	0	0	0	284	1203	42	2	153	2	ADAT1	16	75636996	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	20120122	75636996	14717757	164	20959											
GLP2R	9340	broad.mit.edu	37	chr17	9745873	9745873	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttggcagacgatagagaaCgccacggatatttggcagga	13	7	13	8	3	0	2	0	0	0	2	0	6	0	4	1	4	1	2	1	4	3	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr17:9745873C>T	uc002gmd.1	+	4	444	c.444C>T	c.(442-444)AAC>AAT	p.N148N	GLP2R_uc010cog.1_RNA	NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	148	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	CGATAGAGAACGCCACGGATA	0.527													25	98					0	0	0.034045	0	0		T	9745873	T	T	9745873	2	4	24	1	0	0	0	0	0	0	0	1	6468	535	19	1		1	GLP2R	17	9745873	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08		9745873	71449337	165	20960											
MYH8	4626	broad.mit.edu	37	chr17	10303964	10303964	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caattccacctgagcagaagTtgccccaccggcttcttcca	9	9	7	16	1	1	2	0	1	1	1	3	2	3	2	6	1	2	3	6	1	2	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr17:10303964T>A	uc002gmm.2	-	27	3573	c.3478A>T	c.(3478-3480)ACT>TCT	p.T1160S	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1160	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TGAGCAGAAGTTGCCCCACCG	0.612									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				22	251					0	0	0.099896	0	0		A	10303964	A	A	10303964	3	1	24	1	0	0	0	0	1	0	0	0	10059	1725	60	5	2391	5	MYH8	17	10303964	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	558091	10303964	70891246	166	20961											
ANKRD13B	124930	broad.mit.edu	37	chr17	27936244	27936244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgctgagccggcttaccGcgcccgtcgtcaccactcag	6	7	12	16	5	2	1	2	1	0	0	3	1	2	1	4	2	3	2	4	2	1	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr17:27936244G>A	uc002hei.2	+	6	819	c.706G>A	c.(706-708)GCG>ACG	p.A236T	ANKRD13B_uc002heh.2_Missense_Mutation_p.A104T|ANKRD13B_uc002hej.2_RNA	NM_152345	NP_689558	Q86YJ7	AN13B_HUMAN	ankyrin repeat domain 13B	236											0						CCGGCTTACCGCGCCCGTCGT	0.632													21	108					0	0	0.062417	0	0		A	27936244	A	A	27936244	3	1	24	1	0	0	0	0	1	0	0	0	642	1087	38	1	728	1	ANKRD13B	17	27936244	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	17632280	27936244	53258966	167	20962											
ATAD5	79915	broad.mit.edu	37	chr17	29167747	29167747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatagcgatacccttaaggcGctcctctagacatcagacac	13	8	7	13	2	2	2	1	0	1	2	3	3	3	2	2	1	2	1	2	1	5	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr17:29167747G>A	uc002hfs.1	+	4	2535	c.2189G>A	c.(2188-2190)CGC>CAC	p.R730H	ATAD5_uc002hft.1_Missense_Mutation_p.R627H	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	730					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				CCCTTAAGGCGCTCCTCTAGA	0.343													26	170					0	0	0.045705	0	0		A	29167747	A	A	29167747	3	1	24	1	0	0	0	0	1	0	0	0	1077	1087	38	1	2203	1	ATAD5	17	29167747	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	1231503	29167747	52027463	168	20963											
SRCIN1	80725	broad.mit.edu	37	chr17	36708206	36708206	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccccttgggggtaagagaGgctccttcagctggcccgct	5	8	13	15	1	1	1	1	0	0	1	2	2	2	1	5	4	1	4	5	4	1	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr17:36708206G>T	uc002hqd.2	-	14	2868	c.2643C>A	c.(2641-2643)GCC>GCA	p.A881A	SRCIN1_uc002hqf.1_Silent_p.A753A|SRCIN1_uc002hqe.2_Silent_p.A735A|SRCIN1_uc002hqg.2_Silent_p.A187A	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	753					exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						GGGTAAGAGAGGCTCCTTCAG	0.617													8	177					0.000157383	0.000161116	0.038147	1	0		T	36708206	T	T	36708206	2	4	24	1	0	0	0	0	0	0	0	1	15161	987	35	5		5	SRCIN1	17	36708206	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	7540459	36708206	44487004	169	20964											
FMNL1	752	broad.mit.edu	37	chr17	43322779	43322779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcagacagcaagacggCtcaggtgcgccagggctggc	8	4	17	12	2	1	2	1	0	0	2	1	2	1	2	1	5	2	5	1	5	1	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr17:43322779C>T	uc002iin.2	+	22	3088	c.2888C>T	c.(2887-2889)GCT>GTT	p.A963V	FMNL1_uc002iiq.2_Missense_Mutation_p.A541V|FMNL1_uc010dag.2_RNA|LOC100133991_uc010dah.2_5'Flank	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	963	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						AGCAAGACGGCTCAGGTGCGC	0.632													28	124					0	0	0.037714	0	0		T	43322779	T	T	43322779	3	4	24	1	0	0	0	0	1	0	0	0	5965	797	28	2	2974	2	FMNL1	17	43322779	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	6614573	43322779	37872431	170	20965											
CA10	56934	broad.mit.edu	37	chr17	50008436	50008436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgttgactggcgactgccGtttccccacagagcaaagat	10	10	10	11	2	0	3	0	1	0	2	1	4	1	3	3	1	2	3	3	1	2	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr17:50008436G>A	uc002itw.3	-	3	1179	c.193C>T	c.(193-195)CGG>TGG	p.R65W	CA10_uc002itv.3_Missense_Mutation_p.R71W|CA10_uc002itx.3_Missense_Mutation_p.R65W|CA10_uc002ity.3_Missense_Mutation_p.R65W|CA10_uc002itz.2_Missense_Mutation_p.R65W	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	65					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			GGCGACTGCCGTTTCCCCACA	0.473													72	717					0	0	0.048971	0	0		A	50008436	A	A	50008436	3	1	24	1	0	0	0	0	1	0	0	0	2514	1144	40	1	821	1	CA10	17	50008436	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	6685657	50008436	31186774	171	20966											
DDX42	11325	broad.mit.edu	37	chr17	61889335	61889335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtggagattctccattctgGacctagtaaatggaactggc	10	12	11	8	0	2	1	0	0	2	1	3	4	2	3	2	4	1	1	2	4	4	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr17:61889335G>A	uc002jbu.2	+	15	1699	c.1442G>A	c.(1441-1443)GGA>GAA	p.G481E	DDX42_uc002jbv.2_Missense_Mutation_p.G481E|DDX42_uc002jbw.1_Missense_Mutation_p.G217E|DDX42_uc002jbx.2_Missense_Mutation_p.G217E|DDX42_uc002jby.2_Missense_Mutation_p.G27E	NM_007372	NP_031398	Q86XP3	DDX42_HUMAN	DEAD box polypeptide 42 protein	481					protein localization|regulation of anti-apoptosis	Cajal body|cytoplasm|nuclear speck	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)|large_intestine(1)	5						CTCCATTCTGGACCTAGTAAA	0.448													79	338					0	0	0.048971	0	0		A	61889335	A	A	61889335	3	1	24	1	0	0	0	0	1	0	0	0	4365	1174	41	4	1492	4	DDX42	17	61889335	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	11880899	61889335	19305875	172	20967											
FASN	2194	broad.mit.edu	37	chr17	80037290	80037290	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcgccacccgtcttggcGcgcagtagcatcacgttgcc	6	8	12	15	5	2	0	1	0	1	0	2	0	2	0	3	2	2	4	3	2	2	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr17:80037290G>A	uc002kdu.2	-	42	7458	c.7341C>T	c.(7339-7341)CGC>CGT	p.R2447R	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2447	Thioesterase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	CCGTCTTGGCGCGCAGTAGCA	0.647													4	107					0	0	0.009096	0	0		A	80037290	A	A	80037290	2	1	24	1	0	0	0	0	0	0	0	1	5697	1074	38	1		1	FASN	17	80037290	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	18147955	80037290	1157920	173	20968											
EPB41L3	23136	broad.mit.edu	37	chr18	5419834	5419834	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggtgatcaagttggtcTgagagatgccttttgttgtg	7	15	14	5	0	2	3	1	2	1	1	2	4	2	3	1	2	1	2	1	2	1	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr18:5419834T>C	uc002kmt.1	-	12	1468	c.1382A>G	c.(1381-1383)CAG>CGG	p.Q461R	EPB41L3_uc010wzh.1_Missense_Mutation_p.Q479R|EPB41L3_uc002kmu.1_Missense_Mutation_p.Q479R|EPB41L3_uc010dkq.1_Missense_Mutation_p.Q370R|EPB41L3_uc002kms.1_5'UTR|EPB41L3_uc010wze.1_5'UTR|EPB41L3_uc010wzf.1_5'UTR|EPB41L3_uc010wzg.1_5'UTR|EPB41L3_uc010dkr.2_Missense_Mutation_p.Q40R	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	461	Hydrophilic.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						CAAGTTGGTCTGAGAGATGCC	0.318													45	183					0	0	0.048971	0	0		C	5419834	C	C	5419834	3	2	24	1	0	0	0	0	1	0	0	0	5162	1580	55	3	1925	3	EPB41L3	18	5419834	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08		5419834	72657414	174	20969											
PSMA8	143471	broad.mit.edu	37	chr18	23759077	23759077	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaacttgctataataagaAgaaatcaacctttgaaggta	17	12	7	5	0	1	4	1	2	0	2	1	4	1	4	1	1	3	2	1	1	9	7			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr18:23759077A>C	uc002kvq.2	+	6	775	c.661A>C	c.(661-663)AGA>CGA	p.R221R	PSMA8_uc002kvo.2_Silent_p.R177R|PSMA8_uc002kvp.2_Silent_p.R215R|PSMA8_uc002kvr.2_Silent_p.R189R	NM_144662	NP_653263	Q8TAA3	PSA7L_HUMAN	proteasome alpha 8 subunit isoform 1	221					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	threonine-type endopeptidase activity			skin(1)	1	all_cancers(21;0.000585)|Lung NSC(5;0.00148)|all_lung(6;0.0038)|Ovarian(20;0.124)		OV - Ovarian serous cystadenocarcinoma(3;0.000324)|all cancers(3;0.000954)|LUSC - Lung squamous cell carcinoma(2;0.181)			TATAATAAGAAGAAATCAACC	0.303													27	31					0	0	0.034045	0	0		C	23759077	C	C	23759077	2	2	24	1	0	0	0	0	0	0	0	1	12695	64	3	5		5	PSMA8	18	23759077	Silent	SNP	A	TCGA-BR-4369-01A-01D-1158-08	18339243	23759077	54318171	175	20970											
SETBP1	26040	broad.mit.edu	37	chr18	42530045	42530045	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctggcagagaaactgcaaGcaccagcaagatccccgctc	12	5	10	14	1	1	2	0	0	1	2	3	3	2	2	3	1	4	5	3	1	3	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr18:42530045G>C	uc010dni.2	+	4	1036	c.740G>C	c.(739-741)AGC>ACC	p.S247T		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	247						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GAAACTGCAAGCACCAGCAAG	0.547									Schinzel-Giedion_syndrome				49	68					0	0	0.048971	0	0		C	42530045	C	C	42530045	3	2	24	1	0	0	0	0	1	0	0	0	14154	971	34	5	943	5	SETBP1	18	42530045	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	18770968	42530045	35547203	176	20971											
MUC16	94025	broad.mit.edu	37	chr19	9084024	9084024	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaagtctcagtgactacCaaaaggctctcaggagtagc	12	9	10	10	0	3	2	2	2	3	0	5	3	3	3	1	2	2	2	1	2	5	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr19:9084024C>A	uc002mkp.2	-	1	7995	c.7791G>T	c.(7789-7791)TTG>TTT	p.L2597F		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2597	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGTGACTACCAAAAGGCTCT	0.453													23	87					1.55469e-16	1.67081e-16	0.083992	1	0		A	9084024	A	A	9084024	3	1	24	1	0	0	0	0	1	0	0	0	9991	593	21	5	36068	5	MUC16	19	9084024	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08		9084024	50044959	177	20972											
SAMD1	90378	broad.mit.edu	37	chr19	14200075	14200075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctgcaggacggtcactctCgggcacttcagagccctctg	7	8	11	15	2	4	1	2	0	2	1	5	2	4	2	2	3	2	2	2	3	0	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr19:14200075C>T	uc010xnl.1	-	4	1054	c.1054G>A	c.(1054-1056)GAG>AAG	p.E352K		NM_138352	NP_612361	Q6SPF0	SAMD1_HUMAN	sterile alpha motif domain containing 1	352						cytoplasm|extracellular region					0		Renal(1328;0.00183)|Hepatocellular(1079;0.00826)		GBM - Glioblastoma multiforme(1328;0.000411)|STAD - Stomach adenocarcinoma(1328;0.00644)|Lung(535;0.199)		CGGTCACTCTCGGGCACTTCA	0.478													3	6					0	0	0.004672	0	0		T	14200075	T	T	14200075	3	4	24	1	0	0	0	0	1	0	0	0	13839	893	31	1	577	1	SAMD1	19	14200075	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	5116051	14200075	44928908	178	20973											
UPK1A	11045	broad.mit.edu	37	chr19	36166802	36166802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acttcacgtcagccttccggGcggccactccggaggtggtg	5	8	14	14	4	2	0	2	0	0	0	4	1	4	1	4	5	1	0	4	5	0	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr19:36166802G>A	uc002oaw.2	+	5	529	c.529G>A	c.(529-531)GCG>ACG	p.A177T	UPK1A_uc010eeh.2_Missense_Mutation_p.A177T|uc002oax.1_5'Flank	NM_007000	NP_008931	O00322	UPK1A_HUMAN	uroplakin 1A	177	Extracellular (Potential).				epithelial cell differentiation|protein oligomerization	endoplasmic reticulum|integral to membrane	monosaccharide binding|protein homodimerization activity				0	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGCCTTCCGGGCGGCCACTCC	0.617													34	175					0	0	0.069456	0	0		A	36166802	A	A	36166802	3	1	24	1	0	0	0	0	1	0	0	0	17033	1203	42	2	547	2	UPK1A	19	36166802	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	21966727	36166802	22962181	179	20974											
ZNF260	339324	broad.mit.edu	37	chr19	37006121	37006121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctgattcatgctgaagaCtttccaacatgcctatcatg	11	13	7	10	0	3	3	2	2	1	1	4	4	4	3	2	0	3	1	2	0	3	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr19:37006121C>T	uc002oee.1	-	4	864	c.20G>A	c.(19-21)AGT>AAT	p.S7N	ZNF260_uc002oed.1_Missense_Mutation_p.S4N|ZNF260_uc010eey.1_Missense_Mutation_p.S4N|ZNF260_uc002oef.1_Missense_Mutation_p.S4N	NM_001012756	NP_001012774	Q3ZCT1	ZN260_HUMAN	zinc finger protein 260	7					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					ATGCTGAAGACTTTCCAACAT	0.343													11	82					0	0	0.069234	0	0		T	37006121	T	T	37006121	3	4	24	1	0	0	0	0	1	0	0	0	17827	565	20	4	1222	4	ZNF260	19	37006121	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	839319	37006121	22122862	180	20975											
ZNF461	92283	broad.mit.edu	37	chr19	37130918	37130918	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatccctttttggagataacTtctggggctcatctctggat	7	16	9	9	0	3	1	1	0	2	1	5	3	4	2	1	4	1	1	1	4	2	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr19:37130918T>C	uc002oem.2	-	6	557	c.329A>G	c.(328-330)AAG>AGG	p.K110R	ZNF461_uc002oen.2_Missense_Mutation_p.K79R|ZNF461_uc010xtj.1_Missense_Mutation_p.K87R	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	110					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TGGAGATAACTTCTGGGGCTC	0.348													36	229					0	0	0.059317	0	0		C	37130918	C	C	37130918	3	2	24	1	0	0	0	0	1	0	0	0	17950	1609	56	3	1366	3	ZNF461	19	37130918	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	124797	37130918	21998065	181	20976											
GGN	199720	broad.mit.edu	37	chr19	38877004	38877004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaacctctcccaaggggcGagcggctccaggaggcaggg	10	3	16	12	2	1	1	0	0	1	1	3	3	2	2	3	6	2	2	3	6	2	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr19:38877004G>A	uc002oij.1	-	3	1033	c.898C>T	c.(898-900)CGC>TGC	p.R300C	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Missense_Mutation_p.R217C	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	300	Interaction with GGNBP1 (By similarity).|Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCCAAGGGGCGAGCGGCTCCA	0.692													7	45					0	0	0.09319	0	0		A	38877004	A	A	38877004	3	1	24	1	0	0	0	0	1	0	0	0	6373	1058	37	1	1068	1	GGN	19	38877004	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	1746086	38877004	20251979	182	20977											
FCGBP	8857	broad.mit.edu	37	chr19	40392045	40392045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacattgctggatgggcaCgcaggcttggccgttgtaga	7	9	15	10	2	0	1	0	0	0	1	0	2	0	2	2	4	1	6	2	4	1	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr19:40392045C>T	uc002omp.3	-	17	8349	c.8341G>A	c.(8341-8343)GTG>ATG	p.V2781M		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	2781	Cys-rich.|TIL 6.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			TGGATGGGCACGCAGGCTTGG	0.607													9	44					0	0	0.0333	0	0		T	40392045	T	T	40392045	3	4	24	1	0	0	0	0	1	0	0	0	5792	536	19	1	7956	1	FCGBP	19	40392045	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	1515041	40392045	18736938	183	20978											
GYS1	2997	broad.mit.edu	37	chr19	49489176	49489176	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagcagcgtggcatgggtGgtgaagatggttgctacagg	8	8	17	8	1	0	2	0	1	0	1	0	2	0	2	1	5	4	4	1	5	2	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr19:49489176G>A	uc002plp.2	-	4	850	c.609C>T	c.(607-609)ACC>ACT	p.T203T	GYS1_uc010xzy.1_Intron|GYS1_uc010emm.2_Silent_p.T139T|GYS1_uc010xzz.1_Silent_p.T123T|GYS1_uc010yaa.1_RNA	NM_002103	NP_002094	P13807	GYS1_HUMAN	glycogen synthase 1 (muscle) isoform 1	203					glucose metabolic process|glycogen biosynthetic process	cytosol	glycogen (starch) synthase activity|protein binding			ovary(2)	2		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000164)|all cancers(93;0.000226)|GBM - Glioblastoma multiforme(486;0.00561)|Epithelial(262;0.0286)		TGGCATGGGTGGTGAAGATGG	0.612													26	130					0	0	0.041601	0	0		A	49489176	A	A	49489176	2	1	24	1	0	0	0	0	0	0	0	1	6928	1335	47	4		4	GYS1	19	49489176	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	9097131	49489176	9639807	184	20979											
LILRA1	11024	broad.mit.edu	37	chr19	55107775	55107775	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actttccttctgaccaaggcGggagcagctgatgcccccct	7	9	10	15	1	1	2	0	2	1	0	2	3	2	3	5	2	3	2	5	2	1	2	rs59777368	byFrequency	TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr19:55107775G>A	uc002qgh.1	+	7	1262	c.1080G>A	c.(1078-1080)GCG>GCA	p.A360A	LILRA2_uc010yfg.1_Silent_p.A358A|LILRA1_uc010yfh.1_Silent_p.A360A	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	360	Ig-like C2-type 4.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		TGACCAAGGCGGGAGCAGCTG	0.587													50	273					0	0	0.048971	0	0		A	55107775	A	A	55107775	2	1	24	1	0	0	0	0	0	0	0	1	8800	1103	39	1		1	LILRA1	19	55107775	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	5618599	55107775	4021208	185	20980											
ZSCAN18	65982	broad.mit.edu	37	chr19	58601615	58601615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcctgggggaggcaaacGccttctccaaaggcaacatc	11	6	11	13	1	1	0	0	0	1	0	4	1	2	1	3	4	3	3	3	4	3	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr19:58601615G>A	uc002qri.2	-	2	329	c.20C>T	c.(19-21)GCG>GTG	p.A7V	ZSCAN18_uc002qrj.3_Missense_Mutation_p.A7V|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Missense_Mutation_p.A7V|ZSCAN18_uc010yht.1_Missense_Mutation_p.A63V|ZSCAN18_uc002qrk.1_Missense_Mutation_p.A7V|ZSCAN18_uc002qrl.2_Missense_Mutation_p.A7V	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	7					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		GGAGGCAAACGCCTTCTCCAA	0.617													41	213					0	0	0.09836	0	0		A	58601615	A	A	58601615	3	1	24	1	0	0	0	0	1	0	0	0	18255	1087	38	1	1536	1	ZSCAN18	19	58601615	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	3493840	58601615	527368	186	20981											
KIF16B	55614	broad.mit.edu	37	chr20	16486762	16486762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctccggtggcatctgcaCgctcacttccggcaagatca	7	9	11	14	3	3	1	2	0	1	1	5	1	5	1	2	4	1	5	2	4	1	1			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr20:16486762C>T	uc002wpg.1	-	8	931	c.773G>A	c.(772-774)CGT>CAT	p.R258H	KIF16B_uc010gch.1_Missense_Mutation_p.R258H|KIF16B_uc010gci.1_Missense_Mutation_p.R258H|KIF16B_uc010gcj.1_Missense_Mutation_p.R258H	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	258	Kinesin-motor.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						GGCATCTGCACGCTCACTTCC	0.458													25	463					0	0	0.108266	0	0		T	16486762	T	T	16486762	3	4	24	1	0	0	0	0	1	0	0	0	8294	536	19	1	3256	1	KIF16B	20	16486762	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08		16486762	46538758	187	20982											
MYH7B	57644	broad.mit.edu	37	chr20	33583278	33583278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctgacctggccgcccgccGgcgcaagctggaggacgagt	6	4	16	15	6	0	1	0	1	0	0	0	4	0	3	4	4	1	3	4	4	1	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr20:33583278G>A	uc002xbi.1	+	26	3058	c.2966G>A	c.(2965-2967)CGG>CAG	p.R989Q		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	947	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			GCCGCCCGCCGGCGCAAGCTG	0.592													12	76					0	0	0.028581	0	0		A	33583278	A	A	33583278	3	1	24	1	0	0	0	0	1	0	0	0	10058	1116	39	1	3068	1	MYH7B	20	33583278	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	17096516	33583278	29442242	188	20983											
C20orf152	140894	broad.mit.edu	37	chr20	34560665	34560665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgagactgctcactggaagCaccctatcttctccttctgg	7	13	8	13	0	4	1	1	1	3	1	5	3	4	2	2	2	2	2	2	2	2	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr20:34560665C>T	uc002xes.1	+	2	322	c.166C>T	c.(166-168)CAC>TAC	p.H56Y	C20orf152_uc002xer.1_Missense_Mutation_p.H56Y|C20orf152_uc010gfp.1_RNA			Q96M20	CT152_HUMAN	SubName: Full=C20orf152 protein;	56											0	Breast(12;0.00631)					TCACTGGAAGCACCCTATCTT	0.363													16	339					0	0	0.024245	0	0		T	34560665	T	T	34560665	3	4	24	1	0	0	0	0	1	0	0	0	2095	710	25	2	172	2	C20orf152	20	34560665	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	977387	34560665	28464855	189	20984											
NEURL2	140825	broad.mit.edu	37	chr20	44519034	44519034	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgcatgtcggccgtgccAtcggggcgcgggcaaaagag	8	6	17	10	5	0	1	0	0	0	1	2	1	0	1	2	4	2	2	2	4	2	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr20:44519034A>T	uc002xqg.1	-	1	868	c.597T>A	c.(595-597)GAT>GAA	p.D199E	C20orf165_uc002xqf.2_5'Flank|CTSA_uc002xqh.2_5'Flank|CTSA_uc002xqj.3_5'Flank|CTSA_uc002xqi.2_5'Flank|CTSA_uc010zxi.1_5'Flank|CTSA_uc002xqk.3_5'Flank	NM_080749	NP_542787	Q9BR09	NEUL2_HUMAN	neuralized-like protein 2	199	NHR.				intracellular signal transduction						0		Myeloproliferative disorder(115;0.0122)				CGGCCGTGCCATCGGGGCGCG	0.672											OREG0025985	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	163					0	0	0.054565	0	0		T	44519034	T	T	44519034	3	4	24	1	0	0	0	0	1	0	0	0	10365	214	8	5	268	5	NEURL2	20	44519034	Missense_Mutation	SNP	A	TCGA-BR-4369-01A-01D-1158-08	9958369	44519034	18506486	190	20985											
PRIC285	85441	broad.mit.edu	37	chr20	62191324	62191324	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcgtgacagccacattCacttggttggggtccacaac	8	8	11	14	2	1	1	1	1	0	0	2	1	2	1	3	3	2	1	3	3	1	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr20:62191324C>A	uc002yfm.2	-	19	8674	c.7782G>T	c.(7780-7782)GTG>GTT	p.V2594V	PRIC285_uc002yfl.1_Silent_p.V2025V	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	2594					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CAGCCACATTCACTTGGTTGG	0.657													27	187					4.11147e-13	4.34642e-13	0.064281	1	0		A	62191324	A	A	62191324	2	1	24	1	0	0	0	0	0	0	0	1	12507	813	29	5		5	PRIC285	20	62191324	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	17672290	62191324	834196	191	20986											
GRIK1	2897	broad.mit.edu	37	chr21	31045320	31045320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctgcttaaggatttcagCggctgtttcatgtgaacaat	10	14	9	8	1	2	1	2	1	0	0	2	2	2	2	1	2	4	3	1	2	4	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr21:31045320C>T	uc002yno.1	-	4	1173	c.709G>A	c.(709-711)GCT>ACT	p.A237T	GRIK1_uc002ynn.2_Missense_Mutation_p.A237T|GRIK1_uc011acs.1_Missense_Mutation_p.A237T|GRIK1_uc011act.1_Missense_Mutation_p.A181T|GRIK1_uc010glq.1_Missense_Mutation_p.A95T|GRIK1_uc002ynr.2_Missense_Mutation_p.A237T	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	237	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	AGGATTTCAGCGGCTGTTTCA	0.413													35	162					0	0	0.048971	0	0		T	31045320	T	T	31045320	3	4	24	1	0	0	0	0	1	0	0	0	6789	768	27	1	2263	1	GRIK1	21	31045320	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08		31045320	17084575	192	20987											
KCNE2	9992	broad.mit.edu	37	chr21	35742989	35742989	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggccatcctggtgagcaCtgtgaaatccaagagacggg	10	7	14	10	2	0	3	0	2	0	1	2	4	2	3	3	3	1	1	3	3	2	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr21:35742989C>G	uc002ytt.1	+	2	352	c.212C>G	c.(211-213)ACT>AGT	p.T71S		NM_172201	NP_751951	Q9Y6J6	KCNE2_HUMAN	potassium voltage-gated channel, Isk-related	71	Cytoplasmic (Potential).				blood circulation|muscle contraction|regulation of heart contraction	lysosome|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0						CTGGTGAGCACTGTGAAATCC	0.453													21	49					0	0	0.062417	0	0		G	35742989	G	G	35742989	3	3	24	1	0	0	0	0	1	0	0	0	8039	565	20	5	214	5	KCNE2	21	35742989	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	4697669	35742989	12386906	193	20988											
COL6A1	1291	broad.mit.edu	37	chr21	47422312	47422312	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgctctgcagccccggcatCcaggtggggtggccaccccc	4	6	14	17	1	1	0	0	0	1	0	2	0	2	0	6	5	3	3	6	5	0	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr21:47422312C>T	uc002zhu.1	+	32	2349	c.2247C>T	c.(2245-2247)ATC>ATT	p.I749I	COL6A1_uc010gqd.1_Silent_p.I80I|COL6A1_uc002zhv.1_Silent_p.I80I|COL6A1_uc002zhw.1_5'Flank	NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	749	VWFA 2.|C-terminal globular domain.				axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	GCCCCGGCATCCAGGTGGGGT	0.701													5	29					0	0	0.014758	0	0		T	47422312	T	T	47422312	2	4	24	1	0	0	0	0	0	0	0	1	3702	845	30	4		4	COL6A1	21	47422312	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	11679323	47422312	707583	194	20989											
RTN4R	65078	broad.mit.edu	37	chr22	20229416	20229416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaacagcctggcctccggcGagggcccgaggtggggaacc	7	4	17	13	3	0	1	0	1	0	0	1	4	1	2	5	6	3	0	5	6	2	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr22:20229416G>A	uc002zrv.2	-	2	1441	c.1240C>T	c.(1240-1242)CGC>TGC	p.R414C	RTN4R_uc002zru.2_Missense_Mutation_p.R186C	NM_023004	NP_075380	Q9BZR6	RTN4R_HUMAN	reticulon 4 receptor precursor	414					axonogenesis|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	anchored to membrane|cell surface|endoplasmic reticulum|plasma membrane	protein binding|receptor activity				0	Colorectal(54;0.0993)					GGCCTCCGGCGAGGGCCCGAG	0.706													7	33					0	0	0.047766	0	0		A	20229416	A	A	20229416	3	1	24	1	0	0	0	0	1	0	0	0	13755	1058	37	1	185	1	RTN4R	22	20229416	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08		20229416	31075150	195	20990											
CSF2RB	1439	broad.mit.edu	37	chr22	37319374	37319374	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacacccaggatgcccagcgGctcgtcaacgtgaccctcat	9	6	10	16	3	2	1	2	1	0	0	3	3	2	2	3	2	3	1	3	2	1	0			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr22:37319374G>T	uc003aqa.3	+	3	382	c.165G>T	c.(163-165)CGG>CGT	p.R55R	CSF2RB_uc003aqc.3_Silent_p.R55R	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	55	Extracellular (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	ATGCCCAGCGGCTCGTCAACG	0.647													24	51					2.39556e-15	2.5533e-15	0.076483	1	0		T	37319374	T	T	37319374	2	4	24	1	0	0	0	0	0	0	0	1	3938	1190	42	5		5	CSF2RB	22	37319374	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	17089958	37319374	13985192	196	20991											
PICK1	9463	broad.mit.edu	37	chr22	38469813	38469813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtgaaggagatggatgacGaggaatacagctgcattgtg	13	8	16	4	1	0	3	0	2	0	1	0	7	0	5	0	4	3	2	0	4	3	2			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr22:38469813G>A	uc003auq.2	+	11	1207	c.817G>A	c.(817-819)GAG>AAG	p.E273K	PICK1_uc003aur.2_Missense_Mutation_p.E273K|PICK1_uc003aus.2_Missense_Mutation_p.E273K|PICK1_uc003aut.2_Missense_Mutation_p.E273K	NM_012407	NP_036539	Q9NRD5	PICK1_HUMAN	protein interacting with C kinase 1	273	AH.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|DNA methylation involved in embryo development|DNA methylation involved in gamete generation|monoamine transport|neuronal ion channel clustering|protein phosphorylation|receptor clustering|retrograde vesicle-mediated transport, Golgi to ER|synaptic transmission	cell junction|endocytic vesicle membrane|Golgi apparatus|perinuclear region of cytoplasm|presynaptic membrane	ATPase activity|metal ion binding|protein C-terminus binding|protein kinase C binding|receptor binding				0	Melanoma(58;0.045)					GATGGATGACGAGGAATACAG	0.622													41	116					0	0	0.042209	0	0		A	38469813	A	A	38469813	3	1	24	1	0	0	0	0	1	0	0	0	11900	1059	37	1	855	1	PICK1	22	38469813	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	1150439	38469813	12834753	197	20992											
MKL1	57591	broad.mit.edu	37	chr22	40820311	40820311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcatggctggcaggctgctCgggggataaggcatcgctgc	6	8	16	11	2	1	0	1	0	0	0	3	1	1	1	0	6	2	6	0	6	1	1	rs138116355		TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chr22:40820311C>T	uc003ayv.1	-	5	583	c.376G>A	c.(376-378)GAG>AAG	p.E126K	MKL1_uc003ayw.1_Missense_Mutation_p.E126K|MKL1_uc010gye.1_Missense_Mutation_p.E126K|MKL1_uc010gyf.1_Missense_Mutation_p.E126K	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	126	Mediates interaction with SCAI and ACTB (By similarity).				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GCAGGCTGCTCGGGGGATAAG	0.597			T	RBM15	acute megakaryocytic leukemia								84	164					0	0	0.048971	0	0		T	40820311	T	T	40820311	3	4	24	1	0	0	0	0	1	0	0	0	9619	893	31	1	2451	1	MKL1	22	40820311	Missense_Mutation	SNP	C	TCGA-BR-4369-01A-01D-1158-08	2350498	40820311	10484255	198	20993											
GPR143	4935	broad.mit.edu	37	chrX	9693809	9693809	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taggtctccatgggttgggaGagcagggtcaccctcatttt	7	12	13	9	0	3	1	2	0	1	1	4	2	3	1	2	4	1	2	2	4	1	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chrX:9693809G>A	uc004cst.1	-	9	1252	c.1252C>T	c.(1252-1254)CTC>TTC	p.L418F		NM_000273	NP_000264	P51810	GP143_HUMAN	G protein-coupled receptor 143	398	Cytoplasmic (Potential).				calcium-mediated signaling using intracellular calcium source|eye pigment biosynthetic process|melanosome organization|melanosome transport|phosphatidylinositol-mediated signaling|regulation of calcium-mediated signaling|visual perception	apical plasma membrane|Golgi apparatus|integral to membrane|lysosomal membrane|melanosome membrane|membrane fraction	dopamine binding|L-DOPA receptor activity|protein binding|tyrosine binding			ovary(1)	1		Hepatocellular(5;0.000888)				TGGGTTGGGAGAGCAGGGTCA	0.473													5	35					0	0	0.014758	0	0		A	9693809	A	A	9693809	3	1	24	1	0	0	0	0	1	0	0	0	6666	942	33	4	26	4	GPR143	23	9693809	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08		9693809	145576751	199	20994											
CNKSR2	22866	broad.mit.edu	37	chrX	21581553	21581553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcatgggcactcctgtgccaGagaccacactataccatgta	11	9	8	13	0	1	1	1	0	0	1	2	2	2	1	4	1	2	2	4	1	3	3			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chrX:21581553G>A	uc004czx.1	+	13	1627	c.1591G>A	c.(1591-1593)GAG>AAG	p.E531K	CNKSR2_uc004czw.2_Missense_Mutation_p.E531K|CNKSR2_uc011mjn.1_Missense_Mutation_p.E482K|CNKSR2_uc011mjo.1_Missense_Mutation_p.E501K|CNKSR2_uc004czy.2_Missense_Mutation_p.E123K	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	531					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						TCCTGTGCCAGAGACCACACT	0.393													32	51					0	0	0.050027	0	0		A	21581553	A	A	21581553	3	1	24	1	0	0	0	0	1	0	0	0	3610	943	33	4	1641	4	CNKSR2	23	21581553	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	11887744	21581553	133689007	200	20995											
DMD	1756	broad.mit.edu	37	chrX	32486747	32486747	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccggctaatttcagagggCgctttcttcgacatctcttt	6	16	8	11	3	3	1	1	0	2	1	6	2	4	1	1	2	0	2	1	2	1	6	rs72468666		TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chrX:32486747C>T	uc004dda.1	-	23	3274	c.3030G>A	c.(3028-3030)GCG>GCA	p.A1010A	DMD_uc004dcz.2_Silent_p.A887A|DMD_uc004dcy.1_Silent_p.A1006A|DMD_uc004ddb.1_Silent_p.A1002A|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1010	Spectrin 6.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTTCAGAGGGCGCTTTCTTCG	0.413													9	49					0	0	0.058154	0	0		T	32486747	T	T	32486747	2	4	24	1	0	0	0	0	0	0	0	1	4586	755	27	1		1	DMD	23	32486747	Silent	SNP	C	TCGA-BR-4369-01A-01D-1158-08	10905194	32486747	122783813	201	20996											
KIAA2022	340533	broad.mit.edu	37	chrX	73959949	73959949	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattacctcagtttttcaaaAgaagctgtcccagactcatc	12	13	5	11	0	3	2	3	0	0	2	5	2	4	2	2	0	2	2	2	0	5	4			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chrX:73959949A>G	uc004eby.2	-	3	5060	c.4443T>C	c.(4441-4443)TCT>TCC	p.S1481S		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1481					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GTTTTTCAAAAGAAGCTGTCC	0.483													26	48					0	0	0.030593	0	0		G	73959949	G	G	73959949	2	3	24	1	0	0	0	0	0	0	0	1	8285	59	3	3		3	KIAA2022	23	73959949	Silent	SNP	A	TCGA-BR-4369-01A-01D-1158-08	41473202	73959949	81310611	202	20997											
KLHL4	56062	broad.mit.edu	37	chrX	86887303	86887303	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcaatttggagtcgcagTtattgataataagctctatg	11	15	9	6	1	2	1	1	1	1	0	3	2	2	2	0	1	1	4	0	1	5	7			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chrX:86887303T>G	uc004efb.2	+	7	1600	c.1418T>G	c.(1417-1419)GTT>GGT	p.V473G	KLHL4_uc004efa.2_Missense_Mutation_p.V473G	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	473	Kelch 1.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GGAGTCGCAGTTATTGATAAT	0.403													30	36					0	0	0.037714	0	0		G	86887303	G	G	86887303	3	3	24	1	0	0	0	0	1	0	0	0	8407	1725	60	5	1444	5	KLHL4	23	86887303	Missense_Mutation	SNP	T	TCGA-BR-4369-01A-01D-1158-08	12927354	86887303	68383257	203	20998											
SLC6A14	11254	broad.mit.edu	37	chrX	115586617	115586617	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgctggtttgtaattacGcctatccttttgattgtaag	7	18	9	7	1	0	1	0	1	0	0	1	1	1	1	2	1	2	5	2	1	4	9			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chrX:115586617G>A	uc004eqi.2	+	12	1703	c.1599G>A	c.(1597-1599)ACG>ACA	p.T533T		NM_007231	NP_009162	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid	533	Helical; Name=11; (Potential).				cellular amino acid metabolic process|response to toxin	integral to membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)|pancreas(1)	3					L-Proline(DB00172)	TTGTAATTACGCCTATCCTTT	0.353													30	95					0	0	0.050027	0	0		A	115586617	A	A	115586617	2	1	24	1	0	0	0	0	0	0	0	1	14702	1074	38	1		1	SLC6A14	23	115586617	Silent	SNP	G	TCGA-BR-4369-01A-01D-1158-08	28699314	115586617	39683943	204	20999											
ATP1B4	23439	broad.mit.edu	37	chrX	119505008	119505008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccttaacttcaacttcaacGtttctgaacccgacacttgg	10	12	6	13	2	3	1	2	1	1	0	3	2	3	1	2	1	4	1	2	1	4	5			TCGA-BR-4369-01A-01D-1158-08	TCGA-BR-4369-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	45e9bc01-ad92-4a4c-bb2d-c54999962c8d	124ae002-8b64-4eac-baa6-ece7e7482b43	g.chrX:119505008G>A	uc004esr.2	+	4	589	c.505G>A	c.(505-507)GTT>ATT	p.V169I	ATP1B4_uc004esq.2_Missense_Mutation_p.V165I|ATP1B4_uc011mtx.1_Missense_Mutation_p.V134I|ATP1B4_uc011mty.1_Missense_Mutation_p.V126I	NM_001142447	NP_001135919	Q9UN42	AT1B4_HUMAN	ATPase, (Na+)/K+ transporting, beta 4	169	Perinuclear space (Potential).				ATP biosynthetic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to plasma membrane|nuclear inner membrane	sodium:potassium-exchanging ATPase activity			ovary(1)|skin(1)	2						CAACTTCAACGTTTCTGAACC	0.408													17	75					0	0	0.028581	0	0		A	119505008	A	A	119505008	3	1	24	1	0	0	0	0	1	0	0	0	1136	1145	40	1	519	1	ATP1B4	23	119505008	Missense_Mutation	SNP	G	TCGA-BR-4369-01A-01D-1158-08	3918391	119505008	35765552	205	21000											
UBE2J2	118424	broad.mit.edu	37	chr1	1190726	1190726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccctgcgaggtttgggaCggcccccggcgcatgcccgt	4	6	16	15	5	0	0	0	0	0	0	0	3	0	1	4	4	3	2	4	4	0	1	rs115989405	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:1190726C>T	uc001adn.2	-	7	947	c.637G>A	c.(637-639)GTC>ATC	p.V213I	UBE2J2_uc001adm.2_Missense_Mutation_p.V178I|UBE2J2_uc001ado.2_Missense_Mutation_p.V229I|UBE2J2_uc001adp.2_Missense_Mutation_p.V213I|UBE2J2_uc001adq.2_Missense_Mutation_p.V161I|UBE2J2_uc001adr.2_Missense_Mutation_p.V161I|UBE2J2_uc001ads.2_Missense_Mutation_p.V161I	NM_194458	NP_919440	Q8N2K1	UB2J2_HUMAN	ubiquitin conjugating enzyme E2, J2 isoform 3	213	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ATP binding|ubiquitin-protein ligase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.66e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.53e-21)|Colorectal(212;0.00019)|COAD - Colon adenocarcinoma(227;0.000215)|Kidney(185;0.00255)|BRCA - Breast invasive adenocarcinoma(365;0.00266)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0371)|Lung(427;0.205)		AGGTTTGGGACGGCCCCCGGC	0.647													34	135					0	0	0.013726	0	0		T	1190726	T	T	1190726	3	4	25	1	0	0	0	0	1	0	0	0	16887	536	19	1	146	1	UBE2J2	1	1190726	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08		1190726	248059895	1	21001											
ACAP3	116983	broad.mit.edu	37	chr1	1233229	1233229	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaactgtcagggctctcGcggtaggcggaggcgatgct	7	8	16	10	4	2	0	1	0	1	0	3	2	2	1	0	5	3	4	0	5	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:1233229G>A	uc001aeb.2	-	14	1175	c.1101C>T	c.(1099-1101)CGC>CGT	p.R367R	ACAP3_uc001ady.2_Silent_p.R97R|ACAP3_uc001aea.2_Silent_p.R325R	NM_030649	NP_085152	Q96P50	ACAP3_HUMAN	ArfGAP with coiled-coil, ankyrin repeat and PH	367					filopodium assembly|regulation of ARF GTPase activity|signal transduction		ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding				0						CAGGGCTCTCGCGGTAGGCGG	0.692													12	65					0	0	0.021523	0	0		A	1233229	A	A	1233229	2	1	25	1	0	0	0	0	0	0	0	1	120	1074	38	1		1	ACAP3	1	1233229	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	42503	1233229	248017392	2	21002											
CPSF3L	54973	broad.mit.edu	37	chr1	1248444	1248444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccctccatctcgagcttccGctgcccgctgaggatcttgt	4	11	9	17	3	2	1	0	1	2	0	5	3	4	2	5	1	2	3	5	1	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:1248444G>A	uc001aee.1	-	11	1160	c.1102C>T	c.(1102-1104)CGG>TGG	p.R368W	CPSF3L_uc009vjy.1_RNA|CPSF3L_uc001aef.1_Missense_Mutation_p.R374W|CPSF3L_uc009vjz.1_Missense_Mutation_p.R346W|CPSF3L_uc010nyj.1_Missense_Mutation_p.R339W|CPSF3L_uc001aeg.1_Missense_Mutation_p.R244W|CPSF3L_uc001aeh.1_Missense_Mutation_p.R267W|CPSF3L_uc001aei.1_Missense_Mutation_p.R270W|CPSF3L_uc001aej.1_Missense_Mutation_p.R195W|CPSF3L_uc001aek.1_Missense_Mutation_p.R110W	NM_017871	NP_060341	Q5TA45	INT11_HUMAN	cleavage and polyadenylation specific factor	368						Golgi apparatus|nucleus	hydrolase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(86;4.35e-21)|Colorectal(212;0.000166)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.00235)|BRCA - Breast invasive adenocarcinoma(365;0.00255)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0349)|Lung(427;0.201)		TCGAGCTTCCGCTGCCCGCTG	0.687													15	35					0	0	0.007413	0	0		A	1248444	A	A	1248444	3	1	25	1	0	0	0	0	1	0	0	0	3830	1086	38	1	728	1	CPSF3L	1	1248444	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	15215	1248444	248002177	3	21003											
DVL1	1855	broad.mit.edu	37	chr1	1275151	1275151	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctcccgcagcacccgcacGgcatcgtcattgctcatgtt	7	10	8	16	4	3	0	2	0	1	0	5	0	3	0	2	1	2	6	2	1	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:1275151G>A	uc001aer.3	-	9	998	c.951C>T	c.(949-951)GCC>GCT	p.A317A	DVL1_uc002quu.2_Silent_p.A34A|DVL1_uc009vka.2_5'UTR|DVL1_uc001aeu.1_Missense_Mutation_p.P4L	NM_004421	NP_004412	O14640	DVL1_HUMAN	dishevelled 1	317	PDZ.				canonical Wnt receptor signaling pathway|dendrite morphogenesis|intracellular signal transduction|negative regulation of protein binding|negative regulation of protein kinase activity|neural tube development|neuromuscular junction development|neurotransmitter secretion|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein localization to nucleus|receptor clustering|transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, planar cell polarity pathway	cytoplasmic membrane-bounded vesicle|cytosol|plasma membrane|synapse|synaptosome	frizzled binding|identical protein binding|protein kinase binding|signal transducer activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		GCACCCGCACGGCATCGTCAT	0.657													12	94					0	0	0.020292	0	0		A	1275151	A	A	1275151	2	1	25	1	0	0	0	0	0	0	0	1	4841	1103	39	1		1	DVL1	1	1275151	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	26707	1275151	247975470	4	21004											
CDK11A	728642	broad.mit.edu	37	chr1	1636055	1636055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctccacgtagttcatcaCgatgtagatcttgtccatgt	8	14	9	10	2	3	1	2	0	1	1	5	2	5	1	2	0	1	4	2	0	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:1636055C>T	uc009vks.2	-	14	1606	c.1498G>A	c.(1498-1500)GTG>ATG	p.V500M	CDK11B_uc001ags.1_Intron|CDK11B_uc001agt.1_Intron|CDK11B_uc001aha.1_Intron|CDK11B_uc001agw.1_Intron|CDK11B_uc001agv.1_Intron|CDK11B_uc001agy.1_Intron|CDK11B_uc001agx.1_Intron|CDK11B_uc001agz.1_Intron|SLC35E2B_uc001ahh.3_Intron|SLC35E2_uc009vkm.1_Intron|CDK11A_uc001ahj.3_Missense_Mutation_p.V7M|CDK11A_uc009vkp.2_Missense_Mutation_p.V117M|CDK11A_uc009vkq.2_RNA|CDK11A_uc009vkr.2_Missense_Mutation_p.V490M|CDK11A_uc010nys.1_Missense_Mutation_p.V490M|CDK11A_uc010nyt.1_3'UTR	NM_024011	NP_076916	Q9UQ88	CD11A_HUMAN	cell division cycle 2-like 2 isoform 1	503	Protein kinase.				apoptosis|mitosis|regulation of cell growth|regulation of mRNA processing|regulation of transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity|protein binding			stomach(1)	1						TAGTTCATCACGATGTAGATC	0.627													6	26					0	0	0.001168	0	0		T	1636055	T	T	1636055	3	4	25	1	0	0	0	0	1	0	0	0	3129	536	19	1	872	1	CDK11A	1	1636055	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	360904	1636055	247614566	5	21005											
ACTRT2	140625	broad.mit.edu	37	chr1	2939191	2939191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttccacgggctggatgaccGgcttctcaaggagctggagc	7	8	15	11	2	1	1	1	1	1	0	3	4	2	4	2	5	2	4	2	5	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:2939191G>A	uc001ajz.2	+	1	1146	c.941G>A	c.(940-942)CGG>CAG	p.R314Q		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	314						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		CTGGATGACCGGCTTCTCAAG	0.602													41	120					0	0	0.006999	0	0		A	2939191	A	A	2939191	3	1	25	1	0	0	0	0	1	0	0	0	219	1116	39	1	943	1	ACTRT2	1	2939191	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1303136	2939191	246311430	6	21006											
PRDM16	63976	broad.mit.edu	37	chr1	3328020	3328020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggatgcacgccgactgccGcacgcagatcaagtgcaagg	10	4	14	13	5	1	1	1	0	0	1	1	3	1	2	2	2	3	4	2	2	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:3328020G>A	uc001akf.2	+	9	1339	c.1259G>A	c.(1258-1260)CGC>CAC	p.R420H	PRDM16_uc001akc.2_Missense_Mutation_p.R420H|PRDM16_uc001akd.2_Missense_Mutation_p.R420H|PRDM16_uc001ake.2_Missense_Mutation_p.R420H|PRDM16_uc009vlh.2_Missense_Mutation_p.R121H	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	420					brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		GCCGACTGCCGCACGCAGATC	0.572			T	EVI1	MDS|AML								9	97					0	0	0.010729	0	0		A	3328020	A	A	3328020	3	1	25	1	0	0	0	0	1	0	0	0	12479	1087	38	1	1293	1	PRDM16	1	3328020	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	388829	3328020	245922601	7	21007											
MEGF6	1953	broad.mit.edu	37	chr1	3424477	3424477	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttcttcccaaaggtgtcCggaggacaagctacaaagaa	14	7	10	10	1	1	1	0	0	1	1	3	3	3	3	2	3	2	2	2	3	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:3424477C>T	uc001akl.2	-	14	1898	c.1671G>A	c.(1669-1671)CCG>CCA	p.P557P	MEGF6_uc001akk.2_Silent_p.P452P	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	557						extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		CAAAGGTGTCCGGAGGACAAG	0.602													16	66					0	0	0.003163	0	0		T	3424477	T	T	3424477	2	4	25	1	0	0	0	0	0	0	0	1	9480	639	23	1		1	MEGF6	1	3424477	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	96457	3424477	245826144	8	21008											
MEGF6	1953	broad.mit.edu	37	chr1	3425231	3425231	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggtcaagctgcagtcatgGccaaaggagtcatccaggca	12	6	12	11	0	3	0	3	0	0	0	4	1	4	1	2	4	2	3	2	4	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:3425231G>A	uc001akl.2	-	13	1778	c.1551C>T	c.(1549-1551)GGC>GGT	p.G517G	MEGF6_uc001akk.2_Silent_p.G412G	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	517	EGF-like 9.					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		TGCAGTCATGGCCAAAGGAGT	0.642													23	94					0	0	0.012319	0	0		A	3425231	A	A	3425231	2	1	25	1	0	0	0	0	0	0	0	1	9480	1190	42	2		2	MEGF6	1	3425231	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	754	3425231	245825390	9	21009											
MEGF6	1953	broad.mit.edu	37	chr1	3432062	3432062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacagtggtgctggcagcCgccattgcccagggcgcagg	7	5	16	13	2	0	0	0	0	0	0	0	1	0	0	3	4	3	3	3	4	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:3432062C>T	uc001akl.2	-	6	861	c.634G>A	c.(634-636)GGC>AGC	p.G212S	MEGF6_uc001akk.2_Missense_Mutation_p.G107S	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	212	EGF-like 3.					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		TGCTGGCAGCCGCCATTGCCC	0.647													6	28					0	0	0.006214	0	0		T	3432062	T	T	3432062	3	4	25	1	0	0	0	0	1	0	0	0	9480	652	23	1	4119	1	MEGF6	1	3432062	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6831	3432062	245818559	10	21010											
PLEKHG5	57449	broad.mit.edu	37	chr1	6533156	6533156	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcatggtcgaagcgcaGcccccggggcagcctgggca	7	4	17	13	3	1	0	1	0	0	0	2	2	1	1	3	5	3	3	3	5	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:6533156G>A	uc001ano.1	-	10	1143	c.1042C>T	c.(1042-1044)CTG>TTG	p.L348L	PLEKHG5_uc001ann.1_Silent_p.L329L|PLEKHG5_uc001anq.1_Silent_p.L369L|PLEKHG5_uc001anp.1_Silent_p.L369L|PLEKHG5_uc001anj.1_5'Flank|PLEKHG5_uc009vma.1_Silent_p.L132L|PLEKHG5_uc010nzr.1_Silent_p.L361L|PLEKHG5_uc001ank.1_Silent_p.L292L|PLEKHG5_uc009vmb.1_Silent_p.L292L|PLEKHG5_uc001anl.1_Silent_p.L292L|PLEKHG5_uc001anm.1_Silent_p.L292L	NM_001042663	NP_001036128	O94827	PKHG5_HUMAN	pleckstrin homology domain containing family G	348					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			liver(1)	1	Ovarian(185;0.02)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;5.51e-35)|GBM - Glioblastoma multiforme(13;3.57e-27)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00159)|READ - Rectum adenocarcinoma(331;0.0419)		TCGAAGCGCAGCCCCCGGGGC	0.617													32	95					0	0	0.015359	0	0		A	6533156	A	A	6533156	2	1	25	1	0	0	0	0	0	0	0	1	12092	962	34	2		2	PLEKHG5	1	6533156	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3101094	6533156	242717465	11	21011											
TAS1R1	80835	broad.mit.edu	37	chr1	6634730	6634730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgagacgctcagcgtgaagCggcagtatccctctttcctg	7	9	12	13	4	2	2	1	1	1	1	4	3	4	2	2	1	2	3	2	1	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:6634730C>T	uc001ant.2	+	3	538	c.538C>T	c.(538-540)CGG>TGG	p.R180W	TAS1R1_uc001anu.2_Intron|TAS1R1_uc001anv.2_Intron|TAS1R1_uc001anw.2_Missense_Mutation_p.R180W	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	180	Extracellular (Potential).				sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;8.73e-34)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		CAGCGTGAAGCGGCAGTATCC	0.453													15	94					0	0	0.007413	0	0		T	6634730	T	T	6634730	3	4	25	1	0	0	0	0	1	0	0	0	15587	759	27	1	548	1	TAS1R1	1	6634730	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	101574	6634730	242615891	12	21012											
CAMTA1	23261	broad.mit.edu	37	chr1	7723546	7723546	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtgtcggagggcaagcaCgagcacagccacagcaaggg	12	2	16	11	3	0	0	0	0	0	0	1	3	0	1	1	3	4	4	1	3	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:7723546C>T	uc001aoi.2	+	9	1146	c.939C>T	c.(937-939)CAC>CAT	p.H313H		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	313					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		AGGGCAAGCACGAGCACAGCC	0.652													28	88					0	0	0.005524	0	0		T	7723546	T	T	7723546	2	4	25	1	0	0	0	0	0	0	0	1	2616	535	19	1		1	CAMTA1	1	7723546	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1088816	7723546	241527075	13	21013											
RERE	473	broad.mit.edu	37	chr1	8416191	8416191	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgaagcatctcgtgctcGtgtgggggctgtccaagcag	6	9	16	10	3	1	0	0	0	1	0	4	1	2	0	1	3	3	4	1	3	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:8416191G>A	uc001ape.2	-	22	5265	c.4455C>T	c.(4453-4455)CAC>CAT	p.H1485H	RERE_uc001apf.2_Silent_p.H1485H|RERE_uc001apd.2_Silent_p.H931H	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1485	Pro-rich.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		TCTCGTGCTCGTGTGGGGGCT	0.662													65	258					0	0	0.01441	0	0		A	8416191	A	A	8416191	2	1	25	1	0	0	0	0	0	0	0	1	13256	1136	40	1		1	RERE	1	8416191	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	692645	8416191	240834430	14	21014											
PIK3CD	5293	broad.mit.edu	37	chr1	9781845	9781845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgcacgtgccgtcggtggCcctgcgcttcggcctcatcc	3	9	13	16	5	1	0	1	0	0	0	4	1	2	0	4	3	3	2	4	3	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:9781845C>T	uc001aqb.3	+	16	2190	c.1982C>T	c.(1981-1983)GCC>GTC	p.A661V	PIK3CD_uc010oaf.1_Missense_Mutation_p.A660V|PIK3CD_uc001aqe.3_Missense_Mutation_p.A685V	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	661					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		CCGTCGGTGGCCCTGCGCTTC	0.687											OREG0013082	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	109					0	0	0.009535	0	0		T	9781845	T	T	9781845	3	4	25	1	0	0	0	0	1	0	0	0	11934	739	26	2	2036	2	PIK3CD	1	9781845	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1365654	9781845	239468776	15	21015											
CLSTN1	22883	broad.mit.edu	37	chr1	9795563	9795563	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagtctgcgaattccgggCgtggggaactgccgggagtt	6	10	17	8	4	1	1	0	1	1	0	2	4	2	3	2	4	3	1	2	4	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:9795563C>T	uc001aqh.2	-	13	2604	c.1845G>A	c.(1843-1845)ACG>ACA	p.T615T	CLSTN1_uc001aqi.2_Silent_p.T605T|CLSTN1_uc010oag.1_Silent_p.T596T|CLSTN1_uc001aqf.2_5'Flank	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	615	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		GAATTCCGGGCGTGGGGAACT	0.502													55	158					0	0	0.01441	0	0		T	9795563	T	T	9795563	2	4	25	1	0	0	0	0	0	0	0	1	3564	755	27	1		1	CLSTN1	1	9795563	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	13718	9795563	239455058	16	21016											
UBE4B	10277	broad.mit.edu	37	chr1	10211398	10211398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcagatactctccccaggCgctttatgagccctgtactc	7	12	8	14	1	2	2	1	1	1	1	4	2	2	2	3	1	3	3	3	1	3	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:10211398C>T	uc001aqs.3	+	21	3418	c.2705C>T	c.(2704-2706)GCG>GTG	p.A902V	UBE4B_uc001aqr.3_Missense_Mutation_p.A773V|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Missense_Mutation_p.A357V|UBE4B_uc001aqt.1_Missense_Mutation_p.A242V	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	902					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		TCTCCCCAGGCGCTTTATGAG	0.473													36	154					0	0	0.021022	0	0		T	10211398	T	T	10211398	3	4	25	1	0	0	0	0	1	0	0	0	16909	768	27	1	2787	1	UBE4B	1	10211398	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	415835	10211398	239039223	17	21017											
MTOR	2475	broad.mit.edu	37	chr1	11184640	11184640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcacacgctcatcctggcGcagatcttcatggcctttta	8	12	7	14	2	4	1	3	0	1	1	5	1	5	1	2	2	0	2	2	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:11184640G>A	uc001asd.2	-	47	6698	c.6577C>T	c.(6577-6579)CGC>TGC	p.R2193C	MTOR_uc001asc.2_Missense_Mutation_p.R398C	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	2193	PI3K/PI4K.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TCATCCTGGCGCAGATCTTCA	0.507													18	94					0	0	0.007413	0	0		A	11184640	A	A	11184640	3	1	25	1	0	0	0	0	1	0	0	0	9972	1087	38	1	1120	1	MTOR	1	11184640	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	973242	11184640	238065981	18	21018											
MTOR	2475	broad.mit.edu	37	chr1	11204707	11204707	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctttctaccaagctcacctGcagtctctcccaccagatct	8	11	5	17	0	4	1	1	0	3	1	6	1	5	1	4	0	3	3	4	0	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:11204707G>A	uc001asd.2	-	34	4991	c.4870C>T	c.(4870-4872)CAG>TAG	p.Q1624*		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	1624	FAT.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						AAGCTCACCTGCAGTCTCTCC	0.582													16	81					0	0	0.004007	0	0		A	11204707	A	A	11204707	4	1	25	1	0	0	0	0	0	1	0	0	9972	1328	46	2	2879	2	MTOR	1	11204707	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	20067	11204707	238045914	19	21019											
UQCRHL	440567	broad.mit.edu	37	chr1	16134105	16134105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcctcctcaggatctcCggattcggtaagcatctttt	6	15	7	13	2	3	0	1	0	2	0	8	2	6	2	4	3	1	2	4	3	1	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:16134105C>T	uc009vol.1	-	1	90	c.40G>A	c.(40-42)GGA>AGA	p.G14R		NM_001089591	NP_001083060			ubiquinol-cytochrome c reductase hinge												0						tcAGGATCTCCGGATTCGGTA	0.413													15	67					0	0	0.020292	0	0		T	16134105	T	T	16134105	3	4	25	1	0	0	0	0	1	0	0	0	17049	661	23	1	239	1	UQCRHL	1	16134105	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4929398	16134105	233116516	20	21020											
C1orf151	440574	broad.mit.edu	37	chr1	19923596	19923596	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctggcggatgcggtcgtGaagataggtaaggggctttt	7	12	17	5	3	1	2	0	1	1	1	2	3	1	3	0	6	1	2	0	6	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:19923596G>T	uc001bci.1	+	1	130	c.57G>T	c.(55-57)GTG>GTT	p.V19V	C1orf151_uc001bch.1_RNA|NBL1_uc009vpl.1_5'UTR	NM_001032363	NP_001027535	Q5TGZ0	CA151_HUMAN	chromosome 1 open reading frame 151 protein	19	Helical; (Potential).					integral to membrane|mitochondrion				central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000323)|Lung NSC(340;0.000401)|Breast(348;0.00043)|Ovarian(437;0.00374)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;3.58e-05)|Kidney(64;0.000191)|GBM - Glioblastoma multiforme(114;0.000696)|KIRC - Kidney renal clear cell carcinoma(64;0.00274)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0656)		ATGCGGTCGTGAAGATAGGTA	0.692													15	85					6.72482e-11	7.11042e-11	0.003163	1	0		T	19923596	T	T	19923596	2	4	25	1	0	0	0	0	0	0	0	1	2008	1277	45	5		5	C1orf151	1	19923596	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3789491	19923596	229327025	21	21021											
RAP1GAP	5909	broad.mit.edu	37	chr1	21937954	21937954	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggctacctgctgggcGtccccttccgtgtatggcag	4	9	13	15	2	0	0	0	0	0	0	2	0	2	0	5	3	2	4	5	3	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:21937954G>A	uc001bex.2	-	13	1092	c.834C>T	c.(832-834)GAC>GAT	p.D278D	RAP1GAP_uc001bev.2_Silent_p.D278D|RAP1GAP_uc001bew.2_Silent_p.D342D|RAP1GAP_uc001bey.2_Silent_p.D278D	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	278	Rap-GAP.				regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		CCTGCTGGGCGTCCCCTTCCG	0.617													4	22					0	0	0.001984	0	0		A	21937954	A	A	21937954	2	1	25	1	0	0	0	0	0	0	0	1	13062	1136	40	1		1	RAP1GAP	1	21937954	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2014358	21937954	227312667	22	21022											
ARID1A	8289	broad.mit.edu	37	chr1	27106648	27106648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgcctgcctgtcctggacGgactcctacactgggcagtt	5	12	11	13	1	0	0	0	0	0	0	2	2	2	2	4	3	3	2	4	3	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:27106648G>A	uc001bmv.1	+	20	6632	c.6259G>A	c.(6259-6261)GGA>AGA	p.G2087R	ARID1A_uc001bmu.1_Missense_Mutation_p.G1870R|ARID1A_uc001bmx.1_Missense_Mutation_p.G933R|ARID1A_uc009vsm.1_Missense_Mutation_p.G415R|ARID1A_uc009vsn.1_Missense_Mutation_p.G329R	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2087	LXXLL.				androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TGTCCTGGACGGACTCCTACA	0.592			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								42	161					0	0	0.010771	0	0		A	27106648	A	A	27106648	3	1	25	1	0	0	0	0	1	0	0	0	913	1117	39	1	6337	1	ARID1A	1	27106648	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5168694	27106648	222143973	23	21023											
PIGV	55650	broad.mit.edu	37	chr1	27121087	27121087	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggcagctggagaggggcCgagtctggactagtgtactc	7	8	18	8	1	1	1	0	0	1	1	2	4	1	2	1	6	2	3	1	6	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:27121087C>T	uc001bmz.2	+	3	893	c.562C>T	c.(562-564)CGA>TGA	p.R188*	PIGV_uc001bmy.2_Intron|PIGV_uc009vso.2_Nonsense_Mutation_p.R188*|PIGV_uc010ofg.1_Intron|PIGV_uc001bna.2_Nonsense_Mutation_p.R188*	NM_017837	NP_060307	Q9NUD9	PIGV_HUMAN	phosphatidylinositol glycan class V	188	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	glycolipid mannosyltransferase activity			ovary(1)	1		all_cancers(24;3.93e-26)|all_epithelial(13;3.96e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.26e-54)|Epithelial(14;2.85e-53)|OV - Ovarian serous cystadenocarcinoma(117;1.91e-30)|Colorectal(126;1.31e-09)|COAD - Colon adenocarcinoma(152;3.45e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000504)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.0222)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.153)|LUSC - Lung squamous cell carcinoma(448;0.227)		GGAGAGGGGCCGAGTCTGGAC	0.552													24	117					0	0	0.021523	0	0		T	27121087	T	T	27121087	4	4	25	1	0	0	0	0	0	1	0	0	11920	644	23	1	568	1	PIGV	1	27121087	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	14439	27121087	222129534	24	21024											
PTPRU	10076	broad.mit.edu	37	chr1	29586039	29586039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgttccagtgcatggccgCgggcagagcggccgaggccg	5	5	18	13	6	0	1	0	0	0	1	2	2	1	1	4	4	2	3	4	4	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:29586039C>T	uc001bru.2	+	5	748	c.638C>T	c.(637-639)GCG>GTG	p.A213V	PTPRU_uc001brv.2_Missense_Mutation_p.A213V|PTPRU_uc001brw.2_Missense_Mutation_p.A213V|PTPRU_uc009vtq.2_Missense_Mutation_p.A213V|PTPRU_uc009vtr.2_Missense_Mutation_p.A213V	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	213	Extracellular (Potential).|Ig-like C2-type.				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		TGCATGGCCGCGGGCAGAGCG	0.687													5	95					0	0	0.001168	0	0		T	29586039	T	T	29586039	3	4	25	1	0	0	0	0	1	0	0	0	12838	768	27	1	656	1	PTPRU	1	29586039	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2464952	29586039	219664582	25	21025											
SPOCD1	90853	broad.mit.edu	37	chr1	32280324	32280324	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccatttctttcttaccCtcacagggactgggtctggt	5	15	8	13	0	4	0	1	0	3	0	6	1	6	1	3	3	1	0	3	3	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:32280324C>A	uc001bts.1	-	2	669	c.611G>T	c.(610-612)AGG>ATG	p.R204M	SPOCD1_uc001btu.2_Missense_Mutation_p.R204M|SPOCD1_uc001btv.2_Intron	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	204					transcription, DNA-dependent					ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)		CTTTCTTACCCTCACAGGGAC	0.577													58	276					7.92265e-33	8.68227e-33	0.01441	1	0		A	32280324	A	A	32280324	3	1	25	1	0	0	0	0	1	0	0	0	15103	681	24	5	3099	5	SPOCD1	1	32280324	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2694285	32280324	216970297	26	21026											
THRAP3	9967	broad.mit.edu	37	chr1	36752135	36752135	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggggccaatataaccgaGgaggctatggaaactaccgc	13	6	12	10	2	0	0	0	0	0	0	0	3	0	2	3	5	3	1	3	5	6	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:36752135G>T	uc001cae.3	+	4	528	c.304G>T	c.(304-306)GGA>TGA	p.G102*	THRAP3_uc001caf.3_Nonsense_Mutation_p.G102*|THRAP3_uc001cag.1_Nonsense_Mutation_p.G102*	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	102	Arg-rich.|Ser-rich.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				ATATAACCGAGGAGGCTATGG	0.517			T	USP6	aneurysmal bone cysts								62	239					3.40165e-17	3.66108e-17	0.01441	1	0		T	36752135	T	T	36752135	4	4	25	1	0	0	0	0	0	1	0	0	15899	1001	35	5	310	5	THRAP3	1	36752135	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4471811	36752135	212498486	27	21027											
THRAP3	9967	broad.mit.edu	37	chr1	36756997	36756997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccagtggcttattggctcagGaacgcaagctttgccgagat	9	10	12	10	2	1	1	1	0	0	1	1	3	1	2	2	3	3	4	2	3	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:36756997G>A	uc001cae.3	+	6	1992	c.1768G>A	c.(1768-1770)GAA>AAA	p.E590K	THRAP3_uc001caf.3_Missense_Mutation_p.E590K	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	590					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				ATTGGCTCAGGAACGCAAGCT	0.423			T	USP6	aneurysmal bone cysts								12	45					0	0	0.010729	0	0		A	36756997	A	A	36756997	3	1	25	1	0	0	0	0	1	0	0	0	15899	1175	41	4	1782	4	THRAP3	1	36756997	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4862	36756997	212493624	28	21028											
CAP1	10487	broad.mit.edu	37	chr1	40533259	40533259	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccatctggaccctctgcCggatcatgtcctcctccccc	4	10	7	20	1	3	0	1	0	2	0	6	2	6	2	7	2	2	0	7	2	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:40533259C>T	uc001cfa.3	+	8	907	c.678C>T	c.(676-678)GCC>GCT	p.A226A	CAP1_uc001cey.3_Silent_p.A226A|CAP1_uc001cez.3_Silent_p.A226A|CAP1_uc009vvz.2_Silent_p.A226A|CAP1_uc010oje.1_Silent_p.A143A	NM_006367	NP_006358	Q01518	CAP1_HUMAN	adenylyl cyclase-associated protein	226	Ala/Pro/Ser-rich.				activation of adenylate cyclase activity|axon guidance|establishment or maintenance of cell polarity|platelet activation|platelet degranulation|signal transduction	plasma membrane	actin binding			ovary(1)	1	Lung NSC(20;5.03e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;4.63e-18)|Epithelial(16;1.27e-16)|all cancers(16;2.3e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GACCCTCTGCCGGATCATGTC	0.572													11	45					0	0	0.00499	0	0		T	40533259	T	T	40533259	2	4	25	1	0	0	0	0	0	0	0	1	2622	639	23	1		1	CAP1	1	40533259	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3776262	40533259	208717362	29	21029											
SCMH1	22955	broad.mit.edu	37	chr1	41582667	41582667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaacatgggccaagaagacGcattcagccgaaatcctgca	14	5	11	11	2	1	2	1	0	0	2	2	4	2	3	3	2	3	2	3	2	4	1	rs140656390	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:41582667G>A	uc001cgo.2	-	7	709	c.398C>T	c.(397-399)GCG>GTG	p.A133V	SCMH1_uc010ojr.1_Intron|SCMH1_uc001cgp.2_Missense_Mutation_p.A72V|SCMH1_uc001cgr.2_Missense_Mutation_p.A72V|SCMH1_uc001cgs.2_Missense_Mutation_p.A143V|SCMH1_uc001cgt.2_Missense_Mutation_p.A72V|SCMH1_uc001cgq.2_Missense_Mutation_p.A86V|SCMH1_uc010ojs.1_RNA	NM_001031694	NP_001026864	Q96GD3	SCMH1_HUMAN	sex comb on midleg 1 isoform 1	133					anatomical structure morphogenesis|gene silencing|multicellular organismal development|negative regulation of transcription, DNA-dependent		DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)|Breast(333;0.162)	Myeloproliferative disorder(586;0.0393)				CCAAGAAGACGCATTCAGCCG	0.383													12	53					0	0	0.010729	0	0		A	41582667	A	A	41582667	3	1	25	1	0	0	0	0	1	0	0	0	13933	1087	38	1	1624	1	SCMH1	1	41582667	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1049408	41582667	207667954	30	21030											
KIAA0467	23334	broad.mit.edu	37	chr1	43908512	43908512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaacccattcctgctgcCgaccatggaagtggagaccc	10	6	10	15	1	0	1	0	0	0	1	1	4	1	2	6	2	3	1	6	2	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:43908512C>T	uc001cjk.1	+	44	5939	c.5477C>T	c.(5476-5478)CCG>CTG	p.P1826L		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	2725						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TTCCTGCTGCCGACCATGGAA	0.612													51	255					0	0	0.01441	0	0		T	43908512	T	T	43908512	3	4	25	1	0	0	0	0	1	0	0	0	8194	652	23	1	5643	1	KIAA0467	1	43908512	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2325845	43908512	205342109	31	21031											
PTPRF	5792	broad.mit.edu	37	chr1	44084972	44084972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagcgcgggcgtgggcCgcaccggctgcttcatcgtg	3	7	16	15	6	1	0	1	0	0	0	2	0	1	0	3	3	3	4	3	3	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:44084972C>T	uc001cjr.2	+	28	5000	c.4660C>T	c.(4660-4662)CGC>TGC	p.R1554C	PTPRF_uc001cjs.2_Missense_Mutation_p.R1545C|PTPRF_uc001cju.2_Missense_Mutation_p.R943C|PTPRF_uc009vwt.2_Missense_Mutation_p.R1114C|PTPRF_uc001cjv.2_Missense_Mutation_p.R1025C|PTPRF_uc001cjw.2_Missense_Mutation_p.R780C	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1554	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).|Substrate binding (By similarity).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GGGCGTGGGCCGCACCGGCTG	0.642													10	47					0	0	0.006122	0	0		T	44084972	T	T	44084972	3	4	25	1	0	0	0	0	1	0	0	0	12826	652	23	1	4762	1	PTPRF	1	44084972	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	176460	44084972	205165649	32	21032											
IPO13	9670	broad.mit.edu	37	chr1	44429947	44429947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttattatattttagggcccaGggatcatcctgatattgttg	9	17	9	6	0	1	1	1	1	0	0	2	2	2	2	2	2	0	1	2	2	5	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:44429947G>A	uc001ckx.2	+	15	3146	c.2351G>A	c.(2350-2352)AGG>AAG	p.R784K	IPO13_uc001cky.2_5'Flank	NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	784					protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				TTAGGGCCCAGGGATCATCCT	0.378													37	163					0	0	0.007835	0	0		A	44429947	A	A	44429947	3	1	25	1	0	0	0	0	1	0	0	0	7810	1000	35	4	2409	4	IPO13	1	44429947	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	344975	44429947	204820674	33	21033											
PLK3	1263	broad.mit.edu	37	chr1	45271288	45271288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcggcagctgggctgctctCcagacctgcggcagcgactc	5	8	13	15	3	1	1	0	0	1	1	4	2	1	1	2	3	4	5	2	3	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:45271288C>T	uc001cmn.2	+	15	1979	c.1879C>T	c.(1879-1881)CCA>TCA	p.P627S	PLK3_uc001cmo.2_RNA|BTBD19_uc010old.1_5'Flank|BTBD19_uc010ole.1_5'Flank	NM_004073	NP_004064	Q9H4B4	PLK3_HUMAN	polo-like kinase 3	627	POLO box 2.					membrane	ATP binding|protein binding|protein serine/threonine kinase activity				0	Acute lymphoblastic leukemia(166;0.155)					GGGCTGCTCTCCAGACCTGCG	0.637													31	159					0	0	0.013726	0	0		T	45271288	T	T	45271288	3	4	25	1	0	0	0	0	1	0	0	0	12116	855	30	4	1937	4	PLK3	1	45271288	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	841341	45271288	203979333	34	21034											
HECTD3	79654	broad.mit.edu	37	chr1	45470328	45470328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagttggatgaaacgagaacGgtccccatatcccacgacga	13	6	10	12	4	0	2	0	1	0	1	2	6	2	3	3	2	2	1	3	2	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:45470328G>A	uc009vxk.2	-	16	2184	c.2086C>T	c.(2086-2088)CGT>TGT	p.R696C	HECTD3_uc001cmx.3_Missense_Mutation_p.R45C|HECTD3_uc001cmy.3_Missense_Mutation_p.R306C|HECTD3_uc010olh.1_Missense_Mutation_p.R412C	NM_024602	NP_078878	Q5T447	HECD3_HUMAN	HECT domain containing 3	696	HECT.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	ubiquitin-protein ligase activity				0	Acute lymphoblastic leukemia(166;0.155)					AAACGAGAACGGTCCCCATAT	0.557													43	216					0	0	0.01441	0	0		A	45470328	A	A	45470328	3	1	25	1	0	0	0	0	1	0	0	0	7057	1116	39	1	523	1	HECTD3	1	45470328	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	199040	45470328	203780293	35	21035											
C1orf190	541468	broad.mit.edu	37	chr1	46669228	46669228	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggaacctctggcgccctgCtgctcccaggggcgtctagc	4	8	14	15	2	2	0	0	0	2	0	3	1	3	1	3	4	4	2	3	4	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:46669228C>T	uc010oma.1	+	1	223	c.130C>T	c.(130-132)CTG>TTG	p.L44L	POMGNT1_uc001cpg.2_Intron|POMGNT1_uc001cpf.2_Intron	NM_001013615	NP_001013633	Q96LR2	CA190_HUMAN	hypothetical protein LOC541468	44					positive regulation of cytokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm				ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(166;0.155)					TGGCGCCCTGCTGCTCCCAGG	0.652													15	77					0	0	0.003163	0	0		T	46669228	T	T	46669228	2	4	25	1	0	0	0	0	0	0	0	1	2026	796	28	2		2	C1orf190	1	46669228	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1198900	46669228	202581393	36	21036											
SLC5A9	200010	broad.mit.edu	37	chr1	48705022	48705022	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggcctcgtgtttggccTgggagtggggcttctgcgta	2	12	18	9	2	1	0	0	0	1	0	2	1	1	1	2	6	1	3	2	6	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:48705022T>C	uc001cro.2	+	12	1542	c.1490T>C	c.(1489-1491)CTG>CCG	p.L497P	SLC5A9_uc001crn.2_Missense_Mutation_p.L522P|SLC5A9_uc010omt.1_Missense_Mutation_p.L511P|SLC5A9_uc001crp.2_Missense_Mutation_p.L164P|SLC5A9_uc010omu.1_Missense_Mutation_p.L164P|SLC5A9_uc009vyt.1_RNA	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	497	Helical; (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						GTGTTTGGCCTGGGAGTGGGG	0.587													25	144					0	0	0.004656	0	0		C	48705022	C	C	48705022	3	2	25	1	0	0	0	0	1	0	0	0	14697	1580	55	3	1615	3	SLC5A9	1	48705022	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	2035794	48705022	200545599	37	21037											
ZFYVE9	9372	broad.mit.edu	37	chr1	52800392	52800392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttctttgtgttcagtggcGctctgaaatcctcttctgga	5	17	10	9	1	5	1	1	1	4	0	6	2	6	2	1	2	0	3	1	2	1	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:52800392G>A	uc001cto.2	+	15	3794	c.3622G>A	c.(3622-3624)GCT>ACT	p.A1208T	ZFYVE9_uc001ctp.2_Missense_Mutation_p.A1149T	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	1208					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						GTTCAGTGGCGCTCTGAAATC	0.383													33	194					0	0	0.013726	0	0		A	52800392	A	A	52800392	3	1	25	1	0	0	0	0	1	0	0	0	17696	1087	38	1	3683	1	ZFYVE9	1	52800392	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4095370	52800392	196450229	38	21038											
C1orf175	374977	broad.mit.edu	37	chr1	55167778	55167778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaggcacgagaggtcgtgCgctcctcctgcatcaacctg	7	7	11	16	3	1	1	1	0	0	1	4	2	3	1	4	2	3	3	4	2	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:55167778C>T	uc010ooe.1	+	20	3625	c.3301C>T	c.(3301-3303)CGC>TGC	p.R1101C	C1orf175_uc001cxq.2_RNA|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Missense_Mutation_p.R619C|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA|C1orf175_uc009vzr.1_Missense_Mutation_p.R303C	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	1101	HEAT 3.					integral to membrane	binding				0						AGAGGTCGTGCGCTCCTCCTG	0.617													10	40					0	0	0.016723	0	0		T	55167778	T	T	55167778	3	4	25	1	0	0	0	0	1	0	0	0	2019	768	27	1	3371	1	C1orf175	1	55167778	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2367386	55167778	194082843	39	21039											
L1TD1	54596	broad.mit.edu	37	chr1	62675694	62675694	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctcagggctggaggaggaAgaagaagaagaggcttcagg	13	4	17	7	0	2	4	2	0	0	4	2	7	2	7	1	6	0	2	1	6	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:62675694A>G	uc001dae.3	+	4	1550	c.1248A>G	c.(1246-1248)GAA>GAG	p.E416E		NM_019079	NP_061952	Q5T7N2	LITD1_HUMAN	LINE-1 type transposase domain containing 1	416	Glu-rich.									ovary(1)|skin(1)	2						tggaggaggaagaagaagaag	0.249													16	81					0	0	0.004007	0	0		G	62675694	G	G	62675694	2	3	25	1	0	0	0	0	0	0	0	1	8605	69	3	3		3	L1TD1	1	62675694	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	7507916	62675694	186574927	40	21040											
ATG4C	84938	broad.mit.edu	37	chr1	63329809	63329809	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caattaaaaagatttagcacGgaagagtttgtcttgcttta	14	14	8	5	1	1	2	0	0	1	2	1	3	1	3	0	1	2	3	0	1	7	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:63329809G>A	uc001dat.2	+	11	1518	c.1356G>A	c.(1354-1356)ACG>ACA	p.T452T	ATG4C_uc001dau.2_Silent_p.T452T	NM_178221	NP_835739	Q96DT6	ATG4C_HUMAN	APG4 autophagy 4 homolog C isoform 8	452					autophagic vacuole assembly|protein targeting to membrane|proteolysis	cytosol|extracellular region	cysteine-type endopeptidase activity			ovary(1)	1						GATTTAGCACGGAAGAGTTTG	0.318													22	77					0	0	0.014323	0	0		A	63329809	A	A	63329809	2	1	25	1	0	0	0	0	0	0	0	1	1099	1103	39	1		1	ATG4C	1	63329809	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	654115	63329809	185920812	41	21041											
UBE2U	148581	broad.mit.edu	37	chr1	64707368	64707368	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatttcattggacagtattAcaaatggaagaaaatggatc	18	11	8	4	0	1	1	1	0	0	1	2	4	1	4	0	3	1	1	0	3	7	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:64707368A>G	uc001dbn.1	+	8	873	c.629A>G	c.(628-630)TAC>TGC	p.Y210C		NM_152489	NP_689702	Q5VVX9	UBE2U_HUMAN	ubiquitin-conjugating enzyme E2U (putative)	210							ATP binding|protein binding|ubiquitin-protein ligase activity				0						GGACAGTATTACAAATGGAAG	0.264													15	53					0	0	0.003163	0	0		G	64707368	G	G	64707368	3	3	25	1	0	0	0	0	1	0	0	0	16900	391	14	3	659	3	UBE2U	1	64707368	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1377559	64707368	184543253	42	21042											
DNAJC6	9829	broad.mit.edu	37	chr1	65858399	65858399	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaactactgagtgacctgtTtgggggtggaggtgcagctg	7	11	17	6	0	0	3	0	3	0	0	0	4	0	4	1	4	4	3	1	4	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:65858399T>G	uc001dcd.1	+	12	1747	c.1583T>G	c.(1582-1584)TTT>TGT	p.F528C	DNAJC6_uc001dcc.1_Missense_Mutation_p.F559C|DNAJC6_uc010opc.1_Missense_Mutation_p.F515C|DNAJC6_uc001dce.1_Missense_Mutation_p.F585C	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	528	Pro-rich.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						AGTGACCTGTTTGGGGGTGGA	0.572													15	71					0	0	0.004007	0	0		G	65858399	G	G	65858399	3	3	25	1	0	0	0	0	1	0	0	0	4659	1841	64	5	1629	5	DNAJC6	1	65858399	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	1151031	65858399	183392222	43	21043											
NEGR1	257194	broad.mit.edu	37	chr1	72400932	72400932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaccacttatcacctcccGcaaaaataatacttgaccgg	13	9	5	14	2	1	2	1	2	0	0	2	2	2	2	4	1	1	1	4	1	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:72400932G>A	uc001dfw.2	-	2	339	c.239C>T	c.(238-240)GCG>GTG	p.A80V	NEGR1_uc001dfv.2_5'UTR|NEGR1_uc010oqs.1_Missense_Mutation_p.A80V	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	80	Ig-like C2-type 1.				cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		ATCACCTCCCGCAAAAATAAT	0.393													28	142					0	0	0.009535	0	0		A	72400932	A	A	72400932	3	1	25	1	0	0	0	0	1	0	0	0	10336	1087	38	1	849	1	NEGR1	1	72400932	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	6542533	72400932	176849689	44	21044											
ZNF644	84146	broad.mit.edu	37	chr1	91406777	91406777	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgagataaaattgttgTcatctaggagttcttcttta	10	18	8	5	0	5	1	1	1	4	1	5	3	5	2	0	1	0	2	0	1	4	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:91406777T>G	uc001dnw.2	-	3	276	c.134A>C	c.(133-135)GAC>GCC	p.D45A	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.D45A	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	45					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		AAAATTGTTGTCATCTAGGAG	0.358													54	200					0	0	0.01441	0	0		G	91406777	G	G	91406777	3	3	25	1	0	0	0	0	1	0	0	0	18085	1667	58	5	3865	5	ZNF644	1	91406777	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	19005845	91406777	157843844	45	21045											
DPYD	1806	broad.mit.edu	37	chr1	98058819	98058819	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaaagccttttctgaagacGatgaacacacggcgagctcc	13	7	9	12	3	1	3	0	2	1	1	2	5	2	3	2	1	3	1	2	1	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:98058819G>A	uc001drv.2	-	10	1220	c.1083C>T	c.(1081-1083)ATC>ATT	p.I361I		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	361					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	TTCTGAAGACGATGAACACAC	0.458													40	210					0	0	0.013114	0	0		A	98058819	A	A	98058819	2	1	25	1	0	0	0	0	0	0	0	1	4751	1048	37	1		1	DPYD	1	98058819	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	6652042	98058819	151191802	46	21046											
LPPR5	163404	broad.mit.edu	37	chr1	99469999	99469999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgggcttaccacgagcaCggggaccccggcggccagcg	6	2	15	18	6	0	0	0	0	0	0	0	2	0	1	6	5	3	2	6	5	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:99469999C>T	uc001dsb.2	-	1	451	c.229G>A	c.(229-231)GTG>ATG	p.V77M	uc001dsd.1_RNA|LPPR5_uc001dsc.2_Missense_Mutation_p.V77M	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	77	Helical; (Potential).					integral to membrane	hydrolase activity				0						ACCACGAGCACGGGGACCCCG	0.721													9	23					0	0	0.004482	0	0		T	99469999	T	T	99469999	3	4	25	1	0	0	0	0	1	0	0	0	8946	536	19	1	760	1	LPPR5	1	99469999	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1411180	99469999	149780622	47	21047											
AGL	178	broad.mit.edu	37	chr1	100382219	100382219	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttccagattgatgggcccGgagactactgcaaagactat	11	11	10	9	1	0	4	0	1	0	3	1	5	1	4	2	2	2	1	2	2	3	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:100382219G>A	uc001dsi.1	+	33	4813	c.4413G>A	c.(4411-4413)CCG>CCA	p.P1471P	AGL_uc001dsj.1_Silent_p.P1471P|AGL_uc001dsk.1_Silent_p.P1471P|AGL_uc001dsl.1_Silent_p.P1471P|AGL_uc001dsm.1_Silent_p.P1455P|AGL_uc001dsn.1_Silent_p.P1454P	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	1471	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		TGATGGGCCCGGAGACTACTG	0.353													36	42					0	0	0.017118	0	0		A	100382219	A	A	100382219	2	1	25	1	0	0	0	0	0	0	0	1	384	1103	39	1		1	AGL	1	100382219	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	912220	100382219	148868402	48	21048											
VAV3	10451	broad.mit.edu	37	chr1	108116784	108116784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgcacagaagtcatacCgagcgatggcaatgcccagc	11	7	10	13	2	2	1	1	0	1	1	2	3	2	1	2	1	5	2	2	1	3	2	rs142668144	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:108116784C>T	uc001dvk.1	-	26	2441	c.2387G>A	c.(2386-2388)CGG>CAG	p.R796Q	VAV3_uc010ouu.1_Missense_Mutation_p.R228Q|VAV3_uc001dvj.1_Missense_Mutation_p.R236Q|VAV3_uc010ouv.1_Missense_Mutation_p.R200Q|VAV3_uc010ouw.1_Missense_Mutation_p.R824Q	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	796	SH3 2.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		GAAGTCATACCGAGCGATGGC	0.428													46	168					0	0	0.01441	0	0		T	108116784	T	T	108116784	3	4	25	1	0	0	0	0	1	0	0	0	17159	652	23	1	164	1	VAV3	1	108116784	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7734565	108116784	141133837	49	21049											
C1orf59	113802	broad.mit.edu	37	chr1	109197431	109197431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggtcaaattcagatccCgaggtttcagaaaatccccc	12	10	8	11	1	3	3	3	1	0	2	5	4	5	3	3	2	0	1	3	2	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:109197431C>T	uc001dvt.3	-	5	543	c.305G>A	c.(304-306)CGG>CAG	p.R102Q	C1orf59_uc001dvu.3_Missense_Mutation_p.R102Q|C1orf59_uc009wer.2_Missense_Mutation_p.R102Q	NM_001102592	NP_001096062	Q5T8I9	HENMT_HUMAN	hypothetical protein LOC113802	102					gene silencing by RNA|piRNA metabolic process	P granule	metal ion binding|O-methyltransferase activity|RNA binding|RNA methyltransferase activity				0		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0152)|Lung(183;0.0895)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.163)		ATTCAGATCCCGAGGTTTCAG	0.378													16	71					0	0	0.006122	0	0		T	109197431	T	T	109197431	3	4	25	1	0	0	0	0	1	0	0	0	2054	652	23	1	892	1	C1orf59	1	109197431	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1080647	109197431	140053190	50	21050											
GNAI3	2773	broad.mit.edu	37	chr1	110128869	110128869	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggtggccaaagatcagaaCgaaaaaagtggattcactgt	16	8	11	6	1	2	2	2	0	0	2	2	4	2	3	1	3	1	0	1	3	6	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:110128869C>T	uc001dxz.2	+	6	779	c.622C>T	c.(622-624)CGA>TGA	p.R208*		NM_006496	NP_006487	P08754	GNAI3_HUMAN	guanine nucleotide binding protein (G protein),	208					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|metabotropic serotonin receptor binding|signal transducer activity			ovary(1)	1		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.046)|Colorectal(144;0.119)|Epithelial(280;0.139)|all cancers(265;0.147)|LUSC - Lung squamous cell carcinoma(189;0.237)		AAGATCAGAACGAAAAAAGTG	0.448													68	221					0	0	0.01441	0	0		T	110128869	T	T	110128869	4	4	25	1	0	0	0	0	0	1	0	0	6521	528	19	1	644	1	GNAI3	1	110128869	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	931438	110128869	139121752	51	21051											
LRIG2	9860	broad.mit.edu	37	chr1	113657401	113657401	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagttggcattgtcatcatTgttgtggtctgctgtgttgt	5	18	12	6	0	3	0	2	0	1	0	3	0	3	0	0	2	1	5	0	2	0	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:113657401T>C	uc001edf.1	+	15	2631	c.2433T>C	c.(2431-2433)ATT>ATC	p.I811I	LRIG2_uc009wgn.1_Silent_p.I708I	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	811	Helical; (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		TTGTCATCATTGTTGTGGTCT	0.413													46	168					0	0	0.01441	0	0		C	113657401	C	C	113657401	2	2	25	1	0	0	0	0	0	0	0	1	8963	1800	63	3		3	LRIG2	1	113657401	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	3528532	113657401	135593220	52	21052											
SYCP1	6847	broad.mit.edu	37	chr1	115418692	115418692	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaactttatatttcagaaAatgataacagcttttgagga	17	14	6	4	0	1	3	1	2	0	1	1	4	1	4	0	1	3	1	0	1	7	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:115418692A>C	uc001efr.2	+	10	869	c.660A>C	c.(658-660)AAA>AAC	p.K220N	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.K220N|SYCP1_uc009wgw.2_Missense_Mutation_p.K220N	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	220	Potential.				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TATTTCAGAAAATGATAACAG	0.264													21	91					0	0	0.016522	0	0		C	115418692	C	C	115418692	3	2	25	1	0	0	0	0	1	0	0	0	15456	11	1	5	694	5	SYCP1	1	115418692	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1761291	115418692	133831929	53	21053											
SYCP1	6847	broad.mit.edu	37	chr1	115537372	115537372	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtataggaacaataatccAccagcttctcatctttgtgt	11	14	6	10	0	2	0	1	0	2	0	4	1	3	1	2	1	2	2	2	1	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:115537372A>G	uc001efr.2	+	31	2966	c.2757A>G	c.(2755-2757)CCA>CCG	p.P919P	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Silent_p.P919P|SYCP1_uc009wgw.2_Silent_p.P894P	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	919					cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACAATAATCCACCAGCTTCTC	0.289													21	75					0	0	0.004656	0	0		G	115537372	G	G	115537372	2	3	25	1	0	0	0	0	0	0	0	1	15456	146	6	3		3	SYCP1	1	115537372	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	118680	115537372	133713249	54	21054											
C1orf161	126868	broad.mit.edu	37	chr1	116663675	116663675	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtgccttactctgacacGtacaatgaaaatattaaggt	13	12	8	8	1	1	2	0	2	1	0	1	2	1	2	1	1	3	2	1	1	7	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:116663675G>A	uc001egc.1	+	3	436	c.171G>A	c.(169-171)ACG>ACA	p.T57T		NM_152367	NP_689580	Q8N8X9	MB213_HUMAN	hypothetical protein LOC126868	57											0	Lung SC(450;0.184)	all_cancers(81;0.00142)|all_lung(203;0.000139)|all_epithelial(167;0.000401)|Lung NSC(69;0.000705)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		ACTCTGACACGTACAATGAAA	0.458													52	232					0	0	0.01441	0	0		A	116663675	A	A	116663675	2	1	25	1	0	0	0	0	0	0	0	1	2012	1132	40	1		1	C1orf161	1	116663675	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1126303	116663675	132586946	55	21055											
NOTCH2	4853	broad.mit.edu	37	chr1	120458868	120458868	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgtggtgtcggaaacataCgtgtgaggagattctaggga	11	10	16	4	2	1	2	0	1	1	1	2	6	1	4	0	4	2	0	0	4	3	3	rs145566650		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:120458868C>T	uc001eik.2	-	34	6733	c.6477G>A	c.(6475-6477)ACG>ACA	p.T2159T		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	2159	Cytoplasmic (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		CGGAAACATACGTGTGAGGAG	0.522			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				20	121					0	0	0.008871	0	0		T	120458868	T	T	120458868	2	4	25	1	0	0	0	0	0	0	0	1	10567	523	19	1		1	NOTCH2	1	120458868	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3795193	120458868	128791753	56	21056											
ITGA10	8515	broad.mit.edu	37	chr1	145535840	145535840	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggccaagaggcagtctgtctGactgcagccctttgcttcca	7	10	11	13	0	2	2	0	1	2	1	3	2	3	2	3	2	3	3	3	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:145535840G>A	uc001eoa.2	+	16	2104	c.2028G>A	c.(2026-2028)CTG>CTA	p.L676L	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Silent_p.L545L|ITGA10_uc009wiw.2_Silent_p.L533L|ITGA10_uc010oyw.1_Silent_p.L621L	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	676	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CAGTCTGTCTGACTGCAGCCC	0.557													19	186					0	0	0.006122	0	0		A	145535840	A	A	145535840	2	1	25	1	0	0	0	0	0	0	0	1	7889	1277	45	4		4	ITGA10	1	145535840	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	25076972	145535840	103714781	57	21057											
CHD1L	9557	broad.mit.edu	37	chr1	146766109	146766109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaagtgttcatcttccacGtattggacatgccacgaaag	12	10	9	10	2	2	0	1	0	1	0	3	2	3	1	2	1	2	3	2	1	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:146766109G>A	uc001epm.3	+	22	2588	c.2525G>A	c.(2524-2526)CGT>CAT	p.R842H	uc001epp.2_Intron|CHD1L_uc001epn.3_Missense_Mutation_p.R729H|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Missense_Mutation_p.R748H|CHD1L_uc010ozp.1_Missense_Mutation_p.R561H|CHD1L_uc001epo.3_Missense_Mutation_p.R638H|CHD1L_uc009wji.2_Missense_Mutation_p.R561H	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	842	Macro.				chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)					CATCTTCCACGTATTGGACAT	0.378													65	210					0	0	0.01441	0	0		A	146766109	A	A	146766109	3	1	25	1	0	0	0	0	1	0	0	0	3327	1145	40	1	2611	1	CHD1L	1	146766109	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1230269	146766109	102484512	58	21058											
PLEKHO1	51177	broad.mit.edu	37	chr1	150131356	150131356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcccgcaccctccagctgCgggctgaggaacccccaacc	7	4	10	20	2	0	1	0	1	0	0	1	2	1	2	6	2	5	3	6	2	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:150131356C>T	uc001ett.2	+	6	1146	c.868C>T	c.(868-870)CGG>TGG	p.R290W	PLEKHO1_uc001etr.2_Missense_Mutation_p.R118W|PLEKHO1_uc001ets.2_Missense_Mutation_p.R107W|PLEKHO1_uc001etu.2_Missense_Mutation_p.R118W	NM_016274	NP_057358	Q53GL0	PKHO1_HUMAN	pleckstrin homology domain containing, family O	290	Interaction with ATM, CKIP, IFP35 and NMI.					cytoplasm|nucleus|plasma membrane				lung(1)	1	Lung NSC(24;7.78e-28)|Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			CCTCCAGCTGCGGGCTGAGGA	0.652													26	103					0	0	0.008361	0	0		T	150131356	T	T	150131356	3	4	25	1	0	0	0	0	1	0	0	0	12103	759	27	1	890	1	PLEKHO1	1	150131356	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3365247	150131356	99119265	59	21059											
FLG	2312	broad.mit.edu	37	chr1	152275618	152275618	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctgactgtacaggtgaaGactgtacatgactggctgta	11	11	12	7	0	1	4	0	3	1	1	1	4	1	4	0	2	2	4	0	2	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:152275618G>T	uc001ezu.1	-	3	11780	c.11744C>A	c.(11743-11745)TCT>TAT	p.S3915Y		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3915	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TACAGGTGAAGACTGTACATG	0.498									Ichthyosis				34	130					4.65686e-17	5.00812e-17	0.017118	1	0		T	152275618	T	T	152275618	3	4	25	1	0	0	0	0	1	0	0	0	5936	942	33	5	445	5	FLG	1	152275618	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2144262	152275618	96975003	60	21060											
FLG	2312	broad.mit.edu	37	chr1	152277049	152277049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcttctgcttgaccccGggtgtccacgaatggtgtcc	4	13	10	14	2	2	1	0	1	2	0	5	2	5	1	5	2	1	1	5	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:152277049G>A	uc001ezu.1	-	3	10349	c.10313C>T	c.(10312-10314)CCG>CTG	p.P3438L		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3438	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTTGACCCCGGGTGTCCACG	0.597									Ichthyosis				157	635					0	0	0.01441	0	0		A	152277049	A	A	152277049	3	1	25	1	0	0	0	0	1	0	0	0	5936	1116	39	1	1876	1	FLG	1	152277049	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1431	152277049	96973572	61	21061											
FLG	2312	broad.mit.edu	37	chr1	152277533	152277533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggaagtctctgcgtgacGagtgcctgattgtctggagc	8	10	15	8	2	2	3	0	2	2	1	3	6	2	5	1	2	3	0	1	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:152277533G>A	uc001ezu.1	-	3	9865	c.9829C>T	c.(9829-9831)CGT>TGT	p.R3277C		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3277	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTGCGTGACGAGTGCCTGAT	0.602									Ichthyosis				126	617					0	0	0.01441	0	0		A	152277533	A	A	152277533	3	1	25	1	0	0	0	0	1	0	0	0	5936	1058	37	1	2360	1	FLG	1	152277533	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	484	152277533	96973088	62	21062											
LCE1E	353135	broad.mit.edu	37	chr1	152759797	152759797	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcctgccagcagagccagCagcagtgccagccccctccc	7	5	10	19	0	0	1	0	0	0	1	2	1	2	1	7	0	7	3	7	0	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:152759797C>T	uc001fan.2	+	2	75	c.22C>T	c.(22-24)CAG>TAG	p.Q8*		NM_178353	NP_848130	Q5T753	LCE1E_HUMAN	late cornified envelope 1E	8	Cys-rich.				keratinization						0	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCAGAGCCAGCAGCAGTGCCA	0.502													59	296					0	0	0.01441	0	0		T	152759797	T	T	152759797	4	4	25	1	0	0	0	0	0	1	0	0	8679	711	25	2	24	2	LCE1E	1	152759797	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	482264	152759797	96490824	63	21063											
INTS3	65123	broad.mit.edu	37	chr1	153744815	153744815	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctggtgattcctgcacaGcctgaggagctctagcagca	8	9	12	12	0	2	2	0	2	2	0	3	3	3	3	2	2	5	5	2	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:153744815G>A	uc009wom.2	+	28	2942	c.2721_splice	c.e28-1	p.S907_splice	INTS3_uc001fct.2_Splice_Site_p.S907_splice|INTS3_uc001fcu.2_Splice_Site_p.S599_splice|INTS3_uc001fcv.2_Splice_Site_p.S701_splice|INTS3_uc010peb.1_Splice_Site_p.S701_splice|INTS3_uc001fcw.2_Splice_Site_p.S420_splice|INTS3_uc010pec.1_Splice_Site_p.S420_splice|INTS3_uc001fcy.2_Splice_Site_p.S204_splice|INTS3_uc001fcx.2_Splice_Site_p.S204_splice	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3						DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TTCCTGCACAGCCTGAGGAGC	0.602											OREG0013827	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	134					0	0	0.00623	0	0		A	153744815	A	A	153744815	5	1	25	1	0	0	0	0	0	0	1	0	7795	985	34	2	2826	2	INTS3	1	153744815	Splice_Site	SNP	G	TCGA-BR-4370-01A-01D-1158-08	985018	153744815	95505806	64	21064											
PKLR	5313	broad.mit.edu	37	chr1	155271181	155271181	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgatatgttctcctggatCgacatgctttcagtgtgggc	7	14	12	8	1	2	1	1	1	1	0	4	4	2	2	1	2	1	2	1	2	1	3	rs139697646	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:155271181C>T	uc001fkb.3	-	1	45	c.6G>A	c.(4-6)TCG>TCA	p.S2S	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_5'Flank|PKLR_uc010pga.1_5'Flank	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	2					endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	TCTCCTGGATCGACATGCTTT	0.512													18	111					0	0	0.00499	0	0		T	155271181	T	T	155271181	2	4	25	1	0	0	0	0	0	0	0	1	11995	871	31	1		1	PKLR	1	155271181	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1526366	155271181	93979440	65	21065											
IQGAP3	128239	broad.mit.edu	37	chr1	156514000	156514000	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctccgagctgcccacatccGggcccaggcctggatctggg	5	6	13	17	2	1	0	0	0	1	0	3	2	3	1	6	4	2	1	6	4	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:156514000G>A	uc001fpf.2	-	21	2479	c.2404C>T	c.(2404-2406)CGG>TGG	p.R802W		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	802	IQ 3.				small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCCCACATCCGGGCCCAGGCC	0.572													5	177					0	0	0.014758	0	0		A	156514000	A	A	156514000	3	1	25	1	0	0	0	0	1	0	0	0	7832	1115	39	1	2563	1	IQGAP3	1	156514000	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1242819	156514000	92736621	66	21066											
NTRK1	4914	broad.mit.edu	37	chr1	156843499	156843499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttctctgtggatgggcagCcggcaccgtctctgcgctgg	3	10	14	14	3	2	0	0	0	2	0	4	1	2	1	3	4	2	3	3	4	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:156843499C>T	uc001fqh.1	+	8	981	c.925C>T	c.(925-927)CCG>TCG	p.P309S	NTRK1_uc001fqf.1_Missense_Mutation_p.P279S|NTRK1_uc009wsi.1_Missense_Mutation_p.P14S|NTRK1_uc001fqi.1_Missense_Mutation_p.P309S|NTRK1_uc009wsk.1_Missense_Mutation_p.P309S	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	309	Ig-like C2-type 2.|Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	GGATGGGCAGCCGGCACCGTC	0.617			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			3	9					0	0	0.001984	0	0		T	156843499	T	T	156843499	3	4	25	1	0	0	0	0	1	0	0	0	10725	739	26	2	1085	2	NTRK1	1	156843499	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	329499	156843499	92407122	67	21067											
ARHGEF11	9826	broad.mit.edu	37	chr1	156916459	156916459	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccaaggacgcacctgcaTgaagagctggaatcgactct	11	7	12	11	2	1	2	0	1	1	1	2	5	1	4	2	3	2	3	2	3	3	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:156916459T>C	uc001fqo.2	-	27	3609	c.2569A>G	c.(2569-2571)ATG>GTG	p.M857V	ARHGEF11_uc010phu.1_Missense_Mutation_p.M273V|ARHGEF11_uc001fqn.2_Missense_Mutation_p.M897V	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	857	DH.				actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CGCACCTGCATGAAGAGCTGG	0.522													18	382					0	0	0.00499	0	0		C	156916459	C	C	156916459	3	2	25	1	0	0	0	0	1	0	0	0	896	1464	51	3	2055	3	ARHGEF11	1	156916459	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	72960	156916459	92334162	68	21068											
CD1C	911	broad.mit.edu	37	chr1	158262112	158262112	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacttgcccccgatttctCttgggtctcctggatgcagg	5	12	11	13	1	2	0	0	0	2	0	4	2	2	1	3	3	3	2	3	3	0	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:158262112C>A	uc001fru.2	+	3	859	c.567C>A	c.(565-567)CTC>CTA	p.L189L	CD1C_uc001frv.2_5'UTR	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	189	Extracellular (Potential).				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					CCCGATTTCTCTTGGGTCTCC	0.453													165	656					5.06876e-93	5.57685e-93	0.01441	1	0		A	158262112	A	A	158262112	2	1	25	1	0	0	0	0	0	0	0	1	2979	900	32	5		5	CD1C	1	158262112	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1345653	158262112	90988509	69	21069											
SPTA1	6708	broad.mit.edu	37	chr1	158622284	158622284	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactcatcaaactttttctgCagctcccaaacatcatctag	13	12	3	13	0	5	0	3	0	2	0	6	0	6	0	1	0	5	2	1	0	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:158622284C>T	uc001fst.1	-	23	3547	c.3348G>A	c.(3346-3348)CTG>CTA	p.L1116L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1116	Spectrin 11.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					ACTTTTTCTGCAGCTCCCAAA	0.403													45	200					0	0	0.011902	0	0		T	158622284	T	T	158622284	2	4	25	1	0	0	0	0	0	0	0	1	15141	697	25	2		2	SPTA1	1	158622284	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	360172	158622284	90628337	70	21070											
OR6K3	391114	broad.mit.edu	37	chr1	158687412	158687412	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcccacagaaaggcagtGtggaaatcatcacaatctcg	13	7	11	10	1	3	1	2	0	1	1	4	2	3	2	1	3	0	1	1	3	3	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:158687412G>T	uc010pip.1	-	1	542	c.542C>A	c.(541-543)ACA>AAA	p.T181K		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					GAAAGGCAGTGTGGAAATCAT	0.507													36	137					6.53348e-20	7.05922e-20	0.017118	1	0		T	158687412	T	T	158687412	3	4	25	1	0	0	0	0	1	0	0	0	11222	1377	48	5	455	5	OR6K3	1	158687412	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	65128	158687412	90563209	71	21071											
ARHGAP30	257106	broad.mit.edu	37	chr1	161023081	161023081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccccaaagagctggtccaCgtgtgtgaggatgaactcca	11	7	11	12	1	0	3	0	2	0	1	2	4	2	4	4	2	2	1	4	2	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:161023081C>T	uc001fxl.2	-	6	977	c.631G>A	c.(631-633)GTG>ATG	p.V211M	ARHGAP30_uc001fxk.2_Missense_Mutation_p.V211M|ARHGAP30_uc001fxm.2_Missense_Mutation_p.V57M|ARHGAP30_uc009wtx.2_Translation_Start_Site|ARHGAP30_uc001fxn.1_Missense_Mutation_p.V57M	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	211	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			AGCTGGTCCACGTGTGTGAGG	0.562													19	83					0	0	0.010504	0	0		T	161023081	T	T	161023081	3	4	25	1	0	0	0	0	1	0	0	0	879	536	19	1	2702	1	ARHGAP30	1	161023081	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2335669	161023081	88227540	72	21072											
SLC9A11	284525	broad.mit.edu	37	chr1	173545816	173545816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttacttagtaattacaagttCgatcttcggtttaaaagtta	13	17	6	5	2	1	0	0	0	1	0	3	1	1	0	0	1	2	4	0	1	8	9			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:173545816C>T	uc001giz.2	-	8	1309	c.886G>A	c.(886-888)GAA>AAA	p.E296K	SLC9A11_uc009wwe.2_5'UTR|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	296					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						ATTACAAGTTCGATCTTCGGT	0.398													22	52					0	0	0.012319	0	0		T	173545816	T	T	173545816	3	4	25	1	0	0	0	0	1	0	0	0	14736	893	31	1	2572	1	SLC9A11	1	173545816	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	12522735	173545816	75704805	73	21073											
PAPPA2	60676	broad.mit.edu	37	chr1	176675551	176675551	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcggagatggctgctccaAggtgtgtgagctggaggaag	9	7	19	6	1	0	2	0	1	0	1	1	6	1	4	1	5	3	3	1	5	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:176675551A>G	uc001gkz.2	+	10	4586	c.3422A>G	c.(3421-3423)AAG>AGG	p.K1141R	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1141					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GGCTGCTCCAAGGTGTGTGAG	0.413													20	80					0	0	0.016522	0	0		G	176675551	G	G	176675551	3	3	25	1	0	0	0	0	1	0	0	0	11452	72	3	3	3509	3	PAPPA2	1	176675551	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	3129735	176675551	72575070	74	21074											
FAM5B	57795	broad.mit.edu	37	chr1	177250079	177250079	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcctgtcatggccatctaCgtcaacccctttgggggcag	7	9	12	13	1	3	0	2	0	1	0	3	1	3	0	4	3	3	1	4	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:177250079C>T	uc001glf.2	+	8	2079	c.1767C>T	c.(1765-1767)TAC>TAT	p.Y589Y	FAM5B_uc001glg.2_Silent_p.Y484Y	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	589						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TGGCCATCTACGTCAACCCCT	0.567													17	40					0	0	0.004007	0	0		T	177250079	T	T	177250079	2	4	25	1	0	0	0	0	0	0	0	1	5607	547	19	1		1	FAM5B	1	177250079	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	574528	177250079	72000542	75	21075											
QSOX1	5768	broad.mit.edu	37	chr1	180155212	180155212	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagatctacatggctgacctGgaatctgcactgcactacat	12	10	8	11	0	2	2	0	1	2	1	2	3	2	3	1	2	4	3	1	2	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:180155212G>A	uc001gnz.2	+	8	987	c.912G>A	c.(910-912)CTG>CTA	p.L304L	QSOX1_uc001gny.2_Silent_p.L304L|QSOX1_uc001goa.2_Silent_p.L304L	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	304					cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						TGGCTGACCTGGAATCTGCAC	0.562													39	110					0	0	0.009718	0	0		A	180155212	A	A	180155212	2	1	25	1	0	0	0	0	0	0	0	1	12908	1335	47	4		4	QSOX1	1	180155212	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2905133	180155212	69095409	76	21076											
CACNA1E	777	broad.mit.edu	37	chr1	181702089	181702089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaagccatgcccactgaagGggagaaggaccatgagctca	13	5	13	10	0	1	4	1	3	0	1	1	6	1	5	3	3	3	1	3	3	3	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:181702089G>A	uc001gow.2	+	20	3032	c.2867G>A	c.(2866-2868)GGG>GAG	p.G956E	CACNA1E_uc009wxs.2_Missense_Mutation_p.G844E|CACNA1E_uc001gox.1_Missense_Mutation_p.G182E|CACNA1E_uc009wxt.2_Missense_Mutation_p.G182E	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	956	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CCCACTGAAGGGGAGAAGGAC	0.592													20	91					0	0	0.014323	0	0		A	181702089	A	A	181702089	3	1	25	1	0	0	0	0	1	0	0	0	2545	1232	43	4	2945	4	CACNA1E	1	181702089	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1546877	181702089	67548532	77	21077											
ZNF648	127665	broad.mit.edu	37	chr1	182026671	182026671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgggacatccaagactgCgtcctggtttgcccccgagt	6	9	14	12	2	0	1	0	0	0	1	2	3	2	2	4	3	2	1	4	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:182026671C>T	uc001goz.2	-	2	683	c.475G>A	c.(475-477)GCA>ACA	p.A159T		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	159					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCCAAGACTGCGTCCTGGTTT	0.537													19	88					0	0	0.012319	0	0		T	182026671	T	T	182026671	3	4	25	1	0	0	0	0	1	0	0	0	18088	768	27	1	1235	1	ZNF648	1	182026671	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	324582	182026671	67223950	78	21078											
LAMC1	3915	broad.mit.edu	37	chr1	183077451	183077451	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagagtaactcttaatcGcctgaacacttttggagatg	12	12	8	9	1	2	3	1	1	1	2	3	4	2	3	1	1	2	1	1	1	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:183077451G>A	uc001gpy.3	+	3	1021	c.764G>A	c.(763-765)CGC>CAC	p.R255H		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	255	Laminin N-terminal.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACTCTTAATCGCCTGAACACT	0.388													41	194					0	0	0.013114	0	0		A	183077451	A	A	183077451	3	1	25	1	0	0	0	0	1	0	0	0	8630	1087	38	1	774	1	LAMC1	1	183077451	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1050780	183077451	66173170	79	21079											
LAMC1	3915	broad.mit.edu	37	chr1	183083684	183083684	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcctgtgattgcaatggtcGatcccaggaatgctacttcg	9	11	11	10	2	0	1	0	1	0	0	3	3	1	2	2	2	4	2	2	2	3	3	rs150210600		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:183083684G>A	uc001gpy.3	+	5	1297	c.1040G>A	c.(1039-1041)CGA>CAA	p.R347Q		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	347	Laminin EGF-like 2.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGCAATGGTCGATCCCAGGAA	0.468													70	401					0	0	0.01441	0	0		A	183083684	A	A	183083684	3	1	25	1	0	0	0	0	1	0	0	0	8630	1058	37	1	1058	1	LAMC1	1	183083684	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	6233	183083684	66166937	80	21080											
FAM129A	116496	broad.mit.edu	37	chr1	184863256	184863256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataatcatttttaactacaaCgtatctctccttccacttct	11	17	1	12	1	3	0	1	0	2	0	6	0	5	0	2	0	3	1	2	0	5	8	rs143246041		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:184863256C>T	uc001gra.2	-	3	465	c.271G>A	c.(271-273)GTT>ATT	p.V91I	FAM129A_uc009wyh.1_Missense_Mutation_p.V91I|FAM129A_uc009wyi.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	91					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						TTAACTACAACGTATCTCTCC	0.363													37	130					0	0	0.00623	0	0		T	184863256	T	T	184863256	3	4	25	1	0	0	0	0	1	0	0	0	5447	536	19	1	2563	1	FAM129A	1	184863256	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1779572	184863256	64387365	81	21081											
TPR	7175	broad.mit.edu	37	chr1	186296653	186296653	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcactgtcaattacaatgAcatcatctcctttgccttga	11	14	4	12	0	4	2	3	2	1	0	5	2	4	2	2	0	2	0	2	0	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:186296653A>G	uc001grv.2	-	40	6125	c.5828T>C	c.(5827-5829)GTC>GCC	p.V1943A		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1943					carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		aATTACAATGACATCATCTCC	0.308			T	NTRK1	papillary thyroid								17	36					0	0	0.004007	0	0		G	186296653	G	G	186296653	3	3	25	1	0	0	0	0	1	0	0	0	16442	275	10	3	1311	3	TPR	1	186296653	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1433397	186296653	62953968	82	21082											
PDC	5132	broad.mit.edu	37	chr1	186413572	186413572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcctgcatacactgtctacGgtatttacgaaggcagtttt	10	14	8	9	2	1	0	0	0	1	0	2	1	2	0	1	2	4	4	1	2	5	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:186413572G>A	uc001gsa.2	-	4	353	c.280C>T	c.(280-282)CGT>TGT	p.R94C	PDC_uc001grz.2_Missense_Mutation_p.R42C	NM_002597	NP_002588	P20941	PHOS_HUMAN	phosducin isoform a	94					G-protein coupled receptor protein signaling pathway|phototransduction|visual perception	actin cytoskeleton|cytosol|nucleus|photoreceptor inner segment|photoreceptor outer segment	phospholipase inhibitor activity			skin(1)	1		Breast(1374;1.53e-05)		KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|Colorectal(1306;0.0129)		CACTGTCTACGGTATTTACGA	0.368													50	199					0	0	0.01441	0	0		A	186413572	A	A	186413572	3	1	25	1	0	0	0	0	1	0	0	0	11633	1116	39	1	464	1	PDC	1	186413572	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	116919	186413572	62837049	83	21083											
CFHR5	81494	broad.mit.edu	37	chr1	196971705	196971705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggatggagaaaaagtagCtgttctctgtaaagaaaact	16	10	10	5	0	2	2	1	0	1	2	3	4	2	3	0	2	2	4	0	2	7	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:196971705C>T	uc001gts.3	+	8	1369	c.1241C>T	c.(1240-1242)GCT>GTT	p.A414V		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	414	Sushi 7.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						GAAAAAGTAGCTGTTCTCTGT	0.388													30	92					0	0	0.009535	0	0		T	196971705	T	T	196971705	3	4	25	1	0	0	0	0	1	0	0	0	3291	797	28	2	1271	2	CFHR5	1	196971705	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	10558133	196971705	52278916	84	21084											
CRB1	23418	broad.mit.edu	37	chr1	197404029	197404029	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagattattctttcaattGcaaagtggcaacagctttta	12	15	6	8	0	2	1	1	0	1	1	3	1	3	1	1	1	3	3	1	1	5	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:197404029G>A	uc001gtz.2	+	9	3171	c.3036G>A	c.(3034-3036)TTG>TTA	p.L1012L	CRB1_uc010poz.1_Silent_p.L988L|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Silent_p.L900L|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Silent_p.L493L|CRB1_uc001gub.1_Silent_p.L661L	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1012	Extracellular (Potential).|Laminin G-like 3.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TCTTTCAATTGCAAAGTGGCA	0.383													24	160					0	0	0.016522	0	0		A	197404029	A	A	197404029	2	1	25	1	0	0	0	0	0	0	0	1	3851	1310	46	2		2	CRB1	1	197404029	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	432324	197404029	51846592	85	21085											
LAD1	3898	broad.mit.edu	37	chr1	201352206	201352206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgagcccctcaccttcCggctggaggctggttctgct	3	10	13	15	1	2	1	1	1	1	0	3	2	3	2	5	5	2	4	5	5	0	2	rs115025356	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:201352206C>T	uc001gwm.2	-	7	1617	c.1382G>A	c.(1381-1383)CGG>CAG	p.R461Q		NM_005558	NP_005549	O00515	LAD1_HUMAN	ladinin 1	461						basement membrane	structural molecule activity				0						CCTCACCTTCCGGCTGGAGGC	0.572													42	235					0	0	0.013114	0	0		T	201352206	T	T	201352206	3	4	25	1	0	0	0	0	1	0	0	0	8615	652	23	1	187	1	LAD1	1	201352206	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3948177	201352206	47898415	86	21086											
PPP1R12B	4660	broad.mit.edu	37	chr1	202385958	202385958	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggtgaagtttctggtggAgaacagagccaatgtaaacc	13	9	12	7	0	1	3	0	1	1	2	1	4	1	3	2	3	3	2	2	3	5	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:202385958A>T	uc001gya.1	+	2	479	c.335A>T	c.(334-336)GAG>GTG	p.E112V	PPP1R12B_uc001gxy.2_Missense_Mutation_p.E112V|PPP1R12B_uc009xad.1_5'UTR|PPP1R12B_uc009xae.1_Missense_Mutation_p.E112V|PPP1R12B_uc001gxz.1_Missense_Mutation_p.E112V	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	112	ANK 2.				regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			TTTCTGGTGGAGAACAGAGCC	0.373													45	188					0	0	0.013114	0	0		T	202385958	T	T	202385958	3	4	25	1	0	0	0	0	1	0	0	0	12377	304	11	5	341	5	PPP1R12B	1	202385958	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1033752	202385958	46864663	87	21087											
TMCC2	9911	broad.mit.edu	37	chr1	205238587	205238587	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcacaggccacccacacCgccgtggtgtccaagccccg	7	5	9	20	3	1	0	1	0	1	0	3	0	2	0	7	2	1	0	7	2	1	0	rs146274386		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:205238587C>T	uc001hbz.1	+	4	1701	c.1257C>T	c.(1255-1257)ACC>ACT	p.T419T	TMCC2_uc010prf.1_Silent_p.T341T|TMCC2_uc001hca.2_Silent_p.T194T|TMCC2_uc001hcb.1_Silent_p.T179T|TMCC2_uc001hcc.1_Silent_p.T40T|TMCC2_uc001hcd.2_Silent_p.T186T	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	419						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CCACCCACACCGCCGTGGTGT	0.667													25	105					0	0	0.008361	0	0		T	205238587	T	T	205238587	2	4	25	1	0	0	0	0	0	0	0	1	16018	639	23	1		1	TMCC2	1	205238587	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2852629	205238587	44012034	88	21088											
PIGR	5284	broad.mit.edu	37	chr1	207105105	207105105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccctggagttctcgaagtctGacatgctaatgtctgtcctg	7	13	10	11	1	3	1	0	1	3	0	5	3	4	2	2	1	1	2	2	1	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:207105105G>A	uc001hez.2	-	9	2235	c.2051C>T	c.(2050-2052)TCA>TTA	p.S684L	PIGR_uc009xbz.2_Missense_Mutation_p.S684L	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	684	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CTCGAAGTCTGACATGCTAAT	0.527													38	173					0	0	0.00623	0	0		A	207105105	A	A	207105105	3	1	25	1	0	0	0	0	1	0	0	0	11916	1294	45	4	255	4	PIGR	1	207105105	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1866518	207105105	42145516	89	21089											
PIGR	5284	broad.mit.edu	37	chr1	207106471	207106471	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtctagcaccttctcatcAggagcagcgtctgccttcgc	7	10	10	14	2	4	0	2	0	3	0	6	2	4	1	2	1	4	2	2	1	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:207106471A>G	uc001hez.2	-	7	1930	c.1746T>C	c.(1744-1746)CCT>CCC	p.P582P	PIGR_uc009xbz.2_Silent_p.P582P	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	582	Extracellular (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CCTTCTCATCAGGAGCAGCGT	0.537													26	104					0	0	0.012213	0	0		G	207106471	G	G	207106471	2	3	25	1	0	0	0	0	0	0	0	1	11916	175	7	3		3	PIGR	1	207106471	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1366	207106471	42144150	90	21090											
KCNH1	3756	broad.mit.edu	37	chr1	210970965	210970965	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtcccctggggcacagtgCaccgtctggaactccatggc	7	7	13	14	1	1	0	0	0	1	0	3	1	3	1	4	5	2	2	4	5	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:210970965C>A	uc001hib.2	-	9	1970	c.1800G>T	c.(1798-1800)GTG>GTT	p.V600V	KCNH1_uc001hic.2_Silent_p.V573V	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	600	Cytoplasmic (Potential).|cNMP.				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		GGGCACAGTGCACCGTCTGGA	0.612													24	123					2.48779e-11	2.63447e-11	0.005443	1	0		A	210970965	A	A	210970965	2	1	25	1	0	0	0	0	0	0	0	1	8047	697	25	5		5	KCNH1	1	210970965	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3864494	210970965	38279656	91	21091											
INTS7	25896	broad.mit.edu	37	chr1	212194449	212194449	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgaaaacatcagctaacTttaggaatgcagaattgata	16	11	7	7	0	2	3	1	2	1	1	2	4	2	4	0	1	4	2	0	1	7	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:212194449T>G	uc001hiw.1	-	2	305	c.200A>C	c.(199-201)AAG>ACG	p.K67T	INTS7_uc009xdb.1_Missense_Mutation_p.K67T|INTS7_uc001hix.1_5'UTR|INTS7_uc001hiy.1_Missense_Mutation_p.K67T|INTS7_uc010pta.1_Missense_Mutation_p.K67T	NM_015434	NP_056249	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	67					snRNA processing	integrator complex	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		ATCAGCTAACTTTAGGAATGC	0.348													27	111					0	0	0.008361	0	0		G	212194449	G	G	212194449	3	3	25	1	0	0	0	0	1	0	0	0	7799	1609	56	5	2764	5	INTS7	1	212194449	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	1223484	212194449	37056172	92	21092											
FAM71A	149647	broad.mit.edu	37	chr1	212798363	212798363	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgcaccgatatttgagagCgactttatccagatcaccaa	13	11	7	10	2	1	2	1	1	0	2	2	5	2	2	3	0	2	1	3	0	4	5	rs141841205		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:212798363C>T	uc001hjk.2	+	1	548	c.144C>T	c.(142-144)AGC>AGT	p.S48S	uc010pth.1_Intron	NM_153606	NP_705834	Q8IYT1	FA71A_HUMAN	hypothetical protein LOC149647	48										skin(3)|ovary(1)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00631)|all cancers(67;0.00981)|GBM - Glioblastoma multiforme(131;0.0715)|Epithelial(68;0.094)		TATTTGAGAGCGACTTTATCC	0.507													32	164					0	0	0.012213	0	0		T	212798363	T	T	212798363	2	4	25	1	0	0	0	0	0	0	0	1	5621	767	27	1		1	FAM71A	1	212798363	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	603914	212798363	36452258	93	21093											
RPS6KC1	26750	broad.mit.edu	37	chr1	213302993	213302993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttggtctcaatctttcttCggattcttcagcactagggg	6	17	9	9	1	5	0	2	0	4	0	7	1	5	1	0	4	1	1	0	4	2	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:213302993C>T	uc010ptr.1	+	6	755	c.596C>T	c.(595-597)TCG>TTG	p.S199L	RPS6KC1_uc001hkd.2_Missense_Mutation_p.S187L|RPS6KC1_uc010pts.1_Missense_Mutation_p.S18L|RPS6KC1_uc010ptt.1_Missense_Mutation_p.S18L|RPS6KC1_uc010ptu.1_Missense_Mutation_p.S18L|RPS6KC1_uc010ptv.1_5'UTR|RPS6KC1_uc001hke.2_Missense_Mutation_p.S18L	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	199					cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		AATCTTTCTTCGGATTCTTCA	0.433													30	129					0	0	0.009535	0	0		T	213302993	T	T	213302993	3	4	25	1	0	0	0	0	1	0	0	0	13683	893	31	1	618	1	RPS6KC1	1	213302993	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	504630	213302993	35947628	94	21094											
PTPN14	5784	broad.mit.edu	37	chr1	214557590	214557590	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagctctggggtgctcacCgtgtgcgagatggcgcttgc	4	9	16	12	3	2	1	1	0	1	1	2	2	2	1	2	3	4	3	2	3	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:214557590C>T	uc001hkk.1	-	13	1879	c.1608G>A	c.(1606-1608)ACG>ACA	p.T536T	PTPN14_uc010pty.1_Silent_p.T437T	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	536					lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		GGGTGCTCACCGTGTGCGAGA	0.572													42	162					0	0	0.01441	0	0		T	214557590	T	T	214557590	2	4	25	1	0	0	0	0	0	0	0	1	12806	639	23	1		1	PTPN14	1	214557590	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1254597	214557590	34693031	95	21095											
CENPF	1063	broad.mit.edu	37	chr1	214815832	214815832	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtgtctttggctccatTggacgagagtaattcctacg	7	13	10	11	2	1	1	0	0	1	1	3	3	3	2	3	2	1	2	3	2	2	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:214815832T>C	uc001hkm.2	+	12	4325	c.4151T>C	c.(4150-4152)TTG>TCG	p.L1384S		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TTGGCTCCATTGGACGAGAGT	0.423													17	81					0	0	0.014323	0	0		C	214815832	C	C	214815832	3	2	25	1	0	0	0	0	1	0	0	0	3234	1821	63	3	4193	3	CENPF	1	214815832	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	258242	214815832	34434789	96	21096											
MIA3	375056	broad.mit.edu	37	chr1	222833602	222833602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgacagtggagccacctGtgagacctctctctgctact	8	11	9	13	0	2	2	0	2	2	1	3	4	2	3	3	1	3	1	3	1	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:222833602G>A	uc001hnl.2	+	24	5068	c.5059G>A	c.(5059-5061)GTG>ATG	p.V1687M	MIA3_uc001hnm.2_Missense_Mutation_p.V565M	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	1687	Pro-rich.|Cytoplasmic (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		GGAGCCACCTGTGAGACCTCT	0.488													21	92					0	0	0.010504	0	0		A	222833602	A	A	222833602	3	1	25	1	0	0	0	0	1	0	0	0	9583	1377	48	4	5153	4	MIA3	1	222833602	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	8017770	222833602	26417019	97	21097											
SUSD4	55061	broad.mit.edu	37	chr1	223465929	223465929	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcaaagaaaacccctccGctgggggtcctgaagccatt	10	8	9	14	1	1	2	1	1	0	1	3	2	3	2	6	2	2	1	6	2	4	2	rs148470082		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:223465929G>A	uc001hnx.2	-	2	847	c.213C>T	c.(211-213)AGC>AGT	p.S71S	SUSD4_uc001hny.3_Silent_p.S71S|SUSD4_uc010puw.1_5'UTR|SUSD4_uc001hnz.2_Silent_p.S71S|SUSD4_uc010pux.1_Intron	NM_017982	NP_060452	Q5VX71	SUSD4_HUMAN	sushi domain containing 4 isoform a	71	Sushi 1.|Extracellular (Potential).					integral to membrane					0				GBM - Glioblastoma multiforme(131;0.0611)		AAACCCCTCCGCTGGGGGTCC	0.498													20	127					0	0	0.00632	0	0		A	223465929	A	A	223465929	2	1	25	1	0	0	0	0	0	0	0	1	15435	1078	38	1		1	SUSD4	1	223465929	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	632327	223465929	25784692	98	21098											
CABC1	56997	broad.mit.edu	37	chr1	227174287	227174287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgtcatgctgaggcaccGtctcgtccccccacccgagg	5	7	10	19	4	2	1	1	1	1	0	5	2	4	1	6	2	1	2	6	2	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:227174287G>A	uc001hqm.1	+	20	5212	c.1793G>A	c.(1792-1794)CGT>CAT	p.R598H	CABC1_uc001hqn.1_Missense_Mutation_p.R598H|CABC1_uc009xeq.1_Missense_Mutation_p.R546H|CABC1_uc010pvq.1_Missense_Mutation_p.R319H|CABC1_uc010pvr.1_Missense_Mutation_p.R272H|CABC1_uc001hqo.1_Missense_Mutation_p.R319H|CABC1_uc009xer.1_Missense_Mutation_p.R114H	NM_020247	NP_064632	Q8NI60	ADCK3_HUMAN	chaperone, ABC1 activity of bc1 complex like	598					cell death	mitochondrion	ATP binding|protein serine/threonine kinase activity				0		Prostate(94;0.0771)				CTGAGGCACCGTCTCGTCCCC	0.602													40	185					0	0	0.007835	0	0		A	227174287	A	A	227174287	3	1	25	1	0	0	0	0	1	0	0	0	2530	1145	40	1	1847	1	CABC1	1	227174287	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3708358	227174287	22076334	99	21099											
ARF1	375	broad.mit.edu	37	chr1	228285303	228285303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggcaggcctgatcttcGtggtggacagcaatgacaga	9	7	14	11	2	1	3	0	2	1	1	2	4	1	4	2	4	1	2	2	4	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:228285303G>A	uc001hrr.2	+	4	499	c.271G>A	c.(271-273)GTG>ATG	p.V91M	ARF1_uc001hrs.2_Missense_Mutation_p.V91M|ARF1_uc001hrt.2_Intron|ARF1_uc009xev.2_Intron|ARF1_uc001hru.2_Missense_Mutation_p.V91M|ARF1_uc001hrv.2_Missense_Mutation_p.V91M|ARF1_uc001hrw.2_Missense_Mutation_p.V91M	NM_001024226	NP_001019397	P84077	ARF1_HUMAN	ADP-ribosylation factor 1	91					cellular copper ion homeostasis|COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|protein transport|regulation of defense response to virus by virus|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction|viral reproduction	cytosol|Golgi membrane|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity|protein binding|receptor signaling protein activity				0		Prostate(94;0.0405)				CCTGATCTTCGTGGTGGACAG	0.622													35	167					0	0	0.019004	0	0		A	228285303	A	A	228285303	3	1	25	1	0	0	0	0	1	0	0	0	844	1145	40	1	281	1	ARF1	1	228285303	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1111016	228285303	20965318	100	21100											
ARF1	375	broad.mit.edu	37	chr1	228285355	228285355	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggcccgtgaggagctcaTgaggatgctggccgaggacg	8	5	18	10	4	1	2	1	2	0	0	1	7	1	5	2	5	2	2	2	5	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:228285355T>C	uc001hrr.2	+	4	551	c.323T>C	c.(322-324)ATG>ACG	p.M108T	ARF1_uc001hrs.2_Missense_Mutation_p.M108T|ARF1_uc001hrt.2_Intron|ARF1_uc009xev.2_Intron|ARF1_uc001hru.2_Missense_Mutation_p.M108T|ARF1_uc001hrv.2_Missense_Mutation_p.M108T|ARF1_uc001hrw.2_Missense_Mutation_p.M108T	NM_001024226	NP_001019397	P84077	ARF1_HUMAN	ADP-ribosylation factor 1	108					cellular copper ion homeostasis|COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|protein transport|regulation of defense response to virus by virus|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction|viral reproduction	cytosol|Golgi membrane|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity|protein binding|receptor signaling protein activity				0		Prostate(94;0.0405)				GAGGAGCTCATGAGGATGCTG	0.627													31	132					0	0	0.009535	0	0		C	228285355	C	C	228285355	3	2	25	1	0	0	0	0	1	0	0	0	844	1464	51	3	333	3	ARF1	1	228285355	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	52	228285355	20965266	101	21101											
OBSCN	84033	broad.mit.edu	37	chr1	228481116	228481116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagaaggggcaacagccGtgctgcggtgtgagctgagc	9	5	16	11	2	0	3	0	2	0	1	0	3	0	3	2	3	6	3	2	3	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:228481116G>A	uc009xez.1	+	41	10974	c.10930G>A	c.(10930-10932)GTG>ATG	p.V3644M	OBSCN_uc001hsn.2_Missense_Mutation_p.V3644M|OBSCN_uc001hsq.1_Missense_Mutation_p.V900M	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3644	Ig-like 37.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGCAACAGCCGTGCTGCGGTG	0.587													15	70					0	0	0.007413	0	0		A	228481116	A	A	228481116	3	1	25	1	0	0	0	0	1	0	0	0	10831	1145	40	1	11088	1	OBSCN	1	228481116	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	195761	228481116	20769505	102	21102											
OBSCN	84033	broad.mit.edu	37	chr1	228506705	228506705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaaacgtcgcatgagccGtgagcccacgctggactcca	9	6	12	14	5	0	2	0	2	0	0	3	4	1	4	3	2	3	2	3	2	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:228506705G>A	uc009xez.1	+	54	14296	c.14252G>A	c.(14251-14253)CGT>CAT	p.R4751H	OBSCN_uc001hsn.2_Missense_Mutation_p.R4751H	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4751					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CGCATGAGCCGTGAGCCCACG	0.672													4	18					0	0	0.009096	0	0		A	228506705	A	A	228506705	3	1	25	1	0	0	0	0	1	0	0	0	10831	1145	40	1	14462	1	OBSCN	1	228506705	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	25589	228506705	20743916	103	21103											
OBSCN	84033	broad.mit.edu	37	chr1	228566376	228566376	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggctaacagaggagggcccGgcctgttcgcggcccgcgcc	5	5	16	15	5	0	1	0	0	0	1	1	2	0	2	4	5	1	2	4	5	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:228566376G>A	uc009xez.1	+	105	23831	c.23787G>A	c.(23785-23787)CCG>CCA	p.P7929P	OBSCN_uc001hsr.1_Silent_p.P2558P	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	7929					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGGAGGGCCCGGCCTGTTCGC	0.716													3	27					0	0	0.014758	0	0		A	228566376	A	A	228566376	2	1	25	1	0	0	0	0	0	0	0	1	10831	1103	39	1		1	OBSCN	1	228566376	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	59671	228566376	20684245	104	21104											
HIST3H3	8290	broad.mit.edu	37	chr1	228613002	228613002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgccacccgttgacttgcGcgcagtctgcttggttcggg	3	12	13	13	4	1	1	0	1	1	0	2	1	1	1	2	2	3	4	2	2	0	5	rs147766330		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:228613002G>A	uc001hsx.1	-	1	25	c.25C>T	c.(25-27)CGC>TGC	p.R9C		NM_003493	NP_003484	Q16695	H31T_HUMAN	histone cluster 3, H3	9					nucleosome assembly|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding				0		Prostate(94;0.0724)				GTTGACTTGCGCGCAGTCTGC	0.642													25	92					0	0	0.015359	0	0		A	228613002	A	A	228613002	3	1	25	1	0	0	0	0	1	0	0	0	7200	1087	38	1	389	1	HIST3H3	1	228613002	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	46626	228613002	20637619	105	21105											
RAB4A	5867	broad.mit.edu	37	chr1	229438688	229438688	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgaggtcaccgcggcgCgcacaggccccgaacgctca	8	3	13	17	6	2	1	2	1	0	0	2	2	2	1	3	3	2	3	3	3	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:229438688C>T	uc001hth.2	+	7	829	c.621C>T	c.(619-621)CGC>CGT	p.R207R	RAB4A_uc001hti.2_RNA|RAB4A_uc001htj.2_RNA|SPHAR_uc001htk.3_5'Flank	NM_004578	NP_004569	P20338	RAB4A_HUMAN	RAB4A, member RAS oncogene family	202							GDP binding|GTP binding|GTPase activity			ovary(1)	1	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.178)				CACCGCGGCGCGCACAGGCCC	0.582													32	208					0	0	0.015359	0	0		T	229438688	T	T	229438688	2	4	25	1	0	0	0	0	0	0	0	1	12971	755	27	1		1	RAB4A	1	229438688	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	825686	229438688	19811933	106	21106											
ACTA1	58	broad.mit.edu	37	chr1	229567811	229567811	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatggtgatgacctgcccGtctggcagctcgtagctctt	5	11	12	13	3	2	2	0	2	2	0	3	3	2	2	3	2	3	4	3	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:229567811G>A	uc001htm.2	-	5	843	c.738C>T	c.(736-738)GAC>GAT	p.D246D		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	246					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	TGACCTGCCCGTCTGGCAGCT	0.602													7	18					0	0	0.001984	0	0		A	229567811	A	A	229567811	2	1	25	1	0	0	0	0	0	0	0	1	191	1136	40	1		1	ACTA1	1	229567811	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	129123	229567811	19682810	107	21107											
TAF5L	27097	broad.mit.edu	37	chr1	229750217	229750217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctgaatctgctcggtacGcactcgtttcatgaccttca	8	13	7	13	3	4	2	2	2	2	0	6	2	4	2	1	1	2	4	1	1	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:229750217G>A	uc001htq.2	-	2	179	c.13C>T	c.(13-15)CGT>TGT	p.R5C	TAF5L_uc001htr.2_Missense_Mutation_p.R5C	NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	5					histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				TGCTCGGTACGCACTCGTTTC	0.562													30	105					0	0	0.00632	0	0		A	229750217	A	A	229750217	3	1	25	1	0	0	0	0	1	0	0	0	15554	1087	38	1	1778	1	TAF5L	1	229750217	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	182406	229750217	19500404	108	21108											
URB2	9816	broad.mit.edu	37	chr1	229773794	229773794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catttcccaaggaagcgacaGgacgctgctctcccatgttg	9	9	10	13	2	1	0	0	0	1	0	3	3	2	2	2	2	2	3	2	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:229773794G>A	uc001hts.1	+	4	3570	c.3434G>A	c.(3433-3435)AGG>AAG	p.R1145K	URB2_uc009xfd.1_Missense_Mutation_p.R1145K	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	1145						nucleolus				central_nervous_system(2)|ovary(1)	3						GGAAGCGACAGGACGCTGCTC	0.582													16	110					0	0	0.007413	0	0		A	229773794	A	A	229773794	3	1	25	1	0	0	0	0	1	0	0	0	17051	1000	35	4	3444	4	URB2	1	229773794	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	23577	229773794	19476827	109	21109											
SLC35F3	148641	broad.mit.edu	37	chr1	234367374	234367374	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcaggaagttcgacgcGcccttcaccctcacgtggtt	7	10	9	15	4	3	0	3	0	0	0	4	2	3	1	3	2	0	2	3	2	1	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:234367374G>A	uc001hwa.1	+	2	516	c.288G>A	c.(286-288)GCG>GCA	p.A96A	SLC35F3_uc001hvy.1_Silent_p.A165A	NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	96					transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			AGTTCGACGCGCCCTTCACCC	0.582													86	304					0	0	0.01441	0	0		A	234367374	A	A	234367374	2	1	25	1	0	0	0	0	0	0	0	1	14615	1074	38	1		1	SLC35F3	1	234367374	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4593580	234367374	14883247	110	21110											
NID1	4811	broad.mit.edu	37	chr1	236148772	236148772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtaaaccatcttgtccaCgcagtcaaaggccagtccaa	13	7	7	14	1	2	0	1	0	1	0	4	0	4	0	5	1	1	2	5	1	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:236148772C>T	uc001hxo.2	-	15	3064	c.2962G>A	c.(2962-2964)GTG>ATG	p.V988M	NID1_uc009xgd.2_Missense_Mutation_p.V855M|NID1_uc009xgc.2_Missense_Mutation_p.V74M	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	988					cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	ATCTTGTCCACGCAGTCAAAG	0.428													15	72					0	0	0.004007	0	0		T	236148772	T	T	236148772	3	4	25	1	0	0	0	0	1	0	0	0	10433	536	19	1	805	1	NID1	1	236148772	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1781398	236148772	13101849	111	21111											
RYR2	6262	broad.mit.edu	37	chr1	237656303	237656303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgccacggggttgcagtccGttctaaccagcatctcatct	7	12	9	13	2	3	0	1	0	3	0	5	0	4	0	3	2	4	4	3	2	1	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:237656303G>A	uc001hyl.1	+	19	1997	c.1877G>A	c.(1876-1878)CGT>CAT	p.R626H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	626	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GTTGCAGTCCGTTCTAACCAG	0.403													4	16					0	0	0.009096	0	0		A	237656303	A	A	237656303	3	1	25	1	0	0	0	0	1	0	0	0	13794	1145	40	1	1951	1	RYR2	1	237656303	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1507531	237656303	11594318	112	21112											
RYR2	6262	broad.mit.edu	37	chr1	237947036	237947036	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcttgtggaatcttccaaCaacgtggagatgattctcaa	12	12	9	8	1	2	2	1	1	2	1	4	4	3	3	1	2	3	1	1	2	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:237947036C>T	uc001hyl.1	+	90	12144	c.12024C>T	c.(12022-12024)AAC>AAT	p.N4008N	RYR2_uc010pya.1_Silent_p.N423N	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4008					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AATCTTCCAACAACGTGGAGA	0.368													5	16					0	0	0.001168	0	0		T	237947036	T	T	237947036	2	4	25	1	0	0	0	0	0	0	0	1	13794	477	17	4		4	RYR2	1	237947036	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	290733	237947036	11303585	113	21113											
WDR64	128025	broad.mit.edu	37	chr1	241907814	241907814	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttttgccacaggagcgtaTaatggtcagactaacatcca	12	11	8	10	1	1	1	1	0	0	1	2	2	2	2	2	2	3	1	2	2	3	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:241907814T>C	uc001hze.1	+	12	1767	c.1560T>C	c.(1558-1560)TAT>TAC	p.Y520Y	WDR64_uc001hzf.1_Silent_p.Y240Y			B1ANS9	WDR64_HUMAN	RecName: Full=WD repeat-containing protein 64;	520	WD 7.									skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			CAGGAGCGTATAATGGTCAGA	0.438													29	105					0	0	0.010818	0	0		C	241907814	C	C	241907814	2	2	25	1	0	0	0	0	0	0	0	1	17341	1413	49	3		3	WDR64	1	241907814	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	3960778	241907814	7342807	114	21114											
ZNF695	57116	broad.mit.edu	37	chr1	247151469	247151469	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaatttctcaagacaacaTctttcatatcttctcagcat	12	15	3	11	1	5	1	3	0	4	1	7	1	5	1	0	0	2	2	0	0	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr1:247151469T>A	uc009xgu.2	-	4	493	c.348A>T	c.(346-348)AGA>AGT	p.R116S	ZNF695_uc001ica.2_RNA|ZNF695_uc001icb.1_RNA|ZNF695_uc009xgt.1_RNA|ZNF695_uc001ibx.2_Missense_Mutation_p.R116S|ZNF695_uc001iby.2_Intron|ZNF695_uc001icc.2_Missense_Mutation_p.R104S	NM_020394	NP_065127	Q8IW36	ZN695_HUMAN	zinc finger protein SBZF3	116					regulation of transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			CAAGACAACATCTTTCATATC	0.398													63	252					0	0	0.01441	0	0		A	247151469	A	A	247151469	3	1	25	1	0	0	0	0	1	0	0	0	18123	1432	50	5	1203	5	ZNF695	1	247151469	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	5243655	247151469	2099152	115	21115											
TPO	7173	broad.mit.edu	37	chr2	1418199	1418199	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatgagagcgctcgctgtgCtgtctgtcacgctggttatg	6	12	14	9	3	2	1	1	1	1	1	3	3	2	1	0	1	2	5	0	1	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:1418199C>T	uc002qww.2	+	2	110	c.19C>T	c.(19-21)CTG>TTG	p.L7L	TPO_uc010ewj.2_Intron|TPO_uc010yin.1_Silent_p.L7L|TPO_uc002qwu.2_Silent_p.L7L|TPO_uc002qwr.2_Silent_p.L7L|TPO_uc002qwx.2_Silent_p.L7L|TPO_uc010yio.1_Silent_p.L7L|TPO_uc010yip.1_Silent_p.L7L	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	7					cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	GCTCGCTGTGCTGTCTGTCAC	0.507													9	40					0	0	0.004482	0	0		T	1418199	T	T	1418199	2	4	25	1	0	0	0	0	0	0	0	1	16436	796	28	2		2	TPO	2	1418199	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08		1418199	241781174	116	21116											
KCNF1	3754	broad.mit.edu	37	chr2	11053018	11053018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggacgacctgggcgtggacGcagccgagggccgctggcgc	5	4	19	13	6	0	0	0	0	0	0	0	4	0	2	3	5	1	2	3	5	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:11053018G>A	uc002rax.2	+	1	956	c.466G>A	c.(466-468)GCA>ACA	p.A156T		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	156	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		GGGCGTGGACGCAGCCGAGGG	0.692													24	96					0	0	0.016522	0	0		A	11053018	A	A	11053018	3	1	25	1	0	0	0	0	1	0	0	0	8042	1087	38	1	468	1	KCNF1	2	11053018	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	9634819	11053018	232146355	117	21117											
ATAD2B	54454	broad.mit.edu	37	chr2	24103515	24103515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttagagttgcctacctattgGaggtgcttggtatcgatcca	8	14	11	8	1	0	1	0	0	0	1	2	3	1	2	3	3	3	3	3	3	4	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:24103515G>A	uc002rek.3	-	7	1189	c.895C>T	c.(895-897)CCA>TCA	p.P299S	ATAD2B_uc010yki.1_RNA|ATAD2B_uc010exx.1_Missense_Mutation_p.P313S	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	299							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTACCTATTGGAGGTGCTTGG	0.333													6	31					0	0	0.001984	0	0		A	24103515	A	A	24103515	3	1	25	1	0	0	0	0	1	0	0	0	1073	1174	41	4	3569	4	ATAD2B	2	24103515	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	13050497	24103515	219095858	118	21118											
OTOF	9381	broad.mit.edu	37	chr2	26688695	26688695	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gattccatggggaaggaggcCtcgatgtcaaaggacctggt	10	8	15	8	1	1	0	1	0	0	0	3	5	2	3	3	6	0	0	3	6	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:26688695C>A	uc002rhk.2	-	38	4771	c.4644G>T	c.(4642-4644)GAG>GAT	p.E1548D	OTOF_uc010yla.1_Missense_Mutation_p.E278D|OTOF_uc002rhh.2_Missense_Mutation_p.E781D|OTOF_uc002rhi.2_Missense_Mutation_p.E858D|OTOF_uc002rhj.2_Missense_Mutation_p.E781D	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1548	Cytoplasmic (Potential).|C2 4.				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAAGGAGGCCTCGATGTCAA	0.572													19	86					1.15919e-05	1.19194e-05	0.008871	1	0		A	26688695	A	A	26688695	3	1	25	1	0	0	0	0	1	0	0	0	11322	680	24	5	1570	5	OTOF	2	26688695	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2585180	26688695	216510678	119	21119											
TRIM54	57159	broad.mit.edu	37	chr2	27521604	27521604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catttacaagcaggagtcatCcaggtgagccaccagagtct	12	8	10	11	0	2	2	1	1	1	1	3	3	3	3	3	2	3	1	3	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:27521604C>T	uc002rjo.2	+	2	338	c.338C>T	c.(337-339)TCC>TTC	p.S113F	TRIM54_uc002rjn.2_Missense_Mutation_p.S113F	NM_187841	NP_912730	Q9BYV2	TRI54_HUMAN	ring finger protein 30 isoform 2	113					cell differentiation|microtubule-based process|multicellular organismal development|negative regulation of microtubule depolymerization	microtubule|sarcomere	signal transducer activity|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGGAGTCATCCAGGTGAGCC	0.537													9	54					0	0	0.006214	0	0		T	27521604	T	T	27521604	3	4	25	1	0	0	0	0	1	0	0	0	16554	855	30	4	344	4	TRIM54	2	27521604	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	832909	27521604	215677769	120	21120											
IFT172	26160	broad.mit.edu	37	chr2	27703932	27703932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcataacttcctagcaCaacagactggcccccaggac	11	7	7	16	0	1	1	1	0	0	1	2	2	2	2	4	2	3	1	4	2	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:27703932C>T	uc002rku.2	-	8	817	c.766G>A	c.(766-768)GTG>ATG	p.V256M	IFT172_uc002rkw.2_Missense_Mutation_p.V256M|IFT172_uc010yls.1_Missense_Mutation_p.V235M|IFT172_uc010ezc.2_Missense_Mutation_p.V256M|IFT172_uc002rkv.2_Missense_Mutation_p.V256M	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	256	WD 6.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CTTCCTAGCACAACAGACTGG	0.473													15	59					0	0	0.003163	0	0		T	27703932	T	T	27703932	3	4	25	1	0	0	0	0	1	0	0	0	7573	478	17	4	4647	4	IFT172	2	27703932	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	182328	27703932	215495441	121	21121											
PREPL	9581	broad.mit.edu	37	chr2	44549925	44549925	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttgagtttctcagtataActtacaattcctttcagagg	10	16	6	9	0	2	2	2	1	1	1	5	2	4	2	2	1	2	2	2	1	4	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:44549925A>T	uc002ruf.2	-	12	2000	c.1965T>A	c.(1963-1965)AGT>AGA	p.S655R	PREPL_uc002rug.2_Missense_Mutation_p.S589R|PREPL_uc002ruh.2_Missense_Mutation_p.S593R|PREPL_uc010fax.2_Missense_Mutation_p.S655R|PREPL_uc002rui.3_Missense_Mutation_p.S566R|PREPL_uc002ruj.1_Missense_Mutation_p.S566R|PREPL_uc002ruk.1_Missense_Mutation_p.S655R	NM_006036	NP_006027	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like isoform C	655					proteolysis	cytosol	serine-type endopeptidase activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TCTCAGTATAACTTACAATTC	0.438													29	318					0	0	0.007291	0	0		T	44549925	T	T	44549925	3	4	25	1	0	0	0	0	1	0	0	0	12497	40	2	5	230	5	PREPL	2	44549925	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	16845993	44549925	198649448	122	21122											
TTC7A	57217	broad.mit.edu	37	chr2	47202114	47202114	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctcttcctcccgcaggcCtctctctggaacgcctaccc	5	9	6	21	2	3	0	0	0	3	0	6	1	5	1	6	2	2	1	6	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:47202114C>A	uc002rvo.2	+	4	888	c.520C>A	c.(520-522)CTC>ATC	p.L174I	TTC7A_uc002rvm.2_Missense_Mutation_p.L140I|TTC7A_uc002rvn.1_Missense_Mutation_p.L55I|TTC7A_uc010fbb.2_Missense_Mutation_p.L174I|TTC7A_uc010fbc.2_5'UTR|TTC7A_uc002rvp.2_Missense_Mutation_p.L55I	NM_020458	NP_065191	Q9ULT0	TTC7A_HUMAN	tetratricopeptide repeat domain 7A	174							binding			breast(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)			TCCCGCAGGCCTCTCTCTGGA	0.657													30	124					1.88708e-17	2.03417e-17	0.008361	1	0		A	47202114	A	A	47202114	3	1	25	1	0	0	0	0	1	0	0	0	16738	681	24	5	534	5	TTC7A	2	47202114	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2652189	47202114	195997259	123	21123											
MSH6	2956	broad.mit.edu	37	chr2	48018188	48018188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagaaagggaaatcagtccGtgttcatgtacagttttttg	11	13	11	6	2	2	1	2	0	0	1	3	3	3	2	1	1	1	3	1	1	3	5	rs63750143		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:48018188G>A	uc002rwd.3	+	2	535	c.383G>A	c.(382-384)CGT>CAT	p.R128H	MSH6_uc002rwc.2_Missense_Mutation_p.R128H|MSH6_uc010fbj.2_Translation_Start_Site|MSH6_uc010yoi.1_Intron|MSH6_uc010yoj.1_Translation_Start_Site	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	128	PWWP.		R -> L (no impairment of heterodimerization with MSH2 and of in vitro mismatch repair capacity).		determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AAATCAGTCCGTGTTCATGTA	0.463			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				29	152					0	0	0.013726	0	0		A	48018188	A	A	48018188	3	1	25	1	0	0	0	0	1	0	0	0	9892	1145	40	1	389	1	MSH6	2	48018188	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	816074	48018188	195181185	124	21124											
SPTBN1	6711	broad.mit.edu	37	chr2	54876812	54876812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacattgggcaggagcgcGtggacacggtcaatcacctg	10	6	15	10	3	2	0	2	0	0	0	2	3	2	3	1	5	2	1	1	5	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:54876812G>A	uc002rxu.2	+	26	5512	c.5263G>A	c.(5263-5265)GTG>ATG	p.V1755M	SPTBN1_uc002rxx.2_Missense_Mutation_p.V1742M|SPTBN1_uc002rxy.2_5'Flank	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1755	Interaction with ANK2.|Spectrin 14.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			GCAGGAGCGCGTGGACACGGT	0.552													17	88					0	0	0.004007	0	0		A	54876812	A	A	54876812	3	1	25	1	0	0	0	0	1	0	0	0	15144	1145	40	1	5474	1	SPTBN1	2	54876812	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	6858624	54876812	188322561	125	21125											
EFEMP1	2202	broad.mit.edu	37	chr2	56098226	56098226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaacacatttcatcctcccGgcattcatttgtggtctcac	8	13	5	15	1	3	0	3	0	1	0	6	0	5	0	3	2	1	1	3	2	1	3	rs121434491		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:56098226G>A	uc002rzh.2	-	9	1363	c.1033C>T	c.(1033-1035)CGG>TGG	p.R345W	EFEMP1_uc002rzi.2_Missense_Mutation_p.R345W|EFEMP1_uc002rzj.2_Missense_Mutation_p.R345W|EFEMP1_uc010ypc.1_Missense_Mutation_p.R207W	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	345	Mediates interaction with TIMP3.|EGF-like 6; calcium-binding (Potential).		R -> W (in DHRD; misfolded, accumulates in cells due to inefficient secretion; induces the formation of deposits between Bruch's membrane and the retinal pigment epithelium where it accumulates).		negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity	p.R345W(1)		ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TCATCCTCCCGGCATTCATTT	0.368													21	97					0	0	0.021523	0	0		A	56098226	A	A	56098226	3	1	25	1	0	0	0	0	1	0	0	0	4947	1115	39	1	460	1	EFEMP1	2	56098226	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1221414	56098226	187101147	126	21126											
CCDC85A	114800	broad.mit.edu	37	chr2	56420402	56420402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcatctccccagagccagggGcaccagcccggagcacctca	9	3	11	18	1	2	1	1	0	1	1	3	2	2	2	6	3	3	3	6	3	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:56420402G>A	uc002rzn.2	+	2	1569	c.1067G>A	c.(1066-1068)GGC>GAC	p.G356D		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	356	His-rich.									breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			AGAGCCAGGGGCACCAGCCCG	0.637													11	65					0	0	0.010729	0	0		A	56420402	A	A	56420402	3	1	25	1	0	0	0	0	1	0	0	0	2862	1203	42	2	1073	2	CCDC85A	2	56420402	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	322176	56420402	186778971	127	21127											
MDH1	4190	broad.mit.edu	37	chr2	63832498	63832498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaagccatctgtgaccacGtcagggacatctggtttgga	11	9	11	10	1	3	1	1	1	2	0	3	3	3	3	2	3	1	1	2	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:63832498G>A	uc002scj.1	+	7	816	c.760G>A	c.(760-762)GTC>ATC	p.V254I	MDH1_uc010ypv.1_Missense_Mutation_p.V272I|MDH1_uc010ypw.1_Missense_Mutation_p.V159I	NM_005917	NP_005908	P40925	MDHC_HUMAN	cytosolic malate dehydrogenase	254					gluconeogenesis|tricarboxylic acid cycle	centrosome|cytosol	L-malate dehydrogenase activity|malic enzyme activity			kidney(2)	2					NADH(DB00157)	CTGTGACCACGTCAGGGACAT	0.468													16	86					0	0	0.007413	0	0		A	63832498	A	A	63832498	3	1	25	1	0	0	0	0	1	0	0	0	9426	1145	40	1	786	1	MDH1	2	63832498	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	7412096	63832498	179366875	128	21128											
PROKR1	10887	broad.mit.edu	37	chr2	68873189	68873189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	catgctggtctgcggcattgGaaacttcatctttatcgctg	7	14	10	10	2	3	0	1	0	2	0	4	1	3	1	0	3	3	3	0	3	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:68873189G>A	uc010yqj.1	+	1	236	c.236G>A	c.(235-237)GGA>GAA	p.G79E	PROKR1_uc002ses.2_RNA	NM_138964	NP_620414	Q8TCW9	PKR1_HUMAN	G protein-coupled receptor 73	79	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1						TGCGGCATTGGAAACTTCATC	0.537													58	277					0	0	0.01441	0	0		A	68873189	A	A	68873189	3	1	25	1	0	0	0	0	1	0	0	0	12574	1174	41	4	238	4	PROKR1	2	68873189	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5040691	68873189	174326184	129	21129											
ARHGAP25	9938	broad.mit.edu	37	chr2	69014990	69014990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctcatgggaccagaatcGcatgggacaggactcctatg	11	7	12	11	1	1	1	1	0	0	1	3	4	2	4	3	3	1	1	3	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:69014990G>A	uc002seu.2	+	4	732	c.368G>A	c.(367-369)CGC>CAC	p.R123H	ARHGAP25_uc010yqk.1_Missense_Mutation_p.R97H|ARHGAP25_uc010fdg.2_Missense_Mutation_p.R123H|ARHGAP25_uc010yql.1_Intron|ARHGAP25_uc002sev.2_Missense_Mutation_p.R116H|ARHGAP25_uc002sew.2_Missense_Mutation_p.R116H|ARHGAP25_uc002sex.2_Missense_Mutation_p.R116H|ARHGAP25_uc010fdh.1_RNA	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	123	PH.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						GACCAGAATCGCATGGGACAG	0.522													37	208					0	0	0.00623	0	0		A	69014990	A	A	69014990	3	1	25	1	0	0	0	0	1	0	0	0	874	1087	38	1	422	1	ARHGAP25	2	69014990	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	141801	69014990	174184383	130	21130											
ARHGAP25	9938	broad.mit.edu	37	chr2	69034552	69034552	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccgtctgcctgggcaggAcaacctggtgaagcagctga	8	8	13	12	1	1	2	0	2	1	0	2	3	2	3	3	3	4	3	3	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:69034552A>G	uc002seu.2	+	5	975	c.611A>G	c.(610-612)GAC>GGC	p.D204G	ARHGAP25_uc010yqk.1_Missense_Mutation_p.D179G|ARHGAP25_uc010fdg.2_Missense_Mutation_p.D205G|ARHGAP25_uc010yql.1_Missense_Mutation_p.D165G|ARHGAP25_uc002sev.2_Missense_Mutation_p.D198G|ARHGAP25_uc002sew.2_Missense_Mutation_p.D197G|ARHGAP25_uc002sex.2_Missense_Mutation_p.D198G|ARHGAP25_uc010fdh.1_RNA|ARHGAP25_uc002sey.2_5'UTR	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	204	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						CCTGGGCAGGACAACCTGGTG	0.607													29	113					0	0	0.007291	0	0		G	69034552	G	G	69034552	3	3	25	1	0	0	0	0	1	0	0	0	874	275	10	3	672	3	ARHGAP25	2	69034552	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	19562	69034552	174164821	131	21131											
TGFA	7039	broad.mit.edu	37	chr2	70741999	70741999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgcactcaccactcagcGgggacgtgctgttctccaag	8	8	11	14	2	3	0	2	0	1	0	4	1	3	1	2	2	4	4	2	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:70741999G>A	uc002sgs.3	-	2	292	c.86C>T	c.(85-87)CCG>CTG	p.P29L	TGFA_uc010fdq.2_Missense_Mutation_p.P35L|TGFA_uc010fdr.2_Missense_Mutation_p.P35L|TGFA_uc002sgt.3_Missense_Mutation_p.P29L|TGFA_uc002sgu.2_Missense_Mutation_p.P29L|TGFA_uc002sgv.2_Missense_Mutation_p.P29L|TGFA_uc002sgw.2_Missense_Mutation_p.P29L	NM_003236	NP_003227	P01135	TGFA_HUMAN	transforming growth factor, alpha isoform 1	29	Extracellular (Potential).				activation of MAPK activity|cell proliferation|positive regulation of cell division|positive regulation of epidermal growth factor receptor activity|positive regulation of epithelial cell proliferation|positive regulation of mitosis	cell surface|extracellular space|integral to membrane|plasma membrane	epidermal growth factor receptor binding|growth factor activity|MAP kinase kinase activity|signal transducer activity			prostate(1)	1						ACCACTCAGCGGGGACGTGCT	0.607													4	27					0	0	0.001168	0	0		A	70741999	A	A	70741999	3	1	25	1	0	0	0	0	1	0	0	0	15840	1116	39	1	416	1	TGFA	2	70741999	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1707447	70741999	172457374	132	21132											
ALMS1	7840	broad.mit.edu	37	chr2	73681186	73681186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaagaggaaagccgggtacGagcacatggtaagaagaaag	17	3	16	5	2	0	3	0	0	0	3	0	6	0	5	1	4	3	3	1	4	6	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:73681186G>A	uc002sje.1	+	10	7646	c.7535G>A	c.(7534-7536)CGA>CAA	p.R2512Q	ALMS1_uc002sjf.1_Missense_Mutation_p.R2468Q|ALMS1_uc002sjg.2_Missense_Mutation_p.R1898Q|ALMS1_uc002sjh.1_Missense_Mutation_p.R1898Q	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2510					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AGCCGGGTACGAGCACATGGT	0.368													5	20					0	0	0.001168	0	0		A	73681186	A	A	73681186	3	1	25	1	0	0	0	0	1	0	0	0	535	1058	37	1	7559	1	ALMS1	2	73681186	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2939187	73681186	169518187	133	21133											
THNSL2	55258	broad.mit.edu	37	chr2	88482275	88482275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctggtcgtggcagtgaaccGcaatgacatcatccacagga	11	8	11	11	2	2	2	1	2	1	0	4	3	3	3	2	3	1	2	2	3	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:88482275G>A	uc002ssz.3	+	6	1013	c.860G>A	c.(859-861)CGC>CAC	p.R287H	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_Missense_Mutation_p.R287H|THNSL2_uc002ssx.3_Intron|THNSL2_uc002sta.3_Missense_Mutation_p.R129H|THNSL2_uc002ssy.3_Missense_Mutation_p.R287H|THNSL2_uc010fhe.2_Missense_Mutation_p.R129H	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	287					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						GCAGTGAACCGCAATGACATC	0.463													30	97					0	0	0.015359	0	0		A	88482275	A	A	88482275	3	1	25	1	0	0	0	0	1	0	0	0	15888	1087	38	1	878	1	THNSL2	2	88482275	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	14801089	88482275	154717098	134	21134											
NCAPH	23397	broad.mit.edu	37	chr2	97019989	97019989	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcaatgctgaagttgaCgagagtgactgtggagactt	12	10	13	6	1	1	5	1	3	0	2	1	8	1	5	0	1	1	2	0	1	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:97019989C>T	uc002svz.1	+	9	1155	c.1071C>T	c.(1069-1071)GAC>GAT	p.D357D	NCAPH_uc010fhu.1_Silent_p.D333D|NCAPH_uc010fhv.1_Silent_p.D346D|NCAPH_uc010yum.1_Silent_p.D333D|NCAPH_uc010fhw.1_Silent_p.D346D|NCAPH_uc010yun.1_Silent_p.D221D|NCAPH_uc002swa.1_Translation_Start_Site	NM_015341	NP_056156	Q15003	CND2_HUMAN	non-SMC condensin I complex, subunit H	357					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|microtubule cytoskeleton|nucleus				urinary_tract(1)|skin(1)	2		Ovarian(717;0.0221)				CTGAAGTTGACGAGAGTGACT	0.498													71	259					0	0	0.01441	0	0		T	97019989	T	T	97019989	2	4	25	1	0	0	0	0	0	0	0	1	10228	535	19	1		1	NCAPH	2	97019989	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	8537714	97019989	146179384	135	21135											
ANKRD36	375248	broad.mit.edu	37	chr2	97911237	97911237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtagactgaatgctgctcGatgtgatcatgatcaaagtc	11	13	10	7	1	2	4	2	3	0	1	4	5	2	4	0	0	2	3	0	0	3	2	rs147946942	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:97911237G>A	uc010yva.1	+	71	5157	c.4913G>A	c.(4912-4914)CGA>CAA	p.R1638Q	ANKRD36_uc002sxr.1_Missense_Mutation_p.R462Q|ANKRD36_uc002sxt.1_RNA	NM_001164315	NP_001157787	A6QL64	AN36A_HUMAN	ankyrin repeat domain 36	1638	Potential.										0						AATGCTGCTCGATGTGATCAT	0.418													19	206					0	0	0.009535	0	0		A	97911237	A	A	97911237	3	1	25	1	0	0	0	0	1	0	0	0	665	1058	37	1	5195	1	ANKRD36	2	97911237	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	891248	97911237	145288136	136	21136											
C2orf55	343990	broad.mit.edu	37	chr2	99439344	99439344	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctctcgggctccgtctcCgcttctctctcgggctcagg	1	12	10	18	4	5	0	1	0	4	0	11	0	6	0	3	3	0	3	3	3	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:99439344C>T	uc002szf.1	-	7	1686	c.1392G>A	c.(1390-1392)GCG>GCA	p.A464A		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	464	Pro-rich.										0						GCTCCGTCTCCGCTTCTCTCT	0.602													16	49					0	0	0.007413	0	0		T	99439344	T	T	99439344	2	4	25	1	0	0	0	0	0	0	0	1	2179	639	23	1		1	C2orf55	2	99439344	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1528107	99439344	143760029	137	21137											
EIF5B	9669	broad.mit.edu	37	chr2	100010862	100010862	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaaacatcagaagtgcccGtaagtaactacaactcgctc	15	8	7	11	2	1	2	1	1	0	1	3	2	1	2	1	0	5	3	1	0	7	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:100010862G>A	uc002tab.2	+	19	3196	c.3012_splice	c.e19+1	p.P1004_splice	EIF5B_uc010yvq.1_Splice_Site	NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B						regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						AGAAGTGCCCGTAAGTAACTA	0.423													38	165					0	0	0.017118	0	0		A	100010862	A	A	100010862	5	1	25	1	0	0	0	0	0	0	1	0	5052	1159	40	1	3087	1	EIF5B	2	100010862	Splice_Site	SNP	G	TCGA-BR-4370-01A-01D-1158-08	571518	100010862	143188511	138	21138											
CREG2	200407	broad.mit.edu	37	chr2	101967439	101967439	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccttgaaatactggatgcGcctccataccatttctgaag	10	12	7	12	1	1	2	0	2	1	0	3	3	3	3	4	1	3	0	4	1	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:101967439G>A	uc002tba.2	-	4	865	c.819C>T	c.(817-819)GGC>GGT	p.G273G		NM_153836	NP_722578	Q8IUH2	CREG2_HUMAN	cellular repressor of E1A-stimulated genes 2	273						extracellular region	FMN binding			ovary(1)	1						TACTGGATGCGCCTCCATACC	0.448													26	228					0	0	0.004656	0	0		A	101967439	A	A	101967439	2	1	25	1	0	0	0	0	0	0	0	1	3868	1074	38	1		1	CREG2	2	101967439	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1956577	101967439	141231934	139	21139											
NCK2	8440	broad.mit.edu	37	chr2	106498310	106498310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcctcgtccccaaaaactaCgtggtggtcctcagtgacgg	8	8	12	13	3	1	1	1	1	0	0	4	1	3	1	4	4	2	0	4	4	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:106498310C>T	uc002tdg.2	+	4	1195	c.753C>T	c.(751-753)TAC>TAT	p.Y251Y	NCK2_uc002tdh.2_Intron|NCK2_uc002tdi.2_Silent_p.Y251Y	NM_003581	NP_003572	O43639	NCK2_HUMAN	NCK adaptor protein 2 isoform A	251	SH3 3.				axon guidance|epidermal growth factor receptor signaling pathway|negative regulation of cell proliferation|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of epidermal growth factor receptor activity|regulation of translation|signal complex assembly|T cell activation	cytosol|endoplasmic reticulum	cytoskeletal adaptor activity|receptor signaling complex scaffold activity			ovary(1)|lung(1)	2						CCAAAAACTACGTGGTGGTCC	0.647													24	120					0	0	0.021523	0	0		T	106498310	T	T	106498310	2	4	25	1	0	0	0	0	0	0	0	1	10239	547	19	1		1	NCK2	2	106498310	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4530871	106498310	136701063	140	21140											
UXS1	80146	broad.mit.edu	37	chr2	106715192	106715192	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaaggtttttaattaacTgagcaaattctaggattgtg	14	14	8	5	0	1	1	0	1	1	0	1	2	1	2	0	2	3	2	0	2	6	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:106715192T>C	uc002tdm.2	-	13	1105	c.1007A>G	c.(1006-1008)CAG>CGG	p.Q336R	UXS1_uc002tdk.2_5'Flank|UXS1_uc002tdl.2_Missense_Mutation_p.Q168R|UXS1_uc002tdn.2_Missense_Mutation_p.Q341R|UXS1_uc002tdo.2_Missense_Mutation_p.Q279R	NM_025076	NP_079352	Q8NBZ7	UXS1_HUMAN	UDP-glucuronate decarboxylase 1	336	Lumenal (Potential).				cellular metabolic process	Golgi cisterna membrane|integral to membrane	coenzyme binding|UDP-glucuronate decarboxylase activity			ovary(2)	2						TTTAATTAACTGAGCAAATTC	0.418													5	20					0	0	0.014758	0	0		C	106715192	C	C	106715192	3	2	25	1	0	0	0	0	1	0	0	0	17135	1580	55	3	267	3	UXS1	2	106715192	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	216882	106715192	136484181	141	21141											
ST6GAL2	84620	broad.mit.edu	37	chr2	107423342	107423342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggcacagctccgtctgcCgcacggatgggatatattca	9	9	12	11	3	2	0	1	0	1	0	3	2	3	2	2	3	2	3	2	3	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:107423342C>T	uc002tdq.2	-	6	1501	c.1382G>A	c.(1381-1383)CGG>CAG	p.R461Q	ST6GAL2_uc002tdr.2_Missense_Mutation_p.R461Q	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	461	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						CTCCGTCTGCCGCACGGATGG	0.517													18	60					0	0	0.007413	0	0		T	107423342	T	T	107423342	3	4	25	1	0	0	0	0	1	0	0	0	15247	652	23	1	211	1	ST6GAL2	2	107423342	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	708150	107423342	135776031	142	21142											
ACOXL	55289	broad.mit.edu	37	chr2	111691125	111691125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaggagctggtcaacagtcGctcgctgcaggctctggtgg	8	8	15	10	2	2	0	1	0	1	0	4	1	2	1	0	5	3	5	0	5	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:111691125G>A	uc002tgr.3	+	12	1189	c.965G>A	c.(964-966)CGC>CAC	p.R322H	ACOXL_uc010fkc.2_Missense_Mutation_p.R322H|ACOXL_uc010yxk.1_Missense_Mutation_p.R322H	NM_001105516	NP_001098986	Q9NUZ1	ACOXL_HUMAN	acyl-Coenzyme A oxidase-like 2	322					fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0						GTCAACAGTCGCTCGCTGCAG	0.622													17	81					0	0	0.006122	0	0		A	111691125	A	A	111691125	3	1	25	1	0	0	0	0	1	0	0	0	161	1087	38	1	1007	1	ACOXL	2	111691125	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4267783	111691125	131508248	143	21143											
FBLN7	129804	broad.mit.edu	37	chr2	112942900	112942900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcggcaatgtgagctacGtgaagacgtctccattgtga	10	9	13	9	3	1	4	0	3	1	1	2	4	1	4	1	1	3	3	1	1	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:112942900G>A	uc002tho.1	+	7	1202	c.931G>A	c.(931-933)GTG>ATG	p.V311M	FBLN7_uc002thn.2_Missense_Mutation_p.V311M|FBLN7_uc010fki.1_Missense_Mutation_p.V265M|FBLN7_uc010fkj.1_Missense_Mutation_p.V177M	NM_153214	NP_694946	Q53RD9	FBLN7_HUMAN	fibulin 7 isoform 1	311	EGF-like 3; calcium-binding (Potential).				cell adhesion	proteinaceous extracellular matrix	calcium ion binding|heparin binding			ovary(1)|central_nervous_system(1)	2						TGTGAGCTACGTGAAGACGTC	0.612													16	106					0	0	0.00499	0	0		A	112942900	A	A	112942900	3	1	25	1	0	0	0	0	1	0	0	0	5715	1145	40	1	957	1	FBLN7	2	112942900	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1251775	112942900	130256473	144	21144											
EN1	2019	broad.mit.edu	37	chr2	119604372	119604372	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgcagccaccagaagctgCggtggcggctgctccttttt	5	9	13	14	3	0	1	0	0	0	1	1	1	1	1	4	3	4	4	4	3	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:119604372C>T	uc002tlm.2	-	1	1388	c.372G>A	c.(370-372)CCG>CCA	p.P124P		NM_001426	NP_001417	Q05925	HME1_HUMAN	engrailed homeobox 1	124					skeletal system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|lung(1)	2						CCAGAAGCTGCGGTGGCGGCT	0.667													6	30					0	0	0.008871	0	0		T	119604372	T	T	119604372	2	4	25	1	0	0	0	0	0	0	0	1	5117	755	27	1		1	EN1	2	119604372	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6661472	119604372	123595001	145	21145											
WDR33	55339	broad.mit.edu	37	chr2	128477227	128477227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaggaccctggttctccCgggggcctggaggcccctgc	4	6	16	15	1	1	0	0	0	1	0	2	3	1	2	5	6	2	2	5	6	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:128477227C>T	uc002tpg.1	-	16	2555	c.2372G>A	c.(2371-2373)CGG>CAG	p.R791Q		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	791					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		CTGGTTCTCCCGGGGGCCTGG	0.612													18	77					0	0	0.00499	0	0		T	128477227	T	T	128477227	3	4	25	1	0	0	0	0	1	0	0	0	17313	652	23	1	1666	1	WDR33	2	128477227	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	8872855	128477227	114722146	146	21146											
ACMSD	130013	broad.mit.edu	37	chr2	135625178	135625178	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggctgaagtgttccctgttCgtgcatccctgggacatgca	7	11	12	11	1	0	1	0	1	0	0	3	2	2	2	2	2	2	5	2	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:135625178C>T	uc002ttz.2	+	6	583	c.516C>T	c.(514-516)TTC>TTT	p.F172F	ACMSD_uc002tua.2_Silent_p.F114F|uc010zbe.1_RNA	NM_138326	NP_612199	Q8TDX5	ACMSD_HUMAN	aminocarboxymuconate semialdehyde decarboxylase	172					quinolinate metabolic process|tryptophan catabolic process	cytosol	aminocarboxymuconate-semialdehyde decarboxylase activity|metal ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.115)		GTTCCCTGTTCGTGCATCCCT	0.507													41	157					0	0	0.009718	0	0		T	135625178	T	T	135625178	2	4	25	1	0	0	0	0	0	0	0	1	144	883	31	1		1	ACMSD	2	135625178	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7147951	135625178	107574195	147	21147											
FAP	2191	broad.mit.edu	37	chr2	163055294	163055294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaagtgcatagtacttggCgtagtcgctgaaacttgctg	10	11	12	8	2	0	1	0	1	0	0	1	2	0	1	0	1	4	5	0	1	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:163055294C>T	uc002ucd.2	-	16	1583	c.1375G>A	c.(1375-1377)GCC>ACC	p.A459T	FAP_uc010fpc.2_5'UTR|FAP_uc010zct.1_Missense_Mutation_p.A434T|FAP_uc010fpd.2_5'UTR	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	459	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						TAGTACTTGGCGTAGTCGCTG	0.463													25	103					0	0	0.01892	0	0		T	163055294	T	T	163055294	3	4	25	1	0	0	0	0	1	0	0	0	5687	768	27	1	951	1	FAP	2	163055294	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	27430116	163055294	80144079	148	21148											
SCN3A	6328	broad.mit.edu	37	chr2	165956828	165956828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccctcatgccttcaaacCgggataaggctcttagaggt	10	11	9	11	1	3	1	2	0	1	1	3	2	3	2	3	3	3	1	3	3	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:165956828C>T	uc002ucx.2	-	22	4442	c.3950G>A	c.(3949-3951)CGG>CAG	p.R1317Q	SCN3A_uc002ucy.2_Missense_Mutation_p.R1268Q|SCN3A_uc002ucz.2_Missense_Mutation_p.R1268Q|SCN3A_uc002uda.1_Missense_Mutation_p.R1137Q|SCN3A_uc002udb.1_Missense_Mutation_p.R1137Q	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1317	Helical; Voltage-sensor; Name=S4 of repeat III; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	GCCTTCAAACCGGGATAAGGC	0.403													20	98					0	0	0.012319	0	0		T	165956828	T	T	165956828	3	4	25	1	0	0	0	0	1	0	0	0	13943	652	23	1	2080	1	SCN3A	2	165956828	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2901534	165956828	77242545	149	21149											
SCN3A	6328	broad.mit.edu	37	chr2	165984285	165984285	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taatcattttcatcgattacGtatttttcaacactgcttcc	10	18	3	10	2	3	0	3	0	0	0	5	1	4	0	1	0	3	2	1	0	4	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:165984285G>A	uc002ucx.2	-	18	3741	c.3249C>T	c.(3247-3249)TAC>TAT	p.Y1083Y	SCN3A_uc002ucy.2_Silent_p.Y1034Y|SCN3A_uc002ucz.2_Silent_p.Y1034Y|SCN3A_uc002uda.1_Silent_p.Y903Y|SCN3A_uc002udb.1_Silent_p.Y903Y	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1083						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	CATCGATTACGTATTTTTCAA	0.378													33	126					0	0	0.010818	0	0		A	165984285	A	A	165984285	2	1	25	1	0	0	0	0	0	0	0	1	13943	1140	40	1		1	SCN3A	2	165984285	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	27457	165984285	77215088	150	21150											
CYBRD1	79901	broad.mit.edu	37	chr2	172409896	172409896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctgcttccatgggctcCgctttctctccgagcatttc	3	16	7	15	2	2	0	0	0	2	0	7	1	5	0	3	1	2	4	3	1	0	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:172409896C>T	uc002ugy.3	+	3	633	c.443C>T	c.(442-444)CCG>CTG	p.P148L	CYBRD1_uc002ugz.3_Silent_p.S78S	NM_024843	NP_079119	Q53TN4	CYBR1_HUMAN	cytochrome b reductase 1 isoform 1	148	Cytochrome b561.				cellular iron ion homeostasis|electron transport chain|transmembrane transport	integral to membrane	ferric-chelate reductase activity|metal ion binding				0						CCATGGGCTCCGCTTTCTCTC	0.363													7	161					0	0	0.00308	0	0		T	172409896	T	T	172409896	3	4	25	1	0	0	0	0	1	0	0	0	4137	652	23	1	453	1	CYBRD1	2	172409896	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6425611	172409896	70789477	151	21151											
ZAK	51776	broad.mit.edu	37	chr2	174074513	174074513	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtccatgtcaaatgacacGagccttcctgacaagtgtaa	13	9	9	10	1	1	2	1	2	0	0	3	4	3	2	3	0	1	1	3	0	3	2	rs145549000		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:174074513G>A	uc002uhz.2	+	10	1001	c.801G>A	c.(799-801)ACG>ACA	p.T267T	ZAK_uc002uhx.2_Silent_p.T267T|ZAK_uc002uhy.2_Silent_p.T267T|ZAK_uc010zei.1_Silent_p.T166T|ZAK_uc002uia.1_Silent_p.T267T|uc002uib.2_RNA	NM_016653	NP_057737	Q9NYL2	MLTK_HUMAN	MLK-related kinase isoform 1	267	Protein kinase.				activation of JUN kinase activity|activation of MAPKK activity|cell cycle arrest|cell death|cell differentiation|cell proliferation|DNA damage checkpoint|positive regulation of apoptosis|response to radiation	cytoplasm|nucleus	ATP binding|identical protein binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			lung(3)|stomach(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.176)			CAAATGACACGAGCCTTCCTG	0.468													11	127					0	0	0.020292	0	0		A	174074513	A	A	174074513	2	1	25	1	0	0	0	0	0	0	0	1	17538	1045	37	1		1	ZAK	2	174074513	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1664617	174074513	69124860	152	21152											
SP3	6670	broad.mit.edu	37	chr2	174774779	174774779	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaacagttcctatccctgAaacagaaccttgttgaatat	14	13	5	9	0	0	3	0	2	0	1	2	3	2	3	3	0	3	2	3	0	6	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:174774779A>G	uc002uig.2	-	7	2400	c.2236T>C	c.(2236-2238)TCA>CCA	p.S746P	SP3_uc002uie.2_Missense_Mutation_p.S678P|SP3_uc002uif.2_Missense_Mutation_p.S693P|SP3_uc010zel.1_Missense_Mutation_p.S743P	NM_003111	NP_003102	Q02447	SP3_HUMAN	Sp3 transcription factor isoform 1	746					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	protein binding|zinc ion binding		EWSR1/SP3(3)	soft_tissue(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.185)			CCTATCCCTGAAACAGAACCT	0.433													40	131					0	0	0.021022	0	0		G	174774779	G	G	174774779	3	3	25	1	0	0	0	0	1	0	0	0	14990	246	9	3	113	3	SP3	2	174774779	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	700266	174774779	68424594	153	21153											
EVX2	344191	broad.mit.edu	37	chr2	176948177	176948177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgctcatgtcggcctcagCggccgcctctgaataatggc	6	9	12	14	3	3	1	2	1	1	0	4	1	3	1	3	3	2	2	3	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:176948177C>T	uc010zeu.1	-	1	514	c.328G>A	c.(328-330)GCT>ACT	p.A110T		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	110						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		TCGGCCTCAGCGGCCGCCTCT	0.657													7	27					0	0	0.004482	0	0		T	176948177	T	T	176948177	3	4	25	1	0	0	0	0	1	0	0	0	5303	768	27	1	1112	1	EVX2	2	176948177	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2173398	176948177	66251196	154	21154											
TTN	7273	broad.mit.edu	37	chr2	179391930	179391930	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttccaccacaggaccatgTtacttctggggtaggctcac	8	11	9	13	0	3	0	1	0	2	0	4	1	4	1	3	4	1	3	3	4	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:179391930T>C	uc010zfg.1	-	312	100305	c.100081A>G	c.(100081-100083)ACA>GCA	p.T33361A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T27056A|TTN_uc010zfi.1_Missense_Mutation_p.T26989A|TTN_uc010zfj.1_Missense_Mutation_p.T26864A|TTN_uc002umq.2_Missense_Mutation_p.T277A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34288							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGGACCATGTTACTTCTGGG	0.463													6	52					0	0	0.001168	0	0		C	179391930	C	C	179391930	3	2	25	1	0	0	0	0	1	0	0	0	16761	1725	60	3	194	3	TTN	2	179391930	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	2443753	179391930	63807443	155	21155											
TTN	7273	broad.mit.edu	37	chr2	179395635	179395635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atttcacccgaggctctgggGatttgactcttggtggtgat	6	14	13	8	1	3	2	1	2	2	0	3	4	3	3	1	5	0	1	1	5	0	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:179395635G>A	uc010zfg.1	-	307	98227	c.98003C>T	c.(98002-98004)TCC>TTC	p.S32668F	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S26363F|TTN_uc010zfi.1_Missense_Mutation_p.S26296F|TTN_uc010zfj.1_Missense_Mutation_p.S26171F|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33595							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGGCTCTGGGGATTTGACTCT	0.478													48	218					0	0	0.01441	0	0		A	179395635	A	A	179395635	3	1	25	1	0	0	0	0	1	0	0	0	16761	1174	41	4	2292	4	TTN	2	179395635	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3705	179395635	63803738	156	21156											
TTN	7273	broad.mit.edu	37	chr2	179426759	179426759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgtttgaaacacataattCataagttccaacatcttcct	14	14	3	10	0	2	1	1	1	1	0	4	1	4	1	2	0	2	2	2	0	4	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:179426759C>T	uc010zfg.1	-	275	76620	c.76396G>A	c.(76396-76398)GAA>AAA	p.E25466K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E19161K|TTN_uc010zfi.1_Missense_Mutation_p.E19094K|TTN_uc010zfj.1_Missense_Mutation_p.E18969K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26393							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACACATAATTCATAAGTTCCA	0.373													7	42					0	0	0.001984	0	0		T	179426759	T	T	179426759	3	4	25	1	0	0	0	0	1	0	0	0	16761	835	29	4	24027	4	TTN	2	179426759	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	31124	179426759	63772614	157	21157											
TTN	7273	broad.mit.edu	37	chr2	179428010	179428010	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggagtgcaggttgtccAttcatccgcagcagcttctt	6	13	12	10	1	2	0	1	0	1	0	4	1	4	1	2	3	3	5	2	3	0	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:179428010A>G	uc010zfg.1	-	275	75369	c.75145T>C	c.(75145-75147)TGG>CGG	p.W25049R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.W18744R|TTN_uc010zfi.1_Missense_Mutation_p.W18677R|TTN_uc010zfj.1_Missense_Mutation_p.W18552R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25976							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGGTTGTCCATTCATCCGCA	0.448													29	140					0	0	0.00632	0	0		G	179428010	G	G	179428010	3	3	25	1	0	0	0	0	1	0	0	0	16761	217	8	3	25278	3	TTN	2	179428010	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1251	179428010	63771363	158	21158											
TTN	7273	broad.mit.edu	37	chr2	179440367	179440367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacacccttcagacaagcCggtaactttatatgtgcatt	11	13	6	11	1	2	1	2	0	0	1	2	1	2	1	2	1	3	2	2	1	4	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:179440367C>T	uc010zfg.1	-	275	63012	c.62788G>A	c.(62788-62790)GGC>AGC	p.G20930S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G14625S|TTN_uc010zfi.1_Missense_Mutation_p.G14558S|TTN_uc010zfj.1_Missense_Mutation_p.G14433S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21857							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCAGACAAGCCGGTAACTTTA	0.418													45	92					0	0	0.013114	0	0		T	179440367	T	T	179440367	3	4	25	1	0	0	0	0	1	0	0	0	16761	652	23	1	37635	1	TTN	2	179440367	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	12357	179440367	63759006	159	21159											
TTN	7273	broad.mit.edu	37	chr2	179472567	179472567	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcggtccttcccctgcGgcattgacagcactcacccg	6	7	10	18	3	1	1	1	1	0	0	3	1	3	1	5	3	2	2	5	3	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:179472567G>A	uc010zfg.1	-	225	45467	c.45243C>T	c.(45241-45243)GCC>GCT	p.A15081A	uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.A8776A|TTN_uc010zfi.1_Silent_p.A8709A|TTN_uc010zfj.1_Silent_p.A8584A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16008							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTCCCCTGCGGCATTGACAG	0.463													46	172					0	0	0.01441	0	0		A	179472567	A	A	179472567	2	1	25	1	0	0	0	0	0	0	0	1	16761	1103	39	1		1	TTN	2	179472567	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	32200	179472567	63726806	160	21160											
PDE1A	5136	broad.mit.edu	37	chr2	183094749	183094749	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaccatgatacctgtatgaAgcattatgtaatgcacagtt	13	14	7	7	0	0	2	0	2	0	0	0	2	0	2	2	0	4	5	2	0	6	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:183094749A>C	uc002uos.2	-	7	791	c.707T>G	c.(706-708)CTT>CGT	p.L236R	PDE1A_uc010zfp.1_Missense_Mutation_p.L132R|PDE1A_uc002uoq.1_Missense_Mutation_p.L236R|PDE1A_uc010zfq.1_Missense_Mutation_p.L236R|PDE1A_uc002uor.2_Missense_Mutation_p.L220R|PDE1A_uc002uou.2_Missense_Mutation_p.L202R	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	236	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			ACCTGTATGAAGCATTATGTA	0.348													22	83					0	0	0.01892	0	0		C	183094749	C	C	183094749	3	2	25	1	0	0	0	0	1	0	0	0	11652	72	3	5	1014	5	PDE1A	2	183094749	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	3622182	183094749	60104624	161	21161											
FRZB	2487	broad.mit.edu	37	chr2	183731002	183731002	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcaatggtgcagatgggCgcgtacatggcacagaggaa	13	6	15	7	2	1	2	1	0	0	2	1	3	1	3	0	4	2	3	0	4	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:183731002C>T	uc002upa.1	-	1	497	c.279G>A	c.(277-279)GCG>GCA	p.A93A		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein precursor	93	FZ.				brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)			TGCAGATGGGCGCGTACATGG	0.612													20	103					0	0	0.008871	0	0		T	183731002	T	T	183731002	2	4	25	1	0	0	0	0	0	0	0	1	6079	755	27	1		1	FRZB	2	183731002	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	636253	183731002	59468371	162	21162											
WDR75	84128	broad.mit.edu	37	chr2	190328454	190328454	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgaaaccttgaagcatcCgcagtaattcaaggcctagt	13	8	8	12	2	1	1	1	1	0	0	2	2	2	1	4	1	2	3	4	1	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:190328454C>T	uc002uql.1	+	10	1032	c.972C>T	c.(970-972)TCC>TCT	p.S324S	WDR75_uc002uqm.1_Silent_p.S260S|WDR75_uc002uqn.1_Silent_p.S102S|WDR75_uc002uqo.1_Silent_p.S102S	NM_032168	NP_115544	Q8IWA0	WDR75_HUMAN	WD repeat domain 75	324	WD 5.					nucleolus				ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00105)|Epithelial(96;0.0129)|all cancers(119;0.0456)			TTGAAGCATCCGCAGTAATTC	0.299													27	142					0	0	0.008361	0	0		T	190328454	T	T	190328454	2	4	25	1	0	0	0	0	0	0	0	1	17351	639	23	1		1	WDR75	2	190328454	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6597452	190328454	52870919	163	21163											
DNAH7	56171	broad.mit.edu	37	chr2	196759791	196759791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaatcataaaaccatgaCgcacaatcatcatttcatat	18	10	2	11	1	4	1	4	1	0	0	4	1	4	1	1	0	2	1	1	0	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:196759791C>T	uc002utj.3	-	30	4906	c.4805G>A	c.(4804-4806)CGT>CAT	p.R1602H		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1602	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AAAACCATGACGCACAATCAT	0.373													17	68					0	0	0.00499	0	0		T	196759791	T	T	196759791	3	4	25	1	0	0	0	0	1	0	0	0	4612	536	19	1	7413	1	DNAH7	2	196759791	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6431337	196759791	46439582	164	21164											
STK17B	9262	broad.mit.edu	37	chr2	197008310	197008310	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctggtgttcccatgattTcccgaagttcacacgcatgc	8	13	8	12	2	2	1	1	1	1	0	4	2	4	1	2	1	1	3	2	1	1	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:197008310T>C	uc002utk.2	-	5	905	c.581A>G	c.(580-582)GAA>GGA	p.E194G	STK17B_uc010fsh.2_Missense_Mutation_p.E194G	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	194	Protein kinase.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			TCCCATGATTTCCCGAAGTTC	0.333													50	178					0	0	0.01441	0	0		C	197008310	C	C	197008310	3	2	25	1	0	0	0	0	1	0	0	0	15316	1783	62	3	553	3	STK17B	2	197008310	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	248519	197008310	46191063	165	21165											
HECW2	57520	broad.mit.edu	37	chr2	197080603	197080603	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttacctgggaagagcagtGattttcccccatttctccac	8	14	7	12	0	1	2	0	1	1	1	3	3	2	3	4	1	2	1	4	1	2	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:197080603G>A	uc002utm.1	-	28	4776	c.4593C>T	c.(4591-4593)ATC>ATT	p.I1531I	HECW2_uc002utl.1_Silent_p.I1175I	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	1531	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						GAAGAGCAGTGATTTTCCCCC	0.378													24	94					0	0	0.021523	0	0		A	197080603	A	A	197080603	2	1	25	1	0	0	0	0	0	0	0	1	7059	1280	45	4		4	HECW2	2	197080603	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	72293	197080603	46118770	166	21166											
FAM117B	150864	broad.mit.edu	37	chr2	203620321	203620321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccaaatcaacaggctccCggttccggaatagcgtggaa	12	7	10	12	3	2	0	2	0	0	0	4	2	4	2	3	4	2	2	3	4	5	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:203620321C>T	uc010zhx.1	+	5	1031	c.1021C>T	c.(1021-1023)CGG>TGG	p.R341W		NM_173511	NP_775782	Q6P1L5	F117B_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	341										ovary(1)	1						AACAGGCTCCCGGTTCCGGAA	0.413													57	265					0	0	0.01441	0	0		T	203620321	T	T	203620321	3	4	25	1	0	0	0	0	1	0	0	0	5421	643	23	1	1039	1	FAM117B	2	203620321	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6539718	203620321	39579052	167	21167											
TMBIM1	64114	broad.mit.edu	37	chr2	219144816	219144816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccgaagctatcactcactGctctctcctccccatcatag	8	10	5	18	1	4	0	3	0	1	0	7	1	6	0	4	0	2	2	4	0	3	2	rs147296873		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:219144816G>A	uc002vho.1	-	4	962	c.236C>T	c.(235-237)GCA>GTA	p.A79V	PNKD_uc002vhn.2_Intron|TMBIM1_uc002vhp.1_Missense_Mutation_p.A79V|TMBIM1_uc010zjz.1_5'UTR|TMBIM1_uc010zka.1_5'UTR	NM_022152	NP_071435	Q969X1	TMBI1_HUMAN	transmembrane BAX inhibitor motif containing 1	79						integral to membrane					0		Renal(207;0.0474)		Epithelial(149;8.56e-07)|all cancers(144;0.000154)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ATCACTCACTGCTCTCTCCTC	0.572													5	145					0	0	0.00308	0	0		A	219144816	A	A	219144816	3	1	25	1	0	0	0	0	1	0	0	0	16006	1319	46	2	739	2	TMBIM1	2	219144816	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	15524495	219144816	24054557	168	21168											
SPEG	10290	broad.mit.edu	37	chr2	220336640	220336640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggggcctcagcacgccGgtgtctacaagagcgtcatt	7	8	13	13	4	3	1	2	0	1	1	3	1	3	1	3	3	3	1	3	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:220336640G>A	uc010fwg.2	+	14	3766	c.3766G>A	c.(3766-3768)GGT>AGT	p.G1256S		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1256	Ig-like 6.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		TCAGCACGCCGGTGTCTACAA	0.622													12	61					0	0	0.004007	0	0		A	220336640	A	A	220336640	3	1	25	1	0	0	0	0	1	0	0	0	15061	1116	39	1	3832	1	SPEG	2	220336640	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1191824	220336640	22862733	169	21169											
STK11IP	114790	broad.mit.edu	37	chr2	220473425	220473425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggaactccaagcagctcGcaccttggagcgactggagc	9	6	14	12	2	0	0	0	0	0	0	2	4	1	3	2	4	5	3	2	4	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:220473425G>A	uc002vml.2	+	15	1800	c.1757G>A	c.(1756-1758)CGC>CAC	p.R586H	STK11IP_uc010zll.1_Missense_Mutation_p.R543H|STK11IP_uc002vmm.1_Missense_Mutation_p.R575H	NM_052902	NP_443134	Q8N1F8	S11IP_HUMAN	LKB1 interacting protein	586	Glu-rich.				protein localization	cytoplasm	protein kinase binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;2.69e-07)|all cancers(144;5.91e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAAGCAGCTCGCACCTTGGAG	0.652													12	50					0	0	0.013537	0	0		A	220473425	A	A	220473425	3	1	25	1	0	0	0	0	1	0	0	0	15313	1087	38	1	1815	1	STK11IP	2	220473425	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	136785	220473425	22725948	170	21170											
CCDC140	151278	broad.mit.edu	37	chr2	223168942	223168942	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatccaactccacccgggcGtctcctgagagcgcacagtc	9	7	9	16	3	1	1	0	1	1	1	5	2	3	1	4	1	2	1	4	1	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:223168942G>A	uc002vnb.1	+	2	705	c.321G>A	c.(319-321)GCG>GCA	p.A107A		NM_153038	NP_694583	Q96MF4	CC140_HUMAN	coiled-coil domain containing 140	107											0		Renal(207;0.0376)		Epithelial(121;4.03e-10)|all cancers(144;1.8e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCACCCGGGCGTCTCCTGAGA	0.637													14	44					0	0	0.004007	0	0		A	223168942	A	A	223168942	2	1	25	1	0	0	0	0	0	0	0	1	2777	1132	40	1		1	CCDC140	2	223168942	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2695517	223168942	20030431	171	21171											
MFF	56947	broad.mit.edu	37	chr2	228195480	228195480	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaaaagtagcaccgccaaaCgctgacctggaacaaggatt	15	7	9	10	2	0	1	0	1	0	0	0	3	0	3	3	2	3	3	3	2	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:228195480C>T	uc002vos.2	+	4	595	c.177C>T	c.(175-177)AAC>AAT	p.N59N	MFF_uc002vot.2_Silent_p.N33N|MFF_uc002vou.2_Silent_p.N59N|MFF_uc002vov.2_Silent_p.N33N|MFF_uc002vow.2_Silent_p.N33N|MFF_uc002vox.2_Silent_p.N33N|MFF_uc002voy.2_Silent_p.N59N|MFF_uc002voz.2_Silent_p.N33N	NM_020194	NP_064579	Q9GZY8	MFF_HUMAN	mitochondrial fission factor	59	Cytoplasmic (Potential).					integral to membrane|mitochondrial outer membrane				large_intestine(1)	1						CACCGCCAAACGCTGACCTGG	0.423													22	83					0	0	0.016522	0	0		T	228195480	T	T	228195480	2	4	25	1	0	0	0	0	0	0	0	1	9537	535	19	1		1	MFF	2	228195480	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	5026538	228195480	15003893	172	21172											
GPR55	9290	broad.mit.edu	37	chr2	231775009	231775009	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgcgatgctgtagatgcaGgctttctgctgcacccagtc	6	11	12	12	1	1	1	0	0	1	1	2	2	1	1	1	1	5	7	1	1	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:231775009G>T	uc002vrg.2	-	2	862	c.669C>A	c.(667-669)GCC>GCA	p.A223A	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Silent_p.A223A	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	223	Cytoplasmic (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		TGTAGATGCAGGCTTTCTGCT	0.597													25	141					1.85244e-09	1.94085e-09	0.01892	1	0		T	231775009	T	T	231775009	2	4	25	1	0	0	0	0	0	0	0	1	6714	987	35	5		5	GPR55	2	231775009	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3579529	231775009	11424364	173	21173											
NGEF	25791	broad.mit.edu	37	chr2	233756178	233756178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagctgcgcgatcagctcccGgaaagctgccttctcctggc	6	9	11	15	3	2	0	1	0	1	0	4	2	3	1	3	2	5	3	3	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:233756178G>A	uc002vts.2	-	8	1410	c.1162C>T	c.(1162-1164)CGG>TGG	p.R388W	NGEF_uc010zmm.1_Missense_Mutation_p.R111W|NGEF_uc010fyg.1_Missense_Mutation_p.R296W	NM_019850	NP_062824	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor	388	DH.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)|skin(1)	7		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		ATCAGCTCCCGGAAAGCTGCC	0.612													20	104					0	0	0.007413	0	0		A	233756178	A	A	233756178	3	1	25	1	0	0	0	0	1	0	0	0	10413	1115	39	1	1002	1	NGEF	2	233756178	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1981169	233756178	9443195	174	21174											
DGKD	8527	broad.mit.edu	37	chr2	234343474	234343474	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattggtacgcctgttcccaCgcgaggccgacctactgcaa	9	8	10	14	4	0	0	0	0	0	0	1	2	1	0	4	2	3	3	4	2	4	4	rs150294529		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:234343474C>T	uc002vui.1	+	5	525	c.513C>T	c.(511-513)CAC>CAT	p.H171H	DGKD_uc002vuj.1_Silent_p.H127H|DGKD_uc010fyh.1_Silent_p.H38H|DGKD_uc002vuk.1_Silent_p.H38H	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	171	Phorbol-ester/DAG-type 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	CCTGTTCCCACGCGAGGCCGA	0.562													6	270					0	0	0.00308	0	0		T	234343474	T	T	234343474	2	4	25	1	0	0	0	0	0	0	0	1	4473	535	19	1		1	DGKD	2	234343474	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	587296	234343474	8855899	175	21175											
HJURP	55355	broad.mit.edu	37	chr2	234754463	234754463	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaagggctttgaggcactgCaggctgatcaaaaaagagaa	16	6	12	7	0	1	3	1	2	0	1	1	4	1	3	0	3	1	4	0	3	5	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:234754463C>T	uc002vvg.2	-	6	472	c.406G>A	c.(406-408)GCA>ACA	p.A136T	HJURP_uc010znd.1_Missense_Mutation_p.A75T|HJURP_uc010zne.1_Intron	NM_018410	NP_060880	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	136					cell cycle|CenH3-containing nucleosome assembly at centromere|centromeric core chromatin assembly|chromosome segregation|regulation of DNA binding|regulation of protein complex assembly	condensed chromosome kinetochore|cytoplasm|nucleolus|nucleoplasm	DNA binding|histone binding			ovary(1)	1		Breast(86;0.00204)|all_lung(227;0.00433)|Renal(207;0.00685)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0719)|Lung SC(224;0.128)		Epithelial(121;2.01e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000186)|Lung(119;0.00521)|LUSC - Lung squamous cell carcinoma(224;0.00829)		TGAGGCACTGCAGGCTGATCA	0.378													25	124					0	0	0.008361	0	0		T	234754463	T	T	234754463	3	4	25	1	0	0	0	0	1	0	0	0	7205	710	25	2	1856	2	HJURP	2	234754463	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	410989	234754463	8444910	176	21176											
GBX2	2637	broad.mit.edu	37	chr2	237074757	237074757	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcgctgagtttgagggCgtgggcgatctgcgagcgct	5	9	16	11	5	1	2	0	2	1	0	2	4	1	2	1	2	2	3	1	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:237074757C>T	uc002vvw.1	-	2	885	c.847G>A	c.(847-849)GCC>ACC	p.A283T	GBX2_uc010zng.1_3'UTR	NM_001485	NP_001476	P52951	GBX2_HUMAN	gastrulation brain homeo box 2	283	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Breast(86;0.00235)|Renal(207;0.00339)|all_hematologic(139;0.00357)|all_lung(227;0.0616)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|Lung NSC(271;0.179)		Epithelial(121;4.5e-25)|OV - Ovarian serous cystadenocarcinoma(60;5.16e-11)|BRCA - Breast invasive adenocarcinoma(100;3.4e-05)|Lung(119;0.00195)|LUSC - Lung squamous cell carcinoma(224;0.00471)		AGTTTGAGGGCGTGGGCGATC	0.587													37	176					0	0	0.021022	0	0		T	237074757	T	T	237074757	3	4	25	1	0	0	0	0	1	0	0	0	6296	768	27	1	203	1	GBX2	2	237074757	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2320294	237074757	6124616	177	21177											
COL6A3	1293	broad.mit.edu	37	chr2	238274435	238274435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgctggctgcgcatgttcCggaacttctcgagcatctct	5	12	12	12	3	2	0	0	0	2	0	5	2	3	1	1	3	4	5	1	3	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:238274435C>T	uc002vwl.2	-	12	6029	c.5744G>A	c.(5743-5745)CGG>CAG	p.R1915Q	COL6A3_uc002vwo.2_Missense_Mutation_p.R1709Q|COL6A3_uc010znj.1_Missense_Mutation_p.R1308Q	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1915	VWFA 10.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GCGCATGTTCCGGAACTTCTC	0.612													25	149					0	0	0.004656	0	0		T	238274435	T	T	238274435	3	4	25	1	0	0	0	0	1	0	0	0	3704	652	23	1	3921	1	COL6A3	2	238274435	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1199678	238274435	4924938	178	21178											
AGXT	189	broad.mit.edu	37	chr2	241818169	241818169	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggctgcaatgccacccgCgagaatgtggaccgcgtgac	8	6	14	13	4	0	2	0	1	0	1	0	4	0	3	3	2	2	2	3	2	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:241818169C>T	uc002waa.3	+	11	1231	c.1110C>T	c.(1108-1110)CGC>CGT	p.R370R	AGXT_uc002wab.3_Silent_p.R248R	NM_000030	NP_000021	P21549	SPYA_HUMAN	alanine-glyoxylate aminotransferase	370					glyoxylate metabolic process|protein targeting to peroxisome	mitochondrial matrix|peroxisomal matrix	alanine-glyoxylate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|serine-pyruvate transaminase activity				0		all_epithelial(40;1.61e-15)|Breast(86;2.35e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;8.14e-32)|all cancers(36;4.77e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;4.88e-06)|Lung(119;0.000452)|LUSC - Lung squamous cell carcinoma(224;0.00415)|Colorectal(34;0.021)|COAD - Colon adenocarcinoma(134;0.15)	Glycine(DB00145)|L-Alanine(DB00160)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	ATGCCACCCGCGAGAATGTGG	0.697													4	10					0	0	0.009096	0	0		T	241818169	T	T	241818169	2	4	25	1	0	0	0	0	0	0	0	1	404	755	27	1		1	AGXT	2	241818169	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3543734	241818169	1381204	179	21179											
SNED1	25992	broad.mit.edu	37	chr2	242009422	242009422	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccgactccaggcagctTgctggaggcttatgtcatca	7	10	11	13	1	2	0	2	0	0	0	3	2	3	1	3	3	3	4	3	3	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:242009422T>C	uc002wah.1	+	24	3395	c.3395T>C	c.(3394-3396)TTG>TCG	p.L1132S	SNED1_uc002wai.1_Missense_Mutation_p.L367S|SNED1_uc002waj.1_Missense_Mutation_p.L219S|SNED1_uc002wak.2_Missense_Mutation_p.L219S|SNED1_uc002wal.2_5'Flank	NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	1132	Fibronectin type-III 3.				cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		CCAGGCAGCTTGCTGGAGGCT	0.647													10	56					0	0	0.010729	0	0		C	242009422	C	C	242009422	3	2	25	1	0	0	0	0	1	0	0	0	14870	1821	63	3	3489	3	SNED1	2	242009422	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	191253	242009422	1189951	180	21180											
PDCD1	5133	broad.mit.edu	37	chr2	242793372	242793372	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagggcacggggggctcCggggtcttctctcgccactg	5	7	15	14	3	2	0	0	0	2	0	5	0	3	0	2	6	0	2	2	6	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr2:242793372C>T	uc002wcq.3	-	5	773	c.705G>A	c.(703-705)CCG>CCA	p.P235P	PDCD1_uc010fzs.2_Silent_p.P114P|PDCD1_uc010fzt.2_RNA	NM_005018	NP_005009	Q15116	PDCD1_HUMAN	programmed cell death 1 precursor	235	Cytoplasmic (Potential).				apoptosis|humoral immune response|multicellular organismal development|T cell costimulation	integral to membrane	protein tyrosine phosphatase activity|signal transducer activity			ovary(1)	1		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;3.84e-33)|all cancers(36;8.08e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.41e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0219)		CGGGGGGCTCCGGGGTCTTCT	0.622													26	64					0	0	0.005443	0	0		T	242793372	T	T	242793372	2	4	25	1	0	0	0	0	0	0	0	1	11634	639	23	1		1	PDCD1	2	242793372	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	783950	242793372	406001	181	21181											
HRH1	3269	broad.mit.edu	37	chr3	11301418	11301418	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcatcaataggtccctccCttccttctcagaaattaagc	10	12	5	14	0	3	1	3	0	1	1	7	1	6	1	3	1	1	1	3	1	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:11301418C>A	uc010hdr.2	+	2	1037	c.695C>A	c.(694-696)CCT>CAT	p.P232H	HRH1_uc010hds.2_Missense_Mutation_p.P232H|HRH1_uc010hdt.2_Missense_Mutation_p.P232H|HRH1_uc003bwb.3_Missense_Mutation_p.P232H	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1	232	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	AGGTCCCTCCCTTCCTTCTCA	0.532													38	128					8.73648e-17	9.37359e-17	0.019004	1	0		A	11301418	A	A	11301418	3	1	25	1	0	0	0	0	1	0	0	0	7371	681	24	5	697	5	HRH1	3	11301418	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08		11301418	186721012	182	21182											
C3orf31	132001	broad.mit.edu	37	chr3	11871205	11871205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aacctgaataggagagaccgGcaatctctatgaagaggtct	14	8	11	8	1	2	4	0	2	2	2	3	6	2	5	2	3	1	1	2	3	6	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:11871205G>A	uc003bwh.2	-	4	787	c.545C>T	c.(544-546)GCC>GTC	p.A182V	C3orf31_uc003bwj.2_Missense_Mutation_p.A182V|C3orf31_uc003bwi.2_RNA|C3orf31_uc011auo.1_Missense_Mutation_p.A182V|C3orf31_uc011aup.1_RNA	NM_138807	NP_620162	Q96BW9	MMP37_HUMAN	MMP37-like protein, mitochondrial precursor	182					protein import into mitochondrial matrix	extrinsic to mitochondrial inner membrane					0						GGAGAGACCGGCAATCTCTAT	0.473													53	224					0	0	0.01441	0	0		A	11871205	A	A	11871205	3	1	25	1	0	0	0	0	1	0	0	0	2224	1203	42	2	421	2	C3orf31	3	11871205	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	569787	11871205	186151225	183	21183											
SYN2	6854	broad.mit.edu	37	chr3	12211375	12211375	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggactcctgccctgtctcCtcagagacccctaacaaccc	9	7	6	19	0	2	1	1	0	1	1	4	3	3	2	6	1	3	0	6	1	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:12211375C>A	uc003bwm.2	+	14	1441	c.1277C>A	c.(1276-1278)CCT>CAT	p.P426H	SYN2_uc003bwl.1_Missense_Mutation_p.P426H|SYN2_uc003bwn.2_Missense_Mutation_p.P100H	NM_133625	NP_598328	Q92777	SYN2_HUMAN	synapsin II isoform IIa	426					neurotransmitter secretion	synaptic vesicle	ATP binding|ligase activity			ovary(1)|central_nervous_system(1)	2						GCCCTGTCTCCTCAGAGACCC	0.537													3	14					0.00024832	0.000253078	0.009096	1	0		A	12211375	A	A	12211375	3	1	25	1	0	0	0	0	1	0	0	0	15466	681	24	5	1316	5	SYN2	3	12211375	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	340170	12211375	185811055	184	21184											
TSEN2	80746	broad.mit.edu	37	chr3	12545181	12545181	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagacggcagccagcacatCggcctcctgcatcctgggga	9	5	13	14	2	0	1	0	0	0	1	3	3	2	2	4	4	3	3	4	4	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:12545181C>T	uc003bxc.2	+	5	1116	c.729C>T	c.(727-729)ATC>ATT	p.I243I	TSEN2_uc003bwy.2_Silent_p.I243I|TSEN2_uc003bwz.2_Silent_p.I184I|TSEN2_uc003bxa.2_Silent_p.I243I|TSEN2_uc011auq.1_Silent_p.I243I|TSEN2_uc003bxb.2_Silent_p.I243I|TSEN2_uc011aur.1_Silent_p.I152I	NM_025265	NP_079541	Q8NCE0	SEN2_HUMAN	tRNA-intron nuclease 2 isoform 1	243					mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|nucleolus|tRNA-intron endonuclease complex	nucleic acid binding|tRNA-intron endonuclease activity			central_nervous_system(1)	1						GCCAGCACATCGGCCTCCTGC	0.602													10	30					0	0	0.008291	0	0		T	12545181	T	T	12545181	2	4	25	1	0	0	0	0	0	0	0	1	16638	874	31	1		1	TSEN2	3	12545181	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	333806	12545181	185477249	185	21185											
CAND2	23066	broad.mit.edu	37	chr3	12869032	12869032	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcactgcttgagagctgcCtgggccagctggatatctgt	7	12	12	10	0	2	1	1	1	1	1	2	3	2	2	2	2	4	3	2	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:12869032C>A	uc003bxk.2	+	13	3353	c.3304C>A	c.(3304-3306)CTG>ATG	p.L1102M	CAND2_uc003bxj.2_Missense_Mutation_p.L985M	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	1102					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						TGAGAGCTGCCTGGGCCAGCT	0.567													35	147					3.21399e-22	3.48898e-22	0.021022	1	0		A	12869032	A	A	12869032	3	1	25	1	0	0	0	0	1	0	0	0	2619	680	24	5	3354	5	CAND2	3	12869032	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	323851	12869032	185153398	186	21186											
NUP210	23225	broad.mit.edu	37	chr3	13381471	13381471	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagcgctcaccagcgcaacGctctcattgctgatggagaa	10	7	11	13	3	2	2	2	1	1	1	3	3	2	2	1	1	4	5	1	1	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:13381471G>A	uc003bxv.1	-	25	3437	c.3354C>T	c.(3352-3354)AGC>AGT	p.S1118S		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1118	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					CCAGCGCAACGCTCTCATTGC	0.627													73	210					0	0	0.01441	0	0		A	13381471	A	A	13381471	2	1	25	1	0	0	0	0	0	0	0	1	10779	1078	38	1		1	NUP210	3	13381471	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	512439	13381471	184640959	187	21187											
ANKRD28	23243	broad.mit.edu	37	chr3	15765943	15765943	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatcattccactagaggcTgctgcatgaagaggtgtata	11	11	11	8	0	1	4	1	2	0	2	2	4	2	4	1	2	2	4	1	2	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:15765943T>G	uc003caj.1	-	7	782	c.639A>C	c.(637-639)GCA>GCC	p.A213A	ANKRD28_uc003cai.1_Silent_p.A59A|ANKRD28_uc011avz.1_Silent_p.A59A|ANKRD28_uc003cak.1_RNA|ANKRD28_uc011awa.1_RNA|ANKRD28_uc003cal.1_Silent_p.A243A|ANKRD28_uc003cam.2_Silent_p.A246A	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28	213	ANK 6.					nucleoplasm	protein binding			breast(1)	1						CACTAGAGGCTGCTGCATGAA	0.373													3	18					0	0	0.009096	0	0		G	15765943	G	G	15765943	2	3	25	1	0	0	0	0	0	0	0	1	656	1567	55	5		5	ANKRD28	3	15765943	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	2384472	15765943	182256487	188	21188											
KCNH8	131096	broad.mit.edu	37	chr3	19436644	19436644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgcctcttgcgtcttttgCgtctgctgcagaagttagac	5	14	11	11	3	3	2	0	0	3	2	3	2	3	2	1	0	5	3	1	0	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:19436644C>T	uc003cbk.1	+	7	1213	c.1018C>T	c.(1018-1020)CGT>TGT	p.R340C	KCNH8_uc011awe.1_Missense_Mutation_p.R340C|KCNH8_uc010hex.1_5'UTR|KCNH8_uc011awf.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	340	Helical; Voltage-sensor; Name=Segment S4; (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						GCGTCTTTTGCGTCTGCTGCA	0.488													33	158					0	0	0.011902	0	0		T	19436644	T	T	19436644	3	4	25	1	0	0	0	0	1	0	0	0	8054	768	27	1	1044	1	KCNH8	3	19436644	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3670701	19436644	178585786	189	21189											
ZNF385D	79750	broad.mit.edu	37	chr3	21552413	21552413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaggtgaaggtagtctttgCgctgtccttggcagttacag	7	12	15	7	1	1	1	0	1	1	0	2	2	2	2	1	4	2	4	1	4	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:21552413C>T	uc003cce.2	-	4	787	c.379G>A	c.(379-381)GCA>ACA	p.A127T	ZNF385D_uc010hfb.1_RNA	NM_024697	NP_078973	Q9H6B1	Z385D_HUMAN	zinc finger protein 385D	127						nucleus	nucleic acid binding|zinc ion binding			large_intestine(2)|skin(2)|ovary(1)	5						GTAGTCTTTGCGCTGTCCTTG	0.468													39	152					0	0	0.005524	0	0		T	21552413	T	T	21552413	3	4	25	1	0	0	0	0	1	0	0	0	17903	768	27	1	828	1	ZNF385D	3	21552413	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2115769	21552413	176470017	190	21190											
MLH1	4292	broad.mit.edu	37	chr3	37090086	37090086	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactgcctatcttcattcttCgactagccactgaggtcagt	8	13	8	12	1	4	1	2	1	2	0	5	3	4	1	2	1	2	0	2	1	2	5	rs63750131		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:37090086C>T	uc003cgl.2	+	17	2035	c.1975C>T	c.(1975-1977)CGA>TGA	p.R659*	MLH1_uc011aye.1_Nonsense_Mutation_p.R418*|MLH1_uc011ayb.1_Nonsense_Mutation_p.R418*|MLH1_uc010hge.2_Intron|MLH1_uc003cgn.3_Nonsense_Mutation_p.R418*|MLH1_uc011ayc.1_Nonsense_Mutation_p.R561*|MLH1_uc011ayd.1_Nonsense_Mutation_p.R418*|MLH1_uc003cgo.2_Nonsense_Mutation_p.R418*|MLH1_uc010hgk.2_Nonsense_Mutation_p.R246*|MLH1_uc010hgn.2_Intron|MLH1_uc010hgm.2_Intron|MLH1_uc010hgo.2_Intron|MLH1_uc010hgp.2_Intron|MLH1_uc010hgq.2_Intron	NM_000249	NP_000240	P40692	MLH1_HUMAN	MutL protein homolog 1	659			R -> Q.|R -> L (in HNPCC2).|R -> P (in HNPCC2; interacts only very weakly with PMS2; equivalent substitution in yeast causes almost complete loss of function in a mismatch repair assay; abrogates interaction with EXO1).		mismatch repair|somatic hypermutation of immunoglobulin genes	chiasma|MutLalpha complex|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|protein binding	p.0?(1)		large_intestine(40)|haematopoietic_and_lymphoid_tissue(8)|ovary(6)|pancreas(5)|stomach(3)|central_nervous_system(3)|endometrium(3)|breast(3)|prostate(3)|skin(2)|NS(1)	77						CTTCATTCTTCGACTAGCCAC	0.478		1	D|Mis|N|F|S		colorectal|endometrial|ovarian|CNS	colorectal|endometrial|ovarian|CNS		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				18	65					0	0	0.008871	0	0		T	37090086	T	T	37090086	4	4	25	1	0	0	0	0	0	1	0	0	9635	876	31	1	2041	1	MLH1	3	37090086	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	15537673	37090086	160932344	191	21191											
ITGA9	3680	broad.mit.edu	37	chr3	37514892	37514892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agacctgccgggaagaccgcGatgatgagtggatgggggtg	9	6	19	7	3	0	4	0	2	0	2	0	7	0	6	3	4	1	0	3	4	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:37514892G>A	uc003chd.2	+	3	414	c.361G>A	c.(361-363)GAT>AAT	p.D121N	ITGA9_uc003chc.2_Missense_Mutation_p.D121N	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	121	Extracellular (Potential).|FG-GAP 2.				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		GGAAGACCGCGATGATGAGTG	0.617													14	79					0	0	0.004007	0	0		A	37514892	A	A	37514892	3	1	25	1	0	0	0	0	1	0	0	0	7899	1058	37	1	371	1	ITGA9	3	37514892	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	424806	37514892	160507538	192	21192											
ITGA9	3680	broad.mit.edu	37	chr3	37574910	37574910	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcctgtgaactgcctgaaCgtcaccacctgcttcagctt	8	10	8	15	1	2	2	2	2	0	0	2	2	2	2	4	0	6	2	4	0	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:37574910C>T	uc003chd.2	+	14	1532	c.1479C>T	c.(1477-1479)AAC>AAT	p.N493N	ITGA9_uc003chc.2_Silent_p.N493N	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	493	Extracellular (Potential).				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		ACTGCCTGAACGTCACCACCT	0.567													11	43					0	0	0.004007	0	0		T	37574910	T	T	37574910	2	4	25	1	0	0	0	0	0	0	0	1	7899	535	19	1		1	ITGA9	3	37574910	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	60018	37574910	160447520	193	21193											
CTDSPL	10217	broad.mit.edu	37	chr3	37998618	37998618	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggtgaccagaggcaggTcattcccataccaagtgtat	11	9	11	10	0	2	2	2	1	0	1	3	2	3	2	3	3	1	2	3	3	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:37998618T>C	uc003chg.2	+	3	273	c.251T>C	c.(250-252)GTC>GCC	p.V84A	CTDSPL_uc003chh.2_Intron|CTDSPL_uc003chi.2_Intron	NM_001008392	NP_001008393	O15194	CTDSL_HUMAN	small CTD phosphatase 3 isoform 1	84						nucleus	metal ion binding|phosphoprotein phosphatase activity				0		Melanoma(1037;0.0122)		KIRC - Kidney renal clear cell carcinoma(284;0.0729)|Kidney(284;0.0902)		CAGAGGCAGGTCATTCCCATA	0.323													15	78					0	0	0.003163	0	0		C	37998618	C	C	37998618	3	2	25	1	0	0	0	0	1	0	0	0	4008	1667	58	3	261	3	CTDSPL	3	37998618	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	423708	37998618	160023812	194	21194											
XIRP1	165904	broad.mit.edu	37	chr3	39227527	39227527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagatgccatcctgaattGtcacccaccccccaggcagc	9	8	8	16	0	1	2	1	1	0	1	2	2	2	2	6	1	2	2	6	1	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:39227527G>A	uc003cjk.1	-	2	3631	c.3410C>T	c.(3409-3411)ACA>ATA	p.T1137I	XIRP1_uc003cji.2_Intron|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	1137							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		ATCCTGAATTGTCACCCACCC	0.617													39	180					0	0	0.005524	0	0		A	39227527	A	A	39227527	3	1	25	1	0	0	0	0	1	0	0	0	17455	1377	48	4	2125	4	XIRP1	3	39227527	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1228909	39227527	158794903	195	21195											
XCR1	2829	broad.mit.edu	37	chr3	46062693	46062693	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgatctgggtccgaaacagCgtctgcagaaacagggtgaa	13	7	13	8	2	2	3	0	2	2	1	3	4	3	3	1	2	4	1	1	2	3	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:46062693C>T	uc003cpe.2	-	3	971	c.747G>A	c.(745-747)ACG>ACA	p.T249T	uc003cpd.1_5'Flank|XCR1_uc003cpf.2_Silent_p.T249T	NM_005283	NP_005274	P46094	XCR1_HUMAN	XC chemokine receptor 1	249	Helical; Name=6; (Potential).				chemotaxis|G-protein signaling, coupled to cyclic nucleotide second messenger|inflammatory response	integral to plasma membrane	chemokine receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		TCCGAAACAGCGTCTGCAGAA	0.597													13	85					0	0	0.00499	0	0		T	46062693	T	T	46062693	2	4	25	1	0	0	0	0	0	0	0	1	17451	755	27	1		1	XCR1	3	46062693	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6835166	46062693	151959737	196	21196											
SETD2	29072	broad.mit.edu	37	chr3	47162245	47162245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccagtaatcacgtgtcccaCcatactgttctgcattttgc	8	13	7	13	1	2	0	1	0	1	0	3	0	3	0	3	0	3	3	3	0	2	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:47162245C>T	uc003cqs.2	-	3	3934	c.3881G>A	c.(3880-3882)GGT>GAT	p.G1294D	SETD2_uc003cqv.2_Missense_Mutation_p.G1283D	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1294					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		ACGTGTCCCACCATACTGTTC	0.473			N|F|S|Mis		clear cell renal carcinoma								36	141					0	0	0.013726	0	0		T	47162245	T	T	47162245	3	4	25	1	0	0	0	0	1	0	0	0	14156	507	18	4	3889	4	SETD2	3	47162245	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1099552	47162245	150860185	197	21197											
SCAP	22937	broad.mit.edu	37	chr3	47459204	47459204	+	Frame_Shift_Del	DEL	G	-	-																															gccccgggggcggtgtctcaGgggagggctgtccccaggct																										TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:47459204delG	uc003crh.1	-	17	2815	c.2560delC	c.(2560-2562)CTGfs	p.L854fs	SCAP_uc011baz.1_Frame_Shift_Del_p.L598fs|SCAP_uc003crg.2_Frame_Shift_Del_p.L461fs	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	854	Interaction with SREBF2 (By similarity).|Cytoplasmic (By similarity).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		CGGTGTCTCAGGGGAGGGCTG	0.657													17	37	---	---	---	---						.	-	47459204	-	-	47459204	7	5	25	1	0	1	0	1	0	0	0	0	13902	991	35	0	1307	0	SCAP	3	47459204	Frame_Shift_Del	DEL	G	TCGA-BR-4370-01A-01D-1158-08	296959	47459204	150563226	198	21198											
SHISA5	51246	broad.mit.edu	37	chr3	48510563	48510563	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaaggaggctggctggcGgggtagggcgcggctgctcc	4	8	20	9	3	0	0	0	0	0	0	1	1	1	1	1	8	1	6	1	8	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:48510563G>A	uc003ctp.1	-	6	800	c.666C>T	c.(664-666)CCC>CCT	p.P222P	SHISA5_uc003ctn.1_Missense_Mutation_p.R91C|SHISA5_uc003ctm.1_Silent_p.P119P|SHISA5_uc011bbk.1_Missense_Mutation_p.R131C|SHISA5_uc003cto.1_Silent_p.P191P|SHISA5_uc003ctq.1_Silent_p.P215P|SHISA5_uc003ctr.1_Silent_p.P191P|SHISA5_uc003cts.1_Silent_p.P191P|SHISA5_uc003ctt.2_3'UTR|SHISA5_uc003ctu.1_RNA|SHISA5_uc011bbl.1_Silent_p.P120P	NM_016479	NP_057563	Q8N114	SHSA5_HUMAN	scotin precursor	222	Cytoplasmic (Potential).|Pro-rich.				apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade	endoplasmic reticulum membrane|integral to membrane|nuclear membrane	signal transducer activity|WW domain binding				0						GCTGGCTGGCGGGGTAGGGCG	0.637													29	104					0	0	0.007291	0	0		A	48510563	A	A	48510563	2	1	25	1	0	0	0	0	0	0	0	1	14308	1103	39	1		1	SHISA5	3	48510563	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1051359	48510563	149511867	199	21199											
WDR6	11180	broad.mit.edu	37	chr3	49049119	49049119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggactttggtgggcatctgcGgatgataaagcgagtgcaga	10	9	16	6	2	1	2	0	1	1	1	1	5	1	4	0	4	3	2	0	4	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:49049119G>A	uc003cvj.2	+	2	380	c.242G>A	c.(241-243)CGG>CAG	p.R81Q	WDR6_uc011bbx.1_Intron|WDR6_uc011bby.1_Intron|WDR6_uc010hkn.2_Missense_Mutation_p.R25Q|WDR6_uc011bbz.1_5'UTR	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	51					cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		GGGCATCTGCGGATGATAAAG	0.537													118	547					0	0	0.01441	0	0		A	49049119	A	A	49049119	3	1	25	1	0	0	0	0	1	0	0	0	17336	1116	39	1	248	1	WDR6	3	49049119	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	538556	49049119	148973311	200	21200											
DAG1	1605	broad.mit.edu	37	chr3	49568875	49568875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctcttcccaaacgcgtcCggaggcagatccatgctaca	9	7	8	17	3	1	1	0	0	1	1	4	2	4	2	5	2	3	2	5	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:49568875C>T	uc003cxc.3	+	3	1349	c.931C>T	c.(931-933)CGG>TGG	p.R311W		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	311	Required for laminin recognition.				cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		CAAACGCGTCCGGAGGCAGAT	0.627													39	159					0	0	0.007835	0	0		T	49568875	T	T	49568875	3	4	25	1	0	0	0	0	1	0	0	0	4228	643	23	1	937	1	DAG1	3	49568875	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	519756	49568875	148453555	201	21201											
ZMYND10	51364	broad.mit.edu	37	chr3	50379246	50379246	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacaggccttaccttcgCgcctgcagccgcaggtcctg	5	9	10	17	3	0	0	0	0	0	0	3	0	2	0	6	2	3	2	6	2	1	3	rs143000634		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:50379246C>T	uc003dag.1	-	10	1262	c.1116G>A	c.(1114-1116)GCG>GCA	p.A372A	RASSF1_uc003dad.1_5'Flank|RASSF1_uc003dae.1_5'Flank|RASSF1_uc010hlk.1_5'Flank|RASSF1_uc003daf.1_5'Flank|RASSF1_uc011bdq.1_5'Flank|ZMYND10_uc010hll.1_Silent_p.A367A|ZMYND10_uc003dah.1_Silent_p.A293A	NM_015896	NP_056980	O75800	ZMY10_HUMAN	zinc finger, MYND domain-containing 10	372						cytoplasm	protein binding|zinc ion binding			lung(4)|ovary(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CTTACCTTCGCGCCTGCAGCC	0.632										TSP Lung(30;0.18)			27	73					0	0	0.010818	0	0		T	50379246	T	T	50379246	2	4	25	1	0	0	0	0	0	0	0	1	17730	755	27	1		1	ZMYND10	3	50379246	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	810371	50379246	147643184	202	21202											
DOCK3	1795	broad.mit.edu	37	chr3	51273835	51273835	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgataatacagagaagtaCggcctgttggtttttcagtc	11	13	11	6	1	1	2	1	1	0	1	2	4	1	2	1	2	2	3	1	2	4	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:51273835C>T	uc011bds.1	+	20	2000	c.1977C>T	c.(1975-1977)TAC>TAT	p.Y659Y		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	659						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		CAGAGAAGTACGGCCTGTTGG	0.368													14	94					0	0	0.020292	0	0		T	51273835	T	T	51273835	2	4	25	1	0	0	0	0	0	0	0	1	4694	547	19	1		1	DOCK3	3	51273835	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	894589	51273835	146748595	203	21203											
RBM15B	29890	broad.mit.edu	37	chr3	51431126	51431126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgacccagctgaagatcGcccagcgccttcgactggac	9	6	11	15	3	0	3	0	2	0	1	2	5	0	4	3	1	3	2	3	1	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:51431126G>A	uc003dbd.2	+	1	2396	c.2296G>A	c.(2296-2298)GCC>ACC	p.A766T		NM_013286	NP_037418	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	766	Interaction with Epstein-Barr virus BMLF1.|SPOC.				interspecies interaction between organisms|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleoplasm	nucleotide binding|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GCTGAAGATCGCCCAGCGCCT	0.607													42	118					0	0	0.00874	0	0		A	51431126	A	A	51431126	3	1	25	1	0	0	0	0	1	0	0	0	13142	1087	38	1	2298	1	RBM15B	3	51431126	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	157291	51431126	146591304	204	21204											
GPR62	118442	broad.mit.edu	37	chr3	51990299	51990299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggcccccacggccggcgCgcgggtcccgactccactcg	4	4	14	19	7	0	1	0	1	0	0	3	2	2	1	5	4	0	0	5	4	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:51990299C>T	uc003dca.3	+	1	970	c.631C>T	c.(631-633)CGC>TGC	p.R211C		NM_080865	NP_543141	Q9BZJ7	GPR62_HUMAN	G protein-coupled receptor 62	211	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		ACGGCCGGCGCGCGGGTCCCG	0.761													6	10					0	0	0.00308	0	0		T	51990299	T	T	51990299	3	4	25	1	0	0	0	0	1	0	0	0	6718	768	27	1	633	1	GPR62	3	51990299	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	559173	51990299	146032131	205	21205											
CCDC66	285331	broad.mit.edu	37	chr3	56651196	56651196	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacattgtggatcattaatgGagagggacatcacaaattgt	14	11	10	6	0	2	1	2	0	0	1	2	4	2	3	0	3	0	0	0	3	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:56651196G>T	uc003dhz.2	+	14	1987	c.1900G>T	c.(1900-1902)GAG>TAG	p.E634*	CCDC66_uc003dhy.2_Nonsense_Mutation_p.E270*|CCDC66_uc003dhu.2_Nonsense_Mutation_p.E600*|CCDC66_uc003dhx.2_RNA|CCDC66_uc003dia.2_Nonsense_Mutation_p.E2*	NM_001141947	NP_001135419	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66 isoform 1	634										breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		ATCATTAATGGAGAGGGACAT	0.313													23	75					9.04412e-07	9.36229e-07	0.004656	1	0		T	56651196	T	T	56651196	4	4	25	1	0	0	0	0	0	1	0	0	2841	1175	41	5	1954	5	CCDC66	3	56651196	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4660897	56651196	141371234	206	21206											
PTPRG	5793	broad.mit.edu	37	chr3	62189088	62189088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcccacgcgcctcccgaCggccgcctcagccagcaagc	6	3	12	20	5	1	0	1	0	0	0	2	1	2	0	6	2	3	1	6	2	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:62189088C>T	uc003dlb.2	+	12	2338	c.1619C>T	c.(1618-1620)ACG>ATG	p.T540M	PTPRG_uc003dlc.2_Missense_Mutation_p.T540M	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	540	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		CGCCTCCCGACGGCCGCCTCA	0.682													3	17					0	0	0.00308	0	0		T	62189088	T	T	62189088	3	4	25	1	0	0	0	0	1	0	0	0	12827	536	19	1	1665	1	PTPRG	3	62189088	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	5537892	62189088	135833342	207	21207											
ATXN7	6314	broad.mit.edu	37	chr3	63973914	63973914	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctagaacgtcacaggagccGcaccaaaaccctcacggagt	13	4	9	15	3	2	1	2	0	0	1	2	3	2	3	4	2	3	1	4	2	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:63973914G>A	uc003dlw.3	+	9	1828	c.1275G>A	c.(1273-1275)CCG>CCA	p.P425P	ATXN7_uc003dlv.2_Silent_p.P425P|ATXN7_uc010hnv.2_Silent_p.P425P|ATXN7_uc011bfn.1_Silent_p.P280P	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	425	Pro-rich.				cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		CACAGGAGCCGCACCAAAACC	0.552													73	273					0	0	0.01441	0	0		A	63973914	A	A	63973914	2	1	25	1	0	0	0	0	0	0	0	1	1216	1074	38	1		1	ATXN7	3	63973914	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1784826	63973914	134048516	208	21208											
MAGI1	9223	broad.mit.edu	37	chr3	66024037	66024037	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagagacaggtgccccccaCagcacgagcccccaagcctc	10	2	10	19	2	0	1	0	0	0	1	1	4	0	1	6	1	4	1	6	1	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:66024037C>T	uc003dmn.2	-	1	473	c.-53G>A	c.(-55--51)CTGTG>CTATG		MAGI1_uc003dmm.2_Translation_Start_Site|MAGI1_uc003dmo.2_Translation_Start_Site|MAGI1_uc003dmp.2_Translation_Start_Site|MAGI1_uc003dmr.2_Translation_Start_Site	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ						cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		GTGCCCCCCACAGCACGAGCC	0.522													13	38					0	0	0.020292	0	0		T	66024037	T	T	66024037	1	4	25	1	0	0	0	0	0	0	0	0	9208	493	17	4		4	MAGI1	3	66024037	Translation_Start_Site	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2050123	66024037	131998393	209	21209											
C3orf64	285203	broad.mit.edu	37	chr3	69053564	69053564	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgcgctgaccttcagaCgtcaatgtacggatgtcaag	9	12	10	10	3	3	2	3	1	0	1	3	3	3	3	1	1	2	2	1	1	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:69053564C>T	uc003dnl.2	-	8	990	c.585G>A	c.(583-585)ACG>ACA	p.T195T	C3orf64_uc003dnj.2_5'Flank|C3orf64_uc003dnk.2_Silent_p.T195T|C3orf64_uc011bfw.1_RNA|C3orf64_uc003dnm.1_RNA	NM_173654	NP_775925	Q5NDL2	AER61_HUMAN	AER61 glycosyltransferase	195						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)	1		Lung NSC(201;0.126)		BRCA - Breast invasive adenocarcinoma(55;4.61e-05)|Epithelial(33;0.000291)|LUSC - Lung squamous cell carcinoma(21;0.0127)|KIRC - Kidney renal clear cell carcinoma(39;0.216)		GACCTTCAGACGTCAATGTAC	0.383													19	109					0	0	0.012319	0	0		T	69053564	T	T	69053564	2	4	25	1	0	0	0	0	0	0	0	1	2243	523	19	1		1	C3orf64	3	69053564	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3029527	69053564	128968866	210	21210											
PDZRN3	23024	broad.mit.edu	37	chr3	73432925	73432925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgggcctcttggtgatgtagCgcgtcccgtcgctgcggatc	3	10	15	13	6	1	1	0	1	1	0	4	2	2	2	2	3	2	2	2	3	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:73432925C>T	uc003dpl.1	-	10	2888	c.2792G>A	c.(2791-2793)CGC>CAC	p.R931H	PDZRN3_uc011bgh.1_Missense_Mutation_p.R588H|PDZRN3_uc010hoe.1_Missense_Mutation_p.R629H|PDZRN3_uc011bgf.1_Missense_Mutation_p.R648H|PDZRN3_uc011bgg.1_Missense_Mutation_p.R651H	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	931							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GGTGATGTAGCGCGTCCCGTC	0.677													20	64					0	0	0.014323	0	0		T	73432925	T	T	73432925	3	4	25	1	0	0	0	0	1	0	0	0	11728	768	27	1	412	1	PDZRN3	3	73432925	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4379361	73432925	124589505	211	21211											
ROBO1	6091	broad.mit.edu	37	chr3	78766491	78766491	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacagggtcacctcgggccTcacatttaaattctgcactg	9	11	9	12	1	3	0	2	0	1	0	4	0	3	0	2	2	2	2	2	2	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:78766491T>C	uc003dqe.2	-	7	1059	c.851A>G	c.(850-852)GAG>GGG	p.E284G	ROBO1_uc003dqb.2_Missense_Mutation_p.E245G|ROBO1_uc003dqc.2_Missense_Mutation_p.E245G|ROBO1_uc003dqd.2_Missense_Mutation_p.E245G|ROBO1_uc003dqf.1_5'Flank	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	284	Extracellular (Potential).|Ig-like C2-type 3.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		ACCTCGGGCCTCACATTTAAA	0.423													57	237					0	0	0.01441	0	0		C	78766491	C	C	78766491	3	2	25	1	0	0	0	0	1	0	0	0	13538	1551	54	3	4217	3	ROBO1	3	78766491	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	5333566	78766491	119255939	212	21212											
DCBLD2	131566	broad.mit.edu	37	chr3	98600451	98600451	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaagtgacaagaatcagaAtcttcaatgtcaaagtcacc	17	10	6	8	0	5	3	4	1	1	2	5	3	5	3	1	0	0	0	1	0	7	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:98600451A>T	uc003dtd.2	-	2	729	c.366T>A	c.(364-366)GAT>GAA	p.D122E	DCBLD2_uc003dte.2_Missense_Mutation_p.D122E|DCBLD2_uc003dtf.1_RNA	NM_080927	NP_563615	Q96PD2	DCBD2_HUMAN	discoidin, CUB and LCCL domain containing 2	122	Extracellular (Potential).|CUB.				cell adhesion|intracellular receptor mediated signaling pathway|negative regulation of cell growth|wound healing	cell surface|integral to plasma membrane				ovary(2)|central_nervous_system(1)	3						AAGAATCAGAATCTTCAATGT	0.368													48	237					0	0	0.01441	0	0		T	98600451	T	T	98600451	3	4	25	1	0	0	0	0	1	0	0	0	4284	98	4	5	2021	5	DCBLD2	3	98600451	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	19833960	98600451	99421979	213	21213											
POLQ	10721	broad.mit.edu	37	chr3	121207935	121207935	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatttagaaaattctcatgCtggccttctgatttgctaaa	12	16	6	7	0	2	2	1	1	2	1	3	2	2	2	1	1	2	2	1	1	6	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:121207935C>T	uc003eee.3	-	16	3972	c.3843G>A	c.(3841-3843)CAG>CAA	p.Q1281Q	POLQ_uc003eed.2_Silent_p.Q453Q	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1281					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AATTCTCATGCTGGCCTTCTG	0.348								DNA_polymerases_(catalytic_subunits)					72	221					0	0	0.01441	0	0		T	121207935	T	T	121207935	2	4	25	1	0	0	0	0	0	0	0	1	12227	796	28	2		2	POLQ	3	121207935	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	22607484	121207935	76814495	214	21214											
CCDC14	64770	broad.mit.edu	37	chr3	123666111	123666111	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagaacatcagtacaggttGcagaaactgttttaccttgt	12	13	9	7	0	1	2	1	0	0	2	1	2	1	2	1	1	5	5	1	1	5	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:123666111G>C	uc011bjx.1	-	8	975	c.884C>G	c.(883-885)GCA>GGA	p.A295G	CCDC14_uc003egv.3_Intron|CCDC14_uc003egx.3_Missense_Mutation_p.A95G|CCDC14_uc010hrt.2_Missense_Mutation_p.A254G|CCDC14_uc003egy.3_Missense_Mutation_p.A95G|CCDC14_uc003egz.2_Missense_Mutation_p.A95G	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	295						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		AGTACAGGTTGCAGAAACTGT	0.393													23	86					0	0	0.016522	0	0		C	123666111	C	C	123666111	3	2	25	1	0	0	0	0	1	0	0	0	2776	1319	46	5	2001	5	CCDC14	3	123666111	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2458176	123666111	74356319	215	21215											
SNX4	8723	broad.mit.edu	37	chr3	125216990	125216990	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaattcactatatcgccgCcatagtgagtctgttaggac	11	12	8	10	2	3	1	2	1	1	0	4	2	3	2	2	1	0	1	2	1	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:125216990C>T	uc003eib.2	-	3	354	c.312G>A	c.(310-312)TGG>TGA	p.W104*	SNX4_uc011bkf.1_5'UTR	NM_003794	NP_003785	O95219	SNX4_HUMAN	sorting nexin 4	104	PX.				cell communication|endocytic recycling|endocytosis|protein transport	cytoplasmic dynein complex|early endosome membrane	phosphatidylinositol binding|protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4						TATATCGCCGCCATAGTGAGT	0.378													42	89					0	0	0.006999	0	0		T	125216990	T	T	125216990	4	4	25	1	0	0	0	0	0	1	0	0	14929	740	26	2	1088	2	SNX4	3	125216990	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1550879	125216990	72805440	216	21216											
KLF15	28999	broad.mit.edu	37	chr3	126071104	126071104	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcacgggctggatctgcAgcaacactgggatggggcca	9	5	16	11	1	1	0	0	0	1	0	1	2	1	2	1	6	3	4	1	6	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:126071104A>G	uc011bkk.1	-	2	844	c.662T>C	c.(661-663)CTG>CCG	p.L221P		NM_014079	NP_054798	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	221						nucleus	DNA binding|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(114;0.147)		CTGGATCTGCAGCAACACTGG	0.672													7	13					0	0	0.001984	0	0		G	126071104	G	G	126071104	3	3	25	1	0	0	0	0	1	0	0	0	8359	188	7	3	596	3	KLF15	3	126071104	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	854114	126071104	71951326	217	21217											
PLXNA1	5361	broad.mit.edu	37	chr3	126736387	126736387	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggcttcgtcatggacaaCgtgcgctccctgcttgtgct	4	12	12	13	3	1	0	1	0	0	0	3	1	2	1	1	2	4	4	1	2	1	2	rs148780407		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:126736387C>T	uc003ejg.2	+	17	3331	c.3327C>T	c.(3325-3327)AAC>AAT	p.N1109N		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1132	Extracellular (Potential).|IPT/TIG 3.				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TCATGGACAACGTGCGCTCCC	0.652													78	319					0	0	0.01441	0	0		T	126736387	T	T	126736387	2	4	25	1	0	0	0	0	0	0	0	1	12138	535	19	1		1	PLXNA1	3	126736387	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	665283	126736387	71286043	218	21218											
DNAJB8	165721	broad.mit.edu	37	chr3	128181483	128181483	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctccacgcgctcctgcccGttctccacgatgcgcttggt	4	10	9	18	5	1	0	0	0	1	0	4	1	3	0	5	1	2	3	5	1	0	2	rs148414049		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:128181483G>A	uc003ekk.1	-	3	2267	c.606C>T	c.(604-606)AAC>AAT	p.N202N	uc003ekl.1_5'Flank	NM_153330	NP_699161	Q8NHS0	DNJB8_HUMAN	DnaJ homolog, subfamily B, member 8	202					protein folding		heat shock protein binding|unfolded protein binding				0				GBM - Glioblastoma multiforme(114;0.177)		GCTCCTGCCCGTTCTCCACGA	0.607													46	161					0	0	0.01441	0	0		A	128181483	A	A	128181483	2	1	25	1	0	0	0	0	0	0	0	1	4632	1136	40	1		1	DNAJB8	3	128181483	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1445096	128181483	69840947	219	21219											
TOPBP1	11073	broad.mit.edu	37	chr3	133327401	133327401	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatgagataatcagcaatgTattctgttctcaagcagtac	13	12	8	8	0	3	1	2	1	2	1	4	2	3	1	0	0	3	6	0	0	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:133327401T>C	uc003eps.2	-	27	4535	c.4403A>G	c.(4402-4404)TAC>TGC	p.Y1468C		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	1468	BRCT 8.				DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						ATCAGCAATGTATTCTGTTCT	0.388								Other_conserved_DNA_damage_response_genes					25	129					0	0	0.021523	0	0		C	133327401	C	C	133327401	3	2	25	1	0	0	0	0	1	0	0	0	16395	1638	57	3	173	3	TOPBP1	3	133327401	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	5145918	133327401	64695029	220	21220											
NCK1	4690	broad.mit.edu	37	chr3	136665004	136665004	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctccacagtgtgattacaTtaggccttcactcactggaa	11	11	7	12	0	2	1	2	1	0	0	3	2	3	2	3	2	1	0	3	2	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:136665004T>C	uc003erh.2	+	3	913	c.806T>C	c.(805-807)ATT>ACT	p.I269T	NCK1_uc011bme.1_Missense_Mutation_p.I205T	NM_006153	NP_006144	P16333	NCK1_HUMAN	NCK adaptor protein 1	269					axon guidance|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of translation|signal complex assembly|T cell activation|T cell receptor signaling pathway	cytosol|endoplasmic reticulum|nucleus	cytoskeletal adaptor activity|receptor binding|receptor signaling complex scaffold activity			pancreas(1)	1						TGTGATTACATTAGGCCTTCA	0.403													56	288					0	0	0.01441	0	0		C	136665004	C	C	136665004	3	2	25	1	0	0	0	0	1	0	0	0	10238	1493	52	3	812	3	NCK1	3	136665004	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	3337603	136665004	61357426	221	21221											
RBP1	5947	broad.mit.edu	37	chr3	139257784	139257784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaagttggcgattttgcGcaaggccacattgacgtctg	9	10	12	10	3	1	1	0	1	1	0	1	2	1	1	1	2	2	3	1	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:139257784G>A	uc003eti.2	-	2	388	c.277C>T	c.(277-279)CGC>TGC	p.R93C	RBP1_uc011bmx.1_Missense_Mutation_p.R93C|RBP1_uc010huj.2_RNA|RBP1_uc011bmy.1_Missense_Mutation_p.R93C	NM_002899	NP_002890	P09455	RET1_HUMAN	retinol binding protein 1, cellular isoform a	31						cytoplasm	retinal binding|retinol binding|transporter activity				0					Vitamin A(DB00162)	GCGATTTTGCGCAAGGCCACA	0.552													28	170					0	0	0.009535	0	0		A	139257784	A	A	139257784	3	1	25	1	0	0	0	0	1	0	0	0	13180	1087	38	1	396	1	RBP1	3	139257784	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2592780	139257784	58764646	222	21222											
ACPL2	92370	broad.mit.edu	37	chr3	141011879	141011879	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccggattctttacaatggCgtcgatgtcacattccacac	9	12	8	12	3	2	0	1	0	1	0	5	2	4	1	2	2	1	0	2	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:141011879C>T	uc003etu.2	+	8	1574	c.1275C>T	c.(1273-1275)GGC>GGT	p.G425G	ACPL2_uc003etv.2_Silent_p.G425G|ACPL2_uc011bna.1_Silent_p.G387G|ACPL2_uc011bnb.1_Silent_p.G408G	NM_152282	NP_689495	Q8TE99	ACPL2_HUMAN	acid phosphatase-like 2 precursor	425						extracellular region	acid phosphatase activity			skin(1)	1						TTTACAATGGCGTCGATGTCA	0.512													43	185					0	0	0.011902	0	0		T	141011879	T	T	141011879	2	4	25	1	0	0	0	0	0	0	0	1	166	755	27	1		1	ACPL2	3	141011879	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1754095	141011879	57010551	223	21223											
RASA2	5922	broad.mit.edu	37	chr3	141295889	141295889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagcagctttgtatttcttCgtttctttgctgtagccgta	5	19	9	8	2	2	1	0	1	2	0	3	1	2	1	1	0	4	7	1	0	3	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:141295889C>T	uc003etz.1	+	15	1531	c.1531C>T	c.(1531-1533)CGT>TGT	p.R511C	RASA2_uc010huq.1_Missense_Mutation_p.R511C|RASA2_uc003eua.1_Missense_Mutation_p.R511C|RASA2_uc011bnc.1_Missense_Mutation_p.R103C	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	511	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6						TGTATTTCTTCGTTTCTTTGC	0.358													45	209					0	0	0.01441	0	0		T	141295889	T	T	141295889	3	4	25	1	0	0	0	0	1	0	0	0	13086	884	31	1	1589	1	RASA2	3	141295889	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	284010	141295889	56726541	224	21224											
GPR160	26996	broad.mit.edu	37	chr3	169802275	169802275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacagaatgcttattctcGtcactgtcctttctatgtca	8	15	7	11	1	4	1	2	0	2	1	6	1	5	1	1	1	1	2	1	1	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:169802275G>A	uc003fgi.2	+	4	1105	c.515G>A	c.(514-516)CGT>CAT	p.R172H	GPR160_uc010hwq.2_Missense_Mutation_p.R172H	NM_014373	NP_055188	Q9UJ42	GP160_HUMAN	G protein-coupled receptor 160	172	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_cancers(22;3.26e-22)|all_epithelial(15;5.71e-27)|all_lung(20;8.41e-17)|Lung NSC(18;3.49e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			GCTTATTCTCGTCACTGTCCT	0.378													19	81					0	0	0.016522	0	0		A	169802275	A	A	169802275	3	1	25	1	0	0	0	0	1	0	0	0	6679	1145	40	1	517	1	GPR160	3	169802275	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	28506386	169802275	28220155	225	21225											
CCDC39	339829	broad.mit.edu	37	chr3	180364954	180364954	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcaacaatttttgcttcAagcgcttgtttttcttctga	8	19	6	8	1	4	1	2	1	2	0	4	1	4	1	0	0	3	4	0	0	3	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:180364954A>G	uc010hxe.2	-	11	1555	c.1440T>C	c.(1438-1440)CTT>CTC	p.L480L	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	480	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TTTTTGCTTCAAGCGCTTGTT	0.343													14	52					0	0	0.016723	0	0		G	180364954	G	G	180364954	2	3	25	1	0	0	0	0	0	0	0	1	2814	117	5	3		3	CCDC39	3	180364954	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	10562679	180364954	17657476	226	21226											
FAM131A	131408	broad.mit.edu	37	chr3	184062384	184062384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctccgtggagcctgagagcGactgctcacagaccgtgtcc	7	7	13	14	3	1	2	1	1	0	2	3	5	3	3	4	1	3	2	4	1	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:184062384G>A	uc003fog.2	+	3	1998	c.634G>A	c.(634-636)GAC>AAC	p.D212N	FAM131A_uc003fob.1_Missense_Mutation_p.D120N|FAM131A_uc003foc.2_Missense_Mutation_p.D158N|FAM131A_uc003foe.2_Missense_Mutation_p.D158N	NM_144635	NP_653236	Q6UXB0	F131A_HUMAN	hypothetical protein LOC131408 precursor	212						extracellular region				breast(1)	1	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCCTGAGAGCGACTGCTCACA	0.697													51	168					0	0	0.01441	0	0		A	184062384	A	A	184062384	3	1	25	1	0	0	0	0	1	0	0	0	5450	1058	37	1	749	1	FAM131A	3	184062384	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3697430	184062384	13960046	227	21227											
IGF2BP2	10644	broad.mit.edu	37	chr3	185363326	185363326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgtgggagcctcacttgCtgcgctgtgaggcgactccc	4	9	14	14	2	1	1	1	1	0	0	2	3	2	2	3	2	3	2	3	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:185363326C>T	uc003fpo.2	-	16	1872	c.1793G>A	c.(1792-1794)AGC>AAC	p.S598N	IGF2BP2_uc010hyi.2_Missense_Mutation_p.S541N|IGF2BP2_uc010hyj.2_Missense_Mutation_p.S535N|IGF2BP2_uc010hyk.2_Missense_Mutation_p.S462N|IGF2BP2_uc010hyl.2_Missense_Mutation_p.S492N|IGF2BP2_uc003fpp.2_Missense_Mutation_p.S555N|IGF2BP2_uc003fpq.2_Missense_Mutation_p.S603N	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	598					anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			GCCTCACTTGCTGCGCTGTGA	0.552													27	108					0	0	0.005443	0	0		T	185363326	T	T	185363326	3	4	25	1	0	0	0	0	1	0	0	0	7590	797	28	2	10	2	IGF2BP2	3	185363326	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1300942	185363326	12659104	228	21228											
BCL6	604	broad.mit.edu	37	chr3	187447327	187447327	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagggaagtagggggcatttCgggctgagggggcagcaggt	9	6	21	5	1	0	1	0	1	0	0	1	2	0	2	0	7	1	5	0	7	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:187447327C>T	uc003frp.3	-	5	1323	c.866G>A	c.(865-867)CGA>CAA	p.R289Q	BCL6_uc011bsf.1_Missense_Mutation_p.R289Q|BCL6_uc010hza.2_Missense_Mutation_p.R187Q|BCL6_uc003frq.1_Missense_Mutation_p.R289Q	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	289					negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		GGGGGCATTTCGGGCTGAGGG	0.542			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								48	180					0	0	0.01441	0	0		T	187447327	T	T	187447327	3	4	25	1	0	0	0	0	1	0	0	0	1377	884	31	1	1278	1	BCL6	3	187447327	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2084001	187447327	10575103	229	21229											
CLDN1	9076	broad.mit.edu	37	chr3	190030818	190030818	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaaggcacgggttgcttgCaatgtgcctggcagaaaaca	12	8	12	9	1	1	1	1	0	0	1	1	1	1	1	1	3	4	5	1	3	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:190030818C>T	uc003fsh.2	-	2	451	c.231G>A	c.(229-231)TTG>TTA	p.L77L		NM_021101	NP_066924	O95832	CLD1_HUMAN	claudin 1	77	Extracellular (Potential).				calcium-independent cell-cell adhesion|interspecies interaction between organisms	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity			lung(1)	1	all_cancers(143;2.95e-10)|Ovarian(172;0.0512)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.015)		GGGTTGCTTGCAATGTGCCTG	0.438													66	258					0	0	0.01441	0	0		T	190030818	T	T	190030818	2	4	25	1	0	0	0	0	0	0	0	1	3474	709	25	2		2	CLDN1	3	190030818	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2583491	190030818	7991612	230	21230											
MUC4	4585	broad.mit.edu	37	chr3	195507817	195507817	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtggtgtcacctgtggatActgaggaaaggctggtgaca	9	9	17	6	0	1	2	1	2	0	0	1	4	1	4	1	6	1	1	1	6	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:195507817A>G	uc011bto.1	-	3	10710	c.10250T>C	c.(10249-10251)GTA>GCA	p.V3417A	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_5'Flank|MUC4_uc011btg.1_5'Flank|MUC4_uc011bth.1_5'Flank|MUC4_uc011bti.1_5'Flank|MUC4_uc011btj.1_5'Flank|MUC4_uc011btk.1_5'Flank|MUC4_uc011btl.1_5'Flank|MUC4_uc011btm.1_5'Flank|MUC4_uc011btn.1_5'Flank|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		ACCTGTGGATACTGAGGAAAG	0.602													2	5					0	0	0.004672	0	0		G	195507817	G	G	195507817	3	3	25	1	0	0	0	0	1	0	0	0	9996	391	14	3		3	MUC4	3	195507817	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	5476999	195507817	2514613	231	21231											
PCYT1A	5130	broad.mit.edu	37	chr3	195975116	195975116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattagggaaaaggttcttcGcttgcatcagagctcgggcg	9	11	13	8	3	2	1	1	0	1	1	4	2	2	2	0	3	2	4	0	3	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:195975116G>A	uc003fwg.2	-	5	469	c.296C>T	c.(295-297)GCG>GTG	p.A99V	PCYT1A_uc003fwh.2_Missense_Mutation_p.A99V	NM_005017	NP_005008	P49585	PCY1A_HUMAN	choline phosphate cytidylyltransferase 1 alpha	99	Catalytic (Potential).					cytosol|soluble fraction	choline-phosphate cytidylyltransferase activity				0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.28e-24)|all cancers(36;1.01e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00259)	Choline(DB00122)	AAGGTTCTTCGCTTGCATCAG	0.428													48	165					0	0	0.01441	0	0		A	195975116	A	A	195975116	3	1	25	1	0	0	0	0	1	0	0	0	11629	1087	38	1	831	1	PCYT1A	3	195975116	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	467299	195975116	2047314	232	21232											
MFI2	4241	broad.mit.edu	37	chr3	196736547	196736547	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaataagggcacccacGgggacatcccagcctgcagg	10	5	12	14	1	1	1	0	1	1	0	2	2	2	2	3	4	2	2	3	4	2	1	rs146339339	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr3:196736547G>A	uc003fxk.3	-	11	1580	c.1467C>T	c.(1465-1467)CCC>CCT	p.P489P		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	489	Transferrin-like 2.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		GGGCACCCACGGGGACATCCC	0.627													18	102					0	0	0.012319	0	0		A	196736547	A	A	196736547	2	1	25	1	0	0	0	0	0	0	0	1	9540	1103	39	1		1	MFI2	3	196736547	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	761431	196736547	1285883	233	21233											
SLC26A1	10861	broad.mit.edu	37	chr4	983202	983202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggccagcagggcggtgcGtgggcgttgggtgcggccgg	2	5	24	10	6	0	0	0	0	0	0	0	0	0	0	2	7	3	2	2	7	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:983202G>A	uc003gcb.2	-	4	1903	c.1525C>T	c.(1525-1527)CGC>TGC	p.R509C	SLC26A1_uc003gbx.2_Intron|IDUA_uc003gby.2_Intron|IDUA_uc003gbz.2_Intron|IDUA_uc003gca.2_Intron|SLC26A1_uc003gcc.2_Missense_Mutation_p.R509C	NM_213613	NP_998778	Q9H2B4	S26A1_HUMAN	solute carrier family 26, member 1 isoform a	509						integral to membrane|plasma membrane	secondary active sulfate transmembrane transporter activity			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			AGGGCGGTGCGTGGGCGTTGG	0.706													3	7					0	0	0.004672	0	0		A	983202	A	A	983202	3	1	25	1	0	0	0	0	1	0	0	0	14539	1145	40	1	687	1	SLC26A1	4	983202	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08		983202	190171074	234	21234											
FAM193A	8603	broad.mit.edu	37	chr4	2641566	2641566	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcagagcaacttgccCgcactggtgtcacagatcag	9	10	9	13	1	4	2	3	0	1	2	4	2	4	2	1	1	3	2	1	1	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:2641566C>T	uc010icl.2	+	4	621	c.270C>T	c.(268-270)CCC>CCT	p.P90P	FAM193A_uc010ick.2_Silent_p.P290P|FAM193A_uc003gfd.2_Silent_p.P90P|FAM193A_uc011bvm.1_Silent_p.P90P|FAM193A_uc011bvn.1_Silent_p.P90P|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	90										ovary(3)	3						GCAACTTGCCCGCACTGGTGT	0.463													19	80					0	0	0.010504	0	0		T	2641566	T	T	2641566	2	4	25	1	0	0	0	0	0	0	0	1	5535	639	23	1		1	FAM193A	4	2641566	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1658364	2641566	188512710	235	21235											
HTT	3064	broad.mit.edu	37	chr4	3158843	3158843	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgttacaacaagtaaaTcctcatcactggggagtttc	11	12	8	10	0	2	0	2	0	0	0	5	1	4	1	2	2	2	3	2	2	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:3158843T>A	uc011bvq.1	+	29	3821	c.3676T>A	c.(3676-3678)TCC>ACC	p.S1226T		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1224					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		AACAAGTAAATCCTCATCACT	0.388													20	162					0	0	0.008871	0	0		A	3158843	A	A	3158843	3	1	25	1	0	0	0	0	1	0	0	0	7473	1435	50	5	3780	5	HTT	4	3158843	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	517277	3158843	187995433	236	21236											
HTT	3064	broad.mit.edu	37	chr4	3215861	3215861	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacttcatcctggaggcCggtgagtccccgtccatgaa	7	9	12	13	2	1	2	1	2	0	0	4	3	4	3	5	3	1	1	5	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:3215861C>T	uc011bvq.1	+	51	7102	c.6957C>T	c.(6955-6957)GCC>GCT	p.A2319A		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2317					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		TCCTGGAGGCCGGTGAGTCCC	0.453													7	49					0	0	0.001984	0	0		T	3215861	T	T	3215861	2	4	25	1	0	0	0	0	0	0	0	1	7473	666	23	1		1	HTT	4	3215861	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	57018	3215861	187938415	237	21237											
ZBTB49	166793	broad.mit.edu	37	chr4	4304082	4304082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacaaaacgttggatgaatcGcatccgcatgcttcaccatc	13	9	7	12	3	1	1	1	1	0	0	4	2	2	2	2	1	3	4	2	1	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:4304082G>A	uc003ghu.2	+	3	694	c.519G>A	c.(517-519)TCG>TCA	p.S173S	ZBTB49_uc003ghv.2_5'UTR|ZBTB49_uc010icy.2_RNA|ZBTB49_uc010icz.2_5'UTR	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	173					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TGGATGAATCGCATCCGCATG	0.473													32	164					0	0	0.013726	0	0		A	4304082	A	A	4304082	2	1	25	1	0	0	0	0	0	0	0	1	17575	1074	38	1		1	ZBTB49	4	4304082	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1088221	4304082	186850194	238	21238											
PPP2R2C	5522	broad.mit.edu	37	chr4	6349592	6349592	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttggaatgcttgtcacaCagggcagctgcccgcatgtc	7	9	12	13	2	1	0	1	0	0	0	2	1	1	1	1	2	3	5	1	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:6349592C>T	uc003gjc.2	-	6	1141	c.771G>A	c.(769-771)CTG>CTA	p.L257L	PPP2R2C_uc003gjb.2_Silent_p.L240L|PPP2R2C_uc011bwd.1_Silent_p.L250L|PPP2R2C_uc011bwe.1_Silent_p.L250L|PPP2R2C_uc003gja.2_Silent_p.L257L|PPP2R2C_uc003gjd.1_Silent_p.L345L	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	257	WD 4.				signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						GCTTGTCACACAGGGCAGCTG	0.637													9	31					0	0	0.006214	0	0		T	6349592	T	T	6349592	2	4	25	1	0	0	0	0	0	0	0	1	12408	465	17	4		4	PPP2R2C	4	6349592	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2045510	6349592	184804684	239	21239											
MAN2B2	23324	broad.mit.edu	37	chr4	6588807	6588807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttggcgcctctgccacgaCgcccaccctatttgcgctgg	4	10	11	16	4	1	0	0	0	1	0	1	1	1	0	4	2	2	2	4	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:6588807C>T	uc003gjf.1	+	4	512	c.476C>T	c.(475-477)ACG>ATG	p.T159M	MAN2B2_uc003gje.1_Missense_Mutation_p.T159M|MAN2B2_uc011bwf.1_Missense_Mutation_p.T159M	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	159					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						TCTGCCACGACGCCCACCCTA	0.607													18	82					0	0	0.012319	0	0		T	6588807	T	T	6588807	3	4	25	1	0	0	0	0	1	0	0	0	9235	536	19	1	490	1	MAN2B2	4	6588807	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	239215	6588807	184565469	240	21240											
AFAP1	60312	broad.mit.edu	37	chr4	7780516	7780516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccttttcacaacagccgCgggatccgctttctttggct	5	13	9	14	4	2	0	1	0	1	0	4	1	4	1	3	2	2	2	3	2	1	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:7780516C>T	uc003gkg.1	-	13	1891	c.1618G>A	c.(1618-1620)GCG>ACG	p.A540T	AFAP1_uc011bwk.1_Missense_Mutation_p.A624T|LOC84740_uc003gkd.3_RNA	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	540						actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						ACAACAGCCGCGGGATCCGCT	0.532													59	237					0	0	0.01441	0	0		T	7780516	T	T	7780516	3	4	25	1	0	0	0	0	1	0	0	0	353	768	27	1	594	1	AFAP1	4	7780516	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1191709	7780516	183373760	241	21241											
ABLIM2	84448	broad.mit.edu	37	chr4	7985012	7985012	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtctcgtccggtccacGtctttgggcagtttcacgcg	4	12	11	14	5	3	0	1	0	2	0	7	0	6	0	3	2	0	2	3	2	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:7985012G>A	uc003gko.2	-	19	1844	c.1701C>T	c.(1699-1701)GAC>GAT	p.D567D	ABLIM2_uc003gkk.2_Silent_p.D192D|ABLIM2_uc003gkl.2_Silent_p.D295D|ABLIM2_uc003gkj.3_Silent_p.D601D|ABLIM2_uc003gkm.3_Silent_p.D515D|ABLIM2_uc003gkp.2_Silent_p.D487D|ABLIM2_uc003gkq.2_Silent_p.D528D|ABLIM2_uc003gkr.2_Silent_p.D477D|ABLIM2_uc003gki.2_RNA	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	567	HP.				axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3						TCCGGTCCACGTCTTTGGGCA	0.592													4	15					0	0	0.014758	0	0		A	7985012	A	A	7985012	2	1	25	1	0	0	0	0	0	0	0	1	95	1136	40	1		1	ABLIM2	4	7985012	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	204496	7985012	183169264	242	21242											
SH3TC1	54436	broad.mit.edu	37	chr4	8216302	8216302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagttttccacctaccatgCtctcggtaaagaggtgaccc	10	10	9	12	1	1	2	0	1	1	1	3	3	2	2	4	2	2	3	4	2	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:8216302C>T	uc003gkv.3	+	5	577	c.476C>T	c.(475-477)GCT>GTT	p.A159V	SH3TC1_uc003gkw.3_Missense_Mutation_p.A83V|SH3TC1_uc003gkx.3_RNA	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	159							binding			large_intestine(2)|pancreas(1)	3						ACCTACCATGCTCTCGGTAAA	0.502													6	81					0	0	0.001984	0	0		T	8216302	T	T	8216302	3	4	25	1	0	0	0	0	1	0	0	0	14286	797	28	2	490	2	SH3TC1	4	8216302	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	231290	8216302	182937974	243	21243											
HTRA3	94031	broad.mit.edu	37	chr4	8307814	8307814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcctactggaggtgcggcGggggaacgacgacctcctct	6	8	14	13	4	2	0	0	0	2	0	4	4	3	2	3	5	3	0	3	5	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:8307814G>A	uc003gla.2	+	9	1517	c.1313G>A	c.(1312-1314)CGG>CAG	p.R438Q		NM_053044	NP_444272	P83110	HTRA3_HUMAN	HtrA serine peptidase 3 precursor	438	PDZ.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity			ovary(1)	1						GAGGTGCGGCGGGGGAACGAC	0.632													18	90					0	0	0.010504	0	0		A	8307814	A	A	8307814	3	1	25	1	0	0	0	0	1	0	0	0	7471	1116	39	1	1347	1	HTRA3	4	8307814	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	91512	8307814	182846462	244	21244											
ZNF518B	85460	broad.mit.edu	37	chr4	10445916	10445916	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatttgaagccaaagatgaCggcttcccacaggactcaat	13	9	8	11	1	1	3	1	2	0	1	2	4	2	4	2	2	1	1	2	2	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:10445916C>T	uc003gmn.2	-	3	2524	c.2037G>A	c.(2035-2037)CCG>CCA	p.P679P		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	679					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						CCAAAGATGACGGCTTCCCAC	0.443													47	218					0	0	0.01441	0	0		T	10445916	T	T	10445916	2	4	25	1	0	0	0	0	0	0	0	1	17988	523	19	1		1	ZNF518B	4	10445916	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2138102	10445916	180708360	245	21245											
BOD1L	259282	broad.mit.edu	37	chr4	13601751	13601751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagtcttccaccgagctcGtagagatgatgccactcccg	9	8	9	15	3	1	2	0	1	1	1	4	4	3	2	4	0	2	2	4	0	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:13601751G>A	uc003gmz.1	-	10	6890	c.6773C>T	c.(6772-6774)ACG>ATG	p.T2258M	BOD1L_uc010idr.1_Missense_Mutation_p.T1595M	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2258							DNA binding			ovary(5)|breast(1)	6						CACCGAGCTCGTAGAGATGAT	0.547													16	55					0	0	0.006122	0	0		A	13601751	A	A	13601751	3	1	25	1	0	0	0	0	1	0	0	0	1484	1145	40	1	2450	1	BOD1L	4	13601751	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3155835	13601751	177552525	246	21246											
SEL1L3	23231	broad.mit.edu	37	chr4	25760663	25760663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggattatcgtaccttcctCgattagcagggccaggttaa	9	12	11	9	2	0	0	0	0	0	0	3	2	1	1	3	3	2	3	3	3	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:25760663C>T	uc003gru.3	-	21	3135	c.2983G>A	c.(2983-2985)GAG>AAG	p.E995K	SEL1L3_uc003grt.2_Missense_Mutation_p.E43K|SEL1L3_uc003grv.2_Missense_Mutation_p.E402K	NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	995						integral to membrane	binding				0						GTACCTTCCTCGATTAGCAGG	0.393													31	156					0	0	0.008361	0	0		T	25760663	T	T	25760663	3	4	25	1	0	0	0	0	1	0	0	0	14037	893	31	1	431	1	SEL1L3	4	25760663	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	12158912	25760663	165393613	247	21247											
STIM2	57620	broad.mit.edu	37	chr4	27024297	27024297	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcctcccgaggggattcGcctgtaactgtggatgtgtc	6	12	13	10	2	0	0	0	0	0	0	4	4	2	2	3	3	1	1	3	3	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:27024297G>A	uc003gsh.3	+	13	2421	c.2205G>A	c.(2203-2205)TCG>TCA	p.S735S	STIM2_uc003gsg.3_Silent_p.S727S|STIM2_uc010iex.2_3'UTR|STIM2_uc010iey.2_3'UTR	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2	640	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)				GAGGGGATTCGCCTGTAACTG	0.473													41	139					0	0	0.00623	0	0		A	27024297	A	A	27024297	2	1	25	1	0	0	0	0	0	0	0	1	15309	1074	38	1		1	STIM2	4	27024297	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1263634	27024297	164129979	248	21248											
RELL1	768211	broad.mit.edu	37	chr4	37636637	37636637	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatccctctcgacaacaccGcccaccgtatgcagatgatg	11	7	7	16	3	1	2	0	1	1	1	3	3	2	2	4	0	2	2	4	0	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:37636637G>A	uc003gsz.2	-	5	642	c.552C>T	c.(550-552)GGC>GGT	p.G184G	RELL1_uc010ifc.2_Silent_p.G184G	NM_001085399	NP_001078868	Q8IUW5	RELL1_HUMAN	receptor expressed in lymphoid tissues like 1	184	Cytoplasmic (Potential).					cytoplasm|integral to membrane|microtubule cytoskeleton|plasma membrane					0						CGACAACACCGCCCACCGTAT	0.612													20	93					0	0	0.01892	0	0		A	37636637	A	A	37636637	2	1	25	1	0	0	0	0	0	0	0	1	13243	1074	38	1		1	RELL1	4	37636637	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	10612340	37636637	153517639	249	21249											
UGDH	7358	broad.mit.edu	37	chr4	39515753	39515753	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcatcaatattggtagAaaaaaaaagattttttcctc	16	13	6	6	0	2	2	2	0	0	2	4	2	3	2	1	2	0	2	1	2	7	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:39515753A>G	uc003guk.1	-	3	530	c.214T>C	c.(214-216)TCT>CCT	p.S72P	UGDH_uc011byp.1_5'UTR|UGDH_uc003gul.1_Missense_Mutation_p.S72P	NM_003359	NP_003350	O60701	UGDH_HUMAN	UDP-glucose dehydrogenase	72					glycosaminoglycan biosynthetic process|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	electron carrier activity|NAD binding|UDP-glucose 6-dehydrogenase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4					NADH(DB00157)	ATATTGGTAGAAAAAAAAAGA	0.299													20	92					0	0	0.016522	0	0		G	39515753	G	G	39515753	3	3	25	1	0	0	0	0	1	0	0	0	16966	246	9	3	1310	3	UGDH	4	39515753	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1879116	39515753	151638523	250	21250											
FRYL	285527	broad.mit.edu	37	chr4	48578234	48578234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttactttcttagcattgatgGggctactaaggaaaaaaaaa	16	12	8	5	0	1	1	0	1	1	0	1	2	1	2	0	3	3	2	0	3	8	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:48578234G>A	uc003gyh.1	-	24	3139	c.2534C>T	c.(2533-2535)CCC>CTC	p.P845L	FRYL_uc003gyk.2_Missense_Mutation_p.P845L	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	845					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						AGCATTGATGGGGCTACTAAG	0.328													19	82					0	0	0.007413	0	0		A	48578234	A	A	48578234	3	1	25	1	0	0	0	0	1	0	0	0	6078	1232	43	4	6671	4	FRYL	4	48578234	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	9062481	48578234	142576042	251	21251											
FRYL	285527	broad.mit.edu	37	chr4	48622707	48622707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcataagattcatcttccGttccattttggcgtctgtac	8	17	6	10	2	4	1	2	0	2	1	6	1	6	1	2	1	1	2	2	1	2	8	rs147277630	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:48622707G>A	uc003gyh.1	-	6	868	c.263C>T	c.(262-264)ACG>ATG	p.T88M	FRYL_uc003gyk.2_Missense_Mutation_p.T88M|FRYL_uc003gyl.1_Missense_Mutation_p.T139M|FRYL_uc003gym.1_Missense_Mutation_p.T88M	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	88					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TTCATCTTCCGTTCCATTTTG	0.423													40	197					0	0	0.013114	0	0		A	48622707	A	A	48622707	3	1	25	1	0	0	0	0	1	0	0	0	6078	1145	40	1	9014	1	FRYL	4	48622707	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	44473	48622707	142531569	252	21252											
PDGFRA	5156	broad.mit.edu	37	chr4	54249979	54249979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgatagtgatagtgacagcGatgatgatgaagatgatgtt	14	12	13	2	1	0	8	0	7	0	1	0	9	0	8	0	0	1	1	0	0	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:54249979G>A	uc003haa.2	+	5	454	c.268G>A	c.(268-270)GAT>AAT	p.D90N	FIP1L1_uc003gzx.3_Missense_Mutation_p.D75N|FIP1L1_uc011bzt.1_Missense_Mutation_p.D90N|FIP1L1_uc003gzy.2_Missense_Mutation_p.D90N|FIP1L1_uc011bzu.1_Missense_Mutation_p.D75N|FIP1L1_uc003gzz.2_Missense_Mutation_p.D75N|FIP1L1_uc003hab.2_Missense_Mutation_p.D78N|FIP1L1_uc003hac.2_Intron	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	tagtgacagcgatgatgatga	0.229			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			21	79					0	0	0.016522	0	0		A	54249979	A	A	54249979	3	1	25	1	0	0	0	0	1	0	0	0	11680	1058	37	1		1	PDGFRA	4	54249979	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5627272	54249979	136904297	253	21253											
FIP1L1	81608	broad.mit.edu	37	chr4	54325608	54325608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagcaccgaagctacacctGcagaataggcatggttttgg	12	8	12	9	1	0	2	0	0	0	2	0	3	0	2	2	3	4	5	2	3	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:54325608G>A	uc003gzy.2	+	18	1963	c.1777G>A	c.(1777-1779)GCA>ACA	p.A593T	PDGFRA_uc003haa.2_Intron|FIP1L1_uc011bzu.1_Missense_Mutation_p.A587T|FIP1L1_uc003gzz.2_Missense_Mutation_p.A519T|FIP1L1_uc003hab.2_Missense_Mutation_p.A558T|FIP1L1_uc003hac.2_Missense_Mutation_p.A347T|FIP1L1_uc010ign.2_RNA|FIP1L1_uc003had.2_Silent_p.L177L|FIP1L1_uc003hae.2_Silent_p.L180L	NM_030917	NP_112179	Q6UN15	FIP1_HUMAN	FIP1 like 1 isoform 1	593	Glu-rich.|Sufficient for interaction with CPSF1 and CSTF3.				mRNA processing	nucleus	RNA binding			ovary(1)|skin(1)	2			GBM - Glioblastoma multiforme(3;3.31e-36)|LUSC - Lung squamous cell carcinoma(32;0.0134)			AGCTACACCTGCAGAATAGGC	0.388			T	PDGFRA	idiopathic hypereosinophilic syndrome								44	175					0	0	0.01441	0	0		A	54325608	A	A	54325608	3	1	25	1	0	0	0	0	1	0	0	0	5910	1319	46	2	1878	2	FIP1L1	4	54325608	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	75629	54325608	136828668	254	21254											
LPHN3	23284	broad.mit.edu	37	chr4	62599176	62599176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataccagtacattgcagctGtggattacaaccccagggac	12	8	9	12	0	0	0	0	0	0	0	0	2	0	2	3	2	6	3	3	2	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:62599176G>A	uc010ihh.2	+	5	1272	c.1099G>A	c.(1099-1101)GTG>ATG	p.V367M	LPHN3_uc003hcq.3_Missense_Mutation_p.V367M|LPHN3_uc010ihg.1_Missense_Mutation_p.V435M|LPHN3_uc003hcs.1_Missense_Mutation_p.V196M	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	367	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						CATTGCAGCTGTGGATTACAA	0.398													8	58					0	0	0.006214	0	0		A	62599176	A	A	62599176	3	1	25	1	0	0	0	0	1	0	0	0	8935	1377	48	4	1117	4	LPHN3	4	62599176	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	8273568	62599176	128555100	255	21255											
NPFFR2	10886	broad.mit.edu	37	chr4	73012837	73012837	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaagaagaaaaatattacCgagtgagactcaactcccag	17	7	8	9	1	1	3	1	1	0	3	2	5	2	3	2	0	3	1	2	0	7	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:73012837C>A	uc003hgg.2	+	4	975	c.877C>A	c.(877-879)CGA>AGA	p.R293R	NPFFR2_uc010iig.1_Silent_p.R75R|NPFFR2_uc003hgi.2_Silent_p.R194R|NPFFR2_uc003hgh.2_Silent_p.R191R|NPFFR2_uc003hgj.2_RNA	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	293	Extracellular (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			AAAATATTACCGAGTGAGACT	0.438													56	246					5.57489e-27	6.07093e-27	0.01441	1	0		A	73012837	A	A	73012837	2	1	25	1	0	0	0	0	0	0	0	1	10597	644	23	5		5	NPFFR2	4	73012837	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	10413661	73012837	118141439	256	21256											
AFM	173	broad.mit.edu	37	chr4	74351751	74351751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggatcccgaagagaaatGccaggcttatgaaagtaaca	15	7	10	9	1	0	2	0	1	0	1	1	5	1	3	3	2	2	2	3	2	5	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:74351751G>A	uc003hhb.2	+	4	474	c.443G>A	c.(442-444)TGC>TAC	p.C148Y		NM_001133	NP_001124	P43652	AFAM_HUMAN	afamin precursor	148	Albumin 1.				vitamin transport		vitamin E binding			ovary(2)|central_nervous_system(1)	3	Breast(15;0.00102)		Epithelial(6;5.69e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|all cancers(17;0.000555)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GAAGAGAAATGCCAGGCTTAT	0.368													7	133					0	0	0.00308	0	0		A	74351751	A	A	74351751	3	1	25	1	0	0	0	0	1	0	0	0	361	1319	46	2	457	2	AFM	4	74351751	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1338914	74351751	116802525	257	21257											
PRDM8	56978	broad.mit.edu	37	chr4	81123474	81123474	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccagagcctcagcagcggTagcggcagcggcggcggcgg	6	2	19	14	6	1	1	1	0	0	1	1	1	1	1	2	6	5	3	2	6	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:81123474T>C	uc010ijo.2	+	8	1697	c.858T>C	c.(856-858)GGT>GGC	p.G286G	PRDM8_uc003hmb.3_Silent_p.G286G|PRDM8_uc003hmc.3_Silent_p.G286G	NM_020226	NP_064611	Q9NQV8	PRDM8_HUMAN	PR domain containing 8	286	Gly-rich.|Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TCAgcagcggtagcggcagcg	0.557											OREG0016246	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	23					0	0	0.004482	0	0		C	81123474	C	C	81123474	2	2	25	1	0	0	0	0	0	0	0	1	12484	1625	57	3		3	PRDM8	4	81123474	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	6771723	81123474	110030802	258	21258											
HELQ	113510	broad.mit.edu	37	chr4	84370022	84370022	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgcagcattaaaatctcagCcacgagggtttttccaccac	11	11	7	12	1	1	0	1	0	1	0	3	1	2	0	3	1	3	3	3	1	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:84370022C>A	uc003hom.2	-	3	1284	c.1105G>T	c.(1105-1107)GCT>TCT	p.A369S	HELQ_uc010ikb.2_Missense_Mutation_p.A369S|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA|HELQ_uc003hon.1_Missense_Mutation_p.A263S	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	369	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						AAAATCTCAGCCACGAGGGTT	0.373								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					29	143					2.12542e-12	2.25764e-12	0.00632	1	0		A	84370022	A	A	84370022	3	1	25	1	0	0	0	0	1	0	0	0	7063	739	26	5	2264	5	HELQ	4	84370022	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3246548	84370022	106784254	259	21259											
WDFY3	23001	broad.mit.edu	37	chr4	85638104	85638104	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcttcatatgcaaaaatgCtgcatgttctcttgagttga	11	16	7	7	0	3	2	1	2	2	0	4	2	3	2	0	0	3	5	0	0	4	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:85638104C>A	uc003hpd.2	-	49	8228	c.7820G>T	c.(7819-7821)AGC>ATC	p.S2607I	WDFY3_uc003hpe.1_Missense_Mutation_p.S218I	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2607						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TGCAAAAATGCTGCATGTTCT	0.383													32	175					1.1904e-30	1.30145e-30	0.013726	1	0		A	85638104	A	A	85638104	3	1	25	1	0	0	0	0	1	0	0	0	17296	797	28	5	2840	5	WDFY3	4	85638104	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1268082	85638104	105516172	260	21260											
WDFY3	23001	broad.mit.edu	37	chr4	85738729	85738729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcttgcacctccaaattctCgaaaaattccttgaaggaag	14	11	6	10	1	2	1	0	1	2	0	5	3	4	2	3	1	1	1	3	1	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:85738729C>T	uc003hpd.2	-	13	2111	c.1703G>A	c.(1702-1704)CGA>CAA	p.R568Q	WDFY3_uc003hpf.2_Missense_Mutation_p.R568Q	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	568						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TCCAAATTCTCGAAAAATTCC	0.388													32	156					0	0	0.008361	0	0		T	85738729	T	T	85738729	3	4	25	1	0	0	0	0	1	0	0	0	17296	884	31	1	9144	1	WDFY3	4	85738729	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	100625	85738729	105415547	261	21261											
PDHA2	5161	broad.mit.edu	37	chr4	96761910	96761910	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaatcaggggcagatagcCgaagctttcaatatggcagc	12	7	13	9	2	2	1	2	0	0	1	2	3	2	1	1	3	3	3	1	3	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:96761910C>T	uc003htr.3	+	1	672	c.609C>T	c.(607-609)GCC>GCT	p.A203A		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	203					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	GGCAGATAGCCGAAGCTTTCA	0.458													16	99					0	0	0.012319	0	0		T	96761910	T	T	96761910	2	4	25	1	0	0	0	0	0	0	0	1	11684	639	23	1		1	PDHA2	4	96761910	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	11023181	96761910	94392366	262	21262											
PAPSS1	9061	broad.mit.edu	37	chr4	108565999	108565999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catgggagatgggaagatggCcaccactgtcgtctcaggat	10	8	14	9	1	1	2	1	0	1	2	3	5	1	4	2	4	0	0	2	4	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:108565999C>T	uc003hyk.2	-	10	1549	c.1465G>A	c.(1465-1467)GCC>ACC	p.A489T		NM_005443	NP_005434	O43252	PAPS1_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase	489	Adenylyl-sulfate kinase.				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|sulfate adenylyltransferase (ATP) activity			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.49e-05)		GGGAAGATGGCCACCACTGTC	0.488													17	87					0	0	0.006122	0	0		T	108565999	T	T	108565999	3	4	25	1	0	0	0	0	1	0	0	0	11453	739	26	2	421	2	PAPSS1	4	108565999	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	11804089	108565999	82588277	263	21263											
LEF1	51176	broad.mit.edu	37	chr4	109010379	109010379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggggtgagaggatggaccGcatgggatggctgcaccacg	8	5	20	8	2	0	1	0	1	0	1	0	5	0	4	2	7	1	3	2	7	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:109010379G>A	uc003hyt.1	-	4	1104	c.449C>T	c.(448-450)GCG>GTG	p.A150V	LEF1_uc011cfj.1_Missense_Mutation_p.A35V|LEF1_uc011cfk.1_Missense_Mutation_p.A82V|LEF1_uc003hyu.1_Missense_Mutation_p.A150V|LEF1_uc003hyv.1_Missense_Mutation_p.A150V|LEF1_uc010imb.1_RNA	NM_016269	NP_057353	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1 isoform 1	150	Pro-rich.				canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		AGGATGGACCGCATGGGATGG	0.493													4	136					0	0	0.009096	0	0		A	109010379	A	A	109010379	3	1	25	1	0	0	0	0	1	0	0	0	8730	1087	38	1	866	1	LEF1	4	109010379	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	444380	109010379	82143897	264	21264											
PITX2	5308	broad.mit.edu	37	chr4	111553569	111553569	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcggctctcaggagagtcCgtgaactcgacctttttgat	7	14	10	10	3	1	3	1	2	1	1	5	5	2	3	2	2	1	1	2	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:111553569C>T	uc003iad.2	-	3	696	c.114G>A	c.(112-114)ACG>ACA	p.T38T	PITX2_uc003iae.2_Intron|PITX2_uc010iml.2_5'UTR|PITX2_uc003iaf.2_Silent_p.T38T	NM_153426	NP_700475	Q99697	PITX2_HUMAN	paired-like homeodomain transcription factor 2	38					determination of left/right symmetry|organ morphogenesis	transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription factor binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00222)		CAGGAGAGTCCGTGAACTCGA	0.652													16	96					0	0	0.003163	0	0		T	111553569	T	T	111553569	2	4	25	1	0	0	0	0	0	0	0	1	11974	639	23	1		1	PITX2	4	111553569	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2543190	111553569	79600707	265	21265											
PITX2	5308	broad.mit.edu	37	chr4	111554160	111554160	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagttggtctccattccccGttatctgcaaaacagaagag	11	10	9	11	1	2	2	0	0	2	2	4	2	3	2	3	1	2	4	3	1	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:111554160G>A	uc003iad.2	-	2	577	c.-5C>T	c.(-7--3)AACGG>AATGG		PITX2_uc003iae.2_Translation_Start_Site|PITX2_uc010iml.2_Translation_Start_Site|PITX2_uc003iaf.2_Translation_Start_Site	NM_153426	NP_700475	Q99697	PITX2_HUMAN	paired-like homeodomain transcription factor 2						determination of left/right symmetry|organ morphogenesis	transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription factor binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00222)		TCCATTCCCCGTTATCTGCAA	0.577													49	243					0	0	0.01441	0	0		A	111554160	A	A	111554160	1	1	25	1	0	0	0	0	0	0	0	0	11974	1160	40	1		1	PITX2	4	111554160	Translation_Start_Site	SNP	G	TCGA-BR-4370-01A-01D-1158-08	591	111554160	79600116	266	21266											
ANK2	287	broad.mit.edu	37	chr4	114251594	114251594	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcctggccagtcgcctgatCgaagttggaccttctggtgc	5	10	14	12	2	1	1	0	1	1	0	3	3	1	2	4	4	1	1	4	4	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:114251594C>T	uc003ibe.3	+	27	3193	c.3093C>T	c.(3091-3093)ATC>ATT	p.I1031I	ANK2_uc003ibd.3_Silent_p.I1022I|ANK2_uc003ibf.3_Silent_p.I1031I|ANK2_uc011cgc.1_Silent_p.I240I|ANK2_uc003ibg.3_Silent_p.I59I|ANK2_uc003ibc.2_Silent_p.I1007I|ANK2_uc011cgb.1_Silent_p.I1046I	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GTCGCCTGATCGAAGTTGGAC	0.532													14	64					0	0	0.003163	0	0		T	114251594	T	T	114251594	2	4	25	1	0	0	0	0	0	0	0	1	621	874	31	1		1	ANK2	4	114251594	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2697434	114251594	76902682	267	21267											
UGT8	7368	broad.mit.edu	37	chr4	115544628	115544628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaaggatgaaaaataccGgtgtttacctcatttccaga	14	11	8	8	1	1	2	1	1	0	1	2	3	2	3	3	2	3	2	3	2	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:115544628G>A	uc003ibs.2	+	2	1114	c.592G>A	c.(592-594)GGT>AGT	p.G198S	UGT8_uc003ibt.2_Missense_Mutation_p.G198S|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	198					central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		GAAAAATACCGGTGTTTACCT	0.463													20	191					0	0	0.007413	0	0		A	115544628	A	A	115544628	3	1	25	1	0	0	0	0	1	0	0	0	16991	1116	39	1	594	1	UGT8	4	115544628	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1293034	115544628	75609648	268	21268											
PRSS12	8492	broad.mit.edu	37	chr4	119203326	119203326	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccctgtaaaccgacccttaTaacgttcttcacaaaacctt	12	12	3	14	2	2	0	1	0	1	0	3	1	3	0	4	0	3	2	4	0	6	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:119203326T>C	uc003ica.1	-	13	2440	c.2393A>G	c.(2392-2394)TAT>TGT	p.Y798C		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	798	Peptidase S1.					membrane	scavenger receptor activity			skin(1)	1						CCGACCCTTATAACGTTCTTC	0.478													52	177					0	0	0.01441	0	0		C	119203326	C	C	119203326	3	2	25	1	0	0	0	0	1	0	0	0	12637	1406	49	3	238	3	PRSS12	4	119203326	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	3658698	119203326	71950950	269	21269											
PRDM5	11107	broad.mit.edu	37	chr4	121738035	121738035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacagagcactgaaaacttCgcgaagactcctttagactg	15	8	8	10	2	0	4	0	1	0	3	2	5	1	4	1	0	3	1	1	0	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:121738035C>T	uc003idn.2	-	6	945	c.695G>A	c.(694-696)CGA>CAA	p.R232Q	PRDM5_uc003ido.2_Intron|PRDM5_uc010ine.2_Intron|PRDM5_uc010inf.2_Intron	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	232					histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						CTGAAAACTTCGCGAAGACTC	0.373													72	333					0	0	0.01441	0	0		T	121738035	T	T	121738035	3	4	25	1	0	0	0	0	1	0	0	0	12482	884	31	1	1241	1	PRDM5	4	121738035	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2534709	121738035	69416241	270	21270											
TNIP3	79931	broad.mit.edu	37	chr4	122075821	122075821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtaattcttcatttaggCgttccttttccttctgaagt	7	19	6	9	1	3	1	1	1	2	0	5	1	5	1	2	1	0	2	2	1	3	9			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:122075821C>T	uc010ing.2	-	5	573	c.377G>A	c.(376-378)CGC>CAC	p.R126H	TNIP3_uc010inh.2_Missense_Mutation_p.R126H|TNIP3_uc011cgj.1_Missense_Mutation_p.R184H|TNIP3_uc010ini.2_Missense_Mutation_p.R126H	NM_024873	NP_079149	Q96KP6	TNIP3_HUMAN	TNFAIP3 interacting protein 3	126	Potential.									ovary(1)	1						TTCATTTAGGCGTTCCTTTTC	0.318													8	46					0	0	0.00308	0	0		T	122075821	T	T	122075821	3	4	25	1	0	0	0	0	1	0	0	0	16341	768	27	1	628	1	TNIP3	4	122075821	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	337786	122075821	69078455	271	21271											
KIAA1109	84162	broad.mit.edu	37	chr4	123097031	123097031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatggattcatcatttttcGgtggtggaaaatgtataacc	12	14	10	5	1	2	1	2	0	0	1	3	3	2	3	1	4	1	1	1	4	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:123097031G>A	uc003ieh.2	+	4	365	c.320G>A	c.(319-321)CGG>CAG	p.R107Q		NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	107					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ATCATTTTTCGGTGGTGGAAA	0.279													21	103					0	0	0.012319	0	0		A	123097031	A	A	123097031	3	1	25	1	0	0	0	0	1	0	0	0	8224	1116	39	1	334	1	KIAA1109	4	123097031	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1021210	123097031	68057245	272	21272											
KIAA1109	84162	broad.mit.edu	37	chr4	123176343	123176343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaggcttacaaaagttgctCgctttctccaagaaaatcct	13	11	6	11	1	1	1	0	0	1	1	4	1	2	1	2	1	2	4	2	1	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:123176343C>T	uc003ieh.2	+	38	6328	c.6283C>T	c.(6283-6285)CGC>TGC	p.R2095C	KIAA1109_uc003iel.1_Missense_Mutation_p.R30C|KIAA1109_uc003iek.2_Missense_Mutation_p.R714C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2095					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAAAGTTGCTCGCTTTCTCCA	0.338													27	117					0	0	0.021523	0	0		T	123176343	T	T	123176343	3	4	25	1	0	0	0	0	1	0	0	0	8224	884	31	1	6433	1	KIAA1109	4	123176343	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	79312	123176343	67977933	273	21273											
KIAA1109	84162	broad.mit.edu	37	chr4	123227182	123227182	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaccaattgtttatgcacagCctgtggcctttgatagaggt	9	13	11	8	0	0	2	0	1	0	1	0	3	0	2	3	2	2	2	3	2	3	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:123227182C>G	uc003ieh.2	+	55	9868	c.9823C>G	c.(9823-9825)CCT>GCT	p.P3275A	KIAA1109_uc003iel.1_Missense_Mutation_p.P1210A	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3275					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TTATGCACAGCCTGTGGCCTT	0.388													25	105					0	0	0.007291	0	0		G	123227182	G	G	123227182	3	3	25	1	0	0	0	0	1	0	0	0	8224	739	26	5	10041	5	KIAA1109	4	123227182	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	50839	123227182	67927094	274	21274											
BBS12	166379	broad.mit.edu	37	chr4	123664621	123664621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctggacatgtgcctatcGtttgtattatgctctaaaag	9	16	9	7	1	2	0	0	0	2	0	3	1	2	1	1	1	2	4	1	1	5	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:123664621G>A	uc003ieu.2	+	2	1767	c.1574G>A	c.(1573-1575)CGT>CAT	p.R525H		NM_152618	NP_689831	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	525					cellular protein metabolic process	cilium	ATP binding			ovary(2)	2						TGTGCCTATCGTTTGTATTAT	0.403									Bardet-Biedl_syndrome				57	214					0	0	0.01441	0	0		A	123664621	A	A	123664621	3	1	25	1	0	0	0	0	1	0	0	0	1338	1145	40	1	1576	1	BBS12	4	123664621	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	437439	123664621	67489655	275	21275											
FAT4	79633	broad.mit.edu	37	chr4	126411904	126411904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaacactacaagcagttcCgcagccacacaccaaaattt	15	8	4	14	1	1	0	1	0	0	0	2	0	2	0	3	0	4	3	3	0	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:126411904C>T	uc003ifj.3	+	17	13927	c.13927C>T	c.(13927-13929)CGC>TGC	p.R4643C	FAT4_uc011cgp.1_Missense_Mutation_p.R2884C|FAT4_uc003ifi.1_Missense_Mutation_p.R2120C	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4643	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAAGCAGTTCCGCAGCCACAC	0.517													7	102					0	0	0.001984	0	0		T	126411904	T	T	126411904	3	4	25	1	0	0	0	0	1	0	0	0	5706	652	23	1	13993	1	FAT4	4	126411904	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2747283	126411904	64742372	276	21276											
PCDH10	57575	broad.mit.edu	37	chr4	134071459	134071459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggctcgcgggtttcagaCggtgcccaactcaaggaccc	7	8	12	14	4	2	1	2	0	0	1	4	2	2	2	2	4	2	2	2	4	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:134071459C>T	uc003iha.2	+	1	990	c.164C>T	c.(163-165)ACG>ATG	p.T55M	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.T55M	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	55	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GGGTTTCAGACGGTGCCCAAC	0.517													46	163					0	0	0.01441	0	0		T	134071459	T	T	134071459	3	4	25	1	0	0	0	0	1	0	0	0	11526	536	19	1	166	1	PCDH10	4	134071459	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7659555	134071459	57082817	277	21277											
SLC7A11	23657	broad.mit.edu	37	chr4	139140513	139140513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcgtctttaaagttctgcGtttgacctgtaattagaata	11	15	9	6	2	2	2	0	1	2	1	2	2	2	2	1	1	1	3	1	1	6	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:139140513G>A	uc011chb.1	-	5	933	c.653C>T	c.(652-654)ACG>ATG	p.T218M		NM_014331	NP_055146	Q9UPY5	XCT_HUMAN	solute carrier family 7, (cationic amino acid	218	Extracellular (Potential).				blood coagulation|cellular nitrogen compound metabolic process|leukocyte migration|response to toxin	integral to membrane|plasma membrane	cystine:glutamate antiporter activity|protein binding			skin(1)	1	all_hematologic(180;0.166)				L-Cystine(DB00138)|L-Glutamic Acid(DB00142)|Sulfasalazine(DB00795)	AAAGTTCTGCGTTTGACCTGT	0.383													24	128					0	0	0.016522	0	0		A	139140513	A	A	139140513	3	1	25	1	0	0	0	0	1	0	0	0	14719	1145	40	1	884	1	SLC7A11	4	139140513	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5069054	139140513	52013763	278	21278											
CLGN	1047	broad.mit.edu	37	chr4	141321537	141321537	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataaagatgagtcttcctgTctgtaaagaactttttaagg	13	15	8	5	0	2	3	0	1	2	2	3	3	3	3	1	1	1	1	1	1	7	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:141321537T>A	uc011chi.1	-	8	886	c.668A>T	c.(667-669)GAC>GTC	p.D223V	CLGN_uc003iii.2_Missense_Mutation_p.D223V	NM_001130675	NP_001124147	O14967	CLGN_HUMAN	calmegin precursor	223	Lumenal (Potential).				protein folding	endoplasmic reticulum membrane|integral to membrane	calcium ion binding|unfolded protein binding			ovary(2)|skin(1)	3	all_hematologic(180;0.162)					AGTCTTCCTGTCTGTAAAGAA	0.254													26	153					0	0	0.021523	0	0		A	141321537	A	A	141321537	3	1	25	1	0	0	0	0	1	0	0	0	3527	1667	58	5	1200	5	CLGN	4	141321537	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	2181024	141321537	49832739	279	21279											
HHIP	64399	broad.mit.edu	37	chr4	145636548	145636548	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtagaggctacttttcCggtcacatcttgggatttgg	6	15	11	9	1	2	1	1	0	1	1	4	2	4	2	2	4	1	2	2	4	2	6	rs141850394	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:145636548C>T	uc003ijs.1	+	10	2299	c.1644C>T	c.(1642-1644)TCC>TCT	p.S548S		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	548						cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		GCTACTTTTCCGGTCACATCT	0.443													28	145					0	0	0.008361	0	0		T	145636548	T	T	145636548	2	4	25	1	0	0	0	0	0	0	0	1	7108	639	23	1		1	HHIP	4	145636548	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4315011	145636548	45517728	280	21280											
ZNF827	152485	broad.mit.edu	37	chr4	146697029	146697029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtactcaccagcttcaCggaatggacggtcaagtgct	9	10	11	11	2	4	0	3	0	1	0	4	2	4	2	1	3	3	3	1	3	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:146697029C>T	uc003ikn.2	-	10	2653	c.2605G>A	c.(2605-2607)GTG>ATG	p.V869M	ZNF827_uc003ikm.2_Missense_Mutation_p.V869M|ZNF827_uc010iox.2_Missense_Mutation_p.V519M|ZNF827_uc003ikl.2_Translation_Start_Site	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	869					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					ACCAGCTTCACGGAATGGACG	0.498													38	131					0	0	0.019004	0	0		T	146697029	T	T	146697029	3	4	25	1	0	0	0	0	1	0	0	0	18205	536	19	1	644	1	ZNF827	4	146697029	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1060481	146697029	44457247	281	21281											
KIAA0922	23240	broad.mit.edu	37	chr4	154548824	154548824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctgccgggcccacaggtGttgaagaagataaaggtgag	11	8	14	8	1	0	4	0	2	0	2	1	4	1	4	3	3	1	1	3	3	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:154548824G>A	uc003inm.3	+	31	4241	c.4189G>A	c.(4189-4191)GTT>ATT	p.V1397I	KIAA0922_uc010ipp.2_Missense_Mutation_p.V1398I|KIAA0922_uc010ipq.2_Missense_Mutation_p.V1166I	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	1397	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				GCCCACAGGTGTTGAAGAAGA	0.532													18	72					0	0	0.008871	0	0		A	154548824	A	A	154548824	3	1	25	1	0	0	0	0	1	0	0	0	8217	1377	48	4	4314	4	KIAA0922	4	154548824	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	7851795	154548824	36605452	282	21282											
TLR2	7097	broad.mit.edu	37	chr4	154625419	154625419	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatacacagtgtaacaggcTgcattcccaagacactggaa	15	7	9	10	0	0	1	0	0	0	1	1	3	1	2	1	2	3	3	1	2	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:154625419T>C	uc003inq.2	+	3	1579	c.1360T>C	c.(1360-1362)TGC>CGC	p.C454R	TLR2_uc003inr.2_Missense_Mutation_p.C454R|TLR2_uc003ins.2_Missense_Mutation_p.C454R	NM_003264	NP_003255	O60603	TLR2_HUMAN	toll-like receptor 2 precursor	454	LRR 11.|Extracellular (Potential).				cellular response to diacyl bacterial lipopeptide|cellular response to lipoteichoic acid|cellular response to triacyl bacterial lipopeptide|detection of diacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|I-kappaB phosphorylation|induction of apoptosis|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of interferon-beta production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of Wnt receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|integral to plasma membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	Gram-positive bacterial cell surface binding|lipopolysaccharide receptor activity|peptidoglycan binding|protein heterodimerization activity|transmembrane receptor activity|triacyl lipopeptide binding			ovary(1)|lung(1)|breast(1)	3	all_hematologic(180;0.093)	Renal(120;0.117)				TGTAACAGGCTGCATTCCCAA	0.348													42	168					0	0	0.00874	0	0		C	154625419	C	C	154625419	3	2	25	1	0	0	0	0	1	0	0	0	15976	1580	55	3	1362	3	TLR2	4	154625419	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	76595	154625419	36528857	283	21283											
PDGFC	56034	broad.mit.edu	37	chr4	157684304	157684304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggtgctccagggccacgtCggtgagtgatttgtgcaatc	7	11	14	9	2	0	2	0	2	0	0	3	2	1	2	2	3	2	2	2	3	1	1	rs150603208	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:157684304C>T	uc003iph.1	-	6	1467	c.976G>A	c.(976-978)GAC>AAC	p.D326N	PDGFC_uc003ipi.1_Missense_Mutation_p.D163N|PDGFC_uc011cis.1_Missense_Mutation_p.D163N|PDGFC_uc011cir.1_Missense_Mutation_p.D170N	NM_016205	NP_057289	Q9NRA1	PDGFC_HUMAN	platelet-derived growth factor C precursor	326					central nervous system development|platelet-derived growth factor receptor signaling pathway|positive regulation of cell division|positive regulation of DNA replication|positive regulation of fibroblast proliferation|vascular endothelial growth factor receptor signaling pathway	endoplasmic reticulum lumen|extracellular space|Golgi membrane|nucleus	cell surface binding|growth factor activity|platelet-derived growth factor receptor binding|protein homodimerization activity			ovary(1)|lung(1)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.08)|Kidney(143;0.0977)|COAD - Colon adenocarcinoma(41;0.212)		AGGGCCACGTCGGTGAGTGAT	0.527													37	160					0	0	0.019004	0	0		T	157684304	T	T	157684304	3	4	25	1	0	0	0	0	1	0	0	0	11678	884	31	1	65	1	PDGFC	4	157684304	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3058885	157684304	33469972	284	21284											
GLRB	2743	broad.mit.edu	37	chr4	158065087	158065087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctggatcaacccggacGcgagtgctgccagagtgccc	7	7	12	15	3	2	1	1	0	1	1	2	4	2	3	4	2	4	1	4	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:158065087G>A	uc003ipj.2	+	8	1082	c.880G>A	c.(880-882)GCG>ACG	p.A294T		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	294					nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	CAACCCGGACGCGAGTGCTGC	0.488													42	139					0	0	0.01441	0	0		A	158065087	A	A	158065087	3	1	25	1	0	0	0	0	1	0	0	0	6473	1087	38	1	906	1	GLRB	4	158065087	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	380783	158065087	33089189	285	21285											
GRIA2	2891	broad.mit.edu	37	chr4	158233934	158233934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgacaagaaagatgagatGtaccgatcactttttcaaga	17	10	8	6	1	2	5	2	2	0	4	2	7	2	5	1	0	1	1	1	0	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:158233934G>A	uc003ipm.3	+	4	1032	c.573G>A	c.(571-573)ATG>ATA	p.M191I	GRIA2_uc011cit.1_Missense_Mutation_p.M144I|GRIA2_uc003ipl.3_Missense_Mutation_p.M191I|GRIA2_uc003ipk.3_Missense_Mutation_p.M144I|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	191	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	AAGATGAGATGTACCGATCAC	0.403													32	153					0	0	0.009535	0	0		A	158233934	A	A	158233934	3	1	25	1	0	0	0	0	1	0	0	0	6784	1377	48	4	587	4	GRIA2	4	158233934	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	168847	158233934	32920342	286	21286											
GRIA2	2891	broad.mit.edu	37	chr4	158233975	158233975	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggagttaaaaaaggaacGgcgtgtaattctggactgtg	12	11	13	5	2	2	0	0	0	2	0	2	3	2	3	0	4	1	2	0	4	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:158233975G>T	uc003ipm.3	+	4	1073	c.614G>T	c.(613-615)CGG>CTG	p.R205L	GRIA2_uc011cit.1_Missense_Mutation_p.R158L|GRIA2_uc003ipl.3_Missense_Mutation_p.R205L|GRIA2_uc003ipk.3_Missense_Mutation_p.R158L|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	205	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	AAAAAGGAACGGCGTGTAATT	0.373													47	207					6.08268e-21	6.58759e-21	0.01441	1	0		T	158233975	T	T	158233975	3	4	25	1	0	0	0	0	1	0	0	0	6784	1116	39	5	628	5	GRIA2	4	158233975	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	41	158233975	32920301	287	21287											
FSTL5	56884	broad.mit.edu	37	chr4	162680595	162680595	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattcttcaagagccaggTgcttgtcagcattaaaatca	15	11	7	8	0	4	1	3	0	1	1	4	1	4	1	1	1	3	2	1	1	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:162680595T>C	uc003iqh.2	-	6	1131	c.695A>G	c.(694-696)CAC>CGC	p.H232R	FSTL5_uc003iqi.2_Missense_Mutation_p.H231R|FSTL5_uc010iqv.2_Missense_Mutation_p.H231R	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	232	2 (Potential).|EF-hand 2.					extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		AAGAGCCAGGTGCTTGTCAGC	0.343													37	123					0	0	0.005524	0	0		C	162680595	C	C	162680595	3	2	25	1	0	0	0	0	1	0	0	0	6094	1696	59	3	1892	3	FSTL5	4	162680595	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	4446620	162680595	28473681	288	21288											
TLL1	7092	broad.mit.edu	37	chr4	166924664	166924664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgataggcttttggcatgaaCacacaagaccagatcgagat	14	9	10	8	1	0	5	0	2	0	3	1	6	0	5	1	2	1	2	1	2	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:166924664C>T	uc003irh.1	+	6	1401	c.754C>T	c.(754-756)CAC>TAC	p.H252Y	TLL1_uc011cjn.1_Missense_Mutation_p.H252Y|TLL1_uc011cjo.1_Missense_Mutation_p.H76Y	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	252	Metalloprotease (By similarity).				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		TTGGCATGAACACACAAGACC	0.438													33	149					0	0	0.015359	0	0		T	166924664	T	T	166924664	3	4	25	1	0	0	0	0	1	0	0	0	15970	478	17	4	776	4	TLL1	4	166924664	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4244069	166924664	24229612	289	21289											
TLL1	7092	broad.mit.edu	37	chr4	167020437	167020437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcctgggcagagtgtggcGgacgattgaaagcagaatca	11	9	14	7	2	1	3	1	1	0	2	2	5	2	4	1	3	1	2	1	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:167020437G>A	uc003irh.1	+	20	3312	c.2665G>A	c.(2665-2667)GGA>AGA	p.G889R	TLL1_uc011cjn.1_Missense_Mutation_p.G912R|TLL1_uc011cjo.1_Missense_Mutation_p.G713R	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	889	CUB 5.				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		AGAGTGTGGCGGACGATTGAA	0.418													42	151					0	0	0.006999	0	0		A	167020437	A	A	167020437	3	1	25	1	0	0	0	0	1	0	0	0	15970	1117	39	1	2743	1	TLL1	4	167020437	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	95773	167020437	24133839	290	21290											
DDX60	55601	broad.mit.edu	37	chr4	169227765	169227765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actcttttgataagcatctcGaaaatgttgttcgaacatca	13	14	6	8	2	3	1	1	1	2	0	5	3	3	1	0	0	2	3	0	0	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:169227765G>A	uc003irp.2	-	5	663	c.371C>T	c.(370-372)TCG>TTG	p.S124L		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	124							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		TAAGCATCTCGAAAATGTTGT	0.393													44	147					0	0	0.011902	0	0		A	169227765	A	A	169227765	3	1	25	1	0	0	0	0	1	0	0	0	4381	1059	37	1	4903	1	DDX60	4	169227765	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2207328	169227765	21926511	291	21291											
SH3RF1	57630	broad.mit.edu	37	chr4	170043340	170043340	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attccagcagcagcagcagcGgcggtggcgcctggtggtgt	6	7	17	11	3	0	0	0	0	0	0	1	0	1	0	2	5	5	4	2	5	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:170043340G>A	uc003isa.1	-	7	1592	c.1257C>T	c.(1255-1257)GCC>GCT	p.A419A	SH3RF1_uc010irc.1_Silent_p.A119A	NM_020870	NP_065921	Q7Z6J0	SH3R1_HUMAN	SH3 domain containing ring finger 1	419	Poly-Ala.					Golgi apparatus|lamellipodium|perinuclear region of cytoplasm	ligase activity|zinc ion binding			breast(2)|lung(1)	3		Prostate(90;0.00267)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)		CAGCAGCAGCGGCGGTGGCGC	0.582													8	47					0	0	0.004482	0	0		A	170043340	A	A	170043340	2	1	25	1	0	0	0	0	0	0	0	1	14283	1103	39	1		1	SH3RF1	4	170043340	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	815575	170043340	21110936	292	21292											
SH3RF1	57630	broad.mit.edu	37	chr4	170190147	170190147	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgtttgatgccatccaGaagtctgaccagcaagatgt	10	11	9	11	0	2	4	0	2	2	2	3	4	3	4	4	0	2	2	4	0	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:170190147G>T	uc003isa.1	-	2	552	c.217C>A	c.(217-219)CTG>ATG	p.L73M		NM_020870	NP_065921	Q7Z6J0	SH3R1_HUMAN	SH3 domain containing ring finger 1	73						Golgi apparatus|lamellipodium|perinuclear region of cytoplasm	ligase activity|zinc ion binding			breast(2)|lung(1)	3		Prostate(90;0.00267)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)		ATGCCATCCAGAAGTCTGACC	0.527													37	113					6.29468e-14	6.70689e-14	0.021022	1	0		T	170190147	T	T	170190147	3	4	25	1	0	0	0	0	1	0	0	0	14283	933	33	5	2493	5	SH3RF1	4	170190147	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	146807	170190147	20964129	293	21293											
VEGFC	7424	broad.mit.edu	37	chr4	177713367	177713367	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgagaggtcgagtccggaCtcgaaggcggcggcggcggc	6	4	19	12	8	0	1	0	0	0	1	4	5	2	2	2	7	0	0	2	7	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:177713367C>T	uc003ius.1	-	1	529	c.99G>A	c.(97-99)GAG>GAA	p.E33E		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	33					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		CGAGTCCGGACTCGAAggcgg	0.582													8	39					0	0	0.00308	0	0		T	177713367	T	T	177713367	2	4	25	1	0	0	0	0	0	0	0	1	17178	564	20	4		4	VEGFC	4	177713367	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7523220	177713367	13440909	294	21294											
ODZ3	55714	broad.mit.edu	37	chr4	183267888	183267888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgcggaaatggggctccCtcacagaggttactctatca	9	11	11	10	1	3	1	2	0	1	1	4	2	4	2	1	4	2	2	1	4	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:183267888C>T	uc003ivd.1	+	2	354	c.317C>T	c.(316-318)CCT>CTT	p.P106L	ODZ3_uc010irv.1_Missense_Mutation_p.P106L	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	106	Cytoplasmic (Potential).|Teneurin N-terminal.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		ATGGGGCTCCCTCACAGAGGT	0.498													11	58					0	0	0.013537	0	0		T	183267888	T	T	183267888	3	4	25	1	0	0	0	0	1	0	0	0	10855	681	24	4	323	4	ODZ3	4	183267888	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	5554521	183267888	7886388	295	21295											
C4orf41	60684	broad.mit.edu	37	chr4	184614172	184614172	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agatgtgtggttttaaattgGcagggaggaggaggagatgc	11	10	18	2	0	0	2	0	0	0	2	0	6	0	5	0	6	1	2	0	6	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:184614172G>A	uc003ivx.2	+	20	2285	c.2109G>A	c.(2107-2109)TGG>TGA	p.W703*	C4orf41_uc003ivw.2_Nonsense_Mutation_p.W703*|C4orf41_uc010isc.2_Nonsense_Mutation_p.W47*|C4orf41_uc003ivy.2_Nonsense_Mutation_p.W309*	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	703											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		TTTTAAATTGGCAGGGAGGAG	0.453													22	156					0	0	0.014323	0	0		A	184614172	A	A	184614172	4	1	25	1	0	0	0	0	0	1	0	0	2273	1212	42	2	2183	2	C4orf41	4	184614172	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1346284	184614172	6540104	296	21296											
IRF2	3660	broad.mit.edu	37	chr4	185340636	185340636	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttagtacctgtatggattgcCcagtttctaaagagtggtgc	9	14	11	7	0	1	1	0	0	1	1	1	2	1	2	2	2	3	3	2	2	5	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr4:185340636C>A	uc003iwf.3	-	3	374	c.174G>T	c.(172-174)TGG>TGT	p.W58C		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	58	IRF tryptophan pentad repeat.			W -> R (in Ref. 1; CAA34073).	blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity	p.W58R(1)		ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		TATGGATTGCCCAGTTTCTAA	0.408													45	213					4.44712e-29	4.85428e-29	0.01441	1	0		A	185340636	A	A	185340636	3	1	25	1	0	0	0	0	1	0	0	0	7844	624	22	5	903	5	IRF2	4	185340636	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	726464	185340636	5813640	297	21297											
ZDHHC11	79844	broad.mit.edu	37	chr5	819657	819657	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgtgccatcgagccccCgtctgggtgtacacgagtgg	6	9	13	13	3	1	0	0	0	1	0	2	2	1	0	4	2	4	1	4	2	2	2	rs148805710	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:819657C>T	uc011cma.1	-	10	1513	c.1129G>A	c.(1129-1131)GGG>AGG	p.G377R	ZDHHC11_uc010itc.2_RNA|ZDHHC11_uc003jbj.2_RNA	NM_024786	NP_079062	Q9H8X9	ZDH11_HUMAN	zinc finger, DHHC-type containing 11	377						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)|pancreas(1)	2			Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)			ATCGAGCCCCCGTCTGGGTGT	0.582													29	155					0	0	0.012213	0	0		T	819657	T	T	819657	3	4	25	1	0	0	0	0	1	0	0	0	17626	652	23	1	121	1	ZDHHC11	5	819657	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08		819657	180095603	298	21298											
SLC12A7	10723	broad.mit.edu	37	chr5	1083980	1083980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaagaggccccagagcgCggaggtggctgagttgttgt	8	7	18	8	2	0	4	0	1	0	3	0	5	0	5	2	4	1	4	2	4	1	2	rs140054338		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:1083980C>T	uc003jbu.2	-	8	1075	c.1009G>A	c.(1009-1011)GCG>ACG	p.A337T		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	337					potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	CCCCAGAGCGCGGAGGTGGCT	0.662													13	53					0	0	0.010504	0	0		T	1083980	T	T	1083980	3	4	25	1	0	0	0	0	1	0	0	0	14413	768	27	1	2310	1	SLC12A7	5	1083980	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	264323	1083980	179831280	299	21299											
IRX4	50805	broad.mit.edu	37	chr5	1879904	1879904	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtgctggtggtctcgcgCgtggcgttcttgcgccgcgt	1	11	17	12	8	2	0	0	0	2	0	3	0	2	0	1	3	3	2	1	3	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:1879904C>T	uc003jcz.2	-	4	569	c.450G>A	c.(448-450)ACG>ACA	p.T150T	IRX4_uc011cmf.1_Silent_p.T11T	NM_016358	NP_057442	P78413	IRX4_HUMAN	iroquois homeobox 4	150	Homeobox; TALE-type.				heart development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(108;0.242)		TGGTCTCGCGCGTGGCGTTCT	0.642													20	96					0	0	0.012319	0	0		T	1879904	T	T	1879904	2	4	25	1	0	0	0	0	0	0	0	1	7862	755	27	1		1	IRX4	5	1879904	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	795924	1879904	179035356	300	21300											
PAPD7	11044	broad.mit.edu	37	chr5	6754978	6754978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgggcaacaggggacacCaccagtataaccgcaccggc	11	4	12	14	2	0	0	0	0	0	0	0	1	0	1	4	4	2	3	4	4	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:6754978C>T	uc003jdx.1	+	13	1678	c.1549C>T	c.(1549-1551)CAC>TAC	p.H517Y	PAPD7_uc011cmn.1_Missense_Mutation_p.H507Y|PAPD7_uc010itl.1_Missense_Mutation_p.H337Y	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	517					cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						CAGGGGACACCACCAGTATAA	0.622													8	65					0	0	0.010729	0	0		T	6754978	T	T	6754978	3	4	25	1	0	0	0	0	1	0	0	0	11445	594	21	4	1595	4	PAPD7	5	6754978	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4875074	6754978	174160282	301	21301											
CTNND2	1501	broad.mit.edu	37	chr5	11732318	11732318	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catccccgttggaggtgtttAagccggggctcagggaactc	7	9	14	11	2	1	0	1	0	0	0	3	2	2	2	3	5	2	3	3	5	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:11732318A>G	uc003jfa.1	-	2	249	c.104T>C	c.(103-105)TTA>TCA	p.L35S	CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	35					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GGAGGTGTTTAAGCCGGGGCT	0.507													4	165					0	0	0.009096	0	0		G	11732318	G	G	11732318	3	3	25	1	0	0	0	0	1	0	0	0	4023	372	13	3	3657	3	CTNND2	5	11732318	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	4977340	11732318	169182942	302	21302											
TRIO	7204	broad.mit.edu	37	chr5	14363855	14363855	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcagattatctcagacctCgagtcttggaatgatgagct	10	14	9	8	1	3	4	2	2	2	2	5	6	3	5	1	1	1	1	1	1	2	3	rs141315662		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:14363855C>T	uc003jff.2	+	14	2412	c.2406C>T	c.(2404-2406)CTC>CTT	p.L802L	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Silent_p.L753L|TRIO_uc003jfh.1_Silent_p.L451L	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	802					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					TCTCAGACCTCGAGTCTTGGA	0.433													28	126					0	0	0.008361	0	0		T	14363855	T	T	14363855	2	4	25	1	0	0	0	0	0	0	0	1	16578	871	31	1		1	TRIO	5	14363855	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2631537	14363855	166551405	303	21303											
C5orf22	55322	broad.mit.edu	37	chr5	31534451	31534451	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtaagttttttacatttcGactcacatccagacctcctt	10	16	4	11	1	1	1	1	0	0	1	4	2	3	1	3	0	1	2	3	0	2	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:31534451G>A	uc003jhj.3	+	2	281	c.154G>A	c.(154-156)GAC>AAC	p.D52N	RNASEN_uc003jhh.2_5'Flank|RNASEN_uc003jhg.2_5'Flank|RNASEN_uc003jhi.2_5'Flank|C5orf22_uc011cnw.1_RNA|C5orf22_uc003jhk.3_5'UTR	NM_018356	NP_060826	Q49AR2	CE022_HUMAN	hypothetical protein LOC55322	52										ovary(2)	2						TTTACATTTCGACTCACATCC	0.398													41	165					0	0	0.01441	0	0		A	31534451	A	A	31534451	3	1	25	1	0	0	0	0	1	0	0	0	2288	1058	37	1	160	1	C5orf22	5	31534451	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	17170596	31534451	149380809	304	21304											
PDZD2	23037	broad.mit.edu	37	chr5	32090175	32090175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcattccagggggcccctcGggggaggaccatctctactt	7	8	13	13	1	1	0	0	0	1	0	4	2	2	2	4	5	2	1	4	5	1	3	rs138558075		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:32090175G>A	uc003jhl.2	+	20	7009	c.6621G>A	c.(6619-6621)TCG>TCA	p.S2207S	PDZD2_uc003jhm.2_Silent_p.S2207S	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2207					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GGGGCCCCTCGGGGGAGGACC	0.582													8	572					0	0	0.00308	0	0		A	32090175	A	A	32090175	2	1	25	1	0	0	0	0	0	0	0	1	11720	1103	39	1		1	PDZD2	5	32090175	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	555724	32090175	148825085	305	21305											
CAPSL	133690	broad.mit.edu	37	chr5	35921207	35921207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccatctctcggtcatggcGcgctgtccctgccatctgag	4	10	11	16	4	3	1	1	1	2	0	6	1	4	1	3	2	1	1	3	2	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:35921207G>A	uc003jjt.1	-	2	111	c.16C>T	c.(16-18)CGC>TGC	p.R6C	CAPSL_uc003jju.1_Missense_Mutation_p.R6C	NM_001042625	NP_001036090	Q8WWF8	CAPSL_HUMAN	calcyphosine-like	6						cytoplasm	calcium ion binding			skin(1)	1	all_lung(31;0.000268)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.167)|Colorectal(62;0.202)			CGGTCATGGCGCGCTGTCCCT	0.612													14	62					0	0	0.020292	0	0		A	35921207	A	A	35921207	3	1	25	1	0	0	0	0	1	0	0	0	2642	1087	38	1	626	1	CAPSL	5	35921207	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3831032	35921207	144994053	306	21306											
NIPBL	25836	broad.mit.edu	37	chr5	36958222	36958222	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagagttgaaagataacCttggcagtgatgacccagaa	15	7	11	8	0	0	6	0	3	0	3	0	7	0	6	3	1	1	2	3	1	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:36958222C>A	uc003jkl.3	+	4	746	c.247C>A	c.(247-249)CTT>ATT	p.L83I	NIPBL_uc003jkk.3_Missense_Mutation_p.L83I	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	83					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GAAAGATAACCTTGGCAGTGA	0.393													6	103					0.00448238	0.00452822	0.004482	1	0		A	36958222	A	A	36958222	3	1	25	1	0	0	0	0	1	0	0	0	10447	681	24	5	257	5	NIPBL	5	36958222	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1037015	36958222	143957038	307	21307											
ITGA1	3672	broad.mit.edu	37	chr5	52227934	52227934	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagtaaacatttctatcccGgtaaaatatgaagttggact	14	13	8	6	1	1	1	0	1	1	0	2	2	2	2	1	2	1	4	1	2	8	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:52227934G>A	uc003jou.2	+	22	2881	c.2829G>A	c.(2827-2829)CCG>CCA	p.P943P	ITGA1_uc003jov.2_RNA|ITGA1_uc003jow.2_Silent_p.P474P	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	943	Extracellular (Potential).				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				TTTCTATCCCGGTAAAATATG	0.318													10	62					0	0	0.008291	0	0		A	52227934	A	A	52227934	2	1	25	1	0	0	0	0	0	0	0	1	7888	1103	39	1		1	ITGA1	5	52227934	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	15269712	52227934	128687326	308	21308											
MAST4	375449	broad.mit.edu	37	chr5	66459966	66459966	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatggtctctgccactccctCgacaggggcatctctgggaa	7	9	12	13	1	2	0	0	0	2	0	6	3	3	1	2	4	1	1	2	4	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:66459966C>T	uc003jut.1	+	28	4460	c.4392C>T	c.(4390-4392)CTC>CTT	p.L1464L	MAST4_uc003juw.2_Silent_p.L1392L|MAST4_uc003jux.2_5'Flank	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1656						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		GCCACTCCCTCGACAGGGGCA	0.652													3	18					0	0	0.004672	0	0		T	66459966	T	T	66459966	2	4	25	1	0	0	0	0	0	0	0	1	9345	871	31	1		1	MAST4	5	66459966	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	14232032	66459966	114455294	309	21309											
CCNB1	891	broad.mit.edu	37	chr5	68473458	68473458	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggctgtggcaaaggtgtaActtgtaaacttgagttggag	12	11	14	4	0	0	1	0	1	0	0	0	2	0	2	0	4	2	5	0	4	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:68473458A>G	uc003jvm.2	+	9	1479	c.1302A>G	c.(1300-1302)TAA>TAG	p.*434*	CCNB1_uc010ixb.2_Silent_p.*397*	NM_031966	NP_114172	P14635	CCNB1_HUMAN	cyclin B1	434					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitotic cell cycle spindle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|mitotic spindle stabilization|positive regulation of attachment of spindle microtubules to kinetochore|positive regulation of mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	condensed nuclear chromosome outer kinetochore|cytosol|microtubule organizing center|nucleoplasm|spindle pole					0		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		CAAAGGTGTAACTTGTAAACT	0.383													8	183					0	0	0.00308	0	0		G	68473458	G	G	68473458	2	3	25	1	0	0	0	0	0	0	0	1	2914	50	2	3		3	CCNB1	5	68473458	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	2013492	68473458	112441802	310	21310											
HMGCR	3156	broad.mit.edu	37	chr5	74647031	74647031	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacatctcctgtagtgacAcaaaagaaagtcccagacaa	17	7	6	11	0	2	3	1	1	1	2	4	3	3	3	2	0	0	1	2	0	5	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:74647031A>G	uc003kdp.2	+	10	1236	c.1080A>G	c.(1078-1080)ACA>ACG	p.T360T	HMGCR_uc011cst.1_Silent_p.T380T|HMGCR_uc003kdq.2_Silent_p.T360T	NM_000859	NP_000850	P04035	HMDH_HUMAN	3-hydroxy-3-methylglutaryl-Coenzyme A reductase	360	Linker.				cholesterol biosynthetic process|coenzyme A metabolic process|germ cell migration|gonad development|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal membrane	hydroxymethylglutaryl-CoA reductase (NADPH) activity|NADP binding			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;2.24e-54)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Cerivastatin(DB00439)|Fluvastatin(DB01095)|Lovastatin(DB00227)|NADH(DB00157)|Pravastatin(DB00175)|Rosuvastatin(DB01098)|Simvastatin(DB00641)	CTGTAGTGACACAAAAGAAAG	0.408													23	128					0	0	0.01892	0	0		G	74647031	G	G	74647031	2	3	25	1	0	0	0	0	0	0	0	1	7247	146	6	3		3	HMGCR	5	74647031	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	6173573	74647031	106268229	311	21311											
CMYA5	202333	broad.mit.edu	37	chr5	79033262	79033262	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcttcagcaaaaagcaacTatgctcaatttatatctaat	15	14	4	8	0	4	0	2	0	2	0	4	0	4	0	0	0	4	3	0	0	8	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:79033262T>C	uc003kgc.2	+	2	8746	c.8674T>C	c.(8674-8676)TAT>CAT	p.Y2892H		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2892						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AAAAAGCAACTATGCTCAATT	0.398													27	80					0	0	0.004656	0	0		C	79033262	C	C	79033262	3	2	25	1	0	0	0	0	1	0	0	0	3593	1522	53	3	8680	3	CMYA5	5	79033262	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	4386231	79033262	101881998	312	21312											
VCAN	1462	broad.mit.edu	37	chr5	82818051	82818051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggacctcaggcgctttctaCgccacagcccccagcaagca	9	6	9	17	2	2	0	1	0	1	0	2	1	2	1	4	2	4	3	4	2	2	2	rs149651541		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:82818051C>T	uc003kii.3	+	7	4282	c.3926C>T	c.(3925-3927)ACG>ATG	p.T1309M	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.T1309M|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1309	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GCGCTTTCTACGCCACAGCCC	0.448													35	169					0	0	0.017118	0	0		T	82818051	T	T	82818051	3	4	25	1	0	0	0	0	1	0	0	0	17164	536	19	1	3948	1	VCAN	5	82818051	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3784789	82818051	98097209	313	21313											
NR2F1	7025	broad.mit.edu	37	chr5	92923980	92923980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctatgccgctgcacgtggCgccgttgctggccgccgccg	2	8	14	17	7	1	0	0	0	1	0	1	0	1	0	5	2	3	4	5	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:92923980C>T	uc003kkj.2	+	2	2508	c.821C>T	c.(820-822)GCG>GTG	p.A274V		NM_005654	NP_005645	P10589	COT1_HUMAN	nuclear receptor subfamily 2, group F, member 1	274					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			urinary_tract(1)|ovary(1)|lung(1)	3		all_cancers(142;1.62e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0416)|all cancers(79;9.57e-18)		CTGCACGTGGCGCCGTTGCTG	0.672													20	65					0	0	0.021523	0	0		T	92923980	T	T	92923980	3	4	25	1	0	0	0	0	1	0	0	0	10646	768	27	1	827	1	NR2F1	5	92923980	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	10105929	92923980	87991280	314	21314											
FAM172A	83989	broad.mit.edu	37	chr5	93217343	93217343	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtgtatcttcggcttttCtacttcaatatagttttcat	8	20	5	8	2	4	0	2	0	2	0	5	0	4	0	0	1	2	3	0	1	6	11			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:93217343C>A	uc010jbd.2	-	7	826	c.619G>T	c.(619-621)GAA>TAA	p.E207*	FAM172A_uc011cuf.1_Nonsense_Mutation_p.E161*|FAM172A_uc011cug.1_Nonsense_Mutation_p.E97*|FAM172A_uc011cuh.1_Nonsense_Mutation_p.E60*|FAM172A_uc011cui.1_RNA|FAM172A_uc011cuj.1_Intron|FAM172A_uc003kkm.3_Nonsense_Mutation_p.E207*	NM_032042	NP_114431	Q8WUF8	F172A_HUMAN	hypothetical protein LOC83989 isoform 1	207						endoplasmic reticulum|extracellular region					0						TTCGGCTTTTCTACTTCAATA	0.323													12	96					2.27111e-07	2.3563e-07	0.013537	1	0		A	93217343	A	A	93217343	4	1	25	1	0	0	0	0	0	1	0	0	5503	922	32	5	651	5	FAM172A	5	93217343	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	293363	93217343	87697917	315	21315											
RGMB	285704	broad.mit.edu	37	chr5	98115503	98115503	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtgacctcatgagccagaGgaattgttccaaggatggac	12	8	12	9	0	1	3	1	2	0	1	2	6	2	6	3	3	1	1	3	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:98115503G>T	uc003knc.2	+	4	881	c.479G>T	c.(478-480)AGG>ATG	p.R160M	RGMB_uc003knb.2_Missense_Mutation_p.R160M	NM_001012761	NP_001012779	Q6NW40	RGMB_HUMAN	RGM domain family, member B	119					axon guidance|BMP signaling pathway|cell adhesion|positive regulation of transcription, DNA-dependent	anchored to plasma membrane|ER-Golgi intermediate compartment|membrane raft	identical protein binding				0		all_cancers(142;2.76e-08)|all_epithelial(76;2.98e-11)|all_lung(232;0.000485)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0587)		ATGAGCCAGAGGAATTGTTCC	0.552													17	67					4.7546e-09	4.96648e-09	0.004007	1	0		T	98115503	T	T	98115503	3	4	25	1	0	0	0	0	1	0	0	0	13306	1000	35	5	489	5	RGMB	5	98115503	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4898160	98115503	82799757	316	21316											
ST8SIA4	7903	broad.mit.edu	37	chr5	100147676	100147676	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagtacctatattttaagtCatcataataatgatatttga	17	16	4	4	0	2	2	2	2	0	0	2	2	2	2	1	0	1	1	1	0	8	9			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:100147676C>T	uc003knk.2	-	5	1283	c.955G>A	c.(955-957)GAC>AAC	p.D319N		NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	319	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		TATTTTAAGTCATCATAATAA	0.358													11	60					0	0	0.008291	0	0		T	100147676	T	T	100147676	3	4	25	1	0	0	0	0	1	0	0	0	15259	826	29	4	128	4	ST8SIA4	5	100147676	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2032173	100147676	80767584	317	21317											
TSLP	85480	broad.mit.edu	37	chr5	110407586	110407586	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtggaattgggtgtccaCgtatgttcccttttgcctta	5	15	13	8	1	0	0	0	0	0	0	2	1	2	1	3	4	1	2	3	4	3	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:110407586C>T	uc003kpb.2	+	1	197	c.-2C>T	c.(-4-0)CACGT>CATGT		TSLP_uc003kpa.2_Intron|TSLP_uc010jbt.1_5'Flank	NM_033035	NP_149024	Q969D9	TSLP_HUMAN	thymic stromal lymphopoietin isoform 1							extracellular space	cytokine activity				0		all_cancers(142;2.72e-05)|all_epithelial(76;4.39e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0417)|Ovarian(225;0.0443)|Colorectal(57;0.0464)|all_lung(232;0.0507)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.24e-08)|Epithelial(69;1.54e-07)|all cancers(49;1.73e-05)|COAD - Colon adenocarcinoma(37;0.109)		TGGGTGTCCACGTATGTTCCC	0.458													44	207					0	0	0.01441	0	0		T	110407586	T	T	110407586	1	4	25	1	0	0	0	0	0	0	0	0	16654	551	19	1		1	TSLP	5	110407586	Translation_Start_Site	SNP	C	TCGA-BR-4370-01A-01D-1158-08	10259910	110407586	70507674	318	21318											
SEMA6A	57556	broad.mit.edu	37	chr5	115783233	115783233	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgttgtgcatgagtggcgtGaggatggcctccggctttgg	4	11	17	9	3	0	2	0	2	0	0	1	3	1	3	3	5	1	3	3	5	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:115783233G>A	uc010jck.2	-	19	2878	c.2169C>T	c.(2167-2169)CTC>CTT	p.L723L	SEMA6A_uc003krx.3_Silent_p.L740L|SEMA6A_uc011cwe.1_Silent_p.L102L|SEMA6A_uc003krv.3_Silent_p.L150L|SEMA6A_uc003krw.3_Silent_p.L200L|SEMA6A_uc010jcj.2_Silent_p.L267L	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	723	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		TGAGTGGCGTGAGGATGGCCT	0.627													85	322					0	0	0.01441	0	0		A	115783233	A	A	115783233	2	1	25	1	0	0	0	0	0	0	0	1	14064	1277	45	4		4	SEMA6A	5	115783233	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5375647	115783233	65132027	319	21319											
KDM3B	51780	broad.mit.edu	37	chr5	137729043	137729043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgattctactgtagcctgccGtttctttcacttccggaggt	5	16	9	11	2	3	1	1	1	2	0	4	2	4	2	3	2	3	2	3	2	2	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:137729043G>A	uc003lcy.1	+	9	3013	c.2813G>A	c.(2812-2814)CGT>CAT	p.R938H	KDM3B_uc010jew.1_Missense_Mutation_p.R594H|KDM3B_uc011cys.1_5'UTR	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	938					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						GTAGCCTGCCGTTTCTTTCAC	0.458													5	26					0	0	0.004482	0	0		A	137729043	A	A	137729043	3	1	25	1	0	0	0	0	1	0	0	0	8143	1145	40	1	2847	1	KDM3B	5	137729043	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	21945810	137729043	43186217	320	21320											
HSPA9	3313	broad.mit.edu	37	chr5	137893663	137893663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggaactccacgaggggctgGtggaattccaatctaaaata	14	8	11	8	1	1	0	0	0	1	0	3	3	3	2	2	5	1	1	2	5	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:137893663G>A	uc003ldf.2	-	13	1636	c.1528C>T	c.(1528-1530)CCA>TCA	p.P510S	HSPA9_uc003lde.2_5'Flank|HSPA9_uc011cyw.1_Intron	NM_004134	NP_004125	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 precursor	510					anti-apoptosis|protein folding	cell surface|mitochondrial nucleoid	ATP binding|unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CGAGGGGCTGGTGGAATTCCA	0.393													31	108					0	0	0.013726	0	0		A	137893663	A	A	137893663	3	1	25	1	0	0	0	0	1	0	0	0	7433	1261	44	4	531	4	HSPA9	5	137893663	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	164620	137893663	43021597	321	21321											
CXXC5	51523	broad.mit.edu	37	chr5	139061006	139061006	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaaaatgtgaggaactcAaaaagaagccttccgctgct	15	8	9	9	1	2	3	2	1	0	2	3	4	3	4	2	1	3	2	2	1	6	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:139061006A>G	uc010jfg.1	+	2	1188	c.898A>G	c.(898-900)AAA>GAA	p.K300E	CXXC5_uc003let.2_Missense_Mutation_p.K300E	NM_016463	NP_057547	Q7LFL8	CXXC5_HUMAN	CXXC finger 5	300					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|nucleus	DNA binding|signal transducer activity|zinc ion binding			central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAGGAACTCAAAAAGAAGCC	0.562													33	293					0	0	0.012213	0	0		G	139061006	G	G	139061006	3	3	25	1	0	0	0	0	1	0	0	0	4102	131	5	3	900	3	CXXC5	5	139061006	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1167343	139061006	41854254	322	21322											
PSD2	84249	broad.mit.edu	37	chr5	139189047	139189047	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggaggacaagctcttaTctgcagtgcctgaggaaggc	10	8	15	8	0	2	1	0	1	2	0	2	5	2	5	1	5	3	2	1	5	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:139189047T>C	uc003leu.1	+	2	227	c.22T>C	c.(22-24)TCT>CCT	p.S8P		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	8					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAAGCTCTTATCTGCAGTGCC	0.627													8	12					0	0	0.00308	0	0		C	139189047	C	C	139189047	3	2	25	1	0	0	0	0	1	0	0	0	12669	1435	50	3	24	3	PSD2	5	139189047	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	128041	139189047	41726213	323	21323											
HARS	3035	broad.mit.edu	37	chr5	140059380	140059380	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagaaagatacagtgaggTcatagcgaagggacaggagc	15	7	14	5	1	1	3	1	1	0	2	1	6	1	5	0	3	3	0	0	3	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:140059380T>C	uc003lgv.2	-	4	471	c.389A>G	c.(388-390)GAC>GGC	p.D130G	HARS_uc003lgu.2_Missense_Mutation_p.D61G|HARS_uc011czm.1_Missense_Mutation_p.D90G|HARS_uc003lgw.2_Missense_Mutation_p.D130G|HARS_uc011czn.1_Missense_Mutation_p.D90G|HARS_uc010jfu.2_Missense_Mutation_p.D130G|HARS_uc011czo.1_Intron|HARS_uc011czp.1_Intron|HARS_uc011czq.1_Intron	NM_002109	NP_002100	P12081	SYHC_HUMAN	histidyl-tRNA synthetase	130					histidyl-tRNA aminoacylation	cytosol	ATP binding|histidine-tRNA ligase activity			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		L-Histidine(DB00117)	TACAGTGAGGTCATAGCGAAG	0.468													11	78					0	0	0.010729	0	0		C	140059380	C	C	140059380	3	2	25	1	0	0	0	0	1	0	0	0	6975	1667	58	3	1180	3	HARS	5	140059380	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	870333	140059380	40855880	324	21324											
PCDHA7	56141	broad.mit.edu	37	chr5	140216233	140216233	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcattctcccagcagaggcgGcagagggtgtgctctgggga	7	8	16	10	1	3	2	1	0	2	2	4	3	3	3	1	5	2	3	1	5	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:140216233G>A	uc003lhq.2	+	1	2265	c.2265G>A	c.(2263-2265)CGG>CGA	p.R755R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.R755R	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	755	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCAGAGGCGGCAGAGGGTGT	0.612													23	61					0	0	0.01892	0	0		A	140216233	A	A	140216233	2	1	25	1	0	0	0	0	0	0	0	1	11548	1190	42	2		2	PCDHA7	5	140216233	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	156853	140216233	40699027	325	21325											
PCDHA13	56136	broad.mit.edu	37	chr5	140262138	140262138	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatcgaccgcgaggagctGtgtgggcggagcgcggagtg	6	5	21	9	7	0	0	0	0	0	0	1	6	0	4	1	5	2	1	1	5	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:140262138G>A	uc003lif.2	+	1	285	c.285G>A	c.(283-285)CTG>CTA	p.L95L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.L95L|PCDHA13_uc003lid.2_Silent_p.L95L	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	95	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGAGGAGCTGTGTGGGCGGA	0.567													100	481					0	0	0.01441	0	0		A	140262138	A	A	140262138	2	1	25	1	0	0	0	0	0	0	0	1	11542	1364	48	4		4	PCDHA13	5	140262138	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	45905	140262138	40653122	326	21326											
PCDHB4	56131	broad.mit.edu	37	chr5	140503140	140503140	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctcaggtcgctggactaCgaggccctgcaggcgttcga	6	7	14	14	4	1	0	1	0	0	0	3	3	1	1	2	4	2	3	2	4	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:140503140C>T	uc003lip.1	+	1	1560	c.1560C>T	c.(1558-1560)TAC>TAT	p.Y520Y		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	520	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCTGGACTACGAGGCCCTGC	0.692													43	224					0	0	0.01441	0	0		T	140503140	T	T	140503140	2	4	25	1	0	0	0	0	0	0	0	1	11563	547	19	1		1	PCDHB4	5	140503140	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	241002	140503140	40412120	327	21327											
PCDHB9	56127	broad.mit.edu	37	chr5	140568769	140568769	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaatggggaggtgcgcacCgccaggctgctgagcgagcg	8	4	17	12	4	0	1	0	1	0	0	0	3	0	2	2	4	4	3	2	4	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:140568769C>T	uc003liw.1	+	3	1878	c.1878C>T	c.(1876-1878)ACC>ACT	p.T626T		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	626	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGTGCGCACCGCCAGGCTGC	0.692													26	168					0	0	0.00623	0	0		T	140568769	T	T	140568769	2	4	25	1	0	0	0	0	0	0	0	1	11568	652	23	1		1	PCDHB9	5	140568769	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	65629	140568769	40346491	328	21328											
PCDHGA2	56113	broad.mit.edu	37	chr5	140719316	140719316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatacgctcgtgggcaccCggatactcacggtgaccgcc	9	6	12	14	5	1	2	1	1	0	1	2	3	1	3	3	3	2	2	3	3	3	2	rs145851665		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:140719316C>T	uc003ljk.1	+	1	963	c.778C>T	c.(778-780)CGG>TGG	p.R260W	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.R260W	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	260	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGGGCACCCGGATACTCAC	0.532													37	168					0	0	0.005524	0	0		T	140719316	T	T	140719316	3	4	25	1	0	0	0	0	1	0	0	0	11573	643	23	1	780	1	PCDHGA2	5	140719316	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	150547	140719316	40195944	329	21329											
PCDHGA2	56113	broad.mit.edu	37	chr5	140720770	140720770	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcactttgtgggcgtggaCggggttcgggctttcctgca	3	12	16	10	4	0	0	0	0	0	0	3	1	1	1	1	5	1	4	1	5	0	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:140720770C>T	uc003ljk.1	+	1	2417	c.2232C>T	c.(2230-2232)GAC>GAT	p.D744D	PCDHGA1_uc003lji.1_Intron|PCDHGA3_uc003ljm.1_5'Flank|PCDHGA3_uc010jfx.1_5'Flank|PCDHGA2_uc011dao.1_Silent_p.D744D|PCDHGA3_uc011dap.1_5'Flank	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	744	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGCGTGGACGGGGTTCGGG	0.632													40	198					0	0	0.009718	0	0		T	140720770	T	T	140720770	2	4	25	1	0	0	0	0	0	0	0	1	11573	535	19	1		1	PCDHGA2	5	140720770	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1454	140720770	40194490	330	21330											
PCDHGA4	56111	broad.mit.edu	37	chr5	140735546	140735546	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacgttcctgtaggcactcGgctactcaccgtaaaagcca	11	8	9	13	3	1	0	1	0	0	0	3	1	2	0	3	2	3	5	3	2	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:140735546G>A	uc003ljq.1	+	1	779	c.779G>A	c.(778-780)CGG>CAG	p.R260Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.R260Q	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	260	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTAGGCACTCGGCTACTCACC	0.463													10	35					0	0	0.008291	0	0		A	140735546	A	A	140735546	3	1	25	1	0	0	0	0	1	0	0	0	11575	1116	39	1	781	1	PCDHGA4	5	140735546	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	14776	140735546	40179714	331	21331											
PCDHGB3	56102	broad.mit.edu	37	chr5	140751583	140751583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgcgaccagggctcgcctaCgctcagcgccaacgtgagcc	7	4	12	18	6	1	1	1	1	0	0	2	2	1	1	5	1	4	2	5	1	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:140751583C>T	uc003ljw.1	+	1	1622	c.1622C>T	c.(1621-1623)ACG>ATG	p.T541M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.T541M|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	541	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCTCGCCTACGCTCAGCGCC	0.692													17	70					0	0	0.00499	0	0		T	140751583	T	T	140751583	3	4	25	1	0	0	0	0	1	0	0	0	11583	536	19	1	1624	1	PCDHGB3	5	140751583	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	16037	140751583	40163677	332	21332											
PCDHGA6	56109	broad.mit.edu	37	chr5	140754301	140754301	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttactgccatggatggCggcgaccctgtccgctcaag	6	9	12	14	3	1	0	1	0	0	0	3	2	3	1	4	3	2	1	4	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:140754301C>T	uc003ljy.1	+	1	651	c.651C>T	c.(649-651)GGC>GGT	p.G217G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.G217G	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	217	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCATGGATGGCGGCGACCCTG	0.572													6	23					0	0	0.001168	0	0		T	140754301	T	T	140754301	2	4	25	1	0	0	0	0	0	0	0	1	11577	755	27	1		1	PCDHGA6	5	140754301	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2718	140754301	40160959	333	21333											
PCDHGC5	56097	broad.mit.edu	37	chr5	140869617	140869617	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaatgccactgatccagaCgagggcaccaacggccaact	12	5	9	15	2	1	2	1	1	0	1	2	3	2	2	4	2	3	1	4	2	3	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:140869617C>T	uc003lla.1	+	1	810	c.810C>T	c.(808-810)GAC>GAT	p.D270D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc003lky.1_Intron|PCDHGC5_uc011dbc.1_Silent_p.D270D	NM_018929	NP_061752	Q9Y5F6	PCDGM_HUMAN	protocadherin gamma subfamily C, 5 isoform 1	270	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGATCCAGACGAGGGCACCA	0.532													73	296					0	0	0.01441	0	0		T	140869617	T	T	140869617	2	4	25	1	0	0	0	0	0	0	0	1	11590	535	19	1		1	PCDHGC5	5	140869617	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	115316	140869617	40045643	334	21334											
PCDH12	51294	broad.mit.edu	37	chr5	141335044	141335044	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatctttgtgggactgcccGacttcacaaggctcacctgc	8	10	9	14	1	3	0	2	0	1	0	3	2	3	1	2	2	2	1	2	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:141335044G>A	uc003llx.2	-	1	3584	c.2373C>T	c.(2371-2373)GTC>GTT	p.V791V		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	791	Cytoplasmic (Potential).				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGACTGCCCGACTTCACAAG	0.622													14	58					0	0	0.020292	0	0		A	141335044	A	A	141335044	2	1	25	1	0	0	0	0	0	0	0	1	11529	1045	37	1		1	PCDH12	5	141335044	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	465427	141335044	39580216	335	21335											
PPARGC1B	133522	broad.mit.edu	37	chr5	149210433	149210433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcagatctaaaagtcaacGgccttgtgttaaggtatttc	11	13	8	9	1	3	1	2	0	1	1	4	1	3	1	2	2	1	2	2	2	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:149210433G>A	uc003lrc.2	+	4	611	c.569G>A	c.(568-570)CGG>CAG	p.R190Q	PPARGC1B_uc003lrb.1_Missense_Mutation_p.R190Q|PPARGC1B_uc003lrd.2_Intron|PPARGC1B_uc003lrf.2_Missense_Mutation_p.R169Q|PPARGC1B_uc003lre.1_Missense_Mutation_p.R169Q	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	190					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			AAAAGTCAACGGCCTTGTGTT	0.557													31	187					0	0	0.015359	0	0		A	149210433	A	A	149210433	3	1	25	1	0	0	0	0	1	0	0	0	12320	1116	39	1	590	1	PPARGC1B	5	149210433	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	7875389	149210433	31704827	336	21336											
GRIA1	2890	broad.mit.edu	37	chr5	153026617	153026617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgagctttcccgttgataCatccaatcagtttgtccttc	7	14	7	13	2	1	1	1	1	0	0	5	2	4	1	4	0	2	3	4	0	2	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:153026617C>T	uc003lva.3	+	3	715	c.350C>T	c.(349-351)ACA>ATA	p.T117I	GRIA1_uc003luy.3_Missense_Mutation_p.T117I|GRIA1_uc003luz.3_Missense_Mutation_p.T22I|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Intron|GRIA1_uc011dcx.1_Missense_Mutation_p.T48I|GRIA1_uc011dcy.1_Missense_Mutation_p.T127I|GRIA1_uc011dcz.1_Missense_Mutation_p.T127I|GRIA1_uc010jia.1_Missense_Mutation_p.T97I	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	117	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CCCGTTGATACATCCAATCAG	0.478													45	194					0	0	0.01441	0	0		T	153026617	T	T	153026617	3	4	25	1	0	0	0	0	1	0	0	0	6783	478	17	4	360	4	GRIA1	5	153026617	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3816184	153026617	27888643	337	21337											
ITK	3702	broad.mit.edu	37	chr5	156672939	156672939	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccacaggcaccaaattcccGgtgaagtgggcatccccaga	11	6	10	14	1	0	2	0	1	0	1	3	2	3	2	5	3	0	2	5	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:156672939G>A	uc003lwo.1	+	15	1645	c.1563G>A	c.(1561-1563)CCG>CCA	p.P521P		NM_005546	NP_005537	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase	521	Protein kinase.				cellular defense response|intracellular signal transduction|T cell receptor signaling pathway	cytosol|plasma membrane	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(12)|ovary(8)|skin(4)|stomach(1)|central_nervous_system(1)	26	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CCAAATTCCCGGTGAAGTGGG	0.557			T	SYK	peripheral T-cell lymphoma								50	197					0	0	0.01441	0	0		A	156672939	A	A	156672939	2	1	25	1	0	0	0	0	0	0	0	1	7925	1103	39	1		1	ITK	5	156672939	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3646322	156672939	24242321	338	21338											
ITK	3702	broad.mit.edu	37	chr5	156673004	156673004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagcaagtccgatgtgtggtCatttggtgagtgtcatgctg	7	13	14	7	1	2	1	2	1	0	0	3	2	3	1	1	2	2	2	1	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:156673004C>T	uc003lwo.1	+	15	1710	c.1628C>T	c.(1627-1629)TCA>TTA	p.S543L		NM_005546	NP_005537	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase	543	Protein kinase.				cellular defense response|intracellular signal transduction|T cell receptor signaling pathway	cytosol|plasma membrane	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(12)|ovary(8)|skin(4)|stomach(1)|central_nervous_system(1)	26	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GATGTGTGGTCATTTGGTGAG	0.532			T	SYK	peripheral T-cell lymphoma								57	311					0	0	0.01441	0	0		T	156673004	T	T	156673004	3	4	25	1	0	0	0	0	1	0	0	0	7925	838	29	4	1686	4	ITK	5	156673004	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	65	156673004	24242256	339	21339											
CYFIP2	26999	broad.mit.edu	37	chr5	156816213	156816213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaaatcgccattgctcGcgagggtgacctcctgacca	9	7	10	15	3	0	2	0	2	0	0	3	3	1	2	5	1	2	2	5	1	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:156816213G>A	uc003lwq.2	+	31	3362	c.3224G>A	c.(3223-3225)CGC>CAC	p.R1075H	CYFIP2_uc011ddn.1_Missense_Mutation_p.R1049H|CYFIP2_uc011ddo.1_Missense_Mutation_p.R879H|CYFIP2_uc003lwr.2_Missense_Mutation_p.R1075H|CYFIP2_uc003lws.2_Missense_Mutation_p.R1075H|CYFIP2_uc003lwt.2_Missense_Mutation_p.R978H|CYFIP2_uc011ddp.1_Missense_Mutation_p.R809H|CYFIP2_uc003lwv.2_Missense_Mutation_p.R30H	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	1100					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GCCATTGCTCGCGAGGGTGAC	0.577													8	48					0	0	0.016723	0	0		A	156816213	A	A	156816213	3	1	25	1	0	0	0	0	1	0	0	0	4141	1087	38	1	3334	1	CYFIP2	5	156816213	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	143209	156816213	24099047	340	21340											
EBF1	1879	broad.mit.edu	37	chr5	158267047	158267047	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagacccacctggaatctcCgcatgtcacgtgggtttccc	7	10	9	15	2	3	1	2	0	1	1	5	2	4	2	4	2	0	2	4	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:158267047C>T	uc010jip.2	-	7	928	c.626G>A	c.(625-627)CGG>CAG	p.R209Q	EBF1_uc011ddw.1_Missense_Mutation_p.R76Q|EBF1_uc011ddx.1_Missense_Mutation_p.R209Q|EBF1_uc003lxl.3_Missense_Mutation_p.R186Q	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	209					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTGGAATCTCCGCATGTCACG	0.388			T	HMGA2	lipoma								27	151					0	0	0.010818	0	0		T	158267047	T	T	158267047	3	4	25	1	0	0	0	0	1	0	0	0	4886	652	23	1	1189	1	EBF1	5	158267047	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1450834	158267047	22648213	341	21341											
GABRB2	2561	broad.mit.edu	37	chr5	160838047	160838047	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttaggtccatcatgcaggCagctgtggttgtgattctag	7	13	12	9	0	2	1	1	1	1	0	3	1	3	1	2	3	2	4	2	3	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:160838047C>T	uc003lys.1	-	6	693	c.475G>A	c.(475-477)GCC>ACC	p.A159T	GABRB2_uc011deh.1_5'UTR|GABRB2_uc003lyr.1_Missense_Mutation_p.A159T|GABRB2_uc003lyt.1_Missense_Mutation_p.A159T|GABRB2_uc010jiu.1_Missense_Mutation_p.A96T	NM_021911	NP_068711	P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	159	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|GABA-A receptor activity				0	Renal(175;0.00259)	Medulloblastoma(196;0.021)|all_neural(177;0.0463)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	ATCATGCAGGCAGCTGTGGTT	0.433													33	123					0	0	0.019004	0	0		T	160838047	T	T	160838047	3	4	25	1	0	0	0	0	1	0	0	0	6181	710	25	2	1087	2	GABRB2	5	160838047	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2571000	160838047	20077213	342	21342											
LCP2	3937	broad.mit.edu	37	chr5	169714973	169714973	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagagttggaggagtacttaCggcacccggagcttggggaa	10	8	16	7	2	0	1	0	0	0	1	0	5	0	5	1	6	3	4	1	6	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:169714973C>T	uc003man.1	-	3	395	c.188_splice	c.e3+1	p.P63_splice	LCP2_uc011det.1_Splice_Site	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2						immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		GGAGTACTTACGGCACCCGGA	0.522													14	55					0	0	0.003163	0	0		T	169714973	T	T	169714973	5	4	25	1	0	0	0	0	0	0	1	0	8708	550	19	1	1488	1	LCP2	5	169714973	Splice_Site	SNP	C	TCGA-BR-4370-01A-01D-1158-08	8876926	169714973	11200287	343	21343											
STC2	8614	broad.mit.edu	37	chr5	172744894	172744894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agactgttcgtcttcccactCgctgcttccggaaggtccct	5	12	9	15	3	1	1	0	0	1	1	6	2	4	2	3	2	1	3	3	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:172744894C>T	uc003mco.1	-	4	2175	c.865G>A	c.(865-867)GAG>AAG	p.E289K	STC2_uc003mcn.1_Missense_Mutation_p.E204K	NM_003714	NP_003705	O76061	STC2_HUMAN	stanniocalcin 2 precursor	289					cell surface receptor linked signaling pathway|cell-cell signaling	extracellular region	hormone activity			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.223)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TCTTCCCACTCGCTGCTTCCG	0.577													58	202					0	0	0.01441	0	0		T	172744894	T	T	172744894	3	4	25	1	0	0	0	0	1	0	0	0	15301	893	31	1	47	1	STC2	5	172744894	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3029921	172744894	8170366	344	21344											
HK3	3101	broad.mit.edu	37	chr5	176309124	176309124	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtagcaggcattggtgccGgttcctgcagagaggccaga	9	8	15	9	1	0	2	0	0	0	2	1	3	1	2	3	4	3	5	3	4	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:176309124G>A	uc003mfa.2	-	16	2150	c.2058C>T	c.(2056-2058)ACC>ACT	p.T686T	HK3_uc003mez.2_Silent_p.T242T	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	686	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CATTGGTGCCGGTTCCTGCAG	0.597													24	89					0	0	0.01892	0	0		A	176309124	A	A	176309124	2	1	25	1	0	0	0	0	0	0	0	1	7208	1103	39	1		1	HK3	5	176309124	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3564230	176309124	4606136	345	21345											
RGS14	10636	broad.mit.edu	37	chr5	176795177	176795177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctgggcgggactgcaaaCgccgccttgcgccgagagtc	7	5	16	13	5	0	1	0	0	0	1	1	4	0	2	3	2	4	2	3	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:176795177C>T	uc003mgf.2	+	8	941	c.759C>T	c.(757-759)AAC>AAT	p.N253N	RGS14_uc003mgg.1_Silent_p.N100N|RGS14_uc003mgh.2_Silent_p.N100N|RGS14_uc003mgi.2_Silent_p.N23N	NM_006480	NP_006471	O43566	RGS14_HUMAN	regulator of G-protein signalling 14	253					chromosome segregation|long-term memory|long-term synaptic potentiation|negative regulation of ERK1 and ERK2 cascade|negative regulation of MAP kinase activity|negative regulation of synaptic plasticity|nucleocytoplasmic transport|platelet-derived growth factor receptor signaling pathway|positive regulation of neurogenesis|regulation of DNA-dependent transcription in response to stress|regulation of G-protein coupled receptor protein signaling pathway|response to oxidative stress|spindle organization|visual learning|zygote asymmetric cell division	cell junction|centrosome|dendritic spine|microtubule|PML body|postsynaptic density|postsynaptic membrane|spindle pole	GDP-dissociation inhibitor activity|GTPase activator activity|microtubule binding|receptor signaling complex scaffold activity|receptor signaling protein activity			lung(1)	1	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGACTGCAAACGCCGCCTTGC	0.647													23	74					0	0	0.021523	0	0		T	176795177	T	T	176795177	2	4	25	1	0	0	0	0	0	0	0	1	13322	535	19	1		1	RGS14	5	176795177	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	486053	176795177	4120083	346	21346											
SLC34A1	6569	broad.mit.edu	37	chr5	176823997	176823997	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctacccgctcacactgggTtccaacatcggcaccaccac	9	6	7	19	2	1	0	1	0	0	0	3	0	2	0	5	2	2	3	5	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:176823997T>C	uc003mgk.3	+	12	1439	c.1338T>C	c.(1336-1338)GGT>GGC	p.G446G		NM_003052	NP_003043	Q06495	NPT2A_HUMAN	solute carrier family 34 (sodium phosphate),	446	Extracellular (Potential).				phosphate ion homeostasis|response to cadmium ion|response to lead ion|response to mercury ion|sodium ion transport	brush border membrane|integral to plasma membrane	protein binding|sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(1)	1	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCACACTGGGTTCCAACATCG	0.647													20	73					0	0	0.014323	0	0		C	176823997	C	C	176823997	2	2	25	1	0	0	0	0	0	0	0	1	14592	1712	60	3		3	SLC34A1	5	176823997	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	28820	176823997	4091263	347	21347											
NHP2	55651	broad.mit.edu	37	chr5	177580535	177580535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgaacctctttcacccCgcgccgaatctgcttctgct	5	14	6	16	3	5	1	1	1	4	0	5	2	5	1	4	0	3	2	4	0	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:177580535C>T	uc003mir.2	-	2	330	c.187G>A	c.(187-189)GGG>AGG	p.G63R	NHP2_uc003mis.2_Missense_Mutation_p.G63R	NM_017838	NP_060308	Q9NX24	NHP2_HUMAN	nucleolar protein family A, member 2 isoform a	63					rRNA pseudouridine synthesis	Cajal body|nucleolus|small nucleolar ribonucleoprotein complex	protein binding|snoRNA binding				0						TCTTTCACCCCGCGCCGAATC	0.542													85	347					0	0	0.01441	0	0		T	177580535	T	T	177580535	3	4	25	1	0	0	0	0	1	0	0	0	10428	652	23	1	286	1	NHP2	5	177580535	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	756538	177580535	3334725	348	21348											
ZNF354B	117608	broad.mit.edu	37	chr5	178311021	178311021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactggagagaaaccatatcGatgtttagaatgtgggatgt	13	12	12	4	1	0	2	0	0	0	2	1	6	0	4	1	2	2	1	1	2	5	4	rs115229877	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:178311021G>A	uc003mjl.2	+	5	1794	c.1568G>A	c.(1567-1569)CGA>CAA	p.R523Q	ZNF354B_uc003mjm.2_Missense_Mutation_p.R523Q	NM_058230	NP_478137	Q96LW1	Z354B_HUMAN	zinc finger protein 354B	523	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAACCATATCGATGTTTAGAA	0.383													25	126					0	0	0.007291	0	0		A	178311021	A	A	178311021	3	1	25	1	0	0	0	0	1	0	0	0	17890	1058	37	1	1582	1	ZNF354B	5	178311021	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	730486	178311021	2604239	349	21349											
MGAT1	4245	broad.mit.edu	37	chr5	180218922	180218922	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcggtcataggcctcccgCtgcaggtaagacaggtccag	8	8	12	13	2	2	1	1	0	1	1	5	1	4	1	3	4	1	3	3	4	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr5:180218922C>T	uc003mmg.3	-	2	1545	c.1050G>A	c.(1048-1050)CAG>CAA	p.Q350Q	MGAT1_uc010jlf.2_Silent_p.Q350Q|MGAT1_uc010jlg.2_Silent_p.Q350Q|MGAT1_uc003mmh.3_Silent_p.Q350Q|MGAT1_uc010jlh.2_Silent_p.Q350Q|MGAT1_uc003mmi.3_Silent_p.Q350Q	NM_002406	NP_002397	P26572	MGAT1_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	350	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(1)	1	all_cancers(89;1.11e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.0027)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00356)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGGCCTCCCGCTGCAGGTAAG	0.587													35	121					0	0	0.005524	0	0		T	180218922	T	T	180218922	2	4	25	1	0	0	0	0	0	0	0	1	9560	796	28	2		2	MGAT1	5	180218922	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1907901	180218922	696338	350	21350											
SLC22A23	63027	broad.mit.edu	37	chr6	3273381	3273381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccgagtagtccttgagctCggcgttggtgagcagcagtg	6	9	16	10	3	0	2	0	2	0	0	2	3	1	2	2	2	3	5	2	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:3273381C>T	uc003mvm.3	-	10	1969	c.1969G>A	c.(1969-1971)GAG>AAG	p.E657K	uc003mvi.1_Intron|SLC22A23_uc003mvn.3_Missense_Mutation_p.E376K|SLC22A23_uc003mvo.3_Missense_Mutation_p.E376K|SLC22A23_uc003mvp.1_RNA	NM_015482	NP_056297	A1A5C7	S22AN_HUMAN	solute carrier family 22, member 23 isoform a	657					ion transport	integral to membrane	transmembrane transporter activity			ovary(1)	1	Ovarian(93;0.0493)	all_hematologic(90;0.0905)				TCCTTGAGCTCGGCGTTGGTG	0.657													15	84					0	0	0.014323	0	0		T	3273381	T	T	3273381	3	4	25	1	0	0	0	0	1	0	0	0	14477	893	31	1	95	1	SLC22A23	6	3273381	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08		3273381	167841686	351	21351											
RREB1	6239	broad.mit.edu	37	chr6	7231875	7231875	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcggggagtttgccagcatCgagaagatgctggccaccac	10	6	14	11	2	0	2	0	0	0	2	1	4	0	3	3	3	4	3	3	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:7231875C>T	uc003mxc.2	+	10	3933	c.3543C>T	c.(3541-3543)ATC>ATT	p.I1181I	RREB1_uc003mxb.2_Silent_p.I1181I|RREB1_uc010jnx.2_Silent_p.I1181I	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1181					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				TTGCCAGCATCGAGAAGATGC	0.642													6	35					0	0	0.001984	0	0		T	7231875	T	T	7231875	2	4	25	1	0	0	0	0	0	0	0	1	13704	874	31	1		1	RREB1	6	7231875	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3958494	7231875	163883192	352	21352											
DSP	1832	broad.mit.edu	37	chr6	7583008	7583008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggaggatgagctgaatcGtgcaaaatcaactctagagg	13	8	13	7	1	2	3	1	2	1	1	3	5	2	5	0	3	3	3	0	3	5	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:7583008G>A	uc003mxp.1	+	24	5792	c.5513G>A	c.(5512-5514)CGT>CAT	p.R1838H	DSP_uc003mxq.1_Missense_Mutation_p.R1239H	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1838	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GAGCTGAATCGTGCAAAATCA	0.478													45	198					0	0	0.00874	0	0		A	7583008	A	A	7583008	3	1	25	1	0	0	0	0	1	0	0	0	4787	1145	40	1	5607	1	DSP	6	7583008	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	351133	7583008	163532059	353	21353											
NEDD9	4739	broad.mit.edu	37	chr6	11190803	11190803	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatccgtaacaccgccagtcGgtagtgaccagtgccattag	10	9	10	12	3	0	1	0	1	0	0	2	1	1	1	5	1	2	2	5	1	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:11190803G>A	uc003mzv.2	-	5	1466	c.1299C>T	c.(1297-1299)ACC>ACT	p.T433T	NEDD9_uc010joz.2_Silent_p.T433T|NEDD9_uc003mzw.3_Silent_p.T287T	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	433					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			ACCGCCAGTCGGTAGTGACCA	0.517													19	82					0	0	0.01892	0	0		A	11190803	A	A	11190803	2	1	25	1	0	0	0	0	0	0	0	1	10332	1103	39	1		1	NEDD9	6	11190803	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3607795	11190803	159924264	354	21354											
GFOD1	54438	broad.mit.edu	37	chr6	13365237	13365237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcatcttgatggtgccgCgcaggtagggcgaggggatg	7	8	18	8	3	2	1	1	1	1	0	2	3	2	2	1	5	1	3	1	5	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:13365237C>T	uc003nat.1	-	2	1576	c.911G>A	c.(910-912)CGC>CAC	p.R304H	GFOD1_uc003nas.1_Missense_Mutation_p.R201H	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	304						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			GATGGTGCCGCGCAGGTAGGG	0.697													27	103					0	0	0.007291	0	0		T	13365237	T	T	13365237	3	4	25	1	0	0	0	0	1	0	0	0	6358	768	27	1	265	1	GFOD1	6	13365237	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2174434	13365237	157749830	355	21355											
ATXN1	6310	broad.mit.edu	37	chr6	16306662	16306662	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcgtcttctgacttctcCagtttgcggctctctggcgc	2	15	11	13	3	4	1	0	1	4	0	7	1	4	1	1	3	1	3	1	3	0	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:16306662C>A	uc003nbt.2	-	9	3317	c.2346G>T	c.(2344-2346)CTG>CTT	p.L782L	ATXN1_uc010jpi.2_Silent_p.L782L|ATXN1_uc010jpj.1_RNA	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	782	Interaction with USP7.				cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				CTGACTTCTCCAGTTTGCGGC	0.527													24	149					4.4004e-07	4.56204e-07	0.01892	1	0		A	16306662	A	A	16306662	2	1	25	1	0	0	0	0	0	0	0	1	1210	581	21	5		5	ATXN1	6	16306662	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2941425	16306662	154808405	356	21356											
CAP2	10486	broad.mit.edu	37	chr6	17507411	17507411	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttacagaatgacgtggcCgcacttctgaaacccatatc	11	10	8	12	2	1	3	0	2	1	1	2	3	1	3	2	1	3	2	2	1	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:17507411C>T	uc003ncb.2	+	5	555	c.312C>T	c.(310-312)GCC>GCT	p.A104A	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Silent_p.A78A|CAP2_uc011djb.1_Silent_p.A104A|CAP2_uc011djc.1_Intron|CAP2_uc011djd.1_Intron	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	104					activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			ATGACGTGGCCGCACTTCTGA	0.473													27	117					0	0	0.00632	0	0		T	17507411	T	T	17507411	2	4	25	1	0	0	0	0	0	0	0	1	2623	639	23	1		1	CAP2	6	17507411	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1200749	17507411	153607656	357	21357											
CAP2	10486	broad.mit.edu	37	chr6	17543142	17543142	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggcttacattttcaaatgCgaaaaatcaactattcagat	15	13	6	7	1	3	1	3	0	0	1	3	2	3	1	0	1	3	1	0	1	6	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:17543142C>T	uc003ncb.2	+	10	1320	c.1077C>T	c.(1075-1077)TGC>TGT	p.C359C	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Silent_p.C333C|CAP2_uc011djb.1_Silent_p.C295C|CAP2_uc011djc.1_Silent_p.C247C|CAP2_uc011djd.1_Silent_p.C99C	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	359	C-CAP/cofactor C-like.				activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			TTTTCAAATGCGAAAAATCAA	0.333													45	199					0	0	0.01441	0	0		T	17543142	T	T	17543142	2	4	25	1	0	0	0	0	0	0	0	1	2623	776	27	1		1	CAP2	6	17543142	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	35731	17543142	153571925	358	21358											
NHLRC1	378884	broad.mit.edu	37	chr6	18122675	18122675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtgcgccagggcggccaCgcaggccaggcagaccacgt	7	2	17	15	5	0	1	0	0	0	1	0	1	0	1	4	5	1	2	4	5	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:18122675C>T	uc003ncl.1	-	1	177	c.163G>A	c.(163-165)GTG>ATG	p.V55M		NM_198586	NP_940988	Q6VVB1	NHLC1_HUMAN	NHL repeat containing 1	55	RING-type.				proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	endoplasmic reticulum|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0	Ovarian(93;0.016)|Breast(50;0.0245)	all_hematologic(90;0.165)	all cancers(50;0.0451)|Epithelial(50;0.0493)			AGGGCGGCCACGCAGGCCAGG	0.706													3	30					0	0	0.014758	0	0		T	18122675	T	T	18122675	3	4	25	1	0	0	0	0	1	0	0	0	10424	536	19	1	1028	1	NHLRC1	6	18122675	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	579533	18122675	152992392	359	21359											
TRIM38	10475	broad.mit.edu	37	chr6	25966916	25966916	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagcaactgaggcaggagAcattctgctgtccccagtgt	12	8	11	10	0	1	2	0	1	1	1	2	3	2	2	2	2	3	3	2	2	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:25966916A>T	uc003nfm.2	+	3	601	c.166A>T	c.(166-168)ACA>TCA	p.T56S	TRIM38_uc003nfn.2_Missense_Mutation_p.T56S	NM_006355	NP_006346	O00635	TRI38_HUMAN	tripartite motif-containing 38	56	RING-type.				positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular	signal transducer activity|zinc ion binding				0						GAGGCAGGAGACATTCTGCTG	0.498													4	105					0	0	0.009096	0	0		T	25966916	T	T	25966916	3	4	25	1	0	0	0	0	1	0	0	0	16538	275	10	5	168	5	TRIM38	6	25966916	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	7844241	25966916	145148151	360	21360											
BTN3A3	10384	broad.mit.edu	37	chr6	26448537	26448537	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagggaccctgcctatctcGttgctgcttctcgcaggagc	5	10	12	14	2	2	0	0	0	2	0	4	2	2	2	2	2	4	5	2	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:26448537G>A	uc003nhz.2	+	6	957	c.777G>A	c.(775-777)TCG>TCA	p.S259S	BTN3A3_uc003nia.2_Silent_p.S217S|BTN3A3_uc011dkn.1_Silent_p.S217S	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	259	Helical; (Potential).					integral to membrane					0						TGCCTATCTCGTTGCTGCTTC	0.562													28	97					0	0	0.00632	0	0		A	26448537	A	A	26448537	2	1	25	1	0	0	0	0	0	0	0	1	1567	1132	40	1		1	BTN3A3	6	26448537	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	481621	26448537	144666530	361	21361											
HIST1H2AG	8969	broad.mit.edu	37	chr6	27101205	27101205	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggccgtgctactgcccAaaaagactgagagccaccac	12	6	9	14	1	1	2	1	1	0	2	1	3	1	2	4	1	4	1	4	1	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:27101205A>C	uc003niw.2	+	1	389	c.355A>C	c.(355-357)AAA>CAA	p.K119Q	HIST1H2BJ_uc003niu.1_5'Flank|HIST1H2BJ_uc003niv.2_5'Flank	NM_021064	NP_066408	P0C0S8	H2A1_HUMAN	histone cluster 1, H2ag	119					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding				0						GCTACTGCCCAAAAAGACTGA	0.537													20	122					0	0	0.014323	0	0		C	27101205	C	C	27101205	3	2	25	1	0	0	0	0	1	0	0	0	7149	131	5	5	357	5	HIST1H2AG	6	27101205	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	652668	27101205	144013862	362	21362											
ZNF165	7718	broad.mit.edu	37	chr6	28056479	28056479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaagacatctgtaagtctgCaggcagggtaaagagacaat	15	8	11	7	0	3	2	1	0	2	2	3	3	3	2	0	2	1	4	0	2	5	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:28056479C>T	uc003nkg.2	+	5	1773	c.689C>T	c.(688-690)GCA>GTA	p.A230V	ZNF165_uc003nkh.2_Missense_Mutation_p.A230V|ZNF165_uc003nki.3_Missense_Mutation_p.A230V|ZSCAN12P1_uc003nkj.3_5'Flank	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	230					viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TGTAAGTCTGCAGGCAGGGTA	0.403													42	207					0	0	0.01441	0	0		T	28056479	T	T	28056479	3	4	25	1	0	0	0	0	1	0	0	0	17765	710	25	2	699	2	ZNF165	6	28056479	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	955274	28056479	143058588	363	21363											
GABBR1	2550	broad.mit.edu	37	chr6	29591092	29591092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcctcaccgaagtgaagAcctcagtggtctgctggatg	8	9	11	13	1	3	2	2	1	1	1	4	4	4	3	4	2	1	1	4	2	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:29591092A>G	uc003nmt.3	-	8	1289	c.953T>C	c.(952-954)GTC>GCC	p.V318A	GABBR1_uc003nmp.3_Missense_Mutation_p.V201A|GABBR1_uc003nms.3_Missense_Mutation_p.V201A|GABBR1_uc003nmu.3_Missense_Mutation_p.V256A|GABBR1_uc011dlr.1_Missense_Mutation_p.V141A|GABBR1_uc011dls.1_Missense_Mutation_p.V318A	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	318	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	CGAAGTGAAGACCTCAGTGGT	0.532													4	95					0	0	0.001168	0	0		G	29591092	G	G	29591092	3	3	25	1	0	0	0	0	1	0	0	0	6169	275	10	3	1996	3	GABBR1	6	29591092	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1534613	29591092	141523975	364	21364											
HLA-F	3134	broad.mit.edu	37	chr6	29694737	29694737	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggggtgctcttccaaggaTatttgggctgcctccggagt	5	12	15	9	1	1	0	0	0	1	0	3	2	3	2	3	5	2	2	3	5	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:29694737T>C	uc003nno.3	+	7	1238	c.1114T>C	c.(1114-1116)TAT>CAT	p.Y372H	HLA-F_uc011dlx.1_Missense_Mutation_p.Y372H|HLA-F_uc011dly.1_RNA|LOC285830_uc003nnp.2_RNA|LOC285830_uc011dlz.1_RNA	NM_001098479	NP_001091949	P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	Error:Variant_position_missing_in_P30511_after_alignment					antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity				0						CTTCCAAGGATATTTGGGCTG	0.493													88	250					0	0	0.01441	0	0		C	29694737	C	C	29694737	3	2	25	1	0	0	0	0	1	0	0	0	7227	1406	49	3	1149	3	HLA-F	6	29694737	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	103645	29694737	141420330	365	21365											
TRIM39	56658	broad.mit.edu	37	chr6	30303703	30303703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggacctggcccacttggCtgccgaggtggagggcaagt	6	6	17	12	2	0	0	0	0	0	0	0	3	0	2	4	6	1	2	4	6	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:30303703C>T	uc010jrz.2	+	5	1043	c.731C>T	c.(730-732)GCT>GTT	p.A244V	TRIM39_uc003npz.2_Missense_Mutation_p.A244V|TRIM39_uc003nqb.2_Missense_Mutation_p.A244V|TRIM39_uc003nqc.2_Missense_Mutation_p.A244V|TRIM39_uc010jsa.1_Missense_Mutation_p.A244V	NM_021253	NP_067076	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 1	244	Potential.				apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						GCCCACTTGGCTGCCGAGGTG	0.572													23	93					0	0	0.004656	0	0		T	30303703	T	T	30303703	3	4	25	1	0	0	0	0	1	0	0	0	16539	797	28	2	741	2	TRIM39	6	30303703	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	608966	30303703	140811364	366	21366											
ABCF1	23	broad.mit.edu	37	chr6	30554267	30554267	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaggtgtgacattcggctaCcagggacagaaaccactctt	11	9	10	11	1	2	2	1	1	1	1	3	3	2	3	2	3	2	1	2	3	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:30554267C>A	uc003nql.2	+	19	1997	c.1902C>A	c.(1900-1902)TAC>TAA	p.Y634*	ABCF1_uc003nqm.2_Nonsense_Mutation_p.Y596*|ABCF1_uc010jsb.2_Intron	NM_001025091	NP_001020262	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F, member 1	634	ABC transporter 2.				inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2						CATTCGGCTACCAGGGACAGA	0.493													54	301					4.78724e-31	5.23794e-31	0.01441	1	0		A	30554267	A	A	30554267	4	1	25	1	0	0	0	0	0	1	0	0	65	518	18	5	1976	5	ABCF1	6	30554267	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	250564	30554267	140560800	367	21367											
PPP1R10	5514	broad.mit.edu	37	chr6	30574379	30574379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcgctcaggaagggtagttCgactttttccttcatcttta	7	16	9	9	2	3	0	2	0	1	0	6	2	4	1	1	2	0	3	1	2	3	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:30574379C>T	uc003nqn.1	-	8	1052	c.500G>A	c.(499-501)CGA>CAA	p.R167Q	PPP1R10_uc010jsc.1_5'UTR	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	167	Interaction with TOX4 (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						AAGGGTAGTTCGACTTTTTCC	0.463													40	158					0	0	0.009718	0	0		T	30574379	T	T	30574379	3	4	25	1	0	0	0	0	1	0	0	0	12374	884	31	1	2374	1	PPP1R10	6	30574379	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	20112	30574379	140540688	368	21368											
AIF1	199	broad.mit.edu	37	chr6	31584597	31584597	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccatctcaaccaggatcCtgatgtatgaggaaaaagcg	13	9	9	10	1	1	2	1	2	1	0	4	4	3	4	3	2	2	1	3	2	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:31584597C>A	uc003nuy.2	+	6	438	c.364C>A	c.(364-366)CTG>ATG	p.L122M	AIF1_uc010jsy.2_3'UTR|AIF1_uc003nva.2_Missense_Mutation_p.L68M	NM_001623	NP_001614	P55008	AIF1_HUMAN	allograft inflammatory factor 1 isoform 3	122					actin filament bundle assembly|cell cycle arrest|inflammatory response|negative regulation of cell proliferation	nucleus|ruffle membrane	actin filament binding|calcium ion binding			ovary(1)	1						AACCAGGATCCTGATGTATGA	0.498													16	57					2.62699e-14	2.80118e-14	0.003163	1	0		A	31584597	A	A	31584597	3	1	25	1	0	0	0	0	1	0	0	0	424	680	24	5	584	5	AIF1	6	31584597	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1010218	31584597	139530470	369	21369											
DDAH2	23564	broad.mit.edu	37	chr6	31696699	31696699	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggccgtgtccccttggatCacggccgtgtcgccaagcag	6	7	14	14	4	1	0	1	0	0	0	3	1	2	1	5	3	1	1	5	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:31696699C>A	uc003nwp.2	-	1	871	c.240G>T	c.(238-240)GTG>GTT	p.V80V	DDAH2_uc003nwq.2_Silent_p.V80V	NM_013974	NP_039268	O95865	DDAH2_HUMAN	dimethylarginine dimethylaminohydrolase 2	80					anti-apoptosis|arginine catabolic process|citrulline metabolic process|nitric oxide biosynthetic process|nitric oxide mediated signal transduction	cytoplasm	dimethylargininase activity|protein binding				0					L-Citrulline(DB00155)	CCCCTTGGATCACGGCCGTGT	0.652													22	112					7.07758e-08	7.35409e-08	0.004656	1	0		A	31696699	A	A	31696699	2	1	25	1	0	0	0	0	0	0	0	1	4325	813	29	5		5	DDAH2	6	31696699	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	112102	31696699	139418368	370	21370											
SKIV2L	6499	broad.mit.edu	37	chr6	31931880	31931880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgccttgctcgcctccgtgGctctgaccgccagctgcccc	2	9	10	20	3	1	1	0	1	1	0	3	1	2	1	7	1	4	3	7	1	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:31931880G>A	uc003nyn.1	+	16	2227	c.1838G>A	c.(1837-1839)GGC>GAC	p.G613D	SKIV2L_uc011dou.1_Missense_Mutation_p.G455D|SKIV2L_uc011dov.1_Missense_Mutation_p.G420D	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	613	Helicase C-terminal.					nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						CGCCTCCGTGGCTCTGACCGC	0.542													12	60					0	0	0.004007	0	0		A	31931880	A	A	31931880	3	1	25	1	0	0	0	0	1	0	0	0	14384	1203	42	2	1900	2	SKIV2L	6	31931880	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	235181	31931880	139183187	371	21371											
CYP21A2	1589	broad.mit.edu	37	chr6	32008351	32008351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgccccaccgcaccacaCggcccagcaggtgactcccg	7	4	9	21	3	0	1	0	1	0	0	1	1	1	1	7	2	2	2	7	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:32008351C>T	uc003nze.1	+	8	1226	c.1108C>T	c.(1108-1110)CGG>TGG	p.R370W	CYP21A2_uc003nzf.1_Missense_Mutation_p.R340W	NM_000500	NP_000491	P08686	CP21A_HUMAN	cytochrome P450, family 21, subfamily A,	369			R -> W (in AH3).		glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|steroid 21-monooxygenase activity|steroid binding				0						CCGCACCACACGGCCCAGCAG	0.667													15	31					0	0	0.00499	0	0		T	32008351	T	T	32008351	3	4	25	1	0	0	0	0	1	0	0	0	4156	527	19	1	2659	1	CYP21A2	6	32008351	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	76471	32008351	139106716	372	21372											
PRRT1	80863	broad.mit.edu	37	chr6	32117088	32117088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatggccgcgatgcccaCggccagggagatgaaggaga	11	3	15	12	3	0	3	0	1	0	2	0	6	0	3	4	4	1	0	4	4	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:32117088C>T	uc003nzt.2	-	4	948	c.832G>A	c.(832-834)GTG>ATG	p.V278M	PRRT1_uc003nzs.2_Missense_Mutation_p.V319M|PRRT1_uc003nzu.2_Missense_Mutation_p.R170H	NM_030651	NP_085154	Q99946	PRRT1_HUMAN	NG5 protein	278	Helical; (Potential).				response to biotic stimulus	integral to membrane				breast(1)	1						GCGATGCCCACGGCCAGGGAG	0.637													7	25					0	0	0.001984	0	0		T	32117088	T	T	32117088	3	4	25	1	0	0	0	0	1	0	0	0	12631	536	19	1	92	1	PRRT1	6	32117088	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	108737	32117088	138997979	373	21373											
ITPR3	3710	broad.mit.edu	37	chr6	33658886	33658886	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcccaacaaccactccacaGgtcttggaggcttcctctcc	8	9	7	17	0	2	0	0	0	2	0	5	1	4	1	5	3	3	1	5	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:33658886G>T	uc011drk.1	+	52	7444	c.7225G>T	c.(7225-7227)GCC>TCC	p.A2409S	ITPR3_uc003oey.2_Missense_Mutation_p.A496S	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	2409	Extracellular (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CCACTCCACAGGTCTTGGAGG	0.582													25	88					7.33532e-06	7.54817e-06	0.021523	1	0		T	33658886	T	T	33658886	3	4	25	1	0	0	0	0	1	0	0	0	7938	1014	35	5	7431	5	ITPR3	6	33658886	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1541798	33658886	137456181	374	21374											
PPARD	5467	broad.mit.edu	37	chr6	35392119	35392119	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcagccctttgtgatccAcgacatcgagacattgtggc	8	13	9	11	2	1	2	1	1	0	1	3	4	2	2	2	1	1	0	2	1	0	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:35392119A>T	uc003okm.2	+	7	950	c.641A>T	c.(640-642)CAC>CTC	p.H214L	PPARD_uc003okl.2_Missense_Mutation_p.H214L|PPARD_uc003okn.2_Missense_Mutation_p.H214L|PPARD_uc011dtb.1_Missense_Mutation_p.H175L|PPARD_uc011dtc.1_Missense_Mutation_p.H116L	NM_006238	NP_006229	Q03181	PPARD_HUMAN	peroxisome proliferative activated receptor,	214					apoptosis|axon ensheathment|cholesterol metabolic process|decidualization|embryo implantation|fatty acid beta-oxidation|fatty acid transport|generation of precursor metabolites and energy|glucose metabolic process|glucose transport|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fat cell differentiation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|linoleic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1					Icosapent(DB00159)|Sulindac(DB00605)|Treprostinil(DB00374)	TTTGTGATCCACGACATCGAG	0.582													7	47					0	0	0.008291	0	0		T	35392119	T	T	35392119	3	4	25	1	0	0	0	0	1	0	0	0	12317	159	6	5	676	5	PPARD	6	35392119	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1733233	35392119	135722948	375	21375											
BRPF3	27154	broad.mit.edu	37	chr6	36193095	36193095	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagacctggagcccttggAgctggtgtgggccaagtgcc	6	7	17	11	1	0	1	0	0	0	1	0	4	0	3	4	5	3	1	4	5	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:36193095A>T	uc003olv.3	+	11	3457	c.3233A>T	c.(3232-3234)GAG>GTG	p.E1078V	BRPF3_uc010jwb.2_Missense_Mutation_p.E808V|BRPF3_uc011dtj.1_RNA|BRPF3_uc010jwc.2_Intron|BRPF3_uc011dtk.1_Missense_Mutation_p.E744V|BRPF3_uc010jwd.2_5'UTR	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	1078	PWWP.				histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						GAGCCCTTGGAGCTGGTGTGG	0.657													20	104					0	0	0.016522	0	0		T	36193095	T	T	36193095	3	4	25	1	0	0	0	0	1	0	0	0	1524	304	11	5	3271	5	BRPF3	6	36193095	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	800976	36193095	134921972	376	21376											
MDGA1	266727	broad.mit.edu	37	chr6	37619886	37619886	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatagtcactgaagtgcaGgtcaatgagctctaggctgc	10	9	12	10	0	3	2	2	2	1	0	3	2	3	2	1	2	3	3	1	2	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:37619886G>T	uc003onu.1	-	7	2392	c.1213C>A	c.(1213-1215)CTG>ATG	p.L405M	MDGA1_uc003onw.3_RNA	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	405	Ig-like 4.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						CTGAAGTGCAGGTCAATGAGC	0.597													20	95					7.33628e-21	7.93902e-21	0.014323	1	0		T	37619886	T	T	37619886	3	4	25	1	0	0	0	0	1	0	0	0	9424	991	35	5	1698	5	MDGA1	6	37619886	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1426791	37619886	133495181	377	21377											
FOXP4	116113	broad.mit.edu	37	chr6	41562617	41562617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcacccacagaacgccgtgCgccacaacctcagcctgcac	10	4	8	19	3	1	1	1	0	0	1	1	1	1	1	5	0	6	2	5	0	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:41562617C>T	uc003oql.2	+	14	2004	c.1546C>T	c.(1546-1548)CGC>TGC	p.R516C	FOXP4_uc003oqm.2_Missense_Mutation_p.R514C|FOXP4_uc003oqn.2_Missense_Mutation_p.R503C	NM_001012426	NP_001012426	Q8IVH2	FOXP4_HUMAN	forkhead box P4 isoform 1	516	Fork-head.				embryonic foregut morphogenesis|heart development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					GAACGCCGTGCGCCACAACCT	0.607											OREG0004067	type=REGULATORY REGION|Gene=FOXP4|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	17	82					0	0	0.010504	0	0		T	41562617	T	T	41562617	3	4	25	1	0	0	0	0	1	0	0	0	6043	768	27	1	1596	1	FOXP4	6	41562617	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3942731	41562617	129552450	378	21378											
PRICKLE4	29964	broad.mit.edu	37	chr6	41751963	41751963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgcagcaactccctcCgcaggacattgatgtgggtc	7	9	10	15	1	0	1	0	1	0	0	4	2	3	2	4	2	3	3	4	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:41751963C>T	uc011duf.1	+	4	475	c.227C>T	c.(226-228)CCG>CTG	p.P76L	PRICKLE4_uc003ord.2_RNA|TOMM6_uc003org.2_5'Flank	NM_013397	NP_037529	Q2TBC4	PRIC4_HUMAN	over-expressed breast tumor protein	36	PET.					nucleus	zinc ion binding				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CAACTCCCTCCGCAGGACATT	0.488													17	73					0	0	0.007413	0	0		T	41751963	T	T	41751963	3	4	25	1	0	0	0	0	1	0	0	0	12511	652	23	1	233	1	PRICKLE4	6	41751963	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	189346	41751963	129363104	379	21379											
CUL9	23113	broad.mit.edu	37	chr6	43163940	43163940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgactcagccacacgccCgggctctgagagcctgctcc	7	6	10	18	3	2	1	1	1	1	1	4	3	3	1	4	1	3	2	4	1	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:43163940C>T	uc003ouk.2	+	10	2597	c.2522C>T	c.(2521-2523)CCG>CTG	p.P841L	CUL9_uc003oul.2_Missense_Mutation_p.P841L|CUL9_uc010jyk.2_5'UTR	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	841					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GCCACACGCCCGGGCTCTGAG	0.552													20	100					0	0	0.014323	0	0		T	43163940	T	T	43163940	3	4	25	1	0	0	0	0	1	0	0	0	4064	652	23	1	2556	1	CUL9	6	43163940	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1411977	43163940	127951127	380	21380											
TTBK1	84630	broad.mit.edu	37	chr6	43230733	43230733	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcgacagcaaagagtgggTcatcatcgacaaggagacgg	13	7	13	8	3	2	2	2	0	0	2	4	5	2	2	0	3	1	1	0	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:43230733T>C	uc003ouq.1	+	13	1910	c.1631T>C	c.(1630-1632)GTC>GCC	p.V544A	TTBK1_uc011dvg.1_Missense_Mutation_p.V67A	NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	544						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			AAAGAGTGGGTCATCATCGAC	0.642													6	34					0	0	0.001168	0	0		C	43230733	C	C	43230733	3	2	25	1	0	0	0	0	1	0	0	0	16702	1667	58	3	1677	3	TTBK1	6	43230733	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	66793	43230733	127884334	381	21381											
SLC22A7	10864	broad.mit.edu	37	chr6	43270090	43270090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacgcaggacgccgcctcaCgcaagctgggacactgctgg	8	5	13	15	4	1	0	1	0	0	0	1	2	1	2	2	3	3	4	2	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:43270090C>T	uc003out.2	+	8	1313	c.1214C>T	c.(1213-1215)ACG>ATG	p.T405M	SLC22A7_uc010jyl.1_Missense_Mutation_p.T406M|SLC22A7_uc003ous.2_Missense_Mutation_p.T403M	NM_153320	NP_696961	Q9Y694	S22A7_HUMAN	solute carrier family 22 member 7 isoform b	405	Helical; (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	anion:anion antiporter activity|sodium-independent organic anion transmembrane transporter activity				0			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00998)|OV - Ovarian serous cystadenocarcinoma(102;0.0305)			CGCCGCCTCACGCAAGCTGGG	0.637													15	35					0	0	0.004007	0	0		T	43270090	T	T	43270090	3	4	25	1	0	0	0	0	1	0	0	0	14484	536	19	1	1240	1	SLC22A7	6	43270090	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	39357	43270090	127844977	382	21382											
TFAP2B	7021	broad.mit.edu	37	chr6	50810964	50810964	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccggccatttgcgccgcgctCacggccctgcagaactatct	6	8	10	17	5	2	1	1	0	1	1	2	1	2	1	4	2	3	2	4	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:50810964C>T	uc003pag.2	+	7	1408	c.1242C>T	c.(1240-1242)CTC>CTT	p.L414L		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	414				QLCKEFTDLLAQDRTPIGNSRPSPILEPGIQSCLTHFSLIT HGFGAPAICAALTALQNYLTEALKGMDKMFLNNTTTNRHTS GEGPGSKTGDKEEKHRK -> GNFVKNLRIYWRRTGHR (in Ref. 1; CAA71047).	nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					GCGCCGCGCTCACGGCCCTGC	0.637													36	159					0	0	0.005524	0	0		T	50810964	T	T	50810964	2	4	25	1	0	0	0	0	0	0	0	1	15813	813	29	4		4	TFAP2B	6	50810964	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7540874	50810964	120304103	383	21383											
C6orf142	90523	broad.mit.edu	37	chr6	53883888	53883888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatttagaggagaaactgaCggtaagacatgagatttagc	16	9	12	4	1	0	5	0	2	0	4	0	8	0	5	0	2	2	1	0	2	5	5	rs146529618	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:53883888C>T	uc003pcg.3	+	1	175	c.62C>T	c.(61-63)ACG>ATG	p.T21M	C6orf142_uc003pcf.2_Missense_Mutation_p.T21M	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523	21	Interaction with LMNA.					nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					GAGAAACTGACGGTAAGACAT	0.378													10	50					0	0	0.006214	0	0		T	53883888	T	T	53883888	3	4	25	1	0	0	0	0	1	0	0	0	2336	550	19	1	64	1	C6orf142	6	53883888	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3072924	53883888	117231179	384	21384											
DST	667	broad.mit.edu	37	chr6	56505005	56505005	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattgatttcttcttctgttAaattttgatccagcaaagaa	12	18	5	6	0	3	3	0	2	3	1	4	3	4	3	1	0	1	2	1	0	5	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:56505005A>C	uc003pdf.2	-	17	2355	c.2327T>G	c.(2326-2328)TTA>TGA	p.L776*	DST_uc003pcz.3_Nonsense_Mutation_p.L598*|DST_uc011dxj.1_Nonsense_Mutation_p.L627*|DST_uc011dxk.1_Nonsense_Mutation_p.L638*|DST_uc011dxl.1_Nonsense_Mutation_p.L627*|DST_uc003pcy.3_Nonsense_Mutation_p.L272*|DST_uc003pdb.2_Nonsense_Mutation_p.L272*|DST_uc003pdc.3_Nonsense_Mutation_p.L272*|DST_uc003pdd.3_Nonsense_Mutation_p.L272*|DST_uc003pde.2_Nonsense_Mutation_p.L714*	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	598					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TTCTTCTGTTAAATTTTGATC	0.348													19	89					0	0	0.006122	0	0		C	56505005	C	C	56505005	4	2	25	1	0	0	0	0	0	1	0	0	4789	372	13	5	19664	5	DST	6	56505005	Nonsense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	2621117	56505005	114610062	385	21385											
EYS	346007	broad.mit.edu	37	chr6	66054021	66054021	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcagtgcagtttgcagcCagaaagaaataggcatcaat	14	10	9	8	0	3	2	2	0	1	2	3	2	3	2	1	1	3	4	1	1	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:66054021C>T	uc011dxu.1	-	10	2047	c.1509G>A	c.(1507-1509)CTG>CTA	p.L503L	EYS_uc003peq.2_Silent_p.L503L|EYS_uc003per.1_Silent_p.L503L	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	503					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						AGTTTGCAGCCAGAAAGAAAT	0.353													25	95					0	0	0.016522	0	0		T	66054021	T	T	66054021	2	4	25	1	0	0	0	0	0	0	0	1	5340	581	21	4		4	EYS	6	66054021	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	9549016	66054021	105061046	386	21386											
CD109	135228	broad.mit.edu	37	chr6	74497026	74497026	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaatgaaataaatgccacaGgccaccagcagacccttctg	15	6	7	13	0	1	2	0	1	1	1	1	2	1	2	4	1	2	1	4	1	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:74497026G>T	uc003php.2	+	21	2832	c.2407G>T	c.(2407-2409)GGC>TGC	p.G803C	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Missense_Mutation_p.G803C|CD109_uc010kba.2_Missense_Mutation_p.G726C	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	803				G -> S (in Ref. 2; AAN78483).		anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						AAATGCCACAGGCCACCAGCA	0.398													38	143					5.71845e-15	6.10704e-15	0.005524	1	0		T	74497026	T	T	74497026	3	4	25	1	0	0	0	0	1	0	0	0	2966	1000	35	5	2489	5	CD109	6	74497026	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	8443005	74497026	96618041	387	21387											
C6orf168	84553	broad.mit.edu	37	chr6	99729068	99729068	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgttcgtggtctgtatagTcatccatgtccacatccgaa	9	13	8	11	2	2	0	1	0	1	0	6	1	5	0	3	1	0	2	3	1	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:99729068T>G	uc003ppj.3	-	6	1485	c.1202A>C	c.(1201-1203)GAC>GCC	p.D401A	C6orf168_uc003ppi.3_Missense_Mutation_p.D121A	NM_032511	NP_115900	Q5TGI0	CF168_HUMAN	hypothetical protein LOC84553	401										ovary(2)|central_nervous_system(1)	3		all_cancers(76;1.63e-06)|Acute lymphoblastic leukemia(125;5.12e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00898)|Colorectal(196;0.0699)|Lung NSC(302;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.073)		GTCTGTATAGTCATCCATGTC	0.502													32	123					0	0	0.013726	0	0		G	99729068	G	G	99729068	3	3	25	1	0	0	0	0	1	0	0	0	2346	1667	58	5	31	5	C6orf168	6	99729068	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	25232042	99729068	71385999	388	21388											
PRDM13	59336	broad.mit.edu	37	chr6	100061351	100061351	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgtgggcggctcctcggcGggggtcggcagcctggcttt	2	9	18	12	5	0	0	0	0	0	0	4	0	1	0	2	7	1	3	2	7	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:100061351G>A	uc003pqg.1	+	4	1101	c.840G>A	c.(838-840)GCG>GCA	p.A280A		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	280					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		GCTCCTCGGCGGGGGTCGGCA	0.726													2	2					0	0	0.004672	0	0		A	100061351	A	A	100061351	2	1	25	1	0	0	0	0	0	0	0	1	12476	1103	39	1		1	PRDM13	6	100061351	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	332283	100061351	71053716	389	21389											
MCHR2	84539	broad.mit.edu	37	chr6	100390836	100390836	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacttaccagagtacatcGtcaggggatgtcaaatcaaa	16	8	8	9	1	3	1	3	0	0	1	4	2	3	2	1	2	3	1	1	2	5	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:100390836G>A	uc003pqh.1	-	4	891	c.576C>T	c.(574-576)GAC>GAT	p.D192D	MCHR2_uc003pqi.1_Silent_p.D192D	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	192	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		AGAGTACATCGTCAGGGGATG	0.413													34	168					0	0	0.006999	0	0		A	100390836	A	A	100390836	2	1	25	1	0	0	0	0	0	0	0	1	9401	1136	40	1		1	MCHR2	6	100390836	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	329485	100390836	70724231	390	21390											
FOXO3	2309	broad.mit.edu	37	chr6	108882671	108882671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcggcggcgggagcggcaCgctgggctccgggctgctcc	2	4	20	15	7	0	0	0	0	0	0	2	1	2	1	2	7	2	5	2	7	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:108882671C>T	uc003psk.2	+	2	576	c.260C>T	c.(259-261)ACG>ATG	p.T87M	FOXO3_uc003psn.2_Missense_Mutation_p.T87M|FOXO3_uc003psm.2_Missense_Mutation_p.T87M	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A	87					antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)		GGGAGCGGCACGCTGGGCTCC	0.761													2	1					0	0	0.004672	0	0		T	108882671	T	T	108882671	3	4	25	1	0	0	0	0	1	0	0	0	6038	536	19	1	262	1	FOXO3	6	108882671	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	8491835	108882671	62232396	391	21391											
LAMA4	3910	broad.mit.edu	37	chr6	112430676	112430676	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagttgatgcttacggcgccGctgaccagggctgctttact	6	11	13	11	3	0	2	0	2	0	0	0	3	0	2	2	2	4	5	2	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:112430676G>A	uc003pvu.2	-	39	5745	c.5436C>T	c.(5434-5436)AGC>AGT	p.S1812S	LAMA4_uc003pvv.2_Silent_p.S1805S|LAMA4_uc003pvt.2_Silent_p.S1805S	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1812	Laminin G-like 5.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		TTACGGCGCCGCTGACCAGGG	0.532													10	80					0	0	0.008291	0	0		A	112430676	A	A	112430676	2	1	25	1	0	0	0	0	0	0	0	1	8624	1078	38	1		1	LAMA4	6	112430676	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3548005	112430676	58684391	392	21392											
GPRC6A	222545	broad.mit.edu	37	chr6	117113654	117113654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacaataatctccacagctGgtacatatttgccaaatgtg	13	12	7	9	0	1	1	0	1	1	0	2	1	1	1	2	1	3	2	2	1	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:117113654G>A	uc003pxj.1	-	6	2454	c.2432C>T	c.(2431-2433)CCA>CTA	p.P811L	GPRC6A_uc003pxk.1_Missense_Mutation_p.P636L|GPRC6A_uc003pxl.1_Missense_Mutation_p.P740L	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	811	Helical; Name=7; (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		CTCCACAGCTGGTACATATTT	0.343													15	102					0	0	0.004007	0	0		A	117113654	A	A	117113654	3	1	25	1	0	0	0	0	1	0	0	0	6744	1348	47	4	352	4	GPRC6A	6	117113654	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4682978	117113654	54001413	393	21393											
MOXD1	26002	broad.mit.edu	37	chr6	132618385	132618385	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagggaagaggaagaagaCgtgccacacaccaaaggttc	15	4	13	9	1	0	3	0	0	0	3	1	5	0	5	2	3	2	2	2	3	4	1	rs146840521	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:132618385C>T	uc003qdf.2	-	12	1848	c.1749G>A	c.(1747-1749)ACG>ACA	p.T583T	MOXD1_uc003qde.2_Silent_p.T515T	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	583	Lumenal (Potential).				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		AGGAAGAAGACGTGCCACACA	0.438													40	198					0	0	0.006999	0	0		T	132618385	T	T	132618385	2	4	25	1	0	0	0	0	0	0	0	1	9738	523	19	1		1	MOXD1	6	132618385	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	15504731	132618385	38496682	394	21394											
HECA	51696	broad.mit.edu	37	chr6	139488244	139488244	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataagctgaacactttccaCgtgcgcatggaagacgatgc	12	8	10	11	3	0	2	0	1	0	1	1	4	1	3	1	1	4	2	1	1	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:139488244C>T	uc003qin.2	+	2	1380	c.1095C>T	c.(1093-1095)CAC>CAT	p.H365H		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	365					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		ACACTTTCCACGTGCGCATGG	0.597													19	95					0	0	0.007413	0	0		T	139488244	T	T	139488244	2	4	25	1	0	0	0	0	0	0	0	1	7054	535	19	1		1	HECA	6	139488244	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6869859	139488244	31626823	395	21395											
UTRN	7402	broad.mit.edu	37	chr6	144898290	144898290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaggacggtgcaggcctctCgcagagatctggaaaacttc	10	7	14	10	2	2	1	0	0	2	1	4	5	2	4	1	5	2	2	1	5	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:144898290C>T	uc003qkt.2	+	50	7437	c.7345C>T	c.(7345-7347)CGC>TGC	p.R2449C		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	2449	Spectrin 17.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GCAGGCCTCTCGCAGAGATCT	0.498													18	90					0	0	0.007413	0	0		T	144898290	T	T	144898290	3	4	25	1	0	0	0	0	1	0	0	0	17129	884	31	1	7543	1	UTRN	6	144898290	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	5410046	144898290	26216777	396	21396											
PLEKHG1	57480	broad.mit.edu	37	chr6	151152273	151152273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaaactaatggttgctaagCgggaagaagctgaatccact	15	9	10	7	1	0	2	0	1	0	1	1	3	1	3	1	2	4	3	1	2	7	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:151152273C>T	uc003qny.1	+	16	2338	c.2026C>T	c.(2026-2028)CGG>TGG	p.R676W	PLEKHG1_uc011eel.1_Missense_Mutation_p.R716W|PLEKHG1_uc011eem.1_Missense_Mutation_p.R735W|PLEKHG1_uc003qnz.2_Missense_Mutation_p.R676W	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	676					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		GGTTGCTAAGCGGGAAGAAGC	0.478													24	82					0	0	0.021523	0	0		T	151152273	T	T	151152273	3	4	25	1	0	0	0	0	1	0	0	0	12087	759	27	1	2080	1	PLEKHG1	6	151152273	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6253983	151152273	19962794	397	21397											
CLDN20	49861	broad.mit.edu	37	chr6	155597113	155597113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagccaccatggtcctggCgtgtgttctgtctgctttgg	4	13	14	10	1	2	1	0	0	2	1	3	2	3	1	3	3	2	2	3	3	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:155597113C>T	uc003qql.1	+	2	640	c.260C>T	c.(259-261)GCG>GTG	p.A87V	TFB1M_uc003qqj.3_Intron|TFB1M_uc003qqk.2_Intron	NM_001001346	NP_001001346	P56880	CLD20_HUMAN	claudin 20	87	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0				OV - Ovarian serous cystadenocarcinoma(155;7.82e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0114)		ATGGTCCTGGCGTGTGTTCTG	0.542													9	153					0	0	0.008291	0	0		T	155597113	T	T	155597113	3	4	25	1	0	0	0	0	1	0	0	0	3485	768	27	1	262	1	CLDN20	6	155597113	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4444840	155597113	15517954	398	21398											
ZDHHC14	79683	broad.mit.edu	37	chr6	158066823	158066823	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtccatcgttggcctctcAggattccacacctacttgat	7	13	8	13	1	1	1	1	1	1	0	5	2	3	2	4	3	1	1	4	3	1	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:158066823A>G	uc003qqt.2	+	6	1304	c.807A>G	c.(805-807)TCA>TCG	p.S269S	ZDHHC14_uc003qqs.2_Silent_p.S269S|ZDHHC14_uc010kjn.2_5'UTR	NM_024630	NP_078906	Q8IZN3	ZDH14_HUMAN	zinc finger, DHHC-type containing 14 isoform 1	269	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|skin(1)	2		Breast(66;0.00586)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.9e-17)|BRCA - Breast invasive adenocarcinoma(81;5.8e-05)		TTGGCCTCTCAGGATTCCACA	0.557													14	42					0	0	0.00499	0	0		G	158066823	G	G	158066823	2	3	25	1	0	0	0	0	0	0	0	1	17629	175	7	3		3	ZDHHC14	6	158066823	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	2469710	158066823	13048244	399	21399											
FNDC1	84624	broad.mit.edu	37	chr6	159653470	159653470	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgccagcttgaatgacaaCgacttggtggactcagacga	11	8	11	11	2	1	3	1	2	0	1	1	6	1	4	2	2	3	1	2	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:159653470C>T	uc010kjv.2	+	11	2126	c.1926C>T	c.(1924-1926)AAC>AAT	p.N642N	FNDC1_uc010kjw.1_Silent_p.N527N	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	642						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		TGAATGACAACGACTTGGTGG	0.701													14	69					0	0	0.004007	0	0		T	159653470	T	T	159653470	2	4	25	1	0	0	0	0	0	0	0	1	5982	535	19	1		1	FNDC1	6	159653470	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1586647	159653470	11461597	400	21400											
MRPL18	29074	broad.mit.edu	37	chr6	160219129	160219129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaaggtggtgtggttctaCgggaacctcagagaatctat	11	10	13	7	1	3	2	1	0	2	2	3	4	3	3	1	4	2	1	1	4	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:160219129C>T	uc003qsw.3	+	4	645	c.517C>T	c.(517-519)CGG>TGG	p.R173W	MRPL18_uc010kkb.2_RNA|PNLDC1_uc003qsx.1_5'Flank|PNLDC1_uc003qsy.1_5'Flank	NM_014161	NP_054880	Q9H0U6	RM18_HUMAN	mitochondrial ribosomal protein L18 precursor	173					rRNA transport|translation	mitochondrial ribosome	5S rRNA binding|structural constituent of ribosome				0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.44e-18)|BRCA - Breast invasive adenocarcinoma(81;5.79e-06)		TGTGGTTCTACGGGAACCTCA	0.383													14	97					0	0	0.003163	0	0		T	160219129	T	T	160219129	3	4	25	1	0	0	0	0	1	0	0	0	9801	527	19	1	531	1	MRPL18	6	160219129	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	565659	160219129	10895938	401	21401											
PARK2	5071	broad.mit.edu	37	chr6	161771140	161771140	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccgccctggctacacgtcGaaccagtggtcccccatgca	7	6	11	17	3	0	0	0	0	0	0	2	1	1	0	5	3	3	2	5	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:161771140G>A	uc003qtx.3	-	12	1523	c.1389C>T	c.(1387-1389)TTC>TTT	p.F463F	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_Silent_p.F272F|PARK2_uc003qtw.3_3'UTR|PARK2_uc003qty.3_Silent_p.F435F|PARK2_uc003qtz.3_Silent_p.F314F|PARK2_uc011egf.1_Silent_p.F137F	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	463					aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GCTACACGTCGAACCAGTGGT	0.572													8	36					0	0	0.00308	0	0		A	161771140	A	A	161771140	2	1	25	1	0	0	0	0	0	0	0	1	11468	1049	37	1		1	PARK2	6	161771140	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1552011	161771140	9343927	402	21402											
C6orf118	168090	broad.mit.edu	37	chr6	165706906	165706906	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacacagacacctgcctgaTcgttcctttgcagactgcag	9	10	8	14	1	1	3	1	1	0	2	3	3	2	3	3	0	3	3	3	0	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:165706906T>A	uc003qum.3	-	6	1152	c.1116A>T	c.(1114-1116)CGA>CGT	p.R372R	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	372	Potential.										0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		ACCTGCCTGATCGTTCCTTTG	0.463													66	257					0	0	0.01441	0	0		A	165706906	A	A	165706906	2	1	25	1	0	0	0	0	0	0	0	1	2326	1422	50	5		5	C6orf118	6	165706906	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	3935766	165706906	5408161	403	21403											
C6orf118	168090	broad.mit.edu	37	chr6	165715084	165715084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctttctctcgtggcccgCggccgccttgctcccagtga	3	10	11	17	4	1	1	0	1	1	0	4	1	2	1	4	2	2	2	4	2	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:165715084C>T	uc003qum.3	-	2	763	c.727G>A	c.(727-729)GCG>ACG	p.A243T	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	243											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		TCGTGGCCCGCGGCCGCCTTG	0.607													24	104					0	0	0.00632	0	0		T	165715084	T	T	165715084	3	4	25	1	0	0	0	0	1	0	0	0	2326	768	27	1	714	1	C6orf118	6	165715084	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	8178	165715084	5399983	404	21404											
UNC93A	54346	broad.mit.edu	37	chr6	167709603	167709603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacatacctcacgatcaCgggaaacacacatgcagaga	15	5	9	12	2	2	1	2	0	0	1	2	4	2	2	1	1	4	2	1	1	2	1	rs34631973	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:167709603C>T	uc003qvq.2	+	3	528	c.353C>T	c.(352-354)ACG>ATG	p.T118M	UNC93A_uc003qvr.2_Missense_Mutation_p.T118M	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	118						integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CTCACGATCACGGGAAACACA	0.542													30	147					0	0	0.019004	0	0		T	167709603	T	T	167709603	3	4	25	1	0	0	0	0	1	0	0	0	17022	536	19	1	363	1	UNC93A	6	167709603	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1994519	167709603	3405464	405	21405											
TCP10	6953	broad.mit.edu	37	chr6	167789540	167789540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgccaccggagttttgcGgacttcgggaagatggatgc	7	11	14	9	3	1	1	0	0	1	1	2	5	1	5	2	4	3	1	2	4	1	4	rs28637384		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:167789540G>A	uc003qvv.1	-	6	814	c.602C>T	c.(601-603)CCG>CTG	p.P201L	TCP10_uc003qvu.2_Missense_Mutation_p.P201L|TCP10_uc003qvw.2_3'UTR	NM_004610	NP_004601	Q12799	TCP10_HUMAN	t-complex 10	228						cytosol				breast(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;4.05e-20)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)|GBM - Glioblastoma multiforme(31;0.0386)		GGAGTTTTGCGGACTTCGGGA	0.612													5	52					0	0	0.00308	0	0		A	167789540	A	A	167789540	3	1	25	1	0	0	0	0	1	0	0	0	15735	1116	39	1	390	1	TCP10	6	167789540	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	79937	167789540	3325527	406	21406											
KIF25	3834	broad.mit.edu	37	chr6	168443281	168443281	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccctgagggagatggcGtgcatcagccgcagccttgc	6	8	15	12	2	1	2	1	1	0	1	1	3	1	2	3	3	4	2	3	3	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:168443281G>A	uc003qwk.1	+	8	1132	c.870G>A	c.(868-870)GCG>GCA	p.A290A	KIF25_uc003qwl.1_Intron	NM_030615	NP_085118	Q9UIL4	KIF25_HUMAN	kinesin family member 25 isoform 1	290	Kinesin-motor.				microtubule-based movement|mitotic sister chromatid segregation	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(1)|pancreas(1)	2		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		GGGAGATGGCGTGCATCAGCC	0.647													25	142					0	0	0.012213	0	0		A	168443281	A	A	168443281	2	1	25	1	0	0	0	0	0	0	0	1	8309	1132	40	1		1	KIF25	6	168443281	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	653741	168443281	2671786	407	21407											
DLL1	28514	broad.mit.edu	37	chr6	170592774	170592774	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctctagcttctcagtgagGtccaccaccgctgggcccgg	5	8	11	17	2	2	1	1	1	2	0	4	1	3	1	5	3	1	2	5	3	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr6:170592774G>A	uc003qxm.2	-	9	2063	c.1593C>T	c.(1591-1593)GAC>GAT	p.D531D		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	531	Extracellular (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		TCTCAGTGAGGTCCACCACCG	0.697													3	21					0	0	0.004672	0	0		A	170592774	A	A	170592774	2	1	25	1	0	0	0	0	0	0	0	1	4572	1252	44	4		4	DLL1	6	170592774	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2149493	170592774	522293	408	21408											
GPER	2852	broad.mit.edu	37	chr7	1131745	1131745	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcggtactacgacatcgcCgtcctgtgcaccttcatgtc	7	10	10	14	4	1	0	1	0	0	0	4	2	2	0	3	1	4	2	3	1	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:1131745C>T	uc010ksd.1	+	2	770	c.381C>T	c.(379-381)GCC>GCT	p.A127A	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPER_uc003sjz.1_Silent_p.A127A|GPER_uc003ska.1_Silent_p.A127A|GPER_uc003skb.2_Silent_p.A127A	NM_001098201	NP_001091671	Q99527	GPER_HUMAN	G protein-coupled receptor 30	127	Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;2.32e-16)		ACGACATCGCCGTCCTGTGCA	0.587													66	196					0	0	0.01441	0	0		T	1131745	T	T	1131745	2	4	25	1	0	0	0	0	0	0	0	1	6622	639	23	1		1	GPER	7	1131745	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08		1131745	158006918	409	21409											
SNX8	29886	broad.mit.edu	37	chr7	2317940	2317940	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctggggtgtcggcagaTctgcaggggagatggtgaat	7	9	19	6	1	1	3	0	1	1	2	2	4	1	3	1	7	1	2	1	7	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:2317940T>A	uc003slw.2	-	2	138	c.95A>T	c.(94-96)GAT>GTT	p.D32V		NM_013321	NP_037453	Q9Y5X2	SNX8_HUMAN	sorting nexin 8	32					cell communication|early endosome to Golgi transport|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0853)|OV - Ovarian serous cystadenocarcinoma(56;3.79e-14)		TGTCGGCAGATCTGCAGGGGA	0.488													4	63					0	0	0.009096	0	0		A	2317940	A	A	2317940	3	1	25	1	0	0	0	0	1	0	0	0	14933	1449	50	5	1342	5	SNX8	7	2317940	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	1186195	2317940	156820723	410	21410											
CHST12	55501	broad.mit.edu	37	chr7	2472943	2472943	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaagttctggcgccgctaCgggaagctctcccgccacct	8	7	10	16	4	2	0	0	0	2	0	3	1	2	1	4	2	3	3	4	2	4	2	rs148723150		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:2472943C>T	uc003smc.2	+	2	804	c.669C>T	c.(667-669)TAC>TAT	p.Y223Y	CHST12_uc003smd.2_Silent_p.Y223Y	NM_018641	NP_061111	Q9NRB3	CHSTC_HUMAN	carbohydrate sulfotransferase 12	223	Lumenal (Potential).				dermatan sulfate biosynthetic process	integral to Golgi membrane	3'-phosphoadenosine 5'-phosphosulfate binding|chondroitin 4-sulfotransferase activity|protein binding			kidney(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0847)|OV - Ovarian serous cystadenocarcinoma(56;2.25e-13)		GGCGCCGCTACGGGAAGCTCT	0.652													34	112					0	0	0.013726	0	0		T	2472943	T	T	2472943	2	4	25	1	0	0	0	0	0	0	0	1	3403	547	19	1		1	CHST12	7	2472943	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	155003	2472943	156665720	411	21411											
C7orf27	221927	broad.mit.edu	37	chr7	2580614	2580614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatccccaccaccgtaccGtggggctggagccggggctc	5	7	13	16	3	1	0	0	0	1	0	3	1	2	1	6	5	2	3	6	5	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:2580614G>A	uc003smi.2	-	10	1436	c.1394C>T	c.(1393-1395)ACG>ATG	p.T465M	C7orf27_uc003smh.3_Translation_Start_Site	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	465					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)		CCACCGTACCGTGGGGCTGGA	0.677													9	24					0	0	0.006214	0	0		A	2580614	A	A	2580614	3	1	25	1	0	0	0	0	1	0	0	0	2385	1159	40	1	1091	1	C7orf27	7	2580614	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	107671	2580614	156558049	412	21412											
IQCE	23288	broad.mit.edu	37	chr7	2632682	2632682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagcagctcctgcaggCgaaggccgacctggagaagg	10	4	17	10	2	0	2	0	1	0	1	1	5	1	2	3	5	3	3	3	5	3	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:2632682C>T	uc003smo.3	+	15	1455	c.1271C>T	c.(1270-1272)GCG>GTG	p.A424V	IQCE_uc010ksm.1_Missense_Mutation_p.A424V|IQCE_uc003sml.1_Missense_Mutation_p.A424V|IQCE_uc011jvy.1_Missense_Mutation_p.A408V|IQCE_uc011jvz.1_Missense_Mutation_p.A359V|IQCE_uc003smk.3_Missense_Mutation_p.A408V|IQCE_uc003smn.3_Missense_Mutation_p.A359V	NM_152558	NP_689771	Q6IPM2	IQCE_HUMAN	IQ motif containing E isoform 1	424	Potential.										0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.23e-13)		CTCCTGCAGGCGAAGGCCGAC	0.383													8	276					0	0	0.00308	0	0		T	2632682	T	T	2632682	3	4	25	1	0	0	0	0	1	0	0	0	7822	768	27	1	1329	1	IQCE	7	2632682	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	52068	2632682	156505981	413	21413											
RADIL	55698	broad.mit.edu	37	chr7	4841602	4841602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcggggcctccaggtgccCgtcaaggaccacgtggtgca	6	6	15	14	3	1	0	1	0	0	0	3	1	2	1	4	5	2	2	4	5	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:4841602C>T	uc003snj.1	-	12	2697	c.2524G>A	c.(2524-2526)GGG>AGG	p.G842R	RADIL_uc003sng.1_RNA|RADIL_uc003sni.1_Missense_Mutation_p.G347R|RADIL_uc011jwc.1_Missense_Mutation_p.G602R|RADIL_uc011jwd.1_RNA|RADIL_uc003snh.1_Missense_Mutation_p.G138R	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	842					cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		TCCAGGTGCCCGTCAAGGACC	0.687													4	26					0	0	0.009096	0	0		T	4841602	T	T	4841602	3	4	25	1	0	0	0	0	1	0	0	0	13022	652	23	1	719	1	RADIL	7	4841602	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2208920	4841602	154297061	414	21414											
PAPOLB	56903	broad.mit.edu	37	chr7	4901260	4901260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttccaaaactaaaatcctgCgctgcagttcctcttcctct	9	14	4	14	1	2	0	0	0	2	0	6	0	6	0	4	0	3	3	4	0	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:4901260C>T	uc003snk.2	-	1	366	c.182G>A	c.(181-183)CGC>CAC	p.R61H	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	60					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		TAAAATCCTGCGCTGCAGTTC	0.473													13	50					0	0	0.013537	0	0		T	4901260	T	T	4901260	3	4	25	1	0	0	0	0	1	0	0	0	11449	768	27	1	1735	1	PAPOLB	7	4901260	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	59658	4901260	154237403	415	21415											
MMD2	221938	broad.mit.edu	37	chr7	4949602	4949602	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcaggaagacaagccgtGccggccttaggacatgcctc	9	6	13	13	2	0	1	0	0	0	1	1	3	0	3	4	4	3	1	4	4	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:4949602G>A	uc003sno.3	-	6	715	c.519C>T	c.(517-519)GGC>GGT	p.G173G	MMD2_uc003snl.1_RNA|MMD2_uc003snn.3_Intron|MMD2_uc010ksq.2_Intron	NM_001100600	NP_001094070	Q8IY49	PAQRA_HUMAN	monocyte to macrophage	173	Cytoplasmic (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.097)|OV - Ovarian serous cystadenocarcinoma(56;3.4e-14)		GACAAGCCGTGCCGGCCTTAG	0.567													21	144					0	0	0.021523	0	0		A	4949602	A	A	4949602	2	1	25	1	0	0	0	0	0	0	0	1	9662	1306	46	2		2	MMD2	7	4949602	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	48342	4949602	154189061	416	21416											
SLC29A4	222962	broad.mit.edu	37	chr7	5327554	5327554	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcaccagctggaggaggCggcggaggcggctcagggcc	7	3	19	12	3	2	0	2	0	0	0	2	3	2	3	2	8	1	2	2	8	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:5327554C>A	uc003sod.2	+	2	268	c.107C>A	c.(106-108)GCG>GAG	p.A36E	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Missense_Mutation_p.A36E|SLC29A4_uc003soe.2_Missense_Mutation_p.A36E	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	36	Extracellular (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		CTGGAGGAGGCGGCGGAGGCG	0.672													13	62					2.32078e-09	2.42971e-09	0.003163	1	0		A	5327554	A	A	5327554	3	1	25	1	0	0	0	0	1	0	0	0	14562	768	27	5	109	5	SLC29A4	7	5327554	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	377952	5327554	153811109	417	21417											
FBXL18	80028	broad.mit.edu	37	chr7	5540290	5540290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgggcagctgtgcgagcGtcaggtgccgcaggaaggcc	6	5	18	12	4	1	0	1	0	0	0	1	2	1	1	2	4	4	4	2	4	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:5540290G>A	uc003soo.2	-	3	1704	c.1610C>T	c.(1609-1611)ACG>ATG	p.T537M	FBXL18_uc003son.3_Missense_Mutation_p.T537M	NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	537	LRR 9.									central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)		CTGTGCGAGCGTCAGGTGCCG	0.697													7	30					0	0	0.006214	0	0		A	5540290	A	A	5540290	3	1	25	1	0	0	0	0	1	0	0	0	5728	1145	40	1	558	1	FBXL18	7	5540290	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	212736	5540290	153598373	418	21418											
FSCN1	6624	broad.mit.edu	37	chr7	5643549	5643549	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccccatcatcgtgttccgCggggagcatggcttcatcgg	5	9	13	14	5	2	0	2	0	0	0	5	1	3	1	3	4	1	3	3	4	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:5643549C>T	uc003sou.2	+	4	1281	c.1167C>T	c.(1165-1167)CGC>CGT	p.R389R	FSCN1_uc003sov.2_Silent_p.R111R|FSCN1_uc003sow.2_Silent_p.R111R	NM_003088	NP_003079	Q16658	FSCN1_HUMAN	fascin 1	389					actin filament bundle assembly|cell migration|cell proliferation	cell junction|cytoplasm|filopodium|invadopodium|stress fiber	actin filament binding|drug binding|protein binding, bridging			ovary(1)	1		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;1.21e-13)		TCGTGTTCCGCGGGGAGCATG	0.617													14	86					0	0	0.008871	0	0		T	5643549	T	T	5643549	2	4	25	1	0	0	0	0	0	0	0	1	6081	755	27	1		1	FSCN1	7	5643549	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	103259	5643549	153495114	419	21419											
SOSTDC1	25928	broad.mit.edu	37	chr7	16502286	16502286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actggactcgttgtgctgccGggtgtacctcttgcacttgc	4	13	12	12	2	1	0	0	0	1	0	2	1	1	1	2	2	5	4	2	2	1	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:16502286G>A	uc003stg.2	-	2	689	c.508C>T	c.(508-510)CGG>TGG	p.R170W	SOSTDC1_uc003sth.2_Missense_Mutation_p.R194W	NM_015464	NP_056279	Q6X4U4	SOSD1_HUMAN	sclerostin domain containing 1 precursor	170	CTCK.				Wnt receptor signaling pathway					ovary(2)|central_nervous_system(1)	3	Lung NSC(10;0.185)			UCEC - Uterine corpus endometrioid carcinoma (126;0.177)		TTGTGCTGCCGGGTGTACCTC	0.537													66	262					0	0	0.01441	0	0		A	16502286	A	A	16502286	3	1	25	1	0	0	0	0	1	0	0	0	14964	1115	39	1	116	1	SOSTDC1	7	16502286	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	10858737	16502286	142636377	420	21420											
SOSTDC1	25928	broad.mit.edu	37	chr7	16502300	16502300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgccgggtgtacctcttgCacttgcaggcagtgactact	6	11	12	12	1	1	1	0	1	1	0	1	1	1	1	2	2	5	5	2	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:16502300C>T	uc003stg.2	-	2	675	c.494G>A	c.(493-495)TGC>TAC	p.C165Y	SOSTDC1_uc003sth.2_Missense_Mutation_p.C189Y	NM_015464	NP_056279	Q6X4U4	SOSD1_HUMAN	sclerostin domain containing 1 precursor	165	CTCK.				Wnt receptor signaling pathway					ovary(2)|central_nervous_system(1)	3	Lung NSC(10;0.185)			UCEC - Uterine corpus endometrioid carcinoma (126;0.177)		GTACCTCTTGCACTTGCAGGC	0.542													70	302					0	0	0.01441	0	0		T	16502300	T	T	16502300	3	4	25	1	0	0	0	0	1	0	0	0	14964	710	25	2	130	2	SOSTDC1	7	16502300	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	14	16502300	142636363	421	21421											
DNAH11	8701	broad.mit.edu	37	chr7	21760398	21760398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaatgtaccttctgacaGcccaaaagaagtttatgaag	16	10	8	7	0	1	4	0	3	1	1	1	4	1	4	2	0	2	2	2	0	8	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:21760398G>A	uc003svc.2	+	45	7242	c.7211G>A	c.(7210-7212)AGC>AAC	p.S2404N		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2404					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CCTTCTGACAGCCCAAAAGAA	0.353									Kartagener_syndrome				4	44					0	0	0.009096	0	0		A	21760398	A	A	21760398	3	1	25	1	0	0	0	0	1	0	0	0	4605	971	34	2	7386	2	DNAH11	7	21760398	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5258098	21760398	137378265	422	21422											
HOXA2	3199	broad.mit.edu	37	chr7	27140938	27140938	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtctctcagtcaaatccaGcagcgctgcaatctccaccc	9	10	6	16	1	4	0	2	0	2	0	7	0	5	0	3	0	3	3	3	0	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:27140938G>T	uc003syh.2	-	2	813	c.538C>A	c.(538-540)CTG>ATG	p.L180M		NM_006735	NP_006726	O43364	HXA2_HUMAN	homeobox A2	180	Homeobox.					nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GTCAAATCCAGCAGCGCTGCA	0.478													36	171					2.05212e-20	2.21898e-20	0.005524	1	0		T	27140938	T	T	27140938	3	4	25	1	0	0	0	0	1	0	0	0	7308	962	34	5	596	5	HOXA2	7	27140938	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5380540	27140938	131997725	423	21423											
HOXA3	3200	broad.mit.edu	37	chr7	27147924	27147924	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcgcagctgggcagggaCgcagggtaggaggcgggggg	6	3	25	7	3	0	0	0	0	0	0	0	2	0	2	0	9	2	5	0	9	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:27147924C>T	uc011jzl.1	-	3	1142	c.942G>A	c.(940-942)GCG>GCA	p.A314A	HOXA3_uc011jzk.1_Silent_p.A156A|HOXA3_uc003syk.2_Silent_p.A314A	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	314					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						TGGGCAGGGACGCAGGGTAGG	0.726													5	24					0	0	0.00308	0	0		T	27147924	T	T	27147924	2	4	25	1	0	0	0	0	0	0	0	1	7309	523	19	1		1	HOXA3	7	27147924	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6986	27147924	131990739	424	21424											
HOXA3	3200	broad.mit.edu	37	chr7	27150221	27150221	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctggtaggggtagccaccGtagatcgccgagctgtcgta	7	8	15	11	4	0	1	0	0	0	1	2	2	0	1	4	3	2	5	4	3	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:27150221G>A	uc011jzl.1	-	2	239	c.39C>T	c.(37-39)TAC>TAT	p.Y13Y	HOXA3_uc011jzk.1_Intron|HOXA3_uc003syk.2_Silent_p.Y13Y	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	13					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						GGTAGCCACCGTAGATCGCCG	0.607													20	102					0	0	0.021523	0	0		A	27150221	A	A	27150221	2	1	25	1	0	0	0	0	0	0	0	1	7309	1140	40	1		1	HOXA3	7	27150221	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2297	27150221	131988442	425	21425											
TXNDC3	51314	broad.mit.edu	37	chr7	37901657	37901657	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaattatcgaaaagattcagGgtgcaaatgcaccgcttgtt	14	11	9	7	2	1	1	1	0	0	1	2	2	1	1	1	1	2	4	1	1	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:37901657G>T	uc003tfn.2	+	7	670	c.298G>T	c.(298-300)GGT>TGT	p.G100C		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	100	Thioredoxin.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						AAAGATTCAGGGTGCAAATGC	0.378									Kartagener_syndrome				21	115					1.01871e-10	1.0763e-10	0.008871	1	0		T	37901657	T	T	37901657	3	4	25	1	0	0	0	0	1	0	0	0	16824	1232	43	5	316	5	TXNDC3	7	37901657	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	10751436	37901657	121237006	426	21426											
TARP	445347	broad.mit.edu	37	chr7	38357047	38357047	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggggagcaaaactacttaCgagccccaaggactgccagc	12	5	12	12	1	0	0	0	0	0	0	0	3	0	2	3	3	7	1	3	3	5	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:38357047C>T	uc003tge.1	-	2	423	c.46_splice	c.e2+1	p.L16_splice	uc003tfz.1_5'Flank|TARP_uc003tgf.1_5'Flank|TARP_uc003tgj.1_5'Flank|TARP_uc003tgh.1_5'Flank|TARP_uc003tgi.1_5'Flank|TARP_uc003tgg.1_5'Flank			A2JGV3	A2JGV3_HUMAN	Homo sapiens TCRgamma alternate reading frame protein (TCRg) mRNA, complete cds.												0						AAACTACTTACGAGCCCCAAG	0.448													6	15					0	0	0.001168	0	0		T	38357047	T	T	38357047	5	4	25	1	0	0	0	0	0	0	1	0	15583	551	19	1		1	TARP	7	38357047	Splice_Site	SNP	C	TCGA-BR-4370-01A-01D-1158-08	455390	38357047	120781616	427	21427											
GLI3	2737	broad.mit.edu	37	chr7	42005905	42005905	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcggtactgctgggcgggCgtgaggctgagcaggctggg	5	6	22	8	3	0	2	0	2	0	0	0	2	0	2	0	7	3	5	0	7	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:42005905C>T	uc011kbh.1	-	15	2857	c.2766G>A	c.(2764-2766)ACG>ACA	p.T922T	GLI3_uc011kbg.1_Silent_p.T863T	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	922					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GCTGGGCGGGCGTGAGGCTGA	0.706									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				4	41					0	0	0.001168	0	0		T	42005905	T	T	42005905	2	4	25	1	0	0	0	0	0	0	0	1	6454	755	27	1		1	GLI3	7	42005905	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3648858	42005905	117132758	428	21428											
POLM	27434	broad.mit.edu	37	chr7	44112960	44112960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgtcttcctctgaagccGcttggaaaaatgtcttctgc	9	13	9	10	1	4	2	0	1	4	1	5	3	5	3	2	1	2	1	2	1	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:44112960G>A	uc003tjt.2	-	11	1507	c.1415C>T	c.(1414-1416)GCG>GTG	p.A472V	POLM_uc003tjw.1_Missense_Mutation_p.R109W|POLM_uc003tju.2_Missense_Mutation_p.A435V|POLM_uc003tjx.2_Missense_Mutation_p.R410W|POLM_uc003tjv.2_RNA|POLM_uc011kbt.1_Missense_Mutation_p.R140W	NM_013284	NP_037416	Q9NP87	DPOLM_HUMAN	DNA-directed DNA polymerase mu	472					DNA recombination|DNA repair	nucleus	DNA binding|DNA nucleotidylexotransferase activity|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3						CTCTGAAGCCGCTTGGAAAAA	0.567								DNA_polymerases_(catalytic_subunits)					6	71					0	0	0.004482	0	0		A	44112960	A	A	44112960	3	1	25	1	0	0	0	0	1	0	0	0	12225	1087	38	1	73	1	POLM	7	44112960	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2107055	44112960	115025703	429	21429											
OGDH	4967	broad.mit.edu	37	chr7	44734127	44734127	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcctgtgttacagaagtaCgctgagctgctggtgtcgca	9	10	13	9	2	0	2	0	1	0	1	1	2	0	2	1	1	5	6	1	1	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:44734127C>T	uc003tln.2	+	12	1729	c.1620C>T	c.(1618-1620)TAC>TAT	p.Y540Y	OGDH_uc011kbx.1_Silent_p.Y536Y|OGDH_uc011kby.1_Silent_p.Y390Y|OGDH_uc003tlp.2_Silent_p.Y551Y|OGDH_uc011kbz.1_Silent_p.Y335Y|OGDH_uc003tlo.1_Silent_p.Y373Y	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	540					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	TACAGAAGTACGCTGAGCTGC	0.587													16	101					0	0	0.004007	0	0		T	44734127	T	T	44734127	2	4	25	1	0	0	0	0	0	0	0	1	10858	547	19	1		1	OGDH	7	44734127	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	621167	44734127	114404536	430	21430											
TNS3	64759	broad.mit.edu	37	chr7	47343041	47343041	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcctggagctctgacggcggGaagcaggacagcactgggga	9	4	18	10	2	1	1	0	1	1	0	1	5	1	5	1	6	3	3	1	6	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:47343041G>A	uc003tnv.2	-	22	3331	c.2964C>T	c.(2962-2964)TTC>TTT	p.F988F	TNS3_uc003tnw.2_Silent_p.F988F	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	988						focal adhesion	protein binding			ovary(4)	4						CTGACGGCGGGAAGCAGGACA	0.672													7	87					0	0	0.004482	0	0		A	47343041	A	A	47343041	2	1	25	1	0	0	0	0	0	0	0	1	16369	1165	41	4		4	TNS3	7	47343041	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2608914	47343041	111795622	431	21431											
PKD1L1	168507	broad.mit.edu	37	chr7	47879214	47879214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggggaaggcccacggctgtCgtgccagaggcggatcttcc	6	7	16	12	3	1	1	0	0	1	1	3	3	2	3	3	6	1	1	3	6	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:47879214C>T	uc003tny.1	-	36	5599	c.5599G>A	c.(5599-5601)GAC>AAC	p.D1867N		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	1867	PLAT.|Cytoplasmic (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CCACGGCTGTCGTGCCAGAGG	0.652													4	15					0	0	0.009096	0	0		T	47879214	T	T	47879214	3	4	25	1	0	0	0	0	1	0	0	0	11983	884	31	1	3038	1	PKD1L1	7	47879214	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	536173	47879214	111259449	432	21432											
ZNF713	349075	broad.mit.edu	37	chr7	56007338	56007338	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgtgggaaagccttccGtcagcattcatcctttactc	8	13	9	11	1	2	0	2	0	0	0	5	2	4	2	3	2	3	1	3	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:56007338G>A	uc003trc.1	+	4	970	c.932G>A	c.(931-933)CGT>CAT	p.R311H	ZNF713_uc003tra.1_Missense_Mutation_p.R324H|MRPS17_uc003trb.2_Intron	NM_182633	NP_872439	Q8N859	ZN713_HUMAN	zinc finger protein 713	311	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			AAAGCCTTCCGTCAGCATTCA	0.403													37	251					0	0	0.019004	0	0		A	56007338	A	A	56007338	3	1	25	1	0	0	0	0	1	0	0	0	18142	1145	40	1	946	1	ZNF713	7	56007338	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	8128124	56007338	103131325	433	21433											
AUTS2	26053	broad.mit.edu	37	chr7	70254984	70254984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacggccacgaggggcgcGccgcgggcgaagaggccaag	8	0	20	13	7	0	1	0	0	0	1	0	3	0	1	3	6	0	1	3	6	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:70254984G>A	uc003tvw.3	+	19	3525	c.2782G>A	c.(2782-2784)GCC>ACC	p.A928T	AUTS2_uc003tvx.3_Missense_Mutation_p.A904T|AUTS2_uc011keg.1_Missense_Mutation_p.A380T	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	928										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CGAGGGGCGCGCCGCGGGCGA	0.716													4	25					0	0	0.009096	0	0		A	70254984	A	A	70254984	3	1	25	1	0	0	0	0	1	0	0	0	1226	1087	38	1	3001	1	AUTS2	7	70254984	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	14247646	70254984	88883679	434	21434											
WBSCR17	64409	broad.mit.edu	37	chr7	70885914	70885914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgagccggttctatcccGcatccaggaaaaccggaagc	10	6	12	13	3	1	1	0	1	1	0	3	3	3	3	4	4	3	3	4	4	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:70885914G>A	uc003tvy.2	+	5	785	c.785G>A	c.(784-786)CGC>CAC	p.R262H	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	262	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				GTTCTATCCCGCATCCAGGAA	0.537													82	502					0	0	0.01441	0	0		A	70885914	A	A	70885914	3	1	25	1	0	0	0	0	1	0	0	0	17290	1087	38	1	803	1	WBSCR17	7	70885914	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	630930	70885914	88252749	435	21435											
TRIM50	135892	broad.mit.edu	37	chr7	72738631	72738631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgccggcacacggggcagCgcagctcggcatccaggtgg	6	4	16	15	4	0	0	0	0	0	0	2	0	1	0	3	6	3	5	3	6	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:72738631C>T	uc010lbd.1	-	2	280	c.155G>A	c.(154-156)CGC>CAC	p.R52H	FKBP6_uc003twz.2_Intron|TRIM50_uc003txy.1_Missense_Mutation_p.R52H|TRIM50_uc003txz.1_Missense_Mutation_p.R52H	NM_178125	NP_835226	Q86XT4	TRI50_HUMAN	tripartite motif protein 50A	52	RING-type.					cytoplasm|intracellular membrane-bounded organelle	ligase activity|zinc ion binding			skin(1)	1						CACGGGGCAGCGCAGCTCGGC	0.677											OREG0018105	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	66					0	0	0.006122	0	0		T	72738631	T	T	72738631	3	4	25	1	0	0	0	0	1	0	0	0	16552	768	27	1	1332	1	TRIM50	7	72738631	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1852717	72738631	86400032	436	21436											
TBL2	26608	broad.mit.edu	37	chr7	72985188	72985188	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggcggcacggcgcggcAcccgccgcctcttcaaagcg	6	3	14	18	7	2	0	1	0	1	0	2	0	2	0	4	4	1	2	4	4	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:72985188A>G	uc003tyh.2	-	7	1127	c.993T>C	c.(991-993)GGT>GGC	p.G331G	TBL2_uc011kex.1_Silent_p.G295G|TBL2_uc010lbg.2_Silent_p.G236G|TBL2_uc003tyi.2_Silent_p.G166G|TBL2_uc011key.1_Silent_p.G202G|TBL2_uc010lbh.2_Silent_p.G236G	NM_012453	NP_036585	Q9Y4P3	TBL2_HUMAN	transducin (beta)-like 2	331	WD 6.										0		Lung NSC(55;0.0659)|all_lung(88;0.152)				ACGGCGCGGCACCCGCCGCCT	0.602													30	146					0	0	0.015359	0	0		G	72985188	G	G	72985188	2	3	25	1	0	0	0	0	0	0	0	1	15667	146	6	3		3	TBL2	7	72985188	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	246557	72985188	86153475	437	21437											
WBSCR22	114049	broad.mit.edu	37	chr7	73106929	73106929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctgtttctttcaggtcCggggatcccgagctgtcctg	3	14	12	12	2	2	0	1	0	1	0	6	2	6	1	4	3	1	3	4	3	0	3	rs141991727		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:73106929C>T	uc003tyt.2	+	7	521	c.463C>T	c.(463-465)CGG>TGG	p.R155W	WBSCR22_uc010lbi.1_RNA|WBSCR22_uc003tyu.2_Missense_Mutation_p.R155W|WBSCR22_uc003tyv.2_Missense_Mutation_p.R117W|WBSCR22_uc003tyw.1_Missense_Mutation_p.R18W	NM_017528	NP_059998	O43709	WBS22_HUMAN	Williams Beuren syndrome chromosome region 22	155						nucleus	methyltransferase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				CTTTCAGGTCCGGGGATCCCG	0.488													25	147					0	0	0.005443	0	0		T	73106929	T	T	73106929	3	4	25	1	0	0	0	0	1	0	0	0	17291	643	23	1	489	1	WBSCR22	7	73106929	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	121741	73106929	86031734	438	21438											
PCLO	27445	broad.mit.edu	37	chr7	82387901	82387901	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgtttcttcaatgcgttTgagtaggactgaccaaaagt	12	13	9	7	1	2	2	1	2	1	0	2	3	2	3	1	1	1	3	1	1	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:82387901T>C	uc003uhx.2	-	25	15708	c.15419A>G	c.(15418-15420)CAA>CGA	p.Q5140R		NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	5063					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TCAATGCGTTTGAGTAGGACT	0.378													33	401					0	0	0.019004	0	0		C	82387901	C	C	82387901	3	2	25	1	0	0	0	0	1	0	0	0	11602	1812	63	3	13	3	PCLO	7	82387901	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	9280972	82387901	76750762	439	21439											
PCLO	27445	broad.mit.edu	37	chr7	82595405	82595405	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttttcttctaggagtggCtttttttcttcagaacgtat	6	22	7	6	1	4	1	1	0	3	1	4	2	4	2	0	2	1	2	0	2	3	10			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:82595405C>T	uc003uhx.2	-	4	3988	c.3699G>A	c.(3697-3699)AAG>AAA	p.K1233K	PCLO_uc003uhv.2_Silent_p.K1233K	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1172					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CTAGGAGTGGCTTTTTTTCTT	0.383													84	570					0	0	0.01441	0	0		T	82595405	T	T	82595405	2	4	25	1	0	0	0	0	0	0	0	1	11602	796	28	2		2	PCLO	7	82595405	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	207504	82595405	76543258	440	21440											
DMTF1	9988	broad.mit.edu	37	chr7	86811625	86811625	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcttctgtcaaagatcggtgCcgactgatgaaggatacttg	10	12	11	8	2	3	3	1	2	2	1	4	5	3	4	1	2	2	0	1	2	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:86811625C>T	uc003uih.2	+	10	1118	c.792C>T	c.(790-792)TGC>TGT	p.C264C	DMTF1_uc003uii.2_5'UTR|DMTF1_uc003uij.2_5'UTR|DMTF1_uc011khb.1_Silent_p.C176C|DMTF1_uc003uik.2_RNA|DMTF1_uc003uil.2_Silent_p.C264C|DMTF1_uc003uin.2_5'UTR	NM_001142327	NP_001135799	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	264	Interaction with CCND1, CCND2 and CCND3 (By similarity).|Required for DNA-binding (By similarity).				cell cycle	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(14;0.0058)					AAGATCGGTGCCGACTGATGA	0.493													15	116					0	0	0.004007	0	0		T	86811625	T	T	86811625	2	4	25	1	0	0	0	0	0	0	0	1	4598	747	26	2		2	DMTF1	7	86811625	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4216220	86811625	72327038	441	21441											
ADAM22	53616	broad.mit.edu	37	chr7	87765316	87765316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatgtaaatgcgaggacaCgtggtccgggtgcataatgg	11	9	15	6	3	0	1	0	1	0	0	1	3	1	2	1	4	2	2	1	4	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:87765316C>T	uc003ujn.2	+	14	1269	c.1190C>T	c.(1189-1191)ACG>ATG	p.T397M	ADAM22_uc003ujk.1_Missense_Mutation_p.T397M|ADAM22_uc003ujl.1_Missense_Mutation_p.T397M|ADAM22_uc003ujm.2_Missense_Mutation_p.T397M|ADAM22_uc003ujo.2_Missense_Mutation_p.T397M|ADAM22_uc003ujp.1_Missense_Mutation_p.T449M	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	397	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			TGCGAGGACACGTGGTCCGGG	0.373													17	176					0	0	0.012319	0	0		T	87765316	T	T	87765316	3	4	25	1	0	0	0	0	1	0	0	0	244	536	19	1	1244	1	ADAM22	7	87765316	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	953691	87765316	71373347	442	21442											
C7orf63	79846	broad.mit.edu	37	chr7	89939548	89939548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaaaaaagagtattcctaCgtaatatactatagagactt	18	11	5	7	1	0	2	0	0	0	2	1	3	1	2	2	0	2	2	2	0	10	9			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:89939548C>T	uc010lep.2	+	23	3073	c.2822C>T	c.(2821-2823)ACG>ATG	p.T941M	C7orf63_uc011khj.1_Missense_Mutation_p.T923M|C7orf63_uc011khk.1_Missense_Mutation_p.T457M	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	941							binding			ovary(1)	1						AGTATTCCTACGTAATATACT	0.308													21	82					0	0	0.008871	0	0		T	89939548	T	T	89939548	3	4	25	1	0	0	0	0	1	0	0	0	2412	536	19	1	2912	1	C7orf63	7	89939548	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2174232	89939548	69199115	443	21443											
CYP51A1	1595	broad.mit.edu	37	chr7	91752621	91752621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatcatcagtcaaaggaCgcccatccctaaggaatgaa	14	8	7	12	1	4	1	4	1	0	0	5	3	5	3	2	2	0	0	2	2	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:91752621C>T	uc003ulm.3	-	7	1061	c.899G>A	c.(898-900)CGT>CAT	p.R300H	CYP51A1_uc011khn.1_Missense_Mutation_p.R195H|CYP51A1_uc003uln.3_Missense_Mutation_p.R237H	NM_000786	NP_000777	Q16850	CP51A_HUMAN	cytochrome P450, family 51, subfamily A,	294					cholesterol biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|sterol 14-demethylase activity				0	all_cancers(62;2.16e-09)|all_epithelial(64;3.86e-08)|Breast(17;0.00206)|all_lung(186;0.169)|all_hematologic(106;0.215)|Lung NSC(181;0.227)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)		Fluconazole(DB00196)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Miconazole(DB01110)|Terconazole(DB00251)	AGTCAAAGGACGCCCATCCCT	0.393													7	361					0	0	0.004482	0	0		T	91752621	T	T	91752621	3	4	25	1	0	0	0	0	1	0	0	0	4198	536	19	1	646	1	CYP51A1	7	91752621	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1813073	91752621	67386042	444	21444											
SAMD9	54809	broad.mit.edu	37	chr7	92732292	92732292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaccttcatgttcatcgCggtgtcttgtgagtaggagt	6	16	11	8	2	4	1	3	1	1	0	5	2	4	2	1	2	0	2	1	2	1	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:92732292C>T	uc003umf.2	-	3	3375	c.3119G>A	c.(3118-3120)CGC>CAC	p.R1040H	SAMD9_uc003umg.2_Missense_Mutation_p.R1040H	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1040						cytoplasm		p.R1040L(1)		ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			ATGTTCATCGCGGTGTCTTGT	0.363													27	152					0	0	0.004656	0	0		T	92732292	T	T	92732292	3	4	25	1	0	0	0	0	1	0	0	0	13851	768	27	1	1654	1	SAMD9	7	92732292	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	979671	92732292	66406371	445	21445											
COL1A2	1278	broad.mit.edu	37	chr7	94052330	94052330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagggcttcgtggtcctcGtggtgaccaaggtccagttg	7	10	15	9	2	0	2	0	1	0	1	4	2	2	2	3	4	0	2	3	4	2	2	rs1800240		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:94052330G>A	uc003ung.1	+	40	2936	c.2465G>A	c.(2464-2466)CGT>CAT	p.R822H	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	822			Missing (in OI2A).		axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CGTGGTCCTCGTGGTGACCAA	0.557										HNSCC(75;0.22)			67	335					0	0	0.01441	0	0		A	94052330	A	A	94052330	3	1	25	1	0	0	0	0	1	0	0	0	3681	1145	40	1	2623	1	COL1A2	7	94052330	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1320038	94052330	65086333	446	21446											
COL1A2	1278	broad.mit.edu	37	chr7	94057007	94057007	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggttatgactttggttaCgatggagacttctacagggc	8	13	14	6	1	1	2	0	1	1	1	1	4	1	2	0	5	2	2	0	5	3	5	rs34691365	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:94057007C>T	uc003ung.1	+	49	3807	c.3336C>T	c.(3334-3336)TAC>TAT	p.Y1112Y	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1112					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	ACTTTGGTTACGATGGAGACT	0.547										HNSCC(75;0.22)			26	216					0	0	0.021523	0	0		T	94057007	T	T	94057007	2	4	25	1	0	0	0	0	0	0	0	1	3681	547	19	1		1	COL1A2	7	94057007	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4677	94057007	65081656	447	21447											
PPP1R9A	55607	broad.mit.edu	37	chr7	94917878	94917878	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggacagtctcccaaacacAgtcagtgtcagaatcgggcc	12	7	10	12	1	3	1	2	0	1	1	5	2	3	2	2	2	1	0	2	2	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:94917878A>G	uc003unp.2	+	15	3214	c.2932A>G	c.(2932-2934)AGT>GGT	p.S978G	PPP1R9A_uc010lfj.2_Missense_Mutation_p.S1254G|PPP1R9A_uc011kif.1_Missense_Mutation_p.S1176G|PPP1R9A_uc003unq.2_Intron|PPP1R9A_uc011kig.1_Missense_Mutation_p.S970G|PPP1R9A_uc003unr.2_Missense_Mutation_p.S267G	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	978	Interacts with TGN38 (By similarity).					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			TCCCAAACACAGTCAGTGTCA	0.428										HNSCC(28;0.073)			34	150					0	0	0.005524	0	0		G	94917878	G	G	94917878	3	3	25	1	0	0	0	0	1	0	0	0	12400	188	7	3	3858	3	PPP1R9A	7	94917878	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	860871	94917878	64220785	448	21448											
LMTK2	22853	broad.mit.edu	37	chr7	97821441	97821441	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcgactattatatccagtTagaagaaaaaagtggtagta	18	10	9	4	1	0	2	0	0	0	2	1	3	1	2	1	1	1	3	1	1	11	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:97821441T>C	uc003upd.1	+	11	1957	c.1664T>C	c.(1663-1665)TTA>TCA	p.L555S		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	555					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					TATATCCAGTTAGAAGAAAAA	0.502													35	165					0	0	0.019004	0	0		C	97821441	C	C	97821441	3	2	25	1	0	0	0	0	1	0	0	0	8876	1764	61	3	1706	3	LMTK2	7	97821441	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	2903563	97821441	61317222	449	21449											
ARPC1A	10552	broad.mit.edu	37	chr7	98935830	98935830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctcagtcccaataatcacGaagtgcacatctataagaag	15	8	6	12	1	3	1	2	0	1	1	4	2	4	1	2	0	1	1	2	0	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:98935830G>A	uc003upx.1	+	3	238	c.91G>A	c.(91-93)GAA>AAA	p.E31K	ARPC1A_uc010lfu.1_RNA|ARPC1A_uc003upy.1_Missense_Mutation_p.E17K|ARPC1A_uc011kit.1_RNA	NM_006409	NP_006400	Q92747	ARC1A_HUMAN	actin related protein 2/3 complex subunit 1A	31	WD 1.				actin cytoskeleton organization|regulation of actin filament polymerization	actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	all_cancers(62;4.46e-09)|all_epithelial(64;3.44e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0258)		STAD - Stomach adenocarcinoma(171;0.215)			CAATAATCACGAAGTGCACAT	0.468													5	49					0	0	0.014758	0	0		A	98935830	A	A	98935830	3	1	25	1	0	0	0	0	1	0	0	0	970	1059	37	1	97	1	ARPC1A	7	98935830	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1114389	98935830	60202833	450	21450											
AP4M1	9179	broad.mit.edu	37	chr7	99702683	99702683	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagagatgcgcattggctTgacggaagagttttgtgtgg	9	11	16	5	2	0	3	0	1	0	2	0	6	0	4	0	3	1	3	0	3	1	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:99702683T>C	uc003utb.3	+	9	897	c.689T>C	c.(688-690)TTG>TCG	p.L230S	AP4M1_uc011kjg.1_Missense_Mutation_p.L184S|AP4M1_uc010lgl.1_Missense_Mutation_p.L230S|AP4M1_uc003utc.3_Missense_Mutation_p.L237S|AP4M1_uc010lgm.2_Missense_Mutation_p.L102S|AP4M1_uc003utd.2_Missense_Mutation_p.L230S|AP4M1_uc011kjh.1_Missense_Mutation_p.L182S|AP4M1_uc003ute.3_Missense_Mutation_p.L5S|AP4M1_uc003utf.3_Missense_Mutation_p.L102S	NM_004722	NP_004713	O00189	AP4M1_HUMAN	adaptor-related protein complex 4, mu 1 subunit	230	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|coated pit|Golgi trans cisterna	transporter activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CGCATTGGCTTGACGGAAGAG	0.532													31	134					0	0	0.013726	0	0		C	99702683	C	C	99702683	3	2	25	1	0	0	0	0	1	0	0	0	753	1821	63	3	723	3	AP4M1	7	99702683	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	766853	99702683	59435980	451	21451											
ZAN	7455	broad.mit.edu	37	chr7	100361492	100361492	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctctgcagagcagcatgtcGgggccagggttctgtggacg	6	9	16	10	2	2	1	0	0	2	1	4	2	2	2	1	4	3	4	1	4	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:100361492G>A	uc003uwj.2	+	21	4215	c.4050G>A	c.(4048-4050)TCG>TCA	p.S1350S	ZAN_uc003uwk.2_Silent_p.S1350S|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kkd.1_Intron	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1350	VWFD 1.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GCAGCATGTCGGGGCCAGGGT	0.577													52	291					0	0	0.01441	0	0		A	100361492	A	A	100361492	2	1	25	1	0	0	0	0	0	0	0	1	17539	1103	39	1		1	ZAN	7	100361492	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	658809	100361492	58777171	452	21452											
MUC17	140453	broad.mit.edu	37	chr7	100677551	100677551	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaactcctgttgacaccAgcacacctgtgaccacttct	10	9	6	16	0	1	2	0	2	1	0	2	2	2	2	4	0	3	3	4	0	1	2	rs146914932		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:100677551A>G	uc003uxp.1	+	3	2907	c.2854A>G	c.(2854-2856)AGC>GGC	p.S952G	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	952	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|14.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TGTTGACACCAGCACACCTGT	0.507													15	640					0	0	0.00499	0	0		G	100677551	G	G	100677551	3	3	25	1	0	0	0	0	1	0	0	0	9992	188	7	3	2864	3	MUC17	7	100677551	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	316059	100677551	58461112	453	21453											
CUX1	1523	broad.mit.edu	37	chr7	101921277	101921277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagtgagctggacagcctgCgcgccgacaacatcaagctc	11	5	12	13	3	1	2	1	1	0	1	2	4	1	3	2	1	5	2	2	1	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:101921277C>T	uc003uyt.2	+	18	1640	c.1621C>T	c.(1621-1623)CGC>TGC	p.R541C	CUX1_uc011kkn.1_Missense_Mutation_p.R502C|CUX1_uc003uyw.2_Missense_Mutation_p.R495C|CUX1_uc003uyv.2_Missense_Mutation_p.R525C|CUX1_uc003uyu.2_Missense_Mutation_p.R539C|CUX1_uc003uyz.2_RNA	NM_001913	NP_001904	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform b	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						GGACAGCCTGCGCGCCGACAA	0.672													7	35					0	0	0.00308	0	0		T	101921277	T	T	101921277	3	4	25	1	0	0	0	0	1	0	0	0	4067	768	27	1	5061	1	CUX1	7	101921277	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1243726	101921277	57217386	454	21454											
CUX1	1523	broad.mit.edu	37	chr7	101925162	101925162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctccaacaagatggcgCgcaccatcggcttcttctac	8	11	7	15	3	3	1	0	0	3	1	6	1	4	1	2	2	2	2	2	2	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:101925162C>T	uc003uyt.2	+	21	1871	c.1852C>T	c.(1852-1854)CGC>TGC	p.R618C	CUX1_uc011kkn.1_Missense_Mutation_p.R579C|CUX1_uc003uyw.2_Missense_Mutation_p.R572C|CUX1_uc003uyv.2_Missense_Mutation_p.R602C|CUX1_uc003uyu.2_Missense_Mutation_p.R616C|CUX1_uc003uyz.2_RNA	NM_001913	NP_001904	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform b	Error:Variant_position_missing_in_P39880_after_alignment					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						CAAGATGGCGCGCACCATCGG	0.652													10	95					0	0	0.00499	0	0		T	101925162	T	T	101925162	3	4	25	1	0	0	0	0	1	0	0	0	4067	768	27	1	5304	1	CUX1	7	101925162	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3885	101925162	57213501	455	21455											
RELN	5649	broad.mit.edu	37	chr7	103155812	103155812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtcgttctgatccaggcCgtcatgtcttggctgccacc	5	11	10	15	2	3	1	1	1	2	0	5	1	4	1	5	2	1	2	5	2	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:103155812C>T	uc003vca.2	-	50	8099	c.7939G>A	c.(7939-7941)GGC>AGC	p.G2647S	RELN_uc010liz.2_Missense_Mutation_p.G2647S	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2647					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TGATCCAGGCCGTCATGTCTT	0.532													9	54					0	0	0.006214	0	0		T	103155812	T	T	103155812	3	4	25	1	0	0	0	0	1	0	0	0	13245	652	23	1	2507	1	RELN	7	103155812	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1230650	103155812	55982851	456	21456											
RELN	5649	broad.mit.edu	37	chr7	103163922	103163922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacattatctattgcccatGtctgctgcttgtcaaaagga	11	13	8	9	0	3	1	1	0	2	1	3	2	3	2	1	1	3	2	1	1	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:103163922G>A	uc003vca.2	-	47	7566	c.7406C>T	c.(7405-7407)ACA>ATA	p.T2469I	RELN_uc010liz.2_Missense_Mutation_p.T2469I	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2469					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TATTGCCCATGTCTGCTGCTT	0.463													53	237					0	0	0.01441	0	0		A	103163922	A	A	103163922	3	1	25	1	0	0	0	0	1	0	0	0	13245	1377	48	4	3052	4	RELN	7	103163922	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	8110	103163922	55974741	457	21457											
RINT1	60561	broad.mit.edu	37	chr7	105182968	105182968	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggaaactcatctcttcagCgccattaacagccatttgct	11	11	6	13	1	3	0	2	0	1	0	4	1	3	1	2	1	5	1	2	1	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:105182968C>T	uc003vda.1	+	4	618	c.387C>T	c.(385-387)AGC>AGT	p.S129S	RINT1_uc010ljj.1_Intron	NM_021930	NP_068749	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1	129					cell cycle|G2/M transition DNA damage checkpoint|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane	protein binding			ovary(3)|central_nervous_system(1)	4						ATCTCTTCAGCGCCATTAACA	0.408													11	157					0	0	0.013537	0	0		T	105182968	T	T	105182968	2	4	25	1	0	0	0	0	0	0	0	1	13401	767	27	1		1	RINT1	7	105182968	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2019046	105182968	53955695	458	21458											
ATXN7L1	222255	broad.mit.edu	37	chr7	105516960	105516960	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttccctgttccttcggcAgcagcagccgagagacacgg	7	10	11	13	3	0	1	0	0	0	1	3	3	2	1	3	2	3	4	3	2	0	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:105516960A>G	uc003vde.2	-	1	72	c.45T>C	c.(43-45)GCT>GCC	p.A15A	ATXN7L1_uc003vdi.2_Silent_p.A15A|CDHR3_uc003vdk.2_5'Flank|uc003vdj.1_5'Flank	NM_020725	NP_065776	Q9ULK2	AT7L1_HUMAN	ataxin 7-like 1 isoform 1	15											0						TTCCTTCGGCAGCAGCAGCCG	0.498													8	36					0	0	0.006214	0	0		G	105516960	G	G	105516960	2	3	25	1	0	0	0	0	0	0	0	1	1217	175	7	3		3	ATXN7L1	7	105516960	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	333992	105516960	53621703	459	21459											
DLD	1738	broad.mit.edu	37	chr7	107559493	107559493	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgaagctgctcttgctttGgaatatggagcatcctgtga	10	13	11	7	0	1	2	0	2	1	0	2	4	2	4	1	2	4	4	1	2	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:107559493G>A	uc003vet.2	+	13	1523	c.1413G>A	c.(1411-1413)TTG>TTA	p.L471L	DLD_uc011kmg.1_Silent_p.L423L|DLD_uc011kmh.1_Silent_p.L448L|DLD_uc011kmi.1_Silent_p.L372L	NM_000108	NP_000099	P09622	DLDH_HUMAN	dihydrolipoamide dehydrogenase precursor	471					branched chain family amino acid catabolic process|cell redox homeostasis|lysine catabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	dihydrolipoyl dehydrogenase activity			central_nervous_system(1)	1					NADH(DB00157)	CTCTTGCTTTGGAATATGGAG	0.368													14	209					0	0	0.016723	0	0		A	107559493	A	A	107559493	2	1	25	1	0	0	0	0	0	0	0	1	4557	1339	47	4		4	DLD	7	107559493	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2042533	107559493	51579170	460	21460											
NRCAM	4897	broad.mit.edu	37	chr7	107818475	107818475	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactctgtcaaaatgccattCgggtggctcggtggatccca	8	11	11	11	2	2	0	1	0	1	0	5	1	3	1	2	4	2	1	2	4	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:107818475C>T	uc003vfb.2	-	26	3405	c.2934G>A	c.(2932-2934)CCG>CCA	p.P978P	NRCAM_uc003vfc.2_Silent_p.P962P|NRCAM_uc011kmk.1_Silent_p.P973P|NRCAM_uc003vfd.2_Silent_p.P954P|NRCAM_uc003vfe.2_Silent_p.P954P|NRCAM_uc011kmj.1_5'Flank	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	978	Fibronectin type-III 4.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						AAATGCCATTCGGGTGGCTCG	0.413													17	91					0	0	0.006122	0	0		T	107818475	T	T	107818475	2	4	25	1	0	0	0	0	0	0	0	1	10663	871	31	1		1	NRCAM	7	107818475	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	258982	107818475	51320188	461	21461											
PPP1R3A	5506	broad.mit.edu	37	chr7	113519666	113519666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgattctttgagacatgccGacgtatctgaatggaaatct	11	14	9	7	2	3	3	0	3	3	1	3	6	3	4	1	1	1	1	1	1	3	4	rs17847377	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:113519666G>A	uc010ljy.1	-	4	1512	c.1481C>T	c.(1480-1482)TCG>TTG	p.S494L		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	494					glycogen metabolic process	integral to membrane		p.S494L(1)		lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						GAGACATGCCGACGTATCTGA	0.333													19	94					0	0	0.012319	0	0		A	113519666	A	A	113519666	3	1	25	1	0	0	0	0	1	0	0	0	12393	1059	37	1	1891	1	PPP1R3A	7	113519666	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5701191	113519666	45618997	462	21462											
HYAL4	23553	broad.mit.edu	37	chr7	123516944	123516944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataaggaagatgtggaacgCgcccagttaccttcacttga	12	9	10	10	2	1	2	1	1	0	1	1	4	1	4	2	2	2	1	2	2	4	4	rs150077532	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:123516944C>T	uc003vlc.2	+	5	1819	c.1181C>T	c.(1180-1182)GCG>GTG	p.A394V	HYAL4_uc011knz.1_3'UTR	NM_012269	NP_036401	Q2M3T9	HYAL4_HUMAN	hyaluronoglucosaminidase 4	394	Extracellular (Potential).				fusion of sperm to egg plasma membrane|glycosaminoglycan catabolic process	integral to membrane	hyalurononglucosaminidase activity			skin(1)	1						ATGTGGAACGCGCCCAGTTAC	0.507													29	160					0	0	0.007291	0	0		T	123516944	T	T	123516944	3	4	25	1	0	0	0	0	1	0	0	0	7482	768	27	1	1191	1	HYAL4	7	123516944	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	9997278	123516944	35621719	463	21463											
GCC1	79571	broad.mit.edu	37	chr7	127222456	127222456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaaagtgggctcattggccGctgcaagttgtaatgcttgg	9	11	14	7	1	1	1	1	0	0	1	1	1	1	1	1	3	2	6	1	3	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:127222456G>A	uc003vma.2	-	2	2358	c.1940C>T	c.(1939-1941)GCG>GTG	p.A647V		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	647	Potential.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						CTCATTGGCCGCTGCAAGTTG	0.587													38	198					0	0	0.00623	0	0		A	127222456	A	A	127222456	3	1	25	1	0	0	0	0	1	0	0	0	6300	1087	38	1	391	1	GCC1	7	127222456	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3705512	127222456	31916207	464	21464											
SND1	27044	broad.mit.edu	37	chr7	127729627	127729627	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtggaacacctgagtgcCggctgcccccatgtcaccct	8	7	10	16	2	1	1	1	1	0	0	1	2	1	2	5	2	4	1	5	2	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:127729627C>T	uc003vmi.2	+	22	2731	c.2505C>T	c.(2503-2505)GCC>GCT	p.A835A	SND1_uc010lle.2_Silent_p.A488A	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	835					gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						ACCTGAGTGCCGGCTGCCCCC	0.607													13	148					0	0	0.020292	0	0		T	127729627	T	T	127729627	2	4	25	1	0	0	0	0	0	0	0	1	14869	639	23	1		1	SND1	7	127729627	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	507171	127729627	31409036	465	21465											
C7orf68	29923	broad.mit.edu	37	chr7	128097324	128097324	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtagggtcctttcagccaTgaagcatgtgttgaacctct	9	12	11	9	0	2	2	1	2	1	0	3	3	3	2	3	1	3	3	3	1	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:128097324T>C	uc003vne.3	+	2	264	c.2T>C	c.(1-3)ATG>ACG	p.M1T	C7orf68_uc010lli.2_Missense_Mutation_p.M1T|C7orf68_uc010llj.1_Intron	NM_013332	NP_037464	Q9Y5L2	HIG2_HUMAN	hypoxia-inducible protein 2	1					autocrine signaling|positive regulation of cell proliferation|response to stress	cell surface|extracellular space|integral to membrane|stored secretory granule	receptor binding				0						CTTTCAGCCATGAAGCATGTG	0.488													14	126					0	0	0.020292	0	0		C	128097324	C	C	128097324	3	2	25	1	0	0	0	0	1	0	0	0	2416	1464	51	3	4	3	C7orf68	7	128097324	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	367697	128097324	31041339	466	21466											
TSGA13	114960	broad.mit.edu	37	chr7	130356601	130356601	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttttgaatacttcccttcGctcttgaaatcattgtcagt	9	17	5	10	1	3	2	2	2	1	0	5	2	4	2	1	0	1	1	1	0	3	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:130356601G>A	uc003vqi.2	-	7	1015	c.558C>T	c.(556-558)AGC>AGT	p.S186S	TSGA13_uc003vqj.2_Silent_p.S186S	NM_052933	NP_443165	Q96PP4	TSG13_HUMAN	testis specific, 13	186										ovary(2)	2	Melanoma(18;0.0435)					ACTTCCCTTCGCTCTTGAAAT	0.388													36	172					0	0	0.021022	0	0		A	130356601	A	A	130356601	2	1	25	1	0	0	0	0	0	0	0	1	16645	1078	38	1		1	TSGA13	7	130356601	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2259277	130356601	28782062	467	21467											
EXOC4	60412	broad.mit.edu	37	chr7	132973839	132973839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggaacagtgcatggccaGcaagcactatctcagtgcca	11	7	11	12	0	1	0	1	0	1	0	2	1	1	1	2	2	5	4	2	2	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:132973839G>A	uc003vrk.2	+	3	475	c.440G>A	c.(439-441)AGC>AAC	p.S147N	EXOC4_uc011kpo.1_Missense_Mutation_p.S46N|EXOC4_uc003vri.2_Missense_Mutation_p.S147N|EXOC4_uc003vrj.2_Missense_Mutation_p.S147N	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	147					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				TGCATGGCCAGCAAGCACTAT	0.423													15	72					0	0	0.004007	0	0		A	132973839	A	A	132973839	3	1	25	1	0	0	0	0	1	0	0	0	5314	971	34	2	450	2	EXOC4	7	132973839	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2617238	132973839	26164824	468	21468											
CALD1	800	broad.mit.edu	37	chr7	134632499	134632499	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggaagcaggaggaagcCgatcgaaaactcagagagga	17	2	16	6	2	1	1	1	0	0	1	2	9	1	6	1	5	3	1	1	5	4	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:134632499C>T	uc003vrz.2	+	8	2232	c.1773C>T	c.(1771-1773)GCC>GCT	p.A591A	CALD1_uc003vry.2_Silent_p.A336A|CALD1_uc003vsa.2_Silent_p.A362A|CALD1_uc003vsb.2_Silent_p.A336A|CALD1_uc010lmm.2_Silent_p.A362A|CALD1_uc011kpt.1_Silent_p.A110A|CALD1_uc003vsc.2_Silent_p.A356A|CALD1_uc003vsd.2_Silent_p.A330A|CALD1_uc011kpu.1_Silent_p.A341A|CALD1_uc011kpv.1_Silent_p.A200A|CALD1_uc003vse.2_Silent_p.A455A	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	591	Tropomyosin-binding (Potential).				cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						aggaggaagCCGATCGAAAAC	0.294													13	73					0	0	0.00499	0	0		T	134632499	T	T	134632499	2	4	25	1	0	0	0	0	0	0	0	1	2584	639	23	1		1	CALD1	7	134632499	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1658660	134632499	24506164	469	21469											
MKRN1	23608	broad.mit.edu	37	chr7	140156541	140156541	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgcagttggagaggatcccGaagcggcgctcactggggtt	7	9	16	9	3	1	1	1	0	0	1	2	4	2	2	1	5	2	4	1	5	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:140156541G>A	uc003vvt.2	-	5	1122	c.897C>T	c.(895-897)TTC>TTT	p.F299F	MKRN1_uc003vvs.2_Silent_p.F235F|MKRN1_uc011krd.1_Silent_p.F33F|MKRN1_uc003vvv.3_Silent_p.F299F|MKRN1_uc003vvu.3_Silent_p.F235F	NM_013446	NP_038474	Q9UHC7	MKRN1_HUMAN	makorin ring finger protein 1 isoform 1	299	RING-type.						ligase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.00956)					AGAGGATCCCGAAGCGGCGCT	0.527													14	93					0	0	0.003163	0	0		A	140156541	A	A	140156541	2	1	25	1	0	0	0	0	0	0	0	1	9624	1049	37	1		1	MKRN1	7	140156541	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5524042	140156541	18982122	470	21470											
MGAM	8972	broad.mit.edu	37	chr7	141727518	141727518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtcgtggagagaaatcgcGcagcacagctcccttatgta	12	8	11	10	3	0	1	0	0	0	1	3	3	1	2	1	1	2	4	1	1	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:141727518G>A	uc003vwy.2	+	10	1258	c.1204G>A	c.(1204-1206)GCA>ACA	p.A402T		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	402	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GAGAAATCGCGCAGCACAGCT	0.453													14	51					0	0	0.016723	0	0		A	141727518	A	A	141727518	3	1	25	1	0	0	0	0	1	0	0	0	9559	1087	38	1	1238	1	MGAM	7	141727518	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1570977	141727518	17411145	471	21471											
EPHB6	2051	broad.mit.edu	37	chr7	142564290	142564290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggcatccaacagcatcaCggtgtcctggccgcagcccg	7	5	12	17	4	1	0	1	0	0	0	3	0	3	0	5	3	3	3	5	3	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:142564290C>T	uc011kst.1	+	10	2301	c.1514C>T	c.(1513-1515)ACG>ATG	p.T505M	EPHB6_uc011ksu.1_Missense_Mutation_p.T505M|EPHB6_uc003wbs.2_Missense_Mutation_p.T213M|EPHB6_uc003wbt.2_Translation_Start_Site|EPHB6_uc003wbu.2_Missense_Mutation_p.T213M|EPHB6_uc003wbv.2_5'Flank	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	505	Fibronectin type-III 2.|Extracellular (Potential).					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					AACAGCATCACGGTGTCCTGG	0.582													10	119					0	0	0.016723	0	0		T	142564290	T	T	142564290	3	4	25	1	0	0	0	0	1	0	0	0	5186	536	19	1	1536	1	EPHB6	7	142564290	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	836772	142564290	16574373	472	21472											
NOBOX	135935	broad.mit.edu	37	chr7	144098303	144098303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgggttgtgtgtggcaCgggctgagttaggggcaccc	5	9	18	9	1	0	1	0	1	0	0	0	1	0	1	1	5	0	6	1	5	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:144098303C>T	uc011kue.1	-	4	680	c.680G>A	c.(679-681)CGT>CAT	p.R227H		NM_001080413	NP_001073882	O60393	NOBOX_HUMAN	NOBOX oogenesis homeobox	227					cell differentiation|oogenesis	nucleus	sequence-specific DNA binding			ovary(1)	1	Melanoma(164;0.14)					GTGTGTGGCACGGGCTGAGTT	0.597													7	47					0	0	0.001984	0	0		T	144098303	T	T	144098303	3	4	25	1	0	0	0	0	1	0	0	0	10531	536	19	1	1327	1	NOBOX	7	144098303	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1534013	144098303	15040360	473	21473											
ZNF425	155054	broad.mit.edu	37	chr7	148801229	148801229	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcacgcgaagggcttctcGtccctgtgcatccgctggtg	4	9	13	15	5	1	0	0	0	1	0	4	1	3	0	3	2	1	4	3	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:148801229G>A	uc003wfj.2	-	4	1807	c.1734C>T	c.(1732-1734)GAC>GAT	p.D578D		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	578					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			AGGGCTTCTCGTCCCTGTGCA	0.602													40	132					0	0	0.005524	0	0		A	148801229	A	A	148801229	2	1	25	1	0	0	0	0	0	0	0	1	17924	1136	40	1		1	ZNF425	7	148801229	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4702926	148801229	10337434	474	21474											
ZNF862	643641	broad.mit.edu	37	chr7	149545202	149545202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctgtgtcaatgccttggCagcgagggaccccatctggg	6	10	14	11	1	3	0	1	0	2	0	3	2	3	1	3	3	2	2	3	3	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:149545202C>T	uc010lpn.2	+	4	812	c.620C>T	c.(619-621)GCA>GTA	p.A207V	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	207	TTF-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						AATGCCTTGGCAGCGAGGGAC	0.572													10	113					0	0	0.010729	0	0		T	149545202	T	T	149545202	3	4	25	1	0	0	0	0	1	0	0	0	18220	710	25	2	634	2	ZNF862	7	149545202	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	743973	149545202	9593461	475	21475											
ABCB8	11194	broad.mit.edu	37	chr7	150730745	150730745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgggccgtggcccacctgcGgtcccagctctgggcccacc	3	5	13	20	3	1	0	0	0	1	0	2	0	2	0	7	4	2	1	7	4	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:150730745G>A	uc003wil.3	+	3	293	c.200G>A	c.(199-201)CGG>CAG	p.R67Q	ABCB8_uc003wii.2_Missense_Mutation_p.R87Q|ABCB8_uc003wij.3_Missense_Mutation_p.R50Q|ABCB8_uc010lpw.1_Intron|ABCB8_uc010lpx.2_Missense_Mutation_p.R50Q|ABCB8_uc011kvd.1_Intron|ABCB8_uc003wim.3_Intron|ABCB8_uc003wik.3_Missense_Mutation_p.R50Q	NM_007188	NP_009119	Q9NUT2	ABCB8_HUMAN	ATP-binding cassette, sub-family B, member 8	67						ATP-binding cassette (ABC) transporter complex|integral to membrane|membrane fraction|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCCCACCTGCGGTCCCAGCTC	0.677													18	115					0	0	0.007413	0	0		A	150730745	A	A	150730745	3	1	25	1	0	0	0	0	1	0	0	0	47	1116	39	1	155	1	ABCB8	7	150730745	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1185543	150730745	8407918	476	21476											
AGAP3	116988	broad.mit.edu	37	chr7	150839596	150839596	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacctgtcccgggtgcgctcCcttgacctcgatgactggcc	4	9	11	17	3	0	2	0	2	0	0	3	3	2	2	5	2	1	1	5	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:150839596C>G	uc003wjg.1	+	16	2151	c.2148C>G	c.(2146-2148)TCC>TCG	p.S716S	AGAP3_uc003wje.1_Silent_p.S385S|AGAP3_uc003wjj.1_Silent_p.S215S|AGAP3_uc003wjk.1_Silent_p.S134S	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	680	Arf-GAP.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3						GGGTGCGCTCCCTTGACCTCG	0.642													24	106					0	0	0.008361	0	0		G	150839596	G	G	150839596	2	3	25	1	0	0	0	0	0	0	0	1	369	610	22	5		5	AGAP3	7	150839596	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	108851	150839596	8299067	477	21477											
CRYGN	155051	broad.mit.edu	37	chr7	151135151	151135151	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaagaagtcggggtagtcGccgtgctccaagatgaactg	10	7	15	9	4	0	3	0	1	0	2	3	4	1	4	2	3	2	2	2	3	5	1	rs139524541		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:151135151G>A	uc003wke.2	-	2	297	c.201C>T	c.(199-201)GGC>GGT	p.G67G	CRYGN_uc003wkf.2_Silent_p.G67G|CRYGN_uc003wkg.2_RNA|CRYGN_uc010lqd.1_5'Flank	NM_144727	NP_653328	Q8WXF5	CRGN_HUMAN	gammaN-crystallin	67	Beta/gamma crystallin 'Greek key' 2.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00358)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGGGGTAGTCGCCGTGCTCCA	0.607													27	92					0	0	0.004656	0	0		A	151135151	A	A	151135151	2	1	25	1	0	0	0	0	0	0	0	1	3921	1074	38	1		1	CRYGN	7	151135151	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	295555	151135151	8003512	478	21478											
PTPRN2	5799	broad.mit.edu	37	chr7	157931052	157931052	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctccagactctcccagggCcgctctcccagggctgcctc	4	9	9	19	1	3	1	0	0	3	1	7	1	3	1	5	2	1	2	5	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:157931052C>A	uc003wno.2	-	7	1187	c.1066G>T	c.(1066-1068)GCC>TCC	p.A356S	PTPRN2_uc003wnp.2_Missense_Mutation_p.A339S|PTPRN2_uc003wnq.2_Missense_Mutation_p.A356S|PTPRN2_uc003wnr.2_Missense_Mutation_p.A318S|PTPRN2_uc011kwa.1_Missense_Mutation_p.A379S	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	356	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		TCTCCCAGGGCCGCTCTCCCA	0.672													23	91					9.86323e-18	1.06403e-17	0.021523	1	0		A	157931052	A	A	157931052	3	1	25	1	0	0	0	0	1	0	0	0	12833	739	26	5	2049	5	PTPRN2	7	157931052	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6795901	157931052	1207611	479	21479											
WDR60	55112	broad.mit.edu	37	chr7	158738447	158738447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttgcaggaagccctgtggCcagagggaaaactgcacaag	12	7	13	9	0	0	1	0	0	0	1	0	3	0	3	2	3	4	2	2	3	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr7:158738447C>T	uc003woe.3	+	25	3336	c.3178C>T	c.(3178-3180)CCA>TCA	p.P1060S	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Missense_Mutation_p.P692S	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	1060										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		AGCCCTGTGGCCAGAGGGAAA	0.552													5	29					0	0	0.014758	0	0		T	158738447	T	T	158738447	3	4	25	1	0	0	0	0	1	0	0	0	17337	739	26	2	3276	2	WDR60	7	158738447	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	807395	158738447	400216	480	21480											
MYOM2	9172	broad.mit.edu	37	chr8	2040280	2040280	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggacctgctgggctactaCgtggactgctgtgtggccgg	5	9	17	10	2	0	0	0	0	0	0	0	3	0	2	2	5	4	3	2	5	2	2	rs112566516		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:2040280C>T	uc003wpx.3	+	16	2073	c.1935C>T	c.(1933-1935)TAC>TAT	p.Y645Y	MYOM2_uc011kwi.1_Silent_p.Y70Y	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	645	Fibronectin type-III 3.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		TGGGCTACTACGTGGACTGCT	0.622													52	230					0	0	0.01441	0	0		T	2040280	T	T	2040280	2	4	25	1	0	0	0	0	0	0	0	1	10110	547	19	1		1	MYOM2	8	2040280	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08		2040280	144323742	481	21481											
MFHAS1	9258	broad.mit.edu	37	chr8	8654933	8654933	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccaaggcaacatttactcGctcgctgccgttcttggggc	8	10	10	13	3	1	0	0	0	1	0	3	0	1	0	2	3	4	4	2	3	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:8654933G>A	uc003wsj.1	-	2	3630	c.3067C>T	c.(3067-3069)CGA>TGA	p.R1023*		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	1023											0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		ACATTTACTCGCTCGCTGCCG	0.572													18	79					0	0	0.00499	0	0		A	8654933	A	A	8654933	4	1	25	1	0	0	0	0	0	1	0	0	9539	1095	38	1	99	1	MFHAS1	8	8654933	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	6614653	8654933	137709089	482	21482											
RP1L1	94137	broad.mit.edu	37	chr8	10470311	10470311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccacaggccactgcagcGgacgtgctgggccagtcccc	6	4	13	18	2	0	0	0	0	0	0	1	1	1	1	6	3	3	2	6	3	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:10470311G>A	uc003wtc.2	-	4	1526	c.1297C>T	c.(1297-1299)CGC>TGC	p.R433C		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	433					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CCACTGCAGCGGACGTGCTGG	0.682													20	105					0	0	0.009535	0	0		A	10470311	A	A	10470311	3	1	25	1	0	0	0	0	1	0	0	0	13558	1116	39	1	5909	1	RP1L1	8	10470311	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1815378	10470311	135893711	483	21483											
C8orf74	203076	broad.mit.edu	37	chr8	10555303	10555303	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcccacctggaggtgtgcAtgccaccccatcccctcccg	5	8	9	19	1	0	0	0	0	0	0	2	1	2	1	8	2	3	1	8	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:10555303A>G	uc003wtd.1	+	3	465	c.436A>G	c.(436-438)ATG>GTG	p.M146V	C8orf74_uc003wte.1_RNA	NM_001040032	NP_001035121	Q6P047	CH074_HUMAN	hypothetical protein LOC203076	146											0				COAD - Colon adenocarcinoma(149;0.0811)		GGAGGTGTGCATGCCACCCCA	0.632													44	284					0	0	0.01441	0	0		G	10555303	G	G	10555303	3	3	25	1	0	0	0	0	1	0	0	0	2439	217	8	3	446	3	C8orf74	8	10555303	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	84992	10555303	135808719	484	21484											
XKR6	286046	broad.mit.edu	37	chr8	10756078	10756078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacattcgatatcgagtcCgcccttccttgacgttaaac	11	11	6	13	4	0	1	0	1	0	0	4	3	2	1	3	0	2	1	3	0	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:10756078C>T	uc003wtk.1	-	3	1337	c.1310G>A	c.(1309-1311)CGG>CAG	p.R437Q		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	437						integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		ATATCGAGTCCGCCCTTCCTT	0.478													11	52					0	0	0.010729	0	0		T	10756078	T	T	10756078	3	4	25	1	0	0	0	0	1	0	0	0	17461	652	23	1	619	1	XKR6	8	10756078	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	200775	10756078	135607944	485	21485											
MTMR9	66036	broad.mit.edu	37	chr8	11180273	11180273	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggcagaactggaaacagaGgacgggatgcaggagagtcc	13	5	16	7	1	0	3	0	0	0	3	1	7	1	6	1	5	3	2	1	5	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:11180273G>T	uc003wtm.2	+	10	2024	c.1626G>T	c.(1624-1626)GAG>GAT	p.E542D	MTMR9_uc010lrx.2_Missense_Mutation_p.E435D|MTMR9_uc011kxa.1_Missense_Mutation_p.E457D|uc003wtn.1_5'Flank|uc003wto.1_Intron	NM_015458	NP_056273	Q96QG7	MTMR9_HUMAN	myotubularin related protein 9	542						cytoplasm	phosphatase activity|protein binding				0			STAD - Stomach adenocarcinoma(15;0.215)	COAD - Colon adenocarcinoma(149;0.0678)		TGGAAACAGAGGACGGGATGC	0.468													4	152					1.23904e-05	1.2731e-05	0.014758	1	0		T	11180273	T	T	11180273	3	4	25	1	0	0	0	0	1	0	0	0	9968	991	35	5	1664	5	MTMR9	8	11180273	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	424195	11180273	135183749	486	21486											
NAT2	10	broad.mit.edu	37	chr8	18257858	18257858	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgcaggtgaccattgaCggcaggaattacattgtcga	10	10	11	10	2	0	2	0	2	0	0	2	4	1	3	2	3	2	2	2	3	2	3	rs45532639	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:18257858C>T	uc003wyw.1	+	2	452	c.345C>T	c.(343-345)GAC>GAT	p.D115D		NM_000015	NP_000006	P11245	ARY2_HUMAN	N-acetyltransferase 2	115					xenobiotic metabolic process	cytosol	arylamine N-acetyltransferase activity			ovary(1)|skin(1)	2				Colorectal(111;0.0531)|COAD - Colon adenocarcinoma(73;0.21)		TGACCATTGACGGCAGGAATT	0.488									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				43	188					0	0	0.01441	0	0		T	18257858	T	T	18257858	2	4	25	1	0	0	0	0	0	0	0	1	10195	535	19	1		1	NAT2	8	18257858	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7077585	18257858	128106164	487	21487											
DOK2	9046	broad.mit.edu	37	chr8	21769786	21769786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacccagtcgccgcgctccGctgcaggggccgccaggagg	5	3	16	17	5	0	0	0	0	0	0	2	1	1	1	5	4	1	4	5	4	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:21769786G>A	uc003wzy.1	-	2	392	c.299C>T	c.(298-300)GCG>GTG	p.A100V	DOK2_uc003wzx.1_Missense_Mutation_p.A100V|DOK2_uc003wzz.1_5'UTR|DOK2_uc010lth.1_Intron	NM_003974	NP_003965	O60496	DOK2_HUMAN	docking protein 2	100	PH.				blood coagulation|leukocyte migration	cytosol	identical protein binding|insulin receptor binding				0				Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		GCCGCGCTCCGCTGCAGGGGC	0.726													3	15					0	0	0.004672	0	0		A	21769786	A	A	21769786	3	1	25	1	0	0	0	0	1	0	0	0	4703	1087	38	1	955	1	DOK2	8	21769786	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3511928	21769786	124594236	488	21488											
FAM160B2	64760	broad.mit.edu	37	chr8	21960389	21960389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccattgccttcgtcaagtttCccccacatgatcctcgccag	7	11	6	17	2	1	1	1	1	0	0	5	1	3	1	6	0	1	1	6	0	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:21960389C>T	uc011kyx.1	+	17	2230	c.2179C>T	c.(2179-2181)CCC>TCC	p.P727S	FAM160B2_uc011kyy.1_RNA	NM_022749	NP_073586	Q86V87	F16B2_HUMAN	retinoic acid induced 16	727											0						CGTCAAGTTTCCCCCACATGA	0.652													4	92					0	0	0.014758	0	0		T	21960389	T	T	21960389	3	4	25	1	0	0	0	0	1	0	0	0	5482	855	30	4	2044	4	FAM160B2	8	21960389	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	190603	21960389	124403633	489	21489											
HR	55806	broad.mit.edu	37	chr8	21983112	21983112	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctccgcacttgctgagaGtggcaggcgtgccctcctcc	5	8	11	17	2	0	1	0	1	0	1	3	2	3	1	5	2	2	3	5	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:21983112G>A	uc003xas.2	-	4	2204	c.1539C>T	c.(1537-1539)CAC>CAT	p.H513H	HR_uc003xat.2_Silent_p.H513H	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	513							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		CTTGCTGAGAGTGGCAGGCGT	0.647													9	28					0	0	0.008291	0	0		A	21983112	A	A	21983112	2	1	25	1	0	0	0	0	0	0	0	1	7363	1020	36	4		4	HR	8	21983112	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	22723	21983112	124380910	490	21490											
LOXL2	4017	broad.mit.edu	37	chr8	23190950	23190950	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccggaatcttgagggtccGtcagggctgaagacctgccc	7	9	13	12	2	2	3	1	2	1	1	4	4	4	4	4	3	1	1	4	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:23190950G>A	uc003xdh.1	-	5	1269	c.930C>T	c.(928-930)GAC>GAT	p.D310D	uc003xdj.2_5'Flank|uc003xdi.2_5'Flank	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	310					aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		TTGAGGGTCCGTCAGGGCTGA	0.627													45	212					0	0	0.01441	0	0		A	23190950	A	A	23190950	2	1	25	1	0	0	0	0	0	0	0	1	8918	1136	40	1		1	LOXL2	8	23190950	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1207838	23190950	123173072	491	21491											
ADAM7	8756	broad.mit.edu	37	chr8	24333950	24333950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatttatatttccagtatcGcagaaatggtcatcctcaca	13	14	5	9	1	2	1	2	0	0	1	5	1	4	1	2	1	0	2	2	1	5	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:24333950G>A	uc003xeb.2	+	8	751	c.638G>A	c.(637-639)CGC>CAC	p.R213H	ADAM7_uc003xec.2_5'UTR	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	213	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		ttCCAGTATCGCAGAAATGGT	0.289													15	122					0	0	0.003163	0	0		A	24333950	A	A	24333950	3	1	25	1	0	0	0	0	1	0	0	0	251	1087	38	1	668	1	ADAM7	8	24333950	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1143000	24333950	122030072	492	21492											
NEFM	4741	broad.mit.edu	37	chr8	24771772	24771772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtacgaccaggagatccgcGagctgcgcgccaccctggag	8	4	14	15	6	0	1	0	0	0	1	1	5	1	2	4	2	3	2	4	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:24771772G>A	uc003xed.3	+	1	499	c.466G>A	c.(466-468)GAG>AAG	p.E156K	NEFM_uc011lac.1_Missense_Mutation_p.E156K|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	156	Rod.|Coil 1B.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		GGAGATCCGCGAGCTGCGCGC	0.647													6	38					0	0	0.001168	0	0		A	24771772	A	A	24771772	3	1	25	1	0	0	0	0	1	0	0	0	10335	1059	37	1	468	1	NEFM	8	24771772	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	437822	24771772	121592250	493	21493											
KCTD9	54793	broad.mit.edu	37	chr8	25290076	25290076	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttacagttcttcaactttgCattttttaaggtagccactc	9	17	6	9	0	2	0	1	0	1	0	3	0	2	0	1	1	4	4	1	1	4	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:25290076C>G	uc003xeo.2	-	11	1155	c.997G>C	c.(997-999)GCA>CCA	p.A333P	PPP2R2A_uc003xek.2_Intron|KCTD9_uc011lad.1_RNA	NM_017634	NP_060104	Q7L273	KCTD9_HUMAN	potassium channel tetramerisation domain	333	Pentapeptide repeat 2.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		TTCAACTTTGCATTTTTTAAG	0.403													5	270					0	0	0.001168	0	0		G	25290076	G	G	25290076	3	3	25	1	0	0	0	0	1	0	0	0	8132	710	25	5	180	5	KCTD9	8	25290076	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	518304	25290076	121073946	494	21494											
CDCA2	157313	broad.mit.edu	37	chr8	25365223	25365223	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctctgactgccttggaaaGgattgaacataatggagaaa	14	10	10	7	0	1	3	0	2	1	1	2	6	1	5	1	3	2	0	1	3	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:25365223G>T	uc003xep.1	+	15	3520	c.3041G>T	c.(3040-3042)AGG>ATG	p.R1014M	PPP2R2A_uc003xek.2_Intron|CDCA2_uc011lae.1_3'UTR|CDCA2_uc003xeq.1_Missense_Mutation_p.R999M|CDCA2_uc003xer.1_Missense_Mutation_p.R677M	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	1014					cell division|mitosis	cytoplasm|nucleus					0		all_cancers(63;0.0378)|Ovarian(32;0.000878)|all_epithelial(46;0.0162)|Breast(100;0.0164)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.022)|Epithelial(17;1.37e-11)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0443)		GCCTTGGAAAGGATTGAACAT	0.433													41	209					3.09479e-21	3.3543e-21	0.006999	1	0		T	25365223	T	T	25365223	3	4	25	1	0	0	0	0	1	0	0	0	3089	1000	35	5	3095	5	CDCA2	8	25365223	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	75147	25365223	120998799	495	21495											
FZD3	7976	broad.mit.edu	37	chr8	28413451	28413451	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatccacagcaaagtgagcAgctaccacggcagcctccac	12	4	9	16	1	0	1	0	1	0	0	2	1	2	1	4	1	5	5	4	1	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:28413451A>G	uc003xgx.2	+	7	2228	c.1750A>G	c.(1750-1752)AGC>GGC	p.S584G	FZD3_uc010lvb.2_Missense_Mutation_p.S584G	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	584	Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		CAAAGTGAGCAGCTACCACGG	0.448													3	25					0	0	0.004672	0	0		G	28413451	G	G	28413451	3	3	25	1	0	0	0	0	1	0	0	0	6145	188	7	3	1768	3	FZD3	8	28413451	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	3048228	28413451	117950571	496	21496											
KIF13B	23303	broad.mit.edu	37	chr8	28989881	28989881	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccaaatcccacagggcgggGtttttccggggatcgtttat	7	11	12	11	3	0	0	0	0	0	0	3	1	2	1	3	5	0	2	3	5	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:28989881G>T	uc003xhh.3	-	23	2945	c.2886C>A	c.(2884-2886)AAC>AAA	p.N962K	uc003xhi.1_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	962					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		ACAGGGCGGGGTTTTTCCGGG	0.398													28	148					2.48779e-11	2.63447e-11	0.005443	1	0		T	28989881	T	T	28989881	3	4	25	1	0	0	0	0	1	0	0	0	8291	1252	44	5	2666	5	KIF13B	8	28989881	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	576430	28989881	117374141	497	21497											
TEX15	56154	broad.mit.edu	37	chr8	30700994	30700994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcctgttttcctggatacGaatgaactttaggagagtcc	9	13	11	8	1	0	2	0	1	0	1	3	5	3	3	3	3	2	1	3	3	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:30700994G>A	uc003xil.2	-	1	5540	c.5540C>T	c.(5539-5541)TCG>TTG	p.S1847L		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1847										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TCCTGGATACGAATGAACTTT	0.348													43	263					0	0	0.009718	0	0		A	30700994	A	A	30700994	3	1	25	1	0	0	0	0	1	0	0	0	15804	1059	37	1	2845	1	TEX15	8	30700994	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1711113	30700994	115663028	498	21498											
KCNU1	157855	broad.mit.edu	37	chr8	36766851	36766851	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgaactggcaagtcaaagtAtaagtttcggaaccatattg	15	10	9	7	2	1	0	1	0	0	0	2	2	1	1	1	2	2	3	1	2	7	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:36766851A>T	uc010lvw.2	+	21	2216	c.2129A>T	c.(2128-2130)TAT>TTT	p.Y710F	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	710	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		AAGTCAAAGTATAAGTTTCGG	0.468													86	489					0	0	0.01441	0	0		T	36766851	T	T	36766851	3	4	25	1	0	0	0	0	1	0	0	0	8109	449	16	5	2211	5	KCNU1	8	36766851	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	6065857	36766851	109597171	499	21499											
GOT1L1	137362	broad.mit.edu	37	chr8	37792610	37792610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttgagtccaagatagccGtgggtcccactctgctcggt	7	10	12	12	2	1	2	0	1	1	1	4	2	3	2	3	2	2	2	3	2	2	2	rs146808588	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:37792610G>A	uc011lbj.1	-	8	1153	c.1053C>T	c.(1051-1053)CAC>CAT	p.H351H		NM_152413	NP_689626	Q8NHS2	AATC2_HUMAN	glutamic-oxaloacetic transaminase 1-like 1	351					biosynthetic process|cellular amino acid metabolic process	cytoplasm	pyridoxal phosphate binding|transaminase activity			ovary(1)	1	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;1.37e-11)			CAAGATAGCCGTGGGTCCCAC	0.527													9	84					0	0	0.006214	0	0		A	37792610	A	A	37792610	2	1	25	1	0	0	0	0	0	0	0	1	6595	1136	40	1		1	GOT1L1	8	37792610	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1025759	37792610	108571412	500	21500											
ADAM2	2515	broad.mit.edu	37	chr8	39624771	39624771	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaataagggcacaatcCtgtaaggcaaatcaaatgct	15	9	7	10	0	2	0	1	0	1	0	4	0	3	0	2	2	1	4	2	2	6	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:39624771C>A	uc003xnj.2	-	13	1288	c.1213_splice	c.e13-1	p.D405_splice	ADAM2_uc003xnk.2_Splice_Site_p.D386_splice|ADAM2_uc011lck.1_Splice_Site_p.D405_splice|ADAM2_uc003xnl.2_Splice_Site_p.D279_splice	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein						cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		GGGCACAATCCTGTAAGGCAA	0.383													56	286					2.84144e-21	3.08212e-21	0.01441	1	0		A	39624771	A	A	39624771	5	1	25	1	0	0	0	0	0	0	1	0	241	695	24	5	1027	5	ADAM2	8	39624771	Splice_Site	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1832161	39624771	106739251	501	21501											
IKBKB	3551	broad.mit.edu	37	chr8	42129709	42129709	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggatttggaaatgtcatcCgatggcacaatcaggtaggc	11	9	14	7	1	2	0	2	0	0	0	3	3	3	2	1	6	0	2	1	6	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:42129709C>T	uc003xow.1	+	2	268	c.91C>T	c.(91-93)CGA>TGA	p.R31*	IKBKB_uc003xov.2_Nonsense_Mutation_p.R31*|IKBKB_uc010lxh.1_Missense_Mutation_p.P20L|IKBKB_uc011lco.1_RNA|IKBKB_uc010lxj.1_Silent_p.S3S|IKBKB_uc003xox.1_5'UTR|IKBKB_uc011lcp.1_RNA|IKBKB_uc011lcq.1_Intron|IKBKB_uc010lxi.1_RNA|IKBKB_uc011lcr.1_Silent_p.S3S	NM_001556	NP_001547	O14920	IKKB_HUMAN	inhibitor of nuclear factor kappa B kinase beta	31	Protein kinase.				anti-apoptosis|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|membrane raft	ATP binding|identical protein binding|IkappaB kinase activity			breast(3)|ovary(2)|lung(1)|skin(1)	7	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;6.21e-12)|Lung NSC(13;1.04e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;1.37e-10)|Colorectal(10;0.00102)|OV - Ovarian serous cystadenocarcinoma(14;0.00168)|Lung(22;0.00467)|LUSC - Lung squamous cell carcinoma(45;0.024)|COAD - Colon adenocarcinoma(11;0.0264)		Arsenic trioxide(DB01169)|Auranofin(DB00995)	AAATGTCATCCGATGGCACAA	0.597													32	213					0	0	0.009535	0	0		T	42129709	T	T	42129709	4	4	25	1	0	0	0	0	0	1	0	0	7627	644	23	1	93	1	IKBKB	8	42129709	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2504938	42129709	104234313	502	21502											
EFCAB1	79645	broad.mit.edu	37	chr8	49647703	49647703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagcttctgcagtttcttgCggttcatgtctggcgctcag	4	15	11	11	2	6	0	3	0	3	0	6	0	6	0	0	2	3	5	0	2	0	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:49647703C>T	uc003xqo.2	-	1	168	c.8G>A	c.(7-9)CGC>CAC	p.R3H	EFCAB1_uc003xqn.3_RNA|EFCAB1_uc011ldj.1_Missense_Mutation_p.R3H|EFCAB1_uc010lxx.2_RNA|EFCAB1_uc011ldk.1_RNA	NM_024593	NP_078869	Q9HAE3	EFCB1_HUMAN	EF-hand calcium binding domain 1 isoform a	3							calcium ion binding				0		all_epithelial(80;0.0134)|Lung NSC(129;0.0207)|all_lung(136;0.0464)				CAGTTTCTTGCGGTTCATGTC	0.622													32	225					0	0	0.019004	0	0		T	49647703	T	T	49647703	3	4	25	1	0	0	0	0	1	0	0	0	4939	768	27	1	651	1	EFCAB1	8	49647703	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7517994	49647703	96716319	503	21503											
PXDNL	137902	broad.mit.edu	37	chr8	52321597	52321597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacgcggggctggagcgcgCgaagagcatgcagggcgcgt	8	3	19	11	7	0	1	0	0	0	1	0	3	0	2	0	4	3	3	0	4	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:52321597C>T	uc003xqu.3	-	17	2688	c.2587G>A	c.(2587-2589)GCG>ACG	p.A863T	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	863					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CTGGAGCGCGCGAAGAGCATG	0.667													11	63					0	0	0.013537	0	0		T	52321597	T	T	52321597	3	4	25	1	0	0	0	0	1	0	0	0	12873	768	27	1	1832	1	PXDNL	8	52321597	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2673894	52321597	94042425	504	21504											
SOX17	64321	broad.mit.edu	37	chr8	55372549	55372549	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattactgcaactatcctgaCgtgtgacaggtccctgatcc	9	12	8	12	1	0	3	0	3	0	0	3	3	3	3	3	1	3	1	3	1	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:55372549C>T	uc003xsb.3	+	2	1443	c.1239C>T	c.(1237-1239)GAC>GAT	p.D413D		NM_022454	NP_071899	Q9H6I2	SOX17_HUMAN	SRY-box 17	413	Sox C-terminal.				angiogenesis|cardiac cell fate determination|endocardial cell differentiation|endocardium formation|endoderm formation|heart formation|heart looping|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|outflow tract morphogenesis|positive regulation of transcription, DNA-dependent|protein destabilization|protein stabilization|regulation of embryonic development|renal system development|vasculogenesis|Wnt receptor signaling pathway	transcription factor complex	beta-catenin binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			lung(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.176)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;1.9e-07)|Epithelial(17;1.7e-05)|all cancers(17;0.000159)			ACTATCCTGACGTGTGACAGG	0.577													10	83					0	0	0.008291	0	0		T	55372549	T	T	55372549	2	4	25	1	0	0	0	0	0	0	0	1	14972	535	19	1		1	SOX17	8	55372549	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3050952	55372549	90991473	505	21505											
RP1	6101	broad.mit.edu	37	chr8	55542107	55542107	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgatgctattaaaaacCaaccattgcctggcagtaat	14	11	7	9	0	0	2	0	2	0	0	0	2	0	2	3	1	4	3	3	1	6	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:55542107C>T	uc003xsd.1	+	4	5813	c.5665C>T	c.(5665-5667)CAA>TAA	p.Q1889*	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1889					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TATTAAAAACCAACCATTGCC	0.408													26	130					0	0	0.021523	0	0		T	55542107	T	T	55542107	4	4	25	1	0	0	0	0	0	1	0	0	13557	595	21	4	5675	4	RP1	8	55542107	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	169558	55542107	90821915	506	21506											
BHLHE22	27319	broad.mit.edu	37	chr8	65494237	65494237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactacatcctcatgcaggCgcaggccctggaggagatgc	10	6	13	12	1	1	1	1	0	0	1	2	4	2	2	2	4	4	2	2	4	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:65494237C>T	uc003xvi.2	+	1	1424	c.890C>T	c.(889-891)GCG>GTG	p.A297V	LOC401463_uc003xvh.2_Intron	NM_152414	NP_689627	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix domain containing, class	297	Helix-loop-helix motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						CTCATGCAGGCGCAGGCCCTG	0.682													6	31					0	0	0.001168	0	0		T	65494237	T	T	65494237	3	4	25	1	0	0	0	0	1	0	0	0	1422	768	27	1	892	1	BHLHE22	8	65494237	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	9952130	65494237	80869785	507	21507											
SGK3	23678	broad.mit.edu	37	chr8	67763157	67763157	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accatttaatcctaatgtggTaagtatatatccaaatcttt	14	16	4	7	0	1	0	0	0	1	0	3	0	3	0	3	1	0	2	3	1	7	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:67763157T>C	uc003xwr.2	+	16	1619	c.1320_splice	c.e16+2	p.V440_splice	SGK3_uc003xwp.2_Splice_Site_p.V434_splice|SGK3_uc003xwt.2_Splice_Site_p.V440_splice|SGK3_uc003xwu.2_Splice_Site_p.V408_splice	NM_001033578	NP_001028750	Q96BR1	SGK3_HUMAN	serum/glucocorticoid regulated kinase 3 isoform						cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)			CCTAATGTGGTAAGTATATAT	0.338													6	16					0	0	0.001168	0	0		C	67763157	C	C	67763157	5	2	25	1	0	0	0	0	0	0	1	0	14237	1652	57	3	1380	3	SGK3	8	67763157	Splice_Site	SNP	T	TCGA-BR-4370-01A-01D-1158-08	2268920	67763157	78600865	508	21508											
LRRC67	286187	broad.mit.edu	37	chr8	67929861	67929861	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagttcttacaattgcaTctatatttttgtctgaaaaa	14	17	4	6	0	4	1	1	1	3	0	4	1	4	1	0	0	2	2	0	0	7	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:67929861T>C	uc003xxc.2	-	2	267	c.122A>G	c.(121-123)GAT>GGT	p.D41G		NM_001013626	NP_001013648	Q7Z4L9	LRC67_HUMAN	leucine rich repeat containing 67	41	LRR 1.										0						TACAATTGCATCTATATTTTT	0.259													5	42					0	0	0.014758	0	0		C	67929861	C	C	67929861	3	2	25	1	0	0	0	0	1	0	0	0	9037	1435	50	3	584	3	LRRC67	8	67929861	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	166704	67929861	78434161	509	21509											
ARFGEF1	10565	broad.mit.edu	37	chr8	68138302	68138302	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcacaatggcgaataagtcGaattgcttccatacttgtgt	11	13	9	8	2	0	0	0	0	0	0	2	2	1	0	1	1	3	2	1	1	5	5	rs146133956		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:68138302G>A	uc003xxo.1	-	28	4423	c.4033C>T	c.(4033-4035)CGA>TGA	p.R1345*	ARFGEF1_uc003xxl.1_Nonsense_Mutation_p.R799*|ARFGEF1_uc003xxn.1_Nonsense_Mutation_p.R328*	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	1345					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			CGAATAAGTCGAATTGCTTCC	0.393													14	87					0	0	0.020292	0	0		A	68138302	A	A	68138302	4	1	25	1	0	0	0	0	0	1	0	0	852	1066	37	1	1564	1	ARFGEF1	8	68138302	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	208441	68138302	78225720	510	21510											
SULF1	23213	broad.mit.edu	37	chr8	70570765	70570765	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttatgggatggatgggaaGgttaatcagccccgtctcac	10	10	13	8	1	2	0	2	0	1	0	3	3	2	3	2	4	1	2	2	4	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:70570765G>T	uc010lza.1	+	23	3328	c.2611G>T	c.(2611-2613)GGT>TGT	p.G871C	SULF1_uc003xyd.2_Missense_Mutation_p.G871C|SULF1_uc003xye.2_Missense_Mutation_p.G871C|SULF1_uc003xyf.2_Missense_Mutation_p.G871C|SULF1_uc003xyg.2_Missense_Mutation_p.G871C|SULF1_uc003xyh.1_RNA|SULF1_uc003xyi.1_Missense_Mutation_p.K17N|SULF1_uc003xyj.1_Missense_Mutation_p.K17N	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	871					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			TGGATGGGAAGGTTAATCAGC	0.438													17	81					8.34094e-07	8.64083e-07	0.008871	1	0		T	70570765	T	T	70570765	3	4	25	1	0	0	0	0	1	0	0	0	15395	1000	35	5	2685	5	SULF1	8	70570765	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2432463	70570765	75793257	511	21511											
JPH1	56704	broad.mit.edu	37	chr8	75227703	75227703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcggcggcggctgcggcgtCgtggagcacgctgccattgc	3	7	18	13	7	0	0	0	0	0	0	2	1	0	1	1	5	4	3	1	5	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:75227703C>T	uc003yae.2	-	2	572	c.532G>A	c.(532-534)GAC>AAC	p.D178N	JPH1_uc003yaf.2_Missense_Mutation_p.D178N|JPH1_uc003yag.1_Missense_Mutation_p.D42N	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	178	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			GCTGCGGCGTCGTGGAGCACG	0.706													12	36					0	0	0.004007	0	0		T	75227703	T	T	75227703	3	4	25	1	0	0	0	0	1	0	0	0	7976	884	31	1	1469	1	JPH1	8	75227703	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4656938	75227703	71136319	512	21512											
IMPA1	3612	broad.mit.edu	37	chr8	82586109	82586109	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttgtagtttttgaccatTacaaaaggcaccttttcctt	11	16	5	9	0	0	1	0	1	0	0	1	1	1	1	3	1	2	3	3	1	5	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:82586109T>C	uc003ych.2	-	6	551	c.424A>G	c.(424-426)AAT>GAT	p.N142D	IMPA1_uc011lfq.1_Missense_Mutation_p.N201D|IMPA1_uc011lfr.1_Missense_Mutation_p.N142D	NM_005536	NP_005527	P29218	IMPA1_HUMAN	inositol(myo)-1(or 4)-monophosphatase 1 isoform	142					inositol phosphate dephosphorylation|phosphatidylinositol biosynthetic process|signal transduction	cytoplasm	inositol-1(or 4)-monophosphatase activity|metal ion binding|protein homodimerization activity			skin(1)	1					Lithium(DB01356)	TTTTGACCATTACAAAAGGCA	0.333													27	177					0	0	0.007291	0	0		C	82586109	C	C	82586109	3	2	25	1	0	0	0	0	1	0	0	0	7738	1754	61	3	425	3	IMPA1	8	82586109	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	7358406	82586109	63777913	513	21513											
POP1	10940	broad.mit.edu	37	chr8	99149090	99149090	+	Missense_Mutation	SNP	G	A	A																															gatgttctttctttttcagcGatttgacgatggagatgaac																										TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:99149090G>A	uc003yij.3	+	9	1370	c.1270G>A	c.(1270-1272)GAT>AAT	p.D424N	POP1_uc011lgv.1_Missense_Mutation_p.D424N|POP1_uc003yik.2_Missense_Mutation_p.D424N	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	424					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			CTTTTTCAGCGATTTGACGAT	0.423													37	299					0	0	0.019004	0	0		A	99149090	A	A	99149090	3	1	25	1	0	0	0	0	1	0	0	0	12270	1072	37	1	1300	1	POP1	8	99149090	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	16562981	99149090	47214932	514	21514	35	2									
POP1	10940	broad.mit.edu	37	chr8	99149097	99149097	+	Missense_Mutation	SNP	C	T	T																															tttctttttcagcgatttgaCgatggagatgaacagattcc																										TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:99149097C>T	uc003yij.3	+	9	1377	c.1277C>T	c.(1276-1278)ACG>ATG	p.T426M	POP1_uc011lgv.1_Missense_Mutation_p.T426M|POP1_uc003yik.2_Missense_Mutation_p.T426M	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	426					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			AGCGATTTGACGATGGAGATG	0.413													57	299					0	0	0.01441	0	0		T	99149097	T	T	99149097	3	4	25	1	0	0	0	0	1	0	0	0	12270	536	19	1	1307	1	POP1	8	99149097	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7	99149097	47214925	515	21515	35	2									
KCNS2	3788	broad.mit.edu	37	chr8	99441361	99441361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtggtcccagggaccaCggcaggaaagctgactgcct	9	6	15	11	1	0	1	0	1	0	0	1	4	1	4	3	5	2	2	3	5	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:99441361C>T	uc003yin.2	+	2	1504	c.1154C>T	c.(1153-1155)ACG>ATG	p.T385M		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	385	Extracellular (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			CCAGGGACCACGGCAGGAAAG	0.597													38	213					0	0	0.01441	0	0		T	99441361	T	T	99441361	3	4	25	1	0	0	0	0	1	0	0	0	8105	536	19	1	1156	1	KCNS2	8	99441361	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	292264	99441361	46922661	516	21516											
UBR5	51366	broad.mit.edu	37	chr8	103297394	103297394	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaagctagcttcttctcgcGcagtcatcctctctcttctc	5	15	6	15	2	6	0	1	0	5	0	10	0	7	0	1	0	2	4	1	0	2	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:103297394G>A	uc003ykr.1	-	40	5690	c.5657C>T	c.(5656-5658)GCG>GTG	p.A1886V	UBR5_uc003yks.1_Missense_Mutation_p.A1886V	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1886					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TTCTTCTCGCGCAGTCATCCT	0.403													32	183					0	0	0.012213	0	0		A	103297394	A	A	103297394	3	1	25	1	0	0	0	0	1	0	0	0	16931	1087	38	1	2822	1	UBR5	8	103297394	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3856033	103297394	43066628	517	21517											
DCAF13	25879	broad.mit.edu	37	chr8	104432678	104432678	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctactgtcctttctggggCgtgtgatggagaggcaagtg	6	11	17	7	1	1	2	0	1	1	1	2	3	2	2	1	5	1	2	1	5	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:104432678C>T	uc003yln.2	+	2	990	c.713C>T	c.(712-714)GCG>GTG	p.A238V	DCAF13_uc003ylm.1_Intron|DCAF13_uc003ylo.2_5'UTR	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	86	WD 1.			A -> S (in Ref. 3; AAH26067).	rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						CTTTCTGGGGCGTGTGATGGA	0.403													4	32					0	0	0.009096	0	0		T	104432678	T	T	104432678	3	4	25	1	0	0	0	0	1	0	0	0	4269	768	27	1	719	1	DCAF13	8	104432678	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1135284	104432678	41931344	518	21518											
OXR1	55074	broad.mit.edu	37	chr8	107758067	107758067	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatcaaaggagacatggaTtcactagctttcggtggtgg	10	13	12	6	1	2	1	2	0	0	1	3	3	2	2	0	5	1	1	0	5	3	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:107758067T>C	uc011lht.1	+	15	2565	c.2466T>C	c.(2464-2466)GAT>GAC	p.D822D	OXR1_uc003ymf.2_Silent_p.D794D|OXR1_uc011lhu.1_Silent_p.D787D|OXR1_uc010mcg.2_RNA|OXR1_uc010mch.2_Silent_p.D450D|OXR1_uc003ymk.2_Silent_p.D191D|OXR1_uc003yml.2_Silent_p.D164D	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	822	TLD.				cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			GAGACATGGATTCACTAGCTT	0.279													32	116					0	0	0.013726	0	0		C	107758067	C	C	107758067	2	2	25	1	0	0	0	0	0	0	0	1	11353	1490	52	3		3	OXR1	8	107758067	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	3325389	107758067	38605955	519	21519											
WDR67	93594	broad.mit.edu	37	chr8	124140619	124140619	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgacattcatccagacagCatgcttaatgtttttgttgc	10	15	7	9	0	1	2	1	1	0	1	2	2	2	2	1	0	3	4	1	0	1	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:124140619C>T	uc003ypp.1	+	14	2073	c.1983C>T	c.(1981-1983)AGC>AGT	p.S661S	WDR67_uc011lig.1_Silent_p.S661S|WDR67_uc011lih.1_Silent_p.S551S|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Intron|WDR67_uc003ypt.1_Silent_p.S118S|WDR67_uc003ypu.1_Silent_p.S118S	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	661						centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			ATCCAGACAGCATGCTTAATG	0.363													45	220					0	0	0.01441	0	0		T	124140619	T	T	124140619	2	4	25	1	0	0	0	0	0	0	0	1	17344	709	25	2		2	WDR67	8	124140619	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	16382552	124140619	22223403	520	21520											
RNF139	11236	broad.mit.edu	37	chr8	125498442	125498442	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttactgtttacttcttccttGattctcacattaaatacagt	10	19	3	9	0	2	1	1	1	2	0	4	1	3	1	1	0	3	1	1	0	5	9			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:125498442G>A	uc003yrc.2	+	2	895	c.552G>A	c.(550-552)TTG>TTA	p.L184L		NM_007218	NP_009149	Q8WU17	RN139_HUMAN	ring finger protein 139	184	Helical; (Potential).				negative regulation of cell proliferation|regulation of protein ubiquitination	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			CTTCTTCCTTGATTCTCACAT	0.353									Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				50	226					0	0	0.01441	0	0		A	125498442	A	A	125498442	2	1	25	1	0	0	0	0	0	0	0	1	13467	1281	45	4		4	RNF139	8	125498442	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1357823	125498442	20865580	521	21521											
KIAA0196	9897	broad.mit.edu	37	chr8	126051080	126051080	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaattactcaccttattcaGtgggttgtgaatgccagctg	9	15	9	8	0	2	1	2	1	0	0	2	1	2	1	2	1	3	2	2	1	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:126051080G>A	uc003yrt.2	-	25	3405	c.3076C>T	c.(3076-3078)CTG>TTG	p.L1026L	KIAA0196_uc011lir.1_Silent_p.L878L|KIAA0196_uc003yru.1_Silent_p.L600L	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	1026					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			ACCTTATTCAGTGGGTTGTGA	0.438													24	287					0	0	0.005443	0	0		A	126051080	A	A	126051080	2	1	25	1	0	0	0	0	0	0	0	1	8177	1020	36	4		4	KIAA0196	8	126051080	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	552638	126051080	20312942	522	21522											
MYC	4609	broad.mit.edu	37	chr8	128753090	128753090	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttaaaaaagccacagcataCatcctgtccgtccaagcaga	15	7	6	13	1	0	1	0	0	0	1	3	1	3	1	4	0	4	2	4	0	5	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:128753090C>T	uc003ysi.2	+	3	1776	c.1251C>T	c.(1249-1251)TAC>TAT	p.Y417Y		NM_002467	NP_002458	P01106	MYC_HUMAN	myc proto-oncogene protein	402	Helix-loop-helix motif.				branching involved in ureteric bud morphogenesis|cell cycle arrest|cell proliferation|cellular iron ion homeostasis|positive regulation of metanephric cap mesenchymal cell proliferation|positive regulation of transcription, DNA-dependent|regulation of telomere maintenance|regulation of transcription from RNA polymerase II promoter|response to drug	nucleolus|nucleoplasm	E-box binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(3)|ovary(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(1;6.19e-134)|all_epithelial(1;1.75e-119)|all_lung(1;5.66e-51)|Breast(1;1.08e-22)|all_neural(1;4.45e-21)|Medulloblastoma(1;1.88e-20)|Colorectal(1;1.92e-09)|Lung SC(1;4.52e-07)|Ovarian(5;0.000122)|Esophageal squamous(12;0.000995)|Renal(1;0.0921)|Hepatocellular(40;0.108)|Myeloproliferative disorder(2;0.135)|Melanoma(291;0.185)	Myeloproliferative disorder(644;0.0255)|Ovarian(118;0.0654)|Breast(495;0.212)|Acute lymphoblastic leukemia(644;0.22)	Epithelial(1;1.63e-94)|all cancers(1;5.82e-87)|OV - Ovarian serous cystadenocarcinoma(1;2.12e-71)|BRCA - Breast invasive adenocarcinoma(1;4.3e-14)|Lung(2;0.000381)|Colorectal(2;0.0102)|LUAD - Lung adenocarcinoma(14;0.0172)|READ - Rectum adenocarcinoma(2;0.0723)|LUSC - Lung squamous cell carcinoma(258;0.151)	KIRC - Kidney renal clear cell carcinoma(542;0.248)		CCACAGCATACATCCTGTCCG	0.468		3	A|T	IGK@|BCL5|BCL7A |BTG1|TRA@|IGH@	Burkitt lymphoma| amplified in other cancers|B-CLL								55	282					0	0	0.01441	0	0		T	128753090	T	T	128753090	2	4	25	1	0	0	0	0	0	0	0	1	10034	489	17	4		4	MYC	8	128753090	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2702010	128753090	17610932	523	21523											
ADCY8	114	broad.mit.edu	37	chr8	131792892	131792892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttcccagaagaaagtacGttttgatttttccttcctgt	8	17	6	10	1	1	3	0	1	1	2	4	3	4	3	3	0	1	2	3	0	3	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:131792892G>A	uc003ytd.3	-	18	3756	c.3500C>T	c.(3499-3501)ACG>ATG	p.T1167M	ADCY8_uc010mds.2_Missense_Mutation_p.T1036M	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1167	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			AAGAAAGTACGTTTTGATTTT	0.517										HNSCC(32;0.087)			31	198					0	0	0.009535	0	0		A	131792892	A	A	131792892	3	1	25	1	0	0	0	0	1	0	0	0	300	1145	40	1	259	1	ADCY8	8	131792892	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3039802	131792892	14571130	524	21524											
KCNK9	51305	broad.mit.edu	37	chr8	140630719	140630719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgccatagtcctgcgagcGgtagcaggtgcaggagcaca	9	5	15	12	3	0	0	0	0	0	0	1	2	1	1	3	3	5	4	3	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:140630719G>A	uc003yvf.1	-	2	971	c.907C>T	c.(907-909)CGC>TGC	p.R303C	KCNK9_uc003yvg.1_Missense_Mutation_p.R303C|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	303	Cytoplasmic (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			TCCTGCGAGCGGTAGCAGGTG	0.637													22	106					0	0	0.008361	0	0		A	140630719	A	A	140630719	3	1	25	1	0	0	0	0	1	0	0	0	8088	1116	39	1	221	1	KCNK9	8	140630719	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	8837827	140630719	5733303	525	21525											
EIF2C2	27161	broad.mit.edu	37	chr8	141542570	141542570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggaaggccaccaggtgagCgtagtatgctggcgctggga	8	6	17	10	3	0	1	0	1	0	0	0	3	0	3	3	5	2	4	3	5	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:141542570C>T	uc003yvn.2	-	18	2456	c.2416G>A	c.(2416-2418)GCT>ACT	p.A806T	EIF2C2_uc010men.2_Missense_Mutation_p.A729T|EIF2C2_uc010meo.2_Missense_Mutation_p.A772T	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	806	Piwi.				mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			ACCAGGTGAGCGTAGTATGCT	0.587													7	59					0	0	0.00308	0	0		T	141542570	T	T	141542570	3	4	25	1	0	0	0	0	1	0	0	0	5012	768	27	1	171	1	EIF2C2	8	141542570	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	911851	141542570	4821452	526	21526											
TSNARE1	203062	broad.mit.edu	37	chr8	143427220	143427220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacgggcaggggaaatggCggattccatactcggtccaa	10	6	15	10	4	0	0	0	0	0	0	3	3	2	2	2	6	1	1	2	6	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:143427220C>T	uc003ywk.2	-	3	240	c.122G>A	c.(121-123)CGC>CAC	p.R41H	TSNARE1_uc011lju.1_Missense_Mutation_p.R41H|TSNARE1_uc003ywj.2_Missense_Mutation_p.R41H|TSNARE1_uc003ywl.3_Intron	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	41					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GGGGAAATGGCGGATTCCATA	0.622													15	116					0	0	0.004007	0	0		T	143427220	T	T	143427220	3	4	25	1	0	0	0	0	1	0	0	0	16656	768	27	1	1463	1	TSNARE1	8	143427220	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1884650	143427220	2936802	527	21527											
CYP11B1	1584	broad.mit.edu	37	chr8	143961145	143961145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtcctggggacccgggCggctctcgtgcccagtgcct	3	8	14	16	3	1	0	0	0	1	0	3	1	2	1	4	4	2	1	4	4	0	0	rs144224988	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:143961145C>T	uc003yxi.2	-	1	92	c.85G>A	c.(85-87)GCC>ACC	p.A29T	CYP11B1_uc003yxj.2_Missense_Mutation_p.A29T|CYP11B1_uc010mey.2_Missense_Mutation_p.A29T	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	29					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	GGGACCCGGGCGGCTCTCGTG	0.642									Familial_Hyperaldosteronism_type_I				26	182					0	0	0.005443	0	0		T	143961145	T	T	143961145	3	4	25	1	0	0	0	0	1	0	0	0	4148	768	27	1	1462	1	CYP11B1	8	143961145	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	533925	143961145	2402877	528	21528											
ZC3H3	23144	broad.mit.edu	37	chr8	144621326	144621326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgagggagtatttcttgcGccacgaaggcccatggtggg	8	8	15	10	3	1	0	0	0	1	0	1	3	1	1	2	4	1	1	2	4	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:144621326G>A	uc003yyd.2	-	2	240	c.211C>T	c.(211-213)CGC>TGC	p.R71C		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	71					mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			TATTTCTTGCGCCACGAAGGC	0.677													11	260					0	0	0.010729	0	0		A	144621326	A	A	144621326	3	1	25	1	0	0	0	0	1	0	0	0	17594	1087	38	1	2679	1	ZC3H3	8	144621326	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	660181	144621326	1742696	529	21529											
C8orf73	642475	broad.mit.edu	37	chr8	144652140	144652140	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctgtgaagaaggccataGccgtgagacgctgcgggtcg	8	6	15	12	4	0	3	0	2	0	2	1	4	0	3	4	2	2	1	4	2	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:144652140G>T	uc010mff.2	-	7	1183	c.1139C>A	c.(1138-1140)GCT>GAT	p.A380D	C8orf73_uc010mfg.1_Silent_p.G392G	NM_001100878	NP_001094348	A6NGR9	CH073_HUMAN	hypothetical protein LOC642475	380	Leu-rich.						binding			ovary(1)	1	all_cancers(97;6.49e-11)|all_epithelial(106;4.73e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.014)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GAAGGCCATAGCCGTGAGACG	0.662													8	77					5.18039e-06	5.33866e-06	0.00308	1	0		T	144652140	T	T	144652140	3	4	25	1	0	0	0	0	1	0	0	0	2438	971	34	5	1052	5	C8orf73	8	144652140	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	30814	144652140	1711882	530	21530											
EPPK1	83481	broad.mit.edu	37	chr8	144946637	144946637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggccagcctgccctccCgcagaccctgcacagcctgc	5	5	10	21	2	0	1	0	0	0	1	1	1	1	1	6	1	6	2	6	1	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:144946637C>T	uc003zaa.1	-	1	798	c.785G>A	c.(784-786)CGG>CAG	p.R262Q		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	262						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCTGCCCTCCCGCAGACCCTG	0.697													8	19					0	0	0.006214	0	0		T	144946637	T	T	144946637	3	4	25	1	0	0	0	0	1	0	0	0	5198	652	23	1	6481	1	EPPK1	8	144946637	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	294497	144946637	1417385	531	21531											
PLEC	5339	broad.mit.edu	37	chr8	144996013	144996013	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcaggatgccggcctccTgcagcctctgagctgacacc	7	7	10	17	1	2	2	1	2	1	0	3	3	3	3	5	2	4	2	5	2	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:144996013T>C	uc003zaf.1	-	32	8557	c.8387A>G	c.(8386-8388)CAG>CGG	p.Q2796R	PLEC_uc003zab.1_Missense_Mutation_p.Q2659R|PLEC_uc003zac.1_Missense_Mutation_p.Q2663R|PLEC_uc003zad.2_Missense_Mutation_p.Q2659R|PLEC_uc003zae.1_Missense_Mutation_p.Q2627R|PLEC_uc003zag.1_Missense_Mutation_p.Q2637R|PLEC_uc003zah.2_Missense_Mutation_p.Q2645R|PLEC_uc003zaj.2_Missense_Mutation_p.Q2686R	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2796	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GCCGGCCTCCTGCAGCCTCTG	0.692													7	25					0	0	0.013537	0	0		C	144996013	C	C	144996013	3	2	25	1	0	0	0	0	1	0	0	0	12071	1580	55	3	5671	3	PLEC	8	144996013	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	49376	144996013	1368009	532	21532											
OPLAH	26873	broad.mit.edu	37	chr8	145113480	145113480	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtaggcgtcggcacaggcCgtgtgcccccgagggacgat	7	5	17	12	5	0	0	0	0	0	0	1	3	0	1	3	5	1	2	3	5	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:145113480C>T	uc003zar.3	-	6	784	c.702G>A	c.(700-702)ACG>ACA	p.T234T	OPLAH_uc003zat.1_Silent_p.T12T	NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	234							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	CGGCACAGGCCGTGTGCCCCC	0.687													20	70					0	0	0.008871	0	0		T	145113480	T	T	145113480	2	4	25	1	0	0	0	0	0	0	0	1	10895	639	23	1		1	OPLAH	8	145113480	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	117467	145113480	1250542	533	21533											
ADCK5	203054	broad.mit.edu	37	chr8	145617856	145617856	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaacatcaacaccgtgcgCgctatcaacgtggccctcgg	9	6	10	16	6	2	0	2	0	0	0	3	0	2	0	2	2	4	2	2	2	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:145617856C>T	uc003zch.2	+	13	1518	c.1464C>T	c.(1462-1464)CGC>CGT	p.R488R	ADCK5_uc003zcg.2_RNA|ADCK5_uc003zci.2_Silent_p.R77R	NM_174922	NP_777582	Q3MIX3	ADCK5_HUMAN	aarF domain containing kinase 5	488						integral to membrane	protein serine/threonine kinase activity			stomach(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;8.96e-41)|Epithelial(56;4.08e-40)|all cancers(56;4.51e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			ACACCGTGCGCGCTATCAACG	0.692													6	15					0	0	0.001168	0	0		T	145617856	T	T	145617856	2	4	25	1	0	0	0	0	0	0	0	1	291	755	27	1		1	ADCK5	8	145617856	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	504376	145617856	746166	534	21534											
ARHGAP39	80728	broad.mit.edu	37	chr8	145771183	145771183	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgaactgggcacaggcagcGaggtcctcagactgagaagg	11	5	15	10	2	1	2	1	1	0	2	3	5	2	2	1	4	2	2	1	4	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr8:145771183G>A	uc003zdt.1	-	7	2526	c.1971C>T	c.(1969-1971)CTC>CTT	p.L657L	ARHGAP39_uc011llk.1_Silent_p.L657L|ARHGAP39_uc003zds.1_Silent_p.L657L	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	657					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						CACAGGCAGCGAGGTCCTCAG	0.677													5	30					0	0	0.014758	0	0		A	145771183	A	A	145771183	2	1	25	1	0	0	0	0	0	0	0	1	884	1045	37	1		1	ARHGAP39	8	145771183	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	153327	145771183	592839	535	21535											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													5	109					0	0	0.006214	0	0		G	164038	G	G	164038	5	3	25	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-4370-01A-01D-1158-08		164038	141049393	536	21536											
KANK1	23189	broad.mit.edu	37	chr9	742244	742244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggcggtcagtcacggaCggatagacatggtgaagggc	9	7	17	8	3	2	2	2	1	0	1	2	4	2	4	0	6	1	1	0	6	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:742244C>T	uc003zgl.1	+	14	4385	c.3736C>T	c.(3736-3738)CGG>TGG	p.R1246W	KANK1_uc003zgn.1_Missense_Mutation_p.R1246W|KANK1_uc003zgs.1_Missense_Mutation_p.R1088W|KANK1_uc010mgx.1_Missense_Mutation_p.R224W|KANK1_uc010mgy.1_Missense_Mutation_p.R158W|KANK1_uc003zgt.1_Missense_Mutation_p.R158W	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	1246	ANK 3.				negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		CAGTCACGGACGGATAGACAT	0.597													23	171					0	0	0.004656	0	0		T	742244	T	T	742244	3	4	25	1	0	0	0	0	1	0	0	0	7992	527	19	1	3770	1	KANK1	9	742244	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	578206	742244	140471187	537	21537											
VLDLR	7436	broad.mit.edu	37	chr9	2650419	2650419	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggaggatgtgaatacctAtgcctgccagcaccacagat	13	8	10	10	0	0	2	0	1	0	1	0	4	0	4	4	2	4	1	4	2	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:2650419A>G	uc003zhk.1	+	15	2551	c.2154A>G	c.(2152-2154)CTA>CTG	p.L718L	VLDLR_uc003zhl.1_Silent_p.L718L|VLDLR_uc003zhm.1_RNA|VLDLR_uc003zhn.1_Silent_p.L677L	NM_003383	NP_003374	P98155	VLDLR_HUMAN	very low density lipoprotein receptor isoform a	718	Extracellular (Potential).|EGF-like 3.				cholesterol metabolic process|endocytosis|lipid transport|memory|very-low-density lipoprotein particle clearance	coated pit|integral to membrane|membrane fraction|plasma membrane|very-low-density lipoprotein particle	apolipoprotein binding|calcium ion binding|low-density lipoprotein receptor activity|very-low-density lipoprotein particle receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(50;0.0668)|Lung(218;0.123)		GTGAATACCTATGCCTGCCAG	0.413													20	95					0	0	0.007413	0	0		G	2650419	G	G	2650419	2	3	25	1	0	0	0	0	0	0	0	1	17200	436	16	3		3	VLDLR	9	2650419	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1908175	2650419	138563012	538	21538											
UHRF2	115426	broad.mit.edu	37	chr9	6498129	6498129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacctctgaaggaatagaaCggtcaaggagattatgtcta	14	9	12	6	1	3	3	1	1	2	2	3	6	3	5	1	4	1	0	1	4	7	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:6498129C>T	uc003zjy.2	+	12	2219	c.1879C>T	c.(1879-1881)CGG>TGG	p.R627W	UHRF2_uc003zjz.2_RNA|UHRF2_uc003zkb.2_RNA	NM_152896	NP_690856	Q96PU4	UHRF2_HUMAN	ubiquitin-like with PHD and ring finger domains	627	Methyl-CpG binding and interaction with HDAC1.				cell cycle|cell differentiation|cell proliferation|protein autoubiquitination|regulation of cell cycle|ubiquitin-dependent protein catabolic process	nucleus	DNA binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0392)|Lung(218;0.129)		AGGAATAGAACGGTCAAGGAG	0.408													19	59					0	0	0.006122	0	0		T	6498129	T	T	6498129	3	4	25	1	0	0	0	0	1	0	0	0	16996	527	19	1	1925	1	UHRF2	9	6498129	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3847710	6498129	134715302	539	21539											
PTPRD	5789	broad.mit.edu	37	chr9	8504278	8504278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacttgactgcatggttctaGctgatatttctgcagtagaa	10	15	9	7	0	2	3	0	2	2	1	2	3	2	3	0	1	4	5	0	1	5	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:8504278G>A	uc003zkk.2	-	22	2516	c.1805C>T	c.(1804-1806)GCT>GTT	p.A602V	PTPRD_uc003zkp.2_Missense_Mutation_p.A602V|PTPRD_uc003zkq.2_Missense_Mutation_p.A602V|PTPRD_uc003zkr.2_Missense_Mutation_p.A596V|PTPRD_uc003zks.2_Missense_Mutation_p.A592V|PTPRD_uc003zkl.2_Missense_Mutation_p.A602V|PTPRD_uc003zkm.2_Missense_Mutation_p.A589V|PTPRD_uc003zkn.2_Missense_Mutation_p.A602V|PTPRD_uc003zko.2_Missense_Mutation_p.A599V	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	602	Fibronectin type-III 3.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CATGGTTCTAGCTGATATTTC	0.458										TSP Lung(15;0.13)			37	179					0	0	0.00623	0	0		A	8504278	A	A	8504278	3	1	25	1	0	0	0	0	1	0	0	0	12824	971	34	2	4097	2	PTPRD	9	8504278	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2006149	8504278	132709153	540	21540											
MPDZ	8777	broad.mit.edu	37	chr9	13221386	13221386	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacctgatcagctactccTccaggcagaatggtttttac	9	12	7	13	0	1	2	1	1	0	1	3	2	3	2	4	2	4	3	4	2	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:13221386T>C	uc010mia.1	-	6	918	c.861A>G	c.(859-861)GGA>GGG	p.G287G	MPDZ_uc010mhy.2_Silent_p.G287G|MPDZ_uc010mhz.2_Silent_p.G287G|MPDZ_uc011lmn.1_Silent_p.G287G|MPDZ_uc003zlb.3_Silent_p.G287G	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	287	PDZ 2.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		CAGCTACTCCTCCAGGCAGAA	0.363													29	112					0	0	0.010818	0	0		C	13221386	C	C	13221386	2	2	25	1	0	0	0	0	0	0	0	1	9740	1538	54	3		3	MPDZ	9	13221386	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	4717108	13221386	127992045	541	21541											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18795510	18795510	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgactctgtctccattgccGtcacattagcaggtaaccca	10	10	7	14	2	3	0	1	0	2	0	4	1	3	0	3	1	3	2	3	1	2	3	rs77886371	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:18795510G>A	uc003zne.3	+	20	3920	c.3793G>A	c.(3793-3795)GTC>ATC	p.V1265I		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	1265	Ig-like C2-type 2.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		CTCCATTGCCGTCACATTAGC	0.323													6	33					0	0	0.001984	0	0		A	18795510	A	A	18795510	3	1	25	1	0	0	0	0	1	0	0	0	274	1145	40	1	3875	1	ADAMTSL1	9	18795510	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5574124	18795510	122417921	542	21542											
UNC13B	10497	broad.mit.edu	37	chr9	35400423	35400423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcatcaagacctttgtgcGctcgcagaccacccaaggta	10	9	8	14	2	2	2	2	0	1	2	4	2	2	2	3	1	1	3	3	1	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:35400423G>A	uc003zwq.2	+	36	4512	c.4220G>A	c.(4219-4221)CGC>CAC	p.R1407H	UNC13B_uc003zwr.2_Missense_Mutation_p.R1407H	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	1407					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			ACCTTTGTGCGCTCGCAGACC	0.522													93	363					0	0	0.01441	0	0		A	35400423	A	A	35400423	3	1	25	1	0	0	0	0	1	0	0	0	17011	1087	38	1	4362	1	UNC13B	9	35400423	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	16604913	35400423	105813008	543	21543											
CA9	768	broad.mit.edu	37	chr9	35674217	35674217	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggatctacctggagaggaGgatctacctggagaggagga	12	6	17	6	0	2	2	0	0	2	2	2	10	2	7	2	7	2	0	2	7	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:35674217G>T	uc003zxo.3	+	1	303	c.261G>T	c.(259-261)GAG>GAT	p.E87D	C9orf100_uc003zxl.2_RNA|CA9_uc003zxp.3_Missense_Mutation_p.E87D	NM_001216	NP_001207	Q16790	CAH9_HUMAN	carbonic anhydrase IX precursor	87	Extracellular.|Proteoglycan-like (PG).				one-carbon metabolic process	integral to membrane|microvillus membrane|nucleolus	carbonate dehydratase activity|zinc ion binding			ovary(4)|skin(1)	5	all_epithelial(49;0.217)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CTGGAGAGGAGGATCTACCTG	0.547													11	54					1.5842e-08	1.65105e-08	0.016723	1	0		T	35674217	T	T	35674217	3	4	25	1	0	0	0	0	1	0	0	0	2527	991	35	5	263	5	CA9	9	35674217	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	273794	35674217	105539214	544	21544											
TLN1	7094	broad.mit.edu	37	chr9	35704763	35704763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgccttggtgaccagagcgGcacagccatggcccagctcc	7	6	12	16	1	0	2	0	1	0	1	1	2	1	2	5	3	4	2	5	3	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:35704763G>A	uc003zxt.2	-	44	6137	c.5783C>T	c.(5782-5784)GCC>GTC	p.A1928V		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1928	Interaction with SYNM.				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GACCAGAGCGGCACAGCCATG	0.572													4	87					0	0	0.009096	0	0		A	35704763	A	A	35704763	3	1	25	1	0	0	0	0	1	0	0	0	15972	1203	42	2	1898	2	TLN1	9	35704763	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	30546	35704763	105508668	545	21545											
ZCCHC7	84186	broad.mit.edu	37	chr9	37349416	37349416	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatcagccttagcatattgCtatcactgcgcgcaaaaagg	12	9	8	12	2	2	0	2	0	0	0	2	0	2	0	2	1	4	3	2	1	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:37349416C>T	uc003zzq.2	+	7	1223	c.1050C>T	c.(1048-1050)TGC>TGT	p.C350C	ZCCHC7_uc011lqh.1_Silent_p.C60C|ZCCHC7_uc011lqi.1_Silent_p.C349C|ZCCHC7_uc010mlt.2_Silent_p.C349C	NM_032226	NP_115602	Q8N3Z6	ZCHC7_HUMAN	zinc finger, CCHC domain containing 7	350	CCHC-type 4.						nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.0137)		TAGCATATTGCTATCACTGCG	0.443													25	119					0	0	0.01892	0	0		T	37349416	T	T	37349416	2	4	25	1	0	0	0	0	0	0	0	1	17618	805	28	2		2	ZCCHC7	9	37349416	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1644653	37349416	103864015	546	21546											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													5	110					0	0	0.014758	0	0		G	70993145	G	G	70993145	3	3	25	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	33643729	70993145	70220286	547	21547											
TJP2	9414	broad.mit.edu	37	chr9	71831355	71831355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catttctgatgtgctcccggGtgggcctgctgatgggctgc	3	12	15	11	1	1	2	0	2	1	0	2	2	2	2	2	3	3	3	2	3	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:71831355G>A	uc004ahe.2	+	3	415	c.215G>A	c.(214-216)GGT>GAT	p.G72D	TJP2_uc011lrs.1_Missense_Mutation_p.G49D|TJP2_uc004ahb.1_Missense_Mutation_p.G49D|TJP2_uc011lrt.1_Missense_Mutation_p.G49D|TJP2_uc004ahd.2_Missense_Mutation_p.G72D|TJP2_uc004ahf.2_Missense_Mutation_p.G72D|TJP2_uc011lru.1_Missense_Mutation_p.G76D|TJP2_uc011lrv.1_Missense_Mutation_p.G94D	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)	72	PDZ 1.				cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						GTGCTCCCGGGTGGGCCTGCT	0.552													9	68					0	0	0.006214	0	0		A	71831355	A	A	71831355	3	1	25	1	0	0	0	0	1	0	0	0	15955	1261	44	4	382	4	TJP2	9	71831355	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	838210	71831355	69382076	548	21548											
TMEM2	23670	broad.mit.edu	37	chr9	74319544	74319544	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggtatagaaatgtagtcCgtggtgccggcccattccag	9	9	13	10	3	0	1	0	0	0	1	2	2	2	1	4	3	1	2	4	3	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:74319544C>T	uc011lsa.1	-	18	3701	c.3161G>A	c.(3160-3162)CGG>CAG	p.R1054Q	TMEM2_uc011lrz.1_Missense_Mutation_p.R47Q|TMEM2_uc010mos.2_Missense_Mutation_p.R991Q|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	1054						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		AAATGTAGTCCGTGGTGCCGG	0.433													15	124					0	0	0.012319	0	0		T	74319544	T	T	74319544	3	4	25	1	0	0	0	0	1	0	0	0	16146	652	23	1	1018	1	TMEM2	9	74319544	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2488189	74319544	66893887	549	21549											
TRPM6	140803	broad.mit.edu	37	chr9	77397640	77397640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccgtatatcatccagtatgGctcaaatacaatatctcgag	13	12	6	10	2	3	0	2	0	1	0	6	1	5	0	2	1	1	3	2	1	7	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:77397640G>A	uc004ajl.1	-	22	3287	c.3049C>T	c.(3049-3051)CCA>TCA	p.P1017S	TRPM6_uc004ajk.1_Missense_Mutation_p.P1012S|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_Missense_Mutation_p.P303S	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1017					response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						ATCCAGTATGGCTCAAATACA	0.458													14	103					0	0	0.016723	0	0		A	77397640	A	A	77397640	3	1	25	1	0	0	0	0	1	0	0	0	16616	1203	42	2	3091	2	TRPM6	9	77397640	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3078096	77397640	63815791	550	21550											
TRPM6	140803	broad.mit.edu	37	chr9	77416834	77416834	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgagtaattcttcaactcTtctgaggcatcatccaccat	10	15	5	11	0	5	2	2	2	3	0	6	2	6	2	2	1	1	2	2	1	2	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:77416834T>G	uc004ajl.1	-	16	2227	c.1989A>C	c.(1987-1989)GAA>GAC	p.E663D	TRPM6_uc004ajk.1_Missense_Mutation_p.E658D|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_Missense_Mutation_p.E41D	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	663	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						TCTTCAACTCTTCTGAGGCAT	0.428													35	149					0	0	0.019004	0	0		G	77416834	G	G	77416834	3	3	25	1	0	0	0	0	1	0	0	0	16616	1606	56	5	4175	5	TRPM6	9	77416834	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	19194	77416834	63796597	551	21551											
PCSK5	5125	broad.mit.edu	37	chr9	78506228	78506228	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccactgggcagtcaaaatcgCcgggggcttcccggaggcca	8	5	14	14	3	1	0	1	0	0	0	3	1	2	1	4	5	0	2	4	5	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:78506228C>A	uc004ajz.2	+	1	669	c.131C>A	c.(130-132)GCC>GAC	p.A44D	PCSK5_uc004ajy.2_Missense_Mutation_p.A44D|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	44					anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						GTCAAAATCGCCGGGGGCTTC	0.632													23	142					1.06801e-11	1.13358e-11	0.009535	1	0		A	78506228	A	A	78506228	3	1	25	1	0	0	0	0	1	0	0	0	11622	739	26	5	133	5	PCSK5	9	78506228	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1089394	78506228	62707203	552	21552											
PRUNE2	158471	broad.mit.edu	37	chr9	79322909	79322909	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgtttttcatgggtatcTtttggctgcaggttatctgc	5	18	12	6	0	3	0	1	0	2	0	3	0	3	0	0	4	2	5	0	4	2	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:79322909T>G	uc010mpk.2	-	8	4405	c.4281A>C	c.(4279-4281)AAA>AAC	p.K1427N		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1427					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CATGGGTATCTTTTGGCTGCA	0.428													21	136					0	0	0.014323	0	0		G	79322909	G	G	79322909	3	3	25	1	0	0	0	0	1	0	0	0	12663	1606	56	5	5033	5	PRUNE2	9	79322909	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	816681	79322909	61890522	553	21553											
VPS13A	23230	broad.mit.edu	37	chr9	79954754	79954754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagcagacggaattcatcGaaagcatccacctaattata	17	8	6	10	2	1	1	1	0	0	1	3	3	2	2	2	1	2	2	2	1	6	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:79954754G>A	uc004akr.2	+	48	6961	c.6701G>A	c.(6700-6702)CGA>CAA	p.R2234Q	VPS13A_uc004akp.3_Missense_Mutation_p.R2234Q|VPS13A_uc004akq.3_Missense_Mutation_p.R2234Q|VPS13A_uc004aks.2_Missense_Mutation_p.R2195Q	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2234					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GGAATTCATCGAAAGCATCCA	0.363													38	177					0	0	0.005524	0	0		A	79954754	A	A	79954754	3	1	25	1	0	0	0	0	1	0	0	0	17215	1058	37	1	6891	1	VPS13A	9	79954754	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	631845	79954754	61258677	554	21554											
GAS1	2619	broad.mit.edu	37	chr9	89561072	89561072	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcatagccagcatgtccTcaatgacggtgcggcattcg	8	9	13	11	3	1	1	1	1	0	0	3	1	2	1	2	3	3	3	2	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:89561072T>C	uc004aox.3	-	1	1033	c.623A>G	c.(622-624)GAG>GGG	p.E208G	uc004aoy.2_5'Flank	NM_002048	NP_002039	P54826	GAS1_HUMAN	growth arrest-specific 1 precursor	208					cell cycle arrest|negative regulation of S phase of mitotic cell cycle	anchored to plasma membrane					0						CAGCATGTCCTCAATGACGGT	0.657													12	40					0	0	0.013537	0	0		C	89561072	C	C	89561072	3	2	25	1	0	0	0	0	1	0	0	0	6259	1551	54	3	418	3	GAS1	9	89561072	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	9606318	89561072	51652359	555	21555											
PTCH1	5727	broad.mit.edu	37	chr9	98229519	98229519	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaagtaagtgctggatattCgggtagtctgctttctgggt	8	15	13	5	1	2	0	0	0	2	0	3	1	2	1	0	3	2	4	0	3	5	6	rs151266988		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:98229519C>T	uc004avk.3	-	15	2627	c.2439G>A	c.(2437-2439)CCG>CCA	p.P813P	PTCH1_uc010mro.2_Silent_p.P662P|PTCH1_uc010mrp.2_Silent_p.P662P|PTCH1_uc010mrq.2_Silent_p.P662P|PTCH1_uc004avl.3_Silent_p.P662P|PTCH1_uc010mrr.2_Silent_p.P747P|PTCH1_uc004avm.3_Silent_p.P812P	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	813	Extracellular (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity	p.N814fs*16(1)		skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				GCTGGATATTCGGGTAGTCTG	0.398									Basal_Cell_Nevus_syndrome				58	256					0	0	0.01441	0	0		T	98229519	T	T	98229519	2	4	25	1	0	0	0	0	0	0	0	1	12752	871	31	1		1	PTCH1	9	98229519	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	8668447	98229519	42983912	556	21556											
FOXE1	2304	broad.mit.edu	37	chr9	100616467	100616467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagcgcttccccttctacCgcgacaaccccaaaaagtgg	10	6	8	17	4	1	0	0	0	1	0	2	2	2	0	6	1	3	1	6	1	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:100616467C>T	uc004axu.2	+	1	931	c.271C>T	c.(271-273)CGC>TGC	p.R91C		NM_004473	NP_004464	O00358	FOXE1_HUMAN	forkhead box E1	91	Fork-head.				cell migration|embryonic organ morphogenesis|hair follicle morphogenesis|hard palate development|lens morphogenesis in camera-type eye|negative regulation of transcription from RNA polymerase II promoter|pattern specification process|peripheral nervous system development|pharynx development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|soft palate development|thymus development|thyroid gland development|thyroid hormone generation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		Acute lymphoblastic leukemia(62;0.158)				CCCCTTCTACCGCGACAACCC	0.647													18	53					0	0	0.008871	0	0		T	100616467	T	T	100616467	3	4	25	1	0	0	0	0	1	0	0	0	6017	652	23	1	273	1	FOXE1	9	100616467	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2386948	100616467	40596964	557	21557											
STX17	55014	broad.mit.edu	37	chr9	102677556	102677556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaagtgaaattacgccGtcttgaaccagctatccaga	16	8	8	9	2	1	4	0	2	1	2	2	4	2	4	3	0	3	1	3	0	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:102677556G>A	uc004bal.3	+	2	171	c.35G>A	c.(34-36)CGT>CAT	p.R12H	STX17_uc004bak.2_Missense_Mutation_p.R12H|STX17_uc010msx.2_RNA|STX17_uc011lvd.1_RNA	NM_017919	NP_060389	P56962	STX17_HUMAN	syntaxin 17	12	Cytoplasmic (Potential).				intracellular protein transport|vesicle-mediated transport	endoplasmic reticulum|integral to membrane|nucleolus	SNAP receptor activity			large_intestine(1)	1		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				AAATTACGCCGTCTTGAACCA	0.378													44	153					0	0	0.010771	0	0		A	102677556	A	A	102677556	3	1	25	1	0	0	0	0	1	0	0	0	15365	1145	40	1	37	1	STX17	9	102677556	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2061089	102677556	38535875	558	21558											
ACTL7B	10880	broad.mit.edu	37	chr9	111617781	111617781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggagaccagcacagcgtgctCctcggggaggatcttcatgg	8	7	15	11	2	2	1	1	0	1	1	4	4	3	3	2	5	3	2	2	5	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:111617781C>T	uc004bdi.2	-	1	495	c.430G>A	c.(430-432)GAG>AAG	p.E144K		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	144						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						ACAGCGTGCTCCTCGGGGAGG	0.627													20	79					0	0	0.008871	0	0		T	111617781	T	T	111617781	3	4	25	1	0	0	0	0	1	0	0	0	201	864	30	4	821	4	ACTL7B	9	111617781	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	8940225	111617781	29595650	559	21559											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112705242	112705242	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaggactgtgattgcagAtgggagcctcagccatccca	11	8	12	10	0	1	3	1	2	0	1	2	5	2	5	3	2	3	1	3	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:112705242A>G	uc004bei.2	+	7	965	c.773A>G	c.(772-774)GAT>GGT	p.D258G	PALM2_uc004bef.2_Missense_Mutation_p.D260G|PALM2_uc004beg.2_Missense_Mutation_p.D226G|PALM2_uc004beh.3_Missense_Mutation_p.D258G|PALM2-AKAP2_uc004bek.3_Intron|PALM2-AKAP2_uc004bej.3_Intron|PALM2-AKAP2_uc004bel.1_Intron	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	520							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						GTGATTGCAGATGGGAGCCTC	0.473													28	101					0	0	0.00632	0	0		G	112705242	G	G	112705242	3	3	25	1	0	0	0	0	1	0	0	0	11429	333	12	3		3	PALM2-AKAP2	9	112705242	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1087461	112705242	28508189	560	21560											
TXNDC8	255220	broad.mit.edu	37	chr9	113088522	113088522	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaagtttcagccagctccTgggaaagcaaagaaatggca	15	6	11	9	0	1	1	1	0	0	1	2	3	2	2	2	2	3	4	2	2	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:113088522T>C	uc004bes.2	-	4	239	c.190_splice	c.e4-1	p.E64_splice	TXNDC8_uc011lwl.1_Splice_Site_p.E44_splice	NM_001003936	NP_001003936	Q6A555	TXND8_HUMAN	thioredoxin domain containing 8						cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	Golgi apparatus	electron carrier activity|protein disulfide oxidoreductase activity				0						AGCCAGCTCCTGGGAAAGCAA	0.418													65	245					0	0	0.01441	0	0		C	113088522	C	C	113088522	5	2	25	1	0	0	0	0	0	0	1	0	16827	1594	55	3	171	3	TXNDC8	9	113088522	Splice_Site	SNP	T	TCGA-BR-4370-01A-01D-1158-08	383280	113088522	28124909	561	21561											
TNC	3371	broad.mit.edu	37	chr9	117849343	117849343	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctggtcattgcagtcgcTggggcaagccagctggctgc	5	8	15	13	1	1	0	1	0	0	0	2	0	1	0	2	4	4	5	2	4	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:117849343T>G	uc004bjj.3	-	3	1029	c.667A>C	c.(667-669)AGC>CGC	p.S223R	TNC_uc010mvf.2_Missense_Mutation_p.S223R	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	223	EGF-like 3.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TTGCAGTCGCTGGGGCAAGCC	0.607													24	132					0	0	0.008361	0	0		G	117849343	G	G	117849343	3	3	25	1	0	0	0	0	1	0	0	0	16295	1580	55	5	6042	5	TNC	9	117849343	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	4760821	117849343	23364088	562	21562											
PAPPA	5069	broad.mit.edu	37	chr9	119115183	119115183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtgcctggatcctctcGgaagtcaaagaagtaagtgg	11	9	12	9	1	2	1	1	0	1	1	4	3	3	3	3	3	1	1	3	3	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:119115183G>A	uc004bjn.2	+	16	4544	c.4163G>A	c.(4162-4164)CGG>CAG	p.R1388Q	PAPPA_uc011lxq.1_Missense_Mutation_p.R763Q	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1388	Sushi 3.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GGATCCTCTCGGAAGTCAAAG	0.507													13	46					0	0	0.020292	0	0		A	119115183	A	A	119115183	3	1	25	1	0	0	0	0	1	0	0	0	11451	1116	39	1	4225	1	PAPPA	9	119115183	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1265840	119115183	22098248	563	21563											
ASTN2	23245	broad.mit.edu	37	chr9	119582954	119582954	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcaggggcagcgtctgctGcaggcacagctgctcacagc	7	5	16	13	1	2	0	1	0	1	0	2	0	2	0	0	4	6	7	0	4	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:119582954G>A	uc004bjs.1	-	12	2250	c.2149C>T	c.(2149-2151)CAG>TAG	p.Q717*	ASTN2_uc004bjr.1_Nonsense_Mutation_p.Q713*|ASTN2_uc004bjt.1_Nonsense_Mutation_p.Q666*	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	717	Extracellular (Potential).|EGF-like 3.					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						AGCGTCTGCTGCAGGCACAGC	0.577													20	103					0	0	0.01892	0	0		A	119582954	A	A	119582954	4	1	25	1	0	0	0	0	0	1	0	0	1066	1328	46	2	2150	2	ASTN2	9	119582954	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	467771	119582954	21630477	564	21564											
C5	727	broad.mit.edu	37	chr9	123725021	123725021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaagagttcaaatatccGgaatcgtacacaaaggaaat	18	9	7	7	2	2	1	2	0	0	1	4	3	3	3	1	2	1	2	1	2	7	4	rs138933092		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:123725021G>A	uc004bkv.2	-	36	4462	c.4432C>T	c.(4432-4434)CGG>TGG	p.R1478W		NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	1478					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	TCAAATATCCGGAATCGTACA	0.373													44	187					0	0	0.00874	0	0		A	123725021	A	A	123725021	3	1	25	1	0	0	0	0	1	0	0	0	2283	1115	39	1	622	1	C5	9	123725021	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4142067	123725021	17488410	565	21565											
PBX3	5090	broad.mit.edu	37	chr9	128725316	128725316	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccctccgtcatgttatcaAtcagacgggaggctacagtg	10	10	10	11	2	3	1	3	0	0	1	4	2	4	2	2	2	2	2	2	2	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:128725316A>G	uc004bqb.2	+	8	1264	c.1148A>G	c.(1147-1149)AAT>AGT	p.N383S	PBX3_uc004bqc.2_Missense_Mutation_p.N202S|PBX3_uc004bqd.2_Silent_p.Q164Q|PBX3_uc011lzw.1_Missense_Mutation_p.N308S|PBX3_uc011lzx.1_Silent_p.Q256Q|PBX3_uc004bqe.2_Missense_Mutation_p.N291S	NM_006195	NP_006186	P40426	PBX3_HUMAN	pre-B-cell leukemia homeobox 3 isoform 1	383					anterior compartment pattern formation|posterior compartment specification		sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						CATGTTATCAATCAGACGGGA	0.403													11	32					0	0	0.016723	0	0		G	128725316	G	G	128725316	3	3	25	1	0	0	0	0	1	0	0	0	11513	101	4	3	1178	3	PBX3	9	128725316	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	5000295	128725316	12488115	566	21566											
STXBP1	6812	broad.mit.edu	37	chr9	130442513	130442513	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcctccttcagcaccacCgccgtcaggtaggtgaaaat	9	9	9	14	2	3	1	2	1	1	0	4	1	4	1	5	2	2	2	5	2	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:130442513C>T	uc004brl.2	+	17	1736	c.1539C>T	c.(1537-1539)ACC>ACT	p.T513T	STXBP1_uc004brk.2_Silent_p.T513T	NM_001032221	NP_001027392	P61764	STXB1_HUMAN	syntaxin binding protein 1 isoform b	513					axon target recognition|energy reserve metabolic process|glutamate secretion|negative regulation of synaptic transmission, GABAergic|neurotransmitter secretion|platelet aggregation|platelet degranulation|protein transport|regulation of insulin secretion|regulation of synaptic vesicle priming|synaptic vesicle maturation|vesicle docking involved in exocytosis	cytosol|mitochondrion|plasma membrane|platelet alpha granule|protein complex	identical protein binding|syntaxin-1 binding|syntaxin-2 binding			skin(1)	1						TCAGCACCACCGCCGTCAGGT	0.507													45	151					0	0	0.011902	0	0		T	130442513	T	T	130442513	2	4	25	1	0	0	0	0	0	0	0	1	15377	639	23	1		1	STXBP1	9	130442513	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1717197	130442513	10770918	567	21567											
ODF2	4957	broad.mit.edu	37	chr9	131221884	131221884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacggagtaacgagtctcaCgcagaaaaaggtcttgagag	15	6	13	7	3	2	2	1	1	2	2	3	6	2	3	0	2	2	2	0	2	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:131221884C>T	uc011mbd.1	+	3	382	c.71C>T	c.(70-72)ACG>ATG	p.T24M	ODF2_uc011maz.1_Missense_Mutation_p.T24M|ODF2_uc011mba.1_Translation_Start_Site|ODF2_uc010myb.2_Translation_Start_Site|ODF2_uc011mbb.1_Translation_Start_Site|ODF2_uc011mbc.1_Translation_Start_Site|ODF2_uc004bva.2_Translation_Start_Site|ODF2_uc004bvb.2_Translation_Start_Site|ODF2_uc011mbe.1_Translation_Start_Site|ODF2_uc004bvc.2_Translation_Start_Site|ODF2_uc010myc.2_Missense_Mutation_p.T24M|ODF2_uc011mbf.1_Missense_Mutation_p.T24M|ODF2_uc004bvd.3_Missense_Mutation_p.T24M|ODF2_uc004bve.2_Missense_Mutation_p.T24M	NM_002540	NP_002531	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2 isoform 1	24					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centriole|cilium|cytosol|microtubule|spindle pole	protein binding|structural molecule activity			ovary(1)	1						ACGAGTCTCACGCAGAAAAAG	0.488													10	37					0	0	0.010729	0	0		T	131221884	T	T	131221884	3	4	25	1	0	0	0	0	1	0	0	0	10846	536	19	1	77	1	ODF2	9	131221884	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	779371	131221884	9991547	568	21568											
SPTAN1	6709	broad.mit.edu	37	chr9	131346661	131346661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaggaagccctcgtggctcGctatgaggcactcaaggagc	10	6	13	12	2	1	1	1	1	0	0	3	3	1	3	1	4	2	3	1	4	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:131346661G>A	uc004bvl.3	+	17	2407	c.2294G>A	c.(2293-2295)CGC>CAC	p.R765H	SPTAN1_uc011mbg.1_Missense_Mutation_p.R765H|SPTAN1_uc011mbh.1_Missense_Mutation_p.R777H|SPTAN1_uc004bvm.3_Missense_Mutation_p.R765H|SPTAN1_uc004bvn.3_Missense_Mutation_p.R765H	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	765	Spectrin 8.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						CTCGTGGCTCGCTATGAGGCA	0.552													16	68					0	0	0.004007	0	0		A	131346661	A	A	131346661	3	1	25	1	0	0	0	0	1	0	0	0	15142	1087	38	1	2356	1	SPTAN1	9	131346661	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	124777	131346661	9866770	569	21569											
NUP188	23511	broad.mit.edu	37	chr9	131735455	131735455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagtgcaccaccagcactgCatgcatgtgtgtctatggac	9	9	10	13	0	1	0	0	0	1	0	1	1	1	1	3	1	4	4	3	1	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:131735455C>T	uc004bws.1	+	12	1152	c.1130C>T	c.(1129-1131)GCA>GTA	p.A377V		NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	377					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						ACCAGCACTGCATGCATGTGT	0.483													4	129					0	0	0.009096	0	0		T	131735455	T	T	131735455	3	4	25	1	0	0	0	0	1	0	0	0	10777	710	25	2	1176	2	NUP188	9	131735455	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	388794	131735455	9477976	570	21570											
EXOSC2	23404	broad.mit.edu	37	chr9	133577549	133577549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gggggttttggtccaggtttCcccctccctggtgaaacggc	4	11	14	12	1	0	1	0	1	0	0	3	1	3	1	4	6	1	2	4	6	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:133577549C>T	uc004bzu.2	+	7	545	c.524C>T	c.(523-525)TCC>TTC	p.S175F	EXOSC2_uc011mbz.1_Missense_Mutation_p.S149F|EXOSC2_uc011mca.1_RNA	NM_014285	NP_055100	Q13868	EXOS2_HUMAN	exosome component 2	175					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|positive regulation of cell growth|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	3'-5'-exoribonuclease activity|7S RNA binding|protein binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(13;0.0588)		OV - Ovarian serous cystadenocarcinoma(145;0.000324)		GTCCAGGTTTCCCCCTCCCTG	0.473													17	79					0	0	0.010504	0	0		T	133577549	T	T	133577549	3	4	25	1	0	0	0	0	1	0	0	0	5323	855	30	4	550	4	EXOSC2	9	133577549	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1842094	133577549	7635882	571	21571											
FIBCD1	84929	broad.mit.edu	37	chr9	133780645	133780645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgccggaatagtcagccaCggtgagcgggtacccgtctt	8	8	14	11	4	2	1	1	1	1	0	2	2	2	2	3	3	4	1	3	3	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:133780645C>T	uc004bzz.2	-	6	1347	c.1102G>A	c.(1102-1104)GTG>ATG	p.V368M	FIBCD1_uc011mcc.1_Missense_Mutation_p.V368M	NM_032843	NP_116232	Q8N539	FBCD1_HUMAN	fibrinogen C domain containing 1	368	Fibrinogen C-terminal.|Extracellular (Potential).				signal transduction	extracellular space|integral to membrane	chitin binding|metal ion binding|receptor binding				0	all_hematologic(7;0.0028)			OV - Ovarian serous cystadenocarcinoma(145;3.52e-05)|Epithelial(140;0.00019)		TAGTCAGCCACGGTGAGCGGG	0.662													9	52					0	0	0.008291	0	0		T	133780645	T	T	133780645	3	4	25	1	0	0	0	0	1	0	0	0	5898	536	19	1	291	1	FIBCD1	9	133780645	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	203096	133780645	7432786	572	21572											
FIBCD1	84929	broad.mit.edu	37	chr9	133799212	133799212	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggaaagacagagtagacGccatcgtcctgctgtccgct	9	8	13	11	3	0	3	0	0	0	3	3	4	2	4	3	1	1	3	3	1	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:133799212G>A	uc004bzz.2	-	4	1013	c.768C>T	c.(766-768)GGC>GGT	p.G256G	FIBCD1_uc011mcc.1_Silent_p.G256G	NM_032843	NP_116232	Q8N539	FBCD1_HUMAN	fibrinogen C domain containing 1	256	Fibrinogen C-terminal.|Extracellular (Potential).				signal transduction	extracellular space|integral to membrane	chitin binding|metal ion binding|receptor binding				0	all_hematologic(7;0.0028)			OV - Ovarian serous cystadenocarcinoma(145;3.52e-05)|Epithelial(140;0.00019)		CAGAGTAGACGCCATCGTCCT	0.672													23	68					0	0	0.014323	0	0		A	133799212	A	A	133799212	2	1	25	1	0	0	0	0	0	0	0	1	5898	1074	38	1		1	FIBCD1	9	133799212	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	18567	133799212	7414219	573	21573											
NTNG2	84628	broad.mit.edu	37	chr9	135114577	135114577	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctgcaagcacaacacgCgaggtcagcactgccagcac	12	4	10	15	2	2	0	2	0	0	0	2	1	2	0	1	1	7	5	1	1	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:135114577C>T	uc004cbh.2	+	6	1917	c.1141C>T	c.(1141-1143)CGA>TGA	p.R381*		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	381	Laminin EGF-like 2.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		GCACAACACGCGAGGTCAGCA	0.607													4	102					0	0	0.00308	0	0		T	135114577	T	T	135114577	4	4	25	1	0	0	0	0	0	1	0	0	10724	760	27	1	1159	1	NTNG2	9	135114577	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1315365	135114577	6098854	574	21574											
TMEM8C	389827	broad.mit.edu	37	chr9	136385331	136385331	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgctcagggctgtcccgTagacactgaaatactccagg	11	8	10	12	1	1	2	1	1	0	1	3	2	3	2	2	2	2	3	2	2	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:136385331T>C	uc011mdk.1	-	2	215	c.215A>G	c.(214-216)TAC>TGC	p.Y72C		NM_001080483	NP_001073952	A6NI61	TMM8C_HUMAN	transmembrane protein 8C	72	Helical; (Potential).					integral to membrane					0						GGCTGTCCCGTAGACACTGAA	0.597													22	95					0	0	0.016522	0	0		C	136385331	C	C	136385331	3	2	25	1	0	0	0	0	1	0	0	0	16241	1638	57	3	466	3	TMEM8C	9	136385331	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	1270754	136385331	4828100	575	21575											
OLFM1	10439	broad.mit.edu	37	chr9	137998700	137998700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcccctgaaggcgataaccGggtgagtgtccccttatgtc	7	9	12	13	3	0	2	0	2	0	0	2	3	1	2	5	2	1	0	5	2	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:137998700G>A	uc010nar.2	+	5	1098	c.782G>A	c.(781-783)CGG>CAG	p.R261Q	OLFM1_uc004cfl.3_Missense_Mutation_p.R243Q|OLFM1_uc004cfn.3_Missense_Mutation_p.R12Q	NM_014279	NP_055094	Q99784	NOE1_HUMAN	olfactomedin related ER localized protein	261	Olfactomedin-like.				nervous system development	endoplasmic reticulum lumen	protein binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(178;0.0333)		Epithelial(140;5.49e-08)|OV - Ovarian serous cystadenocarcinoma(145;9.68e-08)|all cancers(34;1.88e-07)		GGCGATAACCGGGTGAGTGTC	0.622													4	16					0	0	0.009096	0	0		A	137998700	A	A	137998700	3	1	25	1	0	0	0	0	1	0	0	0	10871	1130	39	1	756	1	OLFM1	9	137998700	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1613369	137998700	3214731	576	21576											
CARD9	64170	broad.mit.edu	37	chr9	139266495	139266495	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccggaagccctccaggacGctccagcactcgtcatcgtt	8	7	9	17	4	1	0	1	0	0	0	5	2	3	2	4	2	2	3	4	2	1	1	rs112268470		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:139266495G>A	uc004chg.3	-	2	202	c.36C>T	c.(34-36)AGC>AGT	p.S12S	CARD9_uc011mdw.1_Silent_p.S12S|CARD9_uc011mdx.1_Intron|CARD9_uc010nbj.2_Silent_p.S12S	NM_052813	NP_434700	Q9H257	CARD9_HUMAN	caspase recruitment domain protein 9 isoform 1	12	CARD.				positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of JNK cascade|positive regulation of stress-activated MAPK cascade|regulation of apoptosis	cytoplasm	CARD domain binding|protein homodimerization activity			pancreas(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;4.58e-06)|Epithelial(140;5.65e-06)		CCTCCAGGACGCTCCAGCACT	0.647													28	136					0	0	0.007291	0	0		A	139266495	A	A	139266495	2	1	25	1	0	0	0	0	0	0	0	1	2655	1078	38	1		1	CARD9	9	139266495	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1267795	139266495	1946936	577	21577											
SNAPC4	6621	broad.mit.edu	37	chr9	139276353	139276353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctacccaaggggtcacaGccagcagcagcctgcggttc	8	5	11	17	1	1	0	1	0	0	0	2	0	1	0	5	3	6	3	5	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:139276353G>A	uc004chh.2	-	17	2249	c.2240C>T	c.(2239-2241)GCT>GTT	p.A747V		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	747					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		AGGGGTCACAGCCAGCAGCAG	0.662													9	26					0	0	0.006214	0	0		A	139276353	A	A	139276353	3	1	25	1	0	0	0	0	1	0	0	0	14862	971	34	2	2193	2	SNAPC4	9	139276353	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	9858	139276353	1937078	578	21578											
ABCA2	20	broad.mit.edu	37	chr9	139910575	139910575	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgtgcggatgtcgtgcccGtagatggtggcggaacccga	6	8	16	11	6	0	1	0	0	0	1	2	4	1	3	3	4	3	1	3	4	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:139910575G>A	uc011mem.1	-	21	3301	c.3153C>T	c.(3151-3153)TAC>TAT	p.Y1051Y	ABCA2_uc011mel.1_Silent_p.Y1052Y|ABCA2_uc004ckl.1_Silent_p.Y982Y|ABCA2_uc004ckm.1_Silent_p.Y1082Y|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1051	ABC transporter 1.				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		TGTCGTGCCCGTAGATGGTGG	0.647													5	159					0	0	0.014758	0	0		A	139910575	A	A	139910575	2	1	25	1	0	0	0	0	0	0	0	1	32	1140	40	1		1	ABCA2	9	139910575	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	634222	139910575	1302856	579	21579											
ZMYND19	116225	broad.mit.edu	37	chr9	140477041	140477041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagggacgcttcctctccCgacagtgcttcttgtgggca	6	10	13	12	2	2	0	0	0	2	0	4	3	3	2	2	3	1	3	2	3	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:140477041C>T	uc004cno.1	-	6	860	c.638G>A	c.(637-639)CGG>CAG	p.R213Q		NM_138462	NP_612471	Q96E35	ZMY19_HUMAN	zinc finger, MYND domain containing 19	213						Golgi apparatus|plasma membrane	zinc ion binding			skin(1)	1	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000275)|Epithelial(140;0.00047)		CTTCCTCTCCCGACAGTGCTT	0.652													16	97					0	0	0.00499	0	0		T	140477041	T	T	140477041	3	4	25	1	0	0	0	0	1	0	0	0	17735	652	23	1	49	1	ZMYND19	9	140477041	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	566466	140477041	736390	580	21580											
EHMT1	79813	broad.mit.edu	37	chr9	140638449	140638449	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaggagctcgaggaggaCgacggccatggtgcagagca	11	4	17	9	3	1	2	1	0	0	2	2	7	1	5	1	5	3	3	1	5	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr9:140638449C>T	uc011mfc.1	+	6	1114	c.1077C>T	c.(1075-1077)GAC>GAT	p.D359D	EHMT1_uc004coa.2_Silent_p.D359D|EHMT1_uc004cob.1_Silent_p.D328D	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	359					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		TCGAGGAGGACGACGGCCATG	0.637													14	88					0	0	0.008871	0	0		T	140638449	T	T	140638449	2	4	25	1	0	0	0	0	0	0	0	1	4989	535	19	1		1	EHMT1	9	140638449	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	161408	140638449	574982	581	21581											
DIP2C	22982	broad.mit.edu	37	chr10	373069	373069	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgatccgaggcctctcttcCgccacaaccacgcaggtcct	7	7	9	18	4	1	0	0	0	1	0	5	2	4	0	6	2	1	1	6	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:373069C>T	uc001ifp.2	-	31	3891	c.3801G>A	c.(3799-3801)GCG>GCA	p.A1267A		NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	1267						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GCCTCTCTTCCGCCACAACCA	0.617													25	74					0	0	0.021523	0	0		T	373069	T	T	373069	2	4	25	1	0	0	0	0	0	0	0	1	4535	639	23	1		1	DIP2C	10	373069	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08		373069	135161678	582	21582											
PFKP	5214	broad.mit.edu	37	chr10	3155640	3155640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgtacgctcagctgtgcGcgtgggcattgccgacggcc	5	7	15	14	6	1	0	1	0	0	0	1	1	1	0	3	2	5	4	3	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:3155640G>A	uc001igp.2	+	13	1337	c.1301G>A	c.(1300-1302)CGC>CAC	p.R434H	PFKP_uc001igq.2_Missense_Mutation_p.R426H|PFKP_uc009xhr.2_Missense_Mutation_p.R396H|PFKP_uc009xhs.1_Missense_Mutation_p.R218H|PFKP_uc009xht.2_Missense_Mutation_p.R172H|PFKP_uc009xhu.2_5'UTR	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	434					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		TCAGCTGTGCGCGTGGGCATT	0.612													5	31					0	0	0.001984	0	0		A	3155640	A	A	3155640	3	1	25	1	0	0	0	0	1	0	0	0	11785	1087	38	1	1351	1	PFKP	10	3155640	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2782571	3155640	132379107	583	21583											
SFMBT2	57713	broad.mit.edu	37	chr10	7290522	7290522	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacccaccttagtcaccgaCgcaggagagatgtaaaaggg	15	5	11	10	2	1	1	1	0	0	1	1	4	1	2	3	2	1	2	3	2	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:7290522C>T	uc009xio.1	-	8	1051	c.960G>A	c.(958-960)GCG>GCA	p.A320A	SFMBT2_uc001ijn.1_Silent_p.A320A|SFMBT2_uc010qay.1_Silent_p.A320A	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	320	MBT 3.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						TAGTCACCGACGCAGGAGAGA	0.493													13	104					0	0	0.020292	0	0		T	7290522	T	T	7290522	2	4	25	1	0	0	0	0	0	0	0	1	14183	523	19	1		1	SFMBT2	10	7290522	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4134882	7290522	128244225	584	21584											
MCM10	55388	broad.mit.edu	37	chr10	13217572	13217572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacccctacagacgatttctCggaacaaacctagtgggata	14	8	8	11	2	1	1	0	0	1	1	2	4	1	3	3	2	4	0	3	2	6	4	rs150895215	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:13217572C>T	uc001ima.2	+	6	759	c.658C>T	c.(658-660)CGG>TGG	p.R220W	MCM10_uc001imb.2_Missense_Mutation_p.R219W|MCM10_uc001imc.2_Missense_Mutation_p.R219W	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	220					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						GACGATTTCTCGGAACAAACC	0.468													47	223					0	0	0.01441	0	0		T	13217572	T	T	13217572	3	4	25	1	0	0	0	0	1	0	0	0	9403	875	31	1	676	1	MCM10	10	13217572	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	5927050	13217572	122317175	585	21585											
HSPA14	51182	broad.mit.edu	37	chr10	14881910	14881910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttttctctaggatggcCgggctggtgtggttgcaaat	5	16	14	6	1	1	0	0	0	1	0	2	1	1	1	1	5	1	4	1	5	2	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:14881910C>T	uc001inf.2	+	2	205	c.64C>T	c.(64-66)CGG>TGG	p.R22W	CDNF_uc001inb.1_5'Flank|CDNF_uc010qbv.1_5'Flank|CDNF_uc001inc.1_5'Flank|HSPA14_uc001ind.2_5'UTR|HSPA14_uc001ine.2_Missense_Mutation_p.R22W|HSPA14_uc010qbw.1_Missense_Mutation_p.R22W	NM_016299	NP_057383	Q0VDF9	HSP7E_HUMAN	heat shock 70kDa protein 14 isoform 1	22					'de novo' cotranslational protein folding	cytosol	ATP binding|protein binding			ovary(2)|breast(2)|lung(1)	5						CTAGGATGGCCGGGCTGGTGT	0.448													24	142					0	0	0.012213	0	0		T	14881910	T	T	14881910	3	4	25	1	0	0	0	0	1	0	0	0	7423	643	23	1	70	1	HSPA14	10	14881910	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1664338	14881910	120652837	586	21586											
CUBN	8029	broad.mit.edu	37	chr10	16948350	16948350	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgagtaattcctgactccGtcatagccaggagaagtaaa	13	10	9	9	1	1	3	1	2	0	1	3	4	3	3	3	1	1	2	3	1	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:16948350G>A	uc001ioo.2	-	50	7816	c.7764C>T	c.(7762-7764)GAC>GAT	p.D2588D	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Translation_Start_Site	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2588	CUB 19.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TCCTGACTCCGTCATAGCCAG	0.408													26	145					0	0	0.005443	0	0		A	16948350	A	A	16948350	2	1	25	1	0	0	0	0	0	0	0	1	4054	1136	40	1		1	CUBN	10	16948350	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2066440	16948350	118586397	587	21587											
KIAA1462	57608	broad.mit.edu	37	chr10	30318027	30318027	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggggtttgggatgttctgCgggggcgatctgtatgaggg	5	12	20	4	2	2	1	0	1	2	0	2	3	2	2	0	6	1	3	0	6	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:30318027C>T	uc001iux.2	-	2	1109	c.1050G>A	c.(1048-1050)CCG>CCA	p.P350P	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Silent_p.P212P|KIAA1462_uc009xle.1_Silent_p.P350P	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	350	Pro-rich.									ovary(4)	4						GGATGTTCTGCGGGGGCGATC	0.597													56	283					0	0	0.01441	0	0		T	30318027	T	T	30318027	2	4	25	1	0	0	0	0	0	0	0	1	8250	755	27	1		1	KIAA1462	10	30318027	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	13369677	30318027	105216720	588	21588											
PARD3	56288	broad.mit.edu	37	chr10	34573135	34573135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtatttttattttacccGttttctcaatcttgtcatct	6	22	3	10	1	4	0	2	0	3	0	5	0	4	0	2	0	1	2	2	0	4	9			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:34573135G>A	uc010qej.1	-	21	3113	c.3113C>T	c.(3112-3114)ACG>ATG	p.T1038M	PARD3_uc010qek.1_Missense_Mutation_p.T1035M|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Missense_Mutation_p.T1022M|PARD3_uc010qen.1_Missense_Mutation_p.T992M|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Missense_Mutation_p.T948M|PARD3_uc010qeq.1_Intron	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	1038	Lys-rich.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				TATTTTACCCGTTTTCTCAAT	0.343													58	280					0	0	0.01441	0	0		A	34573135	A	A	34573135	3	1	25	1	0	0	0	0	1	0	0	0	11462	1145	40	1	977	1	PARD3	10	34573135	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4255108	34573135	100961612	589	21589											
FZD8	8325	broad.mit.edu	37	chr10	35929386	35929386	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgcactaggtagcccacCgacacgaagaggtagcaggc	12	3	14	12	3	0	1	0	0	0	1	0	3	0	1	2	4	2	4	2	4	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:35929386C>T	uc001iyz.1	-	1	977	c.972G>A	c.(970-972)TCG>TCA	p.S324S		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	324	Helical; Name=2; (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						GGTAGCCCACCGACACGAAGA	0.488													7	24					0	0	0.001984	0	0		T	35929386	T	T	35929386	2	4	25	1	0	0	0	0	0	0	0	1	6150	639	23	1		1	FZD8	10	35929386	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1356251	35929386	99605361	590	21590											
C10orf10	11067	broad.mit.edu	37	chr10	45472904	45472904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacactgctggggcgggggCggtggcgggaggccatggct	4	5	23	9	3	0	0	0	0	0	0	0	2	0	2	1	10	1	2	1	10	0	0	rs141296778		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:45472904C>T	uc001jbr.3	-	2	865	c.575G>A	c.(574-576)CGC>CAC	p.R192H	RASSF4_uc001jbo.2_Intron|RASSF4_uc001jbp.2_Intron|RASSF4_uc009xmn.2_Intron|RASSF4_uc001jbq.2_Intron	NM_007021	NP_008952	Q9NTK1	DEPP_HUMAN	fasting-induced protein	192						mitochondrion					0						GGGGCGGGGGCGGTGGCGGGA	0.612													34	156					0	0	0.017118	0	0		T	45472904	T	T	45472904	3	4	25	1	0	0	0	0	1	0	0	0	1583	768	27	1	67	1	C10orf10	10	45472904	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	9543518	45472904	90061843	591	21591											
PPYR1	5540	broad.mit.edu	37	chr10	47087852	47087852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcatctgcccctgtccacaGtacatacggaagtctccaaa	12	8	7	14	1	2	0	0	0	2	0	4	1	3	1	4	1	4	2	4	1	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:47087852G>A	uc001jee.2	+	3	1488	c.1069G>A	c.(1069-1071)GTA>ATA	p.V357I	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.V357I	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	357	Cytoplasmic (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						CCTGTCCACAGTACATACGGA	0.567													24	329					0	0	0.007291	0	0		A	47087852	A	A	47087852	3	1	25	1	0	0	0	0	1	0	0	0	12438	1029	36	4	1071	4	PPYR1	10	47087852	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1614948	47087852	88446895	592	21592											
MAPK8	5599	broad.mit.edu	37	chr10	49632628	49632628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttgttcccaggtacagatCgtatccttatctttggccta	7	17	7	10	1	1	1	0	0	1	1	4	1	3	1	3	2	1	3	3	2	4	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:49632628C>T	uc009xnz.2	+	7	912	c.688C>T	c.(688-690)CAT>TAT	p.H230Y	MAPK8_uc001jgl.2_Missense_Mutation_p.H230Y|MAPK8_uc001jgm.2_Missense_Mutation_p.H230Y|MAPK8_uc001jgo.2_Missense_Mutation_p.H230Y|MAPK8_uc009xoa.2_Intron|MAPK8_uc001jgn.2_Missense_Mutation_p.H230Y|MAPK8_uc010qgk.1_Missense_Mutation_p.H230Y|MAPK8_uc001jgp.2_Intron|MAPK8_uc001jgq.2_Intron	NM_139047	NP_620635	P45983	MK08_HUMAN	mitogen-activated protein kinase 8 isoform JNK1	230	Protein kinase.				activation of pro-apoptotic gene products|cellular response to mechanical stimulus|induction of apoptosis by intracellular signals|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of apoptosis|negative regulation of protein binding|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of deacetylase activity|regulation of protein localization|regulation of sequence-specific DNA binding transcription factor activity|response to UV|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|histone deacetylase binding|histone deacetylase regulator activity|JUN kinase activity|protein binding			central_nervous_system(3)|lung(2)|stomach(1)|ovary(1)|kidney(1)	8		Ovarian(717;0.0221)|Lung SC(717;0.113)|all_neural(218;0.116)		Epithelial(53;3.46e-65)|Lung(62;0.125)		AGGTACAGATCGTATCCTTAT	0.363													31	126					0	0	0.013726	0	0		T	49632628	T	T	49632628	3	4	25	1	0	0	0	0	1	0	0	0	9301	898	31	1	786	1	MAPK8	10	49632628	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2544776	49632628	85902119	593	21593											
ERCC6	2074	broad.mit.edu	37	chr10	50736485	50736485	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcctcctccagactggcGtgatctagttcaattttcac	8	13	7	13	1	3	2	2	1	1	1	6	2	6	2	3	1	0	2	3	1	2	4	rs140876119		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:50736485G>A	uc001jhs.3	-	4	784	c.630C>T	c.(628-630)CAC>CAT	p.H210H	PGBD3_uc009xoe.2_Silent_p.H210H|PGBD3_uc001jhu.2_Silent_p.H210H	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	210					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						CCAGACTGGCGTGATCTAGTT	0.458								Direct_reversal_of_damage|NER					31	121					0	0	0.010818	0	0		A	50736485	A	A	50736485	2	1	25	1	0	0	0	0	0	0	0	1	5225	1136	40	1		1	ERCC6	10	50736485	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1103857	50736485	84798262	594	21594											
ANK3	288	broad.mit.edu	37	chr10	61941099	61941099	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtatacctttgtctgggcGtccacatgagccccttggtt	5	13	10	13	2	1	1	0	1	1	0	2	1	2	1	5	2	2	2	5	2	2	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:61941099G>A	uc001jky.2	-	18	2364	c.2172C>T	c.(2170-2172)GAC>GAT	p.D724D	ANK3_uc010qih.1_Silent_p.D707D|ANK3_uc001jkz.3_Silent_p.D718D|ANK3_uc001jlb.1_Silent_p.D253D|ANK3_uc001jlc.1_Silent_p.D385D	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	724	ANK 20.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTGTCTGGGCGTCCACATGAG	0.493													6	320					0	0	0.00308	0	0		A	61941099	A	A	61941099	2	1	25	1	0	0	0	0	0	0	0	1	622	1136	40	1		1	ANK3	10	61941099	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	11204614	61941099	73593648	595	21595											
ANK3	288	broad.mit.edu	37	chr10	62021646	62021646	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaatccacagcagccgctcGgtttaacagcaacgtggcta	12	7	10	12	3	0	0	0	0	0	0	2	1	1	0	2	2	5	5	2	2	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:62021646G>A	uc001jky.2	-	7	961	c.769C>T	c.(769-771)CGA>TGA	p.R257*	ANK3_uc010qih.1_Nonsense_Mutation_p.R240*|ANK3_uc001jkz.3_Nonsense_Mutation_p.R251*|ANK3_uc001jlb.1_5'UTR	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	257	ANK 6.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GCAGCCGCTCGGTTTAACAGC	0.428													18	96					0	0	0.016522	0	0		A	62021646	A	A	62021646	4	1	25	1	0	0	0	0	0	1	0	0	622	1124	39	1	12845	1	ANK3	10	62021646	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	80547	62021646	73513101	596	21596											
ARID5B	84159	broad.mit.edu	37	chr10	63852248	63852248	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcagaacattggggcggCgcggccgatcaagcgcagcc	8	3	15	15	6	1	1	1	0	0	1	1	2	1	1	3	4	3	2	3	4	2	1	rs145564601		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:63852248C>G	uc001jlt.1	+	10	3052	c.3026C>G	c.(3025-3027)GCG>GGG	p.A1009G		NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	1009					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					ATTGGGGCGGCGCGGCCGATC	0.572													28	198					0	0	0.010818	0	0		G	63852248	G	G	63852248	3	3	25	1	0	0	0	0	1	0	0	0	922	768	27	5	3064	5	ARID5B	10	63852248	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1830602	63852248	71682499	597	21597											
ARID5B	84159	broad.mit.edu	37	chr10	63852392	63852392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtgaaggcagcaaagcagCgcacggtgggcattccgggg	10	4	18	9	3	0	1	0	1	0	0	1	2	1	1	1	5	3	5	1	5	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:63852392C>T	uc001jlt.1	+	10	3196	c.3170C>T	c.(3169-3171)GCG>GTG	p.A1057V		NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	1057					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					AGCAAAGCAGCGCACGGTGGG	0.612													10	158					0	0	0.006214	0	0		T	63852392	T	T	63852392	3	4	25	1	0	0	0	0	1	0	0	0	922	768	27	1	3208	1	ARID5B	10	63852392	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	144	63852392	71682355	598	21598											
KIAA1274	27143	broad.mit.edu	37	chr10	72324139	72324139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgaaggcagcgaaagaggCgcaagaaatgcggaggctgc	13	2	18	8	4	0	2	0	0	0	2	0	5	0	3	0	5	3	3	0	5	4	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:72324139C>T	uc001jrd.3	+	19	2563	c.2282C>T	c.(2281-2283)GCG>GTG	p.A761V	KIAA1274_uc001jre.3_Missense_Mutation_p.A52V	NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	761										ovary(2)|central_nervous_system(1)	3						GCGAAAGAGGCGCAAGAAATG	0.617													39	131					0	0	0.010771	0	0		T	72324139	T	T	72324139	3	4	25	1	0	0	0	0	1	0	0	0	8236	768	27	1	2352	1	KIAA1274	10	72324139	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	8471747	72324139	63210608	599	21599											
CDH23	64072	broad.mit.edu	37	chr10	73453968	73453968	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatacatcctcatcgttcgCgcagtggacgggggtgtggg	7	9	16	9	4	1	0	1	0	0	0	4	2	2	1	1	4	1	2	1	4	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:73453968C>T	uc001jrx.3	+	20	2618	c.2241C>T	c.(2239-2241)CGC>CGT	p.R747R	CDH23_uc001jry.2_Silent_p.R363R|CDH23_uc001jrz.2_Silent_p.R363R	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	747	Cadherin 7.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						TCATCGTTCGCGCAGTGGACG	0.627													9	43					0	0	0.013537	0	0		T	73453968	T	T	73453968	2	4	25	1	0	0	0	0	0	0	0	1	3111	755	27	1		1	CDH23	10	73453968	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1129829	73453968	62080779	600	21600											
DLG5	9231	broad.mit.edu	37	chr10	79576781	79576781	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttacctctctcggagcccacGacactccgcggatatcttgg	7	10	9	15	4	2	0	0	0	2	0	5	3	3	2	3	3	2	0	3	3	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:79576781G>A	uc001jzk.2	-	19	3928	c.3858C>T	c.(3856-3858)GTC>GTT	p.V1286V	DLG5_uc001jzi.2_Silent_p.V41V|DLG5_uc001jzj.2_Silent_p.V701V|DLG5_uc009xru.1_RNA|DLG5_uc001jzl.3_Silent_p.V890V	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1286					cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			CGGAGCCCACGACACTCCGCG	0.493													27	94					0	0	0.007291	0	0		A	79576781	A	A	79576781	2	1	25	1	0	0	0	0	0	0	0	1	4564	1045	37	1		1	DLG5	10	79576781	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	6122813	79576781	55957966	601	21601											
POLR3A	11128	broad.mit.edu	37	chr10	79752975	79752975	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgatgttgtccagaacccTtttaaactccaaaggttcat	11	15	6	9	0	1	2	1	1	0	1	3	2	3	2	3	1	2	2	3	1	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:79752975T>C	uc001jzn.2	-	20	2861	c.2767A>G	c.(2767-2769)AGG>GGG	p.R923G		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	923					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			TCCAGAACCCTTTTAAACTCC	0.398													67	232					0	0	0.01441	0	0		C	79752975	C	C	79752975	3	2	25	1	0	0	0	0	1	0	0	0	12247	1608	56	3	1453	3	POLR3A	10	79752975	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	176194	79752975	55781772	602	21602											
MAT1A	4143	broad.mit.edu	37	chr10	82033576	82033576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaacctcccatgggaactcGcttcttccgaaatggccgta	9	9	10	13	3	1	0	0	0	1	0	4	3	3	2	4	3	2	2	4	3	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:82033576G>A	uc001kbw.2	-	9	1404	c.1149C>T	c.(1147-1149)AGC>AGT	p.S383S		NM_000429	NP_000420	Q00266	METK1_HUMAN	methionine adenosyltransferase I, alpha	383					methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0			Colorectal(32;0.229)		L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	ATGGGAACTCGCTTCTTCCGA	0.557													70	337					0	0	0.01441	0	0		A	82033576	A	A	82033576	2	1	25	1	0	0	0	0	0	0	0	1	9347	1078	38	1		1	MAT1A	10	82033576	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2280601	82033576	53501171	603	21603											
LDB3	11155	broad.mit.edu	37	chr10	88439846	88439846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtttctacagatcaaagCgtcccattcccatctccacg	9	11	6	15	2	3	1	1	0	2	1	6	1	5	1	3	1	2	1	3	1	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:88439846C>T	uc001kdv.2	+	3	276	c.253C>T	c.(253-255)CGT>TGT	p.R85C	LDB3_uc010qml.1_Missense_Mutation_p.R85C|LDB3_uc010qmm.1_Missense_Mutation_p.R85C|LDB3_uc001kdu.2_Missense_Mutation_p.R85C|LDB3_uc009xsz.2_5'UTR|LDB3_uc001kdr.2_Missense_Mutation_p.R85C|LDB3_uc009xsy.2_Missense_Mutation_p.R85C|LDB3_uc001kds.2_Missense_Mutation_p.R85C|LDB3_uc001kdt.2_RNA	NM_007078	NP_009009	O75112	LDB3_HUMAN	LIM domain binding 3 isoform 1	85						cytoskeleton|perinuclear region of cytoplasm|pseudopodium	zinc ion binding			ovary(1)	1						CAGATCAAAGCGTCCCATTCC	0.607													17	84					0	0	0.006122	0	0		T	88439846	T	T	88439846	3	4	25	1	0	0	0	0	1	0	0	0	8713	768	27	1	263	1	LDB3	10	88439846	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6406270	88439846	47094901	604	21604											
LIPA	3988	broad.mit.edu	37	chr10	91005477	91005477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaggaattcggttaaggCacagaatatatccatcttct	13	12	8	8	1	2	2	0	1	2	1	4	3	3	3	1	3	0	2	1	3	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:91005477C>T	uc001kga.3	-	3	353	c.185G>A	c.(184-186)TGC>TAC	p.C62Y	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|LIPA_uc009xtq.2_Missense_Mutation_p.C62Y	NM_000235	NP_000226	P38571	LICH_HUMAN	lipase A precursor	62					lipid catabolic process	lysosome	lipase activity|sterol esterase activity				0		Colorectal(252;0.0162)		GBM - Glioblastoma multiforme(2;0.00406)		TCGGTTAAGGCACAGAATATA	0.393													33	139					0	0	0.019004	0	0		T	91005477	T	T	91005477	3	4	25	1	0	0	0	0	1	0	0	0	8836	710	25	2	1046	2	LIPA	10	91005477	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2565631	91005477	44529270	605	21605											
IFIT1B	439996	broad.mit.edu	37	chr10	91143252	91143252	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaacctactagcctatgTgaaacacctgaaaggccaga	16	6	7	12	0	0	3	0	2	0	1	0	3	0	3	4	1	4	0	4	1	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:91143252T>C	uc001kgh.2	+	2	262	c.182T>C	c.(181-183)GTG>GCG	p.V61A	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron	NM_001010987	NP_001010987	Q5T764	IFT1B_HUMAN	interferon-induced protein with	61	TPR 1.|Potential.						binding				0						CTAGCCTATGTGAAACACCTG	0.428													30	143					0	0	0.010818	0	0		C	91143252	C	C	91143252	3	2	25	1	0	0	0	0	1	0	0	0	7538	1696	59	3	188	3	IFIT1B	10	91143252	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	137775	91143252	44391495	606	21606											
HTR7	3363	broad.mit.edu	37	chr10	92508866	92508866	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcgagaggaggaaaaatGgcagccagcacacggtaaag	15	4	14	8	2	0	1	0	0	0	1	1	4	0	3	1	4	2	3	1	4	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:92508866G>T	uc001kha.2	-	2	1268	c.1025C>A	c.(1024-1026)CCA>CAA	p.P342Q	HTR7_uc001kgz.2_Missense_Mutation_p.P342Q|HTR7_uc001khb.2_Missense_Mutation_p.P342Q	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	342	Helical; Name=6; (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	GAGGAAAAATGGCAGCCAGCA	0.537													18	86					2.70639e-06	2.79533e-06	0.014323	1	0		T	92508866	T	T	92508866	3	4	25	1	0	0	0	0	1	0	0	0	7468	1348	47	5	430	5	HTR7	10	92508866	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1365614	92508866	43025881	607	21607											
PPP1R3C	5507	broad.mit.edu	37	chr10	93389996	93389996	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaatggcaaatgagaaggtAtcactatctgtgccaccata	14	10	8	9	0	3	1	2	1	1	1	3	2	3	1	2	2	1	2	2	2	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:93389996A>T	uc001kho.2	-	2	774	c.642T>A	c.(640-642)GAT>GAA	p.D214E		NM_005398	NP_005389	Q9UQK1	PPR3C_HUMAN	protein phosphatase 1, regulatory (inhibitor)	214	Interaction with EPM2A.|CBM21.						protein serine/threonine phosphatase activity			breast(1)	1		Colorectal(252;0.235)				ATGAGAAGGTATCACTATCTG	0.403													34	178					0	0	0.021022	0	0		T	93389996	T	T	93389996	3	4	25	1	0	0	0	0	1	0	0	0	12395	446	16	5	315	5	PPP1R3C	10	93389996	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	881130	93389996	42144751	608	21608											
MARCH5	54708	broad.mit.edu	37	chr10	94109437	94109437	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcctctagggataggttGtcctgttcctcgaattccag	6	16	9	10	1	1	0	0	0	1	0	6	2	5	1	4	2	0	2	4	2	3	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:94109437G>T	uc001khx.1	+	5	895	c.563G>T	c.(562-564)TGT>TTT	p.C188F	MARCH5_uc010qno.1_Missense_Mutation_p.C84F	NM_017824	NP_060294	Q9NX47	MARH5_HUMAN	membrane-associated ring finger (C3HC4) 5	188					cell aging|protein autoubiquitination|protein localization in mitochondrion|protein polyubiquitination|regulation of mitochondrial fission	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane	GTPase binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1						GGGATAGGTTGTCCTGTTCCT	0.413													141	651					2.2589e-70	2.48138e-70	0.01441	1	0		T	94109437	T	T	94109437	3	4	25	1	0	0	0	0	1	0	0	0	9322	1377	48	5	581	5	MARCH5	10	94109437	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	719441	94109437	41425310	609	21609											
TBC1D12	23232	broad.mit.edu	37	chr10	96259980	96259980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctcctttaattctaggcGtagtacaagaagagttcgag	11	12	9	9	2	1	2	0	0	1	2	4	3	3	2	2	1	1	3	2	1	6	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:96259980G>A	uc001kjr.2	+	6	1600	c.1415G>A	c.(1414-1416)CGT>CAT	p.R472H		NM_015188	NP_056003	O60347	TBC12_HUMAN	TBC1 domain family, member 12	472						intracellular	Rab GTPase activator activity				0		Colorectal(252;0.0429)				AATTCTAGGCGTAGTACAAGA	0.393													12	55					0	0	0.00499	0	0		A	96259980	A	A	96259980	3	1	25	1	0	0	0	0	1	0	0	0	15626	1145	40	1	1437	1	TBC1D12	10	96259980	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2150543	96259980	39274767	610	21610											
HELLS	3070	broad.mit.edu	37	chr10	96333921	96333921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtgatgcgatggtaccaaGtagaaggcatggaatggctt	12	9	15	5	1	0	2	0	1	0	1	0	5	0	3	1	4	2	4	1	4	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:96333921G>A	uc001kjt.2	+	8	787	c.682G>A	c.(682-684)GTA>ATA	p.V228I	HELLS_uc001kjs.2_Missense_Mutation_p.V212I|HELLS_uc009xul.2_Missense_Mutation_p.V228I|HELLS_uc009xum.2_Missense_Mutation_p.V228I|HELLS_uc009xun.2_Missense_Mutation_p.V104I|HELLS_uc009xuo.2_Missense_Mutation_p.V228I|HELLS_uc001kju.2_5'UTR|HELLS_uc009xup.2_RNA|HELLS_uc009xuq.2_Missense_Mutation_p.V90I|HELLS_uc009xur.2_RNA	NM_018063	NP_060533	Q9NRZ9	HELLS_HUMAN	helicase, lymphoid-specific	228					cell division|centromeric heterochromatin formation|lymphocyte proliferation|maintenance of DNA methylation|methylation-dependent chromatin silencing|mitosis|transcription, DNA-dependent	centromeric heterochromatin|nucleus	ATP binding|DNA binding|helicase activity			ovary(1)|kidney(1)	2		Colorectal(252;0.0429)		all cancers(201;2.13e-05)		ATGGTACCAAGTAGAAGGCAT	0.388													33	182					0	0	0.015359	0	0		A	96333921	A	A	96333921	3	1	25	1	0	0	0	0	1	0	0	0	7062	1029	36	4	712	4	HELLS	10	96333921	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	73941	96333921	39200826	611	21611											
CYP2C19	1557	broad.mit.edu	37	chr10	96535238	96535238	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatggggaagaggagcatTgaggaccgtgttcaagagga	12	6	19	4	1	1	3	1	1	0	2	1	8	1	8	1	6	1	2	1	6	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:96535238T>C	uc010qnz.1	+	3	423	c.423T>C	c.(421-423)ATT>ATC	p.I141I	CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Silent_p.I119I	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	141					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	AGAGGAGCATTGAGGACCGTG	0.507													44	201					0	0	0.01441	0	0		C	96535238	C	C	96535238	2	2	25	1	0	0	0	0	0	0	0	1	4169	1800	63	3		3	CYP2C19	10	96535238	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	201317	96535238	38999509	612	21612											
SLIT1	6585	broad.mit.edu	37	chr10	98823348	98823348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccaggccaggtggcagtcGcaaaacaggtggttggagtg	10	6	17	8	1	0	0	0	0	0	0	1	1	0	1	2	6	2	3	2	6	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:98823348G>A	uc001kmw.2	-	8	909	c.657C>T	c.(655-657)TGC>TGT	p.C219C	SLIT1_uc009xvh.1_Silent_p.C219C	NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	219	LRRCT 1.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		GGTGGCAGTCGCAAAACAGGT	0.642													10	29					0	0	0.008291	0	0		A	98823348	A	A	98823348	2	1	25	1	0	0	0	0	0	0	0	1	14764	1079	38	1		1	SLIT1	10	98823348	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2288110	98823348	36711399	613	21613											
CRTAC1	55118	broad.mit.edu	37	chr10	99677361	99677361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttcaatgagggcatcagggCccacattaccgtaggcgtaa	11	9	11	10	2	2	1	2	1	0	0	2	1	2	1	2	3	1	3	2	3	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:99677361C>T	uc001kou.1	-	5	967	c.611G>A	c.(610-612)GGC>GAC	p.G204D	CRTAC1_uc001kov.2_Missense_Mutation_p.G193D|CRTAC1_uc001kot.1_5'UTR	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	204						proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		GGCATCAGGGCCCACATTACC	0.572													19	68					0	0	0.008871	0	0		T	99677361	T	T	99677361	3	4	25	1	0	0	0	0	1	0	0	0	3899	739	26	2	1418	2	CRTAC1	10	99677361	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	854013	99677361	35857386	614	21614											
LBX1	10660	broad.mit.edu	37	chr10	102988431	102988431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacagcgagtaacttctccGcacagacggcttgttgagga	10	8	12	11	3	1	2	0	1	1	1	2	4	1	3	1	2	2	5	1	2	1	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:102988431G>A	uc001ksx.2	-	1	287	c.142C>T	c.(142-144)CGG>TGG	p.R48W	uc010qpy.1_5'Flank	NM_006562	NP_006553	P52954	LBX1_HUMAN	ladybird homeobox 1	48				LTPFSIEDILNKPSVRRSYSLCGAAHLLAAADKHAQGGLP -> YAVQHRGHPQQAVRAEKLLAAWGGAPAGRRGQARAGRL A (in Ref. 1; CAA62342).	muscle organ development		sequence-specific DNA binding				0		Colorectal(252;0.234)		Epithelial(162;3.22e-09)|all cancers(201;1.79e-07)		TAACTTCTCCGCACAGACGGC	0.711													4	24					0	0	0.00308	0	0		A	102988431	A	A	102988431	3	1	25	1	0	0	0	0	1	0	0	0	8669	1086	38	1	711	1	LBX1	10	102988431	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3311070	102988431	32546316	615	21615											
GBF1	8729	broad.mit.edu	37	chr10	104018769	104018769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccatcaaacgaaatgcccGatggagcacccatacaccac	14	4	8	15	2	1	0	1	0	0	0	1	3	1	1	4	2	4	1	4	2	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:104018769G>A	uc001kux.1	+	2	314	c.74G>A	c.(73-75)CGA>CAA	p.R25Q	GBF1_uc001kuw.2_Missense_Mutation_p.R25Q|GBF1_uc001kuy.1_Missense_Mutation_p.R25Q|GBF1_uc001kuz.1_Missense_Mutation_p.R25Q	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	25					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CGAAATGCCCGATGGAGCACC	0.413													56	167					0	0	0.01441	0	0		A	104018769	A	A	104018769	3	1	25	1	0	0	0	0	1	0	0	0	6286	1058	37	1	76	1	GBF1	10	104018769	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1030338	104018769	31515978	616	21616											
NT5C2	22978	broad.mit.edu	37	chr10	104934693	104934693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctgctgcattctgtaacCgatcactccaggaggttgac	9	12	9	11	1	3	1	1	1	2	0	4	3	4	2	2	2	3	4	2	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:104934693C>T	uc001kwo.2	-	3	209	c.23G>A	c.(22-24)CGG>CAG	p.R8Q	NT5C2_uc001kwq.2_Missense_Mutation_p.R8Q|NT5C2_uc001kwp.2_Intron	NM_012229	NP_036361	P49902	5NTC_HUMAN	5'-nucleotidase, cytosolic II	8					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|metal ion binding|nucleotide binding|protein binding				0		all_hematologic(284;0.176)|Colorectal(252;0.178)		Epithelial(162;1.33e-08)|all cancers(201;1.04e-07)|BRCA - Breast invasive adenocarcinoma(275;0.159)	Adenosine triphosphate(DB00171)|Ribavirin(DB00811)	ATTCTGTAACCGATCACTCCA	0.338													52	284					0	0	0.01441	0	0		T	104934693	T	T	104934693	3	4	25	1	0	0	0	0	1	0	0	0	10706	652	23	1	1730	1	NT5C2	10	104934693	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	915924	104934693	30600054	617	21617											
PDCD11	22984	broad.mit.edu	37	chr10	105178356	105178356	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaggtgacatccttcacCgagtcctgtgtctgagccag	8	9	12	12	1	2	2	1	2	1	0	4	3	4	2	4	2	1	1	4	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:105178356C>T	uc001kwy.1	+	15	2158	c.2071C>T	c.(2071-2073)CGA>TGA	p.R691*		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	691	S1 motif 7.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		CATCCTTCACCGAGTCCTGTG	0.567													18	93					0	0	0.008871	0	0		T	105178356	T	T	105178356	4	4	25	1	0	0	0	0	0	1	0	0	11636	644	23	1	2125	1	PDCD11	10	105178356	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	243663	105178356	30356391	618	21618											
COL17A1	1308	broad.mit.edu	37	chr10	105816869	105816869	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaagggccgccgccagcGccaccaacaccgccacctcc	8	1	8	24	4	0	0	0	0	0	0	1	0	1	0	11	1	2	0	11	1	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:105816869G>A	uc001kxr.2	-	17	1498	c.1329C>T	c.(1327-1329)GGC>GGT	p.G443G	COL17A1_uc010qqv.1_Silent_p.G427G	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	443	Cytoplasmic (Potential).|Nonhelical region (NC16).				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		cgccgccagcgccaccaacac	0.463													24	85					0	0	0.01892	0	0		A	105816869	A	A	105816869	2	1	25	1	0	0	0	0	0	0	0	1	3677	1074	38	1		1	COL17A1	10	105816869	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	638513	105816869	29717878	619	21619											
ABLIM1	3983	broad.mit.edu	37	chr10	116232891	116232891	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatctcattgtctacttttgCctggcaaagttaaccagaaa	12	13	7	9	0	2	1	1	0	2	1	3	2	2	1	2	1	3	2	2	1	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:116232891C>T	uc010qsg.1	-	10	1219	c.1120G>A	c.(1120-1122)GCA>ACA	p.A374T	ABLIM1_uc010qsh.1_Missense_Mutation_p.A342T|ABLIM1_uc010qsi.1_Missense_Mutation_p.A314T|ABLIM1_uc010qsk.1_Missense_Mutation_p.A298T|ABLIM1_uc009xyp.2_Missense_Mutation_p.A336T|ABLIM1_uc010qsf.1_Missense_Mutation_p.A86T|ABLIM1_uc009xyn.2_Missense_Mutation_p.A25T|ABLIM1_uc010qsj.1_Missense_Mutation_p.A51T|ABLIM1_uc009xyo.2_Missense_Mutation_p.A222T	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	374					axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		TCTACTTTTGCCTGGCAAAGT	0.393													43	160					0	0	0.00874	0	0		T	116232891	T	T	116232891	3	4	25	1	0	0	0	0	1	0	0	0	94	753	26	2	1268	2	ABLIM1	10	116232891	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	10416022	116232891	19301856	620	21620											
GFRA1	2674	broad.mit.edu	37	chr10	118030416	118030416	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgcttgcagcggcagttgtaGagcgacttctgcttcagggc	6	10	14	11	3	2	1	1	0	1	1	2	2	2	1	0	2	4	6	0	2	1	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:118030416G>A	uc001lcj.2	-	3	950	c.252C>T	c.(250-252)CTC>CTT	p.L84L	GFRA1_uc001lci.2_Silent_p.L84L|GFRA1_uc009xyr.2_Silent_p.L84L	NM_005264	NP_005255	P56159	GFRA1_HUMAN	GDNF family receptor alpha 1 isoform a	84	1.				axon guidance	anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity			ovary(1)|pancreas(1)	2		Lung NSC(174;0.21)		all cancers(201;0.0337)		GGCAGTTGTAGAGCGACTTCT	0.612													15	64					0	0	0.00499	0	0		A	118030416	A	A	118030416	2	1	25	1	0	0	0	0	0	0	0	1	6362	929	33	4		4	GFRA1	10	118030416	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1797525	118030416	17504331	621	21621											
PNLIP	5406	broad.mit.edu	37	chr10	118313341	118313341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccaatgggaccattggaCgcatcacaggttggtgaaaa	14	7	12	8	1	1	1	1	1	0	0	1	4	1	3	2	4	1	2	2	4	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:118313341C>T	uc001lcm.2	+	6	605	c.562C>T	c.(562-564)CGC>TGC	p.R188C		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	188					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	GACCATTGGACGCATCACAGG	0.373													13	57					0	0	0.016723	0	0		T	118313341	T	T	118313341	3	4	25	1	0	0	0	0	1	0	0	0	12168	536	19	1	580	1	PNLIP	10	118313341	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	282925	118313341	17221406	622	21622											
BAG3	9531	broad.mit.edu	37	chr10	121429560	121429560	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcgattccgaactgaggcGgcagcagcggctcctcagag	9	5	14	13	4	1	2	1	1	0	1	3	4	3	2	2	3	4	3	2	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:121429560G>A	uc001lem.2	+	2	684	c.378G>A	c.(376-378)GCG>GCA	p.A126A	BAG3_uc001lel.2_Silent_p.A126A	NM_004281	NP_004272	O95817	BAG3_HUMAN	BCL2-associated athanogene 3	126	WW 2.				anti-apoptosis|apoptosis|protein folding	cytosol				ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)		GAACTGAGGCGGCAGCAGCGG	0.617													37	152					0	0	0.011902	0	0		A	121429560	A	A	121429560	2	1	25	1	0	0	0	0	0	0	0	1	1289	1103	39	1		1	BAG3	10	121429560	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3116219	121429560	14105187	623	21623											
ACADSB	36	broad.mit.edu	37	chr10	124810661	124810661	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttagaagctggaaagccaTtcataaaagaagcgtcaatg	16	10	9	6	1	2	2	2	0	0	2	2	3	2	3	1	1	3	1	1	1	7	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:124810661T>C	uc001lhb.2	+	9	1204	c.1087T>C	c.(1087-1089)TTC>CTC	p.F363L	ACADSB_uc010qub.1_Missense_Mutation_p.F261L	NM_001609	NP_001600	P45954	ACDSB_HUMAN	acyl-Coenzyme A dehydrogenase, short/branched	363					branched chain family amino acid catabolic process|fatty acid metabolic process	mitochondrial matrix	flavin adenine dinucleotide binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.0811)|COAD - Colon adenocarcinoma(40;0.0835)	L-Isoleucine(DB00167)	TGGAAAGCCATTCATAAAAGA	0.378													8	34					0	0	0.00308	0	0		C	124810661	C	C	124810661	3	2	25	1	0	0	0	0	1	0	0	0	115	1493	52	3	1121	3	ACADSB	10	124810661	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	3381101	124810661	10724086	624	21624											
HMX2	3167	broad.mit.edu	37	chr10	124909353	124909353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctgagcagctcggagcGcgcctgcctcgcctccagcc	5	6	11	19	4	0	1	0	1	0	0	3	2	1	2	6	1	6	2	6	1	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:124909353G>A	uc001lhc.1	+	2	793	c.536G>A	c.(535-537)CGC>CAC	p.R179H		NM_005519	NP_005510	A2RU54	HMX2_HUMAN	H6 family homeobox 2	179	Homeobox.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_neural(114;0.169)|Colorectal(57;0.207)|Glioma(114;0.222)		Colorectal(40;0.123)|COAD - Colon adenocarcinoma(40;0.141)		AGCTCGGAGCGCGCCTGCCTC	0.637													12	39					0	0	0.016723	0	0		A	124909353	A	A	124909353	3	1	25	1	0	0	0	0	1	0	0	0	7263	1087	38	1	542	1	HMX2	10	124909353	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	98692	124909353	10625394	625	21625											
DOCK1	1793	broad.mit.edu	37	chr10	128851016	128851016	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtaaatgagcagctgtacaAagccatgaaagcgctagaat	17	7	10	7	1	0	3	0	2	0	1	0	3	0	3	1	0	5	5	1	0	7	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:128851016A>C	uc001ljt.2	+	22	2274	c.2210A>C	c.(2209-2211)AAA>ACA	p.K737T	DOCK1_uc010qun.1_Missense_Mutation_p.K758T	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	737					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		CAGCTGTACAAAGCCATGAAA	0.488													21	75					0	0	0.01892	0	0		C	128851016	C	C	128851016	3	2	25	1	0	0	0	0	1	0	0	0	4690	14	1	5	2296	5	DOCK1	10	128851016	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	3941663	128851016	6683731	626	21626											
PTPRE	5791	broad.mit.edu	37	chr10	129845712	129845712	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctgctactgccgctgctGctcctcctcctcgtgctcct	1	13	9	18	2	0	0	0	0	0	0	5	0	4	0	5	1	6	6	5	1	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:129845712G>C	uc001lkb.2	+	4	447	c.168G>C	c.(166-168)CTG>CTC	p.L56L	PTPRE_uc009yat.2_Silent_p.L67L|PTPRE_uc010qup.1_RNA|PTPRE_uc009yau.2_Silent_p.L56L|PTPRE_uc001lkc.1_RNA|PTPRE_uc001lkd.2_5'Flank|PTPRE_uc010quq.1_5'Flank	NM_006504	NP_006495	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E	56	Helical; (Potential).				negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)				TGCCGCTGCTGCTCCTCCTCC	0.642													15	40					0	0	0.010504	0	0		C	129845712	C	C	129845712	2	2	25	1	0	0	0	0	0	0	0	1	12825	1306	46	5		5	PTPRE	10	129845712	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	994696	129845712	5689035	627	21627											
DPYSL4	10570	broad.mit.edu	37	chr10	134004293	134004293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgggaggatcgtgaatgacGaccagtccttttacgctgat	9	11	13	8	3	0	3	0	3	0	0	2	6	1	5	2	2	1	1	2	2	2	2	rs149476256		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:134004293G>A	uc009ybb.2	+	2	236	c.82G>A	c.(82-84)GAC>AAC	p.D28N		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	28					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		CGTGAATGACGACCAGTCCTT	0.463													14	72					0	0	0.016723	0	0		A	134004293	A	A	134004293	3	1	25	1	0	0	0	0	1	0	0	0	4755	1058	37	1	88	1	DPYSL4	10	134004293	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4158581	134004293	1530454	628	21628											
KNDC1	85442	broad.mit.edu	37	chr10	134999950	134999950	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatgcaggctgtggccggaGcaggagccggaacaccagct	11	4	15	11	2	0	0	0	0	0	0	0	3	0	3	3	5	5	4	3	5	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr10:134999950G>A	uc001llz.1	+	6	1099	c.1098G>A	c.(1096-1098)GAG>GAA	p.E366E	KNDC1_uc001lma.1_Silent_p.E301E	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	366					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		TGTGGCCGGAGCAGGAGCCGG	0.627													14	39					0	0	0.003163	0	0		A	134999950	A	A	134999950	2	1	25	1	0	0	0	0	0	0	0	1	8442	962	34	2		2	KNDC1	10	134999950	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	995657	134999950	534797	629	21629											
C11orf35	256329	broad.mit.edu	37	chr11	558939	558939	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcgggggctgcaggtgcGcctgctggaggtcccaggtg	3	8	19	11	2	1	0	0	0	1	0	3	1	2	1	2	6	3	3	2	6	0	0	rs114586011	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:558939G>A	uc001lpx.2	-	2	138	c.75C>T	c.(73-75)GGC>GGT	p.G25G	uc001lpy.2_RNA|uc001lpz.2_5'Flank|RASSF7_uc001lqa.2_5'Flank|RASSF7_uc001lqb.2_5'Flank|RASSF7_uc001lqc.2_5'Flank|RASSF7_uc001lqd.2_5'Flank	NM_173573	NP_775844	Q8IXW0	CK035_HUMAN	hypothetical protein LOC256329	25										pancreas(1)	1		all_cancers(49;2.16e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;7.18e-28)|Epithelial(43;6.93e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.97e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CTGCAGGTGCGCCTGCTGGAG	0.667													13	64					0	0	0.020292	0	0		A	558939	A	A	558939	2	1	25	1	0	0	0	0	0	0	0	1	1641	1074	38	1		1	C11orf35	11	558939	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08		558939	134447577	630	21630											
PHRF1	57661	broad.mit.edu	37	chr11	609248	609248	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctggattatggcgactcCgtggaggccggacacgtctt	7	9	14	11	4	1	0	0	0	1	0	2	5	2	3	3	5	0	0	3	5	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:609248C>T	uc001lqe.2	+	14	3923	c.3792C>T	c.(3790-3792)TCC>TCT	p.S1264S	PHRF1_uc010qwc.1_Silent_p.S1263S|PHRF1_uc010qwd.1_Silent_p.S1262S|PHRF1_uc010qwe.1_Silent_p.S1260S|PHRF1_uc009ybz.1_Silent_p.S1054S|PHRF1_uc009yca.1_RNA	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	1264							RNA polymerase binding|zinc ion binding				0						ATGGCGACTCCGTGGAGGCCG	0.607													18	101					0	0	0.021523	0	0		T	609248	T	T	609248	2	4	25	1	0	0	0	0	0	0	0	1	11880	639	23	1		1	PHRF1	11	609248	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	50309	609248	134397268	631	21631											
AP2A2	161	broad.mit.edu	37	chr11	993321	993321	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgccacgagaacctggtcaAagtgggcggctacatcctgg	9	7	14	11	2	1	1	1	0	0	1	2	2	2	1	3	4	3	1	3	4	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:993321A>G	uc001lss.2	+	12	1671	c.1490A>G	c.(1489-1491)AAA>AGA	p.K497R	AP2A2_uc001lst.1_Missense_Mutation_p.K498R|AP2A2_uc009yco.1_RNA|AP2A2_uc009ycq.1_Missense_Mutation_p.K88R	NM_012305	NP_036437	O94973	AP2A2_HUMAN	adaptor-related protein complex 2, alpha 2	497					axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	lipid binding|protein transporter activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.75e-24)|BRCA - Breast invasive adenocarcinoma(625;5.73e-05)|Lung(200;0.0696)|LUSC - Lung squamous cell carcinoma(625;0.082)		AACCTGGTCAAAGTGGGCGGC	0.627													8	45					0	0	0.00308	0	0		G	993321	G	G	993321	3	3	25	1	0	0	0	0	1	0	0	0	740	14	1	3	1536	3	AP2A2	11	993321	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	384073	993321	134013195	632	21632											
MUC6	4588	broad.mit.edu	37	chr11	1018685	1018685	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctggctgtggggtggtTgggcctgtggtgcttgctgg	0	14	20	7	0	0	0	0	0	0	0	1	0	1	0	2	7	2	4	2	7	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:1018685T>C	uc001lsw.2	-	31	4167	c.4116A>G	c.(4114-4116)CCA>CCG	p.P1372P		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1372	Pro-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GTGGGGTGGTTGGGCCTGTGG	0.582													70	234					0	0	0.01441	0	0		C	1018685	C	C	1018685	2	2	25	1	0	0	0	0	0	0	0	1	9998	1799	63	3		3	MUC6	11	1018685	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	25364	1018685	133987831	633	21633											
MUC5B	727897	broad.mit.edu	37	chr11	1250991	1250991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgcacccacggcggcCgcacctacagcccgggcacc	6	2	11	22	4	0	0	0	0	0	0	0	0	0	0	7	3	3	3	7	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:1250991C>T	uc009ycr.1	+	26	3277	c.3151C>T	c.(3151-3153)CGC>TGC	p.R1051C	MUC5B_uc009yct.1_Missense_Mutation_p.R392C|MUC5B_uc001ltb.2_Missense_Mutation_p.R395C|MUC5B_uc001lta.2_Missense_Mutation_p.R60C	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	392				RT -> TR (in Ref. 2; AAC67545).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCACGGCGGCCGCACCTACAG	0.697													3	8					0	0	0.009096	0	0		T	1250991	T	T	1250991	3	4	25	1	0	0	0	0	1	0	0	0	9997	652	23	1	1221	1	MUC5B	11	1250991	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	232306	1250991	133755525	634	21634											
MRGPRE	116534	broad.mit.edu	37	chr11	3249826	3249826	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaaggaagatgagatcCgcgcaggccacgtccaggag	12	3	14	12	3	0	2	0	1	0	2	2	5	2	4	4	3	1	1	4	3	2	0	rs34568544		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:3249826C>T	uc001lxq.3	-	2	511	c.201G>A	c.(199-201)GCG>GCA	p.A67A		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	67	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		Medulloblastoma(188;0.00106)|all_epithelial(84;0.00111)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00529)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGATGAGATCCGCGCAGGCCA	0.642													11	164					0	0	0.010729	0	0		T	3249826	T	T	3249826	2	4	25	1	0	0	0	0	0	0	0	1	9782	639	23	1		1	MRGPRE	11	3249826	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1998835	3249826	131756690	635	21635											
ZNF195	7748	broad.mit.edu	37	chr11	3392215	3392215	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccacccacctggatgtccGtctgctgcctcctgtctctt	3	13	7	18	1	2	0	0	0	2	0	6	1	5	1	6	1	2	1	6	1	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:3392215G>A	uc001lxt.2	-	3	394	c.216C>T	c.(214-216)GAC>GAT	p.D72D	ZNF195_uc001lxv.2_Silent_p.D72D|ZNF195_uc001lxs.2_Silent_p.D72D|ZNF195_uc010qxr.1_Silent_p.D76D|ZNF195_uc009ydz.2_Silent_p.D76D|ZNF195_uc001lxu.2_Silent_p.D76D	NM_001130520	NP_001123992	O14628	ZN195_HUMAN	zinc finger protein 195 isoform 1	72	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Medulloblastoma(188;0.00106)|Breast(177;0.00328)|all_neural(188;0.00681)|Ovarian(85;0.00965)		BRCA - Breast invasive adenocarcinoma(625;0.0361)|LUSC - Lung squamous cell carcinoma(625;0.2)		CTGGATGTCCGTCTGCTGCCT	0.522													96	469					0	0	0.01441	0	0		A	3392215	A	A	3392215	2	1	25	1	0	0	0	0	0	0	0	1	17783	1136	40	1		1	ZNF195	11	3392215	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	142389	3392215	131614301	636	21636											
OR56A3	390083	broad.mit.edu	37	chr11	5969078	5969078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcccatccccatcctttcaGcacaactccgttattgtgga	8	12	6	15	1	1	0	1	0	0	0	4	1	4	1	5	1	3	2	5	1	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:5969078G>A	uc010qzt.1	+	1	502	c.502G>A	c.(502-504)GCA>ACA	p.A168T		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CATCCTTTCAGCACAACTCCG	0.433													41	147					0	0	0.011902	0	0		A	5969078	A	A	5969078	3	1	25	1	0	0	0	0	1	0	0	0	11153	971	34	2	504	2	OR56A3	11	5969078	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2576863	5969078	129037438	637	21637											
TRIM3	10612	broad.mit.edu	37	chr11	6477741	6477741	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccgcgcactggctgtccGtagagcagcaccgagaggag	8	5	15	13	4	0	2	0	0	0	2	1	4	1	3	3	2	3	5	3	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:6477741G>A	uc001mdh.2	-	7	1602	c.1215C>T	c.(1213-1215)TAC>TAT	p.Y405Y	TRIM3_uc001mdi.2_Silent_p.Y405Y|TRIM3_uc010raj.1_Silent_p.Y286Y|TRIM3_uc009yfd.2_Silent_p.Y405Y|TRIM3_uc010rak.1_Silent_p.Y405Y|TRIM3_uc001mdj.2_Silent_p.Y286Y	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	405	Filamin.				nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding			central_nervous_system(2)|large_intestine(1)|ovary(1)|skin(1)	5		all_lung(207;9.97e-06)|Lung NSC(207;1.74e-05)|Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;9.34e-10)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.133)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTGGCTGTCCGTAGAGCAGCA	0.667													6	19					0	0	0.00308	0	0		A	6477741	A	A	6477741	2	1	25	1	0	0	0	0	0	0	0	1	16530	1140	40	1		1	TRIM3	11	6477741	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	508663	6477741	128528775	638	21638											
DNHD1	144132	broad.mit.edu	37	chr11	6532612	6532612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagaagcataaggctctaCggctgctccatcgttgccta	10	9	11	11	2	1	1	0	0	1	1	3	2	2	1	2	3	4	5	2	3	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:6532612C>T	uc001mdw.3	+	7	1909	c.1345C>T	c.(1345-1347)CGG>TGG	p.R449W	DNHD1_uc001mdp.2_Missense_Mutation_p.R449W|DNHD1_uc001mdq.2_Missense_Mutation_p.R138W	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	449					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		TAAGGCTCTACGGCTGCTCCA	0.547													31	128					0	0	0.007835	0	0		T	6532612	T	T	6532612	3	4	25	1	0	0	0	0	1	0	0	0	4674	527	19	1	1363	1	DNHD1	11	6532612	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	54871	6532612	128473904	639	21639											
TUB	7275	broad.mit.edu	37	chr11	8122081	8122081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttaggcttcaaggggcctcGgaagatgagcgtgattgtcc	8	10	14	9	2	1	3	1	2	0	1	3	4	2	4	2	4	1	1	2	4	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:8122081G>A	uc001mga.2	+	10	1297	c.1148G>A	c.(1147-1149)CGG>CAG	p.R383Q	TUB_uc010rbk.1_Missense_Mutation_p.R389Q|TUB_uc001mfy.2_Missense_Mutation_p.R438Q	NM_177972	NP_813977	P50607	TUB_HUMAN	tubby isoform b	383					phagocytosis|positive regulation of phagocytosis|response to stimulus	cytoplasm|extracellular region|nucleus|plasma membrane				ovary(1)	1		all_lung(207;6.91e-20)|Lung NSC(207;3.36e-17)		Epithelial(150;1.69e-62)|BRCA - Breast invasive adenocarcinoma(625;8.54e-06)|LUSC - Lung squamous cell carcinoma(625;0.000184)		AAGGGGCCTCGGAAGATGAGC	0.567													23	60					0	0	0.00632	0	0		A	8122081	A	A	8122081	3	1	25	1	0	0	0	0	1	0	0	0	16768	1116	39	1	1397	1	TUB	11	8122081	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1589469	8122081	126884435	640	21640											
TUB	7275	broad.mit.edu	37	chr11	8123105	8123105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattacaactacccgctgtGtgcactgcaggcctttgcca	8	10	10	13	1	0	0	0	0	0	0	0	1	0	1	3	2	6	3	3	2	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:8123105G>A	uc001mga.2	+	12	1609	c.1460G>A	c.(1459-1461)TGT>TAT	p.C487Y	TUB_uc010rbk.1_Missense_Mutation_p.C493Y|TUB_uc001mfy.2_Missense_Mutation_p.C542Y	NM_177972	NP_813977	P50607	TUB_HUMAN	tubby isoform b	487					phagocytosis|positive regulation of phagocytosis|response to stimulus	cytoplasm|extracellular region|nucleus|plasma membrane				ovary(1)	1		all_lung(207;6.91e-20)|Lung NSC(207;3.36e-17)		Epithelial(150;1.69e-62)|BRCA - Breast invasive adenocarcinoma(625;8.54e-06)|LUSC - Lung squamous cell carcinoma(625;0.000184)		TACCCGCTGTGTGCACTGCAG	0.597													33	138					0	0	0.012213	0	0		A	8123105	A	A	8123105	3	1	25	1	0	0	0	0	1	0	0	0	16768	1377	48	4	1717	4	TUB	11	8123105	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1024	8123105	126883411	641	21641											
NRIP3	56675	broad.mit.edu	37	chr11	9007341	9007341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccactactttgagatgcCggggtagagaaagcttttct	9	11	12	9	1	1	2	0	1	1	2	1	4	1	2	2	3	3	2	2	3	3	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:9007341C>T	uc001mhg.2	-	4	593	c.479G>A	c.(478-480)CGG>CAG	p.R160Q	NRIP3_uc010rbu.1_Intron	NM_020645	NP_065696	Q9NQ35	NRIP3_HUMAN	nuclear receptor interacting protein 3	160					proteolysis		aspartic-type endopeptidase activity				0				Epithelial(150;4.77e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0241)		TTTGAGATGCCGGGGTAGAGA	0.512													40	252					0	0	0.00874	0	0		T	9007341	T	T	9007341	3	4	25	1	0	0	0	0	1	0	0	0	10673	652	23	1	262	1	NRIP3	11	9007341	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	884236	9007341	125999175	642	21642											
SBF2	81846	broad.mit.edu	37	chr11	10050062	10050062	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagactatcatgtaaaggagTctggatcaactgtctatctc	13	12	8	8	0	5	1	2	0	3	1	6	3	5	3	0	2	1	1	0	2	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:10050062T>C	uc001mib.2	-	6	694	c.556A>G	c.(556-558)ACT>GCT	p.T186A	SBF2_uc001mif.3_5'UTR|SBF2_uc001mij.2_RNA	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	186	DENN.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		TGTAAAGGAGTCTGGATCAAC	0.423													4	184					0	0	0.009096	0	0		C	10050062	C	C	10050062	3	2	25	1	0	0	0	0	1	0	0	0	13884	1667	58	3	5133	3	SBF2	11	10050062	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	1042721	10050062	124956454	643	21643											
GALNTL4	374378	broad.mit.edu	37	chr11	11470334	11470334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggccggtccaggggcaggcGgtcgctgaggtaggcgttgt	4	7	21	9	4	0	1	0	1	0	0	2	1	1	1	2	8	0	4	2	8	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:11470334G>A	uc001mjo.2	-	2	806	c.385C>T	c.(385-387)CGC>TGC	p.R129C		NM_198516	NP_940918	Q6P9A2	GLTL4_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	129	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)		AGGGGCAGGCGGTCGCTGAGG	0.657													11	14					0	0	0.020292	0	0		A	11470334	A	A	11470334	3	1	25	1	0	0	0	0	1	0	0	0	6238	1116	39	1	1478	1	GALNTL4	11	11470334	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1420272	11470334	123536182	644	21644											
MICAL2	9645	broad.mit.edu	37	chr11	12225908	12225908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccttctcccggaacaacGtgctacacctctggcctttc	7	11	6	17	2	2	0	0	0	2	0	5	1	3	1	4	2	4	1	4	2	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:12225908G>A	uc001mjz.2	+	4	664	c.376G>A	c.(376-378)GTG>ATG	p.V126M	MICAL2_uc010rch.1_Missense_Mutation_p.V126M|MICAL2_uc001mjy.2_Missense_Mutation_p.V126M|MICAL2_uc001mka.2_Missense_Mutation_p.V126M|MICAL2_uc010rci.1_Missense_Mutation_p.V126M|MICAL2_uc001mkb.2_Missense_Mutation_p.V126M|MICAL2_uc001mkc.2_Missense_Mutation_p.V126M	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	126						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		CCGGAACAACGTGCTACACCT	0.567													41	147					0	0	0.006999	0	0		A	12225908	A	A	12225908	3	1	25	1	0	0	0	0	1	0	0	0	9588	1145	40	1	382	1	MICAL2	11	12225908	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	755574	12225908	122780608	645	21645											
MRGPRX2	117194	broad.mit.edu	37	chr11	19077199	19077199	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaataagacatcagaatcctTccagatccataatattagga	18	10	5	8	0	1	3	1	0	0	3	4	4	4	4	3	1	0	0	3	1	6	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:19077199T>C	uc001mph.2	-	2	839	c.751A>G	c.(751-753)AAG>GAG	p.K251E		NM_054030	NP_473371	Q96LB1	MRGX2_HUMAN	MAS-related GPR, member X2	251	Extracellular (Potential).				sensory perception of pain|sleep	plasma membrane	G-protein coupled receptor activity|neuropeptide binding			ovary(1)	1						TCAGAATCCTTCCAGATCCAT	0.478													30	132					0	0	0.007291	0	0		C	19077199	C	C	19077199	3	2	25	1	0	0	0	0	1	0	0	0	9785	1792	62	3	245	3	MRGPRX2	11	19077199	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	6851291	19077199	115929317	646	21646											
WT1	7490	broad.mit.edu	37	chr11	32450131	32450131	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgagggcgtgtgaccgtaGctgggcgtcccgtcgaaggt	5	8	18	10	6	0	1	0	1	0	0	2	3	1	1	2	3	2	2	2	3	2	1	rs9332974		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:32450131G>A	uc001mtn.1	-	2	877	c.681C>T	c.(679-681)AGC>AGT	p.S227S	WT1_uc001mtl.1_Silent_p.S15S|WT1_uc001mtm.1_Silent_p.S15S|WT1_uc001mto.1_Silent_p.S227S|WT1_uc001mtp.1_Silent_p.S227S|WT1_uc001mtq.1_Silent_p.S227S|WT1_uc009yjs.1_RNA	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D	159					adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding		EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			TGTGACCGTAGCTGGGCGTCC	0.652			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				20	80					0	0	0.007413	0	0		A	32450131	A	A	32450131	2	1	25	1	0	0	0	0	0	0	0	1	17434	962	34	2		2	WT1	11	32450131	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	13372932	32450131	102556385	647	21647											
DEPDC7	91614	broad.mit.edu	37	chr11	33047274	33047274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcataaacactcttcaaaCacaagtggaagtgaaaaaac	20	7	5	9	0	3	1	2	1	1	0	3	2	3	2	0	1	3	0	0	1	8	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:33047274C>T	uc001mub.2	+	2	235	c.143C>T	c.(142-144)ACA>ATA	p.T48I	DEPDC7_uc010reg.1_Missense_Mutation_p.T48I|DEPDC7_uc010reh.1_Missense_Mutation_p.T48I|DEPDC7_uc001muc.2_Missense_Mutation_p.T39I	NM_001077242	NP_001070710	Q96QD5	DEPD7_HUMAN	novel 58.3 KDA protein isoform 1	48	DEP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|skin(1)	2						ACTCTTCAAACACAAGTGGAA	0.408													58	226					0	0	0.01441	0	0		T	33047274	T	T	33047274	3	4	25	1	0	0	0	0	1	0	0	0	4450	478	17	4	199	4	DEPDC7	11	33047274	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	597143	33047274	101959242	648	21648											
HIPK3	10114	broad.mit.edu	37	chr11	33308378	33308378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttggataatcatagcagcGcaatgcagattgtcgatgaa	14	10	11	6	2	1	2	1	1	0	1	2	4	1	3	0	1	3	4	0	1	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:33308378G>A	uc001mul.1	+	2	688	c.418G>A	c.(418-420)GCA>ACA	p.A140T	HIPK3_uc001mum.1_Missense_Mutation_p.A140T|HIPK3_uc009yjv.1_Missense_Mutation_p.A140T	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	140					anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						TCATAGCAGCGCAATGCAGAT	0.478													32	114					0	0	0.010818	0	0		A	33308378	A	A	33308378	3	1	25	1	0	0	0	0	1	0	0	0	7134	1087	38	1	420	1	HIPK3	11	33308378	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	261104	33308378	101698138	649	21649											
PAMR1	25891	broad.mit.edu	37	chr11	35456181	35456181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagtaacacagtgggcaGccaccaccacagtgcgctca	11	5	11	14	1	2	0	2	0	0	0	2	0	2	0	3	2	3	3	3	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:35456181G>A	uc001mwg.2	-	10	1548	c.1505C>T	c.(1504-1506)GCT>GTT	p.A502V	PAMR1_uc001mwf.2_Missense_Mutation_p.A519V|PAMR1_uc010rew.1_Missense_Mutation_p.A391V|PAMR1_uc010rex.1_Missense_Mutation_p.A462V	NM_001001991	NP_001001991	Q6UXH9	PAMR1_HUMAN	regeneration associated muscle protease isoform	502	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						ACAGTGGGCAGCCACCACCAC	0.572													44	132					0	0	0.010771	0	0		A	35456181	A	A	35456181	3	1	25	1	0	0	0	0	1	0	0	0	11432	971	34	2	665	2	PAMR1	11	35456181	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2147803	35456181	99550335	650	21650											
RAG1	5896	broad.mit.edu	37	chr11	36596082	36596082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggagagctcagaagcacCggctgagggagctcaagctg	10	5	15	11	2	2	3	2	1	0	2	3	5	2	4	1	3	4	5	1	3	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:36596082C>T	uc001mwu.3	+	2	1352	c.1228C>T	c.(1228-1230)CGG>TGG	p.R410W	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	410	NBD.		R -> Q (in OS/T(-)B(-)NK(+) SCID; atypical).		histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				TCAGAAGCACCGGCTGAGGGA	0.517									Familial_Hemophagocytic_Lymphohistiocytosis				36	131					0	0	0.006999	0	0		T	36596082	T	T	36596082	3	4	25	1	0	0	0	0	1	0	0	0	13028	643	23	1	1230	1	RAG1	11	36596082	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1139901	36596082	98410434	651	21651											
LRRC4C	57689	broad.mit.edu	37	chr11	40137608	40137608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatggaggttcagcagccGtgtgttggtggagatgccat	7	11	15	8	1	2	1	2	0	0	1	2	3	2	2	2	4	3	3	2	4	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:40137608G>A	uc001mxa.1	-	2	2199	c.235C>T	c.(235-237)CGG>TGG	p.R79W	LRRC4C_uc001mxc.1_Missense_Mutation_p.R75W|LRRC4C_uc001mxd.1_Missense_Mutation_p.R75W|LRRC4C_uc001mxb.1_Missense_Mutation_p.R75W	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	79	LRR 1.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				TTCAGCAGCCGTGTGTTGGTG	0.493													18	113					0	0	0.007413	0	0		A	40137608	A	A	40137608	3	1	25	1	0	0	0	0	1	0	0	0	9026	1144	40	1	1691	1	LRRC4C	11	40137608	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3541526	40137608	94868908	652	21652											
SYT13	57586	broad.mit.edu	37	chr11	45273978	45273978	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggttaccctaccttcgcTgaagtcttcagctcgcccca	7	10	9	15	2	2	1	1	1	1	0	4	1	2	1	4	2	3	3	4	2	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:45273978T>G	uc001myq.2	-	4	966	c.840A>C	c.(838-840)TCA>TCC	p.S280S	SYT13_uc009yku.1_Silent_p.S136S	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	280	Cytoplasmic (Potential).					transport vesicle				ovary(1)	1						CTACCTTCGCTGAAGTCTTCA	0.622											OREG0020928	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	184					0	0	0.017118	0	0		G	45273978	G	G	45273978	2	3	25	1	0	0	0	0	0	0	0	1	15494	1567	55	5		5	SYT13	11	45273978	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	5136370	45273978	89732538	653	21653											
PEX16	9409	broad.mit.edu	37	chr11	45935724	45935724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagagccagggtttccacGacctctgaccccacaggccc	9	5	9	18	1	1	2	0	1	1	1	2	3	2	2	7	2	1	1	7	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:45935724G>A	uc001nbu.2	-	8	1037	c.725C>T	c.(724-726)TCG>TTG	p.S242L	PEX16_uc001nbt.2_Missense_Mutation_p.S242L	NM_004813	NP_004804	Q9Y5Y5	PEX16_HUMAN	peroxisomal biogenesis factor 16 isoform 1	242	Interaction with PEX19.|Cytoplasmic (Potential).				ER-dependent peroxisome organization|peroxisome membrane biogenesis|protein import into peroxisome matrix|protein import into peroxisome membrane	endoplasmic reticulum membrane|integral to peroxisomal membrane	protein C-terminus binding			ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.223)		GGGTTTCCACGACCTCTGACC	0.622													3	32					0	0	0.004672	0	0		A	45935724	A	A	45935724	3	1	25	1	0	0	0	0	1	0	0	0	11762	1059	37	1	394	1	PEX16	11	45935724	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	661746	45935724	89070792	654	21654											
C11orf49	79096	broad.mit.edu	37	chr11	47183174	47183174	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccactgaagagacagaCgagtcggagacttgaggagt	12	6	15	8	2	0	5	0	2	0	3	2	9	1	6	1	3	0	1	1	3	1	1	rs75415432	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:47183174C>T	uc001ndp.2	+	9	1087	c.981C>T	c.(979-981)GAC>GAT	p.D327D	C11orf49_uc001nds.2_Intron|C11orf49_uc001ndq.2_3'UTR|C11orf49_uc001ndr.2_Silent_p.D333D|C11orf49_uc010rgx.1_Silent_p.D230D|C11orf49_uc010rgy.1_Silent_p.D318D|C11orf49_uc010rgz.1_Silent_p.D243D	NM_024113	NP_077018	Q9H6J7	CK049_HUMAN	hypothetical protein LOC79096 isoform 3	327											0						AAGAGACAGACGAGTCGGAGA	0.627											OREG0020950	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	72					0	0	0.020292	0	0		T	47183174	T	T	47183174	2	4	25	1	0	0	0	0	0	0	0	1	1648	535	19	1		1	C11orf49	11	47183174	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1247450	47183174	87823342	655	21655											
ACP2	53	broad.mit.edu	37	chr11	47267247	47267247	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttaccctgtcctcagtgaTgggcacagtgtgcacaggaa	9	10	11	11	0	2	1	1	1	1	0	3	2	3	2	2	2	2	2	2	2	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:47267247T>C	uc001nei.2	-	4	553	c.436A>G	c.(436-438)ATC>GTC	p.I146V	ACP2_uc010rhe.1_Missense_Mutation_p.I118V|ACP2_uc009ylj.2_Missense_Mutation_p.I74V|ACP2_uc010rhf.1_Missense_Mutation_p.I114V|ACP2_uc010rhg.1_Missense_Mutation_p.I146V|ACP2_uc010rhh.1_5'UTR|ACP2_uc010rhi.1_5'UTR|ACP2_uc009ylk.2_Missense_Mutation_p.I146V|ACP2_uc010rhj.1_Missense_Mutation_p.I146V|NR1H3_uc009yll.1_5'Flank|NR1H3_uc010rhk.1_5'Flank	NM_001610	NP_001601	P11117	PPAL_HUMAN	acid phosphatase 2, lysosomal isoform 1	146	Lumenal (Potential).					integral to membrane|lysosomal lumen|lysosomal membrane	acid phosphatase activity			ovary(1)	1						TCCTCAGTGATGGGCACAGTG	0.627													22	103					0	0	0.007291	0	0		C	47267247	C	C	47267247	3	2	25	1	0	0	0	0	1	0	0	0	163	1464	51	3	900	3	ACP2	11	47267247	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	84073	47267247	87739269	656	21656											
FNBP4	23360	broad.mit.edu	37	chr11	47765532	47765532	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccattttctggagtatctcGtccagttttactagaactcc	8	16	6	11	1	2	1	0	0	2	1	6	2	5	2	3	1	2	2	3	1	4	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:47765532G>A	uc009ylv.2	-	8	1582	c.1429C>T	c.(1429-1431)CGA>TGA	p.R477*	FNBP4_uc001ngj.2_Nonsense_Mutation_p.R384*|FNBP4_uc001ngl.2_RNA	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	477										ovary(1)	1						GGAGTATCTCGTCCAGTTTTA	0.383													7	96					0	0	0.001984	0	0		A	47765532	A	A	47765532	4	1	25	1	0	0	0	0	0	1	0	0	5981	1153	40	1	1664	1	FNBP4	11	47765532	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	498285	47765532	87240984	657	21657											
OR5L1	219437	broad.mit.edu	37	chr11	55579570	55579570	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccactttgaatgagagtgttAccatcatgatcatcctcacc	11	12	6	12	0	3	3	3	3	0	1	4	4	4	3	4	0	1	1	4	0	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:55579570A>G	uc001nhw.1	+	1	628	c.628A>G	c.(628-630)ACC>GCC	p.T210A		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				TGAGAGTGTTACCATCATGAT	0.488													4	296					0	0	0.001168	0	0		G	55579570	G	G	55579570	3	3	25	1	0	0	0	0	1	0	0	0	11189	391	14	3	630	3	OR5L1	11	55579570	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	7814038	55579570	79426946	658	21658											
OR5W2	390148	broad.mit.edu	37	chr11	55681565	55681565	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagacccacagaagcataggCggaaggccagtgtcatatgt	13	7	12	9	1	1	2	1	0	0	2	1	3	1	3	2	3	1	1	2	3	5	3	rs148084259		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:55681565C>A	uc010rir.1	-	1	494	c.494G>T	c.(493-495)CGC>CTC	p.R165L		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GAAGCATAGGCGGAAGGCCAG	0.428													28	155					4.02929e-09	4.21521e-09	0.010818	1	0		A	55681565	A	A	55681565	3	1	25	1	0	0	0	0	1	0	0	0	11204	768	27	5	440	5	OR5W2	11	55681565	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	101995	55681565	79324951	659	21659											
OR4D6	219983	broad.mit.edu	37	chr11	59224664	59224664	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgttttttcatctatcacCgtccccaagttcctggtgga	7	15	7	12	2	3	0	2	0	1	0	6	1	5	1	4	2	0	2	4	2	2	5	rs149619824		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:59224664C>T	uc010rku.1	+	1	231	c.231C>T	c.(229-231)ACC>ACT	p.T77T		NM_001004708	NP_001004708	Q8NGJ1	OR4D6_HUMAN	olfactory receptor, family 4, subfamily D,	77	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CATCTATCACCGTCCCCAAGT	0.468													59	183					0	0	0.01441	0	0		T	59224664	T	T	59224664	2	4	25	1	0	0	0	0	0	0	0	1	11077	639	23	1		1	OR4D6	11	59224664	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3543099	59224664	75781852	660	21660											
MS4A14	84689	broad.mit.edu	37	chr11	60183466	60183466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gccatctaagtctacatcatCccatgtcaaacagtcttcta	12	12	4	13	0	6	0	2	0	4	0	7	0	7	0	2	0	2	0	2	0	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:60183466C>T	uc001npj.2	+	5	1590	c.1025C>T	c.(1024-1026)TCC>TTC	p.S342F	MS4A14_uc001npi.2_Missense_Mutation_p.S230F|MS4A14_uc001npn.2_Missense_Mutation_p.S80F|MS4A14_uc001npk.2_Missense_Mutation_p.S325F|MS4A14_uc001npl.2_Missense_Mutation_p.S80F|MS4A14_uc001npm.2_Missense_Mutation_p.S80F	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	342						integral to membrane	receptor activity			breast(1)	1						TCTACATCATCCCATGTCAAA	0.348													14	78					0	0	0.016723	0	0		T	60183466	T	T	60183466	3	4	25	1	0	0	0	0	1	0	0	0	9876	855	30	4	1043	4	MS4A14	11	60183466	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	958802	60183466	74823050	661	21661											
TMEM132A	54972	broad.mit.edu	37	chr11	60702844	60702844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctcgctgaccttgagcCggggcactgcccaccccggg	5	6	13	17	3	1	2	0	2	1	0	2	2	1	2	5	3	2	3	5	3	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:60702844C>T	uc001nqj.2	+	10	2150	c.1957C>T	c.(1957-1959)CGG>TGG	p.R653W	TMEM132A_uc001nqi.2_Missense_Mutation_p.R654W|TMEM132A_uc001nqm.2_5'UTR	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	653	Binds to HSPA5/GRP78 (By similarity).|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						GACCTTGAGCCGGGGCACTGC	0.667													7	34					0	0	0.001984	0	0		T	60702844	T	T	60702844	3	4	25	1	0	0	0	0	1	0	0	0	16070	643	23	1	1998	1	TMEM132A	11	60702844	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	519378	60702844	74303672	662	21662											
CD5	921	broad.mit.edu	37	chr11	60885784	60885784	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggaccccagtcaagcgTcaaaagtctgccagcggctg	10	5	14	12	2	3	0	2	0	1	0	3	2	3	2	3	3	3	1	3	3	3	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:60885784T>C	uc009ynk.2	+	3	335	c.232T>C	c.(232-234)TCA>CCA	p.S78P		NM_014207	NP_055022	P06127	CD5_HUMAN	CD5 molecule precursor	78	Extracellular (Potential).|SRCR 1.				cell proliferation|cell recognition	integral to plasma membrane	scavenger receptor activity			ovary(1)	1		all_lung(304;5.94e-05)|Lung NSC(402;7.26e-05)		BRCA - Breast invasive adenocarcinoma(625;0.000946)|Lung(977;0.0086)|LUSC - Lung squamous cell carcinoma(625;0.0528)		CAGTCAAGCGTCAAAAGTCTG	0.597													54	307					0	0	0.01441	0	0		C	60885784	C	C	60885784	3	2	25	1	0	0	0	0	1	0	0	0	3024	1667	58	3	242	3	CD5	11	60885784	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	182940	60885784	74120732	663	21663											
DDB1	1642	broad.mit.edu	37	chr11	61094323	61094323	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttattgaattccttttctcGgagagacacctcataggttt	9	16	7	9	1	2	2	1	1	1	1	4	4	3	3	2	2	0	1	2	2	3	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:61094323G>A	uc001nrc.3	-	5	818	c.592C>T	c.(592-594)CGA>TGA	p.R198*	DDB1_uc010rle.1_Intron|DDB1_uc010rlf.1_Nonsense_Mutation_p.R198*|DDB1_uc010rlg.1_RNA|DDB1_uc001nrd.2_Nonsense_Mutation_p.R198*|DDB1_uc009ynl.1_Nonsense_Mutation_p.R85*	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	198	Interaction with CDT1.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						TCCTTTTCTCGGAGAGACACC	0.517								NER					74	363					0	0	0.01441	0	0		A	61094323	A	A	61094323	4	1	25	1	0	0	0	0	0	1	0	0	4326	1124	39	1	2922	1	DDB1	11	61094323	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	208539	61094323	73912193	664	21664											
DAGLA	747	broad.mit.edu	37	chr11	61504756	61504756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcccacagtatccgaccCtcaagtgctttgcctactcc	7	10	7	17	2	1	0	1	0	0	0	3	1	3	0	5	0	4	2	5	0	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:61504756C>T	uc001nsa.2	+	14	1585	c.1474C>T	c.(1474-1476)CTC>TTC	p.L492F		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	492	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		GTATCCGACCCTCAAGTGCTT	0.647													81	493					0	0	0.01441	0	0		T	61504756	T	T	61504756	3	4	25	1	0	0	0	0	1	0	0	0	4229	681	24	4	1524	4	DAGLA	11	61504756	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	410433	61504756	73501760	665	21665											
DAGLA	747	broad.mit.edu	37	chr11	61511578	61511578	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgctggaattcgccgagTtcatcgacagcctcttcaac	9	10	10	12	3	3	0	2	0	1	0	5	3	3	1	2	2	3	2	2	2	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:61511578T>C	uc001nsa.2	+	20	2857	c.2746T>C	c.(2746-2748)TTC>CTC	p.F916L		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	916	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		ATTCGCCGAGTTCATCGACAG	0.667													5	78					0	0	0.014758	0	0		C	61511578	C	C	61511578	3	2	25	1	0	0	0	0	1	0	0	0	4229	1725	60	3	2820	3	DAGLA	11	61511578	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	6822	61511578	73494938	666	21666											
LRRN4CL	221091	broad.mit.edu	37	chr11	62455946	62455946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggaaccaagaaggtcacgGccaggagccacagaaggcag	14	2	15	10	1	1	2	1	0	0	2	1	4	1	4	3	5	2	1	3	5	4	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:62455946G>A	uc001nun.2	-	2	342	c.35C>T	c.(34-36)GCC>GTC	p.A12V		NM_203422	NP_981967	Q8ND94	LRN4L_HUMAN	LRRN4 C-terminal like precursor	12						integral to membrane					0						GAAGGTCACGGCCAGGAGCCA	0.597													13	28					0	0	0.020292	0	0		A	62455946	A	A	62455946	3	1	25	1	0	0	0	0	1	0	0	0	9056	1203	42	2	685	2	LRRN4CL	11	62455946	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	944368	62455946	72550570	667	21667											
HNRNPUL2	221092	broad.mit.edu	37	chr11	62483395	62483395	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcccggttgtcgtagcctcGgcgctgcccgcccactggaa	4	7	14	16	5	0	0	0	0	0	0	2	1	0	1	4	4	2	3	4	4	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:62483395G>T	uc001nuw.2	-	12	2189	c.1996C>A	c.(1996-1998)CGA>AGA	p.R666R	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	666					cell killing	nucleus	ATP binding|nucleic acid binding				0						TCGTAGCCTCGGCGCTGCCCG	0.612													9	55					7.03913e-09	7.34725e-09	0.013537	1	0		T	62483395	T	T	62483395	2	4	25	1	0	0	0	0	0	0	0	1	7291	1124	39	5		5	HNRNPUL2	11	62483395	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	27449	62483395	72523121	668	21668											
ZBTB3	79842	broad.mit.edu	37	chr11	62519939	62519939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcagaagacaggtaaagtgGctcatgcagggatgcgggtg	11	7	16	7	1	2	2	2	0	0	2	2	3	2	3	0	4	2	3	0	4	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:62519939G>A	uc001nuz.2	-	2	1470	c.1348C>T	c.(1348-1350)CCA>TCA	p.P450S		NM_024784	NP_079060	Q9H5J0	ZBTB3_HUMAN	zinc finger and BTB domain containing 3	450					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3						AGGTAAAGTGGCTCATGCAGG	0.542													28	119					0	0	0.007291	0	0		A	62519939	A	A	62519939	3	1	25	1	0	0	0	0	1	0	0	0	17559	1203	42	2	380	2	ZBTB3	11	62519939	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	36544	62519939	72486577	669	21669											
MAP4K2	5871	broad.mit.edu	37	chr11	64566893	64566893	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaggcctgcccactcacCggctcattcagtgggtcagt	7	9	10	15	1	5	0	5	0	0	0	5	0	5	0	3	3	1	1	3	3	1	1	rs150214987		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:64566893C>T	uc001obh.2	-	14	1145	c.1053G>A	c.(1051-1053)CCG>CCA	p.P351P	MAP4K2_uc001obi.2_Silent_p.P351P	NM_004579	NP_004570	Q12851	M4K2_HUMAN	mitogen-activated protein kinase kinase kinase	351					activation of JUN kinase activity|immune response|positive regulation of JNK cascade|vesicle targeting	basolateral plasma membrane|Golgi membrane|soluble fraction	ATP binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(1)|pancreas(1)	2						GCCCACTCACCGGCTCATTCA	0.602													37	148					0	0	0.021022	0	0		T	64566893	T	T	64566893	2	4	25	1	0	0	0	0	0	0	0	1	9278	666	23	1		1	MAP4K2	11	64566893	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2046954	64566893	70439623	670	21670											
SCYL1	57410	broad.mit.edu	37	chr11	65302744	65302744	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgaggccaacctcaatgTggagctgatgaagcactttg	12	8	12	9	1	1	2	1	2	0	0	1	5	1	3	2	2	4	2	2	2	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:65302744T>C	uc001oea.1	+	10	1354	c.1277T>C	c.(1276-1278)GTG>GCG	p.V426A	SCYL1_uc009yqk.2_Missense_Mutation_p.V426A|SCYL1_uc001oeb.1_Missense_Mutation_p.V426A|SCYL1_uc001oec.1_Missense_Mutation_p.V426A|SCYL1_uc001oed.1_Missense_Mutation_p.V283A|SCYL1_uc001oee.1_Missense_Mutation_p.V70A	NM_020680	NP_065731	Q96KG9	NTKL_HUMAN	SCY1-like 1 isoform A	426	HEAT 2.				regulation of transcription, DNA-dependent|retrograde vesicle-mediated transport, Golgi to ER|transcription, DNA-dependent	cis-Golgi network|COPI vesicle coat|ER-Golgi intermediate compartment|microtubule organizing center|nucleus	ATP binding|DNA binding|protein tyrosine kinase activity			skin(1)	1						AACCTCAATGTGGAGCTGATG	0.592													38	174					0	0	0.006999	0	0		C	65302744	C	C	65302744	3	2	25	1	0	0	0	0	1	0	0	0	13972	1696	59	3	1315	3	SCYL1	11	65302744	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	735851	65302744	69703772	671	21671											
GAL3ST3	89792	broad.mit.edu	37	chr11	65810683	65810683	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgttgtgtgcgaacatggcGaagtgctcgccagcgcggta	7	9	16	9	5	0	0	0	0	0	0	1	2	0	0	1	2	4	3	1	2	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:65810683G>A	uc001ogv.2	-	2	751	c.591C>T	c.(589-591)TTC>TTT	p.F197F	GAL3ST3_uc001ogw.2_Silent_p.F197F	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	197	Lumenal (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						CGAACATGGCGAAGTGCTCGC	0.697													21	113					0	0	0.01892	0	0		A	65810683	A	A	65810683	2	1	25	1	0	0	0	0	0	0	0	1	6214	1049	37	1		1	GAL3ST3	11	65810683	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	507939	65810683	69195833	672	21672											
CD248	57124	broad.mit.edu	37	chr11	66084469	66084469	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgtgggccctgcggcCgcccaggccagcaacaggcg	6	3	15	17	3	0	0	0	0	0	0	0	0	0	0	5	4	3	1	5	4	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:66084469C>T	uc001ohm.1	-	1	47	c.30G>A	c.(28-30)GCG>GCA	p.A10A		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	10						integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	GCCCTGCGGCCGCCCAGGCCA	0.761													3	5					0	0	0.004672	0	0		T	66084469	T	T	66084469	2	4	25	1	0	0	0	0	0	0	0	1	2992	639	23	1		1	CD248	11	66084469	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	273786	66084469	68922047	673	21673											
SPTBN2	6712	broad.mit.edu	37	chr11	66466195	66466195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccacttagtatgcaggttgCgggcctcgtcataggacacg	8	9	13	11	3	1	0	1	0	0	0	2	1	1	1	2	3	2	3	2	3	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:66466195C>T	uc001ojd.2	-	19	4001	c.3929G>A	c.(3928-3930)CGC>CAC	p.R1310H		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1310	Spectrin 10.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						ATGCAGGTTGCGGGCCTCGTC	0.557													20	149					0	0	0.010504	0	0		T	66466195	T	T	66466195	3	4	25	1	0	0	0	0	1	0	0	0	15145	768	27	1	3319	1	SPTBN2	11	66466195	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	381726	66466195	68540321	674	21674											
SAPS3	55291	broad.mit.edu	37	chr11	68341618	68341618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggttacatgggacacctaaCgaggatagctaactgtatcg	12	10	11	8	2	0	0	0	0	0	0	1	3	0	2	1	3	4	3	1	3	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:68341618C>T	uc001onw.2	+	13	1652	c.1385C>T	c.(1384-1386)ACG>ATG	p.T462M	SAPS3_uc001onv.2_Missense_Mutation_p.T462M|SAPS3_uc001ony.3_Missense_Mutation_p.T462M|SAPS3_uc001onx.2_Missense_Mutation_p.T462M|SAPS3_uc009ysh.2_Missense_Mutation_p.T411M|SAPS3_uc001onu.2_Missense_Mutation_p.T411M|SAPS3_uc010rqc.1_Missense_Mutation_p.T230M|SAPS3_uc010rqd.1_Missense_Mutation_p.T174M|SAPS3_uc001onz.2_5'Flank	NM_001164161	NP_001157633	Q5H9R7	PP6R3_HUMAN	SAPS domain family, member 3 isoform 6	462					regulation of phosphoprotein phosphatase activity	cytoplasm|nucleus	protein phosphatase binding				0			LUAD - Lung adenocarcinoma(13;0.102)			GGACACCTAACGAGGATAGCT	0.443													23	130					0	0	0.00632	0	0		T	68341618	T	T	68341618	3	4	25	1	0	0	0	0	1	0	0	0	13863	536	19	1	1427	1	SAPS3	11	68341618	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1875423	68341618	66664898	675	21675											
CPT1A	1374	broad.mit.edu	37	chr11	68574954	68574954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccagatcttggtggcaCgactcatcttgccgtgctca	7	11	9	14	2	4	1	2	0	2	1	5	2	5	1	3	2	2	2	3	2	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:68574954C>T	uc001oog.3	-	4	604	c.434G>A	c.(433-435)CGT>CAT	p.R145H	CPT1A_uc001oof.3_Missense_Mutation_p.R145H|CPT1A_uc009ysj.2_Missense_Mutation_p.R145H	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	145	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	CTTGGTGGCACGACTCATCTT	0.597													7	48					0	0	0.004482	0	0		T	68574954	T	T	68574954	3	4	25	1	0	0	0	0	1	0	0	0	3834	536	19	1	1991	1	CPT1A	11	68574954	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	233336	68574954	66431562	676	21676											
NADSYN1	55191	broad.mit.edu	37	chr11	71174487	71174487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctcctgcaggcctgtaatGcaccgaaacgtccgctacaa	10	8	8	15	3	1	0	0	0	1	0	3	1	2	0	4	1	4	4	4	1	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:71174487G>A	uc001oqn.2	+	4	399	c.273G>A	c.(271-273)ATG>ATA	p.M91I	NADSYN1_uc001oqm.2_RNA|NADSYN1_uc001oqo.2_5'UTR	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	91	CN hydrolase.				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GGCCTGTAATGCACCGAAACG	0.597													13	59					0	0	0.016723	0	0		A	71174487	A	A	71174487	3	1	25	1	0	0	0	0	1	0	0	0	10156	1319	46	2	287	2	NADSYN1	11	71174487	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2599533	71174487	63832029	677	21677											
FOLR3	2352	broad.mit.edu	37	chr11	71850856	71850856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgctggggccccgtctcGtgggattattgattcctgat	6	13	13	9	2	1	2	0	2	1	0	3	4	2	3	3	3	1	1	3	3	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:71850856G>A	uc001ory.1	+	5	895	c.845G>A	c.(844-846)CGT>CAT	p.R282H	FOLR3_uc001orx.1_Missense_Mutation_p.R240H			P41439	FOLR3_HUMAN	SubName: Full=FOLR3 protein; Flags: Fragment;	238					folic acid transport	extracellular region|extrinsic to membrane|membrane fraction	folic acid binding|receptor activity				0					Folic Acid(DB00158)	GCCCCGTCTCGTGGGATTATT	0.517													14	45					0	0	0.020292	0	0		A	71850856	A	A	71850856	3	1	25	1	0	0	0	0	1	0	0	0	5997	1145	40	1	731	1	FOLR3	11	71850856	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	676369	71850856	63155660	678	21678											
CLPB	81570	broad.mit.edu	37	chr11	72083976	72083976	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagttccattaccgccagcGgggagtcctagccatctcct	7	9	10	15	2	1	0	0	0	1	0	4	1	3	1	6	2	3	2	6	2	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:72083976G>A	uc001osj.2	-	5	779	c.729C>T	c.(727-729)CCC>CCT	p.P243P	CLPB_uc010rqx.1_Silent_p.P198P|CLPB_uc010rqy.1_Intron|CLPB_uc001osk.2_Intron|CLPB_uc009ytg.2_Intron|CLPB_uc010rqz.1_Intron	NM_030813	NP_110440	Q9H078	CLPB_HUMAN	caseinolytic peptidase B	243					cellular response to heat		ATP binding|nucleoside-triphosphatase activity|protein binding			pancreas(1)	1						TACCGCCAGCGGGGAGTCCTA	0.517													49	158					0	0	0.01441	0	0		A	72083976	A	A	72083976	2	1	25	1	0	0	0	0	0	0	0	1	3554	1103	39	1		1	CLPB	11	72083976	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	233120	72083976	62922540	679	21679											
RELT	84957	broad.mit.edu	37	chr11	73105600	73105600	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accgtgcagggcctggcctcGctctctggcccctgctgctc	2	9	12	18	2	1	0	0	0	1	0	4	0	1	0	5	3	3	4	5	3	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:73105600G>A	uc001otv.2	+	9	1032	c.867G>A	c.(865-867)TCG>TCA	p.S289S	RELT_uc001otw.2_Silent_p.S289S|RELT_uc001otx.2_RNA	NM_152222	NP_689408	Q969Z4	TR19L_HUMAN	RELT tumor necrosis factor receptor precursor	289	Cytoplasmic (Potential).					cytoplasm|integral to membrane|plasma membrane	binding|receptor activity			upper_aerodigestive_tract(1)	1						GCCTGGCCTCGCTCTCTGGCC	0.687													26	147					0	0	0.008361	0	0		A	73105600	A	A	73105600	2	1	25	1	0	0	0	0	0	0	0	1	13246	1074	38	1		1	RELT	11	73105600	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1021624	73105600	61900916	680	21680											
UVRAG	7405	broad.mit.edu	37	chr11	75852356	75852356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtggcagtagagtgtgacGaacaagttctgggagaattt	11	11	14	5	1	1	3	0	1	1	2	1	5	1	3	0	2	1	3	0	2	4	3	rs138436357		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:75852356G>A	uc001oxc.2	+	15	2240	c.1999G>A	c.(1999-2001)GAA>AAA	p.E667K	UVRAG_uc010rrw.1_Missense_Mutation_p.E566K|UVRAG_uc001oxd.2_Missense_Mutation_p.E295K|UVRAG_uc010rrx.1_Missense_Mutation_p.E295K|UVRAG_uc010rry.1_Missense_Mutation_p.E223K	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	667					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						AGAGTGTGACGAACAAGTTCT	0.512													22	90					0	0	0.016522	0	0		A	75852356	A	A	75852356	3	1	25	1	0	0	0	0	1	0	0	0	17134	1059	37	1	2057	1	UVRAG	11	75852356	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2746756	75852356	59154160	681	21681											
PAK1	5058	broad.mit.edu	37	chr11	77043869	77043869	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagctgacagcttctctgggTtctgaagttctggggtccca	6	13	12	10	0	3	2	0	2	3	0	5	2	4	2	1	3	2	4	1	3	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:77043869T>C	uc001oyh.3	-	14	1990	c.1457A>G	c.(1456-1458)AAC>AGC	p.N486S	PAK1_uc010rso.1_Missense_Mutation_p.N388S|PAK1_uc001oyg.3_Missense_Mutation_p.N486S|PAK1_uc001oyi.1_Missense_Mutation_p.N486S|PAK1_uc010rsn.1_Missense_Mutation_p.N199S	NM_002576	NP_002567	Q13153	PAK1_HUMAN	p21-activated kinase 1 isoform 2	486	Protein kinase.				apoptosis|axon guidance|cytoskeleton organization|ER-nucleus signaling pathway|positive regulation of JUN kinase activity|positive regulation of peptidyl-serine phosphorylation|protein autophosphorylation|T cell costimulation|T cell receptor signaling pathway	cytosol|focal adhesion|Golgi apparatus	ATP binding|collagen binding|protein binding|protein serine/threonine kinase activity			skin(2)|stomach(1)|lung(1)	4	all_cancers(14;1.75e-18)					CTTCTCTGGGTTCTGAAGTTC	0.498													4	281					0	0	0.009096	0	0		C	77043869	C	C	77043869	3	2	25	1	0	0	0	0	1	0	0	0	11418	1725	60	3	241	3	PAK1	11	77043869	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	1191513	77043869	57962647	682	21682											
ODZ4	26011	broad.mit.edu	37	chr11	78381155	78381155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagttgtagtcaaaacgggCgttgaccatgccttcctcag	10	11	10	10	2	2	1	2	1	0	0	3	1	3	1	3	1	2	3	3	1	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:78381155C>T	uc001ozl.3	-	32	6698	c.6235G>A	c.(6235-6237)GCC>ACC	p.A2079T	ODZ4_uc001ozk.3_Missense_Mutation_p.A304T|ODZ4_uc009yvb.1_Missense_Mutation_p.A663T	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2079	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						TCAAAACGGGCGTTGACCATG	0.537													10	66					0	0	0.010729	0	0		T	78381155	T	T	78381155	3	4	25	1	0	0	0	0	1	0	0	0	10856	768	27	1	2086	1	ODZ4	11	78381155	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1337286	78381155	56625361	683	21683											
SYTL2	54843	broad.mit.edu	37	chr11	85418474	85418474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagagagttcatagatacccGcagtatttcgttatacacag	13	11	9	8	2	1	2	1	0	0	2	2	4	1	2	1	0	2	4	1	0	5	7	rs142815066		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:85418474G>A	uc010rth.1	-	13	2377	c.2101C>T	c.(2101-2103)CGG>TGG	p.R701W	SYTL2_uc010rtg.1_Missense_Mutation_p.R702W|SYTL2_uc010rti.1_Missense_Mutation_p.R677W|SYTL2_uc010rtj.1_Missense_Mutation_p.R669W|SYTL2_uc001pav.2_Missense_Mutation_p.R143W|SYTL2_uc010rte.1_Missense_Mutation_p.R103W|SYTL2_uc001pax.2_Missense_Mutation_p.R143W|SYTL2_uc001paz.2_Missense_Mutation_p.R22W|SYTL2_uc001pba.2_Missense_Mutation_p.R86W|SYTL2_uc001pay.2_Missense_Mutation_p.R132W|SYTL2_uc001paw.2_Missense_Mutation_p.R103W|SYTL2_uc009yvj.2_RNA|SYTL2_uc001pbd.2_Missense_Mutation_p.R999W|SYTL2_uc001pbb.2_Missense_Mutation_p.R1039W|SYTL2_uc001pbc.2_Missense_Mutation_p.R1023W|SYTL2_uc010rtf.1_Missense_Mutation_p.R519W	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	701	C2 1.				intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		ATAGATACCCGCAGTATTTCG	0.403													35	144					0	0	0.005524	0	0		A	85418474	A	A	85418474	3	1	25	1	0	0	0	0	1	0	0	0	15508	1086	38	1	727	1	SYTL2	11	85418474	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	7037319	85418474	49588042	684	21684											
MTNR1B	4544	broad.mit.edu	37	chr11	92703053	92703053	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtcaccaccgccgtggaCgtcgtgggcaacctcctggt	6	8	12	15	5	1	0	1	0	0	0	4	1	2	1	5	3	1	1	5	3	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:92703053C>T	uc001pdk.1	+	1	265	c.162C>T	c.(160-162)GAC>GAT	p.D54D		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	54	Helical; Name=1; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	CCGCCGTGGACGTCGTGGGCA	0.697													4	30					0	0	0.009096	0	0		T	92703053	T	T	92703053	2	4	25	1	0	0	0	0	0	0	0	1	9970	535	19	1		1	MTNR1B	11	92703053	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7284579	92703053	42303463	685	21685											
FAM76B	143684	broad.mit.edu	37	chr11	95516236	95516236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagtacttacttgtgatGgctactgctgtgacgatggt	9	14	11	7	1	1	2	1	2	0	0	1	3	1	2	0	2	4	3	0	2	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:95516236G>A	uc001pfn.2	-	5	868	c.556C>T	c.(556-558)CAT>TAT	p.H186Y	FAM76B_uc001pfm.2_RNA	NM_144664	NP_653265	Q5HYJ3	FA76B_HUMAN	hypothetical protein LOC143684	186	His-rich.										0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TACTTGTGATGGCTACTGCTG	0.279													13	48					0	0	0.020292	0	0		A	95516236	A	A	95516236	3	1	25	1	0	0	0	0	1	0	0	0	5639	1348	47	4	487	4	FAM76B	11	95516236	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2813183	95516236	39490280	686	21686											
MMP7	4316	broad.mit.edu	37	chr11	102398591	102398591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgcattatttctatgaCgcgggagtttaacattccag	9	15	8	9	2	2	1	0	1	2	0	3	2	3	2	1	1	2	2	1	1	3	7	rs145006821	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:102398591C>T	uc001phb.2	-	2	279	c.232G>A	c.(232-234)GTC>ATC	p.V78I	MMP7_uc009yxd.2_Missense_Mutation_p.V78I|MMP7_uc010rus.1_Missense_Mutation_p.V78I	NM_002423	NP_002414	P09237	MMP7_HUMAN	matrix metalloproteinase 7 preproprotein	78					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(1)	1	all_cancers(8;2.04e-05)|all_epithelial(12;0.00053)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0105)|all cancers(10;0.0496)|Lung(13;0.109)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0147)		ATTTCTATGACGCGGGAGTTT	0.408													36	149					0	0	0.021022	0	0		T	102398591	T	T	102398591	3	4	25	1	0	0	0	0	1	0	0	0	9685	536	19	1	591	1	MMP7	11	102398591	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6882355	102398591	32607925	687	21687											
EXPH5	23086	broad.mit.edu	37	chr11	108382068	108382068	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcagggtttcactttgcAactttttgcctctttccttc	5	19	6	11	0	2	0	1	0	1	0	4	0	3	0	2	1	4	3	2	1	2	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:108382068A>G	uc001pkk.2	-	6	4277	c.4166T>C	c.(4165-4167)TTG>TCG	p.L1389S	EXPH5_uc010rvy.1_Missense_Mutation_p.L1201S|EXPH5_uc010rvz.1_Missense_Mutation_p.L1233S|EXPH5_uc010rwa.1_Missense_Mutation_p.L1313S	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1389					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		TTCACTTTGCAACTTTTTGCC	0.338													23	109					0	0	0.016522	0	0		G	108382068	G	G	108382068	3	3	25	1	0	0	0	0	1	0	0	0	5330	131	5	3	1807	3	EXPH5	11	108382068	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	5983477	108382068	26624448	688	21688											
ZBTB16	7704	broad.mit.edu	37	chr11	113934884	113934884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccccgactcgaagcagcGtcatcaccagtgctagggag	10	5	13	13	3	2	0	2	0	0	0	3	4	2	2	3	2	3	2	3	2	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:113934884G>A	uc001pop.2	+	2	1126	c.862G>A	c.(862-864)GTC>ATC	p.V288I	ZBTB16_uc001poo.1_Missense_Mutation_p.V288I|ZBTB16_uc001poq.2_Missense_Mutation_p.V288I	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	288					apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		TCGAAGCAGCGTCATCACCAG	0.657													28	108					0	0	0.010818	0	0		A	113934884	A	A	113934884	3	1	25	1	0	0	0	0	1	0	0	0	17551	1145	40	1	864	1	ZBTB16	11	113934884	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5552816	113934884	21071632	689	21689											
BUD13	84811	broad.mit.edu	37	chr11	116631626	116631626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctggactttgtttatgcCgtggagaagaaaggtctgaa	10	11	13	7	1	1	3	0	1	1	2	1	5	1	4	2	3	1	1	2	3	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:116631626C>T	uc001ppn.2	-	5	1113	c.1079G>A	c.(1078-1080)CGG>CAG	p.R360Q	BUD13_uc001ppo.2_Missense_Mutation_p.R226Q|BUD13_uc009yzc.2_Missense_Mutation_p.R360Q	NM_032725	NP_116114	Q9BRD0	BUD13_HUMAN	BUD13 homolog isoform 1	360										large_intestine(1)|pancreas(1)	2	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.81e-06)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.154)		TTGTTTATGCCGTGGAGAAGA	0.483													35	116					0	0	0.00623	0	0		T	116631626	T	T	116631626	3	4	25	1	0	0	0	0	1	0	0	0	1576	652	23	1	804	1	BUD13	11	116631626	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2696742	116631626	18374890	690	21690											
APOA5	116519	broad.mit.edu	37	chr11	116661768	116661768	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgttgaggtcttgctcaagGctgtctttcagggtcctgga	5	15	13	8	0	4	1	2	1	2	0	5	2	5	2	1	4	1	3	1	4	1	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:116661768G>A	uc001ppr.2	-	3	185	c.177C>T	c.(175-177)AGC>AGT	p.S59S	APOA5_uc009yze.2_Silent_p.S59S|APOA5_uc009yzf.2_Silent_p.S59S|APOA5_uc009yzg.2_Silent_p.S85S	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	59	Potential.				acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		CTTGCTCAAGGCTGTCTTTCA	0.572													14	50					0	0	0.020292	0	0		A	116661768	A	A	116661768	2	1	25	1	0	0	0	0	0	0	0	1	784	1194	42	2		2	APOA5	11	116661768	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	30142	116661768	18344748	691	21691											
SIDT2	51092	broad.mit.edu	37	chr11	117064605	117064605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatcaagctcatccccctgCtctgcatcgtttgcacctcc	6	11	7	17	1	3	0	2	0	1	0	6	1	5	1	4	1	4	5	4	1	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:117064605C>T	uc001pqh.1	+	24	2289	c.2248C>T	c.(2248-2250)CTC>TTC	p.L750F	SIDT2_uc010rxe.1_Missense_Mutation_p.L750F|SIDT2_uc001pqg.2_Missense_Mutation_p.L771F|SIDT2_uc001pqi.1_Missense_Mutation_p.L747F|SIDT2_uc001pqj.1_Missense_Mutation_p.L62F	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	750	Helical; (Potential).					integral to membrane|lysosomal membrane					0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		CATCCCCCTGCTCTGCATCGT	0.642													26	118					0	0	0.009535	0	0		T	117064605	T	T	117064605	3	4	25	1	0	0	0	0	1	0	0	0	14328	797	28	2	2342	2	SIDT2	11	117064605	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	402837	117064605	17941911	692	21692											
PCSK7	9159	broad.mit.edu	37	chr11	117077045	117077045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtaaacagtccagaagaCggtgaaacagcctaccagca	16	5	10	10	1	0	3	0	1	0	2	1	3	1	3	3	1	5	3	3	1	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:117077045C>T	uc001pqr.2	-	17	2227	c.2026G>A	c.(2026-2028)GTC>ATC	p.V676I	uc001pqq.1_RNA	NM_004716	NP_004707	Q16549	PCSK7_HUMAN	proprotein convertase subtilisin/kexin type 7	676	Helical; (Potential).				peptide hormone processing	integral to Golgi membrane	serine-type endopeptidase activity				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.72e-06)|Epithelial(105;6.71e-05)|all cancers(92;0.000537)		GTCCAGAAGACGGTGAAACAG	0.547			T	IGH@	MLCLS								23	119					0	0	0.005443	0	0		T	117077045	T	T	117077045	3	4	25	1	0	0	0	0	1	0	0	0	11624	536	19	1	335	1	PCSK7	11	117077045	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	12440	117077045	17929471	693	21693											
ARCN1	372	broad.mit.edu	37	chr11	118454580	118454580	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaaaggaattacaacaGgcccgaagagatgcagagag	19	3	12	7	1	0	2	0	0	0	2	0	6	0	3	1	2	4	2	1	2	6	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:118454580G>T	uc001ptq.2	+	4	665	c.504G>T	c.(502-504)CAG>CAT	p.Q168H	ARCN1_uc009zah.2_Intron|ARCN1_uc010ryg.1_Missense_Mutation_p.Q80H|ARCN1_uc009zag.2_Missense_Mutation_p.Q209H	NM_001655	NP_001646	P48444	COPD_HUMAN	archain isoform 1	168					COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	clathrin adaptor complex|COPI vesicle coat|cytosol					0	all_hematologic(175;0.0349)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		AATTACAACAGGCCCGAAGAG	0.443													31	167					4.31634e-10	4.53264e-10	0.012213	1	0		T	118454580	T	T	118454580	3	4	25	1	0	0	0	0	1	0	0	0	842	991	35	5	518	5	ARCN1	11	118454580	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1377535	118454580	16551936	694	21694											
TMEM136	219902	broad.mit.edu	37	chr11	120201049	120201049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgaaatggtctcccccaCgcctaagtggtttgtgaagg	8	11	12	10	1	1	2	0	2	1	0	2	2	1	2	3	3	0	1	3	3	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:120201049C>T	uc001pxh.1	+	3	626	c.563C>T	c.(562-564)ACG>ATG	p.T188M	TMEM136_uc001pxg.2_Intron|TMEM136_uc010rzm.1_Intron|TMEM136_uc001pxj.2_Missense_Mutation_p.T210M|TMEM136_uc009zas.1_Missense_Mutation_p.T74M|TMEM136_uc001pxi.1_Missense_Mutation_p.T74M	NM_174926	NP_777586	Q6ZRR5	TM136_HUMAN	transmembrane protein 136	188	TLC.					integral to membrane				ovary(1)	1		Breast(109;0.00663)|Medulloblastoma(222;0.0523)|Hepatocellular(160;0.206)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.07e-06)		GTCTCCCCCACGCCTAAGTGG	0.507													6	25					0	0	0.004482	0	0		T	120201049	T	T	120201049	3	4	25	1	0	0	0	0	1	0	0	0	16077	551	19	1		1	TMEM136	11	120201049	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1746469	120201049	14805467	695	21695											
SORL1	6653	broad.mit.edu	37	chr11	121323240	121323240	+	Frame_Shift_Del	DEL	G	-	-																															gtgggcgcgcggggatgccaGgggggcgagccgcgcggacg																										TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:121323240delG	uc001pxx.2	+	1	280	c.200delG	c.(199-201)AGGfs	p.R67fs	uc001pxw.1_Intron	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	67					cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		GGGGATGCCAGGGGGGCGAGC	0.731													3	5	---	---	---	---						.	-	121323240	-	-	121323240	7	5	25	1	0	1	0	1	0	0	0	0	14959	1000	35	0	202	0	SORL1	11	121323240	Frame_Shift_Del	DEL	G	TCGA-BR-4370-01A-01D-1158-08	1122191	121323240	13683276	696	21696											
SCN3B	55800	broad.mit.edu	37	chr11	123508896	123508896	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcatctctggacttacgcGttttcttgggctgcctcttc	3	16	10	12	2	3	0	0	0	3	0	5	1	3	1	1	3	2	3	1	3	1	5	rs34964168	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:123508896G>A	uc001pza.1	-	5	989	c.582C>T	c.(580-582)AAC>AAT	p.N194N	SCN3B_uc001pzb.1_Silent_p.N194N	NM_001040151	NP_001035241	Q9NY72	SCN3B_HUMAN	voltage-gated sodium channel beta-3 subunit	194	Cytoplasmic (Potential).				axon guidance	integral to membrane|plasma membrane	voltage-gated sodium channel activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0227)		GGACTTACGCGTTTTCTTGGG	0.294													10	47					0	0	0.010729	0	0		A	123508896	A	A	123508896	2	1	25	1	0	0	0	0	0	0	0	1	13944	1136	40	1		1	SCN3B	11	123508896	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2185656	123508896	11497620	697	21697											
OR10G8	219869	broad.mit.edu	37	chr11	123900389	123900389	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccttccccatgccccagcGctggacgcccccctctttgg	3	8	10	20	2	1	0	0	0	1	0	2	1	2	1	8	3	2	1	8	3	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:123900389G>A	uc001pzp.1	+	1	60	c.60G>A	c.(58-60)GCG>GCA	p.A20A		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		ATGCCCCAGCGCTGGACGCCC	0.572													60	272					0	0	0.01441	0	0		A	123900389	A	A	123900389	2	1	25	1	0	0	0	0	0	0	0	1	10922	1074	38	1		1	OR10G8	11	123900389	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	391493	123900389	11106127	698	21698											
C11orf61	79684	broad.mit.edu	37	chr11	124637344	124637344	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagcaatagataattcgggTgggttctatttccacctgta	10	14	10	7	1	1	1	0	0	1	1	3	1	2	1	2	2	1	4	2	2	6	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:124637344T>C	uc001qba.1	-	4	1431	c.1408A>G	c.(1408-1410)ACC>GCC	p.T470A	C11orf61_uc001qaz.1_Missense_Mutation_p.T418A|C11orf61_uc010sap.1_Missense_Mutation_p.T190A|C11orf61_uc001qay.1_Missense_Mutation_p.T240A	NM_024631	NP_078907	Q6P1R3	CK061_HUMAN	hypothetical protein LOC79684	470											0	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0079)		ATAATTCGGGTGGGTTCTATT	0.478													62	263					0	0	0.01441	0	0		C	124637344	C	C	124637344	3	2	25	1	0	0	0	0	1	0	0	0	1656	1696	59	3	275	3	C11orf61	11	124637344	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	736955	124637344	10369172	699	21699											
CDON	50937	broad.mit.edu	37	chr11	125867186	125867186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaattgctggtcctcatccGtttatattcgactttgaagg	8	15	8	10	2	1	1	1	1	0	0	4	2	3	1	3	2	1	2	3	2	4	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:125867186G>A	uc009zbw.2	-	12	2406	c.2278C>T	c.(2278-2280)CGG>TGG	p.R760W	CDON_uc001qdb.3_Missense_Mutation_p.R137W|CDON_uc001qdc.3_Missense_Mutation_p.R760W	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	760	Fibronectin type-III 2.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		GTCCTCATCCGTTTATATTCG	0.473													7	81					0	0	0.006214	0	0		A	125867186	A	A	125867186	3	1	25	1	0	0	0	0	1	0	0	0	3173	1144	40	1	1552	1	CDON	11	125867186	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1229842	125867186	9139330	700	21700											
TIRAP	114609	broad.mit.edu	37	chr11	126162425	126162425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaagaggcccaactccccaGaaagcacctccagcgatgct	13	4	9	15	1	0	3	0	0	0	3	2	4	2	3	5	1	4	2	5	1	3	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:126162425G>A	uc001qdm.1	+	5	573	c.121G>A	c.(121-123)GAA>AAA	p.E41K	TIRAP_uc001qdl.1_Missense_Mutation_p.E41K|TIRAP_uc009zcb.1_Missense_Mutation_p.E41K|TIRAP_uc001qdn.1_Missense_Mutation_p.E41K|TIRAP_uc001qdo.1_Missense_Mutation_p.E41K	NM_001039661	NP_001034750	P58753	TIRAP_HUMAN	Toll-interleukin 1 receptor domain-containing	41					3'-UTR-mediated mRNA stabilization|cellular response to bacterial lipopeptide|cellular response to lipoteichoic acid|defense response to Gram-positive bacterium|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|myeloid cell differentiation|negative regulation of growth of symbiont in host|positive regulation of B cell proliferation|positive regulation of chemokine (C-X-C motif) ligand 1 production|positive regulation of chemokine (C-X-C motif) ligand 2 production|positive regulation of ERK1 and ERK2 cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-12 production|positive regulation of interleukin-15 production|positive regulation of interleukin-6 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of JNK cascade|positive regulation of neutrophil chemotaxis|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein homodimerization activity|positive regulation of toll-like receptor 2 signaling pathway|positive regulation of toll-like receptor 3 signaling pathway|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of tumor necrosis factor production|regulation of interferon-beta production|response to lipopolysaccharide|TIRAP-dependent toll-like receptor 4 signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway	endocytic vesicle|intrinsic to membrane|ruffle membrane	phosphatidylinositol-4,5-bisphosphate binding|protein binding, bridging|protein heterodimerization activity|protein homodimerization activity|protein kinase C delta binding|Toll-like receptor 2 binding|Toll-like receptor 4 binding|transmembrane receptor activity			ovary(1)	1	all_hematologic(175;0.145)	Breast(109;0.00156)|Lung NSC(97;0.00948)|all_lung(97;0.0101)|Medulloblastoma(222;0.0425)|all_neural(223;0.0604)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0739)		CAACTCCCCAGAAAGCACCTC	0.602													14	57					0	0	0.016723	0	0		A	126162425	A	A	126162425	3	1	25	1	0	0	0	0	1	0	0	0	15952	943	33	4	127	4	TIRAP	11	126162425	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	295239	126162425	8844091	701	21701											
KIRREL3	84623	broad.mit.edu	37	chr11	126294828	126294828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgctgcttgcccgcaggacGcaggtcgggctggcagctgg	5	6	17	13	4	0	0	0	0	0	0	1	1	0	1	1	5	3	7	1	5	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:126294828G>A	uc001qea.2	-	17	2345	c.1984C>T	c.(1984-1986)CGT>TGT	p.R662C	KIRREL3_uc001qeb.2_Missense_Mutation_p.R650C|ST3GAL4_uc001qdx.1_Intron	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	662	Cytoplasmic (Potential).				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		CCCGCAGGACGCAGGTCGGGC	0.632													11	33					0	0	0.008291	0	0		A	126294828	A	A	126294828	3	1	25	1	0	0	0	0	1	0	0	0	8342	1087	38	1	356	1	KIRREL3	11	126294828	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	132403	126294828	8711688	702	21702											
FLI1	2313	broad.mit.edu	37	chr11	128638142	128638142	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcccaacatgaccaccaaCgagaggagagtcatcgtccc	12	5	8	16	2	1	3	1	1	0	2	4	5	3	3	5	1	2	0	5	1	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:128638142C>T	uc010sbu.1	+	3	701	c.360C>T	c.(358-360)AAC>AAT	p.N120N	FLI1_uc010sbt.1_Intron|FLI1_uc010sbv.1_Silent_p.N87N|FLI1_uc009zci.2_Silent_p.N54N|FLI1_uc001qen.2_Silent_p.N87N	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1	120	PNT.				hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		TGACCACCAACGAGAGGAGAG	0.582			T	EWSR1	Ewing sarcoma								11	67					0	0	0.013537	0	0		T	128638142	T	T	128638142	2	4	25	1	0	0	0	0	0	0	0	1	5938	535	19	1		1	FLI1	11	128638142	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2343314	128638142	6368374	703	21703											
NTM	50863	broad.mit.edu	37	chr11	132177681	132177681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcctccaatgacgtggccGcgcccgtggtacggagagta	7	7	15	12	5	0	2	0	1	0	1	1	3	1	2	4	3	2	2	4	3	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:132177681G>A	uc001qgp.2	+	4	1289	c.625G>A	c.(625-627)GCG>ACG	p.A209T	NTM_uc001qgm.2_Missense_Mutation_p.A209T|NTM_uc010sch.1_Missense_Mutation_p.A200T|NTM_uc010sci.1_Missense_Mutation_p.A209T|NTM_uc010scj.1_Missense_Mutation_p.A168T|NTM_uc001qgo.2_Missense_Mutation_p.A209T|NTM_uc001qgq.2_Missense_Mutation_p.A209T|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	209	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						TGACGTGGCCGCGCCCGTGGT	0.577													15	63					0	0	0.004007	0	0		A	132177681	A	A	132177681	3	1	25	1	0	0	0	0	1	0	0	0	10718	1087	38	1	725	1	NTM	11	132177681	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3539539	132177681	2828835	704	21704											
JAM3	83700	broad.mit.edu	37	chr11	134015869	134015869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctgttcacaaggacgactCtgggcagtactactgcattg	9	11	11	10	1	2	0	1	0	1	0	2	2	2	1	0	2	4	5	0	2	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:134015869C>T	uc001qhb.1	+	6	800	c.776C>T	c.(775-777)TCT>TTT	p.S259F	JAM3_uc009zcz.1_Missense_Mutation_p.S208F	NM_032801	NP_116190	Q9BX67	JAM3_HUMAN	junctional adhesion molecule 3 precursor	214	Extracellular (Potential).|Ig-like C2-type.				angiogenesis|blood coagulation|regulation of neutrophil chemotaxis	cell-cell contact zone|desmosome|extracellular space|integral to membrane	integrin binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.06e-21)|all_epithelial(12;3.37e-16)|all_lung(97;7.03e-06)|Lung NSC(97;1.67e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0506)|Esophageal squamous(93;0.0566)		Epithelial(10;1.55e-09)|BRCA - Breast invasive adenocarcinoma(10;1.35e-08)|all cancers(11;2.81e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00402)|Lung(977;0.245)		AAGGACGACTCTGGGCAGTAC	0.502													28	136					0	0	0.012213	0	0		T	134015869	T	T	134015869	3	4	25	1	0	0	0	0	1	0	0	0	7960	913	32	4	798	4	JAM3	11	134015869	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1838188	134015869	990647	705	21705											
NCAPD3	23310	broad.mit.edu	37	chr11	134038926	134038926	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcctcttcagtaacaggTgagccaggcaaaactccccg	10	8	10	13	1	2	1	1	1	1	0	4	1	4	1	4	3	3	3	4	3	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:134038926T>C	uc001qhd.1	-	25	3731	c.3125A>G	c.(3124-3126)CAC>CGC	p.H1042R	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA|NCAPD3_uc001qhc.1_5'UTR	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	1042					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		CAGTAACAGGTGAGCCAGGCA	0.423													16	57					0	0	0.006122	0	0		C	134038926	C	C	134038926	3	2	25	1	0	0	0	0	1	0	0	0	10225	1696	59	3	1415	3	NCAPD3	11	134038926	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	23057	134038926	967590	706	21706											
GLB1L3	112937	broad.mit.edu	37	chr11	134151966	134151966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggctgtgggtgattctgcGtccaggccgctacatctgca	5	10	14	12	3	2	1	0	1	2	0	3	1	3	1	2	3	3	3	2	3	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr11:134151966G>A	uc009zdf.2	+	5	839	c.479G>A	c.(478-480)CGT>CAT	p.R160H	GLB1L3_uc010scs.1_Missense_Mutation_p.R160H|GLB1L3_uc010sct.1_Missense_Mutation_p.R12H	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3	160					carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		GTGATTCTGCGTCCAGGCCGC	0.617													10	24					0	0	0.008291	0	0		A	134151966	A	A	134151966	3	1	25	1	0	0	0	0	1	0	0	0	6445	1145	40	1	497	1	GLB1L3	11	134151966	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	113040	134151966	854550	707	21707											
CACNA1C	775	broad.mit.edu	37	chr12	2800256	2800256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtgaactgcagggacgCggggcaggaccgagccgggg	7	5	19	10	4	0	1	0	1	0	0	0	4	0	3	2	6	3	2	2	6	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:2800256C>T	uc009zdu.1	+	50	6870	c.6557C>T	c.(6556-6558)GCG>GTG	p.A2186V	CACNA1C_uc009zdv.1_Missense_Mutation_p.A2100V|CACNA1C_uc001qkb.2_Missense_Mutation_p.A2103V|CACNA1C_uc001qkc.2_Missense_Mutation_p.A2122V|CACNA1C_uc001qke.2_Missense_Mutation_p.A2092V|CACNA1C_uc001qkf.2_Missense_Mutation_p.A2111V|CACNA1C_uc001qjz.2_Missense_Mutation_p.A2103V|CACNA1C_uc001qkd.2_Missense_Mutation_p.A2122V|CACNA1C_uc001qkg.2_Missense_Mutation_p.A2109V|CACNA1C_uc009zdw.1_Missense_Mutation_p.A2144V|CACNA1C_uc001qkh.2_Missense_Mutation_p.A2111V|CACNA1C_uc001qkl.2_Missense_Mutation_p.A2151V|CACNA1C_uc001qkn.2_Missense_Mutation_p.A2103V|CACNA1C_uc001qko.2_Missense_Mutation_p.A2123V|CACNA1C_uc001qkp.2_Missense_Mutation_p.A2103V|CACNA1C_uc001qkr.2_Missense_Mutation_p.A2120V|CACNA1C_uc001qku.2_Missense_Mutation_p.A2138V|CACNA1C_uc001qkq.2_Missense_Mutation_p.A2131V|CACNA1C_uc001qks.2_Missense_Mutation_p.A2103V|CACNA1C_uc001qkt.2_Missense_Mutation_p.A2122V|CACNA1C_uc001qki.1_Missense_Mutation_p.A1910V|CACNA1C_uc001qkj.1_Missense_Mutation_p.A1874V|CACNA1C_uc001qkk.1_Missense_Mutation_p.A1839V|CACNA1C_uc001qkm.1_Missense_Mutation_p.A1899V|CACNA1C_uc010sea.1_Missense_Mutation_p.A794V|uc001qkx.1_RNA|CACNA1C_uc001qky.1_Missense_Mutation_p.A421V	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	2186	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	TGCAGGGACGCGGGGCAGGAC	0.687													7	28					0	0	0.004482	0	0		T	2800256	T	T	2800256	3	4	25	1	0	0	0	0	1	0	0	0	2543	768	27	1	7203	1	CACNA1C	12	2800256	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08		2800256	131051639	708	21708											
ITFG2	55846	broad.mit.edu	37	chr12	2929276	2929276	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgggtgtcgtgagctggTggtgggctacacagaccgtg	7	9	18	7	2	0	3	0	1	0	2	1	3	0	3	1	4	2	2	1	4	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:2929276T>C	uc001qlb.1	+	5	495	c.431T>C	c.(430-432)GTG>GCG	p.V144A	ITFG2_uc010seb.1_5'UTR|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	144	FG-GAP 2; atypical.										0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			CGTGAGCTGGTGGTGGGCTAC	0.597													19	97					0	0	0.010504	0	0		C	2929276	C	C	2929276	3	2	25	1	0	0	0	0	1	0	0	0	7886	1696	59	3	449	3	ITFG2	12	2929276	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	129020	2929276	130922619	709	21709											
PRMT8	56341	broad.mit.edu	37	chr12	3678673	3678673	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcttatgtttccagaccggGcagctttgtacgtggtagcg	6	12	14	9	3	0	1	0	0	0	1	1	1	1	1	2	3	3	6	2	3	3	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:3678673G>A	uc001qmf.2	+	6	1022	c.655G>A	c.(655-657)GCA>ACA	p.A219T	PRMT8_uc009zed.2_Missense_Mutation_p.A210T|PRMT8_uc009zee.1_RNA|PRMT8_uc001qmg.2_Missense_Mutation_p.A33T	NM_019854	NP_062828	Q9NR22	ANM8_HUMAN	HMT1 hnRNP methyltransferase-like 4	219					regulation of protein binding	cytoplasm|plasma membrane	histone-arginine N-methyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity			ovary(3)|central_nervous_system(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(31;0.0109)|COAD - Colon adenocarcinoma(12;0.0264)			TCCAGACCGGGCAGCTTTGTA	0.463													30	125					0	0	0.009535	0	0		A	3678673	A	A	3678673	3	1	25	1	0	0	0	0	1	0	0	0	12564	1203	42	2	677	2	PRMT8	12	3678673	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	749397	3678673	130173222	710	21710											
PARP11	57097	broad.mit.edu	37	chr12	3921503	3921503	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatgttctaaacagatgcCgctgttgcaagctgacacca	12	11	8	10	1	1	2	0	1	1	1	1	2	1	2	2	0	4	5	2	0	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:3921503C>T	uc001qmk.1	-	7	837	c.782G>A	c.(781-783)CGG>CAG	p.R261Q	PARP11_uc001qml.2_Missense_Mutation_p.R268Q|PARP11_uc009zef.2_RNA|PARP11_uc001qmm.2_Missense_Mutation_p.R187Q|PARP11_uc001qmn.2_Missense_Mutation_p.R187Q	NM_020367	NP_065100	Q9NR21	PAR11_HUMAN	poly (ADP-ribose) polymerase family, member 11	261	PARP catalytic.						NAD+ ADP-ribosyltransferase activity			ovary(1)|central_nervous_system(1)	2			all cancers(3;1.58e-07)|OV - Ovarian serous cystadenocarcinoma(31;0.00287)|GBM - Glioblastoma multiforme(3;0.0141)|COAD - Colon adenocarcinoma(12;0.0264)			AAACAGATGCCGCTGTTGCAA	0.408													16	123					0	0	0.004007	0	0		T	3921503	T	T	3921503	3	4	25	1	0	0	0	0	1	0	0	0	11475	652	23	1	217	1	PARP11	12	3921503	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	242830	3921503	129930392	711	21711											
FGF6	2251	broad.mit.edu	37	chr12	4553300	4553300	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccggcctggtgaactcaccGttgcgtacaatcttccttta	7	12	8	14	3	2	1	1	1	1	0	3	1	3	1	4	2	3	2	4	2	4	5	rs140216440		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:4553300G>A	uc001qmr.1	-	2	493	c.449C>T	c.(448-450)ACG>ATG	p.T150M		NM_020996	NP_066276	P10767	FGF6_HUMAN	fibroblast growth factor 6 precursor	150					angiogenesis|cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	growth factor activity			lung(2)|ovary(1)	3			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)			TGAACTCACCGTTGCGTACAA	0.478													16	51					0	0	0.004007	0	0		A	4553300	A	A	4553300	3	1	25	1	0	0	0	0	1	0	0	0	5870	1159	40	1	185	1	FGF6	12	4553300	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	631797	4553300	129298595	712	21712											
KCNA5	3741	broad.mit.edu	37	chr12	5153999	5153999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaggagaagcccctgccccGcaacgagttccagcgccagg	10	3	13	15	3	0	2	0	0	0	2	1	4	1	2	6	2	4	2	6	2	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:5153999G>A	uc001qni.2	+	1	915	c.686G>A	c.(685-687)CGC>CAC	p.R229H		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	229						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						CCCCTGCCCCGCAACGAGTTC	0.607													46	187					0	0	0.01441	0	0		A	5153999	A	A	5153999	3	1	25	1	0	0	0	0	1	0	0	0	8022	1087	38	1	688	1	KCNA5	12	5153999	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	600699	5153999	128697896	713	21713											
ZNF384	171017	broad.mit.edu	37	chr12	6776956	6776956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccttatgatgctccgccGtcttatacggggtcaggtca	6	13	11	11	3	3	1	2	1	1	0	5	1	5	1	3	3	2	1	3	3	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:6776956G>A	uc010sfh.1	-	11	1866	c.1658C>T	c.(1657-1659)ACG>ATG	p.T553M	ZNF384_uc001qpz.2_Missense_Mutation_p.T492M|ZNF384_uc001qqa.2_Missense_Mutation_p.T492M|ZNF384_uc001qqb.2_Missense_Mutation_p.T476M|ZNF384_uc001qqc.2_Missense_Mutation_p.T492M|ZNF384_uc001qqd.2_Missense_Mutation_p.T437M|ZNF384_uc001qqe.2_Missense_Mutation_p.T476M	NM_001135734	NP_001129206	Q8TF68	ZN384_HUMAN	nuclear matrix transcription factor 4 isoform d	553					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/ZNF384(4)	haematopoietic_and_lymphoid_tissue(4)|central_nervous_system(3)|kidney(1)	8						ATGCTCCGCCGTCTTATACGG	0.622			T	EWSR1|TAF15 	ALL								78	310					0	0	0.01441	0	0		A	6776956	A	A	6776956	3	1	25	1	0	0	0	0	1	0	0	0	17900	1145	40	1	79	1	ZNF384	12	6776956	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1622957	6776956	127074939	714	21714											
ACSM4	341392	broad.mit.edu	37	chr12	7463150	7463150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagggatcatcttcatgcCgggaacaatccagctgacag	11	7	10	13	1	3	1	2	1	1	0	4	3	4	3	3	2	3	1	3	2	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:7463150C>T	uc001qsx.1	+	3	428	c.428C>T	c.(427-429)CCG>CTG	p.P143L		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	143					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						ATCTTCATGCCGGGAACAATC	0.577													4	12					0	0	0.009096	0	0		T	7463150	T	T	7463150	3	4	25	1	0	0	0	0	1	0	0	0	186	652	23	1	438	1	ACSM4	12	7463150	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	686194	7463150	126388745	715	21715											
GDF3	9573	broad.mit.edu	37	chr12	7842751	7842751	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgccaacccaggtcccggAagttaatgaatagctggtga	11	9	12	9	1	0	2	0	2	0	0	1	3	1	3	3	3	3	2	3	3	5	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:7842751A>G	uc001qte.2	-	2	854	c.818T>C	c.(817-819)TTC>TCC	p.F273S		NM_020634	NP_065685	Q9NR23	GDF3_HUMAN	growth differentiation factor 3 precursor	273					eye development|growth|skeletal system development	extracellular space	cytokine activity|growth factor activity			skin(3)|ovary(1)|lung(1)|central_nervous_system(1)	6						CAGGTCCCGGAAGTTAATGAA	0.532													4	160					0	0	0.014758	0	0		G	7842751	G	G	7842751	3	3	25	1	0	0	0	0	1	0	0	0	6330	246	9	3	280	3	GDF3	12	7842751	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	379601	7842751	126009144	716	21716											
CLEC2D	29121	broad.mit.edu	37	chr12	9847427	9847427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtagtgccaggcactacaCagagaggaagtggatttgtt	12	9	13	7	0	0	1	0	0	0	1	0	4	0	3	1	3	2	3	1	3	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:9847427C>T	uc001qwg.1	+	5	555	c.533C>T	c.(532-534)ACA>ATA	p.T178I	CLEC2D_uc001qwf.1_3'UTR|CLEC2D_uc009zgs.1_RNA|CLEC2D_uc001qwh.1_RNA|CLEC2D_uc009zgt.1_RNA|CLEC2D_uc009zgu.1_3'UTR	NM_013269	NP_037401	Q9UHP7	CLC2D_HUMAN	osteoclast inhibitory lectin isoform 1	178	Extracellular (Potential).|C-type lectin.				cell surface receptor linked signaling pathway	cell surface|endoplasmic reticulum|integral to plasma membrane|membrane fraction	sugar binding|transmembrane receptor activity				0						AGGCACTACACAGAGAGGAAG	0.413													16	78					0	0	0.004007	0	0		T	9847427	T	T	9847427	3	4	25	1	0	0	0	0	1	0	0	0	3511	478	17	4	637	4	CLEC2D	12	9847427	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2004676	9847427	124004468	717	21717											
PTPRO	5800	broad.mit.edu	37	chr12	15637007	15637007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatctgtgtatgttgtgAagataactggtgaatccaaa	13	12	10	6	0	1	3	0	2	1	1	2	3	2	3	1	1	2	3	1	1	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:15637007A>G	uc001rcv.1	+	2	349	c.175A>G	c.(175-177)AAG>GAG	p.K59E	PTPRO_uc001rcw.1_Missense_Mutation_p.K59E|PTPRO_uc001rcu.1_Missense_Mutation_p.K59E	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	59	Fibronectin type-III 1.|Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)				GTATGTTGTGAAGATAACTGG	0.388													27	104					0	0	0.00632	0	0		G	15637007	G	G	15637007	3	3	25	1	0	0	0	0	1	0	0	0	12834	247	9	3	181	3	PTPRO	12	15637007	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	5789580	15637007	118214888	718	21718											
AEBP2	121536	broad.mit.edu	37	chr12	19615474	19615474	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actataatggatgtagacagCacaatttccagtgggcgttc	12	11	10	8	1	0	1	0	0	0	1	2	2	1	2	1	2	1	3	1	2	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:19615474C>T	uc001ref.2	+	2	728	c.702C>T	c.(700-702)AGC>AGT	p.S234S	AEBP2_uc001ree.2_Silent_p.S234S|AEBP2_uc001reg.1_Silent_p.S5S	NM_001114176	NP_001107648	Q6ZN18	AEBP2_HUMAN	AE binding protein 2 isoform b	234	Ser-rich.|Interaction with RBBP4.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)|Esophageal squamous(101;0.143)					ATGTAGACAGCACAATTTCCA	0.353													7	31					0	0	0.00308	0	0		T	19615474	T	T	19615474	2	4	25	1	0	0	0	0	0	0	0	1	350	709	25	2		2	AEBP2	12	19615474	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3978467	19615474	114236421	719	21719											
LST-3TM12	338821	broad.mit.edu	37	chr12	21201653	21201653	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttatttctaggagtcctCgccctacctgctgttgcaat	6	15	7	13	1	2	0	0	0	2	0	4	1	3	1	3	1	3	3	3	1	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:21201653C>T	uc010sin.1	+	8	1002	c.1002C>T	c.(1000-1002)CTC>CTT	p.L334L	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Silent_p.L381L	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	334						membrane	transporter activity				0						TAGGAGTCCTCGCCCTACCTG	0.244													3	12					0	0	0.004672	0	0		T	21201653	T	T	21201653	2	4	25	1	0	0	0	0	0	0	0	1	9084	871	31	1		1	LST-3TM12	12	21201653	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1586179	21201653	112650242	720	21720											
DBX2	440097	broad.mit.edu	37	chr12	45444539	45444539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgccgggtcgtggggcgCgggcggctgcagcctgggcg	1	5	23	12	7	0	0	0	0	0	0	2	0	0	0	2	7	2	2	2	7	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:45444539C>T	uc001rok.1	-	1	344	c.172G>A	c.(172-174)GCG>ACG	p.A58T		NM_001004329	NP_001004329	Q6ZNG2	DBX2_HUMAN	developing brain homeobox 2	58						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Lung SC(27;0.192)	Lung NSC(34;0.142)		GBM - Glioblastoma multiforme(48;0.0515)		TCGTGGGGCGCGGGCGGCTGC	0.731													5	2					0	0	0.014758	0	0		T	45444539	T	T	45444539	3	4	25	1	0	0	0	0	1	0	0	0	4263	768	27	1	863	1	DBX2	12	45444539	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	24242886	45444539	88407356	721	21721											
ARID2	196528	broad.mit.edu	37	chr12	46211654	46211654	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cactttactacttgctaatgCcggggtgtttgacgacagta	9	13	10	9	2	0	1	0	1	0	0	0	2	0	1	1	2	4	3	1	2	4	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:46211654C>T	uc001ros.1	+	5	620	c.620C>T	c.(619-621)GCC>GTC	p.A207V	ARID2_uc001ror.2_Missense_Mutation_p.A207V	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	207					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		CTTGCTAATGCCGGGGTGTTT	0.323													11	57					0	0	0.010729	0	0		T	46211654	T	T	46211654	3	4	25	1	0	0	0	0	1	0	0	0	915	739	26	2	638	2	ARID2	12	46211654	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	767115	46211654	87640241	722	21722											
ARID2	196528	broad.mit.edu	37	chr12	46230382	46230382	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcattacagttttggaaagAcatcgttgatgataatgaag	15	13	9	4	1	1	4	1	3	0	1	2	5	1	5	0	1	1	2	0	1	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:46230382A>T	uc001ros.1	+	7	716	c.716A>T	c.(715-717)GAC>GTC	p.D239V	ARID2_uc001ror.2_Missense_Mutation_p.D239V|ARID2_uc009zkg.1_5'Flank|ARID2_uc009zkh.1_5'Flank|ARID2_uc001rot.1_5'Flank	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	239					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TTTTGGAAAGACATCGTTGAT	0.274													14	37					0	0	0.020292	0	0		T	46230382	T	T	46230382	3	4	25	1	0	0	0	0	1	0	0	0	915	275	10	5	742	5	ARID2	12	46230382	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	18728	46230382	87621513	723	21723											
COL2A1	1280	broad.mit.edu	37	chr12	48367966	48367966	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggatgagcagggccttcTtgaggttgccagctgcttcg	5	11	14	11	1	1	2	0	2	1	0	2	3	1	3	3	3	4	4	3	3	0	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:48367966T>C	uc001rqu.2	-	53	4404	c.4223A>G	c.(4222-4224)AAG>AGG	p.K1408R	COL2A1_uc001rqt.2_Missense_Mutation_p.K189R|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.K1339R	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1408	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CAGGGCCTTCTTGAGGTTGCC	0.572													24	112					0	0	0.005443	0	0		C	48367966	C	C	48367966	3	2	25	1	0	0	0	0	1	0	0	0	3690	1609	56	3	248	3	COL2A1	12	48367966	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	2137584	48367966	85483929	724	21724											
MLL2	8085	broad.mit.edu	37	chr12	49420289	49420289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgctcaatgtagacccGccggaagacagcaaaagagc	13	4	11	13	3	1	3	1	0	0	3	2	4	2	4	3	1	2	3	3	1	5	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:49420289G>A	uc001rta.3	-	48	15460	c.15460C>T	c.(15460-15462)CGG>TGG	p.R5154W		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5154					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						ATGTAGACCCGCCGGAAGACA	0.552			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			30	94					0	0	0.009535	0	0		A	49420289	A	A	49420289	3	1	25	1	0	0	0	0	1	0	0	0	9639	1086	38	1	1181	1	MLL2	12	49420289	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1052323	49420289	84431606	725	21725											
MLL2	8085	broad.mit.edu	37	chr12	49433849	49433849	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttgcccaaggtggggccGggcccaaaatggctgttgat	7	8	16	10	1	0	1	0	1	0	0	0	1	0	1	3	6	1	3	3	6	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:49433849G>A	uc001rta.3	-	31	7704	c.7704C>T	c.(7702-7704)CCC>CCT	p.P2568P		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2568	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGGTGGGGCCGGGCCCAAAAT	0.632			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			4	39					0	0	0.001984	0	0		A	49433849	A	A	49433849	2	1	25	1	0	0	0	0	0	0	0	1	9639	1103	39	1		1	MLL2	12	49433849	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	13560	49433849	84418046	726	21726											
SPATS2	65244	broad.mit.edu	37	chr12	49908349	49908349	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcctagtttaatggatcGagaagtggcgttgcttgctg	7	16	12	6	2	0	1	0	0	0	1	2	3	1	2	1	2	2	4	1	2	3	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:49908349G>T	uc001rud.2	+	10	1840	c.851G>T	c.(850-852)CGA>CTA	p.R284L	SPATS2_uc001rue.2_RNA|SPATS2_uc009zli.1_Missense_Mutation_p.R284L|SPATS2_uc001ruf.2_Missense_Mutation_p.R284L|SPATS2_uc001rug.2_Missense_Mutation_p.R284L	NM_023071	NP_075559	Q86XZ4	SPAS2_HUMAN	spermatogenesis associated, serine-rich 2	284						cytoplasm				breast(1)	1						TTAATGGATCGAGAAGTGGCG	0.323													4	28					0.00024832	0.000253078	0.009096	1	0		T	49908349	T	T	49908349	3	4	25	1	0	0	0	0	1	0	0	0	15044	1058	37	5	881	5	SPATS2	12	49908349	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	474500	49908349	83943546	727	21727											
SPATS2	65244	broad.mit.edu	37	chr12	49918545	49918545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgagtagcccaagtgatGcctctgctgcttcctcttcc	5	13	8	15	0	2	2	0	2	2	0	4	2	4	2	5	0	4	3	5	0	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:49918545G>A	uc001rud.2	+	13	2181	c.1192G>A	c.(1192-1194)GCC>ACC	p.A398T	SPATS2_uc001rue.2_RNA|SPATS2_uc009zli.1_Missense_Mutation_p.A398T|SPATS2_uc001ruf.2_Missense_Mutation_p.A398T|SPATS2_uc001rug.2_Missense_Mutation_p.A398T	NM_023071	NP_075559	Q86XZ4	SPAS2_HUMAN	spermatogenesis associated, serine-rich 2	398	Ser-rich.					cytoplasm				breast(1)	1						CCCAAGTGATGCCTCTGCTGC	0.488													52	227					0	0	0.01441	0	0		A	49918545	A	A	49918545	3	1	25	1	0	0	0	0	1	0	0	0	15044	1319	46	2	1234	2	SPATS2	12	49918545	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	10196	49918545	83933350	728	21728											
FMNL3	91010	broad.mit.edu	37	chr12	50041505	50041505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttgtaagaacgaatgaatCggacaaatactgggaagaat	17	8	10	6	2	0	3	0	1	0	2	1	6	0	5	1	2	2	1	1	2	8	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:50041505C>T	uc001ruv.1	-	23	2993	c.2759G>A	c.(2758-2760)CGA>CAA	p.R920Q	FMNL3_uc001ruw.1_Missense_Mutation_p.R869Q|FMNL3_uc001rut.1_Missense_Mutation_p.R486Q|FMNL3_uc001ruu.1_Missense_Mutation_p.R770Q	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1	920	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						ACGAATGAATCGGACAAATAC	0.502													23	95					0	0	0.014323	0	0		T	50041505	T	T	50041505	3	4	25	1	0	0	0	0	1	0	0	0	5967	884	31	1	340	1	FMNL3	12	50041505	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	122960	50041505	83810390	729	21729											
NR4A1	3164	broad.mit.edu	37	chr12	52448715	52448715	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccaccggccccagccccagCctggcccagagccccctgaa	7	2	9	23	1	0	2	0	1	0	1	0	2	0	2	10	2	3	0	10	2	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:52448715C>A	uc001rzs.2	+	3	917	c.603C>A	c.(601-603)AGC>AGA	p.S201R	NR4A1_uc010sno.1_Missense_Mutation_p.S214R|NR4A1_uc001rzr.2_Missense_Mutation_p.S201R|NR4A1_uc009zmb.1_Missense_Mutation_p.S201R|NR4A1_uc001rzt.2_Missense_Mutation_p.S201R|NR4A1_uc009zmc.2_5'Flank	NM_002135	NP_002126	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	201					nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0967)		CCAGCCCCAGCCTGGCCCAGA	0.657													126	224					7.49792e-74	8.24295e-74	0.01441	1	0		A	52448715	A	A	52448715	3	1	25	1	0	0	0	0	1	0	0	0	10651	738	26	5	605	5	NR4A1	12	52448715	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2407210	52448715	81403180	730	21730											
NR4A1	3164	broad.mit.edu	37	chr12	52450996	52450996	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggctgaccaggacctgttGctggagtcggccttcctgga	5	9	14	13	2	0	1	0	1	0	0	2	4	1	4	5	5	1	3	5	5	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:52450996G>A	uc001rzs.2	+	6	1628	c.1314G>A	c.(1312-1314)TTG>TTA	p.L438L	NR4A1_uc010sno.1_Silent_p.L451L|NR4A1_uc001rzt.2_Silent_p.L438L|NR4A1_uc009zmc.2_Missense_Mutation_p.C52Y	NM_002135	NP_002126	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	438	Ligand-binding (Potential).				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0967)		AGGACCTGTTGCTGGAGTCGG	0.607													14	48					0	0	0.006122	0	0		A	52450996	A	A	52450996	2	1	25	1	0	0	0	0	0	0	0	1	10651	1310	46	2		2	NR4A1	12	52450996	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2281	52450996	81400899	731	21731											
KRT77	374454	broad.mit.edu	37	chr12	53091532	53091532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgttctggcgcatctgctccGcactgagcaaatccacctgc	7	9	9	16	3	2	1	0	1	2	0	4	1	4	1	3	1	3	5	3	1	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:53091532G>A	uc001saw.2	-	2	721	c.692C>T	c.(691-693)GCG>GTG	p.A231V	KRT77_uc009zmi.2_5'UTR	NM_175078	NP_778253	Q7Z794	K2C1B_HUMAN	keratin 77	231	Coil 1B.|Rod.					keratin filament	structural molecule activity			ovary(1)	1						CATCTGCTCCGCACTGAGCAA	0.577													305	444					0	0	0.01441	0	0		A	53091532	A	A	53091532	3	1	25	1	0	0	0	0	1	0	0	0	8506	1087	38	1	1076	1	KRT77	12	53091532	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	640536	53091532	80760363	732	21732											
KRT3	3850	broad.mit.edu	37	chr12	53189685	53189685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgccaaagccacctgctcCgctccggaagccataggccc	9	5	9	18	2	0	0	0	0	0	0	2	1	2	1	7	2	4	2	7	2	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:53189685C>T	uc001say.2	-	1	208	c.142G>A	c.(142-144)GGA>AGA	p.G48R		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	48	Gly-rich.|Head.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						CCACCTGCTCCGCTCCGGAAG	0.672													28	57					0	0	0.01441	0	0		T	53189685	T	T	53189685	3	4	25	1	0	0	0	0	1	0	0	0	8482	661	23	1	1780	1	KRT3	12	53189685	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	98153	53189685	80662210	733	21733											
TENC1	23371	broad.mit.edu	37	chr12	53457026	53457026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccagggcattacactgaCggacaaccaaaggaagtatg	15	5	11	10	1	0	1	0	1	0	0	0	3	0	3	2	3	3	2	2	3	5	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:53457026C>T	uc001sbp.2	+	26	4112	c.3977C>T	c.(3976-3978)ACG>ATG	p.T1326M	TENC1_uc001sbl.2_Missense_Mutation_p.T1202M|TENC1_uc001sbn.2_Missense_Mutation_p.T1336M|TENC1_uc001sbq.2_Missense_Mutation_p.T724M|TENC1_uc001sbr.2_RNA|TENC1_uc009zmr.2_Missense_Mutation_p.T819M|TENC1_uc001sbs.2_Missense_Mutation_p.T145M	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	1326					intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						ATTACACTGACGGACAACCAA	0.587													23	124					0	0	0.016522	0	0		T	53457026	T	T	53457026	3	4	25	1	0	0	0	0	1	0	0	0	15783	536	19	1	4188	1	TENC1	12	53457026	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	267341	53457026	80394869	734	21734											
ERBB3	2065	broad.mit.edu	37	chr12	56478927	56478927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactataacaccaactccaGccacgctctgcgccagctcc	11	6	6	18	2	1	0	0	0	1	0	3	1	3	0	5	0	6	2	5	0	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:56478927G>A	uc001sjh.2	+	3	576	c.383G>A	c.(382-384)AGC>AAC	p.S128N	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.S69N|ERBB3_uc001sjg.2_Missense_Mutation_p.S128N	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	128	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			ACCAACTCCAGCCACGCTCTG	0.577													106	149					0	0	0.01441	0	0		A	56478927	A	A	56478927	3	1	25	1	0	0	0	0	1	0	0	0	5216	971	34	2	393	2	ERBB3	12	56478927	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3021901	56478927	77372968	735	21735											
PA2G4	5036	broad.mit.edu	37	chr12	56505000	56505000	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtttaaatttacagttctGctcatgcccaatggccccat	10	13	6	12	0	2	0	1	0	1	0	2	0	2	0	3	1	3	3	3	1	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:56505000G>A	uc001sjm.2	+	11	1391	c.972G>A	c.(970-972)CTG>CTA	p.L324L	PA2G4_uc009zol.2_Silent_p.L324L|PA2G4_uc009zom.2_Intron	NM_006191	NP_006182	Q9UQ80	PA2G4_HUMAN	ErbB3-binding protein 1	324	Necessary for nucleolar localization.				cell cycle arrest|cell proliferation|negative regulation of transcription, DNA-dependent|regulation of translation|rRNA processing	cytoplasm|nucleolus|ribonucleoprotein complex	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|ubiquitin protein ligase binding				0			OV - Ovarian serous cystadenocarcinoma(18;0.0739)			TTACAGTTCTGCTCATGCCCA	0.433													54	85					0	0	0.01441	0	0		A	56505000	A	A	56505000	2	1	25	1	0	0	0	0	0	0	0	1	11380	1306	46	2		2	PA2G4	12	56505000	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	26073	56505000	77346895	736	21736											
PAN2	9924	broad.mit.edu	37	chr12	56721843	56721843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgatggtgactccaggcGtctctactgcatactggaga	9	11	11	10	1	2	3	1	2	1	1	4	4	3	3	1	3	3	1	1	3	2	2	rs139831098	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:56721843G>A	uc001skx.2	-	5	960	c.587C>T	c.(586-588)ACG>ATG	p.T196M	PAN2_uc001skz.2_Missense_Mutation_p.T196M|PAN2_uc001sky.2_Missense_Mutation_p.T196M	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	196					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						GACTCCAGGCGTCTCTACTGC	0.527													23	51					0	0	0.014323	0	0		A	56721843	A	A	56721843	3	1	25	1	0	0	0	0	1	0	0	0	11433	1145	40	1	3109	1	PAN2	12	56721843	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	216843	56721843	77130052	737	21737											
BAZ2A	11176	broad.mit.edu	37	chr12	56995599	56995599	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtctggctcagccaagacaGgaaggctgactggctgaggt	10	7	15	9	0	2	3	1	2	1	1	2	4	2	4	1	5	1	3	1	5	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:56995599G>T	uc001slq.1	-	20	4002	c.3808C>A	c.(3808-3810)CTG>ATG	p.L1270M	BAZ2A_uc001slp.1_Missense_Mutation_p.L1268M|BAZ2A_uc001slo.1_Missense_Mutation_p.L98M|BAZ2A_uc009zov.1_Missense_Mutation_p.L240M|BAZ2A_uc009zow.1_Missense_Mutation_p.L1238M	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1270	Glu-rich.				chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						AGCCAAGACAGGAAGGCTGAC	0.498													13	166					1.49906e-05	1.53798e-05	0.020292	1	0		T	56995599	T	T	56995599	3	4	25	1	0	0	0	0	1	0	0	0	1332	991	35	5	1949	5	BAZ2A	12	56995599	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	273756	56995599	76856296	738	21738											
R3HDM2	22864	broad.mit.edu	37	chr12	57663593	57663593	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctgagtaggtggtgcaTggctagaggtggaatagttg	8	12	17	4	0	0	2	0	1	0	1	0	3	0	3	0	5	2	5	0	5	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:57663593T>C	uc009zpm.1	-	13	1522	c.1487A>G	c.(1486-1488)CAT>CGT	p.H496R	R3HDM2_uc010srn.1_RNA|R3HDM2_uc001snu.2_Missense_Mutation_p.H191R|R3HDM2_uc001snr.2_Missense_Mutation_p.H223R|R3HDM2_uc001sns.2_Missense_Mutation_p.H496R|R3HDM2_uc001snt.2_Missense_Mutation_p.H510R|R3HDM2_uc009zpn.1_Missense_Mutation_p.H119R	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	496	Gln-rich.					nucleus	nucleic acid binding			ovary(2)	2						AGGTGGTGCATGGCTAGAGGT	0.547													19	90					0	0	0.012319	0	0		C	57663593	C	C	57663593	3	2	25	1	0	0	0	0	1	0	0	0	12913	1464	51	3	1483	3	R3HDM2	12	57663593	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	667994	57663593	76188302	739	21739											
TMEM5	10329	broad.mit.edu	37	chr12	64196138	64196138	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcataatatatgacagcccCtggattaatgacgtggatgt	12	13	9	7	1	1	2	1	2	0	0	1	4	1	4	2	2	1	0	2	2	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:64196138C>T	uc001srq.1	+	4	800	c.696C>T	c.(694-696)CCC>CCT	p.P232P	TMEM5_uc001srr.1_Silent_p.P129P|TMEM5_uc001srs.1_5'UTR	NM_014254	NP_055069	Q9Y2B1	TMEM5_HUMAN	transmembrane protein 5	232	Extracellular (Potential).					integral to plasma membrane					0		Myeloproliferative disorder(1001;0.0255)	BRCA - Breast invasive adenocarcinoma(9;0.0985)	GBM - Glioblastoma multiforme(28;9e-08)|BRCA - Breast invasive adenocarcinoma(357;0.000175)		ATGACAGCCCCTGGATTAATG	0.383													32	134					0	0	0.015359	0	0		T	64196138	T	T	64196138	2	4	25	1	0	0	0	0	0	0	0	1	16199	668	24	4		4	TMEM5	12	64196138	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6532545	64196138	69655757	740	21740											
CPSF6	11052	broad.mit.edu	37	chr12	69656202	69656202	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagatcacgagaaaagagtCgacgtcataaatcccgtagt	15	8	10	8	4	2	3	2	0	0	3	4	5	3	3	1	0	0	2	1	0	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:69656202C>T	uc001sut.3	+	9	1629	c.1519C>T	c.(1519-1521)CGA>TGA	p.R507*	CPSF6_uc001suu.3_Nonsense_Mutation_p.R544*|CPSF6_uc010stk.1_Nonsense_Mutation_p.R139*	NM_007007	NP_008938	Q16630	CPSF6_HUMAN	cleavage and polyadenylation specific factor 6,	507	Arg-rich.				mRNA polyadenylation|protein tetramerization	mRNA cleavage factor complex|paraspeckles|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding				0	all_epithelial(5;2.47e-36)|Lung NSC(4;1.1e-32)|all_lung(4;6.26e-31)|Breast(13;1.59e-06)|Esophageal squamous(21;0.187)		Epithelial(6;4.89e-17)|BRCA - Breast invasive adenocarcinoma(5;8.5e-10)|Lung(24;6.04e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|LUSC - Lung squamous cell carcinoma(43;0.171)|Kidney(9;0.241)			AGAAAAGAGTCGACGTCATAA	0.383													36	100					0	0	0.006999	0	0		T	69656202	T	T	69656202	4	4	25	1	0	0	0	0	0	1	0	0	3832	876	31	1	1553	1	CPSF6	12	69656202	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	5460064	69656202	64195693	741	21741											
LRRIQ1	84125	broad.mit.edu	37	chr12	85546106	85546106	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagattccacccgcttccctTcacaaacactgcttctttca	9	13	3	16	1	3	1	2	0	1	1	5	1	5	1	3	0	2	2	3	0	2	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:85546106T>A	uc001tac.2	+	20	4489	c.4378T>A	c.(4378-4380)TCA>ACA	p.S1460T		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1460										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		CCGCTTCCCTTCACAAACACT	0.383													50	92					0	0	0.01441	0	0		A	85546106	A	A	85546106	3	1	25	1	0	0	0	0	1	0	0	0	9047	1783	62	5	4456	5	LRRIQ1	12	85546106	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	15889904	85546106	48305789	742	21742											
ATP2B1	490	broad.mit.edu	37	chr12	90020290	90020290	+	Frame_Shift_Del	DEL	T	-	-																															cttgtaaaacagatttttccTtttttggcaaatttgctttc																										TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:90020290delT	uc001tbh.2	-	7	1251	c.1070delA	c.(1069-1071)AAGfs	p.K357fs	ATP2B1_uc001tbg.2_Frame_Shift_Del_p.K357fs|ATP2B1_uc001tbf.2_Frame_Shift_Del_p.K27fs	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	357	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						AGATTTTTCCTTTTTTGGCAA	0.358													64	92	---	---	---	---						.	-	90020290	-	-	90020290	7	5	25	1	0	1	0	1	0	0	0	0	1140	1609	56	0	2806	0	ATP2B1	12	90020290	Frame_Shift_Del	DEL	T	TCGA-BR-4370-01A-01D-1158-08	4474184	90020290	43831605	743	21743											
TMCC3	57458	broad.mit.edu	37	chr12	94976112	94976112	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcactagtttcagatactccGcaacattcccatcgcgcgat	10	11	6	14	4	2	1	2	0	0	1	5	2	4	1	2	0	2	2	2	0	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:94976112G>T	uc001tdj.2	-	2	399	c.281C>A	c.(280-282)GCG>GAG	p.A94E	TMCC3_uc001tdi.2_Missense_Mutation_p.A63E	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	94						integral to membrane				ovary(1)|skin(1)	2						CAGATACTCCGCAACATTCCC	0.453													116	211					5.62818e-54	6.1776e-54	0.01441	1	0		T	94976112	T	T	94976112	3	4	25	1	0	0	0	0	1	0	0	0	16019	1087	38	5	1164	5	TMCC3	12	94976112	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4955822	94976112	38875783	744	21744											
C12orf63	374467	broad.mit.edu	37	chr12	97084978	97084978	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatgaaatcactcagcttCtcccaggcattgaactcttc	12	12	5	12	0	4	2	2	2	2	0	6	2	4	2	1	1	2	2	1	1	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:97084978C>A	uc001tet.1	+	11	1507	c.1429C>A	c.(1429-1431)CTC>ATC	p.L477I		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	477										skin(6)|ovary(1)	7						CACTCAGCTTCTCCCAGGCAT	0.383													50	86					1.83081e-24	1.99057e-24	0.01441	1	0		A	97084978	A	A	97084978	3	1	25	1	0	0	0	0	1	0	0	0	1709	913	32	5	1467	5	C12orf63	12	97084978	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2108866	97084978	36766917	745	21745											
SLC17A8	246213	broad.mit.edu	37	chr12	100774527	100774527	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gataacattgagctgaatgaAgaaggaaggccggtgcagac	15	6	14	6	1	0	5	0	3	0	2	0	7	0	6	1	3	3	2	1	3	5	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:100774527A>T	uc010svi.1	+	2	463	c.150A>T	c.(148-150)GAA>GAT	p.E50D	SLC17A8_uc009ztx.2_Missense_Mutation_p.E50D	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	50	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						AGCTGAATGAAGAAGGAAGGC	0.493													122	223					0	0	0.01441	0	0		T	100774527	T	T	100774527	3	4	25	1	0	0	0	0	1	0	0	0	14448	69	3	5	156	5	SLC17A8	12	100774527	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	3689549	100774527	33077368	746	21746											
ALDH1L2	160428	broad.mit.edu	37	chr12	105467707	105467707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctactcggtggccctctttgCggaggtggctatagacttct	5	13	12	11	2	2	1	0	0	2	1	3	2	2	2	1	5	2	1	1	5	3	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:105467707C>T	uc001tlc.2	-	2	252	c.125G>A	c.(124-126)CGC>CAC	p.R42H	ALDH1L2_uc009zup.2_RNA	NM_001034173	NP_001029345	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	42	GART.				10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1						GCCCTCTTTGCGGAGGTGGCT	0.478													74	133					0	0	0.01441	0	0		T	105467707	T	T	105467707	3	4	25	1	0	0	0	0	1	0	0	0	495	768	27	1	2734	1	ALDH1L2	12	105467707	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4693180	105467707	28384188	747	21747											
C12orf51	283450	broad.mit.edu	37	chr12	112622701	112622701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgatgagcagggtgagtgCgcggtggaaccacagcatgt	10	7	17	7	2	0	3	0	3	0	0	0	5	0	4	1	3	4	2	1	3	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:112622701C>T	uc009zwc.2	-	54	8821	c.8803G>A	c.(8803-8805)GCA>ACA	p.A2935T		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						AGGGTGAGTGCGCGGTGGAAC	0.677													31	49					0	0	0.010818	0	0		T	112622701	T	T	112622701	3	4	25	1	0	0	0	0	1	0	0	0	1699	768	27	1	3251	1	C12orf51	12	112622701	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7154994	112622701	21229194	748	21748											
TBX5	6910	broad.mit.edu	37	chr12	114804092	114804092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacactggtattgggaccccAaattggatgaggtggagaga	12	8	14	7	0	0	2	0	1	0	1	0	6	0	5	2	5	0	1	2	5	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:114804092A>G	uc001tvo.2	-	8	1355	c.860T>C	c.(859-861)TTG>TCG	p.L287S	TBX5_uc001tvp.2_Missense_Mutation_p.L287S|TBX5_uc001tvq.2_Missense_Mutation_p.L237S|TBX5_uc010syv.1_Missense_Mutation_p.L287S	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	287					cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		TTGGGACCCCAAATTGGATGA	0.577													72	109					0	0	0.01441	0	0		G	114804092	G	G	114804092	3	3	25	1	0	0	0	0	1	0	0	0	15686	131	5	3	771	3	TBX5	12	114804092	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	2181391	114804092	19047803	749	21749											
CCDC64	92558	broad.mit.edu	37	chr12	120530903	120530903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggggccacagcgctgggCggggggatgagcccagcatc	7	3	19	12	2	0	1	0	1	0	0	1	2	0	2	2	6	3	3	2	6	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:120530903C>T	uc001txl.1	+	9	1685	c.1660C>T	c.(1660-1662)CGG>TGG	p.R554W	CCDC64_uc009zwv.1_RNA|CCDC64_uc010sze.1_Missense_Mutation_p.R225W|CCDC64_uc010szf.1_Missense_Mutation_p.R251W	NM_207311	NP_997194	Q6ZP65	BICR1_HUMAN	coiled-coil domain containing 64	554					Golgi to secretory granule transport|neuron projection development	centrosome	dynactin binding|Rab GTPase binding			ovary(2)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CAGCGCTGGGCGGGGGGATGA	0.592													19	57					0	0	0.008871	0	0		T	120530903	T	T	120530903	3	4	25	1	0	0	0	0	1	0	0	0	2838	759	27	1	1694	1	CCDC64	12	120530903	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	5726811	120530903	13320992	750	21750											
ABCB9	23457	broad.mit.edu	37	chr12	123444274	123444274	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctgcagcgtggccccaGacgcctgctcgggcggtggc	3	7	16	15	4	1	1	0	0	1	1	2	1	1	1	3	4	3	3	3	4	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:123444274G>T	uc001udm.3	-	2	819	c.509C>A	c.(508-510)TCT>TAT	p.S170Y	ABCB9_uc009zxr.2_Intron|ABCB9_uc001udo.3_Missense_Mutation_p.S170Y|ABCB9_uc010taj.1_Missense_Mutation_p.S170Y|ABCB9_uc001udp.2_Missense_Mutation_p.S170Y|ABCB9_uc001udq.2_Translation_Start_Site|ABCB9_uc001udr.2_Missense_Mutation_p.S170Y	NM_019625	NP_062571	Q9NP78	ABCB9_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	170					positive regulation of T cell mediated cytotoxicity|protein transport	lysosomal membrane|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.84e-05)|Epithelial(86;0.000152)|BRCA - Breast invasive adenocarcinoma(302;0.111)		CGTGGCCCCAGACGCCTGCTC	0.701													27	50					2.81731e-10	2.96526e-10	0.010818	1	0		T	123444274	T	T	123444274	3	4	25	1	0	0	0	0	1	0	0	0	48	942	33	5	1835	5	ABCB9	12	123444274	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2913371	123444274	10407621	751	21751											
RIMBP2	23504	broad.mit.edu	37	chr12	130898786	130898786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatccgggccgggagctcttCggcaccagggtcagtttctg	5	9	15	12	3	3	0	1	0	2	0	5	2	4	1	3	4	1	3	3	4	0	2	rs138034003		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:130898786C>T	uc001uil.2	-	14	2700	c.2536G>A	c.(2536-2538)GAA>AAA	p.E846K		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	846						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		GGGAGCTCTTCGGCACCAGGG	0.567													63	92					0	0	0.01441	0	0		T	130898786	T	T	130898786	3	4	25	1	0	0	0	0	1	0	0	0	13388	893	31	1	646	1	RIMBP2	12	130898786	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7454512	130898786	2953109	752	21752											
SFRS8	6433	broad.mit.edu	37	chr12	132237851	132237851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggaccacaccactacCgcccccaaccacagcagaga	12	3	7	19	1	0	1	0	0	0	1	1	3	1	2	7	1	3	1	7	1	2	1	rs149701391	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:132237851C>T	uc001uja.1	+	8	1405	c.1265C>T	c.(1264-1266)CCG>CTG	p.P422L	SFRS8_uc010tbn.1_Missense_Mutation_p.P422L|SFRS8_uc001ujb.1_Missense_Mutation_p.P215L|SFRS8_uc001uiz.1_Missense_Mutation_p.P296L	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	422	Poly-Pro.				mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		ACACCACTACCGCCCCCAACC	0.627													19	63					0	0	0.021523	0	0		T	132237851	T	T	132237851	3	4	25	1	0	0	0	0	1	0	0	0	14208	652	23	1	1295	1	SFRS8	12	132237851	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1339065	132237851	1614044	753	21753											
ANKLE2	23141	broad.mit.edu	37	chr12	133304630	133304630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacatacctctgtctgtccGagggtgagtagcacaggaca	10	8	11	12	1	2	1	0	1	2	0	3	3	3	2	3	2	2	2	3	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr12:133304630G>A	uc001ukx.2	-	12	2670	c.2603C>T	c.(2602-2604)TCG>TTG	p.S868L	ANKLE2_uc009zyw.1_Missense_Mutation_p.S223L	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	868						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		CTGTCTGTCCGAGGGTGAGTA	0.577													101	332					0	0	0.01441	0	0		A	133304630	A	A	133304630	3	1	25	1	0	0	0	0	1	0	0	0	633	1059	37	1	221	1	ANKLE2	12	133304630	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1066779	133304630	547265	754	21754											
PSPC1	55269	broad.mit.edu	37	chr13	20277336	20277336	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatatctacgacgcttattAgggccttcaaagttgccccc	10	12	7	12	2	2	0	1	0	1	0	2	1	2	0	3	1	2	2	3	1	6	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:20277336A>G	uc001uml.2	-	9	1737	c.1551T>C	c.(1549-1551)CCT>CCC	p.P517P	PSPC1_uc001umj.1_Intron|PSPC1_uc001umk.1_Intron	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	517					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		GACGCTTATTAGGGCCTTCAA	0.438													4	118					0	0	0.001984	0	0		G	20277336	G	G	20277336	2	3	25	1	0	0	0	0	0	0	0	1	12738	407	15	3		3	PSPC1	13	20277336	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08		20277336	94892542	755	21755											
TNFRSF19	55504	broad.mit.edu	37	chr13	24234605	24234605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagcctgctgccagtgcCgccgtgactcagtgcagacc	8	6	12	15	2	1	3	1	1	0	2	1	3	1	3	5	0	5	2	5	0	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:24234605C>T	uc001uov.1	+	7	776	c.712C>T	c.(712-714)CGC>TGC	p.R238C	TNFRSF19_uc001uot.2_Missense_Mutation_p.R238C|TNFRSF19_uc010tcu.1_Missense_Mutation_p.R106C|TNFRSF19_uc001uow.2_Missense_Mutation_p.R238C	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	238	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|JNK cascade	integral to membrane|mitochondrion	tumor necrosis factor receptor activity			kidney(1)|skin(1)	2		all_cancers(29;3.4e-22)|all_epithelial(30;8.75e-19)|all_lung(29;5.09e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00193)|Epithelial(112;0.0137)|OV - Ovarian serous cystadenocarcinoma(117;0.0465)|GBM - Glioblastoma multiforme(144;0.184)|Lung(94;0.19)		CTGCCAGTGCCGCCGTGACTC	0.557													6	18					0	0	0.008871	0	0		T	24234605	T	T	24234605	3	4	25	1	0	0	0	0	1	0	0	0	16317	652	23	1	734	1	TNFRSF19	13	24234605	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3957269	24234605	90935273	756	21756											
CENPJ	55835	broad.mit.edu	37	chr13	25487066	25487066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccaaaataggaaatccaCgatttaatatgaccccagcc	15	9	5	12	1	0	1	0	1	0	0	2	3	2	2	5	1	1	0	5	1	6	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:25487066C>T	uc001upt.3	-	2	351	c.98G>A	c.(97-99)CGT>CAT	p.R33H	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	33					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		AGGAAATCCACGATTTAATAT	0.448													30	115					0	0	0.009535	0	0		T	25487066	T	T	25487066	3	4	25	1	0	0	0	0	1	0	0	0	3237	536	19	1	3982	1	CENPJ	13	25487066	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1252461	25487066	89682812	757	21757											
SHISA2	387914	broad.mit.edu	37	chr13	26621193	26621193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaacaatgaggaacggcaCgtagatgggcactgaagcaa	15	4	13	9	2	0	3	0	2	0	1	0	4	0	4	1	3	3	4	1	3	6	1	rs113091428	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:26621193C>T	uc001uqm.1	-	2	431	c.346G>A	c.(346-348)GTG>ATG	p.V116M		NM_001007538	NP_001007539	Q6UWI4	SHSA2_HUMAN	shisa homolog 2 precursor	116	Helical; (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2						AGGAACGGCACGTAGATGGGC	0.507													13	65					0	0	0.016723	0	0		T	26621193	T	T	26621193	3	4	25	1	0	0	0	0	1	0	0	0	14305	536	19	1	545	1	SHISA2	13	26621193	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1134127	26621193	88548685	758	21758											
MTUS2	23281	broad.mit.edu	37	chr13	29599208	29599208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatagcctgcagaccacgCggagtattcagggaccaagt	12	6	12	11	2	1	2	1	0	0	2	1	4	1	4	3	2	2	2	3	2	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:29599208C>T	uc001usl.3	+	1	461	c.403C>T	c.(403-405)CGG>TGG	p.R135W		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	125						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						GCAGACCACGCGGAGTATTCA	0.498													21	163					0	0	0.012319	0	0		T	29599208	T	T	29599208	3	4	25	1	0	0	0	0	1	0	0	0	9984	759	27	1	405	1	MTUS2	13	29599208	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2978015	29599208	85570670	759	21759											
FRY	10129	broad.mit.edu	37	chr13	32792901	32792901	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggtttagtaatgtcatCagagcccacactcgcctcga	11	10	9	11	2	2	2	2	1	0	1	4	3	2	2	2	1	1	2	2	1	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:32792901C>A	uc001utx.2	+	36	5194	c.4698C>A	c.(4696-4698)ATC>ATA	p.I1566I	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1566					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		GTAATGTCATCAGAGCCCACA	0.363													10	67					2.27111e-07	2.3563e-07	0.013537	1	0		A	32792901	A	A	32792901	2	1	25	1	0	0	0	0	0	0	0	1	6077	816	29	5		5	FRY	13	32792901	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3193693	32792901	82376977	760	21760											
PDS5B	23047	broad.mit.edu	37	chr13	33338669	33338669	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagtgaaaatgaagattaCacaatgtcttcacctttgcc	14	11	6	10	0	2	3	1	2	1	1	2	3	2	3	2	0	2	0	2	0	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:33338669C>T	uc010abf.2	+	31	3719	c.3561C>T	c.(3559-3561)TAC>TAT	p.Y1187Y	PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1187					cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		ATGAAGATTACACAATGTCTT	0.313													12	77					0	0	0.016723	0	0		T	33338669	T	T	33338669	2	4	25	1	0	0	0	0	0	0	0	1	11711	489	17	4		4	PDS5B	13	33338669	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	545768	33338669	81831209	761	21761											
PDS5B	23047	broad.mit.edu	37	chr13	33344618	33344618	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagcaccagaggaggaggaAgaagaagaaagacaaagtgg	19	1	15	6	0	0	5	0	0	0	5	0	8	0	8	2	4	1	1	2	4	5	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:33344618A>G	uc010abf.2	+	32	4142	c.3984A>G	c.(3982-3984)GAA>GAG	p.E1328E	PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1328					cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		AGGAGGAGGAAGAAGAAGAAA	0.433													15	74					0	0	0.020292	0	0		G	33344618	G	G	33344618	2	3	25	1	0	0	0	0	0	0	0	1	11711	69	3	3		3	PDS5B	13	33344618	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	5949	33344618	81825260	762	21762											
KL	9365	broad.mit.edu	37	chr13	33590992	33590992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcttccgcgacacggaggcGctgcgcgagctcggggtcac	5	6	16	14	7	2	0	1	0	1	0	4	3	3	1	1	4	2	2	1	4	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:33590992G>A	uc001uus.2	+	1	422	c.414G>A	c.(412-414)GCG>GCA	p.A138A	KL_uc001uur.1_Intron	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	138	Glycosyl hydrolase-1 1.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		ACACGGAGGCGCTGCGCGAGC	0.711													5	31					0	0	0.010729	0	0		A	33590992	A	A	33590992	2	1	25	1	0	0	0	0	0	0	0	1	8347	1074	38	1		1	KL	13	33590992	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	246374	33590992	81578886	763	21763											
C13orf36	400120	broad.mit.edu	37	chr13	37269458	37269458	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctacccagagtatccaagCgacgctggaagttctttcac	10	10	8	13	2	2	1	1	0	1	1	4	3	4	2	3	1	2	3	3	1	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:37269458C>T	uc001uvt.3	+	2	689	c.243C>T	c.(241-243)AGC>AGT	p.S81S		NM_203451	NP_982276	A2A2V5	CM036_HUMAN	hypothetical protein LOC400120	81						integral to membrane				skin(1)	1						AGTATCCAAGCGACGCTGGAA	0.453													53	209					0	0	0.01441	0	0		T	37269458	T	T	37269458	2	4	25	1	0	0	0	0	0	0	0	1	1733	767	27	1		1	C13orf36	13	37269458	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3678466	37269458	77900420	764	21764											
FNDC3A	22862	broad.mit.edu	37	chr13	49705293	49705293	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttattgaagacaatggtgtTcgaagagttgtcgtggtccc	9	13	13	6	2	0	3	0	1	0	2	3	4	1	3	1	2	0	3	1	2	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:49705293T>C	uc001vcm.2	+	5	578	c.273T>C	c.(271-273)GTT>GTC	p.V91V	FNDC3A_uc001vcl.1_Silent_p.V91V|FNDC3A_uc001vcn.2_Silent_p.V91V|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcp.1_Silent_p.V35V|FNDC3A_uc001vcq.2_Silent_p.V35V	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	91	Pro-rich.					Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		ACAATGGTGTTCGAAGAGTTG	0.393													45	176					0	0	0.013114	0	0		C	49705293	C	C	49705293	2	2	25	1	0	0	0	0	0	0	0	1	5983	1770	62	3		3	FNDC3A	13	49705293	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	12435835	49705293	65464585	765	21765											
CCDC70	83446	broad.mit.edu	37	chr13	52439593	52439593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggggcttgcctgcttcCggtccctggcggcatcctct	2	11	14	14	2	1	0	0	0	1	0	4	1	4	1	4	6	2	3	4	6	0	2	rs140119115	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:52439593C>T	uc001vfu.3	+	2	375	c.79C>T	c.(79-81)CGG>TGG	p.R27W	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	27						extracellular region|plasma membrane					0		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)		TGCCTGCTTCCGGTCCCTGGC	0.532													18	109					0	0	0.010504	0	0		T	52439593	T	T	52439593	3	4	25	1	0	0	0	0	1	0	0	0	2846	643	23	1	81	1	CCDC70	13	52439593	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2734300	52439593	62730285	766	21766											
PIBF1	10464	broad.mit.edu	37	chr13	73369627	73369627	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcgtgactttgagttgAcagaagagcaatatattaaa	15	11	9	6	1	0	5	0	3	0	2	0	5	0	5	1	0	2	2	1	0	6	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:73369627A>G	uc001vjc.2	+	4	789	c.484A>G	c.(484-486)ACA>GCA	p.T162A	PIBF1_uc001vja.1_Missense_Mutation_p.T162A|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Missense_Mutation_p.T162A|PIBF1_uc010aep.2_Intron	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	162						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		CTTTGAGTTGACAGAAGAGCA	0.338													34	110					0	0	0.021022	0	0		G	73369627	G	G	73369627	3	3	25	1	0	0	0	0	1	0	0	0	11898	275	10	3	494	3	PIBF1	13	73369627	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	20930034	73369627	41800251	767	21767											
MYCBP2	23077	broad.mit.edu	37	chr13	77672645	77672645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggggcattttcttcttgcGgagggtatctggatcaagtg	7	13	15	6	1	4	0	1	0	3	0	4	3	4	2	0	5	1	2	0	5	2	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:77672645G>A	uc001vkf.2	-	57	8621	c.8530C>T	c.(8530-8532)CGC>TGC	p.R2844C	MYCBP2_uc010aev.2_Missense_Mutation_p.R2248C|MYCBP2_uc001vkg.1_Missense_Mutation_p.R367C|MYCBP2_uc010aew.2_Missense_Mutation_p.R230C	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2844					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TTCTTCTTGCGGAGGGTATCT	0.443													35	134					0	0	0.019004	0	0		A	77672645	A	A	77672645	3	1	25	1	0	0	0	0	1	0	0	0	10036	1116	39	1	5504	1	MYCBP2	13	77672645	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4303018	77672645	37497233	768	21768											
MYCBP2	23077	broad.mit.edu	37	chr13	77714270	77714270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctacggatgcgaagccccGcactgtccttggccacaaat	9	7	11	14	3	0	0	0	0	0	0	1	2	1	1	4	3	3	2	4	3	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:77714270G>A	uc001vkf.2	-	52	7407	c.7316C>T	c.(7315-7317)GCG>GTG	p.A2439V	MYCBP2_uc010aev.2_Missense_Mutation_p.A1843V	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2439					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GCGAAGCCCCGCACTGTCCTT	0.418													14	65					0	0	0.020292	0	0		A	77714270	A	A	77714270	3	1	25	1	0	0	0	0	1	0	0	0	10036	1087	38	1	6738	1	MYCBP2	13	77714270	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	41625	77714270	37455608	769	21769											
MYCBP2	23077	broad.mit.edu	37	chr13	77779485	77779485	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaacgtatagcttctactGaatgggcagaataaccccag	14	9	9	9	1	1	3	0	2	1	1	1	3	1	3	2	1	4	3	2	1	7	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:77779485G>T	uc001vkf.2	-	27	3726	c.3635C>A	c.(3634-3636)TCA>TAA	p.S1212*	MYCBP2_uc010aev.2_Nonsense_Mutation_p.S616*	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1212					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AGCTTCTACTGAATGGGCAGA	0.358													36	119					1.06647e-15	1.14159e-15	0.017118	1	0		T	77779485	T	T	77779485	4	4	25	1	0	0	0	0	0	1	0	0	10036	1294	45	5	10519	5	MYCBP2	13	77779485	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	65215	77779485	37390393	770	21770											
MYCBP2	23077	broad.mit.edu	37	chr13	77807400	77807400	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaaatacaagggggccTgaggagaaacattttgtatg	14	8	12	7	0	0	2	0	1	0	1	0	3	0	2	2	3	3	2	2	3	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:77807400T>C	uc001vkf.2	-	19	2607	c.2516_splice	c.e19-1	p.G839_splice	MYCBP2_uc010aev.2_Splice_Site_p.G243_splice	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CAAGGGGGCCTGAGGAGAAAC	0.358													46	159					0	0	0.010771	0	0		C	77807400	C	C	77807400	5	2	25	1	0	0	0	0	0	0	1	0	10036	1594	55	3	11672	3	MYCBP2	13	77807400	Splice_Site	SNP	T	TCGA-BR-4370-01A-01D-1158-08	27915	77807400	37362478	771	21771											
SLITRK1	114798	broad.mit.edu	37	chr13	84454312	84454312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctaggttttgcagccccGcgaatttctcccgggacagc	7	10	10	14	3	2	0	0	0	2	0	3	2	2	1	3	2	3	2	3	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:84454312G>A	uc001vlk.2	-	1	2217	c.1331C>T	c.(1330-1332)GCG>GTG	p.A444V		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	444	LRR 9.|Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		TTGCAGCCCCGCGAATTTCTC	0.502													40	171					0	0	0.021022	0	0		A	84454312	A	A	84454312	3	1	25	1	0	0	0	0	1	0	0	0	14767	1087	38	1	763	1	SLITRK1	13	84454312	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	6646912	84454312	30715566	772	21772											
UGGT2	55757	broad.mit.edu	37	chr13	96589280	96589280	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcatgtttaaagggttcAccattataaagagcttgagg	12	14	9	6	0	3	2	2	1	1	1	3	2	3	2	1	2	1	3	1	2	5	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:96589280A>G	uc001vmt.2	-	17	2045	c.1875T>C	c.(1873-1875)GGT>GGC	p.G625G		NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	625					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						TAAAGGGTTCACCATTATAAA	0.328													41	174					0	0	0.01441	0	0		G	96589280	G	G	96589280	2	3	25	1	0	0	0	0	0	0	0	1	16968	146	6	3		3	UGGT2	13	96589280	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	12134968	96589280	18580598	773	21773											
MBNL2	10150	broad.mit.edu	37	chr13	97999281	97999281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaccaagccaaccaagctgCggtggccgcccaggcagccg	9	2	13	17	3	0	0	0	0	0	0	0	0	0	0	6	3	5	3	6	3	3	0	rs148388439		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:97999281C>T	uc010aft.2	+	5	1580	c.764C>T	c.(763-765)GCG>GTG	p.A255V	MBNL2_uc001vmz.2_Missense_Mutation_p.A255V|MBNL2_uc001vna.2_Missense_Mutation_p.A255V|MBNL2_uc001vnb.2_Intron|MBNL2_uc010tij.1_Intron|MBNL2_uc001vnc.2_5'Flank	NM_144778	NP_659002	Q5VZF2	MBNL2_HUMAN	muscleblind-like 2 isoform 1	255					mRNA processing|regulation of RNA splicing|RNA splicing	cytoplasm|nucleus	RNA binding|zinc ion binding				0	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.218)			AACCAAGCTGCGGTGGCCGCC	0.657													9	11					0	0	0.016723	0	0		T	97999281	T	T	97999281	3	4	25	1	0	0	0	0	1	0	0	0	9372	768	27	1	778	1	MBNL2	13	97999281	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1410001	97999281	17170597	774	21774											
IPO5	3843	broad.mit.edu	37	chr13	98664543	98664543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaaggctttgtggagtacaCcgaacaggttgtcaaactga	12	9	13	7	1	1	1	1	1	0	0	1	4	1	3	1	4	3	3	1	4	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:98664543C>T	uc001vnf.1	+	18	2164	c.2099C>T	c.(2098-2100)ACC>ATC	p.T700I	IPO5_uc001vne.2_Missense_Mutation_p.T718I|IPO5_uc010tik.1_Missense_Mutation_p.T575I|IPO5_uc010til.1_Missense_Mutation_p.T640I|IPO5_uc001vng.1_Missense_Mutation_p.T321I	NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	700					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						GTGGAGTACACCGAACAGGTT	0.353													38	184					0	0	0.011902	0	0		T	98664543	T	T	98664543	3	4	25	1	0	0	0	0	1	0	0	0	7812	507	18	4	2227	4	IPO5	13	98664543	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	665262	98664543	16505335	775	21775											
DOCK9	23348	broad.mit.edu	37	chr13	99481978	99481978	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcccccaatgccaacaacGtctgctatcagctggctgac	9	9	8	15	1	2	1	1	1	1	0	3	1	3	1	3	1	5	4	3	1	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:99481978G>A	uc001vnt.2	-	42	4657	c.4602C>T	c.(4600-4602)GAC>GAT	p.D1534D	DOCK9_uc001vnw.2_Silent_p.D1533D|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Silent_p.D1534D|DOCK9_uc001vnq.2_Silent_p.D106D|DOCK9_uc001vnr.2_Silent_p.D177D|DOCK9_uc010tin.1_Silent_p.D177D|DOCK9_uc001vns.2_Silent_p.D106D|DOCK9_uc010tio.1_Silent_p.D226D|DOCK9_uc010tip.1_Silent_p.D244D|DOCK9_uc001vnu.1_Silent_p.D106D|DOCK9_uc010tiq.1_Silent_p.D512D	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1534	DHR-2.				blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TGCCAACAACGTCTGCTATCA	0.507													5	24					0	0	0.001168	0	0		A	99481978	A	A	99481978	2	1	25	1	0	0	0	0	0	0	0	1	4700	1136	40	1		1	DOCK9	13	99481978	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	817435	99481978	15687900	776	21776											
TPP2	7174	broad.mit.edu	37	chr13	103289546	103289546	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtagacacataaacatacGtgtggatcccaggggcttaa	14	9	10	8	1	0	1	0	0	0	1	1	2	1	2	1	3	2	2	1	3	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:103289546G>A	uc001vpi.3	+	14	1896	c.1793G>A	c.(1792-1794)CGT>CAT	p.R598H		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	598					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					ATAAACATACGTGTGGATCCC	0.363													19	92					0	0	0.007413	0	0		A	103289546	A	A	103289546	3	1	25	1	0	0	0	0	1	0	0	0	16438	1145	40	1	1847	1	TPP2	13	103289546	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3807568	103289546	11880332	777	21777											
FAM155A	728215	broad.mit.edu	37	chr13	108518636	108518636	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgctcgccaggagcgcgggCcaggagggctcctgctgccg	5	5	17	14	4	0	0	0	0	0	0	2	2	1	2	4	4	4	3	4	4	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:108518636C>G	uc001vql.2	-	1	825	c.309G>C	c.(307-309)TGG>TGC	p.W103C		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	103						integral to membrane	binding			skin(1)	1						GGAGCGCGGGCCAGGAGGgct	0.423													4	24					0	0	0.00308	0	0		G	108518636	G	G	108518636	3	3	25	1	0	0	0	0	1	0	0	0	5476	740	26	5	1079	5	FAM155A	13	108518636	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	5229090	108518636	6651242	778	21778											
ATP11A	23250	broad.mit.edu	37	chr13	113439565	113439565	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagacaacaggatcgtctcGtccaaggtaacttggcttgg	10	9	11	11	2	1	1	0	0	1	1	4	2	2	2	2	4	2	2	2	4	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:113439565G>A	uc001vsi.3	+	2	244	c.156G>A	c.(154-156)TCG>TCA	p.S52S	ATP11A_uc001vsj.3_Silent_p.S52S|ATP11A_uc001vsm.1_5'UTR	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	52	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				GGATCGTCTCGTCCAAGGTAA	0.562													28	137					0	0	0.008361	0	0		A	113439565	A	A	113439565	2	1	25	1	0	0	0	0	0	0	0	1	1120	1132	40	1		1	ATP11A	13	113439565	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4920929	113439565	1730313	779	21779											
F10	2159	broad.mit.edu	37	chr13	113793678	113793678	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctctctttgcagatggcgaCcagtgtgagaccagtccttg	7	11	11	12	1	1	2	0	1	1	2	3	4	2	2	4	1	1	1	4	1	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:113793678C>T	uc001vsx.2	+	4	321	c.264C>T	c.(262-264)GAC>GAT	p.D88D	F10_uc010agq.1_RNA|F10_uc001vsy.2_Silent_p.D88D|F10_uc001vsz.2_Silent_p.D88D	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	88	EGF-like 1; calcium-binding (Potential).				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAGATGGCGACCAGTGTGAGA	0.512													15	54					0	0	0.020292	0	0		T	113793678	T	T	113793678	2	4	25	1	0	0	0	0	0	0	0	1	5344	506	18	4		4	F10	13	113793678	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	354113	113793678	1376200	780	21780											
GAS6	2621	broad.mit.edu	37	chr13	114525103	114525103	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accacgtgctcttggccgtcGcagaccttgatctccattag	7	11	9	14	3	2	2	0	1	2	1	4	2	2	2	4	1	1	2	4	1	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr13:114525103G>A	uc001vud.2	-	14	1863	c.1710C>T	c.(1708-1710)TGC>TGT	p.C570C	GAS6_uc001vug.2_Silent_p.C271C|GAS6_uc001vuf.2_Silent_p.C297C	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	613	Laminin G-like 2.				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				CTTGGCCGTCGCAGACCTTGA	0.687													3	17					0	0	0.004672	0	0		A	114525103	A	A	114525103	2	1	25	1	0	0	0	0	0	0	0	1	6264	1079	38	1		1	GAS6	13	114525103	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	731425	114525103	644775	781	21781											
TEP1	7011	broad.mit.edu	37	chr14	20850088	20850088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacctgcgcagactctggaCgaggcaggcaaacgggccca	10	4	14	13	3	1	1	0	0	1	1	1	3	1	2	2	4	3	4	2	4	2	1	rs61739723		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:20850088C>T	uc001vxe.2	-	30	4448	c.4408G>A	c.(4408-4410)GTC>ATC	p.V1470I	TEP1_uc010ahk.2_Missense_Mutation_p.V813I|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.V1362I|TEP1_uc010tlh.1_5'UTR	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1470	NACHT.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		AGACTCTGGACGAGGCAGGCA	0.607													44	158					0	0	0.013114	0	0		T	20850088	T	T	20850088	3	4	25	1	0	0	0	0	1	0	0	0	15784	536	19	1	3579	1	TEP1	14	20850088	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08		20850088	86499452	782	21782											
ABHD4	63874	broad.mit.edu	37	chr14	23072897	23072897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caactaaccccagtgagatcCgtgcacccccagcctgggtc	9	6	9	17	1	0	1	0	1	0	1	2	2	1	1	6	1	4	1	6	1	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:23072897C>T	uc001wgm.2	+	4	622	c.553C>T	c.(553-555)CGT>TGT	p.R185C	ABHD4_uc010tmz.1_3'UTR|ABHD4_uc010tna.1_Missense_Mutation_p.R185C|ABHD4_uc010tnb.1_Intron	NM_022060	NP_071343	Q8TB40	ABHD4_HUMAN	abhydrolase domain containing 4	185				EIR -> GIC (in Ref. 1; BAB14289).	lipid catabolic process		hydrolase activity			central_nervous_system(1)	1	all_cancers(95;5.49e-05)			GBM - Glioblastoma multiforme(265;0.0153)		CAGTGAGATCCGTGCACCCCC	0.557													54	181					0	0	0.01441	0	0		T	23072897	T	T	23072897	3	4	25	1	0	0	0	0	1	0	0	0	84	652	23	1	567	1	ABHD4	14	23072897	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2222809	23072897	84276643	783	21783											
IRF9	10379	broad.mit.edu	37	chr14	24632182	24632182	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctttcctaggcctgggCaatatttaagggaaagtata	11	14	9	7	0	1	0	0	0	1	0	2	1	2	1	2	3	0	2	2	3	7	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:24632182C>A	uc001wmq.2	+	3	315	c.188C>A	c.(187-189)GCA>GAA	p.A63E	RNF31_uc001wmp.2_RNA|IRF9_uc010alj.2_5'UTR	NM_006084	NP_006075	Q00978	IRF9_HUMAN	interferon-stimulated transcription factor 3,	63	IRF tryptophan pentad repeat.				interferon-gamma-mediated signaling pathway|response to virus|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|nucleoplasm	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00853)		TAGGCCTGGGCAATATTTAAG	0.433													14	46					1.49906e-05	1.53798e-05	0.020292	1	0		A	24632182	A	A	24632182	3	1	25	1	0	0	0	0	1	0	0	0	7853	710	25	5	194	5	IRF9	14	24632182	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1559285	24632182	82717358	784	21784											
NPAS3	64067	broad.mit.edu	37	chr14	34269189	34269189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgcagatcaaggtggagcGctacgtggagagcgagtcgg	10	6	18	7	4	1	2	1	0	0	2	2	6	1	3	0	4	4	2	0	4	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:34269189G>A	uc001wru.2	+	12	1740	c.1676G>A	c.(1675-1677)CGC>CAC	p.R559H	NPAS3_uc001wrs.2_Missense_Mutation_p.R546H|NPAS3_uc001wrt.2_Missense_Mutation_p.R527H|NPAS3_uc001wrv.2_Missense_Mutation_p.R529H	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	559					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		AAGGTGGAGCGCTACGTGGAG	0.672													9	52					0	0	0.006214	0	0		A	34269189	A	A	34269189	3	1	25	1	0	0	0	0	1	0	0	0	10583	1087	38	1	1777	1	NPAS3	14	34269189	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	9637007	34269189	73080351	785	21785											
BRMS1L	84312	broad.mit.edu	37	chr14	36302264	36302264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaccagaatacttggaacCgctggcaactttacaggaaa	15	7	9	10	1	0	1	0	0	0	1	0	3	0	3	2	3	5	3	2	3	6	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:36302264C>T	uc001wtl.2	+	3	440	c.314C>T	c.(313-315)CCG>CTG	p.P105L	BRMS1L_uc010tpx.1_Missense_Mutation_p.P57L	NM_032352	NP_115728	Q5PSV4	BRM1L_HUMAN	breast cancer metastasis-suppressor 1-like	105					regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				skin(1)	1	Breast(36;0.137)|Hepatocellular(127;0.158)		Lung(8;1.7e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.00467)|all cancers(34;0.0157)|BRCA - Breast invasive adenocarcinoma(188;0.158)	GBM - Glioblastoma multiforme(112;0.0333)		TACTTGGAACCGCTGGCAACT	0.353													8	32					0	0	0.004482	0	0		T	36302264	T	T	36302264	3	4	25	1	0	0	0	0	1	0	0	0	1520	652	23	1	324	1	BRMS1L	14	36302264	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2033075	36302264	71047276	786	21786											
BRMS1L	84312	broad.mit.edu	37	chr14	36304094	36304094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatctgtaaagaacaaatatGaatgtgaaattcaagcttct	18	12	6	5	0	3	3	1	2	2	1	3	3	3	3	0	0	2	2	0	0	9	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:36304094G>A	uc001wtl.2	+	4	532	c.406G>A	c.(406-408)GAA>AAA	p.E136K	BRMS1L_uc010tpx.1_Missense_Mutation_p.E88K	NM_032352	NP_115728	Q5PSV4	BRM1L_HUMAN	breast cancer metastasis-suppressor 1-like	136					regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				skin(1)	1	Breast(36;0.137)|Hepatocellular(127;0.158)		Lung(8;1.7e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.00467)|all cancers(34;0.0157)|BRCA - Breast invasive adenocarcinoma(188;0.158)	GBM - Glioblastoma multiforme(112;0.0333)		GAACAAATATGAATGTGAAAT	0.358													13	72					0	0	0.020292	0	0		A	36304094	A	A	36304094	3	1	25	1	0	0	0	0	1	0	0	0	1520	1291	45	4	420	4	BRMS1L	14	36304094	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1830	36304094	71045446	787	21787											
FANCM	57697	broad.mit.edu	37	chr14	45605364	45605364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctccaaggcgcctttgccaGcagcagcggaggctcagctg	7	6	14	14	2	1	0	1	0	0	0	2	1	2	1	3	3	5	5	3	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:45605364G>A	uc001wwd.3	+	1	229	c.130G>A	c.(130-132)GCA>ACA	p.A44T	FANCM_uc001wwc.2_Missense_Mutation_p.A44T|FANCM_uc010anf.2_Missense_Mutation_p.A44T|FKBP3_uc010tqf.1_5'Flank	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	44					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						GCCTTTGCCAGCAGCAGCGGA	0.622								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				20	92					0	0	0.014323	0	0		A	45605364	A	A	45605364	3	1	25	1	0	0	0	0	1	0	0	0	5685	971	34	2	132	2	FANCM	14	45605364	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	9301270	45605364	61744176	788	21788											
MDGA2	161357	broad.mit.edu	37	chr14	47314993	47314993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttgctaggtcttgttttgCacattctccttctgcaattg	6	18	8	9	0	3	0	0	0	3	0	4	0	3	0	1	1	3	5	1	1	2	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:47314993C>T	uc001wwj.3	-	16	2954	c.2758G>A	c.(2758-2760)GCA>ACA	p.A920T	MDGA2_uc001wwh.3_Missense_Mutation_p.A122T|MDGA2_uc001wwi.3_Missense_Mutation_p.A691T	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	920	MAM.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						TCTTGTTTTGCACATTCTCCT	0.313													12	75					0	0	0.016723	0	0		T	47314993	T	T	47314993	3	4	25	1	0	0	0	0	1	0	0	0	9425	710	25	2	120	2	MDGA2	14	47314993	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1709629	47314993	60034547	789	21789											
POLE2	5427	broad.mit.edu	37	chr14	50122404	50122404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctaccagcaaacattatgcGaagtttttccaatacttcca	13	12	4	12	1	0	0	0	0	0	0	2	1	2	0	4	0	5	2	4	0	6	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:50122404G>A	uc001wwu.2	-	11	927	c.913C>T	c.(913-915)CGC>TGC	p.R305C	SDCCAG1_uc010anj.1_Intron|POLE2_uc010ann.2_Missense_Mutation_p.R20C|POLE2_uc001wwv.2_RNA|POLE2_uc010ano.2_Missense_Mutation_p.R20C	NM_002692	NP_002683	P56282	DPOE2_HUMAN	DNA-directed DNA polymerase epsilon 2	305					DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	DNA binding|DNA-directed DNA polymerase activity			ovary(1)|skin(1)	2	all_epithelial(31;0.0021)|Breast(41;0.0124)					AACATTATGCGAAGTTTTTCC	0.313													58	322					0	0	0.01441	0	0		A	50122404	A	A	50122404	3	1	25	1	0	0	0	0	1	0	0	0	12216	1058	37	1	706	1	POLE2	14	50122404	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2807411	50122404	57227136	790	21790											
OTX2	5015	broad.mit.edu	37	chr14	57271048	57271048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctcccggcgctgtttcCggggggtggctgcgggacaa	3	9	16	13	4	1	0	0	0	1	0	4	1	3	1	3	6	1	3	3	6	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:57271048C>T	uc001xcp.2	-	2	278	c.107G>A	c.(106-108)CGG>CAG	p.R36Q	OTX2_uc010aou.2_Missense_Mutation_p.R36Q|OTX2_uc001xcq.2_Missense_Mutation_p.R44Q	NM_172337	NP_758840	P32243	OTX2_HUMAN	orthodenticle homeobox 2 isoform b	36					axon guidance|forebrain development|midbrain development|positive regulation of embryonic development|positive regulation of gastrulation|primitive streak formation|protein complex assembly|regulation of fibroblast growth factor receptor signaling pathway|regulation of smoothened signaling pathway	growth cone|nucleus|protein complex	eukaryotic initiation factor 4E binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding			ovary(1)	1	Medulloblastoma(1;0.00184)|all_neural(1;0.00414)					GCGCTGTTTCCGGGGGGTGGC	0.632													16	81					0	0	0.006122	0	0		T	57271048	T	T	57271048	3	4	25	1	0	0	0	0	1	0	0	0	11340	652	23	1	770	1	OTX2	14	57271048	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7148644	57271048	50078492	791	21791											
DACT1	51339	broad.mit.edu	37	chr14	59113480	59113480	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgcctgtgcctctgccctaCgccagcccctacgcctacgt	4	8	9	20	4	1	0	0	0	1	0	1	0	1	0	7	0	6	0	7	0	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:59113480C>T	uc001xdw.2	+	4	2303	c.2139C>T	c.(2137-2139)TAC>TAT	p.Y713Y	DACT1_uc010trv.1_Silent_p.Y432Y|DACT1_uc001xdx.2_Silent_p.Y676Y|DACT1_uc010trw.1_Silent_p.Y432Y	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	713					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						CTCTGCCCTACGCCAGCCCCT	0.672													18	71					0	0	0.016522	0	0		T	59113480	T	T	59113480	2	4	25	1	0	0	0	0	0	0	0	1	4225	547	19	1		1	DACT1	14	59113480	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1842432	59113480	48236060	792	21792											
C14orf149	112849	broad.mit.edu	37	chr14	59950671	59950671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtgcccgcagggggcgccgGcacaagcccgaagtccaaag	9	2	16	14	4	0	0	0	0	0	0	1	1	1	0	4	4	2	2	4	4	3	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:59950671G>A	uc001xee.1	-	1	403	c.364C>T	c.(364-366)CCG>TCG	p.P122S	C14orf149_uc010trx.1_Missense_Mutation_p.P122S|JKAMP_uc001xef.3_5'Flank|JKAMP_uc001xeh.3_5'Flank|JKAMP_uc001xeg.3_5'Flank|JKAMP_uc010try.1_5'Flank|JKAMP_uc001xei.3_5'Flank	NM_144581	NP_653182	Q96EM0	PRCM_HUMAN	proline racemase-like	122							proline racemase activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.14)	L-Proline(DB00172)	GGGGGCGCCGGCACAAGCCCG	0.706											OREG0022712	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	18					0	0	0.009096	0	0		A	59950671	A	A	59950671	3	1	25	1	0	0	0	0	1	0	0	0	1755	1203	42	2	720	2	C14orf149	14	59950671	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	837191	59950671	47398869	793	21793											
C14orf39	317761	broad.mit.edu	37	chr14	60923730	60923730	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatataggaatttcagaCgttcgtggaaaattctcagc	16	11	8	6	2	2	1	2	0	1	1	4	3	2	3	0	2	1	1	0	2	7	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:60923730C>T	uc001xez.3	-	15	1373	c.1263G>A	c.(1261-1263)ACG>ACA	p.T421T	C14orf39_uc010apo.2_Silent_p.T132T	NM_174978	NP_777638	Q08AQ4	Q08AQ4_HUMAN	hypothetical protein LOC317761	421										ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)		GAATTTCAGACGTTCGTGGAA	0.378													55	321					0	0	0.01441	0	0		T	60923730	T	T	60923730	2	4	25	1	0	0	0	0	0	0	0	1	1775	523	19	1		1	C14orf39	14	60923730	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	973059	60923730	46425810	794	21794											
TRMT5	57570	broad.mit.edu	37	chr14	61446364	61446364	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaaagctgttctatcaagTtttgtcatgcctcggacatc	10	15	7	9	1	3	0	2	0	1	0	5	1	3	1	1	1	2	3	1	1	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:61446364T>A	uc001xff.3	-	2	343	c.252A>T	c.(250-252)AAA>AAT	p.K84N	SLC38A6_uc001xfg.1_5'Flank|SLC38A6_uc001xfh.1_5'Flank|SLC38A6_uc001xfi.2_5'Flank|SLC38A6_uc001xfj.1_5'Flank|SLC38A6_uc001xfk.2_5'Flank|SLC38A6_uc010trz.1_5'Flank	NM_020810	NP_065861	Q32P41	TRMT5_HUMAN	tRNA methyltransferase 5	84						cytoplasm	tRNA (guanine-N1-)-methyltransferase activity			central_nervous_system(2)|large_intestine(1)	3				OV - Ovarian serous cystadenocarcinoma(108;0.0873)		TTCTATCAAGTTTTGTCATGC	0.393													9	353					0	0	0.006214	0	0		A	61446364	A	A	61446364	3	1	25	1	0	0	0	0	1	0	0	0	16593	1722	60	5	1293	5	TRMT5	14	61446364	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	522634	61446364	45903176	795	21795											
PPP2R5E	5529	broad.mit.edu	37	chr14	63848863	63848863	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaacacattgtacaccaaCgccacaatagccctggaaag	15	7	6	13	1	1	0	1	0	0	0	1	1	1	1	3	1	4	1	3	1	6	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:63848863C>T	uc001xgd.1	-	13	1805	c.1215G>A	c.(1213-1215)GCG>GCA	p.A405A	PPP2R5E_uc010tsf.1_Silent_p.A329A|PPP2R5E_uc010tsg.1_Silent_p.A329A|PPP2R5E_uc001xge.2_Silent_p.A405A|PPP2R5E_uc010tsh.1_Silent_p.A405A|PPP2R5E_uc001xgf.1_RNA	NM_006246	NP_006237	Q16537	2A5E_HUMAN	epsilon isoform of regulatory subunit B56,	405					signal transduction	cytoplasm|intracellular membrane-bounded organelle|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00197)|all cancers(60;0.0153)|BRCA - Breast invasive adenocarcinoma(234;0.128)		TGTACACCAACGCCACAATAG	0.403													12	55					0	0	0.013537	0	0		T	63848863	T	T	63848863	2	4	25	1	0	0	0	0	0	0	0	1	12418	523	19	1		1	PPP2R5E	14	63848863	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2402499	63848863	43500677	796	21796											
ZBTB25	7597	broad.mit.edu	37	chr14	64954669	64954669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgaatcccttcctccaaacGactatgatccacaatctgtt	11	12	4	14	2	1	1	0	1	1	0	6	3	5	1	4	0	1	1	4	0	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:64954669G>A	uc001xhf.2	-	3	463	c.280C>T	c.(280-282)CGT>TGT	p.R94C	ZBTB25_uc001xhc.2_Intron|ZBTB25_uc001xhg.2_Missense_Mutation_p.R94C	NM_006977	NP_008908	P24278	ZBT25_HUMAN	zinc finger protein 46	94	BTB.					cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2				all cancers(60;0.00865)|OV - Ovarian serous cystadenocarcinoma(108;0.0102)|BRCA - Breast invasive adenocarcinoma(234;0.0469)		TCCTCCAAACGACTATGATCC	0.423													41	139					0	0	0.00874	0	0		A	64954669	A	A	64954669	3	1	25	1	0	0	0	0	1	0	0	0	17557	1058	37	1	1031	1	ZBTB25	14	64954669	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1105806	64954669	42394871	797	21797											
HSPA2	3306	broad.mit.edu	37	chr14	65008770	65008770	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctactcgacgtgaccccGttgtcgctgggcatcgagac	6	9	12	14	5	0	2	0	1	0	1	3	4	0	2	2	1	2	4	2	1	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:65008770G>A	uc001xhj.2	+	2	1279	c.1203G>A	c.(1201-1203)CCG>CCA	p.P401P	HSPA2_uc001xhk.3_Silent_p.P401P	NM_021979	NP_068814	P54652	HSP72_HUMAN	heat shock 70kDa protein 2	401					response to unfolded protein|spermatid development	cell surface	ATP binding|unfolded protein binding			skin(1)	1				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)		ACGTGACCCCGTTGTCGCTGG	0.622													30	130					0	0	0.015359	0	0		A	65008770	A	A	65008770	2	1	25	1	0	0	0	0	0	0	0	1	7427	1132	40	1		1	HSPA2	14	65008770	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	54101	65008770	42340770	798	21798											
VTI1B	10490	broad.mit.edu	37	chr14	68129194	68129194	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttgttccttgttctcacCgtttcatttgcttcctgttg	4	21	6	10	1	2	0	2	0	1	0	5	0	4	0	3	0	1	5	3	0	1	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:68129194C>T	uc001xjt.2	-	2	570	c.174G>A	c.(172-174)ACG>ACA	p.T58T	VTI1B_uc010aqp.2_5'UTR|VTI1B_uc001xju.2_Intron	NM_006370	NP_006361	Q9UEU0	VTI1B_HUMAN	vesicle transport through interaction with	58	Potential.|Cytoplasmic (Potential).				cell proliferation|cellular membrane fusion|intracellular protein transport|vesicle docking involved in exocytosis	endomembrane system|integral to membrane					0				all cancers(60;0.000344)|OV - Ovarian serous cystadenocarcinoma(108;0.00212)|BRCA - Breast invasive adenocarcinoma(234;0.00941)		TTGTTCTCACCGTTTCATTTG	0.328													8	60					0	0	0.004482	0	0		T	68129194	T	T	68129194	2	4	25	1	0	0	0	0	0	0	0	1	17262	666	23	1		1	VTI1B	14	68129194	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3120424	68129194	39220346	799	21799											
ACOT1	641371	broad.mit.edu	37	chr14	74009849	74009849	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagggcatcacggctgctgtCgtcatcaacggctctgtggc	7	9	13	12	3	4	0	3	0	1	0	5	0	4	0	0	4	2	4	0	4	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:74009849C>T	uc001xol.1	+	3	954	c.756C>T	c.(754-756)GTC>GTT	p.V252V	HEATR4_uc010tua.1_Intron|ACOT1_uc010tuc.1_Intron	NM_001037161	NP_001032238	Q86TX2	ACOT1_HUMAN	acyl-CoA thioesterase 1	252					acyl-CoA metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process	cytosol	carboxylesterase activity|palmitoyl-CoA hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(108;1.37e-45)|BRCA - Breast invasive adenocarcinoma(234;0.0033)		CGGCTGCTGTCGTCATCAACG	0.567													27	80					0	0	0.021022	0	0		T	74009849	T	T	74009849	2	4	25	1	0	0	0	0	0	0	0	1	148	871	31	1		1	ACOT1	14	74009849	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	5880655	74009849	33339691	800	21800											
FAM161B	145483	broad.mit.edu	37	chr14	74409118	74409118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagggccgctgagggtggCgcaggttggcggtcctcagc	5	6	18	12	3	1	1	1	1	0	0	2	1	2	1	2	6	1	3	2	6	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:74409118C>T	uc001xpd.1	-	4	1332	c.1226G>A	c.(1225-1227)CGC>CAC	p.R409H		NM_152445	NP_689658			hypothetical protein LOC145483											ovary(1)	1						CTGAGGGTGGCGCAGGTTGGC	0.617													9	184					0	0	0.010729	0	0		T	74409118	T	T	74409118	3	4	25	1	0	0	0	0	1	0	0	0	5484	768	27	1	741	1	FAM161B	14	74409118	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	399269	74409118	32940422	801	21801											
ZC3H14	79882	broad.mit.edu	37	chr14	89075670	89075670	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttcacccaaattgtaaatAtgatgcaaagtgtactaaac	16	12	6	7	0	1	1	1	1	0	0	1	1	1	1	1	0	3	4	1	0	8	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:89075670A>G	uc001xww.2	+	14	2153	c.1928A>G	c.(1927-1929)TAT>TGT	p.Y643C	ZC3H14_uc010twd.1_Missense_Mutation_p.Y643C|ZC3H14_uc010twe.1_Missense_Mutation_p.Y638C|ZC3H14_uc001xwx.2_Missense_Mutation_p.Y487C|ZC3H14_uc010twf.1_Missense_Mutation_p.Y357C|ZC3H14_uc001xwy.2_Missense_Mutation_p.Y478C|ZC3H14_uc010twg.1_Missense_Mutation_p.Y332C|ZC3H14_uc001xxa.2_Missense_Mutation_p.Y188C|ZC3H14_uc001xxc.2_Missense_Mutation_p.Y187C|ZC3H14_uc001xxb.2_Missense_Mutation_p.Y214C	NM_024824	NP_079100	Q6PJT7	ZC3HE_HUMAN	zinc finger CCCH-type containing 14 isoform 1	643	C3H1-type 3.					cytoplasm|cytoplasm|nuclear speck	protein binding|RNA binding|zinc ion binding			ovary(2)|skin(1)	3						AATTGTAAATATGATGCAAAG	0.353													28	137					0	0	0.005443	0	0		G	89075670	G	G	89075670	3	3	25	1	0	0	0	0	1	0	0	0	17591	449	16	3	2371	3	ZC3H14	14	89075670	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	14666552	89075670	18273870	802	21802											
KIAA1409	57578	broad.mit.edu	37	chr14	94088364	94088364	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgaggtgaaagttgactcGccggtaaagcctgctcctaa	10	10	11	10	3	0	2	0	2	0	0	3	3	1	2	3	2	2	3	3	2	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:94088364G>A	uc001ybv.1	+	28	4403	c.4320G>A	c.(4318-4320)TCG>TCA	p.S1440S	KIAA1409_uc001ybs.1_Silent_p.S1418S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1595						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		AAGTTGACTCGCCGGTAAAGC	0.478													48	145					0	0	0.01441	0	0		A	94088364	A	A	94088364	2	1	25	1	0	0	0	0	0	0	0	1	8246	1074	38	1		1	KIAA1409	14	94088364	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5012694	94088364	13261176	803	21803											
CLMN	79789	broad.mit.edu	37	chr14	95688092	95688092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgaaaaatacgatgcgacGaggatttgtattcgtgcagc	13	9	11	8	5	0	0	0	0	0	0	1	5	0	1	1	1	4	2	1	1	4	4	rs146706338	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:95688092G>A	uc001yef.2	-	4	376	c.260C>T	c.(259-261)TCG>TTG	p.S87L		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	87	Actin-binding.|CH 1.					integral to membrane	actin binding				0				Epithelial(152;0.193)		ACGATGCGACGAGGATTTGTA	0.443													26	84					0	0	0.00632	0	0		A	95688092	A	A	95688092	3	1	25	1	0	0	0	0	1	0	0	0	3545	1059	37	1	2788	1	CLMN	14	95688092	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1599728	95688092	11661448	804	21804											
PAPOLA	10914	broad.mit.edu	37	chr14	96986562	96986562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaggaagaggaactgcagcGcaggtaaatagatattctat	16	8	12	5	1	1	3	0	0	1	3	1	5	1	5	0	3	3	3	0	3	7	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:96986562G>A	uc001yfq.2	+	2	389	c.179G>A	c.(178-180)CGC>CAC	p.R60H	PAPOLA_uc001yfo.2_Missense_Mutation_p.R60H|PAPOLA_uc001yfp.2_Missense_Mutation_p.R60H|PAPOLA_uc001yfr.2_Missense_Mutation_p.R60H|PAPOLA_uc010twv.1_Missense_Mutation_p.R60H|PAPOLA_uc010avp.2_5'UTR	NM_032632	NP_116021	P51003	PAPOA_HUMAN	poly(A) polymerase alpha	60					mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cytoplasm|nucleoplasm	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|RNA binding				0		all_cancers(154;0.0555)|all_epithelial(191;0.149)|Melanoma(154;0.155)		COAD - Colon adenocarcinoma(157;0.213)		GAACTGCAGCGCAGGTAAATA	0.383													38	132					0	0	0.021022	0	0		A	96986562	A	A	96986562	3	1	25	1	0	0	0	0	1	0	0	0	11448	1087	38	1	185	1	PAPOLA	14	96986562	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1298470	96986562	10362978	805	21805											
WARS	7453	broad.mit.edu	37	chr14	100801346	100801346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgccttcttgagctcacCggtgagcatggctccgctgg	5	10	14	12	2	2	2	1	2	1	0	3	3	3	2	3	3	3	4	3	3	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:100801346C>T	uc001yhf.1	-	10	1366	c.1282G>A	c.(1282-1284)GGT>AGT	p.G428S	WARS_uc001yhe.1_Missense_Mutation_p.G234S|WARS_uc001yhg.1_Missense_Mutation_p.G428S|WARS_uc001yhh.1_Missense_Mutation_p.G428S|WARS_uc001yhi.1_Missense_Mutation_p.G387S|WARS_uc001yhj.1_Missense_Mutation_p.G387S|WARS_uc001yhk.1_Missense_Mutation_p.G387S|WARS_uc001yhl.1_Missense_Mutation_p.G428S	NM_173701	NP_776049	P23381	SYWC_HUMAN	tryptophanyl-tRNA synthetase isoform a	428					angiogenesis|negative regulation of cell proliferation|regulation of angiogenesis|tryptophanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|protein binding|tryptophan-tRNA ligase activity			breast(1)	1		all_cancers(154;0.00223)|all_lung(585;2.48e-06)|all_epithelial(191;0.000564)|Melanoma(154;0.152)			L-Tryptophan(DB00150)	TTGAGCTCACCGGTGAGCATG	0.597													15	81					0	0	0.020292	0	0		T	100801346	T	T	100801346	3	4	25	1	0	0	0	0	1	0	0	0	17275	652	23	1	137	1	WARS	14	100801346	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3814784	100801346	6548194	806	21806											
PPP1R13B	23368	broad.mit.edu	37	chr14	104201496	104201496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaaaaggaagttcaggCgagtgttcgctgtcggggtt	8	10	15	8	3	1	0	1	0	0	0	4	2	2	1	1	4	0	5	1	4	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:104201496C>T	uc001yof.1	-	17	3551	c.3268G>A	c.(3268-3270)GCC>ACC	p.A1090T	PPP1R13B_uc010awv.1_RNA	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	1090					apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				GAAGTTCAGGCGAGTGTTCGC	0.557													14	68					0	0	0.003163	0	0		T	104201496	T	T	104201496	3	4	25	1	0	0	0	0	1	0	0	0	12379	768	27	1	8	1	PPP1R13B	14	104201496	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3400150	104201496	3148044	807	21807											
AHNAK2	113146	broad.mit.edu	37	chr14	105414292	105414292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccgaggcctcgatggacttgCctggggcagacaccccgaat	8	6	13	14	3	0	1	0	0	0	1	1	5	0	2	5	4	1	1	5	4	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:105414292C>T	uc010axc.1	-	7	7616	c.7496G>A	c.(7495-7497)GGC>GAC	p.G2499D	AHNAK2_uc001ypx.2_Missense_Mutation_p.G2399D	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2499						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GATGGACTTGCCTGGGGCAGA	0.607													67	392					0	0	0.01441	0	0		T	105414292	T	T	105414292	3	4	25	1	0	0	0	0	1	0	0	0	415	739	26	2	9895	2	AHNAK2	14	105414292	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1212796	105414292	1935248	808	21808											
BRF1	2972	broad.mit.edu	37	chr14	105685344	105685344	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcgcccaccttgtgttcCttgtagatgccgagctcctt	5	12	10	14	2	0	1	0	0	0	1	2	2	2	1	5	1	2	3	5	1	1	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:105685344C>A	uc001yqp.2	-	14	1869	c.1506G>T	c.(1504-1506)AAG>AAT	p.K502N	BRF1_uc010tyo.1_Missense_Mutation_p.K387N|BRF1_uc010typ.1_Missense_Mutation_p.K409N|BRF1_uc001yqk.2_Missense_Mutation_p.K28N|BRF1_uc001yql.2_Missense_Mutation_p.K298N|BRF1_uc001yqo.2_Missense_Mutation_p.K264N|BRF1_uc010axg.1_Missense_Mutation_p.K475N|BRF1_uc001yqn.2_Intron|BRF1_uc010axh.1_Intron|BRF1_uc010axi.1_Missense_Mutation_p.K28N	NM_001519	NP_001510	Q92994	TF3B_HUMAN	transcription initiation factor IIIB isoform 1	502					positive regulation of transcription, DNA-dependent|rRNA transcription|transcription initiation from RNA polymerase III promoter|tRNA transcription	transcription factor TFIIIB complex	translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		all_cancers(154;0.0231)|all_epithelial(191;0.0694)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00753)|all cancers(16;0.00925)|Epithelial(46;0.0221)	Epithelial(152;0.14)		CCTTGTGTTCCTTGTAGATGC	0.577													68	245					8.92729e-27	9.71396e-27	0.01441	1	0		A	105685344	A	A	105685344	3	1	25	1	0	0	0	0	1	0	0	0	1513	680	24	5	547	5	BRF1	14	105685344	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	271052	105685344	1664196	809	21809											
BRF1	2972	broad.mit.edu	37	chr14	105739058	105739058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctcaaaccaaaggatacGcggcgtgccctccgtacggc	9	6	11	15	5	1	0	1	0	1	0	3	1	2	1	3	3	4	2	3	3	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr14:105739058G>A	uc001yqp.2	-	3	802	c.439C>T	c.(439-441)CAC>TAC	p.H147Y	BRF1_uc010tyo.1_Missense_Mutation_p.H32Y|BRF1_uc010typ.1_Missense_Mutation_p.H32Y|BRF1_uc010axg.1_Missense_Mutation_p.H120Y|BRF1_uc001yqr.2_Missense_Mutation_p.H147Y	NM_001519	NP_001510	Q92994	TF3B_HUMAN	transcription initiation factor IIIB isoform 1	147	1.				positive regulation of transcription, DNA-dependent|rRNA transcription|transcription initiation from RNA polymerase III promoter|tRNA transcription	transcription factor TFIIIB complex	translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		all_cancers(154;0.0231)|all_epithelial(191;0.0694)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00753)|all cancers(16;0.00925)|Epithelial(46;0.0221)	Epithelial(152;0.14)		CAAAGGATACGCGGCGTGCCC	0.587													22	42					0	0	0.021523	0	0		A	105739058	A	A	105739058	3	1	25	1	0	0	0	0	1	0	0	0	1513	1101	38	1	1658	1	BRF1	14	105739058	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	53714	105739058	1610482	810	21810											
OR4N4	283694	broad.mit.edu	37	chr15	22382983	22382983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccgcttgcctttttgtggcCcaaaccagctggacaacttc	7	12	8	14	1	0	0	0	0	0	0	2	1	1	1	4	2	4	2	4	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:22382983C>T	uc001yuc.1	+	7	1492	c.511C>T	c.(511-513)CCA>TCA	p.P171S	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.P171S	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	171	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TTTTTGTGGCCCAAACCAGCT	0.522													11	286					0	0	0.016723	0	0		T	22382983	T	T	22382983	3	4	25	1	0	0	0	0	1	0	0	0	11097	623	22	4	513	4	OR4N4	15	22382983	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08		22382983	80148409	811	21811											
GABRB3	2562	broad.mit.edu	37	chr15	26793063	26793063	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtattttaattttgagctgTgaagacctcctccgtagatg	9	15	10	7	1	0	4	0	2	0	2	2	4	2	4	3	1	1	3	3	1	4	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:26793063T>C	uc001zaz.2	-	9	1441	c.1299A>G	c.(1297-1299)TCA>TCG	p.S433S	GABRB3_uc010uae.1_Silent_p.S348S|GABRB3_uc001zba.2_Silent_p.S433S|GABRB3_uc001zbb.2_Silent_p.S489S	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	433	Cytoplasmic (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TTTTGAGCTGTGAAGACCTCC	0.473													23	115					0	0	0.014323	0	0		C	26793063	C	C	26793063	2	2	25	1	0	0	0	0	0	0	0	1	6182	1683	59	3		3	GABRB3	15	26793063	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	4410080	26793063	75738329	812	21812											
GABRB3	2562	broad.mit.edu	37	chr15	26812789	26812789	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggacacccacgacagaatCgttatcagtatagagggcat	15	7	10	9	2	1	2	1	0	0	2	2	4	1	3	1	2	0	3	1	2	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:26812789C>T	uc001zaz.2	-	7	916	c.774G>A	c.(772-774)ACG>ACA	p.T258T	GABRB3_uc010uae.1_Silent_p.T173T|GABRB3_uc001zba.2_Silent_p.T258T|GABRB3_uc001zbb.2_Silent_p.T314T	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	258	Helical; (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	ACGACAGAATCGTTATCAGTA	0.408													31	123					0	0	0.010818	0	0		T	26812789	T	T	26812789	2	4	25	1	0	0	0	0	0	0	0	1	6182	871	31	1		1	GABRB3	15	26812789	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	19726	26812789	75718603	813	21813											
HERC2	8924	broad.mit.edu	37	chr15	28474714	28474714	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gttttaaaattgtatctatcCcttccaggcgaacctctgct	9	15	6	11	1	2	0	0	0	2	0	4	1	4	0	3	1	2	3	3	1	5	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:28474714C>A	uc001zbj.2	-	33	5118	c.5012G>T	c.(5011-5013)GGG>GTG	p.G1671V		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1671					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TGTATCTATCCCTTCCAGGCG	0.393													67	255					3.07281e-33	3.3701e-33	0.01441	1	0		A	28474714	A	A	28474714	3	1	25	1	0	0	0	0	1	0	0	0	7074	623	22	5	9736	5	HERC2	15	28474714	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1661925	28474714	74056678	814	21814											
HERC2	8924	broad.mit.edu	37	chr15	28510807	28510807	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcatccccactcccacaCgccacatcgatgaccttcag	10	7	6	18	2	1	2	1	2	0	0	4	3	3	2	5	0	1	1	5	0	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:28510807C>T	uc001zbj.2	-	14	1933	c.1827G>A	c.(1825-1827)GCG>GCA	p.A609A	HERC2_uc001zbl.1_Silent_p.A304A	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	609	RCC1 2.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CACTCCCACACGCCACATCGA	0.587													27	137					0	0	0.005443	0	0		T	28510807	T	T	28510807	2	4	25	1	0	0	0	0	0	0	0	1	7074	523	19	1		1	HERC2	15	28510807	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	36093	28510807	74020585	815	21815											
ARHGAP11A	9824	broad.mit.edu	37	chr15	32915726	32915726	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttgcacatctttagaagaCcatattcataccgaagggct	12	11	8	10	1	2	2	1	0	1	2	2	3	2	2	2	1	2	3	2	1	5	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:32915726C>A	uc001zgy.1	+	3	956	c.234C>A	c.(232-234)GAC>GAA	p.D78E	ARHGAP11A_uc010ubw.1_5'UTR|ARHGAP11A_uc001zgw.2_Missense_Mutation_p.D78E|ARHGAP11A_uc001zgx.2_Missense_Mutation_p.D78E|ARHGAP11A_uc010ubx.1_5'UTR	NM_014783	NP_055598	Q6P4F7	RHGBA_HUMAN	Rho GTPase activating protein 11A isoform 1	78	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			skin(3)|breast(2)|urinary_tract(1)	6		all_lung(180;1.3e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)		CTTTAGAAGACCATATTCATA	0.373													6	184					0.00116845	0.00118472	0.001168	1	0		A	32915726	A	A	32915726	3	1	25	1	0	0	0	0	1	0	0	0	863	506	18	5	244	5	ARHGAP11A	15	32915726	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4404919	32915726	69615666	816	21816											
SCG5	6447	broad.mit.edu	37	chr15	32988792	32988792	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcccccatttttcagatgaGgataaggatccagagtaaag	13	10	10	8	0	1	3	1	1	0	2	3	5	3	5	3	2	0	1	3	2	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:32988792G>A	uc001zha.2	+	6	738	c.621G>A	c.(619-621)GAG>GAA	p.E207E	SCG5_uc001zgz.2_Silent_p.E206E	NM_001144757	NP_001138229	P05408	7B2_HUMAN	secretogranin V isoform 1	207					intracellular protein transport|neuropeptide signaling pathway|peptide hormone processing|regulation of hormone secretion	extracellular region|stored secretory granule	enzyme inhibitor activity|GTP binding|unfolded protein binding				0		all_lung(180;7.32e-08)		all cancers(64;6.48e-17)|Epithelial(43;1.23e-11)|GBM - Glioblastoma multiforme(186;1.39e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0212)		TTTCAGATGAGGATAAGGATC	0.418													8	29					0	0	0.00308	0	0		A	32988792	A	A	32988792	2	1	25	1	0	0	0	0	0	0	0	1	13918	991	35	4		4	SCG5	15	32988792	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	73066	32988792	69542600	817	21817											
RYR3	6263	broad.mit.edu	37	chr15	34072445	34072445	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggagaatgtctggcctcGctggcagctgccataccagt	7	10	12	12	1	1	1	0	0	1	1	2	2	1	1	3	3	3	3	3	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:34072445G>A	uc001zhi.2	+	65	9241	c.9171G>A	c.(9169-9171)TCG>TCA	p.S3057S	RYR3_uc010bar.2_Silent_p.S3057S	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3057	Helical; Name=M''; (Potential).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GTCTGGCCTCGCTGGCAGCTG	0.562													5	19					0	0	0.00308	0	0		A	34072445	A	A	34072445	2	1	25	1	0	0	0	0	0	0	0	1	13795	1074	38	1		1	RYR3	15	34072445	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1083653	34072445	68458947	818	21818											
C15orf52	388115	broad.mit.edu	37	chr15	40630070	40630070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccgggggctcccccaccgGccggctccagggctcccaag	4	4	13	20	3	0	0	0	0	0	0	4	0	4	0	7	5	0	3	7	5	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:40630070G>A	uc001zlh.3	-	6	686	c.670C>T	c.(670-672)CCG>TCG	p.P224S	C15orf52_uc001zli.1_Missense_Mutation_p.P156S|C15orf52_uc010ucn.1_Missense_Mutation_p.P14S	NM_207380	NP_997263	Q6ZUT6	CO052_HUMAN	hypothetical protein LOC388115	224										large_intestine(1)	1		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.06e-06)|Colorectal(105;0.0107)|BRCA - Breast invasive adenocarcinoma(123;0.0505)|READ - Rectum adenocarcinoma(2;0.0649)|Lung(196;0.0781)|LUAD - Lung adenocarcinoma(183;0.0841)		TCCCCCACCGGCCGGCTCCAG	0.677													7	17					0	0	0.006214	0	0		A	40630070	A	A	40630070	3	1	25	1	0	0	0	0	1	0	0	0	1803	1203	42	2	958	2	C15orf52	15	40630070	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	6557625	40630070	61901322	819	21819											
DNAJC17	55192	broad.mit.edu	37	chr15	41066555	41066555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctcatgcagcactcaccGctgccttgacggttgcaaac	9	8	9	15	2	2	1	2	1	0	0	2	1	2	1	3	1	6	5	3	1	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:41066555G>A	uc001zms.1	-	9	691	c.680C>T	c.(679-681)GCG>GTG	p.A227V	DNAJC17_uc010bbz.1_RNA|DNAJC17_uc010bca.1_RNA|DNAJC17_uc010bcb.1_RNA	NM_018163	NP_060633	Q9NVM6	DJC17_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 17	227	RRM.				protein folding		heat shock protein binding|nucleotide binding|RNA binding|unfolded protein binding				0		all_cancers(109;4.16e-14)|all_epithelial(112;9.68e-12)|Lung NSC(122;3.19e-09)|all_lung(180;6.45e-08)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;2.91e-05)|COAD - Colon adenocarcinoma(120;0.153)|BRCA - Breast invasive adenocarcinoma(123;0.166)		AGCACTCACCGCTGCCTTGAC	0.587													69	308					0	0	0.01441	0	0		A	41066555	A	A	41066555	3	1	25	1	0	0	0	0	1	0	0	0	4642	1101	38	1	246	1	DNAJC17	15	41066555	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	436485	41066555	61464837	820	21820											
DLL4	54567	broad.mit.edu	37	chr15	41227195	41227195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgactccccctgcttcaatGggggctcctgccgggagcgc	4	7	13	17	3	1	0	1	0	0	0	3	2	3	1	5	3	3	2	5	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:41227195G>A	uc001zng.1	+	8	1440	c.1120G>A	c.(1120-1122)GGG>AGG	p.G374R		NM_019074	NP_061947	Q9NR61	DLL4_HUMAN	delta-like 4 protein precursor	374	EGF-like 5.|Extracellular (Potential).				blood circulation|cell communication|cell differentiation|Notch receptor processing|Notch signaling pathway	integral to membrane|plasma membrane	calcium ion binding|Notch binding			breast(2)	2		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		CTGCTTCAATGGGGGCTCCTG	0.612													21	101					0	0	0.004656	0	0		A	41227195	A	A	41227195	3	1	25	1	0	0	0	0	1	0	0	0	4574	1348	47	4	1150	4	DLL4	15	41227195	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	160640	41227195	61304197	821	21821											
MGA	23269	broad.mit.edu	37	chr15	42042288	42042288	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagccagaggccaaagagaaGgaatgtggagactctctgga	14	5	14	8	0	1	3	0	0	1	3	2	7	1	5	2	4	1	0	2	4	3	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:42042288G>A	uc010ucy.1	+	17	6664	c.6483G>A	c.(6481-6483)AAG>AAA	p.K2161K	MGA_uc010ucz.1_Silent_p.K1952K|MGA_uc010uda.1_Silent_p.K777K|MGA_uc001zoi.2_Silent_p.K375K	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	2122	Basic motif.					MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		CCAAAGAGAAGGAATGTGGAG	0.428													14	52					0	0	0.003163	0	0		A	42042288	A	A	42042288	2	1	25	1	0	0	0	0	0	0	0	1	9558	991	35	4		4	MGA	15	42042288	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	815093	42042288	60489104	822	21822											
MAPKBP1	23005	broad.mit.edu	37	chr15	42116010	42116010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccctggcgaggcagaaaagCctggcttcccggtgggccta	7	6	14	14	2	0	1	0	0	0	1	1	2	1	1	5	5	1	2	5	5	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:42116010C>T	uc001zok.3	+	30	4268	c.3982C>T	c.(3982-3984)CCT>TCT	p.P1328S	MAPKBP1_uc001zoj.3_Missense_Mutation_p.P1322S|MAPKBP1_uc010bcj.2_Missense_Mutation_p.P829S|MAPKBP1_uc010bci.2_Intron|MAPKBP1_uc010udb.1_Missense_Mutation_p.P1161S|MAPKBP1_uc010bck.2_Missense_Mutation_p.P539S|MAPKBP1_uc010bcl.2_Missense_Mutation_p.P829S	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	1328										central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		GGCAGAAAAGCCTGGCTTCCC	0.617													41	199					0	0	0.01441	0	0		T	42116010	T	T	42116010	3	4	25	1	0	0	0	0	1	0	0	0	9310	739	26	2	4096	2	MAPKBP1	15	42116010	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	73722	42116010	60415382	823	21823											
SPTBN5	51332	broad.mit.edu	37	chr15	42160736	42160736	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggccactgctaggctcttGcgaactctcctccacctgca	6	9	9	17	2	2	0	0	0	2	0	4	1	3	0	4	2	4	3	4	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:42160736G>A	uc001zos.2	-	33	6145	c.5812C>T	c.(5812-5814)CAA>TAA	p.Q1938*	hsa-mir-4310|MI0015840_5'Flank	NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	1973	Spectrin 16.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		CTAGGCTCTTGCGAACTCTCC	0.701													4	65					0	0	0.014758	0	0		A	42160736	A	A	42160736	4	1	25	1	0	0	0	0	0	1	0	0	15147	1328	46	2	5251	2	SPTBN5	15	42160736	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	44726	42160736	60370656	824	21824											
GANC	2595	broad.mit.edu	37	chr15	42570682	42570682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catactccgtatctataggcGtcagaaacagtggctttcca	11	11	8	11	2	2	1	1	0	1	1	4	1	4	1	2	2	2	2	2	2	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:42570682G>A	uc001zpi.2	+	3	409	c.95G>A	c.(94-96)CGT>CAT	p.R32H	GANC_uc001zph.2_Missense_Mutation_p.R32H|GANC_uc001zpj.1_5'UTR|GANC_uc010ude.1_Missense_Mutation_p.R32H	NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	32					carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		ATCTATAGGCGTCAGAAACAG	0.378													19	113					0	0	0.008871	0	0		A	42570682	A	A	42570682	3	1	25	1	0	0	0	0	1	0	0	0	6249	1145	40	1	105	1	GANC	15	42570682	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	409946	42570682	59960710	825	21825											
ZFP106	64397	broad.mit.edu	37	chr15	42717097	42717097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcagtccattccgggcatCgcgtacactaattgtgcagt	9	10	11	11	3	0	0	0	0	0	0	3	1	2	0	2	1	3	4	2	1	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:42717097C>T	uc001zpw.2	-	13	5391	c.5056G>A	c.(5056-5058)GAT>AAT	p.D1686N	ZFP106_uc001zpu.2_Missense_Mutation_p.D784N|ZFP106_uc001zpv.2_Missense_Mutation_p.D871N|ZFP106_uc001zpx.2_Missense_Mutation_p.D914N	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1686	WD 3.					nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		TTCCGGGCATCGCGTACACTA	0.537													19	61					0	0	0.008871	0	0		T	42717097	T	T	42717097	3	4	25	1	0	0	0	0	1	0	0	0	17662	884	31	1	623	1	ZFP106	15	42717097	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	146415	42717097	59814295	826	21826											
DUOX2	50506	broad.mit.edu	37	chr15	45401073	45401073	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctggctatagctgggcaGccccatatctcggccacgtt	6	9	12	14	2	1	0	0	0	1	0	2	0	1	0	4	4	2	4	4	4	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:45401073G>T	uc010bea.2	-	12	1515	c.1312C>A	c.(1312-1314)CTG>ATG	p.L438M	DUOX2_uc001zun.2_Missense_Mutation_p.L438M	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	438	Extracellular (Potential).|Peroxidase-like; mediates peroxidase activity (By similarity).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		TAGCTGGGCAGCCCCATATCT	0.557													27	116					2.47316e-13	2.63309e-13	0.015359	1	0		T	45401073	T	T	45401073	3	4	25	1	0	0	0	0	1	0	0	0	4807	962	34	5	3426	5	DUOX2	15	45401073	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2683976	45401073	57130319	827	21827											
WDR72	256764	broad.mit.edu	37	chr15	53992122	53992122	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtcaccgcacacacagcaAattatctgctcaccccttag	11	9	6	15	1	3	0	2	0	1	0	3	0	3	0	3	1	2	3	3	1	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:53992122A>G	uc002acj.2	-	13	1632	c.1590T>C	c.(1588-1590)ATT>ATC	p.I530I	WDR72_uc010bfi.1_Silent_p.I530I	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	530	WD 7.									lung(1)|skin(1)	2				all cancers(107;0.0511)		ACACACAGCAAATTATCTGCT	0.433													37	170					0	0	0.019004	0	0		G	53992122	G	G	53992122	2	3	25	1	0	0	0	0	0	0	0	1	17348	10	1	3		3	WDR72	15	53992122	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	8591049	53992122	48539270	828	21828											
ZNF280D	54816	broad.mit.edu	37	chr15	56974620	56974620	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtttttatttactgtacttGaaaattctgttttagccagt	9	21	6	5	0	1	1	0	1	1	0	1	1	1	1	1	0	3	3	1	0	6	10			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:56974620G>C	uc002adu.2	-	10	1053	c.836C>G	c.(835-837)TCA>TGA	p.S279*	ZNF280D_uc002adv.2_Nonsense_Mutation_p.S266*|ZNF280D_uc010bfq.2_Nonsense_Mutation_p.S279*|ZNF280D_uc002adw.1_Nonsense_Mutation_p.S307*|ZNF280D_uc010bfr.1_RNA|ZNF280D_uc010bfp.2_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	279					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		TACTGTACTTGAAAATTCTGT	0.284													3	56					0	0	0.004672	0	0		C	56974620	C	C	56974620	4	2	25	1	0	0	0	0	0	1	0	0	17842	1294	45	5	2155	5	ZNF280D	15	56974620	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2982498	56974620	45556772	829	21829											
GCOM1	145781	broad.mit.edu	37	chr15	57918078	57918078	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccttggcatcagattcCattggcctgcaagtactcat	9	12	8	12	0	3	1	3	0	0	1	4	1	4	1	3	2	3	3	3	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:57918078C>A	uc002aei.2	+	5	632	c.513C>A	c.(511-513)TCC>TCA	p.S171S	GCOM1_uc002aej.2_Silent_p.S171S|GCOM1_uc002aek.2_RNA|GCOM1_uc002ael.2_Intron|GCOM1_uc002aem.2_Silent_p.S171S|GCOM1_uc002aeq.2_RNA|GCOM1_uc002aen.2_RNA|GCOM1_uc010bfy.2_RNA|GCOM1_uc002aeo.2_Silent_p.S171S|GCOM1_uc002aep.2_RNA|GCOM1_uc010bfx.2_RNA	NM_001018100	NP_001018110	P0CAP1	GCOM1_HUMAN	GRINL1A upstream protein isoform 7	171					intracellular signal transduction	extrinsic to internal side of plasma membrane|I band				ovary(1)	1						CATCAGATTCCATTGGCCTGC	0.478													6	84					1.5739e-10	1.65907e-10	0.004007	1	0		A	57918078	A	A	57918078	2	1	25	1	0	0	0	0	0	0	0	1	6319	581	21	5		5	GCOM1	15	57918078	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	943458	57918078	44613314	830	21830											
ALDH1A2	8854	broad.mit.edu	37	chr15	58287308	58287308	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccacacactccaatgggttCatgtcttgtaaaggtaaaat	13	12	7	9	0	2	0	1	0	1	0	4	0	4	0	2	2	0	3	2	2	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:58287308C>T	uc002aex.2	-	5	581	c.523G>A	c.(523-525)GAA>AAA	p.E175K	ALDH1A2_uc002aey.2_Missense_Mutation_p.E175K|ALDH1A2_uc010ugv.1_Missense_Mutation_p.E154K|ALDH1A2_uc010ugw.1_Missense_Mutation_p.E146K|ALDH1A2_uc002aew.2_Missense_Mutation_p.E79K	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	175					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	CCAATGGGTTCATGTCTTGTA	0.383													59	252					0	0	0.01441	0	0		T	58287308	T	T	58287308	3	4	25	1	0	0	0	0	1	0	0	0	491	835	29	4	1069	4	ALDH1A2	15	58287308	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	369230	58287308	44244084	831	21831											
ALDH1A2	8854	broad.mit.edu	37	chr15	58357786	58357786	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggcaggaggtgcagcgaCgccatgagggcggcggggtc	7	3	21	10	5	0	1	0	1	0	0	1	4	0	2	1	7	2	2	1	7	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:58357786C>T	uc002aex.2	-	1	121	c.63G>A	c.(61-63)GCG>GCA	p.A21A	ALDH1A2_uc002aey.2_Silent_p.A21A|ALDH1A2_uc010ugv.1_5'UTR|ALDH1A2_uc010ugw.1_Intron	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	21					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	GGTGCAGCGACGCCATGAGGG	0.667													19	53					0	0	0.008871	0	0		T	58357786	T	T	58357786	2	4	25	1	0	0	0	0	0	0	0	1	491	523	19	1		1	ALDH1A2	15	58357786	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	70478	58357786	44173606	832	21832											
HERC1	8925	broad.mit.edu	37	chr15	63966684	63966684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgctcgcttcaccatgtgtCgcatcaagaactgcagggct	8	10	10	13	2	2	1	2	0	0	1	4	1	2	1	1	1	3	5	1	1	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:63966684C>T	uc002amp.2	-	38	7851	c.7703G>A	c.(7702-7704)CGA>CAA	p.R2568Q		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	2568					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						CACCATGTGTCGCATCAAGAA	0.488													9	57					0	0	0.004482	0	0		T	63966684	T	T	63966684	3	4	25	1	0	0	0	0	1	0	0	0	7073	884	31	1	7046	1	HERC1	15	63966684	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	5608898	63966684	38564708	833	21833											
STRA6	64220	broad.mit.edu	37	chr15	74473191	74473191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctgggtaggaggctctgcGcttgcaggagcagggagcag	7	7	18	9	1	1	0	0	0	1	0	2	3	2	3	1	5	4	6	1	5	1	2	rs140894233		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:74473191G>A	uc002axk.2	-	18	1954	c.1772C>T	c.(1771-1773)GCG>GTG	p.A591V	STRA6_uc002axi.2_Missense_Mutation_p.A400V|STRA6_uc010ulh.1_Missense_Mutation_p.A629V|STRA6_uc002axj.2_Missense_Mutation_p.A630V|STRA6_uc010bji.2_Missense_Mutation_p.A591V|STRA6_uc002axl.2_Missense_Mutation_p.A523V|STRA6_uc002axm.2_Missense_Mutation_p.A591V|STRA6_uc002axn.2_Missense_Mutation_p.A582V|STRA6_uc010uli.1_Missense_Mutation_p.A628V	NM_022369	NP_071764	Q9BX79	STRA6_HUMAN	stimulated by retinoic acid gene 6 homolog	591	Cytoplasmic (Potential).				adrenal gland development|alveolar primary septum development|developmental growth|diaphragm development|digestive tract morphogenesis|ear development|embryonic camera-type eye formation|embryonic digestive tract development|eyelid development in camera-type eye|face morphogenesis|feeding behavior|female genitalia development|kidney development|lung vasculature development|neuromuscular process|nose morphogenesis|paramesonephric duct development|positive regulation of behavior|pulmonary artery morphogenesis|pulmonary valve morphogenesis|smooth muscle tissue development|transport|uterus morphogenesis|ventricular septum development|vocal learning	integral to membrane|plasma membrane|protein complex	receptor activity			central_nervous_system(1)	1						GAGGCTCTGCGCTTGCAGGAG	0.607													31	136					0	0	0.007835	0	0		A	74473191	A	A	74473191	3	1	25	1	0	0	0	0	1	0	0	0	15347	1087	38	1	239	1	STRA6	15	74473191	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	10506507	74473191	28058201	834	21834											
CLK3	1198	broad.mit.edu	37	chr15	74912421	74912421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacataccggtgtgaagagcGgagcccatcctttggagagg	10	8	14	9	2	0	3	0	1	0	2	1	5	1	4	3	4	4	0	3	4	3	3	rs146329671		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:74912421G>A	uc010uln.1	+	3	1129	c.668G>A	c.(667-669)CGG>CAG	p.R223Q	CLK3_uc002ayg.3_Missense_Mutation_p.R75Q|CLK3_uc002ayh.3_5'UTR|CLK3_uc010ulm.1_Missense_Mutation_p.R223Q|CLK3_uc002ayj.3_Missense_Mutation_p.R75Q|CLK3_uc002ayk.3_5'UTR	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	223	Arg-rich.					acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						TGTGAAGAGCGGAGCCCATCC	0.632													83	271					0	0	0.01441	0	0		A	74912421	A	A	74912421	3	1	25	1	0	0	0	0	1	0	0	0	3541	1116	39	1	678	1	CLK3	15	74912421	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	439230	74912421	27618971	835	21835											
MAN2C1	4123	broad.mit.edu	37	chr15	75649170	75649170	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctgcctcgcactgacgcgCcatacttgcagtcgttgagc	6	10	11	14	4	0	2	0	2	0	0	2	2	0	2	2	0	5	4	2	0	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:75649170C>G	uc002baf.2	-	22	2638	c.2621G>C	c.(2620-2622)GGC>GCC	p.G874A	MAN2C1_uc002bag.2_Missense_Mutation_p.G874A|MAN2C1_uc002bah.2_Missense_Mutation_p.G891A|MAN2C1_uc010bkk.2_Missense_Mutation_p.G775A	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	874					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						CACTGACGCGCCATACTTGCA	0.607													20	112					0	0	0.010504	0	0		G	75649170	G	G	75649170	3	3	25	1	0	0	0	0	1	0	0	0	9236	739	26	5	521	5	MAN2C1	15	75649170	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	736749	75649170	26882222	836	21836											
CSPG4	1464	broad.mit.edu	37	chr15	75980305	75980305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctgtagtcagcagccgcCgcccaccccgggccacatgg	6	5	12	18	4	2	0	1	0	1	0	2	0	2	0	6	2	2	2	6	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:75980305C>T	uc002baw.2	-	3	3194	c.3101G>A	c.(3100-3102)CGG>CAG	p.R1034Q		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1034	Interaction with COL5A1 (By similarity).|Extracellular (Potential).|Gly/Ser-rich (glycosaminoglycan attachment domain).|CSPG 6.|Interaction with COL6A2 (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						CAGCAGCCGCCGCCCACCCCG	0.642													23	79					0	0	0.005443	0	0		T	75980305	T	T	75980305	3	4	25	1	0	0	0	0	1	0	0	0	3963	652	23	1	3899	1	CSPG4	15	75980305	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	331135	75980305	26551087	837	21837											
CSPG4	1464	broad.mit.edu	37	chr15	75980366	75980366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggggcgtggtcattcaCgggctggatggccactcgga	7	7	16	11	3	2	0	2	0	0	0	3	2	2	2	1	7	0	1	1	7	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:75980366C>T	uc002baw.2	-	3	3133	c.3040G>A	c.(3040-3042)GTG>ATG	p.V1014M		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1014	Interaction with COL5A1 (By similarity).|Extracellular (Potential).|Gly/Ser-rich (glycosaminoglycan attachment domain).|Interaction with COL6A2 (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						TGGTCATTCACGGGCTGGATG	0.627													25	112					0	0	0.005443	0	0		T	75980366	T	T	75980366	3	4	25	1	0	0	0	0	1	0	0	0	3963	536	19	1	3960	1	CSPG4	15	75980366	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	61	75980366	26551026	838	21838											
FBXO22	26263	broad.mit.edu	37	chr15	76225165	76225165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgatgcagcgcctcaaagcgGccaacattccagagcataac	13	5	9	14	3	1	1	1	0	0	1	2	2	2	1	3	1	6	2	3	1	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:76225165G>A	uc002bbk.2	+	7	1039	c.934G>A	c.(934-936)GCC>ACC	p.A312T	FBXO22_uc002bbl.2_Missense_Mutation_p.A208T|FBXO22OS_uc002bbm.1_RNA	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	312					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0						CCTCAAAGCGGCCAACATTCC	0.522													25	137					0	0	0.021523	0	0		A	76225165	A	A	76225165	3	1	25	1	0	0	0	0	1	0	0	0	5748	1203	42	2	997	2	FBXO22	15	76225165	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	244799	76225165	26306227	839	21839											
C15orf27	123591	broad.mit.edu	37	chr15	76430103	76430103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatctcccaacaagtagacGaagaaaccaagagcattgct	16	7	7	11	1	2	3	1	0	1	3	3	4	2	3	2	0	4	3	2	0	6	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:76430103G>A	uc002bbq.2	+	3	249	c.94G>A	c.(94-96)GAA>AAA	p.E32K	C15orf27_uc010bkp.2_5'UTR|C15orf27_uc002bbr.2_5'UTR	NM_152335	NP_689548	Q2M3C6	CO027_HUMAN	hypothetical protein LOC123591	32						integral to membrane					0						ACAAGTAGACGAAGAAACCAA	0.532													53	248					0	0	0.01441	0	0		A	76430103	A	A	76430103	3	1	25	1	0	0	0	0	1	0	0	0	1791	1059	37	1	100	1	C15orf27	15	76430103	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	204938	76430103	26101289	840	21840											
ISL2	64843	broad.mit.edu	37	chr15	76632885	76632885	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcagctgcagcagcagcaGcacagcgacaagacggtgag	14	2	14	11	2	0	2	0	1	0	1	0	3	0	2	0	1	8	7	0	1	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:76632885G>A	uc002bbw.1	+	4	858	c.780G>A	c.(778-780)CAG>CAA	p.Q260Q		NM_145805	NP_665804	Q96A47	ISL2_HUMAN	ISL LIM homeobox 2	260						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AGCAGCAGCAGCACAGCGACA	0.647													8	33					0	0	0.020292	0	0		A	76632885	A	A	76632885	2	1	25	1	0	0	0	0	0	0	0	1	7873	962	34	2		2	ISL2	15	76632885	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	202782	76632885	25898507	841	21841											
TBC1D2B	23102	broad.mit.edu	37	chr15	78295700	78295700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttaaagaggatgtcactaaCgacactatccacaaatacca	17	9	5	10	1	1	1	1	0	0	1	2	3	2	2	2	1	2	0	2	1	6	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:78295700C>T	uc002bcy.3	-	11	2521	c.2521G>A	c.(2521-2523)GTT>ATT	p.V841I	TBC1D2B_uc010bla.2_Missense_Mutation_p.V841I|TBC1D2B_uc002bda.2_Missense_Mutation_p.V293I	NM_144572	NP_653173	Q9UPU7	TBD2B_HUMAN	TBC1 domain family, member 2B isoform a	841	Rab-GAP TBC.					intracellular	protein binding|Rab GTPase activator activity			ovary(1)|large_intestine(1)|breast(1)	3						ATGTCACTAACGACACTATCC	0.423													19	74					0	0	0.008871	0	0		T	78295700	T	T	78295700	3	4	25	1	0	0	0	0	1	0	0	0	15644	536	19	1	382	1	TBC1D2B	15	78295700	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1662815	78295700	24235692	842	21842											
TMED3	23423	broad.mit.edu	37	chr15	79603625	79603625	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccgcgctccgcctccgtgCtgcttctgctgctgctcctg	0	12	10	19	4	1	0	0	0	1	0	5	0	5	0	5	0	5	6	5	0	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:79603625C>T	uc002beu.2	+	1	135	c.34C>T	c.(34-36)CTG>TTG	p.L12L	TMED3_uc010unj.1_Silent_p.L12L|TMED3_uc002bev.2_RNA	NM_007364	NP_031390	Q9Y3Q3	TMED3_HUMAN	transmembrane emp24 domain containing 3	12					protein transport	ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane				ovary(1)|skin(1)	2						CGCCTCCGTGCTGCTTCTGCT	0.736													7	18					0	0	0.004482	0	0		T	79603625	T	T	79603625	2	4	25	1	0	0	0	0	0	0	0	1	16030	796	28	2		2	TMED3	15	79603625	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1307925	79603625	22927767	843	21843											
KIAA1024	23251	broad.mit.edu	37	chr15	79748713	79748713	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgaaatgcactgtgaataAccagcaatcaaagaaaatca	20	7	7	7	0	2	3	2	2	0	1	2	4	2	3	1	0	3	2	1	0	7	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:79748713A>G	uc002bew.1	+	2	299	c.224A>G	c.(223-225)AAC>AGC	p.N75S	KIAA1024_uc010unk.1_Missense_Mutation_p.N75S	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	75						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						ACTGTGAATAACCAGCAATCA	0.473													8	158					0	0	0.006214	0	0		G	79748713	G	G	79748713	3	3	25	1	0	0	0	0	1	0	0	0	8221	43	2	3	226	3	KIAA1024	15	79748713	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	145088	79748713	22782679	844	21844											
FAM108C1	58489	broad.mit.edu	37	chr15	81046586	81046586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccatggcctagcgatgtacGagcgctgtccccgagccgtg	6	7	13	15	5	0	0	0	0	0	0	1	3	1	0	5	1	4	2	5	1	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:81046586G>A	uc002bfu.2	+	3	984	c.865G>A	c.(865-867)GAG>AAG	p.E289K	FAM108C1_uc002bft.2_Missense_Mutation_p.E248K	NM_021214	NP_067037	Q6PCB6	F108C_HUMAN	hypothetical protein LOC58489	289							hydrolase activity				0						AGCGATGTACGAGCGCTGTCC	0.483													11	67					0	0	0.016723	0	0		A	81046586	A	A	81046586	3	1	25	1	0	0	0	0	1	0	0	0	5404	1059	37	1	875	1	FAM108C1	15	81046586	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1297873	81046586	21484806	845	21845											
EFTUD1	79631	broad.mit.edu	37	chr15	82443816	82443816	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccttaccgagaacatcAccagtggccatgatgtcaca	11	10	7	13	1	3	2	2	1	1	1	4	3	4	2	4	1	2	0	4	1	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:82443816A>G	uc002bgt.1	-	18	3148	c.2979T>C	c.(2977-2979)GGT>GGC	p.G993G	EFTUD1_uc002bgs.1_Silent_p.G364G|EFTUD1_uc002bgu.1_Silent_p.G942G	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	993					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						CGAGAACATCACCAGTGGCCA	0.408													34	180					0	0	0.021022	0	0		G	82443816	G	G	82443816	2	3	25	1	0	0	0	0	0	0	0	1	4966	146	6	3		3	EFTUD1	15	82443816	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	1397230	82443816	20087576	846	21846											
AKAP13	11214	broad.mit.edu	37	chr15	86286871	86286871	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaggaacagcatctctcGgacacacaaagataaggggc	18	4	10	9	1	1	1	0	0	1	1	3	3	1	3	0	4	2	1	0	4	5	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:86286871G>T	uc002blv.1	+	36	8377	c.8207G>T	c.(8206-8208)CGG>CTG	p.R2736L	AKAP13_uc002blu.1_Missense_Mutation_p.R2740L|AKAP13_uc002blw.1_Missense_Mutation_p.R1201L|AKAP13_uc002blx.1_Missense_Mutation_p.R981L	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2736	Interaction with ESR1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						AGCATCTCTCGGACACACAAA	0.542													69	340					1.15062e-32	1.25994e-32	0.01441	1	0		T	86286871	T	T	86286871	3	4	25	1	0	0	0	0	1	0	0	0	449	1116	39	5	8415	5	AKAP13	15	86286871	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3843055	86286871	16244521	847	21847											
DET1	55070	broad.mit.edu	37	chr15	89074383	89074383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagtcttctagaggggacCgtgggttgggggtcactgat	8	11	16	6	1	3	2	1	1	2	1	3	3	3	3	1	5	0	1	1	5	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:89074383C>T	uc002bmr.2	-	2	706	c.554G>A	c.(553-555)CGG>CAG	p.R185Q	DET1_uc002bmp.3_RNA|DET1_uc010bnk.2_RNA|DET1_uc002bmq.2_Missense_Mutation_p.R196Q	NM_001144074	NP_001137546	Q7L5Y6	DET1_HUMAN	de-etiolated 1 isoform 2	185						nucleus				lung(1)|pancreas(1)	2	Lung NSC(78;0.105)|all_lung(78;0.182)		BRCA - Breast invasive adenocarcinoma(143;0.188)			TAGAGGGGACCGTGGGTTGGG	0.527													13	72					0	0	0.013537	0	0		T	89074383	T	T	89074383	3	4	25	1	0	0	0	0	1	0	0	0	4456	652	23	1	1114	1	DET1	15	89074383	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2787512	89074383	13457009	848	21848											
ZNF710	374655	broad.mit.edu	37	chr15	90611774	90611774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttcgtgtgcactgaatgcGgcatggagttcagccagatt	8	11	12	10	2	1	2	1	1	0	1	2	3	1	3	2	2	3	3	2	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:90611774G>A	uc002bov.1	+	2	1528	c.1405G>A	c.(1405-1407)GGC>AGC	p.G469S		NM_198526	NP_940928	Q8N1W2	ZN710_HUMAN	zinc finger protein 710	469	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	Melanoma(11;0.00551)|Lung NSC(78;0.0196)|all_lung(78;0.04)		BRCA - Breast invasive adenocarcinoma(143;0.00769)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.129)			CACTGAATGCGGCATGGAGTT	0.602													73	251					0	0	0.01441	0	0		A	90611774	A	A	90611774	3	1	25	1	0	0	0	0	1	0	0	0	18140	1116	39	1	1407	1	ZNF710	15	90611774	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1537391	90611774	11919618	849	21849											
SLCO3A1	28232	broad.mit.edu	37	chr15	92459652	92459652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggcgtctcctacatcgacGaccacgtgcggaggaaggac	9	6	14	12	5	1	0	0	0	1	0	3	5	1	3	2	4	2	0	2	4	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr15:92459652G>A	uc002bqx.2	+	2	811	c.610G>A	c.(610-612)GAC>AAC	p.D204N	SLCO3A1_uc002bqy.2_Missense_Mutation_p.D204N|SLCO3A1_uc010boc.1_RNA|SLCO3A1_uc002bqz.1_Missense_Mutation_p.D146N	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,	204	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			CTACATCGACGACCACGTGCG	0.587													7	34					0	0	0.00308	0	0		A	92459652	A	A	92459652	3	1	25	1	0	0	0	0	1	0	0	0	14753	1058	37	1	616	1	SLCO3A1	15	92459652	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1847878	92459652	10071740	850	21850											
PDIA2	64714	broad.mit.edu	37	chr16	334505	334505	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggatgggcccgcgcagcgCgagctggctgaggagtttgg	5	7	20	9	4	0	1	0	1	0	0	0	4	0	3	1	5	2	4	1	5	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:334505C>T	uc002cgn.1	+	7	1426	c.318C>T	c.(316-318)CGC>CGT	p.R106R	PDIA2_uc010bqt.1_5'UTR|PDIA2_uc002cgo.1_Silent_p.R106R	NM_006849	NP_006840	Q13087	PDIA2_HUMAN	protein disulfide isomerase A2 precursor	106	Thioredoxin 1.				apoptosis|cell redox homeostasis|glycerol ether metabolic process|protein folding|protein retention in ER lumen|response to hypoxia	endoplasmic reticulum lumen	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity|steroid binding			central_nervous_system(1)|skin(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				CCGCGCAGCGCGAGCTGGCTG	0.662													10	28					0	0	0.006214	0	0		T	334505	T	T	334505	2	4	25	1	0	0	0	0	0	0	0	1	11687	755	27	1		1	PDIA2	16	334505	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08		334505	90020248	851	21851											
DECR2	26063	broad.mit.edu	37	chr16	461481	461481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctggcttcctacgtgaCgggggccgtgctggtggccg	2	9	16	14	4	1	1	0	1	1	0	2	1	2	1	4	5	2	2	4	5	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:461481C>T	uc002chb.2	+	8	888	c.782C>T	c.(781-783)ACG>ATG	p.T261M	DECR2_uc002chc.2_Missense_Mutation_p.T177M|DECR2_uc010bqv.2_Missense_Mutation_p.T177M|DECR2_uc002chd.2_Missense_Mutation_p.T177M|DECR2_uc002che.1_RNA	NM_020664	NP_065715	Q9NUI1	DECR2_HUMAN	2,4-dienoyl CoA reductase 2	261						peroxisome	2,4-dienoyl-CoA reductase (NADPH) activity|binding				0		Hepatocellular(16;0.00015)				TCCTACGTGACGGGGGCCGTG	0.632													26	84					0	0	0.009535	0	0		T	461481	T	T	461481	3	4	25	1	0	0	0	0	1	0	0	0	4386	536	19	1	812	1	DECR2	16	461481	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	126976	461481	89893272	852	21852											
STUB1	10273	broad.mit.edu	37	chr16	731592	731592	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctccaggctcattgccgcGgagcgtgagaggtgggaccc	6	7	15	13	3	2	1	1	1	1	1	3	4	2	3	3	4	2	1	3	4	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:731592G>A	uc002cit.2	+	3	924	c.513G>A	c.(511-513)GCG>GCA	p.A171A	STUB1_uc002ciu.2_Silent_p.A99A|STUB1_uc010bqz.2_RNA|STUB1_uc002civ.2_RNA	NM_005861	NP_005852	Q9UNE7	CHIP_HUMAN	STIP1 homology and U-box containing protein 1	171					cellular response to misfolded protein|DNA repair|misfolded or incompletely synthesized protein catabolic process|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein K63-linked ubiquitination|protein maturation|regulation of glucocorticoid metabolic process|ubiquitin-dependent SMAD protein catabolic process	cytoplasm|nuclear inclusion body|ubiquitin conjugating enzyme complex|ubiquitin ligase complex	Hsp70 protein binding|Hsp90 protein binding|kinase binding|misfolded protein binding|protein binding, bridging|protein homodimerization activity|SMAD binding|TPR domain binding|ubiquitin-ubiquitin ligase activity				0		Hepatocellular(780;0.00335)				TCATTGCCGCGGAGCGTGAGA	0.587													11	34					0	0	0.016723	0	0		A	731592	A	A	731592	2	1	25	1	0	0	0	0	0	0	0	1	15360	1103	39	1		1	STUB1	16	731592	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	270111	731592	89623161	853	21853											
WDR24	84219	broad.mit.edu	37	chr16	735692	735692	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcacggtgcgcgtgttcCggatccagcaggtacagctc	7	8	12	14	4	1	0	1	0	0	0	4	1	3	1	2	3	4	4	2	3	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:735692C>T	uc002ciz.1	-	6	2425	c.1665G>A	c.(1663-1665)CCG>CCA	p.P555P	JMJD8_uc002ciw.1_5'Flank|JMJD8_uc002cix.1_5'Flank|JMJD8_uc002ciy.1_5'Flank	NM_032259	NP_115635	Q96S15	WDR24_HUMAN	WD repeat domain 24	685										ovary(1)|central_nervous_system(1)	2		Hepatocellular(780;0.0218)				GCGCGTGTTCCGGATCCAGCA	0.657													20	127					0	0	0.016522	0	0		T	735692	T	T	735692	2	4	25	1	0	0	0	0	0	0	0	1	17307	639	23	1		1	WDR24	16	735692	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4100	735692	89619061	854	21854											
CHTF18	63922	broad.mit.edu	37	chr16	840569	840569	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccagcccttgggggcccCtgaggaggagccgactgacg	7	4	16	14	2	0	2	0	2	0	0	0	5	0	4	5	4	3	0	5	4	0	1	rs150535361	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:840569C>A	uc002cke.3	+	7	860	c.797C>A	c.(796-798)CCT>CAT	p.P266H	RPUSD1_uc002cka.2_5'Flank|RPUSD1_uc002ckb.2_5'Flank|RPUSD1_uc002ckc.2_5'Flank|RPUSD1_uc002ckd.2_5'Flank|CHTF18_uc010uus.1_Silent_p.P271P|CHTF18_uc010bre.1_RNA|CHTF18_uc002ckf.3_Missense_Mutation_p.P294H|CHTF18_uc010brf.2_Translation_Start_Site|CHTF18_uc002ckg.3_Translation_Start_Site	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	266					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity	p.P266L(1)		kidney(1)	1		Hepatocellular(780;0.00335)				TTGGGGGCCCCTGAGGAGGAG	0.642													3	11					0.004672	0.00471633	0.004672	1	0		A	840569	A	A	840569	3	1	25	1	0	0	0	0	1	0	0	0	3417	681	24	5	823	5	CHTF18	16	840569	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	104877	840569	89514184	855	21855											
TBL3	10607	broad.mit.edu	37	chr16	2025196	2025196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctccttcagctccggccGtgacaagatatgtatcatct	8	13	8	12	2	3	2	2	1	1	1	5	2	5	2	3	1	2	3	3	1	3	4	rs147036287		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:2025196G>A	uc002cnu.1	+	8	746	c.644G>A	c.(643-645)CGT>CAT	p.R215H	TBL3_uc002cnv.1_Missense_Mutation_p.R101H|TBL3_uc010bsb.1_Intron|TBL3_uc010bsc.1_Missense_Mutation_p.R101H|TBL3_uc010uvt.1_Translation_Start_Site|TBL3_uc002cnw.1_5'Flank	NM_006453	NP_006444	Q12788	TBL3_HUMAN	transducin beta-like 3	215	WD 4.				G-protein signaling, coupled to cGMP nucleotide second messenger|rRNA processing	nucleolus|small-subunit processome	receptor signaling protein activity				0						AGCTCCGGCCGTGACAAGATA	0.607													34	166					0	0	0.017118	0	0		A	2025196	A	A	2025196	3	1	25	1	0	0	0	0	1	0	0	0	15668	1145	40	1	674	1	TBL3	16	2025196	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1184627	2025196	88329557	856	21856											
PKD1	5310	broad.mit.edu	37	chr16	2150168	2150168	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatggaacgaggccttactCgcggccagcacctccttctc	8	8	9	16	3	1	0	0	0	1	0	4	2	2	1	4	3	3	1	4	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:2150168C>T	uc002cos.1	-	28	9920	c.9711G>A	c.(9709-9711)GCG>GCA	p.A3237A	PKD1_uc002cot.1_Silent_p.A3237A|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	3237	Cytoplasmic (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AGGCCTTACTCGCGGCCAGCA	0.667													9	60					0	0	0.020292	0	0		T	2150168	T	T	2150168	2	4	25	1	0	0	0	0	0	0	0	1	11982	898	31	1		1	PKD1	16	2150168	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	124972	2150168	88204585	857	21857											
TBC1D24	57465	broad.mit.edu	37	chr16	2546755	2546755	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagctgatggtggccgtgtcGgaggatgtcctgcaggtcta	7	10	16	8	2	1	1	0	1	1	0	3	3	2	3	2	5	2	2	2	5	2	1	rs61731478		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:2546755G>A	uc002cql.2	+	2	746	c.606G>A	c.(604-606)TCG>TCA	p.S202S	TBC1D24_uc002cqk.2_Silent_p.S202S|TBC1D24_uc002cqm.2_Silent_p.S202S|TBC1D24_uc010bsm.2_5'Flank	NM_020705	NP_065756	Q9ULP9	TBC24_HUMAN	TBC1 domain family, member 24	202	Rab-GAP TBC.				neuron projection development	cytoplasm	protein binding|Rab GTPase activator activity				0						TGGCCGTGTCGGAGGATGTCC	0.617													9	45					0	0	0.00499	0	0		A	2546755	A	A	2546755	2	1	25	1	0	0	0	0	0	0	0	1	15639	1103	39	1		1	TBC1D24	16	2546755	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	396587	2546755	87807998	858	21858											
SRRM2	23524	broad.mit.edu	37	chr16	2809396	2809396	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaaatctaaggacaaaaagCgaaagcggtgagtgaatttg	17	8	12	4	2	1	2	0	2	1	0	1	4	1	3	0	2	2	1	0	2	7	3	rs138293757		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:2809396C>T	uc002crk.2	+	8	1282	c.733C>T	c.(733-735)CGA>TGA	p.R245*	SRRM2_uc002crj.1_Nonsense_Mutation_p.R149*|SRRM2_uc002crl.1_Nonsense_Mutation_p.R245*|SRRM2_uc010bsu.1_Nonsense_Mutation_p.R149*	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	245	Sufficient for RNA-binding.|Lys-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GGACAAAAAGCGAAAGCGGTG	0.408													21	94					0	0	0.021523	0	0		T	2809396	T	T	2809396	4	4	25	1	0	0	0	0	0	1	0	0	15194	760	27	1	759	1	SRRM2	16	2809396	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	262641	2809396	87545357	859	21859											
PAQR4	124222	broad.mit.edu	37	chr16	3021597	3021597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgggctacactgtgttgtCgggtgtggccggctggcgtg	2	11	20	8	3	0	0	0	0	0	0	1	0	0	0	1	6	1	3	1	6	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:3021597C>T	uc002csj.3	+	3	804	c.470C>T	c.(469-471)TCG>TTG	p.S157L	PAQR4_uc002csk.3_Missense_Mutation_p.S118L|PAQR4_uc002csl.3_Missense_Mutation_p.S83L|PAQR4_uc010uwm.1_Missense_Mutation_p.S88L	NM_152341	NP_689554	Q8N4S7	PAQR4_HUMAN	progestin and adipoQ receptor family member IV	157	Helical; (Potential).					integral to membrane	receptor activity				0						ACTGTGTTGTCGGGTGTGGCC	0.687													30	101					0	0	0.021022	0	0		T	3021597	T	T	3021597	3	4	25	1	0	0	0	0	1	0	0	0	11456	893	31	1	480	1	PAQR4	16	3021597	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	212201	3021597	87333156	860	21860											
ZSCAN10	84891	broad.mit.edu	37	chr16	3139113	3139113	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtacagcgtctcgcgggcGtgggtgcgcaggtggcgcag	5	7	19	10	6	1	0	0	0	1	0	2	0	1	0	0	4	3	3	0	4	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:3139113G>A	uc002ctv.1	-	5	2245	c.2157C>T	c.(2155-2157)CAC>CAT	p.H719H	ZSCAN10_uc002cty.1_Silent_p.H380H|ZSCAN10_uc002ctw.1_Silent_p.H637H|ZSCAN10_uc002ctx.1_Silent_p.H647H	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	719	C2H2-type 14.				negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						TCTCGCGGGCGTGGGTGCGCA	0.711													5	23					0	0	0.008291	0	0		A	3139113	A	A	3139113	2	1	25	1	0	0	0	0	0	0	0	1	18252	1136	40	1		1	ZSCAN10	16	3139113	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	117516	3139113	87215640	861	21861											
ZNF263	10127	broad.mit.edu	37	chr16	3339480	3339480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgcttcctgaccaggcccGaggggaggtgccctggagtc	5	7	16	13	1	0	1	0	1	0	0	2	4	1	3	4	5	2	2	4	5	0	1	rs79713839	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:3339480G>A	uc002cuq.2	+	6	1306	c.974G>A	c.(973-975)CGA>CAA	p.R325Q	ZNF263_uc010uww.1_5'UTR|ZNF263_uc002cur.2_5'UTR	NM_005741	NP_005732	O14978	ZN263_HUMAN	zinc finger protein 263	325					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(3)|ovary(1)	4						GACCAGGCCCGAGGGGAGGTG	0.597													36	169					0	0	0.00623	0	0		A	3339480	A	A	3339480	3	1	25	1	0	0	0	0	1	0	0	0	17828	1058	37	1	996	1	ZNF263	16	3339480	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	200367	3339480	87015273	862	21862											
HMOX2	3163	broad.mit.edu	37	chr16	4555534	4555534	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacccagcagcaatgtcagcGgaagtggaaacctcagaggg	13	4	13	11	1	2	1	2	0	0	1	2	3	2	3	2	3	4	2	2	3	3	0	rs143511999	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:4555534G>A	uc010bts.2	+	2	180	c.9G>A	c.(7-9)GCG>GCA	p.A3A	HMOX2_uc002cwr.3_Silent_p.A3A|HMOX2_uc002cwq.3_Silent_p.A3A|HMOX2_uc002cws.3_Silent_p.A57A|HMOX2_uc010btt.2_Silent_p.A3A|HMOX2_uc002cwt.2_Silent_p.A3A	NM_001127206	NP_001120678	P30519	HMOX2_HUMAN	heme oxygenase (decyclizing) 2	3					cellular iron ion homeostasis|heme catabolic process|heme oxidation|response to hypoxia|transmembrane transport	endoplasmic reticulum membrane|microsome|plasma membrane	electron carrier activity|heme oxygenase (decyclizing) activity|metal ion binding|protein binding				0					NADH(DB00157)	CAATGTCAGCGGAAGTGGAAA	0.567													6	28					0	0	0.00308	0	0		A	4555534	A	A	4555534	2	1	25	1	0	0	0	0	0	0	0	1	7260	1103	39	1		1	HMOX2	16	4555534	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1216054	4555534	85799219	863	21863											
GLYR1	84656	broad.mit.edu	37	chr16	4861191	4861191	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatttgctgcagctgccaTgggagtcggatggttgaccg	6	11	14	10	2	1	1	1	1	0	0	2	3	1	3	2	3	4	4	2	3	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:4861191T>C	uc002cxx.3	-	15	1604	c.1567A>G	c.(1567-1569)ATG>GTG	p.M523V	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Missense_Mutation_p.M437V|GLYR1_uc002cya.2_Missense_Mutation_p.M517V|GLYR1_uc010uxv.1_Missense_Mutation_p.M442V	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	523					pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						GCAGCTGCCATGGGAGTCGGA	0.418													42	168					0	0	0.01441	0	0		C	4861191	C	C	4861191	3	2	25	1	0	0	0	0	1	0	0	0	6498	1464	51	3	102	3	GLYR1	16	4861191	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	305657	4861191	85493562	864	21864											
MYH11	4629	broad.mit.edu	37	chr16	15797971	15797971	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggaacgaaagaggtctcGtttcctcgcctgtgggttgt	8	11	14	8	3	1	1	0	0	1	1	4	4	2	2	2	3	1	2	2	3	3	2	rs149529195	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:15797971G>A	uc002ddy.2	-	41	5903	c.5796C>T	c.(5794-5796)AAC>AAT	p.N1932N	MYH11_uc002ddv.2_3'UTR|MYH11_uc002ddw.2_3'UTR|MYH11_uc002ddx.2_Silent_p.N1939N|MYH11_uc010bvg.2_3'UTR|NDE1_uc010uzy.1_Intron|NDE1_uc002dds.2_Intron	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1932	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						AAGAGGTCTCGTTTCCTCGCC	0.393			T	CBFB	AML								69	218					0	0	0.01441	0	0		A	15797971	A	A	15797971	2	1	25	1	0	0	0	0	0	0	0	1	10049	1136	40	1		1	MYH11	16	15797971	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	10936780	15797971	74556782	865	21865											
ABCC6	368	broad.mit.edu	37	chr16	16263538	16263538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcccgaagatcccgccaCgcagggctgcctgcgtctgc	6	5	14	16	4	1	1	0	0	1	1	2	3	2	2	4	2	4	2	4	2	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:16263538C>T	uc002den.3	-	22	2997	c.2960G>A	c.(2959-2961)CGT>CAT	p.R987H	ABCC6_uc010bvo.2_RNA	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	987	ABC transmembrane type-1 2.|Extracellular (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		GATCCCGCCACGCAGGGCTGC	0.667													5	28					0	0	0.006214	0	0		T	16263538	T	T	16263538	3	4	25	1	0	0	0	0	1	0	0	0	57	536	19	1	1591	1	ABCC6	16	16263538	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	465567	16263538	74091215	866	21866											
UMOD	7369	broad.mit.edu	37	chr16	20357449	20357449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccactggccaggacgtaccGtcaacactgtcccacagggg	9	5	11	16	2	1	0	1	0	0	0	2	1	2	1	4	4	2	1	4	4	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:20357449G>A	uc002dgz.2	-	5	1310	c.1181C>T	c.(1180-1182)ACG>ATG	p.T394M	UMOD_uc002dha.2_Missense_Mutation_p.T394M|UMOD_uc002dhb.2_Missense_Mutation_p.T427M	NM_003361	NP_003352	P07911	UROM_HUMAN	uromodulin precursor	394	ZP.				cellular defense response|negative regulation of cell proliferation	anchored to membrane|apical plasma membrane|basolateral plasma membrane|cilium membrane|extrinsic to membrane|primary cilium|spindle pole	calcium ion binding			ovary(1)|skin(1)	2						AGGACGTACCGTCAACACTGT	0.398													8	68					0	0	0.006214	0	0		A	20357449	A	A	20357449	3	1	25	1	0	0	0	0	1	0	0	0	17005	1159	40	1	769	1	UMOD	16	20357449	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4093911	20357449	69997304	867	21867											
ACSM3	6296	broad.mit.edu	37	chr16	20796389	20796389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaaatggagaaacaagaCgggcctggatatctacgaag	17	6	12	6	2	1	3	0	1	1	2	1	6	1	4	1	3	2	0	1	3	7	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:20796389C>T	uc002dhr.2	+	8	1290	c.1103C>T	c.(1102-1104)ACG>ATG	p.T368M	ACSM3_uc002dhq.2_Missense_Mutation_p.T368M|ACSM3_uc010vba.1_Missense_Mutation_p.T397M|ERI2_uc002dhs.2_Intron	NM_005622	NP_005613	Q53FZ2	ACSM3_HUMAN	SA hypertension-associated homolog isoform 1	368					regulation of blood pressure	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			ovary(1)	1						AGAAACAAGACGGGCCTGGAT	0.423													32	121					0	0	0.019004	0	0		T	20796389	T	T	20796389	3	4	25	1	0	0	0	0	1	0	0	0	185	536	19	1	1129	1	ACSM3	16	20796389	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	438940	20796389	69558364	868	21868											
DNAH3	55567	broad.mit.edu	37	chr16	21117878	21117878	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctaagttgcctcctgagTttgaacacagtgacagcact	10	12	8	11	0	1	3	0	3	1	0	3	3	2	3	2	0	3	3	2	0	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:21117878T>C	uc010vbe.1	-	15	2217	c.2217A>G	c.(2215-2217)AAA>AAG	p.K739K	DNAH3_uc002die.2_Silent_p.K679K	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	739	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GCCTCCTGAGTTTGAACACAG	0.483													19	103					0	0	0.008871	0	0		C	21117878	C	C	21117878	2	2	25	1	0	0	0	0	0	0	0	1	4609	1722	60	3		3	DNAH3	16	21117878	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	321489	21117878	69236875	869	21869											
PRKCB	5579	broad.mit.edu	37	chr16	24185846	24185846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttaatttcagattttacGctgcagaaattgccatcggt	10	17	7	7	2	1	2	1	0	0	2	2	2	1	2	1	1	3	2	1	1	3	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:24185846G>A	uc002dmd.2	+	12	1536	c.1339G>A	c.(1339-1341)GCT>ACT	p.A447T	PRKCB_uc002dme.2_Missense_Mutation_p.A447T	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	447	Protein kinase.				apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	CAGATTTTACGCTGCAGAAAT	0.393													19	113					0	0	0.008871	0	0		A	24185846	A	A	24185846	3	1	25	1	0	0	0	0	1	0	0	0	12530	1087	38	1	1385	1	PRKCB	16	24185846	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3067968	24185846	66168907	870	21870											
RBBP6	5930	broad.mit.edu	37	chr16	24580149	24580149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctggttcaacacgttcacGctcttattctcgatcattca	9	15	5	12	3	7	0	4	0	3	0	8	1	7	0	0	1	1	3	0	1	2	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:24580149G>A	uc002dmh.2	+	17	3178	c.2138G>A	c.(2137-2139)CGC>CAC	p.R713H	RBBP6_uc010vcb.1_Missense_Mutation_p.R580H|RBBP6_uc002dmi.2_Missense_Mutation_p.R679H|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Missense_Mutation_p.R546H	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	713					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		ACACGTTCACGCTCTTATTCT	0.418													38	143					0	0	0.00623	0	0		A	24580149	A	A	24580149	3	1	25	1	0	0	0	0	1	0	0	0	13128	1087	38	1	2258	1	RBBP6	16	24580149	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	394303	24580149	65774604	871	21871											
RBBP6	5930	broad.mit.edu	37	chr16	24583099	24583099	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttgtaaggatcgtgagaAgcatgtattagaagcaagga	14	10	12	5	1	0	2	0	1	0	2	2	5	1	4	1	2	2	4	1	2	6	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:24583099A>C	uc002dmh.2	+	18	5752	c.4712A>C	c.(4711-4713)AAG>ACG	p.K1571T	RBBP6_uc002dmi.2_Missense_Mutation_p.K1537T|RBBP6_uc010bxr.2_Missense_Mutation_p.K731T|RBBP6_uc002dmk.2_Missense_Mutation_p.K1404T	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1571					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		GATCGTGAGAAGCATGTATTA	0.358													40	144					0	0	0.007835	0	0		C	24583099	C	C	24583099	3	2	25	1	0	0	0	0	1	0	0	0	13128	72	3	5	4836	5	RBBP6	16	24583099	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	2950	24583099	65771654	872	21872											
TUFM	7284	broad.mit.edu	37	chr16	28855746	28855746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagagtcctcaccagggaCggagtacaccgcctccacag	11	4	11	15	2	1	1	1	0	0	1	3	4	3	3	5	2	1	1	5	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:28855746C>T	uc002drh.2	-	6	950	c.811G>A	c.(811-813)GTC>ATC	p.V271I	uc010vct.1_Intron|SH2B1_uc002dri.2_5'Flank	NM_003321	NP_003312	P49411	EFTU_HUMAN	Tu translation elongation factor, mitochondrial	268						mitochondrial nucleoid	GTP binding|GTPase activity|protein binding|translation elongation factor activity			ovary(1)	1						TCACCAGGGACGGAGTACACC	0.602													17	96					0	0	0.014323	0	0		T	28855746	T	T	28855746	3	4	25	1	0	0	0	0	1	0	0	0	16797	536	19	1	576	1	TUFM	16	28855746	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4272647	28855746	61499007	873	21873											
ITGAL	3683	broad.mit.edu	37	chr16	30507511	30507511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctctgacagacatcaacGgcgatgggctggtagacgtg	9	8	14	10	3	2	3	1	1	1	2	2	4	2	3	0	3	2	3	0	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:30507511G>A	uc002dyi.3	+	14	1773	c.1597G>A	c.(1597-1599)GGC>AGC	p.G533S	ITGAL_uc002dyj.3_Missense_Mutation_p.G450S|ITGAL_uc010vev.1_Intron	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	533	Potential.|FG-GAP 6.|Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	AGACATCAACGGCGATGGGCT	0.617													41	240					0	0	0.01441	0	0		A	30507511	A	A	30507511	3	1	25	1	0	0	0	0	1	0	0	0	7902	1116	39	1	1651	1	ITGAL	16	30507511	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1651765	30507511	59847242	874	21874											
ZNF764	92595	broad.mit.edu	37	chr16	30566999	30566999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtgtggacgcgcaggtgcGaagtcagcgccgagcgctgc	6	5	18	12	7	1	0	1	0	0	0	1	3	1	1	1	3	4	2	1	3	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:30566999G>A	uc002dyq.2	-	3	824	c.743C>T	c.(742-744)TCG>TTG	p.S248L	ZNF764_uc002dyr.1_Missense_Mutation_p.S247L	NM_033410	NP_219363	Q96H86	ZN764_HUMAN	zinc finger protein 764	248	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GCGCAGGTGCGAAGTCAGCGC	0.697													4	8					0	0	0.009096	0	0		A	30566999	A	A	30566999	3	1	25	1	0	0	0	0	1	0	0	0	18163	1059	37	1	487	1	ZNF764	16	30566999	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	59488	30566999	59787754	875	21875											
ZNF785	146540	broad.mit.edu	37	chr16	30594406	30594406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggaagcggcgcccgcagtcGgggcaggggtagggcttctc	5	5	19	12	5	1	0	0	0	1	0	3	1	1	1	1	7	1	4	1	7	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:30594406G>A	uc002dyw.1	-	3	771	c.693C>T	c.(691-693)CCC>CCT	p.P231P	uc002dyu.2_RNA|ZNF785_uc002dyv.1_Silent_p.P216P|ZNF785_uc010vez.1_Silent_p.P196P	NM_152458	NP_689671	A8K8V0	ZN785_HUMAN	zinc finger protein 785	231	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GCCCGCAGTCGGGGCAGGGGT	0.667													19	50					0	0	0.016522	0	0		A	30594406	A	A	30594406	2	1	25	1	0	0	0	0	0	0	0	1	18182	1103	39	1		1	ZNF785	16	30594406	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	27407	30594406	59760347	876	21876											
HSD3B7	80270	broad.mit.edu	37	chr16	30999391	30999391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccaacaccaccttcaccGtcagcaccgacaaggctcag	11	5	8	17	2	3	0	3	0	0	0	3	1	3	0	5	2	2	2	5	2	2	1	rs143419053		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:30999391G>A	uc002eaf.2	+	7	1103	c.997G>A	c.(997-999)GTC>ATC	p.V333I	HSD3B7_uc010cac.2_3'UTR|HSD3B7_uc002eag.2_3'UTR|HSD3B7_uc002eah.2_Missense_Mutation_p.V333I	NM_025193	NP_079469	Q9H2F3	3BHS7_HUMAN	hydroxy-delta-5-steroid dehydrogenase, 3 beta-	333					bile acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|cholest-5-ene-3-beta,7-alpha-diol 3-beta-dehydrogenase activity				0						CACCTTCACCGTCAGCACCGA	0.642													12	54					0	0	0.013537	0	0		A	30999391	A	A	30999391	3	1	25	1	0	0	0	0	1	0	0	0	7408	1145	40	1	1019	1	HSD3B7	16	30999391	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	404985	30999391	59355362	877	21877											
TRIM72	493829	broad.mit.edu	37	chr16	31235536	31235536	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctttgacccgagctctgcGcacccgagcctggtggtgtc	5	9	12	15	3	1	1	0	1	1	0	2	3	1	1	4	2	3	2	4	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:31235536G>A	uc002ebn.1	+	7	1123	c.894G>A	c.(892-894)GCG>GCA	p.A298A	uc002ebp.1_5'Flank	NM_001008274	NP_001008275	Q6ZMU5	TRI72_HUMAN	tripartite motif-containing 72	298	B30.2/SPRY.				exocytosis|muscle organ development|muscle system process|plasma membrane repair|protein homooligomerization	cytoplasmic vesicle membrane|sarcolemma	phosphatidylserine binding|zinc ion binding				0						CGAGCTCTGCGCACCCGAGCC	0.662													17	51					0	0	0.00499	0	0		A	31235536	A	A	31235536	2	1	25	1	0	0	0	0	0	0	0	1	16571	1074	38	1		1	TRIM72	16	31235536	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	236145	31235536	59119217	878	21878											
ITFG1	81533	broad.mit.edu	37	chr16	47294490	47294490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaagaaggtggcaaccatgGcatccttaatttgatttagg	13	11	10	7	0	0	2	0	1	0	1	1	2	1	2	2	4	1	2	2	4	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:47294490G>A	uc002eet.2	-	11	1249	c.1187C>T	c.(1186-1188)GCC>GTC	p.A396V	ITFG1_uc010vgg.1_Missense_Mutation_p.A141V|ITFG1_uc010vgh.1_Missense_Mutation_p.A283V	NM_030790	NP_110417	Q8TB96	TIP_HUMAN	integrin alpha FG-GAP repeat containing 1	396						extracellular region|integral to membrane				ovary(1)|central_nervous_system(1)	2		all_cancers(37;0.0613)|all_lung(18;0.0543)|Lung NSC(13;0.227)				GGCAACCATGGCATCCTTAAT	0.433													39	195					0	0	0.005524	0	0		A	47294490	A	A	47294490	3	1	25	1	0	0	0	0	1	0	0	0	7885	1203	42	2	683	2	ITFG1	16	47294490	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	16058954	47294490	43060263	879	21879											
LONP2	83752	broad.mit.edu	37	chr16	48337105	48337105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataccagagaggcaggggttCgttctctggatagaaaactt	12	10	12	7	1	1	2	0	0	1	2	3	4	1	3	1	4	2	3	1	4	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:48337105C>T	uc002efi.1	+	11	1773	c.1684C>T	c.(1684-1686)CGT>TGT	p.R562C	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Missense_Mutation_p.R518C	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	562					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						GGCAGGGGTTCGTTCTCTGGA	0.413													26	62					0	0	0.017118	0	0		T	48337105	T	T	48337105	3	4	25	1	0	0	0	0	1	0	0	0	8911	884	31	1	1726	1	LONP2	16	48337105	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1042615	48337105	42017648	880	21880											
ZNF423	23090	broad.mit.edu	37	chr16	49671946	49671946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccacagaggcgctggagtCgggtgtggcgctgctcatgg	5	8	17	11	3	1	1	1	0	0	1	3	2	2	2	1	5	1	3	1	5	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:49671946C>T	uc002efs.2	-	5	1415	c.1117G>A	c.(1117-1119)GAC>AAC	p.D373N	ZNF423_uc010vgn.1_Missense_Mutation_p.D256N	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	373					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GCGCTGGAGTCGGGTGTGGCG	0.677													12	46					0	0	0.013537	0	0		T	49671946	T	T	49671946	3	4	25	1	0	0	0	0	1	0	0	0	17923	884	31	1	2757	1	ZNF423	16	49671946	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1334841	49671946	40682807	881	21881											
ZNF423	23090	broad.mit.edu	37	chr16	49672418	49672418	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagggcttgctggagctgtgGgtcttcaggtggatcttgag	6	12	17	6	0	3	1	1	1	2	0	3	3	3	3	0	5	2	3	0	5	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:49672418G>T	uc002efs.2	-	5	943	c.645C>A	c.(643-645)ACC>ACA	p.T215T	ZNF423_uc010vgn.1_Silent_p.T98T	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	215	C2H2-type 4.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				TGGAGCTGTGGGTCTTCAGGT	0.592													12	107					3.07112e-06	3.1673e-06	0.010729	1	0		T	49672418	T	T	49672418	2	4	25	1	0	0	0	0	0	0	0	1	17923	1219	43	5		5	ZNF423	16	49672418	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	472	49672418	40682335	882	21882											
ADCY7	113	broad.mit.edu	37	chr16	50325704	50325704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactactgcccttcagcatgCggggcgctgtcgccgttggg	4	9	14	14	4	1	0	1	0	0	0	2	0	1	0	2	3	4	3	2	3	1	3	rs141967597		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:50325704C>T	uc002egd.1	+	3	701	c.433C>T	c.(433-435)CGG>TGG	p.R145W	ADCY7_uc002egb.1_Missense_Mutation_p.R145W|ADCY7_uc002egc.1_Missense_Mutation_p.R145W	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	145					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	CTTCAGCATGCGGGGCGCTGT	0.632													13	55					0	0	0.016723	0	0		T	50325704	T	T	50325704	3	4	25	1	0	0	0	0	1	0	0	0	299	759	27	1	443	1	ADCY7	16	50325704	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	653286	50325704	40029049	883	21883											
NOD2	64127	broad.mit.edu	37	chr16	50745284	50745284	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttgtgccacctgcctgtcTtctcatggatggtgtccaaa	6	14	10	11	0	2	0	1	0	2	0	4	1	3	1	4	2	2	1	4	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:50745284T>C	uc002egm.1	+	4	1567	c.1462T>C	c.(1462-1464)TTC>CTC	p.F488L	NOD2_uc010cbk.1_Missense_Mutation_p.F461L|NOD2_uc002egl.1_Missense_Mutation_p.F266L|NOD2_uc010cbl.1_Missense_Mutation_p.F266L|NOD2_uc010cbm.1_Missense_Mutation_p.F266L|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	488	NACHT.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				CCTGCCTGTCTTCTCATGGAT	0.587													46	162					0	0	0.01441	0	0		C	50745284	C	C	50745284	3	2	25	1	0	0	0	0	1	0	0	0	10536	1609	56	3	1476	3	NOD2	16	50745284	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	419580	50745284	39609469	884	21884											
CHD9	80205	broad.mit.edu	37	chr16	53272439	53272439	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaacgttgtggtttatcatGggagcctgattagcagacaa	11	13	11	6	1	1	2	1	1	0	1	1	3	1	3	1	2	3	3	1	2	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:53272439G>T	uc002ehb.2	+	11	2982	c.2818G>T	c.(2818-2820)GGG>TGG	p.G940W	CHD9_uc002egy.2_Missense_Mutation_p.G940W|CHD9_uc002eha.1_Missense_Mutation_p.G940W|CHD9_uc002ehc.2_Missense_Mutation_p.G940W|CHD9_uc002ehf.2_Missense_Mutation_p.G54W|CHD9_uc002ehd.2_Missense_Mutation_p.G466W|CHD9_uc002ehe.1_Missense_Mutation_p.G54W	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	940	Helicase ATP-binding.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				GGTTTATCATGGGAGCCTGAT	0.388													64	277					2.73361e-28	2.98154e-28	0.01441	1	0		T	53272439	T	T	53272439	3	4	25	1	0	0	0	0	1	0	0	0	3335	1348	47	5	2860	5	CHD9	16	53272439	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2527155	53272439	37082314	885	21885											
IRX6	79190	broad.mit.edu	37	chr16	55363164	55363164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggactaccgctgaactgtgCgccgtgcccgcggaggagcg	6	5	17	13	6	0	1	0	1	0	0	0	4	0	4	3	3	5	1	3	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:55363164C>T	uc002ehy.2	+	5	1807	c.1274C>T	c.(1273-1275)GCG>GTG	p.A425V	IRX6_uc002ehx.2_Missense_Mutation_p.A425V	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	425						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						CTGAACTGTGCGCCGTGCCCG	0.617													33	100					0	0	0.019004	0	0		T	55363164	T	T	55363164	3	4	25	1	0	0	0	0	1	0	0	0	7864	768	27	1	1292	1	IRX6	16	55363164	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2090725	55363164	34991589	886	21886											
NLRC5	84166	broad.mit.edu	37	chr16	57092032	57092032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgccttctggaatgtctgCcgcaggtgcccatctccggt	5	11	12	13	2	3	0	0	0	3	0	4	2	3	1	4	3	3	1	4	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:57092032C>T	uc002ekk.1	+	28	4027	c.3802C>T	c.(3802-3804)CCG>TCG	p.P1268S	NLRC5_uc002ekn.2_Intron|NLRC5_uc002ekl.2_Missense_Mutation_p.P1072S|NLRC5_uc002ekm.2_Missense_Mutation_p.P1042S|NLRC5_uc010ccr.1_RNA|NLRC5_uc010ccs.1_RNA|NLRC5_uc002eko.1_RNA|NLRC5_uc002ekp.1_Missense_Mutation_p.P183S|NLRC5_uc002ekq.1_5'UTR|NLRC5_uc002ekr.1_Missense_Mutation_p.P155S	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	1268					defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				GGAATGTCTGCCGCAGGTGCC	0.577													5	12					0	0	0.001168	0	0		T	57092032	T	T	57092032	3	4	25	1	0	0	0	0	1	0	0	0	10489	739	26	2	3904	2	NLRC5	16	57092032	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1728868	57092032	33262721	887	21887											
GPR56	9289	broad.mit.edu	37	chr16	57687898	57687898	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgctttctcctccctgccagGcagttgcagagcctggagtc	5	10	11	15	1	1	1	0	0	1	1	4	2	2	2	4	2	3	4	4	2	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:57687898G>A	uc002emb.2	+	6	913	c.621G>A	c.(619-621)CAG>CAA	p.Q207Q	GPR56_uc002elz.1_Silent_p.Q37Q|GPR56_uc002ema.1_Silent_p.Q32Q|GPR56_uc002emc.2_Silent_p.Q207Q|GPR56_uc002emf.2_Silent_p.Q207Q|GPR56_uc010vhs.1_Silent_p.Q207Q|GPR56_uc002emd.2_Silent_p.Q207Q|GPR56_uc002eme.2_Silent_p.Q207Q|GPR56_uc010vht.1_Silent_p.Q212Q|GPR56_uc002emg.3_Silent_p.Q207Q|GPR56_uc010vhu.1_Silent_p.Q32Q	NM_005682	NP_005673	Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56 isoform a	207	Extracellular (Potential).				brain development|cell adhesion|cell-cell signaling|neuropeptide signaling pathway	integral to plasma membrane	G-protein coupled receptor activity				0						TCCCTGCCAGGCAGTTGCAGA	0.552													55	254					0	0	0.01441	0	0		A	57687898	A	A	57687898	2	1	25	1	0	0	0	0	0	0	0	1	6715	1217	42	2		2	GPR56	16	57687898	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	595866	57687898	32666855	888	21888											
CDH8	1006	broad.mit.edu	37	chr16	61689517	61689517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgattgtcaaggtgctagtgCtgctcagtggaggatttcca	8	13	13	7	0	2	1	2	1	0	0	3	3	3	3	1	3	3	3	1	3	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:61689517C>T	uc002eog.1	-	11	2015	c.1763G>A	c.(1762-1764)AGC>AAC	p.S588N		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	588	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		GGTGCTAGTGCTGCTCAGTGG	0.453													27	81					0	0	0.007291	0	0		T	61689517	T	T	61689517	3	4	25	1	0	0	0	0	1	0	0	0	3119	797	28	2	644	2	CDH8	16	61689517	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4001619	61689517	28665236	889	21889											
EXOC3L	283849	broad.mit.edu	37	chr16	67221273	67221273	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaccacgttgtactgtggcgGgcagcaaggcgctactagtg	8	8	15	10	3	0	0	0	0	0	0	0	1	0	0	1	3	3	5	1	3	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:67221273G>T	uc002erx.1	-	5	1136	c.895C>A	c.(895-897)CCG>ACG	p.P299T	EXOC3L_uc002erv.1_RNA|EXOC3L_uc002erw.1_Intron|EXOC3L_uc002ery.1_Missense_Mutation_p.P243T|EXOC3L_uc010vje.1_Missense_Mutation_p.P238T	NM_178516	NP_848611	Q86VI1	EX3L1_HUMAN	exocyst complex component 3-like	299	Mediates interaction with EXOC2, EXOC4 and EXOC5 (By similarity).				exocytosis|peptide hormone secretion	exocyst|stored secretory granule|transport vesicle					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0021)|Epithelial(162;0.0073)|all cancers(182;0.0616)		TACTGTGGCGGGCAGCAAGGC	0.652													14	60					2.61681e-11	2.76898e-11	0.020292	1	0		T	67221273	T	T	67221273	3	4	25	1	0	0	0	0	1	0	0	0	5312	1232	43	5	1385	5	EXOC3L	16	67221273	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5531756	67221273	23133480	890	21890											
AGRP	181	broad.mit.edu	37	chr16	67517002	67517002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcttcttcagtggggcccGcaggcccaggcctggggcag	4	8	16	13	1	3	0	1	0	2	0	3	0	3	0	3	6	0	2	3	6	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:67517002G>A	uc002etg.1	-	3	442	c.142C>T	c.(142-144)CGG>TGG	p.R48W	ATP6V0D1_uc002ete.1_5'Flank|ATP6V0D1_uc010vjo.1_5'Flank	NM_001138	NP_001129	O00253	AGRP_HUMAN	agouti related protein homolog isoform 1	48					hormone-mediated signaling pathway|neuropeptide signaling pathway|regulation of feeding behavior	extracellular space|Golgi lumen	neuropeptide hormone activity				0		Acute lymphoblastic leukemia(13;0.00263)|all_hematologic(13;0.0274)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0717)|Epithelial(162;0.16)		AGTGGGGCCCGCAGGCCCAGG	0.592													37	165					0	0	0.00623	0	0		A	67517002	A	A	67517002	3	1	25	1	0	0	0	0	1	0	0	0	398	1086	38	1	264	1	AGRP	16	67517002	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	295729	67517002	22837751	891	21891											
RLTPR	146206	broad.mit.edu	37	chr16	67683500	67683500	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagttgctggccaaggcgCtgcgggtcaactcgaggctc	7	7	14	13	3	1	0	1	0	0	0	3	1	1	0	2	4	3	4	2	4	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:67683500C>A	uc002etn.2	+	20	2017	c.1897C>A	c.(1897-1899)CTG>ATG	p.L633M	RLTPR_uc010cel.1_Missense_Mutation_p.L626M|RLTPR_uc010vjr.1_Missense_Mutation_p.L597M	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	633	Tropomodulin-like.									breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		GGCCAAGGCGCTGCGGGTCAA	0.706													13	40					1.05317e-09	1.10427e-09	0.020292	1	0		A	67683500	A	A	67683500	3	1	25	1	0	0	0	0	1	0	0	0	13419	796	28	5	1975	5	RLTPR	16	67683500	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	166498	67683500	22671253	892	21892											
GFOD2	81577	broad.mit.edu	37	chr16	67709348	67709348	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccctgctcaggcagtcCtgcgcccactgccagcgagt	5	6	13	17	2	1	0	1	0	0	0	2	1	2	0	5	2	4	2	5	2	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:67709348C>A	uc002eub.2	-	3	1163	c.868G>T	c.(868-870)GGA>TGA	p.G290*	GFOD2_uc002eua.1_RNA|GFOD2_uc002euc.2_Nonsense_Mutation_p.G185*	NM_030819	NP_110446	Q3B7J2	GFOD2_HUMAN	glucose-fructose oxidoreductase domain	290						proteinaceous extracellular matrix	binding|oxidoreductase activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0151)|Epithelial(162;0.0505)|all cancers(182;0.242)		TCAGGCAGTCCTGCGCCCACT	0.662													27	89					2.12542e-12	2.25764e-12	0.00632	1	0		A	67709348	A	A	67709348	4	1	25	1	0	0	0	0	0	1	0	0	6359	690	24	5	293	5	GFOD2	16	67709348	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	25848	67709348	22645405	893	21893											
NFATC3	4775	broad.mit.edu	37	chr16	68191771	68191771	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtttctttttcctgattaGctcctgggctataacgaaaa	9	16	8	8	1	1	1	0	1	1	0	3	2	3	1	2	1	2	3	2	1	5	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:68191771G>A	uc002evo.1	+	4	1612	c.1402_splice	c.e4-1	p.L468_splice	NFATC3_uc010vkl.1_Splice_Site|NFATC3_uc010vkm.1_Splice_Site|NFATC3_uc010vkn.1_Splice_Site|NFATC3_uc010vko.1_Splice_Site|NFATC3_uc010vkp.1_Splice_Site|NFATC3_uc010vkq.1_Splice_Site|NFATC3_uc002evl.2_Splice_Site|NFATC3_uc002evk.2_Splice_Site_p.L468_splice|NFATC3_uc002evm.1_Splice_Site_p.L468_splice|NFATC3_uc002evn.1_Splice_Site_p.L468_splice|NFATC3_uc010vkr.1_Splice_Site|NFATC3_uc010vks.1_Splice_Site|NFATC3_uc010vkt.1_Splice_Site|NFATC3_uc010vku.1_Splice_Site|NFATC3_uc010vkv.1_Splice_Site|NFATC3_uc010vkw.1_Splice_Site|NFATC3_uc010vkx.1_Splice_Site|NFATC3_uc010vky.1_Splice_Site|NFATC3_uc010vkz.1_Splice_Site|NFATC3_uc010vla.1_Splice_Site|NFATC3_uc010vlb.1_Splice_Site|NFATC3_uc010vlc.1_Splice_Site	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,						inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		TTCCTGATTAGCTCCTGGGCT	0.338													8	64					0	0	0.004482	0	0		A	68191771	A	A	68191771	5	1	25	1	0	0	0	0	0	0	1	0	10383	985	34	2	1415	2	NFATC3	16	68191771	Splice_Site	SNP	G	TCGA-BR-4370-01A-01D-1158-08	482423	68191771	22162982	894	21894											
NOB1	28987	broad.mit.edu	37	chr16	69786254	69786254	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggctggggtagtctcctgTtttctttgaaaactcagtca	8	14	11	8	0	4	1	2	1	2	0	5	2	4	1	1	3	1	3	1	3	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:69786254T>C	uc002exs.2	-	3	233	c.217A>G	c.(217-219)ACA>GCA	p.T73A		NM_014062	NP_054781	Q9ULX3	NOB1_HUMAN	nin one binding protein	73	PINc.					nucleus	metal ion binding|protein binding				0						TAGTCTCCTGTTTTCTTTGAA	0.423													40	146					0	0	0.00623	0	0		C	69786254	C	C	69786254	3	2	25	1	0	0	0	0	1	0	0	0	10530	1725	60	3	1049	3	NOB1	16	69786254	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	1594483	69786254	20568499	895	21895											
MTSS1L	92154	broad.mit.edu	37	chr16	70708296	70708296	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagagtcatgggaggaaacGctggagaggcgagcggtggt	10	5	19	7	3	1	2	1	0	0	2	1	6	1	4	1	6	2	1	1	6	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:70708296G>A	uc002ezj.2	-	11	1226	c.966C>T	c.(964-966)AGC>AGT	p.S322S		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	322	Ser-rich.				filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						GGGAGGAAACGCTGGAGAGGC	0.652													8	32					0	0	0.016723	0	0		A	70708296	A	A	70708296	2	1	25	1	0	0	0	0	0	0	0	1	9981	1078	38	1		1	MTSS1L	16	70708296	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	922042	70708296	19646457	896	21896											
CHST6	4166	broad.mit.edu	37	chr16	75513450	75513450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacggagcgcaccaggtcgcGcacagccatgtgcagcgttg	8	5	15	13	5	0	0	0	0	0	0	1	2	0	1	2	2	4	4	2	2	0	1	rs121917826		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:75513450G>A	uc002fef.2	-	3	457	c.277C>T	c.(277-279)CGC>TGC	p.R93C	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Missense_Mutation_p.R93C	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	93	Lumenal (Potential).		R -> H (in MCD).		keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						ACCAGGTCGCGCACAGCCATG	0.642													18	89					0	0	0.010504	0	0		A	75513450	A	A	75513450	3	1	25	1	0	0	0	0	1	0	0	0	3411	1087	38	1	914	1	CHST6	16	75513450	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4805154	75513450	14841303	897	21897											
CDYL2	124359	broad.mit.edu	37	chr16	80666968	80666968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggacagcaggatgtgcGtgaacccttcttccttccgc	7	10	11	13	2	1	1	0	1	1	0	3	4	3	3	3	2	3	1	3	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:80666968G>A	uc002ffs.2	-	3	887	c.782C>T	c.(781-783)ACG>ATG	p.T261M		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	261						nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						CAGGATGTGCGTGAACCCTTC	0.547													36	180					0	0	0.019004	0	0		A	80666968	A	A	80666968	3	1	25	1	0	0	0	0	1	0	0	0	3189	1145	40	1	758	1	CDYL2	16	80666968	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5153518	80666968	9687785	898	21898											
PKD1L2	114780	broad.mit.edu	37	chr16	81155214	81155214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccaccatgtagtagaggaGgaagaggaagtagatgagct	15	6	14	6	0	0	4	0	1	0	3	0	7	0	7	2	3	1	4	2	3	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:81155214G>A	uc002fgh.1	-	40	6589	c.6589C>T	c.(6589-6591)CTC>TTC	p.L2197F	PKD1L2_uc002fgf.1_5'UTR|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	2197	Helical; (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TAGTAGAGGAGGAAGAGGAAG	0.602													5	20					0	0	0.014758	0	0		A	81155214	A	A	81155214	3	1	25	1	0	0	0	0	1	0	0	0	11984	1000	35	4	814	4	PKD1L2	16	81155214	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	488246	81155214	9199539	899	21899											
PKD1L2	114780	broad.mit.edu	37	chr16	81155261	81155261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctaccacgaaggggtgccagCcgtcggtgaaggggtacagg	9	5	17	10	3	0	1	0	1	0	0	1	2	0	1	3	6	4	1	3	6	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:81155261C>T	uc002fgh.1	-	40	6542	c.6542G>A	c.(6541-6543)GGC>GAC	p.G2181D	PKD1L2_uc002fgf.1_5'UTR|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	2181	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GGGGTGCCAGCCGTCGGTGAA	0.597													4	25					0	0	0.009096	0	0		T	81155261	T	T	81155261	3	4	25	1	0	0	0	0	1	0	0	0	11984	739	26	2	861	2	PKD1L2	16	81155261	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	47	81155261	9199492	900	21900											
JPH3	57338	broad.mit.edu	37	chr16	87636864	87636864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggccccaagggccaaggcGaatacaccggctcgtggagc	9	3	14	15	4	0	0	0	0	0	0	1	2	0	1	5	5	2	1	5	5	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:87636864G>A	uc002fkd.2	+	1	366	c.112G>A	c.(112-114)GAA>AAA	p.E38K	JPH3_uc010vou.1_Intron	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	38	Gly-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		GGGCCAAGGCGAATACACCGG	0.672													22	74					0	0	0.014323	0	0		A	87636864	A	A	87636864	3	1	25	1	0	0	0	0	1	0	0	0	7978	1059	37	1	114	1	JPH3	16	87636864	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	6481603	87636864	2717889	901	21901											
BANP	54971	broad.mit.edu	37	chr16	88105722	88105722	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcctcctcggaccccgcGgcggcgggcgtggatgggtc	2	6	19	14	6	0	0	0	0	0	0	3	2	1	2	4	7	0	0	4	7	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:88105722G>A	uc002fkr.2	+	13	1613	c.1389G>A	c.(1387-1389)GCG>GCA	p.A463A	BANP_uc002fkp.2_Silent_p.A436A|BANP_uc002fkq.2_Silent_p.A414A|BANP_uc010vow.1_Silent_p.A449A|BANP_uc002fks.3_Silent_p.A410A	NM_079837	NP_524576	Q8N9N5	BANP_HUMAN	BTG3 associated nuclear protein isoform b	464					cell cycle|chromatin modification|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0				BRCA - Breast invasive adenocarcinoma(80;0.00551)		CGGACCCCGCGGCGGCGGGCG	0.657													3	8					0	0	0.014758	0	0		A	88105722	A	A	88105722	2	1	25	1	0	0	0	0	0	0	0	1	1311	1103	39	1		1	BANP	16	88105722	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	468858	88105722	2249031	902	21902											
APRT	353	broad.mit.edu	37	chr16	88876484	88876484	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagacccttaccaccagTggccagcagatcatccacga	11	5	11	14	1	1	2	1	0	0	2	2	4	2	2	5	3	2	1	5	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:88876484T>C	uc002flv.2	-	4	429	c.394A>G	c.(394-396)ACT>GCT	p.T132A	APRT_uc002flw.2_Missense_Mutation_p.T132A	NM_000485	NP_000476	P07741	APT_HUMAN	adenine phosphoribosyltransferase isoform a	132					purine ribonucleoside salvage	cytosol|nucleus	adenine phosphoribosyltransferase activity|AMP binding|protein binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0477)	Adenine(DB00173)|Adenosine monophosphate(DB00131)	TTACCACCAGTGGCCAGCAGA	0.612													59	242					0	0	0.01441	0	0		C	88876484	C	C	88876484	3	2	25	1	0	0	0	0	1	0	0	0	819	1696	59	3	156	3	APRT	16	88876484	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	770762	88876484	1478269	903	21903											
ANKRD11	29123	broad.mit.edu	37	chr16	89352563	89352563	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgttgctctgctgcgggTtccctccgtaccgcagcagc	3	11	11	16	3	1	0	0	0	1	0	4	0	4	0	4	1	6	7	4	1	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr16:89352563T>C	uc002fmx.1	-	8	1237	c.776A>G	c.(775-777)AAC>AGC	p.N259S	ANKRD11_uc002fmy.1_Missense_Mutation_p.N259S|ANKRD11_uc002fnc.1_Missense_Mutation_p.N259S|ANKRD11_uc002fnb.1_Missense_Mutation_p.N216S	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	259	ANK 3.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CTGCTGCGGGTTCCCTCCGTA	0.577													44	207					0	0	0.01441	0	0		C	89352563	C	C	89352563	3	2	25	1	0	0	0	0	1	0	0	0	639	1725	60	3	7239	3	ANKRD11	16	89352563	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	476079	89352563	1002190	904	21904											
RPH3AL	9501	broad.mit.edu	37	chr17	97063	97063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttgtagaaccaggcccccGacctcttccagacctgagtg	8	9	9	15	1	1	3	0	1	1	2	2	4	2	3	6	1	1	1	6	1	2	3	rs144718442		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:97063G>A	uc002frd.1	-	5	496	c.452C>T	c.(451-453)TCG>TTG	p.S151L	RPH3AL_uc010vpy.1_Missense_Mutation_p.S151L|RPH3AL_uc002fre.1_Missense_Mutation_p.S151L|RPH3AL_uc002frf.1_Missense_Mutation_p.S122L|RPH3AL_uc010cjl.1_Missense_Mutation_p.S122L	NM_006987	NP_008918	Q9UNE2	RPH3L_HUMAN	rabphilin 3A-like (without C2 domains)	151	RabBD.				exocytosis|intracellular protein transport	transport vesicle membrane	cytoskeletal protein binding|Rab GTPase binding|zinc ion binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.023)|all cancers(1;4.96e-06)|Epithelial(1;2.86e-05)|BRCA - Breast invasive adenocarcinoma(1;0.00453)|OV - Ovarian serous cystadenocarcinoma(1;0.0716)|LUAD - Lung adenocarcinoma(1115;0.102)|COAD - Colon adenocarcinoma(4;0.107)		CCAGGCCCCCGACCTCTTCCA	0.637													15	43					0	0	0.020292	0	0		A	97063	A	A	97063	3	1	25	1	0	0	0	0	1	0	0	0	13577	1059	37	1	511	1	RPH3AL	17	97063	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08		97063	81098147	905	21905											
HIC1	3090	broad.mit.edu	37	chr17	1961719	1961719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgagtgccaggtgtgcggcGgcaagttcgcacagcaacgc	9	5	15	12	5	0	0	0	0	0	0	1	1	0	0	1	3	4	4	1	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:1961719G>A	uc010cjy.2	+	2	1792	c.1792G>A	c.(1792-1794)GGC>AGC	p.G598S	HIC1_uc002fty.3_Missense_Mutation_p.G579S|HIC1_uc002ftz.3_Missense_Mutation_p.G579S	NM_001098202	NP_001091672	Q14526	HIC1_HUMAN	hypermethylated in cancer 1 isoform 2	598	C2H2-type 5.				multicellular organismal development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)	1				READ - Rectum adenocarcinoma(1115;0.236)		GGTGTGCGGCGGCAAGTTCGC	0.493													10	14					0	0	0.016723	0	0		A	1961719	A	A	1961719	3	1	25	1	0	0	0	0	1	0	0	0	7117	1116	39	1	1798	1	HIC1	17	1961719	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1864656	1961719	79233491	906	21906											
PAFAH1B1	5048	broad.mit.edu	37	chr17	2579901	2579901	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatgtgccttatgaccctcGtaagtttgcataatcttacc	9	14	7	11	1	1	1	0	1	1	0	2	1	1	1	3	0	3	4	3	0	4	5	rs113994203		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:2579901G>A	uc002fuw.3	+	9	1570	c.1002_splice	c.e9+1	p.L334_splice	PAFAH1B1_uc010ckb.1_Intron|PAFAH1B1_uc010vqz.1_Intron	NM_000430	NP_000421	P43034	LIS1_HUMAN	platelet-activating factor acetylhydrolase,						acrosome assembly|actin cytoskeleton organization|adult locomotory behavior|brain morphogenesis|corpus callosum morphogenesis|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|hippocampus development|layer formation in cerebral cortex|learning or memory|lipid catabolic process|microtubule organizing center organization|mitotic prometaphase|neuroblast proliferation|neuromuscular process controlling balance|neuron migration|platelet activating factor metabolic process|regulation of Rho GTPase activity|retrograde axon cargo transport|synaptic transmission|vesicle transport along microtubule	astral microtubule|cell cortex|centrosome|cytosol|kinetochore|motile primary cilium|nuclear membrane|perinuclear region of cytoplasm	dynactin binding|heparin binding|microtubule binding|phospholipase binding|phosphoprotein binding|protein homodimerization activity			skin(1)	1						TATGACCCTCGTAAGTTTGCA	0.368													30	115					0	0	0.008361	0	0		A	2579901	A	A	2579901	5	1	25	1	0	0	0	0	0	0	1	0	11403	1159	40	1	1033	1	PAFAH1B1	17	2579901	Splice_Site	SNP	G	TCGA-BR-4370-01A-01D-1158-08	618182	2579901	78615309	907	21907											
MYBBP1A	10514	broad.mit.edu	37	chr17	4442961	4442961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagttttggggatttggCaggggtgctggggctccggg	3	11	20	7	1	0	0	0	0	0	0	1	1	1	1	1	8	2	5	1	8	0	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:4442961C>T	uc002fyb.3	-	26	3798	c.3736G>A	c.(3736-3738)GCC>ACC	p.A1246T	MYBBP1A_uc002fxz.3_Missense_Mutation_p.A1246T|SPNS2_uc002fxx.2_3'UTR|SPNS2_uc002fxy.2_3'UTR|MYBBP1A_uc002fya.3_Missense_Mutation_p.A191T|MYBBP1A_uc010vsa.1_Missense_Mutation_p.A288T	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	1246	Required for nuclear and nucleolar localization (By similarity).				nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						GGGGATTTGGCAGGGGTGCTG	0.622													80	291					0	0	0.01441	0	0		T	4442961	T	T	4442961	3	4	25	1	0	0	0	0	1	0	0	0	10026	710	25	2	294	2	MYBBP1A	17	4442961	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1863060	4442961	76752249	908	21908											
PLD2	5338	broad.mit.edu	37	chr17	4720531	4720531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctccccttcacacttccaGgagggcagtgcaccaccgta	9	7	9	16	1	1	0	1	0	0	0	3	1	3	1	5	2	2	4	5	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:4720531G>A	uc002fzc.2	+	17	1893	c.1792G>A	c.(1792-1794)GGA>AGA	p.G598R	PLD2_uc010vsj.1_Missense_Mutation_p.G455R|PLD2_uc002fzd.2_Missense_Mutation_p.G598R	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	598	Catalytic.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	CACACTTCCAGGAGGGCAGTG	0.597													63	274					0	0	0.01441	0	0		A	4720531	A	A	4720531	3	1	25	1	0	0	0	0	1	0	0	0	12065	1001	35	4	1854	4	PLD2	17	4720531	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	277570	4720531	76474679	909	21909											
ENO3	2027	broad.mit.edu	37	chr17	4860322	4860322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgctggacgcaagttcCgtaacccgaaggccaagtga	10	9	11	11	3	1	1	0	1	1	0	2	3	2	2	3	2	2	4	3	2	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:4860322C>T	uc002gab.3	+	12	1379	c.1285C>T	c.(1285-1287)CGT>TGT	p.R429C	ENO3_uc002gac.3_Missense_Mutation_p.R429C|ENO3_uc010vss.1_Missense_Mutation_p.R386C|ENO3_uc010vst.1_Missense_Mutation_p.R256C	NM_053013	NP_443739	P13929	ENOB_HUMAN	enolase 3	429					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex	magnesium ion binding|phosphopyruvate hydratase activity			ovary(1)	1						ACGCAAGTTCCGTAACCCGAA	0.552											OREG0024110	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	47	240					0	0	0.01441	0	0		T	4860322	T	T	4860322	3	4	25	1	0	0	0	0	1	0	0	0	5131	652	23	1	1327	1	ENO3	17	4860322	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	139791	4860322	76334888	910	21910											
GPR172B	55065	broad.mit.edu	37	chr17	4937566	4937566	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacctgctcgcccttgcccGgggccagctgcctccacagg	4	6	13	18	2	0	0	0	0	0	0	2	1	1	1	6	4	4	2	6	4	0	1	rs137937212		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:4937566G>A	uc002gap.3	-	3	931	c.218C>T	c.(217-219)CCG>CTG	p.P73L	GPR172B_uc002gao.3_Missense_Mutation_p.P73L|GPR172B_uc010ckw.2_5'UTR|GPR172B_uc010ckx.2_Missense_Mutation_p.P73L	NM_001104577	NP_001098047	Q9NWF4	RFT_HUMAN	G protein-coupled receptor 172B precursor	73						integral to plasma membrane	receptor activity|riboflavin transporter activity				0						GCCCTTGCCCGGGGCCAGCTG	0.662													30	112					0	0	0.008361	0	0		A	4937566	A	A	4937566	3	1	25	1	0	0	0	0	1	0	0	0	6685	1116	39	1	1140	1	GPR172B	17	4937566	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	77244	4937566	76257644	911	21911											
USP6	9098	broad.mit.edu	37	chr17	5042569	5042569	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaacgcgagcaagggtcCttggcacccaggcctgtgcc	8	5	13	15	2	0	0	0	0	0	0	1	1	1	0	5	3	3	2	5	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:5042569C>A	uc002gau.1	+	22	3328	c.1098C>A	c.(1096-1098)TCC>TCA	p.S366S	USP6_uc002gav.1_Silent_p.S366S|USP6_uc010ckz.1_Silent_p.S49S|uc002gbd.2_5'Flank	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	366					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						AGCAAGGGTCCTTGGCACCCA	0.647			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								26	170					3.90053e-15	4.1688e-15	0.012213	1	0		A	5042569	A	A	5042569	2	1	25	1	0	0	0	0	0	0	0	1	17112	668	24	5		5	USP6	17	5042569	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	105003	5042569	76152641	912	21912											
NLRP1	22861	broad.mit.edu	37	chr17	5486064	5486064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccctgggtgcaccccgccGgcaattcatggatccagggc	7	6	13	15	2	1	0	1	0	0	0	2	1	2	1	5	4	2	2	5	4	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:5486064G>A	uc002gci.2	-	2	929	c.374C>T	c.(373-375)CCG>CTG	p.P125L	NLRP1_uc002gcg.1_Missense_Mutation_p.P125L|NLRP1_uc002gck.2_Missense_Mutation_p.P125L|NLRP1_uc002gcj.2_Missense_Mutation_p.P125L|NLRP1_uc002gcl.2_Missense_Mutation_p.P125L|NLRP1_uc002gch.3_Missense_Mutation_p.P125L|NLRP1_uc010clh.2_Missense_Mutation_p.P125L	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	125					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				GCACCCCGCCGGCAATTCATG	0.617													10	58					0	0	0.020292	0	0		A	5486064	A	A	5486064	3	1	25	1	0	0	0	0	1	0	0	0	10490	1116	39	1	4186	1	NLRP1	17	5486064	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	443495	5486064	75709146	913	21913											
EIF5A	1984	broad.mit.edu	37	chr17	7213109	7213109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcgaagactggcaagcacgGccacgccaaggttagaattt	12	8	11	10	3	0	2	0	0	0	2	1	3	0	2	2	3	1	3	2	3	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:7213109G>A	uc010vtv.1	+	2	392	c.155G>A	c.(154-156)GGC>GAC	p.G52D	EIF5A_uc002gfr.2_Missense_Mutation_p.G82D|EIF5A_uc010vtu.1_Missense_Mutation_p.A42T|EIF5A_uc002gft.2_Missense_Mutation_p.G52D|EIF5A_uc002gfu.2_Missense_Mutation_p.G52D	NM_001970	NP_001961	P63241	IF5A1_HUMAN	eukaryotic translation initiation factor 5A	52	DOHH-binding.			G->A: Causes total inactivation of eIF5A in supporting yeast growth.	induction of apoptosis|mRNA export from nucleus|peptidyl-lysine modification to hypusine|positive regulation of cell proliferation|positive regulation of translational elongation|positive regulation of translational termination|post-translational protein modification|protein export from nucleus|translational frameshifting|transmembrane transport	annulate lamellae|cytosol|endoplasmic reticulum membrane|nuclear pore	protein N-terminus binding|ribosome binding|translation elongation factor activity|U6 snRNA binding				0						GGCAAGCACGGCCACGCCAAG	0.537													9	180					0	0	0.008291	0	0		A	7213109	A	A	7213109	3	1	25	1	0	0	0	0	1	0	0	0	5049	1203	42	2	251	2	EIF5A	17	7213109	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1727045	7213109	73982101	914	21914											
NEURL4	84461	broad.mit.edu	37	chr17	7224553	7224553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaactgacaattgacacacCgcggactggcccgtagagat	12	6	12	11	3	0	3	0	2	0	1	0	6	0	5	2	3	1	1	2	3	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:7224553C>T	uc002gga.1	-	20	3245	c.3238G>A	c.(3238-3240)GGT>AGT	p.G1080S	NEURL4_uc002gfy.1_5'Flank|GPS2_uc002gfz.1_5'Flank|NEURL4_uc002ggb.1_Missense_Mutation_p.G1078S	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	1080	NHR 5.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						ATTGACACACCGCGGACTGGC	0.577													21	103					0	0	0.016522	0	0		T	7224553	T	T	7224553	3	4	25	1	0	0	0	0	1	0	0	0	10366	652	23	1	1490	1	NEURL4	17	7224553	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	11444	7224553	73970657	915	21915											
ACAP1	9744	broad.mit.edu	37	chr17	7246793	7246793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgcagaggttcccaggcGccgggcccaggaggcagaag	10	2	16	13	3	0	2	0	0	0	2	1	3	1	3	3	5	1	3	3	5	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:7246793G>A	uc002ggd.2	+	6	646	c.440G>A	c.(439-441)CGC>CAC	p.R147H		NM_014716	NP_055531	Q15027	ACAP1_HUMAN	centaurin beta1	147	BAR.|Required for formation of endosomal tubules when overexpressed with PIP5K1C.				intracellular signal transduction|lipid metabolic process|protein transport|regulation of ARF GTPase activity		ARF GTPase activator activity|phospholipase C activity|protein binding|zinc ion binding			breast(2)|large_intestine(1)	3						GTTCCCAGGCGCCGGGCCCAG	0.682													28	95					0	0	0.012213	0	0		A	7246793	A	A	7246793	3	1	25	1	0	0	0	0	1	0	0	0	118	1087	38	1	462	1	ACAP1	17	7246793	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	22240	7246793	73948417	916	21916											
CNTROB	116840	broad.mit.edu	37	chr17	7847523	7847523	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaggtggaaatggcagaaCgagaggaacggcaacagcag	16	3	15	7	2	1	2	1	0	0	2	1	5	1	4	0	5	4	3	0	5	5	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:7847523C>T	uc002gjq.2	+	12	2447	c.1528C>T	c.(1528-1530)CGA>TGA	p.R510*	CNTROB_uc002gjp.2_Nonsense_Mutation_p.R510*|CNTROB_uc002gjr.2_Nonsense_Mutation_p.R412*|CNTROB_uc010vum.1_Nonsense_Mutation_p.R222*	NM_053051	NP_444279	Q8N137	CNTRB_HUMAN	centrobin, centrosomal BRCA2 interacting protein	510	Potential.|Required for centrosome localization.				centriole replication|centrosome separation|cytokinesis	centriole	protein domain specific binding			breast(1)|central_nervous_system(1)	2		Prostate(122;0.173)				AATGGCAGAACGAGAGGAACG	0.612													6	181					0	0	0.001168	0	0		T	7847523	T	T	7847523	4	4	25	1	0	0	0	0	0	1	0	0	3654	528	19	1	1570	1	CNTROB	17	7847523	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	600730	7847523	73347687	917	21917											
GUCY2D	3000	broad.mit.edu	37	chr17	7915631	7915631	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagagaaataaagctggactGgatgttcaagtcctccctcc	12	9	10	10	0	1	1	1	0	0	1	4	5	4	3	3	2	1	2	3	2	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:7915631G>C	uc002gjt.2	+	9	1993	c.1919G>C	c.(1918-1920)TGG>TCG	p.W640S		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	640	Protein kinase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				AAGCTGGACTGGATGTTCAAG	0.617													29	139					0	0	0.012213	0	0		C	7915631	C	C	7915631	3	2	25	1	0	0	0	0	1	0	0	0	6913	1357	47	5	1949	5	GUCY2D	17	7915631	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	68108	7915631	73279579	918	21918											
ARHGEF15	22899	broad.mit.edu	37	chr17	8224243	8224243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgaaaggaggaggcaccttCgccagaaccagaggcttctc	12	5	12	12	2	1	2	0	0	1	2	3	5	1	4	3	4	1	2	3	4	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:8224243C>T	uc002glc.2	+	16	2579	c.2458C>T	c.(2458-2460)CGC>TGC	p.R820C	ARHGEF15_uc002gld.2_Missense_Mutation_p.R820C|ARHGEF15_uc010vuw.1_Missense_Mutation_p.R709C	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	820					negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						GAGGCACCTTCGCCAGAACCA	0.612													31	123					0	0	0.015359	0	0		T	8224243	T	T	8224243	3	4	25	1	0	0	0	0	1	0	0	0	898	884	31	1	2516	1	ARHGEF15	17	8224243	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	308612	8224243	72970967	919	21919											
MYH10	4628	broad.mit.edu	37	chr17	8409746	8409746	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggtcggtcgtctccccGtcgagttttcttttggcctt	2	16	11	12	4	2	0	0	0	2	0	6	1	2	0	3	3	1	2	3	3	0	5	rs138732743	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:8409746G>A	uc002gll.2	-	25	3279	c.3183C>T	c.(3181-3183)GAC>GAT	p.D1061D	MYH10_uc002glm.2_Silent_p.D1092D|MYH10_uc010cnx.2_Silent_p.D1070D	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1061	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TCGTCTCCCCGTCGAGTTTTC	0.527													37	163					0	0	0.01441	0	0		A	8409746	A	A	8409746	2	1	25	1	0	0	0	0	0	0	0	1	10048	1136	40	1		1	MYH10	17	8409746	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	185503	8409746	72785464	920	21920											
MYH10	4628	broad.mit.edu	37	chr17	8508243	8508243	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttcaataatattctcagAgtaaattggaagattcttgt	14	16	6	5	0	3	2	2	0	2	2	4	3	3	3	0	1	0	1	0	1	6	8			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:8508243A>C	uc002gll.2	-	3	499	c.403T>G	c.(403-405)TCT>GCT	p.S135A	MYH10_uc002glm.2_Missense_Mutation_p.S135A|MYH10_uc010cnx.2_Missense_Mutation_p.S135A	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	135	Myosin head-like.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						ATATTCTCAGAGTAAATTGGA	0.343													26	82					0	0	0.004656	0	0		C	8508243	C	C	8508243	3	2	25	1	0	0	0	0	1	0	0	0	10048	304	11	5	5683	5	MYH10	17	8508243	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	98497	8508243	72686967	921	21921											
MYH3	4621	broad.mit.edu	37	chr17	10546233	10546233	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgtactcctcctgctcCagcacgaacatgtggtggtt	6	14	9	12	1	1	0	0	0	1	0	4	1	4	0	3	2	4	4	3	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:10546233C>T	uc002gmq.1	-	14	1568	c.1491G>A	c.(1489-1491)CTG>CTA	p.L497L		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	497	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CCTCCTGCTCCAGCACGAACA	0.468													64	261					0	0	0.01441	0	0		T	10546233	T	T	10546233	2	4	25	1	0	0	0	0	0	0	0	1	10054	581	21	4		4	MYH3	17	10546233	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2037990	10546233	70648977	922	21922											
RICH2	9912	broad.mit.edu	37	chr17	12893457	12893457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtaactgacaagagggactCggaggaggagtctgagagca	14	5	16	6	1	1	3	0	2	1	2	2	8	1	7	0	4	2	2	0	4	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:12893457C>T	uc002gnr.3	+	21	2753	c.2426C>T	c.(2425-2427)TCG>TTG	p.S809L	RICH2_uc010vvk.1_3'UTR|RICH2_uc010vvl.1_3'UTR|RICH2_uc002gns.3_3'UTR|RICH2_uc010vvm.1_Missense_Mutation_p.S803L|RICH2_uc010vvn.1_RNA	NM_014859	NP_055674	Q17R89	RHG44_HUMAN	Rho GTPase-activating protein RICH2	809					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						AAGAGGGACTCGGAGGAGGAG	0.612													16	67					0	0	0.004007	0	0		T	12893457	T	T	12893457	3	4	25	1	0	0	0	0	1	0	0	0	13382	893	31	1	2508	1	RICH2	17	12893457	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2347224	12893457	68301753	923	21923											
TRIM16	10626	broad.mit.edu	37	chr17	15554406	15554406	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtccccaagcactcaccTccttgtccctgcgggctgca	6	9	9	17	1	1	0	1	0	0	0	4	0	4	0	5	2	3	3	5	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:15554406T>C	uc002gox.2	-	4	1075	c.518A>G	c.(517-519)GAG>GGG	p.E173G	TRIM16_uc002gor.1_Missense_Mutation_p.E173G|TRIM16_uc002goy.2_Intron	NM_006470	NP_006461	O95361	TRI16_HUMAN	tripartite motif-containing 16	173	Potential.				histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		AGCACTCACCTCCTTGTCCCT	0.612													25	105					0	0	0.01892	0	0		C	15554406	C	C	15554406	3	2	25	1	0	0	0	0	1	0	0	0	16517	1565	54	3	1200	3	TRIM16	17	15554406	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	2660949	15554406	65640804	924	21924											
NCOR1	9611	broad.mit.edu	37	chr17	15971388	15971388	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctctgggtaggggtcaGtgtcgatttcctttcatgat	5	16	11	9	1	3	1	2	1	1	0	6	2	5	1	2	3	0	1	2	3	1	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:15971388G>A	uc002gpo.2	-	32	4801	c.4561C>T	c.(4561-4563)CTG>TTG	p.L1521L	NCOR1_uc002gpn.2_Silent_p.L1537L|NCOR1_uc002gpm.2_Silent_p.L42L|NCOR1_uc010vwb.1_Silent_p.L105L|NCOR1_uc010coy.2_Silent_p.L429L|NCOR1_uc010vwc.1_Silent_p.L332L	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1521	Interaction with ETO.|Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GTAGGGGTCAGTGTCGATTTC	0.473													9	46					0	0	0.006214	0	0		A	15971388	A	A	15971388	2	1	25	1	0	0	0	0	0	0	0	1	10254	1020	36	4		4	NCOR1	17	15971388	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	416982	15971388	65223822	925	21925											
NCOR1	9611	broad.mit.edu	37	chr17	16068428	16068428	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctccacatggttgcccCgaaattggagaggatggagc	10	9	12	10	1	2	1	1	0	1	1	3	5	2	3	3	4	2	1	3	4	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:16068428C>T	uc002gpo.2	-	5	723	c.483G>A	c.(481-483)TCG>TCA	p.S161S	NCOR1_uc002gpn.2_Silent_p.S161S|NCOR1_uc002gpp.1_Silent_p.S52S|NCOR1_uc002gpr.2_Silent_p.S52S|NCOR1_uc002gps.1_Silent_p.S161S|NCOR1_uc010coz.1_5'UTR|NCOR1_uc010cpb.1_Silent_p.S161S|NCOR1_uc010cpa.1_Silent_p.S161S|NCOR1_uc002gpu.2_Silent_p.S161S	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	161	Interaction with ZBTB33 and HEXIM1.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		ATGGTTGCCCCGAAATTGGAG	0.393													29	311					0	0	0.009535	0	0		T	16068428	T	T	16068428	2	4	25	1	0	0	0	0	0	0	0	1	10254	639	23	1		1	NCOR1	17	16068428	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	97040	16068428	65126782	926	21926											
DRG2	1819	broad.mit.edu	37	chr17	18002386	18002386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggaatcattgaaggcgcagCccaaggtgggaggcagggca	11	5	17	8	1	1	1	1	1	0	0	1	3	1	3	1	6	1	3	1	6	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:18002386C>T	uc002gsh.1	+	4	426	c.371C>T	c.(370-372)GCC>GTC	p.A124V	DRG2_uc010vxg.1_Missense_Mutation_p.A124V|DRG2_uc002gsi.1_RNA|DRG2_uc002gsj.1_Missense_Mutation_p.A124V	NM_001388	NP_001379	P55039	DRG2_HUMAN	developmentally regulated GTP binding protein 2	124	G.				signal transduction		GTP binding			ovary(1)	1	all_neural(463;0.228)					GAAGGCGCAGCCCAAGGTGGG	0.547													6	165					0	0	0.001168	0	0		T	18002386	T	T	18002386	3	4	25	1	0	0	0	0	1	0	0	0	4768	739	26	2	385	2	DRG2	17	18002386	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1933958	18002386	63192824	927	21927											
TNFAIP1	7126	broad.mit.edu	37	chr17	26669336	26669336	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagctctccctgcgcttcaaCggccgcgtgctcttcatcaa	7	10	8	16	4	5	0	3	0	2	0	6	0	5	0	2	1	4	3	2	1	3	2	rs77434228	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:26669336C>T	uc002hax.1	+	6	601	c.582C>T	c.(580-582)AAC>AAT	p.N194N	TNFAIP1_uc002hay.2_Silent_p.N194N|TNFAIP1_uc010waf.1_Silent_p.N90N	NM_021137	NP_066960	Q13829	BACD2_HUMAN	tumor necrosis factor, alpha-induced protein 1	194					apoptosis|cell migration|DNA replication|embryo development|immune response|negative regulation of Rho protein signal transduction|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|endosome|nucleus|voltage-gated potassium channel complex	GTP-Rho binding|voltage-gated potassium channel activity				0	all_lung(13;0.000294)|Lung NSC(42;0.000964)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		TGCGCTTCAACGGCCGCGTGC	0.547													22	54					0	0	0.01892	0	0		T	26669336	T	T	26669336	2	4	25	1	0	0	0	0	0	0	0	1	16297	535	19	1		1	TNFAIP1	17	26669336	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	8666950	26669336	54525874	928	21928											
KIAA0100	9703	broad.mit.edu	37	chr17	26951282	26951282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaattcaataaggcagtttCggttgtatatgtcatccgtc	10	14	8	9	2	2	0	2	0	0	0	5	0	3	0	2	2	0	4	2	2	5	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:26951282C>T	uc002hbu.2	-	25	4820	c.4721G>A	c.(4720-4722)CGA>CAA	p.R1574Q	KIAA0100_uc002hbt.2_5'Flank	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	1574						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					AAGGCAGTTTCGGTTGTATAT	0.458													31	138					0	0	0.012213	0	0		T	26951282	T	T	26951282	3	4	25	1	0	0	0	0	1	0	0	0	8170	884	31	1	2046	1	KIAA0100	17	26951282	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	281946	26951282	54243928	929	21929											
LHX1	3975	broad.mit.edu	37	chr17	35298059	35298059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccaagcggcggggaccgCgcaccaccatcaaagccaag	11	1	13	16	5	1	0	1	0	0	0	1	1	1	1	5	3	2	1	5	3	3	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:35298059C>T	uc002hnh.1	+	3	1546	c.550C>T	c.(550-552)CGC>TGC	p.R184C	LHX1_uc010cux.1_Missense_Mutation_p.R92C	NM_005568	NP_005559	P48742	LHX1_HUMAN	LIM homeobox protein 1	184	Homeobox.			R -> G (in Ref. 1; AAA21644).	cerebellar Purkinje cell differentiation|cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation|cervix development|comma-shaped body morphogenesis|dorsal/ventral pattern formation|ectoderm formation|embryonic pattern specification|embryonic retina morphogenesis in camera-type eye|embryonic viscerocranium morphogenesis|endoderm formation|forebrain regionalization|head development|motor axon guidance|negative regulation of transcription, DNA-dependent|nephric duct morphogenesis|nephron tubule epithelial cell differentiation|neuron migration|oviduct epithelium development|paramesonephric duct development|positive regulation of anterior head development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of embryonic development|positive regulation of gastrulation|positive regulation of transcription, DNA-dependent|post-embryonic development|primitive streak formation|renal vesicle morphogenesis|retina layer formation|S-shaped body morphogenesis|spinal cord association neuron differentiation|transcription from RNA polymerase II promoter|ureteric bud development|uterine epithelium development|vagina development	nucleus|protein complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(25;0.00607)				GCGGGGACCGCGCACCACCAT	0.662													18	80					0	0	0.014323	0	0		T	35298059	T	T	35298059	3	4	25	1	0	0	0	0	1	0	0	0	8786	768	27	1	560	1	LHX1	17	35298059	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	8346777	35298059	45897151	930	21930											
MLLT6	4302	broad.mit.edu	37	chr17	36869018	36869018	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccccagcatcctcaccccGcccgtggtccccactgctga	5	6	7	23	2	1	1	1	1	0	0	3	1	3	1	9	1	2	2	9	1	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:36869018G>A	uc002hqi.3	+	8	808	c.795G>A	c.(793-795)CCG>CCA	p.P265P	MLLT6_uc010wdr.1_Silent_p.P265P|MLLT6_uc010cvm.1_Silent_p.P265P|MLLT6_uc002hqj.2_5'Flank	NM_005937	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	265					regulation of transcription, DNA-dependent	nucleus	protein binding|zinc ion binding			breast(3)|prostate(1)|lung(1)|skin(1)	6	Breast(7;4.43e-21)					TCCTCACCCCGCCCGTGGTCC	0.617			T	MLL	AL								28	140					0	0	0.009535	0	0		A	36869018	A	A	36869018	2	1	25	1	0	0	0	0	0	0	0	1	9648	1074	38	1		1	MLLT6	17	36869018	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1570959	36869018	44326192	931	21931											
CDK12	51755	broad.mit.edu	37	chr17	37686960	37686960	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgaaggcgatctttccagCgccccccaggagttgaaccc	8	8	11	14	2	1	2	0	2	1	0	2	4	2	3	5	2	2	2	5	2	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:37686960C>T	uc010cvv.2	+	14	4450	c.3864C>T	c.(3862-3864)AGC>AGT	p.S1288S	CDK12_uc002hrw.3_Silent_p.S1279S	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	1288					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						ATCTTTCCAGCGCCCCCCAGG	0.642										TCGA Ovarian(9;0.13)			67	261					0	0	0.01441	0	0		T	37686960	T	T	37686960	2	4	25	1	0	0	0	0	0	0	0	1	3131	767	27	1		1	CDK12	17	37686960	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	817942	37686960	43508250	932	21932											
ERBB2	2064	broad.mit.edu	37	chr17	37864636	37864636	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtgaggcaggtcccactGcagaggctgcggattgtgcg	8	7	16	10	2	0	2	0	1	0	1	1	3	1	3	1	4	3	3	1	4	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:37864636G>A	uc002hso.2	+	3	526	c.288G>A	c.(286-288)CTG>CTA	p.L96L	ERBB2_uc002hsm.2_Silent_p.L66L|ERBB2_uc010cwa.2_Silent_p.L81L|ERBB2_uc002hsp.2_5'UTR|ERBB2_uc010cwb.2_Silent_p.L96L|ERBB2_uc010wek.1_Intron|ERBB2_uc002hsl.2_Silent_p.L66L|ERBB2_uc002hsn.1_Silent_p.L96L	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	96	Extracellular (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	AGGTCCCACTGCAGAGGCTGC	0.582		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			30	134					0	0	0.007835	0	0		A	37864636	A	A	37864636	2	1	25	1	0	0	0	0	0	0	0	1	5214	1306	46	2		2	ERBB2	17	37864636	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	177676	37864636	43330574	933	21933											
ERBB2	2064	broad.mit.edu	37	chr17	37868208	37868208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctttctacggacgtgggatCctgcaccctcgtctgccccc	4	10	9	18	3	2	0	0	0	2	0	4	2	3	2	5	2	3	1	5	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:37868208C>T	uc002hso.2	+	8	1167	c.929C>T	c.(928-930)TCC>TTC	p.S310F	ERBB2_uc002hsm.2_Missense_Mutation_p.S280F|ERBB2_uc010cwa.2_Missense_Mutation_p.S295F|ERBB2_uc002hsp.2_Missense_Mutation_p.S113F|ERBB2_uc010cwb.2_Missense_Mutation_p.S310F|ERBB2_uc010wek.1_Missense_Mutation_p.S34F|ERBB2_uc002hsl.2_Missense_Mutation_p.S280F|ERBB2_uc002hsn.1_Missense_Mutation_p.S310F	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	310	Extracellular (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.S310F(2)|p.S310Y(1)		lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	GACGTGGGATCCTGCACCCTC	0.582		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			98	399					0	0	0.01441	0	0		T	37868208	T	T	37868208	3	4	25	1	0	0	0	0	1	0	0	0	5214	855	30	4	959	4	ERBB2	17	37868208	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3572	37868208	43327002	934	21934											
KRT31	3881	broad.mit.edu	37	chr17	39550390	39550390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgatgggcttgctgcacgCgttggtcgtggcacagggat	5	10	16	10	4	0	0	0	0	0	0	2	2	1	1	1	4	2	5	1	4	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:39550390C>T	uc002hwn.2	-	7	1182	c.1129G>A	c.(1129-1131)GCG>ACG	p.A377T	KRT31_uc010cxn.2_3'UTR	NM_002277	NP_002268	Q15323	K1H1_HUMAN	keratin 31	377	Tail.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000496)				TTGCTGCACGCGTTGGTCGTG	0.562													23	103					0	0	0.01892	0	0		T	39550390	T	T	39550390	3	4	25	1	0	0	0	0	1	0	0	0	8483	768	27	1	125	1	KRT31	17	39550390	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1682182	39550390	41644820	935	21935											
KRT32	3882	broad.mit.edu	37	chr17	39623344	39623344	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgccggggcccatggagccGgagatgccactggctgcctg	5	6	16	14	2	0	1	0	0	0	1	0	3	0	2	5	5	4	1	5	5	0	0	rs142587865		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:39623344G>A	uc002hwr.2	-	1	295	c.234C>T	c.(232-234)TCC>TCT	p.S78S		NM_002278	NP_002269	Q14532	K1H2_HUMAN	keratin 32	78	Head.				epidermis development	intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000812)				CCATGGAGCCGGAGATGCCAC	0.612													26	69					0	0	0.009535	0	0		A	39623344	A	A	39623344	2	1	25	1	0	0	0	0	0	0	0	1	8484	1103	39	1		1	KRT32	17	39623344	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	72954	39623344	41571866	936	21936											
CNP	1267	broad.mit.edu	37	chr17	40125660	40125660	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctgccgcgggggagccgCgcccacatcaccctcggctg	6	4	13	18	5	1	0	1	0	0	0	2	1	1	1	5	3	3	1	5	3	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:40125660C>T	uc002hyl.1	+	4	1128	c.984C>T	c.(982-984)CGC>CGT	p.R328R	CNP_uc010wfz.1_Silent_p.R205R|CNP_uc002hym.1_Silent_p.R308R|CNP_uc010wga.1_Silent_p.R93R|CNP_uc002hyn.1_Silent_p.R93R	NM_033133	NP_149124	P09543	CN37_HUMAN	2',3'-cyclic nucleotide 3' phosphodiesterase	328					cell killing|cyclic nucleotide catabolic process|RNA metabolic process|synaptic transmission	extracellular space|melanosome	2',3'-cyclic-nucleotide 3'-phosphodiesterase activity|ATP binding|protein binding				0		all_cancers(22;2.38e-06)|all_epithelial(22;6.79e-05)|Breast(137;0.000143)		UCEC - Uterine corpus endometrioid carcinoma (308;0.171)		GGGGGAGCCGCGCCCACATCA	0.657													6	61					0	0	0.006122	0	0		T	40125660	T	T	40125660	2	4	25	1	0	0	0	0	0	0	0	1	3629	755	27	1		1	CNP	17	40125660	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	502316	40125660	41069550	937	21937											
NAGLU	4669	broad.mit.edu	37	chr17	40695053	40695053	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgtccacagtggatacTgaggctgtgtggctgctcca	6	11	12	12	0	0	1	0	1	0	0	3	2	3	2	3	3	2	3	3	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:40695053T>C	uc002hzv.2	+	6	1369	c.1029T>C	c.(1027-1029)ACT>ACC	p.T343T		NM_000263	NP_000254	P54802	ANAG_HUMAN	alpha-N-acetylglucosaminidase precursor	343						lysosome	alpha-N-acetylglucosaminidase activity				0		all_cancers(22;1.58e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)	N-Acetyl-D-glucosamine(DB00141)	CAGTGGATACTGAGGCTGTGT	0.617													34	224					0	0	0.006999	0	0		C	40695053	C	C	40695053	2	2	25	1	0	0	0	0	0	0	0	1	10161	1567	55	3		3	NAGLU	17	40695053	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	569393	40695053	40500157	938	21938											
TUBG2	27175	broad.mit.edu	37	chr17	40815027	40815027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actccatcgctgggggtacgGgttctggcctgggctcctac	4	10	14	13	2	1	0	0	0	1	0	4	0	3	0	3	5	2	4	3	5	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:40815027G>A	uc010wgr.1	+	5	692	c.436G>A	c.(436-438)GGT>AGT	p.G146S	TUBG2_uc002iaq.2_5'UTR|TUBG2_uc002iar.2_Intron|TUBG2_uc002ias.2_5'UTR|TUBG2_uc002iap.2_Intron	NM_016437	NP_057521	Q9NRH3	TBG2_HUMAN	tubulin, gamma 2	146	GTP (Potential).				G2/M transition of mitotic cell cycle|microtubule-based process|protein polymerization	cytosol	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.141)		TGGGGGTACGGGTTCTGGCCT	0.418													24	182					0	0	0.004656	0	0		A	40815027	A	A	40815027	3	1	25	1	0	0	0	0	1	0	0	0	16791	1232	43	4	454	4	TUBG2	17	40815027	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	119974	40815027	40380183	939	21939											
WNK4	65266	broad.mit.edu	37	chr17	40939916	40939916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcccatctctgcctgccctCggtgagagggggtcgcatgg	4	9	15	13	2	1	1	0	1	1	1	5	2	2	1	3	4	2	1	3	4	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:40939916C>T	uc002ibj.2	+	8	1883	c.1862C>T	c.(1861-1863)TCG>TTG	p.S621L	WNK4_uc010wgx.1_Missense_Mutation_p.S285L|WNK4_uc002ibk.1_Missense_Mutation_p.S393L|WNK4_uc010wgy.1_Intron	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	621					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		TGCCTGCCCTCGGTGAGAGGG	0.627													36	109					0	0	0.021022	0	0		T	40939916	T	T	40939916	3	4	25	1	0	0	0	0	1	0	0	0	17406	898	31	1	1892	1	WNK4	17	40939916	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	124889	40939916	40255294	940	21940											
ASB16	92591	broad.mit.edu	37	chr17	42254234	42254234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggctctgtacctggagcatgGcgccgacgtgggcctgcgca	5	7	16	13	4	1	0	0	0	1	0	1	2	1	1	3	4	3	4	3	4	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:42254234G>A	uc002ifl.1	+	3	782	c.698G>A	c.(697-699)GGC>GAC	p.G233D	ASB16_uc002ifm.1_RNA|C17orf65_uc002ifn.2_Silent_p.R129R	NM_080863	NP_543139	Q96NS5	ASB16_HUMAN	ankyrin repeat and SOCS box-containing protein	233	ANK 5.				intracellular signal transduction		protein binding			kidney(2)	2		Breast(137;0.00765)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.114)		CTGGAGCATGGCGCCGACGTG	0.726													13	53					0	0	0.013537	0	0		A	42254234	A	A	42254234	3	1	25	1	0	0	0	0	1	0	0	0	1021	1203	42	2	708	2	ASB16	17	42254234	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1314318	42254234	38940976	941	21941											
TMUB2	79089	broad.mit.edu	37	chr17	42267869	42267869	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgtctttcatccttacagCaaatacttccctggacaaga	12	12	5	12	0	2	1	1	0	1	1	4	2	4	2	2	1	3	1	2	1	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:42267869C>T	uc002ifo.2	+	4	760	c.603C>T	c.(601-603)AGC>AGT	p.S201S	TMUB2_uc002ifp.2_Silent_p.S181S|TMUB2_uc010wiu.1_Silent_p.S144S|TMUB2_uc002ifq.2_Silent_p.S201S|TMUB2_uc002ifr.2_Missense_Mutation_p.A85V|TMUB2_uc002ifs.2_Silent_p.S32S|TMUB2_uc002ift.2_Silent_p.S181S|TMUB2_uc002ifu.2_Missense_Mutation_p.A85V|TMUB2_uc002ifv.2_Silent_p.S181S|TMUB2_uc002ifx.2_Missense_Mutation_p.A85V|TMUB2_uc002ify.2_RNA	NM_001076674	NP_001070142	Q71RG4	TMUB2_HUMAN	transmembrane and ubiquitin-like domain	201	Ubiquitin-like.					integral to membrane				lung(1)	1		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.113)		ATCCTTACAGCAAATACTTCC	0.507													19	63					0	0	0.008871	0	0		T	42267869	T	T	42267869	2	4	25	1	0	0	0	0	0	0	0	1	16290	724	25	2		2	TMUB2	17	42267869	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	13635	42267869	38927341	942	21942											
C17orf46	124783	broad.mit.edu	37	chr17	43332952	43332952	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctcctcggagcacagggcGttggtggggatggcctcccg	4	8	17	12	3	0	0	0	0	0	0	3	2	2	2	3	6	2	3	3	6	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:43332952G>A	uc002iis.1	-	4	693	c.597C>T	c.(595-597)AAC>AAT	p.N199N	LOC100133991_uc010dah.2_Intron|C17orf46_uc010wjk.1_Silent_p.N178N	NM_152343	NP_689556	Q96LK8	CQ046_HUMAN	hypothetical protein LOC124783	199				TN -> SK (in Ref. 2; AAP97314).						large_intestine(1)|ovary(1)	2						AGCACAGGGCGTTGGTGGGGA	0.647													15	69					0	0	0.004007	0	0		A	43332952	A	A	43332952	2	1	25	1	0	0	0	0	0	0	0	1	1860	1136	40	1		1	C17orf46	17	43332952	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1065083	43332952	37862258	943	21943											
KIAA1267	284058	broad.mit.edu	37	chr17	44108963	44108963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtcttgctgcctgaggtgCgtcgagtgcagcgggctgct	4	10	16	11	3	1	1	0	1	1	0	2	2	1	1	1	2	6	4	1	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:44108963C>T	uc002ikb.2	-	14	3282	c.3197G>A	c.(3196-3198)CGC>CAC	p.R1066H	KIAA1267_uc002ikc.2_Missense_Mutation_p.R1066H|KIAA1267_uc002ikd.2_Missense_Mutation_p.R1066H|KIAA1267_uc010dav.2_Missense_Mutation_p.R1065H|KIAA1267_uc010wkb.1_Missense_Mutation_p.R397H|KIAA1267_uc010wkc.1_Missense_Mutation_p.R334H	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	1066						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				GCCTGAGGTGCGTCGAGTGCA	0.687													5	40					0	0	0.004482	0	0		T	44108963	T	T	44108963	3	4	25	1	0	0	0	0	1	0	0	0	8235	768	27	1	124	1	KIAA1267	17	44108963	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	776011	44108963	37086247	944	21944											
NSF	4905	broad.mit.edu	37	chr17	44827207	44827207	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggagatggaaatgcttaaCgctttcagcaccaccatcca	13	8	8	12	1	1	1	1	0	0	1	2	3	2	2	3	2	3	3	3	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:44827207C>T	uc002iku.2	+	18	2081	c.1977C>T	c.(1975-1977)AAC>AAT	p.N659N	NSF_uc010wke.1_Silent_p.N565N|NSF_uc010wkf.1_Silent_p.N565N|NSF_uc010wkg.1_Silent_p.N654N	NM_006178	NP_006169	P46459	NSF_HUMAN	vesicle-fusing ATPase	659					protein transport|synaptic transmission	cytosol	ATP binding|metal ion binding			ovary(1)	1		Melanoma(429;0.203)	BRCA - Breast invasive adenocarcinoma(9;0.0257)	BRCA - Breast invasive adenocarcinoma(366;0.241)		AAATGCTTAACGCTTTCAGCA	0.458													31	135					0	0	0.015359	0	0		T	44827207	T	T	44827207	2	4	25	1	0	0	0	0	0	0	0	1	10690	535	19	1		1	NSF	17	44827207	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	718244	44827207	36368003	945	21945											
TBKBP1	9755	broad.mit.edu	37	chr17	45773500	45773500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagtccatgttcgaggacGacatcagcatcctgacgcag	10	8	12	11	3	1	1	1	1	0	0	4	5	3	3	2	2	1	3	2	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:45773500G>A	uc002ilu.2	+	1	871	c.22G>A	c.(22-24)GAC>AAC	p.D8N		NM_014726	NP_055541	A7MCY6	TBKB1_HUMAN	TBK1 binding protein 1	8					innate immune response						0						GTTCGAGGACGACATCAGCAT	0.677													15	76					0	0	0.00499	0	0		A	45773500	A	A	45773500	3	1	25	1	0	0	0	0	1	0	0	0	15663	1058	37	1	24	1	TBKBP1	17	45773500	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	946293	45773500	35421710	946	21946											
ZNF652	22834	broad.mit.edu	37	chr17	47394293	47394293	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcatgcgcctatgagtaacGttcatgtgcttctccaggta	8	13	10	10	2	2	1	1	1	1	0	3	1	2	1	2	1	4	5	2	1	3	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:47394293G>A	uc002iov.3	-	2	1259	c.795C>T	c.(793-795)AAC>AAT	p.N265N	ZNF652_uc002iow.2_Silent_p.N265N|ZNF652_uc002iou.3_Intron	NM_001145365	NP_001138837	Q9Y2D9	ZN652_HUMAN	zinc finger protein 652	265	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_cancers(4;6.81e-14)|Breast(4;4.97e-29)|all_epithelial(4;1.53e-17)		BRCA - Breast invasive adenocarcinoma(1;3.1e-14)|Epithelial(5;2.92e-06)|all cancers(6;3.15e-05)			TATGAGTAACGTTCATGTGCT	0.463													37	200					0	0	0.021022	0	0		A	47394293	A	A	47394293	2	1	25	1	0	0	0	0	0	0	0	1	18090	1136	40	1		1	ZNF652	17	47394293	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1620793	47394293	33800917	947	21947											
WFIKKN2	124857	broad.mit.edu	37	chr17	48917876	48917876	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttacaacagccagacgggCcagtgccagtcctttgtcta	9	9	10	13	1	1	1	0	0	1	1	2	1	2	1	4	1	4	1	4	1	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:48917876C>T	uc002isv.3	+	2	1921	c.1227C>T	c.(1225-1227)GGC>GGT	p.G409G	WFIKKN2_uc010dbu.2_Silent_p.G316G	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	409	BPTI/Kunitz inhibitor 2.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			GCCAGACGGGCCAGTGCCAGT	0.672													19	83					0	0	0.016522	0	0		T	48917876	T	T	48917876	2	4	25	1	0	0	0	0	0	0	0	1	17385	726	26	2		2	WFIKKN2	17	48917876	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1523583	48917876	32277334	948	21948											
EPX	8288	broad.mit.edu	37	chr17	56274340	56274340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcaagaaccagcgtgactGcatccctttcttccgctcgg	8	10	8	15	3	2	2	1	1	1	1	5	2	4	2	3	1	3	2	3	1	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:56274340G>A	uc002ivq.2	+	7	928	c.842G>A	c.(841-843)TGC>TAC	p.C281Y		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	281					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						CAGCGTGACTGCATCCCTTTC	0.547													43	247					0	0	0.01441	0	0		A	56274340	A	A	56274340	3	1	25	1	0	0	0	0	1	0	0	0	5208	1319	46	2	868	2	EPX	17	56274340	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	7356464	56274340	24920870	949	21949											
BZRAP1	9256	broad.mit.edu	37	chr17	56399703	56399703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctcctcctgcttctccCgtaggctgagccgagcctgt	4	10	11	16	2	1	1	0	1	1	0	4	3	3	2	6	2	3	3	6	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:56399703C>T	uc002ivx.3	-	10	2259	c.1388G>A	c.(1387-1389)CGG>CAG	p.R463Q	BZRAP1_uc010dcs.2_Missense_Mutation_p.R403Q|BZRAP1_uc010wnt.1_Missense_Mutation_p.R463Q	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	463						mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CTGCTTCTCCCGTAGGCTGAG	0.592													18	140					0	0	0.010504	0	0		T	56399703	T	T	56399703	3	4	25	1	0	0	0	0	1	0	0	0	1580	652	23	1	4273	1	BZRAP1	17	56399703	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	125363	56399703	24795507	950	21950											
TANC2	26115	broad.mit.edu	37	chr17	61497863	61497863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcccaccacacacttcccCggctcatcagggaggatctt	9	8	8	16	1	3	0	2	0	1	0	4	2	4	2	4	3	1	1	4	3	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:61497863C>T	uc002jal.3	+	25	4543	c.4520C>T	c.(4519-4521)CCG>CTG	p.P1507L	TANC2_uc010wpe.1_3'UTR|TANC2_uc002jao.3_Missense_Mutation_p.P618L	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1507							binding			ovary(2)	2						CACACTTCCCCGGCTCATCAG	0.587													21	93					0	0	0.014323	0	0		T	61497863	T	T	61497863	3	4	25	1	0	0	0	0	1	0	0	0	15570	652	23	1	4618	1	TANC2	17	61497863	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	5098160	61497863	19697347	951	21951											
PSMC5	5705	broad.mit.edu	37	chr17	61907214	61907214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctgtttgccatctagttCgcctattgcgggaggagcta	6	14	12	9	2	2	0	0	0	2	0	3	2	2	2	2	2	3	3	2	2	3	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:61907214C>T	uc002jcb.2	+	4	210	c.169C>T	c.(169-171)CGC>TGC	p.R57C	FTSJ3_uc002jbz.2_5'Flank|FTSJ3_uc002jca.2_5'Flank|PSMC5_uc010ddy.2_Missense_Mutation_p.R34C|PSMC5_uc010ddz.2_5'UTR|PSMC5_uc002jcc.2_Missense_Mutation_p.R49C|PSMC5_uc002jcd.2_Missense_Mutation_p.R49C	NM_002805	NP_002796	P62195	PRS8_HUMAN	proteasome 26S ATPase subunit 5	57					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of programmed cell death|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|thyrotropin-releasing hormone receptor binding|transcription cofactor activity|transcription factor binding			large_intestine(1)	1						CCATCTAGTTCGCCTATTGCG	0.507													28	120					0	0	0.012213	0	0		T	61907214	T	T	61907214	3	4	25	1	0	0	0	0	1	0	0	0	12712	884	31	1	183	1	PSMC5	17	61907214	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	409351	61907214	19287996	952	21952											
HELZ	9931	broad.mit.edu	37	chr17	65104752	65104752	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggtatggagcgctgcccTgactgagaaaggcatgatgc	9	8	16	8	1	0	3	0	3	0	1	0	5	0	4	1	3	3	3	1	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:65104752T>C	uc010wqk.1	-	30	4770	c.4583A>G	c.(4582-4584)CAG>CGG	p.Q1528R	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.Q1527R|HELZ_uc010der.2_Missense_Mutation_p.Q71R	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					AGCGCTGCCCTGACTGAGAAA	0.562													5	174					0	0	0.001168	0	0		C	65104752	C	C	65104752	3	2	25	1	0	0	0	0	1	0	0	0	7065	1580	55	3	1264	3	HELZ	17	65104752	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	3197538	65104752	16090458	953	21953											
CDC42EP4	23580	broad.mit.edu	37	chr17	71282535	71282535	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggccaacgtgcatggtgtgGcggaagtcgcccagcggggc	6	5	18	12	5	0	0	0	0	0	0	1	1	0	1	2	6	3	1	2	6	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:71282535G>A	uc002jjn.2	-	2	252	c.105C>T	c.(103-105)CGC>CGT	p.R35R	CDC42EP4_uc002jjo.2_Silent_p.R35R|CDC42EP4_uc002jjp.1_Silent_p.R35R	NM_012121	NP_036253	Q9H3Q1	BORG4_HUMAN	Cdc42 effector protein 4	35	CRIB.				positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|cytoplasm|endomembrane system|membrane|microtubule cytoskeleton	GTP-Rho binding				0			LUSC - Lung squamous cell carcinoma(166;0.0352)|Lung(188;0.0711)			GCATGGTGTGGCGGAAGTCGC	0.657													16	71					0	0	0.003163	0	0		A	71282535	A	A	71282535	2	1	25	1	0	0	0	0	0	0	0	1	3081	1190	42	2		2	CDC42EP4	17	71282535	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	6177783	71282535	9912675	954	21954											
BTBD17	388419	broad.mit.edu	37	chr17	72353578	72353578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagcaccaggtccgagcGttgcaggagctgccagagca	9	5	14	13	2	0	1	0	0	0	1	1	3	1	2	3	2	7	6	3	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:72353578G>A	uc002jkn.2	-	3	655	c.655C>T	c.(655-657)CGC>TGC	p.R219C		NM_001080466	NP_001073935	A6NE02	BTBDH_HUMAN	BTB (POZ) domain containing 17 precursor	219	BACK.					extracellular region					0						AGGTCCGAGCGTTGCAGGAGC	0.731													3	9					0	0	0.009096	0	0		A	72353578	A	A	72353578	3	1	25	1	0	0	0	0	1	0	0	0	1545	1145	40	1	785	1	BTBD17	17	72353578	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1071043	72353578	8841632	955	21955											
HN1	51155	broad.mit.edu	37	chr17	73144759	73144759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatccaccacctggaggccGcaaaactctgcaaataatgg	13	6	10	12	1	1	0	0	0	1	0	2	2	2	2	4	4	2	2	4	4	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:73144759G>A	uc002jna.1	-	2	347	c.64C>T	c.(64-66)CGG>TGG	p.R22W	HN1_uc002jmz.1_5'UTR|HN1_uc002jnb.1_Missense_Mutation_p.R22W|HN1_uc010dgc.1_RNA|HN1_uc002jnc.2_RNA|HN1_uc002jnd.2_Missense_Mutation_p.R22W	NM_016185	NP_057269	Q9UK76	HN1_HUMAN	hematological and neurological expressed 1	22						nucleus					0	all_lung(278;0.14)|Lung NSC(278;0.168)					CCTGGAGGCCGCAAAACTCTG	0.393													17	49					0	0	0.00499	0	0		A	73144759	A	A	73144759	3	1	25	1	0	0	0	0	1	0	0	0	7265	1086	38	1	516	1	HN1	17	73144759	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	791181	73144759	8050451	956	21956											
KIAA0195	9772	broad.mit.edu	37	chr17	73487842	73487842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttccaatgagcaggagcGtggcgactggcctggcgagg	7	7	16	11	3	0	1	0	1	0	0	1	4	1	2	3	5	2	1	3	5	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:73487842G>A	uc002jnz.3	+	14	1732	c.1457G>A	c.(1456-1458)CGT>CAT	p.R486H	KIAA0195_uc010wsa.1_Missense_Mutation_p.R496H|KIAA0195_uc010wsb.1_Missense_Mutation_p.R142H	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	486					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			GAGCAGGAGCGTGGCGACTGG	0.617													25	110					0	0	0.004656	0	0		A	73487842	A	A	73487842	3	1	25	1	0	0	0	0	1	0	0	0	8176	1145	40	1	1507	1	KIAA0195	17	73487842	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	343083	73487842	7707368	957	21957											
GALK1	2584	broad.mit.edu	37	chr17	73761135	73761135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcgctgacacggccagctcgGgctcggccccgaactcctcc	5	5	12	19	5	0	1	0	1	0	0	4	2	2	1	5	3	2	3	5	3	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:73761135G>A	uc010wsi.1	-	1	146	c.83C>T	c.(82-84)CCC>CTC	p.P28L	GALK1_uc002jpk.2_Missense_Mutation_p.P28L|GALK1_uc010wsj.1_Missense_Mutation_p.P28L	NM_000154	NP_000145	P51570	GALK1_HUMAN	galactokinase 1	28			P -> T (in GALCT2; founder Romani mutation).		galactose catabolic process	cytosol	ATP binding|galactokinase activity|galactose binding				0	all_cancers(13;1.5e-07)		all cancers(21;1.03e-06)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGCCAGCTCGGGCTCGGCCCC	0.711													5	17					0	0	0.001168	0	0		A	73761135	A	A	73761135	3	1	25	1	0	0	0	0	1	0	0	0	6218	1232	43	4	1127	4	GALK1	17	73761135	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	273293	73761135	7434075	958	21958											
UNC13D	201294	broad.mit.edu	37	chr17	73840360	73840360	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactctgcggcgccttatcTtgatggcctggcgcaagaag	7	10	13	11	3	2	3	0	2	2	1	2	3	2	3	2	3	1	1	2	3	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:73840360T>C	uc002jpp.2	-	1	439	c.59A>G	c.(58-60)AAG>AGG	p.K20R	UNC13D_uc010wsk.1_Missense_Mutation_p.K20R|UNC13D_uc002jpq.1_5'UTR|UNC13D_uc010dgq.1_5'Flank	NM_199242	NP_954712	Q70J99	UN13D_HUMAN	unc-13 homolog D	20					positive regulation of exocytosis|regulation of mast cell degranulation	exocytic vesicle|late endosome|lysosome|membrane|recycling endosome	protein binding			upper_aerodigestive_tract(1)|skin(1)	2			all cancers(21;2.11e-06)|Epithelial(20;2.32e-06)|BRCA - Breast invasive adenocarcinoma(9;0.000618)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCGCCTTATCTTGATGGCCTG	0.647									Familial_Hemophagocytic_Lymphohistiocytosis				10	54					0	0	0.008291	0	0		C	73840360	C	C	73840360	3	2	25	1	0	0	0	0	1	0	0	0	17013	1609	56	3	3341	3	UNC13D	17	73840360	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	79225	73840360	7354850	959	21959											
EVPL	2125	broad.mit.edu	37	chr17	74005204	74005204	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgggcttcctcctctccAgcagcaggcgcttgctctgc	3	10	10	18	2	2	0	0	0	2	0	6	0	4	0	4	2	4	5	4	2	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:74005204A>G	uc002jqi.2	-	22	4310	c.4082T>C	c.(4081-4083)CTG>CCG	p.L1361P	EVPL_uc010wss.1_Missense_Mutation_p.L1383P|EVPL_uc010wst.1_Missense_Mutation_p.L831P	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1361	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CCTCCTCTCCAGCAGCAGGCG	0.692													50	200					0	0	0.01441	0	0		G	74005204	G	G	74005204	3	3	25	1	0	0	0	0	1	0	0	0	5300	188	7	3	2023	3	EVPL	17	74005204	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	164844	74005204	7190006	960	21960											
MGAT5B	146664	broad.mit.edu	37	chr17	74936837	74936837	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctcccagcatccctacgcGgagaacttcatcggcaagcc	9	8	8	16	3	2	1	1	0	1	1	5	2	3	1	3	2	4	2	3	2	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:74936837G>A	uc002jti.2	+	13	1885	c.1782G>A	c.(1780-1782)GCG>GCA	p.A594A	MGAT5B_uc002jth.2_Silent_p.A583A	NM_198955	NP_945193	Q3V5L5	MGT5B_HUMAN	N-acetylglucosaminyltranferase VB isoform 2	585	Lumenal (Potential).					Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						ATCCCTACGCGGAGAACTTCA	0.552													40	121					0	0	0.00623	0	0		A	74936837	A	A	74936837	2	1	25	1	0	0	0	0	0	0	0	1	9567	1103	39	1		1	MGAT5B	17	74936837	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	931633	74936837	6258373	961	21961											
SEC14L1	6397	broad.mit.edu	37	chr17	75196655	75196655	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatgtgtcagtctttgacGtggagaaagcagcatcaggt	11	11	12	7	1	4	2	3	1	1	1	4	3	4	2	0	2	2	2	0	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:75196655G>A	uc002jto.2	+	9	1176	c.909G>A	c.(907-909)ACG>ACA	p.T303T	SEC14L1_uc010dhc.2_Silent_p.T303T|SEC14L1_uc010wth.1_Silent_p.T303T|SEC14L1_uc002jtm.2_Silent_p.T303T|SEC14L1_uc010wti.1_Silent_p.T269T	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	303					transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						AGTCTTTGACGTGGAGAAAGC	0.463													66	234					0	0	0.01441	0	0		A	75196655	A	A	75196655	2	1	25	1	0	0	0	0	0	0	0	1	14006	1132	40	1		1	SEC14L1	17	75196655	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	259818	75196655	5998555	962	21962											
CHMP6	79643	broad.mit.edu	37	chr17	78972925	78972925	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtcaaggccaggcccaGgcaggcggagctggtggcag	7	4	17	13	1	1	0	1	0	0	0	1	1	1	1	3	7	1	3	3	7	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:78972925G>T	uc002jyw.3	+	8	656	c.578G>T	c.(577-579)AGG>ATG	p.R193M		NM_024591	NP_078867	Q96FZ7	CHMP6_HUMAN	chromatin modifying protein 6	193				Missing: Membrane association; releases autoinhibition.	cellular membrane organization|endosome transport|protein transport	cytosol|endomembrane system|late endosome membrane	protein N-terminus binding			ovary(1)	1	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0175)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			GCCAGGCCCAGGCAGGCGGAG	0.617													18	153					1.10513e-12	1.17569e-12	0.014323	1	0		T	78972925	T	T	78972925	3	4	25	1	0	0	0	0	1	0	0	0	3363	1000	35	5	608	5	CHMP6	17	78972925	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3776270	78972925	2222285	963	21963											
AZI1	22994	broad.mit.edu	37	chr17	79164825	79164825	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaccgctcctgaagcttcCgctccgactgctccagctcg	6	8	9	18	4	0	1	0	1	0	0	5	2	4	1	5	0	4	6	5	0	1	1	rs111464253		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:79164825C>T	uc002jzp.1	-	23	3034	c.2834G>A	c.(2833-2835)CGG>CAG	p.R945Q	AZI1_uc002jzm.1_Missense_Mutation_p.R377Q|AZI1_uc002jzn.1_Missense_Mutation_p.R942Q|AZI1_uc002jzo.1_Missense_Mutation_p.R906Q|AZI1_uc010wum.1_Missense_Mutation_p.R909Q|AZI1_uc002jzq.2_Missense_Mutation_p.R93Q	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	945					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CTGAAGCTTCCGCTCCGACTG	0.672													37	109					0	0	0.006999	0	0		T	79164825	T	T	79164825	3	4	25	1	0	0	0	0	1	0	0	0	1241	652	23	1	433	1	AZI1	17	79164825	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	191900	79164825	2030385	964	21964											
GPS1	2873	broad.mit.edu	37	chr17	80014563	80014563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcagccttcaataccaCggtggccgccctggaggacg	7	5	15	14	4	1	0	1	0	0	0	1	2	1	2	4	6	2	1	4	6	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr17:80014563C>T	uc002kdl.1	+	11	1232	c.1187C>T	c.(1186-1188)ACG>ATG	p.T396M	GPS1_uc002kdk.1_Missense_Mutation_p.T432M|GPS1_uc010dij.1_Missense_Mutation_p.T431M|GPS1_uc002kdm.1_Missense_Mutation_p.T376M|GPS1_uc002kdn.1_Missense_Mutation_p.T392M|GPS1_uc002kdo.1_Missense_Mutation_p.T395M|GPS1_uc010wvh.1_Missense_Mutation_p.T388M	NM_004127	NP_004118	Q13098	CSN1_HUMAN	G protein pathway suppressor 1 isoform 2	396	PCI.				cell cycle|cullin deneddylation|inactivation of MAPK activity|JNK cascade	cytoplasm|signalosome	GTPase inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			TTCAATACCACGGTGGCCGCC	0.637													8	26					0	0	0.008291	0	0		T	80014563	T	T	80014563	3	4	25	1	0	0	0	0	1	0	0	0	6748	536	19	1	1386	1	GPS1	17	80014563	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	849738	80014563	1180647	965	21965											
LPIN2	9663	broad.mit.edu	37	chr18	2922171	2922171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatgccgatggcacgagccGagcagtacagaaacttgtag	12	6	12	11	3	0	1	0	0	0	1	0	4	0	1	3	1	5	4	3	1	3	3	rs80338807		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:2922171G>A	uc002klo.2	-	17	2440	c.2201C>T	c.(2200-2202)TCG>TTG	p.S734L		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	734	C-LIP.		S -> L (in MAJEEDS).		fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		GGCACGAGCCGAGCAGTACAG	0.522													16	47					0	0	0.014323	0	0		A	2922171	A	A	2922171	3	1	25	1	0	0	0	0	1	0	0	0	8937	1059	37	1	505	1	LPIN2	18	2922171	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08		2922171	75155077	966	21966											
ARHGAP28	79822	broad.mit.edu	37	chr18	6890442	6890442	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccaggttccatctttctTaatcactcaagtaagaagaa	13	13	5	10	0	5	2	2	0	3	2	7	2	6	2	2	1	0	2	2	1	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:6890442T>C	uc010wzi.1	+	13	1455	c.1217T>C	c.(1216-1218)TTA>TCA	p.L406S	ARHGAP28_uc002knc.2_Missense_Mutation_p.L531S|ARHGAP28_uc002knd.2_Missense_Mutation_p.L424S|ARHGAP28_uc002kne.2_Missense_Mutation_p.L424S|ARHGAP28_uc002knf.2_Missense_Mutation_p.L415S			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	406					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				CCATCTTTCTTAATCACTCAA	0.468													6	39					0	0	0.001168	0	0		C	6890442	C	C	6890442	3	2	25	1	0	0	0	0	1	0	0	0	877	1764	61	3	1317	3	ARHGAP28	18	6890442	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	3968271	6890442	71186806	967	21967											
PTPRM	5797	broad.mit.edu	37	chr18	8394488	8394488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgacaggaacgggggaggccGcagtgggacgttctgcgcca	8	4	18	11	5	1	0	0	0	1	0	1	4	1	3	2	5	2	2	2	5	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:8394488G>A	uc002knn.3	+	30	4687	c.4184G>A	c.(4183-4185)CGC>CAC	p.R1395H	PTPRM_uc010dkv.2_Missense_Mutation_p.R1408H|PTPRM_uc010wzl.1_Missense_Mutation_p.R1182H	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1395	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				GGGGGAGGCCGCAGTGGGACG	0.522													12	53					0	0	0.020292	0	0		A	8394488	A	A	8394488	3	1	25	1	0	0	0	0	1	0	0	0	12831	1087	38	1	4349	1	PTPRM	18	8394488	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1504046	8394488	69682760	968	21968											
C18orf19	125228	broad.mit.edu	37	chr18	13681933	13681933	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattgtttttgagggccttgTaccaaaaccactttggattc	9	15	8	9	0	0	1	0	1	0	0	1	2	0	2	3	2	2	2	3	2	3	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:13681933T>C	uc010dlh.2	-	3	576	c.144A>G	c.(142-144)GTA>GTG	p.V48V	C18orf19_uc010dlg.2_Silent_p.V48V|C18orf19_uc010dli.2_Silent_p.V48V|C18orf19_uc002ksj.3_Silent_p.V48V|C18orf19_uc010dlj.2_Intron	NM_001098801	NP_001092271	Q96ND0	CR019_HUMAN	hypothetical protein LOC125228	48						integral to membrane				breast(2)	2						GAGGGCCTTGTACCAAAACCA	0.453													60	244					0	0	0.01441	0	0		C	13681933	C	C	13681933	2	2	25	1	0	0	0	0	0	0	0	1	1899	1625	57	3		3	C18orf19	18	13681933	Silent	SNP	T	TCGA-BR-4370-01A-01D-1158-08	5287445	13681933	64395315	969	21969											
ANKRD30B	374860	broad.mit.edu	37	chr18	14757831	14757831	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagcacagccctcatgcttgCcatatgtgaaggctcatcag	10	10	9	12	0	3	1	3	1	0	0	3	1	3	1	2	1	4	3	2	1	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:14757831C>A	uc010dlo.2	+	5	815	c.635C>A	c.(634-636)GCC>GAC	p.A212D	ANKRD30B_uc010xak.1_RNA	NM_001145029	NP_001138501	Q9BXX2	AN30B_HUMAN	ankyrin repeat domain 30B	212	ANK 5.									ovary(1)|skin(1)	2						CTCATGCTTGCCATATGTGAA	0.373													4	54					0.00909568	0.00917529	0.009096	1	0		A	14757831	A	A	14757831	3	1	25	1	0	0	0	0	1	0	0	0	659	739	26	5	653	5	ANKRD30B	18	14757831	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1075898	14757831	63319417	970	21970											
RIOK3	8780	broad.mit.edu	37	chr18	21046208	21046208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagaacgtcgaagtgccCgcctacatgagaaaaaggag	16	4	12	9	3	0	3	0	1	0	3	1	6	0	4	2	1	3	0	2	1	6	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:21046208C>T	uc002kui.3	+	6	1272	c.655C>T	c.(655-657)CGC>TGC	p.R219C	RIOK3_uc010dls.2_Missense_Mutation_p.R219C|RIOK3_uc010xas.1_Missense_Mutation_p.R203C|RIOK3_uc010xat.1_Silent_p.P10P	NM_003831	NP_003822	O14730	RIOK3_HUMAN	sudD suppressor of bimD6 homolog	219					chromosome segregation		ATP binding|protein binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(21;0.000106)|all_epithelial(16;6.74e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0202)|Ovarian(20;0.127)					TCGAAGTGCCCGCCTACATGA	0.333													19	90					0	0	0.006122	0	0		T	21046208	T	T	21046208	3	4	25	1	0	0	0	0	1	0	0	0	13404	652	23	1	677	1	RIOK3	18	21046208	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6288377	21046208	57031040	971	21971											
ZNF521	25925	broad.mit.edu	37	chr18	22804764	22804764	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttttgcatgtggaacgTcccatggattttgagttcca	7	16	10	8	1	1	1	0	1	1	0	3	3	3	3	2	2	2	2	2	2	1	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:22804764T>C	uc002kvk.2	-	4	3365	c.3118A>G	c.(3118-3120)ACG>GCG	p.T1040A	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.T1040A|ZNF521_uc002kvl.2_Missense_Mutation_p.T820A	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	1040	C2H2-type 24.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					ATGTGGAACGTCCCATGGATT	0.527			T	PAX5	ALL								20	94					0	0	0.016522	0	0		C	22804764	C	C	22804764	3	2	25	1	0	0	0	0	1	0	0	0	17990	1667	58	3	837	3	ZNF521	18	22804764	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	1758556	22804764	55272484	972	21972											
DSG3	1830	broad.mit.edu	37	chr18	29040811	29040811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attagcaagctagcagctatCgtctggttgtgagtggtgca	9	12	13	7	1	1	1	0	1	1	0	2	1	1	1	0	2	5	6	0	2	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:29040811C>T	uc002kws.2	+	7	809	c.700C>T	c.(700-702)CGT>TGT	p.R234C		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	234	Extracellular (Potential).|Cadherin 2.				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TAGCAGCTATCGTCTGGTTGT	0.338													17	68					0	0	0.007413	0	0		T	29040811	T	T	29040811	3	4	25	1	0	0	0	0	1	0	0	0	4784	884	31	1	726	1	DSG3	18	29040811	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6236047	29040811	49036437	973	21973											
FAM59A	64762	broad.mit.edu	37	chr18	29972872	29972872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttacctgcataatgtaccGgaatctctatctttggccca	9	14	6	12	1	3	0	0	0	3	0	4	1	3	1	3	2	3	2	3	2	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:29972872G>A	uc002kxl.2	-	2	304	c.248C>T	c.(247-249)CCG>CTG	p.P83L	FAM59A_uc002kxk.1_Missense_Mutation_p.P83L	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	83	CABIT.									ovary(1)|skin(1)	2						ATAATGTACCGGAATCTCTAT	0.478													23	123					0	0	0.01892	0	0		A	29972872	A	A	29972872	3	1	25	1	0	0	0	0	1	0	0	0	5606	1116	39	1	2399	1	FAM59A	18	29972872	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	932061	29972872	48104376	974	21974											
KIAA1328	57536	broad.mit.edu	37	chr18	34647208	34647208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgctgtggtcatagacttgCtgcagatcgtgttcatgaca	9	13	11	8	1	2	3	2	1	0	2	3	3	2	3	0	1	3	4	0	1	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:34647208C>T	uc002kzz.2	+	7	954	c.932C>T	c.(931-933)GCT>GTT	p.A311V	KIAA1328_uc002lab.2_Missense_Mutation_p.A27V|KIAA1328_uc002lac.1_Missense_Mutation_p.A134V|KIAA1328_uc010dnc.1_RNA|KIAA1328_uc002lad.2_Missense_Mutation_p.A27V	NM_020776	NP_065827	Q86T90	K1328_HUMAN	hypothetical protein LOC57536	311										central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)		CATAGACTTGCTGCAGATCGT	0.458													19	83					0	0	0.007413	0	0		T	34647208	T	T	34647208	3	4	25	1	0	0	0	0	1	0	0	0	8241	797	28	2	958	2	KIAA1328	18	34647208	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	4674336	34647208	43430040	975	21975											
CELF4	56853	broad.mit.edu	37	chr18	34854793	34854793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctggctgccgtgtagcGcgttgatggcggcctgcgcc	2	10	17	12	5	1	1	0	1	1	0	1	1	1	1	3	4	3	3	3	4	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:34854793G>A	uc002lae.2	-	5	1028	c.632C>T	c.(631-633)GCG>GTG	p.A211V	CELF4_uc010dnd.1_Missense_Mutation_p.A210V|CELF4_uc002lag.2_Missense_Mutation_p.A201V|CELF4_uc002laf.2_Missense_Mutation_p.A206V|CELF4_uc002lai.2_Missense_Mutation_p.A196V|CELF4_uc002lah.1_5'Flank|CELF4_uc002laj.1_5'Flank	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	211	Sufficient for RNA-binding and MSE- dependent splicing activity.|RRM 2.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						GCCGTGTAGCGCGTTGATGGC	0.741													3	17					0	0	0.001168	0	0		A	34854793	A	A	34854793	3	1	25	1	0	0	0	0	1	0	0	0	3221	1087	38	1	860	1	CELF4	18	34854793	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	207585	34854793	43222455	976	21976											
SMAD7	4092	broad.mit.edu	37	chr18	46448019	46448019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagatggggtaactgctgCggttgtacacccacacacca	11	8	11	11	1	0	2	0	1	0	1	0	2	0	2	2	3	4	4	2	3	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:46448019C>T	uc002ldg.2	-	4	1291	c.1004G>A	c.(1003-1005)CGC>CAC	p.R335H	SMAD7_uc002ldf.2_Missense_Mutation_p.R147H|SMAD7_uc010xde.1_Missense_Mutation_p.R120H	NM_005904	NP_005895	O15105	SMAD7_HUMAN	SMAD family member 7	335	MH2.				adherens junction assembly|artery morphogenesis|BMP signaling pathway|cellular protein complex localization|negative regulation of BMP signaling pathway|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of pathway-restricted SMAD protein phosphorylation|negative regulation of peptidyl-serine phosphorylation|negative regulation of peptidyl-threonine phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of ubiquitin-protein ligase activity|pathway-restricted SMAD protein phosphorylation|positive regulation of anti-apoptosis|positive regulation of cell-cell adhesion|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein stabilization|regulation of activin receptor signaling pathway|response to laminar fluid shear stress|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	centrosome|cytosol|nucleolus|plasma membrane|transcription factor complex	activin binding|beta-catenin binding|I-SMAD binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor, inhibitory cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding				0	Colorectal(1;0.0518)					GTAACTGCTGCGGTTGTACAC	0.572													9	49					0	0	0.006214	0	0		T	46448019	T	T	46448019	3	4	25	1	0	0	0	0	1	0	0	0	14788	768	27	1	280	1	SMAD7	18	46448019	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	11593226	46448019	31629229	977	21977											
MYO5B	4645	broad.mit.edu	37	chr18	47405347	47405347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catttcatcccgaaggttgtCgtatctctgctccaactgtg	7	14	8	12	2	2	0	1	0	1	0	6	1	4	0	2	1	2	3	2	1	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:47405347C>T	uc002leb.2	-	24	3532	c.3244G>A	c.(3244-3246)GAC>AAC	p.D1082N	MYO5B_uc002lea.2_Missense_Mutation_p.D223N	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	1082	Potential.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		CGAAGGTTGTCGTATCTCTGC	0.512													5	119					0	0	0.014758	0	0		T	47405347	T	T	47405347	3	4	25	1	0	0	0	0	1	0	0	0	10097	884	31	1	2370	1	MYO5B	18	47405347	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	957328	47405347	30671901	978	21978											
ST8SIA3	51046	broad.mit.edu	37	chr18	55027353	55027353	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttggatttgaccccaacAcaagggaagatcttccatac	12	10	8	11	1	1	2	0	1	1	1	2	4	2	4	3	2	2	1	3	2	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:55027353A>G	uc002lgn.2	+	4	1345	c.988A>G	c.(988-990)ACA>GCA	p.T330A		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	330	Lumenal (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		TGACCCCAACACAAGGGAAGA	0.453													9	100					0	0	0.008291	0	0		G	55027353	G	G	55027353	3	3	25	1	0	0	0	0	1	0	0	0	15258	159	6	3	1002	3	ST8SIA3	18	55027353	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	7622006	55027353	23049895	979	21979											
ATP8B1	5205	broad.mit.edu	37	chr18	55365098	55365098	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttccacttagcaactttgaAcctaaggattaaaaataatg	16	13	5	7	0	0	1	0	1	0	0	1	2	1	2	2	1	3	1	2	1	8	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:55365098A>G	uc002lgw.2	-	6	556	c.556T>C	c.(556-558)TTC>CTC	p.F186L	uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	186	Cytoplasmic (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				GCAACTTTGAACCTAAGGATT	0.318									Byler_disease				5	52					0	0	0.014758	0	0		G	55365098	G	G	55365098	3	3	25	1	0	0	0	0	1	0	0	0	1195	57	2	3	3287	3	ATP8B1	18	55365098	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	337745	55365098	22712150	980	21980											
PIGN	23556	broad.mit.edu	37	chr18	59828459	59828459	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaacaacactaatcttctcGctggaggaggcaatggtgta	13	9	10	9	1	2	0	0	0	2	0	3	2	2	2	0	4	2	3	0	4	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:59828459G>T	uc002lii.3	-	4	576	c.128C>A	c.(127-129)GCG>GAG	p.A43E	PIGN_uc002lij.3_Missense_Mutation_p.A43E	NM_176787	NP_789744	O95427	PIGN_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	43	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphotransferase activity, for other substituted phosphate groups			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5		Colorectal(73;0.187)				TAATCTTCTCGCTGGAGGAGG	0.403													14	80					1.3612e-06	1.40804e-06	0.003163	1	0		T	59828459	T	T	59828459	3	4	25	1	0	0	0	0	1	0	0	0	11912	1087	38	5	2779	5	PIGN	18	59828459	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4463361	59828459	18248789	981	21981											
ZNF407	55628	broad.mit.edu	37	chr18	72775204	72775204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggcggccttggcagaagagCccctcgtcaaggagaagccc	9	4	14	14	3	1	3	1	0	0	3	2	4	1	3	4	4	2	1	4	4	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:72775204C>T	uc002llw.2	+	8	5584	c.5527C>T	c.(5527-5529)CCC>TCC	p.P1843S		NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1843					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		GGCAGAAGAGCCCCTCGTCAA	0.622													31	193					0	0	0.015359	0	0		T	72775204	T	T	72775204	3	4	25	1	0	0	0	0	1	0	0	0	17912	739	26	2	5687	2	ZNF407	18	72775204	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	12946745	72775204	5302044	982	21982											
ZNF236	7776	broad.mit.edu	37	chr18	74607223	74607223	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctggcagcctcaaggtgCacattcgcctgcacacaggt	8	8	10	15	1	2	0	1	0	1	0	3	0	2	0	3	3	3	3	3	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:74607223C>A	uc002lmi.2	+	10	1864	c.1666C>A	c.(1666-1668)CAC>AAC	p.H556N	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	556	C2H2-type 12.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CCTCAAGGTGCACATTCGCCT	0.592													10	55					3.07112e-06	3.1673e-06	0.010729	1	0		A	74607223	A	A	74607223	3	1	25	1	0	0	0	0	1	0	0	0	17814	710	25	5	1704	5	ZNF236	18	74607223	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1832019	74607223	3470025	983	21983											
ZNF236	7776	broad.mit.edu	37	chr18	74627612	74627612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcttgcaggagtgaaggCgttcagctgcagtgtgtgca	7	11	16	7	1	1	1	1	1	0	0	1	2	1	2	0	2	5	6	0	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:74627612C>T	uc002lmi.2	+	19	3263	c.3065C>T	c.(3064-3066)GCG>GTG	p.A1022V	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1022					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GGAGTGAAGGCGTTCAGCTGC	0.463													43	157					0	0	0.013114	0	0		T	74627612	T	T	74627612	3	4	25	1	0	0	0	0	1	0	0	0	17814	768	27	1	3139	1	ZNF236	18	74627612	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	20389	74627612	3449636	984	21984											
SALL3	27164	broad.mit.edu	37	chr18	76754839	76754839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccccgggcagcggaggcGcccctggccgcgcgggcatc	3	2	17	19	7	0	0	0	0	0	0	1	1	0	1	6	5	1	2	6	5	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:76754839G>A	uc002lmt.2	+	2	2848	c.2848G>A	c.(2848-2850)GCC>ACC	p.A950T	SALL3_uc010dra.2_Missense_Mutation_p.A557T	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	950					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		cagcggaggcgcccctggccg	0.527													3	15					0	0	0.014758	0	0		A	76754839	A	A	76754839	3	1	25	1	0	0	0	0	1	0	0	0	13837	1087	38	1	2854	1	SALL3	18	76754839	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2127227	76754839	1322409	985	21985											
ATP9B	374868	broad.mit.edu	37	chr18	77107847	77107847	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggctgctcatggtgcaCgggcggaacagctacaagag	10	5	16	10	2	1	1	1	0	0	1	1	2	1	2	0	5	5	5	0	5	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr18:77107847C>T	uc002lmx.2	+	24	2774	c.2760C>T	c.(2758-2760)CAC>CAT	p.H920H	ATP9B_uc002lmw.1_Silent_p.H920H|ATP9B_uc002lmz.1_Silent_p.H614H|ATP9B_uc002lna.2_Translation_Start_Site|ATP9B_uc002lnb.1_Silent_p.H40H|ATP9B_uc010drb.2_RNA	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	920	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		TCATGGTGCACGGGCGGAACA	0.612													21	83					0	0	0.014323	0	0		T	77107847	T	T	77107847	2	4	25	1	0	0	0	0	0	0	0	1	1200	535	19	1		1	ATP9B	18	77107847	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	353008	77107847	969401	986	21986											
DOT1L	84444	broad.mit.edu	37	chr19	2213582	2213582	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcggctcagcagctcctcagCcactgccaggcccagaagga	9	4	12	16	1	2	1	2	0	0	1	3	2	3	2	4	3	4	3	4	3	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:2213582C>T	uc002lvb.3	+	17	1638	c.1602C>T	c.(1600-1602)AGC>AGT	p.S534S	DOT1L_uc002lvc.1_5'UTR|uc002lvd.1_RNA|DOT1L_uc002lve.1_5'Flank	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	534						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCTCCTCAGCCACTGCCAGG	0.627													20	85					0	0	0.014323	0	0		T	2213582	T	T	2213582	2	4	25	1	0	0	0	0	0	0	0	1	4715	738	26	2		2	DOT1L	19	2213582	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08		2213582	56915401	987	21987											
GNA11	2767	broad.mit.edu	37	chr19	3110179	3110179	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggaagagcacgttcatcAagcagatgcgcatcatccac	12	6	11	12	3	3	2	3	0	0	2	4	3	4	3	1	1	3	4	1	1	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:3110179A>C	uc002lxd.2	+	2	411	c.169A>C	c.(169-171)AAG>CAG	p.K57Q		NM_002067	NP_002058	P29992	GNA11_HUMAN	guanine nucleotide binding protein (G protein),	57					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation|regulation of action potential	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			eye(70)|skin(16)	86		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.79e-05)|OV - Ovarian serous cystadenocarcinoma(105;2.68e-113)|Epithelial(107;1.22e-111)|all cancers(105;5.78e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00141)|STAD - Stomach adenocarcinoma(1328;0.181)		CACGTTCATCAAGCAGATGCG	0.662			Mis		uveal melanoma								6	23					0	0	0.001168	0	0		C	3110179	C	C	3110179	3	2	25	1	0	0	0	0	1	0	0	0	6514	131	5	5	175	5	GNA11	19	3110179	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	896597	3110179	56018804	988	21988											
ARRDC5	645432	broad.mit.edu	37	chr19	4891270	4891270	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacggacagcagcaacggcaGgttgaaggtgctgacaacct	12	5	13	11	2	0	2	0	2	0	0	0	3	0	3	1	4	5	5	1	4	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:4891270G>T	uc002mbm.2	-	3	817	c.817C>A	c.(817-819)CTG>ATG	p.L273M		NM_001080523	NP_001073992	A6NEK1	ARRD5_HUMAN	arrestin domain containing 5	273					signal transduction						0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0257)		AGCAACGGCAGGTTGAAGGTG	0.637													48	168					1.38658e-30	1.51472e-30	0.01441	1	0		T	4891270	T	T	4891270	3	4	25	1	0	0	0	0	1	0	0	0	987	991	35	5	215	5	ARRDC5	19	4891270	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1781091	4891270	54237713	989	21989											
KDM4B	23030	broad.mit.edu	37	chr19	5071059	5071059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacggcaagcgcctggagcGgctggccatcggtaggtgcc	6	5	17	13	4	0	0	0	0	0	0	1	1	0	1	3	6	3	4	3	6	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:5071059G>A	uc002mbq.3	+	7	891	c.665G>A	c.(664-666)CGG>CAG	p.R222Q	KDM4B_uc010xil.1_Missense_Mutation_p.R222Q|KDM4B_uc010xim.1_Missense_Mutation_p.R222Q|KDM4B_uc002mbr.3_5'UTR	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	222	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						CGCCTGGAGCGGCTGGCCATC	0.711													12	58					0	0	0.003163	0	0		A	5071059	A	A	5071059	3	1	25	1	0	0	0	0	1	0	0	0	8145	1116	39	1	683	1	KDM4B	19	5071059	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	179789	5071059	54057924	990	21990											
ZNRF4	148066	broad.mit.edu	37	chr19	5455726	5455726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaccatggggtggccacGgccgggccgagccctcgtgg	4	5	19	13	4	0	1	0	1	0	0	1	2	0	1	5	7	1	0	5	7	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:5455726G>A	uc002mca.3	+	1	301	c.224G>A	c.(223-225)CGG>CAG	p.R75Q		NM_181710	NP_859061	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4 precursor	75	Extracellular (Potential).					integral to membrane	zinc ion binding			large_intestine(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		GGGTGGCCACGGCCGGGCCGA	0.677													19	116					0	0	0.00632	0	0		A	5455726	A	A	5455726	3	1	25	1	0	0	0	0	1	0	0	0	18239	1116	39	1	226	1	ZNRF4	19	5455726	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	384667	5455726	53673257	991	21991											
SAFB	6294	broad.mit.edu	37	chr19	5661542	5661542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgcagcagggtgcgtgaaCgcagtgaacgcgaacaacgc	11	5	15	10	5	0	2	0	2	0	0	0	3	0	2	0	1	7	3	0	1	4	0	rs140739982		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:5661542C>T	uc002mcf.2	+	15	1929	c.1876C>T	c.(1876-1878)CGC>TGC	p.R626C	SAFB_uc002mcg.2_Missense_Mutation_p.R626C|SAFB_uc002mce.3_Missense_Mutation_p.R625C|SAFB_uc010xir.1_Missense_Mutation_p.R625C|SAFB_uc010xis.1_Missense_Mutation_p.R557C|SAFB_uc010xit.1_Missense_Mutation_p.R468C|SAFB_uc010xiu.1_Missense_Mutation_p.R425C	NM_002967	NP_002958	Q15424	SAFB1_HUMAN	scaffold attachment factor B	626	Interaction with SAFB2.|Interaction with POLR2A.|Arg-rich.|Glu-rich.				chromatin organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding			ovary(1)|liver(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;0.000222)		GGTGCGTGAACGCAGTGAACG	0.637													33	156					0	0	0.007835	0	0		T	5661542	T	T	5661542	3	4	25	1	0	0	0	0	1	0	0	0	13831	536	19	1	1934	1	SAFB	19	5661542	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	205816	5661542	53467441	992	21992											
SLC25A23	79085	broad.mit.edu	37	chr19	6452431	6452431	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctccaggatacgcctggcGcagtccagcagccccttata	8	8	9	16	2	1	0	0	0	1	0	3	1	2	1	5	2	3	2	5	2	3	3	rs140701489	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:6452431G>A	uc002mex.1	-	8	1105	c.963C>T	c.(961-963)TGC>TGT	p.C321C	SLC25A23_uc002mev.2_RNA|SLC25A23_uc010xjd.1_Intron	NM_024103	NP_077008	Q9BV35	SCMC3_HUMAN	solute carrier family 25, member 23	321	Solcar 2.|Mitochondrial matrix (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)|pancreas(1)	2						TACGCCTGGCGCAGTCCAGCA	0.657													11	36					0	0	0.013537	0	0		A	6452431	A	A	6452431	2	1	25	1	0	0	0	0	0	0	0	1	14511	1079	38	1		1	SLC25A23	19	6452431	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	790889	6452431	52676552	993	21993											
VAV1	7409	broad.mit.edu	37	chr19	6854032	6854032	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccgatcagagctgtcgCtcaaggagggtgacatcatc	11	7	13	10	2	3	3	3	1	0	2	5	6	3	4	1	2	1	2	1	2	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:6854032C>A	uc002mfu.1	+	26	2504	c.2407C>A	c.(2407-2409)CTC>ATC	p.L803I	VAV1_uc010xjh.1_Missense_Mutation_p.L771I|VAV1_uc010dva.1_Missense_Mutation_p.L781I|VAV1_uc002mfv.1_Missense_Mutation_p.L748I	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	803	SH3 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						AGAGCTGTCGCTCAAGGAGGG	0.557													44	194					2.00842e-17	2.16327e-17	0.010771	1	0		A	6854032	A	A	6854032	3	1	25	1	0	0	0	0	1	0	0	0	17157	797	28	5	2509	5	VAV1	19	6854032	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	401601	6854032	52274951	994	21994											
HNRNPM	4670	broad.mit.edu	37	chr19	8527430	8527430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagttggtgaggtaacatacGtggagctcttaatggacgct	10	12	13	6	2	1	1	0	1	1	0	1	3	1	3	0	4	3	4	0	4	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:8527430G>A	uc010dwe.2	+	3	381	c.301G>A	c.(301-303)GTG>ATG	p.V101M	HNRNPM_uc010dwc.1_Missense_Mutation_p.V101M|HNRNPM_uc010xke.1_Missense_Mutation_p.V101M|HNRNPM_uc010dwd.2_Missense_Mutation_p.V101M|HNRNPM_uc002mka.2_5'Flank	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	101	RRM 1.				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						GGTAACATACGTGGAGCTCTT	0.403													47	399					0	0	0.01441	0	0		A	8527430	A	A	8527430	3	1	25	1	0	0	0	0	1	0	0	0	7287	1145	40	1	311	1	HNRNPM	19	8527430	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1673398	8527430	50601553	995	21995											
ADAMTS10	81794	broad.mit.edu	37	chr19	8670129	8670129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactcggctgtggcccccGtgccgcggcgctgcctccgg	1	6	17	17	6	0	0	0	0	0	0	2	1	1	1	5	5	2	2	5	5	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:8670129G>A	uc002mkj.1	-	4	477	c.203C>T	c.(202-204)ACG>ATG	p.T68M	ADAMTS10_uc002mkk.1_Translation_Start_Site	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	68					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						TGTGGCCCCCGTGCCGCGGCG	0.682													8	35					0	0	0.00308	0	0		A	8670129	A	A	8670129	3	1	25	1	0	0	0	0	1	0	0	0	256	1145	40	1	3200	1	ADAMTS10	19	8670129	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	142699	8670129	50458854	996	21996											
DNMT1	1786	broad.mit.edu	37	chr19	10267172	10267172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgggacacaggtgaccgtGcttacagtacacactagaca	13	7	11	10	1	0	2	0	1	0	1	0	4	0	3	1	2	3	2	1	2	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:10267172G>A	uc002mng.2	-	17	1426	c.1246C>T	c.(1246-1248)CAC>TAC	p.H416Y	DNMT1_uc010xlc.1_Missense_Mutation_p.H432Y|DNMT1_uc002mnh.2_Missense_Mutation_p.H311Y|DNMT1_uc010xld.1_Missense_Mutation_p.H416Y	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	416	DNA replication foci-targeting sequence (By similarity).|Homodimerization.|Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	AGGTGACCGTGCTTACAGTAC	0.493													22	88					0	0	0.012319	0	0		A	10267172	A	A	10267172	3	1	25	1	0	0	0	0	1	0	0	0	4681	1319	46	2	3700	2	DNMT1	19	10267172	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1597043	10267172	48861811	997	21997											
SMARCA4	6597	broad.mit.edu	37	chr19	11144113	11144113	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accagaaggtgatccaggccGgcatgttcgaccagaagtcc	11	6	12	12	2	0	3	0	1	0	2	3	4	2	3	5	3	0	2	5	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:11144113G>A	uc002mqf.3	+	26	3978	c.3694G>A	c.(3694-3696)GGC>AGC	p.G1232S	SMARCA4_uc010dxp.2_Missense_Mutation_p.G1232S|SMARCA4_uc010dxo.2_Missense_Mutation_p.G1232S|SMARCA4_uc010dxq.2_Missense_Mutation_p.G1232S|SMARCA4_uc010dxr.2_Missense_Mutation_p.G1232S|SMARCA4_uc002mqj.3_Missense_Mutation_p.G1232S|SMARCA4_uc010dxs.2_Missense_Mutation_p.G1232S|SMARCA4_uc010dxt.1_Missense_Mutation_p.G452S|SMARCA4_uc002mqh.3_Missense_Mutation_p.G355S|SMARCA4_uc002mqi.1_Missense_Mutation_p.G435S	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	1232	Helicase C-terminal.				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.G1232D(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GATCCAGGCCGGCATGTTCGA	0.637			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				44	163					0	0	0.01441	0	0		A	11144113	A	A	11144113	3	1	25	1	0	0	0	0	1	0	0	0	14795	1116	39	1	3792	1	SMARCA4	19	11144113	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	876941	11144113	47984870	998	21998											
LDLR	3949	broad.mit.edu	37	chr19	11217255	11217255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccagctgtggccacctgtCgccctgacgaattccagtgc	6	10	10	15	2	0	1	0	1	0	0	3	2	2	1	5	1	2	1	5	1	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:11217255C>T	uc002mqk.3	+	5	877	c.709C>T	c.(709-711)CGC>TGC	p.R237C	LDLR_uc010xlk.1_Missense_Mutation_p.R237C|LDLR_uc010xll.1_Missense_Mutation_p.R196C|LDLR_uc010xlm.1_Missense_Mutation_p.R90C|LDLR_uc010xln.1_Missense_Mutation_p.R110C|LDLR_uc010xlo.1_Intron	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	237	LDL-receptor class A 6.|Extracellular (Potential).				cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		Lung NSC(9;0.000245)|Renal(1328;0.0007)|Hepatocellular(1079;0.0524)		GBM - Glioblastoma multiforme(1328;1.36e-05)|STAD - Stomach adenocarcinoma(1328;0.000766)|Lung(535;0.197)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	GGCCACCTGTCGCCCTGACGA	0.473													32	134					0	0	0.017118	0	0		T	11217255	T	T	11217255	3	4	25	1	0	0	0	0	1	0	0	0	8720	884	31	1	727	1	LDLR	19	11217255	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	73142	11217255	47911728	999	21999											
CCDC151	115948	broad.mit.edu	37	chr19	11537032	11537032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgcactcacttatgtagcGttcccgcttcttgcgctctc	4	15	7	15	3	3	0	1	0	2	0	5	0	4	0	1	0	3	5	1	0	2	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:11537032G>A	uc002mrs.2	-	7	1038	c.895C>T	c.(895-897)CGC>TGC	p.R299C	CCDC151_uc002mrr.2_Missense_Mutation_p.R234C|CCDC151_uc010dxz.2_Missense_Mutation_p.R239C	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	299	Potential.									ovary(1)	1						CTTATGTAGCGTTCCCGCTTC	0.622													8	81					0	0	0.00308	0	0		A	11537032	A	A	11537032	3	1	25	1	0	0	0	0	1	0	0	0	2789	1145	40	1	920	1	CCDC151	19	11537032	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	319777	11537032	47591951	1000	22000											
ZNF625	90589	broad.mit.edu	37	chr19	12256707	12256707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgtcttcgaatgcttgaaCgggaaataaagctttttcca	11	14	9	7	2	1	1	0	1	1	0	3	3	2	2	1	1	3	2	1	1	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:12256707C>T	uc002mth.2	-	4	676	c.326G>A	c.(325-327)CGT>CAT	p.R109H	ZNF20_uc002mtg.1_Intron|ZNF625_uc010dyn.1_RNA|ZNF625_uc010dyo.1_Missense_Mutation_p.R143H	NM_145233	NP_660276	Q96I27	ZN625_HUMAN	zinc finger protein 625	109	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AATGCTTGAACGGGAAATAAA	0.433													78	241					0	0	0.01441	0	0		T	12256707	T	T	12256707	3	4	25	1	0	0	0	0	1	0	0	0	18074	536	19	1	598	1	ZNF625	19	12256707	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	719675	12256707	46872276	1001	22001											
ZNF442	79973	broad.mit.edu	37	chr19	12461259	12461259	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gataacgctttcccacactgCttgcattcatagggtttctc	8	14	7	12	1	2	0	1	0	1	0	4	1	3	0	1	1	3	4	1	1	2	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:12461259C>T	uc002mtr.1	-	6	1751	c.1140G>A	c.(1138-1140)AAG>AAA	p.K380K	ZNF442_uc010xmk.1_Silent_p.K311K	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	380	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						TCCCACACTGCTTGCATTCAT	0.428													80	399					0	0	0.01441	0	0		T	12461259	T	T	12461259	2	4	25	1	0	0	0	0	0	0	0	1	17940	796	28	2		2	ZNF442	19	12461259	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	204552	12461259	46667724	1002	22002											
TNPO2	30000	broad.mit.edu	37	chr19	12829855	12829855	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctctcaccaatggtggctcGgatgagcgaggaggcatcgc	8	7	14	12	3	1	1	1	1	1	0	4	4	1	3	2	5	1	2	2	5	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:12829855G>A	uc002muo.2	-	4	498	c.313C>T	c.(313-315)CGA>TGA	p.R105*	TNPO2_uc002mup.2_Nonsense_Mutation_p.R197*|TNPO2_uc002muq.2_Nonsense_Mutation_p.R105*|TNPO2_uc002mur.2_Nonsense_Mutation_p.R105*	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	105					intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						ATGGTGGCTCGGATGAGCGAG	0.458													44	162					0	0	0.01441	0	0		A	12829855	A	A	12829855	4	1	25	1	0	0	0	0	0	1	0	0	16361	1124	39	1	2464	1	TNPO2	19	12829855	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	368596	12829855	46299128	1003	22003											
RNASEH2A	10535	broad.mit.edu	37	chr19	12918305	12918305	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtatgcattggaccagggCgtgaacgtcacccaggtgag	10	7	14	10	2	1	2	1	2	0	0	1	3	1	3	2	3	2	2	2	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:12918305C>T	uc002mvg.1	+	4	456	c.396C>T	c.(394-396)GGC>GGT	p.G132G	RNASEH2A_uc002mvf.1_Silent_p.G50G	NM_006397	NP_006388	O75792	RNH2A_HUMAN	ribonuclease H2, large subunit	132					DNA replication|RNA catabolic process	nucleus|ribonuclease H2 complex	metal ion binding|ribonuclease H activity|RNA binding			breast(2)|central_nervous_system(1)	3						TGGACCAGGGCGTGAACGTCA	0.413													19	57					0	0	0.008871	0	0		T	12918305	T	T	12918305	2	4	25	1	0	0	0	0	0	0	0	1	13437	755	27	1		1	RNASEH2A	19	12918305	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	88450	12918305	46210678	1004	22004											
NANOS3	342977	broad.mit.edu	37	chr19	13988423	13988423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgcggcgccacacgtgagCgcgcccacacccgacgcttc	7	4	12	18	7	0	1	0	1	0	0	1	2	0	1	3	1	2	1	3	1	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:13988423C>T	uc002mxj.3	+	1	474	c.361C>T	c.(361-363)CGC>TGC	p.R121C		NM_001098622	NP_001092092	P60323	NANO3_HUMAN	nanos homolog 3	102	C2HC 2.|Nanos-type.				anti-apoptosis|germ cell development|multicellular organismal development|oogenesis|regulation of cell cycle|regulation of translation|spermatogenesis	cytoplasmic mRNA processing body|nucleus|stress granule	RNA binding|zinc ion binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			CACACGTGAGCGCGCCCACAC	0.662													9	42					0	0	0.010729	0	0		T	13988423	T	T	13988423	3	4	25	1	0	0	0	0	1	0	0	0	10171	768	27	1	363	1	NANOS3	19	13988423	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1070118	13988423	45140560	1005	22005											
C19orf57	79173	broad.mit.edu	37	chr19	14000887	14000887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccaggcaggccagcccctGctgtcctttgggcccctccc	3	8	10	20	0	0	0	0	0	0	0	3	0	3	0	8	3	2	2	8	3	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:14000887G>A	uc002mxl.1	-	6	841	c.782C>T	c.(781-783)GCA>GTA	p.A261V	C19orf57_uc002mxk.1_Missense_Mutation_p.A143V|C19orf57_uc002mxm.1_Intron	NM_024323	NP_077299	Q0VDD7	CS057_HUMAN	hypothetical protein LOC79173	261					multicellular organismal development		protein binding			ovary(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			GCCAGCCCCTGCTGTCCTTTG	0.652													5	133					0	0	0.014758	0	0		A	14000887	A	A	14000887	3	1	25	1	0	0	0	0	1	0	0	0	1942	1319	46	2	1143	2	C19orf57	19	14000887	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	12464	14000887	45128096	1006	22006											
CD97	976	broad.mit.edu	37	chr19	14507198	14507198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggctctgtaaaagctacGgcacctgcgtcaacaccctt	11	8	8	14	2	2	0	1	0	1	0	2	0	2	0	2	2	4	4	2	2	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:14507198G>A	uc002myl.2	+	5	514	c.391G>A	c.(391-393)GGC>AGC	p.G131S	CD97_uc002mym.2_Missense_Mutation_p.G131S|CD97_uc002myn.2_Intron	NM_078481	NP_510966	P48960	CD97_HUMAN	CD97 antigen isoform 1 precursor	131	Extracellular (Potential).|EGF-like 3; calcium-binding (Potential).				cell adhesion|cell-cell signaling|cellular component movement|immune response|inflammatory response|neuropeptide signaling pathway	extracellular space|integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(3)|breast(1)	4						TAAAAGCTACGGCACCTGCGT	0.567													25	170					0	0	0.021523	0	0		A	14507198	A	A	14507198	3	1	25	1	0	0	0	0	1	0	0	0	3052	1116	39	1	409	1	CD97	19	14507198	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	506311	14507198	44621785	1007	22007											
BRD4	23476	broad.mit.edu	37	chr19	15349730	15349730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgctgctgctcctggcGccgacgtgcctcctcatggg	2	10	13	16	3	1	0	1	0	0	0	3	1	3	0	4	2	5	4	4	2	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:15349730G>A	uc002nar.2	-	19	4066	c.3844C>T	c.(3844-3846)CGC>TGC	p.R1282C		NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	1282					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			tgctcctgGCGCCGACGTGCC	0.522			T	NUT|C15orf55	lethal midline carcinoma of young people								4	12					0	0	0.001168	0	0		A	15349730	A	A	15349730	3	1	25	1	0	0	0	0	1	0	0	0	1507	1087	38	1	252	1	BRD4	19	15349730	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	842532	15349730	43779253	1008	22008											
C19orf44	84167	broad.mit.edu	37	chr19	16611979	16611979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcaatgaccgccgatgctGgtcttccaaagagagctgac	11	8	10	12	2	2	3	1	2	1	1	3	5	3	3	3	1	2	2	3	1	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:16611979G>A	uc002neh.1	+	2	449	c.376G>A	c.(376-378)GGT>AGT	p.G126S	MED26_uc002nee.2_Intron|C19orf44_uc002nef.1_Missense_Mutation_p.G126S|C19orf44_uc002neg.2_Missense_Mutation_p.G126S|C19orf44_uc010eai.1_RNA	NM_032207	NP_115583	Q9H6X5	CS044_HUMAN	hypothetical protein LOC84167	126											0						CGCCGATGCTGGTCTTCCAAA	0.537													4	83					0	0	0.013726	0	0		A	16611979	A	A	16611979	3	1	25	1	0	0	0	0	1	0	0	0	1930	1348	47	4	378	4	C19orf44	19	16611979	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1262249	16611979	42517004	1009	22009											
MED26	9441	broad.mit.edu	37	chr19	16687979	16687979	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgcacggcgttgacggggAtcttgccactgtgcttgtca	5	11	14	11	4	2	1	1	1	1	0	3	2	2	2	1	3	2	3	1	3	0	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:16687979A>C	uc002nen.1	-	3	923	c.662T>G	c.(661-663)ATC>AGC	p.I221S	MED26_uc002nee.2_RNA	NM_004831	NP_004822	O95402	MED26_HUMAN	mediator complex subunit 26	221					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|RNA polymerase II transcription cofactor activity|transcription coactivator activity			ovary(2)	2						GTTGACGGGGATCTTGCCACT	0.667													7	188					0	0	0.001984	0	0		C	16687979	C	C	16687979	3	2	25	1	0	0	0	0	1	0	0	0	9462	333	12	5	1144	5	MED26	19	16687979	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	76000	16687979	42441004	1010	22010											
ANO8	57719	broad.mit.edu	37	chr19	17438603	17438603	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaggttgttgaccagggcGcacagcgccgccagggggaa	9	5	17	10	3	0	2	0	2	0	0	0	3	0	3	3	4	1	3	3	4	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:17438603G>A	uc002ngf.2	-	14	2472	c.2313C>T	c.(2311-2313)TGC>TGT	p.C771C	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	771	Helical; (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						TGACCAGGGCGCACAGCGCCG	0.647													28	198					0	0	0.005443	0	0		A	17438603	A	A	17438603	2	1	25	1	0	0	0	0	0	0	0	1	703	1079	38	1		1	ANO8	19	17438603	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	750624	17438603	41690380	1011	22011											
PLVAP	83483	broad.mit.edu	37	chr19	17476403	17476403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgcgttcgatatccgcccGgaggctccgggccagctcct	5	7	12	17	6	0	0	0	0	0	0	4	2	3	1	5	3	1	3	5	3	1	2	rs141514915		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:17476403G>A	uc002ngk.1	-	3	921	c.871C>T	c.(871-873)CGG>TGG	p.R291W		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	291	Potential.|Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						ATATCCGCCCGGAGGCTCCGG	0.657													17	89					0	0	0.010504	0	0		A	17476403	A	A	17476403	3	1	25	1	0	0	0	0	1	0	0	0	12135	1115	39	1	473	1	PLVAP	19	17476403	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	37800	17476403	41652580	1012	22012											
SLC27A1	376497	broad.mit.edu	37	chr19	17608216	17608216	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcttcggcgtacgccaaatCggggagttctacggcgccac	7	7	13	14	7	1	0	0	0	1	0	3	1	1	1	2	4	2	3	2	4	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:17608216C>T	uc002ngu.1	+	7	1199	c.1149C>T	c.(1147-1149)ATC>ATT	p.I383I	SLC27A1_uc002ngt.1_Silent_p.I115I|SLC27A1_uc010xpp.1_Silent_p.I204I|SLC27A1_uc002ngv.1_5'UTR	NM_198580	NP_940982	Q6PCB7	S27A1_HUMAN	solute carrier family 27, member 1	383	Sufficient for oligomerization (By similarity).|Cytoplasmic (Potential).				cardiolipin biosynthetic process|fatty acid metabolic process|long-chain fatty acid transport|negative regulation of phospholipid biosynthetic process|phosphatidic acid biosynthetic process|phosphatidylcholine biosynthetic process|phosphatidylethanolamine biosynthetic process|phosphatidylinositol biosynthetic process|phosphatidylserine biosynthetic process|transmembrane transport	endomembrane system|integral to membrane	fatty acid transporter activity|nucleotide binding				0						TACGCCAAATCGGGGAGTTCT	0.687													14	46					0	0	0.003163	0	0		T	17608216	T	T	17608216	2	4	25	1	0	0	0	0	0	0	0	1	14550	874	31	1		1	SLC27A1	19	17608216	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	131813	17608216	41520767	1013	22013											
PGLS	25796	broad.mit.edu	37	chr19	17626983	17626983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccctctgttggctgcagaCgcatcttctctccagactgc	5	12	9	15	1	3	2	0	0	3	2	6	2	5	2	2	1	2	4	2	1	0	2	rs143569199		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:17626983C>T	uc002ngw.2	+	2	340	c.290C>T	c.(289-291)ACG>ATG	p.T97M		NM_012088	NP_036220	O95336	6PGL_HUMAN	6-phosphogluconolactonase	97						cytosol	6-phosphogluconolactonase activity				0						TGGCTGCAGACGCATCTTCTC	0.433													9	34					0	0	0.006214	0	0		T	17626983	T	T	17626983	3	4	25	1	0	0	0	0	1	0	0	0	11811	550	19	1	296	1	PGLS	19	17626983	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	18767	17626983	41502000	1014	22014											
IL12RB1	3594	broad.mit.edu	37	chr19	18179309	18179309	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acttttcctgccccattgccCcagactctcgactccagctg	6	11	6	18	1	1	1	0	0	1	1	4	2	3	1	6	0	3	1	6	0	0	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:18179309C>A	uc002nhw.1	-	11	1281	c.1217G>T	c.(1216-1218)GGG>GTG	p.G406V	IL12RB1_uc010xqb.1_Missense_Mutation_p.G406V|IL12RB1_uc002nhx.1_Missense_Mutation_p.G446V	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1	406	Extracellular (Potential).|Fibronectin type-III 4.				cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1						CCCCATTGCCCCAGACTCTCG	0.438													46	261					8.48111e-28	9.243e-28	0.01441	1	0		A	18179309	A	A	18179309	3	1	25	1	0	0	0	0	1	0	0	0	7642	623	22	5	799	5	IL12RB1	19	18179309	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	552326	18179309	40949674	1015	22015											
GMIP	51291	broad.mit.edu	37	chr19	19744834	19744834	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagatctgctcgtagtgcacGatgaggaactccacaagctg	12	8	11	10	2	1	2	0	1	1	1	3	4	2	3	1	1	4	4	1	1	4	1	rs138372356		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:19744834G>A	uc002nnd.2	-	19	2367	c.2250C>T	c.(2248-2250)ATC>ATT	p.I750I	GMIP_uc010xrb.1_Silent_p.I724I|GMIP_uc010xrc.1_Silent_p.I721I	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	750	Rho-GAP.				negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						CGTAGTGCACGATGAGGAACT	0.498													24	105					0	0	0.00632	0	0		A	19744834	A	A	19744834	2	1	25	1	0	0	0	0	0	0	0	1	6506	1048	37	1		1	GMIP	19	19744834	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1565525	19744834	39384149	1016	22016											
ZNF431	170959	broad.mit.edu	37	chr19	21365877	21365877	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagagaattcatactggagaGaaacccttcaaatgtgaaga	18	8	9	6	0	2	4	2	1	0	3	2	7	2	5	1	1	2	0	1	1	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:21365877G>A	uc002npp.2	+	5	918	c.771G>A	c.(769-771)GAG>GAA	p.E257E	ZNF431_uc010ecq.2_Silent_p.E166E|ZNF431_uc010ecr.2_Silent_p.E258E	NM_133473	NP_597730	Q8TF32	ZN431_HUMAN	zinc finger protein 431	257					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2						ATACTGGAGAGAAACCCTTCA	0.368													25	105					0	0	0.021523	0	0		A	21365877	A	A	21365877	2	1	25	1	0	0	0	0	0	0	0	1	17930	933	33	4		4	ZNF431	19	21365877	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1621043	21365877	37763106	1017	22017											
ZNF676	163223	broad.mit.edu	37	chr19	22379411	22379411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttattctcacccaggaagaCcaggtttctgtagttctcta	9	14	8	10	0	3	1	1	0	3	1	5	2	3	2	2	2	0	4	2	2	4	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:22379411C>T	uc002nqs.1	-	1	343	c.25G>A	c.(25-27)GTC>ATC	p.V9I		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	9	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CCCAGGAAGACCAGGTTTCTG	0.318													47	280					0	0	0.01441	0	0		T	22379411	T	T	22379411	3	4	25	1	0	0	0	0	1	0	0	0	18108	507	18	4	1753	4	ZNF676	19	22379411	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1013534	22379411	36749572	1018	22018											
ANKRD27	84079	broad.mit.edu	37	chr19	33110407	33110407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggctgacttacctcggacGacttctgcctcctctcgaag	6	10	9	16	4	2	1	0	1	2	0	5	4	3	2	4	2	2	1	4	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:33110407G>A	uc002ntn.1	-	19	2036	c.1880C>T	c.(1879-1881)TCG>TTG	p.S627L		NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	627	ANK 6.				early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					TACCTCGGACGACTTCTGCCT	0.582													34	143					0	0	0.019004	0	0		A	33110407	A	A	33110407	3	1	25	1	0	0	0	0	1	0	0	0	655	1059	37	1	1316	1	ANKRD27	19	33110407	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	10730996	33110407	26018576	1019	22019											
LRP3	4037	broad.mit.edu	37	chr19	33687652	33687652	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgaacatctttctcacCgggagactcagcagtgcggt	10	9	11	11	2	3	2	2	1	2	1	4	3	3	2	1	2	3	1	1	2	1	1	rs138753598		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:33687652C>T	uc010edh.2	+	2	183	c.90C>T	c.(88-90)ACC>ACT	p.T30T	LRP3_uc010xrp.1_5'UTR	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	30					receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					TCTTTCTCACCGGGAGACTCA	0.542													29	157					0	0	0.009535	0	0		T	33687652	T	T	33687652	2	4	25	1	0	0	0	0	0	0	0	1	8976	639	23	1		1	LRP3	19	33687652	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	577245	33687652	25441331	1020	22020											
TMEM147	10430	broad.mit.edu	37	chr19	36036859	36036859	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctttgtccaactctgcaaGgtgagggccaccgggaagcc	8	8	12	13	1	2	1	0	1	2	0	3	2	3	2	4	3	3	1	4	3	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:36036859G>A	uc002oaj.1	+	2	244	c.147G>A	c.(145-147)AAG>AAA	p.K49K	uc010eec.1_5'Flank|uc002oag.2_RNA|TMEM147_uc002oai.1_5'UTR|TMEM147_uc002oak.1_5'UTR	NM_032635	NP_116024	Q9BVK8	TM147_HUMAN	transmembrane protein 147	49	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	protein binding				0	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			AACTCTGCAAGGTGAGGGCCA	0.642													9	20					0	0	0.004482	0	0		A	36036859	A	A	36036859	2	1	25	1	0	0	0	0	0	0	0	1	16086	1014	35	4		4	TMEM147	19	36036859	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2349207	36036859	23092124	1021	22021											
RBM42	79171	broad.mit.edu	37	chr19	36122057	36122057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacaggtccagcagactctgGaggcccgagcagctgctgca	9	5	14	13	1	1	1	0	0	1	1	2	4	2	2	2	3	5	5	2	3	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:36122057G>A	uc002oan.2	+	3	374	c.298G>A	c.(298-300)GAG>AAG	p.E100K	RBM42_uc010xsx.1_Missense_Mutation_p.E100K|RBM42_uc010eef.2_Missense_Mutation_p.E100K|RBM42_uc002oao.2_Missense_Mutation_p.E100K|RBM42_uc002oap.2_Missense_Mutation_p.E100K|RBM42_uc002oaq.2_Missense_Mutation_p.E100K|RBM42_uc010eeg.2_Missense_Mutation_p.E100K	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	100						cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GCAGACTCTGGAGGCCCGAGC	0.602													7	135					0	0	0.004482	0	0		A	36122057	A	A	36122057	3	1	25	1	0	0	0	0	1	0	0	0	13161	1175	41	4	308	4	RBM42	19	36122057	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	85198	36122057	23006926	1022	22022											
LRFN3	79414	broad.mit.edu	37	chr19	36435796	36435796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtttgctcccagaccaacGgcgccctgggccccacgccc	5	5	11	20	4	0	1	0	0	0	1	1	1	1	1	6	2	2	2	6	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:36435796G>A	uc002oco.2	+	3	2214	c.1762G>A	c.(1762-1764)GGC>AGC	p.G588S		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	588	Cytoplasmic (Potential).				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CCAGACCAAcggcgccctggg	0.478													5	22					0	0	0.014758	0	0		A	36435796	A	A	36435796	3	1	25	1	0	0	0	0	1	0	0	0	8957	1116	39	1	1768	1	LRFN3	19	36435796	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	313739	36435796	22693187	1023	22023											
ZNF146	7705	broad.mit.edu	37	chr19	36727221	36727221	+	Translation_Start_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgcatttgggagatcatAcacagagaagccttataaat	14	11	8	8	0	2	2	1	0	1	2	2	4	2	2	1	1	3	1	1	1	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:36727221A>G	uc002odq.3	+	4	1402	c.-121A>G	c.(-123--119)ATACA>ATGCA		ZNF146_uc010eet.2_Translation_Start_Site|ZNF146_uc010eeu.2_Translation_Start_Site	NM_007145	NP_009076	Q15072	OZF_HUMAN	zinc finger protein 146						regulation of transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|heparin binding|zinc ion binding				0	Esophageal squamous(110;0.162)					GGGAGATCATACACAGAGAAG	0.333													4	10					0	0	0.009096	0	0		G	36727221	G	G	36727221	1	3	25	1	0	0	0	0	0	0	0	0	17758	406	14	3		3	ZNF146	19	36727221	Translation_Start_Site	SNP	A	TCGA-BR-4370-01A-01D-1158-08	291425	36727221	22401762	1024	22024											
SIPA1L3	23094	broad.mit.edu	37	chr19	38572401	38572401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccgccaccgccaccaccCgccccagccccaccactccc	7	1	4	29	3	0	0	0	0	0	0	1	0	1	0	13	0	1	0	13	0	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:38572401C>T	uc002ohk.2	+	3	705	c.196C>T	c.(196-198)CGC>TGC	p.R66C		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	66					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			cgccaccaccCGCCCCAGCCC	0.577													7	25					0	0	0.008291	0	0		T	38572401	T	T	38572401	3	4	25	1	0	0	0	0	1	0	0	0	14356	652	23	1	198	1	SIPA1L3	19	38572401	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1845180	38572401	20556582	1025	22025											
RYR1	6261	broad.mit.edu	37	chr19	38976748	38976748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaggatgctgggggaggCggtgcgcgacggtgggcagc	6	5	22	8	4	0	1	0	1	0	0	0	4	0	3	0	7	3	2	0	7	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:38976748C>T	uc002oit.2	+	34	5583	c.5453C>T	c.(5452-5454)GCG>GTG	p.A1818V	RYR1_uc002oiu.2_Missense_Mutation_p.A1818V	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1818	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CTGGGGGAGGCGGTGCGCGAC	0.706													33	176					0	0	0.019004	0	0		T	38976748	T	T	38976748	3	4	25	1	0	0	0	0	1	0	0	0	13793	768	27	1	5587	1	RYR1	19	38976748	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	404347	38976748	20152235	1026	22026											
RYR1	6261	broad.mit.edu	37	chr19	39010019	39010019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagggcgagctgctggtgcGggacgagttctctgtgctct	4	10	18	9	3	2	0	0	0	2	0	3	4	2	2	0	4	4	4	0	4	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:39010019G>A	uc002oit.2	+	67	10314	c.10184G>A	c.(10183-10185)CGG>CAG	p.R3395Q	RYR1_uc002oiu.2_Missense_Mutation_p.R3395Q|RYR1_uc002oiv.1_Missense_Mutation_p.R315Q|RYR1_uc010xuf.1_Missense_Mutation_p.R315Q	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3395					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CTGCTGGTGCGGGACGAGTTC	0.682													5	20					0	0	0.00308	0	0		A	39010019	A	A	39010019	3	1	25	1	0	0	0	0	1	0	0	0	13793	1116	39	1	10450	1	RYR1	19	39010019	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	33271	39010019	20118964	1027	22027											
SIRT2	22933	broad.mit.edu	37	chr19	39380359	39380359	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggatagagttccttggcGagggcgaagaagggttccgg	9	7	17	8	3	0	2	0	0	0	2	2	5	2	3	3	5	0	2	3	5	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:39380359G>A	uc002ojt.1	-	7	602	c.402C>T	c.(400-402)CTC>CTT	p.L134L	SIRT2_uc010egh.1_Silent_p.L97L|SIRT2_uc010egi.1_Silent_p.L97L|SIRT2_uc002ojs.1_Silent_p.L114L|SIRT2_uc002oju.1_Silent_p.L97L|SIRT2_uc010egj.1_Silent_p.L97L|SIRT2_uc002ojv.1_Silent_p.L132L	NM_012237	NP_036369	Q8IXJ6	SIRT2_HUMAN	sirtuin 2 isoform 1	134	Deacetylase sirtuin-type.				cell division|chromatin silencing at rDNA|chromatin silencing at telomere|mitosis|negative regulation of striated muscle tissue development|protein ADP-ribosylation|regulation of exit from mitosis|regulation of phosphorylation|response to redox state	chromatin silencing complex|cytoplasm|microtubule	histone acetyltransferase binding|histone deacetylase binding|NAD+ binding|NAD-dependent histone deacetylase activity|transcription factor binding|tubulin deacetylase activity|ubiquitin binding|zinc ion binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00125)|LUSC - Lung squamous cell carcinoma(53;0.00191)			GTTCCTTGGCGAGGGCGAAGA	0.602													21	82					0	0	0.004656	0	0		A	39380359	A	A	39380359	2	1	25	1	0	0	0	0	0	0	0	1	14363	1045	37	1		1	SIRT2	19	39380359	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	370340	39380359	19748624	1028	22028											
PLEKHG2	64857	broad.mit.edu	37	chr19	39905680	39905680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaggttctgggagctccaCatccctgagcacagtgggct	7	8	13	13	1	1	1	0	1	1	0	3	3	3	2	3	3	2	4	3	3	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:39905680C>T	uc010xuz.1	+	3	483	c.158C>T	c.(157-159)ACA>ATA	p.T53I	PLEKHG2_uc010xuy.1_Intron|PLEKHG2_uc002olj.2_Missense_Mutation_p.T53I|PLEKHG2_uc010xva.1_5'Flank	NM_022835	NP_073746	Q9H7P9	PKHG2_HUMAN	common-site lymphoma/leukemia guanine nucleotide	53					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			skin(2)|pancreas(1)|breast(1)	4	all_cancers(60;3.08e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;6.57e-07)|Ovarian(47;0.0569)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GGGAGCTCCACATCCCTGAGC	0.672													5	13					0	0	0.014758	0	0		T	39905680	T	T	39905680	3	4	25	1	0	0	0	0	1	0	0	0	12088	478	17	4	164	4	PLEKHG2	19	39905680	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	525321	39905680	19223303	1029	22029											
LGALS14	56891	broad.mit.edu	37	chr19	40197275	40197275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttccttgcctgttggttcGtgcgtgataatcacagggac	6	14	12	9	2	1	1	1	1	0	0	3	2	2	2	2	2	2	3	2	2	1	5	rs146704740	byFrequency	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:40197275G>A	uc002omg.2	+	2	277	c.54G>A	c.(52-54)TCG>TCA	p.S18S	LGALS14_uc002omf.2_Silent_p.S47S	NM_020129	NP_064514	Q8TCE9	PPL13_HUMAN	lectin, galactoside-binding, soluble, 14 isoform	18	Galectin.					nucleus	sugar binding			ovary(1)|skin(1)	2	all_cancers(60;4.39e-06)|all_lung(34;6.76e-08)|Lung NSC(34;7.98e-08)|Ovarian(47;0.06)	Myeloproliferative disorder(2;0.0741)	Epithelial(26;1.08e-24)|OV - Ovarian serous cystadenocarcinoma(5;1.92e-24)|all cancers(26;4.12e-22)			CTGTTGGTTCGTGCGTGATAA	0.502													76	271					0	0	0.01441	0	0		A	40197275	A	A	40197275	2	1	25	1	0	0	0	0	0	0	0	1	8757	1132	40	1		1	LGALS14	19	40197275	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	291595	40197275	18931708	1030	22030											
PLD3	23646	broad.mit.edu	37	chr19	40877716	40877716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccggttctatgacacccGctacaaccaagagacaccaa	13	5	7	16	2	1	2	0	1	1	1	1	3	1	2	5	1	2	2	5	1	5	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:40877716G>A	uc002onm.3	+	9	1213	c.815G>A	c.(814-816)CGC>CAC	p.R272H	PLD3_uc002onj.3_Missense_Mutation_p.R272H|PLD3_uc002onk.3_Missense_Mutation_p.R272H|PLD3_uc002onl.3_Missense_Mutation_p.R272H|PLD3_uc002onn.2_Missense_Mutation_p.R272H	NM_001031696	NP_001026866	Q8IV08	PLD3_HUMAN	phospholipase D3	272	Lumenal (Potential).				lipid catabolic process	endoplasmic reticulum membrane|integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity|protein binding			skin(2)|ovary(1)	3			Lung(22;0.000636)|LUSC - Lung squamous cell carcinoma(20;0.00248)			TATGACACCCGCTACAACCAA	0.597													24	94					0	0	0.00632	0	0		A	40877716	A	A	40877716	3	1	25	1	0	0	0	0	1	0	0	0	12066	1087	38	1	841	1	PLD3	19	40877716	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	680441	40877716	18251267	1031	22031											
MEGF8	1954	broad.mit.edu	37	chr19	42879848	42879848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcccaaattcaccaacGtggacatccgcctgacgctg	10	7	9	15	3	1	1	1	1	0	0	2	2	2	2	4	1	3	2	4	1	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:42879848G>A	uc002otl.3	+	41	7893	c.7258G>A	c.(7258-7260)GTG>ATG	p.V2420M	MEGF8_uc002otm.3_Missense_Mutation_p.V2028M|MEGF8_uc002otn.3_Missense_Mutation_p.V81M	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	2487	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				ATTCACCAACGTGGACATCCG	0.642													6	16					0	0	0.001168	0	0		A	42879848	A	A	42879848	3	1	25	1	0	0	0	0	1	0	0	0	9481	1145	40	1	7420	1	MEGF8	19	42879848	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2002132	42879848	16249135	1032	22032											
PSG6	5675	broad.mit.edu	37	chr19	43585372	43585372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtgacttgggcagtggtggGcaggttccagaagtttaaaa	10	10	15	6	1	0	2	0	1	0	1	1	2	1	2	1	4	0	4	1	4	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:43585372G>A	uc002ovi.2	-	2	184	c.91C>T	c.(91-93)CCC>TCC	p.P31S	PSG6_uc010xwk.1_Intron|PSG2_uc002ovr.2_Missense_Mutation_p.P31S|PSG2_uc002ovq.3_Missense_Mutation_p.P31S|PSG2_uc010eiq.1_Missense_Mutation_p.P31S|PSG2_uc002ovs.3_Missense_Mutation_p.P31S|PSG2_uc002ovt.3_Missense_Mutation_p.P31S			Q00889	PSG6_HUMAN	SubName: Full=Putative uncharacterized protein PSG6;	31					female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				GCAGTGGTGGGCAGGTTCCAG	0.498													82	287					0	0	0.01441	0	0		A	43585372	A	A	43585372	3	1	25	1	0	0	0	0	1	0	0	0	12681	1203	42	2		2	PSG6	19	43585372	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	705524	43585372	15543611	1033	22033											
RELB	5971	broad.mit.edu	37	chr19	45540995	45540995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgttccccaatcattacCgcgaggcggcctttgggggc	7	9	12	13	3	1	0	1	0	0	0	2	1	2	0	4	4	1	1	4	4	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:45540995C>T	uc002paj.1	+	13	1813	c.1687C>T	c.(1687-1689)CGC>TGC	p.R563C	SFRS16_uc002pak.2_5'Flank|SFRS16_uc002pal.2_5'Flank|SFRS16_uc010xxh.1_5'Flank|SFRS16_uc002pam.2_5'Flank|SFRS16_uc002pan.1_5'Flank	NM_006509	NP_006500	Q01201	RELB_HUMAN	reticuloendotheliosis viral oncogene homolog B	563						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00986)		CAATCATTACCGCGAGGCGGC	0.697													19	74					0	0	0.007413	0	0		T	45540995	T	T	45540995	3	4	25	1	0	0	0	0	1	0	0	0	13242	652	23	1	1725	1	RELB	19	45540995	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1955623	45540995	13587988	1034	22034											
ZNF296	162979	broad.mit.edu	37	chr19	45575762	45575762	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccgtggtcccactgggcGtgacgcagcagcttccaggc	6	7	14	14	3	0	1	0	1	0	0	3	1	3	1	3	3	2	3	3	3	0	1	rs140362077	by1000genomes	TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:45575762G>A	uc002pao.2	-	3	582	c.525C>T	c.(523-525)CAC>CAT	p.H175H		NM_145288	NP_660331	Q8WUU4	ZN296_HUMAN	zinc finger protein 296	175	C2H2-type 1.				regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCCACTGGGCGTGACGCAGCA	0.632													21	140					0	0	0.014323	0	0		A	45575762	A	A	45575762	2	1	25	1	0	0	0	0	0	0	0	1	17853	1136	40	1		1	ZNF296	19	45575762	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	34767	45575762	13553221	1035	22035											
RTN2	6253	broad.mit.edu	37	chr19	45989353	45989353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgattggtcaccaaccccaCatattggtcgatctgagcct	9	11	8	13	1	2	2	1	2	1	0	3	3	2	2	4	2	2	0	4	2	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:45989353C>T	uc002pcb.2	-	10	1744	c.1516G>A	c.(1516-1518)GTG>ATG	p.V506M	RTN2_uc002pcc.2_Missense_Mutation_p.V433M|RTN2_uc002pcd.2_RNA	NM_005619	NP_005610	O75298	RTN2_HUMAN	reticulon 2 isoform A	506	Reticulon.					integral to endoplasmic reticulum membrane	signal transducer activity			ovary(3)	3		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00829)|Epithelial(262;0.184)|GBM - Glioblastoma multiforme(486;0.246)		ACCAACCCCACATATTGGTCG	0.532											OREG0025555	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	63					0	0	0.006214	0	0		T	45989353	T	T	45989353	3	4	25	1	0	0	0	0	1	0	0	0	13751	478	17	4	129	4	RTN2	19	45989353	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	413591	45989353	13139630	1036	22036											
OPA3	80207	broad.mit.edu	37	chr19	46088103	46088103	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcctcccccgccctctcGtggccatgcgtgcgtcagta	4	9	9	19	4	2	0	1	0	1	0	5	0	4	0	5	1	2	1	5	1	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:46088103G>A	uc002pck.3	-	1	20	c.-80C>T	c.(-82--78)CACGA>CATGA		OPA3_uc002pcj.3_Translation_Start_Site|OPA3_uc010xxk.1_Intron	NM_025136	NP_079412	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform b						response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)		CCGCCCTCTCGTGGCCATGCG	0.652													9	32					0	0	0.010729	0	0		A	46088103	A	A	46088103	1	1	25	1	0	0	0	0	0	0	0	0	10891	1160	40	1		1	OPA3	19	46088103	Translation_Start_Site	SNP	G	TCGA-BR-4370-01A-01D-1158-08	98750	46088103	13040880	1037	22037											
FBXO46	23403	broad.mit.edu	37	chr19	46215117	46215117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtagggcttggggtgccagCggcagagcgacacgtcgccc	6	5	18	12	4	0	1	0	0	0	1	1	2	0	1	2	5	3	3	2	5	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:46215117C>T	uc002pcy.2	-	2	1762	c.1637G>A	c.(1636-1638)CGC>CAC	p.R546H	FBXO46_uc002pcz.2_Missense_Mutation_p.R546H	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	546							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		GGGGTGCCAGCGGCAGAGCGA	0.667													11	53					0	0	0.016723	0	0		T	46215117	T	T	46215117	3	4	25	1	0	0	0	0	1	0	0	0	5769	768	27	1	178	1	FBXO46	19	46215117	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	127014	46215117	12913866	1038	22038											
PGLYRP1	8993	broad.mit.edu	37	chr19	46526000	46526000	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgccacactcacttgtagcCcacgtcgcaccagcccagtg	8	7	8	18	2	1	0	1	0	0	0	2	0	1	0	4	0	3	2	4	0	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:46526000C>G	uc002pdx.1	-	1	324	c.280G>C	c.(280-282)GGC>CGC	p.G94R		NM_005091	NP_005082	O75594	PGRP1_HUMAN	peptidoglycan recognition protein 1 precursor	94					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region	bacterial cell surface binding|N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(2)	2		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.0036)|GBM - Glioblastoma multiforme(486;0.022)|Epithelial(262;0.208)		CACTTGTAGCCCACGTCGCAC	0.662													11	117					0	0	0.013537	0	0		G	46526000	G	G	46526000	3	3	25	1	0	0	0	0	1	0	0	0	11812	623	22	5	322	5	PGLYRP1	19	46526000	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	310883	46526000	12602983	1039	22039											
LIG1	3978	broad.mit.edu	37	chr19	48620961	48620961	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacttcacctcccacacagcGctggggtccagccagtggtc	7	7	10	17	1	1	0	1	0	0	0	4	0	3	0	4	3	2	1	4	3	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:48620961G>A	uc002pia.1	-	26	2637	c.2517C>T	c.(2515-2517)AGC>AGT	p.S839S	LIG1_uc010xze.1_Silent_p.S532S|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Silent_p.S771S|LIG1_uc010xzg.1_Silent_p.S808S	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	839					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	CCCACACAGCGCTGGGGTCCA	0.662								NER					14	24					0	0	0.004007	0	0		A	48620961	A	A	48620961	2	1	25	1	0	0	0	0	0	0	0	1	8797	1078	38	1		1	LIG1	19	48620961	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2094961	48620961	10508022	1040	22040											
GRIN2D	2906	broad.mit.edu	37	chr19	48919411	48919411	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtccccctcggccttcctCggtaatctggggccctggga	3	10	13	15	2	1	0	0	0	1	0	5	1	3	1	5	5	0	1	5	5	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:48919411C>T	uc002pjc.3	+	7	1822	c.1734C>T	c.(1732-1734)CTC>CTT	p.L578L		NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	578	Extracellular (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		all_epithelial(76;1.11e-06)|all_lung(116;5.79e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		all cancers(93;0.00014)|OV - Ovarian serous cystadenocarcinoma(262;0.000233)|Epithelial(262;0.0112)|GBM - Glioblastoma multiforme(486;0.0161)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	CGGCCTTCCTCGGTAATCTGG	0.527													7	71					0	0	0.001984	0	0		T	48919411	T	T	48919411	2	4	25	1	0	0	0	0	0	0	0	1	6798	898	31	1		1	GRIN2D	19	48919411	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	298450	48919411	10209572	1041	22041											
FUT1	2523	broad.mit.edu	37	chr19	49254356	49254356	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggaggcgttggggcccatCgcagtacccggcaggcagaa	9	4	17	11	3	0	1	0	0	0	1	1	3	0	2	2	6	1	5	2	6	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:49254356C>T	uc002pkk.2	-	4	1158	c.183G>A	c.(181-183)GCG>GCA	p.A61A		NM_000148	NP_000139	P19526	FUT1_HUMAN	fucosyltransferase 1	61	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to plasma membrane|membrane fraction	galactoside 2-alpha-L-fucosyltransferase activity			ovary(1)	1		all_lung(116;1.7e-06)|all_epithelial(76;3.52e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000135)|all cancers(93;0.000354)|Epithelial(262;0.0191)|GBM - Glioblastoma multiforme(486;0.0222)		TGGGGCCCATCGCAGTACCCG	0.622													23	82					0	0	0.01892	0	0		T	49254356	T	T	49254356	2	4	25	1	0	0	0	0	0	0	0	1	6115	871	31	1		1	FUT1	19	49254356	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	334945	49254356	9874627	1042	22042											
PPFIA3	8541	broad.mit.edu	37	chr19	49646088	49646088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcatgcctgcctggtatGtggccgcctgccgggccaat	4	9	15	13	2	0	0	0	0	0	0	0	0	0	0	6	4	3	2	6	4	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:49646088G>A	uc002pmr.2	+	21	2904	c.2572G>A	c.(2572-2574)GTG>ATG	p.V858M	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_Missense_Mutation_p.V726M|PPFIA3_uc002pmt.2_Missense_Mutation_p.V6M	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	858	SAM 1.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		TGCCTGGTATGTGGCCGCCTG	0.438													15	138					0	0	0.00499	0	0		A	49646088	A	A	49646088	3	1	25	1	0	0	0	0	1	0	0	0	12330	1377	48	4	2650	4	PPFIA3	19	49646088	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	391732	49646088	9482895	1043	22043											
RCN3	57333	broad.mit.edu	37	chr19	50031892	50031892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccacgggaacttccagtacGaccatgaggctttcctggga	9	8	11	13	2	0	1	0	1	0	0	2	4	2	3	4	3	2	2	4	3	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:50031892G>A	uc002poj.2	+	2	610	c.163G>A	c.(163-165)GAC>AAC	p.D55N		NM_020650	NP_065701	Q96D15	RCN3_HUMAN	reticulocalbin 3, EF-hand calcium binding domain	55						endoplasmic reticulum lumen	calcium ion binding|protein binding			ovary(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00295)|GBM - Glioblastoma multiforme(134;0.0159)		CTTCCAGTACGACCATGAGGC	0.642													38	166					0	0	0.006999	0	0		A	50031892	A	A	50031892	3	1	25	1	0	0	0	0	1	0	0	0	13206	1058	37	1	165	1	RCN3	19	50031892	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	385804	50031892	9097091	1044	22044											
FUZ	80199	broad.mit.edu	37	chr19	50312814	50312814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcgtgcccgcggcctcagCgaacccggagagggcttcct	5	6	15	15	5	1	1	1	0	0	1	3	3	2	1	4	4	3	1	4	4	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:50312814C>T	uc002ppq.1	-	6	616	c.511G>A	c.(511-513)GCT>ACT	p.A171T	FUZ_uc002ppr.1_Missense_Mutation_p.A71T|FUZ_uc002pps.1_RNA|FUZ_uc002ppt.1_RNA|FUZ_uc002ppu.1_Missense_Mutation_p.A135T|FUZ_uc002ppv.1_Missense_Mutation_p.A121T	NM_025129	NP_079405	Q9BT04	FUZZY_HUMAN	fuzzy homolog	171					cilium assembly|embryonic body morphogenesis|embryonic skeletal system morphogenesis|establishment of planar polarity|hair follicle development|neural tube closure|protein transport|regulation of smoothened signaling pathway	cytoplasm|cytoskeleton					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00793)|GBM - Glioblastoma multiforme(134;0.0116)		GCGGCCTCAGCGAACCCGGAG	0.687													5	21					0	0	0.014758	0	0		T	50312814	T	T	50312814	3	4	25	1	0	0	0	0	1	0	0	0	6126	768	27	1	769	1	FUZ	19	50312814	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	280922	50312814	8816169	1045	22045											
NAPSA	9476	broad.mit.edu	37	chr19	50864364	50864364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctcccagagagcctcccCgaaaatcactgatgcaccct	10	6	9	16	1	1	2	1	1	0	1	3	4	3	2	5	1	2	2	5	1	2	0	rs141372464		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:50864364C>T	uc002prx.2	-	5	555	c.502G>A	c.(502-504)GGG>AGG	p.G168R	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	168					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		AGAGCCTCCCCGAAAATCACT	0.517													47	221					0	0	0.01441	0	0		T	50864364	T	T	50864364	3	4	25	1	0	0	0	0	1	0	0	0	10184	652	23	1	780	1	NAPSA	19	50864364	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	551550	50864364	8264619	1046	22046											
KLK6	5653	broad.mit.edu	37	chr19	51466663	51466663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagagagtttggctgggcGtgccaggcgcaacagcatga	9	8	15	9	2	1	2	1	1	0	1	1	3	1	2	1	3	3	4	1	3	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:51466663G>A	uc002pui.2	-	5	600	c.340C>T	c.(340-342)CGC>TGC	p.R114C	KLK6_uc010eoj.2_Intron|KLK6_uc002puh.2_Missense_Mutation_p.R123C|KLK6_uc002puj.2_Missense_Mutation_p.R7C|KLK6_uc010ycn.1_Missense_Mutation_p.R7C|KLK6_uc002pul.2_Missense_Mutation_p.R114C|KLK6_uc002pum.2_Missense_Mutation_p.R7C	NM_001012964	NP_001012982	Q92876	KLK6_HUMAN	kallikrein-related peptidase 6 isoform A	114	Peptidase S1.				amyloid precursor protein metabolic process|central nervous system development|collagen catabolic process|hormone metabolic process|myelination|positive regulation of G-protein coupled receptor protein signaling pathway|protein autoprocessing|proteolysis|regulation of cell differentiation|tissue regeneration	endoplasmic reticulum|extracellular region|microsome|mitochondrion|nucleolus	protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00372)|GBM - Glioblastoma multiforme(134;0.00871)		TTGGCTGGGCGTGCCAGGCGC	0.612													13	82					0	0	0.004007	0	0		A	51466663	A	A	51466663	3	1	25	1	0	0	0	0	1	0	0	0	8424	1145	40	1	406	1	KLK6	19	51466663	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	602299	51466663	7662320	1047	22047											
SIGLEC10	89790	broad.mit.edu	37	chr19	51918646	51918646	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagaccaggcacaggctttgGccctccagtactgggagaga	10	6	13	12	0	0	2	0	0	0	2	1	4	1	3	3	4	1	3	3	4	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:51918646G>A	uc002pwo.2	-	7	1735	c.1119C>T	c.(1117-1119)GGC>GGT	p.G373G	SIGLEC10_uc002pwp.2_Silent_p.G315G|SIGLEC10_uc002pwq.2_Silent_p.G315G|SIGLEC10_uc002pwr.2_Silent_p.G373G|SIGLEC10_uc010ycy.1_Silent_p.G283G|SIGLEC10_uc010ycz.1_Silent_p.G325G|SIGLEC10_uc010eow.2_Silent_p.G185G|SIGLEC10_uc002pws.1_Silent_p.G209G	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	373	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		ACAGGCTTTGGCCCTCCAGTA	0.627													16	86					0	0	0.004007	0	0		A	51918646	A	A	51918646	2	1	25	1	0	0	0	0	0	0	0	1	14331	1190	42	2		2	SIGLEC10	19	51918646	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	451983	51918646	7210337	1048	22048											
ZNF665	79788	broad.mit.edu	37	chr19	53669090	53669090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggattgttaggtttgaaCgaacagtaaaggctttgcca	12	12	12	5	1	0	1	0	1	0	0	0	4	0	2	1	3	3	4	1	3	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:53669090C>T	uc010eqm.1	-	4	753	c.653G>A	c.(652-654)CGT>CAT	p.R218H		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	153	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		TAGGTTTGAACGAACAGTAAA	0.403													44	174					0	0	0.010771	0	0		T	53669090	T	T	53669090	3	4	25	1	0	0	0	0	1	0	0	0	18098	536	19	1	1387	1	ZNF665	19	53669090	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1750444	53669090	5459893	1049	22049											
PRPF31	26121	broad.mit.edu	37	chr19	54625258	54625258	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgggaccagtggaggcCgcgcctgaataccgcgtcat	8	7	15	11	4	1	2	1	2	0	0	1	4	1	4	4	3	1	0	4	3	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:54625258C>T	uc002qdh.2	+	4	654	c.258C>T	c.(256-258)GCC>GCT	p.A86A	PRPF31_uc010yek.1_Silent_p.A86A	NM_015629	NP_056444	Q8WWY3	PRP31_HUMAN	pre-mRNA processing factor 31 homolog	86					assembly of spliceosomal tri-snRNP	Cajal body|MLL1 complex|nuclear speck|U4 snRNP|U4/U6 x U5 tri-snRNP complex|U4atac snRNP	RNA binding|snRNP binding			ovary(1)	1	all_cancers(19;0.00681)|all_epithelial(19;0.00362)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CAGTGGAGGCCGCGCCTGAAT	0.622													3	24					0	0	0.009096	0	0		T	54625258	T	T	54625258	2	4	25	1	0	0	0	0	0	0	0	1	12588	639	23	1		1	PRPF31	19	54625258	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	956168	54625258	4503725	1050	22050											
TTYH1	57348	broad.mit.edu	37	chr19	54930393	54930393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catccgcttctgctgctgccGgccccccgagccccccgggt	2	7	11	21	4	1	0	0	0	1	0	2	1	2	0	8	2	4	3	8	2	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:54930393G>A	uc002qfq.2	+	2	310	c.218G>A	c.(217-219)CGG>CAG	p.R73Q	TTYH1_uc010yey.1_Missense_Mutation_p.R122Q|TTYH1_uc002qfr.2_Missense_Mutation_p.R73Q|TTYH1_uc002qft.2_Missense_Mutation_p.R73Q|TTYH1_uc002qfu.1_5'UTR	NM_020659	NP_065710	Q9H313	TTYH1_HUMAN	tweety 1 isoform 1	73	Cytoplasmic (Potential).				cell adhesion	chloride channel complex|plasma membrane	chloride channel activity|iron ion transmembrane transporter activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0767)		TGCTGCTGCCGGCCCCCCGAG	0.692													22	108					0	0	0.007291	0	0		A	54930393	A	A	54930393	3	1	25	1	0	0	0	0	1	0	0	0	16765	1116	39	1	224	1	TTYH1	19	54930393	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	305135	54930393	4198590	1051	22051											
NLRP7	199713	broad.mit.edu	37	chr19	55450873	55450873	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtcggactcctgcaccccGagcctttccaggtcctctcg	5	9	10	17	3	1	0	0	0	1	0	6	2	4	1	6	3	2	1	6	3	0	1	rs146862541		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:55450873G>A	uc002qih.3	-	4	1390	c.1314C>T	c.(1312-1314)CTC>CTT	p.L438L	NLRP7_uc002qig.3_Silent_p.L438L|NLRP7_uc002qii.3_Silent_p.L438L|NLRP7_uc010esk.2_Silent_p.L438L|NLRP7_uc010esl.2_Silent_p.L466L	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	438	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CCTGCACCCCGAGCCTTTCCA	0.667													24	106					0	0	0.005443	0	0		A	55450873	A	A	55450873	2	1	25	1	0	0	0	0	0	0	0	1	10501	1045	37	1		1	NLRP7	19	55450873	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	520480	55450873	3678110	1052	22052											
NLRP9	338321	broad.mit.edu	37	chr19	56241264	56241264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatcgccagggagggatcatCaaggctggtattttccatgt	10	11	12	8	1	2	0	2	0	0	0	4	2	3	2	2	4	0	2	2	4	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:56241264C>T	uc002qly.2	-	3	1955	c.1927G>A	c.(1927-1929)GAT>AAT	p.D643N		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	643						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		GAGGGATCATCAAGGCTGGTA	0.423													43	139					0	0	0.01441	0	0		T	56241264	T	T	56241264	3	4	25	1	0	0	0	0	1	0	0	0	10503	826	29	4	1076	4	NLRP9	19	56241264	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	790391	56241264	2887719	1053	22053											
ZNF71	58491	broad.mit.edu	37	chr19	57133642	57133642	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagccctacgtgtgcggCgagtgcggcaaggccttcag	8	6	16	11	4	1	1	1	0	0	1	1	3	1	1	2	3	4	1	2	3	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:57133642C>T	uc002qnm.3	+	3	1225	c.987C>T	c.(985-987)GGC>GGT	p.G329G		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	329	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		ACGTGTGCGGCGAGTGCGGCA	0.642													17	111					0	0	0.010504	0	0		T	57133642	T	T	57133642	2	4	25	1	0	0	0	0	0	0	0	1	18139	755	27	1		1	ZNF71	19	57133642	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	892378	57133642	1995341	1054	22054											
ZNF835	90485	broad.mit.edu	37	chr19	57175745	57175745	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcagcggtagggcttctcCtccgtgtggatgcgctggtg	3	10	16	12	4	1	0	0	0	1	0	3	1	2	1	3	4	2	4	3	4	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:57175745C>A	uc010ygo.1	-	2	888	c.888G>T	c.(886-888)GAG>GAT	p.E296D	ZNF835_uc010ygn.1_Missense_Mutation_p.E274D	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						AGGGCTTCTCCTCCGTGTGGA	0.682													8	18					1.61879e-10	1.70509e-10	0.013537	1	0		A	57175745	A	A	57175745	3	1	25	1	0	0	0	0	1	0	0	0	18211	680	24	5	793	5	ZNF835	19	57175745	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	42103	57175745	1953238	1055	22055											
ZNF671	79891	broad.mit.edu	37	chr19	58232172	58232172	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggccttcccacattcacTgcactcataaggcctttctc	10	11	5	15	0	3	0	2	0	1	0	5	0	4	0	3	2	1	1	3	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:58232172T>C	uc002qpz.3	-	4	1381	c.1282A>G	c.(1282-1284)AGT>GGT	p.S428G	ZNF776_uc002qpx.2_Intron|ZNF671_uc010eug.2_Missense_Mutation_p.S351G|ZNF671_uc010yhf.1_Missense_Mutation_p.S330G	NM_024833	NP_079109	Q8TAW3	ZN671_HUMAN	zinc finger protein 671	428	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		CCACATTCACTGCACTCATAA	0.468													25	185					0	0	0.021523	0	0		C	58232172	C	C	58232172	3	2	25	1	0	0	0	0	1	0	0	0	18103	1580	55	3	326	3	ZNF671	19	58232172	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	1056427	58232172	896811	1056	22056											
ZNF814	730051	broad.mit.edu	37	chr19	58385329	58385329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgatggtgaacaaggctgcGcttatgactgaaagatttca	12	11	11	7	1	1	5	1	4	0	1	1	5	1	5	0	2	2	2	0	2	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:58385329G>A	uc002qqo.2	-	3	1701	c.1429C>T	c.(1429-1431)CGC>TGC	p.R477C	ZNF814_uc002qqk.2_Intron|ZNF814_uc010yhl.1_Intron	NM_001144989	NP_001138461	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	477	C2H2-type 10.				regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						ACAAGGCTGCGCTTATGACTG	0.448													18	69					0	0	0.00499	0	0		A	58385329	A	A	58385329	3	1	25	1	0	0	0	0	1	0	0	0	18201	1087	38	1	1142	1	ZNF814	19	58385329	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	153157	58385329	743654	1057	22057											
SLC27A5	10998	broad.mit.edu	37	chr19	59021257	59021257	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacgacaagtcccatcacGtggtacagaggcaggaccgt	12	5	11	13	3	1	1	1	0	0	1	2	3	2	2	3	3	2	2	3	3	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:59021257G>A	uc002qtc.2	-	3	1124	c.1014C>T	c.(1012-1014)CAC>CAT	p.H338H		NM_012254	NP_036386	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid	338	Cytoplasmic (Probable).				bile acid and bile salt transport|bile acid biosynthetic process|very long-chain fatty acid metabolic process	endoplasmic reticulum membrane|integral to membrane	ATP binding|cholate-CoA ligase activity|long-chain fatty acid-CoA ligase activity				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.181)		GTCCCATCACGTGGTACAGAG	0.562													6	47					0	0	0.004482	0	0		A	59021257	A	A	59021257	2	1	25	1	0	0	0	0	0	0	0	1	14554	1136	40	1		1	SLC27A5	19	59021257	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	635928	59021257	107726	1058	22058											
ZBTB45	84878	broad.mit.edu	37	chr19	59028288	59028288	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagggggctcctcgcacgcGctgtcagcagcagcagtgag	7	5	16	13	3	1	1	1	1	0	0	3	1	2	1	1	2	3	7	1	2	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr19:59028288G>A	uc002qtd.2	-	2	1045	c.753C>T	c.(751-753)AGC>AGT	p.S251S	ZBTB45_uc002qte.2_Silent_p.S251S|ZBTB45_uc002qtf.2_Silent_p.S251S	NM_032792	NP_116181	Q96K62	ZBT45_HUMAN	zinc finger and BTB domain containing 45	251					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0165)|Lung(386;0.18)		CCTCGCACGCGCTGTCAGCAG	0.652											OREG0025700	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	84	339					0	0	0.01441	0	0		A	59028288	A	A	59028288	2	1	25	1	0	0	0	0	0	0	0	1	17571	1078	38	1		1	ZBTB45	19	59028288	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	7031	59028288	100695	1059	22059											
SIRPD	128646	broad.mit.edu	37	chr20	1532450	1532450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagagagatttcacggatgCgggtggaaaagtctgtgttg	11	10	15	5	2	2	2	1	0	1	2	2	5	2	4	0	3	1	1	0	3	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:1532450C>T	uc002wfi.2	-	2	352	c.308G>A	c.(307-309)CGC>CAC	p.R103H		NM_178460	NP_848555	Q9H106	SIRPD_HUMAN	signal-regulatory protein delta precursor	103	Ig-like V-type.					extracellular region				ovary(1)|kidney(1)|skin(1)	3						TTCACGGATGCGGGTGGAAAA	0.458													24	119					0	0	0.004656	0	0		T	1532450	T	T	1532450	3	4	25	1	0	0	0	0	1	0	0	0	14360	768	27	1	297	1	SIRPD	20	1532450	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08		1532450	61493070	1060	22060											
HAO1	54363	broad.mit.edu	37	chr20	7875863	7875863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtttaacagcctccctggCatcatcacctggagagagta	11	10	9	11	0	2	1	2	0	0	1	3	3	3	2	3	2	2	3	3	2	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:7875863C>T	uc002wmw.1	-	5	754	c.730G>A	c.(730-732)GCC>ACC	p.A244T	HAO1_uc010gbu.2_Missense_Mutation_p.A244T	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	244	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						GCCTCCCTGGCATCATCACCT	0.512													20	87					0	0	0.009535	0	0		T	7875863	T	T	7875863	3	4	25	1	0	0	0	0	1	0	0	0	6967	710	25	2	398	2	HAO1	20	7875863	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6343413	7875863	55149657	1061	22061											
PLCB1	23236	broad.mit.edu	37	chr20	8696934	8696934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcagcaagccaagatggCggagtactgccgactgatct	13	6	12	10	2	1	2	0	1	1	1	1	4	1	3	2	2	5	3	2	2	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:8696934C>T	uc002wnb.2	+	13	1277	c.1274C>T	c.(1273-1275)GCG>GTG	p.A425V	PLCB1_uc010zrb.1_Missense_Mutation_p.A324V|PLCB1_uc002wna.2_Missense_Mutation_p.A425V|PLCB1_uc002wnc.1_Missense_Mutation_p.A324V|PLCB1_uc002wnd.1_Missense_Mutation_p.A2V	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	425	PI-PLC X-box.				activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						GCCAAGATGGCGGAGTACTGC	0.468													15	74					0	0	0.00499	0	0		T	8696934	T	T	8696934	3	4	25	1	0	0	0	0	1	0	0	0	12046	768	27	1	1324	1	PLCB1	20	8696934	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	821071	8696934	54328586	1062	22062											
SPTLC3	55304	broad.mit.edu	37	chr20	13071817	13071817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtctttgggatgggattcGcaactaactcaatgaatatc	11	13	10	7	1	2	1	1	1	1	0	4	3	2	3	0	3	2	1	0	3	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:13071817G>A	uc002wod.1	+	5	983	c.694G>A	c.(694-696)GCA>ACA	p.A232T		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	232					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	GATGGGATTCGCAACTAACTC	0.413													32	148					0	0	0.012213	0	0		A	13071817	A	A	13071817	3	1	25	1	0	0	0	0	1	0	0	0	15150	1087	38	1	712	1	SPTLC3	20	13071817	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4374883	13071817	49953703	1063	22063											
SEL1L2	80343	broad.mit.edu	37	chr20	13847380	13847380	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcatgatcttactactcCtgttcctgttgcatacatct	7	17	5	12	0	3	1	0	1	3	0	5	1	5	1	2	0	5	4	2	0	3	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:13847380C>A	uc010gcf.2	-	15	1454	c.1372G>T	c.(1372-1374)GGA>TGA	p.G458*	SEL1L2_uc002woq.3_Nonsense_Mutation_p.G319*|SEL1L2_uc010zrl.1_Nonsense_Mutation_p.G458*|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	458	Extracellular (Potential).|Sel1-like 9.					integral to membrane	binding			ovary(2)	2						CTTACTACTCCTGTTCCTGTT	0.408													40	237					1.32136e-16	1.41552e-16	0.00874	1	0		A	13847380	A	A	13847380	4	1	25	1	0	0	0	0	0	1	0	0	14036	690	24	5	718	5	SEL1L2	20	13847380	Nonsense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	775563	13847380	49178140	1064	22064											
FLRT3	23767	broad.mit.edu	37	chr20	14306569	14306569	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaccaatgatggcagccaaAggtaaattggggtttttgta	12	11	11	7	0	0	1	0	1	0	0	0	1	0	1	3	4	1	4	3	4	5	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:14306569A>C	uc002wov.1	-	3	2051	c.1584T>G	c.(1582-1584)CCT>CCG	p.P528P	MACROD2_uc002wot.2_Intron|MACROD2_uc002wou.2_Intron|FLRT3_uc002wow.1_Silent_p.P528P	NM_198391	NP_938205	Q9NZU0	FLRT3_HUMAN	fibronectin leucine rich transmembrane protein 3	528	Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			kidney(1)	1		Colorectal(1;0.0464)	COAD - Colon adenocarcinoma(2;0.129)	Colorectal(1;0.0393)		TGGCAGCCAAAGGTAAATTGG	0.463													17	143					0	0	0.010504	0	0		C	14306569	C	C	14306569	2	2	25	1	0	0	0	0	0	0	0	1	5954	59	3	5		5	FLRT3	20	14306569	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	459189	14306569	48718951	1065	22065											
PAX1	5075	broad.mit.edu	37	chr20	21687260	21687260	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgcgctacaacgagacCggctccattctgcccggggc	6	6	13	16	5	1	1	0	0	1	1	2	2	2	1	3	4	3	2	3	4	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:21687260C>T	uc002wsj.2	+	2	525	c.471C>T	c.(469-471)ACC>ACT	p.T157T	PAX1_uc010zsl.1_Silent_p.T157T|PAX1_uc010zsm.1_Silent_p.T133T	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	157	Paired.				regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						ACAACGAGACCGGCTCCATTC	0.657													26	120					0	0	0.009535	0	0		T	21687260	T	T	21687260	2	4	25	1	0	0	0	0	0	0	0	1	11497	639	23	1		1	PAX1	20	21687260	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7380691	21687260	41338260	1066	22066											
XKR7	343702	broad.mit.edu	37	chr20	30585220	30585220	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gttgcagtaccggagtgtggGgacttcccaggagctgctgg	6	9	17	9	1	0	0	0	0	0	0	1	3	1	3	2	5	4	5	2	5	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:30585220G>T	uc002wxe.2	+	3	1874	c.1700G>T	c.(1699-1701)GGG>GTG	p.G567V		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	567						integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			CGGAGTGTGGGGACTTCCCAG	0.597													21	112					1.22574e-08	1.27843e-08	0.014323	1	0		T	30585220	T	T	30585220	3	4	25	1	0	0	0	0	1	0	0	0	17462	1232	43	5	1710	5	XKR7	20	30585220	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	8897960	30585220	32440300	1067	22067											
DNMT3B	1789	broad.mit.edu	37	chr20	31386314	31386314	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgggcacaggcacagcGgccgaggccaagcttcagga	9	4	16	12	2	1	0	1	0	0	0	1	2	1	1	2	6	2	3	2	6	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:31386314G>A	uc002wyc.2	+	15	1860	c.1539G>A	c.(1537-1539)GCG>GCA	p.A513A	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Silent_p.A493A|DNMT3B_uc002wye.2_Silent_p.A493A|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Silent_p.A451A|DNMT3B_uc010zua.1_Silent_p.A417A|DNMT3B_uc002wyf.2_Silent_p.A505A|DNMT3B_uc002wyg.2_Silent_p.A212A|DNMT3B_uc010geg.2_5'Flank|DNMT3B_uc010geh.2_5'Flank	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	513	PHD-type; atypical.|Interaction with the PRC2/EED-EZH2 complex (By similarity).|ADD.				negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						CAGGCACAGCGGCCGAGGCCA	0.642													12	75					0	0	0.013537	0	0		A	31386314	A	A	31386314	2	1	25	1	0	0	0	0	0	0	0	1	4683	1103	39	1		1	DNMT3B	20	31386314	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	801094	31386314	31639206	1068	22068											
BPIL3	128859	broad.mit.edu	37	chr20	31619533	31619533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggggcactgctgcggttggGcatggacatcatgaaccgtg	7	9	16	9	2	1	1	1	1	0	0	1	2	1	2	1	5	3	4	1	5	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:31619533G>A	uc010zuc.1	+	1	80	c.80G>A	c.(79-81)GGC>GAC	p.G27D	BPIL3_uc010zud.1_5'UTR	NM_174897	NP_777557	Q8NFQ5	BPIL3_HUMAN	bactericidal/permeability-increasing	27						extracellular region	lipid binding			ovary(1)|pancreas(1)	2						CTGCGGTTGGGCATGGACATC	0.647													11	65					0	0	0.013537	0	0		A	31619533	A	A	31619533	3	1	25	1	0	0	0	0	1	0	0	0	1496	1203	42	2	82	2	BPIL3	20	31619533	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	233219	31619533	31405987	1069	22069											
C20orf117	140710	broad.mit.edu	37	chr20	35444561	35444561	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctcctcggctgacagcgcGctgtccaggtccccatagag	7	7	12	15	3	0	2	0	1	0	1	4	2	3	2	4	2	2	3	4	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:35444561G>A	uc002xgd.1	-	5	897	c.570C>T	c.(568-570)AGC>AGT	p.S190S	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	190											0		Myeloproliferative disorder(115;0.00874)				CTGACAGCGCGCTGTCCAGGT	0.617													29	71					0	0	0.008361	0	0		A	35444561	A	A	35444561	2	1	25	1	0	0	0	0	0	0	0	1	2086	1078	38	1		1	C20orf117	20	35444561	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3825028	35444561	27580959	1070	22070											
KIAA1755	85449	broad.mit.edu	37	chr20	36841597	36841597	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggcaagcaaatgctcGcgggcagggtcaggcagctt	8	7	17	9	2	1	0	1	0	0	0	2	0	1	0	0	5	3	6	0	5	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:36841597G>A	uc002xhy.1	-	14	3722	c.3450C>T	c.(3448-3450)CGC>CGT	p.R1150R	KIAA1755_uc002xhv.1_Silent_p.R214R|KIAA1755_uc002xhw.1_Silent_p.R205R|KIAA1755_uc002xhx.1_Silent_p.R428R	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	1150										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				GCAAATGCTCGCGGGCAGGGT	0.642													14	75					0	0	0.004007	0	0		A	36841597	A	A	36841597	2	1	25	1	0	0	0	0	0	0	0	1	8273	1074	38	1		1	KIAA1755	20	36841597	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1397036	36841597	26183923	1071	22071											
SLC32A1	140679	broad.mit.edu	37	chr20	37356214	37356214	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagatcctcatcgcgtgcctGtacgaggagaatgaagacgg	12	7	13	9	4	1	4	1	1	0	3	3	6	2	4	2	2	2	1	2	2	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:37356214G>A	uc002xjc.2	+	2	773	c.510G>A	c.(508-510)CTG>CTA	p.L170L		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	170	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	TCGCGTGCCTGTACGAGGAGA	0.647													21	101					0	0	0.004656	0	0		A	37356214	A	A	37356214	2	1	25	1	0	0	0	0	0	0	0	1	14590	1364	48	4		4	SLC32A1	20	37356214	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	514617	37356214	25669306	1072	22072											
MMP9	4318	broad.mit.edu	37	chr20	44639240	44639240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgcgtgtacagccgggacGcagacatcgtcatccagttt	8	9	11	13	5	1	1	1	0	0	1	4	2	2	2	2	1	2	3	2	1	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:44639240G>A	uc002xqz.2	+	3	509	c.490G>A	c.(490-492)GCA>ACA	p.A164T		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	164					collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	CAGCCGGGACGCAGACATCGT	0.642													8	37					0	0	0.006214	0	0		A	44639240	A	A	44639240	3	1	25	1	0	0	0	0	1	0	0	0	9687	1087	38	1	500	1	MMP9	20	44639240	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	7283026	44639240	18386280	1073	22073											
SLC2A10	81031	broad.mit.edu	37	chr20	45353775	45353775	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtcatatcaggtgccctgCtgccactgcagcttgacttt	7	12	9	13	0	2	1	2	1	0	0	2	1	2	1	2	1	5	3	2	1	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:45353775C>T	uc002xsl.2	+	2	197	c.100C>T	c.(100-102)CTG>TTG	p.L34L		NM_030777	NP_110404	O95528	GTR10_HUMAN	solute carrier family 2 member 10	34	Helical; Name=1; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				AGGTGCCCTGCTGCCACTGCA	0.592													34	53					0	0	0.017118	0	0		T	45353775	T	T	45353775	2	4	25	1	0	0	0	0	0	0	0	1	14564	796	28	2		2	SLC2A10	20	45353775	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	714535	45353775	17671745	1074	22074											
ZMYND8	23613	broad.mit.edu	37	chr20	45853197	45853197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggctctgccgcatctccGccatggtcagctctggtgga	5	9	12	15	2	4	0	1	0	3	0	5	1	4	1	4	4	2	3	4	4	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:45853197G>A	uc002xta.1	-	19	3223	c.2969C>T	c.(2968-2970)GCG>GTG	p.A990V	ZMYND8_uc010ghq.1_Missense_Mutation_p.A621V|ZMYND8_uc010ghr.1_Missense_Mutation_p.A892V|ZMYND8_uc002xst.1_Missense_Mutation_p.A872V|ZMYND8_uc002xsu.1_Missense_Mutation_p.A863V|ZMYND8_uc002xsv.1_Missense_Mutation_p.A918V|ZMYND8_uc002xsw.1_Missense_Mutation_p.A696V|ZMYND8_uc002xsx.1_Missense_Mutation_p.A696V|ZMYND8_uc002xsy.1_Missense_Mutation_p.A919V|ZMYND8_uc002xsz.1_Missense_Mutation_p.A881V|ZMYND8_uc010zxy.1_Missense_Mutation_p.A1017V|ZMYND8_uc002xtb.1_Missense_Mutation_p.A964V|ZMYND8_uc002xss.2_Missense_Mutation_p.A990V|ZMYND8_uc010zxz.1_Missense_Mutation_p.A858V|ZMYND8_uc002xtc.1_Missense_Mutation_p.A964V|ZMYND8_uc002xtd.1_Missense_Mutation_p.A939V|ZMYND8_uc002xte.1_Missense_Mutation_p.A944V|ZMYND8_uc010zya.1_Missense_Mutation_p.A990V|ZMYND8_uc002xtf.1_Missense_Mutation_p.A1010V|ZMYND8_uc002xsr.1_Missense_Mutation_p.A89V	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	990							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			CCGCATCTCCGCCATGGTCAG	0.587													48	164					0	0	0.01441	0	0		A	45853197	A	A	45853197	3	1	25	1	0	0	0	0	1	0	0	0	17736	1087	38	1	695	1	ZMYND8	20	45853197	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	499422	45853197	17172323	1075	22075											
ZMYND8	23613	broad.mit.edu	37	chr20	45878128	45878128	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagaggaacaggggtggaCtgttgctggaccgactcgct	9	8	16	8	2	0	1	0	1	0	1	1	6	0	4	1	5	2	3	1	5	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:45878128C>T	uc002xta.1	-	13	1871	c.1617G>A	c.(1615-1617)CAG>CAA	p.Q539Q	ZMYND8_uc010ghq.1_Silent_p.Q216Q|ZMYND8_uc010ghr.1_Silent_p.Q514Q|ZMYND8_uc002xst.1_Silent_p.Q467Q|ZMYND8_uc002xsu.1_Silent_p.Q539Q|ZMYND8_uc002xsv.1_Silent_p.Q467Q|ZMYND8_uc002xsw.1_Silent_p.Q291Q|ZMYND8_uc002xsx.1_Silent_p.Q291Q|ZMYND8_uc002xsy.1_Silent_p.Q514Q|ZMYND8_uc002xsz.1_Silent_p.Q476Q|ZMYND8_uc010zxy.1_Silent_p.Q566Q|ZMYND8_uc002xtb.1_Silent_p.Q559Q|ZMYND8_uc002xss.2_Silent_p.Q539Q|ZMYND8_uc010zxz.1_Silent_p.Q534Q|ZMYND8_uc002xtc.1_Silent_p.Q559Q|ZMYND8_uc002xtd.1_Silent_p.Q534Q|ZMYND8_uc002xte.1_Silent_p.Q539Q|ZMYND8_uc010zya.1_Silent_p.Q539Q|ZMYND8_uc002xtf.1_Silent_p.Q559Q|ZMYND8_uc002xtg.2_Silent_p.Q533Q|ZMYND8_uc010ghs.1_Silent_p.Q533Q	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	539							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			CAGGGGTGGACTGTTGCTGGA	0.498													29	139					0	0	0.015359	0	0		T	45878128	T	T	45878128	2	4	25	1	0	0	0	0	0	0	0	1	17736	564	20	4		4	ZMYND8	20	45878128	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	24931	45878128	17147392	1076	22076											
ADNP	23394	broad.mit.edu	37	chr20	49510461	49510461	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagcatcaagggtttggatcGgggaaccactacatttgtgt	10	12	12	7	1	1	0	1	0	0	0	2	2	1	2	1	4	3	2	1	4	4	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:49510461G>T	uc002xvt.1	-	5	1135	c.790C>A	c.(790-792)CGA>AGA	p.R264R	ADNP_uc002xvu.1_Silent_p.R264R	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	264						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						GGTTTGGATCGGGGAACCACT	0.488													17	70					4.7546e-09	4.96648e-09	0.004007	1	0		T	49510461	T	T	49510461	2	4	25	1	0	0	0	0	0	0	0	1	323	1124	39	5		5	ADNP	20	49510461	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3632333	49510461	13515059	1077	22077											
SALL4	57167	broad.mit.edu	37	chr20	50407662	50407662	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagtgcataggggatgcCattgccggccgccactttgt	8	9	14	10	2	0	1	0	0	0	1	0	3	0	2	4	3	3	1	4	3	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:50407662C>A	uc002xwh.3	-	2	1461	c.1360G>T	c.(1360-1362)GGC>TGC	p.G454C	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	454					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TAGGGGATGCCATTGCCGGCC	0.547													6	142					0.00307968	0.00311801	0.00308	1	0		A	50407662	A	A	50407662	3	1	25	1	0	0	0	0	1	0	0	0	13838	594	21	5	1813	5	SALL4	20	50407662	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	897201	50407662	12617858	1078	22078											
ZNF217	7764	broad.mit.edu	37	chr20	52199236	52199236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctcggaatggaacaacagCggtccctttcattgacaagg	12	8	11	10	2	1	1	1	1	0	0	3	3	2	3	1	4	4	1	1	4	4	2	rs141827117		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:52199236C>T	uc002xwq.3	-	1	401	c.130G>A	c.(130-132)GCT>ACT	p.A44T	ZNF217_uc010gij.1_Missense_Mutation_p.A36T	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	44					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			GGAACAACAGCGGTCCCTTTC	0.478													20	124					0	0	0.012319	0	0		T	52199236	T	T	52199236	3	4	25	1	0	0	0	0	1	0	0	0	17797	768	27	1	3032	1	ZNF217	20	52199236	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1791574	52199236	10826284	1079	22079											
CTCFL	140690	broad.mit.edu	37	chr20	56099084	56099084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccacttcttcctccaggaCgctgtcctggaaggccccag	6	9	9	17	1	1	0	0	0	1	0	5	2	5	2	6	3	0	1	6	3	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:56099084C>T	uc010gix.1	-	1	840	c.178G>A	c.(178-180)GTC>ATC	p.V60I	CTCFL_uc010giw.1_Missense_Mutation_p.V60I|CTCFL_uc002xym.2_Missense_Mutation_p.V60I|CTCFL_uc010giz.1_Intron|CTCFL_uc010giy.1_Intron|CTCFL_uc010gja.1_Missense_Mutation_p.V60I|CTCFL_uc010gjb.1_Missense_Mutation_p.V60I|CTCFL_uc010gjc.1_Missense_Mutation_p.V60I|CTCFL_uc010gjd.1_Missense_Mutation_p.V60I|CTCFL_uc010gje.2_Missense_Mutation_p.V60I|CTCFL_uc010gjf.2_Intron|CTCFL_uc010gjg.2_Intron|CTCFL_uc010gjh.1_Missense_Mutation_p.V60I|CTCFL_uc010gji.1_Intron|CTCFL_uc010gjj.1_Missense_Mutation_p.V60I|CTCFL_uc010gjk.1_Missense_Mutation_p.V60I|CTCFL_uc010gjl.1_Missense_Mutation_p.V60I	NM_080618	NP_542185	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor-like protein	60					cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			TCCTCCAGGACGCTGTCCTGG	0.592													80	394					0	0	0.01441	0	0		T	56099084	T	T	56099084	3	4	25	1	0	0	0	0	1	0	0	0	4004	536	19	1	1853	1	CTCFL	20	56099084	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3899848	56099084	6926436	1080	22080											
APCDD1L	164284	broad.mit.edu	37	chr20	57035905	57035905	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagtgggaagggggctaTgtgaagaccccctgtgctgg	9	7	17	8	0	0	3	0	1	0	2	0	4	0	4	2	4	1	2	2	4	4	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:57035905T>C	uc002xze.1	-	4	1633	c.1447A>G	c.(1447-1449)ATA>GTA	p.I483V	APCDD1L_uc010zzp.1_Missense_Mutation_p.I494V	NM_153360	NP_699191	Q8NCL9	APCDL_HUMAN	adenomatosis polyposis coli down-regulated	483	Helical; (Potential).					integral to membrane				ovary(1)	1	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)			AAGGGGGCTATGTGAAGACCC	0.617													20	76					0	0	0.012319	0	0		C	57035905	C	C	57035905	3	2	25	1	0	0	0	0	1	0	0	0	766	1464	51	3	62	3	APCDD1L	20	57035905	Missense_Mutation	SNP	T	TCGA-BR-4370-01A-01D-1158-08	936821	57035905	5989615	1081	22081											
APCDD1L	164284	broad.mit.edu	37	chr20	57036335	57036335	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaccctggtggatggcgtGcccctggtgtagcggccggc	3	7	18	13	4	0	0	0	0	0	0	0	2	0	2	4	7	2	1	4	7	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:57036335G>A	uc002xze.1	-	4	1203	c.1017C>T	c.(1015-1017)GGC>GGT	p.G339G	APCDD1L_uc010zzp.1_Silent_p.G350G	NM_153360	NP_699191	Q8NCL9	APCDL_HUMAN	adenomatosis polyposis coli down-regulated	339						integral to membrane				ovary(1)	1	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)			TGGATGGCGTGCCCCTGGTGT	0.667													14	50					0	0	0.014323	0	0		A	57036335	A	A	57036335	2	1	25	1	0	0	0	0	0	0	0	1	766	1306	46	2		2	APCDD1L	20	57036335	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	430	57036335	5989185	1082	22082											
LSM14B	149986	broad.mit.edu	37	chr20	60699825	60699825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacactcccgcaggatcccGccattgttcaggtaagtgtg	9	9	10	13	2	1	0	1	0	0	0	3	1	3	1	3	2	0	3	3	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:60699825G>A	uc010gjy.1	+	2	486	c.280G>A	c.(280-282)GCC>ACC	p.A94T	LSM14B_uc002ybt.2_Missense_Mutation_p.A94T|LSM14B_uc010gjx.1_Missense_Mutation_p.A94T|LSM14B_uc002ybv.2_Missense_Mutation_p.A94T|LSM14B_uc010gjz.1_5'UTR|LSM14B_uc010zzz.1_5'UTR	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	94					multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			GCAGGATCCCGCCATTGTTCA	0.493													3	30					0	0	0.004672	0	0		A	60699825	A	A	60699825	3	1	25	1	0	0	0	0	1	0	0	0	9073	1087	38	1	286	1	LSM14B	20	60699825	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3663490	60699825	2325695	1083	22083											
LAMA5	3911	broad.mit.edu	37	chr20	60895632	60895632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctggccgcctagccgccGtgcgtcctgcccgaggcttg	2	8	14	17	5	0	0	0	0	0	0	1	1	1	0	7	2	4	1	7	2	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:60895632G>A	uc002ycq.2	-	50	6809	c.6742C>T	c.(6742-6744)CGG>TGG	p.R2248W		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2248	Domain II and I.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCTAGCCGCCGTGCGTCCTGC	0.697													3	18					0	0	0.004672	0	0		A	60895632	A	A	60895632	3	1	25	1	0	0	0	0	1	0	0	0	8625	1144	40	1	4469	1	LAMA5	20	60895632	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	195807	60895632	2129888	1084	22084											
CHRNA4	1137	broad.mit.edu	37	chr20	61981936	61981936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcacggagatgcacagcGtgatcttctcgccacactcg	9	7	11	14	4	2	2	0	1	2	1	4	3	2	2	1	1	3	3	1	1	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr20:61981936G>A	uc002yes.2	-	5	1005	c.827C>T	c.(826-828)ACG>ATG	p.T276M	CHRNA4_uc002yet.1_Missense_Mutation_p.T100M|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.T205M|CHRNA4_uc002yev.1_Missense_Mutation_p.T100M|CHRNA4_uc010gkf.1_Missense_Mutation_p.T100M	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	276	Helical; (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	GATGCACAGCGTGATCTTCTC	0.592													25	116					0	0	0.01892	0	0		A	61981936	A	A	61981936	3	1	25	1	0	0	0	0	1	0	0	0	3388	1145	40	1	1064	1	CHRNA4	20	61981936	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1086304	61981936	1043584	1085	22085											
TPTE	7179	broad.mit.edu	37	chr21	10942956	10942956	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttttcaagttgtcttttttGatgaaacagatgaaaaattc	13	17	6	5	0	2	4	1	3	1	1	3	4	2	4	0	0	1	1	0	0	4	7	rs143230290		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr21:10942956G>C	uc002yip.1	-	12	999	c.631C>G	c.(631-633)CAA>GAA	p.Q211E	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.Q193E|TPTE_uc002yir.1_Missense_Mutation_p.Q173E|TPTE_uc010gkv.1_Missense_Mutation_p.Q73E	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	211					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TGTCTTTTTTGATGAAACAGA	0.333													4	146					0	0	0.014758	0	0		C	10942956	C	C	10942956	3	2	25	1	0	0	0	0	1	0	0	0	16456	1299	45	5	1076	5	TPTE	21	10942956	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08		10942956	37186939	1086	22086											
KRTAP24-1	643803	broad.mit.edu	37	chr21	31655009	31655009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcacaaccagtggtactgCaggtcttgggctcacagctg	8	9	13	11	0	3	0	2	0	1	0	3	0	3	0	1	4	4	4	1	4	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr21:31655009C>T	uc002ynv.2	-	1	268	c.242G>A	c.(241-243)TGC>TAC	p.C81Y		NM_001085455	NP_001078924	Q3LI83	KR241_HUMAN	keratin associated protein 24-1	81						keratin filament	structural molecule activity				0						AGTGGTACTGCAGGTCTTGGG	0.498													31	136					0	0	0.009535	0	0		T	31655009	T	T	31655009	3	4	25	1	0	0	0	0	1	0	0	0	8558	710	25	2	526	2	KRTAP24-1	21	31655009	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	20712053	31655009	16474886	1087	22087											
KRTAP6-3	337968	broad.mit.edu	37	chr21	31965058	31965058	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggctgtggctataggtgCggctctggctatggctccag	4	12	16	9	1	1	0	0	0	1	0	2	0	2	0	1	6	1	5	1	6	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr21:31965058C>T	uc002yom.2	+	1	300	c.294C>T	c.(292-294)TGC>TGT	p.C98C		NM_181605	NP_853636			keratin associated protein 6-3												0						GCTATAGGTGCGGCTCTGGCT	0.353													4	22					0	0	0.014758	0	0		T	31965058	T	T	31965058	2	4	25	1	0	0	0	0	0	0	0	1	8587	776	27	1		1	KRTAP6-3	21	31965058	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	310049	31965058	16164837	1088	22088											
SYNJ1	8867	broad.mit.edu	37	chr21	34058147	34058147	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acactatgtaatttttctgcCtttcctcccttaaccatttg	8	18	3	12	0	1	0	0	0	1	0	3	0	3	0	4	0	2	1	4	0	3	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr21:34058147C>A	uc002yqh.2	-	9	1146	c.1146G>T	c.(1144-1146)AAG>AAT	p.K382N	SYNJ1_uc011ads.1_Missense_Mutation_p.K343N|SYNJ1_uc002yqf.2_Missense_Mutation_p.K343N|SYNJ1_uc002yqg.2_Missense_Mutation_p.K343N|SYNJ1_uc002yqi.2_Missense_Mutation_p.K382N	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	343	SAC.						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						ATTTTTCTGCCTTTCCTCCCT	0.338													27	108					4.59853e-10	4.82531e-10	0.005443	1	0		A	34058147	A	A	34058147	3	1	25	1	0	0	0	0	1	0	0	0	15477	680	24	5	3822	5	SYNJ1	21	34058147	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2093089	34058147	14071748	1089	22089											
RCAN1	1827	broad.mit.edu	37	chr21	35890534	35890534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagtggtgtcagtcgctgCgtgcaattcatacttttccc	6	13	12	10	2	2	0	2	0	0	0	4	1	3	1	1	2	3	2	1	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr21:35890534C>T	uc002yue.2	-	4	679	c.607G>A	c.(607-609)GCA>ACA	p.A203T	RCAN1_uc002yuc.2_Missense_Mutation_p.A122T|RCAN1_uc002yud.2_Missense_Mutation_p.A68T|RCAN1_uc002yub.2_Missense_Mutation_p.A148T	NM_004414	NP_004405	P53805	RCAN1_HUMAN	calcipressin 1 isoform a	203					blood circulation|calcium-mediated signaling|central nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0						TCAGTCGCTGCGTGCAATTCA	0.483													21	109					0	0	0.008871	0	0		T	35890534	T	T	35890534	3	4	25	1	0	0	0	0	1	0	0	0	13193	768	27	1	155	1	RCAN1	21	35890534	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1832387	35890534	12239361	1090	22090											
DSCAM	1826	broad.mit.edu	37	chr21	41385022	41385022	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatggccccgggagtcgAgcagtgattcttgggagctg	8	9	15	9	2	2	1	1	1	1	0	3	4	2	3	2	3	2	2	2	3	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr21:41385022A>G	uc002yyq.1	-	33	6430	c.5978T>C	c.(5977-5979)CTC>CCC	p.L1993P	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1993	Cytoplasmic (Potential).			HRPGDLIHLPPYLRMDFLLNRGGPGTSRDLSLGQACLEPQK SRTLKRPTVLEPIPMEAASSASSTREGQSWQPGAVATLPQR EGAELGQAAKMSSSQESLLDSRGHLKGNNPYAKSYTLV -> IGQVTSYICLHTLEWTFC (in Ref. 1; AAC17966).	cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CCGGGAGTCGAGCAGTGATTC	0.537													17	57					0	0	0.006122	0	0		G	41385022	G	G	41385022	3	3	25	1	0	0	0	0	1	0	0	0	4774	304	11	3	64	3	DSCAM	21	41385022	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	5494488	41385022	6744873	1091	22091											
DSCAM	1826	broad.mit.edu	37	chr21	41561090	41561090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgggcttctcaccatgcGccgtgcagctcatctccttt	6	13	8	14	2	3	0	2	0	2	0	5	0	3	0	3	1	3	3	3	1	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr21:41561090G>A	uc002yyq.1	-	12	2884	c.2432C>T	c.(2431-2433)GCG>GTG	p.A811V	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	811	Ig-like C2-type 9.|Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CTCACCATGCGCCGTGCAGCT	0.512													35	158					0	0	0.021022	0	0		A	41561090	A	A	41561090	3	1	25	1	0	0	0	0	1	0	0	0	4774	1087	38	1	3694	1	DSCAM	21	41561090	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	176068	41561090	6568805	1092	22092											
CRYAA	1409	broad.mit.edu	37	chr21	44589335	44589335	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcccttcctgtcgtcCaccatcagcccctactaccg	5	10	6	20	2	1	0	1	0	0	0	4	0	3	0	7	0	5	1	7	0	2	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr21:44589335C>T	uc002zdd.1	+	1	195	c.126C>T	c.(124-126)TCC>TCT	p.S42S		NM_000394	NP_000385	P02489	CRYAA_HUMAN	crystallin, alpha A	42					anti-apoptosis|negative regulation of intracellular transport|protein homooligomerization|response to heat|visual perception	cytoplasm|nucleus	structural constituent of eye lens|unfolded protein binding			breast(1)|central_nervous_system(1)	2						TCCTGTCGTCCACCATCAGCC	0.632													57	251					0	0	0.01441	0	0		T	44589335	T	T	44589335	2	4	25	1	0	0	0	0	0	0	0	1	3908	581	21	4		4	CRYAA	21	44589335	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3028245	44589335	3540560	1093	22093											
KRTAP10-2	386679	broad.mit.edu	37	chr21	45971248	45971248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacagcagctgggggtgcCgcaggggagctcacagcagc	8	3	18	12	1	1	0	1	0	0	0	1	1	1	1	1	5	6	6	1	5	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr21:45971248C>T	uc002zfi.1	-	1	141	c.94G>A	c.(94-96)GGC>AGC	p.G32S	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198693	NP_941966	P60368	KR102_HUMAN	keratin associated protein 10-2	32	22 X 5 AA repeats of C-C-X(3).					keratin filament				large_intestine(1)	1						CTGGGGGTGCCGCAGGGGAGC	0.692													28	134					0	0	0.012213	0	0		T	45971248	T	T	45971248	3	4	25	1	0	0	0	0	1	0	0	0	8525	652	23	1	677	1	KRTAP10-2	21	45971248	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1381913	45971248	2158647	1094	22094											
KRTAP12-2	353323	broad.mit.edu	37	chr21	46086433	46086433	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcaggagggctggcagcacCcagaggactggcaggacgga	10	3	18	10	1	0	1	0	0	0	1	0	5	0	5	1	7	2	5	1	7	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr21:46086433C>A	uc002zfu.2	-	1	412	c.371G>T	c.(370-372)GGG>GTG	p.G124V	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_181684	NP_859012	P59991	KR122_HUMAN	keratin associated protein 12-2	124	20.|23 X 5 AA approximate repeats.					keratin filament					0						CTGGCAGCACCCAGAGGACTG	0.632													16	73					0.000229342	0.000234254	0.012319	1	0		A	46086433	A	A	46086433	3	1	25	1	0	0	0	0	1	0	0	0	8535	623	22	5	73	5	KRTAP12-2	21	46086433	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	115185	46086433	2043462	1095	22095											
MCM3AP	8888	broad.mit.edu	37	chr21	47685900	47685900	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgcggccaggctctccccGatgtacttgttctgggagtt	4	12	12	13	3	2	0	0	0	2	0	4	2	3	1	4	3	1	4	4	3	1	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr21:47685900G>A	uc002zir.1	-	11	3006	c.2970C>T	c.(2968-2970)ATC>ATT	p.I990I	MCM3AP_uc002ziq.1_5'UTR	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	990					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					GGCTCTCCCCGATGTACTTGT	0.622													63	248					0	0	0.01441	0	0		A	47685900	A	A	47685900	2	1	25	1	0	0	0	0	0	0	0	1	9406	1048	37	1		1	MCM3AP	21	47685900	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1599467	47685900	443995	1096	22096											
TRMT2A	27037	broad.mit.edu	37	chr22	20100722	20100722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagggtgggcaccaggtcctCggccctcccgcagtggaact	6	6	14	15	2	0	0	0	0	0	0	3	1	2	1	4	5	1	2	4	5	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:20100722C>T	uc002zrk.1	-	11	1683	c.1468G>A	c.(1468-1470)GAG>AAG	p.E490K	TRMT2A_uc002zrl.1_Missense_Mutation_p.E490K|TRMT2A_uc002zrm.1_Missense_Mutation_p.E312K|TRMT2A_uc002zrn.1_Missense_Mutation_p.E508K	NM_182984	NP_892029	Q8IZ69	TRM2A_HUMAN	HpaII tiny fragments locus 9C	490					RNA processing		nucleotide binding|RNA binding|RNA methyltransferase activity			breast(1)	1						ACCAGGTCCTCGGCCCTCCCG	0.647													15	65					0	0	0.012319	0	0		T	20100722	T	T	20100722	3	4	25	1	0	0	0	0	1	0	0	0	16591	893	31	1	421	1	TRMT2A	22	20100722	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08		20100722	31203844	1097	22097											
SCARF2	91179	broad.mit.edu	37	chr22	20780227	20780227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcggtggtgagggcgcaCggccagctgcagcggcgctg	4	4	21	12	6	0	1	0	1	0	0	0	1	0	1	1	6	3	4	1	6	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:20780227C>T	uc002zsj.1	-	11	2156	c.2051G>A	c.(2050-2052)CGT>CAT	p.R684H	SCARF2_uc002zsk.1_Missense_Mutation_p.R679H	NM_153334	NP_699165	Q96GP6	SREC2_HUMAN	scavenger receptor class F, member 2 isoform 1	679	Pro-rich.|Cytoplasmic (Potential).				cell adhesion	integral to membrane	protein binding|receptor activity			breast(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			TGAGGGCGCACGGCCAGCTGC	0.706													8	20					0	0	0.010729	0	0		T	20780227	T	T	20780227	3	4	25	1	0	0	0	0	1	0	0	0	13909	536	19	1	565	1	SCARF2	22	20780227	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	679505	20780227	30524339	1098	22098											
KLHL22	84861	broad.mit.edu	37	chr22	20800951	20800951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccctccagcgtcgcgcctgCgtgggcatacacctgtgtgg	4	8	13	16	4	0	0	0	0	0	0	2	0	1	0	5	2	3	1	5	2	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:20800951C>T	uc002zsl.1	-	6	1427	c.1318G>A	c.(1318-1320)GCA>ACA	p.A440T	KLHL22_uc011ahr.1_Missense_Mutation_p.A297T	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	440	Kelch 3.				cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GTCGCGCCTGCGTGGGCATAC	0.592													22	122					0	0	0.01892	0	0		T	20800951	T	T	20800951	3	4	25	1	0	0	0	0	1	0	0	0	8393	768	27	1	594	1	KLHL22	22	20800951	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	20724	20800951	30503615	1099	22099											
SLC7A4	6545	broad.mit.edu	37	chr22	21384385	21384385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggggaagacttctggaagCgcagcacaatgatactggtg	11	7	15	8	2	1	2	0	1	1	1	1	4	1	4	0	4	3	2	0	4	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:21384385C>T	uc002zud.2	-	3	1306	c.1238G>A	c.(1237-1239)CGC>CAC	p.R413H	SLC7A4_uc002zue.2_Missense_Mutation_p.R413H	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	413					cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	CTTCTGGAAGCGCAGCACAAT	0.627													4	33					0	0	0.001168	0	0		T	21384385	T	T	21384385	3	4	25	1	0	0	0	0	1	0	0	0	14724	768	27	1	681	1	SLC7A4	22	21384385	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	583434	21384385	29920181	1100	22100											
TOP3B	8940	broad.mit.edu	37	chr22	22319678	22319678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagaagagctggccacacGcagcatctccacagtgttca	12	6	10	13	1	2	2	1	0	1	2	3	3	2	2	2	1	2	4	2	1	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:22319678G>A	uc002zvs.2	-	9	1357	c.922C>T	c.(922-924)CGT>TGT	p.R308C	TOP3B_uc010gtm.1_5'UTR|TOP3B_uc002zvr.2_Missense_Mutation_p.R33C|TOP3B_uc010gtl.2_Missense_Mutation_p.R308C|TOP3B_uc002zvt.3_Missense_Mutation_p.R308C	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	308					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		CTGGCCACACGCAGCATCTCC	0.567													8	26					0	0	0.004482	0	0		A	22319678	A	A	22319678	3	1	25	1	0	0	0	0	1	0	0	0	16394	1087	38	1	1706	1	TOP3B	22	22319678	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	935293	22319678	28984888	1101	22101											
GNAZ	2781	broad.mit.edu	37	chr22	23438372	23438372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacgacctggagcgcatcGccgcagctgactatatcccc	9	7	10	15	4	0	2	0	2	0	0	2	4	1	3	4	1	3	3	4	1	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:23438372G>A	uc002zwu.1	+	2	1027	c.490G>A	c.(490-492)GCC>ACC	p.A164T	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	164						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		GGAGCGCATCGCCGCAGCTGA	0.622													27	124					0	0	0.004656	0	0		A	23438372	A	A	23438372	3	1	25	1	0	0	0	0	1	0	0	0	6529	1087	38	1	492	1	GNAZ	22	23438372	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1118694	23438372	27866194	1102	22102											
BCR	613	broad.mit.edu	37	chr22	23523754	23523754	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcggaccgcatcagctccCtgggcagccaggccatgcag	7	6	13	15	2	1	0	1	0	0	0	3	1	2	1	4	3	3	4	4	3	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:23523754C>A	uc002zww.2	+	1	1203	c.607C>A	c.(607-609)CTG>ATG	p.L203M	BCR_uc002zwx.2_Missense_Mutation_p.L203M	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	203	Kinase.|Binding to ABL SH2-domain.				regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						CATCAGCTCCCTGGGCAGCCA	0.657			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								29	107					1.2476e-16	1.33754e-16	0.00632	1	0		A	23523754	A	A	23523754	3	1	25	1	0	0	0	0	1	0	0	0	1389	680	24	5	609	5	BCR	22	23523754	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	85382	23523754	27780812	1103	22103											
GGT1	2678	broad.mit.edu	37	chr22	25024147	25024147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggcacacagatcaccaCggccactgcactggtatgtg	9	7	13	12	1	1	1	1	0	0	1	1	1	1	1	2	4	1	3	2	4	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:25024147C>T	uc003aan.1	+	14	1923	c.1436C>T	c.(1435-1437)ACG>ATG	p.T479M	GGT1_uc003aas.1_Missense_Mutation_p.T479M|GGT1_uc003aat.1_Missense_Mutation_p.T479M|GGT1_uc003aau.1_Missense_Mutation_p.T479M|GGT1_uc003aav.1_Missense_Mutation_p.T479M|GGT1_uc003aaw.1_Missense_Mutation_p.T479M|GGT1_uc003aax.1_Missense_Mutation_p.T479M|GGT1_uc003aay.1_Missense_Mutation_p.T135M	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor	479	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	CAGATCACCACGGCCACTGCA	0.652													29	159					0	0	0.009535	0	0		T	25024147	T	T	25024147	3	4	25	1	0	0	0	0	1	0	0	0	6376	536	19	1	1474	1	GGT1	22	25024147	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1500393	25024147	26280419	1104	22104											
LIF	3976	broad.mit.edu	37	chr22	30639661	30639661	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagaaggcctgggccaacacGgcgatgatctgcttatactt	10	10	11	10	2	1	2	0	1	1	1	1	3	1	2	2	3	3	1	2	3	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:30639661G>A	uc003agz.2	-	3	700	c.588C>T	c.(586-588)GCC>GCT	p.A196A	LIF_uc011aks.1_3'UTR|uc003aha.2_5'Flank	NM_002309	NP_002300	P15018	LIF_HUMAN	leukemia inhibitory factor (cholinergic	196					immune response|leukemia inhibitory factor signaling pathway|negative regulation of hormone secretion|positive regulation of cell proliferation|positive regulation of macrophage differentiation|positive regulation of MAPKKK cascade|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of peptidyl-serine phosphorylation of STAT protein|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of metanephric nephron tubule epithelial cell differentiation		cytokine activity|growth factor activity|leukemia inhibitory factor receptor binding				0			Epithelial(10;0.171)			GGGCCAACACGGCGATGATCT	0.572													40	168					0	0	0.011902	0	0		A	30639661	A	A	30639661	2	1	25	1	0	0	0	0	0	0	0	1	8795	1103	39	1		1	LIF	22	30639661	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	5615514	30639661	20664905	1105	22105											
OSM	5008	broad.mit.edu	37	chr22	30661062	30661062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctggccaaggagcacgcGgtactctttcgagcagctgc	8	7	14	12	3	1	0	0	0	1	0	2	3	1	1	1	3	6	5	1	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:30661062G>A	uc003ahb.2	-	2	158	c.106C>T	c.(106-108)CGC>TGC	p.R36C		NM_020530	NP_065391	P13725	ONCM_HUMAN	oncostatin M precursor	36					cell proliferation|immune response|negative regulation of cell proliferation|negative regulation of hormone secretion|positive regulation of cell division|positive regulation of cell proliferation|positive regulation of MAPKKK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of transcription from RNA polymerase II promoter|regulation of growth	extracellular space|oncostatin-M receptor complex	cytokine activity|growth factor activity|oncostatin-M receptor binding			skin(1)	1			Epithelial(10;0.206)			AGGAGCACGCGGTACTCTTTC	0.577													27	242					0	0	0.004656	0	0		A	30661062	A	A	30661062	3	1	25	1	0	0	0	0	1	0	0	0	11310	1116	39	1	660	1	OSM	22	30661062	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	21401	30661062	20643504	1106	22106											
GAL3ST1	9514	broad.mit.edu	37	chr22	30951307	30951307	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagaggtgggagtccagcAtgttccaggcggtggcgcgc	6	7	19	9	3	0	1	0	0	0	1	2	2	2	2	2	6	1	3	2	6	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:30951307A>G	uc003aig.1	-	4	1045	c.905T>C	c.(904-906)ATG>ACG	p.M302T	GAL3ST1_uc003aih.1_Missense_Mutation_p.M302T|GAL3ST1_uc003aii.1_Missense_Mutation_p.M302T|GAL3ST1_uc010gvz.1_Missense_Mutation_p.M302T	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	302	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						GGAGTCCAGCATGTTCCAGGC	0.706													8	31					0	0	0.010729	0	0		G	30951307	G	G	30951307	3	3	25	1	0	0	0	0	1	0	0	0	6212	217	8	3	370	3	GAL3ST1	22	30951307	Missense_Mutation	SNP	A	TCGA-BR-4370-01A-01D-1158-08	290245	30951307	20353259	1107	22107											
MCM5	4174	broad.mit.edu	37	chr22	35808554	35808554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaggaggagttccgtcGcctggctgccctcccaaatg	7	7	15	12	2	0	0	0	0	0	0	3	4	2	4	4	5	1	2	4	5	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:35808554G>A	uc003anu.3	+	8	1065	c.971G>A	c.(970-972)CGC>CAC	p.R324H	MCM5_uc010gwr.2_Missense_Mutation_p.R133H|MCM5_uc003anv.3_Missense_Mutation_p.R281H|MCM5_uc010gws.1_RNA|MCM5_uc003anw.1_Missense_Mutation_p.R108H	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	324					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						GAGTTCCGTCGCCTGGCTGCC	0.607													40	163					0	0	0.00874	0	0		A	35808554	A	A	35808554	3	1	25	1	0	0	0	0	1	0	0	0	9408	1087	38	1	997	1	MCM5	22	35808554	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4857247	35808554	15496012	1108	22108											
MYH9	4627	broad.mit.edu	37	chr22	36723530	36723530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaagatggattgatcttctCggtctgaaacaaagaagaca	16	9	9	7	1	3	5	0	2	3	3	4	6	3	6	0	2	1	0	0	2	4	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:36723530C>T	uc003apg.2	-	4	725	c.494G>A	c.(493-495)CGA>CAA	p.R165Q	MYH9_uc003aph.1_Missense_Mutation_p.R29Q|MYH9_uc003api.1_Missense_Mutation_p.R165Q	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	165	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						TTGATCTTCTCGGTCTGAAAC	0.502			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				18	63					0	0	0.007413	0	0		T	36723530	T	T	36723530	3	4	25	1	0	0	0	0	1	0	0	0	10060	884	31	1	5540	1	MYH9	22	36723530	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	914976	36723530	14581036	1109	22109											
FOXRED2	80020	broad.mit.edu	37	chr22	36902310	36902310	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgaacactgcgtagtcgcGtccagcgcgctgcaggaagt	8	7	13	13	6	0	0	0	0	0	0	3	2	1	1	1	1	4	3	1	1	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:36902310G>A	uc003apn.3	-	1	268	c.160C>T	c.(160-162)CGC>TGC	p.R54C	FOXRED2_uc003apo.3_Missense_Mutation_p.R54C|FOXRED2_uc003app.3_Missense_Mutation_p.R54C	NM_024955	NP_079231	Q8IWF2	FXRD2_HUMAN	FAD-dependent oxidoreductase domain containing 2	54					ER-associated protein catabolic process	endoplasmic reticulum lumen	flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			lung(1)|kidney(1)	2						GCGTAGTCGCGTCCAGCGCGC	0.711													6	43					0	0	0.001168	0	0		A	36902310	A	A	36902310	3	1	25	1	0	0	0	0	1	0	0	0	6048	1145	40	1	1926	1	FOXRED2	22	36902310	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	178780	36902310	14402256	1110	22110											
TRIOBP	11078	broad.mit.edu	37	chr22	38130975	38130975	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggggggcagagggagcGtgtccatacccgcgtggctc	5	6	19	11	3	0	1	0	0	0	1	2	2	1	2	2	6	2	3	2	6	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:38130975G>A	uc003atr.2	+	9	4903	c.4632G>A	c.(4630-4632)GCG>GCA	p.A1544A	TRIOBP_uc003atu.2_Silent_p.A1372A	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1544					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CAGAGGGAGCGTGTCCATACC	0.677											OREG0026548	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	152					0	0	0.021022	0	0		A	38130975	A	A	38130975	2	1	25	1	0	0	0	0	0	0	0	1	16579	1132	40	1		1	TRIOBP	22	38130975	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1228665	38130975	13173591	1111	22111											
TMEM184B	25829	broad.mit.edu	37	chr22	38620799	38620799	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggctcataccttgtgcGtccagcctcttgtcagcata	6	12	8	15	1	3	0	2	0	1	0	4	0	4	0	4	1	4	2	4	1	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:38620799G>A	uc003avf.1	-	8	1199	c.975C>T	c.(973-975)GAC>GAT	p.D325D	TMEM184B_uc003avg.1_Silent_p.D325D|TMEM184B_uc003avh.1_Silent_p.D259D	NM_012264	NP_036396	Q9Y519	T184B_HUMAN	transmembrane protein 184B	325						integral to membrane					0	Melanoma(58;0.045)					TACCTTGTGCGTCCAGCCTCT	0.612													18	59					0	0	0.010504	0	0		A	38620799	A	A	38620799	2	1	25	1	0	0	0	0	0	0	0	1	16130	1136	40	1		1	TMEM184B	22	38620799	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	489824	38620799	12683767	1112	22112											
APOBEC3G	60489	broad.mit.edu	37	chr22	39477083	39477083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtacaagggatatggccaCgttcctggccgaggacccga	9	7	14	11	3	0	0	0	0	0	0	1	4	1	2	4	4	1	2	4	4	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:39477083C>T	uc003awx.2	+	3	659	c.317C>T	c.(316-318)ACG>ATG	p.T106M	APOBEC3G_uc003awy.2_Missense_Mutation_p.T39M	NM_021822	NP_068594	Q9HC16	ABC3G_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	106					base conversion or substitution editing|DNA cytosine deamination|innate immune response|interspecies interaction between organisms|negative regulation of retroviral genome replication|negative regulation of transposition|positive regulation of defense response to virus by host|response to virus|viral reproduction	apolipoprotein B mRNA editing enzyme complex|cytosol|mitochondrion	cytidine deaminase activity|dCTP deaminase activity|protein homodimerization activity|RNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2	Melanoma(58;0.04)					GATATGGCCACGTTCCTGGCC	0.562													28	132					0	0	0.008361	0	0		T	39477083	T	T	39477083	3	4	25	1	0	0	0	0	1	0	0	0	794	536	19	1	327	1	APOBEC3G	22	39477083	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	856284	39477083	11827483	1113	22113											
RPL3	6122	broad.mit.edu	37	chr22	39710758	39710758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccacagagaaggctacaCgagcaggatgccatgcccca	12	4	12	13	1	0	1	0	0	0	1	0	4	0	2	4	2	5	2	4	2	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:39710758C>T	uc003axi.2	-	6	850	c.782G>A	c.(781-783)CGT>CAT	p.R261H	RPL3_uc003axh.2_Missense_Mutation_p.R212H|RPL3_uc003axj.2_Missense_Mutation_p.R109H|RPL3_uc010gxx.2_Missense_Mutation_p.R209H|RPL3_uc003axg.2_Missense_Mutation_p.R209H|RPL3_uc003axk.1_Missense_Mutation_p.R109H	NM_000967	NP_000958	P39023	RL3_HUMAN	ribosomal protein L3 isoform a	261					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome			breast(1)|kidney(1)	2	Melanoma(58;0.04)					GAAGGCTACACGAGCAGGATG	0.612													21	91					0	0	0.014323	0	0		T	39710758	T	T	39710758	3	4	25	1	0	0	0	0	1	0	0	0	13604	536	19	1	449	1	RPL3	22	39710758	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	233675	39710758	11593808	1114	22114											
CSDC2	27254	broad.mit.edu	37	chr22	41969684	41969684	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggcctcagctggccccGtgttcaagggcgtctgtaag	5	8	14	14	3	3	0	2	0	1	0	3	0	3	0	4	3	1	3	4	3	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:41969684G>A	uc003bak.1	+	3	499	c.202G>A	c.(202-204)GTG>ATG	p.V68M		NM_014460	NP_055275	Q9Y534	CSDC2_HUMAN	RNA-binding protein pippin	68	CSD.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|RNA binding				0						AGCTGGCCCCGTGTTCAAGGG	0.612													6	182					0	0	0.001168	0	0		A	41969684	A	A	41969684	3	1	25	1	0	0	0	0	1	0	0	0	3931	1145	40	1	208	1	CSDC2	22	41969684	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2258926	41969684	9334882	1115	22115											
TCF20	6942	broad.mit.edu	37	chr22	42608248	42608248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccctgggcctctgctccGcccaggagacattttcaatt	6	11	8	16	1	2	1	1	0	1	1	4	2	4	1	5	2	1	1	5	2	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:42608248G>A	uc003bcj.1	-	1	3198	c.3064C>T	c.(3064-3066)CGG>TGG	p.R1022W	TCF20_uc003bck.1_Missense_Mutation_p.R1022W|TCF20_uc003bnt.2_Missense_Mutation_p.R1022W	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	1022					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						CCTCTGCTCCGCCCAGGAGAC	0.547													17	97					0	0	0.004007	0	0		A	42608248	A	A	42608248	3	1	25	1	0	0	0	0	1	0	0	0	15715	1086	38	1	2856	1	TCF20	22	42608248	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	638564	42608248	8696318	1116	22116											
PACSIN2	11252	broad.mit.edu	37	chr22	43272302	43272302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agactcatcgtctgaccagtCggtgggatagctctgggtct	7	11	13	10	2	4	2	1	1	3	1	6	3	4	3	1	3	1	1	1	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:43272302C>T	uc010gzg.2	-	10	1411	c.1189G>A	c.(1189-1191)GAC>AAC	p.D397N	PACSIN2_uc003bdg.3_Missense_Mutation_p.D397N|PACSIN2_uc003bde.3_Missense_Mutation_p.D397N|PACSIN2_uc003bdf.3_Missense_Mutation_p.D356N	NM_007229	NP_009160	Q9UNF0	PACN2_HUMAN	protein kinase C and casein kinase substrate in	397					actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)				TCTGACCAGTCGGTGGGATAG	0.627													18	113					0	0	0.014323	0	0		T	43272302	T	T	43272302	3	4	25	1	0	0	0	0	1	0	0	0	11394	884	31	1	279	1	PACSIN2	22	43272302	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	664054	43272302	8032264	1117	22117											
SMC1B	27127	broad.mit.edu	37	chr22	45802684	45802684	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattatgcctatcttttccaActctgcaatgtaaacagaac	13	14	4	10	0	2	1	0	0	2	1	3	1	3	1	2	0	5	2	2	0	8	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:45802684A>G	uc003bgc.2	-	3	413	c.361T>C	c.(361-363)TTG>CTG	p.L121L	SMC1B_uc003bgd.2_Silent_p.L121L|SMC1B_uc003bge.1_5'UTR	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	121					chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		ATCTTTTCCAACTCTGCAATG	0.299													3	145					0	0	0.009096	0	0		G	45802684	G	G	45802684	2	3	25	1	0	0	0	0	0	0	0	1	14807	40	2	3		3	SMC1B	22	45802684	Silent	SNP	A	TCGA-BR-4370-01A-01D-1158-08	2530382	45802684	5501882	1118	22118											
ATXN10	25814	broad.mit.edu	37	chr22	46085740	46085740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaatgcttcaggtgtcttCgcaatgcttgcatagagtgt	9	13	11	8	1	2	2	1	0	1	2	3	2	2	2	0	1	3	4	0	1	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:46085740C>T	uc003bgm.1	+	2	522	c.265C>T	c.(265-267)CGC>TGC	p.R89C	ATXN10_uc011aqt.1_Intron|ATXN10_uc003bgn.1_5'UTR	NM_013236	NP_037368	Q9UBB4	ATX10_HUMAN	ataxin 10	89					cell death|neuron projection development	dendrite|neuronal cell body|perinuclear region of cytoplasm				ovary(1)|kidney(1)	2		Ovarian(80;0.00973)|all_neural(38;0.0417)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0223)		CAGGTGTCTTCGCAATGCTTG	0.438													18	93					0	0	0.008871	0	0		T	46085740	T	T	46085740	3	4	25	1	0	0	0	0	1	0	0	0	1211	884	31	1	271	1	ATXN10	22	46085740	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	283056	46085740	5218826	1119	22119											
CELSR1	9620	broad.mit.edu	37	chr22	46792521	46792521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttctcacagtacggccCgtagtgactgggcccacact	7	10	10	14	2	1	1	1	1	1	0	2	1	1	1	2	2	1	3	2	2	2	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:46792521C>T	uc003bhw.1	-	13	5824	c.5824G>A	c.(5824-5826)GGG>AGG	p.G1942R	CELSR1_uc011arc.1_Missense_Mutation_p.G263R	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1942	Extracellular (Potential).|EGF-like 6; calcium-binding.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CAGTACGGCCCGTAGTGACTG	0.622													11	43					0	0	0.020292	0	0		T	46792521	T	T	46792521	3	4	25	1	0	0	0	0	1	0	0	0	3224	652	23	1	3312	1	CELSR1	22	46792521	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	706781	46792521	4512045	1120	22120											
PANX2	56666	broad.mit.edu	37	chr22	50615987	50615987	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtgagctgcaagctcccGtccgtgcaactgcagcgcat	7	7	12	15	5	0	1	0	1	0	0	2	1	2	1	2	0	7	6	2	0	2	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:50615987G>A	uc003bjn.3	+	2	846	c.846G>A	c.(844-846)CCG>CCA	p.P282P	PANX2_uc003bjp.3_Silent_p.P148P|PANX2_uc003bjo.3_Silent_p.P282P	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	282	Extracellular (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		GCAAGCTCCCGTCCGTGCAAC	0.662													17	51					0	0	0.006122	0	0		A	50615987	A	A	50615987	2	1	25	1	0	0	0	0	0	0	0	1	11440	1132	40	1		1	PANX2	22	50615987	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3823466	50615987	688579	1121	22121											
SELO	83642	broad.mit.edu	37	chr22	50648623	50648623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccaggtgacgcggcgcaCggcgcggatggtggccgagt	6	4	18	13	7	0	1	0	1	0	0	0	3	0	2	3	6	0	1	3	6	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:50648623C>T	uc011arr.1	+	4	1011	c.953C>T	c.(952-954)ACG>ATG	p.T318M	SELO_uc010hap.2_Missense_Mutation_p.T129M|SELO_uc003bjy.2_Translation_Start_Site|SELO_uc003bjz.2_Translation_Start_Site	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O	318											0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		ACGCGGCGCACGGCGCGGATG	0.672											OREG0026676	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	69					0	0	0.008871	0	0		T	50648623	T	T	50648623	3	4	25	1	0	0	0	0	1	0	0	0	14043	536	19	1	967	1	SELO	22	50648623	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	32636	50648623	655943	1122	22122											
SELO	83642	broad.mit.edu	37	chr22	50649342	50649342	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccatgcatctgaccggTgagtgacccagccgtgccca	9	6	12	14	2	1	4	0	3	1	1	1	5	1	4	5	1	3	1	5	1	0	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:50649342T>C	uc011arr.1	+	5	1409	c.1351_splice	c.e5+2	p.G451_splice	SELO_uc010hap.2_Splice_Site_p.G262_splice|SELO_uc003bjy.2_Splice_Site_p.G131_splice|SELO_uc003bjz.2_Splice_Site_p.G131_splice	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O												0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		ATCTGACCGGTGAGTGACCCA	0.612											OREG0026676	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	46	197					0	0	0.01441	0	0		C	50649342	C	C	50649342	5	2	25	1	0	0	0	0	0	0	1	0	14043	1710	59	3	1371	3	SELO	22	50649342	Splice_Site	SNP	T	TCGA-BR-4370-01A-01D-1158-08	719	50649342	655224	1123	22123											
SBF1	6305	broad.mit.edu	37	chr22	50885774	50885774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaggccttctcgtccaCagtcttaggggcacccatag	11	8	10	12	1	2	1	0	0	2	1	4	1	3	1	3	3	0	1	3	3	4	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chr22:50885774C>T	uc003blh.2	-	40	5755	c.5560G>A	c.(5560-5562)GTG>ATG	p.V1854M	SBF1_uc003ble.2_Missense_Mutation_p.V318M|SBF1_uc003blf.2_Missense_Mutation_p.V330M|SBF1_uc011arx.1_Missense_Mutation_p.V1492M	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1828	PH.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		TTCTCGTCCACAGTCTTAGGG	0.647													27	137					0	0	0.008361	0	0		T	50885774	T	T	50885774	3	4	25	1	0	0	0	0	1	0	0	0	13883	478	17	4	129	4	SBF1	22	50885774	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	236432	50885774	418792	1124	22124											
ZBED1	9189	broad.mit.edu	37	chrX	2406919	2406919	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgctcaggggcgacgcgCgtggccgtcacgcaccagta	8	4	15	14	7	2	1	2	0	0	1	2	2	2	1	2	3	0	3	2	3	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:2406919C>T	uc004cqg.2	-	2	2043	c.1842G>A	c.(1840-1842)ACG>ACA	p.T614T	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Silent_p.T614T	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	614						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GGGCGACGCGCGTGGCCGTCA	0.662													56	260					0	0	0.01441	0	0		T	2406919	T	T	2406919	2	4	25	1	0	0	0	0	0	0	0	1	17543	755	27	1		1	ZBED1	23	2406919	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08		2406919	152863641	1125	22125											
ARSE	415	broad.mit.edu	37	chrX	2873550	2873550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttgggtcagcttcacgccgtCctctgcaaggcggtcaatat	7	11	11	12	3	4	0	3	0	1	0	5	0	5	0	2	3	2	2	2	3	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:2873550C>T	uc004crc.3	-	4	464	c.214G>A	c.(214-216)GAC>AAC	p.D72N	ARSE_uc011mhi.1_Missense_Mutation_p.D18N|ARSE_uc011mhh.1_Missense_Mutation_p.D97N	NM_000047	NP_000038	P51690	ARSE_HUMAN	arylsulfatase E precursor	72					skeletal system development	Golgi stack	arylsulfatase activity|metal ion binding			ovary(1)|central_nervous_system(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TTCACGCCGTCCTCTGCAAGG	0.502													9	53					0	0	0.006214	0	0		T	2873550	T	T	2873550	3	4	25	1	0	0	0	0	1	0	0	0	991	855	30	4	1587	4	ARSE	23	2873550	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	466631	2873550	152397010	1126	22126											
MXRA5	25878	broad.mit.edu	37	chrX	3248157	3248157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccagaagcggcatgttcCgaagcatgctggcaggaaga	11	7	13	10	2	1	2	0	0	1	2	3	4	2	3	2	3	3	5	2	3	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:3248157C>T	uc004crg.3	-	4	768	c.611G>A	c.(610-612)CGG>CAG	p.R204Q		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	204	LRR 6.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				CGGCATGTTCCGAAGCATGCT	0.458													13	50					0	0	0.003163	0	0		T	3248157	T	T	3248157	3	4	25	1	0	0	0	0	1	0	0	0	10021	652	23	1	7891	1	MXRA5	23	3248157	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	374607	3248157	152022403	1127	22127											
MXRA5	25878	broad.mit.edu	37	chrX	3261860	3261860	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggagagggccccccagtgCgcgcgcttgggcatcttgtc	5	7	15	14	4	1	1	0	0	1	1	2	2	1	1	3	3	1	2	3	3	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:3261860C>T	uc004crg.3	-	2	172	c.15G>A	c.(13-15)GCG>GCA	p.A5A		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	5						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				CCCCCCAGTGCGCGCGCTTGG	0.627													9	53					0	0	0.004482	0	0		T	3261860	T	T	3261860	2	4	25	1	0	0	0	0	0	0	0	1	10021	755	27	1		1	MXRA5	23	3261860	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	13703	3261860	152008700	1128	22128											
SHROOM2	357	broad.mit.edu	37	chrX	9864477	9864477	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggcacggagccctggtcGcgcaccacctcccttgggga	6	5	15	15	3	0	0	0	0	0	0	2	3	1	2	4	5	1	2	4	5	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:9864477G>T	uc004csu.1	+	4	2619	c.2529G>T	c.(2527-2529)TCG>TCT	p.S843S		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	843					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				AGCCCTGGTCGCGCACCACCT	0.657													15	57					6.81908e-15	7.27684e-15	0.020292	1	0		T	9864477	T	T	9864477	2	4	25	1	0	0	0	0	0	0	0	1	14319	1074	38	5		5	SHROOM2	23	9864477	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	6602617	9864477	145406083	1129	22129											
CNKSR2	22866	broad.mit.edu	37	chrX	21545078	21545078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagttctgccctccaggatCtctacattccccctcctcct	6	12	4	19	0	2	0	0	0	2	0	7	1	6	1	6	1	2	1	6	1	1	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:21545078C>T	uc004czx.1	+	10	1087	c.1051C>T	c.(1051-1053)CTC>TTC	p.L351F	CNKSR2_uc004czw.2_Missense_Mutation_p.L351F|CNKSR2_uc011mjn.1_Missense_Mutation_p.L302F|CNKSR2_uc011mjo.1_Missense_Mutation_p.L351F|CNKSR2_uc004czy.2_5'UTR	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	351	DUF1170.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						CCTCCAGGATCTCTACATTCC	0.483													167	635					0	0	0.01441	0	0		T	21545078	T	T	21545078	3	4	25	1	0	0	0	0	1	0	0	0	3610	913	32	4	1089	4	CNKSR2	23	21545078	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	11680601	21545078	133725482	1130	22130											
EIF2S3	1968	broad.mit.edu	37	chrX	24086182	24086182	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaattgtatcactttttgcGgagcataatgatctgcaata	14	14	7	6	1	2	1	1	1	1	0	2	2	2	2	0	1	3	3	0	1	6	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:24086182G>A	uc004dbc.2	+	9	990	c.969G>A	c.(967-969)GCG>GCA	p.A323A		NM_001415	NP_001406	P41091	IF2G_HUMAN	eukaryotic translation initiation factor 2,	323						cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			lung(1)	1						CACTTTTTGCGGAGCATAATG	0.378													39	132					0	0	0.005524	0	0		A	24086182	A	A	24086182	2	1	25	1	0	0	0	0	0	0	0	1	5017	1103	39	1		1	EIF2S3	23	24086182	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2541104	24086182	131184378	1131	22131											
MAGEB2	4113	broad.mit.edu	37	chrX	30236810	30236810	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaagcagaggaagaagaggCcccctgctgttcctcttctg	9	9	12	11	0	2	4	0	1	2	3	3	5	3	5	3	2	2	3	3	2	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:30236810C>A	uc004dbz.2	+	2	216	c.113C>A	c.(112-114)GCC>GAC	p.A38D		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	38							protein binding			ovary(1)	1						GAAGAAGAGGCCCCCTGCTGT	0.602													16	33					6.31663e-08	6.56834e-08	0.003163	1	0		A	30236810	A	A	30236810	3	1	25	1	0	0	0	0	1	0	0	0	9194	739	26	5	115	5	MAGEB2	23	30236810	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6150628	30236810	125033750	1132	22132											
XK	7504	broad.mit.edu	37	chrX	37545411	37545411	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgacctcagccgcgaccGcccgctcgtactgctgctgc	4	6	11	20	7	1	0	1	0	0	0	2	2	1	0	5	0	5	4	5	0	1	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:37545411G>A	uc004ddq.2	+	1	279	c.197G>A	c.(196-198)CGC>CAC	p.R66H		NM_021083	NP_066569	P51811	XK_HUMAN	membrane transport protein XK	66	Cytoplasmic (Potential).				amino acid transport	integral to membrane	protein binding|transporter activity				0		all_lung(315;0.175)				AGCCGCGACCGCCCGCTCGTA	0.657													3	19					0	0	0.014758	0	0		A	37545411	A	A	37545411	3	1	25	1	0	0	0	0	1	0	0	0	17457	1087	38	1	199	1	XK	23	37545411	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	7308601	37545411	117725149	1133	22133											
TSPAN7	7102	broad.mit.edu	37	chrX	38540530	38540530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggagtggcgtttggaatcGcattctcccaggtagcctac	7	11	12	11	2	1	0	0	0	1	0	3	2	1	2	2	4	2	3	2	4	3	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:38540530G>A	uc004deg.3	+	6	739	c.670G>A	c.(670-672)GCA>ACA	p.A224T	TSPAN7_uc011mkj.1_Missense_Mutation_p.A250T|TSPAN7_uc011mkk.1_Missense_Mutation_p.A241T|TSPAN7_uc004deh.2_Missense_Mutation_p.A132T	NM_004615	NP_004606	P41732	TSN7_HUMAN	tetraspanin 7	224	Helical; (Potential).				interspecies interaction between organisms	integral to plasma membrane				ovary(1)	1						GTTTGGAATCGCATTCTCCCA	0.498													44	164					0	0	0.01441	0	0		A	38540530	A	A	38540530	3	1	25	1	0	0	0	0	1	0	0	0	16678	1087	38	1	692	1	TSPAN7	23	38540530	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	995119	38540530	116730030	1134	22134											
DUSP21	63904	broad.mit.edu	37	chrX	44703614	44703614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttaccgatgctcgtgactCgcgtctctacgacttttttg	5	16	9	11	5	1	1	0	1	1	0	4	3	1	1	1	0	3	2	1	0	2	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:44703614C>T	uc004dgd.2	+	1	366	c.236C>T	c.(235-237)TCG>TTG	p.S79L		NM_022076	NP_071359	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	79	Tyrosine-protein phosphatase.|Sufficient for mitochondrial localization (By similarity).					cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			large_intestine(1)|lung(1)	2						GCTCGTGACTCGCGTCTCTAC	0.527													44	186					0	0	0.010771	0	0		T	44703614	T	T	44703614	3	4	25	1	0	0	0	0	1	0	0	0	4826	893	31	1	238	1	DUSP21	23	44703614	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	6163084	44703614	110566946	1135	22135											
UBA1	7317	broad.mit.edu	37	chrX	47061595	47061595	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgacacctccaacttctcCgactacatccgtggaggcat	9	10	8	14	2	1	1	0	1	1	0	4	3	3	2	4	2	2	1	4	2	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:47061595C>T	uc004dhj.3	+	9	1003	c.852C>T	c.(850-852)TCC>TCT	p.S284S	UBA1_uc004dhk.3_Silent_p.S284S|INE1_uc004dhl.2_5'Flank	NM_153280	NP_695012	P22314	UBA1_HUMAN	ubiquitin-activating enzyme E1	284	2 approximate repeats.				cell death|protein modification process		ATP binding|ligase activity|protein binding|small protein activating enzyme activity			ovary(1)	1						CCAACTTCTCCGACTACATCC	0.507													10	42					0	0	0.006214	0	0		T	47061595	T	T	47061595	2	4	25	1	0	0	0	0	0	0	0	1	16853	639	23	1		1	UBA1	23	47061595	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2357981	47061595	108208965	1136	22136											
ZNF157	7712	broad.mit.edu	37	chrX	47272407	47272407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtgtgggaaaaacttccGtgcaaagaaatccctaaatc	15	8	10	8	1	0	1	0	0	0	1	3	3	2	3	2	2	2	1	2	2	6	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:47272407G>A	uc004dhr.1	+	4	1004	c.935G>A	c.(934-936)CGT>CAT	p.R312H		NM_003446	NP_003437	P51786	ZN157_HUMAN	zinc finger protein 157	312	C2H2-type 6.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AAAAACTTCCGTGCAAAGAAA	0.428													10	37					0	0	0.010729	0	0		A	47272407	A	A	47272407	3	1	25	1	0	0	0	0	1	0	0	0	17762	1145	40	1	949	1	ZNF157	23	47272407	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	210812	47272407	107998153	1137	22137											
DGKK	139189	broad.mit.edu	37	chrX	50213377	50213377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtggcaggttctggggccgGctctgtggcaggttctgggg	2	11	20	8	1	3	0	0	0	3	0	3	0	3	0	1	9	0	5	1	9	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:50213377G>A	uc010njr.1	-	1	361	c.301C>T	c.(301-303)CCG>TCG	p.P101S		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	101	14.|33 X 4 AA approximate tandem repeats of E-P-A-P.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					tctggggccggctctgtggca	0.1													6	173					0	0	0.00308	0	0		A	50213377	A	A	50213377	3	1	25	1	0	0	0	0	1	0	0	0	4478	1203	42	2	3625	2	DGKK	23	50213377	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2940970	50213377	105057183	1138	22138											
KDM5C	8242	broad.mit.edu	37	chrX	53231066	53231066	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaaaagttgacagcctcGgcaaagttgtagccttggtt	10	11	12	8	1	0	1	0	1	0	0	1	1	0	1	2	2	3	6	2	2	4	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:53231066G>A	uc004drz.2	-	13	2369	c.1836C>T	c.(1834-1836)GCC>GCT	p.A612A	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Silent_p.A545A|KDM5C_uc004dsa.2_Silent_p.A611A	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	612	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						TGACAGCCTCGGCAAAGTTGT	0.547			N|F|S		clear cell renal carcinoma								22	93					0	0	0.016522	0	0		A	53231066	A	A	53231066	2	1	25	1	0	0	0	0	0	0	0	1	8151	1103	39	1		1	KDM5C	23	53231066	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	3017689	53231066	102039494	1139	22139											
SMC1A	8243	broad.mit.edu	37	chrX	53436052	53436052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcctttcgctgctggcGgctgctctcctggcggtcga	1	12	13	15	4	2	0	0	0	2	0	5	1	2	0	2	4	3	4	2	4	0	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:53436052G>A	uc004dsg.2	-	9	1555	c.1486C>T	c.(1486-1488)CGC>TGC	p.R496C	SMC1A_uc011moe.1_Missense_Mutation_p.R474C|SMC1A_uc011mof.1_Missense_Mutation_p.R262C	NM_006306	NP_006297	Q14683	SMC1A_HUMAN	structural maintenance of chromosomes 1A	496	Potential.		R -> C (in CDLS2; affects the affinity of SMC hinge dimers for DNA; mutated hinge dimers bind DNA with higher affinity than wild-type proteins).|R -> H (in CDLS2; affects the affinity of SMC hinge dimers for DNA; mutated hinge dimers bind DNA with higher affinity than wild-type proteins).		cell cycle checkpoint|cell division|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic sister chromatid cohesion|mitotic spindle organization|negative regulation of DNA endoreduplication|nuclear mRNA splicing, via spliceosome|response to radiation|signal transduction in response to DNA damage	cohesin core heterodimer|condensed chromosome kinetochore|condensed nuclear chromosome|cytoplasm|meiotic cohesin complex|nucleoplasm	ATP binding|chromatin binding|microtubule motor activity|protein heterodimerization activity			ovary(5)|central_nervous_system(1)	6						CGCTGCTGGCGGCTGCTCTCC	0.512													31	88					0	0	0.007835	0	0		A	53436052	A	A	53436052	3	1	25	1	0	0	0	0	1	0	0	0	14806	1116	39	1	2283	1	SMC1A	23	53436052	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	204986	53436052	101834508	1140	22140											
FGD1	2245	broad.mit.edu	37	chrX	54496509	54496509	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgtccttctcttcctcCtcctcctcgtcgtcctcctc	0	17	3	21	2	2	0	0	0	2	0	14	0	9	0	7	0	0	0	7	0	0	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:54496509C>T	uc004dtg.2	-	4	1775	c.1041G>A	c.(1039-1041)GAG>GAA	p.E347E	FGD1_uc011moi.1_Silent_p.E105E	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	347					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						tctcttcctcctcctcctcgt	0.498													7	55					0	0	0.00308	0	0		T	54496509	T	T	54496509	2	4	25	1	0	0	0	0	0	0	0	1	5846	680	24	4		4	FGD1	23	54496509	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	1060457	54496509	100774051	1141	22141											
ARHGEF9	23229	broad.mit.edu	37	chrX	62893977	62893977	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcaatattctctaaacgtcGcttgcgttcgttgatctgct	7	16	8	10	4	3	1	1	1	2	0	6	1	3	1	0	0	3	4	0	0	4	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:62893977G>A	uc004dvl.2	-	6	1704	c.865C>T	c.(865-867)CGA>TGA	p.R289*	ARHGEF9_uc004dvj.1_Nonsense_Mutation_p.R178*|ARHGEF9_uc004dvk.1_Nonsense_Mutation_p.R151*|ARHGEF9_uc011mos.1_Nonsense_Mutation_p.R268*|ARHGEF9_uc004dvm.1_Nonsense_Mutation_p.R268*|ARHGEF9_uc011mot.1_Nonsense_Mutation_p.R236*|ARHGEF9_uc004dvn.2_Nonsense_Mutation_p.R296*	NM_015185	NP_056000	O43307	ARHG9_HUMAN	Cdc42 guanine exchange factor 9	289					apoptosis|induction of apoptosis by extracellular signals|ion transmembrane transport|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(5)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	8						TCTAAACGTCGCTTGCGTTCG	0.458													8	70					0	0	0.004007	0	0		A	62893977	A	A	62893977	4	1	25	1	0	0	0	0	0	1	0	0	912	1095	38	1	705	1	ARHGEF9	23	62893977	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	8397468	62893977	92376583	1142	22142											
TAF1	6872	broad.mit.edu	37	chrX	70683799	70683799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagcagcgctctgggcCgagcgtactaagccaggtcc	9	5	15	12	3	1	1	0	0	1	1	2	3	2	2	3	3	5	3	3	3	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:70683799C>T	uc004dzu.3	+	38	5573	c.5522C>T	c.(5521-5523)CCG>CTG	p.P1841L	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.P1862L|TAF1_uc004dzv.3_Missense_Mutation_p.P1049L|TAF1_uc010nle.1_Intron|TAF1_uc010nlf.1_Intron|TAF1_uc004dzx.2_Intron|TAF1_uc004dzy.2_Intron|TAF1_uc004dzw.1_Intron|TAF1_uc010nlg.1_Intron	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	1841	Asp/Glu-rich (acidic tail).|Protein kinase 2.				G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				CGCTCTGGGCCGAGCGTACTA	0.468													7	33					0	0	0.001984	0	0		T	70683799	T	T	70683799	3	4	25	1	0	0	0	0	1	0	0	0	15538	652	23	1	5735	1	TAF1	23	70683799	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	7789822	70683799	84586761	1143	22143											
RGAG4	340526	broad.mit.edu	37	chrX	71350736	71350736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggatttcatccaggaagcGcgggaagttggcatgcaagg	11	7	15	8	3	1	0	1	0	0	0	2	3	2	3	1	5	2	3	1	5	3	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:71350736G>A	uc010nlh.1	-	1	1016	c.655C>T	c.(655-657)CGC>TGC	p.R219C	NHSL2_uc011mqa.1_Intron|RGAG4_uc004eaj.1_RNA|NHSL2_uc004eak.1_5'Flank	NM_001024455	NP_001019626	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	219										ovary(2)|skin(1)	3	Renal(35;0.156)					TCCAGGAAGCGCGGGAAGTTG	0.587													24	121					0	0	0.01892	0	0		A	71350736	A	A	71350736	3	1	25	1	0	0	0	0	1	0	0	0	13300	1087	38	1	1058	1	RGAG4	23	71350736	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	666937	71350736	83919824	1144	22144											
PHKA1	5255	broad.mit.edu	37	chrX	71813030	71813030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatccagccttcttcggCgttgccattgaccttgacga	6	11	8	16	3	1	2	0	2	1	0	3	3	2	2	6	1	2	1	6	1	0	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:71813030C>T	uc004eax.3	-	29	3468	c.3167G>A	c.(3166-3168)CGC>CAC	p.R1056H	PHKA1_uc004eay.3_Missense_Mutation_p.R1043H|PHKA1_uc011mqi.1_Missense_Mutation_p.R984H|PHKA1_uc010nll.2_Missense_Mutation_p.R88H	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	1056	Calmodulin-binding (Potential).				glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					CCTTCTTCGGCGTTGCCATTG	0.438													7	266					0	0	0.008291	0	0		T	71813030	T	T	71813030	3	4	25	1	0	0	0	0	1	0	0	0	11862	768	27	1	520	1	PHKA1	23	71813030	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	462294	71813030	83457530	1145	22145											
BRWD3	254065	broad.mit.edu	37	chrX	79951476	79951476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaggaagtcaatgacatccgGcatgtcatgatacctataca	15	9	8	9	1	2	2	2	2	0	0	3	3	3	3	2	2	2	1	2	2	6	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:79951476G>A	uc004edt.2	-	27	3345	c.3082C>T	c.(3082-3084)CCG>TCG	p.P1028S	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.P624S|BRWD3_uc004edp.2_Missense_Mutation_p.P857S|BRWD3_uc004edq.2_Missense_Mutation_p.P624S|BRWD3_uc010nmj.1_Missense_Mutation_p.P624S|BRWD3_uc004edr.2_Missense_Mutation_p.P698S|BRWD3_uc004eds.2_Missense_Mutation_p.P624S|BRWD3_uc004edu.2_Missense_Mutation_p.P698S|BRWD3_uc004edv.2_Missense_Mutation_p.P624S|BRWD3_uc004edw.2_Missense_Mutation_p.P624S|BRWD3_uc004edx.2_Missense_Mutation_p.P624S|BRWD3_uc004edy.2_Missense_Mutation_p.P624S|BRWD3_uc004edz.2_Missense_Mutation_p.P698S|BRWD3_uc004eea.2_Missense_Mutation_p.P698S|BRWD3_uc004eeb.2_Missense_Mutation_p.P624S	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	1028										ovary(4)	4						ATGACATCCGGCATGTCATGA	0.299													11	72					0	0	0.010729	0	0		A	79951476	A	A	79951476	3	1	25	1	0	0	0	0	1	0	0	0	1529	1203	42	2	2386	2	BRWD3	23	79951476	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	8138446	79951476	75319084	1146	22146											
GPRASP1	9737	broad.mit.edu	37	chrX	101912464	101912464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaccttgcttaattatcCgtcctcccgagttagaacaa	12	12	6	11	2	0	2	0	1	0	1	3	3	3	2	4	0	3	2	4	0	6	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:101912464C>T	uc004ejj.3	+	5	4424	c.3623C>T	c.(3622-3624)CCG>CTG	p.P1208L	GPRASP1_uc004eji.3_Missense_Mutation_p.P1208L|GPRASP1_uc010nod.2_Missense_Mutation_p.P1208L	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	1208	OPRD1-binding.					cytoplasm	protein binding			ovary(1)|lung(1)	2						CTTAATTATCCGTCCTCCCGA	0.378													44	199					0	0	0.009718	0	0		T	101912464	T	T	101912464	3	4	25	1	0	0	0	0	1	0	0	0	6738	652	23	1	3625	1	GPRASP1	23	101912464	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	21960988	101912464	53358096	1147	22147											
PLP1	5354	broad.mit.edu	37	chrX	103031929	103031929	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagtcccaaagacatgggTaagtttcaaaaactttagca	16	9	8	8	0	1	2	1	0	0	2	2	2	2	2	1	1	2	3	1	1	5	4	rs113104205		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:103031929T>C	uc010nov.2	+	2	284	c.4_splice	c.e2+2	p.G2_splice	RAB9B_uc004eli.1_Intron|PLP1_uc004elk.2_Splice_Site_p.G2_splice|PLP1_uc004elj.2_Splice_Site_p.G2_splice|PLP1_uc011msf.1_Splice_Site_p.D2_splice	NM_001128834	NP_001122306	P60201	MYPR_HUMAN	proteolipid protein 1 isoform 1						cell death|synaptic transmission	integral to membrane				ovary(1)	1						AAGACATGGGTAAGTTTCAAA	0.468													8	46					0	0	0.00308	0	0		C	103031929	C	C	103031929	5	2	25	1	0	0	0	0	0	0	1	0	12123	1652	57	3	8	3	PLP1	23	103031929	Splice_Site	SNP	T	TCGA-BR-4370-01A-01D-1158-08	1119465	103031929	52238631	1148	22148											
PRPS1	5631	broad.mit.edu	37	chrX	106888486	106888486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggccaatgaagtggacCgcatggtgcttgtgggagat	11	8	16	6	1	0	3	0	1	0	2	0	5	0	4	2	4	1	2	2	4	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:106888486C>T	uc004ene.3	+	5	815	c.610C>T	c.(610-612)CGC>TGC	p.R204C	PRPS1_uc010npg.2_Missense_Mutation_p.R171C|PRPS1_uc011msj.1_5'UTR	NM_002764	NP_002755	P60891	PRPS1_HUMAN	phosphoribosyl pyrophosphate synthetase 1	204					5-phosphoribose 1-diphosphate biosynthetic process|hypoxanthine biosynthetic process|nervous system development|nucleoside metabolic process|purine nucleotide biosynthetic process|pyrimidine nucleotide biosynthetic process|ribonucleoside monophosphate biosynthetic process|urate biosynthetic process	cytosol	ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			breast(3)|large_intestine(1)	4						TGAAGTGGACCGCATGGTGCT	0.507													87	434					0	0	0.01441	0	0		T	106888486	T	T	106888486	3	4	25	1	0	0	0	0	1	0	0	0	12600	652	23	1	628	1	PRPS1	23	106888486	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	3856557	106888486	48382074	1149	22149											
IRS4	8471	broad.mit.edu	37	chrX	107978366	107978366	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggagtgggccacaggctcGctgggtgttacgaagcgcct	6	8	16	11	3	0	0	0	0	0	0	1	2	0	1	2	4	2	3	2	4	2	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:107978366G>A	uc004eoc.2	-	1	1242	c.1209C>T	c.(1207-1209)AGC>AGT	p.S403S		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	403						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						CCACAGGCTCGCTGGGTGTTA	0.622													41	117					0	0	0.011902	0	0		A	107978366	A	A	107978366	2	1	25	1	0	0	0	0	0	0	0	1	7858	1078	38	1		1	IRS4	23	107978366	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1089880	107978366	47292194	1150	22150											
RGAG1	57529	broad.mit.edu	37	chrX	109697463	109697463	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggttcatcttgcaaatggaGgtaggagaacctctctcaca	11	11	10	9	0	4	1	2	0	2	1	5	3	4	2	1	4	2	3	1	4	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:109697463G>T	uc004eor.1	+	3	3864	c.3618G>T	c.(3616-3618)GAG>GAT	p.E1206D	RGAG1_uc011msr.1_Missense_Mutation_p.E1206D	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	1206										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TGCAAATGGAGGTAGGAGAAC	0.438													50	199					8.04919e-23	8.74472e-23	0.01441	1	0		T	109697463	T	T	109697463	3	4	25	1	0	0	0	0	1	0	0	0	13299	991	35	5	3620	5	RGAG1	23	109697463	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	1719097	109697463	45573097	1151	22151											
AMOT	154796	broad.mit.edu	37	chrX	112054602	112054602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatatgcctccgagacgCgctggatttctgtctccacc	6	12	8	15	3	3	1	1	0	3	1	6	3	4	2	4	1	1	1	4	1	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:112054602C>T	uc004epr.2	-	3	1412	c.1412G>A	c.(1411-1413)CGC>CAC	p.R471H	AMOT_uc004eps.2_Missense_Mutation_p.R62H|AMOT_uc004ept.1_Missense_Mutation_p.R471H	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	471	Potential.				actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						CTCCGAGACGCGCTGGATTTC	0.483													70	223					0	0	0.01441	0	0		T	112054602	T	T	112054602	3	4	25	1	0	0	0	0	1	0	0	0	582	768	27	1	1878	1	AMOT	23	112054602	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2357139	112054602	43215958	1152	22152											
ODZ1	10178	broad.mit.edu	37	chrX	123518248	123518248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattcagatcgtaactataaCgccactgggttttgtcattt	10	15	7	9	2	2	1	2	0	0	1	3	1	2	1	1	1	2	2	1	1	3	7			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:123518248C>T	uc004euj.2	-	29	6576	c.6512G>A	c.(6511-6513)CGT>CAT	p.R2171H	ODZ1_uc011muj.1_Missense_Mutation_p.R2177H|ODZ1_uc010nqy.2_Missense_Mutation_p.R2178H	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2171	YD 17.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GTAACTATAACGCCACTGGGT	0.443													41	208					0	0	0.006999	0	0		T	123518248	T	T	123518248	3	4	25	1	0	0	0	0	1	0	0	0	10853	536	19	1	1677	1	ODZ1	23	123518248	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	11463646	123518248	31752312	1153	22153											
ODZ1	10178	broad.mit.edu	37	chrX	123556221	123556221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggttacttgctgaatgcGgtttactttcctctcgtctg	4	17	11	9	2	2	1	0	1	2	0	4	1	3	1	1	3	4	3	1	3	3	5			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:123556221G>A	uc004euj.2	-	23	4415	c.4351C>T	c.(4351-4353)CGC>TGC	p.R1451C	ODZ1_uc011muj.1_Missense_Mutation_p.R1457C|ODZ1_uc010nqy.2_Missense_Mutation_p.R1458C	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1451	NHL 4.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TGCTGAATGCGGTTTACTTTC	0.502													54	233					0	0	0.01441	0	0		A	123556221	A	A	123556221	3	1	25	1	0	0	0	0	1	0	0	0	10853	1116	39	1	3862	1	ODZ1	23	123556221	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	37973	123556221	31714339	1154	22154											
MAP7D3	79649	broad.mit.edu	37	chrX	135314317	135314317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cataacagccctcaattcgtCgctagtacatttacgcaagg	12	10	7	12	3	1	0	1	0	0	0	3	0	1	0	1	1	4	3	1	1	6	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:135314317C>T	uc004ezt.2	-	8	890	c.799G>A	c.(799-801)GAC>AAC	p.D267N	MAP7D3_uc004ezs.2_Missense_Mutation_p.D231N|MAP7D3_uc011mwc.1_Missense_Mutation_p.D249N|MAP7D3_uc010nsa.1_Intron	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	267						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					CTCAATTCGTCGCTAGTACAT	0.423													77	327					0	0	0.01441	0	0		T	135314317	T	T	135314317	3	4	25	1	0	0	0	0	1	0	0	0	9287	884	31	1	1875	1	MAP7D3	23	135314317	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	11758096	135314317	19956243	1155	22155											
RBMX	27316	broad.mit.edu	37	chrX	135957469	135957469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actggaatgaccataatcacGgtaagtataatctcgtggtg	13	11	10	7	2	2	1	1	1	1	0	3	2	2	2	1	3	0	2	1	3	5	4			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:135957469G>A	uc004fae.1	-	7	940	c.730C>T	c.(730-732)CGT>TGT	p.R244C	RBMX_uc004fac.1_5'Flank|RBMX_uc011mwf.1_Silent_p.T135T|RBMX_uc004fad.1_Missense_Mutation_p.R244C|RBMX_uc011mwg.1_Missense_Mutation_p.R205C|RBMX_uc004faf.1_Missense_Mutation_p.R105C|RBMX_uc010nsf.1_Missense_Mutation_p.R205C|RBMX_uc004fag.1_Missense_Mutation_p.R116C	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	244						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					CCATAATCACGGTAAGTATAA	0.393													4	183					0	0	0.009096	0	0		A	135957469	A	A	135957469	3	1	25	1	0	0	0	0	1	0	0	0	13176	1116	39	1	512	1	RBMX	23	135957469	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	643152	135957469	19313091	1156	22156											
RBMX	27316	broad.mit.edu	37	chrX	135961490	135961490	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactcaccttccactattcGtccatatttgccaaatactg	11	13	3	14	1	1	0	1	0	0	0	4	0	3	0	4	0	3	0	4	0	5	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:135961490G>A	uc004fae.1	-	2	307	c.97C>T	c.(97-99)CGA>TGA	p.R33*	RBMX_uc011mwf.1_Nonsense_Mutation_p.R33*|RBMX_uc004fad.1_Nonsense_Mutation_p.R33*|RBMX_uc011mwg.1_Translation_Start_Site|RBMX_uc004faf.1_Translation_Start_Site|RBMX_uc010nsf.1_Intron|RBMX_uc004fag.1_Intron|SNORD61_uc004fah.1_5'Flank	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	33	RRM.					catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TCCACTATTCGTCCATATTTG	0.393													54	269					0	0	0.01441	0	0		A	135961490	A	A	135961490	4	1	25	1	0	0	0	0	0	1	0	0	13176	1153	40	1	1165	1	RBMX	23	135961490	Nonsense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	4021	135961490	19309070	1157	22157											
ZIC3	7547	broad.mit.edu	37	chrX	136649750	136649750	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccacgtctgctactgggaGgagtgcccccgggagggcaa	9	5	15	12	2	1	0	0	0	1	0	1	3	1	3	3	4	4	2	3	4	3	1			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:136649750G>T	uc004fak.2	+	1	1405	c.900G>T	c.(898-900)GAG>GAT	p.E300D		NM_003413	NP_003404	O60481	ZIC3_HUMAN	zinc finger protein of the cerebellum 3	300	Nuclear localization signal.|C2H2-type 2; atypical.				cell differentiation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GCTACTGGGAGGAGTGCCCCC	0.617													31	199					2.08457e-15	2.22967e-15	0.010818	1	0		T	136649750	T	T	136649750	3	4	25	1	0	0	0	0	1	0	0	0	17705	991	35	5	902	5	ZIC3	23	136649750	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	688260	136649750	18620810	1158	22158											
SOX3	6658	broad.mit.edu	37	chrX	139586578	139586578	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacttatctttcttgagcagCgtcttggtcttgcggcgcgg	4	15	12	10	4	4	1	0	1	4	0	4	1	4	1	0	3	4	1	0	3	2	6			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:139586578C>T	uc004fbd.1	-	1	648	c.648G>A	c.(646-648)ACG>ACA	p.T216T		NM_005634	NP_005625	P41225	SOX3_HUMAN	SRY (sex determining region Y)-box 3	216					face development|hypothalamus development|negative regulation of neuron differentiation|pituitary gland development|regulation of transcription, DNA-dependent|sensory organ development|sex determination|transcription, DNA-dependent	nucleus	DNA binding			pancreas(1)	1	Acute lymphoblastic leukemia(192;7.65e-05)					TCTTGAGCAGCGTCTTGGTCT	0.468													17	77					0	0	0.006122	0	0		T	139586578	T	T	139586578	2	4	25	1	0	0	0	0	0	0	0	1	14976	755	27	1		1	SOX3	23	139586578	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	2936828	139586578	15683982	1159	22159											
GPR50	9248	broad.mit.edu	37	chrX	150348463	150348463	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctgccacagcctccagtaCgaacggatcttcagtgtgcg	9	9	10	13	3	3	0	1	0	2	0	4	2	4	1	3	1	5	1	3	1	2	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:150348463C>T	uc010ntg.1	+	2	543	c.408C>T	c.(406-408)TAC>TAT	p.Y136Y	uc004fes.1_5'Flank|GPR50_uc011myc.1_Silent_p.Y136Y	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	136	Cytoplasmic (Potential).				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GCCTCCAGTACGAACGGATCT	0.542													30	134					0	0	0.011902	0	0		T	150348463	T	T	150348463	2	4	25	1	0	0	0	0	0	0	0	1	6712	547	19	1		1	GPR50	23	150348463	Silent	SNP	C	TCGA-BR-4370-01A-01D-1158-08	10761885	150348463	4922097	1160	22160											
ABCD1	215	broad.mit.edu	37	chrX	153001646	153001646	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagaagccttcactattGcccgcaacctcctgacagcg	10	7	8	16	2	1	2	1	1	0	1	2	2	2	2	4	0	4	2	4	0	3	3			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:153001646G>A	uc004fif.2	+	3	1561	c.1162G>A	c.(1162-1164)GCC>ACC	p.A388T	ABCD1_uc004fig.2_5'Flank	NM_000033	NP_000024	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member	388					fatty acid beta-oxidation using acyl-CoA oxidase|peroxisomal membrane transport|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|identical protein binding|peroxisomal fatty-acyl-CoA transporter activity				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTTCACTATTGCCCGCAACCT	0.602													30	191					0	0	0.017118	0	0		A	153001646	A	A	153001646	3	1	25	1	0	0	0	0	1	0	0	0	60	1319	46	2	1172	2	ABCD1	23	153001646	Missense_Mutation	SNP	G	TCGA-BR-4370-01A-01D-1158-08	2653183	153001646	2268914	1161	22161											
SSR4	6748	broad.mit.edu	37	chrX	153063827	153063827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccactgaggtgctggctgCggcgatcggccttgtgatct	4	11	15	11	3	1	2	0	2	1	0	3	3	2	2	2	4	2	2	2	4	0	1	rs142189119		TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:153063827C>T	uc004fiw.2	+	6	510	c.461C>T	c.(460-462)GCG>GTG	p.A154V	SSR4_uc004fiv.2_Missense_Mutation_p.A165V	NM_006280	NP_006271	P51571	SSRD_HUMAN	signal sequence receptor, delta precursor	154	Helical; (Potential).				intracellular protein transport	integral to membrane|Sec61 translocon complex	calcium ion binding|protein binding				0	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					GTGCTGGCTGCGGCGATCGGC	0.592													6	22					0	0	0.001168	0	0		T	153063827	T	T	153063827	3	4	25	1	0	0	0	0	1	0	0	0	15218	768	27	1	483	1	SSR4	23	153063827	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	62181	153063827	2206733	1162	22162											
L1CAM	3897	broad.mit.edu	37	chrX	153130652	153130652	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactccaggtgcaacgcctcGgggtggccaggcactgcagg	7	5	15	14	2	0	0	0	0	0	0	2	0	1	0	3	6	3	3	3	6	1	0			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:153130652G>A	uc004fjb.2	-	21	2871	c.2763C>T	c.(2761-2763)CCC>CCT	p.P921P	L1CAM_uc004fjc.2_Silent_p.P921P|L1CAM_uc010nuo.2_Silent_p.P916P	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	921	Extracellular (Potential).|Fibronectin type-III 4.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCAACGCCTCGGGGTGGCCAG	0.682													8	34					0	0	0.004482	0	0		A	153130652	A	A	153130652	2	1	25	1	0	0	0	0	0	0	0	1	8604	1103	39	1		1	L1CAM	23	153130652	Silent	SNP	G	TCGA-BR-4370-01A-01D-1158-08	66825	153130652	2139908	1163	22163											
PLXNA3	55558	broad.mit.edu	37	chrX	153689697	153689697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccatcggctgctcctggCgcggcgtggagtaccgcttg	3	9	14	15	5	0	0	0	0	0	0	3	1	2	1	4	4	2	4	4	4	1	2			TCGA-BR-4370-01A-01D-1158-08	TCGA-BR-4370-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	ff3bb252-cc2a-4053-b9c6-6e6fd8de6d8e	18ac71f7-5e0b-4232-b724-197e4e4c1ea8	g.chrX:153689697C>T	uc004flm.2	+	3	1026	c.853C>T	c.(853-855)CGC>TGC	p.R285C		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	285	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTGCTCCTGGCGCGGCGTGGA	0.637													30	127					0	0	0.008361	0	0		T	153689697	T	T	153689697	3	4	25	1	0	0	0	0	1	0	0	0	12140	768	27	1	859	1	PLXNA3	23	153689697	Missense_Mutation	SNP	C	TCGA-BR-4370-01A-01D-1158-08	559045	153689697	1580863	1164	22164											
UBE4B	10277	broad.mit.edu	37	chr1	10179613	10179613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcttctgagcaacatcCgctcacagtgcatatcccat	10	9	7	15	1	2	1	1	1	1	0	4	1	4	1	3	0	4	4	3	0	2	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:10179613C>T	uc001aqs.3	+	9	2094	c.1381C>T	c.(1381-1383)CGC>TGC	p.R461C	UBE4B_uc001aqr.3_Missense_Mutation_p.R332C|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_5'UTR	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	461					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		GAGCAACATCCGCTCACAGTG	0.498													21	76					0	0	0.234183	0	0		T	10179613	T	T	10179613	3	4	26	1	0	0	0	0	1	0	0	0	16909	652	23	1	1415	1	UBE4B	1	10179613	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08		10179613	239071008	1	22165											
LOC440563	440563	broad.mit.edu	37	chr1	13183254	13183254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tacctcttgtttgctctgttCcttttcaattttttccaggt	4	22	5	10	0	3	0	1	0	2	0	5	0	5	0	3	1	2	3	3	1	2	9			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:13183254C>T	uc010obg.1	-	1	714	c.619G>A	c.(619-621)GAA>AAA	p.E207K		NM_001136561	NP_001130033	B2RXH8	B2RXH8_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	207						ribonucleoprotein complex	nucleic acid binding|nucleotide binding				0						TTGCTCTGTTCCTTTTCAATT	0.423													142	266					0	0	0.139131	0	0		T	13183254	T	T	13183254	3	4	26	1	0	0	0	0	1	0	0	0	8897	864	30	4	266	4	LOC440563	1	13183254	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	3003641	13183254	236067367	2	22166											
RPS6KA1	6195	broad.mit.edu	37	chr1	26888152	26888152	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggagtatctgcactcacagGgggtgagtctggattcgggg	7	10	17	7	1	3	1	1	1	2	0	4	3	3	3	0	6	1	2	0	6	1	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:26888152G>C	uc001bmr.1	+	17	1751	c.1588G>C	c.(1588-1590)GGG>CGG	p.G530R	RPS6KA1_uc010ofe.1_Missense_Mutation_p.G438R|RPS6KA1_uc010off.1_Missense_Mutation_p.G514R|RPS6KA1_uc001bms.1_Missense_Mutation_p.G539R|RPS6KA1_uc009vsl.1_Missense_Mutation_p.G373R	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	530	Protein kinase 2.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		GCACTCACAGGGGGTGAGTCT	0.572													22	86					0	0	0.234183	0	0		C	26888152	C	C	26888152	3	2	26	1	0	0	0	0	1	0	0	0	13675	1232	43	5	1793	5	RPS6KA1	1	26888152	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	13704898	26888152	222362469	3	22167											
ERMAP	114625	broad.mit.edu	37	chr1	43296183	43296183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccctctcgtcttcctcCggctgtctgtgcatgtgtca	3	15	8	15	2	5	0	2	0	3	0	9	0	8	0	3	1	1	2	3	1	0	1	rs142166292	byFrequency	TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:43296183C>T	uc001cic.1	+	3	334	c.64C>T	c.(64-66)CGG>TGG	p.R22W	ERMAP_uc010ojw.1_Missense_Mutation_p.R83W|ERMAP_uc001cid.1_Intron|ERMAP_uc001cie.1_Missense_Mutation_p.R22W|ERMAP_uc001cif.1_5'UTR	NM_001017922	NP_001017922	Q96PL5	ERMAP_HUMAN	erythroblast membrane-associated protein	22						integral to membrane|plasma membrane				ovary(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CGTCTTCCTCCGGCTGTCTGT	0.557													34	70					0	0	0.139131	0	0		T	43296183	T	T	43296183	3	4	26	1	0	0	0	0	1	0	0	0	5242	643	23	1	66	1	ERMAP	1	43296183	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	16408031	43296183	205954438	4	22168											
ZNF691	51058	broad.mit.edu	37	chr1	43317331	43317331	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtgtgggcggaccttcagCgatatctccaactttggagc	8	10	13	10	2	2	0	1	0	1	0	3	4	2	2	2	3	3	0	2	3	2	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:43317331C>T	uc001cih.2	+	2	834	c.783C>T	c.(781-783)AGC>AGT	p.S261S	ZNF691_uc001cig.2_Silent_p.S234S|ZNF691_uc009vwm.2_Silent_p.S254S	NM_015911	NP_056995	Q5VV52	ZN691_HUMAN	zinc finger protein 691	265	C2H2-type 6.					nucleus	DNA binding|zinc ion binding			ovary(2)	2	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GGACCTTCAGCGATATCTCCA	0.577													27	85					0	0	0.116897	0	0		T	43317331	T	T	43317331	2	4	26	1	0	0	0	0	0	0	0	1	18121	767	27	1		1	ZNF691	1	43317331	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	21148	43317331	205933290	5	22169											
TIE1	7075	broad.mit.edu	37	chr1	43778103	43778103	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgctgcgcctgtgggaCgggacacgggggcaggagcg	5	6	19	11	4	0	0	0	0	0	0	1	3	1	3	2	5	3	2	2	5	0	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:43778103C>T	uc001ciu.2	+	12	1837	c.1758C>T	c.(1756-1758)GAC>GAT	p.D586D	TIE1_uc010okd.1_Silent_p.D586D|TIE1_uc010oke.1_Silent_p.D541D|TIE1_uc009vwq.2_Silent_p.D542D|TIE1_uc010okf.1_Silent_p.D231D|TIE1_uc010okg.1_Silent_p.D231D	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	586	Fibronectin type-III 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GCCTGTGGGACGGGACACGGG	0.697													28	47					0	0	0.214465	0	0		T	43778103	T	T	43778103	2	4	26	1	0	0	0	0	0	0	0	1	15918	535	19	1		1	TIE1	1	43778103	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	460772	43778103	205472518	6	22170											
SPATA6	54558	broad.mit.edu	37	chr1	48865100	48865100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttaaatgggccagccgccGcctggtgtcttcagatagct	8	11	11	11	2	2	1	1	0	1	1	2	1	2	1	4	2	2	1	4	2	3	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:48865100G>A	uc001crr.1	-	7	868	c.703C>T	c.(703-705)CGG>TGG	p.R235W	SPATA6_uc001crs.1_Missense_Mutation_p.R235W|SPATA6_uc010omv.1_Missense_Mutation_p.R221W|SPATA6_uc001crt.2_Missense_Mutation_p.R127W	NM_019073	NP_061946	Q9NWH7	SPAT6_HUMAN	spermatogenesis associated 6 precursor	235					cell differentiation|multicellular organismal development|spermatogenesis	extracellular region				ovary(1)	1						GCCAGCCGCCGCCTGGTGTCT	0.408													69	191					0	0	0.139131	0	0		A	48865100	A	A	48865100	3	1	26	1	0	0	0	0	1	0	0	0	15038	1086	38	1	791	1	SPATA6	1	48865100	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	5086997	48865100	200385521	7	22171											
C1orf141	400757	broad.mit.edu	37	chr1	67558906	67558906	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctttatcaaggtaacccaCaaattgttttgttaggctag	12	14	8	7	0	1	0	1	0	0	0	1	0	1	0	1	2	2	5	1	2	6	8			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:67558906C>A	uc001ddl.1	-	7	1096	c.985G>T	c.(985-987)GTG>TTG	p.V329L	C1orf141_uc001ddm.1_Missense_Mutation_p.V329L|C1orf141_uc001ddn.1_RNA	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	329										ovary(1)	1						AGGTAACCCACAAATTGTTTT	0.338													56	108					6.60958e-23	7.14464e-23	0.139131	1	0		A	67558906	A	A	67558906	3	1	26	1	0	0	0	0	1	0	0	0	2004	478	17	5	221	5	C1orf141	1	67558906	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	18693806	67558906	181691715	8	22172											
LPPR5	163404	broad.mit.edu	37	chr1	99470147	99470147	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgtatactcgaagtagtaCgccagcatcaccgtccctgc	9	9	8	15	4	1	0	1	0	0	0	4	1	3	0	4	0	4	4	4	0	5	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:99470147C>T	uc001dsb.2	-	1	303	c.81G>A	c.(79-81)GCG>GCA	p.A27A	uc001dsd.1_RNA|LPPR5_uc001dsc.2_Silent_p.A27A	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	27	Helical; (Potential).					integral to membrane	hydrolase activity				0						CGAAGTAGTACGCCAGCATCA	0.587													42	42					0	0	0.139131	0	0		T	99470147	T	T	99470147	2	4	26	1	0	0	0	0	0	0	0	1	8946	523	19	1		1	LPPR5	1	99470147	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	31911241	99470147	149780474	9	22173											
SLC16A4	9122	broad.mit.edu	37	chr1	110925531	110925531	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtgccttcaaactcttcttGaaagaccacaaagaaaattg	15	10	7	9	0	3	3	1	1	2	2	3	3	3	3	2	1	2	0	2	1	5	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:110925531G>A	uc001dzo.1	-	3	327	c.145C>T	c.(145-147)CAA>TAA	p.Q49*	SLC16A4_uc009wfs.1_Nonsense_Mutation_p.Q49*|SLC16A4_uc001dzp.1_Nonsense_Mutation_p.Q49*|SLC16A4_uc010ovy.1_Intron|SLC16A4_uc001dzq.1_Intron|SLC16A4_uc010ovz.1_Intron	NM_004696	NP_004687	O15374	MOT5_HUMAN	solute carrier family 16, member 4	49	Extracellular (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			ovary(3)	3		all_cancers(81;0.000476)|all_epithelial(167;0.000401)|all_lung(203;0.00277)|Lung NSC(277;0.0043)		Lung(183;0.0251)|all cancers(265;0.0766)|Epithelial(280;0.0807)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.14)	Pyruvic acid(DB00119)	AACTCTTCTTGAAAGACCACA	0.423													33	151					0	0	0.173368	0	0		A	110925531	A	A	110925531	4	1	26	1	0	0	0	0	0	1	0	0	14435	1299	45	4	1346	4	SLC16A4	1	110925531	Nonsense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	11455384	110925531	138325090	10	22174											
ATP1A4	480	broad.mit.edu	37	chr1	160143992	160143992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagaaccaccctgagatcGtgtttgctcggacctcccct	7	10	8	16	2	0	2	0	1	0	2	4	4	2	3	6	1	2	2	6	1	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:160143992G>A	uc001fve.3	+	14	2562	c.2083G>A	c.(2083-2085)GTG>ATG	p.V695M	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Missense_Mutation_p.V198M	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	695	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			ccctgagatcgtgtttgctcg	0.244													19	109					0	0	0.189662	0	0		A	160143992	A	A	160143992	3	1	26	1	0	0	0	0	1	0	0	0	1132	1145	40	1	2137	1	ATP1A4	1	160143992	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	49218461	160143992	89106629	11	22175											
TNN	63923	broad.mit.edu	37	chr1	175046955	175046955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcccagcgctgctgccaggGagtcactggtgagctcacca	7	7	13	14	1	2	1	2	1	0	0	2	2	2	2	3	2	5	3	3	2	0	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:175046955G>A	uc001gkl.1	+	2	514	c.401G>A	c.(400-402)GGA>GAA	p.G134E	TNN_uc010pmx.1_Missense_Mutation_p.G134E	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	134					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		TGCTGCCAGGGAGTCACTGGT	0.458													13	38					0	0	0.146539	0	0		A	175046955	A	A	175046955	3	1	26	1	0	0	0	0	1	0	0	0	16348	1174	41	4	403	4	TNN	1	175046955	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	14902963	175046955	74203666	12	22176											
CFH	3075	broad.mit.edu	37	chr1	196642259	196642259	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggtatgcaggaagggagaAtgggttgctcttaatccatt	11	12	13	5	0	1	1	0	0	1	1	2	3	2	2	1	4	2	4	1	4	4	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:196642259A>C	uc001gtj.3	+	2	450	c.210A>C	c.(208-210)GAA>GAC	p.E70D	CFH_uc001gti.3_Missense_Mutation_p.E70D|CFH_uc009wyw.2_Missense_Mutation_p.E70D|CFH_uc009wyx.2_Missense_Mutation_p.E70D	NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	70	Sushi 1.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						GGAAGGGAGAATGGGTTGCTC	0.353													9	214					0	0	0.069234	0	0		C	196642259	C	C	196642259	3	2	26	1	0	0	0	0	1	0	0	0	3286	98	4	5	216	5	CFH	1	196642259	Missense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	21595304	196642259	52608362	13	22177											
LHX9	56956	broad.mit.edu	37	chr1	197890498	197890498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgcctcggagatggtcatgCgcgcccgagactctgtctac	6	8	12	15	5	3	2	1	0	2	2	4	4	3	2	3	2	2	0	3	2	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:197890498C>T	uc001guk.1	+	3	879	c.442C>T	c.(442-444)CGC>TGC	p.R148C	LHX9_uc001gui.1_Missense_Mutation_p.R139C|LHX9_uc001guj.1_Missense_Mutation_p.R154C	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	148	LIM zinc-binding 2.				motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						GATGGTCATGCGCGCCCGAGA	0.572													18	93					0	0	0.234183	0	0		T	197890498	T	T	197890498	3	4	26	1	0	0	0	0	1	0	0	0	8793	768	27	1	484	1	LHX9	1	197890498	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	1248239	197890498	51360123	14	22178											
HHAT	55733	broad.mit.edu	37	chr1	210761322	210761322	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgatgacatttgcatttgTgagctactggcatggcggct	7	12	14	8	2	0	2	0	2	0	0	0	3	0	2	0	4	3	4	0	4	1	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:210761322T>C	uc009xcx.2	+	10	1290	c.1124T>C	c.(1123-1125)GTG>GCG	p.V375A	HHAT_uc010psq.1_Missense_Mutation_p.V238A|HHAT_uc001hhz.3_Missense_Mutation_p.V375A|HHAT_uc010psr.1_Missense_Mutation_p.V376A|HHAT_uc010pss.1_Missense_Mutation_p.V330A|HHAT_uc009xcy.2_Missense_Mutation_p.V310A|HHAT_uc010pst.1_Missense_Mutation_p.V312A|HHAT_uc010psu.1_Missense_Mutation_p.V310A|HHAT_uc001hia.3_Missense_Mutation_p.V65A	NM_001122834	NP_001116306	Q5VTY9	HHAT_HUMAN	hedgehog acyltransferase	375	Helical; (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)		TTTGCATTTGTGAGCTACTGG	0.572													12	100					0	0	0.132662	0	0		C	210761322	C	C	210761322	3	2	26	1	0	0	0	0	1	0	0	0	7105	1696	59	3	1256	3	HHAT	1	210761322	Missense_Mutation	SNP	T	TCGA-BR-4371-01A-01D-1158-08	12870824	210761322	38489299	15	22179											
TGFB2	7042	broad.mit.edu	37	chr1	218614600	218614600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctgcttctccttgctgcGtgtcccaagatttagaacct	7	14	7	13	1	2	2	0	0	2	2	4	2	3	2	3	0	4	2	3	0	3	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:218614600G>A	uc001hlm.2	+	7	1794	c.1141G>A	c.(1141-1143)GTG>ATG	p.V381M	TGFB2_uc001hln.2_Missense_Mutation_p.V409M|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	381					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		TCCTTGCTGCGTGTCCCAAGA	0.413													60	178					0	0	0.139131	0	0		A	218614600	A	A	218614600	3	1	26	1	0	0	0	0	1	0	0	0	15843	1145	40	1	1255	1	TGFB2	1	218614600	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	7853278	218614600	30636021	16	22180											
ACTN2	88	broad.mit.edu	37	chr1	236894596	236894596	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagcacctggatattcctAaaatgttggatgctgaaggt	13	11	11	6	0	0	2	0	1	0	1	1	4	1	4	2	3	2	3	2	3	5	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr1:236894596A>G	uc001hyf.2	+	7	883	c.679A>G	c.(679-681)AAA>GAA	p.K227E	ACTN2_uc001hyg.2_5'UTR|ACTN2_uc009xgi.1_Missense_Mutation_p.K227E|ACTN2_uc010pxu.1_Missense_Mutation_p.K12E	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	227	CH 2.|Actin-binding.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GGATATTCCTAAAATGTTGGA	0.378													4	172					0	0	0.150653	0	0		G	236894596	G	G	236894596	3	3	26	1	0	0	0	0	1	0	0	0	205	363	13	3	705	3	ACTN2	1	236894596	Missense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	18279996	236894596	12356025	17	22181											
POMC	5443	broad.mit.edu	37	chr2	25387531	25387531	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcaggttgctttccgtggtGaggtcctgacactggctgct	5	12	14	10	1	0	2	0	2	0	0	2	2	2	2	2	4	3	5	2	4	0	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:25387531G>A	uc002rfy.1	-	3	374	c.111C>T	c.(109-111)CTC>CTT	p.L37L	POMC_uc002rfz.1_Silent_p.L37L|POMC_uc002rga.1_Silent_p.L37L	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	37					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)	TTTCCGTGGTGAGGTCCTGAC	0.597													9	123					0	0	0.047766	0	0		A	25387531	A	A	25387531	2	1	26	1	0	0	0	0	0	0	0	1	12261	1277	45	4		4	POMC	2	25387531	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08		25387531	217811842	18	22182											
NRXN1	9378	broad.mit.edu	37	chr2	50850746	50850746	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaacgtggcaatatattcTtcttttcctagaggaaaaca	13	14	7	7	1	2	2	0	1	2	1	3	3	3	3	1	2	2	1	1	2	7	8			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:50850746T>C	uc010fbq.2	-	6	2416	c.939A>G	c.(937-939)GAA>GAG	p.E313E	NRXN1_uc002rxb.3_5'UTR|NRXN1_uc002rxe.3_Silent_p.E280E|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CAATATATTCTTCTTTTCCTA	0.353													15	34					0	0	0.132662	0	0		C	50850746	C	C	50850746	2	2	26	1	0	0	0	0	0	0	0	1	10684	1606	56	3		3	NRXN1	2	50850746	Silent	SNP	T	TCGA-BR-4371-01A-01D-1158-08	25463215	50850746	192348627	19	22183											
EMX1	2016	broad.mit.edu	37	chr2	73151516	73151516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggatccgcacggccttctCgccctcgcagctgctgcggc	3	7	13	18	6	1	0	0	0	1	0	4	1	2	1	3	3	3	4	3	3	0	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:73151516C>T	uc002sin.1	+	2	977	c.599C>T	c.(598-600)TCG>TTG	p.S200L	EMX1_uc002sim.1_Silent_p.L152L	NM_004097	NP_004088	Q04741	EMX1_HUMAN	empty spiracles homolog 1	167	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						ACGGCCTTCTCGCCCTCGCAG	0.726													3	11					0	0	0.150653	0	0		T	73151516	T	T	73151516	3	4	26	1	0	0	0	0	1	0	0	0	5115	893	31	1	605	1	EMX1	2	73151516	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	22300770	73151516	170047857	20	22184											
CCDC142	84865	broad.mit.edu	37	chr2	74701728	74701728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acggcaggtgccaacggggtCgctggtgttgcctgagggca	6	7	18	10	3	0	1	0	1	0	0	1	1	0	1	2	6	3	4	2	6	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:74701728C>T	uc002slr.2	-	9	2591	c.2198G>A	c.(2197-2199)CGA>CAA	p.R733Q	MRPL53_uc002sln.2_5'Flank|CCDC142_uc002slo.2_Intron|CCDC142_uc002slq.2_Missense_Mutation_p.R726Q|CCDC142_uc002slp.2_3'UTR	NM_032779	NP_116168	Q17RM4	CC142_HUMAN	coiled-coil domain containing 142	733										central_nervous_system(1)	1						CCAACGGGGTCGCTGGTGTTG	0.592													26	28					0	0	0.116897	0	0		T	74701728	T	T	74701728	3	4	26	1	0	0	0	0	1	0	0	0	2779	884	31	1	58	1	CCDC142	2	74701728	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	1550212	74701728	168497645	21	22185											
GGCX	2677	broad.mit.edu	37	chr2	85779051	85779051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggttgcacccaggatgtgCgctgaaagggtgaccaagcg	9	7	16	9	2	0	2	0	2	0	0	0	3	0	3	2	3	3	3	2	3	2	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:85779051C>T	uc002sps.2	-	11	1599	c.1493G>A	c.(1492-1494)CGC>CAC	p.R498H	GGCX_uc010yss.1_Missense_Mutation_p.R314H|GGCX_uc010yst.1_Missense_Mutation_p.R441H	NM_000821	NP_000812	P38435	VKGC_HUMAN	gamma-glutamyl carboxylase isoform 1	498	Lumenal (Potential).				blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification	endoplasmic reticulum membrane|integral to membrane|membrane fraction	gamma-glutamyl carboxylase activity			ovary(1)	1					Anisindione(DB01125)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Drotrecogin alfa(DB00055)|L-Glutamic Acid(DB00142)|Menadione(DB00170)|Phytonadione(DB01022)	CCAGGATGTGCGCTGAAAGGG	0.532											OREG0014747	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	195					0	0	0.150653	0	0		T	85779051	T	T	85779051	3	4	26	1	0	0	0	0	1	0	0	0	6371	768	27	1	803	1	GGCX	2	85779051	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	11077323	85779051	157420322	22	22186											
RNF103	7844	broad.mit.edu	37	chr2	86849918	86849918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccagctgggtggcaaagatgCcagtttcataccacacaatg	12	8	10	11	0	1	1	1	0	0	1	1	1	1	1	3	2	3	3	3	2	3	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:86849918C>T	uc002srn.2	-	1	1061	c.92G>A	c.(91-93)GGC>GAC	p.G31D	VPS24_uc010ytl.1_Intron|RNF103_uc002srp.2_Missense_Mutation_p.G31D	NM_005667	NP_005658	O00237	RN103_HUMAN	ring finger protein 103	31					central nervous system development|ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(1)	1						GGCAAAGATGCCAGTTTCATA	0.542													12	87					0	0	0.09319	0	0		T	86849918	T	T	86849918	3	4	26	1	0	0	0	0	1	0	0	0	13448	739	26	2	1981	2	RNF103	2	86849918	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	1070867	86849918	156349455	23	22187											
AFF3	3899	broad.mit.edu	37	chr2	100170900	100170900	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatgctgacgatggtcgaCggggacagggcgctggcgtt	6	7	20	8	5	0	1	0	1	0	0	1	5	0	3	0	6	1	3	0	6	0	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:100170900C>T	uc002tag.2	-	23	3668	c.3432G>A	c.(3430-3432)CCG>CCA	p.P1144P	AFF3_uc002taf.2_Silent_p.P1169P	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	1144					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						CGATGGTCGACGGGGACAGGG	0.647													24	105					0	0	0.083992	0	0		T	100170900	T	T	100170900	2	4	26	1	0	0	0	0	0	0	0	1	358	523	19	1		1	AFF3	2	100170900	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	13320982	100170900	143028473	24	22188											
SCN2A	6326	broad.mit.edu	37	chr2	166245404	166245404	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggatcgatgacatgttcaaCtttgagacctttggcaacag	11	11	11	8	1	1	2	1	2	0	1	2	5	1	3	1	2	2	2	1	2	2	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:166245404C>T	uc002udc.2	+	27	5378	c.5088C>T	c.(5086-5088)AAC>AAT	p.N1696N	SCN2A_uc002udd.2_Silent_p.N1696N|SCN2A_uc002ude.2_Silent_p.N1696N	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1696	IV.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ACATGTTCAACTTTGAGACCT	0.463													36	303					0	0	0.235728	0	0		T	166245404	T	T	166245404	2	4	26	1	0	0	0	0	0	0	0	1	13941	564	20	4		4	SCN2A	2	166245404	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	66074504	166245404	76953969	25	22189											
XIRP2	129446	broad.mit.edu	37	chr2	168102549	168102549	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagatagaaattattggCaagagcattaaagaaacctt	20	9	8	4	0	0	4	0	0	0	4	0	5	0	4	1	1	2	2	1	1	9	5			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:168102549C>A	uc002udx.2	+	8	4665	c.4647C>A	c.(4645-4647)GGC>GGA	p.G1549G	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.G1374G|XIRP2_uc010fpq.2_Silent_p.G1327G|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1374					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAATTATTGGCAAGAGCATTA	0.368													37	82					1.36161e-19	1.45796e-19	0.203993	1	0		A	168102549	A	A	168102549	2	1	26	1	0	0	0	0	0	0	0	1	17456	697	25	5		5	XIRP2	2	168102549	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	1857145	168102549	75096824	26	22190											
ABCB11	8647	broad.mit.edu	37	chr2	169792824	169792824	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggctcctgataaagccaaGaaggggaagaagcacaagat	16	5	13	7	0	0	4	0	1	0	3	1	5	1	5	2	3	2	2	2	3	7	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:169792824G>A	uc002ueo.1	-	22	2856	c.2730C>T	c.(2728-2730)TTC>TTT	p.F910F	ABCB11_uc010zda.1_Silent_p.F352F|ABCB11_uc010zdb.1_Silent_p.F386F	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	910	ABC transmembrane type-1 2.|Helical; (Potential).				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	ATAAAGCCAAGAAGGGGAAGA	0.498													18	80					0	0	0.189662	0	0		A	169792824	A	A	169792824	2	1	26	1	0	0	0	0	0	0	0	1	42	933	33	4		4	ABCB11	2	169792824	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	1690275	169792824	73406549	27	22191											
LRP2	4036	broad.mit.edu	37	chr2	170030521	170030521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcggccattagcacacCgaaactggcccggccggcag	9	4	13	15	4	0	0	0	0	0	0	0	1	0	0	4	4	4	3	4	4	2	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:170030521C>T	uc002ues.2	-	56	11135	c.10922G>A	c.(10921-10923)CGG>CAG	p.R3641Q		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3641	LDL-receptor class A 29.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ATTAGCACACCGAAACTGGCC	0.537													31	28					0	0	0.124865	0	0		T	170030521	T	T	170030521	3	4	26	1	0	0	0	0	1	0	0	0	8974	652	23	1	3141	1	LRP2	2	170030521	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	237697	170030521	73168852	28	22192											
TLK1	9874	broad.mit.edu	37	chr2	171850340	171850340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggggatgctgtcagccCagccatgtgtaggtttcctg	6	12	14	9	0	1	0	1	0	0	0	2	1	2	1	3	3	3	4	3	3	2	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:171850340C>T	uc002ugn.2	-	21	2723	c.2251G>A	c.(2251-2253)GGG>AGG	p.G751R	TLK1_uc002ugo.2_Missense_Mutation_p.G772R|TLK1_uc002ugp.2_Missense_Mutation_p.G703R|TLK1_uc010zdn.1_Missense_Mutation_p.G655R	NM_012290	NP_036422	Q9UKI8	TLK1_HUMAN	tousled-like kinase 1 isoform 1	751					cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						GCTGTCAGCCCAGCCATGTGT	0.443													41	164					0	0	0.139131	0	0		T	171850340	T	T	171850340	3	4	26	1	0	0	0	0	1	0	0	0	15968	594	21	4	53	4	TLK1	2	171850340	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	1819819	171850340	71349033	29	22193											
TTN	7273	broad.mit.edu	37	chr2	179471823	179471823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgttcttggcaataacacGgaacttatattcttgtccct	9	16	6	10	1	2	0	0	0	2	0	3	1	3	1	1	2	2	2	1	2	5	8			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:179471823G>A	uc010zfg.1	-	227	46026	c.45802C>T	c.(45802-45804)CGT>TGT	p.R15268C	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R8963C|TTN_uc010zfi.1_Missense_Mutation_p.R8896C|TTN_uc010zfj.1_Missense_Mutation_p.R8771C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16195							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCAATAACACGGAACTTATAT	0.413													48	197					0	0	0.131918	0	0		A	179471823	A	A	179471823	3	1	26	1	0	0	0	0	1	0	0	0	16761	1116	39	1	54527	1	TTN	2	179471823	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	7621483	179471823	63727550	30	22194											
COL5A2	1290	broad.mit.edu	37	chr2	189899824	189899824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcttcttttgataaaaggcGcaaaaaagtcatctgagtaa	15	11	9	6	1	3	2	1	2	2	0	3	2	3	2	0	2	0	3	0	2	6	5			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:189899824G>A	uc002uqk.2	-	53	4446	c.4171C>T	c.(4171-4173)CGC>TGC	p.R1391C	COL5A2_uc010frx.2_Missense_Mutation_p.R967C	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	1391	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			GATAAAAGGCGCAAAAAAGTC	0.398													24	62					0	0	0.144211	0	0		A	189899824	A	A	189899824	3	1	26	1	0	0	0	0	1	0	0	0	3700	1087	38	1	336	1	COL5A2	2	189899824	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	10428001	189899824	53299549	31	22195											
CRYGC	1420	broad.mit.edu	37	chr2	208992950	208992950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacaaatccaccactctccGcaaagagcctgccttagcat	13	8	5	15	1	1	1	0	0	1	1	3	1	2	1	5	0	4	2	5	0	4	2	rs28931604		TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:208992950G>A	uc002vco.3	-	3	540	c.502C>T	c.(502-504)CGG>TGG	p.R168W		NM_020989	NP_066269	P07315	CRGC_HUMAN	crystallin, gamma C	168	Beta/gamma crystallin 'Greek key' 4.				visual perception	cytoplasm|nucleus	protein binding|structural constituent of eye lens				0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.0858)|Lung(261;0.133)		ACCACTCTCCGCAAAGAGCCT	0.507													53	143					0	0	0.139131	0	0		A	208992950	A	A	208992950	3	1	26	1	0	0	0	0	1	0	0	0	3919	1086	38	1	26	1	CRYGC	2	208992950	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	19093126	208992950	34206423	32	22196											
EPHA4	2043	broad.mit.edu	37	chr2	222428898	222428898	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgttgtctgattcatagtAgtacaggttaaacgtctcct	9	15	9	8	2	3	1	1	1	2	0	5	1	3	1	1	1	2	4	1	1	5	6			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr2:222428898A>G	uc002vmq.2	-	3	418	c.376T>C	c.(376-378)TAC>CAC	p.Y126H	EPHA4_uc002vmr.2_Missense_Mutation_p.Y126H|EPHA4_uc010zlm.1_Missense_Mutation_p.Y67H|EPHA4_uc010zln.1_Missense_Mutation_p.Y126H	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	126	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		GATTCATAGTAGTACAGGTTA	0.458													47	182					0	0	0.139131	0	0		G	222428898	G	G	222428898	3	3	26	1	0	0	0	0	1	0	0	0	5177	420	15	3	2644	3	EPHA4	2	222428898	Missense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	13435948	222428898	20770475	33	22197											
NME6	10201	broad.mit.edu	37	chr3	48339990	48339990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggagagcctgagggcttCgcaagattgaggccatctca	9	8	14	10	1	1	4	1	2	1	2	3	5	1	4	2	3	1	3	2	3	1	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr3:48339990C>T	uc003csp.3	-	2	68	c.17G>A	c.(16-18)CGA>CAA	p.R6Q	NME6_uc003cso.2_Missense_Mutation_p.R14Q|NME6_uc011bbh.1_Missense_Mutation_p.R6Q|NME6_uc010hju.2_Intron|NME6_uc011bbi.1_Missense_Mutation_p.R6Q	NM_005793	NP_005784	O75414	NDK6_HUMAN	nucleoside diphosphate kinase type 6	6					anti-apoptosis|apoptosis|CTP biosynthetic process|GTP biosynthetic process|negative regulation of cell growth|negative regulation of mitosis|UTP biosynthetic process	mitochondrion	ATP binding|metal ion binding|nucleoside diphosphate kinase activity				0				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00609)		CTGAGGGCTTCGCAAGATTGA	0.547													3	32					0	0	0.115264	0	0		T	48339990	T	T	48339990	3	4	26	1	0	0	0	0	1	0	0	0	10514	884	31	1	563	1	NME6	3	48339990	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08		48339990	149682440	34	22198											
COL7A1	1294	broad.mit.edu	37	chr3	48618351	48618351	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcttttccaggcaaaccCgggtcaccctggtgatagag	8	9	11	13	1	1	2	1	1	0	1	2	2	2	2	4	3	2	2	4	3	2	3	rs111360822	byFrequency	TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr3:48618351C>T	uc003ctz.2	-	53	4945	c.4944G>A	c.(4942-4944)CCG>CCA	p.P1648P	MIR711_hsa-mir-711|MI0012488_5'Flank	NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1648	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CAGGCAAACCCGGGTCACCCT	0.562													20	43					0	0	0.189662	0	0		T	48618351	T	T	48618351	2	4	26	1	0	0	0	0	0	0	0	1	3707	639	23	1		1	COL7A1	3	48618351	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	278361	48618351	149404079	35	22199											
PRICKLE2	166336	broad.mit.edu	37	chr3	64132808	64132808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcctgtcatggccagtgacGagctccttttggggttgctg	4	13	14	10	1	1	1	1	1	0	0	3	2	3	1	3	3	2	3	3	3	0	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr3:64132808G>A	uc003dmf.2	-	7	1944	c.1358C>T	c.(1357-1359)TCG>TTG	p.S453L		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	453						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		GGCCAGTGACGAGCTCCTTTT	0.562													30	167					0	0	0.203993	0	0		A	64132808	A	A	64132808	3	1	26	1	0	0	0	0	1	0	0	0	12509	1059	37	1	1184	1	PRICKLE2	3	64132808	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	15514457	64132808	133889622	36	22200											
OR5H14	403273	broad.mit.edu	37	chr3	97868558	97868558	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgcaatcagtgtaaccaCggaatgttttctcttggcaa	10	14	9	8	1	2	0	1	0	1	0	3	1	2	1	1	2	2	5	1	2	4	5	rs138782574		TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr3:97868558C>A	uc003dsg.1	+	1	329	c.329C>A	c.(328-330)ACG>AAG	p.T110K		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AGTGTAACCACGGAATGTTTT	0.413													87	165					1.42074e-37	1.58871e-37	0.139131	1	0		A	97868558	A	A	97868558	3	1	26	1	0	0	0	0	1	0	0	0	11179	536	19	5	331	5	OR5H14	3	97868558	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	33735750	97868558	100153872	37	22201											
SEC61A1	29927	broad.mit.edu	37	chr3	127779501	127779501	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactactgtcaacactggcCgaggtaagggccctgtgctc	8	8	11	14	1	1	0	1	0	0	0	2	1	1	0	3	3	3	2	3	3	3	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr3:127779501C>T	uc003ekb.2	+	7	797	c.613C>T	c.(613-615)CGA>TGA	p.R205*	SEC61A1_uc003ekc.2_Nonsense_Mutation_p.R152*|SEC61A1_uc003ekd.2_Nonsense_Mutation_p.R85*	NM_013336	NP_037468	P61619	S61A1_HUMAN	Sec61 alpha 1 subunit	205	Lumenal (Potential).				protein targeting to ER	integral to endoplasmic reticulum membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity|protein binding|ribosome binding			ovary(1)	1						CAACACTGGCCGAGGTAAGGG	0.483													23	55					0	0	0.26419	0	0		T	127779501	T	T	127779501	4	4	26	1	0	0	0	0	0	1	0	0	14025	644	23	1	639	1	SEC61A1	3	127779501	Nonsense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	29910943	127779501	70242929	38	22202											
ZIC1	7545	broad.mit.edu	37	chr3	147128283	147128283	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgcatcggccgggggcttCgggggcccacacggccacac	5	4	16	16	4	0	0	0	0	0	0	2	0	0	0	3	6	1	3	3	6	0	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr3:147128283C>T	uc003ewe.2	+	1	1103	c.384C>T	c.(382-384)TTC>TTT	p.F128F		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	128					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCGGGGGCTTCGGGGGCCCAC	0.716													3	22					0	0	0.038147	0	0		T	147128283	T	T	147128283	2	4	26	1	0	0	0	0	0	0	0	1	17703	883	31	1		1	ZIC1	3	147128283	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	19348782	147128283	50894147	39	22203											
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003		TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			20	60					0	0	0.204396	0	0		A	178936091	A	A	178936091	3	1	26	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1667	4	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	31807808	178936091	19086339	40	22204											
PIK3CA	5290	broad.mit.edu	37	chr3	178952085	178952085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacaaatgaatgatgcacAtcatggtggctggacaacaa	17	7	10	7	0	1	2	1	2	0	0	1	4	1	3	0	3	3	2	0	3	5	0	rs121913279		TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr3:178952085A>G	uc003fjk.2	+	21	3297	c.3140A>G	c.(3139-3141)CAT>CGT	p.H1047R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1047	PI3K/PI4K.		H -> L (in cancer).|H -> R (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; requires binding to p85 regulatory subunit to induce cellular transformation but not interaction with RAS; may mimic the conformatitonal change triggered by the interaction with RAS; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells; increases lipid kinase activity; may alter the interaction of the PI3K/ PI4K kinase domain with the cell membrane).|H -> Y (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.H1047R(1269)|p.H1047L(152)|p.H1047Y(31)|p.H1047Q(3)|p.H1047T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AATGATGCACATCATGGTGGC	0.378	H1047R(BT20_BREAST)|H1047R(NCIH1048_LUNG)|H1047R(MCAS_OVARY)|H1047R(HCC1954_BREAST)|H1047R(RKO_LARGE_INTESTINE)|H1047L(EFM19_BREAST)|H1047R(CAL33_UPPER_AERODIGESTIVE_TRACT)|H1047R(CAL29_URINARY_TRACT)|H1047R(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|H1047R(LS180_LARGE_INTESTINE)|H1047R(T47D_BREAST)|H1047R(HCT116_LARGE_INTESTINE)|H1047R(HSC2_UPPER_AERODIGESTIVE_TRACT)|H1047R(SKOV3_OVARY)|H1047R(MDAMB453_BREAST)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			19	91					0	0	0.219247	0	0		G	178952085	G	G	178952085	3	3	26	1	0	0	0	0	1	0	0	0	11932	217	8	3	3218	3	PIK3CA	3	178952085	Missense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	15994	178952085	19070345	41	22205											
DRD5	1816	broad.mit.edu	37	chr4	9783809	9783809	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgctgaccctactcatcatCtggaccctgctgggcaacgt	7	10	9	15	1	3	1	2	1	1	0	3	2	3	2	2	2	4	3	2	2	2	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr4:9783809C>G	uc003gmb.3	+	1	552	c.156C>G	c.(154-156)ATC>ATG	p.I52M		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	52	Helical; Name=1; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	TACTCATCATCTGGACCCTGC	0.687													10	25					0	0	0.058154	0	0		G	9783809	G	G	9783809	3	3	26	1	0	0	0	0	1	0	0	0	4766	903	32	5	158	5	DRD5	4	9783809	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08		9783809	181370467	42	22206											
POLR2B	5431	broad.mit.edu	37	chr4	57877199	57877199	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctgggttggaatacataAagatcccgaacaacttatga	14	10	9	8	1	0	2	0	1	0	1	1	4	1	3	1	2	4	2	1	2	7	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr4:57877199A>T	uc003hcl.1	+	13	1776	c.1733A>T	c.(1732-1734)AAA>ATA	p.K578I	POLR2B_uc011cae.1_Missense_Mutation_p.K571I|POLR2B_uc011caf.1_Missense_Mutation_p.K503I|POLR2B_uc003hcm.1_Missense_Mutation_p.K71I	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	578					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					GGAATACATAAAGATCCCGAA	0.368													15	66					0	0	0.132662	0	0		T	57877199	T	T	57877199	3	4	26	1	0	0	0	0	1	0	0	0	12234	14	1	5	1783	5	POLR2B	4	57877199	Missense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	48093390	57877199	133277077	43	22207											
PITX2	5308	broad.mit.edu	37	chr4	111539829	111539829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttctccatttggcccgacGattcttgaaccaaacctggg	8	12	8	13	2	2	1	0	1	2	0	3	3	2	1	4	2	2	0	4	2	2	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr4:111539829G>A	uc003iad.2	-	5	988	c.406C>T	c.(406-408)CGT>TGT	p.R136C	PITX2_uc003iac.2_Missense_Mutation_p.R143C|PITX2_uc003iae.2_Missense_Mutation_p.R90C|PITX2_uc010iml.2_Missense_Mutation_p.R7C|PITX2_uc003iaf.2_Missense_Mutation_p.R136C	NM_153426	NP_700475	Q99697	PITX2_HUMAN	paired-like homeodomain transcription factor 2	136	Homeobox.		R -> C (in RIEG1).		determination of left/right symmetry|organ morphogenesis	transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription factor binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00222)		TTGGCCCGACGATTCTTGAAC	0.582													35	151					0	0	0.124865	0	0		A	111539829	A	A	111539829	3	1	26	1	0	0	0	0	1	0	0	0	11974	1058	37	1	551	1	PITX2	4	111539829	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	53662630	111539829	79614447	44	22208											
PCDH10	57575	broad.mit.edu	37	chr4	134072207	134072207	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggagcttttcggactctcGccgcgcactggcagactgga	6	8	14	13	5	1	1	0	0	1	1	3	4	1	4	1	4	1	3	1	4	0	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr4:134072207G>A	uc003iha.2	+	1	1738	c.912G>A	c.(910-912)TCG>TCA	p.S304S	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.S304S	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	304	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TCGGACTCTCGCCGCGCACTG	0.637													48	48					0	0	0.139131	0	0		A	134072207	A	A	134072207	2	1	26	1	0	0	0	0	0	0	0	1	11526	1074	38	1		1	PCDH10	4	134072207	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	22532378	134072207	57082069	45	22209											
PCDH10	57575	broad.mit.edu	37	chr4	134072448	134072448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttttcagcgtgactgacCgcgactcagaggagaatggg	9	8	13	11	3	2	4	2	2	0	2	2	6	2	4	2	2	1	0	2	2	1	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr4:134072448C>T	uc003iha.2	+	1	1979	c.1153C>T	c.(1153-1155)CGC>TGC	p.R385C	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.R385C	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	385	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CGTGACTGACCGCGACTCAGA	0.577													5	205					0	0	0.184627	0	0		T	134072448	T	T	134072448	3	4	26	1	0	0	0	0	1	0	0	0	11526	652	23	1	1155	1	PCDH10	4	134072448	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	241	134072448	57081828	46	22210											
PCDH18	54510	broad.mit.edu	37	chr4	138442509	138442509	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagttggaccgatccacctCactgcattcagaataggtgt	10	10	11	10	1	2	1	2	0	0	1	3	4	3	3	3	3	1	2	3	3	2	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr4:138442509C>A	uc003ihe.3	-	4	3469	c.3082G>T	c.(3082-3084)GAG>TAG	p.E1028*	PCDH18_uc003ihf.3_Nonsense_Mutation_p.E1020*|PCDH18_uc011cgz.1_Nonsense_Mutation_p.E239*|PCDH18_uc003ihg.3_Nonsense_Mutation_p.E807*|PCDH18_uc011cha.1_Nonsense_Mutation_p.E208*	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	1028	Interaction with DAB1 (By similarity).|Cytoplasmic (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					CGATCCACCTCACTGCATTCA	0.582													34	52					6.05902e-23	6.58085e-23	0.193644	1	0		A	138442509	A	A	138442509	4	1	26	1	0	0	0	0	0	1	0	0	11532	835	29	5	329	5	PCDH18	4	138442509	Nonsense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	4370061	138442509	52711767	47	22211											
RNF150	57484	broad.mit.edu	37	chr4	141888924	141888924	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttctgcaagttccgggtTccgatggtgatgtacattgt	7	16	11	7	2	1	1	0	1	1	0	3	2	3	1	2	2	2	4	2	2	3	6			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr4:141888924T>C	uc003iio.1	-	2	1242	c.588A>G	c.(586-588)GGA>GGG	p.G196G	RNF150_uc010iok.1_Silent_p.G196G|RNF150_uc003iip.1_Silent_p.G196G	NM_020724	NP_065775	Q9ULK6	RN150_HUMAN	ring finger protein 150 precursor	196	Extracellular (Potential).					integral to membrane	zinc ion binding			ovary(1)	1	all_hematologic(180;0.162)					AGTTCCGGGTTCCGATGGTGA	0.468													66	229					0	0	0.139131	0	0		C	141888924	C	C	141888924	2	2	26	1	0	0	0	0	0	0	0	1	13476	1770	62	3		3	RNF150	4	141888924	Silent	SNP	T	TCGA-BR-4371-01A-01D-1158-08	3446415	141888924	49265352	48	22212											
FBXW7	55294	broad.mit.edu	37	chr4	153247167	153247167	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagatcttacctgtaatgaAtagactctattagtatgccc	13	13	7	8	0	2	3	0	1	2	2	2	4	2	3	2	0	2	2	2	0	7	6			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr4:153247167A>C	uc003ims.2	-	10	1784	c.1635T>G	c.(1633-1635)TAT>TAG	p.Y545*	FBXW7_uc011cii.1_Nonsense_Mutation_p.Y545*|FBXW7_uc003imt.2_Nonsense_Mutation_p.Y545*|FBXW7_uc011cih.1_Nonsense_Mutation_p.Y369*|FBXW7_uc003imq.2_Nonsense_Mutation_p.Y465*|FBXW7_uc003imr.2_Nonsense_Mutation_p.Y427*	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	545	WD 5.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.Y545C(1)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				CCTGTAATGAATAGACTCTAT	0.403			Mis|N|D|F		colorectal|endometrial|T-ALL								84	122					0	0	0.139131	0	0		C	153247167	C	C	153247167	4	2	26	1	0	0	0	0	0	1	0	0	5783	108	4	5	500	5	FBXW7	4	153247167	Nonsense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	11358243	153247167	37907109	49	22213											
NPY2R	4887	broad.mit.edu	37	chr4	156135406	156135406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaacactctgtgtctaccGttcactcttacctatacctt	8	15	5	13	1	4	1	1	1	3	0	4	1	4	1	3	0	4	1	3	0	5	6	rs148709959	byFrequency	TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr4:156135406G>A	uc003ioq.2	+	2	810	c.315G>A	c.(313-315)CCG>CCA	p.P105P	NPY2R_uc003ior.2_Silent_p.P105P	NM_000910	NP_000901	P49146	NPY2R_HUMAN	neuropeptide Y receptor Y2	105	Helical; Name=2; (Potential).				cardiac left ventricle morphogenesis|inhibition of adenylate cyclase activity by G-protein signaling pathway|locomotory behavior|outflow tract morphogenesis	integral to plasma membrane	calcium channel regulator activity			lung(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0854)				TGTGTCTACCGTTCACTCTTA	0.493													32	39					0	0	0.173368	0	0		A	156135406	A	A	156135406	2	1	26	1	0	0	0	0	0	0	0	1	10628	1132	40	1		1	NPY2R	4	156135406	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	2888239	156135406	35018870	50	22214											
TRIML2	205860	broad.mit.edu	37	chr4	189026019	189026019	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccattctttcttgctcaTcagtcaatatgcttttagct	7	18	5	11	1	5	0	3	0	2	0	6	0	5	0	1	0	3	3	1	0	3	6			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr4:189026019T>C	uc003izl.2	-	2	143	c.107A>G	c.(106-108)GAT>GGT	p.D36G	TRIML2_uc011cle.1_Missense_Mutation_p.D86G|TRIML2_uc011clf.1_Missense_Mutation_p.D86G	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	36	Potential.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		TTCTTGCTCATCAGTCAATAT	0.378													3	228					0	0	0.184627	0	0		C	189026019	C	C	189026019	3	2	26	1	0	0	0	0	1	0	0	0	16577	1435	50	3	1080	3	TRIML2	4	189026019	Missense_Mutation	SNP	T	TCGA-BR-4371-01A-01D-1158-08	32890613	189026019	2128257	51	22215											
ADAMTS12	81792	broad.mit.edu	37	chr5	33577248	33577248	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgaatccgcactccaccAccacaggaaacagaacacta	15	4	6	16	2	0	1	0	0	0	1	2	3	2	2	4	1	3	1	4	1	4	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:33577248A>G	uc003jia.1	-	19	3046	c.2883T>C	c.(2881-2883)GGT>GGC	p.G961G	ADAMTS12_uc010iuq.1_Silent_p.G876G	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	961	TSP type-1 4.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GCACTCCACCACCACAGGAAA	0.493										HNSCC(64;0.19)			7	138					0	0	0.047766	0	0		G	33577248	G	G	33577248	2	3	26	1	0	0	0	0	0	0	0	1	257	146	6	3		3	ADAMTS12	5	33577248	Silent	SNP	A	TCGA-BR-4371-01A-01D-1158-08		33577248	147338012	52	22216											
SLC1A3	6507	broad.mit.edu	37	chr5	36684095	36684095	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcatcatcgcggtggactgGttcctgtgagtatgcttggc	5	13	13	10	2	2	1	2	1	0	0	4	2	3	2	1	4	1	3	1	4	1	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:36684095G>T	uc003jkj.3	+	9	1895	c.1419G>T	c.(1417-1419)TGG>TGT	p.W473C	SLC1A3_uc011cox.1_Missense_Mutation_p.W366C|SLC1A3_uc010iuy.2_Intron	NM_004172	NP_004163	P43003	EAA1_HUMAN	solute carrier family 1 (glial high affinity	473					D-aspartate import|L-glutamate import|neurotransmitter uptake	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0	all_lung(31;0.000245)		Epithelial(62;0.0444)|Lung(74;0.111)|all cancers(62;0.128)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)		L-Glutamic Acid(DB00142)	CGGTGGACTGGTTCCTGTGAG	0.577													58	102					9.04393e-38	1.01632e-37	0.139131	1	0		T	36684095	T	T	36684095	3	4	26	1	0	0	0	0	1	0	0	0	14458	1270	44	5	1466	5	SLC1A3	5	36684095	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	3106847	36684095	144231165	53	22217											
HCN1	348980	broad.mit.edu	37	chr5	45262221	45262221	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccccctgcctgaaggccCgttccggggaccgccgtcac	4	6	12	19	4	1	1	1	1	0	0	2	2	2	2	7	3	2	1	7	3	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:45262221C>T	uc003jok.2	-	8	2500	c.2475G>A	c.(2473-2475)ACG>ACA	p.T825T		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	825	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CCTGAAGGCCCGTTCCGGGGA	0.672													17	45					0	0	0.204396	0	0		T	45262221	T	T	45262221	2	4	26	1	0	0	0	0	0	0	0	1	7012	639	23	1		1	HCN1	5	45262221	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	8578126	45262221	135653039	54	22218											
MAP1B	4131	broad.mit.edu	37	chr5	71493006	71493006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagacccccctgggtgaacGtagtgtgaacttctctctga	10	10	10	11	1	2	4	0	3	2	1	3	4	2	4	3	1	2	1	3	1	4	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:71493006G>A	uc003kbw.3	+	5	4065	c.3824G>A	c.(3823-3825)CGT>CAT	p.R1275H	MAP1B_uc010iyw.1_Missense_Mutation_p.R1292H|MAP1B_uc010iyx.1_Missense_Mutation_p.R1149H|MAP1B_uc010iyy.1_Missense_Mutation_p.R1149H	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1275						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		CTGGGTGAACGTAGTGTGAAC	0.517													40	58					0	0	0.11126	0	0		A	71493006	A	A	71493006	3	1	26	1	0	0	0	0	1	0	0	0	9246	1145	40	1	3842	1	MAP1B	5	71493006	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	26230785	71493006	109422254	55	22219											
ZNF366	167465	broad.mit.edu	37	chr5	71756781	71756781	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggggaacatgaggcccggGtggactttggggtagtaggg	9	7	20	5	1	0	1	0	1	0	0	0	3	0	3	1	8	1	2	1	8	4	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:71756781G>A	uc003kce.1	-	2	729	c.543C>T	c.(541-543)CAC>CAT	p.H181H		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	181					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		TGAGGCCCGGGTGGACTTTGG	0.667													37	187					0	0	0.131918	0	0		A	71756781	A	A	71756781	2	1	26	1	0	0	0	0	0	0	0	1	17895	1252	44	4		4	ZNF366	5	71756781	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	263775	71756781	109158479	56	22220											
PCDHA1	56147	broad.mit.edu	37	chr5	140168105	140168105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactctggtgtgctccagcGcgttggggagctggtcgaac	5	9	15	12	3	1	0	0	0	1	0	3	2	2	1	2	4	4	3	2	4	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:140168105G>A	uc003lhb.2	+	1	2230	c.2230G>A	c.(2230-2232)GCG>ACG	p.A744T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.A744T	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	744	Cytoplasmic (Potential).|5 X 4 AA repeats of P-X-X-P.				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCTCCAGCGCGTTGGGGAG	0.662													10	39					0	0	0.09319	0	0		A	140168105	A	A	140168105	3	1	26	1	0	0	0	0	1	0	0	0	11538	1087	38	1	2232	1	PCDHA1	5	140168105	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	68411324	140168105	40747155	57	22221											
PCDHGA5	56110	broad.mit.edu	37	chr5	140744135	140744135	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctttttgccctgaacccgCgaagcggcagcttggtcacc	7	9	11	14	3	1	1	1	1	0	0	1	2	1	1	3	2	5	3	3	2	2	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:140744135C>T	uc003lju.1	+	1	238	c.238C>T	c.(238-240)CGA>TGA	p.R80*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Nonsense_Mutation_p.R80*	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	80	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGAACCCGCGAAGCGGCAG	0.607													20	126					0	0	0.134883	0	0		T	140744135	T	T	140744135	4	4	26	1	0	0	0	0	0	1	0	0	11576	760	27	1	240	1	PCDHGA5	5	140744135	Nonsense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	576030	140744135	40171125	58	22222											
PCDHGA6	56109	broad.mit.edu	37	chr5	140754857	140754857	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatcagttggcaattattatCgattagtgacaaatgcagct	14	13	8	6	1	1	1	1	1	0	0	2	2	1	1	0	1	2	4	0	1	6	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:140754857C>T	uc003ljy.1	+	1	1207	c.1207C>T	c.(1207-1209)CGA>TGA	p.R403*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Nonsense_Mutation_p.R403*	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	403	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAATTATTATCGATTAGTGAC	0.458													17	88					0	0	0.175082	0	0		T	140754857	T	T	140754857	4	4	26	1	0	0	0	0	0	1	0	0	11577	876	31	1	1209	1	PCDHGA6	5	140754857	Nonsense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	10722	140754857	40160403	59	22223											
FAM71B	153745	broad.mit.edu	37	chr5	156590250	156590250	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagcacccaccaaggccaaGctaataccctctgaggatat	13	6	8	14	0	1	1	0	1	1	0	1	2	1	2	4	2	3	3	4	2	5	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:156590250G>T	uc003lwn.2	-	2	1126	c.1026C>A	c.(1024-1026)AGC>AGA	p.S342R		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	342						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CCAAGGCCAAGCTAATACCCT	0.572													21	109					1.96292e-10	2.05338e-10	0.219247	1	0		T	156590250	T	T	156590250	3	4	26	1	0	0	0	0	1	0	0	0	5622	962	34	5	795	5	FAM71B	5	156590250	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	15835393	156590250	24325010	60	22224											
DOCK2	1794	broad.mit.edu	37	chr5	169494638	169494638	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacccactctccatgctccTgaacgggattgtggaccctg	8	9	9	15	1	1	1	0	1	1	0	3	3	2	3	4	2	3	1	4	2	2	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:169494638T>C	uc003maf.2	+	45	4672	c.4592T>C	c.(4591-4593)CTG>CCG	p.L1531P	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.L1023P|DOCK2_uc003mah.2_Missense_Mutation_p.L87P	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1531	DHR-2.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCCATGCTCCTGAACGGGATT	0.527													35	136					0	0	0.246493	0	0		C	169494638	C	C	169494638	3	2	26	1	0	0	0	0	1	0	0	0	4693	1580	55	3	4770	3	DOCK2	5	169494638	Missense_Mutation	SNP	T	TCGA-BR-4371-01A-01D-1158-08	12904388	169494638	11420622	61	22225											
DOCK2	1794	broad.mit.edu	37	chr5	169504824	169504824	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgactgcagcacccccagCaagcctacctcagagaggtc	10	6	9	16	0	2	2	1	1	1	1	3	3	2	2	4	1	5	3	4	1	2	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:169504824C>A	uc003maf.2	+	48	5057	c.4977C>A	c.(4975-4977)AGC>AGA	p.S1659R	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.S1151R|DOCK2_uc003mah.2_Missense_Mutation_p.S215R	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1659					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCACCCCCAGCAAGCCTACCT	0.602													22	48					4.26978e-12	4.52916e-12	0.083992	1	0		A	169504824	A	A	169504824	3	1	26	1	0	0	0	0	1	0	0	0	4693	709	25	5	5167	5	DOCK2	5	169504824	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	10186	169504824	11410436	62	22226											
CPEB4	80315	broad.mit.edu	37	chr5	173378844	173378844	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taggtccagattcggccttgGaatctcagtgacagtgactt	9	12	11	9	1	1	3	1	2	1	1	4	4	2	4	2	3	0	0	2	3	2	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:173378844G>T	uc003mcs.3	+	8	3089	c.1683G>T	c.(1681-1683)TGG>TGT	p.W561C	CPEB4_uc010jju.1_Missense_Mutation_p.W536C|CPEB4_uc010jjv.2_Missense_Mutation_p.W544C|CPEB4_uc011dfg.1_Missense_Mutation_p.W536C|CPEB4_uc003mct.3_Missense_Mutation_p.W171C|CPEB4_uc003mcu.3_Missense_Mutation_p.W154C	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	561	RRM 1.						nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TTCGGCCTTGGAATCTCAGTG	0.403													29	42					5.6714e-07	5.87858e-07	0.153744	1	0		T	173378844	T	T	173378844	3	4	26	1	0	0	0	0	1	0	0	0	3806	1183	41	5	1713	5	CPEB4	5	173378844	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	3874020	173378844	7536416	63	22227											
ZFP2	80108	broad.mit.edu	37	chr5	178359618	178359618	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagaactcatacaggagAgaaaccctatcagtgtaatg	16	8	9	8	0	3	2	3	0	0	2	3	5	3	3	1	1	3	1	1	1	5	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:178359618A>G	uc003mjn.1	+	5	1813	c.1304A>G	c.(1303-1305)GAG>GGG	p.E435G	ZFP2_uc010jky.2_Missense_Mutation_p.E435G|ZFP2_uc010jkx.1_Missense_Mutation_p.E435G	NM_030613	NP_085116	Q6ZN57	ZFP2_HUMAN	zinc finger protein 2 homolog	435					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.00655)|GBM - Glioblastoma multiforme(465;0.0302)|OV - Ovarian serous cystadenocarcinoma(192;0.0615)|Epithelial(171;0.111)		CATACAGGAGAGAAACCCTAT	0.423													42	57					0	0	0.11126	0	0		G	178359618	G	G	178359618	3	3	26	1	0	0	0	0	1	0	0	0	17666	304	11	3	1306	3	ZFP2	5	178359618	Missense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	4980774	178359618	2555642	64	22228											
TBC1D9B	23061	broad.mit.edu	37	chr5	179315209	179315209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctgcaccaagaaatcaCggtctttcaggttggcaaac	11	10	8	12	1	4	1	2	0	2	1	5	1	5	1	2	3	2	3	2	3	3	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr5:179315209C>T	uc003mlh.2	-	7	1185	c.1148G>A	c.(1147-1149)CGT>CAT	p.R383H	TBC1D9B_uc003mli.2_Missense_Mutation_p.R383H|TBC1D9B_uc003mlj.2_Missense_Mutation_p.R383H	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	383						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAAGAAATCACGGTCTTTCAG	0.527													116	148					0	0	0.139131	0	0		T	179315209	T	T	179315209	3	4	26	1	0	0	0	0	1	0	0	0	15653	536	19	1	2668	1	TBC1D9B	5	179315209	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	955591	179315209	1600051	65	22229											
PARK2	5071	broad.mit.edu	37	chr6	162394349	162394349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttacctgacgtctgtgcacGtaatgcaagtgatgttccga	9	12	10	10	3	1	2	0	2	1	0	2	3	2	2	2	0	3	4	2	0	3	3	rs137853054		TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr6:162394349G>A	uc003qtx.3	-	6	853	c.719C>T	c.(718-720)ACG>ATG	p.T240M	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_Missense_Mutation_p.T49M|PARK2_uc003qtw.3_Missense_Mutation_p.T49M|PARK2_uc003qty.3_Missense_Mutation_p.T212M|PARK2_uc003qtz.3_Missense_Mutation_p.T91M|PARK2_uc010kke.1_Missense_Mutation_p.T240M	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	240	RING-type 1; atypical.		T -> M (in PARK; late onset).|T -> R (in PARK2; impairs the ability to ubiquitinate SNCAIP and BCL2; loss of UBE2L3 binding; severely compromises the mitochondrial localization).		aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding	p.T240M(1)		upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GTCTGTGCACGTAATGCAAGT	0.448													7	81					0	0	0.069234	0	0		A	162394349	A	A	162394349	3	1	26	1	0	0	0	0	1	0	0	0	11468	1145	40	1	706	1	PARK2	6	162394349	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08		162394349	8720718	66	22230											
SMOC2	64094	broad.mit.edu	37	chr6	168927051	168927051	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tccaggtgtgtggccgaaagGaagtatacccaggagcaagc	12	6	14	9	1	0	0	0	0	0	0	1	3	1	2	3	4	3	2	3	4	5	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr6:168927051G>C	uc003qws.1	+	3	302	c.282G>C	c.(280-282)AGG>AGC	p.R94S	SMOC2_uc003qwr.1_Missense_Mutation_p.R94S	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	94	Thyroglobulin type-1 1.				signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		TGGCCGAAAGGAAGTATACCC	0.507													16	106					0	0	0.204396	0	0		C	168927051	C	C	168927051	3	2	26	1	0	0	0	0	1	0	0	0	14827	1165	41	5	292	5	SMOC2	6	168927051	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	6532702	168927051	2188016	67	22231											
HECW1	23072	broad.mit.edu	37	chr7	43351573	43351573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcggacagccgctccaCgctcatggtcagcagctcct	7	7	9	18	3	2	0	2	0	0	0	5	1	4	1	4	2	3	4	4	2	0	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr7:43351573C>T	uc003tid.1	+	4	844	c.239C>T	c.(238-240)ACG>ATG	p.T80M	HECW1_uc011kbi.1_Missense_Mutation_p.T80M|HECW1_uc003tie.1_Missense_Mutation_p.T112M	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	80					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						AGCCGCTCCACGCTCATGGTC	0.617													62	50					0	0	0.139131	0	0		T	43351573	T	T	43351573	3	4	26	1	0	0	0	0	1	0	0	0	7058	536	19	1	245	1	HECW1	7	43351573	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08		43351573	115787090	68	22232											
PCLO	27445	broad.mit.edu	37	chr7	82584626	82584626	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgggcaatttataaactttTtgtacttctattattttttc	9	22	5	5	0	1	0	0	0	1	0	2	0	1	0	0	1	2	2	0	1	7	12			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr7:82584626T>C	uc003uhx.2	-	5	5932	c.5643A>G	c.(5641-5643)CAA>CAG	p.Q1881Q	PCLO_uc003uhv.2_Silent_p.Q1881Q	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1812					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TATAAACTTTTTGTACTTCTA	0.378													9	79					0	0	0.047766	0	0		C	82584626	C	C	82584626	2	2	26	1	0	0	0	0	0	0	0	1	11602	1838	64	3		3	PCLO	7	82584626	Silent	SNP	T	TCGA-BR-4371-01A-01D-1158-08	39233053	82584626	76554037	69	22233											
TRRAP	8295	broad.mit.edu	37	chr7	98522858	98522858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctggaggacaacaagcacGcactctaccagctcctggca	11	5	10	15	1	1	0	0	0	1	0	2	2	2	2	3	3	4	4	3	3	3	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr7:98522858G>A	uc003upp.2	+	22	3156	c.2947G>A	c.(2947-2949)GCA>ACA	p.A983T	TRRAP_uc011kis.1_Missense_Mutation_p.A983T|TRRAP_uc003upr.2_Missense_Mutation_p.A675T	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	983					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CAACAAGCACGCACTCTACCA	0.577													75	177					0	0	0.139131	0	0		A	98522858	A	A	98522858	3	1	26	1	0	0	0	0	1	0	0	0	16627	1087	38	1	3029	1	TRRAP	7	98522858	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	15938232	98522858	60615805	70	22234											
LRCH4	4034	broad.mit.edu	37	chr7	100172852	100172852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagggccttgccccccacccGcttcacggcctccagcgcgg	4	6	11	20	4	1	0	1	0	0	0	2	0	2	0	7	3	2	1	7	3	1	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr7:100172852G>A	uc003uvj.2	-	18	1983	c.1930C>T	c.(1930-1932)CGG>TGG	p.R644W	uc003uvh.2_5'Flank|LRCH4_uc010lgz.2_RNA|LRCH4_uc003uvi.2_RNA|LRCH4_uc011kjw.1_3'UTR	NM_002319	NP_002310	O75427	LRCH4_HUMAN	leucine-rich repeats and calponin homology (CH)	644	CH.				nervous system development	PML body	protein binding			large_intestine(1)|ovary(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CCCCCCACCCGCTTCACGGCC	0.692													6	6					0	0	0.248553	0	0		A	100172852	A	A	100172852	3	1	26	1	0	0	0	0	1	0	0	0	8953	1086	38	1	125	1	LRCH4	7	100172852	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	1649994	100172852	58965811	71	22235											
SPDYE6	729597	broad.mit.edu	37	chr7	101988966	101988966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcaagggtatgcgagagcGgttcttcctggccctcgggt	6	9	16	10	3	1	1	0	0	1	1	3	3	2	1	2	4	3	3	2	4	2	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr7:101988966G>A	uc011kkp.1	-	6	1328	c.907C>T	c.(907-909)CGC>TGC	p.R303C	SPDYE6_uc003uzb.2_Missense_Mutation_p.R159C	NM_001146210	NP_001139682	P0CI01	SPDE6_HUMAN	speedy homolog E6	303	Arg-rich.										0						ATGCGAGAGCGGTTCTTCCTG	0.562													43	761					0	0	0.139131	0	0		A	101988966	A	A	101988966	3	1	26	1	0	0	0	0	1	0	0	0	15058	1116	39	1	309	1	SPDYE6	7	101988966	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	1816114	101988966	57149697	72	22236											
RELN	5649	broad.mit.edu	37	chr7	103234860	103234860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgcccactggtcatagtcctCccctgagaacacgggctgcc	7	8	10	16	1	1	1	1	1	0	1	3	2	3	1	5	2	3	1	5	2	2	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr7:103234860C>T	uc003vca.2	-	26	3779	c.3619G>A	c.(3619-3621)GAG>AAG	p.E1207K	RELN_uc010liz.2_Missense_Mutation_p.E1207K	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1207					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TCATAGTCCTCCCCTGAGAAC	0.488													242	204					0	0	0.139131	0	0		T	103234860	T	T	103234860	3	4	26	1	0	0	0	0	1	0	0	0	13245	864	30	4	6923	4	RELN	7	103234860	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	1245894	103234860	55903803	73	22237											
PIK3CG	5294	broad.mit.edu	37	chr7	106545598	106545598	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcccttcgtcatcacacaaaCctactgatcatcctgttctc	9	12	4	16	1	4	1	3	1	1	0	7	1	5	1	3	0	2	1	3	0	2	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr7:106545598C>T	uc003vdv.3	+	11	3160	c.3075C>T	c.(3073-3075)AAC>AAT	p.N1025N	PIK3CG_uc003vdu.2_Silent_p.N1025N|PIK3CG_uc003vdw.2_Silent_p.N1025N	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	1025	PI3K/PI4K.				G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						ATCACACAAACCTACTGATCA	0.433													34	306					0	0	0.203993	0	0		T	106545598	T	T	106545598	2	4	26	1	0	0	0	0	0	0	0	1	11935	506	18	4		4	PIK3CG	7	106545598	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	3310738	106545598	52593065	74	22238											
CHRM2	1129	broad.mit.edu	37	chr7	136699991	136699991	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggtacttctgtgtcacaAaacctctgacctacccagtc	11	10	6	14	0	3	1	1	1	2	0	4	1	3	1	3	1	3	1	3	1	4	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr7:136699991A>G	uc003vtf.1	+	4	1002	c.379A>G	c.(379-381)AAA>GAA	p.K127E	CHRM2_uc003vtg.1_Missense_Mutation_p.K127E|CHRM2_uc003vtj.1_Missense_Mutation_p.K127E|CHRM2_uc003vtk.1_Missense_Mutation_p.K127E|CHRM2_uc003vtl.1_Missense_Mutation_p.K127E|CHRM2_uc003vtm.1_Missense_Mutation_p.K127E|CHRM2_uc003vti.1_Missense_Mutation_p.K127E|CHRM2_uc003vto.1_Missense_Mutation_p.K127E|CHRM2_uc003vtn.1_Missense_Mutation_p.K127E|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	127	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	CTGTGTCACAAAACCTCTGAC	0.502													37	161					0	0	0.203993	0	0		G	136699991	G	G	136699991	3	3	26	1	0	0	0	0	1	0	0	0	3380	15	1	3	381	3	CHRM2	7	136699991	Missense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	30154393	136699991	22438672	75	22239											
XPO7	23039	broad.mit.edu	37	chr8	21827733	21827733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcacttattcagttatatgCcagaatcacaaaactgggct	14	11	7	9	0	2	1	2	0	0	1	2	1	2	1	1	1	3	3	1	1	6	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr8:21827733C>T	uc003xaa.3	+	4	440	c.338C>T	c.(337-339)GCC>GTC	p.A113V	XPO7_uc010lti.2_Missense_Mutation_p.A113V|XPO7_uc010ltj.1_RNA|XPO7_uc010ltk.2_Missense_Mutation_p.A114V	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	113					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		CAGTTATATGCCAGAATCACA	0.408													6	442					0	0	0.248553	0	0		T	21827733	T	T	21827733	3	4	26	1	0	0	0	0	1	0	0	0	17475	739	26	2	377	2	XPO7	8	21827733	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08		21827733	124536289	76	22240											
TEX15	56154	broad.mit.edu	37	chr8	30699870	30699870	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggccatttttcctaaatCtttcctaggggcagacatta	9	14	9	9	0	1	1	0	0	1	1	3	1	3	1	3	3	0	1	3	3	4	6			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr8:30699870C>A	uc003xil.2	-	1	6664	c.6664G>T	c.(6664-6666)GAT>TAT	p.D2222Y		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2222										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TTTCCTAAATCTTTCCTAGGG	0.343													43	240					2.47872e-24	2.71821e-24	0.117977	1	0		A	30699870	A	A	30699870	3	1	26	1	0	0	0	0	1	0	0	0	15804	913	32	5	1721	5	TEX15	8	30699870	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	8872137	30699870	115664152	77	22241											
ADAM32	203102	broad.mit.edu	37	chr8	39080734	39080734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccatgatctcgatgcacGttgtgagagtgtatttggaa	9	13	12	7	2	1	2	0	2	1	1	2	5	1	3	1	1	2	3	1	1	2	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr8:39080734G>A	uc003xmt.3	+	14	1747	c.1502G>A	c.(1501-1503)CGT>CAT	p.R501H	ADAM32_uc011lch.1_Missense_Mutation_p.R402H|ADAM32_uc003xmu.3_Missense_Mutation_p.R395H|ADAM32_uc003xmv.2_Missense_Mutation_p.V23I	NM_145004	NP_659441	Q8TC27	ADA32_HUMAN	a disintegrin and metalloprotease domain 32	501	Extracellular (Potential).|Cys-rich.				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)			CTCGATGCACGTTGTGAGAGT	0.338													13	21					0	0	0.146539	0	0		A	39080734	A	A	39080734	3	1	26	1	0	0	0	0	1	0	0	0	249	1145	40	1	1556	1	ADAM32	8	39080734	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	8380864	39080734	107283288	78	22242											
RP1	6101	broad.mit.edu	37	chr8	55540977	55540977	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgatagacatctctagtaAgaatattatggaagaaaaaa	20	11	7	3	0	1	4	0	1	1	3	2	5	1	5	0	1	0	1	0	1	10	6			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr8:55540977A>C	uc003xsd.1	+	4	4683	c.4535A>C	c.(4534-4536)AAG>ACG	p.K1512T	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1512					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			ATCTCTAGTAAGAATATTATG	0.333													42	111					0	0	0.246493	0	0		C	55540977	C	C	55540977	3	2	26	1	0	0	0	0	1	0	0	0	13557	72	3	5	4545	5	RP1	8	55540977	Missense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	16460243	55540977	90823045	79	22243											
CHD7	55636	broad.mit.edu	37	chr8	61778367	61778367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagagacccttgaaggcagcGatgccgaggagagcctggat	11	5	16	9	2	0	3	0	1	0	2	0	9	0	4	3	3	3	1	3	3	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr8:61778367G>A	uc003xue.2	+	38	9346	c.8869G>A	c.(8869-8871)GAT>AAT	p.D2957N		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2957					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			TGAAGGCAGCGATGCCGAGGA	0.532													21	36					0	0	0.234183	0	0		A	61778367	A	A	61778367	3	1	26	1	0	0	0	0	1	0	0	0	3333	1058	37	1	9015	1	CHD7	8	61778367	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	6237390	61778367	84585655	80	22244											
PREX2	80243	broad.mit.edu	37	chr8	69002885	69002885	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatggaatcaatgtcagcAaagagacacatgccagtgtc	15	8	10	8	0	2	2	2	1	0	1	3	4	2	3	1	1	2	1	1	1	4	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr8:69002885A>T	uc003xxv.1	+	20	2212	c.2185A>T	c.(2185-2187)AAA>TAA	p.K729*	PREX2_uc003xxu.1_Nonsense_Mutation_p.K729*|PREX2_uc011lez.1_Nonsense_Mutation_p.K664*	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	729	PDZ 2.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CAATGTCAGCAAAGAGACACA	0.463													123	81					0	0	0.139131	0	0		T	69002885	T	T	69002885	4	4	26	1	0	0	0	0	0	1	0	0	12499	131	5	5	2263	5	PREX2	8	69002885	Nonsense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	7224518	69002885	77361137	81	22245											
ZNF704	619279	broad.mit.edu	37	chr8	81553607	81553607	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcctgggggtctctcagtcGaggaacctctggcaggcctt	5	10	14	12	1	3	0	1	0	2	0	5	2	3	1	3	5	2	1	3	5	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr8:81553607G>A	uc003yby.1	-	9	1465	c.1233C>T	c.(1231-1233)CTC>CTT	p.L411L		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	411						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			TCTCTCAGTCGAGGAACCTCT	0.602													6	30					0	0	0.047766	0	0		A	81553607	A	A	81553607	2	1	26	1	0	0	0	0	0	0	0	1	18132	1045	37	1		1	ZNF704	8	81553607	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	12550722	81553607	64810415	82	22246											
ASAP1	50807	broad.mit.edu	37	chr8	131129220	131129220	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaactgtgtttcccagggcCgtctgcttatccaggttccc	6	12	10	13	1	1	1	0	0	1	1	4	1	4	1	4	2	2	3	4	2	2	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr8:131129220C>T	uc003yta.1	-	20	1930	c.1902G>A	c.(1900-1902)ACG>ACA	p.T634T	ASAP1_uc003ysz.1_Silent_p.T445T|ASAP1_uc011liw.1_Silent_p.T627T	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	634					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TTCCCAGGGCCGTCTGCTTAT	0.378													26	162					0	0	0.099896	0	0		T	131129220	T	T	131129220	2	4	26	1	0	0	0	0	0	0	0	1	1011	639	23	1		1	ASAP1	8	131129220	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	49575613	131129220	15234802	83	22247											
C8orf31	286122	broad.mit.edu	37	chr8	144126205	144126205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgccaagcatctgtagcagCgcagaccctgagctgggaga	10	5	13	13	2	1	3	0	1	1	2	1	4	1	3	3	1	4	5	3	1	2	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr8:144126205C>T	uc003yxp.1	+	4	678	c.326C>T	c.(325-327)GCG>GTG	p.A109V	C8orf31_uc003yxq.1_RNA|C8orf31_uc003yxr.1_RNA	NM_173687	NP_775958	Q8N9H6	CH031_HUMAN	hypothetical protein LOC286122	109										ovary(1)	1	all_cancers(97;1.89e-10)|all_epithelial(106;8.73e-09)|Lung NSC(106;0.000161)|all_lung(105;0.000447)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					TCTGTAGCAGCGCAGACCCTG	0.612													12	73					0	0	0.080935	0	0		T	144126205	T	T	144126205	3	4	26	1	0	0	0	0	1	0	0	0	2423	768	27	1	336	1	C8orf31	8	144126205	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	12996985	144126205	2237817	84	22248											
GRHPR	9380	broad.mit.edu	37	chr9	37422818	37422818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgagggtagggtcgcgctcgCccgggcggcagagtaagagc	7	4	19	11	6	0	2	0	0	0	2	2	3	0	2	1	4	1	4	1	4	2	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr9:37422818C>T	uc003zzu.1	+	1	112	c.71C>T	c.(70-72)GCC>GTC	p.A24V	GRHPR_uc010mlu.2_Intron|GRHPR_uc010mlv.1_Intron|GRHPR_uc003zzt.1_Intron	NM_012203	NP_036335	Q9UBQ7	GRHPR_HUMAN	glyoxylate reductase/hydroxypyruvate reductase	24					cellular nitrogen compound metabolic process|excretion|glyoxylate metabolic process	peroxisomal matrix	glycerate dehydrogenase activity|glyoxylate reductase (NADP) activity|hydroxypyruvate reductase activity|NAD binding|protein binding				0				GBM - Glioblastoma multiforme(29;0.00687)		GTCGCGCTCGCCCGGGCGGCA	0.726													6	8					0	0	0.069234	0	0		T	37422818	T	T	37422818	3	4	26	1	0	0	0	0	1	0	0	0	6782	739	26	2	73	2	GRHPR	9	37422818	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08		37422818	103790613	85	22249											
ASTN2	23245	broad.mit.edu	37	chr9	119858332	119858332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacactattacctttgctgcGgcggcgactgcggtactgct	6	11	12	12	4	0	0	0	0	0	0	0	2	0	0	1	3	6	3	1	3	3	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr9:119858332G>A	uc004bjs.1	-	5	1368	c.1267C>T	c.(1267-1269)CGC>TGC	p.R423C	ASTN2_uc004bjr.1_Missense_Mutation_p.R423C|ASTN2_uc004bjt.1_Missense_Mutation_p.R372C	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	423	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CCTTTGCTGCGGCGGCGACTG	0.498													35	61					0	0	0.246493	0	0		A	119858332	A	A	119858332	3	1	26	1	0	0	0	0	1	0	0	0	1066	1116	39	1	3060	1	ASTN2	9	119858332	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	82435514	119858332	21355099	86	22250											
GPR21	2844	broad.mit.edu	37	chr9	125797698	125797698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggccacagcaaccgcttcGcatccttcttgaccacctgg	7	9	8	17	2	1	1	0	1	1	0	3	1	2	1	5	2	2	3	5	2	1	3	rs142528272		TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr9:125797698G>A	uc011lzk.1	+	1	853	c.853G>A	c.(853-855)GCA>ACA	p.A285T	RABGAP1_uc004bnl.3_Intron|RABGAP1_uc011lzh.1_Intron|RABGAP1_uc011lzj.1_Intron|GPR21_uc011lzi.1_RNA	NM_005294	NP_005285	Q99679	GPR21_HUMAN	G protein-coupled receptor 21	285	Helical; Name=7; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1						CAACCGCTTCGCATCCTTCTT	0.438													6	134					0	0	0.248553	0	0		A	125797698	A	A	125797698	3	1	26	1	0	0	0	0	1	0	0	0	6696	1087	38	1	855	1	GPR21	9	125797698	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	5939366	125797698	15415733	87	22251											
LAMC3	10319	broad.mit.edu	37	chr9	133936523	133936523	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccaagccgacgactgccagCcctgtccctgccctggccag	6	5	11	19	2	0	0	0	0	0	0	1	2	1	0	7	1	4	0	7	1	1	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr9:133936523C>A	uc004caa.1	+	13	2358	c.2260C>A	c.(2260-2262)CCC>ACC	p.P754T		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	754	Laminin EGF-like 6.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		CGACTGCCAGCCCTGTCCCTG	0.637													12	17					2.35188e-11	2.48315e-11	0.175082	1	0		A	133936523	A	A	133936523	3	1	26	1	0	0	0	0	1	0	0	0	8632	739	26	5	2310	5	LAMC3	9	133936523	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	8138825	133936523	7276908	88	22252											
RALGDS	5900	broad.mit.edu	37	chr9	135978249	135978249	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgtagttgttgcaggcCgactgcagcagcttgatctg	7	12	13	9	1	1	1	0	1	1	0	1	2	1	1	1	1	5	8	1	1	1	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr9:135978249C>T	uc004cco.2	-	13	1850	c.1830G>A	c.(1828-1830)TCG>TCA	p.S610S	RALGDS_uc004ccn.2_5'Flank|RALGDS_uc004ccp.2_RNA|RALGDS_uc004ccq.2_Silent_p.S598S|RALGDS_uc004ccr.2_Silent_p.S609S|RALGDS_uc011mcv.1_Silent_p.S581S|RALGDS_uc004ccs.2_Silent_p.S555S|RALGDS_uc011mcw.1_Silent_p.S681S|RALGDS_uc004ccv.1_Silent_p.S379S|RALGDS_uc004ccu.1_Silent_p.S379S	NM_006266	NP_006257	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	610	Ras-GEF.				nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		TGTTGCAGGCCGACTGCAGCA	0.662			T	CIITA	PMBL|Hodgkin Lymphona|						OREG0019581	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	27					0	0	0.083992	0	0		T	135978249	T	T	135978249	2	4	26	1	0	0	0	0	0	0	0	1	13041	639	23	1		1	RALGDS	9	135978249	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	2041726	135978249	5235182	89	22253											
COL5A1	1289	broad.mit.edu	37	chr9	137734065	137734065	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaagtggagcaggtgccCatcgtggacatcatgttcaa	11	8	11	11	1	2	0	2	0	0	0	3	2	2	2	2	3	2	2	2	3	2	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr9:137734065C>A	uc004cfe.2	+	66	5815	c.5433C>A	c.(5431-5433)CCC>CCA	p.P1811P	uc004cff.2_Intron	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1811	Fibrillar collagen NC1.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		AGCAGGTGCCCATCGTGGACA	0.562													18	83					5.3912e-06	5.56274e-06	0.175082	1	0		A	137734065	A	A	137734065	2	1	26	1	0	0	0	0	0	0	0	1	3699	581	21	5		5	COL5A1	9	137734065	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	1755816	137734065	3479366	90	22254											
FAM166A	401565	broad.mit.edu	37	chr9	140139643	140139643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctggcggcgggcggggggtgGgtactcatccctctggcagt	3	8	19	11	3	2	0	1	0	1	0	3	0	3	0	1	8	1	2	1	8	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr9:140139643G>A	uc004cmi.1	-	4	605	c.550C>T	c.(550-552)CCA>TCA	p.P184S		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	184										ovary(1)	1						GCGGGGGGTGGGTACTCATCC	0.662													3	62					0	0	0.115264	0	0		A	140139643	A	A	140139643	3	1	26	1	0	0	0	0	1	0	0	0	5492	1232	43	4	419	4	FAM166A	9	140139643	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	2405578	140139643	1073788	91	22255											
CUBN	8029	broad.mit.edu	37	chr10	16911646	16911646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcttacccaatgtctgcCggaaagacatcttccagcct	11	11	6	13	1	3	1	0	0	3	1	4	2	4	2	4	1	3	0	4	1	4	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr10:16911646C>T	uc001ioo.2	-	59	9495	c.9443G>A	c.(9442-9444)CGG>CAG	p.R3148Q	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Missense_Mutation_p.R504Q	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3148	CUB 23.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CAATGTCTGCCGGAAAGACAT	0.468													42	282					0	0	0.124865	0	0		T	16911646	T	T	16911646	3	4	26	1	0	0	0	0	1	0	0	0	4054	652	23	1	1464	1	CUBN	10	16911646	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08		16911646	118623101	92	22256											
OGDHL	55753	broad.mit.edu	37	chr10	50953852	50953852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagacccaccaggtccaCgacaacatctttgttgaaag	12	7	7	15	1	1	2	0	1	1	1	2	3	2	2	5	1	1	1	5	1	2	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr10:50953852C>T	uc001jie.2	-	11	1610	c.1468G>A	c.(1468-1470)GTG>ATG	p.V490M	OGDHL_uc009xog.2_Missense_Mutation_p.V517M|OGDHL_uc010qgt.1_Missense_Mutation_p.V433M|OGDHL_uc010qgu.1_Missense_Mutation_p.V281M|OGDHL_uc009xoh.2_Missense_Mutation_p.V281M	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	490					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						ACCAGGTCCACGACAACATCT	0.557													11	49					0	0	0.080935	0	0		T	50953852	T	T	50953852	3	4	26	1	0	0	0	0	1	0	0	0	10859	536	19	1	1616	1	OGDHL	10	50953852	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	34042206	50953852	84580895	93	22257											
PLCE1	51196	broad.mit.edu	37	chr10	96066442	96066442	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccactgaaagctttaaaaCgaggtagaataaaattgtcc	16	11	7	7	1	0	2	0	1	0	1	2	3	2	2	2	1	2	2	2	1	7	6			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr10:96066442C>T	uc001kjk.2	+	26	6515	c.5881C>T	c.(5881-5883)CGA>TGA	p.R1961*	PLCE1_uc010qnx.1_Nonsense_Mutation_p.R1945*|PLCE1_uc001kjm.2_Nonsense_Mutation_p.R1653*|PLCE1_uc001kjp.2_Nonsense_Mutation_p.R319*	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1961					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				AGCTTTAAAACGaggtagaat	0.199													12	27					0	0	0.09319	0	0		T	96066442	T	T	96066442	4	4	26	1	0	0	0	0	0	1	0	0	12053	528	19	1	6265	1	PLCE1	10	96066442	Nonsense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	45112590	96066442	39468305	94	22258											
UBTD1	80019	broad.mit.edu	37	chr10	99330046	99330046	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcgtgcgccgtgagttcccGctgaaggtgcgcctgtccac	5	8	14	14	5	0	2	0	2	0	0	2	2	2	2	4	1	3	2	4	1	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr10:99330046G>T	uc001knv.1	+	3	643	c.450G>T	c.(448-450)CCG>CCT	p.P150P	ANKRD2_uc001knw.2_5'Flank|ANKRD2_uc009xvu.2_5'Flank	NM_024954	NP_079230	Q9HAC8	UBTD1_HUMAN	ubiquitin domain containing 1	150	Ubiquitin-like.										0		Colorectal(252;0.162)		Epithelial(162;3.04e-10)|all cancers(201;2.86e-08)		GTGAGTTCCCGCTGAAGGTGC	0.692													7	80					0.00621372	0.00638241	0.058154	1	0		T	99330046	T	T	99330046	2	4	26	1	0	0	0	0	0	0	0	1	16933	1074	38	5		5	UBTD1	10	99330046	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	3263604	99330046	36204701	95	22259											
ENTPD7	57089	broad.mit.edu	37	chr10	101464232	101464232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcggcaggaaggtgtccGacaagcccatggtagctggt	8	9	14	10	2	1	0	0	0	1	0	3	2	2	1	2	5	2	3	2	5	3	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr10:101464232G>A	uc001kqa.3	+	13	1785	c.1607G>A	c.(1606-1608)CGA>CAA	p.R536Q	ENTPD7_uc009xwl.2_Missense_Mutation_p.R538Q	NM_020354	NP_065087	Q9NQZ7	ENTP7_HUMAN	ectonucleoside triphosphate diphosphohydrolase	536	Vesicular (Potential).					cytoplasmic vesicle membrane|integral to membrane	hydrolase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)		GAAGGTGTCCGACAAGCCCAT	0.448													19	126					0	0	0.234183	0	0		A	101464232	A	A	101464232	3	1	26	1	0	0	0	0	1	0	0	0	5152	1058	37	1	1653	1	ENTPD7	10	101464232	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	2134186	101464232	34070515	96	22260											
TECTB	6975	broad.mit.edu	37	chr10	114059304	114059304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccgggggagtcctggtcGtggagctctccctgcggagt	5	8	17	11	3	1	1	0	0	1	1	4	4	2	4	3	5	2	1	3	5	0	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr10:114059304G>A	uc001kzr.1	+	8	889	c.889G>A	c.(889-891)GTG>ATG	p.V297M		NM_058222	NP_478129	Q96PL2	TECTB_HUMAN	tectorin beta precursor	297						anchored to membrane|plasma membrane|proteinaceous extracellular matrix					0		Colorectal(252;0.198)		Epithelial(162;0.0143)|all cancers(201;0.0242)		AGTCCTGGTCGTGGAGCTCTC	0.597													21	83					0	0	0.219247	0	0		A	114059304	A	A	114059304	3	1	26	1	0	0	0	0	1	0	0	0	15773	1145	40	1	919	1	TECTB	10	114059304	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	12595072	114059304	21475443	97	22261											
ZDHHC6	64429	broad.mit.edu	37	chr10	114200363	114200363	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaggcaaacaaggtggtagCaaatgcagctaatccaaatg	17	6	10	8	0	0	0	0	0	0	0	1	0	1	0	1	3	4	5	1	3	7	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr10:114200363C>G	uc001kzv.2	-	5	1034	c.610G>C	c.(610-612)GCT>CCT	p.A204P	ZDHHC6_uc001kzw.2_Missense_Mutation_p.A200P|ZDHHC6_uc009xya.1_Missense_Mutation_p.A204P	NM_022494	NP_071939	Q9H6R6	ZDHC6_HUMAN	zinc finger, DHHC-type containing 6	204						integral to membrane	acyltransferase activity|zinc ion binding				0		Colorectal(252;0.198)		Epithelial(162;0.0291)|all cancers(201;0.117)		AAGGTGGTAGCAAATGCAGCT	0.448													62	147					0	0	0.139131	0	0		G	114200363	G	G	114200363	3	3	26	1	0	0	0	0	1	0	0	0	17644	710	25	5	659	5	ZDHHC6	10	114200363	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	141059	114200363	21334384	98	22262											
DKK3	27122	broad.mit.edu	37	chr11	11987447	11987447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatgaggtccagaagccGgctggcggggtcatggcaaa	9	6	18	8	2	1	3	1	2	0	1	2	3	2	3	2	7	1	2	2	7	2	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr11:11987447G>A	uc001mju.2	-	6	796	c.739C>T	c.(739-741)CGG>TGG	p.R247W	DKK3_uc010rcf.1_Missense_Mutation_p.R219W|DKK3_uc001mjv.2_Missense_Mutation_p.R247W|DKK3_uc001mjw.2_Missense_Mutation_p.R247W|DKK3_uc010rcg.1_Missense_Mutation_p.R247W	NM_001018057	NP_001018067	Q9UBP4	DKK3_HUMAN	dickkopf homolog 3 precursor	247	DKK-type Cys-2.				adrenal gland development|anatomical structure morphogenesis|negative regulation of aldosterone biosynthetic process|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cortisol biosynthetic process|negative regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	extracellular space				breast(1)	1				Epithelial(150;0.000502)		TCCAGAAGCCGGCTGGCGGGG	0.672													27	31					0	0	0.134883	0	0		A	11987447	A	A	11987447	3	1	26	1	0	0	0	0	1	0	0	0	4552	1115	39	1	321	1	DKK3	11	11987447	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08		11987447	123019069	99	22263											
PTPRJ	5795	broad.mit.edu	37	chr11	48171647	48171647	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgataagttttgttttcttaGatctaagttaatcagagtgg	11	18	9	3	0	3	3	1	1	2	2	3	3	3	3	0	1	0	3	0	1	4	8			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr11:48171647G>T	uc001ngp.3	+	18	3406	c.3051_splice	c.e18-1	p.K1017_splice		NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J						contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						TGTTTTCTTAGATCTAAGTTA	0.338													55	66					3.19069e-20	3.43263e-20	0.139131	1	0		T	48171647	T	T	48171647	5	4	26	1	0	0	0	0	0	0	1	0	12829	956	33	5	3129	5	PTPRJ	11	48171647	Splice_Site	SNP	G	TCGA-BR-4371-01A-01D-1158-08	36184200	48171647	86834869	100	22264											
OR4A5	81318	broad.mit.edu	37	chr11	51411489	51411489	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctataataaatatagttaActttttacccaagagttttt	14	18	3	6	0	0	1	0	0	0	1	1	1	1	1	2	0	2	2	2	0	9	11			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr11:51411489A>C	uc001nhi.1	-	1	907	c.907T>G	c.(907-909)TTA>GTA	p.L303V		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				AATATAGTTAACTTTTTACCC	0.363													6	14					0	0	0.217242	0	0		C	51411489	C	C	51411489	3	2	26	1	0	0	0	0	1	0	0	0	11062	40	2	5	44	5	OR4A5	11	51411489	Missense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	3239842	51411489	83595027	101	22265			1	6		2	2	14	N	G_A	7.852601e-05
OR4A5	81318	broad.mit.edu	37	chr11	51411502	51411502	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atagttaactttttacccaaGagtttttctatagcatttct	11	19	4	7	0	2	1	0	0	2	1	2	1	2	1	1	0	3	3	1	0	6	10			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr11:51411502G>A	uc001nhi.1	-	1	894	c.894C>T	c.(892-894)CTC>CTT	p.L298L		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	298	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				TTTTACCCAAGAGTTTTTCTA	0.353													10	25					0	0	0.058154	0	0		A	51411502	A	A	51411502	2	1	26	1	0	0	0	0	0	0	0	1	11062	929	33	4		4	OR4A5	11	51411502	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	13	51411502	83595014	102	22266			1	6		2	2	14	N	G_A	7.852601e-05
OR5D16	390144	broad.mit.edu	37	chr11	55606944	55606944	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtgggcaccgcaaagtCttctccacctgtgcctccca	7	8	9	17	1	2	0	0	0	2	0	4	0	3	0	6	1	1	2	6	1	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr11:55606944C>A	uc010rio.1	+	1	717	c.717C>A	c.(715-717)GTC>GTA	p.V239V		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	239	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				ACCGCAAAGTCTTCTCCACCT	0.488													21	144					2.89027e-11	3.03746e-11	0.249174	1	0		A	55606944	A	A	55606944	2	1	26	1	0	0	0	0	0	0	0	1	11175	900	32	5		5	OR5D16	11	55606944	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	4195442	55606944	79399572	103	22267											
KLC2	64837	broad.mit.edu	37	chr11	66029349	66029349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacacagcagaagctgcagcGcagtgagcaggccgtggccc	10	3	15	13	2	0	2	0	1	0	1	0	3	0	2	2	2	5	5	2	2	1	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr11:66029349G>A	uc010rov.1	+	3	608	c.365G>A	c.(364-366)CGC>CAC	p.R122H	KLC2_uc010row.1_Missense_Mutation_p.R122H|KLC2_uc009yra.2_Missense_Mutation_p.R122H|KLC2_uc001ohb.2_Missense_Mutation_p.R122H|KLC2_uc010rox.1_Intron|KLC2_uc001ohc.2_Missense_Mutation_p.R122H|KLC2_uc001ohd.2_Intron|KLC2_uc001ohe.1_5'UTR	NM_001134775	NP_001128247	Q9H0B6	KLC2_HUMAN	kinesin light chain 2 isoform 1	122	Potential.				blood coagulation	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0						AAGCTGCAGCGCAGTGAGCAG	0.627													26	62					0	0	0.0918	0	0		A	66029349	A	A	66029349	3	1	26	1	0	0	0	0	1	0	0	0	8350	1087	38	1	371	1	KLC2	11	66029349	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	10422405	66029349	68977167	104	22268											
CTSF	8722	broad.mit.edu	37	chr11	66333303	66333303	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagagcgagatgctcaccCtgttcagagagggagagcag	12	6	15	8	1	2	4	2	0	0	4	2	7	2	4	1	1	3	4	1	1	1	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr11:66333303C>T	uc001oip.2	-	7	1053	c.963G>A	c.(961-963)CAG>CAA	p.Q321Q		NM_003793	NP_003784	Q9UBX1	CATF_HUMAN	cathepsin F precursor	321					proteolysis	lysosome	cysteine-type endopeptidase activity				0						GATGCTCACCCTGTTCAGAGA	0.592													42	58					0	0	0.11126	0	0		T	66333303	T	T	66333303	2	4	26	1	0	0	0	0	0	0	0	1	4037	695	24	4		4	CTSF	11	66333303	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	303954	66333303	68673213	105	22269											
NUMA1	4926	broad.mit.edu	37	chr11	71715113	71715113	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcttcttgggtgtgttgagGatgctgaaggccatcgactg	7	12	15	7	1	1	2	0	2	1	0	2	4	1	3	1	3	2	3	1	3	1	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr11:71715113G>A	uc001orl.1	-	26	6328	c.6156C>T	c.(6154-6156)ATC>ATT	p.I2052I	IL18BP_uc009ysu.1_Intron|NUMA1_uc001orj.2_Silent_p.I234I|NUMA1_uc009ysw.1_Silent_p.I1619I|NUMA1_uc001ork.1_Silent_p.I916I|NUMA1_uc001orm.1_Silent_p.I2038I	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	2052					G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						GTGTGTTGAGGATGCTGAAGG	0.642			T	RARA	APL								74	107					0	0	0.139131	0	0		A	71715113	A	A	71715113	2	1	26	1	0	0	0	0	0	0	0	1	10769	1164	41	4		4	NUMA1	11	71715113	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	5381810	71715113	63291403	106	22270											
PDE2A	5138	broad.mit.edu	37	chr11	72295734	72295734	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtggtcgccacgtgtccCgcgatgccctgatcggccgg	3	7	14	17	7	0	1	0	1	0	0	3	2	1	1	5	3	1	0	5	3	0	0	rs150054293	byFrequency	TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr11:72295734C>T	uc010rrc.1	-	18	1641	c.1398G>A	c.(1396-1398)GCG>GCA	p.A466A	PDE2A_uc001oso.2_Silent_p.A445A|PDE2A_uc010rra.1_Silent_p.A459A|PDE2A_uc001osn.2_Silent_p.A210A|PDE2A_uc010rrb.1_Silent_p.A457A|PDE2A_uc010rrd.1_Silent_p.A351A	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	466	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	CCACGTGTCCCGCGATGCCCT	0.632													15	51					0	0	0.146539	0	0		T	72295734	T	T	72295734	2	4	26	1	0	0	0	0	0	0	0	1	11655	639	23	1		1	PDE2A	11	72295734	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	580621	72295734	62710782	107	22271											
BUD13	84811	broad.mit.edu	37	chr11	116631555	116631555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcagaatcagagctccGgtgtctaggtctattccgtg	8	11	13	9	2	4	2	2	0	2	2	6	3	6	2	2	3	1	1	2	3	3	3	rs149005278		TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr11:116631555G>A	uc001ppn.2	-	5	1184	c.1150C>T	c.(1150-1152)CGG>TGG	p.R384W	BUD13_uc001ppo.2_Missense_Mutation_p.R250W|BUD13_uc009yzc.2_Missense_Mutation_p.R384W	NM_032725	NP_116114	Q9BRD0	BUD13_HUMAN	BUD13 homolog isoform 1	384										large_intestine(1)|pancreas(1)	2	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.81e-06)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.154)		TCAGAGCTCCGGTGTCTAGGT	0.517													61	75					0	0	0.139131	0	0		A	116631555	A	A	116631555	3	1	26	1	0	0	0	0	1	0	0	0	1576	1115	39	1	733	1	BUD13	11	116631555	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	44335821	116631555	18374961	108	22272											
CXCR5	643	broad.mit.edu	37	chr11	118764855	118764855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacaacaactccctgccacGttgcaccttctcccaagaga	11	8	5	17	1	2	1	1	0	1	1	4	2	3	1	4	0	4	2	4	0	3	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr11:118764855G>A	uc001pue.3	+	2	712	c.602G>A	c.(601-603)CGT>CAT	p.R201H	CXCR5_uc001puf.2_Missense_Mutation_p.R156H	NM_001716	NP_001707	P32302	CXCR5_HUMAN	Burkitt lymphoma receptor 1 isoform 1	201	Extracellular (Potential).				B cell activation|cellular component movement	integral to plasma membrane	C-X-C chemokine receptor activity			breast(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.62e-05)		TCCCTGCCACGTTGCACCTTC	0.567													6	61					0	0	0.248553	0	0		A	118764855	A	A	118764855	3	1	26	1	0	0	0	0	1	0	0	0	4097	1145	40	1	608	1	CXCR5	11	118764855	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	2133300	118764855	16241661	109	22273											
FKBP4	2288	broad.mit.edu	37	chr12	2912353	2912353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctcaggagaccatcccactGacacagagatgaaggaggag	14	4	12	11	0	1	4	1	2	0	2	2	8	2	6	3	3	0	0	3	3	1	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr12:2912353G>A	uc001qkz.2	+	10	1507	c.1309G>A	c.(1309-1311)GAC>AAC	p.D437N		NM_002014	NP_002005	Q02790	FKBP4_HUMAN	FK506 binding protein 52	437					negative regulation of microtubule polymerization or depolymerization|negative regulation of neuron projection development|protein folding	axonal growth cone|cytosol|membrane|microtubule|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity|protein binding, bridging				0			OV - Ovarian serous cystadenocarcinoma(31;0.00105)		Dimethyl sulfoxide(DB01093)	CCATCCCACTGACACAGAGAT	0.552													11	9					0	0	0.069234	0	0		A	2912353	A	A	2912353	3	1	26	1	0	0	0	0	1	0	0	0	5924	1290	45	4	1347	4	FKBP4	12	2912353	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08		2912353	130939542	110	22274											
PLEKHG6	55200	broad.mit.edu	37	chr12	6436922	6436922	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggggcctctgttcctgaaaGctggccacacatccctgcgc	7	8	11	15	1	1	1	0	1	1	0	3	1	3	1	4	3	2	2	4	3	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr12:6436922G>C	uc001qnr.2	+	15	2321	c.2173G>C	c.(2173-2175)GCT>CCT	p.A725P	PLEKHG6_uc010sew.1_Missense_Mutation_p.A725P|PLEKHG6_uc010sex.1_Missense_Mutation_p.A693P	NM_018173	NP_060643	Q3KR16	PKHG6_HUMAN	pleckstrin homology domain-containing family G	725					regulation of Rho protein signal transduction	cleavage furrow|cytoplasm|spindle pole	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|skin(1)	2						GTTCCTGAAAGCTGGCCACAC	0.657													16	28					0	0	0.189662	0	0		C	6436922	C	C	6436922	3	2	26	1	0	0	0	0	1	0	0	0	12093	971	34	5	2273	5	PLEKHG6	12	6436922	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	3524569	6436922	127414973	111	22275											
KIAA1467	57613	broad.mit.edu	37	chr12	13215850	13215850	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgccccagttgtggtactgCcagacttggatgaagacggt	8	10	13	10	1	0	3	0	1	0	2	0	4	0	4	3	3	3	2	3	3	2	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr12:13215850C>A	uc001rbi.2	+	5	816	c.793C>A	c.(793-795)CCA>ACA	p.P265T	KIAA1467_uc009zhx.1_RNA	NM_020853	NP_065904	A2RU67	K1467_HUMAN	hypothetical protein LOC57613	265						integral to membrane				central_nervous_system(2)|skin(1)	3		Prostate(47;0.184)		BRCA - Breast invasive adenocarcinoma(232;0.157)		TGTGGTACTGCCAGACTTGGA	0.463													168	263					3.43769e-75	3.88237e-75	0.139131	1	0		A	13215850	A	A	13215850	3	1	26	1	0	0	0	0	1	0	0	0	8251	739	26	5	811	5	KIAA1467	12	13215850	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	6778928	13215850	120636045	112	22276											
TMTC1	83857	broad.mit.edu	37	chr12	29665041	29665041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtctgggtttagttgcacagCcactctatagctctaaataa	11	13	8	9	0	3	0	0	0	3	0	3	0	3	0	1	1	3	4	1	1	6	7			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr12:29665041C>T	uc001rjb.2	-	17	2593	c.2119G>A	c.(2119-2121)GCT>ACT	p.A707T	TMTC1_uc001riz.2_Missense_Mutation_p.A464T|TMTC1_uc001rja.2_Missense_Mutation_p.A551T|TMTC1_uc001riy.2_Missense_Mutation_p.A160T	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	815	TPR 9.					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					AGTTGCACAGCCACTCTATAG	0.443													74	100					0	0	0.139131	0	0		T	29665041	T	T	29665041	3	4	26	1	0	0	0	0	1	0	0	0	16285	739	26	2	213	2	TMTC1	12	29665041	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	16449191	29665041	104186854	113	22277											
SP1	6667	broad.mit.edu	37	chr12	53775997	53775997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggcccgagtcagtcaggggGaacaggtgagcttgacctca	9	6	16	10	1	3	2	3	2	0	0	3	4	3	3	2	4	2	1	2	4	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr12:53775997G>A	uc001scw.2	+	3	363	c.266G>A	c.(265-267)GGA>GAA	p.G89E	SP1_uc010sog.1_Missense_Mutation_p.G82E	NM_138473	NP_612482	P08047	SP1_HUMAN	Sp1 transcription factor isoform a	89	Ser/Thr-rich.				positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)		CAGTCAGGGGGAACAGGTGAG	0.562													17	46					0	0	0.189662	0	0		A	53775997	A	A	53775997	3	1	26	1	0	0	0	0	1	0	0	0	14984	1174	41	4	276	4	SP1	12	53775997	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	24110956	53775997	80075898	114	22278											
MIP	4284	broad.mit.edu	37	chr12	56845179	56845179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagaaatactcttgagcCgggggaagagaagaaagtcg	14	7	13	7	2	2	4	1	1	2	3	4	6	2	5	1	2	2	0	1	2	5	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr12:56845179C>T	uc001slh.2	-	4	709	c.677G>A	c.(676-678)CGG>CAG	p.R226Q	TIMELESS_uc001slf.2_5'Flank|TIMELESS_uc001slg.2_5'Flank	NM_012064	NP_036196	P30301	MIP_HUMAN	major intrinsic protein of lens fiber	226	Cytoplasmic (By similarity).				response to stimulus|visual perception	gap junction|integral to plasma membrane	structural constituent of eye lens			skin(1)	1						ACTCTTGAGCCGGGGGAAGAG	0.522													57	72					0	0	0.139131	0	0		T	56845179	T	T	56845179	3	4	26	1	0	0	0	0	1	0	0	0	9609	652	23	1	118	1	MIP	12	56845179	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	3069182	56845179	77006716	115	22279											
NAB2	4665	broad.mit.edu	37	chr12	57487217	57487217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgtccaaggctgacgcCgccccctgctgacctgcctc	5	8	10	18	2	1	2	1	2	0	0	3	2	2	2	6	1	2	2	6	1	1	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr12:57487217C>T	uc001smz.2	+	6	1682	c.1304C>T	c.(1303-1305)CCG>CTG	p.P435L		NM_005967	NP_005958	Q15742	NAB2_HUMAN	NGFI-A binding protein 2	435					cell proliferation|negative regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	transcription corepressor activity			upper_aerodigestive_tract(1)|ovary(1)	2						AGGCTGACGCCGCCCCCTGCT	0.657													5	8					0	0	0.184627	0	0		T	57487217	T	T	57487217	3	4	26	1	0	0	0	0	1	0	0	0	10150	652	23	1	1326	1	NAB2	12	57487217	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	642038	57487217	76364678	116	22280											
NUP107	57122	broad.mit.edu	37	chr12	69128509	69128509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagcccatgaaacctttaatGagtggtttaagcatatgaat	15	12	8	6	0	0	3	0	3	0	0	0	3	0	3	2	1	3	2	2	1	6	5			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr12:69128509G>A	uc001suf.2	+	25	2399	c.2284G>A	c.(2284-2286)GAG>AAG	p.E762K	NUP107_uc001sug.2_Missense_Mutation_p.E521K|NUP107_uc010stj.1_Missense_Mutation_p.E733K	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	762					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			AACCTTTAATGAGTGGTTTAA	0.299													41	46					0	0	0.124865	0	0		A	69128509	A	A	69128509	3	1	26	1	0	0	0	0	1	0	0	0	10772	1291	45	4	2382	4	NUP107	12	69128509	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	11641292	69128509	64723386	117	22281											
BEST3	144453	broad.mit.edu	37	chr12	70071027	70071027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctgcaccaagagcggtatCgattcatttcctaagccaga	11	9	10	11	2	1	2	1	0	0	2	3	3	2	2	3	2	3	3	3	2	3	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr12:70071027C>T	uc001svg.2	-	6	874	c.647G>A	c.(646-648)CGA>CAA	p.R216Q	BEST3_uc001svd.1_Missense_Mutation_p.R216Q|BEST3_uc001sve.1_RNA|BEST3_uc001svf.2_Missense_Mutation_p.R54Q|BEST3_uc010stm.1_Missense_Mutation_p.R110Q|BEST3_uc001svh.2_Missense_Mutation_p.R54Q	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	216	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			AGAGCGGTATCGATTCATTTC	0.413													8	13					0	0	0.047766	0	0		T	70071027	T	T	70071027	3	4	26	1	0	0	0	0	1	0	0	0	1407	884	31	1	1379	1	BEST3	12	70071027	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	942518	70071027	63780868	118	22282											
TRHDE	29953	broad.mit.edu	37	chr12	72667143	72667143	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagaaagtgcagctggcCgaggaccgggcgttcggggc	7	5	20	9	4	0	1	0	0	0	1	1	4	0	2	2	6	2	3	2	6	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr12:72667143C>T	uc001sxa.2	+	1	615	c.585C>T	c.(583-585)GCC>GCT	p.A195A	LOC283392_uc010stv.1_5'UTR	NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	195	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TGCAGCTGGCCGAGGACCGGG	0.632													10	50					0	0	0.09319	0	0		T	72667143	T	T	72667143	2	4	26	1	0	0	0	0	0	0	0	1	16505	639	23	1		1	TRHDE	12	72667143	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	2596116	72667143	61184752	119	22283											
TBX5	6910	broad.mit.edu	37	chr12	114837435	114837435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtaactgggaaacatcCgcctaagagagagggacgga	13	7	13	8	2	0	2	0	0	0	2	1	6	1	5	2	3	2	1	2	3	3	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr12:114837435C>T	uc001tvo.2	-	4	740	c.245G>A	c.(244-246)CGG>CAG	p.R82Q	TBX5_uc001tvp.2_Missense_Mutation_p.R82Q|TBX5_uc001tvq.2_Missense_Mutation_p.R32Q|TBX5_uc010syv.1_Missense_Mutation_p.R82Q	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	82	T-box.				cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		GGGAAACATCCGCCTAAGAGA	0.478													26	153					0	0	0.116897	0	0		T	114837435	T	T	114837435	3	4	26	1	0	0	0	0	1	0	0	0	15686	652	23	1	1402	1	TBX5	12	114837435	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	42170292	114837435	19014460	120	22284											
DNAH10	196385	broad.mit.edu	37	chr12	124382427	124382427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttctacagaaattgaggCgcagcaactatgtcactccc	12	10	8	11	1	2	2	1	1	1	1	3	2	3	2	1	1	3	3	1	1	4	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr12:124382427C>T	uc001uft.3	+	54	9062	c.9037C>T	c.(9037-9039)CGC>TGC	p.R3013C		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	3013	AAA 4 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GAAATTGAGGCGCAGCAACTA	0.413													29	47					0	0	0.203993	0	0		T	124382427	T	T	124382427	3	4	26	1	0	0	0	0	1	0	0	0	4604	768	27	1	9251	1	DNAH10	12	124382427	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	9544992	124382427	9469468	121	22285											
TPTE2	93492	broad.mit.edu	37	chr13	19997247	19997247	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagcaaattctggtggataAattttccatgctttttgttt	10	18	7	6	0	1	0	0	0	1	0	2	1	2	1	1	2	2	3	1	2	3	7			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr13:19997247A>C	uc001umd.2	-	21	1735	c.1524T>G	c.(1522-1524)ATT>ATG	p.I508M	TPTE2_uc009zzk.2_RNA|TPTE2_uc009zzl.2_Missense_Mutation_p.I397M|TPTE2_uc001ume.2_Missense_Mutation_p.I431M|TPTE2_uc009zzm.2_Missense_Mutation_p.I179M|TPTE2_uc010tcm.1_RNA|TPTE2_uc010tcl.1_Missense_Mutation_p.I179M	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	508	C2 tensin-type.					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		CTGGTGGATAAATTTTCCATG	0.368													18	101					0	0	0.175082	0	0		C	19997247	C	C	19997247	3	2	26	1	0	0	0	0	1	0	0	0	16457	10	1	5	48	5	TPTE2	13	19997247	Missense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08		19997247	95172631	122	22286											
FREM2	341640	broad.mit.edu	37	chr13	39262883	39262883	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcagtggtccgcaaaacTtggtcatcagcgatgaggat	11	8	13	9	2	2	1	2	1	0	0	3	3	3	2	1	4	2	2	1	4	2	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr13:39262883T>G	uc001uwv.2	+	1	1711	c.1402T>G	c.(1402-1404)TTG>GTG	p.L468V		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	468	Extracellular (Potential).|CSPG 2.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TCCGCAAAACTTGGTCATCAG	0.587													16	85					0	0	0.175082	0	0		G	39262883	G	G	39262883	3	3	26	1	0	0	0	0	1	0	0	0	6059	1606	56	5	1404	5	FREM2	13	39262883	Missense_Mutation	SNP	T	TCGA-BR-4371-01A-01D-1158-08	19265636	39262883	75906995	123	22287											
SLITRK6	84189	broad.mit.edu	37	chr13	86369596	86369596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgataagctttcaatgttgcGctcctgacaatgtattagaa	12	14	8	7	1	1	3	1	2	0	1	2	3	2	3	1	0	2	4	1	0	6	5			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr13:86369596G>A	uc001vll.1	-	2	1507	c.1048C>T	c.(1048-1050)CGC>TGC	p.R350C	SLITRK6_uc010afe.1_Missense_Mutation_p.R115C	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	350	Extracellular (Potential).|LRRNT 2.					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		TCAATGTTGCGCTCCTGACAA	0.418													19	194					0	0	0.234183	0	0		A	86369596	A	A	86369596	3	1	26	1	0	0	0	0	1	0	0	0	14772	1087	38	1	1481	1	SLITRK6	13	86369596	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	47106713	86369596	28800282	124	22288											
GPC5	2262	broad.mit.edu	37	chr13	92797214	92797214	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggggatcaggaagtggagaAgtcaagaggacactgaagat	15	5	17	4	0	2	4	2	1	0	3	2	8	2	7	0	5	0	0	0	5	4	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr13:92797214A>C	uc010tif.1	+	7	1899	c.1533A>C	c.(1531-1533)GAA>GAC	p.E511D		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	511						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				GAAGTGGAGAAGTCAAGAGGA	0.413													23	135					0	0	0.249174	0	0		C	92797214	C	C	92797214	3	2	26	1	0	0	0	0	1	0	0	0	6616	69	3	5	1559	5	GPC5	13	92797214	Missense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	6427618	92797214	22372664	125	22289											
OR4M1	441670	broad.mit.edu	37	chr14	20249146	20249146	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtcctatgccttccttcTggccttgctcaagaaacatt	9	14	6	12	0	2	1	1	0	1	1	4	1	4	1	4	1	3	1	4	1	4	5	rs148618328		TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr14:20249146T>C	uc010tku.1	+	1	665	c.665T>C	c.(664-666)CTG>CCG	p.L222P		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GCCTTCCTTCTGGCCTTGCTC	0.478													47	387					0	0	0.139131	0	0		C	20249146	C	C	20249146	3	2	26	1	0	0	0	0	1	0	0	0	11094	1580	55	3	667	3	OR4M1	14	20249146	Missense_Mutation	SNP	T	TCGA-BR-4371-01A-01D-1158-08		20249146	87100394	126	22290											
SLC22A17	51310	broad.mit.edu	37	chr14	23818627	23818627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagcacaatcccgcgaCggccaaatctagaaagtggg	13	5	11	12	3	2	1	1	0	1	1	3	2	3	1	2	2	2	2	2	2	4	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr14:23818627C>T	uc001wjl.2	-	3	436	c.380G>A	c.(379-381)CGT>CAT	p.R127H	SLC22A17_uc010akk.2_5'UTR|SLC22A17_uc001wjn.2_RNA|SLC22A17_uc001wjm.2_Missense_Mutation_p.R127H|SLC22A17_uc010akl.1_Missense_Mutation_p.R127H	NM_020372	NP_065105	Q8WUG5	S22AH_HUMAN	solute carrier family 22, member 17 isoform a	127					siderophore transport	integral to organelle membrane|integral to plasma membrane|vacuolar membrane	transmembrane receptor activity|transmembrane transporter activity				0	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00643)		AATCCCGCGACGGCCAAATCT	0.612													11	24					0	0	0.080935	0	0		T	23818627	T	T	23818627	3	4	26	1	0	0	0	0	1	0	0	0	14473	536	19	1	1264	1	SLC22A17	14	23818627	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	3569481	23818627	83530913	127	22291											
JPH4	84502	broad.mit.edu	37	chr14	24040633	24040633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctcatccaggggctccGtgtcggaaccttctgagtcc	5	11	11	14	2	2	1	1	1	1	0	7	2	6	2	5	3	1	1	5	3	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr14:24040633G>A	uc001wkq.2	-	6	2225	c.1307C>T	c.(1306-1308)ACG>ATG	p.T436M	JPH4_uc010tnr.1_Missense_Mutation_p.T101M|JPH4_uc001wkr.2_Missense_Mutation_p.T436M	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	436	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		CAGGGGCTCCGTGTCGGAACC	0.627													29	44					0	0	0.134883	0	0		A	24040633	A	A	24040633	3	1	26	1	0	0	0	0	1	0	0	0	7979	1145	40	1	587	1	JPH4	14	24040633	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	222006	24040633	83308907	128	22292											
NKX2-1	7080	broad.mit.edu	37	chr14	36987176	36987176	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccccagcgagcccaggccGcccatgccgctcatgttcat	6	7	9	19	3	2	0	2	0	0	0	3	1	3	0	6	1	3	2	6	1	0	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr14:36987176G>A	uc001wtt.2	-	2	764	c.423C>T	c.(421-423)GGC>GGT	p.G141G	SFTA3_uc001wts.2_Intron|NKX2-1_uc001wtu.2_Silent_p.G171G|NKX2-1_uc001wtv.2_Silent_p.G141G|uc001wtw.1_5'Flank	NM_003317	NP_003308	P43699	NKX21_HUMAN	thyroid transcription factor 1 isoform 2	141					epithelial tube branching involved in lung morphogenesis|globus pallidus development|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|thyroid gland development		protein binding|transcription regulatory region DNA binding			skin(1)	1	all_cancers(3;4.47e-51)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.165)		Lung(8;1.8e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.014)|all cancers(34;0.0366)|LUSC - Lung squamous cell carcinoma(13;0.132)	GBM - Glioblastoma multiforme(112;0.0171)		AGCCCAGGCCGCCCATGCCGC	0.706			A		NSCLC								13	24					0	0	0.11911	0	0		A	36987176	A	A	36987176	2	1	26	1	0	0	0	0	0	0	0	1	10468	1074	38	1		1	NKX2-1	14	36987176	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	12946543	36987176	70362364	129	22293											
PTGER2	5732	broad.mit.edu	37	chr14	52781961	52781961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgccgaagccggagaaGccgctgcggaccttccctgg	7	4	14	16	5	0	1	0	0	0	1	1	4	1	2	6	3	3	2	6	3	2	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr14:52781961G>A	uc001wzr.2	+	1	946	c.695G>A	c.(694-696)AGC>AAC	p.S232N		NM_000956	NP_000947	P43116	PE2R2_HUMAN	prostaglandin E receptor 2 (subtype EP2), 53kDa	232	Cytoplasmic (Potential).					integral to plasma membrane	prostaglandin E receptor activity			lung(1)|breast(1)	2	Breast(41;0.0639)|all_epithelial(31;0.0729)				Alprostadil(DB00770)|Iloprost(DB01088)	AGCCGGAGAAGCCGCTGCGGA	0.537													6	14					0	0	0.105934	0	0		A	52781961	A	A	52781961	3	1	26	1	0	0	0	0	1	0	0	0	12766	971	34	2	697	2	PTGER2	14	52781961	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	15794785	52781961	54567579	130	22294											
TIMM9	26520	broad.mit.edu	37	chr14	58875881	58875881	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtaagcaatgttctgaacaGgtggtctaggaatgaaaagg	14	10	13	4	0	2	2	0	2	2	0	2	3	2	3	0	4	2	3	0	4	7	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr14:58875881G>A	uc010aph.2	-	4	356	c.141C>T	c.(139-141)ACC>ACT	p.T47T	TIMM9_uc001xds.2_Silent_p.T47T|TIMM9_uc010api.2_Silent_p.T47T	NM_012460	NP_036592	Q9Y5J7	TIM9_HUMAN	translocase of inner mitochondrial membrane 9	47	Twin CX3C motif.				protein import into mitochondrial inner membrane|sensory perception of sound|transmembrane transport	mitochondrial inner membrane presequence translocase complex|mitochondrial intermembrane space protein transporter complex	zinc ion binding				0						GTTCTGAACAGGTGGTCTAGG	0.348													4	62					0	0	0.184627	0	0		A	58875881	A	A	58875881	2	1	26	1	0	0	0	0	0	0	0	1	15941	987	35	4		4	TIMM9	14	58875881	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	6093920	58875881	48473659	131	22295											
TTLL5	23093	broad.mit.edu	37	chr14	76211878	76211878	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggagaatgatcggcgaggtGgatttattcgcatatttcct	10	13	12	6	3	0	2	0	1	0	1	3	5	1	3	1	4	0	1	1	4	3	5			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr14:76211878G>T	uc001xrx.2	+	17	1646	c.1441G>T	c.(1441-1443)GGA>TGA	p.G481*	TTLL5_uc010ask.1_Nonsense_Mutation_p.G495*|TTLL5_uc001xrz.2_Nonsense_Mutation_p.G43*|TTLL5_uc001xry.1_RNA	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	481					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		TCGGCGAGGTGGATTTATTCG	0.368													45	110					6.34439e-16	6.76139e-16	0.139131	1	0		T	76211878	T	T	76211878	4	4	26	1	0	0	0	0	0	1	0	0	16756	1349	47	5	1503	5	TTLL5	14	76211878	Nonsense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	17335997	76211878	31137662	132	22296											
PPP4R4	57718	broad.mit.edu	37	chr14	94674856	94674856	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaatctcccatttttgatgCgacagaatcccactgagacg	12	10	7	12	2	1	3	0	2	1	2	3	5	2	3	2	0	1	0	2	0	2	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr14:94674856C>T	uc001ycs.1	+	3	401	c.247C>T	c.(247-249)CGA>TGA	p.R83*	PPP4R4_uc001ycr.2_Nonsense_Mutation_p.R83*	NM_058237	NP_478144	Q6NUP7	PP4R4_HUMAN	HEAT-like repeat-containing protein isoform 1	83						cytoplasm|protein serine/threonine phosphatase complex	protein binding			skin(3)|upper_aerodigestive_tract(1)	4						ATTTTTGATGCGACAGAATCC	0.373													26	34					0	0	0.173368	0	0		T	94674856	T	T	94674856	4	4	26	1	0	0	0	0	0	1	0	0	12427	760	27	1	257	1	PPP4R4	14	94674856	Nonsense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	18462978	94674856	12674684	133	22297											
OR4M2	390538	broad.mit.edu	37	chr15	22368885	22368885	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcattgcacagctcttcttcTtacactttgctggggcttcg	5	15	9	12	1	3	0	0	0	3	0	4	0	3	0	0	2	4	5	0	2	1	6			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr15:22368885T>G	uc010tzu.1	+	1	310	c.310T>G	c.(310-312)TTA>GTA	p.L104V	LOC727924_uc001yua.2_RNA|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	104	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GCTCTTCTTCTTACACTTTGC	0.453													19	582					0	0	0.0918	0	0		G	22368885	G	G	22368885	3	3	26	1	0	0	0	0	1	0	0	0	11095	1606	56	5	312	5	OR4M2	15	22368885	Missense_Mutation	SNP	T	TCGA-BR-4371-01A-01D-1158-08		22368885	80162507	134	22298											
MKRN3	7681	broad.mit.edu	37	chr15	23812297	23812297	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaatgggagagggcaacatGctctataaaagcattaagaa	17	7	11	6	1	1	2	0	0	1	2	1	4	1	2	0	2	3	3	0	2	7	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr15:23812297G>T	uc001ywh.3	+	1	1844	c.1368G>T	c.(1366-1368)ATG>ATT	p.M456I	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Intron	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	456						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		AGGGCAACATGCTCTATAAAA	0.532													30	88					6.05902e-23	6.58085e-23	0.193644	1	0		T	23812297	T	T	23812297	3	4	26	1	0	0	0	0	1	0	0	0	9626	1319	46	5	1370	5	MKRN3	15	23812297	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	1443412	23812297	78719095	135	22299											
APBA2	321	broad.mit.edu	37	chr15	29346159	29346159	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagaccaggtcctgtcccTcacagccaggagcccgagag	9	5	13	14	1	1	2	1	1	0	2	3	5	3	3	5	2	2	0	5	2	0	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr15:29346159T>A	uc001zck.2	+	3	279	c.72T>A	c.(70-72)CCT>CCA	p.P24P	APBA2_uc010azj.2_Silent_p.P24P|APBA2_uc010uat.1_Silent_p.P24P|APBA2_uc001zcl.2_Silent_p.P24P|APBA2_uc010uas.1_Silent_p.P24P	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	24					nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		GTCCTGTCCCTCACAGCCAGG	0.667													18	54					0	0	0.204396	0	0		A	29346159	A	A	29346159	2	1	26	1	0	0	0	0	0	0	0	1	757	1538	54	5		5	APBA2	15	29346159	Silent	SNP	T	TCGA-BR-4371-01A-01D-1158-08	5533862	29346159	73185233	136	22300											
RYR3	6263	broad.mit.edu	37	chr15	33936554	33936554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtctatctcagatcggccGcatgaatctcgggacagatg	9	9	13	10	3	3	3	1	1	3	2	6	4	3	4	1	3	0	1	1	3	2	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr15:33936554G>A	uc001zhi.2	+	28	3669	c.3599G>A	c.(3598-3600)CGC>CAC	p.R1200H	RYR3_uc010bar.2_Missense_Mutation_p.R1200H	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1200	B30.2/SPRY 2.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CAGATCGGCCGCATGAATCTC	0.517													10	24					0	0	0.069234	0	0		A	33936554	A	A	33936554	3	1	26	1	0	0	0	0	1	0	0	0	13795	1087	38	1	3709	1	RYR3	15	33936554	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	4590395	33936554	68594838	137	22301											
UNC13C	440279	broad.mit.edu	37	chr15	54592538	54592538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttgatgaatttgctatgcGttatggaattgaatccattt	11	17	9	4	1	0	3	0	3	0	0	1	4	1	4	1	1	2	3	1	1	5	6			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr15:54592538G>A	uc002ack.2	+	11	4235	c.4235G>A	c.(4234-4236)CGT>CAT	p.R1412H	UNC13C_uc002acl.2_Missense_Mutation_p.R242H	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1412					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TTTGCTATGCGTTATGGAATT	0.358													4	10					0	0	0.150653	0	0		A	54592538	A	A	54592538	3	1	26	1	0	0	0	0	1	0	0	0	17012	1145	40	1	4277	1	UNC13C	15	54592538	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	20655984	54592538	47938854	138	22302											
FOXB1	27023	broad.mit.edu	37	chr15	60297453	60297453	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagctgcggggacatgttCgagaacggcagcttcctgcg	8	7	14	12	4	0	1	0	0	0	1	2	3	1	2	2	3	5	4	2	3	2	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr15:60297453C>T	uc002agj.1	+	2	770	c.291C>T	c.(289-291)TTC>TTT	p.F97F	FOXB1_uc010bgh.1_Intron	NM_012182	NP_036314	Q99853	FOXB1_HUMAN	forkhead box B1	97	Fork-head.				axon target recognition|cell migration in diencephalon|epithelial cell differentiation involved in mammary gland alveolus development|floor plate development|hypothalamus cell migration|inferior colliculus development|lactation|mammillothalamic axonal tract development|negative regulation of neuron apoptosis|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|telencephalon cell migration|visual learning	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|central_nervous_system(1)	2						GGGACATGTTCGAGAACGGCA	0.662													28	61					0	0	0.173368	0	0		T	60297453	T	T	60297453	2	4	26	1	0	0	0	0	0	0	0	1	6006	883	31	1		1	FOXB1	15	60297453	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	5704915	60297453	42233939	139	22303											
ARID3B	10620	broad.mit.edu	37	chr15	74836809	74836809	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggacagccgaactggaatCtggatgagcagctcaagcag	13	5	13	10	1	2	1	1	1	1	0	2	5	2	4	1	3	5	3	1	3	3	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr15:74836809C>T	uc002aye.2	+	2	733	c.532C>T	c.(532-534)CTG>TTG	p.L178L	ARID3B_uc002ayc.2_Silent_p.L178L|ARID3B_uc002ayd.2_Silent_p.L178L	NM_006465	NP_006456	Q8IVW6	ARI3B_HUMAN	AT rich interactive domain 3B	178					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0						GAACTGGAATCTGGATGAGCA	0.532													15	56					0	0	0.175082	0	0		T	74836809	T	T	74836809	2	4	26	1	0	0	0	0	0	0	0	1	917	912	32	4		4	ARID3B	15	74836809	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	14539356	74836809	27694583	140	22304											
FSD2	123722	broad.mit.edu	37	chr15	83440851	83440851	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccgtcccaggtgagctgTcctgcactggccggtaggac	5	8	15	13	2	0	1	0	1	0	0	3	2	3	2	4	5	2	3	4	5	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr15:83440851T>G	uc002bjd.2	-	7	1408	c.1241A>C	c.(1240-1242)GAC>GCC	p.D414A	FSD2_uc010uol.1_Missense_Mutation_p.D414A|FSD2_uc010uom.1_Missense_Mutation_p.D414A	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	414	Fibronectin type-III 1.									central_nervous_system(1)	1						AGGTGAGCTGTCCTGCACTGG	0.612													6	12					0	0	0.047766	0	0		G	83440851	G	G	83440851	3	3	26	1	0	0	0	0	1	0	0	0	6085	1667	58	5	1036	5	FSD2	15	83440851	Missense_Mutation	SNP	T	TCGA-BR-4371-01A-01D-1158-08	8604042	83440851	19090541	141	22305											
BTBD1	53339	broad.mit.edu	37	chr15	83735774	83735774	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgcctgccagttgtagagagGttcccgctgcagggggagca	7	7	16	11	2	0	1	0	0	0	1	1	3	1	2	3	3	3	6	3	3	1	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr15:83735774G>C	uc002bjn.2	-	1	333	c.130C>G	c.(130-132)CCT>GCT	p.P44A	BTBD1_uc002bjo.2_Missense_Mutation_p.P44A	NM_025238	NP_079514	Q9H0C5	BTBD1_HUMAN	BTB (POZ) domain containing 1 isoform 1	44						cytoplasmic mRNA processing body|protein complex	protein binding			ovary(1)|central_nervous_system(1)	2				all cancers(203;0.000186)		TTGTAGAGAGGTTCCCGCTGC	0.557													7	23					0	0	0.047766	0	0		C	83735774	C	C	83735774	3	2	26	1	0	0	0	0	1	0	0	0	1540	1261	44	5	1350	5	BTBD1	15	83735774	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	294923	83735774	18795618	142	22306											
ADAMTS17	170691	broad.mit.edu	37	chr15	100692874	100692874	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatctggcactgctcgttGgcactgtagtgcatgcccgg	6	10	14	11	2	1	0	0	0	1	0	2	1	1	1	1	4	3	6	1	4	1	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr15:100692874G>A	uc002bvv.1	-	10	1495	c.1416C>T	c.(1414-1416)GCC>GCT	p.A472A	ADAMTS17_uc002bvx.1_Silent_p.A229A	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	472	Disintegrin.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		ACTGCTCGTTGGCACTGTAGT	0.582													27	109					0	0	0.153744	0	0		A	100692874	A	A	100692874	2	1	26	1	0	0	0	0	0	0	0	1	262	1335	47	4		4	ADAMTS17	15	100692874	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	16957100	100692874	1838518	143	22307											
DNAH9	1770	broad.mit.edu	37	chr17	11687773	11687773	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctggccctcgccttccacCagaaaattgctaccaccttc	9	10	5	17	1	1	1	0	0	1	1	4	1	2	1	6	1	2	1	6	1	3	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr17:11687773C>T	uc002gne.2	+	41	8046	c.7978C>T	c.(7978-7980)CAG>TAG	p.Q2660*	DNAH9_uc010coo.2_Nonsense_Mutation_p.Q1954*	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2660	AAA 3 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CGCCTTCCACCAGAAAATTGC	0.512													53	206					0	0	0.139131	0	0		T	11687773	T	T	11687773	4	4	26	1	0	0	0	0	0	1	0	0	4614	595	21	4	8140	4	DNAH9	17	11687773	Nonsense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08		11687773	69507437	144	22308											
TOM1L2	146691	broad.mit.edu	37	chr17	17797056	17797056	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attttgaccagaacactgtcGatgaaatctcggttggccac	11	11	9	10	2	1	3	0	2	1	1	3	4	1	3	2	2	1	1	2	2	2	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr17:17797056G>A	uc002grz.3	-	4	442	c.285C>T	c.(283-285)ATC>ATT	p.I95I	TOM1L2_uc002gry.3_Intron|TOM1L2_uc010vwy.1_Silent_p.I95I|TOM1L2_uc010cpr.2_Silent_p.I95I|TOM1L2_uc010vwz.1_Intron|TOM1L2_uc010vxa.1_Silent_p.I95I|TOM1L2_uc010vxb.1_Intron	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	95	VHS.				intracellular protein transport	intracellular					0	all_neural(463;0.228)					GAACACTGTCGATGAAATCTC	0.522													42	68					0	0	0.246493	0	0		A	17797056	A	A	17797056	2	1	26	1	0	0	0	0	0	0	0	1	16378	1048	37	1		1	TOM1L2	17	17797056	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	6109283	17797056	63398154	145	22309											
NF1	4763	broad.mit.edu	37	chr17	29533378	29533378	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggagcacacccagcaataCgaatggcaccggtaagataa	15	5	11	10	2	0	1	0	0	0	1	0	3	0	2	2	3	3	4	2	3	5	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr17:29533378C>T	uc002hgg.2	+	12	1714	c.1381C>T	c.(1381-1383)CGA>TGA	p.R461*	NF1_uc002hge.1_Nonsense_Mutation_p.R461*|NF1_uc002hgf.1_Nonsense_Mutation_p.R461*|NF1_uc002hgh.2_Nonsense_Mutation_p.R461*|NF1_uc010csn.1_Nonsense_Mutation_p.R321*	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	461					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.R461*(2)|p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		CCCAGCAATACGAATGGCACC	0.383			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			83	93					0	0	0.139131	0	0		T	29533378	T	T	29533378	4	4	26	1	0	0	0	0	0	1	0	0	10375	528	19	1	1427	1	NF1	17	29533378	Nonsense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	11736322	29533378	51661832	146	22310											
NF1	4763	broad.mit.edu	37	chr17	29685544	29685544	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccctgttatcattgtgcCaagatccaaatttgttaaat	13	14	5	9	0	1	1	1	0	0	1	2	1	2	1	3	0	1	2	3	0	5	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr17:29685544C>T	uc002hgg.2	+	55	8350	c.8017C>T	c.(8017-8019)CAA>TAA	p.Q2673*	NF1_uc002hgh.2_Nonsense_Mutation_p.Q2652*|NF1_uc010cso.2_Nonsense_Mutation_p.Q861*|NF1_uc010wbt.1_Nonsense_Mutation_p.Q151*|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2673					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		ATCATTGTGCCAAGATCCAAA	0.353			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			29	49					0	0	0.134883	0	0		T	29685544	T	T	29685544	4	4	26	1	0	0	0	0	0	1	0	0	10375	595	21	4	8296	4	NF1	17	29685544	Nonsense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	152166	29685544	51509666	147	22311											
GGNBP2	79893	broad.mit.edu	37	chr17	34923606	34923606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacactagaaacatatctgcGaaaacacaggtaagtctgat	18	8	7	8	1	2	2	0	1	2	1	2	3	2	2	0	1	4	1	0	1	7	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr17:34923606G>A	uc002hnb.2	+	6	881	c.632G>A	c.(631-633)CGA>CAA	p.R211Q	GGNBP2_uc002hna.2_Missense_Mutation_p.R211Q	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	211					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		ACATATCTGCGAAAACACAGG	0.408													52	67					0	0	0.139131	0	0		A	34923606	A	A	34923606	3	1	26	1	0	0	0	0	1	0	0	0	6374	1058	37	1	650	1	GGNBP2	17	34923606	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	5238062	34923606	46271604	148	22312											
MRM1	79922	broad.mit.edu	37	chr17	34964453	34964453	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaacgtctctgtggctgcAggtgagtctactcccctttc	5	14	10	12	1	2	2	0	2	2	0	5	2	3	2	2	2	3	2	2	2	2	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr17:34964453A>G	uc002hne.2	+	4	1103	c.888A>G	c.(886-888)GCA>GCG	p.A296A	MRM1_uc002hnf.2_Silent_p.A101A	NM_024864	NP_079140	Q6IN84	MRM1_HUMAN	mitochondrial rRNA methyltransferase 1 homolog	296					RNA processing	mitochondrion	RNA binding|RNA methyltransferase activity				0		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		CTGTGGCTGCAGGTGAGTCTA	0.572													15	47					0	0	0.175082	0	0		G	34964453	G	G	34964453	2	3	26	1	0	0	0	0	0	0	0	1	9789	202	7	3		3	MRM1	17	34964453	Silent	SNP	A	TCGA-BR-4371-01A-01D-1158-08	40847	34964453	46230757	149	22313											
ICAM2	3384	broad.mit.edu	37	chr17	62081258	62081258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggtgggcaccctgcactcaAtggtgaaggacttgcccaca	9	7	12	13	1	1	1	1	1	0	0	1	2	1	2	2	4	2	2	2	4	2	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr17:62081258A>G	uc002jdu.3	-	3	627	c.395T>C	c.(394-396)ATT>ACT	p.I132T	C17orf72_uc002jdt.3_3'UTR|C17orf72_uc010wpu.1_3'UTR|C17orf72_uc010wpv.1_3'UTR|C17orf72_uc010wpw.1_3'UTR|ICAM2_uc002jdw.3_Missense_Mutation_p.I132T|ICAM2_uc010ded.2_Missense_Mutation_p.I132T|ICAM2_uc002jdx.3_Missense_Mutation_p.I132T|ICAM2_uc002jdv.3_Missense_Mutation_p.I132T	NM_000873	NP_000864	P13598	ICAM2_HUMAN	intercellular adhesion molecule 2 precursor	132	Ig-like C2-type 2.|Extracellular (Potential).				cell-cell adhesion|regulation of immune response	integral to plasma membrane	integrin binding			ovary(1)	1						CCTGCACTCAATGGTGAAGGA	0.602													19	21					0	0	0.204396	0	0		G	62081258	G	G	62081258	3	3	26	1	0	0	0	0	1	0	0	0	7496	101	4	3	440	3	ICAM2	17	62081258	Missense_Mutation	SNP	A	TCGA-BR-4371-01A-01D-1158-08	27116805	62081258	19113952	150	22314											
SEC14L1	6397	broad.mit.edu	37	chr17	75209494	75209494	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccttccccgggtggacgaCgtgcttgcgtccctgcaggt	4	9	14	14	4	0	0	0	0	0	0	2	2	2	1	4	3	4	2	4	3	0	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr17:75209494C>T	uc002jto.2	+	16	2229	c.1962C>T	c.(1960-1962)GAC>GAT	p.D654D	SEC14L1_uc010dhc.2_Silent_p.D654D|SEC14L1_uc010wth.1_Silent_p.D654D|SEC14L1_uc002jtm.2_Silent_p.D654D|SEC14L1_uc010wti.1_Silent_p.D620D|SEC14L1_uc010wtj.1_Missense_Mutation_p.R143C|SEC14L1_uc002jtr.2_Silent_p.D48D	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	654	GOLD.				transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						GGGTGGACGACGTGCTTGCGT	0.612													4	36					0	0	0.217242	0	0		T	75209494	T	T	75209494	2	4	26	1	0	0	0	0	0	0	0	1	14006	535	19	1		1	SEC14L1	17	75209494	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	13128236	75209494	5985716	151	22315											
SLC14A2	8170	broad.mit.edu	37	chr18	43204733	43204733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctggccctcgacatcccCggatactcacccagctctgc	7	7	9	18	2	2	0	1	0	1	0	4	3	3	1	4	2	4	2	4	2	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr18:43204733C>T	uc010dnj.2	+	3	425	c.104C>T	c.(103-105)CCG>CTG	p.P35L	SLC14A2_uc002lbb.2_Missense_Mutation_p.P35L|SLC14A2_uc002lbe.2_Missense_Mutation_p.P35L	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	35						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						TCGACATCCCCGGATACTCAC	0.572													78	65					0	0	0.139131	0	0		T	43204733	T	T	43204733	3	4	26	1	0	0	0	0	1	0	0	0	14422	652	23	1	106	1	SLC14A2	18	43204733	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08		43204733	34872515	152	22316											
SMAD2	4087	broad.mit.edu	37	chr18	45368211	45368211	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgaagctttatgacatgcttGagcaacgcactgaaggggat	12	10	12	7	1	0	4	0	4	0	0	0	5	0	5	0	2	4	4	0	2	4	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr18:45368211G>C	uc002lcy.2	-	11	1639	c.1391C>G	c.(1390-1392)TCA>TGA	p.S464*	SMAD2_uc002lcz.2_Nonsense_Mutation_p.S464*|SMAD2_uc010xdc.1_Nonsense_Mutation_p.S434*	NM_005901	NP_005892	Q15796	SMAD2_HUMAN	Sma- and Mad-related protein 2 isoform 1	464	MH2.			S->A: Loss of phosphorylation by TGFBR1; when associated with A-465 and A-467.	anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding	p.R462fs*>4(1)		large_intestine(3)|lung(1)|central_nervous_system(1)	5						TGACATGCTTGAGCAACGCAC	0.423													19	61					0	0	0.204396	0	0		C	45368211	C	C	45368211	4	2	26	1	0	0	0	0	0	1	0	0	14783	1294	45	5	16	5	SMAD2	18	45368211	Nonsense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	2163478	45368211	32709037	153	22317											
SERPINB12	89777	broad.mit.edu	37	chr18	61232706	61232706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagagtgtgaagatgatgaCgcaaaaaggcctctacagaa	17	6	11	7	1	1	6	0	3	1	3	1	6	1	6	1	1	1	1	1	1	6	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr18:61232706C>T	uc010xen.1	+	6	674	c.674C>T	c.(673-675)ACG>ATG	p.T225M	SERPINB12_uc010xeo.1_Missense_Mutation_p.T245M	NM_080474	NP_536722	Q96P63	SPB12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	225					negative regulation of protein catabolic process|regulation of proteolysis	cytoplasm	enzyme binding|serine-type endopeptidase inhibitor activity				0						AAGATGATGACGCAAAAAGGC	0.488													100	66					0	0	0.139131	0	0		T	61232706	T	T	61232706	3	4	26	1	0	0	0	0	1	0	0	0	14124	536	19	1	696	1	SERPINB12	18	61232706	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	15864495	61232706	16844542	154	22318											
AZU1	566	broad.mit.edu	37	chr19	829667	829667	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatgagcgagaatggctaCgacccccagcagaacctgaa	14	4	11	12	2	0	4	0	2	0	2	0	6	0	4	3	1	5	3	3	1	4	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:829667C>T	uc002lpz.1	+	3	337	c.321C>T	c.(319-321)TAC>TAT	p.Y107Y		NM_001700	NP_001691	P20160	CAP7_HUMAN	azurocidin 1 preproprotein	107	Peptidase S1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|cellular extravasation|defense response to Gram-negative bacterium|glial cell migration|induction of positive chemotaxis|inflammatory response|macrophage chemotaxis|microglial cell activation|monocyte activation|positive regulation of cell adhesion|positive regulation of fractalkine biosynthetic process|positive regulation of interleukin-1 beta biosynthetic process|positive regulation of MHC class II biosynthetic process|positive regulation of phagocytosis|positive regulation of tumor necrosis factor biosynthetic process|proteolysis|regulation of vascular permeability	azurophil granule|extracellular region	heparin binding|serine-type endopeptidase activity|toxin binding			pancreas(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGAATGGCTACGACCCCCAGC	0.622													51	76					0	0	0.139131	0	0		T	829667	T	T	829667	2	4	26	1	0	0	0	0	0	0	0	1	1244	547	19	1		1	AZU1	19	829667	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08		829667	58299316	155	22319											
ZBTB7A	51341	broad.mit.edu	37	chr19	4048234	4048234	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccgcatgtgcaccttcagcTtgtcctgcctgtggacgggg	4	11	13	13	2	1	0	1	0	0	0	3	1	3	1	4	3	3	3	4	3	0	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:4048234T>G	uc002lzh.2	-	3	1346	c.1271A>C	c.(1270-1272)AAG>ACG	p.K424T	ZBTB7A_uc002lzi.2_Missense_Mutation_p.K424T	NM_015898	NP_056982	O95365	ZBT7A_HUMAN	zinc finger and BTB domain containing 7A	424	C2H2-type 2.				cell differentiation|multicellular organismal development|transcription, DNA-dependent	nucleus	DNA binding|histone acetyltransferase binding|zinc ion binding			pancreas(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.014)|STAD - Stomach adenocarcinoma(1328;0.18)		CACCTTCAGCTTGTCCTGCCT	0.687													20	19					0	0	0.099896	0	0		G	4048234	G	G	4048234	3	3	26	1	0	0	0	0	1	0	0	0	17578	1609	56	5	487	5	ZBTB7A	19	4048234	Missense_Mutation	SNP	T	TCGA-BR-4371-01A-01D-1158-08	3218567	4048234	55080749	156	22320											
ADAMTS10	81794	broad.mit.edu	37	chr19	8654436	8654436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtagaagttgaagccttccGctaggcacgtgagcgagcag	10	8	14	9	3	0	3	0	2	0	1	1	4	1	3	2	1	3	5	2	1	4	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:8654436G>A	uc002mkj.1	-	17	2208	c.1934C>T	c.(1933-1935)GCG>GTG	p.A645V	ADAMTS10_uc002mki.1_Missense_Mutation_p.A132V|ADAMTS10_uc002mkk.1_Missense_Mutation_p.A277V	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	645	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						GAAGCCTTCCGCTAGGCACGT	0.672													20	90					0	0	0.134883	0	0		A	8654436	A	A	8654436	3	1	26	1	0	0	0	0	1	0	0	0	256	1087	38	1	1417	1	ADAMTS10	19	8654436	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	4606202	8654436	50474547	157	22321											
MUC16	94025	broad.mit.edu	37	chr19	9068980	9068980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggacctgtttgtgtggCgatggtcttgtgtgtagata	8	14	15	4	1	1	2	0	0	1	2	1	4	1	3	1	3	0	2	1	3	3	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:9068980C>T	uc002mkp.2	-	3	18670	c.18466G>A	c.(18466-18468)GCC>ACC	p.A6156T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6158	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTTTGTGTGGCGATGGTCTTG	0.507													44	82					0	0	0.124865	0	0		T	9068980	T	T	9068980	3	4	26	1	0	0	0	0	1	0	0	0	9991	768	27	1	25385	1	MUC16	19	9068980	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	414544	9068980	50060003	158	22322											
ZNF317	57693	broad.mit.edu	37	chr19	9272049	9272049	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcatccctcaggagccaCgtgaaaactcaccggggaga	12	5	10	14	2	3	2	3	1	0	1	4	4	4	3	3	3	2	0	3	3	2	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:9272049C>T	uc002mku.2	+	7	2003	c.1728C>T	c.(1726-1728)CAC>CAT	p.H576H	ZNF317_uc002mkv.2_Silent_p.H435H|ZNF317_uc002mkw.2_Silent_p.H544H|ZNF317_uc002mkx.2_Silent_p.H491H|ZNF317_uc002mky.2_Silent_p.H459H	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	576	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCAGGAGCCACGTGAAAACTC	0.567													19	111					0	0	0.204396	0	0		T	9272049	T	T	9272049	2	4	26	1	0	0	0	0	0	0	0	1	17860	535	19	1		1	ZNF317	19	9272049	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	203069	9272049	49856934	159	22323											
EIF3G	8666	broad.mit.edu	37	chr19	10226419	10226419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgggagatggagccgaaagGccggaagagctcctgcaggt	10	4	18	9	3	0	2	0	0	0	2	1	6	1	4	3	5	3	2	3	5	2	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:10226419G>A	uc002mnd.2	-	9	845	c.781C>T	c.(781-783)CCT>TCT	p.P261S		NM_003755	NP_003746	O75821	EIF3G_HUMAN	eukaryotic translation initiation factor 3,	261	RRM.					cytosol|eukaryotic translation initiation factor 3 complex|nucleus|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0			OV - Ovarian serous cystadenocarcinoma(20;3.53e-09)|Epithelial(33;4.91e-06)|all cancers(31;1.1e-05)			GAGCCGAAAGGCCGGAAGAGC	0.632													64	167					0	0	0.139131	0	0		A	10226419	A	A	10226419	3	1	26	1	0	0	0	0	1	0	0	0	5025	1203	42	2	193	2	EIF3G	19	10226419	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	954370	10226419	48902564	160	22324											
CACNA1A	773	broad.mit.edu	37	chr19	13323247	13323247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtaggggggccttgttccGgactccatgtgcccgtcttc	3	11	14	13	3	1	0	0	0	1	0	4	1	3	1	4	5	1	2	4	5	1	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:13323247G>A	uc010dze.2	-	42	6379	c.6143C>T	c.(6142-6144)CCG>CTG	p.P2048L	CACNA1A_uc010xnd.1_Missense_Mutation_p.P753L|CACNA1A_uc002mwx.3_Missense_Mutation_p.P753L|CACNA1A_uc010dzc.2_Missense_Mutation_p.P1573L|CACNA1A_uc002mwy.3_Missense_Mutation_p.P2047L|CACNA1A_uc002mwv.3_Missense_Mutation_p.P564L	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	2048	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	GCCTTGTTCCGGACTCCATGT	0.647													22	20					0	0	0.26419	0	0		A	13323247	A	A	13323247	3	1	26	1	0	0	0	0	1	0	0	0	2541	1116	39	1	1404	1	CACNA1A	19	13323247	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	3096828	13323247	45805736	161	22325											
HIPK4	147746	broad.mit.edu	37	chr19	40890034	40890034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaaaatgctggcggatcCgaagtcaatcacctgtcggg	10	8	13	10	3	2	1	2	1	0	0	4	3	3	2	2	3	1	2	2	3	4	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:40890034C>T	uc002onp.2	-	2	763	c.478G>A	c.(478-480)GGA>AGA	p.G160R		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	160	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			CTGGCGGATCCGAAGTCAATC	0.637													28	121					0	0	0.144211	0	0		T	40890034	T	T	40890034	3	4	26	1	0	0	0	0	1	0	0	0	7135	661	23	1	1384	1	HIPK4	19	40890034	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	27566787	40890034	18238949	162	22326											
GPR4	2828	broad.mit.edu	37	chr19	46095082	46095082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggaaagaggtggtccaCgcgcgagtccacgtggcagc	8	5	17	11	5	0	1	0	0	0	1	2	3	2	2	2	5	1	1	2	5	1	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:46095082C>T	uc002pcm.2	-	2	988	c.43G>A	c.(43-45)GTG>ATG	p.V15M	OPA3_uc010xxk.1_Intron	NM_005282	NP_005273	P46093	GPR4_HUMAN	G protein-coupled receptor 4	15	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(262;0.0071)|GBM - Glioblastoma multiforme(486;0.128)|Epithelial(262;0.223)		AGGTGGTCCACGCGCGAGTCC	0.677													18	82					0	0	0.234183	0	0		T	46095082	T	T	46095082	3	4	26	1	0	0	0	0	1	0	0	0	6709	536	19	1	1049	1	GPR4	19	46095082	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	5205048	46095082	13033901	163	22327											
SLC17A7	57030	broad.mit.edu	37	chr19	49939974	49939974	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgcagtccaccaccggCgggtcccgggtctgcgtggt	4	7	16	14	4	1	0	0	0	1	0	3	0	3	0	4	5	2	1	4	5	0	0			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:49939974C>T	uc002pnp.2	-	2	319	c.147G>A	c.(145-147)CCG>CCA	p.P49P	SLC17A7_uc002pnq.1_5'UTR	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	49	Cytoplasmic (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		CCACCACCGGCGGGTCCCGGG	0.657													36	117					0	0	0.235728	0	0		T	49939974	T	T	49939974	2	4	26	1	0	0	0	0	0	0	0	1	14447	755	27	1		1	SLC17A7	19	49939974	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	3844892	49939974	9189009	164	22328											
SIGLEC5	8778	broad.mit.edu	37	chr19	52115642	52115642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggagatgcttgatctcCggggctgtctggccagggct	6	9	17	9	1	2	2	0	1	2	1	3	4	2	3	2	6	1	3	2	6	0	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:52115642C>T	uc002pxe.2	-	9	1637	c.1498G>A	c.(1498-1500)GGA>AGA	p.G500R		NM_003830	NP_003821	O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5 precursor	500	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding			skin(2)|breast(1)|central_nervous_system(1)	4		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		GCTTGATCTCCGGGGCTGTCT	0.498													45	222					0	0	0.139131	0	0		T	52115642	T	T	52115642	3	4	26	1	0	0	0	0	1	0	0	0	14336	661	23	1	161	1	SIGLEC5	19	52115642	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	2175668	52115642	7013341	165	22329											
LILRA2	11027	broad.mit.edu	37	chr19	55098716	55098716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagtggagaatctcatccGcatgggtgtggctggcttgg	7	10	15	9	1	1	1	1	0	1	1	3	2	2	1	1	5	0	3	1	5	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:55098716G>A	uc002qgg.3	+	8	1444	c.1355G>A	c.(1354-1356)CGC>CAC	p.R452H	LILRA2_uc010ern.2_3'UTR|LILRA2_uc002qgf.2_Missense_Mutation_p.R435H|LILRA2_uc010ero.2_Missense_Mutation_p.R423H|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	452	Helical; (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		AATCTCATCCGCATGGGTGTG	0.577													42	82					0	0	0.139131	0	0		A	55098716	A	A	55098716	3	1	26	1	0	0	0	0	1	0	0	0	8801	1087	38	1	1385	1	LILRA2	19	55098716	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	2983074	55098716	4030267	166	22330											
NLRP4	147945	broad.mit.edu	37	chr19	56369488	56369488	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcggcttgaacgaaccCgattcggatctgtgtggtga	8	9	15	9	4	1	2	0	2	1	0	2	5	1	3	1	4	2	1	1	4	2	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr19:56369488C>T	uc002qmd.3	+	3	1151	c.729C>T	c.(727-729)CCC>CCT	p.P243P	NLRP4_uc002qmf.2_Silent_p.P168P|NLRP4_uc010etf.2_Silent_p.P74P	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	243	NACHT.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		TGAACGAACCCGATTCGGATC	0.567													63	128					0	0	0.139131	0	0		T	56369488	T	T	56369488	2	4	26	1	0	0	0	0	0	0	0	1	10498	639	23	1		1	NLRP4	19	56369488	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	1270772	56369488	2759495	167	22331											
C20orf72	92667	broad.mit.edu	37	chr20	17956474	17956474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaagatgtcagtggagtgcGagctcttgaaagtgctgttc	10	11	14	6	1	2	2	1	1	1	1	3	5	2	3	0	1	3	3	0	1	2	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr20:17956474G>A	uc002wqh.2	+	3	741	c.659G>A	c.(658-660)CGA>CAA	p.R220Q	C20orf72_uc010gco.2_Intron|C20orf72_uc010gcp.2_RNA	NM_052865	NP_443097	Q9BQP7	CT072_HUMAN	hypothetical protein LOC92667	220											0						AGTGGAGTGCGAGCTCTTGAA	0.408													37	185					0	0	0.225048	0	0		A	17956474	A	A	17956474	3	1	26	1	0	0	0	0	1	0	0	0	2121	1058	37	1	665	1	C20orf72	20	17956474	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08		17956474	45069046	168	22332											
SAMHD1	25939	broad.mit.edu	37	chr20	35555600	35555600	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cataccgtccatttcacctcCgggcgagcaagtggaataaa	12	8	9	12	3	1	0	1	0	0	0	3	2	3	1	4	2	2	1	4	2	5	3	rs144587056		TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr20:35555600C>T	uc002xgh.1	-	6	811	c.681G>A	c.(679-681)CCG>CCA	p.P227P		NM_015474	NP_056289	Q9Y3Z3	SAMH1_HUMAN	SAM domain- and HD domain-containing protein 1	227	HD.				defense response to virus|innate immune response|regulation of innate immune response	nucleus	metal ion binding|phosphoric diester hydrolase activity				0		Myeloproliferative disorder(115;0.00878)				ATTTCACCTCCGGGCGAGCAA	0.358													24	220					0	0	0.0918	0	0		T	35555600	T	T	35555600	2	4	26	1	0	0	0	0	0	0	0	1	13853	639	23	1		1	SAMHD1	20	35555600	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	17599126	35555600	27469920	169	22333											
KCNB1	3745	broad.mit.edu	37	chr20	47991216	47991216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggaagatctggaccacgCggcggacattctggaattgc	9	8	14	10	4	2	1	0	0	2	1	2	5	2	5	1	5	2	0	1	5	2	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr20:47991216C>T	uc002xur.1	-	2	1045	c.881G>A	c.(880-882)CGC>CAC	p.R294H	KCNB1_uc002xus.1_Missense_Mutation_p.R294H	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	294					energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity	p.R294R(1)		pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CTGGACCACGCGGCGGACATT	0.537													47	156					0	0	0.139131	0	0		T	47991216	T	T	47991216	3	4	26	1	0	0	0	0	1	0	0	0	8028	768	27	1	1699	1	KCNB1	20	47991216	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	12435616	47991216	15034304	170	22334											
SYCP2	10388	broad.mit.edu	37	chr20	58467645	58467645	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattcaatgtgtctcctgaCgaagtacttgctctttggtt	7	17	9	8	1	3	2	1	2	2	0	4	3	3	2	1	1	2	3	1	1	3	5			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr20:58467645C>T	uc002yaz.2	-	22	2044	c.1905G>A	c.(1903-1905)TCG>TCA	p.S635S		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	635					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			TGTCTCCTGACGAAGTACTTG	0.313													12	127					0	0	0.09319	0	0		T	58467645	T	T	58467645	2	4	26	1	0	0	0	0	0	0	0	1	15457	523	19	1		1	SYCP2	20	58467645	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	10476429	58467645	4557875	171	22335											
LAMA5	3911	broad.mit.edu	37	chr20	60887486	60887486	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgcagccggcgctcacGcctgtcgtgttcagccgctt	3	9	14	15	6	2	0	2	0	0	0	3	0	2	0	3	2	3	4	3	2	0	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr20:60887486G>A	uc002ycq.2	-	68	9397	c.9330C>T	c.(9328-9330)GGC>GGT	p.G3110G		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3110	Laminin G-like 2.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CGGCGCTCACGCCTGTCGTGT	0.682													4	21					0	0	0.150653	0	0		A	60887486	A	A	60887486	2	1	26	1	0	0	0	0	0	0	0	1	8625	1074	38	1		1	LAMA5	20	60887486	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	2419841	60887486	2138034	172	22336											
BIRC7	79444	broad.mit.edu	37	chr20	61870941	61870941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccgtccgcagccgcgtgcGcaccttcctgtcctaggcca	4	7	10	20	5	0	0	0	0	0	0	3	0	3	0	8	1	2	2	8	1	1	2	rs142521563		TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr20:61870941G>A	uc002yej.2	+	6	1054	c.881G>A	c.(880-882)CGC>CAC	p.R294H	BIRC7_uc010gkc.1_3'UTR|BIRC7_uc002yei.2_Missense_Mutation_p.R276H	NM_139317	NP_647478	Q96CA5	BIRC7_HUMAN	livin inhibitor of apoptosis isoform alpha	294					activation of JUN kinase activity|anti-apoptosis|DNA fragmentation involved in apoptotic nuclear change	cytoplasm|nucleus	enzyme binding|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3	all_cancers(38;2.72e-09)					AGCCGCGTGCGCACCTTCCTG	0.721													9	35					0	0	0.058154	0	0		A	61870941	A	A	61870941	3	1	26	1	0	0	0	0	1	0	0	0	1440	1087	38	1	903	1	BIRC7	20	61870941	Missense_Mutation	SNP	G	TCGA-BR-4371-01A-01D-1158-08	983455	61870941	1154579	173	22337											
PTK6	5753	broad.mit.edu	37	chr20	62164956	62164956	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtctttccagagcccctcGaagacctccccaaagtagcc	9	7	8	17	2	1	2	0	0	1	2	4	3	3	2	7	1	2	1	7	1	3	2	rs61736391		TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr20:62164956G>A	uc002yfg.2	-	4	658	c.618C>T	c.(616-618)TTC>TTT	p.F206F	PTK6_uc011aay.1_Silent_p.F105F|PTK6_uc011aaz.1_5'Flank	NM_005975	NP_005966	Q13882	PTK6_HUMAN	PTK6 protein tyrosine kinase 6	206	Protein kinase.					cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|kidney(1)	2	all_cancers(38;2.51e-11)		Epithelial(9;1.5e-08)|all cancers(9;8.67e-08)|BRCA - Breast invasive adenocarcinoma(10;6.43e-06)			AGAGCCCCTCGAAGACCTCCC	0.647													77	239					0	0	0.139131	0	0		A	62164956	A	A	62164956	2	1	26	1	0	0	0	0	0	0	0	1	12787	1049	37	1		1	PTK6	20	62164956	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08	294015	62164956	860564	174	22338											
PRIC285	85441	broad.mit.edu	37	chr20	62193017	62193017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcttcctgctgcccacaCgcggcactgggaactcgctg	6	7	12	16	3	0	0	0	0	0	0	2	1	1	1	2	2	4	5	2	2	1	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr20:62193017C>T	uc002yfm.2	-	13	7665	c.6773G>A	c.(6772-6774)CGT>CAT	p.R2258H	PRIC285_uc002yfl.1_Missense_Mutation_p.R1689H	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	2258					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			GCTGCCCACACGCGGCACTGG	0.657													20	211					0	0	0.204396	0	0		T	62193017	T	T	62193017	3	4	26	1	0	0	0	0	1	0	0	0	12507	536	19	1	1208	1	PRIC285	20	62193017	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	28061	62193017	832503	175	22339											
MRPL39	54148	broad.mit.edu	37	chr21	26972169	26972169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctacgtcataacagaaggcaCcagaaattactgtaaatcca	17	8	6	10	1	1	2	1	0	0	2	2	2	2	2	2	1	3	2	2	1	7	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr21:26972169C>T	uc002ylo.2	-	5	544	c.530G>A	c.(529-531)GGT>GAT	p.G177D	MRPL39_uc002yln.2_Missense_Mutation_p.G177D	NM_017446	NP_059142	Q9NYK5	RM39_HUMAN	mitochondrial ribosomal protein L39 isoform a	177						mitochondrial ribosome	nucleotide binding				0						ACAGAAGGCACCAGAAATTAC	0.343													19	79					0	0	0.204396	0	0		T	26972169	T	T	26972169	3	4	26	1	0	0	0	0	1	0	0	0	9820	507	18	4	603	4	MRPL39	21	26972169	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08		26972169	21157726	176	22340											
KRTAP11-1	337880	broad.mit.edu	37	chr21	32253626	32253626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttggagacacatgaagttCgccggtaacaggttggctgg	9	9	16	7	2	0	2	0	1	0	1	1	3	0	2	1	6	1	5	1	6	2	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr21:32253626C>T	uc002yov.2	-	1	249	c.218G>A	c.(217-219)CGA>CAA	p.R73Q		NM_175858	NP_787054	Q8IUC1	KR111_HUMAN	keratin associated protein 11-1	73						keratin filament	structural molecule activity			pancreas(1)	1						ACATGAAGTTCGCCGGTAACA	0.552													39	47					0	0	0.235728	0	0		T	32253626	T	T	32253626	3	4	26	1	0	0	0	0	1	0	0	0	8533	884	31	1	277	1	KRTAP11-1	21	32253626	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	5281457	32253626	15876269	177	22341											
BRWD1	54014	broad.mit.edu	37	chr21	40559053	40559053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcagaatttatggttgtatCatcctctttataaacattca	12	18	4	7	0	4	1	3	0	1	1	5	1	5	1	1	1	1	2	1	1	6	9			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr21:40559053C>T	uc002yxk.1	-	42	7001	c.6862G>A	c.(6862-6864)GAT>AAT	p.D2288N	BRWD1_uc010goc.1_Missense_Mutation_p.D931N	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	2288					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				ATGGTTGTATCATCCTCTTTA	0.348													56	73					0	0	0.139131	0	0		T	40559053	T	T	40559053	3	4	26	1	0	0	0	0	1	0	0	0	1528	826	29	4	104	4	BRWD1	21	40559053	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	8305427	40559053	7570842	178	22342											
KRTAP10-8	386681	broad.mit.edu	37	chr21	46032554	46032554	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccatctgctgtgtgcctgtCtgctctggggcttcctctct	1	15	10	15	0	4	0	0	0	4	0	6	0	5	0	3	2	3	3	3	2	0	1			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr21:46032554C>T	uc002zfo.1	+	1	559	c.537C>T	c.(535-537)GTC>GTT	p.V179V	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198695	NP_941968	P60410	KR108_HUMAN	keratin associated protein 10-8	179	19 X 5 AA repeats of C-C-X(3).|13.					keratin filament				large_intestine(1)|breast(1)	2						GTGTGCCTGTCTGCTCTGGGG	0.622													11	417					0	0	0.080935	0	0		T	46032554	T	T	46032554	2	4	26	1	0	0	0	0	0	0	0	1	8531	900	32	4		4	KRTAP10-8	21	46032554	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	5473501	46032554	2097341	179	22343											
SEZ6L	23544	broad.mit.edu	37	chr22	26706696	26706696	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctacgactcccttcaaacCgagagtgtcccttttgaggg	8	11	9	13	2	2	2	1	1	1	1	4	4	4	2	3	1	2	0	3	1	2	4			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr22:26706696C>T	uc003acb.2	+	7	1731	c.1575C>T	c.(1573-1575)ACC>ACT	p.T525T	SEZ6L_uc003acc.2_Silent_p.T525T|SEZ6L_uc011akc.1_Silent_p.T525T|SEZ6L_uc003acd.2_Silent_p.T525T|SEZ6L_uc011akd.1_Silent_p.T525T|SEZ6L_uc003ace.2_Silent_p.T525T|SEZ6L_uc003acf.1_Silent_p.T298T|SEZ6L_uc010gvc.1_Silent_p.T298T	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	525	CUB 2.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CCCTTCAAACCGAGAGTGTCC	0.587													75	122					0	0	0.139131	0	0		T	26706696	T	T	26706696	2	4	26	1	0	0	0	0	0	0	0	1	14168	639	23	1		1	SEZ6L	22	26706696	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08		26706696	24597870	180	22344											
SLC5A1	6523	broad.mit.edu	37	chr22	32479091	32479091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcggtgatttacacggacaCcttgcagacggtgatcatgc	9	9	13	10	3	1	3	1	2	0	1	1	4	1	4	1	4	3	1	1	4	1	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr22:32479091C>T	uc003amc.2	+	7	846	c.614C>T	c.(613-615)ACC>ATC	p.T205I	SLC5A1_uc011alz.1_Missense_Mutation_p.T78I	NM_000343	NP_000334	P13866	SC5A1_HUMAN	solute carrier family 5 (sodium/glucose	205	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to plasma membrane	glucose:sodium symporter activity|protein binding			skin(1)	1						TACACGGACACCTTGCAGACG	0.587													15	52					0	0	0.160694	0	0		T	32479091	T	T	32479091	3	4	26	1	0	0	0	0	1	0	0	0	14686	507	18	4	640	4	SLC5A1	22	32479091	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	5772395	32479091	18825475	181	22345											
BPIL2	254240	broad.mit.edu	37	chr22	32831745	32831745	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgaaatgagcaaaggaCgcagatttaaagaaatactc	17	8	10	6	1	0	4	0	2	0	2	1	5	0	5	0	1	2	3	0	1	6	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chr22:32831745C>T	uc003amn.2	-	8	870	c.870G>A	c.(868-870)GCG>GCA	p.A290A	BPIL2_uc010gwo.2_Silent_p.A104A|BPIL2_uc011amb.1_Silent_p.A14A	NM_174932	NP_777592	Q8NFQ6	BPIL2_HUMAN	bactericidal/permeability-increasing	290						extracellular region	lipopolysaccharide binding|phospholipid binding			ovary(1)|skin(1)	2						GAGCAAAGGACGCAGATTTAA	0.498													19	56					0	0	0.189662	0	0		T	32831745	T	T	32831745	2	4	26	1	0	0	0	0	0	0	0	1	1495	523	19	1		1	BPIL2	22	32831745	Silent	SNP	C	TCGA-BR-4371-01A-01D-1158-08	352654	32831745	18472821	182	22346											
CDKL5	6792	broad.mit.edu	37	chrX	18671592	18671592	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgttatgagggaagccctGattcacagggcccaggtaaa	12	7	12	10	1	1	2	1	2	0	0	1	3	1	3	2	3	1	2	2	3	4	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chrX:18671592G>T	uc004cym.2	+	21	3274	c.3021G>T	c.(3019-3021)CTG>CTT	p.L1007L	CDKL5_uc004cyn.2_Silent_p.L1007L|RS1_uc004cyo.2_Intron	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	1007					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					GGGAAGCCCTGATTCACAGGG	0.572													13	68					3.27435e-08	3.40953e-08	0.11911	1	0		T	18671592	T	T	18671592	2	4	26	1	0	0	0	0	0	0	0	1	3160	1277	45	5		5	CDKL5	23	18671592	Silent	SNP	G	TCGA-BR-4371-01A-01D-1158-08		18671592	136598968	183	22347											
MAGEB6	158809	broad.mit.edu	37	chrX	26212639	26212639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacatgctgaagtgtgtcCgcagagagtacaagccctac	12	7	11	11	1	0	3	0	1	0	2	1	4	1	3	2	0	4	3	2	0	4	2			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chrX:26212639C>T	uc004dbr.2	+	2	825	c.676C>T	c.(676-678)CGC>TGC	p.R226C	MAGEB6_uc010ngc.1_Missense_Mutation_p.R6C	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	226	MAGE.									ovary(3)	3						GAAGTGTGTCCGCAGAGAGTA	0.483													90	65					0	0	0.139131	0	0		T	26212639	T	T	26212639	3	4	26	1	0	0	0	0	1	0	0	0	9197	652	23	1	678	1	MAGEB6	23	26212639	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	7541047	26212639	129057921	184	22348											
ZNF81	347344	broad.mit.edu	37	chrX	47775487	47775487	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgggaaatctttcccttCtaagtcacaactccagatgc	10	12	7	12	0	3	1	1	0	2	1	5	2	5	2	2	1	2	0	2	1	3	3			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chrX:47775487C>A	uc010nhy.1	+	6	1810	c.1442C>A	c.(1441-1443)TCT>TAT	p.S481Y		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	481	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				TCTTTCCCTTCTAAGTCACAA	0.433													39	115					6.04917e-29	6.69835e-29	0.246493	1	0		A	47775487	A	A	47775487	3	1	26	1	0	0	0	0	1	0	0	0	18199	913	32	5	1456	5	ZNF81	23	47775487	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	21562848	47775487	107495073	185	22349											
DOCK11	139818	broad.mit.edu	37	chrX	117748655	117748655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttgttttggtttctatagCgctgtttgacactaatggat	7	20	9	5	1	1	1	0	1	1	0	1	2	1	2	0	2	1	4	0	2	3	9			TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chrX:117748655C>T	uc004eqp.2	+	29	3160	c.3097C>T	c.(3097-3099)CGC>TGC	p.R1033C	DOCK11_uc004eqq.2_Missense_Mutation_p.R799C	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1033					blood coagulation	cytosol	GTP binding			ovary(3)	3						GTTTCTATAGCGCTGTTTGAC	0.274													69	168					0	0	0.139131	0	0		T	117748655	T	T	117748655	3	4	26	1	0	0	0	0	1	0	0	0	4692	782	27	1	3211	1	DOCK11	23	117748655	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	69973168	117748655	37521905	186	22350											
IGSF1	3547	broad.mit.edu	37	chrX	130419221	130419221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagcatctggatatgagtgCggcagatgtaaaccccttca	11	9	12	9	1	2	2	1	1	1	1	2	4	2	4	2	3	3	3	2	3	3	3	rs149790689		TCGA-BR-4371-01A-01D-1158-08	TCGA-BR-4371-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	959629fa-0d96-4774-a99c-c5103a42d8d8	158777de-8f13-42b8-847c-a5951a7246a2	g.chrX:130419221C>T	uc004ewd.2	-	5	837	c.599G>A	c.(598-600)CGC>CAC	p.R200H	IGSF1_uc004ewe.3_Missense_Mutation_p.R189H|IGSF1_uc004ewf.2_Missense_Mutation_p.R180H|IGSF1_uc004ewg.2_Missense_Mutation_p.R200H	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	200	Ig-like C2-type 2.|Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GATATGAGTGCGGCAGATGTA	0.552													86	139					0	0	0.139131	0	0		T	130419221	T	T	130419221	3	4	26	1	0	0	0	0	1	0	0	0	7612	768	27	1	3552	1	IGSF1	23	130419221	Missense_Mutation	SNP	C	TCGA-BR-4371-01A-01D-1158-08	12670566	130419221	24851339	187	22351											
SAMD11	148398	broad.mit.edu	37	chr1	879321	879321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggccgagttttctacgtgGccagcttccccgtggctctg	3	12	13	13	3	2	0	0	0	2	0	3	1	3	0	4	3	2	3	4	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:879321G>A	uc001abw.1	+	14	1914	c.1834G>A	c.(1834-1836)GCC>ACC	p.A612T	SAMD11_uc001abx.1_Missense_Mutation_p.A475T	NM_152486	NP_689699	Q96NU1	SAM11_HUMAN	sterile alpha motif domain containing 11	612						nucleus					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.74e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.93e-23)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000472)|Kidney(185;0.0023)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.199)		TTTCTACGTGGCCAGCTTCCC	0.682													9	56					0	0	1	0	0		A	879321	A	A	879321	3	1	27	1	0	0	0	0	1	0	0	0	13841	1203	42	2	1884	2	SAMD11	1	879321	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08		879321	248371300	1	22352											
AGRN	375790	broad.mit.edu	37	chr1	985290	985290	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctccatccaggaccaacCtgtgccgatgagaagagccc	10	7	9	15	1	0	2	0	1	0	2	3	5	3	3	7	1	3	0	7	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:985290C>T	uc001ack.1	+	27	4802	c.4752C>T	c.(4750-4752)ACC>ACT	p.T1584T		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	1584	EGF-like 2.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		CAGGACCAACCTGTGCCGATG	0.726													4	56					0	0	1	0	0		T	985290	T	T	985290	2	4	27	1	0	0	0	0	0	0	0	1	397	668	24	4		4	AGRN	1	985290	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	105969	985290	248265331	2	22353											
AGRN	375790	broad.mit.edu	37	chr1	986870	986870	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgctgaccccggagcAcgtgctgcggcaggtggacg	6	5	16	14	4	0	1	0	1	0	0	0	3	0	3	3	4	5	5	3	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:986870A>G	uc001ack.1	+	32	5458	c.5408A>G	c.(5407-5409)CAC>CGC	p.H1803R		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	1803	Laminin G-like 2.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		ACCCCGGAGCACGTGCTGCGG	0.741													3	6					0	0	1	0	0		G	986870	G	G	986870	3	3	27	1	0	0	0	0	1	0	0	0	397	159	6	3	5534	3	AGRN	1	986870	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1580	986870	248263751	3	22354											
UBE2J2	118424	broad.mit.edu	37	chr1	1190610	1190610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgcgatgctcctcagcacGtacttgaccgtgtaagcaaa	10	9	10	12	4	1	1	1	1	0	0	2	2	2	1	2	0	5	5	2	0	3	3	rs147177041		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:1190610G>A	uc001adn.2	-	7	1063	c.753C>T	c.(751-753)TAC>TAT	p.Y251Y	UBE2J2_uc001adm.2_Silent_p.Y216Y|UBE2J2_uc001ado.2_Silent_p.Y267Y|UBE2J2_uc001adp.2_Silent_p.Y251Y|UBE2J2_uc001adq.2_Silent_p.Y199Y|UBE2J2_uc001adr.2_Silent_p.Y199Y|UBE2J2_uc001ads.2_Silent_p.Y199Y	NM_194458	NP_919440	Q8N2K1	UB2J2_HUMAN	ubiquitin conjugating enzyme E2, J2 isoform 3	251	Lumenal (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ATP binding|ubiquitin-protein ligase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.66e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.53e-21)|Colorectal(212;0.00019)|COAD - Colon adenocarcinoma(227;0.000215)|Kidney(185;0.00255)|BRCA - Breast invasive adenocarcinoma(365;0.00266)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0371)|Lung(427;0.205)		TCCTCAGCACGTACTTGACCG	0.652													7	31					0	0	1	0	0		A	1190610	A	A	1190610	2	1	27	1	0	0	0	0	0	0	0	1	16887	1140	40	1		1	UBE2J2	1	1190610	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	203740	1190610	248060011	4	22355											
CPSF3L	54973	broad.mit.edu	37	chr1	1249150	1249150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcaaaagcccggtcgaaggCcttgatgtgcttgaactcaa	12	8	11	10	2	1	2	1	2	0	0	2	3	1	2	2	2	4	2	2	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:1249150C>T	uc001aee.1	-	9	977	c.919G>A	c.(919-921)GCC>ACC	p.A307T	CPSF3L_uc009vjy.1_RNA|CPSF3L_uc001aef.1_Missense_Mutation_p.A313T|CPSF3L_uc009vjz.1_Missense_Mutation_p.A285T|CPSF3L_uc010nyj.1_Missense_Mutation_p.A278T|CPSF3L_uc001aeg.1_Missense_Mutation_p.A183T|CPSF3L_uc001aeh.1_Missense_Mutation_p.A206T|CPSF3L_uc001aei.1_Missense_Mutation_p.A209T|CPSF3L_uc001aej.1_Missense_Mutation_p.A134T|CPSF3L_uc001aek.1_Missense_Mutation_p.A49T	NM_017871	NP_060341	Q5TA45	INT11_HUMAN	cleavage and polyadenylation specific factor	307						Golgi apparatus|nucleus	hydrolase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(86;4.35e-21)|Colorectal(212;0.000166)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.00235)|BRCA - Breast invasive adenocarcinoma(365;0.00255)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0349)|Lung(427;0.201)		CGGTCGAAGGCCTTGATGTGC	0.587													8	70					0	0	1	0	0		T	1249150	T	T	1249150	3	4	27	1	0	0	0	0	1	0	0	0	3830	739	26	2	919	2	CPSF3L	1	1249150	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	58540	1249150	248001471	5	22356											
DVL1	1855	broad.mit.edu	37	chr1	1275509	1275509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagatgccgccgtctccaCggtcgttgctctgccccacg	4	10	11	16	5	2	1	0	0	2	1	4	1	2	1	5	1	3	3	5	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:1275509C>T	uc001aer.3	-	8	865	c.818G>A	c.(817-819)CGT>CAT	p.R273H	DVL1_uc002quu.2_Translation_Start_Site|DVL1_uc009vka.2_Translation_Start_Site|DVL1_uc001aeu.1_Translation_Start_Site	NM_004421	NP_004412	O14640	DVL1_HUMAN	dishevelled 1	273	PDZ.				canonical Wnt receptor signaling pathway|dendrite morphogenesis|intracellular signal transduction|negative regulation of protein binding|negative regulation of protein kinase activity|neural tube development|neuromuscular junction development|neurotransmitter secretion|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein localization to nucleus|receptor clustering|transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, planar cell polarity pathway	cytoplasmic membrane-bounded vesicle|cytosol|plasma membrane|synapse|synaptosome	frizzled binding|identical protein binding|protein kinase binding|signal transducer activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		GCCGTCTCCACGGTCGTTGCT	0.647													13	32					0	0	1	0	0		T	1275509	T	T	1275509	3	4	27	1	0	0	0	0	1	0	0	0	4841	536	19	1	1226	1	DVL1	1	1275509	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	26359	1275509	247975112	6	22357											
CCNL2	81669	broad.mit.edu	37	chr1	1325706	1325706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcctttgcctcttcgatagCgtgctttcttttttccactt	3	19	7	12	2	2	0	0	0	2	0	4	1	3	0	3	1	3	1	3	1	1	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:1325706C>T	uc001afi.2	-	8	942	c.910G>A	c.(910-912)GCT>ACT	p.A304T	CCNL2_uc010nym.1_RNA|CCNL2_uc001aff.1_Missense_Mutation_p.A82T|CCNL2_uc001afg.1_Missense_Mutation_p.A82T|CCNL2_uc001afh.2_3'UTR|CCNL2_uc001afj.2_3'UTR|CCNL2_uc001afk.2_3'UTR	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A	304					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		TCTTCGATAGCGTGCTTTCTT	0.567													27	92					0	0	1	0	0		T	1325706	T	T	1325706	3	4	27	1	0	0	0	0	1	0	0	0	2935	768	27	1	668	1	CCNL2	1	1325706	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	50197	1325706	247924915	7	22358											
ATAD3C	219293	broad.mit.edu	37	chr1	1391275	1391275	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtacgggccaccaggcacCgggaagacgctgtttgccaa	9	6	13	13	3	0	1	0	0	0	1	0	2	0	2	4	3	2	4	4	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:1391275C>T	uc001aft.2	+	6	1538	c.543C>T	c.(541-543)ACC>ACT	p.T181T		NM_001039211	NP_001034300	Q5T2N8	ATD3C_HUMAN	ATPase family, AAA domain containing 3C	181	ATP (Potential).						ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		CACCAGGCACCGGGAAGACGC	0.632													11	32					0	0	1	0	0		T	1391275	T	T	1391275	2	4	27	1	0	0	0	0	0	0	0	1	1076	639	23	1		1	ATAD3C	1	1391275	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	65569	1391275	247859346	8	22359											
MORN1	79906	broad.mit.edu	37	chr1	2288909	2288909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtcctcctggccatggaggGcacccaaatgcagctccagg	8	7	12	14	0	0	0	0	0	0	0	3	1	3	1	5	4	2	3	5	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:2288909G>A	uc001ajb.1	-	10	1019	c.998C>T	c.(997-999)GCC>GTC	p.A333V	MORN1_uc009vld.2_Missense_Mutation_p.A309V|MORN1_uc001ajd.1_Missense_Mutation_p.A333V	NM_024848	NP_079124	Q5T089	MORN1_HUMAN	MORN repeat containing 1	333										ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.000194)|all_epithelial(69;9.96e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;3.3e-15)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;2.21e-37)|OV - Ovarian serous cystadenocarcinoma(86;5.01e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.00137)|BRCA - Breast invasive adenocarcinoma(365;0.00488)|STAD - Stomach adenocarcinoma(132;0.00665)|KIRC - Kidney renal clear cell carcinoma(229;0.0203)|Lung(427;0.212)		GCCATGGAGGGCACCCAAATG	0.692													5	59					0	0	1	0	0		A	2288909	A	A	2288909	3	1	27	1	0	0	0	0	1	0	0	0	9726	1203	42	2	515	2	MORN1	1	2288909	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	897634	2288909	246961712	9	22360											
PANK4	55229	broad.mit.edu	37	chr1	2447082	2447082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtccaccgtgtcgggcacGtaggagggcgggtccaggag	7	5	19	10	4	0	0	0	0	0	0	3	2	2	2	3	6	0	2	3	6	1	1	rs143863716	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:2447082G>A	uc001ajm.1	-	10	1302	c.1293C>T	c.(1291-1293)TAC>TAT	p.Y431Y	PANK4_uc010nza.1_Silent_p.Y392Y	NM_018216	NP_060686	Q9NVE7	PANK4_HUMAN	pantothenate kinase 4	431					coenzyme A biosynthetic process	cytoplasm	ATP binding|pantothenate kinase activity			upper_aerodigestive_tract(1)|large_intestine(1)|ovary(1)	3	all_cancers(77;0.000158)|all_epithelial(69;8.01e-05)|all_lung(157;0.0212)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;3.18e-20)|all_lung(118;1.67e-08)|Lung NSC(185;2.69e-06)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;1.54e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.95e-23)|GBM - Glioblastoma multiforme(42;2.81e-08)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.00445)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		TGTCGGGCACGTAGGAGGGCG	0.652													11	55					0	0	1	0	0		A	2447082	A	A	2447082	2	1	27	1	0	0	0	0	0	0	0	1	11438	1140	40	1		1	PANK4	1	2447082	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	158173	2447082	246803539	10	22361											
ARHGEF16	27237	broad.mit.edu	37	chr1	3394499	3394499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcggagagctgttcttagtgGaagaaaccggactttttcga	10	11	13	7	3	1	2	0	0	1	2	2	6	1	4	1	3	2	2	1	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:3394499G>A	uc001akg.3	+	11	1782	c.1534G>A	c.(1534-1536)GAA>AAA	p.E512K	ARHGEF16_uc001aki.2_Missense_Mutation_p.E224K|ARHGEF16_uc001akj.2_Missense_Mutation_p.E224K|ARHGEF16_uc010nzh.1_Missense_Mutation_p.E216K	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	512	PH.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		GTTCTTAGTGGAAGAAACCGG	0.572													6	58					0	0	1	0	0		A	3394499	A	A	3394499	3	1	27	1	0	0	0	0	1	0	0	0	899	1175	41	4	1572	4	ARHGEF16	1	3394499	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	947417	3394499	245856122	11	22362											
ARHGEF16	27237	broad.mit.edu	37	chr1	3395096	3395096	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcaaccgtagctcctcCgtgccccaccccttccaggt	5	7	10	19	3	0	0	0	0	0	0	3	0	3	0	8	3	3	3	8	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:3395096C>T	uc001akg.3	+	12	1982	c.1734C>T	c.(1732-1734)TCC>TCT	p.S578S	ARHGEF16_uc001aki.2_Silent_p.S290S|ARHGEF16_uc001akj.2_Silent_p.S290S|ARHGEF16_uc010nzh.1_Silent_p.S282S	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	578	PH.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		GTAGCTCCTCCGTGCCCCACC	0.662													4	44					0	0	1	0	0		T	3395096	T	T	3395096	2	4	27	1	0	0	0	0	0	0	0	1	899	639	23	1		1	ARHGEF16	1	3395096	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	597	3395096	245855525	12	22363											
ARHGEF16	27237	broad.mit.edu	37	chr1	3397074	3397074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttccccgaggactttgccCgcttcatcaccagccgtgtg	5	10	11	15	3	2	0	2	0	0	0	3	2	3	1	5	2	2	2	5	2	0	3	rs74614375		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:3397074C>T	uc001akg.3	+	15	2301	c.2053C>T	c.(2053-2055)CGC>TGC	p.R685C	ARHGEF16_uc001aki.2_Missense_Mutation_p.R397C|ARHGEF16_uc001akj.2_Missense_Mutation_p.R397C|ARHGEF16_uc010nzh.1_Missense_Mutation_p.R389C	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	685	SH3.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		GGACTTTGCCCGCTTCATCAC	0.682													3	48					0	0	1	0	0		T	3397074	T	T	3397074	3	4	27	1	0	0	0	0	1	0	0	0	899	652	23	1	2107	1	ARHGEF16	1	3397074	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1978	3397074	245853547	13	22364											
MEGF6	1953	broad.mit.edu	37	chr1	3417801	3417801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaggctccggtctcagggtCgcagcgggcagcgtgctggc	4	6	18	13	4	1	0	1	0	1	0	4	0	2	0	1	5	3	5	1	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:3417801C>T	uc001akl.2	-	19	2613	c.2386G>A	c.(2386-2388)GAC>AAC	p.D796N	MEGF6_uc001akk.2_Missense_Mutation_p.D691N	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	796	EGF-like 13.					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		GTCTCAGGGTCGCAGCGGGCA	0.697													4	25					0	0	1	0	0		T	3417801	T	T	3417801	3	4	27	1	0	0	0	0	1	0	0	0	9480	884	31	1	2315	1	MEGF6	1	3417801	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20727	3417801	245832820	14	22365											
WDR8	49856	broad.mit.edu	37	chr1	3552529	3552529	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagcaggtgtcccacacTgccagcacacagccgtttgg	9	7	10	15	1	0	0	0	0	0	0	2	0	2	0	4	2	4	3	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:3552529T>C	uc001ako.2	-	6	690	c.582A>G	c.(580-582)GCA>GCG	p.A194A	WDR8_uc001akn.3_Silent_p.A194A|WDR8_uc010nzi.1_3'UTR	NM_017818	NP_060288	Q9P2S5	WRP73_HUMAN	WD repeat domain 8	194	WD 3.					centrosome	protein binding				0	all_cancers(77;0.0128)|all_epithelial(69;0.00526)|Ovarian(185;0.0634)|Lung NSC(156;0.162)|all_lung(157;0.172)	all_epithelial(116;7.37e-22)|all_lung(118;8.23e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;4.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;4.16e-22)|GBM - Glioblastoma multiforme(42;1.05e-14)|Colorectal(212;1.19e-05)|BRCA - Breast invasive adenocarcinoma(365;2.67e-05)|COAD - Colon adenocarcinoma(227;5.82e-05)|Kidney(185;0.000364)|KIRC - Kidney renal clear cell carcinoma(229;0.00223)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		TGTCCCACACTGCCAGCACAC	0.488													4	63					0	0	1	0	0		C	3552529	C	C	3552529	2	2	27	1	0	0	0	0	0	0	0	1	17355	1567	55	3		3	WDR8	1	3552529	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	134728	3552529	245698092	15	22366											
CCDC27	148870	broad.mit.edu	37	chr1	3669074	3669074	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccatcttcccctccacacCccaagccaggctgaagagag	10	5	9	17	0	1	2	0	1	1	1	3	3	3	2	7	2	1	1	7	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:3669074C>A	uc001akv.2	+	1	110	c.29C>A	c.(28-30)CCC>CAC	p.P10H		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	10										skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		CCCTCCACACCCCAAGCCAGG	0.592													4	45					1	1	1	1	0		A	3669074	A	A	3669074	3	1	27	1	0	0	0	0	1	0	0	0	2804	623	22	5	31	5	CCDC27	1	3669074	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	116545	3669074	245581547	16	22367											
NPHP4	261734	broad.mit.edu	37	chr1	6008211	6008211	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatctcaggcaccagtacaAcgacctgcggcctctgcacg	9	6	9	17	3	2	0	1	0	2	0	3	1	2	0	4	2	4	3	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:6008211A>G	uc001alq.1	-	8	1177	c.911T>C	c.(910-912)GTT>GCT	p.V304A	NPHP4_uc001als.1_RNA|NPHP4_uc009vlt.1_RNA|NPHP4_uc001alt.1_RNA	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	304					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		CACCAGTACAACGACCTGCGG	0.617													3	35					0	0	1	0	0		G	6008211	G	G	6008211	3	3	27	1	0	0	0	0	1	0	0	0	10600	43	2	3	3461	3	NPHP4	1	6008211	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2339137	6008211	243242410	17	22368											
CHD5	26038	broad.mit.edu	37	chr1	6172337	6172337	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctcagccttggtgtcaTctgccggggacagatcacat	7	11	10	13	1	5	1	3	0	2	1	6	2	5	2	3	3	2	0	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:6172337T>A	uc001amb.1	-	35	5103	c.5003A>T	c.(5002-5004)GAT>GTT	p.D1668V	CHD5_uc001alz.1_Missense_Mutation_p.D525V|CHD5_uc001ama.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1668					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		CTTGGTGTCATCTGCCGGGGA	0.313													45	134					0	0	1	0	0		A	6172337	A	A	6172337	3	1	27	1	0	0	0	0	1	0	0	0	3331	1449	50	5	889	5	CHD5	1	6172337	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	164126	6172337	243078284	18	22369											
CHD5	26038	broad.mit.edu	37	chr1	6202212	6202212	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacggaataccttcttcccActccgaatggcgttgtcctc	8	12	7	14	3	1	0	0	0	1	0	5	2	4	1	4	2	2	1	4	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:6202212A>G	uc001amb.1	-	15	2512	c.2412T>C	c.(2410-2412)AGT>AGC	p.S804S	CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	804	Helicase ATP-binding.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		CCTTCTTCCCACTCCGAATGG	0.597													32	131					0	0	1	0	0		G	6202212	G	G	6202212	2	3	27	1	0	0	0	0	0	0	0	1	3331	156	6	3		3	CHD5	1	6202212	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	29875	6202212	243048409	19	22370											
GPR153	387509	broad.mit.edu	37	chr1	6311498	6311498	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcccagaggaacacaggCagcagcagggcctgggccac	11	1	15	14	0	0	1	0	0	0	1	0	2	0	2	3	5	3	3	3	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:6311498C>A	uc001amp.1	-	4	1139	c.879G>T	c.(877-879)CTG>CTT	p.L293L	GPR153_uc001amo.1_5'Flank	NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	293	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		GGAACACAGGCAGCAGCAGGG	0.672													5	60					1.23904e-05	1.32877e-05	1	1	0		A	6311498	A	A	6311498	2	1	27	1	0	0	0	0	0	0	0	1	6674	697	25	5		5	GPR153	1	6311498	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	109286	6311498	242939123	20	22371											
GPR153	387509	broad.mit.edu	37	chr1	6314057	6314057	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagcagacgccaaagcccagGccgatctcagccacgatgaa	14	3	10	14	3	1	2	1	1	1	1	2	4	1	2	4	1	3	1	4	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:6314057G>A	uc001amp.1	-	3	767	c.507C>T	c.(505-507)GGC>GGT	p.G169G		NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	169	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		CAAAGCCCAGGCCGATCTCAG	0.662													4	28					0	0	1	0	0		A	6314057	A	A	6314057	2	1	27	1	0	0	0	0	0	0	0	1	6674	1190	42	2		2	GPR153	1	6314057	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2559	6314057	242936564	21	22372											
TNFRSF25	8718	broad.mit.edu	37	chr1	6521665	6521665	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctccacctccacggcttcGatctctgcctcgcgcagccc	5	9	7	20	4	2	0	0	0	2	0	7	1	3	0	5	1	2	2	5	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:6521665G>T	uc001ane.2	-	10	1171	c.1083C>A	c.(1081-1083)ATC>ATA	p.I361I	TNFRSF25_uc001ana.2_Silent_p.I178I|TNFRSF25_uc001anb.2_RNA|TNFRSF25_uc001anc.2_RNA|TNFRSF25_uc001and.2_Silent_p.I134I|TNFRSF25_uc009vlz.2_RNA|TNFRSF25_uc001anf.2_Silent_p.I324I|TNFRSF25_uc001ang.2_Silent_p.I316I|TNFRSF25_uc001anh.2_Silent_p.I370I	NM_003790	NP_003781	Q93038	TNR25_HUMAN	tumor necrosis factor receptor superfamily,	361	Death.|Cytoplasmic (Potential).				apoptosis|induction of apoptosis by extracellular signals	cytosol|extracellular region|integral to plasma membrane	tumor necrosis factor receptor activity			central_nervous_system(2)|breast(1)	3	Ovarian(185;0.0386)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Acute lymphoblastic leukemia(12;0.00157)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;4.58e-35)|GBM - Glioblastoma multiforme(13;3.06e-27)|Colorectal(212;6.01e-08)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|BRCA - Breast invasive adenocarcinoma(365;0.00105)|STAD - Stomach adenocarcinoma(132;0.00158)|READ - Rectum adenocarcinoma(331;0.0419)		CCACGGCTTCGATCTCTGCCT	0.697													4	24					2.56e-06	2.77152e-06	1	1	0		T	6521665	T	T	6521665	2	4	27	1	0	0	0	0	0	0	0	1	16321	1048	37	5		5	TNFRSF25	1	6521665	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	207608	6521665	242728956	22	22373											
ZBTB48	3104	broad.mit.edu	37	chr1	6649079	6649079	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggacgagaagatggtggTggtggcgctgcagccgcctg	7	6	19	9	4	0	2	0	0	0	2	0	5	0	3	2	5	2	2	2	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:6649079T>C	uc009vmc.1	+	11	1997	c.1874T>C	c.(1873-1875)GTG>GCG	p.V625A	ZBTB48_uc001anx.2_Missense_Mutation_p.V625A|ZBTB48_uc009vmd.1_Missense_Mutation_p.V625A|ZBTB48_uc001any.1_Missense_Mutation_p.V263A	NM_005341	NP_005332	P10074	ZBT48_HUMAN	zinc finger and BTB domain containing 48	625						cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.35e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00109)|STAD - Stomach adenocarcinoma(132;0.017)|READ - Rectum adenocarcinoma(331;0.0642)		AAGATGGTGGTGGTGGCGCTG	0.677													25	86					0	0	1	0	0		C	6649079	C	C	6649079	3	2	27	1	0	0	0	0	1	0	0	0	17574	1696	59	3	1912	3	ZBTB48	1	6649079	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	127414	6649079	242601542	23	22374											
DNAJC11	55735	broad.mit.edu	37	chr1	6712987	6712987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcttccagagaggatggCtgtgtctgtcgctgtcaagg	7	10	16	8	1	2	1	1	0	1	1	4	4	3	2	1	4	0	3	1	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:6712987C>T	uc001aof.2	-	6	638	c.532G>A	c.(532-534)GCC>ACC	p.A178T	DNAJC11_uc010nzt.1_Missense_Mutation_p.A140T|DNAJC11_uc001aog.2_Missense_Mutation_p.A178T|DNAJC11_uc010nzu.1_Missense_Mutation_p.A88T	NM_018198	NP_060668	Q9NVH1	DJC11_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 11	178					protein folding		heat shock protein binding|unfolded protein binding			ovary(1)|skin(1)	2	Ovarian(185;0.0265)|all_lung(157;0.154)	all_cancers(23;1.97e-27)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;2.34e-07)|COAD - Colon adenocarcinoma(227;2.05e-05)|Kidney(185;7.67e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000639)|KIRC - Kidney renal clear cell carcinoma(229;0.00128)|STAD - Stomach adenocarcinoma(132;0.00179)|READ - Rectum adenocarcinoma(331;0.0649)		GAGAGGATGGCTGTGTCTGTC	0.488													12	104					0	0	1	0	0		T	6712987	T	T	6712987	3	4	27	1	0	0	0	0	1	0	0	0	4636	797	28	2	1191	2	DNAJC11	1	6712987	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	63908	6712987	242537634	24	22375											
CAMTA1	23261	broad.mit.edu	37	chr1	7797373	7797373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctgtacaagtgggaccGtcgggccatctcgattcccg	6	9	13	13	5	1	0	0	0	1	0	4	2	2	1	3	2	2	2	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:7797373G>A	uc001aoi.2	+	15	3608	c.3401G>A	c.(3400-3402)CGT>CAT	p.R1134H	CAMTA1_uc010nzv.1_Missense_Mutation_p.R221H|CAMTA1_uc001aok.3_Missense_Mutation_p.R177H|CAMTA1_uc001aoj.2_Missense_Mutation_p.R90H	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1134					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		AAGTGGGACCGTCGGGCCATC	0.567													33	84					0	0	1	0	0		A	7797373	A	A	7797373	3	1	27	1	0	0	0	0	1	0	0	0	2616	1145	40	1	3459	1	CAMTA1	1	7797373	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1084386	7797373	241453248	25	22376											
CAMTA1	23261	broad.mit.edu	37	chr1	7798045	7798045	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacctcgttctgaacccTctaattactacagcagtgag	12	10	8	11	1	2	3	0	2	2	1	3	4	2	3	2	0	4	2	2	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:7798045T>G	uc001aoi.2	+	16	3892	c.3685T>G	c.(3685-3687)TCT>GCT	p.S1229A	CAMTA1_uc010nzv.1_Missense_Mutation_p.S316A|CAMTA1_uc001aok.3_Missense_Mutation_p.S272A|CAMTA1_uc001aoj.2_Missense_Mutation_p.S185A	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1229					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		TTCTGAACCCTCTAATTACTA	0.443													9	93					0	0	1	0	0		G	7798045	G	G	7798045	3	3	27	1	0	0	0	0	1	0	0	0	2616	1551	54	5	3747	5	CAMTA1	1	7798045	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	672	7798045	241452576	26	22377											
PER3	8863	broad.mit.edu	37	chr1	7887864	7887864	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaggaacacgtgcccaCaaactgagtatgtaagtgat	15	8	11	7	1	0	3	0	3	0	1	0	5	0	4	1	1	3	2	1	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:7887864C>T	uc001aoo.2	+	17	3026	c.2851C>T	c.(2851-2853)CAA>TAA	p.Q951*	PER3_uc009vmg.1_Nonsense_Mutation_p.Q959*|PER3_uc009vmh.1_Nonsense_Mutation_p.Q952*|PER3_uc001aop.2_Nonsense_Mutation_p.Q959*|PER3_uc010nzw.1_Nonsense_Mutation_p.Q640*	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	951					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		CACGTGCCCACAAACTGAGTA	0.438													7	51					0	0	1	0	0		T	7887864	T	T	7887864	4	4	27	1	0	0	0	0	0	1	0	0	11750	479	17	4	2917	4	PER3	1	7887864	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	89819	7887864	241362757	27	22378											
RERE	473	broad.mit.edu	37	chr1	8418702	8418702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagctcccgctcgcggatgGtggggtcgacgttgtagagg	5	8	19	9	5	0	1	0	0	0	1	3	4	1	3	1	6	1	4	1	6	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:8418702G>A	uc001ape.2	-	21	4703	c.3893C>T	c.(3892-3894)ACC>ATC	p.T1298I	RERE_uc001apf.2_Missense_Mutation_p.T1298I|RERE_uc001apd.2_Missense_Mutation_p.T744I	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1298					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		CTCGCGGATGGTGGGGTCGAC	0.667													4	43					0	0	1	0	0		A	8418702	A	A	8418702	3	1	27	1	0	0	0	0	1	0	0	0	13256	1261	44	4	823	4	RERE	1	8418702	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	530838	8418702	240831919	28	22379											
RERE	473	broad.mit.edu	37	chr1	8568729	8568729	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccccctgggtactgttcAgcctcctggaacagaaatag	9	10	9	13	0	2	1	1	0	1	1	4	2	3	2	4	2	3	2	4	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:8568729A>G	uc001ape.2	-	9	1646	c.836T>C	c.(835-837)CTG>CCG	p.L279P	RERE_uc001apf.2_Missense_Mutation_p.L279P|RERE_uc010nzx.1_Missense_Mutation_p.L11P|RERE_uc001aph.1_Missense_Mutation_p.L279P	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	279	BAH.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		GGTACTGTTCAGCCTCCTGGA	0.368													10	68					0	0	1	0	0		G	8568729	G	G	8568729	3	3	27	1	0	0	0	0	1	0	0	0	13256	188	7	3	3928	3	RERE	1	8568729	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	150027	8568729	240681892	29	22380											
RERE	473	broad.mit.edu	37	chr1	8684437	8684437	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgactctcgatatacacacAgtctttaaaagaaaaagaaa	19	8	5	9	2	2	2	0	0	2	2	3	4	2	2	1	0	1	0	1	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:8684437A>G	uc001ape.2	-	4	1138	c.328T>C	c.(328-330)TGT>CGT	p.C110R	RERE_uc001apf.2_Missense_Mutation_p.C110R|RERE_uc001aph.1_Missense_Mutation_p.C110R	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	110	BAH.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		ATATACACACAGTCTTTAAAA	0.368													4	91					0	0	1	0	0		G	8684437	G	G	8684437	3	3	27	1	0	0	0	0	1	0	0	0	13256	188	7	3	4456	3	RERE	1	8684437	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	115708	8684437	240566184	30	22381											
GPR157	80045	broad.mit.edu	37	chr1	9188749	9188749	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgatctgtgcgaggcccgCgcgcggcgcggacgatgctg	4	5	19	13	9	1	0	0	0	1	0	1	4	1	1	1	4	2	1	1	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:9188749C>T	uc001apq.1	-	1	481	c.338G>A	c.(337-339)CGC>CAC	p.R113H	GPR157_uc010oad.1_Missense_Mutation_p.R113H|GPR157_uc001apr.2_Missense_Mutation_p.R113H|GPR157_uc001aps.2_Silent_p.A161A	NM_024980	NP_079256	Q5UAW9	GP157_HUMAN	G protein-coupled receptor 157	113	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_lung(157;0.185)	all_epithelial(116;5.02e-20)|all_lung(118;3.6e-06)|Lung NSC(185;7.93e-06)|Renal(390;0.000147)|Breast(348;0.000688)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.16e-07)|COAD - Colon adenocarcinoma(227;7.73e-05)|Kidney(185;0.000252)|KIRC - Kidney renal clear cell carcinoma(229;0.000917)|STAD - Stomach adenocarcinoma(132;0.00178)|BRCA - Breast invasive adenocarcinoma(304;0.00186)|READ - Rectum adenocarcinoma(331;0.0642)		GCGAGGCCCGCGCGCGGCGCG	0.672													8	31					0	0	1	0	0		T	9188749	T	T	9188749	3	4	27	1	0	0	0	0	1	0	0	0	6677	768	27	1	685	1	GPR157	1	9188749	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	504312	9188749	240061872	31	22382											
CTNNBIP1	56998	broad.mit.edu	37	chr1	9910819	9910819	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacctggaaaacgccatcAccacgtcctctgcacctgca	10	6	7	18	3	2	0	1	0	1	0	3	2	3	1	6	1	3	2	6	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:9910819A>G	uc001aqk.1	-	6	510	c.203T>C	c.(202-204)GTG>GCG	p.V68A	CTNNBIP1_uc001aql.1_Missense_Mutation_p.V68A	NM_020248	NP_064633	Q9NSA3	CNBP1_HUMAN	catenin, beta interacting protein 1	68					anterior/posterior pattern formation|branching involved in ureteric bud morphogenesis|negative regulation of mesenchymal cell proliferation|negative regulation of protein binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of smooth muscle cell proliferation|negative regulation of transcription initiation from RNA polymerase II promoter|negative regulation of Wnt receptor signaling pathway|positive regulation of monocyte differentiation|positive regulation of osteoblast differentiation|regulation of vascular permeability involved in acute inflammatory response|Wnt receptor signaling pathway	Axin-APC-beta-catenin-GSK3B complex|cytosol|nucleus	armadillo repeat domain binding|beta-catenin binding				0		all_lung(284;1.82e-05)|Lung NSC(185;3.08e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|Colorectal(212;7.32e-08)|COAD - Colon adenocarcinoma(227;1.73e-05)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000912)|KIRC - Kidney renal clear cell carcinoma(229;0.00112)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		AAACGCCATCACCACGTCCTC	0.587													7	94					0	0	1	0	0		G	9910819	G	G	9910819	3	3	27	1	0	0	0	0	1	0	0	0	4020	159	6	3	46	3	CTNNBIP1	1	9910819	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	722070	9910819	239339802	32	22383											
UBE4B	10277	broad.mit.edu	37	chr1	10165777	10165777	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgttctgcagcgtggctTcctttggtgccagctctttg	3	15	11	12	1	2	0	0	0	2	0	3	0	3	0	3	2	4	4	3	2	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:10165777T>A	uc001aqs.3	+	6	1497	c.784T>A	c.(784-786)TCC>ACC	p.S262T	UBE4B_uc001aqr.3_Missense_Mutation_p.S262T|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_5'UTR	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	262					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		CAGCGTGGCTTCCTTTGGTGC	0.478													5	47					0	0	1	0	0		A	10165777	A	A	10165777	3	1	27	1	0	0	0	0	1	0	0	0	16909	1783	62	5	806	5	UBE4B	1	10165777	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	254958	10165777	239084844	33	22384											
UBE4B	10277	broad.mit.edu	37	chr1	10231209	10231209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcctaggagcttggaccccGattggctgcaatgctgaact	8	11	11	11	1	0	1	0	1	0	0	1	4	1	3	3	3	4	4	3	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:10231209G>A	uc001aqs.3	+	25	4060	c.3347G>A	c.(3346-3348)CGA>CAA	p.R1116Q	UBE4B_uc001aqr.3_Missense_Mutation_p.R987Q|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Missense_Mutation_p.R571Q|UBE4B_uc001aqu.2_5'UTR	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	1116					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		CTTGGACCCCGATTGGCTGCA	0.453													33	106					0	0	1	0	0		A	10231209	A	A	10231209	3	1	27	1	0	0	0	0	1	0	0	0	16909	1058	37	1	3445	1	UBE4B	1	10231209	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	65432	10231209	239019412	34	22385											
KIF1B	23095	broad.mit.edu	37	chr1	10423365	10423365	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagtcactggcatttacgaActcagcttatgcaaaatgtc	12	11	8	10	2	2	0	2	0	0	0	3	2	2	0	0	1	4	3	0	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:10423365A>G	uc001aqx.3	+	41	4531	c.4329A>G	c.(4327-4329)GAA>GAG	p.E1443E	KIF1B_uc001aqw.3_Silent_p.E1397E|KIF1B_uc001aqy.2_Silent_p.E1417E|KIF1B_uc001aqz.2_Silent_p.E1443E|KIF1B_uc001ara.2_Silent_p.E1403E|KIF1B_uc001arb.2_Silent_p.E1429E	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1443					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		GCATTTACGAACTCAGCTTAT	0.343													4	83					0	0	1	0	0		G	10423365	G	G	10423365	2	3	27	1	0	0	0	0	0	0	0	1	8300	40	2	3		3	KIF1B	1	10423365	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	192156	10423365	238827256	35	22386											
DFFA	1676	broad.mit.edu	37	chr1	10523179	10523179	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagtgcagtaaggatgTggctcgccagcgcaacgtcc	8	7	12	14	3	1	0	1	0	0	0	3	1	2	1	3	2	3	4	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:10523179T>C	uc001arj.2	-	5	817	c.719A>G	c.(718-720)CAC>CGC	p.H240R	DFFA_uc001ark.2_Missense_Mutation_p.H240R	NM_004401	NP_004392	O00273	DFFA_HUMAN	DNA fragmentation factor, 45kDa, alpha	240					DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction|negative regulation of apoptosis	cytosol|mitochondrion|nucleoplasm|plasma membrane	deoxyribonuclease activity|identical protein binding				0	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.25e-07)|COAD - Colon adenocarcinoma(227;7.25e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000296)|Kidney(185;0.00074)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0487)		AGTAAGGATGTGGCTCGCCAG	0.567													5	56					0	0	1	0	0		C	10523179	C	C	10523179	3	2	27	1	0	0	0	0	1	0	0	0	4458	1696	59	3	308	3	DFFA	1	10523179	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	99814	10523179	238727442	36	22387											
CASZ1	54897	broad.mit.edu	37	chr1	10720009	10720009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttgcctgtcttgaaggCgatggccccgcccatgtcgg	5	9	12	15	3	1	1	0	1	1	0	2	2	1	1	5	3	1	0	5	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:10720009C>T	uc001aro.2	-	6	1410	c.1090G>A	c.(1090-1092)GCC>ACC	p.A364T	CASZ1_uc001arp.1_Missense_Mutation_p.A364T|CASZ1_uc009vmx.2_Missense_Mutation_p.A388T|CASZ1_uc001arq.1_Missense_Mutation_p.A223T	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	364					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GTCTTGAAGGCGATGGCCCCG	0.647													11	87					0	0	1	0	0		T	10720009	T	T	10720009	3	4	27	1	0	0	0	0	1	0	0	0	2688	768	27	1	4257	1	CASZ1	1	10720009	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	196830	10720009	238530612	37	22388											
MTOR	2475	broad.mit.edu	37	chr1	11206822	11206822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgagggatcatacaggTgtattcttccatgctgtccc	7	12	10	12	1	2	0	1	0	1	0	5	2	5	1	3	2	2	2	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:11206822T>C	uc001asd.2	-	32	4718	c.4597A>G	c.(4597-4599)ACC>GCC	p.T1533A		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	1533	FAT.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						ATCATACAGGTGTATTCTTCC	0.493													6	81					0	0	1	0	0		C	11206822	C	C	11206822	3	2	27	1	0	0	0	0	1	0	0	0	9972	1696	59	3	3160	3	MTOR	1	11206822	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	486813	11206822	238043799	38	22389											
MTOR	2475	broad.mit.edu	37	chr1	11313937	11313937	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaccagctcgttaaggaTcaacaaggctccatggatcc	11	8	10	12	2	1	0	1	0	0	0	5	3	3	3	3	4	2	3	3	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:11313937T>C	uc001asd.2	-	6	920	c.799A>G	c.(799-801)ATC>GTC	p.I267V		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	267					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TCGTTAAGGATCAACAAGGCT	0.498													14	141					0	0	1	0	0		C	11313937	C	C	11313937	3	2	27	1	0	0	0	0	1	0	0	0	9972	1435	50	3	7062	3	MTOR	1	11313937	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	107115	11313937	237936684	39	22390											
PTCHD2	57540	broad.mit.edu	37	chr1	11580746	11580746	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgccctttcctcacagggCtgttcgtctccatcctcatc	5	12	7	17	2	3	0	2	0	1	0	8	0	5	0	4	1	1	2	4	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:11580746C>T	uc001ash.3	+	10	2341	c.2203C>T	c.(2203-2205)CTG>TTG	p.L735L	PTCHD2_uc001asi.1_Silent_p.L735L	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	735	Helical; (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CCTCACAGGGCTGTTCGTCTC	0.652													5	45					0	0	1	0	0		T	11580746	T	T	11580746	2	4	27	1	0	0	0	0	0	0	0	1	12755	796	28	2		2	PTCHD2	1	11580746	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	266809	11580746	237669875	40	22391											
PTCHD2	57540	broad.mit.edu	37	chr1	11591735	11591735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgggcgtcagggagggcCgcgtgcagtggatctccatg	6	7	18	10	3	2	0	1	0	1	0	3	2	2	2	2	4	1	1	2	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:11591735C>T	uc001ash.3	+	17	3481	c.3343C>T	c.(3343-3345)CGC>TGC	p.R1115C		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1115	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CAGGGAGGGCCGCGTGCAGTG	0.667													8	45					0	0	1	0	0		T	11591735	T	T	11591735	3	4	27	1	0	0	0	0	1	0	0	0	12755	652	23	1	3405	1	PTCHD2	1	11591735	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10989	11591735	237658886	41	22392											
PTCHD2	57540	broad.mit.edu	37	chr1	11595642	11595642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctccgtggattactgcGtccacctggtcgagggctac	5	10	12	14	3	0	0	0	0	0	0	4	2	3	1	4	3	3	2	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:11595642G>A	uc001ash.3	+	20	3895	c.3757G>A	c.(3757-3759)GTC>ATC	p.V1253I		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1253	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GGATTACTGCGTCCACCTGGT	0.647													18	56					0	0	1	0	0		A	11595642	A	A	11595642	3	1	27	1	0	0	0	0	1	0	0	0	12755	1145	40	1	3831	1	PTCHD2	1	11595642	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3907	11595642	237654979	42	22393											
AGTRAP	57085	broad.mit.edu	37	chr1	11805861	11805861	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccttgttgtgccacaggTgattctcctaggtcactggc	5	12	10	14	0	2	1	1	1	1	0	3	1	2	1	4	3	1	1	4	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:11805861T>C	uc001asv.2	+	2	153	c.29T>C	c.(28-30)GTG>GCG	p.V10A	AGTRAP_uc001ast.2_Missense_Mutation_p.V10A|AGTRAP_uc001asu.2_Missense_Mutation_p.V10A|AGTRAP_uc001asw.2_Missense_Mutation_p.V10A|AGTRAP_uc001asx.2_Intron	NM_020350	NP_065083	Q6RW13	ATRAP_HUMAN	angiotensin II receptor-associated protein	10	Extracellular (Potential).					cytoplasmic vesicle membrane|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein binding		AGTRAP/BRAF(2)	stomach(2)	2	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.46e-06)|COAD - Colon adenocarcinoma(227;0.000256)|BRCA - Breast invasive adenocarcinoma(304;0.0003)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		GTGCCACAGGTGATTCTCCTA	0.552													8	301					0	0	1	0	0		C	11805861	C	C	11805861	3	2	27	1	0	0	0	0	1	0	0	0	403	1710	59	3	35	3	AGTRAP	1	11805861	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	210219	11805861	237444760	43	22394											
PLOD1	5351	broad.mit.edu	37	chr1	12018613	12018613	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtcggcgtgttcatcgAacagcccacgccgtttgtgt	5	11	12	13	5	1	0	1	0	0	0	3	1	1	0	3	2	2	2	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:12018613A>G	uc001atm.2	+	9	975	c.884A>G	c.(883-885)GAA>GGA	p.E295G	PLOD1_uc010obb.1_Missense_Mutation_p.E342G	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	295					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	GTGTTCATCGAACAGCCCACG	0.597													3	24					0	0	1	0	0		G	12018613	G	G	12018613	3	3	27	1	0	0	0	0	1	0	0	0	12120	246	9	3	918	3	PLOD1	1	12018613	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	212752	12018613	237232008	44	22395											
TNFRSF8	943	broad.mit.edu	37	chr1	12198386	12198386	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacagcgtgggggcagcctAcctggagagcctgccgctgc	6	5	15	15	2	0	1	0	0	0	1	0	2	0	1	5	3	6	2	5	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:12198386A>G	uc001atq.2	+	14	1658	c.1436A>G	c.(1435-1437)TAC>TGC	p.Y479C	TNFRSF8_uc010obc.1_Missense_Mutation_p.Y367C|TNFRSF8_uc001atr.2_Missense_Mutation_p.Y16C|TNFRSF8_uc001ats.2_Intron	NM_001243	NP_001234	P28908	TNR8_HUMAN	tumor necrosis factor receptor superfamily,	479	Cytoplasmic (Potential).				cellular response to mechanical stimulus|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of TRAIL biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	cytoplasm|integral to membrane|plasma membrane				skin(2)|ovary(1)|pancreas(1)|central_nervous_system(1)	5	Ovarian(185;0.249)	Lung NSC(185;8.71e-05)|all_lung(284;9.89e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)		GGGGCAGCCTACCTGGAGAGC	0.677													5	23					0	0	1	0	0		G	12198386	G	G	12198386	3	3	27	1	0	0	0	0	1	0	0	0	16324	391	14	3	1490	3	TNFRSF8	1	12198386	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	179773	12198386	237052235	45	22396											
AADACL4	343066	broad.mit.edu	37	chr1	12726188	12726188	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggctcaggttctgatttaTccagttgtccaggcattctg	6	14	11	10	1	3	1	1	1	2	0	5	1	5	1	2	3	0	4	2	3	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:12726188T>A	uc001auf.2	+	4	666	c.666T>A	c.(664-666)TAT>TAA	p.Y222*		NM_001013630	NP_001013652	Q5VUY2	ADCL4_HUMAN	arylacetamide deacetylase-like 4	222	Lumenal (Potential).					integral to membrane	carboxylesterase activity				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000937)|all_lung(284;0.00122)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.81e-07)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0384)		TTCTGATTTATCCAGTTGTCC	0.532													11	167					0	0	1	0	0		A	12726188	A	A	12726188	4	1	27	1	0	0	0	0	0	1	0	0	13	1442	50	5	680	5	AADACL4	1	12726188	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	527802	12726188	236524433	46	22397											
PRAMEF1	65121	broad.mit.edu	37	chr1	12855624	12855624	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagaacttggaattaactTatggctacctattggaagaa	14	12	10	5	0	0	2	0	0	0	2	0	5	0	4	1	4	3	1	1	4	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:12855624T>C	uc001auj.1	+	4	1007	c.904T>C	c.(904-906)TAT>CAT	p.Y302H		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	302											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GGAATTAACTTATGGCTACCT	0.473													18	109					0	0	1	0	0		C	12855624	C	C	12855624	3	2	27	1	0	0	0	0	1	0	0	0	12447	1754	61	3	914	3	PRAMEF1	1	12855624	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	129436	12855624	236394997	47	22398											
LOC649330	649330	broad.mit.edu	37	chr1	12907311	12907311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgtcatcctctccttcctCagcctctttttcatcatcct	4	18	2	17	0	7	0	4	0	3	0	11	0	10	0	5	0	1	0	5	0	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:12907311C>T	uc009vno.2	-	1	927	c.832G>A	c.(832-834)GAG>AAG	p.E278K	HNRNPCL1_uc010obf.1_Missense_Mutation_p.E278K	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	278							nucleic acid binding|nucleotide binding				0						TCTCCTTCCTCAGCCTCTTTT	0.478													16	227					0	0	1	0	0		T	12907311	T	T	12907311	3	4	27	1	0	0	0	0	1	0	0	0	8903	835	29	4	53	4	LOC649330	1	12907311	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	51687	12907311	236343310	48	22399											
LOC440563	440563	broad.mit.edu	37	chr1	13183448	13183448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atatgcgctggtgtttcgagGgcactacagccagagcaatg	10	9	13	9	2	0	1	0	0	0	1	1	2	0	1	1	2	4	4	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:13183448G>A	uc010obg.1	-	1	520	c.425C>T	c.(424-426)CCC>CTC	p.P142L		NM_001136561	NP_001130033	B2RXH8	B2RXH8_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	142						ribonucleoprotein complex	nucleic acid binding|nucleotide binding				0						GTGTTTCGAGGGCACTACAGC	0.498													15	308					0	0	1	0	0		A	13183448	A	A	13183448	3	1	27	1	0	0	0	0	1	0	0	0	8897	1232	43	4	460	4	LOC440563	1	13183448	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	276137	13183448	236067173	49	22400											
PRDM2	7799	broad.mit.edu	37	chr1	14059379	14059379	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatgtatacatgtgggaggTaagaagtaattctgattctt	13	15	10	3	0	2	2	0	1	2	1	2	3	2	3	0	2	1	3	0	2	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:14059379T>C	uc001avi.2	+	4	1087	c.231_splice	c.e4+2	p.E77_splice	PRDM2_uc001avg.2_Splice_Site_p.E77_splice|PRDM2_uc001avh.2_Splice_Site_p.E77_splice|PRDM2_uc001avj.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger							Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		ATGTGGGAGGTAAGAAGTAAT	0.284													6	55					0	0	1	0	0		C	14059379	C	C	14059379	5	2	27	1	0	0	0	0	0	0	1	0	12480	1652	57	3	243	3	PRDM2	1	14059379	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	875931	14059379	235191242	50	22401											
PRDM2	7799	broad.mit.edu	37	chr1	14108310	14108310	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgctgcacaaagtgtggaaaAggtgtcgacaatatgccgga	13	7	13	8	3	0	0	0	0	0	0	1	3	0	2	1	3	2	2	1	3	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:14108310A>G	uc001avi.2	+	8	4876	c.4020A>G	c.(4018-4020)AAA>AAG	p.K1340K	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Silent_p.K1340K|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Silent_p.K1139K|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1340	C2H2-type 7; atypical.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		AGTGTGGAAAAGGTGTCGACA	0.463													31	145					0	0	1	0	0		G	14108310	G	G	14108310	2	3	27	1	0	0	0	0	0	0	0	1	12480	69	3	3		3	PRDM2	1	14108310	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	48931	14108310	235142311	51	22402			1	7		5	5	493	N	T_C_A	1.24028e-05
PRDM2	7799	broad.mit.edu	37	chr1	14108398	14108398	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtacacgcctaagaaaaacCcagtaccattaaaacaaact	19	6	5	11	1	0	1	0	0	0	1	0	1	0	1	3	1	5	2	3	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:14108398C>G	uc001avi.2	+	8	4964	c.4108C>G	c.(4108-4110)CCA>GCA	p.P1370A	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.P1370A|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.P1169A|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1370	Arg/Lys-rich (basic).					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		TAAGAAAAACCCAGTACCATT	0.453													4	113					0	0	1	0	0		G	14108398	G	G	14108398	3	3	27	1	0	0	0	0	1	0	0	0	12480	623	22	5	4134	5	PRDM2	1	14108398	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	88	14108398	235142223	52	22403			1	7		5	5	493	N	T_C_A	1.24028e-05
PRDM2	7799	broad.mit.edu	37	chr1	14108484	14108484	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgccttccgacgaatgggAcagcccaaaaggcttaactt	13	8	9	11	2	0	0	0	0	0	0	1	3	1	1	3	2	3	1	3	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:14108484A>T	uc001avi.2	+	8	5050	c.4194A>T	c.(4192-4194)GGA>GGT	p.G1398G	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Silent_p.G1398G|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Silent_p.G1197G|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1398	Arg/Lys-rich (basic).					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GACGAATGGGACAGCCCAAAA	0.398													9	79					0	0	1	0	0		T	14108484	T	T	14108484	2	4	27	1	0	0	0	0	0	0	0	1	12480	262	10	5		5	PRDM2	1	14108484	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	86	14108484	235142137	53	22404			1	7		5	5	493	N	T_C_A	1.24028e-05
PRDM2	7799	broad.mit.edu	37	chr1	14108568	14108568	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcattgaagaaaaaaaaTcagctagtacagaaagcaat	22	7	7	5	0	1	3	1	1	0	2	1	3	1	3	0	0	4	4	0	0	10	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:14108568T>A	uc001avi.2	+	8	5134	c.4278T>A	c.(4276-4278)AAT>AAA	p.N1426K	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.N1426K|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.N1225K|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1426	Arg/Lys-rich (basic).					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		AGAAAAAAAATCAGCTAGTAC	0.403													15	133					0	0	1	0	0		A	14108568	A	A	14108568	3	1	27	1	0	0	0	0	1	0	0	0	12480	1432	50	5	4304	5	PRDM2	1	14108568	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	84	14108568	235142053	54	22405			1	7		5	5	493	N	T_C_A	1.24028e-05
PRDM2	7799	broad.mit.edu	37	chr1	14108802	14108802	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacactcatcacctgcaagTagtgacaaaaacagtaacag	17	6	8	10	0	2	1	2	1	0	0	2	2	2	2	1	1	3	3	1	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:14108802T>C	uc001avi.2	+	8	5368	c.4512T>C	c.(4510-4512)AGT>AGC	p.S1504S	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Silent_p.S1504S|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Silent_p.S1303S|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1504						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		CACCTGCAAGTAGTGACAAAA	0.483													10	157					0	0	1	0	0		C	14108802	C	C	14108802	2	2	27	1	0	0	0	0	0	0	0	1	12480	1635	57	3		3	PRDM2	1	14108802	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	234	14108802	235141819	55	22406			1	7		5	5	493	N	T_C_A	1.24028e-05
KAZ	23254	broad.mit.edu	37	chr1	15390079	15390079	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctacagggcgacagtccCggcccagttcagaagaacct	10	6	12	13	2	1	2	1	0	0	2	2	3	2	2	3	3	2	2	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:15390079C>T	uc001avm.3	+	7	1340	c.1059C>T	c.(1057-1059)CCC>CCT	p.P353P	KAZ_uc009vog.1_Silent_p.P353P|KAZ_uc010obj.1_Silent_p.P353P|KAZ_uc001avo.2_Silent_p.P347P|KAZ_uc001avp.2_Silent_p.P259P|KAZ_uc001avq.2_Silent_p.P259P|KAZ_uc001avr.2_Missense_Mutation_p.R255W	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	353					keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						GCGACAGTCCCGGCCCAGTTC	0.592													12	25					0	0	1	0	0		T	15390079	T	T	15390079	2	4	27	1	0	0	0	0	0	0	0	1	8004	639	23	1		1	KAZ	1	15390079	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1281277	15390079	233860542	56	22407											
CELA2B	51032	broad.mit.edu	37	chr1	15812448	15812448	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagttgctggttgtggaCtatgccacctgctccagctc	5	11	12	13	0	0	0	0	0	0	0	2	1	1	1	4	3	4	5	4	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:15812448C>T	uc001awl.2	+	6	571	c.546C>T	c.(544-546)GAC>GAT	p.D182D		NM_015849	NP_056933	P08218	CEL2B_HUMAN	elastase 2B preproprotein	182	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1						TGGTTGTGGACTATGCCACCT	0.577													7	167					0	0	1	0	0		T	15812448	T	T	15812448	2	4	27	1	0	0	0	0	0	0	0	1	3215	564	20	4		4	CELA2B	1	15812448	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	422369	15812448	233438173	57	22408											
CASP9	842	broad.mit.edu	37	chr1	15833485	15833485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcgatgttggagccagtgCgggtgcggagcccggactca	7	7	17	10	4	1	0	1	0	0	0	2	4	1	3	2	4	4	1	2	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:15833485C>T	uc001awn.2	-	4	634	c.539G>A	c.(538-540)CGC>CAC	p.R180H	CASP9_uc001awm.1_Missense_Mutation_p.R180H|CASP9_uc001awo.2_Intron|CASP9_uc001awp.2_Missense_Mutation_p.R24H|CASP9_uc009voi.2_Missense_Mutation_p.R24H|CASP9_uc010obm.1_Missense_Mutation_p.R97H|CASP9_uc001awq.2_Missense_Mutation_p.R97H	NM_001229	NP_001220	P55211	CASP9_HUMAN	caspase 9 isoform alpha preproprotein	180					activation of caspase activity by cytochrome c|induction of apoptosis by intracellular signals|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol	cysteine-type endopeptidase activity|enzyme activator activity|protein binding			central_nervous_system(1)|kidney(1)	2		Breast(348;0.000207)|all_lung(284;0.000211)|Colorectal(325;0.000259)|Lung NSC(340;0.000269)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;8.49e-07)|COAD - Colon adenocarcinoma(227;4.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00013)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00763)|READ - Rectum adenocarcinoma(331;0.0655)		GGAGCCAGTGCGGGTGCGGAG	0.582													16	135					0	0	1	0	0		T	15833485	T	T	15833485	3	4	27	1	0	0	0	0	1	0	0	0	2682	768	27	1	735	1	CASP9	1	15833485	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21037	15833485	233417136	58	22409											
RSC1A1	6248	broad.mit.edu	37	chr1	15987346	15987346	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaataaagaatatggccAttactcctctccaagtctct	15	11	4	11	0	2	1	0	0	2	1	5	1	3	1	3	1	2	0	3	1	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:15987346A>G	uc010obn.1	+	1	983	c.983A>G	c.(982-984)CAT>CGT	p.H328R		NM_006511	NP_006502	Q92681	RSCA1_HUMAN	regulatory solute carrier protein, family 1,	328					negative regulation of transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transport	cell junction|Golgi apparatus|nucleus	ion channel inhibitor activity			ovary(1)	1		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00276)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GAATATGGCCATTACTCCTCT	0.423													4	63					0	0	1	0	0		G	15987346	G	G	15987346	3	3	27	1	0	0	0	0	1	0	0	0	13723	217	8	3	985	3	RSC1A1	1	15987346	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	153861	15987346	233263275	59	22410											
PLEKHM2	23207	broad.mit.edu	37	chr1	16056303	16056303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatgcaggttctttttggCttctttgaagtcagccatga	7	16	9	9	0	3	2	1	2	2	0	3	2	3	2	2	2	2	3	2	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:16056303C>T	uc010obo.1	+	14	2314	c.2087C>T	c.(2086-2088)GCT>GTT	p.A696V		NM_015164	NP_055979	Q8IWE5	PKHM2_HUMAN	pleckstrin homology domain containing, family M	696					Golgi organization	cytoplasm	kinesin binding			ovary(1)	1		Colorectal(325;0.000259)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00057)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		TTCTTTTTGGCTTCTTTGAAG	0.552													5	67					0	0	1	0	0		T	16056303	T	T	16056303	3	4	27	1	0	0	0	0	1	0	0	0	12100	797	28	2	2141	2	PLEKHM2	1	16056303	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	68957	16056303	233194318	60	22411											
FBLIM1	54751	broad.mit.edu	37	chr1	16095085	16095085	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatggaggaagagctgccAcctcccccggcagaacctgt	9	5	11	16	1	0	2	0	0	0	2	1	4	1	4	6	3	3	2	6	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:16095085A>G	uc001axd.1	+	6	944	c.501A>G	c.(499-501)CCA>CCG	p.P167P	FBLIM1_uc001axe.1_Silent_p.P167P|FBLIM1_uc001axf.2_RNA|FBLIM1_uc001axg.1_Silent_p.P167P|FBLIM1_uc001axh.1_Intron|FBLIM1_uc001axi.1_Intron	NM_017556	NP_060026	Q8WUP2	FBLI1_HUMAN	filamin-binding LIM protein-1 isoform a	167	Pro-rich.				cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytoskeleton|cytosol|focal adhesion|intracellular membrane-bounded organelle	zinc ion binding			skin(1)	1		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.56e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|READ - Rectum adenocarcinoma(331;0.0649)|STAD - Stomach adenocarcinoma(313;0.138)		AAGAGCTGCCACCTCCCCCGG	0.647													5	44					0	0	1	0	0		G	16095085	G	G	16095085	2	3	27	1	0	0	0	0	0	0	0	1	5711	146	6	3		3	FBLIM1	1	16095085	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	38782	16095085	233155536	61	22412											
SPEN	23013	broad.mit.edu	37	chr1	16263760	16263760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgccctcccagctcggtcagCccggccagccaccaagcagc	7	3	10	21	3	1	0	1	0	0	0	3	0	2	0	6	2	5	2	6	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:16263760C>T	uc001axk.1	+	12	10333	c.10129C>T	c.(10129-10131)CCC>TCC	p.P3377S	SPEN_uc010obp.1_Missense_Mutation_p.P3336S	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	3377	Pro-rich.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GCTCGGTCAGCCCGGCCAGCC	0.672													6	74					0	0	1	0	0		T	16263760	T	T	16263760	3	4	27	1	0	0	0	0	1	0	0	0	15063	739	26	2	10175	2	SPEN	1	16263760	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	168675	16263760	232986861	62	22413											
ZBTB17	7709	broad.mit.edu	37	chr1	16274869	16274869	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgctgcaggccgccagcActgctttatgagccttaaag	9	9	10	13	2	0	1	0	1	0	0	1	1	0	1	3	1	4	4	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:16274869A>T	uc001axl.3	-	3	361	c.122T>A	c.(121-123)GTG>GAG	p.V41E	ZBTB17_uc010obq.1_Intron|ZBTB17_uc010obr.1_Missense_Mutation_p.V41E|ZBTB17_uc010obs.1_5'UTR|ZBTB17_uc010obt.1_Missense_Mutation_p.V41E|ZBTB17_uc010obu.1_Intron|ZBTB17_uc009vom.1_Missense_Mutation_p.V41E|ZBTB17_uc010obv.1_Missense_Mutation_p.V41E|ZBTB17_uc009von.1_Missense_Mutation_p.V44E	NM_003443	NP_003434	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17	41	BTB.				negative regulation of cell cycle	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		GGCCGCCAGCACTGCTTTATG	0.577													4	54					0	0	1	0	0		T	16274869	T	T	16274869	3	4	27	1	0	0	0	0	1	0	0	0	17552	159	6	5	2345	5	ZBTB17	1	16274869	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11109	16274869	232975752	63	22414											
CLCNKB	1188	broad.mit.edu	37	chr1	16382999	16382999	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggctgcgtgtcctgggTggaggtaccagggtcccggg	3	9	20	9	2	0	0	0	0	0	0	2	1	2	1	3	6	2	2	3	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:16382999T>C	uc001axw.3	+	19	2092	c.2012T>C	c.(2011-2013)GTG>GCG	p.V671A	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Missense_Mutation_p.V671A|CLCNKB_uc001axy.3_Missense_Mutation_p.V501A	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1	671	CBS 2.				excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		GTGTCCTGGGTGGAGGTACCA	0.622											OREG0013133	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	172					0	0	1	0	0		C	16382999	C	C	16382999	3	2	27	1	0	0	0	0	1	0	0	0	3473	1696	59	3	2230	3	CLCNKB	1	16382999	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	108130	16382999	232867622	64	22415											
ARHGEF19	128272	broad.mit.edu	37	chr1	16529008	16529008	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccctgcagcttcaggcTcaggtcccgcacctgcagct	6	8	11	16	1	2	0	2	0	0	0	3	1	3	0	3	2	5	6	3	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:16529008T>G	uc001ayc.1	-	13	2106	c.1969A>C	c.(1969-1971)AGC>CGC	p.S657R	ARHGEF19_uc009voo.1_Missense_Mutation_p.S10R|ARHGEF19_uc001ayb.1_Missense_Mutation_p.S134R	NM_153213	NP_694945	Q8IW93	ARHGJ_HUMAN	Rho guanine nucleotide exchange factor (GEF) 19	657	PH.				regulation of actin cytoskeleton organization	intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|Colorectal(212;3.48e-07)|COAD - Colon adenocarcinoma(227;2.19e-05)|BRCA - Breast invasive adenocarcinoma(304;9.46e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.0117)|READ - Rectum adenocarcinoma(331;0.0649)		AGCTTCAGGCTCAGGTCCCGC	0.667													7	65					0	0	1	0	0		G	16529008	G	G	16529008	3	3	27	1	0	0	0	0	1	0	0	0	902	1551	54	5	455	5	ARHGEF19	1	16529008	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	146009	16529008	232721613	65	22416											
CROCC	9696	broad.mit.edu	37	chr1	17257788	17257788	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatgtcttccctccagtcCttcaacgcctacttcagcaa	8	11	6	16	1	3	0	2	0	1	0	6	0	6	0	4	1	3	2	4	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:17257788C>A	uc001azt.2	+	8	921	c.852C>A	c.(850-852)TCC>TCA	p.S284S	CROCC_uc009voy.1_Intron|CROCC_uc009voz.1_Silent_p.S47S	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	284					cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		CCCTCCAGTCCTTCAACGCCT	0.617													4	93					0.00116845	0.00121513	1	1	0		A	17257788	A	A	17257788	2	1	27	1	0	0	0	0	0	0	0	1	3896	668	24	5		5	CROCC	1	17257788	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	728780	17257788	231992833	66	22417											
ATP13A2	23400	broad.mit.edu	37	chr1	17313105	17313105	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaggacggagctcaggagCgccagggccaccaggaaggg	11	1	17	12	2	1	0	1	0	0	0	1	4	1	4	4	6	2	1	4	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:17313105C>A	uc001baa.2	-	28	3448	c.3258G>T	c.(3256-3258)GCG>GCT	p.A1086A	ATP13A2_uc001azz.1_Intron|ATP13A2_uc001bab.2_Silent_p.A1081A|ATP13A2_uc001bac.2_Intron	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	1086	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		AGCTCAGGAGCGCCAGGGCCA	0.687													7	18					0.00198382	0.00205548	1	1	0		A	17313105	A	A	17313105	2	1	27	1	0	0	0	0	0	0	0	1	1125	755	27	5		5	ATP13A2	1	17313105	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	55317	17313105	231937516	67	22418											
ATP13A2	23400	broad.mit.edu	37	chr1	17316648	17316648	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccattcacggctgtgggggActccatcggcaggaactcga	8	7	14	12	3	1	0	1	0	0	0	4	3	2	2	2	5	1	2	2	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:17316648A>G	uc001baa.2	-	21	2576	c.2386T>C	c.(2386-2388)TCC>CCC	p.S796P	ATP13A2_uc001azz.1_5'Flank|ATP13A2_uc001bab.2_Missense_Mutation_p.S791P|ATP13A2_uc001bac.2_Missense_Mutation_p.S791P	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	796	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		GCTGTGGGGGACTCCATCGGC	0.642													4	49					0	0	1	0	0		G	17316648	G	G	17316648	3	3	27	1	0	0	0	0	1	0	0	0	1125	275	10	3	1428	3	ATP13A2	1	17316648	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3543	17316648	231933973	68	22419											
SDHB	6390	broad.mit.edu	37	chr1	17354302	17354302	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgccttcctgagattcaTccttcttcttcaaataaggc	8	15	6	12	0	4	1	2	1	2	1	6	2	6	1	3	1	1	1	3	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:17354302T>C	uc001bae.2	-	5	633	c.482A>G	c.(481-483)GAT>GGT	p.D161G		NM_003000	NP_002991	P21912	DHSB_HUMAN	succinate dehydrogenase complex, subunit B, iron	161					respiratory electron transport chain|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	2 iron, 2 sulfur cluster binding|3 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|protein binding|succinate dehydrogenase (ubiquinone) activity|ubiquinone binding			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0049)|COAD - Colon adenocarcinoma(227;1.18e-05)|BRCA - Breast invasive adenocarcinoma(304;2.41e-05)|Kidney(64;0.000188)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)	Succinic acid(DB00139)	CTGAGATTCATCCTTCTTCTT	0.323			Mis|N|F			paraganglioma|pheochromocytoma			Familial_Paragangliomas|Carney-Stratakis_syndrome|Cowden_syndrome				7	64					0	0	1	0	0		C	17354302	C	C	17354302	3	2	27	1	0	0	0	0	1	0	0	0	13990	1435	50	3	376	3	SDHB	1	17354302	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37654	17354302	231896319	69	22420											
PADI2	11240	broad.mit.edu	37	chr1	17410313	17410313	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcttcacctctttcaggaAcaggtaattatccttcatgc	9	15	6	11	0	5	0	3	0	2	0	6	1	6	1	2	2	2	2	2	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:17410313A>T	uc001baf.2	-	9	1040	c.958T>A	c.(958-960)TTC>ATC	p.F320I	PADI2_uc010ocm.1_Missense_Mutation_p.F204I|PADI2_uc001bag.1_Missense_Mutation_p.F320I	NM_007365	NP_031391	Q9Y2J8	PADI2_HUMAN	peptidyl arginine deiminase, type II	320					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(3)|pancreas(1)|central_nervous_system(1)|skin(1)	6		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000422)|Renal(390;0.000518)|all_lung(284;0.000546)|Ovarian(437;0.00671)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;1.49e-05)|COAD - Colon adenocarcinoma(227;1.54e-05)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)	L-Citrulline(DB00155)	TCTTTCAGGAACAGGTAATTA	0.522													10	134					0	0	1	0	0		T	17410313	T	T	17410313	3	4	27	1	0	0	0	0	1	0	0	0	11397	43	2	5	1071	5	PADI2	1	17410313	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	56011	17410313	231840308	70	22421											
PADI3	51702	broad.mit.edu	37	chr1	17596816	17596816	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttgcatggggatgaggaGcgcttcttcgtggaaggcct	6	10	16	9	3	1	1	0	1	1	0	2	4	1	4	1	5	2	3	1	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:17596816G>A	uc001bai.2	+	7	781	c.741G>A	c.(739-741)GAG>GAA	p.E247E		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	247					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	GGGATGAGGAGCGCTTCTTCG	0.577													8	78					0	0	1	0	0		A	17596816	A	A	17596816	2	1	27	1	0	0	0	0	0	0	0	1	11398	962	34	2		2	PADI3	1	17596816	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	186503	17596816	231653805	71	22422											
PADI3	51702	broad.mit.edu	37	chr1	17609396	17609396	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaagccctttgggcccaTcatcaatggctgctgctgcc	6	9	9	17	0	2	0	2	0	0	0	2	0	2	0	5	2	4	3	5	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:17609396T>A	uc001bai.2	+	16	1857	c.1817T>A	c.(1816-1818)ATC>AAC	p.I606N		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	606					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	TTTGGGCCCATCATCAATGGC	0.602													4	20					0	0	1	0	0		A	17609396	A	A	17609396	3	1	27	1	0	0	0	0	1	0	0	0	11398	1435	50	5	1879	5	PADI3	1	17609396	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12580	17609396	231641225	72	22423											
PADI6	353238	broad.mit.edu	37	chr1	17720850	17720850	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaccataaagtggccagcAtggattccattgggaacctg	12	8	12	9	0	0	0	0	0	0	0	1	3	1	3	4	4	2	1	4	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:17720850A>G	uc001bak.1	+	12	1237	c.1237A>G	c.(1237-1239)ATG>GTG	p.M413V		NM_207421	NP_997304	Q6TGC4	PADI6_HUMAN	peptidylarginine deiminase type 6	405					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;7.59e-06)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.0134)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	AGTGGCCAGCATGGATTCCAT	0.572													6	31					0	0	1	0	0		G	17720850	G	G	17720850	3	3	27	1	0	0	0	0	1	0	0	0	11400	217	8	3	1280	3	PADI6	1	17720850	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	111454	17720850	231529771	73	22424											
RCC2	55920	broad.mit.edu	37	chr1	17747324	17747324	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctggccgttgtacattaTctgaaaagacaagaaaggag	14	9	12	6	1	1	3	0	1	1	2	1	4	1	4	1	3	1	3	1	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:17747324T>G	uc001bal.2	-	6	792	c.745A>C	c.(745-747)ATA>CTA	p.I249L	RCC2_uc001bam.2_Missense_Mutation_p.I249L	NM_001136204	NP_001129676	Q9P258	RCC2_HUMAN	regulator of chromosome condensation 2	249	RCC1 3.				cell division|mitotic prometaphase	chromosome, centromeric region|cytosol|microtubule|nucleolus|spindle					0		Colorectal(325;0.000147)|Breast(348;0.00122)|Renal(390;0.00145)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;7.69e-06)|COAD - Colon adenocarcinoma(227;1.19e-05)|Kidney(64;0.000189)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.0135)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)		TTGTACATTATCTGAAAAGAC	0.408													9	55					0	0	1	0	0		G	17747324	G	G	17747324	3	3	27	1	0	0	0	0	1	0	0	0	13199	1449	50	5	851	5	RCC2	1	17747324	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	26474	17747324	231503297	74	22425											
RCC2	55920	broad.mit.edu	37	chr1	17749252	17749252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgcagacacaatcacttCgtggctaagaccctcgatga	11	9	9	12	2	1	3	1	1	0	2	3	4	1	3	1	1	2	3	1	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:17749252C>T	uc001bal.2	-	4	651	c.604G>A	c.(604-606)GAA>AAA	p.E202K	RCC2_uc001bam.2_Missense_Mutation_p.E202K	NM_001136204	NP_001129676	Q9P258	RCC2_HUMAN	regulator of chromosome condensation 2	202	RCC1 2.				cell division|mitotic prometaphase	chromosome, centromeric region|cytosol|microtubule|nucleolus|spindle					0		Colorectal(325;0.000147)|Breast(348;0.00122)|Renal(390;0.00145)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;7.69e-06)|COAD - Colon adenocarcinoma(227;1.19e-05)|Kidney(64;0.000189)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.0135)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)		ACAATCACTTCGTGGCTAAGA	0.557													17	59					0	0	1	0	0		T	17749252	T	T	17749252	3	4	27	1	0	0	0	0	1	0	0	0	13199	893	31	1	1000	1	RCC2	1	17749252	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1928	17749252	231501369	75	22426											
ARHGEF10L	55160	broad.mit.edu	37	chr1	18021710	18021710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagggtctgctctgggtggGcactgaccagggtgtcatcg	5	9	16	11	1	3	1	1	1	2	0	4	1	3	1	2	4	1	2	2	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:18021710G>A	uc001ban.2	+	28	3401	c.3242G>A	c.(3241-3243)GGC>GAC	p.G1081D	ARHGEF10L_uc001bao.2_Missense_Mutation_p.G1042D|ARHGEF10L_uc001bap.2_Missense_Mutation_p.G1037D|ARHGEF10L_uc001baq.2_Missense_Mutation_p.G842D|ARHGEF10L_uc010ocs.1_Missense_Mutation_p.G854D|ARHGEF10L_uc001bar.2_Missense_Mutation_p.G784D|ARHGEF10L_uc009vpf.2_RNA|ARHGEF10L_uc001bas.2_Missense_Mutation_p.G105D	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	1081					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		CTCTGGGTGGGCACTGACCAG	0.632													6	56					0	0	1	0	0		A	18021710	A	A	18021710	3	1	27	1	0	0	0	0	1	0	0	0	895	1203	42	2	3348	2	ARHGEF10L	1	18021710	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	272458	18021710	231228911	76	22427											
UBR4	23352	broad.mit.edu	37	chr1	19403330	19403330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcttcgtagatgggcatgtCgttgtggcggatgtactcag	7	12	15	7	3	1	1	1	0	0	1	3	2	1	2	0	3	2	5	0	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:19403330C>T	uc001bbi.2	-	105	15395	c.15391G>A	c.(15391-15393)GAC>AAC	p.D5131N	UBR4_uc001bbe.1_5'Flank|UBR4_uc001bbf.2_Missense_Mutation_p.D26N|UBR4_uc010ocv.1_Missense_Mutation_p.D654N|UBR4_uc009vph.2_Missense_Mutation_p.D786N|UBR4_uc010ocw.1_Missense_Mutation_p.D795N|UBR4_uc001bbg.2_Missense_Mutation_p.D842N|UBR4_uc001bbh.2_Missense_Mutation_p.D840N	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	5131					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		ATGGGCATGTCGTTGTGGCGG	0.547													9	124					0	0	1	0	0		T	19403330	T	T	19403330	3	4	27	1	0	0	0	0	1	0	0	0	16930	884	31	1	168	1	UBR4	1	19403330	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1381620	19403330	229847291	77	22428											
UBR4	23352	broad.mit.edu	37	chr1	19415355	19415355	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcaatcttcttgtttacGtcagggtgttcccgcagggc	5	13	12	11	3	4	0	2	0	2	0	5	0	5	0	1	2	1	3	1	2	2	5	rs139905088		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:19415355G>A	uc001bbi.2	-	98	14332	c.14328C>T	c.(14326-14328)GAC>GAT	p.D4776D	UBR4_uc010ocv.1_Silent_p.D299D|UBR4_uc009vph.2_Silent_p.D410D|UBR4_uc010ocw.1_Silent_p.D440D|UBR4_uc001bbg.2_Silent_p.D487D|UBR4_uc001bbh.2_Silent_p.D485D	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	4776					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TCTTGTTTACGTCAGGGTGTT	0.597													4	93					0	0	1	0	0		A	19415355	A	A	19415355	2	1	27	1	0	0	0	0	0	0	0	1	16930	1136	40	1		1	UBR4	1	19415355	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	12025	19415355	229835266	78	22429											
UBR4	23352	broad.mit.edu	37	chr1	19440266	19440266	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgagccaactgcaggatgTaacgattcacactggcagaa	13	7	10	11	1	1	2	1	1	0	1	1	4	1	3	2	2	4	3	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:19440266T>C	uc001bbi.2	-	77	11388	c.11384A>G	c.(11383-11385)TAC>TGC	p.Y3795C	UBR4_uc001bbj.1_3'UTR	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3795					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CTGCAGGATGTAACGATTCAC	0.522											OREG0013168	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	135					0	0	1	0	0		C	19440266	C	C	19440266	3	2	27	1	0	0	0	0	1	0	0	0	16930	1638	57	3	4287	3	UBR4	1	19440266	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	24911	19440266	229810355	79	22430											
UBR4	23352	broad.mit.edu	37	chr1	19447850	19447850	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgctgccgcacagagcaCaggagagcagttgcagcagc	10	5	13	13	1	0	2	0	0	0	2	0	3	0	2	2	1	7	7	2	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:19447850C>A	uc001bbi.2	-	68	9978	c.9974G>T	c.(9973-9975)TGT>TTT	p.C3325F	UBR4_uc001bbk.1_Missense_Mutation_p.C972F	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3325					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GCACAGAGCACAGGAGAGCAG	0.602													13	57					1.5842e-08	1.74315e-08	1	1	0		A	19447850	A	A	19447850	3	1	27	1	0	0	0	0	1	0	0	0	16930	478	17	5	5733	5	UBR4	1	19447850	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7584	19447850	229802771	80	22431											
UBR4	23352	broad.mit.edu	37	chr1	19467907	19467907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtctcgtcatctgcatcagGtgggatgtccagcatggggg	6	10	16	9	1	4	0	2	0	2	0	6	1	5	1	1	5	2	2	1	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:19467907G>A	uc001bbi.2	-	57	8426	c.8422C>T	c.(8422-8424)CCT>TCT	p.P2808S	UBR4_uc001bbk.1_Missense_Mutation_p.P490S	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2808					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TCTGCATCAGGTGGGATGTCC	0.587													7	67					0	0	1	0	0		A	19467907	A	A	19467907	3	1	27	1	0	0	0	0	1	0	0	0	16930	1261	44	4	7329	4	UBR4	1	19467907	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20057	19467907	229782714	81	22432											
UBR4	23352	broad.mit.edu	37	chr1	19480342	19480342	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactaccagcggcacccctgTagtttgctggacacagcaca	11	7	9	14	1	0	0	0	0	0	0	0	1	0	1	3	2	5	5	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:19480342T>C	uc001bbi.2	-	45	6554	c.6550A>G	c.(6550-6552)ACA>GCA	p.T2184A	UBR4_uc001bbk.1_5'Flank|UBR4_uc001bbl.1_Missense_Mutation_p.T121A|UBR4_uc001bbm.1_Missense_Mutation_p.T1396A	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2184					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GGCACCCCTGTAGTTTGCTGG	0.502													8	118					0	0	1	0	0		C	19480342	C	C	19480342	3	2	27	1	0	0	0	0	1	0	0	0	16930	1638	57	3	9249	3	UBR4	1	19480342	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12435	19480342	229770279	82	22433											
KIAA0090	23065	broad.mit.edu	37	chr1	19566468	19566468	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaatccacttccaaattcTaagtcgagagactggaaggc	13	9	10	9	1	1	1	0	0	1	1	4	5	3	3	2	3	0	0	2	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:19566468T>C	uc001bbo.2	-	8	841	c.798A>G	c.(796-798)TTA>TTG	p.L266L	KIAA0090_uc001bbp.2_Silent_p.L266L|KIAA0090_uc001bbq.2_Silent_p.L266L|KIAA0090_uc001bbr.2_Silent_p.L244L	NM_015047	NP_055862	Q8N766	K0090_HUMAN	hypothetical protein LOC23065 precursor	266	Extracellular (Potential).					integral to membrane	protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|Breast(348;0.00366)|all_lung(284;0.00519)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;3.84e-05)|Kidney(64;0.000191)|KIRC - Kidney renal clear cell carcinoma(64;0.00274)|GBM - Glioblastoma multiforme(114;0.005)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0656)		TTCCAAATTCTAAGTCGAGAG	0.582													3	28					0	0	1	0	0		C	19566468	C	C	19566468	2	2	27	1	0	0	0	0	0	0	0	1	8169	1519	53	3		3	KIAA0090	1	19566468	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	86126	19566468	229684153	83	22434											
MRTO4	51154	broad.mit.edu	37	chr1	19584466	19584466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagctgggcctgcccaccGccctcaagagaggtatgggc	7	5	15	14	1	1	1	1	0	0	1	1	2	1	1	4	4	2	3	4	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:19584466G>A	uc001bbs.2	+	6	736	c.481G>A	c.(481-483)GCC>ACC	p.A161T		NM_016183	NP_057267	Q9UKD2	MRT4_HUMAN	mRNA turnover 4 homolog	161					ribosome biogenesis	nuclear membrane|nucleolus					0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.87e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|GBM - Glioblastoma multiforme(114;0.00301)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CCTGCCCACCGCCCTCAAGAG	0.577													4	66					0	0	1	0	0		A	19584466	A	A	19584466	3	1	27	1	0	0	0	0	1	0	0	0	9870	1087	38	1	503	1	MRTO4	1	19584466	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17998	19584466	229666155	84	22435											
AKR7A2	8574	broad.mit.edu	37	chr1	19633822	19633822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgtaccagccagagggttgTaggcatagaacctcagtcca	12	7	11	11	1	1	2	1	0	0	2	2	2	2	2	4	2	3	4	4	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:19633822T>C	uc001bbw.2	-	4	696	c.674A>G	c.(673-675)TAC>TGC	p.Y225C	AKR7A2_uc001bbx.2_Missense_Mutation_p.Y190C	NM_003689	NP_003680	O43488	ARK72_HUMAN	aldo-keto reductase family 7, member A2	225					carbohydrate metabolic process|cellular aldehyde metabolic process	Golgi apparatus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00461)|BRCA - Breast invasive adenocarcinoma(304;1.83e-05)|Kidney(64;0.000167)|GBM - Glioblastoma multiforme(114;0.00115)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CAGAGGGTTGTAGGCATAGAA	0.582													5	61					0	0	1	0	0		C	19633822	C	C	19633822	3	2	27	1	0	0	0	0	1	0	0	0	475	1638	57	3	421	3	AKR7A2	1	19633822	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	49356	19633822	229616799	85	22436											
PQLC2	54896	broad.mit.edu	37	chr1	19653883	19653883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctggcttgtgggcagcctgGgcgtgctgctgctcgacacc	3	9	15	14	2	0	0	0	0	0	0	1	1	0	0	3	3	4	5	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:19653883G>A	uc001bby.2	+	8	1133	c.781G>A	c.(781-783)GGC>AGC	p.G261S	PQLC2_uc001bbz.2_Missense_Mutation_p.G196S|PQLC2_uc001bca.2_Missense_Mutation_p.G261S|PQLC2_uc001bcb.2_Missense_Mutation_p.G150S|PQLC2_uc001bcc.2_Missense_Mutation_p.G150S	NM_017765	NP_060235	Q6ZP29	PQLC2_HUMAN	PQ loop repeat containing 2 isoform 1	261	Helical; (Potential).					integral to membrane					0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;1.89e-05)|Kidney(64;0.000177)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GGGCAGCCTGGGCGTGCTGCT	0.652													6	42					0	0	1	0	0		A	19653883	A	A	19653883	3	1	27	1	0	0	0	0	1	0	0	0	12441	1232	43	4	803	4	PQLC2	1	19653883	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20061	19653883	229596738	86	22437											
PQLC2	54896	broad.mit.edu	37	chr1	19655099	19655099	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggtgtacaggcgcagcAccgccgcctcggagcttgag	6	7	14	14	4	0	1	0	1	0	0	2	2	1	2	4	3	3	4	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:19655099A>G	uc001bby.2	+	9	1190	c.838A>G	c.(838-840)ACC>GCC	p.T280A	PQLC2_uc001bbz.2_Missense_Mutation_p.T215A|PQLC2_uc001bca.2_Missense_Mutation_p.T280A|PQLC2_uc001bcb.2_Missense_Mutation_p.T169A|PQLC2_uc001bcc.2_Missense_Mutation_p.T169A	NM_017765	NP_060235	Q6ZP29	PQLC2_HUMAN	PQ loop repeat containing 2 isoform 1	280	Cytoplasmic (Potential).					integral to membrane					0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;1.89e-05)|Kidney(64;0.000177)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CAGGCGCAGCACCGCCGCCTC	0.672													3	24					0	0	1	0	0		G	19655099	G	G	19655099	3	3	27	1	0	0	0	0	1	0	0	0	12441	159	6	3	864	3	PQLC2	1	19655099	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1216	19655099	229595522	87	22438											
CAPZB	832	broad.mit.edu	37	chr1	19683914	19683914	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accagctgctgggaggcagtAcctgcacttctaccacgtgg	8	8	12	13	1	1	0	0	0	1	0	1	1	1	1	3	3	5	5	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:19683914A>G	uc010ocz.1	-	5	986	c.558_splice	c.e5+1	p.Q186_splice	CAPZB_uc001bce.2_Splice_Site_p.Q157_splice|CAPZB_uc009vpk.2_Splice_Site_p.Q183_splice|CAPZB_uc001bcd.2_Splice_Site_p.Q145_splice	NM_004930	NP_004921	P47756	CAPZB_HUMAN	F-actin capping protein beta subunit						actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement	cytosol|F-actin capping protein complex|WASH complex	actin binding				0		Colorectal(325;3.93e-05)|Renal(390;0.000147)|all_lung(284;0.000169)|Lung NSC(340;0.000202)|Breast(348;0.000496)|Ovarian(437;0.00428)|Myeloproliferative disorder(586;0.0262)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Kidney(64;8.63e-06)|BRCA - Breast invasive adenocarcinoma(304;4.06e-05)|KIRC - Kidney renal clear cell carcinoma(64;0.000175)|GBM - Glioblastoma multiforme(114;0.000525)|STAD - Stomach adenocarcinoma(196;0.00779)|READ - Rectum adenocarcinoma(331;0.103)|Lung(427;0.173)		GGGAGGCAGTACCTGCACTTC	0.547													3	61					0	0	1	0	0		G	19683914	G	G	19683914	5	3	27	1	0	0	0	0	0	0	1	0	2646	405	14	3	365	3	CAPZB	1	19683914	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	28815	19683914	229566707	88	22439											
PLA2G2C	391013	broad.mit.edu	37	chr1	20490512	20490512	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcttatgtctgccacacCtgggctggctggagaactgc	7	9	14	11	0	1	1	0	0	1	1	1	2	1	1	2	4	3	3	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:20490512C>A	uc009vpq.1	-	3	425	c.425G>T	c.(424-426)AGG>ATG	p.R142M		NM_001105572	NP_001099042			phospholipase A2, group IIC precursor												0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.14e-05)|BRCA - Breast invasive adenocarcinoma(304;8.01e-05)|Kidney(64;0.000171)|GBM - Glioblastoma multiforme(114;0.000528)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TCTGCCACACCTGGGCTGGCT	0.393													4	25					1.23904e-05	1.32877e-05	1	1	0		A	20490512	A	A	20490512	3	1	27	1	0	0	0	0	1	0	0	0	12015	681	24	5	31	5	PLA2G2C	1	20490512	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	806598	20490512	228760109	89	22440											
KIF17	57576	broad.mit.edu	37	chr1	20998558	20998558	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtccctgcgaatcaggggCtgcacctgctccaggagctg	7	7	13	14	1	1	0	1	0	0	0	3	2	3	1	3	3	4	4	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:20998558C>T	uc001bdr.3	-	12	2713	c.2595G>A	c.(2593-2595)CAG>CAA	p.Q865Q	KIF17_uc001bdp.3_Silent_p.Q143Q|KIF17_uc001bdq.3_Silent_p.Q143Q|KIF17_uc009vpx.2_Silent_p.Q235Q|KIF17_uc001bds.3_Silent_p.Q865Q	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	865					microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		GAATCAGGGGCTGCACCTGCT	0.572													4	73					0	0	1	0	0		T	20998558	T	T	20998558	2	4	27	1	0	0	0	0	0	0	0	1	8295	796	28	2		2	KIF17	1	20998558	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	508046	20998558	228252063	90	22441											
KIF17	57576	broad.mit.edu	37	chr1	21044008	21044008	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctcgttgtagatctgctcGgtgacgtggtccacgtggta	6	13	13	9	4	2	2	0	1	2	1	5	2	3	2	1	3	1	4	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:21044008G>A	uc001bdr.3	-	1	310	c.192C>T	c.(190-192)ACC>ACT	p.T64T	KIF17_uc001bds.3_Silent_p.T64T	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	64	Kinesin-motor.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		AGATCTGCTCGGTGACGTGGT	0.711													7	67					0	0	1	0	0		A	21044008	A	A	21044008	2	1	27	1	0	0	0	0	0	0	0	1	8295	1103	39	1		1	KIF17	1	21044008	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	45450	21044008	228206613	91	22442											
HP1BP3	50809	broad.mit.edu	37	chr1	21097562	21097562	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcaccactcttctggaagCatgcctagaaaagatttatt	13	12	7	9	0	2	2	0	0	2	2	2	3	2	3	2	1	3	2	2	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:21097562C>A	uc001bdw.1	-	6	655	c.515G>T	c.(514-516)TGC>TTC	p.C172F	HP1BP3_uc001bdv.1_Missense_Mutation_p.C134F|HP1BP3_uc010odh.1_Missense_Mutation_p.C134F|HP1BP3_uc001bdy.1_Missense_Mutation_p.C172F|HP1BP3_uc001bdz.2_RNA|HP1BP3_uc001bea.2_Missense_Mutation_p.C171F|HP1BP3_uc010odg.1_Missense_Mutation_p.C20F	NM_016287	NP_057371	Q5SSJ5	HP1B3_HUMAN	HP1-BP74	172	H15 1.				nucleosome assembly	nucleosome|nucleus	DNA binding			central_nervous_system(1)|skin(1)	2		all_lung(284;6.55e-06)|Lung NSC(340;6.59e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.26e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00015)|GBM - Glioblastoma multiforme(114;0.000521)|Kidney(64;0.000529)|STAD - Stomach adenocarcinoma(196;0.00311)|KIRC - Kidney renal clear cell carcinoma(64;0.00687)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.201)		CTTCTGGAAGCATGCCTAGAA	0.328													7	86					5.4927e-09	6.05217e-09	1	1	0		A	21097562	A	A	21097562	3	1	27	1	0	0	0	0	1	0	0	0	7344	710	25	5	1178	5	HP1BP3	1	21097562	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	53554	21097562	228153059	92	22443											
EIF4G3	8672	broad.mit.edu	37	chr1	21144005	21144005	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcttcagaggaacagggActgtcagactctatgaagtc	12	9	12	8	0	3	3	2	1	1	2	4	5	3	5	0	2	2	1	0	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:21144005A>T	uc001bec.2	-	29	4483	c.4227T>A	c.(4225-4227)AGT>AGA	p.S1409R	EIF4G3_uc010odi.1_Missense_Mutation_p.S1013R|EIF4G3_uc010odj.1_Missense_Mutation_p.S1408R|EIF4G3_uc009vpz.2_Missense_Mutation_p.S1129R|EIF4G3_uc001bed.2_Missense_Mutation_p.S1409R|EIF4G3_uc001bef.2_Missense_Mutation_p.S1445R|EIF4G3_uc001bee.2_Missense_Mutation_p.S1415R	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	1409					interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		AGGAACAGGGACTGTCAGACT	0.368													8	62					0	0	1	0	0		T	21144005	T	T	21144005	3	4	27	1	0	0	0	0	1	0	0	0	5046	272	10	5	546	5	EIF4G3	1	21144005	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	46443	21144005	228106616	93	22444											
EIF4G3	8672	broad.mit.edu	37	chr1	21226422	21226422	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actttgtcaatggaaagctcCtcttcagctttaagctaaat	12	14	6	9	0	3	0	2	0	1	0	4	1	4	1	1	1	3	3	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:21226422C>A	uc001bec.2	-	11	1855	c.1599G>T	c.(1597-1599)GAG>GAT	p.E533D	EIF4G3_uc010odi.1_Missense_Mutation_p.E137D|EIF4G3_uc010odj.1_Missense_Mutation_p.E532D|EIF4G3_uc009vpz.2_Missense_Mutation_p.E253D|EIF4G3_uc001bed.2_Missense_Mutation_p.E533D|EIF4G3_uc001bef.2_Missense_Mutation_p.E532D|EIF4G3_uc001bee.2_Missense_Mutation_p.E539D	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	533					interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		TGGAAAGCTCCTCTTCAGCTT	0.363													14	153					0.000219431	0.00023168	1	1	0		A	21226422	A	A	21226422	3	1	27	1	0	0	0	0	1	0	0	0	5046	680	24	5	3246	5	EIF4G3	1	21226422	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	82417	21226422	228024199	94	22445											
ALPL	249	broad.mit.edu	37	chr1	21887136	21887136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagaaagagaaagaccccAagtactggcgagaccaagcg	17	3	12	9	2	0	4	0	0	0	4	0	7	0	4	3	1	2	1	3	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:21887136A>G	uc001bet.2	+	3	336	c.79A>G	c.(79-81)AAG>GAG	p.K27E	ALPL_uc010odn.1_5'UTR|ALPL_uc010odo.1_5'UTR|ALPL_uc010odp.1_5'UTR|ALPL_uc001beu.3_Missense_Mutation_p.K27E	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase	27					response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	GAAAGACCCCAAGTACTGGCG	0.502													8	103					0	0	1	0	0		G	21887136	G	G	21887136	3	3	27	1	0	0	0	0	1	0	0	0	547	131	5	3	85	3	ALPL	1	21887136	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	660714	21887136	227363485	95	22446											
RAP1GAP	5909	broad.mit.edu	37	chr1	21934800	21934800	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggactggctgtggatgtgtAgttcctcatagagcgtctcc	6	13	13	9	1	2	1	1	0	1	1	4	3	3	3	2	3	1	3	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:21934800A>G	uc001bex.2	-	17	1460	c.1202T>C	c.(1201-1203)CTA>CCA	p.L401P	RAP1GAP_uc001bev.2_Missense_Mutation_p.L401P|RAP1GAP_uc001bew.2_Missense_Mutation_p.L465P|RAP1GAP_uc001bey.2_Missense_Mutation_p.L401P	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	401					regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		GTGGATGTGTAGTTCCTCATA	0.647													5	59					0	0	1	0	0		G	21934800	G	G	21934800	3	3	27	1	0	0	0	0	1	0	0	0	13062	420	15	3	903	3	RAP1GAP	1	21934800	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	47664	21934800	227315821	96	22447											
USP48	84196	broad.mit.edu	37	chr1	22073615	22073615	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgagaagccaatgtaggtAttcagctttttcttatgtcc	9	16	8	8	0	3	1	1	1	2	1	4	2	4	1	2	1	2	3	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:22073615A>G	uc001bfb.2	-	8	1174	c.936T>C	c.(934-936)AAT>AAC	p.N312N	USP48_uc010odq.1_Silent_p.N312N|USP48_uc009vqc.2_Silent_p.N312N|USP48_uc001bfc.2_Silent_p.N312N|USP48_uc001bfe.1_Silent_p.N312N|USP48_uc001bff.2_Silent_p.N312N	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	312					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		CAATGTAGGTATTCAGCTTTT	0.313													3	58					0	0	1	0	0		G	22073615	G	G	22073615	2	3	27	1	0	0	0	0	0	0	0	1	17105	446	16	3		3	USP48	1	22073615	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	138815	22073615	227177006	97	22448											
LDLRAD2	401944	broad.mit.edu	37	chr1	22147988	22147988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggaagtacagatgcccataCctccagatccctgactccct	11	8	7	15	0	0	3	0	1	0	2	3	4	3	4	5	1	3	1	5	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:22147988C>T	uc001bfg.1	+	4	876	c.689C>T	c.(688-690)ACC>ATC	p.T230I	LDLRAD2_uc001bfh.1_RNA	NM_001013693	NP_001013715	Q5SZI1	LRAD2_HUMAN	low density lipoprotein receptor class A domain	230	Extracellular (Potential).					integral to membrane	receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.00166)|all_lung(284;0.00172)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;5.2e-26)|COAD - Colon adenocarcinoma(152;1.13e-05)|GBM - Glioblastoma multiforme(114;1.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00598)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)		GATGCCCATACCTCCAGATCC	0.587													5	71					0	0	1	0	0		T	22147988	T	T	22147988	3	4	27	1	0	0	0	0	1	0	0	0	8722	507	18	4	703	4	LDLRAD2	1	22147988	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	74373	22147988	227102633	98	22449											
HSPG2	3339	broad.mit.edu	37	chr1	22150131	22150131	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtagacgctgcccttggcGttgactgccacgttgggacc	6	10	13	12	3	0	2	0	1	0	1	0	3	0	3	3	2	2	4	3	2	1	4	rs147161785		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:22150131G>A	uc001bfj.2	-	96	13021	c.12981C>T	c.(12979-12981)AAC>AAT	p.N4327N	LDLRAD2_uc001bfg.1_3'UTR|HSPG2_uc001bfi.2_Silent_p.N344N|HSPG2_uc009vqd.2_Silent_p.N4328N	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	4327	Laminin G-like 3.			N->A: Retains proper folding. Reduced calcium ion binding.	angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TGCCCTTGGCGTTGACTGCCA	0.652													29	75					0	0	1	0	0		A	22150131	A	A	22150131	2	1	27	1	0	0	0	0	0	0	0	1	7446	1136	40	1		1	HSPG2	1	22150131	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2143	22150131	227100490	99	22450											
HSPG2	3339	broad.mit.edu	37	chr1	22154901	22154901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgtaggtgaggtccagccGtttgccattcactgacacct	8	11	10	12	1	1	2	1	2	0	0	2	2	2	2	4	2	2	2	4	2	1	3	rs146179360	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:22154901G>A	uc001bfj.2	-	89	12296	c.12256C>T	c.(12256-12258)CGG>TGG	p.R4086W	HSPG2_uc001bfi.2_Missense_Mutation_p.R103W|HSPG2_uc009vqd.2_Missense_Mutation_p.R4087W	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	4086	Laminin G-like 2.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	AGGTCCAGCCGTTTGCCATTC	0.597													12	47					0	0	1	0	0		A	22154901	A	A	22154901	3	1	27	1	0	0	0	0	1	0	0	0	7446	1144	40	1	955	1	HSPG2	1	22154901	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4770	22154901	227095720	100	22451											
ZBTB40	9923	broad.mit.edu	37	chr1	22832620	22832620	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaatgactgaagagaagAcgctgactgctgagggtttg	13	8	14	6	1	0	7	0	4	0	3	0	8	0	7	0	1	1	3	0	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:22832620A>G	uc001bft.2	+	7	1757	c.1246A>G	c.(1246-1248)ACG>GCG	p.T416A	ZBTB40_uc001bfu.2_Missense_Mutation_p.T416A|ZBTB40_uc009vqi.1_Missense_Mutation_p.T304A|ZBTB40_uc001bfv.1_Missense_Mutation_p.T45A	NM_001083621	NP_001077090	Q9NUA8	ZBT40_HUMAN	zinc finger and BTB domain containing 40	416					bone mineralization|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.86e-26)|Colorectal(126;8.55e-08)|COAD - Colon adenocarcinoma(152;4.1e-06)|GBM - Glioblastoma multiforme(114;1.39e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000712)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.216)		TGAAGAGAAGACGCTGACTGC	0.478													5	61					0	0	1	0	0		G	22832620	G	G	22832620	3	3	27	1	0	0	0	0	1	0	0	0	17567	275	10	3	1264	3	ZBTB40	1	22832620	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	677719	22832620	226418001	101	22452											
EPHA8	2046	broad.mit.edu	37	chr1	22924701	22924701	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctctctggacaccttccTgagggtgcgtgtcccacccc	4	9	11	17	2	1	1	0	1	1	0	4	2	3	2	5	3	1	1	5	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:22924701T>C	uc001bfx.1	+	12	2299	c.2174T>C	c.(2173-2175)CTG>CCG	p.L725P		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	725	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GACACCTTCCTGAGGGTGCGT	0.627													6	77					0	0	1	0	0		C	22924701	C	C	22924701	3	2	27	1	0	0	0	0	1	0	0	0	5181	1580	55	3	2393	3	EPHA8	1	22924701	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	92081	22924701	226325920	102	22453											
C1QA	712	broad.mit.edu	37	chr1	22964157	22964157	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgtgtgctggccatatcGctggcctctatggtgaccga	5	12	12	12	2	2	1	0	1	2	0	3	2	2	1	3	3	1	2	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:22964157G>A	uc001bfy.2	+	2	133	c.48G>A	c.(46-48)TCG>TCA	p.S16S	C1QA_uc001bfz.2_Silent_p.S16S	NM_015991	NP_057075	P02745	C1QA_HUMAN	complement component 1, q subcomponent, A chain	16					cell-cell signaling|complement activation, classical pathway|innate immune response	collagen|complement component C1 complex					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.41e-27)|Colorectal(126;1.52e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.63e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000541)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TGGCCATATCGCTGGCCTCTA	0.652													15	39					0	0	1	0	0		A	22964157	A	A	22964157	2	1	27	1	0	0	0	0	0	0	0	1	1957	1074	38	1		1	C1QA	1	22964157	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39456	22964157	226286464	103	22454											
C1QC	714	broad.mit.edu	37	chr1	22974134	22974134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgtggccacacgtccaaaaCcaatcaggtcaactcgggcg	11	6	10	14	3	2	0	2	0	0	0	4	0	3	0	3	3	2	0	3	3	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:22974134C>T	uc001bgc.3	+	3	699	c.596C>T	c.(595-597)ACC>ATC	p.T199I	C1QC_uc001bga.3_Missense_Mutation_p.T199I|C1QC_uc001bgb.2_Missense_Mutation_p.T199I	NM_172369	NP_758957	P02747	C1QC_HUMAN	complement component 1, q subcomponent, C chain	199	C1q.				complement activation, classical pathway|innate immune response|negative regulation of granulocyte differentiation|negative regulation of macrophage differentiation	collagen					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.21e-27)|Colorectal(126;1.5e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.61e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000538)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.196)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	ACGTCCAAAACCAATCAGGTC	0.587													4	77					0	0	1	0	0		T	22974134	T	T	22974134	3	4	27	1	0	0	0	0	1	0	0	0	1960	507	18	4	602	4	C1QC	1	22974134	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9977	22974134	226276487	104	22455											
KDM1A	23028	broad.mit.edu	37	chr1	23405623	23405623	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgccacctctccctgagTggaaaacatctgcagtccaa	10	10	8	13	0	2	1	0	1	2	0	4	2	3	2	4	1	3	1	4	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:23405623T>C	uc001bgi.2	+	15	2085	c.1936T>C	c.(1936-1938)TGG>CGG	p.W646R	KDM1A_uc001bgj.2_Missense_Mutation_p.W670R	NM_015013	NP_055828	O60341	KDM1A_HUMAN	lysine-specific histone demethylase 1 isoform b	646	Demethylase activity.				blood coagulation|muscle cell development|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of protein binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin	androgen receptor binding|chromatin binding|enzyme binding|flavin adenine dinucleotide binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-K9 specific)|ligand-dependent nuclear receptor transcription coactivator activity|MyoD binding|oxidoreductase activity|p53 binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2						TCTCCCTGAGTGGAAAACATC	0.488													12	115					0	0	1	0	0		C	23405623	C	C	23405623	3	2	27	1	0	0	0	0	1	0	0	0	8138	1696	59	3	2074	3	KDM1A	1	23405623	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	431489	23405623	225844998	105	22456											
LUZP1	7798	broad.mit.edu	37	chr1	23420507	23420507	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacacagatcctctgctctcTtaatttcctcgtctttgcct	6	16	5	14	1	3	1	0	0	3	1	7	2	5	1	3	0	2	1	3	0	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:23420507T>A	uc001bgk.2	-	4	632	c.248A>T	c.(247-249)AAG>ATG	p.K83M	LUZP1_uc010odv.1_Missense_Mutation_p.K83M|LUZP1_uc001bgl.2_Missense_Mutation_p.K83M|LUZP1_uc001bgm.1_Missense_Mutation_p.K83M	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	83	Potential.					nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		CTCTGCTCTCTTAATTTCCTC	0.498													10	219					0	0	1	0	0		A	23420507	A	A	23420507	3	1	27	1	0	0	0	0	1	0	0	0	9104	1609	56	5	2990	5	LUZP1	1	23420507	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	14884	23420507	225830114	106	22457											
ASAP3	55616	broad.mit.edu	37	chr1	23758207	23758207	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctgaatctgacggggaggTacatctccgaaggggtggtc	9	8	15	9	2	2	2	0	2	2	0	4	4	2	3	2	6	1	1	2	6	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:23758207T>C	uc001bha.2	-	23	2652	c.2528A>G	c.(2527-2529)TAC>TGC	p.Y843C	ASAP3_uc001bgy.1_Missense_Mutation_p.Y347C|ASAP3_uc001bgz.1_RNA|ASAP3_uc010odz.1_Missense_Mutation_p.Y733C|ASAP3_uc010oea.1_Missense_Mutation_p.Y834C|ASAP3_uc001bhb.2_Intron	NM_017707	NP_060177	Q8TDY4	ASAP3_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	843					regulation of ARF GTPase activity	cytoplasm	ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						GACGGGGAGGTACATCTCCGA	0.423													9	97					0	0	1	0	0		C	23758207	C	C	23758207	3	2	27	1	0	0	0	0	1	0	0	0	1013	1638	57	3	195	3	ASAP3	1	23758207	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	337700	23758207	225492414	107	22458											
E2F2	1870	broad.mit.edu	37	chr1	23842920	23842920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagggtggaggtagaggggaGaggctcctcggaaggactgt	9	6	21	5	1	0	2	0	0	0	2	2	7	1	5	1	8	0	2	1	8	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:23842920G>A	uc001bhe.1	-	6	1380	c.952C>T	c.(952-954)CTC>TTC	p.L318F		NM_004091	NP_004082	Q14209	E2F2_HUMAN	E2F transcription factor 2	318					G1 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(2)|skin(2)	4		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.52e-24)|Colorectal(126;6.25e-08)|COAD - Colon adenocarcinoma(152;3.42e-06)|GBM - Glioblastoma multiforme(114;8.98e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00102)|KIRC - Kidney renal clear cell carcinoma(1967;0.00366)|STAD - Stomach adenocarcinoma(196;0.0132)|READ - Rectum adenocarcinoma(331;0.0652)|Lung(427;0.0888)|LUSC - Lung squamous cell carcinoma(448;0.19)		GTAGAGGGGAGAGGCTCCTCG	0.622													4	32					0	0	1	0	0		A	23842920	A	A	23842920	3	1	27	1	0	0	0	0	1	0	0	0	4873	942	33	4	369	4	E2F2	1	23842920	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	84713	23842920	225407701	108	22459											
TCEB3	6924	broad.mit.edu	37	chr1	24078489	24078489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaccaagtcagagaagcCggctggagctgatttagcca	14	6	11	10	1	1	2	1	1	0	1	1	4	1	3	3	2	4	2	3	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:24078489C>T	uc001bho.2	+	4	1532	c.1472C>T	c.(1471-1473)CCG>CTG	p.P491L		NM_003198	NP_003189	Q14241	ELOA1_HUMAN	elongin A	491					positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|viral reproduction	integral to membrane	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.42e-24)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;4.74e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|KIRC - Kidney renal clear cell carcinoma(1967;0.00334)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		TCAGAGAAGCCGGCTGGAGCT	0.488											OREG0013232	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	50					0	0	1	0	0		T	24078489	T	T	24078489	3	4	27	1	0	0	0	0	1	0	0	0	15706	652	23	1	1486	1	TCEB3	1	24078489	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	235569	24078489	225172132	109	22460											
TCEB3	6924	broad.mit.edu	37	chr1	24080852	24080852	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacctttggtttctctgcaGcaatctttgaagtgggagga	8	14	11	8	0	3	1	1	1	2	0	4	3	3	3	1	3	2	3	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:24080852G>T	uc001bho.2	+	7	1832	c.1772_splice	c.e7-1	p.S591_splice		NM_003198	NP_003189	Q14241	ELOA1_HUMAN	elongin A						positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|viral reproduction	integral to membrane	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.42e-24)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;4.74e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|KIRC - Kidney renal clear cell carcinoma(1967;0.00334)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		TTTCTCTGCAGCAATCTTTGA	0.478													11	136					3.86212e-05	4.11225e-05	1	1	0		T	24080852	T	T	24080852	5	4	27	1	0	0	0	0	0	0	1	0	15706	985	34	5	1797	5	TCEB3	1	24080852	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2363	24080852	225169769	110	22461											
C1orf128	57095	broad.mit.edu	37	chr1	24113772	24113772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattttcttgcagcttcgccGacacgaggtgaccatctgca	9	11	9	12	3	2	1	0	1	2	0	3	3	2	1	2	1	3	3	2	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:24113772G>A	uc001bhq.2	+	6	672	c.542G>A	c.(541-543)CGA>CAA	p.R181Q	C1orf128_uc010oeb.1_Missense_Mutation_p.R88Q	NM_020362	NP_065095	Q9GZP4	PITH1_HUMAN	chromosome 1 open reading frame 128	181	PITH.										0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.0034)|all_lung(284;0.00519)|Breast(348;0.0222)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0561)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;1.97e-24)|Colorectal(126;5.06e-08)|COAD - Colon adenocarcinoma(152;2.92e-06)|GBM - Glioblastoma multiforme(114;4.4e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|KIRC - Kidney renal clear cell carcinoma(1967;0.00322)|STAD - Stomach adenocarcinoma(196;0.0124)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0837)|LUSC - Lung squamous cell carcinoma(448;0.185)		CAGCTTCGCCGACACGAGGTG	0.498													14	51					0	0	1	0	0		A	24113772	A	A	24113772	3	1	27	1	0	0	0	0	1	0	0	0	1998	1058	37	1	564	1	C1orf128	1	24113772	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	32920	24113772	225136849	111	22462											
FUCA1	2517	broad.mit.edu	37	chr1	24175226	24175226	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgctcagccatttcccaAcagcaagaagcctttcttgg	10	11	8	12	0	2	2	1	1	1	1	3	2	3	2	3	1	5	2	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:24175226A>T	uc001bie.2	-	6	1118	c.1073T>A	c.(1072-1074)GTT>GAT	p.V358D		NM_000147	NP_000138	P04066	FUCO_HUMAN	fucosidase, alpha-L-1, tissue precursor	358					fucose metabolic process|glycosaminoglycan catabolic process	lysosome	alpha-L-fucosidase activity|cation binding			breast(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.00957)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.11e-24)|Colorectal(126;5.69e-08)|COAD - Colon adenocarcinoma(152;3.15e-06)|GBM - Glioblastoma multiforme(114;9.04e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|KIRC - Kidney renal clear cell carcinoma(1967;0.00342)|STAD - Stomach adenocarcinoma(196;0.0128)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.144)		CCATTTCCCAACAGCAAGAAG	0.463													4	61					0	0	1	0	0		T	24175226	T	T	24175226	3	4	27	1	0	0	0	0	1	0	0	0	6108	43	2	5	339	5	FUCA1	1	24175226	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	61454	24175226	225075395	112	22463											
MYOM3	127294	broad.mit.edu	37	chr1	24419453	24419453	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacctctcacaagcacgtaGgtgctctgttcccggggtcc	6	10	10	15	2	3	0	2	0	2	0	6	0	5	0	3	3	2	4	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:24419453G>T	uc001bin.3	-	10	1237	c.1074C>A	c.(1072-1074)ACC>ACA	p.T358T	MYOM3_uc001bim.3_Silent_p.T15T|MYOM3_uc001bio.2_Silent_p.T358T|MYOM3_uc001bip.1_Silent_p.T15T	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	358	Ig-like C2-type 2.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		CAAGCACGTAGGTGCTCTGTT	0.383													5	16					0.184627	0.185716	1	1	0		T	24419453	T	T	24419453	2	4	27	1	0	0	0	0	0	0	0	1	10111	987	35	5		5	MYOM3	1	24419453	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	244227	24419453	224831168	113	22464											
GRHL3	57822	broad.mit.edu	37	chr1	24673056	24673056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccacaggctgcctctgaagCgtacctgctcgcccttcact	6	9	8	18	2	2	1	1	1	1	0	3	1	2	1	4	1	4	3	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:24673056C>T	uc001biy.2	+	13	1529	c.1483C>T	c.(1483-1485)CGT>TGT	p.R495C	GRHL3_uc001bix.2_Missense_Mutation_p.R490C|GRHL3_uc001biz.2_Missense_Mutation_p.R397C	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	490					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		GCCTCTGAAGCGTACCTGCTC	0.622													8	17					0	0	1	0	0		T	24673056	T	T	24673056	3	4	27	1	0	0	0	0	1	0	0	0	6781	768	27	1	1554	1	GRHL3	1	24673056	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	253603	24673056	224577565	114	22465											
SEPN1	57190	broad.mit.edu	37	chr1	26135604	26135604	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagctgtggcctgcctgActgccatcagcgacttctac	7	9	12	13	1	2	1	1	1	1	0	2	3	2	2	3	2	5	1	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:26135604A>G	uc010oer.1	+	8	890	c.835A>G	c.(835-837)ACT>GCT	p.T279A	SEPN1_uc010oes.1_Missense_Mutation_p.T245A	NM_020451	NP_065184	Q9NZV5	SELN_HUMAN	selenoprotein N, 1 isoform 1 precursor	279						endoplasmic reticulum membrane|extracellular region	protein binding			ovary(2)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0421)|OV - Ovarian serous cystadenocarcinoma(117;1.26e-25)|Colorectal(126;3.01e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0143)|READ - Rectum adenocarcinoma(331;0.0649)		GGCCTGCCTGACTGCCATCAG	0.647													5	77					0	0	1	0	0		G	26135604	G	G	26135604	3	3	27	1	0	0	0	0	1	0	0	0	14081	275	10	3	857	3	SEPN1	1	26135604	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1462548	26135604	223115017	115	22466											
PAQR7	164091	broad.mit.edu	37	chr1	26189996	26189996	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggtaggtgaaagaggcaAggacaatgatgaagaggggc	16	4	18	3	0	0	6	0	3	0	3	0	7	0	7	0	6	0	2	0	6	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:26189996A>C	uc001bkx.2	-	2	1002	c.335T>G	c.(334-336)CTT>CGT	p.L112R		NM_178422	NP_848509	Q86WK9	MPRA_HUMAN	progestin and adipoQ receptor family member VII	112	Helical; Name=2; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding			breast(3)	3		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.16e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000724)|BRCA - Breast invasive adenocarcinoma(304;0.000965)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0136)|READ - Rectum adenocarcinoma(331;0.0649)		GAAAGAGGCAAGGACAATGAT	0.592													7	60					0	0	1	0	0		C	26189996	C	C	26189996	3	2	27	1	0	0	0	0	1	0	0	0	11459	72	3	5	709	5	PAQR7	1	26189996	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	54392	26189996	223060625	116	22467											
CATSPER4	378807	broad.mit.edu	37	chr1	26524554	26524554	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatatcatggtcctcatcCtcttcttcatgctggtcagt	7	15	6	13	0	6	0	4	0	2	0	8	0	8	0	3	2	1	1	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:26524554C>A	uc010oez.1	+	5	664	c.664C>A	c.(664-666)CTC>ATC	p.L222I	CATSPER4_uc010oey.1_Missense_Mutation_p.L44I|CATSPER4_uc009vsf.2_RNA	NM_198137	NP_937770	Q7RTX7	CTSR4_HUMAN	cation channel, sperm associated 4	222	Helical; Name=Segment S5; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_cancers(24;2.05e-18)|Colorectal(325;0.000147)|Renal(390;0.00211)|all_lung(284;0.00218)|Lung NSC(340;0.00239)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-26)|Colorectal(126;1.34e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|BRCA - Breast invasive adenocarcinoma(304;0.000995)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00878)|READ - Rectum adenocarcinoma(331;0.0649)		GGTCCTCATCCTCTTCTTCAT	0.597													10	193					0.0581538	0.0588749	1	1	0		A	26524554	A	A	26524554	3	1	27	1	0	0	0	0	1	0	0	0	2693	681	24	5	682	5	CATSPER4	1	26524554	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	334558	26524554	222726067	117	22468											
AIM1L	55057	broad.mit.edu	37	chr1	26663751	26663751	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctttgcttaccgtccggAtgacccggagggaggtcagc	6	9	14	12	3	1	1	1	1	0	0	2	4	2	4	4	4	4	1	4	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:26663751A>T	uc001bmd.3	-	9	1059	c.629T>A	c.(628-630)ATC>AAC	p.I210N	AIM1L_uc001bmf.3_Missense_Mutation_p.I101N	NM_001039775	NP_001034864	Q8N1P7	AIM1L_HUMAN	absent in melanoma 1-like	210	Beta/gamma crystallin 'Greek key' 4.						sugar binding			pancreas(1)	1		all_cancers(24;4.67e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.51e-27)|Colorectal(126;1.61e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000792)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.00858)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.165)|LUSC - Lung squamous cell carcinoma(448;0.239)		TACCGTCCGGATGACCCGGAG	0.602													6	72					0	0	1	0	0		T	26663751	T	T	26663751	3	4	27	1	0	0	0	0	1	0	0	0	431	333	12	5	1265	5	AIM1L	1	26663751	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	139197	26663751	222586870	118	22469											
DHDDS	79947	broad.mit.edu	37	chr1	26769270	26769270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctagaggtgacagtctacGcattcagcattgagaacttc	11	11	9	10	1	2	3	1	2	1	2	4	4	3	3	1	1	3	2	1	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:26769270G>A	uc001bml.2	+	4	350	c.229G>A	c.(229-231)GCA>ACA	p.A77T	DHDDS_uc001bmk.2_Missense_Mutation_p.A77T|DHDDS_uc001bmm.2_5'UTR|DHDDS_uc001bmn.2_Missense_Mutation_p.A77T|DHDDS_uc010ofd.1_Missense_Mutation_p.A77T	NM_205861	NP_995583	Q86SQ9	DHDDS_HUMAN	dehydrodolichyl diphosphate synthase isoform b	77							protein binding|transferase activity, transferring alkyl or aryl (other than methyl) groups			breast(3)	3		all_cancers(24;2.04e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.11e-27)|Colorectal(126;1.61e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.0161)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.166)|LUSC - Lung squamous cell carcinoma(448;0.239)		GACAGTCTACGCATTCAGCAT	0.522													5	182					0	0	1	0	0		A	26769270	A	A	26769270	3	1	27	1	0	0	0	0	1	0	0	0	4484	1087	38	1	239	1	DHDDS	1	26769270	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	105519	26769270	222481351	119	22470											
RPS6KA1	6195	broad.mit.edu	37	chr1	26878189	26878189	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacttcctgcgtggtggggAcctcttcacccggctctcaa	5	10	12	14	2	3	0	2	0	2	0	5	2	4	2	3	5	1	1	3	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:26878189A>T	uc001bmr.1	+	6	606	c.443A>T	c.(442-444)GAC>GTC	p.D148V	RPS6KA1_uc010ofe.1_Missense_Mutation_p.D56V|RPS6KA1_uc010off.1_Missense_Mutation_p.D132V|RPS6KA1_uc001bms.1_Missense_Mutation_p.D157V|RPS6KA1_uc009vsl.1_5'UTR|MIR1976_hsa-mir-1976|MI0009986_5'Flank	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	148	Protein kinase 1.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		CGTGGTGGGGACCTCTTCACC	0.607													14	52					0	0	1	0	0		T	26878189	T	T	26878189	3	4	27	1	0	0	0	0	1	0	0	0	13675	275	10	5	604	5	RPS6KA1	1	26878189	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	108919	26878189	222372432	120	22471											
ARID1A	8289	broad.mit.edu	37	chr1	27105591	27105591	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggcattttaaaggagtaTgaggtgggtgacccaggaca	11	11	14	5	0	0	2	0	2	0	0	0	4	0	4	1	5	0	2	1	5	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:27105591T>C	uc001bmv.1	+	20	5575	c.5202T>C	c.(5200-5202)TAT>TAC	p.Y1734Y	ARID1A_uc001bmu.1_Silent_p.Y1517Y|ARID1A_uc001bmx.1_Silent_p.Y580Y|ARID1A_uc009vsm.1_Silent_p.Y62Y|ARID1A_uc009vsn.1_5'UTR	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1734					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.Y1734*(1)		ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TAAAGGAGTATGAGGTGGGTG	0.488			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								14	169					0	0	1	0	0		C	27105591	C	C	27105591	2	2	27	1	0	0	0	0	0	0	0	1	913	1471	51	3		3	ARID1A	1	27105591	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	227402	27105591	222145030	121	22472											
ZDHHC18	84243	broad.mit.edu	37	chr1	27176863	27176863	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actatcgcttcttctacgcgTttattctctccctctcattc	5	18	3	15	3	4	0	1	0	4	0	9	0	5	0	1	0	1	2	1	0	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:27176863T>C	uc001bnb.2	+	4	813	c.718T>C	c.(718-720)TTT>CTT	p.F240L	ZDHHC18_uc010ofh.1_Missense_Mutation_p.F105L	NM_032283	NP_115659	Q9NUE0	ZDH18_HUMAN	zinc finger, DHHC-type containing 18	240	Helical; (Potential).|DHHC-type.					integral to membrane	zinc ion binding				0		all_cancers(24;5.82e-22)|all_epithelial(13;9.91e-20)|Colorectal(325;0.000147)|Breast(348;0.000706)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;5.71e-53)|Epithelial(14;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(117;1.53e-29)|Colorectal(126;1.9e-09)|COAD - Colon adenocarcinoma(152;4.2e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000548)|STAD - Stomach adenocarcinoma(196;0.00065)|KIRC - Kidney renal clear cell carcinoma(1967;0.000779)|GBM - Glioblastoma multiforme(114;0.0265)|READ - Rectum adenocarcinoma(331;0.0455)|Lung(427;0.163)|LUSC - Lung squamous cell carcinoma(448;0.237)		CTTCTACGCGTTTATTCTCTC	0.572													10	80					0	0	1	0	0		C	27176863	C	C	27176863	3	2	27	1	0	0	0	0	1	0	0	0	17633	1725	60	3	732	3	ZDHHC18	1	27176863	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	71272	27176863	222073758	122	22473											
GPATCH3	63906	broad.mit.edu	37	chr1	27218931	27218931	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgcttgcatctggggtgttgGccatcactatccagggcctc	5	11	12	13	1	2	0	1	0	1	0	4	0	3	0	3	4	1	3	3	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:27218931G>T	uc001bne.2	-	6	1361	c.1332C>A	c.(1330-1332)GGC>GGA	p.G444G	GPN2_uc001bnd.1_5'Flank|GPATCH3_uc009vsp.1_Silent_p.G255G	NM_022078	NP_071361	Q96I76	GPTC3_HUMAN	G patch domain containing 3	444	G-patch.					intracellular	nucleic acid binding				0		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.97e-51)|OV - Ovarian serous cystadenocarcinoma(117;9.55e-30)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|STAD - Stomach adenocarcinoma(196;0.000595)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|READ - Rectum adenocarcinoma(331;0.0419)		TGGGGTGTTGGCCATCACTAT	0.637													4	66					0.00909568	0.0093211	1	1	0		T	27218931	T	T	27218931	2	4	27	1	0	0	0	0	0	0	0	1	6607	1190	42	5		5	GPATCH3	1	27218931	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	42068	27218931	222031690	123	22474											
SLC9A1	6548	broad.mit.edu	37	chr1	27436202	27436202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgaagaagctcaggaagcCgaggaagatgtccacgatgc	14	4	13	10	3	1	2	1	0	0	2	2	7	2	4	2	2	3	1	2	2	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:27436202C>T	uc001bnm.2	-	3	1506	c.880G>A	c.(880-882)GGC>AGC	p.G294S	SLC9A1_uc010ofk.1_5'UTR|SLC9A1_uc001bnn.2_Missense_Mutation_p.G294S	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	294	Extracellular (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	CTCAGGAAGCCGAGGAAGATG	0.612													20	81					0	0	1	0	0		T	27436202	T	T	27436202	3	4	27	1	0	0	0	0	1	0	0	0	14734	652	23	1	1607	1	SLC9A1	1	27436202	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	217271	27436202	221814419	124	22475											
WDTC1	23038	broad.mit.edu	37	chr1	27627827	27627827	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcctctttgagctcaagtAtgtggctgaagccctggagt	7	12	12	10	0	2	2	1	2	1	0	2	3	2	3	2	2	3	3	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:27627827A>G	uc009vst.2	+	13	1878	c.1343A>G	c.(1342-1344)TAT>TGT	p.Y448C	WDTC1_uc001bno.2_Missense_Mutation_p.Y447C|WDTC1_uc001bnp.1_RNA|WDTC1_uc001bnq.2_Missense_Mutation_p.Y126C	NM_015023	NP_055838	Q8N5D0	WDTC1_HUMAN	WD and tetratricopeptide repeats 1	448							protein binding			ovary(1)|central_nervous_system(1)	2		all_cancers(24;3.12e-19)|all_epithelial(13;4.18e-18)|Colorectal(325;0.000147)|all_lung(284;0.000366)|Lung NSC(340;0.000548)|Renal(390;0.00211)|Breast(348;0.00257)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0443)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;1.02e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00201)|STAD - Stomach adenocarcinoma(196;0.00321)|READ - Rectum adenocarcinoma(331;0.0476)		GAGCTCAAGTATGTGGCTGAA	0.582											OREG0013280	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	69					0	0	1	0	0		G	27627827	G	G	27627827	3	3	27	1	0	0	0	0	1	0	0	0	17368	449	16	3	1386	3	WDTC1	1	27627827	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	191625	27627827	221622794	125	22476											
MAP3K6	9064	broad.mit.edu	37	chr1	27688704	27688704	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taatactgcatcttctccacGcagcctttgcgggccagcag	8	10	9	14	2	2	0	0	0	2	0	3	0	2	0	3	1	5	3	3	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:27688704G>T	uc001bny.1	-	9	1542	c.1293C>A	c.(1291-1293)TGC>TGA	p.C431*	MAP3K6_uc009vsw.1_Nonsense_Mutation_p.C423*|MAP3K6_uc001bnz.1_5'Flank	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	431					activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		TCTTCTCCACGCAGCCTTTGC	0.617													3	36					0.00909568	0.0093211	1	1	0		T	27688704	T	T	27688704	4	4	27	1	0	0	0	0	0	1	0	0	9272	1079	38	5	2657	5	MAP3K6	1	27688704	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	60877	27688704	221561917	126	22477											
DNAJC8	22826	broad.mit.edu	37	chr1	28530265	28530265	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttggaaatttacctcaaagTttttctgccactctctttcc	8	17	4	12	0	3	0	1	0	2	0	5	1	4	1	3	1	2	1	3	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:28530265T>G	uc001bpn.2	-	8	665	c.632A>C	c.(631-633)AAC>ACC	p.N211T	DNAJC8_uc001bpo.2_RNA	NM_014280	NP_055095	O75937	DNJC8_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 8	211					nuclear mRNA splicing, via spliceosome|protein folding	nucleoplasm	heat shock protein binding|unfolded protein binding				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.08e-05)|all_lung(284;4.29e-05)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.0105)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		OV - Ovarian serous cystadenocarcinoma(117;2.81e-22)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00275)|BRCA - Breast invasive adenocarcinoma(304;0.0059)|STAD - Stomach adenocarcinoma(196;0.00671)|READ - Rectum adenocarcinoma(331;0.0649)		TACCTCAAAGTTTTTCTGCCA	0.463													5	79					0	0	1	0	0		G	28530265	G	G	28530265	3	3	27	1	0	0	0	0	1	0	0	0	4661	1725	60	5	137	5	DNAJC8	1	28530265	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	841561	28530265	220720356	127	22478											
SESN2	83667	broad.mit.edu	37	chr1	28598873	28598873	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactggtggtgaccctgagTggctgctgggcctccaccgg	5	8	16	12	1	0	3	0	2	0	1	1	3	1	3	4	5	1	2	4	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:28598873T>C	uc001bps.2	+	4	786	c.433T>C	c.(433-435)TGG>CGG	p.W145R		NM_031459	NP_113647	P58004	SESN2_HUMAN	sestrin 2	145					cell cycle arrest	cytoplasm|nucleus				skin(3)|ovary(2)|pancreas(1)|lung(1)	7		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;4.76e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;2.98e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|READ - Rectum adenocarcinoma(331;0.0649)		TGACCCTGAGTGGCTGCTGGG	0.617													4	109					0	0	1	0	0		C	28598873	C	C	28598873	3	2	27	1	0	0	0	0	1	0	0	0	14150	1696	59	3	447	3	SESN2	1	28598873	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	68608	28598873	220651748	128	22479											
SESN2	83667	broad.mit.edu	37	chr1	28607245	28607245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtccacgtgaacttgctgCtcctggaggcgcgcatgcaa	8	8	13	12	3	0	1	0	1	0	0	2	2	2	2	2	3	4	4	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:28607245C>T	uc001bps.2	+	10	1728	c.1375C>T	c.(1375-1377)CTC>TTC	p.L459F		NM_031459	NP_113647	P58004	SESN2_HUMAN	sestrin 2	459					cell cycle arrest	cytoplasm|nucleus				skin(3)|ovary(2)|pancreas(1)|lung(1)	7		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;4.76e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;2.98e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|READ - Rectum adenocarcinoma(331;0.0649)		GAACTTGCTGCTCCTGGAGGC	0.632													14	77					0	0	1	0	0		T	28607245	T	T	28607245	3	4	27	1	0	0	0	0	1	0	0	0	14150	797	28	2	1413	2	SESN2	1	28607245	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8372	28607245	220643376	129	22480											
PHACTR4	65979	broad.mit.edu	37	chr1	28802790	28802790	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagatgaagaagatgaagaTgaaagctatcagagtaagaa	20	6	12	3	1	1	9	1	3	0	6	1	10	1	9	0	0	1	2	0	0	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:28802790T>C	uc001bpw.2	+	8	1875	c.1593T>C	c.(1591-1593)GAT>GAC	p.D531D	PHACTR4_uc001bpv.1_RNA|PHACTR4_uc001bpx.2_Silent_p.D515D|PHACTR4_uc001bpy.2_Silent_p.D541D	NM_001048183	NP_001041648	Q8IZ21	PHAR4_HUMAN	phosphatase and actin regulator 4 isoform 1	531							actin binding|protein phosphatase inhibitor activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;7.01e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;1.35e-21)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0144)|READ - Rectum adenocarcinoma(331;0.0649)		AAGATGAAGATGAAAGCTATC	0.403													5	26					0	0	1	0	0		C	28802790	C	C	28802790	2	2	27	1	0	0	0	0	0	0	0	1	11831	1461	51	3		3	PHACTR4	1	28802790	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	195545	28802790	220447831	130	22481											
PHACTR4	65979	broad.mit.edu	37	chr1	28819589	28819589	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggaggttcatgaagagagCaaacattttacacggtaaga	16	9	11	5	1	1	3	1	1	0	2	1	5	1	4	0	3	3	3	0	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:28819589C>T	uc001bpw.2	+	13	2361	c.2079C>T	c.(2077-2079)AGC>AGT	p.S693S	PHACTR4_uc001bpv.1_RNA|PHACTR4_uc001bpx.2_Silent_p.S677S|PHACTR4_uc001bpy.2_Silent_p.S703S|PHACTR4_uc001bpz.2_RNA	NM_001048183	NP_001041648	Q8IZ21	PHAR4_HUMAN	phosphatase and actin regulator 4 isoform 1	693							actin binding|protein phosphatase inhibitor activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;7.01e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;1.35e-21)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0144)|READ - Rectum adenocarcinoma(331;0.0649)		ATGAAGAGAGCAAACATTTTA	0.378													12	112					0	0	1	0	0		T	28819589	T	T	28819589	2	4	27	1	0	0	0	0	0	0	0	1	11831	709	25	2		2	PHACTR4	1	28819589	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16799	28819589	220431032	131	22482											
PHACTR4	65979	broad.mit.edu	37	chr1	28819605	28819605	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagcaaacattttacacggTaagacccaaaagacccaatc	18	6	6	11	1	0	3	0	0	0	3	1	3	0	3	2	1	3	2	2	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:28819605T>G	uc001bpw.2	+	13	2375	c.2093_splice	c.e13+2	p.R698_splice	PHACTR4_uc001bpv.1_Splice_Site|PHACTR4_uc001bpx.2_Splice_Site_p.R682_splice|PHACTR4_uc001bpy.2_Splice_Site_p.R708_splice|PHACTR4_uc001bpz.2_Splice_Site	NM_001048183	NP_001041648	Q8IZ21	PHAR4_HUMAN	phosphatase and actin regulator 4 isoform 1								actin binding|protein phosphatase inhibitor activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;7.01e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;1.35e-21)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0144)|READ - Rectum adenocarcinoma(331;0.0649)		TTTTACACGGTAAGACCCAAA	0.363													12	114					0	0	1	0	0		G	28819605	G	G	28819605	5	3	27	1	0	0	0	0	0	0	1	0	11831	1652	57	5	2191	5	PHACTR4	1	28819605	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	16	28819605	220431016	132	22483											
OPRD1	4985	broad.mit.edu	37	chr1	29189408	29189408	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcgcctgcgcagtgtgcgCctgctgtcgggctccaagga	4	8	15	14	4	0	0	0	0	0	0	2	1	1	1	3	2	4	3	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:29189408C>T	uc001brf.1	+	3	974	c.732C>T	c.(730-732)CGC>CGT	p.R244R		NM_000911	NP_000902	P41143	OPRD_HUMAN	opioid receptor, delta 1	244	Cytoplasmic (Potential).				immune response|protein import into nucleus, translocation	integral to plasma membrane	delta-opioid receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000947)|all_lung(284;0.00131)|Renal(390;0.00758)|Breast(348;0.00765)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-07)|COAD - Colon adenocarcinoma(152;7.51e-06)|STAD - Stomach adenocarcinoma(196;0.00306)|BRCA - Breast invasive adenocarcinoma(304;0.0241)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)	Butorphanol(DB00611)|Codeine(DB00318)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Loperamide(DB00836)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pimozide(DB01100)|Propoxyphene(DB00647)	GCAGTGTGCGCCTGCTGTCGG	0.647													6	36					0	0	1	0	0		T	29189408	T	T	29189408	2	4	27	1	0	0	0	0	0	0	0	1	10903	726	26	2		2	OPRD1	1	29189408	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	369803	29189408	220061213	133	22484											
EPB41	2035	broad.mit.edu	37	chr1	29314014	29314014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaccaacagaaggaagaggGtgaggaagccataaactcag	17	3	13	8	0	1	3	1	1	0	2	1	5	1	5	2	3	3	1	2	3	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:29314014G>A	uc001brm.1	+	1	72	c.65G>A	c.(64-66)GGT>GAT	p.G22D	EPB41_uc001brg.1_Translation_Start_Site|EPB41_uc001brh.1_Translation_Start_Site|EPB41_uc001bri.1_Missense_Mutation_p.G22D|EPB41_uc001brj.1_Translation_Start_Site|EPB41_uc009vtk.1_Missense_Mutation_p.G22D|EPB41_uc001brk.2_Missense_Mutation_p.G22D|EPB41_uc001brl.1_Missense_Mutation_p.G22D|EPB41_uc009vtl.1_Translation_Start_Site|EPB41_uc009vtm.1_Translation_Start_Site	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1	22					blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)		AAGGAAGAGGGTGAGGAAGCC	0.448													8	137					0	0	1	0	0		A	29314014	A	A	29314014	3	1	27	1	0	0	0	0	1	0	0	0	5159	1261	44	4	67	4	EPB41	1	29314014	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	124606	29314014	219936607	134	22485											
SFRS4	6429	broad.mit.edu	37	chr1	29475243	29475243	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcttcttgctgctgccCgccttgctgtctcgcttgct	0	18	8	15	2	4	0	0	0	4	0	5	0	4	0	2	0	5	5	2	0	0	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:29475243C>T	uc001bro.2	-	6	1537	c.1164G>A	c.(1162-1164)GCG>GCA	p.A388A	SFRS4_uc010ofy.1_3'UTR	NM_005626	NP_005617	Q08170	SRSF4_HUMAN	splicing factor, arginine/serine-rich 4	388	Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|RNA binding				0		Colorectal(325;0.00161)|Breast(348;0.0364)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0529)|Lung NSC(340;0.0654)|all_lung(284;0.074)|Ovarian(437;0.104)|Medulloblastoma(700;0.151)		Colorectal(126;1.01e-07)|COAD - Colon adenocarcinoma(152;6.21e-06)|STAD - Stomach adenocarcinoma(196;0.0196)|BRCA - Breast invasive adenocarcinoma(304;0.0531)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.138)		TGCtgctgcccgccttgctgt	0.249													13	108					0	0	1	0	0		T	29475243	T	T	29475243	2	4	27	1	0	0	0	0	0	0	0	1	14204	639	23	1		1	SFRS4	1	29475243	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	161229	29475243	219775378	135	22486											
MECR	51102	broad.mit.edu	37	chr1	29522739	29522739	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgacgggctgcttggccaTccccccataggttaccatgg	7	9	11	14	2	0	0	0	0	0	0	1	1	1	0	5	4	3	3	5	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:29522739T>C	uc001brq.1	-	8	898	c.862A>G	c.(862-864)ATG>GTG	p.M288V	MECR_uc001brp.1_Missense_Mutation_p.M212V|MECR_uc001brr.1_Missense_Mutation_p.M212V|MECR_uc001brs.1_RNA	NM_016011	NP_057095	Q9BV79	MECR_HUMAN	trans-2-enoyl-CoA reductase, mitochondrial	288					fatty acid biosynthetic process	mitochondrion	trans-2-enoyl-CoA reductase (NADPH) activity|zinc ion binding			ovary(1)	1		Colorectal(325;0.000389)|Breast(348;0.00765)|Lung NSC(340;0.0081)|all_lung(284;0.00914)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.39e-07)|COAD - Colon adenocarcinoma(152;2.04e-05)|STAD - Stomach adenocarcinoma(196;0.0195)|BRCA - Breast invasive adenocarcinoma(304;0.053)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.137)		TGCTTGGCCATCCCCCCATAG	0.602													5	45					0	0	1	0	0		C	29522739	C	C	29522739	3	2	27	1	0	0	0	0	1	0	0	0	9442	1435	50	3	271	3	MECR	1	29522739	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47496	29522739	219727882	136	22487											
MECR	51102	broad.mit.edu	37	chr1	29542532	29542532	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcacctaaaccagcatttgCtggaatcacccagtctcctg	10	10	6	15	0	3	0	2	0	1	0	4	1	3	1	4	1	3	2	4	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:29542532C>A	uc001brq.1	-	3	427	c.391G>T	c.(391-393)GCA>TCA	p.A131S	MECR_uc001brp.1_Missense_Mutation_p.A55S|MECR_uc001brr.1_Missense_Mutation_p.A55S|MECR_uc001brs.1_RNA|MECR_uc001brt.1_Missense_Mutation_p.A55S|MECR_uc010ofz.1_Missense_Mutation_p.A131S	NM_016011	NP_057095	Q9BV79	MECR_HUMAN	trans-2-enoyl-CoA reductase, mitochondrial	131					fatty acid biosynthetic process	mitochondrion	trans-2-enoyl-CoA reductase (NADPH) activity|zinc ion binding			ovary(1)	1		Colorectal(325;0.000389)|Breast(348;0.00765)|Lung NSC(340;0.0081)|all_lung(284;0.00914)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.39e-07)|COAD - Colon adenocarcinoma(152;2.04e-05)|STAD - Stomach adenocarcinoma(196;0.0195)|BRCA - Breast invasive adenocarcinoma(304;0.053)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.137)		CCAGCATTTGCTGGAATCACC	0.547													4	65					0.00909568	0.0093211	1	1	0		A	29542532	A	A	29542532	3	1	27	1	0	0	0	0	1	0	0	0	9442	797	28	5	762	5	MECR	1	29542532	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	19793	29542532	219708089	137	22488											
PTPRU	10076	broad.mit.edu	37	chr1	29611288	29611288	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaggtgtcccagagatCggaggagatggggcttatcc	8	8	16	9	1	0	2	0	0	0	2	3	6	2	4	3	6	0	1	3	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:29611288C>A	uc001bru.2	+	14	2335	c.2225C>A	c.(2224-2226)TCG>TAG	p.S742*	PTPRU_uc001brv.2_Nonsense_Mutation_p.S742*|PTPRU_uc001brw.2_Nonsense_Mutation_p.S742*|PTPRU_uc009vtq.2_Nonsense_Mutation_p.S742*|PTPRU_uc009vtr.2_Nonsense_Mutation_p.S742*	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	742	Extracellular (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		TCCCAGAGATCGGAGGAGATG	0.582													15	70					1.05317e-09	1.16272e-09	1	1	0		A	29611288	A	A	29611288	4	1	27	1	0	0	0	0	0	1	0	0	12838	893	31	5	2279	5	PTPRU	1	29611288	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	68756	29611288	219639333	138	22489											
PTPRU	10076	broad.mit.edu	37	chr1	29618439	29618439	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggagaagacacacatgAtgagcgccgtggaccgcagc	12	3	14	12	3	0	4	0	2	0	2	0	6	0	5	3	2	2	1	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:29618439A>T	uc001bru.2	+	16	2517	c.2407A>T	c.(2407-2409)ATG>TTG	p.M803L	PTPRU_uc001brv.2_Missense_Mutation_p.M793L|PTPRU_uc001brw.2_Missense_Mutation_p.M793L|PTPRU_uc009vtq.2_Missense_Mutation_p.M793L|PTPRU_uc009vtr.2_Missense_Mutation_p.M793L	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	803	Mediates interaction with CTNNB1 (By similarity).|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GACACACATGATGAGCGCCGT	0.632													4	33					0	0	1	0	0		T	29618439	T	T	29618439	3	4	27	1	0	0	0	0	1	0	0	0	12838	333	12	5	2469	5	PTPRU	1	29618439	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7151	29618439	219632182	139	22490											
PUM1	9698	broad.mit.edu	37	chr1	31479866	31479866	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttccccaggcactgtctcgCcattgatcacccaggaatat	9	10	8	14	1	2	1	1	1	1	0	4	2	3	2	4	2	0	2	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:31479866C>T	uc001bsi.1	-	4	629	c.516G>A	c.(514-516)TGG>TGA	p.W172*	PUM1_uc001bsg.1_5'Flank|PUM1_uc001bsh.1_Nonsense_Mutation_p.W172*|PUM1_uc001bsj.1_Nonsense_Mutation_p.W172*|PUM1_uc010oga.1_Intron|PUM1_uc001bsk.1_Nonsense_Mutation_p.W208*|PUM1_uc010ogb.1_Intron	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	172					cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		CACTGTCTCGCCATTGATCAC	0.423													15	269					0	0	1	0	0		T	31479866	T	T	31479866	4	4	27	1	0	0	0	0	0	1	0	0	12850	740	26	2	3126	2	PUM1	1	31479866	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1861427	31479866	217770755	140	22491											
BAI2	576	broad.mit.edu	37	chr1	32222059	32222059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctcctcctcttctggccGccccacctctgactccgcct	2	11	6	22	2	3	1	0	1	3	0	6	1	6	1	9	1	1	0	9	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:32222059G>A	uc001btn.2	-	4	733	c.379C>T	c.(379-381)CGG>TGG	p.R127W	BAI2_uc010ogp.1_Missense_Mutation_p.R115W|BAI2_uc010ogq.1_Missense_Mutation_p.R127W|BAI2_uc001bto.2_Missense_Mutation_p.R127W|BAI2_uc001btq.1_Missense_Mutation_p.R115W|BAI2_uc010ogr.1_Missense_Mutation_p.R115W	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	127	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		TCTTCTGGCCGCCCCACCTCT	0.672													4	22					0	0	1	0	0		A	32222059	A	A	32222059	3	1	27	1	0	0	0	0	1	0	0	0	1300	1086	38	1	4498	1	BAI2	1	32222059	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	742193	32222059	217028562	141	22492											
KHDRBS1	10657	broad.mit.edu	37	chr1	32503449	32503449	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgtaggggccgtggtgttGgaccacctcggggggctttg	3	12	18	8	2	0	0	0	0	0	0	1	1	0	1	3	7	0	3	3	7	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:32503449G>T	uc001bub.2	+	6	1025	c.919G>T	c.(919-921)GGA>TGA	p.G307*	KHDRBS1_uc001bua.1_Nonsense_Mutation_p.G268*|KHDRBS1_uc001buc.1_RNA	NM_006559	NP_006550	Q07666	KHDR1_HUMAN	KH domain containing, RNA binding, signal	307	Arg/Gly-rich.				cell cycle arrest|cell proliferation|cell surface receptor linked signaling pathway|G2/M transition of mitotic cell cycle|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of RNA export from nucleus|transcription, DNA-dependent	membrane|nucleus	DNA binding|RNA binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CCGTGGTGTTGGACCACCTCG	0.488													20	151					1.22574e-08	1.34919e-08	1	1	0		T	32503449	T	T	32503449	4	4	27	1	0	0	0	0	0	1	0	0	8162	1349	47	5	941	5	KHDRBS1	1	32503449	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	281390	32503449	216747172	142	22493											
KPNA6	23633	broad.mit.edu	37	chr1	32635510	32635510	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctcactgggctgcatcaaAcccctatgtgacttgctgac	8	11	9	13	0	2	2	2	2	1	0	3	2	2	2	2	1	3	3	2	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:32635510A>G	uc001bug.2	+	13	1360	c.1272A>G	c.(1270-1272)AAA>AAG	p.K424K	KPNA6_uc001buh.2_Silent_p.K199K|KPNA6_uc010ogx.1_Silent_p.K421K|KPNA6_uc010ogy.1_Silent_p.K429K|KPNA6_uc009vtz.2_Silent_p.K319K	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6	424	ARM 9.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GCTGCATCAAACCCCTATGTG	0.537													17	146					0	0	1	0	0		G	32635510	G	G	32635510	2	3	27	1	0	0	0	0	0	0	0	1	8450	40	2	3		3	KPNA6	1	32635510	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	132061	32635510	216615111	143	22494											
EIF3I	8668	broad.mit.edu	37	chr1	32696575	32696575	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttggaagagtcaagggtcActttggacctatcaacagtg	11	11	12	7	0	3	1	3	0	0	1	3	3	3	3	1	3	1	1	1	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:32696575A>G	uc001bur.3	+	11	1384	c.851A>G	c.(850-852)CAC>CGC	p.H284R	EIF3I_uc009vuc.2_Missense_Mutation_p.H284R|EIF3I_uc001bus.2_Missense_Mutation_p.H236R	NM_003757	NP_003748	Q13347	EIF3I_HUMAN	eukaryotic translation initiation factor 3,	284	WD 5.					cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)				GTCAAGGGTCACTTTGGACCT	0.468													11	109					0	0	1	0	0		G	32696575	G	G	32696575	3	3	27	1	0	0	0	0	1	0	0	0	5027	159	6	3	889	3	EIF3I	1	32696575	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	61065	32696575	216554046	144	22495											
TSSK3	81629	broad.mit.edu	37	chr1	32829415	32829415	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcagatggttgaggccaTccgctactgccatggctgtg	6	10	13	12	2	1	2	1	1	0	1	2	2	2	2	4	3	2	3	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:32829415T>C	uc001bvf.2	+	2	806	c.365T>C	c.(364-366)ATC>ACC	p.I122T	uc001bve.1_5'Flank	NM_052841	NP_443073	Q96PN8	TSSK3_HUMAN	testis-specific serine kinase 3	122	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.17)|Breast(348;0.212)				GTTGAGGCCATCCGCTACTGC	0.602													22	61					0	0	1	0	0		C	32829415	C	C	32829415	3	2	27	1	0	0	0	0	1	0	0	0	16696	1435	50	3	371	3	TSSK3	1	32829415	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	132840	32829415	216421206	145	22496											
RBBP4	5928	broad.mit.edu	37	chr1	33134616	33134616	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccgttccaaaggagggaaAagtggtagatgcgaagacca	14	6	14	7	2	0	2	0	0	0	2	1	5	1	4	3	3	2	2	3	3	5	2	rs77147900		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:33134616A>G	uc001bvr.2	+	6	803	c.644A>G	c.(643-645)AAA>AGA	p.K215R	RBBP4_uc001bvs.2_Missense_Mutation_p.K214R|RBBP4_uc010ohj.1_5'UTR|RBBP4_uc010ohk.1_Missense_Mutation_p.K180R	NM_005610	NP_005601	Q09028	RBBP4_HUMAN	retinoblastoma binding protein 4 isoform a	215					cell cycle|CenH3-containing nucleosome assembly at centromere|DNA replication|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|ESC/E(Z) complex|NuRD complex|NURF complex|Sin3 complex	histone binding|histone deacetylase binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				AAGGAGGGAAAAGTGGTAGAT	0.453													11	67					0	0	1	0	0		G	33134616	G	G	33134616	3	3	27	1	0	0	0	0	1	0	0	0	13126	14	1	3	666	3	RBBP4	1	33134616	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	305201	33134616	216116005	146	22497											
KIAA1522	57648	broad.mit.edu	37	chr1	33237888	33237888	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgggagtccccccaccCgcctcccccagttaccctcg	4	8	8	21	2	1	0	0	0	1	0	4	1	3	1	8	1	1	1	8	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:33237888C>A	uc001bvv.2	+	6	3067	c.2931C>A	c.(2929-2931)CCC>CCA	p.P977P	KIAA1522_uc001bvu.1_Silent_p.P1036P|KIAA1522_uc010ohm.1_Silent_p.P988P|KIAA1522_uc010ohn.1_Intron	NM_020888	NP_065939	Q9P206	K1522_HUMAN	hypothetical protein LOC57648	977	Pro-rich.										0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				TCCCCCCACCCGCCTCCCCCA	0.657													9	51					1.12685e-05	1.21022e-05	1	1	0		A	33237888	A	A	33237888	2	1	27	1	0	0	0	0	0	0	0	1	8254	639	23	5		5	KIAA1522	1	33237888	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	103272	33237888	216012733	147	22498											
CSMD2	114784	broad.mit.edu	37	chr1	34015866	34015866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtacgcttgccgatgcagCtgtaccgcaccactgctccc	7	8	10	16	3	0	0	0	0	0	0	1	2	1	0	4	0	6	7	4	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:34015866C>T	uc001bxn.1	-	55	8425	c.8396G>A	c.(8395-8397)AGC>AAC	p.S2799N	CSMD2_uc001bxm.1_Missense_Mutation_p.S2943N	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2799	Sushi 19.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GCCGATGCAGCTGTACCGCAC	0.602													10	61					0	0	1	0	0		T	34015866	T	T	34015866	3	4	27	1	0	0	0	0	1	0	0	0	3948	797	28	2	2127	2	CSMD2	1	34015866	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	777978	34015866	215234755	148	22499											
CSMD2	114784	broad.mit.edu	37	chr1	34035106	34035106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagacagtgttccgatgcGgtggccattggggggaatcg	8	8	17	8	3	0	1	0	0	0	1	2	4	1	2	2	5	1	1	2	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:34035106G>A	uc001bxn.1	-	53	8034	c.8005C>T	c.(8005-8007)CGC>TGC	p.R2669C	CSMD2_uc001bxm.1_Missense_Mutation_p.R2667C	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2669	Sushi 17.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GTTCCGATGCGGTGGCCATTG	0.567													9	34					0	0	1	0	0		A	34035106	A	A	34035106	3	1	27	1	0	0	0	0	1	0	0	0	3948	1116	39	1	2526	1	CSMD2	1	34035106	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19240	34035106	215215515	149	22500											
CSMD2	114784	broad.mit.edu	37	chr1	34071528	34071528	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagttgagttggttcttTccaactccgagagatcaaaa	12	11	11	7	1	2	2	1	1	1	1	4	6	4	3	2	2	1	3	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:34071528T>C	uc001bxn.1	-	42	6313	c.6284A>G	c.(6283-6285)GAA>GGA	p.E2095G	CSMD2_uc001bxm.1_Intron|CSMD2_uc001bxo.1_Intron	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2095	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GTTGGTTCTTTCCAACTCCGA	0.393													4	54					0	0	1	0	0		C	34071528	C	C	34071528	3	2	27	1	0	0	0	0	1	0	0	0	3948	1783	62	3	4291	3	CSMD2	1	34071528	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	36422	34071528	215179093	150	22501											
CSMD2	114784	broad.mit.edu	37	chr1	34180353	34180353	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggctgggacctcgggctcCtcacagggctccaagtcgta	7	8	13	13	2	1	0	1	0	0	0	5	1	3	1	3	4	0	4	3	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:34180353C>A	uc001bxn.1	-	21	3149	c.3120G>T	c.(3118-3120)GAG>GAT	p.E1040D	CSMD2_uc001bxm.1_Missense_Mutation_p.E1080D	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1040	Sushi 6.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CCTCGGGCTCCTCACAGGGCT	0.597													4	46					0.00024832	0.000261516	1	1	0		A	34180353	A	A	34180353	3	1	27	1	0	0	0	0	1	0	0	0	3948	680	24	5	7539	5	CSMD2	1	34180353	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	108825	34180353	215070268	151	22502											
CSMD2	114784	broad.mit.edu	37	chr1	34254222	34254222	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcataagaagccttgaatcCcagggaactgccactgccat	12	9	8	12	0	1	2	1	1	0	1	2	3	2	3	4	1	4	0	4	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:34254222C>A	uc001bxn.1	-	12	1551	c.1522G>T	c.(1522-1524)GGA>TGA	p.G508*	CSMD2_uc001bxm.1_Nonsense_Mutation_p.G548*	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	508	CUB 3.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GCCTTGAATCCCAGGGAACTG	0.428													4	77					0.184627	0.185716	1	1	0		A	34254222	A	A	34254222	4	1	27	1	0	0	0	0	0	1	0	0	3948	632	22	5	9173	5	CSMD2	1	34254222	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	73869	34254222	214996399	152	22503											
C1orf94	84970	broad.mit.edu	37	chr1	34667751	34667751	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaatgttttcactccacActttcctacagccatgacct	10	12	6	13	0	1	1	1	1	0	0	3	2	3	2	4	1	2	1	4	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:34667751A>G	uc001bxs.3	+	4	1166	c.767A>G	c.(766-768)CAC>CGC	p.H256R	C1orf94_uc001bxt.2_Missense_Mutation_p.H446R	NM_032884	NP_116273	Q6P1W5	CA094_HUMAN	hypothetical protein LOC84970 isoform b	256							protein binding				0		Myeloproliferative disorder(586;0.0393)				TTCACTCCACACTTTCCTACA	0.517													9	81					0	0	1	0	0		G	34667751	G	G	34667751	3	3	27	1	0	0	0	0	1	0	0	0	2074	159	6	3	1351	3	C1orf94	1	34667751	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	413529	34667751	214582870	153	22504											
GJB3	2707	broad.mit.edu	37	chr1	35250919	35250919	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgacctaccgagaagaaaAtcttcacctacttcatggtg	12	9	7	13	2	3	2	2	0	1	2	3	4	3	2	4	1	2	0	4	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:35250919A>G	uc001bxx.2	+	2	1171	c.556A>G	c.(556-558)ATC>GTC	p.I186V	GJB3_uc001bxy.2_Missense_Mutation_p.I186V|GJB3_uc001bxz.3_Missense_Mutation_p.I186V|uc010ohs.1_RNA	NM_024009	NP_076872	O75712	CXB3_HUMAN	connexin 31	186	Extracellular (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				CGAGAAGAAAATCTTCACCTA	0.597													10	71					0	0	1	0	0		G	35250919	G	G	35250919	3	3	27	1	0	0	0	0	1	0	0	0	6424	101	4	3	558	3	GJB3	1	35250919	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	583168	35250919	213999702	154	22505											
DLGAP3	58512	broad.mit.edu	37	chr1	35332721	35332721	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacttgagggtcacatcctcGatggagagctgtaggaggtc	10	9	14	8	1	1	2	1	1	0	1	4	5	2	3	1	4	2	2	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:35332721G>A	uc001byc.2	-	9	2649	c.2649C>T	c.(2647-2649)ATC>ATT	p.I883I		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	883					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				TCACATCCTCGATGGAGAGCT	0.582											OREG0013353	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	93					0	0	1	0	0		A	35332721	A	A	35332721	2	1	27	1	0	0	0	0	0	0	0	1	4567	1048	37	1		1	DLGAP3	1	35332721	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	81802	35332721	213917900	155	22506											
DLGAP3	58512	broad.mit.edu	37	chr1	35370394	35370394	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcttccctcagccttgggCccattatagtcccgcttccc	4	12	6	19	1	2	0	1	0	1	0	5	0	5	0	6	1	1	1	6	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:35370394C>T	uc001byc.2	-	1	591	c.591G>A	c.(589-591)GGG>GGA	p.G197G		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	197					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				CAGCCTTGGGCCCATTATAGT	0.562													12	35					0	0	1	0	0		T	35370394	T	T	35370394	2	4	27	1	0	0	0	0	0	0	0	1	4567	726	26	2		2	DLGAP3	1	35370394	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37673	35370394	213880227	156	22507											
CLSPN	63967	broad.mit.edu	37	chr1	36203686	36203686	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcttcagctgtaatttTcccctgctgtgcctgaaaaa	8	16	6	11	0	3	1	1	1	2	0	4	1	4	1	3	0	3	3	3	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:36203686T>C	uc001bzi.2	-	22	3651	c.3571A>G	c.(3571-3573)AAA>GAA	p.K1191E	CLSPN_uc009vux.2_Missense_Mutation_p.K1127E	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	1191					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GCTGTAATTTTCCCCTGCTGT	0.348													9	69					0	0	1	0	0		C	36203686	C	C	36203686	3	2	27	1	0	0	0	0	1	0	0	0	3563	1792	62	3	464	3	CLSPN	1	36203686	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	833292	36203686	213046935	157	22508											
COL8A2	1296	broad.mit.edu	37	chr1	36563431	36563431	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagcaaagtagtagacgccGcccacagggcaggtgaagat	14	5	13	9	2	0	3	0	1	0	2	0	3	0	3	2	2	1	4	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:36563431G>A	uc001bzv.1	-	2	1858	c.1851C>T	c.(1849-1851)GGC>GGT	p.G617G	COL8A2_uc001bzw.1_Silent_p.G552G	NM_005202	NP_005193	P25067	CO8A2_HUMAN	collagen, type VIII, alpha 2 precursor	617	C1q.|Nonhelical region (NC1).				angiogenesis|cell-cell adhesion|extracellular matrix organization	basement membrane|collagen	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				AGTAGACGCCGCCCACAGGGC	0.587													9	47					0	0	1	0	0		A	36563431	A	A	36563431	2	1	27	1	0	0	0	0	0	0	0	1	3709	1074	38	1		1	COL8A2	1	36563431	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	359745	36563431	212687190	158	22509											
MAP7D1	55700	broad.mit.edu	37	chr1	36645561	36645561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaatggcttctccaccaacgGaccctctggggacaagagtc	10	7	11	13	1	2	1	0	0	2	1	4	4	2	3	3	4	1	1	3	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:36645561G>A	uc001bzz.2	+	16	2624	c.2408G>A	c.(2407-2409)GGA>GAA	p.G803E	MAP7D1_uc001caa.2_Missense_Mutation_p.G770E|MAP7D1_uc001cab.2_Missense_Mutation_p.G765E|MAP7D1_uc001cac.2_Missense_Mutation_p.G502E|MAP7D1_uc001cad.2_Missense_Mutation_p.G339E	NM_018067	NP_060537	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	803						cytoplasm|spindle				ovary(3)|breast(2)	5		Myeloproliferative disorder(586;0.0393)				TCCACCAACGGACCCTCTGGG	0.597													4	36					0	0	1	0	0		A	36645561	A	A	36645561	3	1	27	1	0	0	0	0	1	0	0	0	9285	1174	41	4	2470	4	MAP7D1	1	36645561	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	82130	36645561	212605060	159	22510											
THRAP3	9967	broad.mit.edu	37	chr1	36755361	36755361	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcttttgatgaggacctcGcacggtgagatatgctcctt	8	13	10	10	2	1	3	0	3	1	1	3	5	2	4	2	2	1	2	2	2	1	4	rs143670803	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:36755361G>A	uc001cae.3	+	5	1965	c.1741G>A	c.(1741-1743)GCA>ACA	p.A581T	THRAP3_uc001caf.3_Missense_Mutation_p.A581T|THRAP3_uc001cag.1_Missense_Mutation_p.A581T	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	581					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TGAGGACCTCGCACGGTGAGA	0.517			T	USP6	aneurysmal bone cysts								13	32					0	0	1	0	0		A	36755361	A	A	36755361	3	1	27	1	0	0	0	0	1	0	0	0	15899	1087	38	1	1751	1	THRAP3	1	36755361	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	109800	36755361	212495260	160	22511											
THRAP3	9967	broad.mit.edu	37	chr1	36757116	36757116	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctcagaactgtttgcccaAcatatagtgaccattgttca	11	12	6	12	0	2	2	2	1	0	1	2	2	2	2	3	0	3	2	3	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:36757116A>G	uc001cae.3	+	6	2111	c.1887A>G	c.(1885-1887)CAA>CAG	p.Q629Q	THRAP3_uc001caf.3_Silent_p.Q629Q	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	629					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TGTTTGCCCAACATATAGTGA	0.468			T	USP6	aneurysmal bone cysts								6	122					0	0	1	0	0		G	36757116	G	G	36757116	2	3	27	1	0	0	0	0	0	0	0	1	15899	40	2	3		3	THRAP3	1	36757116	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1755	36757116	212493505	161	22512											
THRAP3	9967	broad.mit.edu	37	chr1	36769439	36769439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgacaagtgggtgagcCggggccggggccgaggagcc	7	3	21	10	3	0	2	0	2	0	0	0	4	0	3	4	6	2	1	4	6	1	0	rs141044799		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:36769439C>T	uc001cae.3	+	12	2913	c.2689C>T	c.(2689-2691)CGG>TGG	p.R897W	THRAP3_uc001caf.3_Missense_Mutation_p.R897W|C1orf113_uc010oia.1_5'Flank	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	897					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GTGGGTGAGCCGGGGCCGGGG	0.592			T	USP6	aneurysmal bone cysts								12	102					0	0	1	0	0		T	36769439	T	T	36769439	3	4	27	1	0	0	0	0	1	0	0	0	15899	643	23	1	2727	1	THRAP3	1	36769439	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12323	36769439	212481182	162	22513											
C1orf113	79729	broad.mit.edu	37	chr1	36785374	36785374	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcccccagctccagagaaCgcccccagctccaagaagat	12	3	9	17	1	0	3	0	0	0	3	2	4	2	3	6	1	3	2	6	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:36785374C>T	uc010oia.1	+	14	1138	c.1110C>T	c.(1108-1110)AAC>AAT	p.N370N	C1orf113_uc010oib.1_Silent_p.N259N|C1orf113_uc010oic.1_RNA|C1orf113_uc009vuz.1_Silent_p.N16N	NM_001162530	NP_001156002	A4FU49	SH321_HUMAN	SH3 domain-containing protein C1orf113 isoform	254											0		Myeloproliferative disorder(586;0.0393)				CTCCAGAGAACGCCCCCAGCT	0.622													4	22					0	0	1	0	0		T	36785374	T	T	36785374	2	4	27	1	0	0	0	0	0	0	0	1	1989	535	19	1		1	C1orf113	1	36785374	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15935	36785374	212465247	163	22514											
GRIK3	2899	broad.mit.edu	37	chr1	37346307	37346307	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcgaggatggcatggcTgagcgaggcgtagtcggggt	7	7	20	7	4	0	1	0	1	0	0	2	4	0	2	0	7	1	3	0	7	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:37346307T>C	uc001caz.2	-	3	613	c.478A>G	c.(478-480)AGC>GGC	p.S160G	GRIK3_uc001cba.1_Missense_Mutation_p.S160G	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	160	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	ATGGCATGGCTGAGCGAGGCG	0.627													6	153					0	0	1	0	0		C	37346307	C	C	37346307	3	2	27	1	0	0	0	0	1	0	0	0	6791	1580	55	3	2337	3	GRIK3	1	37346307	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	560933	37346307	211904314	164	22515											
MEAF6	64769	broad.mit.edu	37	chr1	37975066	37975066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactacttacagctgctgagGtaaccgaggatttactgaag	12	10	10	9	1	0	2	0	2	0	0	0	4	0	3	1	2	6	3	1	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:37975066G>A	uc001cbg.1	-	3	301	c.284C>T	c.(283-285)ACC>ATC	p.T95I	MEAF6_uc001cbd.1_Missense_Mutation_p.T73I|MEAF6_uc001cbe.1_Missense_Mutation_p.T95I|MEAF6_uc009vvd.1_RNA|MEAF6_uc001cbf.1_RNA|MEAF6_uc001cbh.1_Missense_Mutation_p.T95I	NM_022756	NP_073593	Q9HAF1	EAF6_HUMAN	MYST/Esa1-associated factor 6	95					histone H2A acetylation|histone H3-K14 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|NuA4 histone acetyltransferase complex|nucleolus	protein binding				0						AGCTGCTGAGGTAACCGAGGA	0.448													22	215					0	0	1	0	0		A	37975066	A	A	37975066	3	1	27	1	0	0	0	0	1	0	0	0	9439	1261	44	4	345	4	MEAF6	1	37975066	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	628759	37975066	211275555	165	22516											
SNIP1	79753	broad.mit.edu	37	chr1	38006093	38006093	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgagactcactgccgccAccaccaacgtcattcctctg	8	9	6	18	2	3	1	2	1	1	1	5	2	5	1	6	0	2	0	6	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:38006093A>G	uc001cbi.2	-	3	664	c.591T>C	c.(589-591)GGT>GGC	p.G197G	SNIP1_uc010oid.1_Intron	NM_024700	NP_078976	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein	197					production of miRNAs involved in gene silencing by miRNA	nucleus	protein binding			upper_aerodigestive_tract(1)|lung(1)	2		Myeloproliferative disorder(586;0.0393)				CACTGCCGCCACCACCAACGT	0.542													9	117					0	0	1	0	0		G	38006093	G	G	38006093	2	3	27	1	0	0	0	0	0	0	0	1	14873	146	6	3		3	SNIP1	1	38006093	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	31027	38006093	211244528	166	22517											
DNALI1	7802	broad.mit.edu	37	chr1	38023220	38023220	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggctcggctactgaaagTcagcccccagcagcctggac	9	6	11	15	1	2	1	2	1	0	0	3	2	2	2	3	3	4	3	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:38023220T>C	uc001cbj.2	+	2	174	c.164T>C	c.(163-165)GTC>GCC	p.V55A	DNALI1_uc010oie.1_RNA	NM_003462	NP_003453	O14645	IDLC_HUMAN	dynein, axonemal, light intermediate chain 1	33					cellular component movement|single fertilization	axonemal dynein complex	microtubule motor activity			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CTACTGAAAGTCAGCCCCCAG	0.567													10	110					0	0	1	0	0		C	38023220	C	C	38023220	3	2	27	1	0	0	0	0	1	0	0	0	4665	1667	58	3	170	3	DNALI1	1	38023220	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	17127	38023220	211227401	167	22518											
GNL2	29889	broad.mit.edu	37	chr1	38048476	38048476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtttcaatgtgaggggaaCgagtacccattggatctcta	12	11	11	7	1	2	1	1	1	1	0	3	4	2	3	1	3	2	2	1	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:38048476C>T	uc001cbk.2	-	7	861	c.698G>A	c.(697-699)CGT>CAT	p.R233H	GNL2_uc010oif.1_Missense_Mutation_p.R74H	NM_013285	NP_037417	Q13823	NOG2_HUMAN	guanine nucleotide binding protein-like 2	233					ribosome biogenesis	nucleolus	GTP binding|GTPase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)				GTGAGGGGAACGAGTACCCAT	0.393													7	76					0	0	1	0	0		T	38048476	T	T	38048476	3	4	27	1	0	0	0	0	1	0	0	0	6551	536	19	1	1537	1	GNL2	1	38048476	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25256	38048476	211202145	168	22519											
GNL2	29889	broad.mit.edu	37	chr1	38053053	38053053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgtgacttagggccaaatGtagtttcaaaactttcagta	12	14	8	7	0	3	1	2	1	1	0	3	1	3	1	1	1	1	3	1	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:38053053G>A	uc001cbk.2	-	5	591	c.428C>T	c.(427-429)ACA>ATA	p.T143I	GNL2_uc010oif.1_5'UTR|GNL2_uc009vve.2_Intron	NM_013285	NP_037417	Q13823	NOG2_HUMAN	guanine nucleotide binding protein-like 2	143					ribosome biogenesis	nucleolus	GTP binding|GTPase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)				AGGGCCAAATGTAGTTTCAAA	0.378													11	43					0	0	1	0	0		A	38053053	A	A	38053053	3	1	27	1	0	0	0	0	1	0	0	0	6551	1377	48	4	1815	4	GNL2	1	38053053	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4577	38053053	211197568	169	22520											
MANEAL	149175	broad.mit.edu	37	chr1	38265387	38265387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccattcgatccgcaacacgCcctacgatggggtcttcata	9	9	8	15	4	2	0	1	0	1	0	4	2	3	0	3	2	2	1	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:38265387C>T	uc001cby.2	+	4	967	c.886C>T	c.(886-888)CCC>TCC	p.P296S	MANEAL_uc001cbx.2_Intron|MANEAL_uc001cbz.2_Missense_Mutation_p.P74S	NM_001113482	NP_001106954	Q5VSG8	MANEL_HUMAN	mannosidase, endo-alpha-like isoform 3	296	Lumenal (Potential).					Golgi membrane|integral to membrane	hydrolase activity				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CCGCAACACGCCCTACGATGG	0.592													17	93					0	0	1	0	0		T	38265387	T	T	38265387	3	4	27	1	0	0	0	0	1	0	0	0	9240	739	26	2	900	2	MANEAL	1	38265387	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	212334	38265387	210985234	170	22521											
FHL3	2275	broad.mit.edu	37	chr1	38463130	38463130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacttggtctccatccggtaCgaagccctggcccaccaggg	7	7	11	16	2	1	0	0	0	1	0	3	1	2	0	5	4	2	1	5	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:38463130C>T	uc001ccj.2	-	6	877	c.790G>A	c.(790-792)GTA>ATA	p.V264I	FHL3_uc001cck.2_Missense_Mutation_p.V264I|FHL3_uc001ccl.2_Silent_p.S262S|FHL3_uc001ccm.2_Missense_Mutation_p.V156I	NM_004468	NP_004459	Q13643	FHL3_HUMAN	four and a half LIM domains 3	264	LIM zinc-binding 4.				muscle organ development		zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CCATCCGGTACGAAGCCCTGG	0.632													14	54					0	0	1	0	0		T	38463130	T	T	38463130	3	4	27	1	0	0	0	0	1	0	0	0	5894	536	19	1	56	1	FHL3	1	38463130	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	197743	38463130	210787491	171	22522											
GJA9	81025	broad.mit.edu	37	chr1	39340945	39340945	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggcagaagggagtcgctTcagtgaatttgcagatgtgc	10	9	16	6	1	1	3	1	1	0	2	2	4	1	4	0	3	2	3	0	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:39340945T>C	uc001cct.1	-	2	1107	c.826A>G	c.(826-828)AAG>GAG	p.K276E	RRAGC_uc001ccr.2_5'Flank|MYCBP_uc001ccs.2_5'Flank	NM_030772	NP_110399	P57773	CXA9_HUMAN	gap junction protein, alpha 9, 59kDa	276	Cytoplasmic (Potential).				cell communication	connexon complex|integral to membrane					0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			GGGAGTCGCTTCAGTGAATTT	0.393													5	104					0	0	1	0	0		C	39340945	C	C	39340945	3	2	27	1	0	0	0	0	1	0	0	0	6421	1792	62	3	725	3	GJA9	1	39340945	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	877815	39340945	209909676	172	22523											
GJA9	81025	broad.mit.edu	37	chr1	39341489	39341489	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcagtcggtacaatgcatgGcccatgtagaccagggatgg	10	8	13	10	1	1	1	1	0	0	1	2	2	1	2	2	4	2	3	2	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:39341489G>A	uc001cct.1	-	2	563	c.282C>T	c.(280-282)GGC>GGT	p.G94G	RRAGC_uc001ccr.2_5'Flank|MYCBP_uc001ccs.2_5'Flank	NM_030772	NP_110399	P57773	CXA9_HUMAN	gap junction protein, alpha 9, 59kDa	94	Helical; (Potential).				cell communication	connexon complex|integral to membrane					0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			ACAATGCATGGCCCATGTAGA	0.473													18	197					0	0	1	0	0		A	39341489	A	A	39341489	2	1	27	1	0	0	0	0	0	0	0	1	6421	1190	42	2		2	GJA9	1	39341489	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	544	39341489	209909132	173	22524											
MACF1	23499	broad.mit.edu	37	chr1	39765892	39765892	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttgtaggatgaaaaggAgcagcttatacagtccaaga	15	10	10	6	0	0	2	0	1	0	1	1	4	1	4	1	2	3	3	1	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:39765892A>T	uc010ois.1	+	23	2712	c.2507A>T	c.(2506-2508)GAG>GTG	p.E836V	MACF1_uc001cda.1_Missense_Mutation_p.E744V|MACF1_uc001cdc.1_5'UTR|MACF1_uc009vvq.1_5'UTR|MACF1_uc001cdb.1_5'UTR	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	836					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GATGAAAAGGAGCAGCTTATA	0.413													12	117					0	0	1	0	0		T	39765892	T	T	39765892	3	4	27	1	0	0	0	0	1	0	0	0	9162	304	11	5	2589	5	MACF1	1	39765892	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	424403	39765892	209484729	174	22525											
MACF1	23499	broad.mit.edu	37	chr1	39796951	39796951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttcaaagccatgcaaaaggGcctccttgaccaagacacag	14	6	8	13	0	1	2	1	1	0	1	2	2	2	2	4	1	2	1	4	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:39796951G>A	uc010oiu.1	+	1	142	c.11G>A	c.(10-12)GGC>GAC	p.G4D	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1569					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			ATGCAAAAGGGCCTCCTTGAC	0.458													4	41					0	0	1	0	0		A	39796951	A	A	39796951	3	1	27	1	0	0	0	0	1	0	0	0	9162	1203	42	2	4782	2	MACF1	1	39796951	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31059	39796951	209453670	175	22526											
MACF1	23499	broad.mit.edu	37	chr1	39798124	39798124	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcaagagccaccctaaggCcacagcaagccagagtgaga	15	2	11	13	0	0	3	0	1	0	3	0	4	0	3	4	1	4	2	4	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:39798124C>G	uc010oiu.1	+	1	1315	c.1184C>G	c.(1183-1185)GCC>GGC	p.A395G	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1960					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CACCCTAAGGCCACAGCAAGC	0.468													4	69					0	0	1	0	0		G	39798124	G	G	39798124	3	3	27	1	0	0	0	0	1	0	0	0	9162	739	26	5	5955	5	MACF1	1	39798124	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1173	39798124	209452497	176	22527											
MACF1	23499	broad.mit.edu	37	chr1	39844182	39844182	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtaggcagtgtaaacggataCcacacctgcaaaggtgagaa	15	6	12	8	1	0	1	0	1	0	1	0	3	0	2	2	3	3	4	2	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:39844182C>T	uc010oiu.1	+	17	8714	c.8583C>T	c.(8581-8583)TAC>TAT	p.Y2861Y	MACF1_uc010ois.1_Silent_p.Y2359Y|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	4426					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TAAACGGATACCACACCTGCA	0.463													12	64					0	0	1	0	0		T	39844182	T	T	39844182	2	4	27	1	0	0	0	0	0	0	0	1	9162	518	18	4		4	MACF1	1	39844182	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	46058	39844182	209406439	177	22528											
MACF1	23499	broad.mit.edu	37	chr1	39854290	39854290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctccagtgggtagtggggaCcgaagtggaaatcatcaacc	11	7	13	10	1	2	0	2	0	0	0	3	3	3	2	4	4	1	1	4	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:39854290C>T	uc010oiu.1	+	22	11227	c.11096C>T	c.(11095-11097)ACC>ATC	p.T3699I	MACF1_uc010ois.1_Missense_Mutation_p.T3197I|MACF1_uc001cda.1_Missense_Mutation_p.T3084I|MACF1_uc001cdc.1_Missense_Mutation_p.T2263I	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	5264	Spectrin 6.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GTAGTGGGGACCGAAGTGGAA	0.433													6	69					0	0	1	0	0		T	39854290	T	T	39854290	3	4	27	1	0	0	0	0	1	0	0	0	9162	507	18	4	15951	4	MACF1	1	39854290	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10108	39854290	209396331	178	22529											
MYCL1	4610	broad.mit.edu	37	chr1	40363565	40363565	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggatccagggggtctgctcGcaccgtgatggtgaccggct	5	8	17	11	3	1	2	0	2	1	0	3	3	2	3	3	5	1	3	3	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:40363565G>A	uc001cer.1	-	3	791	c.574C>T	c.(574-576)CGA>TGA	p.R192*	MYCL1_uc001ces.1_Nonsense_Mutation_p.R192*	NM_001033082	NP_001028254	P12524	MYCL1_HUMAN	l-myc-1 proto-oncogene isoform 1	192						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|liver(1)	2	all_cancers(7;1.73e-14)|all_lung(5;2.77e-17)|all_epithelial(6;6.81e-17)|Lung SC(1;2.85e-13)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.51e-19)|Epithelial(16;3.36e-18)|all cancers(16;8.43e-17)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			GGGTCTGCTCGCACCGTGATG	0.507			A		small cell lung 								11	90					0	0	1	0	0		A	40363565	A	A	40363565	4	1	27	1	0	0	0	0	0	1	0	0	10038	1095	38	1	524	1	MYCL1	1	40363565	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	509275	40363565	208887056	179	22530											
CAP1	10487	broad.mit.edu	37	chr1	40535427	40535427	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgaaggctcagagtggtCcagtacgcagtggccccaaa	10	6	12	13	1	1	2	1	1	0	1	2	2	2	2	4	3	1	3	4	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:40535427C>A	uc001cfa.3	+	9	1103	c.874C>A	c.(874-876)CCA>ACA	p.P292T	CAP1_uc001cey.3_Missense_Mutation_p.P292T|CAP1_uc001cez.3_Missense_Mutation_p.P292T|CAP1_uc009vvz.2_Missense_Mutation_p.P292T|CAP1_uc010oje.1_Missense_Mutation_p.P209T	NM_006367	NP_006358	Q01518	CAP1_HUMAN	adenylyl cyclase-associated protein	292					activation of adenylate cyclase activity|axon guidance|establishment or maintenance of cell polarity|platelet activation|platelet degranulation|signal transduction	plasma membrane	actin binding			ovary(1)	1	Lung NSC(20;5.03e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;4.63e-18)|Epithelial(16;1.27e-16)|all cancers(16;2.3e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TCAGAGTGGTCCAGTACGCAG	0.517													19	155					5.03518e-11	5.57959e-11	1	1	0		A	40535427	A	A	40535427	3	1	27	1	0	0	0	0	1	0	0	0	2622	855	30	5	904	5	CAP1	1	40535427	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	171862	40535427	208715194	180	22531											
RLF	6018	broad.mit.edu	37	chr1	40703531	40703531	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctccatttgtgcttctaaaAggccctgtacagaggatacc	10	11	8	12	0	1	1	0	0	1	1	2	2	2	2	4	2	3	2	4	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:40703531A>C	uc001cfc.3	+	8	3188	c.3157A>C	c.(3157-3159)AGG>CGG	p.R1053R	RLF_uc001cfd.3_Silent_p.R744R	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	1053					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			TGCTTCTAAAAGGCCCTGTAC	0.393													7	68					0	0	1	0	0		C	40703531	C	C	40703531	2	2	27	1	0	0	0	0	0	0	0	1	13414	63	3	5		5	RLF	1	40703531	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	168104	40703531	208547090	181	22532											
ZMPSTE24	10269	broad.mit.edu	37	chr1	40747087	40747087	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcgaatagttttgtttgAcactctactagaagagtact	13	13	8	7	1	1	3	0	1	1	2	1	4	1	3	0	0	3	3	0	0	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:40747087A>T	uc001cfg.2	+	7	1053	c.842A>T	c.(841-843)GAC>GTC	p.D281V		NM_005857	NP_005848	O75844	FACE1_HUMAN	zinc metallopeptidase STE24	281						endoplasmic reticulum membrane|Golgi membrane|integral to membrane	metal ion binding|metalloexopeptidase activity				0	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;6.3e-18)			GTTTTGTTTGACACTCTACTA	0.403													14	94					0	0	1	0	0		T	40747087	T	T	40747087	3	4	27	1	0	0	0	0	1	0	0	0	17723	275	10	5	868	5	ZMPSTE24	1	40747087	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	43556	40747087	208503534	182	22533											
SMAP2	64744	broad.mit.edu	37	chr1	40879909	40879909	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcatggatttgttgggcCttggtaagagttggactttt	6	17	13	5	0	1	1	1	0	0	1	1	3	1	3	1	4	0	3	1	4	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:40879909C>A	uc001cfj.2	+	6	633	c.568C>A	c.(568-570)CTT>ATT	p.L190I	SMAP2_uc010ojh.1_Missense_Mutation_p.L190I|SMAP2_uc001cfk.2_Missense_Mutation_p.L160I|SMAP2_uc010oji.1_Missense_Mutation_p.L107I|SMAP2_uc010ojj.1_Missense_Mutation_p.L6I	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	190	Interaction with clathrin heavy chains (By similarity).				regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)			TTTGTTGGGCCTTGGTAAGAG	0.433													5	51					8.12818e-05	8.61523e-05	1	1	0		A	40879909	A	A	40879909	3	1	27	1	0	0	0	0	1	0	0	0	14792	681	24	5	590	5	SMAP2	1	40879909	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	132822	40879909	208370712	183	22534											
SMAP2	64744	broad.mit.edu	37	chr1	40881883	40881883	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactgcagggagtgccggCtctgttcctgaaaatctgaa	10	9	11	11	1	2	2	0	2	2	0	3	3	3	3	3	2	3	3	3	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:40881883C>T	uc001cfj.2	+	8	782	c.717C>T	c.(715-717)GGC>GGT	p.G239G	SMAP2_uc010ojh.1_Silent_p.G239G|SMAP2_uc001cfk.2_Silent_p.G209G|SMAP2_uc010oji.1_Silent_p.G156G|SMAP2_uc010ojj.1_Silent_p.G55G	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	239					regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)			GGAGTGCCGGCTCTGTTCCTG	0.498													23	159					0	0	1	0	0		T	40881883	T	T	40881883	2	4	27	1	0	0	0	0	0	0	0	1	14792	784	28	2		2	SMAP2	1	40881883	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1974	40881883	208368738	184	22535											
DEM1	64789	broad.mit.edu	37	chr1	40981037	40981037	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgggtgacctcatggaacTtgtcttcttgtctctaacac	7	16	8	10	0	4	1	1	1	3	0	5	2	4	2	1	2	2	0	1	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:40981037T>C	uc001cfp.2	+	3	1026	c.821T>C	c.(820-822)CTT>CCT	p.L274P	DEM1_uc001cfq.2_Missense_Mutation_p.L274P|DEM1_uc001cfr.2_Missense_Mutation_p.L274P|DEM1_uc001cfs.2_Missense_Mutation_p.L274P	NM_022774	NP_073611	Q9H790	EXO5_HUMAN	defects in morphology 1 homolog	274							DNA binding|exonuclease activity				0						CTCATGGAACTTGTCTTCTTG	0.483													16	148					0	0	1	0	0		C	40981037	C	C	40981037	3	2	27	1	0	0	0	0	1	0	0	0	4431	1609	56	3	823	3	DEM1	1	40981037	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	99154	40981037	208269584	185	22536											
KCNQ4	9132	broad.mit.edu	37	chr1	41250028	41250028	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgcctgcagaactgggtctAcaacgtgctggagcggcccc	7	6	13	15	3	1	1	0	0	1	1	1	2	1	2	4	3	6	2	4	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:41250028A>G	uc001cgh.1	+	1	345	c.263A>G	c.(262-264)TAC>TGC	p.Y88C	KCNQ4_uc001cgi.1_Missense_Mutation_p.Y88C	NM_004700	NP_004691	P56696	KCNQ4_HUMAN	potassium voltage-gated channel KQT-like protein	88	Cytoplasmic.				sensory perception of sound	basal plasma membrane|voltage-gated potassium channel complex				central_nervous_system(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.38e-17)			AACTGGGTCTACAACGTGCTG	0.687													7	36					0	0	1	0	0		G	41250028	G	G	41250028	3	3	27	1	0	0	0	0	1	0	0	0	8101	391	14	3	265	3	KCNQ4	1	41250028	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	268991	41250028	208000593	186	22537											
HIVEP3	59269	broad.mit.edu	37	chr1	41990484	41990484	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgcggatgtgtttcttcaGcatgctgggcttcttgcagc	4	14	14	9	1	3	0	1	0	2	0	3	1	3	1	0	3	5	5	0	3	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:41990484G>A	uc001cgz.3	-	6	6518	c.5305C>T	c.(5305-5307)CTG>TTG	p.L1769L	HIVEP3_uc001cha.3_Silent_p.L1769L|HIVEP3_uc001cgy.2_Intron	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1769	C2H2-type 4.|ZAS2.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				TGTTTCTTCAGCATGCTGGGC	0.502													19	89					0	0	1	0	0		A	41990484	A	A	41990484	2	1	27	1	0	0	0	0	0	0	0	1	7204	962	34	2		2	HIVEP3	1	41990484	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	740456	41990484	207260137	187	22538											
HIVEP3	59269	broad.mit.edu	37	chr1	42046233	42046233	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggctcaagatactctcTgatgacagggaagtgccttt	10	11	10	10	0	2	3	1	2	1	1	4	4	3	4	2	2	2	1	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:42046233T>C	uc001cgz.3	-	4	5449	c.4236A>G	c.(4234-4236)TCA>TCG	p.S1412S	HIVEP3_uc001cha.3_Silent_p.S1412S|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1412					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				AGATACTCTCTGATGACAGGG	0.512													10	100					0	0	1	0	0		C	42046233	C	C	42046233	2	2	27	1	0	0	0	0	0	0	0	1	7204	1567	55	3		3	HIVEP3	1	42046233	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	55749	42046233	207204388	188	22539											
HIVEP3	59269	broad.mit.edu	37	chr1	42046988	42046988	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgggtggagaagaattCtggagactgtcctggctcat	8	10	15	8	0	2	3	1	0	1	3	3	5	3	3	2	5	0	1	2	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:42046988C>A	uc001cgz.3	-	4	4694	c.3481G>T	c.(3481-3483)GAA>TAA	p.E1161*	HIVEP3_uc001cha.3_Nonsense_Mutation_p.E1161*|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1161					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				GAGAAGAATTCTGGAGACTGT	0.582													15	141					6.31663e-08	6.9209e-08	1	1	0		A	42046988	A	A	42046988	4	1	27	1	0	0	0	0	0	1	0	0	7204	922	32	5	3763	5	HIVEP3	1	42046988	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	755	42046988	207203633	189	22540											
HIVEP3	59269	broad.mit.edu	37	chr1	42048796	42048796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcgaaggagtagctacctCggaaggggtggtggggggtg	8	7	20	6	2	0	0	0	0	0	0	2	3	0	2	1	8	2	2	1	8	4	2	rs143274774		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:42048796C>T	uc001cgz.3	-	4	2886	c.1673G>A	c.(1672-1674)CGA>CAA	p.R558Q	HIVEP3_uc001cha.3_Missense_Mutation_p.R558Q|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	558	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				GTAGCTACCTCGGAAGGGGTG	0.637													18	45					0	0	1	0	0		T	42048796	T	T	42048796	3	4	27	1	0	0	0	0	1	0	0	0	7204	884	31	1	5571	1	HIVEP3	1	42048796	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1808	42048796	207201825	190	22541											
FOXJ3	22887	broad.mit.edu	37	chr1	42664883	42664883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctatcactaccatcctgatCagtgttatacaatgttacct	11	14	5	11	0	2	1	2	1	0	0	3	1	3	1	3	0	3	3	3	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:42664883C>T	uc001che.2	-	9	961	c.649G>A	c.(649-651)GAT>AAT	p.D217N	FOXJ3_uc001chf.2_Missense_Mutation_p.D217N|FOXJ3_uc001chg.2_Missense_Mutation_p.D217N|FOXJ3_uc001chh.1_Missense_Mutation_p.D183N	NM_014947	NP_055762	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	217					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)	2	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CCATCCTGATCAGTGTTATAC	0.373													8	143					0	0	1	0	0		T	42664883	T	T	42664883	3	4	27	1	0	0	0	0	1	0	0	0	6027	826	29	4	1247	4	FOXJ3	1	42664883	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	616087	42664883	206585738	191	22542											
LEPRE1	64175	broad.mit.edu	37	chr1	43213016	43213016	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccctggtgacagccttcActccatgtgggttttcagtg	5	12	11	13	0	2	1	2	1	0	0	3	1	3	1	4	2	1	1	4	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:43213016A>G	uc001chv.2	-	14	2095	c.1982T>C	c.(1981-1983)GTG>GCG	p.V661A	LEPRE1_uc001chw.2_Missense_Mutation_p.V661A|LEPRE1_uc001chx.3_Missense_Mutation_p.V661A	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	661	Fe2OG dioxygenase.				negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GACAGCCTTCACTCCATGTGG	0.627											OREG0013422	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	64					0	0	1	0	0		G	43213016	G	G	43213016	3	3	27	1	0	0	0	0	1	0	0	0	8745	159	6	3	255	3	LEPRE1	1	43213016	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	548133	43213016	206037605	192	22543											
SLC2A1	6513	broad.mit.edu	37	chr1	43396858	43396858	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcggtggacccatgtctggTtgtagaactcctcgatcacc	8	10	11	12	2	2	1	1	0	1	1	4	3	3	2	3	3	2	2	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:43396858T>C	uc001cik.2	-	3	659	c.134A>G	c.(133-135)AAC>AGC	p.N45S		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	45	Extracellular (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	CCATGTCTGGTTGTAGAACTC	0.602											OREG0013425	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	39					0	0	1	0	0		C	43396858	C	C	43396858	3	2	27	1	0	0	0	0	1	0	0	0	14563	1725	60	3	1376	3	SLC2A1	1	43396858	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	183842	43396858	205853763	193	22544											
TMEM125	128218	broad.mit.edu	37	chr1	43738912	43738912	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtatcaagtgggtgtgagCggacactgcccctccatctg	7	10	12	12	1	2	1	1	1	1	0	3	2	3	2	3	2	2	1	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:43738912C>T	uc001cir.2	+	4	1089	c.519C>T	c.(517-519)AGC>AGT	p.S173S	EBNA1BP2_uc001cio.2_5'Flank|TMEM125_uc001cis.2_Silent_p.S173S	NM_144626	NP_653227	Q96AQ2	TM125_HUMAN	transmembrane protein 125	173						integral to membrane				breast(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGGGTGTGAGCGGACACTGCC	0.632													5	28					0	0	1	0	0		T	43738912	T	T	43738912	2	4	27	1	0	0	0	0	0	0	0	1	16062	767	27	1		1	TMEM125	1	43738912	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	342054	43738912	205511709	194	22545											
TIE1	7075	broad.mit.edu	37	chr1	43777979	43777979	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacctctggccccagagcCtttgttgcagccgtggttgg	4	11	13	13	1	1	2	0	1	1	1	1	2	1	2	5	3	3	3	5	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:43777979C>A	uc001ciu.2	+	12	1713	c.1634C>A	c.(1633-1635)CCT>CAT	p.P545H	TIE1_uc010okd.1_Missense_Mutation_p.P545H|TIE1_uc010oke.1_Missense_Mutation_p.P500H|TIE1_uc009vwq.2_Missense_Mutation_p.P501H|TIE1_uc010okf.1_Missense_Mutation_p.P190H|TIE1_uc010okg.1_Missense_Mutation_p.P190H	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	545	Fibronectin type-III 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GCCCCAGAGCCTTTGTTGCAG	0.617													6	63					3.59834e-05	3.83694e-05	1	1	0		A	43777979	A	A	43777979	3	1	27	1	0	0	0	0	1	0	0	0	15918	681	24	5	1680	5	TIE1	1	43777979	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	39067	43777979	205472642	195	22546											
KIAA0467	23334	broad.mit.edu	37	chr1	43903371	43903371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctactctgaggaagcctcGgcatgtatcactcccactct	9	11	7	14	1	4	1	1	1	3	0	6	2	5	2	2	2	2	2	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:43903371G>A	uc001cjk.1	+	30	4161	c.3699G>A	c.(3697-3699)TCG>TCA	p.S1233S		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	2132						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AGGAAGCCTCGGCATGTATCA	0.587													10	49					0	0	1	0	0		A	43903371	A	A	43903371	2	1	27	1	0	0	0	0	0	0	0	1	8194	1130	39	1		1	KIAA0467	1	43903371	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	125392	43903371	205347250	196	22547											
KIAA0467	23334	broad.mit.edu	37	chr1	43908489	43908489	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaatgctccatctctcaGgagccaaacccattcctgct	9	11	6	15	0	2	0	1	0	1	0	5	1	4	1	4	1	5	3	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:43908489G>T	uc001cjk.1	+	44	5917	c.5455_splice	c.e44-1	p.E1819_splice		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334							peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCATCTCTCAGGAGCCAAACC	0.602													15	109					3.41278e-10	3.77652e-10	1	1	0		T	43908489	T	T	43908489	5	4	27	1	0	0	0	0	0	0	1	0	8194	1014	35	5	5620	5	KIAA0467	1	43908489	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5118	43908489	205342132	197	22548											
PTPRF	5792	broad.mit.edu	37	chr1	44056821	44056821	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccacccgctacagcatTggcggcctcagccctttctc	6	8	8	19	2	2	0	1	0	1	0	3	0	2	0	5	2	3	2	5	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:44056821T>C	uc001cjr.2	+	9	1468	c.1128T>C	c.(1126-1128)ATT>ATC	p.I376I	PTPRF_uc001cjs.2_Silent_p.I376I|PTPRF_uc001cju.2_5'UTR|PTPRF_uc009vwt.2_5'UTR|PTPRF_uc001cjv.2_5'UTR	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	376	Extracellular (Potential).|Fibronectin type-III 1.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GCTACAGCATTGGCGGCCTCA	0.667													6	94					0	0	1	0	0		C	44056821	C	C	44056821	2	2	27	1	0	0	0	0	0	0	0	1	12826	1800	63	3		3	PTPRF	1	44056821	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	148332	44056821	205193800	198	22549											
PTPRF	5792	broad.mit.edu	37	chr1	44056913	44056913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcgaggcagtgcgggcacGcacgggagaacaggcgccct	9	2	17	13	5	0	1	0	0	0	1	0	3	0	1	1	4	3	3	1	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:44056913G>A	uc001cjr.2	+	9	1560	c.1220G>A	c.(1219-1221)CGC>CAC	p.R407H	PTPRF_uc001cjs.2_Missense_Mutation_p.R407H|PTPRF_uc001cju.2_5'UTR|PTPRF_uc009vwt.2_5'UTR|PTPRF_uc001cjv.2_5'UTR	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	407	Extracellular (Potential).|Fibronectin type-III 1.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GTGCGGGCACGCACGGGAGAA	0.701													5	13					0	0	1	0	0		A	44056913	A	A	44056913	3	1	27	1	0	0	0	0	1	0	0	0	12826	1087	38	1	1246	1	PTPRF	1	44056913	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	92	44056913	205193708	199	22550											
PTPRF	5792	broad.mit.edu	37	chr1	44063488	44063488	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggtccgggtaagttgggTcccgccgcctgccgacagcc	5	6	14	16	5	0	0	0	0	0	0	2	1	2	0	6	3	2	2	6	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:44063488T>C	uc001cjr.2	+	12	2223	c.1883T>C	c.(1882-1884)GTC>GCC	p.V628A	PTPRF_uc001cjs.2_Missense_Mutation_p.V628A|PTPRF_uc001cju.2_Missense_Mutation_p.V199A|PTPRF_uc009vwt.2_Missense_Mutation_p.V199A|PTPRF_uc001cjv.2_Intron|PTPRF_uc001cjw.2_5'Flank	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	628	Extracellular (Potential).|Fibronectin type-III 4.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GTAAGTTGGGTCCCGCCGCCT	0.677													3	15					0	0	1	0	0		C	44063488	C	C	44063488	3	2	27	1	0	0	0	0	1	0	0	0	12826	1667	58	3	1921	3	PTPRF	1	44063488	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6575	44063488	205187133	200	22551											
PTPRF	5792	broad.mit.edu	37	chr1	44069130	44069130	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccggagaccacctactccgTtactgttgctgcctatacca	8	10	7	16	2	0	1	0	0	0	1	1	2	1	1	6	1	5	3	6	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:44069130T>C	uc001cjr.2	+	15	2724	c.2384T>C	c.(2383-2385)GTT>GCT	p.V795A	PTPRF_uc001cjs.2_Missense_Mutation_p.V786A|PTPRF_uc001cju.2_Missense_Mutation_p.V366A|PTPRF_uc009vwt.2_Missense_Mutation_p.V357A|PTPRF_uc001cjv.2_Missense_Mutation_p.V255A|PTPRF_uc001cjw.2_Missense_Mutation_p.V21A	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	795	Fibronectin type-III 5.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ACCTACTCCGTTACTGTTGCT	0.587													3	62					0	0	1	0	0		C	44069130	C	C	44069130	3	2	27	1	0	0	0	0	1	0	0	0	12826	1725	60	3	2434	3	PTPRF	1	44069130	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5642	44069130	205181491	201	22552											
PTPRF	5792	broad.mit.edu	37	chr1	44075099	44075099	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgagcagtcgatcggActgaaggactccttgctggc	10	8	14	9	2	0	2	0	2	0	0	3	6	1	5	1	4	2	2	1	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:44075099A>T	uc001cjr.2	+	22	4243	c.3903A>T	c.(3901-3903)GGA>GGT	p.G1301G	PTPRF_uc001cjs.2_Silent_p.G1292G|PTPRF_uc001cju.2_Silent_p.G679G|PTPRF_uc009vwt.2_Silent_p.G861G|PTPRF_uc001cjv.2_Silent_p.G761G|PTPRF_uc001cjw.2_Silent_p.G527G	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1301	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				AGTCGATCGGACTGAAGGACT	0.592													4	31					0	0	1	0	0		T	44075099	T	T	44075099	2	4	27	1	0	0	0	0	0	0	0	1	12826	262	10	5		5	PTPRF	1	44075099	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5969	44075099	205175522	202	22553											
ATP6V0B	533	broad.mit.edu	37	chr1	44442793	44442793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagtggggctgccctggccGatgctcagaaccccagcctc	6	6	13	16	1	1	1	1	0	0	1	2	2	1	1	5	3	4	3	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:44442793G>A	uc001cld.2	+	7	607	c.496G>A	c.(496-498)GAT>AAT	p.D166N	ATP6V0B_uc001clc.2_Missense_Mutation_p.D166N|ATP6V0B_uc001cle.2_Missense_Mutation_p.D119N|ATP6V0B_uc001clf.2_Missense_Mutation_p.D119N|B4GALT2_uc001clg.2_5'Flank|B4GALT2_uc001clh.2_5'Flank|B4GALT2_uc010okl.1_5'Flank	NM_004047	NP_004038	Q99437	VATO_HUMAN	ATPase, H+ transporting, lysosomal 21kDa, V0	166	Lumenal (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|proton-transporting V-type ATPase, V0 domain|vacuolar membrane	hydrogen ion transmembrane transporter activity			breast(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				TGCCCTGGCCGATGCTCAGAA	0.577													21	83					0	0	1	0	0		A	44442793	A	A	44442793	3	1	27	1	0	0	0	0	1	0	0	0	1172	1058	37	1	522	1	ATP6V0B	1	44442793	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	367694	44442793	204807828	203	22554											
CCDC24	149473	broad.mit.edu	37	chr1	44458260	44458260	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgccttggaggagcccaGgtgtgatttgccagaacagg	8	10	14	9	0	0	2	0	1	0	1	0	4	0	4	3	4	4	0	3	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:44458260G>T	uc001clj.2	+	4	539	c.368G>T	c.(367-369)AGG>ATG	p.R123M	SLC6A9_uc009vxe.2_Intron|SLC6A9_uc010okm.1_Intron|CCDC24_uc001clk.2_Missense_Mutation_p.R79M|CCDC24_uc009vxc.2_Missense_Mutation_p.R87M	NM_152499	NP_689712	Q8N4L8	CCD24_HUMAN	coiled-coil domain containing 24	123											0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				GAGGAGCCCAGGTGTGATTTG	0.587													5	45					1	1	1	1	0		T	44458260	T	T	44458260	3	4	27	1	0	0	0	0	1	0	0	0	2802	1000	35	5	378	5	CCDC24	1	44458260	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15467	44458260	204792361	204	22555											
RNF220	55182	broad.mit.edu	37	chr1	45111159	45111162	+	Splice_Site	DEL	AAGT	-	-																															gcaagaacagcgacatcgagAagtaagtgtttggccaggag																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:45111159_45111162delAAGT	uc001clv.1	+	12	1805	c.1445_splice	c.e12+1	p.K482_splice	RNF220_uc001clw.1_Splice_Site_p.K482_splice|RNF220_uc010oky.1_Splice_Site_p.K269_splice|RNF220_uc010okz.1_Splice_Site_p.K224_splice|RNF220_uc001clx.1_Splice_Site_p.K198_splice|RNF220_uc001cly.1_Splice_Site_p.K162_splice|RNF220_uc001clz.1_Splice_Site_p.K161_splice|RNF220_uc001cma.1_Splice_Site_p.K161_splice|TMEM53_uc001cmb.1_Intron	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220						protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CGACATCGAGAAGTAAGTGTTTGG	0.593													6	12	---	---	---	---						.	-	45111162	-	-	45111159	8	5	27	1	0	1	0	1	0	0	1	0	13508	260	9	0	1486	0	RNF220	1	45111159	Splice_Site	DEL	AAGT	TCGA-BR-6452-01A-12D-1800-08	652899	45111159	204139462	205	22556											
HECTD3	79654	broad.mit.edu	37	chr1	45474846	45474846	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgatgcggatctcgatgaTcgggaggtggacggtcatgt	8	9	16	8	5	2	1	1	1	1	0	4	6	2	4	0	5	1	0	0	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:45474846T>A	uc009vxk.2	-	7	1140	c.1042A>T	c.(1042-1044)ATC>TTC	p.I348F	HECTD3_uc001cmy.3_5'Flank|HECTD3_uc010olh.1_Missense_Mutation_p.I64F|UROD_uc010oli.1_5'Flank|UROD_uc001cna.1_5'Flank|UROD_uc001cnb.1_5'Flank	NM_024602	NP_078878	Q5T447	HECD3_HUMAN	HECT domain containing 3	348	DOC.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	ubiquitin-protein ligase activity				0	Acute lymphoblastic leukemia(166;0.155)					ATCTCGATGATCGGGAGGTGG	0.572													6	27					0	0	1	0	0		A	45474846	A	A	45474846	3	1	27	1	0	0	0	0	1	0	0	0	7057	1435	50	5	1603	5	HECTD3	1	45474846	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	363687	45474846	203775775	206	22557											
MUTYH	4595	broad.mit.edu	37	chr1	45799172	45799172	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgacttcagctacgtctctGaatagatggtatgaggagac	11	11	12	7	1	2	5	1	3	1	2	3	6	2	5	0	2	2	2	0	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:45799172G>A	uc001cnm.2	-	3	468	c.252C>T	c.(250-252)TTC>TTT	p.F84F	MUTYH_uc009vxn.2_Intron|MUTYH_uc001cnf.2_Silent_p.F59F|MUTYH_uc009vxo.2_Silent_p.F59F|MUTYH_uc001cng.2_Silent_p.F70F|MUTYH_uc001cnj.2_Intron|MUTYH_uc001cni.2_Silent_p.F59F|MUTYH_uc001cnh.2_Silent_p.F60F|MUTYH_uc001cno.2_Intron|MUTYH_uc001cnk.2_Intron|MUTYH_uc010oll.1_Intron|MUTYH_uc001cnl.2_Silent_p.F73F|MUTYH_uc009vxp.2_Silent_p.F87F|MUTYH_uc001cnn.2_Silent_p.F74F	NM_012222	NP_036354	Q9UIF7	MUTYH_HUMAN	mutY homolog isoform 1	84					depurination|mismatch repair	nucleoplasm	4 iron, 4 sulfur cluster binding|DNA N-glycosylase activity|endonuclease activity|metal ion binding|MutSalpha complex binding				0	Acute lymphoblastic leukemia(166;0.155)					CTACGTCTCTGAATAGATGGT	0.592			Mis			colorectal		BER_DNA_glycosylases	MUTYH-associated_polyposis				7	84					0	0	1	0	0		A	45799172	A	A	45799172	2	1	27	1	0	0	0	0	0	0	0	1	10011	1281	45	4		4	MUTYH	1	45799172	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	324326	45799172	203451449	207	22558											
TOE1	114034	broad.mit.edu	37	chr1	45808899	45808899	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggctttattgaacctacCggggacacagacctctgggg	9	8	14	10	1	1	2	0	1	1	1	1	4	1	3	3	5	2	1	3	5	3	4	rs145913038		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:45808899C>A	uc009vxq.2	+	8	1641	c.1058C>A	c.(1057-1059)CCG>CAG	p.P353Q	MUTYH_uc001cno.2_5'Flank|MUTYH_uc001cnk.2_5'Flank|MUTYH_uc010oll.1_5'Flank|MUTYH_uc001cnm.2_5'Flank|MUTYH_uc001cnl.2_5'Flank|MUTYH_uc009vxp.2_5'Flank|MUTYH_uc001cnn.2_5'Flank|TOE1_uc001cnq.3_RNA|TOE1_uc010olm.1_Missense_Mutation_p.P273Q|TOE1_uc001cnr.3_RNA	NM_025077	NP_079353	Q96GM8	TOE1_HUMAN	target of EGR1, member 1 (nuclear)	353						nuclear speck|nucleolus	nucleic acid binding|zinc ion binding			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)					TTGAACCTACCGGGGACACAG	0.557													12	114					3.07112e-06	3.32223e-06	1	1	0		A	45808899	A	A	45808899	3	1	27	1	0	0	0	0	1	0	0	0	16374	652	23	5	1088	5	TOE1	1	45808899	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9727	45808899	203441722	208	22559											
MAST2	23139	broad.mit.edu	37	chr1	46496749	46496749	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagccctccaatgacagtgCgacgccgctgctcaggcctc	8	6	10	17	3	1	1	1	1	0	0	3	2	2	1	4	1	3	2	4	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:46496749C>T	uc001cov.2	+	23	3062	c.2779C>T	c.(2779-2781)CGA>TGA	p.R927*	MAST2_uc001cow.2_Nonsense_Mutation_p.R927*|MAST2_uc001coy.1_Nonsense_Mutation_p.R601*|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	927					regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					AATGACAGTGCGACGCCGCTG	0.617													4	25					0	0	1	0	0		T	46496749	T	T	46496749	4	4	27	1	0	0	0	0	0	1	0	0	9343	760	27	1	2869	1	MAST2	1	46496749	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	687850	46496749	202753872	209	22560											
MAST2	23139	broad.mit.edu	37	chr1	46497992	46497992	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcatcatccaccgagcTggcaagaagtatggcttcac	11	8	8	14	1	3	1	3	0	0	1	4	2	4	1	3	2	1	4	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:46497992T>G	uc001cov.2	+	25	3613	c.3330T>G	c.(3328-3330)GCT>GCG	p.A1110A	MAST2_uc001cow.2_Silent_p.A1110A|MAST2_uc001cpa.2_Intron	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	1110	PDZ.				regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					TCCACCGAGCTGGCAAGAAGT	0.567													9	60					0	0	1	0	0		G	46497992	G	G	46497992	2	3	27	1	0	0	0	0	0	0	0	1	9343	1567	55	5		5	MAST2	1	46497992	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1243	46497992	202752629	210	22561											
POMGNT1	55624	broad.mit.edu	37	chr1	46658844	46658844	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttgtatccttagtactcAccggaaacaggttgaaagtg	12	11	11	7	1	1	1	1	1	0	0	2	3	2	2	2	2	2	4	2	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:46658844A>G	uc001cpe.2	-	13	1316	c.1152_splice	c.e13+1	p.P384_splice	POMGNT1_uc010olx.1_Splice_Site_p.P362_splice|POMGNT1_uc010oly.1_Splice_Site|POMGNT1_uc010olz.1_Splice_Site_p.P241_splice|POMGNT1_uc001cpg.2_Splice_Site_p.P384_splice|POMGNT1_uc001cpf.2_Splice_Site_p.P51_splice|POMGNT1_uc001cph.1_5'Flank|POMGNT1_uc001cpi.1_Splice_Site_p.P51_splice	NM_017739	NP_060209	Q8WZA1	PMGT1_HUMAN	O-linked mannose						protein N-linked glycosylation|protein O-linked glycosylation	Golgi membrane|integral to membrane|microsome	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CTTAGTACTCACCGGAAACAG	0.473													8	31					0	0	1	0	0		G	46658844	G	G	46658844	5	3	27	1	0	0	0	0	0	0	1	0	12262	173	6	3	868	3	POMGNT1	1	46658844	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	160852	46658844	202591777	211	22562											
RAD54L	8438	broad.mit.edu	37	chr1	46726527	46726527	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgatgtggacacttttacgCcagagtccagagtgcaagcc	10	10	11	10	1	0	3	0	1	0	2	1	4	1	4	3	1	3	1	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:46726527C>T	uc009vye.2	+	8	720	c.606C>T	c.(604-606)CGC>CGT	p.R202R	RAD54L_uc001cpl.2_Silent_p.R202R|RAD54L_uc001cpm.1_Silent_p.R22R	NM_001142548	NP_001136020	Q92698	RAD54_HUMAN	RAD54-like protein	202	Helicase ATP-binding.				meiosis	nucleus	ATP binding|DNA binding|helicase activity			ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(166;0.155)	Breast(1374;0.0634)		KIRC - Kidney renal clear cell carcinoma(1967;0.000896)		CACTTTTACGCCAGAGTCCAG	0.552								Direct_reversal_of_damage|Homologous_recombination					5	65					0	0	1	0	0		T	46726527	T	T	46726527	2	4	27	1	0	0	0	0	0	0	0	1	13018	726	26	2		2	RAD54L	1	46726527	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	67683	46726527	202524094	212	22563											
RAD54L	8438	broad.mit.edu	37	chr1	46739122	46739122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gttacagctctaaggccctgGagccccagctgtcaggtgac	8	8	12	13	0	2	1	1	1	1	0	2	2	2	2	3	3	4	3	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:46739122G>A	uc009vye.2	+	14	1585	c.1471G>A	c.(1471-1473)GAG>AAG	p.E491K	RAD54L_uc001cpl.2_Missense_Mutation_p.E491K|RAD54L_uc001cpm.1_Intron	NM_001142548	NP_001136020	Q92698	RAD54_HUMAN	RAD54-like protein	491					meiosis	nucleus	ATP binding|DNA binding|helicase activity			ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(166;0.155)	Breast(1374;0.0634)		KIRC - Kidney renal clear cell carcinoma(1967;0.000896)		TAAGGCCCTGGAGCCCCAGCT	0.522								Direct_reversal_of_damage|Homologous_recombination					31	107					0	0	1	0	0		A	46739122	A	A	46739122	3	1	27	1	0	0	0	0	1	0	0	0	13018	1175	41	4	1521	4	RAD54L	1	46739122	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	12595	46739122	202511499	213	22564											
FAAH	2166	broad.mit.edu	37	chr1	46876500	46876500	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagctgccaaggctgtcAgctttcctcagcaacatgaa	10	9	10	12	0	2	1	2	1	0	0	3	1	3	1	2	1	6	5	2	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:46876500A>G	uc001cpu.2	+	11	1372	c.1290A>G	c.(1288-1290)TCA>TCG	p.S430S	FAAH_uc001cpv.2_RNA	NM_001441	NP_001432	O00519	FAAH1_HUMAN	fatty acid amide hydrolase	430					fatty acid catabolic process	cytoplasm|cytoskeleton|endomembrane system|integral to membrane|organelle membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|fatty acid amide hydrolase activity			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(166;0.155)				Propofol(DB00818)|Thiopental(DB00599)	CAAGGCTGTCAGCTTTCCTCA	0.602													6	61					0	0	1	0	0		G	46876500	G	G	46876500	2	3	27	1	0	0	0	0	0	0	0	1	5364	175	7	3		3	FAAH	1	46876500	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	137378	46876500	202374121	214	22565											
ATPAF1	64756	broad.mit.edu	37	chr1	47101525	47101525	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caattcagcgatgacagacaTatatttgaactcatttggtc	13	13	7	8	1	2	3	2	2	0	1	3	4	2	3	0	1	2	0	0	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:47101525T>A	uc001cqh.2	-	9	1015	c.910A>T	c.(910-912)ATG>TTG	p.M304L	ATPAF1_uc001cqg.2_Missense_Mutation_p.M85L|ATPAF1_uc009vyk.2_Missense_Mutation_p.M153L|ATPAF1_uc010omg.1_Missense_Mutation_p.M216L|ATPAF1_uc001cqi.2_Missense_Mutation_p.M236L	NM_022745	NP_073582	Q5TC12	ATPF1_HUMAN	ATP synthase mitochondrial F1 complex assembly	304					protein complex assembly	mitochondrion	protein binding				0	Acute lymphoblastic leukemia(166;0.155)					ATGACAGACATATATTTGAAC	0.463													20	235					0	0	1	0	0		A	47101525	A	A	47101525	3	1	27	1	0	0	0	0	1	0	0	0	1201	1406	49	5	80	5	ATPAF1	1	47101525	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	225025	47101525	202149096	215	22566											
KIAA0494	9813	broad.mit.edu	37	chr1	47183713	47183713	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcttctttctccggctgTccccagccaaaccaatcaat	8	11	7	15	1	3	0	1	0	2	0	5	0	4	0	5	2	2	2	5	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:47183713T>C	uc001cqk.3	-	1	1024	c.47A>G	c.(46-48)GAC>GGC	p.D16G	KIAA0494_uc010omh.1_Missense_Mutation_p.D16G|KIAA0494_uc001cql.1_Missense_Mutation_p.D16G	NM_014774	NP_055589	O75071	K0494_HUMAN	hypothetical protein LOC9813	16							calcium ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TCTCCGGCTGTCCCCAGCCAA	0.567													7	95					0	0	1	0	0		C	47183713	C	C	47183713	3	2	27	1	0	0	0	0	1	0	0	0	8195	1667	58	3	1484	3	KIAA0494	1	47183713	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	82188	47183713	202066908	216	22567											
CYP4X1	260293	broad.mit.edu	37	chr1	47515714	47515714	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccatgattgagttaaaggtAaccattgccttgattctgct	10	14	9	8	0	1	3	0	3	1	0	1	3	1	3	3	1	3	3	3	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:47515714A>G	uc001cqt.2	+	12	1648	c.1398A>G	c.(1396-1398)GTA>GTG	p.V466V	CYP4X1_uc001cqr.2_Silent_p.V465V|CYP4X1_uc001cqs.2_Silent_p.V401V	NM_178033	NP_828847	Q8N118	CP4X1_HUMAN	cytochrome P450, family 4, subfamily X,	466						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2						AGTTAAAGGTAACCATTGCCT	0.438													15	163					0	0	1	0	0		G	47515714	G	G	47515714	2	3	27	1	0	0	0	0	0	0	0	1	4196	349	13	3		3	CYP4X1	1	47515714	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	332001	47515714	201734907	217	22568											
CYP4Z1	199974	broad.mit.edu	37	chr1	47564911	47564911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagcatcagcagagatgccGagatgaaatcagggaactcc	14	6	12	9	1	2	4	2	2	0	2	3	7	3	5	2	1	4	2	2	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:47564911G>A	uc001cqu.1	+	8	1025	c.1022G>A	c.(1021-1023)CGA>CAA	p.R341Q		NM_178134	NP_835235	Q86W10	CP4Z1_HUMAN	cytochrome P450 4Z1	341	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			skin(1)	1						CAGAGATGCCGAGATGAAATC	0.438													5	42					0	0	1	0	0		A	47564911	A	A	47564911	3	1	27	1	0	0	0	0	1	0	0	0	4197	1058	37	1	1052	1	CYP4Z1	1	47564911	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	49197	47564911	201685710	218	22569											
STIL	6491	broad.mit.edu	37	chr1	47716886	47716886	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatgctattcatctgcttTagcgtttcagaaggttgcaa	9	16	8	8	1	4	1	3	0	1	1	4	1	4	1	0	1	4	5	0	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:47716886T>C	uc001crc.1	-	17	3941	c.3786A>G	c.(3784-3786)CTA>CTG	p.L1262L	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Silent_p.L1216L|STIL_uc010omo.1_Silent_p.L1245L|STIL_uc001crd.1_Silent_p.L1263L|STIL_uc001cre.1_Silent_p.L1262L	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	1262					cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				TCATCTGCTTTAGCGTTTCAG	0.388													15	122					0	0	1	0	0		C	47716886	C	C	47716886	2	2	27	1	0	0	0	0	0	0	0	1	15307	1741	61	3		3	STIL	1	47716886	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	151975	47716886	201533735	219	22570											
STIL	6491	broad.mit.edu	37	chr1	47717182	47717182	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctctttctgaccaccaaGctgttcaggtatggacctaa	10	11	9	11	0	3	1	1	1	2	0	3	2	3	2	3	3	1	4	3	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:47717182G>T	uc001crc.1	-	17	3645	c.3490C>A	c.(3490-3492)CTT>ATT	p.L1164I	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Missense_Mutation_p.L1118I|STIL_uc010omo.1_Missense_Mutation_p.L1147I|STIL_uc001crd.1_Missense_Mutation_p.L1165I|STIL_uc001cre.1_Missense_Mutation_p.L1164I	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	1164					cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				TGACCACCAAGCTGTTCAGGT	0.408													7	120					0.00307968	0.00318367	1	1	0		T	47717182	T	T	47717182	3	4	27	1	0	0	0	0	1	0	0	0	15307	971	34	5	377	5	STIL	1	47717182	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	296	47717182	201533439	220	22571											
STIL	6491	broad.mit.edu	37	chr1	47746066	47746066	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataagtccatatgtgaaggCggtcttgccacaggcgatgg	10	9	13	9	2	1	1	0	1	1	0	2	2	2	1	2	4	1	0	2	4	3	3	rs138834578	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:47746066C>T	uc001crc.1	-	12	2219	c.2064G>A	c.(2062-2064)CCG>CCA	p.P688P	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Silent_p.P641P|STIL_uc010omo.1_Silent_p.P688P|STIL_uc001crd.1_Silent_p.P688P|STIL_uc001cre.1_Silent_p.P688P|STIL_uc001crf.1_Silent_p.P301P|STIL_uc001crg.1_Silent_p.P641P	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	688	PIN1-binding (By similarity).				cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				TATGTGAAGGCGGTCTTGCCA	0.483													5	117					0	0	1	0	0		T	47746066	T	T	47746066	2	4	27	1	0	0	0	0	0	0	0	1	15307	755	27	1		1	STIL	1	47746066	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	28884	47746066	201504555	221	22572											
CMPK1	51727	broad.mit.edu	37	chr1	47840875	47840875	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacttcttttgcagaattcaGacctaccttcagtcaacaaa	13	13	4	11	0	4	2	3	0	1	2	4	2	4	2	2	0	4	1	2	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:47840875G>A	uc001cri.2	+	5	704	c.555G>A	c.(553-555)CAG>CAA	p.Q185Q	CMPK1_uc010omp.1_Silent_p.Q136Q|CMPK1_uc010omq.1_RNA	NM_016308	NP_057392	P30085	KCY_HUMAN	UMP-CMP kinase 1 isoform a	153					nucleobase, nucleoside and nucleotide interconversion	cytosol|nucleus	ATP binding|cytidylate kinase activity|nucleoside phosphate kinase activity|uridine kinase activity			ovary(1)	1					Gemcitabine(DB00441)	GCAGAATTCAGACCTACCTTC	0.373													14	130					0	0	1	0	0		A	47840875	A	A	47840875	2	1	27	1	0	0	0	0	0	0	0	1	3583	933	33	4		4	CMPK1	1	47840875	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	94809	47840875	201409746	222	22573											
SLC5A9	200010	broad.mit.edu	37	chr1	48690420	48690420	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccgtgcaagtcgagggAccattggcggctatttcctg	7	10	12	12	3	0	0	0	0	0	0	3	2	2	1	4	3	1	2	4	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:48690420A>T	uc001cro.2	+	2	239	c.187A>T	c.(187-189)ACC>TCC	p.T63S	SLC5A9_uc010oms.1_RNA|SLC5A9_uc001crn.2_Missense_Mutation_p.T63S|SLC5A9_uc010omt.1_Missense_Mutation_p.T56S|SLC5A9_uc001crp.2_5'UTR|SLC5A9_uc010omu.1_5'UTR	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	63	Cytoplasmic (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						AAGTCGAGGGACCATTGGCGG	0.562													8	97					0	0	1	0	0		T	48690420	T	T	48690420	3	4	27	1	0	0	0	0	1	0	0	0	14697	275	10	5	193	5	SLC5A9	1	48690420	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	849545	48690420	200560201	223	22574											
SLC5A9	200010	broad.mit.edu	37	chr1	48703476	48703476	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggccccacccatcaccgCtctcttcctgctggccatct	4	10	6	21	1	3	0	1	0	2	0	5	0	4	0	7	2	1	2	7	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:48703476C>A	uc001cro.2	+	11	1470	c.1418C>A	c.(1417-1419)GCT>GAT	p.A473D	SLC5A9_uc010oms.1_RNA|SLC5A9_uc001crn.2_Missense_Mutation_p.A498D|SLC5A9_uc010omt.1_Missense_Mutation_p.A487D|SLC5A9_uc001crp.2_Missense_Mutation_p.A140D|SLC5A9_uc010omu.1_Missense_Mutation_p.A140D|SLC5A9_uc009vyt.1_5'Flank	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	473	Helical; (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						CCCATCACCGCTCTCTTCCTG	0.507													8	41					0.000157383	0.000166242	1	1	0		A	48703476	A	A	48703476	3	1	27	1	0	0	0	0	1	0	0	0	14697	797	28	5	1539	5	SLC5A9	1	48703476	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13056	48703476	200547145	224	22575											
FAF1	11124	broad.mit.edu	37	chr1	50956304	50956304	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgaatctgctccaaacgaaActgttctgccatctctctct	9	12	6	14	2	4	0	0	0	4	0	7	2	5	0	2	0	4	2	2	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:50956304A>G	uc009vyx.1	-	18	1672	c.1609T>C	c.(1609-1611)TTT>CTT	p.F537L	FAF1_uc009vyw.1_RNA|FAF1_uc001cse.1_Missense_Mutation_p.F537L|FAF1_uc010onc.1_Missense_Mutation_p.F295L	NM_007051	NP_008982	Q9UNN5	FAF1_HUMAN	FAS-associated factor 1	537					apoptosis|cytoplasmic sequestering of NF-kappaB|positive regulation of apoptosis|positive regulation of protein complex assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of protein catabolic process	CD95 death-inducing signaling complex|cytosol|perinuclear region of cytoplasm	heat shock protein binding|NF-kappaB binding|protein kinase binding|protein kinase regulator activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)		TCCAAACGAAACTGTTCTGCC	0.358													7	130					0	0	1	0	0		G	50956304	G	G	50956304	3	3	27	1	0	0	0	0	1	0	0	0	5380	43	2	3	355	3	FAF1	1	50956304	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2252828	50956304	198294317	225	22576											
ORC1L	4998	broad.mit.edu	37	chr1	52838930	52838930	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagcagatcgttcctgcTgggctccacaagcaggaggc	10	6	14	11	1	0	1	0	0	0	1	3	3	2	3	2	4	3	5	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:52838930T>C	uc001ctt.2	-	17	2728	c.2509A>G	c.(2509-2511)AGC>GGC	p.S837G	ORC1L_uc010oni.1_Missense_Mutation_p.S832G|ORC1L_uc001ctu.2_Missense_Mutation_p.S837G|ORC1L_uc009vzd.2_Missense_Mutation_p.S591G	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	837	Necessary and sufficient for ORC complex assembly.				cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						TCGTTCCTGCTGGGCTCCACA	0.577													8	91					0	0	1	0	0		C	52838930	C	C	52838930	3	2	27	1	0	0	0	0	1	0	0	0	11280	1580	55	3	80	3	ORC1L	1	52838930	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1882626	52838930	196411691	226	22577											
PRPF38A	84950	broad.mit.edu	37	chr1	52881054	52881054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagccactcaaagtctcccGaaaggtaatgaattgacctc	13	8	9	11	1	2	2	1	2	1	0	4	4	2	3	3	2	1	1	3	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:52881054G>A	uc001ctv.3	+	9	1095	c.892G>A	c.(892-894)GAA>AAA	p.E298K	PRPF38A_uc001ctw.3_Silent_p.P108P	NM_032864	NP_116253	Q8NAV1	PR38A_HUMAN	PRP38 pre-mRNA processing factor 38 (yeast)	298					mRNA processing|RNA splicing	spliceosomal complex					0						AAAGTCTCCCGAAAGGTAATG	0.398													6	26					0	0	1	0	0		A	52881054	A	A	52881054	3	1	27	1	0	0	0	0	1	0	0	0	12589	1059	37	1	926	1	PRPF38A	1	52881054	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	42124	52881054	196369567	227	22578											
GPX7	2882	broad.mit.edu	37	chr1	53072522	53072522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaacaaggagattgagaGctttgcccgccgcacctaca	12	6	10	13	2	0	2	0	1	0	2	0	4	0	2	3	1	5	3	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:53072522G>A	uc001cue.2	+	2	344	c.305G>A	c.(304-306)AGC>AAC	p.S102N		NM_015696	NP_056511	Q96SL4	GPX7_HUMAN	glutathione peroxidase 7 precursor	102					response to oxidative stress	extracellular region	glutathione peroxidase activity				0					Glutathione(DB00143)	GAGATTGAGAGCTTTGCCCGC	0.577													13	99					0	0	1	0	0		A	53072522	A	A	53072522	3	1	27	1	0	0	0	0	1	0	0	0	6761	971	34	2	311	2	GPX7	1	53072522	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	191468	53072522	196178099	228	22579											
ZYG11B	79699	broad.mit.edu	37	chr1	53236726	53236726	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaactgtgggtatttttagGggcaaccagatgcgcttaaa	11	11	13	6	1	0	1	0	0	0	1	0	2	0	2	1	4	3	3	1	4	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:53236726G>A	uc001cuj.2	+	3	426	c.231G>A	c.(229-231)AGG>AGA	p.R77R	ZYG11B_uc009vzg.2_RNA|ZYG11B_uc010onj.1_Silent_p.R68R	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B	77							protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						GTATTTTTAGGGGCAACCAGA	0.398													13	150					0	0	1	0	0		A	53236726	A	A	53236726	2	1	27	1	0	0	0	0	0	0	0	1	18278	1223	43	4		4	ZYG11B	1	53236726	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	164204	53236726	196013895	229	22580											
ZYG11B	79699	broad.mit.edu	37	chr1	53245640	53245640	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtctgactcatgtgatggAaaaaacaaagccagaaattt	17	10	8	6	0	2	3	1	2	1	1	2	4	2	4	1	1	2	0	1	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:53245640A>G	uc001cuj.2	+	4	1262	c.1067A>G	c.(1066-1068)GAA>GGA	p.E356G	ZYG11B_uc009vzg.2_RNA|ZYG11B_uc010onj.1_Missense_Mutation_p.E347G	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B	356							protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CATGTGATGGAAAAAACAAAG	0.358													8	101					0	0	1	0	0		G	53245640	G	G	53245640	3	3	27	1	0	0	0	0	1	0	0	0	18278	246	9	3	1081	3	ZYG11B	1	53245640	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8914	53245640	196004981	230	22581											
ZYG11B	79699	broad.mit.edu	37	chr1	53279576	53279576	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actccagagtgtgagatggtAgcatacaggtaattagtatc	13	11	11	6	0	0	2	0	1	0	2	2	3	1	2	1	2	2	4	1	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:53279576A>G	uc001cuj.2	+	12	2133	c.1938A>G	c.(1936-1938)GTA>GTG	p.V646V	ZYG11B_uc009vzg.2_RNA|ZYG11B_uc010onj.1_Silent_p.V567V|ZYG11B_uc009vzh.2_Silent_p.V68V	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B	646							protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						GTGAGATGGTAGCATACAGGT	0.358													7	47					0	0	1	0	0		G	53279576	G	G	53279576	2	3	27	1	0	0	0	0	0	0	0	1	18278	407	15	3		3	ZYG11B	1	53279576	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	33936	53279576	195971045	231	22582											
ZYG11B	79699	broad.mit.edu	37	chr1	53282239	53282239	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcccattacttggctgttTcacaacaccaggagttcagc	9	13	7	12	0	2	0	2	0	0	0	3	1	3	1	2	2	3	3	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:53282239T>C	uc001cuj.2	+	13	2177	c.1982T>C	c.(1981-1983)TTC>TCC	p.F661S	ZYG11B_uc009vzg.2_RNA|ZYG11B_uc010onj.1_Missense_Mutation_p.F582S|ZYG11B_uc009vzh.2_Missense_Mutation_p.F83S	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B	661							protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CTTGGCTGTTTCACAACACCA	0.373													5	128					0	0	1	0	0		C	53282239	C	C	53282239	3	2	27	1	0	0	0	0	1	0	0	0	18278	1783	62	3	2032	3	ZYG11B	1	53282239	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2663	53282239	195968382	232	22583											
SCP2	6342	broad.mit.edu	37	chr1	53427303	53427303	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacatatggaaaaatatggTatgttacagttaaaaaactt	19	12	7	3	0	0	0	0	0	0	0	0	2	0	1	0	2	3	3	0	2	10	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:53427303T>A	uc001cur.1	+	6	644	c.523_splice	c.e6+2	p.G175_splice	SCP2_uc001cus.1_Splice_Site|SCP2_uc010ono.1_Splice_Site_p.G94_splice|SCP2_uc010onp.1_Splice_Site_p.G151_splice|SCP2_uc009vzi.1_Splice_Site_p.G131_splice|SCP2_uc001cuq.1_Splice_Site_p.G131_splice	NM_002979	NP_002970	P22307	NLTP_HUMAN	sterol carrier protein 2 isoform 1 proprotein						bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|lipid transport	mitochondrion|nucleus|peroxisomal matrix	propanoyl-CoA C-acyltransferase activity|propionyl-CoA C2-trimethyltridecanoyltransferase activity|protein binding|sterol binding			breast(1)	1						AAAAATATGGTATGTTACAGT	0.368													5	59					0	0	1	0	0		A	53427303	A	A	53427303	5	1	27	1	0	0	0	0	0	0	1	0	13959	1652	57	5	547	5	SCP2	1	53427303	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	145064	53427303	195823318	233	22584											
PODN	127435	broad.mit.edu	37	chr1	53544105	53544105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggtcccagctgggctgcCgcgcagcctggtgctgctgc	2	8	16	15	3	0	0	0	0	0	0	2	0	1	0	3	3	6	5	3	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:53544105C>T	uc001cuv.2	+	8	1074	c.1067C>T	c.(1066-1068)CCG>CTG	p.P356L	PODN_uc001cuw.2_Missense_Mutation_p.P337L|PODN_uc010onr.1_Missense_Mutation_p.P337L|PODN_uc010ons.1_Missense_Mutation_p.P214L	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	308	LRR 9.				negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding			ovary(1)|pancreas(1)	2						GCTGGGCTGCCGCGCAGCCTG	0.493													4	74					0	0	1	0	0		T	53544105	T	T	53544105	3	4	27	1	0	0	0	0	1	0	0	0	12197	652	23	1	1097	1	PODN	1	53544105	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	116802	53544105	195706516	234	22585											
CPT2	1376	broad.mit.edu	37	chr1	53675839	53675839	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccatccggtttctgaagAcactccgggctggccttctg	5	11	11	14	2	2	2	0	1	2	1	4	2	4	2	4	3	1	2	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:53675839A>T	uc001cvb.3	+	4	1008	c.493A>T	c.(493-495)ACA>TCA	p.T165S		NM_000098	NP_000089	P23786	CPT2_HUMAN	carnitine O-palmitoyltransferase precursor	165	Mitochondrial matrix (By similarity).				carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	mitochondrial inner membrane	carnitine O-palmitoyltransferase activity				0					L-Carnitine(DB00583)|Perhexiline(DB01074)	GTTTCTGAAGACACTCCGGGC	0.483													12	76					0	0	1	0	0		T	53675839	T	T	53675839	3	4	27	1	0	0	0	0	1	0	0	0	3837	275	10	5	507	5	CPT2	1	53675839	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	131734	53675839	195574782	235	22586											
CPT2	1376	broad.mit.edu	37	chr1	53675956	53675956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctctctgtcctggtatgggGcctacctggtcaatgcgtat	5	13	11	12	1	2	0	1	0	1	0	4	0	3	0	4	4	2	2	4	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:53675956G>A	uc001cvb.3	+	4	1125	c.610G>A	c.(610-612)GCC>ACC	p.A204T		NM_000098	NP_000089	P23786	CPT2_HUMAN	carnitine O-palmitoyltransferase precursor	204					carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	mitochondrial inner membrane	carnitine O-palmitoyltransferase activity				0					L-Carnitine(DB00583)|Perhexiline(DB01074)	CTGGTATGGGGCCTACCTGGT	0.488													7	99					0	0	1	0	0		A	53675956	A	A	53675956	3	1	27	1	0	0	0	0	1	0	0	0	3837	1203	42	2	624	2	CPT2	1	53675956	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	117	53675956	195574665	236	22587											
LRP8	7804	broad.mit.edu	37	chr1	53715086	53715086	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcagctcggaaagagggTtcttcgggagttggtgcagc	8	8	17	8	2	1	1	0	0	1	1	3	3	1	3	0	5	3	5	0	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:53715086T>C	uc001cvi.1	-	18	2961	c.2819A>G	c.(2818-2820)AAC>AGC	p.N940S	LRP8_uc001cvh.1_Intron|LRP8_uc001cvk.1_Missense_Mutation_p.N770S|LRP8_uc001cvj.1_Intron|LRP8_uc001cvl.1_Intron	NM_004631	NP_004622	Q14114	LRP8_HUMAN	low density lipoprotein receptor-related protein	940	Cytoplasmic (Potential).				cytokine-mediated signaling pathway|endocytosis|lipid metabolic process|platelet activation|proteolysis	caveola	calcium ion binding|very-low-density lipoprotein particle receptor activity				0						GGAAAGAGGGTTCTTCGGGAG	0.383													6	56					0	0	1	0	0		C	53715086	C	C	53715086	3	2	27	1	0	0	0	0	1	0	0	0	8981	1725	60	3	80	3	LRP8	1	53715086	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	39130	53715086	195535535	237	22588											
TMEM48	55706	broad.mit.edu	37	chr1	54258916	54258916	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttaccttactgaaaaaatAcattatcagcacccgttttg	13	14	4	10	1	2	1	1	1	1	0	2	1	2	1	2	0	4	2	2	0	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:54258916A>G	uc001cvs.2	-	14	1862	c.1621T>C	c.(1621-1623)TAT>CAT	p.Y541H	TMEM48_uc010onu.1_Missense_Mutation_p.Y501H|TMEM48_uc001cvt.2_Missense_Mutation_p.Y418H|TMEM48_uc009vzk.2_Intron|TMEM48_uc010onv.1_Missense_Mutation_p.Y206H	NM_018087	NP_060557	Q9BTX1	NDC1_HUMAN	transmembrane protein 48	541	Cytoplasmic (Potential).				mRNA transport|nuclear pore complex assembly|nuclear pore distribution|protein transport|transmembrane transport	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore			ovary(1)|pancreas(1)	2						CTGAAAAAATACATTATCAGC	0.313													7	150					0	0	1	0	0		G	54258916	G	G	54258916	3	3	27	1	0	0	0	0	1	0	0	0	16197	391	14	3	423	3	TMEM48	1	54258916	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	543830	54258916	194991705	238	22589											
YIPF1	54432	broad.mit.edu	37	chr1	54331937	54331937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattgtggccaatgcaacgCgtcggttatcctcacgaaca	11	9	9	12	4	1	0	1	0	0	0	3	1	2	0	2	2	3	2	2	2	5	2	rs139670932		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:54331937C>T	uc001cvu.2	-	9	1104	c.767G>A	c.(766-768)CGC>CAC	p.R256H	YIPF1_uc001cvv.2_RNA|YIPF1_uc001cvw.2_RNA|YIPF1_uc001cvx.2_RNA|YIPF1_uc001cvy.2_RNA	NM_018982	NP_061855	Q9Y548	YIPF1_HUMAN	Yip1 domain family, member 1	256	Cytoplasmic (Potential).					integral to membrane|transport vesicle				large_intestine(1)|ovary(1)	2						CAATGCAACGCGTCGGTTATC	0.468													13	55					0	0	1	0	0		T	54331937	T	T	54331937	3	4	27	1	0	0	0	0	1	0	0	0	17503	768	27	1	161	1	YIPF1	1	54331937	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	73021	54331937	194918684	239	22590											
HSPB11	51668	broad.mit.edu	37	chr1	54387395	54387395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcaaaatgatcaaaggCtgatacaataatgaatctca	19	9	7	6	0	2	4	2	3	1	1	3	4	2	4	0	1	2	2	0	1	7	2	rs140103685	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:54387395C>T	uc001cwh.2	-	6	440	c.364G>A	c.(364-366)GCC>ACC	p.A122T	HSPB11_uc001cwi.1_3'UTR	NM_016126	NP_057210	Q9Y547	HSB11_HUMAN	heat shock protein family B (small), member 11	122					cell adhesion|response to stress						0						TGATCAAAGGCTGATACAATA	0.353													10	64					0	0	1	0	0		T	54387395	T	T	54387395	3	4	27	1	0	0	0	0	1	0	0	0	7435	797	28	2	74	2	HSPB11	1	54387395	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	55458	54387395	194863226	240	22591											
HSPB11	51668	broad.mit.edu	37	chr1	54395786	54395786	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgaattcctggggaaacAttcctgtggtggtccaaaac	12	11	10	8	0	0	1	0	1	0	0	3	2	3	2	3	4	2	0	3	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:54395786A>G	uc001cwh.2	-	3	207	c.131T>C	c.(130-132)ATG>ACG	p.M44T	HSPB11_uc001cwi.1_Missense_Mutation_p.M44T	NM_016126	NP_057210	Q9Y547	HSB11_HUMAN	heat shock protein family B (small), member 11	44					cell adhesion|response to stress						0						CTGGGGAAACATTCCTGTGGT	0.284													7	89					0	0	1	0	0		G	54395786	G	G	54395786	3	3	27	1	0	0	0	0	1	0	0	0	7435	217	8	3	319	3	HSPB11	1	54395786	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8391	54395786	194854835	241	22592											
LRRC42	115353	broad.mit.edu	37	chr1	54427732	54427732	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagatcacagatgcaggCattggatacctcttttcttt	9	14	8	10	0	3	2	1	1	2	2	3	4	3	3	2	2	2	2	2	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:54427732C>T	uc001cwj.1	+	5	950	c.750C>T	c.(748-750)GGC>GGT	p.G250G	LRRC42_uc001cwl.1_Silent_p.G250G|LRRC42_uc001cwk.1_Silent_p.G250G|LRRC42_uc009vzm.1_Silent_p.G250G	NM_052940	NP_443172	Q9Y546	LRC42_HUMAN	leucine rich repeat containing 42	250	LRR 4.										0						CAGATGCAGGCATTGGATACC	0.378													5	99					0	0	1	0	0		T	54427732	T	T	54427732	2	4	27	1	0	0	0	0	0	0	0	1	9018	697	25	2		2	LRRC42	1	54427732	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31946	54427732	194822889	242	22593											
SSBP3	23648	broad.mit.edu	37	chr1	54867612	54867612	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcacagtaaaggtcccaAaatacactgcgaggaggaaa	16	5	11	9	1	0	0	0	0	0	0	1	3	1	2	1	3	3	3	1	3	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:54867612A>G	uc001cxe.2	-	4	496	c.198T>C	c.(196-198)TTT>TTC	p.F66F	SSBP3_uc001cxf.2_Silent_p.F66F|SSBP3_uc001cxg.2_Silent_p.F66F	NM_145716	NP_663768	Q9BWW4	SSBP3_HUMAN	single stranded DNA binding protein 3 isoform a	66					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	single-stranded DNA binding				0						AAAGGTCCCAAAATACACTGC	0.398													5	58					0	0	1	0	0		G	54867612	G	G	54867612	2	3	27	1	0	0	0	0	0	0	0	1	15206	11	1	3		3	SSBP3	1	54867612	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	439880	54867612	194383009	243	22594											
USP24	23358	broad.mit.edu	37	chr1	55627910	55627910	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtactctgcacacactcCtaagggctgaatcagtgctg	10	9	11	11	0	2	1	1	1	1	0	3	2	3	1	1	2	3	4	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:55627910C>G	uc001cyg.3	-	7	619	c.619G>C	c.(619-621)GGA>CGA	p.G207R		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	319					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						GCACACACTCCTAAGGGCTGA	0.373													3	25					0	0	1	0	0		G	55627910	G	G	55627910	3	3	27	1	0	0	0	0	1	0	0	0	17081	690	24	5	7151	5	USP24	1	55627910	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	760298	55627910	193622711	244	22595											
PRKAA2	5563	broad.mit.edu	37	chr1	57158066	57158066	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccaggcggctctttcagcaGattctgtctgctgtggatta	6	13	12	10	1	4	1	1	0	3	1	4	2	4	2	1	3	2	3	1	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:57158066G>A	uc001cyk.3	+	4	437	c.366G>A	c.(364-366)CAG>CAA	p.Q122Q		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	122	Protein kinase.				carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						TCTTTCAGCAGATTCTGTCTG	0.383													6	167					0	0	1	0	0		A	57158066	A	A	57158066	2	1	27	1	0	0	0	0	0	0	0	1	12516	933	33	4		4	PRKAA2	1	57158066	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1530156	57158066	192092555	245	22596											
PRKAA2	5563	broad.mit.edu	37	chr1	57159508	57159508	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaaattatgcagcaccTgaagtcatctcaggcaggta	12	10	8	11	0	3	1	2	1	2	0	5	1	3	1	2	2	2	4	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:57159508T>C	uc001cyk.3	+	5	617	c.546T>C	c.(544-546)CCT>CCC	p.P182P		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	182	Protein kinase.				carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						ATGCAGCACCTGAAGTCATCT	0.328													16	148					0	0	1	0	0		C	57159508	C	C	57159508	2	2	27	1	0	0	0	0	0	0	0	1	12516	1567	55	3		3	PRKAA2	1	57159508	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1442	57159508	192091113	246	22597											
C8B	732	broad.mit.edu	37	chr1	57420406	57420406	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattggtccatttcatgctgAcattttttataaatccttct	9	20	4	8	0	2	1	1	1	1	0	4	1	4	1	2	1	1	1	2	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:57420406A>T	uc001cyp.2	-	4	553	c.486T>A	c.(484-486)TGT>TGA	p.C162*	C8B_uc010oon.1_Nonsense_Mutation_p.C100*|C8B_uc010ooo.1_Nonsense_Mutation_p.C110*	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	162	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						TTTCATGCTGACATTTTTTAT	0.443													8	97					0	0	1	0	0		T	57420406	T	T	57420406	4	4	27	1	0	0	0	0	0	1	0	0	2420	273	10	5	1325	5	C8B	1	57420406	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	260898	57420406	191830215	247	22598											
DAB1	1600	broad.mit.edu	37	chr1	57535065	57535065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttccgtttcgggatcacGgattggctcgtgtccagcct	4	14	11	12	4	2	0	1	0	1	0	6	2	4	2	3	3	1	2	3	3	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:57535065G>A	uc001cys.1	-	10	1305	c.631C>T	c.(631-633)CGT>TGT	p.R211C	DAB1_uc001cyt.1_Missense_Mutation_p.R211C|DAB1_uc001cyq.1_Intron|DAB1_uc001cyr.1_Intron|DAB1_uc009vzw.1_Intron|DAB1_uc009vzx.1_Missense_Mutation_p.R211C	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	211					cell differentiation|nervous system development					skin(2)|ovary(1)	3						TCGGGATCACGGATTGGCTCG	0.408													21	84					0	0	1	0	0		A	57535065	A	A	57535065	3	1	27	1	0	0	0	0	1	0	0	0	4220	1116	39	1	1064	1	DAB1	1	57535065	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	114659	57535065	191715556	248	22599											
OMA1	115209	broad.mit.edu	37	chr1	58999720	58999720	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaaatccagtgaaaacaaAcatttgtccattctgcacca	17	10	4	10	0	1	1	0	1	1	0	3	1	3	1	3	0	3	1	3	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:58999720A>G	uc001cyy.2	-	5	1004	c.916T>C	c.(916-918)TTT>CTT	p.F306L	DAB1_uc001cyt.1_Intron|OMA1_uc001cyx.1_Missense_Mutation_p.F306L|OMA1_uc009vzz.2_Missense_Mutation_p.F306L	NM_145243	NP_660286	Q96E52	OMA1_HUMAN	OMA1 homolog, zinc metallopeptidase precursor	306					proteolysis	integral to membrane|mitochondrial membrane	metal ion binding|metalloendopeptidase activity			large_intestine(1)	1	all_cancers(7;6.54e-05)					GTGAAAACAAACATTTGTCCA	0.328													3	93					0	0	1	0	0		G	58999720	G	G	58999720	3	3	27	1	0	0	0	0	1	0	0	0	10883	43	2	3	678	3	OMA1	1	58999720	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1464655	58999720	190250901	249	22600											
JUN	3725	broad.mit.edu	37	chr1	59248625	59248625	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgggtcggccaggttcaGggtcatgctctgtttcagga	6	11	14	10	1	4	0	3	0	1	0	5	1	4	1	1	5	1	3	1	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:59248625G>T	uc001cze.2	-	1	1161	c.118C>A	c.(118-120)CTG>ATG	p.L40M	uc001czf.2_5'Flank|uc010oop.1_5'Flank	NM_002228	NP_002219	P05412	JUN_HUMAN	jun oncogene	40					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation by host of viral transcription|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|SMAD protein import into nucleus|SMAD protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway		R-SMAD binding|Rho GTPase activator activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity|transcription factor binding|transcription regulatory region DNA binding				0	all_cancers(7;8.55e-07)				Arsenic trioxide(DB01169)|Irbesartan(DB01029)|Vinblastine(DB00570)	GCCAGGTTCAGGGTCATGCTC	0.622			A		sarcoma								12	176					0.000978159	0.00102136	1	1	0		T	59248625	T	T	59248625	3	4	27	1	0	0	0	0	1	0	0	0	7985	991	35	5	881	5	JUN	1	59248625	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	248905	59248625	190001996	250	22601											
HOOK1	51361	broad.mit.edu	37	chr1	60299106	60299106	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcagatttcagaagcactTatccctgatttaaaccaaat	15	11	5	10	0	1	3	1	1	0	2	2	3	2	3	2	0	3	2	2	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:60299106T>C	uc009wad.2	+	6	405	c.303T>C	c.(301-303)CTT>CTC	p.L101L	HOOK1_uc001czo.2_Silent_p.L101L|HOOK1_uc001czp.2_RNA|HOOK1_uc010oor.1_Silent_p.L59L	NM_015888	NP_056972	Q9UJC3	HOOK1_HUMAN	hook homolog 1	101	Sufficient for interaction with microtubules.				early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|multicellular organismal development|protein transport	FHF complex|microtubule	identical protein binding			ovary(1)|breast(1)	2	all_cancers(7;0.000129)					CAGAAGCACTTATCCCTGATT	0.368													7	63					0	0	1	0	0		C	60299106	C	C	60299106	2	2	27	1	0	0	0	0	0	0	0	1	7298	1741	61	3		3	HOOK1	1	60299106	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1050481	60299106	188951515	251	22602											
HOOK1	51361	broad.mit.edu	37	chr1	60330855	60330855	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaaactcacagaggtccAtgaagaattacagaagaaac	20	5	9	7	0	1	5	1	1	0	4	2	6	2	6	1	2	3	0	1	2	7	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:60330855A>G	uc009wad.2	+	19	1784	c.1682A>G	c.(1681-1683)CAT>CGT	p.H561R	HOOK1_uc001czo.2_Missense_Mutation_p.H561R|HOOK1_uc001czp.2_Intron|HOOK1_uc010oor.1_Missense_Mutation_p.H519R	NM_015888	NP_056972	Q9UJC3	HOOK1_HUMAN	hook homolog 1	561	Potential.				early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|multicellular organismal development|protein transport	FHF complex|microtubule	identical protein binding			ovary(1)|breast(1)	2	all_cancers(7;0.000129)					ACAGAGGTCCATGAAGAATTA	0.264													14	44					0	0	1	0	0		G	60330855	G	G	60330855	3	3	27	1	0	0	0	0	1	0	0	0	7298	217	8	3	1752	3	HOOK1	1	60330855	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	31749	60330855	188919766	252	22603											
INADL	10207	broad.mit.edu	37	chr1	62550219	62550219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctctgtcagtggaccccGcaacgtgtcccattgtccct	5	11	8	17	2	2	0	1	0	1	0	5	1	5	1	5	1	1	1	5	1	1	1	rs139521421		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:62550219G>A	uc001dab.2	+	33	4390	c.4276G>A	c.(4276-4278)GCA>ACA	p.A1426T	INADL_uc009waf.1_Missense_Mutation_p.A1426T|INADL_uc001daa.2_Missense_Mutation_p.A1426T|INADL_uc001dad.3_Missense_Mutation_p.A1123T|INADL_uc001dac.2_RNA|INADL_uc010oot.1_Missense_Mutation_p.A210T|INADL_uc009wag.2_Missense_Mutation_p.A210T|INADL_uc010oou.1_Missense_Mutation_p.A99T	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1426					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						AGTGGACCCCGCAACGTGTCC	0.512													6	72					0	0	1	0	0		A	62550219	A	A	62550219	3	1	27	1	0	0	0	0	1	0	0	0	7747	1087	38	1	4402	1	INADL	1	62550219	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2219364	62550219	186700402	253	22604											
INADL	10207	broad.mit.edu	37	chr1	62574144	62574144	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catgaagtctatgaagaaggGgcagcagccagagatggaag	15	5	15	6	0	1	4	0	2	1	2	1	6	1	5	1	3	2	2	1	3	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:62574144G>A	uc001dab.2	+	34	4527	c.4413G>A	c.(4411-4413)GGG>GGA	p.G1471G	INADL_uc009waf.1_Silent_p.G1501G|INADL_uc001daa.2_Intron|INADL_uc001dad.3_Silent_p.G1168G|INADL_uc001dac.2_RNA|INADL_uc010oot.1_Silent_p.G285G|INADL_uc009wag.2_Silent_p.G255G|INADL_uc010oou.1_Intron	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1471	PDZ 8.				intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						ATGAAGAAGGGGCAGCAGCCA	0.353													4	48					0	0	1	0	0		A	62574144	A	A	62574144	2	1	27	1	0	0	0	0	0	0	0	1	7747	1219	43	4		4	INADL	1	62574144	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23925	62574144	186676477	254	22605											
INADL	10207	broad.mit.edu	37	chr1	62614010	62614010	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcagcttgaaaacatgtctAcaggctaccaccttggttcg	10	11	8	12	1	2	1	1	1	1	0	3	1	2	1	2	2	4	3	2	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:62614010A>G	uc001dab.2	+	42	5440	c.5326A>G	c.(5326-5328)ACA>GCA	p.T1776A	INADL_uc001dac.2_RNA|INADL_uc009wag.2_Missense_Mutation_p.T560A	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1776					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						AAACATGTCTACAGGCTACCA	0.453													17	210					0	0	1	0	0		G	62614010	G	G	62614010	3	3	27	1	0	0	0	0	1	0	0	0	7747	391	14	3	5488	3	INADL	1	62614010	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	39866	62614010	186636611	255	22606											
L1TD1	54596	broad.mit.edu	37	chr1	62675548	62675548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagaagtaaaagttgctaagCcagaggagatgaaaaactta	20	7	10	4	0	0	4	0	1	0	3	0	5	0	4	1	1	3	3	1	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:62675548C>T	uc001dae.3	+	4	1404	c.1102C>T	c.(1102-1104)CCA>TCA	p.P368S		NM_019079	NP_061952	Q5T7N2	LITD1_HUMAN	LINE-1 type transposase domain containing 1	368										ovary(1)|skin(1)	2						AGTTGCTAAGCCAGAGGAGAT	0.428													10	136					0	0	1	0	0		T	62675548	T	T	62675548	3	4	27	1	0	0	0	0	1	0	0	0	8605	739	26	2	1108	2	L1TD1	1	62675548	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61538	62675548	186575073	256	22607											
L1TD1	54596	broad.mit.edu	37	chr1	62675858	62675858	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggaaactactttcattgActctgtagaggattctgaat	12	14	8	7	0	3	3	1	2	2	1	3	5	3	5	0	2	2	1	0	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:62675858A>T	uc001dae.3	+	4	1714	c.1412A>T	c.(1411-1413)GAC>GTC	p.D471V		NM_019079	NP_061952	Q5T7N2	LITD1_HUMAN	LINE-1 type transposase domain containing 1	471	Glu-rich.									ovary(1)|skin(1)	2						ACTTTCATTGACTCTGTAGAG	0.433													10	67					0	0	1	0	0		T	62675858	T	T	62675858	3	4	27	1	0	0	0	0	1	0	0	0	8605	275	10	5	1418	5	L1TD1	1	62675858	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	310	62675858	186574763	257	22608											
KANK4	163782	broad.mit.edu	37	chr1	62738936	62738936	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggtgagcctgggccgagtAggccgacagcagcaggttga	8	6	18	9	2	0	2	0	2	0	0	0	4	0	2	3	4	3	4	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:62738936A>G	uc001dah.3	-	3	2217	c.1840T>C	c.(1840-1842)TAC>CAC	p.Y614H	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	614										ovary(3)|skin(2)|lung(1)	6						TGGGCCGAGTAGGCCGACAGC	0.642													4	36					0	0	1	0	0		G	62738936	G	G	62738936	3	3	27	1	0	0	0	0	1	0	0	0	7995	420	15	3	1179	3	KANK4	1	62738936	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	63078	62738936	186511685	258	22609											
ANGPTL3	27329	broad.mit.edu	37	chr1	63069820	63069820	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattactggcaatgtccccaAtgcaatcccggaaaacaaag	15	7	8	11	1	0	0	0	0	0	0	2	2	2	1	3	2	3	2	3	2	7	1	rs151187179	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:63069820A>G	uc001das.1	+	6	1163	c.1112A>G	c.(1111-1113)AAT>AGT	p.N371S	DOCK7_uc001dan.2_Intron|DOCK7_uc001dao.2_Intron|DOCK7_uc001dap.2_Intron|DOCK7_uc001daq.2_Intron|DOCK7_uc009wah.1_Intron	NM_014495	NP_055310	Q9Y5C1	ANGL3_HUMAN	angiopoietin-like 3 precursor	371	Fibrinogen C-terminal.				acylglycerol homeostasis|artery morphogenesis|cell-matrix adhesion|cholesterol homeostasis|cholesterol metabolic process|fatty acid metabolic process|glycerol metabolic process|integrin-mediated signaling pathway|lipid storage|negative regulation of lipoprotein lipase activity|negative regulation of phospholipase activity|phospholipid catabolic process|phospholipid homeostasis|positive regulation of angiogenesis|positive regulation of cell migration|positive regulation of lipid catabolic process|triglyceride homeostasis	extracellular space	cell surface binding|growth factor activity|integrin binding|phospholipase inhibitor activity				0						AATGTCCCCAATGCAATCCCG	0.378													3	100					0	0	1	0	0		G	63069820	G	G	63069820	3	3	27	1	0	0	0	0	1	0	0	0	615	101	4	3	1134	3	ANGPTL3	1	63069820	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	330884	63069820	186180801	259	22610											
DOCK7	85440	broad.mit.edu	37	chr1	63090947	63090947	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgcttaaaaaaatttgTcactgtgagagtagctggtc	12	13	9	7	0	1	1	1	1	0	1	2	2	1	1	1	1	3	3	1	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:63090947T>A	uc001daq.2	-	12	1442	c.1408A>T	c.(1408-1410)ACA>TCA	p.T470S	DOCK7_uc001dan.2_Missense_Mutation_p.T362S|DOCK7_uc001dao.2_Missense_Mutation_p.T362S|DOCK7_uc001dap.2_Missense_Mutation_p.T470S|DOCK7_uc009wah.1_Missense_Mutation_p.T470S	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	470					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						AAAAAATTTGTCACTGTGAGA	0.368													14	150					0	0	1	0	0		A	63090947	A	A	63090947	3	1	27	1	0	0	0	0	1	0	0	0	4698	1667	58	5	5073	5	DOCK7	1	63090947	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	21127	63090947	186159674	260	22611											
ROR1	4919	broad.mit.edu	37	chr1	64644121	64644121	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccagggtattacaccacaGggccagattgctggtttcat	10	10	11	10	0	1	1	1	0	0	1	1	1	1	1	3	3	3	3	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:64644121G>T	uc001dbj.2	+	9	2796	c.2397G>T	c.(2395-2397)CAG>CAT	p.Q799H	uc001dbm.2_5'Flank	NM_005012	NP_005003	Q01973	ROR1_HUMAN	receptor tyrosine kinase-like orphan receptor 1	799	Cytoplasmic (Potential).|Pro-rich.				transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19						TTACACCACAGGGCCAGATTG	0.512													22	77					1.22574e-08	1.34919e-08	1	1	0		T	64644121	T	T	64644121	3	4	27	1	0	0	0	0	1	0	0	0	13551	991	35	5	2439	5	ROR1	1	64644121	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1553174	64644121	184606500	261	22612											
CACHD1	57685	broad.mit.edu	37	chr1	65120394	65120394	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgggcagccagattatcGcagtccctgtgaactcatcc	8	10	9	14	1	2	2	1	1	1	1	5	2	4	2	3	1	2	2	3	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:65120394G>A	uc001dbo.1	+	12	1642	c.1537G>A	c.(1537-1539)GCA>ACA	p.A513T	CACHD1_uc001dbp.1_Missense_Mutation_p.A268T|CACHD1_uc001dbq.1_Missense_Mutation_p.A268T	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	564	Extracellular (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						CCAGATTATCGCAGTCCCTGT	0.433													9	147					0	0	1	0	0		A	65120394	A	A	65120394	3	1	27	1	0	0	0	0	1	0	0	0	2540	1087	38	1	1583	1	CACHD1	1	65120394	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	476273	65120394	184130227	262	22613											
JAK1	3716	broad.mit.edu	37	chr1	65332662	65332662	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctcattttctgatgaaaTcagtaacatggaagtctcaa	14	13	6	8	0	4	2	3	2	3	0	6	3	4	3	0	1	1	1	0	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:65332662T>A	uc001dbu.1	-	7	1126	c.877A>T	c.(877-879)ATT>TTT	p.I293F	JAK1_uc009wam.1_Missense_Mutation_p.I281F	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	293	FERM.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		TCTGATGAAATCAGTAACATG	0.423			Mis		ALL								10	112					0	0	1	0	0		A	65332662	A	A	65332662	3	1	27	1	0	0	0	0	1	0	0	0	7953	1435	50	5	2663	5	JAK1	1	65332662	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	212268	65332662	183917959	263	22614											
DNAJC6	9829	broad.mit.edu	37	chr1	65851520	65851520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacagaggaatggatgtcGcccttactgtgatgtactca	12	10	10	9	1	1	2	1	1	0	1	2	4	1	4	1	2	3	1	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:65851520G>A	uc001dcd.1	+	7	919	c.755G>A	c.(754-756)CGC>CAC	p.R252H	DNAJC6_uc001dcc.1_Missense_Mutation_p.R283H|DNAJC6_uc010opc.1_Missense_Mutation_p.R239H|DNAJC6_uc001dce.1_Missense_Mutation_p.R309H	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	252	C2 tensin-type.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						AATGGATGTCGCCCTTACTGT	0.418													6	82					0	0	1	0	0		A	65851520	A	A	65851520	3	1	27	1	0	0	0	0	1	0	0	0	4659	1087	38	1	781	1	DNAJC6	1	65851520	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	518858	65851520	183399101	264	22615											
DNAJC6	9829	broad.mit.edu	37	chr1	65871610	65871610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggattgggtggaggattccCgcctctcagctcgccacaga	7	9	13	12	2	1	1	1	0	1	1	4	4	2	4	3	4	1	1	3	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:65871610C>T	uc001dcd.1	+	16	2278	c.2114C>T	c.(2113-2115)CCG>CTG	p.P705L	DNAJC6_uc010opc.1_Missense_Mutation_p.P692L|DNAJC6_uc001dce.1_Missense_Mutation_p.P762L	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	705	Pro-rich.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						GGAGGATTCCCGCCTCTCAGC	0.537													5	65					0	0	1	0	0		T	65871610	T	T	65871610	3	4	27	1	0	0	0	0	1	0	0	0	4659	652	23	1	2176	1	DNAJC6	1	65871610	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20090	65871610	183379011	265	22616											
DNAJC6	9829	broad.mit.edu	37	chr1	65878634	65878634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaaccctatgaacaatacGcaaagatgattttcatggag	15	9	9	8	1	1	3	1	2	0	1	1	4	1	4	1	2	3	2	1	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:65878634G>A	uc001dcd.1	+	19	2832	c.2668G>A	c.(2668-2670)GCA>ACA	p.A890T	DNAJC6_uc010opc.1_Missense_Mutation_p.A877T|DNAJC6_uc001dce.1_Missense_Mutation_p.A947T	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	890	J.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						TGAACAATACGCAAAGATGAT	0.368													14	178					0	0	1	0	0		A	65878634	A	A	65878634	3	1	27	1	0	0	0	0	1	0	0	0	4659	1087	38	1	2742	1	DNAJC6	1	65878634	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7024	65878634	183371987	266	22617											
LEPR	3953	broad.mit.edu	37	chr1	66102560	66102560	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagttctccaggacagttgCtcacactttgtagaaaataa	14	11	8	8	0	2	2	1	0	1	2	3	3	2	3	1	1	1	4	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:66102560C>A	uc001dci.2	+	20	3562	c.3360C>A	c.(3358-3360)TGC>TGA	p.C1120*	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	1120	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		AGGACAGTTGCTCACACTTTG	0.423													12	37					6.40141e-05	6.80234e-05	1	1	0		A	66102560	A	A	66102560	4	1	27	1	0	0	0	0	0	1	0	0	8744	805	28	5	3660	5	LEPR	1	66102560	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	223926	66102560	183148061	267	22618											
TCTEX1D1	200132	broad.mit.edu	37	chr1	67241991	67241991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacattttcctgtggtcaccGtcaatcatattttgaaagat	12	15	6	8	1	3	2	3	1	0	1	4	2	4	2	2	1	1	0	2	1	4	5	rs149149763		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:67241991G>A	uc001dcv.2	+	4	372	c.241G>A	c.(241-243)GTC>ATC	p.V81I	TCTEX1D1_uc009wau.2_RNA|TCTEX1D1_uc009wav.2_Intron	NM_152665	NP_689878	Q8N7M0	TC1D1_HUMAN	Tctex1 domain containing 1	81											0						TGTGGTCACCGTCAATCATAT	0.373													4	77					0	0	1	0	0		A	67241991	A	A	67241991	3	1	27	1	0	0	0	0	1	0	0	0	15744	1145	40	1	251	1	TCTEX1D1	1	67241991	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1139431	67241991	182008630	268	22619											
WDR78	79819	broad.mit.edu	37	chr1	67356835	67356835	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaacaagtatattttcattAcctgtgaaactagtcaatct	15	15	4	7	0	3	1	2	1	1	0	3	1	3	1	1	0	3	1	1	0	9	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:67356835A>G	uc001dcx.2	-	4	699	c.643_splice	c.e4+1	p.D215_splice	WDR78_uc001dcy.2_Splice_Site_p.D215_splice|WDR78_uc001dcz.2_Splice_Site_p.D215_splice|WDR78_uc009wax.2_5'Flank	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1											ovary(2)	2						TATTTTCATTACCTGTGAAAC	0.328													9	91					0	0	1	0	0		G	67356835	G	G	67356835	5	3	27	1	0	0	0	0	0	0	1	0	17354	405	14	3	2014	3	WDR78	1	67356835	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	114844	67356835	181893786	269	22620											
MIER1	57708	broad.mit.edu	37	chr1	67411924	67411924	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacgaacattagaagaggaAgaaatgatggaaggagaaac	21	4	13	3	1	0	5	0	1	0	4	0	10	0	7	0	3	3	0	0	3	8	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:67411924A>G	uc001dde.2	+	4	419	c.285A>G	c.(283-285)GAA>GAG	p.E95E	MIER1_uc001dda.3_3'UTR|MIER1_uc010opf.1_Silent_p.E59E|MIER1_uc009way.2_Silent_p.E59E|MIER1_uc001ddc.2_Silent_p.E95E|MIER1_uc001ddh.2_Intron|MIER1_uc001ddf.2_Silent_p.E59E|MIER1_uc001ddg.2_Silent_p.E15E|MIER1_uc010opg.1_Silent_p.E59E|MIER1_uc001ddj.1_Silent_p.E42E|MIER1_uc001ddi.2_Silent_p.E42E	NM_001077700	NP_001071168	Q8N108	MIER1_HUMAN	mesoderm induction early response 1 isoform b	66	Glu-rich.				positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)	1						TAGAAGAGGAAGAAATGATGG	0.383													6	70					0	0	1	0	0		G	67411924	G	G	67411924	2	3	27	1	0	0	0	0	0	0	0	1	9598	69	3	3		3	MIER1	1	67411924	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	55089	67411924	181838697	270	22621											
SLC35D1	23169	broad.mit.edu	37	chr1	67512970	67512970	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaatctaatttttgttttAcgtatgcaccatttgctgct	8	20	6	7	1	1	1	0	1	1	0	1	1	1	1	1	0	4	5	1	0	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:67512970A>G	uc001ddk.2	-	7	998	c.614T>C	c.(613-615)GTA>GCA	p.V205A	SLC35D1_uc010oph.1_Missense_Mutation_p.V126A	NM_015139	NP_055954	Q9NTN3	S35D1_HUMAN	solute carrier family 35 (UDP-glucuronic	205	Helical; (Potential).				chondroitin sulfate biosynthetic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	integral to endoplasmic reticulum membrane	UDP-glucuronic acid transmembrane transporter activity|UDP-N-acetylgalactosamine transmembrane transporter activity				0					Lorazepam(DB00186)	TTTTTGTTTTACGTATGCACC	0.358													5	54					0	0	1	0	0		G	67512970	G	G	67512970	3	3	27	1	0	0	0	0	1	0	0	0	14606	391	14	3	477	3	SLC35D1	1	67512970	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	101046	67512970	181737651	271	22622											
IL23R	149233	broad.mit.edu	37	chr1	67721560	67721560	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttaataccaaagtggcttTatgaagatattcctaatatg	14	15	7	5	0	0	2	0	1	0	1	1	2	1	2	2	1	1	2	2	1	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:67721560T>C	uc001ddo.2	+	10	1274	c.1189T>C	c.(1189-1191)TAT>CAT	p.Y397H	IL23R_uc009waz.2_Missense_Mutation_p.Y194H|IL23R_uc001ddp.2_RNA|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_5'UTR|IL23R_uc010opk.1_Intron|IL23R_uc010opl.1_Intron|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_Missense_Mutation_p.Y143H|IL23R_uc010opn.1_Missense_Mutation_p.Y242H|IL23R_uc001ddr.2_RNA|IL23R_uc010opo.1_Missense_Mutation_p.Y256H|IL23R_uc010opp.1_RNA|IL23R_uc010opq.1_Missense_Mutation_p.Y226H|IL23R_uc010opr.1_RNA|IL23R_uc010ops.1_Missense_Mutation_p.Y194H|IL23R_uc010opt.1_Missense_Mutation_p.Y38H|IL23R_uc010opu.1_Missense_Mutation_p.Y93H|IL23R_uc010opv.1_Missense_Mutation_p.Y155H|IL23R_uc010opw.1_Missense_Mutation_p.Y32H|IL23R_uc010opx.1_Missense_Mutation_p.Y38H|IL23R_uc010opy.1_Missense_Mutation_p.Y164H|IL23R_uc010opz.1_Missense_Mutation_p.Y38H|IL23R_uc010oqa.1_Missense_Mutation_p.Y38H|IL23R_uc010oqb.1_Missense_Mutation_p.Y226H|IL23R_uc010oqc.1_Missense_Mutation_p.Y113H|IL23R_uc010oqd.1_Missense_Mutation_p.Y32H|IL23R_uc010oqe.1_5'UTR|IL23R_uc010oqf.1_5'UTR|IL23R_uc010oqg.1_5'UTR|IL23R_uc010oqh.1_Missense_Mutation_p.Y38H|IL23R_uc001dds.2_Missense_Mutation_p.Y142H|IL23R_uc001ddt.2_5'UTR	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	397	Cytoplasmic (Potential).				inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						AAAGTGGCTTTATGAAGATAT	0.338													6	48					0	0	1	0	0		C	67721560	C	C	67721560	3	2	27	1	0	0	0	0	1	0	0	0	7692	1754	61	3	1223	3	IL23R	1	67721560	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	208590	67721560	181529061	272	22623											
IL12RB2	3595	broad.mit.edu	37	chr1	67787284	67787284	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcatctgtatcttattgcaGatgcgtgcaagagaggcgat	10	12	12	7	2	2	2	0	0	2	2	2	4	2	2	0	1	4	4	0	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:67787284G>C	uc001ddu.2	+	3	717	c.77_splice	c.e3-1	p.D26_splice	IL12RB2_uc010oqi.1_Splice_Site_p.D26_splice|IL12RB2_uc010oqj.1_Splice_Site_p.D26_splice|IL12RB2_uc010oqk.1_Splice_Site|IL12RB2_uc010oql.1_Splice_Site_p.D26_splice|IL12RB2_uc010oqm.1_Splice_Site_p.D26_splice|IL12RB2_uc010oqn.1_Splice_Site	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor						positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						TCTTATTGCAGATGCGTGCAA	0.383													8	117					0	0	1	0	0		C	67787284	C	C	67787284	5	2	27	1	0	0	0	0	0	0	1	0	7643	956	33	5	82	5	IL12RB2	1	67787284	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	65724	67787284	181463337	273	22624											
LRRC7	57554	broad.mit.edu	37	chr1	70226075	70226075	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaattgaagaactacccaAggtaacttttgacaacctaa	17	10	5	9	0	1	3	1	2	0	1	1	3	1	3	2	1	4	1	2	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:70226075A>G	uc001dep.2	+	1	218	c.188A>G	c.(187-189)AAG>AGG	p.K63R	LRRC7_uc001deo.1_Missense_Mutation_p.K101R|LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	63	LRR 2.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GAACTACCCAAGGTAACTTTT	0.353													5	29					0	0	1	0	0		G	70226075	G	G	70226075	3	3	27	1	0	0	0	0	1	0	0	0	9038	86	3	3	190	3	LRRC7	1	70226075	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2438791	70226075	179024546	274	22625											
LRRC7	57554	broad.mit.edu	37	chr1	70504911	70504911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatctgtgaatgaggatgCtgtggtgaatgcccagttcg	8	11	14	8	1	1	3	0	3	1	0	2	4	1	4	2	2	2	2	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:70504911C>T	uc001dep.2	+	19	3320	c.3290C>T	c.(3289-3291)GCT>GTT	p.A1097V	LRRC7_uc009wbg.2_Missense_Mutation_p.A381V|LRRC7_uc001deq.2_Missense_Mutation_p.A338V	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1097						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						AATGAGGATGCTGTGGTGAAT	0.517													9	108					0	0	1	0	0		T	70504911	T	T	70504911	3	4	27	1	0	0	0	0	1	0	0	0	9038	797	28	2	3364	2	LRRC7	1	70504911	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	278836	70504911	178745710	275	22626											
TNNI3K	51086	broad.mit.edu	37	chr1	74737329	74737329	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcacagtggagctgatatAcagcaggttggatacggtgg	10	10	14	7	1	1	1	1	1	0	0	1	3	1	3	0	5	4	3	0	5	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:74737329A>G	uc001dgf.1	+	5	432	c.381A>G	c.(379-381)ATA>ATG	p.I127M	TNNI3K_uc001dgc.1_Missense_Mutation_p.I228M|TNNI3K_uc001dgd.2_Missense_Mutation_p.I228M|TNNI3K_uc001dge.1_Missense_Mutation_p.I228M	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	127	ANK 2.			I -> V (in Ref. 8; AAH32865).		cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						GAGCTGATATACAGCAGGTTG	0.428													19	136					0	0	1	0	0		G	74737329	G	G	74737329	3	3	27	1	0	0	0	0	1	0	0	0	16354	381	14	3	754	3	TNNI3K	1	74737329	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4232418	74737329	174513292	276	22627											
C1orf173	127254	broad.mit.edu	37	chr1	75036811	75036811	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaagtctcctagacctgcAcgttgttgggggaaacatct	10	10	11	10	1	2	1	0	0	2	1	3	2	2	2	2	2	3	4	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:75036811A>G	uc001dgg.2	-	14	4802	c.4583T>C	c.(4582-4584)ATG>ACG	p.M1528T		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1528										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTAGACCTGCACGTTGTTGGG	0.522													15	132					0	0	1	0	0		G	75036811	G	G	75036811	3	3	27	1	0	0	0	0	1	0	0	0	2017	159	6	3	13	3	C1orf173	1	75036811	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	299482	75036811	174213810	277	22628											
C1orf173	127254	broad.mit.edu	37	chr1	75072508	75072508	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagccttcttcagttcCtctcctttctcagtgctctt	3	17	4	17	0	6	0	3	0	4	0	9	0	7	0	4	0	2	2	4	0	0	5	rs138387900	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:75072508C>A	uc001dgg.2	-	10	1485	c.1266G>T	c.(1264-1266)GAG>GAT	p.E422D	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.E216D	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	422	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TCTTCAGTTCCTCTCCTTTCT	0.403													13	139					7.03913e-09	7.75164e-09	1	1	0		A	75072508	A	A	75072508	3	1	27	1	0	0	0	0	1	0	0	0	2017	680	24	5	3346	5	C1orf173	1	75072508	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	35697	75072508	174178113	278	22629											
CRYZ	1429	broad.mit.edu	37	chr1	75175906	75175906	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttaagccataagctctaGcaatttggcatgctgctaat	11	14	7	9	0	2	0	0	0	2	0	2	0	2	0	1	1	5	5	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:75175906G>T	uc001dgk.2	-	7	1011	c.506C>A	c.(505-507)GCT>GAT	p.A169D	CRYZ_uc001dgj.2_Missense_Mutation_p.A169D|CRYZ_uc001dgl.2_Missense_Mutation_p.A169D|CRYZ_uc001dgm.2_Missense_Mutation_p.A32D	NM_001130042	NP_001123514	Q08257	QOR_HUMAN	crystallin, zeta isoform a	169					protein homotetramerization|visual perception|xenobiotic catabolic process	cytosol|Golgi apparatus	mRNA 3'-UTR binding|NADPH binding|NADPH:quinone reductase activity|zinc ion binding				0					Dicumarol(DB00266)	ATAAGCTCTAGCAATTTGGCA	0.368													4	59					1.024e-07	1.12055e-07	1	1	0		T	75175906	T	T	75175906	3	4	27	1	0	0	0	0	1	0	0	0	3925	971	34	5	499	5	CRYZ	1	75175906	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	103398	75175906	174074715	279	22630											
ASB17	127247	broad.mit.edu	37	chr1	76384670	76384670	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagatagttttgtagacgAgcaggaattagaagtgaaaa	16	11	11	3	1	1	4	1	1	0	3	1	6	1	5	0	1	1	3	0	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:76384670A>G	uc001dhe.1	-	3	995	c.855T>C	c.(853-855)GCT>GCC	p.A285A	ASB17_uc001dhf.1_RNA	NM_080868	NP_543144	Q8WXJ9	ASB17_HUMAN	ankyrin repeat and SOCS box-containing 17	285	SOCS box.				intracellular signal transduction					ovary(1)	1						TTTGTAGACGAGCAGGAATTA	0.333													5	76					0	0	1	0	0		G	76384670	G	G	76384670	2	3	27	1	0	0	0	0	0	0	0	1	1022	291	11	3		3	ASB17	1	76384670	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1208764	76384670	172865951	280	22631											
ST6GALNAC5	81849	broad.mit.edu	37	chr1	77528783	77528783	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccgctttatcacagagaaAcgagtctttaagaactgggc	13	9	9	10	2	2	2	1	0	1	2	2	4	2	2	1	1	2	1	1	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:77528783A>G	uc001dhi.2	+	5	1078	c.903A>G	c.(901-903)AAA>AAG	p.K301K	ST6GALNAC5_uc010ori.1_3'UTR|ST6GALNAC5_uc009wbw.2_RNA|ST6GALNAC5_uc001dhj.2_5'Flank	NM_030965	NP_112227	Q9BVH7	SIA7E_HUMAN	sialyltransferase 7E	301	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			pancreas(1)|skin(1)	2						TCACAGAGAAACGAGTCTTTA	0.413													5	124					0	0	1	0	0		G	77528783	G	G	77528783	2	3	27	1	0	0	0	0	0	0	0	1	15252	40	2	3		3	ST6GALNAC5	1	77528783	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1144113	77528783	171721838	281	22632											
USP33	23032	broad.mit.edu	37	chr1	78163606	78163606	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttagtattgtcaataggAcctggaggatctaaaggaaa	15	11	10	5	0	3	0	1	0	2	0	3	4	3	4	1	4	0	1	1	4	7	5	rs35826044		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:78163606A>G	uc001dht.2	-	24	2960	c.2613T>C	c.(2611-2613)GGT>GGC	p.G871G	USP33_uc009wca.1_RNA|USP33_uc001dhs.2_Missense_Mutation_p.V558A|USP33_uc001dhu.2_Silent_p.G840G	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	871	DUSP 2.				axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						TGTCAATAGGACCTGGAGGAT	0.308													11	157					0	0	1	0	0		G	78163606	G	G	78163606	2	3	27	1	0	0	0	0	0	0	0	1	17090	262	10	3		3	USP33	1	78163606	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	634823	78163606	171087015	282	22633											
USP33	23032	broad.mit.edu	37	chr1	78194238	78194238	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctatcactgttgctacAagattcacaagactgaaaat	14	12	6	9	0	3	3	2	1	1	2	3	3	3	3	0	0	3	3	0	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:78194238A>G	uc001dht.2	-	11	1317	c.970T>C	c.(970-972)TGT>CGT	p.C324R	USP33_uc001dhs.2_Missense_Mutation_p.C45R|USP33_uc001dhu.2_Missense_Mutation_p.C293R|USP33_uc001dhv.2_Missense_Mutation_p.C129R|USP33_uc001dhw.2_Missense_Mutation_p.C324R	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	324					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						CTGTTGCTACAAGATTCACAA	0.373													5	82					0	0	1	0	0		G	78194238	G	G	78194238	3	3	27	1	0	0	0	0	1	0	0	0	17090	130	5	3	1930	3	USP33	1	78194238	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	30632	78194238	171056383	283	22634											
USP33	23032	broad.mit.edu	37	chr1	78205094	78205094	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttcacagttagataatgCtttgtctcctatataatttc	11	17	6	7	0	2	1	1	0	1	1	4	1	2	1	1	1	1	3	1	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:78205094C>T	uc001dht.2	-	6	647	c.300G>A	c.(298-300)AAG>AAA	p.K100K	USP33_uc001dhu.2_Silent_p.K69K|USP33_uc001dhv.2_5'UTR|USP33_uc001dhw.2_Silent_p.K100K	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	100	UBP-type.				axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						TTAGATAATGCTTTGTCTCCT	0.353													3	41					0	0	1	0	0		T	78205094	T	T	78205094	2	4	27	1	0	0	0	0	0	0	0	1	17090	796	28	2		2	USP33	1	78205094	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10856	78205094	171045527	284	22635											
USP33	23032	broad.mit.edu	37	chr1	78207399	78207399	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattttgttaggaatttttTcctgtttcccaagactttca	9	19	5	8	0	1	1	1	0	0	1	3	2	3	2	2	1	0	2	2	1	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:78207399T>C	uc001dht.2	-	3	424	c.77A>G	c.(76-78)GAA>GGA	p.E26G	USP33_uc001dhu.2_5'UTR|USP33_uc001dhv.2_5'Flank|USP33_uc001dhw.2_Missense_Mutation_p.E26G	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	26					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						AGGAATTTTTTCCTGTTTCCC	0.308													4	40					0	0	1	0	0		C	78207399	C	C	78207399	3	2	27	1	0	0	0	0	1	0	0	0	17090	1783	62	3	2855	3	USP33	1	78207399	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2305	78207399	171043222	285	22636											
FUBP1	8880	broad.mit.edu	37	chr1	78425903	78425903	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgctgctgccagtgtggAtatgcatttccccatccctg	5	12	10	14	0	0	0	0	0	0	0	2	1	2	1	5	1	4	3	5	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:78425903A>T	uc001dii.2	-	16	1631	c.1542T>A	c.(1540-1542)TAT>TAA	p.Y514*	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Nonsense_Mutation_p.Y535*	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	514	Pro-rich.				transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						GCCAGTGTGGATATGCATTTC	0.413													7	72					0	0	1	0	0		T	78425903	T	T	78425903	4	4	27	1	0	0	0	0	0	1	0	0	6106	340	12	5	412	5	FUBP1	1	78425903	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	218504	78425903	170824718	286	22637											
FUBP1	8880	broad.mit.edu	37	chr1	78429943	78429943	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattatatgtactcacctggCttaaactgaatgcgaacacc	13	12	6	10	1	1	1	1	1	0	0	1	2	1	1	2	1	4	2	2	1	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:78429943C>T	uc001dii.2	-	11	1025	c.936G>A	c.(934-936)AAG>AAA	p.K312K	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Silent_p.K333K	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	312	KH 3.				transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						ACTCACCTGGCTTAAACTGAA	0.333													6	69					0	0	1	0	0		T	78429943	T	T	78429943	2	4	27	1	0	0	0	0	0	0	0	1	6106	796	28	2		2	FUBP1	1	78429943	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4040	78429943	170820678	287	22638											
LPHN2	23266	broad.mit.edu	37	chr1	82432273	82432273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctgactgatcctgtgcttTttaccctgccacacattgat	8	14	6	13	0	0	3	0	3	0	0	1	3	1	3	4	0	3	1	4	0	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:82432273T>C	uc001dit.3	+	12	2459	c.2278T>C	c.(2278-2280)TTT>CTT	p.F760L	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.F760L|LPHN2_uc001div.2_Missense_Mutation_p.F760L|LPHN2_uc009wcd.2_Missense_Mutation_p.F760L|LPHN2_uc001diw.2_Missense_Mutation_p.F344L	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	773	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		TCCTGTGCTTTTTACCCTGCC	0.393													13	150					0	0	1	0	0		C	82432273	C	C	82432273	3	2	27	1	0	0	0	0	1	0	0	0	8934	1841	64	3	2316	3	LPHN2	1	82432273	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4002330	82432273	166818348	288	22639											
LPHN2	23266	broad.mit.edu	37	chr1	82436047	82436047	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acactttttctttttggcagCttttgcttggatgtgcctag	5	19	9	8	0	1	0	0	0	1	0	1	1	1	1	1	2	3	3	1	2	1	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:82436047C>T	uc001dit.3	+	15	2913	c.2732C>T	c.(2731-2733)GCT>GTT	p.A911V	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.A911V|LPHN2_uc001div.2_Missense_Mutation_p.A911V|LPHN2_uc009wcd.2_Missense_Mutation_p.A911V|LPHN2_uc001diw.2_Missense_Mutation_p.A495V|LPHN2_uc009wce.1_5'UTR	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	924	Helical; Name=3; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		TTTTTGGCAGCTTTTGCTTGG	0.348													10	127					0	0	1	0	0		T	82436047	T	T	82436047	3	4	27	1	0	0	0	0	1	0	0	0	8934	797	28	2	2782	2	LPHN2	1	82436047	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3774	82436047	166814574	289	22640											
LPHN2	23266	broad.mit.edu	37	chr1	82447656	82447656	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttcactgtgctctccaaaAgaaagtaagtaattgaaaac	16	11	6	8	0	2	2	1	1	1	1	3	2	2	2	1	0	2	3	1	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:82447656A>G	uc001dit.3	+	18	3408	c.3227A>G	c.(3226-3228)AAG>AGG	p.K1076R	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.K1076R|LPHN2_uc001div.2_Missense_Mutation_p.K1076R|LPHN2_uc009wcd.2_Missense_Mutation_p.K1076R|LPHN2_uc001diw.2_Missense_Mutation_p.K660R|LPHN2_uc009wce.1_Missense_Mutation_p.K177R	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	1089	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		GCTCTCCAAAAGAAAGTAAGT	0.318													8	54					0	0	1	0	0		G	82447656	G	G	82447656	3	3	27	1	0	0	0	0	1	0	0	0	8934	72	3	3	3289	3	LPHN2	1	82447656	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11609	82447656	166802965	290	22641											
LPHN2	23266	broad.mit.edu	37	chr1	82456638	82456638	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagaagacctctctcccTccaggaggagtgagaatgag	12	7	13	9	0	1	4	0	2	1	3	4	8	3	7	3	3	0	0	3	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:82456638T>C	uc001dit.3	+	21	4202	c.4021T>C	c.(4021-4023)TCC>CCC	p.S1341P	LPHN2_uc001dis.2_Missense_Mutation_p.S321P|LPHN2_uc001diu.2_Missense_Mutation_p.S1341P|LPHN2_uc001div.2_3'UTR|LPHN2_uc009wcd.2_3'UTR|LPHN2_uc001diw.2_Missense_Mutation_p.S968P	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	1397	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		CCTCTCTCCCTCCAGGAGGAG	0.318													10	79					0	0	1	0	0		C	82456638	C	C	82456638	3	2	27	1	0	0	0	0	1	0	0	0	8934	1551	54	3	4095	3	LPHN2	1	82456638	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8982	82456638	166793983	291	22642											
TTLL7	79739	broad.mit.edu	37	chr1	84394887	84394887	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagtctattttctgatcAgttccaaagcttggggctcg	8	15	9	9	1	4	1	2	1	2	0	6	1	5	1	1	2	1	3	1	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:84394887A>G	uc001djc.2	-	10	1470	c.1074T>C	c.(1072-1074)ACT>ACC	p.T358T	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_RNA|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	358	TTL.				cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		TTTTCTGATCAGTTCCAAAGC	0.328													7	66					0	0	1	0	0		G	84394887	G	G	84394887	2	3	27	1	0	0	0	0	0	0	0	1	16758	175	7	3		3	TTLL7	1	84394887	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1938249	84394887	164855734	292	22643											
TTLL7	79739	broad.mit.edu	37	chr1	84403686	84403686	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagtagtttgtcagatgcAtgtataactgggtctgtaac	10	13	12	6	1	2	1	1	0	1	1	2	2	2	2	0	2	3	5	0	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:84403686A>G	uc001djc.2	-	8	1133	c.737T>C	c.(736-738)ATG>ACG	p.M246T	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_Intron|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	246	TTL.				cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		TGTCAGATGCATGTATAACTG	0.393													10	103					0	0	1	0	0		G	84403686	G	G	84403686	3	3	27	1	0	0	0	0	1	0	0	0	16758	217	8	3	1982	3	TTLL7	1	84403686	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8799	84403686	164846935	293	22644											
TTLL7	79739	broad.mit.edu	37	chr1	84417647	84417647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tattcaaatccaggggagagGgtccctgaataactttaaaa	15	10	9	7	0	1	2	1	1	0	1	3	3	3	2	2	3	1	0	2	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:84417647G>A	uc001djc.2	-	3	434	c.38C>T	c.(37-39)CCC>CTC	p.P13L	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_Intron|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	13				P -> S (in Ref. 1; AAO37763).	cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		CAGGGGAGAGGGTCCCTGAAT	0.373													8	54					0	0	1	0	0		A	84417647	A	A	84417647	3	1	27	1	0	0	0	0	1	0	0	0	16758	1232	43	4	2701	4	TTLL7	1	84417647	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13961	84417647	164832974	294	22645											
DNASE2B	58511	broad.mit.edu	37	chr1	84864327	84864327	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctttggggtgctgggggCagcaacaatttcatgcagaa	9	10	13	9	0	2	1	1	0	1	1	2	1	2	1	1	4	4	4	1	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:84864327C>T	uc001djt.1	+	1	113	c.80C>T	c.(79-81)GCA>GTA	p.A27V	UOX_uc009wcg.2_5'Flank	NM_021233	NP_067056	Q8WZ79	DNS2B_HUMAN	deoxyribonuclease II beta isoform 1 precursor	27					DNA metabolic process	lysosome	deoxyribonuclease II activity				0				all cancers(265;0.00303)|Epithelial(280;0.0112)|OV - Ovarian serous cystadenocarcinoma(397;0.0808)		GTGCTGGGGGCAGCAACAATT	0.463								Direct_reversal_of_damage					46	183					0	0	1	0	0		T	84864327	T	T	84864327	3	4	27	1	0	0	0	0	1	0	0	0	4671	710	25	2	82	2	DNASE2B	1	84864327	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	446680	84864327	164386294	295	22646											
RPF1	80135	broad.mit.edu	37	chr1	84961748	84961748	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcttcagatttcacaggTgaggaaggtaaactcattga	13	13	9	6	0	4	3	3	2	1	1	4	4	4	4	0	3	1	1	0	3	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:84961748T>C	uc001djv.3	+	7	926	c.881_splice	c.e7+2	p.R294_splice		NM_025065	NP_079341	Q9H9Y2	RPF1_HUMAN	RNA processing factor 1						rRNA processing|translation	nucleolus	aminoacyl-tRNA ligase activity|ATP binding|rRNA binding				0						ATTTCACAGGTGAGGAAGGTA	0.328													3	48					0	0	1	0	0		C	84961748	C	C	84961748	5	2	27	1	0	0	0	0	0	0	1	0	13571	1710	59	3	909	3	RPF1	1	84961748	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	97421	84961748	164288873	296	22647											
SPATA1	64173	broad.mit.edu	37	chr1	84986284	84986284	+	Frame_Shift_Del	DEL	T	-	-																															tcagttggtggaacttcatgTtttttatgtccctgaaggat																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:84986284delT	uc001djz.1	+	3	318	c.119delT	c.(118-120)GTTfs	p.V40fs	SPATA1_uc001djx.2_Frame_Shift_Del_p.V40fs|SPATA1_uc001djy.1_RNA	NM_001081472	NP_001074941			spermatogenesis associated 1											central_nervous_system(1)	1				Epithelial(280;4.36e-10)|all cancers(265;7.1e-09)|BRCA - Breast invasive adenocarcinoma(282;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(397;0.00286)|KIRC - Kidney renal clear cell carcinoma(1967;0.0111)		GAACTTCATGTTTTTTATGTC	0.294													6	13	---	---	---	---						.	-	84986284	-	-	84986284	7	5	27	1	0	1	0	1	0	0	0	0	15023	1725	60	0	125	0	SPATA1	1	84986284	Frame_Shift_Del	DEL	T	TCGA-BR-6452-01A-12D-1800-08	24536	84986284	164264337	297	22648											
SSX2IP	117178	broad.mit.edu	37	chr1	85128059	85128059	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatacatttcatcttcattcCtgagaaagaaactgtcagta	14	14	5	8	0	4	2	3	1	1	2	5	3	5	2	1	0	2	1	1	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:85128059C>T	uc001dkh.2	-	9	1025	c.750_splice	c.e9-1	p.R250_splice	SSX2IP_uc001dkf.2_Splice_Site_p.R223_splice|SSX2IP_uc001dkg.2_Splice_Site|SSX2IP_uc010orz.1_Splice_Site_p.R223_splice|SSX2IP_uc001dki.2_Splice_Site_p.R250_splice|SSX2IP_uc010osa.1_Splice_Site_p.R223_splice|SSX2IP_uc001dkj.2_Splice_Site_p.R250_splice|SSX2IP_uc009wci.2_Intron|SSX2IP_uc001dkk.1_Splice_Site_p.R246_splice	NM_014021	NP_054740	Q9Y2D8	ADIP_HUMAN	synovial sarcoma, X breakpoint 2 interacting						cell adhesion	nucleus|protein complex				ovary(2)	2				all cancers(265;0.0053)|Epithelial(280;0.0214)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		ATCTTCATTCCTGAGAAAGAA	0.328													10	80					0	0	1	0	0		T	85128059	T	T	85128059	5	4	27	1	0	0	0	0	0	0	1	0	15229	695	24	4	1123	4	SSX2IP	1	85128059	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	141775	85128059	164122562	298	22649											
LPAR3	23566	broad.mit.edu	37	chr1	85279740	85279740	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggttcacgacggagttgAgcagcgccagcagcaggaac	10	5	16	10	3	1	1	1	1	0	0	1	4	1	3	1	4	5	5	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:85279740A>C	uc001dkl.2	-	2	890	c.851T>G	c.(850-852)CTC>CGC	p.L284R	LPAR3_uc009wcj.1_Missense_Mutation_p.L284R	NM_012152	NP_036284	Q9UBY5	LPAR3_HUMAN	lysophosphatidic acid receptor 3	284	Helical; Name=7; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane|intracellular membrane-bounded organelle				lung(3)|ovary(2)	5						GACGGAGTTGAGCAGCGCCAG	0.577													7	98					0	0	1	0	0		C	85279740	C	C	85279740	3	2	27	1	0	0	0	0	1	0	0	0	8924	304	11	5	214	5	LPAR3	1	85279740	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	151681	85279740	163970881	299	22650											
MCOLN3	55283	broad.mit.edu	37	chr1	85484879	85484879	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttccagagttgggtagaTctttgcattctgatataaat	11	17	8	5	0	2	3	0	1	2	2	3	3	3	3	1	1	1	3	1	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:85484879T>A	uc001dkp.2	-	13	1682	c.1589A>T	c.(1588-1590)GAT>GTT	p.D530V	MCOLN3_uc001dko.2_Missense_Mutation_p.D149V|MCOLN3_uc001dkq.2_Missense_Mutation_p.D474V	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	530						integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		GTTGGGTAGATCTTTGCATTC	0.348													4	76					0	0	1	0	0		A	85484879	A	A	85484879	3	1	27	1	0	0	0	0	1	0	0	0	9415	1435	50	5	76	5	MCOLN3	1	85484879	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	205139	85484879	163765742	300	22651											
CLCA2	9635	broad.mit.edu	37	chr1	86891127	86891127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacatggaaagctaataatAacagcaaaataaaacaagaa	24	5	5	7	0	0	1	0	0	0	1	0	2	0	2	1	1	4	2	1	1	10	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:86891127A>G	uc001dlr.3	+	2	454	c.292A>G	c.(292-294)AAC>GAC	p.N98D		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor	98	Extracellular (Potential).				cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		AGCTAATAATAACAGCAAAAT	0.299													4	78					0	0	1	0	0		G	86891127	G	G	86891127	3	3	27	1	0	0	0	0	1	0	0	0	3461	362	13	3	298	3	CLCA2	1	86891127	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1406248	86891127	162359494	301	22652											
HS2ST1	9653	broad.mit.edu	37	chr1	87563585	87563585	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaagctctggcttcaaaTcccgttcttctgtggccata	9	12	9	11	1	4	1	1	0	3	1	5	2	5	1	2	2	1	3	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:87563585T>A	uc010osk.1	+	5	1038	c.653T>A	c.(652-654)ATC>AAC	p.I218N	HS2ST1_uc001dmc.3_Missense_Mutation_p.I218N|LOC339524_uc001dme.1_Missense_Mutation_p.I179N	NM_012262	NP_036394	Q7LGA3	HS2ST_HUMAN	heparan sulfate 2-O-sulfotransferase 1 isoform	218	Lumenal (Potential).					Golgi membrane|integral to membrane				central_nervous_system(1)	1		Lung NSC(277;0.153)		all cancers(265;0.00699)|Epithelial(280;0.0261)		TGGCTTCAAATCCCGTTCTTC	0.443													4	93					0	0	1	0	0		A	87563585	A	A	87563585	3	1	27	1	0	0	0	0	1	0	0	0	7378	1435	50	5	671	5	HS2ST1	1	87563585	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	672458	87563585	161687036	302	22653											
PKN2	5586	broad.mit.edu	37	chr1	89226053	89226053	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagatgtattcaaatggatcTtcaaaggtaagtgtagttaa	15	13	9	4	0	3	1	2	0	1	1	3	2	3	2	0	2	0	4	0	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:89226053T>C	uc001dmn.2	+	3	840	c.498T>C	c.(496-498)TCT>TCC	p.S166S	PKN2_uc001dmm.1_Silent_p.S166S|PKN2_uc010osp.1_Silent_p.S166S|PKN2_uc010osq.1_Silent_p.S9S|PKN2_uc009wcv.2_Silent_p.S166S	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	166	REM 2.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		CAAATGGATCTTCAAAGGTAA	0.214													17	117					0	0	1	0	0		C	89226053	C	C	89226053	2	2	27	1	0	0	0	0	0	0	0	1	11999	1596	56	3		3	PKN2	1	89226053	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1662468	89226053	160024568	303	22654											
GTF2B	2959	broad.mit.edu	37	chr1	89323054	89323054	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagacaaaggttggaacagaAcctggacatgaagtccccag	16	5	11	9	0	0	3	0	1	0	2	1	5	1	5	3	3	2	1	3	3	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:89323054A>G	uc001dmo.3	-	6	771	c.652T>C	c.(652-654)TTC>CTC	p.F218L		NM_001514	NP_001505	Q00403	TF2B_HUMAN	general transcription factor IIB	218	2.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	thyroid hormone receptor binding|translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0131)|Epithelial(280;0.0255)		TTGGAACAGAACCTGGACATG	0.433													4	64					0	0	1	0	0		G	89323054	G	G	89323054	3	3	27	1	0	0	0	0	1	0	0	0	6871	43	2	3	306	3	GTF2B	1	89323054	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	97001	89323054	159927567	304	22655											
GBP1	2633	broad.mit.edu	37	chr1	89521797	89521797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtttcgaataaattcccgCcttcacttcttcttctagag	8	16	6	11	2	4	1	1	0	3	1	6	2	5	1	2	1	0	1	2	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:89521797C>T	uc001dmx.2	-	8	1490	c.1270G>A	c.(1270-1272)GCG>ACG	p.A424T		NM_002053	NP_002044	P32455	GBP1_HUMAN	guanylate binding protein 1,	424					interferon-gamma-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0156)|Epithelial(280;0.0291)		TAAATTCCCGCCTTCACTTCT	0.438													13	198					0	0	1	0	0		T	89521797	T	T	89521797	3	4	27	1	0	0	0	0	1	0	0	0	6288	739	26	2	524	2	GBP1	1	89521797	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	198743	89521797	159728824	305	22656											
GBP1	2633	broad.mit.edu	37	chr1	89523757	89523757	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacagaagtctgctacttgTtgcacaaattcggggtccag	11	10	11	9	1	1	1	0	0	1	1	3	2	2	1	1	2	4	3	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:89523757T>C	uc001dmx.2	-	6	1012	c.792A>G	c.(790-792)CAA>CAG	p.Q264Q		NM_002053	NP_002044	P32455	GBP1_HUMAN	guanylate binding protein 1,	264					interferon-gamma-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0156)|Epithelial(280;0.0291)		CTGCTACTTGTTGCACAAATT	0.468													50	176					0	0	1	0	0		C	89523757	C	C	89523757	2	2	27	1	0	0	0	0	0	0	0	1	6288	1722	60	3		3	GBP1	1	89523757	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1960	89523757	159726864	306	22657											
GBP1	2633	broad.mit.edu	37	chr1	89528932	89528932	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatgtccaggctgttccCttgtctgcaagagaagaggt	8	11	12	10	0	1	2	0	0	1	2	3	3	3	2	3	2	2	3	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:89528932C>A	uc001dmx.2	-	2	206	c.-14G>T	c.(-16--12)AAGGG>AATGG			NM_002053	NP_002044	P32455	GBP1_HUMAN	guanylate binding protein 1,						interferon-gamma-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0156)|Epithelial(280;0.0291)		AGGCTGTTCCCTTGTCTGCAA	0.443													6	96					0.00116845	0.00121513	1	1	0		A	89528932	A	A	89528932	1	1	27	1	0	0	0	0	0	0	0	0	6288	696	24	5		5	GBP1	1	89528932	Translation_Start_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5175	89528932	159721689	307	22658											
GBP5	115362	broad.mit.edu	37	chr1	89727976	89727976	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatctccatttgtctcactTgttcctgatggagtctctcc	5	17	6	13	0	3	1	1	1	3	0	8	2	5	2	3	1	0	1	3	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:89727976T>C	uc001dnc.2	-	11	2111	c.1574A>G	c.(1573-1575)CAA>CGA	p.Q525R	GBP5_uc001dnd.2_Missense_Mutation_p.Q525R	NM_052942	NP_443174	Q96PP8	GBP5_HUMAN	guanylate-binding protein 5	525						plasma membrane	GTP binding|GTPase activity			ovary(1)	1				all cancers(265;0.00784)|Epithelial(280;0.0286)		TTGTCTCACTTGTTCCTGATG	0.468													7	100					0	0	1	0	0		C	89727976	C	C	89727976	3	2	27	1	0	0	0	0	1	0	0	0	6292	1812	63	3	194	3	GBP5	1	89727976	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	199044	89727976	159522645	308	22659											
LRRC8D	55144	broad.mit.edu	37	chr1	90400154	90400154	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctaaaattcctgctaagatTtctcaaatgactaacctcca	14	12	4	11	0	1	2	1	1	1	1	4	2	3	2	3	0	2	2	3	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:90400154T>C	uc001dnm.2	+	3	1952	c.1527T>C	c.(1525-1527)ATT>ATC	p.I509I	LRRC8D_uc001dnn.2_Silent_p.I509I	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	509						integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		CTGCTAAGATTTCTCAAATGA	0.473													20	89					0	0	1	0	0		C	90400154	C	C	90400154	2	2	27	1	0	0	0	0	0	0	0	1	9042	1829	64	3		3	LRRC8D	1	90400154	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	672178	90400154	158850467	309	22660											
BARHL2	343472	broad.mit.edu	37	chr1	91180132	91180132	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acttgggtgtcagtgaggttGagcgctgcagccaggtccat	7	10	15	9	1	1	2	1	2	0	0	2	2	2	2	2	3	3	3	2	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:91180132G>A	uc001dns.2	-	2	849	c.807C>T	c.(805-807)CTC>CTT	p.L269L		NM_020063	NP_064447	Q9NY43	BARH2_HUMAN	BarH-like homeobox 2	269	Homeobox.					nucleus	sequence-specific DNA binding			ovary(1)	1		all_lung(203;0.0263)|Lung SC(238;0.128)		all cancers(265;0.000897)|Epithelial(280;0.00516)|OV - Ovarian serous cystadenocarcinoma(397;0.211)		CAGTGAGGTTGAGCGCTGCAG	0.547													6	102					0	0	1	0	0		A	91180132	A	A	91180132	2	1	27	1	0	0	0	0	0	0	0	1	1315	1277	45	4		4	BARHL2	1	91180132	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	779978	91180132	158070489	310	22661											
ZNF644	84146	broad.mit.edu	37	chr1	91382481	91382481	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattagcgtttacaatatgTcgttgtaagtgcttaatcca	12	15	8	6	2	0	1	0	0	0	1	2	1	1	1	1	0	3	4	1	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:91382481T>A	uc001dnw.2	-	6	4000	c.3858A>T	c.(3856-3858)CGA>CGT	p.R1286R	ZNF644_uc001dnv.2_Silent_p.R64R|ZNF644_uc001dnx.2_Silent_p.R64R	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	1286					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		TTACAATATGTCGTTGTAAGT	0.428													4	60					0	0	1	0	0		A	91382481	A	A	91382481	2	1	27	1	0	0	0	0	0	0	0	1	18085	1654	58	5		5	ZNF644	1	91382481	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	202349	91382481	157868140	311	22662											
HFM1	164045	broad.mit.edu	37	chr1	91779569	91779569	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcagatttaagagctcttttCacagcaatctttttagccca	11	15	5	10	0	4	2	2	0	2	2	4	2	4	2	1	0	3	2	1	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:91779569C>T	uc001doa.3	-	29	3289	c.3189G>A	c.(3187-3189)GTG>GTA	p.V1063V	HFM1_uc009wdb.2_RNA|HFM1_uc010osu.1_Silent_p.V742V|HFM1_uc001dob.3_Silent_p.V251V|HFM1_uc010osv.1_Silent_p.V747V	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	1063	SEC63.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		GAGCTCTTTTCACAGCAATCT	0.279													13	163					0	0	1	0	0		T	91779569	T	T	91779569	2	4	27	1	0	0	0	0	0	0	0	1	7099	813	29	4		4	HFM1	1	91779569	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	397088	91779569	157471052	312	22663											
HFM1	164045	broad.mit.edu	37	chr1	91816380	91816380	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atattcacatccgtgatggtAtgcagtactatctctgcatt	10	15	7	9	1	2	1	1	1	1	0	4	1	3	1	1	1	3	4	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:91816380A>G	uc001doa.3	-	18	2221	c.2121T>C	c.(2119-2121)CAT>CAC	p.H707H	HFM1_uc009wdb.2_Intron|HFM1_uc010osu.1_Silent_p.H386H|HFM1_uc010osv.1_Silent_p.H391H	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	707	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		CCGTGATGGTATGCAGTACTA	0.343													14	84					0	0	1	0	0		G	91816380	G	G	91816380	2	3	27	1	0	0	0	0	0	0	0	1	7099	446	16	3		3	HFM1	1	91816380	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	36811	91816380	157434241	313	22664											
BRDT	676	broad.mit.edu	37	chr1	92428390	92428390	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatactaagaaaaatgggCgattgacaaatcaacttcag	19	9	7	6	1	2	2	2	1	0	1	2	3	2	2	0	1	2	0	0	1	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:92428390C>T	uc001dok.3	+	2	428	c.79C>T	c.(79-81)CGA>TGA	p.R27*	BRDT_uc001dol.3_Nonsense_Mutation_p.R27*|BRDT_uc010osz.1_Nonsense_Mutation_p.R27*|BRDT_uc009wdf.2_Intron|BRDT_uc010ota.1_Nonsense_Mutation_p.R27*|BRDT_uc010otb.1_Nonsense_Mutation_p.R27*|BRDT_uc001dom.3_Nonsense_Mutation_p.R27*	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	27					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		GAAAAATGGGCGATTGACAAA	0.378													8	91					0	0	1	0	0		T	92428390	T	T	92428390	4	4	27	1	0	0	0	0	0	1	0	0	1511	760	27	1	81	1	BRDT	1	92428390	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	612010	92428390	156822231	314	22665											
BRDT	676	broad.mit.edu	37	chr1	92433761	92433761	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagctgtttatgcagaaatTatctcagatgccacaagaag	15	10	9	7	0	1	3	1	0	1	3	2	4	1	3	1	0	3	3	1	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:92433761T>C	uc001dok.3	+	4	738	c.389T>C	c.(388-390)TTA>TCA	p.L130S	BRDT_uc001dol.3_Missense_Mutation_p.L130S|BRDT_uc010osz.1_Missense_Mutation_p.L130S|BRDT_uc009wdf.2_Missense_Mutation_p.L57S|BRDT_uc010ota.1_Missense_Mutation_p.L84S|BRDT_uc010otb.1_Missense_Mutation_p.L84S|BRDT_uc001dom.3_Missense_Mutation_p.L130S	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	130					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		ATGCAGAAATTATCTCAGATG	0.368													5	49					0	0	1	0	0		C	92433761	C	C	92433761	3	2	27	1	0	0	0	0	1	0	0	0	1511	1764	61	3	399	3	BRDT	1	92433761	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5371	92433761	156816860	315	22666											
BCAR3	8412	broad.mit.edu	37	chr1	94033334	94033334	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtttgctgaagggcttcagCtgtttctcatagagaatggc	9	13	12	7	0	2	2	2	1	1	1	3	3	2	2	0	2	2	5	0	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:94033334C>T	uc001dpz.2	-	10	2324	c.2049G>A	c.(2047-2049)CAG>CAA	p.Q683Q	BCAR3_uc001dqa.2_Silent_p.Q683Q|BCAR3_uc001dqb.2_Silent_p.Q683Q|BCAR3_uc001dpx.3_Silent_p.Q359Q|BCAR3_uc001dpy.2_Silent_p.Q592Q	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	683	Ras-GEF.				response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		AGGGCTTCAGCTGTTTCTCAT	0.527													11	98					0	0	1	0	0		T	94033334	T	T	94033334	2	4	27	1	0	0	0	0	0	0	0	1	1350	796	28	2		2	BCAR3	1	94033334	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1599573	94033334	155217287	316	22667											
BCAR3	8412	broad.mit.edu	37	chr1	94049596	94049596	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcggcaggtagctctctgActggtgggctttgagggaca	8	10	15	8	1	1	2	0	2	1	0	3	3	1	3	0	5	1	4	0	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:94049596A>G	uc001dpz.2	-	6	1287	c.1012T>C	c.(1012-1014)TCA>CCA	p.S338P	BCAR3_uc001dqa.2_Missense_Mutation_p.S338P|BCAR3_uc001dqb.2_Missense_Mutation_p.S338P|BCAR3_uc001dpx.3_Missense_Mutation_p.S14P|BCAR3_uc001dpy.2_Missense_Mutation_p.S247P|BCAR3_uc009wdm.1_Missense_Mutation_p.S14P	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	338					response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		TAGCTCTCTGACTGGTGGGCT	0.507													6	83					0	0	1	0	0		G	94049596	G	G	94049596	3	3	27	1	0	0	0	0	1	0	0	0	1350	275	10	3	1493	3	BCAR3	1	94049596	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	16262	94049596	155201025	317	22668											
BCAR3	8412	broad.mit.edu	37	chr1	94054955	94054955	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactaggaagtcaccatctcGctgcacaaggttttcagaca	13	9	8	11	1	3	1	2	0	1	1	4	2	3	2	1	2	2	3	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:94054955G>A	uc001dpz.2	-	5	783	c.508C>T	c.(508-510)CGA>TGA	p.R170*	BCAR3_uc001dqa.2_Nonsense_Mutation_p.R170*|BCAR3_uc001dqb.2_Nonsense_Mutation_p.R170*|BCAR3_uc001dpy.2_Nonsense_Mutation_p.R79*|uc009wdn.2_5'Flank	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	170	SH2.				response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		TCACCATCTCGCTGCACAAGG	0.483													7	28					0	0	1	0	0		A	94054955	A	A	94054955	4	1	27	1	0	0	0	0	0	1	0	0	1350	1095	38	1	2001	1	BCAR3	1	94054955	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5359	94054955	155195666	318	22669											
DNTTIP2	30836	broad.mit.edu	37	chr1	94335500	94335500	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtacttccttcggttgtaTctgaaaaagaaaaatcagaa	16	11	8	6	1	2	3	1	1	1	2	4	4	3	3	1	1	1	3	1	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:94335500T>A	uc001dqf.2	-	7	2216	c.2178A>T	c.(2176-2178)AGA>AGT	p.R726S	DNTTIP2_uc010otm.1_RNA	NM_014597	NP_055412	Q5QJE6	TDIF2_HUMAN	deoxynucleotidyltransferase, terminal,	726					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_lung(203;0.0111)|Lung NSC(277;0.0347)		all cancers(265;0.00679)|GBM - Glioblastoma multiforme(16;0.0278)|Epithelial(280;0.128)		TTCGGTTGTATCTGAAAAAGA	0.279													5	65					0	0	1	0	0		A	94335500	A	A	94335500	3	1	27	1	0	0	0	0	1	0	0	0	4688	1449	50	5	96	5	DNTTIP2	1	94335500	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	280545	94335500	154915121	319	22670											
DNTTIP2	30836	broad.mit.edu	37	chr1	94338708	94338708	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagttgatactttgattcActatatggtggaacacagtg	12	14	10	5	0	1	3	1	3	0	0	1	4	1	4	0	2	2	1	0	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:94338708A>G	uc001dqf.2	-	4	1907	c.1869T>C	c.(1867-1869)AGT>AGC	p.S623S	DNTTIP2_uc010otm.1_RNA	NM_014597	NP_055412	Q5QJE6	TDIF2_HUMAN	deoxynucleotidyltransferase, terminal,	623					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_lung(203;0.0111)|Lung NSC(277;0.0347)		all cancers(265;0.00679)|GBM - Glioblastoma multiforme(16;0.0278)|Epithelial(280;0.128)		ACTTTGATTCACTATATGGTG	0.303													8	64					0	0	1	0	0		G	94338708	G	G	94338708	2	3	27	1	0	0	0	0	0	0	0	1	4688	156	6	3		3	DNTTIP2	1	94338708	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3208	94338708	154911913	320	22671											
ABCA4	24	broad.mit.edu	37	chr1	94476478	94476478	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaacggatttgcagagtgCtcctcacctgggcatcaaca	10	9	11	11	1	2	1	2	0	0	1	3	3	3	3	2	3	4	3	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:94476478C>T	uc001dqh.2	-	40	5696	c.5592G>A	c.(5590-5592)GAG>GAA	p.E1864E	ABCA4_uc001dqi.1_5'UTR|ABCA4_uc009wdp.1_Silent_p.E132E	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1864					phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		TTGCAGAGTGCTCCTCACCTG	0.592													10	58					0	0	1	0	0		T	94476478	T	T	94476478	2	4	27	1	0	0	0	0	0	0	0	1	34	796	28	2		2	ABCA4	1	94476478	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	137770	94476478	154774143	321	22672											
ABCA4	24	broad.mit.edu	37	chr1	94544162	94544162	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactctgatcatgttcatcTgtgtgctgttgtcaaagaag	9	16	9	7	0	5	2	3	1	2	1	5	2	5	2	0	0	2	3	0	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:94544162T>C	uc001dqh.2	-	10	1444	c.1340A>G	c.(1339-1341)CAG>CGG	p.Q447R	ABCA4_uc010otn.1_Missense_Mutation_p.Q447R	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	447	Extracellular.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CATGTTCATCTGTGTGCTGTT	0.517													14	226					0	0	1	0	0		C	94544162	C	C	94544162	3	2	27	1	0	0	0	0	1	0	0	0	34	1580	55	3	5645	3	ABCA4	1	94544162	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	67684	94544162	154706459	322	22673											
ABCD3	5825	broad.mit.edu	37	chr1	94955477	94955477	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtattgaaggagtacaagTcattcccttgatacctggtg	11	12	11	7	0	1	2	1	2	0	0	2	3	2	3	2	3	2	2	2	3	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:94955477T>G	uc001dqn.3	+	15	1370	c.1268T>G	c.(1267-1269)GTC>GGC	p.V423G	ABCD3_uc010oto.1_Missense_Mutation_p.V447G|ABCD3_uc010otp.1_Missense_Mutation_p.V350G|ABCD3_uc009wdr.2_Missense_Mutation_p.V313G|ABCD3_uc001dqo.3_Missense_Mutation_p.V111G	NM_002858	NP_002849	P28288	ABCD3_HUMAN	ATP-binding cassette, sub-family D, member 3	423					peroxisomal long-chain fatty acid import|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(1)	1		all_lung(203;0.000434)|Lung NSC(277;0.0019)		all cancers(265;0.0261)|Epithelial(280;0.165)		GGAGTACAAGTCATTCCCTTG	0.323													29	122					0	0	1	0	0		G	94955477	G	G	94955477	3	3	27	1	0	0	0	0	1	0	0	0	62	1667	58	5	1357	5	ABCD3	1	94955477	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	411315	94955477	154295144	323	22674											
DPYD	1806	broad.mit.edu	37	chr1	97839124	97839124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggtccttacctgcccaCaggccaggcccattcctctt	7	10	7	17	0	2	0	1	0	1	0	4	0	4	0	6	3	2	0	6	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:97839124C>T	uc001drv.2	-	16	2188	c.2051G>A	c.(2050-2052)TGT>TAT	p.C684Y		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	684					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	TACCTGCCCACAGGCCAGGCC	0.468													5	56					0	0	1	0	0		T	97839124	T	T	97839124	3	4	27	1	0	0	0	0	1	0	0	0	4751	478	17	4	1058	4	DPYD	1	97839124	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2883647	97839124	151411497	324	22675											
LPPR4	9890	broad.mit.edu	37	chr1	99771407	99771407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacagaaggcatcctcaaccGaaaccacagagatgctagct	15	6	8	12	1	1	2	1	0	0	2	2	4	2	2	3	1	5	3	3	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:99771407G>A	uc001dse.2	+	7	1239	c.1133G>A	c.(1132-1134)CGA>CAA	p.R378Q	LPPR4_uc010oue.1_Missense_Mutation_p.R320Q	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	378							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		ATCCTCAACCGAAACCACAGA	0.458													8	107					0	0	1	0	0		A	99771407	A	A	99771407	3	1	27	1	0	0	0	0	1	0	0	0	8945	1058	37	1	1159	1	LPPR4	1	99771407	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1932283	99771407	149479214	325	22676											
HIAT1	64645	broad.mit.edu	37	chr1	100525469	100525469	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttagtgccccgcttattggTgctctttctgatgtttgggg	3	17	12	9	1	2	1	0	1	2	0	2	1	2	1	2	3	2	3	2	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:100525469T>C	uc001dst.2	+	4	279	c.279T>C	c.(277-279)GGT>GGC	p.G93G		NM_033055	NP_149044	Q96MC6	HIAT1_HUMAN	hippocampus abundant transcript 1	93	Helical; Name=2; (Potential).				transmembrane transport	integral to membrane|plasma membrane	transporter activity				0		all_epithelial(167;2.96e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0832)|all cancers(265;0.136)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.195)		CGCTTATTGGTGCTCTTTCTG	0.388													11	131					0	0	1	0	0		C	100525469	C	C	100525469	2	2	27	1	0	0	0	0	0	0	0	1	7113	1683	59	3		3	HIAT1	1	100525469	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	754062	100525469	148725152	326	22677											
HIAT1	64645	broad.mit.edu	37	chr1	100547720	100547720	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctcataatacacaagcGccaggagaggccaaagaacc	16	4	8	13	1	1	2	1	0	0	2	2	3	2	2	4	2	3	0	4	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:100547720G>A	uc001dst.2	+	12	1428	c.1428G>A	c.(1426-1428)GCG>GCA	p.A476A		NM_033055	NP_149044	Q96MC6	HIAT1_HUMAN	hippocampus abundant transcript 1	476	Extracellular (Potential).				transmembrane transport	integral to membrane|plasma membrane	transporter activity				0		all_epithelial(167;2.96e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0832)|all cancers(265;0.136)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.195)		ATACACAAGCGCCAGGAGAGG	0.448													5	50					0	0	1	0	0		A	100547720	A	A	100547720	2	1	27	1	0	0	0	0	0	0	0	1	7113	1074	38	1		1	HIAT1	1	100547720	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	22251	100547720	148702901	327	22678											
SASS6	163786	broad.mit.edu	37	chr1	100588820	100588820	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaaaaaaatggatccgtgTcatcagtcagacgaataact	18	9	7	7	2	3	1	3	0	0	1	4	3	4	2	1	1	1	0	1	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:100588820T>C	uc001dsu.2	-	3	293	c.152A>G	c.(151-153)GAC>GGC	p.D51G	SASS6_uc009wdz.2_Intron	NM_194292	NP_919268	Q6UVJ0	SAS6_HUMAN	spindle assembly abnormal protein 6	51	PISA.				centriole replication	centriole				upper_aerodigestive_tract(1)|ovary(1)	2		all_epithelial(167;4.58e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.085)|all cancers(265;0.139)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.197)		TGGATCCGTGTCATCAGTCAG	0.274													3	28					0	0	1	0	0		C	100588820	C	C	100588820	3	2	27	1	0	0	0	0	1	0	0	0	13875	1667	58	3	1881	3	SASS6	1	100588820	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	41100	100588820	148661801	328	22679											
CCDC76	54482	broad.mit.edu	37	chr1	100613769	100613769	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgggatgcggaaaacatcTttggaaacctcaaatagtac	14	10	10	7	1	2	0	1	0	1	0	2	3	2	3	1	3	4	1	1	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:100613769T>C	uc001dsv.2	+	10	1156	c.1137T>C	c.(1135-1137)TCT>TCC	p.S379S	CCDC76_uc010ouf.1_RNA|CCDC76_uc009wea.2_Intron	NM_019083	NP_061956	Q9NUP7	TRM13_HUMAN	coiled-coil domain containing 76	379					tRNA processing		metal ion binding|methyltransferase activity			ovary(1)	1		all_epithelial(167;0.000542)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0814)|all cancers(265;0.133)|COAD - Colon adenocarcinoma(174;0.146)|Lung(183;0.194)		GGAAAACATCTTTGGAAACCT	0.438													3	88					0	0	1	0	0		C	100613769	C	C	100613769	2	2	27	1	0	0	0	0	0	0	0	1	2853	1596	56	3		3	CCDC76	1	100613769	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	24949	100613769	148636852	329	22680											
RTCD1	8634	broad.mit.edu	37	chr1	100733760	100733760	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagatttgtgtgatgggcaaCtggagggggcagaaattggc	10	9	18	4	0	0	3	0	1	0	2	0	5	0	4	0	5	1	2	0	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:100733760C>T	uc001dtc.2	+	3	417	c.199C>T	c.(199-201)CTG>TTG	p.L67L	RTCD1_uc010ouh.1_Silent_p.L67L|RTCD1_uc001dtd.2_Silent_p.L80L	NM_003729	NP_003720	O00442	RTC1_HUMAN	RNA terminal phosphate cyclase domain 1 isoform	67					RNA processing	mitochondrion|nucleoplasm	ATP binding|protein binding|RNA binding|RNA-3'-phosphate cyclase activity				0		all_epithelial(167;0.000686)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0513)|all cancers(265;0.0902)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)		TGATGGGCAACTGGAGGGGGC	0.448													5	88					0	0	1	0	0		T	100733760	T	T	100733760	2	4	27	1	0	0	0	0	0	0	0	1	13743	564	20	4		4	RTCD1	1	100733760	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	119991	100733760	148516861	330	22681											
RTCD1	8634	broad.mit.edu	37	chr1	100740491	100740491	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactaagatatatggaagAgctttcgttgctggtgtttt	9	16	12	4	1	0	3	0	1	0	2	1	4	0	4	0	2	2	4	0	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:100740491A>G	uc001dtc.2	+	6	803	c.585A>G	c.(583-585)AGA>AGG	p.R195R	RTCD1_uc001dtd.2_Silent_p.R208R	NM_003729	NP_003720	O00442	RTC1_HUMAN	RNA terminal phosphate cyclase domain 1 isoform	195					RNA processing	mitochondrion|nucleoplasm	ATP binding|protein binding|RNA binding|RNA-3'-phosphate cyclase activity				0		all_epithelial(167;0.000686)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0513)|all cancers(265;0.0902)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)		TATATGGAAGAGCTTTCGTTG	0.333													5	70					0	0	1	0	0		G	100740491	G	G	100740491	2	3	27	1	0	0	0	0	0	0	0	1	13743	301	11	3		3	RTCD1	1	100740491	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6731	100740491	148510130	331	22682											
SLC30A7	148867	broad.mit.edu	37	chr1	101431466	101431466	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagccaaacacataatattTttactcaggtatgtcttttt	13	17	4	7	0	2	0	1	0	1	0	2	0	2	0	1	1	3	1	1	1	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:101431466T>A	uc001dtn.2	+	10	1262	c.1075T>A	c.(1075-1077)TTT>ATT	p.F359I	SLC30A7_uc001dto.2_Missense_Mutation_p.F359I	NM_001144884	NP_001138356	Q8NEW0	ZNT7_HUMAN	zinc transporter like 2	359	Cytoplasmic (Potential).				zinc ion transport	Golgi apparatus|integral to membrane	cation transmembrane transporter activity|protein binding				0		all_epithelial(167;0.000445)|all_lung(203;0.00645)|Lung NSC(277;0.0119)		Epithelial(280;0.0437)|all cancers(265;0.0498)|COAD - Colon adenocarcinoma(174;0.162)|Colorectal(144;0.19)|Lung(183;0.201)		ACATAATATTTTTACTCAGGT	0.279													11	74					0	0	1	0	0		A	101431466	A	A	101431466	3	1	27	1	0	0	0	0	1	0	0	0	14585	1841	64	5	1113	5	SLC30A7	1	101431466	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	690975	101431466	147819155	332	22683											
DPH5	51611	broad.mit.edu	37	chr1	101458252	101458252	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaagctgctgggctgctTggtttacactcatataccgt	8	12	10	11	1	1	1	1	0	0	1	1	1	1	1	2	2	5	5	2	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:101458252T>C	uc001dts.2	-	7	722	c.575A>G	c.(574-576)CAA>CGA	p.Q192R	DPH5_uc001dtr.2_Missense_Mutation_p.Q192R|DPH5_uc001dtq.2_Intron|DPH5_uc001dtt.2_Missense_Mutation_p.Q192R|DPH5_uc001dtu.2_RNA|DPH5_uc001dtv.2_RNA|DPH5_uc001dtw.2_RNA|DPH5_uc001dtx.2_Intron|DPH5_uc001dty.2_Missense_Mutation_p.Q71R|DPH5_uc001dtz.2_RNA	NM_015958	NP_057042	Q9H2P9	DPH5_HUMAN	diphthine synthase isoform a	192					peptidyl-diphthamide biosynthetic process from peptidyl-histidine		diphthine synthase activity				0		all_epithelial(167;3.1e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0385)|all cancers(265;0.043)|COAD - Colon adenocarcinoma(174;0.151)|Colorectal(144;0.173)|Lung(183;0.198)		CTGGGCTGCTTGGTTTACACT	0.418													11	119					0	0	1	0	0		C	101458252	C	C	101458252	3	2	27	1	0	0	0	0	1	0	0	0	4729	1812	63	3	290	3	DPH5	1	101458252	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	26786	101458252	147792369	333	22684											
OLFM3	118427	broad.mit.edu	37	chr1	102290762	102290762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttgtactgttccagcacggGgatcaaaggcaggagctcgt	9	10	13	9	2	1	0	1	0	0	0	3	2	2	2	1	4	3	5	1	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:102290762G>A	uc001duf.2	-	4	543	c.472C>T	c.(472-474)CCC>TCC	p.P158S	OLFM3_uc001dug.2_Missense_Mutation_p.P138S|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_Missense_Mutation_p.P63S|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	158	Potential.					extracellular region				ovary(2)|skin(1)	3		all_epithelial(167;1.87e-06)|all_lung(203;8.12e-05)|Lung NSC(277;0.000189)		all cancers(265;0.0843)|Epithelial(280;0.0921)|COAD - Colon adenocarcinoma(174;0.145)		TCCAGCACGGGGATCAAAGGC	0.438													7	48					0	0	1	0	0		A	102290762	A	A	102290762	3	1	27	1	0	0	0	0	1	0	0	0	10873	1232	43	4	976	4	OLFM3	1	102290762	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	832510	102290762	146959859	334	22685											
AMY2B	280	broad.mit.edu	37	chr1	104118128	104118128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttacacgagtaatgtcaaGctaccgttggccaagacagt	12	11	9	9	2	1	1	1	0	0	1	1	2	1	1	2	1	3	3	2	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:104118128G>A	uc001duq.2	+	9	1683	c.1067G>A	c.(1066-1068)AGC>AAC	p.S356N	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.S356N|AMY2B_uc001dus.1_RNA	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	356					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		GTAATGTCAAGCTACCGTTGG	0.338													15	277					0	0	1	0	0		A	104118128	A	A	104118128	3	1	27	1	0	0	0	0	1	0	0	0	595	971	34	2	1093	2	AMY2B	1	104118128	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1827366	104118128	145132493	335	22686											
NTNG1	22854	broad.mit.edu	37	chr1	107867139	107867139	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcgtccagaccaaatgaTcctggagaagtctctcgatt	10	10	11	10	2	1	3	0	1	1	2	5	5	3	3	3	2	0	0	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:107867139T>C	uc001dvh.3	+	3	1200	c.482T>C	c.(481-483)ATC>ACC	p.I161T	NTNG1_uc001dvf.3_Missense_Mutation_p.I161T|NTNG1_uc010out.1_Missense_Mutation_p.I161T|NTNG1_uc001dvc.3_Missense_Mutation_p.I161T|NTNG1_uc001dvd.1_Missense_Mutation_p.I161T	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	161	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		GACCAAATGATCCTGGAGAAG	0.443													8	98					0	0	1	0	0		C	107867139	C	C	107867139	3	2	27	1	0	0	0	0	1	0	0	0	10723	1435	50	3	488	3	NTNG1	1	107867139	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3749011	107867139	141383482	336	22687											
NTNG1	22854	broad.mit.edu	37	chr1	107973538	107973538	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacgatgagaatgtgtgcatAggtcagttccattacaattt	12	13	10	6	1	1	1	1	1	0	1	2	4	2	1	1	1	2	2	1	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:107973538A>G	uc001dvh.3	+	6	1972	c.1254A>G	c.(1252-1254)ATA>ATG	p.I418M	NTNG1_uc001dvf.3_Intron|NTNG1_uc010out.1_Intron|NTNG1_uc001dvc.3_Intron|NTNG1_uc001dvi.2_Intron|NTNG1_uc001dve.2_RNA|NTNG1_uc009wek.2_Intron|NTNG1_uc001dvg.2_Intron|NTNG1_uc009wem.2_Intron	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	418	Laminin EGF-like 2.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		ATGTGTGCATAGGTCAGTTCC	0.488													4	28					0	0	1	0	0		G	107973538	G	G	107973538	3	3	27	1	0	0	0	0	1	0	0	0	10723	434	15	3	1406	3	NTNG1	1	107973538	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	106399	107973538	141277083	337	22688											
FAM102B	284611	broad.mit.edu	37	chr1	109154855	109154855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatcaggaaataccactcGccgctgtttactggaaggct	10	10	11	10	2	1	0	1	0	0	0	2	3	1	3	2	4	2	3	2	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:109154855G>A	uc010ouy.1	+	4	424	c.344G>A	c.(343-345)CGC>CAC	p.R115H		NM_001010883	NP_001010883	Q5T8I3	F102B_HUMAN	hypothetical protein LOC284611	115										large_intestine(1)	1		all_epithelial(167;5.52e-05)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0217)|Lung(183;0.109)|COAD - Colon adenocarcinoma(174;0.141)|Epithelial(280;0.182)		AATACCACTCGCCGCTGTTTA	0.368													27	86					0	0	1	0	0		A	109154855	A	A	109154855	3	1	27	1	0	0	0	0	1	0	0	0	5394	1087	38	1	358	1	FAM102B	1	109154855	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1181317	109154855	140095766	338	22689											
STXBP3	6814	broad.mit.edu	37	chr1	109321945	109321945	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctcttaataattgatcgtgGctttgatcctgtgtccactg	7	16	9	9	1	1	2	0	2	1	0	4	2	3	2	2	1	0	2	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:109321945G>A	uc001dvy.2	+	9	797	c.722G>A	c.(721-723)GGC>GAC	p.G241D	STXBP3_uc001dvz.2_RNA	NM_007269	NP_009200	O00186	STXB3_HUMAN	syntaxin binding protein 3	241	Mediates interaction with DOC2B (By similarity).				negative regulation of calcium ion-dependent exocytosis|neutrophil degranulation|platelet aggregation|protein transport|vesicle docking involved in exocytosis	cytosol|nucleus|platelet alpha granule|specific granule|tertiary granule	syntaxin-2 binding			ovary(3)|central_nervous_system(1)	4		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0386)|Lung(183;0.104)|COAD - Colon adenocarcinoma(174;0.137)|Epithelial(280;0.231)		ATTGATCGTGGCTTTGATCCT	0.353													12	134					0	0	1	0	0		A	109321945	A	A	109321945	3	1	27	1	0	0	0	0	1	0	0	0	15379	1203	42	2	756	2	STXBP3	1	109321945	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	167090	109321945	139928676	339	22690											
CLCC1	23155	broad.mit.edu	37	chr1	109479876	109479876	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgctcagtggggcccatttgGcccctataatggaaatcggc	8	10	12	11	1	1	0	1	0	0	0	2	1	1	1	3	5	1	1	3	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:109479876G>A	uc001dwe.1	-	10	1298	c.1206C>T	c.(1204-1206)GGC>GGT	p.G402G	AKNAD1_uc010ovb.1_Intron|CLCC1_uc001dwf.1_Silent_p.G402G|CLCC1_uc001dwg.1_Silent_p.G352G|CLCC1_uc009wes.1_Silent_p.G281G|CLCC1_uc009wet.1_Silent_p.G217G	NM_001048210	NP_001041675	Q96S66	CLCC1_HUMAN	Mid-1-related chloride channel 1 isoform 1	402						endoplasmic reticulum|Golgi apparatus|integral to membrane|nucleus				liver(1)	1		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.231)		GGCCCATTTGGCCCCTATAAT	0.502													4	89					0	0	1	0	0		A	109479876	A	A	109479876	2	1	27	1	0	0	0	0	0	0	0	1	3463	1190	42	2		2	CLCC1	1	109479876	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	157931	109479876	139770745	340	22691											
CLCC1	23155	broad.mit.edu	37	chr1	109482311	109482311	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagatgaagcagcgctggaaTttccttcatgagtgctttaa	12	12	10	7	1	1	3	1	2	0	1	2	4	2	4	1	1	3	3	1	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:109482311T>C	uc001dwe.1	-	9	1080	c.988A>G	c.(988-990)ATT>GTT	p.I330V	AKNAD1_uc010ovb.1_Intron|CLCC1_uc001dwf.1_Missense_Mutation_p.I330V|CLCC1_uc001dwg.1_Missense_Mutation_p.I280V|CLCC1_uc009wes.1_Missense_Mutation_p.I209V|CLCC1_uc009wet.1_Missense_Mutation_p.I145V	NM_001048210	NP_001041675	Q96S66	CLCC1_HUMAN	Mid-1-related chloride channel 1 isoform 1	330	Helical; (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|nucleus				liver(1)	1		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.231)		AGCGCTGGAATTTCCTTCATG	0.358													3	39					0	0	1	0	0		C	109482311	C	C	109482311	3	2	27	1	0	0	0	0	1	0	0	0	3463	1493	52	3	679	3	CLCC1	1	109482311	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2435	109482311	139768310	341	22692											
KIAA1324	57535	broad.mit.edu	37	chr1	109742558	109742558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttgcccgctctgctcagtgGctgactaccatgctatcgtc	5	12	9	15	2	2	1	1	1	1	0	4	1	2	1	2	1	4	4	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:109742558G>A	uc001dwq.2	+	20	2720	c.2584G>A	c.(2584-2586)GCT>ACT	p.A862T	KIAA1324_uc009wex.1_Missense_Mutation_p.A812T|KIAA1324_uc009wey.2_Missense_Mutation_p.A775T|KIAA1324_uc010ovg.1_Missense_Mutation_p.A760T|KIAA1324_uc001dwr.2_Missense_Mutation_p.A512T|KIAA1324_uc001dws.1_RNA|KIAA1324_uc009wez.1_Intron	NM_020775	NP_065826	Q6UXG2	K1324_HUMAN	hypothetical protein LOC57535 precursor	862	Extracellular (Potential).				macroautophagy|positive regulation of vacuole organization|regulation of apoptosis	integral to plasma membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	5		all_epithelial(167;0.000102)|all_lung(203;0.000323)|Lung NSC(277;0.00063)		Colorectal(144;0.0188)|Lung(183;0.0527)|COAD - Colon adenocarcinoma(174;0.14)|Epithelial(280;0.21)|all cancers(265;0.249)		CTGCTCAGTGGCTGACTACCA	0.567													5	61					0	0	1	0	0		A	109742558	A	A	109742558	3	1	27	1	0	0	0	0	1	0	0	0	8239	1203	42	2	2658	2	KIAA1324	1	109742558	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	260247	109742558	139508063	342	22693											
CELSR2	1952	broad.mit.edu	37	chr1	109795564	109795564	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatgaaggcaccaatgccCagattatgtaccagattgtg	12	9	10	10	1	0	3	0	1	0	2	0	4	0	3	4	1	2	2	4	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:109795564C>A	uc001dxa.3	+	1	2924	c.2863C>A	c.(2863-2865)CAG>AAG	p.Q955K		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	955	Extracellular (Potential).|Cadherin 8.				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		CACCAATGCCCAGATTATGTA	0.552													27	118					5.60225e-13	6.24127e-13	1	1	0		A	109795564	A	A	109795564	3	1	27	1	0	0	0	0	1	0	0	0	3225	595	21	5	2865	5	CELSR2	1	109795564	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	53006	109795564	139455057	343	22694											
GNAI3	2773	broad.mit.edu	37	chr1	110129475	110129475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaaaataaagaggagtcCgttaactatctgttatccag	16	10	9	6	1	1	1	0	0	1	1	3	3	3	3	2	2	1	2	2	2	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:110129475C>T	uc001dxz.2	+	7	1002	c.845C>T	c.(844-846)CCG>CTG	p.P282L		NM_006496	NP_006487	P08754	GNAI3_HUMAN	guanine nucleotide binding protein (G protein),	282					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|metabotropic serotonin receptor binding|signal transducer activity			ovary(1)	1		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.046)|Colorectal(144;0.119)|Epithelial(280;0.139)|all cancers(265;0.147)|LUSC - Lung squamous cell carcinoma(189;0.237)		AAGAGGAGTCCGTTAACTATC	0.338													6	69					0	0	1	0	0		T	110129475	T	T	110129475	3	4	27	1	0	0	0	0	1	0	0	0	6521	652	23	1	871	1	GNAI3	1	110129475	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	333911	110129475	139121146	344	22695											
GSTM4	2948	broad.mit.edu	37	chr1	110203856	110203856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aacctctgtacacaagggtgGctgtctggggcaacaagtaa	12	8	12	9	0	2	0	0	0	2	0	2	0	2	0	1	4	3	4	1	4	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:110203856G>A	uc001dyf.2	+	8	951	c.637G>A	c.(637-639)GCT>ACT	p.A213T	GSTM4_uc001dyg.2_Missense_Mutation_p.A109T|GSTM4_uc009wfj.2_Missense_Mutation_p.A152T|GSTM4_uc001dyh.2_Intron|GSTM2_uc001dyi.2_Intron	NM_000850	NP_000841	Q03013	GSTM4_HUMAN	glutathione S-transferase mu 4 isoform 1	213					xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity				0		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		all cancers(265;0.0123)|Colorectal(144;0.0129)|Epithelial(280;0.0147)|Lung(183;0.0422)|COAD - Colon adenocarcinoma(174;0.0471)|LUSC - Lung squamous cell carcinoma(189;0.227)	Glutathione(DB00143)	CACAAGGGTGGCTGTCTGGGG	0.577													9	145					0	0	1	0	0		A	110203856	A	A	110203856	3	1	27	1	0	0	0	0	1	0	0	0	6856	1203	42	2	667	2	GSTM4	1	110203856	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	74381	110203856	139046765	345	22696											
AHCYL1	10768	broad.mit.edu	37	chr1	110555579	110555579	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggtctgcttgtaacatcTactcaactcagaatgaagta	12	12	8	9	0	4	2	2	1	2	1	4	2	4	2	0	1	4	4	0	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:110555579T>C	uc001dyx.2	+	5	905	c.538T>C	c.(538-540)TAC>CAC	p.Y180H	AHCYL1_uc010ovw.1_Missense_Mutation_p.Y133H|AHCYL1_uc001dyy.2_Missense_Mutation_p.Y133H|AHCYL1_uc010ovx.1_Missense_Mutation_p.Y133H	NM_006621	NP_006612	O43865	SAHH2_HUMAN	S-adenosylhomocysteine hydrolase-like 1	180					one-carbon metabolic process	endoplasmic reticulum	adenosylhomocysteinase activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0259)|Colorectal(144;0.123)|all cancers(265;0.134)|Epithelial(280;0.141)|LUSC - Lung squamous cell carcinoma(189;0.143)		TTGTAACATCTACTCAACTCA	0.483													8	61					0	0	1	0	0		C	110555579	C	C	110555579	3	2	27	1	0	0	0	0	1	0	0	0	410	1522	53	3	556	3	AHCYL1	1	110555579	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	351723	110555579	138695042	346	22697											
SLC6A17	388662	broad.mit.edu	37	chr1	110737212	110737212	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttcagtccgtgcagggCacaggcctggccttcatcgc	6	8	11	16	2	2	0	2	0	0	0	4	0	3	0	4	3	1	2	4	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:110737212C>T	uc009wfq.2	+	9	1772	c.1311C>T	c.(1309-1311)GGC>GGT	p.G437G	SLC6A17_uc001dze.1_Silent_p.G35G	NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	437	Extracellular (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		CCGTGCAGGGCACAGGCCTGG	0.607													9	31					0	0	1	0	0		T	110737212	T	T	110737212	2	4	27	1	0	0	0	0	0	0	0	1	14705	697	25	2		2	SLC6A17	1	110737212	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	181633	110737212	138513409	347	22698											
KCNA10	3744	broad.mit.edu	37	chr1	111059927	111059927	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggtcttattaagagagtCtgtgctgcccattcttgagc	8	15	10	8	0	3	2	0	1	3	1	3	3	3	2	1	1	3	1	1	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:111059927C>A	uc001dzt.1	-	1	1871	c.1483G>T	c.(1483-1485)GAC>TAC	p.D495Y		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	495						voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		TTAAGAGAGTCTGTGCTGCCC	0.423													14	139					1.52009e-12	1.6921e-12	1	1	0		A	111059927	A	A	111059927	3	1	27	1	0	0	0	0	1	0	0	0	8018	913	32	5	56	5	KCNA10	1	111059927	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	322715	111059927	138190694	348	22699											
DRAM2	128338	broad.mit.edu	37	chr1	111668915	111668915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggagctactgtaccagtgtCactgaaagaaaaaaaggaag	17	7	11	6	0	1	2	1	1	0	1	1	4	1	4	1	2	3	2	1	2	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:111668915C>T	uc001ead.3	-	4	390	c.133G>A	c.(133-135)GAC>AAC	p.D45N	DRAM2_uc001eae.3_Missense_Mutation_p.D45N|DRAM2_uc009wfy.2_RNA|DRAM2_uc001eaf.3_5'UTR	NM_178454	NP_848549	Q6UX65	DRAM2_HUMAN	transmembrane protein 77	45					apoptosis|induction of apoptosis	Golgi apparatus|integral to membrane|lysosomal membrane					0						GTACCAGTGTCACTGAAAGAA	0.323													12	103					0	0	1	0	0		T	111668915	T	T	111668915	3	4	27	1	0	0	0	0	1	0	0	0	4760	840	29	4	691	4	DRAM2	1	111668915	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	608988	111668915	137581706	349	22700											
C1orf162	128346	broad.mit.edu	37	chr1	112020302	112020302	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggcttcccatttccccaGgcccattgctgagatgggtc	7	10	11	13	0	0	2	0	1	0	2	3	3	2	2	4	3	1	2	4	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:112020302G>A	uc001ebe.2	+	5	292	c.232G>A	c.(232-234)GGC>AGC	p.G78S		NM_174896	NP_777556	Q8NEQ5	CA162_HUMAN	hypothetical protein LOC128346	78						integral to membrane				ovary(1)	1		all_cancers(81;0.00116)|all_epithelial(167;0.000761)|all_lung(203;0.00277)|Lung NSC(277;0.0043)		Lung(183;0.0236)|Colorectal(144;0.0286)|all cancers(265;0.0572)|Epithelial(280;0.0862)|COAD - Colon adenocarcinoma(174;0.112)|LUSC - Lung squamous cell carcinoma(189;0.134)		CATTTCCCCAGGCCCATTGCT	0.592													8	100					0	0	1	0	0		A	112020302	A	A	112020302	3	1	27	1	0	0	0	0	1	0	0	0	2013	1000	35	4	246	4	C1orf162	1	112020302	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	351387	112020302	137230319	350	22701											
RAP1A	5906	broad.mit.edu	37	chr1	112247110	112247110	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagatcaatgttaatgaggTaacctacaactgctgggcag	15	9	10	7	0	1	2	1	1	0	1	1	2	1	2	1	2	4	4	1	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:112247110T>A	uc001ebi.2	+	6	572	c.468_splice	c.e6+2	p.E156_splice	RAP1A_uc001ebk.2_Splice_Site_p.E156_splice|RAP1A_uc001ebl.2_Splice_Site_p.E156_splice|RAP1A_uc001ebm.2_Splice_Site	NM_002884	NP_002875	P62834	RAP1A_HUMAN	RAP1A, member of RAS oncogene family precursor						activation of MAPKK activity|blood coagulation|energy reserve metabolic process|nerve growth factor receptor signaling pathway|regulation of insulin secretion	cytosol|plasma membrane	GTP binding|GTPase activity				0		all_cancers(81;6.79e-06)|all_epithelial(167;2.42e-05)|all_lung(203;0.000105)|Lung NSC(277;0.00021)		Lung(183;0.0183)|Colorectal(144;0.0418)|LUSC - Lung squamous cell carcinoma(189;0.0966)|all cancers(265;0.098)|Epithelial(280;0.0981)|COAD - Colon adenocarcinoma(174;0.141)		GTTAATGAGGTAACCTACAAC	0.373													4	57					0	0	1	0	0		A	112247110	A	A	112247110	5	1	27	1	0	0	0	0	0	0	1	0	13060	1652	57	5	488	5	RAP1A	1	112247110	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	226808	112247110	137003511	351	22702											
C1orf183	55924	broad.mit.edu	37	chr1	112269716	112269716	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaggggaaatgtccagaGcccttggaaaggctccgctt	10	7	15	9	1	0	1	0	0	0	1	2	4	2	4	3	5	1	2	3	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:112269716G>A	uc001ebo.1	-	2	926	c.768C>T	c.(766-768)GGC>GGT	p.G256G	C1orf183_uc001ebp.1_Silent_p.G241G	NM_019099	NP_061972	Q9NTI7	CA183_HUMAN	hypothetical protein LOC55924 isoform 1	256										ovary(2)	2		all_cancers(81;7.29e-06)|all_epithelial(167;4.98e-06)|all_lung(203;2.44e-05)|Lung NSC(69;4.16e-05)		Lung(183;0.0155)|Colorectal(144;0.0289)|all cancers(265;0.0592)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0852)|COAD - Colon adenocarcinoma(174;0.113)		AATGTCCAGAGCCCTTGGAAA	0.637													5	135					0	0	1	0	0		A	112269716	A	A	112269716	2	1	27	1	0	0	0	0	0	0	0	1	2022	958	34	2		2	C1orf183	1	112269716	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	22606	112269716	136980905	352	22703											
KCND3	3752	broad.mit.edu	37	chr1	112524540	112524540	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgaccagaccgatgtagTagggcatgatggccaccacg	11	7	12	11	2	1	3	1	2	0	1	1	4	1	3	4	2	0	3	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:112524540T>C	uc001ebu.1	-	2	1289	c.809A>G	c.(808-810)TAC>TGC	p.Y270C	KCND3_uc001ebv.1_Missense_Mutation_p.Y270C	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	270	Helical; Name=Segment S3; (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		ACCGATGTAGTAGGGCATGAT	0.607													3	83					0	0	1	0	0		C	112524540	C	C	112524540	3	2	27	1	0	0	0	0	1	0	0	0	8036	1638	57	3	1186	3	KCND3	1	112524540	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	254824	112524540	136726081	353	22704											
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112991688	112991688	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggcgaaaagcagccagTctgcacaaatccactctcta	13	8	8	12	1	2	1	0	1	2	0	4	2	3	1	2	1	3	2	2	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:112991688T>A	uc001ebx.2	+	4	452	c.224T>A	c.(223-225)GTC>GAC	p.V75D		NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	75						actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AAGCAGCCAGTCTGCACAAAT	0.458													5	50					0	0	1	0	0		A	112991688	A	A	112991688	3	1	27	1	0	0	0	0	1	0	0	0	4049	1667	58	5	230	5	CTTNBP2NL	1	112991688	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	467148	112991688	136258933	354	22705											
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112998596	112998596	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaagtttgaaaaagaacAgaagaagctctctagtcagc	19	7	9	6	0	2	4	1	1	1	3	3	5	2	4	0	0	3	2	0	0	8	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:112998596A>G	uc001ebx.2	+	6	710	c.482A>G	c.(481-483)CAG>CGG	p.Q161R	CTTNBP2NL_uc001ebz.2_5'Flank	NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	161	Potential.					actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAAAAAGAACAGAAGAAGCTC	0.433													6	52					0	0	1	0	0		G	112998596	G	G	112998596	3	3	27	1	0	0	0	0	1	0	0	0	4049	188	7	3	496	3	CTTNBP2NL	1	112998596	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6908	112998596	136252025	355	22706											
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112998647	112998647	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctcccgccacaagcagcTctcatccatgctagtgcttg	7	9	9	16	2	1	0	1	0	1	0	4	0	3	0	3	0	4	5	3	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:112998647T>A	uc001ebx.2	+	6	761	c.533T>A	c.(532-534)CTC>CAC	p.L178H	CTTNBP2NL_uc001ebz.2_5'Flank	NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	178	Potential.					actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CACAAGCAGCTCTCATCCATG	0.483													4	58					0	0	1	0	0		A	112998647	A	A	112998647	3	1	27	1	0	0	0	0	1	0	0	0	4049	1551	54	5	547	5	CTTNBP2NL	1	112998647	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	51	112998647	136251974	356	22707											
CAPZA1	829	broad.mit.edu	37	chr1	113197105	113197105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtcttaattacagagcacGgtgacctgggtaatagcaga	13	9	12	7	1	1	3	0	1	1	2	1	3	1	3	1	3	3	3	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:113197105G>A	uc001ecj.1	+	5	630	c.238G>A	c.(238-240)GGT>AGT	p.G80S		NM_006135	NP_006126	P52907	CAZA1_HUMAN	F-actin capping protein alpha-1 subunit	80					actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement|innate immune response|protein complex assembly	cytosol|extracellular region|F-actin capping protein complex|WASH complex	actin binding				0	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TACAGAGCACGGTGACCTGGG	0.348													5	79					0	0	1	0	0		A	113197105	A	A	113197105	3	1	27	1	0	0	0	0	1	0	0	0	2643	1116	39	1	256	1	CAPZA1	1	113197105	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	198458	113197105	136053516	357	22708											
MOV10	4343	broad.mit.edu	37	chr1	113238807	113238807	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcaaagaagggggagtatgTatttcccgccaagaagaagc	14	6	13	8	2	0	3	0	0	0	3	1	4	1	4	2	2	1	3	2	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:113238807T>C	uc001eck.2	+	12	2087	c.1817T>C	c.(1816-1818)GTA>GCA	p.V606A	MOV10_uc001ecl.2_Intron|MOV10_uc001ecn.2_Missense_Mutation_p.V606A|MOV10_uc001ecm.2_Missense_Mutation_p.V546A|MOV10_uc009wgj.1_Missense_Mutation_p.V546A	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	606					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		GGGGAGTATGTATTTCCCGCC	0.547													16	48					0	0	1	0	0		C	113238807	C	C	113238807	3	2	27	1	0	0	0	0	1	0	0	0	9736	1638	57	3	1859	3	MOV10	1	113238807	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	41702	113238807	136011814	358	22709											
LRIG2	9860	broad.mit.edu	37	chr1	113653183	113653183	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagccaaactgactgtaaaTggtaaggaattatgctcctt	15	11	8	7	0	0	1	0	1	0	0	1	2	1	2	2	2	3	3	2	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:113653183T>C	uc001edf.1	+	13	1995	c.1797T>C	c.(1795-1797)AAT>AAC	p.N599N	LRIG2_uc009wgn.1_Silent_p.N496N	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	599	Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		TGACTGTAAATGGTAAGGAAT	0.294													5	52					0	0	1	0	0		C	113653183	C	C	113653183	2	2	27	1	0	0	0	0	0	0	0	1	8963	1478	51	3		3	LRIG2	1	113653183	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	414376	113653183	135597438	359	22710											
MAGI3	260425	broad.mit.edu	37	chr1	114184904	114184904	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcccagcctgaactagtgActatccctttgattaagggc	9	11	9	12	0	0	3	0	3	0	0	2	3	2	3	3	1	2	1	3	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:114184904A>T	uc001edk.2	+	10	1913	c.1732A>T	c.(1732-1734)ACT>TCT	p.T578S	MAGI3_uc001edh.3_Missense_Mutation_p.T603S|MAGI3_uc001edi.3_Missense_Mutation_p.T578S|MAGI3_uc010owm.1_Missense_Mutation_p.T603S|MAGI3_uc001edj.2_Missense_Mutation_p.T299S	NM_001142782	NP_001136254	Q5TCQ9	MAGI3_HUMAN	membrane-associated guanylate kinase-related  3	603	PDZ 3.				apoptosis|interspecies interaction between organisms|intracellular signal transduction	nucleus|tight junction	ATP binding|guanylate kinase activity|protein binding			lung(3)|ovary(2)|central_nervous_system(1)	6	Lung SC(450;0.184)	all_cancers(81;2.34e-09)|all_epithelial(167;7.41e-09)|all_lung(203;7.13e-06)|Lung NSC(69;1.2e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGAACTAGTGACTATCCCTTT	0.493													8	63					0	0	1	0	0		T	114184904	T	T	114184904	3	4	27	1	0	0	0	0	1	0	0	0	9210	275	10	5	1770	5	MAGI3	1	114184904	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	531721	114184904	135065717	360	22711											
PHTF1	10745	broad.mit.edu	37	chr1	114243442	114243442	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaagtaatattgaaacatTgctgtatttcttattggttt	11	20	7	3	0	1	1	0	1	1	0	1	1	1	1	0	1	2	5	0	1	6	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:114243442T>C	uc009wgp.1	-	15	2472	c.2020A>G	c.(2020-2022)AAT>GAT	p.N674D	PHTF1_uc001edm.2_Missense_Mutation_p.N431D	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	674						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATTGAAACATTGCTGTATTTC	0.303													3	57					0	0	1	0	0		C	114243442	C	C	114243442	3	2	27	1	0	0	0	0	1	0	0	0	11881	1812	63	3	284	3	PHTF1	1	114243442	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	58538	114243442	135007179	361	22712											
PHTF1	10745	broad.mit.edu	37	chr1	114247337	114247337	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttaatattctccaccttcTtaagtctgaaatgaggtatt	11	18	5	7	0	3	2	0	2	3	0	4	2	3	2	2	1	0	1	2	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:114247337T>C	uc009wgp.1	-	13	2206	c.1754A>G	c.(1753-1755)AAG>AGG	p.K585R	PHTF1_uc001edn.2_Missense_Mutation_p.K585R|PHTF1_uc001edm.2_Missense_Mutation_p.K342R	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	585						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTCCACCTTCTTAAGTCTGAA	0.318													11	128					0	0	1	0	0		C	114247337	C	C	114247337	3	2	27	1	0	0	0	0	1	0	0	0	11881	1609	56	3	558	3	PHTF1	1	114247337	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3895	114247337	135003284	362	22713											
RSBN1	54665	broad.mit.edu	37	chr1	114310883	114310883	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcaaaactccaacagcaGccgtactctgccagtcaaac	13	8	5	15	1	3	0	2	0	1	0	4	0	4	0	3	0	7	2	3	0	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:114310883G>T	uc001edq.2	-	5	1823	c.1787C>A	c.(1786-1788)GCT>GAT	p.A596D	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	596						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCCAACAGCAGCCGTACTCTG	0.448													7	78					8.12818e-05	8.61523e-05	1	1	0		T	114310883	T	T	114310883	3	4	27	1	0	0	0	0	1	0	0	0	13721	971	34	5	633	5	RSBN1	1	114310883	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	63546	114310883	134939738	363	22714											
RSBN1	54665	broad.mit.edu	37	chr1	114320291	114320291	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataatcttaattaacactcActttcagaaatggtgattct	15	15	4	7	0	4	2	2	1	2	1	4	2	4	2	0	1	1	0	0	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:114320291A>G	uc001edq.2	-	3	1551	c.1515_splice	c.e3+1	p.K505_splice	RSBN1_uc001edr.2_Splice_Site	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1							nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATTAACACTCACTTTCAGAAA	0.323													9	28					0	0	1	0	0		G	114320291	G	G	114320291	5	3	27	1	0	0	0	0	0	0	1	0	13721	173	6	3	911	3	RSBN1	1	114320291	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	9408	114320291	134930330	364	22715											
AP4B1	10717	broad.mit.edu	37	chr1	114447319	114447319	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagctccttcaccacgtcCtcggagccaaggtacggcat	8	9	9	15	3	2	0	2	0	0	0	5	1	4	1	4	3	3	3	4	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:114447319C>A	uc001eeb.2	-	1	164	c.21G>T	c.(19-21)GAG>GAT	p.E7D	AP4B1_uc001eec.2_Missense_Mutation_p.E7D|AP4B1_uc001eed.2_Missense_Mutation_p.E7D|AP4B1_uc010owp.1_Translation_Start_Site|AP4B1_uc010owq.1_Missense_Mutation_p.E7D|DCLRE1B_uc001eeg.2_5'Flank|DCLRE1B_uc001eeh.2_5'Flank|DCLRE1B_uc001eei.2_5'Flank	NM_006594	NP_006585	Q9Y6B7	AP4B1_HUMAN	adaptor-related protein complex 4, beta 1	7					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|soluble fraction|trans-Golgi network	protein binding|protein transporter activity			ovary(3)|central_nervous_system(1)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.1e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCACCACGTCCTCGGAGCCAA	0.562													40	140					9.9998e-32	1.12124e-31	1	1	0		A	114447319	A	A	114447319	3	1	27	1	0	0	0	0	1	0	0	0	751	680	24	5	2238	5	AP4B1	1	114447319	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	127028	114447319	134803302	365	22716											
DCLRE1B	64858	broad.mit.edu	37	chr1	114450717	114450717	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttatacctagacaacaccAattgcaatccagccctggtt	12	11	5	13	0	0	1	0	0	0	1	1	1	1	1	4	1	4	2	4	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:114450717A>G	uc001eeg.2	+	3	613	c.442A>G	c.(442-444)AAT>GAT	p.N148D	AP4B1_uc001eed.2_5'Flank|AP4B1_uc010owp.1_5'Flank|DCLRE1B_uc001eeh.2_Missense_Mutation_p.N22D|DCLRE1B_uc001eei.2_Missense_Mutation_p.N22D	NM_022836	NP_073747	Q9H816	DCR1B_HUMAN	DNA cross-link repair 1B (PSO2 homolog, S.	148					cell cycle checkpoint|DNA repair|protection from non-homologous end joining at telomere|telomeric 3' overhang formation|telomeric loop formation	centrosome|chromosome, telomeric region|nucleus	5'-3' exonuclease activity|protein binding				0	Lung SC(450;0.184)	all_cancers(81;1.46e-05)|all_epithelial(167;2.42e-05)|all_lung(203;0.000353)|Lung NSC(69;0.000518)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGACAACACCAATTGCAATCC	0.463								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					11	112					0	0	1	0	0		G	114450717	G	G	114450717	3	3	27	1	0	0	0	0	1	0	0	0	4298	130	5	3	452	3	DCLRE1B	1	114450717	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3398	114450717	134799904	366	22717											
SYT6	148281	broad.mit.edu	37	chr1	114680358	114680358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtctgcagcttgcatttgCggtcaggcaggaggtagatc	7	10	16	8	1	2	1	1	0	1	1	3	2	2	2	0	5	4	5	0	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:114680358C>T	uc001eev.2	-	3	825	c.575G>A	c.(574-576)CGC>CAC	p.R192H		NM_205848	NP_995320	Q5T7P8	SYT6_HUMAN	synaptotagmin VI	277	Cytoplasmic (Potential).|C2 1.				acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTTGCATTTGCGGTCAGGCAG	0.557													7	96					0	0	1	0	0		T	114680358	T	T	114680358	3	4	27	1	0	0	0	0	1	0	0	0	15503	768	27	1	722	1	SYT6	1	114680358	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	229641	114680358	134570263	367	22718											
SYT6	148281	broad.mit.edu	37	chr1	114682276	114682276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagtttgccgctgcagcCgggtgtgacgcatgatgtgc	5	11	15	10	3	0	2	0	2	0	0	0	2	0	2	2	1	4	5	2	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:114682276C>T	uc001eev.2	-	2	468	c.218G>A	c.(217-219)CGG>CAG	p.R73Q		NM_205848	NP_995320	Q5T7P8	SYT6_HUMAN	synaptotagmin VI	158	Cytoplasmic (Potential).				acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCGCTGCAGCCGGGTGTGACG	0.597													8	39					0	0	1	0	0		T	114682276	T	T	114682276	3	4	27	1	0	0	0	0	1	0	0	0	15503	652	23	1	1083	1	SYT6	1	114682276	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1918	114682276	134568345	368	22719											
TRIM33	51592	broad.mit.edu	37	chr1	114940429	114940429	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtagatctctgtgagtttAtcttcaaagtacaatgcaac	13	13	8	7	0	3	2	1	1	2	1	4	3	3	2	0	0	3	4	0	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:114940429A>G	uc001eew.2	-	20	3309	c.3225T>C	c.(3223-3225)GAT>GAC	p.D1075D	TRIM33_uc010owr.1_Silent_p.D689D|TRIM33_uc010ows.1_Silent_p.D707D|TRIM33_uc001eex.2_Silent_p.D1058D	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	1075					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTGTGAGTTTATCTTCAAAGT	0.443			T	RET	papillary thyroid								9	116					0	0	1	0	0		G	114940429	G	G	114940429	2	3	27	1	0	0	0	0	0	0	0	1	16533	446	16	3		3	TRIM33	1	114940429	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	258153	114940429	134310192	369	22720											
TRIM33	51592	broad.mit.edu	37	chr1	114973432	114973432	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccatacctctagctgttgTaagagagattttcctttctt	10	16	6	9	0	2	2	0	0	2	2	3	3	3	2	3	0	3	3	3	0	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:114973432T>C	uc001eew.2	-	6	1227	c.1143A>G	c.(1141-1143)TTA>TTG	p.L381L	TRIM33_uc010owr.1_5'Flank|TRIM33_uc010ows.1_5'UTR|TRIM33_uc001eex.2_Silent_p.L381L	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	381	Necessary for oligomerization.|Potential.				negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTAGCTGTTGTAAGAGAGATT	0.303			T	RET	papillary thyroid								4	104					0	0	1	0	0		C	114973432	C	C	114973432	2	2	27	1	0	0	0	0	0	0	0	1	16533	1635	57	3		3	TRIM33	1	114973432	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	33003	114973432	134277189	370	22721											
BCAS2	10286	broad.mit.edu	37	chr1	115124132	115124132	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactcaccgcttcccgcacAccaggggcttcataaccttg	8	8	8	17	2	2	0	2	0	0	0	3	0	3	0	4	2	1	4	4	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:115124132A>G	uc001efa.2	-	1	134	c.81T>C	c.(79-81)GGT>GGC	p.G27G	DENND2C_uc001eez.2_Intron	NM_005872	NP_005863	O75934	SPF27_HUMAN	breast carcinoma amplified sequence 2	27					mRNA processing|RNA splicing, via transesterification reactions	nucleolus|spliceosomal complex	protein binding			large_intestine(1)	1	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTTCCCGCACACCAGGGGCTT	0.542													3	52					0	0	1	0	0		G	115124132	G	G	115124132	2	3	27	1	0	0	0	0	0	0	0	1	1352	146	6	3		3	BCAS2	1	115124132	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	150700	115124132	134126489	371	22722											
AMPD1	270	broad.mit.edu	37	chr1	115221074	115221074	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accactctgtcagcatcaatTtggtaagatttcttaataaa	14	14	5	8	0	4	1	2	0	2	1	4	1	4	1	1	1	1	2	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:115221074T>C	uc001efe.1	-	8	1056	c.972A>G	c.(970-972)CAA>CAG	p.Q324Q	AMPD1_uc001eff.1_Silent_p.Q320Q	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	324					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	CAGCATCAATTTGGTAAGATT	0.383													11	75					0	0	1	0	0		C	115221074	C	C	115221074	2	2	27	1	0	0	0	0	0	0	0	1	585	1838	64	3		3	AMPD1	1	115221074	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	96942	115221074	134029547	372	22723											
CSDE1	7812	broad.mit.edu	37	chr1	115261368	115261368	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagccttggggccctcacTgtaattaagtcaaaagatga	14	9	9	9	0	2	2	2	1	0	1	2	2	2	2	2	2	2	1	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:115261368T>C	uc001efk.2	-	19	2683	c.2217_splice	c.e19-1	p.C739_splice	NRAS_uc009wgu.2_5'Flank|CSDE1_uc001efi.2_Splice_Site_p.C785_splice|CSDE1_uc001efj.2_Intron|CSDE1_uc001efl.2_Splice_Site_p.C708_splice|CSDE1_uc001efm.2_Splice_Site_p.C754_splice|CSDE1_uc009wgv.2_Splice_Site_p.C739_splice|CSDE1_uc001efn.2_Splice_Site_p.C708_splice	NM_001007553	NP_001007554	O75534	CSDE1_HUMAN	upstream of NRAS isoform 1						male gonad development|regulation of transcription, DNA-dependent	cytoplasm	DNA binding|protein binding|RNA binding			ovary(1)	1	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;2.21e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGGCCCTCACTGTAATTAAGT	0.493													5	38					0	0	1	0	0		C	115261368	C	C	115261368	5	2	27	1	0	0	0	0	0	0	1	0	3932	1594	55	3	189	3	CSDE1	1	115261368	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	40294	115261368	133989253	373	22724											
SYCP1	6847	broad.mit.edu	37	chr1	115418740	115418740	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaagctgagaattccagActggaaatgcattttaagtg	13	11	11	6	0	0	2	0	1	0	2	1	4	1	3	1	1	3	3	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:115418740A>T	uc001efr.2	+	10	917	c.708A>T	c.(706-708)AGA>AGT	p.R236S	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.R236S|SYCP1_uc009wgw.2_Missense_Mutation_p.R236S	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	236	Potential.				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGAATTCCAGACTGGAAATGC	0.274													4	57					0	0	1	0	0		T	115418740	T	T	115418740	3	4	27	1	0	0	0	0	1	0	0	0	15456	272	10	5	742	5	SYCP1	1	115418740	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	157372	115418740	133831881	374	22725											
TSHB	7252	broad.mit.edu	37	chr1	115576796	115576796	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catacatgaagccatcaagaCaaactactgtaccaaacctc	17	7	4	13	0	1	2	1	1	0	1	2	2	1	2	3	0	6	1	3	0	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:115576796C>A	uc001efs.1	+	3	433	c.365C>A	c.(364-366)ACA>AAA	p.T122K		NM_000549	NP_000540	P01222	TSHB_HUMAN	thyroid stimulating hormone, beta precursor	122					anatomical structure morphogenesis|cell-cell signaling|cellular nitrogen compound metabolic process|G-protein coupled receptor protein signaling pathway|hormone biosynthetic process|peptide hormone processing	extracellular region	hormone activity				0	Lung SC(450;0.211)	all_cancers(81;3.22e-07)|all_epithelial(167;1.4e-06)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|all cancers(265;0.159)|Epithelial(280;0.179)		GCCATCAAGACAAACTACTGT	0.378													20	99					5.35267e-07	5.83128e-07	1	1	0		A	115576796	A	A	115576796	3	1	27	1	0	0	0	0	1	0	0	0	16647	478	17	5	371	5	TSHB	1	115576796	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	158056	115576796	133673825	375	22726											
NHLH2	4808	broad.mit.edu	37	chr1	116380781	116380781	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tacttggccgtggcgcgccgGcggcggcgcttctcctcgcg	1	8	16	16	9	1	0	0	0	1	0	3	0	1	0	3	5	1	1	3	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:116380781G>C	uc009wgz.2	-	2	718	c.213C>G	c.(211-213)CGC>CGG	p.R71R	NHLH2_uc001efy.2_Silent_p.R71R	NM_001111061	NP_001104531	Q02577	HEN2_HUMAN	nescient helix loop helix 2	71	Poly-Arg.				cell differentiation|central nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0	Lung SC(450;0.184)	all_cancers(81;1.75e-06)|all_epithelial(167;1.16e-06)|all_lung(203;9.55e-06)|Lung NSC(69;5.83e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		TGGCGCGCCGGCGGCGGCGCT	0.736													5	3					0	0	1	0	0		C	116380781	C	C	116380781	2	2	27	1	0	0	0	0	0	0	0	1	10423	1190	42	5		5	NHLH2	1	116380781	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	803985	116380781	132869840	376	22727											
ATP1A1	476	broad.mit.edu	37	chr1	116937812	116937812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgatgtgaatttccctatcGataatctgtgctttgttggg	8	16	10	7	2	1	1	0	1	1	0	3	3	2	1	1	1	1	2	1	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:116937812G>A	uc001ege.2	+	13	2080	c.1741G>A	c.(1741-1743)GAT>AAT	p.D581N	ATP1A1_uc010owv.1_Missense_Mutation_p.D550N|ATP1A1_uc010oww.1_Missense_Mutation_p.D581N|ATP1A1_uc010owx.1_Missense_Mutation_p.D550N|C1orf203_uc009whb.2_Intron	NM_000701	NP_000692	P05023	AT1A1_HUMAN	Na+/K+ -ATPase alpha 1 subunit isoform a	581	Cytoplasmic (Potential).				ATP biosynthetic process	melanosome|sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Captopril(DB01197)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Esomeprazole(DB00736)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Ouabain(DB01092)|Pantoprazole(DB00213)|Trichlormethiazide(DB01021)	TTTCCCTATCGATAATCTGTG	0.517													17	129					0	0	1	0	0		A	116937812	A	A	116937812	3	1	27	1	0	0	0	0	1	0	0	0	1129	1058	37	1	1807	1	ATP1A1	1	116937812	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	557031	116937812	132312809	377	22728											
CD101	9398	broad.mit.edu	37	chr1	117552590	117552590	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccagggaccttctgagcaGcatttccagtggtctgttta	8	12	10	11	0	2	1	0	1	2	0	3	2	3	2	3	2	2	3	3	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:117552590G>T	uc010oxb.1	+	2	220	c.162G>T	c.(160-162)CAG>CAT	p.Q54H	CD101_uc009whd.2_Missense_Mutation_p.Q54H|CD101_uc010oxc.1_Missense_Mutation_p.Q54H|CD101_uc010oxd.1_Missense_Mutation_p.Q54H	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	54	Extracellular (Potential).|Ig-like C2-type 1.				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CTTCTGAGCAGCATTTCCAGT	0.502													8	80					0.00307968	0.00318367	1	1	0		T	117552590	T	T	117552590	3	4	27	1	0	0	0	0	1	0	0	0	2965	962	34	5	168	5	CD101	1	117552590	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	614778	117552590	131698031	378	22729											
CD101	9398	broad.mit.edu	37	chr1	117561006	117561006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccggttccaaaagaagaCgaaagtgtcgcagtctttat	13	10	9	9	3	1	2	0	0	1	2	4	3	3	2	2	1	0	2	2	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:117561006C>T	uc010oxb.1	+	6	1899	c.1841C>T	c.(1840-1842)ACG>ATG	p.T614M	CD101_uc009whd.2_Missense_Mutation_p.T614M|CD101_uc010oxc.1_Missense_Mutation_p.T614M|CD101_uc010oxd.1_Missense_Mutation_p.T552M	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	614	Extracellular (Potential).|Ig-like C2-type 5.				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CAAAAGAAGACGAAAGTGTCG	0.453													23	76					0	0	1	0	0		T	117561006	T	T	117561006	3	4	27	1	0	0	0	0	1	0	0	0	2965	536	19	1	1863	1	CD101	1	117561006	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8416	117561006	131689615	379	22730											
CD101	9398	broad.mit.edu	37	chr1	117568456	117568456	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagtggcagctccatggAcacccaagcaagtggattaa	13	6	12	10	0	0	1	0	0	0	1	1	3	1	3	2	3	2	4	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:117568456A>T	uc010oxb.1	+	8	2812	c.2754A>T	c.(2752-2754)GGA>GGT	p.G918G	CD101_uc009whd.2_Silent_p.G918G|CD101_uc010oxc.1_Silent_p.G918G|CD101_uc010oxd.1_Silent_p.G856G	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	918	Ig-like C2-type 7.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						AGCTCCATGGACACCCAAGCA	0.532													4	68					0	0	1	0	0		T	117568456	T	T	117568456	2	4	27	1	0	0	0	0	0	0	0	1	2965	262	10	5		5	CD101	1	117568456	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7450	117568456	131682165	380	22731											
TTF2	8458	broad.mit.edu	37	chr1	117617696	117617696	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaagggagatcagcttttcGatcaaaagaaagaacagaag	20	6	10	5	1	2	4	2	0	0	4	3	6	2	4	0	1	2	1	0	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:117617696G>A	uc001egy.2	+	5	510	c.490G>A	c.(490-492)GAT>AAT	p.D164N	TTF2_uc001egx.1_Missense_Mutation_p.D164N	NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	164					mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		TCAGCTTTTCGATCAAAAGAA	0.413													12	47					0	0	1	0	0		A	117617696	A	A	117617696	3	1	27	1	0	0	0	0	1	0	0	0	16745	1058	37	1	508	1	TTF2	1	117617696	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	49240	117617696	131632925	381	22732											
TTF2	8458	broad.mit.edu	37	chr1	117634487	117634487	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagacactcggaggcagcagActcaccgagatccagcaccg	12	4	11	14	3	1	3	1	0	0	3	3	5	2	4	3	2	2	3	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:117634487A>T	uc001egy.2	+	17	2740	c.2720A>T	c.(2719-2721)GAC>GTC	p.D907V	MIR942_hsa-mir-942|MI0005767_5'Flank	NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	907					mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		GAGGCAGCAGACTCACCGAGA	0.512													8	61					0	0	1	0	0		T	117634487	T	T	117634487	3	4	27	1	0	0	0	0	1	0	0	0	16745	275	10	5	2786	5	TTF2	1	117634487	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	16791	117634487	131616134	382	22733											
TRIM45	80263	broad.mit.edu	37	chr1	117661186	117661186	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtccccatgcttgtggAtgacattgctggtgaagtca	9	11	12	9	0	1	3	1	2	0	1	2	4	2	4	2	2	2	2	2	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:117661186A>T	uc001egz.2	-	2	1280	c.692T>A	c.(691-693)ATC>AAC	p.I231N	TRIM45_uc009whe.2_Missense_Mutation_p.I231N|TRIM45_uc001eha.2_Missense_Mutation_p.I127N	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	231						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		ATGCTTGTGGATGACATTGCT	0.572													4	67					0	0	1	0	0		T	117661186	T	T	117661186	3	4	27	1	0	0	0	0	1	0	0	0	16546	333	12	5	1070	5	TRIM45	1	117661186	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26699	117661186	131589435	383	22734											
MAN1A2	10905	broad.mit.edu	37	chr1	118009007	118009007	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggatcgtccaaatggtcttTatccaaattatttgaacccc	11	14	6	10	1	1	1	0	1	1	0	4	2	3	2	4	2	1	0	4	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:118009007T>C	uc001ehd.1	+	8	1847	c.1126T>C	c.(1126-1128)TAT>CAT	p.Y376H	MAN1A2_uc009whg.1_Missense_Mutation_p.Y166H	NM_006699	NP_006690	O60476	MA1A2_HUMAN	mannosidase, alpha, class 1A, member 2	376	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity				0	Lung SC(450;0.225)	all_cancers(81;7.9e-06)|all_epithelial(167;7.39e-07)|all_lung(203;2.84e-06)|Lung NSC(69;1.99e-05)		Lung(183;0.0688)|Kidney(133;0.114)|LUSC - Lung squamous cell carcinoma(189;0.223)|KIRC - Kidney renal clear cell carcinoma(1967;0.237)|Colorectal(144;0.243)		AAATGGTCTTTATCCAAATTA	0.333													8	32					0	0	1	0	0		C	118009007	C	C	118009007	3	2	27	1	0	0	0	0	1	0	0	0	9229	1754	61	3	1156	3	MAN1A2	1	118009007	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	347821	118009007	131241614	384	22735											
FAM46C	54855	broad.mit.edu	37	chr1	118165851	118165851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttcccttctgaacttcctgCcagagggtgtgaacaagctc	8	11	10	12	0	1	3	0	2	1	1	4	3	3	3	3	1	4	2	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:118165851C>T	uc001ehe.2	+	2	560	c.361C>T	c.(361-363)CCA>TCA	p.P121S		NM_017709	NP_060179	Q5VWP2	FA46C_HUMAN	hypothetical protein LOC54855	121											0	Lung SC(450;0.225)	all_cancers(81;0.000101)|all_lung(203;3.4e-06)|all_epithelial(167;4.98e-06)|Lung NSC(69;2.33e-05)		Lung(183;0.0576)|LUSC - Lung squamous cell carcinoma(189;0.192)|Colorectal(144;0.247)		GAACTTCCTGCCAGAGGGTGT	0.502										Multiple Myeloma(3;1.13e-06)			25	95					0	0	1	0	0		T	118165851	T	T	118165851	3	4	27	1	0	0	0	0	1	0	0	0	5581	739	26	2	363	2	FAM46C	1	118165851	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	156844	118165851	131084770	385	22736											
GDAP2	54834	broad.mit.edu	37	chr1	118461256	118461256	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccttcaaatcaggcccTgcaagcatgaagatactttc	11	12	6	12	0	3	2	2	1	1	1	5	2	4	2	2	1	3	2	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:118461256T>C	uc001ehf.2	-	3	578	c.279A>G	c.(277-279)GCA>GCG	p.A93A	GDAP2_uc001ehg.2_Silent_p.A93A	NM_017686	NP_060156	Q9NXN4	GDAP2_HUMAN	ganglioside induced differentiation associated	93	Macro.									ovary(2)	2		all_cancers(81;0.0156)|all_lung(203;5.81e-05)|Lung NSC(69;0.000446)|all_epithelial(167;0.00295)		Lung(183;0.0583)|LUSC - Lung squamous cell carcinoma(189;0.194)		AATCAGGCCCTGCAAGCATGA	0.378													8	63					0	0	1	0	0		C	118461256	C	C	118461256	2	2	27	1	0	0	0	0	0	0	0	1	6324	1567	55	3		3	GDAP2	1	118461256	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	295405	118461256	130789365	386	22737											
WDR3	10885	broad.mit.edu	37	chr1	118483468	118483468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agattgaagacccggaagaaCcagaccccaagaaaatcaaa	20	3	8	10	1	1	6	1	1	0	5	1	7	1	7	4	1	1	0	4	1	7	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:118483468C>T	uc010oxe.1	+	7	760	c.694C>T	c.(694-696)CCA>TCA	p.P232S	WDR3_uc001ehi.2_Intron|WDR3_uc001ehh.2_Missense_Mutation_p.P61S	NM_006784	NP_006775	Q9UNX4	WDR3_HUMAN	WD repeat-containing protein 3	232						nuclear membrane|nucleolus				upper_aerodigestive_tract(1)	1	Esophageal squamous(2;0.162)	all_cancers(81;2.72e-05)|Acute lymphoblastic leukemia(138;1e-08)|all_epithelial(167;4.4e-07)|all_lung(203;1.7e-06)|Lung NSC(69;1.98e-05)|Prostate(1639;0.00955)|Breast(1374;0.244)		OV - Ovarian serous cystadenocarcinoma(397;1.39e-08)|Epithelial(280;1.82e-07)|all cancers(265;2.04e-05)|Lung(183;0.0525)|BRCA - Breast invasive adenocarcinoma(282;0.0695)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.185)		CCCGGAAGAACCAGACCCCAA	0.358													11	175					0	0	1	0	0		T	118483468	T	T	118483468	3	4	27	1	0	0	0	0	1	0	0	0	17311	507	18	4	716	4	WDR3	1	118483468	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	22212	118483468	130767153	387	22738											
WDR3	10885	broad.mit.edu	37	chr1	118486176	118486176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggtcatcgcagtgatgtgCggactttgtcattcagctca	7	12	13	9	2	4	1	4	1	0	0	5	2	4	2	0	3	2	2	0	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:118486176C>T	uc010oxe.1	+	11	1321	c.1255C>T	c.(1255-1257)CGG>TGG	p.R419W	WDR3_uc001ehi.2_Intron	NM_006784	NP_006775	Q9UNX4	WDR3_HUMAN	WD repeat-containing protein 3	419	WD 7.					nuclear membrane|nucleolus				upper_aerodigestive_tract(1)	1	Esophageal squamous(2;0.162)	all_cancers(81;2.72e-05)|Acute lymphoblastic leukemia(138;1e-08)|all_epithelial(167;4.4e-07)|all_lung(203;1.7e-06)|Lung NSC(69;1.98e-05)|Prostate(1639;0.00955)|Breast(1374;0.244)		OV - Ovarian serous cystadenocarcinoma(397;1.39e-08)|Epithelial(280;1.82e-07)|all cancers(265;2.04e-05)|Lung(183;0.0525)|BRCA - Breast invasive adenocarcinoma(282;0.0695)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.185)		CAGTGATGTGCGGACTTTGTC	0.433													5	113					0	0	1	0	0		T	118486176	T	T	118486176	3	4	27	1	0	0	0	0	1	0	0	0	17311	759	27	1	1293	1	WDR3	1	118486176	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2708	118486176	130764445	388	22739											
SPAG17	200162	broad.mit.edu	37	chr1	118527389	118527389	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccattaggtaattctgtgTtgtctcaatttccttcctgg	7	18	7	9	0	2	0	1	0	2	0	6	0	5	0	3	2	0	2	3	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:118527389T>C	uc001ehk.2	-	41	5754	c.5686A>G	c.(5686-5688)ACA>GCA	p.T1896A		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1896	Potential.					cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TAATTCTGTGTTGTCTCAATT	0.323													9	68					0	0	1	0	0		C	118527389	C	C	118527389	3	2	27	1	0	0	0	0	1	0	0	0	15004	1725	60	3	1017	3	SPAG17	1	118527389	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	41213	118527389	130723232	389	22740											
SPAG17	200162	broad.mit.edu	37	chr1	118530822	118530822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaataaatcagttaggtgagCtgcaactttaaacatagatg	16	11	9	5	0	1	2	1	1	0	1	1	3	1	2	0	1	4	3	0	1	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:118530822C>T	uc001ehk.2	-	39	5595	c.5527G>A	c.(5527-5529)GCT>ACT	p.A1843T		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1843						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GTTAGGTGAGCTGCAACTTTA	0.383													4	19					0	0	1	0	0		T	118530822	T	T	118530822	3	4	27	1	0	0	0	0	1	0	0	0	15004	797	28	2	1184	2	SPAG17	1	118530822	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3433	118530822	130719799	390	22741											
TBX15	6913	broad.mit.edu	37	chr1	119441700	119441700	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaaggtgagtgtgcgcacAggaggtctccagaatgcata	11	8	14	8	2	1	2	0	1	1	1	3	4	1	3	1	3	2	2	1	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:119441700A>C	uc001ehl.1	-	7	972	c.657T>G	c.(655-657)CCT>CCG	p.P219P	TBX15_uc009whj.1_Silent_p.P10P	NM_152380	NP_689593	Q96SF7	TBX15_HUMAN	T-box 15	325						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)	2	all_neural(166;0.117)	all_cancers(81;0.000692)|all_lung(203;3.05e-06)|Lung NSC(69;2.13e-05)|all_epithelial(167;0.000237)		Lung(183;0.044)|LUSC - Lung squamous cell carcinoma(189;0.141)		GTGTGCGCACAGGAGGTCTCC	0.483													3	54					0	0	1	0	0		C	119441700	C	C	119441700	2	2	27	1	0	0	0	0	0	0	0	1	15677	175	7	5		5	TBX15	1	119441700	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	910878	119441700	129808921	391	22742											
WARS2	10352	broad.mit.edu	37	chr1	119584963	119584963	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccatcgtgcttctgcttggTagtctttgcctgtgagaggt	4	15	13	9	1	2	1	0	1	2	1	3	2	2	1	2	2	3	3	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:119584963T>C	uc001ehn.2	-	4	467	c.439A>G	c.(439-441)ACC>GCC	p.T147A	WARS2_uc010oxf.1_Missense_Mutation_p.T53A|WARS2_uc001ehm.2_Missense_Mutation_p.T147A|WARS2_uc010oxg.1_Missense_Mutation_p.T90A|WARS2_uc010oxh.1_Intron|WARS2_uc010oxi.1_Intron	NM_015836	NP_056651	Q9UGM6	SYWM_HUMAN	mitochondrial tryptophanyl tRNA synthetase 2	147					tryptophanyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|tryptophan-tRNA ligase activity				0	all_neural(166;0.187)	all_lung(203;2.48e-06)|Lung NSC(69;1.74e-05)|all_epithelial(167;0.000564)		Lung(183;0.0629)	L-Tryptophan(DB00150)	TTCTGCTTGGTAGTCTTTGCC	0.453													7	74					0	0	1	0	0		C	119584963	C	C	119584963	3	2	27	1	0	0	0	0	1	0	0	0	17276	1638	57	3	684	3	WARS2	1	119584963	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	143263	119584963	129665658	392	22743											
ADAM30	11085	broad.mit.edu	37	chr1	120437502	120437502	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcatacttgcaaggggtTccatcctgcttataaacgtc	9	13	7	12	1	1	0	1	0	0	0	4	0	3	0	3	2	4	3	3	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:120437502T>C	uc001eij.2	-	1	1612	c.1458A>G	c.(1456-1458)GGA>GGG	p.G486G		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	486	Cys-rich.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		TGCAAGGGGTTCCATCCTGCT	0.488													3	58					0	0	1	0	0		C	120437502	C	C	120437502	2	2	27	1	0	0	0	0	0	0	0	1	248	1770	62	3		3	ADAM30	1	120437502	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	852539	120437502	128813119	393	22744											
NBPF9	400818	broad.mit.edu	37	chr1	144615222	144615222	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgcccccagttggcagagaAcaaacagcagttcgtaaacc	13	5	10	13	2	0	1	0	0	0	1	1	2	0	1	3	1	4	5	3	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:144615222A>G	uc009wig.1	+	3	168	c.92A>G	c.(91-93)AAC>AGC	p.N31S	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Intron|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_5'UTR|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_5'UTR|NBPF9_uc010oyg.1_Missense_Mutation_p.N31S|NBPF9_uc009wii.1_5'UTR|NBPF9_uc009wif.1_RNA|C1orf152_uc001elf.3_5'Flank	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	31						cytoplasm					0						TTGGCAGAGAACAAACAGCAG	0.488													7	154					0	0	1	0	0		G	144615222	G	G	144615222	3	3	27	1	0	0	0	0	1	0	0	0	10218	43	2	3	94	3	NBPF9	1	144615222	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	24177720	144615222	104635399	394	22745											
NBPF9	400818	broad.mit.edu	37	chr1	144828753	144828753	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacaagtctccacctggTgttccagatggaagtcatat	10	11	11	9	0	2	2	1	1	1	1	4	3	3	3	3	3	0	1	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:144828753T>C	uc009wig.1	+	23	2874	c.2798T>C	c.(2797-2799)GTG>GCG	p.V933A	NBPF9_uc010oxn.1_Missense_Mutation_p.V831A|NBPF9_uc010oxo.1_Missense_Mutation_p.V858A|NBPF9_uc010oxr.1_Missense_Mutation_p.V960A|NBPF9_uc010oxt.1_Missense_Mutation_p.V748A|NBPF9_uc001ekg.1_Missense_Mutation_p.V260A|NBPF9_uc001ekk.1_Missense_Mutation_p.V504A|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Missense_Mutation_p.V260A|NBPF9_uc010oye.1_Intron|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Missense_Mutation_p.V593A|uc001elr.3_5'Flank	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	933	NBPF 7.					cytoplasm					0						CTCCACCTGGTGTTCCAGATG	0.453													25	253					0	0	1	0	0		C	144828753	C	C	144828753	3	2	27	1	0	0	0	0	1	0	0	0	10218	1696	59	3	2874	3	NBPF9	1	144828753	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	213531	144828753	104421868	395	22746											
PDE4DIP	9659	broad.mit.edu	37	chr1	144867919	144867919	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatctctgctttgtgctttAcctgtgggtttggagttaag	5	17	11	8	0	1	0	0	0	1	0	2	1	1	1	2	2	3	4	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:144867919A>G	uc001elw.3	-	33	5809	c.5518_splice	c.e33+1	p.G1840_splice	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Splice_Site_p.G1734_splice|PDE4DIP_uc001elv.3_Splice_Site_p.G847_splice|PDE4DIP_uc001ema.2_Intron	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform						cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TTTGTGCTTTACCTGTGGGTT	0.502			T	PDGFRB	MPD								27	419					0	0	1	0	0		G	144867919	G	G	144867919	5	3	27	1	0	0	0	0	0	0	1	0	11662	405	14	3	1568	3	PDE4DIP	1	144867919	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	39166	144867919	104382702	396	22747											
PDE4DIP	9659	broad.mit.edu	37	chr1	144882879	144882879	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaaaggctcagcatggtgTtcctgcaggaaacacactta	12	8	11	10	0	1	0	1	0	0	0	2	1	2	1	1	4	3	5	1	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:144882879T>G	uc001elw.3	-	24	3431	c.3140A>C	c.(3139-3141)AAC>ACC	p.N1047T	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.N1113T|PDE4DIP_uc001elv.3_Missense_Mutation_p.N54T	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1047					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CAGCATGGTGTTCCTGCAGGA	0.493			T	PDGFRB	MPD								22	269					0	0	1	0	0		G	144882879	G	G	144882879	3	3	27	1	0	0	0	0	1	0	0	0	11662	1725	60	5	3984	5	PDE4DIP	1	144882879	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	14960	144882879	104367742	397	22748											
PDE4DIP	9659	broad.mit.edu	37	chr1	144917847	144917847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caacagctttatcatgtattCgctggcgaagtttctcaagc	10	13	8	10	2	2	0	2	0	1	0	4	1	2	0	0	1	3	4	0	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:144917847C>T	uc001elw.3	-	11	1730	c.1439G>A	c.(1438-1440)CGA>CAA	p.R480Q	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R546Q|PDE4DIP_uc001emc.1_Missense_Mutation_p.R480Q|PDE4DIP_uc001emd.1_Missense_Mutation_p.R480Q|PDE4DIP_uc001emb.1_Missense_Mutation_p.R643Q|PDE4DIP_uc001eme.1_Missense_Mutation_p.R9Q|PDE4DIP_uc001emf.1_Missense_Mutation_p.R267Q	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	480	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		ATCATGTATTCGCTGGCGAAG	0.378			T	PDGFRB	MPD								43	310					0	0	1	0	0		T	144917847	T	T	144917847	3	4	27	1	0	0	0	0	1	0	0	0	11662	884	31	1	5747	1	PDE4DIP	1	144917847	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	34968	144917847	104332774	398	22749											
PDE4DIP	9659	broad.mit.edu	37	chr1	144921944	144921944	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttggcgctctttctgtcgtAccaccctctggagcttctgt	3	15	10	13	2	4	0	0	0	4	0	5	1	4	1	2	2	2	4	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:144921944A>G	uc001elw.3	-	9	1376	c.1085T>C	c.(1084-1086)GTA>GCA	p.V362A	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.V428A|PDE4DIP_uc001emc.1_Missense_Mutation_p.V362A|PDE4DIP_uc001emd.1_Missense_Mutation_p.V362A|PDE4DIP_uc001emb.1_Missense_Mutation_p.V525A|PDE4DIP_uc001eme.1_5'UTR|PDE4DIP_uc001emf.1_Missense_Mutation_p.V149A	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	362	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TTTCTGTCGTACCACCCTCTG	0.488			T	PDGFRB	MPD								27	604					0	0	1	0	0		G	144921944	G	G	144921944	3	3	27	1	0	0	0	0	1	0	0	0	11662	391	14	3	6109	3	PDE4DIP	1	144921944	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4097	144921944	104328677	399	22750											
NBPF10	100132406	broad.mit.edu	37	chr1	145293508	145293508	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcagagaagaaacagcagTtcagaaacctcaaagagaaa	20	4	10	7	0	2	4	2	0	0	4	2	6	2	4	1	1	3	3	1	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:145293508T>C	uc001end.3	+	1	138	c.103T>C	c.(103-105)TTC>CTC	p.F35L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_Missense_Mutation_p.F35L|NOTCH2NL_uc010oyh.1_RNA|NBPF10_uc001emq.1_Missense_Mutation_p.F35L	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	35											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		GAAACAGCAGTTCAGAAACCT	0.483													18	618					0	0	1	0	0		C	145293508	C	C	145293508	3	2	27	1	0	0	0	0	1	0	0	0	10211	1725	60	3	105	3	NBPF10	1	145293508	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	371564	145293508	103957113	400	22751											
NBPF10	100132406	broad.mit.edu	37	chr1	145299860	145299860	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccagctggcagagaagaaAcagcagttcagaaacctcaa	16	4	9	12	0	2	3	2	0	0	3	2	4	2	3	3	1	4	4	3	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:145299860A>G	uc001end.3	+	6	944	c.909A>G	c.(907-909)AAA>AAG	p.K303K	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_Silent_p.K303K|NBPF10_uc010oyi.1_5'Flank|NBPF10_uc001emq.1_Intron	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	303											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		CAGAGAAGAAACAGCAGTTCA	0.468													6	459					0	0	1	0	0		G	145299860	G	G	145299860	2	3	27	1	0	0	0	0	0	0	0	1	10211	40	2	3		3	NBPF10	1	145299860	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6352	145299860	103950761	401	22752											
NBPF10	100132406	broad.mit.edu	37	chr1	145368471	145368471	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgatggaagtggaagaGcgtgaagtcttacaggactc	11	9	15	6	1	1	3	0	2	1	1	2	6	1	6	0	3	3	1	0	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:145368471G>A	uc001end.3	+	86	10709	c.10674G>A	c.(10672-10674)GAG>GAA	p.E3558E	NBPF9_uc010oye.1_Silent_p.E842E|NBPF10_uc001emp.3_Intron|NBPF10_uc010oyi.1_Silent_p.E411E|NBPF10_uc010oyk.1_Silent_p.E199E|NBPF10_uc010oyl.1_Silent_p.E199E	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	3483											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		AAGTGGAAGAGCGTGAAGTCT	0.463													23	462					0	0	1	0	0		A	145368471	A	A	145368471	2	1	27	1	0	0	0	0	0	0	0	1	10211	962	34	2		2	NBPF10	1	145368471	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	68611	145368471	103882150	402	22753											
ITGA10	8515	broad.mit.edu	37	chr1	145535890	145535890	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtactcctggtcgctgggAtcaccaattctgtgagtgac	7	11	11	12	2	2	2	1	2	1	0	4	3	3	3	3	2	1	2	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:145535890A>T	uc001eoa.2	+	16	2154	c.2078A>T	c.(2077-2079)GAT>GTT	p.D693V	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.D562V|ITGA10_uc009wiw.2_Missense_Mutation_p.D550V|ITGA10_uc010oyw.1_Missense_Mutation_p.D638V	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	693	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GGTCGCTGGGATCACCAATTC	0.537													9	108					0	0	1	0	0		T	145535890	T	T	145535890	3	4	27	1	0	0	0	0	1	0	0	0	7889	333	12	5	2140	5	ITGA10	1	145535890	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	167419	145535890	103714731	403	22754											
ANKRD35	148741	broad.mit.edu	37	chr1	145555804	145555804	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccgacccaccaagcttgActcgaatggccagtccccgt	8	7	9	17	3	0	1	0	1	0	0	2	3	1	1	6	1	2	1	6	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:145555804A>G	uc001eob.1	+	2	260	c.152A>G	c.(151-153)GAC>GGC	p.D51G	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_5'UTR	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	51										ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					ACCAAGCTTGACTCGAATGGC	0.592													3	49					0	0	1	0	0		G	145555804	G	G	145555804	3	3	27	1	0	0	0	0	1	0	0	0	664	275	10	3	158	3	ANKRD35	1	145555804	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19914	145555804	103694817	404	22755											
ANKRD35	148741	broad.mit.edu	37	chr1	145562806	145562806	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccgggaggcagccagcCtacggcaacacgagaaaact	12	2	14	13	3	0	1	0	0	0	1	0	3	0	2	3	4	5	2	3	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:145562806C>T	uc001eob.1	+	10	2602	c.2494C>T	c.(2494-2496)CTA>TTA	p.L832L	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Silent_p.L675L	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	832										ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GGCAGCCAGCCTACGGCAACA	0.602													3	22					0	0	1	0	0		T	145562806	T	T	145562806	2	4	27	1	0	0	0	0	0	0	0	1	664	680	24	4		4	ANKRD35	1	145562806	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7002	145562806	103687815	405	22756											
RNF115	27246	broad.mit.edu	37	chr1	145646131	145646131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ataggaatatatatgtcccaGatgtgaatcaggctttattg	13	14	9	5	0	1	2	1	1	0	1	2	3	2	3	1	2	0	1	1	2	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:145646131G>A	uc001eoj.2	+	2	323	c.119G>A	c.(118-120)AGA>AAA	p.R40K	NBPF10_uc001emp.3_Intron|RNF115_uc001eok.2_5'UTR|RNF115_uc009wiy.2_5'UTR	NM_014455	NP_055270	Q9Y4L5	RN115_HUMAN	Rabring 7	40					protein autoubiquitination	cytosol	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1						ATATGTCCCAGATGTGAATCA	0.308													19	74					0	0	1	0	0		A	145646131	A	A	145646131	3	1	27	1	0	0	0	0	1	0	0	0	13455	942	33	4	125	4	RNF115	1	145646131	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	83325	145646131	103604490	406	22757											
PRKAB2	5565	broad.mit.edu	37	chr1	146633349	146633349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggttgggctcagggagtaagGctgggtcacactaagagaaa	12	7	16	6	0	2	1	2	0	0	1	2	3	2	2	0	5	0	4	0	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:146633349G>A	uc001epe.2	-	7	828	c.683C>T	c.(682-684)GCC>GTC	p.A228V	PRKAB2_uc010ozm.1_Missense_Mutation_p.A146V|PRKAB2_uc010ozn.1_Missense_Mutation_p.P106S|PRKAB2_uc009wjf.1_Missense_Mutation_p.A228V	NM_005399	NP_005390	O43741	AAKB2_HUMAN	AMP-activated protein kinase beta 2	228					carnitine shuttle|cell cycle arrest|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm				lung(2)|skin(1)	3	all_hematologic(923;0.0487)				Adenosine monophosphate(DB00131)	AGGGAGTAAGGCTGGGTCACA	0.408													9	64					0	0	1	0	0		A	146633349	A	A	146633349	3	1	27	1	0	0	0	0	1	0	0	0	12518	1203	42	2	143	2	PRKAB2	1	146633349	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	987218	146633349	102617272	407	22758											
FMO5	2330	broad.mit.edu	37	chr1	146680462	146680462	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggtcaaacctttggtttAtctttttttccaaatatttg	9	20	5	7	0	2	0	1	0	1	0	3	0	3	0	2	2	1	1	2	2	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:146680462A>G	uc001epi.2	-	6	1171	c.782T>C	c.(781-783)ATA>ACA	p.I261T	FMO5_uc001eph.3_Missense_Mutation_p.I261T|FMO5_uc001epj.2_Missense_Mutation_p.I261T|FMO5_uc001epk.3_Missense_Mutation_p.I261T	NM_001461	NP_001452	P49326	FMO5_HUMAN	flavin containing monooxygenase 5 isoform 1	261						integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			ovary(3)	3	all_hematologic(923;0.0487)					CCTTTGGTTTATCTTTTTTTC	0.403													4	65					0	0	1	0	0		G	146680462	G	G	146680462	3	3	27	1	0	0	0	0	1	0	0	0	5972	449	16	3	978	3	FMO5	1	146680462	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	47113	146680462	102570159	408	22759											
CHD1L	9557	broad.mit.edu	37	chr1	146766192	146766192	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctgcaagaggcatcccaActtacatgtatccttttgtg	9	13	9	10	0	0	1	0	0	0	1	2	1	2	1	2	2	3	4	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:146766192A>G	uc001epm.3	+	22	2671	c.2608A>G	c.(2608-2610)ACT>GCT	p.T870A	uc001epp.2_Intron|CHD1L_uc001epn.3_Missense_Mutation_p.T757A|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Missense_Mutation_p.T776A|CHD1L_uc010ozp.1_Missense_Mutation_p.T589A|CHD1L_uc001epo.3_Missense_Mutation_p.T666A|CHD1L_uc009wji.2_Missense_Mutation_p.T589A	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	870	Macro.				chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)					AGGCATCCCAACTTACATGTA	0.423													13	106					0	0	1	0	0		G	146766192	G	G	146766192	3	3	27	1	0	0	0	0	1	0	0	0	3327	43	2	3	2694	3	CHD1L	1	146766192	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	85730	146766192	102484429	409	22760											
BCL9	607	broad.mit.edu	37	chr1	147090655	147090655	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccttcggaatgatccgAaacctctcccacaacagccc	10	7	6	18	2	1	1	0	1	1	0	4	3	2	2	5	1	4	0	5	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:147090655A>G	uc001epq.2	+	8	1434	c.694A>G	c.(694-696)AAA>GAA	p.K232E	BCL9_uc010ozr.1_Missense_Mutation_p.K158E	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	232	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					GAATGATCCGAAACCTCTCCC	0.478			T	IGH@|IGL@	B-ALL								6	176					0	0	1	0	0		G	147090655	G	G	147090655	3	3	27	1	0	0	0	0	1	0	0	0	1382	247	9	3	712	3	BCL9	1	147090655	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	324463	147090655	102159966	410	22761											
ACP6	51205	broad.mit.edu	37	chr1	147131101	147131101	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgacactggaaaagcccaGccagcaaacaacgggtggac	14	4	11	12	1	1	1	0	1	1	0	1	3	1	3	2	3	5	1	2	3	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:147131101G>T	uc001epr.2	-	4	997	c.533C>A	c.(532-534)GCT>GAT	p.A178D	ACP6_uc009wjj.1_Missense_Mutation_p.A135D	NM_016361	NP_057445	Q9NPH0	PPA6_HUMAN	acid phosphatase 6, lysophosphatidic precursor	178					lipid metabolic process	extracellular region|mitochondrion	acid phosphatase activity|protein binding			ovary(4)	4	all_hematologic(923;0.0276)					GAAAAGCCCAGCCAGCAAACA	0.443													13	116					7.93312e-07	8.61692e-07	1	1	0		T	147131101	T	T	147131101	3	4	27	1	0	0	0	0	1	0	0	0	165	971	34	5	781	5	ACP6	1	147131101	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	40446	147131101	102119520	411	22762											
LOC200030	200030	broad.mit.edu	37	chr1	148341969	148341969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggcacattcctccagtgagtCctcagggactttgctctctt	6	13	9	13	0	2	1	1	1	1	0	6	2	5	2	3	2	1	2	3	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:148341969C>T	uc001eqf.2	-	5	639	c.604G>A	c.(604-606)GAC>AAC	p.D202N	LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqg.2_Intron|NBPF14_uc009wkf.1_RNA|uc001erd.3_Missense_Mutation_p.D202N|uc001erc.3_RNA|uc010paj.1_Intron|uc010pau.1_5'UTR|uc010pav.1_Missense_Mutation_p.D202N|uc010paw.1_Missense_Mutation_p.D127N	NM_017940	NP_060410	Q86T75	NBPFB_HUMAN	hypothetical protein LOC55672	202	NBPF 1.					cytoplasm					0						TCCAGTGAGTCCTCAGGGACT	0.502													12	564					0	0	1	0	0		T	148341969	T	T	148341969	3	4	27	1	0	0	0	0	1	0	0	0	8889	870	30	4		4	LOC200030	1	148341969	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1210868	148341969	100908652	412	22763											
HIST2H2BE	8349	broad.mit.edu	37	chr1	149857887	149857887	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccagctcgccgggcagcaGcaggcgcacggccgtctgga	6	3	17	15	5	1	0	0	0	1	0	2	1	1	1	3	5	3	5	3	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:149857887G>T	uc001etc.2	-	1	346	c.304C>A	c.(304-306)CTG>ATG	p.L102M	HIST2H2AC_uc001etd.2_5'Flank	NM_003528	NP_003519	Q16778	H2B2E_HUMAN	histone cluster 2, H2be	102					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			ovary(1)	1	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			CCGGGCAGCAGCAGGCGCACG	0.677													4	44					2.56e-06	2.77152e-06	1	1	0		T	149857887	T	T	149857887	3	4	27	1	0	0	0	0	1	0	0	0	7195	962	34	5	80	5	HIST2H2BE	1	149857887	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1515918	149857887	99392734	413	22764											
HIST2H2AC	8338	broad.mit.edu	37	chr1	149858906	149858906	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgaaagccacaaagccaaaAgcaaataaatgcagacaaac	22	2	6	11	1	0	1	0	0	0	1	0	2	0	1	3	0	5	2	3	0	8	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:149858906A>G	uc001etd.2	+	1	382	c.382A>G	c.(382-384)AGC>GGC	p.S128G	HIST2H2BE_uc001etc.2_5'Flank	NM_003517	NP_003508	Q16777	H2A2C_HUMAN	histone cluster 2, H2ac	128					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			CAAAGCCAAAAGCAAATAAAT	0.463													17	77					0	0	1	0	0		G	149858906	G	G	149858906	3	3	27	1	0	0	0	0	1	0	0	0	7194	72	3	3	384	3	HIST2H2AC	1	149858906	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1019	149858906	99391715	414	22765											
SV2A	9900	broad.mit.edu	37	chr1	149880804	149880804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatgcgccgatattcgggaCcaaaacaggagagaaaattc	15	7	11	8	3	0	2	0	1	0	1	2	6	0	4	2	2	2	0	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:149880804C>T	uc001etg.2	-	8	1810	c.1319G>A	c.(1318-1320)GGT>GAT	p.G440D	SV2A_uc009wlk.2_5'Flank|SV2A_uc001eth.2_Missense_Mutation_p.G440D	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	440	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	ATATTCGGGACCAAAACAGGA	0.502													8	75					0	0	1	0	0		T	149880804	T	T	149880804	3	4	27	1	0	0	0	0	1	0	0	0	15442	507	18	4	933	4	SV2A	1	149880804	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21898	149880804	99369817	415	22766											
SV2A	9900	broad.mit.edu	37	chr1	149884847	149884847	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaagcccaccacaaagacCtccacaccgtcagccatcag	14	3	6	18	2	2	1	2	0	0	1	3	2	3	1	6	0	2	0	6	0	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:149884847C>A	uc001etg.2	-	2	1037	c.546G>T	c.(544-546)GAG>GAT	p.E182D	SV2A_uc001eth.2_Missense_Mutation_p.E182D	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	182	Helical; (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	CCACAAAGACCTCCACACCGT	0.582													8	70					2.17888e-05	2.33116e-05	1	1	0		A	149884847	A	A	149884847	3	1	27	1	0	0	0	0	1	0	0	0	15442	680	24	5	1730	5	SV2A	1	149884847	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4043	149884847	99365774	416	22767											
MTMR11	10903	broad.mit.edu	37	chr1	149903306	149903306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaggccattgagatcaCgatcaccgcgctctgggtga	10	7	14	10	3	3	3	2	2	1	2	3	6	3	4	2	3	0	1	2	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:149903306C>T	uc001etl.3	-	13	1387	c.1136G>A	c.(1135-1137)CGT>CAT	p.R379H	MTMR11_uc001etm.1_Missense_Mutation_p.R307H|MTMR11_uc010pbm.1_Intron|MTMR11_uc010pbn.1_Intron	NM_001145862	NP_001139334	A4FU01	MTMRB_HUMAN	myotubularin related protein 11 isoform a	379	Myotubularin phosphatase.						phosphatase activity			central_nervous_system(1)	1	Breast(34;0.0009)|Ovarian(49;0.0377)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			ATTGAGATCACGATCACCGCG	0.522													5	40					0	0	1	0	0		T	149903306	T	T	149903306	3	4	27	1	0	0	0	0	1	0	0	0	9958	536	19	1	1052	1	MTMR11	1	149903306	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18459	149903306	99347315	417	22768											
OTUD7B	56957	broad.mit.edu	37	chr1	149916322	149916322	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagggccaccccctattcCtccattcatgatcttcctct	7	12	6	16	0	3	1	1	1	2	0	6	2	6	2	6	2	0	0	6	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:149916322C>A	uc001etn.2	-	12	2322	c.1966G>T	c.(1966-1968)GGA>TGA	p.G656*		NM_020205	NP_064590	Q6GQQ9	OTU7B_HUMAN	zinc finger protein Cezanne	656					negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)			CCCCCTATTCCTCCATTCATG	0.552													26	98					9.39395e-14	1.04765e-13	1	1	0		A	149916322	A	A	149916322	4	1	27	1	0	0	0	0	0	1	0	0	11338	690	24	5	569	5	OTUD7B	1	149916322	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13016	149916322	99334299	418	22769											
VPS45	11311	broad.mit.edu	37	chr1	150065723	150065723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaacctatatccttatttagGccccagcacactcagagaca	14	9	5	13	0	1	1	1	0	0	1	2	2	2	1	4	1	2	1	4	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:150065723G>A	uc001etp.2	+	13	2045	c.1472G>A	c.(1471-1473)GGC>GAC	p.G491D	VPS45_uc010pbp.1_RNA|VPS45_uc010pbq.1_Missense_Mutation_p.G455D|VPS45_uc010pbs.1_Missense_Mutation_p.G386D|VPS45_uc001etq.2_Missense_Mutation_p.G311D|VPS45_uc009wlm.1_Missense_Mutation_p.G467D	NM_007259	NP_009190	Q9NRW7	VPS45_HUMAN	vacuolar protein sorting 45A	491					blood coagulation|intracellular protein transport|vesicle docking involved in exocytosis	endosome membrane|Golgi membrane|integral to membrane of membrane fraction				central_nervous_system(1)|skin(1)	2	Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			CCTTATTTAGGCCCCAGCACA	0.353													11	102					0	0	1	0	0		A	150065723	A	A	150065723	3	1	27	1	0	0	0	0	1	0	0	0	17237	1203	42	2	1522	2	VPS45	1	150065723	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	149401	150065723	99184898	419	22770											
RPRD2	23248	broad.mit.edu	37	chr1	150444063	150444063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtccagttatagccacagagCccaagaatttggggtaaagt	13	9	11	8	0	0	2	0	0	0	2	1	2	1	2	3	2	2	2	3	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:150444063C>T	uc009wlr.2	+	11	2840	c.2639C>T	c.(2638-2640)GCC>GTC	p.A880V	RPRD2_uc010pcc.1_Missense_Mutation_p.A854V|RPRD2_uc001eup.3_Missense_Mutation_p.A854V	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	880	Ser-rich.						protein binding			ovary(1)	1						AGCCACAGAGCCCAAGAATTT	0.488													7	114					0	0	1	0	0		T	150444063	T	T	150444063	3	4	27	1	0	0	0	0	1	0	0	0	13642	739	26	2	2681	2	RPRD2	1	150444063	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	378340	150444063	98806558	420	22771											
RPRD2	23248	broad.mit.edu	37	chr1	150444378	150444378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacacccttgccgctcccaCgggtcacccacccacgtcag	8	5	8	20	3	2	0	2	0	0	0	3	1	3	0	5	1	2	1	5	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:150444378C>T	uc009wlr.2	+	11	3155	c.2954C>T	c.(2953-2955)ACG>ATG	p.T985M	RPRD2_uc010pcc.1_Silent_p.H912H|RPRD2_uc001eup.3_Missense_Mutation_p.T959M	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	985							protein binding			ovary(1)	1						GCCGCTCCCACGGGTCACCCA	0.547													53	232					0	0	1	0	0		T	150444378	T	T	150444378	3	4	27	1	0	0	0	0	1	0	0	0	13642	536	19	1	2996	1	RPRD2	1	150444378	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	315	150444378	98806243	421	22772											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150525402	150525402	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacactctcttcagacacCtacagaggagggccagggcc	10	5	12	14	1	2	2	1	0	1	2	3	4	2	4	3	4	1	0	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:150525402C>A	uc001eux.2	+	5	343	c.107C>A	c.(106-108)CCT>CAT	p.P36H	ADAMTSL4_uc001euw.2_Missense_Mutation_p.P36H|ADAMTSL4_uc009wlw.2_Missense_Mutation_p.P36H|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.P36H	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	36					apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CTTCAGACACCTACAGAGGAG	0.587													26	74					3.73988e-18	4.18797e-18	1	1	0		A	150525402	A	A	150525402	3	1	27	1	0	0	0	0	1	0	0	0	277	681	24	5	117	5	ADAMTSL4	1	150525402	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	81024	150525402	98725219	422	22773											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150530529	150530529	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggggtggctcctcggtgccCccggagcgctgtggacatct	3	8	17	13	3	1	0	0	0	1	0	3	2	2	2	3	6	2	2	3	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:150530529C>A	uc001eux.2	+	14	2522	c.2286C>A	c.(2284-2286)CCC>CCA	p.P762P	ADAMTSL4_uc001euw.2_Silent_p.P762P|ADAMTSL4_uc009wlw.2_Silent_p.P785P|ADAMTSL4_uc010pcg.1_Silent_p.P723P|ADAMTSL4_uc009wlx.2_5'UTR	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	762	TSP type-1 2.				apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CCTCGGTGCCCCCGGAGCGCT	0.682													6	135					0.0381472	0.0386818	1	1	0		A	150530529	A	A	150530529	2	1	27	1	0	0	0	0	0	0	0	1	277	610	22	5		5	ADAMTSL4	1	150530529	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5127	150530529	98720092	423	22774											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150531943	150531943	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccacgccctggagcccaGtgagtgtctggctgcgctgt	4	11	13	13	2	1	1	0	1	1	0	2	2	2	2	3	2	2	2	3	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:150531943G>A	uc001eux.2	+	17	3179	c.2943_splice	c.e17+1	p.P981_splice	ADAMTSL4_uc009wlw.2_Splice_Site_p.P1004_splice|ADAMTSL4_uc010pcg.1_Splice_Site_p.P942_splice|ADAMTSL4_uc009wlx.2_Splice_Site_p.P144_splice	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1						apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CTGGAGCCCAGTGAGTGTCTG	0.667											OREG0013787	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	41					0	0	1	0	0		A	150531943	A	A	150531943	5	1	27	1	0	0	0	0	0	0	1	0	277	1043	36	4	3077	4	ADAMTSL4	1	150531943	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1414	150531943	98718678	424	22775											
C1orf56	54964	broad.mit.edu	37	chr1	151021160	151021160	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgtgcctctcagagcacCaccagtaccaggaccaccac	12	5	7	17	0	1	1	1	0	1	1	2	2	1	2	6	1	4	2	6	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:151021160C>T	uc001ewn.2	+	1	902	c.837C>T	c.(835-837)ACC>ACT	p.T279T		NM_017860	NP_060330	Q9BUN1	CA056_HUMAN	hypothetical protein LOC54964 precursor	279						extracellular region					0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CTCAGAGCACCACCAGTACCA	0.602											OREG0013793	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	154					0	0	1	0	0		T	151021160	T	T	151021160	2	4	27	1	0	0	0	0	0	0	0	1	2051	581	21	4		4	C1orf56	1	151021160	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	489217	151021160	98229461	425	22776											
PIP5K1A	8394	broad.mit.edu	37	chr1	151214608	151214608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccttttgaagtgaagccttCtccttccaaaaagtttcggt	9	14	7	11	1	1	2	0	2	1	0	4	2	2	2	4	1	1	1	4	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:151214608C>T	uc001exj.2	+	13	1825	c.1373C>T	c.(1372-1374)TCT>TTT	p.S458F	PIP5K1A_uc001exi.2_Missense_Mutation_p.S445F|PIP5K1A_uc010pcu.1_Missense_Mutation_p.S418F|PIP5K1A_uc001exk.2_Intron|PIP5K1A_uc010pcv.1_Intron	NM_001135638	NP_001129110	Q99755	PI51A_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	458					phospholipid biosynthetic process|signal transduction	endomembrane system|Golgi stack|lamellipodium|nuclear speck	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|kinase binding			ovary(1)|central_nervous_system(1)|skin(1)	3	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.181)			GTGAAGCCTTCTCCTTCCAAA	0.468													18	340					0	0	1	0	0		T	151214608	T	T	151214608	3	4	27	1	0	0	0	0	1	0	0	0	11958	913	32	4	1423	4	PIP5K1A	1	151214608	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	193448	151214608	98036013	426	22777											
PSMD4	5710	broad.mit.edu	37	chr1	151238548	151238548	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccggcgggcagctgcagcTtctgctgctgaggccgggat	4	7	17	13	3	1	1	0	1	1	0	1	2	1	2	2	4	5	6	2	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:151238548T>C	uc001exl.2	+	7	785	c.723T>C	c.(721-723)GCT>GCC	p.A241A	PSMD4_uc001exn.2_Silent_p.A241A	NM_002810	NP_002801	P55036	PSMD4_HUMAN	proteasome 26S non-ATPase subunit 4	241	Poly-Ala.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding|zinc ion binding				0	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CAGCTGCAGCTTCTGCTGCTG	0.607													3	48					0	0	1	0	0		C	151238548	C	C	151238548	2	2	27	1	0	0	0	0	0	0	0	1	12722	1596	56	3		3	PSMD4	1	151238548	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	23940	151238548	98012073	427	22778											
PI4KB	5298	broad.mit.edu	37	chr1	151280078	151280078	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagttgaggacaacagccTgtgtgtggggtacacggacc	9	8	16	8	1	0	1	0	1	0	0	0	4	0	4	2	5	3	2	2	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:151280078T>G	uc001ext.2	-	4	1569	c.1154A>C	c.(1153-1155)CAG>CCG	p.Q385P	PI4KB_uc001exr.2_Missense_Mutation_p.Q397P|PI4KB_uc001exs.2_Missense_Mutation_p.Q370P|PI4KB_uc001exu.2_Missense_Mutation_p.Q370P|PI4KB_uc010pcw.1_Missense_Mutation_p.Q53P	NM_002651	NP_002642	Q9UBF8	PI4KB_HUMAN	catalytic phosphatidylinositol 4-kinase beta	385					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|receptor-mediated endocytosis	endosome|Golgi apparatus|mitochondrial outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum membrane	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			ovary(2)|skin(2)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GACAACAGCCTGTGTGTGGGG	0.572													7	39					0	0	1	0	0		G	151280078	G	G	151280078	3	3	27	1	0	0	0	0	1	0	0	0	11893	1580	55	5	1332	5	PI4KB	1	151280078	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	41530	151280078	97970543	428	22779											
RFX5	5993	broad.mit.edu	37	chr1	151315256	151315256	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggtccttggtcaccaccTatgcctacctctctgttctc	4	15	7	15	0	3	0	1	0	2	0	6	0	4	0	5	2	2	1	5	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:151315256T>C	uc001exv.1	-	11	1471	c.1257A>G	c.(1255-1257)ATA>ATG	p.I419M	RFX5_uc001exw.1_Missense_Mutation_p.I419M|RFX5_uc009wmr.1_Missense_Mutation_p.I419M|RFX5_uc010pcx.1_Missense_Mutation_p.I379M	NM_001025603	NP_001020774	P48382	RFX5_HUMAN	regulatory factor X, 5	419						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GGTCACCACCTATGCCTACCT	0.602													31	268					0	0	1	0	0		C	151315256	C	C	151315256	3	2	27	1	0	0	0	0	1	0	0	0	13291	1512	53	3	597	3	RFX5	1	151315256	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	35178	151315256	97935365	429	22780											
RFX5	5993	broad.mit.edu	37	chr1	151317258	151317258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtcagtgtgctcttccAggtggttgcggatccaccta	6	12	13	10	1	2	0	1	0	1	0	4	1	4	1	3	4	2	2	3	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:151317258A>G	uc001exv.1	-	6	513	c.299T>C	c.(298-300)CTG>CCG	p.L100P	RFX5_uc001exw.1_Missense_Mutation_p.L100P|RFX5_uc009wmr.1_Missense_Mutation_p.L100P|RFX5_uc010pcx.1_Intron	NM_001025603	NP_001020774	P48382	RFX5_HUMAN	regulatory factor X, 5	100	RFX-type winged-helix.|Potential.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GTGCTCTTCCAGGTGGTTGCG	0.363													5	39					0	0	1	0	0		G	151317258	G	G	151317258	3	3	27	1	0	0	0	0	1	0	0	0	13291	188	7	3	1575	3	RFX5	1	151317258	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2002	151317258	97933363	430	22781											
POGZ	23126	broad.mit.edu	37	chr1	151378320	151378320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actcataggagatcttaaacCccccttccaaagaacgtcct	13	9	5	14	1	2	2	1	0	1	2	4	3	4	2	5	1	2	0	5	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:151378320C>T	uc001eyd.1	-	19	3497	c.3191G>A	c.(3190-3192)GGG>GAG	p.G1064E	POGZ_uc001eye.1_Missense_Mutation_p.G1011E|POGZ_uc010pdb.1_Missense_Mutation_p.G1055E|POGZ_uc001eyf.1_Missense_Mutation_p.G1020E|POGZ_uc010pdc.1_Missense_Mutation_p.G1002E|POGZ_uc009wmv.1_Missense_Mutation_p.G969E|POGZ_uc010pdd.1_Missense_Mutation_p.G555E	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1064	HTH CENPB-type.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GATCTTAAACCCCCCTTCCAA	0.557													8	74					0	0	1	0	0		T	151378320	T	T	151378320	3	4	27	1	0	0	0	0	1	0	0	0	12205	623	22	4	1045	4	POGZ	1	151378320	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61062	151378320	97872301	431	22782											
POGZ	23126	broad.mit.edu	37	chr1	151380621	151380621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaacagcaggtgctatagCgacacagagagcagtgtacg	14	5	14	8	2	0	2	0	0	0	2	0	5	0	2	0	1	6	4	0	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:151380621C>T	uc001eyd.1	-	15	2636	c.2330G>A	c.(2329-2331)CGC>CAC	p.R777H	POGZ_uc001eye.1_Missense_Mutation_p.R724H|POGZ_uc010pdb.1_Missense_Mutation_p.R768H|POGZ_uc001eyf.1_Missense_Mutation_p.R733H|POGZ_uc010pdc.1_Missense_Mutation_p.R715H|POGZ_uc009wmv.1_Missense_Mutation_p.R682H|POGZ_uc010pdd.1_Missense_Mutation_p.R268H	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	777	C2H2-type 8.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GGTGCTATAGCGACACAGAGA	0.463													7	86					0	0	1	0	0		T	151380621	T	T	151380621	3	4	27	1	0	0	0	0	1	0	0	0	12205	768	27	1	1922	1	POGZ	1	151380621	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2301	151380621	97870000	432	22783											
POGZ	23126	broad.mit.edu	37	chr1	151400884	151400884	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcttaacaaactgggtacCtggggctttaaaagagagac	13	8	12	8	1	0	2	0	0	0	2	0	3	0	2	1	4	3	3	1	4	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:151400884C>A	uc001eyd.1	-	6	880	c.574G>T	c.(574-576)GGT>TGT	p.G192C	POGZ_uc001eye.1_Missense_Mutation_p.G139C|POGZ_uc010pdb.1_Missense_Mutation_p.G192C|POGZ_uc001eyf.1_Missense_Mutation_p.G139C|POGZ_uc010pdc.1_Missense_Mutation_p.G139C|POGZ_uc009wmv.1_Missense_Mutation_p.G97C|POGZ_uc010pdd.1_Intron|POGZ_uc001eyg.1_Missense_Mutation_p.G192C	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	192					cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding	p.G192D(1)		ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			AACTGGGTACCTGGGGCTTTA	0.498													16	164					3.45872e-05	3.69714e-05	1	1	0		A	151400884	A	A	151400884	3	1	27	1	0	0	0	0	1	0	0	0	12205	681	24	5	3728	5	POGZ	1	151400884	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20263	151400884	97849737	433	22784											
CGN	57530	broad.mit.edu	37	chr1	151509216	151509216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcccagctaagcctgaGggtgaaggctttgaagcgtc	8	9	13	11	1	0	3	0	3	0	0	2	3	1	3	3	2	4	2	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:151509216G>A	uc009wmw.2	+	20	3461	c.3317G>A	c.(3316-3318)AGG>AAG	p.R1106K	CGN_uc010pde.1_Missense_Mutation_p.R100K	NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	1100	Potential.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			CTAAGCCTGAGGGTGAAGGCT	0.527													5	56					0	0	1	0	0		A	151509216	A	A	151509216	3	1	27	1	0	0	0	0	1	0	0	0	3306	1000	35	4	3391	4	CGN	1	151509216	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	108332	151509216	97741405	434	22785											
LINGO4	339398	broad.mit.edu	37	chr1	151773766	151773766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcccgtagctgcactgagCggatctccagtgtcccatcc	6	10	10	15	2	1	1	0	1	1	0	5	2	4	2	4	1	3	3	4	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:151773766C>T	uc001ezf.1	-	2	1605	c.1415G>A	c.(1414-1416)CGC>CAC	p.R472H		NM_001004432	NP_001004432	Q6UY18	LIGO4_HUMAN	leucine rich repeat and Ig domain containing 4	472	Extracellular (Potential).|Ig-like C2-type.					integral to membrane				large_intestine(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			CTGCACTGAGCGGATCTCCAG	0.607													32	127					0	0	1	0	0		T	151773766	T	T	151773766	3	4	27	1	0	0	0	0	1	0	0	0	8834	768	27	1	370	1	LINGO4	1	151773766	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	264550	151773766	97476855	435	22786											
TCHHL1	126637	broad.mit.edu	37	chr1	152058504	152058504	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcctctgaagccaggcTgttgggagtttcagaagacc	8	10	12	11	0	2	3	1	1	1	2	3	4	3	4	4	2	1	3	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152058504T>C	uc001ezo.1	-	3	1719	c.1654A>G	c.(1654-1656)AGC>GGC	p.S552G		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	552							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			GAAGCCAGGCTGTTGGGAGTT	0.552													16	128					0	0	1	0	0		C	152058504	C	C	152058504	3	2	27	1	0	0	0	0	1	0	0	0	15726	1580	55	3	1064	3	TCHHL1	1	152058504	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	284738	152058504	97192117	436	22787											
TCHH	7062	broad.mit.edu	37	chr1	152081767	152081767	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggacttcctgtcgcgcCttttggcttccttttgctct	1	18	9	13	2	1	0	0	0	1	0	4	1	3	1	3	2	1	2	3	2	0	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152081767C>A	uc001ezp.2	-	2	3926	c.3926G>T	c.(3925-3927)AGG>ATG	p.R1309M	TCHH_uc009wne.1_Missense_Mutation_p.R1309M	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1309	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGTCGCGCCTTTTGGCTTC	0.547													15	199					8.60227e-14	9.59469e-14	1	1	0		A	152081767	A	A	152081767	3	1	27	1	0	0	0	0	1	0	0	0	15725	681	24	5	1909	5	TCHH	1	152081767	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23263	152081767	97168854	437	22788											
TCHH	7062	broad.mit.edu	37	chr1	152083746	152083746	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcgcctttcctgctgctcGcgccttagttgctgctggcg	1	13	12	15	5	0	0	0	0	0	0	3	0	1	0	3	1	4	5	3	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152083746G>A	uc001ezp.2	-	2	1947	c.1947C>T	c.(1945-1947)CGC>CGT	p.R649R	TCHH_uc009wne.1_Silent_p.R649R	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	649	9 X 28 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGCTGCTCGCGCCTTAGTT	0.677													12	96					0	0	1	0	0		A	152083746	A	A	152083746	2	1	27	1	0	0	0	0	0	0	0	1	15725	1074	38	1		1	TCHH	1	152083746	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1979	152083746	97166875	438	22789											
HRNR	388697	broad.mit.edu	37	chr1	152187664	152187664	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgagctagatccgtgtcgTtcacccctagatgactgtcc	7	11	9	14	2	1	4	1	2	0	2	4	4	3	4	5	0	1	2	5	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152187664T>C	uc001ezt.1	-	3	6517	c.6441A>G	c.(6439-6441)GAA>GAG	p.E2147E		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2147					keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATCCGTGTCGTTCACCCCTAG	0.592													15	673					0	0	1	0	0		C	152187664	C	C	152187664	2	2	27	1	0	0	0	0	0	0	0	1	7375	1722	60	3		3	HRNR	1	152187664	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	103918	152187664	97062957	439	22790											
HRNR	388697	broad.mit.edu	37	chr1	152187726	152187726	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagccagaggagtgacctgAgccagacccatgctgactgt	10	7	13	11	0	0	5	0	3	0	2	0	6	0	6	4	1	3	2	4	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152187726A>G	uc001ezt.1	-	3	6455	c.6379T>C	c.(6379-6381)TCA>CCA	p.S2127P		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2127	23.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GAGTGACCTGAGCCAGACCCA	0.567													20	583					0	0	1	0	0		G	152187726	G	G	152187726	3	3	27	1	0	0	0	0	1	0	0	0	7375	304	11	3	2177	3	HRNR	1	152187726	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	62	152187726	97062895	440	22791											
HRNR	388697	broad.mit.edu	37	chr1	152187976	152187976	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgagccagagccatgctgAccgtggctggaagactgacc	9	7	13	12	1	0	5	0	3	0	2	0	6	0	6	4	2	3	2	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152187976A>G	uc001ezt.1	-	3	6205	c.6129T>C	c.(6127-6129)GGT>GGC	p.G2043G		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2043	23.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGCCATGCTGACCGTGGCTGG	0.597													34	417					0	0	1	0	0		G	152187976	G	G	152187976	2	3	27	1	0	0	0	0	0	0	0	1	7375	262	10	3		3	HRNR	1	152187976	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	250	152187976	97062645	441	22792											
HRNR	388697	broad.mit.edu	37	chr1	152188530	152188530	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagccagacccatgtcggcCactgctggaagaccaaccgg	10	5	12	14	2	0	3	0	1	0	2	1	4	0	4	5	3	3	1	5	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152188530C>A	uc001ezt.1	-	3	5651	c.5575G>T	c.(5575-5577)GGC>TGC	p.G1859C		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1859	20.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCATGTCGGCCACTGCTGGAA	0.592													28	561					1.08169e-08	1.19091e-08	1	1	0		A	152188530	A	A	152188530	3	1	27	1	0	0	0	0	1	0	0	0	7375	594	21	5	2981	5	HRNR	1	152188530	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	554	152188530	97062091	442	22793											
HRNR	388697	broad.mit.edu	37	chr1	152191217	152191217	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctagatgactgtcctgacCtagagccgtgttgttcgtag	7	13	11	10	2	0	4	0	2	0	2	3	4	2	4	4	0	1	3	4	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152191217C>A	uc001ezt.1	-	3	2964	c.2888G>T	c.(2887-2889)AGG>ATG	p.R963M		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	963	10.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGTCCTGACCTAGAGCCGTG	0.547													10	248					0.00829132	0.0085371	1	1	0		A	152191217	A	A	152191217	3	1	27	1	0	0	0	0	1	0	0	0	7375	681	24	5	5668	5	HRNR	1	152191217	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2687	152191217	97059404	443	22794											
HRNR	388697	broad.mit.edu	37	chr1	152192748	152192748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaccagacacatatgggcCactgctggaagatcgaccaa	14	6	10	11	1	0	3	0	1	0	2	1	5	0	4	3	2	2	1	3	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152192748C>T	uc001ezt.1	-	3	1433	c.1357G>A	c.(1357-1359)GGC>AGC	p.G453S		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	453	4.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACATATGGGCCACTGCTGGAA	0.587													10	139					0	0	1	0	0		T	152192748	T	T	152192748	3	4	27	1	0	0	0	0	1	0	0	0	7375	594	21	4	7199	4	HRNR	1	152192748	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1531	152192748	97057873	444	22795											
HRNR	388697	broad.mit.edu	37	chr1	152193216	152193216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccagacccttgtcggcCgtggcccaaagactgacggg	9	6	13	13	3	0	4	0	1	0	3	2	4	1	4	4	3	0	0	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152193216C>T	uc001ezt.1	-	3	965	c.889G>A	c.(889-891)GGC>AGC	p.G297S		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	297	3.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTTGTCGGCCGTGGCCCAAA	0.607													51	158					0	0	1	0	0		T	152193216	T	T	152193216	3	4	27	1	0	0	0	0	1	0	0	0	7375	652	23	1	7667	1	HRNR	1	152193216	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	468	152193216	97057405	445	22796											
FLG	2312	broad.mit.edu	37	chr1	152275456	152275456	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccaaactaaacctgatTgacctttttgcctttcagtg	9	15	6	11	0	2	2	1	2	1	0	3	2	2	2	4	0	3	0	4	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152275456T>C	uc001ezu.1	-	3	11942	c.11906A>G	c.(11905-11907)CAA>CGA	p.Q3969R		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3969					keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TAAACCTGATTGACCTTTTTG	0.428									Ichthyosis				12	96					0	0	1	0	0		C	152275456	C	C	152275456	3	2	27	1	0	0	0	0	1	0	0	0	5936	1812	63	3	283	3	FLG	1	152275456	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	82240	152275456	96975165	446	22797											
FLG	2312	broad.mit.edu	37	chr1	152275873	152275873	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagtggaagcttcatggTgacgcgaccctgagtgcctg	7	9	14	11	2	1	3	1	3	0	0	1	5	1	4	3	2	2	1	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152275873T>C	uc001ezu.1	-	3	11525	c.11489A>G	c.(11488-11490)CAC>CGC	p.H3830R		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3830	Filaggrin 23.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGCTTCATGGTGACGCGACCC	0.582									Ichthyosis				8	380					0	0	1	0	0		C	152275873	C	C	152275873	3	2	27	1	0	0	0	0	1	0	0	0	5936	1696	59	3	700	3	FLG	1	152275873	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	417	152275873	96974748	447	22798											
FLG	2312	broad.mit.edu	37	chr1	152278805	152278805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgacgcgaccctgagtGcctggagccgtctcctgatt	6	10	13	12	3	1	3	0	3	1	0	2	5	1	4	4	2	2	0	4	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152278805G>A	uc001ezu.1	-	3	8593	c.8557C>T	c.(8557-8559)CAC>TAC	p.H2853Y		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2853	Ser-rich.|Filaggrin 17.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GACCCTGAGTGCCTGGAGCCG	0.572									Ichthyosis				27	884					0	0	1	0	0		A	152278805	A	A	152278805	3	1	27	1	0	0	0	0	1	0	0	0	5936	1319	46	2	3632	2	FLG	1	152278805	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2932	152278805	96971816	448	22799											
FLG	2312	broad.mit.edu	37	chr1	152280937	152280937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcctctgcttggccccGggtgtccacgaatggtgtcc	3	12	11	15	2	1	0	0	0	1	0	5	1	5	0	6	3	1	1	6	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152280937G>A	uc001ezu.1	-	3	6461	c.6425C>T	c.(6424-6426)CCG>CTG	p.P2142L		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2142	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTTGGCCCCGGGTGTCCACG	0.577									Ichthyosis				83	508					0	0	1	0	0		A	152280937	A	A	152280937	3	1	27	1	0	0	0	0	1	0	0	0	5936	1116	39	1	5764	1	FLG	1	152280937	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2132	152280937	96969684	449	22800											
FLG	2312	broad.mit.edu	37	chr1	152282226	152282226	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggctaccactggacccTcggtttccactgtctccgac	5	10	9	17	2	1	0	0	0	1	0	4	2	2	1	5	3	1	2	5	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152282226T>C	uc001ezu.1	-	3	5172	c.5136A>G	c.(5134-5136)CGA>CGG	p.R1712R		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1712	Ser-rich.|Filaggrin 10.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity	p.R1712P(1)		ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CACTGGACCCTCGGTTTCCAC	0.587									Ichthyosis				68	262					0	0	1	0	0		C	152282226	C	C	152282226	2	2	27	1	0	0	0	0	0	0	0	1	5936	1538	54	3		3	FLG	1	152282226	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1289	152282226	96968395	450	22801											
FLG	2312	broad.mit.edu	37	chr1	152285766	152285766	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctatttaccgattgctcGtggtgggatccctgccttcc	5	13	10	13	2	0	0	0	0	0	0	3	3	2	1	5	2	3	1	5	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152285766G>A	uc001ezu.1	-	3	1632	c.1596C>T	c.(1594-1596)CAC>CAT	p.H532H	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	532	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCGATTGCTCGTGGTGGGATC	0.587									Ichthyosis				49	450					0	0	1	0	0		A	152285766	A	A	152285766	2	1	27	1	0	0	0	0	0	0	0	1	5936	1136	40	1		1	FLG	1	152285766	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3540	152285766	96964855	451	22802											
FLG2	388698	broad.mit.edu	37	chr1	152323458	152323458	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtcctgaatgtgtgtgTgagccccatgagtgcacttc	7	13	12	9	0	0	3	0	3	0	0	2	3	1	3	3	0	2	1	3	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152323458T>G	uc001ezw.3	-	3	6877	c.6804A>C	c.(6802-6804)TCA>TCC	p.S2268S	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	2268							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AATGTGTGTGTGAGCCCCATG	0.517													80	258					0	0	1	0	0		G	152323458	G	G	152323458	2	3	27	1	0	0	0	0	0	0	0	1	5937	1683	59	5		5	FLG2	1	152323458	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37692	152323458	96927163	452	22803											
FLG2	388698	broad.mit.edu	37	chr1	152325465	152325465	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttgagatccggcttggccGtaagtgtgttctcgtgagtg	5	14	15	7	3	1	2	0	2	1	1	3	3	2	2	2	2	0	4	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152325465G>A	uc001ezw.3	-	3	4870	c.4797C>T	c.(4795-4797)TAC>TAT	p.Y1599Y	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1599							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGGCTTGGCCGTAAGTGTGTT	0.512													51	249					0	0	1	0	0		A	152325465	A	A	152325465	2	1	27	1	0	0	0	0	0	0	0	1	5937	1140	40	1		1	FLG2	1	152325465	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2007	152325465	96925156	453	22804											
KPRP	448834	broad.mit.edu	37	chr1	152733357	152733357	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgacaactttcagaaccttgTttgtatccagaaccacttcc	11	12	5	13	1	1	2	1	0	0	2	3	3	3	2	4	0	3	2	4	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152733357T>C	uc001fal.1	+	2	1351	c.1293T>C	c.(1291-1293)TGT>TGC	p.C431C		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	431	Pro-rich.					cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CAGAACCTTGTTTGTATCCAG	0.582													10	110					0	0	1	0	0		C	152733357	C	C	152733357	2	2	27	1	0	0	0	0	0	0	0	1	8452	1731	60	3		3	KPRP	1	152733357	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	407892	152733357	96517264	454	22805											
LCE1C	353133	broad.mit.edu	37	chr1	152777882	152777882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgggggacactttggggtggGgcacttgggagggcacttgg	5	9	21	6	0	0	0	0	0	0	0	0	2	0	2	0	9	0	2	0	9	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:152777882G>A	uc001fap.1	-	2	124	c.73C>T	c.(73-75)CCC>TCC	p.P25S		NM_178351	NP_848128	Q5T751	LCE1C_HUMAN	late cornified envelope 1C	25	Pro-rich.				keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			tttggggTGgggcacttggga	0.403													4	41					0	0	1	0	0		A	152777882	A	A	152777882	3	1	27	1	0	0	0	0	1	0	0	0	8677	1232	43	4	287	4	LCE1C	1	152777882	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	44525	152777882	96472739	455	22806											
PGLYRP3	114771	broad.mit.edu	37	chr1	153274910	153274910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaatgtcacaaaagttccGtgtgtccatgtgaaaggact	12	11	9	9	1	1	1	1	1	0	0	4	2	4	2	3	1	0	1	3	1	4	1	rs149128791		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:153274910G>A	uc001fbn.1	-	5	756	c.703C>T	c.(703-705)CGG>TGG	p.R235W		NM_052891	NP_443123	Q96LB9	PGRP3_HUMAN	peptidoglycan recognition protein 3 precursor	235		Murein.			defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4	all_lung(78;3.35e-32)|Lung NSC(65;1.22e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			CAAAAGTTCCGTGTGTCCATG	0.468													19	124					0	0	1	0	0		A	153274910	A	A	153274910	3	1	27	1	0	0	0	0	1	0	0	0	11814	1144	40	1	334	1	PGLYRP3	1	153274910	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	497028	153274910	95975711	456	22807											
S100A3	6274	broad.mit.edu	37	chr1	153520239	153520239	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaggcaagtgagcgcacAtactccacaaagtccacctc	13	5	9	14	1	0	1	0	1	0	0	3	1	2	1	3	2	2	3	3	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:153520239A>G	uc001fca.1	-	3	308	c.225T>C	c.(223-225)TAT>TAC	p.Y75Y	S100A4_uc001fby.2_5'Flank|S100A4_uc001fbz.2_5'Flank|uc009wog.1_Intron	NM_002960	NP_002951	P33764	S10A3_HUMAN	S100 calcium binding protein A3	75	EF-hand 2.						calcium ion binding|protein binding				0	all_lung(78;5.98e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			GTGAGCGCACATACTCCACAA	0.557													8	114					0	0	1	0	0		G	153520239	G	G	153520239	2	3	27	1	0	0	0	0	0	0	0	1	13804	224	8	3		3	S100A3	1	153520239	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	245329	153520239	95730382	457	22808											
NPR1	4881	broad.mit.edu	37	chr1	153653743	153653743	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacacctggcctatgagcagTtcaacttcaccatggaggat	12	9	9	11	0	2	1	2	1	0	0	2	3	2	3	3	3	3	2	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:153653743T>C	uc001fcs.3	+	3	1430	c.1009T>C	c.(1009-1011)TTC>CTC	p.F337L	NPR1_uc010pdz.1_Missense_Mutation_p.F83L	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	337	Extracellular (Potential).				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	CTATGAGCAGTTCAACTTCAC	0.537													6	76					0	0	1	0	0		C	153653743	C	C	153653743	3	2	27	1	0	0	0	0	1	0	0	0	10613	1725	60	3	1019	3	NPR1	1	153653743	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	133504	153653743	95596878	458	22809											
INTS3	65123	broad.mit.edu	37	chr1	153713206	153713206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccaatgatgccctcaatgCgtatgtaagtagaatgctgt	12	11	10	8	1	1	2	1	1	0	1	1	2	1	2	2	0	4	4	2	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:153713206C>T	uc009wom.2	+	3	451	c.230C>T	c.(229-231)GCG>GTG	p.A77V	INTS3_uc001fct.2_Missense_Mutation_p.A77V|INTS3_uc001fcu.2_5'UTR|INTS3_uc001fcv.2_5'UTR	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	77					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GCCCTCAATGCGTATGTAAGT	0.488													8	76					0	0	1	0	0		T	153713206	T	T	153713206	3	4	27	1	0	0	0	0	1	0	0	0	7795	768	27	1	236	1	INTS3	1	153713206	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	59463	153713206	95537415	459	22810											
DENND4B	9909	broad.mit.edu	37	chr1	153914821	153914821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgtcctcctccgggtagcGgcccagcagctctgcacccc	5	8	10	18	2	1	0	0	0	1	0	4	0	4	0	6	2	4	4	6	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:153914821G>A	uc001fdd.1	-	5	1053	c.652C>T	c.(652-654)CGC>TGC	p.R218C		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	218	UDENN.									ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TCCGGGTAGCGGCCCAGCAGC	0.632													6	20					0	0	1	0	0		A	153914821	A	A	153914821	3	1	27	1	0	0	0	0	1	0	0	0	4440	1116	39	1	3934	1	DENND4B	1	153914821	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	201615	153914821	95335800	460	22811											
JTB	10899	broad.mit.edu	37	chr1	153947178	153947178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatggactcgatttgcttccGgaccttttccagagcctttc	6	15	8	12	2	0	1	0	0	0	1	4	4	2	3	4	2	2	1	4	2	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:153947178G>A	uc001fds.2	-	5	1141	c.418C>T	c.(418-420)CGG>TGG	p.R140W		NM_006694	NP_006685	O76095	JTB_HUMAN	jumping translocation breakpoint precursor	140	Cytoplasmic (Potential).				apoptosis|cell cycle cytokinesis|mitosis|positive regulation of protein kinase activity	integral to plasma membrane|membrane fraction|microtubule organizing center|midbody|mitochondrion|spindle	protein kinase binding				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			ATTTGCTTCCGGACCTTTTCC	0.483													34	119					0	0	1	0	0		A	153947178	A	A	153947178	3	1	27	1	0	0	0	0	1	0	0	0	7983	1115	39	1	26	1	JTB	1	153947178	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	32357	153947178	95303443	461	22812											
JTB	10899	broad.mit.edu	37	chr1	153947216	153947216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtccaattgtcgctgaCgaatgatgacaagacaagcg	12	10	10	9	3	1	4	0	3	1	1	3	5	2	4	1	0	1	1	1	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:153947216C>T	uc001fds.2	-	5	1103	c.380G>A	c.(379-381)CGT>CAT	p.R127H		NM_006694	NP_006685	O76095	JTB_HUMAN	jumping translocation breakpoint precursor	127	Cytoplasmic (Potential).				apoptosis|cell cycle cytokinesis|mitosis|positive regulation of protein kinase activity	integral to plasma membrane|membrane fraction|microtubule organizing center|midbody|mitochondrion|spindle	protein kinase binding				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TTGTCGCTGACGAATGATGAC	0.498													27	111					0	0	1	0	0		T	153947216	T	T	153947216	3	4	27	1	0	0	0	0	1	0	0	0	7983	536	19	1	64	1	JTB	1	153947216	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	38	153947216	95303405	462	22813											
RAB13	5872	broad.mit.edu	37	chr1	153955047	153955047	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggatttagcactagtttcGaaaaatcggattccatgctc	11	13	8	9	2	0	0	0	0	0	0	4	3	1	2	1	2	2	3	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:153955047G>A	uc001fdt.1	-	6	538	c.444C>T	c.(442-444)TTC>TTT	p.F148F	RAB13_uc001fdu.1_3'UTR	NM_002870	NP_002861	P51153	RAB13_HUMAN	RAB13, member RAS oncogene family	148					cell adhesion|protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	cytoplasmic vesicle membrane|tight junction	GTP binding|GTPase activity				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			CACTAGTTTCGAAAAATCGGA	0.468													6	121					0	0	1	0	0		A	153955047	A	A	153955047	2	1	27	1	0	0	0	0	0	0	0	1	12924	1049	37	1		1	RAB13	1	153955047	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7831	153955047	95295574	463	22814											
NUP210L	91181	broad.mit.edu	37	chr1	153967602	153967602	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaaagagggtcaagagcAggatctggtaagagccagtg	13	6	15	7	0	2	3	1	0	1	3	2	4	2	4	1	3	3	3	1	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:153967602A>G	uc001fdw.2	-	38	5513	c.5441T>C	c.(5440-5442)CTG>CCG	p.L1814P	NUP210L_uc009woq.2_Missense_Mutation_p.L723P|NUP210L_uc010peh.1_Missense_Mutation_p.L1662P	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	1814	Helical; (Potential).					integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			GGTCAAGAGCAGGATCTGGTA	0.418													8	55					0	0	1	0	0		G	153967602	G	G	153967602	3	3	27	1	0	0	0	0	1	0	0	0	10780	188	7	3	237	3	NUP210L	1	153967602	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	12555	153967602	95283019	464	22815											
NUP210L	91181	broad.mit.edu	37	chr1	154091248	154091248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcttcacttcttgttggtGtttgattagaaattttatag	10	20	7	4	0	3	2	1	1	2	1	3	2	3	2	0	1	0	2	0	1	5	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:154091248G>A	uc001fdw.2	-	11	1435	c.1363C>T	c.(1363-1365)CAC>TAC	p.H455Y	NUP210L_uc009woq.2_5'UTR|NUP210L_uc010peh.1_Missense_Mutation_p.H455Y	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	455						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TCTTGTTGGTGTTTGATTAGA	0.299													15	161					0	0	1	0	0		A	154091248	A	A	154091248	3	1	27	1	0	0	0	0	1	0	0	0	10780	1377	48	4	4423	4	NUP210L	1	154091248	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	123646	154091248	95159373	465	22816											
CHRNB2	1141	broad.mit.edu	37	chr1	154544124	154544124	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcatctcagtgctgctggcGctcacggtcttcctgctgct	3	13	11	14	2	3	0	2	0	2	0	5	0	4	0	1	2	5	6	1	2	0	1	rs140739605		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:154544124G>A	uc001ffg.2	+	5	1089	c.825G>A	c.(823-825)GCG>GCA	p.A275A		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	275	Helical; (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	TGCTGCTGGCGCTCACGGTCT	0.577													27	105					0	0	1	0	0		A	154544124	A	A	154544124	2	1	27	1	0	0	0	0	0	0	0	1	3394	1074	38	1		1	CHRNB2	1	154544124	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	452876	154544124	94706497	466	22817											
ADAR	103	broad.mit.edu	37	chr1	154569657	154569657	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggccttcatggcttccTctgcggccatctgctttgcc	3	12	11	15	1	3	0	1	0	2	0	4	0	4	0	4	3	3	3	4	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:154569657T>C	uc001ffh.2	-	5	2221	c.2021A>G	c.(2020-2022)GAG>GGG	p.E674G	ADAR_uc001ffj.2_Missense_Mutation_p.E674G|ADAR_uc001ffi.2_Missense_Mutation_p.E674G|ADAR_uc001ffk.2_Missense_Mutation_p.E379G	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	674	DRBM 2.				adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		CATGGCTTCCTCTGCGGCCAT	0.522													9	74					0	0	1	0	0		C	154569657	C	C	154569657	3	2	27	1	0	0	0	0	1	0	0	0	281	1551	54	3	1703	3	ADAR	1	154569657	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25533	154569657	94680964	467	22818											
PMVK	10654	broad.mit.edu	37	chr1	154897634	154897634	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagcggataaattctatcaGgttctccaactgctcctcca	10	11	8	12	1	3	0	1	0	2	0	6	2	5	2	3	3	3	2	3	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:154897634G>A	uc001ffq.2	-	5	873	c.550C>T	c.(550-552)CTG>TTG	p.L184L		NM_006556	NP_006547	Q15126	PMVK_HUMAN	phosphomevalonate kinase	184					cholesterol biosynthetic process|protein phosphorylation	cytosol|peroxisome	ATP binding|phosphomevalonate kinase activity|protein binding				0	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.142)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			AATTCTATCAGGTTCTCCAAC	0.547													13	166					0	0	1	0	0		A	154897634	A	A	154897634	2	1	27	1	0	0	0	0	0	0	0	1	12163	991	35	4		4	PMVK	1	154897634	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	327977	154897634	94352987	468	22819											
TRIM46	80128	broad.mit.edu	37	chr1	155147963	155147963	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccacaacgtgtgccaggcCtgtgcccgagaggtcttggg	7	7	14	13	2	1	1	0	0	1	1	1	2	1	1	4	3	3	0	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155147963C>A	uc001fhs.1	+	2	248	c.165C>A	c.(163-165)GCC>GCA	p.A55A	RAG1AP1_uc010pey.1_Intron|KRTCAP2_uc001fho.2_5'Flank|KRTCAP2_uc001fhp.1_5'Flank|TRIM46_uc009wpe.1_RNA|TRIM46_uc010pez.1_Silent_p.A42A|TRIM46_uc001fhq.2_RNA|TRIM46_uc001fhr.2_Silent_p.A55A|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_Intron|TRIM46_uc001fhu.1_Silent_p.A32A|TRIM46_uc009wpg.1_Silent_p.A42A|TRIM46_uc009wpf.2_Silent_p.A42A|TRIM46_uc001fhv.3_Silent_p.A42A|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	55	RING-type 1; degenerate.					intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			TGTGCCAGGCCTGTGCCCGAG	0.622													10	95					9.70103e-10	1.07188e-09	1	1	0		A	155147963	A	A	155147963	2	1	27	1	0	0	0	0	0	0	0	1	16547	668	24	5		5	TRIM46	1	155147963	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	250329	155147963	94102658	469	22820											
TRIM46	80128	broad.mit.edu	37	chr1	155154445	155154445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgctggctgctgaccGgctgctgaccggctgccacc	3	8	13	17	2	0	2	0	2	0	0	0	2	0	2	5	3	5	7	5	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155154445G>A	uc001fhs.1	+	9	1789	c.1706G>A	c.(1705-1707)CGG>CAG	p.R569Q	RAG1AP1_uc010pey.1_Intron|TRIM46_uc009wpe.1_RNA|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_Missense_Mutation_p.R443Q|TRIM46_uc001fhu.1_Missense_Mutation_p.R546Q|TRIM46_uc009wpg.1_Missense_Mutation_p.R556Q|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	569	B30.2/SPRY.					intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			gctgctgaccggctgctgacc	0.582													8	33					0	0	1	0	0		A	155154445	A	A	155154445	3	1	27	1	0	0	0	0	1	0	0	0	16547	1116	39	1	1740	1	TRIM46	1	155154445	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6482	155154445	94096176	470	22821											
THBS3	7059	broad.mit.edu	37	chr1	155169629	155169629	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcacagacatcccccaccaGgtcgctgtctgcatctgtct	8	10	7	16	1	4	1	1	0	3	1	6	1	5	1	3	1	1	2	3	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155169629G>T	uc001fix.2	-	16	1869	c.1846C>A	c.(1846-1848)CTG>ATG	p.L616M	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Missense_Mutation_p.L607M|THBS3_uc001fiz.2_Missense_Mutation_p.L579M|THBS3_uc001fiy.2_Missense_Mutation_p.L145M|THBS3_uc010pfu.1_Missense_Mutation_p.L496M|THBS3_uc010pfv.1_RNA	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	616	TSP type-3 6.				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			TCCCCCACCAGGTCGCTGTCT	0.408													10	96					2.17888e-05	2.33116e-05	1	1	0		T	155169629	T	T	155169629	3	4	27	1	0	0	0	0	1	0	0	0	15880	991	35	5	1056	5	THBS3	1	155169629	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15184	155169629	94080992	471	22822											
FAM189B	10712	broad.mit.edu	37	chr1	155220430	155220430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctttcctcgaaggggccccGcaggccacagtccaggctga	7	6	13	15	2	0	1	0	1	0	0	3	2	2	1	5	4	0	3	5	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155220430G>A	uc001fjm.2	-	9	1753	c.1147C>T	c.(1147-1149)CGG>TGG	p.R383W	RAG1AP1_uc010pey.1_Intron|FAM189B_uc009wql.2_Missense_Mutation_p.R185W|FAM189B_uc001fjn.2_Missense_Mutation_p.R287W|FAM189B_uc001fjo.2_Missense_Mutation_p.R365W|FAM189B_uc001fjp.2_Intron	NM_006589	NP_006580	P81408	F189B_HUMAN	hypothetical protein LOC10712 isoform a	383						integral to membrane	WW domain binding			ovary(1)|breast(1)	2						AAGGGGCCCCGCAGGCCACAG	0.706													3	15					0	0	1	0	0		A	155220430	A	A	155220430	3	1	27	1	0	0	0	0	1	0	0	0	5528	1086	38	1	875	1	FAM189B	1	155220430	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	50801	155220430	94030191	472	22823											
SCAMP3	10067	broad.mit.edu	37	chr1	155226553	155226553	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggatactgctgtgttgcccTtcggcaccaccagagcagag	8	8	12	13	2	0	2	0	0	0	2	1	3	0	3	3	2	4	4	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155226553T>A	uc001fjs.2	-	8	1062	c.809A>T	c.(808-810)AAG>ATG	p.K270M	RAG1AP1_uc010pey.1_Intron|FAM189B_uc001fjm.2_5'Flank|FAM189B_uc001fjn.2_5'Flank|FAM189B_uc001fjo.2_5'Flank|FAM189B_uc001fjp.2_5'Flank|FAM189B_uc001fjq.1_5'Flank|SCAMP3_uc001fjr.2_Missense_Mutation_p.K117M|SCAMP3_uc001fju.2_Missense_Mutation_p.K256M|SCAMP3_uc001fjv.2_Missense_Mutation_p.R266W|SCAMP3_uc001fjt.2_Missense_Mutation_p.K244M	NM_005698	NP_005689	O14828	SCAM3_HUMAN	secretory carrier membrane protein 3 isoform 1	270					post-Golgi vesicle-mediated transport|protein transport	integral to membrane				ovary(3)	3	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			TGTGTTGCCCTTCGGCACCAC	0.562													5	33					0	0	1	0	0		A	155226553	A	A	155226553	3	1	27	1	0	0	0	0	1	0	0	0	13897	1609	56	5	242	5	SCAMP3	1	155226553	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6123	155226553	94024068	473	22824											
FDPS	2224	broad.mit.edu	37	chr1	155289429	155289429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatggcgagaaggagcacGccaatgccaagaagatcctg	13	6	13	9	2	0	4	0	1	0	3	1	6	1	5	3	2	2	1	3	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155289429G>A	uc001fkc.2	+	9	1093	c.874G>A	c.(874-876)GCC>ACC	p.A292T	RAG1AP1_uc010pey.1_Intron|FDPS_uc001fkd.2_Missense_Mutation_p.A226T|FDPS_uc001fke.2_Missense_Mutation_p.A292T|FDPS_uc001fkf.2_Missense_Mutation_p.A226T|C1orf104_uc001fkh.1_Intron|RUSC1_uc001fkj.2_5'Flank|RUSC1_uc001fkk.2_5'Flank|RUSC1_uc009wqn.1_5'Flank	NM_002004	NP_001995	P14324	FPPS_HUMAN	farnesyl diphosphate synthase isoform a	292					cholesterol biosynthetic process|interspecies interaction between organisms|isoprenoid biosynthetic process	cytosol|nucleus	dimethylallyltranstransferase activity|geranyltranstransferase activity|metal ion binding				0	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;2.03e-10)|all cancers(21;5.23e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)		Alendronate(DB00630)|Ibandronate(DB00710)|Pamidronate(DB00282)|Risedronate(DB00884)|Zoledronate(DB00399)	GAAGGAGCACGCCAATGCCAA	0.567													10	42					0	0	1	0	0		A	155289429	A	A	155289429	3	1	27	1	0	0	0	0	1	0	0	0	5817	1087	38	1	904	1	FDPS	1	155289429	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	62876	155289429	93961192	474	22825											
C1orf104	284618	broad.mit.edu	37	chr1	155290616	155290616	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacaaaagacgctaaacgCtgggggcgggtctgagctac	11	6	15	9	3	1	3	0	2	1	1	1	3	1	3	0	3	3	3	0	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155290616C>A	uc001fki.2	-	2	941	c.664G>T	c.(664-666)GCG>TCG	p.A222S	RAG1AP1_uc010pey.1_Intron|C1orf104_uc001fkh.1_Intron|RUSC1_uc001fkj.2_5'Flank|RUSC1_uc001fkk.2_5'Flank|RUSC1_uc009wqn.1_5'Flank|RUSC1_uc009wqo.1_5'Flank	NM_001039517	NP_001034606	Q66K80	RUAS1_HUMAN	hypothetical protein LOC284618	222											0	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.32e-10)|all cancers(21;3.51e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			ACGCTAAACGCTGGGGGCGGG	0.637													10	41					0.000673444	0.000703801	1	1	0		A	155290616	A	A	155290616	3	1	27	1	0	0	0	0	1	0	0	0	1981	797	28	5	50	5	C1orf104	1	155290616	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1187	155290616	93960005	475	22826											
ASH1L	55870	broad.mit.edu	37	chr1	155349857	155349857	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgtgtttccactgccaaaGgatatcataaggaagctgga	13	11	10	7	0	1	0	1	0	0	0	2	3	2	3	2	3	2	2	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155349857G>T	uc009wqq.2	-	8	6649	c.6169C>A	c.(6169-6171)CTT>ATT	p.L2057I	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.L2052I	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2057					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			CACTGCCAAAGGATATCATAA	0.363													6	72					8.12818e-05	8.61523e-05	1	1	0		T	155349857	T	T	155349857	3	4	27	1	0	0	0	0	1	0	0	0	1042	1000	35	5	2824	5	ASH1L	1	155349857	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	59241	155349857	93900764	476	22827											
ASH1L	55870	broad.mit.edu	37	chr1	155449639	155449639	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttccctttattacttgAttctacagaacttgaaagaa	13	15	4	9	0	1	4	0	2	1	2	2	4	2	4	1	0	3	0	1	0	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155449639A>G	uc009wqq.2	-	3	3502	c.3022T>C	c.(3022-3024)TCA>CCA	p.S1008P	ASH1L_uc001fkt.2_Missense_Mutation_p.S1008P|ASH1L_uc009wqr.1_Missense_Mutation_p.S1008P	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1008					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TTATTACTTGATTCTACAGAA	0.333													7	81					0	0	1	0	0		G	155449639	G	G	155449639	3	3	27	1	0	0	0	0	1	0	0	0	1042	333	12	3	5976	3	ASH1L	1	155449639	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	99782	155449639	93800982	477	22828											
ASH1L	55870	broad.mit.edu	37	chr1	155450153	155450153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcccttccagttgaggCatctccttagatttaggcct	6	13	11	11	0	1	2	0	1	1	1	3	2	2	2	4	4	0	2	4	4	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155450153C>T	uc009wqq.2	-	3	2988	c.2508G>A	c.(2506-2508)ATG>ATA	p.M836I	ASH1L_uc001fkt.2_Missense_Mutation_p.M836I|ASH1L_uc009wqr.1_Missense_Mutation_p.M836I	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	836					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			CCAGTTGAGGCATCTCCTTAG	0.403													9	124					0	0	1	0	0		T	155450153	T	T	155450153	3	4	27	1	0	0	0	0	1	0	0	0	1042	710	25	2	6490	2	ASH1L	1	155450153	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	514	155450153	93800468	478	22829											
ASH1L	55870	broad.mit.edu	37	chr1	155450980	155450980	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaggattaacagatacagTaggtgatggggaagggagat	16	8	15	2	0	0	3	0	1	0	2	0	6	0	5	0	5	2	1	0	5	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155450980T>C	uc009wqq.2	-	3	2161	c.1681A>G	c.(1681-1683)ACT>GCT	p.T561A	ASH1L_uc001fkt.2_Missense_Mutation_p.T561A|ASH1L_uc009wqr.1_Missense_Mutation_p.T561A	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	561					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			ACAGATACAGTAGGTGATGGG	0.428													6	91					0	0	1	0	0		C	155450980	C	C	155450980	3	2	27	1	0	0	0	0	1	0	0	0	1042	1638	57	3	7317	3	ASH1L	1	155450980	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	827	155450980	93799641	479	22830											
ASH1L	55870	broad.mit.edu	37	chr1	155451081	155451081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttaaagtccggagaagtgCaatatacaggaggctgcttt	12	12	11	6	1	0	1	0	0	0	1	1	3	1	2	1	3	3	3	1	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155451081C>T	uc009wqq.2	-	3	2060	c.1580G>A	c.(1579-1581)TGC>TAC	p.C527Y	ASH1L_uc001fkt.2_Missense_Mutation_p.C527Y|ASH1L_uc009wqr.1_Missense_Mutation_p.C527Y	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	527					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			CGGAGAAGTGCAATATACAGG	0.433													13	82					0	0	1	0	0		T	155451081	T	T	155451081	3	4	27	1	0	0	0	0	1	0	0	0	1042	710	25	2	7418	2	ASH1L	1	155451081	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	101	155451081	93799540	480	22831											
GON4L	54856	broad.mit.edu	37	chr1	155721929	155721929	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaggtgtcaattcctgAtggagattcatggacagggc	9	11	13	8	0	3	3	2	2	1	1	4	5	4	4	1	4	0	0	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155721929A>T	uc001flz.2	-	30	6392	c.6295T>A	c.(6295-6297)TCA>ACA	p.S2099T	GON4L_uc001flx.1_5'Flank|GON4L_uc009wrg.1_RNA|GON4L_uc001fly.1_Missense_Mutation_p.S2098T|GON4L_uc009wrh.1_Missense_Mutation_p.S2098T|GON4L_uc001fma.1_Missense_Mutation_p.S2099T	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	2099					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TCAATTCCTGATGGAGATTCA	0.562													11	105					0	0	1	0	0		T	155721929	T	T	155721929	3	4	27	1	0	0	0	0	1	0	0	0	6587	333	12	5	442	5	GON4L	1	155721929	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	270848	155721929	93528692	481	22832											
SYT11	23208	broad.mit.edu	37	chr1	155838037	155838037	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggctggcctgctaagcCgagacaaagatcccaggggg	11	4	15	11	1	0	3	0	0	0	3	1	4	1	3	3	4	2	2	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155838037C>T	uc001fmg.2	+	2	579	c.316C>T	c.(316-318)CGA>TGA	p.R106*	SYT11_uc010pgq.1_Intron	NM_152280	NP_689493	Q9BT88	SYT11_HUMAN	synaptotagmin XI	106	Cytoplasmic (Potential).					cell junction|synaptic vesicle membrane	protein binding|transporter activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;0.000162)			CCTGCTAAGCCGAGACAAAGA	0.512													23	79					0	0	1	0	0		T	155838037	T	T	155838037	4	4	27	1	0	0	0	0	0	1	0	0	15492	644	23	1	322	1	SYT11	1	155838037	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	116108	155838037	93412584	482	22833											
KIAA0907	22889	broad.mit.edu	37	chr1	155886463	155886463	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacttgctggcttcgatccTgcaccttcaatctcattctg	7	14	7	13	1	3	0	2	0	2	0	6	2	4	0	2	1	3	3	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155886463T>C	uc001fmi.1	-	12	1530	c.1506A>G	c.(1504-1506)GCA>GCG	p.A502A	KIAA0907_uc001fmj.1_Silent_p.A502A|KIAA0907_uc009wrk.1_Silent_p.A359A|KIAA0907_uc009wrl.1_RNA	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	502											0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			GCTTCGATCCTGCACCTTCAA	0.408													22	226					0	0	1	0	0		C	155886463	C	C	155886463	2	2	27	1	0	0	0	0	0	0	0	1	8215	1567	55	3		3	KIAA0907	1	155886463	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	48426	155886463	93364158	483	22834											
KIAA0907	22889	broad.mit.edu	37	chr1	155891401	155891401	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggagggacactacttataGcagagggttgtgtatagcct	11	10	14	6	0	0	1	0	0	0	1	0	4	0	3	1	3	3	3	1	3	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:155891401G>T	uc001fmi.1	-	10	1055	c.1031C>A	c.(1030-1032)GCT>GAT	p.A344D	KIAA0907_uc001fmj.1_Missense_Mutation_p.A344D|KIAA0907_uc009wrk.1_Missense_Mutation_p.A201D|KIAA0907_uc009wrl.1_Intron|SNORA42_uc001fmk.1_5'Flank|KIAA0907_uc001fml.1_Intron	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	344	Pro-rich.										0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			ACTACTTATAGCAGAGGGTTG	0.443													8	65					0.000157383	0.000166242	1	1	0		T	155891401	T	T	155891401	3	4	27	1	0	0	0	0	1	0	0	0	8215	971	34	5	833	5	KIAA0907	1	155891401	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4938	155891401	93359220	484	22835											
MEF2D	4209	broad.mit.edu	37	chr1	156446831	156446831	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcattaacccctttcctgcCtgggaagtgatgactcgcag	8	11	10	12	1	0	2	0	2	0	0	2	3	1	3	4	1	3	2	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156446831C>A	uc001fpc.2	-	7	1218	c.828G>T	c.(826-828)CAG>CAT	p.Q276H	MEF2D_uc001fpb.2_Missense_Mutation_p.Q276H|MEF2D_uc001fpd.2_Missense_Mutation_p.Q276H|MEF2D_uc001fpe.1_Missense_Mutation_p.Q276H|MEF2D_uc009wsa.2_RNA	NM_005920	NP_005911	Q14814	MEF2D_HUMAN	myocyte enhancer factor 2D	276					apoptosis|muscle organ development|nervous system development|positive regulation of transcription from RNA polymerase II promoter	nucleus	activating transcription factor binding|histone deacetylase binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCTTTCCTGCCTGGGAAGTGA	0.597													10	105					7.48243e-07	8.13385e-07	1	1	0		A	156446831	A	A	156446831	3	1	27	1	0	0	0	0	1	0	0	0	9476	680	24	5	761	5	MEF2D	1	156446831	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	555430	156446831	92803790	485	22836											
MEF2D	4209	broad.mit.edu	37	chr1	156452228	156452228	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcctgtgtgtatgggcccaCctcgatgatgtcggcgttgg	4	12	15	10	3	0	1	0	1	0	0	2	2	0	1	3	3	1	2	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156452228C>T	uc001fpc.2	-	3	648	c.258_splice	c.e3+1	p.E86_splice	MEF2D_uc001fpb.2_Splice_Site_p.E86_splice|MEF2D_uc001fpd.2_Splice_Site_p.E86_splice|MEF2D_uc001fpe.1_Splice_Site_p.E86_splice|MEF2D_uc009wsa.2_Splice_Site	NM_005920	NP_005911	Q14814	MEF2D_HUMAN	myocyte enhancer factor 2D						apoptosis|muscle organ development|nervous system development|positive regulation of transcription from RNA polymerase II promoter	nucleus	activating transcription factor binding|histone deacetylase binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TATGGGCCCACCTCGATGATG	0.587													6	45					0	0	1	0	0		T	156452228	T	T	156452228	5	4	27	1	0	0	0	0	0	0	1	0	9476	521	18	4	1346	4	MEF2D	1	156452228	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5397	156452228	92798393	486	22837											
IQGAP3	128239	broad.mit.edu	37	chr1	156498800	156498800	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggtggtcttagtgctcagGccctgtaatgtggcctgcag	7	11	14	9	0	2	0	1	0	1	0	2	0	2	0	2	4	2	3	2	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156498800G>T	uc001fpf.2	-	35	4554	c.4479C>A	c.(4477-4479)GGC>GGA	p.G1493G		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1493					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TAGTGCTCAGGCCCTGTAATG	0.607													6	98					0.00198382	0.00205548	1	1	0		T	156498800	T	T	156498800	2	4	27	1	0	0	0	0	0	0	0	1	7832	1190	42	5		5	IQGAP3	1	156498800	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46572	156498800	92751821	487	22838											
IQGAP3	128239	broad.mit.edu	37	chr1	156500056	156500056	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcgtcgcagtggctccggTgtctgggctgtacaggcctg	3	11	16	11	3	1	0	0	0	1	0	4	0	2	0	2	4	1	4	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156500056T>C	uc001fpf.2	-	34	4320	c.4245A>G	c.(4243-4245)ACA>ACG	p.T1415T		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1415					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTGGCTCCGGTGTCTGGGCTG	0.637													3	37					0	0	1	0	0		C	156500056	C	C	156500056	2	2	27	1	0	0	0	0	0	0	0	1	7832	1683	59	3		3	IQGAP3	1	156500056	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1256	156500056	92750565	488	22839											
IQGAP3	128239	broad.mit.edu	37	chr1	156518533	156518533	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattgatggcagccacaccAagagccactgacaggggcat	12	6	12	11	0	0	4	0	3	0	1	0	4	0	4	3	3	2	2	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156518533A>G	uc001fpf.2	-	17	1908	c.1833T>C	c.(1831-1833)CTT>CTC	p.L611L		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	611					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CAGCCACACCAAGAGCCACTG	0.602													4	37					0	0	1	0	0		G	156518533	G	G	156518533	2	3	27	1	0	0	0	0	0	0	0	1	7832	117	5	3		3	IQGAP3	1	156518533	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	18477	156518533	92732088	489	22840											
BCAN	63827	broad.mit.edu	37	chr1	156621427	156621427	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccccatcatggaggacggaGgaggtggaagctccactcca	10	6	13	12	1	1	0	1	0	0	0	4	5	4	5	4	6	1	1	4	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156621427G>T	uc001fpp.2	+	7	1579	c.1243G>T	c.(1243-1245)GGA>TGA	p.G415*	BCAN_uc001fpo.2_Nonsense_Mutation_p.G415*	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	415	Glu-rich.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GGAGGACGGAGGAGGTGGAAG	0.557													11	92					4.68919e-08	5.14072e-08	1	1	0		T	156621427	T	T	156621427	4	4	27	1	0	0	0	0	0	1	0	0	1346	1001	35	5	1265	5	BCAN	1	156621427	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	102894	156621427	92629194	490	22841											
NES	10763	broad.mit.edu	37	chr1	156642735	156642735	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcctcccaccctgtgtctgGagcagagagagaggagcatc	9	8	12	12	0	1	2	0	0	1	2	4	6	3	4	3	2	2	2	3	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156642735G>T	uc001fpq.2	-	4	1378	c.1245C>A	c.(1243-1245)CTC>CTA	p.L415L		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	415	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCTGTGTCTGGAGCAGAGAGA	0.657													23	103					7.4402e-23	8.33945e-23	1	1	0		T	156642735	T	T	156642735	2	4	27	1	0	0	0	0	0	0	0	1	10356	1161	41	5		5	NES	1	156642735	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21308	156642735	92607886	491	22842											
ISG20L2	81875	broad.mit.edu	37	chr1	156697311	156697311	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgccttgctagggggttggTtctttttactcagaaagcct	6	14	12	9	1	2	1	1	0	1	1	2	1	2	1	2	3	3	3	2	3	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156697311T>C	uc001fps.1	-	1	395	c.134A>G	c.(133-135)AAC>AGC	p.N45S	ISG20L2_uc001fpt.1_Missense_Mutation_p.N45S|C1orf66_uc001fpu.2_5'Flank|C1orf66_uc001fpv.2_5'Flank	NM_030980	NP_112242	Q9H9L3	I20L2_HUMAN	interferon stimulated exonuclease gene	45					ribosome biogenesis	nucleolus	exonuclease activity|nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGGGGGTTGGTTCTTTTTACT	0.488													18	148					0	0	1	0	0		C	156697311	C	C	156697311	3	2	27	1	0	0	0	0	1	0	0	0	7871	1725	60	3	939	3	ISG20L2	1	156697311	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	54576	156697311	92553310	492	22843											
C1orf66	51093	broad.mit.edu	37	chr1	156703256	156703256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactggtggagagagcccagCgcctggaccaggagcttctg	8	6	16	11	1	1	1	0	0	1	1	1	6	1	4	3	4	3	1	3	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156703256C>T	uc001fpu.2	+	5	1214	c.580C>T	c.(580-582)CGC>TGC	p.R194C	C1orf66_uc001fpv.2_Missense_Mutation_p.R194C	NM_015997	NP_057081	Q96FB5	RRNAD_HUMAN	hypothetical protein LOC51093 isoform 1	194	Potential.					integral to membrane	rRNA (adenine-N6,N6-)-dimethyltransferase activity				0	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GAGAGCCCAGCGCCTGGACCA	0.617													8	116					0	0	1	0	0		T	156703256	T	T	156703256	3	4	27	1	0	0	0	0	1	0	0	0	2059	768	27	1	598	1	C1orf66	1	156703256	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5945	156703256	92547365	493	22844											
PRCC	5546	broad.mit.edu	37	chr1	156756637	156756637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaggctgctgccaagagtGctgccctgcaggtgacaaag	10	7	13	11	0	1	2	1	1	0	1	1	2	1	2	2	2	5	4	2	2	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156756637G>A	uc001fqa.2	+	3	1044	c.754G>A	c.(754-756)GCT>ACT	p.A252T	PRCC_uc001fqb.2_Missense_Mutation_p.A252T	NM_005973	NP_005964	Q92733	PRCC_HUMAN	papillary renal cell carcinoma	252					cell cycle|mitotic cell cycle checkpoint	nucleus	protein binding		PRCC/TFE3(25)	kidney(25)|central_nervous_system(2)	27	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TGCCAAGAGTGCTGCCCTGCA	0.557			T	TFE3	papillary renal 								4	47					0	0	1	0	0		A	156756637	A	A	156756637	3	1	27	1	0	0	0	0	1	0	0	0	12469	1319	46	2	764	2	PRCC	1	156756637	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	53381	156756637	92493984	494	22845											
INSRR	3645	broad.mit.edu	37	chr1	156814013	156814013	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcaagaacgatgagcaGcgtgagccccacaggggtgg	11	3	17	10	2	0	3	0	2	0	1	0	4	0	3	2	4	5	3	2	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156814013G>A	uc010pht.1	-	15	3051	c.2797C>T	c.(2797-2799)CTG>TTG	p.L933L	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	933	Helical; (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					ACGATGAGCAGCGTGAGCCCC	0.582													5	52					0	0	1	0	0		A	156814013	A	A	156814013	2	1	27	1	0	0	0	0	0	0	0	1	7790	962	34	2		2	INSRR	1	156814013	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	57376	156814013	92436608	495	22846											
C1orf92	149499	broad.mit.edu	37	chr1	156897405	156897405	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgtctcgctcaacctgggTttcaaccacatcggtgacga	8	10	9	14	4	3	1	2	1	1	0	6	2	3	1	2	2	2	2	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156897405T>G	uc001fqm.2	+	7	952	c.780T>G	c.(778-780)GGT>GGG	p.G260G	C1orf92_uc001fql.2_Silent_p.G45G	NM_144702	NP_653303	Q8N4P6	LRC71_HUMAN	hypothetical protein LOC149499	260	LRR 4.										0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TCAACCTGGGTTTCAACCACA	0.677											OREG0013892	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	2	11					0	0	1	0	0		G	156897405	G	G	156897405	2	3	27	1	0	0	0	0	0	0	0	1	2072	1712	60	5		5	C1orf92	1	156897405	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	83392	156897405	92353216	496	22847											
ARHGEF11	9826	broad.mit.edu	37	chr1	156916542	156916542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataggaacagaactgtgcaGccacttgctggagttcctct	10	10	11	10	0	1	1	0	0	1	1	2	4	2	3	2	2	5	3	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156916542G>A	uc001fqo.2	-	27	3526	c.2486C>T	c.(2485-2487)GCT>GTT	p.A829V	ARHGEF11_uc010phu.1_Missense_Mutation_p.A245V|ARHGEF11_uc001fqn.2_Missense_Mutation_p.A869V	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	829	DH.				actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GAACTGTGCAGCCACTTGCTG	0.567													19	159					0	0	1	0	0		A	156916542	A	A	156916542	3	1	27	1	0	0	0	0	1	0	0	0	896	971	34	2	2138	2	ARHGEF11	1	156916542	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19137	156916542	92334079	497	22848											
ARHGEF11	9826	broad.mit.edu	37	chr1	156918229	156918229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctctgcctttcgagaccGtttcatctcttcccggccct	3	15	7	16	3	3	1	1	0	2	1	7	2	4	1	4	1	1	2	4	1	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:156918229G>A	uc001fqo.2	-	22	2907	c.1867C>T	c.(1867-1869)CGG>TGG	p.R623W	ARHGEF11_uc010phu.1_Missense_Mutation_p.R39W|ARHGEF11_uc001fqn.2_Missense_Mutation_p.R663W|ARHGEF11_uc001fqp.1_Missense_Mutation_p.R142W	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	623					actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TTTCGAGACCGTTTCATCTCT	0.587													17	61					0	0	1	0	0		A	156918229	A	A	156918229	3	1	27	1	0	0	0	0	1	0	0	0	896	1144	40	1	2777	1	ARHGEF11	1	156918229	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1687	156918229	92332392	498	22849											
FCRL5	83416	broad.mit.edu	37	chr1	157488498	157488498	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgggcctcaccattagtgTacactggttgcagctcttcc	6	12	9	14	1	2	0	1	0	1	0	4	0	3	0	3	2	3	4	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:157488498T>A	uc001fqu.2	-	14	2893	c.2735A>T	c.(2734-2736)TAC>TTC	p.Y912F	FCRL5_uc009wsm.2_Missense_Mutation_p.Y912F	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	912	Cytoplasmic (Potential).|ITIM motif 2.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				ACCATTAGTGTACACTGGTTG	0.572													8	73					0	0	1	0	0		A	157488498	A	A	157488498	3	1	27	1	0	0	0	0	1	0	0	0	5812	1638	57	5	214	5	FCRL5	1	157488498	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	570269	157488498	91762123	499	22850											
FCRL4	83417	broad.mit.edu	37	chr1	157556134	157556134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcggtgccaggagaatGtggtatcccctgtgccttca	6	11	11	13	1	2	1	1	0	1	1	4	2	3	1	5	3	2	1	5	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:157556134G>A	uc001fqw.2	-	6	1095	c.959C>T	c.(958-960)ACA>ATA	p.T320I	FCRL4_uc010phy.1_RNA	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	320	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				CCAGGAGAATGTGGTATCCCC	0.612													4	86					0	0	1	0	0		A	157556134	A	A	157556134	3	1	27	1	0	0	0	0	1	0	0	0	5811	1377	48	4	616	4	FCRL4	1	157556134	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	67636	157556134	91694487	500	22851											
FCRL2	79368	broad.mit.edu	37	chr1	157739769	157739769	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacggcagaaatctggagcTccggagagctgctccagcct	10	6	12	13	2	1	2	0	0	1	2	3	4	3	3	3	3	4	4	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:157739769T>C	uc001fre.2	-	4	541	c.482A>G	c.(481-483)GAG>GGG	p.E161G	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Missense_Mutation_p.E161G|FCRL2_uc009wsp.2_Intron|FCRL2_uc010pia.1_Missense_Mutation_p.E161G	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	161	Extracellular (Potential).|Ig-like C2-type 2.				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			AATCTGGAGCTCCGGAGAGCT	0.547													8	51					0	0	1	0	0		C	157739769	C	C	157739769	3	2	27	1	0	0	0	0	1	0	0	0	5809	1551	54	3	1080	3	FCRL2	1	157739769	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	183635	157739769	91510852	501	22852											
CD1D	912	broad.mit.edu	37	chr1	158152735	158152735	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctgctgctggtgtgccaTgtctcaggattctacccaaa	7	12	10	12	1	3	0	1	0	3	0	4	1	3	1	2	2	4	2	2	2	2	2	rs141805163		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158152735T>C	uc001frr.2	+	5	1174	c.675T>C	c.(673-675)CAT>CAC	p.H225H	CD1D_uc009wss.2_Intron	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	225	Ig-like.|Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					TGGTGTGCCATGTCTCAGGAT	0.612													7	102					0	0	1	0	0		C	158152735	C	C	158152735	2	2	27	1	0	0	0	0	0	0	0	1	2980	1461	51	3		3	CD1D	1	158152735	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	412966	158152735	91097886	502	22853											
OR10R2	343406	broad.mit.edu	37	chr1	158450322	158450322	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgttaacgaatttgtgAtattcatttgtggagttctt	10	18	9	4	1	2	2	1	1	1	1	2	4	2	3	0	1	1	2	0	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158450322A>T	uc010pik.1	+	1	655	c.655A>T	c.(655-657)ATA>TTA	p.I219L	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	219	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					CGAATTTGTGATATTCATTTG	0.408													11	161					0	0	1	0	0		T	158450322	T	T	158450322	3	4	27	1	0	0	0	0	1	0	0	0	10936	333	12	5	657	5	OR10R2	1	158450322	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	297587	158450322	90800299	503	22854											
OR10Z1	128368	broad.mit.edu	37	chr1	158576558	158576558	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgcctcatgggcctgtacTaactgcttccttctggctgc	4	14	9	14	0	3	0	1	0	2	0	4	0	4	0	3	2	5	3	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158576558T>C	uc010pio.1	+	1	330	c.330T>C	c.(328-330)ACT>ACC	p.T110T		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					GGGCCTGTACTAACTGCTTCC	0.562													37	130					0	0	1	0	0		C	158576558	C	C	158576558	2	2	27	1	0	0	0	0	0	0	0	1	10942	1509	53	3		3	OR10Z1	1	158576558	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	126236	158576558	90674063	504	22855											
OR10Z1	128368	broad.mit.edu	37	chr1	158576645	158576645	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccagccacatgaatcctacCctctgtgcccagctggtcat	8	9	8	16	0	2	1	1	1	1	0	3	1	3	1	5	1	4	1	5	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158576645C>T	uc010pio.1	+	1	417	c.417C>T	c.(415-417)ACC>ACT	p.T139T		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					TGAATCCTACCCTCTGTGCCC	0.512													8	87					0	0	1	0	0		T	158576645	T	T	158576645	2	4	27	1	0	0	0	0	0	0	0	1	10942	610	22	4		4	OR10Z1	1	158576645	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	87	158576645	90673976	505	22856											
SPTA1	6708	broad.mit.edu	37	chr1	158583526	158583526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctacctccctggatccacaGcatccaggaacttctcaaac	11	8	5	17	0	1	0	1	0	1	0	5	2	4	2	5	2	4	1	5	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158583526G>A	uc001fst.1	-	50	7173	c.6974C>T	c.(6973-6975)GCT>GTT	p.A2325V		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2325	EF-hand 2.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton	p.A2325A(1)		ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TGGATCCACAGCATCCAGGAA	0.502													5	82					0	0	1	0	0		A	158583526	A	A	158583526	3	1	27	1	0	0	0	0	1	0	0	0	15141	971	34	2	297	2	SPTA1	1	158583526	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6881	158583526	90667095	506	22857											
SPTA1	6708	broad.mit.edu	37	chr1	158621206	158621206	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtccttcaaatagtagaTcatcagctaccttgttgata	13	13	7	8	0	3	2	3	1	0	1	4	3	4	2	2	0	2	3	2	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158621206T>A	uc001fst.1	-	24	3627	c.3428A>T	c.(3427-3429)GAT>GTT	p.D1143V		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1143	Spectrin 11.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					AAATAGTAGATCATCAGCTAC	0.453													24	259					0	0	1	0	0		A	158621206	A	A	158621206	3	1	27	1	0	0	0	0	1	0	0	0	15141	1435	50	5	3947	5	SPTA1	1	158621206	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37680	158621206	90629415	507	22858											
SPTA1	6708	broad.mit.edu	37	chr1	158622391	158622391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caataaaaattcattataacGttgcaatagacgacgtctgc	16	11	6	8	3	2	1	1	0	1	1	2	2	2	1	0	0	3	2	0	0	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158622391G>A	uc001fst.1	-	23	3440	c.3241C>T	c.(3241-3243)CGT>TGT	p.R1081C		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1081					actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCATTATAACGTTGCAATAGA	0.428													7	101					0	0	1	0	0		A	158622391	A	A	158622391	3	1	27	1	0	0	0	0	1	0	0	0	15141	1145	40	1	4138	1	SPTA1	1	158622391	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1185	158622391	90628230	508	22859											
SPTA1	6708	broad.mit.edu	37	chr1	158626356	158626356	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgctaagttagtcttacctGgcaggcgtttgcctgattcc	6	14	10	11	2	1	1	0	1	1	0	3	1	2	1	3	2	2	4	3	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158626356G>T	uc001fst.1	-	20	3095	c.2896C>A	c.(2896-2898)CAG>AAG	p.Q966K		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	966	Spectrin 10.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					AGTCTTACCTGGCAGGCGTTT	0.393													35	148					5.8336e-16	6.52031e-16	1	1	0		T	158626356	T	T	158626356	3	4	27	1	0	0	0	0	1	0	0	0	15141	1357	47	5	4495	5	SPTA1	1	158626356	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3965	158626356	90624265	509	22860											
OR6K3	391114	broad.mit.edu	37	chr1	158687118	158687118	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaactggtggataagtgTcgctgaaacgcaagtacatg	14	8	11	8	2	0	1	0	1	0	0	1	2	0	2	1	2	3	3	1	2	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158687118T>C	uc010pip.1	-	1	836	c.836A>G	c.(835-837)GAC>GGC	p.D279G		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	279	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					TGGATAAGTGTCGCTGAAACG	0.453													6	66					0	0	1	0	0		C	158687118	C	C	158687118	3	2	27	1	0	0	0	0	1	0	0	0	11222	1667	58	3	161	3	OR6K3	1	158687118	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	60762	158687118	90563503	510	22861											
OR6K3	391114	broad.mit.edu	37	chr1	158687335	158687335	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatcagaatcatggacgtgtCtgtacaggccaggcttagca	12	9	11	9	1	3	1	2	0	1	1	3	2	3	2	1	3	2	3	1	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158687335C>G	uc010pip.1	-	1	619	c.619G>C	c.(619-621)GAC>CAC	p.D207H		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	207	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					ATGGACGTGTCTGTACAGGCC	0.463													21	120					0	0	1	0	0		G	158687335	G	G	158687335	3	3	27	1	0	0	0	0	1	0	0	0	11222	913	32	5	378	5	OR6K3	1	158687335	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	217	158687335	90563286	511	22862											
OR6K3	391114	broad.mit.edu	37	chr1	158687490	158687490	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagagttgagcacagagcCggggggtcatgatcatttga	11	8	15	7	1	2	5	2	3	0	2	2	6	2	5	1	3	2	2	1	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158687490C>A	uc010pip.1	-	1	464	c.464G>T	c.(463-465)CGG>CTG	p.R155L		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	155	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					AGCACAGAGCCGGGGGGTCAT	0.517													13	99					2.27111e-07	2.47899e-07	1	1	0		A	158687490	A	A	158687490	3	1	27	1	0	0	0	0	1	0	0	0	11222	652	23	5	533	5	OR6K3	1	158687490	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	155	158687490	90563131	512	22863											
OR6K6	128371	broad.mit.edu	37	chr1	158724839	158724839	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataatgttcattgtcatccaGgtgggcatggccctgcacac	9	11	10	11	0	2	0	2	0	0	0	3	0	3	0	2	3	1	3	2	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158724839G>T	uc001fsw.1	+	1	234	c.234G>T	c.(232-234)CAG>CAT	p.Q78H		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	78	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					TTGTCATCCAGGTGGGCATGG	0.478													39	141					6.97489e-18	7.80965e-18	1	1	0		T	158724839	T	T	158724839	3	4	27	1	0	0	0	0	1	0	0	0	11223	991	35	5	236	5	OR6K6	1	158724839	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	37349	158724839	90525782	513	22864											
IFI16	3428	broad.mit.edu	37	chr1	158986335	158986335	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttcagaaaagaaaaaaaTcaaccaaagaaaaggctgga	23	5	7	6	0	2	3	2	0	0	3	2	4	2	4	1	2	1	1	1	2	9	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:158986335T>C	uc001ftf.1	+	5	1001	c.394T>C	c.(394-396)TCA>CCA	p.S132P	IFI16_uc001ftg.2_Missense_Mutation_p.S132P|IFI16_uc010pis.1_Intron	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	132	Lys-rich.				cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					AAGAAAAAAATCAACCAAAGA	0.438													3	31					0	0	1	0	0		C	158986335	C	C	158986335	3	2	27	1	0	0	0	0	1	0	0	0	7527	1435	50	3	404	3	IFI16	1	158986335	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	261496	158986335	90264286	514	22865											
CRP	1401	broad.mit.edu	37	chr1	159683503	159683503	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactggcttccttcaaagtTcccaccgaaggaatcctgct	9	10	9	13	1	1	0	1	0	0	0	4	3	4	2	4	3	1	3	4	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:159683503T>A	uc001ftw.2	-	2	591	c.487A>T	c.(487-489)AAC>TAC	p.N163Y	CRP_uc001ftx.1_Intron|CRP_uc001fty.1_RNA	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	163	Pentaxin.				acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	CCTTCAAAGTTCCCACCGAAG	0.522													28	272					0	0	1	0	0		A	159683503	A	A	159683503	3	1	27	1	0	0	0	0	1	0	0	0	3898	1783	62	5	191	5	CRP	1	159683503	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	697168	159683503	89567118	515	22866											
FCRL6	343413	broad.mit.edu	37	chr1	159778831	159778831	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgaccctgagatgtcagAcaaagctgcaccccctgagg	10	7	12	12	0	1	4	1	3	0	2	1	5	1	4	3	2	2	2	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:159778831A>G	uc001fud.3	+	4	442	c.400A>G	c.(400-402)ACA>GCA	p.T134A	FCRL6_uc010pix.1_3'UTR|FCRL6_uc001fuc.2_Missense_Mutation_p.T141A|FCRL6_uc009wsz.1_Intron|FCRL6_uc009wta.2_Missense_Mutation_p.T134A	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	134	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					GAGATGTCAGACAAAGCTGCA	0.612													6	50					0	0	1	0	0		G	159778831	G	G	159778831	3	3	27	1	0	0	0	0	1	0	0	0	5813	275	10	3	414	3	FCRL6	1	159778831	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	95328	159778831	89471790	516	22867											
IGSF9	57549	broad.mit.edu	37	chr1	159901373	159901373	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgctgtccacctgggcctgGccttgcagcccccggcccac	3	8	11	19	1	0	0	0	0	0	0	1	0	1	0	7	3	3	2	7	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:159901373G>T	uc001fur.2	-	12	1581	c.1383C>A	c.(1381-1383)GGC>GGA	p.G461G	IGSF9_uc001fuq.2_Silent_p.G445G|IGSF9_uc001fup.2_5'UTR	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	461	Ig-like 5.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			CCTGGGCCTGGCCTTGCAGCC	0.657													6	31					0.0215528	0.0219246	1	1	0		T	159901373	T	T	159901373	2	4	27	1	0	0	0	0	0	0	0	1	7621	1190	42	5		5	IGSF9	1	159901373	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	122542	159901373	89349248	517	22868											
SLAMF9	89886	broad.mit.edu	37	chr1	159923322	159923322	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcaagacttttgtgagaGgaccagatgatgttctcaac	11	11	12	7	0	1	4	1	2	1	3	2	6	1	5	1	2	1	2	1	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:159923322G>T	uc001fus.2	-	2	285	c.168C>A	c.(166-168)TCC>TCA	p.S56S	SLAMF9_uc009wtd.2_Silent_p.S56S|SLAMF9_uc001fut.2_Silent_p.S56S	NM_033438	NP_254273	Q96A28	SLAF9_HUMAN	SLAM family member 9 isoform 1	56	Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TTTTGTGAGAGGACCAGATGA	0.542													5	79					0.184627	0.185716	1	1	0		T	159923322	T	T	159923322	2	4	27	1	0	0	0	0	0	0	0	1	14396	987	35	5		5	SLAMF9	1	159923322	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21949	159923322	89327299	518	22869											
PIGM	93183	broad.mit.edu	37	chr1	160001086	160001086	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaccagggaggcgacaatAgagtccgcattaccgcggct	11	5	14	11	4	0	1	0	0	0	1	1	4	1	3	3	4	1	2	3	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160001086A>G	uc001fuv.1	-	1	698	c.444T>C	c.(442-444)TCT>TCC	p.S148S		NM_145167	NP_660150	Q9H3S5	PIGM_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	148	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AGGCGACAATAGAGTCCGCAT	0.537													7	100					0	0	1	0	0		G	160001086	G	G	160001086	2	3	27	1	0	0	0	0	0	0	0	1	11911	407	15	3		3	PIGM	1	160001086	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	77764	160001086	89249535	519	22870											
KCNJ10	3766	broad.mit.edu	37	chr1	160012208	160012208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaatgtgctccattctcaCgttgctgcgaccatcttttg	6	14	9	12	2	2	0	1	0	2	0	4	1	3	0	2	1	3	4	2	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160012208C>T	uc001fuw.1	-	2	265	c.115G>A	c.(115-117)GTG>ATG	p.V39M		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	39	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCCATTCTCACGTTGCTGCGA	0.542													7	119					0	0	1	0	0		T	160012208	T	T	160012208	3	4	27	1	0	0	0	0	1	0	0	0	8060	536	19	1	1028	1	KCNJ10	1	160012208	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11122	160012208	89238413	520	22871											
ATP1A2	477	broad.mit.edu	37	chr1	160097375	160097375	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgtgattgccacaggagAccggacggtgatgggccgca	9	7	15	10	3	0	3	0	2	0	1	0	5	0	4	3	4	1	1	3	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160097375A>G	uc001fvc.2	+	8	914	c.782A>G	c.(781-783)GAC>GGC	p.D261G	ATP1A2_uc001fvb.2_Missense_Mutation_p.D261G|ATP1A2_uc010piz.1_Missense_Mutation_p.D106G|ATP1A2_uc001fvd.2_5'UTR|ATP1A2_uc009wtg.1_5'Flank	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	261	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GCCACAGGAGACCGGACGGTG	0.582													3	58					0	0	1	0	0		G	160097375	G	G	160097375	3	3	27	1	0	0	0	0	1	0	0	0	1130	275	10	3	812	3	ATP1A2	1	160097375	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	85167	160097375	89153246	521	22872											
ATP1A2	477	broad.mit.edu	37	chr1	160098618	160098618	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaccaaatccatgaggcTgacaccaccgaagatcagtc	15	5	8	13	1	1	3	1	2	0	1	3	5	2	3	4	1	1	1	4	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160098618T>C	uc001fvc.2	+	9	1326	c.1194T>C	c.(1192-1194)GCT>GCC	p.A398A	ATP1A2_uc001fvb.2_Silent_p.A398A|ATP1A2_uc010piz.1_Silent_p.A243A|ATP1A2_uc001fvd.2_Silent_p.A134A|ATP1A2_uc009wtg.1_Silent_p.A86A	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	398	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			TCCATGAGGCTGACACCACCG	0.597													5	61					0	0	1	0	0		C	160098618	C	C	160098618	2	2	27	1	0	0	0	0	0	0	0	1	1130	1567	55	3		3	ATP1A2	1	160098618	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1243	160098618	89152003	522	22873											
ATP1A2	477	broad.mit.edu	37	chr1	160099949	160099949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgtgctggtgatgaaggggGccccagagcgcattctggac	8	7	16	10	2	1	3	0	2	1	1	1	4	1	4	2	4	2	2	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160099949G>A	uc001fvc.2	+	12	1651	c.1519G>A	c.(1519-1521)GCC>ACC	p.A507T	ATP1A2_uc001fvb.2_Missense_Mutation_p.A507T|ATP1A2_uc001fvd.2_Missense_Mutation_p.A243T|ATP1A2_uc009wtg.1_Missense_Mutation_p.A195T	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	507	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GATGAAGGGGGCCCCAGAGCG	0.567													7	103					0	0	1	0	0		A	160099949	A	A	160099949	3	1	27	1	0	0	0	0	1	0	0	0	1130	1203	42	2	1565	2	ATP1A2	1	160099949	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1331	160099949	89150672	523	22874											
CASQ1	844	broad.mit.edu	37	chr1	160164845	160164845	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgaaggtgaacgagagcTgcaggcgtttgagaatattg	12	10	15	4	2	0	4	0	3	0	2	0	7	0	4	0	2	3	3	0	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160164845T>C	uc010pja.1	+	4	766	c.509T>C	c.(508-510)CTG>CCG	p.L170P		NM_001231	NP_001222	P31415	CASQ1_HUMAN	calsequestrin 1	170						mitochondrial matrix|sarcoplasmic reticulum lumen|smooth endoplasmic reticulum	calcium ion binding			central_nervous_system(1)	1	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GAACGAGAGCTGCAGGCGTTT	0.483													5	81					0	0	1	0	0		C	160164845	C	C	160164845	3	2	27	1	0	0	0	0	1	0	0	0	2683	1580	55	3	523	3	CASQ1	1	160164845	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	64896	160164845	89085776	524	22875											
DCAF8	50717	broad.mit.edu	37	chr1	160187442	160187442	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtccgatgtgtctgaggaGctgggagactcatcagagtc	8	10	14	9	2	3	3	2	1	1	2	6	6	4	4	1	2	1	1	1	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160187442G>A	uc001fvo.2	-	14	2046	c.1734C>T	c.(1732-1734)AGC>AGT	p.S578S	DCAF8_uc001fvn.2_Silent_p.S578S|DCAF8_uc009wth.2_Silent_p.S578S|DCAF8_uc010pjb.1_Silent_p.S578S|DCAF8_uc010pjc.1_Silent_p.S732S	NM_015726	NP_056541	Q5TAQ9	DCAF8_HUMAN	DDB1 and CUL4 associated factor 8	578						CUL4 RING ubiquitin ligase complex	protein binding			skin(2)	2						TGTCTGAGGAGCTGGGAGACT	0.612													13	44					0	0	1	0	0		A	160187442	A	A	160187442	2	1	27	1	0	0	0	0	0	0	0	1	4279	962	34	2		2	DCAF8	1	160187442	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	22597	160187442	89063179	525	22876											
COPA	1314	broad.mit.edu	37	chr1	160261161	160261161	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcttgggcccgagttctagTaggcgccgagcaaaggtggc	7	7	17	10	3	1	0	0	0	1	0	1	2	1	0	2	5	1	4	2	5	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160261161T>C	uc009wti.2	-	31	3778	c.3384A>G	c.(3382-3384)CTA>CTG	p.L1128L	COPA_uc001fvv.3_Silent_p.L1137L	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	1128					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CGAGTTCTAGTAGGCGCCGAG	0.552											OREG0013929	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	97					0	0	1	0	0		C	160261161	C	C	160261161	2	2	27	1	0	0	0	0	0	0	0	1	3730	1625	57	3		3	COPA	1	160261161	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	73719	160261161	88989460	526	22877											
COPA	1314	broad.mit.edu	37	chr1	160264607	160264607	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagccctctgtaccaacAgtgtcaatgtcaatgtcagc	10	9	7	15	0	4	0	3	0	1	0	4	0	4	0	4	0	4	1	4	0	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160264607A>G	uc009wti.2	-	24	2911	c.2517T>C	c.(2515-2517)ACT>ACC	p.T839T	COPA_uc001fvv.3_Silent_p.T848T	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	839					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CTGTACCAACAGTGTCAATGT	0.512													6	107					0	0	1	0	0		G	160264607	G	G	160264607	2	3	27	1	0	0	0	0	0	0	0	1	3730	175	7	3		3	COPA	1	160264607	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3446	160264607	88986014	527	22878											
COPA	1314	broad.mit.edu	37	chr1	160268779	160268779	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcattcctcaccatgtgcagTacctagacatttggggtgga	9	11	11	10	0	1	1	1	0	0	1	2	2	2	2	3	3	2	3	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160268779T>C	uc009wti.2	-	19	2227	c.1833A>G	c.(1831-1833)GTA>GTG	p.V611V	COPA_uc001fvv.3_Silent_p.V620V	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	611					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CCATGTGCAGTACCTAGACAT	0.433													13	113					0	0	1	0	0		C	160268779	C	C	160268779	2	2	27	1	0	0	0	0	0	0	0	1	3730	1625	57	3		3	COPA	1	160268779	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4172	160268779	88981842	528	22879											
NCSTN	23385	broad.mit.edu	37	chr1	160322757	160322757	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgcagttagagaatgtTgactcatttgtggagctggg	8	12	14	7	1	1	2	1	1	0	1	1	4	1	3	1	2	2	4	1	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160322757T>C	uc001fvx.2	+	9	1201	c.1077T>C	c.(1075-1077)GTT>GTC	p.V359V	NCSTN_uc001fvy.2_Silent_p.V339V|NCSTN_uc010pjf.1_Silent_p.V221V|NCSTN_uc001fvz.2_Silent_p.V139V|NCSTN_uc010pjg.1_Silent_p.V101V	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	359	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TAGAGAATGTTGACTCATTTG	0.478													5	48					0	0	1	0	0		C	160322757	C	C	160322757	2	2	27	1	0	0	0	0	0	0	0	1	10260	1799	63	3		3	NCSTN	1	160322757	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53978	160322757	88927864	529	22880											
SLAMF1	6504	broad.mit.edu	37	chr1	160607140	160607140	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagataacgtggagggcctgCttcggatggatcaagagaca	12	8	14	7	2	1	2	1	0	0	2	2	6	1	5	1	4	2	1	1	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160607140C>T	uc001fwl.3	-	2	602	c.256G>A	c.(256-258)GCA>ACA	p.A86T	SLAMF1_uc010pjk.1_RNA|SLAMF1_uc010pjl.1_RNA|SLAMF1_uc010pjm.1_RNA|SLAMF1_uc001fwm.2_Missense_Mutation_p.A86T	NM_003037	NP_003028	Q13291	SLAF1_HUMAN	signaling lymphocytic activation molecule family	86	Extracellular (Potential).				interspecies interaction between organisms|lymphocyte activation|positive regulation of cell proliferation	integral to membrane	antigen binding|transmembrane receptor activity			ovary(1)|breast(1)	2	all_cancers(52;4.94e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			GGAGGGCCTGCTTCGGATGGA	0.463													11	90					0	0	1	0	0		T	160607140	T	T	160607140	3	4	27	1	0	0	0	0	1	0	0	0	14392	797	28	2	775	2	SLAMF1	1	160607140	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	284383	160607140	88643481	530	22881											
CD48	962	broad.mit.edu	37	chr1	160654897	160654897	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagtataaaaccaggttagTtgtttgtagttctcaggcag	13	13	10	5	0	1	0	1	0	1	0	2	0	1	0	1	2	1	7	1	2	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160654897T>C	uc001fwn.2	-	2	197	c.165A>G	c.(163-165)CAA>CAG	p.Q55Q	CD48_uc001fwo.1_Silent_p.Q55Q|CD48_uc001fwp.2_Silent_p.Q55Q	NM_001778	NP_001769	P09326	CD48_HUMAN	CD48 molecule precursor	55	Ig-like C2-type 1.				blood coagulation|defense response|leukocyte migration	integral to plasma membrane|membrane raft	protein binding				0	all_cancers(52;2.18e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			ACCAGGTTAGTTGTTTGTAGT	0.433													6	49					0	0	1	0	0		C	160654897	C	C	160654897	2	2	27	1	0	0	0	0	0	0	0	1	3023	1722	60	3		3	CD48	1	160654897	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47757	160654897	88595724	531	22882											
SLAMF7	57823	broad.mit.edu	37	chr1	160718142	160718142	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagggggcactatcataGtgacccaaaatcgtaatagg	15	7	11	8	1	1	2	1	1	0	1	2	2	1	2	1	3	0	2	1	3	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160718142G>T	uc001fwq.2	+	2	229	c.214G>T	c.(214-216)GTG>TTG	p.V72L	SLAMF7_uc010pjn.1_Intron|SLAMF7_uc001fws.2_Intron|SLAMF7_uc001fwr.2_Missense_Mutation_p.V72L|SLAMF7_uc010pjo.1_Missense_Mutation_p.V72L|SLAMF7_uc010pjp.1_Intron|SLAMF7_uc010pjq.1_Missense_Mutation_p.V72L|SLAMF7_uc010pjr.1_Intron	NM_021181	NP_067004	Q9NQ25	SLAF7_HUMAN	SLAM family member 7	72	Extracellular (Potential).				cell adhesion|natural killer cell activation|natural killer cell mediated cytotoxicity	integral to membrane	receptor activity			skin(2)|ovary(1)	3	all_cancers(52;2.63e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			CACTATCATAGTGACCCAAAA	0.468													5	51					1.23904e-05	1.32877e-05	1	1	0		T	160718142	T	T	160718142	3	4	27	1	0	0	0	0	1	0	0	0	14394	1029	36	5	220	5	SLAMF7	1	160718142	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	63245	160718142	88532479	532	22883											
ITLN1	55600	broad.mit.edu	37	chr1	160850383	160850383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcattaaagactcacgctggCcatagggtgagtaataagat	14	10	10	7	1	2	3	2	1	0	2	2	3	2	3	1	2	0	2	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:160850383C>T	uc001fxc.2	-	6	796	c.680G>A	c.(679-681)GGC>GAC	p.G227D		NM_017625	NP_060095	Q8WWA0	ITLN1_HUMAN	intelectin precursor	227	Fibrinogen C-terminal.				positive regulation of glucose import|positive regulation of protein phosphorylation|response to nematode|signal transduction	anchored to membrane|brush border membrane|extracellular region|membrane raft	receptor binding|sugar binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)	7	all_cancers(52;2.99e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			CTCACGCTGGCCATAGGGTGA	0.468													20	227					0	0	1	0	0		T	160850383	T	T	160850383	3	4	27	1	0	0	0	0	1	0	0	0	7926	739	26	2	273	2	ITLN1	1	160850383	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	132241	160850383	88400238	533	22884											
USF1	7391	broad.mit.edu	37	chr1	161009746	161009746	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgacgacctctaatccGtggtgccgcaactgagctcg	8	10	11	12	4	1	3	0	3	1	0	3	4	2	3	3	1	3	2	3	1	2	2	rs146372368		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:161009746G>A	uc001fxi.2	-	11	1092	c.897C>T	c.(895-897)CAC>CAT	p.H299H	F11R_uc010pjw.1_5'Flank|F11R_uc001fxf.3_5'Flank|TSTD1_uc010pjx.1_5'Flank|TSTD1_uc009wtw.2_5'Flank|TSTD1_uc001fxh.3_5'Flank|USF1_uc001fxj.2_Silent_p.H240H	NM_007122	NP_009053	P22415	USF1_HUMAN	upstream stimulatory factor 1 isoform 1	299					cellular response to insulin stimulus|glucose homeostasis|late viral mRNA transcription|lipid homeostasis|positive regulation of transcription from RNA polymerase II promoter by glucose|response to hypoxia|response to UV	transcription factor complex	bHLH transcription factor binding|histone deacetylase binding|protein heterodimerization activity|protein homodimerization activity|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(52;6.73e-18)|Breast(13;0.012)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			CCTCTAATCCGTGGTGCCGCA	0.502													11	66					0	0	1	0	0		A	161009746	A	A	161009746	2	1	27	1	0	0	0	0	0	0	0	1	17058	1136	40	1		1	USF1	1	161009746	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	159363	161009746	88240875	534	22885											
PPOX	5498	broad.mit.edu	37	chr1	161137170	161137170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggagagcaggtttctgagCttggcttggattcagaagtg	8	12	16	5	0	2	3	1	1	1	2	2	5	2	4	0	4	2	4	0	4	1	4	rs78028107		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:161137170C>T	uc001fyj.2	+	4	522	c.232C>T	c.(232-234)CTT>TTT	p.L78F	PPOX_uc001fyn.2_Intron|PPOX_uc001fyg.2_Missense_Mutation_p.L78F|PPOX_uc001fyl.2_Missense_Mutation_p.L44F|PPOX_uc001fym.2_RNA|PPOX_uc001fyk.2_5'UTR|PPOX_uc001fyh.2_5'UTR|PPOX_uc010pkg.1_5'UTR|PPOX_uc009wuc.1_5'UTR|PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_5'UTR	NM_001122764	NP_001116236	P50336	PPOX_HUMAN	protoporphyrinogen oxidase	78					heme biosynthetic process	intrinsic to mitochondrial inner membrane|mitochondrial intermembrane space	flavin adenine dinucleotide binding|oxygen-dependent protoporphyrinogen oxidase activity			ovary(1)	1	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GGTTTCTGAGCTTGGCTTGGA	0.562									Porphyria_Variegata				4	62					0	0	1	0	0		T	161137170	T	T	161137170	3	4	27	1	0	0	0	0	1	0	0	0	12370	797	28	2	242	2	PPOX	1	161137170	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	127424	161137170	88113451	535	22886											
NR1I3	9970	broad.mit.edu	37	chr1	161201198	161201198	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacagaaagtggtattgagTacgatgtgacagatttccac	14	10	11	6	1	0	5	0	2	0	3	1	6	1	5	1	1	1	2	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:161201198T>C	uc001fzx.2	-	6	818	c.615A>G	c.(613-615)GTA>GTG	p.V205V	TOMM40L_uc009wuf.1_Intron|NR1I3_uc001fzf.2_Silent_p.V205V|NR1I3_uc001fzg.2_Silent_p.V176V|NR1I3_uc001fzh.2_Silent_p.V176V|NR1I3_uc001fzi.2_Silent_p.V176V|NR1I3_uc001fzj.2_Silent_p.V176V|NR1I3_uc001fzk.2_Silent_p.V176V|NR1I3_uc001fzl.2_Silent_p.V176V|NR1I3_uc001fzm.2_Silent_p.V130V|NR1I3_uc001fzn.2_Silent_p.V38V|NR1I3_uc009wug.2_Silent_p.V38V|NR1I3_uc001fzp.2_Silent_p.V205V|NR1I3_uc001fzo.2_Silent_p.V38V|NR1I3_uc001fzq.2_Missense_Mutation_p.Y102C|NR1I3_uc001fzr.2_Missense_Mutation_p.Y102C|NR1I3_uc001fzs.2_Silent_p.V38V|NR1I3_uc001fzt.2_Silent_p.V38V|NR1I3_uc001fzu.2_Missense_Mutation_p.Y73C|NR1I3_uc001fzv.2_Missense_Mutation_p.Y73C|NR1I3_uc001fzw.2_Silent_p.V205V|NR1I3_uc001fzy.2_Silent_p.V205V|NR1I3_uc001fzz.2_Silent_p.V205V|NR1I3_uc001gaa.2_Silent_p.V205V|NR1I3_uc001gab.2_Silent_p.V205V|NR1I3_uc001gac.2_Silent_p.V176V|NR1I3_uc010pkm.1_Silent_p.V176V|NR1I3_uc010pkn.1_Silent_p.V205V	NM_001077480	NP_001070948	Q14994	NR1I3_HUMAN	constitutive androstane receptor isoform 2	205					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	androgen receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(1)|skin(1)	2	all_cancers(52;1.86e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			TGGTATTGAGTACGATGTGAC	0.483													10	81					0	0	1	0	0		C	161201198	C	C	161201198	2	2	27	1	0	0	0	0	0	0	0	1	10640	1625	57	3		3	NR1I3	1	161201198	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	64028	161201198	88049423	536	22887											
NR1I3	9970	broad.mit.edu	37	chr1	161203072	161203072	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgcacaggtgtttgctgtgCccgccgctgggcctgctttg	2	13	14	12	2	0	0	0	0	0	0	0	0	0	0	3	2	4	5	3	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:161203072C>T	uc001fzx.2	-	4	498	c.295G>A	c.(295-297)GCA>ACA	p.A99T	TOMM40L_uc009wuf.1_Intron|NR1I3_uc001fzf.2_Missense_Mutation_p.A99T|NR1I3_uc001fzg.2_Missense_Mutation_p.A70T|NR1I3_uc001fzh.2_Missense_Mutation_p.A70T|NR1I3_uc001fzi.2_Missense_Mutation_p.A70T|NR1I3_uc001fzj.2_Missense_Mutation_p.A70T|NR1I3_uc001fzk.2_Missense_Mutation_p.A70T|NR1I3_uc001fzl.2_Missense_Mutation_p.A70T|NR1I3_uc001fzm.2_Missense_Mutation_p.A24T|NR1I3_uc001fzn.2_Intron|NR1I3_uc009wug.2_5'UTR|NR1I3_uc001fzp.2_Missense_Mutation_p.A99T|NR1I3_uc001fzo.2_Intron|NR1I3_uc001fzq.2_Intron|NR1I3_uc001fzr.2_Intron|NR1I3_uc001fzs.2_Intron|NR1I3_uc001fzt.2_Intron|NR1I3_uc001fzu.2_Intron|NR1I3_uc001fzv.2_Intron|NR1I3_uc001fzw.2_Missense_Mutation_p.A99T|NR1I3_uc001fzy.2_Missense_Mutation_p.A99T|NR1I3_uc001fzz.2_Missense_Mutation_p.A99T|NR1I3_uc001gaa.2_Missense_Mutation_p.A99T|NR1I3_uc001gab.2_Missense_Mutation_p.A99T|NR1I3_uc001gac.2_Missense_Mutation_p.A70T|NR1I3_uc010pkm.1_Missense_Mutation_p.A70T|NR1I3_uc010pkn.1_Missense_Mutation_p.A99T	NM_001077480	NP_001070948	Q14994	NR1I3_HUMAN	constitutive androstane receptor isoform 2	99					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	androgen receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(1)|skin(1)	2	all_cancers(52;1.86e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			GTTTGCTGTGCCCGCCGCTGG	0.582													12	59					0	0	1	0	0		T	161203072	T	T	161203072	3	4	27	1	0	0	0	0	1	0	0	0	10640	739	26	2	897	2	NR1I3	1	161203072	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1874	161203072	88047549	537	22888											
HSPA6	3310	broad.mit.edu	37	chr1	161495350	161495350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctacacgtccatcactcGtgcccgctttgaggaactgt	7	12	8	14	3	2	1	1	1	1	0	4	2	3	2	2	1	3	1	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:161495350G>A	uc001gap.2	+	2	1562	c.902G>A	c.(901-903)CGT>CAT	p.R301H	HSPA6_uc001gaq.2_Missense_Mutation_p.R301H	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	301					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			TCCATCACTCGTGCCCGCTTT	0.632													5	24					0	0	1	0	0		A	161495350	A	A	161495350	3	1	27	1	0	0	0	0	1	0	0	0	7431	1145	40	1	904	1	HSPA6	1	161495350	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	292278	161495350	87755271	538	22889											
HSPA6	3310	broad.mit.edu	37	chr1	161495882	161495882	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggagtcccccagatagaggtGacttttgacattgatgctaa	11	11	11	8	0	0	5	0	3	0	2	1	6	1	6	2	2	1	1	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:161495882G>A	uc001gap.2	+	2	2094	c.1434G>A	c.(1432-1434)GTG>GTA	p.V478V	HSPA6_uc001gaq.2_Silent_p.V478V	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	478					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			AGATAGAGGTGACTTTTGACA	0.552													5	55					0	0	1	0	0		A	161495882	A	A	161495882	2	1	27	1	0	0	0	0	0	0	0	1	7431	1277	45	4		4	HSPA6	1	161495882	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	532	161495882	87754739	539	22890											
FCGR3B	2215	broad.mit.edu	37	chr1	161599765	161599765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacttcagagtcacactgTccttctcaagcacgctgtac	9	10	8	14	1	3	1	3	0	1	1	5	1	4	1	1	1	2	4	1	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:161599765T>C	uc009wul.2	-	3	396	c.122A>G	c.(121-123)GAC>GGC	p.D41G		NM_000570	NP_000561	O75015	FCG3B_HUMAN	low affinity immunoglobulin gamma Fc region	41	Ig-like C2-type 1.				immune response	anchored to membrane|extracellular region|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	AGTCACACTGTCCTTCTCAAG	0.542													8	60					0	0	1	0	0		C	161599765	C	C	161599765	3	2	27	1	0	0	0	0	1	0	0	0	5799	1667	58	3	591	3	FCGR3B	1	161599765	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	103883	161599765	87650856	540	22891											
FCRLB	127943	broad.mit.edu	37	chr1	161697222	161697222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggcgccccgactgcggggCcacccgcctgcgctccgccg	2	3	15	21	8	0	0	0	0	0	0	1	1	1	0	7	3	2	1	7	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:161697222C>T	uc001gbh.2	+	8	1285	c.1051C>T	c.(1051-1053)CCA>TCA	p.P351S	FCRLB_uc009wus.2_Missense_Mutation_p.P351S|FCRLB_uc001gbj.2_Silent_p.G302G|FCRLB_uc001gbk.2_3'UTR|FCRLB_uc001gbl.2_Silent_p.G295G|FCRLB_uc001gbm.2_3'UTR|FCRLB_uc001gbi.2_Missense_Mutation_p.P351S|FCRLB_uc001gbn.3_3'UTR	NM_001002901	NP_001002901	Q6BAA4	FCRLB_HUMAN	Fc receptor-like B	351						endoplasmic reticulum					0	all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00634)			GACTGCGGGGCCACCCGCCTG	0.682													5	47					0	0	1	0	0		T	161697222	T	T	161697222	3	4	27	1	0	0	0	0	1	0	0	0	5815	739	26	2	1073	2	FCRLB	1	161697222	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	97457	161697222	87553399	541	22892											
ATF6	22926	broad.mit.edu	37	chr1	161789480	161789480	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgagaatccgcttgtcagTctcgcaagaagaagaaagaa	16	7	10	8	3	2	5	1	0	1	5	5	6	3	5	1	0	0	2	1	0	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:161789480T>A	uc001gbr.2	+	8	1034	c.967T>A	c.(967-969)TCT>ACT	p.S323T	ATF6_uc001gbq.1_Missense_Mutation_p.S323T	NM_007348	NP_031374	P18850	ATF6A_HUMAN	activating transcription factor 6	323	Basic motif.|Cytoplasmic (Potential).				positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response|protein folding	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|skin(1)	3	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.00953)			CGCTTGTCAGTCTCGCAAGAA	0.383													6	70					0	0	1	0	0		A	161789480	A	A	161789480	3	1	27	1	0	0	0	0	1	0	0	0	1085	1667	58	5	997	5	ATF6	1	161789480	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	92258	161789480	87461141	542	22893											
OLFML2B	25903	broad.mit.edu	37	chr1	161954054	161954054	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtacgggagcttgtaggaaTtgctccagcgacctgcaggt	8	10	14	9	2	0	0	0	0	0	0	1	3	1	2	2	3	5	5	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:161954054T>A	uc001gbu.2	-	8	2088	c.1664A>T	c.(1663-1665)AAT>ATT	p.N555I	OLFML2B_uc001gbt.2_Missense_Mutation_p.N38I|OLFML2B_uc010pkq.1_Missense_Mutation_p.N556I	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	555	Olfactomedin-like.									skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			CTTGTAGGAATTGCTCCAGCG	0.547													6	49					0	0	1	0	0		A	161954054	A	A	161954054	3	1	27	1	0	0	0	0	1	0	0	0	10877	1493	52	5	592	5	OLFML2B	1	161954054	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	164574	161954054	87296567	543	22894											
NOS1AP	9722	broad.mit.edu	37	chr1	162313640	162313640	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagagccaagctatgagaAtcgttcggacggtggggcag	10	6	15	10	3	0	2	0	1	0	2	2	4	0	3	2	4	2	3	2	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:162313640A>G	uc001gbv.2	+	6	856	c.469A>G	c.(469-471)ATC>GTC	p.I157V	NOS1AP_uc010pkr.1_Missense_Mutation_p.I152V|NOS1AP_uc010pks.1_RNA|NOS1AP_uc001gbw.2_Missense_Mutation_p.I152V	NM_014697	NP_055512	O75052	CAPON_HUMAN	nitric oxide synthase 1 (neuronal) adaptor	157	PID.				regulation of apoptosis|regulation of nitric oxide biosynthetic process|regulation of nitric-oxide synthase activity		nitric-oxide synthase binding|PDZ domain binding			lung(2)|upper_aerodigestive_tract(1)	3	all_hematologic(112;0.203)		BRCA - Breast invasive adenocarcinoma(70;0.0537)			AGCTATGAGAATCGTTCGGAC	0.552													10	78					0	0	1	0	0		G	162313640	G	G	162313640	3	3	27	1	0	0	0	0	1	0	0	0	10561	101	4	3	491	3	NOS1AP	1	162313640	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	359586	162313640	86936981	544	22895											
UHMK1	127933	broad.mit.edu	37	chr1	162469877	162469877	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggttgttccatgtggaTgatacagcattgtgcccgag	8	11	13	9	1	0	1	0	1	0	0	1	3	1	2	3	2	3	3	3	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:162469877T>C	uc001gcc.1	+	2	537	c.401T>C	c.(400-402)ATG>ACG	p.M134T	UHMK1_uc001gcb.1_Missense_Mutation_p.M60T|UHMK1_uc009wuu.1_Missense_Mutation_p.M134T	NM_175866	NP_787062	Q8TAS1	UHMK1_HUMAN	kinase interacting stathmin	134	Protein kinase.				cell cycle arrest|neuron projection development|peptidyl-serine phosphorylation|positive regulation of translational initiation|protein autophosphorylation|regulation of protein export from nucleus	axon|dendrite cytoplasm|neuronal RNA granule|nucleus	protein binding|protein serine/threonine kinase activity|ribonucleoprotein binding|RNA binding				0	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			TCCATGTGGATGATACAGCAT	0.473													9	100					0	0	1	0	0		C	162469877	C	C	162469877	3	2	27	1	0	0	0	0	1	0	0	0	16992	1464	51	3	457	3	UHMK1	1	162469877	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	156237	162469877	86780744	545	22896											
DDR2	4921	broad.mit.edu	37	chr1	162748426	162748426	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggttactttgtgggagacTttcaccttttgtcaagaaca	9	14	11	7	0	2	2	2	0	0	2	2	3	2	2	1	3	2	1	1	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:162748426T>C	uc001gcf.2	+	18	2805	c.2340T>C	c.(2338-2340)ACT>ACC	p.T780T	DDR2_uc001gcg.2_Silent_p.T780T	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	780	Cytoplasmic (Potential).|Protein kinase.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			TGTGGGAGACTTTCACCTTTT	0.443													4	148					0	0	1	0	0		C	162748426	C	C	162748426	2	2	27	1	0	0	0	0	0	0	0	1	4340	1596	56	3		3	DDR2	1	162748426	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	278549	162748426	86502195	546	22897											
HSD17B7	51478	broad.mit.edu	37	chr1	162766377	162766377	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggtggtttacttgcaggtTtcagagattagactgtatat	9	17	11	4	0	1	2	1	0	0	2	1	3	1	2	0	3	2	4	0	3	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:162766377T>G	uc001gci.2	+	3	337	c.242T>G	c.(241-243)TTT>TGT	p.F81C	HSD17B7_uc009wuv.2_RNA	NM_016371	NP_057455	P56937	DHB7_HUMAN	hydroxysteroid (17-beta) dehydrogenase 7	81	Extracellular (Potential).				cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	3-keto sterol reductase activity|estradiol 17-beta-dehydrogenase activity			ovary(1)	1	all_hematologic(112;0.115)				NADH(DB00157)	ACTTGCAGGTTTCAGAGATTA	0.373													7	72					0	0	1	0	0		G	162766377	G	G	162766377	3	3	27	1	0	0	0	0	1	0	0	0	7404	1841	64	5	252	5	HSD17B7	1	162766377	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	17951	162766377	86484244	547	22898											
RGS5	8490	broad.mit.edu	37	chr1	163117247	163117247	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctcagggaaggttccAccaggttcttcattgtgatg	8	12	12	9	0	3	1	2	1	1	0	4	2	4	2	2	3	2	4	2	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:163117247A>C	uc001gcn.2	-	5	678	c.431T>G	c.(430-432)GTG>GGG	p.V144G	RGS5_uc009wvb.2_RNA	NM_003617	NP_003608	O15539	RGS5_HUMAN	regulator of G-protein signalling 5	144	RGS.				negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity				0			LUSC - Lung squamous cell carcinoma(543;0.187)			GGAAGGTTCCACCAGGTTCTT	0.458													11	95					0	0	1	0	0		C	163117247	C	C	163117247	3	2	27	1	0	0	0	0	1	0	0	0	13333	159	6	5	118	5	RGS5	1	163117247	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	350870	163117247	86133374	548	22899											
LMX1A	4009	broad.mit.edu	37	chr1	165173127	165173127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggaagactcaagatgtgAagtaagaattctgcatggag	15	8	14	4	0	2	4	1	1	1	3	2	6	2	6	0	3	1	2	0	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:165173127A>G	uc001gcy.1	-	8	1360	c.1139T>C	c.(1138-1140)TTC>TCC	p.F380S	LMX1A_uc001gcz.1_Missense_Mutation_p.F380S|LMX1A_uc001gcw.1_Missense_Mutation_p.F98S|LMX1A_uc001gcx.1_Missense_Mutation_p.F131S	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	380						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					TCAAGATGTGAAGTAAGAATT	0.502													3	79					0	0	1	0	0		G	165173127	G	G	165173127	3	3	27	1	0	0	0	0	1	0	0	0	8878	246	9	3	13	3	LMX1A	1	165173127	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2055880	165173127	84077494	549	22900											
POGK	57645	broad.mit.edu	37	chr1	166818552	166818552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagcttcaaaacgcccacGccatgcggcgggcattccga	10	5	10	16	5	1	0	1	0	0	0	2	1	2	0	3	2	3	2	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:166818552G>A	uc001gdt.1	+	5	856	c.736G>A	c.(736-738)GCC>ACC	p.A246T	POGK_uc010ple.1_Missense_Mutation_p.A161T|POGK_uc010plf.1_Missense_Mutation_p.A128T	NM_017542	NP_060012	Q9P215	POGK_HUMAN	pogo transposable element with KRAB domain	246					multicellular organismal development|regulation of transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						AAACGCCCACGCCATGCGGCG	0.557													7	48					0	0	1	0	0		A	166818552	A	A	166818552	3	1	27	1	0	0	0	0	1	0	0	0	12204	1087	38	1	750	1	POGK	1	166818552	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1645425	166818552	82432069	550	22901											
POGK	57645	broad.mit.edu	37	chr1	166818591	166818591	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggccccaagaatgggaggTttgctctggtggaccagcgt	8	8	16	9	1	1	1	0	0	1	1	1	4	1	3	3	5	2	2	3	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:166818591T>C	uc001gdt.1	+	5	895	c.775T>C	c.(775-777)TTT>CTT	p.F259L	POGK_uc010ple.1_Missense_Mutation_p.F174L|POGK_uc010plf.1_Missense_Mutation_p.F141L	NM_017542	NP_060012	Q9P215	POGK_HUMAN	pogo transposable element with KRAB domain	259	HTH CENPB-type.				multicellular organismal development|regulation of transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						GAATGGGAGGTTTGCTCTGGT	0.562													3	46					0	0	1	0	0		C	166818591	C	C	166818591	3	2	27	1	0	0	0	0	1	0	0	0	12204	1725	60	3	789	3	POGK	1	166818591	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	39	166818591	82432030	551	22902											
ILDR2	387597	broad.mit.edu	37	chr1	166908749	166908749	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagagttaaatgaccgaatAcctggcataatctccacagc	16	8	7	10	1	1	2	0	1	1	1	2	3	1	2	3	1	2	2	3	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:166908749A>G	uc001gdx.1	-	4	612	c.556_splice	c.e4+1	p.E186_splice		NM_199351	NP_955383	Q71H61	ILDR2_HUMAN	immunoglobulin-like domain containing receptor							integral to membrane				ovary(1)	1						ATGACCGAATACCTGGCATAA	0.408													3	72					0	0	1	0	0		G	166908749	G	G	166908749	5	3	27	1	0	0	0	0	0	0	1	0	7726	405	14	3	1389	3	ILDR2	1	166908749	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	90158	166908749	82341872	552	22903											
MAEL	84944	broad.mit.edu	37	chr1	166962057	166962057	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaaggtattatggcagatTtccacagttttataaatcct	14	14	7	6	0	0	2	0	0	0	2	2	2	2	2	2	2	0	3	2	2	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:166962057T>C	uc001gdy.1	+	4	531	c.460T>C	c.(460-462)TTC>CTC	p.F154L	MAEL_uc001gdz.1_Missense_Mutation_p.F123L|MAEL_uc009wvf.1_RNA	NM_032858	NP_116247	Q96JY0	MAEL_HUMAN	maelstrom homolog	154					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|multicellular organismal development|piRNA metabolic process|spermatogenesis	piP-body	DNA binding			skin(1)	1						TATGGCAGATTTCCACAGTTT	0.363													6	94					0	0	1	0	0		C	166962057	C	C	166962057	3	2	27	1	0	0	0	0	1	0	0	0	9172	1841	64	3	474	3	MAEL	1	166962057	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53308	166962057	82288564	553	22904											
ADCY10	55811	broad.mit.edu	37	chr1	167844425	167844425	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacgccataccaaacatgCtgaagagaagaacaaaagaa	20	3	9	9	1	0	4	0	1	0	3	0	5	0	4	2	1	4	2	2	1	8	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:167844425C>A	uc001ger.2	-	13	1705	c.1407_splice	c.e13-1	p.V469_splice	ADCY10_uc009wvk.2_Splice_Site_p.V377_splice|ADCY10_uc010plj.1_Splice_Site_p.V316_splice|ADCY10_uc009wvl.2_Splice_Site_p.V468_splice	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10						intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						ACCAAACATGCTGAAGAGAAG	0.368													6	57					8.12818e-05	8.61523e-05	1	1	0		A	167844425	A	A	167844425	5	1	27	1	0	0	0	0	0	0	1	0	293	811	28	5	3510	5	ADCY10	1	167844425	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	882368	167844425	81406196	554	22905											
TBX19	9095	broad.mit.edu	37	chr1	168250426	168250426	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttcaggcagggagggaaaAaggcgaccctacggagaagc	13	3	16	9	2	1	1	1	0	0	1	1	5	1	3	1	5	2	2	1	5	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:168250426A>C	uc001gfl.2	+	1	149	c.98A>C	c.(97-99)AAA>ACA	p.K33T	TBX19_uc001gfj.3_Intron	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	33					anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					GGGAGGGAAAAAGGCGACCCT	0.522													6	77					0	0	1	0	0		C	168250426	C	C	168250426	3	2	27	1	0	0	0	0	1	0	0	0	15679	14	1	5	100	5	TBX19	1	168250426	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	406001	168250426	81000195	555	22906											
TBX19	9095	broad.mit.edu	37	chr1	168278029	168278029	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaagttttctcgggaccTgacagctggacttccttatc	7	13	9	12	1	1	1	0	1	1	0	4	3	2	3	2	2	2	3	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:168278029T>C	uc001gfl.2	+	7	1017	c.966T>C	c.(964-966)CCT>CCC	p.P322P	TBX19_uc001gfj.3_Silent_p.P190P|TBX19_uc001gfm.2_Silent_p.P25P	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	322					anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					TCTCGGGACCTGACAGCTGGA	0.463													6	98					0	0	1	0	0		C	168278029	C	C	168278029	2	2	27	1	0	0	0	0	0	0	0	1	15679	1567	55	3		3	TBX19	1	168278029	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	27603	168278029	80972592	556	22907											
C1orf114	57821	broad.mit.edu	37	chr1	169366587	169366587	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctcttcgtgctttttttTaagccataatcgaaaagctt	9	17	6	9	2	1	0	0	0	1	0	3	1	1	0	1	0	4	3	1	0	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:169366587T>A	uc001gga.1	-	5	1426	c.1258A>T	c.(1258-1260)AAA>TAA	p.K420*	C1orf114_uc001gfz.1_Nonsense_Mutation_p.K419*|C1orf114_uc009wvq.1_Nonsense_Mutation_p.K419*	NM_021179	NP_067002	Q5TID7	CA114_HUMAN	hypothetical protein LOC57821	420											0	all_hematologic(923;0.208)					TGCTTTTTTTTAAGCCATAAT	0.363													9	46					0	0	1	0	0		A	169366587	A	A	169366587	4	1	27	1	0	0	0	0	0	1	0	0	1990	1763	61	5	279	5	C1orf114	1	169366587	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1088558	169366587	79884034	557	22908											
SLC19A2	10560	broad.mit.edu	37	chr1	169435124	169435124	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaacttgattgtggatctTccagctttctacatttcttc	8	17	7	9	0	3	2	0	1	3	1	5	4	4	3	1	1	3	1	1	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:169435124T>C	uc001gge.3	-	6	1661	c.1457A>G	c.(1456-1458)GAA>GGA	p.E486G	SLC19A2_uc001ggf.3_Missense_Mutation_p.E285G	NM_006996	NP_008927	O60779	S19A2_HUMAN	solute carrier family 19, member 2	486	Cytoplasmic (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|folic acid transporter activity|reduced folate carrier activity|thiamine uptake transmembrane transporter activity				0	all_hematologic(923;0.208)					TTGTGGATCTTCCAGCTTTCT	0.423													6	62					0	0	1	0	0		C	169435124	C	C	169435124	3	2	27	1	0	0	0	0	1	0	0	0	14454	1783	62	3	40	3	SLC19A2	1	169435124	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	68537	169435124	79815497	558	22909											
F5	2153	broad.mit.edu	37	chr1	169510886	169510886	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagctctggagaagaggAtctgtgactggggtctgaag	10	9	16	6	0	3	5	0	3	3	2	3	7	3	6	0	4	1	1	0	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:169510886A>T	uc001ggg.1	-	13	3587	c.3442T>A	c.(3442-3444)TCC>ACC	p.S1148T		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1148	B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	GGAGAAGAGGATCTGTGACTG	0.468													19	260					0	0	1	0	0		T	169510886	T	T	169510886	3	4	27	1	0	0	0	0	1	0	0	0	5356	333	12	5	3284	5	F5	1	169510886	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	75762	169510886	79739735	559	22910											
F5	2153	broad.mit.edu	37	chr1	169519212	169519212	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttccacttataagtataggTttcccctggttgaactgctc	8	15	8	10	0	0	1	0	1	0	0	3	1	2	1	3	2	2	5	3	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:169519212T>G	uc001ggg.1	-	10	1583	c.1438A>C	c.(1438-1440)ACC>CCC	p.T480P	F5_uc010plr.1_RNA	NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	480	F5/8 type A 2.|Plastocyanin-like 3.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TAAGTATAGGTTTCCCCTGGT	0.363													11	108					0	0	1	0	0		G	169519212	G	G	169519212	3	3	27	1	0	0	0	0	1	0	0	0	5356	1725	60	5	5300	5	F5	1	169519212	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8326	169519212	79731409	560	22911											
SELE	6401	broad.mit.edu	37	chr1	169702011	169702011	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggagtttaggtactcaaTctcttctttgttttgaattg	8	20	8	5	0	3	1	1	1	2	0	4	2	3	2	0	2	1	3	0	2	5	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:169702011T>C	uc001ggm.3	-	3	323	c.166A>G	c.(166-168)ATT>GTT	p.I56V	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	56	Extracellular (Potential).|C-type lectin.				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					AGGTACTCAATCTCTTCTTTG	0.423													13	111					0	0	1	0	0		C	169702011	C	C	169702011	3	2	27	1	0	0	0	0	1	0	0	0	14038	1435	50	3	1710	3	SELE	1	169702011	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	182799	169702011	79548610	561	22912											
SCYL3	57147	broad.mit.edu	37	chr1	169847941	169847941	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatcttagcaagcaagggTgacgaagtgtcttcaaatgc	15	9	10	7	1	3	1	1	1	2	0	3	2	3	1	0	1	3	2	0	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:169847941T>A	uc001ggs.2	-	3	383	c.185A>T	c.(184-186)CAC>CTC	p.H62L	SCYL3_uc001ggt.2_Missense_Mutation_p.H62L|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	62	Protein kinase.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CAAGCAAGGGTGACGAAGTGT	0.413													7	137					0	0	1	0	0		A	169847941	A	A	169847941	3	1	27	1	0	0	0	0	1	0	0	0	13974	1696	59	5	2091	5	SCYL3	1	169847941	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	145930	169847941	79402680	562	22913											
KIFAP3	22920	broad.mit.edu	37	chr1	170003615	170003615	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaattttatagtgagtaaTaagtccatgaaattgagaaa	17	13	7	4	0	0	3	0	3	0	1	2	4	2	3	2	0	0	1	2	0	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:170003615T>C	uc001ggv.2	-	7	911	c.640A>G	c.(640-642)ATT>GTT	p.I214V	KIFAP3_uc010ply.1_Missense_Mutation_p.I136V|KIFAP3_uc001ggw.1_Missense_Mutation_p.I170V	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	214					blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TAGTGAGTAATAAGTCCATGA	0.294													4	41					0	0	1	0	0		C	170003615	C	C	170003615	3	2	27	1	0	0	0	0	1	0	0	0	8327	1406	49	3	1794	3	KIFAP3	1	170003615	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	155674	170003615	79247006	563	22914											
GORAB	92344	broad.mit.edu	37	chr1	170521257	170521257	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgaacacctttgtacgaTcatacagcaaaatgagctcc	14	9	6	12	1	1	2	1	2	0	0	2	3	2	2	2	0	5	3	2	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:170521257T>A	uc001gha.2	+	5	866	c.839T>A	c.(838-840)ATC>AAC	p.I280N	GORAB_uc009wvx.2_Missense_Mutation_p.I100N|GORAB_uc001ghb.2_Missense_Mutation_p.I100N|GORAB_uc001ghc.2_Missense_Mutation_p.I100N|GORAB_uc001ghd.2_Missense_Mutation_p.I73N	NM_152281	NP_689494	Q5T7V8	GORAB_HUMAN	golgin, RAB6-interacting isoform a	280	Necessary for interaction with RCHY1.|Potential.					Golgi apparatus|nucleus					0						CTTTGTACGATCATACAGCAA	0.458													4	92					0	0	1	0	0		A	170521257	A	A	170521257	3	1	27	1	0	0	0	0	1	0	0	0	6589	1435	50	5	861	5	GORAB	1	170521257	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	517642	170521257	78729364	564	22915											
FMO1	2326	broad.mit.edu	37	chr1	171244546	171244546	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggccaatgggaggtggTcactatgcatgaagagaagc	11	8	14	8	0	2	2	1	1	1	1	2	4	2	3	1	4	2	1	1	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:171244546T>C	uc009wvz.2	+	4	519	c.383T>C	c.(382-384)GTC>GCC	p.V128A	FMO1_uc010pme.1_Missense_Mutation_p.V65A|FMO1_uc001ghl.2_Missense_Mutation_p.V128A|FMO1_uc001ghm.2_Missense_Mutation_p.V128A|FMO1_uc001ghn.2_Missense_Mutation_p.V128A	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	128					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TGGGAGGTGGTCACTATGCAT	0.428													8	82					0	0	1	0	0		C	171244546	C	C	171244546	3	2	27	1	0	0	0	0	1	0	0	0	5968	1667	58	3	393	3	FMO1	1	171244546	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	723289	171244546	78006075	565	22916											
VAMP4	8674	broad.mit.edu	37	chr1	171707551	171707551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtggcgcttaaacttgggagGcatattttttacttgcaaag	10	14	11	6	1	0	0	0	0	0	0	0	1	0	1	0	3	3	3	0	3	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:171707551G>A	uc001ghx.1	-	2	218	c.4C>T	c.(4-6)CCT>TCT	p.P2S	VAMP4_uc001ghw.1_RNA|VAMP4_uc001ghy.1_Missense_Mutation_p.P2S	NM_003762	NP_003753	O75379	VAMP4_HUMAN	vesicle-associated membrane protein 4	2	Cytoplasmic (Potential).				vesicle-mediated transport	endosome|Golgi membrane|integral to membrane|lysosome					0	all_cancers(6;1.42e-10)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					AACTTGGGAGGCATATTTTTT	0.338													7	59					0	0	1	0	0		A	171707551	A	A	171707551	3	1	27	1	0	0	0	0	1	0	0	0	17141	1203	42	2	449	2	VAMP4	1	171707551	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	463005	171707551	77543070	566	22917											
METTL13	51603	broad.mit.edu	37	chr1	171753044	171753044	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttgaagatggacatgacGcagatggagtttcctgatgc	10	12	12	7	1	1	5	0	3	1	2	2	7	2	7	1	2	1	2	1	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:171753044G>A	uc001ghz.2	+	2	665	c.318G>A	c.(316-318)ACG>ACA	p.T106T	METTL13_uc001gia.2_Silent_p.T20T|METTL13_uc001gib.2_Silent_p.T106T|METTL13_uc010pml.1_Silent_p.T105T	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	106							methyltransferase activity|protein binding			kidney(1)	1						TGGACATGACGCAGATGGAGT	0.502													4	61					0	0	1	0	0		A	171753044	A	A	171753044	2	1	27	1	0	0	0	0	0	0	0	1	9515	1074	38	1		1	METTL13	1	171753044	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	45493	171753044	77497577	567	22918											
METTL13	51603	broad.mit.edu	37	chr1	171753267	171753267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcccgggaggggtggatgGtgagggtgcaccaagtggcc	6	7	19	9	1	1	1	0	1	1	0	2	3	1	3	3	7	1	1	3	7	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:171753267G>A	uc001ghz.2	+	2	888	c.541G>A	c.(541-543)GTG>ATG	p.V181M	METTL13_uc001gia.2_Missense_Mutation_p.V95M|METTL13_uc001gib.2_Intron|METTL13_uc010pml.1_Missense_Mutation_p.V180M	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	181							methyltransferase activity|protein binding			kidney(1)	1						GGGGTGGATGGTGAGGGTGCA	0.597													4	54					0	0	1	0	0		A	171753267	A	A	171753267	3	1	27	1	0	0	0	0	1	0	0	0	9515	1261	44	4	547	4	METTL13	1	171753267	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	223	171753267	77497354	568	22919											
METTL13	51603	broad.mit.edu	37	chr1	171761377	171761377	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggcaggaggaggagaaggTactgctcttggagcatttga	10	10	16	5	0	1	2	0	1	1	1	1	6	1	5	0	6	3	4	0	6	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:171761377T>C	uc001ghz.2	+	6	2040	c.1693_splice	c.e6+2	p.A565_splice	METTL13_uc001gia.2_Splice_Site_p.A479_splice|METTL13_uc001gib.2_Splice_Site_p.A409_splice|METTL13_uc010pml.1_Splice_Site_p.A564_splice|METTL13_uc001gic.1_5'Flank	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1								methyltransferase activity|protein binding			kidney(1)	1						GAGGAGAAGGTACTGCTCTTG	0.532													8	63					0	0	1	0	0		C	171761377	C	C	171761377	5	2	27	1	0	0	0	0	0	0	1	0	9515	1652	57	3	1717	3	METTL13	1	171761377	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8110	171761377	77489244	569	22920											
DNM3	26052	broad.mit.edu	37	chr1	172357785	172357785	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgcaaggcccacatccggCcgaggaccagctcctgccat	8	5	10	18	3	0	0	0	0	0	0	3	2	2	1	6	3	2	2	6	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:172357785C>T	uc001gie.2	+	20	2534	c.2358C>T	c.(2356-2358)GGC>GGT	p.G786G	DNM3_uc001gif.2_Silent_p.G782G|DNM3_uc001gih.1_Silent_p.G142G	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	792					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						CCACATCCGGCCGAGGACCAG	0.602													4	31					0	0	1	0	0		T	172357785	T	T	172357785	2	4	27	1	0	0	0	0	0	0	0	1	4679	726	26	2		2	DNM3	1	172357785	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	596408	172357785	76892836	570	22921											
PIGC	5279	broad.mit.edu	37	chr1	172411759	172411759	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttagtcacaggttgagcatAcattatcctttcattcaaac	12	14	6	9	0	3	1	3	1	0	0	4	1	4	1	1	1	3	3	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:172411759A>G	uc001gil.2	-	2	285	c.4T>C	c.(4-6)TAT>CAT	p.Y2H	PIGC_uc001gii.1_Intron|PIGC_uc001gij.1_Intron|C1orf105_uc001gik.2_Intron|PIGC_uc001gin.2_Missense_Mutation_p.Y2H|PIGC_uc001gio.2_Missense_Mutation_p.Y2H	NM_153747	NP_714969	Q92535	PIGC_HUMAN	phosphatidylinositol glycan, class C	2					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity			lung(1)	1						GGTTGAGCATACATTATCCTT	0.463													11	165					0	0	1	0	0		G	172411759	G	G	172411759	3	3	27	1	0	0	0	0	1	0	0	0	11905	391	14	3	893	3	PIGC	1	172411759	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	53974	172411759	76838862	571	22922											
FASLG	356	broad.mit.edu	37	chr1	172635150	172635150	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgtttttcggcttatataaGctctaagagaagcactttgg	11	14	9	7	2	1	1	0	0	1	1	2	2	1	1	0	2	2	4	0	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:172635150G>A	uc001gis.2	+	4	997	c.840G>A	c.(838-840)AAG>AAA	p.K280K	FASLG_uc001git.2_3'UTR	NM_000639	NP_000630	P48023	TNFL6_HUMAN	fas ligand	280	Extracellular (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of necroptosis by extracellular signals|induction of necroptosis of activated-T cells|necrotic cell death|negative regulation of angiogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane	cytokine activity			lung(2)|breast(1)	3						GCTTATATAAGCTCTAAGAGA	0.393													5	91					0	0	1	0	0		A	172635150	A	A	172635150	2	1	27	1	0	0	0	0	0	0	0	1	5696	962	34	2		2	FASLG	1	172635150	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	223391	172635150	76615471	572	22923											
PRDX6	9588	broad.mit.edu	37	chr1	173456932	173456932	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaagccaaaaaactttTcccgaaaggagtcttcacca	17	7	7	10	1	2	2	1	0	1	2	3	4	3	3	3	1	2	0	3	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:173456932T>A	uc001giy.1	+	5	656	c.605T>A	c.(604-606)TTC>TAC	p.F202Y		NM_004905	NP_004896	P30041	PRDX6_HUMAN	peroxiredoxin 6	202					cell redox homeostasis|phospholipid catabolic process	cytoplasmic membrane-bounded vesicle|cytosol|lysosome	peroxiredoxin activity|phospholipase A2 activity|protein binding			central_nervous_system(1)	1						AAAAAACTTTTCCCGAAAGGA	0.463													8	81					0	0	1	0	0		A	173456932	A	A	173456932	3	1	27	1	0	0	0	0	1	0	0	0	12491	1783	62	5	623	5	PRDX6	1	173456932	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	821782	173456932	75793689	573	22924											
SLC9A11	284525	broad.mit.edu	37	chr1	173516834	173516834	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaacagcaccaaccatttgTattgcagctacatgcaatct	13	11	6	11	0	1	1	0	1	1	0	1	1	1	1	2	0	7	5	2	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:173516834T>C	uc001giz.2	-	13	1974	c.1551A>G	c.(1549-1551)ATA>ATG	p.I517M	SLC9A11_uc009wwe.2_Missense_Mutation_p.I75M|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	517					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						CAACCATTTGTATTGCAGCTA	0.358													17	59					0	0	1	0	0		C	173516834	C	C	173516834	3	2	27	1	0	0	0	0	1	0	0	0	14736	1628	57	3	1887	3	SLC9A11	1	173516834	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	59902	173516834	75733787	574	22925											
CENPL	91687	broad.mit.edu	37	chr1	173780280	173780280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaagcatacctgcaactgcGaacactggggaattttcctt	13	10	8	10	1	0	0	0	0	0	0	1	2	1	1	2	2	6	2	2	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:173780280G>A	uc001gje.3	-	2	372	c.158C>T	c.(157-159)TCG>TTG	p.S53L	CENPL_uc009wwg.2_5'UTR|CENPL_uc001gjg.3_Missense_Mutation_p.S53L|CENPL_uc001gjf.3_Missense_Mutation_p.S53L	NM_033319	NP_201576	Q8N0S6	CENPL_HUMAN	centromere protein L isoform 2	53					mitotic prometaphase	chromosome, centromeric region|cytosol|nucleus					0						CTGCAACTGCGAACACTGGGG	0.383													7	95					0	0	1	0	0		A	173780280	A	A	173780280	3	1	27	1	0	0	0	0	1	0	0	0	3239	1059	37	1	1034	1	CENPL	1	173780280	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	263446	173780280	75470341	575	22926											
RC3H1	149041	broad.mit.edu	37	chr1	173934070	173934070	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggtctgtccctcgcggaAtaagctgtgttactgtattc	6	14	12	9	2	1	0	0	0	1	0	4	1	2	1	1	3	2	3	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:173934070A>G	uc001gju.3	-	9	1610	c.1523T>C	c.(1522-1524)ATT>ACT	p.I508T	RC3H1_uc010pms.1_Missense_Mutation_p.I508T|RC3H1_uc001gjv.2_Missense_Mutation_p.I508T|RC3H1_uc010pmt.1_Missense_Mutation_p.I508T	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	508					cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CCCTCGCGGAATAAGCTGTGT	0.488													6	133					0	0	1	0	0		G	173934070	G	G	173934070	3	3	27	1	0	0	0	0	1	0	0	0	13191	101	4	3	1922	3	RC3H1	1	173934070	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	153790	173934070	75316551	576	22927											
RC3H1	149041	broad.mit.edu	37	chr1	173962014	173962014	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcaggcacatcttgcagAcagtatggccacaacccaaa	14	8	7	12	0	2	1	1	0	1	1	2	1	2	1	2	2	2	3	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:173962014A>G	uc001gju.3	-	1	197	c.110T>C	c.(109-111)GTC>GCC	p.V37A	RC3H1_uc010pms.1_Missense_Mutation_p.V37A|RC3H1_uc001gjv.2_Missense_Mutation_p.V37A|RC3H1_uc010pmt.1_Missense_Mutation_p.V37A	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	37	RING-type; degenerate.				cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CATCTTGCAGACAGTATGGCC	0.488													4	99					0	0	1	0	0		G	173962014	G	G	173962014	3	3	27	1	0	0	0	0	1	0	0	0	13191	275	10	3	3367	3	RC3H1	1	173962014	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	27944	173962014	75288607	577	22928											
RABGAP1L	9910	broad.mit.edu	37	chr1	174221683	174221683	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaatagagaagaaggttgTgattacagtgcagcaacttt	15	10	12	4	0	0	3	0	1	0	2	0	5	0	4	0	2	4	3	0	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:174221683T>C	uc001gjx.2	+	7	1136	c.941T>C	c.(940-942)GTG>GCG	p.V314A	RABGAP1L_uc009wwq.1_Missense_Mutation_p.V326A|RABGAP1L_uc001gjw.2_Missense_Mutation_p.V277A|RABGAP1L_uc001gjy.2_5'UTR	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	314					regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						AAGAAGGTTGTGATTACAGTG	0.333													15	111					0	0	1	0	0		C	174221683	C	C	174221683	3	2	27	1	0	0	0	0	1	0	0	0	12990	1696	59	3	963	3	RABGAP1L	1	174221683	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	259669	174221683	75028938	578	22929											
GPR52	9293	broad.mit.edu	37	chr1	174417491	174417491	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactaccagctatttcattcAgacgatggcatatgctgatc	11	13	7	10	1	2	2	2	1	0	1	3	3	2	2	1	1	4	3	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:174417491A>T	uc001gka.1	+	1	280	c.242A>T	c.(241-243)CAG>CTG	p.Q81L	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	81	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						TATTTCATTCAGACGATGGCA	0.428													15	147					0	0	1	0	0		T	174417491	T	T	174417491	3	4	27	1	0	0	0	0	1	0	0	0	6713	188	7	5	244	5	GPR52	1	174417491	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	195808	174417491	74833130	579	22930											
RABGAP1L	9910	broad.mit.edu	37	chr1	174671273	174671273	+	Missense_Mutation	SNP	G	A	A																															acagctaccggacctgcataGccatttttctgatctgaacc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:174671273G>A	uc001gjx.2	+	17	2243	c.2048G>A	c.(2047-2049)AGC>AAC	p.S683N	RABGAP1L_uc001gkb.3_5'UTR|RABGAP1L_uc001gkc.3_5'UTR|RABGAP1L_uc001gkd.3_Missense_Mutation_p.S9N	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	683	Rab-GAP TBC.				regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						GACCTGCATAGCCATTTTTCT	0.448													11	97					0	0	1	0	0		A	174671273	A	A	174671273	3	1	27	1	0	0	0	0	1	0	0	0	12990	971	34	2	2110	2	RABGAP1L	1	174671273	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	253782	174671273	74579348	580	22931	36	2									
RABGAP1L	9910	broad.mit.edu	37	chr1	174671283	174671283	+	Silent	SNP	T	C	C																															gacctgcatagccatttttcTgatctgaacctggaagctca																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:174671283T>C	uc001gjx.2	+	17	2253	c.2058T>C	c.(2056-2058)TCT>TCC	p.S686S	RABGAP1L_uc001gkb.3_5'UTR|RABGAP1L_uc001gkc.3_5'UTR|RABGAP1L_uc001gkd.3_Silent_p.S12S	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	686	Rab-GAP TBC.				regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						GCCATTTTTCTGATCTGAACC	0.443													9	107					0	0	1	0	0		C	174671283	C	C	174671283	2	2	27	1	0	0	0	0	0	0	0	1	12990	1567	55	3		3	RABGAP1L	1	174671283	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10	174671283	74579338	581	22932	36	2									
TNR	7143	broad.mit.edu	37	chr1	175335099	175335099	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactctgccccaggctctagAtctgttagtgtgtatgaggt	7	14	11	9	0	3	2	0	1	3	1	3	2	3	2	2	2	2	3	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:175335099A>T	uc001gkp.1	-	9	2310	c.2229T>A	c.(2227-2229)GAT>GAA	p.D743E	TNR_uc009wwu.1_Missense_Mutation_p.D743E	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	743	Fibronectin type-III 5.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CAGGCTCTAGATCTGTTAGTG	0.542													8	107					0	0	1	0	0		T	175335099	T	T	175335099	3	4	27	1	0	0	0	0	1	0	0	0	16363	330	12	5	1899	5	TNR	1	175335099	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	663816	175335099	73915522	582	22933											
TNR	7143	broad.mit.edu	37	chr1	175372423	175372423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcataaacaggtaccgttggCacatctccccttccccgaac	10	8	7	16	2	1	0	0	0	1	0	3	1	2	0	5	2	3	4	5	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:175372423C>T	uc001gkp.1	-	2	910	c.829G>A	c.(829-831)GCC>ACC	p.A277T	TNR_uc009wwu.1_Missense_Mutation_p.A277T|TNR_uc010pmz.1_Missense_Mutation_p.A277T	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	277	Cys-rich.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GTACCGTTGGCACATCTCCCC	0.622													5	39					0	0	1	0	0		T	175372423	T	T	175372423	3	4	27	1	0	0	0	0	1	0	0	0	16363	710	25	2	3327	2	TNR	1	175372423	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37324	175372423	73878198	583	22934											
TNR	7143	broad.mit.edu	37	chr1	175372644	175372644	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagcaacccagcgggcagTagggctccgagcaattcttg	9	7	14	11	2	1	0	0	0	1	0	2	2	2	1	2	3	4	5	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:175372644T>C	uc001gkp.1	-	2	689	c.608A>G	c.(607-609)TAC>TGC	p.Y203C	TNR_uc009wwu.1_Missense_Mutation_p.Y203C|TNR_uc010pmz.1_Missense_Mutation_p.Y203C	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	203	Cys-rich.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CAGCGGGCAGTAGGGCTCCGA	0.592													9	125					0	0	1	0	0		C	175372644	C	C	175372644	3	2	27	1	0	0	0	0	1	0	0	0	16363	1638	57	3	3548	3	TNR	1	175372644	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	221	175372644	73877977	584	22935											
PAPPA2	60676	broad.mit.edu	37	chr1	176525547	176525547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgagctgggctggacacGcaagaaatccttggttgaga	10	9	13	9	1	1	3	0	2	1	2	2	5	2	4	1	3	1	4	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:176525547G>A	uc001gkz.2	+	2	1253	c.89G>A	c.(88-90)CGC>CAC	p.R30H	PAPPA2_uc001gky.1_Missense_Mutation_p.R30H|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	30					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GGCTGGACACGCAAGAAATCC	0.532													38	75					0	0	1	0	0		A	176525547	A	A	176525547	3	1	27	1	0	0	0	0	1	0	0	0	11452	1087	38	1	91	1	PAPPA2	1	176525547	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1152903	176525547	72725074	585	22936											
PAPPA2	60676	broad.mit.edu	37	chr1	176679181	176679181	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaaccttttgagagaaaaAccagcattgtagactgtggc	13	10	11	7	0	0	4	0	2	0	2	0	5	0	4	2	1	3	2	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:176679181A>C	uc001gkz.2	+	11	4684	c.3520A>C	c.(3520-3522)ACC>CCC	p.T1174P	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1174					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TGAGAGAAAAACCAGCATTGT	0.443													15	129					0	0	1	0	0		C	176679181	C	C	176679181	3	2	27	1	0	0	0	0	1	0	0	0	11452	43	2	5	3611	5	PAPPA2	1	176679181	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	153634	176679181	72571440	586	22937											
PAPPA2	60676	broad.mit.edu	37	chr1	176679281	176679281	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacaagaagaagtgtcctgTttccttggtaactggagaac	13	10	11	7	0	0	4	0	0	0	4	2	5	2	4	2	2	2	2	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:176679281T>A	uc001gkz.2	+	11	4784	c.3620T>A	c.(3619-3621)GTT>GAT	p.V1207D	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1207					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						AAGTGTCCTGTTTCCTTGGTA	0.468													12	107					0	0	1	0	0		A	176679281	A	A	176679281	3	1	27	1	0	0	0	0	1	0	0	0	11452	1725	60	5	3711	5	PAPPA2	1	176679281	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	100	176679281	72571340	587	22938											
ASTN1	460	broad.mit.edu	37	chr1	176838049	176838049	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catagtgctggttatagtggTagaggacccggtgtaaggtg	9	11	16	5	1	0	1	0	0	0	1	0	2	0	2	1	5	1	4	1	5	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:176838049T>C	uc001glc.2	-	22	3790	c.3578A>G	c.(3577-3579)TAC>TGC	p.Y1193C	ASTN1_uc001glb.1_Missense_Mutation_p.Y1193C|ASTN1_uc001gld.1_Missense_Mutation_p.Y1193C	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	1201					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GTTATAGTGGTAGAGGACCCG	0.483													9	110					0	0	1	0	0		C	176838049	C	C	176838049	3	2	27	1	0	0	0	0	1	0	0	0	1065	1638	57	3	318	3	ASTN1	1	176838049	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	158768	176838049	72412572	588	22939											
ASTN1	460	broad.mit.edu	37	chr1	176853605	176853605	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagagtgctgctgggctcGtgaaccgtggagagtctcag	9	8	15	9	2	1	3	1	1	1	2	3	4	1	3	1	2	3	3	1	2	2	0	rs144434019		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:176853605G>A	uc001glc.2	-	19	3308	c.3096C>T	c.(3094-3096)CAC>CAT	p.H1032H	ASTN1_uc001glb.1_Silent_p.H1032H|ASTN1_uc001gld.1_Silent_p.H1032H	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	1040	Fibronectin type-III 1.				cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						TGCTGGGCTCGTGAACCGTGG	0.522													15	54					0	0	1	0	0		A	176853605	A	A	176853605	2	1	27	1	0	0	0	0	0	0	0	1	1065	1136	40	1		1	ASTN1	1	176853605	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15556	176853605	72397016	589	22940											
FAM5B	57795	broad.mit.edu	37	chr1	177250429	177250429	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaattctccagttggactAcccatatactcaaggttccc	10	13	5	13	0	2	0	1	0	1	0	4	1	3	1	3	2	2	2	3	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:177250429A>G	uc001glf.2	+	8	2429	c.2117A>G	c.(2116-2118)TAC>TGC	p.Y706C	FAM5B_uc001glg.2_Missense_Mutation_p.Y601C	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	706						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CAGTTGGACTACCCATATACT	0.498													8	169					0	0	1	0	0		G	177250429	G	G	177250429	3	3	27	1	0	0	0	0	1	0	0	0	5607	391	14	3	2143	3	FAM5B	1	177250429	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	396824	177250429	72000192	590	22941											
RASAL2	9462	broad.mit.edu	37	chr1	178252710	178252710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcatgcagatgtgaaaggaCcacccacccaccgtctgtct	10	8	8	15	1	3	2	1	1	2	1	3	3	3	3	4	1	1	1	4	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:178252710C>T	uc001glq.2	+	2	978	c.214C>T	c.(214-216)CCA>TCA	p.P72S	RASAL2_uc009wxb.2_Missense_Mutation_p.P72S	NM_170692	NP_733793	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 2	Error:Variant_position_missing_in_Q9UJF2_after_alignment					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						TGTGAAAGGACCACCCACCCA	0.428													12	88					0	0	1	0	0		T	178252710	T	T	178252710	3	4	27	1	0	0	0	0	1	0	0	0	13089	507	18	4	220	4	RASAL2	1	178252710	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1002281	178252710	70997911	591	22942											
C1orf49	84066	broad.mit.edu	37	chr1	178490396	178490396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctaaagaacaactacaatCggggtaggtagattcataca	16	9	8	8	1	2	2	1	0	1	2	3	2	2	2	0	3	4	2	0	3	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:178490396C>T	uc001glt.1	+	8	695	c.583C>T	c.(583-585)CGG>TGG	p.R195W	C1orf49_uc001glu.1_3'UTR|C1orf49_uc001glv.1_RNA|C1orf49_uc001glw.1_Missense_Mutation_p.R203W	NM_032126	NP_115502	Q5T0J7	CA049_HUMAN	hypothetical protein LOC84066	195						microtubule cytoskeleton					0						CAACTACAATCGGGGTAGGTA	0.498													5	115					0	0	1	0	0		T	178490396	T	T	178490396	3	4	27	1	0	0	0	0	1	0	0	0	2044	875	31	1	637	1	C1orf49	1	178490396	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	237686	178490396	70760225	592	22943											
C1orf125	126859	broad.mit.edu	37	chr1	179363085	179363085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgctcggcagatgattgAtttctacaaagacttggtaa	12	13	10	6	1	1	4	0	2	1	2	2	5	1	4	0	2	2	3	0	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:179363085A>G	uc001gmo.2	+	10	1038	c.911A>G	c.(910-912)GAT>GGT	p.D304G	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmn.1_Missense_Mutation_p.D92G|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.D304G	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	304											0						CAGATGATTGATTTCTACAAA	0.318													11	114					0	0	1	0	0		G	179363085	G	G	179363085	3	3	27	1	0	0	0	0	1	0	0	0	1996	333	12	3	945	3	C1orf125	1	179363085	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	872689	179363085	69887536	593	22944											
CEP350	9857	broad.mit.edu	37	chr1	179983259	179983259	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacagaaccagaagtcatcAgcaccagtacatgctcctag	14	8	7	12	0	2	2	2	0	0	2	3	2	3	2	3	0	5	3	3	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:179983259A>G	uc001gnt.2	+	10	2054	c.1671A>G	c.(1669-1671)TCA>TCG	p.S557S	CEP350_uc009wxl.2_Silent_p.S556S|CEP350_uc001gnu.2_Silent_p.S391S	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	557						centrosome|nucleus|spindle				ovary(4)	4						AGAAGTCATCAGCACCAGTAC	0.433													3	26					0	0	1	0	0		G	179983259	G	G	179983259	2	3	27	1	0	0	0	0	0	0	0	1	3257	175	7	3		3	CEP350	1	179983259	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	620174	179983259	69267362	594	22945											
CEP350	9857	broad.mit.edu	37	chr1	180000515	180000515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaggaaaaagcagaacGtggctcccatcaaggaaaga	17	5	12	7	1	1	4	1	2	0	2	2	6	2	6	1	3	2	2	1	3	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:180000515G>A	uc001gnt.2	+	15	3994	c.3611G>A	c.(3610-3612)CGT>CAT	p.R1204H	CEP350_uc009wxl.2_Missense_Mutation_p.R1203H|CEP350_uc001gnu.2_Missense_Mutation_p.R1037H	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1204	Ser-rich.					centrosome|nucleus|spindle				ovary(4)	4						AAAGCAGAACGTGGCTCCCAT	0.383													8	30					0	0	1	0	0		A	180000515	A	A	180000515	3	1	27	1	0	0	0	0	1	0	0	0	3257	1145	40	1	3665	1	CEP350	1	180000515	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17256	180000515	69250106	595	22946											
CEP350	9857	broad.mit.edu	37	chr1	180064877	180064877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagtaacccaacaaccatgtGaaacattattggcagtcccc	14	8	7	12	0	0	1	0	1	0	0	1	2	1	1	4	1	4	2	4	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:180064877G>A	uc001gnt.2	+	35	9114	c.8731G>A	c.(8731-8733)GAA>AAA	p.E2911K	CEP350_uc009wxl.2_Missense_Mutation_p.E2910K|CEP350_uc001gnv.2_Missense_Mutation_p.E1046K|CEP350_uc001gnw.1_Missense_Mutation_p.E668K|CEP350_uc001gnx.1_Missense_Mutation_p.E668K	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	2911						centrosome|nucleus|spindle				ovary(4)	4						ACAACCATGTGAAACATTATT	0.398													7	66					0	0	1	0	0		A	180064877	A	A	180064877	3	1	27	1	0	0	0	0	1	0	0	0	3257	1291	45	4	8865	4	CEP350	1	180064877	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	64362	180064877	69185744	596	22947											
LHX4	89884	broad.mit.edu	37	chr1	180235620	180235620	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgtctaccacctgcactgCtttgcttgcatcatctgcaa	7	15	6	13	0	3	0	1	0	2	0	3	0	3	0	2	0	6	5	2	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:180235620C>A	uc001goe.1	+	3	565	c.342C>A	c.(340-342)TGC>TGA	p.C114*		NM_033343	NP_203129	Q969G2	LHX4_HUMAN	LIM homeobox protein 4	114	LIM zinc-binding 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						ACCTGCACTGCTTTGCTTGCA	0.612													4	67					0.014758	0.0150623	1	1	0		A	180235620	A	A	180235620	4	1	27	1	0	0	0	0	0	1	0	0	8789	805	28	5	352	5	LHX4	1	180235620	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	170743	180235620	69015001	597	22948											
LHX4	89884	broad.mit.edu	37	chr1	180243369	180243369	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaataggatttatggcaaCgtgggggacgttacaggcgg	11	8	15	7	3	0	0	0	0	0	0	0	2	0	2	1	6	2	2	1	6	5	4	rs139155359		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:180243369C>T	uc001goe.1	+	6	1051	c.828C>T	c.(826-828)AAC>AAT	p.N276N	uc001gof.1_Intron	NM_033343	NP_203129	Q969G2	LHX4_HUMAN	LIM homeobox protein 4	276						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						TTTATGGCAACGTGGGGGACG	0.498													13	98					0	0	1	0	0		T	180243369	T	T	180243369	2	4	27	1	0	0	0	0	0	0	0	1	8789	535	19	1		1	LHX4	1	180243369	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7749	180243369	69007252	598	22949											
LHX4	89884	broad.mit.edu	37	chr1	180243511	180243511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatcgtccctgccatcccacGctcctttgctcaatgggctg	5	12	8	16	2	1	0	1	0	0	0	5	0	4	0	4	1	2	3	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:180243511G>A	uc001goe.1	+	6	1193	c.970G>A	c.(970-972)GCT>ACT	p.A324T	uc001gof.1_Intron	NM_033343	NP_203129	Q969G2	LHX4_HUMAN	LIM homeobox protein 4	324						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GCCATCCCACGCTCCTTTGCT	0.572													14	197					0	0	1	0	0		A	180243511	A	A	180243511	3	1	27	1	0	0	0	0	1	0	0	0	8789	1087	38	1	992	1	LHX4	1	180243511	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	142	180243511	69007110	599	22950											
ACBD6	84320	broad.mit.edu	37	chr1	180399357	180399357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagaactaataactggcccaCcaaaacctgtatttgcttct	13	11	6	11	0	1	1	0	0	1	1	1	2	1	1	3	1	4	2	3	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:180399357C>T	uc001gog.2	-	4	1046	c.425G>A	c.(424-426)GGT>GAT	p.G142D		NM_032360	NP_115736	Q9BR61	ACBD6_HUMAN	acyl-coenzyme A binding domain containing 6	142						cytoplasm|nucleus	fatty-acyl-CoA binding			ovary(1)	1						AACTGGCCCACCAAAACCTGT	0.299													10	96					0	0	1	0	0		T	180399357	T	T	180399357	3	4	27	1	0	0	0	0	1	0	0	0	126	507	18	4	443	4	ACBD6	1	180399357	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	155846	180399357	68851264	600	22951											
STX6	10228	broad.mit.edu	37	chr1	180953816	180953816	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaacgccatacataccacTggtcatatgagatacttttg	13	13	6	9	1	1	1	1	1	0	1	1	2	1	1	2	1	4	0	2	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:180953816T>A	uc010pnq.1	-	7	925	c.688A>T	c.(688-690)AGT>TGT	p.S230C	STX6_uc001goo.2_Missense_Mutation_p.S230C|STX6_uc010pnr.1_Missense_Mutation_p.S129C	NM_005819	NP_005810	O43752	STX6_HUMAN	syntaxin 6	230	Cytoplasmic (Potential).				Golgi vesicle transport|intracellular protein transport|vesicle fusion	clathrin-coated vesicle|early endosome|integral to membrane|perinuclear region of cytoplasm|plasma membrane|trans-Golgi network membrane	SNAP receptor activity			ovary(1)	1						TACATACCACTGGTCATATGA	0.418													5	41					0	0	1	0	0		A	180953816	A	A	180953816	3	1	27	1	0	0	0	0	1	0	0	0	15374	1580	55	5	87	5	STX6	1	180953816	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	554459	180953816	68296805	601	22952											
MR1	3140	broad.mit.edu	37	chr1	181022773	181022773	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgtccttgtcattgtgctGgctggagttggtgttctagt	4	18	13	6	0	2	0	1	0	1	0	3	1	3	1	1	3	1	4	1	3	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:181022773G>T	uc001goq.1	+	5	950	c.945G>T	c.(943-945)CTG>CTT	p.L315L	MR1_uc001gor.1_Silent_p.L270L|MR1_uc001gos.1_Silent_p.L223L|MR1_uc010pns.1_Intron	NM_001531	NP_001522	Q95460	HMR1_HUMAN	major histocompatibility complex, class	315	Helical; (Potential).			L -> P (in Ref. 4; BAD96630).	antigen processing and presentation of peptide antigen via MHC class I|immune response	endoplasmic reticulum|extracellular region|integral to membrane|MHC class I protein complex	MHC class I receptor activity			skin(1)	1						TCATTGTGCTGGCTGGAGTTG	0.498													13	127					2.27111e-07	2.47899e-07	1	1	0		T	181022773	T	T	181022773	2	4	27	1	0	0	0	0	0	0	0	1	9770	1335	47	5		5	MR1	1	181022773	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	68957	181022773	68227848	602	22953											
IER5	51278	broad.mit.edu	37	chr1	181059004	181059004	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatgaacccctggagcacAgccatcgtggccttctgagc	9	7	11	14	1	1	2	0	2	1	0	2	4	1	3	4	2	4	1	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:181059004A>G	uc001got.3	+	1	1367	c.966A>G	c.(964-966)ACA>ACG	p.T322T		NM_016545	NP_057629	Q5VY09	IER5_HUMAN	immediate early response 5	322										pancreas(1)	1						CCTGGAGCACAGCCATCGTGG	0.692													6	22					0	0	1	0	0		G	181059004	G	G	181059004	2	3	27	1	0	0	0	0	0	0	0	1	7524	175	7	3		3	IER5	1	181059004	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	36231	181059004	68191617	603	22954											
CACNA1E	777	broad.mit.edu	37	chr1	181764126	181764126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacctacaagtcccgtcgcCggagttaccactcctccttg	8	10	7	16	3	0	0	0	0	0	0	4	1	3	1	6	1	3	1	6	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:181764126C>T	uc001gow.2	+	45	6190	c.6025C>T	c.(6025-6027)CGG>TGG	p.R2009W	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1897W|CACNA1E_uc009wxt.2_Missense_Mutation_p.R1278W	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	2052	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GTCCCGTCGCCGGAGTTACCA	0.527													5	53					0	0	1	0	0		T	181764126	T	T	181764126	3	4	27	1	0	0	0	0	1	0	0	0	2545	643	23	1	6203	1	CACNA1E	1	181764126	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	705122	181764126	67486495	604	22955											
GLUL	2752	broad.mit.edu	37	chr1	182355457	182355457	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctgtccccatgagggtatActcctgctccatgccaaacc	9	10	7	15	0	1	1	0	1	1	0	4	1	4	1	6	1	4	2	6	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:182355457A>G	uc001gpa.1	-	4	621	c.409T>C	c.(409-411)TAT>CAT	p.Y137H	GLUL_uc010pnt.1_5'Flank|GLUL_uc001gpb.1_Missense_Mutation_p.Y137H|GLUL_uc001gpc.1_Missense_Mutation_p.Y137H|GLUL_uc001gpd.1_Missense_Mutation_p.Y137H	NM_001033056	NP_001028228	P15104	GLNA_HUMAN	glutamine synthetase	137					cell proliferation|glutamine biosynthetic process|neurotransmitter uptake	cytosol|Golgi apparatus|mitochondrion	ATP binding|glutamate decarboxylase activity|glutamate-ammonia ligase activity|identical protein binding				0					Asparaginase(DB00023)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)|L-Methionine(DB00134)	ATGAGGGTATACTCCTGCTCC	0.522													16	174					0	0	1	0	0		G	182355457	G	G	182355457	3	3	27	1	0	0	0	0	1	0	0	0	6493	391	14	3	728	3	GLUL	1	182355457	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	591331	182355457	66895164	605	22956											
GLUL	2752	broad.mit.edu	37	chr1	182357869	182357869	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggaacttgctgaggtggTcatggtggaaggtgttctgg	6	12	19	4	0	2	1	1	1	1	0	2	3	2	3	0	7	2	2	0	7	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:182357869T>G	uc001gpa.1	-	2	216	c.4A>C	c.(4-6)ACC>CCC	p.T2P	GLUL_uc001gpb.1_Missense_Mutation_p.T2P|GLUL_uc001gpc.1_Missense_Mutation_p.T2P|GLUL_uc001gpd.1_Missense_Mutation_p.T2P	NM_001033056	NP_001028228	P15104	GLNA_HUMAN	glutamine synthetase	2					cell proliferation|glutamine biosynthetic process|neurotransmitter uptake	cytosol|Golgi apparatus|mitochondrion	ATP binding|glutamate decarboxylase activity|glutamate-ammonia ligase activity|identical protein binding				0					Asparaginase(DB00023)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)|L-Methionine(DB00134)	GCTGAGGTGGTCATGGTGGAA	0.463													4	135					0	0	1	0	0		G	182357869	G	G	182357869	3	3	27	1	0	0	0	0	1	0	0	0	6493	1667	58	5	1141	5	GLUL	1	182357869	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2412	182357869	66892752	606	22957											
RNASEL	6041	broad.mit.edu	37	chr1	182550471	182550471	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcggattcatttcccacAttccgaagcgtcctatagcg	9	12	8	12	4	1	0	1	0	0	0	5	2	4	1	3	1	2	0	3	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:182550471A>G	uc001gpj.1	-	4	1961	c.1794T>C	c.(1792-1794)AAT>AAC	p.N598N	RNASEL_uc009wxz.1_Silent_p.N598N|RNASEL_uc001gpk.2_Silent_p.N598N	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	598	KEN.				mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						CATTTCCCACATTCCGAAGCG	0.418									Hereditary_Prostate_Cancer				10	115					0	0	1	0	0		G	182550471	G	G	182550471	2	3	27	1	0	0	0	0	0	0	0	1	13441	214	8	3		3	RNASEL	1	182550471	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	192602	182550471	66700150	607	22958											
DHX9	1660	broad.mit.edu	37	chr1	182856359	182856359	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagcggaggctatggtggCagcgccaactcctttcgggc	6	8	16	11	3	0	0	0	0	0	0	2	1	1	1	2	6	3	3	2	6	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:182856359C>T	uc001gpr.2	+	28	3766	c.3603C>T	c.(3601-3603)GGC>GGT	p.G1201G	DHX9_uc001gps.2_Silent_p.G987G|DHX9_uc001gpt.2_Silent_p.G480G|DHX9_uc009wyd.2_Silent_p.G166G	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9	1201	NTD.				CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						GCTATGGTGGCAGCGCCAACT	0.547													9	119					0	0	1	0	0		T	182856359	T	T	182856359	2	4	27	1	0	0	0	0	0	0	0	1	4522	697	25	2		2	DHX9	1	182856359	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	305888	182856359	66394262	608	22959											
LAMC1	3915	broad.mit.edu	37	chr1	183086546	183086546	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatcgccgtgatctcagaCagctactttcctcggtactt	8	13	8	12	3	1	2	1	1	1	1	5	3	2	2	2	1	3	2	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:183086546C>T	uc001gpy.3	+	9	1913	c.1656C>T	c.(1654-1656)GAC>GAT	p.D552D		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	552	Laminin IV type A.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGATCTCAGACAGCTACTTTC	0.517													5	31					0	0	1	0	0		T	183086546	T	T	183086546	2	4	27	1	0	0	0	0	0	0	0	1	8630	477	17	4		4	LAMC1	1	183086546	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	230187	183086546	66164075	609	22960											
LAMC2	3918	broad.mit.edu	37	chr1	183196007	183196007	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggccttttggcacctgtaTtccttgtaactgtcaagggg	6	13	13	9	0	1	0	1	0	0	0	2	0	2	0	3	5	1	3	3	5	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:183196007T>C	uc001gqa.2	+	9	1555	c.1241T>C	c.(1240-1242)ATT>ACT	p.I414T	LAMC2_uc001gpz.3_Missense_Mutation_p.I414T|LAMC2_uc010poa.1_Missense_Mutation_p.I114T	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	414	Laminin EGF-like 4; second part.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						GGCACCTGTATTCCTTGTAAC	0.532													4	237					0	0	1	0	0		C	183196007	C	C	183196007	3	2	27	1	0	0	0	0	1	0	0	0	8631	1493	52	3	1275	3	LAMC2	1	183196007	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	109461	183196007	66054614	610	22961											
LAMC2	3918	broad.mit.edu	37	chr1	183208692	183208692	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaaatctccagtgagatTgaacaggtaaagagaaatcg	16	8	11	6	1	1	3	0	2	1	2	3	6	1	4	1	2	1	1	1	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:183208692T>C	uc001gqa.2	+	20	3377	c.3063T>C	c.(3061-3063)ATT>ATC	p.I1021I	LAMC2_uc001gpz.3_Silent_p.I1021I|LAMC2_uc010poa.1_Silent_p.I721I	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	1021	Potential.|Domain II and I.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						CCAGTGAGATTGAACAGGTAA	0.517													9	98					0	0	1	0	0		C	183208692	C	C	183208692	2	2	27	1	0	0	0	0	0	0	0	1	8631	1800	63	3		3	LAMC2	1	183208692	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12685	183208692	66041929	611	22962											
SMG7	9887	broad.mit.edu	37	chr1	183506324	183506324	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaatagtttccatccccAtgaagaggacctctcaagta	12	11	7	11	0	2	3	1	2	2	1	5	4	4	4	4	1	0	2	4	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:183506324A>C	uc001gqg.2	+	11	1330	c.1208A>C	c.(1207-1209)CAT>CCT	p.H403P	SMG7_uc010pob.1_Missense_Mutation_p.H432P|SMG7_uc001gqf.2_Missense_Mutation_p.H403P|SMG7_uc001gqh.2_Missense_Mutation_p.H403P|SMG7_uc001gqi.2_Missense_Mutation_p.H361P|SMG7_uc010poc.1_Missense_Mutation_p.H361P	NM_173156	NP_775179	Q92540	SMG7_HUMAN	SMG-7 homolog isoform 1	403					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|intermediate filament cytoskeleton|nucleus	protein phosphatase 2A binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TTCCATCCCCATGAAGAGGAC	0.393													10	102					0	0	1	0	0		C	183506324	C	C	183506324	3	2	27	1	0	0	0	0	1	0	0	0	14823	217	8	5	1250	5	SMG7	1	183506324	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	297632	183506324	65744297	612	22963											
NCF2	4688	broad.mit.edu	37	chr1	183543714	183543714	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttcttcagcttttttccAttcctccttcttggcataca	5	19	4	13	0	3	0	1	0	2	0	6	0	6	0	3	1	2	3	3	1	1	9	rs137854516		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:183543714A>G	uc001gqj.3	-	4	684	c.409T>C	c.(409-411)TGG>CGG	p.W137R	NCF2_uc010pod.1_Intron|NCF2_uc010poe.1_Intron|NCF2_uc001gqk.3_Missense_Mutation_p.W137R	NM_000433	NP_000424	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	137	TPR 3.				cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3						GCTTTTTTCCATTCCTCCTTC	0.443													4	114					0	0	1	0	0		G	183543714	G	G	183543714	3	3	27	1	0	0	0	0	1	0	0	0	10236	217	8	3	1219	3	NCF2	1	183543714	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37390	183543714	65706907	613	22964											
GLT25D2	23127	broad.mit.edu	37	chr1	183944246	183944246	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttaccagaatgtagtctgaCcatttttccctcgcagttcg	8	15	7	11	2	1	2	0	1	1	1	4	2	2	2	3	0	1	3	3	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:183944246C>A	uc001gqr.2	-	3	849	c.477G>T	c.(475-477)TGG>TGT	p.W159C	GLT25D2_uc010poj.1_Missense_Mutation_p.W159C|GLT25D2_uc001gqs.2_Missense_Mutation_p.W39C	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	159					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						TGTAGTCTGACCATTTTTCCC	0.453													4	91					0.00024832	0.000261516	1	1	0		A	183944246	A	A	183944246	3	1	27	1	0	0	0	0	1	0	0	0	6482	508	18	5	1443	5	GLT25D2	1	183944246	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	400532	183944246	65306375	614	22965											
EDEM3	80267	broad.mit.edu	37	chr1	184663337	184663337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtttctgattgttcttgaaGctggttatctaaatctgtac	9	18	8	6	0	4	2	0	2	4	0	4	2	4	2	0	1	2	5	0	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:184663337G>A	uc010pok.1	-	20	2920	c.2659C>T	c.(2659-2661)CTT>TTT	p.L887F	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.L903F	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	887					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						TGTTCTTGAAGCTGGTTATCT	0.398													6	59					0	0	1	0	0		A	184663337	A	A	184663337	3	1	27	1	0	0	0	0	1	0	0	0	4919	971	34	2	143	2	EDEM3	1	184663337	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	719091	184663337	64587284	615	22966											
FAM129A	116496	broad.mit.edu	37	chr1	184764990	184764990	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggagagaaaggctttctccTttggccaacgagctagggac	10	8	14	9	1	1	1	0	0	1	1	2	5	1	3	2	4	2	2	2	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:184764990T>C	uc001gra.2	-	14	2102	c.1908A>G	c.(1906-1908)AAA>AAG	p.K636K	FAM129A_uc001grb.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	636					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						GGCTTTCTCCTTTGGCCAACG	0.547													6	90					0	0	1	0	0		C	184764990	C	C	184764990	2	2	27	1	0	0	0	0	0	0	0	1	5447	1606	56	3		3	FAM129A	1	184764990	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	101653	184764990	64485631	616	22967											
FAM129A	116496	broad.mit.edu	37	chr1	184765096	184765096	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctggcagaatggcagaaGctctcctggcagggctggcc	7	7	14	13	0	1	2	0	0	1	2	3	2	2	2	3	5	1	5	3	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:184765096G>T	uc001gra.2	-	14	1996	c.1802C>A	c.(1801-1803)GCT>GAT	p.A601D	FAM129A_uc001grb.1_Missense_Mutation_p.A364D	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	601					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						AATGGCAGAAGCTCTCCTGGC	0.527													7	105					8.12818e-05	8.61523e-05	1	1	0		T	184765096	T	T	184765096	3	4	27	1	0	0	0	0	1	0	0	0	5447	971	34	5	988	5	FAM129A	1	184765096	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	106	184765096	64485525	617	22968											
C1orf25	81627	broad.mit.edu	37	chr1	185089303	185089303	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttaaaaggatagatttaaActgcatcagaggtgcatctg	14	12	9	6	0	2	2	1	0	1	2	2	3	2	3	0	2	3	2	0	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:185089303A>T	uc001grf.3	-	15	2322	c.2050T>A	c.(2050-2052)TTT>ATT	p.F684I	C1orf25_uc010pon.1_Missense_Mutation_p.F528I	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	684						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						ATAGATTTAAACTGCATCAGA	0.428													16	145					0	0	1	0	0		T	185089303	T	T	185089303	3	4	27	1	0	0	0	0	1	0	0	0	2037	43	2	5	155	5	C1orf25	1	185089303	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	324207	185089303	64161318	618	22969											
IVNS1ABP	10625	broad.mit.edu	37	chr1	185276772	185276772	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggtaacatccattctaGacagtaaataatcaccacaa	17	9	5	10	0	2	1	1	0	1	1	3	1	3	1	2	1	2	3	2	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:185276772G>T	uc001grl.2	-	6	1003	c.380C>A	c.(379-381)TCT>TAT	p.S127Y	IVNS1ABP_uc001grj.2_5'Flank|IVNS1ABP_uc009wyj.2_5'UTR|IVNS1ABP_uc009wyk.2_RNA	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	127					interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						ATCCATTCTAGACAGTAAATA	0.348													6	36					2.0095e-06	2.17775e-06	1	1	0		T	185276772	T	T	185276772	3	4	27	1	0	0	0	0	1	0	0	0	7946	942	33	5	1588	5	IVNS1ABP	1	185276772	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	187469	185276772	63973849	619	22970											
HMCN1	83872	broad.mit.edu	37	chr1	185970779	185970779	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggaagatactgaagctCttcagagccactccagagga	14	7	11	9	0	2	4	1	1	1	3	3	6	3	6	2	2	3	1	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:185970779C>A	uc001grq.1	+	28	4483	c.4254C>A	c.(4252-4254)CTC>CTA	p.L1418L		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1418	Ig-like C2-type 11.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TACTGAAGCTCTTCAGAGCCA	0.398													10	80					2.17888e-05	2.33116e-05	1	1	0		A	185970779	A	A	185970779	2	1	27	1	0	0	0	0	0	0	0	1	7236	900	32	5		5	HMCN1	1	185970779	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	694007	185970779	63279842	620	22971											
HMCN1	83872	broad.mit.edu	37	chr1	186055437	186055437	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcgtggtgaacaatttcAtctctttgacctgtgaggtc	7	14	10	10	2	2	3	1	3	1	0	5	3	2	3	2	2	1	0	2	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186055437A>G	uc001grq.1	+	58	9173	c.8944A>G	c.(8944-8946)ATC>GTC	p.I2982V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2982	Ig-like C2-type 28.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GAACAATTTCATCTCTTTGAC	0.408													8	77					0	0	1	0	0		G	186055437	G	G	186055437	3	3	27	1	0	0	0	0	1	0	0	0	7236	217	8	3	9174	3	HMCN1	1	186055437	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	84658	186055437	63195184	621	22972											
HMCN1	83872	broad.mit.edu	37	chr1	186114613	186114613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggcagatgcggcggtaccGcacatgtgataaccctcctc	9	7	12	13	3	0	2	0	1	0	1	2	2	1	2	3	3	3	3	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186114613G>A	uc001grq.1	+	92	14574	c.14345G>A	c.(14344-14346)CGC>CAC	p.R4782H	HMCN1_uc001grs.1_Missense_Mutation_p.R351H	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4782	TSP type-1 5.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CGGCGGTACCGCACATGTGAT	0.572													6	34					0	0	1	0	0		A	186114613	A	A	186114613	3	1	27	1	0	0	0	0	1	0	0	0	7236	1087	38	1	14711	1	HMCN1	1	186114613	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	59176	186114613	63136008	622	22973											
HMCN1	83872	broad.mit.edu	37	chr1	186121905	186121905	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatcttgcagatgagtcatAttgcccggggcttggattcc	9	12	11	9	1	2	2	1	1	1	1	3	3	3	3	2	3	2	2	2	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186121905A>G	uc001grq.1	+	96	15149	c.14920A>G	c.(14920-14922)ATT>GTT	p.I4974V	HMCN1_uc001grs.1_Missense_Mutation_p.I543V	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4974	Nidogen G2 beta-barrel.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GATGAGTCATATTGCCCGGGG	0.423													13	111					0	0	1	0	0		G	186121905	G	G	186121905	3	3	27	1	0	0	0	0	1	0	0	0	7236	449	16	3	15302	3	HMCN1	1	186121905	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7292	186121905	63128716	623	22974											
HMCN1	83872	broad.mit.edu	37	chr1	186147639	186147639	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtatctgtccaccaggacaAcatttattaggggacgggaa	12	10	11	8	1	1	0	0	0	1	0	2	3	2	3	2	4	1	1	2	4	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186147639A>G	uc001grq.1	+	104	16264	c.16035A>G	c.(16033-16035)CAA>CAG	p.Q5345Q	HMCN1_uc001grs.1_Intron	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5345	EGF-like 6; calcium-binding (Potential).		Q -> R (in ARMD1).		response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CACCAGGACAACATTTATTAG	0.483													13	180					0	0	1	0	0		G	186147639	G	G	186147639	2	3	27	1	0	0	0	0	0	0	0	1	7236	40	2	3		3	HMCN1	1	186147639	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	25734	186147639	63102982	624	22975											
HMCN1	83872	broad.mit.edu	37	chr1	186147733	186147733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ataaccttgcacggttctccCctgtgagaaacaactatcaa	13	10	6	12	1	2	1	1	1	1	1	3	2	2	1	3	1	4	2	3	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186147733C>T	uc001grq.1	+	104	16358	c.16129C>T	c.(16129-16131)CCT>TCT	p.P5377S	HMCN1_uc001grs.1_Intron	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5377					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						ACGGTTCTCCCCTGTGAGAAA	0.453													12	219					0	0	1	0	0		T	186147733	T	T	186147733	3	4	27	1	0	0	0	0	1	0	0	0	7236	623	22	4	16543	4	HMCN1	1	186147733	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	94	186147733	63102888	625	22976											
HMCN1	83872	broad.mit.edu	37	chr1	186151335	186151335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaatacagatgcctgccagCatgagtgtaagaataccttt	15	10	8	8	0	0	3	0	1	0	2	0	3	0	3	3	0	5	2	3	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186151335C>T	uc001grq.1	+	105	16559	c.16330C>T	c.(16330-16332)CAT>TAT	p.H5444Y	HMCN1_uc001grs.1_Missense_Mutation_p.H896Y	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5444	EGF-like 7; calcium-binding (Potential).				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TGCCTGCCAGCATGAGTGTAA	0.428													22	63					0	0	1	0	0		T	186151335	T	T	186151335	3	4	27	1	0	0	0	0	1	0	0	0	7236	710	25	2	16748	2	HMCN1	1	186151335	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3602	186151335	63099286	626	22977											
HMCN1	83872	broad.mit.edu	37	chr1	186151406	186151406	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcaactcacacacaatggAaagacatgccaaggtgagaa	18	6	8	9	0	2	2	2	1	0	2	2	4	2	3	1	2	2	0	1	2	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186151406A>C	uc001grq.1	+	105	16630	c.16401A>C	c.(16399-16401)GGA>GGC	p.G5467G	HMCN1_uc001grs.1_Silent_p.G919G	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5467	EGF-like 7; calcium-binding (Potential).				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CACACAATGGAAAGACATGCC	0.388													3	65					0	0	1	0	0		C	186151406	C	C	186151406	2	2	27	1	0	0	0	0	0	0	0	1	7236	233	9	5		5	HMCN1	1	186151406	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	71	186151406	63099215	627	22978											
HMCN1	83872	broad.mit.edu	37	chr1	186157083	186157083	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgcttcaacatgagaggaAgctaccagtgcatcgataca	13	9	10	9	1	1	1	1	1	0	1	2	4	1	2	1	1	6	3	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186157083A>C	uc001grq.1	+	106	16712	c.16483A>C	c.(16483-16485)AGC>CGC	p.S5495R	HMCN1_uc001grs.1_Missense_Mutation_p.S947R	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5495					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CATGAGAGGAAGCTACCAGTG	0.498													9	117					0	0	1	0	0		C	186157083	C	C	186157083	3	2	27	1	0	0	0	0	1	0	0	0	7236	72	3	5	16905	5	HMCN1	1	186157083	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5677	186157083	63093538	628	22979											
TPR	7175	broad.mit.edu	37	chr1	186283791	186283791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaaactgacgaccacggaCaccttgtctcaatgttgtct	10	12	8	11	2	2	1	1	1	2	0	3	3	2	2	2	1	1	2	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186283791C>T	uc001grv.2	-	50	7303	c.7006G>A	c.(7006-7008)GTC>ATC	p.V2336I		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	2336					carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		CGACCACGGACACCTTGTCTC	0.353			T	NTRK1	papillary thyroid								17	55					0	0	1	0	0		T	186283791	T	T	186283791	3	4	27	1	0	0	0	0	1	0	0	0	16442	478	17	4	93	4	TPR	1	186283791	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	126708	186283791	62966830	629	22980											
TPR	7175	broad.mit.edu	37	chr1	186287715	186287715	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgaagcatcagaggtggTgctctcagtaaatacagtca	12	10	10	9	1	3	1	3	0	1	1	5	2	4	1	1	2	3	3	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186287715T>C	uc001grv.2	-	48	6982	c.6685A>G	c.(6685-6687)ACC>GCC	p.T2229A		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	2229					carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		TCAGAGGTGGTGCTCTCAGTA	0.378			T	NTRK1	papillary thyroid								8	53					0	0	1	0	0		C	186287715	C	C	186287715	3	2	27	1	0	0	0	0	1	0	0	0	16442	1696	59	3	422	3	TPR	1	186287715	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3924	186287715	62962906	630	22981											
TPR	7175	broad.mit.edu	37	chr1	186291522	186291522	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttggaactgttctgtctTcatcatcaaaaaaatgctgt	12	15	6	8	0	5	0	3	0	2	0	5	1	5	1	0	1	3	2	0	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186291522T>G	uc001grv.2	-	45	6686	c.6389A>C	c.(6388-6390)GAA>GCA	p.E2130A		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	2130					carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		TGTTCTGTCTTCATCATCAAA	0.338			T	NTRK1	papillary thyroid								4	40					0	0	1	0	0		G	186291522	G	G	186291522	3	3	27	1	0	0	0	0	1	0	0	0	16442	1783	62	5	730	5	TPR	1	186291522	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3807	186291522	62959099	631	22982											
TPR	7175	broad.mit.edu	37	chr1	186292976	186292976	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctcctgagaaaaagaagAttctgcagcacctgtatttc	14	10	7	10	0	1	3	0	1	1	3	3	4	2	3	3	0	3	3	3	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186292976A>T	uc001grv.2	-	43	6436	c.6139T>A	c.(6139-6141)TCT>ACT	p.S2047T		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	2047					carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		GAAAAAGAAGATTCTGCAGCA	0.438			T	NTRK1	papillary thyroid								4	84					0	0	1	0	0		T	186292976	T	T	186292976	3	4	27	1	0	0	0	0	1	0	0	0	16442	333	12	5	988	5	TPR	1	186292976	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1454	186292976	62957645	632	22983											
TPR	7175	broad.mit.edu	37	chr1	186302287	186302287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgtggaagtagaaggccGctcaactggtgaactctgaa	11	9	13	8	1	2	3	1	2	1	1	2	4	2	4	1	3	3	3	1	3	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186302287G>A	uc001grv.2	-	37	5719	c.5422C>T	c.(5422-5424)CGG>TGG	p.R1808W		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1808					carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		GTAGAAGGCCGCTCAACTGGT	0.393			T	NTRK1	papillary thyroid								6	54					0	0	1	0	0		A	186302287	A	A	186302287	3	1	27	1	0	0	0	0	1	0	0	0	16442	1086	38	1	1729	1	TPR	1	186302287	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9311	186302287	62948334	633	22984											
TPR	7175	broad.mit.edu	37	chr1	186304584	186304584	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattgggactttagcgcagtAatgcgaacatccaattcatc	12	12	8	9	2	1	0	1	0	0	0	3	2	2	1	1	1	3	2	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186304584A>G	uc001grv.2	-	34	5094	c.4797T>C	c.(4795-4797)ATT>ATC	p.I1599I		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1599	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		TTAGCGCAGTAATGCGAACAT	0.423			T	NTRK1	papillary thyroid								8	126					0	0	1	0	0		G	186304584	G	G	186304584	2	3	27	1	0	0	0	0	0	0	0	1	16442	358	13	3		3	TPR	1	186304584	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2297	186304584	62946037	634	22985											
TPR	7175	broad.mit.edu	37	chr1	186315342	186315342	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccttctctacttccatcaaCttcttttccaactgtgtctg	6	18	3	14	0	4	0	1	0	3	0	8	0	7	0	3	0	3	0	3	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186315342C>A	uc001grv.2	-	23	3318	c.3021G>T	c.(3019-3021)AAG>AAT	p.K1007N		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1007	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		CTTCCATCAACTTCTTTTCCA	0.353			T	NTRK1	papillary thyroid								9	72					2.17888e-05	2.33116e-05	1	1	0		A	186315342	A	A	186315342	3	1	27	1	0	0	0	0	1	0	0	0	16442	564	20	5	4186	5	TPR	1	186315342	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10758	186315342	62935279	635	22986											
TPR	7175	broad.mit.edu	37	chr1	186316487	186316487	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttgatattgttccacattGctcgtacttgttttgagtct	6	19	8	8	1	1	2	0	2	1	0	3	2	2	2	1	0	2	5	1	0	2	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186316487G>A	uc001grv.2	-	22	3177	c.2880C>T	c.(2878-2880)AGC>AGT	p.S960S		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	960	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		GTTCCACATTGCTCGTACTTG	0.378			T	NTRK1	papillary thyroid								6	138					0	0	1	0	0		A	186316487	A	A	186316487	2	1	27	1	0	0	0	0	0	0	0	1	16442	1310	46	2		2	TPR	1	186316487	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1145	186316487	62934134	636	22987											
C1orf27	54953	broad.mit.edu	37	chr1	186386684	186386684	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccctttcagcttgtatgAgttcttctatgaatagtcaa	11	16	6	8	0	4	2	2	2	2	0	4	2	4	2	1	0	2	3	1	0	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186386684A>G	uc001grw.2	+	14	1431	c.1195A>G	c.(1195-1197)AGT>GGT	p.S399G	C1orf27_uc010poq.1_Missense_Mutation_p.S376G|C1orf27_uc010por.1_Missense_Mutation_p.S367G	NM_017847	NP_060317	Q5SWX8	ODR4_HUMAN	odorant response abnormal 4 isoform 1	399						integral to membrane	oxidoreductase activity|zinc ion binding			ovary(1)	1						AGCTTGTATGAGTTCTTCTAT	0.284													3	14					0	0	1	0	0		G	186386684	G	G	186386684	3	3	27	1	0	0	0	0	1	0	0	0	2039	304	11	3	1241	3	C1orf27	1	186386684	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	70197	186386684	62863937	637	22988											
PLA2G4A	5321	broad.mit.edu	37	chr1	186919835	186919835	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaatgatagctcggacagTgatgatgaatcacacgaacc	15	8	10	8	2	1	4	1	4	0	0	2	6	1	5	1	1	2	2	1	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:186919835T>C	uc001gsc.2	+	13	1516	c.1311T>C	c.(1309-1311)AGT>AGC	p.S437S	PLA2G4A_uc010pos.1_Silent_p.S377S	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	437	PLA2c.				phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	GCTCGGACAGTGATGATGAAT	0.373													4	44					0	0	1	0	0		C	186919835	C	C	186919835	2	2	27	1	0	0	0	0	0	0	0	1	12020	1693	59	3		3	PLA2G4A	1	186919835	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	533151	186919835	62330786	638	22989											
FAM5C	339479	broad.mit.edu	37	chr1	190067601	190067601	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaaaaatgtcttccatttGttccccagagttaatgtcca	12	14	5	10	0	2	1	1	0	1	1	5	1	5	1	4	0	0	2	4	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:190067601G>A	uc001gse.1	-	8	2080	c.1848C>T	c.(1846-1848)AAC>AAT	p.N616N	FAM5C_uc010pot.1_Silent_p.N514N	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	616						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TCTTCCATTTGTTCCCCAGAG	0.448													18	264					0	0	1	0	0		A	190067601	A	A	190067601	2	1	27	1	0	0	0	0	0	0	0	1	5608	1368	48	4		4	FAM5C	1	190067601	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3147766	190067601	59183020	639	22990											
FAM5C	339479	broad.mit.edu	37	chr1	190129803	190129803	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaaatgtcttacctttgTcttggcaggctgatgagggg	8	12	12	9	0	2	2	0	2	2	0	2	2	2	2	2	4	1	2	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:190129803T>C	uc001gse.1	-	7	1411	c.1179A>G	c.(1177-1179)AGA>AGG	p.R393R	FAM5C_uc010pot.1_Silent_p.R291R	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	393						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CTTACCTTTGTCTTGGCAGGC	0.363													9	93					0	0	1	0	0		C	190129803	C	C	190129803	2	2	27	1	0	0	0	0	0	0	0	1	5608	1664	58	3		3	FAM5C	1	190129803	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	62202	190129803	59120818	640	22991											
FAM5C	339479	broad.mit.edu	37	chr1	190130020	190130020	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcataaataacttgaattcaTctgaaaaatgtcaaaattca	19	13	3	6	0	5	2	4	2	1	0	5	2	5	2	0	0	1	0	0	0	8	5	rs112829253		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:190130020T>C	uc001gse.1	-	7	1194	c.962A>G	c.(961-963)GAT>GGT	p.D321G	FAM5C_uc010pot.1_Missense_Mutation_p.D219G	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	321						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CTTGAATTCATCTGAAAAATG	0.274													21	55					0	0	1	0	0		C	190130020	C	C	190130020	3	2	27	1	0	0	0	0	1	0	0	0	5608	1449	50	3	1346	3	FAM5C	1	190130020	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	217	190130020	59120601	641	22992											
TROVE2	6738	broad.mit.edu	37	chr1	193038252	193038252	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccaattctcaggatggatAtgtatggcaagtcactgaca	13	10	10	8	0	2	1	2	1	1	0	3	3	2	3	1	3	1	2	1	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:193038252A>G	uc001gss.2	+	2	243	c.68A>G	c.(67-69)TAT>TGT	p.Y23C	TROVE2_uc001gst.1_Intron|TROVE2_uc001gsu.1_Intron|TROVE2_uc001gsv.1_Missense_Mutation_p.Y23C|TROVE2_uc001gsw.2_Missense_Mutation_p.Y23C|TROVE2_uc009wyp.2_Missense_Mutation_p.Y23C|TROVE2_uc009wyq.2_Missense_Mutation_p.Y23C|TROVE2_uc001gsx.1_Missense_Mutation_p.Y23C	NM_004600	NP_004591	P10155	RO60_HUMAN	TROVE domain family, member 2 isoform 2	23	TROVE.				transcription from RNA polymerase III promoter	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0						CAGGATGGATATGTATGGCAA	0.398													4	57					0	0	1	0	0		G	193038252	G	G	193038252	3	3	27	1	0	0	0	0	1	0	0	0	16602	449	16	3	70	3	TROVE2	1	193038252	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2908232	193038252	56212369	642	22993											
CDC73	79577	broad.mit.edu	37	chr1	193094253	193094253	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttcaggactggaaaggAaggccaacccagagagtact	14	8	11	8	0	1	1	1	0	0	1	1	5	1	4	2	4	2	1	2	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:193094253A>G	uc001gtb.2	+	2	386	c.143A>G	c.(142-144)GAA>GGA	p.E48G		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	48					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding	p.E48*(1)		parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						ACTGGAAAGGAAGGCCAACCC	0.333									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				5	42					0	0	1	0	0		G	193094253	G	G	193094253	3	3	27	1	0	0	0	0	1	0	0	0	3088	246	9	3	149	3	CDC73	1	193094253	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	56001	193094253	56156368	643	22994											
CFHR4	10877	broad.mit.edu	37	chr1	196883700	196883700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttaagctccatgacacatTggactacgaatgctacgatg	12	11	9	9	2	0	1	0	1	0	0	1	4	1	2	1	1	4	3	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:196883700T>C	uc001gto.2	+	4	584	c.515T>C	c.(514-516)TTG>TCG	p.L172S	CFHR4_uc009wyy.2_Missense_Mutation_p.L418S|CFHR4_uc001gtp.2_Missense_Mutation_p.L419S	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	172	Sushi 3.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						CATGACACATTGGACTACGAA	0.398													8	98					0	0	1	0	0		C	196883700	C	C	196883700	3	2	27	1	0	0	0	0	1	0	0	0	3290	1821	63	3	529	3	CFHR4	1	196883700	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3789447	196883700	52366921	644	22995											
ASPM	259266	broad.mit.edu	37	chr1	197071893	197071893	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctttcaaaattgtcaggTacttttcacgctgcatttta	10	16	6	9	1	3	0	3	0	0	0	3	0	3	0	0	1	3	4	0	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:197071893T>C	uc001gtu.2	-	18	6745	c.6488A>G	c.(6487-6489)TAC>TGC	p.Y2163C	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2163					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						AATTGTCAGGTACTTTTCACG	0.368													10	111					0	0	1	0	0		C	197071893	C	C	197071893	3	2	27	1	0	0	0	0	1	0	0	0	1057	1638	57	3	3989	3	ASPM	1	197071893	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	188193	197071893	52178728	645	22996											
ASPM	259266	broad.mit.edu	37	chr1	197093357	197093357	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcttattaataagatcAtcagaatggcatgatagtag	14	16	7	4	0	3	3	2	1	1	2	3	3	3	3	0	1	0	2	0	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:197093357A>G	uc001gtu.2	-	13	3530	c.3273T>C	c.(3271-3273)GAT>GAC	p.D1091D	ASPM_uc001gtv.2_Silent_p.D1091D|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1091					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TAATAAGATCATCAGAATGGC	0.299													5	62					0	0	1	0	0		G	197093357	G	G	197093357	2	3	27	1	0	0	0	0	0	0	0	1	1057	214	8	3		3	ASPM	1	197093357	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21464	197093357	52157264	646	22997											
ASPM	259266	broad.mit.edu	37	chr1	197094055	197094055	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttttttctctgtgcctaTccacaatatccttagataga	10	16	6	9	0	1	2	0	0	1	2	4	3	3	2	3	0	1	1	3	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:197094055T>C	uc001gtu.2	-	12	3370	c.3113A>G	c.(3112-3114)GAT>GGT	p.D1038G	ASPM_uc001gtv.2_Missense_Mutation_p.D1038G|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1038	CH 1.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TCTGTGCCTATCCACAATATC	0.308													10	180					0	0	1	0	0		C	197094055	C	C	197094055	3	2	27	1	0	0	0	0	1	0	0	0	1057	1435	50	3	7388	3	ASPM	1	197094055	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	698	197094055	52156566	647	22998											
ASPM	259266	broad.mit.edu	37	chr1	197097627	197097627	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttatacgtacacaaggcGcactccacattgcaagtcta	12	11	6	12	2	2	0	0	0	2	0	3	0	3	0	1	1	3	3	1	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:197097627G>A	uc001gtu.2	-	10	3186	c.2929C>T	c.(2929-2931)CGC>TGC	p.R977C	ASPM_uc001gtv.2_Missense_Mutation_p.R977C|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	977	CH 1.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TACACAAGGCGCACTCCACAT	0.348													16	65					0	0	1	0	0		A	197097627	A	A	197097627	3	1	27	1	0	0	0	0	1	0	0	0	1057	1087	38	1	7580	1	ASPM	1	197097627	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3572	197097627	52152994	648	22999											
ASPM	259266	broad.mit.edu	37	chr1	197099091	197099091	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtgtctatactcagctgcTatatcaggattccaaagtag	11	12	10	8	0	3	0	2	0	1	0	4	1	4	1	1	2	3	3	1	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:197099091T>C	uc001gtu.2	-	8	2840	c.2583A>G	c.(2581-2583)ATA>ATG	p.I861M	ASPM_uc001gtv.2_Missense_Mutation_p.I861M|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	861					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						ACTCAGCTGCTATATCAGGAT	0.328													6	107					0	0	1	0	0		C	197099091	C	C	197099091	3	2	27	1	0	0	0	0	1	0	0	0	1057	1512	53	3	7934	3	ASPM	1	197099091	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1464	197099091	52151530	649	23000											
ASPM	259266	broad.mit.edu	37	chr1	197111869	197111869	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcagtttggttttctctggTacaggtggccttccttttag	4	18	10	9	0	2	0	1	0	1	0	4	0	3	0	2	4	1	3	2	4	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:197111869T>C	uc001gtu.2	-	3	1770	c.1513A>G	c.(1513-1515)ACC>GCC	p.T505A	ASPM_uc001gtv.2_Missense_Mutation_p.T505A|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	505					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TTTTCTCTGGTACAGGTGGCC	0.358													10	169					0	0	1	0	0		C	197111869	C	C	197111869	3	2	27	1	0	0	0	0	1	0	0	0	1057	1638	57	3	9024	3	ASPM	1	197111869	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12778	197111869	52138752	650	23001											
CRB1	23418	broad.mit.edu	37	chr1	197390140	197390140	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatttaacaggaatccactgCgaagaagacgtcaatgaatg	16	9	9	7	2	1	3	1	1	0	2	2	5	2	4	1	1	2	0	1	1	7	3	rs115352681	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:197390140C>T	uc001gtz.2	+	6	1317	c.1182C>T	c.(1180-1182)TGC>TGT	p.C394C	CRB1_uc010poz.1_Silent_p.C325C|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Silent_p.C282C|CRB1_uc010ppb.1_Silent_p.C394C|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_5'UTR|CRB1_uc001gub.1_Silent_p.C43C	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	394	Extracellular (Potential).|EGF-like 9.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						GAATCCACTGCGAAGAAGACG	0.343													7	103					0	0	1	0	0		T	197390140	T	T	197390140	2	4	27	1	0	0	0	0	0	0	0	1	3851	776	27	1		1	CRB1	1	197390140	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	278271	197390140	51860481	651	23002											
LHX9	56956	broad.mit.edu	37	chr1	197889141	197889141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagaagcccgccctgtgcGccggctgcgggggcaagatc	6	4	17	14	5	0	2	0	0	0	2	1	3	0	2	3	4	3	2	3	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:197889141G>A	uc001guk.1	+	2	651	c.214G>A	c.(214-216)GCC>ACC	p.A72T	LHX9_uc001gui.1_Missense_Mutation_p.A63T|LHX9_uc001guj.1_Missense_Mutation_p.A78T	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	72	LIM zinc-binding 1.				motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						CGCCCTGTGCGCCGGCTGCGG	0.647													15	167					0	0	1	0	0		A	197889141	A	A	197889141	3	1	27	1	0	0	0	0	1	0	0	0	8793	1087	38	1	252	1	LHX9	1	197889141	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	499001	197889141	51361480	652	23003											
LHX9	56956	broad.mit.edu	37	chr1	197889164	197889164	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcgggggcaagatctcGgacaggtactatctgctggc	7	8	16	10	2	2	1	0	0	2	1	3	2	2	2	0	6	3	4	0	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:197889164G>A	uc001guk.1	+	2	674	c.237G>A	c.(235-237)TCG>TCA	p.S79S	LHX9_uc001gui.1_Silent_p.S70S|LHX9_uc001guj.1_Silent_p.S85S	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	79	LIM zinc-binding 1.				motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						GCAAGATCTCGGACAGGTACT	0.627													18	194					0	0	1	0	0		A	197889164	A	A	197889164	2	1	27	1	0	0	0	0	0	0	0	1	8793	1103	39	1		1	LHX9	1	197889164	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23	197889164	51361457	653	23004											
NEK7	140609	broad.mit.edu	37	chr1	198288607	198288607	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaccagacgtcacctatgtTtatgacgtagcaaagaggat	13	9	10	9	3	1	3	1	1	0	2	1	5	1	4	2	1	1	3	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:198288607T>G	uc001gun.3	+	10	1191	c.864T>G	c.(862-864)GTT>GTG	p.V288V		NM_133494	NP_598001	Q8TDX7	NEK7_HUMAN	NIMA-related kinase 7	288	Protein kinase.					cytoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|lung(1)|ovary(1)	4						TCACCTATGTTTATGACGTAG	0.398													9	76					0	0	1	0	0		G	198288607	G	G	198288607	2	3	27	1	0	0	0	0	0	0	0	1	10348	1828	64	5		5	NEK7	1	198288607	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	399443	198288607	50962014	654	23005											
PTPRC	5788	broad.mit.edu	37	chr1	198711080	198711080	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggtgcctgaggatcctcActtgctcctcaaactgagaa	9	9	11	12	1	2	2	2	2	0	1	4	4	4	3	3	3	3	1	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:198711080A>G	uc001gur.1	+	24	2660	c.2480A>G	c.(2479-2481)CAC>CGC	p.H827R	PTPRC_uc001gus.1_Missense_Mutation_p.H779R|PTPRC_uc001gut.1_Missense_Mutation_p.H666R	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	827	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						GAGGATCCTCACTTGCTCCTC	0.448													4	32					0	0	1	0	0		G	198711080	G	G	198711080	3	3	27	1	0	0	0	0	1	0	0	0	12822	159	6	3	2581	3	PTPRC	1	198711080	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	422473	198711080	50539541	655	23006											
PTPRC	5788	broad.mit.edu	37	chr1	198711111	198711111	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactgagaaggagagtgaaTgccttcagcaatttcttcag	14	10	10	7	0	3	3	2	2	1	2	3	5	3	3	1	1	3	1	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:198711111T>C	uc001gur.1	+	24	2691	c.2511T>C	c.(2509-2511)AAT>AAC	p.N837N	PTPRC_uc001gus.1_Silent_p.N789N|PTPRC_uc001gut.1_Silent_p.N676N	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	837	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						GGAGAGTGAATGCCTTCAGCA	0.463													5	32					0	0	1	0	0		C	198711111	C	C	198711111	2	2	27	1	0	0	0	0	0	0	0	1	12822	1461	51	3		3	PTPRC	1	198711111	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31	198711111	50539510	656	23007											
KIF14	9928	broad.mit.edu	37	chr1	200539049	200539049	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaaatacctgatgaatgTgaagaatgcaaattcttaat	20	11	6	4	0	1	4	0	3	1	1	1	4	1	4	1	0	2	1	1	0	9	3	rs150400242	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:200539049T>A	uc010ppk.1	-	23	4090	c.3651A>T	c.(3649-3651)TCA>TCT	p.S1217S	KIF14_uc010ppj.1_Silent_p.S726S	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	1217	Required for CIT-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						CTGATGAATGTGAAGAATGCA	0.259													5	81					0	0	1	0	0		A	200539049	A	A	200539049	2	1	27	1	0	0	0	0	0	0	0	1	8292	1683	59	5		5	KIF14	1	200539049	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1827938	200539049	48711572	657	23008											
KIF14	9928	broad.mit.edu	37	chr1	200558367	200558367	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttgtagccaatgtttccAtttctaatcgctttttgttg	6	21	7	7	1	1	0	0	0	1	0	3	0	2	0	2	0	1	5	2	0	3	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:200558367A>G	uc010ppk.1	-	18	3531	c.3092T>C	c.(3091-3093)ATG>ACG	p.M1031T	KIF14_uc010ppj.1_Missense_Mutation_p.M540T	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	1031	Potential.|Required for CIT-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						CAATGTTTCCATTTCTAATCG	0.318													9	96					0	0	1	0	0		G	200558367	G	G	200558367	3	3	27	1	0	0	0	0	1	0	0	0	8292	217	8	3	1906	3	KIF14	1	200558367	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19318	200558367	48692254	658	23009											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200776632	200776632	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccacagatctgccctatgaTattgaggacgctgtcatgta	10	11	10	10	1	2	3	1	2	1	1	2	4	2	4	2	1	1	2	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:200776632T>G	uc001gvl.2	+	3	798	c.528T>G	c.(526-528)GAT>GAG	p.D176E	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.D176E|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.D176E	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	176						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TGCCCTATGATATTGAGGACG	0.368													5	102					0	0	1	0	0		G	200776632	G	G	200776632	3	3	27	1	0	0	0	0	1	0	0	0	2615	1403	49	5	538	5	CAMSAP1L1	1	200776632	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	218265	200776632	48473989	659	23010											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200822450	200822450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaagaagatgagagagcacGcagagaatttattaggcaag	18	6	13	4	1	0	5	0	1	0	4	0	8	0	5	0	1	1	3	0	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:200822450G>A	uc001gvl.2	+	14	3953	c.3683G>A	c.(3682-3684)CGC>CAC	p.R1228H	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.R1217H|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.R1201H	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	1228						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GAGAGAGCACGCAGAGAATTT	0.368													4	79					0	0	1	0	0		A	200822450	A	A	200822450	3	1	27	1	0	0	0	0	1	0	0	0	2615	1087	38	1	3700	1	CAMSAP1L1	1	200822450	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	45818	200822450	48428171	660	23011											
C1orf106	55765	broad.mit.edu	37	chr1	200880842	200880842	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagacccatcgtcaccgCggggcctgggtcccagccgg	6	4	13	18	4	1	1	1	0	0	1	3	1	2	1	6	4	1	0	6	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:200880842C>T	uc001gvo.2	+	9	1506	c.1476C>T	c.(1474-1476)CGC>CGT	p.R492R	C1orf106_uc010ppm.1_Silent_p.R407R	NM_018265	NP_060735	Q3KP66	CA106_HUMAN	hypothetical protein LOC55765 isoform 1	492										skin(2)|ovary(1)	3						ATCGTCACCGCGGGGCCTGGG	0.687													11	56					0	0	1	0	0		T	200880842	T	T	200880842	2	4	27	1	0	0	0	0	0	0	0	1	1983	755	27	1		1	C1orf106	1	200880842	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	58392	200880842	48369779	661	23012											
KIF21B	23046	broad.mit.edu	37	chr1	200965463	200965463	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggttcatctcccgcagcCtcttctcatagtctgccttg	4	13	7	17	2	5	0	2	0	4	0	7	0	5	0	4	1	2	2	4	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:200965463C>A	uc001gvs.1	-	15	2455	c.2138G>T	c.(2137-2139)AGG>ATG	p.R713M	KIF21B_uc001gvr.1_Missense_Mutation_p.R713M|KIF21B_uc009wzl.1_Missense_Mutation_p.R713M|KIF21B_uc010ppn.1_Missense_Mutation_p.R713M	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	713	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						CTCCCGCAGCCTCTTCTCATA	0.592													5	150					0.00116845	0.00121513	1	1	0		A	200965463	A	A	200965463	3	1	27	1	0	0	0	0	1	0	0	0	8305	681	24	5	2816	5	KIF21B	1	200965463	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	84621	200965463	48285158	662	23013											
KIF21B	23046	broad.mit.edu	37	chr1	200974805	200974805	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgctgtcaaacaggtcaagGatctcctcgttgtagagctg	9	11	12	9	1	3	1	2	0	1	1	5	2	3	2	1	2	3	4	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:200974805G>T	uc001gvs.1	-	4	782	c.465C>A	c.(463-465)ATC>ATA	p.I155I	KIF21B_uc001gvr.1_Silent_p.I155I|KIF21B_uc009wzl.1_Silent_p.I155I|KIF21B_uc010ppn.1_Silent_p.I155I|KIF21B_uc001gvt.1_5'UTR	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	155	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						ACAGGTCAAGGATCTCCTCGT	0.537													12	130					1.52009e-12	1.6921e-12	1	1	0		T	200974805	T	T	200974805	2	4	27	1	0	0	0	0	0	0	0	1	8305	1164	41	5		5	KIF21B	1	200974805	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9342	200974805	48275816	663	23014											
NAV1	89796	broad.mit.edu	37	chr1	201618328	201618328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgagccggatccctcgaggaCcctatgcggaggtcaagccg	8	5	14	14	5	1	0	1	0	0	0	3	5	2	3	4	4	3	0	4	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:201618328C>T	uc001gwu.2	+	1	879	c.532C>T	c.(532-534)CCC>TCC	p.P178S		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	178					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						CCCTCGAGGACCCTATGCGGA	0.692													5	39					0	0	1	0	0		T	201618328	T	T	201618328	3	4	27	1	0	0	0	0	1	0	0	0	10201	507	18	4	534	4	NAV1	1	201618328	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	643523	201618328	47632293	664	23015											
IPO9	55705	broad.mit.edu	37	chr1	201843974	201843974	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtagatgactccaatgatAtgtgggaggaccaggaggag	14	7	15	5	0	0	3	0	2	0	1	1	7	1	7	2	4	0	1	2	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:201843974A>G	uc001gwz.2	+	22	2898	c.2848A>G	c.(2848-2850)ATG>GTG	p.M950V		NM_018085	NP_060555	Q96P70	IPO9_HUMAN	importin 9	950					protein import into nucleus	cytoplasm|nucleus	histone binding|protein transporter activity			ovary(2)	2						CTCCAATGATATGTGggagga	0.343													14	121					0	0	1	0	0		G	201843974	G	G	201843974	3	3	27	1	0	0	0	0	1	0	0	0	7815	449	16	3	2934	3	IPO9	1	201843974	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	225646	201843974	47406647	665	23016											
ELF3	1999	broad.mit.edu	37	chr1	201982112	201982112	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcccactcctcagactcCggtggaagtgacgtggacct	8	8	11	14	2	1	2	1	1	0	1	4	4	4	4	4	3	1	1	4	3	1	0	rs148651345		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:201982112C>T	uc001gxg.3	+	5	3828	c.636C>T	c.(634-636)TCC>TCT	p.S212S	ELF3_uc001gxi.3_Silent_p.S212S|ELF3_uc001gxh.3_Silent_p.S212S	NM_004433	NP_004424	P78545	ELF3_HUMAN	E74-like factor 3 (ets domain transcription	212					epidermis development|epithelial cell differentiation|inflammatory response|mammary gland involution|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0						CCTCAGACTCCGGTGGAAGTG	0.642													3	29					0	0	1	0	0		T	201982112	T	T	201982112	2	4	27	1	0	0	0	0	0	0	0	1	5063	639	23	1		1	ELF3	1	201982112	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	138138	201982112	47268509	666	23017											
GPR37L1	9283	broad.mit.edu	37	chr1	202097334	202097334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgtggtgggcctgaccGtggtctacgccttctgcacc	4	9	13	15	3	2	1	0	1	2	0	2	1	2	1	5	3	2	2	5	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:202097334G>A	uc001gxj.2	+	2	1159	c.1096G>A	c.(1096-1098)GTG>ATG	p.V366M		NM_004767	NP_004758	O60883	ETBR2_HUMAN	G-protein coupled receptor 37 like 1 precursor	366	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2						GGGCCTGACCGTGGTCTACGC	0.652													5	69					0	0	1	0	0		A	202097334	A	A	202097334	3	1	27	1	0	0	0	0	1	0	0	0	6707	1145	40	1	1102	1	GPR37L1	1	202097334	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	115222	202097334	47153287	667	23018											
LGR6	59352	broad.mit.edu	37	chr1	202287192	202287192	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctggtgctgctgaccgtgttCgctggcgggcctgtccccct	1	11	14	15	3	0	1	0	1	0	0	2	1	1	1	4	3	2	4	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:202287192C>G	uc001gxu.2	+	18	1761	c.1761C>G	c.(1759-1761)TTC>TTG	p.F587L	LGR6_uc001gxv.2_Missense_Mutation_p.F535L|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Missense_Mutation_p.F448L	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	587	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						TGACCGTGTTCGCTGGCGGGC	0.617													11	101					0	0	1	0	0		G	202287192	G	G	202287192	3	3	27	1	0	0	0	0	1	0	0	0	8774	883	31	5	1978	5	LGR6	1	202287192	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	189858	202287192	46963429	668	23019											
PPP1R12B	4660	broad.mit.edu	37	chr1	202396208	202396208	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaactcaatgttcaggatTatgatggctggactcccctc	10	12	9	10	0	2	2	2	2	0	0	4	4	3	4	2	3	1	2	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:202396208T>A	uc001gya.1	+	5	886	c.742T>A	c.(742-744)TAT>AAT	p.Y248N	PPP1R12B_uc001gxy.2_Missense_Mutation_p.Y248N|PPP1R12B_uc009xad.1_Missense_Mutation_p.Y54N|PPP1R12B_uc009xae.1_Missense_Mutation_p.Y248N|PPP1R12B_uc001gxz.1_Missense_Mutation_p.Y248N	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	248					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			TGTTCAGGATTATGATGGCTG	0.413													7	98					0	0	1	0	0		A	202396208	A	A	202396208	3	1	27	1	0	0	0	0	1	0	0	0	12377	1754	61	5	760	5	PPP1R12B	1	202396208	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	109016	202396208	46854413	669	23020											
PPP1R12B	4660	broad.mit.edu	37	chr1	202398034	202398034	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctcgtggagcatttggagTtgctccagaagaagcagaat	11	10	13	7	1	1	3	0	0	1	3	3	5	2	5	1	2	3	4	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:202398034T>C	uc001gya.1	+	6	1042	c.898T>C	c.(898-900)TTG>CTG	p.L300L	PPP1R12B_uc001gxy.2_Silent_p.L300L|PPP1R12B_uc009xad.1_Silent_p.L106L|PPP1R12B_uc009xae.1_Silent_p.L300L|PPP1R12B_uc001gxz.1_Silent_p.L300L	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	300					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			GCATTTGGAGTTGCTCCAGAA	0.438													6	43					0	0	1	0	0		C	202398034	C	C	202398034	2	2	27	1	0	0	0	0	0	0	0	1	12377	1722	60	3		3	PPP1R12B	1	202398034	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1826	202398034	46852587	670	23021											
PPP1R12B	4660	broad.mit.edu	37	chr1	202464568	202464568	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgattctgagagttcagagActaccacaaacactacaact	15	9	6	11	0	2	3	1	2	1	2	2	5	2	3	1	0	4	1	1	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:202464568A>T	uc001gya.1	+	16	2437	c.2293A>T	c.(2293-2295)ACT>TCT	p.T765S	PPP1R12B_uc001gxz.1_Missense_Mutation_p.T765S|PPP1R12B_uc001gyb.1_5'UTR|PPP1R12B_uc001gyc.1_5'UTR	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	765					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			GAGTTCAGAGACTACCACAAA	0.458													5	57					0	0	1	0	0		T	202464568	T	T	202464568	3	4	27	1	0	0	0	0	1	0	0	0	12377	275	10	5	2445	5	PPP1R12B	1	202464568	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	66534	202464568	46786053	671	23022											
PPP1R12B	4660	broad.mit.edu	37	chr1	202464749	202464749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctaagaggctgtccatccGagagaggaggcggcccaagg	10	5	15	11	2	1	2	0	0	1	2	3	5	3	3	3	5	0	1	3	5	2	1	rs3817221		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:202464749G>A	uc001gya.1	+	17	2531	c.2387G>A	c.(2386-2388)CGA>CAA	p.R796Q	PPP1R12B_uc001gxz.1_Missense_Mutation_p.R796Q|PPP1R12B_uc001gyb.1_Missense_Mutation_p.R22Q|PPP1R12B_uc001gyc.1_Missense_Mutation_p.R22Q	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	796					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			CTGTCCATCCGAGAGAGGAGG	0.463													8	40					0	0	1	0	0		A	202464749	A	A	202464749	3	1	27	1	0	0	0	0	1	0	0	0	12377	1058	37	1	2543	1	PPP1R12B	1	202464749	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	181	202464749	46785872	672	23023											
PPFIA4	8497	broad.mit.edu	37	chr1	203033065	203033065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagtgcctggtggacgcccGcatgctggaccacctcacca	7	6	13	15	2	1	0	1	0	0	0	1	3	1	3	5	4	2	2	5	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:203033065G>A	uc001gyz.2	+	12	2059	c.1466G>A	c.(1465-1467)CGC>CAC	p.R489H	PPFIA4_uc009xaj.2_Missense_Mutation_p.R1120H|PPFIA4_uc010pqf.1_Missense_Mutation_p.R702H|PPFIA4_uc001gza.2_Missense_Mutation_p.R480H|PPFIA4_uc001gzb.1_Missense_Mutation_p.R175H|PPFIA4_uc001gzc.1_Missense_Mutation_p.R31H	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	489	SAM 2.				cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						GTGGACGCCCGCATGCTGGAC	0.622													12	42					0	0	1	0	0		A	203033065	A	A	203033065	3	1	27	1	0	0	0	0	1	0	0	0	12331	1087	38	1	1512	1	PPFIA4	1	203033065	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	568316	203033065	46217556	673	23024											
MYBPH	4608	broad.mit.edu	37	chr1	203139459	203139459	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccttggtgacggtggcCgaggtgctgagtccacacag	7	8	15	11	2	0	2	0	2	0	0	2	3	2	2	3	4	2	2	3	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:203139459C>T	uc001gzh.1	-	7	1112	c.1053G>A	c.(1051-1053)TCG>TCA	p.S351S	FMOD_uc010pqi.1_Intron	NM_004997	NP_004988	Q13203	MYBPH_HUMAN	myosin binding protein H	351	Fibronectin type-III 2.				cell adhesion|regulation of striated muscle contraction	myosin filament	structural constituent of muscle				0			BRCA - Breast invasive adenocarcinoma(75;0.153)	Colorectal(1306;0.0306)		TGACGGTGGCCGAGGTGCTGA	0.597													11	42					0	0	1	0	0		T	203139459	T	T	203139459	2	4	27	1	0	0	0	0	0	0	0	1	10032	639	23	1		1	MYBPH	1	203139459	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	106394	203139459	46111162	674	23025											
CHIT1	1118	broad.mit.edu	37	chr1	203186215	203186215	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttcagagggctgacctggTtttggaacttcaagctctgg	7	12	14	8	0	3	2	2	1	1	1	3	3	3	3	1	5	2	4	1	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:203186215T>G	uc001gzn.2	-	11	1299	c.1203A>C	c.(1201-1203)AAA>AAC	p.K401N	FMOD_uc010pqi.1_Intron|CHIT1_uc001gzm.1_Intron|CHIT1_uc009xal.1_Missense_Mutation_p.K163N|CHIT1_uc009xam.1_RNA|CHIT1_uc009xan.1_RNA|CHIT1_uc001gzo.2_Missense_Mutation_p.K392N	NM_003465	NP_003456	Q13231	CHIT1_HUMAN	chitotriosidase precursor	401					chitin catabolic process|immune response|response to bacterium	extracellular space|lysosome	cation binding|chitin binding|endochitinase activity				0						GCTGACCTGGTTTTGGAACTT	0.562											OREG0014113	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	77					0	0	1	0	0		G	203186215	G	G	203186215	3	3	27	1	0	0	0	0	1	0	0	0	3349	1722	60	5	201	5	CHIT1	1	203186215	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	46756	203186215	46064406	675	23026											
OPTC	26254	broad.mit.edu	37	chr1	203468795	203468795	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaagttgaagaggattgAcctctccaacaacctcattt	14	10	7	10	0	2	3	1	2	1	1	3	4	2	4	3	1	3	2	3	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:203468795A>T	uc001gzu.1	+	5	664	c.548A>T	c.(547-549)GAC>GTC	p.D183V		NM_014359	NP_055174	Q9UBM4	OPT_HUMAN	opticin precursor	183	LRR 2.					proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.109)			AAGAGGATTGACCTCTCCAAC	0.502													10	302					0	0	1	0	0		T	203468795	T	T	203468795	3	4	27	1	0	0	0	0	1	0	0	0	10907	275	10	5	562	5	OPTC	1	203468795	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	282580	203468795	45781826	676	23027											
ZC3H11A	9877	broad.mit.edu	37	chr1	203816621	203816621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agttttgccacccattgttgCcagcagaggacaatcagagg	11	9	11	10	0	1	2	1	0	0	2	1	3	1	3	3	2	3	3	3	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:203816621C>T	uc001hac.2	+	15	1968	c.1352C>T	c.(1351-1353)GCC>GTC	p.A451V	ZC3H11A_uc001had.2_Missense_Mutation_p.A451V|ZC3H11A_uc001hae.2_Missense_Mutation_p.A451V|ZC3H11A_uc001haf.2_Missense_Mutation_p.A451V|ZC3H11A_uc010pqm.1_Missense_Mutation_p.A397V|ZC3H11A_uc001hag.1_Missense_Mutation_p.A451V	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	451							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			CCCATTGTTGCCAGCAGAGGA	0.423													4	83					0	0	1	0	0		T	203816621	T	T	203816621	3	4	27	1	0	0	0	0	1	0	0	0	17585	739	26	2	1394	2	ZC3H11A	1	203816621	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	347826	203816621	45434000	677	23028											
ZC3H11A	9877	broad.mit.edu	37	chr1	203820223	203820223	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaggacaaatcagtcacTgtgcctgaagcagaaaatcc	14	8	9	10	0	3	3	2	2	1	1	4	4	4	4	2	1	2	1	2	1	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:203820223T>C	uc001hac.2	+	19	2761	c.2145T>C	c.(2143-2145)ACT>ACC	p.T715T	ZC3H11A_uc001had.2_Silent_p.T715T|ZC3H11A_uc001hae.2_Silent_p.T715T|ZC3H11A_uc001haf.2_Silent_p.T715T|ZC3H11A_uc010pqm.1_Silent_p.T661T	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	715							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			AATCAGTCACTGTGCCTGAAG	0.408													27	179					0	0	1	0	0		C	203820223	C	C	203820223	2	2	27	1	0	0	0	0	0	0	0	1	17585	1567	55	3		3	ZC3H11A	1	203820223	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3602	203820223	45430398	678	23029											
SOX13	9580	broad.mit.edu	37	chr1	204083710	204083710	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtttctaggaaggaactCtatggaagccaaagatgtca	14	9	12	6	0	3	1	1	0	2	1	3	5	3	4	1	4	2	1	1	4	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204083710C>A	uc001ham.2	+	4	990	c.395C>A	c.(394-396)TCT>TAT	p.S132Y	SOX13_uc001hal.2_Missense_Mutation_p.S132Y|SOX13_uc010pqp.1_Missense_Mutation_p.S132Y|SOX13_uc010pqq.1_5'Flank	NM_005686	NP_005677	Q9UN79	SOX13_HUMAN	SRY-box 13	132					anatomical structure morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2	all_cancers(21;0.0754)|Breast(84;0.116)|all_epithelial(62;0.189)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)			GGAAGGAACTCTATGGAAGCC	0.532													10	74					0.00136819	0.0014224	1	1	0		A	204083710	A	A	204083710	3	1	27	1	0	0	0	0	1	0	0	0	14969	913	32	5	405	5	SOX13	1	204083710	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	263487	204083710	45166911	679	23030											
ETNK2	55224	broad.mit.edu	37	chr1	204115797	204115797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctcgttcttcacaagcGtgaaataattgtgcatcttg	10	15	8	8	2	4	2	1	2	3	0	5	2	4	2	0	0	2	2	0	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204115797G>A	uc001hao.3	-	3	941	c.614C>T	c.(613-615)ACG>ATG	p.T205M	ETNK2_uc010pqr.1_Missense_Mutation_p.T27M|ETNK2_uc001han.3_Missense_Mutation_p.T205M|ETNK2_uc010pqs.1_Intron|ETNK2_uc010pqt.1_Missense_Mutation_p.T27M	NM_018208	NP_060678	Q9NVF9	EKI2_HUMAN	ethanolamine kinase 2	205							ATP binding|choline kinase activity|ethanolamine kinase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(21;0.032)|Breast(84;0.116)|all_epithelial(62;0.196)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)			CTTCACAAGCGTGAAATAATT	0.502													23	95					0	0	1	0	0		A	204115797	A	A	204115797	3	1	27	1	0	0	0	0	1	0	0	0	5282	1145	40	1	570	1	ETNK2	1	204115797	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	32087	204115797	45134824	680	23031											
PLEKHA6	22874	broad.mit.edu	37	chr1	204216588	204216588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatggtgctgtttgtcagggCctacgggggaaagaggcgtt	7	11	17	6	2	1	1	1	0	0	1	1	2	1	2	1	5	2	3	1	5	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204216588C>T	uc001hau.2	-	13	2142	c.1825G>A	c.(1825-1827)GCC>ACC	p.A609T	PLEKHA6_uc009xav.1_5'Flank	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	609										ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			TTTGTCAGGGCCTACGGGGGA	0.567													15	28					0	0	1	0	0		T	204216588	T	T	204216588	3	4	27	1	0	0	0	0	1	0	0	0	12079	753	26	2	1361	2	PLEKHA6	1	204216588	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	100791	204216588	45034033	681	23032											
PLEKHA6	22874	broad.mit.edu	37	chr1	204217956	204217956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctgggttaccgtggtcGcctgagacagctccacgcgg	5	8	13	15	4	0	1	0	1	0	1	3	2	2	1	4	3	2	2	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204217956G>A	uc001hau.2	-	12	2134	c.1817C>T	c.(1816-1818)GCG>GTG	p.A606V		NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	606								p.A606V(1)		ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			TACCGTGGTCGCCTGAGACAG	0.582													6	49					0	0	1	0	0		A	204217956	A	A	204217956	3	1	27	1	0	0	0	0	1	0	0	0	12079	1087	38	1	1373	1	PLEKHA6	1	204217956	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1368	204217956	45032665	682	23033											
PLEKHA6	22874	broad.mit.edu	37	chr1	204234146	204234146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agctcaggagggggatgctgCccaggatactctcttccttc	7	10	12	12	0	2	0	1	0	1	0	5	3	3	3	2	4	4	2	2	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204234146C>T	uc001hau.2	-	6	622	c.305G>A	c.(304-306)GGC>GAC	p.G102D		NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	102	PH.									ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			GGGGATGCTGCCCAGGATACT	0.597													9	144					0	0	1	0	0		T	204234146	T	T	204234146	3	4	27	1	0	0	0	0	1	0	0	0	12079	739	26	2	2909	2	PLEKHA6	1	204234146	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16190	204234146	45016475	683	23034											
PPP1R15B	84919	broad.mit.edu	37	chr1	204379416	204379416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagggctctcttcttccaaaGcaagtggaacctctgtagtt	10	12	9	10	0	3	0	0	0	3	0	5	1	4	1	2	2	2	4	2	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204379416G>A	uc001hav.3	-	1	1529	c.1124C>T	c.(1123-1125)GCT>GTT	p.A375V		NM_032833	NP_116222	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	375					regulation of translation					ovary(1)|pancreas(1)	2	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			TTCTTCCAAAGCAAGTGGAAC	0.448													4	84					0	0	1	0	0		A	204379416	A	A	204379416	3	1	27	1	0	0	0	0	1	0	0	0	12386	971	34	2	1025	2	PPP1R15B	1	204379416	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	145270	204379416	44871205	684	23035											
PIK3C2B	5287	broad.mit.edu	37	chr1	204401362	204401362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggaagatcttctcatggCggcagaggaaaacatcactg	12	8	13	8	1	3	2	2	0	2	2	4	4	3	4	0	5	1	1	0	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204401362C>T	uc001haw.2	-	28	4600	c.4121G>A	c.(4120-4122)CGC>CAC	p.R1374H	PIK3C2B_uc010pqv.1_Missense_Mutation_p.R1346H	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	1374	PX.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			CTTCTCATGGCGGCAGAGGAA	0.537											OREG0014134	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	125					0	0	1	0	0		T	204401362	T	T	204401362	3	4	27	1	0	0	0	0	1	0	0	0	11929	768	27	1	811	1	PIK3C2B	1	204401362	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21946	204401362	44849259	685	23036											
LRRN2	10446	broad.mit.edu	37	chr1	204587072	204587072	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcaggacgaggggagcAgacacaacccggacagaagg	14	0	17	10	2	0	2	0	0	0	2	0	6	0	5	1	6	2	2	1	6	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204587072A>G	uc001hbe.1	-	3	2437	c.2049T>C	c.(2047-2049)TCT>TCC	p.S683S	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Silent_p.S683S|LRRN2_uc009xbf.1_Silent_p.S683S|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	683	Cytoplasmic (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			CGAGGGGAGCAGACACAACCC	0.612													11	114					0	0	1	0	0		G	204587072	G	G	204587072	2	3	27	1	0	0	0	0	0	0	0	1	9053	175	7	3		3	LRRN2	1	204587072	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	185710	204587072	44663549	686	23037											
LRRN2	10446	broad.mit.edu	37	chr1	204588100	204588100	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagcgttgttgttgagcaTgagggtctccatctggggca	7	11	16	7	1	2	3	0	2	2	1	3	4	2	3	1	3	2	5	1	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204588100T>C	uc001hbe.1	-	3	1409	c.1021A>G	c.(1021-1023)ATG>GTG	p.M341V	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Missense_Mutation_p.M341V|LRRN2_uc009xbf.1_Missense_Mutation_p.M341V|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	341	Extracellular (Potential).|LRR 12.				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			TTGTTGAGCATGAGGGTCTCC	0.617													11	31					0	0	1	0	0		C	204588100	C	C	204588100	3	2	27	1	0	0	0	0	1	0	0	0	9053	1464	51	3	1124	3	LRRN2	1	204588100	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1028	204588100	44662521	687	23038											
LRRN2	10446	broad.mit.edu	37	chr1	204588840	204588840	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggtccagctctgtgagaTtggccaggtagcccagctca	9	8	12	12	0	2	1	1	1	1	1	3	2	3	1	3	3	3	3	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204588840T>C	uc001hbe.1	-	3	669	c.281A>G	c.(280-282)AAT>AGT	p.N94S	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Missense_Mutation_p.N94S|LRRN2_uc009xbf.1_Missense_Mutation_p.N94S|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	94	LRR 2.|Extracellular (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			CTCTGTGAGATTGGCCAGGTA	0.617													10	83					0	0	1	0	0		C	204588840	C	C	204588840	3	2	27	1	0	0	0	0	1	0	0	0	9053	1493	52	3	1864	3	LRRN2	1	204588840	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	740	204588840	44661781	688	23039											
LRRN2	10446	broad.mit.edu	37	chr1	204588931	204588931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctgcggggagtgccggggGgactgccgtcaggaataggt	6	6	20	9	3	1	0	1	0	0	0	1	3	1	3	3	7	3	0	3	7	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204588931G>A	uc001hbe.1	-	3	578	c.190C>T	c.(190-192)CCC>TCC	p.P64S	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Missense_Mutation_p.P64S|LRRN2_uc009xbf.1_Missense_Mutation_p.P64S|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	64	Extracellular (Potential).|LRRNT.				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			AGTGCCGGGGGGACTGCCGTC	0.632													9	62					0	0	1	0	0		A	204588931	A	A	204588931	3	1	27	1	0	0	0	0	1	0	0	0	9053	1232	43	4	1955	4	LRRN2	1	204588931	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	91	204588931	44661690	689	23040											
NFASC	23114	broad.mit.edu	37	chr1	204923419	204923419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgattgacttccgcagtggcGggcggccggaggaatatgag	8	8	17	8	4	0	3	0	3	0	0	1	5	1	5	2	5	0	1	2	5	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204923419G>A	uc001hbj.2	+	6	647	c.319G>A	c.(319-321)GGG>AGG	p.G107R	NFASC_uc001hbh.2_Missense_Mutation_p.G107R|NFASC_uc010pqz.1_Missense_Mutation_p.G101R|NFASC_uc010pra.1_Missense_Mutation_p.G101R|NFASC_uc001hbi.2_Missense_Mutation_p.G101R|NFASC_uc009xbg.1_Missense_Mutation_p.G174R|NFASC_uc010prb.1_Missense_Mutation_p.G101R|NFASC_uc010prc.1_5'UTR	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	107	Ig-like C2-type 1.|Extracellular (Potential).				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			CCGCAGTGGCGGGCGGCCGGA	0.582													10	33					0	0	1	0	0		A	204923419	A	A	204923419	3	1	27	1	0	0	0	0	1	0	0	0	10378	1116	39	1	333	1	NFASC	1	204923419	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	334488	204923419	44327202	690	23041											
NFASC	23114	broad.mit.edu	37	chr1	204926830	204926830	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgtctctcagggccataaCggagacctatacttctccaa	10	10	8	13	2	3	1	1	0	2	1	5	2	3	1	3	2	2	0	3	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:204926830C>T	uc001hbj.2	+	8	910	c.582C>T	c.(580-582)AAC>AAT	p.N194N	NFASC_uc001hbh.2_Silent_p.N194N|NFASC_uc010pqz.1_Silent_p.N188N|NFASC_uc010pra.1_Silent_p.N188N|NFASC_uc001hbi.2_Silent_p.N188N|NFASC_uc009xbg.1_Silent_p.N261N|NFASC_uc010prb.1_Silent_p.N188N|NFASC_uc010prc.1_Translation_Start_Site|NFASC_uc001hbk.1_Silent_p.N15N	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	194	Extracellular (Potential).|Ig-like C2-type 2.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			AGGGCCATAACGGAGACCTAT	0.502													11	60					0	0	1	0	0		T	204926830	T	T	204926830	2	4	27	1	0	0	0	0	0	0	0	1	10378	535	19	1		1	NFASC	1	204926830	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3411	204926830	44323791	691	23042											
CNTN2	6900	broad.mit.edu	37	chr1	205033516	205033516	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcggcccgcgggggagagaTccttatcccctgccagcccc	5	5	13	18	4	0	1	0	0	0	1	2	3	2	2	7	3	2	0	7	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:205033516T>A	uc001hbr.2	+	11	1576	c.1307T>A	c.(1306-1308)ATC>AAC	p.I436N	CNTN2_uc001hbq.1_Missense_Mutation_p.I327N|CNTN2_uc001hbs.2_Missense_Mutation_p.I224N	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	436	Ig-like C2-type 5.				axon guidance|clustering of voltage-gated potassium channels	anchored to membrane|juxtaparanode region of axon|myelin sheath|node of Ranvier|synapse part	identical protein binding			ovary(1)	1	all_cancers(21;0.144)|Breast(84;0.0437)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			GGGGGAGAGATCCTTATCCCC	0.622													36	131					0	0	1	0	0		A	205033516	A	A	205033516	3	1	27	1	0	0	0	0	1	0	0	0	3644	1435	50	5	1345	5	CNTN2	1	205033516	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	106686	205033516	44217105	692	23043											
TMCC2	9911	broad.mit.edu	37	chr1	205241020	205241020	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaggtggtacagctggaggGcgtggagaatgccaacgcgc	9	5	18	9	3	0	1	0	0	0	1	0	3	0	2	1	5	4	3	1	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:205241020G>T	uc001hbz.1	+	6	2342	c.1898G>T	c.(1897-1899)GGC>GTC	p.G633V	TMCC2_uc010prf.1_Missense_Mutation_p.G555V|TMCC2_uc001hca.2_Missense_Mutation_p.G408V|TMCC2_uc001hcb.1_Missense_Mutation_p.G393V|TMCC2_uc001hcc.1_Missense_Mutation_p.G254V|TMCC2_uc001hcd.2_3'UTR	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	633	Potential.					integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CAGCTGGAGGGCGTGGAGAAT	0.657													11	91					7.03913e-09	7.75164e-09	1	1	0		T	205241020	T	T	205241020	3	4	27	1	0	0	0	0	1	0	0	0	16018	1203	42	5	1916	5	TMCC2	1	205241020	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	207504	205241020	44009601	693	23044											
LEMD1	93273	broad.mit.edu	37	chr1	205388445	205388445	+	Missense_Mutation	SNP	G	T	T																															gggaggtgagaccaacaactGtactaactttttttcataca																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:205388445G>T	uc001hcj.1	-	3	220	c.118C>A	c.(118-120)CAG>AAG	p.Q40K	LEMD1_uc001hci.1_Missense_Mutation_p.Q40K|LEMD1_uc001hck.1_RNA|LEMD1_uc001hcl.1_Intron|LEMD1_uc001hcm.1_Intron|LEMD1_uc001hcn.1_Intron			Q68G75	LEMD1_HUMAN	RecName: Full=LEM domain-containing protein 1;          Short=LEMP-1; AltName: Full=Cancer/testis antigen 50;          Short=CT50;	40	LEM.					integral to membrane|nuclear envelope					0	Breast(84;0.247)		BRCA - Breast invasive adenocarcinoma(75;0.0938)			ACCAACAACTGTACTAACTTT	0.443													23	79					1.55795e-14	1.73931e-14	1	1	0		T	205388445	T	T	205388445	3	4	27	1	0	0	0	0	1	0	0	0	8735	1386	48	5	216	5	LEMD1	1	205388445	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	147425	205388445	43862176	694	23045	37	2									
LEMD1	93273	broad.mit.edu	37	chr1	205388453	205388453	+	Missense_Mutation	SNP	T	C	C																															agaccaacaactgtactaacTttttttcatacaactttctg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:205388453T>C	uc001hcj.1	-	3	212	c.110A>G	c.(109-111)AAG>AGG	p.K37R	LEMD1_uc001hci.1_Missense_Mutation_p.K37R|LEMD1_uc001hck.1_RNA|LEMD1_uc001hcl.1_Intron|LEMD1_uc001hcm.1_Intron|LEMD1_uc001hcn.1_Intron			Q68G75	LEMD1_HUMAN	RecName: Full=LEM domain-containing protein 1;          Short=LEMP-1; AltName: Full=Cancer/testis antigen 50;          Short=CT50;	37	LEM.					integral to membrane|nuclear envelope					0	Breast(84;0.247)		BRCA - Breast invasive adenocarcinoma(75;0.0938)			CTGTACTAACTTTTTTTCATA	0.433													10	97					0	0	1	0	0		C	205388453	C	C	205388453	3	2	27	1	0	0	0	0	1	0	0	0	8735	1609	56	3	224	3	LEMD1	1	205388453	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8	205388453	43862168	695	23046	37	2									
CDK18	5129	broad.mit.edu	37	chr1	205496974	205496974	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactgtcaccaccgcaagaTcctgcaccgggacctgaagc	10	6	9	16	2	1	2	1	1	0	1	2	3	2	3	5	1	3	2	5	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:205496974T>C	uc001hcr.2	+	9	1091	c.872T>C	c.(871-873)ATC>ACC	p.I291T	CDK18_uc001hcp.2_Missense_Mutation_p.I261T|CDK18_uc001hcq.2_Missense_Mutation_p.I261T|CDK18_uc010prj.1_Missense_Mutation_p.I172T|CDK18_uc001hcs.2_Missense_Mutation_p.I172T|CDK18_uc009xbm.1_Missense_Mutation_p.I186T|CDK18_uc001hct.2_5'Flank	NM_212503	NP_997668	Q07002	CDK18_HUMAN	PCTAIRE protein kinase 3 isoform a	259	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding|signal transducer activity			stomach(2)	2						CACCGCAAGATCCTGCACCGG	0.627													8	67					0	0	1	0	0		C	205496974	C	C	205496974	3	2	27	1	0	0	0	0	1	0	0	0	3137	1435	50	3	902	3	CDK18	1	205496974	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	108521	205496974	43753647	696	23047											
MFSD4	148808	broad.mit.edu	37	chr1	205561362	205561362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcctgggcctgtttctcaGcagcaccttccccagcatgc	7	9	9	16	0	1	0	1	0	1	0	3	0	2	0	5	1	5	4	5	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:205561362G>A	uc001hcv.3	+	7	1330	c.1244G>A	c.(1243-1245)AGC>AAC	p.S415N	MFSD4_uc010prk.1_Missense_Mutation_p.S328N|MFSD4_uc010prl.1_RNA|MFSD4_uc010prm.1_Missense_Mutation_p.S360N|MFSD4_uc009xbn.2_RNA	NM_181644	NP_857595	Q8N468	MFSD4_HUMAN	major facilitator superfamily domain containing	415	Helical; (Potential).				transmembrane transport	integral to membrane				skin(2)|central_nervous_system(1)	3	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0908)			CTGTTTCTCAGCAGCACCTTC	0.622											OREG0014160	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	28					0	0	1	0	0		A	205561362	A	A	205561362	3	1	27	1	0	0	0	0	1	0	0	0	9551	971	34	2	1270	2	MFSD4	1	205561362	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	64388	205561362	43689259	697	23048											
MFSD4	148808	broad.mit.edu	37	chr1	205568338	205568338	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttttaccttctatatctTgctcctgtttttccacagga	6	18	6	11	0	2	0	0	0	2	0	4	1	4	1	3	2	2	3	3	2	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:205568338T>C	uc001hcv.3	+	9	1534	c.1448T>C	c.(1447-1449)TTG>TCG	p.L483S	MFSD4_uc010prk.1_Missense_Mutation_p.L396S|MFSD4_uc010prl.1_RNA|MFSD4_uc010prm.1_Missense_Mutation_p.L428S|MFSD4_uc009xbn.2_RNA	NM_181644	NP_857595	Q8N468	MFSD4_HUMAN	major facilitator superfamily domain containing	483	Helical; (Potential).				transmembrane transport	integral to membrane				skin(2)|central_nervous_system(1)	3	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0908)			TTCTATATCTTGCTCCTGTTT	0.502													10	125					0	0	1	0	0		C	205568338	C	C	205568338	3	2	27	1	0	0	0	0	1	0	0	0	9551	1821	63	3	1482	3	MFSD4	1	205568338	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6976	205568338	43682283	698	23049											
SLC45A3	85414	broad.mit.edu	37	chr1	205633776	205633776	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcggctcacccacagcctCtggaccatagtgggccaggc	8	5	13	15	1	2	0	1	0	1	0	2	1	2	1	4	5	1	1	4	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:205633776C>A	uc001hda.1	-	2	348	c.9G>T	c.(7-9)CAG>CAT	p.Q3H	SLC45A3_uc010prn.1_5'Flank|SLC45A3_uc010pro.1_5'Flank|SLC45A3_uc010prp.1_RNA|ELK4_uc010prq.1_Intron	NM_033102	NP_149093	Q96JT2	S45A3_HUMAN	prostein	3					transmembrane transport	integral to membrane			SLC45A3/BRAF(2)	ovary(2)|prostate(2)	4	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			CCCACAGCCTCTGGACCATAG	0.647			T	ETV1|ETV5|ELK4|ERG	prostate 								8	99					0.27861	0.279635	1	1	0		A	205633776	A	A	205633776	3	1	27	1	0	0	0	0	1	0	0	0	14667	912	32	5	1668	5	SLC45A3	1	205633776	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	65438	205633776	43616845	699	23050											
NUCKS1	64710	broad.mit.edu	37	chr1	205689743	205689743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccgcctgccgttgttggcGcacatttttatgatcttctt	4	17	9	11	3	2	1	0	1	2	0	2	1	2	1	3	1	2	3	3	1	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:205689743G>A	uc001hdb.2	-	5	528	c.268C>T	c.(268-270)CGC>TGC	p.R90C		NM_022731	NP_073568	Q9H1E3	NUCKS_HUMAN	nuclear casein kinase and cyclin-dependent	90						nucleus					0	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			CGTTGTTGGCGCACATTTTTA	0.398													10	69					0	0	1	0	0		A	205689743	A	A	205689743	3	1	27	1	0	0	0	0	1	0	0	0	10739	1087	38	1	475	1	NUCKS1	1	205689743	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55967	205689743	43560878	700	23051											
SLC26A9	115019	broad.mit.edu	37	chr1	205892522	205892522	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtagagaggggagcagtAcgtgatgattttaatcccct	13	10	12	6	1	0	3	0	2	0	1	1	5	1	4	2	2	2	3	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:205892522A>G	uc001hdq.2	-	15	1714	c.1600T>C	c.(1600-1602)TAC>CAC	p.Y534H	SLC26A9_uc001hdo.2_Missense_Mutation_p.Y202H|SLC26A9_uc001hdp.2_Missense_Mutation_p.Y534H	NM_052934	NP_443166	Q7LBE3	S26A9_HUMAN	solute carrier family 26, member 9 isoform a	534	STAS.					integral to membrane	chloride channel activity|secondary active sulfate transmembrane transporter activity			ovary(1)|skin(1)	2	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0458)			GGGGAGCAGTACGTGATGATT	0.493													4	114					0	0	1	0	0		G	205892522	G	G	205892522	3	3	27	1	0	0	0	0	1	0	0	0	14549	391	14	3	1099	3	SLC26A9	1	205892522	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	202779	205892522	43358099	701	23052											
CTSE	1510	broad.mit.edu	37	chr1	206331109	206331109	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctctggatcctgggggAtgtcttcattcgacagtttt	5	14	11	11	1	3	0	1	0	2	0	5	3	4	2	3	3	0	1	3	3	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:206331109A>G	uc001hdu.2	+	9	1233	c.1115A>G	c.(1114-1116)GAT>GGT	p.D372G	CTSE_uc001hdv.2_Missense_Mutation_p.M325V|CTSE_uc010prs.1_Missense_Mutation_p.M250V	NM_001910	NP_001901	P14091	CATE_HUMAN	cathepsin E isoform a preproprotein	377					antigen processing and presentation of exogenous peptide antigen via MHC class II|digestion|proteolysis	endosome	aspartic-type endopeptidase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(75;0.0754)			ATCCTGGGGGATGTCTTCATT	0.567													14	162					0	0	1	0	0		G	206331109	G	G	206331109	3	3	27	1	0	0	0	0	1	0	0	0	4036	333	12	3	1149	3	CTSE	1	206331109	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	438587	206331109	42919512	702	23053											
SRGAP2	23380	broad.mit.edu	37	chr1	206611397	206611397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agctttacttccgggggctgGaacaccctctcttccccaag	7	10	9	15	1	1	0	0	0	1	0	4	1	3	1	4	3	3	2	4	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:206611397G>A	uc001hdy.2	+	13	1789	c.1456G>A	c.(1456-1458)GAA>AAA	p.E486K	SRGAP2_uc010prt.1_Missense_Mutation_p.E409K|SRGAP2_uc001hdx.2_Missense_Mutation_p.E486K|SRGAP2_uc010pru.1_Missense_Mutation_p.E409K|SRGAP2_uc010prv.1_Missense_Mutation_p.E410K	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	573	Rho-GAP.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					CCGGGGGCTGGAACACCCTCT	0.552													4	55					0	0	1	0	0		A	206611397	A	A	206611397	3	1	27	1	0	0	0	0	1	0	0	0	15171	1175	41	4	1507	4	SRGAP2	1	206611397	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	280288	206611397	42639224	703	23054											
IKBKE	9641	broad.mit.edu	37	chr1	206664989	206664989	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcgttctagggtgaattTcagtcatttagccaaaagac	11	13	9	8	1	3	2	2	1	1	1	4	2	3	2	1	1	1	1	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:206664989T>A	uc001hdz.1	+	18	2110	c.1742T>A	c.(1741-1743)TTC>TAC	p.F581Y	IKBKE_uc009xbv.1_Missense_Mutation_p.F581Y|IKBKE_uc001hea.1_Missense_Mutation_p.F496Y	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	581					DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding			ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)					AGGGTGAATTTCAGTCATTTA	0.522													7	44					0	0	1	0	0		A	206664989	A	A	206664989	3	1	27	1	0	0	0	0	1	0	0	0	7628	1783	62	5	1804	5	IKBKE	1	206664989	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53592	206664989	42585632	704	23055											
C1orf116	79098	broad.mit.edu	37	chr1	207196284	207196284	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgagaggggagcatcttcAgctcttgcattctgaggcaa	10	10	13	8	0	4	2	1	2	3	1	4	5	4	3	0	3	3	4	0	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:207196284A>G	uc001hfd.2	-	4	1084	c.825T>C	c.(823-825)GCT>GCC	p.A275A	C1orf116_uc009xcb.1_Silent_p.A29A	NM_023938	NP_076427	Q9BW04	SARG_HUMAN	specifically androgen-regulated protein isoform	275						cytoplasm|plasma membrane	receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Prostate(682;0.19)					GAGCATCTTCAGCTCTTGCAT	0.547													5	112					0	0	1	0	0		G	207196284	G	G	207196284	2	3	27	1	0	0	0	0	0	0	0	1	1992	175	7	3		3	C1orf116	1	207196284	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	531295	207196284	42054337	705	23056											
YOD1	55432	broad.mit.edu	37	chr1	207222646	207222646	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataagcagaacccttttggTatatcctgcatcttccccaa	12	12	5	12	0	1	1	0	0	1	1	3	1	3	1	4	1	3	3	4	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:207222646T>C	uc001hfe.1	-	2	813	c.766A>G	c.(766-768)ACC>GCC	p.T256A	PFKFB2_uc010psc.1_Intron|YOD1_uc001hff.1_Missense_Mutation_p.T212A	NM_018566	NP_061036	Q5VVQ6	OTU1_HUMAN	YOD1 OTU deubiquinating enzyme 1 homolog	256	OTU.				cellular amino acid metabolic process|endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|protein K48-linked deubiquitination|protein K63-linked deubiquitination	intracellular	protein binding|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1	Prostate(682;0.19)					ACCCTTTTGGTATATCCTGCA	0.393													6	139					0	0	1	0	0		C	207222646	C	C	207222646	3	2	27	1	0	0	0	0	1	0	0	0	17514	1638	57	3	284	3	YOD1	1	207222646	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	26362	207222646	42027975	706	23057											
CR1	1378	broad.mit.edu	37	chr1	207753708	207753708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgacctcagaggggctgcgtCtctgcactgcacaccccagg	7	7	12	15	1	2	2	1	1	1	1	3	2	2	2	3	3	3	3	3	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:207753708C>T	uc001hfy.2	+	22	3850	c.3710C>T	c.(3709-3711)TCT>TTT	p.S1237F	CR1_uc009xcl.1_Missense_Mutation_p.S787F|CR1_uc001hfx.2_Missense_Mutation_p.S1687F	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1237	Extracellular (Potential).|Sushi 19.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						GGGGCTGCGTCTCTGCACTGC	0.567													13	113					0	0	1	0	0		T	207753708	T	T	207753708	3	4	27	1	0	0	0	0	1	0	0	0	3843	913	32	4	5178	4	CR1	1	207753708	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	531062	207753708	41496913	707	23058											
PLXNA2	5362	broad.mit.edu	37	chr1	208257862	208257862	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatttcgcgccttaagggTgattggctttacctccccga	7	12	10	12	3	0	2	0	1	0	1	2	3	1	2	4	2	1	1	4	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:208257862T>C	uc001hgz.2	-	10	2919	c.2161A>G	c.(2161-2163)ACC>GCC	p.T721A		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	721	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GCCTTAAGGGTGATTGGCTTT	0.607													5	79					0	0	1	0	0		C	208257862	C	C	208257862	3	2	27	1	0	0	0	0	1	0	0	0	12139	1696	59	3	3615	3	PLXNA2	1	208257862	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	504154	208257862	40992759	708	23059											
LAMB3	3914	broad.mit.edu	37	chr1	209799327	209799327	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcagcggcctgatgcctTgtcgcagcccgggccctctg	4	7	15	15	3	1	1	0	1	1	0	2	2	1	1	4	3	3	2	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:209799327T>A	uc001hhg.2	-	13	2032	c.1642A>T	c.(1642-1644)AAG>TAG	p.K548*	LAMB3_uc009xco.2_Nonsense_Mutation_p.K548*|LAMB3_uc001hhh.2_Nonsense_Mutation_p.K548*|LAMB3_uc010psl.1_Intron|hsa-mir-4260|MI0015859_5'Flank	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	548	Laminin EGF-like 6.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		CCTGATGCCTTGTCGCAGCCC	0.637													4	37					0	0	1	0	0		A	209799327	A	A	209799327	4	1	27	1	0	0	0	0	0	1	0	0	8628	1821	63	5	1916	5	LAMB3	1	209799327	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1541465	209799327	39451294	709	23060											
HSD11B1	3290	broad.mit.edu	37	chr1	209878342	209878342	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggctcttcatggcctacTactactattctgcaaacgag	9	12	9	11	1	3	0	1	0	2	0	3	1	3	0	1	3	5	2	1	3	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:209878342T>C	uc001hhj.2	+	2	162	c.55T>C	c.(55-57)TAC>CAC	p.Y19H	HSD11B1_uc001hhk.2_Missense_Mutation_p.Y19H	NM_181755	NP_861420	P28845	DHI1_HUMAN	11-beta-hydroxysteroid dehydrogenase 1	19	Helical; Signal-anchor for type II membrane protein; (Potential).			YYY->AYA: No effect on topology. Reduced Vmax.|YYYY->FFFF: No effect on topology or activity.|YYYY->AAAA: No effect on topology. Reduced Vmax.	glucocorticoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	11-beta-hydroxysteroid dehydrogenase (NADP+) activity|11-beta-hydroxysteroid dehydrogenase|binding			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;1.04e-55)|Epithelial(68;1.57e-52)|all cancers(67;1.83e-46)|Colorectal(1306;0.115)	NADH(DB00157)	CATGGCCTACTACTACTATTC	0.468													3	115					0	0	1	0	0		C	209878342	C	C	209878342	3	2	27	1	0	0	0	0	1	0	0	0	7391	1522	53	3	57	3	HSD11B1	1	209878342	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	79015	209878342	39372279	710	23061											
HHAT	55733	broad.mit.edu	37	chr1	210637971	210637971	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcccccgctgcgtgagcAccatgttcagtttcaccggg	5	9	10	17	3	2	1	2	1	0	0	3	1	3	1	5	1	2	4	5	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:210637971A>G	uc009xcx.2	+	8	1145	c.979A>G	c.(979-981)ACC>GCC	p.T327A	HHAT_uc010psq.1_Missense_Mutation_p.T190A|HHAT_uc001hhz.3_Missense_Mutation_p.T327A|HHAT_uc010psr.1_Missense_Mutation_p.T328A|HHAT_uc010pss.1_Missense_Mutation_p.T282A|HHAT_uc009xcy.2_Missense_Mutation_p.T262A|HHAT_uc010pst.1_Missense_Mutation_p.T264A|HHAT_uc010psu.1_Missense_Mutation_p.T262A|HHAT_uc001hia.3_Missense_Mutation_p.T17A	NM_001122834	NP_001116306	Q5VTY9	HHAT_HUMAN	hedgehog acyltransferase	327					multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)		CTGCGTGAGCACCATGTTCAG	0.597													9	78					0	0	1	0	0		G	210637971	G	G	210637971	3	3	27	1	0	0	0	0	1	0	0	0	7105	159	6	3	1103	3	HHAT	1	210637971	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	759629	210637971	38612650	711	23062											
RCOR3	55758	broad.mit.edu	37	chr1	211451523	211451523	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggaaaaaaactcgctctaGgacaagtttgatggatcgcc	13	10	10	8	2	1	1	0	1	1	0	3	4	1	4	1	3	1	2	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:211451523G>T	uc001hig.2	+	5	576	c.407G>T	c.(406-408)AGG>ATG	p.R136M	RCOR3_uc010psv.1_RNA|RCOR3_uc001hie.2_Missense_Mutation_p.R194M|RCOR3_uc010psw.1_Missense_Mutation_p.R194M|RCOR3_uc001hif.2_Missense_Mutation_p.R194M	NM_018254	NP_060724	Q9P2K3	RCOR3_HUMAN	REST corepressor 3 isoform d	136					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		ACTCGCTCTAGGACAAGTTTG	0.353													11	86					6.40141e-05	6.80234e-05	1	1	0		T	211451523	T	T	211451523	3	4	27	1	0	0	0	0	1	0	0	0	13209	1000	35	5	603	5	RCOR3	1	211451523	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	813552	211451523	37799098	712	23063											
DTL	51514	broad.mit.edu	37	chr1	212273797	212273797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggctctgtctcctccGtctctcccaagccaccttca	7	10	7	17	1	4	1	1	0	3	1	8	2	6	1	5	1	1	1	5	1	2	1	rs116830651	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:212273797G>A	uc009xdc.2	+	14	1779	c.1465G>A	c.(1465-1467)GTC>ATC	p.V489I	DTL_uc010ptb.1_Missense_Mutation_p.V447I|DTL_uc001hiz.3_Missense_Mutation_p.V218I	NM_016448	NP_057532	Q9NZJ0	DTL_HUMAN	denticleless homolog	489					DNA replication|G2/M transition DNA damage checkpoint|protein monoubiquitination|protein polyubiquitination|response to UV|translesion synthesis|ubiquitin-dependent protein catabolic process	centrosome|Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|nuclear membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00796)|all cancers(67;0.0385)|Epithelial(68;0.102)		TGTCTCCTCCGTCTCTCCCAA	0.522													4	68					0	0	1	0	0		A	212273797	A	A	212273797	3	1	27	1	0	0	0	0	1	0	0	0	4793	1145	40	1	1519	1	DTL	1	212273797	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	822274	212273797	36976824	713	23064											
TMEM206	55248	broad.mit.edu	37	chr1	212560349	212560349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacggccacagccatgagcAgcaggtagatgaagatgagt	14	5	14	8	1	0	6	0	3	0	3	0	6	0	6	2	2	3	3	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:212560349A>G	uc001hjc.3	-	3	395	c.227T>C	c.(226-228)CTG>CCG	p.L76P	TMEM206_uc010pte.1_Missense_Mutation_p.L137P	NM_018252	NP_060722	Q9H813	TM206_HUMAN	transmembrane protein 206	76	Helical; (Potential).					integral to membrane				breast(1)	1				all cancers(67;0.012)|OV - Ovarian serous cystadenocarcinoma(81;0.0121)|GBM - Glioblastoma multiforme(131;0.0377)|Epithelial(68;0.148)		AGCCATGAGCAGCAGGTAGAT	0.542													8	104					0	0	1	0	0		G	212560349	G	G	212560349	3	3	27	1	0	0	0	0	1	0	0	0	16156	188	7	3	849	3	TMEM206	1	212560349	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	286552	212560349	36690272	714	23065											
RPS6KC1	26750	broad.mit.edu	37	chr1	213302945	213302945	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagttagatgatggaatggCttccaatcaaaattctccca	13	12	8	8	0	2	3	1	2	1	1	4	4	3	4	2	2	0	2	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:213302945C>A	uc010ptr.1	+	6	707	c.548C>A	c.(547-549)GCT>GAT	p.A183D	RPS6KC1_uc001hkd.2_Missense_Mutation_p.A171D|RPS6KC1_uc010pts.1_Missense_Mutation_p.A2D|RPS6KC1_uc010ptt.1_Missense_Mutation_p.A2D|RPS6KC1_uc010ptu.1_Missense_Mutation_p.A2D|RPS6KC1_uc010ptv.1_5'UTR|RPS6KC1_uc001hke.2_Missense_Mutation_p.A2D	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	183					cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		GATGGAATGGCTTCCAATCAA	0.403													6	93					0.00116845	0.00121513	1	1	0		A	213302945	A	A	213302945	3	1	27	1	0	0	0	0	1	0	0	0	13683	797	28	5	570	5	RPS6KC1	1	213302945	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	742596	213302945	35947676	715	23066											
PROX1	5629	broad.mit.edu	37	chr1	214170459	214170459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaaaatgaaagagagatggCcccgcagtctgtgagtcccc	12	7	12	10	1	1	5	0	3	1	2	2	6	2	5	4	1	0	1	4	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:214170459C>T	uc001hkh.2	+	2	853	c.581C>T	c.(580-582)GCC>GTC	p.A194V	PROX1_uc001hkg.1_Missense_Mutation_p.A194V	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	194					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		AGAGAGATGGCCCCGCAGTCT	0.522													4	52					0	0	1	0	0		T	214170459	T	T	214170459	3	4	27	1	0	0	0	0	1	0	0	0	12582	739	26	2	583	2	PROX1	1	214170459	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	867514	214170459	35080162	716	23067											
PTPN14	5784	broad.mit.edu	37	chr1	214557227	214557227	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaggtggagcgacttgagCgtcatggcctccatgccccg	6	7	16	12	3	1	1	1	1	0	0	2	4	2	3	4	4	3	0	4	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:214557227C>T	uc001hkk.1	-	13	2242	c.1971G>A	c.(1969-1971)ACG>ACA	p.T657T	PTPN14_uc010pty.1_Silent_p.T558T	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	657					lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		GCGACTTGAGCGTCATGGCCT	0.682													11	29					0	0	1	0	0		T	214557227	T	T	214557227	2	4	27	1	0	0	0	0	0	0	0	1	12806	755	27	1		1	PTPN14	1	214557227	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	386768	214557227	34693394	717	23068											
CENPF	1063	broad.mit.edu	37	chr1	214813868	214813868	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagacttctcagcttacTgggcaagttgaagatctaga	12	12	10	7	0	2	5	1	2	2	3	3	5	2	5	0	1	2	3	0	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:214813868T>C	uc001hkm.2	+	12	2361	c.2187T>C	c.(2185-2187)ACT>ACC	p.T729T		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	729	Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		CTCAGCTTACTGGGCAAGTTG	0.398													9	58					0	0	1	0	0		C	214813868	C	C	214813868	2	2	27	1	0	0	0	0	0	0	0	1	3234	1567	55	3		3	CENPF	1	214813868	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	256641	214813868	34436753	718	23069											
CENPF	1063	broad.mit.edu	37	chr1	214816273	214816273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtattttgcagcagtcTgcaggaggagaatctgacca	12	10	12	7	0	2	3	0	2	2	1	2	5	2	4	1	2	3	4	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:214816273T>C	uc001hkm.2	+	12	4766	c.4592T>C	c.(4591-4593)CTG>CCG	p.L1531P		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	1627					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TGCAGCAGTCTGCAGGAGGAG	0.498													17	47					0	0	1	0	0		C	214816273	C	C	214816273	3	2	27	1	0	0	0	0	1	0	0	0	3234	1580	55	3	4634	3	CENPF	1	214816273	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2405	214816273	34434348	719	23070											
KCNK2	3776	broad.mit.edu	37	chr1	215342543	215342543	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtaatttttttaaaggAtttggaaacatctcaccacg	14	14	6	7	1	1	0	1	0	1	0	2	2	1	2	1	2	1	1	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:215342543A>T	uc001hkq.2	+	4	646	c.477A>T	c.(475-477)GGA>GGT	p.G159G	KCNK2_uc001hko.2_Silent_p.G155G|KCNK2_uc009xdm.2_RNA|KCNK2_uc001hkp.2_RNA|KCNK2_uc010pua.1_RNA|KCNK2_uc001hkr.3_Silent_p.G144G	NM_001017425	NP_001017425	O95069	KCNK2_HUMAN	potassium channel, subfamily K, member 2 isoform	159							outward rectifier potassium channel activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.0399)|all cancers(67;0.0556)|GBM - Glioblastoma multiforme(131;0.068)	Dofetilide(DB00204)	TTTTTAAAGGATTTGGAAACA	0.313													8	72					0	0	1	0	0		T	215342543	T	T	215342543	2	4	27	1	0	0	0	0	0	0	0	1	8082	347	12	5		5	KCNK2	1	215342543	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	526270	215342543	33908078	720	23071											
KCTD3	51133	broad.mit.edu	37	chr1	215751371	215751371	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctcttatgtgaagaatTggagcgttcctcttgtggca	7	15	11	8	1	2	2	0	1	2	1	4	3	3	3	1	2	1	3	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:215751371T>C	uc001hks.2	+	6	638	c.344T>C	c.(343-345)TTG>TCG	p.L115S	KCTD3_uc001hkt.2_Missense_Mutation_p.L115S|KCTD3_uc010pub.1_Missense_Mutation_p.L13S|KCTD3_uc009xdn.2_5'Flank	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	115						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		TGTGAAGAATTGGAGCGTTCC	0.338													14	146					0	0	1	0	0		C	215751371	C	C	215751371	3	2	27	1	0	0	0	0	1	0	0	0	8126	1821	63	3	366	3	KCTD3	1	215751371	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	408828	215751371	33499250	721	23072											
KCTD3	51133	broad.mit.edu	37	chr1	215785250	215785250	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactatttgtaagactctcaTcgactggaaaaaggtaacac	16	10	7	8	1	1	1	1	0	1	1	3	3	1	2	0	2	2	2	0	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:215785250T>C	uc001hks.2	+	15	1843	c.1549T>C	c.(1549-1551)TCG>CCG	p.S517P	KCTD3_uc001hkt.2_Missense_Mutation_p.S517P|KCTD3_uc010pub.1_Missense_Mutation_p.S415P|KCTD3_uc009xdn.2_Missense_Mutation_p.S241P	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	517						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		AAGACTCTCATCGACTGGAAA	0.353													3	64					0	0	1	0	0		C	215785250	C	C	215785250	3	2	27	1	0	0	0	0	1	0	0	0	8126	1435	50	3	1607	3	KCTD3	1	215785250	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	33879	215785250	33465371	722	23073											
USH2A	7399	broad.mit.edu	37	chr1	215901647	215901647	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgtgaaaggcctcagggTgtctccttcatccataaatt	10	12	10	9	0	3	1	2	1	1	0	5	2	4	1	3	2	0	0	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:215901647T>C	uc001hku.1	-	61	12178	c.11791A>G	c.(11791-11793)ACC>GCC	p.T3931A		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3931	Fibronectin type-III 24.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GGCCTCAGGGTGTCTCCTTCA	0.493										HNSCC(13;0.011)			7	78					0	0	1	0	0		C	215901647	C	C	215901647	3	2	27	1	0	0	0	0	1	0	0	0	17062	1696	59	3	3865	3	USH2A	1	215901647	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	116397	215901647	33348974	723	23074											
USH2A	7399	broad.mit.edu	37	chr1	216073503	216073503	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accgaaacatatactctgtgTacggttggagatcactcact	12	11	8	10	2	3	1	2	0	1	1	3	3	3	1	1	2	3	2	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:216073503T>C	uc001hku.1	-	40	7895	c.7508A>G	c.(7507-7509)TAC>TGC	p.Y2503C		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2503	Extracellular (Potential).|Fibronectin type-III 11.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATACTCTGTGTACGGTTGGAG	0.413										HNSCC(13;0.011)			4	81					0	0	1	0	0		C	216073503	C	C	216073503	3	2	27	1	0	0	0	0	1	0	0	0	17062	1638	57	3	8232	3	USH2A	1	216073503	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	171856	216073503	33177118	724	23075											
USH2A	7399	broad.mit.edu	37	chr1	216262383	216262383	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcccatccagagtgatttgGccaaaagcctgatgcctaat	12	10	8	11	0	0	3	0	2	0	1	2	3	2	3	5	1	2	0	5	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:216262383G>A	uc001hku.1	-	23	5244	c.4857C>T	c.(4855-4857)GGC>GGT	p.G1619G		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1619	Laminin G-like 1.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GAGTGATTTGGCCAAAAGCCT	0.363										HNSCC(13;0.011)			6	99					0	0	1	0	0		A	216262383	A	A	216262383	2	1	27	1	0	0	0	0	0	0	0	1	17062	1190	42	2		2	USH2A	1	216262383	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	188880	216262383	32988238	725	23076											
USH2A	7399	broad.mit.edu	37	chr1	216369957	216369957	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaagcatattgatgtcatAccccacaacttttcctcttg	12	13	5	11	0	2	2	1	1	1	1	3	2	3	2	3	0	3	1	3	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:216369957A>G	uc001hku.1	-	19	4576	c.4189T>C	c.(4189-4191)TAT>CAT	p.Y1397H	USH2A_uc001hkv.2_Missense_Mutation_p.Y1397H	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1397	Extracellular (Potential).|Fibronectin type-III 4.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTGATGTCATACCCCACAACT	0.408										HNSCC(13;0.011)			4	61					0	0	1	0	0		G	216369957	G	G	216369957	3	3	27	1	0	0	0	0	1	0	0	0	17062	391	14	3	11649	3	USH2A	1	216369957	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	107574	216369957	32880664	726	23077											
USH2A	7399	broad.mit.edu	37	chr1	216371840	216371840	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggactgagccaaccacTgctctgaaaaactcgacttt	13	9	8	11	1	1	3	0	3	1	0	2	5	1	4	2	1	4	1	2	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:216371840T>C	uc001hku.1	-	18	4285	c.3898A>G	c.(3898-3900)AGT>GGT	p.S1300G	USH2A_uc001hkv.2_Missense_Mutation_p.S1300G	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1300	Fibronectin type-III 3.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AGCCAACCACTGCTCTGAAAA	0.378										HNSCC(13;0.011)			9	70					0	0	1	0	0		C	216371840	C	C	216371840	3	2	27	1	0	0	0	0	1	0	0	0	17062	1580	55	3	11944	3	USH2A	1	216371840	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1883	216371840	32878781	727	23078											
USH2A	7399	broad.mit.edu	37	chr1	216595608	216595608	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaaggatattgaagcaaaaTaggcaaagatcaacatttca	19	9	7	6	0	3	2	3	1	0	1	3	3	3	3	0	2	2	2	0	2	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:216595608T>C	uc001hku.1	-	2	458	c.71A>G	c.(70-72)TAT>TGT	p.Y24C	USH2A_uc001hkv.2_Missense_Mutation_p.Y24C	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	24					maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGAAGCAAAATAGGCAAAGAT	0.428										HNSCC(13;0.011)			3	65					0	0	1	0	0		C	216595608	C	C	216595608	3	2	27	1	0	0	0	0	1	0	0	0	17062	1406	49	3	15835	3	USH2A	1	216595608	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	223768	216595608	32655013	728	23079											
GPATCH2	55105	broad.mit.edu	37	chr1	217793422	217793422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttttacctttctcctcctgCgcagagttctattcccaaca	7	15	5	14	1	2	1	0	0	2	1	5	1	4	1	4	0	3	3	4	0	3	6	rs150988724	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:217793422C>T	uc001hlf.1	-	2	572	c.476G>A	c.(475-477)CGC>CAC	p.R159H	GPATCH2_uc001hlg.3_Missense_Mutation_p.R159H	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	159						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		TCTCCTCCTGCGCAGAGTTCT	0.473													8	151					0	0	1	0	0		T	217793422	T	T	217793422	3	4	27	1	0	0	0	0	1	0	0	0	6606	768	27	1	1146	1	GPATCH2	1	217793422	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1197814	217793422	31457199	729	23080											
GPATCH2	55105	broad.mit.edu	37	chr1	217793701	217793701	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttctccctctccttttcCttgcctggcgtttcagaggg	2	17	9	13	1	3	1	1	0	2	1	6	1	4	1	4	2	1	2	4	2	0	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:217793701C>A	uc001hlf.1	-	2	293	c.197G>T	c.(196-198)AGG>ATG	p.R66M	GPATCH2_uc001hlg.3_Missense_Mutation_p.R66M	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	66						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		TCTCCTTTTCCTTGCCTGGCG	0.488													5	121					1	1	1	1	0		A	217793701	A	A	217793701	3	1	27	1	0	0	0	0	1	0	0	0	6606	681	24	5	1425	5	GPATCH2	1	217793701	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	279	217793701	31456920	730	23081											
SPATA17	128153	broad.mit.edu	37	chr1	217856611	217856611	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaatagattcagagacgAtggcgaggctatagggttcg	11	11	13	6	3	1	2	1	0	0	2	2	5	1	2	0	3	0	2	0	3	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:217856611A>T	uc001hlh.1	+	5	329	c.303A>T	c.(301-303)CGA>CGT	p.R101R	SPATA17_uc009xdr.1_RNA|SPATA17_uc001hli.2_Silent_p.R101R	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	101	IQ 3.					cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		TTCAGAGACGATGGCGAGGCT	0.313													9	213					0	0	1	0	0		T	217856611	T	T	217856611	2	4	27	1	0	0	0	0	0	0	0	1	15027	320	12	5		5	SPATA17	1	217856611	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	62910	217856611	31394010	731	23082											
SLC30A10	55532	broad.mit.edu	37	chr1	220100394	220100394	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatattcagagcttcagactTtttctcttttttcatcatgt	8	20	5	8	0	5	2	4	0	1	2	6	3	5	2	0	0	1	1	0	0	1	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:220100394T>C	uc001hlw.2	-	2	905	c.694A>G	c.(694-696)AAG>GAG	p.K232E	SLC30A10_uc001hlu.1_RNA|SLC30A10_uc001hlx.2_Missense_Mutation_p.K7E	NM_018713	NP_061183	Q6XR72	ZNT10_HUMAN	solute carrier family 30 (zinc transporter),	232	Cytoplasmic (Potential).				zinc ion transport	integral to membrane|plasma membrane	cation transmembrane transporter activity				0				GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.209)		GCTTCAGACTTTTTCTCTTTT	0.378													20	62					0	0	1	0	0		C	220100394	C	C	220100394	3	2	27	1	0	0	0	0	1	0	0	0	14579	1850	64	3	775	3	SLC30A10	1	220100394	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2243783	220100394	29150227	732	23083											
EPRS	2058	broad.mit.edu	37	chr1	220193341	220193341	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaacataccatccatctacTagtccttcattgacaaacca	15	11	2	13	0	2	1	1	1	1	0	4	1	4	1	4	0	4	0	4	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:220193341T>C	uc001hly.1	-	10	1608	c.1338A>G	c.(1336-1338)CTA>CTG	p.L446L	EPRS_uc010puf.1_Silent_p.L197L|EPRS_uc001hlz.1_Silent_p.L446L|EPRS_uc009xdt.1_Intron	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	446	Glutamyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	ATCCATCTACTAGTCCTTCAT	0.348													9	85					0	0	1	0	0		C	220193341	C	C	220193341	2	2	27	1	0	0	0	0	0	0	0	1	5199	1509	53	3		3	EPRS	1	220193341	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	92947	220193341	29057280	733	23084											
EPRS	2058	broad.mit.edu	37	chr1	220203728	220203728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgagttacattttcttacCcactggcctctggaggaaat	9	14	9	9	0	2	1	0	1	2	0	2	3	2	3	2	3	2	1	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:220203728C>T	uc001hly.1	-	6	893	c.623G>A	c.(622-624)GGT>GAT	p.G208D	EPRS_uc010puf.1_5'UTR|EPRS_uc001hlz.1_Missense_Mutation_p.G208D|EPRS_uc009xdt.1_Intron	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	208	Glutamyl-tRNA synthetase.|"HIGH" region.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	ATTTTCTTACCCACTGGCCTC	0.353													20	51					0	0	1	0	0		T	220203728	T	T	220203728	3	4	27	1	0	0	0	0	1	0	0	0	5199	637	22	4	4023	4	EPRS	1	220203728	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10387	220203728	29046893	734	23085											
IARS2	55699	broad.mit.edu	37	chr1	220275602	220275602	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaacagttgagaacttttTaccaaatgtatgataaggta	16	12	7	6	0	0	2	0	2	0	1	0	3	0	2	2	1	3	3	2	1	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:220275602T>C	uc001hmc.2	+	4	786	c.682T>C	c.(682-684)TAC>CAC	p.Y228H		NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase	228					isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	GAGAACTTTTTACCAAATGTA	0.303													11	85					0	0	1	0	0		C	220275602	C	C	220275602	3	2	27	1	0	0	0	0	1	0	0	0	7490	1754	61	3	696	3	IARS2	1	220275602	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	71874	220275602	28975019	735	23086											
IARS2	55699	broad.mit.edu	37	chr1	220279338	220279338	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaaaaggaacgggattggTtcacacagccccagctcatg	12	6	12	11	1	2	0	2	0	0	0	2	2	2	2	2	4	3	3	2	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:220279338T>C	uc001hmc.2	+	9	1276	c.1172T>C	c.(1171-1173)GTT>GCT	p.V391A		NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase	391					isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	ACGGGATTGGTTCACACAGCC	0.433													3	105					0	0	1	0	0		C	220279338	C	C	220279338	3	2	27	1	0	0	0	0	1	0	0	0	7490	1725	60	3	1206	3	IARS2	1	220279338	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3736	220279338	28971283	736	23087											
IARS2	55699	broad.mit.edu	37	chr1	220315249	220315249	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgctcccattcttcctcAcctggctgaagaggtgttcc	5	15	8	13	0	2	2	1	1	1	1	5	2	5	2	4	2	1	3	4	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:220315249A>G	uc001hmc.2	+	20	2623	c.2519A>G	c.(2518-2520)CAC>CGC	p.H840R	IARS2_uc001hmd.2_Missense_Mutation_p.H176R	NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase	840					isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	ATTCTTCCTCACCTGGCTGAA	0.383													9	99					0	0	1	0	0		G	220315249	G	G	220315249	3	3	27	1	0	0	0	0	1	0	0	0	7490	159	6	3	2597	3	IARS2	1	220315249	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	35911	220315249	28935372	737	23088											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220324707	220324707	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttactagtttagctgtTgttgcaattggcacttcagt	8	19	8	6	0	1	0	1	0	0	0	1	0	1	0	0	1	3	6	0	1	5	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:220324707T>C	uc010puk.1	-	35	4232	c.4068A>G	c.(4066-4068)ACA>ACG	p.T1356T	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Silent_p.T936T|RAB3GAP2_uc001hmh.2_3'UTR	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	1356					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		GTTTAGCTGTTGTTGCAATTG	0.378													17	159					0	0	1	0	0		C	220324707	C	C	220324707	2	2	27	1	0	0	0	0	0	0	0	1	12961	1799	63	3		3	RAB3GAP2	1	220324707	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9458	220324707	28925914	738	23089											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220325021	220325021	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttcttttgtctgggtgTggagaagcgcatgagccagc	6	13	13	9	1	2	2	0	1	2	1	3	3	3	2	2	2	3	1	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:220325021T>C	uc010puk.1	-	34	4117	c.3953A>G	c.(3952-3954)CAC>CGC	p.H1318R	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Missense_Mutation_p.H898R|RAB3GAP2_uc001hmh.2_Missense_Mutation_p.H262R	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	1318					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		TGTCTGGGTGTGGAGAAGCGC	0.517													20	128					0	0	1	0	0		C	220325021	C	C	220325021	3	2	27	1	0	0	0	0	1	0	0	0	12961	1696	59	3	236	3	RAB3GAP2	1	220325021	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	314	220325021	28925600	739	23090											
HLX	3142	broad.mit.edu	37	chr1	221053336	221053336	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaagccctccttctgcaTcgcagacattctgcacgccg	10	8	7	16	3	2	1	0	0	2	1	4	1	3	1	3	0	3	3	3	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:221053336T>C	uc001hmv.3	+	1	594	c.137T>C	c.(136-138)ATC>ACC	p.I46T		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	46					cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)		TCCTTCTGCATCGCAGACATT	0.716													4	23					0	0	1	0	0		C	221053336	C	C	221053336	3	2	27	1	0	0	0	0	1	0	0	0	7232	1435	50	3	139	3	HLX	1	221053336	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	728315	221053336	28197285	740	23091											
DUSP10	11221	broad.mit.edu	37	chr1	221879722	221879722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagctcgaggccgcggatgCgccgccccccacctcccggc	5	3	12	21	6	0	0	0	0	0	0	2	2	1	1	7	3	2	1	7	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:221879722C>T	uc001hmy.1	-	3	1080	c.898G>A	c.(898-900)GCA>ACA	p.A300T	DUSP10_uc001hmx.1_5'UTR|DUSP10_uc001hmz.1_5'UTR	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	300					inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		GCCGCGGATGCGCCGCCCCCC	0.577													16	85					0	0	1	0	0		T	221879722	T	T	221879722	3	4	27	1	0	0	0	0	1	0	0	0	4816	768	27	1	558	1	DUSP10	1	221879722	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	826386	221879722	27370899	741	23092											
DUSP10	11221	broad.mit.edu	37	chr1	221912385	221912385	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggtattctcatcataaacTataatttctttggaaaagat	14	17	5	5	0	3	1	2	0	2	1	4	2	3	2	0	2	1	1	0	2	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:221912385T>C	uc001hmy.1	-	2	884	c.702A>G	c.(700-702)ATA>ATG	p.I234M	DUSP10_uc001hmx.1_5'Flank|DUSP10_uc001hmz.1_Intron	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	234	Rhodanese.				inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		CATCATAAACTATAATTTCTT	0.488													10	128					0	0	1	0	0		C	221912385	C	C	221912385	3	2	27	1	0	0	0	0	1	0	0	0	4816	1512	53	3	758	3	DUSP10	1	221912385	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	32663	221912385	27338236	742	23093											
HHIPL2	79802	broad.mit.edu	37	chr1	222717326	222717326	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggaagcaatagtccttgTcaggaaggtccaggaggtgg	11	8	16	6	0	1	0	1	0	0	0	3	3	3	3	2	6	1	1	2	6	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:222717326T>C	uc001hnh.1	-	2	585	c.527A>G	c.(526-528)GAC>GGC	p.D176G		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	176					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		ATAGTCCTTGTCAGGAAGGTC	0.587													5	90					0	0	1	0	0		C	222717326	C	C	222717326	3	2	27	1	0	0	0	0	1	0	0	0	7110	1667	58	3	1679	3	HHIPL2	1	222717326	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	804941	222717326	26533295	743	23094											
DISP1	84976	broad.mit.edu	37	chr1	223163983	223163983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagttatgcagccctgataGccgactggccggtggtggtc	6	10	15	10	2	0	1	0	1	0	0	1	2	0	1	3	4	3	3	3	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:223163983G>A	uc001hnu.1	+	4	703	c.556G>A	c.(556-558)GCC>ACC	p.A186T		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	186					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		AGCCCTGATAGCCGACTGGCC	0.502													6	172					0	0	1	0	0		A	223163983	A	A	223163983	3	1	27	1	0	0	0	0	1	0	0	0	4545	971	34	2	566	2	DISP1	1	223163983	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	446657	223163983	26086638	744	23095											
TLR5	7100	broad.mit.edu	37	chr1	223285929	223285929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttttggatagatccaagcGagttaaagcctttaaatttc	13	15	7	6	1	0	1	0	0	0	1	2	3	1	2	2	1	2	1	2	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:223285929G>A	uc001hnv.1	-	4	891	c.445C>T	c.(445-447)CGC>TGC	p.R149C	TLR5_uc001hnw.1_Missense_Mutation_p.R149C	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	149	LRR 3.|Extracellular (Potential).				cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		AGATCCAAGCGAGTTAAAGCC	0.368													5	66					0	0	1	0	0		A	223285929	A	A	223285929	3	1	27	1	0	0	0	0	1	0	0	0	15979	1058	37	1	2135	1	TLR5	1	223285929	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	121946	223285929	25964692	745	23096											
TP53BP2	7159	broad.mit.edu	37	chr1	223971921	223971921	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgattgtcatgcagtctcCttctttcatgggcagctcat	7	15	9	10	0	5	1	3	1	2	0	6	2	5	1	1	1	2	3	1	1	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:223971921C>A	uc010pvb.1	-	17	3551	c.3259G>T	c.(3259-3261)GGA>TGA	p.G1087*	TP53BP2_uc001hod.2_Nonsense_Mutation_p.G958*|TP53BP2_uc010puz.1_Nonsense_Mutation_p.G320*|TP53BP2_uc010pva.1_Nonsense_Mutation_p.G726*	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	1081	Mediates interaction with APC2.|SH3.				apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		ATGCAGTCTCCTTCTTTCATG	0.443													18	153					7.07596e-05	7.51747e-05	1	1	0		A	223971921	A	A	223971921	4	1	27	1	0	0	0	0	0	1	0	0	16410	690	24	5	153	5	TP53BP2	1	223971921	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	685992	223971921	25278700	746	23097											
FBXO28	23219	broad.mit.edu	37	chr1	224340859	224340859	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaggtgattgatgagattTatcgtgtgttgagatatgtc	9	18	12	2	1	0	4	0	4	0	2	2	6	0	4	0	1	0	1	0	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:224340859T>C	uc001hoh.2	+	4	573	c.532T>C	c.(532-534)TAT>CAT	p.Y178H	FBXO28_uc009xef.2_Intron|FBXO28_uc010pvc.1_5'UTR	NM_015176	NP_055991	Q9NVF7	FBX28_HUMAN	F-box protein 28 isoform a	178										ovary(2)|kidney(2)|lung(1)	5	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.0363)		TGATGAGATTTATCGTGTGTT	0.343													10	89					0	0	1	0	0		C	224340859	C	C	224340859	3	2	27	1	0	0	0	0	1	0	0	0	5752	1754	61	3	546	3	FBXO28	1	224340859	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	368938	224340859	24909762	747	23098											
CNIH4	29097	broad.mit.edu	37	chr1	224559058	224559058	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatcgagggcagctgaagTcacacatgaaagaagccatg	16	5	11	9	1	1	3	1	2	0	1	2	4	1	3	1	1	2	2	1	1	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:224559058T>C	uc001hom.1	+	4	357	c.325T>C	c.(325-327)TCA>CCA	p.S109P	CNIH4_uc001hon.1_Intron	NM_014184	NP_054903	Q9P003	CNIH4_HUMAN	cornichon homolog 4	109					intracellular signal transduction	endoplasmic reticulum|integral to membrane	protein binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.00341)		GCAGCTGAAGTCACACATGAA	0.398													4	67					0	0	1	0	0		C	224559058	C	C	224559058	3	2	27	1	0	0	0	0	1	0	0	0	3608	1667	58	3	339	3	CNIH4	1	224559058	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	218199	224559058	24691563	748	23099											
WDR26	80232	broad.mit.edu	37	chr1	224599216	224599216	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaatttacagaaccacacTtcattacaatgctccgtaag	15	10	6	10	1	1	2	1	0	0	2	2	3	2	2	2	0	4	2	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:224599216T>C	uc001hop.3	-	7	996	c.630A>G	c.(628-630)GAA>GAG	p.E210E	WDR26_uc001hoq.3_Silent_p.E194E|WDR26_uc010pvh.1_5'UTR	NM_025160	NP_079436	Q9H7D7	WDR26_HUMAN	WD repeat domain 26 isoform a	357	WD 1.					cytoplasm|nucleus					0				GBM - Glioblastoma multiforme(131;0.0104)		AGAACCACACTTCATTACAAT	0.378													12	66					0	0	1	0	0		C	224599216	C	C	224599216	2	2	27	1	0	0	0	0	0	0	0	1	17309	1606	56	3		3	WDR26	1	224599216	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	40158	224599216	24651405	749	23100											
CNIH3	149111	broad.mit.edu	37	chr1	224804931	224804931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctctggtgctgtgcgctGcgctcatcttcttcgccatc	2	15	10	14	3	4	0	1	0	3	0	7	0	4	0	1	1	3	3	1	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:224804931G>A	uc001hos.1	+	1	753	c.55G>A	c.(55-57)GCG>ACG	p.A19T		NM_152495	NP_689708	Q8TBE1	CNIH3_HUMAN	cornichon homolog 3	19	Helical; (Potential).				intracellular signal transduction|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic shaft|postsynaptic membrane					0	Breast(184;0.218)			GBM - Glioblastoma multiforme(131;0.073)		GCTGTGCGCTGCGCTCATCTT	0.557													22	233					0	0	1	0	0		A	224804931	A	A	224804931	3	1	27	1	0	0	0	0	1	0	0	0	3607	1319	46	2	57	2	CNIH3	1	224804931	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	205715	224804931	24445690	750	23101											
EPHX1	2052	broad.mit.edu	37	chr1	226030158	226030158	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggaattccgatacctggaGgatggaggcctggaaaggtg	11	7	16	7	2	0	0	0	0	0	0	1	6	1	5	3	7	1	0	3	7	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:226030158G>T	uc001hpk.2	+	7	1103	c.1023G>T	c.(1021-1023)GAG>GAT	p.E341D	EPHX1_uc001hpl.2_Missense_Mutation_p.E341D	NM_001136018	NP_001129490	P07099	HYEP_HUMAN	epoxide hydrolase 1	341					aromatic compound catabolic process|response to toxin	endoplasmic reticulum membrane|integral to membrane|microsome	cis-stilbene-oxide hydrolase activity|epoxide hydrolase activity			ovary(3)|lung(1)	4	Breast(184;0.197)					GATACCTGGAGGATGGAGGCC	0.572													33	143					6.53348e-20	7.3197e-20	1	1	0		T	226030158	T	T	226030158	3	4	27	1	0	0	0	0	1	0	0	0	5187	991	35	5	1045	5	EPHX1	1	226030158	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1225227	226030158	23220463	751	23102											
PARP1	142	broad.mit.edu	37	chr1	226550840	226550840	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggtaacttgctgatatgTgaagcgtgcttcagttcata	9	15	11	6	1	2	2	2	2	0	0	2	2	2	2	0	1	4	4	0	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:226550840T>C	uc001hqd.3	-	21	2979	c.2808A>G	c.(2806-2808)TCA>TCG	p.S936S		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	936	PARP catalytic.				cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		TGCTGATATGTGAAGCGTGCT	0.483								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					12	104					0	0	1	0	0		C	226550840	C	C	226550840	2	2	27	1	0	0	0	0	0	0	0	1	11473	1683	59	3		3	PARP1	1	226550840	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	520682	226550840	22699781	752	23103											
PARP1	142	broad.mit.edu	37	chr1	226578278	226578278	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcggtcaatcatgcctagCtgtggcttctccgggtccac	6	10	11	14	2	3	0	2	0	1	0	5	0	4	0	3	3	3	2	3	3	2	2	rs142376976		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:226578278C>T	uc001hqd.3	-	4	621	c.450G>A	c.(448-450)CAG>CAA	p.Q150Q		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	150	PARP-type 2.|				cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		TCATGCCTAGCTGTGGCTTCT	0.567								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					4	39					0	0	1	0	0		T	226578278	T	T	226578278	2	4	27	1	0	0	0	0	0	0	0	1	11473	796	28	2		2	PARP1	1	226578278	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	27438	226578278	22672343	753	23104											
CABC1	56997	broad.mit.edu	37	chr1	227152890	227152890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgcctacgtggccagtGgaccctttagagaagccggg	7	8	13	13	2	0	1	0	0	0	1	1	3	1	2	5	3	3	0	5	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:227152890G>A	uc001hqm.1	+	8	3786	c.367G>A	c.(367-369)GGA>AGA	p.G123R	CABC1_uc010pvp.1_Missense_Mutation_p.G86R|CABC1_uc001hqn.1_Missense_Mutation_p.G123R|CABC1_uc009xeq.1_Missense_Mutation_p.G71R|CABC1_uc010pvq.1_Intron|CABC1_uc010pvr.1_5'Flank	NM_020247	NP_064632	Q8NI60	ADCK3_HUMAN	chaperone, ABC1 activity of bc1 complex like	123					cell death	mitochondrion	ATP binding|protein serine/threonine kinase activity				0		Prostate(94;0.0771)				CGTGGCCAGTGGACCCTTTAG	0.652													10	33					0	0	1	0	0		A	227152890	A	A	227152890	3	1	27	1	0	0	0	0	1	0	0	0	2530	1349	47	4	373	4	CABC1	1	227152890	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	574612	227152890	22097731	754	23105											
ZNF678	339500	broad.mit.edu	37	chr1	227843127	227843127	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaacaagttctcaagcctTactcaacataggagaattca	15	12	5	9	0	3	1	3	0	1	1	4	2	3	1	1	1	4	1	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:227843127T>C	uc001hqw.1	+	4	1521	c.1176T>C	c.(1174-1176)CTT>CTC	p.L392L	ZNF678_uc009xet.1_Intron|ZNF678_uc009xeu.1_Intron	NM_178549	NP_848644	F5GXA7	F5GXA7_HUMAN	zinc finger protein 678	447					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			pancreas(1)	1		Prostate(94;0.0885)				TCTCAAGCCTTACTCAACATA	0.383													6	24					0	0	1	0	0		C	227843127	C	C	227843127	2	2	27	1	0	0	0	0	0	0	0	1	18110	1741	61	3		3	ZNF678	1	227843127	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	690237	227843127	21407494	755	23106											
SNAP47	116841	broad.mit.edu	37	chr1	227935786	227935786	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacgcatctgtcccaaggAcccggggcgaggagctgacg	9	4	15	13	4	1	2	0	1	1	1	2	5	2	4	2	4	1	2	2	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:227935786A>G	uc001hrf.2	+	2	898	c.484A>G	c.(484-486)ACC>GCC	p.T162A	SNAP47_uc001hqz.2_Missense_Mutation_p.T117A|SNAP47_uc001hra.2_Intron|SNAP47_uc001hrd.2_Missense_Mutation_p.T162A|SNAP47_uc001hre.2_Intron|SNAP47_uc001hrg.1_Missense_Mutation_p.T117A	NM_053052	NP_444280	Q5SQN1	SNP47_HUMAN	synaptosomal-associated protein, 47kDa	162	t-SNARE coiled-coil homology 1.					endomembrane system|membrane|perinuclear region of cytoplasm				ovary(1)	1						TGTCCCAAGGACCCGGGGCGA	0.637													5	39					0	0	1	0	0		G	227935786	G	G	227935786	3	3	27	1	0	0	0	0	1	0	0	0	14857	275	10	3	490	3	SNAP47	1	227935786	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	92659	227935786	21314835	756	23107											
C1orf69	200205	broad.mit.edu	37	chr1	228362488	228362488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcgcgctatacaggatccGgcggaaggtcacggtggagc	8	6	15	12	5	1	0	1	0	0	0	3	3	2	3	2	6	2	1	2	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:228362488G>A	uc001hsl.3	+	2	526	c.437G>A	c.(436-438)CGG>CAG	p.R146Q	C1orf69_uc010pvw.1_5'UTR	NM_001010867	NP_001010867	Q5T440	CAF17_HUMAN	hypothetical protein LOC200205 precursor	146					glycine catabolic process|heme biosynthetic process	mitochondrion	aminomethyltransferase activity				0		Prostate(94;0.0405)				TACAGGATCCGGCGGAAGGTC	0.667													3	19					0	0	1	0	0		A	228362488	A	A	228362488	3	1	27	1	0	0	0	0	1	0	0	0	2060	1116	39	1	443	1	C1orf69	1	228362488	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	426702	228362488	20888133	757	23108											
OBSCN	84033	broad.mit.edu	37	chr1	228431128	228431128	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacagctgcgaggccaggggCcagagggtctccttccgcct	6	7	14	14	2	1	1	0	0	1	1	3	2	2	1	5	4	3	1	5	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:228431128C>T	uc009xez.1	+	10	3218	c.3174C>T	c.(3172-3174)GGC>GGT	p.G1058G	OBSCN_uc001hsn.2_Silent_p.G1058G	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1058	Ig-like 10.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGGCCAGGGGCCAGAGGGTCT	0.557													6	39					0	0	1	0	0		T	228431128	T	T	228431128	2	4	27	1	0	0	0	0	0	0	0	1	10831	726	26	2		2	OBSCN	1	228431128	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	68640	228431128	20819493	758	23109											
OBSCN	84033	broad.mit.edu	37	chr1	228466627	228466627	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgtgacgccggtgatgTcaagaccagtgcacagttct	9	9	11	12	2	2	3	1	2	1	1	2	3	2	3	3	1	1	2	3	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:228466627T>C	uc009xez.1	+	26	7141	c.7097T>C	c.(7096-7098)GTC>GCC	p.V2366A	OBSCN_uc001hsn.2_Missense_Mutation_p.V2366A|OBSCN_uc001hsp.1_Missense_Mutation_p.V65A|OBSCN_uc001hsq.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2366	Ig-like 23.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCCGGTGATGTCAAGACCAGT	0.582													3	57					0	0	1	0	0		C	228466627	C	C	228466627	3	2	27	1	0	0	0	0	1	0	0	0	10831	1667	58	3	7195	3	OBSCN	1	228466627	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	35499	228466627	20783994	759	23110											
OBSCN	84033	broad.mit.edu	37	chr1	228468349	228468349	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgtggcgcaaagatggCgtgcagctgggccccagtga	7	7	18	9	2	0	2	0	1	0	1	0	2	0	2	2	4	2	3	2	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:228468349C>T	uc009xez.1	+	30	8093	c.8049C>T	c.(8047-8049)GGC>GGT	p.G2683G	OBSCN_uc001hsn.2_Silent_p.G2683G|OBSCN_uc001hsp.1_Silent_p.G382G|OBSCN_uc001hsq.1_5'UTR	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2683	Ig-like 26.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCAAAGATGGCGTGCAGCTGG	0.657													5	79					0	0	1	0	0		T	228468349	T	T	228468349	2	4	27	1	0	0	0	0	0	0	0	1	10831	755	27	1		1	OBSCN	1	228468349	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1722	228468349	20782272	760	23111											
OBSCN	84033	broad.mit.edu	37	chr1	228476538	228476538	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtggcagatgctggggagTactcctgtgtgtgtggggag	5	11	19	6	0	0	1	0	0	0	1	1	3	1	3	1	5	2	3	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:228476538T>C	uc009xez.1	+	38	10332	c.10288T>C	c.(10288-10290)TAC>CAC	p.Y3430H	OBSCN_uc001hsn.2_Missense_Mutation_p.Y3430H|OBSCN_uc001hsq.1_Missense_Mutation_p.Y686H	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3430	Ig-like 34.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TGCTGGGGAGTACTCCTGTGT	0.617													4	65					0	0	1	0	0		C	228476538	C	C	228476538	3	2	27	1	0	0	0	0	1	0	0	0	10831	1638	57	3	10434	3	OBSCN	1	228476538	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8189	228476538	20774083	761	23112											
OBSCN	84033	broad.mit.edu	37	chr1	228476571	228476571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggaggagaggacctctGccactctcaccgtgaagggt	8	7	16	10	1	2	2	1	1	2	1	3	5	2	4	3	5	1	0	3	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:228476571G>A	uc009xez.1	+	38	10365	c.10321G>A	c.(10321-10323)GCC>ACC	p.A3441T	OBSCN_uc001hsn.2_Missense_Mutation_p.A3441T|OBSCN_uc001hsq.1_Missense_Mutation_p.A697T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3441	Ig-like 34.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GAGGACCTCTGCCACTCTCAC	0.617													4	49					0	0	1	0	0		A	228476571	A	A	228476571	3	1	27	1	0	0	0	0	1	0	0	0	10831	1319	46	2	10467	2	OBSCN	1	228476571	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	33	228476571	20774050	762	23113											
OBSCN	84033	broad.mit.edu	37	chr1	228482590	228482590	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccccgtggagtggaggaaGgggtctgagaccctcagagg	8	5	18	10	1	2	2	1	1	1	2	2	6	2	5	3	6	0	0	3	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:228482590G>T	uc009xez.1	+	43	11549	c.11505G>T	c.(11503-11505)AAG>AAT	p.K3835N	OBSCN_uc001hsn.2_Missense_Mutation_p.K3835N|OBSCN_uc001hsq.1_Missense_Mutation_p.K1091N	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3835	Ig-like 39.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGTGGAGGAAGGGGTCTGAGA	0.597													13	131					0.00185496	0.00192824	1	1	0		T	228482590	T	T	228482590	3	4	27	1	0	0	0	0	1	0	0	0	10831	991	35	5	11671	5	OBSCN	1	228482590	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6019	228482590	20768031	763	23114											
OBSCN	84033	broad.mit.edu	37	chr1	228523973	228523973	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttggtgggcagaggaaaggTacagtcagggtgggtgcatg	9	8	19	5	0	1	1	1	0	0	1	1	2	1	2	0	6	2	3	0	6	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:228523973T>C	uc009xez.1	+	64	16581	c.16537_splice	c.e64+2	p.E5513_splice	OBSCN_uc001hsn.2_Splice_Site_p.E5513_splice|OBSCN_uc001hsr.1_Splice_Site_p.E141_splice	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and						apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGAGGAAAGGTACAGTCAGGG	0.612													5	81					0	0	1	0	0		C	228523973	C	C	228523973	5	2	27	1	0	0	0	0	0	0	1	0	10831	1652	57	3	16789	3	OBSCN	1	228523973	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	41383	228523973	20726648	764	23115											
OBSCN	84033	broad.mit.edu	37	chr1	228524766	228524766	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgctgaggtgggcacagaGgagttcctgcagaaactgac	10	7	14	10	1	0	4	0	2	0	2	2	5	1	5	1	3	2	4	1	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:228524766G>T	uc009xez.1	+	65	16643	c.16599G>T	c.(16597-16599)GAG>GAT	p.E5533D	OBSCN_uc001hsn.2_Missense_Mutation_p.E5533D|OBSCN_uc001hsr.1_Missense_Mutation_p.E161D	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5533					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TGGGCACAGAGGAGTTCCTGC	0.637													3	38					0.115264	0.116483	1	1	0		T	228524766	T	T	228524766	3	4	27	1	0	0	0	0	1	0	0	0	10831	991	35	5	16853	5	OBSCN	1	228524766	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	793	228524766	20725855	765	23116											
RHOU	58480	broad.mit.edu	37	chr1	228879123	228879123	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcccctcatccttccagaAcgtcagtgagaaatgggtgc	10	8	11	12	1	2	2	2	1	0	2	4	4	4	2	4	1	3	0	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:228879123A>C	uc001htf.2	+	3	1034	c.413A>C	c.(412-414)AAC>ACC	p.N138T		NM_021205	NP_067028	Q7L0Q8	RHOU_HUMAN	ras homolog gene family, member U	138					regulation of small GTPase mediated signal transduction	cell projection|cytosol|focal adhesion|Golgi membrane|podosome	GTP binding|metal ion binding|protein binding				0	Breast(184;0.162)	Prostate(94;0.183)				TCCTTCCAGAACGTCAGTGAG	0.522													10	179					0	0	1	0	0		C	228879123	C	C	228879123	3	2	27	1	0	0	0	0	1	0	0	0	13370	43	2	5	423	5	RHOU	1	228879123	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	354357	228879123	20371498	766	23117											
RAB4A	5867	broad.mit.edu	37	chr1	229433272	229433272	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaattggttaacagatgccCgaatgctagcgagccagaac	13	8	10	10	2	0	2	0	0	0	2	0	4	0	2	2	1	6	2	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:229433272C>T	uc001hth.2	+	5	542	c.334C>T	c.(334-336)CGA>TGA	p.R112*	RAB4A_uc001hti.2_RNA|RAB4A_uc001htj.2_RNA	NM_004578	NP_004569	P20338	RAB4A_HUMAN	RAB4A, member RAS oncogene family	107							GDP binding|GTP binding|GTPase activity			ovary(1)	1	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.178)				AACAGATGCCCGAATGCTAGC	0.398													5	103					0	0	1	0	0		T	229433272	T	T	229433272	4	4	27	1	0	0	0	0	0	1	0	0	12971	644	23	1	352	1	RAB4A	1	229433272	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	554149	229433272	19817349	767	23118											
ABCB10	23456	broad.mit.edu	37	chr1	229666069	229666069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgaaatcctgaaatatggGcacctctgggcgagctggat	10	9	13	9	1	1	2	0	2	1	0	2	4	2	3	2	3	1	3	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:229666069G>A	uc001htp.3	-	8	1565	c.1522C>T	c.(1522-1524)CCC>TCC	p.P508S		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	508	Mitochondrial intermembrane (Potential).|ABC transporter.|Mitochondrial matrix (Potential).					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				TGAAATATGGGCACCTCTGGG	0.478													46	122					0	0	1	0	0		A	229666069	A	A	229666069	3	1	27	1	0	0	0	0	1	0	0	0	41	1203	42	2	718	2	ABCB10	1	229666069	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	232797	229666069	19584552	768	23119											
ABCB10	23456	broad.mit.edu	37	chr1	229683280	229683280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctacggaagcctgggccccgGccctgagcccatctgagagg	7	5	14	15	2	1	2	0	2	1	1	1	4	1	3	5	4	3	0	5	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:229683280G>A	uc001htp.3	-	3	930	c.887C>T	c.(886-888)GCC>GTC	p.A296V		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	296	Mitochondrial intermembrane (Potential).|Mitochondrial intermembrane (Potential).|ABC transmembrane type-1.					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				CTGGGCCCCGGCCCTGAGCCC	0.577													7	50					0	0	1	0	0		A	229683280	A	A	229683280	3	1	27	1	0	0	0	0	1	0	0	0	41	1203	42	2	1373	2	ABCB10	1	229683280	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17211	229683280	19567341	769	23120											
PGBD5	79605	broad.mit.edu	37	chr1	230492723	230492723	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccttgtagagcccgtgcgTggtctggctggagcggaagg	6	8	18	9	3	1	1	0	0	1	1	1	4	1	3	2	5	3	2	2	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:230492723T>C	uc010pwb.1	-	2	469	c.469A>G	c.(469-471)ACG>GCG	p.T157A	PGBD5_uc001htv.2_Missense_Mutation_p.T256A	NM_024554	NP_078830	Q8N414	PGBD5_HUMAN	piggyBac transposable element derived 5	157						integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(184;0.0397)	Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;0.201)		AGCCCGTGCGTGGTCTGGCTG	0.622													5	61					0	0	1	0	0		C	230492723	C	C	230492723	3	2	27	1	0	0	0	0	1	0	0	0	11803	1696	59	3	922	3	PGBD5	1	230492723	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	809443	230492723	18757898	770	23121											
COG2	22796	broad.mit.edu	37	chr1	230814715	230814715	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacggcagtgtggatcacaGgctagtgtaaagagattaag	14	8	14	5	1	1	1	1	0	0	1	1	4	1	2	0	3	1	3	0	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:230814715G>T	uc001htw.2	+	10	1234	c.1083G>T	c.(1081-1083)CAG>CAT	p.Q361H	COG2_uc001htx.2_Missense_Mutation_p.Q361H|COG2_uc010pwc.1_Missense_Mutation_p.Q234H	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	361					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				GTGGATCACAGGCTAGTGTAA	0.348													6	56					0.00198382	0.00205548	1	1	0		T	230814715	T	T	230814715	3	4	27	1	0	0	0	0	1	0	0	0	3661	991	35	5	1121	5	COG2	1	230814715	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	321992	230814715	18435906	771	23122											
C1orf198	84886	broad.mit.edu	37	chr1	230979489	230979489	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctccttcctggtggggcCcagggcgtccaggctggagg	3	8	16	14	1	0	0	0	0	0	0	4	1	4	1	5	7	0	1	5	7	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:230979489C>A	uc001hub.2	-	3	582	c.538G>T	c.(538-540)GGC>TGC	p.G180C	C1orf198_uc009xfh.1_Missense_Mutation_p.G50C|C1orf198_uc001huc.1_5'UTR|C1orf198_uc001hud.1_Missense_Mutation_p.G142C	NM_032800	NP_116189	Q9H425	CA198_HUMAN	hypothetical protein LOC84886 isoform 1	180											0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				CTGGTGGGGCCCAGGGCGTCC	0.667													35	110					1.60099e-16	1.79049e-16	1	1	0		A	230979489	A	A	230979489	3	1	27	1	0	0	0	0	1	0	0	0	2029	623	22	5	453	5	C1orf198	1	230979489	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	164774	230979489	18271132	772	23123											
C1orf198	84886	broad.mit.edu	37	chr1	230979510	230979510	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcgtccaggctggaggAcctgctgccttgggaggact	6	7	17	11	1	0	0	0	0	0	0	1	4	1	4	3	6	2	2	3	6	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:230979510A>G	uc001hub.2	-	3	561	c.517T>C	c.(517-519)TCC>CCC	p.S173P	C1orf198_uc009xfh.1_Missense_Mutation_p.S43P|C1orf198_uc001huc.1_5'UTR|C1orf198_uc001hud.1_Missense_Mutation_p.S135P	NM_032800	NP_116189	Q9H425	CA198_HUMAN	hypothetical protein LOC84886 isoform 1	173											0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				AGGCTGGAGGACCTGCTGCCT	0.672													8	156					0	0	1	0	0		G	230979510	G	G	230979510	3	3	27	1	0	0	0	0	1	0	0	0	2029	275	10	3	474	3	C1orf198	1	230979510	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21	230979510	18271111	773	23124											
TTC13	79573	broad.mit.edu	37	chr1	231069604	231069604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctttgaaggattcaatagCttcctataaaaagtgtagag	14	14	8	5	0	2	2	1	1	1	1	3	3	3	3	1	1	1	2	1	1	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:231069604C>T	uc001huf.3	-	9	935	c.904G>A	c.(904-906)GCT>ACT	p.A302T	TTC13_uc009xfi.2_Missense_Mutation_p.A249T|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Missense_Mutation_p.A249T|TTC13_uc009xfk.1_Missense_Mutation_p.A192T	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	302	TPR 4.						binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		GATTCAATAGCTTCCTATAAA	0.279													4	84					0	0	1	0	0		T	231069604	T	T	231069604	3	4	27	1	0	0	0	0	1	0	0	0	16706	797	28	2	1738	2	TTC13	1	231069604	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	90094	231069604	18181017	774	23125											
TRIM67	440730	broad.mit.edu	37	chr1	231337179	231337179	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccctggagccgaaagtgTctgcggagtttgatctgact	7	10	14	10	3	2	2	0	2	2	0	2	5	2	4	2	2	2	1	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:231337179T>A	uc009xfn.1	+	5	1492	c.1450T>A	c.(1450-1452)TCT>ACT	p.S484T		NM_001004342	NP_001004342	Q6ZTA4	TRI67_HUMAN	tripartite motif-containing 67	484	COS.					cytoplasm|cytoskeleton	zinc ion binding			ovary(2)|breast(1)|kidney(1)	4	Breast(184;0.0871)	all_cancers(173;0.189)|Prostate(94;0.167)				GCCGAAAGTGTCTGCGGAGTT	0.557													6	15					0	0	1	0	0		A	231337179	A	A	231337179	3	1	27	1	0	0	0	0	1	0	0	0	16566	1667	58	5	1468	5	TRIM67	1	231337179	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	267575	231337179	17913442	775	23126											
EGLN1	54583	broad.mit.edu	37	chr1	231556926	231556926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctggctgaccagctgcccgtCcgtgaacttcccggtgtcgt	4	10	12	15	4	0	2	0	2	0	0	3	2	2	2	4	2	3	2	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:231556926C>T	uc001huv.2	-	1	3865	c.709G>A	c.(709-711)GAC>AAC	p.D237N	EGLN1_uc001huu.3_5'Flank	NM_022051	NP_071334	Q9GZT9	EGLN1_HUMAN	egl nine homolog 1	237					negative regulation of sequence-specific DNA binding transcription factor activity|oxygen homeostasis|response to hypoxia	cytosol	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptidyl-proline dioxygenase activity|protein binding|zinc ion binding				0		Prostate(94;0.194)|Acute lymphoblastic leukemia(190;0.244)			Vitamin C(DB00126)	AGCTGCCCGTCCGTGAACTTC	0.627													9	49					0	0	1	0	0		T	231556926	T	T	231556926	3	4	27	1	0	0	0	0	1	0	0	0	4974	855	30	4	591	4	EGLN1	1	231556926	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	219747	231556926	17693695	776	23127											
DISC1	27185	broad.mit.edu	37	chr1	231906664	231906664	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggaaatagaggagcaagaGcagcaactccagtggcaggg	15	3	16	7	0	0	2	0	0	0	2	1	4	1	4	1	4	4	4	1	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:231906664G>A	uc001huz.2	+	6	1535	c.1482G>A	c.(1480-1482)GAG>GAA	p.E494E	TSNAX-DISC1_uc010pwg.1_Silent_p.E483E|TSNAX-DISC1_uc010pwh.1_Silent_p.E449E|TSNAX-DISC1_uc010pwi.1_Silent_p.E449E|TSNAX-DISC1_uc010pwj.1_Silent_p.E483E|TSNAX-DISC1_uc010pwk.1_Silent_p.E483E|TSNAX-DISC1_uc010pwl.1_RNA|DISC1_uc010pwq.1_Silent_p.E494E|DISC1_uc010pwr.1_Silent_p.E494E|DISC1_uc010pws.1_Silent_p.E494E|DISC1_uc010pwt.1_Silent_p.E494E|DISC1_uc010pwu.1_Silent_p.E144E|DISC1_uc010pwv.1_RNA|DISC1_uc010pww.1_Silent_p.E494E|DISC1_uc010pwx.1_RNA|DISC1_uc010pwy.1_RNA|DISC1_uc010pwz.1_RNA|DISC1_uc010pxa.1_RNA|DISC1_uc001huy.2_Silent_p.E494E|DISC1_uc010pxb.1_Silent_p.E494E|DISC1_uc010pxc.1_Silent_p.E494E|DISC1_uc010pxd.1_Silent_p.E139E|DISC1_uc010pxe.1_Silent_p.E494E|DISC1_uc009xfr.2_Silent_p.E449E|DISC1_uc010pxf.1_Silent_p.E494E|DISC1_uc010pxg.1_Silent_p.E494E|DISC1_uc010pxh.1_Silent_p.E526E|DISC1_uc010pxi.1_RNA|DISC1_uc010pxj.1_Silent_p.E139E|DISC1_uc010pxk.1_RNA|DISC1_uc010pxl.1_RNA|DISC1_uc010pxm.1_Intron|DISC1_uc010pxn.1_Silent_p.E139E|DISC1_uc001hva.2_Silent_p.E494E	NM_018662	NP_061132	Q9NRI5	DISC1_HUMAN	disrupted in schizophrenia 1 isoform L	494	Potential.|Necessary and sufficient for interaction with PCNT and localization at the centrosome.|Interaction with TRAF3IP1.|Required for localization to punctate cytoplasmic foci.				microtubule cytoskeleton organization|neuron migration|positive regulation of neuroblast proliferation|positive regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	centrosome|microtubule	protein binding			skin(1)	1		all_cancers(173;0.0208)|Prostate(94;0.0975)				AGGAGCAAGAGCAGCAACTCC	0.562													7	36					0	0	1	0	0		A	231906664	A	A	231906664	2	1	27	1	0	0	0	0	0	0	0	1	4544	962	34	2		2	DISC1	1	231906664	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	349738	231906664	17343957	777	23128											
SIPA1L2	57568	broad.mit.edu	37	chr1	232539873	232539873	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagccccagacaatcacctAgataggacgtgtggtgacag	12	6	12	11	1	1	3	1	1	0	2	1	4	1	4	3	2	1	1	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:232539873A>G	uc001hvg.2	-	18	4972	c.4814T>C	c.(4813-4815)CTA>CCA	p.L1605P	SIPA1L2_uc001hvf.2_Intron	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1605					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				ACAATCACCTAGATAGGACGT	0.453													5	52					0	0	1	0	0		G	232539873	G	G	232539873	3	3	27	1	0	0	0	0	1	0	0	0	14355	420	15	3	370	3	SIPA1L2	1	232539873	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	633209	232539873	16710748	778	23129											
KIAA1383	54627	broad.mit.edu	37	chr1	232942838	232942838	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagttaaactattaagctCtgcagaacaaagtcagaagc	18	8	7	8	0	2	2	1	0	1	2	2	2	2	2	0	0	5	3	0	0	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:232942838C>A	uc001hvh.2	+	1	2201	c.2069C>A	c.(2068-2070)TCT>TAT	p.S690Y		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	548										ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				CTATTAAGCTCTGCAGAACAA	0.348													4	27					0.150653	0.151846	1	1	0		A	232942838	A	A	232942838	3	1	27	1	0	0	0	0	1	0	0	0	8244	913	32	5	2071	5	KIAA1383	1	232942838	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	402965	232942838	16307783	779	23130											
C1orf57	84284	broad.mit.edu	37	chr1	233091413	233091413	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagggagggagaagaataGgattcgatgtcgtcacgttg	12	8	16	5	3	1	2	1	0	0	2	3	7	1	4	0	3	0	1	0	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:233091413G>T	uc001hvj.1	+	2	232	c.145G>T	c.(145-147)GGA>TGA	p.G49*	C1orf57_uc001hvi.2_Nonsense_Mutation_p.G49*|C1orf57_uc009xft.1_Intron	NM_032324	NP_115700	Q9BSD7	NTPCR_HUMAN	nucleoside-triphosphatase C1orf57	49							ATP binding|nucleoside-triphosphatase activity|nucleotide phosphatase activity|transferase activity				0		all_cancers(173;0.0818)|Prostate(94;0.137)				GAGAAGAATAGGATTCGATGT	0.453													4	53					0.00909568	0.0093211	1	1	0		T	233091413	T	T	233091413	4	4	27	1	0	0	0	0	0	1	0	0	2052	1001	35	5	151	5	C1orf57	1	233091413	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	148575	233091413	16159208	780	23131											
RBM34	23029	broad.mit.edu	37	chr1	235323841	235323841	+	Missense_Mutation	SNP	T	C	C																															ccaacctgtctgccaactttTtttctgcgttagtgtgtttc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:235323841T>C	uc001hwn.2	-	3	380	c.350A>G	c.(349-351)AAA>AGA	p.K117R	RBM34_uc001hwo.2_Intron|ARID4B_uc001hwp.2_RNA|RBM34_uc010pxp.1_Missense_Mutation_p.K117R	NM_015014	NP_055829	P42696	RBM34_HUMAN	RNA binding motif protein 34 isoform 1	117						nucleolus	nucleotide binding|RNA binding			central_nervous_system(1)	1	Ovarian(103;0.0398)	all_cancers(173;0.177)|Prostate(94;0.0166)	OV - Ovarian serous cystadenocarcinoma(106;5.43e-05)|Epithelial(3;0.000121)			TGCCAACTTTTTTTCTGCGTT	0.353													4	117					0	0	1	0	0		C	235323841	C	C	235323841	3	2	27	1	0	0	0	0	1	0	0	0	13156	1841	64	3	999	3	RBM34	1	235323841	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2232428	235323841	13926780	781	23132	38	2									
RBM34	23029	broad.mit.edu	37	chr1	235323849	235323849	+	Silent	SNP	G	A	A																															tctgccaactttttttctgcGttagtgtgtttcttcttcgc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:235323849G>A	uc001hwn.2	-	3	372	c.342C>T	c.(340-342)AAC>AAT	p.N114N	RBM34_uc001hwo.2_Intron|ARID4B_uc001hwp.2_RNA|RBM34_uc010pxp.1_Silent_p.N114N	NM_015014	NP_055829	P42696	RBM34_HUMAN	RNA binding motif protein 34 isoform 1	114						nucleolus	nucleotide binding|RNA binding			central_nervous_system(1)	1	Ovarian(103;0.0398)	all_cancers(173;0.177)|Prostate(94;0.0166)	OV - Ovarian serous cystadenocarcinoma(106;5.43e-05)|Epithelial(3;0.000121)			TTTTTTCTGCGTTAGTGTGTT	0.363													5	123					0	0	1	0	0		A	235323849	A	A	235323849	2	1	27	1	0	0	0	0	0	0	0	1	13156	1136	40	1		1	RBM34	1	235323849	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8	235323849	13926772	782	23133	38	2									
ARID4B	51742	broad.mit.edu	37	chr1	235345219	235345219	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaattctgcttttctgtcAttgacctctactgttttttc	6	20	6	9	0	4	1	1	1	3	0	5	2	4	2	1	1	2	2	1	1	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:235345219A>C	uc001hwq.2	-	20	3513	c.3015T>G	c.(3013-3015)AAT>AAG	p.N1005K	ARID4B_uc001hwr.2_Missense_Mutation_p.N919K|ARID4B_uc001hws.3_Missense_Mutation_p.N919K|ARID4B_uc001hwp.2_RNA|ARID4B_uc001hwt.3_Missense_Mutation_p.N686K	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	1005					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			CTTTTCTGTCATTGACCTCTA	0.428													9	169					0	0	1	0	0		C	235345219	C	C	235345219	3	2	27	1	0	0	0	0	1	0	0	0	920	214	8	5	943	5	ARID4B	1	235345219	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21370	235345219	13905402	783	23134											
ARID4B	51742	broad.mit.edu	37	chr1	235377281	235377281	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcctcttcttcttcttcCtcctcctcctcctcttctgc	1	19	1	20	0	7	0	1	0	6	0	13	0	13	0	6	0	1	0	6	0	0	5	rs113894806		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:235377281C>T	uc001hwq.2	-	17	2142	c.1644G>A	c.(1642-1644)GAG>GAA	p.E548E	ARID4B_uc001hwr.2_Intron|ARID4B_uc001hws.3_Intron|ARID4B_uc001hwt.3_Silent_p.E229E	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	548	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			cttcttcttcctcctcctcct	0.249													8	97					0	0	1	0	0		T	235377281	T	T	235377281	2	4	27	1	0	0	0	0	0	0	0	1	920	680	24	4		4	ARID4B	1	235377281	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	32062	235377281	13873340	784	23135											
ARID4B	51742	broad.mit.edu	37	chr1	235377332	235377332	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcatcttcttctttattCgtttcatctcttgaaaggtt	6	22	4	9	1	7	1	2	1	5	0	9	1	7	1	0	1	0	2	0	1	2	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:235377332C>T	uc001hwq.2	-	17	2091	c.1593G>A	c.(1591-1593)ACG>ACA	p.T531T	ARID4B_uc001hwr.2_Intron|ARID4B_uc001hws.3_Intron|ARID4B_uc001hwt.3_Silent_p.T212T	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	531	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			cttcttTATTCGTTTCATCTC	0.199													19	49					0	0	1	0	0		T	235377332	T	T	235377332	2	4	27	1	0	0	0	0	0	0	0	1	920	871	31	1		1	ARID4B	1	235377332	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	51	235377332	13873289	785	23136											
LYST	1130	broad.mit.edu	37	chr1	235920623	235920623	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggtgatgggtggttaacGaggaccaaaagtgtatctgc	10	10	15	6	1	1	1	0	1	1	0	1	3	1	2	1	4	2	3	1	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:235920623G>A	uc001hxj.2	-	24	7192	c.7017C>T	c.(7015-7017)CTC>CTT	p.L2339L		NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2339					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GGTGGTTAACGAGGACCAAAA	0.333									Chediak-Higashi_syndrome				12	40					0	0	1	0	0		A	235920623	A	A	235920623	2	1	27	1	0	0	0	0	0	0	0	1	9146	1045	37	1		1	LYST	1	235920623	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	543291	235920623	13329998	786	23137											
LYST	1130	broad.mit.edu	37	chr1	235922861	235922861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctagaacgcagcatatgggCggccatctgttgtggaataa	11	10	12	8	2	2	1	0	0	2	1	2	2	2	2	1	3	2	3	1	3	5	4	rs146091043	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:235922861C>T	uc001hxj.2	-	23	6467	c.6292G>A	c.(6292-6294)GCC>ACC	p.A2098T	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2098					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			AGCATATGGGCGGCCATCTGT	0.398									Chediak-Higashi_syndrome				14	67					0	0	1	0	0		T	235922861	T	T	235922861	3	4	27	1	0	0	0	0	1	0	0	0	9146	768	27	1	5237	1	LYST	1	235922861	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2238	235922861	13327760	787	23138											
HEATR1	55127	broad.mit.edu	37	chr1	236751266	236751266	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcaaaagcacttatagcCgacaaaacaacatctatatt	18	9	3	11	1	2	0	1	0	1	0	2	1	2	0	2	0	4	1	2	0	9	5	rs146109914	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:236751266C>T	uc001hyd.1	-	13	1733	c.1608G>A	c.(1606-1608)TCG>TCA	p.S536S		NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	536					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CACTTATAGCCGACAAAACAA	0.353													3	52					0	0	1	0	0		T	236751266	T	T	236751266	2	4	27	1	0	0	0	0	0	0	0	1	7043	639	23	1		1	HEATR1	1	236751266	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	828405	236751266	12499355	788	23139											
ACTN2	88	broad.mit.edu	37	chr1	236920856	236920856	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgaggtggagactcagaTcctgacgagagatgcgaagg	13	6	15	7	2	1	5	1	2	0	3	2	9	2	5	1	3	1	0	1	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:236920856T>C	uc001hyf.2	+	18	2429	c.2225T>C	c.(2224-2226)ATC>ACC	p.I742T	ACTN2_uc001hyg.2_Missense_Mutation_p.I534T|ACTN2_uc009xgi.1_Missense_Mutation_p.I742T|ACTN2_uc010pxu.1_Missense_Mutation_p.I431T|ACTN2_uc001hyh.2_Missense_Mutation_p.I430T	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	742					focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GAGACTCAGATCCTGACGAGA	0.498													6	66					0	0	1	0	0		C	236920856	C	C	236920856	3	2	27	1	0	0	0	0	1	0	0	0	205	1435	50	3	2295	3	ACTN2	1	236920856	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	169590	236920856	12329765	789	23140											
MTR	4548	broad.mit.edu	37	chr1	237001790	237001790	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaagggaagtgcattgTcaatagcattagtctgaagg	12	10	12	7	0	2	1	1	1	1	0	2	2	2	2	1	2	3	2	1	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:237001790T>C	uc001hyi.3	+	15	1829	c.1406T>C	c.(1405-1407)GTC>GCC	p.V469A	MTR_uc010pxw.1_Missense_Mutation_p.V62A|MTR_uc010pxx.1_Missense_Mutation_p.V469A|MTR_uc010pxy.1_Missense_Mutation_p.V469A	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	469	Pterin-binding.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	AAGTGCATTGTCAATAGCATT	0.443													19	170					0	0	1	0	0		C	237001790	C	C	237001790	3	2	27	1	0	0	0	0	1	0	0	0	9976	1667	58	3	1464	3	MTR	1	237001790	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	80934	237001790	12248831	790	23141											
MTR	4548	broad.mit.edu	37	chr1	237049633	237049633	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcaagccagaaaaagtggTttccaaatggattggctgtc	13	10	11	7	0	1	1	1	0	0	1	3	2	2	2	2	3	1	2	2	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:237049633T>C	uc001hyi.3	+	27	3240	c.2817T>C	c.(2815-2817)GGT>GGC	p.G939G	MTR_uc010pxw.1_Silent_p.G532G|MTR_uc010pxx.1_Silent_p.G888G|MTR_uc010pxy.1_Silent_p.G793G	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	939	AdoMet activation.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	GAAAAAGTGGTTTCCAAATGG	0.408													5	37					0	0	1	0	0		C	237049633	C	C	237049633	2	2	27	1	0	0	0	0	0	0	0	1	9976	1712	60	3		3	MTR	1	237049633	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47843	237049633	12200988	791	23142											
MTR	4548	broad.mit.edu	37	chr1	237057735	237057735	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttgcattctggcatccgtGactacctgggcctgtttgcc	4	13	10	14	1	1	1	0	1	1	0	2	1	2	1	5	2	3	3	5	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:237057735G>A	uc001hyi.3	+	30	3706	c.3283G>A	c.(3283-3285)GAC>AAC	p.D1095N	MTR_uc010pxw.1_Missense_Mutation_p.D688N|MTR_uc010pxx.1_Missense_Mutation_p.D1044N|MTR_uc010pxy.1_Missense_Mutation_p.D949N	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	1095	AdoMet activation.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	TGGCATCCGTGACTACCTGGG	0.542													6	98					0	0	1	0	0		A	237057735	A	A	237057735	3	1	27	1	0	0	0	0	1	0	0	0	9976	1290	45	4	3401	4	MTR	1	237057735	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8102	237057735	12192886	792	23143											
RYR2	6262	broad.mit.edu	37	chr1	237608788	237608788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgcacagcccgagttatcCggagcacagtcttccttttc	8	10	8	15	3	1	0	0	0	1	0	4	2	3	1	3	1	2	3	3	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:237608788C>T	uc001hyl.1	+	14	1378	c.1258C>T	c.(1258-1260)CGG>TGG	p.R420W		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	420	Cytoplasmic (By similarity).		R -> W (in CPVT1).		cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CCGAGTTATCCGGAGCACAGT	0.388													11	96					0	0	1	0	0		T	237608788	T	T	237608788	3	4	27	1	0	0	0	0	1	0	0	0	13794	643	23	1	1312	1	RYR2	1	237608788	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	551053	237608788	11641833	793	23144											
RYR2	6262	broad.mit.edu	37	chr1	237617704	237617704	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttaggggccttgatgctCtcagcaagaaagcgaaggct	11	10	12	8	1	1	2	1	1	1	1	2	3	1	2	1	3	3	3	1	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:237617704C>A	uc001hyl.1	+	15	1426	c.1306C>A	c.(1306-1308)CTC>ATC	p.L436I		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	436	Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CCTTGATGCTCTCAGCAAGAA	0.408													4	71					0.00116845	0.00121513	1	1	0		A	237617704	A	A	237617704	3	1	27	1	0	0	0	0	1	0	0	0	13794	913	32	5	1364	5	RYR2	1	237617704	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8916	237617704	11632917	794	23145											
RYR2	6262	broad.mit.edu	37	chr1	237660039	237660039	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctatggatttgatggcctTcatctctggtcaggtacgta	7	15	10	9	1	3	1	2	1	1	0	5	2	4	2	2	4	1	2	2	4	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:237660039T>C	uc001hyl.1	+	20	2310	c.2190T>C	c.(2188-2190)CTT>CTC	p.L730L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	730	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTGATGGCCTTCATCTCTGGT	0.483													11	168					0	0	1	0	0		C	237660039	C	C	237660039	2	2	27	1	0	0	0	0	0	0	0	1	13794	1770	62	3		3	RYR2	1	237660039	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	42335	237660039	11590582	795	23146											
RYR2	6262	broad.mit.edu	37	chr1	237754200	237754200	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcatggccatctagtgccCgatcgtgttgacaaagacaa	11	9	10	11	2	2	2	1	1	1	1	3	3	2	2	2	1	1	2	2	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:237754200C>T	uc001hyl.1	+	31	4188	c.4068C>T	c.(4066-4068)CCC>CCT	p.P1356P		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1356	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			ATCTAGTGCCCGATCGTGTTG	0.448													3	57					0	0	1	0	0		T	237754200	T	T	237754200	2	4	27	1	0	0	0	0	0	0	0	1	13794	639	23	1		1	RYR2	1	237754200	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	94161	237754200	11496421	796	23147											
CHRM3	1131	broad.mit.edu	37	chr1	240072456	240072456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtgacaaaaaaaagaggCgcaagcagcagtaccagcag	18	3	12	8	1	0	2	0	1	0	1	0	2	0	2	1	1	4	5	1	1	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:240072456C>T	uc001hyp.2	+	5	2484	c.1705C>T	c.(1705-1707)CGC>TGC	p.R569C		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	569	Cytoplasmic (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	AAAAAAGAGGCGCAAGCAGCA	0.498													5	57					0	0	1	0	0		T	240072456	T	T	240072456	3	4	27	1	0	0	0	0	1	0	0	0	3381	768	27	1	1707	1	CHRM3	1	240072456	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2318256	240072456	9178165	797	23148											
FMN2	56776	broad.mit.edu	37	chr1	240256747	240256747	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agccccaggatcaagaggcgGccggaaccctccctgagccg	9	3	13	16	3	1	2	1	1	0	1	2	4	2	4	6	4	3	0	6	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:240256747G>A	uc010pyd.1	+	1	1563	c.1338G>A	c.(1336-1338)CGG>CGA	p.R446R	FMN2_uc010pye.1_Silent_p.R446R	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	446					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TCAAGAGGCGGCCGGAACCCT	0.682													6	66					0	0	1	0	0		A	240256747	A	A	240256747	2	1	27	1	0	0	0	0	0	0	0	1	5964	1190	42	2		2	FMN2	1	240256747	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	184291	240256747	8993874	798	23149											
FMN2	56776	broad.mit.edu	37	chr1	240497204	240497204	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggacaatagcagaagcctTttgtcatatattgtttcgta	12	15	8	6	1	1	1	1	0	0	1	2	2	1	2	1	1	2	3	1	1	7	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:240497204T>C	uc010pyd.1	+	12	4827	c.4602T>C	c.(4600-4602)CTT>CTC	p.L1534L	FMN2_uc010pye.1_Silent_p.L1538L|FMN2_uc010pyf.1_Silent_p.L180L|FMN2_uc010pyg.1_Silent_p.L130L	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1534	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GCAGAAGCCTTTTGTCATATA	0.279													8	31					0	0	1	0	0		C	240497204	C	C	240497204	2	2	27	1	0	0	0	0	0	0	0	1	5964	1828	64	3		3	FMN2	1	240497204	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	240457	240497204	8753417	799	23150											
GREM2	64388	broad.mit.edu	37	chr1	240656448	240656448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactcctcctccttcttcaCgtgccgcgggatgtagaagg	6	10	12	13	3	2	1	1	0	1	1	5	3	5	3	4	3	1	1	4	3	2	3	rs146387570		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:240656448C>T	uc001hys.2	-	2	608	c.328G>A	c.(328-330)GTG>ATG	p.V110M		NM_022469	NP_071914	Q9H772	GREM2_HUMAN	gremlin 2 precursor	110	CTCK.				BMP signaling pathway	extracellular space	cytokine activity				0		all_cancers(173;0.0196)	OV - Ovarian serous cystadenocarcinoma(106;0.0123)			TCCTTCTTCACGTGCCGCGGG	0.677													20	45					0	0	1	0	0		T	240656448	T	T	240656448	3	4	27	1	0	0	0	0	1	0	0	0	6778	536	19	1	182	1	GREM2	1	240656448	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	159244	240656448	8594173	800	23151											
CHML	1122	broad.mit.edu	37	chr1	241798852	241798852	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtcctgccatacaacagTactttcttccccaatgtcat	10	12	5	14	0	2	0	1	0	1	0	4	0	4	0	4	1	4	1	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:241798852T>A	uc001hzd.2	-	1	381	c.217A>T	c.(217-219)ACT>TCT	p.T73S	OPN3_uc001hza.2_Intron|OPN3_uc001hzb.2_Intron|OPN3_uc001hzc.2_Intron	NM_001821	NP_001812	P26374	RAE2_HUMAN	choroideremia-like Rab escort protein 2	73					intracellular protein transport|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(4)|skin(2)	6	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			CATACAACAGTACTTTCTTCC	0.433													17	226					0	0	1	0	0		A	241798852	A	A	241798852	3	1	27	1	0	0	0	0	1	0	0	0	3354	1638	57	5	1757	5	CHML	1	241798852	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1142404	241798852	7451769	801	23152											
EXO1	9156	broad.mit.edu	37	chr1	242020693	242020693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcgtggctccctatgaagCtgatgcgcagttggcctatc	6	11	11	13	2	0	2	0	2	0	0	3	2	1	2	3	2	2	4	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:242020693C>T	uc001hzh.2	+	7	992	c.452C>T	c.(451-453)GCT>GTT	p.A151V	EXO1_uc001hzi.2_Missense_Mutation_p.A151V|EXO1_uc001hzj.2_Missense_Mutation_p.A151V|EXO1_uc009xgq.2_Missense_Mutation_p.A151V	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	151	I-domain.|Interaction with MSH3.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			CCCTATGAAGCTGATGCGCAG	0.493								Direct_reversal_of_damage|Editing_and_processing_nucleases					8	114					0	0	1	0	0		T	242020693	T	T	242020693	3	4	27	1	0	0	0	0	1	0	0	0	5308	797	28	2	466	2	EXO1	1	242020693	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	221841	242020693	7229928	802	23153											
AKT3	10000	broad.mit.edu	37	chr1	243727145	243727145	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctttgtccagcattagattCtccaactgtgtattaagaaa	12	15	6	8	0	2	2	0	0	2	2	4	2	3	2	2	0	2	2	2	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:243727145C>T	uc001iab.1	-	9	906	c.825G>A	c.(823-825)GAG>GAA	p.E275E	AKT3_uc001hzz.1_Silent_p.E275E	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	275	Protein kinase.				signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)			GCATTAGATTCTCCAACTGTG	0.343													10	55					0	0	1	0	0		T	243727145	T	T	243727145	2	4	27	1	0	0	0	0	0	0	0	1	481	912	32	4		4	AKT3	1	243727145	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1706452	243727145	5523476	803	23154											
ZNF238	10472	broad.mit.edu	37	chr1	244217659	244217659	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcctgggaacatgtggatgCgattgccctcagactcagca	10	8	12	11	1	2	1	2	0	0	1	2	4	2	3	2	2	5	1	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:244217659C>T	uc001iae.2	+	1	1078	c.556C>T	c.(556-558)CGA>TGA	p.R186*	ZNF238_uc001iad.3_Nonsense_Mutation_p.R195*|ZNF238_uc001iaf.1_Nonsense_Mutation_p.R186*	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	186				KLNILPSKRDLAAEPGNMWMRLPSDSAGIPQAGGEAEPHAT AAGKTVASPCSSTESLSQRSVTSVRDSADVDCVLDLSVKSS LSGVENLNSSYFSSQ -> IEHPAQQKGLGGRAWEHVDAIA LRLSRHPPGWRRGRATRHSSWKNSSQPLQLNRVFVPE (in Ref. 1; AAA81368).	negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			CATGTGGATGCGATTGCCCTC	0.572													6	46					0	0	1	0	0		T	244217659	T	T	244217659	4	4	27	1	0	0	0	0	0	1	0	0	17815	760	27	1	589	1	ZNF238	1	244217659	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	490514	244217659	5032962	804	23155											
ZNF238	10472	broad.mit.edu	37	chr1	244217906	244217906	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggacgtgctgagaagcaAcctggtgcaggtgaaggtgg	11	6	17	7	1	0	2	0	2	0	1	0	4	0	3	1	5	4	3	1	5	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:244217906A>T	uc001iae.2	+	1	1325	c.803A>T	c.(802-804)AAC>ATC	p.N268I	ZNF238_uc001iad.3_Missense_Mutation_p.N277I|ZNF238_uc001iaf.1_3'UTR	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	268					negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			CTGAGAAGCAACCTGGTGCAG	0.468													7	64					0	0	1	0	0		T	244217906	T	T	244217906	3	4	27	1	0	0	0	0	1	0	0	0	17815	43	2	5	836	5	ZNF238	1	244217906	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	247	244217906	5032715	805	23156											
ADSS	159	broad.mit.edu	37	chr1	244574657	244574657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacaggtagttctttaaacGcccttgcatttgatatgtct	10	16	7	8	1	2	1	0	1	2	0	2	1	2	1	1	1	3	3	1	1	5	8	rs150012791		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:244574657G>A	uc001iaj.2	-	12	1544	c.1250C>T	c.(1249-1251)GCG>GTG	p.A417V		NM_001126	NP_001117	P30520	PURA2_HUMAN	adenylosuccinate synthase	417					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol|plasma membrane	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(2)|kidney(1)	3	all_cancers(71;2.17e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)	all_cancers(173;0.0896)|all_epithelial(177;0.172)	all cancers(7;9.71e-08)|GBM - Glioblastoma multiforme(7;1.28e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.0014)		L-Aspartic Acid(DB00128)	TTCTTTAAACGCCCTTGCATT	0.328													6	84					0	0	1	0	0		A	244574657	A	A	244574657	3	1	27	1	0	0	0	0	1	0	0	0	347	1087	38	1	128	1	ADSS	1	244574657	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	356751	244574657	4675964	806	23157											
ADSS	159	broad.mit.edu	37	chr1	244595888	244595888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taataagccttttttcccagCcttctagtcctagaaagggg	10	13	8	10	0	1	1	0	0	1	1	3	1	3	1	4	2	2	0	4	2	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:244595888C>T	uc001iaj.2	-	4	659	c.365G>A	c.(364-366)GGC>GAC	p.G122D	ADSS_uc009xgr.1_RNA	NM_001126	NP_001117	P30520	PURA2_HUMAN	adenylosuccinate synthase	122					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol|plasma membrane	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(2)|kidney(1)	3	all_cancers(71;2.17e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)	all_cancers(173;0.0896)|all_epithelial(177;0.172)	all cancers(7;9.71e-08)|GBM - Glioblastoma multiforme(7;1.28e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.0014)		L-Aspartic Acid(DB00128)	TTTTTCCCAGCCTTCTAGTCC	0.234													7	126					0	0	1	0	0		T	244595888	T	T	244595888	3	4	27	1	0	0	0	0	1	0	0	0	347	739	26	2	1045	2	ADSS	1	244595888	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21231	244595888	4654733	807	23158											
C1orf101	257044	broad.mit.edu	37	chr1	244715917	244715917	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaatcagagtgcctccagAcattctgagtgatgatgaaa	14	9	10	8	0	2	7	1	4	1	3	3	7	3	7	2	0	1	0	2	0	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:244715917A>G	uc001iam.2	+	9	889	c.830A>G	c.(829-831)GAC>GGC	p.D277G	C1orf101_uc001iak.1_Intron|C1orf101_uc001ial.2_Missense_Mutation_p.D277G|C1orf101_uc010pym.1_Missense_Mutation_p.D126G|C1orf101_uc010pyn.1_Missense_Mutation_p.D210G	NM_001130957	NP_001124429	Q5SY80	CA101_HUMAN	hypothetical protein LOC257044 isoform 1	277	Extracellular (Potential).					integral to membrane				ovary(1)|breast(1)	2	all_cancers(71;2.99e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)		all cancers(7;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.001)|GBM - Glioblastoma multiforme(7;0.0154)			GTGCCTCCAGACATTCTGAGT	0.408													4	107					0	0	1	0	0		G	244715917	G	G	244715917	3	3	27	1	0	0	0	0	1	0	0	0	1979	275	10	3	864	3	C1orf101	1	244715917	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	120029	244715917	4534704	808	23159											
C1orf101	257044	broad.mit.edu	37	chr1	244756860	244756860	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcttgacttcacagaaaaGtttcaacctgtggttcaact	12	12	8	9	0	3	2	3	1	0	1	3	2	3	2	1	2	2	3	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:244756860G>A	uc001iam.2	+	17	2342	c.2283G>A	c.(2281-2283)AAG>AAA	p.K761K	C1orf101_uc001iak.1_Silent_p.K315K|C1orf101_uc001ial.2_Silent_p.K761K|C1orf101_uc010pym.1_Silent_p.K610K|C1orf101_uc010pyn.1_Silent_p.K694K	NM_001130957	NP_001124429	Q5SY80	CA101_HUMAN	hypothetical protein LOC257044 isoform 1	761	Extracellular (Potential).					integral to membrane				ovary(1)|breast(1)	2	all_cancers(71;2.99e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)		all cancers(7;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.001)|GBM - Glioblastoma multiforme(7;0.0154)			TCACAGAAAAGTTTCAACCTG	0.333													5	56					0	0	1	0	0		A	244756860	A	A	244756860	2	1	27	1	0	0	0	0	0	0	0	1	1979	1020	36	4		4	C1orf101	1	244756860	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	40943	244756860	4493761	809	23160											
HNRNPU	3192	broad.mit.edu	37	chr1	245017773	245017773	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caataatatccttggtgataAtgctgactccatggcttctg	10	14	8	9	0	1	2	0	2	1	0	3	2	3	2	2	2	1	2	2	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:245017773A>G	uc001iaz.1	-	14	2675	c.2457T>C	c.(2455-2457)CAT>CAC	p.H819H	HNRNPU_uc001iaw.1_RNA|HNRNPU_uc001iax.1_RNA|HNRNPU_uc001iay.1_Silent_p.H543H|HNRNPU_uc001iba.1_Silent_p.H800H	NM_031844	NP_114032	Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U	819	Gly-rich.				CRD-mediated mRNA stabilization	catalytic step 2 spliceosome|cell surface|CRD-mediated mRNA stability complex|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	ATP binding|DNA binding|protein binding|RNA binding				0	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			CTTGGTGATAATGCTGACTCC	0.338													14	68					0	0	1	0	0		G	245017773	G	G	245017773	2	3	27	1	0	0	0	0	0	0	0	1	7289	98	4	3		3	HNRNPU	1	245017773	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	260913	245017773	4232848	810	23161											
HNRNPU	3192	broad.mit.edu	37	chr1	245019225	245019225	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcctctgaaatttccAccacgcatattgaatcctcc	9	12	3	17	1	1	2	0	2	1	0	6	2	6	2	7	0	0	1	7	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:245019225A>G	uc001iaz.1	-	11	2366	c.2148T>C	c.(2146-2148)GGT>GGC	p.G716G	HNRNPU_uc001iaw.1_RNA|HNRNPU_uc001iax.1_RNA|HNRNPU_uc001iay.1_Silent_p.G440G|HNRNPU_uc001iba.1_Silent_p.G697G	NM_031844	NP_114032	Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U	716	RNA-binding RGG-box.|Gly-rich.				CRD-mediated mRNA stabilization	catalytic step 2 spliceosome|cell surface|CRD-mediated mRNA stability complex|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	ATP binding|DNA binding|protein binding|RNA binding				0	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			TGAAATTTCCACCACGCATAT	0.388													8	132					0	0	1	0	0		G	245019225	G	G	245019225	2	3	27	1	0	0	0	0	0	0	0	1	7289	146	6	3		3	HNRNPU	1	245019225	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1452	245019225	4231396	811	23162											
KIF26B	55083	broad.mit.edu	37	chr1	245765975	245765975	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacggaagaagcagatcaccTtgtacgatcccctgacttgt	11	9	9	12	2	1	3	1	1	0	2	2	5	2	4	3	1	2	2	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:245765975T>C	uc001ibf.1	+	6	1887	c.1447T>C	c.(1447-1449)TTG>CTG	p.L483L	KIF26B_uc010pyq.1_Silent_p.L483L|KIF26B_uc001ibg.1_Silent_p.L101L	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	483	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			GCAGATCACCTTGTACGATCC	0.478													7	79					0	0	1	0	0		C	245765975	C	C	245765975	2	2	27	1	0	0	0	0	0	0	0	1	8311	1606	56	3		3	KIF26B	1	245765975	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	746750	245765975	3484646	812	23163											
KIF26B	55083	broad.mit.edu	37	chr1	245770996	245770996	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagaggtgatccagtctgTggtcaacggggcagatggct	8	8	17	8	1	2	3	1	1	1	2	3	3	3	3	1	6	1	3	1	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:245770996T>C	uc001ibf.1	+	7	2041	c.1601T>C	c.(1600-1602)GTG>GCG	p.V534A	KIF26B_uc010pyq.1_Missense_Mutation_p.V534A|KIF26B_uc001ibg.1_Missense_Mutation_p.V152A	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	534	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			ATCCAGTCTGTGGTCAACGGG	0.582													4	30					0	0	1	0	0		C	245770996	C	C	245770996	3	2	27	1	0	0	0	0	1	0	0	0	8311	1696	59	3	1627	3	KIF26B	1	245770996	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5021	245770996	3479625	813	23164											
KIF26B	55083	broad.mit.edu	37	chr1	245849553	245849553	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctccttcccagagatgcAaagtctacacccagaagggg	11	7	10	13	0	2	2	0	0	2	2	4	3	3	2	3	2	2	2	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:245849553A>G	uc001ibf.1	+	12	3708	c.3268A>G	c.(3268-3270)AAA>GAA	p.K1090E	KIF26B_uc001ibg.1_Missense_Mutation_p.K708E|KIF26B_uc001ibh.1_Missense_Mutation_p.K332E	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1090					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CCAGAGATGCAAAGTCTACAC	0.662													13	79					0	0	1	0	0		G	245849553	G	G	245849553	3	3	27	1	0	0	0	0	1	0	0	0	8311	131	5	3	3314	3	KIF26B	1	245849553	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	78557	245849553	3401068	814	23165											
KIF26B	55083	broad.mit.edu	37	chr1	245850411	245850411	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtcaccatctccaacacgGccaatctgagcagctgcgag	10	7	10	14	2	3	1	1	1	2	0	4	2	3	1	3	2	4	2	3	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:245850411G>A	uc001ibf.1	+	12	4566	c.4126G>A	c.(4126-4128)GCC>ACC	p.A1376T	KIF26B_uc001ibg.1_Missense_Mutation_p.A994T|KIF26B_uc001ibh.1_Missense_Mutation_p.A618T	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1376					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CTCCAACACGGCCAATCTGAG	0.542													7	30					0	0	1	0	0		A	245850411	A	A	245850411	3	1	27	1	0	0	0	0	1	0	0	0	8311	1203	42	2	4172	2	KIF26B	1	245850411	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	858	245850411	3400210	815	23166											
SMYD3	64754	broad.mit.edu	37	chr1	246027162	246027162	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaacttccttccatacttgCtcatcaccagttagcatatc	10	14	4	13	0	2	1	2	1	0	0	5	1	4	1	3	0	4	3	3	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:246027162C>T	uc001ibl.2	-	9	935	c.840G>A	c.(838-840)GAG>GAA	p.E280E	SMYD3_uc001ibk.2_Silent_p.E221E|SMYD3_uc001ibi.2_Silent_p.E91E|SMYD3_uc001ibj.2_Silent_p.E91E	NM_022743	NP_073580	Q9H7B4	SMYD3_HUMAN	SET and MYND domain containing 3	280						cytoplasm|nucleus	histone-lysine N-methyltransferase activity|protein binding|zinc ion binding				0	all_cancers(71;0.000291)|all_epithelial(71;0.000174)|Ovarian(71;0.0377)|all_lung(81;0.0568)|Lung NSC(105;0.0804)|Breast(184;0.173)|Melanoma(84;0.242)	all_cancers(173;0.0496)|Acute lymphoblastic leukemia(190;0.164)	OV - Ovarian serous cystadenocarcinoma(106;0.0129)	all cancers(4;0.028)|GBM - Glioblastoma multiforme(49;0.0537)		TCCATACTTGCTCATCACCAG	0.333													13	58					0	0	1	0	0		T	246027162	T	T	246027162	2	4	27	1	0	0	0	0	0	0	0	1	14848	796	28	2		2	SMYD3	1	246027162	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	176751	246027162	3223459	816	23167											
SMYD3	64754	broad.mit.edu	37	chr1	246078843	246078843	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actacataccttgtcctgggTttggcaacggaaacagtcac	11	10	9	11	1	1	0	1	0	0	0	2	1	2	1	2	3	4	2	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:246078843T>C	uc001ibl.2	-	8	897	c.802A>G	c.(802-804)ACC>GCC	p.T268A	SMYD3_uc001ibk.2_Missense_Mutation_p.T209A|SMYD3_uc001ibi.2_Missense_Mutation_p.T79A|SMYD3_uc001ibj.2_Missense_Mutation_p.T79A	NM_022743	NP_073580	Q9H7B4	SMYD3_HUMAN	SET and MYND domain containing 3	268						cytoplasm|nucleus	histone-lysine N-methyltransferase activity|protein binding|zinc ion binding				0	all_cancers(71;0.000291)|all_epithelial(71;0.000174)|Ovarian(71;0.0377)|all_lung(81;0.0568)|Lung NSC(105;0.0804)|Breast(184;0.173)|Melanoma(84;0.242)	all_cancers(173;0.0496)|Acute lymphoblastic leukemia(190;0.164)	OV - Ovarian serous cystadenocarcinoma(106;0.0129)	all cancers(4;0.028)|GBM - Glioblastoma multiforme(49;0.0537)		TTGTCCTGGGTTTGGCAACGG	0.478													7	81					0	0	1	0	0		C	246078843	C	C	246078843	3	2	27	1	0	0	0	0	1	0	0	0	14848	1725	60	3	504	3	SMYD3	1	246078843	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	51681	246078843	3171778	817	23168											
CNST	163882	broad.mit.edu	37	chr1	246795222	246795222	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatcctatttccaggaggaGgactgtatccttttcttaat	10	15	8	8	0	1	0	0	0	1	0	4	4	4	3	3	3	0	1	3	3	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:246795222G>T	uc001ibp.2	+	4	990	c.612G>T	c.(610-612)GAG>GAT	p.E204D	CNST_uc001ibo.3_Missense_Mutation_p.E204D	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	204					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						TCCAGGAGGAGGACTGTATCC	0.234													9	101					9.70103e-10	1.07188e-09	1	1	0		T	246795222	T	T	246795222	3	4	27	1	0	0	0	0	1	0	0	0	3637	991	35	5	622	5	CNST	1	246795222	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	716379	246795222	2455399	818	23169											
AHCTF1	25909	broad.mit.edu	37	chr1	247014121	247014121	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaaaccacgtcatcaacctgGctgacattcatagtcattgt	12	11	7	11	1	4	1	4	1	0	0	4	2	4	1	2	1	2	1	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:247014121G>A	uc001ibu.1	-	32	5194	c.5187C>T	c.(5185-5187)AGC>AGT	p.S1729S	AHCTF1_uc001ibv.1_Silent_p.S1738S|AHCTF1_uc009xgs.1_Silent_p.S590S|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	1729	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			CATCAACCTGGCTGACATTCA	0.423													5	69					0	0	1	0	0		A	247014121	A	A	247014121	2	1	27	1	0	0	0	0	0	0	0	1	408	1194	42	2		2	AHCTF1	1	247014121	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	218899	247014121	2236500	819	23170											
AHCTF1	25909	broad.mit.edu	37	chr1	247071023	247071023	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attacactttctctaatgtgTggtacttcagctgggatacc	9	15	8	9	0	2	0	1	0	1	0	3	1	2	1	1	2	4	2	1	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:247071023T>C	uc001ibu.1	-	4	601	c.594A>G	c.(592-594)CCA>CCG	p.P198P	AHCTF1_uc001ibv.1_Silent_p.P207P	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	198	Necessary for cytoplasmic localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			CTCTAATGTGTGGTACTTCAG	0.368													7	84					0	0	1	0	0		C	247071023	C	C	247071023	2	2	27	1	0	0	0	0	0	0	0	1	408	1683	59	3		3	AHCTF1	1	247071023	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	56902	247071023	2179598	820	23171											
ZNF695	57116	broad.mit.edu	37	chr1	247151044	247151044	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcagtatgatttttctcaAcaacagcaagacttgagcaa	14	13	6	8	0	2	3	2	2	1	1	3	3	2	3	0	0	4	3	0	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:247151044A>G	uc009xgu.2	-	4	918	c.773T>C	c.(772-774)GTT>GCT	p.V258A	ZNF695_uc001ica.2_Intron|ZNF695_uc001icb.1_Intron|ZNF695_uc009xgt.1_Intron|ZNF695_uc001ibx.2_Intron|ZNF695_uc001iby.2_Intron	NM_020394	NP_065127	Q8IW36	ZN695_HUMAN	zinc finger protein SBZF3	258	C2H2-type 4; degenerate.				regulation of transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			ATTTTTCTCAACAACAGCAAG	0.328													4	47					0	0	1	0	0		G	247151044	G	G	247151044	3	3	27	1	0	0	0	0	1	0	0	0	18123	43	2	3	778	3	ZNF695	1	247151044	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	80021	247151044	2099577	821	23172											
ZNF695	57116	broad.mit.edu	37	chr1	247151183	247151183	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccacattttttacattggtAcgggttctctccaatatgga	9	15	8	9	1	1	0	0	0	1	0	3	1	2	1	2	3	2	2	2	3	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:247151183A>G	uc009xgu.2	-	4	779	c.634T>C	c.(634-636)TAC>CAC	p.Y212H	ZNF695_uc001ica.2_Intron|ZNF695_uc001icb.1_Intron|ZNF695_uc009xgt.1_Intron|ZNF695_uc001ibx.2_Intron|ZNF695_uc001iby.2_Intron	NM_020394	NP_065127	Q8IW36	ZN695_HUMAN	zinc finger protein SBZF3	212	C2H2-type 3; atypical.				regulation of transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			TTACATTGGTACGGGTTCTCT	0.373													6	104					0	0	1	0	0		G	247151183	G	G	247151183	3	3	27	1	0	0	0	0	1	0	0	0	18123	391	14	3	917	3	ZNF695	1	247151183	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	139	247151183	2099438	822	23173											
ZNF669	79862	broad.mit.edu	37	chr1	247264102	247264102	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagtgtgagtcctttcatgCgtcttaaaagaacaagaaaa	15	10	8	8	1	2	3	1	1	1	2	3	3	3	3	2	0	2	0	2	0	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:247264102C>T	uc001ice.2	-	4	1142	c.969G>A	c.(967-969)ACG>ACA	p.T323T	ZNF669_uc001icf.2_Silent_p.T237T	NM_024804	NP_079080	Q96BR6	ZN669_HUMAN	zinc finger protein 669 isoform 1	323	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;4.09e-05)|all_epithelial(71;6.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0283)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00427)			TCCTTTCATGCGTCTTAAAAG	0.408													5	87					0	0	1	0	0		T	247264102	T	T	247264102	2	4	27	1	0	0	0	0	0	0	0	1	18101	755	27	1		1	ZNF669	1	247264102	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	112919	247264102	1986519	823	23174											
OR6F1	343169	broad.mit.edu	37	chr1	247875672	247875672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatggctccgtagtgtaaaGgatagcagatggcaagacag	13	8	14	6	1	0	3	0	1	0	2	1	4	1	4	1	3	1	5	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:247875672G>A	uc001idj.1	-	1	386	c.386C>T	c.(385-387)CCT>CTT	p.P129L		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	129	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			GTAGTGTAAAGGATAGCAGAT	0.547													9	74					0	0	1	0	0		A	247875672	A	A	247875672	3	1	27	1	0	0	0	0	1	0	0	0	11220	1000	35	4	544	4	OR6F1	1	247875672	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	611570	247875672	1374949	824	23175											
OR14A16	284532	broad.mit.edu	37	chr1	247978673	247978673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgacatatagcagtatagCggtcaaaggacatcaccgtg	13	8	12	8	2	2	1	2	1	0	0	2	2	2	2	1	3	2	2	1	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:247978673C>T	uc001idm.1	-	1	359	c.359G>A	c.(358-360)CGC>CAC	p.R120H		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	120	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGCAGTATAGCGGTCAAAGGA	0.488													17	72					0	0	1	0	0		T	247978673	T	T	247978673	3	4	27	1	0	0	0	0	1	0	0	0	10964	768	27	1	574	1	OR14A16	1	247978673	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	103001	247978673	1271948	825	23176											
OR11L1	391189	broad.mit.edu	37	chr1	248004583	248004583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaaacaaatgcacagcaCggcaattgacaggatgaaga	21	4	9	7	1	0	3	0	2	0	1	0	4	0	4	0	2	3	3	0	2	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:248004583C>T	uc001idn.1	-	1	616	c.616G>A	c.(616-618)GTG>ATG	p.V206M		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	206	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			ATGCACAGCACGGCAATTGAC	0.478													9	64					0	0	1	0	0		T	248004583	T	T	248004583	3	4	27	1	0	0	0	0	1	0	0	0	10949	536	19	1	356	1	OR11L1	1	248004583	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25910	248004583	1246038	826	23177											
TRIM58	25893	broad.mit.edu	37	chr1	248039603	248039603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagccggtgaaatttcattcTacaatgtcacagatggatct	13	12	8	8	1	4	2	2	1	2	1	4	3	4	3	1	2	2	0	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:248039603T>C	uc001ido.2	+	6	1321	c.1273T>C	c.(1273-1275)TAC>CAC	p.Y425H	OR2W3_uc001idp.1_Intron	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	425	B30.2/SPRY.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			AATTTCATTCTACAATGTCAC	0.438													4	183					0	0	1	0	0		C	248039603	C	C	248039603	3	2	27	1	0	0	0	0	1	0	0	0	16557	1522	53	3	1295	3	TRIM58	1	248039603	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	35020	248039603	1211018	827	23178											
OR2L8	391190	broad.mit.edu	37	chr1	248112949	248112949	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatctacgtccaagatccCtgcgatctccaacagaggac	11	9	7	14	2	2	2	0	0	2	2	5	4	4	3	3	1	3	0	3	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:248112949C>A	uc001idt.1	+	1	790	c.790C>A	c.(790-792)CTG>ATG	p.L264M	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TCCAAGATCCCTGCGATCTCC	0.483													7	119					0.0477658	0.0483837	1	1	0		A	248112949	A	A	248112949	3	1	27	1	0	0	0	0	1	0	0	0	11028	680	24	5	792	5	OR2L8	1	248112949	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	73346	248112949	1137672	828	23179											
OR2L3	391192	broad.mit.edu	37	chr1	248224182	248224182	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctacttagtcagctctccCtcattgacctaaattacatc	10	14	3	14	0	3	1	2	1	1	0	6	1	4	1	3	0	3	1	3	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:248224182C>A	uc001idx.1	+	1	199	c.199C>A	c.(199-201)CTC>ATC	p.L67I	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TCAGCTCTCCCTCATTGACCT	0.428													35	324					6.03168e-27	6.76228e-27	1	1	0		A	248224182	A	A	248224182	3	1	27	1	0	0	0	0	1	0	0	0	11027	681	24	5	201	5	OR2L3	1	248224182	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	111233	248224182	1026439	829	23180											
OR2M2	391194	broad.mit.edu	37	chr1	248344042	248344042	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggtggtgggaatgtactAtggagcagctttgttcatgt	8	14	14	5	0	1	0	1	0	0	0	1	2	1	2	0	4	3	4	0	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:248344042A>G	uc010pzf.1	+	1	755	c.755A>G	c.(754-756)TAT>TGT	p.Y252C		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	252	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GGAATGTACTATGGAGCAGCT	0.507													4	223					0	0	1	0	0		G	248344042	G	G	248344042	3	3	27	1	0	0	0	0	1	0	0	0	11029	449	16	3	757	3	OR2M2	1	248344042	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	119860	248344042	906579	830	23181											
OR2T6	254879	broad.mit.edu	37	chr1	248551708	248551708	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttccccaatcttaccacAccccaatcaaagataaggtc	13	8	4	16	1	2	1	1	0	1	1	4	1	3	1	5	1	1	1	5	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:248551708A>G	uc001iei.1	+	1	799	c.799A>G	c.(799-801)ACC>GCC	p.T267A		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATCTTACCACACCCCAATCAA	0.478													10	79					0	0	1	0	0		G	248551708	G	G	248551708	3	3	27	1	0	0	0	0	1	0	0	0	11048	159	6	3	801	3	OR2T6	1	248551708	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	207666	248551708	698913	831	23182											
OR2T2	401992	broad.mit.edu	37	chr1	248616313	248616313	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccagctctccatcatggataCcatctacatctgtatcactg	10	12	5	14	0	5	0	2	0	3	0	6	1	5	1	3	1	3	2	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:248616313C>A	uc001iek.1	+	1	215	c.215C>A	c.(214-216)ACC>AAC	p.T72N		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	72	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATCATGGATACCATCTACATC	0.512													13	168					6.36457e-07	6.92577e-07	1	1	0		A	248616313	A	A	248616313	3	1	27	1	0	0	0	0	1	0	0	0	11039	507	18	5	217	5	OR2T2	1	248616313	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	64605	248616313	634308	832	23183											
OR2G6	391211	broad.mit.edu	37	chr1	248685734	248685734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tattcatgtaccttcaaccgGccaataggagatccaaaaac	15	9	6	11	1	2	1	2	0	0	1	3	2	3	1	4	2	3	1	4	2	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:248685734G>A	uc001ien.1	+	1	787	c.787G>A	c.(787-789)GCC>ACC	p.A263T		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	263	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCTTCAACCGGCCAATAGGAG	0.448													18	81					0	0	1	0	0		A	248685734	A	A	248685734	3	1	27	1	0	0	0	0	1	0	0	0	11019	1203	42	2	789	2	OR2G6	1	248685734	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	69421	248685734	564887	833	23184											
OR14I1	401994	broad.mit.edu	37	chr1	248844710	248844710	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcacaaagagtctccacAtggctgttttaatctcctta	10	15	5	11	0	4	1	1	0	3	1	6	1	4	1	2	1	0	2	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr1:248844710A>G	uc001ieu.1	-	1	896	c.896T>C	c.(895-897)ATG>ACG	p.M299T		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GAGTCTCCACATGGCTGTTTT	0.363													7	60					0	0	1	0	0		G	248844710	G	G	248844710	3	3	27	1	0	0	0	0	1	0	0	0	10966	217	8	3	43	3	OR14I1	1	248844710	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	158976	248844710	405911	834	23185											
SNTG2	54221	broad.mit.edu	37	chr2	1079240	1079240	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgttgtatgatgaagagTccgaaaatgcctatgacatc	12	12	9	8	1	1	4	0	3	1	1	3	5	2	4	2	0	1	2	2	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:1079240T>A	uc002qwq.2	+	2	237	c.109T>A	c.(109-111)TCC>ACC	p.S37T	SNTG2_uc002qwp.2_RNA|SNTG2_uc010ewi.2_Missense_Mutation_p.S37T	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	37					central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		TGATGAAGAGTCCGAAAATGC	0.498													8	81					0	0	1	0	0		A	1079240	A	A	1079240	3	1	27	1	0	0	0	0	1	0	0	0	14900	1667	58	5	115	5	SNTG2	2	1079240	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08		1079240	242120133	835	23186											
TPO	7173	broad.mit.edu	37	chr2	1437321	1437321	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagataatggaaacatcAatacaagcgatgaaaagaaa	22	5	9	5	1	1	3	1	1	0	2	1	6	1	4	0	1	3	1	0	1	8	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:1437321A>G	uc002qww.2	+	4	382	c.291A>G	c.(289-291)TCA>TCG	p.S97S	TPO_uc010ewj.2_Intron|TPO_uc010yin.1_Silent_p.S97S|TPO_uc002qwu.2_Silent_p.S97S|TPO_uc002qwr.2_Silent_p.S97S|TPO_uc002qwx.2_Silent_p.S97S|TPO_uc010yio.1_Silent_p.S97S|TPO_uc010yip.1_Silent_p.S97S	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	97	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	TGGAAACATCAATACAAGCGA	0.483													15	47					0	0	1	0	0		G	1437321	G	G	1437321	2	3	27	1	0	0	0	0	0	0	0	1	16436	117	5	3		3	TPO	2	1437321	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	358081	1437321	241762052	836	23187											
TTC15	51112	broad.mit.edu	37	chr2	3392316	3392316	+	Missense_Mutation	SNP	G	A	A																															gcgagatggaccggaggaacGacgcctggcttcccggcgag																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:3392316G>A	uc002qxm.1	+	2	1128	c.922G>A	c.(922-924)GAC>AAC	p.D308N	TTC15_uc002qxn.1_Missense_Mutation_p.D308N|TTC15_uc010ewm.1_Missense_Mutation_p.D308N|TTC15_uc002qxl.1_Missense_Mutation_p.D308N	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15	308							binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		CCGGAGGAACGACGCCTGGCT	0.677													6	28					0	0	1	0	0		A	3392316	A	A	3392316	3	1	27	1	0	0	0	0	1	0	0	0	16708	1058	37	1	924	1	TTC15	2	3392316	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1954995	3392316	239807057	837	23188	39	2									
TTC15	51112	broad.mit.edu	37	chr2	3392319	3392319	+	Missense_Mutation	SNP	G	A	A																															agatggaccggaggaacgacGcctggcttcccggcgaggct																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:3392319G>A	uc002qxm.1	+	2	1131	c.925G>A	c.(925-927)GCC>ACC	p.A309T	TTC15_uc002qxn.1_Missense_Mutation_p.A309T|TTC15_uc010ewm.1_Missense_Mutation_p.A309T|TTC15_uc002qxl.1_Missense_Mutation_p.A309T	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15	309							binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		GAGGAACGACGCCTGGCTTCC	0.677													6	28					0	0	1	0	0		A	3392319	A	A	3392319	3	1	27	1	0	0	0	0	1	0	0	0	16708	1087	38	1	927	1	TTC15	2	3392319	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3	3392319	239807054	838	23189	39	2									
RPS7	6201	broad.mit.edu	37	chr2	3627805	3627805	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagatggcagccggctcatAaaggttcatttggacaaagc	12	9	11	9	1	2	1	2	0	0	1	2	2	2	2	1	4	2	3	1	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:3627805A>T	uc002qxw.2	+	6	568	c.462A>T	c.(460-462)ATA>ATT	p.I154I	RPS7_uc002qxy.2_RNA	NM_001011	NP_001002	P62081	RS7_HUMAN	ribosomal protein S7	154					endocrine pancreas development|ribosomal small subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	90S preribosome|cytosolic small ribosomal subunit|nucleolus|small-subunit processome	protein binding|RNA binding|structural constituent of ribosome				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.0963)|Epithelial(75;0.208)		GCCGGCTCATAAAGGTTCATT	0.468													10	75					0	0	1	0	0		T	3627805	T	T	3627805	2	4	27	1	0	0	0	0	0	0	0	1	13685	352	13	5		5	RPS7	2	3627805	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	235486	3627805	239571568	839	23190											
ALLC	55821	broad.mit.edu	37	chr2	3743888	3743888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttggcggggcaaagtctatgGcggatggttgggaaactgca	9	9	17	6	2	1	0	0	0	1	0	1	2	1	2	0	7	2	3	0	7	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:3743888G>A	uc010ewt.2	+	9	852	c.691G>A	c.(691-693)GCG>ACG	p.A231T	ALLC_uc002qyf.2_Missense_Mutation_p.A2T	NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	250							allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)		AAAGTCTATGGCGGATGGTTG	0.348										HNSCC(21;0.051)			4	40					0	0	1	0	0		A	3743888	A	A	3743888	3	1	27	1	0	0	0	0	1	0	0	0	534	1203	42	2	721	2	ALLC	2	3743888	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	116083	3743888	239455485	840	23191											
ALLC	55821	broad.mit.edu	37	chr2	3744991	3744991	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaatgggcagttttccgAttggcacatcctggagtaat	9	13	12	7	1	0	1	0	1	0	0	2	3	2	2	2	3	0	4	2	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:3744991A>T	uc010ewt.2	+	10	956	c.795A>T	c.(793-795)CGA>CGT	p.R265R	ALLC_uc002qyf.2_Silent_p.R36R	NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	284							allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)		CAGTTTTCCGATTGGCACATC	0.373										HNSCC(21;0.051)			9	128					0	0	1	0	0		T	3744991	T	T	3744991	2	4	27	1	0	0	0	0	0	0	0	1	534	320	12	5		5	ALLC	2	3744991	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1103	3744991	239454382	841	23192											
SOX11	6664	broad.mit.edu	37	chr2	5833108	5833108	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctccaagaggctgggcaaGcgctggaaaatgctgaagga	13	6	14	8	1	1	2	0	1	1	1	2	4	1	4	1	4	2	4	1	4	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:5833108G>A	uc002qyj.2	+	1	310	c.255G>A	c.(253-255)AAG>AAA	p.K85K		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	85	HMG box.				cardiac ventricle formation|closure of optic fissure|cornea development in camera-type eye|embryonic digestive tract morphogenesis|embryonic skeletal system morphogenesis|eyelid development in camera-type eye|glial cell proliferation|hard palate development|lens morphogenesis in camera-type eye|limb bud formation|lung morphogenesis|negative regulation of cell death|negative regulation of glial cell proliferation|negative regulation of lymphocyte proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|neural crest cell development|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|outflow tract morphogenesis|positive regulation of BMP signaling pathway|positive regulation of hippo signaling cascade|positive regulation of hormone secretion|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of ossification|positive regulation of osteoblast differentiation|positive regulation of stem cell proliferation|regulation of transforming growth factor beta receptor signaling pathway|signal transduction involved in G1/S transition checkpoint|soft palate development|somite development|spinal cord development|sympathetic nervous system development|ventricular septum morphogenesis	cytoplasm|nucleolus	enhancer sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			OV - Ovarian serous cystadenocarcinoma(76;0.132)		GGCTGGGCAAGCGCTGGAAAA	0.582													16	38					0	0	1	0	0		A	5833108	A	A	5833108	2	1	27	1	0	0	0	0	0	0	0	1	14967	962	34	2		2	SOX11	2	5833108	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2088117	5833108	237366265	842	23193											
RNF144A	9781	broad.mit.edu	37	chr2	7137188	7137188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccaatgcatcttctgtaCtctggttggtctttttggat	5	18	10	8	0	4	0	0	0	4	0	4	1	4	1	1	3	3	3	1	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:7137188C>T	uc002qys.2	+	3	573	c.131C>T	c.(130-132)ACT>ATT	p.T44I	RNF144A_uc002qyt.2_Intron	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	44	RING-type 1; atypical.					Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		ATCTTCTGTACTCTGGTTGGT	0.463													15	47					0	0	1	0	0		T	7137188	T	T	7137188	3	4	27	1	0	0	0	0	1	0	0	0	13470	565	20	4	133	4	RNF144A	2	7137188	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1304080	7137188	236062185	843	23194											
KIDINS220	57498	broad.mit.edu	37	chr2	8871208	8871208	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatcaagctgcattcggaaGggcttttcttgtcttctgaa	8	15	9	9	1	4	1	1	1	3	0	5	2	4	2	0	2	2	3	0	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:8871208G>T	uc002qzc.2	-	30	5140	c.4958C>A	c.(4957-4959)CCT>CAT	p.P1653H	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Missense_Mutation_p.P1554H|KIDINS220_uc002qzb.2_Missense_Mutation_p.P507H	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1653	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GCATTCGGAAGGGCTTTTCTT	0.522													8	78					0.0381472	0.0386818	1	1	0		T	8871208	T	T	8871208	3	4	27	1	0	0	0	0	1	0	0	0	8287	1000	35	5	361	5	KIDINS220	2	8871208	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1734020	8871208	234328165	844	23195											
KIDINS220	57498	broad.mit.edu	37	chr2	8919145	8919145	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactatgttgcgcatgtagTcatggccatttatatttgaa	10	15	10	6	1	1	1	1	1	0	0	1	2	1	2	1	2	1	3	1	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:8919145T>A	uc002qzc.2	-	19	2677	c.2495A>T	c.(2494-2496)GAC>GTC	p.D832V	KIDINS220_uc010yiv.1_Missense_Mutation_p.D598V|KIDINS220_uc002qzd.2_Missense_Mutation_p.D790V|KIDINS220_uc010yiw.1_Missense_Mutation_p.D833V	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	832	KAP NTPase.|Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GCGCATGTAGTCATGGCCATT	0.398													14	182					0	0	1	0	0		A	8919145	A	A	8919145	3	1	27	1	0	0	0	0	1	0	0	0	8287	1667	58	5	2868	5	KIDINS220	2	8919145	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47937	8919145	234280228	845	23196											
KIDINS220	57498	broad.mit.edu	37	chr2	8934031	8934031	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgggcctataaagtaaTcgcccatctttgggatttct	8	16	9	8	1	2	0	0	0	2	0	3	1	2	1	2	2	0	2	2	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:8934031T>A	uc002qzc.2	-	12	1367	c.1185A>T	c.(1183-1185)CGA>CGT	p.R395R	KIDINS220_uc010yiv.1_Silent_p.R161R|KIDINS220_uc002qzd.2_Silent_p.R353R|KIDINS220_uc010yiw.1_Silent_p.R396R	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	395	Cytoplasmic (Potential).|ANK 12.				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TATAAAGTAATCGCCCATCTT	0.393													11	62					0	0	1	0	0		A	8934031	A	A	8934031	2	1	27	1	0	0	0	0	0	0	0	1	8287	1422	50	5		5	KIDINS220	2	8934031	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	14886	8934031	234265342	846	23197											
ASAP2	8853	broad.mit.edu	37	chr2	9531284	9531284	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttcgtcagatccgccagCtgtccatccaccgctgcccc	6	9	7	19	3	2	1	1	0	1	1	6	1	5	1	7	0	2	2	7	0	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:9531284C>A	uc002qzh.2	+	23	2817	c.2477C>A	c.(2476-2478)GCT>GAT	p.A826D	ASAP2_uc002qzi.2_Intron	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	826	Pro-rich.				regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						GATCCGCCAGCTGTCCATCCA	0.542													15	136					3.35478e-16	3.75012e-16	1	1	0		A	9531284	A	A	9531284	3	1	27	1	0	0	0	0	1	0	0	0	1012	797	28	5	2567	5	ASAP2	2	9531284	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	597253	9531284	233668089	847	23198											
GRHL1	29841	broad.mit.edu	37	chr2	10095208	10095208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agacagcgccgctgcgctggGcctgctctatgactactaca	8	8	11	14	3	1	2	0	1	1	1	1	2	1	2	2	1	5	3	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:10095208G>A	uc002raa.2	+	2	356	c.185G>A	c.(184-186)GGC>GAC	p.G62D	GRHL1_uc002rab.2_RNA|GRHL1_uc002rad.2_5'UTR|GRHL1_uc010yjb.1_5'UTR|uc002rac.2_RNA	NM_198182	NP_937825	Q9NZI5	GRHL1_HUMAN	grainyhead-like 1	62	Transcription activation.				cellular lipid metabolic process|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding			pancreas(1)|skin(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.246)		GCTGCGCTGGGCCTGCTCTAT	0.507													4	22					0	0	1	0	0		A	10095208	A	A	10095208	3	1	27	1	0	0	0	0	1	0	0	0	6779	1203	42	2	191	2	GRHL1	2	10095208	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	563924	10095208	233104165	848	23199											
GRHL1	29841	broad.mit.edu	37	chr2	10130832	10130832	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaacctacagggagctgaGcggaaaatcagggatgaaga	15	6	13	7	1	1	3	1	2	0	1	1	6	1	6	1	3	4	1	1	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:10130832G>A	uc002raa.2	+	10	1449	c.1278G>A	c.(1276-1278)GAG>GAA	p.E426E	GRHL1_uc002rab.2_RNA|GRHL1_uc002rad.2_Silent_p.E237E|GRHL1_uc010yjb.1_Silent_p.E275E	NM_198182	NP_937825	Q9NZI5	GRHL1_HUMAN	grainyhead-like 1	426					cellular lipid metabolic process|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding			pancreas(1)|skin(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.246)		AGGGAGCTGAGCGGAAAATCA	0.423													5	17					0	0	1	0	0		A	10130832	A	A	10130832	2	1	27	1	0	0	0	0	0	0	0	1	6779	962	34	2		2	GRHL1	2	10130832	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	35624	10130832	233068541	849	23200											
HPCAL1	3241	broad.mit.edu	37	chr2	10559932	10559932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgaggtgctgcaggacctgCgggagaacacggagttcacc	9	5	15	12	3	1	1	1	0	0	1	1	5	1	3	3	4	4	3	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:10559932C>T	uc002raj.2	+	3	423	c.49C>T	c.(49-51)CGG>TGG	p.R17W	HPCAL1_uc002rak.2_Missense_Mutation_p.R17W|HPCAL1_uc002ral.2_Missense_Mutation_p.R17W|HPCAL1_uc010exe.2_RNA|HPCAL1_uc010exf.2_Missense_Mutation_p.R17W	NM_002149	NP_002140	P37235	HPCL1_HUMAN	hippocalcin-like 1	17							calcium ion binding			pancreas(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.214)		GCAGGACCTGCGGGAGAACAC	0.652													9	34					0	0	1	0	0		T	10559932	T	T	10559932	3	4	27	1	0	0	0	0	1	0	0	0	7346	759	27	1	51	1	HPCAL1	2	10559932	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	429100	10559932	232639441	850	23201											
NOL10	79954	broad.mit.edu	37	chr2	10729375	10729375	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatctgaactctccgaactTtctgcatcacttggttttcc	7	16	5	13	1	5	1	2	1	3	0	7	2	6	1	2	1	3	2	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:10729375T>C	uc002raq.2	-	19	1763	c.1638A>G	c.(1636-1638)GAA>GAG	p.E546E	NOL10_uc010yje.1_Silent_p.E520E|NOL10_uc010yjf.1_Silent_p.E496E|NOL10_uc002rap.2_Silent_p.E496E	NM_024894	NP_079170	Q9BSC4	NOL10_HUMAN	nucleolar protein 10	546	Potential.					nucleolus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.207)		TCTCCGAACTTTCTGCATCAC	0.498													8	76					0	0	1	0	0		C	10729375	C	C	10729375	2	2	27	1	0	0	0	0	0	0	0	1	10539	1838	64	3		3	NOL10	2	10729375	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	169443	10729375	232469998	851	23202											
GREB1	9687	broad.mit.edu	37	chr2	11765302	11765302	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcagagaagaatctgactgGcattatctccagcttagcga	12	10	9	10	1	3	3	1	1	2	2	4	5	3	3	1	1	2	2	1	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:11765302G>A	uc002rbk.1	+	24	4470	c.4170G>A	c.(4168-4170)TGG>TGA	p.W1390*	GREB1_uc002rbp.1_Nonsense_Mutation_p.W388*	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1390						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		AATCTGACTGGCATTATCTCC	0.393													17	190					0	0	1	0	0		A	11765302	A	A	11765302	4	1	27	1	0	0	0	0	0	1	0	0	6776	1212	42	2	4368	2	GREB1	2	11765302	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1035927	11765302	231434071	852	23203											
LPIN1	23175	broad.mit.edu	37	chr2	11911703	11911703	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagaaagtcacagctggAcagcctgaagagagatgaca	16	4	14	7	0	1	5	1	2	0	3	1	9	1	6	1	2	2	1	1	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:11911703A>G	uc010yjn.1	+	5	768	c.494A>G	c.(493-495)GAC>GGC	p.D165G	LPIN1_uc010yjm.1_Missense_Mutation_p.D214G|LPIN1_uc002rbt.2_Missense_Mutation_p.D165G|LPIN1_uc002rbs.2_Missense_Mutation_p.D165G	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	165					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		TCACAGCTGGACAGCCTGAAG	0.547													3	21					0	0	1	0	0		G	11911703	G	G	11911703	3	3	27	1	0	0	0	0	1	0	0	0	8936	275	10	3	504	3	LPIN1	2	11911703	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	146401	11911703	231287670	853	23204											
TRIB2	28951	broad.mit.edu	37	chr2	12863637	12863637	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gacggggggctggtgctgcgGgacctcaagctgcggaaatt	7	7	18	9	3	1	0	1	0	0	0	1	3	1	2	1	6	4	3	1	6	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:12863637G>A	uc002rbv.3	+	2	1958	c.522G>A	c.(520-522)CGG>CGA	p.R174R	TRIB2_uc010yjp.1_Silent_p.R38R	NM_021643	NP_067675	Q92519	TRIB2_HUMAN	tribbles homolog 2	174	Protein kinase.				negative regulation of fat cell differentiation|negative regulation of interleukin-10 biosynthetic process|negative regulation of protein kinase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|regulation of MAP kinase activity	cytoplasm|cytoskeleton|nucleus	ATP binding|protein kinase activity|protein kinase inhibitor activity|transcription factor binding|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			stomach(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TGGTGCTGCGGGACCTCAAGC	0.572													8	78					0	0	1	0	0		A	12863637	A	A	12863637	2	1	27	1	0	0	0	0	0	0	0	1	16509	1219	43	4		4	TRIB2	2	12863637	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	951934	12863637	230335736	854	23205											
DDX1	1653	broad.mit.edu	37	chr2	15769774	15769774	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaagggtgttataacacaAgactcaaggaagatggaggc	17	6	13	5	0	1	2	1	0	0	2	1	5	1	4	0	4	1	1	0	4	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:15769774A>G	uc002rce.2	+	24	2212	c.1924A>G	c.(1924-1926)AGA>GGA	p.R642G		NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	642	Helicase C-terminal.|Necessary for interaction with HNRNPK.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		TTATAACACAAGACTCAAGGA	0.368													4	61					0	0	1	0	0		G	15769774	G	G	15769774	3	3	27	1	0	0	0	0	1	0	0	0	4344	64	3	3	2018	3	DDX1	2	15769774	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2906137	15769774	227429599	855	23206											
RAD51AP2	729475	broad.mit.edu	37	chr2	17697217	17697217	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttttttcttctatttcActtagcaagttccaaaaatt	11	21	2	7	0	3	0	1	0	2	0	4	0	4	0	1	0	1	2	1	0	6	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:17697217A>G	uc002rcl.1	-	1	2490	c.2466T>C	c.(2464-2466)AGT>AGC	p.S822S	RAD51AP2_uc010exn.1_Silent_p.S813S	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	822										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CTTCTATTTCACTTAGCAAGT	0.328													7	76					0	0	1	0	0		G	17697217	G	G	17697217	2	3	27	1	0	0	0	0	0	0	0	1	13012	156	6	3		3	RAD51AP2	2	17697217	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1927443	17697217	225502156	856	23207											
SMC6	79677	broad.mit.edu	37	chr2	17898096	17898096	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaattttcttgattttgaaAggcctttactctctctttta	8	21	5	7	0	3	3	0	3	3	0	4	3	3	3	1	1	1	0	1	1	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:17898096A>G	uc002rco.2	-	14	1554	c.1258T>C	c.(1258-1260)TTT>CTT	p.F420L	SMC6_uc010exo.2_Missense_Mutation_p.F420L|SMC6_uc002rcn.2_Missense_Mutation_p.F420L|SMC6_uc002rcp.1_Missense_Mutation_p.F446L|SMC6_uc002rcq.2_Missense_Mutation_p.F446L|SMC6_uc002rcr.1_Missense_Mutation_p.F420L	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	420	Potential.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TGATTTTGAAAGGCCTTTACT	0.348													8	90					0	0	1	0	0		G	17898096	G	G	17898096	3	3	27	1	0	0	0	0	1	0	0	0	14812	72	3	3	2077	3	SMC6	2	17898096	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	200879	17898096	225301277	857	23208											
GEN1	348654	broad.mit.edu	37	chr2	17962934	17962934	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagctaagtacacaactcaaAgaatgaagcacagttctcaa	19	7	6	9	0	2	2	2	1	1	1	3	2	2	2	0	0	4	4	0	0	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:17962934A>G	uc002rct.2	+	14	2528	c.2455A>G	c.(2455-2457)AGA>GGA	p.R819G	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Missense_Mutation_p.R819G|GEN1_uc002rcu.2_Missense_Mutation_p.R819G	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease	819					DNA repair	nucleus	DNA binding|endonuclease activity|metal ion binding			breast(5)|kidney(1)|central_nervous_system(1)|skin(1)	8	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CACAACTCAAAGAATGAAGCA	0.378								Homologous_recombination					14	45					0	0	1	0	0		G	17962934	G	G	17962934	3	3	27	1	0	0	0	0	1	0	0	0	6350	64	3	3	2505	3	GEN1	2	17962934	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	64838	17962934	225236439	858	23209											
GEN1	348654	broad.mit.edu	37	chr2	17962986	17962986	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcccatttcaaagaaagtgGccataacaagttgagtagcc	15	9	8	9	0	1	2	1	1	0	1	2	2	2	2	3	1	2	2	3	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:17962986G>T	uc002rct.2	+	14	2580	c.2507G>T	c.(2506-2508)GGC>GTC	p.G836V	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Missense_Mutation_p.G836V|GEN1_uc002rcu.2_Missense_Mutation_p.G836V	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease	836					DNA repair	nucleus	DNA binding|endonuclease activity|metal ion binding			breast(5)|kidney(1)|central_nervous_system(1)|skin(1)	8	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					AAAGAAAGTGGCCATAACAAG	0.378								Homologous_recombination					4	32					0.184627	0.185716	1	1	0		T	17962986	T	T	17962986	3	4	27	1	0	0	0	0	1	0	0	0	6350	1203	42	5	2557	5	GEN1	2	17962986	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	52	17962986	225236387	859	23210											
KCNS3	3790	broad.mit.edu	37	chr2	18112978	18112978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcattgcctggttcaccGgggagcttgccgtccggctg	3	10	15	13	4	1	0	1	0	0	0	2	1	2	1	4	4	4	4	4	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:18112978G>A	uc002rcv.2	+	3	1154	c.703G>A	c.(703-705)GGG>AGG	p.G235R	KCNS3_uc002rcw.2_Missense_Mutation_p.G235R	NM_002252	NP_002243	Q9BQ31	KCNS3_HUMAN	potassium voltage-gated channel	235	Helical; Name=Segment S2; (Potential).				energy reserve metabolic process|regulation of insulin secretion	Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CTGGTTCACCGGGGAGCTTGC	0.517													29	84					0	0	1	0	0		A	18112978	A	A	18112978	3	1	27	1	0	0	0	0	1	0	0	0	8106	1116	39	1	705	1	KCNS3	2	18112978	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	149992	18112978	225086395	860	23211											
SDC1	6382	broad.mit.edu	37	chr2	20403763	20403763	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgggaggtggcgggctcCtgggccgtggtggctgtggt	1	9	24	7	2	0	0	0	0	0	0	1	1	1	1	2	9	0	2	2	9	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:20403763C>A	uc002rdo.1	-	3	737	c.438G>T	c.(436-438)CAG>CAT	p.Q146H	SDC1_uc002rdp.1_Missense_Mutation_p.Q146H|SDC1_uc010exv.2_Missense_Mutation_p.Q146H|SDC1_uc010exw.1_RNA	NM_002997	NP_002988	P18827	SDC1_HUMAN	syndecan 1 precursor	146	Extracellular (Potential).				lipid metabolic process|lipoprotein metabolic process|myoblast development|striated muscle cell development	cytoplasm|extracellular region|focal adhesion|integral to plasma membrane	cytoskeletal protein binding|protein C-terminus binding			ovary(4)|skin(1)	5	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)			OV - Ovarian serous cystadenocarcinoma(76;0.221)		TGGCGGGCTCCTGGGCCGTGG	0.687													6	94					0.00116845	0.00121513	1	1	0		A	20403763	A	A	20403763	3	1	27	1	0	0	0	0	1	0	0	0	13976	680	24	5	506	5	SDC1	2	20403763	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2290785	20403763	222795610	861	23212											
PUM2	23369	broad.mit.edu	37	chr2	20451433	20451433	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaacttggccagtatatgCttcccgtatgtgtatttgcg	7	15	9	10	2	0	0	0	0	0	0	2	0	2	0	3	1	3	4	3	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:20451433C>T	uc002rds.1	-	20	3131	c.3108G>A	c.(3106-3108)AAG>AAA	p.K1036K	PUM2_uc002rdq.1_Silent_p.K415K|PUM2_uc002rdt.1_Silent_p.K1036K|PUM2_uc002rdr.2_Silent_p.K896K|PUM2_uc010yjy.1_Silent_p.K957K|PUM2_uc002rdu.1_Silent_p.K1036K|PUM2_uc010yjz.1_Silent_p.K975K	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2	1038	PUM-HD.				regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCAGTATATGCTTCCCGTATG	0.373													10	131					0	0	1	0	0		T	20451433	T	T	20451433	2	4	27	1	0	0	0	0	0	0	0	1	12851	796	28	2		2	PUM2	2	20451433	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	47670	20451433	222747940	862	23213											
PUM2	23369	broad.mit.edu	37	chr2	20483138	20483138	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaactaattaaaacaggTgttggagccattaaccgaac	15	9	9	8	1	0	1	0	1	0	0	0	3	0	2	2	2	5	2	2	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:20483138T>C	uc002rds.1	-	10	1424	c.1401A>G	c.(1399-1401)ACA>ACG	p.T467T	PUM2_uc002rdt.1_Silent_p.T467T|PUM2_uc002rdr.2_Silent_p.T406T|PUM2_uc010yjy.1_Silent_p.T467T|PUM2_uc002rdu.1_Silent_p.T467T|PUM2_uc010yjz.1_Silent_p.T406T	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2	467	Ala-rich.				regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTAAAACAGGTGTTGGAGCCA	0.428													5	65					0	0	1	0	0		C	20483138	C	C	20483138	2	2	27	1	0	0	0	0	0	0	0	1	12851	1683	59	3		3	PUM2	2	20483138	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31705	20483138	222716235	863	23214											
HS1BP3	64342	broad.mit.edu	37	chr2	20824635	20824635	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacggccactttgggatgtTtcttgggcttcttggagctg	4	15	13	9	1	3	0	1	0	2	0	3	2	3	2	1	4	1	3	1	4	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:20824635T>C	uc002rdw.1	-	5	682	c.641A>G	c.(640-642)AAA>AGA	p.K214R		NM_022460	NP_071905	Q53T59	H1BP3_HUMAN	HCLS1 binding protein 3	214	Pro-rich.				cell communication		phosphatidylinositol binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTTGGGATGTTTCTTGGGCTT	0.597													3	107					0	0	1	0	0		C	20824635	C	C	20824635	3	2	27	1	0	0	0	0	1	0	0	0	7377	1841	64	3	549	3	HS1BP3	2	20824635	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	341497	20824635	222374738	864	23215											
APOB	338	broad.mit.edu	37	chr2	21224949	21224949	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgctaagatattcctGaatatttctgtgcagaaatt	14	14	8	5	0	1	3	0	1	1	2	2	4	2	4	1	1	2	2	1	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:21224949G>T	uc002red.2	-	29	13473	c.13345C>A	c.(13345-13347)CAG>AAG	p.Q4449K		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	4449					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AGATATTCCTGAATATTTCTG	0.403													19	44					5.35267e-07	5.83128e-07	1	1	0		T	21224949	T	T	21224949	3	4	27	1	0	0	0	0	1	0	0	0	785	1299	45	5	350	5	APOB	2	21224949	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	400314	21224949	221974424	865	23216											
APOB	338	broad.mit.edu	37	chr2	21225766	21225766	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaattcttgagtaactcgTaccaagccatcaaacacgtt	13	11	7	10	2	2	1	1	1	1	0	3	2	2	2	2	1	4	3	2	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:21225766T>C	uc002red.2	-	29	12656	c.12528A>G	c.(12526-12528)GTA>GTG	p.V4176V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	4176					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GAGTAACTCGTACCAAGCCAT	0.468													3	103					0	0	1	0	0		C	21225766	C	C	21225766	2	2	27	1	0	0	0	0	0	0	0	1	785	1625	57	3		3	APOB	2	21225766	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	817	21225766	221973607	866	23217											
APOB	338	broad.mit.edu	37	chr2	21230586	21230586	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactttcaaattcccttcatTgtttgtggatgccgtgatct	8	17	7	9	1	3	1	2	1	1	0	4	2	4	2	2	1	2	1	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:21230586T>G	uc002red.2	-	26	9282	c.9154A>C	c.(9154-9156)AAT>CAT	p.N3052H		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3052					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTCCCTTCATTGTTTGTGGAT	0.408													5	76					0	0	1	0	0		G	21230586	G	G	21230586	3	3	27	1	0	0	0	0	1	0	0	0	785	1812	63	5	4553	5	APOB	2	21230586	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4820	21230586	221968787	867	23218											
APOB	338	broad.mit.edu	37	chr2	21230676	21230676	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttccatttaaatgagcatCatgcctcccagtaaactctg	11	13	5	12	0	2	1	1	1	1	0	4	1	4	1	3	0	3	2	3	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:21230676C>A	uc002red.2	-	26	9192	c.9064G>T	c.(9064-9066)GAT>TAT	p.D3022Y		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3022					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AAATGAGCATCATGCCTCCCA	0.438													4	60					1.024e-07	1.12055e-07	1	1	0		A	21230676	A	A	21230676	3	1	27	1	0	0	0	0	1	0	0	0	785	826	29	5	4643	5	APOB	2	21230676	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	90	21230676	221968697	868	23219											
APOB	338	broad.mit.edu	37	chr2	21232015	21232015	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaccaatgctttcatacgTttagcccaatcttggataga	11	14	6	10	1	3	1	1	0	2	1	3	2	3	2	2	1	4	2	2	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:21232015T>C	uc002red.2	-	26	7853	c.7725A>G	c.(7723-7725)AAA>AAG	p.K2575K		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2575					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CTTTCATACGTTTAGCCCAAT	0.438													4	87					0	0	1	0	0		C	21232015	C	C	21232015	2	2	27	1	0	0	0	0	0	0	0	1	785	1722	60	3		3	APOB	2	21232015	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1339	21232015	221967358	869	23220											
APOB	338	broad.mit.edu	37	chr2	21237364	21237364	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtggaagtctggcaatccCatgttctggaggttgaactc	9	12	12	8	0	2	1	0	1	2	0	4	3	3	3	1	4	1	3	1	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:21237364C>A	uc002red.2	-	24	3926	c.3798G>T	c.(3796-3798)ATG>ATT	p.M1266I		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1266					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CTGGCAATCCCATGTTCTGGA	0.433													11	78					1.33987e-11	1.48629e-11	1	1	0		A	21237364	A	A	21237364	3	1	27	1	0	0	0	0	1	0	0	0	785	594	21	5	9917	5	APOB	2	21237364	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5349	21237364	221962009	870	23221											
APOB	338	broad.mit.edu	37	chr2	21238370	21238370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggcttctgcttgcaaacggGgtatggaaataacacccttg	10	11	11	9	1	1	0	0	0	1	0	1	1	1	1	1	4	4	4	1	4	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:21238370G>A	uc002red.2	-	22	3508	c.3380C>T	c.(3379-3381)CCC>CTC	p.P1127L		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1127					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTGCAAACGGGGTATGGAAAT	0.448													5	52					0	0	1	0	0		A	21238370	A	A	21238370	3	1	27	1	0	0	0	0	1	0	0	0	785	1232	43	4	10343	4	APOB	2	21238370	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1006	21238370	221961003	871	23222											
APOB	338	broad.mit.edu	37	chr2	21252548	21252548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttttccgcagagcctggatgGcagctttctggatcatcagt	7	13	11	10	1	3	1	2	0	1	1	4	3	4	3	2	3	2	3	2	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:21252548G>A	uc002red.2	-	12	1708	c.1580C>T	c.(1579-1581)GCC>GTC	p.A527V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	527	Vitellogenin.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AGCCTGGATGGCAGCTTTCTG	0.428													29	116					0	0	1	0	0		A	21252548	A	A	21252548	3	1	27	1	0	0	0	0	1	0	0	0	785	1203	42	2	12183	2	APOB	2	21252548	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	14178	21252548	221946825	872	23223											
ATAD2B	54454	broad.mit.edu	37	chr2	24033224	24033224	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgttttggcactaactgAataaagtgctgggagatcta	12	12	12	5	0	1	2	0	1	1	1	1	3	1	2	0	3	2	3	0	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:24033224A>G	uc002rek.3	-	18	2710	c.2416T>C	c.(2416-2418)TCA>CCA	p.S806P	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rei.3_Missense_Mutation_p.S51P|ATAD2B_uc002rej.3_5'UTR	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	806							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCACTAACTGAATAAAGTGCT	0.428													4	69					0	0	1	0	0		G	24033224	G	G	24033224	3	3	27	1	0	0	0	0	1	0	0	0	1073	246	9	3	2004	3	ATAD2B	2	24033224	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2780676	24033224	219166149	873	23224											
ATAD2B	54454	broad.mit.edu	37	chr2	24046213	24046213	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttgaagcttctttccagCagtggtcttatgatggggga	7	15	13	6	0	2	2	0	2	2	0	3	3	3	3	1	3	2	3	1	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:24046213C>T	uc002rek.3	-	16	2340	c.2046G>A	c.(2044-2046)CTG>CTA	p.L682L	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rej.3_5'UTR	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	682							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTCTTTCCAGCAGTGGTCTTA	0.443													4	25					0	0	1	0	0		T	24046213	T	T	24046213	2	4	27	1	0	0	0	0	0	0	0	1	1073	697	25	2		2	ATAD2B	2	24046213	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12989	24046213	219153160	874	23225											
UBXN2A	165324	broad.mit.edu	37	chr2	24194218	24194218	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattgtgaatattttgttgaTagcctttttgaggaagctca	11	17	9	4	0	1	3	1	3	0	0	1	4	1	4	1	1	2	2	1	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:24194218T>A	uc010exy.2	+	4	582	c.114T>A	c.(112-114)GAT>GAA	p.D38E	UBXN2A_uc002rem.2_RNA|UBXN2A_uc002ren.2_Missense_Mutation_p.D38E|UBXN2A_uc010ykj.1_Missense_Mutation_p.D38E	NM_181713	NP_859064	P68543	UBX2A_HUMAN	UBX domain containing 4	38											0						ATTTTGTTGATAGCCTTTTTG	0.338													15	163					0	0	1	0	0		A	24194218	A	A	24194218	3	1	27	1	0	0	0	0	1	0	0	0	16940	1403	49	5	120	5	UBXN2A	2	24194218	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	148005	24194218	219005155	875	23226											
UBXN2A	165324	broad.mit.edu	37	chr2	24205770	24205770	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctttgttttccaagggaaTtaccttcagaattacaggga	11	15	8	7	0	2	1	1	0	1	1	3	3	3	3	2	2	2	1	2	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:24205770T>A	uc010exy.2	+	6	760	c.292T>A	c.(292-294)TTA>ATA	p.L98I	UBXN2A_uc002rem.2_RNA|UBXN2A_uc002ren.2_Missense_Mutation_p.L98I|UBXN2A_uc010ykj.1_Missense_Mutation_p.L98I	NM_181713	NP_859064	P68543	UBX2A_HUMAN	UBX domain containing 4	98	SEP.										0						TCCAAGGGAATTACCTTCAGA	0.303													5	69					0	0	1	0	0		A	24205770	A	A	24205770	3	1	27	1	0	0	0	0	1	0	0	0	16940	1490	52	5	306	5	UBXN2A	2	24205770	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	11552	24205770	218993603	876	23227											
ITSN2	50618	broad.mit.edu	37	chr2	24493619	24493619	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatgctctataattcaccAaaacactagctgtctcacct	14	12	3	12	0	3	0	2	0	2	0	4	0	3	0	2	0	3	2	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:24493619A>G	uc002rfe.2	-	20	2534	c.2276T>C	c.(2275-2277)TTG>TCG	p.L759S	ITSN2_uc002rff.2_Missense_Mutation_p.L732S|ITSN2_uc002rfg.2_Missense_Mutation_p.L759S	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	759	SH3 1.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATAATTCACCAAAACACTAGC	0.323													9	76					0	0	1	0	0		G	24493619	G	G	24493619	3	3	27	1	0	0	0	0	1	0	0	0	7943	131	5	3	2952	3	ITSN2	2	24493619	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	287849	24493619	218705754	877	23228											
ITSN2	50618	broad.mit.edu	37	chr2	24533475	24533475	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattaagggaggaaggttggTccctgaagtcgcagaagaca	13	7	14	7	1	0	3	0	1	0	2	2	5	1	5	1	4	0	2	1	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:24533475T>A	uc002rfe.2	-	6	697	c.439A>T	c.(439-441)ACC>TCC	p.T147S	ITSN2_uc002rff.2_Missense_Mutation_p.T147S|ITSN2_uc002rfg.2_Missense_Mutation_p.T147S|ITSN2_uc010eyd.2_Missense_Mutation_p.T147S	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	147					endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAAGGTTGGTCCCTGAAGTC	0.483													5	54					0	0	1	0	0		A	24533475	A	A	24533475	3	1	27	1	0	0	0	0	1	0	0	0	7943	1667	58	5	4845	5	ITSN2	2	24533475	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	39856	24533475	218665898	878	23229											
NCOA1	8648	broad.mit.edu	37	chr2	24927967	24927967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgaaacagtgatgactcgtgGcactgcctccagcccctcct	8	9	9	15	1	0	3	0	3	0	0	3	3	2	3	5	1	3	1	5	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:24927967G>A	uc002rfk.2	+	10	1220	c.962G>A	c.(961-963)GGC>GAC	p.G321D	NCOA1_uc010eye.2_Missense_Mutation_p.G321D|NCOA1_uc002rfi.2_Missense_Mutation_p.G170D|NCOA1_uc002rfj.2_Missense_Mutation_p.G321D|NCOA1_uc002rfl.2_Missense_Mutation_p.G321D	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	321									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATGACTCGTGGCACTGCCTCC	0.423			T	PAX3	alveolar rhadomyosarcoma								7	80					0	0	1	0	0		A	24927967	A	A	24927967	3	1	27	1	0	0	0	0	1	0	0	0	10247	1203	42	2	992	2	NCOA1	2	24927967	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	394492	24927967	218271406	879	23230											
NCOA1	8648	broad.mit.edu	37	chr2	24929562	24929562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgttcatccacattgccacCatccaacagcaacatggtat	12	10	5	14	1	1	0	1	0	0	0	4	0	3	0	4	1	4	3	4	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:24929562C>T	uc002rfk.2	+	11	1481	c.1223C>T	c.(1222-1224)CCA>CTA	p.P408L	NCOA1_uc010eye.2_Missense_Mutation_p.P408L|NCOA1_uc002rfi.2_Missense_Mutation_p.P257L|NCOA1_uc002rfj.2_Missense_Mutation_p.P408L|NCOA1_uc002rfl.2_Missense_Mutation_p.P408L	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	408	Interaction with STAT3.|Ser-rich.								PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACATTGCCACCATCCAACAGC	0.473			T	PAX3	alveolar rhadomyosarcoma								6	62					0	0	1	0	0		T	24929562	T	T	24929562	3	4	27	1	0	0	0	0	1	0	0	0	10247	594	21	4	1257	4	NCOA1	2	24929562	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1595	24929562	218269811	880	23231											
CENPO	79172	broad.mit.edu	37	chr2	25037355	25037355	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccattctgcaggcatatcaTtttacaggttttgtttgttt	7	19	8	7	0	2	0	1	0	1	0	2	0	2	0	1	2	2	5	1	2	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:25037355T>A	uc002rfo.1	+	4	516	c.327T>A	c.(325-327)CAT>CAA	p.H109Q	CENPO_uc002rfn.2_Missense_Mutation_p.H109Q|CENPO_uc002rfp.1_Missense_Mutation_p.H103Q|CENPO_uc002rfq.1_Missense_Mutation_p.H109Q	NM_024322	NP_077298	Q9BU64	CENPO_HUMAN	centromere protein O	109	Potential.				cell division|CenH3-containing nucleosome assembly at centromere|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					AGGCATATCATTTTACAGGTT	0.368													9	100					0	0	1	0	0		A	25037355	A	A	25037355	3	1	27	1	0	0	0	0	1	0	0	0	3242	1490	52	5	337	5	CENPO	2	25037355	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	107793	25037355	218162018	881	23232											
POMC	5443	broad.mit.edu	37	chr2	25384290	25384290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggtacaccttcactgggCgccgcttcttgcccaccggc	5	9	11	16	3	2	0	1	0	1	0	2	0	2	0	4	3	2	2	4	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:25384290C>T	uc002rfy.1	-	4	727	c.464G>A	c.(463-465)CGC>CAC	p.R155H	POMC_uc002rfz.1_Missense_Mutation_p.R155H|POMC_uc002rga.1_Missense_Mutation_p.R155H	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	155					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)	CTTCACTGGGCGCCGCTTCTT	0.697													5	19					0	0	1	0	0		T	25384290	T	T	25384290	3	4	27	1	0	0	0	0	1	0	0	0	12261	768	27	1	343	1	POMC	2	25384290	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	346935	25384290	217815083	882	23233											
DNMT3A	1788	broad.mit.edu	37	chr2	25463242	25463242	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attctcaaagagccagaagaAggggcgatcatctccctcct	12	8	9	12	1	3	3	2	0	2	3	6	4	4	3	3	2	1	0	3	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:25463242A>T	uc002rgc.2	-	19	2508	c.2251T>A	c.(2251-2253)TTC>ATC	p.F751I	DNMT3A_uc002rgd.2_Missense_Mutation_p.F751I|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Missense_Mutation_p.F562I	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	751					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGCCAGAAGAAGGGGCGATCA	0.572			Mis|F|N|S		AML								12	90					0	0	1	0	0		T	25463242	T	T	25463242	3	4	27	1	0	0	0	0	1	0	0	0	4682	72	3	5	507	5	DNMT3A	2	25463242	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	78952	25463242	217736131	883	23234											
HADHA	3030	broad.mit.edu	37	chr2	26437359	26437359	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggcctttagtctgctttcGcactttttcttccacttttt	5	20	5	11	1	2	0	0	0	2	0	4	0	3	0	2	1	1	2	2	1	2	8	rs137852775		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:26437359G>A	uc002rgy.2	-	9	1001	c.871C>T	c.(871-873)CGA>TGA	p.R291*	HADHA_uc010yks.1_Nonsense_Mutation_p.R204*|HADHA_uc010ykt.1_Nonsense_Mutation_p.R204*	NM_000182	NP_000173	P40939	ECHA_HUMAN	mitochondrial trifunctional protein, alpha	291					fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)	GTCTGCTTTCGCACTTTTTCT	0.343													23	76					0	0	1	0	0		A	26437359	A	A	26437359	4	1	27	1	0	0	0	0	0	1	0	0	6959	1095	38	1	1468	1	HADHA	2	26437359	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	974117	26437359	216762014	884	23235											
HADHB	3032	broad.mit.edu	37	chr2	26502916	26502916	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcctcactggagcagaTggccaaactaaaacctgcat	12	9	7	13	0	1	1	1	0	0	1	3	2	3	2	4	2	4	2	4	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:26502916T>C	uc002rgz.2	+	10	1117	c.866T>C	c.(865-867)ATG>ACG	p.M289T	HADHB_uc010ykv.1_Missense_Mutation_p.M267T|HADHB_uc010ykw.1_Missense_Mutation_p.M274T|HADHB_uc002rha.2_Missense_Mutation_p.M166T|HADHB_uc010ykx.1_Missense_Mutation_p.M215T	NM_000183	NP_000174	P55084	ECHB_HUMAN	mitochondrial trifunctional protein, beta	289					fatty acid beta-oxidation	mitochondrial nucleoid	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acyltransferase activity|enoyl-CoA hydratase activity|protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGGAGCAGATGGCCAAACTA	0.378													6	84					0	0	1	0	0		C	26502916	C	C	26502916	3	2	27	1	0	0	0	0	1	0	0	0	6960	1464	51	3	900	3	HADHB	2	26502916	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	65557	26502916	216696457	885	23236											
C2orf39	92749	broad.mit.edu	37	chr2	26644259	26644259	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtcgaagaagaggagataaAgcgtcaaaggtaaggactgt	17	6	14	4	2	1	3	1	0	0	3	2	6	1	4	0	3	1	1	0	3	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:26644259A>C	uc002rhg.2	+	3	421	c.347A>C	c.(346-348)AAG>ACG	p.K116T	C2orf39_uc010eym.1_RNA	NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	116	Potential.										0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAGGAGATAAAGCGTCAAAGG	0.488													4	36					0	0	1	0	0		C	26644259	C	C	26644259	3	2	27	1	0	0	0	0	1	0	0	0	2167	72	3	5	357	5	C2orf39	2	26644259	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	141343	26644259	216555114	886	23237											
C2orf39	92749	broad.mit.edu	37	chr2	26676390	26676390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcctcaagattctggaggCcttcgtcatgggtctgaaga	8	12	12	9	1	4	3	2	1	2	2	6	4	5	4	2	3	0	0	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:26676390C>T	uc002rhg.2	+	14	1966	c.1892C>T	c.(1891-1893)GCC>GTC	p.A631V		NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	631											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATTCTGGAGGCCTTCGTCATG	0.488													16	56					0	0	1	0	0		T	26676390	T	T	26676390	3	4	27	1	0	0	0	0	1	0	0	0	2167	739	26	2	1946	2	C2orf39	2	26676390	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	32131	26676390	216522983	887	23238											
OTOF	9381	broad.mit.edu	37	chr2	26695445	26695445	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacctctggctccatagtcAccacaacctcccctgtggag	8	9	8	16	0	2	0	1	0	1	0	4	1	4	1	6	2	2	2	6	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:26695445A>G	uc002rhk.2	-	30	3933	c.3806T>C	c.(3805-3807)GTG>GCG	p.V1269A	OTOF_uc010yla.1_5'UTR|OTOF_uc002rhh.2_Missense_Mutation_p.V502A|OTOF_uc002rhi.2_Missense_Mutation_p.V579A|OTOF_uc002rhj.2_Missense_Mutation_p.V502A	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1269	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTCCATAGTCACCACAACCTC	0.607													10	53					0	0	1	0	0		G	26695445	G	G	26695445	3	3	27	1	0	0	0	0	1	0	0	0	11322	159	6	3	2440	3	OTOF	2	26695445	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19055	26695445	216503928	888	23239											
OTOF	9381	broad.mit.edu	37	chr2	26702518	26702518	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcaacttcgttcccatagTtgcctggagcagaatgggcc	9	10	10	12	1	1	1	1	0	0	1	3	2	2	2	3	2	3	3	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:26702518T>C	uc002rhk.2	-	17	2043	c.1916A>G	c.(1915-1917)AAC>AGC	p.N639S	OTOF_uc002rhh.2_5'Flank|OTOF_uc002rhi.2_5'Flank|OTOF_uc002rhj.2_5'Flank	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	639	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTTCCCATAGTTGCCTGGAGC	0.622													5	55					0	0	1	0	0		C	26702518	C	C	26702518	3	2	27	1	0	0	0	0	1	0	0	0	11322	1725	60	3	4526	3	OTOF	2	26702518	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7073	26702518	216496855	889	23240											
OTOF	9381	broad.mit.edu	37	chr2	26741942	26741942	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatggctctcctctaccAccttctgcagcaccatgcgg	7	9	7	18	1	3	0	0	0	3	0	4	0	3	0	5	2	4	3	5	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:26741942A>G	uc002rhk.2	-	4	390	c.263T>C	c.(262-264)GTG>GCG	p.V88A	OTOF_uc010ylb.1_5'Flank	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	88	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTCCTCTACCACCTTCTGCAG	0.562													4	19					0	0	1	0	0		G	26741942	G	G	26741942	3	3	27	1	0	0	0	0	1	0	0	0	11322	159	6	3	6231	3	OTOF	2	26741942	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	39424	26741942	216457431	890	23241											
DPYSL5	56896	broad.mit.edu	37	chr2	27162933	27162933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgtggcatcagatcaccggCctttcaccacaaagcagaaa	13	7	8	13	2	3	2	3	0	0	2	4	2	3	2	3	2	1	2	3	2	2	1	rs147693720		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:27162933C>T	uc002rhu.3	+	9	1140	c.982C>T	c.(982-984)CCT>TCT	p.P328S	DPYSL5_uc002rhv.3_Missense_Mutation_p.P328S	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	328					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGATCACCGGCCTTTCACCAC	0.542													31	81					0	0	1	0	0		T	27162933	T	T	27162933	3	4	27	1	0	0	0	0	1	0	0	0	4756	739	26	2	1012	2	DPYSL5	2	27162933	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	420991	27162933	216036440	891	23242											
EMILIN1	11117	broad.mit.edu	37	chr2	27305786	27305786	+	Frame_Shift_Del	DEL	G	-	-																															cggggccgactagagcagttGggggggctgctggccaatgt																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:27305786delG	uc002rii.3	+	4	1775	c.1347delG	c.(1345-1347)TTGfs	p.L449fs	EMILIN1_uc010eyq.1_Frame_Shift_Del_p.L449fs|EMILIN1_uc002rik.3_5'Flank	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	449					cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TAGAGCAGTTGGGGGGGCTGC	0.711													10	19	---	---	---	---						.	-	27305786	-	-	27305786	7	5	27	1	0	1	0	1	0	0	0	0	5101	1339	47	0	1361	0	EMILIN1	2	27305786	Frame_Shift_Del	DEL	G	TCGA-BR-6452-01A-12D-1800-08	142853	27305786	215893587	892	23243											
CAD	790	broad.mit.edu	37	chr2	27449763	27449763	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattattgtgtggtgaagatTcctcgatgggaccttagcaa	10	13	12	6	1	0	2	0	1	0	1	2	5	1	3	2	2	1	1	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:27449763T>A	uc002rji.2	+	15	2382	c.2220T>A	c.(2218-2220)ATT>ATA	p.I740I	CAD_uc010eyw.2_Silent_p.I677I	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	740	CPSase (Carbamoyl-phosphate synthase).|CPSase A.				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	TGGTGAAGATTCCTCGATGGG	0.567													23	143					0	0	1	0	0		A	27449763	A	A	27449763	2	1	27	1	0	0	0	0	0	0	0	1	2568	1771	62	5		5	CAD	2	27449763	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	143977	27449763	215749610	893	23244											
SLC30A3	7781	broad.mit.edu	37	chr2	27481702	27481702	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatgcagcctctcaggggTaaggcccggcggcggaaggg	7	5	18	11	3	1	0	1	0	1	0	2	1	1	1	2	7	3	3	2	7	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:27481702T>C	uc002rjk.2	-	2	382	c.196A>G	c.(196-198)ACC>GCC	p.T66A	SLC30A3_uc002rjj.2_5'Flank|SLC30A3_uc010ylh.1_Missense_Mutation_p.T61A	NM_003459	NP_003450	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter),	66	Cytoplasmic (Potential).				regulation of sequestering of zinc ion	cell junction|integral to plasma membrane|late endosome|membrane fraction|synaptic vesicle membrane	zinc transporting ATPase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTCTCAGGGGTAAGGCCCGGC	0.627													17	39					0	0	1	0	0		C	27481702	C	C	27481702	3	2	27	1	0	0	0	0	1	0	0	0	14581	1638	57	3	998	3	SLC30A3	2	27481702	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31939	27481702	215717671	894	23245											
TRIM54	57159	broad.mit.edu	37	chr2	27529138	27529138	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggagccaggctatgagagCatggagcaattcaccgtaag	12	6	13	10	2	1	1	1	1	0	1	1	4	1	3	3	3	3	4	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:27529138C>A	uc002rjo.2	+	7	924	c.924C>A	c.(922-924)AGC>AGA	p.S308R	TRIM54_uc002rjn.2_Missense_Mutation_p.S350R	NM_187841	NP_912730	Q9BYV2	TRI54_HUMAN	ring finger protein 30 isoform 2	308	COS.				cell differentiation|microtubule-based process|multicellular organismal development|negative regulation of microtubule depolymerization	microtubule|sarcomere	signal transducer activity|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCTATGAGAGCATGGAGCAAT	0.657													7	70					0.00198382	0.00205548	1	1	0		A	27529138	A	A	27529138	3	1	27	1	0	0	0	0	1	0	0	0	16554	709	25	5	1080	5	TRIM54	2	27529138	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	47436	27529138	215670235	895	23246											
GTF3C2	2976	broad.mit.edu	37	chr2	27560373	27560373	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agataacaagtgccacttccAggctaaaggaatccactcag	15	7	8	11	0	1	1	1	0	0	1	3	2	3	2	3	2	2	1	3	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:27560373A>G	uc002rjv.1	-	7	1366	c.1003T>C	c.(1003-1005)TGG>CGG	p.W335R	GTF3C2_uc010eyy.1_5'Flank|GTF3C2_uc002rju.1_Missense_Mutation_p.W346R|GTF3C2_uc002rjw.1_Missense_Mutation_p.W335R|GTF3C2_uc010eyz.1_Missense_Mutation_p.W335R|uc002rjy.1_RNA	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	335						transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGCCACTTCCAGGCTAAAGGA	0.468													11	59					0	0	1	0	0		G	27560373	G	G	27560373	3	3	27	1	0	0	0	0	1	0	0	0	6889	188	7	3	1788	3	GTF3C2	2	27560373	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	31235	27560373	215639000	896	23247											
IFT172	26160	broad.mit.edu	37	chr2	27676295	27676295	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgctgtttccagagtctcGcactttgaggtagcagtcca	7	11	11	12	2	1	2	0	1	1	1	4	2	3	2	3	1	1	5	3	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:27676295G>A	uc002rku.2	-	35	3958	c.3907C>T	c.(3907-3909)CGA>TGA	p.R1303*	IFT172_uc010ezb.2_RNA	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	1303	TPR 10.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CCAGAGTCTCGCACTTTGAGG	0.582													5	92					0	0	1	0	0		A	27676295	A	A	27676295	4	1	27	1	0	0	0	0	0	1	0	0	7573	1095	38	1	1398	1	IFT172	2	27676295	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	115922	27676295	215523078	897	23248											
IFT172	26160	broad.mit.edu	37	chr2	27680796	27680796	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcatacaacttgtgctttTtgtacatggtgatggcaaga	11	14	9	7	0	1	2	1	1	0	1	1	2	1	2	0	2	4	3	0	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:27680796T>C	uc002rku.2	-	28	3074	c.3023A>G	c.(3022-3024)AAA>AGA	p.K1008R		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	1008					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CTTGTGCTTTTTGTACATGGT	0.512													11	94					0	0	1	0	0		C	27680796	C	C	27680796	3	2	27	1	0	0	0	0	1	0	0	0	7573	1841	64	3	2310	3	IFT172	2	27680796	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4501	27680796	215518577	898	23249											
IFT172	26160	broad.mit.edu	37	chr2	27682682	27682682	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccactgggaaggccaatcGagccagctctaccgctgcca	9	6	10	16	2	1	0	0	0	1	0	3	2	2	1	5	2	4	2	5	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:27682682G>A	uc002rku.2	-	24	2587	c.2536C>T	c.(2536-2538)CGA>TGA	p.R846*		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	846					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					AAGGCCAATCGAGCCAGCTCT	0.552													36	122					0	0	1	0	0		A	27682682	A	A	27682682	4	1	27	1	0	0	0	0	0	1	0	0	7573	1066	37	1	2813	1	IFT172	2	27682682	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1886	27682682	215516691	899	23250											
C2orf16	84226	broad.mit.edu	37	chr2	27804215	27804215	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagaggagccactgcagTccctctaggaaaaaccattc	12	8	8	13	0	2	1	1	0	2	1	5	3	3	3	3	2	3	1	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:27804215T>A	uc002rkz.3	+	1	4827	c.4776T>A	c.(4774-4776)AGT>AGA	p.S1592R	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1592	Arg-rich.									large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					GCCACTGCAGTCCCTCTAGGA	0.542													5	106					0	0	1	0	0		A	27804215	A	A	27804215	3	1	27	1	0	0	0	0	1	0	0	0	2160	1664	58	5	4778	5	C2orf16	2	27804215	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	121533	27804215	215395158	900	23251											
PLB1	151056	broad.mit.edu	37	chr2	28739692	28739692	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggacccctcagatccatAcctctcctagaaagagtaca	13	7	7	14	0	2	3	1	0	1	3	4	4	3	4	5	1	2	1	5	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:28739692A>G	uc002rmb.1	+	2	73	c.73A>G	c.(73-75)ACC>GCC	p.T25A	PLB1_uc010ezj.1_Missense_Mutation_p.T25A	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	25	Extracellular (Potential).				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					TCAGATCCATACCTCTCCTAG	0.483													12	108					0	0	1	0	0		G	28739692	G	G	28739692	3	3	27	1	0	0	0	0	1	0	0	0	12043	391	14	3	79	3	PLB1	2	28739692	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	935477	28739692	214459681	901	23252											
PPP1CB	5500	broad.mit.edu	37	chr2	28999850	28999850	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaccgctgaaaatttgtggTatgtaaatgggtaaagttgg	12	12	13	4	1	0	1	0	1	0	0	0	1	0	1	1	3	0	6	1	3	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:28999850T>C	uc002rmg.2	+	3	344	c.184_splice	c.e3+2	p.G62_splice	PPP1CB_uc010ymj.1_Splice_Site_p.G34_splice|PPP1CB_uc010ymk.1_Splice_Site_p.G34_splice|PPP1CB_uc010yml.1_Splice_Site_p.G34_splice|PPP1CB_uc002rmh.2_Splice_Site_p.G62_splice	NM_206876	NP_996759	P62140	PP1B_HUMAN	protein phosphatase 1, catalytic subunit, beta						cell cycle|cell division|glycogen metabolic process|triglyceride catabolic process	MLL5-L complex|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|myosin phosphatase activity|myosin-light-chain-phosphatase activity|protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)					AAATTTGTGGTATGTAAATGG	0.358													4	149					0	0	1	0	0		C	28999850	C	C	28999850	5	2	27	1	0	0	0	0	0	0	1	0	12372	1652	57	3	192	3	PPP1CB	2	28999850	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	260158	28999850	214199523	902	23253											
C2orf71	388939	broad.mit.edu	37	chr2	29287753	29287753	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcaggacacctcctcttgCtggggctgcgcctctggctg	3	11	13	14	1	3	0	1	0	2	0	4	1	4	1	3	4	2	3	3	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:29287753C>A	uc002rmt.1	-	2	3849	c.3849G>T	c.(3847-3849)CAG>CAT	p.Q1283H		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	1283					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						CCTCCTCTTGCTGGGGCTGCG	0.642													4	27					0.000602214	0.000630257	1	1	0		A	29287753	A	A	29287753	3	1	27	1	0	0	0	0	1	0	0	0	2194	796	28	5	21	5	C2orf71	2	29287753	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	287903	29287753	213911620	903	23254											
CLIP4	79745	broad.mit.edu	37	chr2	29386758	29386758	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgatggttcagttggaggTgtgcagtattttagctgttc	8	16	13	4	0	1	1	1	1	0	0	2	2	1	2	0	3	2	6	0	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:29386758T>C	uc002rmv.2	+	13	1835	c.1596T>C	c.(1594-1596)GGT>GGC	p.G532G	CLIP4_uc002rmu.2_Silent_p.G532G|CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	532	CAP-Gly 2.									ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					CAGTTGGAGGTGTGCAGTATT	0.373													9	88					0	0	1	0	0		C	29386758	C	C	29386758	2	2	27	1	0	0	0	0	0	0	0	1	3538	1683	59	3		3	CLIP4	2	29386758	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	99005	29386758	213812615	904	23255											
ALK	238	broad.mit.edu	37	chr2	29462672	29462672	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttcttcccgcctttcccGccagcagctccgtagcccga	4	10	9	18	4	1	0	0	0	1	0	4	1	4	0	6	0	3	4	6	0	1	4	rs111253753	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:29462672G>A	uc002rmy.2	-	13	3136	c.2229C>T	c.(2227-2229)GGC>GGT	p.G743G		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	743	Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	CGCCTTTCCCGCCAGCAGCTC	0.592			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				5	39					0	0	1	0	0		A	29462672	A	A	29462672	2	1	27	1	0	0	0	0	0	0	0	1	525	1074	38	1		1	ALK	2	29462672	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	75914	29462672	213736701	905	23256											
YPEL5	51646	broad.mit.edu	37	chr2	30381637	30381637	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgatataaggaaggccgCgtgatcctggaacgtgctct	10	8	13	10	4	1	1	0	1	1	0	2	4	2	3	2	3	3	1	2	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:30381637C>T	uc002rna.3	+	5	855	c.294C>T	c.(292-294)CGC>CGT	p.R98R	YPEL5_uc002rnb.3_Silent_p.R98R|YPEL5_uc002rnc.3_Silent_p.R98R|YPEL5_uc002rmz.3_Silent_p.R98R|YPEL5_uc010ezn.2_RNA|YPEL5_uc002rnd.2_Silent_p.R98R	NM_001127401	NP_001120873	P62699	YPEL5_HUMAN	yippee-like 5	98							peptide-methionine-(S)-S-oxide reductase activity				0	Acute lymphoblastic leukemia(172;0.155)					AGGAAGGCCGCGTGATCCTGG	0.478													7	85					0	0	1	0	0		T	30381637	T	T	30381637	2	4	27	1	0	0	0	0	0	0	0	1	17519	755	27	1		1	YPEL5	2	30381637	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	918965	30381637	212817736	906	23257											
LCLAT1	253558	broad.mit.edu	37	chr2	30682536	30682536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acccatggtcaattaacgagGcagtttctagctactgcacg	11	10	9	11	2	2	0	1	0	1	0	2	1	2	0	1	2	4	4	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:30682536G>A	uc002rnj.2	+	2	267	c.58G>A	c.(58-60)GCA>ACA	p.A20T	LCLAT1_uc010ymp.1_Intron|LCLAT1_uc002rnk.1_Missense_Mutation_p.A20T|LCLAT1_uc002rnl.2_Intron|LCLAT1_uc010ymq.1_5'UTR	NM_182551	NP_872357	Q6UWP7	LCLT1_HUMAN	lysocardiolipin acyltransferase 1 isoform 1	20					multicellular organismal development|phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			ovary(2)	2						AATTAACGAGGCAGTTTCTAG	0.418													24	178					0	0	1	0	0		A	30682536	A	A	30682536	3	1	27	1	0	0	0	0	1	0	0	0	8693	1203	42	2	60	2	LCLAT1	2	30682536	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	300899	30682536	212516837	907	23258											
CAPN13	92291	broad.mit.edu	37	chr2	30966412	30966412	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagtgtttctgaacgaggAaaaaaacacgggtggaaatt	16	8	12	5	2	1	1	0	1	1	0	1	5	1	3	0	3	2	1	0	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:30966412A>G	uc002rnn.2	-	12	1458	c.1282T>C	c.(1282-1284)TCC>CCC	p.S428P	CAPN13_uc002rnm.2_RNA|CAPN13_uc002rno.2_5'UTR	NM_144575	NP_653176	Q6MZZ7	CAN13_HUMAN	calpain 13	428					proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			large_intestine(1)|ovary(1)	2	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					CTGAACGAGGAAAAAAACACG	0.468													4	130					0	0	1	0	0		G	30966412	G	G	30966412	3	3	27	1	0	0	0	0	1	0	0	0	2629	246	9	3	767	3	CAPN13	2	30966412	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	283876	30966412	212232961	908	23259											
XDH	7498	broad.mit.edu	37	chr2	31562486	31562486	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaggctcccctcgggggAatagtgtagctcctctaggg	6	9	15	11	1	1	0	0	0	1	0	4	1	3	1	3	4	2	4	3	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:31562486A>G	uc002rnv.1	-	34	3722	c.3643T>C	c.(3643-3645)TCC>CCC	p.S1215P		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	1215					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	CCCTCGGGGGAATAGTGTAGC	0.602													6	75					0	0	1	0	0		G	31562486	G	G	31562486	3	3	27	1	0	0	0	0	1	0	0	0	17452	246	9	3	370	3	XDH	2	31562486	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	596074	31562486	211636887	909	23260											
XDH	7498	broad.mit.edu	37	chr2	31588888	31588888	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaccacagtgctccgggTctccttgcctccaaagcctc	7	8	9	17	1	1	0	0	0	1	0	5	1	3	1	6	2	3	1	6	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:31588888T>C	uc002rnv.1	-	22	2489	c.2410A>G	c.(2410-2412)ACC>GCC	p.T804A		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	804					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	GTGCTCCGGGTCTCCTTGCCT	0.527													6	74					0	0	1	0	0		C	31588888	C	C	31588888	3	2	27	1	0	0	0	0	1	0	0	0	17452	1667	58	3	1651	3	XDH	2	31588888	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	26402	31588888	211610485	910	23261											
SLC30A6	55676	broad.mit.edu	37	chr2	32417985	32417985	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatatatttttatttcttatAgtgcagaacgctttttggaa	12	19	6	4	1	1	1	0	0	1	1	1	2	1	2	0	1	2	2	0	1	8	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:32417985A>G	uc002roe.1	+	7	403	c.366_splice	c.e7-2	p.S122_splice	SLC30A6_uc002rof.1_Splice_Site_p.S162_splice|SLC30A6_uc010ymw.1_Splice_Site_p.S93_splice|SLC30A6_uc010ezr.1_Splice_Site_p.S122_splice|SLC30A6_uc002rog.1_Splice_Site|SLC30A6_uc010ezs.1_Splice_Site_p.S48_splice|SLC30A6_uc002roh.1_Splice_Site	NM_017964	NP_060434	Q6NXT4	ZNT6_HUMAN	solute carrier family 30 (zinc transporter),							Golgi membrane|integral to membrane	zinc ion transmembrane transporter activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					tatttCTTATAGTGCAGAACG	0.229													5	48					0	0	1	0	0		G	32417985	G	G	32417985	5	3	27	1	0	0	0	0	0	0	1	0	14584	434	15	3	390	3	SLC30A6	2	32417985	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	829097	32417985	210781388	911	23262											
NLRC4	58484	broad.mit.edu	37	chr2	32476209	32476209	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaagaaggaaaagaacccTctgccgcagcttcagcagca	15	5	9	12	1	3	2	2	0	1	2	3	3	3	3	2	1	5	4	2	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:32476209T>G	uc002roi.2	-	4	970	c.724A>C	c.(724-726)AGG>CGG	p.R242R	NLRC4_uc002roj.1_Silent_p.R242R|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	242	NACHT.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					AAAAGAACCCTCTGCCGCAGC	0.488													9	107					0	0	1	0	0		G	32476209	G	G	32476209	2	3	27	1	0	0	0	0	0	0	0	1	10488	1550	54	5		5	NLRC4	2	32476209	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	58224	32476209	210723164	912	23263											
BIRC6	57448	broad.mit.edu	37	chr2	32694625	32694625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggtggggtcaatttctttCtaatgtccttcaggaattgt	7	17	11	6	0	4	0	2	0	2	0	5	1	5	1	1	4	0	0	1	4	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:32694625C>T	uc010ezu.2	+	30	6424	c.6290C>T	c.(6289-6291)TCT>TTT	p.S2097F		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	2097					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					CAATTTCTTTCTAATGTCCTT	0.408													13	234					0	0	1	0	0		T	32694625	T	T	32694625	3	4	27	1	0	0	0	0	1	0	0	0	1439	913	32	4	6408	4	BIRC6	2	32694625	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	218416	32694625	210504748	913	23264											
BIRC6	57448	broad.mit.edu	37	chr2	32724640	32724640	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccagacaggccaaggacCtctcgatgcccaagtgaagc	11	7	10	13	1	1	2	0	1	1	1	3	4	2	3	4	2	2	0	4	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:32724640C>A	uc010ezu.2	+	46	8629	c.8495C>A	c.(8494-8496)CCT>CAT	p.P2832H		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	2832					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					GGCCAAGGACCTCTCGATGCC	0.328													3	29					0.115264	0.116483	1	1	0		A	32724640	A	A	32724640	3	1	27	1	0	0	0	0	1	0	0	0	1439	681	24	5	8677	5	BIRC6	2	32724640	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	30015	32724640	210474733	914	23265											
BIRC6	57448	broad.mit.edu	37	chr2	32800229	32800229	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctccttatagttctggAcatggcaagacatgtgccac	9	13	8	11	0	3	1	0	0	3	1	4	2	3	2	2	2	1	2	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:32800229A>G	uc010ezu.2	+	66	13285	c.13151A>G	c.(13150-13152)GAC>GGC	p.D4384G		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4384					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					ATAGTTCTGGACATGGCAAGA	0.453													4	187					0	0	1	0	0		G	32800229	G	G	32800229	3	3	27	1	0	0	0	0	1	0	0	0	1439	275	10	3	13413	3	BIRC6	2	32800229	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	75589	32800229	210399144	915	23266											
TTC27	55622	broad.mit.edu	37	chr2	33036137	33036137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattgatgggatgactgatcGaagtggagatgttgcaactg	11	11	15	4	1	0	4	0	3	0	1	1	8	0	5	0	2	2	2	0	2	2	2	rs147021005		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:33036137G>A	uc002rom.2	+	17	2276	c.2045G>A	c.(2044-2046)CGA>CAA	p.R682Q	TTC27_uc010ymx.1_Missense_Mutation_p.R632Q|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	682							protein binding			central_nervous_system(1)	1						ATGACTGATCGAAGTGGAGAT	0.408													6	59					0	0	1	0	0		A	33036137	A	A	33036137	3	1	27	1	0	0	0	0	1	0	0	0	16721	1058	37	1	2111	1	TTC27	2	33036137	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	235908	33036137	210163236	916	23267											
LTBP1	4052	broad.mit.edu	37	chr2	33477753	33477753	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcttcagctgatccccCtgtgatctcggaagagaaag	9	10	10	12	1	3	3	1	2	2	1	5	5	4	4	2	1	2	2	2	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:33477753C>A	uc002ros.2	+	11	2009	c.2009C>A	c.(2008-2010)CCT>CAT	p.P670H	LTBP1_uc002rot.2_Missense_Mutation_p.P344H|LTBP1_uc002rou.2_Missense_Mutation_p.P344H|LTBP1_uc002rov.2_Missense_Mutation_p.P344H|LTBP1_uc010ymz.1_Missense_Mutation_p.P344H|LTBP1_uc010yna.1_Missense_Mutation_p.P344H	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	670					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				GCTGATCCCCCTGTGATCTCG	0.463													5	108					0.0215528	0.0219246	1	1	0		A	33477753	A	A	33477753	3	1	27	1	0	0	0	0	1	0	0	0	9091	681	24	5	2106	5	LTBP1	2	33477753	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	441616	33477753	209721620	917	23268											
LTBP1	4052	broad.mit.edu	37	chr2	33589422	33589423	+	Missense_Mutation	DNP	CG	TA	TA																															atacgaccggctgagtcaaaCggtatgtttccaggagatgc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:33589422_33589423CG>TA	uc002ros.2	+	30	4542_4543	c.4542_4543CG>TA	c.(4540-4545)AACGAA>AATAAA	p.E1515K	LTBP1_uc002rot.2_Missense_Mutation_p.E1189K|LTBP1_uc002rou.2_Missense_Mutation_p.E1188K|LTBP1_uc002rov.2_Missense_Mutation_p.E1135K|LTBP1_uc010ymz.1_Missense_Mutation_p.E1146K|LTBP1_uc010yna.1_Missense_Mutation_p.E1093K|LTBP1_uc010ynb.1_Missense_Mutation_p.E412K	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1514					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CTGAGTCAAACGGTATGTTTCC	0.401													4	44					0	0	1	0	0		TA	33589423	TA	TA	33589422	3	4	27	1	0	0	0	0	1	0	0	0	9091	550	19	1	4712	1	LTBP1	2	33589422	Missense_Mutation	DNP	CG	TCGA-BR-6452-01A-12D-1800-08	111669	33589422	209609951	918	23269											
FAM98A	25940	broad.mit.edu	37	chr2	33810274	33810274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccttgatgcttatttcCtcttcctccccctcggccac	3	14	5	19	1	1	1	0	1	1	0	6	1	5	1	7	1	1	1	7	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:33810274C>T	uc002rpa.1	-	8	1200	c.1126G>A	c.(1126-1128)GGA>AGA	p.G376R	FAM98A_uc010yne.1_Missense_Mutation_p.G181R|FAM98A_uc010ynd.1_Missense_Mutation_p.G207R|FAM98A_uc002roz.1_Missense_Mutation_p.G214R	NM_015475	NP_056290	Q8NCA5	FA98A_HUMAN	hypothetical protein LOC25940	377	Gly-rich.									ovary(1)	1	all_hematologic(175;0.115)					TGCTTATTTCCTCTTCCTCCC	0.557													37	85					0	0	1	0	0		T	33810274	T	T	33810274	3	4	27	1	0	0	0	0	1	0	0	0	5670	690	24	4	434	4	FAM98A	2	33810274	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	220852	33810274	209389099	919	23270											
CRIM1	51232	broad.mit.edu	37	chr2	36764546	36764546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcagtgggaaggcctatgCcgacgaggagcggtgggacc	8	6	17	10	3	1	0	1	0	0	0	1	5	1	3	3	5	2	0	3	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:36764546C>T	uc002rpd.2	+	14	2519	c.2480C>T	c.(2479-2481)GCC>GTC	p.A827V		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	827	Extracellular (Potential).|VWFC 6.				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				AAGGCCTATGCCGACGAGGAG	0.577													8	72					0	0	1	0	0		T	36764546	T	T	36764546	3	4	27	1	0	0	0	0	1	0	0	0	3876	739	26	2	2534	2	CRIM1	2	36764546	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2954272	36764546	206434827	920	23271											
VIT	5212	broad.mit.edu	37	chr2	36982084	36982084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggtgtgcttgataattcagGagggaaaatacttgttcgga	11	13	13	4	1	1	1	1	1	0	0	2	4	1	4	0	4	2	2	0	4	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:36982084G>A	uc002rpl.2	+	5	517	c.296G>A	c.(295-297)GGA>GAA	p.G99E	VIT_uc002rpk.2_Missense_Mutation_p.G92E|VIT_uc010ynf.1_Missense_Mutation_p.G92E|VIT_uc002rpm.2_Missense_Mutation_p.G92E|VIT_uc010ezv.2_Missense_Mutation_p.G92E|VIT_uc010ezw.2_Missense_Mutation_p.G92E	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	99	LCCL.					proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				GATAATTCAGGAGGGAAAATA	0.413													16	54					0	0	1	0	0		A	36982084	A	A	36982084	3	1	27	1	0	0	0	0	1	0	0	0	17197	1174	41	4	310	4	VIT	2	36982084	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	217538	36982084	206217289	921	23272											
HEATR5B	54497	broad.mit.edu	37	chr2	37255304	37255304	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccactacttaagagagtTgcagtactcatatctataac	13	14	5	9	0	2	1	1	0	1	1	3	2	3	1	1	0	4	3	1	0	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:37255304T>C	uc002rpp.1	-	24	3711	c.3615A>G	c.(3613-3615)GCA>GCG	p.A1205A		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1205							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				TTAAGAGAGTTGCAGTACTCA	0.279													6	49					0	0	1	0	0		C	37255304	C	C	37255304	2	2	27	1	0	0	0	0	0	0	0	1	7048	1799	63	3		3	HEATR5B	2	37255304	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	273220	37255304	205944069	922	23273											
HEATR5B	54497	broad.mit.edu	37	chr2	37255956	37255956	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgatctgtctcccggtctaGcattccaaaaagaagtccct	10	11	7	13	2	3	1	0	0	3	1	7	2	5	1	3	1	1	1	3	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:37255956G>A	uc002rpp.1	-	23	3565	c.3469C>T	c.(3469-3471)CTA>TTA	p.L1157L		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1157							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				TCCCGGTCTAGCATTCCAAAA	0.423													10	105					0	0	1	0	0		A	37255956	A	A	37255956	2	1	27	1	0	0	0	0	0	0	0	1	7048	962	34	2		2	HEATR5B	2	37255956	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	652	37255956	205943417	923	23274											
SULT6B1	391365	broad.mit.edu	37	chr2	37402358	37402358	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattgcaaaatcaaaataccTtccccaagaaactaaaaaca	21	7	3	10	0	1	1	1	0	0	1	2	2	2	1	3	0	4	1	3	0	10	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:37402358T>G	uc002rpu.2	-	5	448	c.427A>C	c.(427-429)AGG>CGG	p.R143R	SULT6B1_uc010yni.1_Intron	NM_001032377	NP_001027549	Q6IMI4	ST6B1_HUMAN	sulfotransferase family, cytosolic, 6B, member	181						cytoplasm	sulfotransferase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(82;0.248)				TCAAAATACCTTCCCCAAGAA	0.299													5	20					0	0	1	0	0		G	37402358	G	G	37402358	2	3	27	1	0	0	0	0	0	0	0	1	15409	1608	56	5		5	SULT6B1	2	37402358	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	146402	37402358	205797015	924	23275											
CEBPZ	10153	broad.mit.edu	37	chr2	37442030	37442030	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actatattatgtatagtaccTgtggaaaaacacttcatcca	15	13	5	8	0	1	0	1	0	0	0	2	1	2	1	2	1	2	2	2	1	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:37442030T>C	uc002rpz.2	-	9	2476	c.2446A>G	c.(2446-2448)AGG>GGG	p.R816G		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	816					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				GTATAGTACCTGTGGAAAAAC	0.264													5	57					0	0	1	0	0		C	37442030	C	C	37442030	3	2	27	1	0	0	0	0	1	0	0	0	3207	1594	55	3	750	3	CEBPZ	2	37442030	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	39672	37442030	205757343	925	23276											
CEBPZ	10153	broad.mit.edu	37	chr2	37454697	37454697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgttcttacctgtataatgCtgtgtaatatcgatccgata	11	16	7	7	2	1	0	0	0	1	0	3	2	2	0	2	0	2	4	2	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:37454697C>T	uc002rpz.2	-	2	1669	c.1639G>A	c.(1639-1641)GCA>ACA	p.A547T		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	547					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				CTGTATAATGCTGTGTAATAT	0.368													18	91					0	0	1	0	0		T	37454697	T	T	37454697	3	4	27	1	0	0	0	0	1	0	0	0	3207	797	28	2	1585	2	CEBPZ	2	37454697	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12667	37454697	205744676	926	23277											
CEBPZ	10153	broad.mit.edu	37	chr2	37454859	37454859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtctgggaataagggtatgCcctattcacacctgttaaaa	13	11	9	8	0	2	0	1	0	1	0	2	1	2	1	2	2	1	2	2	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:37454859C>T	uc002rpz.2	-	2	1507	c.1477G>A	c.(1477-1479)GCA>ACA	p.A493T		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	493					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				TAAGGGTATGCCCTATTCACA	0.368													7	58					0	0	1	0	0		T	37454859	T	T	37454859	3	4	27	1	0	0	0	0	1	0	0	0	3207	739	26	2	1747	2	CEBPZ	2	37454859	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	162	37454859	205744514	927	23278											
C2orf56	55471	broad.mit.edu	37	chr2	37459358	37459358	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaaaataaagtctactggTcccatcactgtggccgagta	13	10	8	10	1	2	0	1	0	1	0	3	1	3	0	2	2	2	1	2	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:37459358T>A	uc002rqa.3	+	2	240	c.165T>A	c.(163-165)GGT>GGA	p.G55G	CEBPZ_uc002rpz.2_5'Flank|C2orf56_uc010ynj.1_RNA|C2orf56_uc002rqc.3_Silent_p.G55G|C2orf56_uc010ynk.1_Silent_p.G55G|C2orf56_uc010ynl.1_Silent_p.G55G	NM_144736	NP_653337	Q7L592	MIDA_HUMAN	hypothetical protein LOC55471 isoform 1	55					mitochondrial respiratory chain complex I assembly	mitochondrion	enzyme binding|methyltransferase activity			central_nervous_system(1)	1		all_hematologic(82;0.21)				AGTCTACTGGTCCCATCACTG	0.522													6	98					0	0	1	0	0		A	37459358	A	A	37459358	2	1	27	1	0	0	0	0	0	0	0	1	2180	1654	58	5		5	C2orf56	2	37459358	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4499	37459358	205740015	928	23279											
C2orf56	55471	broad.mit.edu	37	chr2	37474636	37474636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcttcatgatgtcttaattgCcccaggaacagcagatctaa	12	11	8	10	0	3	2	1	1	2	1	3	3	3	3	2	1	3	2	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:37474636C>T	uc002rqa.3	+	9	1049	c.974C>T	c.(973-975)GCC>GTC	p.A325V	C2orf56_uc010ynj.1_RNA|C2orf56_uc002rqc.3_Missense_Mutation_p.A227V|C2orf56_uc010ynk.1_Missense_Mutation_p.A254V|C2orf56_uc010ynl.1_Missense_Mutation_p.A298V|C2orf56_uc010fah.2_RNA	NM_144736	NP_653337	Q7L592	MIDA_HUMAN	hypothetical protein LOC55471 isoform 1	325					mitochondrial respiratory chain complex I assembly	mitochondrion	enzyme binding|methyltransferase activity			central_nervous_system(1)	1		all_hematologic(82;0.21)				GTCTTAATTGCCCCAGGAACA	0.403													9	74					0	0	1	0	0		T	37474636	T	T	37474636	3	4	27	1	0	0	0	0	1	0	0	0	2180	739	26	2	1008	2	C2orf56	2	37474636	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15278	37474636	205724737	929	23280											
CDC42EP3	10602	broad.mit.edu	37	chr2	37873127	37873127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggatggtcaaacatgtcctCggctggccagtcggggtact	7	9	15	10	2	1	0	1	0	0	0	4	1	2	1	2	6	2	2	2	6	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:37873127C>T	uc002rqi.1	-	2	1597	c.604G>A	c.(604-606)GAG>AAG	p.E202K		NM_006449	NP_006440	Q9UKI2	BORG2_HUMAN	Cdc42 effector protein 3	202					regulation of cell shape|signal transduction	actin cytoskeleton|cytoplasm|endomembrane system|membrane	cytoskeletal regulatory protein binding				0		all_hematologic(82;0.172)				AACATGTCCTCGGCTGGCCAG	0.592													17	43					0	0	1	0	0		T	37873127	T	T	37873127	3	4	27	1	0	0	0	0	1	0	0	0	3080	893	31	1	164	1	CDC42EP3	2	37873127	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	398491	37873127	205326246	930	23281											
SFRS7	6432	broad.mit.edu	37	chr2	38975244	38975244	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcttctgagtgaagctgAtcttgatctacgaagagaga	13	11	11	6	1	4	7	0	4	4	3	4	9	4	7	0	0	2	1	0	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:38975244A>T	uc002rqz.2	-	5	755	c.517T>A	c.(517-519)TCA>ACA	p.S173T	SFRS7_uc002rra.2_RNA|SFRS7_uc010ynp.1_Missense_Mutation_p.S173T	NM_001031684	NP_001026854	Q16629	SRSF7_HUMAN	splicing factor, arginine/serine-rich 7	173	3.|6 X 8 AA repeats of R-R-S-R-S-X-S-X.|Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding|zinc ion binding				0		all_hematologic(82;0.248)				AGTGAAGCTGATCTTGATCTA	0.363													5	57					0	0	1	0	0		T	38975244	T	T	38975244	3	4	27	1	0	0	0	0	1	0	0	0	14207	333	12	5	215	5	SFRS7	2	38975244	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1102117	38975244	204224129	931	23282											
DHX57	90957	broad.mit.edu	37	chr2	39083499	39083499	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacccagtcataccacttatGacaaccacctggtgcttacg	11	10	6	14	1	1	1	1	1	0	0	1	1	1	1	4	1	5	1	4	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:39083499G>A	uc002rrf.2	-	7	1791	c.1692C>T	c.(1690-1692)GTC>GTT	p.V564V	DHX57_uc002rrd.3_5'Flank|DHX57_uc002rre.2_5'UTR|DHX57_uc002rrg.2_Silent_p.V564V	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	564	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				TACCACTTATGACAACCACCT	0.408													10	71					0	0	1	0	0		A	39083499	A	A	39083499	2	1	27	1	0	0	0	0	0	0	0	1	4519	1277	45	4		4	DHX57	2	39083499	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	108255	39083499	204115874	932	23283											
SOS1	6654	broad.mit.edu	37	chr2	39222407	39222407	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgtttcactttcagggAtcctactataactaattttc	9	19	4	9	0	3	0	2	0	1	0	5	1	4	1	1	1	2	1	1	1	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:39222407A>T	uc002rrk.3	-	20	3244	c.3203T>A	c.(3202-3204)ATC>AAC	p.I1068N	SOS1_uc002rrj.3_Missense_Mutation_p.I682N	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	1068					apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				ACTTTCAGGGATCCTACTATA	0.478									Noonan_syndrome				7	105					0	0	1	0	0		T	39222407	T	T	39222407	3	4	27	1	0	0	0	0	1	0	0	0	14961	333	12	5	814	5	SOS1	2	39222407	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	138908	39222407	203976966	933	23284											
MAP4K3	8491	broad.mit.edu	37	chr2	39481646	39481646	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttccagaaagctagcacaCtgtcttgtaggcacactagc	11	10	9	11	0	1	1	0	0	1	1	2	1	2	1	1	1	3	5	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:39481646C>A	uc002rro.2	-	32	2577	c.2486G>T	c.(2485-2487)AGT>ATT	p.S829I	MAP4K3_uc002rrp.2_Missense_Mutation_p.S808I|MAP4K3_uc010yns.1_Missense_Mutation_p.S382I	NM_003618	NP_003609	Q8IVH8	M4K3_HUMAN	mitogen-activated protein kinase kinase kinase	829	CNH.				JNK cascade		ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(3)|lung(3)|stomach(1)|pancreas(1)	8		all_hematologic(82;0.211)				AGCTAGCACACTGTCTTGTAG	0.363													5	63					0.000602214	0.000630257	1	1	0		A	39481646	A	A	39481646	3	1	27	1	0	0	0	0	1	0	0	0	9279	565	20	5	210	5	MAP4K3	2	39481646	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	259239	39481646	203717727	934	23285											
EML4	27436	broad.mit.edu	37	chr2	42522632	42522632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggagcaaaactactgtagagCccacacctgggaaaggacct	14	5	11	11	0	0	1	0	0	0	1	0	4	0	4	3	3	4	2	3	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:42522632C>T	uc002rsi.2	+	13	1727	c.1465C>T	c.(1465-1467)CCC>TCC	p.P489S	EML4_uc010fap.2_Missense_Mutation_p.P431S|EML4_uc002rsj.2_Missense_Mutation_p.P178S	NM_019063	NP_061936	Q9HC35	EMAL4_HUMAN	echinoderm microtubule associated protein like 4	489	WD 4.				microtubule-based process|mitosis	cytoplasm|microtubule	protein binding		EML4/ALK(246)	lung(246)|ovary(2)|central_nervous_system(1)|skin(1)	250						TACTGTAGAGCCCACACCTGG	0.418			T	ALK	NSCLC								5	54					0	0	1	0	0		T	42522632	T	T	42522632	3	4	27	1	0	0	0	0	1	0	0	0	5107	739	26	2	1515	2	EML4	2	42522632	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3040986	42522632	200676741	935	23286											
KCNG3	170850	broad.mit.edu	37	chr2	42671387	42671387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgcactaaagattgccatgGcaacacaaatgaagacaagt	17	7	9	8	0	0	3	0	1	0	2	0	3	0	3	1	1	3	2	1	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:42671387G>A	uc002rsn.2	-	2	1594	c.998C>T	c.(997-999)GCC>GTC	p.A333V	KCNG3_uc002rsm.2_Missense_Mutation_p.A322V	NM_133329	NP_579875	Q8TAE7	KCNG3_HUMAN	potassium voltage-gated channel, subfamily G,	333	Helical; Name=Segment S5; (Potential).					endoplasmic reticulum|voltage-gated potassium channel complex	protein binding			central_nervous_system(1)	1						GATTGCCATGGCAACACAAAT	0.468													14	35					0	0	1	0	0		A	42671387	A	A	42671387	3	1	27	1	0	0	0	0	1	0	0	0	8045	1203	42	2	316	2	KCNG3	2	42671387	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	148755	42671387	200527986	936	23287											
HAAO	23498	broad.mit.edu	37	chr2	43015741	43015741	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatgactttgagctgctcCtggtgcctgcaatgcgcaaa	10	10	10	11	1	0	2	0	2	0	0	1	2	1	2	2	1	6	4	2	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:43015741C>T	uc002rst.3	-	2	162	c.87G>A	c.(85-87)CAG>CAA	p.Q29Q	HAAO_uc010ynw.1_Silent_p.Q29Q	NM_012205	NP_036337	P46952	3HAO_HUMAN	3-hydroxyanthranilate 3,4-dioxygenase	29	Domain A (catalytic) (By similarity).				neuron homeostasis|pyridine nucleotide biosynthetic process|quinolinate biosynthetic process|response to cadmium ion|response to zinc ion|tryptophan catabolic process	cytosol|soluble fraction	3-hydroxyanthranilate 3,4-dioxygenase activity|electron carrier activity|ferrous iron binding			ovary(1)	1						TGAGCTGCTCCTGGTGCCTGC	0.577													8	83					0	0	1	0	0		T	43015741	T	T	43015741	2	4	27	1	0	0	0	0	0	0	0	1	6953	680	24	4		4	HAAO	2	43015741	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	344354	43015741	200183632	937	23288											
DYNC2LI1	51626	broad.mit.edu	37	chr2	44003961	44003961	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaagctgaagtggaaaaaAggggaattaatggaagtgaa	20	6	13	2	0	0	2	0	2	0	0	0	5	0	5	0	4	1	1	0	4	10	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:44003961A>G	uc002rtk.2	+	2	145	c.49A>G	c.(49-51)AGG>GGG	p.R17G	DYNC2LI1_uc002rth.2_Missense_Mutation_p.R17G|DYNC2LI1_uc002rti.2_Missense_Mutation_p.R17G|DYNC2LI1_uc002rtj.2_Missense_Mutation_p.R17G|DYNC2LI1_uc002rtl.2_Missense_Mutation_p.R17G|DYNC2LI1_uc010ynz.1_5'UTR	NM_016008	NP_057092	Q8TCX1	DC2L1_HUMAN	dynein 2 light intermediate chain isoform 1	17						apical part of cell|axonemal dynein complex|cilium axoneme|cytoplasm|microtubule|motile primary cilium	motor activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				AGTGGAAAAAAGGGGAATTAA	0.323													6	66					0	0	1	0	0		G	44003961	G	G	44003961	3	3	27	1	0	0	0	0	1	0	0	0	4853	63	3	3	55	3	DYNC2LI1	2	44003961	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	988220	44003961	199195412	938	23289											
ABCG8	64241	broad.mit.edu	37	chr2	44104732	44104732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttccaaagtgtccttcctgCggtggtgttttgaagggctg	5	15	13	8	1	0	1	0	1	0	0	3	1	3	1	3	3	1	2	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:44104732C>T	uc002rtq.2	+	12	1879	c.1789C>T	c.(1789-1791)CGG>TGG	p.R597W	ABCG8_uc010yoa.1_Missense_Mutation_p.R596W	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	597	ABC transmembrane type-2.|Extracellular (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GTCCTTCCTGCGGTGGTGTTT	0.498											OREG0014582	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	94					0	0	1	0	0		T	44104732	T	T	44104732	3	4	27	1	0	0	0	0	1	0	0	0	72	759	27	1	1835	1	ABCG8	2	44104732	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	100771	44104732	199094641	939	23290											
PPM1B	5495	broad.mit.edu	37	chr2	44436458	44436458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggataagcacttggaatcacGggttgaaggtaagacaaatg	15	8	13	5	1	1	2	1	1	0	1	1	4	1	4	0	4	1	3	0	4	5	4	rs74261788		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:44436458G>A	uc002rtt.2	+	3	1384	c.956G>A	c.(955-957)CGG>CAG	p.R319Q	PPM1B_uc002rts.2_Missense_Mutation_p.R319Q|PPM1B_uc002rtu.2_Missense_Mutation_p.R319Q|PPM1B_uc002rtv.2_Missense_Mutation_p.R32Q|PPM1B_uc002rtw.2_Missense_Mutation_p.R319Q|PPM1B_uc002rtx.2_Missense_Mutation_p.R319Q	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	319					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TTGGAATCACGGGTTGAAGGT	0.254													11	51					0	0	1	0	0		A	44436458	A	A	44436458	3	1	27	1	0	0	0	0	1	0	0	0	12358	1116	39	1	962	1	PPM1B	2	44436458	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	331726	44436458	198762915	940	23291											
PPM1B	5495	broad.mit.edu	37	chr2	44445160	44445160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatcttgcccatgtcatgcGcatcttgtctgcagaaaata	10	13	8	10	1	4	2	1	1	3	1	4	2	4	2	1	0	3	2	1	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:44445160G>A	uc002rtt.2	+	4	1447	c.1019G>A	c.(1018-1020)CGC>CAC	p.R340H	PPM1B_uc002rtu.2_Missense_Mutation_p.R340H|PPM1B_uc002rtv.2_Missense_Mutation_p.R53H|PPM1B_uc002rtw.2_Missense_Mutation_p.R340H|PPM1B_uc002rtx.2_Missense_Mutation_p.R340H	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	340					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CATGTCATGCGCATCTTGTCT	0.403													11	120					0	0	1	0	0		A	44445160	A	A	44445160	3	1	27	1	0	0	0	0	1	0	0	0	12358	1087	38	1	1049	1	PPM1B	2	44445160	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8702	44445160	198754213	941	23292											
SLC3A1	6519	broad.mit.edu	37	chr2	44539794	44539794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtcaacgtgatgaacatgCttcttttcacactccctgga	10	13	7	11	1	3	2	2	2	1	0	4	3	4	3	1	1	3	1	1	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:44539794C>T	uc002ruc.3	+	8	1480	c.1402C>T	c.(1402-1404)CTT>TTT	p.L468F	SLC3A1_uc002rtz.2_Missense_Mutation_p.L468F|SLC3A1_uc002rua.2_Missense_Mutation_p.L468F|SLC3A1_uc002rub.2_Missense_Mutation_p.L468F|SLC3A1_uc002rud.3_Missense_Mutation_p.L190F|SLC3A1_uc002rue.3_Missense_Mutation_p.L88F	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	468	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	GATGAACATGCTTCTTTTCAC	0.408													4	66					0	0	1	0	0		T	44539794	T	T	44539794	3	4	27	1	0	0	0	0	1	0	0	0	14651	797	28	2	1432	2	SLC3A1	2	44539794	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	94634	44539794	198659579	942	23293											
C2orf34	79823	broad.mit.edu	37	chr2	44599930	44599930	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaatcatttaatctgtttTcagtaacagaaggcaaagaa	16	13	7	5	0	3	3	2	1	1	2	3	3	3	3	0	1	1	3	0	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:44599930T>C	uc002rum.2	+	2	318	c.214T>C	c.(214-216)TCA>CCA	p.S72P	C2orf34_uc002rul.2_Missense_Mutation_p.S72P	NM_024766	NP_079042	Q7Z624	CMKMT_HUMAN	hypothetical protein LOC79823	72						cytoplasm	calmodulin-lysine N-methyltransferase activity				0		all_hematologic(82;0.0892)|Acute lymphoblastic leukemia(82;0.17)				TAATCTGTTTTCAGTAACAGA	0.383													3	56					0	0	1	0	0		C	44599930	C	C	44599930	3	2	27	1	0	0	0	0	1	0	0	0	2166	1783	62	3	220	3	C2orf34	2	44599930	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	60136	44599930	198599443	943	23294											
EPAS1	2034	broad.mit.edu	37	chr2	46605883	46605883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttcgccatggacacagagGccaaggaccaatgcagtacc	12	6	10	13	1	1	1	0	0	1	1	2	3	1	3	4	3	2	2	4	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:46605883G>A	uc002ruv.2	+	11	2019	c.1531G>A	c.(1531-1533)GCC>ACC	p.A511T	EPAS1_uc002ruw.2_5'Flank	NM_001430	NP_001421	Q99814	EPAS1_HUMAN	endothelial PAS domain protein 1	511	NTAD.				angiogenesis|myoblast cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|response to hypoxia	transcription factor complex	histone acetyltransferase binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription coactivator activity|transcription factor binding			ovary(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	LUSC - Lung squamous cell carcinoma(58;0.151)			GGACACAGAGGCCAAGGACCA	0.512													6	66					0	0	1	0	0		A	46605883	A	A	46605883	3	1	27	1	0	0	0	0	1	0	0	0	5158	1203	42	2	1573	2	EPAS1	2	46605883	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2005953	46605883	196593490	944	23295											
CALM2	805	broad.mit.edu	37	chr2	47389439	47389439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgtaccttatcaaacacacGgaatgcttctctaatttctt	12	14	4	11	2	3	0	1	0	2	0	4	1	3	1	1	1	3	2	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:47389439G>A	uc002rvt.2	-	4	429	c.271C>T	c.(271-273)CGT>TGT	p.R91C	C2orf61_uc010fbd.2_Intron|CALM2_uc010fbe.2_Intron	NM_001743	NP_001734	P62158	CALM_HUMAN	calmodulin 2	91	EF-hand 3.				activation of phospholipase C activity|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen catabolic process|muscle contraction|negative regulation of ryanodine-sensitive calcium-release channel activity|nerve growth factor receptor signaling pathway|nitric oxide metabolic process|platelet activation|platelet degranulation|positive regulation of ryanodine-sensitive calcium-release channel activity|regulation of cytokinesis|regulation of nitric-oxide synthase activity|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to calcium ion|synaptic transmission	centrosome|cytosol|extracellular region|nucleoplasm|plasma membrane|spindle microtubule|spindle pole	calcium ion binding|N-terminal myristoylation domain binding|phospholipase binding|protein domain specific binding|thioesterase binding|titin binding	p.0?(2)			0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)		Aprindine(DB01429)|Bepridil(DB01244)|Dibucaine(DB00527)|Felodipine(DB01023)|Flunarizine(DB04841)|Fluphenazine(DB00623)|Isoflurane(DB00753)|Loperamide(DB00836)|Miconazole(DB01110)|Perphenazine(DB00850)|Phenoxybenzamine(DB00925)|Pimozide(DB01100)|Promethazine(DB01069)	TCAAACACACGGAATGCTTCT	0.348													6	48					0	0	1	0	0		A	47389439	A	A	47389439	3	1	27	1	0	0	0	0	1	0	0	0	2588	1116	39	1	190	1	CALM2	2	47389439	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	783556	47389439	195809934	945	23296											
FBXO11	80204	broad.mit.edu	37	chr2	48045997	48045997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccattgtcataaaaataaaCaccaacctaaaatttaaaaa	22	10	1	8	0	1	0	1	0	0	0	2	0	2	0	3	0	2	0	3	0	11	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:48045997C>T	uc010fbl.2	-	16	1789	c.1675G>A	c.(1675-1677)GTT>ATT	p.V559I	FBXO11_uc002rwe.2_Missense_Mutation_p.V559I|FBXO11_uc002rwf.2_Missense_Mutation_p.V559I|FBXO11_uc002rwg.1_Missense_Mutation_p.V559I|FBXO11_uc010fbk.2_Missense_Mutation_p.V67I	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	643	PbH1 11.				ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TAAAAATAAACACCAACCtaa	0.318													14	117					0	0	1	0	0		T	48045997	T	T	48045997	3	4	27	1	0	0	0	0	1	0	0	0	5741	478	17	4	978	4	FBXO11	2	48045997	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	656558	48045997	195153376	946	23297											
FBXO11	80204	broad.mit.edu	37	chr2	48049367	48049367	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacgcttaccataaatgtcAtttccttcaataaggcctcg	12	13	5	11	2	2	0	2	0	0	0	4	0	3	0	3	1	2	1	3	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:48049367A>G	uc010fbl.2	-	13	1554	c.1440T>C	c.(1438-1440)AAT>AAC	p.N480N	FBXO11_uc002rwe.2_Silent_p.N480N|FBXO11_uc002rwf.2_Silent_p.N480N|FBXO11_uc002rwg.1_Silent_p.N480N|FBXO11_uc010fbk.2_Missense_Mutation_p.M20T	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	564	PbH1 8.				ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CATAAATGTCATTTCCTTCAA	0.308													4	59					0	0	1	0	0		G	48049367	G	G	48049367	2	3	27	1	0	0	0	0	0	0	0	1	5741	214	8	3		3	FBXO11	2	48049367	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3370	48049367	195150006	947	23298											
FBXO11	80204	broad.mit.edu	37	chr2	48063100	48063100	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaggttcaggatgcatcaTagggcgagtatattcaaata	13	11	10	7	1	3	0	3	0	0	0	4	2	4	1	1	3	1	3	1	3	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:48063100T>C	uc010fbl.2	-	5	490	c.376A>G	c.(376-378)ATG>GTG	p.M126V	FBXO11_uc002rwe.2_Missense_Mutation_p.M126V|FBXO11_uc002rwf.2_Missense_Mutation_p.M126V|FBXO11_uc002rwg.1_Missense_Mutation_p.M126V	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	210					ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GGATGCATCATAGGGCGAGTA	0.333													4	52					0	0	1	0	0		C	48063100	C	C	48063100	3	2	27	1	0	0	0	0	1	0	0	0	5741	1406	49	3	2321	3	FBXO11	2	48063100	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	13733	48063100	195136273	948	23299											
FBXO11	80204	broad.mit.edu	37	chr2	48066614	48066614	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttttgcacgatgaccaaagTtttctgtagttgaagttgag	10	15	11	5	1	1	3	0	3	1	0	1	4	1	3	1	0	1	6	1	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:48066614T>C	uc010fbl.2	-	3	248	c.134A>G	c.(133-135)AAC>AGC	p.N45S	FBXO11_uc002rwe.2_Missense_Mutation_p.N45S|FBXO11_uc002rwf.2_Missense_Mutation_p.N45S|FBXO11_uc002rwg.1_Missense_Mutation_p.N45S	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	129					ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ATGACCAAAGTTTTCTGTAGT	0.338													6	89					0	0	1	0	0		C	48066614	C	C	48066614	3	2	27	1	0	0	0	0	1	0	0	0	5741	1725	60	3	2571	3	FBXO11	2	48066614	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3514	48066614	195132759	949	23300											
KLRAQ1	129285	broad.mit.edu	37	chr2	48681829	48681829	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcttgccaagagggtagaActacttcaagatgaactagc	14	8	10	9	0	1	4	1	1	0	3	1	4	1	4	1	1	6	2	1	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:48681829A>T	uc002rwm.2	+	3	407	c.222A>T	c.(220-222)GAA>GAT	p.E74D	KLRAQ1_uc002rwi.1_Missense_Mutation_p.E74D|KLRAQ1_uc002rwj.2_Missense_Mutation_p.E74D|KLRAQ1_uc002rwl.2_Missense_Mutation_p.E28D|KLRAQ1_uc002rwk.2_Missense_Mutation_p.E74D|KLRAQ1_uc010yok.1_Missense_Mutation_p.E74D	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	74	Potential.									ovary(1)	1						AGAGGGTAGAACTACTTCAAG	0.403													7	60					0	0	1	0	0		T	48681829	T	T	48681829	3	4	27	1	0	0	0	0	1	0	0	0	8429	40	2	5	232	5	KLRAQ1	2	48681829	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	615215	48681829	194517544	950	23301											
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48808804	48808804	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcagtgtagcaggaaaaatCcacactgtgaagattgaaca	16	9	9	7	0	1	3	1	2	0	1	2	4	2	4	1	1	2	2	1	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:48808804C>T	uc010yol.1	+	1	1079	c.1032C>T	c.(1030-1032)ATC>ATT	p.I344I	STON1_uc002rwo.3_Silent_p.I344I|STON1_uc010fbm.2_Silent_p.I344I|STON1-GTF2A1L_uc002rwp.1_Silent_p.I344I|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Silent_p.I344I	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	344					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CAGGAAAAATCCACACTGTGA	0.378													26	75					0	0	1	0	0		T	48808804	T	T	48808804	2	4	27	1	0	0	0	0	0	0	0	1	15342	845	30	4		4	STON1-GTF2A1L	2	48808804	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	126975	48808804	194390569	951	23302											
LHCGR	3973	broad.mit.edu	37	chr2	48925821	48925821	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgtggcctccaggagatTgacaaatgtttctcttgatg	10	12	10	9	1	1	3	0	2	1	1	3	4	2	3	2	2	1	1	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:48925821T>C	uc002rwu.3	-	9	869	c.799A>G	c.(799-801)AAT>GAT	p.N267D	GTF2A1L_uc002rwt.2_Intron|LHCGR_uc002rwv.2_RNA	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	267	Extracellular (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	TCCAGGAGATTGACAAATGTT	0.453									Familial_Male-Limited_Precocious_Puberty				4	75					0	0	1	0	0		C	48925821	C	C	48925821	3	2	27	1	0	0	0	0	1	0	0	0	8778	1812	63	3	1312	3	LHCGR	2	48925821	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	117017	48925821	194273552	952	23303											
NRXN1	9378	broad.mit.edu	37	chr2	50850688	50850688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atcactgctgctttgaatggGgttttgagacaagtcgtagc	9	13	12	7	1	1	2	1	2	0	1	2	3	1	2	0	2	3	4	0	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:50850688G>A	uc010fbq.2	-	6	2474	c.997C>T	c.(997-999)CCC>TCC	p.P333S	NRXN1_uc002rxb.3_5'UTR|NRXN1_uc002rxe.3_Missense_Mutation_p.P300S|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CTTTGAATGGGGTTTTGAGAC	0.383													6	106					0	0	1	0	0		A	50850688	A	A	50850688	3	1	27	1	0	0	0	0	1	0	0	0	10684	1232	43	4	3981	4	NRXN1	2	50850688	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1924867	50850688	192348685	953	23304											
NRXN1	9378	broad.mit.edu	37	chr2	51255150	51255150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagctgagctgcaggcGgccgccgcgcgtcagaatca	9	4	16	12	5	2	3	2	1	0	2	2	4	2	3	2	3	3	3	2	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:51255150G>A	uc010fbq.2	-	2	1739	c.262C>T	c.(262-264)CGC>TGC	p.R88C	NRXN1_uc002rxe.3_Missense_Mutation_p.R88C|NRXN1_uc002rxd.1_Missense_Mutation_p.R88C	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			AGCTGCAGGCGGCCGCCGCGC	0.677													4	33					0	0	1	0	0		A	51255150	A	A	51255150	3	1	27	1	0	0	0	0	1	0	0	0	10684	1116	39	1	4736	1	NRXN1	2	51255150	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	404462	51255150	191944223	954	23305											
ASB3	51130	broad.mit.edu	37	chr2	53956630	53956630	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaaggagttccatccacAcatagaatgggatccattaa	14	9	9	9	0	0	1	0	0	0	1	3	3	3	3	3	2	1	2	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:53956630A>G	uc002rxg.1	-	4	568	c.433T>C	c.(433-435)TGT>CGT	p.C145R	ASB3_uc002rxh.1_Missense_Mutation_p.C72R|ASB3_uc002rxi.3_Missense_Mutation_p.C183R|ASB3_uc010yoo.1_Intron	NM_016115	NP_057199	Q9Y575	ASB3_HUMAN	ankyrin repeat and SOCS box-containing protein 3	145	ANK 5.				intracellular signal transduction					ovary(1)|kidney(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TTCCATCCACACATAGAATGG	0.373													8	98					0	0	1	0	0		G	53956630	G	G	53956630	3	3	27	1	0	0	0	0	1	0	0	0	1025	159	6	3	1151	3	ASB3	2	53956630	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2701480	53956630	189242743	955	23306											
ERLEC1	27248	broad.mit.edu	37	chr2	54028595	54028595	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcctgtgggaatgggaaatgGtacaccttgtagtttgaaac	11	12	12	6	0	0	1	0	1	0	0	1	3	1	3	2	3	2	3	2	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:54028595G>A	uc002rxl.2	+	7	867	c.587G>A	c.(586-588)GGT>GAT	p.G196D	ASB3_uc002rxi.3_Intron|ERLEC1_uc002rxm.2_Missense_Mutation_p.G196D|ERLEC1_uc002rxn.2_Missense_Mutation_p.G196D	NM_015701	NP_056516	Q96DZ1	ERLEC_HUMAN	erlectin isoform 1	196					ER-associated protein catabolic process	endoplasmic reticulum lumen	glycoprotein binding|protein binding			ovary(2)	2						ATGGGAAATGGTACACCTTGT	0.373													5	74					0	0	1	0	0		A	54028595	A	A	54028595	3	1	27	1	0	0	0	0	1	0	0	0	5239	1261	44	4	613	4	ERLEC1	2	54028595	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	71965	54028595	189170778	956	23307											
GPR75	10936	broad.mit.edu	37	chr2	54080358	54080358	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtgataatgcatggcaatAtatgaattggcaaatccaaa	16	11	9	5	0	0	2	0	2	0	0	1	2	1	2	1	2	1	3	1	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:54080358A>G	uc002rxo.3	-	2	1807	c.1536T>C	c.(1534-1536)TAT>TAC	p.Y512Y	ASB3_uc002rxi.3_Intron	NM_006794	NP_006785	O95800	GPR75_HUMAN	G protein-coupled receptor 75	512	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|skin(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			GCATGGCAATATATGAATTGG	0.448													7	168					0	0	1	0	0		G	54080358	G	G	54080358	2	3	27	1	0	0	0	0	0	0	0	1	6723	456	16	3		3	GPR75	2	54080358	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	51763	54080358	189119015	957	23308											
PSME4	23198	broad.mit.edu	37	chr2	54117289	54117289	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcattataagtttctacggtAatattggacagtgctgttct	10	17	8	6	1	3	0	1	0	2	0	3	1	3	1	0	2	2	4	0	2	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:54117289A>T	uc002rxp.2	-	37	4304	c.4248T>A	c.(4246-4248)ATT>ATA	p.I1416I	PSME4_uc010yop.1_Silent_p.I1302I|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Silent_p.I791I|PSME4_uc010fbv.1_Silent_p.I560I|PSME4_uc010fbt.1_5'Flank	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	1416					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TTTCTACGGTAATATTGGACA	0.393													12	142					0	0	1	0	0		T	54117289	T	T	54117289	2	4	27	1	0	0	0	0	0	0	0	1	12731	358	13	5		5	PSME4	2	54117289	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	36931	54117289	189082084	958	23309											
PSME4	23198	broad.mit.edu	37	chr2	54163234	54163234	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttaattacctttggtacaTatggatcccaatctatgtac	11	16	6	8	0	1	0	0	0	1	0	2	1	2	1	2	2	3	3	2	2	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:54163234T>A	uc002rxp.2	-	7	880	c.824A>T	c.(823-825)TAT>TTT	p.Y275F	PSME4_uc010yop.1_Missense_Mutation_p.Y161F|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_5'UTR|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	275					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			CTTTGGTACATATGGATCCCA	0.209													17	135					0	0	1	0	0		A	54163234	A	A	54163234	3	1	27	1	0	0	0	0	1	0	0	0	12731	1406	49	5	4867	5	PSME4	2	54163234	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	45945	54163234	189036139	959	23310											
TSPYL6	388951	broad.mit.edu	37	chr2	54482364	54482364	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcatacacctttacaaTcagcttgtttctgaagtaag	12	13	6	10	0	3	1	2	1	1	0	3	2	3	1	2	0	3	3	2	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:54482364T>A	uc002rxr.2	-	1	1046	c.925A>T	c.(925-927)ATT>TTT	p.I309F	ACYP2_uc002rxq.3_Intron	NM_001003937	NP_001003937	Q8N831	TSYL6_HUMAN	TSPY-like 6	309					nucleosome assembly	nucleus					0						ACCTTTACAATCAGCTTGTTT	0.463													5	94					0	0	1	0	0		A	54482364	A	A	54482364	3	1	27	1	0	0	0	0	1	0	0	0	16689	1435	50	5	311	5	TSPYL6	2	54482364	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	319130	54482364	188717009	960	23311											
TSPYL6	388951	broad.mit.edu	37	chr2	54482753	54482753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgtttacctcatctattGctctgttttcttccgccacg	4	17	5	15	2	4	0	1	0	3	0	5	0	5	0	4	0	2	3	4	0	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:54482753G>A	uc002rxr.2	-	1	657	c.536C>T	c.(535-537)GCA>GTA	p.A179V	ACYP2_uc002rxq.3_Intron	NM_001003937	NP_001003937	Q8N831	TSYL6_HUMAN	TSPY-like 6	179					nucleosome assembly	nucleus					0						CTCATCTATTGCTCTGTTTTC	0.612													5	73					0	0	1	0	0		A	54482753	A	A	54482753	3	1	27	1	0	0	0	0	1	0	0	0	16689	1319	46	2	700	2	TSPYL6	2	54482753	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	389	54482753	188716620	961	23312											
CCDC88A	55704	broad.mit.edu	37	chr2	55561385	55561385	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttccaaatttccaatctTcacattattttcttctaatg	10	21	1	9	0	4	0	1	0	3	0	6	0	6	0	2	0	0	0	2	0	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:55561385T>A	uc002ryv.2	-	15	3414	c.2572A>T	c.(2572-2574)AAG>TAG	p.K858*	CCDC88A_uc010yoz.1_Nonsense_Mutation_p.K858*|CCDC88A_uc010ypa.1_Nonsense_Mutation_p.K858*|CCDC88A_uc010ypb.1_Nonsense_Mutation_p.K760*|CCDC88A_uc002ryu.2_Nonsense_Mutation_p.K141*|CCDC88A_uc002ryw.2_Nonsense_Mutation_p.K141*	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	858	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						TTTCCAATCTTCACATTATTT	0.303													10	77					0	0	1	0	0		A	55561385	A	A	55561385	4	1	27	1	0	0	0	0	0	1	0	0	2866	1792	62	5	3115	5	CCDC88A	2	55561385	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1078632	55561385	187637988	962	23313											
CCDC104	112942	broad.mit.edu	37	chr2	55756032	55756032	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccattttgcaacctgtgTtggcagcagaagattttact	10	13	10	8	0	0	2	0	0	0	2	0	2	0	2	2	2	4	4	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:55756032T>C	uc002ryy.2	+	4	499	c.301T>C	c.(301-303)TTG>CTG	p.L101L	CCDC104_uc002ryx.2_Silent_p.L126L	NM_080667	NP_542398	Q96G28	CC104_HUMAN	coiled-coil domain containing 104	101										ovary(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			GCAACCTGTGTTGGCAGCAGA	0.358													17	43					0	0	1	0	0		C	55756032	C	C	55756032	2	2	27	1	0	0	0	0	0	0	0	1	2742	1722	60	3		3	CCDC104	2	55756032	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	194647	55756032	187443341	963	23314											
PNPT1	87178	broad.mit.edu	37	chr2	55863427	55863427	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcccattacaatactacttCtgtcattcaaagttctgacc	11	14	3	13	0	4	1	2	1	2	0	5	1	5	1	2	0	3	1	2	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:55863427C>G	uc002rzf.2	-	28	2350	c.2297G>C	c.(2296-2298)AGA>ACA	p.R766T	PNPT1_uc002rzg.2_RNA	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1	766					mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			AATACTACTTCTGTCATTCAA	0.388													5	31					0	0	1	0	0		G	55863427	G	G	55863427	3	3	27	1	0	0	0	0	1	0	0	0	12192	913	32	5	58	5	PNPT1	2	55863427	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	107395	55863427	187335946	964	23315											
EFEMP1	2202	broad.mit.edu	37	chr2	56108868	56108868	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagtgcactcgtctatGtctgtcagagacatgcaaca	10	10	9	12	1	3	1	1	0	2	1	4	2	3	1	1	0	4	3	1	0	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:56108868G>A	uc002rzh.2	-	5	849	c.519C>T	c.(517-519)GAC>GAT	p.D173D	EFEMP1_uc002rzi.2_Silent_p.D173D|EFEMP1_uc002rzj.2_Silent_p.D173D|EFEMP1_uc010ypc.1_Silent_p.D115D	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	173	EGF-like 2; calcium-binding (Potential).				negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			ACTCGTCTATGTCTGTCAGAG	0.423													6	90					0	0	1	0	0		A	56108868	A	A	56108868	2	1	27	1	0	0	0	0	0	0	0	1	4947	1391	48	4		4	EFEMP1	2	56108868	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	245441	56108868	187090505	965	23316											
EFEMP1	2202	broad.mit.edu	37	chr2	56144864	56144864	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggatacggtgggaagggttGgagggaatgcgctgagggtc	8	8	21	4	2	0	1	0	1	0	0	1	5	0	5	0	7	2	2	0	7	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:56144864G>A	uc002rzh.2	-	4	783	c.453C>T	c.(451-453)TCC>TCT	p.S151S	EFEMP1_uc002rzi.2_Silent_p.S151S|EFEMP1_uc002rzj.2_Silent_p.S151S|EFEMP1_uc010ypc.1_Silent_p.S93S	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	151					negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			GGGAAGGGTTGGAGGGAATGC	0.527													7	108					0	0	1	0	0		A	56144864	A	A	56144864	2	1	27	1	0	0	0	0	0	0	0	1	4947	1335	47	4		4	EFEMP1	2	56144864	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	35996	56144864	187054509	966	23317											
FANCL	55120	broad.mit.edu	37	chr2	58386904	58386904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttgtattcttatttcagTgtttccttccagacattttt	7	22	5	7	0	2	1	1	0	1	1	4	1	4	1	2	0	0	3	2	0	2	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:58386904T>C	uc002rzw.3	-	14	1191	c.1124A>G	c.(1123-1125)CAC>CGC	p.H375R	VRK2_uc002rzo.2_3'UTR|VRK2_uc010fcb.2_3'UTR|VRK2_uc002rzs.2_3'UTR|VRK2_uc002rzr.2_3'UTR|VRK2_uc010fcc.2_3'UTR|VRK2_uc002rzv.2_3'UTR|VRK2_uc010fcd.2_3'UTR|VRK2_uc002rzp.2_3'UTR|VRK2_uc010ypg.1_3'UTR|VRK2_uc002rzq.2_3'UTR|VRK2_uc002rzu.2_3'UTR|VRK2_uc002rzt.2_3'UTR|FANCL_uc002rzx.3_Missense_Mutation_p.H380R|FANCL_uc010fce.2_Missense_Mutation_p.H347R	NM_018062	NP_060532	Q9NW38	FANCL_HUMAN	Fanconi anemia, complementation group L isoform	375					DNA repair	cytoplasm|nucleoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CTTATTTCAGTGTTTCCTTCC	0.279								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				10	56					0	0	1	0	0		C	58386904	C	C	58386904	3	2	27	1	0	0	0	0	1	0	0	0	5684	1696	59	3	7	3	FANCL	2	58386904	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2242040	58386904	184812469	967	23318											
FANCL	55120	broad.mit.edu	37	chr2	58392975	58392975	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttagtgattctattgctGccaaaaactgactataaatg	13	14	6	8	0	1	2	0	2	1	0	1	2	1	2	2	0	3	1	2	0	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:58392975G>C	uc002rzw.3	-	8	642	c.575C>G	c.(574-576)GCA>GGA	p.A192G	FANCL_uc002rzx.3_Missense_Mutation_p.A197G|FANCL_uc010fce.2_Missense_Mutation_p.A192G|FANCL_uc010fcf.1_Missense_Mutation_p.A133G	NM_018062	NP_060532	Q9NW38	FANCL_HUMAN	Fanconi anemia, complementation group L isoform	192					DNA repair	cytoplasm|nucleoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TTCTATTGCTGCCAAAAACTG	0.373								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				7	73					0	0	1	0	0		C	58392975	C	C	58392975	3	2	27	1	0	0	0	0	1	0	0	0	5684	1319	46	5	580	5	FANCL	2	58392975	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6071	58392975	184806398	968	23319											
BCL11A	53335	broad.mit.edu	37	chr2	60688080	60688080	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccggcgagccactgcgagTacacgttctccgtgttgggc	6	8	14	13	5	1	0	0	0	1	0	2	2	1	0	3	2	4	3	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:60688080T>C	uc002sae.1	-	4	2195	c.1967A>G	c.(1966-1968)TAC>TGC	p.Y656C	BCL11A_uc002sab.2_Missense_Mutation_p.Y656C|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.Y325C|BCL11A_uc010ypj.1_Missense_Mutation_p.Y622C|BCL11A_uc002sad.1_Missense_Mutation_p.Y504C|BCL11A_uc002saf.1_Missense_Mutation_p.Y622C	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	656					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			CCACTGCGAGTACACGTTCTC	0.632			T	IGH@	B-CLL								3	43					0	0	1	0	0		C	60688080	C	C	60688080	3	2	27	1	0	0	0	0	1	0	0	0	1364	1638	57	3	650	3	BCL11A	2	60688080	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2295105	60688080	182511293	969	23320											
REL	5966	broad.mit.edu	37	chr2	61145339	61145339	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttaggtgctccaaatacTgcagaattaaggatttgtcg	12	14	9	6	1	0	1	0	0	0	1	2	2	1	2	1	2	3	2	1	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:61145339T>C	uc002sam.1	+	6	773	c.549T>C	c.(547-549)ACT>ACC	p.T183T	REL_uc002san.1_Silent_p.T183T	NM_002908	NP_002899	Q04864	REL_HUMAN	v-rel reticuloendotheliosis viral oncogene	183	RHD.				positive regulation of I-kappaB kinase/NF-kappaB cascade	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	all_hematologic(2;0.0797)	Ovarian(717;0.0728)	LUSC - Lung squamous cell carcinoma(5;6.2e-08)|Lung(5;1.65e-06)|Epithelial(17;0.064)|all cancers(80;0.221)			CTCCAAATACTGCAGAATTAA	0.313			A		Hodgkin Lymphoma								7	43					0	0	1	0	0		C	61145339	C	C	61145339	2	2	27	1	0	0	0	0	0	0	0	1	13240	1567	55	3		3	REL	2	61145339	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	457259	61145339	182054034	970	23321											
PUS10	150962	broad.mit.edu	37	chr2	61180224	61180224	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtcttttcttcttcacCttctttcatatgtcctattg	4	23	3	11	0	6	0	2	0	4	0	7	0	7	0	2	0	0	0	2	0	2	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:61180224C>A	uc010fci.2	-	15	1276	c.1216G>T	c.(1216-1218)GGT>TGT	p.G406C	PUS10_uc002sao.2_Missense_Mutation_p.G406C|PUS10_uc010ypk.1_Missense_Mutation_p.G183C	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	406					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)			TCTTCTTCACCTTCTTTCATA	0.318													10	134					4.68919e-08	5.14072e-08	1	1	0		A	61180224	A	A	61180224	3	1	27	1	0	0	0	0	1	0	0	0	12856	681	24	5	389	5	PUS10	2	61180224	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	34885	61180224	182019149	971	23322											
USP34	9736	broad.mit.edu	37	chr2	61475803	61475803	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaactcaaaatgcgaggcaaTttcttaaaacatgccctgag	16	9	7	9	1	2	1	1	1	1	0	2	2	2	1	1	1	4	1	1	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:61475803T>C	uc002sbe.2	-	49	6259	c.6237A>G	c.(6235-6237)AAA>AAG	p.K2079K	USP34_uc002sbf.2_Silent_p.K229K	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2079					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TGCGAGGCAATTTCTTAAAAC	0.303													12	72					0	0	1	0	0		C	61475803	C	C	61475803	2	2	27	1	0	0	0	0	0	0	0	1	17091	1490	52	3		3	USP34	2	61475803	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	295579	61475803	181723570	972	23323											
USP34	9736	broad.mit.edu	37	chr2	61607407	61607407	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagcataatgttgtatccAatggttctttgactgtgctc	10	15	8	8	0	1	1	0	1	1	0	3	1	2	1	1	1	2	5	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:61607407A>T	uc002sbe.2	-	7	933	c.911T>A	c.(910-912)TTG>TAG	p.L304*		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	304					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TGTTGTATCCAATGGTTCTTT	0.398													3	42					0	0	1	0	0		T	61607407	T	T	61607407	4	4	27	1	0	0	0	0	0	1	0	0	17091	131	5	5	10025	5	USP34	2	61607407	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	131604	61607407	181591966	973	23324											
XPO1	7514	broad.mit.edu	37	chr2	61706036	61706036	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttatgtttctcttcatcAgcctgccgtagggctatttc	5	17	8	11	2	3	0	2	0	1	0	5	0	3	0	2	1	2	4	2	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:61706036A>G	uc002sbj.2	-	25	3863	c.3135T>C	c.(3133-3135)GCT>GCC	p.A1045A	XPO1_uc010fcl.2_Silent_p.A1041A|XPO1_uc010ypn.1_Silent_p.A1041A|XPO1_uc002sbk.2_Silent_p.A606A|XPO1_uc002sbg.2_Silent_p.A242A|XPO1_uc002sbh.2_Silent_p.A692A	NM_003400	NP_003391	O14980	XPO1_HUMAN	exportin 1	1045					intracellular protein transport|mitotic prometaphase|mRNA metabolic process|mRNA transport|viral genome transport in host cell|viral infectious cycle	annulate lamellae|Cajal body|cytosol|kinetochore|nuclear envelope|nucleolus|ribonucleoprotein complex	protein binding|protein transporter activity|RNA binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(7;5.71e-05)|Epithelial(17;0.0662)|all cancers(80;0.226)			TCTCTTCATCAGCCTGCCGTA	0.383													6	78					0	0	1	0	0		G	61706036	G	G	61706036	2	3	27	1	0	0	0	0	0	0	0	1	17471	175	7	3		3	XPO1	2	61706036	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	98629	61706036	181493337	974	23325											
XPO1	7514	broad.mit.edu	37	chr2	61719260	61719260	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctccaacctgaacctgaacGaaatgcctgcggcatttttg	10	11	8	12	2	1	2	0	2	1	0	2	3	1	2	4	1	5	1	4	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:61719260G>A	uc002sbj.2	-	16	2525	c.1797C>T	c.(1795-1797)TTC>TTT	p.F599F	XPO1_uc010fcl.2_Silent_p.F595F|XPO1_uc010ypn.1_Silent_p.F595F|XPO1_uc002sbk.2_Silent_p.F160F|XPO1_uc002sbh.2_Silent_p.F246F	NM_003400	NP_003391	O14980	XPO1_HUMAN	exportin 1	599	Necessary for HTLV-1 Rex-mediated mRNA export.				intracellular protein transport|mitotic prometaphase|mRNA metabolic process|mRNA transport|viral genome transport in host cell|viral infectious cycle	annulate lamellae|Cajal body|cytosol|kinetochore|nuclear envelope|nucleolus|ribonucleoprotein complex	protein binding|protein transporter activity|RNA binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(7;5.71e-05)|Epithelial(17;0.0662)|all cancers(80;0.226)			GAACCTGAACGAAATGCCTGC	0.358													5	67					0	0	1	0	0		A	61719260	A	A	61719260	2	1	27	1	0	0	0	0	0	0	0	1	17471	1049	37	1		1	XPO1	2	61719260	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13224	61719260	181480113	975	23326											
XPO1	7514	broad.mit.edu	37	chr2	61719733	61719733	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacaagaaatcgtttttcgTcctcttcatgcattgctcca	10	15	5	11	2	2	1	1	0	1	1	6	1	4	1	2	0	3	3	2	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:61719733T>C	uc002sbj.2	-	14	2263	c.1535A>G	c.(1534-1536)GAC>GGC	p.D512G	XPO1_uc010fcl.2_Missense_Mutation_p.D508G|XPO1_uc010ypn.1_Missense_Mutation_p.D508G|XPO1_uc002sbk.2_Missense_Mutation_p.D73G|XPO1_uc002sbh.2_Missense_Mutation_p.D159G	NM_003400	NP_003391	O14980	XPO1_HUMAN	exportin 1	512	Necessary for HTLV-1 Rex-mediated mRNA export.				intracellular protein transport|mitotic prometaphase|mRNA metabolic process|mRNA transport|viral genome transport in host cell|viral infectious cycle	annulate lamellae|Cajal body|cytosol|kinetochore|nuclear envelope|nucleolus|ribonucleoprotein complex	protein binding|protein transporter activity|RNA binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(7;5.71e-05)|Epithelial(17;0.0662)|all cancers(80;0.226)			TCGTTTTTCGTCCTCTTCATG	0.333													9	63					0	0	1	0	0		C	61719733	C	C	61719733	3	2	27	1	0	0	0	0	1	0	0	0	17471	1667	58	3	1728	3	XPO1	2	61719733	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	473	61719733	181479640	976	23327											
XPO1	7514	broad.mit.edu	37	chr2	61722717	61722717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcttttccatttgagtacGcaagtcgaatattggtattt	10	17	7	7	2	1	1	0	1	1	0	3	2	2	1	1	1	1	3	1	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:61722717G>A	uc002sbj.2	-	11	1648	c.920C>T	c.(919-921)GCG>GTG	p.A307V	XPO1_uc010fcl.2_Missense_Mutation_p.A303V|XPO1_uc010ypn.1_Missense_Mutation_p.A303V|XPO1_uc002sbk.2_5'UTR|XPO1_uc002sbh.2_5'Flank	NM_003400	NP_003391	O14980	XPO1_HUMAN	exportin 1	307	Necessary for HTLV-1 Rex-mediated mRNA export.				intracellular protein transport|mitotic prometaphase|mRNA metabolic process|mRNA transport|viral genome transport in host cell|viral infectious cycle	annulate lamellae|Cajal body|cytosol|kinetochore|nuclear envelope|nucleolus|ribonucleoprotein complex	protein binding|protein transporter activity|RNA binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(7;5.71e-05)|Epithelial(17;0.0662)|all cancers(80;0.226)			ATTTGAGTACGCAAGTCGAAT	0.303													10	43					0	0	1	0	0		A	61722717	A	A	61722717	3	1	27	1	0	0	0	0	1	0	0	0	17471	1087	38	1	2355	1	XPO1	2	61722717	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2984	61722717	181476656	977	23328											
OTX1	5013	broad.mit.edu	37	chr2	63280175	63280175	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcatgaacgggctgggccTggccgggcccgccatggacc	5	4	17	15	4	0	1	0	1	0	0	0	2	0	2	5	6	1	2	5	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:63280175T>G	uc002scd.2	+	3	298	c.50T>G	c.(49-51)CTG>CGG	p.L17R	OTX1_uc010ypt.1_5'UTR	NM_014562	NP_055377	P32242	OTX1_HUMAN	orthodenticle homeobox 1	17						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(2)	2	Lung NSC(7;0.121)|all_lung(7;0.211)					GGGCTGGGCCTGGCCGGGCCC	0.677													13	102					0	0	1	0	0		G	63280175	G	G	63280175	3	3	27	1	0	0	0	0	1	0	0	0	11339	1580	55	5	52	5	OTX1	2	63280175	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1557458	63280175	179919198	978	23329											
C2orf86	51057	broad.mit.edu	37	chr2	63605566	63605566	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcatatttgctgatttgaTctctatattccaatatagtg	10	19	6	6	0	1	2	0	2	1	0	3	2	2	2	1	0	2	2	1	0	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:63605566T>A	uc002sch.2	-	12	2149	c.1703A>T	c.(1702-1704)GAT>GTT	p.D568V	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Missense_Mutation_p.D409V|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Missense_Mutation_p.D376V|C2orf86_uc002sci.1_Missense_Mutation_p.D544V	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	568					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						GCTGATTTGATCTCTATATTC	0.398													4	81					0	0	1	0	0		A	63605566	A	A	63605566	3	1	27	1	0	0	0	0	1	0	0	0	2204	1435	50	5	565	5	C2orf86	2	63605566	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	325391	63605566	179593807	979	23330											
C2orf86	51057	broad.mit.edu	37	chr2	63712103	63712103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcgtctgtttttgagcGtccaaggataatctcgtgct	6	14	12	9	3	2	1	0	1	2	0	4	2	3	2	1	2	2	2	1	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:63712103G>A	uc002sch.2	-	5	718	c.272C>T	c.(271-273)ACG>ATG	p.T91M	C2orf86_uc002sci.1_Missense_Mutation_p.T67M|C2orf86_uc010fcr.1_5'Flank	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	91					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						GTTTTTGAGCGTCCAAGGATA	0.373													4	54					0	0	1	0	0		A	63712103	A	A	63712103	3	1	27	1	0	0	0	0	1	0	0	0	2204	1145	40	1	2050	1	C2orf86	2	63712103	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	106537	63712103	179487270	980	23331											
UGP2	7360	broad.mit.edu	37	chr2	64114742	64114742	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagcgggaatttcctacAgtgcccttggttaaattagg	12	11	11	7	1	0	0	0	0	0	0	1	2	1	1	2	3	3	1	2	3	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:64114742A>G	uc002scm.2	+	8	1584	c.1278A>G	c.(1276-1278)ACA>ACG	p.T426T	UGP2_uc002scl.2_Silent_p.T415T|UGP2_uc010ypx.1_Silent_p.T435T	NM_006759	NP_006750	Q16851	UGPA_HUMAN	UDP-glucose pyrophosphorylase 2 isoform a	426					glycogen biosynthetic process|phosphorylation|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	metal ion binding|protein binding|UTP:glucose-1-phosphate uridylyltransferase activity				0						AATTTCCTACAGTGCCCTTGG	0.358													13	143					0	0	1	0	0		G	64114742	G	G	64114742	2	3	27	1	0	0	0	0	0	0	0	1	16969	175	7	3		3	UGP2	2	64114742	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	402639	64114742	179084631	981	23332											
AFTPH	54812	broad.mit.edu	37	chr2	64778626	64778626	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatggagccagacatcatTcgaatgtactcttcatcccc	12	10	6	13	1	3	1	2	0	1	1	5	3	4	2	3	1	2	1	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:64778626T>G	uc002sdc.2	+	1	50	c.18T>G	c.(16-18)ATT>ATG	p.I6M	AFTPH_uc002scz.2_Missense_Mutation_p.I6M|AFTPH_uc002sda.2_Missense_Mutation_p.I6M|AFTPH_uc002sdb.2_Missense_Mutation_p.I6M	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	6					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						CAGACATCATTCGAATGTACT	0.373													8	112					0	0	1	0	0		G	64778626	G	G	64778626	3	3	27	1	0	0	0	0	1	0	0	0	364	1771	62	5	20	5	AFTPH	2	64778626	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	663884	64778626	178420747	982	23333											
AFTPH	54812	broad.mit.edu	37	chr2	64780188	64780188	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcactgaacctgttgcaaAacttaaaaatgggcaagaag	17	7	10	7	0	0	2	0	1	0	1	0	2	0	2	1	2	3	4	1	2	8	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:64780188A>G	uc002sdc.2	+	1	1612	c.1580A>G	c.(1579-1581)AAA>AGA	p.K527R	AFTPH_uc002scz.2_Missense_Mutation_p.K527R|AFTPH_uc002sda.2_Missense_Mutation_p.K527R|AFTPH_uc002sdb.2_Missense_Mutation_p.K527R	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	527					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						CCTGTTGCAAAACTTAAAAAT	0.363													3	82					0	0	1	0	0		G	64780188	G	G	64780188	3	3	27	1	0	0	0	0	1	0	0	0	364	14	1	3	1582	3	AFTPH	2	64780188	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1562	64780188	178419185	983	23334											
AFTPH	54812	broad.mit.edu	37	chr2	64796799	64796799	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcctgttatagtgcccatgTatgcagcaggattggtaagt	10	12	12	7	0	0	0	0	0	0	0	0	1	0	1	2	2	4	5	2	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:64796799T>C	uc002sdc.2	+	4	2289	c.2257T>C	c.(2257-2259)TAT>CAT	p.Y753H	AFTPH_uc002scz.2_Missense_Mutation_p.Y753H|AFTPH_uc002sda.2_Missense_Mutation_p.Y753H|AFTPH_uc002sdb.2_Missense_Mutation_p.Y753H	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	753					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						AGTGCCCATGTATGCAGCAGG	0.348													9	95					0	0	1	0	0		C	64796799	C	C	64796799	3	2	27	1	0	0	0	0	1	0	0	0	364	1638	57	3	2271	3	AFTPH	2	64796799	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	16611	64796799	178402574	984	23335											
ETAA1	54465	broad.mit.edu	37	chr2	67630573	67630573	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagataatgctacaaaaaaGccaatcaaaggaaacaccaa	23	5	5	8	0	1	1	1	0	0	1	1	2	1	2	2	1	4	1	2	1	10	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:67630573G>A	uc002sdz.1	+	5	898	c.759G>A	c.(757-759)AAG>AAA	p.K253K		NM_019002	NP_061875	Q9NY74	ETAA1_HUMAN	ETAA16 protein	253						cytoplasm|nucleus				ovary(3)|large_intestine(1)	4						CTACAAAAAAGCCAATCAAAG	0.313													9	98					0	0	1	0	0		A	67630573	A	A	67630573	2	1	27	1	0	0	0	0	0	0	0	1	5275	962	34	2		2	ETAA1	2	67630573	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2833774	67630573	175568800	985	23336											
PNO1	56902	broad.mit.edu	37	chr2	68385539	68385539	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aagaagaaacaaggaaaattCcagtcccagctaacagatac	20	5	7	9	0	0	3	0	0	0	3	2	4	2	4	2	1	4	1	2	1	8	3	rs150153986	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:68385539C>G	uc002seh.2	+	2	297	c.235C>G	c.(235-237)CCA>GCA	p.P79A	WDR92_uc002sed.1_5'Flank|WDR92_uc002see.1_5'Flank|WDR92_uc002sef.1_5'Flank|WDR92_uc002seg.1_5'Flank	NM_020143	NP_064528	Q9NRX1	PNO1_HUMAN	partner of NOB1	79						nucleolus	RNA binding				0						AAGGAAAATTCCAGTCCCAGC	0.388													26	80					0	0	1	0	0		G	68385539	G	G	68385539	3	3	27	1	0	0	0	0	1	0	0	0	12180	855	30	5	241	5	PNO1	2	68385539	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	754966	68385539	174813834	986	23337											
ARHGAP25	9938	broad.mit.edu	37	chr2	69009410	69009410	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatcaaggagatcgccacaAacccagaagaagctgggaag	17	3	11	10	1	1	3	1	0	0	3	2	5	1	4	2	2	2	1	2	2	6	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:69009410A>G	uc002seu.2	+	3	671	c.307A>G	c.(307-309)AAC>GAC	p.N103D	ARHGAP25_uc010yqk.1_Missense_Mutation_p.N77D|ARHGAP25_uc010fdg.2_Missense_Mutation_p.N103D|ARHGAP25_uc010yql.1_Missense_Mutation_p.N103D|ARHGAP25_uc002sev.2_Missense_Mutation_p.N96D|ARHGAP25_uc002sew.2_Missense_Mutation_p.N96D|ARHGAP25_uc002sex.2_Missense_Mutation_p.N96D|ARHGAP25_uc010fdh.1_RNA	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	103	PH.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						GATCGCCACAAACCCAGAAGA	0.418													14	136					0	0	1	0	0		G	69009410	G	G	69009410	3	3	27	1	0	0	0	0	1	0	0	0	874	14	1	3	357	3	ARHGAP25	2	69009410	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	623871	69009410	174189963	987	23338											
ARHGAP25	9938	broad.mit.edu	37	chr2	69049650	69049650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcttttcagggtgccaacaGcagcaaaatggagatcttta	13	10	10	8	0	2	1	1	0	1	1	2	2	2	1	1	2	5	3	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:69049650G>A	uc002seu.2	+	10	1740	c.1376G>A	c.(1375-1377)AGC>AAC	p.S459N	ARHGAP25_uc010fdg.2_Missense_Mutation_p.S460N|ARHGAP25_uc010yql.1_Missense_Mutation_p.S420N|ARHGAP25_uc002sew.2_Missense_Mutation_p.S452N|ARHGAP25_uc002sex.2_Missense_Mutation_p.S453N|ARHGAP25_uc002sey.2_Missense_Mutation_p.S186N	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	459					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						GGTGCCAACAGCAGCAAAATG	0.473													7	79					0	0	1	0	0		A	69049650	A	A	69049650	3	1	27	1	0	0	0	0	1	0	0	0	874	971	34	2	1457	2	ARHGAP25	2	69049650	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	40240	69049650	174149723	988	23339											
BMP10	27302	broad.mit.edu	37	chr2	69093283	69093283	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagaaaacacgatgagcAaagggttatgcttattctgg	14	10	10	7	1	2	2	1	1	1	1	2	3	2	2	0	2	3	3	0	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:69093283A>G	uc002sez.1	-	2	914	c.755T>C	c.(754-756)TTG>TCG	p.L252S		NM_014482	NP_055297	O95393	BMP10_HUMAN	bone morphogenetic protein 10 preproprotein	252					activin receptor signaling pathway|adult heart development|atrial cardiac muscle tissue morphogenesis|BMP signaling pathway|cardiac muscle cell proliferation|heart trabecula formation|negative regulation of cardiac muscle hypertrophy|negative regulation of cell growth|negative regulation of endothelial cell migration|Notch signaling pathway|pathway-restricted SMAD protein phosphorylation|positive regulation of cardiac muscle cell proliferation|positive regulation of cardiac muscle hypertrophy|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent|sarcomere organization|ventricular cardiac muscle cell development|ventricular cardiac muscle tissue morphogenesis	cell surface|extracellular space|Z disc	cytokine activity|growth factor activity|receptor serine/threonine kinase binding			ovary(2)	2						CACGATGAGCAAAGGGTTATG	0.478													3	50					0	0	1	0	0		G	69093283	G	G	69093283	3	3	27	1	0	0	0	0	1	0	0	0	1458	131	5	3	523	3	BMP10	2	69093283	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	43633	69093283	174106090	989	23340											
BMP10	27302	broad.mit.edu	37	chr2	69093458	69093458	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctcccactcactgttggTtccatatatctccccagaca	9	12	5	15	0	3	1	1	0	2	1	6	1	4	1	4	1	0	2	4	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:69093458T>C	uc002sez.1	-	2	739	c.580A>G	c.(580-582)ACC>GCC	p.T194A		NM_014482	NP_055297	O95393	BMP10_HUMAN	bone morphogenetic protein 10 preproprotein	194					activin receptor signaling pathway|adult heart development|atrial cardiac muscle tissue morphogenesis|BMP signaling pathway|cardiac muscle cell proliferation|heart trabecula formation|negative regulation of cardiac muscle hypertrophy|negative regulation of cell growth|negative regulation of endothelial cell migration|Notch signaling pathway|pathway-restricted SMAD protein phosphorylation|positive regulation of cardiac muscle cell proliferation|positive regulation of cardiac muscle hypertrophy|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent|sarcomere organization|ventricular cardiac muscle cell development|ventricular cardiac muscle tissue morphogenesis	cell surface|extracellular space|Z disc	cytokine activity|growth factor activity|receptor serine/threonine kinase binding			ovary(2)	2						TCACTGTTGGTTCCATATATC	0.478													7	83					0	0	1	0	0		C	69093458	C	C	69093458	3	2	27	1	0	0	0	0	1	0	0	0	1458	1725	60	3	698	3	BMP10	2	69093458	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	175	69093458	174105915	990	23341											
BMP10	27302	broad.mit.edu	37	chr2	69093671	69093671	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagggggtattttcggaGcccattaaaactgaccggct	10	9	14	8	2	0	1	0	1	0	0	1	4	0	3	2	5	2	2	2	5	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:69093671G>C	uc002sez.1	-	2	526	c.367C>G	c.(367-369)CTC>GTC	p.L123V		NM_014482	NP_055297	O95393	BMP10_HUMAN	bone morphogenetic protein 10 preproprotein	123					activin receptor signaling pathway|adult heart development|atrial cardiac muscle tissue morphogenesis|BMP signaling pathway|cardiac muscle cell proliferation|heart trabecula formation|negative regulation of cardiac muscle hypertrophy|negative regulation of cell growth|negative regulation of endothelial cell migration|Notch signaling pathway|pathway-restricted SMAD protein phosphorylation|positive regulation of cardiac muscle cell proliferation|positive regulation of cardiac muscle hypertrophy|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent|sarcomere organization|ventricular cardiac muscle cell development|ventricular cardiac muscle tissue morphogenesis	cell surface|extracellular space|Z disc	cytokine activity|growth factor activity|receptor serine/threonine kinase binding			ovary(2)	2						TATTTTCGGAGCCCATTAAAA	0.433													9	41					0	0	1	0	0		C	69093671	C	C	69093671	3	2	27	1	0	0	0	0	1	0	0	0	1458	971	34	5	911	5	BMP10	2	69093671	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	213	69093671	174105702	991	23342											
ANTXR1	84168	broad.mit.edu	37	chr2	69300209	69300209	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggagaactccatgaagaTctctttttctattcagagag	12	13	9	7	0	3	4	1	1	2	3	5	7	4	4	1	1	1	0	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:69300209T>A	uc002sfg.2	+	6	824	c.468T>A	c.(466-468)GAT>GAA	p.D156E	ANTXR1_uc002sfe.2_Missense_Mutation_p.D156E|ANTXR1_uc002sff.2_Missense_Mutation_p.D156E|ANTXR1_uc002sfd.2_Missense_Mutation_p.D156E	NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	156	Extracellular (Potential).|Interaction with PA.|VWFA.				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						TCCATGAAGATCTCTTTTTCT	0.488									Familial_Infantile_Hemangioma				14	115					0	0	1	0	0		A	69300209	A	A	69300209	3	1	27	1	0	0	0	0	1	0	0	0	711	1432	50	5	490	5	ANTXR1	2	69300209	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	206538	69300209	173899164	992	23343											
ANTXR1	84168	broad.mit.edu	37	chr2	69379379	69379379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctcctctggtggttctggCccctctgctgcactgtggta	2	14	11	14	0	4	0	0	0	4	0	5	0	4	0	3	4	2	4	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:69379379C>T	uc002sfg.2	+	13	1386	c.1030C>T	c.(1030-1032)CCC>TCC	p.P344S	ANTXR1_uc002sff.2_Missense_Mutation_p.P344S	NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	344	Cytoplasmic (Potential).				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						GTGGTTCTGGCCCCTCTGCTG	0.562									Familial_Infantile_Hemangioma				16	109					0	0	1	0	0		T	69379379	T	T	69379379	3	4	27	1	0	0	0	0	1	0	0	0	711	739	26	2	1135	2	ANTXR1	2	69379379	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	79170	69379379	173819994	993	23344											
AAK1	22848	broad.mit.edu	37	chr2	69708009	69708009	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctgtgcgattcgaggtcAcagattccgtctgagatggg	8	10	14	9	3	2	2	1	1	1	2	4	6	3	2	2	2	1	0	2	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:69708009A>G	uc002sfp.2	-	19	3057	c.2552T>C	c.(2551-2553)GTG>GCG	p.V851A		NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	851						coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0						ATTCGAGGTCACAGATTCCGT	0.552													3	11					0	0	1	0	0		G	69708009	G	G	69708009	3	3	27	1	0	0	0	0	1	0	0	0	16	159	6	3	349	3	AAK1	2	69708009	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	328630	69708009	173491364	994	23345											
C2orf42	54980	broad.mit.edu	37	chr2	70408456	70408456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgacaggagcagaagaagCggcgctcaggcaagcttttg	11	7	14	9	2	2	3	1	1	1	2	2	4	2	4	0	3	3	4	0	3	3	2	rs139242568		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:70408456C>T	uc002sgh.2	-	3	990	c.662G>A	c.(661-663)CGC>CAC	p.R221H		NM_017880	NP_060350	Q9NWW7	CB042_HUMAN	hypothetical protein LOC54980	221											0						GCAGAAGAAGCGGCGCTCAGG	0.483													19	102					0	0	1	0	0		T	70408456	T	T	70408456	3	4	27	1	0	0	0	0	1	0	0	0	2169	768	27	1	1094	1	C2orf42	2	70408456	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	700447	70408456	172790917	995	23346											
C2orf42	54980	broad.mit.edu	37	chr2	70408477	70408477	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcgctcaggcaagcttttgCcactgactttctgcacaaaa	10	10	9	12	1	2	1	1	1	1	0	2	1	2	1	1	2	3	4	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:70408477C>A	uc002sgh.2	-	3	969	c.641G>T	c.(640-642)GGC>GTC	p.G214V		NM_017880	NP_060350	Q9NWW7	CB042_HUMAN	hypothetical protein LOC54980	214											0						CAAGCTTTTGCCACTGACTTT	0.468													29	100					1.68575e-08	1.85383e-08	1	1	0		A	70408477	A	A	70408477	3	1	27	1	0	0	0	0	1	0	0	0	2169	739	26	5	1115	5	C2orf42	2	70408477	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21	70408477	172790896	996	23347											
ADD2	119	broad.mit.edu	37	chr2	70890850	70890850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtggcggctttgcttgtttCtgtcttcttagtaccttcta	3	19	10	9	1	4	0	0	0	4	0	4	0	4	0	1	3	2	4	1	3	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:70890850C>T	uc002sgz.2	-	16	2353	c.1888G>A	c.(1888-1890)GAA>AAA	p.E630K	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_3'UTR|ADD2_uc002sha.2_Missense_Mutation_p.E324K|ADD2_uc002sgx.2_3'UTR	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	630					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						TTGCTTGTTTCTGTCTTCTTA	0.507													5	64					0	0	1	0	0		T	70890850	T	T	70890850	3	4	27	1	0	0	0	0	1	0	0	0	305	922	32	4	296	4	ADD2	2	70890850	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	482373	70890850	172308523	997	23348											
CLEC4F	165530	broad.mit.edu	37	chr2	71036894	71036894	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttctgggcggcgttgaaTggtgtcccatctgtccagcg	4	13	14	10	3	2	1	0	1	2	0	4	1	4	1	2	3	1	2	2	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:71036894T>C	uc002shf.2	-	6	1712	c.1635A>G	c.(1633-1635)CCA>CCG	p.P545P	CLEC4F_uc010yqv.1_Silent_p.P545P	NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	545	Extracellular (Potential).|C-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5						CGGCGTTGAATGGTGTCCCAT	0.562													5	83					0	0	1	0	0		C	71036894	C	C	71036894	2	2	27	1	0	0	0	0	0	0	0	1	3519	1451	51	3		3	CLEC4F	2	71036894	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	146044	71036894	172162479	998	23349											
ZNF638	27332	broad.mit.edu	37	chr2	71625868	71625868	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaaatctgtggtaacggtAgctgttaaaggtaataaagc	15	11	11	4	1	1	0	0	0	1	0	1	0	1	0	0	3	3	6	0	3	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:71625868A>G	uc002shx.2	+	12	2785	c.2466A>G	c.(2464-2466)GTA>GTG	p.V822V	ZNF638_uc010yqw.1_Silent_p.V401V|ZNF638_uc002shy.2_Silent_p.V822V|ZNF638_uc002shz.2_Silent_p.V822V|ZNF638_uc002sia.2_Silent_p.V822V|ZNF638_uc002sib.1_Silent_p.V822V|ZNF638_uc010fed.2_RNA|ZNF638_uc002sic.2_5'UTR	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	822					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						TGGTAACGGTAGCTGTTAAAG	0.308													20	285					0	0	1	0	0		G	71625868	G	G	71625868	2	3	27	1	0	0	0	0	0	0	0	1	18080	407	15	3		3	ZNF638	2	71625868	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	588974	71625868	171573505	999	23350											
ZNF638	27332	broad.mit.edu	37	chr2	71660407	71660407	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtacacgtcataagcaaaaTactgaggtaattttaaaaat	19	11	6	5	1	1	1	1	1	0	0	1	1	1	1	0	1	3	3	0	1	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:71660407T>A	uc002shx.2	+	27	6184	c.5865T>A	c.(5863-5865)AAT>AAA	p.N1955K	ZNF638_uc002shy.2_Missense_Mutation_p.N1955K|ZNF638_uc002shz.2_Missense_Mutation_p.N1934K|ZNF638_uc002sia.2_Missense_Mutation_p.N1955K|ZNF638_uc010fed.2_RNA|ZNF638_uc002sic.2_Missense_Mutation_p.N1052K|ZNF638_uc002sid.2_Missense_Mutation_p.N324K	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1955	Matrin-type.				RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						ATAAGCAAAATACTGAGGTAA	0.358													11	90					0	0	1	0	0		A	71660407	A	A	71660407	3	1	27	1	0	0	0	0	1	0	0	0	18080	1403	49	5	5967	5	ZNF638	2	71660407	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	34539	71660407	171538966	1000	23351											
DYSF	8291	broad.mit.edu	37	chr2	71795459	71795459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagattggttcgtgtgtcCggagaagacgtgagtcgtgg	7	11	18	5	4	0	4	0	1	0	3	3	6	1	4	1	4	0	1	1	4	1	2	rs150717638		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:71795459C>T	uc002sie.2	+	26	3177	c.2801C>T	c.(2800-2802)CCG>CTG	p.P934L	DYSF_uc010feg.2_Missense_Mutation_p.P965L|DYSF_uc010feh.2_Missense_Mutation_p.P920L|DYSF_uc002sig.3_Missense_Mutation_p.P920L|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.P934L|DYSF_uc010fef.2_Missense_Mutation_p.P951L|DYSF_uc010fei.2_Missense_Mutation_p.P951L|DYSF_uc010fek.2_Missense_Mutation_p.P952L|DYSF_uc010fej.2_Missense_Mutation_p.P921L|DYSF_uc010fel.2_Missense_Mutation_p.P921L|DYSF_uc010feo.2_Missense_Mutation_p.P966L|DYSF_uc010fem.2_Missense_Mutation_p.P935L|DYSF_uc010fen.2_Missense_Mutation_p.P952L|DYSF_uc002sif.2_Missense_Mutation_p.P935L	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	934	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						TTCGTGTGTCCGGAGAAGACG	0.632													25	216					0	0	1	0	0		T	71795459	T	T	71795459	3	4	27	1	0	0	0	0	1	0	0	0	4865	652	23	1	3095	1	DYSF	2	71795459	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	135052	71795459	171403914	1001	23352											
DYSF	8291	broad.mit.edu	37	chr2	71891479	71891479	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgacctcctctccaaggaCgaaaagatcggtgagacggt	12	8	11	10	3	1	3	0	2	1	2	4	6	2	4	3	3	0	0	3	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:71891479C>T	uc002sie.2	+	45	5344	c.4968C>T	c.(4966-4968)GAC>GAT	p.D1656D	DYSF_uc010feg.2_Silent_p.D1687D|DYSF_uc010feh.2_Silent_p.D1663D|DYSF_uc002sig.3_Silent_p.D1642D|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.D1677D|DYSF_uc010fef.2_Silent_p.D1694D|DYSF_uc010fei.2_Silent_p.D1673D|DYSF_uc010fek.2_Silent_p.D1674D|DYSF_uc010fej.2_Silent_p.D1664D|DYSF_uc010fel.2_Silent_p.D1643D|DYSF_uc010feo.2_Silent_p.D1688D|DYSF_uc010fem.2_Silent_p.D1678D|DYSF_uc010fen.2_Silent_p.D1695D|DYSF_uc002sif.2_Silent_p.D1657D|DYSF_uc010yqy.1_Silent_p.D537D|DYSF_uc010yqz.1_Silent_p.D417D	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1656	Cytoplasmic (Potential).|C2 5.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						TCTCCAAGGACGAAAAGATCG	0.552													13	60					0	0	1	0	0		T	71891479	T	T	71891479	2	4	27	1	0	0	0	0	0	0	0	1	4865	535	19	1		1	DYSF	2	71891479	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	96020	71891479	171307894	1002	23353											
CCT7	10574	broad.mit.edu	37	chr2	73476280	73476280	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtgctggccgagtaccTgaggaggatctgaagaggac	9	9	15	8	1	2	3	0	2	2	1	2	7	2	6	2	4	2	2	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:73476280T>G	uc002siz.2	+	8	1047	c.945T>G	c.(943-945)CCT>CCG	p.P315P	CCT7_uc002sja.2_Silent_p.P111P|CCT7_uc010yrf.1_Silent_p.P271P|CCT7_uc010feu.2_Silent_p.P273P|CCT7_uc010yrg.1_Silent_p.P215P|CCT7_uc010yrh.1_Silent_p.P187P|CCT7_uc010yri.1_Silent_p.P228P	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	315					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						GCCGAGTACCTGAGGAGGATC	0.512													4	39					0	0	1	0	0		G	73476280	G	G	73476280	2	3	27	1	0	0	0	0	0	0	0	1	2962	1567	55	5		5	CCT7	2	73476280	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1584801	73476280	169723093	1003	23354											
EGR4	1961	broad.mit.edu	37	chr2	73519364	73519364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaaacgagcctccggggCggcctggtagtctccctgtg	6	7	16	12	3	1	0	0	0	1	0	3	2	2	1	4	5	2	1	4	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:73519364C>T	uc010yrj.1	-	2	1066	c.991G>A	c.(991-993)GCC>ACC	p.A331T	EGR4_uc010yrk.1_Missense_Mutation_p.A330T	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	227						intracellular	nucleic acid binding|zinc ion binding				0						GCCTCCGGGGCGGCCTGGTAG	0.632													4	4					0	0	1	0	0		T	73519364	T	T	73519364	3	4	27	1	0	0	0	0	1	0	0	0	4980	768	27	1	782	1	EGR4	2	73519364	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	43084	73519364	169680009	1004	23355											
ALMS1	7840	broad.mit.edu	37	chr2	73646321	73646321	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttggatacatcccagactaGgtttaatgtgagaacggaag	13	10	11	7	1	0	2	0	1	0	2	1	5	1	4	1	3	2	1	1	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:73646321G>T	uc002sje.1	+	4	635	c.524G>T	c.(523-525)AGG>ATG	p.R175M	ALMS1_uc002sjf.1_Missense_Mutation_p.R132M	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	174					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TCCCAGACTAGGTTTAATGTG	0.408													17	56					5.3912e-06	5.81687e-06	1	1	0		T	73646321	T	T	73646321	3	4	27	1	0	0	0	0	1	0	0	0	535	1000	35	5	531	5	ALMS1	2	73646321	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	126957	73646321	169553052	1005	23356											
ALMS1	7840	broad.mit.edu	37	chr2	73679769	73679769	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccaaatgaccagaagactCcatcccagacagcttttcat	14	8	6	13	0	1	4	1	1	0	3	3	5	3	4	4	0	1	1	4	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:73679769C>A	uc002sje.1	+	10	6229	c.6118C>A	c.(6118-6120)CCA>ACA	p.P2040T	ALMS1_uc002sjf.1_Missense_Mutation_p.P1996T|ALMS1_uc002sjg.2_Missense_Mutation_p.P1426T|ALMS1_uc002sjh.1_Missense_Mutation_p.P1426T	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2038	34 X 47 AA approximate tandem repeat.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CCAGAAGACTCCATCCCAGAC	0.398													15	120					4.14922e-12	4.61121e-12	1	1	0		A	73679769	A	A	73679769	3	1	27	1	0	0	0	0	1	0	0	0	535	855	30	5	6142	5	ALMS1	2	73679769	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	33448	73679769	169519604	1006	23357											
ALMS1	7840	broad.mit.edu	37	chr2	73717072	73717072	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactttatacctgatgaattCaaaatcagcaaaggtcttcg	15	12	6	8	1	3	2	2	2	1	0	4	2	3	2	1	1	3	1	1	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:73717072C>A	uc002sje.1	+	12	8100	c.7989C>A	c.(7987-7989)TTC>TTA	p.F2663L	ALMS1_uc002sjf.1_Missense_Mutation_p.F2619L|ALMS1_uc002sjg.2_Missense_Mutation_p.F2049L|ALMS1_uc002sjh.1_Missense_Mutation_p.F2049L	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2661					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CTGATGAATTCAAAATCAGCA	0.393													10	100					1.76689e-08	1.94149e-08	1	1	0		A	73717072	A	A	73717072	3	1	27	1	0	0	0	0	1	0	0	0	535	825	29	5	8021	5	ALMS1	2	73717072	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37303	73717072	169482301	1007	23358											
ALMS1	7840	broad.mit.edu	37	chr2	73717193	73717193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcattcttcatcacaaatgCcgtccccagaacccatgaaa	13	10	4	14	1	4	2	3	1	1	1	5	2	5	2	4	0	2	0	4	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:73717193C>T	uc002sje.1	+	12	8221	c.8110C>T	c.(8110-8112)CCG>TCG	p.P2704S	ALMS1_uc002sjf.1_Missense_Mutation_p.P2660S|ALMS1_uc002sjg.2_Missense_Mutation_p.P2090S|ALMS1_uc002sjh.1_Missense_Mutation_p.P2090S	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2702					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						ATCACAAATGCCGTCCCCAGA	0.408													16	133					0	0	1	0	0		T	73717193	T	T	73717193	3	4	27	1	0	0	0	0	1	0	0	0	535	739	26	2	8142	2	ALMS1	2	73717193	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	121	73717193	169482180	1008	23359											
ALMS1	7840	broad.mit.edu	37	chr2	73717520	73717520	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttcaagaagaaaaacccTtagaaagatcagattttaca	18	11	5	7	0	2	5	2	0	0	5	2	5	2	5	1	0	2	0	1	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:73717520T>G	uc002sje.1	+	12	8548	c.8437T>G	c.(8437-8439)TTA>GTA	p.L2813V	ALMS1_uc002sjf.1_Missense_Mutation_p.L2769V|ALMS1_uc002sjg.2_Missense_Mutation_p.L2199V|ALMS1_uc002sjh.1_Missense_Mutation_p.L2199V	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2811					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AGAAAAACCCTTAGAAAGATC	0.358													4	60					0	0	1	0	0		G	73717520	G	G	73717520	3	3	27	1	0	0	0	0	1	0	0	0	535	1606	56	5	8469	5	ALMS1	2	73717520	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	327	73717520	169481853	1009	23360											
SLC4A5	57835	broad.mit.edu	37	chr2	74452027	74452027	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttcttgtctgtctccttTttttccttctctgggaggat	2	21	7	11	0	5	0	0	0	5	0	8	2	6	2	2	2	0	0	2	2	0	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:74452027T>C	uc002sko.1	-	24	3236	c.3234A>G	c.(3232-3234)AAA>AAG	p.K1078K	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Silent_p.K1062K|SLC4A5_uc010ffc.1_Silent_p.K981K|SLC4A5_uc002skp.1_Silent_p.K960K|SLC4A5_uc002sks.1_Missense_Mutation_p.K970R	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	1078	Extracellular (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						CTGTCTCCTTTTTTTCCTTCT	0.517													11	108					0	0	1	0	0		C	74452027	C	C	74452027	2	2	27	1	0	0	0	0	0	0	0	1	14682	1838	64	3		3	SLC4A5	2	74452027	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	734507	74452027	168747346	1010	23361											
SLC4A5	57835	broad.mit.edu	37	chr2	74482997	74482997	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctaggaagtccacctcGcccacgagcacgttggacgc	8	7	12	14	4	1	0	0	0	1	0	3	3	2	2	3	3	1	2	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:74482997G>A	uc002sko.1	-	8	932	c.930C>T	c.(928-930)GGC>GGT	p.G310G	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Silent_p.G310G|SLC4A5_uc010ffc.1_Silent_p.G310G|SLC4A5_uc002skp.1_Silent_p.G246G|SLC4A5_uc002sks.1_Silent_p.G310G	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	310	Cytoplasmic (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						AGTCCACCTCGCCCACGAGCA	0.582													5	53					0	0	1	0	0		A	74482997	A	A	74482997	2	1	27	1	0	0	0	0	0	0	0	1	14682	1074	38	1		1	SLC4A5	2	74482997	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	30970	74482997	168716376	1011	23362											
SLC4A5	57835	broad.mit.edu	37	chr2	74489328	74489328	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtggagtggtgtagactcggGccagcaccagggctccgggc	6	6	18	11	2	0	1	0	0	0	1	2	2	1	2	3	5	1	3	3	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:74489328G>A	uc002sko.1	-	6	749	c.747C>T	c.(745-747)GGC>GGT	p.G249G	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Silent_p.G249G|SLC4A5_uc010ffc.1_Silent_p.G249G|SLC4A5_uc002skp.1_Silent_p.G185G|SLC4A5_uc002sks.1_Silent_p.G249G	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	249	Cytoplasmic (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						GTAGACTCGGGCCAGCACCAG	0.587													4	53					0	0	1	0	0		A	74489328	A	A	74489328	2	1	27	1	0	0	0	0	0	0	0	1	14682	1190	42	2		2	SLC4A5	2	74489328	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6331	74489328	168710045	1012	23363											
WDR54	84058	broad.mit.edu	37	chr2	74652568	74652568	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctgcaggtgaggacaccTttgtgcatatctggaagctg	8	12	12	9	0	2	1	0	1	2	0	3	3	2	3	1	3	3	3	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:74652568T>C	uc002slb.2	+	9	883	c.823T>C	c.(823-825)TTT>CTT	p.F275L		NM_032118	NP_115494	Q9H977	WDR54_HUMAN	WD repeat domain 54	275	WD 4.										0						TGAGGACACCTTTGTGCATAT	0.577													13	107					0	0	1	0	0		C	74652568	C	C	74652568	3	2	27	1	0	0	0	0	1	0	0	0	17332	1609	56	3	853	3	WDR54	2	74652568	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	163240	74652568	168546805	1013	23364											
AUP1	550	broad.mit.edu	37	chr2	74754634	74754634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacacccaatggcacatgggGcaaaacttccttgactctct	11	9	8	13	0	1	1	0	1	1	0	3	2	2	1	2	3	1	2	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:74754634G>A	uc010yrx.1	-	8	1222	c.1096C>T	c.(1096-1098)CCC>TCC	p.P366S	DQX1_uc010yrw.1_5'Flank|AUP1_uc002sme.2_Missense_Mutation_p.P42S|AUP1_uc002smf.2_Missense_Mutation_p.P309S|AUP1_uc002smg.2_RNA|AUP1_uc002smh.2_Missense_Mutation_p.P218S|HTRA2_uc002smi.1_5'Flank|HTRA2_uc002smj.1_5'Flank|HTRA2_uc002smk.1_5'Flank|HTRA2_uc002sml.1_5'Flank|HTRA2_uc002smm.1_5'Flank|HTRA2_uc002smn.1_5'Flank			Q9Y679	AUP1_HUMAN	SubName: Full=cDNA FLJ57204, highly similar to Homo sapiens ancient ubiquitous protein 1 (AUP1), transcript variant 2, mRNA;	375	Cytoplasmic (Potential).|CUE.					endoplasmic reticulum membrane|integral to membrane|nucleus	protein binding				0						GGCACATGGGGCAAAACTTCC	0.547													9	171					0	0	1	0	0		A	74754634	A	A	74754634	3	1	27	1	0	0	0	0	1	0	0	0	1221	1203	42	2	323	2	AUP1	2	74754634	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	102066	74754634	168444739	1014	23365											
HTRA2	27429	broad.mit.edu	37	chr2	74759794	74759794	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagctttcccgatgttcaGcatggtgtactcatccataa	10	12	7	12	1	2	0	2	0	0	0	4	1	4	0	3	1	3	4	3	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:74759794G>A	uc002smi.1	+	7	1766	c.1164G>A	c.(1162-1164)CAG>CAA	p.Q388Q	AUP1_uc002smf.2_5'Flank|AUP1_uc002smg.2_5'Flank|AUP1_uc002smh.2_5'Flank|AUP1_uc010yrx.1_5'Flank|AUP1_uc010yry.1_5'Flank|HTRA2_uc002smj.1_Intron|HTRA2_uc002smk.1_Intron|HTRA2_uc002sml.1_Intron|HTRA2_uc002smm.1_Silent_p.Q129Q|HTRA2_uc002smn.1_Silent_p.Q129Q	NM_013247	NP_037379	O43464	HTRA2_HUMAN	HtrA serine peptidase 2 isoform 1 preproprotein	388	PDZ.				apoptosis|proteolysis|response to stress	CD40 receptor complex|endoplasmic reticulum membrane|internal side of plasma membrane|mitochondrial intermembrane space|mitochondrial membrane|nucleus	serine-type endopeptidase activity|unfolded protein binding			ovary(1)	1						CCGATGTTCAGCATGGTGTAC	0.532													9	56					0	0	1	0	0		A	74759794	A	A	74759794	2	1	27	1	0	0	0	0	0	0	0	1	7470	962	34	2		2	HTRA2	2	74759794	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5160	74759794	168439579	1015	23366											
DOK1	1796	broad.mit.edu	37	chr2	74783646	74783646	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaagttgccttccccacctgGcccccaagagctcctcgaca	8	7	8	18	1	0	1	0	0	0	1	3	3	2	1	7	1	2	2	7	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:74783646G>A	uc002sms.2	+	5	873	c.851G>A	c.(850-852)GGC>GAC	p.G284D	LOXL3_uc002smp.1_5'Flank|LOXL3_uc002smq.1_5'Flank|LOXL3_uc010ffn.1_5'Flank|DOK1_uc002smr.2_Missense_Mutation_p.G145D|DOK1_uc010ffo.2_Missense_Mutation_p.G145D|DOK1_uc002smt.2_Missense_Mutation_p.G70D|DOK1_uc002smu.2_Missense_Mutation_p.G70D|DOK1_uc010yrz.1_Missense_Mutation_p.G273D|DOK1_uc002smv.2_Missense_Mutation_p.G145D|DOK1_uc002smw.1_Missense_Mutation_p.G70D	NM_001381	NP_001372	Q99704	DOK1_HUMAN	docking protein 1	284	Pro-rich.				fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	cytosol|perinuclear region of cytoplasm	insulin receptor binding				0						TCCCCACCTGGCCCCCAAGAG	0.627													13	50					0	0	1	0	0		A	74783646	A	A	74783646	3	1	27	1	0	0	0	0	1	0	0	0	4702	1203	42	2	869	2	DOK1	2	74783646	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23852	74783646	168415727	1016	23367											
C2orf65	130951	broad.mit.edu	37	chr2	74789369	74789369	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcttaaggctatcatcaTgtgggtcctcaggtagcagg	9	12	11	9	0	4	0	3	0	1	0	5	0	5	0	1	4	1	3	1	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:74789369T>G	uc002smy.2	-	8	1373	c.1256A>C	c.(1255-1257)CAT>CCT	p.H419P	C2orf65_uc010ysa.1_Missense_Mutation_p.H419P|C2orf65_uc010ffp.2_Intron|C2orf65_uc002smx.2_Missense_Mutation_p.H175P	NM_138804	NP_620159	Q8TC57	CB065_HUMAN	hypothetical protein LOC130951	419					chromatin assembly|female gamete generation|RNA processing|spermatogenesis	integral to membrane				ovary(1)|pancreas(1)	2						GCTATCATCATGTGGGTCCTC	0.557													16	105					0	0	1	0	0		G	74789369	G	G	74789369	3	3	27	1	0	0	0	0	1	0	0	0	2187	1464	51	5	352	5	C2orf65	2	74789369	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5723	74789369	168410004	1017	23368											
SEMA4F	10505	broad.mit.edu	37	chr2	74883728	74883728	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactctgttctccttgtggaTcctgcctcccacacacttta	6	15	5	15	0	2	0	0	0	2	0	5	1	4	1	4	1	2	1	4	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:74883728T>C	uc002sna.1	+	2	324	c.213T>C	c.(211-213)GAT>GAC	p.D71D	SEMA4F_uc010ysb.1_Silent_p.D71D|SEMA4F_uc010ffq.1_Silent_p.D71D|SEMA4F_uc010ffr.1_5'UTR|SEMA4F_uc002snb.1_5'UTR|SEMA4F_uc002snc.1_Silent_p.D71D	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	71	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						TCCTTGTGGATCCTGCCTCCC	0.557													10	113					0	0	1	0	0		C	74883728	C	C	74883728	2	2	27	1	0	0	0	0	0	0	0	1	14060	1432	50	3		3	SEMA4F	2	74883728	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	94359	74883728	168315645	1018	23369											
HK2	3099	broad.mit.edu	37	chr2	75094777	75094777	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagaacacggagagttcCtggctctggatcttggaggg	8	9	15	9	1	2	2	0	0	2	2	3	5	3	4	1	5	2	3	1	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:75094777C>A	uc002snd.2	+	3	2167	c.241C>A	c.(241-243)CTG>ATG	p.L81M		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	81	Regulatory.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						CGGAGAGTTCCTGGCTCTGGA	0.493													29	335					3.1745e-13	3.53866e-13	1	1	0		A	75094777	A	A	75094777	3	1	27	1	0	0	0	0	1	0	0	0	7207	680	24	5	251	5	HK2	2	75094777	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	211049	75094777	168104596	1019	23370											
HK2	3099	broad.mit.edu	37	chr2	75101407	75101407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaggcacgggcagcaacGcctgctacatggaagagatg	11	5	15	10	2	0	1	0	0	0	1	0	3	0	2	1	4	4	5	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:75101407G>A	uc002snd.2	+	7	2632	c.706G>A	c.(706-708)GCC>ACC	p.A236T		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	236	Regulatory.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						GGGCAGCAACGCCTGCTACAT	0.607													8	27					0	0	1	0	0		A	75101407	A	A	75101407	3	1	27	1	0	0	0	0	1	0	0	0	7207	1087	38	1	732	1	HK2	2	75101407	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6630	75101407	168097966	1020	23371											
FAM176A	84141	broad.mit.edu	37	chr2	75720435	75720435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagatctccctgatgatgCgctcgcgctcctccagccgc	5	9	9	18	4	1	3	0	2	1	1	6	3	4	3	5	0	2	2	5	0	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:75720435C>T	uc002sni.2	-	4	864	c.386G>A	c.(385-387)CGC>CAC	p.R129H	FAM176A_uc002snj.1_Missense_Mutation_p.R116H|FAM176A_uc002snk.1_Missense_Mutation_p.R129H	NM_001135032	NP_001128504	Q9H8M9	F176A_HUMAN	family with sequence similarity 176, member A	129					apoptosis|autophagy	endoplasmic reticulum membrane|integral to membrane|lysosomal membrane|plasma membrane					0						CCTGATGATGCGCTCGCGCTC	0.622													6	69					0	0	1	0	0		T	75720435	T	T	75720435	3	4	27	1	0	0	0	0	1	0	0	0	5510	768	27	1	76	1	FAM176A	2	75720435	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	619028	75720435	167478938	1021	23372											
C2orf3	6936	broad.mit.edu	37	chr2	75899123	75899123	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaactttgaatgaggtgAtgttttgttttctacagcac	9	17	10	5	0	1	3	0	3	1	0	1	4	1	4	0	2	3	3	0	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:75899123A>T	uc002sno.2	-	14	2039	c.1909T>A	c.(1909-1911)TCA>ACA	p.S637T	C2orf3_uc010ffs.2_Missense_Mutation_p.S199T|C2orf3_uc002snn.2_Missense_Mutation_p.S468T|C2orf3_uc010fft.2_Missense_Mutation_p.S312T	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	637					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						GAATGAGGTGATGTTTTGTTT	0.343													3	70					0	0	1	0	0		T	75899123	T	T	75899123	3	4	27	1	0	0	0	0	1	0	0	0	2165	333	12	5	452	5	C2orf3	2	75899123	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	178688	75899123	167300250	1022	23373											
REG1A	5967	broad.mit.edu	37	chr2	79349971	79349971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccttccccatctagaaccGccgctggcactggagcagtg	7	7	11	16	2	1	1	0	0	1	1	2	2	2	2	5	2	2	3	5	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:79349971G>A	uc002snz.2	+	5	429	c.326G>A	c.(325-327)CGC>CAC	p.R109H	REG1A_uc010ysd.1_Missense_Mutation_p.R109H	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	109	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						ATCTAGAACCGCCGCTGGCAC	0.547													6	110					0	0	1	0	0		A	79349971	A	A	79349971	3	1	27	1	0	0	0	0	1	0	0	0	13235	1087	38	1	340	1	REG1A	2	79349971	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3450848	79349971	163849402	1023	23374											
CTNNA2	1496	broad.mit.edu	37	chr2	80136866	80136866	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcgcgagaggatcgtggcGgagtgcaacgccgtgcggca	7	4	19	11	8	0	1	0	0	0	1	1	4	0	3	1	5	3	2	1	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:80136866G>A	uc010ysh.1	+	6	1004	c.999G>A	c.(997-999)GCG>GCA	p.A333A	CTNNA2_uc010yse.1_Silent_p.A333A|CTNNA2_uc010ysf.1_Silent_p.A333A|CTNNA2_uc010ysg.1_Silent_p.A333A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	333					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GGATCGTGGCGGAGTGCAACG	0.617													13	60					0	0	1	0	0		A	80136866	A	A	80136866	2	1	27	1	0	0	0	0	0	0	0	1	4016	1103	39	1		1	CTNNA2	2	80136866	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	786895	80136866	163062507	1024	23375											
LRRTM1	347730	broad.mit.edu	37	chr2	80529659	80529659	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggccatggtgcccgtgAccaccttgtggatctgcacg	6	9	14	12	2	1	2	0	2	1	0	1	3	1	3	4	3	2	1	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:80529659A>T	uc002sok.1	-	2	1556	c.1286T>A	c.(1285-1287)GTC>GAC	p.V429D	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	429	Helical; (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GGTGCCCGTGACCACCTTGTG	0.647										HNSCC(69;0.2)			5	53					0	0	1	0	0		T	80529659	T	T	80529659	3	4	27	1	0	0	0	0	1	0	0	0	9057	275	10	5	286	5	LRRTM1	2	80529659	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	392793	80529659	162669714	1025	23376			2	8		6	6	929	N	T_G_C_A	7.234428e-06
LRRTM1	347730	broad.mit.edu	37	chr2	80529813	80529813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatcactgcggttggtgaCggccgagagcaggtggccgc	7	6	17	11	4	1	3	1	1	0	2	1	4	1	3	2	5	2	2	2	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:80529813C>T	uc002sok.1	-	2	1402	c.1132G>A	c.(1132-1134)GTC>ATC	p.V378I	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	378	Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						CGGTTGGTGACGGCCGAGAGC	0.721										HNSCC(69;0.2)			4	22					0	0	1	0	0		T	80529813	T	T	80529813	3	4	27	1	0	0	0	0	1	0	0	0	9057	536	19	1	440	1	LRRTM1	2	80529813	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	154	80529813	162669560	1026	23377			2	8		6	6	929	N	T_G_C_A	7.234428e-06
LRRTM1	347730	broad.mit.edu	37	chr2	80530105	80530105	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgcagggactgcaggtgCggcacggtctcgaacacatg	9	6	15	11	3	1	0	0	0	1	0	2	2	1	1	0	4	5	4	0	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:80530105C>T	uc002sok.1	-	2	1110	c.840G>A	c.(838-840)CCG>CCA	p.P280P	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	280	Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						ACTGCAGGTGCGGCACGGTCT	0.592										HNSCC(69;0.2)			5	45					0	0	1	0	0		T	80530105	T	T	80530105	2	4	27	1	0	0	0	0	0	0	0	1	9057	755	27	1		1	LRRTM1	2	80530105	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	292	80530105	162669268	1027	23378			2	8		6	6	929	N	T_G_C_A	7.234428e-06
LRRTM1	347730	broad.mit.edu	37	chr2	80530309	80530309	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgctcgaggtgcagctcGgtgagcttaaacaagccggc	8	9	14	10	3	0	1	0	1	0	0	2	2	0	1	1	3	6	4	1	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:80530309G>A	uc002sok.1	-	2	906	c.636C>T	c.(634-636)ACC>ACT	p.T212T	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	212	LRR 6.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GGTGCAGCTCGGTGAGCTTAA	0.582										HNSCC(69;0.2)			24	75					0	0	1	0	0		A	80530309	A	A	80530309	2	1	27	1	0	0	0	0	0	0	0	1	9057	1103	39	1		1	LRRTM1	2	80530309	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	204	80530309	162669064	1028	23379			2	8		6	6	929	N	T_G_C_A	7.234428e-06
LRRTM1	347730	broad.mit.edu	37	chr2	80530481	80530481	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcagcccgtggaagaggTcgggcgcgagcgcctgcagc	6	4	17	14	6	0	1	0	0	0	1	2	3	1	2	3	3	4	2	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:80530481T>C	uc002sok.1	-	2	734	c.464A>G	c.(463-465)GAC>GGC	p.D155G	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	155	LRR 3.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GTGGAAGAGGTCGGGCGCGAG	0.642										HNSCC(69;0.2)			8	61					0	0	1	0	0		C	80530481	C	C	80530481	3	2	27	1	0	0	0	0	1	0	0	0	9057	1667	58	3	1108	3	LRRTM1	2	80530481	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	172	80530481	162668892	1029	23380			2	8		6	6	929	N	T_G_C_A	7.234428e-06
LRRTM1	347730	broad.mit.edu	37	chr2	80530587	80530587	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatctggttggaactcaGcgtgagttccttaactcggc	7	12	13	9	2	2	2	1	2	1	0	4	3	3	3	1	4	3	2	1	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:80530587G>A	uc002sok.1	-	2	628	c.358C>T	c.(358-360)CTG>TTG	p.L120L	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	120	LRR 2.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						TTGGAACTCAGCGTGAGTTCC	0.587										HNSCC(69;0.2)			14	88					0	0	1	0	0		A	80530587	A	A	80530587	2	1	27	1	0	0	0	0	0	0	0	1	9057	962	34	2		2	LRRTM1	2	80530587	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	106	80530587	162668786	1030	23381			2	8		6	6	929	N	T_G_C_A	7.234428e-06
CTNNA2	1496	broad.mit.edu	37	chr2	80801432	80801432	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagaaaggctgtgctgaTgatcagggtatgtgaggcct	10	10	14	7	0	2	4	2	3	0	1	2	4	2	4	1	3	1	3	1	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:80801432T>C	uc010ysh.1	+	12	1891	c.1886T>C	c.(1885-1887)ATG>ACG	p.M629T	CTNNA2_uc010yse.1_Missense_Mutation_p.M629T|CTNNA2_uc010ysf.1_Missense_Mutation_p.M629T|CTNNA2_uc010ysg.1_Missense_Mutation_p.M629T|CTNNA2_uc010ysi.1_Missense_Mutation_p.M261T	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	629					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GCTGTGCTGATGATCAGGGTA	0.453													6	124					0	0	1	0	0		C	80801432	C	C	80801432	3	2	27	1	0	0	0	0	1	0	0	0	4016	1464	51	3	1724	3	CTNNA2	2	80801432	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	270845	80801432	162397941	1031	23382											
TGOLN2	10618	broad.mit.edu	37	chr2	85553786	85553786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggaatccgaaagtgtccCttcacggttctcactggagg	8	10	12	11	3	2	0	2	0	1	0	5	3	4	2	2	4	0	1	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:85553786C>T	uc010fgd.1	-	2	1358	c.1069G>A	c.(1069-1071)GGG>AGG	p.G357R	TGOLN2_uc002soz.2_Missense_Mutation_p.G357R|TGOLN2_uc002spa.2_RNA|TGOLN2_uc002spb.2_Missense_Mutation_p.G299R|TGOLN2_uc002spc.1_Missense_Mutation_p.G357R	NM_006464	NP_006455	O43493	TGON2_HUMAN	trans-golgi network protein 2	357	Extracellular (Potential).					integral to membrane|nucleus|plasma membrane|trans-Golgi network|transport vesicle	protein binding				0						GAAAGTGTCCCTTCACGGTTC	0.527													14	90					0	0	1	0	0		T	85553786	T	T	85553786	3	4	27	1	0	0	0	0	1	0	0	0	15861	681	24	4	256	4	TGOLN2	2	85553786	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4752354	85553786	157645587	1032	23383											
GGCX	2677	broad.mit.edu	37	chr2	85785695	85785695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaataacacacagcttatcCggtagcacaggcccagcatc	13	6	9	13	1	0	0	0	0	0	0	2	1	1	1	2	3	4	4	2	3	4	3	rs140647479		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:85785695C>T	uc002sps.2	-	4	513	c.407G>A	c.(406-408)CGG>CAG	p.R136Q	GGCX_uc010yss.1_Missense_Mutation_p.R8Q|GGCX_uc010yst.1_Missense_Mutation_p.R79Q	NM_000821	NP_000812	P38435	VKGC_HUMAN	gamma-glutamyl carboxylase isoform 1	136	Cytoplasmic (Potential).				blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification	endoplasmic reticulum membrane|integral to membrane|membrane fraction	gamma-glutamyl carboxylase activity			ovary(1)	1					Anisindione(DB01125)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Drotrecogin alfa(DB00055)|L-Glutamic Acid(DB00142)|Menadione(DB00170)|Phytonadione(DB01022)	ACAGCTTATCCGGTAGCACAG	0.517													4	72					0	0	1	0	0		T	85785695	T	T	85785695	3	4	27	1	0	0	0	0	1	0	0	0	6371	652	23	1	1917	1	GGCX	2	85785695	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	231909	85785695	157413678	1033	23384											
SFTPB	6439	broad.mit.edu	37	chr2	85892879	85892879	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggctctggctgccgggaTttgcacaggcccaggtgcat	5	10	14	12	1	2	0	0	0	2	0	2	1	2	1	2	5	3	4	2	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:85892879T>C	uc002sqh.2	-	5	438	c.432A>G	c.(430-432)AAA>AAG	p.K144K	SFTPB_uc002sqi.2_Silent_p.K156K|SFTPB_uc002sqj.2_Silent_p.K144K	NM_198843	NP_942140	P07988	PSPB_HUMAN	surfactant, pulmonary-associated protein B	144	Saposin B-type 1.				organ morphogenesis|respiratory gaseous exchange|sphingolipid metabolic process	extracellular space|lysosome				ovary(1)|central_nervous_system(1)	2						GCTGCCGGGATTTGCACAGGC	0.637													6	73					0	0	1	0	0		C	85892879	C	C	85892879	2	2	27	1	0	0	0	0	0	0	0	1	14216	1490	52	3		3	SFTPB	2	85892879	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	107184	85892879	157306494	1034	23385											
SFTPB	6439	broad.mit.edu	37	chr2	85894843	85894843	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgtaggcaatgccctaGggctctgcactgcaatgctt	7	12	10	12	0	1	0	0	0	1	0	2	0	2	0	2	2	4	6	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:85894843G>T	uc002sqh.2	-	2	160	c.154C>A	c.(154-156)CTA>ATA	p.L52I	SFTPB_uc002sqi.2_Missense_Mutation_p.L64I|SFTPB_uc002sqj.2_Missense_Mutation_p.L52I	NM_198843	NP_942140	P07988	PSPB_HUMAN	surfactant, pulmonary-associated protein B	52	Saposin A-type.				organ morphogenesis|respiratory gaseous exchange|sphingolipid metabolic process	extracellular space|lysosome				ovary(1)|central_nervous_system(1)	2						CAATGCCCTAGGGCTCTGCAC	0.607													10	128					9.70103e-10	1.07188e-09	1	1	0		T	85894843	T	T	85894843	3	4	27	1	0	0	0	0	1	0	0	0	14216	991	35	5	1027	5	SFTPB	2	85894843	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1964	85894843	157304530	1035	23386											
POLR1A	25885	broad.mit.edu	37	chr2	86280054	86280054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcagcagtggaccaggcCgtaggcggagctcccatagt	10	6	14	11	2	0	0	0	0	0	0	1	2	1	2	3	4	3	4	3	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:86280054C>T	uc002sqs.2	-	16	2657	c.2278G>A	c.(2278-2280)GGC>AGC	p.G760S	POLR1A_uc010ytb.1_Missense_Mutation_p.G126S	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	760					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						TGGACCAGGCCGTAGGCGGAG	0.627													7	47					0	0	1	0	0		T	86280054	T	T	86280054	3	4	27	1	0	0	0	0	1	0	0	0	12228	652	23	1	2960	1	POLR1A	2	86280054	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	385211	86280054	156919319	1036	23387											
PTCD3	55037	broad.mit.edu	37	chr2	86352157	86352157	+	Silent	SNP	A	G	G																															agaatcttttctctaatgccAgagaaaaatgaacattccta																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:86352157A>G	uc002sqw.2	+	10	822	c.756A>G	c.(754-756)CCA>CCG	p.P252P	PTCD3_uc010ytc.1_RNA|PTCD3_uc002sqx.1_5'UTR	NM_017952	NP_060422	Q96EY7	PTCD3_HUMAN	pentatricopeptide repeat domain 3 precursor	252						mitochondrion	protein binding			ovary(1)	1						CTCTAATGCCAGAGAAAAATG	0.318													5	59					0	0	1	0	0		G	86352157	G	G	86352157	2	3	27	1	0	0	0	0	0	0	0	1	12751	175	7	3		3	PTCD3	2	86352157	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	72103	86352157	156847216	1037	23388	40	2									
PTCD3	55037	broad.mit.edu	37	chr2	86352159	86352159	+	Missense_Mutation	SNP	A	G	G																															aatcttttctctaatgccagAgaaaaatgaacattcctatt																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:86352159A>G	uc002sqw.2	+	10	824	c.758A>G	c.(757-759)GAG>GGG	p.E253G	PTCD3_uc010ytc.1_RNA|PTCD3_uc002sqx.1_5'UTR	NM_017952	NP_060422	Q96EY7	PTCD3_HUMAN	pentatricopeptide repeat domain 3 precursor	253						mitochondrion	protein binding			ovary(1)	1						CTAATGCCAGAGAAAAATGAA	0.318													9	53					0	0	1	0	0		G	86352159	G	G	86352159	3	3	27	1	0	0	0	0	1	0	0	0	12751	304	11	3	796	3	PTCD3	2	86352159	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2	86352159	156847214	1038	23389	40	2									
CD8B	926	broad.mit.edu	37	chr2	87042828	87042828	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaaggttcctgatatacCttccccttgaggccttgcaa	10	11	8	12	0	0	2	0	2	0	0	2	3	2	2	5	2	2	2	5	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:87042828C>A	uc002srw.2	-	6	684	c.634G>T	c.(634-636)GGT>TGT	p.G212C	RMND5A_uc002srs.3_Intron|CD8B_uc002srx.2_3'UTR|CD8B_uc002sry.2_Missense_Mutation_p.G182C|CD8B_uc010fgt.2_Missense_Mutation_p.K169N	NM_172213	NP_757362	P10966	CD8B_HUMAN	CD8b antigen isoform 2 precursor	Error:Variant_position_missing_in_P10966_after_alignment					immune response|regulation of defense response to virus by virus|regulation of immune response|T cell activation|transmembrane receptor protein tyrosine kinase signaling pathway|viral reproduction	early endosome|extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			upper_aerodigestive_tract(1)|skin(1)	2						CCTGATATACCTTCCCCTTGA	0.418													30	254					2.4375e-19	2.72986e-19	1	1	0		A	87042828	A	A	87042828	3	1	27	1	0	0	0	0	1	0	0	0	3048	681	24	5	101	5	CD8B	2	87042828	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	690669	87042828	156156545	1039	23390											
SMYD1	150572	broad.mit.edu	37	chr2	88384012	88384012	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgcccaatgagaacatcagGtgagagctgggcaccctggt	10	7	14	10	0	1	2	1	2	0	2	1	4	1	2	2	3	3	2	2	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:88384012G>C	uc002ssr.2	+	2	316	c.314_splice	c.e2+1	p.R105_splice	SMYD1_uc002ssq.1_Intron	NM_198274	NP_938015	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						AGAACATCAGGTGAGAGCTGG	0.512													10	33					0	0	1	0	0		C	88384012	C	C	88384012	5	2	27	1	0	0	0	0	0	0	1	0	14846	1275	44	5	321	5	SMYD1	2	88384012	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1341184	88384012	154815361	1040	23391											
SMYD1	150572	broad.mit.edu	37	chr2	88390634	88390634	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaccatgactgttggcccaActgtactgtcatatttaaca	12	12	7	10	0	1	1	1	1	0	0	1	2	1	1	2	1	4	2	2	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:88390634A>G	uc002ssr.2	+	4	634	c.632A>G	c.(631-633)AAC>AGC	p.N211S	SMYD1_uc002ssq.1_Intron|SMYD1_uc002sss.2_5'UTR	NM_198274	NP_938015	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	211	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						TGTTGGCCCAACTGTACTGTC	0.507													13	120					0	0	1	0	0		G	88390634	G	G	88390634	3	3	27	1	0	0	0	0	1	0	0	0	14846	43	2	3	646	3	SMYD1	2	88390634	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6622	88390634	154808739	1041	23392											
FABP1	2168	broad.mit.edu	37	chr2	88425860	88425860	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttctggatgagctcttcCggcagacctggtggaaaccg	7	9	12	13	2	2	2	0	1	2	1	3	4	3	4	4	4	2	2	4	4	1	2	rs145520267	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:88425860C>T	uc002sst.1	-	2	117	c.75G>A	c.(73-75)CCG>CCA	p.P25P	FABP1_uc002ssu.2_Silent_p.P25P	NM_001443	NP_001434	P07148	FABPL_HUMAN	fatty acid binding protein 1, liver	25					organ morphogenesis						0						TGAGCTCTTCCGGCAGACCTG	0.527													37	153					0	0	1	0	0		T	88425860	T	T	88425860	2	4	27	1	0	0	0	0	0	0	0	1	5366	639	23	1		1	FABP1	2	88425860	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	35226	88425860	154773513	1042	23393											
C2orf51	200523	broad.mit.edu	37	chr2	88828944	88828944	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcattgccatatagtcaaGgtccccatcttgaaccggtg	9	12	8	12	1	3	1	2	1	1	0	4	1	4	1	4	2	2	0	4	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:88828944G>T	uc002stb.1	+	4	637	c.495G>T	c.(493-495)AAG>AAT	p.K165N		NM_152670	NP_689883	Q96LM6	TSC21_HUMAN	chromosome 2 open reading frame 51	165						nucleus				skin(1)	1						ATATAGTCAAGGTCCCCATCT	0.522													12	65					0.0931896	0.0943152	1	1	0		T	88828944	T	T	88828944	3	4	27	1	0	0	0	0	1	0	0	0	2176	991	35	5	505	5	C2orf51	2	88828944	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	403084	88828944	154370429	1043	23394											
EIF2AK3	9451	broad.mit.edu	37	chr2	88874529	88874529	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgccaatatgcaatcgattAgttttcggctcttctttact	8	18	6	9	2	2	0	0	0	2	0	4	1	2	0	1	1	3	3	1	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:88874529A>G	uc002stc.3	-	13	2674	c.2472T>C	c.(2470-2472)ACT>ACC	p.T824T		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	824	Cytoplasmic (Potential).|Protein kinase.				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						GCAATCGATTAGTTTTCGGCT	0.398													11	116					0	0	1	0	0		G	88874529	G	G	88874529	2	3	27	1	0	0	0	0	0	0	0	1	5004	407	15	3		3	EIF2AK3	2	88874529	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	45585	88874529	154324844	1044	23395											
EIF2AK3	9451	broad.mit.edu	37	chr2	88885468	88885468	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtaaaagaagaacaggaTcctttttgcggatattcttg	13	13	10	5	1	1	2	0	0	1	2	2	4	2	4	1	2	2	1	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:88885468T>A	uc002stc.3	-	9	1743	c.1541A>T	c.(1540-1542)GAT>GTT	p.D514V		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	514	Lumenal (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						AAGAACAGGATCCTTTTTGCG	0.398													14	120					0	0	1	0	0		A	88885468	A	A	88885468	3	1	27	1	0	0	0	0	1	0	0	0	5004	1435	50	5	1845	5	EIF2AK3	2	88885468	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10939	88885468	154313905	1045	23396											
ZNF514	84874	broad.mit.edu	37	chr2	95815326	95815326	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgatgcttaataagggAtgaagtgtgaccaaaggctc	12	10	11	8	0	1	3	0	3	1	0	2	4	1	4	2	2	1	2	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:95815326A>T	uc002sue.1	-	5	1278	c.904T>A	c.(904-906)TCC>ACC	p.S302T	ZNF514_uc002sud.1_Missense_Mutation_p.S375T	NM_032788	NP_116177	Q96K75	ZN514_HUMAN	zinc finger protein 514	302	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTAATAAGGGATGAAGTGTGA	0.453													4	77					0	0	1	0	0		T	95815326	T	T	95815326	3	4	27	1	0	0	0	0	1	0	0	0	17984	333	12	5	302	5	ZNF514	2	95815326	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6929858	95815326	147384047	1046	23397											
ZNF514	84874	broad.mit.edu	37	chr2	95818505	95818505	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatcacatatggtttggatActagaaggcctgatggtaga	13	11	12	5	0	1	4	1	1	0	3	1	5	1	5	1	4	1	2	1	4	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:95818505A>G	uc002sue.1	-	4	505	c.131T>C	c.(130-132)GTA>GCA	p.V44A	ZNF514_uc002sud.1_Missense_Mutation_p.V117A	NM_032788	NP_116177	Q96K75	ZN514_HUMAN	zinc finger protein 514	44	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGGTTTGGATACTAGAAGGCC	0.483													16	207					0	0	1	0	0		G	95818505	G	G	95818505	3	3	27	1	0	0	0	0	1	0	0	0	17984	391	14	3	1079	3	ZNF514	2	95818505	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3179	95818505	147380868	1047	23398											
ZNF2	7549	broad.mit.edu	37	chr2	95846958	95846958	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcctaaatttgaagttcatAcacccaatggcaggatggga	13	10	10	8	0	1	1	1	1	0	0	2	3	2	3	2	3	1	2	2	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:95846958A>G	uc002suf.2	+	5	847	c.385A>G	c.(385-387)ACA>GCA	p.T129A	ZNF2_uc002sug.2_Missense_Mutation_p.T87A|ZNF2_uc010yue.1_Missense_Mutation_p.T91A|ZNF2_uc010fhs.2_Missense_Mutation_p.T49A	NM_021088	NP_066574	Q9BSG1	ZNF2_HUMAN	zinc finger protein 2 isoform a	129					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(717;0.00768)		READ - Rectum adenocarcinoma(193;0.0222)		TGAAGTTCATACACCCAATGG	0.498													3	94					0	0	1	0	0		G	95846958	G	G	95846958	3	3	27	1	0	0	0	0	1	0	0	0	17785	391	14	3	399	3	ZNF2	2	95846958	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	28453	95846958	147352415	1048	23399											
ZNF2	7549	broad.mit.edu	37	chr2	95847534	95847534	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagtgtaacgagtgcgggAaagctttctatggtgtctcg	9	12	14	6	3	2	1	0	1	2	0	3	3	2	2	0	2	3	2	0	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:95847534A>G	uc002suf.2	+	6	1420	c.958A>G	c.(958-960)AAA>GAA	p.K320E	ZNF2_uc002sug.2_Missense_Mutation_p.K278E|ZNF2_uc010yue.1_Missense_Mutation_p.K283E|ZNF2_uc010fhs.2_Missense_Mutation_p.K241E	NM_021088	NP_066574	Q9BSG1	ZNF2_HUMAN	zinc finger protein 2 isoform a	320	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(717;0.00768)		READ - Rectum adenocarcinoma(193;0.0222)		CGAGTGCGGGAAAGCTTTCTA	0.478													12	75					0	0	1	0	0		G	95847534	G	G	95847534	3	3	27	1	0	0	0	0	1	0	0	0	17785	247	9	3	975	3	ZNF2	2	95847534	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	576	95847534	147351839	1049	23400											
PROM2	150696	broad.mit.edu	37	chr2	95947020	95947020	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcttcctctttgctgcAcccctcatcctcctggtgtt	3	15	6	17	0	3	0	2	0	1	0	6	0	6	0	5	1	3	4	5	1	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:95947020A>G	uc002suh.1	+	12	1591	c.1458A>G	c.(1456-1458)GCA>GCG	p.A486A	PROM2_uc002sui.2_Silent_p.A486A|PROM2_uc002suj.2_Silent_p.A140A|PROM2_uc002suk.2_Silent_p.A486A|PROM2_uc002sul.2_Silent_p.A12A|PROM2_uc002sum.2_RNA	NM_144707	NP_653308	Q8N271	PROM2_HUMAN	prominin 2 precursor	486	Helical; (Potential).					apical plasma membrane|basolateral plasma membrane|cilium membrane|integral to membrane|microvillus membrane				ovary(1)	1						TCTTTGCTGCACCCCTCATCC	0.637													7	87					0	0	1	0	0		G	95947020	G	G	95947020	2	3	27	1	0	0	0	0	0	0	0	1	12578	146	6	3		3	PROM2	2	95947020	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	99486	95947020	147252353	1050	23401											
ADRA2B	151	broad.mit.edu	37	chr2	96781266	96781266	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggcccccccttggccCtgggacctctgcggttgctg	2	8	13	18	1	1	0	0	0	1	0	1	1	1	1	6	4	2	2	6	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:96781266C>A	uc002svi.2	-	1	623	c.623G>T	c.(622-624)AGG>ATG	p.R208M		NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor	208	Cytoplasmic (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	CCCCTTGGCCCTGGGACCTCT	0.627													4	31					0.150653	0.151846	1	1	0		A	96781266	A	A	96781266	3	1	27	1	0	0	0	0	1	0	0	0	338	681	24	5	724	5	ADRA2B	2	96781266	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	834246	96781266	146418107	1051	23402											
TMEM127	55654	broad.mit.edu	37	chr2	96920595	96920595	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggatatgggcgaaggcatAgcgacgagtgatcttcagag	12	8	15	6	3	2	2	1	1	1	1	2	6	2	3	0	3	1	1	0	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:96920595A>G	uc002svq.2	-	3	642	c.385T>C	c.(385-387)TAT>CAT	p.Y129H	TMEM127_uc002svr.2_Missense_Mutation_p.Y129H	NM_017849	NP_060319	O75204	TM127_HUMAN	transmembrane protein 127	129					negative regulation of cell proliferation|negative regulation of TOR signaling cascade	cytoplasm|integral to membrane|plasma membrane					0						GCGAAGGCATAGCGACGAGTG	0.582									Pheochromocytoma_(Adrenal)_Familial				9	158					0	0	1	0	0		G	96920595	G	G	96920595	3	3	27	1	0	0	0	0	1	0	0	0	16065	420	15	3	339	3	TMEM127	2	96920595	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	139329	96920595	146278778	1052	23403											
LMAN2L	81562	broad.mit.edu	37	chr2	97377612	97377612	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactctcaccgtcaaatgccTcttgacgtagcgaatcacca	11	9	7	14	3	4	1	3	1	2	0	5	3	4	1	3	0	2	1	3	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:97377612T>A	uc002swu.2	-	5	694	c.658A>T	c.(658-660)AGG>TGG	p.R220W	LMAN2L_uc002swv.2_Missense_Mutation_p.R231W|LMAN2L_uc010yut.1_Missense_Mutation_p.R86W|LMAN2L_uc010yuu.1_Missense_Mutation_p.R84W|LMAN2L_uc010yuv.1_Missense_Mutation_p.R73W|LMAN2L_uc010yuw.1_Missense_Mutation_p.R75W|LMAN2L_uc002sww.2_Missense_Mutation_p.R73W|LMAN2L_uc010yux.1_Missense_Mutation_p.R75W	NM_030805	NP_110432	Q9H0V9	LMA2L_HUMAN	lectin, mannose-binding 2-like isoform 2	220	L-type lectin-like.|Lumenal (Potential).				ER to Golgi vesicle-mediated transport|protein folding|protein transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle|Golgi membrane|integral to membrane	mannose binding|metal ion binding				0						GTCAAATGCCTCTTGACGTAG	0.537													10	77					0	0	1	0	0		A	97377612	A	A	97377612	3	1	27	1	0	0	0	0	1	0	0	0	8856	1550	54	5	404	5	LMAN2L	2	97377612	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	457017	97377612	145821761	1053	23404											
CNNM3	26505	broad.mit.edu	37	chr2	97490873	97490873	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacgaggtcctgggcctggTcaccctggaggacgtgatcg	6	8	15	12	3	1	1	1	1	0	0	3	4	2	3	3	5	1	0	3	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:97490873T>A	uc002swy.2	+	2	1328	c.1304T>A	c.(1303-1305)GTC>GAC	p.V435D	CNNM3_uc002swz.2_Intron	NM_017623	NP_060093	Q8NE01	CNNM3_HUMAN	cyclin M3 isoform 1	435	CBS 2.				ion transport	integral to membrane|plasma membrane	protein binding			ovary(1)	1						CTGGGCCTGGTCACCCTGGAG	0.597													5	42					0	0	1	0	0		A	97490873	A	A	97490873	3	1	27	1	0	0	0	0	1	0	0	0	3617	1667	58	5	1310	5	CNNM3	2	97490873	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	113261	97490873	145708500	1054	23405											
CNNM3	26505	broad.mit.edu	37	chr2	97493602	97493602	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accactacctgtaccagcgcAgccagccggtggattacttc	9	8	9	15	2	0	0	0	0	0	0	1	1	0	1	5	2	6	2	5	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:97493602A>G	uc002swy.2	+	4	1678	c.1654A>G	c.(1654-1656)AGC>GGC	p.S552G	CNNM3_uc002swz.2_Missense_Mutation_p.S504G	NM_017623	NP_060093	Q8NE01	CNNM3_HUMAN	cyclin M3 isoform 1	552					ion transport	integral to membrane|plasma membrane	protein binding			ovary(1)	1						GTACCAGCGCAGCCAGCCGGT	0.587													8	62					0	0	1	0	0		G	97493602	G	G	97493602	3	3	27	1	0	0	0	0	1	0	0	0	3617	188	7	3	1668	3	CNNM3	2	97493602	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2729	97493602	145705771	1055	23406											
SEMA4C	54910	broad.mit.edu	37	chr2	97527061	97527061	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggcatcgtagaggaaggAcccgggctgttccgcaggca	8	5	16	12	4	0	1	0	0	0	1	2	3	1	3	3	5	0	6	3	5	2	2	rs142553481	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:97527061A>T	uc002sxh.3	-	15	1964	c.1804T>A	c.(1804-1806)TCC>ACC	p.S602T	SEMA4C_uc002sxf.3_Missense_Mutation_p.S102T|SEMA4C_uc002sxe.2_Missense_Mutation_p.S143T|SEMA4C_uc002sxg.3_Missense_Mutation_p.S655T	NM_017789	NP_060259	Q9C0C4	SEM4C_HUMAN	semaphorin 4C precursor	602	Extracellular (Potential).|Ig-like C2-type.			S -> T (in Ref. 1; AAQ89201).	muscle cell differentiation|nervous system development|positive regulation of stress-activated MAPK cascade	cell junction|integral to membrane|postsynaptic density|postsynaptic membrane|synaptic vesicle membrane	receptor activity			skin(2)	2						TAGAGGAAGGACCCGGGCTGT	0.701													3	37					0	0	1	0	0		T	97527061	T	T	97527061	3	4	27	1	0	0	0	0	1	0	0	0	14058	275	10	5	701	5	SEMA4C	2	97527061	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	33459	97527061	145672312	1056	23407											
ANKRD36B	57730	broad.mit.edu	37	chr2	98162180	98162180	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggccatattcggaacagAatcttccttgtcacttgtag	9	14	9	9	1	2	1	1	0	1	1	4	2	3	2	2	2	1	1	2	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:98162180A>G	uc010yvc.1	-	24	1910	c.1630T>C	c.(1630-1632)TCT>CCT	p.S544P		NM_025190	NP_079466	Q8N2N9	AN36B_HUMAN	ankyrin repeat domain 36B	544											0						TTCGGAACAGAATCTTCCTTG	0.318													4	20					0	0	1	0	0		G	98162180	G	G	98162180	3	3	27	1	0	0	0	0	1	0	0	0	666	246	9	3	2511	3	ANKRD36B	2	98162180	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	635119	98162180	145037193	1057	23408											
ANKRD36B	57730	broad.mit.edu	37	chr2	98175328	98175328	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacagaatctttctcgtcacTtgtagcctgaatgggatttg	10	14	9	8	1	3	2	1	1	2	1	4	3	3	3	1	1	2	1	1	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:98175328T>C	uc010yvc.1	-	10	1181	c.901A>G	c.(901-903)AGT>GGT	p.S301G	ANKRD36B_uc010yve.1_RNA|ANKRD36B_uc010fif.2_RNA	NM_025190	NP_079466	Q8N2N9	AN36B_HUMAN	ankyrin repeat domain 36B	301											0						TTCTCGTCACTTGTAGCCTGA	0.318													5	45					0	0	1	0	0		C	98175328	C	C	98175328	3	2	27	1	0	0	0	0	1	0	0	0	666	1609	56	3	3296	3	ANKRD36B	2	98175328	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	13148	98175328	145024045	1058	23409											
ACTR1B	10120	broad.mit.edu	37	chr2	98275349	98275349	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggagcactcacagactgaGcacagcctgcatggagatga	13	5	13	10	0	1	4	1	2	0	2	1	6	1	5	1	2	4	3	1	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:98275349G>T	uc002syb.2	-	5	641	c.433C>A	c.(433-435)CTC>ATC	p.L145I		NM_005735	NP_005726	P42025	ACTY_HUMAN	ARP1 actin-related protein 1 homolog B,	145						centrosome|dynactin complex	ATP binding|protein binding			skin(1)	1						CACAGACTGAGCACAGCCTGC	0.602													14	99					2.31682e-05	2.47736e-05	1	1	0		T	98275349	T	T	98275349	3	4	27	1	0	0	0	0	1	0	0	0	210	971	34	5	725	5	ACTR1B	2	98275349	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	100021	98275349	144924024	1059	23410											
ACTR1B	10120	broad.mit.edu	37	chr2	98275934	98275934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggatggtcagcagcccccGgtgctcctggtggggtggga	4	7	19	11	2	1	0	1	0	0	0	2	2	2	2	3	7	3	2	3	7	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:98275934G>A	uc002syb.2	-	4	404	c.196C>T	c.(196-198)CGG>TGG	p.R66W		NM_005735	NP_005726	P42025	ACTY_HUMAN	ARP1 actin-related protein 1 homolog B,	66						centrosome|dynactin complex	ATP binding|protein binding			skin(1)	1						AGCAGCCCCCGGTGCTCCTGG	0.647													16	195					0	0	1	0	0		A	98275934	A	A	98275934	3	1	27	1	0	0	0	0	1	0	0	0	210	1115	39	1	966	1	ACTR1B	2	98275934	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	585	98275934	144923439	1060	23411											
LIPT1	51601	broad.mit.edu	37	chr2	99778419	99778419	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtcttccatttttaaaaGcatgctgatcccattttcaa	10	18	4	9	0	2	1	1	1	1	0	4	1	4	1	2	0	2	2	2	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:99778419G>A	uc002szm.3	+	4	340	c.0_splice	c.e4-1		MRPL30_uc002szl.1_Intron|LIPT1_uc002szn.3_Splice_Site|LIPT1_uc002szo.3_Splice_Site|LIPT1_uc002szp.3_Splice_Site|LIPT1_uc002szq.3_Splice_Site|MRPL30_uc002szr.2_Intron	NM_145198	NP_660199	Q9Y234	LIPT_HUMAN	lipoyltransferase 1 precursor						lipid metabolic process|protein lipoylation	mitochondrion	acyltransferase activity				0					Lipoic Acid(DB00166)	ATTTTTAAAAGCATGCTGATC	0.318													6	23					0	0	1	0	0		A	99778419	A	A	99778419	5	1	27	1	0	0	0	0	0	0	1	0	8846	985	34	2	1	2	LIPT1	2	99778419	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1502485	99778419	143420954	1061	23412											
TXNDC9	10190	broad.mit.edu	37	chr2	99944055	99944055	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcactctccttgacttctTgaaaaaagtctctttcacta	10	17	3	11	0	5	2	2	2	3	0	7	2	5	2	1	0	0	0	1	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:99944055T>C	uc002szz.2	-	3	442	c.251A>G	c.(250-252)CAA>CGA	p.Q84R	TXNDC9_uc010yvp.1_Missense_Mutation_p.Q101R|TXNDC9_uc002taa.1_Missense_Mutation_p.Q84R	NM_005783	NP_005774	O14530	TXND9_HUMAN	thioredoxin domain containing 9	84	Thioredoxin.				cell redox homeostasis		protein binding				0						CTTGACTTCTTGAAAAAAGTC	0.373													30	63					0	0	1	0	0		C	99944055	C	C	99944055	3	2	27	1	0	0	0	0	1	0	0	0	16828	1812	63	3	441	3	TXNDC9	2	99944055	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	165636	99944055	143255318	1062	23413											
NPAS2	4862	broad.mit.edu	37	chr2	101584868	101584868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccaagcccgagttcatcGtgtgcacacactcggtggtc	8	9	10	14	3	1	0	1	0	0	0	5	1	2	0	2	2	2	2	2	2	1	1	rs143509936		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:101584868G>A	uc002tap.1	+	11	1319	c.1033G>A	c.(1033-1035)GTG>ATG	p.V345M	NPAS2_uc010yvt.1_Missense_Mutation_p.V410M	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	345	PAC.				central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						CGAGTTCATCGTGTGCACACA	0.612													23	55					0	0	1	0	0		A	101584868	A	A	101584868	3	1	27	1	0	0	0	0	1	0	0	0	10582	1145	40	1	1071	1	NPAS2	2	101584868	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1640813	101584868	141614505	1063	23414											
NPAS2	4862	broad.mit.edu	37	chr2	101591290	101591290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggctcaagcctggaacctcGgcagcactttaacacactcg	10	7	10	14	2	1	0	1	0	0	0	3	1	1	1	2	3	4	3	2	3	3	2	rs77601858	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:101591290G>A	uc002tap.1	+	13	1452	c.1166G>A	c.(1165-1167)CGG>CAG	p.R389Q	NPAS2_uc010yvt.1_Missense_Mutation_p.R454Q|NPAS2_uc010fit.1_5'UTR	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	389					central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						CTGGAACCTCGGCAGCACTTT	0.517													9	57					0	0	1	0	0		A	101591290	A	A	101591290	3	1	27	1	0	0	0	0	1	0	0	0	10582	1116	39	1	1212	1	NPAS2	2	101591290	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6422	101591290	141608083	1064	23415											
TBC1D8	11138	broad.mit.edu	37	chr2	101656725	101656725	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggcgaacatccgccccGtggtgtgacagcgactgaac	10	5	13	13	4	0	3	0	2	0	1	1	5	1	3	3	2	3	0	3	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:101656725G>A	uc010fiv.2	-	6	1081	c.950C>T	c.(949-951)ACG>ATG	p.T317M	TBC1D8_uc010yvw.1_Missense_Mutation_p.T332M|TBC1D8_uc002tau.3_Missense_Mutation_p.T74M	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8	317	GRAM 2.				blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						CATCCGCCCCGTGGTGTGACA	0.567													4	66					0	0	1	0	0		A	101656725	A	A	101656725	3	1	27	1	0	0	0	0	1	0	0	0	15650	1145	40	1	2532	1	TBC1D8	2	101656725	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	65435	101656725	141542648	1065	23416											
MAP4K4	9448	broad.mit.edu	37	chr2	102490623	102490623	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcagtggtcaatgtgaaTcctaccaacactaggccaca	12	8	9	12	0	2	1	2	1	0	0	3	1	3	1	3	3	2	1	3	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:102490623T>A	uc002tbg.2	+	23	2770	c.2715T>A	c.(2713-2715)AAT>AAA	p.N905K	MAP4K4_uc002tbc.2_Missense_Mutation_p.N986K|MAP4K4_uc002tbd.2_Missense_Mutation_p.N878K|MAP4K4_uc002tbe.2_Missense_Mutation_p.N824K|MAP4K4_uc002tbf.2_Missense_Mutation_p.N939K|MAP4K4_uc010yvy.1_Missense_Mutation_p.N901K|MAP4K4_uc002tbh.2_Missense_Mutation_p.N823K|MAP4K4_uc002tbi.2_Missense_Mutation_p.N708K|MAP4K4_uc010yvz.1_Missense_Mutation_p.N945K|MAP4K4_uc002tbk.2_Missense_Mutation_p.N360K|MAP4K4_uc002tbl.2_Missense_Mutation_p.N91K	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	905	Mediates interaction with RAP2A.				intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TCAATGTGAATCCTACCAACA	0.463													8	33					0	0	1	0	0		A	102490623	A	A	102490623	3	1	27	1	0	0	0	0	1	0	0	0	9280	1432	50	5	3056	5	MAP4K4	2	102490623	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	833898	102490623	140708750	1066	23417											
IL1R1	3554	broad.mit.edu	37	chr2	102781255	102781255	+	Frame_Shift_Del	DEL	A	-	-																															taaatgcaaggaacgtgaagAaaaaataattttagtgtcat																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:102781255delA	uc002tbq.2	+	4	401	c.83delA	c.(82-84)GAAfs	p.E28fs	IL1R1_uc010fix.2_Frame_Shift_Del_p.E28fs|IL1R1_uc002tbp.2_Frame_Shift_Del_p.E28fs|IL1R1_uc002tbr.2_Frame_Shift_Del_p.E28fs	NM_000877	NP_000868	P14778	IL1R1_HUMAN	interleukin 1 receptor, type I precursor	28	Extracellular (Potential).|Ig-like C2-type 1.				innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity|platelet-derived growth factor receptor binding			skin(1)	1					Anakinra(DB00026)	GAACGTGAAGAAAAAATAATT	0.343													13	19	---	---	---	---						.	-	102781255	-	-	102781255	7	5	27	1	0	1	0	1	0	0	0	0	7674	246	9	0	89	0	IL1R1	2	102781255	Frame_Shift_Del	DEL	A	TCGA-BR-6452-01A-12D-1800-08	290632	102781255	140418118	1067	23418											
IL1R1	3554	broad.mit.edu	37	chr2	102781461	102781461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaggacattactattgcGtggtaaggtaagagaggaat	14	11	12	4	1	1	1	1	0	0	1	1	4	1	3	0	4	2	2	0	4	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:102781461G>A	uc002tbq.2	+	4	607	c.289G>A	c.(289-291)GTG>ATG	p.V97M	IL1R1_uc010fix.2_Missense_Mutation_p.V97M|IL1R1_uc002tbp.2_Missense_Mutation_p.V97M|IL1R1_uc002tbr.2_Missense_Mutation_p.V97M	NM_000877	NP_000868	P14778	IL1R1_HUMAN	interleukin 1 receptor, type I precursor	97	Extracellular (Potential).|Ig-like C2-type 1.				innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity|platelet-derived growth factor receptor binding			skin(1)	1					Anakinra(DB00026)	TTACTATTGCGTGGTAAGGTA	0.373													4	63					0	0	1	0	0		A	102781461	A	A	102781461	3	1	27	1	0	0	0	0	1	0	0	0	7674	1145	40	1	295	1	IL1R1	2	102781461	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	206	102781461	140417912	1068	23419											
IL1RL2	8808	broad.mit.edu	37	chr2	102842390	102842390	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcttacttgataggagggCttatcgccttggtggctgtg	6	13	15	7	1	0	1	0	1	0	0	1	3	0	2	1	4	2	3	1	4	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:102842390C>A	uc002tbs.2	+	9	1150	c.1024C>A	c.(1024-1026)CTT>ATT	p.L342I	IL1RL2_uc002tbt.2_Missense_Mutation_p.L224I	NM_003854	NP_003845	Q9HB29	ILRL2_HUMAN	interleukin 1 receptor-like 2 precursor	342	Helical; (Potential).				cellular defense response|innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity			ovary(2)	2						GATAGGAGGGCTTATCGCCTT	0.348													7	25					1.6384e-10	1.81386e-10	1	1	0		A	102842390	A	A	102842390	3	1	27	1	0	0	0	0	1	0	0	0	7680	797	28	5	1054	5	IL1RL2	2	102842390	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	60929	102842390	140356983	1069	23420											
IL1RL2	8808	broad.mit.edu	37	chr2	102851656	102851656	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagttttggaagacagtgAgataccacatgccgcccaga	13	7	10	11	1	0	3	0	1	0	3	0	5	0	4	4	1	2	1	4	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:102851656A>G	uc002tbs.2	+	11	1723	c.1597A>G	c.(1597-1599)AGA>GGA	p.R533G	IL1RL2_uc002tbt.2_Missense_Mutation_p.R415G	NM_003854	NP_003845	Q9HB29	ILRL2_HUMAN	interleukin 1 receptor-like 2 precursor	533	TIR.|Cytoplasmic (Potential).				cellular defense response|innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity			ovary(2)	2						GAAGACAGTGAGATACCACAT	0.567											OREG0014848	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	69					0	0	1	0	0		G	102851656	G	G	102851656	3	3	27	1	0	0	0	0	1	0	0	0	7680	296	11	3	1635	3	IL1RL2	2	102851656	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	9266	102851656	140347717	1070	23421											
IL1RL1	9173	broad.mit.edu	37	chr2	102955465	102955465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttctgaagtttctaccagCtgcagttgctgattctggta	8	15	9	9	0	3	2	0	2	3	0	3	2	3	2	1	1	4	6	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:102955465C>T	uc002tbu.1	+	3	501	c.230C>T	c.(229-231)GCT>GTT	p.A77V	IL1RL1_uc010ywa.1_5'UTR|IL18R1_uc002tbw.3_Intron|IL1RL1_uc002tbv.2_Missense_Mutation_p.A77V	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	77	Extracellular (Potential).|Ig-like C2-type 1.				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4						TTTCTACCAGCTGCAGTTGCT	0.433													10	186					0	0	1	0	0		T	102955465	T	T	102955465	3	4	27	1	0	0	0	0	1	0	0	0	7679	797	28	2	236	2	IL1RL1	2	102955465	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	103809	102955465	140243908	1071	23422											
IL1RL1	9173	broad.mit.edu	37	chr2	102968241	102968241	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaagtacaggggaccatcAagtggagggaggaccacatt	14	6	14	7	0	1	1	1	1	0	0	1	5	1	5	2	5	1	1	2	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:102968241A>G	uc002tbu.1	+	11	1802	c.1531A>G	c.(1531-1533)AAG>GAG	p.K511E	IL18R1_uc002tbw.3_Intron	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	511	TIR.|Cytoplasmic (Potential).				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4						GGGGACCATCAAGTGGAGGGA	0.498													3	47					0	0	1	0	0		G	102968241	G	G	102968241	3	3	27	1	0	0	0	0	1	0	0	0	7679	131	5	3	1586	3	IL1RL1	2	102968241	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	12776	102968241	140231132	1072	23423											
IL18R1	8809	broad.mit.edu	37	chr2	103010928	103010928	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagccaatcttacctcctaGatggaaaaacatatgatgct	15	10	7	9	0	1	3	0	1	1	2	2	4	2	4	3	1	4	1	3	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:103010928G>A	uc002tbw.3	+	10	1262	c.1112_splice	c.e10-1	p.D371_splice	IL18R1_uc010ywc.1_Splice_Site_p.D370_splice|IL18R1_uc010ywd.1_Splice_Site_p.D215_splice|IL18R1_uc010fiy.2_Splice_Site_p.D371_splice	NM_003855	NP_003846	Q13478	IL18R_HUMAN	interleukin 18 receptor 1 precursor						innate immune response	integral to membrane|plasma membrane	interleukin-1 receptor activity			ovary(2)|pancreas(1)	3						TTACCTCCTAGATGGAAAAAC	0.348													4	59					0	0	1	0	0		A	103010928	A	A	103010928	5	1	27	1	0	0	0	0	0	0	1	0	7663	956	33	4	1145	4	IL18R1	2	103010928	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	42687	103010928	140188445	1073	23424											
IL18RAP	8807	broad.mit.edu	37	chr2	103040692	103040692	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttgttaatttcctaggAgcccctatgatgtagcctgt	8	15	9	9	0	1	1	0	1	1	0	2	3	2	2	4	1	2	2	4	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:103040692A>C	uc002tbx.2	+	5	881	c.397A>C	c.(397-399)AGC>CGC	p.S133R	IL18RAP_uc010fiz.2_5'UTR	NM_003853	NP_003844	O95256	I18RA_HUMAN	interleukin 18 receptor accessory protein	133	Extracellular (Potential).				cell surface receptor linked signaling pathway|inflammatory response|innate immune response	integral to membrane	transmembrane receptor activity			skin(3)|ovary(2)	5						ATTTCCTAGGAGCCCCTATGA	0.299													12	59					0	0	1	0	0		C	103040692	C	C	103040692	3	2	27	1	0	0	0	0	1	0	0	0	7664	318	11	5	407	5	IL18RAP	2	103040692	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	29764	103040692	140158681	1074	23425											
SLC9A4	389015	broad.mit.edu	37	chr2	103090419	103090419	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactggattatgactatgtGcaaattccttatgaggtcac	12	13	9	7	0	1	2	1	2	0	0	2	4	2	3	1	2	2	1	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:103090419G>A	uc002tbz.3	+	1	658	c.201G>A	c.(199-201)GTG>GTA	p.V67V		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	67	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						ATGACTATGTGCAAATTCCTT	0.413													12	113					0	0	1	0	0		A	103090419	A	A	103090419	2	1	27	1	0	0	0	0	0	0	0	1	14741	1306	46	2		2	SLC9A4	2	103090419	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	49727	103090419	140108954	1075	23426											
SLC9A4	389015	broad.mit.edu	37	chr2	103121821	103121821	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgctgagcagcgtcagcgaGaccttgatcttcatcttcat	9	12	9	11	2	5	3	3	2	2	1	5	4	5	3	1	0	4	2	1	0	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:103121821G>C	uc002tbz.3	+	4	1546	c.1089G>C	c.(1087-1089)GAG>GAC	p.E363D		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	363	Helical; Name=J/M8; (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						GCGTCAGCGAGACCTTGATCT	0.498													18	51					0	0	1	0	0		C	103121821	C	C	103121821	3	2	27	1	0	0	0	0	1	0	0	0	14741	933	33	5	1103	5	SLC9A4	2	103121821	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31402	103121821	140077552	1076	23427											
SLC9A4	389015	broad.mit.edu	37	chr2	103130670	103130670	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccatcgagatggtggagActgggatactgagctctaca	12	8	13	8	1	1	3	0	1	1	2	2	6	1	4	1	3	4	1	1	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:103130670A>G	uc002tbz.3	+	8	2138	c.1681A>G	c.(1681-1683)ACT>GCT	p.T561A		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	561	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						GATGGTGGAGACtgggatact	0.219													10	100					0	0	1	0	0		G	103130670	G	G	103130670	3	3	27	1	0	0	0	0	1	0	0	0	14741	275	10	3	1711	3	SLC9A4	2	103130670	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8849	103130670	140068703	1077	23428											
FHL2	2274	broad.mit.edu	37	chr2	105984137	105984137	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaattggctgctggcagcGgtggcagatgaagcaggtct	8	9	15	9	1	1	2	0	1	1	1	2	2	2	2	1	5	3	5	1	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:105984137G>T	uc002tcu.2	-	4	728	c.391C>A	c.(391-393)CGC>AGC	p.R131S	FHL2_uc002tdc.2_Missense_Mutation_p.R17S|FHL2_uc002tdd.2_Missense_Mutation_p.R131S|FHL2_uc002tct.2_Missense_Mutation_p.R17S|FHL2_uc002tcv.2_Missense_Mutation_p.R131S|FHL2_uc002tcw.2_Missense_Mutation_p.R131S|FHL2_uc002tcx.2_Missense_Mutation_p.R131S|FHL2_uc010fje.2_Missense_Mutation_p.R44S|FHL2_uc002tcy.2_Missense_Mutation_p.R131S|FHL2_uc002tcz.2_Missense_Mutation_p.R241S|FHL2_uc002tda.2_RNA|FHL2_uc002tdb.2_Missense_Mutation_p.R247S	NM_201557	NP_963851	Q14192	FHL2_HUMAN	four and a half LIM domains 2	131	LIM zinc-binding 2.				androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription, DNA-dependent|response to hormone stimulus|transcription, DNA-dependent	actin cytoskeleton|focal adhesion|nucleus	androgen receptor binding|identical protein binding|transcription coactivator activity|zinc ion binding			ovary(1)	1						TGCTGGCAGCGGTGGCAGATG	0.507													33	106					1.61788e-16	1.80918e-16	1	1	0		T	105984137	T	T	105984137	3	4	27	1	0	0	0	0	1	0	0	0	5893	1116	39	5	460	5	FHL2	2	105984137	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2853467	105984137	137215236	1078	23429											
C2orf40	84417	broad.mit.edu	37	chr2	106690348	106690348	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgatgatttcagcacctgTtccaactaagactaaagtgg	13	12	8	8	0	1	3	1	2	0	1	2	3	2	3	2	1	2	2	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:106690348T>C	uc010fjf.2	+	3	242	c.134T>C	c.(133-135)GTT>GCT	p.V45A		NM_032411	NP_115787	Q9H1Z8	AUGN_HUMAN	esophageal cancer related gene 4 protein	45						extracellular region|transport vesicle					0						TCAGCACCTGTTCCAACTAAG	0.522													20	180					0	0	1	0	0		C	106690348	C	C	106690348	3	2	27	1	0	0	0	0	1	0	0	0	2168	1725	60	3	144	3	C2orf40	2	106690348	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	706211	106690348	136509025	1079	23430											
C2orf40	84417	broad.mit.edu	37	chr2	106694242	106694242	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttgaagatgacatcaccTattggcttaacagagatcga	15	11	8	7	1	1	4	1	2	0	2	2	6	1	4	1	1	1	1	1	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:106694242T>G	uc010fjf.2	+	4	415	c.307T>G	c.(307-309)TAT>GAT	p.Y103D		NM_032411	NP_115787	Q9H1Z8	AUGN_HUMAN	esophageal cancer related gene 4 protein	103						extracellular region|transport vesicle					0						TGACATCACCTATTGGCTTAA	0.433													7	101					0	0	1	0	0		G	106694242	G	G	106694242	3	3	27	1	0	0	0	0	1	0	0	0	2168	1522	53	5	321	5	C2orf40	2	106694242	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3894	106694242	136505131	1080	23431											
RGPD4	285190	broad.mit.edu	37	chr2	108487789	108487789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaagtactaaaagtgtgtgCtaatcattggataacgacta	16	11	8	6	1	1	0	1	0	0	0	1	2	1	1	0	1	3	2	0	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:108487789C>T	uc010ywk.1	+	20	3411	c.3329C>T	c.(3328-3330)GCT>GTT	p.A1110V	RGPD4_uc002tdu.2_Missense_Mutation_p.A297V|RGPD4_uc010ywl.1_RNA	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	1110	RanBD1 1.				intracellular transport		binding			skin(2)	2						AAAGTGTGTGCTAATCATTGG	0.433													42	139					0	0	1	0	0		T	108487789	T	T	108487789	3	4	27	1	0	0	0	0	1	0	0	0	13313	797	28	2	3407	2	RGPD4	2	108487789	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1793547	108487789	134711584	1081	23432											
GCC2	9648	broad.mit.edu	37	chr2	109116185	109116185	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctcagccctgaagaaaaGggaaaacttgctgcggttgc	12	7	12	10	1	1	2	1	1	0	1	1	3	1	3	1	2	6	3	1	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:109116185G>T	uc002tec.2	+	22	5113	c.4959G>T	c.(4957-4959)AAG>AAT	p.K1653N	GCC2_uc002ted.2_Missense_Mutation_p.K1552N	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	1653	Mediates interaction with RAB9A.|GRIP.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						CTGAAGAAAAGGGAAAACTTG	0.433													14	309					9.16793e-09	1.00948e-08	1	1	0		T	109116185	T	T	109116185	3	4	27	1	0	0	0	0	1	0	0	0	6301	991	35	5	5045	5	GCC2	2	109116185	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	628396	109116185	134083188	1082	23433											
RANBP2	5903	broad.mit.edu	37	chr2	109371632	109371632	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatttttatttttttttagTattctcccaaaacaccacct	10	21	1	9	0	1	0	0	0	1	0	2	0	1	0	3	0	1	1	3	0	6	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:109371632T>A	uc002tem.3	+	17	2509	c.2383T>A	c.(2383-2385)TAT>AAT	p.Y795N		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	795					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TTTTTTTTAGTATTCTCCCAA	0.318													24	259					0	0	1	0	0		A	109371632	A	A	109371632	3	1	27	1	0	0	0	0	1	0	0	0	13053	1652	57	5	2449	5	RANBP2	2	109371632	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	255447	109371632	133827741	1083	23434											
RANBP2	5903	broad.mit.edu	37	chr2	109371714	109371714	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaacaagtagaggccattaAggtaagtcacttaatttctc	14	11	7	9	0	2	1	1	0	1	1	3	1	2	1	2	2	1	2	2	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:109371714A>C	uc002tem.3	+	17	2591	c.2465A>C	c.(2464-2466)AAG>ACG	p.K822T		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	822					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GAGGCCATTAAGGTAAGTCAC	0.378													6	217					0	0	1	0	0		C	109371714	C	C	109371714	3	2	27	1	0	0	0	0	1	0	0	0	13053	86	3	5	2531	5	RANBP2	2	109371714	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	82	109371714	133827659	1084	23435											
RANBP2	5903	broad.mit.edu	37	chr2	109379876	109379876	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcgcccaggggtgatgatTactttaattacaatgttcaa	12	14	8	7	1	1	2	1	2	0	0	2	2	1	2	1	2	2	1	1	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:109379876T>C	uc002tem.3	+	20	3007	c.2881T>C	c.(2881-2883)TAC>CAC	p.Y961H		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	961					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GGGTGATGATTACTTTAATTA	0.448													5	103					0	0	1	0	0		C	109379876	C	C	109379876	3	2	27	1	0	0	0	0	1	0	0	0	13053	1754	61	3	2959	3	RANBP2	2	109379876	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8162	109379876	133819497	1085	23436											
RANBP2	5903	broad.mit.edu	37	chr2	109380767	109380767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatgaaattgacaccaaatGctggatcagacagatctttt	15	12	7	7	0	2	4	1	2	1	2	2	5	2	5	1	1	1	1	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:109380767G>A	uc002tem.3	+	20	3898	c.3772G>A	c.(3772-3774)GCT>ACT	p.A1258T		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1258	RanBD1 1.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GACACCAAATGCTGGATCAGA	0.388													14	62					0	0	1	0	0		A	109380767	A	A	109380767	3	1	27	1	0	0	0	0	1	0	0	0	13053	1319	46	2	3850	2	RANBP2	2	109380767	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	891	109380767	133818606	1086	23437											
RANBP2	5903	broad.mit.edu	37	chr2	109380996	109380996	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtcatgataacaaggataTttgcaaatctgatgctggaa	16	11	9	5	0	2	2	1	2	1	0	2	4	2	4	0	2	3	2	0	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:109380996T>C	uc002tem.3	+	20	4127	c.4001T>C	c.(4000-4002)ATT>ACT	p.I1334T		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1334					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						AACAAGGATATTTGCAAATCT	0.408													7	53					0	0	1	0	0		C	109380996	C	C	109380996	3	2	27	1	0	0	0	0	1	0	0	0	13053	1493	52	3	4079	3	RANBP2	2	109380996	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	229	109380996	133818377	1087	23438											
EDAR	10913	broad.mit.edu	37	chr2	109526978	109526978	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcatccttctcggagaacatCaccacgttgtctgcagggaa	10	10	9	12	2	4	1	2	0	2	1	6	3	5	2	2	2	2	2	2	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:109526978C>T	uc002teq.3	-	9	1172	c.741G>A	c.(739-741)GTG>GTA	p.V247V	EDAR_uc010fjn.2_Silent_p.V279V|EDAR_uc010yws.1_Silent_p.V279V	NM_022336	NP_071731	Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor precursor	247	Cytoplasmic (Potential).				apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1						CGGAGAACATCACCACGTTGT	0.552													6	53					0	0	1	0	0		T	109526978	T	T	109526978	2	4	27	1	0	0	0	0	0	0	0	1	4911	813	29	4		4	EDAR	2	109526978	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	145982	109526978	133672395	1088	23439											
ANKRD57	65124	broad.mit.edu	37	chr2	110373498	110373498	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcaacaaaatccgattcAgaacccagatcgtccacacc	15	6	5	15	2	2	2	2	0	0	2	5	4	4	2	4	0	2	0	4	0	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:110373498A>G	uc002tfb.2	+	1	1588	c.1432A>G	c.(1432-1434)AGA>GGA	p.R478G	SEPT10_uc010ywu.1_5'Flank|SEPT10_uc002tew.2_5'Flank|SEPT10_uc002tex.2_5'Flank|SEPT10_uc002tey.2_5'Flank|SEPT10_uc010ywv.1_5'Flank	NM_023016	NP_075392	Q53LP3	ANR57_HUMAN	ankyrin repeat domain 57	478											0						AATCCGATTCAGAACCCAGAT	0.602													8	67					0	0	1	0	0		G	110373498	G	G	110373498	3	3	27	1	0	0	0	0	1	0	0	0	683	180	7	3	1434	3	ANKRD57	2	110373498	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	846520	110373498	132825875	1089	23440											
MERTK	10461	broad.mit.edu	37	chr2	112751930	112751930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggattgcagccgtcaccagaGggggagttgggcccttcagt	7	8	16	10	1	2	1	2	0	0	1	2	3	2	3	3	4	2	2	3	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:112751930G>A	uc002thk.1	+	9	1521	c.1399G>A	c.(1399-1401)GGG>AGG	p.G467R	MERTK_uc002thl.1_Missense_Mutation_p.G291R	NM_006343	NP_006334	Q12866	MERTK_HUMAN	MER receptor tyrosine kinase precursor	467	Fibronectin type-III 2.|Extracellular (Potential).				cell surface receptor linked signaling pathway|cell-cell signaling|leukocyte migration	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|upper_aerodigestive_tract(1)|stomach(1)|kidney(1)	9						CGTCACCAGAGGGGGAGTTGG	0.537													7	136					0	0	1	0	0		A	112751930	A	A	112751930	3	1	27	1	0	0	0	0	1	0	0	0	9497	1000	35	4	1433	4	MERTK	2	112751930	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2378432	112751930	130447443	1090	23441											
ZC3H6	376940	broad.mit.edu	37	chr2	113089388	113089388	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaattaggagatcctagaCtacaaaaaaattttgatcct	17	12	5	7	0	0	3	0	1	0	2	2	4	2	3	2	1	1	0	2	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:113089388C>G	uc002thq.1	+	12	3287	c.2893C>G	c.(2893-2895)CTA>GTA	p.L965V		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	965							nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						AGATCCTAGACTACAAAAAAA	0.418													6	74					0	0	1	0	0		G	113089388	G	G	113089388	3	3	27	1	0	0	0	0	1	0	0	0	17596	564	20	5	2939	5	ZC3H6	2	113089388	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	337458	113089388	130109985	1091	23442											
ZC3H6	376940	broad.mit.edu	37	chr2	113090015	113090015	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagaaacagatgacaaatctCtgaaagaggtttttaaaact	18	10	8	5	0	1	5	0	2	1	3	2	6	1	5	0	1	2	1	0	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:113090015C>T	uc002thq.1	+	12	3914	c.3520C>T	c.(3520-3522)CTG>TTG	p.L1174L		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	1174							nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						TGACAAATCTCTGAAAGAGGT	0.443													18	141					0	0	1	0	0		T	113090015	T	T	113090015	2	4	27	1	0	0	0	0	0	0	0	1	17596	912	32	4		4	ZC3H6	2	113090015	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	627	113090015	130109358	1092	23443											
TTL	150465	broad.mit.edu	37	chr2	113243546	113243546	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactacaggggtgctgacaaActgtgtcgcaaagcttcttt	10	12	10	9	1	1	1	0	1	1	0	2	1	1	1	0	2	5	3	0	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:113243546A>G	uc002thu.2	+	2	389	c.210A>G	c.(208-210)AAA>AAG	p.K70K		NM_153712	NP_714923	Q8NG68	TTL_HUMAN	tubulin tyrosine ligase	70	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)		GTGCTGACAAACTGTGTCGCA	0.458			T	ETV6	ALL								5	116					0	0	1	0	0		G	113243546	G	G	113243546	2	3	27	1	0	0	0	0	0	0	0	1	16747	40	2	3		3	TTL	2	113243546	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	153531	113243546	129955827	1093	23444											
POLR1B	84172	broad.mit.edu	37	chr2	113315607	113315607	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacaatgggcatagaccttAcaaaaccatttgaatacctt	15	12	5	9	0	0	2	0	1	0	1	0	2	0	2	3	1	4	1	3	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:113315607A>G	uc002thw.2	+	8	1859	c.1279A>G	c.(1279-1281)ACA>GCA	p.T427A	POLR1B_uc010fkn.2_Missense_Mutation_p.T371A|POLR1B_uc002thx.2_Missense_Mutation_p.T288A|POLR1B_uc010fko.2_Intron|POLR1B_uc010fkp.2_Intron|POLR1B_uc010yxn.1_Missense_Mutation_p.T465A|POLR1B_uc002thy.2_Missense_Mutation_p.T288A|POLR1B_uc010yxo.1_Missense_Mutation_p.T204A	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	427					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1						CATAGACCTTACAAAACCATT	0.328													3	51					0	0	1	0	0		G	113315607	G	G	113315607	3	3	27	1	0	0	0	0	1	0	0	0	12229	391	14	3	1309	3	POLR1B	2	113315607	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	72061	113315607	129883766	1094	23445											
POLR1B	84172	broad.mit.edu	37	chr2	113332742	113332742	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctctgccatgatgctacAcccttcatcttctcagagga	8	12	8	13	0	4	2	2	1	3	1	6	3	4	3	2	2	3	1	2	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:113332742A>G	uc002thw.2	+	15	3424	c.2844A>G	c.(2842-2844)ACA>ACG	p.T948T	POLR1B_uc010fkn.2_Silent_p.T892T|POLR1B_uc002thx.2_Silent_p.T809T|POLR1B_uc010fko.2_Silent_p.T765T|POLR1B_uc010fkp.2_Silent_p.T387T|POLR1B_uc010yxn.1_Silent_p.T986T|POLR1B_uc002thy.2_Silent_p.T809T|POLR1B_uc010yxo.1_Silent_p.T725T	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	948					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1						ATGATGCTACACCCTTCATCT	0.473													12	114					0	0	1	0	0		G	113332742	G	G	113332742	2	3	27	1	0	0	0	0	0	0	0	1	12229	146	6	3		3	POLR1B	2	113332742	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17135	113332742	129866631	1095	23446											
CKAP2L	150468	broad.mit.edu	37	chr2	113498582	113498582	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactaaagagtcagaagtaaTccctgtgtatgtaagatcat	16	11	8	6	0	2	3	2	0	0	3	3	3	3	3	1	0	1	3	1	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:113498582T>A	uc002tie.2	-	8	1904	c.1825A>T	c.(1825-1827)ATT>TTT	p.I609F	CKAP2L_uc002tif.2_Missense_Mutation_p.I198F|CKAP2L_uc010yxp.1_Missense_Mutation_p.I444F|uc002tid.2_Intron	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	609						centrosome					0						TCAGAAGTAATCCCTGTGTAT	0.348													8	114					0	0	1	0	0		A	113498582	A	A	113498582	3	1	27	1	0	0	0	0	1	0	0	0	3446	1435	50	5	420	5	CKAP2L	2	113498582	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	165840	113498582	129700791	1096	23447											
CKAP2L	150468	broad.mit.edu	37	chr2	113513703	113513703	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttggagtccaaagtctgTgctttttgctgaaagccatt	10	14	9	8	0	1	1	0	1	1	0	2	2	2	2	2	1	4	2	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:113513703T>C	uc002tie.2	-	4	1324	c.1245A>G	c.(1243-1245)GCA>GCG	p.A415A	CKAP2L_uc002tif.2_Silent_p.A4A|CKAP2L_uc010yxp.1_Silent_p.A250A|CKAP2L_uc010yxq.1_Silent_p.A250A	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	415						centrosome					0						CCAAAGTCTGTGCTTTTTGCT	0.423													10	177					0	0	1	0	0		C	113513703	C	C	113513703	2	2	27	1	0	0	0	0	0	0	0	1	3446	1683	59	3		3	CKAP2L	2	113513703	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	15121	113513703	129685670	1097	23448											
IL1RN	3557	broad.mit.edu	37	chr2	113890392	113890392	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcccgtcagcctcaccAatatgcctgacgaaggcgtc	10	6	9	16	3	2	1	2	1	0	0	3	2	2	1	5	1	3	0	5	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:113890392A>G	uc002tjb.2	+	4	542	c.478A>G	c.(478-480)AAT>GAT	p.N160D	IL1RN_uc002tix.1_RNA|IL1RN_uc002tiy.2_Missense_Mutation_p.N126D|IL1RN_uc002tiz.2_Missense_Mutation_p.N163D|IL1RN_uc002tja.2_Missense_Mutation_p.N142D	NM_173842	NP_776214	P18510	IL1RA_HUMAN	interleukin 1 receptor antagonist isoform 1	160					immune response|inflammatory response|response to glucocorticoid stimulus	centrosome|extracellular space|nucleus|plasma membrane	cytokine activity|interleukin-1 receptor antagonist activity			skin(2)	2					Anakinra(DB00026)	CAGCCTCACCAATATGCCTGA	0.587									Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				3	86					0	0	1	0	0		G	113890392	G	G	113890392	3	3	27	1	0	0	0	0	1	0	0	0	7681	130	5	3	573	3	IL1RN	2	113890392	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	376689	113890392	129308981	1098	23449											
CBWD2	150472	broad.mit.edu	37	chr2	114195463	114195463	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgttaccggctgttggAtctgcggatgaggaggagga	9	9	18	5	2	1	1	0	1	1	0	1	7	1	7	1	7	2	3	1	7	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:114195463A>T	uc002tju.2	+	1	196	c.18A>T	c.(16-18)GGA>GGT	p.G6G	CBWD2_uc002tjt.2_Silent_p.G6G|CBWD2_uc010yxw.1_5'UTR|CBWD2_uc002tjv.2_5'UTR|CBWD2_uc010fkv.2_RNA	NM_172003	NP_742000	Q8IUF1	CBWD2_HUMAN	COBW domain-containing protein 2	6							ATP binding|protein binding				0						CGGCTGTTGGATCTGCGGATG	0.627													7	66					0	0	1	0	0		T	114195463	T	T	114195463	2	4	27	1	0	0	0	0	0	0	0	1	2716	320	12	5		5	CBWD2	2	114195463	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	305071	114195463	129003910	1099	23450											
FOXD4L1	200350	broad.mit.edu	37	chr2	114257141	114257141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcctctgaagatgcccGgcagccggcaaagcccccct	7	4	13	17	3	1	2	0	1	1	1	1	2	1	2	6	4	3	2	6	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:114257141G>A	uc002tjw.3	+	1	481	c.308G>A	c.(307-309)CGG>CAG	p.R103Q		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	103					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						GAAGATGCCCGGCAGCCGGCA	0.677													43	128					0	0	1	0	0		A	114257141	A	A	114257141	3	1	27	1	0	0	0	0	1	0	0	0	6014	1116	39	1	310	1	FOXD4L1	2	114257141	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	61678	114257141	128942232	1100	23451			3	9	33726554	5	5	485	N	G_C	1.16336e-05
FOXD4L1	200350	broad.mit.edu	37	chr2	114257269	114257269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcttcccctactaccgcCgcaagttccccgcctggcag	5	7	9	20	4	0	0	0	0	0	0	2	0	2	0	8	1	2	4	8	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:114257269C>T	uc002tjw.3	+	1	609	c.436C>T	c.(436-438)CGC>TGC	p.R146C		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	146	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CTACTACCGCCGCAAGTTCCC	0.647													23	262					0	0	1	0	0		T	114257269	T	T	114257269	3	4	27	1	0	0	0	0	1	0	0	0	6014	652	23	1	438	1	FOXD4L1	2	114257269	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	128	114257269	128942104	1101	23452			3	9	33726554	5	5	485	N	G_C	1.16336e-05
FOXD4L1	200350	broad.mit.edu	37	chr2	114257505	114257505	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctctacctgctgcacaCgccgccctgcacaacccccg	6	7	6	22	3	1	0	0	0	1	0	2	0	2	0	6	0	5	3	6	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:114257505C>T	uc002tjw.3	+	1	845	c.672C>T	c.(670-672)CAC>CAT	p.H224H		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	224	Pro-rich.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CTGCTGCACACGCCGCCCTGC	0.711													19	86					0	0	1	0	0		T	114257505	T	T	114257505	2	4	27	1	0	0	0	0	0	0	0	1	6014	535	19	1		1	FOXD4L1	2	114257505	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	236	114257505	128941868	1102	23453			3	9	33726554	5	5	485	N	G_C	1.16336e-05
FOXD4L1	200350	broad.mit.edu	37	chr2	114257596	114257596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctaccccaacaccgcccccGggagacgcccttacgctctg	7	5	8	21	4	1	1	0	0	1	1	1	2	1	1	7	1	3	1	7	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:114257596G>A	uc002tjw.3	+	1	936	c.763G>A	c.(763-765)GGG>AGG	p.G255R		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	255	Pro-rich.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CACCGCCCCCGGGAGACGCCC	0.721													6	129					0	0	1	0	0		A	114257596	A	A	114257596	3	1	27	1	0	0	0	0	1	0	0	0	6014	1116	39	1	765	1	FOXD4L1	2	114257596	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	91	114257596	128941777	1103	23454			3	9	33726554	5	5	485	N	G_C	1.16336e-05
FOXD4L1	200350	broad.mit.edu	37	chr2	114257625	114257625	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttacgctctgctgcacccGcatcctcctcgctacctact	5	11	5	20	3	1	0	0	0	1	0	4	0	3	0	5	0	5	5	5	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:114257625G>A	uc002tjw.3	+	1	965	c.792G>A	c.(790-792)CCG>CCA	p.P264P		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	264	Pro-rich.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						TGCTGCACCCGCATCCTCCTC	0.731													27	77					0	0	1	0	0		A	114257625	A	A	114257625	2	1	27	1	0	0	0	0	0	0	0	1	6014	1074	38	1		1	FOXD4L1	2	114257625	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	29	114257625	128941748	1104	23455			3	9	33726554	5	5	485	N	G_C	1.16336e-05
DDX18	8886	broad.mit.edu	37	chr2	118586952	118586952	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgagcctatgattcccatTctctgaaacagatctttaat	12	14	5	10	1	2	3	0	2	2	1	4	4	3	3	2	0	3	0	2	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:118586952T>A	uc002tlh.1	+	13	1879	c.1780T>A	c.(1780-1782)TCT>ACT	p.S594T		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	594							ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4						TGATTCCCATTCTCTGAAACA	0.368													9	126					0	0	1	0	0		A	118586952	A	A	118586952	3	1	27	1	0	0	0	0	1	0	0	0	4348	1783	62	5	1830	5	DDX18	2	118586952	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4329327	118586952	124612421	1105	23456											
DDX18	8886	broad.mit.edu	37	chr2	118588280	118588280	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagcaagaaatcatctgacAgcaggcagttctctcactga	13	10	8	10	0	4	3	2	2	2	1	5	3	4	3	0	1	2	4	0	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:118588280A>G	uc002tlh.1	+	14	2092	c.1993A>G	c.(1993-1995)AGC>GGC	p.S665G		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	665							ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4						ATCATCTGACAGCAGGCAGTT	0.378													6	121					0	0	1	0	0		G	118588280	G	G	118588280	3	3	27	1	0	0	0	0	1	0	0	0	4348	188	7	3	2047	3	DDX18	2	118588280	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1328	118588280	124611093	1106	23457											
CCDC93	54520	broad.mit.edu	37	chr2	118766233	118766233	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatcttctcttgtttccAcctaaaataaaaggtaaaac	14	14	3	10	0	3	0	1	0	2	0	5	0	4	0	2	1	1	2	2	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:118766233A>G	uc002tlj.2	-	2	170	c.44T>C	c.(43-45)GTG>GCG	p.V15A	CCDC93_uc010fld.1_Missense_Mutation_p.V15A	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	15										large_intestine(1)|ovary(1)	2						TCTTGTTTCCACCTAAAATAA	0.398											OREG0003819	type=REGULATORY REGION|Gene=AK025611|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	7	75					0	0	1	0	0		G	118766233	G	G	118766233	3	3	27	1	0	0	0	0	1	0	0	0	2875	173	6	3	1943	3	CCDC93	2	118766233	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	177953	118766233	124433140	1107	23458											
INSIG2	51141	broad.mit.edu	37	chr2	118854319	118854319	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctctttccacctgatgtgAttgcaagcatcttttcttct	6	17	6	12	1	4	2	0	2	4	0	5	2	5	2	2	0	2	3	2	0	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:118854319A>T	uc002tlk.2	+	2	393	c.187A>T	c.(187-189)ATT>TTT	p.I63F	INSIG2_uc010yye.1_Intron	NM_016133	NP_057217	Q9Y5U4	INSI2_HUMAN	insulin induced protein 2	63					ER-nuclear sterol response pathway	SREBP-SCAP-Insig complex				ovary(1)|central_nervous_system(1)	2						ACCTGATGTGATTGCAAGCAT	0.413													17	106					0	0	1	0	0		T	118854319	T	T	118854319	3	4	27	1	0	0	0	0	1	0	0	0	7782	333	12	5	189	5	INSIG2	2	118854319	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	88086	118854319	124345054	1108	23459											
STEAP3	55240	broad.mit.edu	37	chr2	120012365	120012365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgttgtccctgctggccGtgacctcactgccgtccatt	4	11	10	16	3	1	1	1	1	0	0	3	1	3	1	5	1	2	3	5	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:120012365G>A	uc002tlp.2	+	5	1283	c.1126G>A	c.(1126-1128)GTG>ATG	p.V376M	STEAP3_uc002tlq.2_Missense_Mutation_p.V386M|STEAP3_uc002tlr.2_Missense_Mutation_p.V376M|STEAP3_uc010fle.2_Missense_Mutation_p.V376M	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	376	Ferric oxidoreductase.|Helical; (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						CCTGCTGGCCGTGACCTCACT	0.607													5	39					0	0	1	0	0		A	120012365	A	A	120012365	3	1	27	1	0	0	0	0	1	0	0	0	15304	1145	40	1	1170	1	STEAP3	2	120012365	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1158046	120012365	123187008	1109	23460											
TMEM37	140738	broad.mit.edu	37	chr2	120194588	120194588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtctccatttgtgatgggCactggctcctggctgaggac	5	11	14	11	1	1	2	0	2	1	0	3	3	2	3	2	5	0	3	2	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:120194588C>T	uc002tly.2	+	2	179	c.145C>T	c.(145-147)CAC>TAC	p.H49Y		NM_183240	NP_899063	Q8WXS4	CCGL_HUMAN	transmembrane protein 37	49						integral to membrane	calcium channel activity|voltage-gated ion channel activity			breast(1)	1						TTGTGATGGGCACTGGCTCCT	0.622													8	111					0	0	1	0	0		T	120194588	T	T	120194588	3	4	27	1	0	0	0	0	1	0	0	0	16183	710	25	2	151	2	TMEM37	2	120194588	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	182223	120194588	123004785	1110	23461											
EPB41L5	57669	broad.mit.edu	37	chr2	120922422	120922422	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccataggaagctacagAtgaattggatgccttgcttg	10	13	10	8	0	1	2	0	1	1	1	2	4	2	4	2	2	4	2	2	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:120922422A>C	uc002tmg.2	+	22	2024	c.1898A>C	c.(1897-1899)GAT>GCT	p.D633A	EPB41L5_uc010fll.2_Missense_Mutation_p.D633A|EPB41L5_uc010flm.2_Missense_Mutation_p.D437A	NM_020909	NP_065960	Q9HCM4	E41L5_HUMAN	erythrocyte membrane protein band 4.1 like 5	633						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1						GAAGCTACAGATGAATTGGAT	0.338													3	74					0	0	1	0	0		C	120922422	C	C	120922422	3	2	27	1	0	0	0	0	1	0	0	0	5165	333	12	5	2165	5	EPB41L5	2	120922422	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	727834	120922422	122276951	1111	23462											
INHBB	3625	broad.mit.edu	37	chr2	121104185	121104185	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacggccaggagcgcgttTccgaaatcatcagcttcgcc	8	7	11	15	6	2	0	2	0	0	0	4	3	3	1	4	2	2	2	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:121104185T>C	uc002tmn.2	+	1	467	c.421T>C	c.(421-423)TCC>CCC	p.S141P		NM_002193	NP_002184	P09529	INHBB_HUMAN	inhibin beta B subunit preproprotein	141					activin receptor signaling pathway|cellular response to insulin stimulus|cellular response to starvation|defense response|fat cell differentiation|growth|negative regulation of follicle-stimulating hormone secretion|negative regulation of hepatocyte growth factor biosynthetic process|negative regulation of insulin secretion|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation	extracellular region|perinuclear region of cytoplasm	cytokine activity|growth factor activity|hormone activity|host cell surface receptor binding|protein homodimerization activity			pancreas(2)|skin(1)	3		Prostate(154;0.122)				GGAGCGCGTTTCCGAAATCAT	0.731													5	9					0	0	1	0	0		C	121104185	C	C	121104185	3	2	27	1	0	0	0	0	1	0	0	0	7758	1783	62	3	423	3	INHBB	2	121104185	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	181763	121104185	122095188	1112	23463											
INHBB	3625	broad.mit.edu	37	chr2	121106966	121106966	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggggcgagcggcgactcaAcctagacgtgcagtgtgaca	9	5	16	11	5	1	2	1	1	0	1	1	4	1	2	1	3	3	1	1	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:121106966A>G	uc002tmn.2	+	2	786	c.740A>G	c.(739-741)AAC>AGC	p.N247S		NM_002193	NP_002184	P09529	INHBB_HUMAN	inhibin beta B subunit preproprotein	247					activin receptor signaling pathway|cellular response to insulin stimulus|cellular response to starvation|defense response|fat cell differentiation|growth|negative regulation of follicle-stimulating hormone secretion|negative regulation of hepatocyte growth factor biosynthetic process|negative regulation of insulin secretion|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation	extracellular region|perinuclear region of cytoplasm	cytokine activity|growth factor activity|hormone activity|host cell surface receptor binding|protein homodimerization activity			pancreas(2)|skin(1)	3		Prostate(154;0.122)				CGGCGACTCAACCTAGACGTG	0.647													11	109					0	0	1	0	0		G	121106966	G	G	121106966	3	3	27	1	0	0	0	0	1	0	0	0	7758	43	2	3	746	3	INHBB	2	121106966	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2781	121106966	122092407	1113	23464											
GLI2	2736	broad.mit.edu	37	chr2	121712859	121712859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagaggggactgtttggcCttcctgctccaggcaccacc	7	8	13	13	0	0	1	0	0	0	1	2	3	2	2	5	5	1	3	5	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:121712859C>T	uc010flp.2	+	4	526	c.496C>T	c.(496-498)CTT>TTT	p.L166F	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Intron|GLI2_uc002tmu.3_Intron|GLI2_uc002tmv.1_Intron|GLI2_uc010flo.1_Missense_Mutation_p.L41F|GLI2_uc002tmw.1_Missense_Mutation_p.L166F	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	166					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				ACTGTTTGGCCTTCCTGCTCC	0.642													6	63					0	0	1	0	0		T	121712859	T	T	121712859	3	4	27	1	0	0	0	0	1	0	0	0	6453	681	24	4	510	4	GLI2	2	121712859	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	605893	121712859	121486514	1114	23465											
CLASP1	23332	broad.mit.edu	37	chr2	122215273	122215273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaaatttaccttctaactgCgacagacttagaggtacagt	14	12	7	8	1	1	2	0	0	1	2	1	3	1	2	1	1	4	1	1	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:122215273C>T	uc002tnc.2	-	14	1765	c.1375G>A	c.(1375-1377)GCA>ACA	p.A459T	CLASP1_uc002tna.2_5'UTR|CLASP1_uc010yyw.1_RNA|CLASP1_uc002tnb.2_RNA|CLASP1_uc010yyx.1_RNA|CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Missense_Mutation_p.A459T|CLASP1_uc010yza.1_Missense_Mutation_p.A459T|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_RNA|CLASP1_uc002tng.1_Missense_Mutation_p.A459T	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	459	HEAT 4.				axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					CTTCTAACTGCGACAGACTTA	0.338													4	68					0	0	1	0	0		T	122215273	T	T	122215273	3	4	27	1	0	0	0	0	1	0	0	0	3457	768	27	1	3401	1	CLASP1	2	122215273	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	502414	122215273	120984100	1115	23466											
CNTNAP5	129684	broad.mit.edu	37	chr2	125367380	125367380	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctttgtctttccagccAtctacgagcaatcctgcgag	7	12	8	14	2	2	0	0	0	2	0	4	2	4	0	4	0	5	1	4	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:125367380A>T	uc002tno.2	+	12	2120	c.1756A>T	c.(1756-1758)ATC>TTC	p.I586F	CNTNAP5_uc010flu.2_Missense_Mutation_p.I587F	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	586	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		CTTTCCAGCCATCTACGAGCA	0.502													4	63					0	0	1	0	0		T	125367380	T	T	125367380	3	4	27	1	0	0	0	0	1	0	0	0	3653	217	8	5	1802	5	CNTNAP5	2	125367380	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3152107	125367380	117831993	1116	23467											
CNTNAP5	129684	broad.mit.edu	37	chr2	125367427	125367427	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaccaggggaatacagcCggcttcttctacatcgactc	10	8	10	13	2	2	0	0	0	2	0	4	2	2	1	2	4	3	2	2	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:125367427C>T	uc002tno.2	+	12	2167	c.1803C>T	c.(1801-1803)GCC>GCT	p.A601A	CNTNAP5_uc010flu.2_Silent_p.A602A	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	601	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GGAATACAGCCGGCTTCTTCT	0.527													5	66					0	0	1	0	0		T	125367427	T	T	125367427	2	4	27	1	0	0	0	0	0	0	0	1	3653	639	23	1		1	CNTNAP5	2	125367427	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	47	125367427	117831946	1117	23468											
CNTNAP5	129684	broad.mit.edu	37	chr2	125530570	125530570	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagggccattttcgactgCagctgaacagccagttgttt	9	11	12	9	1	0	1	0	1	0	0	1	3	0	2	2	2	4	4	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:125530570C>T	uc002tno.2	+	17	3089	c.2725C>T	c.(2725-2727)CAG>TAG	p.Q909*	CNTNAP5_uc010flu.2_Nonsense_Mutation_p.Q910*	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	909	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TTTTCGACTGCAGCTGAACAG	0.527													23	99					0	0	1	0	0		T	125530570	T	T	125530570	4	4	27	1	0	0	0	0	0	1	0	0	3653	711	25	2	2791	2	CNTNAP5	2	125530570	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	163143	125530570	117668803	1118	23469											
IWS1	55677	broad.mit.edu	37	chr2	128253655	128253655	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aaggtgccaccatcgcggttCcgtctgcgcttgccactcat	6	10	10	15	4	2	0	1	0	1	0	4	0	3	0	4	2	3	2	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:128253655C>G	uc002ton.2	-	7	1938	c.1635G>C	c.(1633-1635)CGG>CGC	p.R545R	IWS1_uc010yzl.1_RNA	NM_017969	NP_060439	Q96ST2	IWS1_HUMAN	IWS1 homolog	545					transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0735)		CATCGCGGTTCCGTCTGCGCT	0.468													26	251					0	0	1	0	0		G	128253655	G	G	128253655	2	3	27	1	0	0	0	0	0	0	0	1	7947	842	30	5		5	IWS1	2	128253655	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2723085	128253655	114945718	1119	23470											
IWS1	55677	broad.mit.edu	37	chr2	128263102	128263102	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcactaccaggtaatttcCtggtctcttcactctcagag	9	13	7	12	0	4	1	3	0	2	1	7	1	5	1	2	2	1	1	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:128263102C>A	uc002ton.2	-	3	680	c.377G>T	c.(376-378)AGG>ATG	p.R126M	IWS1_uc010yzl.1_RNA|IWS1_uc010fma.2_RNA	NM_017969	NP_060439	Q96ST2	IWS1_HUMAN	IWS1 homolog	126	Glu-rich.				transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0735)		AGGTAATTTCCTGGTCTCTTC	0.478													14	145					9.31168e-06	1.00265e-05	1	1	0		A	128263102	A	A	128263102	3	1	27	1	0	0	0	0	1	0	0	0	7947	681	24	5	2130	5	IWS1	2	128263102	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9447	128263102	114936271	1120	23471											
LIMS2	55679	broad.mit.edu	37	chr2	128397687	128397687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtggagcaggagaagcagCtcacacaccaggccttgttg	11	6	14	10	0	1	1	1	0	0	1	1	3	1	2	2	4	3	4	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:128397687C>T	uc002tpa.2	-	9	1002	c.836G>A	c.(835-837)AGC>AAC	p.S279N	LIMS2_uc002tou.2_Missense_Mutation_p.S87N|LIMS2_uc002tov.2_Missense_Mutation_p.S127N|LIMS2_uc002tow.2_Missense_Mutation_p.S127N|LIMS2_uc002tox.2_Missense_Mutation_p.S303N|LIMS2_uc010fmb.2_Missense_Mutation_p.S189N|LIMS2_uc002toy.2_Missense_Mutation_p.S274N|LIMS2_uc010yzm.1_Missense_Mutation_p.S301N|LIMS2_uc002toz.2_Missense_Mutation_p.S274N|LIMS2_uc002tpb.2_Missense_Mutation_p.S274N	NM_001161403	NP_001154875	Q7Z4I7	LIMS2_HUMAN	LIM and senescent cell antigen-like domains 2	279	LIM zinc-binding 5.				cell junction assembly	cytosol|focal adhesion|nucleus	zinc ion binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0681)		GGAGAAGCAGCTCACACACCA	0.647													3	63					0	0	1	0	0		T	128397687	T	T	128397687	3	4	27	1	0	0	0	0	1	0	0	0	8820	797	28	2	197	2	LIMS2	2	128397687	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	134585	128397687	114801686	1121	23472											
LIMS2	55679	broad.mit.edu	37	chr2	128412420	128412420	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccgcaggatccacagcaCggagcaaacagcatttggaa	14	6	10	11	2	0	0	0	0	0	0	1	3	1	3	2	3	5	4	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:128412420C>T	uc002tpa.2	-	3	388	c.222G>A	c.(220-222)CCG>CCA	p.P74P	LIMS2_uc002tox.2_Silent_p.P98P|LIMS2_uc010fmb.2_Translation_Start_Site|LIMS2_uc002toy.2_Silent_p.P69P|LIMS2_uc010yzm.1_Silent_p.P96P|LIMS2_uc002toz.2_Silent_p.P69P|LIMS2_uc002tpb.2_Silent_p.P69P	NM_001161403	NP_001154875	Q7Z4I7	LIMS2_HUMAN	LIM and senescent cell antigen-like domains 2	74	LIM zinc-binding 1.				cell junction assembly	cytosol|focal adhesion|nucleus	zinc ion binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0681)		ATCCACAGCACGGAGCAAACA	0.602													11	30					0	0	1	0	0		T	128412420	T	T	128412420	2	4	27	1	0	0	0	0	0	0	0	1	8820	523	19	1		1	LIMS2	2	128412420	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14733	128412420	114786953	1122	23473											
WDR33	55339	broad.mit.edu	37	chr2	128471327	128471327	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggcccagggccccctcgCctccacttctcttcttgcgg	3	9	11	18	2	2	0	0	0	2	0	5	1	3	1	5	4	1	0	5	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:128471327C>T	uc002tpg.1	-	18	3321	c.3138G>A	c.(3136-3138)AGG>AGA	p.R1046R		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	1046					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		GGCCCCCTCGCCTCCACTTCT	0.642													7	122					0	0	1	0	0		T	128471327	T	T	128471327	2	4	27	1	0	0	0	0	0	0	0	1	17313	738	26	2		2	WDR33	2	128471327	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	58907	128471327	114728046	1123	23474											
SAP130	79595	broad.mit.edu	37	chr2	128767876	128767876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtagcatgcgccgctgtcGtagtgatgactggagactga	9	9	14	9	3	0	4	0	3	0	1	1	5	0	4	1	1	2	4	1	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:128767876G>A	uc002tpp.2	-	7	1046	c.914C>T	c.(913-915)ACG>ATG	p.T305M	SAP130_uc002tpn.2_Missense_Mutation_p.T66M|SAP130_uc002tpo.2_Missense_Mutation_p.T50M|SAP130_uc010fmd.2_Missense_Mutation_p.T305M|SAP130_uc002tpq.1_Missense_Mutation_p.T279M	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	305					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		CGCCGCTGTCGTAGTGATGAC	0.512													7	53					0	0	1	0	0		A	128767876	A	A	128767876	3	1	27	1	0	0	0	0	1	0	0	0	13856	1145	40	1	2397	1	SAP130	2	128767876	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	296549	128767876	114431497	1124	23475											
UGGT1	56886	broad.mit.edu	37	chr2	128930248	128930248	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatatgcctcagtctccacTgttcactctgaatttgaaca	10	13	7	11	0	4	2	2	2	2	0	5	3	4	3	2	1	2	1	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:128930248T>C	uc002tps.2	+	29	3384	c.3206T>C	c.(3205-3207)CTG>CCG	p.L1069P	UGGT1_uc002tpr.2_Missense_Mutation_p.L1045P	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	1069					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						CAGTCTCCACTGTTCACTCTG	0.368													6	88					0	0	1	0	0		C	128930248	C	C	128930248	3	2	27	1	0	0	0	0	1	0	0	0	16967	1580	55	3	3320	3	UGGT1	2	128930248	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	162372	128930248	114269125	1125	23476											
SMPD4	55627	broad.mit.edu	37	chr2	130918776	130918776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacttggtaggcgtggagggCctggaggctgggttgggcgg	4	9	22	6	2	0	0	0	0	0	0	0	2	0	2	1	9	1	3	1	9	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:130918776C>T	uc002tqq.1	-	11	1571	c.1051G>A	c.(1051-1053)GCC>ACC	p.A351T	SMPD4_uc002tqp.1_Missense_Mutation_p.A44T|SMPD4_uc010yzy.1_Intron|SMPD4_uc010yzz.1_Intron|SMPD4_uc002tqr.1_Intron|SMPD4_uc002tqs.1_Missense_Mutation_p.A219T|SMPD4_uc002tqt.1_Intron|SMPD4_uc010zaa.1_Intron|SMPD4_uc010zab.1_Intron|SMPD4_uc010zac.1_Silent_p.R64R|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	312					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	GCGTGGAGGGCCTGGAGGCTG	0.522													5	62					0	0	1	0	0		T	130918776	T	T	130918776	3	4	27	1	0	0	0	0	1	0	0	0	14832	739	26	2	1589	2	SMPD4	2	130918776	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1988528	130918776	112280597	1126	23477											
FAM123C	205147	broad.mit.edu	37	chr2	131520350	131520350	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctctgcagggccctgtgTgaggacgtggcctcactcca	5	9	14	13	1	2	1	1	1	1	0	4	2	3	2	3	4	1	1	3	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:131520350T>G	uc002trw.2	+	2	895	c.705T>G	c.(703-705)TGT>TGG	p.C235W	FAM123C_uc010fmv.2_Missense_Mutation_p.C235W|FAM123C_uc010fms.1_Missense_Mutation_p.C235W|FAM123C_uc010fmt.1_Missense_Mutation_p.C235W|FAM123C_uc010fmu.1_Missense_Mutation_p.C235W	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	235										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GGGCCCTGTGTGAGGACGTGG	0.662													16	79					0	0	1	0	0		G	131520350	G	G	131520350	3	3	27	1	0	0	0	0	1	0	0	0	5435	1702	59	5	707	5	FAM123C	2	131520350	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	601574	131520350	111679023	1127	23478											
POTEE	445582	broad.mit.edu	37	chr2	132021731	132021731	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgtggctataggttcacCaccatggccgagcgggaaat	10	7	14	10	3	1	0	1	0	0	0	1	3	1	1	3	4	2	2	3	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:132021731C>T	uc002tsn.2	+	15	2755	c.2703C>T	c.(2701-2703)ACC>ACT	p.T901T	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Silent_p.T501T|POTEE_uc002tsl.2_Silent_p.T483T|POTEE_uc010fmy.1_Silent_p.T365T	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	901	Actin-like.						ATP binding				0						ATAGGTTCACCACCATGGCCG	0.612													5	124					0	0	1	0	0		T	132021731	T	T	132021731	2	4	27	1	0	0	0	0	0	0	0	1	12283	581	21	4		4	POTEE	2	132021731	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	501381	132021731	111177642	1128	23479											
GPR39	2863	broad.mit.edu	37	chr2	133174728	133174728	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccttattctggtgtaccTgatcatcttcgtgatgggcc	6	14	9	12	1	3	2	1	2	2	0	4	2	3	2	3	2	1	1	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:133174728T>C	uc002ttl.2	+	1	582	c.113T>C	c.(112-114)CTG>CCG	p.L38P		NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	38	Helical; Name=1; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						CTGGTGTACCTGATCATCTTC	0.542													8	66					0	0	1	0	0		C	133174728	C	C	133174728	3	2	27	1	0	0	0	0	1	0	0	0	6708	1580	55	3	115	3	GPR39	2	133174728	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1152997	133174728	110024645	1129	23480											
MGAT5	4249	broad.mit.edu	37	chr2	135095865	135095865	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattttaatattctctacagTatgatgaaaaagcatgaaga	17	13	7	4	0	1	4	0	3	1	1	2	5	1	4	0	0	2	2	0	0	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:135095865T>C	uc002ttv.1	+	6	826	c.681T>C	c.(679-681)AGT>AGC	p.S227S		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	227	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		TTCTCTACAGTATGATGAAAA	0.383													6	66					0	0	1	0	0		C	135095865	C	C	135095865	2	2	27	1	0	0	0	0	0	0	0	1	9566	1635	57	3		3	MGAT5	2	135095865	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1921137	135095865	108103508	1130	23481											
CCNT2	905	broad.mit.edu	37	chr2	135711759	135711759	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccacaagcattcccactcGcatagtggcagcagcagcgg	11	5	11	14	2	0	0	0	0	0	0	2	0	1	0	2	2	5	5	2	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:135711759G>A	uc002tuc.1	+	9	1766	c.1734G>A	c.(1732-1734)TCG>TCA	p.S578S	CCNT2_uc002tub.1_Silent_p.S578S|CCNT2_uc010zbf.1_Silent_p.S403S|CCNT2_uc002tud.1_Silent_p.S241S	NM_058241	NP_490595	O60583	CCNT2_HUMAN	cyclin T2 isoform b	578					cell cycle|cell division|interspecies interaction between organisms|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein kinase binding			ovary(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.107)		ATTCCCACTCGCATAGTGGCA	0.542													8	48					0	0	1	0	0		A	135711759	A	A	135711759	2	1	27	1	0	0	0	0	0	0	0	1	2938	1074	38	1		1	CCNT2	2	135711759	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	615894	135711759	107487614	1131	23482											
R3HDM1	23518	broad.mit.edu	37	chr2	136389319	136389319	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctgaaattggaacaaGaaattttagatttcattggt	13	15	9	4	0	1	3	1	1	0	2	1	4	1	4	0	2	3	2	0	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:136389319G>T	uc002tuo.2	+	8	899	c.529G>T	c.(529-531)GAA>TAA	p.E177*	R3HDM1_uc010fni.2_Nonsense_Mutation_p.E175*|R3HDM1_uc002tup.2_Nonsense_Mutation_p.E121*|R3HDM1_uc010zbh.1_Nonsense_Mutation_p.E9*	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	177	R3H.						nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		ATTGGAACAAGAAATTTTAGA	0.328													8	41					5.18039e-06	5.59131e-06	1	1	0		T	136389319	T	T	136389319	4	4	27	1	0	0	0	0	0	1	0	0	12912	943	33	5	551	5	R3HDM1	2	136389319	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	677560	136389319	106810054	1132	23483											
R3HDM1	23518	broad.mit.edu	37	chr2	136396677	136396677	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagcaaaagcataggcAggctttcaaaaacaggtata	18	6	10	7	0	1	0	1	0	0	0	1	1	1	0	0	3	4	6	0	3	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:136396677A>G	uc002tuo.2	+	14	1574	c.1204A>G	c.(1204-1206)AGG>GGG	p.R402G	R3HDM1_uc010fni.2_Missense_Mutation_p.R400G|R3HDM1_uc002tup.2_Missense_Mutation_p.R346G|R3HDM1_uc010zbh.1_Missense_Mutation_p.R234G	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	402							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		AAGCATAGGCAGGCTTTCAAA	0.413													4	94					0	0	1	0	0		G	136396677	G	G	136396677	3	3	27	1	0	0	0	0	1	0	0	0	12912	179	7	3	1250	3	R3HDM1	2	136396677	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7358	136396677	106802696	1133	23484											
R3HDM1	23518	broad.mit.edu	37	chr2	136437848	136437848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctatgcccacaacaggaatgCctgtttactatagtgtcatt	11	13	7	10	0	1	0	1	0	0	0	1	1	1	1	2	1	4	1	2	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:136437848C>T	uc002tuo.2	+	20	2678	c.2308C>T	c.(2308-2310)CCT>TCT	p.P770S	R3HDM1_uc010fni.2_Missense_Mutation_p.P769S|R3HDM1_uc002tup.2_Missense_Mutation_p.P715S|R3HDM1_uc010zbh.1_Missense_Mutation_p.P518S	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	770							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		AACAGGAATGCCTGTTTACTA	0.408													10	99					0	0	1	0	0		T	136437848	T	T	136437848	3	4	27	1	0	0	0	0	1	0	0	0	12912	739	26	2	2378	2	R3HDM1	2	136437848	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	41171	136437848	106761525	1134	23485											
MCM6	4175	broad.mit.edu	37	chr2	136622715	136622715	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtctgttcctcatctcTgagctctttccccccaaact	6	14	5	16	0	4	1	1	1	3	0	7	1	6	1	4	0	3	3	4	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:136622715T>C	uc002tuw.2	-	7	1022	c.946A>G	c.(946-948)AGA>GGA	p.R316G		NM_005915	NP_005906	Q14566	MCM6_HUMAN	minichromosome maintenance complex component 6	316					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|identical protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.166)	Atorvastatin(DB01076)	TCCTCATCTCTGAGCTCTTTC	0.373													4	98					0	0	1	0	0		C	136622715	C	C	136622715	3	2	27	1	0	0	0	0	1	0	0	0	9409	1588	55	3	1563	3	MCM6	2	136622715	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	184867	136622715	106576658	1135	23486											
DARS	1615	broad.mit.edu	37	chr2	136664919	136664919	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtttgggatcacgagggaaCatggaggtctgacgaacatt	11	9	14	7	3	2	1	1	1	1	0	2	6	2	4	0	4	2	1	0	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:136664919C>A	uc002tux.1	-	16	1657	c.1473G>T	c.(1471-1473)ATG>ATT	p.M491I	DARS_uc010fnj.1_Missense_Mutation_p.M391I	NM_001349	NP_001340	P14868	SYDC_HUMAN	aspartyl-tRNA synthetase	491					aspartyl-tRNA aminoacylation|protein complex assembly	cytosol|nuclear membrane|plasma membrane|soluble fraction	aminoacylase activity|aspartate-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.168)	L-Aspartic Acid(DB00128)	CACGAGGGAACATGGAGGTCT	0.284													4	34					0.150653	0.151846	1	1	0		A	136664919	A	A	136664919	3	1	27	1	0	0	0	0	1	0	0	0	4244	478	17	5	36	5	DARS	2	136664919	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	42204	136664919	106534454	1136	23487											
SPOPL	339745	broad.mit.edu	37	chr2	139308136	139308136	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgggtgaagtgttaaaaagTtcaacattttcatctggccc	12	13	9	7	0	3	1	2	1	1	0	3	1	3	1	1	2	1	2	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:139308136T>C	uc002tvh.2	+	3	562	c.162T>C	c.(160-162)AGT>AGC	p.S54S		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	54	MATH.					nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		TGTTAAAAAGTTCAACATTTT	0.313													35	88					0	0	1	0	0		C	139308136	C	C	139308136	2	2	27	1	0	0	0	0	0	0	0	1	15110	1722	60	3		3	SPOPL	2	139308136	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2643217	139308136	103891237	1137	23488											
NXPH2	11249	broad.mit.edu	37	chr2	139429149	139429149	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgatccttgagtgcaccacGttgccgaccaacgtccctgg	8	9	10	14	3	0	2	0	2	0	0	2	3	2	2	5	1	3	2	5	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:139429149G>A	uc002tvi.2	-	2	138	c.138C>T	c.(136-138)AAC>AAT	p.N46N		NM_007226	NP_009157	O95156	NXPH2_HUMAN	neurexophilin 2 precursor	46	II.				neuropeptide signaling pathway	extracellular region				ovary(3)|skin(1)	4				BRCA - Breast invasive adenocarcinoma(221;0.101)		AGTGCACCACGTTGCCGACCA	0.542													11	117					0	0	1	0	0		A	139429149	A	A	139429149	2	1	27	1	0	0	0	0	0	0	0	1	10810	1136	40	1		1	NXPH2	2	139429149	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	121013	139429149	103770224	1138	23489											
LRP1B	53353	broad.mit.edu	37	chr2	140990805	140990805	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttctttggaagcagttCtttcctttcatcaacacttc	8	19	4	10	0	4	0	2	0	2	0	6	1	5	1	1	1	2	2	1	1	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:140990805C>A	uc002tvj.1	-	91	14722	c.13750G>T	c.(13750-13752)GAA>TAA	p.E4584*		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4584	Cytoplasmic (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GGAAGCAGTTCTTTCCTTTCA	0.333										TSP Lung(27;0.18)			8	48					0.000442599	0.000464839	1	1	0		A	140990805	A	A	140990805	4	1	27	1	0	0	0	0	0	1	0	0	8973	922	32	5	53	5	LRP1B	2	140990805	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1561656	140990805	102208568	1139	23490											
LRP1B	53353	broad.mit.edu	37	chr2	141665468	141665468	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagatagccttcatcagaGccatcaggacaatccttttt	12	11	7	11	0	3	2	3	0	0	2	4	4	4	3	3	1	2	0	3	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:141665468G>A	uc002tvj.1	-	22	4470	c.3498C>T	c.(3496-3498)GGC>GGT	p.G1166G	LRP1B_uc010fnl.1_Silent_p.G348G	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1166	Extracellular (Potential).|LDL-receptor class A 10.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CTTCATCAGAGCCATCAGGAC	0.423										TSP Lung(27;0.18)			15	169					0	0	1	0	0		A	141665468	A	A	141665468	2	1	27	1	0	0	0	0	0	0	0	1	8973	958	34	2		2	LRP1B	2	141665468	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	674663	141665468	101533905	1140	23491											
ARHGAP15	55843	broad.mit.edu	37	chr2	144244959	144244959	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgttcagactgcatcacAgtgcttccgatacaagcgac	11	9	9	12	2	2	1	2	0	0	1	3	3	3	1	1	0	4	3	1	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:144244959A>T	uc002tvm.3	+	9	872	c.721A>T	c.(721-723)AGT>TGT	p.S241C	ARHGAP15_uc002tvn.2_Missense_Mutation_p.S7C	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	241					regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		ACTGCATCACAGTGCTTCCGA	0.338													11	120					0	0	1	0	0		T	144244959	T	T	144244959	3	4	27	1	0	0	0	0	1	0	0	0	866	188	7	5	751	5	ARHGAP15	2	144244959	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2579491	144244959	98954414	1141	23492											
ZEB2	9839	broad.mit.edu	37	chr2	145156756	145156756	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatcggagttgggctccatGttcatagcatagtatgcttt	8	15	10	8	1	2	0	2	0	0	0	4	1	3	1	1	2	2	6	1	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:145156756G>A	uc002tvu.2	-	8	2478	c.1998C>T	c.(1996-1998)AAC>AAT	p.N666N	ZEB2_uc002tvv.2_Silent_p.N660N|ZEB2_uc010zbm.1_Silent_p.N637N|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Silent_p.N695N	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	666	Homeobox; atypical.					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TGGGCTCCATGTTCATAGCAT	0.448													30	98					0	0	1	0	0		A	145156756	A	A	145156756	2	1	27	1	0	0	0	0	0	0	0	1	17649	1368	48	4		4	ZEB2	2	145156756	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	911797	145156756	98042617	1142	23493											
ZEB2	9839	broad.mit.edu	37	chr2	145157213	145157213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccattatgactcactaccGgaagaccgacaggcggaata	14	6	9	12	3	1	2	1	1	0	1	1	5	1	4	3	3	1	0	3	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:145157213G>A	uc002tvu.2	-	8	2021	c.1541C>T	c.(1540-1542)CCG>CTG	p.P514L	ZEB2_uc002tvv.2_Missense_Mutation_p.P508L|ZEB2_uc010zbm.1_Missense_Mutation_p.P485L|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.P543L	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	514						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		ACTCACTACCGGAAGACCGAC	0.418													22	62					0	0	1	0	0		A	145157213	A	A	145157213	3	1	27	1	0	0	0	0	1	0	0	0	17649	1116	39	1	2115	1	ZEB2	2	145157213	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	457	145157213	98042160	1143	23494											
ZEB2	9839	broad.mit.edu	37	chr2	145161513	145161513	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggcttgtgtgtcaccatAtgccgctcgagctgggtgcg	4	11	14	12	3	1	0	1	0	0	0	2	1	1	0	3	2	3	3	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:145161513A>G	uc002tvu.2	-	6	1257	c.777T>C	c.(775-777)CAT>CAC	p.H259H	ZEB2_uc002tvv.2_Silent_p.H253H|ZEB2_uc010zbm.1_Silent_p.H230H|ZEB2_uc010fnp.2_Silent_p.H167H|ZEB2_uc010fnq.1_Silent_p.H288H	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	259	C2H2-type 2.					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		GTGTCACCATATGCCGCTCGA	0.428													3	102					0	0	1	0	0		G	145161513	G	G	145161513	2	3	27	1	0	0	0	0	0	0	0	1	17649	446	16	3		3	ZEB2	2	145161513	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4300	145161513	98037860	1144	23495											
ORC4L	5000	broad.mit.edu	37	chr2	148695720	148695720	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaactaaatcttaccttcaTgacaacaggtttttcaaaat	16	13	3	9	0	3	1	2	1	1	0	3	1	3	1	1	1	3	1	1	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:148695720T>C	uc002twi.2	-	13	1252	c.1117A>G	c.(1117-1119)ATG>GTG	p.M373V	ORC4L_uc002twj.2_Missense_Mutation_p.M373V|ORC4L_uc010zbo.1_Missense_Mutation_p.M299V|ORC4L_uc010zbp.1_Missense_Mutation_p.M156V|ORC4L_uc010fnr.2_Intron|ORC4L_uc010zbq.1_Missense_Mutation_p.M289V|ORC4L_uc002twk.2_Missense_Mutation_p.M373V|ORC4L_uc002twl.1_5'Flank	NM_181741	NP_859525	O43929	ORC4_HUMAN	origin recognition complex subunit 4	373					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|nucleoside-triphosphatase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.0963)|COAD - Colon adenocarcinoma(177;0.203)		CTTACCTTCATGACAACAGGT	0.279													4	27					0	0	1	0	0		C	148695720	C	C	148695720	3	2	27	1	0	0	0	0	1	0	0	0	11283	1464	51	3	201	3	ORC4L	2	148695720	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3534207	148695720	94503653	1145	23496											
MBD5	55777	broad.mit.edu	37	chr2	149247137	149247137	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatggcctcgttgtgggtggCccaggtgatgcttccgtaga	5	11	16	9	2	0	2	0	1	0	1	2	3	1	2	3	4	1	3	3	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:149247137C>T	uc002twm.3	+	12	4225	c.3237C>T	c.(3235-3237)GGC>GGT	p.G1079G	MBD5_uc010zbs.1_Intron|MBD5_uc010fns.2_Silent_p.G1079G|MBD5_uc002two.2_Silent_p.G337G|MBD5_uc002twp.2_Silent_p.G129G	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1079						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		TTGTGGGTGGCCCAGGTGATG	0.498													7	68					0	0	1	0	0		T	149247137	T	T	149247137	2	4	27	1	0	0	0	0	0	0	0	1	9365	726	26	2		2	MBD5	2	149247137	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	551417	149247137	93952236	1146	23497											
MBD5	55777	broad.mit.edu	37	chr2	149247533	149247533	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggagcgaaacaggtggaaGtacgaggaatttttagatca	14	8	15	4	2	1	1	1	0	0	1	1	6	1	4	0	5	3	1	0	5	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:149247533G>A	uc002twm.3	+	12	4621	c.3633G>A	c.(3631-3633)AAG>AAA	p.K1211K	MBD5_uc010zbs.1_Intron|MBD5_uc010fns.2_Silent_p.K1211K|MBD5_uc002two.2_Silent_p.K469K|MBD5_uc002twp.2_Silent_p.K261K	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1211						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		ACAGGTGGAAGTACGAGGAAT	0.488													9	112					0	0	1	0	0		A	149247533	A	A	149247533	2	1	27	1	0	0	0	0	0	0	0	1	9365	1020	36	4		4	MBD5	2	149247533	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	396	149247533	93951840	1147	23498											
RND3	390	broad.mit.edu	37	chr2	151326555	151326555	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaagtccgtagcaactgcCgagagttctggtctgctagg	8	10	13	10	3	2	1	0	0	2	1	3	2	3	1	2	2	4	5	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:151326555C>T	uc002txe.2	-	5	925	c.681G>A	c.(679-681)TCG>TCA	p.S227S	RND3_uc002txf.2_Silent_p.S226S|RND3_uc002txg.2_Silent_p.S227S|RND3_uc010zbv.1_Missense_Mutation_p.R110Q|RND3_uc010zbw.1_Silent_p.S90S	NM_005168	NP_005159	P61587	RND3_HUMAN	ras homolog gene family, member E precursor	227					actin cytoskeleton organization|cell adhesion|small GTPase mediated signal transduction	Golgi membrane	GTP binding|GTPase activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.106)		TAGCAACTGCCGAGAGTTCTG	0.408													7	79					0	0	1	0	0		T	151326555	T	T	151326555	2	4	27	1	0	0	0	0	0	0	0	1	13446	639	23	1		1	RND3	2	151326555	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2079022	151326555	91872818	1148	23499											
RIF1	55183	broad.mit.edu	37	chr2	152330503	152330503	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactcgtggactagaagagaTtccagtttttgatatttctg	10	15	10	6	1	1	3	0	1	1	2	3	6	2	4	1	1	0	1	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152330503T>C	uc002txm.2	+	35	7251	c.7121T>C	c.(7120-7122)ATT>ACT	p.I2374T	RIF1_uc002txl.2_Missense_Mutation_p.I2348T|RIF1_uc002txn.2_Missense_Mutation_p.I2348T|RIF1_uc002txo.2_Missense_Mutation_p.I2348T|RIF1_uc002txp.2_RNA|uc010fnw.1_5'Flank	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	2374	Interaction with condensed chromosomes in telophase.				cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		CTAGAAGAGATTCCAGTTTTT	0.318													8	85					0	0	1	0	0		C	152330503	C	C	152330503	3	2	27	1	0	0	0	0	1	0	0	0	13384	1493	52	3	7255	3	RIF1	2	152330503	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1003948	152330503	90868870	1149	23500											
NEB	4703	broad.mit.edu	37	chr2	152342334	152342334	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccagtcctctgcacagtGccatacatccagccttcatc	8	10	6	17	0	2	0	1	0	1	0	5	0	4	0	5	0	5	1	5	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152342334G>A	uc010fnx.2	-	149	20141	c.19950C>T	c.(19948-19950)GGC>GGT	p.G6650G	NEB_uc002txr.2_Silent_p.G2980G|RIF1_uc002txp.2_Intron|NEB_uc010zbz.1_Silent_p.G419G|NEB_uc002txq.2_Silent_p.G529G|NEB_uc010zca.1_Silent_p.G481G|NEB_uc010zcb.1_Silent_p.G419G	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	6650	SH3.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCTGCACAGTGCCATACATCC	0.468													14	211					0	0	1	0	0		A	152342334	A	A	152342334	2	1	27	1	0	0	0	0	0	0	0	1	10321	1306	46	2		2	NEB	2	152342334	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11831	152342334	90857039	1150	23501											
NEB	4703	broad.mit.edu	37	chr2	152382735	152382735	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcgtgtcaggtacggcatgGcaggttcctctttccttgac	5	12	13	11	2	2	1	1	1	1	0	4	1	4	1	2	5	1	4	2	5	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152382735G>A	uc010fnx.2	-	121	17075	c.16884C>T	c.(16882-16884)TGC>TGT	p.C5628C	NEB_uc002txr.2_Silent_p.C2051C|NEB_uc002txt.3_Silent_p.C133C	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	5628	Nebulin 154.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GTACGGCATGGCAGGTTCCTC	0.502													4	26					0	0	1	0	0		A	152382735	A	A	152382735	2	1	27	1	0	0	0	0	0	0	0	1	10321	1195	42	2		2	NEB	2	152382735	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	40401	152382735	90816638	1151	23502											
NEB	4703	broad.mit.edu	37	chr2	152410411	152410411	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggggtggcaaatccattcGtggaggcgcaggcggtaatc	8	8	16	9	4	0	0	0	0	0	0	4	1	1	1	1	7	0	3	1	7	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152410411G>A	uc010fnx.2	-	98	14645	c.14454C>T	c.(14452-14454)CAC>CAT	p.H4818H	NEB_uc002txr.2_Silent_p.H1241H	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	4818	Nebulin 131.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		AAATCCATTCGTGGAGGCGCA	0.488													19	70					0	0	1	0	0		A	152410411	A	A	152410411	2	1	27	1	0	0	0	0	0	0	0	1	10321	1136	40	1		1	NEB	2	152410411	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27676	152410411	90788962	1152	23503											
NEB	4703	broad.mit.edu	37	chr2	152472522	152472522	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacatccacttacatcactAgcaatatctcttgaagcctt	14	12	3	12	0	2	1	1	1	1	0	4	1	3	1	2	0	4	1	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152472522A>G	uc010fnx.2	-	72	10745	c.10554T>C	c.(10552-10554)GCT>GCC	p.A3518A		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3518	Nebulin 96.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TTACATCACTAGCAATATCTC	0.383													5	29					0	0	1	0	0		G	152472522	G	G	152472522	2	3	27	1	0	0	0	0	0	0	0	1	10321	407	15	3		3	NEB	2	152472522	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	62111	152472522	90726851	1153	23504											
NEB	4703	broad.mit.edu	37	chr2	152483715	152483715	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggagatcagatttgtaaAtgttctggagagattaaaca	15	12	10	4	0	2	3	1	0	1	3	2	6	2	4	0	2	1	2	0	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152483715A>G	uc010fnx.2	-	66	9610	c.9419T>C	c.(9418-9420)ATT>ACT	p.I3140T		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3140	Nebulin 85.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		AGATTTGTAAATGTTCTGGAG	0.383													3	49					0	0	1	0	0		G	152483715	G	G	152483715	3	3	27	1	0	0	0	0	1	0	0	0	10321	101	4	3	15990	3	NEB	2	152483715	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11193	152483715	90715658	1154	23505											
NEB	4703	broad.mit.edu	37	chr2	152496986	152496986	+	Missense_Mutation	SNP	C	G	G																															ctgactaaggtctggcacttCttggccagcaccacccccag																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152496986C>G	uc010fnx.2	-	61	8759	c.8568G>C	c.(8566-8568)AAG>AAC	p.K2856N	NEB_uc002txu.2_5'Flank	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2856	Nebulin 77.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCTGGCACTTCTTGGCCAGCA	0.567													14	262					0	0	1	0	0		G	152496986	G	G	152496986	3	3	27	1	0	0	0	0	1	0	0	0	10321	912	32	5	17606	5	NEB	2	152496986	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13271	152496986	90702387	1155	23506	41	2									
NEB	4703	broad.mit.edu	37	chr2	152496994	152496994	+	Silent	SNP	G	A	A																															ggtctggcacttcttggccaGcaccacccccagcatgtcca																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152496994G>A	uc010fnx.2	-	61	8751	c.8560C>T	c.(8560-8562)CTG>TTG	p.L2854L	NEB_uc002txu.2_5'Flank	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2854	Nebulin 77.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TTCTTGGCCAGCACCACCCCC	0.562													14	263					0	0	1	0	0		A	152496994	A	A	152496994	2	1	27	1	0	0	0	0	0	0	0	1	10321	962	34	2		2	NEB	2	152496994	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8	152496994	90702379	1156	23507	41	2									
NEB	4703	broad.mit.edu	37	chr2	152497096	152497096	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttggccacgtgcatggAccacatcatcttggggtcat	8	11	11	11	1	4	0	2	0	2	0	4	2	4	1	2	4	1	1	2	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152497096A>T	uc010fnx.2	-	61	8649	c.8458T>A	c.(8458-8460)TCC>ACC	p.S2820T	NEB_uc002txu.2_5'Flank	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2820	Nebulin 76.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		ACGTGCATGGACCACATCATC	0.507													25	234					0	0	1	0	0		T	152497096	T	T	152497096	3	4	27	1	0	0	0	0	1	0	0	0	10321	275	10	5	17716	5	NEB	2	152497096	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	102	152497096	90702277	1157	23508											
NEB	4703	broad.mit.edu	37	chr2	152500551	152500551	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactctggatcttggccacAtgcatggaccacatcatctt	9	12	7	13	0	5	0	2	0	3	0	5	2	5	2	2	3	1	1	2	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152500551A>G	uc010fnx.2	-	57	7928	c.7737T>C	c.(7735-7737)CAT>CAC	p.H2579H		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2579	Nebulin 69.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCTTGGCCACATGCATGGACC	0.527													10	474					0	0	1	0	0		G	152500551	G	G	152500551	2	3	27	1	0	0	0	0	0	0	0	1	10321	214	8	3		3	NEB	2	152500551	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3455	152500551	90698822	1158	23509											
NEB	4703	broad.mit.edu	37	chr2	152506866	152506866	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccatcctatgcctctcaGccactcaaggtcagatttat	10	12	5	14	0	3	1	3	0	1	1	6	1	5	1	4	1	2	0	4	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152506866G>T	uc010fnx.2	-	54	7446	c.7255C>A	c.(7255-7257)CTG>ATG	p.L2419M		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2419					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		ATGCCTCTCAGCCACTCAAGG	0.443													6	74					8.12818e-05	8.61523e-05	1	1	0		T	152506866	T	T	152506866	3	4	27	1	0	0	0	0	1	0	0	0	10321	962	34	5	18947	5	NEB	2	152506866	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6315	152506866	90692507	1159	23510											
NEB	4703	broad.mit.edu	37	chr2	152522819	152522819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgatcagactggattttggCcacattcatgtagtgaacca	12	11	9	9	1	2	2	2	1	0	1	2	4	2	3	2	2	1	1	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152522819C>T	uc010fnx.2	-	41	5007	c.4816G>A	c.(4816-4818)GCC>ACC	p.A1606T		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1606	Nebulin 41.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGGATTTTGGCCACATTCATG	0.448													11	161					0	0	1	0	0		T	152522819	T	T	152522819	3	4	27	1	0	0	0	0	1	0	0	0	10321	739	26	2	21438	2	NEB	2	152522819	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15953	152522819	90676554	1160	23511											
NEB	4703	broad.mit.edu	37	chr2	152522861	152522861	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaggatcatcctgaagacTgagaaatccaacttgcttgc	12	12	8	9	0	1	3	1	2	0	2	3	5	3	4	2	1	3	1	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152522861T>C	uc010fnx.2	-	41	4965	c.4774A>G	c.(4774-4776)AGT>GGT	p.S1592G		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1592	Nebulin 41.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCCTGAAGACTGAGAAATCCA	0.428													9	118					0	0	1	0	0		C	152522861	C	C	152522861	3	2	27	1	0	0	0	0	1	0	0	0	10321	1580	55	3	21480	3	NEB	2	152522861	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	42	152522861	90676512	1161	23512											
NEB	4703	broad.mit.edu	37	chr2	152536326	152536326	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgctcaagtctttcaagTctgctttgtacatattctga	8	18	6	9	0	6	1	2	1	4	0	6	1	6	1	0	0	3	3	0	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152536326T>C	uc010fnx.2	-	32	3355	c.3164A>G	c.(3163-3165)GAC>GGC	p.D1055G		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1055	Nebulin 25.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GTCTTTCAAGTCTGCTTTGTA	0.463													8	72					0	0	1	0	0		C	152536326	C	C	152536326	3	2	27	1	0	0	0	0	1	0	0	0	10321	1667	58	3	23126	3	NEB	2	152536326	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	13465	152536326	90663047	1162	23513											
ARL5A	26225	broad.mit.edu	37	chr2	152670830	152670830	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtacaacttcattcatagaActggggaaaaaagtttatat	16	13	7	5	0	2	1	2	0	0	1	2	2	2	2	0	2	3	2	0	2	9	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:152670830A>G	uc002txx.1	-	3	427	c.108T>C	c.(106-108)TTT>TTC	p.F36F	ARL5A_uc010zcc.1_RNA|ARL5A_uc002txv.1_5'UTR|ARL5A_uc002txw.1_5'UTR	NM_012097	NP_036229	Q9Y689	ARL5A_HUMAN	ADP-ribosylation factor-like 5A isoform 1	36					small GTPase mediated signal transduction	intracellular	GTP binding				0				BRCA - Breast invasive adenocarcinoma(221;0.153)		CATTCATAGAACTGGGGAAAA	0.328													5	141					0	0	1	0	0		G	152670830	G	G	152670830	2	3	27	1	0	0	0	0	0	0	0	1	940	57	2	3		3	ARL5A	2	152670830	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	134504	152670830	90528543	1163	23514											
FMNL2	114793	broad.mit.edu	37	chr2	153378496	153378496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgacaaagccaggttactgCggcagtatgataatgagaaa	15	8	11	7	1	0	3	0	3	0	1	0	4	0	3	1	2	3	3	1	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:153378496C>T	uc002tye.2	+	2	524	c.157C>T	c.(157-159)CGG>TGG	p.R53W		NM_052905	NP_443137	Q96PY5	FMNL2_HUMAN	formin-like 2	53	GBD/FH3.				actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|ovary(1)	3						CAGGTTACTGCGGCAGTATGA	0.363													14	67					0	0	1	0	0		T	153378496	T	T	153378496	3	4	27	1	0	0	0	0	1	0	0	0	5966	759	27	1	163	1	FMNL2	2	153378496	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	707666	153378496	89820877	1164	23515											
FMNL2	114793	broad.mit.edu	37	chr2	153475388	153475388	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagatgcaaatactcaagTtcacacattaagaaaaatgg	20	8	6	7	0	2	2	2	0	0	2	2	2	2	2	0	1	2	2	0	1	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:153475388T>C	uc002tye.2	+	14	1710	c.1343T>C	c.(1342-1344)GTT>GCT	p.V448A	FMNL2_uc010fob.2_5'Flank|FMNL2_uc002tyf.2_5'Flank	NM_052905	NP_443137	Q96PY5	FMNL2_HUMAN	formin-like 2	448	GBD/FH3.				actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|ovary(1)	3						AATACTCAAGTTCACACATTA	0.348													7	58					0	0	1	0	0		C	153475388	C	C	153475388	3	2	27	1	0	0	0	0	1	0	0	0	5966	1725	60	3	1397	3	FMNL2	2	153475388	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	96892	153475388	89723985	1165	23516											
RPRM	56475	broad.mit.edu	37	chr2	154334890	154334890	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccacggtgagtgagagcaCgcacatgaccgcgatctgca	11	5	13	12	4	1	3	0	3	1	1	1	6	1	3	2	1	2	3	2	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:154334890C>T	uc002tyq.1	-	1	433	c.190G>A	c.(190-192)GTG>ATG	p.V64M		NM_019845	NP_062819	Q9NS64	RPRM_HUMAN	reprimo, TP53 dependant G2 arrest mediator	64	Helical; (Potential).				cell cycle arrest	cytoplasm|integral to membrane	protein binding				0						AGTGAGAGCACGCACATGACC	0.622													4	19					0	0	1	0	0		T	154334890	T	T	154334890	3	4	27	1	0	0	0	0	1	0	0	0	13643	536	19	1	143	1	RPRM	2	154334890	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	859502	154334890	88864483	1166	23517											
GALNT13	114805	broad.mit.edu	37	chr2	155098640	155098640	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccttagaactgtttacAgtgtgataaatcgttcccca	10	14	6	11	1	1	2	0	1	1	1	4	2	2	2	3	0	2	2	3	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:155098640A>G	uc002tyr.3	+	5	976	c.409A>G	c.(409-411)AGT>GGT	p.S137G	GALNT13_uc002tyt.3_Missense_Mutation_p.S137G|GALNT13_uc010foc.1_5'UTR	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	137	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						AACTGTTTACAGTGTGATAAA	0.368													3	58					0	0	1	0	0		G	155098640	G	G	155098640	3	3	27	1	0	0	0	0	1	0	0	0	6226	188	7	3	419	3	GALNT13	2	155098640	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	763750	155098640	88100733	1167	23518											
NR4A2	4929	broad.mit.edu	37	chr2	157186496	157186496	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttgacgtcgtagcctgtgCtgtagttgtccataaaggta	8	13	12	8	2	0	1	0	1	0	0	2	1	1	1	2	1	2	6	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:157186496C>A	uc002tyz.3	-	3	625	c.203G>T	c.(202-204)AGC>ATC	p.S68I	NR4A2_uc002tyx.3_Missense_Mutation_p.S5I|NR4A2_uc010zcf.1_Missense_Mutation_p.S68I|NR4A2_uc010zcg.1_5'Flank	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	68					cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						GTAGCCTGTGCTGTAGTTGTC	0.488													25	73					2.52088e-20	2.82456e-20	1	1	0		A	157186496	A	A	157186496	3	1	27	1	0	0	0	0	1	0	0	0	10652	797	28	5	1617	5	NR4A2	2	157186496	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2087856	157186496	86012877	1168	23519											
GPD2	2820	broad.mit.edu	37	chr2	157369851	157369851	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatttatgctgtaggtggtgGcagttaccttactactgggt	7	16	12	6	0	0	0	0	0	0	0	0	0	0	0	1	4	4	4	1	4	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:157369851G>A	uc002tzf.3	+	6	864	c.504G>A	c.(502-504)TGG>TGA	p.W168*	GPD2_uc010zch.1_Intron|GPD2_uc002tzd.3_Nonsense_Mutation_p.W168*|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	168					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						GTAGGTGGTGGCAGTTACCTT	0.388													11	105					0	0	1	0	0		A	157369851	A	A	157369851	4	1	27	1	0	0	0	0	0	1	0	0	6621	1212	42	2	522	2	GPD2	2	157369851	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	183355	157369851	85829522	1169	23520											
GPD2	2820	broad.mit.edu	37	chr2	157425912	157425912	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcggtctatggcagaagaTaccataaatgctgctgtcaa	13	11	9	8	1	2	2	1	0	1	2	3	2	2	2	1	2	3	3	1	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:157425912T>A	uc002tzf.3	+	11	1698	c.1338T>A	c.(1336-1338)GAT>GAA	p.D446E	GPD2_uc010zch.1_Missense_Mutation_p.D219E|GPD2_uc002tzd.3_Missense_Mutation_p.D446E|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	446					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						TGGCAGAAGATACCATAAATG	0.393													7	60					0	0	1	0	0		A	157425912	A	A	157425912	3	1	27	1	0	0	0	0	1	0	0	0	6621	1403	49	5	1376	5	GPD2	2	157425912	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	56061	157425912	85773461	1170	23521											
ACVR1C	130399	broad.mit.edu	37	chr2	158406865	158406865	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctactatttcctgaagcacaAtcgtccttgcaattgtcctt	9	15	5	12	1	0	1	0	1	0	0	4	1	3	1	3	0	3	2	3	0	5	6	rs56188432	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:158406865A>G	uc002tzk.3	-	4	827	c.584T>C	c.(583-585)ATT>ACT	p.I195T	ACVR1C_uc002tzl.3_Missense_Mutation_p.I115T|ACVR1C_uc010fof.2_Intron|ACVR1C_uc010foe.2_Missense_Mutation_p.I145T	NM_145259	NP_660302	Q8NER5	ACV1C_HUMAN	activin A receptor, type IC isoform 1	195	Protein kinase.|Cytoplasmic (Potential).		I -> T.		apoptosis|cell differentiation|regulation of apoptosis	activin receptor complex	activin receptor activity, type I|ATP binding|transforming growth factor beta receptor activity			lung(3)|ovary(2)|skin(2)	7						CTGAAGCACAATCGTCCTTGC	0.398													17	117					0	0	1	0	0		G	158406865	G	G	158406865	3	3	27	1	0	0	0	0	1	0	0	0	222	101	4	3	921	3	ACVR1C	2	158406865	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	980953	158406865	84792508	1171	23522											
UPP2	151531	broad.mit.edu	37	chr2	158971666	158971666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagcatttgcactgtttatGcacaaggagctcgggtttga	11	12	11	7	1	0	1	0	1	0	0	1	2	0	2	0	2	4	6	0	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:158971666G>A	uc002tzp.2	+	3	428	c.234G>A	c.(232-234)ATG>ATA	p.M78I	UPP2_uc002tzo.2_Missense_Mutation_p.M135I	NM_173355	NP_775491	O95045	UPP2_HUMAN	uridine phosphorylase 2 isoform a	78					nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage|uridine metabolic process	cytosol|type III intermediate filament	uridine phosphorylase activity				0						CACTGTTTATGCACAAGGAGC	0.458													8	105					0	0	1	0	0		A	158971666	A	A	158971666	3	1	27	1	0	0	0	0	1	0	0	0	17039	1319	46	2	423	2	UPP2	2	158971666	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	564801	158971666	84227707	1172	23523											
CCDC148	130940	broad.mit.edu	37	chr2	159195339	159195339	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attgaagatttcaaatcaggGtatgggcattccaaactttc	13	13	8	7	0	2	2	2	1	0	1	4	2	3	2	1	2	1	2	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:159195339G>A	uc002tzq.2	-	7	926	c.663C>T	c.(661-663)TAC>TAT	p.Y221Y	CCDC148_uc002tzr.2_Silent_p.Y69Y|CCDC148_uc010foh.2_Intron|CCDC148_uc010foi.1_Silent_p.Y168Y|CCDC148_uc010foj.1_Silent_p.Y69Y|CCDC148_uc010fok.1_Silent_p.Y135Y|CCDC148_uc002tzs.1_Silent_p.Y221Y	NM_138803	NP_620158	Q8NFR7	CC148_HUMAN	coiled-coil domain containing 148	221										ovary(2)	2						TCAAATCAGGGTATGGGCATT	0.338													4	78					0	0	1	0	0		A	159195339	A	A	159195339	2	1	27	1	0	0	0	0	0	0	0	1	2785	1256	44	4		4	CCDC148	2	159195339	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	223673	159195339	84004034	1173	23524											
PKP4	8502	broad.mit.edu	37	chr2	159517928	159517928	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactgttgtatgtgatccAcacgtgtgtgaacacatccg	9	12	9	11	2	1	2	1	2	0	0	3	2	3	2	2	0	1	2	2	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:159517928A>G	uc002tzv.2	+	13	2437	c.2177A>G	c.(2176-2178)CAC>CGC	p.H726R	PKP4_uc002tzt.1_Missense_Mutation_p.H578R|PKP4_uc002tzu.2_Missense_Mutation_p.H726R|PKP4_uc002tzw.2_Missense_Mutation_p.H726R|PKP4_uc002tzx.2_Missense_Mutation_p.H383R|PKP4_uc002tzy.1_Missense_Mutation_p.H384R|PKP4_uc002uaa.2_Missense_Mutation_p.H578R|uc002uab.1_RNA|PKP4_uc002uac.2_5'Flank	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	726	ARM 6.				cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						TATGTGATCCACACGTGTGTG	0.577										HNSCC(62;0.18)			5	53					0	0	1	0	0		G	159517928	G	G	159517928	3	3	27	1	0	0	0	0	1	0	0	0	12006	159	6	3	2223	3	PKP4	2	159517928	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	322589	159517928	83681445	1174	23525											
DAPL1	92196	broad.mit.edu	37	chr2	159660836	159660836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttccaaaaaacaagaaattgGcaccttggaaagacatacca	19	7	6	9	0	0	2	0	0	0	2	1	3	1	3	3	2	2	1	3	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:159660836G>A	uc002uaf.2	+	2	157	c.101G>A	c.(100-102)GGC>GAC	p.G34D		NM_001017920	NP_001017920	A0PJW8	DAPL1_HUMAN	death associated protein-like 1	34					apoptosis|cell differentiation						0						CAAGAAATTGGCACCTTGGAA	0.383													3	18					0	0	1	0	0		A	159660836	A	A	159660836	3	1	27	1	0	0	0	0	1	0	0	0	4241	1203	42	2	107	2	DAPL1	2	159660836	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	142908	159660836	83538537	1175	23526											
TANC1	85461	broad.mit.edu	37	chr2	160050845	160050845	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aataatgccccaatcctgtgCgtccagtctcaccttggcca	9	10	7	15	1	1	0	1	0	1	0	4	0	3	0	6	1	2	0	6	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:160050845C>T	uc002uag.2	+	17	3094	c.2820C>T	c.(2818-2820)TGC>TGT	p.C940C	TANC1_uc010zcm.1_Silent_p.C932C|TANC1_uc010fom.1_Silent_p.C746C	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	940	ANK 2.					cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CAATCCTGTGCGTCCAGTCTC	0.552													18	59					0	0	1	0	0		T	160050845	T	T	160050845	2	4	27	1	0	0	0	0	0	0	0	1	15569	776	27	1		1	TANC1	2	160050845	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	390009	160050845	83148528	1176	23527											
TANC1	85461	broad.mit.edu	37	chr2	160050927	160050927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggacggaacgtcagagaacGgcatgactgccctctgttac	10	8	12	11	3	2	2	1	1	1	1	2	5	2	4	1	3	4	2	1	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:160050927G>A	uc002uag.2	+	17	3176	c.2902G>A	c.(2902-2904)GGC>AGC	p.G968S	TANC1_uc010zcm.1_Missense_Mutation_p.G960S|TANC1_uc010fom.1_Missense_Mutation_p.G774S	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	968	ANK 3.					cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						GTCAGAGAACGGCATGACTGC	0.567													4	45					0	0	1	0	0		A	160050927	A	A	160050927	3	1	27	1	0	0	0	0	1	0	0	0	15569	1116	39	1	2960	1	TANC1	2	160050927	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	82	160050927	83148446	1177	23528											
BAZ2B	29994	broad.mit.edu	37	chr2	160289417	160289417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgttccactaaagattttGcaggatgggagtgatgctgt	10	14	12	5	0	0	2	0	1	0	1	1	4	1	4	1	2	2	3	1	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:160289417G>A	uc002uao.2	-	9	2103	c.1751C>T	c.(1750-1752)GCA>GTA	p.A584V	BAZ2B_uc002uap.2_Missense_Mutation_p.A582V|BAZ2B_uc002uas.1_Missense_Mutation_p.A521V|BAZ2B_uc002uaq.1_Missense_Mutation_p.A512V|BAZ2B_uc002uar.1_Missense_Mutation_p.A157V	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	584					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TAAAGATTTTGCAGGATGGGA	0.353													16	130					0	0	1	0	0		A	160289417	A	A	160289417	3	1	27	1	0	0	0	0	1	0	0	0	1333	1319	46	2	4871	2	BAZ2B	2	160289417	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	238490	160289417	82909956	1178	23529											
ITGB6	3694	broad.mit.edu	37	chr2	161029176	161029176	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtttgctgtccattccaaaAtgagaatcagcatcactcac	13	11	6	11	0	3	1	3	1	0	1	5	2	5	1	2	0	2	3	2	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:161029176A>G	uc002ubh.2	-	6	841	c.825T>C	c.(823-825)CAT>CAC	p.H275H	ITGB6_uc010fow.1_RNA|ITGB6_uc010fou.2_Silent_p.H275H|ITGB6_uc010zcq.1_Silent_p.H233H|ITGB6_uc010fov.1_Silent_p.H275H	NM_000888	NP_000879	P18564	ITB6_HUMAN	integrin, beta 6 precursor	275	Extracellular (Potential).|VWFA.				cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|multicellular organismal development	integrin complex	receptor activity			ovary(1)|lung(1)|skin(1)	3						CCATTCCAAAATGAGAATCAG	0.448													6	168					0	0	1	0	0		G	161029176	G	G	161029176	2	3	27	1	0	0	0	0	0	0	0	1	7915	98	4	3		3	ITGB6	2	161029176	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	739759	161029176	82170197	1179	23530											
TANK	10010	broad.mit.edu	37	chr2	162087958	162087958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcgtgtttgccacctggaGaccataatgcattatatgta	10	13	9	9	1	0	1	0	0	0	1	0	2	0	1	3	1	3	3	3	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:162087958G>A	uc002ubr.1	+	7	1155	c.997G>A	c.(997-999)GAC>AAC	p.D333N	TANK_uc002ubs.2_Missense_Mutation_p.D333N	NM_004180	NP_004171	Q92844	TANK_HUMAN	TRAF interacting protein TANK isoform a	333						cytosol	metal ion binding|protein binding			ovary(1)	1						GCCACCTGGAGACCATAATGC	0.443													9	89					0	0	1	0	0		A	162087958	A	A	162087958	3	1	27	1	0	0	0	0	1	0	0	0	15571	942	33	4	1052	4	TANK	2	162087958	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1058782	162087958	81111415	1180	23531											
TBR1	10716	broad.mit.edu	37	chr2	162279997	162279997	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctttcctgcaggaccagttCgtgagcaactacgccaaggc	9	9	10	13	2	1	1	0	1	1	0	3	2	2	2	3	2	4	3	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:162279997C>T	uc002ubw.1	+	6	1610	c.1308C>T	c.(1306-1308)TTC>TTT	p.F436F	TBR1_uc010foy.2_Silent_p.F149F	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	436						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						AGGACCAGTTCGTGAGCAACT	0.587													3	18					0	0	1	0	0		T	162279997	T	T	162279997	2	4	27	1	0	0	0	0	0	0	0	1	15672	883	31	1		1	TBR1	2	162279997	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	192039	162279997	80919376	1181	23532											
SLC4A10	57282	broad.mit.edu	37	chr2	162661031	162661031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcgacgtcacaggcatcGtggtcataaacacagaaaga	15	6	9	11	3	2	2	2	0	0	2	4	3	2	2	1	2	1	1	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:162661031G>A	uc002ubx.3	+	3	387	c.203G>A	c.(202-204)CGT>CAT	p.R68H	SLC4A10_uc010fpa.1_Missense_Mutation_p.R80H|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.R68H|SLC4A10_uc010zcs.1_Missense_Mutation_p.R79H	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	68	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						CACAGGCATCGTGGTCATAAA	0.418													13	34					0	0	1	0	0		A	162661031	A	A	162661031	3	1	27	1	0	0	0	0	1	0	0	0	14676	1145	40	1	298	1	SLC4A10	2	162661031	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	381034	162661031	80538342	1182	23533											
DPP4	1803	broad.mit.edu	37	chr2	162875293	162875293	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgaatgacacagaatagtActgacacctttccggattca	14	10	7	10	1	1	4	1	3	0	1	2	5	2	5	2	1	1	1	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:162875293A>G	uc002ubz.2	-	16	1927	c.1366T>C	c.(1366-1368)TAC>CAC	p.Y456H	DPP4_uc010fpb.2_Missense_Mutation_p.Y132H	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	456	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	ACAGAATAGTACTGACACCTT	0.463													6	100					0	0	1	0	0		G	162875293	G	G	162875293	3	3	27	1	0	0	0	0	1	0	0	0	4735	391	14	3	978	3	DPP4	2	162875293	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	214262	162875293	80324080	1183	23534											
IFIH1	64135	broad.mit.edu	37	chr2	163174369	163174369	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaacagacacctacccggTttctgtcttcaattgtcaac	10	12	6	13	1	4	2	2	1	2	1	4	2	4	2	2	1	3	1	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:163174369T>G	uc002uce.2	-	1	671	c.449A>C	c.(448-450)AAC>ACC	p.N150T	IFIH1_uc002ucf.2_Missense_Mutation_p.N150T	NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	150	CARD 2.				detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1						ACCTACCCGGTTTCTGTCTTC	0.488													8	482					0	0	1	0	0		G	163174369	G	G	163174369	3	3	27	1	0	0	0	0	1	0	0	0	7536	1725	60	5	2692	5	IFIH1	2	163174369	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	299076	163174369	80025004	1184	23535											
KCNH7	90134	broad.mit.edu	37	chr2	163256819	163256819	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggaggtgcatgggtggTtttgaacttcattgccaaag	8	13	13	7	0	1	1	1	1	0	0	2	2	2	2	2	4	3	2	2	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:163256819T>C	uc002uch.1	-	10	2499	c.2287A>G	c.(2287-2289)ACC>GCC	p.T763A		NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	763	Cytoplasmic (Potential).|cNMP.				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	GCATGGGTGGTTTTGAACTTC	0.463													5	103					0	0	1	0	0		C	163256819	C	C	163256819	3	2	27	1	0	0	0	0	1	0	0	0	8053	1725	60	3	1331	3	KCNH7	2	163256819	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	82450	163256819	79942554	1185	23536											
FIGN	55137	broad.mit.edu	37	chr2	164466724	164466724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggcccccagctgactagCgatgcatctgcccaataatg	9	9	10	13	1	1	1	0	1	1	0	1	2	1	1	3	1	4	2	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:164466724C>T	uc002uck.1	-	3	1929	c.1618G>A	c.(1618-1620)GCT>ACT	p.A540T		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	540						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						AGCTGACTAGCGATGCATCTG	0.498													13	70					0	0	1	0	0		T	164466724	T	T	164466724	3	4	27	1	0	0	0	0	1	0	0	0	5905	768	27	1	665	1	FIGN	2	164466724	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1209905	164466724	78732649	1186	23537											
COBLL1	22837	broad.mit.edu	37	chr2	165551250	165551250	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcatggacactcttggcAgctgcagatgtcacatagtg	10	9	12	10	0	2	1	1	0	1	1	2	2	2	2	0	2	3	5	0	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:165551250A>G	uc010zcw.1	-	15	3091	c.2967T>C	c.(2965-2967)GCT>GCC	p.A989A	COBLL1_uc002ucp.2_Silent_p.A922A|COBLL1_uc002ucq.2_Silent_p.A884A|COBLL1_uc010zcx.1_Silent_p.A930A|COBLL1_uc002ucn.2_Silent_p.A350A|COBLL1_uc002uco.2_Silent_p.A653A	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	960										ovary(2)|pancreas(1)	3						CACTCTTGGCAGCTGCAGATG	0.473													6	48					0	0	1	0	0		G	165551250	G	G	165551250	2	3	27	1	0	0	0	0	0	0	0	1	3657	175	7	3		3	COBLL1	2	165551250	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1084526	165551250	77648123	1187	23538											
SLC38A11	151258	broad.mit.edu	37	chr2	165768194	165768194	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtcaaaatgacagtgacAccataacaaaatcttccaaa	19	9	4	9	0	2	2	1	2	1	0	3	2	3	2	2	0	1	0	2	0	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:165768194A>G	uc002ucv.1	-	11	1284	c.747T>C	c.(745-747)GGT>GGC	p.G249G	SLC38A11_uc002ucu.1_Silent_p.G227G|SLC38A11_uc002ucw.1_Silent_p.G249G	NM_173512	NP_775783	Q08AI6	S38AB_HUMAN	solute carrier family 38, member 11	249	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane				ovary(1)	1						TGACAGTGACACCATAACAAA	0.378													6	24					0	0	1	0	0		G	165768194	G	G	165768194	2	3	27	1	0	0	0	0	0	0	0	1	14628	146	6	3		3	SLC38A11	2	165768194	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	216944	165768194	77431179	1188	23539											
SCN3A	6328	broad.mit.edu	37	chr2	165950924	165950924	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgaggtttcttggatccaAgtttcttcattgcattgtaa	8	18	8	7	0	4	1	1	1	3	0	5	2	5	2	1	2	1	4	1	2	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:165950924A>T	uc002ucx.2	-	26	4988	c.4496T>A	c.(4495-4497)CTT>CAT	p.L1499H	SCN3A_uc010zcy.1_5'Flank|SCN3A_uc002ucy.2_Missense_Mutation_p.L1450H|SCN3A_uc002ucz.2_Missense_Mutation_p.L1450H	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1499						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	CTTGGATCCAAGTTTCTTCAT	0.378													16	328					0	0	1	0	0		T	165950924	T	T	165950924	3	4	27	1	0	0	0	0	1	0	0	0	13943	72	3	5	1518	5	SCN3A	2	165950924	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	182730	165950924	77248449	1189	23540											
SCN3A	6328	broad.mit.edu	37	chr2	165997314	165997314	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcctgactaacgttactGttgcgtcgctctccatgtct	5	14	9	13	3	2	1	0	1	2	0	4	1	2	1	2	1	3	3	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:165997314G>A	uc002ucx.2	-	13	2358	c.1866C>T	c.(1864-1866)AAC>AAT	p.N622N	SCN3A_uc002ucy.2_Silent_p.N622N|SCN3A_uc002ucz.2_Silent_p.N622N|SCN3A_uc002uda.1_Silent_p.N491N|SCN3A_uc002udb.1_Silent_p.N491N	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	622						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	TAACGTTACTGTTGCGTCGCT	0.498													8	63					0	0	1	0	0		A	165997314	A	A	165997314	2	1	27	1	0	0	0	0	0	0	0	1	13943	1368	48	4		4	SCN3A	2	165997314	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46390	165997314	77202059	1190	23541											
SCN2A	6326	broad.mit.edu	37	chr2	166152539	166152539	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatttatttatggagacaTtcctccagagatggtgtcag	10	14	9	8	0	1	2	1	0	0	2	4	4	4	2	3	2	0	0	3	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:166152539T>C	uc002udc.2	+	2	496	c.206T>C	c.(205-207)ATT>ACT	p.I69T	SCN2A_uc002udd.2_Missense_Mutation_p.I69T|SCN2A_uc002ude.2_Missense_Mutation_p.I69T	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	69					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	TATGGAGACATTCCTCCAGAG	0.443													4	63					0	0	1	0	0		C	166152539	C	C	166152539	3	2	27	1	0	0	0	0	1	0	0	0	13941	1493	52	3	208	3	SCN2A	2	166152539	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	155225	166152539	77046834	1191	23542											
SCN2A	6326	broad.mit.edu	37	chr2	166168564	166168564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attttttagaggggcaaaatGatgctctgctttgtggcaac	10	14	11	6	0	1	2	0	1	1	1	1	2	1	2	0	3	3	4	0	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:166168564G>A	uc002udc.2	+	8	1290	c.1000G>A	c.(1000-1002)GAT>AAT	p.D334N	SCN2A_uc002udd.2_Missense_Mutation_p.D334N|SCN2A_uc002ude.2_Missense_Mutation_p.D334N	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	334	I.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	GGGGCAAAATGATGCTCTGCT	0.418													5	27					0	0	1	0	0		A	166168564	A	A	166168564	3	1	27	1	0	0	0	0	1	0	0	0	13941	1290	45	4	1122	4	SCN2A	2	166168564	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16025	166168564	77030809	1192	23543											
SCN2A	6326	broad.mit.edu	37	chr2	166179742	166179742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttttcagcttcagaggtcGagcaaaggacattggctctg	9	11	11	10	1	3	1	2	0	1	1	4	3	3	2	1	3	2	3	1	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:166179742G>A	uc002udc.2	+	12	2038	c.1748G>A	c.(1747-1749)CGA>CAA	p.R583Q	SCN2A_uc002udd.2_Missense_Mutation_p.R583Q|SCN2A_uc002ude.2_Missense_Mutation_p.R583Q	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	583					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	TTCAGAGGTCGAGCAAAGGAC	0.493													5	66					0	0	1	0	0		A	166179742	A	A	166179742	3	1	27	1	0	0	0	0	1	0	0	0	13941	1058	37	1	1886	1	SCN2A	2	166179742	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11178	166179742	77019631	1193	23544											
SCN2A	6326	broad.mit.edu	37	chr2	166231207	166231207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgccaggttgttgtaaatGctcttttaggagccattcca	8	15	10	8	0	1	0	0	0	1	0	2	1	2	1	3	2	3	4	3	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:166231207G>A	uc002udc.2	+	22	4275	c.3985G>A	c.(3985-3987)GCT>ACT	p.A1329T	SCN2A_uc002udd.2_Missense_Mutation_p.A1329T|SCN2A_uc002ude.2_Missense_Mutation_p.A1329T	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1329	III.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	TGTTGTAAATGCTCTTTTAGG	0.338													13	105					0	0	1	0	0		A	166231207	A	A	166231207	3	1	27	1	0	0	0	0	1	0	0	0	13941	1319	46	2	4163	2	SCN2A	2	166231207	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	51465	166231207	76968166	1194	23545											
TTC21B	79809	broad.mit.edu	37	chr2	166786211	166786211	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaaaaattctagctgctgAtctgcatcctgtaattgccc	10	15	6	10	0	2	1	0	1	2	0	3	1	3	1	2	0	4	4	2	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:166786211A>T	uc002udk.2	-	10	1267	c.1134T>A	c.(1132-1134)GAT>GAA	p.D378E	TTC21B_uc002udl.2_Missense_Mutation_p.D378E	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	378						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						CTAGCTGCTGATCTGCATCCT	0.368													5	57					0	0	1	0	0		T	166786211	T	T	166786211	3	4	27	1	0	0	0	0	1	0	0	0	16714	330	12	5	2896	5	TTC21B	2	166786211	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	555004	166786211	76413162	1195	23546											
TTC21B	79809	broad.mit.edu	37	chr2	166802129	166802129	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaaataagcctgcatggtAtaaggctttctctccagctc	12	12	7	10	0	1	0	0	0	1	0	4	0	2	0	2	2	3	4	2	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:166802129A>C	uc002udk.2	-	4	467	c.334T>G	c.(334-336)TAC>GAC	p.Y112D	TTC21B_uc002udl.2_Missense_Mutation_p.Y112D|uc002udm.1_Intron	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	112	TPR 1.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						CCTGCATGGTATAAGGCTTTC	0.383													4	74					0	0	1	0	0		C	166802129	C	C	166802129	3	2	27	1	0	0	0	0	1	0	0	0	16714	449	16	5	3720	5	TTC21B	2	166802129	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	15918	166802129	76397244	1196	23547											
SCN1A	6323	broad.mit.edu	37	chr2	166848920	166848920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatacttttctatcagctcgGcaagaaacatacctatgaat	15	12	5	9	1	2	2	1	1	1	1	3	2	2	2	1	1	4	2	1	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:166848920G>A	uc010zcz.1	-	26	4850	c.4832C>T	c.(4831-4833)GCC>GTC	p.A1611V		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1622	IV.|Helical; Name=S3 of repeat IV; (By similarity).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TATCAGCTCGGCAAGAAACAT	0.418													11	63					0	0	1	0	0		A	166848920	A	A	166848920	3	1	27	1	0	0	0	0	1	0	0	0	13939	1203	42	2	1168	2	SCN1A	2	166848920	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46791	166848920	76350453	1197	23548											
SCN9A	6335	broad.mit.edu	37	chr2	167133605	167133605	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctccacacagcacgcggAacacaatcaggaaggagtgg	14	4	11	12	2	2	0	1	0	1	0	3	3	2	3	1	4	2	1	1	4	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:167133605A>T	uc010fpl.2	-	16	3070	c.2729T>A	c.(2728-2730)TTC>TAC	p.F910Y	uc002udp.2_RNA	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	921	II.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	CAGCACGCGGAACACAATCAG	0.478													16	159					0	0	1	0	0		T	167133605	T	T	167133605	3	4	27	1	0	0	0	0	1	0	0	0	13950	246	9	5	3252	5	SCN9A	2	167133605	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	284685	167133605	76065768	1198	23549											
XIRP2	129446	broad.mit.edu	37	chr2	168104512	168104512	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggatataaagaaaaagaatAtaaaccttcaaccaatgtgg	21	8	7	5	0	1	2	1	0	0	2	1	3	1	3	2	2	2	0	2	2	11	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:168104512A>G	uc002udx.2	+	8	6628	c.6610A>G	c.(6610-6612)ATA>GTA	p.I2204V	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.I2029V|XIRP2_uc010fpq.2_Missense_Mutation_p.I1982V|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2029					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GAAAAAGAATATAAACCTTCA	0.358													6	50					0	0	1	0	0		G	168104512	G	G	168104512	3	3	27	1	0	0	0	0	1	0	0	0	17456	449	16	3	6640	3	XIRP2	2	168104512	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	970907	168104512	75094861	1199	23550											
LASS6	253782	broad.mit.edu	37	chr2	169313062	169313062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccaccttcccgcaggCtgaggacctctatctcgctt	6	9	11	15	2	2	1	0	1	2	0	4	3	3	3	4	4	0	3	4	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:169313062C>T	uc002ueb.1	+	1	228	c.104C>T	c.(103-105)GCT>GTT	p.A35V	LASS6_uc002uec.1_Missense_Mutation_p.A35V	NM_203463	NP_982288	Q6ZMG9	CERS6_HUMAN	longevity assurance homolog 6	35	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			skin(1)	1						TTCCCGCAGGCTGAGGACCTC	0.597													6	55					0	0	1	0	0		T	169313062	T	T	169313062	3	4	27	1	0	0	0	0	1	0	0	0	8659	797	28	2	106	2	LASS6	2	169313062	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1208550	169313062	73886311	1200	23551											
ABCB11	8647	broad.mit.edu	37	chr2	169783702	169783702	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaatcatgcagctgagcCtgttttgcagctgctatgac	11	11	9	10	0	1	2	1	2	0	0	1	2	1	2	1	0	6	6	1	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:169783702C>A	uc002ueo.1	-	26	3708	c.3582G>T	c.(3580-3582)CAG>CAT	p.Q1194H	ABCB11_uc010zda.1_Missense_Mutation_p.Q612H|ABCB11_uc010zdb.1_Missense_Mutation_p.Q670H	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	1194	Cytoplasmic (Potential).|ABC transporter 2.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	GCAGCTGAGCCTGTTTTGCAG	0.453													5	214					1.06961e-07	1.16939e-07	1	1	0		A	169783702	A	A	169783702	3	1	27	1	0	0	0	0	1	0	0	0	42	680	24	5	395	5	ABCB11	2	169783702	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	470640	169783702	73415671	1201	23552											
ABCB11	8647	broad.mit.edu	37	chr2	169792759	169792759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctgtcccaccatctccaggGcctgcttatctcgagaggca	7	9	9	16	1	2	1	0	0	2	1	5	2	3	1	5	2	1	2	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:169792759G>A	uc002ueo.1	-	22	2921	c.2795C>T	c.(2794-2796)GCC>GTC	p.A932V	ABCB11_uc010zda.1_Missense_Mutation_p.A374V|ABCB11_uc010zdb.1_Missense_Mutation_p.A408V	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	932	Cytoplasmic (Potential).|ABC transmembrane type-1 2.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	CATCTCCAGGGCCTGCTTATC	0.478													5	28					0	0	1	0	0		A	169792759	A	A	169792759	3	1	27	1	0	0	0	0	1	0	0	0	42	1203	42	2	1198	2	ABCB11	2	169792759	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9057	169792759	73406614	1202	23553											
DHRS9	10170	broad.mit.edu	37	chr2	169939959	169939959	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttggactcatcagtgtgaCactaaatatgcttcctttgg	9	15	9	8	0	2	1	2	1	0	0	3	2	3	2	1	2	1	2	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:169939959C>G	uc002uep.2	+	6	1938	c.434C>G	c.(433-435)ACA>AGA	p.T145R	DHRS9_uc002ueq.2_Missense_Mutation_p.T145R|DHRS9_uc010zdc.1_Missense_Mutation_p.T205R|DHRS9_uc010zdd.1_Missense_Mutation_p.T145R|DHRS9_uc010zde.1_Missense_Mutation_p.T145R	NM_005771	NP_005762	Q9BPW9	DHRS9_HUMAN	NADP-dependent retinol dehydrogenase/reductase	145					9-cis-retinoic acid biosynthetic process|androgen metabolic process|epithelial cell differentiation|progesterone metabolic process|retinol metabolic process	integral to endoplasmic reticulum membrane|microsome	alcohol dehydrogenase (NAD) activity|binding|racemase and epimerase activity|retinol dehydrogenase activity|testosterone dehydrogenase (NAD+) activity				0						ATCAGTGTGACACTAAATATG	0.493													11	90					0	0	1	0	0		G	169939959	G	G	169939959	3	3	27	1	0	0	0	0	1	0	0	0	4504	478	17	5	440	5	DHRS9	2	169939959	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	147200	169939959	73259414	1203	23554											
DHRS9	10170	broad.mit.edu	37	chr2	169940033	169940033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtgttggaggtcgccttGcaatcgttggagggggctat	6	11	16	8	2	0	0	0	0	0	0	2	2	0	2	2	5	1	4	2	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:169940033G>A	uc002uep.2	+	6	2012	c.508G>A	c.(508-510)GCA>ACA	p.A170T	DHRS9_uc002ueq.2_Missense_Mutation_p.A170T|DHRS9_uc010zdc.1_Missense_Mutation_p.A230T|DHRS9_uc010zdd.1_Missense_Mutation_p.A170T|DHRS9_uc010zde.1_Missense_Mutation_p.A170T	NM_005771	NP_005762	Q9BPW9	DHRS9_HUMAN	NADP-dependent retinol dehydrogenase/reductase	170					9-cis-retinoic acid biosynthetic process|androgen metabolic process|epithelial cell differentiation|progesterone metabolic process|retinol metabolic process	integral to endoplasmic reticulum membrane|microsome	alcohol dehydrogenase (NAD) activity|binding|racemase and epimerase activity|retinol dehydrogenase activity|testosterone dehydrogenase (NAD+) activity				0						AGGTCGCCTTGCAATCGTTGG	0.408													4	60					0	0	1	0	0		A	169940033	A	A	169940033	3	1	27	1	0	0	0	0	1	0	0	0	4504	1319	46	2	514	2	DHRS9	2	169940033	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	74	169940033	73259340	1204	23555											
LRP2	4036	broad.mit.edu	37	chr2	170012784	170012784	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaacatgaacccatcatacCctcagctgcacatcgttttc	11	10	4	16	1	2	1	2	1	0	0	4	1	2	1	3	0	5	3	3	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:170012784C>A	uc002ues.2	-	65	12364	c.12151G>T	c.(12151-12153)GGT>TGT	p.G4051C		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4051	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CCCATCATACCCTCAGCTGCA	0.428													12	109					3.07112e-06	3.32223e-06	1	1	0		A	170012784	A	A	170012784	3	1	27	1	0	0	0	0	1	0	0	0	8974	637	22	5	1876	5	LRP2	2	170012784	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	72751	170012784	73186589	1205	23556											
LRP2	4036	broad.mit.edu	37	chr2	170034315	170034315	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcaatcacctactcaccaAtgggctgcctatatggatgg	10	10	8	13	0	3	0	3	0	0	0	3	1	3	1	4	3	2	1	4	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:170034315A>G	uc002ues.2	-	53	10604	c.10391T>C	c.(10390-10392)ATT>ACT	p.I3464T		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3464	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CTACTCACCAATGGGCTGCCT	0.413													22	230					0	0	1	0	0		G	170034315	G	G	170034315	3	3	27	1	0	0	0	0	1	0	0	0	8974	101	4	3	3684	3	LRP2	2	170034315	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21531	170034315	73165058	1206	23557											
LRP2	4036	broad.mit.edu	37	chr2	170066149	170066149	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacatgcagtgcgtttcGtcctggaagttaagaaaaga	13	10	10	8	2	0	2	0	0	0	2	3	3	2	3	2	1	2	3	2	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:170066149G>A	uc002ues.2	-	38	6496	c.6283C>T	c.(6283-6285)CGA>TGA	p.R2095*		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2095	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AGTGCGTTTCGTCCTGGAAGT	0.418													5	30					0	0	1	0	0		A	170066149	A	A	170066149	4	1	27	1	0	0	0	0	0	1	0	0	8974	1153	40	1	7852	1	LRP2	2	170066149	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31834	170066149	73133224	1207	23558											
LRP2	4036	broad.mit.edu	37	chr2	170097855	170097855	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaattcatctgagtggcAcataccaggaggcctggttg	10	10	12	9	0	2	2	1	2	1	0	2	3	2	3	2	4	1	2	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:170097855A>G	uc002ues.2	-	25	3901	c.3688T>C	c.(3688-3690)TGC>CGC	p.C1230R	LRP2_uc010zdf.1_Missense_Mutation_p.C1093R	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1230	Extracellular (Potential).|LDL-receptor class A 13.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TCTGAGTGGCACATACCAGGA	0.453													12	158					0	0	1	0	0		G	170097855	G	G	170097855	3	3	27	1	0	0	0	0	1	0	0	0	8974	159	6	3	10499	3	LRP2	2	170097855	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	31706	170097855	73101518	1208	23559											
LRP2	4036	broad.mit.edu	37	chr2	170115570	170115570	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actaccaccgaccgtgggttAtttaaatactgaactactgt	12	12	7	10	2	0	1	0	1	0	0	0	2	0	1	3	1	4	1	3	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:170115570A>C	uc002ues.2	-	17	2691	c.2478T>G	c.(2476-2478)AAT>AAG	p.N826K	LRP2_uc010zdf.1_Missense_Mutation_p.N689K	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	826	LDL-receptor class B 7.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ACCGTGGGTTATTTAAATACT	0.398													7	99					0	0	1	0	0		C	170115570	C	C	170115570	3	2	27	1	0	0	0	0	1	0	0	0	8974	446	16	5	11741	5	LRP2	2	170115570	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17715	170115570	73083803	1209	23560											
LRP2	4036	broad.mit.edu	37	chr2	170135946	170135946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcagttataagggtaacccGatagcttccatccaaattta	13	13	6	9	1	1	0	1	0	0	0	3	1	3	0	3	1	2	3	3	1	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:170135946G>A	uc002ues.2	-	12	1714	c.1501C>T	c.(1501-1503)CGG>TGG	p.R501W	LRP2_uc010zdf.1_Missense_Mutation_p.R501W	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	501	LDL-receptor class B 2.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AGGGTAACCCGATAGCTTCCA	0.418													29	129					0	0	1	0	0		A	170135946	A	A	170135946	3	1	27	1	0	0	0	0	1	0	0	0	8974	1057	37	1	12738	1	LRP2	2	170135946	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20376	170135946	73063427	1210	23561											
UBR3	130507	broad.mit.edu	37	chr2	170936326	170936326	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggataatgttttaggcCttgcttatccaagagtcaaa	11	16	8	6	0	1	1	1	0	0	1	2	2	2	2	2	2	1	2	2	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:170936326C>A	uc010zdi.1	+	37	5202	c.5202C>A	c.(5200-5202)GCC>GCA	p.A1734A	UBR3_uc002ufr.3_RNA|UBR3_uc010fqa.2_Silent_p.A555A|UBR3_uc002uft.3_Silent_p.A591A|UBR3_uc010zdj.1_Silent_p.A425A|UBR3_uc002ufu.3_Silent_p.A240A	NM_172070	NP_742067	Q6ZT12	UBR3_HUMAN	E3 ubiquitin-protein ligase UBR3	1734					sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0						TGTTTTAGGCCTTGCTTATCC	0.299													11	39					1.08611e-07	1.18661e-07	1	1	0		A	170936326	A	A	170936326	2	1	27	1	0	0	0	0	0	0	0	1	16929	668	24	5		5	UBR3	2	170936326	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	800380	170936326	72263047	1211	23562											
MYO3B	140469	broad.mit.edu	37	chr2	171256774	171256774	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcgcagctatttcctctcAacatcagactgataaaagtg	12	12	7	10	1	2	2	2	1	1	1	5	2	3	2	1	0	2	3	1	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:171256774A>G	uc002ufy.2	+	17	2011	c.1868A>G	c.(1867-1869)CAA>CGA	p.Q623R	MYO3B_uc002ufv.2_Missense_Mutation_p.Q610R|MYO3B_uc010fqb.1_Missense_Mutation_p.Q610R|MYO3B_uc002ufz.2_Missense_Mutation_p.Q623R|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	623	Myosin head-like.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						ATTTCCTCTCAACATCAGACT	0.413													41	125					0	0	1	0	0		G	171256774	G	G	171256774	3	3	27	1	0	0	0	0	1	0	0	0	10095	130	5	3	1934	3	MYO3B	2	171256774	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	320448	171256774	71942599	1212	23563											
GAD1	2571	broad.mit.edu	37	chr2	171702573	171702573	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attcttgaagccaaacagaaGgtatgtactccgtggtgcat	12	11	10	8	1	1	2	0	1	1	1	2	2	2	2	2	2	4	3	2	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:171702573G>T	uc002ugi.2	+	10	1424	c.1002G>T	c.(1000-1002)AAG>AAT	p.K334N		NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	334					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CCAAACAGAAGGTATGTACTC	0.353													7	64					1.76689e-08	1.94149e-08	1	1	0		T	171702573	T	T	171702573	3	4	27	1	0	0	0	0	1	0	0	0	6193	1014	35	5	1077	5	GAD1	2	171702573	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	445799	171702573	71496800	1213	23564											
DCAF17	80067	broad.mit.edu	37	chr2	172330389	172330389	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcaggcaaaaaatgggaTccaagaaatggattgttgtt	15	11	10	5	0	1	1	1	0	0	1	2	3	2	3	1	3	0	3	1	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:172330389T>A	uc002ugx.2	+	10	1224	c.995T>A	c.(994-996)ATC>AAC	p.I332N	DCAF17_uc010zdq.1_RNA|DCAF17_uc010fqf.1_Intron|DCAF17_uc010zdr.1_RNA|DCAF17_uc010fqg.2_Missense_Mutation_p.I52N	NM_025000	NP_079276	Q5H9S7	DCA17_HUMAN	DDB1 and CUL4 associated factor 17 isoform 1	332						CUL4 RING ubiquitin ligase complex|integral to membrane|nucleolus					0						AAAAATGGGATCCAAGAAATG	0.343													5	33					0	0	1	0	0		A	172330389	A	A	172330389	3	1	27	1	0	0	0	0	1	0	0	0	4272	1435	50	5	1033	5	DCAF17	2	172330389	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	627816	172330389	70868984	1214	23565											
PDK1	5163	broad.mit.edu	37	chr2	173457701	173457701	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcccatatcacgtctttaCgcacaatacttccaaggaga	12	11	6	12	2	2	1	1	0	1	1	3	2	3	1	2	1	3	1	2	1	5	6	rs138447627		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:173457701C>T	uc002uhr.2	+	10	1195	c.1095C>T	c.(1093-1095)TAC>TAT	p.Y365Y	PDK1_uc010zdz.1_Silent_p.Y210Y|PDK1_uc010zea.1_RNA|PDK1_uc002uhq.1_Silent_p.Y385Y|PDK1_uc002uhs.2_Silent_p.Y365Y|PDK1_uc010zeb.1_Silent_p.Y385Y	NM_002610	NP_002601	Q15118	PDK1_HUMAN	pyruvate dehydrogenase kinase 1 precursor	365	Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|small GTPase mediated signal transduction	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(3)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.12)			CACGTCTTTACGCACAATACT	0.378									Autosomal_Dominant_Polycystic_Kidney_Disease				27	96					0	0	1	0	0		T	173457701	T	T	173457701	2	4	27	1	0	0	0	0	0	0	0	1	11694	547	19	1		1	PDK1	2	173457701	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1127312	173457701	69741672	1215	23566											
RAPGEF4	11069	broad.mit.edu	37	chr2	173891823	173891823	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctagctggagctaatctaTcacacatttggaaggcataa	13	12	8	8	0	3	0	1	0	2	0	3	2	3	2	0	3	2	3	0	3	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:173891823T>A	uc002uhv.3	+	25	2581	c.2394T>A	c.(2392-2394)TAT>TAA	p.Y798*	RAPGEF4_uc002uhw.3_Nonsense_Mutation_p.Y654*	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	798	Ras-GEF.				blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			AGCTAATCTATCACACATTTG	0.328													10	79					0	0	1	0	0		A	173891823	A	A	173891823	4	1	27	1	0	0	0	0	0	1	0	0	13071	1442	50	5	2508	5	RAPGEF4	2	173891823	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	434122	173891823	69307550	1216	23567											
ZAK	51776	broad.mit.edu	37	chr2	173955868	173955868	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatcgagccaaatggataTcacaggacaaggaggtggct	13	9	12	7	1	1	0	1	0	0	0	2	4	1	3	1	5	1	1	1	5	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:173955868T>A	uc002uhz.2	+	2	309	c.109T>A	c.(109-111)TCA>ACA	p.S37T	ZAK_uc002uhx.2_Missense_Mutation_p.S37T|ZAK_uc002uhy.2_Missense_Mutation_p.S37T|ZAK_uc010zei.1_Intron|ZAK_uc002uia.1_Missense_Mutation_p.S37T	NM_016653	NP_057737	Q9NYL2	MLTK_HUMAN	MLK-related kinase isoform 1	37	Protein kinase.				activation of JUN kinase activity|activation of MAPKK activity|cell cycle arrest|cell death|cell differentiation|cell proliferation|DNA damage checkpoint|positive regulation of apoptosis|response to radiation	cytoplasm|nucleus	ATP binding|identical protein binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			lung(3)|stomach(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.176)			CAAATGGATATCACAGGACAA	0.418													5	103					0	0	1	0	0		A	173955868	A	A	173955868	3	1	27	1	0	0	0	0	1	0	0	0	17538	1435	50	5	111	5	ZAK	2	173955868	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	64045	173955868	69243505	1217	23568											
ZAK	51776	broad.mit.edu	37	chr2	174130855	174130855	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttacagcgttcccagagcAatcctattctggggtcaccg	8	11	9	13	2	2	1	1	0	1	1	4	1	4	1	3	2	3	2	3	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:174130855A>G	uc002uhz.2	+	20	1980	c.1780A>G	c.(1780-1782)AAT>GAT	p.N594D	uc002uib.2_Intron	NM_016653	NP_057737	Q9NYL2	MLTK_HUMAN	MLK-related kinase isoform 1	594					activation of JUN kinase activity|activation of MAPKK activity|cell cycle arrest|cell death|cell differentiation|cell proliferation|DNA damage checkpoint|positive regulation of apoptosis|response to radiation	cytoplasm|nucleus	ATP binding|identical protein binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			lung(3)|stomach(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.176)			TTCCCAGAGCAATCCTATTCT	0.512													5	18					0	0	1	0	0		G	174130855	G	G	174130855	3	3	27	1	0	0	0	0	1	0	0	0	17538	130	5	3	2239	3	ZAK	2	174130855	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	174987	174130855	69068518	1218	23569											
ZAK	51776	broad.mit.edu	37	chr2	174131092	174131092	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcttcagagaggggtcgaTactcagacagaagcaggaac	13	6	12	10	1	3	3	2	0	1	3	4	6	3	4	1	3	3	1	1	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:174131092T>A	uc002uhz.2	+	20	2217	c.2017T>A	c.(2017-2019)TAC>AAC	p.Y673N	uc002uib.2_Intron	NM_016653	NP_057737	Q9NYL2	MLTK_HUMAN	MLK-related kinase isoform 1	673					activation of JUN kinase activity|activation of MAPKK activity|cell cycle arrest|cell death|cell differentiation|cell proliferation|DNA damage checkpoint|positive regulation of apoptosis|response to radiation	cytoplasm|nucleus	ATP binding|identical protein binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			lung(3)|stomach(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.176)			GAGGGGTCGATACTCAGACAG	0.453													11	99					0	0	1	0	0		A	174131092	A	A	174131092	3	1	27	1	0	0	0	0	1	0	0	0	17538	1406	49	5	2476	5	ZAK	2	174131092	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	237	174131092	69068281	1219	23570											
CDCA7	83879	broad.mit.edu	37	chr2	174229673	174229673	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaggaggaagaggataagTacatgttggtgagaaagagg	16	6	18	1	0	0	3	0	1	0	3	0	8	0	7	0	6	1	2	0	6	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:174229673T>C	uc002uid.1	+	5	744	c.613T>C	c.(613-615)TAC>CAC	p.Y205H	CDCA7_uc002uic.1_Missense_Mutation_p.Y284H|CDCA7_uc010zej.1_Missense_Mutation_p.Y240H|CDCA7_uc010zek.1_Missense_Mutation_p.Y163H	NM_145810	NP_665809	Q9BWT1	CDCA7_HUMAN	cell division cycle associated 7 isoform 2	205					regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.116)			AGAGGATAAGTACATGTTGGT	0.532													8	44					0	0	1	0	0		C	174229673	C	C	174229673	3	2	27	1	0	0	0	0	1	0	0	0	3093	1638	57	3	872	3	CDCA7	2	174229673	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	98581	174229673	68969700	1220	23571											
CIR1	9541	broad.mit.edu	37	chr2	175246441	175246441	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagataagtaccttttttagCtcctggtggggcttcataca	10	14	9	8	0	1	1	1	0	0	1	2	1	2	1	2	3	3	3	2	3	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:175246441C>A	uc002uim.2	-	3	325	c.232G>T	c.(232-234)GCT>TCT	p.A78S	CIR1_uc002uin.2_5'UTR|CIR1_uc002uio.2_5'UTR|CIR1_uc002uip.2_5'UTR	NM_004882	NP_004873	Q86X95	CIR1_HUMAN	CBF1 interacting corepressor	78	Interaction with RBPJ.				mRNA processing|negative regulation of transcription, DNA-dependent|RNA splicing	nuclear speck	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			large_intestine(1)	1						CCTTTTTTAGCTCCTGGTGGG	0.234													18	307					2.35188e-11	2.60738e-11	1	1	0		A	175246441	A	A	175246441	3	1	27	1	0	0	0	0	1	0	0	0	3435	797	28	5	1152	5	CIR1	2	175246441	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1016768	175246441	67952932	1221	23572											
CHN1	1123	broad.mit.edu	37	chr2	175676303	175676303	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgatactcggtatagtccTtcagaattaagacctgaaaa	14	11	7	9	1	1	4	1	2	0	2	3	4	2	4	3	1	1	1	3	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:175676303T>C	uc002uji.2	-	10	1430	c.900A>G	c.(898-900)GAA>GAG	p.E300E	CHN1_uc010zeq.1_Silent_p.E274E|CHN1_uc002ujj.2_Silent_p.E75E|CHN1_uc002ujg.2_Silent_p.E175E	NM_001822	NP_001813	P15882	CHIN_HUMAN	chimerin (chimaerin) 1 isoform a	300	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.226)			GGTATAGTCCTTCAGAATTAA	0.348			T	TAF15	extraskeletal myxoid chondrosarcoma								3	31					0	0	1	0	0		C	175676303	C	C	175676303	2	2	27	1	0	0	0	0	0	0	0	1	3365	1606	56	3		3	CHN1	2	175676303	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	429862	175676303	67523070	1222	23573											
ATP5G3	518	broad.mit.edu	37	chr2	176046086	176046086	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctgggctacgcaccagAgagggggtgcaggcgagctt	7	6	17	11	2	0	1	0	0	0	1	0	3	0	1	2	4	4	4	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:176046086A>T	uc002ujz.3	-	1	306	c.36T>A	c.(34-36)TCT>TCA	p.S12S	ATP5G3_uc002uka.3_Silent_p.S12S|ATP5G3_uc002ukb.1_Silent_p.S12S	NM_001002258	NP_001002258	P48201	AT5G3_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	12					ATP hydrolysis coupled proton transport|ATP synthesis coupled proton transport	integral to membrane|mitochondrial proton-transporting ATP synthase complex|proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity|lipid binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.147)			TACGCACCAGAGAGGGGGTGC	0.652													8	29					0	0	1	0	0		T	176046086	T	T	176046086	2	4	27	1	0	0	0	0	0	0	0	1	1156	291	11	5		5	ATP5G3	2	176046086	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	369783	176046086	67153287	1223	23574											
HOXD8	3234	broad.mit.edu	37	chr2	176995452	176995452	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcatcctccgcctccgccgCcacctcccccctgcggcggg	2	5	10	24	6	0	0	0	0	0	0	4	0	4	0	10	2	1	1	10	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:176995452C>G	uc002uko.2	+	1	976	c.358C>G	c.(358-360)CCA>GCA	p.P120A	uc002ukl.1_5'Flank|uc002ukm.1_5'Flank|HOXD8_uc002ukn.2_Intron|HOXD8_uc002ukp.2_Missense_Mutation_p.P120A	NM_019558	NP_062458	P13378	HXD8_HUMAN	homeobox D8	120	Poly-Pro.				anterior/posterior axis specification, embryo	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		gcctccgccgccacctccccc	0.498													10	93					0	0	1	0	0		G	176995452	G	G	176995452	3	3	27	1	0	0	0	0	1	0	0	0	7341	739	26	5	360	5	HOXD8	2	176995452	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	949366	176995452	66203921	1224	23575											
MTX2	10651	broad.mit.edu	37	chr2	177202275	177202275	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatacaccattcttaccacAcaattgacaaatgatgaact	16	11	3	11	0	1	3	0	3	1	0	1	3	1	3	2	0	3	0	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:177202275A>G	uc002ukx.2	+	10	910	c.675A>G	c.(673-675)ACA>ACG	p.T225T	MTX2_uc002ukw.2_Silent_p.T215T	NM_006554	NP_006545	O75431	MTX2_HUMAN	metaxin 2	225					protein targeting to mitochondrion	mitochondrial outer membrane				ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00365)|Epithelial(96;0.0654)|all cancers(119;0.181)			TTCTTACCACACAATTGACAA	0.373													13	155					0	0	1	0	0		G	177202275	G	G	177202275	2	3	27	1	0	0	0	0	0	0	0	1	9986	146	6	3		3	MTX2	2	177202275	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	206823	177202275	65997098	1225	23576											
TTC30B	150737	broad.mit.edu	37	chr2	178415951	178415951	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaactcctctgcttcttcaTtttgacttgtcataatatag	9	18	4	10	0	5	1	3	1	2	0	6	1	6	1	1	0	2	1	1	0	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:178415951T>C	uc002uln.2	-	1	1574	c.1541A>G	c.(1540-1542)AAT>AGT	p.N514S	TTC30B_uc010zfc.1_Missense_Mutation_p.N286S	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	514	Potential.				cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			TGCTTCTTCATTTTGACTTGT	0.378													17	173					0	0	1	0	0		C	178415951	C	C	178415951	3	2	27	1	0	0	0	0	1	0	0	0	16725	1493	52	3	460	3	TTC30B	2	178415951	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1213676	178415951	64783422	1226	23577											
TTC30B	150737	broad.mit.edu	37	chr2	178416839	178416839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctcagggtgctggcggatgCcacgctcaataatctcagcg	8	8	13	12	3	3	0	3	0	1	0	4	1	3	1	1	3	3	3	1	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:178416839C>T	uc002uln.2	-	1	686	c.653G>A	c.(652-654)GGC>GAC	p.G218D	TTC30B_uc010zfc.1_5'UTR	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	218	TPR 4.				cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			CTGGCGGATGCCACGCTCAAT	0.542													5	58					0	0	1	0	0		T	178416839	T	T	178416839	3	4	27	1	0	0	0	0	1	0	0	0	16725	739	26	2	1348	2	TTC30B	2	178416839	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	888	178416839	64782534	1227	23578											
OSBPL6	114880	broad.mit.edu	37	chr2	179201135	179201135	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcctggttacaggactcGgaagagatggacaggtgtgc	10	7	16	8	1	0	1	0	0	0	1	1	5	0	4	1	5	3	2	1	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179201135G>A	uc002ulx.2	+	9	1143	c.765G>A	c.(763-765)TCG>TCA	p.S255S	OSBPL6_uc002ulw.2_Silent_p.S255S|OSBPL6_uc002uly.2_Silent_p.S255S|OSBPL6_uc010zfe.1_Silent_p.S255S|OSBPL6_uc002ulz.2_Silent_p.S255S|OSBPL6_uc002uma.2_Silent_p.S234S	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	255					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			TACAGGACTCGGAAGAGATGG	0.507													18	155					0	0	1	0	0		A	179201135	A	A	179201135	2	1	27	1	0	0	0	0	0	0	0	1	11300	1103	39	1		1	OSBPL6	2	179201135	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	784296	179201135	63998238	1228	23579											
DFNB59	494513	broad.mit.edu	37	chr2	179325710	179325710	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtttttgtccttttagaTagaagagtgatggatgtcat	9	18	10	4	0	2	4	1	1	1	3	3	5	3	5	1	1	0	1	1	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179325710T>C	uc002umi.3	+	7	1124	c.768T>C	c.(766-768)AAT>AAC	p.N256N	DFNB59_uc002umj.3_Silent_p.N256N	NM_001042702	NP_001036167	Q0ZLH3	PJVK_HUMAN	deafness, autosomal recessive 59	256					sensory perception of sound						0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			TCCTTTTAGATAGAAGAGTGA	0.323													11	123					0	0	1	0	0		C	179325710	C	C	179325710	2	2	27	1	0	0	0	0	0	0	0	1	4462	1420	49	3		3	DFNB59	2	179325710	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	124575	179325710	63873663	1229	23580											
FKBP7	51661	broad.mit.edu	37	chr2	179334426	179334426	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccatgtctatttgtttaaAtgtctcaatgctccgtggtc	7	17	8	9	1	2	0	1	0	2	0	6	0	4	0	2	1	1	2	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179334426A>T	uc002umk.2	-	3	589	c.460T>A	c.(460-462)TTT>ATT	p.F154I	FKBP7_uc002umm.2_Missense_Mutation_p.F153I|FKBP7_uc002uml.2_RNA|FKBP7_uc010zff.1_Intron	NM_181342	NP_851939	Q9Y680	FKBP7_HUMAN	FK506 binding protein 7 isoform a precursor	191	EF-hand 1.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			ATTTGTTTAAATGTCTCAATG	0.368													13	132					0	0	1	0	0		T	179334426	T	T	179334426	3	4	27	1	0	0	0	0	1	0	0	0	5927	101	4	5	216	5	FKBP7	2	179334426	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8716	179334426	63864947	1230	23581											
TTN	7273	broad.mit.edu	37	chr2	179393421	179393421	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatcatactgacacttgAcgattccttccttggttttg	9	16	6	10	1	2	2	2	2	0	0	4	3	4	2	2	1	1	1	2	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179393421A>G	uc010zfg.1	-	309	99577	c.99353T>C	c.(99352-99354)GTC>GCC	p.V33118A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V26813A|TTN_uc010zfi.1_Missense_Mutation_p.V26746A|TTN_uc010zfj.1_Missense_Mutation_p.V26621A|TTN_uc002umq.2_Missense_Mutation_p.V135A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34045							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGACACTTGACGATTCCTTC	0.438													3	26					0	0	1	0	0		G	179393421	G	G	179393421	3	3	27	1	0	0	0	0	1	0	0	0	16761	275	10	3	934	3	TTN	2	179393421	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	58995	179393421	63805952	1231	23582											
TTN	7273	broad.mit.edu	37	chr2	179395728	179395728	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcttgtttcccttcactgTtttctaccaccacgctgtaa	6	17	4	14	1	3	0	1	0	2	0	4	0	4	0	3	0	1	4	3	0	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179395728T>C	uc010zfg.1	-	307	98134	c.97910A>G	c.(97909-97911)AAC>AGC	p.N32637S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.N26332S|TTN_uc010zfi.1_Missense_Mutation_p.N26265S|TTN_uc010zfj.1_Missense_Mutation_p.N26140S|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33564							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCCTTCACTGTTTTCTACCAC	0.483													18	319					0	0	1	0	0		C	179395728	C	C	179395728	3	2	27	1	0	0	0	0	1	0	0	0	16761	1725	60	3	2385	3	TTN	2	179395728	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2307	179395728	63803645	1232	23583											
TTN	7273	broad.mit.edu	37	chr2	179402473	179402473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttactgtaagagtgtgtgtgCgtccatctgaagacattttg	9	15	11	6	1	1	3	0	1	1	2	2	3	2	3	1	0	2	1	1	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179402473C>T	uc010zfg.1	-	304	91981	c.91757G>A	c.(91756-91758)CGC>CAC	p.R30586H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R24281H|TTN_uc010zfi.1_Missense_Mutation_p.R24214H|TTN_uc010zfj.1_Missense_Mutation_p.R24089H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31513							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGTGTGTGTGCGTCCATCTGA	0.423													6	69					0	0	1	0	0		T	179402473	T	T	179402473	3	4	27	1	0	0	0	0	1	0	0	0	16761	768	27	1	8550	1	TTN	2	179402473	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6745	179402473	63796900	1233	23584											
TTN	7273	broad.mit.edu	37	chr2	179404321	179404321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcctaagatgtcagcaccaCcatcatcagcaggaggtctc	12	7	9	13	0	4	1	3	0	1	1	5	2	4	2	3	2	3	2	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179404321C>T	uc010zfg.1	-	301	90991	c.90767G>A	c.(90766-90768)GGT>GAT	p.G30256D	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G23951D|TTN_uc010zfi.1_Missense_Mutation_p.G23884D|TTN_uc010zfj.1_Missense_Mutation_p.G23759D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31183							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTCAGCACCACCATCATCAGC	0.527													5	163					0	0	1	0	0		T	179404321	T	T	179404321	3	4	27	1	0	0	0	0	1	0	0	0	16761	507	18	4	9552	4	TTN	2	179404321	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1848	179404321	63795052	1234	23585											
TTN	7273	broad.mit.edu	37	chr2	179404632	179404632	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatggtaagtctgatgacGccaccttgccttacaaagat	11	11	10	9	1	1	3	0	2	1	1	1	3	1	3	3	2	2	2	3	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179404632G>A	uc010zfg.1	-	301	90680	c.90456C>T	c.(90454-90456)GGC>GGT	p.G30152G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G23847G|TTN_uc010zfi.1_Silent_p.G23780G|TTN_uc010zfj.1_Silent_p.G23655G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31079							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTCTGATGACGCCACCTTGCC	0.393													6	123					0	0	1	0	0		A	179404632	A	A	179404632	2	1	27	1	0	0	0	0	0	0	0	1	16761	1074	38	1		1	TTN	2	179404632	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	311	179404632	63794741	1235	23586											
TTN	7273	broad.mit.edu	37	chr2	179412969	179412969	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccaagctaagactgcggaGgatttgctagtatcaacaac	14	8	10	9	1	1	1	1	0	0	1	1	3	1	3	1	2	6	3	1	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179412969G>T	uc010zfg.1	-	288	85904	c.85680C>A	c.(85678-85680)TCC>TCA	p.S28560S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.S22255S|TTN_uc010zfi.1_Silent_p.S22188S|TTN_uc010zfj.1_Silent_p.S22063S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29487							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGACTGCGGAGGATTTGCTAG	0.493													18	175					3.32936e-07	3.62913e-07	1	1	0		T	179412969	T	T	179412969	2	4	27	1	0	0	0	0	0	0	0	1	16761	987	35	5		5	TTN	2	179412969	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8337	179412969	63786404	1236	23587											
TTN	7273	broad.mit.edu	37	chr2	179414486	179414486	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcccgtttttcaatgatgtAgtgggttatgggagcacaac	9	14	11	7	1	1	1	1	1	0	0	2	2	2	2	1	2	2	4	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179414486A>G	uc010zfg.1	-	287	84483	c.84259T>C	c.(84259-84261)TAC>CAC	p.Y28087H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Y21782H|TTN_uc010zfi.1_Missense_Mutation_p.Y21715H|TTN_uc010zfj.1_Missense_Mutation_p.Y21590H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29014							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCAATGATGTAGTGGGTTATG	0.443													24	71					0	0	1	0	0		G	179414486	G	G	179414486	3	3	27	1	0	0	0	0	1	0	0	0	16761	420	15	3	16116	3	TTN	2	179414486	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1517	179414486	63784887	1237	23588											
TTN	7273	broad.mit.edu	37	chr2	179414849	179414849	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtacgtcggttatttccatAttcatcctcttttcgatttc	7	19	5	10	3	2	0	1	0	1	0	7	1	4	0	2	1	1	2	2	1	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179414849A>G	uc010zfg.1	-	286	84236	c.84012T>C	c.(84010-84012)AAT>AAC	p.N28004N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.N21699N|TTN_uc010zfi.1_Silent_p.N21632N|TTN_uc010zfj.1_Silent_p.N21507N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28931							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTATTTCCATATTCATCCTCT	0.448													23	191					0	0	1	0	0		G	179414849	G	G	179414849	2	3	27	1	0	0	0	0	0	0	0	1	16761	446	16	3		3	TTN	2	179414849	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	363	179414849	63784524	1238	23589											
TTN	7273	broad.mit.edu	37	chr2	179414978	179414978	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaccatcaaagtattcaggGccaaactctactattggtgg	13	10	9	9	0	3	1	2	0	1	1	3	1	3	1	2	3	2	1	2	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179414978G>A	uc010zfg.1	-	286	84107	c.83883C>T	c.(83881-83883)GGC>GGT	p.G27961G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G21656G|TTN_uc010zfi.1_Silent_p.G21589G|TTN_uc010zfj.1_Silent_p.G21464G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28888							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGTATTCAGGGCCAAACTCTA	0.353													13	110					0	0	1	0	0		A	179414978	A	A	179414978	2	1	27	1	0	0	0	0	0	0	0	1	16761	1190	42	2		2	TTN	2	179414978	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	129	179414978	63784395	1239	23590											
TTN	7273	broad.mit.edu	37	chr2	179415883	179415883	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttccttgccgtttctcaaTgctatagcccacaatcttac	9	15	4	13	1	2	0	1	0	2	0	4	0	3	0	3	0	4	2	3	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179415883T>C	uc010zfg.1	-	285	83895	c.83671A>G	c.(83671-83673)ATT>GTT	p.I27891V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I21586V|TTN_uc010zfi.1_Missense_Mutation_p.I21519V|TTN_uc010zfj.1_Missense_Mutation_p.I21394V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28818							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CGTTTCTCAATGCTATAGCCC	0.488													10	49					0	0	1	0	0		C	179415883	C	C	179415883	3	2	27	1	0	0	0	0	1	0	0	0	16761	1464	51	3	16712	3	TTN	2	179415883	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	905	179415883	63783490	1240	23591											
TTN	7273	broad.mit.edu	37	chr2	179417047	179417047	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccatgctccttcttggCattcttaatactcaaagtaa	10	15	4	12	0	3	0	1	0	2	0	6	0	6	0	3	1	2	3	3	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179417047C>T	uc010zfg.1	-	284	83100	c.82876G>A	c.(82876-82878)GCC>ACC	p.A27626T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A21321T|TTN_uc010zfi.1_Missense_Mutation_p.A21254T|TTN_uc010zfj.1_Missense_Mutation_p.A21129T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28553							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCCTTCTTGGCATTCTTAATA	0.398													7	96					0	0	1	0	0		T	179417047	T	T	179417047	3	4	27	1	0	0	0	0	1	0	0	0	16761	710	25	2	17511	2	TTN	2	179417047	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1164	179417047	63782326	1241	23592											
TTN	7273	broad.mit.edu	37	chr2	179418786	179418786	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtcacggatagtctctttTagtactttaaaccatcctag	10	15	7	9	1	2	0	1	0	1	0	4	1	3	1	2	1	2	1	2	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179418786T>C	uc010zfg.1	-	282	81572	c.81348A>G	c.(81346-81348)CTA>CTG	p.L27116L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.L20811L|TTN_uc010zfi.1_Silent_p.L20744L|TTN_uc010zfj.1_Silent_p.L20619L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28043							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAGTCTCTTTTAGTACTTTAA	0.433													14	192					0	0	1	0	0		C	179418786	C	C	179418786	2	2	27	1	0	0	0	0	0	0	0	1	16761	1741	61	3		3	TTN	2	179418786	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1739	179418786	63780587	1242	23593											
TTN	7273	broad.mit.edu	37	chr2	179419597	179419597	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattcagcacctaccaaggAtctgtactctgatggtggct	9	12	10	10	0	3	1	1	1	2	0	3	2	3	2	2	3	3	4	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179419597A>T	uc010zfg.1	-	280	81109	c.80885T>A	c.(80884-80886)ATC>AAC	p.I26962N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I20657N|TTN_uc010zfi.1_Missense_Mutation_p.I20590N|TTN_uc010zfj.1_Missense_Mutation_p.I20465N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27889							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCTACCAAGGATCTGTACTCT	0.398													5	64					0	0	1	0	0		T	179419597	T	T	179419597	3	4	27	1	0	0	0	0	1	0	0	0	16761	333	12	5	19518	5	TTN	2	179419597	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	811	179419597	63779776	1243	23594											
TTN	7273	broad.mit.edu	37	chr2	179425685	179425685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatttctataccatccttggCccaggaaattactggcagag	12	11	8	10	0	1	1	0	0	1	1	2	2	2	2	3	3	2	1	3	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179425685C>T	uc010zfg.1	-	275	77694	c.77470G>A	c.(77470-77472)GCC>ACC	p.A25824T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A19519T|TTN_uc010zfi.1_Missense_Mutation_p.A19452T|TTN_uc010zfj.1_Missense_Mutation_p.A19327T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26751							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCATCCTTGGCCCAGGAAATT	0.413													10	108					0	0	1	0	0		T	179425685	T	T	179425685	3	4	27	1	0	0	0	0	1	0	0	0	16761	739	26	2	22953	2	TTN	2	179425685	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6088	179425685	63773688	1244	23595											
TTN	7273	broad.mit.edu	37	chr2	179428522	179428522	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattccatatttattcacaGccatgacacggaaaatgtac	15	11	5	10	1	1	1	1	1	0	0	2	2	2	2	2	1	2	1	2	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179428522G>T	uc010zfg.1	-	275	74857	c.74633C>A	c.(74632-74634)GCT>GAT	p.A24878D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A18573D|TTN_uc010zfi.1_Missense_Mutation_p.A18506D|TTN_uc010zfj.1_Missense_Mutation_p.A18381D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25805							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTATTCACAGCCATGACACG	0.468													6	119					0.00116845	0.00121513	1	1	0		T	179428522	T	T	179428522	3	4	27	1	0	0	0	0	1	0	0	0	16761	971	34	5	25790	5	TTN	2	179428522	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2837	179428522	63770851	1245	23596											
TTN	7273	broad.mit.edu	37	chr2	179429031	179429031	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttatattttggatccagAgaggcatttggtgcatcaat	10	16	9	6	0	2	1	1	0	1	1	3	3	3	2	1	3	1	2	1	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179429031A>C	uc010zfg.1	-	275	74348	c.74124T>G	c.(74122-74124)TCT>TCG	p.S24708S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.S18403S|TTN_uc010zfi.1_Silent_p.S18336S|TTN_uc010zfj.1_Silent_p.S18211S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25635							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGGATCCAGAGAGGCATTTG	0.408													15	132					0	0	1	0	0		C	179429031	C	C	179429031	2	2	27	1	0	0	0	0	0	0	0	1	16761	291	11	5		5	TTN	2	179429031	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	509	179429031	63770342	1246	23597											
TTN	7273	broad.mit.edu	37	chr2	179432851	179432851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtatgaccatggagtctttgGaaatggctgtggcaaatggt	10	12	14	5	0	1	1	0	1	1	0	1	3	1	3	1	5	0	3	1	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179432851G>A	uc010zfg.1	-	275	70528	c.70304C>T	c.(70303-70305)TCC>TTC	p.S23435F	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S17130F|TTN_uc010zfi.1_Missense_Mutation_p.S17063F|TTN_uc010zfj.1_Missense_Mutation_p.S16938F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24362							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGAGTCTTTGGAAATGGCTGT	0.453													7	132					0	0	1	0	0		A	179432851	A	A	179432851	3	1	27	1	0	0	0	0	1	0	0	0	16761	1174	41	4	30119	4	TTN	2	179432851	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3820	179432851	63766522	1247	23598											
TTN	7273	broad.mit.edu	37	chr2	179437140	179437140	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accttccaggaagtcttgtgGcagtttgttgcaacagttga	9	13	11	8	0	1	1	0	1	1	0	2	2	2	2	2	2	2	5	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179437140G>A	uc010zfg.1	-	275	66239	c.66015C>T	c.(66013-66015)TGC>TGT	p.C22005C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.C15700C|TTN_uc010zfi.1_Silent_p.C15633C|TTN_uc010zfj.1_Silent_p.C15508C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22932							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAGTCTTGTGGCAGTTTGTTG	0.438													8	76					0	0	1	0	0		A	179437140	A	A	179437140	2	1	27	1	0	0	0	0	0	0	0	1	16761	1195	42	2		2	TTN	2	179437140	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4289	179437140	63762233	1248	23599											
TTN	7273	broad.mit.edu	37	chr2	179437289	179437289	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttttaccttcagatcctGtggggggcctggtgtatcga	5	14	12	10	1	2	1	1	0	1	1	4	2	3	1	3	4	1	1	3	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179437289G>A	uc010zfg.1	-	275	66090	c.65866C>T	c.(65866-65868)CAG>TAG	p.Q21956*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.Q15651*|TTN_uc010zfi.1_Nonsense_Mutation_p.Q15584*|TTN_uc010zfj.1_Nonsense_Mutation_p.Q15459*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22883							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCAGATCCTGTGGGGGGCCT	0.423													9	98					0	0	1	0	0		A	179437289	A	A	179437289	4	1	27	1	0	0	0	0	0	1	0	0	16761	1386	48	4	34557	4	TTN	2	179437289	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	149	179437289	63762084	1249	23600											
TTN	7273	broad.mit.edu	37	chr2	179442036	179442036	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgcatcttttctagtggcaTacttgatagtaagcatggaa	11	13	9	8	1	2	1	0	1	2	0	2	2	2	2	1	2	2	4	1	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179442036T>C	uc010zfg.1	-	273	61546	c.61322A>G	c.(61321-61323)TAT>TGT	p.Y20441C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Y14136C|TTN_uc010zfi.1_Missense_Mutation_p.Y14069C|TTN_uc010zfj.1_Missense_Mutation_p.Y13944C|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21368							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTAGTGGCATACTTGATAGT	0.428													9	66					0	0	1	0	0		C	179442036	C	C	179442036	3	2	27	1	0	0	0	0	1	0	0	0	16761	1406	49	3	39109	3	TTN	2	179442036	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4747	179442036	63757337	1250	23601											
TTN	7273	broad.mit.edu	37	chr2	179447037	179447037	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcctaccatatgggtttttgGcaattgctggttcagtgaag	8	15	11	7	0	1	1	1	1	0	0	2	1	2	1	2	3	2	4	2	3	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179447037G>T	uc010zfg.1	-	263	58666	c.58442C>A	c.(58441-58443)GCC>GAC	p.A19481D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A13176D|TTN_uc010zfi.1_Missense_Mutation_p.A13109D|TTN_uc010zfj.1_Missense_Mutation_p.A12984D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20408							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGGTTTTTGGCAATTGCTGG	0.368													5	55					0.014758	0.0150623	1	1	0		T	179447037	T	T	179447037	3	4	27	1	0	0	0	0	1	0	0	0	16761	1203	42	5	42029	5	TTN	2	179447037	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5001	179447037	63752336	1251	23602											
TTN	7273	broad.mit.edu	37	chr2	179456053	179456053	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttaatggtaagtactgaTgagaagttgtctgtttcaac	11	16	9	5	0	3	2	1	2	2	1	3	3	3	2	0	1	2	4	0	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179456053T>C	uc010zfg.1	-	253	52919	c.52695A>G	c.(52693-52695)TCA>TCG	p.S17565S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.S11260S|TTN_uc010zfi.1_Silent_p.S11193S|TTN_uc010zfj.1_Silent_p.S11068S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	18492							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAAGTACTGATGAGAAGTTGT	0.428													43	356					0	0	1	0	0		C	179456053	C	C	179456053	2	2	27	1	0	0	0	0	0	0	0	1	16761	1451	51	3		3	TTN	2	179456053	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9016	179456053	63743320	1252	23603											
TTN	7273	broad.mit.edu	37	chr2	179456447	179456447	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtccagtaaccacacactcTaagtttgtcacagtcttaaa	14	11	5	11	0	3	0	1	0	2	0	4	0	4	0	2	0	1	2	2	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179456447T>C	uc010zfg.1	-	252	52619	c.52395A>G	c.(52393-52395)TTA>TTG	p.L17465L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.L11160L|TTN_uc010zfi.1_Silent_p.L11093L|TTN_uc010zfj.1_Silent_p.L10968L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	18392							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCACACACTCTAAGTTTGTCA	0.433													9	187					0	0	1	0	0		C	179456447	C	C	179456447	2	2	27	1	0	0	0	0	0	0	0	1	16761	1519	53	3		3	TTN	2	179456447	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	394	179456447	63742926	1253	23604											
TTN	7273	broad.mit.edu	37	chr2	179457902	179457902	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatccattaatactataccaAttggatctttagcaaagact	16	13	4	8	0	1	1	0	0	1	1	2	2	2	2	2	1	3	1	2	1	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179457902A>G	uc010zfg.1	-	248	51553	c.51329T>C	c.(51328-51330)ATT>ACT	p.I17110T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I10805T|TTN_uc010zfi.1_Missense_Mutation_p.I10738T|TTN_uc010zfj.1_Missense_Mutation_p.I10613T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	18037							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TACTATACCAATTGGATCTTT	0.328													12	109					0	0	1	0	0		G	179457902	G	G	179457902	3	3	27	1	0	0	0	0	1	0	0	0	16761	101	4	3	49202	3	TTN	2	179457902	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1455	179457902	63741471	1254	23605											
TTN	7273	broad.mit.edu	37	chr2	179462392	179462392	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctaatggctgtggtctcAatggtggcttcttgaggtaa	8	13	14	6	0	2	1	1	1	2	0	3	2	2	1	0	5	1	4	0	5	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179462392A>G	uc010zfg.1	-	243	49937	c.49713T>C	c.(49711-49713)ATT>ATC	p.I16571I	uc002umo.2_RNA|uc002ump.1_RNA|TTN_uc010zfh.1_Silent_p.I10266I|TTN_uc010zfi.1_Silent_p.I10199I|TTN_uc010zfj.1_Silent_p.I10074I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17498							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGTGGTCTCAATGGTGGCTT	0.488													12	92					0	0	1	0	0		G	179462392	G	G	179462392	2	3	27	1	0	0	0	0	0	0	0	1	16761	126	5	3		3	TTN	2	179462392	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4490	179462392	63736981	1255	23606											
TTN	7273	broad.mit.edu	37	chr2	179463262	179463262	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttcttttccttcttcttTatattcaacgatgtatccag	7	21	3	10	1	5	0	1	0	4	0	7	1	7	0	2	0	1	1	2	0	4	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179463262T>C	uc010zfg.1	-	241	49602	c.49378A>G	c.(49378-49380)AAA>GAA	p.K16460E	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K10155E|TTN_uc010zfi.1_Missense_Mutation_p.K10088E|TTN_uc010zfj.1_Missense_Mutation_p.K9963E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17387							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCTTCTTCTTTATATTCAACG	0.378													13	61					0	0	1	0	0		C	179463262	C	C	179463262	3	2	27	1	0	0	0	0	1	0	0	0	16761	1763	61	3	50895	3	TTN	2	179463262	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	870	179463262	63736111	1256	23607											
TTN	7273	broad.mit.edu	37	chr2	179463329	179463329	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggagaccactccagatcTgcagatgatttagtccaatc	11	9	11	10	0	1	4	0	1	1	3	4	5	3	4	3	2	1	1	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179463329T>C	uc010zfg.1	-	241	49535	c.49311A>G	c.(49309-49311)GCA>GCG	p.A16437A	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.A10132A|TTN_uc010zfi.1_Silent_p.A10065A|TTN_uc010zfj.1_Silent_p.A9940A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17364							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACTCCAGATCTGCAGATGATT	0.433													5	50					0	0	1	0	0		C	179463329	C	C	179463329	2	2	27	1	0	0	0	0	0	0	0	1	16761	1567	55	3		3	TTN	2	179463329	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	67	179463329	63736044	1257	23608											
TTN	7273	broad.mit.edu	37	chr2	179464134	179464134	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttgatctgctgaaacagAttcaaattttatgggtccca	12	14	7	8	0	2	3	1	2	1	1	3	3	3	3	1	1	2	1	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179464134A>G	uc010zfg.1	-	239	48906	c.48682T>C	c.(48682-48684)TCT>CCT	p.S16228P	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S9923P|TTN_uc010zfi.1_Missense_Mutation_p.S9856P|TTN_uc010zfj.1_Missense_Mutation_p.S9731P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17155							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCTGAAACAGATTCAAATTTT	0.373													13	63					0	0	1	0	0		G	179464134	G	G	179464134	3	3	27	1	0	0	0	0	1	0	0	0	16761	333	12	3	51599	3	TTN	2	179464134	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	805	179464134	63735239	1258	23609											
TTN	7273	broad.mit.edu	37	chr2	179475115	179475115	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctttgcatggtccaggtagGcctattacaaaaatggataa	13	12	9	7	0	1	0	0	0	1	0	2	1	2	1	2	4	2	2	2	4	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179475115G>A	uc010zfg.1	-	220	43658	c.43434C>T	c.(43432-43434)GGC>GGT	p.G14478G	uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G8173G|TTN_uc010zfi.1_Silent_p.G8106G|TTN_uc010zfj.1_Silent_p.G7981G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15405							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTCCAGGTAGGCCTATTACAA	0.308													4	83					0	0	1	0	0		A	179475115	A	A	179475115	2	1	27	1	0	0	0	0	0	0	0	1	16761	1217	42	2		2	TTN	2	179475115	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10981	179475115	63724258	1259	23610											
TTN	7273	broad.mit.edu	37	chr2	179476574	179476574	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaacctgaaactggaccTctgttccttcgatgacatca	10	10	7	14	2	2	2	1	2	1	0	4	5	3	3	4	1	2	1	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179476574T>G	uc010zfg.1	-	217	42982	c.42758A>C	c.(42757-42759)GAG>GCG	p.E14253A	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E7948A|TTN_uc010zfi.1_Missense_Mutation_p.E7881A|TTN_uc010zfj.1_Missense_Mutation_p.E7756A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15180							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAACTGGACCTCTGTTCCTTC	0.463													4	131					0	0	1	0	0		G	179476574	G	G	179476574	3	3	27	1	0	0	0	0	1	0	0	0	16761	1551	54	5	57611	5	TTN	2	179476574	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1459	179476574	63722799	1260	23611											
TTN	7273	broad.mit.edu	37	chr2	179484423	179484423	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accctggtcacggggcttaaTatcacaaatctgtagtcgat	11	11	9	10	2	3	0	2	0	1	0	4	1	3	0	1	3	0	2	1	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179484423T>A	uc010zfg.1	-	199	39141	c.38917A>T	c.(38917-38919)ATT>TTT	p.I12973F	TTN_uc010zfh.1_Missense_Mutation_p.I6668F|TTN_uc010zfi.1_Missense_Mutation_p.I6601F|TTN_uc010zfj.1_Missense_Mutation_p.I6476F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13900							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CGGGGCTTAATATCACAAATC	0.413													5	192					0	0	1	0	0		A	179484423	A	A	179484423	3	1	27	1	0	0	0	0	1	0	0	0	16761	1406	49	5	61524	5	TTN	2	179484423	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7849	179484423	63714950	1261	23612											
TTN	7273	broad.mit.edu	37	chr2	179495630	179495630	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtctcagtctccatcacCtccacactgtgcaggggtcg	6	10	10	15	1	3	0	2	0	2	0	7	0	4	0	3	2	1	2	3	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179495630C>A	uc010zfg.1	-	187	36575	c.36351G>T	c.(36349-36351)GAG>GAT	p.E12117D	TTN_uc010zfh.1_Missense_Mutation_p.E5812D|TTN_uc010zfi.1_Missense_Mutation_p.E5745D|TTN_uc010zfj.1_Missense_Mutation_p.E5620D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13044							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTCCATCACCTCCACACTGT	0.502													7	89					8.12818e-05	8.61523e-05	1	1	0		A	179495630	A	A	179495630	3	1	27	1	0	0	0	0	1	0	0	0	16761	680	24	5	64138	5	TTN	2	179495630	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11207	179495630	63703743	1262	23613											
TTN	7273	broad.mit.edu	37	chr2	179495656	179495656	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgtgcaggggtcgcaccaGtttaatttcccgatctagaa	10	11	10	10	2	1	1	0	0	1	1	3	2	2	1	2	2	1	3	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179495656G>A	uc010zfg.1	-	187	36549	c.36325C>T	c.(36325-36327)CTG>TTG	p.L12109L	TTN_uc010zfh.1_Silent_p.L5804L|TTN_uc010zfi.1_Silent_p.L5737L|TTN_uc010zfj.1_Silent_p.L5612L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13036							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGTCGCACCAGTTTAATTTCC	0.473													24	61					0	0	1	0	0		A	179495656	A	A	179495656	2	1	27	1	0	0	0	0	0	0	0	1	16761	1020	36	4		4	TTN	2	179495656	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26	179495656	63703717	1263	23614											
TTN	7273	broad.mit.edu	37	chr2	179517022	179517022	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacttcaggctttttaggAggaggcactggcactttctt	7	13	12	9	0	2	0	1	0	1	0	2	2	2	2	0	6	0	4	0	6	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179517022A>G	uc010zfg.1	-	157	32102	c.31878T>C	c.(31876-31878)CCT>CCC	p.P10626P	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc010fre.1_Intron|TTN_uc002umw.1_5'Flank|TTN_uc002umx.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11553							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCTTTTTAGGAGGAGGCACTG	0.393													23	310					0	0	1	0	0		G	179517022	G	G	179517022	2	3	27	1	0	0	0	0	0	0	0	1	16761	291	11	3		3	TTN	2	179517022	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21366	179517022	63682351	1264	23615											
TTN	7273	broad.mit.edu	37	chr2	179542934	179542934	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttcttgggcacctctggCactttaaagatattatttat	10	16	7	8	0	2	1	0	0	2	1	2	1	2	1	1	2	1	3	1	2	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179542934C>T	uc010zfg.1	-	142	30404	c.30180G>A	c.(30178-30180)GTG>GTA	p.V10060V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.V6721V|TTN_uc010fre.1_Silent_p.V717V|TTN_uc002una.1_RNA|TTN_uc010frf.1_RNA	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10987							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCACCTCTGGCACTTTAAAGA	0.338													8	112					0	0	1	0	0		T	179542934	T	T	179542934	2	4	27	1	0	0	0	0	0	0	0	1	16761	724	25	2		2	TTN	2	179542934	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25912	179542934	63656439	1265	23616											
TTN	7273	broad.mit.edu	37	chr2	179547450	179547450	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtattcttcatgctcttcaTatcgttcatactcccgctcc	6	17	4	14	2	5	0	3	0	2	0	8	0	7	0	2	0	2	4	2	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179547450T>G	uc010zfg.1	-	132	29560	c.29336A>C	c.(29335-29337)TAT>TCT	p.Y9779S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.Y6440S|TTN_uc010fre.1_Missense_Mutation_p.Y626S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10706							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGCTCTTCATATCGTTCATA	0.318													16	208					0	0	1	0	0		G	179547450	G	G	179547450	3	3	27	1	0	0	0	0	1	0	0	0	16761	1406	49	5	71373	5	TTN	2	179547450	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4516	179547450	63651923	1266	23617											
TTN	7273	broad.mit.edu	37	chr2	179554557	179554557	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctttagctgggggagctTcctttttctttgcaacagga	7	15	10	9	0	1	0	0	0	1	0	2	2	2	2	2	3	5	3	2	3	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179554557T>C	uc010zfg.1	-	119	28321	c.28097A>G	c.(28096-28098)GAA>GGA	p.E9366G	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E6027G|TTN_uc010fre.1_Missense_Mutation_p.E477G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10293							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGGGGAGCTTCCTTTTTCTT	0.388													12	184					0	0	1	0	0		C	179554557	C	C	179554557	3	2	27	1	0	0	0	0	1	0	0	0	16761	1783	62	3	72664	3	TTN	2	179554557	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7107	179554557	63644816	1267	23618											
TTN	7273	broad.mit.edu	37	chr2	179571293	179571293	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgttaaatgccacgcatcGgtataacccagaatcagttt	12	12	7	10	3	1	1	1	0	0	1	3	1	1	1	2	1	2	4	2	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179571293G>A	uc010zfg.1	-	99	25800	c.25576C>T	c.(25576-25578)CGA>TGA	p.R8526*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.R5187*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9453							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCCACGCATCGGTATAACCCA	0.418													41	138					0	0	1	0	0		A	179571293	A	A	179571293	4	1	27	1	0	0	0	0	0	1	0	0	16761	1124	39	1	75265	1	TTN	2	179571293	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16736	179571293	63628080	1268	23619											
TTN	7273	broad.mit.edu	37	chr2	179577959	179577959	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctggtatttccttccacTactgatctcatttccttcat	6	18	5	12	0	3	1	2	1	2	0	7	1	6	1	3	2	1	1	3	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179577959T>C	uc010zfg.1	-	90	23394	c.23170A>G	c.(23170-23172)AGT>GGT	p.S7724G	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S4385G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8651							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCCTTCCACTACTGATCTCA	0.443													3	35					0	0	1	0	0		C	179577959	C	C	179577959	3	2	27	1	0	0	0	0	1	0	0	0	16761	1522	53	3	77707	3	TTN	2	179577959	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6666	179577959	63621414	1269	23620											
TTN	7273	broad.mit.edu	37	chr2	179578862	179578862	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacaggtgtctcccgtggtAacttttatggattctggctt	6	16	11	8	1	2	0	0	0	2	0	3	1	2	1	1	4	2	3	1	4	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179578862A>T	uc010zfg.1	-	89	23015	c.22791T>A	c.(22789-22791)GTT>GTA	p.V7597V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.V4258V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8524							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTCCCGTGGTAACTTTTATGG	0.378													7	59					0	0	1	0	0		T	179578862	T	T	179578862	2	4	27	1	0	0	0	0	0	0	0	1	16761	349	13	5		5	TTN	2	179578862	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	903	179578862	63620511	1270	23621											
TTN	7273	broad.mit.edu	37	chr2	179578874	179578874	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccgtggtaacttttatggaTtctggcttttctacaattgt	7	18	8	8	1	2	0	0	0	2	0	2	1	2	1	1	3	2	2	1	3	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179578874T>C	uc010zfg.1	-	89	23003	c.22779A>G	c.(22777-22779)GAA>GAG	p.E7593E	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.E4254E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8520							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTTTATGGATTCTGGCTTTT	0.383													20	51					0	0	1	0	0		C	179578874	C	C	179578874	2	2	27	1	0	0	0	0	0	0	0	1	16761	1490	52	3		3	TTN	2	179578874	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12	179578874	63620499	1271	23622											
TTN	7273	broad.mit.edu	37	chr2	179589031	179589031	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgcttttcccaacattaTtttgaacctggaaagtgtat	11	15	7	8	0	0	1	0	1	0	0	1	2	1	2	2	1	4	3	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179589031T>G	uc010zfg.1	-	69	17563	c.17339A>C	c.(17338-17340)AAT>ACT	p.N5780T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.N2441T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6707							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCCAACATTATTTTGAACCTG	0.388													9	56					0	0	1	0	0		G	179589031	G	G	179589031	3	3	27	1	0	0	0	0	1	0	0	0	16761	1493	52	5	83622	5	TTN	2	179589031	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10157	179589031	63610342	1272	23623											
TTN	7273	broad.mit.edu	37	chr2	179592343	179592343	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacatcgtagtacaagagtcGctaccaacatcattggtaac	15	9	7	10	2	1	1	1	0	0	1	3	1	1	1	1	1	5	4	1	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179592343G>A	uc010zfg.1	-	65	16454	c.16230C>T	c.(16228-16230)AGC>AGT	p.S5410S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.S2071S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6337							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TACAAGAGTCGCTACCAACAT	0.413													15	222					0	0	1	0	0		A	179592343	A	A	179592343	2	1	27	1	0	0	0	0	0	0	0	1	16761	1078	38	1		1	TTN	2	179592343	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3312	179592343	63607030	1273	23624											
TTN	7273	broad.mit.edu	37	chr2	179594254	179594254	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacgtcactatattttactAcctccacaggcttcagctct	9	13	4	15	1	3	0	2	0	1	0	4	0	4	0	3	1	3	2	3	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179594254A>G	uc010zfg.1	-	61	15121	c.14897T>C	c.(14896-14898)GTA>GCA	p.V4966A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.V1627A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5893							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATATTTTACTACCTCCACAGG	0.458													18	89					0	0	1	0	0		G	179594254	G	G	179594254	3	3	27	1	0	0	0	0	1	0	0	0	16761	391	14	3	86096	3	TTN	2	179594254	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1911	179594254	63605119	1274	23625											
TTN	7273	broad.mit.edu	37	chr2	179594596	179594596	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attttaggagtgcctgttatTtggcattcaaatgttgttga	9	18	10	4	0	1	1	1	1	0	0	1	2	1	2	1	2	1	4	1	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179594596T>C	uc010zfg.1	-	60	14876	c.14652A>G	c.(14650-14652)CAA>CAG	p.Q4884Q	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.Q1545Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5811							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGCCTGTTATTTGGCATTCAA	0.403													3	56					0	0	1	0	0		C	179594596	C	C	179594596	2	2	27	1	0	0	0	0	0	0	0	1	16761	1838	64	3		3	TTN	2	179594596	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	342	179594596	63604777	1275	23626											
TTN	7273	broad.mit.edu	37	chr2	179595492	179595492	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccattttcttcagctttTtggtgaatgaaggaggtatg	8	17	11	5	0	2	2	1	2	1	0	3	3	3	3	1	3	1	2	1	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179595492T>C	uc010zfg.1	-	58	14260	c.14036A>G	c.(14035-14037)AAA>AGA	p.K4679R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K1340R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5606							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTCAGCTTTTTGGTGAATGA	0.318													6	93					0	0	1	0	0		C	179595492	C	C	179595492	3	2	27	1	0	0	0	0	1	0	0	0	16761	1841	64	3	86969	3	TTN	2	179595492	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	896	179595492	63603881	1276	23627											
TTN	7273	broad.mit.edu	37	chr2	179597786	179597786	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgcagtccagtctgcaggTaccattaacaacactatcca	12	11	6	12	0	1	0	0	0	1	0	3	0	3	0	3	1	5	3	3	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179597786T>C	uc010zfg.1	-	52	12609	c.12385A>G	c.(12385-12387)ACC>GCC	p.T4129A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T790A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5056							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGTCTGCAGGTACCATTAACA	0.463													7	38					0	0	1	0	0		C	179597786	C	C	179597786	3	2	27	1	0	0	0	0	1	0	0	0	16761	1638	57	3	88644	3	TTN	2	179597786	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2294	179597786	63601587	1277	23628											
TTN	7273	broad.mit.edu	37	chr2	179600589	179600589	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacaagaataaactcctcTatcttgaatggtaaggtttg	13	14	7	7	0	2	2	0	1	2	1	3	2	3	2	1	2	2	2	1	2	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179600589T>C	uc010zfg.1	-	47	11076	c.10852A>G	c.(10852-10854)AGA>GGA	p.R3618G	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.R279G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4545							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAAACTCCTCTATCTTGAATG	0.403													9	82					0	0	1	0	0		C	179600589	C	C	179600589	3	2	27	1	0	0	0	0	1	0	0	0	16761	1530	53	3	90197	3	TTN	2	179600589	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2803	179600589	63598784	1278	23629											
TTN	7273	broad.mit.edu	37	chr2	179604327	179604327	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgtggcatccaaatattTaaccctactttgcacgttaa	12	13	7	9	1	0	0	0	0	0	0	1	0	1	0	2	2	3	3	2	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179604327T>C	uc010zfh.1	-	46	13344	c.13120A>G	c.(13120-13122)AAA>GAA	p.K4374E	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.K4307E|TTN_uc010zfj.1_Missense_Mutation_p.K4182E|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCCAAATATTTAACCCTACTT	0.403													4	94					0	0	1	0	0		C	179604327	C	C	179604327	3	2	27	1	0	0	0	0	1	0	0	0	16761	1763	61	3	91156	3	TTN	2	179604327	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3738	179604327	63595046	1279	23630											
TTN	7273	broad.mit.edu	37	chr2	179610654	179610654	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttaagaccaattcttcCattaaactgcttaaagtcac	13	14	3	11	0	3	1	1	0	2	1	4	1	4	1	2	0	2	1	2	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179610654C>A	uc002unb.2	-	46	16697	c.16473G>T	c.(16471-16473)ATG>ATT	p.M5491I	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCAATTCTTCCATTAAACTGC	0.408													6	103					3.59834e-05	3.83694e-05	1	1	0		A	179610654	A	A	179610654	3	1	27	1	0	0	0	0	1	0	0	0	16761	594	21	5	93824	5	TTN	2	179610654	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6327	179610654	63588719	1280	23631											
TTN	7273	broad.mit.edu	37	chr2	179616245	179616245	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaacctttatcctatcttCtcccctttcaactaaagcct	9	15	2	15	0	4	0	2	0	2	0	6	0	5	0	5	0	3	0	5	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179616245C>A	uc002unb.2	-	46	11106	c.10882G>T	c.(10882-10884)GAA>TAA	p.E3628*	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATCCTATCTTCTCCCCTTTCA	0.368													11	171					0.000673444	0.000703801	1	1	0		A	179616245	A	A	179616245	4	1	27	1	0	0	0	0	0	1	0	0	16761	922	32	5	99415	5	TTN	2	179616245	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5591	179616245	63583128	1281	23632											
TTN	7273	broad.mit.edu	37	chr2	179621295	179621295	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaatttgtgaaagggaTgcagtatggcacaactgtgt	11	12	12	6	0	1	1	0	1	1	0	1	2	1	2	0	2	3	4	0	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179621295T>C	uc010zfh.1	-	44	10619	c.10395A>G	c.(10393-10395)GCA>GCG	p.A3465A	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTGAAAGGGATGCAGTATGGC	0.438													8	79					0	0	1	0	0		C	179621295	C	C	179621295	2	2	27	1	0	0	0	0	0	0	0	1	16761	1451	51	3		3	TTN	2	179621295	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5050	179621295	63578078	1282	23633											
TTN	7273	broad.mit.edu	37	chr2	179638678	179638678	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcatatgagattgtttgTctatcacaatgtgaaccctg	11	13	9	8	0	2	2	1	2	1	1	2	3	2	2	1	0	2	3	1	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179638678T>C	uc010zfg.1	-	31	7441	c.7217A>G	c.(7216-7218)GAC>GGC	p.D2406G	TTN_uc010zfh.1_Missense_Mutation_p.D2360G|TTN_uc010zfi.1_Missense_Mutation_p.D2360G|TTN_uc010zfj.1_Missense_Mutation_p.D2360G|TTN_uc002unb.2_Missense_Mutation_p.D2406G|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2406							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGATTGTTTGTCTATCACAAT	0.478													4	135					0	0	1	0	0		C	179638678	C	C	179638678	3	2	27	1	0	0	0	0	1	0	0	0	16761	1667	58	3	104099	3	TTN	2	179638678	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	17383	179638678	63560695	1283	23634											
TTN	7273	broad.mit.edu	37	chr2	179642221	179642221	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagtccattccccagaaTcactgggtgtggcagggaca	10	7	11	13	0	1	1	1	0	0	1	3	2	3	2	4	3	0	1	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179642221T>A	uc010zfg.1	-	26	4795	c.4571A>T	c.(4570-4572)GAT>GTT	p.D1524V	TTN_uc010zfh.1_Missense_Mutation_p.D1478V|TTN_uc010zfi.1_Missense_Mutation_p.D1478V|TTN_uc010zfj.1_Missense_Mutation_p.D1478V|TTN_uc002unb.2_Missense_Mutation_p.D1524V|uc002unc.1_RNA	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1524							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCCCCAGAATCACTGGGTGT	0.378													5	48					0	0	1	0	0		A	179642221	A	A	179642221	3	1	27	1	0	0	0	0	1	0	0	0	16761	1435	50	5	106765	5	TTN	2	179642221	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3543	179642221	63557152	1284	23635											
CCDC141	285025	broad.mit.edu	37	chr2	179710393	179710393	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atattgtctgcttattttttGctggttcctttagcaagtca	7	20	7	7	0	2	0	1	0	1	0	3	0	3	0	1	1	3	4	1	1	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179710393G>C	uc002unf.1	-	12	1766	c.1709C>G	c.(1708-1710)GCA>GGA	p.A570G	CCDC141_uc002une.1_Missense_Mutation_p.A20G	NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	570							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			CTTATTTTTTGCTGGTTCCTT	0.348													5	23					0	0	1	0	0		C	179710393	C	C	179710393	3	2	27	1	0	0	0	0	1	0	0	0	2778	1319	46	5	926	5	CCDC141	2	179710393	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	68172	179710393	63488980	1285	23636											
CCDC141	285025	broad.mit.edu	37	chr2	179730575	179730575	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcagctttggcacgccaCttcatgctgtcctcctcaag	6	12	7	16	1	3	0	3	0	0	0	6	0	6	0	4	1	2	3	4	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179730575C>T	uc002unf.1	-	7	975	c.918G>A	c.(916-918)AAG>AAA	p.K306K		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	306	Potential.						protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			TGGCACGCCACTTCATGCTGT	0.522													28	298					0	0	1	0	0		T	179730575	T	T	179730575	2	4	27	1	0	0	0	0	0	0	0	1	2778	564	20	4		4	CCDC141	2	179730575	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20182	179730575	63468798	1286	23637											
SESTD1	91404	broad.mit.edu	37	chr2	179982318	179982318	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaagcatctttaaccttcGcacatctaccatgtcttcac	10	13	4	14	1	4	1	1	1	3	0	5	1	4	1	2	0	3	2	2	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:179982318G>A	uc002uni.3	-	14	1615	c.1465C>T	c.(1465-1467)CGA>TGA	p.R489*	SESTD1_uc002unh.3_5'UTR	NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	489	Spectrin 2.				regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			TTTAACCTTCGCACATCTACC	0.348													15	66					0	0	1	0	0		A	179982318	A	A	179982318	4	1	27	1	0	0	0	0	0	1	0	0	14152	1095	38	1	645	1	SESTD1	2	179982318	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	251743	179982318	63217055	1287	23638											
CWC22	57703	broad.mit.edu	37	chr2	180815294	180815294	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctctcttcactggaagaCtctgaactgctatcactgct	8	13	7	13	1	4	2	2	1	2	1	6	3	4	3	0	1	3	3	0	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:180815294C>A	uc010frh.1	-	19	2385	c.2085G>T	c.(2083-2085)GAG>GAT	p.E695D	CWC22_uc002uno.2_Missense_Mutation_p.E217D|CWC22_uc002unp.2_Missense_Mutation_p.E695D	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	695	Ser-rich.					catalytic step 2 spliceosome	protein binding|RNA binding				0						CACTGGAAGACTCTGAACTGC	0.443													5	49					0.014758	0.0150623	1	1	0		A	180815294	A	A	180815294	3	1	27	1	0	0	0	0	1	0	0	0	4071	564	20	5	649	5	CWC22	2	180815294	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	832976	180815294	62384079	1288	23639											
ITGA4	3676	broad.mit.edu	37	chr2	182394352	182394352	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttagcccccaaactgataagCtgttcaacattttggatgtc	11	13	7	10	0	1	1	1	1	0	0	2	2	1	2	2	1	4	2	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:182394352C>T	uc002unu.2	+	23	3278	c.2515C>T	c.(2515-2517)CTG>TTG	p.L839L	ITGA4_uc002unv.2_Silent_p.L84L	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	839	Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	AACTGATAAGCTGTTCAACAT	0.338													10	64					0	0	1	0	0		T	182394352	T	T	182394352	2	4	27	1	0	0	0	0	0	0	0	1	7894	796	28	2		2	ITGA4	2	182394352	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1579058	182394352	60805021	1289	23640											
CERKL	375298	broad.mit.edu	37	chr2	182412405	182412405	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaaggaattgccataatgCtgacattcaagaactgaccc	14	8	9	10	0	1	3	1	2	0	1	1	4	1	4	2	2	3	2	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:182412405C>T	uc002unx.2	-	11	1387	c.1286G>A	c.(1285-1287)AGC>AAC	p.S429N	CERKL_uc002uny.2_Missense_Mutation_p.S403N|CERKL_uc010zfm.1_Missense_Mutation_p.S385N|CERKL_uc002unz.2_Missense_Mutation_p.S151N|CERKL_uc002uoa.2_Missense_Mutation_p.S334N|CERKL_uc002uob.2_Missense_Mutation_p.S151N|CERKL_uc002uoc.2_Missense_Mutation_p.S290N|CERKL_uc010frk.2_RNA|CERKL_uc002uod.1_Missense_Mutation_p.S198N|CERKL_uc002unw.2_5'UTR	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	429					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			TGCCATAATGCTGACATTCAA	0.383													15	115					0	0	1	0	0		T	182412405	T	T	182412405	3	4	27	1	0	0	0	0	1	0	0	0	3271	797	28	2	406	2	CERKL	2	182412405	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18053	182412405	60786968	1290	23641											
NEUROD1	4760	broad.mit.edu	37	chr2	182543447	182543447	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcagtgagtcctcctctgcGttcatggtttcgaggtcgtc	4	14	11	12	3	3	1	2	1	1	0	8	2	5	1	2	2	1	2	2	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:182543447G>A	uc002uof.2	-	2	377	c.141C>T	c.(139-141)AAC>AAT	p.N47N	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	47					amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			CCTCCTCTGCGTTCATGGTTT	0.413													6	18					0	0	1	0	0		A	182543447	A	A	182543447	2	1	27	1	0	0	0	0	0	0	0	1	10367	1136	40	1		1	NEUROD1	2	182543447	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	131042	182543447	60655926	1291	23642											
PDE1A	5136	broad.mit.edu	37	chr2	183094743	183094743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgtcttaccatgatacctGtatgaagcattatgtaatgc	12	14	7	8	0	1	2	0	2	1	0	1	2	1	2	2	0	4	3	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:183094743G>A	uc002uos.2	-	7	797	c.713C>T	c.(712-714)ACA>ATA	p.T238I	PDE1A_uc010zfp.1_Missense_Mutation_p.T134I|PDE1A_uc002uoq.1_Missense_Mutation_p.T238I|PDE1A_uc010zfq.1_Missense_Mutation_p.T238I|PDE1A_uc002uor.2_Missense_Mutation_p.T222I|PDE1A_uc002uou.2_Missense_Mutation_p.T204I	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	238	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			CATGATACCTGTATGAAGCAT	0.358													19	74					0	0	1	0	0		A	183094743	A	A	183094743	3	1	27	1	0	0	0	0	1	0	0	0	11652	1377	48	4	1008	4	PDE1A	2	183094743	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	551296	183094743	60104630	1292	23643											
NCKAP1	10787	broad.mit.edu	37	chr2	183848065	183848065	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggacagtagccaattccttCagtgcagatcttaaaaactt	14	11	7	9	0	2	1	1	0	1	1	3	2	3	2	2	1	3	2	2	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:183848065C>T	uc002upc.2	-	11	1452	c.1050G>A	c.(1048-1050)CTG>CTA	p.L350L	NCKAP1_uc002upb.2_Silent_p.L356L	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	350					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			CCAATTCCTTCAGTGCAGATC	0.343													6	58					0	0	1	0	0		T	183848065	T	T	183848065	2	4	27	1	0	0	0	0	0	0	0	1	10240	813	29	4		4	NCKAP1	2	183848065	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	753322	183848065	59351308	1293	23644											
ZNF804A	91752	broad.mit.edu	37	chr2	185463792	185463792	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcaagaacgggaacaaaActctggtaatcgcttctgtt	13	10	9	9	2	3	1	1	0	2	1	4	2	3	2	0	2	4	4	0	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:185463792A>G	uc002uph.2	+	1	700	c.106A>G	c.(106-108)ACT>GCT	p.T36A		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	36						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						CGGGAACAAAACTCTGGTAAT	0.443													3	53					0	0	1	0	0		G	185463792	G	G	185463792	3	3	27	1	0	0	0	0	1	0	0	0	18195	43	2	3	108	3	ZNF804A	2	185463792	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1615727	185463792	57735581	1294	23645											
ZNF804A	91752	broad.mit.edu	37	chr2	185800760	185800760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggattcacagacacaaaatcGgcttttcttttgcatttcca	11	14	6	10	1	2	1	1	0	1	1	4	2	3	2	1	2	1	2	1	2	2	6	rs139641449		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:185800760G>A	uc002uph.2	+	4	1231	c.637G>A	c.(637-639)GGC>AGC	p.G213S		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	213						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						ACACAAAATCGGCTTTTCTTT	0.438													8	77					0	0	1	0	0		A	185800760	A	A	185800760	3	1	27	1	0	0	0	0	1	0	0	0	18195	1116	39	1	651	1	ZNF804A	2	185800760	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	336968	185800760	57398613	1295	23646											
ITGAV	3685	broad.mit.edu	37	chr2	187534526	187534526	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttgccctcagtgaaggAgatattcacactttggtaag	11	12	10	8	0	3	2	2	1	1	1	3	4	3	2	1	2	1	1	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:187534526A>G	uc002upq.2	+	26	2967	c.2691A>G	c.(2689-2691)GGA>GGG	p.G897G	ITGAV_uc010frs.2_Silent_p.G861G|ITGAV_uc010zfv.1_Silent_p.G851G	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	897	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		TCAGTGAAGGAGATATTCACA	0.408													4	52					0	0	1	0	0		G	187534526	G	G	187534526	2	3	27	1	0	0	0	0	0	0	0	1	7904	291	11	3		3	ITGAV	2	187534526	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1733766	187534526	55664847	1296	23647											
FAM171B	165215	broad.mit.edu	37	chr2	187604970	187604970	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtgtctgtatttatgtTgaaagtccaggtgaatgaca	11	14	10	6	0	1	3	0	3	1	0	3	3	3	3	2	1	0	2	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:187604970T>C	uc002ups.2	+	2	366	c.254T>C	c.(253-255)TTG>TCG	p.L85S	FAM171B_uc002upr.1_Missense_Mutation_p.L85S	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	85	Extracellular (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						GTATTTATGTTGAAAGTCCAG	0.368													3	51					0	0	1	0	0		C	187604970	C	C	187604970	3	2	27	1	0	0	0	0	1	0	0	0	5502	1821	63	3	260	3	FAM171B	2	187604970	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	70444	187604970	55594403	1297	23648											
ZSWIM2	151112	broad.mit.edu	37	chr2	187693278	187693278	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcatcaaaattacactgAggtatgctaggtaaaattcc	16	12	6	7	0	2	1	2	1	0	0	3	1	3	1	1	2	2	3	1	2	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:187693278A>G	uc002upu.1	-	9	1375	c.1335T>C	c.(1333-1335)CCT>CCC	p.P445P		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	445					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			AATTACACTGAGGTATGCTAG	0.308													7	61					0	0	1	0	0		G	187693278	G	G	187693278	2	3	27	1	0	0	0	0	0	0	0	1	18266	291	11	3		3	ZSWIM2	2	187693278	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	88308	187693278	55506095	1298	23649											
COL3A1	1281	broad.mit.edu	37	chr2	189870111	189870111	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggagctaacggtctcagTggagaacgtggtccccctgg	8	7	14	12	2	1	1	1	0	1	1	3	3	2	2	3	5	3	1	3	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:189870111T>C	uc002uqj.1	+	41	3084	c.2967T>C	c.(2965-2967)AGT>AGC	p.S989S		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	989	Triple-helical region.			ANGLS -> PSGQN (in Ref. 20; AA sequence).	axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	ACGGTCTCAGTGGAGAACGTG	0.453													5	98					0	0	1	0	0		C	189870111	C	C	189870111	2	2	27	1	0	0	0	0	0	0	0	1	3691	1693	59	3		3	COL3A1	2	189870111	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2176833	189870111	53329262	1299	23650											
COL5A2	1290	broad.mit.edu	37	chr2	189933518	189933518	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctagaaacttacaggaagAcctggagagccaactggacc	14	6	11	10	0	0	3	0	0	0	3	0	6	0	5	3	3	5	1	3	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:189933518A>G	uc002uqk.2	-	19	1526	c.1251T>C	c.(1249-1251)GGT>GGC	p.G417G	COL5A2_uc010frx.2_Intron	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	417					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			TTACAGGAAGACCTGGAGAGC	0.468													6	47					0	0	1	0	0		G	189933518	G	G	189933518	2	3	27	1	0	0	0	0	0	0	0	1	3700	262	10	3		3	COL5A2	2	189933518	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	63407	189933518	53265855	1300	23651											
COL5A2	1290	broad.mit.edu	37	chr2	189948739	189948739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcaaatcccacttcaccagGatttccatttctgccaggtt	9	13	6	13	0	2	0	1	0	1	0	4	1	4	1	4	2	2	2	4	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:189948739G>A	uc002uqk.2	-	12	1098	c.823C>T	c.(823-825)CCT>TCT	p.P275S	COL5A2_uc010frx.2_Missense_Mutation_p.P28S	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	275					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			ACTTCACCAGGATTTCCATTT	0.343													6	57					0	0	1	0	0		A	189948739	A	A	189948739	3	1	27	1	0	0	0	0	1	0	0	0	3700	1174	41	4	3848	4	COL5A2	2	189948739	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15221	189948739	53250634	1301	23652											
ASNSD1	54529	broad.mit.edu	37	chr2	190532261	190532261	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgtgcagtctggtttgcttCtagaggaattggttggttag	6	16	14	5	0	2	1	0	0	2	1	2	2	2	2	0	4	2	5	0	4	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:190532261C>G	uc002uqt.2	+	4	1837	c.1403C>G	c.(1402-1404)TCT>TGT	p.S468C		NM_019048	NP_061921	Q9NWL6	ASND1_HUMAN	asparagine synthetase domain containing 1	468	Asparagine synthetase.				asparagine biosynthetic process|glutamine metabolic process		asparagine synthase (glutamine-hydrolyzing) activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0449)|all cancers(119;0.118)			TGGTTTGCTTCTAGAGGAATT	0.428													6	153					0	0	1	0	0		G	190532261	G	G	190532261	3	3	27	1	0	0	0	0	1	0	0	0	1050	913	32	5	1405	5	ASNSD1	2	190532261	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	583522	190532261	52667112	1302	23653											
ORMDL1	94101	broad.mit.edu	37	chr2	190647275	190647275	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acataccccggctgttcatgAcacgggtatttggattcact	9	12	9	11	2	2	1	2	1	0	0	2	2	2	2	2	3	1	3	2	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:190647275A>G	uc002urb.3	-	1	834	c.47T>C	c.(46-48)GTC>GCC	p.V16A	PMS1_uc010zga.1_5'Flank|PMS1_uc010zgb.1_5'Flank|PMS1_uc002urh.3_5'Flank|PMS1_uc002urk.3_5'Flank|PMS1_uc002uri.3_5'Flank|PMS1_uc010zgc.1_5'Flank|PMS1_uc010zgd.1_5'Flank|PMS1_uc002urj.2_5'Flank|ORMDL1_uc002urc.3_Missense_Mutation_p.V16A|ORMDL1_uc002urd.3_Missense_Mutation_p.V16A|ORMDL1_uc002ure.3_Missense_Mutation_p.V16A|ORMDL1_uc002urf.3_Missense_Mutation_p.V16A|PMS1_uc010zfz.1_5'Flank	NM_016467	NP_057551	Q9P0S3	ORML1_HUMAN	ORM1-like 1	16					ceramide metabolic process	endoplasmic reticulum membrane|integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(117;0.00177)|Epithelial(96;0.0317)|all cancers(119;0.0889)			GCTGTTCATGACACGGGTATT	0.453													5	87					0	0	1	0	0		G	190647275	G	G	190647275	3	3	27	1	0	0	0	0	1	0	0	0	11288	275	10	3	426	3	ORMDL1	2	190647275	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	115014	190647275	52552098	1303	23654											
MSTN	2660	broad.mit.edu	37	chr2	190927276	190927276	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatccactggaccagcaacaAtcagcataaacaggtaaata	18	6	7	10	0	1	0	1	0	0	0	2	2	2	1	2	2	4	3	2	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:190927276A>G	uc002urp.2	-	1	180	c.47T>C	c.(46-48)ATT>ACT	p.I16T		NM_005259	NP_005250	O14793	GDF8_HUMAN	myostatin precursor	16					muscle organ development|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000742)|Epithelial(96;0.0121)|all cancers(119;0.0395)			ACCAGCAACAATCAGCATAAA	0.328													8	94					0	0	1	0	0		G	190927276	G	G	190927276	3	3	27	1	0	0	0	0	1	0	0	0	9911	101	4	3	1092	3	MSTN	2	190927276	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	280001	190927276	52272097	1304	23655											
MFSD6	54842	broad.mit.edu	37	chr2	191301401	191301401	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagacaccgttactttgccaAcagctccaaacatgaacagt	14	8	6	13	1	0	2	0	1	0	1	1	2	1	2	3	0	6	2	3	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:191301401A>G	uc002urz.2	+	3	970	c.646A>G	c.(646-648)ACA>GCA	p.T216A		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	216					transmembrane transport	integral to membrane				ovary(2)	2						TACTTTGCCAACAGCTCCAAA	0.448													3	74					0	0	1	0	0		G	191301401	G	G	191301401	3	3	27	1	0	0	0	0	1	0	0	0	9553	43	2	3	648	3	MFSD6	2	191301401	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	374125	191301401	51897972	1305	23656											
NAB1	4664	broad.mit.edu	37	chr2	191524184	191524184	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccttcctgtcagtagcatAcccatctataaattaccaga	12	12	4	13	0	2	1	1	0	1	1	4	1	4	1	4	0	3	2	4	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:191524184A>G	uc002usb.2	+	4	854	c.282A>G	c.(280-282)ATA>ATG	p.I94M	NAB1_uc010fsc.2_Missense_Mutation_p.I94M|NAB1_uc010fsd.2_Missense_Mutation_p.I94M|NAB1_uc002usc.2_Missense_Mutation_p.I94M|NAB1_uc010zgh.1_Missense_Mutation_p.I94M	NM_005966	NP_005957	Q13506	NAB1_HUMAN	NGFI-A binding protein 1	94					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0405)|all cancers(119;0.109)			TCAGTAGCATACCCATCTATA	0.473													5	57					0	0	1	0	0		G	191524184	G	G	191524184	3	3	27	1	0	0	0	0	1	0	0	0	10149	381	14	3	284	3	NAB1	2	191524184	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	222783	191524184	51675189	1306	23657											
GLS	2744	broad.mit.edu	37	chr2	191792056	191792056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctccattgaagtgacttgtGaatcagccagtgtgatggct	9	12	12	8	0	1	4	1	4	0	0	2	4	2	4	2	1	1	2	2	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:191792056G>A	uc002usf.2	+	12	1537	c.1273G>A	c.(1273-1275)GAA>AAA	p.E425K	GLS_uc002use.2_Missense_Mutation_p.E425K|GLS_uc002usg.1_Missense_Mutation_p.E86K|GLS_uc002ush.2_Missense_Mutation_p.E86K|GLS_uc010zgi.1_5'UTR|GLS_uc010zgj.1_5'Flank	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	425					cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	AGTGACTTGTGAATCAGCCAG	0.383													5	67					0	0	1	0	0		A	191792056	A	A	191792056	3	1	27	1	0	0	0	0	1	0	0	0	6478	1291	45	4	1319	4	GLS	2	191792056	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	267872	191792056	51407317	1307	23658											
GLS	2744	broad.mit.edu	37	chr2	191796330	191796330	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagacactttgcaaaaaaActtgatcctcgaagagaagg	16	9	9	7	1	0	3	0	2	0	2	2	6	1	3	1	1	2	1	1	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:191796330A>T	uc002usf.2	+	14	1881	c.1617A>T	c.(1615-1617)AAA>AAT	p.K539N	GLS_uc002use.2_Missense_Mutation_p.K539N|GLS_uc002usg.1_Missense_Mutation_p.K200N|GLS_uc002ush.2_Missense_Mutation_p.K200N|GLS_uc010zgi.1_Missense_Mutation_p.K110N|GLS_uc010zgj.1_Missense_Mutation_p.K44N	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	539					cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TTGCAAAAAAACTTGATCCTC	0.313													5	52					0	0	1	0	0		T	191796330	T	T	191796330	3	4	27	1	0	0	0	0	1	0	0	0	6478	40	2	5	1671	5	GLS	2	191796330	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4274	191796330	51403043	1308	23659											
GLS	2744	broad.mit.edu	37	chr2	191819388	191819388	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgtagctgctgcagagggTaatacaggaactactcctat	12	10	10	9	0	0	1	0	0	0	1	1	2	1	2	1	2	6	5	1	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:191819388T>C	uc002usf.2	+	16	2053	c.1789_splice	c.e16+2	p.G597_splice	GLS_uc002ush.2_Splice_Site_p.G258_splice|GLS_uc010zgi.1_Silent_p.G168G|GLS_uc010zgj.1_Splice_Site_p.G102_splice	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor						cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CTGCAGAGGGTAATACAGGAA	0.408													8	62					0	0	1	0	0		C	191819388	C	C	191819388	5	2	27	1	0	0	0	0	0	0	1	0	6478	1652	57	3	1853	3	GLS	2	191819388	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	23058	191819388	51379985	1309	23660											
STAT1	6772	broad.mit.edu	37	chr2	191863025	191863025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactctttgccacaccattgGtctcgtgttctataaattga	9	15	6	11	1	3	1	0	1	3	0	4	1	3	1	2	1	1	1	2	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:191863025G>A	uc002usj.2	-	8	939	c.551C>T	c.(550-552)ACC>ATC	p.T184I	STAT1_uc010fse.1_Missense_Mutation_p.T184I|STAT1_uc002usk.2_Missense_Mutation_p.T184I|STAT1_uc002usl.2_Missense_Mutation_p.T186I|STAT1_uc010fsf.1_Intron	NM_007315	NP_009330	P42224	STAT1_HUMAN	signal transducer and activator of transcription	184					activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)	CACACCATTGGTCTCGTGTTC	0.323													19	83					0	0	1	0	0		A	191863025	A	A	191863025	3	1	27	1	0	0	0	0	1	0	0	0	15289	1261	44	4	1777	4	STAT1	2	191863025	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	43637	191863025	51336348	1310	23661											
STAT4	6775	broad.mit.edu	37	chr2	191937856	191937856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttaatggcagccactttgtGctccacattcctctgtcttt	6	17	6	12	0	2	0	0	0	2	0	4	0	4	0	3	1	2	2	3	1	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:191937856G>A	uc002usm.1	-	5	687	c.433C>T	c.(433-435)CAC>TAC	p.H145Y	STAT4_uc002usn.1_Missense_Mutation_p.H145Y|STAT4_uc002uso.2_Missense_Mutation_p.H145Y	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	145					JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			GCCACTTTGTGCTCCACATTC	0.398													28	221					0	0	1	0	0		A	191937856	A	A	191937856	3	1	27	1	0	0	0	0	1	0	0	0	15292	1319	46	2	1893	2	STAT4	2	191937856	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	74831	191937856	51261517	1311	23662											
STAT4	6775	broad.mit.edu	37	chr2	192011389	192011389	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtatcaagagtaggttttTctctttggaaacacgaccta	11	14	9	7	1	2	1	1	0	1	1	3	3	2	2	1	2	1	3	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:192011389T>C	uc002usm.1	-	3	477	c.223A>G	c.(223-225)AAA>GAA	p.K75E	STAT4_uc010zgm.1_RNA|STAT4_uc010zgn.1_RNA|STAT4_uc010zgo.1_RNA|STAT4_uc002usn.1_Missense_Mutation_p.K75E|STAT4_uc002uso.2_Missense_Mutation_p.K75E|STAT4_uc002usp.3_Missense_Mutation_p.K75E|STAT4_uc010zgl.1_Missense_Mutation_p.K75E	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	75					JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			AGTAGGTTTTTCTCTTTGGAA	0.343													4	43					0	0	1	0	0		C	192011389	C	C	192011389	3	2	27	1	0	0	0	0	1	0	0	0	15292	1792	62	3	2111	3	STAT4	2	192011389	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	73533	192011389	51187984	1312	23663											
MYO1B	4430	broad.mit.edu	37	chr2	192255027	192255027	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatctttaaggtgtatcaaAccgaatgataaaaaagcagc	17	10	8	6	1	2	2	1	2	1	0	2	3	2	2	1	1	3	2	1	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:192255027A>C	uc010fsg.2	+	18	2046	c.1791A>C	c.(1789-1791)AAA>AAC	p.K597N	MYO1B_uc002usq.2_Missense_Mutation_p.K597N|MYO1B_uc002usr.2_Missense_Mutation_p.K597N|MYO1B_uc002usu.2_5'Flank	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	597	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			GGTGTATCAAACCGAATGATA	0.393													6	70					0	0	1	0	0		C	192255027	C	C	192255027	3	2	27	1	0	0	0	0	1	0	0	0	10087	40	2	5	1857	5	MYO1B	2	192255027	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	243638	192255027	50944346	1313	23664											
MYO1B	4430	broad.mit.edu	37	chr2	192275824	192275824	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggaccaattcacagaccaGcagaaacttatttatgaaga	17	8	8	8	0	1	4	1	1	0	3	1	5	1	5	2	1	2	1	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:192275824G>T	uc010fsg.2	+	27	3054	c.2799G>T	c.(2797-2799)CAG>CAT	p.Q933H	MYO1B_uc002usq.2_Missense_Mutation_p.Q875H|MYO1B_uc002usr.2_Missense_Mutation_p.Q933H|MYO1B_uc002usu.2_Missense_Mutation_p.Q178H|MYO1B_uc002usv.2_Missense_Mutation_p.Q49H	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	933						myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			TCACAGACCAGCAGAAACTTA	0.313													4	115					0.014758	0.0150623	1	1	0		T	192275824	T	T	192275824	3	4	27	1	0	0	0	0	1	0	0	0	10087	962	34	5	2901	5	MYO1B	2	192275824	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20797	192275824	50923549	1314	23665											
SDPR	8436	broad.mit.edu	37	chr2	192700777	192700777	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgttccagggccactgActcctcctcttcatcttcca	5	13	6	17	0	3	1	1	1	2	0	7	1	7	1	6	1	1	1	6	1	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:192700777A>T	uc002utb.2	-	2	1480	c.1150T>A	c.(1150-1152)TCA>ACA	p.S384T		NM_004657	NP_004648	O95810	SDPR_HUMAN	serum deprivation response protein	384						caveola|cytosol	phosphatidylserine binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0647)		Phosphatidylserine(DB00144)	AGGGCCACTGACTCCTCCTCT	0.597													12	110					0	0	1	0	0		T	192700777	T	T	192700777	3	4	27	1	0	0	0	0	1	0	0	0	13995	275	10	5	131	5	SDPR	2	192700777	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	424953	192700777	50498596	1315	23666											
SLC39A10	57181	broad.mit.edu	37	chr2	196573391	196573391	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattaatagtctcagggtggAcatgatcacagtcaccaaca	14	10	8	9	0	3	1	3	1	1	0	4	2	3	2	1	2	1	0	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:196573391A>G	uc002utg.3	+	5	1612	c.1398A>G	c.(1396-1398)GGA>GGG	p.G466G	SLC39A10_uc002uth.3_Silent_p.G466G|SLC39A10_uc010zgp.1_Silent_p.G16G	NM_001127257	NP_001120729	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter),	466	His-rich.				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.221)			CTCAGGGTGGACATGATCACA	0.299													3	41					0	0	1	0	0		G	196573391	G	G	196573391	2	3	27	1	0	0	0	0	0	0	0	1	14638	262	10	3		3	SLC39A10	2	196573391	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3872614	196573391	46625982	1316	23667											
DNAH7	56171	broad.mit.edu	37	chr2	196671554	196671554	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaaaacctcatggtgtggTtcctaaaattacagtgtaaa	14	11	10	6	0	1	0	1	0	0	0	2	1	2	1	2	3	2	2	2	3	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:196671554T>C	uc002utj.3	-	54	10187	c.10086A>G	c.(10084-10086)GAA>GAG	p.E3362E		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3362					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CATGGTGTGGTTCCTAAAATT	0.318													3	51					0	0	1	0	0		C	196671554	C	C	196671554	2	2	27	1	0	0	0	0	0	0	0	1	4612	1722	60	3		3	DNAH7	2	196671554	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	98163	196671554	46527819	1317	23668											
DNAH7	56171	broad.mit.edu	37	chr2	196759893	196759893	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgatagctgccagcaaaTcattgtaatctggttttggt	9	16	9	7	0	2	1	1	1	1	0	2	1	2	1	1	2	3	4	1	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:196759893T>A	uc002utj.3	-	30	4804	c.4703A>T	c.(4702-4704)GAT>GTT	p.D1568V		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1568					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TGCCAGCAAATCATTGTAATC	0.328													5	44					0	0	1	0	0		A	196759893	A	A	196759893	3	1	27	1	0	0	0	0	1	0	0	0	4612	1435	50	5	7515	5	DNAH7	2	196759893	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	88339	196759893	46439480	1318	23669											
DNAH7	56171	broad.mit.edu	37	chr2	196883924	196883924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgccacaaatctagtacaGccagcattgtggggttcatt	10	12	10	9	0	2	0	1	0	1	0	2	0	2	0	2	2	4	3	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:196883924G>A	uc002utj.3	-	9	940	c.839C>T	c.(838-840)GCT>GTT	p.A280V		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	280	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						ATCTAGTACAGCCAGCATTGT	0.343													9	94					0	0	1	0	0		A	196883924	A	A	196883924	3	1	27	1	0	0	0	0	1	0	0	0	4612	971	34	2	11463	2	DNAH7	2	196883924	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	124031	196883924	46315449	1319	23670											
STK17B	9262	broad.mit.edu	37	chr2	197004488	197004488	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccacaaatggtgatgtgTgagttaacaacatatatgct	13	12	8	8	0	0	2	0	2	0	0	1	2	1	2	1	1	3	2	1	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:197004488T>C	uc002utk.2	-	7	1016	c.692A>G	c.(691-693)CAC>CGC	p.H231R	STK17B_uc010fsh.2_Missense_Mutation_p.H231R	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	231	Protein kinase.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			TGGTGATGTGTGAGTTAACAA	0.294													8	107					0	0	1	0	0		C	197004488	C	C	197004488	3	2	27	1	0	0	0	0	1	0	0	0	15316	1696	59	3	434	3	STK17B	2	197004488	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	120564	197004488	46194885	1320	23671											
STK17B	9262	broad.mit.edu	37	chr2	197010665	197010665	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtacaatgttattctgAtgtagataataaactccttc	13	15	7	6	0	1	2	0	1	1	1	3	2	2	2	1	1	2	3	1	1	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:197010665A>C	uc002utk.2	-	4	774	c.450T>G	c.(448-450)CAT>CAG	p.H150Q	STK17B_uc010fsh.2_Missense_Mutation_p.H150Q	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	150	Protein kinase.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			TGTTATTCTGATGTAGATAAT	0.333													4	33					0	0	1	0	0		C	197010665	C	C	197010665	3	2	27	1	0	0	0	0	1	0	0	0	15316	330	12	5	688	5	STK17B	2	197010665	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6177	197010665	46188708	1321	23672											
HECW2	57520	broad.mit.edu	37	chr2	197080627	197080627	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcccccatttctccacacaGaatcttcttgggccgttact	7	14	5	15	1	3	1	0	0	3	1	5	1	4	1	4	1	1	1	4	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:197080627G>A	uc002utm.1	-	28	4752	c.4569C>T	c.(4567-4569)TTC>TTT	p.F1523F	HECW2_uc002utl.1_Silent_p.F1167F	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	1523	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						TCTCCACACAGAATCTTCTTG	0.413													8	85					0	0	1	0	0		A	197080627	A	A	197080627	2	1	27	1	0	0	0	0	0	0	0	1	7059	933	33	4		4	HECW2	2	197080627	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	69962	197080627	46118746	1322	23673											
CCDC150	284992	broad.mit.edu	37	chr2	197559769	197559769	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttacttttgtttctttaaaGgtagacataaatacattaac	14	18	4	5	0	1	1	0	0	1	1	1	1	1	1	0	1	3	2	0	1	8	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:197559769G>T	uc002utp.1	+	14	1645	c.1510_splice	c.e14-1	p.V504_splice	CCDC150_uc010zgq.1_Splice_Site|CCDC150_uc010zgr.1_Splice_Site|CCDC150_uc010zgs.1_Splice_Site_p.V172_splice|CCDC150_uc010zgt.1_5'Flank	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150												0						TTTCTTTAAAGGTAGACATAA	0.318													7	63					2.0095e-06	2.17775e-06	1	1	0		T	197559769	T	T	197559769	5	4	27	1	0	0	0	0	0	0	1	0	2788	1014	35	5	1563	5	CCDC150	2	197559769	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	479142	197559769	45639604	1323	23674											
CCDC150	284992	broad.mit.edu	37	chr2	197584353	197584353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtacaaatagagcttgggCggagggattcagagattgca	14	8	14	5	1	1	2	1	0	0	2	1	5	1	4	0	3	3	3	0	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:197584353C>T	uc002utp.1	+	19	2263	c.2128C>T	c.(2128-2130)CGG>TGG	p.R710W	CCDC150_uc010zgs.1_Missense_Mutation_p.R357W|CCDC150_uc010zgt.1_Missense_Mutation_p.R127W|CCDC150_uc002utq.1_Missense_Mutation_p.R25W|CCDC150_uc002utr.1_Missense_Mutation_p.R25W	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150	710											0						AGAGCTTGGGCGGAGGGATTC	0.443													12	31					0	0	1	0	0		T	197584353	T	T	197584353	3	4	27	1	0	0	0	0	1	0	0	0	2788	759	27	1	2202	1	CCDC150	2	197584353	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	24584	197584353	45615020	1324	23675											
GTF3C3	9330	broad.mit.edu	37	chr2	197634713	197634713	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggttaggcctatacagaAgctatagagaggttcgtcag	14	9	12	6	1	1	2	1	0	0	2	2	3	1	2	1	3	2	3	1	3	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:197634713A>C	uc002uts.2	-	16	2401	c.2311T>G	c.(2311-2313)TTC>GTC	p.F771V	GTF3C3_uc010zgu.1_Missense_Mutation_p.F742V	NM_012086	NP_036218	Q9Y5Q9	TF3C3_HUMAN	general transcription factor IIIC, polypeptide	771						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(3)|breast(3)|pancreas(1)	7						CCTATACAGAAGCTATAGAGA	0.413													8	57					0	0	1	0	0		C	197634713	C	C	197634713	3	2	27	1	0	0	0	0	1	0	0	0	6890	72	3	5	361	5	GTF3C3	2	197634713	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	50360	197634713	45564660	1325	23676											
GTF3C3	9330	broad.mit.edu	37	chr2	197634743	197634743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggttcgtcagggtgagtgcGaaaggcttgcacatactgtc	9	10	14	8	2	1	1	1	1	0	0	3	2	1	1	0	3	3	3	0	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:197634743G>A	uc002uts.2	-	16	2371	c.2281C>T	c.(2281-2283)CGC>TGC	p.R761C	GTF3C3_uc010zgu.1_Missense_Mutation_p.R732C	NM_012086	NP_036218	Q9Y5Q9	TF3C3_HUMAN	general transcription factor IIIC, polypeptide	761	TPR 10.					transcription factor TFIIIC complex	DNA binding|protein binding			ovary(3)|breast(3)|pancreas(1)	7						GGGTGAGTGCGAAAGGCTTGC	0.413													11	51					0	0	1	0	0		A	197634743	A	A	197634743	3	1	27	1	0	0	0	0	1	0	0	0	6890	1058	37	1	391	1	GTF3C3	2	197634743	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	30	197634743	45564630	1326	23677											
PGAP1	80055	broad.mit.edu	37	chr2	197767343	197767343	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactggtatgatggcttaatTttggtagaaaagtcaatcct	12	14	9	6	0	1	2	1	1	0	1	2	2	2	2	1	3	0	3	1	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:197767343T>C	uc002utw.2	-	5	887	c.773A>G	c.(772-774)AAA>AGA	p.K258R	PGAP1_uc002utx.2_Missense_Mutation_p.K84R|PGAP1_uc002uty.1_Missense_Mutation_p.K258R|PGAP1_uc010zgv.1_RNA|PGAP1_uc010fsj.2_Missense_Mutation_p.K84R	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	258	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						ATGGCTTAATTTTGGTAGAAA	0.358													8	63					0	0	1	0	0		C	197767343	C	C	197767343	3	2	27	1	0	0	0	0	1	0	0	0	11796	1841	64	3	2087	3	PGAP1	2	197767343	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	132600	197767343	45432030	1327	23678											
ANKRD44	91526	broad.mit.edu	37	chr2	197878384	197878384	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatccctgatgtccaggTccaccaacgactgcagaagg	10	8	9	14	1	1	2	1	1	1	1	5	3	4	2	4	2	2	1	4	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:197878384T>C	uc002uua.1	-	18	1777	c.1700A>G	c.(1699-1701)GAC>GGC	p.D567G	ANKRD44_uc002utz.3_Missense_Mutation_p.D299G	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	592	ANK 17.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GATGTCCAGGTCCACCAACGA	0.532													12	180					0	0	1	0	0		C	197878384	C	C	197878384	3	2	27	1	0	0	0	0	1	0	0	0	672	1667	58	3	1095	3	ANKRD44	2	197878384	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	111041	197878384	45320989	1328	23679											
SF3B1	23451	broad.mit.edu	37	chr2	198273121	198273121	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtagccatgttcatggcTggtgtgccaattggtgtctt	5	14	15	7	0	2	0	1	0	1	0	2	0	2	0	2	5	2	3	2	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:198273121T>C	uc002uue.2	-	8	1137	c.1089A>G	c.(1087-1089)CCA>CCG	p.P363P		NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	363	Interaction with PPP1R8.				nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			TGTTCATGGCTGGTGTGCCAA	0.428													7	110					0	0	1	0	0		C	198273121	C	C	198273121	2	2	27	1	0	0	0	0	0	0	0	1	14174	1567	55	3		3	SF3B1	2	198273121	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	394737	198273121	44926252	1329	23680											
HSPD1	3329	broad.mit.edu	37	chr2	198361942	198361942	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatagagcgtgccagtacagTagcagtggtagtgccatccc	10	9	12	10	1	0	1	0	0	0	1	1	1	1	1	3	1	5	4	3	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:198361942T>C	uc002uui.2	-	3	486	c.349A>G	c.(349-351)ACT>GCT	p.T117A	HSPD1_uc002uuj.2_Missense_Mutation_p.T117A|HSPD1_uc010zgx.1_Missense_Mutation_p.T117A|HSPD1_uc010fsm.2_Intron|HSPD1_uc002uuk.2_Missense_Mutation_p.T117A|HSPD1_uc010zgy.1_Missense_Mutation_p.T117A|HSPE1_uc002uul.2_5'Flank	NM_002156	NP_002147	P10809	CH60_HUMAN	chaperonin	117					'de novo' protein folding|activation of caspase activity|B cell cytokine production|B cell proliferation|chaperone-mediated protein complex assembly|interspecies interaction between organisms|isotype switching to IgG isotypes|MyD88-dependent toll-like receptor signaling pathway|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of interferon-alpha production|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of macrophage activation|positive regulation of T cell activation|positive regulation of T cell mediated immune response to tumor cell|protein maturation|protein refolding|protein stabilization|response to unfolded protein|T cell activation	cell surface|coated pit|coated vesicle|cytosol|early endosome|extracellular space|lipopolysaccharide receptor complex|mitochondrial inner membrane|mitochondrial matrix|stored secretory granule	ATP binding|ATPase activity|cell surface binding|chaperone binding|DNA replication origin binding|lipopolysaccharide binding|p53 binding|single-stranded DNA binding				0			Epithelial(96;0.225)			GCCAGTACAGTAGCAGTGGTA	0.418													5	109					0	0	1	0	0		C	198361942	C	C	198361942	3	2	27	1	0	0	0	0	1	0	0	0	7444	1638	57	3	1412	3	HSPD1	2	198361942	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	88821	198361942	44837431	1330	23681											
HSPD1	3329	broad.mit.edu	37	chr2	198361971	198361971	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgccatccccagcttctTcatttgtgttattggcaaca	8	15	7	11	0	2	0	1	0	1	0	3	0	3	0	3	1	3	3	3	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:198361971T>G	uc002uui.2	-	3	457	c.320A>C	c.(319-321)GAA>GCA	p.E107A	HSPD1_uc002uuj.2_Missense_Mutation_p.E107A|HSPD1_uc010zgx.1_Missense_Mutation_p.E107A|HSPD1_uc010fsm.2_Intron|HSPD1_uc002uuk.2_Missense_Mutation_p.E107A|HSPD1_uc010zgy.1_Missense_Mutation_p.E107A|HSPE1_uc002uul.2_5'Flank	NM_002156	NP_002147	P10809	CH60_HUMAN	chaperonin	107					'de novo' protein folding|activation of caspase activity|B cell cytokine production|B cell proliferation|chaperone-mediated protein complex assembly|interspecies interaction between organisms|isotype switching to IgG isotypes|MyD88-dependent toll-like receptor signaling pathway|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of interferon-alpha production|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of macrophage activation|positive regulation of T cell activation|positive regulation of T cell mediated immune response to tumor cell|protein maturation|protein refolding|protein stabilization|response to unfolded protein|T cell activation	cell surface|coated pit|coated vesicle|cytosol|early endosome|extracellular space|lipopolysaccharide receptor complex|mitochondrial inner membrane|mitochondrial matrix|stored secretory granule	ATP binding|ATPase activity|cell surface binding|chaperone binding|DNA replication origin binding|lipopolysaccharide binding|p53 binding|single-stranded DNA binding				0			Epithelial(96;0.225)			CCCAGCTTCTTCATTTGTGTT	0.408													7	102					0	0	1	0	0		G	198361971	G	G	198361971	3	3	27	1	0	0	0	0	1	0	0	0	7444	1783	62	5	1441	5	HSPD1	2	198361971	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	29	198361971	44837402	1331	23682											
RFTN2	130132	broad.mit.edu	37	chr2	198511243	198511243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atagcaccactctgtataggTaacttgcaggtaggtgtttt	10	14	10	7	0	1	0	0	0	1	0	1	0	1	0	1	3	3	6	1	3	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:198511243T>C	uc002uuo.3	-	2	689	c.287A>G	c.(286-288)TAC>TGC	p.Y96C		NM_144629	NP_653230	Q52LD8	RFTN2_HUMAN	raftlin family member 2	96						plasma membrane					0						TCTGTATAGGTAACTTGCAGG	0.398													6	200					0	0	1	0	0		C	198511243	C	C	198511243	3	2	27	1	0	0	0	0	1	0	0	0	13284	1638	57	3	1250	3	RFTN2	2	198511243	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	149272	198511243	44688130	1332	23683											
SATB2	23314	broad.mit.edu	37	chr2	200246496	200246496	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcgcgtcgggtgcatctgTcacataactgagggggagag	8	9	16	8	3	2	2	1	1	1	1	4	3	2	2	0	3	2	1	0	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:200246496T>G	uc002uuy.1	-	4	1211	c.394A>C	c.(394-396)ACA>CCA	p.T132P	SATB2_uc010fsq.1_Intron|SATB2_uc002uuz.1_Missense_Mutation_p.T132P|SATB2_uc002uva.1_Missense_Mutation_p.T132P	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	132						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGTGCATCTGTCACATAACTG	0.433													3	58					0	0	1	0	0		G	200246496	G	G	200246496	3	3	27	1	0	0	0	0	1	0	0	0	13879	1667	58	5	1839	5	SATB2	2	200246496	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1735253	200246496	42952877	1333	23684											
SPATS2L	26010	broad.mit.edu	37	chr2	201337675	201337675	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccgaaaatcatccactcAcaataagccctctgaaggca	14	8	5	14	1	3	1	2	1	1	0	5	2	5	1	3	1	1	1	3	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:201337675A>G	uc002uvn.3	+	12	1533	c.1181A>G	c.(1180-1182)CAC>CGC	p.H394R	SPATS2L_uc010fst.2_Missense_Mutation_p.H394R|SPATS2L_uc002uvo.3_Missense_Mutation_p.H334R|SPATS2L_uc002uvp.3_Missense_Mutation_p.H394R|SPATS2L_uc002uvq.3_Missense_Mutation_p.H325R|SPATS2L_uc002uvr.3_Missense_Mutation_p.H394R|SPATS2L_uc010zhc.1_Missense_Mutation_p.H424R	NM_015535	NP_056350	Q9NUQ6	SPS2L_HUMAN	SPATS2-like protein isoform a	394						cytoplasm|nucleolus				ovary(2)|pancreas(1)	3						TCATCCACTCACAATAAGCCC	0.557													4	51					0	0	1	0	0		G	201337675	G	G	201337675	3	3	27	1	0	0	0	0	1	0	0	0	15045	159	6	3	1219	3	SPATS2L	2	201337675	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1091179	201337675	41861698	1334	23685											
BZW1	9689	broad.mit.edu	37	chr2	201685984	201685984	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaagagtgttttccttgAgcaaatgaaaaagtttgtag	13	12	13	3	0	0	3	0	2	0	1	1	4	1	4	1	2	1	4	1	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:201685984A>C	uc010zhg.1	+	11	1332	c.1280A>C	c.(1279-1281)GAG>GCG	p.E427A	BZW1_uc002uwc.2_Missense_Mutation_p.E329A	NM_014670	NP_055485	Q7L1Q6	BZW1_HUMAN	basic leucine zipper and W2 domains 1	395	W2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	protein binding				0						GTTTTCCTTGAGCAAATGAAA	0.388													16	102					0	0	1	0	0		C	201685984	C	C	201685984	3	2	27	1	0	0	0	0	1	0	0	0	1581	304	11	5	1024	5	BZW1	2	201685984	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	348309	201685984	41513389	1335	23686											
CLK1	1195	broad.mit.edu	37	chr2	201726528	201726528	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgctcctccattttcCataatcccaatccttgtcat	7	15	4	15	0	1	0	1	0	0	0	6	0	6	0	5	0	2	3	5	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:201726528C>A	uc002uwe.2	-	2	239	c.58G>T	c.(58-60)GGA>TGA	p.G20*	CLK1_uc010zhi.1_Nonsense_Mutation_p.G62*|CLK1_uc002uwf.2_5'UTR|CLK1_uc002uwg.2_5'UTR|CLK1_uc010fsv.2_RNA	NM_004071	NP_004062	P49759	CLK1_HUMAN	CDC-like kinase 1 isoform 1	20					cell proliferation	nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			pancreas(2)	2						CTCCATTTTCCATAATCCCAA	0.413													8	132					1.12685e-05	1.21022e-05	1	1	0		A	201726528	A	A	201726528	4	1	27	1	0	0	0	0	0	1	0	0	3539	603	21	5	1444	5	CLK1	2	201726528	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	40544	201726528	41472845	1336	23687											
CASP10	843	broad.mit.edu	37	chr2	202050789	202050789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctgcagcacctcaacTgtaccaaagaggaagtggag	13	6	12	10	0	1	1	1	0	0	1	1	3	1	3	2	2	6	5	2	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:202050789T>C	uc002uxl.1	+	2	707	c.289T>C	c.(289-291)TGT>CGT	p.C97R	CASP10_uc002uxi.1_Missense_Mutation_p.C97R|CASP10_uc010zhn.1_RNA|CASP10_uc002uxj.1_Missense_Mutation_p.C97R|CASP10_uc002uxk.1_Missense_Mutation_p.C97R|CASP10_uc010fta.1_Missense_Mutation_p.C97R|CASP10_uc002uxm.1_Missense_Mutation_p.C97R|CASP10_uc010ftb.1_RNA	NM_032974	NP_116756	Q92851	CASPA_HUMAN	caspase 10 isoform b preproprotein	97	DED 1.				apoptosis|induction of apoptosis by extracellular signals|proteolysis	cytosol|plasma membrane	cysteine-type endopeptidase activity|identical protein binding|protein binding			skin(3)|ovary(1)|pancreas(1)|breast(1)	6						GCACCTCAACTGTACCAAAGA	0.532													8	60					0	0	1	0	0		C	202050789	C	C	202050789	3	2	27	1	0	0	0	0	1	0	0	0	2672	1580	55	3	291	3	CASP10	2	202050789	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	324261	202050789	41148584	1337	23688											
CASP8	841	broad.mit.edu	37	chr2	202136301	202136301	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgaggtcttttaagtttcTtttgcaagaggaaatctcca	11	16	8	6	0	3	2	0	1	3	1	4	3	3	3	1	2	1	2	1	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:202136301T>C	uc002uxr.1	+	4	577	c.368T>C	c.(367-369)CTT>CCT	p.L123P	CASP8_uc010ftc.1_Missense_Mutation_p.L123P|CASP8_uc002uxo.1_Missense_Mutation_p.L123P|CASP8_uc002uxp.1_Missense_Mutation_p.L155P|CASP8_uc002uxq.1_Missense_Mutation_p.L123P|CASP8_uc002uxs.1_Missense_Mutation_p.L123P|CASP8_uc002uxt.1_Missense_Mutation_p.L182P|CASP8_uc002uxu.1_RNA|CASP8_uc010ftd.1_Missense_Mutation_p.L20P|CASP8_uc002uxv.1_Missense_Mutation_p.L123P|CASP8_uc002uxw.1_Missense_Mutation_p.L123P|CASP8_uc002uxy.1_Missense_Mutation_p.L123P|CASP8_uc002uxx.1_Missense_Mutation_p.L123P|CASP8_uc010ftf.2_Missense_Mutation_p.L123P|CASP8_uc010fte.1_Missense_Mutation_p.L20P	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	123	DED 2.				activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						TTTAAGTTTCTTTTGCAAGAG	0.418										HNSCC(4;0.00038)			4	63					0	0	1	0	0		C	202136301	C	C	202136301	3	2	27	1	0	0	0	0	1	0	0	0	2680	1609	56	3	655	3	CASP8	2	202136301	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	85512	202136301	41063072	1338	23689											
ALS2CR11	151254	broad.mit.edu	37	chr2	202483730	202483730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctccgaccctttaatgtGcatgatatccgggctgctgt	7	12	10	12	2	0	1	0	1	0	0	2	2	2	1	4	1	3	3	4	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:202483730G>A	uc002uye.2	-	1	172	c.124C>T	c.(124-126)CAC>TAC	p.H42Y	ALS2CR11_uc002uyf.2_Missense_Mutation_p.H42Y|ALS2CR11_uc010fti.2_Missense_Mutation_p.H42Y	NM_152525	NP_689738	Q53TS8	AL2SA_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	42										large_intestine(1)|ovary(1)|skin(1)	3						CCTTTAATGTGCATGATATCC	0.602													6	77					0	0	1	0	0		A	202483730	A	A	202483730	3	1	27	1	0	0	0	0	1	0	0	0	552	1319	46	2	5549	2	ALS2CR11	2	202483730	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	347429	202483730	40715643	1339	23690											
MPP4	58538	broad.mit.edu	37	chr2	202510022	202510022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggcagacaacaactgggCacatgcatcgtgcaagctgt	12	8	11	10	1	0	1	0	0	0	1	1	1	0	1	0	2	5	5	0	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:202510022C>T	uc002uyk.3	-	22	2033	c.1825G>A	c.(1825-1827)GCC>ACC	p.A609T	ALS2CR4_uc002uyg.1_5'Flank|ALS2CR4_uc002uyh.1_5'Flank|MPP4_uc002uyi.3_Missense_Mutation_p.A227T|MPP4_uc010ftj.2_Missense_Mutation_p.A602T|MPP4_uc010zhq.1_Missense_Mutation_p.A578T|MPP4_uc010zhr.1_Missense_Mutation_p.A585T|MPP4_uc010zhs.1_Missense_Mutation_p.A534T|MPP4_uc002uyj.3_Missense_Mutation_p.A574T|MPP4_uc010zht.1_Missense_Mutation_p.A551T|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.A565T	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	609	Guanylate kinase-like.|Potential.					cytoplasm	protein binding				0						AACAACTGGGCACATGCATCG	0.443													6	74					0	0	1	0	0		T	202510022	T	T	202510022	3	4	27	1	0	0	0	0	1	0	0	0	9754	710	25	2	92	2	MPP4	2	202510022	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	26292	202510022	40689351	1340	23691											
ALS2	57679	broad.mit.edu	37	chr2	202588154	202588154	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttgccacattcccatatActtttcccccctgcacagaa	10	12	3	16	0	1	1	0	0	1	1	3	1	3	1	5	0	3	1	5	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:202588154A>G	uc002uyo.2	-	22	3879	c.3523T>C	c.(3523-3525)TAT>CAT	p.Y1175H	ALS2_uc002uyp.3_Missense_Mutation_p.Y1175H|ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	1175	MORN 6.				cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						ATTCCCATATACTTTTCCCCC	0.398													9	118					0	0	1	0	0		G	202588154	G	G	202588154	3	3	27	1	0	0	0	0	1	0	0	0	550	391	14	3	1502	3	ALS2	2	202588154	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	78132	202588154	40611219	1341	23692											
NOP58	51602	broad.mit.edu	37	chr2	203160406	203160406	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttttgtaggttctctttTaaatttggccaagcatgcag	8	18	8	7	0	2	0	0	0	2	0	3	0	2	0	1	2	2	4	1	2	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:203160406T>C	uc002uzb.2	+	10	1067	c.917T>C	c.(916-918)TTA>TCA	p.L306S		NM_015934	NP_057018	Q9Y2X3	NOP58_HUMAN	NOP58 ribonucleoprotein homolog	306	Nop.				cell growth|rRNA processing|snRNP protein import into nucleus	box C/D snoRNP complex|Cajal body|cytoplasm|pre-snoRNP complex	protein binding|snoRNA binding				0						GGTTCTCTTTTAAATTTGGCC	0.388													11	155					0	0	1	0	0		C	203160406	C	C	203160406	3	2	27	1	0	0	0	0	1	0	0	0	10559	1764	61	3	955	3	NOP58	2	203160406	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	572252	203160406	40038967	1342	23693											
FAM117B	150864	broad.mit.edu	37	chr2	203630429	203630429	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcgaggaacaagtacagTcatgccatcagcttctctac	11	10	7	13	1	4	0	2	0	2	0	6	2	4	1	1	1	5	2	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:203630429T>C	uc010zhx.1	+	8	1722	c.1712T>C	c.(1711-1713)GTC>GCC	p.V571A		NM_173511	NP_775782	Q6P1L5	F117B_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	571										ovary(1)	1						ACAAGTACAGTCATGCCATCA	0.522													4	69					0	0	1	0	0		C	203630429	C	C	203630429	3	2	27	1	0	0	0	0	1	0	0	0	5421	1667	58	3	1742	3	FAM117B	2	203630429	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	470023	203630429	39568944	1343	23694											
ICA1L	130026	broad.mit.edu	37	chr2	203693595	203693595	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttagcatccagttcagcAtcagacgccaccaagtgctc	11	9	8	13	1	2	1	2	0	0	1	4	1	3	1	3	0	3	5	3	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:203693595A>G	uc002uzh.1	-	3	302	c.138T>C	c.(136-138)GAT>GAC	p.D46D	ICA1L_uc002uzi.1_Silent_p.D46D|ICA1L_uc002uzj.2_Silent_p.D46D|ICA1L_uc002uzk.1_Silent_p.D46D	NM_138468	NP_612477	Q8NDH6	ICA1L_HUMAN	islet cell autoantigen 1,69kDa-like isoform 1	46	AH.										0						CCAGTTCAGCATCAGACGCCA	0.403													12	112					0	0	1	0	0		G	203693595	G	G	203693595	2	3	27	1	0	0	0	0	0	0	0	1	7494	214	8	3		3	ICA1L	2	203693595	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	63166	203693595	39505778	1344	23695											
RAPH1	65059	broad.mit.edu	37	chr2	204305854	204305854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgcatcactgggggtgttgGcggcttaaacagggcccctg	6	9	15	11	1	1	0	1	0	0	0	1	0	1	0	2	5	2	3	2	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:204305854G>A	uc002vad.2	-	14	2284	c.2059C>T	c.(2059-2061)CCA>TCA	p.P687S		NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	687					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10						GGGGGTGTTGGCGGCTTAAAC	0.458													9	68					0	0	1	0	0		A	204305854	A	A	204305854	3	1	27	1	0	0	0	0	1	0	0	0	13075	1203	42	2	1697	2	RAPH1	2	204305854	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	612259	204305854	38893519	1345	23696											
RAPH1	65059	broad.mit.edu	37	chr2	204309652	204309652	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagaatacggagctcacaAtgctctgggaacggacgtgt	12	7	13	9	3	2	1	1	0	1	1	2	5	2	4	0	3	4	2	0	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:204309652A>C	uc002vad.2	-	13	1940	c.1715T>G	c.(1714-1716)ATT>AGT	p.I572S	RAPH1_uc002vae.2_Missense_Mutation_p.I624S|RAPH1_uc002vaf.2_Missense_Mutation_p.I624S	NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	572					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10						GGAGCTCACAATGCTCTGGGA	0.453													8	112					0	0	1	0	0		C	204309652	C	C	204309652	3	2	27	1	0	0	0	0	1	0	0	0	13075	101	4	5	2052	5	RAPH1	2	204309652	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3798	204309652	38889721	1346	23697											
PARD3B	117583	broad.mit.edu	37	chr2	205986606	205986606	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaaccatcctctccctcActctcgcctctcatgggatt	8	11	6	16	1	4	0	2	0	3	0	8	2	5	2	4	2	1	0	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:205986606A>G	uc002var.1	+	8	1305	c.1098A>G	c.(1096-1098)TCA>TCG	p.S366S	PARD3B_uc010fub.1_Silent_p.S366S|PARD3B_uc002vao.1_Silent_p.S366S|PARD3B_uc002vap.1_Silent_p.S366S|PARD3B_uc002vaq.1_Silent_p.S366S	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	366					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		CCTCTCCCTCACTCTCGCCTC	0.418													4	55					0	0	1	0	0		G	205986606	G	G	205986606	2	3	27	1	0	0	0	0	0	0	0	1	11463	146	6	3		3	PARD3B	2	205986606	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1676954	205986606	37212767	1347	23698											
NDUFS1	4719	broad.mit.edu	37	chr2	207011675	207011675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catagggcttagaggttaggGcacctacagggcagatatca	12	8	13	8	0	1	2	1	0	0	2	1	2	1	2	1	4	1	4	1	4	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:207011675G>A	uc002vbe.2	-	8	816	c.689C>T	c.(688-690)GCC>GTC	p.A230V	NDUFS1_uc010ziq.1_Missense_Mutation_p.A244V|NDUFS1_uc010zir.1_Missense_Mutation_p.A194V|NDUFS1_uc010zis.1_Missense_Mutation_p.A173V|NDUFS1_uc010zit.1_Missense_Mutation_p.A119V|NDUFS1_uc010ziu.1_Missense_Mutation_p.A114V	NM_005006	NP_004997	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1,	230					apoptosis|ATP metabolic process|mitochondrial electron transport, NADH to ubiquinone|reactive oxygen species metabolic process|regulation of mitochondrial membrane potential|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	AGAGGTTAGGGCACCTACAGG	0.388													9	67					0	0	1	0	0		A	207011675	A	A	207011675	3	1	27	1	0	0	0	0	1	0	0	0	10310	1203	42	2	1542	2	NDUFS1	2	207011675	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1025069	207011675	36187698	1348	23699											
ZDBF2	57683	broad.mit.edu	37	chr2	207173626	207173626	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgaaataaaatgtcattcTtgtgttcatcttcagtcaga	12	16	6	7	0	7	2	4	1	3	1	7	2	7	2	0	0	0	1	0	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:207173626T>G	uc002vbp.2	+	5	4624	c.4374T>G	c.(4372-4374)TCT>TCG	p.S1458S		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1458							nucleic acid binding|zinc ion binding			ovary(3)	3						AATGTCATTCTTGTGTTCATC	0.378													4	46					0	0	1	0	0		G	207173626	G	G	207173626	2	3	27	1	0	0	0	0	0	0	0	1	17624	1596	56	5		5	ZDBF2	2	207173626	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	161951	207173626	36025747	1349	23700											
ZDBF2	57683	broad.mit.edu	37	chr2	207174279	207174279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagacacttctcatcgaaCgactcaccgactgcagaaag	14	6	9	12	3	2	2	2	0	1	2	4	6	2	3	1	1	2	1	1	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:207174279C>T	uc002vbp.2	+	5	5277	c.5027C>T	c.(5026-5028)ACG>ATG	p.T1676M		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1676							nucleic acid binding|zinc ion binding			ovary(3)	3						TCTCATCGAACGACTCACCGA	0.408													11	60					0	0	1	0	0		T	207174279	T	T	207174279	3	4	27	1	0	0	0	0	1	0	0	0	17624	536	19	1	5037	1	ZDBF2	2	207174279	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	653	207174279	36025094	1350	23701											
ADAM23	8745	broad.mit.edu	37	chr2	207429771	207429771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgcacagaatcctggggtgGctgcatcatggaggaaacag	11	7	14	9	0	1	1	1	0	0	1	2	3	2	3	1	5	3	3	1	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:207429771G>A	uc002vbq.2	+	14	1596	c.1373G>A	c.(1372-1374)GGC>GAC	p.G458D	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	458	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		TCCTGGGGTGGCTGCATCATG	0.373													5	80					0	0	1	0	0		A	207429771	A	A	207429771	3	1	27	1	0	0	0	0	1	0	0	0	245	1203	42	2	1427	2	ADAM23	2	207429771	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	255492	207429771	35769602	1351	23702											
DYTN	391475	broad.mit.edu	37	chr2	207530748	207530748	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attggtttaactgttttttaAggagcctgaaaagagaacag	14	13	10	4	0	0	2	0	1	0	1	0	4	0	3	1	2	3	2	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:207530748A>C	uc002vbr.1	-	10	1103	c.986T>G	c.(985-987)CTT>CGT	p.L329R		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	329	Potential.					plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		CTGTTTTTTAAGGAGCCTGAA	0.403													6	74					0	0	1	0	0		C	207530748	C	C	207530748	3	2	27	1	0	0	0	0	1	0	0	0	4867	72	3	5	762	5	DYTN	2	207530748	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	100977	207530748	35668625	1352	23703											
CPO	130749	broad.mit.edu	37	chr2	207825666	207825666	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcaatgcatcttggtgtAgtaagtacatgcttagtaga	12	15	9	5	0	2	1	1	0	1	1	2	1	2	1	0	1	3	6	0	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:207825666A>G	uc002vby.2	+	6	620	c.574A>G	c.(574-576)AGT>GGT	p.S192G		NM_173077	NP_775100	Q8IVL8	CBPO_HUMAN	carboxypeptidase O precursor	192					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				LUSC - Lung squamous cell carcinoma(261;0.0744)|Epithelial(149;0.0807)|Lung(261;0.142)		ATCTTGGTGTAGTAAGTACAT	0.343													9	130					0	0	1	0	0		G	207825666	G	G	207825666	3	3	27	1	0	0	0	0	1	0	0	0	3823	434	15	3	596	3	CPO	2	207825666	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	294918	207825666	35373707	1353	23704											
CREB1	1385	broad.mit.edu	37	chr2	208432253	208432253	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtaactgattcccaaaagCgaagggaaattctttcaagg	14	10	10	7	1	2	1	1	1	1	0	3	3	3	2	1	2	2	1	1	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:208432253C>T	uc002vcc.2	+	5	621	c.370C>T	c.(370-372)CGA>TGA	p.R124*	CREB1_uc010ziz.1_Nonsense_Mutation_p.R108*|CREB1_uc002vcd.2_Nonsense_Mutation_p.R110*|CREB1_uc010zja.1_RNA	NM_134442	NP_604391	P16220	CREB1_HUMAN	cAMP responsive element binding protein 1	124	KID.				activation of phospholipase C activity|axon guidance|innate immune response|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein dimerization activity|transcription cofactor activity		EWSR1/CREB1(42)	soft_tissue(42)|breast(1)|central_nervous_system(1)	44				LUSC - Lung squamous cell carcinoma(261;0.0768)|Epithelial(149;0.127)|Lung(261;0.145)	Adenosine monophosphate(DB00131)|Bromocriptine(DB01200)|Naloxone(DB01183)	TTCCCAAAAGCGAAGGGAAAT	0.353			T	EWSR1	clear cell sarcoma|angiomatoid fibrous histiocytoma								8	32					0	0	1	0	0		T	208432253	T	T	208432253	4	4	27	1	0	0	0	0	0	1	0	0	3857	760	27	1	384	1	CREB1	2	208432253	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	606587	208432253	34767120	1354	23705											
PLEKHM3	389072	broad.mit.edu	37	chr2	208841586	208841586	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagagcctccatccattcCtgagccctctgtcgggtctc	5	12	8	16	1	3	2	1	1	2	1	8	2	6	2	5	1	2	0	5	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:208841586C>A	uc002vcl.2	-	3	1825	c.1335G>T	c.(1333-1335)CAG>CAT	p.Q445H	PLEKHM3_uc002vcm.2_Missense_Mutation_p.Q445H	NM_001080475	NP_001073944	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M,	445	PH 2.				intracellular signal transduction		metal ion binding			ovary(1)	1						CCATCCATTCCTGAGCCCTCT	0.537													8	56					3.09899e-07	3.3784e-07	1	1	0		A	208841586	A	A	208841586	3	1	27	1	0	0	0	0	1	0	0	0	12101	680	24	5	974	5	PLEKHM3	2	208841586	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	409333	208841586	34357787	1355	23706											
CRYGC	1420	broad.mit.edu	37	chr2	208993087	208993087	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccagcacgtggagggaaCggatctcgctgaggtggaag	9	6	16	10	3	1	1	0	1	1	0	3	5	2	5	2	5	2	2	2	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:208993087C>T	uc002vco.3	-	3	403	c.365G>A	c.(364-366)CGT>CAT	p.R122H		NM_020989	NP_066269	P07315	CRGC_HUMAN	crystallin, gamma C	122	Beta/gamma crystallin 'Greek key' 3.				visual perception	cytoplasm|nucleus	protein binding|structural constituent of eye lens				0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.0858)|Lung(261;0.133)		GTGGAGGGAACGGATCTCGCT	0.632													8	59					0	0	1	0	0		T	208993087	T	T	208993087	3	4	27	1	0	0	0	0	1	0	0	0	3919	536	19	1	163	1	CRYGC	2	208993087	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	151501	208993087	34206286	1356	23707											
IDH1	3417	broad.mit.edu	37	chr2	209113132	209113132	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgacctatgatgataggtttTacccatccactcacaagccg	11	10	7	13	2	1	2	1	2	0	0	2	3	2	2	4	1	2	1	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:209113132T>C	uc002vcs.2	-	4	621	c.375A>G	c.(373-375)GTA>GTG	p.V125V	IDH1_uc002vct.2_Silent_p.V125V|IDH1_uc002vcu.2_Silent_p.V125V	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	125					2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity			central_nervous_system(2156)|haematopoietic_and_lymphoid_tissue(606)|bone(74)|thyroid(22)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2868				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		TGATAGGTTTTACCCATCCAC	0.418			Mis		gliobastoma 								6	86					0	0	1	0	0		C	209113132	C	C	209113132	2	2	27	1	0	0	0	0	0	0	0	1	7510	1741	61	3		3	IDH1	2	209113132	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	120045	209113132	34086241	1357	23708											
PIKFYVE	200576	broad.mit.edu	37	chr2	209165682	209165682	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgtgcagttaaaagacCtgtggaaaaaaatctgccat	16	9	9	7	0	1	1	0	0	1	1	1	2	1	2	2	1	2	2	2	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:209165682C>A	uc002vcz.2	+	9	1230	c.1072C>A	c.(1072-1074)CTG>ATG	p.L358M	PIKFYVE_uc010fun.1_Missense_Mutation_p.L39M|PIKFYVE_uc002vcy.1_Missense_Mutation_p.L358M|PIKFYVE_uc002vcv.2_Missense_Mutation_p.L261M|PIKFYVE_uc002vcw.2_Missense_Mutation_p.L358M|PIKFYVE_uc002vcx.2_Missense_Mutation_p.L272M	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	358					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						GTTAAAAGACCTGTGGAAAAA	0.403													5	70					0.000602214	0.000630257	1	1	0		A	209165682	A	A	209165682	3	1	27	1	0	0	0	0	1	0	0	0	11943	680	24	5	1102	5	PIKFYVE	2	209165682	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	52550	209165682	34033691	1358	23709											
PTH2R	5746	broad.mit.edu	37	chr2	209271804	209271804	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgtcgctccacgtctggggTtggctaatgctcggcagctg	4	10	15	12	4	1	0	0	0	1	0	4	0	2	0	1	4	2	6	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:209271804T>C	uc002vdb.2	+	1	249	c.36T>C	c.(34-36)GGT>GGC	p.G12G	PTH2R_uc010zjb.1_Intron	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	12						integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		ACGTCTGGGGTTGGCTAATGC	0.657													7	115					0	0	1	0	0		C	209271804	C	C	209271804	2	2	27	1	0	0	0	0	0	0	0	1	12783	1712	60	3		3	PTH2R	2	209271804	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	106122	209271804	33927569	1359	23710											
PTH2R	5746	broad.mit.edu	37	chr2	209307125	209307125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctctatgtaatgtataccGttggctactccatctctttt	7	17	6	11	1	2	0	0	0	2	0	4	0	3	0	3	1	2	4	3	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:209307125G>A	uc002vdb.2	+	5	661	c.448G>A	c.(448-450)GTT>ATT	p.V150I	PTH2R_uc010zjb.1_Missense_Mutation_p.V161I	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	150	Helical; Name=1; (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		AATGTATACCGTTGGCTACTC	0.418													19	187					0	0	1	0	0		A	209307125	A	A	209307125	3	1	27	1	0	0	0	0	1	0	0	0	12783	1145	40	1	466	1	PTH2R	2	209307125	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	35321	209307125	33892248	1360	23711											
PTH2R	5746	broad.mit.edu	37	chr2	209353840	209353840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggctcgggtgggagatcCgcatgcactgtgagctcttc	5	10	15	11	2	1	2	0	1	1	1	4	3	2	2	1	3	2	4	1	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:209353840C>T	uc002vdb.2	+	11	1393	c.1180C>T	c.(1180-1182)CGC>TGC	p.R394C	PTH2R_uc010zjb.1_Missense_Mutation_p.R405C|PTH2R_uc010fuo.1_RNA	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	394	Extracellular (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		GTGGGAGATCCGCATGCACTG	0.483													6	57					0	0	1	0	0		T	209353840	T	T	209353840	3	4	27	1	0	0	0	0	1	0	0	0	12783	652	23	1	1222	1	PTH2R	2	209353840	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	46715	209353840	33845533	1361	23712											
PTH2R	5746	broad.mit.edu	37	chr2	209353869	209353869	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgagctcttcttcaactcCtttcaggtaaagggtgctgc	7	14	10	10	0	4	1	2	1	2	0	5	1	5	1	1	2	4	3	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:209353869C>T	uc002vdb.2	+	11	1422	c.1209C>T	c.(1207-1209)TCC>TCT	p.S403S	PTH2R_uc010zjb.1_Silent_p.S414S|PTH2R_uc010fuo.1_RNA	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	403	Helical; Name=7; (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		TCTTCAACTCCTTTCAGGTAA	0.468													7	63					0	0	1	0	0		T	209353869	T	T	209353869	2	4	27	1	0	0	0	0	0	0	0	1	12783	668	24	4		4	PTH2R	2	209353869	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	29	209353869	33845504	1362	23713											
MAP2	4133	broad.mit.edu	37	chr2	210560092	210560092	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctaaacatagatgatagaagGgcaacagagctaaaacttga	19	7	9	6	0	0	5	0	2	0	3	0	5	0	5	0	1	4	2	0	1	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:210560092G>T	uc002vde.1	+	7	3446	c.3198G>T	c.(3196-3198)AGG>AGT	p.R1066S	MAP2_uc002vdc.1_Missense_Mutation_p.R1066S|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.R1062S	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1066					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	ATGATAGAAGGGCAACAGAGC	0.473													18	78					1.67942e-08	1.84707e-08	1	1	0		T	210560092	T	T	210560092	3	4	27	1	0	0	0	0	1	0	0	0	9253	1223	43	5	3212	5	MAP2	2	210560092	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1206223	210560092	32639281	1363	23714											
C2orf67	151050	broad.mit.edu	37	chr2	210887769	210887769	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatggtggccattctctggTacactggtaccgaagatttc	8	12	12	9	1	1	1	0	0	1	1	3	3	1	2	2	5	2	2	2	5	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:210887769T>C	uc002vds.2	-	15	3076	c.2868A>G	c.(2866-2868)GTA>GTG	p.V956V	C2orf67_uc002vdt.2_Silent_p.V914V	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	956										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		CATTCTCTGGTACACTGGTAC	0.408													5	92					0	0	1	0	0		C	210887769	C	C	210887769	2	2	27	1	0	0	0	0	0	0	0	1	2189	1625	57	3		3	C2orf67	2	210887769	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	327677	210887769	32311604	1364	23715											
C2orf67	151050	broad.mit.edu	37	chr2	210892042	210892042	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctttgcctaaattatatTcatccaaaggctgaagaaca	14	13	5	9	0	2	2	1	1	1	1	3	2	3	2	2	1	2	1	2	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:210892042T>C	uc002vds.2	-	12	2637	c.2429A>G	c.(2428-2430)GAA>GGA	p.E810G	C2orf67_uc002vdt.2_Missense_Mutation_p.E768G	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	810										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		TAAATTATATTCATCCAAAGG	0.328													9	89					0	0	1	0	0		C	210892042	C	C	210892042	3	2	27	1	0	0	0	0	1	0	0	0	2189	1783	62	3	550	3	C2orf67	2	210892042	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4273	210892042	32307331	1365	23716											
C2orf67	151050	broad.mit.edu	37	chr2	210896271	210896271	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgattcagagtactatgtaCtaaaacaaatgaaaaggaaa	20	10	7	4	0	1	3	1	2	0	1	1	4	1	4	0	1	3	2	0	1	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:210896271C>G	uc002vds.2	-	9	2238	c.2030_splice	c.e9-1	p.V677_splice	C2orf67_uc002vdt.2_Intron|uc002vdu.1_Intron	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050											ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		GTACTATGTACTAAAACAAAT	0.318													6	123					0	0	1	0	0		G	210896271	G	G	210896271	5	3	27	1	0	0	0	0	0	0	1	0	2189	579	20	5	962	5	C2orf67	2	210896271	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4229	210896271	32303102	1366	23717											
LANCL1	10314	broad.mit.edu	37	chr2	211319880	211319880	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgttcatcttgtgatataGcacagcggccactgccaggg	9	11	11	10	1	2	1	1	1	1	0	2	1	2	1	2	2	3	2	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:211319880G>A	uc010zjh.1	-	4	433	c.358C>T	c.(358-360)CTA>TTA	p.L120L	LANCL1_uc002ved.2_Silent_p.L120L|LANCL1_uc010fuq.2_Silent_p.L120L	NM_001136574	NP_001130046	O43813	LANC1_HUMAN	lanthionine synthetase C-like protein 1	120						cytoplasm|integral to plasma membrane|microtubule cytoskeleton|nucleus	catalytic activity|G-protein coupled receptor activity|glutathione binding|low-density lipoprotein particle receptor binding|SH3 domain binding|zinc ion binding				0				Epithelial(149;0.00562)|Lung(261;0.0468)|LUSC - Lung squamous cell carcinoma(261;0.0495)|all cancers(144;0.0569)		TTGTGATATAGCACAGCGGCC	0.443													14	97					0	0	1	0	0		A	211319880	A	A	211319880	2	1	27	1	0	0	0	0	0	0	0	1	8636	962	34	2		2	LANCL1	2	211319880	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	423609	211319880	31879493	1367	23718											
ERBB4	2066	broad.mit.edu	37	chr2	212293210	212293210	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatccatttaattggcatcTatagagaagtaagaagtaaa	17	11	7	6	0	1	2	0	0	1	2	2	3	2	2	2	1	0	3	2	1	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:212293210T>A	uc002veg.1	-	22	2742	c.2644_splice	c.e22-1	p.M882_splice	ERBB4_uc002veh.1_Splice_Site_p.M882_splice|ERBB4_uc010zji.1_Splice_Site_p.M872_splice|ERBB4_uc010zjj.1_Splice_Site_p.M872_splice	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene						cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		AATTGGCATCTATAGAGAAGT	0.318										TSP Lung(8;0.080)			11	96					0	0	1	0	0		A	212293210	A	A	212293210	5	1	27	1	0	0	0	0	0	0	1	0	5217	1536	53	5	1312	5	ERBB4	2	212293210	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	973330	212293210	30906163	1368	23719											
ERBB4	2066	broad.mit.edu	37	chr2	212570080	212570080	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgaaagacgttcagtttCtctgggtctatggcttcaat	8	14	10	9	2	4	1	2	0	2	1	6	2	5	1	1	2	0	3	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:212570080C>A	uc002veg.1	-	10	1259	c.1161G>T	c.(1159-1161)GAG>GAT	p.E387D	ERBB4_uc002veh.1_Missense_Mutation_p.E387D|ERBB4_uc010zji.1_Missense_Mutation_p.E387D|ERBB4_uc010zjj.1_Missense_Mutation_p.E387D|ERBB4_uc010fut.1_Missense_Mutation_p.E387D	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	387	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CGTTCAGTTTCTCTGGGTCTA	0.323										TSP Lung(8;0.080)			8	119					1.12685e-05	1.21022e-05	1	1	0		A	212570080	A	A	212570080	3	1	27	1	0	0	0	0	1	0	0	0	5217	912	32	5	2841	5	ERBB4	2	212570080	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	276870	212570080	30629293	1369	23720											
IKZF2	22807	broad.mit.edu	37	chr2	213914553	213914553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttatgtgtctcagaaggttgCccttctgagtaaaagaagct	11	13	10	7	0	2	3	1	1	2	2	3	3	2	3	1	1	2	3	1	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:213914553C>T	uc002vem.2	-	5	627	c.458G>A	c.(457-459)GGC>GAC	p.G153D	IKZF2_uc010fuu.2_Intron|IKZF2_uc002vej.2_Missense_Mutation_p.G100D|IKZF2_uc002vek.2_RNA|IKZF2_uc010fuv.2_Missense_Mutation_p.G127D|IKZF2_uc002vel.2_Missense_Mutation_p.G74D|IKZF2_uc010fuw.2_5'UTR|IKZF2_uc010fux.2_5'UTR|IKZF2_uc010fuy.2_Missense_Mutation_p.G127D|IKZF2_uc002ven.2_Missense_Mutation_p.G127D	NM_016260	NP_057344	Q9UKS7	IKZF2_HUMAN	helios isoform 1	153	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		CAGAAGGTTGCCCTTCTGAGT	0.483													7	31					0	0	1	0	0		T	213914553	T	T	213914553	3	4	27	1	0	0	0	0	1	0	0	0	7631	739	26	2	1138	2	IKZF2	2	213914553	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1344473	213914553	29284820	1370	23721											
SPAG16	79582	broad.mit.edu	37	chr2	215275016	215275016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttttctggaggctctgacGgcacagttcgaacgtggtct	6	13	12	10	3	4	1	0	1	4	0	5	3	4	2	0	4	1	3	0	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:215275016G>A	uc002veq.2	+	16	1965	c.1873G>A	c.(1873-1875)GGC>AGC	p.G625S	SPAG16_uc002ver.2_Missense_Mutation_p.G571S|SPAG16_uc010zjk.1_Missense_Mutation_p.G531S|VWC2L_uc002vet.2_5'Flank|VWC2L_uc010zjl.1_5'Flank	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	625	WD 7.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		AGGCTCTGACGGCACAGTTCG	0.512													8	105					0	0	1	0	0		A	215275016	A	A	215275016	3	1	27	1	0	0	0	0	1	0	0	0	15003	1116	39	1	1951	1	SPAG16	2	215275016	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1360463	215275016	27924357	1371	23722											
ABCA12	26154	broad.mit.edu	37	chr2	215833442	215833442	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaaaaaagatcaaaatttAccttggcaagtgttctattg	16	12	7	6	0	2	2	1	0	1	2	2	2	2	2	1	1	1	2	1	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:215833442A>G	uc002vew.2	-	38	5998	c.5778_splice	c.e38+1	p.K1926_splice	ABCA12_uc002vev.2_Splice_Site_p.K1608_splice|ABCA12_uc010zjn.1_Splice_Site_p.K853_splice	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12						cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		ATCAAAATTTACCTTGGCAAG	0.353													11	143					0	0	1	0	0		G	215833442	G	G	215833442	5	3	27	1	0	0	0	0	0	0	1	0	30	405	14	3	2071	3	ABCA12	2	215833442	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	558426	215833442	27365931	1372	23723											
ABCA12	26154	broad.mit.edu	37	chr2	215847077	215847077	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccaactctcttatgacgAtggctatatagtccagtatc	10	14	7	10	1	1	1	0	1	1	0	5	2	3	1	2	1	1	3	2	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:215847077A>T	uc002vew.2	-	30	4633	c.4413T>A	c.(4411-4413)CAT>CAA	p.H1471Q	ABCA12_uc002vev.2_Missense_Mutation_p.H1153Q|ABCA12_uc010zjn.1_Missense_Mutation_p.H398Q	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1471	ABC transporter 1.				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TCTTATGACGATGGCTATATA	0.343													8	92					0	0	1	0	0		T	215847077	T	T	215847077	3	4	27	1	0	0	0	0	1	0	0	0	30	330	12	5	3470	5	ABCA12	2	215847077	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	13635	215847077	27352296	1373	23724											
ABCA12	26154	broad.mit.edu	37	chr2	215851381	215851381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatagatctttgtgacccCatgcagggcaaccccgactg	9	8	10	14	1	1	2	0	1	1	1	1	3	1	2	5	1	2	2	5	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:215851381C>T	uc002vew.2	-	28	4268	c.4048G>A	c.(4048-4050)GGG>AGG	p.G1350R	ABCA12_uc002vev.2_Missense_Mutation_p.G1032R|ABCA12_uc010zjn.1_Missense_Mutation_p.G277R	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1350	ABC transporter 1.				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TTTGTGACCCCATGCAGGGCA	0.453													6	80					0	0	1	0	0		T	215851381	T	T	215851381	3	4	27	1	0	0	0	0	1	0	0	0	30	594	21	4	3843	4	ABCA12	2	215851381	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4304	215851381	27347992	1374	23725											
ABCA12	26154	broad.mit.edu	37	chr2	215855563	215855563	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaagacactgataagatAgctcatggcaataaccgaga	18	6	10	7	1	1	5	1	1	0	4	1	7	1	5	1	1	2	2	1	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:215855563A>G	uc002vew.2	-	24	3707	c.3487T>C	c.(3487-3489)TAT>CAT	p.Y1163H	ABCA12_uc002vev.2_Missense_Mutation_p.Y845H|ABCA12_uc010zjn.1_Missense_Mutation_p.Y90H	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1163	Helical; (Potential).				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		CTGATAAGATAGCTCATGGCA	0.383													6	62					0	0	1	0	0		G	215855563	G	G	215855563	3	3	27	1	0	0	0	0	1	0	0	0	30	420	15	3	4420	3	ABCA12	2	215855563	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4182	215855563	27343810	1375	23726											
ABCA12	26154	broad.mit.edu	37	chr2	215901775	215901775	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtggataaaccttctgcAcaaccagcagcacactaagg	15	6	8	12	1	1	0	0	0	1	0	1	1	1	1	2	2	6	3	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:215901775A>G	uc002vew.2	-	8	1107	c.887T>C	c.(886-888)GTG>GCG	p.V296A	ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	296					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity	p.V296V(1)		ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		AACCTTCTGCACAACCAGCAG	0.423													7	67					0	0	1	0	0		G	215901775	G	G	215901775	3	3	27	1	0	0	0	0	1	0	0	0	30	159	6	3	7115	3	ABCA12	2	215901775	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	46212	215901775	27297598	1376	23727											
ABCA12	26154	broad.mit.edu	37	chr2	215928846	215928846	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagcagatcttgtgggccaTagggtgtgtctttgcattta	8	14	13	6	0	2	1	0	0	2	1	2	2	2	1	1	2	2	2	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:215928846T>C	uc002vew.2	-	3	480	c.260A>G	c.(259-261)TAT>TGT	p.Y87C	ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	87					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TTGTGGGCCATAGGGTGTGTC	0.453													10	100					0	0	1	0	0		C	215928846	C	C	215928846	3	2	27	1	0	0	0	0	1	0	0	0	30	1406	49	3	7762	3	ABCA12	2	215928846	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	27071	215928846	27270527	1377	23728											
ATIC	471	broad.mit.edu	37	chr2	216184396	216184396	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttaaattaggaatcctaGctcgtaatattccagaagat	14	15	6	6	1	0	2	0	0	0	2	3	3	2	3	2	1	1	2	2	1	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:216184396G>T	uc002vex.3	+	4	406	c.232G>T	c.(232-234)GCT>TCT	p.A78S	ATIC_uc010zjo.1_Missense_Mutation_p.A19S|ATIC_uc002vey.3_Missense_Mutation_p.A77S	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	78					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity		ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	AGGAATCCTAGCTCGTAATAT	0.299			T	ALK	ALCL								4	56					0.00909568	0.0093211	1	1	0		T	216184396	T	T	216184396	3	4	27	1	0	0	0	0	1	0	0	0	1106	971	34	5	246	5	ATIC	2	216184396	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	255550	216184396	27014977	1378	23729											
ATIC	471	broad.mit.edu	37	chr2	216211630	216211630	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagagcagaaatctccaatgCcatcgatcaatatgtgactg	14	9	9	9	1	2	3	1	1	1	2	4	5	2	3	2	0	2	1	2	0	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:216211630C>T	uc002vex.3	+	14	1643	c.1469C>T	c.(1468-1470)GCC>GTC	p.A490V	ATIC_uc010zjo.1_Missense_Mutation_p.A431V|ATIC_uc002vey.3_Missense_Mutation_p.A489V	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	490					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity		ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	ATCTCCAATGCCATCGATCAA	0.433			T	ALK	ALCL								10	68					0	0	1	0	0		T	216211630	T	T	216211630	3	4	27	1	0	0	0	0	1	0	0	0	1106	739	26	2	1523	2	ATIC	2	216211630	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	27234	216211630	26987743	1379	23730											
FN1	2335	broad.mit.edu	37	chr2	216241350	216241350	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccagctaatggtgatggTggtctcagtagcatctgtca	8	13	11	9	0	4	1	2	1	3	0	6	1	4	1	1	3	2	3	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:216241350T>C	uc002vfa.2	-	36	6024	c.5758A>G	c.(5758-5760)ACC>GCC	p.T1920A	FN1_uc002vfb.2_Missense_Mutation_p.T1739A|FN1_uc002vfc.2_Missense_Mutation_p.T1739A|FN1_uc002vfd.2_Missense_Mutation_p.T1920A|FN1_uc002vfe.2_Missense_Mutation_p.T1829A|FN1_uc002vff.2_Missense_Mutation_p.T1829A|FN1_uc002vfg.2_Missense_Mutation_p.T1739A|FN1_uc002vfh.2_Missense_Mutation_p.T1739A|FN1_uc002vfi.2_Missense_Mutation_p.T1920A|FN1_uc002vfj.2_Missense_Mutation_p.T1830A|FN1_uc002vez.2_Missense_Mutation_p.T114A|FN1_uc010zjp.1_Missense_Mutation_p.T457A|FN1_uc002vfk.1_RNA|FN1_uc010fva.1_RNA|FN1_uc010fvb.1_RNA|FN1_uc010fvc.1_Missense_Mutation_p.T282A|FN1_uc010fvd.1_Intron	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATGGTGATGGTGGTCTCAGTA	0.512													5	86					0	0	1	0	0		C	216241350	C	C	216241350	3	2	27	1	0	0	0	0	1	0	0	0	5976	1696	59	3	1719	3	FN1	2	216241350	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	29720	216241350	26958023	1380	23731											
FN1	2335	broad.mit.edu	37	chr2	216245532	216245532	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtggtgcaattaaccatatAcctgtggactgggttccaat	10	12	11	8	0	0	0	0	0	0	0	1	1	1	1	3	4	3	2	3	4	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:216245532A>T	uc002vfa.2	-	33	5700	c.5434_splice	c.e33+1	p.A1812_splice	FN1_uc002vfb.2_Intron|FN1_uc002vfc.2_Intron|FN1_uc002vfd.2_Splice_Site_p.A1812_splice|FN1_uc002vfe.2_Splice_Site_p.A1721_splice|FN1_uc002vff.2_Splice_Site_p.A1721_splice|FN1_uc002vfg.2_Intron|FN1_uc002vfh.2_Intron|FN1_uc002vfi.2_Splice_Site_p.A1812_splice|FN1_uc002vfj.2_Intron|FN1_uc002vez.2_5'UTR|FN1_uc010zjp.1_Intron|FN1_uc002vfk.1_5'Flank|FN1_uc010fva.1_5'Flank|FN1_uc010fvb.1_5'Flank|FN1_uc010fvc.1_Splice_Site_p.A174_splice|FN1_uc010fvd.1_Intron	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein						acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTAACCATATACCTGTGGACT	0.527													11	220					0	0	1	0	0		T	216245532	T	T	216245532	5	4	27	1	0	0	0	0	0	0	1	0	5976	405	14	5	2053	5	FN1	2	216245532	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4182	216245532	26953841	1381	23732											
FN1	2335	broad.mit.edu	37	chr2	216269191	216269191	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatacggtgtactcagatgcAggctgcagattcctcagtgg	9	10	13	9	1	2	2	2	0	0	2	3	3	3	2	1	3	4	4	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:216269191A>G	uc002vfa.2	-	20	3440	c.3174T>C	c.(3172-3174)CCT>CCC	p.P1058P	FN1_uc002vfb.2_Silent_p.P1058P|FN1_uc002vfc.2_Silent_p.P1058P|FN1_uc002vfd.2_Silent_p.P1058P|FN1_uc002vfe.2_Silent_p.P1058P|FN1_uc002vff.2_Silent_p.P1058P|FN1_uc002vfg.2_Silent_p.P1058P|FN1_uc002vfh.2_Silent_p.P1058P|FN1_uc002vfi.2_Silent_p.P1058P|FN1_uc002vfj.2_Silent_p.P1058P	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1058	|Fibronectin type-III 5.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACTCAGATGCAGGCTGCAGAT	0.547													9	98					0	0	1	0	0		G	216269191	G	G	216269191	2	3	27	1	0	0	0	0	0	0	0	1	5976	175	7	3		3	FN1	2	216269191	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	23659	216269191	26930182	1382	23733											
FN1	2335	broad.mit.edu	37	chr2	216272839	216272839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgcttagctgacctgtgatgGgagcctggggtctgctccag	5	10	15	11	1	1	2	0	2	1	0	2	3	2	3	3	3	3	3	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:216272839G>A	uc002vfa.2	-	17	2776	c.2510C>T	c.(2509-2511)CCC>CTC	p.P837L	FN1_uc002vfb.2_Missense_Mutation_p.P837L|FN1_uc002vfc.2_Missense_Mutation_p.P837L|FN1_uc002vfd.2_Missense_Mutation_p.P837L|FN1_uc002vfe.2_Missense_Mutation_p.P837L|FN1_uc002vff.2_Missense_Mutation_p.P837L|FN1_uc002vfg.2_Missense_Mutation_p.P837L|FN1_uc002vfh.2_Missense_Mutation_p.P837L|FN1_uc002vfi.2_Missense_Mutation_p.P837L|FN1_uc002vfj.2_Missense_Mutation_p.P837L	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	837	Fibronectin type-III 3.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACCTGTGATGGGAGCCTGGGG	0.527													21	87					0	0	1	0	0		A	216272839	A	A	216272839	3	1	27	1	0	0	0	0	1	0	0	0	5976	1232	43	4	5043	4	FN1	2	216272839	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3648	216272839	26926534	1383	23734											
FN1	2335	broad.mit.edu	37	chr2	216273076	216273076	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccatcctcagatatctgAtagacatttacaatgtattt	12	15	4	10	0	2	3	1	1	1	2	4	3	4	3	3	0	1	1	3	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:216273076A>T	uc002vfa.2	-	16	2639	c.2373T>A	c.(2371-2373)TAT>TAA	p.Y791*	FN1_uc002vfb.2_Nonsense_Mutation_p.Y791*|FN1_uc002vfc.2_Nonsense_Mutation_p.Y791*|FN1_uc002vfd.2_Nonsense_Mutation_p.Y791*|FN1_uc002vfe.2_Nonsense_Mutation_p.Y791*|FN1_uc002vff.2_Nonsense_Mutation_p.Y791*|FN1_uc002vfg.2_Nonsense_Mutation_p.Y791*|FN1_uc002vfh.2_Nonsense_Mutation_p.Y791*|FN1_uc002vfi.2_Nonsense_Mutation_p.Y791*|FN1_uc002vfj.2_Nonsense_Mutation_p.Y791*	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	791	Fibronectin type-III 2.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAGATATCTGATAGACATTTA	0.388													5	66					0	0	1	0	0		T	216273076	T	T	216273076	4	4	27	1	0	0	0	0	0	1	0	0	5976	340	12	5	5184	5	FN1	2	216273076	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	237	216273076	26926297	1384	23735											
MREG	55686	broad.mit.edu	37	chr2	216810365	216810365	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtttcttcagccagttttaAcaacatctctcgagctttcc	8	15	6	12	1	3	0	1	0	2	0	6	1	4	0	2	1	4	3	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:216810365A>G	uc002vfo.2	-	4	735	c.439T>C	c.(439-441)TTA>CTA	p.L147L	MREG_uc002vfq.2_RNA	NM_018000	NP_060470	Q8N565	MREG_HUMAN	whn-dependent transcript 2	147						apical plasma membrane					0		Renal(323;0.0328)		Epithelial(149;4.64e-07)|all cancers(144;5.56e-05)|LUSC - Lung squamous cell carcinoma(224;0.00832)|Lung(261;0.0111)		GCCAGTTTTAACAACATCTCT	0.393													7	86					0	0	1	0	0		G	216810365	G	G	216810365	2	3	27	1	0	0	0	0	0	0	0	1	9778	40	2	3		3	MREG	2	216810365	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	537289	216810365	26389008	1385	23736											
XRCC5	7520	broad.mit.edu	37	chr2	216981555	216981555	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatccaaccaggttctcaAcaggctgactgtatcctttt	12	12	6	11	0	1	1	1	1	1	0	4	1	3	1	3	2	2	3	3	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:216981555A>G	uc002vfy.2	+	3	449	c.309A>G	c.(307-309)CAA>CAG	p.Q103Q	XRCC5_uc002vfz.2_5'Flank	NM_021141	NP_066964	P13010	XRCC5_HUMAN	ATP-dependent DNA helicase II	103					double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|provirus integration|telomere maintenance|transcription, DNA-dependent	Ku70:Ku80 complex|nonhomologous end joining complex|nuclear telomere cap complex|nucleoplasm	ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|telomeric DNA binding|transcription regulatory region DNA binding			lung(1)|kidney(1)	2		Renal(323;0.0328)		Epithelial(149;9.78e-06)|all cancers(144;0.000632)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.0117)		CAGGTTCTCAACAGGCTGACT	0.433								Direct_reversal_of_damage|NHEJ					26	85					0	0	1	0	0		G	216981555	G	G	216981555	2	3	27	1	0	0	0	0	0	0	0	1	17482	40	2	3		3	XRCC5	2	216981555	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	171190	216981555	26217818	1386	23737											
SMARCAL1	50485	broad.mit.edu	37	chr2	217280157	217280157	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagggaaagtgcgtaaggAacggcgatcgtttccaggtg	12	7	16	6	4	0	1	0	0	0	1	2	4	1	3	1	4	2	2	1	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:217280157A>G	uc002vgc.3	+	3	1060	c.730A>G	c.(730-732)AAC>GAC	p.N244D	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.N244D|SMARCAL1_uc010fvg.2_Missense_Mutation_p.N244D	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	244					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		GTGCGTAAGGAACGGCGATCG	0.478									Schimke_Immuno-Osseous_Dysplasia				13	149					0	0	1	0	0		G	217280157	G	G	217280157	3	3	27	1	0	0	0	0	1	0	0	0	14798	246	9	3	732	3	SMARCAL1	2	217280157	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	298602	217280157	25919216	1387	23738											
IGFBP5	3488	broad.mit.edu	37	chr2	217542921	217542921	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggctggctttgagctcctGcagggaagcctccatgtgtc	5	11	14	11	0	0	1	0	1	0	0	3	2	2	2	3	3	3	4	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:217542921G>A	uc002vgj.3	-	3	1375	c.601C>T	c.(601-603)CAG>TAG	p.Q201*		NM_000599	NP_000590	P24593	IBP5_HUMAN	insulin-like growth factor binding protein 5	201	Thyroglobulin type-1.				negative regulation of insulin-like growth factor receptor signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of translation|signal transduction		insulin-like growth factor I binding				0		Renal(323;0.0822)		Epithelial(149;2.1e-06)|all cancers(144;0.000165)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TTGAGCTCCTGCAGGGAAGCC	0.612													4	73					0	0	1	0	0		A	217542921	A	A	217542921	4	1	27	1	0	0	0	0	0	1	0	0	7598	1328	46	2	225	2	IGFBP5	2	217542921	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	262764	217542921	25656452	1388	23739											
TNS1	7145	broad.mit.edu	37	chr2	218669296	218669296	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcgttgtccgtggtgctGccctgcttccgggccacgaa	4	9	14	14	4	0	0	0	0	0	0	2	1	2	0	4	3	3	3	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:218669296G>A	uc002vgt.2	-	33	5492	c.5094C>T	c.(5092-5094)GGC>GGT	p.G1698G	TNS1_uc002vgr.2_Silent_p.G1684G|TNS1_uc002vgs.2_Silent_p.G1677G|TNS1_uc002vgq.2_Silent_p.G198G	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1698						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		CCGTGGTGCTGCCCTGCTTCC	0.642													17	55					0	0	1	0	0		A	218669296	A	A	218669296	2	1	27	1	0	0	0	0	0	0	0	1	16368	1306	46	2		2	TNS1	2	218669296	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1126375	218669296	24530077	1389	23740											
TNS1	7145	broad.mit.edu	37	chr2	218712549	218712549	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggctcaggggttcccaaCgaatgcccactggggatata	9	8	13	11	1	1	0	1	0	0	0	2	2	2	1	2	5	2	3	2	5	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:218712549C>T	uc002vgt.2	-	17	2714	c.2316G>A	c.(2314-2316)TCG>TCA	p.S772S	TNS1_uc002vgr.2_Silent_p.S772S|TNS1_uc002vgs.2_Silent_p.S772S|TNS1_uc010zjv.1_Silent_p.S772S|TNS1_uc010fvj.1_Silent_p.S840S|TNS1_uc010fvk.1_Silent_p.S897S|TNS1_uc010fvi.1_Silent_p.S459S	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	772						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GGGTTCCCAACGAATGCCCAC	0.602													11	27					0	0	1	0	0		T	218712549	T	T	218712549	2	4	27	1	0	0	0	0	0	0	0	1	16368	523	19	1		1	TNS1	2	218712549	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	43253	218712549	24486824	1390	23741											
CXCR2	3579	broad.mit.edu	37	chr2	218999581	218999581	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttctggaaaggtgaagaTcttagtaattacagttacag	14	13	10	4	0	2	2	0	1	2	1	2	4	2	3	0	2	2	2	0	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:218999581T>A	uc002vgz.1	+	4	282	c.57T>A	c.(55-57)GAT>GAA	p.D19E	CXCR2_uc002vha.1_Missense_Mutation_p.D19E|CXCR2_uc002vhb.1_Missense_Mutation_p.D19E	NM_001557	NP_001548	P25025	CXCR2_HUMAN	interleukin 8 receptor beta	19	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cellular defense response|dendritic cell chemotaxis|inflammatory response|neutrophil activation|neutrophil chemotaxis|positive regulation of cell proliferation	cell surface|integral to plasma membrane|mast cell granule	interleukin-8 receptor activity			lung(1)|breast(1)	2						AAGGTGAAGATCTTAGTAATT	0.403													23	121					0	0	1	0	0		A	218999581	A	A	218999581	3	1	27	1	0	0	0	0	1	0	0	0	4094	1432	50	5	59	5	CXCR2	2	218999581	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	287032	218999581	24199792	1391	23742											
CXCR2	3579	broad.mit.edu	37	chr2	219000013	219000013	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaagcgctacttggtcaaAttcatatgtctcagcatctg	11	12	8	10	1	4	1	3	0	2	1	5	1	4	1	0	1	3	2	0	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219000013A>C	uc002vgz.1	+	4	714	c.489A>C	c.(487-489)AAA>AAC	p.K163N	CXCR2_uc002vha.1_Missense_Mutation_p.K163N|CXCR2_uc002vhb.1_Missense_Mutation_p.K163N	NM_001557	NP_001548	P25025	CXCR2_HUMAN	interleukin 8 receptor beta	163	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cellular defense response|dendritic cell chemotaxis|inflammatory response|neutrophil activation|neutrophil chemotaxis|positive regulation of cell proliferation	cell surface|integral to plasma membrane|mast cell granule	interleukin-8 receptor activity			lung(1)|breast(1)	2						ACTTGGTCAAATTCATATGTC	0.537													5	56					0	0	1	0	0		C	219000013	C	C	219000013	3	2	27	1	0	0	0	0	1	0	0	0	4094	98	4	5	491	5	CXCR2	2	219000013	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	432	219000013	24199360	1392	23743											
CXCR1	3577	broad.mit.edu	37	chr2	219029676	219029676	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcaaggtcagggcaaagaGtaggtcggccaaggccaggt	11	4	18	8	1	1	1	1	0	0	1	2	1	1	1	2	7	0	3	2	7	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219029676G>T	uc002vhc.2	-	2	378	c.259C>A	c.(259-261)CTC>ATC	p.L87I		NM_000634	NP_000625	P25024	CXCR1_HUMAN	interleukin 8 receptor alpha	87	Helical; Name=2; (Potential).				dendritic cell chemotaxis|inflammatory response	integral to membrane|plasma membrane	interleukin-8 receptor activity			lung(2)	2						AGGGCAAAGAGTAGGTCGGCC	0.567													10	111					7.48243e-07	8.13385e-07	1	1	0		T	219029676	T	T	219029676	3	4	27	1	0	0	0	0	1	0	0	0	4093	1029	36	5	797	5	CXCR1	2	219029676	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	29663	219029676	24169697	1393	23744											
PNKD	25953	broad.mit.edu	37	chr2	219209631	219209631	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccggggccgggccccactgGggatgatgactactcccggg	5	5	17	14	3	0	2	0	2	0	0	1	3	1	3	5	6	1	0	5	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219209631G>T	uc002vhn.2	+	10	1229	c.1085G>T	c.(1084-1086)GGG>GTG	p.G362V	PNKD_uc002vhq.2_Missense_Mutation_p.G338V	NM_015488	NP_056303	Q8N490	PNKD_HUMAN	myofibrillogenesis regulator 1 isoform 1	362						membrane|mitochondrion|nucleus	hydroxyacylglutathione hydrolase activity|zinc ion binding				0		Renal(207;0.0474)		Epithelial(149;7.33e-07)|all cancers(144;0.000133)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGCCCCACTGGGGATGATGAC	0.672													17	71					1.02788e-11	1.141e-11	1	1	0		T	219209631	T	T	219209631	3	4	27	1	0	0	0	0	1	0	0	0	12165	1232	43	5	1488	5	PNKD	2	219209631	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	179955	219209631	23989742	1394	23745											
CTDSP1	58190	broad.mit.edu	37	chr2	219267084	219267084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacagccagtgaacaacGcggacttcatcatccctgtg	10	7	8	16	2	2	1	2	1	0	0	3	2	3	2	4	1	3	0	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219267084G>A	uc002vhy.2	+	4	670	c.334G>A	c.(334-336)GCG>ACG	p.A112T	CTDSP1_uc002vhx.2_Missense_Mutation_p.A111T|CTDSP1_uc002vhz.2_5'UTR|uc010zkd.1_5'Flank|MIR26B_hsa-mir-26b|MI0000084_5'Flank	NM_021198	NP_067021	Q9GZU7	CTDS1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	112	FCP1 homology.				protein dephosphorylation|regulation of transcription from RNA polymerase II promoter	nucleus	CTD phosphatase activity|metal ion binding|protein binding			ovary(1)	1		Renal(207;0.0915)		Epithelial(149;9.96e-07)|all cancers(144;0.00017)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGTGAACAACGCGGACTTCAT	0.637													7	63					0	0	1	0	0		A	219267084	A	A	219267084	3	1	27	1	0	0	0	0	1	0	0	0	4006	1087	38	1	348	1	CTDSP1	2	219267084	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	57453	219267084	23932289	1395	23746											
USP37	57695	broad.mit.edu	37	chr2	219350422	219350422	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttgtgcctgacaagagcAcacttcccaccacacttctc	11	10	5	15	0	1	2	0	1	1	1	3	2	2	2	3	0	2	1	3	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219350422A>T	uc002vie.2	-	16	2088	c.1635T>A	c.(1633-1635)TGT>TGA	p.C545*	USP37_uc010fvs.1_Nonsense_Mutation_p.C545*|USP37_uc010zkf.1_Nonsense_Mutation_p.C545*|USP37_uc002vif.2_Nonsense_Mutation_p.C545*|USP37_uc002vig.2_Nonsense_Mutation_p.C473*	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	545					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		TGACAAGAGCACACTTCCCAC	0.338													24	65					0	0	1	0	0		T	219350422	T	T	219350422	4	4	27	1	0	0	0	0	0	1	0	0	17094	157	6	5	1348	5	USP37	2	219350422	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	83338	219350422	23848951	1396	23747											
USP37	57695	broad.mit.edu	37	chr2	219411702	219411702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcaaagaaggaatcgtcCgagctattccacttcctgct	11	11	8	11	2	1	1	1	0	0	1	5	3	4	2	3	1	2	2	3	1	4	3	rs141437175		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219411702C>T	uc002vie.2	-	7	995	c.542G>A	c.(541-543)CGG>CAG	p.R181Q	USP37_uc010fvs.1_Missense_Mutation_p.R181Q|USP37_uc010zkf.1_Missense_Mutation_p.R181Q|USP37_uc002vif.2_Missense_Mutation_p.R181Q|USP37_uc002vig.2_Missense_Mutation_p.R109Q|USP37_uc010zkg.1_Missense_Mutation_p.R181Q	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	181					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		AGGAATCGTCCGAGCTATTCC	0.403													9	82					0	0	1	0	0		T	219411702	T	T	219411702	3	4	27	1	0	0	0	0	1	0	0	0	17094	652	23	1	2477	1	USP37	2	219411702	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61280	219411702	23787671	1397	23748											
PLCD4	84812	broad.mit.edu	37	chr2	219487417	219487417	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggaaggagaagaattcgtAcagttctataaggcattgac	14	10	11	6	1	1	3	0	1	1	2	2	5	1	4	0	3	1	3	0	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219487417A>G	uc002vij.1	+	6	783	c.588A>G	c.(586-588)GTA>GTG	p.V196V	PLCD4_uc002vik.1_Silent_p.V43V|PLCD4_uc010zkk.1_Intron	NM_032726	NP_116115	Q9BRC7	PLCD4_HUMAN	phospholipase C, delta 4	196	EF-hand 2.				intracellular signal transduction|lipid catabolic process	endoplasmic reticulum|membrane|nucleus	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)	3		Renal(207;0.0915)		Epithelial(149;5.11e-07)|all cancers(144;0.000104)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		AAGAATTCGTACAGTTCTATA	0.443													7	58					0	0	1	0	0		G	219487417	G	G	219487417	2	3	27	1	0	0	0	0	0	0	0	1	12052	378	14	3		3	PLCD4	2	219487417	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	75715	219487417	23711956	1398	23749											
ZNF142	7701	broad.mit.edu	37	chr2	219508288	219508288	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagtttcctgcaggagggActgggtcaaagcagtgcttc	9	9	15	8	0	1	0	1	0	0	0	3	3	2	3	1	4	3	4	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219508288A>T	uc002vin.2	-	8	3387	c.2951T>A	c.(2950-2952)GTC>GAC	p.V984D	ZNF142_uc002vil.2_Missense_Mutation_p.V945D|ZNF142_uc010fvt.2_Missense_Mutation_p.V821D|ZNF142_uc002vim.2_Missense_Mutation_p.V821D	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	984					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		TGCAGGAGGGACTGGGTCAAA	0.592													11	140					0	0	1	0	0		T	219508288	T	T	219508288	3	4	27	1	0	0	0	0	1	0	0	0	17756	275	10	5	2124	5	ZNF142	2	219508288	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20871	219508288	23691085	1399	23750											
RNF25	64320	broad.mit.edu	37	chr2	219528796	219528796	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtgtccggcctttagagcGctcccagcgaacacagtccc	7	7	12	15	3	0	1	0	0	0	1	3	2	3	1	4	2	3	1	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219528796G>T	uc002vit.2	-	10	1352	c.1264C>A	c.(1264-1266)CGC>AGC	p.R422S	RNF25_uc010fvw.2_Missense_Mutation_p.R310S	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	422					positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCTTTAGAGCGCTCCCAGCGA	0.667													23	149					3.83957e-06	4.15258e-06	1	1	0		T	219528796	T	T	219528796	3	4	27	1	0	0	0	0	1	0	0	0	13510	1087	38	5	119	5	RNF25	2	219528796	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20508	219528796	23670577	1400	23751											
RNF25	64320	broad.mit.edu	37	chr2	219528942	219528942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaggggcccctcaggaggtGgcagttcctgggtgtcacgg	5	8	18	10	1	2	1	2	1	0	0	3	2	3	2	3	7	0	2	3	7	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219528942G>A	uc002vit.2	-	10	1206	c.1118C>T	c.(1117-1119)CCA>CTA	p.P373L	RNF25_uc010fvw.2_Missense_Mutation_p.P261L	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	373					positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTCAGGAGGTGGCAGTTCCTG	0.642													27	131					0	0	1	0	0		A	219528942	A	A	219528942	3	1	27	1	0	0	0	0	1	0	0	0	13510	1348	47	4	265	4	RNF25	2	219528942	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	146	219528942	23670431	1401	23752											
STK36	27148	broad.mit.edu	37	chr2	219558684	219558684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctctcccttcttgtctttCggctccaaaacctgccttgt	4	16	5	16	1	3	0	0	0	3	0	7	0	5	0	5	1	2	1	5	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219558684C>T	uc002viu.2	+	19	2580	c.2314C>T	c.(2314-2316)CGG>TGG	p.R772W	STK36_uc002viv.2_Missense_Mutation_p.R772W|STK36_uc002viw.2_5'Flank|STK36_uc002vix.2_5'Flank	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	772					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		TCTTGTCTTTCGGCTCCAAAA	0.443													5	65					0	0	1	0	0		T	219558684	T	T	219558684	3	4	27	1	0	0	0	0	1	0	0	0	15327	875	31	1	2384	1	STK36	2	219558684	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	29742	219558684	23640689	1402	23753											
TTLL4	9654	broad.mit.edu	37	chr2	219603528	219603528	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgtcctcaacaggagcAggcggtggaaacctcctgcg	10	6	14	11	2	1	0	1	0	0	0	3	3	3	3	3	5	4	1	3	5	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219603528A>G	uc002viy.2	+	3	1499	c.1129A>G	c.(1129-1131)AGG>GGG	p.R377G	TTLL4_uc010zkl.1_Missense_Mutation_p.R212G|TTLL4_uc010fvx.2_Missense_Mutation_p.R377G	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	377					protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		CAACAGGAGCAGGCGGTGGAA	0.572													23	81					0	0	1	0	0		G	219603528	G	G	219603528	3	3	27	1	0	0	0	0	1	0	0	0	16755	179	7	3	1131	3	TTLL4	2	219603528	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	44844	219603528	23595845	1403	23754											
WNT6	7475	broad.mit.edu	37	chr2	219735872	219735872	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcagagctagctcggggCgcccggctcggggtgcgaga	5	5	20	11	5	0	2	0	0	0	2	2	3	0	2	1	6	3	4	1	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219735872C>T	uc002vjc.1	+	2	419	c.204C>T	c.(202-204)GGC>GGT	p.G68G		NM_006522	NP_006513	Q9Y6F9	WNT6_HUMAN	wingless-type MMTV integration site family,	68					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|cornea development in camera-type eye|neuron differentiation|odontogenesis of dentine-containing tooth|positive regulation of gene expression|positive regulation of tooth mineralization|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			ovary(2)|skin(1)	3		Renal(207;0.0474)		Epithelial(149;4.53e-07)|all cancers(144;9.3e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TAGCTCGGGGCGCCCGGCTCG	0.677													6	113					0	0	1	0	0		T	219735872	T	T	219735872	2	4	27	1	0	0	0	0	0	0	0	1	17419	755	27	1		1	WNT6	2	219735872	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	132344	219735872	23463501	1404	23755											
WNT6	7475	broad.mit.edu	37	chr2	219736234	219736234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagacggccttcgtgttcgCcatcactgcggccggcgcca	5	7	14	15	6	1	1	1	0	0	1	3	2	1	1	4	4	1	1	4	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219736234C>T	uc002vjc.1	+	3	544	c.329C>T	c.(328-330)GCC>GTC	p.A110V		NM_006522	NP_006513	Q9Y6F9	WNT6_HUMAN	wingless-type MMTV integration site family,	110					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|cornea development in camera-type eye|neuron differentiation|odontogenesis of dentine-containing tooth|positive regulation of gene expression|positive regulation of tooth mineralization|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			ovary(2)|skin(1)	3		Renal(207;0.0474)		Epithelial(149;4.53e-07)|all cancers(144;9.3e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TTCGTGTTCGCCATCACTGCG	0.592													3	18					0	0	1	0	0		T	219736234	T	T	219736234	3	4	27	1	0	0	0	0	1	0	0	0	17419	739	26	2	339	2	WNT6	2	219736234	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	362	219736234	23463139	1405	23756											
CCDC108	255101	broad.mit.edu	37	chr2	219869020	219869020	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccttcccatcctcccagcTgctggagggtacaggcagga	7	7	12	15	0	0	0	0	0	0	0	3	2	3	2	4	4	3	4	4	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:219869020T>C	uc002vjl.1	-	33	5293	c.5209A>G	c.(5209-5211)AGC>GGC	p.S1737G	uc010fvz.1_5'Flank|MIR375_hsa-mir-375|MI0000783_5'Flank	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	1737						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCCTCCCAGCTGCTGGAGGGT	0.443													13	146					0	0	1	0	0		C	219869020	C	C	219869020	3	2	27	1	0	0	0	0	1	0	0	0	2746	1580	55	3	580	3	CCDC108	2	219869020	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	132786	219869020	23330353	1406	23757											
SLC23A3	151295	broad.mit.edu	37	chr2	220033490	220033490	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccacagtgggggaacacgtgGccgggactccccagcagccc	8	3	14	16	2	0	0	0	0	0	0	1	2	1	2	5	4	3	1	5	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:220033490G>C	uc010zks.1	-	5	669	c.558C>G	c.(556-558)GGC>GGG	p.G186G	NHEJ1_uc002vjq.3_RNA|SLC23A3_uc010zkr.1_Silent_p.G194G|SLC23A3_uc010fwb.2_Silent_p.G186G|SLC23A3_uc002vjs.1_Missense_Mutation_p.P39A|SLC23A3_uc002vjt.1_Silent_p.G44G	NM_001144889	NP_001138361	Q6PIS1	S23A3_HUMAN	solute carrier family 23 (nucleobase	186	Extracellular (Potential).				transmembrane transport	integral to membrane	protein binding|transporter activity				0		Renal(207;0.0474)		Epithelial(149;9.27e-07)|all cancers(144;0.000156)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGAACACGTGGCCGGGACTCC	0.627													3	26					0	0	1	0	0		C	220033490	C	C	220033490	2	2	27	1	0	0	0	0	0	0	0	1	14489	1190	42	5		5	SLC23A3	2	220033490	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	164470	220033490	23165883	1407	23758											
FAM134A	79137	broad.mit.edu	37	chr2	220046854	220046854	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggccgtcctcaagctctgTcaaggcaagccctggactcg	8	8	11	14	2	3	0	2	0	1	0	5	1	4	1	3	3	2	2	3	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:220046854T>C	uc002vjw.3	+	9	1271	c.1135T>C	c.(1135-1137)TCA>CCA	p.S379P	FAM134A_uc010fwc.2_Missense_Mutation_p.S172P|FAM134A_uc002vjx.2_Missense_Mutation_p.S172P	NM_024293	NP_077269	Q8NC44	F134A_HUMAN	hypothetical protein LOC79137	379						endoplasmic reticulum|integral to membrane				ovary(1)|central_nervous_system(1)	2		Renal(207;0.0915)		Epithelial(149;8.92e-07)|all cancers(144;0.000151)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCAAGCTCTGTCAAGGCAAGC	0.597													17	120					0	0	1	0	0		C	220046854	C	C	220046854	3	2	27	1	0	0	0	0	1	0	0	0	5456	1667	58	3	1169	3	FAM134A	2	220046854	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	13364	220046854	23152519	1408	23759											
DNAJB2	3300	broad.mit.edu	37	chr2	220149476	220149476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcatgccccttggacagcGacctctctgaggatgaggac	8	8	11	14	1	2	2	1	2	1	0	3	6	2	5	4	3	2	0	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:220149476G>A	uc002vkx.1	+	9	979	c.742G>A	c.(742-744)GAC>AAC	p.D248N	DNAJB2_uc002vkw.1_Missense_Mutation_p.D248N|DNAJB2_uc002vky.2_Missense_Mutation_p.D64N|DNAJB2_uc010zlb.1_Missense_Mutation_p.D64N	NM_006736	NP_006727	P25686	DNJB2_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 2	248					ER-associated protein catabolic process|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of inclusion body assembly|negative regulation of protein deubiquitination|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding|response to unfolded protein	inclusion body	heat shock protein binding|Hsp70 protein binding|polyubiquitin binding|proteasome binding|protein binding|unfolded protein binding				0		Renal(207;0.0474)		Epithelial(149;1.97e-06)|all cancers(144;0.00028)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTTGGACAGCGACCTCTCTGA	0.652													9	28					0	0	1	0	0		A	220149476	A	A	220149476	3	1	27	1	0	0	0	0	1	0	0	0	4626	1058	37	1	772	1	DNAJB2	2	220149476	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	102622	220149476	23049897	1409	23760											
PTPRN	5798	broad.mit.edu	37	chr2	220166975	220166976	+	Frame_Shift_Ins	INS	-	C	C																															ttgctctggcagccttggcaINSccctggccctgctgggtgct																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:220166975_220166976insC	uc002vkz.2	-	6	966_967	c.877_878insG	c.(877-879)GTGfs	p.V293fs	PTPRN_uc010zlc.1_Frame_Shift_Ins_p.V203fs|PTPRN_uc002vla.2_Frame_Shift_Ins_p.V293fs	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	293	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		CAGCCTTGGCACCCTGGCCCTG	0.629													19	30	---	---	---	---						.	C	220166976	C	C	220166975	7	5	27	1	0	1	1	0	0	0	0	0	12832	159	6	0	2133	0	PTPRN	2	220166975	Frame_Shift_Ins	INS	-	TCGA-BR-6452-01A-12D-1800-08	17499	220166975	23032398	1410	23761											
SPEG	10290	broad.mit.edu	37	chr2	220349088	220349088	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagccgggggtcccccGgtgctagccgagaaagcccg	6	4	14	17	4	1	1	1	0	0	1	2	2	2	1	6	3	4	1	6	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:220349088G>A	uc010fwg.2	+	30	6903	c.6903G>A	c.(6901-6903)CCG>CCA	p.P2301P		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2301	Pro-rich.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GGGGTCCCCCGGTGCTAGCCG	0.687													6	20					0	0	1	0	0		A	220349088	A	A	220349088	2	1	27	1	0	0	0	0	0	0	0	1	15061	1103	39	1		1	SPEG	2	220349088	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	182113	220349088	22850285	1411	23762											
SPEG	10290	broad.mit.edu	37	chr2	220354263	220354263	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaggctgtgggtccaccAccccaaacccctccacgaag	10	5	8	18	1	1	0	1	0	0	0	3	1	3	0	7	2	1	1	7	2	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:220354263A>G	uc010fwg.2	+	36	8523	c.8523A>G	c.(8521-8523)CCA>CCG	p.P2841P		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2841	Pro-rich.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		TGGGTCCACCACCCCAAACCC	0.672													10	64					0	0	1	0	0		G	220354263	G	G	220354263	2	3	27	1	0	0	0	0	0	0	0	1	15061	146	6	3		3	SPEG	2	220354263	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5175	220354263	22845110	1412	23763											
SPEG	10290	broad.mit.edu	37	chr2	220357350	220357350	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcaggactgcctggcccacCcatggttgcaggacgcctac	7	7	12	15	1	0	0	0	0	0	0	0	2	0	2	4	4	4	3	4	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:220357350C>A	uc010fwg.2	+	41	9646	c.9646C>A	c.(9646-9648)CCA>ACA	p.P3216T		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	3216	Protein kinase 2.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CCTGGCCCACCCATGGTTGCA	0.637													10	89					9.05144e-12	1.00499e-11	1	1	0		A	220357350	A	A	220357350	3	1	27	1	0	0	0	0	1	0	0	0	15061	623	22	5	9820	5	SPEG	2	220357350	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3087	220357350	22842023	1413	23764											
GMPPA	29926	broad.mit.edu	37	chr2	220366625	220366625	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtggtctttaccattttCgagaccagatcctggctggg	6	12	14	9	1	1	2	0	0	1	2	3	3	2	2	3	5	1	1	3	5	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:220366625C>T	uc002vlr.2	+	5	363	c.295C>T	c.(295-297)CGA>TGA	p.R99*	GMPPA_uc002vls.2_Nonsense_Mutation_p.R99*|GMPPA_uc002vlt.2_Nonsense_Mutation_p.R99*|GMPPA_uc002vlu.2_Nonsense_Mutation_p.R99*|GMPPA_uc002vlv.2_Nonsense_Mutation_p.R99*|GMPPA_uc002vlw.2_RNA|GMPPA_uc002vlx.2_Nonsense_Mutation_p.R99*	NM_013335	NP_037467	Q96IJ6	GMPPA_HUMAN	GDP-mannose pyrophosphorylase A	99					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0		Renal(207;0.0183)		Epithelial(149;3.82e-10)|all cancers(144;6.25e-08)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00807)|READ - Rectum adenocarcinoma(5;0.148)		TTACCATTTTCGAGACCAGAT	0.577													24	88					0	0	1	0	0		T	220366625	T	T	220366625	4	4	27	1	0	0	0	0	0	1	0	0	6509	876	31	1	309	1	GMPPA	2	220366625	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9275	220366625	22832748	1414	23765											
EPHA4	2043	broad.mit.edu	37	chr2	222310897	222310897	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggctttactgtatttacTccgtctattaaaattttttt	8	23	4	6	1	1	0	0	0	1	0	2	0	2	0	1	1	2	2	1	1	6	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:222310897T>C	uc002vmq.2	-	9	1762	c.1720A>G	c.(1720-1722)AGT>GGT	p.S574G	EPHA4_uc002vmr.2_Missense_Mutation_p.S574G|EPHA4_uc010zlm.1_Missense_Mutation_p.S515G|EPHA4_uc010zln.1_Missense_Mutation_p.S574G	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	574	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		CTGTATTTACTCCGTCtatta	0.289													7	54					0	0	1	0	0		C	222310897	C	C	222310897	3	2	27	1	0	0	0	0	1	0	0	0	5177	1551	54	3	1276	3	EPHA4	2	222310897	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1944272	222310897	20888476	1415	23766											
EPHA4	2043	broad.mit.edu	37	chr2	222321482	222321482	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactatacgatagcttcgcTcattctgatcctacatcatg	11	13	6	11	2	3	1	2	1	1	0	5	3	4	1	1	0	4	2	1	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:222321482T>C	uc002vmq.2	-	7	1496	c.1454A>G	c.(1453-1455)GAG>GGG	p.E485G	EPHA4_uc002vmr.2_Missense_Mutation_p.E485G|EPHA4_uc010zlm.1_Missense_Mutation_p.E426G|EPHA4_uc010zln.1_Missense_Mutation_p.E485G	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	485	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		ATAGCTTCGCTCATTCTGATC	0.458													5	89					0	0	1	0	0		C	222321482	C	C	222321482	3	2	27	1	0	0	0	0	1	0	0	0	5177	1551	54	3	1550	3	EPHA4	2	222321482	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10585	222321482	20877891	1416	23767											
EPHA4	2043	broad.mit.edu	37	chr2	222347160	222347160	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcacagcccagatttcaaaGgtgtaattggtatgagctag	12	12	10	7	0	2	2	2	1	0	1	2	2	2	2	1	2	2	3	1	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:222347160G>T	uc002vmq.2	-	5	1272	c.1230C>A	c.(1228-1230)ACC>ACA	p.T410T	EPHA4_uc002vmr.2_Silent_p.T410T|EPHA4_uc010zlm.1_Silent_p.T351T|EPHA4_uc010zln.1_Silent_p.T410T	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	410	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		AGATTTCAAAGGTGTAATTGG	0.493													23	261					7.87624e-14	8.78695e-14	1	1	0		T	222347160	T	T	222347160	2	4	27	1	0	0	0	0	0	0	0	1	5177	987	35	5		5	EPHA4	2	222347160	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	25678	222347160	20852213	1417	23768											
EPHA4	2043	broad.mit.edu	37	chr2	222347301	222347301	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatttcttgcataccacAttataggaaatgtcctggcg	11	12	7	11	1	1	0	0	0	1	0	2	1	2	1	3	2	2	1	3	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:222347301A>G	uc002vmq.2	-	5	1131	c.1089T>C	c.(1087-1089)AAT>AAC	p.N363N	EPHA4_uc002vmr.2_Silent_p.N363N|EPHA4_uc010zlm.1_Silent_p.N304N|EPHA4_uc010zln.1_Silent_p.N363N	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	363	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		TGCATACCACATTATAGGAAA	0.517													14	233					0	0	1	0	0		G	222347301	G	G	222347301	2	3	27	1	0	0	0	0	0	0	0	1	5177	214	8	3		3	EPHA4	2	222347301	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	141	222347301	20852072	1418	23769											
FARSB	10056	broad.mit.edu	37	chr2	223499245	223499245	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcatgggtaccaatggcAaccagtgctcttttcctaat	12	12	7	10	0	2	0	1	0	1	0	3	0	3	0	3	2	3	3	3	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:223499245A>G	uc002vne.1	-	6	506	c.471T>C	c.(469-471)GTT>GTC	p.V157V	FARSB_uc010zlq.1_Silent_p.V177V|FARSB_uc002vnf.1_Silent_p.V58V	NM_005687	NP_005678	Q9NSD9	SYFB_HUMAN	phenylalanyl-tRNA synthetase, beta subunit	157					phenylalanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|RNA binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(121;3.47e-10)|all cancers(144;1.86e-07)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.011)	L-Phenylalanine(DB00120)	TACCAATGGCAACCAGTGCTC	0.423													5	61					0	0	1	0	0		G	223499245	G	G	223499245	2	3	27	1	0	0	0	0	0	0	0	1	5694	117	5	3		3	FARSB	2	223499245	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1151944	223499245	19700128	1419	23770											
MOGAT1	116255	broad.mit.edu	37	chr2	223559222	223559222	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactctgttcatccgccagcGgaaaggatttgttaaaattg	11	12	9	9	2	2	0	1	0	1	0	3	2	3	2	2	2	1	2	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:223559222G>T	uc010fws.1	+	4	668	c.620G>T	c.(619-621)CGG>CTG	p.R207L	MOGAT1_uc010fwt.1_Missense_Mutation_p.R167L	NM_058165	NP_477513	Q96PD6	MOGT1_HUMAN	monoacylglycerol O-acyltransferase 1	207					glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			breast(1)	1		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;2.06e-07)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0105)		ATCCGCCAGCGGAAAGGATTT	0.433													8	66					0.0477658	0.0483837	1	1	0		T	223559222	T	T	223559222	3	4	27	1	0	0	0	0	1	0	0	0	9712	1116	39	5	634	5	MOGAT1	2	223559222	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	59977	223559222	19640151	1420	23771											
SCG2	7857	broad.mit.edu	37	chr2	224462954	224462954	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgagatttcaatcagctgAtaaatagactgagaatcaag	16	11	8	6	0	3	4	3	3	0	3	3	6	3	4	0	0	1	1	0	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:224462954A>T	uc002vnm.2	-	2	1180	c.1047T>A	c.(1045-1047)TAT>TAA	p.Y349*		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	349					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		CAATCAGCTGATAAATAGACT	0.453													7	123					0	0	1	0	0		T	224462954	T	T	224462954	4	4	27	1	0	0	0	0	0	1	0	0	13916	340	12	5	810	5	SCG2	2	224462954	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	903732	224462954	18736419	1421	23772											
SERPINE2	5270	broad.mit.edu	37	chr2	224863058	224863058	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttaatattttaccaacTcctaaaagagaaatcagaag	17	13	4	7	0	2	2	1	0	1	2	3	3	3	2	2	0	2	0	2	0	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:224863058T>C	uc002vnu.2	-	3	504	c.261A>G	c.(259-261)GGA>GGG	p.G87G	SERPINE2_uc002vnt.2_Silent_p.G87G|SERPINE2_uc010zlr.1_Silent_p.G99G|SERPINE2_uc002vnv.2_Silent_p.G87G	NM_006216	NP_006207	P07093	GDN_HUMAN	plasminogen activator inhibitor type 1, member 2	87					negative regulation of blood coagulation|negative regulation of plasminogen activation|negative regulation of platelet aggregation|positive regulation of astrocyte differentiation|regulation of cell migration	cytosol|extracellular matrix|extracellular space|extrinsic to external side of plasma membrane|neuromuscular junction|platelet alpha granule	heparin binding|receptor binding|serine-type endopeptidase inhibitor activity			breast(2)|ovary(1)|central_nervous_system(1)	4		Renal(207;0.025)|all_lung(227;0.0586)|Lung NSC(271;0.0682)|all_hematologic(139;0.0797)		Epithelial(121;5.68e-10)|all cancers(144;1.9e-07)|Lung(261;0.0088)|LUSC - Lung squamous cell carcinoma(224;0.00902)		TTTTACCAACTCCTAAAAGAG	0.333													10	65					0	0	1	0	0		C	224863058	C	C	224863058	2	2	27	1	0	0	0	0	0	0	0	1	14137	1565	54	3		3	SERPINE2	2	224863058	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	400104	224863058	18336315	1422	23773											
DOCK10	55619	broad.mit.edu	37	chr2	225630541	225630541	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgcgctttgacaggtcgTccctgcccgtaatcttaaaa	8	11	8	14	4	1	1	0	1	1	0	4	1	3	1	3	1	1	2	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:225630541T>C	uc010fwz.1	-	56	6697	c.6458A>G	c.(6457-6459)GAC>GGC	p.D2153G	DOCK10_uc002vob.2_Missense_Mutation_p.D2147G|DOCK10_uc002voa.2_Silent_p.G834G	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	2153							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		TGACAGGTCGTCCCTGCCCGT	0.458													4	20					0	0	1	0	0		C	225630541	C	C	225630541	3	2	27	1	0	0	0	0	1	0	0	0	4691	1667	58	3	106	3	DOCK10	2	225630541	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	767483	225630541	17568832	1423	23774											
DOCK10	55619	broad.mit.edu	37	chr2	225639776	225639776	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttttcctcaaagaacggCgtcacataggtcacctggat	10	11	8	12	2	3	1	3	0	0	1	5	2	5	2	3	3	1	0	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:225639776C>T	uc010fwz.1	-	52	6098	c.5859G>A	c.(5857-5859)ACG>ACA	p.T1953T	DOCK10_uc002vob.2_Silent_p.T1947T|DOCK10_uc002voa.2_Silent_p.T609T	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1953	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		CAAAGAACGGCGTCACATAGG	0.493													4	57					0	0	1	0	0		T	225639776	T	T	225639776	2	4	27	1	0	0	0	0	0	0	0	1	4691	755	27	1		1	DOCK10	2	225639776	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9235	225639776	17559597	1424	23775											
KIAA1486	57624	broad.mit.edu	37	chr2	226273691	226273691	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggggatgaaggcctatgAtggcttggttattcagaatg	10	13	14	4	0	1	3	1	2	0	1	1	4	1	4	1	5	0	2	1	5	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:226273691A>G	uc002voe.2	+	2	270	c.95A>G	c.(94-96)GAT>GGT	p.D32G	KIAA1486_uc010fxa.1_Missense_Mutation_p.D27G	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	32								p.D32N(1)		ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		AAGGCCTATGATGGCTTGGTT	0.408													6	117					0	0	1	0	0		G	226273691	G	G	226273691	3	3	27	1	0	0	0	0	1	0	0	0	8253	333	12	3	97	3	KIAA1486	2	226273691	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	633915	226273691	16925682	1425	23776											
KIAA1486	57624	broad.mit.edu	37	chr2	226446929	226446929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggacgatgaccagagcgagGccgtctacgaggaaatgaag	14	4	15	8	4	1	3	0	2	1	1	1	8	1	5	2	3	2	0	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:226446929G>A	uc002voe.2	+	4	971	c.796G>A	c.(796-798)GCC>ACC	p.A266T	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.A36T	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	266										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		CCAGAGCGAGGCCGTCTACGA	0.562													8	110					0	0	1	0	0		A	226446929	A	A	226446929	3	1	27	1	0	0	0	0	1	0	0	0	8253	1203	42	2	806	2	KIAA1486	2	226446929	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	173238	226446929	16752444	1426	23777											
KIAA1486	57624	broad.mit.edu	37	chr2	226447576	226447576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgacccccagacccgtgtcGcaagatggggccaagatggt	9	6	13	13	3	0	3	0	0	0	3	2	4	0	3	4	3	0	1	4	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:226447576G>A	uc002voe.2	+	4	1618	c.1443G>A	c.(1441-1443)TCG>TCA	p.S481S	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Silent_p.S251S	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	481										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		GACCCGTGTCGCAAGATGGGG	0.667													16	36					0	0	1	0	0		A	226447576	A	A	226447576	2	1	27	1	0	0	0	0	0	0	0	1	8253	1074	38	1		1	KIAA1486	2	226447576	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	647	226447576	16751797	1427	23778											
IRS1	3667	broad.mit.edu	37	chr2	227660190	227660190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacccttgtgggtctgcacGgatcactttggcactctggt	5	12	12	12	1	3	0	1	0	2	0	3	1	3	1	1	4	1	3	1	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:227660190G>A	uc002voh.3	-	1	3317	c.3265C>T	c.(3265-3267)CGT>TGT	p.R1089C		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	1089					fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GGGTCTGCACGGATCACTTTG	0.647													7	86					0	0	1	0	0		A	227660190	A	A	227660190	3	1	27	1	0	0	0	0	1	0	0	0	7856	1116	39	1	467	1	IRS1	2	227660190	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1212614	227660190	15539183	1428	23779											
IRS1	3667	broad.mit.edu	37	chr2	227663097	227663097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccgcagctccgtcgtggtGgcccttagcacggttgtgca	4	9	15	13	4	0	0	0	0	0	0	2	0	1	0	3	4	3	5	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:227663097G>A	uc002voh.3	-	1	410	c.358C>T	c.(358-360)CAC>TAC	p.H120Y		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	120	Mediates interaction with PHIP (By similarity).				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		CCGTCGTGGTGGCCCTTAGCA	0.682											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	63					0	0	1	0	0		A	227663097	A	A	227663097	3	1	27	1	0	0	0	0	1	0	0	0	7856	1348	47	4	3374	4	IRS1	2	227663097	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2907	227663097	15536276	1429	23780											
RHBDD1	84236	broad.mit.edu	37	chr2	227729830	227729830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttcaaaaggagctgtgctGtaggtttctcaggtaaggga	11	11	13	6	0	2	0	2	0	1	0	3	2	2	2	0	4	2	5	0	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:227729830G>A	uc002voi.2	+	2	542	c.421G>A	c.(421-423)GTA>ATA	p.V141I	RHBDD1_uc010fxc.2_Missense_Mutation_p.V141I	NM_032276	NP_115652	Q8TEB9	RHBD1_HUMAN	rhomboid domain containing 1	141						integral to membrane	serine-type endopeptidase activity			ovary(1)	1		Renal(207;0.023)|all_lung(227;0.13)|Esophageal squamous(248;0.23)|all_hematologic(139;0.248)		Epithelial(121;1.47e-11)|all cancers(144;1.52e-08)|Lung(261;0.0128)|LUSC - Lung squamous cell carcinoma(224;0.0175)		GAGCTGTGCTGTAGGTTTCTC	0.443													5	101					0	0	1	0	0		A	227729830	A	A	227729830	3	1	27	1	0	0	0	0	1	0	0	0	13341	1377	48	4	423	4	RHBDD1	2	227729830	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	66733	227729830	15469543	1430	23781											
RHBDD1	84236	broad.mit.edu	37	chr2	227732001	227732001	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagatttgcttgttgggTcgaacttgtggctattcatt	8	16	11	6	1	1	1	1	0	0	1	2	3	1	1	0	2	3	3	0	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:227732001T>A	uc002voi.2	+	3	654	c.533T>A	c.(532-534)GTC>GAC	p.V178D	RHBDD1_uc010fxc.2_Missense_Mutation_p.V178D	NM_032276	NP_115652	Q8TEB9	RHBD1_HUMAN	rhomboid domain containing 1	178						integral to membrane	serine-type endopeptidase activity			ovary(1)	1		Renal(207;0.023)|all_lung(227;0.13)|Esophageal squamous(248;0.23)|all_hematologic(139;0.248)		Epithelial(121;1.47e-11)|all cancers(144;1.52e-08)|Lung(261;0.0128)|LUSC - Lung squamous cell carcinoma(224;0.0175)		GCTTGTTGGGTCGAACTTGTG	0.398													13	167					0	0	1	0	0		A	227732001	A	A	227732001	3	1	27	1	0	0	0	0	1	0	0	0	13341	1667	58	5	539	5	RHBDD1	2	227732001	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2171	227732001	15467372	1431	23782											
COL4A4	1286	broad.mit.edu	37	chr2	227919385	227919385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggttctccctttgcgccagGacatccctctgcaccaggct	6	10	9	16	1	2	0	0	0	2	0	4	1	3	1	4	3	2	3	4	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:227919385G>A	uc010zlt.1	-	31	3439	c.2785C>T	c.(2785-2787)CCT>TCT	p.P929S		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	929	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		TTTGCGCCAGGACATCCCTCT	0.542													6	44					0	0	1	0	0		A	227919385	A	A	227919385	3	1	27	1	0	0	0	0	1	0	0	0	3696	1174	41	4	2359	4	COL4A4	2	227919385	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	187384	227919385	15279988	1432	23783											
MFF	56947	broad.mit.edu	37	chr2	228220472	228220472	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatgcagcttcactaagaCgacaggtatttagtgtacca	13	11	9	8	1	1	2	1	0	0	2	1	3	1	2	1	1	3	4	1	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:228220472C>T	uc002vos.2	+	10	1310	c.892C>T	c.(892-894)CGA>TGA	p.R298*	MFF_uc002vot.2_Nonsense_Mutation_p.R247*|MFF_uc002vou.2_Nonsense_Mutation_p.R220*|MFF_uc002vov.2_Nonsense_Mutation_p.R194*|MFF_uc002vow.2_Nonsense_Mutation_p.R199*|MFF_uc002vox.2_Nonsense_Mutation_p.R174*|MFF_uc002voy.2_Nonsense_Mutation_p.R298*|MFF_uc002voz.2_Nonsense_Mutation_p.R174*|MFF_uc002vpa.2_Nonsense_Mutation_p.R86*	NM_020194	NP_064579	Q9GZY8	MFF_HUMAN	mitochondrial fission factor	298	Potential.|Cytoplasmic (Potential).					integral to membrane|mitochondrial outer membrane				large_intestine(1)	1						TTCACTAAGACGACAGGTATT	0.323													17	173					0	0	1	0	0		T	228220472	T	T	228220472	4	4	27	1	0	0	0	0	0	1	0	0	9537	528	19	1	922	1	MFF	2	228220472	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	301087	228220472	14978901	1433	23784											
CCL20	6364	broad.mit.edu	37	chr2	228680264	228680264	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcagctggccaatgaaggCtgtgacatcaatgctatcat	11	9	11	10	1	2	2	2	2	0	0	2	2	2	2	1	3	2	4	1	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:228680264C>A	uc002vpl.2	+	2	241	c.171C>A	c.(169-171)GGC>GGA	p.G57G	CCL20_uc002vpm.2_Silent_p.G56G	NM_004591	NP_004582	P78556	CCL20_HUMAN	chemokine (C-C motif) ligand 20 isoform 1	57					cell-cell signaling|chemotaxis|defense response to bacterium|immune response|inflammatory response|signal transduction	extracellular space	chemokine activity				0		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;7.3e-11)|all cancers(144;4.13e-08)|Lung(261;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0115)		CCAATGAAGGCTGTGACATCA	0.363													14	99					1.5842e-08	1.74315e-08	1	1	0		A	228680264	A	A	228680264	2	1	27	1	0	0	0	0	0	0	0	1	2895	784	28	5		5	CCL20	2	228680264	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	459792	228680264	14519109	1434	23785											
SPHKAP	80309	broad.mit.edu	37	chr2	228884736	228884736	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttctgttttaatcaatggTgtgggatatttgttgatgta	8	19	11	3	1	2	1	1	1	1	0	2	2	2	2	0	2	0	4	0	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:228884736T>C	uc002vpq.2	-	7	881	c.834A>G	c.(832-834)ACA>ACG	p.T278T	SPHKAP_uc002vpp.2_Silent_p.T278T|SPHKAP_uc010zlx.1_Silent_p.T278T	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	278						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TAATCAATGGTGTGGGATATT	0.423													15	220					0	0	1	0	0		C	228884736	C	C	228884736	2	2	27	1	0	0	0	0	0	0	0	1	15073	1683	59	3		3	SPHKAP	2	228884736	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	204472	228884736	14314637	1435	23786											
SLC16A14	151473	broad.mit.edu	37	chr2	230910760	230910760	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttccaaagatgtgaactAttgctataattgacgtcaga	13	14	7	7	1	1	4	1	2	0	2	2	4	2	4	1	0	2	1	1	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:230910760A>G	uc002vqd.1	-	4	1445	c.1082T>C	c.(1081-1083)ATA>ACA	p.I361T	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Missense_Mutation_p.I361T|SLC16A14_uc002vqf.2_Missense_Mutation_p.I361T	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	361	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		GATGTGAACTATTGCTATAAT	0.448													7	47					0	0	1	0	0		G	230910760	G	G	230910760	3	3	27	1	0	0	0	0	1	0	0	0	14432	449	16	3	458	3	SLC16A14	2	230910760	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2026024	230910760	12288613	1436	23787											
SLC16A14	151473	broad.mit.edu	37	chr2	230923905	230923905	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccattccacgttgaggacaCccagggccatctgggagccc	8	6	12	15	1	1	1	0	1	1	0	2	3	2	3	5	3	1	1	5	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:230923905C>T	uc002vqd.1	-	2	527	c.164G>A	c.(163-165)GGT>GAT	p.G55D	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Missense_Mutation_p.G55D|SLC16A14_uc002vqf.2_Missense_Mutation_p.G55D	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	55	Cytoplasmic (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		GTTGAGGACACCCAGGGCCAT	0.577													7	62					0	0	1	0	0		T	230923905	T	T	230923905	3	4	27	1	0	0	0	0	1	0	0	0	14432	507	18	4	1384	4	SLC16A14	2	230923905	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13145	230923905	12275468	1437	23788											
SP110	3431	broad.mit.edu	37	chr2	231042316	231042316	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtttccagttctttgcgtTccttccttttccttcgactt	2	20	5	14	3	1	0	0	0	1	0	6	1	5	0	5	0	1	3	5	0	0	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:231042316T>C	uc002vqh.3	-	14	1768	c.1528A>G	c.(1528-1530)AAC>GAC	p.N510D	SP110_uc002vqg.3_Missense_Mutation_p.N510D|SP110_uc002vqi.3_Missense_Mutation_p.N510D|SP110_uc010fxk.2_Missense_Mutation_p.N508D|SP110_uc010fxj.2_Missense_Mutation_p.N153D	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	510	SAND.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		TTCTTTGCGTTCCTTCCTTTT	0.423													15	227					0	0	1	0	0		C	231042316	C	C	231042316	3	2	27	1	0	0	0	0	1	0	0	0	14986	1783	62	3	701	3	SP110	2	231042316	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	118411	231042316	12157057	1438	23789											
SP140	11262	broad.mit.edu	37	chr2	231134660	231134660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaaagtgatcaagcgtgtgGcacaatgggtaaggctgtct	11	9	15	6	1	2	1	1	1	1	0	2	2	2	2	0	4	1	3	0	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:231134660G>A	uc002vql.2	+	14	1551	c.1436G>A	c.(1435-1437)GGC>GAC	p.G479D	SP140_uc010zma.1_RNA|SP140_uc002vqn.2_Missense_Mutation_p.G365D|SP140_uc002vqm.2_Missense_Mutation_p.G419D|SP140_uc010fxl.2_Missense_Mutation_p.G452D	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	479					defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CAAGCGTGTGGCACAATGGGT	0.557													5	52					0	0	1	0	0		A	231134660	A	A	231134660	3	1	27	1	0	0	0	0	1	0	0	0	14987	1203	42	2	1607	2	SP140	2	231134660	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	92344	231134660	12064713	1439	23790											
SP140L	93349	broad.mit.edu	37	chr2	231193506	231193506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgtttcacaagtagcaaatGagatgaaccatcttcctgca	13	11	8	9	0	2	2	1	2	1	1	3	3	3	2	2	0	3	4	2	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:231193506G>A	uc010fxm.1	+	2	158	c.67G>A	c.(67-69)GAG>AAG	p.E23K	SP140_uc010zma.1_Intron	NM_138402	NP_612411	Q9H930	LY10L_HUMAN	SP140 nuclear body protein-like	23						nucleus	DNA binding|metal ion binding			central_nervous_system(1)	1						agtagcaaatgagatgaacca	0													7	50					0	0	1	0	0		A	231193506	A	A	231193506	3	1	27	1	0	0	0	0	1	0	0	0	14988	1291	45	4	73	4	SP140L	2	231193506	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	58846	231193506	12005867	1440	23791											
SP140L	93349	broad.mit.edu	37	chr2	231253321	231253321	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actttactcagagtgacagaGctccacagaaaagagtccga	15	7	9	10	1	1	5	1	1	0	4	3	6	3	5	2	0	2	1	2	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:231253321G>T	uc010fxm.1	+	10	923	c.832G>T	c.(832-834)GCT>TCT	p.A278S	SP140L_uc010fxo.1_Missense_Mutation_p.A85S	NM_138402	NP_612411	Q9H930	LY10L_HUMAN	SP140 nuclear body protein-like	278						nucleus	DNA binding|metal ion binding			central_nervous_system(1)	1						GAGTGACAGAGCTCCACAGAA	0.378													3	24					0.014758	0.0150623	1	1	0		T	231253321	T	T	231253321	3	4	27	1	0	0	0	0	1	0	0	0	14988	971	34	5	870	5	SP140L	2	231253321	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	59815	231253321	11946052	1441	23792											
PSMD1	5707	broad.mit.edu	37	chr2	231948386	231948386	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaactcaacatgagaagaTtctgcgtggtcttgcagttg	12	11	11	7	1	3	3	1	1	2	3	3	4	3	3	0	1	4	2	0	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:231948386T>C	uc002vrn.1	+	14	1762	c.1631T>C	c.(1630-1632)ATT>ACT	p.I544T	PSMD1_uc002vrm.1_Missense_Mutation_p.I544T|PSMD1_uc010fxu.1_Missense_Mutation_p.I408T	NM_002807	NP_002798	Q99460	PSMD1_HUMAN	proteasome 26S non-ATPase subunit 1	544	PC 4.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding			ovary(1)|skin(1)	2		Ovarian(221;0.000626)|Medulloblastoma(418;0.0109)|Renal(207;0.0112)|Lung NSC(271;0.0538)|all_lung(227;0.0713)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;4e-26)|LUSC - Lung squamous cell carcinoma(224;0.0138)|Lung(119;0.0168)	Bortezomib(DB00188)	CATGAGAAGATTCTGCGTGGT	0.468													7	109					0	0	1	0	0		C	231948386	C	C	231948386	3	2	27	1	0	0	0	0	1	0	0	0	12714	1493	52	3	1685	3	PSMD1	2	231948386	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	695065	231948386	11250987	1442	23793											
HTR2B	3357	broad.mit.edu	37	chr2	231988258	231988258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaaacagccagaataacaAgggtatttccaccaattgtg	15	9	9	8	0	0	2	0	1	0	1	1	2	1	2	3	1	3	1	3	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:231988258A>G	uc002vro.2	-	2	726	c.221T>C	c.(220-222)CTT>CCT	p.L74P	PSMD1_uc002vrm.1_Intron|PSMD1_uc010fxu.1_Intron|PSMD1_uc002vrn.1_Intron|HTR2B_uc010fxv.2_Missense_Mutation_p.L74P	NM_000867	NP_000858	P41595	5HT2B_HUMAN	5-hydroxytryptamine (serotonin) receptor 2B	74	Helical; Name=1; (By similarity).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cardiac muscle hypertrophy|cellular response to calcium ion|cellular response to temperature stimulus|cGMP biosynthetic process|embryonic morphogenesis|ERK1 and ERK2 cascade|G-protein coupled receptor internalization|heart morphogenesis|intestine smooth muscle contraction|negative regulation of apoptosis|negative regulation of autophagy|neural crest cell migration|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|phosphorylation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of cytokine secretion|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAP kinase activity|positive regulation of nitric-oxide synthase activity|protein kinase C signaling cascade|regulation of behavior|release of sequestered calcium ion into cytosol|response to drug|vasoconstriction	cytoplasm|integral to membrane|plasma membrane	calcium channel activity|drug binding|G-protein alpha-subunit binding|phosphatidylinositol phospholipase C activity|Ras GTPase activator activity|serotonin binding|serotonin receptor activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;4.48e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0141)	Chlorprothixene(DB01239)|Eletriptan(DB00216)|Fenfluramine(DB00574)|Methotrimeprazine(DB01403)|Minaprine(DB00805)|Quetiapine(DB01224)|Sumatriptan(DB00669)|Tegaserod(DB01079)|Triflupromazine(DB00508)	CAGAATAACAAGGGTATTTCC	0.428													11	111					0	0	1	0	0		G	231988258	G	G	231988258	3	3	27	1	0	0	0	0	1	0	0	0	7458	72	3	3	1236	3	HTR2B	2	231988258	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	39872	231988258	11211115	1443	23794											
NCL	4691	broad.mit.edu	37	chr2	232325554	232325554	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcctttggctggtgtagTctccatagcttcttcttcag	4	18	8	11	0	4	0	1	0	3	0	6	0	5	0	2	2	1	3	2	2	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:232325554T>A	uc002vru.2	-	4	778	c.637A>T	c.(637-639)ACT>TCT	p.T213S	SNORD82_uc010fxw.1_5'Flank	NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	213					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		GCTGGTGTAGTCTCCATAGCT	0.323													10	122					0	0	1	0	0		A	232325554	A	A	232325554	3	1	27	1	0	0	0	0	1	0	0	0	10245	1667	58	5	1539	5	NCL	2	232325554	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	337296	232325554	10873819	1444	23795											
C2orf57	165100	broad.mit.edu	37	chr2	232458471	232458471	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacacggccagtgaggagaAcagctacatgcgctccatga	12	6	12	11	2	0	3	0	2	0	1	1	4	1	3	2	2	5	3	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:232458471A>G	uc002vrz.2	+	1	860	c.809A>G	c.(808-810)AAC>AGC	p.N270S		NM_152614	NP_689827	Q53QW1	CB057_HUMAN	hypothetical protein LOC165100	270										ovary(1)	1		Renal(207;0.025)|all_hematologic(139;0.0735)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;1.33e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)		AGTGAGGAGAACAGCTACATG	0.667													6	117					0	0	1	0	0		G	232458471	G	G	232458471	3	3	27	1	0	0	0	0	1	0	0	0	2181	43	2	3	811	3	C2orf57	2	232458471	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	132917	232458471	10740902	1445	23796											
DIS3L2	129563	broad.mit.edu	37	chr2	233194691	233194691	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccgtggacttcagctcCgcaggagccctcaatgtgag	7	8	12	14	2	2	1	2	1	0	0	3	3	3	3	3	2	3	2	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:233194691C>T	uc010fxz.2	+	15	2184	c.1908C>T	c.(1906-1908)TCC>TCT	p.S636S	DIS3L2_uc002vsm.3_RNA|DIS3L2_uc002vso.2_RNA	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.	636							exonuclease activity|ribonuclease activity|RNA binding			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(139;0.00809)|Renal(207;0.0113)|Acute lymphoblastic leukemia(138;0.0195)|all_lung(227;0.0465)|Lung NSC(271;0.136)		Epithelial(121;1.6e-13)|BRCA - Breast invasive adenocarcinoma(100;0.00104)|LUSC - Lung squamous cell carcinoma(224;0.0109)|Lung(119;0.0149)		ACTTCAGCTCCGCAGGAGCCC	0.647													6	60					0	0	1	0	0		T	233194691	T	T	233194691	2	4	27	1	0	0	0	0	0	0	0	1	4543	639	23	1		1	DIS3L2	2	233194691	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	736220	233194691	10004682	1446	23797											
ALPPL2	251	broad.mit.edu	37	chr2	233274458	233274458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcctggagccctacaccgCctgcgacctggcgccccgcg	4	5	12	20	5	0	0	0	0	0	0	0	2	0	1	7	2	4	0	7	2	1	1	rs138133953	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:233274458C>T	uc002vss.3	+	11	1528	c.1475C>T	c.(1474-1476)GCC>GTC	p.A492V		NM_031313	NP_112603	P10696	PPBN_HUMAN	placental-like alkaline phosphatase	492					phosphorylation	anchored to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			skin(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)|Levamisole(DB00848)	CCCTACACCGCCTGCGACCTG	0.736													6	19					0	0	1	0	0		T	233274458	T	T	233274458	3	4	27	1	0	0	0	0	1	0	0	0	549	739	26	2	1517	2	ALPPL2	2	233274458	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	79767	233274458	9924915	1447	23798											
ALPI	248	broad.mit.edu	37	chr2	233322832	233322832	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccccgcggcttctacctCtttgtggagggtgcgtggtg	4	11	14	12	3	2	0	0	0	2	0	2	1	2	1	3	4	3	1	3	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:233322832C>A	uc002vst.3	+	8	1058	c.981C>A	c.(979-981)CTC>CTA	p.L327L	ALPI_uc002vsu.3_Silent_p.L238L	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	327					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GCTTCTACCTCTTTGTGGAGG	0.667													8	55					0.00307968	0.00318367	1	1	0		A	233322832	A	A	233322832	2	1	27	1	0	0	0	0	0	0	0	1	543	900	32	5		5	ALPI	2	233322832	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	48374	233322832	9876541	1448	23799											
CHRNG	1146	broad.mit.edu	37	chr2	233404465	233404465	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagctgaggcaccatgcatgGgggccaggggccgctgctcc	6	5	17	13	1	0	1	0	1	0	0	1	2	1	1	4	5	3	5	4	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:233404465G>T	uc002vsx.1	+	1	29	c.8G>T	c.(7-9)GGG>GTG	p.G3V	CHRNG_uc010fyd.2_Missense_Mutation_p.G3V|CHRNG_uc010fye.1_Missense_Mutation_p.G3V	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	3					muscle contraction	cell junction|postsynaptic membrane	acetylcholine receptor activity				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;6.39e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00079)|LUSC - Lung squamous cell carcinoma(224;0.00757)|Lung(119;0.0086)		ACCATGCATGGGGGCCAGGGG	0.627													41	144					2.215e-12	2.46507e-12	1	1	0		T	233404465	T	T	233404465	3	4	27	1	0	0	0	0	1	0	0	0	3399	1232	43	5	10	5	CHRNG	2	233404465	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	81633	233404465	9794908	1449	23800											
GIGYF2	26058	broad.mit.edu	37	chr2	233620987	233620987	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcgattgacaggacgaGgaggaggaggaacagtggtg	11	6	18	6	2	0	1	0	1	0	0	1	8	1	6	1	6	2	0	1	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:233620987G>T	uc002vti.3	+	8	659	c.322G>T	c.(322-324)GGA>TGA	p.G108*	GIGYF2_uc010zmj.1_Nonsense_Mutation_p.G108*|GIGYF2_uc002vtg.2_Nonsense_Mutation_p.G108*|GIGYF2_uc002vtj.3_Nonsense_Mutation_p.G108*|GIGYF2_uc002vtk.3_Nonsense_Mutation_p.G108*|GIGYF2_uc002vth.3_Nonsense_Mutation_p.G108*|GIGYF2_uc010zmk.1_RNA	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	108	Poly-Gly.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		GACAGGACGAGGAGGAGGAGG	0.398													6	61					0.00198382	0.00205548	1	1	0		T	233620987	T	T	233620987	4	4	27	1	0	0	0	0	0	1	0	0	6393	1001	35	5	336	5	GIGYF2	2	233620987	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	216522	233620987	9578386	1450	23801											
NGEF	25791	broad.mit.edu	37	chr2	233744335	233744335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcaagatctcctcagtcatgGagctggggaaccagcctctc	9	9	10	13	0	5	1	3	0	2	1	7	3	5	3	3	3	3	1	3	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:233744335G>A	uc002vts.2	-	15	2245	c.1997C>T	c.(1996-1998)TCC>TTC	p.S666F	NGEF_uc010zmm.1_Missense_Mutation_p.S389F|NGEF_uc010fyg.1_Missense_Mutation_p.S574F	NM_019850	NP_062824	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor	666	SH3.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)|skin(1)	7		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		CTCAGTCATGGAGCTGGGGAA	0.582													5	89					0	0	1	0	0		A	233744335	A	A	233744335	3	1	27	1	0	0	0	0	1	0	0	0	10413	1174	41	4	139	4	NGEF	2	233744335	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	123348	233744335	9455038	1451	23802											
NGEF	25791	broad.mit.edu	37	chr2	233785033	233785033	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgggctgtaggatctcaagCaccccgctgctccggatctc	6	9	11	15	3	2	0	1	0	2	0	6	2	3	2	3	3	2	5	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:233785033C>T	uc002vts.2	-	5	1037	c.789G>A	c.(787-789)GTG>GTA	p.V263V	NGEF_uc010fyg.1_Silent_p.V171V|NGEF_uc002vtt.2_Silent_p.V171V	NM_019850	NP_062824	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor	263	Regulatory region; modulates activity toward RHOA, RAC1 and CDC42 (By similarity).				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)|skin(1)	7		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		GGATCTCAAGCACCCCGCTGC	0.637													6	74					0	0	1	0	0		T	233785033	T	T	233785033	2	4	27	1	0	0	0	0	0	0	0	1	10413	697	25	2		2	NGEF	2	233785033	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	40698	233785033	9414340	1452	23803											
INPP5D	3635	broad.mit.edu	37	chr2	234072495	234072495	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccctgagtgagaaggagtgGctggagatcctcaaacactc	11	7	12	11	0	1	3	1	2	0	2	3	6	2	4	3	3	1	1	3	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:234072495G>A	uc010zmo.1	+	11	1536	c.1383G>A	c.(1381-1383)TGG>TGA	p.W461*	INPP5D_uc010zmp.1_Nonsense_Mutation_p.W460*	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	461					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		AGAAGGAGTGGCTGGAGATCC	0.557													5	56					0	0	1	0	0		A	234072495	A	A	234072495	4	1	27	1	0	0	0	0	0	1	0	0	7772	1212	42	2	937	2	INPP5D	2	234072495	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	287462	234072495	9126878	1453	23804											
DGKD	8527	broad.mit.edu	37	chr2	234359623	234359623	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggagtctgtccctaggcagTtctgcttcccttccgcccca	4	11	10	16	1	2	0	0	0	2	0	5	1	5	1	5	2	1	3	5	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:234359623T>C	uc002vui.1	+	17	2106	c.2094T>C	c.(2092-2094)AGT>AGC	p.S698S	DGKD_uc002vuj.1_Silent_p.S654S|DGKD_uc010fyh.1_Silent_p.S565S|DGKD_uc010fyi.1_RNA	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	698					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	CCCTAGGCAGTTCTGCTTCCC	0.567													15	117					0	0	1	0	0		C	234359623	C	C	234359623	2	2	27	1	0	0	0	0	0	0	0	1	4473	1722	60	3		3	DGKD	2	234359623	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	287128	234359623	8839750	1454	23805											
DGKD	8527	broad.mit.edu	37	chr2	234368890	234368890	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaagcagaagtgcgagctGccccgccctccatcctgttc	8	7	10	16	2	0	1	0	0	0	1	3	3	2	1	5	0	4	3	5	0	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:234368890G>A	uc002vui.1	+	24	2892	c.2880G>A	c.(2878-2880)CTG>CTA	p.L960L	DGKD_uc002vuj.1_Silent_p.L916L|DGKD_uc010fyi.1_RNA	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	960				L -> V (in Ref. 1; BAC11809 and 4; BAA11134).	activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	AGTGCGAGCTGCCCCGCCCTC	0.592													6	48					0	0	1	0	0		A	234368890	A	A	234368890	2	1	27	1	0	0	0	0	0	0	0	1	4473	1306	46	2		2	DGKD	2	234368890	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9267	234368890	8830483	1455	23806											
UGT1A5	54579	broad.mit.edu	37	chr2	234621647	234621647	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctgctgagatggccacaGgactccaggttcccctgccg	6	9	11	15	1	1	1	0	1	1	1	3	3	3	2	5	3	2	2	5	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:234621647G>T	uc002vuw.2	+	1	10	c.10G>T	c.(10-12)GGA>TGA	p.G4*	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Nonsense_Mutation_p.G4*	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	4					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		GATGGCCACAGGACTCCAGGT	0.582													3	43					0.115264	0.116483	1	1	0		T	234621647	T	T	234621647	4	4	27	1	0	0	0	0	0	1	0	0	16974	1001	35	5	12	5	UGT1A5	2	234621647	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	252757	234621647	8577726	1456	23807											
UGT1A5	54579	broad.mit.edu	37	chr2	234621927	234621927	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccttttgctgggtcacaCtcaatcgttctttgaaacag	8	14	8	11	2	3	1	2	1	1	0	5	1	3	1	1	1	2	2	1	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:234621927C>T	uc002vuw.2	+	1	290	c.290C>T	c.(289-291)ACT>ATT	p.T97I	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Missense_Mutation_p.T97I	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	97					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		CTGGGTCACACTCAATCGTTC	0.388													14	103					0	0	1	0	0		T	234621927	T	T	234621927	3	4	27	1	0	0	0	0	1	0	0	0	16974	565	20	4	292	4	UGT1A5	2	234621927	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	280	234621927	8577446	1457	23808											
AGAP1	116987	broad.mit.edu	37	chr2	236945228	236945228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaagaaaattttgagtttAtcattgtgtccctcactggc	12	14	8	7	0	2	3	2	1	0	2	3	3	3	3	1	1	0	1	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:236945228A>G	uc002vvs.2	+	14	2264	c.1669A>G	c.(1669-1671)ATC>GTC	p.I557V	AGAP1_uc002vvt.2_Missense_Mutation_p.I504V	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	557	PH.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						TTTTGAGTTTATCATTGTGTC	0.517													8	122					0	0	1	0	0		G	236945228	G	G	236945228	3	3	27	1	0	0	0	0	1	0	0	0	366	449	16	3	1723	3	AGAP1	2	236945228	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2323301	236945228	6254145	1458	23809											
IQCA1	79781	broad.mit.edu	37	chr2	237374169	237374169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcattcgatgaaccaatgcCggatctggtcttgaaggttc	9	12	11	9	2	2	2	0	2	2	0	4	4	2	3	2	3	3	2	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:237374169C>T	uc002vvz.1	-	6	1087	c.905G>A	c.(904-906)CGG>CAG	p.R302Q	IQCA1_uc002vwb.2_Missense_Mutation_p.R309Q|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Missense_Mutation_p.R302Q	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	302							ATP binding			ovary(1)	1						GAACCAATGCCGGATCTGGTC	0.443													5	43					0	0	1	0	0		T	237374169	T	T	237374169	3	4	27	1	0	0	0	0	1	0	0	0	7818	652	23	1	1619	1	IQCA1	2	237374169	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	428941	237374169	5825204	1459	23810											
COL6A3	1293	broad.mit.edu	37	chr2	238249610	238249610	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgggatctgggctcatgTccagttgtctgaccaggtac	6	12	12	11	0	3	1	1	1	2	0	4	2	4	2	3	3	1	3	3	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:238249610T>A	uc002vwl.2	-	38	8234	c.7949A>T	c.(7948-7950)GAC>GTC	p.D2650V	COL6A3_uc002vwo.2_Missense_Mutation_p.D2444V|COL6A3_uc010znj.1_Missense_Mutation_p.D2043V|COL6A3_uc002vwj.2_Missense_Mutation_p.D31V	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2650	VWFA 12.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TGGGCTCATGTCCAGTTGTCT	0.557													8	88					0	0	1	0	0		A	238249610	A	A	238249610	3	1	27	1	0	0	0	0	1	0	0	0	3704	1667	58	5	1612	5	COL6A3	2	238249610	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	875441	238249610	4949763	1460	23811											
COL6A3	1293	broad.mit.edu	37	chr2	238253585	238253585	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcaccaaaatcaacttaccGtaacagcaagctagaaaaga	19	6	6	10	1	2	2	2	0	0	2	2	2	2	2	2	0	5	3	2	0	9	3	rs114248590	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:238253585G>A	uc002vwl.2	-	35	7458	c.7173C>T	c.(7171-7173)TAC>TAT	p.Y2391Y	COL6A3_uc002vwo.2_Silent_p.Y2185Y|COL6A3_uc010znj.1_Silent_p.Y1784Y|COL6A3_uc002vwj.2_5'Flank|COL6A3_uc002vwp.1_Silent_p.Y212Y	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2391	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TCAACTTACCGTAACAGCAAG	0.408													8	37					0	0	1	0	0		A	238253585	A	A	238253585	2	1	27	1	0	0	0	0	0	0	0	1	3704	1159	40	1		1	COL6A3	2	238253585	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3975	238253585	4945788	1461	23812											
COL6A3	1293	broad.mit.edu	37	chr2	238283322	238283322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacctgtcggccgtgaggaCgatcagcagctggggcacac	9	5	15	12	3	1	2	1	1	0	1	2	4	1	3	2	4	2	3	2	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:238283322C>T	uc002vwl.2	-	8	3697	c.3412G>A	c.(3412-3414)GTC>ATC	p.V1138I	COL6A3_uc002vwo.2_Missense_Mutation_p.V932I|COL6A3_uc010znj.1_Missense_Mutation_p.V531I|COL6A3_uc002vwq.2_Missense_Mutation_p.V932I|COL6A3_uc002vwr.2_Missense_Mutation_p.V731I	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1138	Nonhelical region.|VWFA 6.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GCCGTGAGGACGATCAGCAGC	0.632													4	77					0	0	1	0	0		T	238283322	T	T	238283322	3	4	27	1	0	0	0	0	1	0	0	0	3704	536	19	1	6316	1	COL6A3	2	238283322	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	29737	238283322	4916051	1462	23813											
COL6A3	1293	broad.mit.edu	37	chr2	238285615	238285615	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggttacttgctggcccaTccacacggtcagatgacctt	8	11	9	13	1	2	2	2	1	0	1	3	2	3	2	3	3	2	2	3	3	1	3	rs116294003	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:238285615T>C	uc002vwl.2	-	7	3155	c.2870A>G	c.(2869-2871)GAT>GGT	p.D957G	COL6A3_uc002vwo.2_Missense_Mutation_p.D751G|COL6A3_uc010znj.1_Missense_Mutation_p.D350G|COL6A3_uc002vwq.2_Missense_Mutation_p.D751G|COL6A3_uc002vwr.2_Missense_Mutation_p.D550G|COL6A3_uc010znk.1_Missense_Mutation_p.D757G	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	957	Nonhelical region.|VWFA 5.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TGCTGGCCCATCCACACGGTC	0.547													16	72					0	0	1	0	0		C	238285615	C	C	238285615	3	2	27	1	0	0	0	0	1	0	0	0	3704	1435	50	3	6862	3	COL6A3	2	238285615	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2293	238285615	4913758	1463	23814											
COL6A3	1293	broad.mit.edu	37	chr2	238296650	238296650	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggtggagtaggtgtccAaggagaacatggttctgggc	8	10	16	7	0	1	1	0	0	1	1	2	3	2	2	2	6	1	2	2	6	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:238296650A>G	uc002vwl.2	-	4	1172	c.887T>C	c.(886-888)TTG>TCG	p.L296S	COL6A3_uc002vwo.2_Missense_Mutation_p.L90S|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwq.2_Missense_Mutation_p.L90S|COL6A3_uc002vwr.2_Intron|COL6A3_uc010znk.1_Missense_Mutation_p.L296S	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	296	VWFA 2.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GTAGGTGTCCAAGGAGAACAT	0.547													4	65					0	0	1	0	0		G	238296650	G	G	238296650	3	3	27	1	0	0	0	0	1	0	0	0	3704	131	5	3	8857	3	COL6A3	2	238296650	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11035	238296650	4902723	1464	23815											
COL6A3	1293	broad.mit.edu	37	chr2	238296676	238296676	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacatggttctgggctcatcGctaaactggaccacccccac	10	8	8	15	1	2	0	1	0	1	0	3	1	2	1	3	3	2	3	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:238296676G>A	uc002vwl.2	-	4	1146	c.861C>T	c.(859-861)AGC>AGT	p.S287S	COL6A3_uc002vwo.2_Silent_p.S81S|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwq.2_Silent_p.S81S|COL6A3_uc002vwr.2_Intron|COL6A3_uc010znk.1_Silent_p.S287S	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	287	VWFA 2.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TGGGCTCATCGCTAAACTGGA	0.532													20	60					0	0	1	0	0		A	238296676	A	A	238296676	2	1	27	1	0	0	0	0	0	0	0	1	3704	1078	38	1		1	COL6A3	2	238296676	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26	238296676	4902697	1465	23816											
COL6A3	1293	broad.mit.edu	37	chr2	238303419	238303419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatcctcaactccaattgCaaacacgttaacatcagcag	14	9	5	13	1	2	0	2	0	0	0	4	0	4	0	2	0	6	4	2	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:238303419C>T	uc002vwl.2	-	3	805	c.520G>A	c.(520-522)GCA>ACA	p.A174T	COL6A3_uc002vwo.2_Intron|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwq.2_Intron|COL6A3_uc002vwr.2_Intron|COL6A3_uc010znk.1_Missense_Mutation_p.A174T	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	174	VWFA 1.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		ACTCCAATTGCAAACACGTTA	0.448													7	87					0	0	1	0	0		T	238303419	T	T	238303419	3	4	27	1	0	0	0	0	1	0	0	0	3704	710	25	2	9228	2	COL6A3	2	238303419	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6743	238303419	4895954	1466	23817											
RBM44	375316	broad.mit.edu	37	chr2	238725827	238725827	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgagtcaagatactaacAcagagagtactcagtttcag	15	9	9	8	0	3	3	3	1	0	2	3	4	3	3	0	0	3	2	0	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:238725827A>C	uc002vxi.3	+	3	400	c.268A>C	c.(268-270)ACA>CCA	p.T90P		NM_001080504	NP_001073973	Q6ZP01	RBM44_HUMAN	RNA binding motif protein 44	89							nucleotide binding|RNA binding			ovary(4)	4		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;3.74e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.3e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000118)|Lung(119;0.0112)|LUSC - Lung squamous cell carcinoma(224;0.0266)		AGATACTAACACAGAGAGTAC	0.318													5	81					0	0	1	0	0		C	238725827	C	C	238725827	3	2	27	1	0	0	0	0	1	0	0	0	13163	159	6	5	274	5	RBM44	2	238725827	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	422408	238725827	4473546	1467	23818											
SCLY	51540	broad.mit.edu	37	chr2	238999895	238999895	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgattgctggccttgggaaGgtgagccctggtgagcttga	7	11	16	7	0	0	4	0	4	0	0	0	5	0	5	2	4	3	2	2	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:238999895G>T	uc010fyv.2	+	8	985	c.921G>T	c.(919-921)AAG>AAT	p.K307N	SCLY_uc002vxm.3_Missense_Mutation_p.K274N|SCLY_uc002vxn.2_Missense_Mutation_p.K307N|SCLY_uc010znq.1_Intron|SCLY_uc010znr.1_Missense_Mutation_p.K213N	NM_016510	NP_057594	Q96I15	SCLY_HUMAN	selenocysteine lyase	307					cellular amino acid metabolic process	cytosol	pyridoxal phosphate binding|selenocysteine lyase activity|transferase activity			ovary(2)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;1.37e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.6e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;8.25e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000128)|Lung(119;0.0118)|LUSC - Lung squamous cell carcinoma(224;0.0285)		GCCTTGGGAAGGTGAGCCCTG	0.478													11	148					4.36969e-10	4.83317e-10	1	1	0		T	238999895	T	T	238999895	3	4	27	1	0	0	0	0	1	0	0	0	13932	1014	35	5	951	5	SCLY	2	238999895	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	274068	238999895	4199478	1468	23819											
ESPNL	339768	broad.mit.edu	37	chr2	239040248	239040248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagcggccctgagcccacaGcacagcggctggggtcccgc	6	3	15	17	3	0	1	0	1	0	0	1	1	1	1	3	4	4	3	3	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:239040248G>A	uc002vxq.3	+	9	3003	c.2893G>A	c.(2893-2895)GCA>ACA	p.A965T	ESPNL_uc010fyw.2_Missense_Mutation_p.A661T	NM_194312	NP_919288	Q6ZVH7	ESPNL_HUMAN	espin-like	965										pancreas(1)	1		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;4.71e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.02e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.63e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000109)|Lung(119;0.0108)|LUSC - Lung squamous cell carcinoma(224;0.0253)		TGAGCCCACAGCACAGCGGCT	0.682													3	36					0	0	1	0	0		A	239040248	A	A	239040248	3	1	27	1	0	0	0	0	1	0	0	0	5263	971	34	2	2927	2	ESPNL	2	239040248	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	40353	239040248	4159125	1469	23820											
OR6B3	150681	broad.mit.edu	37	chr2	240985382	240985382	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggttctccaccaggacaaaGaggtaggtgagcaggaagag	14	5	15	7	0	1	3	0	1	1	2	2	5	1	5	2	5	1	3	2	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:240985382G>A	uc010zoe.1	-	1	108	c.108C>T	c.(106-108)CTC>CTT	p.L36L	PRR21_uc010zod.1_5'Flank	NM_173351	NP_775486	Q8NGW1	OR6B3_HUMAN	olfactory receptor, family 6, subfamily B,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;1.05e-29)|all cancers(36;3.52e-28)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)|Colorectal(34;0.019)|COAD - Colon adenocarcinoma(134;0.141)		CCAGGACAAAGAGGTAGGTGA	0.592													7	74					0	0	1	0	0		A	240985382	A	A	240985382	2	1	27	1	0	0	0	0	0	0	0	1	11208	929	33	4		4	OR6B3	2	240985382	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1945134	240985382	2213991	1470	23821											
RNPEPL1	57140	broad.mit.edu	37	chr2	241513717	241513717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggaagagatgtggctgagcGagggcctggccacctatgcc	8	6	17	10	1	0	2	0	1	0	1	0	5	0	3	4	4	2	1	4	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:241513717G>A	uc002vzi.2	+	5	1026	c.433G>A	c.(433-435)GAG>AAG	p.E145K	RNPEPL1_uc010fzf.2_5'UTR|RNPEPL1_uc002vzj.2_5'Flank	NM_018226	NP_060696	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like	145		Zinc; catalytic (By similarity).			leukotriene biosynthetic process|proteolysis		aminopeptidase activity|metallopeptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)		GTGGCTGAGCGAGGGCCTGGC	0.667													10	34					0	0	1	0	0		A	241513717	A	A	241513717	3	1	27	1	0	0	0	0	1	0	0	0	13535	1059	37	1	443	1	RNPEPL1	2	241513717	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	528335	241513717	1685656	1471	23822											
KIF1A	547	broad.mit.edu	37	chr2	241689868	241689868	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatggcctggacggccacGcggaggaagcccttcacctc	8	5	14	14	3	1	1	1	0	0	1	2	5	1	4	4	5	1	0	4	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:241689868G>A	uc002vzy.2	-	26	2798	c.2652C>T	c.(2650-2652)CGC>CGT	p.R884R	KIF1A_uc010fzk.2_Silent_p.R985R|KIF1A_uc002vzz.1_Silent_p.R985R	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	884					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		GGACGGCCACGCGGAGGAAGC	0.657													5	36					0	0	1	0	0		A	241689868	A	A	241689868	2	1	27	1	0	0	0	0	0	0	0	1	8299	1074	38	1		1	KIF1A	2	241689868	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	176151	241689868	1509505	1472	23823											
SNED1	25992	broad.mit.edu	37	chr2	241992711	241992711	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccgggtctgccagccacAcggtgtctggagtgagcctc	6	8	13	14	2	2	1	0	1	2	0	4	2	3	2	4	3	3	0	4	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:241992711A>G	uc002wah.1	+	16	2225	c.2225A>G	c.(2224-2226)CAC>CGC	p.H742R		NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	742	Sushi.				cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		TGCCAGCCACACGGTGTCTGG	0.687													8	66					0	0	1	0	0		G	241992711	G	G	241992711	3	3	27	1	0	0	0	0	1	0	0	0	14870	159	6	3	2287	3	SNED1	2	241992711	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	302843	241992711	1206662	1473	23824											
SNED1	25992	broad.mit.edu	37	chr2	242009574	242009574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtgcagagcacggagctcGggccgcagcacagcgagccc	9	2	15	15	4	0	1	0	0	0	1	1	3	0	2	2	2	6	5	2	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:242009574G>A	uc002wah.1	+	24	3547	c.3547G>A	c.(3547-3549)GGG>AGG	p.G1183R	SNED1_uc002wai.1_Missense_Mutation_p.G418R|SNED1_uc002waj.1_Missense_Mutation_p.G270R|SNED1_uc002wak.2_Missense_Mutation_p.G270R|SNED1_uc002wal.2_5'Flank	NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	1183	Fibronectin type-III 3.				cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		CACGGAGCTCGGGCCGCAGCA	0.682													3	10					0	0	1	0	0		A	242009574	A	A	242009574	3	1	27	1	0	0	0	0	1	0	0	0	14870	1116	39	1	3641	1	SNED1	2	242009574	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16863	242009574	1189799	1474	23825											
SNED1	25992	broad.mit.edu	37	chr2	242021174	242021174	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgcccacagctgtgactgCgggccagggttcaaaggcag	9	5	15	12	2	1	1	1	1	0	0	1	2	1	1	2	3	2	3	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:242021174C>T	uc002wah.1	+	28	3999	c.3999C>T	c.(3997-3999)TGC>TGT	p.C1333C	SNED1_uc002wai.1_Silent_p.C535C|SNED1_uc002waj.1_Silent_p.C387C	NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	1333	EGF-like 15.				cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		GCTGTGACTGCGGGCCAGGGT	0.632													4	11					0	0	1	0	0		T	242021174	T	T	242021174	2	4	27	1	0	0	0	0	0	0	0	1	14870	776	27	1		1	SNED1	2	242021174	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11600	242021174	1178199	1475	23826											
PPP1R7	5510	broad.mit.edu	37	chr2	242122098	242122098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgagagctggagcgacctcGacgagctgaagggagccagg	10	5	17	9	3	0	2	0	2	0	1	1	8	0	4	2	3	4	2	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:242122098G>A	uc002wat.1	+	10	958	c.943G>A	c.(943-945)GAC>AAC	p.D315N	PPP1R7_uc002wau.1_Missense_Mutation_p.D272N|PPP1R7_uc002wav.1_Missense_Mutation_p.D241N	NM_002712	NP_002703	Q15435	PP1R7_HUMAN	protein phosphatase 1, regulatory subunit 7	315	LRR 11.					cytoplasm|nucleus	protein binding|protein phosphatase type 1 regulator activity			ovary(3)	3		all_cancers(19;6.1e-33)|all_epithelial(40;1.07e-13)|Breast(86;0.000141)|Renal(207;0.00528)|all_lung(227;0.0446)|Ovarian(221;0.104)|Lung NSC(271;0.115)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.92e-32)|all cancers(36;5.35e-29)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-14)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.24e-08)|BRCA - Breast invasive adenocarcinoma(100;3.56e-06)|Lung(119;0.000588)|LUSC - Lung squamous cell carcinoma(224;0.0048)|Colorectal(34;0.0137)|COAD - Colon adenocarcinoma(134;0.096)		GAGCGACCTCGACGAGCTGAA	0.607													8	66					0	0	1	0	0		A	242122098	A	A	242122098	3	1	27	1	0	0	0	0	1	0	0	0	12398	1058	37	1	981	1	PPP1R7	2	242122098	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	100924	242122098	1077275	1476	23827											
BOK	666	broad.mit.edu	37	chr2	242501857	242501857	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcctgtggtgaccgatgcGttcctggccgtggctggcca	4	9	16	12	3	0	1	0	1	0	0	1	3	1	1	5	4	2	2	5	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:242501857G>A	uc002wbq.2	+	3	561	c.315G>A	c.(313-315)GCG>GCA	p.A105A		NM_032515	NP_115904	Q9UMX3	BOK_HUMAN	BCL2-related ovarian killer	105					activation of caspase activity|cell proliferation|signal transduction by p53 class mediator resulting in induction of apoptosis	mitochondrial membrane|nucleus				ovary(1)	1		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;2.04e-33)|all cancers(36;7.87e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.52e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.64e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0835)		TGACCGATGCGTTCCTGGCCG	0.642													11	49					0	0	1	0	0		A	242501857	A	A	242501857	2	1	27	1	0	0	0	0	0	0	0	1	1485	1132	40	1		1	BOK	2	242501857	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	379759	242501857	697516	1477	23828											
D2HGDH	728294	broad.mit.edu	37	chr2	242690780	242690780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtgaccgatgggaccatgGccaccgaccagaggaaagtc	11	5	14	11	2	0	2	0	1	0	1	1	6	0	4	5	4	0	0	5	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:242690780G>A	uc002wce.1	+	8	1290	c.1117G>A	c.(1117-1119)GCC>ACC	p.A373T	D2HGDH_uc010zpc.1_RNA|D2HGDH_uc010fzq.1_Missense_Mutation_p.A239T|D2HGDH_uc002wcg.1_Intron|D2HGDH_uc002wch.2_Intron|D2HGDH_uc002wci.2_Missense_Mutation_p.A72T	NM_152783	NP_689996	Q8N465	D2HDH_HUMAN	D-2-hydroxyglutarate dehydrogenase precursor	373					2-oxoglutarate metabolic process|cellular protein metabolic process|response to cobalt ion|response to manganese ion|response to zinc ion	mitochondrial matrix	(R)-2-hydroxyglutarate dehydrogenase activity|flavin adenine dinucleotide binding|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		TGGGACCATGGCCACCGACCA	0.637													5	32					0	0	1	0	0		A	242690780	A	A	242690780	3	1	27	1	0	0	0	0	1	0	0	0	4216	1203	42	2	1143	2	D2HGDH	2	242690780	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	188923	242690780	508593	1478	23829											
NEU4	129807	broad.mit.edu	37	chr2	242757513	242757513	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggaccagccctcactccttCgccttctacagcgatgacca	8	8	7	18	3	2	1	1	1	1	0	4	3	3	2	5	1	3	0	5	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr2:242757513C>T	uc010fzr.2	+	4	680	c.594C>T	c.(592-594)TTC>TTT	p.F198F	NEU4_uc002wcl.2_RNA|NEU4_uc002wcm.2_Silent_p.F198F|NEU4_uc002wcn.1_Silent_p.F210F|NEU4_uc002wco.1_Silent_p.F198F|NEU4_uc002wcp.1_Silent_p.F210F	NM_080741	NP_542779	Q8WWR8	NEUR4_HUMAN	sialidase 4	198						lysosomal lumen|organelle inner membrane	exo-alpha-sialidase activity|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;3.84e-33)|all cancers(36;8.08e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.41e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0825)		CTCACTCCTTCGCCTTCTACA	0.687													4	25					0	0	1	0	0		T	242757513	T	T	242757513	2	4	27	1	0	0	0	0	0	0	0	1	10363	883	31	1		1	NEU4	2	242757513	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	66733	242757513	441860	1479	23830											
CNTN6	27255	broad.mit.edu	37	chr3	1262436	1262436	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtcatttttcctttggatTtatcaaaatctgaggtcatc	10	18	6	7	0	4	1	3	1	1	0	6	2	5	2	1	2	0	0	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:1262436T>A	uc003boz.2	+	3	388	c.121T>A	c.(121-123)TTA>ATA	p.L41I	CNTN6_uc010hbo.2_Missense_Mutation_p.L36I|CNTN6_uc011asj.1_5'UTR|CNTN6_uc003bpa.2_Missense_Mutation_p.L41I	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	41	Ig-like C2-type 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TCCTTTGGATTTATCAAAATC	0.378													16	124					0	0	1	0	0		A	1262436	A	A	1262436	3	1	27	1	0	0	0	0	1	0	0	0	3648	1838	64	5	127	5	CNTN6	3	1262436	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08		1262436	196759994	1480	23831											
CNTN6	27255	broad.mit.edu	37	chr3	1369239	1369239	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagaaaacaaatatcagatAatttatgcaaatgctgaatt	19	11	6	5	0	1	3	1	1	0	2	1	3	1	3	0	0	3	3	0	0	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:1369239A>T	uc003boz.2	+	10	1449	c.1182A>T	c.(1180-1182)ATA>ATT	p.I394I	CNTN6_uc011asj.1_Silent_p.I322I|CNTN6_uc003bpa.2_Silent_p.I394I	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	394	Ig-like C2-type 4.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		AATATCAGATAATTTATGCAA	0.333													10	44					0	0	1	0	0		T	1369239	T	T	1369239	2	4	27	1	0	0	0	0	0	0	0	1	3648	352	13	5		5	CNTN6	3	1369239	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	106803	1369239	196653191	1481	23832											
CNTN6	27255	broad.mit.edu	37	chr3	1427478	1427478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgttaccaccaaaaagTctcgtaagtatgcatacact	15	11	5	10	1	2	0	1	0	1	0	3	0	2	0	2	0	3	4	2	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:1427478T>C	uc003boz.2	+	20	2968	c.2701T>C	c.(2701-2703)TCT>CCT	p.S901P	CNTN6_uc011asj.1_Missense_Mutation_p.S829P|CNTN6_uc003bpa.2_Missense_Mutation_p.S901P	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	901					axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		CACCAAAAAGTCTCGTAAGTA	0.448													7	110					0	0	1	0	0		C	1427478	C	C	1427478	3	2	27	1	0	0	0	0	1	0	0	0	3648	1667	58	3	2775	3	CNTN6	3	1427478	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	58239	1427478	196594952	1482	23833											
CNTN6	27255	broad.mit.edu	37	chr3	1444125	1444125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taagaacagtcagtgatggtGgagatggaagcagcagtgag	14	7	16	4	0	1	4	1	2	0	2	1	6	1	5	0	3	3	2	0	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:1444125G>A	uc003boz.2	+	22	3208	c.2941G>A	c.(2941-2943)GGA>AGA	p.G981R	CNTN6_uc011asj.1_Missense_Mutation_p.G909R|CNTN6_uc003bpa.2_Missense_Mutation_p.G981R	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	981	Fibronectin type-III 4.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		CAGTGATGGTGGAGATGGAAG	0.388													4	49					0	0	1	0	0		A	1444125	A	A	1444125	3	1	27	1	0	0	0	0	1	0	0	0	3648	1349	47	4	3023	4	CNTN6	3	1444125	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16647	1444125	196578305	1483	23834											
CNTN4	152330	broad.mit.edu	37	chr3	3081933	3081933	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccctttcagtcccaccacGgtggtgtattctgcagaaga	8	10	11	12	1	2	2	1	0	1	2	3	2	3	2	3	3	1	2	3	3	2	3	rs150012927		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:3081933G>A	uc003bpc.2	+	19	2597	c.2376G>A	c.(2374-2376)ACG>ACA	p.T792T	CNTN4_uc003bpb.1_Silent_p.T463T|CNTN4_uc003bpe.2_Silent_p.T464T|CNTN4_uc003bpf.2_Silent_p.T463T|CNTN4_uc003bpg.2_Silent_p.T48T	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	792	Fibronectin type-III 2.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		GTCCCACCACGGTGGTGTATT	0.433													14	63					0	0	1	0	0		A	3081933	A	A	3081933	2	1	27	1	0	0	0	0	0	0	0	1	3646	1103	39	1		1	CNTN4	3	3081933	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1637808	3081933	194940497	1484	23835											
IL5RA	3568	broad.mit.edu	37	chr3	3118291	3118291	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgacaaaccactctctcaAgggcttgtgttcatcatttc	11	13	6	11	0	4	1	3	1	1	0	6	1	4	1	1	1	1	2	1	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:3118291A>G	uc011ask.1	-	11	1659	c.1015T>C	c.(1015-1017)TTG>CTG	p.L339L	IL5RA_uc010hbq.2_Silent_p.L244L|IL5RA_uc010hbr.2_Silent_p.L130L|IL5RA_uc010hbs.2_Silent_p.L339L|IL5RA_uc011asl.1_Silent_p.L339L|IL5RA_uc010hbp.2_Silent_p.L50L	NM_000564	NP_000555	Q01344	IL5RA_HUMAN	interleukin 5 receptor, alpha isoform 1	339	Extracellular (Potential).				cell proliferation	extracellular space|integral to membrane|plasma membrane	interleukin-5 receptor activity			ovary(1)	1				Epithelial(13;0.00278)|all cancers(10;0.00809)|OV - Ovarian serous cystadenocarcinoma(96;0.00944)		CACTCTCTCAAGGGCTTGTGT	0.338													4	56					0	0	1	0	0		G	3118291	G	G	3118291	2	3	27	1	0	0	0	0	0	0	0	1	7716	69	3	3		3	IL5RA	3	3118291	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	36358	3118291	194904139	1485	23836											
TRNT1	51095	broad.mit.edu	37	chr3	3188145	3188145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaattgtagacaaacctggtGaccatgatcctgagactttg	12	11	10	8	0	0	4	0	3	0	2	1	6	1	4	3	1	1	1	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:3188145G>A	uc003bpp.3	+	6	742	c.640G>A	c.(640-642)GAC>AAC	p.D214N	TRNT1_uc010hbv.2_Missense_Mutation_p.D214N|TRNT1_uc003bpm.2_RNA	NM_182916	NP_886552	Q96Q11	TRNT1_HUMAN	tRNA nucleotidyl transferase, CCA-adding, 1	214					protein targeting to mitochondrion|tRNA 3'-end processing	mitochondrion	ATP binding|tRNA adenylyltransferase activity|tRNA binding				0				Epithelial(13;0.00226)|OV - Ovarian serous cystadenocarcinoma(96;0.00592)|all cancers(10;0.011)		CAAACCTGGTGACCATGATCC	0.378													6	65					0	0	1	0	0		A	3188145	A	A	3188145	3	1	27	1	0	0	0	0	1	0	0	0	16599	1290	45	4	658	4	TRNT1	3	3188145	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	69854	3188145	194834285	1486	23837											
CRBN	51185	broad.mit.edu	37	chr3	3192623	3192623	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggcaacagagcagatcGcgttaagccccaaaattttt	12	9	10	10	3	0	2	0	0	0	2	1	2	0	2	2	1	3	3	2	1	4	3	rs121918368		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:3192623G>A	uc003bpq.2	-	11	1274	c.1255C>T	c.(1255-1257)CGA>TGA	p.R419*	CRBN_uc003bpr.2_Nonsense_Mutation_p.R418*|CRBN_uc010hbw.2_Nonsense_Mutation_p.R375*	NM_016302	NP_057386	Q96SW2	CRBN_HUMAN	cereblon	419	Thalidomide-binding.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul4A-RING ubiquitin ligase complex|cytoplasm|membrane|nucleus	ATP-dependent peptidase activity|protein binding			ovary(1)	1				Epithelial(13;0.00244)|OV - Ovarian serous cystadenocarcinoma(96;0.00617)|all cancers(10;0.0079)		AGAGCAGATCGCGTTAAGCCC	0.423													5	40					0	0	1	0	0		A	3192623	A	A	3192623	4	1	27	1	0	0	0	0	0	1	0	0	3854	1095	38	1	77	1	CRBN	3	3192623	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4478	3192623	194829807	1487	23838											
CRBN	51185	broad.mit.edu	37	chr3	3192649	3192649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agccccaaaatttttgaggtGacatgtcttttttggtggcc	8	15	10	8	0	1	2	0	2	1	0	1	2	1	2	3	3	1	0	3	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:3192649G>A	uc003bpq.2	-	11	1248	c.1229C>T	c.(1228-1230)TCA>TTA	p.S410L	CRBN_uc003bpr.2_Missense_Mutation_p.S409L|CRBN_uc010hbw.2_Missense_Mutation_p.S366L	NM_016302	NP_057386	Q96SW2	CRBN_HUMAN	cereblon	410	Thalidomide-binding.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul4A-RING ubiquitin ligase complex|cytoplasm|membrane|nucleus	ATP-dependent peptidase activity|protein binding			ovary(1)	1				Epithelial(13;0.00244)|OV - Ovarian serous cystadenocarcinoma(96;0.00617)|all cancers(10;0.0079)		TTTTTGAGGTGACATGTCTTT	0.423													5	39					0	0	1	0	0		A	3192649	A	A	3192649	3	1	27	1	0	0	0	0	1	0	0	0	3854	1294	45	4	103	4	CRBN	3	3192649	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26	3192649	194829781	1488	23839											
LRRN1	57633	broad.mit.edu	37	chr3	3887314	3887314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaactctcttacatccaccGcttggctttccgaagtgtcc	8	13	6	14	2	1	0	0	0	1	0	5	1	4	0	4	1	2	2	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:3887314G>A	uc003bpt.3	+	2	1750	c.989G>A	c.(988-990)CGC>CAC	p.R330H	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	330	LRR 10.|Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		TACATCCACCGCTTGGCTTTC	0.498													15	55					0	0	1	0	0		A	3887314	A	A	3887314	3	1	27	1	0	0	0	0	1	0	0	0	9052	1087	38	1	991	1	LRRN1	3	3887314	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	694665	3887314	194135116	1489	23840											
LRRN1	57633	broad.mit.edu	37	chr3	3887411	3887411	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtcgaatccctccccaaTctgcgtgagatcagtatcca	11	9	7	14	2	2	1	1	1	1	1	6	3	5	1	4	0	1	1	4	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:3887411T>A	uc003bpt.3	+	2	1847	c.1086T>A	c.(1084-1086)AAT>AAA	p.N362K	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	362	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		CCCTCCCCAATCTGCGTGAGA	0.493													8	99					0	0	1	0	0		A	3887411	A	A	3887411	3	1	27	1	0	0	0	0	1	0	0	0	9052	1432	50	5	1088	5	LRRN1	3	3887411	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	97	3887411	194135019	1490	23841											
LRRN1	57633	broad.mit.edu	37	chr3	3888210	3888210	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatctctgatcaagaaaccAgtacagcccttgctgcagta	13	9	7	12	0	2	2	1	1	1	1	3	2	2	2	2	0	5	4	2	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:3888210A>G	uc003bpt.3	+	2	2646	c.1885A>G	c.(1885-1887)AGT>GGT	p.S629G	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	629	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		TCAAGAAACCAGTACAGCCCT	0.438													6	117					0	0	1	0	0		G	3888210	G	G	3888210	3	3	27	1	0	0	0	0	1	0	0	0	9052	188	7	3	1887	3	LRRN1	3	3888210	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	799	3888210	194134220	1491	23842											
ITPR1	3708	broad.mit.edu	37	chr3	4558230	4558230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacatttgttctctgtacGcggagggatcgacaaatgga	11	10	13	7	3	1	1	0	0	1	1	3	6	1	4	0	3	1	2	0	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:4558230G>A	uc003bqa.2	+	3	403	c.55G>A	c.(55-57)GCG>ACG	p.A19T	ITPR1_uc010hbz.2_Missense_Mutation_p.A19T|ITPR1_uc010hca.1_Missense_Mutation_p.A19T|ITPR1_uc011asu.1_Missense_Mutation_p.A19T|ITPR1_uc010hcb.1_Missense_Mutation_p.A19T	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	19	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		TTCTCTGTACGCGGAGGGATC	0.378													11	156					0	0	1	0	0		A	4558230	A	A	4558230	3	1	27	1	0	0	0	0	1	0	0	0	7936	1087	38	1	57	1	ITPR1	3	4558230	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	670020	4558230	193464200	1492	23843											
ITPR1	3708	broad.mit.edu	37	chr3	4687267	4687267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcttgtgttgactgtcaggGtgacgtggtgaggctgtttc	4	16	15	6	1	2	3	1	3	1	0	3	3	2	3	0	3	0	3	0	3	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:4687267G>A	uc003bqa.2	+	10	1058	c.710G>A	c.(709-711)GGT>GAT	p.G237D	ITPR1_uc010hbz.2_Missense_Mutation_p.G237D|ITPR1_uc010hca.1_Missense_Mutation_p.G237D|ITPR1_uc011asu.1_Missense_Mutation_p.G237D|ITPR1_uc010hcb.1_Missense_Mutation_p.G237D	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	237	MIR 3.|Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GACTGTCAGGGTGACGTGGTG	0.478													4	33					0	0	1	0	0		A	4687267	A	A	4687267	3	1	27	1	0	0	0	0	1	0	0	0	7936	1275	44	4	740	4	ITPR1	3	4687267	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	129037	4687267	193335163	1493	23844											
ITPR1	3708	broad.mit.edu	37	chr3	4715020	4715020	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaacaagtcacccccgTgaaatatgcccgcctctggt	10	7	9	15	2	2	1	1	1	1	0	2	2	2	2	5	2	2	0	5	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:4715020T>C	uc003bqa.2	+	21	2753	c.2405T>C	c.(2404-2406)GTG>GCG	p.V802A	ITPR1_uc010hca.1_Missense_Mutation_p.V787A|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Missense_Mutation_p.V787A	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	802	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GTCACCCCCGTGAAATATGCC	0.557													10	102					0	0	1	0	0		C	4715020	C	C	4715020	3	2	27	1	0	0	0	0	1	0	0	0	7936	1696	59	3	2479	3	ITPR1	3	4715020	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	27753	4715020	193307410	1494	23845											
ITPR1	3708	broad.mit.edu	37	chr3	4817108	4817108	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccgaatactgtcaaggAccttgccatgagaaccaggt	12	8	10	11	1	1	2	1	2	0	1	1	5	1	3	4	2	3	0	4	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:4817108A>G	uc003bqa.2	+	44	6366	c.6018A>G	c.(6016-6018)GGA>GGG	p.G2006G	ITPR1_uc010hca.1_Silent_p.G1991G|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Silent_p.G976G	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	2054	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		ACTGTCAAGGACCTTGCCATG	0.413													4	118					0	0	1	0	0		G	4817108	G	G	4817108	2	3	27	1	0	0	0	0	0	0	0	1	7936	262	10	3		3	ITPR1	3	4817108	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	102088	4817108	193205322	1495	23846											
ITPR1	3708	broad.mit.edu	37	chr3	4842131	4842131	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accctggagccccactggtcGggactcctgtggacagccat	7	7	12	15	1	0	0	0	0	0	0	2	3	1	3	5	4	2	0	5	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:4842131G>A	uc003bqa.2	+	51	7158	c.6810G>A	c.(6808-6810)TCG>TCA	p.S2270S	ITPR1_uc010hca.1_Silent_p.S2255S|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Silent_p.S1240S|ITPR1_uc010hcc.1_Silent_p.S38S|ITPR1_uc011asv.1_5'UTR	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	2318	Helical; (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		CCCACTGGTCGGGACTCCTGT	0.552													16	73					0	0	1	0	0		A	4842131	A	A	4842131	2	1	27	1	0	0	0	0	0	0	0	1	7936	1103	39	1		1	ITPR1	3	4842131	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	25023	4842131	193180299	1496	23847											
GRM7	2917	broad.mit.edu	37	chr3	6903101	6903101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgaggaagctgctccGcgtcctgactttgatgaagt	8	10	12	11	2	0	4	0	4	0	0	2	5	2	5	3	1	3	3	3	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:6903101G>A	uc003bqm.2	+	1	300	c.26G>A	c.(25-27)CGC>CAC	p.R9H	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.R9H|GRM7_uc003bql.2_Missense_Mutation_p.R9H	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	9					negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	AAGCTGCTCCGCGTCCTGACT	0.716													4	14					0	0	1	0	0		A	6903101	A	A	6903101	3	1	27	1	0	0	0	0	1	0	0	0	6818	1087	38	1	28	1	GRM7	3	6903101	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2060970	6903101	191119329	1497	23848											
LMCD1	29995	broad.mit.edu	37	chr3	8590426	8590426	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgatggaagaatttgtcaAgcaatataagagcgaggccc	15	8	11	7	1	1	3	1	1	0	2	1	5	1	4	1	2	2	1	1	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:8590426A>G	uc003bqq.2	+	4	674	c.560A>G	c.(559-561)AAG>AGG	p.K187R	LMCD1_uc011atd.1_Missense_Mutation_p.K114R|LMCD1_uc011ate.1_Missense_Mutation_p.K75R|LMCD1_uc011atf.1_Missense_Mutation_p.K114R	NM_014583	NP_055398	Q9NZU5	LMCD1_HUMAN	LIM and cysteine-rich domains 1	187	PET.				positive regulation of calcineurin-NFAT signaling pathway|regulation of cardiac muscle hypertrophy|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus	transcription corepressor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(96;0.124)		GAATTTGTCAAGCAATATAAG	0.597													14	118					0	0	1	0	0		G	8590426	G	G	8590426	3	3	27	1	0	0	0	0	1	0	0	0	8861	72	3	3	574	3	LMCD1	3	8590426	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1687325	8590426	189432004	1498	23849											
C3orf32	51066	broad.mit.edu	37	chr3	8673737	8673737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagacaattcacttactaGtaaagggttgaaatgtccac	14	12	7	8	0	2	2	2	1	0	1	3	2	3	2	1	1	1	2	1	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:8673737G>A	uc003bqu.2	-	5	578	c.332C>T	c.(331-333)ACT>ATT	p.T111I	C3orf32_uc003bqz.2_Missense_Mutation_p.T111I|C3orf32_uc003bqt.2_Missense_Mutation_p.T60I|C3orf32_uc011atg.1_Missense_Mutation_p.T133I|C3orf32_uc003bqv.2_Missense_Mutation_p.T60I|C3orf32_uc003bqw.2_RNA|C3orf32_uc003bqx.2_RNA|C3orf32_uc003bqy.2_Missense_Mutation_p.T111I	NM_015931	NP_057015	Q9Y2M2	CC032_HUMAN	hypothetical protein LOC51066	111										skin(1)	1						TCACTTACTAGTAAAGGGTTG	0.423													4	50					0	0	1	0	0		A	8673737	A	A	8673737	3	1	27	1	0	0	0	0	1	0	0	0	2225	1029	36	4	761	4	C3orf32	3	8673737	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	83311	8673737	189348693	1499	23850											
OXTR	5021	broad.mit.edu	37	chr3	8794806	8794806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcggagcagcacaggaagcGctgcacgagttcgtggaaga	11	4	17	9	4	0	1	0	0	0	1	1	5	0	4	0	4	4	5	0	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:8794806G>A	uc003brc.2	-	4	1649	c.1027C>T	c.(1027-1029)CGC>TGC	p.R343C		NM_000916	NP_000907	P30559	OXYR_HUMAN	oxytocin receptor	343	Cytoplasmic (Potential).				female pregnancy|lactation|muscle contraction	integral to plasma membrane	oxytocin receptor activity|vasopressin receptor activity				0				OV - Ovarian serous cystadenocarcinoma(96;0.15)	Carbetocin(DB01282)	CACAGGAAGCGCTGCACGAGT	0.597													5	59					0	0	1	0	0		A	8794806	A	A	8794806	3	1	27	1	0	0	0	0	1	0	0	0	11357	1087	38	1	146	1	OXTR	3	8794806	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	121069	8794806	189227624	1500	23851											
OXTR	5021	broad.mit.edu	37	chr3	8794893	8794893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctggccaggagcatgaCgatgatgaaggccgaggctg	10	5	18	8	2	0	3	0	3	0	0	0	7	0	4	2	5	1	3	2	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:8794893C>T	uc003brc.2	-	4	1562	c.940G>A	c.(940-942)GTC>ATC	p.V314I		NM_000916	NP_000907	P30559	OXYR_HUMAN	oxytocin receptor	314	Helical; Name=7; (Potential).				female pregnancy|lactation|muscle contraction	integral to plasma membrane	oxytocin receptor activity|vasopressin receptor activity				0				OV - Ovarian serous cystadenocarcinoma(96;0.15)	Carbetocin(DB01282)	AGGAGCATGACGATGATGAAG	0.557													4	42					0	0	1	0	0		T	8794893	T	T	8794893	3	4	27	1	0	0	0	0	1	0	0	0	11357	536	19	1	233	1	OXTR	3	8794893	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	87	8794893	189227537	1501	23852											
OXTR	5021	broad.mit.edu	37	chr3	8809641	8809641	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgatgcttaggtgcttcAtgaagaagaagaggcgcgag	11	7	16	7	4	1	4	1	1	0	3	1	6	1	4	0	3	2	2	0	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:8809641A>G	uc003brc.2	-	3	855	c.233T>C	c.(232-234)ATG>ACG	p.M78T		NM_000916	NP_000907	P30559	OXYR_HUMAN	oxytocin receptor	78	Helical; Name=2; (Potential).				female pregnancy|lactation|muscle contraction	integral to plasma membrane	oxytocin receptor activity|vasopressin receptor activity				0				OV - Ovarian serous cystadenocarcinoma(96;0.15)	Carbetocin(DB01282)	TAGGTGCTTCATGAAGAAGAA	0.627													3	25					0	0	1	0	0		G	8809641	G	G	8809641	3	3	27	1	0	0	0	0	1	0	0	0	11357	217	8	3	944	3	OXTR	3	8809641	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14748	8809641	189212789	1502	23853											
SETD5	55209	broad.mit.edu	37	chr3	9517581	9517581	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcctttcctcagaactctAggtcgtcattgccatcagac	8	12	6	15	1	4	2	3	0	1	2	7	2	6	2	4	1	2	0	4	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:9517581A>G	uc003brt.2	+	23	4570	c.4135A>G	c.(4135-4137)AGG>GGG	p.R1379G	SETD5_uc003bru.2_Missense_Mutation_p.R1281G|SETD5_uc003brv.2_Missense_Mutation_p.R1268G|SETD5_uc010hck.2_Missense_Mutation_p.R861G|SETD5_uc003brx.2_Missense_Mutation_p.R1048G	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	1379	Ser-rich.									ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		TCAGAACTCTAGGTCGTCATT	0.542													5	70					0	0	1	0	0		G	9517581	G	G	9517581	3	3	27	1	0	0	0	0	1	0	0	0	14159	411	15	3	4217	3	SETD5	3	9517581	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	707940	9517581	188504849	1503	23854											
ARPC4	10093	broad.mit.edu	37	chr3	9870609	9870609	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttggatgggagagacacaaGggcctggacctcagttttct	9	11	13	8	0	2	1	1	0	1	1	2	5	2	4	2	4	0	1	2	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:9870609G>T	uc003btc.1	+	5	922	c.16G>T	c.(16-18)GGG>TGG	p.G6W	TTLL3_uc003btd.3_Intron|TTLL3_uc003btf.3_Intron|TTLL3_uc003btg.2_Intron|TTLL3_uc010hco.1_Intron|TTLL3_uc003bth.3_Intron|TTLL3_uc011atj.1_Intron|TTLL3_uc003btj.3_Intron|TTLL3_uc003bti.3_Intron			P59998	ARPC4_HUMAN	Homo sapiens Arp2/3 protein complex subunit p20-Arc (ARC20) mRNA, complete cds.	Error:Variant_position_missing_in_P59998_after_alignment					actin filament polymerization|actin nucleation	Arp2/3 protein complex|cell projection|cytoplasm	actin binding				0	Medulloblastoma(99;0.227)					AGAGACACAAGGGCCTGGACC	0.567													4	35					1	1	1	1	0		T	9870609	T	T	9870609	3	4	27	1	0	0	0	0	1	0	0	0	974	1015	35	5		5	ARPC4	3	9870609	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	353028	9870609	188151821	1504	23855											
IL17RC	84818	broad.mit.edu	37	chr3	9959109	9959109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccactgctctccggtgaGtctggaaccctggggagacg	7	8	13	13	2	2	2	0	1	2	1	3	4	2	3	3	4	3	1	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:9959109G>A	uc003bua.2	+	1	346	c.110G>A	c.(109-111)AGT>AAT	p.S37N	CIDEC_uc003bto.2_Intron|IL17RC_uc010hcr.2_Intron|IL17RC_uc011ato.1_Intron|IL17RC_uc010hcs.2_Intron|IL17RC_uc003btz.2_Intron|IL17RC_uc011atp.1_Intron|IL17RC_uc003bud.2_Intron|IL17RC_uc003bub.2_Intron|IL17RC_uc010hct.2_Intron|IL17RC_uc010hcu.2_Intron|IL17RC_uc010hcv.2_Intron|IL17RC_uc011atq.1_Intron|IL17RC_uc003buc.2_Intron	NM_153461	NP_703191	Q8NAC3	I17RC_HUMAN	interleukin 17 receptor C isoform 1 precursor	37	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|pancreas(1)	2						TCTCCGGTGAGTCTGGAACCC	0.607													4	48					0	0	1	0	0		A	9959109	A	A	9959109	3	1	27	1	0	0	0	0	1	0	0	0	7657	1029	36	4	112	4	IL17RC	3	9959109	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	88500	9959109	188063321	1505	23856											
PRRT3	285368	broad.mit.edu	37	chr3	9991568	9991568	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcatctcttcagcaggggCgtggcggacatcagagttcc	8	8	14	11	2	3	1	2	0	1	1	5	2	4	2	1	5	1	3	1	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:9991568C>T	uc003bul.2	-	2	362	c.232G>A	c.(232-234)GCC>ACC	p.A78T	CIDEC_uc003bto.2_Intron|PRRT3_uc003buk.2_RNA|PRRT3_uc003bum.2_Missense_Mutation_p.A78T	NM_207351	NP_997234	Q5FWE3	PRRT3_HUMAN	proline-rich transmembrane protein 3 precursor	78	Extracellular (Potential).					integral to membrane					0						TCAGCAGGGGCGTGGCGGACA	0.627													7	78					0	0	1	0	0		T	9991568	T	T	9991568	3	4	27	1	0	0	0	0	1	0	0	0	12633	768	27	1	2725	1	PRRT3	3	9991568	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	32459	9991568	188030862	1506	23857											
FANCD2	2177	broad.mit.edu	37	chr3	10091175	10091175	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctgctatgatgatgaatGctgtctttgtaaaggtatct	10	16	9	6	0	3	3	0	3	3	0	3	3	3	3	0	1	2	4	0	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:10091175G>A	uc003buw.2	+	17	1609	c.1531G>A	c.(1531-1533)GCT>ACT	p.A511T	FANCD2_uc003bux.1_Missense_Mutation_p.A511T|FANCD2_uc003buy.1_Missense_Mutation_p.A511T|FANCD2_uc010hcw.1_RNA	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	511					DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		GATGATGAATGCTGTCTTTGT	0.413			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				8	211					0	0	1	0	0		A	10091175	A	A	10091175	3	1	27	1	0	0	0	0	1	0	0	0	5679	1319	46	2	1593	2	FANCD2	3	10091175	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	99607	10091175	187931255	1507	23858											
FANCD2	2177	broad.mit.edu	37	chr3	10130195	10130195	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggataaagagaagagcaacAtctctaatgaccagctccat	16	7	9	9	0	1	3	0	1	1	2	3	5	2	4	2	1	3	2	2	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:10130195A>G	uc003buw.2	+	35	3607	c.3529A>G	c.(3529-3531)ATC>GTC	p.I1177V	FANCD2_uc003bux.1_Missense_Mutation_p.I1177V|FANCD2_uc003buy.1_Missense_Mutation_p.I1177V|FANCD2_uc010hcw.1_RNA|C3orf24_uc003buz.2_Intron	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	1177					DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		GAAGAGCAACATCTCTAATGA	0.433			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				5	79					0	0	1	0	0		G	10130195	G	G	10130195	3	3	27	1	0	0	0	0	1	0	0	0	5679	217	8	3	3663	3	FANCD2	3	10130195	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	39020	10130195	187892235	1508	23859											
IRAK2	3656	broad.mit.edu	37	chr3	10264468	10264468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgccagaggatttcatcCgggtggggcagctgacaaag	10	8	14	9	1	2	2	1	1	1	1	3	3	3	3	2	4	2	2	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:10264468C>T	uc003bve.1	+	9	1238	c.1162C>T	c.(1162-1164)CGG>TGG	p.R388W		NM_001570	NP_001561	O43187	IRAK2_HUMAN	interleukin-1 receptor-associated kinase 2	388	Protein kinase.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|endosome membrane|plasma membrane	ATP binding|NF-kappaB-inducing kinase activity|protein heterodimerization activity|protein homodimerization activity			lung(5)|breast(3)	8						GGATTTCATCCGGGTGGGGCA	0.527													20	113					0	0	1	0	0		T	10264468	T	T	10264468	3	4	27	1	0	0	0	0	1	0	0	0	7839	643	23	1	1196	1	IRAK2	3	10264468	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	134273	10264468	187757962	1509	23860											
ATP2B2	491	broad.mit.edu	37	chr3	10413630	10413630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcctgtaccactgtcatgcGattggtggtcagcgtgcctg	5	11	14	11	2	2	0	2	0	0	0	2	1	2	0	3	3	4	1	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:10413630G>A	uc003bvt.2	-	12	1961	c.1522C>T	c.(1522-1524)CGC>TGC	p.R508C	ATP2B2_uc003bvv.2_Missense_Mutation_p.R463C|ATP2B2_uc003bvw.2_Missense_Mutation_p.R463C|ATP2B2_uc010hdo.2_Missense_Mutation_p.R213C	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	508	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						ACTGTCATGCGATTGGTGGTC	0.557													7	118					0	0	1	0	0		A	10413630	A	A	10413630	3	1	27	1	0	0	0	0	1	0	0	0	1141	1058	37	1	2257	1	ATP2B2	3	10413630	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	149162	10413630	187608800	1510	23861											
ATP2B2	491	broad.mit.edu	37	chr3	10491114	10491114	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgaccacagcctcagtgccCcgcagctccatgagggagcg	8	6	12	15	2	1	2	1	2	0	0	2	3	2	3	5	1	4	2	5	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:10491114C>T	uc003bvt.2	-	2	553	c.114G>A	c.(112-114)CGG>CGA	p.R38R	ATP2B2_uc003bvv.2_Silent_p.R38R|ATP2B2_uc003bvw.2_Silent_p.R38R|ATP2B2_uc010hdp.2_Silent_p.R38R	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	38	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CCTCAGTGCCCCGCAGCTCCA	0.552													6	54					0	0	1	0	0		T	10491114	T	T	10491114	2	4	27	1	0	0	0	0	0	0	0	1	1141	610	22	4		4	ATP2B2	3	10491114	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	77484	10491114	187531316	1511	23862											
HRH1	3269	broad.mit.edu	37	chr3	11302082	11302082	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatttgcacatgttcacCatctggctgggctacatcaa	11	11	8	11	0	3	0	2	0	1	0	3	1	3	0	1	2	3	4	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:11302082C>T	uc010hdr.2	+	2	1701	c.1359C>T	c.(1357-1359)ACC>ACT	p.T453T	HRH1_uc010hds.2_Silent_p.T453T|HRH1_uc010hdt.2_Silent_p.T453T|HRH1_uc003bwb.3_Silent_p.T453T	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1	453	Helical; Name=7; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	ACATGTTCACCATCTGGCTGG	0.453													20	217					0	0	1	0	0		T	11302082	T	T	11302082	2	4	27	1	0	0	0	0	0	0	0	1	7371	581	21	4		4	HRH1	3	11302082	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	810968	11302082	186720348	1512	23863											
VGLL4	9686	broad.mit.edu	37	chr3	11643487	11643487	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgggttctcccctgagaGcagcttcgcctacgcagaga	7	10	11	13	2	2	2	0	1	2	2	4	4	2	2	3	1	3	4	3	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:11643487G>T	uc003bwf.2	-	3	440	c.74C>A	c.(73-75)GCT>GAT	p.A25D	VGLL4_uc010hdx.1_Missense_Mutation_p.A31D|VGLL4_uc003bwg.2_Missense_Mutation_p.A30D|VGLL4_uc011aun.1_5'UTR	NM_014667	NP_055482	Q14135	VGLL4_HUMAN	vestigial like 4 isoform b	25					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1				LUSC - Lung squamous cell carcinoma(1;0.089)|Lung(1;0.111)		TCCCCTGAGAGCAGCTTCGCC	0.637													6	44					0.0381472	0.0386818	1	1	0		T	11643487	T	T	11643487	3	4	27	1	0	0	0	0	1	0	0	0	17187	971	34	5	838	5	VGLL4	3	11643487	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	341405	11643487	186378943	1513	23864											
RAF1	5894	broad.mit.edu	37	chr3	12632428	12632428	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaattgccaggttgtccttTgtcatgtaccccatgaaaag	11	12	8	10	0	1	1	1	1	0	0	2	1	2	1	4	1	2	2	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:12632428T>G	uc003bxf.3	-	12	1654	c.1239A>C	c.(1237-1239)ACA>ACC	p.T413T	RAF1_uc011aut.1_Silent_p.T198T|RAF1_uc011auu.1_Silent_p.T331T	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	413	Protein kinase.				activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	GGTTGTCCTTTGTCATGTACC	0.433			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				12	159					0	0	1	0	0		G	12632428	G	G	12632428	2	3	27	1	0	0	0	0	0	0	0	1	13027	1799	63	5		5	RAF1	3	12632428	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	988941	12632428	185390002	1514	23865											
RAF1	5894	broad.mit.edu	37	chr3	12641249	12641249	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaatccgagtggacagcAtcacttcactggcttctatt	10	11	7	13	1	3	0	2	0	1	0	4	2	4	1	2	2	1	2	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:12641249A>G	uc003bxf.3	-	10	1464	c.1049T>C	c.(1048-1050)ATG>ACG	p.M350T	RAF1_uc011aut.1_Missense_Mutation_p.M135T|RAF1_uc011auu.1_Missense_Mutation_p.M268T	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	350	Protein kinase.				activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	AGTGGACAGCATCACTTCACT	0.458			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				11	103					0	0	1	0	0		G	12641249	G	G	12641249	3	3	27	1	0	0	0	0	1	0	0	0	13027	217	8	3	929	3	RAF1	3	12641249	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8821	12641249	185381181	1515	23866											
TMEM40	55287	broad.mit.edu	37	chr3	12783956	12783956	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggcaactgattacctcCatagagttgaagctcatcct	11	11	8	11	0	1	3	1	2	0	1	3	3	3	3	3	1	3	3	3	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:12783956C>A	uc003bxg.1	-	5	479	c.352G>T	c.(352-354)GGA>TGA	p.G118*	TMEM40_uc003bxh.1_Nonsense_Mutation_p.G88*|TMEM40_uc003bxi.1_Nonsense_Mutation_p.G42*|TMEM40_uc011auv.1_Nonsense_Mutation_p.G134*	NM_018306	NP_060776	Q8WWA1	TMM40_HUMAN	transmembrane protein 40	118						integral to membrane					0						TGATTACCTCCATAGAGTTGA	0.493													12	153					2.31682e-05	2.47736e-05	1	1	0		A	12783956	A	A	12783956	4	1	27	1	0	0	0	0	0	1	0	0	16188	603	21	5	381	5	TMEM40	3	12783956	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	142707	12783956	185238474	1516	23867											
CAND2	23066	broad.mit.edu	37	chr3	12858333	12858333	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcccgccatcaaggcgctTacgctggtggccgtatcccc	5	8	11	17	4	1	0	1	0	0	0	2	0	2	0	5	3	2	3	5	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:12858333T>C	uc003bxk.2	+	10	1951	c.1902T>C	c.(1900-1902)CTT>CTC	p.L634L	CAND2_uc003bxj.2_Silent_p.L541L	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	634	HEAT 13.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						TCAAGGCGCTTACGCTGGTGG	0.632													10	103					0	0	1	0	0		C	12858333	C	C	12858333	2	2	27	1	0	0	0	0	0	0	0	1	2619	1741	61	3		3	CAND2	3	12858333	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	74377	12858333	185164097	1517	23868											
IQSEC1	9922	broad.mit.edu	37	chr3	12944311	12944311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatcccgcactgctgcgacGccctcgcttccctgcccaga	5	7	9	20	5	0	1	0	0	0	1	3	3	2	1	4	0	3	3	4	0	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:12944311G>A	uc003bxt.2	-	13	2818	c.2809C>T	c.(2809-2811)CGT>TGT	p.R937C	IQSEC1_uc003bxu.3_Intron|IQSEC1_uc011auw.1_Missense_Mutation_p.R923C	NM_014869	NP_055684	Q6DN90	IQEC1_HUMAN	IQ motif and Sec7 domain 1 isoform b	937					regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1						CTGCTGCGACGCCCTCGCTTC	0.617													4	27					0	0	1	0	0		A	12944311	A	A	12944311	3	1	27	1	0	0	0	0	1	0	0	0	7833	1087	38	1	635	1	IQSEC1	3	12944311	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	85978	12944311	185078119	1518	23869											
IQSEC1	9922	broad.mit.edu	37	chr3	12977116	12977116	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagctgcagttgatggtaTcgttggagttggacgtgctg	6	12	17	6	3	0	1	0	1	0	0	1	4	0	4	0	4	3	7	0	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:12977116T>C	uc003bxt.2	-	3	1451	c.1442A>G	c.(1441-1443)GAT>GGT	p.D481G	IQSEC1_uc003bxu.3_Missense_Mutation_p.D359G|IQSEC1_uc011auw.1_Missense_Mutation_p.D467G	NM_014869	NP_055684	Q6DN90	IQEC1_HUMAN	IQ motif and Sec7 domain 1 isoform b	481					regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1						GTTGATGGTATCGTTGGAGTT	0.582													10	95					0	0	1	0	0		C	12977116	C	C	12977116	3	2	27	1	0	0	0	0	1	0	0	0	7833	1435	50	3	2042	3	IQSEC1	3	12977116	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	32805	12977116	185045314	1519	23870											
NUP210	23225	broad.mit.edu	37	chr3	13363106	13363106	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagttctccagaacctcCggggcaccaaagaccctgat	11	7	8	15	1	1	3	0	1	1	2	4	3	3	3	6	2	1	2	6	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:13363106C>T	uc003bxv.1	-	36	5228	c.5145G>A	c.(5143-5145)CCG>CCA	p.P1715P		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1715	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					CCAGAACCTCCGGGGCACCAA	0.607													13	115					0	0	1	0	0		T	13363106	T	T	13363106	2	4	27	1	0	0	0	0	0	0	0	1	10779	639	23	1		1	NUP210	3	13363106	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	385990	13363106	184659324	1520	23871											
NUP210	23225	broad.mit.edu	37	chr3	13370369	13370369	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacggtcattcccaaaggCacggccaccagggcctcctt	8	7	10	16	2	2	0	2	0	0	0	4	0	4	0	5	4	0	1	5	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:13370369C>T	uc003bxv.1	-	31	4271	c.4188G>A	c.(4186-4188)GTG>GTA	p.V1396V		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1396	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					TTCCCAAAGGCACGGCCACCA	0.537													8	61					0	0	1	0	0		T	13370369	T	T	13370369	2	4	27	1	0	0	0	0	0	0	0	1	10779	697	25	2		2	NUP210	3	13370369	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7263	13370369	184652061	1521	23872											
WNT7A	7476	broad.mit.edu	37	chr3	13896295	13896295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaggtgaacgcagcctcccGgctccctgcgaggaggagag	8	5	16	12	3	0	2	0	1	0	1	2	5	2	3	3	4	3	3	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:13896295G>A	uc003bye.1	-	3	609	c.304C>T	c.(304-306)CGG>TGG	p.R102W		NM_004625	NP_004616	O00755	WNT7A_HUMAN	wingless-type MMTV integration site family,	102					activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3						GCAGCCTCCCGGCTCCCTGCG	0.627													3	82					0	0	1	0	0		A	13896295	A	A	13896295	3	1	27	1	0	0	0	0	1	0	0	0	17420	1115	39	1	753	1	WNT7A	3	13896295	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	525926	13896295	184126135	1522	23873											
GRIP2	80852	broad.mit.edu	37	chr3	14545130	14545130	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggtcttcgagagcttCtccaaacatgcgccagaagc	10	8	9	14	2	2	2	0	0	2	2	5	3	3	2	3	1	4	1	3	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:14545130C>A	uc011avi.1	-	22	2917	c.2917G>T	c.(2917-2919)GAA>TAA	p.E973*	GRIP2_uc010heh.2_RNA|GRIP2_uc011avh.1_Nonsense_Mutation_p.E504*	NM_001080423	NP_001073892	Q9C0E4	GRIP2_HUMAN	glutamate receptor interacting protein 2	875					synaptic transmission	cytosol|plasma membrane	protein binding			pancreas(1)	1						TCGAGAGCTTCTCCAAACATG	0.652													3	17					0.150653	0.151846	1	1	0		A	14545130	A	A	14545130	4	1	27	1	0	0	0	0	0	1	0	0	6804	922	32	5	523	5	GRIP2	3	14545130	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	648835	14545130	183477300	1523	23874											
C3orf19	51244	broad.mit.edu	37	chr3	14708358	14708358	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctattatctgaagatatgAgaaaagaacttcagcgccag	15	9	8	9	1	2	4	1	2	1	3	2	5	2	4	2	0	2	0	2	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:14708358A>G	uc003byw.2	+	7	719	c.628A>G	c.(628-630)AGA>GGA	p.R210G	C3orf19_uc010hei.1_Missense_Mutation_p.R210G|C3orf19_uc010hej.2_Missense_Mutation_p.R115G	NM_016474	NP_057558	Q6PII3	CC019_HUMAN	hypothetical protein LOC51244	210											0						TGAAGATATGAGAAAAGAACT	0.413													11	185					0	0	1	0	0		G	14708358	G	G	14708358	3	3	27	1	0	0	0	0	1	0	0	0	2215	296	11	3	654	3	C3orf19	3	14708358	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	163228	14708358	183314072	1524	23875											
FGD5	152273	broad.mit.edu	37	chr3	14862604	14862604	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatgtggatgtgaacgtgTcttcctctaggtcctcttca	6	15	10	10	1	4	1	1	1	3	0	6	2	6	2	2	2	2	1	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:14862604T>C	uc003bzc.2	+	1	2136	c.2026T>C	c.(2026-2028)TCT>CCT	p.S676P	FGD5_uc011avk.1_Missense_Mutation_p.S676P	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	676					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						TGTGAACGTGTCTTCCTCTAG	0.507													3	60					0	0	1	0	0		C	14862604	C	C	14862604	3	2	27	1	0	0	0	0	1	0	0	0	5850	1667	58	3	2028	3	FGD5	3	14862604	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	154246	14862604	183159826	1525	23876											
FGD5	152273	broad.mit.edu	37	chr3	14949150	14949150	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccattcccacccacaggaaAacctgcagaagctggtccac	12	5	7	17	0	0	1	0	0	0	1	2	2	2	2	5	2	3	2	5	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:14949150A>G	uc003bzc.2	+	10	3378	c.3268A>G	c.(3268-3270)AAC>GAC	p.N1090D	FGD5_uc011avk.1_Missense_Mutation_p.N1090D|FGD5_uc003bzd.2_Missense_Mutation_p.N168D	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	1090					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						CCCACAGGAAAACCTGCAGAA	0.597													5	56					0	0	1	0	0		G	14949150	G	G	14949150	3	3	27	1	0	0	0	0	1	0	0	0	5850	14	1	3	3306	3	FGD5	3	14949150	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	86546	14949150	183073280	1526	23877											
FGD5	152273	broad.mit.edu	37	chr3	14960286	14960286	+	Missense_Mutation	SNP	T	C	C																															ccgccctgtgatggagaaagTgccctacgctctaaagattg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:14960286T>C	uc003bzc.2	+	13	3625	c.3515T>C	c.(3514-3516)GTG>GCG	p.V1172A	FGD5_uc011avk.1_Missense_Mutation_p.V1172A|FGD5_uc003bzd.2_Missense_Mutation_p.V250A	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	1172	PH 1.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						ATGGAGAAAGTGCCCTACGCT	0.607													5	74					0	0	1	0	0		C	14960286	C	C	14960286	3	2	27	1	0	0	0	0	1	0	0	0	5850	1696	59	3	3565	3	FGD5	3	14960286	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	11136	14960286	183062144	1527	23878	42	2									
FGD5	152273	broad.mit.edu	37	chr3	14960290	14960290	+	Silent	SNP	C	A	A																															cctgtgatggagaaagtgccCtacgctctaaagattgagac																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:14960290C>A	uc003bzc.2	+	13	3629	c.3519C>A	c.(3517-3519)CCC>CCA	p.P1173P	FGD5_uc011avk.1_Silent_p.P1173P|FGD5_uc003bzd.2_Silent_p.P251P	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	1173	PH 1.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						AGAAAGTGCCCTACGCTCTAA	0.602													8	74					3.86212e-05	4.11225e-05	1	1	0		A	14960290	A	A	14960290	2	1	27	1	0	0	0	0	0	0	0	1	5850	668	24	5		5	FGD5	3	14960290	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4	14960290	183062140	1528	23879	42	2									
FGD5	152273	broad.mit.edu	37	chr3	14967691	14967691	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggcaaagttctctacaccTacatggccagtgaggtagta	13	9	10	9	0	1	1	0	1	1	0	2	1	1	1	2	3	2	4	2	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:14967691T>C	uc003bzc.2	+	18	4293	c.4183T>C	c.(4183-4185)TAC>CAC	p.Y1395H	FGD5_uc011avk.1_Intron|FGD5_uc003bzd.2_Missense_Mutation_p.Y473H	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	1395	PH 2.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						TCTCTACACCTACATGGCCAG	0.547											OREG0015361	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	91					0	0	1	0	0		C	14967691	C	C	14967691	3	2	27	1	0	0	0	0	1	0	0	0	5850	1522	53	3	4253	3	FGD5	3	14967691	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7401	14967691	183054739	1529	23880											
MRPS25	64432	broad.mit.edu	37	chr3	15094115	15094115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgagaaagctgctttttctCctcctcctcttccctgaggg	5	14	9	13	0	2	2	0	2	2	1	6	3	5	2	4	1	2	2	4	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:15094115C>T	uc003bzl.2	-	4	470	c.355G>A	c.(355-357)GAG>AAG	p.E119K	MRPS25_uc011avl.1_Silent_p.R89R|MRPS25_uc011avm.1_Intron	NM_022497	NP_071942	P82663	RT25_HUMAN	mitochondrial ribosomal protein S25	119					translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0						TGCTTTTTCTCCTCCTCCTCT	0.582													28	125					0	0	1	0	0		T	15094115	T	T	15094115	3	4	27	1	0	0	0	0	1	0	0	0	9854	864	30	4	170	4	MRPS25	3	15094115	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	126424	15094115	182928315	1530	23881											
ZFYVE20	64145	broad.mit.edu	37	chr3	15116040	15116040	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatgccacccgaaactgcTccctttctcgttccaactcc	7	10	7	17	2	1	0	0	0	1	0	5	2	4	1	5	1	4	2	5	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:15116040T>A	uc003bzm.1	-	14	2218	c.1604A>T	c.(1603-1605)GAG>GTG	p.E535V	ZFYVE20_uc010hek.1_Missense_Mutation_p.E535V	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	535	Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						CCGAAACTGCTCCCTTTCTCG	0.617													9	81					0	0	1	0	0		A	15116040	A	A	15116040	3	1	27	1	0	0	0	0	1	0	0	0	17691	1551	54	5	754	5	ZFYVE20	3	15116040	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	21925	15116040	182906390	1531	23882											
ZFYVE20	64145	broad.mit.edu	37	chr3	15116197	15116197	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggttctcctgcagagtgcGcacttcatccatgcggcccg	6	9	11	15	3	2	1	1	0	1	1	4	1	3	1	3	2	3	3	3	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:15116197G>T	uc003bzm.1	-	14	2061	c.1447C>A	c.(1447-1449)CGC>AGC	p.R483S	ZFYVE20_uc010hek.1_Missense_Mutation_p.R483S	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	483	Necessary for the interaction with RAB4A.|Potential.|Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						TGCAGAGTGCGCACTTCATCC	0.617													5	116					3.59834e-05	3.83694e-05	1	1	0		T	15116197	T	T	15116197	3	4	27	1	0	0	0	0	1	0	0	0	17691	1087	38	5	911	5	ZFYVE20	3	15116197	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	157	15116197	182906233	1532	23883											
ZFYVE20	64145	broad.mit.edu	37	chr3	15127366	15127366	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttaagacaacaaaatttAccttctctaacctgattatt	14	16	3	8	0	1	2	0	1	1	1	2	2	1	2	2	0	3	1	2	0	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:15127366A>G	uc003bzm.1	-	6	1004	c.390_splice	c.e6+1	p.K130_splice	ZFYVE20_uc010hek.1_Splice_Site_p.K130_splice|ZFYVE20_uc011avn.1_Splice_Site_p.K130_splice	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein						blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						AACAAAATTTACCTTCTCTAA	0.328													17	229					0	0	1	0	0		G	15127366	G	G	15127366	5	3	27	1	0	0	0	0	0	0	1	0	17691	405	14	3	1998	3	ZFYVE20	3	15127366	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11169	15127366	182895064	1533	23884											
ANKRD28	23243	broad.mit.edu	37	chr3	15726808	15726808	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttgcatccatagatgctgCtgactgcaaaagggctccaa	12	10	9	10	0	0	2	0	1	0	1	2	2	2	2	2	1	4	5	2	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:15726808C>A	uc003caj.1	-	21	2367	c.2224G>T	c.(2224-2226)GCA>TCA	p.A742S	ANKRD28_uc003cai.1_Missense_Mutation_p.A588S|ANKRD28_uc011avz.1_Missense_Mutation_p.A588S|ANKRD28_uc003cak.1_RNA|ANKRD28_uc011awa.1_RNA|ANKRD28_uc003cal.1_Missense_Mutation_p.A772S|ANKRD28_uc003cam.2_Missense_Mutation_p.A775S	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28	742	ANK 21.					nucleoplasm	protein binding			breast(1)	1						ATAGATGCTGCTGACTGCAAA	0.493													13	176					9.05144e-12	1.00499e-11	1	1	0		A	15726808	A	A	15726808	3	1	27	1	0	0	0	0	1	0	0	0	656	797	28	5	969	5	ANKRD28	3	15726808	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	599442	15726808	182295622	1534	23885											
ANKRD28	23243	broad.mit.edu	37	chr3	15731544	15731544	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctgcatgaataggtgTcctcttcaaaatgtaatctt	11	14	7	9	0	3	1	1	1	2	0	4	1	4	1	2	1	2	3	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:15731544T>C	uc003caj.1	-	18	1998	c.1855A>G	c.(1855-1857)ACA>GCA	p.T619A	ANKRD28_uc003cai.1_Missense_Mutation_p.T465A|ANKRD28_uc011avz.1_Missense_Mutation_p.T465A|ANKRD28_uc003cak.1_RNA|ANKRD28_uc011awa.1_RNA|ANKRD28_uc003cal.1_Missense_Mutation_p.T649A|ANKRD28_uc003cam.2_Missense_Mutation_p.T652A	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28	619	ANK 18.					nucleoplasm	protein binding			breast(1)	1						TGAATAGGTGTCCTCTTCAAA	0.338													3	17					0	0	1	0	0		C	15731544	C	C	15731544	3	2	27	1	0	0	0	0	1	0	0	0	656	1667	58	3	1350	3	ANKRD28	3	15731544	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4736	15731544	182290886	1535	23886											
ANKRD28	23243	broad.mit.edu	37	chr3	15753728	15753728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacattccatgtatgccacGcctaaagttaatagaacagg	15	9	8	9	1	0	1	0	0	0	1	1	2	1	1	3	1	3	2	3	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:15753728G>A	uc003caj.1	-	11	1245	c.1102C>T	c.(1102-1104)CGT>TGT	p.R368C	ANKRD28_uc003cai.1_Missense_Mutation_p.R214C|ANKRD28_uc011avz.1_Missense_Mutation_p.R214C|ANKRD28_uc003cak.1_RNA|ANKRD28_uc011awa.1_RNA|ANKRD28_uc003cal.1_Missense_Mutation_p.R398C|ANKRD28_uc003cam.2_Missense_Mutation_p.R401C	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28	368						nucleoplasm	protein binding			breast(1)	1						TGTATGCCACGCCTAAAGTTA	0.373													3	8					0	0	1	0	0		A	15753728	A	A	15753728	3	1	27	1	0	0	0	0	1	0	0	0	656	1101	38	1	2131	1	ANKRD28	3	15753728	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	22184	15753728	182268702	1536	23887											
GALNTL2	117248	broad.mit.edu	37	chr3	16260950	16260950	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaacgcttgcagctgcaaaGgagactgggttgtcggacat	10	8	15	8	2	0	1	0	0	0	1	1	4	0	3	0	4	4	5	0	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:16260950G>T	uc003car.3	+	7	1908	c.1433G>T	c.(1432-1434)AGG>ATG	p.R478M	GALNTL2_uc003caq.3_Missense_Mutation_p.R211M|GALNTL2_uc003cas.3_Missense_Mutation_p.R8M	NM_054110	NP_473451	Q8N3T1	GLTL2_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	478	Lumenal (Potential).					Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1						CAGCTGCAAAGGAGACTGGGT	0.522													11	158					4.68919e-08	5.14072e-08	1	1	0		T	16260950	T	T	16260950	3	4	27	1	0	0	0	0	1	0	0	0	6237	1000	35	5	1459	5	GALNTL2	3	16260950	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	507222	16260950	181761480	1537	23888											
GALNTL2	117248	broad.mit.edu	37	chr3	16261424	16261424	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccactttcagctccacaAcactggacttgggctctgtg	7	12	9	13	0	2	0	1	0	1	0	4	1	4	1	2	2	2	2	2	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:16261424A>C	uc003car.3	+	8	2007	c.1532A>C	c.(1531-1533)AAC>ACC	p.N511T	GALNTL2_uc003caq.3_Missense_Mutation_p.N244T|GALNTL2_uc003cas.3_Missense_Mutation_p.N41T	NM_054110	NP_473451	Q8N3T1	GLTL2_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	511	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1						CAGCTCCACAACACTGGACTT	0.547													14	210					0	0	1	0	0		C	16261424	C	C	16261424	3	2	27	1	0	0	0	0	1	0	0	0	6237	43	2	5	1562	5	GALNTL2	3	16261424	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	474	16261424	181761006	1538	23889											
PLCL2	23228	broad.mit.edu	37	chr3	17053060	17053060	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaggtctccttcttcaGcgccaatacaaaagactctg	11	9	10	11	1	4	1	1	0	3	1	5	3	4	3	2	3	2	0	2	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:17053060G>T	uc011awc.1	+	5	2303	c.2198G>T	c.(2197-2199)AGC>ATC	p.S733I	PLCL2_uc011awd.1_Missense_Mutation_p.S615I	NM_001144382	NP_001137854	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2 isoform 1	741	C2.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(2)|ovary(1)|lung(1)	4						TCCTTCTTCAGCGCCAATACA	0.512													5	57					0.00198382	0.00205548	1	1	0		T	17053060	T	T	17053060	3	4	27	1	0	0	0	0	1	0	0	0	12059	971	34	5	2222	5	PLCL2	3	17053060	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	791636	17053060	180969370	1539	23890											
TBC1D5	9779	broad.mit.edu	37	chr3	17202688	17202688	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcccatcatcatctttggAaatcaggatgaagtcatcgg	11	11	9	10	1	5	1	4	1	1	0	7	3	6	3	1	3	0	1	1	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:17202688A>G	uc003cbf.2	-	22	3820	c.2155T>C	c.(2155-2157)TCC>CCC	p.S719P	TBC1D5_uc010heu.2_Missense_Mutation_p.S306P|TBC1D5_uc010hev.2_Missense_Mutation_p.S741P|TBC1D5_uc003cbe.2_Missense_Mutation_p.S719P	NM_014744	NP_055559	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5 isoform b	719						intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						TCATCTTTGGAAATCAGGATG	0.547													5	78					0	0	1	0	0		G	17202688	G	G	17202688	3	3	27	1	0	0	0	0	1	0	0	0	15648	246	9	3	236	3	TBC1D5	3	17202688	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	149628	17202688	180819742	1540	23891											
TBC1D5	9779	broad.mit.edu	37	chr3	17549984	17549984	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctccagacttgttagagtAactggacaaggggtcaatgc	12	9	11	9	0	1	2	1	0	0	2	2	3	2	3	2	3	2	2	2	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:17549984A>G	uc003cbf.2	-	3	1744	c.79T>C	c.(79-81)TAC>CAC	p.Y27H	TBC1D5_uc010hev.2_Missense_Mutation_p.Y27H|TBC1D5_uc003cbe.2_Missense_Mutation_p.Y27H	NM_014744	NP_055559	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5 isoform b	27						intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						TTGTTAGAGTAACTGGACAAG	0.463													6	120					0	0	1	0	0		G	17549984	G	G	17549984	3	3	27	1	0	0	0	0	1	0	0	0	15648	362	13	3	2458	3	TBC1D5	3	17549984	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	347296	17549984	180472446	1541	23892											
SATB1	6304	broad.mit.edu	37	chr3	18456661	18456661	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatatctttcagtaagtccTtcagagcattcctcactgtg	9	15	6	11	0	5	1	4	0	1	1	7	1	7	1	2	0	1	2	2	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:18456661T>G	uc003cbh.2	-	5	2316	c.581A>C	c.(580-582)AAG>ACG	p.K194T	SATB1_uc003cbi.2_Missense_Mutation_p.K194T|SATB1_uc003cbj.2_Missense_Mutation_p.K194T	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	194	PDZ-like dimerization domain.				cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						CAGTAAGTCCTTCAGAGCATT	0.423													8	86					0	0	1	0	0		G	18456661	G	G	18456661	3	3	27	1	0	0	0	0	1	0	0	0	13878	1609	56	5	1738	5	SATB1	3	18456661	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	906677	18456661	179565769	1542	23893											
KCNH8	131096	broad.mit.edu	37	chr3	19389261	19389261	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccggagtataaagtttcTgatgcaaaaaagtccaaatt	15	13	7	6	1	1	1	0	1	1	0	3	2	3	2	2	1	1	3	2	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:19389261T>C	uc003cbk.1	+	5	810	c.615T>C	c.(613-615)TCT>TCC	p.S205S	KCNH8_uc011awe.1_Silent_p.S205S|KCNH8_uc010hex.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	205	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						ATAAAGTTTCTGATGCAAAAA	0.368													8	103					0	0	1	0	0		C	19389261	C	C	19389261	2	2	27	1	0	0	0	0	0	0	0	1	8054	1567	55	3		3	KCNH8	3	19389261	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	932600	19389261	178633169	1543	23894											
KCNH8	131096	broad.mit.edu	37	chr3	19554610	19554610	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcgcgcaacaagaaggttgGaagcaataaagcctacctgg	14	7	11	9	2	0	1	0	0	0	1	1	2	0	2	2	3	4	3	2	3	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:19554610G>T	uc003cbk.1	+	13	2423	c.2228G>T	c.(2227-2229)GGA>GTA	p.G743V	KCNH8_uc010hex.1_Missense_Mutation_p.G204V	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	743	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						AAGAAGGTTGGAAGCAATAAA	0.418													10	63					4.68919e-08	5.14072e-08	1	1	0		T	19554610	T	T	19554610	3	4	27	1	0	0	0	0	1	0	0	0	8054	1174	41	5	2278	5	KCNH8	3	19554610	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	165349	19554610	178467820	1544	23895											
KCNH8	131096	broad.mit.edu	37	chr3	19559491	19559491	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtgtgtcacttttcagaTccagagattggagctgctgt	8	15	11	7	0	2	2	2	0	0	2	3	4	3	3	1	1	2	2	1	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:19559491T>A	uc003cbk.1	+	15	2739	c.2544T>A	c.(2542-2544)GAT>GAA	p.D848E	KCNH8_uc010hex.1_Missense_Mutation_p.D309E	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	848	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						ACTTTTCAGATCCAGAGATTG	0.408													9	95					0	0	1	0	0		A	19559491	A	A	19559491	3	1	27	1	0	0	0	0	1	0	0	0	8054	1449	50	5	2602	5	KCNH8	3	19559491	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4881	19559491	178462939	1545	23896											
KCNH8	131096	broad.mit.edu	37	chr3	19575180	19575180	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgtggggagcagcccccaAcgaactggagctcatgagca	10	6	13	12	1	2	1	1	1	1	0	2	4	2	3	2	3	6	3	2	3	2	0	rs145364018		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:19575180A>G	uc003cbk.1	+	16	3108	c.2913A>G	c.(2911-2913)CAA>CAG	p.Q971Q	KCNH8_uc010hex.1_Silent_p.Q432Q	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	971	Ser-rich.|Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						GCAGCCCCCAACGAACTGGAG	0.493													7	105					0	0	1	0	0		G	19575180	G	G	19575180	2	3	27	1	0	0	0	0	0	0	0	1	8054	40	2	3		3	KCNH8	3	19575180	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	15689	19575180	178447250	1546	23897											
EFHB	151651	broad.mit.edu	37	chr3	19959879	19959879	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgttgaaatgtggtaataGgctgtgggtttatcaatgtg	9	16	13	3	0	2	1	1	1	1	0	2	1	2	1	0	3	0	4	0	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:19959879G>T	uc003cbl.3	-	4	1218	c.1022C>A	c.(1021-1023)CCT>CAT	p.P341H	EFHB_uc003cbm.2_Missense_Mutation_p.P211H	NM_144715	NP_653316	Q8N7U6	EFHB_HUMAN	EF hand domain family, member B	341					signal transduction	proteinaceous extracellular matrix	calcium ion binding				0						TGTGGTAATAGGCTGTGGGTT	0.313													10	130					3.86212e-05	4.11225e-05	1	1	0		T	19959879	T	T	19959879	3	4	27	1	0	0	0	0	1	0	0	0	4951	1000	35	5	1519	5	EFHB	3	19959879	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	384699	19959879	178062551	1547	23898											
RAB5A	5868	broad.mit.edu	37	chr3	20017562	20017562	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctttgcaagagcaaaaaaTtgggttaaagaacttcagag	16	10	9	6	0	1	3	1	0	0	3	2	3	2	3	1	1	3	3	1	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:20017562T>A	uc003cbn.2	+	4	874	c.339T>A	c.(337-339)AAT>AAA	p.N113K	RAB5A_uc010hey.2_RNA|RAB5A_uc011awg.1_Missense_Mutation_p.N99K	NM_004162	NP_004153	P20339	RAB5A_HUMAN	RAB5A, member RAS oncogene family	113					blood coagulation|protein transport|receptor internalization|regulation of filopodium assembly|small GTPase mediated signal transduction	early endosome membrane|melanosome|plasma membrane	GDP binding|GTP binding|GTPase activity				0						GAGCAAAAAATTGGGTTAAAG	0.398													6	59					0	0	1	0	0		A	20017562	A	A	20017562	3	1	27	1	0	0	0	0	1	0	0	0	12973	1490	52	5	349	5	RAB5A	3	20017562	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	57683	20017562	178004868	1548	23899											
KAT2B	8850	broad.mit.edu	37	chr3	20164248	20164248	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attccgatggaattaatcaaCgaggttatgtctaccatcac	13	12	7	9	2	3	0	2	0	1	0	4	3	4	1	2	2	2	1	2	2	5	4	rs149881135		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:20164248C>T	uc003cbq.2	+	9	1811	c.1365C>T	c.(1363-1365)AAC>AAT	p.N455N		NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	455					cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AATTAATCAACGAGGTTATGT	0.498													4	55					0	0	1	0	0		T	20164248	T	T	20164248	2	4	27	1	0	0	0	0	0	0	0	1	7998	535	19	1		1	KAT2B	3	20164248	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	146686	20164248	177858182	1549	23900											
NKIRAS1	28512	broad.mit.edu	37	chr3	23952357	23952357	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgcagttttccccacagaTaacaatccacaaaccacaac	16	8	3	14	0	0	1	0	0	0	1	2	1	2	1	4	0	4	2	4	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:23952357T>A	uc003ccj.2	-	3	441	c.39A>T	c.(37-39)TTA>TTT	p.L13F	NKIRAS1_uc003cck.2_Missense_Mutation_p.L13F|NKIRAS1_uc003ccl.2_Missense_Mutation_p.L13F|NKIRAS1_uc003ccm.2_Missense_Mutation_p.L13F	NM_020345	NP_065078	Q9NYS0	KBRS1_HUMAN	kappa B-ras 1	13	GTP (By similarity).				I-kappaB kinase/NF-kappaB cascade|small GTPase mediated signal transduction	cytoplasm	GTP binding|GTPase activity				0						TCCCCACAGATAACAATCCAC	0.388													6	39					0	0	1	0	0		A	23952357	A	A	23952357	3	1	27	1	0	0	0	0	1	0	0	0	10463	1403	49	5	551	5	NKIRAS1	3	23952357	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3788109	23952357	174070073	1550	23901											
NR1D2	9975	broad.mit.edu	37	chr3	24003739	24003739	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaccagagctcacaaggaTacctttatgtataatcaaga	15	10	8	8	0	2	3	2	1	0	2	2	4	2	4	2	1	2	2	2	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:24003739T>A	uc003ccs.2	+	5	1108	c.789T>A	c.(787-789)GAT>GAA	p.D263E	NR1D2_uc010hfd.2_RNA|NR1D2_uc011awk.1_Missense_Mutation_p.D188E	NM_005126	NP_005117	Q14995	NR1D2_HUMAN	nuclear receptor subfamily 1, group D, member 2	263					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			urinary_tract(1)|kidney(1)|skin(1)	3						CTCACAAGGATACCTTTATGT	0.438													4	56					0	0	1	0	0		A	24003739	A	A	24003739	3	1	27	1	0	0	0	0	1	0	0	0	10635	1403	49	5	807	5	NR1D2	3	24003739	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	51382	24003739	174018691	1551	23902											
THRB	7068	broad.mit.edu	37	chr3	24164394	24164394	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaatcctcgaacacttccAagaacaaaggggggaagagt	15	7	10	9	1	1	2	0	0	1	2	4	4	3	3	2	3	2	0	2	3	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:24164394A>G	uc003ccx.3	-	11	1716	c.1367T>C	c.(1366-1368)TTG>TCG	p.L456S	THRB_uc010hfe.2_Missense_Mutation_p.L456S|THRB_uc003ccy.3_Missense_Mutation_p.L456S|THRB_uc003ccz.3_Missense_Mutation_p.L451S	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	456	Ligand-binding.|Interaction with NR2F6.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)	GAACACTTCCAAGAACAAAGG	0.473													5	138					0	0	1	0	0		G	24164394	G	G	24164394	3	3	27	1	0	0	0	0	1	0	0	0	15900	131	5	3	22	3	THRB	3	24164394	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	160655	24164394	173858036	1552	23903											
THRB	7068	broad.mit.edu	37	chr3	24193924	24193924	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcggtagtgatacccggtgGctttgtcaccacacactaca	10	9	10	12	2	1	1	1	1	0	0	1	1	1	1	2	3	3	2	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:24193924G>C	uc003ccx.3	-	6	690	c.341C>G	c.(340-342)GCC>GGC	p.A114G	THRB_uc010hfe.2_Missense_Mutation_p.A114G|THRB_uc003ccy.3_Missense_Mutation_p.A114G|THRB_uc003ccz.3_Missense_Mutation_p.A109G|THRB_uc003cdc.2_Missense_Mutation_p.A109G|THRB_uc003cdd.2_Missense_Mutation_p.A109G|THRB_uc003cde.1_Missense_Mutation_p.A109G|THRB_uc003cda.1_Missense_Mutation_p.A129G	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	114	Nuclear receptor.|NR C4-type.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)	ATACCCGGTGGCTTTGTCACC	0.478													4	92					0	0	1	0	0		C	24193924	C	C	24193924	3	2	27	1	0	0	0	0	1	0	0	0	15900	1203	42	5	1068	5	THRB	3	24193924	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	29530	24193924	173828506	1553	23904											
RARB	5915	broad.mit.edu	37	chr3	25215993	25215993	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccacctgtcatcggaggActttccctgcctcccctcca	5	12	6	18	1	1	0	1	0	0	0	6	2	5	2	7	2	1	0	7	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:25215993A>T	uc011awl.1	+	1	171	c.105A>T	c.(103-105)GGA>GGT	p.G35G		NM_016152	NP_057236	P10826	RARB_HUMAN	retinoic acid receptor, beta isoform 2	35	Modulating.				embryonic digestive tract development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	protein binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|large_intestine(1)|pancreas(1)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tamibarotene(DB04942)|Tazarotene(DB00799)	TCATCGGAGGACTTTCCCTGC	0.597													9	70					0	0	1	0	0		T	25215993	T	T	25215993	2	4	27	1	0	0	0	0	0	0	0	1	13078	290	10	5		5	RARB	3	25215993	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1022069	25215993	172806437	1554	23905											
RARB	5915	broad.mit.edu	37	chr3	25502818	25502818	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accactatggggtcagcgccTgtgagggatgtaaggtgagt	9	9	16	7	1	1	2	1	2	0	0	1	3	1	3	2	4	1	1	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:25502818T>A	uc011awl.1	+	2	379	c.313T>A	c.(313-315)TGT>AGT	p.C105S	RARB_uc003cdi.1_5'UTR|RARB_uc003cdh.2_Missense_Mutation_p.C98S	NM_016152	NP_057236	P10826	RARB_HUMAN	retinoic acid receptor, beta isoform 2	105	NR C4-type.|Nuclear receptor.				embryonic digestive tract development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	protein binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|large_intestine(1)|pancreas(1)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tamibarotene(DB04942)|Tazarotene(DB00799)	GGTCAGCGCCTGTGAGGGATG	0.527													28	103					0	0	1	0	0		A	25502818	A	A	25502818	3	1	27	1	0	0	0	0	1	0	0	0	13078	1580	55	5	298	5	RARB	3	25502818	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	286825	25502818	172519612	1555	23906											
TOP2B	7155	broad.mit.edu	37	chr3	25641012	25641012	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttccttttctttgcccctcGgcctttaccttaaaatgata	7	18	4	12	1	1	1	0	1	1	0	3	1	2	1	5	1	2	0	5	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:25641012G>A	uc003cdj.2	-	35	4609	c.4609C>T	c.(4609-4611)CGA>TGA	p.R1537*	TOP2B_uc011awm.1_Nonsense_Mutation_p.R394*|TOP2B_uc010hff.1_Nonsense_Mutation_p.R403*	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	1542					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						TTTGCCCCTCGGCCTTTACCT	0.388													5	36					0	0	1	0	0		A	25641012	A	A	25641012	4	1	27	1	0	0	0	0	0	1	0	0	16392	1124	39	1	264	1	TOP2B	3	25641012	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	138194	25641012	172381418	1556	23907											
TOP2B	7155	broad.mit.edu	37	chr3	25685185	25685185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aatcctaagcaagtactcacCcaaaatttcatcaaagatct	17	10	3	11	0	4	1	3	0	1	1	5	1	5	1	2	0	2	2	2	0	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:25685185C>T	uc011awn.1	-	3	374	c.331G>A	c.(331-333)GTT>ATT	p.V111I	TOP2B_uc003cdj.2_Missense_Mutation_p.V106I	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	111					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						AAGTACTCACCCAAAATTTCA	0.343													10	190					0	0	1	0	0		T	25685185	T	T	25685185	3	4	27	1	0	0	0	0	1	0	0	0	16392	637	22	4	4685	4	TOP2B	3	25685185	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	44173	25685185	172337245	1557	23908											
TOP2B	7155	broad.mit.edu	37	chr3	25685220	25685220	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcttgtataaacctggcAcaaaggtaacctccctgcaa	14	9	7	11	0	1	1	0	0	1	1	2	1	2	1	3	2	3	4	3	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:25685220A>G	uc011awn.1	-	3	339	c.296T>C	c.(295-297)GTG>GCG	p.V99A	TOP2B_uc003cdj.2_Missense_Mutation_p.V94A	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	99					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						TAAACCTGGCACAAAGGTAAC	0.308													13	257					0	0	1	0	0		G	25685220	G	G	25685220	3	3	27	1	0	0	0	0	1	0	0	0	16392	159	6	3	4720	3	TOP2B	3	25685220	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	35	25685220	172337210	1558	23909											
NEK10	152110	broad.mit.edu	37	chr3	27204208	27204208	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctggtcttggtcttgaTcctgttcctccagtgaagtc	5	16	9	11	0	2	2	0	2	2	0	6	2	5	2	4	2	1	1	4	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:27204208T>A	uc010hfk.2	-	9	1018	c.789A>T	c.(787-789)GGA>GGT	p.G263G	NEK10_uc003cds.1_Silent_p.G348G|NEK10_uc010hfj.2_Silent_p.G263G			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	951							ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						TTGGTCTTGATCCTGTTCCTC	0.373													4	64					0	0	1	0	0		A	27204208	A	A	27204208	2	1	27	1	0	0	0	0	0	0	0	1	10341	1450	50	5		5	NEK10	3	27204208	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1518988	27204208	170818222	1559	23910											
ZCWPW2	152098	broad.mit.edu	37	chr3	28454686	28454686	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaattgtttgaaatggagaTtgttatcaagtgaggattca	15	14	10	2	0	2	3	2	2	0	1	2	5	2	4	0	2	0	2	0	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:28454686T>C	uc003ceh.2	+	3	295	c.127T>C	c.(127-129)TTG>CTG	p.L43L	ZCWPW2_uc003cei.2_Silent_p.L43L	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	43	CW-type.						zinc ion binding			ovary(2)	2						GAAATGGAGATTGTTATCAAG	0.348													6	89					0	0	1	0	0		C	28454686	C	C	28454686	2	2	27	1	0	0	0	0	0	0	0	1	17623	1490	52	3		3	ZCWPW2	3	28454686	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1250478	28454686	169567744	1560	23911											
ZCWPW2	152098	broad.mit.edu	37	chr3	28566019	28566019	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatatggttgttttgcagtTatctaaatgcagcccagaag	11	15	9	6	0	1	1	0	0	1	1	1	1	1	1	1	1	3	5	1	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:28566019T>C	uc003ceh.2	+	10	1079	c.911T>C	c.(910-912)TTA>TCA	p.L304S	ZCWPW2_uc003cei.2_Missense_Mutation_p.L304S|ZCWPW2_uc010hfo.2_Missense_Mutation_p.L109S	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	304							zinc ion binding			ovary(2)	2						GTTTTGCAGTTATCTAAATGC	0.353													15	228					0	0	1	0	0		C	28566019	C	C	28566019	3	2	27	1	0	0	0	0	1	0	0	0	17623	1768	61	3	941	3	ZCWPW2	3	28566019	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	111333	28566019	169456411	1561	23912											
TGFBR2	7048	broad.mit.edu	37	chr3	30691806	30691806	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actagagacagtttgccatgAccccaagctcccctaccatg	11	8	7	15	0	0	2	0	1	0	1	1	3	1	2	6	0	3	2	6	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:30691806A>G	uc003ceo.2	+	3	690	c.308A>G	c.(307-309)GAC>GGC	p.D103G	TGFBR2_uc003cen.2_Missense_Mutation_p.D128G	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	103	Extracellular (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						GTTTGCCATGACCCCAAGCTC	0.433													8	98					0	0	1	0	0		G	30691806	G	G	30691806	3	3	27	1	0	0	0	0	1	0	0	0	15847	275	10	3	397	3	TGFBR2	3	30691806	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2125787	30691806	167330624	1562	23913											
TGFBR2	7048	broad.mit.edu	37	chr3	30713436	30713436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccctggtggggaaaggtcGctttgctgaggtctataagg	8	10	15	8	1	1	1	0	1	1	0	2	2	1	2	1	6	1	2	1	6	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:30713436G>A	uc003ceo.2	+	4	1143	c.761G>A	c.(760-762)CGC>CAC	p.R254H	TGFBR2_uc003cen.2_Missense_Mutation_p.R279H	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	254	Protein kinase.|Cytoplasmic (Potential).|ATP (By similarity).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						GGGAAAGGTCGCTTTGCTGAG	0.522													22	70					0	0	1	0	0		A	30713436	A	A	30713436	3	1	27	1	0	0	0	0	1	0	0	0	15847	1087	38	1	854	1	TGFBR2	3	30713436	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21630	30713436	167308994	1563	23914											
STT3B	201595	broad.mit.edu	37	chr3	31621492	31621492	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttagctgcttgttttatTgctattgtaccaggctacat	7	19	7	8	0	0	0	0	0	0	0	0	0	0	0	1	1	5	6	1	1	5	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:31621492T>C	uc011axe.1	+	3	615	c.615T>C	c.(613-615)ATT>ATC	p.I205I	STT3B_uc010hft.1_Silent_p.I205I|STT3B_uc003cer.1_Silent_p.I205I	NM_178862	NP_849193	Q8TCJ2	STT3B_HUMAN	source of immunodominant MHC-associated	205	Helical; (Potential).				protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding				0						CTTGTTTTATTGCTATTGTAC	0.398													9	152					0	0	1	0	0		C	31621492	C	C	31621492	2	2	27	1	0	0	0	0	0	0	0	1	15359	1800	63	3		3	STT3B	3	31621492	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	908056	31621492	166400938	1564	23915											
OSBPL10	114884	broad.mit.edu	37	chr3	31710251	31710251	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgaactctaaagtaccaTtccattccccatgggcttta	11	12	7	11	0	1	1	0	1	1	0	3	1	3	1	4	2	2	2	4	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:31710251T>C	uc003cev.2	-	11	2360	c.1979A>G	c.(1978-1980)AAT>AGT	p.N660S	OSBPL10_uc003ceu.1_Missense_Mutation_p.N417S|OSBPL10_uc011axf.1_Missense_Mutation_p.N596S	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	660					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		TAAAGTACCATTCCATTCCCC	0.438													8	112					0	0	1	0	0		C	31710251	C	C	31710251	3	2	27	1	0	0	0	0	1	0	0	0	11294	1493	52	3	327	3	OSBPL10	3	31710251	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	88759	31710251	166312179	1565	23916											
ZNF860	344787	broad.mit.edu	37	chr3	32031152	32031152	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagttctaacgtcccaaaGaatttcttctaggcccaaaa	13	11	5	12	1	4	1	1	0	3	1	5	1	5	1	2	1	1	1	2	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:32031152G>T	uc011axg.1	+	2	1130	c.581G>T	c.(580-582)AGA>ATA	p.R194I		NM_001137674	NP_001131146	A6NHJ4	ZN860_HUMAN	zinc finger protein 860	194					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ACGTCCCAAAGAATTTCTTCT	0.358													7	51					5.18039e-06	5.59131e-06	1	1	0		T	32031152	T	T	32031152	3	4	27	1	0	0	0	0	1	0	0	0	18219	942	33	5	583	5	ZNF860	3	32031152	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	320901	32031152	165991278	1566	23917											
CMTM7	112616	broad.mit.edu	37	chr3	32483359	32483359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgattgccttcatctgtGtgcggagctccctgtggacc	4	13	12	12	1	2	1	1	1	1	0	3	3	3	3	3	2	4	2	3	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:32483359G>A	uc003cey.1	+	2	423	c.187G>A	c.(187-189)GTG>ATG	p.V63M	CMTM7_uc003cez.1_Missense_Mutation_p.V63M	NM_138410	NP_612419	Q96FZ5	CKLF7_HUMAN	CKLF-like MARVEL transmembrane domain containing	63	MARVEL.|Helical; (Potential).				chemotaxis	extracellular space|integral to membrane	cytokine activity				0						CTTCATCTGTGTGCGGAGCTC	0.507													27	94					0	0	1	0	0		A	32483359	A	A	32483359	3	1	27	1	0	0	0	0	1	0	0	0	3591	1377	48	4	193	4	CMTM7	3	32483359	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	452207	32483359	165539071	1567	23918											
CMTM7	112616	broad.mit.edu	37	chr3	32483389	32483389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtggaccaactacagcGcctacagctactttgaagtg	10	9	9	13	1	0	1	0	1	0	0	0	2	0	2	3	1	6	1	3	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:32483389G>A	uc003cey.1	+	2	453	c.217G>A	c.(217-219)GCC>ACC	p.A73T	CMTM7_uc003cez.1_Missense_Mutation_p.A73T	NM_138410	NP_612419	Q96FZ5	CKLF7_HUMAN	CKLF-like MARVEL transmembrane domain containing	73	MARVEL.				chemotaxis	extracellular space|integral to membrane	cytokine activity				0						CAACTACAGCGCCTACAGCTA	0.512													8	118					0	0	1	0	0		A	32483389	A	A	32483389	3	1	27	1	0	0	0	0	1	0	0	0	3591	1087	38	1	223	1	CMTM7	3	32483389	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	30	32483389	165539041	1568	23919											
CMTM7	112616	broad.mit.edu	37	chr3	32493939	32493939	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcatatggctgtcctataAgatctcgtgtgtaacccagt	11	12	9	9	1	1	1	0	0	1	1	3	1	2	1	2	1	2	3	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:32493939A>C	uc003cey.1	+	4	724	c.488A>C	c.(487-489)AAG>ACG	p.K163T	CMTM7_uc003cez.1_Missense_Mutation_p.K130T	NM_138410	NP_612419	Q96FZ5	CKLF7_HUMAN	CKLF-like MARVEL transmembrane domain containing	163	MARVEL.				chemotaxis	extracellular space|integral to membrane	cytokine activity				0						CTGTCCTATAAGATCTCGTGT	0.512													22	213					0	0	1	0	0		C	32493939	C	C	32493939	3	2	27	1	0	0	0	0	1	0	0	0	3591	72	3	5	502	5	CMTM7	3	32493939	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10550	32493939	165528491	1569	23920											
CNOT10	25904	broad.mit.edu	37	chr3	32769230	32769230	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgagttgctgtataactgTggaattcagcttcttcacat	10	16	8	7	0	3	1	2	1	1	0	3	2	3	2	0	1	3	4	0	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:32769230T>C	uc003cfc.1	+	10	1338	c.1083T>C	c.(1081-1083)TGT>TGC	p.C361C	CNOT10_uc011axi.1_Silent_p.C133C|CNOT10_uc003cfd.1_Silent_p.C360C|CNOT10_uc003cfe.1_Silent_p.C361C|CNOT10_uc010hfv.1_RNA|CNOT10_uc011axj.1_Silent_p.C421C|CNOT10_uc010hfw.1_Silent_p.C56C	NM_015442	NP_056257	Q9H9A5	CNOTA_HUMAN	CCR4-NOT transcription complex, subunit 10	361					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	protein binding			central_nervous_system(1)|skin(1)	2						TGTATAACTGTGGAATTCAGC	0.398													11	56					0	0	1	0	0		C	32769230	C	C	32769230	2	2	27	1	0	0	0	0	0	0	0	1	3621	1702	59	3		3	CNOT10	3	32769230	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	275291	32769230	165253200	1570	23921											
CNOT10	25904	broad.mit.edu	37	chr3	32804346	32804346	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagggatctcttcaaatgagCaggaccaaggttaatgagga	14	9	12	6	0	2	2	1	2	1	0	3	5	2	5	1	4	1	2	1	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:32804346C>T	uc003cfc.1	+	15	2086	c.1831C>T	c.(1831-1833)CAG>TAG	p.Q611*	CNOT10_uc011axi.1_Nonsense_Mutation_p.Q383*|CNOT10_uc003cfd.1_Nonsense_Mutation_p.Q610*|CNOT10_uc003cfe.1_Nonsense_Mutation_p.Q584*|CNOT10_uc010hfv.1_RNA|CNOT10_uc011axj.1_Nonsense_Mutation_p.Q671*|CNOT10_uc010hfw.1_Nonsense_Mutation_p.Q306*	NM_015442	NP_056257	Q9H9A5	CNOTA_HUMAN	CCR4-NOT transcription complex, subunit 10	611					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	protein binding			central_nervous_system(1)|skin(1)	2						TTCAAATGAGCAGGACCAAGG	0.448													4	67					0	0	1	0	0		T	32804346	T	T	32804346	4	4	27	1	0	0	0	0	0	1	0	0	3621	711	25	2	1889	2	CNOT10	3	32804346	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	35116	32804346	165218084	1571	23922											
TRIM71	131405	broad.mit.edu	37	chr3	32859684	32859684	+	Missense_Mutation	SNP	A	T	T																															cgtcgtcgtcctcctcgcagAcgtccacgtcgtcggggggc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:32859684A>T	uc003cff.2	+	1	175	c.112A>T	c.(112-114)ACG>TCG	p.T38S		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	38	RING-type.|Ser-rich.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						CTCCTCGCAGACGTCCACGTC	0.527													3	26					0	0	1	0	0		T	32859684	T	T	32859684	3	4	27	1	0	0	0	0	1	0	0	0	16570	275	10	5	114	5	TRIM71	3	32859684	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	55338	32859684	165162746	1572	23923	43	2									
TRIM71	131405	broad.mit.edu	37	chr3	32859686	32859686	+	Silent	SNP	G	A	A																															tcgtcgtcctcctcgcagacGtccacgtcgtcggggggcgg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:32859686G>A	uc003cff.2	+	1	177	c.114G>A	c.(112-114)ACG>ACA	p.T38T		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	38	RING-type.|Ser-rich.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						CCTCGCAGACGTCCACGTCGT	0.527													4	23					0	0	1	0	0		A	32859686	A	A	32859686	2	1	27	1	0	0	0	0	0	0	0	1	16570	1132	40	1		1	TRIM71	3	32859686	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2	32859686	165162744	1573	23924	43	2									
GLB1	2720	broad.mit.edu	37	chr3	33093263	33093263	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttaccattccaataggcAaaattggtcccacctataaa	14	11	4	12	0	1	0	0	0	1	0	3	0	3	0	4	2	1	1	4	2	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:33093263A>G	uc003cfi.1	-	9	1059	c.942T>C	c.(940-942)TTT>TTC	p.F314F	GLB1_uc003cfh.1_Silent_p.F284F|GLB1_uc003cfj.1_Silent_p.F183F|GLB1_uc011axk.1_Silent_p.F362F	NM_000404	NP_000395	P16278	BGAL_HUMAN	galactosidase, beta 1 isoform a preproprotein	314					carbohydrate metabolic process	lysosome|perinuclear region of cytoplasm	beta-galactosidase activity|cation binding|protein binding			large_intestine(1)	1		Melanoma(143;0.104)				TCCAATAGGCAAAATTGGTCC	0.428													5	110					0	0	1	0	0		G	33093263	G	G	33093263	2	3	27	1	0	0	0	0	0	0	0	1	6442	127	5	3		3	GLB1	3	33093263	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	233577	33093263	164929167	1574	23925											
FBXL2	25827	broad.mit.edu	37	chr3	33425581	33425581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtactggagttggacaactGcctcctcatcactgatgtgg	8	11	12	10	0	2	1	2	1	0	0	3	3	3	3	2	4	3	2	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:33425581G>A	uc003cfp.2	+	14	1123	c.1052G>A	c.(1051-1053)TGC>TAC	p.C351Y	FBXL2_uc011axm.1_RNA|FBXL2_uc011axn.1_RNA|FBXL2_uc011axo.1_Missense_Mutation_p.C246Y|FBXL2_uc011axp.1_Missense_Mutation_p.C267Y|FBXL2_uc011axq.1_RNA|FBXL2_uc011axr.1_RNA|FBXL2_uc011axs.1_RNA	NM_012157	NP_036289	Q9UKC9	FBXL2_HUMAN	F-box and leucine-rich repeat protein 2	351	LRR 12.				interspecies interaction between organisms|proteolysis	cytoplasm|membrane	protein binding|ubiquitin-protein ligase activity			large_intestine(1)	1						TTGGACAACTGCCTCCTCATC	0.587													8	50					0	0	1	0	0		A	33425581	A	A	33425581	3	1	27	1	0	0	0	0	1	0	0	0	5730	1319	46	2	1106	2	FBXL2	3	33425581	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	332318	33425581	164596849	1575	23926											
CLASP2	23122	broad.mit.edu	37	chr3	33725942	33725942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatagccaatattgcagcatCtctcacctgtcaaagaattc	13	12	5	11	0	3	1	2	0	1	1	5	1	3	1	2	0	3	2	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:33725942C>T	uc003cfu.2	-	6	907	c.553G>A	c.(553-555)GAT>AAT	p.D185N	CLASP2_uc010hgb.2_RNA	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	185										ovary(3)|central_nervous_system(1)	4						ATTGCAGCATCTCTCACCTGT	0.343													18	171					0	0	1	0	0		T	33725942	T	T	33725942	3	4	27	1	0	0	0	0	1	0	0	0	3458	913	32	4	4099	4	CLASP2	3	33725942	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	300361	33725942	164296488	1576	23927											
PDCD6IP	10015	broad.mit.edu	37	chr3	33866819	33866819	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcaagaagtattttttttAaaagccacaagaggtaactc	15	12	7	7	0	1	2	1	0	0	2	2	2	1	2	1	1	2	3	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:33866819A>T	uc003cfx.2	+	5	758	c.603A>T	c.(601-603)TTA>TTT	p.L201F	PDCD6IP_uc011axv.1_Missense_Mutation_p.L201F|PDCD6IP_uc003cfy.2_Missense_Mutation_p.L201F	NM_013374	NP_037506	Q8WUM4	PDC6I_HUMAN	programmed cell death 6 interacting protein	201	Interaction with EIAV p9.|Interaction with CHMP4A, CHMP4B and CHMP4C.|BRO1.				apoptosis|cell cycle|cell division|interspecies interaction between organisms|protein transport	cytosol|melanosome|microtubule organizing center	calcium-dependent protein binding			ovary(1)|skin(1)	2						TATTTTTTTTAAAAGCCACAA	0.358													22	81					0	0	1	0	0		T	33866819	T	T	33866819	3	4	27	1	0	0	0	0	1	0	0	0	11643	359	13	5	621	5	PDCD6IP	3	33866819	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	140877	33866819	164155611	1577	23928											
PDCD6IP	10015	broad.mit.edu	37	chr3	33905536	33905536	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagagaacctagtgctcCttcaattcctacacctgcgt	9	11	7	14	1	1	1	1	0	0	1	3	2	3	1	5	0	5	1	5	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:33905536C>A	uc003cfx.2	+	16	2314	c.2159C>A	c.(2158-2160)CCT>CAT	p.P720H	PDCD6IP_uc003cfy.2_Missense_Mutation_p.P725H|PDCD6IP_uc011axw.1_Missense_Mutation_p.P501H	NM_013374	NP_037506	Q8WUM4	PDC6I_HUMAN	programmed cell death 6 interacting protein	720	Pro-rich.|Interaction with EIAV p9.|Interaction with TSG101.|Self-association.			P->L: Abolishes interaction with TSG101; no effect on rescue of PTAP-type L domain-deficient HIV-1 p6.	apoptosis|cell cycle|cell division|interspecies interaction between organisms|protein transport	cytosol|melanosome|microtubule organizing center	calcium-dependent protein binding			ovary(1)|skin(1)	2						CCTAGTGCTCCTTCAATTCCT	0.299													8	87					0.000673444	0.000703801	1	1	0		A	33905536	A	A	33905536	3	1	27	1	0	0	0	0	1	0	0	0	11643	681	24	5	2236	5	PDCD6IP	3	33905536	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	38717	33905536	164116894	1578	23929											
ARPP21	10777	broad.mit.edu	37	chr3	35780864	35780864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgagccggcagtcctcggGggagactcctgaacccccat	7	6	12	16	2	0	3	0	2	0	1	3	4	2	3	6	3	2	1	6	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:35780864G>A	uc003cgb.2	+	17	1964	c.1700G>A	c.(1699-1701)GGG>GAG	p.G567E	ARPP21_uc003cga.2_Missense_Mutation_p.G548E|ARPP21_uc011axy.1_Missense_Mutation_p.G568E|ARPP21_uc003cgf.2_Missense_Mutation_p.G403E|ARPP21_uc003cgg.2_Missense_Mutation_p.G90E	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	567	Gln-rich.					cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						CAGTCCTCGGGGGAGACTCCT	0.562													6	122					0	0	1	0	0		A	35780864	A	A	35780864	3	1	27	1	0	0	0	0	1	0	0	0	979	1232	43	4	1771	4	ARPP21	3	35780864	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1875328	35780864	162241566	1579	23930											
STAC	6769	broad.mit.edu	37	chr3	36422210	36422210	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgggcgccgagcaaccGccctctcctgcatccaccag	6	5	12	18	4	1	0	0	0	1	0	3	1	2	0	6	2	3	2	6	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:36422210G>A	uc003cgh.1	+	1	114	c.75G>A	c.(73-75)CCG>CCA	p.P25P	STAC_uc010hgd.1_RNA|STAC_uc011aya.1_Silent_p.P25P	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	25					intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						CCGAGCAACCGCCCTCTCCTG	0.667													9	14					0	0	1	0	0		A	36422210	A	A	36422210	2	1	27	1	0	0	0	0	0	0	0	1	15264	1074	38	1		1	STAC	3	36422210	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	641346	36422210	161600220	1580	23931											
STAC	6769	broad.mit.edu	37	chr3	36547271	36547271	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacccattacagatgaacAcctatgttgccttgtacaaa	15	10	6	10	0	0	3	0	1	0	2	0	3	0	3	3	0	4	2	3	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:36547271A>G	uc003cgh.1	+	8	904	c.865A>G	c.(865-867)ACC>GCC	p.T289A	STAC_uc010hgd.1_RNA|STAC_uc011aya.1_Missense_Mutation_p.T228A	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	289	SH3.				intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						ACAGATGAACACCTATGTTGC	0.229													4	74					0	0	1	0	0		G	36547271	G	G	36547271	3	3	27	1	0	0	0	0	1	0	0	0	15264	159	6	3	895	3	STAC	3	36547271	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	125061	36547271	161475159	1581	23932											
DCLK3	85443	broad.mit.edu	37	chr3	36779103	36779103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatgcttttccacattggCggcaatgatgcccatgggcc	9	11	10	11	1	0	1	0	1	0	0	1	1	1	1	3	3	2	2	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:36779103C>T	uc003cgi.2	-	2	1539	c.1048G>A	c.(1048-1050)GCC>ACC	p.A350T		NM_033403	NP_208382	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	350						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			lung(3)|large_intestine(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	9						TCCACATTGGCGGCAATGATG	0.587													17	85					0	0	1	0	0		T	36779103	T	T	36779103	3	4	27	1	0	0	0	0	1	0	0	0	4296	768	27	1	914	1	DCLK3	3	36779103	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	231832	36779103	161243327	1582	23933											
TRANK1	9881	broad.mit.edu	37	chr3	36872603	36872603	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcctctggtggtgttctAgatggatatgctgctcgtaa	6	14	13	8	1	2	1	0	0	2	1	3	2	2	2	1	3	3	5	1	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:36872603A>G	uc003cgj.2	-	12	6991	c.6689T>C	c.(6688-6690)CTA>CCA	p.L2230P		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2780					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						GTGGTGTTCTAGATGGATATG	0.557													10	137					0	0	1	0	0		G	36872603	G	G	36872603	3	3	27	1	0	0	0	0	1	0	0	0	16480	420	15	3	450	3	TRANK1	3	36872603	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	93500	36872603	161149827	1583	23934											
TRANK1	9881	broad.mit.edu	37	chr3	36873305	36873305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccttgactcaatctccCggaagtggcgatacaggaga	11	7	12	11	2	2	2	1	1	1	1	3	5	2	3	2	3	2	1	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:36873305C>T	uc003cgj.2	-	12	6289	c.5987G>A	c.(5986-5988)CGG>CAG	p.R1996Q		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2546					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						CTCAATCTCCCGGAAGTGGCG	0.582													6	77					0	0	1	0	0		T	36873305	T	T	36873305	3	4	27	1	0	0	0	0	1	0	0	0	16480	652	23	1	1152	1	TRANK1	3	36873305	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	702	36873305	161149125	1584	23935											
TRANK1	9881	broad.mit.edu	37	chr3	36893684	36893684	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttttccttttattccctcGtagcaaaattgccaagtcgc	9	15	6	11	2	0	0	0	0	0	0	4	0	2	0	3	0	2	3	3	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:36893684G>A	uc003cgj.2	-	4	3222	c.2920C>T	c.(2920-2922)CGA>TGA	p.R974*		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1524					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TTATTCCCTCGTAGCAAAATT	0.423													12	51					0	0	1	0	0		A	36893684	A	A	36893684	4	1	27	1	0	0	0	0	0	1	0	0	16480	1153	40	1	4251	1	TRANK1	3	36893684	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20379	36893684	161128746	1585	23936											
EPM2AIP1	9852	broad.mit.edu	37	chr3	37034495	37034495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggctccaccaccaaataaCgctgggtccactcgggccgg	9	5	12	15	3	0	0	0	0	0	0	3	1	2	0	5	4	1	2	5	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:37034495C>T	uc003cgk.2	-	1	301	c.74G>A	c.(73-75)CGT>CAT	p.R25H	MLH1_uc011aye.1_5'Flank|MLH1_uc003cgl.2_5'Flank|MLH1_uc011ayb.1_5'Flank|MLH1_uc010hge.2_5'Flank|MLH1_uc003cgn.3_5'Flank|MLH1_uc011ayc.1_5'Flank|MLH1_uc011ayd.1_5'Flank|MLH1_uc003cgo.2_5'Flank	NM_014805	NP_055620	Q7L775	EPMIP_HUMAN	EPM2A interacting protein 1	25						endoplasmic reticulum					0						CACCAAATAACGCTGGGTCCA	0.632													14	71					0	0	1	0	0		T	37034495	T	T	37034495	3	4	27	1	0	0	0	0	1	0	0	0	5192	536	19	1	1753	1	EPM2AIP1	3	37034495	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	140811	37034495	160987935	1586	23937											
LRRFIP2	9209	broad.mit.edu	37	chr3	37095362	37095362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctactgctgggccagaagtgCtgtcctattggccttcatct	6	13	10	12	0	2	1	1	0	1	1	3	1	3	1	3	2	3	2	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:37095362C>T	uc003cgp.2	-	29	2569	c.2146G>A	c.(2146-2148)GCA>ACA	p.A716T	MLH1_uc011aye.1_Intron|LRRFIP2_uc011ayf.1_Missense_Mutation_p.A498T|LRRFIP2_uc003cgr.2_Missense_Mutation_p.A419T|LRRFIP2_uc003cgs.3_Missense_Mutation_p.A419T|LRRFIP2_uc003cgt.3_Missense_Mutation_p.A395T	NM_006309	NP_006300	Q9Y608	LRRF2_HUMAN	leucine rich repeat (in FLII) interacting	716					Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1						GCCAGAAGTGCTGTCCTATTG	0.542													10	102					0	0	1	0	0		T	37095362	T	T	37095362	3	4	27	1	0	0	0	0	1	0	0	0	9046	797	28	2	23	2	LRRFIP2	3	37095362	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	60867	37095362	160927068	1587	23938											
LRRFIP2	9209	broad.mit.edu	37	chr3	37107356	37107356	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcttcctgagacacaacAgtgatggctccagccactgg	10	7	11	13	0	0	2	0	2	0	1	2	3	2	2	3	2	3	3	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:37107356A>G	uc003cgp.2	-	24	2067	c.1644T>C	c.(1642-1644)ACT>ACC	p.T548T	MLH1_uc011aye.1_3'UTR|LRRFIP2_uc011ayf.1_Silent_p.T330T|LRRFIP2_uc003cgr.2_Silent_p.T251T|LRRFIP2_uc003cgs.3_Silent_p.T251T|LRRFIP2_uc003cgt.3_Silent_p.T227T	NM_006309	NP_006300	Q9Y608	LRRF2_HUMAN	leucine rich repeat (in FLII) interacting	548					Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1						GAGACACAACAGTGATGGCTC	0.488													14	132					0	0	1	0	0		G	37107356	G	G	37107356	2	3	27	1	0	0	0	0	0	0	0	1	9046	175	7	3		3	LRRFIP2	3	37107356	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11994	37107356	160915074	1588	23939											
GOLGA4	2803	broad.mit.edu	37	chr3	37365710	37365710	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaagagcatcaggctcAtgtagaaaatttagaggcag	15	10	11	5	0	2	4	2	1	0	3	2	4	2	4	0	2	1	4	0	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:37365710A>C	uc003cgv.2	+	14	2637	c.2333A>C	c.(2332-2334)CAT>CCT	p.H778P	GOLGA4_uc010hgr.1_Missense_Mutation_p.H339P|GOLGA4_uc003cgw.2_Missense_Mutation_p.H800P|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.H659P	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	778	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						CATCAGGCTCATGTAGAAAAT	0.418													6	91					0	0	1	0	0		C	37365710	C	C	37365710	3	2	27	1	0	0	0	0	1	0	0	0	6570	217	8	5	2457	5	GOLGA4	3	37365710	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	258354	37365710	160656720	1589	23940											
ITGA9	3680	broad.mit.edu	37	chr3	37826552	37826552	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggaaatagctcatgggAacccagaagaggtgacggtg	12	7	16	6	1	1	3	1	1	0	2	1	5	1	5	1	5	2	1	1	5	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:37826552A>G	uc003chd.2	+	26	2925	c.2872A>G	c.(2872-2874)AAC>GAC	p.N958D		NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	958	Extracellular (Potential).				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		AGCTCATGGGAACCCAGAAGA	0.572													4	83					0	0	1	0	0		G	37826552	G	G	37826552	3	3	27	1	0	0	0	0	1	0	0	0	7899	246	9	3	2974	3	ITGA9	3	37826552	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	460842	37826552	160195878	1590	23941											
ITGA9	3680	broad.mit.edu	37	chr3	37845374	37845374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcgtggggtggatcatcGccatcagtttgttggtggga	6	12	16	7	3	2	0	2	0	0	0	4	2	2	2	1	5	0	2	1	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:37845374G>A	uc003chd.2	+	27	3003	c.2950G>A	c.(2950-2952)GCC>ACC	p.A984T		NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	984	Helical; (Potential).				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		GTGGATCATCGCCATCAGTTT	0.552													8	78					0	0	1	0	0		A	37845374	A	A	37845374	3	1	27	1	0	0	0	0	1	0	0	0	7899	1087	38	1	3056	1	ITGA9	3	37845374	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	18822	37845374	160177056	1591	23942											
VILL	50853	broad.mit.edu	37	chr3	38042991	38042991	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagcccgtggaccccaaGcgtcatggacagctgtgtgc	8	6	14	13	2	1	0	1	0	0	0	1	2	1	2	3	3	4	2	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38042991G>T	uc003chj.2	+	12	1513	c.1227G>T	c.(1225-1227)AAG>AAT	p.K409N	VILL_uc003chl.2_Missense_Mutation_p.K409N|VILL_uc010hgu.2_Missense_Mutation_p.K239N	NM_015873	NP_056957	O15195	VILL_HUMAN	villin-like protein	409	Gelsolin-like 4.				actin filament capping|cytoskeleton organization	actin cytoskeleton	actin binding|structural constituent of cytoskeleton				0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		TGGACCCCAAGCGTCATGGAC	0.592													5	60					0.014758	0.0150623	1	1	0		T	38042991	T	T	38042991	3	4	27	1	0	0	0	0	1	0	0	0	17191	962	34	5	1269	5	VILL	3	38042991	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	197617	38042991	159979439	1592	23943											
DLEC1	9940	broad.mit.edu	37	chr3	38080868	38080868	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgtattcctccctcgcctActctgaggccttccactaca	6	13	5	17	1	1	1	0	1	1	0	5	1	4	1	5	1	2	1	5	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38080868A>G	uc003cho.1	+	1	173	c.152A>G	c.(151-153)TAC>TGC	p.Y51C	DLEC1_uc003chp.1_Missense_Mutation_p.Y51C|DLEC1_uc010hgv.1_Missense_Mutation_p.Y51C	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	51					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		TCCCTCGCCTACTCTGAGGCC	0.687													6	66					0	0	1	0	0		G	38080868	G	G	38080868	3	3	27	1	0	0	0	0	1	0	0	0	4558	391	14	3	154	3	DLEC1	3	38080868	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37877	38080868	159941562	1593	23944											
DLEC1	9940	broad.mit.edu	37	chr3	38153716	38153716	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagattttatggagagcaTgctatcccacgggaaaggag	12	8	12	9	1	0	2	0	0	0	2	1	5	1	4	2	3	2	2	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38153716T>C	uc003cho.1	+	25	3551	c.3530T>C	c.(3529-3531)ATG>ACG	p.M1177T	DLEC1_uc003chp.1_Missense_Mutation_p.M1177T|DLEC1_uc010hgv.1_Missense_Mutation_p.M1180T|DLEC1_uc003chr.1_Intron|DLEC1_uc010hgx.1_RNA	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	1177					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		ATGGAGAGCATGCTATCCCAC	0.567													16	125					0	0	1	0	0		C	38153716	C	C	38153716	3	2	27	1	0	0	0	0	1	0	0	0	4558	1464	51	3	3628	3	DLEC1	3	38153716	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	72848	38153716	159868714	1594	23945											
DLEC1	9940	broad.mit.edu	37	chr3	38158779	38158779	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaactggacctgcatagctaCgtgaggcctgcacagtgagt	11	8	12	10	1	0	2	0	2	0	0	0	3	0	3	2	2	5	3	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38158779C>T	uc003cho.1	+	31	4407	c.4386C>T	c.(4384-4386)TAC>TAT	p.Y1462Y	DLEC1_uc003chp.1_Silent_p.Y1462Y|DLEC1_uc010hgv.1_Silent_p.Y1465Y|DLEC1_uc003chr.1_Silent_p.Y533Y|DLEC1_uc010hgx.1_RNA|DLEC1_uc003chs.1_Translation_Start_Site	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	1462					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		TGCATAGCTACGTGAGGCCTG	0.602													3	29					0	0	1	0	0		T	38158779	T	T	38158779	2	4	27	1	0	0	0	0	0	0	0	1	4558	547	19	1		1	DLEC1	3	38158779	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5063	38158779	159863651	1595	23946											
ACAA1	30	broad.mit.edu	37	chr3	38173487	38173487	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacaaaggcacagtctcCgggatgtcactgaaacagaa	14	6	12	9	1	2	2	1	1	1	1	3	4	2	4	1	3	1	1	1	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38173487C>T	uc003cht.2	-	4	540	c.333G>A	c.(331-333)CCG>CCA	p.P111P	ACAA1_uc003chu.2_Silent_p.P111P|ACAA1_uc010hgy.2_Intron|ACAA1_uc010hgz.2_Silent_p.P111P|ACAA1_uc003chv.2_5'UTR	NM_001607	NP_001598	P09110	THIK_HUMAN	acetyl-Coenzyme A acyltransferase 1 isoform a	111					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy	peroxisomal matrix	acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0523)|Kidney(284;0.0657)		GCACAGTCTCCGGGATGTCAC	0.532											OREG0015477	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	61					0	0	1	0	0		T	38173487	T	T	38173487	2	4	27	1	0	0	0	0	0	0	0	1	104	639	23	1		1	ACAA1	3	38173487	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14708	38173487	159848943	1596	23947											
OXSR1	9943	broad.mit.edu	37	chr3	38292940	38292940	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcatttctgctggcctggtCgacggaagggatttagtaat	8	13	12	8	2	2	0	1	0	1	0	3	3	2	2	1	4	1	2	1	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38292940C>T	uc003chy.2	+	16	1764	c.1422C>T	c.(1420-1422)GTC>GTT	p.V474V	OXSR1_uc010hhb.2_Silent_p.V408V	NM_005109	NP_005100	O95747	OXSR1_HUMAN	oxidative-stress responsive 1	474					intracellular protein kinase cascade|response to oxidative stress		ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		CTGGCCTGGTCGACGGAAGGG	0.448													25	231					0	0	1	0	0		T	38292940	T	T	38292940	2	4	27	1	0	0	0	0	0	0	0	1	11355	871	31	1		1	OXSR1	3	38292940	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	119453	38292940	159729490	1597	23948											
XYLB	9942	broad.mit.edu	37	chr3	38415972	38415972	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcgctggcaggcatgagActggaggaaggtgacattgc	9	7	17	8	2	0	2	0	2	0	1	1	5	0	4	0	5	1	3	0	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38415972A>T	uc003cic.2	+	11	976	c.867A>T	c.(865-867)AGA>AGT	p.R289S	XYLB_uc011ayp.1_Missense_Mutation_p.R152S|XYLB_uc003cid.1_Missense_Mutation_p.R211S	NM_005108	NP_005099	O75191	XYLB_HUMAN	xylulokinase	289					D-xylose metabolic process|generation of precursor metabolites and energy|xylulose catabolic process		ATP binding|xylulokinase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.00372)|Kidney(284;0.00405)		CAGGCATGAGACTGGAGGAAG	0.572													11	73					0	0	1	0	0		T	38415972	T	T	38415972	3	4	27	1	0	0	0	0	1	0	0	0	17488	272	10	5	909	5	XYLB	3	38415972	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	123032	38415972	159606458	1598	23949											
ACVR2B	93	broad.mit.edu	37	chr3	38523762	38523762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagagagatgccttcctgcGcattgacatgtatgccatgg	9	10	11	11	1	0	3	0	1	0	2	1	4	1	3	4	1	3	2	4	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38523762G>A	uc003cif.2	+	9	1172	c.1148G>A	c.(1147-1149)CGC>CAC	p.R383H	ACVR2B_uc003cig.2_Missense_Mutation_p.R174H	NM_001106	NP_001097	Q13705	AVR2B_HUMAN	activin A receptor, type IIB precursor	383	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|anterior/posterior pattern formation|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|regulation of transcription, DNA-dependent	cell surface|cytoplasm|integral to plasma membrane	activin receptor activity|ATP binding|growth factor binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)		GCCTTCCTGCGCATTGACATG	0.572													6	30					0	0	1	0	0		A	38523762	A	A	38523762	3	1	27	1	0	0	0	0	1	0	0	0	224	1087	38	1	1182	1	ACVR2B	3	38523762	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	107790	38523762	159498668	1599	23950											
SCN5A	6331	broad.mit.edu	37	chr3	38591817	38591817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaggccgaggctcacaCgatggactcacggtccctgt	8	6	12	15	3	2	0	2	0	0	0	3	3	3	1	3	4	1	1	3	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38591817C>T	uc003cio.2	-	28	6240	c.6046G>A	c.(6046-6048)GTG>ATG	p.V2016M	SCN5A_uc003cin.2_Missense_Mutation_p.V2015M|SCN5A_uc003cil.3_Missense_Mutation_p.V2016M|SCN5A_uc010hhi.2_Missense_Mutation_p.V1998M|SCN5A_uc010hhk.2_Missense_Mutation_p.V1983M|SCN5A_uc011ayr.1_Missense_Mutation_p.V1962M	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	2016					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	GAGGCTCACACGATGGACTCA	0.592													24	101					0	0	1	0	0		T	38591817	T	T	38591817	3	4	27	1	0	0	0	0	1	0	0	0	13947	536	19	1	8	1	SCN5A	3	38591817	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	68055	38591817	159430613	1600	23951											
SCN5A	6331	broad.mit.edu	37	chr3	38596019	38596019	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcttggtcacaatgtcgaAtatgaagccctggtacttgt	9	13	10	9	1	1	1	1	1	0	0	2	2	1	1	1	2	3	2	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38596019A>T	uc003cio.2	-	27	4758	c.4564T>A	c.(4564-4566)TTC>ATC	p.F1522I	SCN5A_uc003cin.2_Missense_Mutation_p.F1521I|SCN5A_uc003cil.3_Missense_Mutation_p.F1522I|SCN5A_uc010hhi.2_Missense_Mutation_p.F1504I|SCN5A_uc010hhk.2_Missense_Mutation_p.F1521I|SCN5A_uc011ayr.1_Missense_Mutation_p.F1468I	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1522					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	ACAATGTCGAATATGAAGCCC	0.507													10	107					0	0	1	0	0		T	38596019	T	T	38596019	3	4	27	1	0	0	0	0	1	0	0	0	13947	101	4	5	1494	5	SCN5A	3	38596019	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4202	38596019	159426411	1601	23952											
SCN5A	6331	broad.mit.edu	37	chr3	38649682	38649682	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagtaacacatcagaggTgccgttcttgagcaggtaat	13	9	10	9	1	2	2	1	1	1	1	2	2	2	2	1	2	3	4	1	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38649682T>C	uc003cio.2	-	8	1152	c.958A>G	c.(958-960)ACC>GCC	p.T320A	SCN5A_uc003cin.2_Missense_Mutation_p.T320A|SCN5A_uc003cil.3_Missense_Mutation_p.T320A|SCN5A_uc010hhi.2_Missense_Mutation_p.T320A|SCN5A_uc010hhk.2_Missense_Mutation_p.T320A|SCN5A_uc011ayr.1_Missense_Mutation_p.T320A|SCN5A_uc010hhj.1_5'Flank	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	320					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	ACATCAGAGGTGCCGTTCTTG	0.557													11	117					0	0	1	0	0		C	38649682	C	C	38649682	3	2	27	1	0	0	0	0	1	0	0	0	13947	1696	59	3	5176	3	SCN5A	3	38649682	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53663	38649682	159372748	1602	23953											
SCN10A	6336	broad.mit.edu	37	chr3	38753796	38753796	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacaagggaaaactctccAtcggtatagttgatgcacct	12	10	10	9	1	1	1	0	1	1	0	3	2	1	2	2	3	3	4	2	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38753796A>G	uc003ciq.2	-	22	3945	c.3945T>C	c.(3943-3945)GAT>GAC	p.D1315D		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1315	III.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	AAAACTCTCCATCGGTATAGT	0.463													11	146					0	0	1	0	0		G	38753796	G	G	38753796	2	3	27	1	0	0	0	0	0	0	0	1	13937	214	8	3		3	SCN10A	3	38753796	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	104114	38753796	159268634	1603	23954											
SCN10A	6336	broad.mit.edu	37	chr3	38798267	38798267	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgctcctcatacgccatggtGactacagccaagatcaagtt	11	10	8	12	1	2	2	2	1	0	1	3	2	3	2	3	1	4	2	3	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38798267G>C	uc003ciq.2	-	9	1188	c.1188C>G	c.(1186-1188)GTC>GTG	p.V396V		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	396	Helical; Name=S6 of repeat I; (Potential).|I.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	ACGCCATGGTGACTACAGCCA	0.488													33	141					0	0	1	0	0		C	38798267	C	C	38798267	2	2	27	1	0	0	0	0	0	0	0	1	13937	1277	45	5		5	SCN10A	3	38798267	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	44471	38798267	159224163	1604	23955											
SCN11A	11280	broad.mit.edu	37	chr3	38908837	38908837	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgttggttgaagttgTcaatgataacgccaatgaag	11	13	11	6	1	2	3	1	3	1	0	2	3	2	3	1	1	2	4	1	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38908837T>A	uc011ays.1	-	23	4125	c.3926A>T	c.(3925-3927)GAC>GTC	p.D1309V		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1309	III.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	GTTGAAGTTGTCAATGATAAC	0.368													6	71					0	0	1	0	0		A	38908837	A	A	38908837	3	1	27	1	0	0	0	0	1	0	0	0	13938	1667	58	5	1465	5	SCN11A	3	38908837	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	110570	38908837	159113593	1605	23956											
SCN11A	11280	broad.mit.edu	37	chr3	38913112	38913112	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaagaagtatactcccaGaatacaaaatacgagccaga	21	5	7	8	1	0	4	0	0	0	4	1	5	1	4	2	0	4	1	2	0	10	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:38913112G>T	uc011ays.1	-	21	3782	c.3583C>A	c.(3583-3585)CTG>ATG	p.L1195M		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1195	Helical; Name=S5 of repeat III; (By similarity).|III.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	TATACTCCCAGAATACAAAAT	0.363													4	55					1.024e-07	1.12055e-07	1	1	0		T	38913112	T	T	38913112	3	4	27	1	0	0	0	0	1	0	0	0	13938	933	33	5	1816	5	SCN11A	3	38913112	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4275	38913112	159109318	1606	23957											
GORASP1	64689	broad.mit.edu	37	chr3	39144266	39144266	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacatgttgctgggcaccAcctccacctcgcgcaccctc	6	7	7	21	2	0	0	0	0	0	0	3	0	1	0	6	1	1	4	6	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:39144266A>G	uc003ciw.1	-	3	349	c.251T>C	c.(250-252)GTG>GCG	p.V84A	GORASP1_uc003civ.1_RNA|GORASP1_uc003cix.1_RNA|GORASP1_uc003ciy.1_RNA|GORASP1_uc011ayw.1_Intron|GORASP1_uc003ciz.1_Intron	NM_031899	NP_114105	Q9BQQ3	GORS1_HUMAN	Golgi reassembly stacking protein 1	84					mitotic prophase|protein transport	cytosol|Golgi apparatus|membrane				ovary(2)|central_nervous_system(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		GCTGGGCACCACCTCCACCTC	0.602													28	100					0	0	1	0	0		G	39144266	G	G	39144266	3	3	27	1	0	0	0	0	1	0	0	0	6590	159	6	3	1099	3	GORASP1	3	39144266	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	231154	39144266	158878164	1607	23958											
XIRP1	165904	broad.mit.edu	37	chr3	39228564	39228564	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctggccctcgggcctccatGaggatgcctccatggtgcag	5	8	13	15	1	0	1	0	1	0	0	3	2	2	2	6	4	2	1	6	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:39228564G>A	uc003cjk.1	-	2	2594	c.2373C>T	c.(2371-2373)CTC>CTT	p.L791L	XIRP1_uc003cji.2_Silent_p.L791L|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	791							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		GGGCCTCCATGAGGATGCCTC	0.617													12	65					0	0	1	0	0		A	39228564	A	A	39228564	2	1	27	1	0	0	0	0	0	0	0	1	17455	1277	45	4		4	XIRP1	3	39228564	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	84298	39228564	158793866	1608	23959											
XIRP1	165904	broad.mit.edu	37	chr3	39230227	39230227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatggcacacaggggctccGtttggaagagcttcactgtc	8	9	14	10	1	1	1	1	0	0	1	3	3	2	3	1	5	1	4	1	5	1	2	rs35083720		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:39230227G>A	uc003cjk.1	-	2	931	c.710C>T	c.(709-711)ACG>ATG	p.T237M	XIRP1_uc003cji.2_Missense_Mutation_p.T237M|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	237	Xin 5.						actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CAGGGGCTCCGTTTGGAAGAG	0.622													7	99					0	0	1	0	0		A	39230227	A	A	39230227	3	1	27	1	0	0	0	0	1	0	0	0	17455	1145	40	1	4825	1	XIRP1	3	39230227	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1663	39230227	158792203	1609	23960											
XIRP1	165904	broad.mit.edu	37	chr3	39230238	39230238	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggggctccgtttggaagagCttcactgtctttttcacatc	7	14	10	10	1	3	1	2	0	1	1	5	2	4	2	1	3	1	3	1	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:39230238C>A	uc003cjk.1	-	2	920	c.699G>T	c.(697-699)AAG>AAT	p.K233N	XIRP1_uc003cji.2_Missense_Mutation_p.K233N|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	233	Xin 5.						actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		TTTGGAAGAGCTTCACTGTCT	0.617													8	99					3.09899e-07	3.3784e-07	1	1	0		A	39230238	A	A	39230238	3	1	27	1	0	0	0	0	1	0	0	0	17455	796	28	5	4836	5	XIRP1	3	39230238	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11	39230238	158792192	1610	23961											
CX3CR1	1524	broad.mit.edu	37	chr3	39307504	39307504	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctttctgctttgtgaacAtgaactggggtgctgccacc	6	15	10	10	0	2	2	0	2	2	0	2	2	2	2	2	2	5	2	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:39307504A>G	uc003cjl.2	-	2	589	c.497T>C	c.(496-498)ATG>ACG	p.M166T		NM_001337	NP_001328	P49238	CX3C1_HUMAN	chemokine (C-X3-C motif) receptor 1	166	Helical; Name=4; (Potential).				cell adhesion|cellular defense response|chemotaxis|interspecies interaction between organisms|response to wounding	integral to plasma membrane	chemokine receptor activity			lung(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.0557)|Kidney(284;0.0699)		CTTTGTGAACATGAACTGGGG	0.552													6	84					0	0	1	0	0		G	39307504	G	G	39307504	3	3	27	1	0	0	0	0	1	0	0	0	4078	217	8	3	574	3	CX3CR1	3	39307504	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	77266	39307504	158714926	1611	23962											
SLC25A38	54977	broad.mit.edu	37	chr3	39433000	39433000	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tactctttgaagcagtatttCttgcgaggccatcccccaac	9	12	7	13	1	2	1	0	1	2	0	3	2	3	1	3	1	4	2	3	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:39433000C>T	uc003cjo.2	+	4	746	c.345C>T	c.(343-345)TTC>TTT	p.F115F		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	115					erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		AGCAGTATTTCTTGCGAGGCC	0.512													80	321					0	0	1	0	0		T	39433000	T	T	39433000	2	4	27	1	0	0	0	0	0	0	0	1	14527	912	32	4		4	SLC25A38	3	39433000	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	125496	39433000	158589430	1612	23963											
ENTPD3	956	broad.mit.edu	37	chr3	40456320	40456320	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagccaactatttaatgggaAatttcctggaggtgtgtgca	11	12	11	7	0	0	0	0	0	0	0	1	2	1	2	2	3	3	1	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:40456320A>G	uc003ckd.3	+	6	678	c.586A>G	c.(586-588)AAT>GAT	p.N196D	ENTPD3_uc010hhy.2_Missense_Mutation_p.N196D|uc003cke.3_Intron	NM_001248	NP_001239	O75355	ENTP3_HUMAN	ectonucleoside triphosphate diphosphohydrolase	196	Extracellular (Potential).					integral to membrane	ATP binding|hydrolase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0605)|Kidney(284;0.0758)		TTTAATGGGAAATTTCCTGGA	0.428													18	178					0	0	1	0	0		G	40456320	G	G	40456320	3	3	27	1	0	0	0	0	1	0	0	0	5148	14	1	3	604	3	ENTPD3	3	40456320	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1023320	40456320	157566110	1613	23964											
ULK4	54986	broad.mit.edu	37	chr3	41607557	41607557	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattcgaatctttgcaggcaActagattgctgagtaatgca	12	13	9	7	1	1	2	0	1	1	1	2	3	1	2	0	1	4	5	0	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:41607557A>G	uc003ckv.3	-	32	3386	c.3185T>C	c.(3184-3186)GTT>GCT	p.V1062A		NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	1062	HEAT 3.						ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		TTTGCAGGCAACTAGATTGCT	0.348													6	63					0	0	1	0	0		G	41607557	G	G	41607557	3	3	27	1	0	0	0	0	1	0	0	0	17004	43	2	3	666	3	ULK4	3	41607557	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1151237	41607557	156414873	1614	23965											
TRAK1	22906	broad.mit.edu	37	chr3	42242337	42242337	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcgtgtctttgagacagtAagaaacatcaaccaggttgt	14	10	10	7	1	2	2	1	1	1	2	2	3	2	2	1	1	3	2	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:42242337A>G	uc003cky.2	+	12	1434	c.1218A>G	c.(1216-1218)GTA>GTG	p.V406V	TRAK1_uc011azh.1_Silent_p.V406V|TRAK1_uc011azi.1_Silent_p.V406V|TRAK1_uc003ckz.3_Silent_p.V332V|TRAK1_uc011azj.1_Silent_p.V332V|TRAK1_uc003cla.2_Silent_p.V348V	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	406	Interaction with HGS.				endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						TTGAGACAGTAAGAAACATCA	0.527													4	93					0	0	1	0	0		G	42242337	G	G	42242337	2	3	27	1	0	0	0	0	0	0	0	1	16475	349	13	3		3	TRAK1	3	42242337	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	634780	42242337	155780093	1615	23966											
VIPR1	7433	broad.mit.edu	37	chr3	42576474	42576474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctgtctccagaaggctaGccaggtccacactcctgctg	7	8	9	17	0	1	1	0	0	1	1	4	1	3	1	6	2	2	2	6	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:42576474G>A	uc003clf.2	+	11	1142	c.1018G>A	c.(1018-1020)GCC>ACC	p.A340T	VIPR1_uc011azl.1_Missense_Mutation_p.A292T|VIPR1_uc011azm.1_Missense_Mutation_p.A130T|VIPR1_uc011azn.1_Missense_Mutation_p.A313T|VIPR1_uc003clg.2_5'UTR	NM_004624	NP_004615	P32241	VIPR1_HUMAN	vasoactive intestinal peptide receptor 1	340	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|muscle contraction|positive regulation of cell proliferation|synaptic transmission	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.241)		CAGAAGGCTAGCCAGGTCCAC	0.527													4	61					0	0	1	0	0		A	42576474	A	A	42576474	3	1	27	1	0	0	0	0	1	0	0	0	17195	971	34	2	1060	2	VIPR1	3	42576474	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	334137	42576474	155445956	1616	23967											
VIPR1	7433	broad.mit.edu	37	chr3	42577688	42577688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcagcaacggcgccacgtGcagcacgcaggtttccatgc	9	5	13	14	4	0	0	0	0	0	0	1	0	1	0	2	3	5	6	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:42577688G>A	uc003clf.2	+	13	1413	c.1289G>A	c.(1288-1290)TGC>TAC	p.C430Y	VIPR1_uc011azl.1_Missense_Mutation_p.C382Y|VIPR1_uc011azm.1_Missense_Mutation_p.C220Y|VIPR1_uc011azn.1_Missense_Mutation_p.C403Y|VIPR1_uc003clg.2_Missense_Mutation_p.C75Y	NM_004624	NP_004615	P32241	VIPR1_HUMAN	vasoactive intestinal peptide receptor 1	430	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|muscle contraction|positive regulation of cell proliferation|synaptic transmission	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.241)		GGCGCCACGTGCAGCACGCAG	0.692													4	13					0	0	1	0	0		A	42577688	A	A	42577688	3	1	27	1	0	0	0	0	1	0	0	0	17195	1319	46	2	1339	2	VIPR1	3	42577688	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1214	42577688	155444742	1617	23968											
NKTR	4820	broad.mit.edu	37	chr3	42679032	42679032	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtaataccactgagtgaCagtccccccccttcaagatg	10	9	7	15	0	1	3	1	2	0	1	2	3	2	3	6	0	1	1	6	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:42679032C>T	uc003clo.2	+	13	1983	c.1836C>T	c.(1834-1836)GAC>GAT	p.D612D	NKTR_uc003clm.1_Silent_p.D359D|NKTR_uc003clp.2_Silent_p.D359D|NKTR_uc011azp.1_Intron|NKTR_uc003clq.1_Silent_p.D502D|NKTR_uc003clr.1_Silent_p.D359D|NKTR_uc003cls.2_Silent_p.D312D	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	612					protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		CACTGAGTGACAGTCCCCCCC	0.423													46	145					0	0	1	0	0		T	42679032	T	T	42679032	2	4	27	1	0	0	0	0	0	0	0	1	10467	477	17	4		4	NKTR	3	42679032	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	101344	42679032	155343398	1618	23969											
CYP8B1	1582	broad.mit.edu	37	chr3	42916705	42916705	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgcggaactccatgaataActctcctgcctgtagcaggt	9	11	9	12	1	1	1	0	1	1	0	3	2	2	2	3	2	5	2	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:42916705A>T	uc003cmh.2	-	1	929	c.604T>A	c.(604-606)TTA>ATA	p.L202I	CCBP2_uc003cmd.1_Intron|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Missense_Mutation_p.L202I	NM_004391	NP_004382	Q9UNU6	CP8B1_HUMAN	cytochrome P450, family 8, subfamily B,	202					bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	7alpha-hydroxycholest-4-en-3-one 12alpha-hydroxylase activity|electron carrier activity|heme binding|oxygen binding|sterol 12-alpha-hydroxylase activity			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.213)|Kidney(284;0.249)		TCCATGAATAACTCTCCTGCC	0.537													5	64					0	0	1	0	0		T	42916705	T	T	42916705	3	4	27	1	0	0	0	0	1	0	0	0	4201	40	2	5	905	5	CYP8B1	3	42916705	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	237673	42916705	155105725	1619	23970											
CYP8B1	1582	broad.mit.edu	37	chr3	42917312	42917312	+	Translation_Start_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaccccagagaaccatggcTatgctcctgcggattaagct	10	8	11	12	1	0	1	0	0	0	1	1	4	1	3	4	3	4	3	4	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:42917312T>C	uc003cmh.2	-	1	322	c.-3A>G	c.(-5--1)ATAGC>ATGGC		CCBP2_uc003cmd.1_Intron|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Translation_Start_Site	NM_004391	NP_004382	Q9UNU6	CP8B1_HUMAN	cytochrome P450, family 8, subfamily B,						bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	7alpha-hydroxycholest-4-en-3-one 12alpha-hydroxylase activity|electron carrier activity|heme binding|oxygen binding|sterol 12-alpha-hydroxylase activity			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.213)|Kidney(284;0.249)		GAACCATGGCTATGCTCCTGC	0.592													5	32					0	0	1	0	0		C	42917312	C	C	42917312	1	2	27	1	0	0	0	0	0	0	0	0	4201	1537	53	3		3	CYP8B1	3	42917312	Translation_Start_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	607	42917312	155105118	1620	23971											
ZNF662	389114	broad.mit.edu	37	chr3	42956105	42956105	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgtcaataacctccttggTatacatcacaaaattctaaa	16	12	4	9	0	3	0	2	0	1	0	4	1	4	0	2	1	2	1	2	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:42956105T>C	uc003cmi.2	+	5	892	c.540T>C	c.(538-540)GGT>GGC	p.G180G	ZNF662_uc003cmk.2_Silent_p.G206G|ZNF662_uc003cmj.2_Silent_p.G72G	NM_207404	NP_997287	Q6ZS27	ZN662_HUMAN	zinc finger protein 662 isoform 1	180					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.217)		ACCTCCTTGGTATACATCACA	0.348													5	52					0	0	1	0	0		C	42956105	C	C	42956105	2	2	27	1	0	0	0	0	0	0	0	1	18096	1625	57	3		3	ZNF662	3	42956105	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	38793	42956105	155066325	1621	23972											
SNRK	54861	broad.mit.edu	37	chr3	43344905	43344905	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgagatgcatgaaactagtGcagcatcctaacatcgtccg	12	9	10	10	2	0	2	0	2	0	1	3	3	2	2	2	0	5	3	2	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:43344905G>A	uc003cms.3	+	3	542	c.210G>A	c.(208-210)GTG>GTA	p.V70V	SNRK_uc003cmt.3_Silent_p.V70V|SNRK_uc010hik.2_Silent_p.V70V|SNRK_uc011azr.1_Intron|SNRK_uc003cmu.2_Silent_p.V70V	NM_017719	NP_060189	Q9NRH2	SNRK_HUMAN	SNF related kinase	70	Protein kinase.				myeloid cell differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.0636)|Kidney(284;0.0792)		TGAAACTAGTGCAGCATCCTA	0.403													5	79					0	0	1	0	0		A	43344905	A	A	43344905	2	1	27	1	0	0	0	0	0	0	0	1	14876	1306	46	2		2	SNRK	3	43344905	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	388800	43344905	154677525	1622	23973											
SNRK	54861	broad.mit.edu	37	chr3	43389110	43389110	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgaagaggaagatgaGgaggacaagaaacccatgtc	18	4	14	5	0	0	6	0	2	0	4	1	10	0	9	1	3	1	0	1	3	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:43389110G>A	uc003cms.3	+	7	1691	c.1359G>A	c.(1357-1359)GAG>GAA	p.E453E	SNRK_uc003cmt.3_Silent_p.E453E|SNRK_uc010hik.2_Silent_p.E453E|SNRK_uc011azr.1_Silent_p.E247E	NM_017719	NP_060189	Q9NRH2	SNRK_HUMAN	SNF related kinase	453					myeloid cell differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.0636)|Kidney(284;0.0792)		AGGAAGATGAGGAGGACAAGA	0.557													9	42					0	0	1	0	0		A	43389110	A	A	43389110	2	1	27	1	0	0	0	0	0	0	0	1	14876	991	35	4		4	SNRK	3	43389110	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	44205	43389110	154633320	1623	23974											
ZNF445	353274	broad.mit.edu	37	chr3	44492035	44492035	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactcgtcctgggagaaggTcacctccacatccttgaaag	10	8	9	14	1	1	2	1	1	0	1	5	3	4	2	5	2	0	0	5	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:44492035T>A	uc003cnf.2	-	6	1072	c.724A>T	c.(724-726)ACC>TCC	p.T242S	ZNF445_uc011azv.1_Missense_Mutation_p.T230S|ZNF445_uc011azw.1_Missense_Mutation_p.T242S	NM_181489	NP_852466	P59923	ZN445_HUMAN	zinc finger protein 445	242	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		TGGGAGAAGGTCACCTCCACA	0.537													6	70					0	0	1	0	0		A	44492035	A	A	44492035	3	1	27	1	0	0	0	0	1	0	0	0	17943	1667	58	5	2383	5	ZNF445	3	44492035	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1102925	44492035	153530395	1624	23975											
ZNF197	10168	broad.mit.edu	37	chr3	44685375	44685375	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtcagaataaaaaccttgTtgtacatcagagaatgcaca	17	10	7	7	0	2	2	2	0	0	2	2	3	2	2	1	0	3	3	1	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:44685375T>G	uc003cnm.2	+	6	2959	c.2753T>G	c.(2752-2754)GTT>GGT	p.V918G	ZNF197_uc003cnn.2_Intron|ZNF197_uc003cno.2_Intron|ZNF197_uc003cnp.2_Intron	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	918	C2H2-type 20.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|skin(1)	4				KIRC - Kidney renal clear cell carcinoma(197;0.0478)|Kidney(197;0.0598)		AAAAACCTTGTTGTACATCAG	0.358													8	122					0	0	1	0	0		G	44685375	G	G	44685375	3	3	27	1	0	0	0	0	1	0	0	0	17784	1725	60	5	2771	5	ZNF197	3	44685375	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	193340	44685375	153337055	1625	23976											
ZNF35	7584	broad.mit.edu	37	chr3	44692631	44692631	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggtgaaaaaggaggaggaAgaagaagaaaacttcccagg	20	3	14	4	0	0	4	0	1	0	3	1	7	1	7	1	5	1	0	1	5	8	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:44692631A>G	uc003cnq.2	+	2	293	c.72A>G	c.(70-72)GAA>GAG	p.E24E	ZNF35_uc003cnr.2_5'UTR	NM_003420	NP_003411	P13682	ZNF35_HUMAN	zinc finger protein 35	24	Globular domain.|Poly-Glu.				cellular response to retinoic acid|spermatogenesis	nucleus|perinuclear region of cytoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(412;0.0228)		OV - Ovarian serous cystadenocarcinoma(275;2.49e-27)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)		AGGAGGAGGAAGAAGAAGAAA	0.537													17	62					0	0	1	0	0		G	44692631	G	G	44692631	2	3	27	1	0	0	0	0	0	0	0	1	17887	69	3	3		3	ZNF35	3	44692631	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7256	44692631	153329799	1626	23977											
ZNF35	7584	broad.mit.edu	37	chr3	44701410	44701410	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttccaactcacacctcatgCgacaccatagaacccatctt	12	10	3	16	1	3	1	2	0	1	1	4	2	4	1	4	0	3	0	4	0	3	3	rs148645131		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:44701410C>T	uc003cnq.2	+	4	1776	c.1555C>T	c.(1555-1557)CGA>TGA	p.R519*	ZNF35_uc003cnr.2_Nonsense_Mutation_p.R359*	NM_003420	NP_003411	P13682	ZNF35_HUMAN	zinc finger protein 35	519	C2H2-type 11.				cellular response to retinoic acid|spermatogenesis	nucleus|perinuclear region of cytoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(412;0.0228)		OV - Ovarian serous cystadenocarcinoma(275;2.49e-27)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)		ACACCTCATGCGACACCATAG	0.498													12	85					0	0	1	0	0		T	44701410	T	T	44701410	4	4	27	1	0	0	0	0	0	1	0	0	17887	760	27	1	1565	1	ZNF35	3	44701410	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8779	44701410	153321020	1627	23978											
FYCO1	79443	broad.mit.edu	37	chr3	45972594	45972594	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcggtgtgtcctcggccTcctggaagaccacactgaag	8	7	12	14	2	0	2	0	1	0	1	3	3	2	3	5	3	1	0	5	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:45972594T>C	uc003cpb.3	-	16	4426	c.4220A>G	c.(4219-4221)GAG>GGG	p.E1407G	FYCO1_uc011bal.1_Missense_Mutation_p.E1427G	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	1407	GOLD.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GTCCTCGGCCTCCTGGAAGAC	0.587													4	31					0	0	1	0	0		C	45972594	C	C	45972594	3	2	27	1	0	0	0	0	1	0	0	0	6139	1551	54	3	228	3	FYCO1	3	45972594	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1271184	45972594	152049836	1628	23979											
FYCO1	79443	broad.mit.edu	37	chr3	46000895	46000895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgctgacctgcagtggtGccgccgcaccatccagctga	6	7	11	17	2	0	2	0	2	0	0	1	2	1	2	6	1	4	4	6	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:46000895G>A	uc003cpb.3	-	12	3783	c.3577C>T	c.(3577-3579)CAC>TAC	p.H1193Y	FYCO1_uc011bal.1_Missense_Mutation_p.H1193Y	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	1193	FYVE-type.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		CTGCAGTGGTGCCGCCGCACC	0.602													9	127					0	0	1	0	0		A	46000895	A	A	46000895	3	1	27	1	0	0	0	0	1	0	0	0	6139	1319	46	2	887	2	FYCO1	3	46000895	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	28301	46000895	152021535	1629	23980											
FYCO1	79443	broad.mit.edu	37	chr3	46005857	46005857	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcacgcagggcagccccCtccttgtccttcctcagcat	5	11	7	18	1	3	0	2	0	1	0	6	0	6	0	5	1	2	3	5	1	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:46005857C>A	uc003cpb.3	-	10	3446	c.3240G>T	c.(3238-3240)GAG>GAT	p.E1080D	FYCO1_uc011bal.1_Missense_Mutation_p.E1080D	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	1080	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GGGCAGCCCCCTCCTTGTCCT	0.557													5	100					0.184627	0.185716	1	1	0		A	46005857	A	A	46005857	3	1	27	1	0	0	0	0	1	0	0	0	6139	680	24	5	1232	5	FYCO1	3	46005857	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4962	46005857	152016573	1630	23981											
FYCO1	79443	broad.mit.edu	37	chr3	46008779	46008779	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccttggccttccttacagCcagcaagctcgcctccatct	6	11	6	18	1	1	0	0	0	1	0	5	0	4	0	6	1	4	2	6	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:46008779C>G	uc003cpb.3	-	8	2253	c.2047G>C	c.(2047-2049)GCT>CCT	p.A683P	FYCO1_uc011bal.1_Missense_Mutation_p.A683P	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	683	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		TTCCTTACAGCCAGCAAGCTC	0.632													8	130					0	0	1	0	0		G	46008779	G	G	46008779	3	3	27	1	0	0	0	0	1	0	0	0	6139	739	26	5	2433	5	FYCO1	3	46008779	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2922	46008779	152013651	1631	23982											
CCR3	1232	broad.mit.edu	37	chr3	46307353	46307353	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgccccagtaaaaaaaagtAcaaggccatccggctcattt	14	8	8	11	1	1	0	1	0	0	0	2	0	2	0	4	2	2	3	4	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:46307353A>G	uc003cpg.1	+	4	1247	c.704A>G	c.(703-705)TAC>TGC	p.Y235C	CCR3_uc003cpi.1_Missense_Mutation_p.Y235C|CCR3_uc003cpj.1_Missense_Mutation_p.Y235C|CCR3_uc003cpk.1_Missense_Mutation_p.Y256C|CCR3_uc010hjb.1_Missense_Mutation_p.Y253C|CCR3_uc003cpl.1_Missense_Mutation_p.Y268C	NM_178329	NP_847899	P51677	CCR3_HUMAN	CC chemokine receptor 3 isoform 1	235	Cytoplasmic (Potential).				cell adhesion|cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|inflammatory response|interspecies interaction between organisms|positive regulation of angiogenesis	integral to plasma membrane				ovary(3)|lung(3)|breast(1)|kidney(1)	8				BRCA - Breast invasive adenocarcinoma(193;0.00119)|KIRC - Kidney renal clear cell carcinoma(197;0.0183)|Kidney(197;0.0216)		AAAAAAAAGTACAAGGCCATC	0.453													4	63					0	0	1	0	0		G	46307353	G	G	46307353	3	3	27	1	0	0	0	0	1	0	0	0	2945	391	14	3	773	3	CCR3	3	46307353	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	298574	46307353	151715077	1632	23983											
CCR2	729230	broad.mit.edu	37	chr3	46399365	46399365	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgcaatgtgcaaattatTcacagggctgtatcacatcg	13	11	9	8	1	2	0	2	0	0	0	3	1	2	0	0	1	2	4	0	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:46399365T>A	uc003cpn.3	+	2	832	c.347T>A	c.(346-348)TTC>TAC	p.F116Y	CCR2_uc003cpm.3_Missense_Mutation_p.F116Y	NM_001123041	NP_001116513	P41597	CCR2_HUMAN	chemokine (C-C motif) receptor 2 isoform A	116	Helical; Name=3; (Potential).				astrocyte cell migration|blood vessel remodeling|cellular defense response|chemokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response|interspecies interaction between organisms|JAK-STAT cascade|monocyte extravasation|negative regulation of adenylate cyclase activity|negative regulation of angiogenesis|negative regulation of eosinophil degranulation|negative regulation of type 2 immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of immune complex clearance by monocytes and macrophages|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-2 production|positive regulation of monocyte chemotaxis|positive regulation of T cell chemotaxis|positive regulation of T cell extravasation|positive regulation of T-helper 1 type immune response|positive regulation of tumor necrosis factor biosynthetic process|regulation of vascular endothelial growth factor production|T-helper 17 cell chemotaxis	cytosol|dendrite|integral to plasma membrane|perikaryon|perinuclear region of cytoplasm|soluble fraction	C-C chemokine receptor activity|CCR2 chemokine receptor binding|protein homodimerization activity			lung(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0174)|Kidney(197;0.0206)		TGCAAATTATTCACAGGGCTG	0.438													33	396					0	0	1	0	0		A	46399365	A	A	46399365	3	1	27	1	0	0	0	0	1	0	0	0	2944	1783	62	5	349	5	CCR2	3	46399365	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	92012	46399365	151623065	1633	23984											
CCR5	1234	broad.mit.edu	37	chr3	46415345	46415345	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccaaaagcacattgccAaacgcttctgcaaatgctgt	12	11	6	12	1	2	0	0	0	2	0	3	0	3	0	2	0	5	4	2	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:46415345A>G	uc003cpo.3	+	3	1074	c.952A>G	c.(952-954)AAA>GAA	p.K318E	CCR5_uc010hjd.2_Missense_Mutation_p.K318E	NM_001100168	NP_001093638	P51681	CCR5_HUMAN	chemokine (C-C motif) receptor 5	318	Cytoplasmic (Potential).				cell-cell signaling|cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|immune response|inflammatory response|initiation of viral infection	endosome|external side of plasma membrane|integral to plasma membrane	actin binding|C-C chemokine receptor activity|coreceptor activity|phosphatidylinositol phospholipase C activity			lung(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.00112)|KIRC - Kidney renal clear cell carcinoma(197;0.017)|Kidney(197;0.02)	Maraviroc(DB04835)	GCACATTGCCAAACGCTTCTG	0.498													5	205					0	0	1	0	0		G	46415345	G	G	46415345	3	3	27	1	0	0	0	0	1	0	0	0	2947	131	5	3	954	3	CCR5	3	46415345	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	15980	46415345	151607085	1634	23985											
LTF	4057	broad.mit.edu	37	chr3	46484968	46484968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccgtagtatctctcgttgCtgttgggcacgcacttattc	6	14	10	11	3	1	0	0	0	1	0	4	0	1	0	1	1	2	7	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:46484968C>T	uc003cpq.2	-	13	1657	c.1619G>A	c.(1618-1620)AGC>AAC	p.S540N	LTF_uc003fzr.2_Missense_Mutation_p.S496N|LTF_uc010hjh.2_Missense_Mutation_p.S538N|LTF_uc003cpr.2_Missense_Mutation_p.S527N	NM_002343	NP_002334	P02788	TRFL_HUMAN	lactotransferrin precursor	540	Transferrin-like 2.				cellular iron ion homeostasis|defense response to bacterium|humoral immune response|iron ion transport	extracellular region|stored secretory granule	ferric iron binding|heparin binding|protein binding|serine-type endopeptidase activity			central_nervous_system(2)|ovary(1)|lung(1)	4				all cancers(1;7.55e-14)|GBM - Glioblastoma multiforme(1;2.1e-09)|Epithelial(1;9.25e-07)|Colorectal(1;3.81e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00129)|COAD - Colon adenocarcinoma(1;0.00308)|KIRC - Kidney renal clear cell carcinoma(197;0.0205)|Kidney(197;0.0242)|OV - Ovarian serous cystadenocarcinoma(275;0.089)	Pefloxacin(DB00487)	TCTCTCGTTGCTGTTGGGCAC	0.532													47	203					0	0	1	0	0		T	46484968	T	T	46484968	3	4	27	1	0	0	0	0	1	0	0	0	9097	797	28	2	533	2	LTF	3	46484968	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	69623	46484968	151537462	1635	23986											
ALS2CL	259173	broad.mit.edu	37	chr3	46729723	46729723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcccagagttgctgggagCtcttgtgcagctgttgcaag	6	11	13	11	0	1	1	0	0	1	1	2	2	2	2	2	1	5	7	2	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:46729723C>T	uc003cqa.1	-	3	357	c.167G>A	c.(166-168)AGC>AAC	p.S56N	ALS2CL_uc003cqb.1_Missense_Mutation_p.S56N|ALS2CL_uc003cqc.1_RNA	NM_147129	NP_667340	Q60I27	AL2CL_HUMAN	ALS2 C-terminal like isoform 1	56					endosome organization|regulation of Rho protein signal transduction		GTPase activator activity|identical protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)|central_nervous_system(2)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000726)|KIRC - Kidney renal clear cell carcinoma(197;0.0171)|Kidney(197;0.0202)		TTGCTGGGAGCTCTTGTGCAG	0.622													7	49					0	0	1	0	0		T	46729723	T	T	46729723	3	4	27	1	0	0	0	0	1	0	0	0	551	797	28	2	2790	2	ALS2CL	3	46729723	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	244755	46729723	151292707	1636	23987											
NBEAL2	23218	broad.mit.edu	37	chr3	47037074	47037074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgcaccctatggatacaGcacctacccctgcccccacc	8	7	6	20	0	1	0	0	0	1	0	1	1	1	1	7	1	5	2	7	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47037074G>A	uc003cqp.2	+	13	2028	c.1849G>A	c.(1849-1851)GCA>ACA	p.A617T	NBEAL2_uc003cqq.1_Missense_Mutation_p.A583T|NBEAL2_uc010hjm.1_Missense_Mutation_p.A178T	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	617							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		TATGGATACAGCACCTACCCC	0.637													7	53					0	0	1	0	0		A	47037074	A	A	47037074	3	1	27	1	0	0	0	0	1	0	0	0	10207	971	34	2	1899	2	NBEAL2	3	47037074	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	307351	47037074	150985356	1637	23988											
NBEAL2	23218	broad.mit.edu	37	chr3	47037863	47037863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaccctggcctacactcacCccgccctcacccgctcccag	6	5	5	25	2	2	0	2	0	0	0	3	0	3	0	8	1	1	1	8	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47037863C>T	uc003cqp.2	+	16	2433	c.2254C>T	c.(2254-2256)CCC>TCC	p.P752S	NBEAL2_uc010hjm.1_Missense_Mutation_p.P313S	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	752							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		CTACACTCACCCCGCCCTCAC	0.682													4	46					0	0	1	0	0		T	47037863	T	T	47037863	3	4	27	1	0	0	0	0	1	0	0	0	10207	623	22	4	2316	4	NBEAL2	3	47037863	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	789	47037863	150984567	1638	23989											
NBEAL2	23218	broad.mit.edu	37	chr3	47042782	47042782	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccagcctcctggagatgAtgctggagtcagccctgacc	7	7	12	15	1	1	3	1	2	0	1	2	5	2	4	6	2	3	1	6	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47042782A>G	uc003cqp.2	+	29	4677	c.4498A>G	c.(4498-4500)ATG>GTG	p.M1500V	NBEAL2_uc010hjm.1_Missense_Mutation_p.M877V|NBEAL2_uc010hjn.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1500							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		CCTGGAGATGATGCTGGAGTC	0.632													4	65					0	0	1	0	0		G	47042782	G	G	47042782	3	3	27	1	0	0	0	0	1	0	0	0	10207	333	12	3	4612	3	NBEAL2	3	47042782	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4919	47042782	150979648	1639	23990											
NBEAL2	23218	broad.mit.edu	37	chr3	47043945	47043945	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttctggaatgcctgctatGacatgcttatgagcagtggg	8	13	13	7	0	1	2	0	2	1	0	1	3	1	3	1	2	4	4	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47043945G>A	uc003cqp.2	+	32	5415	c.5236G>A	c.(5236-5238)GAC>AAC	p.D1746N	NBEAL2_uc010hjm.1_Missense_Mutation_p.D1123N|NBEAL2_uc010hjn.1_Missense_Mutation_p.D142N|NBEAL2_uc010hjo.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1746							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		TGCCTGCTATGACATGCTTAT	0.587													9	60					0	0	1	0	0		A	47043945	A	A	47043945	3	1	27	1	0	0	0	0	1	0	0	0	10207	1290	45	4	5362	4	NBEAL2	3	47043945	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1163	47043945	150978485	1640	23991											
NBEAL2	23218	broad.mit.edu	37	chr3	47045664	47045664	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacttgagctcttctttatCgatcaggccaactacttcct	8	14	6	13	1	3	1	1	1	2	0	5	2	4	1	2	1	3	2	2	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47045664C>A	uc003cqp.2	+	37	6158	c.5979C>A	c.(5977-5979)ATC>ATA	p.I1993I	NBEAL2_uc010hjm.1_Silent_p.I1370I|NBEAL2_uc010hjn.1_Silent_p.I389I|NBEAL2_uc010hjo.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1993							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		TCTTCTTTATCGATCAGGCCA	0.602													8	266					0.0381472	0.0386818	1	1	0		A	47045664	A	A	47045664	2	1	27	1	0	0	0	0	0	0	0	1	10207	874	31	5		5	NBEAL2	3	47045664	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1719	47045664	150976766	1641	23992											
KIF9	64147	broad.mit.edu	37	chr3	47288960	47288960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcataggtcacaaaggtgCggttggtcttgaaggaggat	10	10	16	5	1	3	1	2	1	1	0	3	3	3	3	0	7	1	1	0	7	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47288960C>T	uc010hjp.2	-	13	1740	c.1136G>A	c.(1135-1137)CGC>CAC	p.R379H	KIF9_uc003cqx.2_Missense_Mutation_p.R379H|KIF9_uc003cqy.2_Missense_Mutation_p.R379H|KIF9_uc011bat.1_RNA|KIF9_uc011bau.1_RNA	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	379	Potential.				blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		CACAAAGGTGCGGTTGGTCTT	0.547													10	141					0	0	1	0	0		T	47288960	T	T	47288960	3	4	27	1	0	0	0	0	1	0	0	0	8326	768	27	1	1276	1	KIF9	3	47288960	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	243296	47288960	150733470	1642	23993											
KIF9	64147	broad.mit.edu	37	chr3	47315142	47315142	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtctgcccataacacatgAtggtgcctgcaaacatttca	11	10	7	13	1	2	1	1	1	1	0	2	1	2	1	3	1	5	1	3	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47315142A>G	uc010hjp.2	-	5	870	c.266T>C	c.(265-267)ATC>ACC	p.I89T	KIF9_uc003cqx.2_Missense_Mutation_p.I89T|KIF9_uc003cqy.2_Missense_Mutation_p.I89T|KIF9_uc011bat.1_Intron|KIF9_uc011bau.1_RNA	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	89	Kinesin-motor.				blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		ATAACACATGATGGTGCCTGC	0.557													4	33					0	0	1	0	0		G	47315142	G	G	47315142	3	3	27	1	0	0	0	0	1	0	0	0	8326	333	12	3	2178	3	KIF9	3	47315142	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26182	47315142	150707288	1643	23994											
PTPN23	25930	broad.mit.edu	37	chr3	47449865	47449865	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcaatgcagttggatccCgagacggtggacaaccttga	11	9	12	9	2	1	2	1	1	0	1	2	6	2	4	2	3	2	2	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47449865C>T	uc003crf.1	+	15	1311	c.1215C>T	c.(1213-1215)CCC>CCT	p.P405P	PTPN23_uc011baw.1_Silent_p.P370P|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Silent_p.P275P	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	405	TPR 2.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity	p.P405P(1)		breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		AGTTGGATCCCGAGACGGTGG	0.597													7	55					0	0	1	0	0		T	47449865	T	T	47449865	2	4	27	1	0	0	0	0	0	0	0	1	12813	639	23	1		1	PTPN23	3	47449865	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	134723	47449865	150572565	1644	23995											
PTPN23	25930	broad.mit.edu	37	chr3	47454597	47454597	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttctgcaggcccataacggGcaagggctgcgggccacccg	7	6	14	14	3	1	0	0	0	1	0	1	0	1	0	3	4	3	3	3	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47454597G>A	uc003crf.1	+	25	4929	c.4833G>A	c.(4831-4833)GGG>GGA	p.G1611G	PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Silent_p.G1481G|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1611					cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CCCATAACGGGCAAGGGCTGC	0.607													6	63					0	0	1	0	0		A	47454597	A	A	47454597	2	1	27	1	0	0	0	0	0	0	0	1	12813	1190	42	2		2	PTPN23	3	47454597	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4732	47454597	150567833	1645	23996											
PTPN23	25930	broad.mit.edu	37	chr3	47454675	47454675	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacactcaacaagacctgAacaggttttgcctacctggt	11	10	9	11	0	1	2	1	1	0	1	1	3	1	3	3	3	4	1	3	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47454675A>G	uc003crf.1	+	25	5007	c.4911A>G	c.(4909-4911)TGA>TGG	p.*1637W	PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Nonstop_Mutation_p.*1507W|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1637					cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		ACAAGACCTGAACAGGTTTTG	0.577													6	82					0	0	1	0	0		G	47454675	G	G	47454675	4	3	27	1	0	0	0	0	0	0	0	0	12813	259	9	3	5009	3	PTPN23	3	47454675	Nonstop_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	78	47454675	150567755	1646	23997											
SCAP	22937	broad.mit.edu	37	chr3	47456380	47456380	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggctttcagggctgtgatGggtttttggtgtgcacaggg	4	13	18	6	1	1	1	1	1	0	0	1	1	1	1	0	5	1	4	0	5	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47456380G>A	uc003crh.1	-	20	3498	c.3243C>T	c.(3241-3243)CCC>CCT	p.P1081P	SCAP_uc011baz.1_Silent_p.P825P|SCAP_uc003crg.2_Silent_p.P688P|uc003cri.2_RNA	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	1081	Interaction with SREBF2 (By similarity).|Cytoplasmic (By similarity).|WD 4.				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		GGGCTGTGATGGGTTTTTGGT	0.612													9	82					0	0	1	0	0		A	47456380	A	A	47456380	2	1	27	1	0	0	0	0	0	0	0	1	13902	1335	47	4		4	SCAP	3	47456380	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1705	47456380	150566050	1647	23998											
CSPG5	10675	broad.mit.edu	37	chr3	47618735	47618735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtagaaatcagattcatCgaagggggtgaaatcatcgt	13	9	14	5	2	3	3	3	1	0	2	5	4	3	3	0	4	0	1	0	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47618735C>T	uc003crp.3	-	2	957	c.781G>A	c.(781-783)GAT>AAT	p.D261N	CSPG5_uc003crn.2_Missense_Mutation_p.D123N|CSPG5_uc003cro.3_Missense_Mutation_p.D261N|CSPG5_uc011bbb.1_Missense_Mutation_p.D123N	NM_006574	NP_006565	O95196	CSPG5_HUMAN	chondroitin sulfate proteoglycan 5 (neuroglycan	261	Extracellular (Potential).				cell differentiation|intracellular transport|nervous system development|regulation of growth	endoplasmic reticulum membrane|Golgi-associated vesicle membrane|integral to plasma membrane|membrane fraction	growth factor activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000266)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		TCAGATTCATCGAAGGGGGTG	0.368													4	11					0	0	1	0	0		T	47618735	T	T	47618735	3	4	27	1	0	0	0	0	1	0	0	0	3964	884	31	1	854	1	CSPG5	3	47618735	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	162355	47618735	150403695	1648	23999											
SMARCC1	6599	broad.mit.edu	37	chr3	47719791	47719791	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaatcataaaatttcgatAtgccaagtatctaaaaagca	18	11	5	7	1	3	0	2	0	1	0	4	1	3	0	1	0	2	2	1	0	9	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47719791A>G	uc003crq.2	-	16	1586	c.1468T>C	c.(1468-1470)TAT>CAT	p.Y490H	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Missense_Mutation_p.Y381H	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	490	SWIRM.				chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		AAATTTCGATATGCCAAGTAT	0.373													4	79					0	0	1	0	0		G	47719791	G	G	47719791	3	3	27	1	0	0	0	0	1	0	0	0	14800	449	16	3	1901	3	SMARCC1	3	47719791	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	101056	47719791	150302639	1649	24000											
SMARCC1	6599	broad.mit.edu	37	chr3	47727576	47727576	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgcataactaggaataaTaatgtgattggtctgctctg	12	14	10	5	0	2	2	0	2	2	0	2	3	2	3	0	2	3	2	0	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47727576T>C	uc003crq.2	-	14	1466	c.1348A>G	c.(1348-1350)ATT>GTT	p.I450V	SMARCC1_uc011bbd.1_Missense_Mutation_p.I341V	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	450	SWIRM.				chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		CTAGGAATAATAATGTGATTG	0.413													3	80					0	0	1	0	0		C	47727576	C	C	47727576	3	2	27	1	0	0	0	0	1	0	0	0	14800	1406	49	3	2029	3	SMARCC1	3	47727576	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7785	47727576	150294854	1650	24001											
SMARCC1	6599	broad.mit.edu	37	chr3	47787474	47787474	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccagctttgaaatccatgaAacactttgcctaaaaatgat	15	12	5	9	0	0	3	0	3	0	0	2	3	2	3	3	0	3	1	3	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47787474A>G	uc003crq.2	-	3	443	c.325T>C	c.(325-327)TTC>CTC	p.F109L	SMARCC1_uc011bbd.1_5'UTR	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	109					chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		AAATCCATGAAACACTTTGCC	0.308													19	159					0	0	1	0	0		G	47787474	G	G	47787474	3	3	27	1	0	0	0	0	1	0	0	0	14800	14	1	3	3096	3	SMARCC1	3	47787474	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	59898	47787474	150234956	1651	24002											
DHX30	22907	broad.mit.edu	37	chr3	47889772	47889772	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgcctaccacttgttccctCgaagccggctggagaaaatg	9	10	10	12	2	0	1	0	0	0	1	2	3	1	1	4	2	3	2	4	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47889772C>T	uc003cru.2	+	15	2815	c.2389C>T	c.(2389-2391)CGA>TGA	p.R797*	DHX30_uc003crt.2_Nonsense_Mutation_p.R758*|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	797	Helicase C-terminal.					mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		CTTGTTCCCTCGAAGCCGGCT	0.488													6	61					0	0	1	0	0		T	47889772	T	T	47889772	4	4	27	1	0	0	0	0	0	1	0	0	4510	876	31	1	2450	1	DHX30	3	47889772	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	102298	47889772	150132658	1652	24003											
DHX30	22907	broad.mit.edu	37	chr3	47890735	47890735	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggccttcctggtggggaagCcctcggactgcaccctggcc	5	7	14	15	1	0	0	0	0	0	0	2	2	1	2	5	6	2	1	5	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:47890735C>A	uc003cru.2	+	19	3409	c.2983C>A	c.(2983-2985)CCC>ACC	p.P995T	DHX30_uc003crt.2_Missense_Mutation_p.P956T|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	995						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		GGTGGGGAAGCCCTCGGACTG	0.597													10	89					1.58986e-06	1.72494e-06	1	1	0		A	47890735	A	A	47890735	3	1	27	1	0	0	0	0	1	0	0	0	4510	739	26	5	3060	5	DHX30	3	47890735	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	963	47890735	150131695	1653	24004											
CDC25A	993	broad.mit.edu	37	chr3	48200451	48200451	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcagagcttcttcagaCgactgtacatctccctcttg	7	12	7	15	1	5	2	2	0	3	2	6	3	5	2	2	0	2	2	2	0	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:48200451C>T	uc003csh.1	-	15	1923	c.1559G>A	c.(1558-1560)CGT>CAT	p.R520H	CDC25A_uc003csi.1_Missense_Mutation_p.R480H	NM_001789	NP_001780	P30304	MPIP1_HUMAN	cell division cycle 25A isoform a	520				R->L: Abrogates binding to CCNB1; when associated with L-514.	cell cycle checkpoint|cell division|cell proliferation|cellular response to UV|DNA replication|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle	cytosol|nucleoplasm	protein binding|protein tyrosine phosphatase activity			lung(3)|kidney(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000685)|KIRC - Kidney renal clear cell carcinoma(197;0.00596)|Kidney(197;0.00684)		CTTCTTCAGACGACTGTACAT	0.572													22	103					0	0	1	0	0		T	48200451	T	T	48200451	3	4	27	1	0	0	0	0	1	0	0	0	3065	536	19	1	19	1	CDC25A	3	48200451	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	309716	48200451	149821979	1654	24005											
CDC25A	993	broad.mit.edu	37	chr3	48205845	48205845	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagtgaaacacaacaatgAcacgcttgccatcagtaggt	14	7	9	11	2	1	2	1	2	0	0	1	2	1	2	1	1	3	3	1	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:48205845A>G	uc003csh.1	-	13	1638	c.1274T>C	c.(1273-1275)GTC>GCC	p.V425A	CDC25A_uc003csi.1_Missense_Mutation_p.V385A	NM_001789	NP_001780	P30304	MPIP1_HUMAN	cell division cycle 25A isoform a	425	Rhodanese.				cell cycle checkpoint|cell division|cell proliferation|cellular response to UV|DNA replication|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle	cytosol|nucleoplasm	protein binding|protein tyrosine phosphatase activity			lung(3)|kidney(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000685)|KIRC - Kidney renal clear cell carcinoma(197;0.00596)|Kidney(197;0.00684)		CACAACAATGACACGCTTGCC	0.493													6	68					0	0	1	0	0		G	48205845	G	G	48205845	3	3	27	1	0	0	0	0	1	0	0	0	3065	275	10	3	312	3	CDC25A	3	48205845	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5394	48205845	149816585	1655	24006											
CAMP	820	broad.mit.edu	37	chr3	48266137	48266137	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgaccctcaaccaggccagGggctcctttgacatcagttg	8	9	11	13	0	2	2	2	2	0	0	3	2	3	2	4	3	1	2	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:48266137G>T	uc003csj.1	+	3	494	c.354G>T	c.(352-354)AGG>AGT	p.R118S		NM_004345	NP_004336	P49913	CAMP_HUMAN	cathelicidin antimicrobial peptide	118					killing by host of symbiont cells|negative regulation of growth of symbiont on or near host surface	extracellular region				upper_aerodigestive_tract(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000614)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		ACCAGGCCAGGGGCTCCTTTG	0.537													9	109					4.3838e-07	4.77687e-07	1	1	0		T	48266137	T	T	48266137	3	4	27	1	0	0	0	0	1	0	0	0	2613	1223	43	5	364	5	CAMP	3	48266137	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	60292	48266137	149756293	1656	24007											
NME6	10201	broad.mit.edu	37	chr3	48336637	48336637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatctggggccacatggcGtgctcggaacactctggtgg	8	8	15	10	2	2	1	0	0	2	1	3	2	2	2	1	6	2	1	1	6	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:48336637G>A	uc003csp.3	-	5	373	c.322C>T	c.(322-324)CGC>TGC	p.R108C	NME6_uc003cso.2_Missense_Mutation_p.R116C|NME6_uc011bbh.1_Silent_p.H94H|NME6_uc010hju.2_Missense_Mutation_p.R10C|NME6_uc011bbi.1_Intron	NM_005793	NP_005784	O75414	NDK6_HUMAN	nucleoside diphosphate kinase type 6	108					anti-apoptosis|apoptosis|CTP biosynthetic process|GTP biosynthetic process|negative regulation of cell growth|negative regulation of mitosis|UTP biosynthetic process	mitochondrion	ATP binding|metal ion binding|nucleoside diphosphate kinase activity				0				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00609)		GCCACATGGCGTGCTCGGAAC	0.587													10	66					0	0	1	0	0		A	48336637	A	A	48336637	3	1	27	1	0	0	0	0	1	0	0	0	10514	1145	40	1	246	1	NME6	3	48336637	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	70500	48336637	149685793	1657	24008											
PLXNB1	5364	broad.mit.edu	37	chr3	48456404	48456404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcctgggagggcaggtgtgCggcacgtgatgagctgggag	6	6	22	7	2	0	2	0	2	0	0	0	4	0	4	1	6	2	3	1	6	0	0	rs149435305	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:48456404C>T	uc003csw.2	-	21	4283	c.4013G>A	c.(4012-4014)CGC>CAC	p.R1338H	PLXNB1_uc003cst.2_5'Flank|PLXNB1_uc003csu.2_Missense_Mutation_p.R1155H|PLXNB1_uc003csx.2_Missense_Mutation_p.R1338H|PLXNB1_uc010hjx.1_RNA|PLXNB1_uc003csy.1_Missense_Mutation_p.R46H	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1338	Extracellular (Potential).|IPT/TIG 3.				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GGCAGGTGTGCGGCACGTGAT	0.582													14	80					0	0	1	0	0		T	48456404	T	T	48456404	3	4	27	1	0	0	0	0	1	0	0	0	12142	768	27	1	2466	1	PLXNB1	3	48456404	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	119767	48456404	149566026	1658	24009											
COL7A1	1294	broad.mit.edu	37	chr3	48615911	48615911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atccagggggaccagaggggCcagggaggccctgttctcca	8	5	16	12	0	1	1	0	0	1	1	3	3	2	3	5	6	0	1	5	6	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:48615911C>T	uc003ctz.2	-	63	5463	c.5462G>A	c.(5461-5463)GGC>GAC	p.G1821D		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1821	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		ACCAGAGGGGCCAGGGAGGCC	0.562													13	110					0	0	1	0	0		T	48615911	T	T	48615911	3	4	27	1	0	0	0	0	1	0	0	0	3707	739	26	2	3596	2	COL7A1	3	48615911	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	159507	48615911	149406519	1659	24010											
TMEM89	440955	broad.mit.edu	37	chr3	48658279	48658279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaggcacatgttcggtcacCcactctgggtggaagtcccc	8	8	12	13	1	2	1	1	0	1	1	4	2	3	2	3	4	0	2	3	4	1	1	rs150843832		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:48658279C>T	uc011bbo.1	-	2	476	c.476G>A	c.(475-477)GGG>GAG	p.G159E		NM_001008269	NP_001008270	A2RUT3	TMM89_HUMAN	transmembrane protein 89 precursor	159	Cytoplasmic (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(193;0.000286)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		GTTCGGTCACCCACTCTGGGT	0.572													9	134					0	0	1	0	0		T	48658279	T	T	48658279	3	4	27	1	0	0	0	0	1	0	0	0	16238	623	22	4	6	4	TMEM89	3	48658279	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	42368	48658279	149364151	1660	24011											
CELSR3	1951	broad.mit.edu	37	chr3	48697789	48697789	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcagtcgtaggtggtacTccttcattgtgaactcaggc	8	13	10	10	1	3	1	3	1	0	0	5	1	4	1	1	3	2	2	1	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:48697789T>A	uc003cul.2	-	1	2560	c.2279A>T	c.(2278-2280)GAG>GTG	p.E760V	CELSR3_uc003cuf.1_Missense_Mutation_p.E830V	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	760	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TAGGTGGTACTCCTTCATTGT	0.567													6	61					0	0	1	0	0		A	48697789	A	A	48697789	3	1	27	1	0	0	0	0	1	0	0	0	3226	1551	54	5	7799	5	CELSR3	3	48697789	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	39510	48697789	149324641	1661	24012											
NCKIPSD	51517	broad.mit.edu	37	chr3	48717233	48717233	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccctccatcctgcacataCcatttggtaataggccacca	10	10	5	16	0	0	0	0	0	0	0	3	0	3	0	7	2	2	2	7	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:48717233C>T	uc003cun.2	-	7	1444	c.1350_splice	c.e7+1	p.M450_splice	NCKIPSD_uc003cum.2_Splice_Site_p.M443_splice	NM_016453	NP_057537	Q9NZQ3	SPN90_HUMAN	NCK interacting protein with SH3 domain isoform						cytoskeleton organization|NLS-bearing substrate import into nucleus|signal transduction	intermediate filament|nucleus	cytoskeletal protein binding|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CCTGCACATACCATTTGGTAA	0.527													8	89					0	0	1	0	0		T	48717233	T	T	48717233	5	4	27	1	0	0	0	0	0	0	1	0	10244	521	18	4	845	4	NCKIPSD	3	48717233	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	19444	48717233	149305197	1662	24013											
IP6K2	51447	broad.mit.edu	37	chr3	48725794	48725794	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatcctggccctcatgcAccacggtgtcctcgccatac	7	8	8	18	2	1	0	1	0	0	0	4	0	3	0	5	2	3	2	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:48725794A>G	uc003cup.2	-	6	1437	c.1193T>C	c.(1192-1194)GTG>GCG	p.V398A	NCKIPSD_uc003cum.2_5'Flank|NCKIPSD_uc003cun.2_5'Flank|NCKIPSD_uc010hkh.1_5'Flank|IP6K2_uc003cuq.2_Missense_Mutation_p.V398A	NM_001005909	NP_001005909	Q9UHH9	IP6K2_HUMAN	inositol hexaphosphate kinase 2 isoform a	398					negative regulation of cell growth|phosphatidylinositol phosphorylation|positive regulation of apoptosis|type I interferon-mediated signaling pathway	intermediate filament cytoskeleton|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						GCCCTCATGCACCACGGTGTC	0.562													4	76					0	0	1	0	0		G	48725794	G	G	48725794	3	3	27	1	0	0	0	0	1	0	0	0	7805	159	6	3	91	3	IP6K2	3	48725794	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8561	48725794	149296636	1663	24014											
ARIH2	10425	broad.mit.edu	37	chr3	48965110	48965110	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacatagaggactattacgTgggagtagccagcgatgtgg	11	8	16	6	2	0	1	0	0	0	1	0	5	0	4	1	4	3	1	1	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:48965110T>C	uc003cvb.2	+	3	431	c.119T>C	c.(118-120)GTG>GCG	p.V40A	ARIH2_uc003cvc.2_Missense_Mutation_p.V40A|ARIH2_uc003cvf.2_5'UTR|ARIH2_uc010hkl.2_Missense_Mutation_p.V40A|ARIH2_uc003cvd.1_Missense_Mutation_p.V40A|ARIH2_uc003cve.1_Missense_Mutation_p.V40A	NM_006321	NP_006312	O95376	ARI2_HUMAN	ariadne homolog 2	40	Asp/Glu-rich (acidic).				developmental cell growth|hemopoietic stem cell proliferation|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.42e-05)|Kidney(197;0.00258)|KIRC - Kidney renal clear cell carcinoma(197;0.00269)		GACTATTACGTGGGAGTAGCC	0.478													3	41					0	0	1	0	0		C	48965110	C	C	48965110	3	2	27	1	0	0	0	0	1	0	0	0	924	1696	59	3	121	3	ARIH2	3	48965110	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	239316	48965110	149057320	1664	24015											
ARIH2	10425	broad.mit.edu	37	chr3	49017838	49017838	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcacagacataccagcggaTtcacgagaagattcaggaga	15	5	12	9	2	2	4	2	0	0	4	2	7	2	5	1	3	2	1	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49017838T>A	uc003cvb.2	+	13	1478	c.1166T>A	c.(1165-1167)ATT>AAT	p.I389N	ARIH2_uc003cvc.2_Missense_Mutation_p.I389N|ARIH2_uc003cvf.2_Missense_Mutation_p.I307N|ARIH2_uc010hkl.2_Intron	NM_006321	NP_006312	O95376	ARI2_HUMAN	ariadne homolog 2	389	Potential.				developmental cell growth|hemopoietic stem cell proliferation|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.42e-05)|Kidney(197;0.00258)|KIRC - Kidney renal clear cell carcinoma(197;0.00269)		TACCAGCGGATTCACGAGAAG	0.498													6	77					0	0	1	0	0		A	49017838	A	A	49017838	3	1	27	1	0	0	0	0	1	0	0	0	924	1493	52	5	1208	5	ARIH2	3	49017838	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	52728	49017838	149004592	1665	24016											
WDR6	11180	broad.mit.edu	37	chr3	49049542	49049542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtctggtacccagcaactgCcttagcagacaacaaacctg	12	7	9	13	0	1	1	0	0	1	1	1	1	1	1	3	2	7	3	3	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49049542C>T	uc003cvj.2	+	2	803	c.665C>T	c.(664-666)GCC>GTC	p.A222V	WDR6_uc011bbx.1_Missense_Mutation_p.A93V|WDR6_uc011bby.1_Intron|WDR6_uc010hkn.2_Missense_Mutation_p.A166V|WDR6_uc011bbz.1_Missense_Mutation_p.A141V	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	192	WD 2.				cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		CCAGCAACTGCCTTAGCAGAC	0.542													13	62					0	0	1	0	0		T	49049542	T	T	49049542	3	4	27	1	0	0	0	0	1	0	0	0	17336	739	26	2	671	2	WDR6	3	49049542	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31704	49049542	148972888	1666	24017											
IMPDH2	3615	broad.mit.edu	37	chr3	49062235	49062235	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttgattttgtcagcttcActgcagggagaggcagagac	10	11	12	8	0	2	3	2	1	0	2	2	5	2	3	0	2	2	3	0	2	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49062235A>G	uc003cvt.2	-	12	1388	c.1296T>C	c.(1294-1296)AGT>AGC	p.S432S		NM_000884	NP_000875	P12268	IMDH2_HUMAN	inosine monophosphate dehydrogenase 2	432					GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	IMP dehydrogenase activity|metal ion binding|nucleotide binding|protein binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)	TGTCAGCTTCACTGCAGGGAG	0.532													6	121					0	0	1	0	0		G	49062235	G	G	49062235	2	3	27	1	0	0	0	0	0	0	0	1	7743	173	6	3		3	IMPDH2	3	49062235	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	12693	49062235	148960195	1667	24018											
USP19	10869	broad.mit.edu	37	chr3	49148577	49148577	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccaggctacagtcgtcAcccagctccagtggggtgtc	8	7	13	13	1	1	1	1	0	0	1	4	1	2	1	3	3	3	2	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49148577A>G	uc003cwd.1	-	22	3203	c.3042T>C	c.(3040-3042)GGT>GGC	p.G1014G	USP19_uc003cwa.2_Silent_p.G822G|USP19_uc003cvz.3_Silent_p.G1117G|USP19_uc011bcg.1_Silent_p.G1105G|USP19_uc003cwb.2_Intron|USP19_uc003cwc.1_Silent_p.G772G|USP19_uc011bch.1_Silent_p.G1115G	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	1014	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TACAGTCGTCACCCAGCTCCA	0.597													10	85					0	0	1	0	0		G	49148577	G	G	49148577	2	3	27	1	0	0	0	0	0	0	0	1	17076	146	6	3		3	USP19	3	49148577	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	86342	49148577	148873853	1668	24019											
USP19	10869	broad.mit.edu	37	chr3	49148735	49148735	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgaatcaattttatagAtgaagaactggggtgtgtgg	12	13	14	2	0	1	4	1	2	0	2	1	5	1	5	0	4	1	0	0	4	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49148735A>C	uc003cwd.1	-	21	3133	c.2972T>G	c.(2971-2973)ATC>AGC	p.I991S	USP19_uc003cwa.2_Missense_Mutation_p.I799S|USP19_uc003cvz.3_Missense_Mutation_p.I1094S|USP19_uc011bcg.1_Missense_Mutation_p.I1082S|USP19_uc003cwb.2_Intron|USP19_uc003cwc.1_Missense_Mutation_p.I749S|USP19_uc011bch.1_Missense_Mutation_p.I1092S	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	991	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		AATTTTATAGATGAAGAACTG	0.527													10	87					0	0	1	0	0		C	49148735	C	C	49148735	3	2	27	1	0	0	0	0	1	0	0	0	17076	333	12	5	1008	5	USP19	3	49148735	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	158	49148735	148873695	1669	24020											
LAMB2	3913	broad.mit.edu	37	chr3	49159770	49159770	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctagcacccgtgtggccAccatttcaatgctatcagga	9	10	9	13	1	3	0	2	0	1	0	3	1	3	1	3	2	2	3	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49159770A>G	uc003cwe.2	-	28	4906	c.4607T>C	c.(4606-4608)GTG>GCG	p.V1536A	USP19_uc003cvz.3_5'Flank|USP19_uc011bcg.1_5'Flank|USP19_uc003cwb.2_5'Flank|USP19_uc003cwd.1_5'Flank|USP19_uc011bch.1_5'Flank|USP19_uc011bci.1_5'Flank	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1536	Domain I.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CCGTGTGGCCACCATTTCAAT	0.547													6	67					0	0	1	0	0		G	49159770	G	G	49159770	3	3	27	1	0	0	0	0	1	0	0	0	8627	159	6	3	809	3	LAMB2	3	49159770	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11035	49159770	148862660	1670	24021											
LAMB2	3913	broad.mit.edu	37	chr3	49163223	49163223	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatagtagccaggggcacaGaggtcacagcggcgcccaac	11	3	13	14	2	1	1	1	0	0	1	1	1	1	1	3	4	3	2	3	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49163223G>T	uc003cwe.2	-	18	2744	c.2445C>A	c.(2443-2445)CTC>CTA	p.L815L	LAMB2_uc003cwf.1_Silent_p.L815L	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	815	Laminin EGF-like 6.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CAGGGGCACAGAGGTCACAGC	0.562													4	47					0.00909568	0.0093211	1	1	0		T	49163223	T	T	49163223	2	4	27	1	0	0	0	0	0	0	0	1	8627	929	33	5		5	LAMB2	3	49163223	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3453	49163223	148859207	1671	24022											
CCDC71	64925	broad.mit.edu	37	chr3	49201174	49201174	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggaagcccactgctgcAccccgggcatggctggcact	6	6	15	14	1	0	0	0	0	0	0	0	1	0	1	3	5	3	5	3	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49201174A>G	uc003cwg.3	-	2	606	c.468T>C	c.(466-468)GGT>GGC	p.G156G		NM_022903	NP_075054	Q8IV32	CCD71_HUMAN	coiled-coil domain containing 71	156										ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CCACTGCTGCACCCCGGGCAT	0.592													7	32					0	0	1	0	0		G	49201174	G	G	49201174	2	3	27	1	0	0	0	0	0	0	0	1	2847	146	6	3		3	CCDC71	3	49201174	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37951	49201174	148821256	1672	24023											
CCDC36	339834	broad.mit.edu	37	chr3	49293631	49293631	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagttttagttgctcagcAgagtcaggaattccagcagc	11	11	11	8	0	2	2	2	1	0	1	3	3	3	3	1	1	4	5	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49293631A>C	uc003cwk.2	+	10	1088	c.701A>C	c.(700-702)CAG>CCG	p.Q234P	CCDC36_uc011bck.1_Missense_Mutation_p.Q234P	NM_178173	NP_835467	Q8IYA8	CCD36_HUMAN	coiled-coil domain containing 36	234	Potential.									ovary(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(193;9.11e-05)|Kidney(197;0.00248)|KIRC - Kidney renal clear cell carcinoma(197;0.00262)		GTTGCTCAGCAGAGTCAGGAA	0.493													18	128					0	0	1	0	0		C	49293631	C	C	49293631	3	2	27	1	0	0	0	0	1	0	0	0	2811	188	7	5	727	5	CCDC36	3	49293631	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	92457	49293631	148728799	1673	24024											
USP4	7375	broad.mit.edu	37	chr3	49331880	49331880	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtacaaagactcaagggTtaacttgtgcttggggacag	11	10	13	7	0	1	1	1	0	0	1	1	2	1	2	0	4	3	3	0	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49331880T>G	uc003cwq.2	-	14	1922	c.1843A>C	c.(1843-1845)ACC>CCC	p.T615P	USP4_uc003cwo.2_Missense_Mutation_p.T327P|USP4_uc003cwp.2_Missense_Mutation_p.T345P|USP4_uc003cwr.2_Missense_Mutation_p.T568P	NM_003363	NP_003354	Q13107	UBP4_HUMAN	ubiquitin specific protease 4 isoform a	615					negative regulation of protein ubiquitination|protein deubiquitination|protein localization at cell surface|regulation of protein stability|ubiquitin-dependent protein catabolic process	lysosome|nucleus	adenosine receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|urinary_tract(1)|lung(1)	4		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)		GACTCAAGGGTTAACTTGTGC	0.468													5	108					0	0	1	0	0		G	49331880	G	G	49331880	3	3	27	1	0	0	0	0	1	0	0	0	17097	1725	60	5	1084	5	USP4	3	49331880	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	38249	49331880	148690550	1674	24025											
BSN	8927	broad.mit.edu	37	chr3	49689428	49689428	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagccaattgaggcacgaCtatgtggaggacagcagtga	12	6	15	8	1	0	2	0	2	0	0	0	5	0	4	1	4	2	3	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49689428C>T	uc003cxe.3	+	5	2553	c.2439C>T	c.(2437-2439)GAC>GAT	p.D813D		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	813					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		TGAGGCACGACTATGTGGAGG	0.612													4	35					0	0	1	0	0		T	49689428	T	T	49689428	2	4	27	1	0	0	0	0	0	0	0	1	1533	564	20	4		4	BSN	3	49689428	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	357548	49689428	148333002	1675	24026											
BSN	8927	broad.mit.edu	37	chr3	49693164	49693164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctcacccgcttcccatgCggcgctatagctcagtgtcg	5	10	11	15	4	2	0	2	0	0	0	4	0	3	0	2	2	2	4	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49693164C>T	uc003cxe.3	+	5	6289	c.6175C>T	c.(6175-6177)CGG>TGG	p.R2059W		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2059					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		GCTTCCCATGCGGCGCTATAG	0.607													7	89					0	0	1	0	0		T	49693164	T	T	49693164	3	4	27	1	0	0	0	0	1	0	0	0	1533	759	27	1	6193	1	BSN	3	49693164	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3736	49693164	148329266	1676	24027											
BSN	8927	broad.mit.edu	37	chr3	49693315	49693315	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgccctcaactccatggAccagtatggtgggcggcatg	7	8	13	13	2	1	0	1	0	0	0	2	1	2	1	3	4	2	3	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49693315A>T	uc003cxe.3	+	5	6440	c.6326A>T	c.(6325-6327)GAC>GTC	p.D2109V		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2109					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		AACTCCATGGACCAGTATGGT	0.642													5	75					0	0	1	0	0		T	49693315	T	T	49693315	3	4	27	1	0	0	0	0	1	0	0	0	1533	275	10	5	6344	5	BSN	3	49693315	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	151	49693315	148329115	1677	24028											
BSN	8927	broad.mit.edu	37	chr3	49698225	49698225	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaagtacctggagttgggtAtcacacaacgcaaagagtct	13	9	10	9	1	3	1	2	0	1	1	3	2	3	2	1	2	2	4	1	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49698225A>T	uc003cxe.3	+	6	9061	c.8947A>T	c.(8947-8949)ATC>TTC	p.I2983F		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2983					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		GGAGTTGGGTATCACACAACG	0.562													5	34					0	0	1	0	0		T	49698225	T	T	49698225	3	4	27	1	0	0	0	0	1	0	0	0	1533	449	16	5	8969	5	BSN	3	49698225	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4910	49698225	148324205	1678	24029											
MST1	4485	broad.mit.edu	37	chr3	49721785	49721785	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaacagtccctcagtgcAcatctcactctcccgcacac	9	7	6	19	1	3	0	2	0	2	0	6	0	4	0	3	1	2	2	3	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49721785A>G	uc003cxg.2	-	17	2050	c.1978T>C	c.(1978-1980)TGC>CGC	p.C660R		NM_020998	NP_066278	P26927	HGFL_HUMAN	macrophage stimulating 1 (hepatocyte growth	646	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CCCTCAGTGCACATCTCACTC	0.562													13	72					0	0	1	0	0		G	49721785	G	G	49721785	3	3	27	1	0	0	0	0	1	0	0	0	9908	159	6	3	207	3	MST1	3	49721785	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	23560	49721785	148300645	1679	24030											
RNF123	63891	broad.mit.edu	37	chr3	49737706	49737706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctcatgagcttcttgctggGcatcgtggagaagggcacac	8	9	14	10	1	2	2	1	1	1	1	3	3	2	2	0	3	2	5	0	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49737706G>A	uc003cxh.2	+	13	1117	c.1031G>A	c.(1030-1032)GGC>GAC	p.G344D	RNF123_uc010hky.1_Missense_Mutation_p.G6D|RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	344						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		TTCTTGCTGGGCATCGTGGAG	0.612													3	34					0	0	1	0	0		A	49737706	A	A	49737706	3	1	27	1	0	0	0	0	1	0	0	0	13458	1203	42	2	1077	2	RNF123	3	49737706	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15921	49737706	148284724	1680	24031											
RNF123	63891	broad.mit.edu	37	chr3	49737739	49737739	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacacccacacaggcacAgtccgtggtgcaccaggtcc	9	4	12	16	1	0	0	0	0	0	0	2	0	2	0	4	4	1	3	4	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49737739A>C	uc003cxh.2	+	13	1150	c.1064A>C	c.(1063-1065)CAG>CCG	p.Q355P	RNF123_uc010hky.1_Missense_Mutation_p.Q17P|RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	355						cytoplasm	ligase activity|protein binding|zinc ion binding	p.Q355fs*60(1)		kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		ACACAGGCACAGTCCGTGGTG	0.617													4	39					0	0	1	0	0		C	49737739	C	C	49737739	3	2	27	1	0	0	0	0	1	0	0	0	13458	188	7	5	1110	5	RNF123	3	49737739	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	33	49737739	148284691	1681	24032											
RNF123	63891	broad.mit.edu	37	chr3	49740860	49740860	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcctcaattcctcgcagAggcctacatcccgccccagg	7	7	8	19	2	1	1	1	0	0	1	5	1	4	1	7	2	1	1	7	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49740860A>G	uc003cxh.2	+	21	1837	c.1751A>G	c.(1750-1752)GAG>GGG	p.E584G	RNF123_uc010hky.1_Missense_Mutation_p.E246G|RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	584						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		TTCCTCGCAGAGGCCTACATC	0.612											OREG0015571	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	21					0	0	1	0	0		G	49740860	G	G	49740860	3	3	27	1	0	0	0	0	1	0	0	0	13458	318	11	3	1829	3	RNF123	3	49740860	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3121	49740860	148281570	1682	24033											
RNF123	63891	broad.mit.edu	37	chr3	49750027	49750027	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctacctgagcgtggccaTcaacagctacagtgctctca	9	10	9	13	1	3	1	2	1	2	0	4	1	3	1	2	1	6	3	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49750027T>A	uc003cxh.2	+	27	2698	c.2612T>A	c.(2611-2613)ATC>AAC	p.I871N	RNF123_uc010hky.1_Missense_Mutation_p.I533N|RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	871						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		AGCGTGGCCATCAACAGCTAC	0.557													4	64					0	0	1	0	0		A	49750027	A	A	49750027	3	1	27	1	0	0	0	0	1	0	0	0	13458	1435	50	5	2714	5	RNF123	3	49750027	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9167	49750027	148272403	1683	24034											
AMIGO3	386724	broad.mit.edu	37	chr3	49755433	49755433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggagctggcggactcagagCcagccttcagctgcaggcct	7	7	14	13	1	2	1	2	0	0	1	2	3	2	3	3	4	5	3	3	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49755433C>T	uc003cxj.2	-	1	1806	c.1466G>A	c.(1465-1467)GGC>GAC	p.G489D	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	489	Cytoplasmic (Potential).				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GGACTCAGAGCCAGCCTTCAG	0.652													5	42					0	0	1	0	0		T	49755433	T	T	49755433	3	4	27	1	0	0	0	0	1	0	0	0	577	739	26	2	52	2	AMIGO3	3	49755433	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5406	49755433	148266997	1684	24035											
AMIGO3	386724	broad.mit.edu	37	chr3	49755718	49755718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agagcagcacgagcacaaggCccacggcacagcccagcagt	13	1	12	15	2	0	1	0	0	0	1	0	2	0	1	2	2	5	5	2	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49755718C>T	uc003cxj.2	-	1	1521	c.1181G>A	c.(1180-1182)GGC>GAC	p.G394D	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	394	Helical; (Potential).				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GAGCACAAGGCCCACGGCACA	0.512													6	41					0	0	1	0	0		T	49755718	T	T	49755718	3	4	27	1	0	0	0	0	1	0	0	0	577	739	26	2	337	2	AMIGO3	3	49755718	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	285	49755718	148266712	1685	24036											
AMIGO3	386724	broad.mit.edu	37	chr3	49756426	49756426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtagagatggctgagcGcgcgcaggccgtggaaggca	9	4	18	10	4	0	2	0	1	0	1	0	4	0	3	2	5	1	4	2	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49756426G>A	uc003cxj.2	-	1	813	c.473C>T	c.(472-474)GCG>GTG	p.A158V	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	158	Extracellular (Potential).|LRR 5.				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		ATGGCTGAGCGCGCGCAGGCC	0.642											OREG0015572	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	106					0	0	1	0	0		A	49756426	A	A	49756426	3	1	27	1	0	0	0	0	1	0	0	0	577	1087	38	1	1045	1	AMIGO3	3	49756426	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	708	49756426	148266004	1686	24037											
AMIGO3	386724	broad.mit.edu	37	chr3	49756752	49756752	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcacgtcctgcagccctagGccagtgcagcttagcaggtc	7	7	13	14	1	0	0	0	0	0	0	2	0	1	0	3	3	5	5	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:49756752G>C	uc003cxj.2	-	1	487	c.147C>G	c.(145-147)GGC>GGG	p.G49G	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	49	Extracellular (Potential).|LRRNT.				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GCAGCCCTAGGCCAGTGCAGC	0.672											OREG0015572	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	74					0	0	1	0	0		C	49756752	C	C	49756752	2	2	27	1	0	0	0	0	0	0	0	1	577	1190	42	5		5	AMIGO3	3	49756752	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	326	49756752	148265678	1687	24038											
RBM6	10180	broad.mit.edu	37	chr3	50098595	50098595	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaaaaatatttccgagataGgaggggaggtggcagaaatt	16	9	13	3	1	0	2	0	0	0	2	1	5	1	4	1	5	0	1	1	5	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:50098595G>T	uc003cyc.2	+	13	2427	c.2294G>T	c.(2293-2295)AGG>ATG	p.R765M	RBM6_uc010hlc.1_Missense_Mutation_p.R284M|RBM6_uc003cyd.2_Missense_Mutation_p.R243M|RBM6_uc003cye.2_Missense_Mutation_p.R243M|RBM6_uc011bdi.1_Missense_Mutation_p.R107M|RBM6_uc010hld.1_RNA|RBM6_uc010hle.1_RNA|RBM6_uc010hlf.1_RNA	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	765					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		TTCCGAGATAGGAGGGGAGGT	0.368													6	37					5.9392e-07	6.46363e-07	1	1	0		T	50098595	T	T	50098595	3	4	27	1	0	0	0	0	1	0	0	0	13169	1000	35	5	2340	5	RBM6	3	50098595	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	341843	50098595	147923835	1688	24039											
SEMA3F	6405	broad.mit.edu	37	chr3	50220395	50220395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcacattcctgaaggcgcGgctcgtctgctctgtcccgg	5	9	13	14	4	2	1	0	1	2	0	5	2	4	1	2	3	2	3	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:50220395G>A	uc003cyj.2	+	10	1160	c.962G>A	c.(961-963)CGG>CAG	p.R321Q	SEMA3F_uc003cyk.2_Missense_Mutation_p.R290Q	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	321	Sema.				axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		CTGAAGGCGCGGCTCGTCTGC	0.607													7	27					0	0	1	0	0		A	50220395	A	A	50220395	3	1	27	1	0	0	0	0	1	0	0	0	14054	1116	39	1	996	1	SEMA3F	3	50220395	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	121800	50220395	147802035	1689	24040											
ZMYND10	51364	broad.mit.edu	37	chr3	50380781	50380781	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atccctccccctcaggggggCcaccacagccactctgggcc	6	5	10	20	0	2	0	1	0	1	0	4	0	4	0	7	4	1	0	7	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:50380781C>G	uc003dag.1	-	5	613	c.467G>C	c.(466-468)GGC>GCC	p.G156A	RASSF1_uc003dad.1_5'Flank|RASSF1_uc003dae.1_5'Flank|RASSF1_uc010hlk.1_5'Flank|RASSF1_uc003daf.1_5'Flank|RASSF1_uc011bdq.1_5'Flank|ZMYND10_uc010hll.1_Missense_Mutation_p.G156A|ZMYND10_uc003dah.1_Missense_Mutation_p.G77A|ZMYND10_uc010hlm.1_Missense_Mutation_p.G113A	NM_015896	NP_056980	O75800	ZMY10_HUMAN	zinc finger, MYND domain-containing 10	156						cytoplasm	protein binding|zinc ion binding			lung(4)|ovary(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CTCAGGGGGGCCACCACAGCC	0.602										TSP Lung(30;0.18)			5	66					0	0	1	0	0		G	50380781	G	G	50380781	3	3	27	1	0	0	0	0	1	0	0	0	17730	739	26	5	887	5	ZMYND10	3	50380781	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	160386	50380781	147641649	1690	24041											
NPRL2	10641	broad.mit.edu	37	chr3	50385278	50385278	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgagtcacccgcacaggAtacttctgtagtcgcctgat	8	10	9	14	3	2	1	1	1	1	0	4	3	3	2	3	1	1	2	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:50385278A>T	uc003daj.1	-	10	1390	c.987T>A	c.(985-987)TAT>TAA	p.Y329*	ZMYND10_uc003dag.1_5'Flank|ZMYND10_uc010hll.1_5'Flank|ZMYND10_uc003dah.1_5'Flank|ZMYND10_uc010hlm.1_5'Flank|NPRL2_uc003dai.1_Nonsense_Mutation_p.Y209*	NM_006545	NP_006536	Q8WTW4	NPRL2_HUMAN	tumor suppressor candidate 4	329					negative regulation of kinase activity		protein binding|protein kinase activity			lung(1)	1						CCCGCACAGGATACTTCTGTA	0.592													8	100					0	0	1	0	0		T	50385278	T	T	50385278	4	4	27	1	0	0	0	0	0	1	0	0	10616	340	12	5	163	5	NPRL2	3	50385278	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4497	50385278	147637152	1691	24042											
CACNA2D2	9254	broad.mit.edu	37	chr3	50413106	50413106	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccttataggcacccaggTgtagttccgtgtcacctcat	7	12	9	13	1	2	0	2	0	0	0	4	0	4	0	4	2	0	4	4	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:50413106T>C	uc003daq.2	-	21	1914	c.1876A>G	c.(1876-1878)ACC>GCC	p.T626A	CACNA2D2_uc003dap.2_Missense_Mutation_p.T626A	NM_006030	NP_006021	Q9NY47	CA2D2_HUMAN	calcium channel, voltage-dependent, alpha	626	Extracellular (Potential).				energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000365)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)	Gabapentin(DB00996)	GGCACCCAGGTGTAGTTCCGT	0.627													5	61					0	0	1	0	0		C	50413106	C	C	50413106	3	2	27	1	0	0	0	0	1	0	0	0	2552	1696	59	3	1658	3	CACNA2D2	3	50413106	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	27828	50413106	147609324	1692	24043											
CISH	1154	broad.mit.edu	37	chr3	50645243	50645243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagtgctgggtcactaggcGcatcctccttaggcataggc	7	9	13	12	1	1	0	1	0	0	0	3	0	3	0	2	4	1	4	2	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:50645243G>A	uc003dax.2	-	3	753	c.572C>T	c.(571-573)GCG>GTG	p.A191V	CISH_uc010hlq.2_Missense_Mutation_p.A208V	NM_145071	NP_659508	Q9NSE2	CISH_HUMAN	cytokine-inducible SH2-containing protein	191					intracellular signal transduction|negative regulation of signal transduction|regulation of cell growth	intracellular					0				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.0171)|Kidney(197;0.0202)		GTCACTAGGCGCATCCTCCTT	0.617													12	51					0	0	1	0	0		A	50645243	A	A	50645243	3	1	27	1	0	0	0	0	1	0	0	0	3440	1087	38	1	208	1	CISH	3	50645243	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	232137	50645243	147377187	1693	24044											
DOCK3	1795	broad.mit.edu	37	chr3	51101984	51101984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgactcaggatcaggtgcggGaggttaagcggcacatcacc	10	7	14	10	2	3	1	3	1	0	0	3	3	3	3	1	5	2	2	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:51101984G>A	uc011bds.1	+	6	444	c.421G>A	c.(421-423)GAG>AAG	p.E141K		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	141						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		TCAGGTGCGGGAGGTTAAGCG	0.453													10	109					0	0	1	0	0		A	51101984	A	A	51101984	3	1	27	1	0	0	0	0	1	0	0	0	4694	1175	41	4	443	4	DOCK3	3	51101984	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	456741	51101984	146920446	1694	24045											
DOCK3	1795	broad.mit.edu	37	chr3	51352414	51352414	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggttttgtttttcaggtgAacataagatccactttattc	9	18	8	6	0	1	2	1	1	0	1	3	2	2	2	1	2	1	2	1	2	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:51352414A>G	uc011bds.1	+	32	3280	c.3257A>G	c.(3256-3258)GAA>GGA	p.E1086G		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1086						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		TTTTCAGGTGAACATAAGATC	0.433													4	34					0	0	1	0	0		G	51352414	G	G	51352414	3	3	27	1	0	0	0	0	1	0	0	0	4694	246	9	3	3383	3	DOCK3	3	51352414	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	250430	51352414	146670016	1695	24046											
DOCK3	1795	broad.mit.edu	37	chr3	51352435	51352435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acataagatccactttattcCgggaatgattggtccttttc	10	15	7	9	1	0	2	0	1	0	1	4	3	3	3	3	2	0	0	3	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:51352435C>T	uc011bds.1	+	32	3301	c.3278C>T	c.(3277-3279)CCG>CTG	p.P1093L		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1093						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		CACTTTATTCCGGGAATGATT	0.453													6	32					0	0	1	0	0		T	51352435	T	T	51352435	3	4	27	1	0	0	0	0	1	0	0	0	4694	652	23	1	3404	1	DOCK3	3	51352435	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21	51352435	146669995	1696	24047											
DOCK3	1795	broad.mit.edu	37	chr3	51352488	51352488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcccacagccagaagtaCggaatatcatgattcccatc	12	9	8	12	1	1	2	1	1	0	1	4	3	3	3	3	2	2	1	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:51352488C>T	uc011bds.1	+	32	3354	c.3331C>T	c.(3331-3333)CGG>TGG	p.R1111W		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1111						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		GCCAGAAGTACGGAATATCAT	0.438													7	41					0	0	1	0	0		T	51352488	T	T	51352488	3	4	27	1	0	0	0	0	1	0	0	0	4694	527	19	1	3457	1	DOCK3	3	51352488	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	53	51352488	146669942	1697	24048											
DOCK3	1795	broad.mit.edu	37	chr3	51376458	51376458	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaggccgaaaactacacAggtaagtggggagaagagag	15	5	15	6	1	0	2	0	0	0	2	0	5	0	2	1	4	3	2	1	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:51376458A>G	uc011bds.1	+	37	3788	c.3765A>G	c.(3763-3765)ACA>ACG	p.T1255T		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1255	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		AAAACTACACAGGTAAGTGGG	0.438													3	17					0	0	1	0	0		G	51376458	G	G	51376458	2	3	27	1	0	0	0	0	0	0	0	1	4694	202	7	3		3	DOCK3	3	51376458	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	23970	51376458	146645972	1698	24049											
DOCK3	1795	broad.mit.edu	37	chr3	51393879	51393879	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acactgaccctgacccacagCttgcctggcatctctcggtg	7	9	9	16	1	1	2	0	2	1	0	3	2	1	2	3	2	2	2	3	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:51393879C>T	uc011bds.1	+	43	4481	c.4458C>T	c.(4456-4458)AGC>AGT	p.S1486S		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1486	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		TGACCCACAGCTTGCCTGGCA	0.552													11	110					0	0	1	0	0		T	51393879	T	T	51393879	2	4	27	1	0	0	0	0	0	0	0	1	4694	796	28	2		2	DOCK3	3	51393879	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17421	51393879	146628551	1699	24050											
RAD54L2	23132	broad.mit.edu	37	chr3	51667600	51667600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtcccttgtcagattggcgGgatccggttcctttacgata	6	14	11	10	3	1	1	1	0	0	1	4	3	4	2	3	3	1	1	3	3	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:51667600G>A	uc011bdt.1	+	7	958	c.833G>A	c.(832-834)GGG>GAG	p.G278E	RAD54L2_uc003dbh.2_5'UTR|RAD54L2_uc011bdu.1_5'UTR|RAD54L2_uc003dbj.2_5'UTR	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	278						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		CAGATTGGCGGGATCCGGTTC	0.468													5	129					0	0	1	0	0		A	51667600	A	A	51667600	3	1	27	1	0	0	0	0	1	0	0	0	13019	1232	43	4	855	4	RAD54L2	3	51667600	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	273721	51667600	146354830	1700	24051											
IQCF1	132141	broad.mit.edu	37	chr3	51936999	51936999	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaagtcagggctcctcctAcctctgcctttgactctgct	5	13	7	16	0	3	1	1	1	2	0	6	1	6	1	5	1	3	2	5	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:51936999A>G	uc003dbv.2	-	2	206	c.108_splice	c.e2+1	p.E36_splice	IQCF1_uc003dbq.3_Splice_Site	NM_152397	NP_689610	Q8N6M8	IQCF1_HUMAN	IQ motif containing F1											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GGCTCCTCCTACCTCTGCCTT	0.433													7	438					0	0	1	0	0		G	51936999	G	G	51936999	5	3	27	1	0	0	0	0	0	0	1	0	7823	405	14	3	519	3	IQCF1	3	51936999	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	269399	51936999	146085431	1701	24052											
PARP3	10039	broad.mit.edu	37	chr3	51978146	51978146	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accctgaaccagaccaacatCgagaacaacaacaacaagtt	19	4	5	13	1	0	3	0	1	0	2	1	4	0	3	3	0	6	1	3	0	7	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:51978146C>T	uc003dby.2	+	3	596	c.225C>T	c.(223-225)ATC>ATT	p.I75I	RRP9_uc003dbw.1_5'Flank|PARP3_uc003dbz.2_Silent_p.I82I	NM_005485	NP_005476	Q9Y6F1	PARP3_HUMAN	poly (ADP-ribose) polymerase family, member 3	75					DNA repair|protein ADP-ribosylation	centriole|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		AGACCAACATCGAGAACAACA	0.597													5	184					0	0	1	0	0		T	51978146	T	T	51978146	2	4	27	1	0	0	0	0	0	0	0	1	11481	874	31	1		1	PARP3	3	51978146	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	41147	51978146	146044284	1702	24053											
PCBP4	57060	broad.mit.edu	37	chr3	51992332	51992332	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcgggggccgagctgggCgtccccccagaggtagactt	5	7	16	13	3	1	2	0	0	1	2	2	3	2	2	4	4	2	2	4	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:51992332C>T	uc003dcd.1	-	12	1353	c.957G>A	c.(955-957)ACG>ACA	p.T319T	PCBP4_uc003dcb.1_Silent_p.T285T|PCBP4_uc003dcc.1_Silent_p.T340T|PCBP4_uc003dce.1_Missense_Mutation_p.A321T|PCBP4_uc003dcf.1_Silent_p.T319T|PCBP4_uc003dcg.1_Silent_p.T285T|PCBP4_uc003dch.1_Silent_p.T319T|PCBP4_uc003dci.1_Silent_p.T159T|PCBP4_uc003dcj.1_Silent_p.T319T|PCBP4_uc003dck.1_Silent_p.T276T|PCBP4_uc003dcl.1_Intron	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	319						cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CCGAGCTGGGCGTCCCCCCAG	0.657													3	20					0	0	1	0	0		T	51992332	T	T	51992332	2	4	27	1	0	0	0	0	0	0	0	1	11522	755	27	1		1	PCBP4	3	51992332	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14186	51992332	146030098	1703	24054											
POC1A	25886	broad.mit.edu	37	chr3	52183949	52183949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagtgaagcggtaggcgCgtgactgcggcttcatgtgc	6	8	17	10	4	1	2	1	2	0	0	1	2	1	2	1	4	3	2	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52183949C>T	uc003dcu.2	-	3	476	c.158G>A	c.(157-159)CGC>CAC	p.R53H	POC1A_uc003dcv.2_Missense_Mutation_p.R15H|POC1A_uc003dcw.2_Missense_Mutation_p.R53H	NM_015426	NP_056241	Q8NBT0	POC1A_HUMAN	WD repeat domain 51A isoform 1	53	WD 1.					centriole|microtubule basal body					0						GCGGTAGGCGCGTGACTGCGG	0.587													5	60					0	0	1	0	0		T	52183949	T	T	52183949	3	4	27	1	0	0	0	0	1	0	0	0	12194	768	27	1	1101	1	POC1A	3	52183949	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	191617	52183949	145838481	1704	24055											
TLR9	54106	broad.mit.edu	37	chr3	52255388	52255388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagaggcgctggcgcagccGcacgtagcgggagcggcggc	6	2	20	13	7	0	1	0	0	0	1	0	2	0	2	1	5	3	5	1	5	1	1	rs142806370		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52255388G>A	uc003dda.1	-	2	3578	c.2944C>T	c.(2944-2946)CGG>TGG	p.R982W	TLR9_uc003ddb.2_Missense_Mutation_p.R1079W	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	982	TIR.|Cytoplasmic (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	TGGCGCAGCCGCACGTAGCGG	0.716													8	50					0	0	1	0	0		A	52255388	A	A	52255388	3	1	27	1	0	0	0	0	1	0	0	0	15983	1086	38	1	158	1	TLR9	3	52255388	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	71439	52255388	145767042	1705	24056											
TLR9	54106	broad.mit.edu	37	chr3	52256541	52256541	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccagggcccgcagcgacgtActgcagagctgctgggacac	8	5	14	14	3	0	1	0	0	0	1	1	3	1	2	2	2	5	5	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52256541A>G	uc003dda.1	-	2	2425	c.1791T>C	c.(1789-1791)AGT>AGC	p.S597S	TLR9_uc003ddb.2_Silent_p.S694S	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	597	LRR 19.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	GCAGCGACGTACTGCAGAGCT	0.617													4	35					0	0	1	0	0		G	52256541	G	G	52256541	2	3	27	1	0	0	0	0	0	0	0	1	15983	388	14	3		3	TLR9	3	52256541	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1153	52256541	145765889	1706	24057											
TLR9	54106	broad.mit.edu	37	chr3	52257218	52257218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagcggaagaagatgccgtGcatgtccagctccttcaggg	9	8	14	10	2	1	3	1	1	0	2	3	4	3	4	3	2	4	2	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52257218G>A	uc003dda.1	-	2	1748	c.1114C>T	c.(1114-1116)CAC>TAC	p.H372Y	TLR9_uc003ddb.2_Missense_Mutation_p.H469Y	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	372	LRR 12.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	AAGATGCCGTGCATGTCCAGC	0.587													8	105					0	0	1	0	0		A	52257218	A	A	52257218	3	1	27	1	0	0	0	0	1	0	0	0	15983	1319	46	2	1988	2	TLR9	3	52257218	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	677	52257218	145765212	1707	24058											
TLR9	54106	broad.mit.edu	37	chr3	52257565	52257565	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagcgtggtcgcagcggCggcaatttccgcccacatcg	6	7	15	13	6	0	0	0	0	0	0	3	1	1	1	2	4	2	2	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52257565C>T	uc003dda.1	-	2	1401	c.767G>A	c.(766-768)CGC>CAC	p.R256H	TLR9_uc003ddb.2_Missense_Mutation_p.R353H	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	256	LRR 8.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	GTCGCAGCGGCGGCAATTTCC	0.617													5	35					0	0	1	0	0		T	52257565	T	T	52257565	3	4	27	1	0	0	0	0	1	0	0	0	15983	768	27	1	2335	1	TLR9	3	52257565	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	347	52257565	145764865	1708	24059											
DNAH1	25981	broad.mit.edu	37	chr3	52383021	52383021	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgtgtccaaggccatgAtcccactgcaggcctacgcc	7	7	11	16	2	0	1	0	1	0	0	2	1	2	1	6	2	3	1	6	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52383021A>T	uc011bef.1	+	13	2485	c.2224A>T	c.(2224-2226)ATC>TTC	p.I742F	DNAH1_uc003ddt.1_Missense_Mutation_p.I742F	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	742	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CAAGGCCATGATCCCACTGCA	0.582													7	72					0	0	1	0	0		T	52383021	T	T	52383021	3	4	27	1	0	0	0	0	1	0	0	0	4603	333	12	5	2270	5	DNAH1	3	52383021	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	125456	52383021	145639409	1709	24060											
DNAH1	25981	broad.mit.edu	37	chr3	52403902	52403902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaccagctacagtctcccGctgtggcatggtgtacctgg	6	11	11	13	1	2	0	1	0	1	0	3	0	2	0	3	3	3	4	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52403902G>A	uc011bef.1	+	38	6266	c.6005G>A	c.(6004-6006)CGC>CAC	p.R2002H		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2002	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		ACAGTCTCCCGCTGTGGCATG	0.597													8	67					0	0	1	0	0		A	52403902	A	A	52403902	3	1	27	1	0	0	0	0	1	0	0	0	4603	1087	38	1	6151	1	DNAH1	3	52403902	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20881	52403902	145618528	1710	24061											
DNAH1	25981	broad.mit.edu	37	chr3	52429663	52429663	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctggatgccagccctagAacgcctcatcgagcacatca	12	6	9	14	2	2	1	2	0	0	1	3	3	2	2	3	1	5	2	3	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52429663A>T	uc011bef.1	+	70	11489	c.11228A>T	c.(11227-11229)GAA>GTA	p.E3743V	DNAH1_uc003ddv.2_Missense_Mutation_p.E601V	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3808	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CCAGCCCTAGAACGCCTCATC	0.577													5	35					0	0	1	0	0		T	52429663	T	T	52429663	3	4	27	1	0	0	0	0	1	0	0	0	4603	246	9	5	11502	5	DNAH1	3	52429663	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	25761	52429663	145592767	1711	24062											
TNNC1	7134	broad.mit.edu	37	chr3	52485813	52485813	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcagatttccctttgctGtcgtccttcatgcaccgaac	6	14	6	15	2	2	1	2	0	0	1	6	2	5	1	4	0	3	2	4	0	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52485813G>A	uc003deb.2	-	4	290	c.264C>T	c.(262-264)GAC>GAT	p.D88D		NM_003280	NP_003271	P63316	TNNC1_HUMAN	troponin C, slow	88					cardiac muscle contraction|muscle filament sliding|regulation of ATPase activity|regulation of muscle filament sliding speed|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin filament binding|calcium ion binding|calcium-dependent protein binding|protein homodimerization activity|troponin I binding|troponin T binding				0				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00175)|KIRC - Kidney renal clear cell carcinoma(197;0.00198)|OV - Ovarian serous cystadenocarcinoma(275;0.0525)	Bepridil(DB01244)|Dihydroxyaluminium(DB01375)|Levosimendan(DB00922)	TCCCTTTGCTGTCGTCCTTCA	0.577													7	110					0	0	1	0	0		A	52485813	A	A	52485813	2	1	27	1	0	0	0	0	0	0	0	1	16349	1368	48	4		4	TNNC1	3	52485813	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	56150	52485813	145536617	1712	24063											
TNNC1	7134	broad.mit.edu	37	chr3	52486162	52486162	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatctcctgcagctcctcAggggtggggttctggcccag	5	10	13	13	0	4	0	2	0	2	0	6	0	5	0	3	5	2	3	3	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52486162A>G	uc003deb.2	-	3	188	c.162T>C	c.(160-162)CCT>CCC	p.P54P	NISCH_uc011beg.1_5'Flank	NM_003280	NP_003271	P63316	TNNC1_HUMAN	troponin C, slow	54	EF-hand 2.				cardiac muscle contraction|muscle filament sliding|regulation of ATPase activity|regulation of muscle filament sliding speed|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin filament binding|calcium ion binding|calcium-dependent protein binding|protein homodimerization activity|troponin I binding|troponin T binding				0				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00175)|KIRC - Kidney renal clear cell carcinoma(197;0.00198)|OV - Ovarian serous cystadenocarcinoma(275;0.0525)	Bepridil(DB01244)|Dihydroxyaluminium(DB01375)|Levosimendan(DB00922)	GCAGCTCCTCAGGGGTGGGGT	0.592													10	118					0	0	1	0	0		G	52486162	G	G	52486162	2	3	27	1	0	0	0	0	0	0	0	1	16349	175	7	3		3	TNNC1	3	52486162	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	349	52486162	145536268	1713	24064											
NISCH	11188	broad.mit.edu	37	chr3	52504925	52504925	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagagctctttgagaaaggTatgtggccacatgtccctga	11	10	12	8	0	1	3	0	2	1	2	2	5	2	3	2	2	1	2	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52504925T>C	uc011beg.1	+	5	481	c.409_splice	c.e5+2	p.G137_splice	NISCH_uc003ded.3_Splice_Site_p.G137_splice|NISCH_uc003dec.1_Splice_Site_p.G137_splice	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin						apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		TTGAGAAAGGTATGTGGCCAC	0.502													9	133					0	0	1	0	0		C	52504925	C	C	52504925	5	2	27	1	0	0	0	0	0	0	1	0	10451	1652	57	3	425	3	NISCH	3	52504925	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18763	52504925	145517505	1714	24065											
STAB1	23166	broad.mit.edu	37	chr3	52556242	52556242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgccaactgcttgagcaccgGcctggtgagcaggtggggga	7	6	17	11	2	0	2	0	2	0	0	0	3	0	3	3	5	4	3	3	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52556242G>A	uc003dej.2	+	59	6535	c.6461G>A	c.(6460-6462)GGC>GAC	p.G2154D	STAB1_uc003dek.1_Missense_Mutation_p.G169D|STAB1_uc003del.2_Missense_Mutation_p.G41D	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2154	EGF-like 16.|Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		TTGAGCACCGGCCTGGTGAGC	0.687													5	59					0	0	1	0	0		A	52556242	A	A	52556242	3	1	27	1	0	0	0	0	1	0	0	0	15262	1203	42	2	6695	2	STAB1	3	52556242	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	51317	52556242	145466188	1715	24066											
STAB1	23166	broad.mit.edu	37	chr3	52556614	52556614	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccaggccaccagcggcccTtatggtctgaacttttcgga	7	10	10	14	2	1	1	0	1	1	0	3	2	2	2	4	4	2	0	4	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52556614T>G	uc003dej.2	+	61	6728	c.6654T>G	c.(6652-6654)CCT>CCG	p.P2218P	STAB1_uc003dek.1_Silent_p.P233P|STAB1_uc003del.2_Silent_p.P105P	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2218	Extracellular (Potential).|Link.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CCAGCGGCCCTTATGGTCTGA	0.607													6	112					0	0	1	0	0		G	52556614	G	G	52556614	2	3	27	1	0	0	0	0	0	0	0	1	15262	1596	56	5		5	STAB1	3	52556614	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	372	52556614	145465816	1716	24067											
PBRM1	55193	broad.mit.edu	37	chr3	52598072	52598072	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcaagctttacctgaagTagtaaatttcatcatctacc	12	16	4	9	0	4	1	3	1	1	0	4	1	4	1	2	0	3	3	2	0	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52598072T>A	uc003des.2	-	23	3881	c.3869A>T	c.(3868-3870)TAC>TTC	p.Y1290F	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.Y1290F|PBRM1_uc003der.2_Missense_Mutation_p.Y1258F|PBRM1_uc003det.2_Missense_Mutation_p.Y1305F|PBRM1_uc003deu.2_Missense_Mutation_p.Y1305F|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.Y1290F|PBRM1_uc010hmk.1_Missense_Mutation_p.Y1265F|PBRM1_uc003dey.2_Missense_Mutation_p.Y1265F|PBRM1_uc003dez.1_Missense_Mutation_p.Y1289F	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	1290					chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TTACCTGAAGTAGTAAATTTC	0.348			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								4	52					0	0	1	0	0		A	52598072	A	A	52598072	3	1	27	1	0	0	0	0	1	0	0	0	11510	1638	57	5	1063	5	PBRM1	3	52598072	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	41458	52598072	145424358	1717	24068											
PBRM1	55193	broad.mit.edu	37	chr3	52643740	52643740	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccatagagtcaatatctTggtacttgttggccatcatg	11	13	8	9	0	3	1	2	0	1	1	3	1	3	1	2	2	2	2	2	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52643740T>C	uc003des.2	-	16	2168	c.2156A>G	c.(2155-2157)CAA>CGA	p.Q719R	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.Q719R|PBRM1_uc003der.2_Missense_Mutation_p.Q687R|PBRM1_uc003det.2_Missense_Mutation_p.Q734R|PBRM1_uc003deu.2_Missense_Mutation_p.Q734R|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.Q719R|PBRM1_uc010hmk.1_Missense_Mutation_p.Q719R|PBRM1_uc003dey.2_Missense_Mutation_p.Q719R|PBRM1_uc003dez.1_Missense_Mutation_p.Q719R|PBRM1_uc003dfb.1_Missense_Mutation_p.Q632R|PBRM1_uc003dfa.1_Missense_Mutation_p.Q65R|PBRM1_uc003dfc.2_Missense_Mutation_p.Q86R	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	719	Bromo 5.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding	p.Y718_Q719>*(1)		kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		GTCAATATCTTGGTACTTGTT	0.398			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								14	124					0	0	1	0	0		C	52643740	C	C	52643740	3	2	27	1	0	0	0	0	1	0	0	0	11510	1812	63	3	2804	3	PBRM1	3	52643740	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	45668	52643740	145378690	1718	24069											
GNL3	26354	broad.mit.edu	37	chr3	52722169	52722169	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaaagccaagtcgggcaaAcagaattcaaagaagctgta	19	5	9	8	1	1	2	1	0	0	2	2	2	1	2	1	1	4	3	1	1	8	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52722169A>T	uc003dfd.2	+	5	542	c.369A>T	c.(367-369)AAA>AAT	p.K123N	PBRM1_uc003dey.2_5'Flank|GNL3_uc011beh.1_RNA|GNL3_uc003dfe.2_Missense_Mutation_p.K111N|GNL3_uc003dff.2_Missense_Mutation_p.K111N|SNORD19_uc003dfg.1_5'Flank|SNORD19B_uc010hml.1_5'Flank	NM_014366	NP_055181	Q9BVP2	GNL3_HUMAN	guanine nucleotide binding protein-like 3	123					regulation of cell proliferation	nucleolus	GTP binding|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;6.75e-05)|Kidney(197;0.000611)|KIRC - Kidney renal clear cell carcinoma(197;0.000773)|OV - Ovarian serous cystadenocarcinoma(275;0.048)		AGTCGGGCAAACAGAATTCAA	0.393													5	98					0	0	1	0	0		T	52722169	T	T	52722169	3	4	27	1	0	0	0	0	1	0	0	0	6552	40	2	5	387	5	GNL3	3	52722169	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	78429	52722169	145300261	1719	24070											
NEK4	6787	broad.mit.edu	37	chr3	52745874	52745874	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tacttttcacccatgtgctcCcgcaaacgtacctatttgag	9	13	6	13	2	1	1	1	1	0	0	2	1	2	1	3	0	4	3	3	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52745874C>T	uc003dfq.3	-	16	2634	c.2445G>A	c.(2443-2445)CGG>CGA	p.R815R	NEK4_uc011bej.1_Silent_p.R726R	NM_003157	NP_003148	P51957	NEK4_HUMAN	NIMA-related kinase 4	815					cell division|mitosis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.44e-05)|Kidney(197;0.000711)|KIRC - Kidney renal clear cell carcinoma(197;0.00086)|OV - Ovarian serous cystadenocarcinoma(275;0.0513)		CCATGTGCTCCCGCAAACGTA	0.264													18	200					0	0	1	0	0		T	52745874	T	T	52745874	2	4	27	1	0	0	0	0	0	0	0	1	10345	610	22	4		4	NEK4	3	52745874	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23705	52745874	145276556	1720	24071											
ITIH1	3697	broad.mit.edu	37	chr3	52821105	52821105	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagcccaccatcgacaaGccctcagagggtataggctg	11	6	11	13	1	1	2	1	1	0	1	2	3	1	2	3	2	2	2	3	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52821105G>T	uc003dfs.2	+	14	1902	c.1878G>T	c.(1876-1878)AAG>AAT	p.K626N	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Missense_Mutation_p.K227N|ITIH1_uc010hmo.1_Missense_Mutation_p.K180N|ITIH1_uc003dfu.2_5'Flank	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	626	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		CCATCGACAAGCCCTCAGAGG	0.567													6	98					3.59834e-05	3.83694e-05	1	1	0		T	52821105	T	T	52821105	3	4	27	1	0	0	0	0	1	0	0	0	7919	962	34	5	1932	5	ITIH1	3	52821105	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	75231	52821105	145201325	1721	24072											
ITIH3	3699	broad.mit.edu	37	chr3	52828898	52828898	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggcttcccgagaagccccTttcggctgcttggggtgagt	4	11	14	12	2	0	2	0	1	0	1	2	3	1	2	3	4	2	3	3	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52828898T>G	uc003dfv.2	+	1	115	c.79T>G	c.(79-81)TTT>GTT	p.F27V	ITIH3_uc011bek.1_Missense_Mutation_p.F27V	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	27					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		GAGAAGCCCCTTTCGGCTGCT	0.597													4	130					0	0	1	0	0		G	52828898	G	G	52828898	3	3	27	1	0	0	0	0	1	0	0	0	7921	1609	56	5	81	5	ITIH3	3	52828898	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7793	52828898	145193532	1722	24073											
ITIH3	3699	broad.mit.edu	37	chr3	52833437	52833437	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacctcaaggccttccagTggtgcctaagaacgtggcct	8	9	11	13	1	1	1	1	0	0	1	2	1	2	1	5	3	3	1	5	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52833437T>C	uc003dfv.2	+	8	875	c.839T>C	c.(838-840)GTG>GCG	p.V280A	ITIH3_uc011bek.1_Missense_Mutation_p.V280A	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	280					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		GGCCTTCCAGTGGTGCCTAAG	0.552													4	45					0	0	1	0	0		C	52833437	C	C	52833437	3	2	27	1	0	0	0	0	1	0	0	0	7921	1696	59	3	869	3	ITIH3	3	52833437	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4539	52833437	145188993	1723	24074											
ITIH4	3700	broad.mit.edu	37	chr3	52851076	52851076	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccagtcacctcaaccccTgggaggaccagaccagagag	11	4	12	14	0	2	2	2	0	0	2	2	5	2	4	6	3	1	0	6	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52851076T>C	uc003dfz.2	-	21	2333	c.2297_splice	c.e21-1	p.G766_splice	ITIH4_uc011bel.1_Splice_Site_p.G480_splice|ITIH4_uc003dfy.2_Splice_Site_p.G561_splice|ITIH4_uc011bem.1_Splice_Site_p.G771_splice|ITIH4_uc011ben.1_Splice_Site_p.G736_splice	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4						acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		CCTCAACCCCTGGGAGGACCA	0.607													4	80					0	0	1	0	0		C	52851076	C	C	52851076	5	2	27	1	0	0	0	0	0	0	1	0	7922	1594	55	3	513	3	ITIH4	3	52851076	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	17639	52851076	145171354	1724	24075											
TMEM110	375346	broad.mit.edu	37	chr3	52877754	52877754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgttgacaaagaaggggaCgatcagcatgacgatggcca	14	5	14	8	3	1	3	1	2	0	1	1	7	1	4	1	3	1	2	1	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52877754C>T	uc003dge.2	-	6	682	c.601G>A	c.(601-603)GTC>ATC	p.V201I	MUSTN1_uc003dgb.3_5'Flank|TMEM110_uc003dgc.3_Missense_Mutation_p.V201I	NM_198563	NP_940965	Q86TL2	TM110_HUMAN	transmembrane protein 110	201	Helical; (Potential).					integral to membrane				large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.72e-05)|Kidney(197;0.000777)|KIRC - Kidney renal clear cell carcinoma(197;0.000915)|OV - Ovarian serous cystadenocarcinoma(275;0.0541)		AAGAAGGGGACGATCAGCATG	0.507													13	110					0	0	1	0	0		T	52877754	T	T	52877754	3	4	27	1	0	0	0	0	1	0	0	0	16052	536	19	1	295	1	TMEM110	3	52877754	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	26678	52877754	145144676	1725	24076											
SFMBT1	51460	broad.mit.edu	37	chr3	52977522	52977522	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacaggtagtgataacggTggcaacccagtaggtctcag	11	8	12	10	1	2	1	2	1	1	0	3	1	2	1	1	4	2	3	1	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52977522T>C	uc003dgf.2	-	5	780	c.211A>G	c.(211-213)ACC>GCC	p.T71A	SFMBT1_uc010hmr.2_Missense_Mutation_p.T18A|SFMBT1_uc003dgg.2_Missense_Mutation_p.T71A|SFMBT1_uc003dgh.2_Missense_Mutation_p.T71A	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	71	MBT 1.				regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		GTGATAACGGTGGCAACCCAG	0.512													5	68					0	0	1	0	0		C	52977522	C	C	52977522	3	2	27	1	0	0	0	0	1	0	0	0	14182	1696	59	3	2461	3	SFMBT1	3	52977522	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	99768	52977522	145044908	1726	24077											
SFMBT1	51460	broad.mit.edu	37	chr3	52988359	52988359	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaagacccatagggaactgCtgtggaccctgtttcttcta	11	11	9	10	0	2	1	0	0	2	1	2	3	2	3	2	2	2	2	2	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:52988359C>A	uc003dgf.2	-	4	666	c.97G>T	c.(97-99)GCA>TCA	p.A33S	SFMBT1_uc003dgg.2_Missense_Mutation_p.A33S|SFMBT1_uc003dgh.2_Missense_Mutation_p.A33S	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	33	MBT 1.				regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		TAGGGAACTGCTGTGGACCCT	0.353													7	161					0.000157383	0.000166242	1	1	0		A	52988359	A	A	52988359	3	1	27	1	0	0	0	0	1	0	0	0	14182	797	28	5	2579	5	SFMBT1	3	52988359	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10837	52988359	145034071	1727	24078											
CACNA1D	776	broad.mit.edu	37	chr3	53700410	53700410	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatgtgcgttctcagggAatggacgccagtgtactgcc	7	10	12	12	2	1	0	1	0	1	0	3	2	2	2	3	2	3	2	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:53700410A>G	uc003dgv.3	+	7	1127	c.964A>G	c.(964-966)AAT>GAT	p.N322D	CACNA1D_uc003dgu.3_Missense_Mutation_p.N322D|CACNA1D_uc003dgy.3_Missense_Mutation_p.N322D|CACNA1D_uc003dgw.3_5'UTR	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	322	Extracellular (Potential).|I.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	GTTCTCAGGGAATGGACGCCA	0.522													21	221					0	0	1	0	0		G	53700410	G	G	53700410	3	3	27	1	0	0	0	0	1	0	0	0	2544	246	9	3	990	3	CACNA1D	3	53700410	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	712051	53700410	144322020	1728	24079											
CACNA1D	776	broad.mit.edu	37	chr3	53757947	53757947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgggatgcagctgtttggcgGcaagtttaattttgatgaaa	10	14	13	4	1	0	2	0	2	0	0	0	3	0	3	0	3	2	5	0	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:53757947G>A	uc003dgv.3	+	14	2184	c.2021G>A	c.(2020-2022)GGC>GAC	p.G674D	CACNA1D_uc003dgu.3_Missense_Mutation_p.G694D|CACNA1D_uc003dgy.3_Missense_Mutation_p.G674D|CACNA1D_uc003dgw.3_Missense_Mutation_p.G341D	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	674	Extracellular (Potential).|II.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	CTGTTTGGCGGCAAGTTTAAT	0.458													10	90					0	0	1	0	0		A	53757947	A	A	53757947	3	1	27	1	0	0	0	0	1	0	0	0	2544	1203	42	2	2247	2	CACNA1D	3	53757947	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	57537	53757947	144264483	1729	24080											
CACNA1D	776	broad.mit.edu	37	chr3	53783420	53783420	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttcatgatgaacatctTtgtgggctttgtcatcgtta	7	19	8	7	1	4	2	2	2	2	0	5	2	4	2	0	1	1	2	0	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:53783420T>C	uc003dgv.3	+	27	3603	c.3440T>C	c.(3439-3441)TTT>TCT	p.F1147S	CACNA1D_uc003dgu.3_Missense_Mutation_p.F1167S|CACNA1D_uc003dgy.3_Missense_Mutation_p.F1147S|CACNA1D_uc003dgw.3_Missense_Mutation_p.F814S|CACNA1D_uc003dgx.1_Missense_Mutation_p.F295S	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1147	Helical; Name=S6 of repeat III; (Potential).|Dihydropyridine binding (By similarity).|III.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	ATGAACATCTTTGTGGGCTTT	0.413													5	66					0	0	1	0	0		C	53783420	C	C	53783420	3	2	27	1	0	0	0	0	1	0	0	0	2544	1841	64	3	3718	3	CACNA1D	3	53783420	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25473	53783420	144239010	1730	24081											
IL17RB	55540	broad.mit.edu	37	chr3	53892801	53892801	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catccgacataaaggaacagTtgtgctctgcccacaaacag	14	7	8	12	1	1	0	0	0	1	0	2	2	2	1	2	1	4	2	2	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:53892801T>C	uc003dha.2	+	9	842	c.803T>C	c.(802-804)GTT>GCT	p.V268A		NM_018725	NP_061195	Q9NRM6	I17RB_HUMAN	interleukin 17B receptor precursor	268	Extracellular (Potential).				defense response|regulation of cell growth	extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)		AAAGGAACAGTTGTGCTCTGC	0.483													5	39					0	0	1	0	0		C	53892801	C	C	53892801	3	2	27	1	0	0	0	0	1	0	0	0	7656	1725	60	3	837	3	IL17RB	3	53892801	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	109381	53892801	144129629	1731	24082											
ACTR8	93973	broad.mit.edu	37	chr3	53902862	53902862	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaacactgcccctccttTccatgcaatcagccgggggt	8	8	9	16	1	1	0	1	0	0	0	3	0	3	0	6	2	5	1	6	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:53902862T>A	uc003dhd.2	-	13	1818	c.1759A>T	c.(1759-1761)AAA>TAA	p.K587*	ACTR8_uc003dhb.2_Nonsense_Mutation_p.K292*|ACTR8_uc003dhc.2_Nonsense_Mutation_p.K476*	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	587					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		GCCCCTCCTTTCCATGCAATC	0.493													9	71					0	0	1	0	0		A	53902862	A	A	53902862	4	1	27	1	0	0	0	0	0	1	0	0	217	1792	62	5	119	5	ACTR8	3	53902862	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10061	53902862	144119568	1732	24083											
CACNA2D3	55799	broad.mit.edu	37	chr3	54157558	54157558	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggtgaagctctgggcctcGgcttttggtggggagataaa	8	10	17	6	1	1	2	0	1	1	1	2	3	1	2	1	6	1	2	1	6	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:54157558G>A	uc003dhf.2	+	2	189	c.141G>A	c.(139-141)TCG>TCA	p.S47S	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_5'UTR|CACNA2D3_uc003dhh.1_RNA	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	47	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		TCTGGGCCTCGGCTTTTGGTG	0.527													21	104					0	0	1	0	0		A	54157558	A	A	54157558	2	1	27	1	0	0	0	0	0	0	0	1	2553	1103	39	1		1	CACNA2D3	3	54157558	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	254696	54157558	143864872	1733	24084											
CACNA2D3	55799	broad.mit.edu	37	chr3	54905633	54905633	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctctgaggtggagtgggAagaccgagatgacgtggtaa	10	8	16	7	2	1	4	0	2	1	2	2	7	1	6	2	4	0	1	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:54905633A>G	uc003dhf.2	+	18	1742	c.1694A>G	c.(1693-1695)GAA>GGA	p.E565G	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Missense_Mutation_p.E471G|CACNA2D3_uc003dhh.1_RNA|CACNA2D3_uc010hmv.1_Missense_Mutation_p.E299G	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	565	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		GTGGAGTGGGAAGACCGAGAT	0.483													5	78					0	0	1	0	0		G	54905633	G	G	54905633	3	3	27	1	0	0	0	0	1	0	0	0	2553	246	9	3	1764	3	CACNA2D3	3	54905633	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	748075	54905633	143116797	1734	24085											
CACNA2D3	55799	broad.mit.edu	37	chr3	54922023	54922023	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagaagtcctttttgacgcGgtggtgagtgcccccattga	8	11	12	10	2	0	4	0	3	0	1	1	4	1	4	3	2	1	0	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:54922023G>A	uc003dhf.2	+	24	2142	c.2094G>A	c.(2092-2094)GCG>GCA	p.A698A	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Silent_p.A604A|CACNA2D3_uc003dhh.1_RNA|uc003dhk.1_Intron	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	698	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		TTTTTGACGCGGTGGTGAGTG	0.527													11	101					0	0	1	0	0		A	54922023	A	A	54922023	2	1	27	1	0	0	0	0	0	0	0	1	2553	1103	39	1		1	CACNA2D3	3	54922023	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16390	54922023	143100407	1735	24086											
LRTM1	57408	broad.mit.edu	37	chr3	54958982	54958982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccatggaaagctccaggggCcagatttgaaagggaattgt	12	8	13	8	0	0	2	0	1	0	1	1	4	1	4	3	4	1	1	3	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:54958982C>T	uc003dhl.2	-	2	402	c.268G>A	c.(268-270)GCC>ACC	p.A90T	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	90	Extracellular (Potential).|LRR 2.					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		GCTCCAGGGGCCAGATTTGAA	0.443													10	52					0	0	1	0	0		T	54958982	T	T	54958982	3	4	27	1	0	0	0	0	1	0	0	0	9062	739	26	2	777	2	LRTM1	3	54958982	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	36959	54958982	143063448	1736	24087											
ERC2	26059	broad.mit.edu	37	chr3	56114985	56114985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgaggaaagattctttttCttccagtcgtaatctcagcg	10	15	8	8	2	3	2	1	1	3	1	6	3	4	3	1	1	1	1	1	1	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:56114985C>T	uc003dhr.1	-	7	1757	c.1501G>A	c.(1501-1503)GAA>AAA	p.E501K	ERC2_uc003dht.1_5'UTR	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	501	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		GATTCTTTTTCTTCCAGTCGT	0.403													5	36					0	0	1	0	0		T	56114985	T	T	56114985	3	4	27	1	0	0	0	0	1	0	0	0	5219	922	32	4	1406	4	ERC2	3	56114985	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1156003	56114985	141907445	1737	24088											
CCDC66	285331	broad.mit.edu	37	chr3	56653892	56653892	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaaaatagggatcgacAgcaagcaatccttaagggac	16	6	12	7	1	0	1	0	1	0	0	2	4	1	3	1	3	2	2	1	3	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:56653892A>G	uc003dhz.2	+	17	2810	c.2723A>G	c.(2722-2724)CAG>CGG	p.Q908R	CCDC66_uc003dhy.2_Missense_Mutation_p.Q544R|CCDC66_uc003dhu.2_Missense_Mutation_p.Q874R|CCDC66_uc003dhx.2_RNA|CCDC66_uc003dia.2_Missense_Mutation_p.Q276R	NM_001141947	NP_001135419	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66 isoform 1	908										breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		AGGGATCGACAGCAAGCAATC	0.448													7	281					0	0	1	0	0		G	56653892	G	G	56653892	3	3	27	1	0	0	0	0	1	0	0	0	2841	188	7	3	2789	3	CCDC66	3	56653892	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	538907	56653892	141368538	1738	24089											
C3orf63	23272	broad.mit.edu	37	chr3	56657354	56657354	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttcagagcatactataTcaatagaagttctctcttca	12	14	4	11	0	5	2	3	0	2	2	7	2	6	2	1	0	2	2	1	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:56657354T>A	uc003did.3	-	23	4642	c.4541A>T	c.(4540-4542)GAT>GTT	p.D1514V	C3orf63_uc003dib.3_Missense_Mutation_p.D633V|C3orf63_uc003dic.3_Missense_Mutation_p.D1138V|C3orf63_uc003die.3_3'UTR	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	1575										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		GCATACTATATCAATAGAAGT	0.323													5	58					0	0	1	0	0		A	56657354	A	A	56657354	3	1	27	1	0	0	0	0	1	0	0	0	2242	1435	50	5	292	5	C3orf63	3	56657354	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3462	56657354	141365076	1739	24090											
SPATA12	353324	broad.mit.edu	37	chr3	57107810	57107810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactagactcttccagactcGttccatggccacccagaggc	9	8	8	16	1	1	3	0	0	1	3	4	3	3	3	4	2	0	1	4	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:57107810G>A	uc003dij.1	+	2	763	c.88G>A	c.(88-90)GTT>ATT	p.V30I	ARHGEF3_uc003dih.2_Intron	NM_181727	NP_859078	Q7Z6I5	SPT12_HUMAN	spermatogenesis associated 12	30											0				KIRC - Kidney renal clear cell carcinoma(284;0.0111)|Kidney(284;0.0129)		TTCCAGACTCGTTCCATGGCC	0.567													15	69					0	0	1	0	0		A	57107810	A	A	57107810	3	1	27	1	0	0	0	0	1	0	0	0	15024	1145	40	1	90	1	SPATA12	3	57107810	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	450456	57107810	140914620	1740	24091											
HESX1	8820	broad.mit.edu	37	chr3	57232257	57232257	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgtgttgaaatttttttTcgccattagaaactgtgatt	10	20	7	4	1	0	3	0	2	0	1	1	3	0	3	1	0	1	1	1	0	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:57232257T>C	uc003din.3	-	4	860	c.526A>G	c.(526-528)AAA>GAA	p.K176E		NM_003865	NP_003856	Q9UBX0	HESX1_HUMAN	HESX homeobox 1	176						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0109)|Kidney(284;0.0126)		AAATTTTTTTTCGCCATTAGA	0.318													11	43					0	0	1	0	0		C	57232257	C	C	57232257	3	2	27	1	0	0	0	0	1	0	0	0	7088	1792	62	3	35	3	HESX1	3	57232257	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	124447	57232257	140790173	1741	24092											
APPL1	26060	broad.mit.edu	37	chr3	57274552	57274552	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgccatgatgttccccatTacccagtttaaagaaagaga	14	10	8	9	0	0	3	0	1	0	2	1	5	1	3	4	0	2	2	4	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:57274552T>C	uc003dio.2	+	5	492	c.345T>C	c.(343-345)ATT>ATC	p.I115I	APPL1_uc010hnb.2_Silent_p.I115I|APPL1_uc011bey.1_Silent_p.I98I	NM_012096	NP_036228	Q9UKG1	DP13A_HUMAN	adaptor protein, phosphotyrosine interaction, PH	115	Required for RAB5A binding.				apoptosis|cell cycle|cell proliferation|insulin receptor signaling pathway|regulation of apoptosis|regulation of establishment of protein localization in plasma membrane|regulation of glucose import	cytosol|early endosome membrane|microsome|nucleus|vesicle membrane	protein kinase B binding			breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0124)|Kidney(284;0.0144)		TGTTCCCCATTACCCAGTTTA	0.368													9	66					0	0	1	0	0		C	57274552	C	C	57274552	2	2	27	1	0	0	0	0	0	0	0	1	817	1742	61	3		3	APPL1	3	57274552	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	42295	57274552	140747878	1742	24093											
ASB14	142686	broad.mit.edu	37	chr3	57312659	57312659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagttgcccatcctgagggCtatctggaggcagttaaccg	9	10	12	10	1	1	1	0	1	1	0	2	2	2	2	3	3	2	4	3	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:57312659C>T	uc003diq.2	-	8	1273	c.685G>A	c.(685-687)GCC>ACC	p.A229T	ASB14_uc003dip.1_Missense_Mutation_p.A108T	NM_001142733	NP_001136205	A6NK59	ASB14_HUMAN	ankyrin repeat and SOCS box-containing 14	393	ANK 10.				intracellular signal transduction						0				KIRC - Kidney renal clear cell carcinoma(284;0.011)|Kidney(284;0.0127)		ATCCTGAGGGCTATCTGGAGG	0.478													11	102					0	0	1	0	0		T	57312659	T	T	57312659	3	4	27	1	0	0	0	0	1	0	0	0	1019	797	28	2	598	2	ASB14	3	57312659	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	38107	57312659	140709771	1743	24094											
DNAH12	201625	broad.mit.edu	37	chr3	57528453	57528453	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgattaattttctgctgctGctccttggatcttctgtatt	5	20	7	9	0	3	1	0	1	3	0	4	2	4	2	1	1	3	4	1	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:57528453G>C	uc003dit.2	-	2	326	c.145C>G	c.(145-147)CAG>GAG	p.Q49E	DNAH12_uc003diu.2_Missense_Mutation_p.Q49E	NM_178504	NP_848599	Q6ZR08	DYH12_HUMAN	dynein heavy chain domain 2 isoform 1	49	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			pancreas(1)|skin(1)	2						TTCTGCTGCTGCTCCTTGGAT	0.363													3	74					0	0	1	0	0		C	57528453	C	C	57528453	3	2	27	1	0	0	0	0	1	0	0	0	4606	1328	46	5	9408	5	DNAH12	3	57528453	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	215794	57528453	140493977	1744	24095											
FLNB	2317	broad.mit.edu	37	chr3	58104628	58104628	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggttctggtgacttacggTggcgatcccatccctaaaag	9	10	11	11	2	1	1	0	1	1	0	3	2	3	1	2	4	1	1	2	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:58104628T>C	uc003djj.2	+	19	2940	c.2775T>C	c.(2773-2775)GGT>GGC	p.G925G	FLNB_uc010hne.2_Silent_p.G925G|FLNB_uc003djk.2_Silent_p.G925G|FLNB_uc010hnf.2_Silent_p.G925G|FLNB_uc003djl.2_Silent_p.G756G|FLNB_uc003djm.2_Silent_p.G756G	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	925	Filamin 7.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		TGACTTACGGTGGCGATCCCA	0.473													11	128					0	0	1	0	0		C	58104628	C	C	58104628	2	2	27	1	0	0	0	0	0	0	0	1	5948	1683	59	3		3	FLNB	3	58104628	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	576175	58104628	139917802	1745	24096											
FLNB	2317	broad.mit.edu	37	chr3	58108972	58108972	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgctccgacaatggtgatggGacctgctccgtctcttacct	6	12	10	13	2	1	1	0	1	1	0	4	3	3	2	4	2	3	2	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:58108972G>C	uc003djj.2	+	21	3444	c.3279G>C	c.(3277-3279)GGG>GGC	p.G1093G	FLNB_uc010hne.2_Silent_p.G1093G|FLNB_uc003djk.2_Silent_p.G1093G|FLNB_uc010hnf.2_Silent_p.G1093G|FLNB_uc003djl.2_Silent_p.G924G|FLNB_uc003djm.2_Silent_p.G924G	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1093	Filamin 9.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		ATGGTGATGGGACCTGCTCCG	0.532													5	152					0	0	1	0	0		C	58108972	C	C	58108972	2	2	27	1	0	0	0	0	0	0	0	1	5948	1161	41	5		5	FLNB	3	58108972	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4344	58108972	139913458	1746	24097											
RPP14	11102	broad.mit.edu	37	chr3	58302681	58302681	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctttgaccctgttaggAtcctataaaggcaaaaaatg	14	11	8	8	0	1	1	0	1	1	0	2	2	2	2	2	2	1	3	2	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:58302681A>G	uc010hnh.2	+	5	707	c.279A>G	c.(277-279)GGA>GGG	p.G93G	RPP14_uc010hni.2_5'UTR|RPP14_uc003dju.3_Silent_p.G93G|RPP14_uc003djv.3_5'UTR|RPP14_uc003djw.3_5'UTR	NM_001098783	NP_001092253	O95059	RPP14_HUMAN	ribonuclease P 14kDa subunit	93					tRNA processing	nucleus	identical protein binding|ribonuclease P activity|RNA binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000187)|KIRC - Kidney renal clear cell carcinoma(10;0.0102)|Kidney(10;0.0118)|OV - Ovarian serous cystadenocarcinoma(275;0.191)		CCCTGTTAGGATCCTATAAAG	0.393													5	94					0	0	1	0	0		G	58302681	G	G	58302681	2	3	27	1	0	0	0	0	0	0	0	1	13634	320	12	3		3	RPP14	3	58302681	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	193709	58302681	139719749	1747	24098											
PXK	54899	broad.mit.edu	37	chr3	58395860	58395860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatagtgaagagcattcagCgaagtacagcaactccaata	18	7	8	8	1	1	2	1	1	0	1	2	3	2	2	1	0	5	3	1	0	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:58395860C>T	uc003djz.1	+	16	1538	c.1439C>T	c.(1438-1440)GCG>GTG	p.A480V	PXK_uc003djx.1_Missense_Mutation_p.A480V|PXK_uc003djy.1_Missense_Mutation_p.A463V|PXK_uc003dka.1_Missense_Mutation_p.A480V|PXK_uc003dkb.1_Missense_Mutation_p.A397V|PXK_uc003dkc.1_Missense_Mutation_p.A463V|PXK_uc011bfe.1_Missense_Mutation_p.A447V|PXK_uc010hnj.1_Missense_Mutation_p.A447V|PXK_uc003dkd.1_Missense_Mutation_p.A343V|PXK_uc010hnk.1_Missense_Mutation_p.A254V	NM_017771	NP_060241	Q7Z7A4	PXK_HUMAN	PX domain containing serine/threonine kinase	480	Protein kinase.				cell communication|inflammatory response|negative regulation of ATPase activity|negative regulation of ion transport|regulation of synaptic transmission	centrosome|cytoplasm|nucleus|plasma membrane	actin binding|ATP binding|phosphatidylinositol binding|phosphatidylinositol binding|protein C-terminus binding|protein kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000249)|KIRC - Kidney renal clear cell carcinoma(10;0.00346)|Kidney(10;0.00368)|OV - Ovarian serous cystadenocarcinoma(275;0.22)		GAGCATTCAGCGAAGTACAGC	0.433													7	63					0	0	1	0	0		T	58395860	T	T	58395860	3	4	27	1	0	0	0	0	1	0	0	0	12874	768	27	1	1501	1	PXK	3	58395860	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	93179	58395860	139626570	1748	24099											
ACOX2	8309	broad.mit.edu	37	chr3	58502969	58502969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccaggtaggctgttcttGccatgtccacttgggcacca	6	11	12	12	0	1	0	0	0	1	0	3	0	3	0	4	4	1	4	4	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:58502969G>A	uc003dkl.2	-	13	1989	c.1814C>T	c.(1813-1815)GCA>GTA	p.A605V		NM_003500	NP_003491	Q99424	ACOX2_HUMAN	acyl-Coenzyme A oxidase 2	605					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3alpha,7alpha,12alpha-trihydroxy-5beta-cholestanoyl-CoA 24-hydroxylase activity|acyl-CoA dehydrogenase activity|pristanoyl-CoA oxidase activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000194)|Kidney(10;0.00255)|KIRC - Kidney renal clear cell carcinoma(10;0.00268)|OV - Ovarian serous cystadenocarcinoma(275;0.156)		GGCTGTTCTTGCCATGTCCAC	0.532													9	89					0	0	1	0	0		A	58502969	A	A	58502969	3	1	27	1	0	0	0	0	1	0	0	0	159	1319	46	2	243	2	ACOX2	3	58502969	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	107109	58502969	139519461	1749	24100											
FAM3D	131177	broad.mit.edu	37	chr3	58639434	58639434	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacggatggttttcatgcTgaagctcatgtagcttcgaa	10	12	11	8	2	2	2	2	1	0	1	3	4	2	3	0	2	3	5	0	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:58639434T>G	uc003dkq.2	-	3	385	c.88A>C	c.(88-90)AGC>CGC	p.S30R		NM_138805	NP_620160	Q96BQ1	FAM3D_HUMAN	family with sequence similarity 3, member D	30					negative regulation of insulin secretion	extracellular region	cytokine activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000225)|Kidney(10;0.000667)|KIRC - Kidney renal clear cell carcinoma(10;0.000802)|OV - Ovarian serous cystadenocarcinoma(275;0.169)		GTTTTCATGCTGAAGCTCATG	0.577													7	106					0	0	1	0	0		G	58639434	G	G	58639434	3	3	27	1	0	0	0	0	1	0	0	0	5573	1580	55	5	618	5	FAM3D	3	58639434	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	136465	58639434	139382996	1750	24101											
PTPRG	5793	broad.mit.edu	37	chr3	62180761	62180761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccattagccatgtctcacCcgatagcctttacctgttcc	8	12	5	16	1	1	0	1	0	1	0	3	1	2	0	6	0	3	1	6	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:62180761C>T	uc003dlb.2	+	10	1963	c.1244C>T	c.(1243-1245)CCC>CTC	p.P415L	PTPRG_uc003dlc.2_Missense_Mutation_p.P415L	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	415	Fibronectin type-III.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		CATGTCTCACCCGATAGCCTT	0.502													7	109					0	0	1	0	0		T	62180761	T	T	62180761	3	4	27	1	0	0	0	0	1	0	0	0	12827	623	22	4	1282	4	PTPRG	3	62180761	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3541327	62180761	135841669	1751	24102											
PTPRG	5793	broad.mit.edu	37	chr3	62262706	62262706	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaaggaacagattacattAatgcttcttatatcatggtg	14	14	8	5	0	2	2	1	1	1	1	2	3	2	3	0	2	3	1	0	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:62262706A>G	uc003dlb.2	+	25	4338	c.3619A>G	c.(3619-3621)AAT>GAT	p.N1207D	PTPRG_uc003dlc.2_Missense_Mutation_p.N1178D|PTPRG_uc011bfi.1_Missense_Mutation_p.N453D|uc010hno.2_Intron|uc003dld.3_Intron|uc010hnp.2_Intron|uc003dle.3_Intron	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	1207	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		AGATTACATTAATGCTTCTTA	0.378													7	65					0	0	1	0	0		G	62262706	G	G	62262706	3	3	27	1	0	0	0	0	1	0	0	0	12827	362	13	3	3717	3	PTPRG	3	62262706	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	81945	62262706	135759724	1752	24103											
CADPS	8618	broad.mit.edu	37	chr3	62636580	62636580	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggttctcactctcctcgCccatgtcgatgatggaagca	7	11	10	13	2	2	1	1	1	2	0	6	3	2	2	2	2	1	3	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:62636580C>G	uc003dll.2	-	5	1505	c.1145G>C	c.(1144-1146)GGC>GCC	p.G382A	CADPS_uc003dlm.2_Missense_Mutation_p.G382A|CADPS_uc003dln.2_Missense_Mutation_p.G382A	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	382					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		ACTCTCCTCGCCCATGTCGAT	0.522													3	113					0	0	1	0	0		G	62636580	G	G	62636580	3	3	27	1	0	0	0	0	1	0	0	0	2573	739	26	5	3093	5	CADPS	3	62636580	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	373874	62636580	135385850	1753	24104											
SYNPR	132204	broad.mit.edu	37	chr3	63466614	63466614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taacctcagcatcgacatagCgtttgcctacccattcaggt	10	11	7	13	2	2	0	2	0	0	0	3	1	2	0	3	1	5	2	3	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:63466614C>T	uc003dlq.2	+	2	500	c.131C>T	c.(130-132)GCG>GTG	p.A44V	SYNPR_uc003dlp.2_Missense_Mutation_p.A64V|SYNPR_uc011bfk.1_Intron|SYNPR_uc011bfl.1_RNA|SYNPR_uc010hnt.2_Missense_Mutation_p.A53V|SYNPR_uc011bfm.1_RNA	NM_144642	NP_653243	Q8TBG9	SYNPR_HUMAN	synaptoporin isoform 2	44	MARVEL.|Vesicular (Potential).					cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	transporter activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000918)|KIRC - Kidney renal clear cell carcinoma(15;0.0658)|Kidney(15;0.0904)		ATCGACATAGCGTTTGCCTAC	0.483													14	140					0	0	1	0	0		T	63466614	T	T	63466614	3	4	27	1	0	0	0	0	1	0	0	0	15484	768	27	1	229	1	SYNPR	3	63466614	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	830034	63466614	134555816	1754	24105											
THOC7	80145	broad.mit.edu	37	chr3	63822025	63822025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgaatcacttttgccaaaGcatcatattctgtaagacat	13	13	6	9	0	3	2	2	1	1	1	3	2	3	2	1	0	2	3	1	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:63822025G>A	uc003dlt.3	-	5	493	c.362C>T	c.(361-363)GCT>GTT	p.A121V	C3orf49_uc003dls.3_Intron|THOC7_uc003dlu.3_Missense_Mutation_p.A58V	NM_025075	NP_079351	Q6I9Y2	THOC7_HUMAN	Ngg1 interacting factor 3 like 1 binding protein	121	Potential.|Interaction with THOC5.|Interaction with NIF3L1.				intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	cytoplasm|THO complex part of transcription export complex	protein binding|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(55;0.000439)|Kidney(15;0.00194)|KIRC - Kidney renal clear cell carcinoma(15;0.00218)		TTTTGCCAAAGCATCATATTC	0.313													6	123					0	0	1	0	0		A	63822025	A	A	63822025	3	1	27	1	0	0	0	0	1	0	0	0	15895	971	34	2	268	2	THOC7	3	63822025	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	355411	63822025	134200405	1755	24106											
ATXN7	6314	broad.mit.edu	37	chr3	63975959	63975959	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgagccagcttctcggtTatccagtgaggagggcgaag	9	8	14	10	2	1	2	0	2	1	0	3	4	2	3	2	3	2	2	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:63975959T>C	uc003dlw.3	+	10	2022	c.1469T>C	c.(1468-1470)TTA>TCA	p.L490S	ATXN7_uc003dlv.2_Missense_Mutation_p.L490S|ATXN7_uc010hnv.2_Missense_Mutation_p.L490S|ATXN7_uc011bfn.1_Missense_Mutation_p.L345S	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	490					cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		GCTTCTCGGTTATCCAGTGAG	0.552													5	68					0	0	1	0	0		C	63975959	C	C	63975959	3	2	27	1	0	0	0	0	1	0	0	0	1216	1764	61	3	1567	3	ATXN7	3	63975959	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	153934	63975959	134046471	1756	24107											
PRICKLE2	166336	broad.mit.edu	37	chr3	64184539	64184539	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatctgaggtcgagttcCtctgaaagtcaaacatgagt	12	11	9	9	1	4	3	2	3	2	0	6	4	5	3	1	1	1	1	1	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:64184539C>A	uc003dmf.2	-	2	651	c.65G>T	c.(64-66)AGG>ATG	p.R22M		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	22	PET.					cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		GGTCGAGTTCCTCTGAAAGTC	0.542													23	45					3.62473e-10	4.01013e-10	1	1	0		A	64184539	A	A	64184539	3	1	27	1	0	0	0	0	1	0	0	0	12509	681	24	5	2497	5	PRICKLE2	3	64184539	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	208580	64184539	133837891	1757	24108											
ADAMTS9	56999	broad.mit.edu	37	chr3	64587866	64587866	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcacttgccgggttgccctAccttgcccacaggtcacaga	8	9	9	15	1	2	1	2	0	0	1	2	1	2	1	4	2	4	1	4	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:64587866A>G	uc003dmg.2	-	26	3803	c.3771T>C	c.(3769-3771)GGT>GGC	p.G1257G	ADAMTS9_uc011bfo.1_Silent_p.G1229G|ADAMTS9_uc003dmh.1_Silent_p.G1086G|ADAMTS9_uc011bfp.1_Silent_p.G168G	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1257	TSP type-1 8.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		GGGTTGCCCTACCTTGCCCAC	0.473													6	102					0	0	1	0	0		G	64587866	G	G	64587866	2	3	27	1	0	0	0	0	0	0	0	1	273	378	14	3		3	ADAMTS9	3	64587866	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	403327	64587866	133434564	1758	24109											
ADAMTS9	56999	broad.mit.edu	37	chr3	64589923	64589923	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtccaagacccaaatcGccactgggttcttggtgcac	8	9	12	12	1	1	1	0	0	1	1	3	1	2	1	3	4	1	2	3	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:64589923G>A	uc003dmg.2	-	24	3591	c.3559C>T	c.(3559-3561)CGA>TGA	p.R1187*	ADAMTS9_uc011bfo.1_Nonsense_Mutation_p.R1159*|ADAMTS9_uc003dmh.1_Nonsense_Mutation_p.R1016*|ADAMTS9_uc011bfp.1_Nonsense_Mutation_p.R98*	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1187	TSP type-1 7.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		GACCCAAATCGCCACTGGGTT	0.532													15	63					0	0	1	0	0		A	64589923	A	A	64589923	4	1	27	1	0	0	0	0	0	1	0	0	273	1095	38	1	2312	1	ADAMTS9	3	64589923	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2057	64589923	133432507	1759	24110											
ADAMTS9	56999	broad.mit.edu	37	chr3	64608121	64608121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaaagttcttgctcaatgCgatctgttgagttaattctt	10	16	8	7	1	4	1	1	1	3	0	4	2	4	1	0	0	2	5	0	0	4	6	rs148570059		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:64608121C>T	uc003dmg.2	-	17	2563	c.2531G>A	c.(2530-2532)CGC>CAC	p.R844H	ADAMTS9_uc011bfo.1_Missense_Mutation_p.R816H|ADAMTS9_uc003dmh.1_Missense_Mutation_p.R673H|ADAMTS9_uc003dmk.1_Missense_Mutation_p.R844H	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	844	Spacer.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		TTGCTCAATGCGATCTGTTGA	0.453													4	85					0	0	1	0	0		T	64608121	T	T	64608121	3	4	27	1	0	0	0	0	1	0	0	0	273	768	27	1	3368	1	ADAMTS9	3	64608121	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18198	64608121	133414309	1760	24111											
ADAMTS9	56999	broad.mit.edu	37	chr3	64627598	64627598	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagcaggttccaaagggactCcaacttccccaggatccatc	11	7	9	14	0	0	0	0	0	0	0	5	3	4	2	5	3	2	2	5	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:64627598C>T	uc003dmg.2	-	12	1814	c.1782G>A	c.(1780-1782)TGG>TGA	p.W594*	ADAMTS9_uc011bfo.1_Nonsense_Mutation_p.W566*|ADAMTS9_uc003dmh.1_Nonsense_Mutation_p.W423*|ADAMTS9_uc003dmk.1_Nonsense_Mutation_p.W594*	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	594	TSP type-1 1.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CAAAGGGACTCCAACTTCCCC	0.463													7	131					0	0	1	0	0		T	64627598	T	T	64627598	4	4	27	1	0	0	0	0	0	1	0	0	273	856	30	4	4137	4	ADAMTS9	3	64627598	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	19477	64627598	133394832	1761	24112											
MAGI1	9223	broad.mit.edu	37	chr3	65416466	65416466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcatcccctccaaccaccGtgaagccaaagccacgactg	11	6	7	17	2	1	1	1	1	0	0	3	2	3	1	7	0	3	1	7	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:65416466G>A	uc003dmn.2	-	11	1980	c.1454C>T	c.(1453-1455)ACG>ATG	p.T485M	MAGI1_uc003dmm.2_Missense_Mutation_p.T485M|MAGI1_uc003dmo.2_Missense_Mutation_p.T485M|MAGI1_uc003dmp.2_Missense_Mutation_p.T485M|MAGI1_uc010hny.2_Missense_Mutation_p.T370M	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	485	PDZ 2.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		TCCAACCACCGTGAAGCCAAA	0.483													7	83					0	0	1	0	0		A	65416466	A	A	65416466	3	1	27	1	0	0	0	0	1	0	0	0	9208	1145	40	1	3220	1	MAGI1	3	65416466	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	788868	65416466	132605964	1762	24113											
LRIG1	26018	broad.mit.edu	37	chr3	66434438	66434438	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacagtcagggtggcattaGctgaaatagaaccggctgag	12	7	15	7	1	1	3	1	2	0	1	1	4	1	4	1	4	2	3	1	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:66434438G>T	uc003dmx.2	-	14	2062	c.2048C>A	c.(2047-2049)GCT>GAT	p.A683D	SLC25A26_uc011bft.1_Intron|LRIG1_uc011bfu.1_Missense_Mutation_p.A303D|LRIG1_uc003dmw.2_Missense_Mutation_p.A349D|LRIG1_uc010hnz.2_Missense_Mutation_p.A399D|LRIG1_uc010hoa.2_Intron	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	683	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		GGTGGCATTAGCTGAAATAGA	0.428													5	38					1.024e-07	1.12055e-07	1	1	0		T	66434438	T	T	66434438	3	4	27	1	0	0	0	0	1	0	0	0	8962	971	34	5	1257	5	LRIG1	3	66434438	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1017972	66434438	131587992	1763	24114											
LRIG1	26018	broad.mit.edu	37	chr3	66467619	66467619	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgatgttgttcaaactcAgatctaacacttctaaggaa	13	12	7	9	1	4	2	2	1	2	1	4	3	4	3	1	1	2	2	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:66467619A>C	uc003dmx.2	-	4	451	c.437T>G	c.(436-438)CTG>CGG	p.L146R	LRIG1_uc010hnz.2_5'UTR|LRIG1_uc010hoa.2_Missense_Mutation_p.L146R	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	146	Extracellular (Potential).|LRR 4.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		GTTCAAACTCAGATCTAACAC	0.532													12	228					0	0	1	0	0		C	66467619	C	C	66467619	3	2	27	1	0	0	0	0	1	0	0	0	8962	188	7	5	2908	5	LRIG1	3	66467619	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	33181	66467619	131554811	1764	24115											
KBTBD8	84541	broad.mit.edu	37	chr3	67054650	67054650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacgacagtagagagaattGttggacgactgtttgcgcga	11	10	13	7	4	0	2	0	0	0	2	0	7	0	3	0	1	2	3	0	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:67054650G>A	uc003dmy.2	+	3	1312	c.1259G>A	c.(1258-1260)TGT>TAT	p.C420Y	KBTBD8_uc011bfv.1_Intron	NM_032505	NP_115894	Q8NFY9	KBTB8_HUMAN	T-cell activation kelch repeat protein	420	Kelch 2.									ovary(2)|large_intestine(1)|breast(1)	4		Lung NSC(201;0.0765)		BRCA - Breast invasive adenocarcinoma(55;6.02e-06)|KIRC - Kidney renal clear cell carcinoma(39;0.105)|Kidney(39;0.125)		AGAGAGAATTGTTGGACGACT	0.418													14	140					0	0	1	0	0		A	67054650	A	A	67054650	3	1	27	1	0	0	0	0	1	0	0	0	8015	1377	48	4	1269	4	KBTBD8	3	67054650	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	587031	67054650	130967780	1765	24116											
SUCLG2	8801	broad.mit.edu	37	chr3	67426240	67426240	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggctgaagtaatggggagTccgctgttgttgagtatctt	8	14	14	5	1	1	2	0	2	1	0	2	3	2	3	1	3	0	6	1	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:67426240T>C	uc003dna.3	-	11	1255	c.1227A>G	c.(1225-1227)GGA>GGG	p.G409G	SUCLG2_uc010hob.2_Silent_p.G156G	NM_003848	NP_003839	Q96I99	SUCB2_HUMAN	succinate-CoA ligase, GDP-forming beta subunit	409					succinyl-CoA metabolic process|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|GTP binding|succinate-CoA ligase (GDP-forming) activity			central_nervous_system(1)|skin(1)	2		Renal(2;0.00294)|Lung NSC(201;0.012)|Hepatocellular(537;0.121)		BRCA - Breast invasive adenocarcinoma(55;3.53e-05)|Epithelial(33;0.000153)	Succinic acid(DB00139)	TAATGGGGAGTCCGCTGTTGT	0.512													4	38					0	0	1	0	0		C	67426240	C	C	67426240	2	2	27	1	0	0	0	0	0	0	0	1	15390	1654	58	3		3	SUCLG2	3	67426240	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	371590	67426240	130596190	1766	24117											
C3orf64	285203	broad.mit.edu	37	chr3	69050797	69050797	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatgttggtttttcaatgAcaatgtcacatttagcatct	12	17	6	6	0	3	1	2	1	1	0	3	1	3	1	0	1	1	3	0	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:69050797A>G	uc003dnl.2	-	9	1094	c.689T>C	c.(688-690)GTC>GCC	p.V230A	C3orf64_uc003dnj.2_5'UTR|C3orf64_uc003dnk.2_Missense_Mutation_p.V230A|C3orf64_uc011bfw.1_Intron|C3orf64_uc003dnm.1_Intron	NM_173654	NP_775925	Q5NDL2	AER61_HUMAN	AER61 glycosyltransferase	230						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)	1		Lung NSC(201;0.126)		BRCA - Breast invasive adenocarcinoma(55;4.61e-05)|Epithelial(33;0.000291)|LUSC - Lung squamous cell carcinoma(21;0.0127)|KIRC - Kidney renal clear cell carcinoma(39;0.216)		TTTTTCAATGACAATGTCACA	0.318													3	49					0	0	1	0	0		G	69050797	G	G	69050797	3	3	27	1	0	0	0	0	1	0	0	0	2243	275	10	3	670	3	C3orf64	3	69050797	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1624557	69050797	128971633	1767	24118											
LMOD3	56203	broad.mit.edu	37	chr3	69168050	69168050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcttcagcttcaccacccGgaaggagtcagggtctgtcc	7	10	10	14	1	5	0	3	0	2	0	7	2	6	2	3	3	1	1	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:69168050G>A	uc003dns.2	-	2	1665	c.1456C>T	c.(1456-1458)CGG>TGG	p.R486W	LMOD3_uc003dnt.2_Missense_Mutation_p.R486W	NM_198271	NP_938012	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	486						cytoplasm|cytoskeleton	tropomyosin binding			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		TTCACCACCCGGAAGGAGTCA	0.527													5	49					0	0	1	0	0		A	69168050	A	A	69168050	3	1	27	1	0	0	0	0	1	0	0	0	8875	1115	39	1	234	1	LMOD3	3	69168050	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	117253	69168050	128854380	1768	24119											
MITF	4286	broad.mit.edu	37	chr3	69928327	69928327	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctccaagcctccgataagCtcctccagtatgacatcacg	10	8	7	16	2	1	1	1	1	0	0	5	2	5	1	6	0	2	2	6	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:69928327C>A	uc003dnz.2	+	2	263	c.147C>A	c.(145-147)AGC>AGA	p.S49R	MITF_uc011bgb.1_5'UTR|MITF_uc003doa.2_Missense_Mutation_p.S48R|MITF_uc003dob.2_Missense_Mutation_p.S33R|MITF_uc003dod.2_Missense_Mutation_p.S24R|MITF_uc003doc.1_RNA	NM_198159	NP_937802	O75030	MITF_HUMAN	microphthalmia-associated transcription factor	49					melanocyte differentiation|multicellular organismal development|protein complex assembly	nucleus|protein complex	DNA binding|protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			ovary(2)	2		Lung NSC(201;0.0384)|Prostate(884;0.0526)		BRCA - Breast invasive adenocarcinoma(55;3.07e-05)|Epithelial(33;0.000138)|LUSC - Lung squamous cell carcinoma(21;0.008)|Lung(16;0.0107)|KIRC - Kidney renal clear cell carcinoma(39;0.204)|Kidney(39;0.239)		CTCCGATAAGCTCCTCCAGTA	0.552			A		melanoma 		Waardenburg syndrome type 2|Tietz syndrome						6	57					2.7689e-08	3.04041e-08	1	1	0		A	69928327	A	A	69928327	3	1	27	1	0	0	0	0	1	0	0	0	9614	796	28	5	318	5	MITF	3	69928327	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	760277	69928327	128094103	1769	24120											
MITF	4286	broad.mit.edu	37	chr3	69987112	69987112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccatgtccaaaccagcctgGcgatcatgtcatgccaccgg	9	7	10	15	2	2	0	2	0	0	0	3	1	3	0	6	2	3	0	6	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:69987112G>A	uc003dnz.2	+	3	610	c.494G>A	c.(493-495)GGC>GAC	p.G165D	MITF_uc011bgb.1_Missense_Mutation_p.G113D|MITF_uc003doa.2_Missense_Mutation_p.G164D|MITF_uc003dob.2_Missense_Mutation_p.G149D|MITF_uc003dod.2_Missense_Mutation_p.G140D|MITF_uc003doe.2_Missense_Mutation_p.G58D|MITF_uc003dof.2_Missense_Mutation_p.G58D	NM_198159	NP_937802	O75030	MITF_HUMAN	microphthalmia-associated transcription factor	165					melanocyte differentiation|multicellular organismal development|protein complex assembly	nucleus|protein complex	DNA binding|protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			ovary(2)	2		Lung NSC(201;0.0384)|Prostate(884;0.0526)		BRCA - Breast invasive adenocarcinoma(55;3.07e-05)|Epithelial(33;0.000138)|LUSC - Lung squamous cell carcinoma(21;0.008)|Lung(16;0.0107)|KIRC - Kidney renal clear cell carcinoma(39;0.204)|Kidney(39;0.239)		AACCAGCCTGGCGATCATGTC	0.522			A		melanoma 		Waardenburg syndrome type 2|Tietz syndrome						5	72					0	0	1	0	0		A	69987112	A	A	69987112	3	1	27	1	0	0	0	0	1	0	0	0	9614	1203	42	2	706	2	MITF	3	69987112	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	58785	69987112	128035318	1770	24121											
FOXP1	27086	broad.mit.edu	37	chr3	71015100	71015100	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgttgctgttggtatgctcCattgccccgttcagctcttc	3	16	9	13	2	2	0	1	0	1	0	5	0	3	0	3	1	4	7	3	1	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:71015100C>A	uc003dol.2	-	16	2153	c.1830G>T	c.(1828-1830)ATG>ATT	p.M610I	FOXP1_uc003dom.2_Missense_Mutation_p.M534I|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Missense_Mutation_p.M609I|FOXP1_uc003dop.2_Missense_Mutation_p.M610I|FOXP1_uc003doq.1_Intron|FOXP1_uc003doi.2_Missense_Mutation_p.M510I|FOXP1_uc003doj.2_Missense_Mutation_p.M510I|FOXP1_uc003dok.2_Missense_Mutation_p.M423I	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	610					cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		TGGTATGCTCCATTGCCCCGT	0.517			T	PAX5	ALL								18	159					1.9806e-07	2.16337e-07	1	1	0		A	71015100	A	A	71015100	3	1	27	1	0	0	0	0	1	0	0	0	6040	594	21	5	211	5	FOXP1	3	71015100	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1027988	71015100	127007330	1771	24122											
FOXP1	27086	broad.mit.edu	37	chr3	71026102	71026102	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaagcttaccttccacgtgGccgcgttgcgtcggaagtaa	9	9	12	11	5	0	0	0	0	0	0	2	2	1	1	3	2	3	3	3	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:71026102G>C	uc003dol.2	-	13	1843	c.1520C>G	c.(1519-1521)GCC>GGC	p.A507G	FOXP1_uc003dom.2_Missense_Mutation_p.A431G|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Missense_Mutation_p.A506G|FOXP1_uc003dop.2_Missense_Mutation_p.A507G|FOXP1_uc003doq.1_Intron|FOXP1_uc003doi.2_Missense_Mutation_p.A407G|FOXP1_uc003doj.2_Missense_Mutation_p.A407G|FOXP1_uc003dok.2_Missense_Mutation_p.A320G|FOXP1_uc003dor.1_Missense_Mutation_p.A284G	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	507	Fork-head.				cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		CTTCCACGTGGCCGCGTTGCG	0.433			T	PAX5	ALL								5	74					0	0	1	0	0		C	71026102	C	C	71026102	3	2	27	1	0	0	0	0	1	0	0	0	6040	1203	42	5	533	5	FOXP1	3	71026102	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11002	71026102	126996328	1772	24123											
PPP4R2	151987	broad.mit.edu	37	chr3	73047252	73047252	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaagagggggaaaaaggAagtttgtcctgtcctggatc	12	9	15	5	0	0	2	0	1	0	2	3	6	2	5	2	4	0	1	2	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:73047252A>T	uc003dph.1	+	2	129	c.59A>T	c.(58-60)GAA>GTA	p.E20V	PPP4R2_uc003dpi.1_Missense_Mutation_p.E20V	NM_174907	NP_777567	Q9NY27	PP4R2_HUMAN	protein phosphatase 4, regulatory subunit 2	20					mRNA processing|protein modification process|regulation of double-strand break repair via homologous recombination|RNA splicing	centrosome|nucleus|protein phosphatase 4 complex	protein binding, bridging|protein phosphatase type 4 regulator activity			lung(1)	1		Prostate(10;0.0187)|Lung SC(41;0.236)		Epithelial(33;1.76e-07)|BRCA - Breast invasive adenocarcinoma(55;9.42e-05)|LUSC - Lung squamous cell carcinoma(21;0.00211)|Lung(16;0.00643)|KIRC - Kidney renal clear cell carcinoma(39;0.0164)|Kidney(39;0.0193)|OV - Ovarian serous cystadenocarcinoma(275;0.031)		GGGAAAAAGGAAGTTTGTCCT	0.378													22	209					0	0	1	0	0		T	73047252	T	T	73047252	3	4	27	1	0	0	0	0	1	0	0	0	12426	246	9	5	65	5	PPP4R2	3	73047252	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2021150	73047252	124975178	1773	24124											
PDZRN3	23024	broad.mit.edu	37	chr3	73432638	73432638	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattttcttattcctcttctTcatcatctttttgtggctca	5	22	4	10	0	7	0	3	0	4	0	8	1	8	0	1	1	0	1	1	1	1	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:73432638T>C	uc003dpl.1	-	10	3175	c.3079A>G	c.(3079-3081)AAG>GAG	p.K1027E	PDZRN3_uc011bgh.1_Missense_Mutation_p.K684E|PDZRN3_uc010hoe.1_Missense_Mutation_p.K725E|PDZRN3_uc011bgf.1_Missense_Mutation_p.K744E|PDZRN3_uc011bgg.1_Missense_Mutation_p.K747E	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	1027							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		TTCCTCTTCTTCATCATCTTT	0.453													15	241					0	0	1	0	0		C	73432638	C	C	73432638	3	2	27	1	0	0	0	0	1	0	0	0	11728	1792	62	3	125	3	PDZRN3	3	73432638	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	385386	73432638	124589792	1774	24125											
PDZRN3	23024	broad.mit.edu	37	chr3	73433389	73433389	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctctcctcaaggagttGtcgggggagatctccagggt	6	9	15	11	2	3	1	1	0	2	1	6	3	3	2	3	4	0	2	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:73433389G>A	uc003dpl.1	-	10	2424	c.2328C>T	c.(2326-2328)GAC>GAT	p.D776D	PDZRN3_uc011bgh.1_Silent_p.D433D|PDZRN3_uc010hoe.1_Silent_p.D474D|PDZRN3_uc011bgf.1_Silent_p.D493D|PDZRN3_uc011bgg.1_Silent_p.D496D	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	776							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		TCAAGGAGTTGTCGGGGGAGA	0.652													4	49					0	0	1	0	0		A	73433389	A	A	73433389	2	1	27	1	0	0	0	0	0	0	0	1	11728	1368	48	4		4	PDZRN3	3	73433389	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	751	73433389	124589041	1775	24126											
CNTN3	5067	broad.mit.edu	37	chr3	74383974	74383974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaagatgatgtctaacagcGggtcatgttgtacctggcag	11	11	12	7	1	2	2	1	1	1	1	2	2	2	2	1	2	3	3	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:74383974G>A	uc003dpm.1	-	12	1660	c.1580C>T	c.(1579-1581)CCG>CTG	p.P527L		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	527	Ig-like C2-type 6.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		GTCTAACAGCGGGTCATGTTG	0.418													6	72					0	0	1	0	0		A	74383974	A	A	74383974	3	1	27	1	0	0	0	0	1	0	0	0	3645	1116	39	1	1550	1	CNTN3	3	74383974	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	950585	74383974	123638456	1776	24127											
CNTN3	5067	broad.mit.edu	37	chr3	74420395	74420395	+	Missense_Mutation	SNP	T	G	G																															agagcccagcactcgggcatTtgtcaccatacttgtcacca																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:74420395T>G	uc003dpm.1	-	5	690	c.610A>C	c.(610-612)AAT>CAT	p.N204H		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	204	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		ACTCGGGCATTTGTCACCATA	0.502													22	39					0	0	1	0	0		G	74420395	G	G	74420395	3	3	27	1	0	0	0	0	1	0	0	0	3645	1841	64	5	2548	5	CNTN3	3	74420395	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	36421	74420395	123602035	1777	24128	44	2									
CNTN3	5067	broad.mit.edu	37	chr3	74420400	74420400	+	Missense_Mutation	SNP	A	G	G																															ccagcactcgggcatttgtcAccatacttgtcaccacacat																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:74420400A>G	uc003dpm.1	-	5	685	c.605T>C	c.(604-606)GTG>GCG	p.V202A		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	202	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		GGCATTTGTCACCATACTTGT	0.493													3	62					0	0	1	0	0		G	74420400	G	G	74420400	3	3	27	1	0	0	0	0	1	0	0	0	3645	159	6	3	2553	3	CNTN3	3	74420400	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5	74420400	123602030	1778	24129	44	2									
ROBO2	6092	broad.mit.edu	37	chr3	77530337	77530337	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaccaatatggtgggagaaAgggacagtgacccagcagag	14	5	15	7	0	0	3	0	1	0	2	0	5	0	4	2	3	2	2	2	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:77530337A>G	uc003dpy.3	+	4	1277	c.634A>G	c.(634-636)AGG>GGG	p.R212G	ROBO2_uc003dpz.2_Missense_Mutation_p.R212G|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.R212G	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	212	Ig-like C2-type 2.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		GGTGGGAGAAAGGGACAGTGA	0.343													16	228					0	0	1	0	0		G	77530337	G	G	77530337	3	3	27	1	0	0	0	0	1	0	0	0	13539	63	3	3	650	3	ROBO2	3	77530337	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3109937	77530337	120492093	1779	24130											
ROBO2	6092	broad.mit.edu	37	chr3	77629161	77629161	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggatgcagccattcggTccgtaataattggtggatta	9	13	12	7	2	0	0	0	0	0	0	2	2	1	2	2	4	2	2	2	4	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:77629161T>A	uc003dpy.3	+	16	3035	c.2392T>A	c.(2392-2394)TCC>ACC	p.S798T	ROBO2_uc003dpz.2_Missense_Mutation_p.S802T|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.S802T	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	798	Fibronectin type-III 3.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		AGCCATTCGGTCCGTAATAAT	0.438													7	96					0	0	1	0	0		A	77629161	A	A	77629161	3	1	27	1	0	0	0	0	1	0	0	0	13539	1667	58	5	2456	5	ROBO2	3	77629161	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	98824	77629161	120393269	1780	24131											
ROBO2	6092	broad.mit.edu	37	chr3	77684140	77684140	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccactaaaaaacacaagggaGggcggatggaccaacaacca	18	2	10	11	1	0	0	0	0	0	0	0	3	0	3	3	4	3	0	3	4	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:77684140G>T	uc003dpy.3	+	24	4523	c.3880G>T	c.(3880-3882)GGG>TGG	p.G1294W	ROBO2_uc003dpz.2_Missense_Mutation_p.G1359W|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.G1298W	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1294	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		ACACAAGGGAGGGCGGATGGA	0.512													10	98					0.000673444	0.000703801	1	1	0		T	77684140	T	T	77684140	3	4	27	1	0	0	0	0	1	0	0	0	13539	1000	35	5	3976	5	ROBO2	3	77684140	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	54979	77684140	120338290	1781	24132											
ROBO1	6091	broad.mit.edu	37	chr3	78680329	78680329	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctttcatctacagaaatgTtgtactcttcgctattgctg	9	16	6	10	1	3	1	1	0	2	1	4	1	3	1	1	0	3	4	1	0	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:78680329T>C	uc003dqe.2	-	25	3816	c.3608A>G	c.(3607-3609)AAC>AGC	p.N1203S	ROBO1_uc003dqb.2_Missense_Mutation_p.N1164S|ROBO1_uc003dqc.2_Missense_Mutation_p.N1103S|ROBO1_uc003dqd.2_Missense_Mutation_p.N1158S|ROBO1_uc010hoh.2_Missense_Mutation_p.N395S|ROBO1_uc011bgl.1_Missense_Mutation_p.N775S	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1203	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TACAGAAATGTTGTACTCTTC	0.453													3	32					0	0	1	0	0		C	78680329	C	C	78680329	3	2	27	1	0	0	0	0	1	0	0	0	13538	1725	60	3	1375	3	ROBO1	3	78680329	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	996189	78680329	119342101	1782	24133											
ROBO1	6091	broad.mit.edu	37	chr3	78763600	78763600	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcccaccatattttctgcaAcacaagtgtatgaacccatg	12	11	6	12	0	1	1	0	1	1	0	1	1	1	1	3	0	4	2	3	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:78763600A>G	uc003dqe.2	-	8	1200	c.992T>C	c.(991-993)GTT>GCT	p.V331A	ROBO1_uc003dqb.2_Missense_Mutation_p.V292A|ROBO1_uc003dqc.2_Missense_Mutation_p.V292A|ROBO1_uc003dqd.2_Missense_Mutation_p.V292A|ROBO1_uc003dqf.1_Missense_Mutation_p.V7A	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	331	Extracellular (Potential).|Ig-like C2-type 3.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		ATTTTCTGCAACACAAGTGTA	0.398													12	61					0	0	1	0	0		G	78763600	G	G	78763600	3	3	27	1	0	0	0	0	1	0	0	0	13538	43	2	3	4072	3	ROBO1	3	78763600	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	83271	78763600	119258830	1783	24134											
POU1F1	5449	broad.mit.edu	37	chr3	87313466	87313466	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcgtctcactttaaattcAttggcaaacttttcaagttc	11	17	4	9	1	3	0	3	0	1	0	6	0	3	0	0	1	1	2	0	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:87313466A>G	uc003dqq.1	-	3	536	c.411T>C	c.(409-411)AAT>AAC	p.N137N	POU1F1_uc010hoj.1_Silent_p.N163N	NM_000306	NP_000297	P28069	PIT1_HUMAN	pituitary specific transcription factor 1	137	POU-specific.				negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)|skin(1)	2	all_cancers(8;0.104)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00229)|Lung(72;0.00677)		CTTTAAATTCATTGGCAAACT	0.358													11	118					0	0	1	0	0		G	87313466	G	G	87313466	2	3	27	1	0	0	0	0	0	0	0	1	12288	214	8	3		3	POU1F1	3	87313466	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8549866	87313466	110708964	1784	24135											
HTR1F	3355	broad.mit.edu	37	chr3	88040099	88040099	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaatttgttcccttgcagTcacagattttcttgtggctg	6	19	8	8	0	2	1	1	0	1	1	3	1	3	1	1	1	1	3	1	1	1	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:88040099T>C	uc003dqr.2	+	2	358	c.200T>C	c.(199-201)GTC>GCC	p.V67A		NM_000866	NP_000857	P30939	5HT1F_HUMAN	5-hydroxytryptamine (serotonin) receptor 1F	67	Helical; Name=2; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	serotonin binding|serotonin receptor activity			ovary(3)	3	all_cancers(8;0.147)	Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00664)	Eletriptan(DB00216)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Zolmitriptan(DB00315)	TCCCTTGCAGTCACAGATTTT	0.463													5	131					0	0	1	0	0		C	88040099	C	C	88040099	3	2	27	1	0	0	0	0	1	0	0	0	7456	1667	58	3	202	3	HTR1F	3	88040099	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	726633	88040099	109982331	1785	24136											
C3orf38	285237	broad.mit.edu	37	chr3	88205231	88205231	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgcctaggagaagaattcTgtcattggttctttggactt	8	15	11	7	1	3	2	1	0	2	2	4	4	3	3	1	3	0	1	1	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:88205231T>C	uc003dqw.2	+	4	747	c.436T>C	c.(436-438)TGT>CGT	p.C146R		NM_173824	NP_776185	Q5JPI3	CC038_HUMAN	hypothetical protein LOC285237	146					apoptosis						0		Lung NSC(201;0.17)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		AGAAGAATTCTGTCATTGGTT	0.368													5	50					0	0	1	0	0		C	88205231	C	C	88205231	3	2	27	1	0	0	0	0	1	0	0	0	2231	1580	55	3	446	3	C3orf38	3	88205231	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	165132	88205231	109817199	1786	24137											
EPHA3	2042	broad.mit.edu	37	chr3	89391057	89391057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaatataaaacagtgtgagCcatgcagcccaaatgtccgc	14	7	10	10	1	0	1	0	1	0	0	1	2	1	2	3	1	4	1	3	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:89391057C>T	uc003dqy.2	+	5	1348	c.1123C>T	c.(1123-1125)CCA>TCA	p.P375S	EPHA3_uc003dqx.1_Missense_Mutation_p.P375S|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	375	Extracellular (Potential).|Fibronectin type-III 1.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		ACAGTGTGAGCCATGCAGCCC	0.488										TSP Lung(6;0.00050)			14	67					0	0	1	0	0		T	89391057	T	T	89391057	3	4	27	1	0	0	0	0	1	0	0	0	5176	739	26	2	1141	2	EPHA3	3	89391057	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1185826	89391057	108631373	1787	24138											
EPHA3	2042	broad.mit.edu	37	chr3	89498434	89498434	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcctaccgcaagttcacGtcagccagcgatgtatggag	11	8	11	11	3	2	0	2	0	0	0	2	2	2	1	3	1	4	3	3	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:89498434G>A	uc003dqy.2	+	14	2631	c.2406G>A	c.(2404-2406)ACG>ACA	p.T802T	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	802	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		GCAAGTTCACGTCAGCCAGCG	0.438										TSP Lung(6;0.00050)			15	104					0	0	1	0	0		A	89498434	A	A	89498434	2	1	27	1	0	0	0	0	0	0	0	1	5176	1132	40	1		1	EPHA3	3	89498434	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	107377	89498434	108523996	1788	24139											
STX19	415117	broad.mit.edu	37	chr3	93733654	93733654	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgctttgctgctattgTgtcattgtatataaacatga	9	18	7	7	0	2	1	1	1	1	0	2	1	2	1	0	0	4	4	0	0	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:93733654T>C	uc003drh.1	-	2	717	c.460A>G	c.(460-462)ACA>GCA	p.T154A	ARL13B_uc003drc.2_Intron|ARL13B_uc010hop.2_Intron|ARL13B_uc003drd.2_Intron|ARL13B_uc003dre.2_Intron|ARL13B_uc003drf.2_Intron|ARL13B_uc003drg.2_Intron	NM_001001850	NP_001001850	Q8N4C7	STX19_HUMAN	syntaxin 19	154					intracellular protein transport|vesicle-mediated transport	membrane	SNAP receptor activity				0						GCTGCTATTGTGTCATTGTAT	0.378													13	139					0	0	1	0	0		C	93733654	C	C	93733654	3	2	27	1	0	0	0	0	1	0	0	0	15367	1696	59	3	428	3	STX19	3	93733654	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4235220	93733654	104288776	1789	24140											
EPHA6	285220	broad.mit.edu	37	chr3	96706583	96706583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttttcaagacattggggCgtgcattgccctggtttcag	6	13	13	9	1	2	1	2	0	0	1	2	1	2	1	1	4	2	3	1	4	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:96706583C>T	uc010how.1	+	3	903	c.860C>T	c.(859-861)GCG>GTG	p.A287V	EPHA6_uc003drp.1_Missense_Mutation_p.A287V	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	192	Ephrin-binding.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						GACATTGGGGCGTGCATTGCC	0.458													7	342					0	0	1	0	0		T	96706583	T	T	96706583	3	4	27	1	0	0	0	0	1	0	0	0	5179	768	27	1	870	1	EPHA6	3	96706583	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2972929	96706583	101315847	1790	24141											
EPHA6	285220	broad.mit.edu	37	chr3	96945107	96945107	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtttttttctctttttacaGcttgcagaccaggattctat	7	20	6	8	0	2	1	0	0	2	1	3	2	2	2	1	1	3	3	1	1	2	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:96945107G>A	uc010how.1	+	4	1158	c.1115_splice	c.e4-1	p.A372_splice	EPHA6_uc003drp.1_Splice_Site_p.A372_splice	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a							integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						TCTTTTTACAGCTTGCAGACC	0.323													7	76					0	0	1	0	0		A	96945107	A	A	96945107	5	1	27	1	0	0	0	0	0	0	1	0	5179	985	34	2	1128	2	EPHA6	3	96945107	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	238524	96945107	101077323	1791	24142											
EPHA6	285220	broad.mit.edu	37	chr3	97251327	97251327	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagattttctaagagaagctAgtatcatgggccagtttgac	12	12	11	6	0	2	3	1	1	1	2	2	5	2	3	1	1	1	3	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:97251327A>G	uc010how.1	+	11	2369	c.2326A>G	c.(2326-2328)AGT>GGT	p.S776G	EPHA6_uc011bgo.1_RNA|EPHA6_uc011bgp.1_Missense_Mutation_p.S142G|EPHA6_uc003drs.3_Missense_Mutation_p.S168G|EPHA6_uc003drr.3_Missense_Mutation_p.S168G|EPHA6_uc003drt.2_Missense_Mutation_p.S168G|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	681	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						AAGAGAAGCTAGTATCATGGG	0.428													15	66					0	0	1	0	0		G	97251327	G	G	97251327	3	3	27	1	0	0	0	0	1	0	0	0	5179	420	15	3	2436	3	EPHA6	3	97251327	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	306220	97251327	100771103	1792	24143											
CRYBG3	131544	broad.mit.edu	37	chr3	97596328	97596328	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgacagctcacaggaggAcattctatctagtgaggttt	11	11	12	7	0	3	2	1	2	2	0	3	5	3	5	0	4	1	2	0	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:97596328A>T	uc003drx.2	+	1	510	c.446A>T	c.(445-447)GAC>GTC	p.D149V		NM_153605	NP_705833			beta-gamma crystallin domain containing 3												0						TCACAGGAGGACATTCTATCT	0.433													9	108					0	0	1	0	0		T	97596328	T	T	97596328	3	4	27	1	0	0	0	0	1	0	0	0	3916	275	10	5	448	5	CRYBG3	3	97596328	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	345001	97596328	100426102	1793	24144											
MINA	84864	broad.mit.edu	37	chr3	97680537	97680537	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattccagcttctcctggaTcctccaaagctcatccttta	9	13	4	15	0	2	0	1	0	1	0	7	1	6	1	5	1	2	2	5	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:97680537T>A	uc003drz.1	-	3	954	c.448A>T	c.(448-450)ATC>TTC	p.I150F	MINA_uc003dsa.1_Missense_Mutation_p.I150F|MINA_uc003dsb.1_Missense_Mutation_p.I150F|MINA_uc003dsc.1_Missense_Mutation_p.I150F|MINA_uc010hpa.1_RNA|MINA_uc010hpb.1_RNA	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	150	JmjC.				ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1						TTCTCCTGGATCCTCCAAAGC	0.443													10	88					0	0	1	0	0		A	97680537	A	A	97680537	3	1	27	1	0	0	0	0	1	0	0	0	9604	1435	50	5	981	5	MINA	3	97680537	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	84209	97680537	100341893	1794	24145											
OR5AC2	81050	broad.mit.edu	37	chr3	97806045	97806045	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagagggaaataagactcTtgtgacagagtttgttctca	13	12	10	6	0	3	4	2	1	2	3	4	5	3	5	0	1	0	2	0	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:97806045T>C	uc011bgs.1	+	1	29	c.29T>C	c.(28-30)CTT>CCT	p.L10P		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AATAAGACTCTTGTGACAGAG	0.403													6	149					0	0	1	0	0		C	97806045	C	C	97806045	3	2	27	1	0	0	0	0	1	0	0	0	11160	1609	56	3	31	3	OR5AC2	3	97806045	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	125508	97806045	100216385	1795	24146											
OR5H14	403273	broad.mit.edu	37	chr3	97868324	97868324	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccctgttcctggcattctTggtaatatatctcatcacca	9	14	5	13	0	3	0	2	0	2	0	5	0	4	0	4	2	0	3	4	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:97868324T>C	uc003dsg.1	+	1	95	c.95T>C	c.(94-96)TTG>TCG	p.L32S		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CTGGCATTCTTGGTAATATAT	0.418													16	231					0	0	1	0	0		C	97868324	C	C	97868324	3	2	27	1	0	0	0	0	1	0	0	0	11179	1821	63	3	97	3	OR5H14	3	97868324	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	62279	97868324	100154106	1796	24147											
OR5H6	79295	broad.mit.edu	37	chr3	97983222	97983222	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacagagtttgttctcacaGgatttttacatcaacctgac	11	14	7	9	0	2	3	2	2	1	1	3	4	2	4	1	1	2	2	1	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:97983222G>T	uc003dsi.1	+	1	94	c.94G>T	c.(94-96)GGA>TGA	p.G32*		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	32	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						TGTTCTCACAGGATTTTTACA	0.393													19	219					2.37509e-13	2.64786e-13	1	1	0		T	97983222	T	T	97983222	4	4	27	1	0	0	0	0	0	1	0	0	11182	1001	35	5	96	5	OR5H6	3	97983222	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	114898	97983222	100039208	1797	24148											
OR5H6	79295	broad.mit.edu	37	chr3	97983483	97983483	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcatggtacaattttttTcccttgtaaccactgtaacc	11	15	5	10	0	0	0	0	0	0	0	1	0	1	0	3	1	4	4	3	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:97983483T>C	uc003dsi.1	+	1	355	c.355T>C	c.(355-357)TCC>CCC	p.S119P		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						ACAATTTTTTTCCCTTGTAAC	0.388													16	158					0	0	1	0	0		C	97983483	C	C	97983483	3	2	27	1	0	0	0	0	1	0	0	0	11182	1783	62	3	357	3	OR5H6	3	97983483	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	261	97983483	100038947	1798	24149											
OR5H2	79310	broad.mit.edu	37	chr3	98002053	98002053	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcatgattcaattttttTcctttgcatttggtggaact	9	19	7	6	0	1	1	1	1	0	0	2	2	2	2	1	2	3	2	1	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:98002053T>C	uc003dsj.1	+	1	322	c.322T>C	c.(322-324)TCC>CCC	p.S108P		NM_001005482	NP_001005482	Q8NGV7	OR5H2_HUMAN	olfactory receptor, family 5, subfamily H,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3						TCAATTTTTTTCCTTTGCATT	0.363													11	139					0	0	1	0	0		C	98002053	C	C	98002053	3	2	27	1	0	0	0	0	1	0	0	0	11181	1783	62	3	324	3	OR5H2	3	98002053	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18570	98002053	100020377	1799	24150											
OR5H2	79310	broad.mit.edu	37	chr3	98002164	98002164	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgattatgaacaattcaCtatgcatacggctgttagcc	12	12	8	9	1	1	2	1	2	0	0	1	2	1	2	1	1	4	3	1	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:98002164C>T	uc003dsj.1	+	1	433	c.433C>T	c.(433-435)CTA>TTA	p.L145L		NM_001005482	NP_001005482	Q8NGV7	OR5H2_HUMAN	olfactory receptor, family 5, subfamily H,	145	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3						GAACAATTCACTATGCATACG	0.378													5	72					0	0	1	0	0		T	98002164	T	T	98002164	2	4	27	1	0	0	0	0	0	0	0	1	11181	564	20	4		4	OR5H2	3	98002164	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	111	98002164	100020266	1800	24151											
OR5K2	402135	broad.mit.edu	37	chr3	98217044	98217044	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctgtggattgaatcacAtcaaccacttttactgtgat	10	17	6	8	0	3	2	2	2	1	0	3	3	3	3	1	1	2	0	1	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:98217044A>G	uc011bgx.1	+	1	520	c.520A>G	c.(520-522)ATC>GTC	p.I174V		NM_001004737	NP_001004737	Q8NHB8	OR5K2_HUMAN	olfactory receptor, family 5, subfamily K,	174	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						ATTGAATCACATCAACCACTT	0.413													19	218					0	0	1	0	0		G	98217044	G	G	98217044	3	3	27	1	0	0	0	0	1	0	0	0	11186	217	8	3	522	3	OR5K2	3	98217044	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	214880	98217044	99805386	1801	24152											
GPR15	2838	broad.mit.edu	37	chr3	98251463	98251463	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaattaaactcatatggTccctggtggccttaattttc	9	15	6	11	0	1	0	1	0	0	0	4	0	3	0	3	3	1	0	3	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:98251463T>C	uc011bgy.1	+	1	586	c.586T>C	c.(586-588)TCC>CCC	p.S196P		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	196	Helical; Name=5; (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		ACTCATATGGTCCCTGGTGGC	0.473													6	108					0	0	1	0	0		C	98251463	C	C	98251463	3	2	27	1	0	0	0	0	1	0	0	0	6670	1667	58	3	588	3	GPR15	3	98251463	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	34419	98251463	99770967	1802	24153											
ST3GAL6	10402	broad.mit.edu	37	chr3	98510729	98510729	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attattgccatcacattggcGttttacatatgtcacgaagt	11	15	7	8	2	2	0	2	0	0	0	2	1	2	0	1	1	2	1	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:98510729G>A	uc003dsz.2	+	9	1037	c.801G>A	c.(799-801)GCG>GCA	p.A267A	ST3GAL6_uc003dsy.2_Silent_p.A181A|ST3GAL6_uc003dta.2_Silent_p.A149A|ST3GAL6_uc003dtb.2_Silent_p.A123A|ST3GAL6_uc003dtc.2_Silent_p.A267A|ST3GAL6_uc010hpd.2_Silent_p.A320A	NM_006100	NP_006091	Q9Y274	SIA10_HUMAN	alpha2,3-sialyltransferase VI	267	Lumenal (Potential).				amino sugar metabolic process|glycolipid metabolic process|protein glycosylation|protein lipoylation	integral to Golgi membrane	sialyltransferase activity			ovary(1)	1						TCACATTGGCGTTTTACATAT	0.398													11	125					0	0	1	0	0		A	98510729	A	A	98510729	2	1	27	1	0	0	0	0	0	0	0	1	15244	1132	40	1		1	ST3GAL6	3	98510729	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	259266	98510729	99511701	1803	24154											
DCBLD2	131566	broad.mit.edu	37	chr3	98518401	98518401	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggagagaagtgtattgtAagttcccactagtgggggag	10	10	15	6	0	0	1	0	0	0	1	1	4	1	3	2	3	0	3	2	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:98518401A>G	uc003dtd.2	-	16	2506	c.2143T>C	c.(2143-2145)TAC>CAC	p.Y715H	DCBLD2_uc003dte.2_Missense_Mutation_p.Y729H	NM_080927	NP_563615	Q96PD2	DCBD2_HUMAN	discoidin, CUB and LCCL domain containing 2	715	Cytoplasmic (Potential).				cell adhesion|intracellular receptor mediated signaling pathway|negative regulation of cell growth|wound healing	cell surface|integral to plasma membrane				ovary(2)|central_nervous_system(1)	3						AGTGTATTGTAAGTTCCCACT	0.557													18	157					0	0	1	0	0		G	98518401	G	G	98518401	3	3	27	1	0	0	0	0	1	0	0	0	4284	362	13	3	188	3	DCBLD2	3	98518401	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7672	98518401	99504029	1804	24155											
COL8A1	1295	broad.mit.edu	37	chr3	99513553	99513553	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggccctgttggactgccaGgagtgggcaaaccaggagtg	8	6	16	11	1	0	0	0	0	0	0	0	3	0	3	4	5	2	2	4	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:99513553G>T	uc003dtg.1	+	5	1053	c.808G>T	c.(808-810)GGA>TGA	p.G270*	COL8A1_uc003dth.1_Nonsense_Mutation_p.G270*|COL8A1_uc003dti.1_Nonsense_Mutation_p.G271*	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	270	Triple-helical region (COL1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						TGGACTGCCAGGAGTGGGCAA	0.667													4	70					1.024e-07	1.12055e-07	1	1	0		T	99513553	T	T	99513553	4	4	27	1	0	0	0	0	0	1	0	0	3708	1001	35	5	814	5	COL8A1	3	99513553	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	995152	99513553	98508877	1805	24156											
FILIP1L	11259	broad.mit.edu	37	chr3	99567352	99567352	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggattttattatcctcagtAgttatcacacttgagctatt	10	18	6	7	0	2	1	2	1	0	0	3	2	3	2	1	1	1	3	1	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:99567352A>G	uc003dtm.2	-	5	3631	c.3168T>C	c.(3166-3168)ACT>ACC	p.T1056T	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Silent_p.T1056T|FILIP1L_uc010hpf.2_Silent_p.T632T|FILIP1L_uc010hpg.2_Silent_p.T816T|FILIP1L_uc003dtn.2_Silent_p.T816T|FILIP1L_uc003dtp.1_Silent_p.T816T	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	1056						cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						TATCCTCAGTAGTTATCACAC	0.483													20	176					0	0	1	0	0		G	99567352	G	G	99567352	2	3	27	1	0	0	0	0	0	0	0	1	5909	407	15	3		3	FILIP1L	3	99567352	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	53799	99567352	98455078	1806	24157											
FILIP1L	11259	broad.mit.edu	37	chr3	99568036	99568036	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgattctcactctcctcAtataactgaccattgatgac	10	15	4	12	0	4	4	2	4	3	0	6	4	4	4	2	0	1	0	2	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:99568036A>G	uc003dtm.2	-	5	2947	c.2484T>C	c.(2482-2484)TAT>TAC	p.Y828Y	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Silent_p.Y828Y|FILIP1L_uc010hpf.2_Silent_p.Y404Y|FILIP1L_uc010hpg.2_Silent_p.Y588Y|FILIP1L_uc003dtn.2_Silent_p.Y588Y|FILIP1L_uc003dtp.1_Silent_p.Y588Y	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	828						cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						CACTCTCCTCATATAACTGAC	0.433													21	170					0	0	1	0	0		G	99568036	G	G	99568036	2	3	27	1	0	0	0	0	0	0	0	1	5909	224	8	3		3	FILIP1L	3	99568036	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	684	99568036	98454394	1807	24158											
FILIP1L	11259	broad.mit.edu	37	chr3	99569857	99569857	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtggtgacccttttctcCttttcttgctccttctcctc	2	18	7	14	0	3	1	0	1	3	0	7	1	4	1	4	2	1	1	4	2	0	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:99569857C>A	uc003dtm.2	-	5	1126	c.663G>T	c.(661-663)AAG>AAT	p.K221N	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.K221N|FILIP1L_uc010hpf.2_Translation_Start_Site|FILIP1L_uc010hpg.2_Translation_Start_Site|FILIP1L_uc003dtn.2_Translation_Start_Site|FILIP1L_uc003dtp.1_Translation_Start_Site	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	221	Potential.					cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						CCCTTTTCTCCTTTTCTTGCT	0.423													9	134					0.000274275	0.000288501	1	1	0		A	99569857	A	A	99569857	3	1	27	1	0	0	0	0	1	0	0	0	5909	680	24	5	2773	5	FILIP1L	3	99569857	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1821	99569857	98452573	1808	24159											
NIT2	56954	broad.mit.edu	37	chr3	100067663	100067663	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggctgccagctgttggtAtatccaggagcttttaatct	9	13	10	9	0	1	0	0	0	1	0	2	1	2	1	2	3	3	5	2	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:100067663A>C	uc003dtv.2	+	7	596	c.522A>C	c.(520-522)GTA>GTC	p.V174V	NIT2_uc011bha.1_Missense_Mutation_p.Y143S	NM_020202	NP_064587	Q9NQR4	NIT2_HUMAN	nitrilase family, member 2	174	CN hydrolase.				nitrogen compound metabolic process		omega-amidase activity			ovary(1)	1						AGCTGTTGGTATATCCAGGAG	0.498													5	71					0	0	1	0	0		C	100067663	C	C	100067663	2	2	27	1	0	0	0	0	0	0	0	1	10453	436	16	5		5	NIT2	3	100067663	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	497806	100067663	97954767	1809	24160											
TOMM70A	9868	broad.mit.edu	37	chr3	100086917	100086917	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatagttcccatggtttcAtaggcaaaatcacatttatt	13	15	5	8	0	3	0	3	0	0	0	4	0	4	0	1	2	0	3	1	2	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:100086917A>G	uc003dtw.2	-	11	2076	c.1644T>C	c.(1642-1644)TAT>TAC	p.Y548Y		NM_014820	NP_055635	O94826	TOM70_HUMAN	translocase of outer mitochondrial membrane 70	548	Cytoplasmic (Potential).|TPR 10.				protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane translocase complex	protein binding|protein transmembrane transporter activity			ovary(1)	1						CCATGGTTTCATAGGCAAAAT	0.348													3	72					0	0	1	0	0		G	100086917	G	G	100086917	2	3	27	1	0	0	0	0	0	0	0	1	16388	224	8	3		3	TOMM70A	3	100086917	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19254	100086917	97935513	1810	24161											
LNP1	348801	broad.mit.edu	37	chr3	100148609	100148609	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgatgatgatgatgtgtcTtttgccaaatggatgagcag	11	13	13	4	0	1	5	0	5	1	0	1	7	1	6	1	1	2	1	1	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:100148609T>C	uc003dtx.3	+	2	1316	c.36T>C	c.(34-36)TCT>TCC	p.S12S	LNP1_uc003dty.3_RNA|LNP1_uc011bhb.1_RNA	NM_001085451	NP_001078920	A1A4G5	LNP1_HUMAN	leukemia NUP98 fusion partner 1	12											0						ATGATGTGTCTTTTGCCAAAT	0.512													28	456					0	0	1	0	0		C	100148609	C	C	100148609	2	2	27	1	0	0	0	0	0	0	0	1	8880	1596	56	3		3	LNP1	3	100148609	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	61692	100148609	97873821	1811	24162											
GPR128	84873	broad.mit.edu	37	chr3	100413729	100413729	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaggctgcgtgtaaagatgTataatttcctcaggtcattg	10	13	11	7	2	2	1	2	0	0	1	3	2	3	1	1	2	1	3	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:100413729T>C	uc003duc.2	+	16	2546	c.2278T>C	c.(2278-2280)TAT>CAT	p.Y760H	GPR128_uc011bhc.1_Missense_Mutation_p.Y461H|GPR128_uc003dud.2_Missense_Mutation_p.Y283H	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	760	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						TGTAAAGATGTATAATTTCCT	0.468													9	88					0	0	1	0	0		C	100413729	C	C	100413729	3	2	27	1	0	0	0	0	1	0	0	0	6656	1638	57	3	2340	3	GPR128	3	100413729	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	265120	100413729	97608701	1812	24163											
GPR128	84873	broad.mit.edu	37	chr3	100413823	100413823	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcacactctctgaaagtgAcaatgcaaaggaaagcatct	17	8	7	9	0	3	2	1	2	2	0	4	3	3	3	0	1	2	2	0	1	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:100413823A>T	uc003duc.2	+	16	2640	c.2372A>T	c.(2371-2373)GAC>GTC	p.D791V	GPR128_uc011bhc.1_Missense_Mutation_p.D492V|GPR128_uc003dud.2_Missense_Mutation_p.D314V	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	791	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						TCTGAAAGTGACAATGCAAAG	0.398													8	87					0	0	1	0	0		T	100413823	T	T	100413823	3	4	27	1	0	0	0	0	1	0	0	0	6656	275	10	5	2434	5	GPR128	3	100413823	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	94	100413823	97608607	1813	24164											
TFG	10342	broad.mit.edu	37	chr3	100467241	100467241	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccaagccaacctggggccTatcaaccaagaccaggtttt	11	8	8	14	0	1	1	1	0	0	1	2	1	2	1	6	3	3	1	6	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:100467241T>C	uc003due.2	+	8	1518	c.1069T>C	c.(1069-1071)TAT>CAT	p.Y357H	TFG_uc003duf.2_Missense_Mutation_p.Y357H|TFG_uc003dug.2_Missense_Mutation_p.Y353H|TFG_uc003duh.2_Missense_Mutation_p.Y353H|TFG_uc003dui.2_Missense_Mutation_p.Y357H	NM_006070	NP_006061	Q92734	TFG_HUMAN	TRK-fused	357					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm	signal transducer activity		TFG/ALK(7)	haematopoietic_and_lymphoid_tissue(7)|lung(2)|large_intestine(1)|prostate(1)	11						ACCTGGGGCCTATCAACCAAG	0.507			T	NTRK1|ALK	papillary thyroid|ALCL|NSCLC								3	113					0	0	1	0	0		C	100467241	C	C	100467241	3	2	27	1	0	0	0	0	1	0	0	0	15831	1522	53	3	1095	3	TFG	3	100467241	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53418	100467241	97555189	1814	24165											
IMPG2	50939	broad.mit.edu	37	chr3	100964745	100964745	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaatgaagagtcaagctgcTaacctctaaaacctctgggg	14	8	10	9	0	3	3	1	1	2	2	3	3	3	3	2	2	4	2	2	2	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:100964745T>C	uc003duq.1	-	12	1647	c.1444A>G	c.(1444-1446)AGC>GGC	p.S482G	IMPG2_uc011bhe.1_Missense_Mutation_p.S345G	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	482	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GTCAAGCTGCTAACCTCTAAA	0.498													16	147					0	0	1	0	0		C	100964745	C	C	100964745	3	2	27	1	0	0	0	0	1	0	0	0	7745	1522	53	3	2313	3	IMPG2	3	100964745	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	497504	100964745	97057685	1815	24166											
SENP7	57337	broad.mit.edu	37	chr3	101047497	101047497	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatgtacctaccttttacAcattttctttggtactgaca	10	16	5	10	0	1	1	0	1	1	0	1	1	1	1	2	1	5	3	2	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:101047497A>G	uc003dut.2	-	21	2899	c.2788T>C	c.(2788-2790)TGT>CGT	p.C930R	SENP7_uc003duu.2_Missense_Mutation_p.C865R|SENP7_uc003duv.2_Missense_Mutation_p.C897R|SENP7_uc003duw.2_Missense_Mutation_p.C864R|SENP7_uc003dux.2_Missense_Mutation_p.C766R|SENP7_uc003dus.2_Missense_Mutation_p.C118R	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	930	Protease.				proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						TACCTTTTACACATTTTCTTT	0.269													6	68					0	0	1	0	0		G	101047497	G	G	101047497	3	3	27	1	0	0	0	0	1	0	0	0	14076	159	6	3	380	3	SENP7	3	101047497	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	82752	101047497	96974933	1816	24167											
PCNP	57092	broad.mit.edu	37	chr3	101311518	101311518	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttcaataaaggaaagcAtgggttttctgataaccaga	14	11	8	8	0	2	2	1	1	1	1	3	3	3	3	2	2	2	2	2	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:101311518A>G	uc003dva.2	+	5	476	c.458A>G	c.(457-459)CAT>CGT	p.H153R	PCNP_uc003dvb.2_RNA|PCNP_uc003dvc.2_RNA|PCNP_uc003dvd.2_3'UTR	NM_020357	NP_065090	Q8WW12	PCNP_HUMAN	PEST proteolytic signal containing nuclear	153					cell cycle|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	nucleus	protein binding				0						AAAGGAAAGCATGGGTTTTCT	0.348													6	118					0	0	1	0	0		G	101311518	G	G	101311518	3	3	27	1	0	0	0	0	1	0	0	0	11608	217	8	3	476	3	PCNP	3	101311518	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	264021	101311518	96710912	1817	24168											
ZBTB11	27107	broad.mit.edu	37	chr3	101370037	101370037	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgaaatatgtgctacCtctactttaacagtttgaat	11	15	5	10	0	1	2	0	2	1	0	2	2	2	2	3	0	4	2	3	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:101370037C>A	uc003dve.3	-	11	3365	c.3135G>T	c.(3133-3135)GAG>GAT	p.E1045D		NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	1045					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TATGTGCTACCTCTACTTTAA	0.353													7	112					0.0477658	0.0483837	1	1	0		A	101370037	A	A	101370037	3	1	27	1	0	0	0	0	1	0	0	0	17549	680	24	5	30	5	ZBTB11	3	101370037	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	58519	101370037	96652393	1818	24169											
ZBTB11	27107	broad.mit.edu	37	chr3	101370373	101370373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagtctctgtggaatttagtCatatgtttacggagtgttcg	8	17	11	5	2	2	0	1	0	1	0	4	2	2	2	0	2	1	2	0	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:101370373C>T	uc003dve.3	-	11	3029	c.2799G>A	c.(2797-2799)ATG>ATA	p.M933I		NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	933	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GGAATTTAGTCATATGTTTAC	0.438													9	147					0	0	1	0	0		T	101370373	T	T	101370373	3	4	27	1	0	0	0	0	1	0	0	0	17549	826	29	4	366	4	ZBTB11	3	101370373	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	336	101370373	96652057	1819	24170											
FAM55C	91775	broad.mit.edu	37	chr3	101525942	101525942	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aactccagtggacctgattgGgtaactgtgattcccaggag	10	10	12	9	0	0	2	0	2	0	0	2	4	2	4	3	3	2	1	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:101525942G>A	uc003dvn.2	+	6	1531	c.894G>A	c.(892-894)TGG>TGA	p.W298*	FAM55C_uc010hpn.2_Nonsense_Mutation_p.W298*	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	298						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						GACCTGATTGGGTAACTGTGA	0.363													26	98					0	0	1	0	0		A	101525942	A	A	101525942	4	1	27	1	0	0	0	0	0	1	0	0	5600	1241	43	4	904	4	FAM55C	3	101525942	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	155569	101525942	96496488	1820	24171											
CBLB	868	broad.mit.edu	37	chr3	105378039	105378039	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcagtcctgcgcggtcgTggtttagggggtctggctgg	2	11	20	8	3	1	0	0	0	1	0	3	0	2	0	1	7	2	3	1	7	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:105378039T>C	uc003dwc.2	-	19	3046	c.2724A>G	c.(2722-2724)CCA>CCG	p.P908P	CBLB_uc003dwa.2_Silent_p.P123P|CBLB_uc011bhi.1_Silent_p.P886P	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	908	Pro-rich.|Interaction with SH3KBP1.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						TGCGCGGTCGTGGTTTAGGGG	0.443			Mis S		AML								11	109					0	0	1	0	0		C	105378039	C	C	105378039	2	2	27	1	0	0	0	0	0	0	0	1	2704	1683	59	3		3	CBLB	3	105378039	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3852097	105378039	92644391	1821	24172											
CBLB	868	broad.mit.edu	37	chr3	105389115	105389115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatcatagtcctgtgatgttCtgttagttttgacattttca	8	19	8	6	0	3	2	2	2	1	0	4	3	4	2	1	0	0	3	1	0	2	7	rs66833786		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:105389115C>T	uc003dwc.2	-	18	2973	c.2651G>A	c.(2650-2652)AGA>AAA	p.R884K	CBLB_uc003dwa.2_Missense_Mutation_p.R99K|CBLB_uc011bhi.1_Missense_Mutation_p.R862K	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	884	Pro-rich.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						CTGTGATGTTCTGTTAGTTTT	0.368			Mis S		AML								4	80					0	0	1	0	0		T	105389115	T	T	105389115	3	4	27	1	0	0	0	0	1	0	0	0	2704	913	32	4	305	4	CBLB	3	105389115	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11076	105389115	92633315	1822	24173											
BBX	56987	broad.mit.edu	37	chr3	107463488	107463488	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttcaggtatcctctggCacatgcaggcctgatgtttc	6	15	10	10	0	2	1	1	1	1	0	4	1	3	1	2	3	1	5	2	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:107463488C>T	uc010hpr.2	+	8	1008	c.681C>T	c.(679-681)GGC>GGT	p.G227G	BBX_uc003dwk.3_Silent_p.G227G|BBX_uc003dwl.3_Silent_p.G227G|BBX_uc010hps.1_Silent_p.G248G|BBX_uc003dwm.3_Silent_p.G227G	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	227					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			TATCCTCTGGCACATGCAGGC	0.338													9	132					0	0	1	0	0		T	107463488	T	T	107463488	2	4	27	1	0	0	0	0	0	0	0	1	1344	697	25	2		2	BBX	3	107463488	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2074373	107463488	90558942	1823	24174											
HHLA2	11148	broad.mit.edu	37	chr3	108072388	108072388	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagaggggatccgaagtcgTaatacactggaagtatcaag	14	8	13	6	2	1	1	1	1	0	1	3	5	2	3	1	3	1	2	1	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:108072388T>C	uc003dwy.3	+	4	346	c.179T>C	c.(178-180)GTA>GCA	p.V60A	HHLA2_uc011bhl.1_Intron|HHLA2_uc010hpu.2_Missense_Mutation_p.V60A|HHLA2_uc003dwz.2_Missense_Mutation_p.V60A	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	60						integral to membrane				ovary(1)	1						TCCGAAGTCGTAATACACTGG	0.393													3	61					0	0	1	0	0		C	108072388	C	C	108072388	3	2	27	1	0	0	0	0	1	0	0	0	7111	1638	57	3	185	3	HHLA2	3	108072388	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	608900	108072388	89950042	1824	24175											
KIAA1524	57650	broad.mit.edu	37	chr3	108300296	108300296	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtttgaacagaaagattgTgccgacaaagatttgccaat	14	10	10	7	2	0	4	0	1	0	3	0	5	0	4	2	0	3	1	2	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:108300296T>C	uc003dxb.3	-	5	784	c.515A>G	c.(514-516)CAC>CGC	p.H172R	KIAA1524_uc003dxc.1_Missense_Mutation_p.H13R|KIAA1524_uc010hpw.1_Missense_Mutation_p.H13R	NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	172						cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						AGAAAGATTGTGCCGACAAAG	0.299													6	54					0	0	1	0	0		C	108300296	C	C	108300296	3	2	27	1	0	0	0	0	1	0	0	0	8255	1696	59	3	2270	3	KIAA1524	3	108300296	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	227908	108300296	89722134	1825	24176											
DZIP3	9666	broad.mit.edu	37	chr3	108366943	108366943	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatcttcaacagaatctcTtaaagatctccaggaagtat	15	12	6	8	0	4	3	1	1	3	2	6	4	4	4	1	1	1	1	1	1	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:108366943T>C	uc003dxd.2	+	16	2368	c.1946T>C	c.(1945-1947)CTT>CCT	p.L649P	DZIP3_uc003dxf.1_Missense_Mutation_p.L649P|DZIP3_uc011bhm.1_Missense_Mutation_p.L100P|DZIP3_uc003dxe.1_Missense_Mutation_p.L649P|DZIP3_uc003dxg.1_Missense_Mutation_p.L372P	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	649	Potential.				protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						ACAGAATCTCTTAAAGATCTC	0.353													10	104					0	0	1	0	0		C	108366943	C	C	108366943	3	2	27	1	0	0	0	0	1	0	0	0	4871	1609	56	3	2004	3	DZIP3	3	108366943	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	66647	108366943	89655487	1826	24177											
DZIP3	9666	broad.mit.edu	37	chr3	108392929	108392929	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcaaaaacctgtaggtgtAtttcttacagtgtcgtaggg	10	14	10	7	1	2	0	1	0	2	0	4	0	2	0	1	2	2	3	1	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:108392929A>T	uc003dxd.2	+	24	3016	c.2594A>T	c.(2593-2595)TAT>TTT	p.Y865F	DZIP3_uc003dxf.1_Missense_Mutation_p.Y865F|DZIP3_uc011bhm.1_Missense_Mutation_p.Y316F	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	865					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CTGTAGGTGTATTTCTTACAG	0.398													10	147					0	0	1	0	0		T	108392929	T	T	108392929	3	4	27	1	0	0	0	0	1	0	0	0	4871	449	16	5	2684	5	DZIP3	3	108392929	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	25986	108392929	89629501	1827	24178											
GUCA1C	9626	broad.mit.edu	37	chr3	108639352	108639352	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcatcatacagcttaaaataCcattttaatttttgctccat	13	16	3	9	0	1	0	1	0	0	0	2	0	2	0	2	0	4	3	2	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:108639352C>T	uc003dxj.2	-	2	353	c.285G>A	c.(283-285)TGG>TGA	p.W95*	GUCA1C_uc003dxk.2_Nonsense_Mutation_p.W95*	NM_005459	NP_005450	O95843	GUC1C_HUMAN	guanylate cyclase activator 1C	95	EF-hand 3.				signal transduction|visual perception		calcium ion binding|calcium sensitive guanylate cyclase activator activity				0						GCTTAAAATACCATTTTAATT	0.323													7	73					0	0	1	0	0		T	108639352	T	T	108639352	4	4	27	1	0	0	0	0	0	1	0	0	6906	508	18	4	356	4	GUCA1C	3	108639352	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	246423	108639352	89383078	1828	24179											
PVRL3	25945	broad.mit.edu	37	chr3	110840996	110840996	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtttcggtaacaggataTgatggaaattggtttgtagg	12	13	14	2	1	0	1	0	1	0	0	1	4	0	3	0	5	1	4	0	5	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:110840996T>C	uc003dxt.1	+	4	828	c.828T>C	c.(826-828)TAT>TAC	p.Y276Y	PVRL3_uc003dxu.1_Silent_p.Y253Y	NM_015480	NP_056295	Q9NQS3	PVRL3_HUMAN	poliovirus receptor-related 3 precursor	276	Extracellular (Potential).|Ig-like C2-type 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane	cell adhesion molecule binding|protein homodimerization activity			upper_aerodigestive_tract(2)	2						TAACAGGATATGATGGAAATT	0.333													14	52					0	0	1	0	0		C	110840996	C	C	110840996	2	2	27	1	0	0	0	0	0	0	0	1	12866	1471	51	3		3	PVRL3	3	110840996	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2201644	110840996	87181434	1829	24180											
PHLDB2	90102	broad.mit.edu	37	chr3	111692618	111692618	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggagtaatatactttcAagccattgaagaagtctatt	16	12	8	5	0	2	2	1	1	1	1	2	4	2	3	1	1	2	1	1	1	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:111692618A>G	uc010hqa.2	+	17	3986	c.3575A>G	c.(3574-3576)CAA>CGA	p.Q1192R	PHLDB2_uc003dyc.2_Missense_Mutation_p.Q1176R|PHLDB2_uc003dyd.2_Missense_Mutation_p.Q1149R|PHLDB2_uc003dyg.2_Missense_Mutation_p.Q1192R|PHLDB2_uc003dyh.2_Missense_Mutation_p.Q1149R|PHLDB2_uc003dyi.2_Missense_Mutation_p.Q683R|PHLDB2_uc003dyj.2_Missense_Mutation_p.Q247R	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	1192	PH.					cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						ATATACTTTCAAGCCATTGAA	0.303													7	152					0	0	1	0	0		G	111692618	G	G	111692618	3	3	27	1	0	0	0	0	1	0	0	0	11871	130	5	3	3722	3	PHLDB2	3	111692618	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	851622	111692618	86329812	1830	24181											
SLC9A10	285335	broad.mit.edu	37	chr3	111873873	111873873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttctttcttcttgaatgcCttcttccaatgttccaactg	7	19	4	11	0	4	1	0	1	4	0	6	1	6	1	3	0	2	1	3	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:111873873C>T	uc003dyu.2	-	27	3610	c.3388G>A	c.(3388-3390)GGC>AGC	p.G1130S	SLC9A10_uc011bhu.1_Missense_Mutation_p.G393S|SLC9A10_uc010hqc.2_Missense_Mutation_p.G1082S	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	1130					cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						TCTTGAATGCCTTCTTCCAAT	0.318													3	61					0	0	1	0	0		T	111873873	T	T	111873873	3	4	27	1	0	0	0	0	1	0	0	0	14735	681	24	4	157	4	SLC9A10	3	111873873	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	181255	111873873	86148557	1831	24182											
SLC9A10	285335	broad.mit.edu	37	chr3	111921193	111921193	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtattccataccaaaaggtCttctgatgactcattctttt	11	16	5	9	0	4	2	1	2	3	0	5	2	5	2	2	1	1	1	2	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:111921193C>A	uc003dyu.2	-	18	2448	c.2226G>T	c.(2224-2226)AAG>AAT	p.K742N	SLC9A10_uc011bhu.1_Missense_Mutation_p.K5N|SLC9A10_uc010hqc.2_Missense_Mutation_p.K694N	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	742					cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						ACCAAAAGGTCTTCTGATGAC	0.328													11	124					1	1	1	1	0		A	111921193	A	A	111921193	3	1	27	1	0	0	0	0	1	0	0	0	14735	912	32	5	1355	5	SLC9A10	3	111921193	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	47320	111921193	86101237	1832	24183											
SLC35A5	55032	broad.mit.edu	37	chr3	112292735	112292735	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatcttctctttctttctaGgccatggctgttatcttctc	4	20	5	12	0	6	0	0	0	6	0	8	0	6	0	1	2	0	2	1	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:112292735G>T	uc003dze.2	+	5	606	c.361_splice	c.e5-1	p.A121_splice		NM_017945	NP_060415	Q9BS91	S35A5_HUMAN	solute carrier family 35, member A5							Golgi membrane|integral to membrane	nucleotide-sugar transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1						TTTCTTTCTAGGCCATGGCTG	0.353													12	192					7.03913e-09	7.75164e-09	1	1	0		T	112292735	T	T	112292735	5	4	27	1	0	0	0	0	0	0	1	0	14599	1014	35	5	374	5	SLC35A5	3	112292735	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	371542	112292735	85729695	1833	24184											
SLC35A5	55032	broad.mit.edu	37	chr3	112299708	112299708	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttcttcaatggctaatatCtataatgaaaagatactgaa	17	14	5	5	0	3	3	1	2	2	1	3	3	3	3	0	1	1	1	0	1	9	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:112299708C>T	uc003dze.2	+	6	989	c.744C>T	c.(742-744)ATC>ATT	p.I248I		NM_017945	NP_060415	Q9BS91	S35A5_HUMAN	solute carrier family 35, member A5	248	Helical; (Potential).					Golgi membrane|integral to membrane	nucleotide-sugar transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1						TGGCTAATATCTATAATGAAA	0.393													5	82					0	0	1	0	0		T	112299708	T	T	112299708	2	4	27	1	0	0	0	0	0	0	0	1	14599	903	32	4		4	SLC35A5	3	112299708	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6973	112299708	85722722	1834	24185											
BOC	91653	broad.mit.edu	37	chr3	112999441	112999441	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaacaacaccccaatccatGgcttttatatctattatcga	14	12	3	12	1	1	0	0	0	1	0	3	1	2	0	3	1	2	1	3	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:112999441G>T	uc003dzx.2	+	14	2860	c.2239G>T	c.(2239-2241)GGC>TGC	p.G747C	BOC_uc003dzy.2_Missense_Mutation_p.G747C|BOC_uc003dzz.2_Missense_Mutation_p.G748C|BOC_uc003eab.2_Missense_Mutation_p.G448C|BOC_uc003eac.2_Missense_Mutation_p.G62C	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	747	Fibronectin type-III 3.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			CCCAATCCATGGCTTTTATAT	0.408													8	69					0.000157383	0.000166242	1	1	0		T	112999441	T	T	112999441	3	4	27	1	0	0	0	0	1	0	0	0	1482	1348	47	5	2285	5	BOC	3	112999441	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	699733	112999441	85022989	1835	24186											
WDR52	55779	broad.mit.edu	37	chr3	113098328	113098328	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatctctgctgctagcttgTtcctcctttcttcccttatt	3	19	4	15	0	2	0	0	0	2	0	6	0	5	0	4	0	3	4	4	0	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:113098328T>G	uc003eae.1	-	17	2169	c.2123A>C	c.(2122-2124)AAC>ACC	p.N708T		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	708	Glu-rich.									central_nervous_system(1)	1						TGCTAGCTTGTTCCTCCTTTC	0.274													6	116					0	0	1	0	0		G	113098328	G	G	113098328	3	3	27	1	0	0	0	0	1	0	0	0	17330	1725	60	5	3532	5	WDR52	3	113098328	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	98887	113098328	84924102	1836	24187											
WDR52	55779	broad.mit.edu	37	chr3	113115407	113115407	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgttcataagctaaagcAgtgacacaagcagtatgggg	14	8	11	8	1	2	1	2	1	0	0	2	1	2	1	0	2	3	5	0	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:113115407A>G	uc003eae.1	-	14	1783	c.1737T>C	c.(1735-1737)ACT>ACC	p.T579T		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	579	WD 7.									central_nervous_system(1)	1						AAGCTAAAGCAGTGACACAAG	0.383													3	66					0	0	1	0	0		G	113115407	G	G	113115407	2	3	27	1	0	0	0	0	0	0	0	1	17330	175	7	3		3	WDR52	3	113115407	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17079	113115407	84907023	1837	24188											
CCDC52	152185	broad.mit.edu	37	chr3	113169271	113169271	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgctctatcaactgcagTagttttccacgagcctccat	8	13	7	13	1	2	0	1	0	1	0	4	1	4	0	3	0	5	5	3	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:113169271T>A	uc003eag.3	-	15	2526	c.2235A>T	c.(2233-2235)CTA>CTT	p.L745L	CCDC52_uc003eaf.3_RNA|CCDC52_uc003eah.1_Silent_p.L641L	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52	745	Potential.				cell division|mitosis	centriole|spindle	protein binding				0						TCAACTGCAGTAGTTTTCCAC	0.448													9	76					0	0	1	0	0		A	113169271	A	A	113169271	2	1	27	1	0	0	0	0	0	0	0	1	2825	1625	57	5		5	CCDC52	3	113169271	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53864	113169271	84853159	1838	24189											
KIAA2018	205717	broad.mit.edu	37	chr3	113375207	113375207	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgttttgactaattcgaaaAgcctgggactgcatactccg	10	12	10	9	2	0	1	0	1	0	0	2	3	1	2	2	1	3	2	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:113375207A>C	uc003eam.2	-	7	5733	c.5322T>G	c.(5320-5322)GCT>GCG	p.A1774A	KIAA2018_uc003eal.2_Silent_p.A1718A	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1774					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						TAATTCGAAAAGCCTGGGACT	0.433													14	192					0	0	1	0	0		C	113375207	C	C	113375207	2	2	27	1	0	0	0	0	0	0	0	1	8284	59	3	5		5	KIAA2018	3	113375207	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	205936	113375207	84647223	1839	24190											
KIAA2018	205717	broad.mit.edu	37	chr3	113375611	113375611	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatacttggttgggacaccaTttgctgctctaagcctcttg	8	14	9	10	0	2	0	0	0	2	0	2	1	2	1	2	2	4	3	2	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:113375611T>A	uc003eam.2	-	7	5329	c.4918A>T	c.(4918-4920)ATG>TTG	p.M1640L	KIAA2018_uc003eal.2_Missense_Mutation_p.M1584L	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1640					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						TGGGACACCATTTGCTGCTCT	0.453													12	165					0	0	1	0	0		A	113375611	A	A	113375611	3	1	27	1	0	0	0	0	1	0	0	0	8284	1493	52	5	1823	5	KIAA2018	3	113375611	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	404	113375611	84646819	1840	24191											
KIAA2018	205717	broad.mit.edu	37	chr3	113375915	113375915	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttccatggtgctttggttgTaaggaaagctgagaggtctg	8	13	15	5	0	1	1	0	1	1	1	2	3	2	2	1	4	2	5	1	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:113375915T>C	uc003eam.2	-	7	5025	c.4614A>G	c.(4612-4614)TTA>TTG	p.L1538L	KIAA2018_uc003eal.2_Silent_p.L1482L	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1538	Gln-rich.				regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						GCTTTGGTTGTAAGGAAAGCT	0.502													4	63					0	0	1	0	0		C	113375915	C	C	113375915	2	2	27	1	0	0	0	0	0	0	0	1	8284	1635	57	3		3	KIAA2018	3	113375915	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	304	113375915	84646515	1841	24192											
KIAA2018	205717	broad.mit.edu	37	chr3	113377880	113377880	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggacttttctgctgacttAgatttcgatacagactcagg	9	14	9	9	1	2	3	1	1	1	2	3	5	2	4	0	2	2	1	0	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:113377880A>G	uc003eam.2	-	7	3060	c.2649T>C	c.(2647-2649)TCT>TCC	p.S883S	KIAA2018_uc003eal.2_Silent_p.S827S	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	883	Ser-rich.				regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						CTGCTGACTTAGATTTCGATA	0.428													6	134					0	0	1	0	0		G	113377880	G	G	113377880	2	3	27	1	0	0	0	0	0	0	0	1	8284	407	15	3		3	KIAA2018	3	113377880	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1965	113377880	84644550	1842	24193											
KIAA2018	205717	broad.mit.edu	37	chr3	113378568	113378568	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgttggtttgacatggtaAcagaaaaagtttgtgttgag	11	14	13	3	0	0	3	0	2	0	1	0	3	0	3	0	2	1	6	0	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:113378568A>G	uc003eam.2	-	7	2372	c.1961T>C	c.(1960-1962)GTT>GCT	p.V654A	KIAA2018_uc003eal.2_Missense_Mutation_p.V598A	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	654					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						TGACATGGTAACAGAAAAAGT	0.403													8	146					0	0	1	0	0		G	113378568	G	G	113378568	3	3	27	1	0	0	0	0	1	0	0	0	8284	43	2	3	4780	3	KIAA2018	3	113378568	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	688	113378568	84643862	1843	24194											
QTRTD1	79691	broad.mit.edu	37	chr3	113798905	113798905	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgaatcctgaagagacacGtaagtcttttgaagtttatc	12	12	9	8	2	1	3	0	2	1	1	3	5	2	3	2	0	0	2	2	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:113798905G>T	uc003eay.2	+	8	1128	c.898_splice	c.e8+1	p.L300_splice	QTRTD1_uc003eaz.2_Splice_Site_p.L312_splice|QTRTD1_uc011biq.1_Splice_Site_p.L177_splice|QTRTD1_uc011bir.1_Splice_Site_p.L194_splice	NM_024638	NP_078914	Q9H974	QTRD1_HUMAN	queuine tRNA-ribosyltransferase domain						queuosine biosynthetic process	mitochondrion	metal ion binding|queuine tRNA-ribosyltransferase activity			central_nervous_system(1)|skin(1)	2						GAAGAGACACGTAAGTCTTTT	0.378													10	153					0.000978159	0.00102136	1	1	0		T	113798905	T	T	113798905	5	4	27	1	0	0	0	0	0	0	1	0	12911	1159	40	5	921	5	QTRTD1	3	113798905	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	420337	113798905	84223525	1844	24195											
DRD3	1814	broad.mit.edu	37	chr3	113890743	113890743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgcgcagtaggagagggCatagtaggcatgtgggcggg	9	5	21	6	3	0	1	0	0	0	1	0	3	0	1	0	5	1	5	0	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:113890743C>T	uc003ebd.2	-	3	520	c.97G>A	c.(97-99)GCC>ACC	p.A33T	DRD3_uc010hqn.1_Missense_Mutation_p.A33T|DRD3_uc003ebb.1_Missense_Mutation_p.A33T|DRD3_uc003ebc.1_Missense_Mutation_p.A33T	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	33	Helical; Name=1.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding	p.A33D(1)		ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	TAGGAGAGGGCATAGTAGGCA	0.617													12	25					0	0	1	0	0		T	113890743	T	T	113890743	3	4	27	1	0	0	0	0	1	0	0	0	4764	710	25	2	1129	2	DRD3	3	113890743	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	91838	113890743	84131687	1845	24196											
LSAMP	4045	broad.mit.edu	37	chr3	115738431	115738431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatgcagaccagagtcaCgttgctgccctcattcacag	9	8	10	14	1	3	2	3	0	0	2	3	2	3	2	3	1	3	3	3	1	0	2	rs143751711		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:115738431C>T	uc003ebt.2	-	3	945	c.445G>A	c.(445-447)GTG>ATG	p.V149M	LSAMP_uc011bis.1_Missense_Mutation_p.V149M	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein	149	Ig-like C2-type 2.				cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)		ACCAGAGTCACGTTGCTGCCC	0.473													6	74					0	0	1	0	0		T	115738431	T	T	115738431	3	4	27	1	0	0	0	0	1	0	0	0	9066	536	19	1	591	1	LSAMP	3	115738431	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1847688	115738431	82283999	1846	24197											
IGSF11	152404	broad.mit.edu	37	chr3	118621666	118621666	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaagtggctgactgactCtgtgtttctatgaacttttg	8	16	10	7	0	2	4	0	4	2	0	2	4	2	4	0	1	1	2	0	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:118621666C>A	uc003ebw.2	-	7	1244	c.997G>T	c.(997-999)GAG>TAG	p.E333*	IGSF11_uc011biv.1_Nonsense_Mutation_p.E305*|IGSF11_uc003ebx.2_Nonsense_Mutation_p.E309*|IGSF11_uc003eby.2_Nonsense_Mutation_p.E332*|IGSF11_uc003ebz.2_Nonsense_Mutation_p.E308*|IGSF11_uc010hqs.2_Nonsense_Mutation_p.E332*	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	333	Cytoplasmic (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						CTGACTGACTCTGTGTTTCTA	0.463													14	165					1.05317e-09	1.16272e-09	1	1	0		A	118621666	A	A	118621666	4	1	27	1	0	0	0	0	0	1	0	0	7614	922	32	5	302	5	IGSF11	3	118621666	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2883235	118621666	79400764	1847	24198											
C3orf30	152405	broad.mit.edu	37	chr3	118867070	118867070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaaagggttatcatatacGcaatcaaacttatagaaggt	17	10	9	5	1	2	1	2	0	0	1	2	2	2	2	0	3	2	2	0	3	9	5	rs138537972		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:118867070G>A	uc003ecb.1	+	2	1482	c.1442G>A	c.(1441-1443)CGC>CAC	p.R481H	IGSF11_uc003eby.2_5'Flank|IGSF11_uc003ebz.2_5'Flank|IGSF11_uc010hqs.2_5'Flank|C3orf30_uc011biw.1_Missense_Mutation_p.R481H	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	481										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		TATCATATACGCAATCAAACT	0.368													28	98					0	0	1	0	0		A	118867070	A	A	118867070	3	1	27	1	0	0	0	0	1	0	0	0	2223	1087	38	1	1448	1	C3orf30	3	118867070	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	245404	118867070	79155360	1848	24199											
ARHGAP31	57514	broad.mit.edu	37	chr3	119084197	119084197	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagctgtgcagaatttatAgagactcacggcatcgtgga	13	9	12	7	2	1	3	1	0	0	3	2	5	1	4	0	2	2	3	0	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:119084197A>G	uc003ecj.3	+	2	667	c.135A>G	c.(133-135)ATA>ATG	p.I45M		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	45	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						CAGAATTTATAGAGACTCACG	0.358													10	49					0	0	1	0	0		G	119084197	G	G	119084197	3	3	27	1	0	0	0	0	1	0	0	0	880	410	15	3	141	3	ARHGAP31	3	119084197	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	217127	119084197	78938233	1849	24200											
ARHGAP31	57514	broad.mit.edu	37	chr3	119120684	119120684	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	actaggaaaagaaaccaaggGaaatttcaatcgaacagtta	20	7	8	6	1	1	1	1	0	0	1	2	4	1	3	1	2	2	1	1	2	9	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:119120684G>C	uc003ecj.3	+	10	1617	c.1085G>C	c.(1084-1086)GGA>GCA	p.G362A		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	362					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						GAAACCAAGGGAAATTTCAAT	0.498													4	42					0	0	1	0	0		C	119120684	C	C	119120684	3	2	27	1	0	0	0	0	1	0	0	0	880	1174	41	5	1123	5	ARHGAP31	3	119120684	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	36487	119120684	78901746	1850	24201											
KTELC1	56983	broad.mit.edu	37	chr3	119207829	119207829	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcttgtggatcactgcaaAtacaagtaagatttgcagga	14	11	9	7	0	2	1	1	0	1	1	2	3	2	3	0	2	3	3	0	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:119207829A>G	uc003ecm.2	+	8	876	c.792A>G	c.(790-792)AAA>AAG	p.K264K	KTELC1_uc011biz.1_RNA|KTELC1_uc011bja.1_Silent_p.K105K	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	264						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		ATCACTGCAAATACAAGTAAG	0.388													4	53					0	0	1	0	0		G	119207829	G	G	119207829	2	3	27	1	0	0	0	0	0	0	0	1	8599	98	4	3		3	KTELC1	3	119207829	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	87145	119207829	78814601	1851	24202											
ADPRH	141	broad.mit.edu	37	chr3	119306347	119306347	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgggaaaattacctaaaActtagagggattttggatgg	16	11	11	3	0	0	1	0	0	0	1	0	4	0	4	1	4	2	0	1	4	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:119306347A>T	uc003ecs.2	+	5	994	c.696A>T	c.(694-696)AAA>AAT	p.K232N	ADPRH_uc010hqv.2_Missense_Mutation_p.K232N|ADPRH_uc011bjb.1_Missense_Mutation_p.K125N|ADPRH_uc003ect.2_Missense_Mutation_p.K232N	NM_001125	NP_001116	P54922	ADPRH_HUMAN	ADP-ribosylarginine hydrolase	232					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding			ovary(1)	1		Lung NSC(201;0.0977)		GBM - Glioblastoma multiforme(114;0.23)		ATTACCTAAAACTTAGAGGGA	0.408													4	61					0	0	1	0	0		T	119306347	T	T	119306347	3	4	27	1	0	0	0	0	1	0	0	0	331	40	2	5	706	5	ADPRH	3	119306347	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	98518	119306347	78716083	1852	24203											
GPR156	165829	broad.mit.edu	37	chr3	119912236	119912236	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaactgcccagtaaggtcAcaatgttcagattgggactg	12	9	11	9	0	2	1	2	0	0	1	2	3	2	2	1	2	2	2	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:119912236A>G	uc011bjf.1	-	3	269	c.269T>C	c.(268-270)GTG>GCG	p.V90A	GPR156_uc011bjg.1_Missense_Mutation_p.V90A	NM_153002	NP_694547	Q8NFN8	GP156_HUMAN	G protein-coupled receptor 156	90	Helical; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.19)		CAGTAAGGTCACAATGTTCAG	0.473													11	74					0	0	1	0	0		G	119912236	G	G	119912236	3	3	27	1	0	0	0	0	1	0	0	0	6676	159	6	3	2203	3	GPR156	3	119912236	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	605889	119912236	78110194	1853	24204											
HGD	3081	broad.mit.edu	37	chr3	120369653	120369653	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtattgcagaggaaaatGtggatagcaagcccattgtt	13	10	13	5	0	0	1	0	0	0	1	0	4	0	3	1	3	3	4	1	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:120369653G>A	uc003edw.2	-	6	772	c.402C>T	c.(400-402)CAC>CAT	p.H134H	HGD_uc003edv.2_5'UTR	NM_000187	NP_000178	Q93099	HGD_HUMAN	homogentisate 1,2-dioxygenase	134					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	homogentisate 1,2-dioxygenase activity|metal ion binding				0				GBM - Glioblastoma multiforme(114;0.158)		AGAGGAAAATGTGGATAGCAA	0.488													43	141					0	0	1	0	0		A	120369653	A	A	120369653	2	1	27	1	0	0	0	0	0	0	0	1	7100	1368	48	4		4	HGD	3	120369653	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	457417	120369653	77652777	1854	24205											
HGD	3081	broad.mit.edu	37	chr3	120393819	120393819	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcagcatagagattgtagggGcagacctgaggattattctg	11	11	13	6	0	2	3	1	1	1	2	2	5	2	4	1	3	1	3	1	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:120393819G>A	uc003edw.2	-	3	475	c.105C>T	c.(103-105)TGC>TGT	p.C35C		NM_000187	NP_000178	Q93099	HGD_HUMAN	homogentisate 1,2-dioxygenase	35					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	homogentisate 1,2-dioxygenase activity|metal ion binding				0				GBM - Glioblastoma multiforme(114;0.158)		GATTGTAGGGGCAGACCTGAG	0.468													13	171					0	0	1	0	0		A	120393819	A	A	120393819	2	1	27	1	0	0	0	0	0	0	0	1	7100	1195	42	2		2	HGD	3	120393819	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	24166	120393819	77628611	1855	24206											
GTF2E1	2960	broad.mit.edu	37	chr3	120500128	120500128	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtggctgtgcataaacgAgaagaggatgaagaggaaga	15	6	16	4	1	0	5	0	1	0	4	0	8	0	7	0	3	2	3	0	3	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:120500128A>G	uc003edz.3	+	5	1245	c.1131A>G	c.(1129-1131)CGA>CGG	p.R377R		NM_005513	NP_005504	P29083	T2EA_HUMAN	general transcription factor IIE, polypeptide 1,	377					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.159)		TGCATAAACGAGAAGAGGATG	0.537													7	124					0	0	1	0	0		G	120500128	G	G	120500128	2	3	27	1	0	0	0	0	0	0	0	1	6872	291	11	3		3	GTF2E1	3	120500128	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	106309	120500128	77522302	1856	24207											
STXBP5L	9515	broad.mit.edu	37	chr3	120924830	120924830	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaattcttaaagtagaatAcaagacctgcaaaaacaggt	19	8	6	8	0	1	2	0	0	1	2	1	2	1	2	2	1	3	2	2	1	9	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:120924830A>G	uc003eec.3	+	10	1078	c.938A>G	c.(937-939)TAC>TGC	p.Y313C	STXBP5L_uc011bji.1_Missense_Mutation_p.Y313C	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	313	WD 6.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		AAAGTAGAATACAAGACCTGC	0.269													4	77					0	0	1	0	0		G	120924830	G	G	120924830	3	3	27	1	0	0	0	0	1	0	0	0	15382	391	14	3	972	3	STXBP5L	3	120924830	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	424702	120924830	77097600	1857	24208											
POLQ	10721	broad.mit.edu	37	chr3	121263672	121263672	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaaaactgtggtattttTccagaactgctttaggaagt	12	13	8	8	0	0	1	0	0	0	1	1	2	1	2	2	2	3	2	2	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:121263672T>A	uc003eee.3	-	2	374	c.245A>T	c.(244-246)GAA>GTA	p.E82V		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	82					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		GTGGTATTTTTCCAGAACTGC	0.398								DNA_polymerases_(catalytic_subunits)					5	68					0	0	1	0	0		A	121263672	A	A	121263672	3	1	27	1	0	0	0	0	1	0	0	0	12227	1783	62	5	7643	5	POLQ	3	121263672	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	338842	121263672	76758758	1858	24209											
FBXO40	51725	broad.mit.edu	37	chr3	121341232	121341232	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacaatgggcggatgctgaTacactttggtcagatgcctg	9	10	13	9	1	1	2	1	1	0	1	1	3	1	3	1	3	3	2	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:121341232T>A	uc003eeg.2	+	3	1166	c.956T>A	c.(955-957)ATA>AAA	p.I319K		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	319					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		CGGATGCTGATACACTTTGGT	0.473													11	119					0	0	1	0	0		A	121341232	A	A	121341232	3	1	27	1	0	0	0	0	1	0	0	0	5763	1406	49	5	962	5	FBXO40	3	121341232	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	77560	121341232	76681198	1859	24210											
GOLGB1	2804	broad.mit.edu	37	chr3	121383850	121383850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagccaatgataggagtccGggaagagtcccattcactgt	11	8	13	9	1	1	2	1	1	0	1	3	5	3	5	3	3	1	0	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:121383850G>A	uc003eei.3	-	21	9694	c.9568C>T	c.(9568-9570)CGG>TGG	p.R3190W	GOLGB1_uc010hrc.2_Missense_Mutation_p.R3200W|GOLGB1_uc003eej.3_Missense_Mutation_p.R3156W	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	3190	Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		ATAGGAGTCCGGGAAGAGTCC	0.478													5	56					0	0	1	0	0		A	121383850	A	A	121383850	3	1	27	1	0	0	0	0	1	0	0	0	6580	1115	39	1	219	1	GOLGB1	3	121383850	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	42618	121383850	76638580	1860	24211											
GOLGB1	2804	broad.mit.edu	37	chr3	121416590	121416590	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatttcaaccccaagagaaAacttctcttcattaagctga	15	12	4	10	0	3	2	2	1	1	1	4	3	3	2	2	0	3	1	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:121416590A>G	uc003eei.3	-	13	2891	c.2765T>C	c.(2764-2766)TTT>TCT	p.F922S	GOLGB1_uc010hrc.2_Missense_Mutation_p.F927S|GOLGB1_uc003eej.3_Missense_Mutation_p.F888S|GOLGB1_uc011bjm.1_Missense_Mutation_p.F808S|GOLGB1_uc010hrd.1_Missense_Mutation_p.F886S	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	922	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CCCAAGAGAAAACTTCTCTTC	0.378													9	210					0	0	1	0	0		G	121416590	G	G	121416590	3	3	27	1	0	0	0	0	1	0	0	0	6580	14	1	3	7054	3	GOLGB1	3	121416590	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	32740	121416590	76605840	1861	24212											
GOLGB1	2804	broad.mit.edu	37	chr3	121433709	121433709	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagttcacatttaattaccTgtgtgccctcattataaaca	13	14	5	9	0	2	0	2	0	0	0	2	1	2	0	2	0	3	1	2	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:121433709T>C	uc003eei.3	-	10	1514	c.1388A>G	c.(1387-1389)CAG>CGG	p.Q463R	GOLGB1_uc010hrc.2_Missense_Mutation_p.Q468R|GOLGB1_uc003eej.3_Missense_Mutation_p.Q429R|GOLGB1_uc011bjm.1_Missense_Mutation_p.Q349R|GOLGB1_uc010hrd.1_Missense_Mutation_p.Q427R	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	463	Potential.|Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TTTAATTACCTGTGTGCCCTC	0.348													9	68					0	0	1	0	0		C	121433709	C	C	121433709	3	2	27	1	0	0	0	0	1	0	0	0	6580	1594	55	3	8443	3	GOLGB1	3	121433709	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	17119	121433709	76588721	1862	24213											
GOLGB1	2804	broad.mit.edu	37	chr3	121448715	121448715	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gataaaaacaatagtacctgTagagcttcatctttctgctg	13	13	7	8	0	3	1	1	0	2	1	3	2	3	1	1	0	4	4	1	0	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:121448715T>C	uc003eei.3	-	3	372	c.246A>G	c.(244-246)CTA>CTG	p.L82L	GOLGB1_uc010hrc.2_Silent_p.L82L|GOLGB1_uc003eej.3_Silent_p.L43L|GOLGB1_uc011bjm.1_Silent_p.L43L|GOLGB1_uc010hrd.1_Silent_p.L82L	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	82	Potential.|Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		ATAGTACCTGTAGAGCTTCAT	0.383													5	78					0	0	1	0	0		C	121448715	C	C	121448715	2	2	27	1	0	0	0	0	0	0	0	1	6580	1625	57	3		3	GOLGB1	3	121448715	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	15006	121448715	76573715	1863	24214											
IQCB1	9657	broad.mit.edu	37	chr3	121526202	121526202	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagtcacctgttgatctgTagtatattctgtagcatcat	10	15	7	9	0	4	1	2	1	2	0	4	1	4	1	2	0	1	5	2	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:121526202T>C	uc010hre.1	-	7	791	c.576A>G	c.(574-576)CTA>CTG	p.L192L	IQCB1_uc003eek.2_Silent_p.L192L|IQCB1_uc010hrf.1_RNA	NM_001023570	NP_001018864	Q15051	IQCB1_HUMAN	IQ motif containing B1 isoform a	192					cilium assembly|maintenance of organ identity|photoreceptor cell maintenance	centrosome|photoreceptor connecting cilium	calmodulin binding				0				GBM - Glioblastoma multiforme(114;0.0983)		TGTTGATCTGTAGTATATTCT	0.313													4	149					0	0	1	0	0		C	121526202	C	C	121526202	2	2	27	1	0	0	0	0	0	0	0	1	7819	1625	57	3		3	IQCB1	3	121526202	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	77487	121526202	76496228	1864	24215											
CASR	846	broad.mit.edu	37	chr3	121973127	121973127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcgagcccaaaagaaggggGacattatccttggggggctc	11	6	15	9	1	0	1	0	0	0	1	2	3	1	2	2	5	2	1	2	5	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:121973127G>A	uc003eev.3	+	2	463	c.91G>A	c.(91-93)GAC>AAC	p.D31N	CASR_uc003eew.3_Missense_Mutation_p.D31N	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	31	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	AAAGAAGGGGGACATTATCCT	0.517													12	83					0	0	1	0	0		A	121973127	A	A	121973127	3	1	27	1	0	0	0	0	1	0	0	0	2685	1174	41	4	93	4	CASR	3	121973127	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	446925	121973127	76049303	1865	24216											
CCDC58	131076	broad.mit.edu	37	chr3	122087062	122087062	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttgttttaataacgttaaAtcgtccaaattcttttctct	11	19	4	7	2	2	0	0	0	2	0	5	0	3	0	1	0	1	3	1	0	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:122087062A>T	uc003eey.2	-	3	288	c.285T>A	c.(283-285)GAT>GAA	p.D95E		NM_001017928	NP_001017928	Q4VC31	CCD58_HUMAN	coiled-coil domain containing 58	95	Potential.										0				GBM - Glioblastoma multiforme(114;0.148)		ATAACGTTAAATCGTCCAAAT	0.363													7	85					0	0	1	0	0		T	122087062	T	T	122087062	3	4	27	1	0	0	0	0	1	0	0	0	2831	98	4	5	161	5	CCDC58	3	122087062	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	113935	122087062	75935368	1866	24217											
WDR5B	54554	broad.mit.edu	37	chr3	122133953	122133953	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtctcatcaaaagatcccgaGattataaggttggatggcgg	12	10	12	7	2	2	2	2	0	1	2	4	4	3	3	1	4	0	1	1	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:122133953G>A	uc003efa.1	-	1	930	c.423C>T	c.(421-423)ATC>ATT	p.I141I		NM_019069	NP_061942	Q86VZ2	WDR5B_HUMAN	WD repeat domain 5B	141	WD 3.									ovary(3)	3				GBM - Glioblastoma multiforme(114;0.0704)		AAGATCCCGAGATTATAAGGT	0.388													5	70					0	0	1	0	0		A	122133953	A	A	122133953	2	1	27	1	0	0	0	0	0	0	0	1	17335	932	33	4		4	WDR5B	3	122133953	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46891	122133953	75888477	1867	24218											
PARP9	83666	broad.mit.edu	37	chr3	122259515	122259515	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgagacaaaatgtcatgTtcctttctcccaaggtacag	12	11	8	10	0	2	1	1	1	1	1	4	2	3	1	2	1	2	3	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:122259515T>G	uc010hri.2	-	8	1819	c.1674A>C	c.(1672-1674)GAA>GAC	p.E558D	PARP9_uc003eff.3_Missense_Mutation_p.E523D|PARP9_uc011bjs.1_Missense_Mutation_p.E523D|PARP9_uc003efg.2_Missense_Mutation_p.E103D|PARP9_uc003efi.2_Missense_Mutation_p.E523D|PARP9_uc003efh.2_Missense_Mutation_p.E558D|PARP9_uc003efj.2_Missense_Mutation_p.E523D	NM_001146102	NP_001139574	Q8IXQ6	PARP9_HUMAN	poly (ADP-ribose) polymerase family, member 9	558					cell migration	cytosol|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)|pancreas(1)|prostate(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0519)		AAATGTCATGTTCCTTTCTCC	0.448													13	143					0	0	1	0	0		G	122259515	G	G	122259515	3	3	27	1	0	0	0	0	1	0	0	0	11485	1722	60	5	959	5	PARP9	3	122259515	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	125562	122259515	75762915	1868	24219											
DTX3L	151636	broad.mit.edu	37	chr3	122287953	122287953	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttataaaggagaaaggaggCgaattaactctccttgggac	14	9	11	7	1	1	1	0	0	1	1	2	5	1	3	1	4	1	0	1	4	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:122287953C>T	uc003efk.2	+	3	1106	c.1017C>T	c.(1015-1017)GGC>GGT	p.G339G	DTX3L_uc010hrj.2_Intron	NM_138287	NP_612144	Q8TDB6	DTX3L_HUMAN	deltex 3-like	339					histone monoubiquitination|response to DNA damage stimulus	cytoplasm|nucleus	histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)	4				GBM - Glioblastoma multiforme(114;0.0459)		AGAAAGGAGGCGAATTAACTC	0.388													10	156					0	0	1	0	0		T	122287953	T	T	122287953	2	4	27	1	0	0	0	0	0	0	0	1	4802	755	27	1		1	DTX3L	3	122287953	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	28438	122287953	75734477	1869	24220											
PARP15	165631	broad.mit.edu	37	chr3	122335923	122335923	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaatgaaaatcggtgcaatTacttttcaggttgctactgg	12	13	10	6	1	1	1	1	1	0	0	2	2	1	1	0	3	4	3	0	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:122335923T>A	uc003efm.2	+	6	978	c.912T>A	c.(910-912)ATT>ATA	p.I304I	PARP15_uc003efn.2_Intron|PARP15_uc003efo.1_Silent_p.I51I|PARP15_uc003efp.1_Silent_p.I70I|PARP15_uc011bjt.1_Silent_p.I70I	NM_001113523	NP_001106995	Q460N3	PAR15_HUMAN	poly (ADP-ribose) polymerase family, member 15	282	Macro 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	NAD+ ADP-ribosyltransferase activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)	5				GBM - Glioblastoma multiforme(114;0.0531)		TCGGTGCAATTACTTTTCAGG	0.388													4	111					0	0	1	0	0		A	122335923	A	A	122335923	2	1	27	1	0	0	0	0	0	0	0	1	11478	1742	61	5		5	PARP15	3	122335923	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47970	122335923	75686507	1870	24221											
PARP14	54625	broad.mit.edu	37	chr3	122418877	122418877	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctactggaccatttactcacGgagtgcccagagatagagat	12	9	10	10	1	1	2	1	0	0	2	1	6	1	4	2	2	3	0	2	2	3	4	rs144051474	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:122418877G>A	uc003efq.3	+	6	1535	c.1476G>A	c.(1474-1476)ACG>ACA	p.T492T	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Silent_p.T209T|PARP14_uc003efs.1_Silent_p.T209T	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	492					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		ATTTACTCACGGAGTGCCCAG	0.403													5	31					0	0	1	0	0		A	122418877	A	A	122418877	2	1	27	1	0	0	0	0	0	0	0	1	11477	1103	39	1		1	PARP14	3	122418877	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	82954	122418877	75603553	1871	24222											
PARP14	54625	broad.mit.edu	37	chr3	122437464	122437464	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatattaacatttccctggAccataagagacctttgatta	15	13	5	8	0	0	2	0	1	0	1	1	4	1	3	3	1	1	0	3	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:122437464A>G	uc003efq.3	+	14	4525	c.4466A>G	c.(4465-4467)GAC>GGC	p.D1489G	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Missense_Mutation_p.D1206G|PARP14_uc003efs.1_Missense_Mutation_p.D1206G	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	1489					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		ATTTCCCTGGACCATAAGAGA	0.403													21	223					0	0	1	0	0		G	122437464	G	G	122437464	3	3	27	1	0	0	0	0	1	0	0	0	11477	275	10	3	4520	3	PARP14	3	122437464	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	18587	122437464	75584966	1872	24223											
SEMA5B	54437	broad.mit.edu	37	chr3	122641228	122641228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgctcatcaggaagaggcGctgcgcgtcctgcaggctgc	6	7	14	14	4	2	1	2	0	0	1	4	2	3	2	1	3	3	4	1	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:122641228G>A	uc003efz.1	-	11	1643	c.1339C>T	c.(1339-1341)CGC>TGC	p.R447C	SEMA5B_uc011bju.1_Missense_Mutation_p.R389C|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.R447C|SEMA5B_uc010hro.1_Missense_Mutation_p.R389C|SEMA5B_uc010hrp.1_RNA	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	447	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		AGGAAGAGGCGCTGCGCGTCC	0.701													4	12					0	0	1	0	0		A	122641228	A	A	122641228	3	1	27	1	0	0	0	0	1	0	0	0	14063	1087	38	1	2168	1	SEMA5B	3	122641228	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	203764	122641228	75381202	1873	24224											
PDIA5	10954	broad.mit.edu	37	chr3	122808124	122808124	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccggaataatgtactggTgctttactccaaatctggtg	11	12	9	9	1	1	0	0	0	1	0	2	1	2	1	2	3	4	2	2	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:122808124T>C	uc003egc.1	+	2	208	c.152T>C	c.(151-153)GTG>GCG	p.V51A	PDIA5_uc003egd.1_RNA	NM_006810	NP_006801	Q14554	PDIA5_HUMAN	protein disulfide isomerase A5 precursor	51					cell redox homeostasis|glycerol ether metabolic process|protein folding|response to stress	endoplasmic reticulum lumen	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0427)		AATGTACTGGTGCTTTACTCC	0.522													20	118					0	0	1	0	0		C	122808124	C	C	122808124	3	2	27	1	0	0	0	0	1	0	0	0	11690	1696	59	3	158	3	PDIA5	3	122808124	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	166896	122808124	75214306	1874	24225											
PDIA5	10954	broad.mit.edu	37	chr3	122869205	122869205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccttggtcatgttctacGccccttgtaagtagcttggg	7	13	10	11	1	2	0	1	0	1	0	2	0	2	0	3	2	2	4	3	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:122869205G>A	uc003egc.1	+	14	1323	c.1267G>A	c.(1267-1269)GCC>ACC	p.A423T	PDIA5_uc003egd.1_RNA	NM_006810	NP_006801	Q14554	PDIA5_HUMAN	protein disulfide isomerase A5 precursor	423	Thioredoxin 3.				cell redox homeostasis|glycerol ether metabolic process|protein folding|response to stress	endoplasmic reticulum lumen	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0427)		CATGTTCTACGCCCCTTGTAA	0.577													7	68					0	0	1	0	0		A	122869205	A	A	122869205	3	1	27	1	0	0	0	0	1	0	0	0	11690	1087	38	1	1321	1	PDIA5	3	122869205	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	61081	122869205	75153225	1875	24226											
ADCY5	111	broad.mit.edu	37	chr3	123010064	123010064	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagttggcgatggaggCgaacatgaccgccacacact	12	5	14	10	3	0	2	0	1	0	1	0	6	0	3	2	4	1	1	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:123010064C>A	uc003egh.1	-	18	3223	c.3223G>T	c.(3223-3225)GCC>TCC	p.A1075S	ADCY5_uc003egg.1_Missense_Mutation_p.A733S	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	1075	Cytoplasmic (Potential).|Guanylate cyclase 2.				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		GCGATGGAGGCGAACATGACC	0.577													3	60					0.150653	0.151846	1	1	0		A	123010064	A	A	123010064	3	1	27	1	0	0	0	0	1	0	0	0	297	768	27	5	578	5	ADCY5	3	123010064	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	140859	123010064	75012366	1876	24227											
ADCY5	111	broad.mit.edu	37	chr3	123018977	123018977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccatacatggcgttggCggtgaccagcaggtcggcgt	6	8	15	12	4	0	1	0	1	0	0	1	1	0	1	3	5	3	2	3	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:123018977C>T	uc003egh.1	-	15	2890	c.2890G>A	c.(2890-2892)GCC>ACC	p.A964T	ADCY5_uc003egg.1_Missense_Mutation_p.A597T|ADCY5_uc003egi.1_Missense_Mutation_p.A523T	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	964					activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		ATGGCGTTGGCGGTGACCAGC	0.617													6	50					0	0	1	0	0		T	123018977	T	T	123018977	3	4	27	1	0	0	0	0	1	0	0	0	297	768	27	1	923	1	ADCY5	3	123018977	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8913	123018977	75003453	1877	24228											
ADCY5	111	broad.mit.edu	37	chr3	123166319	123166319	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgatggccaggtggagggcGgacaggagcaccccgctgag	8	3	19	11	3	0	1	0	1	0	0	0	5	0	4	3	6	1	2	3	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:123166319G>A	uc003egh.1	-	1	1074	c.1074C>T	c.(1072-1074)TCC>TCT	p.S358S		NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	358					activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		GGTGGAGGGCGGACAGGAGCA	0.677													6	24					0	0	1	0	0		A	123166319	A	A	123166319	2	1	27	1	0	0	0	0	0	0	0	1	297	1103	39	1		1	ADCY5	3	123166319	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	147342	123166319	74856111	1878	24229											
MYLK	4638	broad.mit.edu	37	chr3	123376176	123376176	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgatgctgtaggactgtacaGcactgcccccatcatatgag	10	9	10	12	1	1	1	1	1	0	0	1	3	1	2	2	1	4	4	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:123376176G>T	uc003ego.2	-	24	4367	c.4085C>A	c.(4084-4086)GCT>GAT	p.A1362D	MYLK_uc010hrr.2_Translation_Start_Site|MYLK_uc011bjv.1_Missense_Mutation_p.A162D|MYLK_uc011bjw.1_Missense_Mutation_p.A1362D|MYLK_uc003egp.2_Missense_Mutation_p.A1293D|MYLK_uc003egq.2_Missense_Mutation_p.A1362D|MYLK_uc003egr.2_Missense_Mutation_p.A1293D|MYLK_uc003egs.2_Missense_Mutation_p.A1186D	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1362	Actin-binding (calcium/calmodulin- insensitive) (By similarity).|Fibronectin type-III.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		GGACTGTACAGCACTGCCCCC	0.572													8	46					1.12685e-05	1.21022e-05	1	1	0		T	123376176	T	T	123376176	3	4	27	1	0	0	0	0	1	0	0	0	10074	971	34	5	1703	5	MYLK	3	123376176	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	209857	123376176	74646254	1879	24230											
CCDC14	64770	broad.mit.edu	37	chr3	123634043	123634043	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttccagagacagcaagTccgctgttgctgactagctg	8	12	10	11	1	1	2	0	1	1	1	3	3	3	2	2	0	3	5	2	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:123634043T>C	uc011bjx.1	-	13	2536	c.2445A>G	c.(2443-2445)GGA>GGG	p.G815G	CCDC14_uc003egv.3_Silent_p.G456G|CCDC14_uc003egx.3_Silent_p.G615G|CCDC14_uc010hrt.2_Silent_p.G774G|CCDC14_uc003egy.3_Silent_p.G615G|CCDC14_uc003egz.2_Intron	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	815						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		AGACAGCAAGTCCGCTGTTGC	0.428													8	84					0	0	1	0	0		C	123634043	C	C	123634043	2	2	27	1	0	0	0	0	0	0	0	1	2776	1654	58	3		3	CCDC14	3	123634043	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	257867	123634043	74388387	1880	24231											
KALRN	8997	broad.mit.edu	37	chr3	124132336	124132336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgacagcagagctagacgCctggaatgaagacttgcttc	11	8	13	9	1	0	5	0	2	0	3	1	6	0	6	1	2	3	3	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:124132336C>T	uc003ehg.2	+	14	2487	c.2360C>T	c.(2359-2361)GCC>GTC	p.A787V	KALRN_uc010hrv.1_Missense_Mutation_p.A787V|KALRN_uc003ehf.1_Missense_Mutation_p.A787V|KALRN_uc011bjy.1_Missense_Mutation_p.A787V|KALRN_uc003ehh.1_Missense_Mutation_p.A133V	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	787					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GAGCTAGACGCCTGGAATGAA	0.542													4	39					0	0	1	0	0		T	124132336	T	T	124132336	3	4	27	1	0	0	0	0	1	0	0	0	7991	739	26	2	2414	2	KALRN	3	124132336	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	498293	124132336	73890094	1881	24232											
KALRN	8997	broad.mit.edu	37	chr3	124215187	124215187	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaggatattgacagccaggGggatgggagcagccaaccag	12	4	17	8	0	0	1	0	1	0	0	0	5	0	5	3	5	4	1	3	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:124215187G>T	uc003ehg.2	+	33	4983	c.4856G>T	c.(4855-4857)GGG>GTG	p.G1619V	KALRN_uc010hrv.1_Missense_Mutation_p.G1610V|KALRN_uc003ehf.1_Missense_Mutation_p.G1619V|KALRN_uc011bjy.1_Missense_Mutation_p.G1610V	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1619					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GACAGCCAGGGGGATGGGAGC	0.537													8	88					3.09899e-07	3.3784e-07	1	1	0		T	124215187	T	T	124215187	3	4	27	1	0	0	0	0	1	0	0	0	7991	1232	43	5	4986	5	KALRN	3	124215187	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	82851	124215187	73807243	1882	24233											
KALRN	8997	broad.mit.edu	37	chr3	124379771	124379771	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcccctacttgttaggActtcctgagatacagtgaga	9	13	9	10	0	0	2	0	2	0	2	2	5	2	3	3	1	3	2	3	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:124379771A>G	uc003ehg.2	+	44	6342	c.6215A>G	c.(6214-6216)GAC>GGC	p.D2072G	KALRN_uc003ehi.2_Missense_Mutation_p.D413G|KALRN_uc003ehk.2_Missense_Mutation_p.D375G|KALRN_uc011bjz.1_Missense_Mutation_p.D164G	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2071	DH 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						ACTTGTTAGGACTTCCTGAGA	0.403													6	135					0	0	1	0	0		G	124379771	G	G	124379771	3	3	27	1	0	0	0	0	1	0	0	0	7991	289	10	3	6545	3	KALRN	3	124379771	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	164584	124379771	73642659	1883	24234											
HEG1	57493	broad.mit.edu	37	chr3	124728610	124728610	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catttgcagataaaggatccCtgagtattgttgcacatggc	11	12	10	8	0	0	2	0	1	0	1	1	3	1	3	1	2	2	4	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:124728610C>A	uc003ehs.3	-	8	3200	c.3132G>T	c.(3130-3132)CAG>CAT	p.Q1044H	HEG1_uc011bke.1_Missense_Mutation_p.Q1144H	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	1044	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						TAAAGGATCCCTGAGTATTGT	0.448													6	45					0.000157383	0.000166242	1	1	0		A	124728610	A	A	124728610	3	1	27	1	0	0	0	0	1	0	0	0	7060	680	24	5	1053	5	HEG1	3	124728610	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	348839	124728610	73293820	1884	24235											
HEG1	57493	broad.mit.edu	37	chr3	124731782	124731782	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaggatgggtcagcgagaGctgttttccagctgtagtct	7	13	13	8	1	3	1	2	0	1	1	4	3	4	2	1	2	3	4	1	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:124731782G>A	uc003ehs.3	-	6	2709	c.2641C>T	c.(2641-2643)CTC>TTC	p.L881F	HEG1_uc011bke.1_Missense_Mutation_p.L981F	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	881	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						GTCAGCGAGAGCTGTTTTCCA	0.507													16	144					0	0	1	0	0		A	124731782	A	A	124731782	3	1	27	1	0	0	0	0	1	0	0	0	7060	971	34	2	1552	2	HEG1	3	124731782	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3172	124731782	73290648	1885	24236											
SLC41A3	54946	broad.mit.edu	37	chr3	125734386	125734386	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttgtactgctgtttagaAacggttttgctcaagatgag	9	15	10	7	1	1	3	1	1	0	2	1	3	1	3	1	1	4	5	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:125734386A>G	uc003eij.2	-	8	1147	c.921T>C	c.(919-921)GTT>GTC	p.V307V	SLC41A3_uc003eii.2_Silent_p.V281V|SLC41A3_uc003eil.2_Silent_p.V307V|SLC41A3_uc003eik.2_Silent_p.V271V|SLC41A3_uc011bkh.1_Silent_p.V190V	NM_001008485	NP_001008485	Q96GZ6	S41A3_HUMAN	solute carrier family 41, member 3 isoform 1	307						integral to membrane|plasma membrane	cation transmembrane transporter activity				0				GBM - Glioblastoma multiforme(114;0.167)		GCTGTTTAGAAACGGTTTTGC	0.493													6	117					0	0	1	0	0		G	125734386	G	G	125734386	2	3	27	1	0	0	0	0	0	0	0	1	14656	1	1	3		3	SLC41A3	3	125734386	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1002604	125734386	72288044	1886	24237											
SLC41A3	54946	broad.mit.edu	37	chr3	125741771	125741771	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcactatacagaccatcagCacccctgcagagagagagag	15	5	9	12	0	2	4	2	0	0	4	2	6	2	4	3	0	3	2	3	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:125741771C>G	uc003eij.2	-	6	829	c.603G>C	c.(601-603)GTG>GTC	p.V201V	SLC41A3_uc003eii.2_Silent_p.V175V|SLC41A3_uc003eil.2_Silent_p.V201V|SLC41A3_uc003eik.2_Silent_p.V165V|SLC41A3_uc011bkh.1_Silent_p.V84V|SLC41A3_uc010hsd.1_Silent_p.V216V	NM_001008485	NP_001008485	Q96GZ6	S41A3_HUMAN	solute carrier family 41, member 3 isoform 1	201	Helical; (Potential).					integral to membrane|plasma membrane	cation transmembrane transporter activity				0				GBM - Glioblastoma multiforme(114;0.167)		AGACCATCAGCACCCCTGCAG	0.572													11	150					0	0	1	0	0		G	125741771	G	G	125741771	2	3	27	1	0	0	0	0	0	0	0	1	14656	697	25	5		5	SLC41A3	3	125741771	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7385	125741771	72280659	1887	24238											
SLC41A3	54946	broad.mit.edu	37	chr3	125787043	125787043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtccagcctccgctgcCgggtctctgtcccatccatc	4	10	9	18	2	1	0	0	0	1	0	7	0	5	0	6	1	3	2	6	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:125787043C>T	uc003eij.2	-	2	246	c.20G>A	c.(19-21)CGG>CAG	p.R7Q	SLC41A3_uc003eil.2_Missense_Mutation_p.R7Q|SLC41A3_uc003eik.2_Missense_Mutation_p.R7Q|SLC41A3_uc011bkh.1_Intron|SLC41A3_uc010hsd.1_Missense_Mutation_p.R7Q	NM_001008485	NP_001008485	Q96GZ6	S41A3_HUMAN	solute carrier family 41, member 3 isoform 1	7						integral to membrane|plasma membrane	cation transmembrane transporter activity				0				GBM - Glioblastoma multiforme(114;0.167)		CCTCCGCTGCCGGGTCTCTGT	0.627													8	74					0	0	1	0	0		T	125787043	T	T	125787043	3	4	27	1	0	0	0	0	1	0	0	0	14656	652	23	1	1844	1	SLC41A3	3	125787043	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	45272	125787043	72235387	1888	24239											
ALDH1L1	10840	broad.mit.edu	37	chr3	125850318	125850318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagcgtgtagacggcacccGcatccagggcctcaatggtg	8	6	13	14	3	1	1	1	0	0	1	2	1	2	1	4	3	1	3	4	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:125850318G>A	uc003eim.1	-	13	1722	c.1532C>T	c.(1531-1533)GCG>GTG	p.A511V	ALDH1L1_uc010hse.1_Intron|ALDH1L1_uc011bki.1_Missense_Mutation_p.A410V|ALDH1L1_uc003eio.2_Missense_Mutation_p.A213V	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	511	Aldehyde dehydrogenase.		A -> V (in a colorectal cancer sample; somatic mutation).		10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity	p.A511V(1)		large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	GACGGCACCCGCATCCAGGGC	0.642													13	48					0	0	1	0	0		A	125850318	A	A	125850318	3	1	27	1	0	0	0	0	1	0	0	0	494	1087	38	1	1220	1	ALDH1L1	3	125850318	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	63275	125850318	72172112	1889	24240											
ALDH1L1	10840	broad.mit.edu	37	chr3	125879768	125879768	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtggccctccttcctcaGgtggcagtaaacttcctggc	5	12	10	14	1	1	0	1	0	0	0	5	0	4	0	4	4	1	2	4	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:125879768G>T	uc003eim.1	-	2	245	c.55C>A	c.(55-57)CTG>ATG	p.L19M	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Missense_Mutation_p.L19M|ALDH1L1_uc010hsf.1_Translation_Start_Site|ALDH1L1_uc003eip.1_5'Flank|ALDH1L1_uc011bkj.1_Translation_Start_Site	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	19	GART.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	TCCTTCCTCAGGTGGCAGTAA	0.552													6	90					0.00116845	0.00121513	1	1	0		T	125879768	T	T	125879768	3	4	27	1	0	0	0	0	1	0	0	0	494	991	35	5	2741	5	ALDH1L1	3	125879768	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	29450	125879768	72142662	1890	24241											
UROC1	131669	broad.mit.edu	37	chr3	126224593	126224593	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactgcggccttggcctgaGccccactcattccgccgagc	5	8	11	17	3	1	2	1	2	0	0	2	3	2	2	6	2	3	0	6	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:126224593G>T	uc003eiz.1	-	8	796	c.764C>A	c.(763-765)GCT>GAT	p.A255D	UROC1_uc010hsi.1_Missense_Mutation_p.A255D	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	255					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		CTTGGCCTGAGCCCCACTCAT	0.502													9	44					0.00829132	0.0085371	1	1	0		T	126224593	T	T	126224593	3	4	27	1	0	0	0	0	1	0	0	0	17054	971	34	5	1502	5	UROC1	3	126224593	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	344825	126224593	71797837	1891	24242											
PLXNA1	5361	broad.mit.edu	37	chr3	126730880	126730880	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcaccctggccgcacggaAcctgccacagccacagtcag	10	4	9	18	2	2	0	2	0	0	0	2	1	2	1	5	2	3	1	5	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:126730880A>G	uc003ejg.2	+	9	2127	c.2123A>G	c.(2122-2124)AAC>AGC	p.N708S		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	731	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GCCGCACGGAACCTGCCACAG	0.627													4	38					0	0	1	0	0		G	126730880	G	G	126730880	3	3	27	1	0	0	0	0	1	0	0	0	12138	43	2	3	2226	3	PLXNA1	3	126730880	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	506287	126730880	71291550	1892	24243											
PLXNA1	5361	broad.mit.edu	37	chr3	126735848	126735848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccgtgaaccccgaatcCgggccaagtatggaggcatt	9	8	12	12	3	0	1	0	1	0	0	2	3	2	2	5	3	1	2	5	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:126735848C>T	uc003ejg.2	+	16	3179	c.3175C>T	c.(3175-3177)CGG>TGG	p.R1059W		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1082	Extracellular (Potential).|IPT/TIG 3.				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		ACCCCGAATCCGGGCCAAGTA	0.637													4	61					0	0	1	0	0		T	126735848	T	T	126735848	3	4	27	1	0	0	0	0	1	0	0	0	12138	643	23	1	3306	1	PLXNA1	3	126735848	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4968	126735848	71286582	1893	24244											
PLXNA1	5361	broad.mit.edu	37	chr3	126749143	126749143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcttcagcacggcacacCggggctcagccctgccgctg	6	6	11	18	3	3	0	2	0	1	0	3	0	3	0	4	3	3	4	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:126749143C>T	uc003ejg.2	+	28	5054	c.5050C>T	c.(5050-5052)CGG>TGG	p.R1684W	PLXNA1_uc003ejh.2_Missense_Mutation_p.R352W	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1707	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CACGGCACACCGGGGCTCAGC	0.632													21	78					0	0	1	0	0		T	126749143	T	T	126749143	3	4	27	1	0	0	0	0	1	0	0	0	12138	643	23	1	5229	1	PLXNA1	3	126749143	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13295	126749143	71273287	1894	24245											
MCM2	4171	broad.mit.edu	37	chr3	127327330	127327330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccattctcctcgcagatctgGtggacagctgcaagccagga	9	8	11	13	1	2	1	0	0	2	1	4	3	2	3	3	3	3	3	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:127327330G>A	uc003ejp.2	+	7	1264	c.1207G>A	c.(1207-1209)GTG>ATG	p.V403M	MCM2_uc011bkm.1_Missense_Mutation_p.V273M|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.V287M	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	403					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						CGCAGATCTGGTGGACAGCTG	0.617													6	65					0	0	1	0	0		A	127327330	A	A	127327330	3	1	27	1	0	0	0	0	1	0	0	0	9404	1261	44	4	1233	4	MCM2	3	127327330	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	578187	127327330	70695100	1895	24246											
ABTB1	80325	broad.mit.edu	37	chr3	127395250	127395250	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaatggaagggcaagagTgtcgtggttctcaggcaccc	11	7	13	10	1	1	1	1	0	1	1	3	2	1	2	2	4	0	3	2	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:127395250T>C	uc003ejt.2	+	5	544	c.456T>C	c.(454-456)AGT>AGC	p.S152S	ABTB1_uc003ejr.2_Silent_p.S10S|ABTB1_uc003ejs.2_Silent_p.S127S|ABTB1_uc003eju.2_Silent_p.S10S|ABTB1_uc010hsm.2_5'Flank	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	152	BTB 1.					cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						AGGGCAAGAGTGTCGTGGTTC	0.582													21	72					0	0	1	0	0		C	127395250	C	C	127395250	2	2	27	1	0	0	0	0	0	0	0	1	102	1693	59	3		3	ABTB1	3	127395250	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	67920	127395250	70627180	1896	24247											
RUVBL1	8607	broad.mit.edu	37	chr3	127817786	127817786	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atggacaggatatcttgtccCccctgcataagagaagactt	12	10	9	10	0	1	2	0	0	1	2	2	5	2	4	3	2	1	1	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:127817786C>T	uc003ekh.2	-	7	860	c.756G>A	c.(754-756)GGG>GGA	p.G252G	RUVBL1_uc003eke.2_5'UTR|RUVBL1_uc003ekf.2_Silent_p.G192G|RUVBL1_uc010hss.2_Silent_p.G252G	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1	252					cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		TATCTTGTCCCCCCTGCATAA	0.517													6	107					0	0	1	0	0		T	127817786	T	T	127817786	2	4	27	1	0	0	0	0	0	0	0	1	13777	610	22	4		4	RUVBL1	3	127817786	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	422536	127817786	70204644	1897	24248											
RUVBL1	8607	broad.mit.edu	37	chr3	127831737	127831737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgacactacttaccaatggCcctgcggaagttctccatca	10	10	8	13	1	2	1	1	1	1	0	3	2	2	2	3	2	3	1	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:127831737C>T	uc003ekh.2	-	3	459	c.355G>A	c.(355-357)GCC>ACC	p.A119T	RUVBL1_uc003ekf.2_Missense_Mutation_p.A59T|RUVBL1_uc010hss.2_Missense_Mutation_p.A119T	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1	119					cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		TTACCAATGGCCCTGCGGAAG	0.512													5	96					0	0	1	0	0		T	127831737	T	T	127831737	3	4	27	1	0	0	0	0	1	0	0	0	13777	739	26	2	1051	2	RUVBL1	3	127831737	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13951	127831737	70190693	1898	24249											
EEFSEC	60678	broad.mit.edu	37	chr3	127965841	127965841	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaaagagacaggcagcaaTtgataaaatgaccaagaaaa	22	4	10	5	0	0	4	0	2	0	2	0	6	0	5	1	2	1	2	1	2	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:127965841T>A	uc003eki.2	+	2	517	c.479T>A	c.(478-480)ATT>AAT	p.I160N	EEFSEC_uc003ekj.2_Missense_Mutation_p.I160N	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,	160						cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						CAGGCAGCAATTGATAAAATG	0.483													7	184					0	0	1	0	0		A	127965841	A	A	127965841	3	1	27	1	0	0	0	0	1	0	0	0	4937	1493	52	5	485	5	EEFSEC	3	127965841	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	134104	127965841	70056589	1899	24250											
EEFSEC	60678	broad.mit.edu	37	chr3	128060406	128060406	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcaacttctctcaagaaTaccttttccaggagcagtac	11	13	5	12	0	3	1	2	0	1	1	5	2	4	2	2	1	4	2	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:128060406T>A	uc003eki.2	+	5	1155	c.1117T>A	c.(1117-1119)TAC>AAC	p.Y373N	EEFSEC_uc003ekj.2_Missense_Mutation_p.Y318N	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,	373						cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						CTCTCAAGAATACCTTTTCCA	0.517													3	59					0	0	1	0	0		A	128060406	A	A	128060406	3	1	27	1	0	0	0	0	1	0	0	0	4937	1406	49	5	1135	5	EEFSEC	3	128060406	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	94565	128060406	69962024	1900	24251											
EEFSEC	60678	broad.mit.edu	37	chr3	128077166	128077166	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccactggggaactgggcaTcatcgacagtgccttcggcc	7	8	13	13	2	1	0	1	0	0	0	4	2	2	1	3	4	2	1	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:128077166T>C	uc003eki.2	+	6	1588	c.1550T>C	c.(1549-1551)ATC>ACC	p.I517T	EEFSEC_uc003ekj.2_Intron	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,	517						cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						GAACTGGGCATCATCGACAGT	0.567													8	52					0	0	1	0	0		C	128077166	C	C	128077166	3	2	27	1	0	0	0	0	1	0	0	0	4937	1435	50	3	1572	3	EEFSEC	3	128077166	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	16760	128077166	69945264	1901	24252											
KIAA1257	57501	broad.mit.edu	37	chr3	128707683	128707683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaatgtggtaaaaacgaCgcatctttgtaacagaactg	15	10	8	8	2	2	1	1	0	1	1	2	2	2	1	0	1	3	3	0	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:128707683C>T	uc003elj.3	-	3	537	c.341G>A	c.(340-342)CGT>CAT	p.R114H	KIAA1257_uc003elg.1_Missense_Mutation_p.R114H|KIAA1257_uc003eli.3_Missense_Mutation_p.R2H	NM_020741	NP_065792	Q9ULG3	K1257_HUMAN	hypothetical protein LOC57501	114											0						GTAAAAACGACGCATCTTTGT	0.363													9	52					0	0	1	0	0		T	128707683	T	T	128707683	3	4	27	1	0	0	0	0	1	0	0	0	8234	536	19	1	912	1	KIAA1257	3	128707683	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	630517	128707683	69314747	1902	24253											
KIAA1257	57501	broad.mit.edu	37	chr3	128711957	128711957	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcacgtcggagctgaaaGtgctggcaggctcagatgag	9	6	18	8	2	1	3	1	2	0	1	2	4	1	4	0	5	2	5	0	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:128711957G>T	uc003elj.3	-	2	387	c.191C>A	c.(190-192)ACT>AAT	p.T64N	KIAA1257_uc003elg.1_Missense_Mutation_p.T64N|KIAA1257_uc003eli.3_5'Flank	NM_020741	NP_065792	Q9ULG3	K1257_HUMAN	hypothetical protein LOC57501	64											0						GGAGCTGAAAGTGCTGGCAGG	0.587													12	126					6.40141e-05	6.80234e-05	1	1	0		T	128711957	T	T	128711957	3	4	27	1	0	0	0	0	1	0	0	0	8234	1029	36	5	1066	5	KIAA1257	3	128711957	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4274	128711957	69310473	1903	24254											
GP9	2815	broad.mit.edu	37	chr3	128780907	128780907	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgcacgcccgaggccctgCtgcaggtccgctgtgccagc	5	5	13	18	4	0	0	0	0	0	0	1	1	1	0	5	2	4	4	5	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:128780907C>T	uc003elm.2	+	3	512	c.325C>T	c.(325-327)CTG>TTG	p.L109L		NM_000174	NP_000165	P14770	GPIX_HUMAN	glycoprotein IX (platelet) precursor	109	LRRCT.|Extracellular (Potential).				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane	protein binding				0					Quinine(DB00468)	CGAGGCCCTGCTGCAGGTCCG	0.701													4	15					0	0	1	0	0		T	128780907	T	T	128780907	2	4	27	1	0	0	0	0	0	0	0	1	6600	796	28	2		2	GP9	3	128780907	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	68950	128780907	69241523	1904	24255											
RAB43	339122	broad.mit.edu	37	chr3	128813922	128813922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagctcctcttggtgatgtCgtaggcaaggatggccccat	7	10	14	10	1	1	1	0	1	1	0	3	3	2	3	3	5	1	3	3	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:128813922C>T	uc003eln.1	-	2	582	c.295G>A	c.(295-297)GAC>AAC	p.D99N	RAB43_uc003elo.1_Silent_p.T314T|RAB43_uc010hsy.1_Missense_Mutation_p.D99N	NM_198490	NP_940892	Q86YS6	RAB43_HUMAN	RAB43 protein	99					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			lung(1)	1						TTGGTGATGTCGTAGGCAAGG	0.572													4	47					0	0	1	0	0		T	128813922	T	T	128813922	3	4	27	1	0	0	0	0	1	0	0	0	12970	884	31	1	351	1	RAB43	3	128813922	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	33015	128813922	69208508	1905	24256											
IFT122	55764	broad.mit.edu	37	chr3	129185775	129185775	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagagagaatgaggatgcCgaggatgtcattgtcaacag	15	7	13	6	1	2	3	2	1	0	2	2	7	2	5	1	2	3	0	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:129185775C>T	uc003emm.2	+	8	812	c.606C>T	c.(604-606)GCC>GCT	p.A202A	IFT122_uc003eml.2_Silent_p.A253A|IFT122_uc003emn.2_Intron|IFT122_uc003emo.2_Intron|IFT122_uc003emp.2_Silent_p.A52A|IFT122_uc010htc.2_Intron|IFT122_uc011bky.1_Intron|IFT122_uc003emq.2_Intron|IFT122_uc003emr.2_Intron|IFT122_uc011bla.1_Intron|IFT122_uc011bkx.1_Intron|IFT122_uc011bkz.1_Intron	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	202					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						ATGAGGATGCCGAGGATGTCA	0.433													15	97					0	0	1	0	0		T	129185775	T	T	129185775	2	4	27	1	0	0	0	0	0	0	0	1	7571	639	23	1		1	IFT122	3	129185775	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	371853	129185775	68836655	1906	24257											
IFT122	55764	broad.mit.edu	37	chr3	129195221	129195221	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctactttactaaaggcgagTacattttgctggggggttca	9	13	12	7	1	1	0	1	0	0	0	1	1	1	0	0	4	4	4	0	4	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:129195221T>C	uc003emm.2	+	10	1086	c.880T>C	c.(880-882)TAC>CAC	p.Y294H	IFT122_uc003eml.2_Missense_Mutation_p.Y345H|IFT122_uc003emn.2_Missense_Mutation_p.Y235H|IFT122_uc003emo.2_Missense_Mutation_p.Y183H|IFT122_uc003emp.2_Missense_Mutation_p.Y144H|IFT122_uc010htc.2_Missense_Mutation_p.Y286H|IFT122_uc011bky.1_Missense_Mutation_p.Y85H|IFT122_uc003emq.2_Missense_Mutation_p.Y134H|IFT122_uc003emr.2_Missense_Mutation_p.Y85H|IFT122_uc011bla.1_Missense_Mutation_p.Y85H|IFT122_uc011bkx.1_Missense_Mutation_p.Y134H|IFT122_uc011bkz.1_RNA	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	294	WD 5.				camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						TAAAGGCGAGTACATTTTGCT	0.498													8	92					0	0	1	0	0		C	129195221	C	C	129195221	3	2	27	1	0	0	0	0	1	0	0	0	7571	1638	57	3	1075	3	IFT122	3	129195221	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9446	129195221	68827209	1907	24258											
IFT122	55764	broad.mit.edu	37	chr3	129195527	129195527	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcggctgccaggacggcAccatttccttctaccagctt	6	11	10	14	2	1	0	0	0	1	0	3	1	2	1	4	4	3	3	4	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:129195527A>G	uc003emm.2	+	11	1236	c.1030A>G	c.(1030-1032)ACC>GCC	p.T344A	IFT122_uc003eml.2_Missense_Mutation_p.T395A|IFT122_uc003emn.2_Missense_Mutation_p.T285A|IFT122_uc003emo.2_Missense_Mutation_p.T233A|IFT122_uc003emp.2_Missense_Mutation_p.T194A|IFT122_uc010htc.2_Missense_Mutation_p.T336A|IFT122_uc011bky.1_Missense_Mutation_p.T135A|IFT122_uc003emq.2_Missense_Mutation_p.T184A|IFT122_uc003emr.2_Missense_Mutation_p.T135A|IFT122_uc011bla.1_Missense_Mutation_p.T135A|IFT122_uc011bkx.1_Missense_Mutation_p.T184A|IFT122_uc011bkz.1_RNA	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	344	WD 6.				camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						CCAGGACGGCACCATTTCCTT	0.532													6	107					0	0	1	0	0		G	129195527	G	G	129195527	3	3	27	1	0	0	0	0	1	0	0	0	7571	159	6	3	1229	3	IFT122	3	129195527	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	306	129195527	68826903	1908	24259											
IFT122	55764	broad.mit.edu	37	chr3	129226602	129226602	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccatgccatccatcgccaCacggtaaggtggctgggtca	9	8	11	13	2	1	0	1	0	0	0	3	0	2	0	4	4	2	2	4	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:129226602C>G	uc003emm.2	+	23	3089	c.2883C>G	c.(2881-2883)CAC>CAG	p.H961Q	IFT122_uc003eml.2_Missense_Mutation_p.H1012Q|IFT122_uc003emn.2_Missense_Mutation_p.H902Q|IFT122_uc003emo.2_Missense_Mutation_p.H851Q|IFT122_uc003emp.2_Missense_Mutation_p.H811Q|IFT122_uc010htc.2_Missense_Mutation_p.H954Q|IFT122_uc011bky.1_Missense_Mutation_p.H752Q|IFT122_uc003emq.2_Missense_Mutation_p.H801Q|IFT122_uc003emr.2_Missense_Mutation_p.H714Q|IFT122_uc011bla.1_Missense_Mutation_p.H735Q|IFT122_uc010hte.2_Missense_Mutation_p.H287Q|IFT122_uc003ems.2_Missense_Mutation_p.H343Q|IFT122_uc011bkx.1_Missense_Mutation_p.H802Q|IFT122_uc010htd.1_Missense_Mutation_p.H440Q	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	961					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						TCCATCGCCACACGGTAAGGT	0.552													9	89					0	0	1	0	0		G	129226602	G	G	129226602	3	3	27	1	0	0	0	0	1	0	0	0	7571	477	17	5	3133	5	IFT122	3	129226602	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31075	129226602	68795828	1909	24260											
RHO	6010	broad.mit.edu	37	chr3	129249874	129249874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgccgcacccccactcGccggctggtccaggtaatgg	5	6	12	18	4	0	0	0	0	0	0	2	0	1	0	6	4	1	3	6	4	1	1	rs139731264		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:129249874G>A	uc003emt.2	+	2	612	c.517G>A	c.(517-519)GCC>ACC	p.A173T		NM_000539	NP_000530	P08100	OPSD_HUMAN	rhodopsin	173	Helical; Name=4; (Potential).				protein-chromophore linkage|rhodopsin mediated signaling pathway	Golgi apparatus|integral to plasma membrane|photoreceptor inner segment membrane|photoreceptor outer segment membrane	G-protein coupled receptor activity|metal ion binding|photoreceptor activity|protein binding				0		all_neural(597;0.0227)|Myeloproliferative disorder(1037;0.0255)|Prostate(884;0.183)		GBM - Glioblastoma multiforme(114;2.58e-05)|Lung(219;0.0234)	Halothane(DB01159)	ACCCCCACTCGCCGGCTGGTC	0.612													5	52					0	0	1	0	0		A	129249874	A	A	129249874	3	1	27	1	0	0	0	0	1	0	0	0	13355	1087	38	1	523	1	RHO	3	129249874	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23272	129249874	68772556	1910	24261											
PLXND1	23129	broad.mit.edu	37	chr3	129279264	129279264	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgggctccgccagctcgTccgtaggcagcacctgggag	5	8	14	14	3	1	0	0	0	1	0	4	1	3	1	4	3	2	5	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:129279264T>C	uc003emx.2	-	31	5142	c.5042A>G	c.(5041-5043)GAC>GGC	p.D1681G	PLXND1_uc003emw.2_5'Flank|PLXND1_uc011blb.1_Missense_Mutation_p.D349G	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1681	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						CGCCAGCTCGTCCGTAGGCAG	0.652													3	21					0	0	1	0	0		C	129279264	C	C	129279264	3	2	27	1	0	0	0	0	1	0	0	0	12146	1667	58	3	759	3	PLXND1	3	129279264	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	29390	129279264	68743166	1911	24262											
TRH	7200	broad.mit.edu	37	chr3	129695921	129695921	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggccctgggaggcccctgTgggccccagggagcctatgg	5	5	18	13	0	0	0	0	0	0	0	0	2	0	2	6	6	1	0	6	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:129695921T>C	uc003enc.2	+	3	1152	c.591T>C	c.(589-591)TGT>TGC	p.C197C		NM_007117	NP_009048	P20396	TRH_HUMAN	thyrotropin-releasing hormone	197					cell-cell signaling|hormone-mediated signaling pathway	extracellular region|soluble fraction	neuropeptide hormone activity|thyrotropin-releasing hormone activity			ovary(1)	1						GAGGCCCCTGTGGGCCCCAGG	0.532													4	46					0	0	1	0	0		C	129695921	C	C	129695921	2	2	27	1	0	0	0	0	0	0	0	1	16504	1702	59	3		3	TRH	3	129695921	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	416657	129695921	68326509	1912	24263											
ALG1L2	644974	broad.mit.edu	37	chr3	129816094	129816094	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aactggcagctcagctgcagGtagccatgtctgccaccacg	9	7	11	14	1	2	0	1	0	1	0	2	0	2	0	3	2	6	5	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:129816094G>A	uc011bld.1	+	7	801	c.615_splice	c.e7+1	p.Q205_splice	ALG1L2_uc010hth.2_Splice_Site	NM_001136152	NP_001129624	C9J202	AG1L2_HUMAN	asparagine-linked glycosylation 1-like 2						biosynthetic process		transferase activity, transferring glycosyl groups				0						TCAGCTGCAGGTAGCCATGTC	0.567													6	40					0	0	1	0	0		A	129816094	A	A	129816094	5	1	27	1	0	0	0	0	0	0	1	0	518	1275	44	4	642	4	ALG1L2	3	129816094	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	120173	129816094	68206336	1913	24264											
COL6A6	131873	broad.mit.edu	37	chr3	130285978	130285978	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagtttatgctatcgggaTcaaggaggccaaccaaacac	13	7	10	11	2	1	0	1	0	0	0	2	3	1	2	3	3	3	2	3	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:130285978T>C	uc010htl.2	+	4	1746	c.1715T>C	c.(1714-1716)ATC>ACC	p.I572T		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	572	VWFA 3.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GCTATCGGGATCAAGGAGGCC	0.453													10	172					0	0	1	0	0		C	130285978	C	C	130285978	3	2	27	1	0	0	0	0	1	0	0	0	3706	1435	50	3	1729	3	COL6A6	3	130285978	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	469884	130285978	67736452	1914	24265											
COL6A6	131873	broad.mit.edu	37	chr3	130300604	130300604	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaccaatgccatggaaaaAtattctcccaagtttgagat	14	11	8	8	0	1	2	0	2	1	1	2	4	1	3	3	1	1	1	3	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:130300604A>C	uc010htl.2	+	8	3778	c.3747A>C	c.(3745-3747)AAA>AAC	p.K1249N	COL6A6_uc003eni.3_5'Flank	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1249	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CCATGGAAAAATATTCTCCCA	0.428													11	105					0	0	1	0	0		C	130300604	C	C	130300604	3	2	27	1	0	0	0	0	1	0	0	0	3706	98	4	5	3777	5	COL6A6	3	130300604	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14626	130300604	67721826	1915	24266											
COL6A6	131873	broad.mit.edu	37	chr3	130311908	130311908	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatctatcttttcagggaGaagttggggaaaatggaatt	13	13	11	4	0	3	1	1	0	2	1	3	4	3	3	0	4	0	1	0	4	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:130311908G>T	uc010htl.2	+	15	4406	c.4375G>T	c.(4375-4377)GAA>TAA	p.E1459*	COL6A6_uc003eni.3_5'UTR	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1459	Triple-helical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TTTTCAGGGAGAAGTTGGGGA	0.383													22	237					2.41591e-17	2.70442e-17	1	1	0		T	130311908	T	T	130311908	4	4	27	1	0	0	0	0	0	1	0	0	3706	943	33	5	4433	5	COL6A6	3	130311908	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11304	130311908	67710522	1916	24267											
COL6A6	131873	broad.mit.edu	37	chr3	130311932	130311932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggggaaaatggaattgacGgattaaacggagaacaggta	16	8	14	3	2	0	2	0	1	0	1	0	6	0	5	0	6	2	1	0	6	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:130311932G>A	uc010htl.2	+	15	4430	c.4399G>A	c.(4399-4401)GGA>AGA	p.G1467R	COL6A6_uc003eni.3_5'UTR	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1467	Triple-helical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TGGAATTGACGGATTAAACGG	0.383													10	265					0	0	1	0	0		A	130311932	A	A	130311932	3	1	27	1	0	0	0	0	1	0	0	0	3706	1117	39	1	4457	1	COL6A6	3	130311932	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	24	130311932	67710498	1917	24268											
COL6A6	131873	broad.mit.edu	37	chr3	130381128	130381128	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatggtgtgaagtttgtgAagtcctttataaactcaatc	11	16	9	5	0	1	2	1	2	0	0	3	2	2	2	1	1	1	2	1	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:130381128A>G	uc010htl.2	+	34	6509	c.6478A>G	c.(6478-6480)AAG>GAG	p.K2160E	COL6A6_uc003eni.3_Missense_Mutation_p.K259E	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	2160	VWFA 9.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GAAGTTTGTGAAGTCCTTTAT	0.418													19	186					0	0	1	0	0		G	130381128	G	G	130381128	3	3	27	1	0	0	0	0	1	0	0	0	3706	247	9	3	6612	3	COL6A6	3	130381128	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	69196	130381128	67641302	1918	24269											
PIK3R4	30849	broad.mit.edu	37	chr3	130405096	130405096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtccacagcaaaggaaGtgatgaggcccgactttaaa	14	7	12	8	1	0	2	0	2	0	0	1	5	1	4	2	3	1	1	2	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:130405096G>A	uc003enj.2	-	15	4015	c.3434C>T	c.(3433-3435)ACT>ATT	p.T1145I		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	1145	WD 4.				fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						AGCAAAGGAAGTGATGAGGCC	0.478													6	75					0	0	1	0	0		A	130405096	A	A	130405096	3	1	27	1	0	0	0	0	1	0	0	0	11940	1029	36	4	666	4	PIK3R4	3	130405096	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23968	130405096	67617334	1919	24270											
PIK3R4	30849	broad.mit.edu	37	chr3	130447430	130447430	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaatacacacagccgtgTtattccattttccatcaagg	14	11	6	10	1	1	1	1	0	0	1	3	1	3	1	3	1	2	1	3	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:130447430T>C	uc003enj.2	-	6	2265	c.1684A>G	c.(1684-1686)ACA>GCA	p.T562A		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	562					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						CACAGCCGTGTTATTCCATTT	0.393													7	68					0	0	1	0	0		C	130447430	C	C	130447430	3	2	27	1	0	0	0	0	1	0	0	0	11940	1725	60	3	2452	3	PIK3R4	3	130447430	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	42334	130447430	67575000	1920	24271											
ATP2C1	27032	broad.mit.edu	37	chr3	130672757	130672757	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagctgcaactaatggAgatcttgcatcgagaagtaa	14	8	10	9	1	1	2	0	0	1	2	2	4	1	2	1	1	5	4	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:130672757A>G	uc003enl.2	+	9	846	c.624A>G	c.(622-624)GGA>GGG	p.G208G	ATP2C1_uc011blg.1_Silent_p.G242G|ATP2C1_uc011blh.1_Silent_p.G203G|ATP2C1_uc011bli.1_Silent_p.G242G|ATP2C1_uc003enk.2_Silent_p.G192G|ATP2C1_uc003enm.2_Silent_p.G208G|ATP2C1_uc003enn.2_Silent_p.G192G|ATP2C1_uc003eno.2_Silent_p.G208G|ATP2C1_uc003enp.2_Silent_p.G208G|ATP2C1_uc003enq.2_Silent_p.G208G|ATP2C1_uc003enr.2_Silent_p.G208G|ATP2C1_uc003ens.2_Silent_p.G208G|ATP2C1_uc003ent.2_Silent_p.G208G	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	208	Cytoplasmic (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	CAACTAATGGAGATCTTGCAT	0.443									Hailey-Hailey_disease				5	97					0	0	1	0	0		G	130672757	G	G	130672757	2	3	27	1	0	0	0	0	0	0	0	1	1144	291	11	3		3	ATP2C1	3	130672757	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	225327	130672757	67349673	1921	24272											
ATP2C1	27032	broad.mit.edu	37	chr3	130682820	130682820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgttggttatagtttggCtgtagcagcaattcctgaag	10	15	11	5	0	0	1	0	1	0	0	1	1	1	1	1	2	2	7	1	2	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:130682820C>T	uc003enl.2	+	13	1127	c.905C>T	c.(904-906)GCT>GTT	p.A302V	ATP2C1_uc011blg.1_Missense_Mutation_p.A336V|ATP2C1_uc011blh.1_Missense_Mutation_p.A297V|ATP2C1_uc011bli.1_Missense_Mutation_p.A336V|ATP2C1_uc003enk.2_Missense_Mutation_p.A286V|ATP2C1_uc003enm.2_Missense_Mutation_p.A302V|ATP2C1_uc003enn.2_Missense_Mutation_p.A286V|ATP2C1_uc003eno.2_Missense_Mutation_p.A302V|ATP2C1_uc003enp.2_Missense_Mutation_p.A302V|ATP2C1_uc003enq.2_Missense_Mutation_p.A302V|ATP2C1_uc003enr.2_Missense_Mutation_p.A302V|ATP2C1_uc003ens.2_Missense_Mutation_p.A302V|ATP2C1_uc003ent.2_Missense_Mutation_p.A302V|ATP2C1_uc003enu.2_5'UTR	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	302	Helical; Name=4; (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	TATAGTTTGGCTGTAGCAGCA	0.378									Hailey-Hailey_disease				22	100					0	0	1	0	0		T	130682820	T	T	130682820	3	4	27	1	0	0	0	0	1	0	0	0	1144	797	28	2	951	2	ATP2C1	3	130682820	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10063	130682820	67339610	1922	24273											
ASTE1	28990	broad.mit.edu	37	chr3	130743433	130743433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagctccaagaggaagacGcgctttacttaagaatgtct	12	10	11	8	2	1	3	0	0	1	3	2	4	2	4	1	2	2	3	1	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:130743433G>A	uc003env.1	-	3	1160	c.718C>T	c.(718-720)CGT>TGT	p.R240C	NEK11_uc003enx.2_5'Flank|NEK11_uc003eny.2_5'Flank|NEK11_uc003eoa.2_5'Flank|NEK11_uc003enz.2_5'Flank|NEK11_uc010htn.2_5'Flank|NEK11_uc011blk.1_5'Flank|NEK11_uc011bll.1_5'Flank|NEK11_uc003enw.1_5'Flank|NEK11_uc011blm.1_5'Flank|ASTE1_uc010htm.1_Missense_Mutation_p.R240C|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	240					DNA repair		nuclease activity				0						AGAGGAAGACGCGCTTTACTT	0.453													14	57					0	0	1	0	0		A	130743433	A	A	130743433	3	1	27	1	0	0	0	0	1	0	0	0	1063	1087	38	1	1337	1	ASTE1	3	130743433	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	60613	130743433	67278997	1923	24274											
CPNE4	131034	broad.mit.edu	37	chr3	131271320	131271320	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcttcattaaagttgattgCaaagtcatgagagacctaga	14	12	9	6	0	3	4	2	2	1	2	3	5	3	4	1	0	1	2	1	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:131271320C>A	uc003eok.2	-	13	1567	c.1132G>T	c.(1132-1134)GCA>TCA	p.A378S	CPNE4_uc011blq.1_Missense_Mutation_p.A396S|CPNE4_uc003eol.2_Missense_Mutation_p.A396S|CPNE4_uc003eom.2_Missense_Mutation_p.A378S	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	378	VWFA.									upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						AAGTTGATTGCAAAGTCATGA	0.388													5	97					0.00116845	0.00121513	1	1	0		A	131271320	A	A	131271320	3	1	27	1	0	0	0	0	1	0	0	0	3817	710	25	5	557	5	CPNE4	3	131271320	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	527887	131271320	66751110	1924	24275											
ACPP	55	broad.mit.edu	37	chr3	132051108	132051108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acctggcagccctgtttcccCcagaaggtgtcagcatctgg	7	9	11	14	0	2	1	1	0	1	1	3	1	3	1	4	3	2	3	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:132051108C>T	uc010htp.2	+	4	466	c.376C>T	c.(376-378)CCA>TCA	p.P126S	ACPP_uc003eon.3_Missense_Mutation_p.P126S|ACPP_uc003eop.3_Missense_Mutation_p.P126S	NM_001099	NP_001090	P15309	PPAP_HUMAN	acid phosphatase, prostate short isoform	126						extracellular region|lysosomal membrane	5'-nucleotidase activity|acid phosphatase activity			ovary(1)	1						CCTGTTTCCCCCAGAAGGTGT	0.493													13	154					0	0	1	0	0		T	132051108	T	T	132051108	3	4	27	1	0	0	0	0	1	0	0	0	167	623	22	4	390	4	ACPP	3	132051108	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	779788	132051108	65971322	1925	24276											
ACPP	55	broad.mit.edu	37	chr3	132068825	132068825	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcagataccaagctacaaAaaactcatcatgtattctgc	16	10	4	11	0	4	1	3	0	1	1	4	1	4	1	1	0	5	2	1	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:132068825A>G	uc010htp.2	+	8	933	c.843A>G	c.(841-843)AAA>AAG	p.K281K	ACPP_uc003eon.3_Silent_p.K248K|ACPP_uc003eop.3_Silent_p.K281K	NM_001099	NP_001090	P15309	PPAP_HUMAN	acid phosphatase, prostate short isoform	281						extracellular region|lysosomal membrane	5'-nucleotidase activity|acid phosphatase activity			ovary(1)	1						CAAGCTACAAAAAACTCATCA	0.284													6	48					0	0	1	0	0		G	132068825	G	G	132068825	2	3	27	1	0	0	0	0	0	0	0	1	167	11	1	3		3	ACPP	3	132068825	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17717	132068825	65953605	1926	24277											
DNAJC13	23317	broad.mit.edu	37	chr3	132202234	132202234	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attagatgcaagaattgtggAccaaaggaatgttaaatgca	17	10	10	4	0	0	2	0	0	0	2	0	4	0	4	1	2	2	3	1	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:132202234A>G	uc003eor.2	+	28	3060	c.2995A>G	c.(2995-2997)ACC>GCC	p.T999A		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	999							heat shock protein binding			ovary(1)|breast(1)	2						AGAATTGTGGACCAAAGGAAT	0.393													4	56					0	0	1	0	0		G	132202234	G	G	132202234	3	3	27	1	0	0	0	0	1	0	0	0	4638	275	10	3	3101	3	DNAJC13	3	132202234	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	133409	132202234	65820196	1927	24278											
DNAJC13	23317	broad.mit.edu	37	chr3	132207831	132207831	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttctagatttttgaaatAcacacataccaaacaggctt	14	14	4	9	0	2	2	0	1	2	1	2	2	2	2	1	1	3	1	1	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:132207831A>G	uc003eor.2	+	31	3499	c.3434A>G	c.(3433-3435)TAC>TGC	p.Y1145C		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1145							heat shock protein binding			ovary(1)|breast(1)	2						TTTTTGAAATACACACATACC	0.328													11	65					0	0	1	0	0		G	132207831	G	G	132207831	3	3	27	1	0	0	0	0	1	0	0	0	4638	391	14	3	3552	3	DNAJC13	3	132207831	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5597	132207831	65814599	1928	24279											
DNAJC13	23317	broad.mit.edu	37	chr3	132222133	132222133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtatttggctgaagaacaaGcaactccagaaaatccaacc	16	7	8	10	0	0	3	0	1	0	2	2	3	2	3	3	2	4	3	3	2	8	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:132222133G>A	uc003eor.2	+	41	4857	c.4792G>A	c.(4792-4794)GCA>ACA	p.A1598T		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1598							heat shock protein binding			ovary(1)|breast(1)	2						TGAAGAACAAGCAACTCCAGA	0.443													5	96					0	0	1	0	0		A	132222133	A	A	132222133	3	1	27	1	0	0	0	0	1	0	0	0	4638	971	34	2	4950	2	DNAJC13	3	132222133	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	14302	132222133	65800297	1929	24280											
DNAJC13	23317	broad.mit.edu	37	chr3	132257035	132257035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcaggacctggagttgctgGctaccttaccgcaggtacat	8	10	12	11	1	0	0	0	0	0	0	0	2	0	2	3	4	5	6	3	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:132257035G>A	uc003eor.2	+	56	6706	c.6641G>A	c.(6640-6642)GGC>GAC	p.G2214D		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	2214							heat shock protein binding			ovary(1)|breast(1)	2						GGAGTTGCTGGCTACCTTACC	0.458													14	55					0	0	1	0	0		A	132257035	A	A	132257035	3	1	27	1	0	0	0	0	1	0	0	0	4638	1203	42	2	6859	2	DNAJC13	3	132257035	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	34902	132257035	65765395	1930	24281											
CCRL1	51554	broad.mit.edu	37	chr3	132319590	132319590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgtgcaaaataacttcaGccttgtacacactaaacttt	15	13	4	9	0	1	0	1	0	0	0	1	0	1	0	1	0	5	2	1	0	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:132319590G>A	uc003eow.2	+	2	432	c.349G>A	c.(349-351)GCC>ACC	p.A117T	ACAD11_uc003eov.3_Intron|ACAD11_uc011blr.1_Intron|CCRL1_uc003eox.2_Missense_Mutation_p.A117T	NM_016557	NP_057641	Q9NPB9	CCRL1_HUMAN	chemokine (C-C motif) receptor-like 1	117	Helical; Name=3; (Potential).				chemotaxis|immune response	integral to plasma membrane	C-C chemokine receptor activity				0						AATAACTTCAGCCTTGTACAC	0.423													9	125					0	0	1	0	0		A	132319590	A	A	132319590	3	1	27	1	0	0	0	0	1	0	0	0	2952	971	34	2	351	2	CCRL1	3	132319590	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	62555	132319590	65702840	1931	24282											
NPHP3	27031	broad.mit.edu	37	chr3	132402349	132402349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagccaattcatacaaaggtAcagctttgtcaagtttcccc	12	11	6	12	0	2	0	2	0	0	0	3	0	3	0	3	1	4	3	3	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:132402349A>G	uc003epe.1	-	25	3667	c.3590T>C	c.(3589-3591)GTA>GCA	p.V1197A	NPHP3_uc003eoz.1_Missense_Mutation_p.V76A|NPHP3_uc003epd.1_Missense_Mutation_p.V439A	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	1197	TPR 9.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						ATACAAAGGTACAGCTTTGTC	0.343													6	46					0	0	1	0	0		G	132402349	G	G	132402349	3	3	27	1	0	0	0	0	1	0	0	0	10599	391	14	3	414	3	NPHP3	3	132402349	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	82759	132402349	65620081	1932	24283											
NPHP3	27031	broad.mit.edu	37	chr3	132409456	132409456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgctgaaaaagccacGggagttcatctgcacttctc	9	10	9	13	1	3	1	1	1	2	0	4	2	3	2	2	1	4	4	2	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:132409456G>A	uc003epe.1	-	19	2686	c.2609C>T	c.(2608-2610)CCG>CTG	p.P870L	NPHP3_uc003epd.1_Missense_Mutation_p.P112L	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	870					maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						AAAAAGCCACGGGAGTTCATC	0.393													6	111					0	0	1	0	0		A	132409456	A	A	132409456	3	1	27	1	0	0	0	0	1	0	0	0	10599	1116	39	1	1419	1	NPHP3	3	132409456	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7107	132409456	65612974	1933	24284											
NPHP3	27031	broad.mit.edu	37	chr3	132432040	132432040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcccattttcttacagtgaGgtattgattttcaacatcta	10	18	5	8	0	3	2	1	2	2	0	4	2	4	2	1	1	2	1	1	1	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:132432040G>A	uc003epe.1	-	6	1125	c.1048C>T	c.(1048-1050)CTC>TTC	p.L350F	NPHP3_uc003epf.1_Missense_Mutation_p.L105F	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	350					maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						CTTACAGTGAGGTATTGATTT	0.274													3	42					0	0	1	0	0		A	132432040	A	A	132432040	3	1	27	1	0	0	0	0	1	0	0	0	10599	1000	35	4	3032	4	NPHP3	3	132432040	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	22584	132432040	65590390	1934	24285											
TOPBP1	11073	broad.mit.edu	37	chr3	133341983	133341983	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttgatggtgctgactcttTattattggtggccatattgt	7	19	10	5	0	1	2	0	2	1	0	1	2	1	2	1	3	1	1	1	3	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:133341983T>C	uc003eps.2	-	19	3262	c.3130A>G	c.(3130-3132)AAA>GAA	p.K1044E	TOPBP1_uc003ept.1_Missense_Mutation_p.K48E	NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	1044					DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						GCTGACTCTTTATTATTGGTG	0.289								Other_conserved_DNA_damage_response_genes					4	39					0	0	1	0	0		C	133341983	C	C	133341983	3	2	27	1	0	0	0	0	1	0	0	0	16395	1763	61	3	1478	3	TOPBP1	3	133341983	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	909943	133341983	64680447	1935	24286											
TF	7018	broad.mit.edu	37	chr3	133473404	133473404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggcttccagatgaaccagCttcgaggcaagaagtcctgc	10	8	12	11	1	0	3	0	1	0	2	3	4	2	3	3	2	3	3	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:133473404C>T	uc003epu.1	+	9	2119	c.391C>T	c.(391-393)CTT>TTT	p.L131F	TF_uc011bls.1_Missense_Mutation_p.L131F|TF_uc011blt.1_Missense_Mutation_p.L4F|TF_uc003epw.1_Intron|TF_uc003epv.1_Missense_Mutation_p.L131F	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	131	Transferrin-like 1.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	GATGAACCAGCTTCGAGGCAA	0.522													9	196					0	0	1	0	0		T	133473404	T	T	133473404	3	4	27	1	0	0	0	0	1	0	0	0	15810	797	28	2	405	2	TF	3	133473404	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	131421	133473404	64549026	1936	24287											
TF	7018	broad.mit.edu	37	chr3	133494403	133494403	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagagccccgaatcacgCtgtggtcacacggaaagata	12	5	12	12	3	2	2	2	0	0	2	2	4	2	3	3	3	1	1	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:133494403C>A	uc003epu.1	+	20	3542	c.1814C>A	c.(1813-1815)GCT>GAT	p.A605D	TF_uc011blt.1_Missense_Mutation_p.A478D|TF_uc003epw.1_Missense_Mutation_p.A44D|TF_uc003epv.1_Missense_Mutation_p.A605D	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	605	Transferrin-like 2.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	CCGAATCACGCTGTGGTCACA	0.507													15	151					0.006122	0.00631369	1	1	0		A	133494403	A	A	133494403	3	1	27	1	0	0	0	0	1	0	0	0	15810	797	28	5	1872	5	TF	3	133494403	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20999	133494403	64528027	1937	24288											
SRPRB	58477	broad.mit.edu	37	chr3	133538536	133538536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagttcctggagtgcagtGccaagggtggaagaggggac	9	7	19	6	0	0	1	0	0	0	1	1	5	1	5	2	6	2	2	2	6	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:133538536G>A	uc003epx.1	+	7	758	c.742G>A	c.(742-744)GCC>ACC	p.A248T		NM_021203	NP_067026	Q9Y5M8	SRPRB_HUMAN	signal recognition particle receptor, beta	248		GTP; via amide nitrogen (By similarity).				endoplasmic reticulum membrane|integral to membrane	GTP binding|protein binding|receptor activity			ovary(1)	1						GGAGTGCAGTGCCAAGGGTGG	0.542													9	44					0	0	1	0	0		A	133538536	A	A	133538536	3	1	27	1	0	0	0	0	1	0	0	0	15188	1319	46	2	768	2	SRPRB	3	133538536	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	44133	133538536	64483894	1938	24289											
RAB6B	51560	broad.mit.edu	37	chr3	133583486	133583486	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatcagagacgtcttcccgActgcaaaacaacaaggagag	16	6	9	10	2	2	2	1	0	1	2	3	5	3	2	1	1	3	1	1	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:133583486A>C	uc003epy.2	-	2	452	c.71T>G	c.(70-72)GTC>GGC	p.V24G	RAB6B_uc011blu.1_Missense_Mutation_p.V11G	NM_016577	NP_057661	Q9NRW1	RAB6B_HUMAN	RAB6B, member RAS oncogene family	24	GTP.				protein transport|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|Golgi membrane	GTP binding|GTPase activity|protein binding			pancreas(1)	1						CGTCTTCCCGACTGCAAAACA	0.473													5	109					0	0	1	0	0		C	133583486	C	C	133583486	3	2	27	1	0	0	0	0	1	0	0	0	12977	289	10	5	583	5	RAB6B	3	133583486	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	44950	133583486	64438944	1939	24290											
AMOTL2	51421	broad.mit.edu	37	chr3	134078201	134078201	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagccctgggttcctgcTgccgcagccgcgaaaacaga	8	6	12	15	3	0	1	0	0	0	1	1	2	1	1	5	1	6	3	5	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:134078201T>G	uc003eqf.2	-	8	2319	c.2202A>C	c.(2200-2202)GCA>GCC	p.A734A	AMOTL2_uc003eqg.1_Silent_p.A676A|AMOTL2_uc003eqh.1_Silent_p.A674A|AMOTL2_uc010htx.1_5'Flank|AMOTL2_uc003eqe.1_Silent_p.A301A	NM_016201	NP_057285	Q9Y2J4	AMOL2_HUMAN	angiomotin like 2	676										large_intestine(1)	1						GGGTTCCTGCTGCCGCAGCCG	0.627													3	79					0	0	1	0	0		G	134078201	G	G	134078201	2	3	27	1	0	0	0	0	0	0	0	1	584	1567	55	5		5	AMOTL2	3	134078201	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	494715	134078201	63944229	1940	24291											
AMOTL2	51421	broad.mit.edu	37	chr3	134089923	134089923	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtccctgcctgctgggccGcatagtactgcgagtgggct	4	9	16	12	2	0	0	0	0	0	0	1	1	1	0	3	3	4	4	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:134089923G>A	uc003eqf.2	-	2	644	c.527C>T	c.(526-528)GCG>GTG	p.A176V	AMOTL2_uc003eqg.1_Missense_Mutation_p.A118V|AMOTL2_uc003eqh.1_Missense_Mutation_p.A118V	NM_016201	NP_057285	Q9Y2J4	AMOL2_HUMAN	angiomotin like 2	118										large_intestine(1)	1						CTGCTGGGCCGCATAGTACTG	0.692													3	13					0	0	1	0	0		A	134089923	A	A	134089923	3	1	27	1	0	0	0	0	1	0	0	0	584	1087	38	1	2025	1	AMOTL2	3	134089923	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11722	134089923	63932507	1941	24292											
CEP63	80254	broad.mit.edu	37	chr3	134277113	134277113	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggagatttctactcagAtgtgcaaaaaacaaaatgac	17	9	8	7	0	2	3	1	1	1	2	2	4	2	3	0	1	4	2	0	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:134277113A>T	uc003eqo.1	+	14	2046	c.1597A>T	c.(1597-1599)ATG>TTG	p.M533L	CEP63_uc003eql.1_Intron|CEP63_uc003eqm.2_Intron|CEP63_uc003eqn.1_Intron	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	533	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						TTCTACTCAGATGTGCAAAAA	0.299													14	110					0	0	1	0	0		T	134277113	T	T	134277113	3	4	27	1	0	0	0	0	1	0	0	0	3260	333	12	5	1643	5	CEP63	3	134277113	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	187190	134277113	63745317	1942	24293											
CEP63	80254	broad.mit.edu	37	chr3	134278132	134278132	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagtcctcaaatcagccCttgcagctccaccaggtctt	8	10	7	16	0	3	1	2	1	1	0	5	1	5	1	5	1	3	2	5	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:134278132C>A	uc003eqo.1	+	15	2263	c.1814C>A	c.(1813-1815)CCT>CAT	p.P605H	CEP63_uc003eql.1_Intron|CEP63_uc003eqm.2_Intron|CEP63_uc003eqn.1_Intron	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	605					cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						CAAATCAGCCCTTGCAGCTCC	0.453													5	195					5.9392e-07	6.46363e-07	1	1	0		A	134278132	A	A	134278132	3	1	27	1	0	0	0	0	1	0	0	0	3260	681	24	5	1864	5	CEP63	3	134278132	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1019	134278132	63744298	1943	24294											
KY	339855	broad.mit.edu	37	chr3	134323034	134323034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatgatgcccatctgctccGagaaccagctggggcccacg	8	7	11	15	2	2	2	1	1	1	1	3	3	3	2	4	2	4	2	4	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:134323034G>A	uc010hty.2	-	11	1435	c.1373C>T	c.(1372-1374)TCG>TTG	p.S458L	KY_uc011blw.1_3'UTR|KY_uc011blx.1_Missense_Mutation_p.S437L	NM_178554	NP_848649	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase	458						cytoskeleton|Z disc	peptidase activity			ovary(2)	2						CATCTGCTCCGAGAACCAGCT	0.592													3	16					0	0	1	0	0		A	134323034	A	A	134323034	3	1	27	1	0	0	0	0	1	0	0	0	8602	1059	37	1	616	1	KY	3	134323034	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	44902	134323034	63699396	1944	24295											
KY	339855	broad.mit.edu	37	chr3	134338077	134338077	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtttgaaggcttggcggTccttctcctgagcagctgca	5	12	14	10	1	1	2	0	2	1	0	3	2	2	2	2	4	3	5	2	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:134338077T>C	uc010hty.2	-	8	685	c.623A>G	c.(622-624)GAC>GGC	p.D208G	KY_uc011blw.1_Missense_Mutation_p.D208G|KY_uc011blx.1_Missense_Mutation_p.D187G|KY_uc003eqr.1_5'UTR	NM_178554	NP_848649	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase	208						cytoskeleton|Z disc	peptidase activity			ovary(2)	2						GGCTTGGCGGTCCTTCTCCTG	0.562													10	120					0	0	1	0	0		C	134338077	C	C	134338077	3	2	27	1	0	0	0	0	1	0	0	0	8602	1667	58	3	1378	3	KY	3	134338077	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	15043	134338077	63684353	1945	24296											
PPP2R3A	5523	broad.mit.edu	37	chr3	135720924	135720924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatagaaactcactggataCgaacctgacttccatgtttc	12	12	6	11	1	2	2	2	1	0	1	4	4	3	3	2	1	3	1	2	1	4	4	rs138854105		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:135720924C>T	uc003eqv.1	+	2	1149	c.584C>T	c.(583-585)ACG>ATG	p.T195M	PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	195					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						TCACTGGATACGAACCTGACT	0.393													11	71					0	0	1	0	0		T	135720924	T	T	135720924	3	4	27	1	0	0	0	0	1	0	0	0	12410	536	19	1	586	1	PPP2R3A	3	135720924	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1382847	135720924	62301506	1946	24297											
PPP2R3A	5523	broad.mit.edu	37	chr3	135721357	135721357	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatatgaagatgttgtccaGctctcagcttctgactctgg	10	13	9	9	0	3	3	1	2	3	1	5	3	4	3	1	1	2	3	1	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:135721357G>A	uc003eqv.1	+	2	1582	c.1017G>A	c.(1015-1017)CAG>CAA	p.Q339Q	PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	339					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						ATGTTGTCCAGCTCTCAGCTT	0.408													12	100					0	0	1	0	0		A	135721357	A	A	135721357	2	1	27	1	0	0	0	0	0	0	0	1	12410	962	34	2		2	PPP2R3A	3	135721357	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	433	135721357	62301073	1947	24298											
MSL2	55167	broad.mit.edu	37	chr3	135870699	135870699	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcactctctgatctggatcGttttctattcaattttgcta	7	19	6	9	1	5	1	2	1	3	0	7	2	5	2	0	1	1	2	0	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:135870699G>A	uc003eqx.1	-	2	1757	c.1024C>T	c.(1024-1026)CGA>TGA	p.R342*	MSL2_uc011bmb.1_Nonsense_Mutation_p.R268*	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	342					histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						GATCTGGATCGTTTTCTATTC	0.453													20	74					0	0	1	0	0		A	135870699	A	A	135870699	4	1	27	1	0	0	0	0	0	1	0	0	9896	1153	40	1	713	1	MSL2	3	135870699	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	149342	135870699	62151731	1948	24299											
STAG1	10274	broad.mit.edu	37	chr3	136152490	136152490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tataagagcactctcttgacGatcagacattgctaaggtaa	14	11	8	8	1	2	3	1	1	1	2	3	4	2	3	0	1	2	3	0	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:136152490G>A	uc003era.1	-	16	1850	c.1558C>T	c.(1558-1560)CGT>TGT	p.R520C	STAG1_uc003erb.1_Missense_Mutation_p.R520C|STAG1_uc003erc.1_Missense_Mutation_p.R294C|STAG1_uc010hua.1_Missense_Mutation_p.R383C	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	520					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						CTCTCTTGACGATCAGACATT	0.378													5	66					0	0	1	0	0		A	136152490	A	A	136152490	3	1	27	1	0	0	0	0	1	0	0	0	15267	1058	37	1	2294	1	STAG1	3	136152490	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	281791	136152490	61869940	1949	24300											
STAG1	10274	broad.mit.edu	37	chr3	136323179	136323179	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttttccccagtttcaccAcctcaaataatgtgacaggc	11	11	5	14	0	2	1	2	1	0	0	3	1	3	1	4	1	0	1	4	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:136323179A>G	uc003era.1	-	4	561	c.269T>C	c.(268-270)GTG>GCG	p.V90A	STAG1_uc003erb.1_Missense_Mutation_p.V90A|STAG1_uc003erc.1_5'UTR|STAG1_uc010hua.1_5'UTR|STAG1_uc003erd.2_5'UTR|STAG1_uc003ere.2_Missense_Mutation_p.V90A	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	90					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						CAGTTTCACCACCTCAAATAA	0.418													14	146					0	0	1	0	0		G	136323179	G	G	136323179	3	3	27	1	0	0	0	0	1	0	0	0	15267	159	6	3	3631	3	STAG1	3	136323179	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	170689	136323179	61699251	1950	24301											
NCK1	4690	broad.mit.edu	37	chr3	136665098	136665098	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcattaaatgaaagaggAcatgaaggggatttcctcat	15	10	11	5	0	1	3	1	2	0	1	2	5	2	5	1	4	0	1	1	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:136665098A>G	uc003erh.2	+	3	1007	c.900A>G	c.(898-900)GGA>GGG	p.G300G	NCK1_uc011bme.1_Silent_p.G236G	NM_006153	NP_006144	P16333	NCK1_HUMAN	NCK adaptor protein 1	300	SH2.				axon guidance|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of translation|signal complex assembly|T cell activation|T cell receptor signaling pathway	cytosol|endoplasmic reticulum|nucleus	cytoskeletal adaptor activity|receptor binding|receptor signaling complex scaffold activity			pancreas(1)	1						ATGAAAGAGGACATGAAGGGG	0.373													11	136					0	0	1	0	0		G	136665098	G	G	136665098	2	3	27	1	0	0	0	0	0	0	0	1	10238	262	10	3		3	NCK1	3	136665098	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	341919	136665098	61357332	1951	24302											
IL20RB	53833	broad.mit.edu	37	chr3	136699431	136699431	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactattctgtcgaataccAggggtgagttttttctttta	8	18	9	6	1	2	1	0	1	2	0	3	2	2	1	1	2	2	2	1	2	5	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:136699431A>G	uc003eri.1	+	2	461	c.212A>G	c.(211-213)CAG>CGG	p.Q71R	IL20RB_uc003erj.1_RNA|IL20RB_uc010hud.1_5'UTR	NM_144717	NP_653318	Q6UXL0	I20RB_HUMAN	interleukin 20 receptor beta precursor	71	Fibronectin type-III 1.|Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)	1						GTCGAATACCAGGGGTGAGTT	0.478													9	139					0	0	1	0	0		G	136699431	G	G	136699431	3	3	27	1	0	0	0	0	1	0	0	0	7685	188	7	3	218	3	IL20RB	3	136699431	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	34333	136699431	61322999	1952	24303											
CLDN18	51208	broad.mit.edu	37	chr3	137749876	137749876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaagcctggaggcttcaagGccagcactggctttgggtcc	8	8	13	12	0	1	0	1	0	0	0	2	1	2	1	3	5	2	3	3	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:137749876G>A	uc003ero.1	+	5	732	c.679G>A	c.(679-681)GCC>ACC	p.A227T	CLDN18_uc003erp.1_Missense_Mutation_p.A227T|CLDN18_uc010hue.1_Missense_Mutation_p.A183T	NM_001002026	NP_001002026	P56856	CLD18_HUMAN	claudin 18 isoform 2	227	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity			upper_aerodigestive_tract(1)|ovary(1)	2						AGGCTTCAAGGCCAGCACTGG	0.468													12	139					0	0	1	0	0		A	137749876	A	A	137749876	3	1	27	1	0	0	0	0	1	0	0	0	3482	1203	42	2	921	2	CLDN18	3	137749876	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1050445	137749876	60272554	1953	24304											
ARMC8	25852	broad.mit.edu	37	chr3	137991841	137991841	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggctgaacaaaaaataaaAgcagatattttacgaagctt	19	9	7	6	1	0	2	0	1	0	1	0	3	0	2	0	1	4	3	0	1	9	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:137991841A>G	uc003esa.1	+	18	1837	c.1470A>G	c.(1468-1470)AAA>AAG	p.K490K	TXNDC6_uc003esd.1_Intron|TXNDC6_uc010huf.1_Intron|TXNDC6_uc003ese.1_Intron|ARMC8_uc011bmf.1_Silent_p.K473K|ARMC8_uc011bmg.1_Silent_p.K437K|ARMC8_uc011bmh.1_Silent_p.K431K|ARMC8_uc003esb.1_Silent_p.K462K|ARMC8_uc003esc.1_Silent_p.K262K|ARMC8_uc003esf.1_Silent_p.K73K	NM_015396	NP_056211	Q8IUR7	ARMC8_HUMAN	armadillo repeat containing 8 isoform 2	504	ARM 11.						binding				0						AAAAAATAAAAGCAGATATTT	0.303													5	47					0	0	1	0	0		G	137991841	G	G	137991841	2	3	27	1	0	0	0	0	0	0	0	1	958	69	3	3		3	ARMC8	3	137991841	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	241965	137991841	60030589	1954	24305											
ESYT3	83850	broad.mit.edu	37	chr3	138183274	138183274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcaagtcagatccctacGccaaggtgagcatcggccta	11	6	12	12	2	1	2	1	1	0	1	3	3	2	2	3	3	2	2	3	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:138183274G>A	uc003esk.2	+	9	1229	c.1003G>A	c.(1003-1005)GCC>ACC	p.A335T	ESYT3_uc010hug.2_RNA	NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain	335	C2 1.					integral to membrane|plasma membrane					0						AGATCCCTACGCCAAGGTGAG	0.567													8	51					0	0	1	0	0		A	138183274	A	A	138183274	3	1	27	1	0	0	0	0	1	0	0	0	5274	1087	38	1	1037	1	ESYT3	3	138183274	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	191433	138183274	59839156	1955	24306											
ESYT3	83850	broad.mit.edu	37	chr3	138191352	138191352	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gccctacagatttgccatgtCccccagaccctgcttctgat	7	11	7	16	0	1	3	0	1	1	2	2	3	2	3	5	0	3	1	5	0	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:138191352C>T	uc003esk.2	+	18	2114	c.1888C>T	c.(1888-1890)CCC>TCC	p.P630S	ESYT3_uc010hug.2_RNA	NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain	630						integral to membrane|plasma membrane					0						TTTGCCATGTCCCCCAGACCC	0.547													8	114					0	0	1	0	0		T	138191352	T	T	138191352	3	4	27	1	0	0	0	0	1	0	0	0	5274	855	30	4	1958	4	ESYT3	3	138191352	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8078	138191352	59831078	1956	24307											
CEP70	80321	broad.mit.edu	37	chr3	138224301	138224301	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataattgaattgatgctacAcagcacctttaaaaaaacat	18	11	5	7	0	0	2	0	2	0	0	0	3	0	2	1	0	4	2	1	0	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:138224301A>G	uc003esl.2	-	13	1255	c.1057T>C	c.(1057-1059)TGT>CGT	p.C353R	CEP70_uc011bmk.1_Missense_Mutation_p.C333R|CEP70_uc011bml.1_Missense_Mutation_p.C335R|CEP70_uc011bmm.1_Missense_Mutation_p.C201R|CEP70_uc003esm.2_Missense_Mutation_p.C353R	NM_024491	NP_077817	Q8NHQ1	CEP70_HUMAN	centrosomal protein 70 kDa	353					G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding			skin(1)	1						TTGATGCTACACAGCACCTTT	0.284													6	152					0	0	1	0	0		G	138224301	G	G	138224301	3	3	27	1	0	0	0	0	1	0	0	0	3262	159	6	3	760	3	CEP70	3	138224301	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	32949	138224301	59798129	1957	24308											
PIK3CB	5291	broad.mit.edu	37	chr3	138383975	138383975	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctgaatgtcagcaattgTttcagaggtgctcacaactt	11	12	9	9	0	3	2	3	1	0	1	3	2	3	2	0	1	4	4	0	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:138383975T>C	uc011bmq.1	-	18	2575	c.2575A>G	c.(2575-2577)ACA>GCA	p.T859A	PIK3CB_uc011bmn.1_Missense_Mutation_p.T371A|PIK3CB_uc011bmo.1_Missense_Mutation_p.T310A|PIK3CB_uc011bmp.1_Missense_Mutation_p.T446A	NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta	859	PI3K/PI4K.				activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						TCAGCAATTGTTTCAGAGGTG	0.458													8	52					0	0	1	0	0		C	138383975	C	C	138383975	3	2	27	1	0	0	0	0	1	0	0	0	11933	1725	60	3	655	3	PIK3CB	3	138383975	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	159674	138383975	59638455	1958	24309											
PIK3CB	5291	broad.mit.edu	37	chr3	138409870	138409870	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaatagaaactgccctaTcctccgattaccaagtgctc	13	9	5	14	1	0	1	0	0	0	1	3	2	2	1	5	0	4	1	5	0	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:138409870T>A	uc011bmq.1	-	13	2008	c.2008A>T	c.(2008-2010)ATA>TTA	p.I670L	PIK3CB_uc011bmn.1_Missense_Mutation_p.I182L|PIK3CB_uc011bmo.1_Missense_Mutation_p.I116L|PIK3CB_uc011bmp.1_Missense_Mutation_p.I257L	NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta	670	PI3K helical.				activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						AACTGCCCTATCCTCCGATTA	0.343													9	216					0	0	1	0	0		A	138409870	A	A	138409870	3	1	27	1	0	0	0	0	1	0	0	0	11933	1435	50	5	1242	5	PIK3CB	3	138409870	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25895	138409870	59612560	1959	24310											
PIK3CB	5291	broad.mit.edu	37	chr3	138453548	138453548	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcgatttatggcagcctcTatggcaatcatttcttgttc	7	18	7	9	1	3	0	1	0	2	0	5	1	3	0	1	2	1	3	1	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:138453548T>G	uc011bmq.1	-	5	900	c.900A>C	c.(898-900)ATA>ATC	p.I300I		NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta	300					activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						TGGCAGCCTCTATGGCAATCA	0.363													7	103					0	0	1	0	0		G	138453548	G	G	138453548	2	3	27	1	0	0	0	0	0	0	0	1	11933	1512	53	5		5	PIK3CB	3	138453548	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	43678	138453548	59568882	1960	24311											
PIK3CB	5291	broad.mit.edu	37	chr3	138461549	138461549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacaagtgacaggattttttCctcgctgaatttgcgcattt	9	15	8	9	2	0	2	0	2	0	0	2	3	1	3	1	1	1	2	1	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:138461549C>T	uc011bmq.1	-	3	472	c.472G>A	c.(472-474)GAA>AAA	p.E158K		NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta	158					activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						AGGATTTTTTCCTCGCTGAAT	0.378													9	74					0	0	1	0	0		T	138461549	T	T	138461549	3	4	27	1	0	0	0	0	1	0	0	0	11933	864	30	4	2818	4	PIK3CB	3	138461549	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8001	138461549	59560881	1961	24312											
ZBTB38	253461	broad.mit.edu	37	chr3	141163724	141163724	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgggaacctccacaaatagtAatgttgcacccctttgccaa	12	9	7	13	1	0	0	0	0	0	0	1	1	1	1	5	1	3	3	5	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:141163724A>G	uc003etw.2	+	8	3476	c.2494A>G	c.(2494-2496)AAT>GAT	p.N832D	ZBTB38_uc010hun.2_Missense_Mutation_p.N829D|ZBTB38_uc010huo.2_Missense_Mutation_p.N832D|ZBTB38_uc003ety.2_Missense_Mutation_p.N832D|ZBTB38_uc010hup.2_Missense_Mutation_p.N833D	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	832					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CACAAATAGTAATGTTGCACC	0.398													4	63					0	0	1	0	0		G	141163724	G	G	141163724	3	3	27	1	0	0	0	0	1	0	0	0	17564	362	13	3	2496	3	ZBTB38	3	141163724	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2702175	141163724	56858706	1962	24313											
GRK7	131890	broad.mit.edu	37	chr3	141497221	141497221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgacagcaaagagctgcagcGgcggcggcgtagcctggccc	8	3	16	14	5	0	1	0	0	0	1	0	2	0	1	2	4	5	4	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:141497221G>A	uc011bnd.1	+	1	179	c.95G>A	c.(94-96)CGG>CAG	p.R32Q		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	32					visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						GAGCTGCAGCGGCGGCGGCGT	0.682													11	41					0	0	1	0	0		A	141497221	A	A	141497221	3	1	27	1	0	0	0	0	1	0	0	0	6810	1116	39	1	97	1	GRK7	3	141497221	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	333497	141497221	56525209	1963	24314											
TFDP2	7029	broad.mit.edu	37	chr3	141678643	141678643	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agtacttctatgtcatcatgGatctcaaaggtgttgtcaaa	12	14	8	7	0	5	0	4	0	2	0	6	1	5	1	0	2	1	2	0	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:141678643G>C	uc003eun.3	-	11	1303	c.924C>G	c.(922-924)ATC>ATG	p.I308M	TFDP2_uc003euk.3_Missense_Mutation_p.I221M|TFDP2_uc010hur.2_Missense_Mutation_p.I248M|TFDP2_uc003eul.3_Missense_Mutation_p.I248M|TFDP2_uc011bnf.1_Missense_Mutation_p.I211M|TFDP2_uc011bng.1_Missense_Mutation_p.I172M|TFDP2_uc003eum.3_Missense_Mutation_p.I248M	NM_006286	NP_006277	Q14188	TFDP2_HUMAN	transcription factor Dp-2 (E2F dimerization	308	DCB2.				cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1						TGTCATCATGGATCTCAAAGG	0.438													9	90					0	0	1	0	0		C	141678643	C	C	141678643	3	2	27	1	0	0	0	0	1	0	0	0	15823	1164	41	5	428	5	TFDP2	3	141678643	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	181422	141678643	56343787	1964	24315											
XRN1	54464	broad.mit.edu	37	chr3	142037739	142037739	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattttacttggcaaacggTcattgtctaaaaaaagagaa	17	12	7	5	1	2	1	1	0	1	1	2	2	2	1	0	2	2	1	0	2	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:142037739T>C	uc003eus.2	-	38	4475	c.4408A>G	c.(4408-4410)ACC>GCC	p.T1470A	XRN1_uc010huu.2_Missense_Mutation_p.T937A|XRN1_uc003eut.2_Missense_Mutation_p.T1470A|XRN1_uc003euu.2_Missense_Mutation_p.T1471A	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	1470					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						TGGCAAACGGTCATTGTCTAA	0.348													5	55					0	0	1	0	0		C	142037739	C	C	142037739	3	2	27	1	0	0	0	0	1	0	0	0	17485	1667	58	3	732	3	XRN1	3	142037739	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	359096	142037739	55984691	1965	24316											
ATR	545	broad.mit.edu	37	chr3	142186802	142186802	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgcacaattctagaagctTatctgttaggcgagttgcat	11	14	9	7	1	2	1	0	0	2	1	2	2	2	1	0	1	3	5	0	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:142186802T>C	uc003eux.3	-	39	6783	c.6661A>G	c.(6661-6663)AAG>GAG	p.K2221E	ATR_uc003euy.1_Missense_Mutation_p.K107E	NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	2221					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						TCTAGAAGCTTATCTGTTAGG	0.338								Other_conserved_DNA_damage_response_genes					12	124					0	0	1	0	0		C	142186802	C	C	142186802	3	2	27	1	0	0	0	0	1	0	0	0	1205	1763	61	3	1309	3	ATR	3	142186802	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	149063	142186802	55835628	1966	24317											
ATR	545	broad.mit.edu	37	chr3	142242991	142242991	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcactgtcaccaactgtgaGataataggttctactgtttc	11	13	8	9	0	2	1	1	1	1	1	3	2	2	1	1	1	3	3	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:142242991G>T	uc003eux.3	-	22	4118	c.3996C>A	c.(3994-3996)ATC>ATA	p.I1332I		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1332	HEAT 2.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						CCAACTGTGAGATAATAGGTT	0.378								Other_conserved_DNA_damage_response_genes					8	52					1.12685e-05	1.21022e-05	1	1	0		T	142242991	T	T	142242991	2	4	27	1	0	0	0	0	0	0	0	1	1205	932	33	5		5	ATR	3	142242991	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	56189	142242991	55779439	1967	24318											
CHST2	9435	broad.mit.edu	37	chr3	142840751	142840751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgagacccgcgagctcacCgcatgcccttcttggaggcc	6	6	12	17	4	2	1	1	0	1	1	2	4	2	2	5	2	2	2	5	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:142840751C>T	uc003evm.2	+	2	1982	c.1093C>T	c.(1093-1095)CGC>TGC	p.R365C		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	365	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						GCGAGCTCACCGCATGCCCTT	0.697													11	42					0	0	1	0	0		T	142840751	T	T	142840751	3	4	27	1	0	0	0	0	1	0	0	0	3407	652	23	1	1095	1	CHST2	3	142840751	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	597760	142840751	55181679	1968	24319											
CHST2	9435	broad.mit.edu	37	chr3	142841186	142841186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccgtcctgggctatgagCgggtcaacagccctgaggag	7	7	16	11	2	1	2	1	2	0	0	2	3	2	3	3	4	3	1	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:142841186C>T	uc003evm.2	+	2	2417	c.1528C>T	c.(1528-1530)CGG>TGG	p.R510W		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	510	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						GGGCTATGAGCGGGTCAACAG	0.607													5	43					0	0	1	0	0		T	142841186	T	T	142841186	3	4	27	1	0	0	0	0	1	0	0	0	3407	759	27	1	1530	1	CHST2	3	142841186	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	435	142841186	55181244	1969	24320											
SLC9A9	285195	broad.mit.edu	37	chr3	143185920	143185920	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggggttgttcctcctccAaatacccagacagtgaagaa	12	9	10	10	0	0	3	0	1	0	2	3	3	3	3	4	2	1	2	4	2	4	3	rs61734421	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:143185920A>G	uc003evn.2	-	12	1610	c.1428T>C	c.(1426-1428)TTT>TTC	p.F476F		NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	476	Helical; (Potential).				regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						TTCCTCCTCCAAATACCCAGA	0.473													9	37					0	0	1	0	0		G	143185920	G	G	143185920	2	3	27	1	0	0	0	0	0	0	0	1	14746	127	5	3		3	SLC9A9	3	143185920	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	344734	143185920	54836510	1970	24321											
SLC9A9	285195	broad.mit.edu	37	chr3	143513844	143513844	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccgaatgtcacttaccCtatgacgatgcaggagatgg	11	9	11	10	2	1	2	1	1	0	1	2	5	2	2	2	2	3	2	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:143513844C>A	uc003evn.2	-	4	714	c.532G>T	c.(532-534)GGG>TGG	p.G178W	SLC9A9_uc011bnk.1_Missense_Mutation_p.G52W	NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	178	Helical; (Potential).				regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						GTCACTTACCCTATGACGATG	0.438													4	77					0.014758	0.0150623	1	1	0		A	143513844	A	A	143513844	3	1	27	1	0	0	0	0	1	0	0	0	14746	695	24	5	1457	5	SLC9A9	3	143513844	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	327924	143513844	54508586	1971	24322											
PLOD2	5352	broad.mit.edu	37	chr3	145824343	145824343	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagtggatcaatgtaaacTttagtgtaaaagagctgatc	14	13	9	5	0	2	2	2	1	0	1	3	3	2	3	0	1	2	3	0	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:145824343T>G	uc003evs.1	-	5	1097	c.591A>C	c.(589-591)AAA>AAC	p.K197N	PLOD2_uc011bnm.1_Missense_Mutation_p.K142N|PLOD2_uc003evr.1_Missense_Mutation_p.K197N	NM_000935	NP_000926	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	197					protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)	CAATGTAAACTTTAGTGTAAA	0.358													11	95					0	0	1	0	0		G	145824343	G	G	145824343	3	3	27	1	0	0	0	0	1	0	0	0	12121	1606	56	5	1749	5	PLOD2	3	145824343	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2310499	145824343	52198087	1972	24323											
PLSCR1	5359	broad.mit.edu	37	chr3	146234850	146234850	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttaacatcaaggtctaaaggGaactggattccaaagttatc	15	11	8	7	0	2	0	1	0	1	0	4	2	3	2	1	3	2	1	1	3	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:146234850G>A	uc003evx.3	-	8	1231	c.843C>T	c.(841-843)TTC>TTT	p.F281F	PLSCR1_uc003evy.3_Silent_p.F274F|PLSCR1_uc011bnn.1_Silent_p.F200F|PLSCR1_uc003evz.3_RNA	NM_021105	NP_066928	O15162	PLS1_HUMAN	phospholipid scramblase 1	281	Cytoplasmic.			F->A: Complete inactivation of the Ca(2+)-dependent phospholipid scrambling.	phospholipid scrambling|platelet activation|response to virus	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding			ovary(2)	2						GGTCTAAAGGGAACTGGATTC	0.373													20	90					0	0	1	0	0		A	146234850	A	A	146234850	2	1	27	1	0	0	0	0	0	0	0	1	12128	1165	41	4		4	PLSCR1	3	146234850	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	410507	146234850	51787580	1973	24324											
ZIC1	7545	broad.mit.edu	37	chr3	147128883	147128883	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaaaaggacgcacacaggTacggaaacagctgtaggacc	16	3	11	11	2	0	0	0	0	0	0	0	3	0	3	1	4	3	4	1	4	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:147128883T>C	uc003ewe.2	+	1	1701	c.982_splice	c.e1+2	p.G328_splice		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1						behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CGCACACAGGTACGGAAACAG	0.602													3	35					0	0	1	0	0		C	147128883	C	C	147128883	5	2	27	1	0	0	0	0	0	0	1	0	17703	1652	57	3	986	3	ZIC1	3	147128883	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	894033	147128883	50893547	1974	24325											
GYG1	2992	broad.mit.edu	37	chr3	148727078	148727078	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaggtggggaccaaggcaTactgaacacattttttagca	12	12	10	7	0	0	1	0	1	0	0	0	2	0	2	1	4	3	2	1	4	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:148727078T>C	uc003ewn.2	+	5	550	c.497T>C	c.(496-498)ATA>ACA	p.I166T	GYG1_uc011bnp.1_Intron|GYG1_uc003ewo.2_Missense_Mutation_p.I166T|GYG1_uc003ewp.2_Missense_Mutation_p.I166T	NM_004130	NP_004121	P46976	GLYG_HUMAN	glycogenin 1	166					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	glycogenin glucosyltransferase activity|metal ion binding|protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			GACCAAGGCATACTGAACACA	0.353													4	153					0	0	1	0	0		C	148727078	C	C	148727078	3	2	27	1	0	0	0	0	1	0	0	0	6921	1406	49	3	515	3	GYG1	3	148727078	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1598195	148727078	49295352	1975	24326											
HLTF	6596	broad.mit.edu	37	chr3	148750057	148750057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattttggcttgtttcatttCgtcagcatttggttttttag	6	22	8	5	1	2	0	2	0	0	0	3	0	2	0	0	2	1	4	0	2	2	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:148750057C>T	uc003ewq.1	-	25	3198	c.2980G>A	c.(2980-2982)GAA>AAA	p.E994K	HLTF_uc003ewr.1_Missense_Mutation_p.E994K|HLTF_uc003ews.1_Missense_Mutation_p.E993K|HLTF_uc010hve.1_Missense_Mutation_p.E993K	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	994	Helicase C-terminal.|Interaction with SP1 and SP3.				chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			TGTTTCATTTCGTCAGCATTT	0.313													3	35					0	0	1	0	0		T	148750057	T	T	148750057	3	4	27	1	0	0	0	0	1	0	0	0	7231	893	31	1	53	1	HLTF	3	148750057	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	22979	148750057	49272373	1976	24327											
HPS3	84343	broad.mit.edu	37	chr3	148884930	148884930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatgttctgtgtcgtacacGcttgaaagagtatgaacagt	11	12	10	8	2	1	3	0	2	1	1	2	3	1	3	1	0	2	4	1	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:148884930G>A	uc003ewu.1	+	15	2839	c.2699G>A	c.(2698-2700)CGC>CAC	p.R900H	CP_uc011bnr.1_Intron|HPS3_uc011bnq.1_Missense_Mutation_p.R735H|HPS3_uc003ewv.1_RNA	NM_032383	NP_115759	Q969F9	HPS3_HUMAN	Hermansky-Pudlak syndrome 3 protein	900						cytoplasm				ovary(5)|large_intestine(1)	6			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			TGTCGTACACGCTTGAAAGAG	0.453									Hermansky-Pudlak_syndrome				5	117					0	0	1	0	0		A	148884930	A	A	148884930	3	1	27	1	0	0	0	0	1	0	0	0	7356	1087	38	1	2757	1	HPS3	3	148884930	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	134873	148884930	49137500	1977	24328											
CP	1356	broad.mit.edu	37	chr3	148894077	148894077	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagtggtttccattccagcAtgaatgtggtcggtcacatg	9	13	11	8	1	1	1	1	1	0	0	4	1	3	1	2	3	1	2	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:148894077A>G	uc003ewy.3	-	18	3394	c.3141T>C	c.(3139-3141)CAT>CAC	p.H1047H	CP_uc011bnr.1_Intron|CP_uc003eww.3_3'UTR|CP_uc003ewx.3_Silent_p.H828H	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	1047	F5/8 type A 3.|Plastocyanin-like 6.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	CCATTCCAGCATGAATGTGGT	0.388													8	112					0	0	1	0	0		G	148894077	G	G	148894077	2	3	27	1	0	0	0	0	0	0	0	1	3790	214	8	3		3	CP	3	148894077	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	9147	148894077	49128353	1978	24329											
CP	1356	broad.mit.edu	37	chr3	148896212	148896212	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgacataccatgcattttAttgctttctatgaattcctc	9	18	5	9	0	1	2	0	2	1	0	3	2	2	2	2	0	3	2	2	0	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:148896212A>T	uc003ewy.3	-	16	3121	c.2868T>A	c.(2866-2868)AAT>AAA	p.N956K	CP_uc011bnr.1_RNA|CP_uc003eww.3_Missense_Mutation_p.N108K|CP_uc003ewx.3_Missense_Mutation_p.N737K|CP_uc003ewz.2_Missense_Mutation_p.N956K	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	956	F5/8 type A 3.|Plastocyanin-like 6.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	CATGCATTTTATTGCTTTCTA	0.289													11	87					0	0	1	0	0		T	148896212	T	T	148896212	3	4	27	1	0	0	0	0	1	0	0	0	3790	446	16	5	345	5	CP	3	148896212	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2135	148896212	49126218	1979	24330											
CP	1356	broad.mit.edu	37	chr3	148916254	148916254	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccacagcagaataatacAtcttagctagacacacagga	16	8	7	10	0	1	2	0	0	1	2	2	3	2	3	1	1	3	3	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:148916254A>G	uc003ewy.3	-	9	1866	c.1613T>C	c.(1612-1614)ATG>ACG	p.M538T	CP_uc011bnr.1_RNA|CP_uc003ewx.3_Missense_Mutation_p.M319T|CP_uc003ewz.2_Missense_Mutation_p.M538T|CP_uc010hvf.1_Missense_Mutation_p.M264T	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	538	Plastocyanin-like 3.|F5/8 type A 2.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	AGAATAATACATCTTAGCTAG	0.438													3	62					0	0	1	0	0		G	148916254	G	G	148916254	3	3	27	1	0	0	0	0	1	0	0	0	3790	217	8	3	1628	3	CP	3	148916254	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20042	148916254	49106176	1980	24331											
TM4SF18	116441	broad.mit.edu	37	chr3	149051032	149051032	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attccttcaaaataccacacGtagttggtgagtttattgct	11	15	7	8	1	1	1	1	1	0	0	2	1	2	1	2	1	2	4	2	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:149051032G>A	uc003exa.2	-	2	275	c.138C>T	c.(136-138)TAC>TAT	p.Y46Y		NM_138786	NP_620141	Q96CE8	T4S18_HUMAN	transmembrane 4 L six family member 18	46	Extracellular (Potential).					integral to membrane				ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			AATACCACACGTAGTTGGTGA	0.408													7	98					0	0	1	0	0		A	149051032	A	A	149051032	2	1	27	1	0	0	0	0	0	0	0	1	15992	1140	40	1		1	TM4SF18	3	149051032	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	134778	149051032	48971398	1981	24332											
COMMD2	51122	broad.mit.edu	37	chr3	149468597	149468597	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttaattcttcagagaaTcccagaacaaaaacagagtc	16	11	6	8	0	2	3	1	0	1	3	4	4	3	3	1	0	2	1	1	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:149468597T>C	uc003exk.2	-	4	317	c.270A>G	c.(268-270)GGA>GGG	p.G90G		NM_016094	NP_057178	Q86X83	COMD2_HUMAN	COMM domain containing 2	90							protein binding				0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			CTTCAGAGAATCCCAGAACAA	0.343													7	129					0	0	1	0	0		C	149468597	C	C	149468597	2	2	27	1	0	0	0	0	0	0	0	1	3719	1422	50	3		3	COMMD2	3	149468597	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	417565	149468597	48553833	1982	24333											
RNF13	11342	broad.mit.edu	37	chr3	149678562	149678562	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtagacccttggctaactAaaaccaaaaaaacctgtcca	16	8	6	11	0	0	1	0	0	0	1	1	1	1	1	4	1	3	2	4	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:149678562A>G	uc003exn.3	+	11	1601	c.817A>G	c.(817-819)AAA>GAA	p.K273E	RNF13_uc003exp.3_Missense_Mutation_p.K273E|RNF13_uc010hvh.2_Missense_Mutation_p.K154E	NM_007282	NP_009213	O43567	RNF13_HUMAN	ring finger protein 13	273	Cytoplasmic (Potential).|RING-type; atypical.				protein autoubiquitination	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane|nuclear inner membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		all_neural(597;0.0138)|Myeloproliferative disorder(1037;0.0255)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			TTGGCTAACTAAAACCAAAAA	0.378													5	41					0	0	1	0	0		G	149678562	G	G	149678562	3	3	27	1	0	0	0	0	1	0	0	0	13462	363	13	3	851	3	RNF13	3	149678562	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	209965	149678562	48343868	1983	24334											
RNF13	11342	broad.mit.edu	37	chr3	149678615	149678615	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagttgttccttctcaaggCgattcagactctgacacaga	12	11	8	10	1	3	3	2	1	2	2	5	4	4	3	1	1	0	2	1	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:149678615C>T	uc003exn.3	+	11	1654	c.870C>T	c.(868-870)GGC>GGT	p.G290G	RNF13_uc003exp.3_Silent_p.G290G|RNF13_uc010hvh.2_Silent_p.G171G	NM_007282	NP_009213	O43567	RNF13_HUMAN	ring finger protein 13	290	Cytoplasmic (Potential).				protein autoubiquitination	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane|nuclear inner membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		all_neural(597;0.0138)|Myeloproliferative disorder(1037;0.0255)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CTTCTCAAGGCGATTCAGACT	0.428													4	52					0	0	1	0	0		T	149678615	T	T	149678615	2	4	27	1	0	0	0	0	0	0	0	1	13462	755	27	1		1	RNF13	3	149678615	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	53	149678615	48343815	1984	24335											
PFN2	5217	broad.mit.edu	37	chr3	149686261	149686261	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatctctgatcactgagcatTtcttcgcgccaagagtcaaa	11	12	7	11	2	4	3	2	2	2	1	6	3	4	3	1	0	1	1	1	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:149686261T>C	uc003ext.1	-	2	307	c.209A>G	c.(208-210)AAA>AGA	p.K70R	PFN2_uc003exs.1_Missense_Mutation_p.K21R|PFN2_uc003exu.1_Missense_Mutation_p.K70R|PFN2_uc011bnu.1_Missense_Mutation_p.K70R	NM_053024	NP_444252	P35080	PROF2_HUMAN	profilin 2 isoform a	70					actin cytoskeleton organization|regulation of actin polymerization or depolymerization	actin cytoskeleton|cytoplasm	actin binding|phosphatidylinositol-4,5-bisphosphate binding				0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CACTGAGCATTTCTTCGCGCC	0.458													29	257					0	0	1	0	0		C	149686261	C	C	149686261	3	2	27	1	0	0	0	0	1	0	0	0	11787	1841	64	3	323	3	PFN2	3	149686261	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7646	149686261	48336169	1985	24336											
EIF2A	83939	broad.mit.edu	37	chr3	150282089	150282089	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttcattgacataggtgTccatcctggtcagaagatga	10	15	9	7	0	2	4	2	2	0	2	4	4	4	4	2	2	0	0	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:150282089T>G	uc003eya.2	+	6	412	c.396T>G	c.(394-396)TGT>TGG	p.C132W	SERP1_uc003exz.2_Intron|EIF2A_uc003eyb.2_Missense_Mutation_p.C5W|EIF2A_uc003eyc.2_Missense_Mutation_p.C5W|EIF2A_uc011bnv.1_Missense_Mutation_p.C107W|EIF2A_uc011bnw.1_Intron|EIF2A_uc003eyd.2_5'UTR	NM_032025	NP_114414	Q9BY44	EIF2A_HUMAN	eukaryotic translation initiation factor 2A	132	WD 2.				regulation of translation|ribosome assembly	eukaryotic translation initiation factor 2 complex	ribosome binding|translation initiation factor activity|tRNA binding				0		Melanoma(1037;0.0575)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GACATAGGTGTCCATCCTGGT	0.289													3	28					0	0	1	0	0		G	150282089	G	G	150282089	3	3	27	1	0	0	0	0	1	0	0	0	5001	1673	58	5	418	5	EIF2A	3	150282089	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	595828	150282089	47740341	1986	24337											
SIAH2	6478	broad.mit.edu	37	chr3	150460021	150460021	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtcgaaaacaaggcagtcGctgttcatgatggccgcagc	10	8	13	10	3	1	1	1	1	0	0	3	2	1	1	1	2	2	4	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:150460021G>A	uc003eyi.2	-	2	1509	c.882C>T	c.(880-882)AGC>AGT	p.S294S		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	294	SBD.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CAAGGCAGTCGCTGTTCATGA	0.498													6	69					0	0	1	0	0		A	150460021	A	A	150460021	2	1	27	1	0	0	0	0	0	0	0	1	14325	1078	38	1		1	SIAH2	3	150460021	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	177932	150460021	47562409	1987	24338											
MED12L	116931	broad.mit.edu	37	chr3	150845683	150845683	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgccaatggttcgagcAacgtggctgatcaagatgac	10	10	12	9	2	2	3	1	2	1	1	3	4	2	3	1	2	3	3	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:150845683A>G	uc003eyp.2	+	4	506	c.468A>G	c.(466-468)GCA>GCG	p.A156A	MED12L_uc011bnz.1_Silent_p.A156A|MED12L_uc003eym.1_Silent_p.A156A|MED12L_uc003eyn.2_Silent_p.A156A|MED12L_uc003eyo.2_Silent_p.A156A	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	156					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TGGTTCGAGCAACGTGGCTGA	0.353													9	73					0	0	1	0	0		G	150845683	G	G	150845683	2	3	27	1	0	0	0	0	0	0	0	1	9447	117	5	3		3	MED12L	3	150845683	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	385662	150845683	47176747	1988	24339											
MED12L	116931	broad.mit.edu	37	chr3	150874007	150874007	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccaagatttctgactttTaccacatggcctccagcacg	9	11	8	13	1	1	2	0	1	1	1	2	2	2	2	4	2	2	1	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:150874007T>C	uc003eyp.2	+	5	654	c.616T>C	c.(616-618)TAC>CAC	p.Y206H	MED12L_uc011bnz.1_Missense_Mutation_p.Y206H|MED12L_uc003eym.1_Missense_Mutation_p.Y206H|MED12L_uc003eyn.2_Missense_Mutation_p.Y206H|MED12L_uc003eyo.2_Missense_Mutation_p.Y206H	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	206					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TTCTGACTTTTACCACATGGC	0.453													9	72					0	0	1	0	0		C	150874007	C	C	150874007	3	2	27	1	0	0	0	0	1	0	0	0	9447	1754	61	3	634	3	MED12L	3	150874007	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	28324	150874007	47148423	1989	24340											
GPR87	53836	broad.mit.edu	37	chr3	151012189	151012189	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagattcatctaaaagcCtgtctaagtgactaaaagta	15	11	8	7	0	3	2	1	1	2	1	3	2	3	2	1	0	2	2	1	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151012189C>A	uc003eyt.2	-	3	1206	c.845G>T	c.(844-846)AGG>ATG	p.R282M	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_023915	NP_076404	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	282	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ATCTAAAAGCCTGTCTAAGTG	0.353													7	100					0.0293803	0.0298427	1	1	0		A	151012189	A	A	151012189	3	1	27	1	0	0	0	0	1	0	0	0	6731	681	24	5	235	5	GPR87	3	151012189	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	138182	151012189	47010241	1990	24341											
GPR87	53836	broad.mit.edu	37	chr3	151012373	151012373	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtaacatccgatcagaaTcaccagcacggccacaaaca	16	6	6	13	2	2	1	2	0	0	1	3	2	3	1	3	1	3	2	3	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151012373T>C	uc003eyt.2	-	3	1022	c.661A>G	c.(661-663)ATT>GTT	p.I221V	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_023915	NP_076404	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	221	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CCGATCAGAATCACCAGCACG	0.453													7	70					0	0	1	0	0		C	151012373	C	C	151012373	3	2	27	1	0	0	0	0	1	0	0	0	6731	1435	50	3	419	3	GPR87	3	151012373	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	184	151012373	47010057	1991	24342											
P2RY13	53829	broad.mit.edu	37	chr3	151046686	151046686	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgccggtcaagaaaaccActgtgtagagggctgggaat	12	7	15	7	1	1	2	1	0	0	2	1	4	1	4	2	4	2	2	2	4	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151046686A>G	uc003eyv.2	-	2	179	c.158T>C	c.(157-159)GTG>GCG	p.V53A	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_176894	NP_795713	Q9BPV8	P2Y13_HUMAN	purinergic receptor P2Y, G-protein coupled, 13	53	Helical; Name=1; (Potential).					integral to membrane|plasma membrane				ovary(3)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0189)|Lung(72;0.0278)			CAAGAAAACCACTGTGTAGAG	0.502													8	159					0	0	1	0	0		G	151046686	G	G	151046686	3	3	27	1	0	0	0	0	1	0	0	0	11369	159	6	3	910	3	P2RY13	3	151046686	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	34313	151046686	46975744	1992	24343											
P2RY12	64805	broad.mit.edu	37	chr3	151055700	151055700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaattggggcacttcagcaTacttatcaaggaatttctga	13	12	9	7	0	3	2	2	1	1	1	3	3	3	3	0	3	2	2	0	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151055700T>C	uc003eyw.1	-	2	1150	c.934A>G	c.(934-936)ATG>GTG	p.M312V	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY12_uc011boa.1_3'UTR|P2RY12_uc003eyx.1_Missense_Mutation_p.M312V	NM_176876	NP_795345	Q9H244	P2Y12_HUMAN	purinergic receptor P2Y12	312	Cytoplasmic (Potential).				platelet activation	integral to membrane|plasma membrane	guanyl-nucleotide exchange factor activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)		Clopidogrel(DB00758)|Epoprostenol(DB01240)|Ticlopidine(DB00208)|Treprostinil(DB00374)	CACTTCAGCATACTTATCAAG	0.413													15	106					0	0	1	0	0		C	151055700	C	C	151055700	3	2	27	1	0	0	0	0	1	0	0	0	11368	1406	49	3	98	3	P2RY12	3	151055700	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9014	151055700	46966730	1993	24344											
MED12L	116931	broad.mit.edu	37	chr3	151085503	151085503	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatagcacgacagtgttttTccctggaggacgtcgtgcag	8	11	13	9	3	0	1	0	1	0	0	2	4	1	3	1	2	2	3	1	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151085503T>C	uc003eyp.2	+	22	3330	c.3292T>C	c.(3292-3294)TCC>CCC	p.S1098P	MED12L_uc011bnz.1_Missense_Mutation_p.S958P|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.S261P	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1098					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ACAGTGTTTTTCCCTGGAGGA	0.433													28	182					0	0	1	0	0		C	151085503	C	C	151085503	3	2	27	1	0	0	0	0	1	0	0	0	9447	1783	62	3	3378	3	MED12L	3	151085503	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	29803	151085503	46936927	1994	24345											
MED12L	116931	broad.mit.edu	37	chr3	151095820	151095820	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcctccgaacgcaggggtgTatggttggtggcccccctca	5	10	13	13	2	1	0	1	0	0	0	3	1	3	0	5	5	1	3	5	5	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151095820T>C	uc003eyp.2	+	29	4270	c.4232T>C	c.(4231-4233)GTA>GCA	p.V1411A	MED12L_uc011bnz.1_Missense_Mutation_p.V1271A|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.V574A	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1411					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CGCAGGGGTGTATGGTTGGTG	0.532													4	112					0	0	1	0	0		C	151095820	C	C	151095820	3	2	27	1	0	0	0	0	1	0	0	0	9447	1638	57	3	4346	3	MED12L	3	151095820	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10317	151095820	46926610	1995	24346											
MED12L	116931	broad.mit.edu	37	chr3	151102876	151102876	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcgacagttactaccttTgccgaaacagacatgtgatg	12	11	9	9	2	0	2	0	1	0	1	1	4	0	2	2	0	4	2	2	0	3	4	rs61740424		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151102876T>C	uc003eyp.2	+	34	4918	c.4880T>C	c.(4879-4881)TTG>TCG	p.L1627S	MED12L_uc011bnz.1_Missense_Mutation_p.L1487S|P2RY12_uc011boa.1_5'Flank|P2RY12_uc003eyx.1_5'Flank|MED12L_uc003eyy.1_Missense_Mutation_p.L790S	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1627					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TTACTACCTTTGCCGAAACAG	0.388													12	159					0	0	1	0	0		C	151102876	C	C	151102876	3	2	27	1	0	0	0	0	1	0	0	0	9447	1821	63	3	5014	3	MED12L	3	151102876	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7056	151102876	46919554	1996	24347											
MED12L	116931	broad.mit.edu	37	chr3	151129193	151129193	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatccggccgcacattccaAccccgtgctaatggaaagac	11	7	8	15	3	0	1	0	0	0	1	2	2	2	2	5	2	2	2	5	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151129193A>G	uc003eyp.2	+	39	5971	c.5933A>G	c.(5932-5934)AAC>AGC	p.N1978S	MED12L_uc011bnz.1_Intron	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1978	Gln-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GCACATTCCAACCCCGTGCTA	0.592													5	97					0	0	1	0	0		G	151129193	G	G	151129193	3	3	27	1	0	0	0	0	1	0	0	0	9447	43	2	3	6087	3	MED12L	3	151129193	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26317	151129193	46893237	1997	24348											
IGSF10	285313	broad.mit.edu	37	chr3	151161304	151161304	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagccacggtcataaatacTgagattgtggaggaccaatg	15	8	11	7	1	1	1	1	1	0	1	1	4	1	3	2	3	2	0	2	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151161304T>C	uc011bod.1	-	5	5431	c.5431A>G	c.(5431-5433)AGT>GGT	p.S1811G	IGSF10_uc011bob.1_5'Flank|IGSF10_uc011boc.1_5'Flank	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1811	Ig-like C2-type 4.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TCATAAATACTGAGATTGTGG	0.478													9	58					0	0	1	0	0		C	151161304	C	C	151161304	3	2	27	1	0	0	0	0	1	0	0	0	7613	1580	55	3	2496	3	IGSF10	3	151161304	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	32111	151161304	46861126	1998	24349											
IGSF10	285313	broad.mit.edu	37	chr3	151164151	151164151	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggttatttacaaagttctgTtgccagggaattttccttct	8	18	8	7	0	2	0	0	0	2	0	3	1	3	1	2	2	2	3	2	2	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151164151T>A	uc011bod.1	-	4	3618	c.3618A>T	c.(3616-3618)CAA>CAT	p.Q1206H		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1206					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CAAAGTTCTGTTGCCAGGGAA	0.373													10	163					0	0	1	0	0		A	151164151	A	A	151164151	3	1	27	1	0	0	0	0	1	0	0	0	7613	1722	60	5	4313	5	IGSF10	3	151164151	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2847	151164151	46858279	1999	24350											
AADACL2	344752	broad.mit.edu	37	chr3	151458527	151458527	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaaccactttcagatgaaTacatcacagtgactgataca	15	9	5	12	0	2	4	2	3	0	1	2	4	2	4	2	0	3	0	2	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151458527T>A	uc003ezc.2	+	2	352	c.232T>A	c.(232-234)TAC>AAC	p.Y78N	AADACL2_uc010hvn.2_Intron	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2 precursor	78						extracellular region|integral to membrane	carboxylesterase activity				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			TTCAGATGAATACATCACAGT	0.363													6	66					0	0	1	0	0		A	151458527	A	A	151458527	3	1	27	1	0	0	0	0	1	0	0	0	11	1406	49	5	238	5	AADACL2	3	151458527	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	294376	151458527	46563903	2000	24351											
AADACL2	344752	broad.mit.edu	37	chr3	151458575	151458575	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgacattccagtacgattgTacttgccaaaaagaaagtca	15	11	7	8	1	1	2	1	1	0	1	2	3	2	2	2	0	3	2	2	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151458575T>A	uc003ezc.2	+	2	400	c.280T>A	c.(280-282)TAC>AAC	p.Y94N	AADACL2_uc010hvn.2_Intron	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2 precursor	94						extracellular region|integral to membrane	carboxylesterase activity				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			AGTACGATTGTACTTGCCAAA	0.378													8	65					0	0	1	0	0		A	151458575	A	A	151458575	3	1	27	1	0	0	0	0	1	0	0	0	11	1638	57	5	286	5	AADACL2	3	151458575	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	48	151458575	46563855	2001	24352											
AADACL2	344752	broad.mit.edu	37	chr3	151474982	151474982	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaatgagaagaaaccaacAcatgcctctggagtcaagac	16	5	10	10	0	2	3	1	1	1	3	2	5	2	4	2	2	3	1	2	2	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151474982A>C	uc003ezc.2	+	5	926	c.806A>C	c.(805-807)CAC>CCC	p.H269P	AADACL2_uc010hvn.2_Missense_Mutation_p.H56P	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2 precursor	269						extracellular region|integral to membrane	carboxylesterase activity				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			AGAAACCAACACATGCCTCTG	0.393													9	138					0	0	1	0	0		C	151474982	C	C	151474982	3	2	27	1	0	0	0	0	1	0	0	0	11	159	6	5	824	5	AADACL2	3	151474982	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	16407	151474982	46547448	2002	24353											
SUCNR1	56670	broad.mit.edu	37	chr3	151598454	151598454	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgtgggagtccttggaaaTaccattgttgtttacggcta	8	15	12	6	1	0	0	0	0	0	0	1	2	1	2	2	3	2	4	2	3	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:151598454T>A	uc003ezf.1	+	3	222	c.123T>A	c.(121-123)AAT>AAA	p.N41K		NM_033050	NP_149039	Q9BXA5	SUCR1_HUMAN	succinate receptor 1	41	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)		Succinic acid(DB00139)	TCCTTGGAAATACCATTGTTG	0.423													9	194					0	0	1	0	0		A	151598454	A	A	151598454	3	1	27	1	0	0	0	0	1	0	0	0	15391	1403	49	5	129	5	SUCNR1	3	151598454	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	123472	151598454	46423976	2003	24354											
SGEF	26084	broad.mit.edu	37	chr3	153840495	153840495	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgtggttttgagtacaaaCagccccgccgccctcaaagt	9	9	9	14	3	1	1	1	1	0	0	2	1	2	1	5	1	3	2	5	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:153840495C>G	uc011bog.1	+	2	925	c.714C>G	c.(712-714)AAC>AAG	p.N238K	uc003ezu.1_5'Flank|SGEF_uc011boh.1_Missense_Mutation_p.N238K	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	238					regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TGAGTACAAACAGCCCCGCCG	0.517													4	21					0	0	1	0	0		G	153840495	G	G	153840495	3	3	27	1	0	0	0	0	1	0	0	0	14230	477	17	5	716	5	SGEF	3	153840495	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2242041	153840495	44181935	2004	24355											
DHX36	170506	broad.mit.edu	37	chr3	154007584	154007584	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagacttgctctaagaccatTatacagatgatagcaatgac	16	10	7	8	0	1	5	0	2	1	3	1	5	1	5	1	0	3	2	1	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:154007584T>G	uc003ezy.3	-	16	1927	c.1846A>C	c.(1846-1848)AAT>CAT	p.N616H	DHX36_uc010hvq.2_Missense_Mutation_p.N602H|DHX36_uc003ezz.3_Missense_Mutation_p.N616H	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	616	Helicase C-terminal.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			CTAAGACCATTATACAGATGA	0.343													6	28					0	0	1	0	0		G	154007584	G	G	154007584	3	3	27	1	0	0	0	0	1	0	0	0	4515	1754	61	5	1220	5	DHX36	3	154007584	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	167089	154007584	44014846	2005	24356											
DHX36	170506	broad.mit.edu	37	chr3	154033048	154033048	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgagcatggtgtgttcttAgtagaaacttcagtaccgta	10	14	10	7	1	3	2	1	1	2	1	3	2	3	2	1	1	3	5	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:154033048A>G	uc003ezy.3	-	3	471	c.390T>C	c.(388-390)ACT>ACC	p.T130T	DHX36_uc010hvq.2_Silent_p.T130T|DHX36_uc003ezz.3_Silent_p.T130T	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	130	Potential.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			GTGTGTTCTTAGTAGAAACTT	0.318													7	71					0	0	1	0	0		G	154033048	G	G	154033048	2	3	27	1	0	0	0	0	0	0	0	1	4515	407	15	3		3	DHX36	3	154033048	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	25464	154033048	43989382	2006	24357											
GPR149	344758	broad.mit.edu	37	chr3	154146892	154146892	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgcacgaaggcgccccaGccgcacagcgggagcgccga	8	1	16	16	7	0	0	0	0	0	0	0	3	0	1	4	2	4	2	4	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:154146892G>T	uc003faa.2	-	1	613	c.513C>A	c.(511-513)GGC>GGA	p.G171G		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	171	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			AGGCGCCCCAGCCGCACAGCG	0.667													6	36					0.00116845	0.00121513	1	1	0		T	154146892	T	T	154146892	2	4	27	1	0	0	0	0	0	0	0	1	6669	958	34	5		5	GPR149	3	154146892	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	113844	154146892	43875538	2007	24358											
MME	4311	broad.mit.edu	37	chr3	154834710	154834710	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgaattctaaatatgggAaaaaagtccttattaatttg	17	14	6	4	0	1	1	0	1	1	0	2	2	2	2	1	1	1	0	1	1	10	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:154834710A>G	uc010hvr.1	+	7	800	c.589A>G	c.(589-591)AAA>GAA	p.K197E	MME_uc003fab.1_Missense_Mutation_p.K197E|MME_uc003fac.1_Missense_Mutation_p.K197E|MME_uc003fad.1_Missense_Mutation_p.K197E|MME_uc003fae.1_Missense_Mutation_p.K197E	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	197	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	TAAATATGGGAAAAAAGTCCT	0.299													6	68					0	0	1	0	0		G	154834710	G	G	154834710	3	3	27	1	0	0	0	0	1	0	0	0	9663	247	9	3	611	3	MME	3	154834710	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	687818	154834710	43187720	2008	24359											
PLCH1	23007	broad.mit.edu	37	chr3	155199955	155199955	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttctaaggccgctgtcttgGccttactagaaaggtcatca	9	13	9	10	1	4	1	2	0	2	1	4	1	4	1	2	3	1	1	2	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:155199955G>T	uc011bok.1	-	23	4161	c.3884C>A	c.(3883-3885)GCC>GAC	p.A1295D	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.A1257D	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1295					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CGCTGTCTTGGCCTTACTAGA	0.473													19	225					7.45023e-12	8.27399e-12	1	1	0		T	155199955	T	T	155199955	3	4	27	1	0	0	0	0	1	0	0	0	12056	1203	42	5	1201	5	PLCH1	3	155199955	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	365245	155199955	42822475	2009	24360											
PLCH1	23007	broad.mit.edu	37	chr3	155210593	155210593	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataactttcaggatgagctgCtttttggggttggcaggaag	9	13	14	5	0	1	1	1	1	0	0	1	3	1	3	0	5	3	4	0	5	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:155210593C>T	uc011bok.1	-	17	2473	c.2196G>A	c.(2194-2196)AAG>AAA	p.K732K	PLCH1_uc011boj.1_Silent_p.K732K|PLCH1_uc011bol.1_Silent_p.K714K	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	732	C2.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GGATGAGCTGCTTTTTGGGGT	0.468													9	99					0	0	1	0	0		T	155210593	T	T	155210593	2	4	27	1	0	0	0	0	0	0	0	1	12056	796	28	2		2	PLCH1	3	155210593	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10638	155210593	42811837	2010	24361											
PLCH1	23007	broad.mit.edu	37	chr3	155210640	155210640	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagagaaagggttgaaagTacctaggccaagtaaagtat	17	7	11	6	0	0	2	0	1	0	1	0	3	0	2	3	2	1	4	3	2	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:155210640T>C	uc011bok.1	-	17	2426	c.2149A>G	c.(2149-2151)ACT>GCT	p.T717A	PLCH1_uc011boj.1_Missense_Mutation_p.T717A|PLCH1_uc011bol.1_Missense_Mutation_p.T699A	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	717					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GGGTTGAAAGTACCTAGGCCA	0.423													3	82					0	0	1	0	0		C	155210640	C	C	155210640	3	2	27	1	0	0	0	0	1	0	0	0	12056	1638	57	3	2975	3	PLCH1	3	155210640	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47	155210640	42811790	2011	24362											
PLCH1	23007	broad.mit.edu	37	chr3	155232571	155232571	+	Missense_Mutation	SNP	A	G	G																															cagtagtgcccgcactgtgaAactatcaggatcttctttat																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:155232571A>G	uc011bok.1	-	11	1814	c.1537T>C	c.(1537-1539)TTC>CTC	p.F513L	PLCH1_uc011boj.1_Missense_Mutation_p.F513L|PLCH1_uc011bol.1_Missense_Mutation_p.F495L	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	513					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CGCACTGTGAAACTATCAGGA	0.418													6	80					0	0	1	0	0		G	155232571	G	G	155232571	3	3	27	1	0	0	0	0	1	0	0	0	12056	14	1	3	3611	3	PLCH1	3	155232571	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21931	155232571	42789859	2012	24363	45	2									
PLCH1	23007	broad.mit.edu	37	chr3	155232581	155232581	+	Missense_Mutation	SNP	A	T	T																															cgcactgtgaaactatcaggAtcttctttatctcgaatttg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:155232581A>T	uc011bok.1	-	11	1804	c.1527T>A	c.(1525-1527)GAT>GAA	p.D509E	PLCH1_uc011boj.1_Missense_Mutation_p.D509E|PLCH1_uc011bol.1_Missense_Mutation_p.D491E	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	509					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			AACTATCAGGATCTTCTTTAT	0.428													9	80					0	0	1	0	0		T	155232581	T	T	155232581	3	4	27	1	0	0	0	0	1	0	0	0	12056	330	12	5	3621	5	PLCH1	3	155232581	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10	155232581	42789849	2013	24364	45	2									
PLCH1	23007	broad.mit.edu	37	chr3	155314063	155314063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggtcgccatcggaggcGtgtccggtgctcatccaggt	6	8	16	11	4	1	1	1	0	0	1	5	2	3	2	3	5	1	1	3	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:155314063G>A	uc011bok.1	-	2	425	c.148C>T	c.(148-150)CGC>TGC	p.R50C	PLCH1_uc011boj.1_Missense_Mutation_p.R50C|PLCH1_uc011bol.1_Missense_Mutation_p.R32C	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	50	PH.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CATCGGAGGCGTGTCCGGTGC	0.483													14	210					0	0	1	0	0		A	155314063	A	A	155314063	3	1	27	1	0	0	0	0	1	0	0	0	12056	1145	40	1	5036	1	PLCH1	3	155314063	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	81482	155314063	42708367	2014	24365											
SLC33A1	9197	broad.mit.edu	37	chr3	155551721	155551721	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgataatcagaggcagtAttatctgcaaaggaaccatt	14	11	9	7	0	2	2	1	1	1	1	2	3	2	3	1	2	3	4	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:155551721A>G	uc003fan.3	-	3	1454	c.1073T>C	c.(1072-1074)ATA>ACA	p.I358T	SLC33A1_uc003fao.1_Missense_Mutation_p.I358T	NM_004733	NP_004724	O00400	ACATN_HUMAN	acetyl-coenzyme A transporter	358	Helical; (Potential).				cell death|transmembrane transport	endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane|membrane fraction	acetyl-CoA transporter activity			ovary(2)|large_intestine(1)|pancreas(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CAGAGGCAGTATTATCTGCAA	0.408													4	78					0	0	1	0	0		G	155551721	G	G	155551721	3	3	27	1	0	0	0	0	1	0	0	0	14591	449	16	3	592	3	SLC33A1	3	155551721	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	237658	155551721	42470709	2015	24366											
SLC33A1	9197	broad.mit.edu	37	chr3	155571069	155571069	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgcaaatatttgttacaaaAgtcggcagattcaagggcca	14	9	9	9	2	1	1	1	0	0	1	2	1	1	1	2	2	1	3	2	2	6	4	rs145201278		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:155571069A>G	uc003fan.3	-	1	1099	c.718T>C	c.(718-720)TTT>CTT	p.F240L	SLC33A1_uc003fao.1_Missense_Mutation_p.F240L	NM_004733	NP_004724	O00400	ACATN_HUMAN	acetyl-coenzyme A transporter	240	Extracellular (Potential).				cell death|transmembrane transport	endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane|membrane fraction	acetyl-CoA transporter activity			ovary(2)|large_intestine(1)|pancreas(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TTGTTACAAAAGTCGGCAGAT	0.408													10	61					0	0	1	0	0		G	155571069	G	G	155571069	3	3	27	1	0	0	0	0	1	0	0	0	14591	72	3	3	955	3	SLC33A1	3	155571069	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19348	155571069	42451361	2016	24367											
GMPS	8833	broad.mit.edu	37	chr3	155624029	155624029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggattcaaggttgtggCacgttctggaaacatagtag	11	12	13	5	1	2	1	1	1	1	0	2	3	2	3	0	4	1	4	0	4	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:155624029C>T	uc003faq.2	+	5	838	c.503C>T	c.(502-504)GCA>GTA	p.A168V	GMPS_uc011bom.1_Missense_Mutation_p.A69V	NM_003875	NP_003866	P49915	GUAA_HUMAN	guanine monophosphate synthetase	168	Glutamine amidotransferase type-1.				glutamine metabolic process|purine base biosynthetic process	cytosol	ATP binding|GMP synthase (glutamine-hydrolyzing) activity|GMP synthase activity			ovary(2)|lung(1)	3			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	AAGGTTGTGGCACGTTCTGGA	0.353			T	MLL	AML								14	154					0	0	1	0	0		T	155624029	T	T	155624029	3	4	27	1	0	0	0	0	1	0	0	0	6513	710	25	2	521	2	GMPS	3	155624029	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	52960	155624029	42398401	2017	24368											
KCNAB1	7881	broad.mit.edu	37	chr3	156241671	156241671	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagggagaaaacagcaaaAcaagctaaaagacctttccc	20	4	8	9	0	0	3	0	0	0	3	1	4	1	3	2	1	4	2	2	1	8	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:156241671A>C	uc003far.2	+	12	1080	c.1016A>C	c.(1015-1017)AAC>ACC	p.N339T	KCNAB1_uc011bon.1_Missense_Mutation_p.N310T|KCNAB1_uc003fas.2_Missense_Mutation_p.N328T|KCNAB1_uc003fat.2_Missense_Mutation_p.N321T|KCNAB1_uc010hvt.1_Missense_Mutation_p.N292T|KCNAB1_uc011boo.1_Missense_Mutation_p.N215T	NM_172160	NP_751892	Q14722	KCAB1_HUMAN	potassium voltage-gated channel, shaker-related	339						cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			AAACAGCAAAACAAGCTAAAA	0.428													10	133					0	0	1	0	0		C	156241671	C	C	156241671	3	2	27	1	0	0	0	0	1	0	0	0	8025	43	2	5	1533	5	KCNAB1	3	156241671	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	617642	156241671	41780759	2018	24369											
TIPARP	25976	broad.mit.edu	37	chr3	156395462	156395462	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaggatttttagactctgaGgagcagttggagctaatcca	11	12	12	6	0	1	2	0	1	1	1	2	5	2	5	1	3	2	4	1	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:156395462G>T	uc003fav.2	+	2	224	c.-24G>T	c.(-26--22)GAGGA>GATGA		LOC100287227_uc011boq.1_5'Flank|TIPARP_uc003faw.2_Translation_Start_Site	NM_015508	NP_056323	Q7Z3E1	PARPT_HUMAN	TCDD-inducible poly(ADP-ribose) polymerase								NAD+ ADP-ribosyltransferase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|breast(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			TAGACTCTGAGGAGCAGTTGG	0.423													4	61					0.150653	0.151846	1	1	0		T	156395462	T	T	156395462	1	4	27	1	0	0	0	0	0	0	0	0	15949	1015	35	5		5	TIPARP	3	156395462	Translation_Start_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	153791	156395462	41626968	2019	24370											
TIPARP	25976	broad.mit.edu	37	chr3	156422589	156422589	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctgcaaacacaactttgAccctcgagtctgtggaaagc	13	9	8	11	1	2	1	0	1	2	0	3	3	2	2	1	1	4	1	1	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:156422589A>C	uc003fav.2	+	6	1891	c.1643A>C	c.(1642-1644)GAC>GCC	p.D548A	TIPARP_uc003faw.2_Missense_Mutation_p.D548A	NM_015508	NP_056323	Q7Z3E1	PARPT_HUMAN	TCDD-inducible poly(ADP-ribose) polymerase	548	PARP catalytic.						NAD+ ADP-ribosyltransferase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|breast(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			CACAACTTTGACCCTCGAGTC	0.403													5	174					0	0	1	0	0		C	156422589	C	C	156422589	3	2	27	1	0	0	0	0	1	0	0	0	15949	275	10	5	1661	5	TIPARP	3	156422589	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	27127	156422589	41599841	2020	24371											
VEPH1	79674	broad.mit.edu	37	chr3	156979019	156979019	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctgcattcttctcatcCttggccttaaagacataggt	8	16	6	11	0	4	1	1	0	4	1	6	1	5	1	2	2	1	1	2	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:156979019C>A	uc003fbj.1	-	14	2723	c.2406G>T	c.(2404-2406)AAG>AAT	p.K802N	VEPH1_uc003fbk.1_Missense_Mutation_p.K802N|VEPH1_uc010hvu.1_Missense_Mutation_p.K757N	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	802	PH.					plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			TCTTCTCATCCTTGGCCTTAA	0.483													9	102					0.00448238	0.00462772	1	1	0		A	156979019	A	A	156979019	3	1	27	1	0	0	0	0	1	0	0	0	17180	680	24	5	99	5	VEPH1	3	156979019	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	556430	156979019	41043411	2021	24372											
VEPH1	79674	broad.mit.edu	37	chr3	157004378	157004378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggattgttgcacatgaagCattgccatgctcctgctgtt	8	13	10	10	0	0	1	0	1	0	0	1	2	1	2	2	1	5	6	2	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:157004378C>T	uc003fbj.1	-	12	2413	c.2096G>A	c.(2095-2097)TGC>TAC	p.C699Y	VEPH1_uc003fbk.1_Missense_Mutation_p.C699Y|VEPH1_uc010hvu.1_Missense_Mutation_p.C654Y	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	699						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			GCACATGAAGCATTGCCATGC	0.488													7	198					0	0	1	0	0		T	157004378	T	T	157004378	3	4	27	1	0	0	0	0	1	0	0	0	17180	710	25	2	417	2	VEPH1	3	157004378	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25359	157004378	41018052	2022	24373											
VEPH1	79674	broad.mit.edu	37	chr3	157031509	157031509	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctctgaggaattgcacagaAtgactctgaatggacagggg	12	8	14	7	0	2	4	0	3	2	1	2	6	2	6	0	4	1	2	0	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:157031509A>G	uc003fbj.1	-	11	2228	c.1911T>C	c.(1909-1911)CAT>CAC	p.H637H	VEPH1_uc003fbk.1_Silent_p.H637H|VEPH1_uc010hvu.1_Intron	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	637						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			ATTGCACAGAATGACTCTGAA	0.473													6	78					0	0	1	0	0		G	157031509	G	G	157031509	2	3	27	1	0	0	0	0	0	0	0	1	17180	98	4	3		3	VEPH1	3	157031509	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	27131	157031509	40990921	2023	24374											
GFM1	85476	broad.mit.edu	37	chr3	158364621	158364621	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgttggaggggtacagTgccagaccatgactgtcaat	9	10	14	8	0	1	2	1	1	0	1	1	3	1	3	2	3	3	3	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:158364621T>C	uc003fce.2	+	4	564	c.457T>C	c.(457-459)TGC>CGC	p.C153R	GFM1_uc003fcd.2_Missense_Mutation_p.C153R|GFM1_uc003fcf.2_RNA|GFM1_uc003fcg.2_Missense_Mutation_p.C65R	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor	153					mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			AGGGGTACAGTGCCAGACCAT	0.493													3	47					0	0	1	0	0		C	158364621	C	C	158364621	3	2	27	1	0	0	0	0	1	0	0	0	6356	1696	59	3	471	3	GFM1	3	158364621	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1333112	158364621	39657809	2024	24375											
GFM1	85476	broad.mit.edu	37	chr3	158366884	158366884	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacccatgggtttggagggTaattttaaaggtattgtaga	12	14	12	3	0	0	1	0	0	0	1	0	2	0	2	1	4	1	4	1	4	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:158366884T>A	uc003fce.2	+	5	734	c.627T>A	c.(625-627)GGT>GGA	p.G209G	GFM1_uc003fcd.2_Silent_p.G209G|GFM1_uc003fcf.2_RNA|GFM1_uc003fcg.2_Silent_p.G121G	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor	209					mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			GTTTGGAGGGTAATTTTAAAG	0.303													8	144					0	0	1	0	0		A	158366884	A	A	158366884	2	1	27	1	0	0	0	0	0	0	0	1	6356	1625	57	5		5	GFM1	3	158366884	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2263	158366884	39655546	2025	24376											
GFM1	85476	broad.mit.edu	37	chr3	158369951	158369951	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccactgaccaccggcaggaGctaattgaatgtgttgccaa	11	8	11	11	1	0	2	0	2	0	0	0	3	0	3	4	2	2	3	4	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:158369951G>A	uc003fce.2	+	6	863	c.756G>A	c.(754-756)GAG>GAA	p.E252E	GFM1_uc003fcd.2_Silent_p.E252E|GFM1_uc003fcf.2_RNA|GFM1_uc003fcg.2_Silent_p.E183E	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor	252					mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			ACCGGCAGGAGCTAATTGAAT	0.418													10	85					0	0	1	0	0		A	158369951	A	A	158369951	2	1	27	1	0	0	0	0	0	0	0	1	6356	962	34	2		2	GFM1	3	158369951	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3067	158369951	39652479	2026	24377											
MFSD1	64747	broad.mit.edu	37	chr3	158538089	158538089	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtctgctattatgttgcTgtgttcccttttattggact	4	21	9	7	0	1	0	0	0	1	0	2	1	2	1	1	1	2	4	1	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:158538089T>G	uc003fcl.1	+	9	867	c.837T>G	c.(835-837)GCT>GCG	p.A279A	MFSD1_uc003fcm.1_RNA|MFSD1_uc003fcn.1_Silent_p.A182A|MFSD1_uc011bow.1_Silent_p.A240A|MFSD1_uc011box.1_Silent_p.A206A	NM_022736	NP_073573	Q9H3U5	MFSD1_HUMAN	major facilitator superfamily domain containing	279	Helical; (Potential).				transmembrane transport	integral to membrane					0			Lung(72;0.00372)|LUSC - Lung squamous cell carcinoma(72;0.00523)			ATTATGTTGCTGTGTTCCCTT	0.333													4	103					0	0	1	0	0		G	158538089	G	G	158538089	2	3	27	1	0	0	0	0	0	0	0	1	9545	1567	55	5		5	MFSD1	3	158538089	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	168138	158538089	39484341	2027	24378											
IFT80	57560	broad.mit.edu	37	chr3	160099392	160099392	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagggtaaatatcatcaggaAgctttactatttgagttgtt	12	16	9	4	0	2	1	2	1	0	0	2	2	2	2	0	2	2	4	0	2	7	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:160099392A>G	uc011boy.1	-	3	591	c.158T>C	c.(157-159)CTT>CCT	p.L53P	IFT80_uc003fda.2_Intron|IFT80_uc003fdb.1_5'UTR|IFT80_uc003fdd.1_5'UTR|IFT80_uc003fde.1_5'UTR	NM_020800	NP_065851	Q9P2H3	IFT80_HUMAN	WD repeat domain 56	53						cilium axoneme|microtubule basal body				ovary(1)	1			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			ATCATCAGGAAGCTTTACTAT	0.398													6	90					0	0	1	0	0		G	160099392	G	G	160099392	3	3	27	1	0	0	0	0	1	0	0	0	7580	72	3	3	2247	3	IFT80	3	160099392	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1561303	160099392	37923038	2028	24379											
SMC4	10051	broad.mit.edu	37	chr3	160146611	160146611	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcttacacaataccatcgtAgaaatcaataatcataaact	18	10	3	10	2	2	1	2	0	0	1	3	1	2	1	1	0	3	2	1	0	9	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:160146611A>G	uc003fdh.2	+	18	2789	c.2676A>G	c.(2674-2676)GTA>GTG	p.V892V	IFT80_uc003fda.2_Intron|SMC4_uc003fdi.2_Silent_p.V867V|SMC4_uc003fdj.2_Silent_p.V892V|SMC4_uc010hwd.2_Silent_p.V892V|SMC4_uc003fdl.2_Silent_p.V595V	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	892	Potential.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			ATACCATCGTAGAAATCAATA	0.333													9	90					0	0	1	0	0		G	160146611	G	G	160146611	2	3	27	1	0	0	0	0	0	0	0	1	14810	407	15	3		3	SMC4	3	160146611	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	47219	160146611	37875819	2029	24380											
TRIM59	286827	broad.mit.edu	37	chr3	160155817	160155817	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatagaaaatgtgacacagTatattctttaccttatgcag	16	13	6	6	0	1	2	0	1	1	1	1	2	1	2	1	0	2	2	1	0	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:160155817T>C	uc003fdm.2	-	3	1350	c.1155A>G	c.(1153-1155)ATA>ATG	p.I385M	IFT80_uc003fda.2_Intron	NM_173084	NP_775107	Q8IWR1	TRI59_HUMAN	tripartite motif-containing 59	385						integral to membrane|intracellular	zinc ion binding				0			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TGTGACACAGTATATTCTTTA	0.308													5	46					0	0	1	0	0		C	160155817	C	C	160155817	3	2	27	1	0	0	0	0	1	0	0	0	16558	1628	57	3	60	3	TRIM59	3	160155817	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9206	160155817	37866613	2030	24381											
B3GALNT1	8706	broad.mit.edu	37	chr3	160804562	160804562	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacagcagctcagaagcaCgcgagccgaaggttctggaa	12	5	12	12	3	2	1	1	0	1	1	3	4	3	2	2	2	4	4	2	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:160804562C>T	uc003fdv.2	-	5	400	c.-19G>A	c.(-21--17)GCGTG>GCATG		B3GALNT1_uc003fdw.2_Translation_Start_Site|B3GALNT1_uc003fdx.2_Translation_Start_Site|B3GALNT1_uc003fdy.2_Translation_Start_Site|B3GALNT1_uc003fdz.2_Translation_Start_Site|B3GALNT1_uc003fea.2_Translation_Start_Site|B3GALNT1_uc011bpa.1_Translation_Start_Site	NM_033169	NP_149359	O75752	B3GL1_HUMAN	UDP-Gal:betaGlcNAc beta						protein glycosylation	Golgi membrane|integral to membrane	galactosylgalactosylglucosylceramide beta-D-acetylgalactosaminyltransferase activity|UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;4.41e-05)|Lung(72;4.61e-05)			CTCAGAAGCACGCGAGCCGAA	0.488													8	26					0	0	1	0	0		T	160804562	T	T	160804562	1	4	27	1	0	0	0	0	0	0	0	0	1246	551	19	1		1	B3GALNT1	3	160804562	Translation_Start_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	648745	160804562	37217868	2031	24382											
NMD3	51068	broad.mit.edu	37	chr3	160951189	160951189	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttgtgttttattgaaggtAcggcttgtagatgcaggctt	7	17	13	4	1	0	2	0	1	0	1	0	2	0	2	0	3	2	7	0	3	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:160951189A>G	uc003feb.1	+	5	398	c.279A>G	c.(277-279)GTA>GTG	p.V93V	NMD3_uc003fec.2_Silent_p.V93V|NMD3_uc003fed.1_Silent_p.V93V|NMD3_uc010hwh.2_5'Flank	NM_015938	NP_057022	Q96D46	NMD3_HUMAN	NMD3 homolog	93					protein transport	cytoplasm|nucleolus|nucleoplasm				ovary(1)	1			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			TATTGAAGGTACGGCTTGTAG	0.353													4	26					0	0	1	0	0		G	160951189	G	G	160951189	2	3	27	1	0	0	0	0	0	0	0	1	10507	378	14	3		3	NMD3	3	160951189	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	146627	160951189	37071241	2032	24383											
SI	6476	broad.mit.edu	37	chr3	164750471	164750471	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgaatgtgtgcacacaatatCtaatgtgttctgagaaaaat	15	13	8	5	0	2	2	0	2	2	1	2	3	2	2	0	0	1	2	0	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:164750471C>G	uc003fei.2	-	24	2637	c.2575G>C	c.(2575-2577)GAT>CAT	p.D859H		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	859	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	CACACAATATCTAATGTGTTC	0.323										HNSCC(35;0.089)			5	48					0	0	1	0	0		G	164750471	G	G	164750471	3	3	27	1	0	0	0	0	1	0	0	0	14322	913	32	5	3008	5	SI	3	164750471	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3799282	164750471	33271959	2033	24384											
SI	6476	broad.mit.edu	37	chr3	164764647	164764647	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaaaggtattccaaacaaActgaactccagcattccagt	16	8	5	12	0	0	1	0	1	0	0	3	1	3	1	4	1	4	2	4	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:164764647A>G	uc003fei.2	-	16	1931	c.1869T>C	c.(1867-1869)AGT>AGC	p.S623S		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	623	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TTCCAAACAAACTGAACTCCA	0.338										HNSCC(35;0.089)			6	103					0	0	1	0	0		G	164764647	G	G	164764647	2	3	27	1	0	0	0	0	0	0	0	1	14322	40	2	3		3	SI	3	164764647	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14176	164764647	33257783	2034	24385											
SLITRK3	22865	broad.mit.edu	37	chr3	164906123	164906123	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggtgatggtgattcacCgtcactatggtgttaagctg	8	13	14	6	1	2	3	2	3	0	0	2	3	2	3	1	3	1	2	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:164906123C>T	uc003fej.3	-	2	2940	c.2496G>A	c.(2494-2496)ACG>ACA	p.T832T	SLITRK3_uc003fek.2_Silent_p.T832T	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	832	Cytoplasmic (Potential).					integral to membrane		p.T832M(1)		ovary(6)|skin(3)|pancreas(1)	10						GGTGATTCACCGTCACTATGG	0.547										HNSCC(40;0.11)			8	115					0	0	1	0	0		T	164906123	T	T	164906123	2	4	27	1	0	0	0	0	0	0	0	1	14769	639	23	1		1	SLITRK3	3	164906123	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	141476	164906123	33116307	2035	24386											
BCHE	590	broad.mit.edu	37	chr3	165547744	165547744	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgaagccaggagcaccatAgactaaaaaagctgtccctt	14	7	9	11	0	0	2	0	1	0	1	1	3	1	3	3	1	3	3	3	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:165547744A>G	uc003fem.3	-	2	1238	c.1078T>C	c.(1078-1080)TAT>CAT	p.Y360H	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	360					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	GGAGCACCATAGACTAAAAAA	0.353													5	42					0	0	1	0	0		G	165547744	G	G	165547744	3	3	27	1	0	0	0	0	1	0	0	0	1359	420	15	3	742	3	BCHE	3	165547744	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	641621	165547744	32474686	2036	24387											
SERPINI2	5276	broad.mit.edu	37	chr3	167189553	167189553	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcaaattcggtatttttttGagctgagcatcttgaggctt	8	17	10	6	1	1	3	0	3	1	0	2	3	1	3	0	2	3	5	0	2	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:167189553G>A	uc003fer.1	-	1	128	c.70C>T	c.(70-72)CAA>TAA	p.Q24*	SERPINI2_uc003fes.1_Nonsense_Mutation_p.Q34*|SERPINI2_uc003fet.1_Nonsense_Mutation_p.Q24*	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),	24					cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						GTATTTTTTTGAGCTGAGCAT	0.348													11	183					0	0	1	0	0		A	167189553	A	A	167189553	4	1	27	1	0	0	0	0	0	1	0	0	14144	1299	45	4	1179	4	SERPINI2	3	167189553	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1641809	167189553	30832877	2037	24388											
PDCD10	11235	broad.mit.edu	37	chr3	167422672	167422672	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctgggctgcagacagattTactcgttctagctgcaataa	10	12	10	9	1	2	2	0	0	2	2	3	2	2	2	0	1	4	5	0	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:167422672T>A	uc003fex.2	-	4	506	c.108A>T	c.(106-108)GTA>GTT	p.V36V	PDCD10_uc003fez.2_Silent_p.V36V|PDCD10_uc003fey.2_Silent_p.V36V	NM_007217	NP_009148	Q9BUL8	PDC10_HUMAN	programmed cell death 10	36					angiogenesis|apoptosis|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of MAP kinase activity	cytosol|Golgi membrane|plasma membrane	protein homodimerization activity|protein N-terminus binding			lung(1)|central_nervous_system(1)	2						CAGACAGATTTACTCGTTCTA	0.333									Familial_Cerebral_Cavernous_Angioma				4	33					0	0	1	0	0		A	167422672	A	A	167422672	2	1	27	1	0	0	0	0	0	0	0	1	11635	1741	61	5		5	PDCD10	3	167422672	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	233119	167422672	30599758	2038	24389											
MECOM	2122	broad.mit.edu	37	chr3	168833263	168833263	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacgttgcttccttttttTcccccaaacacgtggttttt	5	18	6	12	3	0	0	0	0	0	0	3	1	2	0	3	1	2	3	3	1	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:168833263T>C	uc003ffi.3	-	7	2102	c.1833A>G	c.(1831-1833)GGA>GGG	p.G611G	MECOM_uc010hwk.1_Silent_p.G634G|MECOM_uc003ffj.3_Silent_p.G676G|MECOM_uc011bpi.1_Silent_p.G612G|MECOM_uc003ffn.3_Silent_p.G611G|MECOM_uc003ffk.2_Silent_p.G611G|MECOM_uc003ffl.2_Silent_p.G771G|MECOM_uc011bpj.1_Silent_p.G799G|MECOM_uc011bpk.1_Silent_p.G601G|MECOM_uc010hwn.2_Silent_p.G799G	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	611					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						TTCCTTTTTTTCCCCCAAACA	0.498													10	61					0	0	1	0	0		C	168833263	C	C	168833263	2	2	27	1	0	0	0	0	0	0	0	1	9440	1770	62	3		3	MECOM	3	168833263	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1410591	168833263	29189167	2039	24390											
MECOM	2122	broad.mit.edu	37	chr3	169099286	169099286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcttccaaaggtatttcagGgtagttgccatatacacact	11	14	7	9	0	2	0	1	0	1	0	3	0	3	0	2	2	2	3	2	2	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:169099286G>A	uc011bpj.1	-	2	467	c.64C>T	c.(64-66)CCT>TCT	p.P22S	MECOM_uc003ffl.2_5'UTR|MECOM_uc011bpk.1_Intron|MECOM_uc010hwn.2_Missense_Mutation_p.P22S|MECOM_uc011bpl.1_Missense_Mutation_p.P22S	NM_004991	NP_004982	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform c	Error:Variant_position_missing_in_Q03112_after_alignment					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.R22C(1)		lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						GGTATTTCAGGGTAGTTGCCA	0.433													7	27					0	0	1	0	0		A	169099286	A	A	169099286	3	1	27	1	0	0	0	0	1	0	0	0	9440	1232	43	4	3729	4	MECOM	3	169099286	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	266023	169099286	28923144	2040	24391											
MYNN	55892	broad.mit.edu	37	chr3	169497203	169497203	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggccaagccaatgtgtaAcacatgtgggaaagtgtttt	13	10	11	7	0	0	0	0	0	0	0	0	1	0	1	2	2	2	2	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:169497203A>G	uc003fft.2	+	3	1343	c.914A>G	c.(913-915)AAC>AGC	p.N305S	MYNN_uc011bpm.1_Missense_Mutation_p.N191S|MYNN_uc003ffu.2_Missense_Mutation_p.N305S|MYNN_uc003ffv.2_Missense_Mutation_p.N32S|MYNN_uc010hwo.2_Missense_Mutation_p.N305S|MYNN_uc003ffw.1_RNA	NM_018657	NP_061127	Q9NPC7	MYNN_HUMAN	myoneurin	305	C2H2-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;2.19e-58)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			CCAATGTGTAACACATGTGGG	0.468													5	52					0	0	1	0	0		G	169497203	G	G	169497203	3	3	27	1	0	0	0	0	1	0	0	0	10079	43	2	3	920	3	MYNN	3	169497203	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	397917	169497203	28525227	2041	24392											
LRRC31	79782	broad.mit.edu	37	chr3	169574164	169574164	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgataatccacatgaatgTaacttcagtactttcagatt	13	15	6	7	0	2	3	2	2	0	1	3	3	3	3	1	0	2	2	1	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:169574164T>A	uc003fgc.1	-	5	860	c.783A>T	c.(781-783)TTA>TTT	p.L261F	LRRC31_uc010hwp.1_Missense_Mutation_p.L205F	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	261	LRR 2.									ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			CACATGAATGTAACTTCAGTA	0.313													6	82					0	0	1	0	0		A	169574164	A	A	169574164	3	1	27	1	0	0	0	0	1	0	0	0	9004	1635	57	5	895	5	LRRC31	3	169574164	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	76961	169574164	28448266	2042	24393											
GPR160	26996	broad.mit.edu	37	chr3	169801907	169801907	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaggaatgagaagaaaaaaCacctgtcaaaattttatgga	19	9	8	5	0	1	2	1	1	0	2	1	5	1	4	1	2	1	0	1	2	9	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:169801907C>T	uc003fgi.2	+	4	737	c.147C>T	c.(145-147)AAC>AAT	p.N49N	GPR160_uc010hwq.2_Silent_p.N49N	NM_014373	NP_055188	Q9UJ42	GP160_HUMAN	G protein-coupled receptor 160	49	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_cancers(22;3.26e-22)|all_epithelial(15;5.71e-27)|all_lung(20;8.41e-17)|Lung NSC(18;3.49e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			GAAGAAAAAACACCTGTCAAA	0.303													7	89					0	0	1	0	0		T	169801907	T	T	169801907	2	4	27	1	0	0	0	0	0	0	0	1	6679	477	17	4		4	GPR160	3	169801907	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	227743	169801907	28220523	2043	24394											
GPR160	26996	broad.mit.edu	37	chr3	169802241	169802241	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgggagacccagccatcTaccaaagcctgaaggcacag	12	7	10	12	0	1	2	0	1	1	1	1	3	1	2	4	2	3	1	4	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:169802241T>C	uc003fgi.2	+	4	1071	c.481T>C	c.(481-483)TAC>CAC	p.Y161H	GPR160_uc010hwq.2_Missense_Mutation_p.Y161H	NM_014373	NP_055188	Q9UJ42	GP160_HUMAN	G protein-coupled receptor 160	161	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_cancers(22;3.26e-22)|all_epithelial(15;5.71e-27)|all_lung(20;8.41e-17)|Lung NSC(18;3.49e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			CCCAGCCATCTACCAAAGCCT	0.353													5	61					0	0	1	0	0		C	169802241	C	C	169802241	3	2	27	1	0	0	0	0	1	0	0	0	6679	1522	53	3	483	3	GPR160	3	169802241	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	334	169802241	28220189	2044	24395											
PHC3	80012	broad.mit.edu	37	chr3	169831155	169831155	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacccacaaaccttcagcAatcatgtcttccatctctgt	12	11	4	14	0	4	0	2	0	2	0	6	1	5	0	3	0	3	1	3	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:169831155A>G	uc010hws.1	-	11	2374	c.2310T>C	c.(2308-2310)ATT>ATC	p.I770I	PHC3_uc003fgl.2_Silent_p.I782I|PHC3_uc011bpq.1_Silent_p.I729I	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	770					multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			AACCTTCAGCAATCATGTCTT	0.353													7	75					0	0	1	0	0		G	169831155	G	G	169831155	2	3	27	1	0	0	0	0	0	0	0	1	11837	126	5	3		3	PHC3	3	169831155	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	28914	169831155	28191275	2045	24396											
PRKCI	5584	broad.mit.edu	37	chr3	169953064	169953064	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccatctcctttgagggcCtttgcaatgaggttcgagac	7	13	10	11	1	1	3	0	2	1	1	4	4	2	3	3	2	1	2	3	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:169953064C>A	uc003fgs.2	+	2	386	c.148C>A	c.(148-150)CTT>ATT	p.L50I		NM_002740	NP_002731	P41743	KPCI_HUMAN	protein kinase C, iota	50	Regulatory domain.|OPR.				anti-apoptosis|cellular membrane organization|cellular response to insulin stimulus|establishment or maintenance of epithelial cell apical/basal polarity|intracellular signal transduction|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|protein targeting to membrane|secretion|tight junction assembly|vesicle-mediated transport	cytosol|endosome|nucleus|polarisome	ATP binding|phospholipid binding|protein binding|protein kinase C activity|zinc ion binding			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			CTTTGAGGGCCTTTGCAATGA	0.388													5	48					0.014758	0.0150623	1	1	0		A	169953064	A	A	169953064	3	1	27	1	0	0	0	0	1	0	0	0	12536	681	24	5	154	5	PRKCI	3	169953064	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	121909	169953064	28069366	2046	24397											
SKIL	6498	broad.mit.edu	37	chr3	170078472	170078472	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccaagaaagcatgtcgcCtactgtatttctgcctcttc	8	14	6	13	1	2	1	0	0	2	1	5	1	3	1	3	0	3	2	3	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:170078472C>A	uc003fgu.2	+	2	1065	c.353C>A	c.(352-354)CCT>CAT	p.P118H	SKIL_uc011bps.1_Missense_Mutation_p.P98H|SKIL_uc003fgv.2_Missense_Mutation_p.P118H|SKIL_uc003fgw.2_Missense_Mutation_p.P118H	NM_005414	NP_005405	P12757	SKIL_HUMAN	SKI-like isoform 1	118					cell cycle arrest|negative regulation of cell differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of axonogenesis|protein heterotrimerization|protein homotrimerization|regulation of apoptosis|regulation of apoptosis|response to antibiotic|response to growth factor stimulus|skeletal muscle tissue development	cytoplasm|PML body	chromatin binding|nucleotide binding|protein complex binding|protein domain specific binding|SMAD binding|transcription corepressor activity|transcription repressor activity			ovary(2)|skin(1)	3	all_cancers(22;7.13e-23)|all_epithelial(15;9.95e-28)|all_lung(20;1.23e-16)|Lung NSC(18;5.15e-16)|Ovarian(172;0.000337)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			AGCATGTCGCCTACTGTATTT	0.493													6	234					0.217242	0.218248	1	1	0		A	170078472	A	A	170078472	3	1	27	1	0	0	0	0	1	0	0	0	14383	681	24	5	355	5	SKIL	3	170078472	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	125408	170078472	27943958	2047	24398											
SLC7A14	57709	broad.mit.edu	37	chr3	170219127	170219127	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaactccaaactctgcataGcagacgcctgcaagggacag	13	5	10	13	2	1	1	0	0	1	1	2	3	2	2	2	1	5	3	2	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:170219127G>T	uc003fgz.2	-	3	628	c.312C>A	c.(310-312)TGC>TGA	p.C104*	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	104						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			ACTCTGCATAGCAGACGCCTG	0.498													3	28					0.115264	0.116483	1	1	0		T	170219127	T	T	170219127	4	4	27	1	0	0	0	0	0	1	0	0	14721	963	34	5	2027	5	SLC7A14	3	170219127	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	140655	170219127	27803303	2048	24399											
SLC7A14	57709	broad.mit.edu	37	chr3	170244439	170244439	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgataatatggatgcgAcggctgcaatgatgaaggac	13	9	12	7	2	0	3	0	3	0	0	0	6	0	5	1	3	3	2	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:170244439A>T	uc003fgz.2	-	2	603	c.287T>A	c.(286-288)GTC>GAC	p.V96D	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	96	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			TATGGATGCGACGGCTGCAAT	0.522													5	91					0	0	1	0	0		T	170244439	T	T	170244439	3	4	27	1	0	0	0	0	1	0	0	0	14721	275	10	5	2056	5	SLC7A14	3	170244439	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	25312	170244439	27777991	2049	24400											
TNIK	23043	broad.mit.edu	37	chr3	170885049	170885049	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctctcaataaatgactggaAtttttttgacctgccaaaca	13	13	6	9	0	1	2	1	2	1	0	2	3	1	3	2	1	2	1	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:170885049A>T	uc003fhh.2	-	10	1129	c.784T>A	c.(784-786)TTC>ATC	p.F262I	TNIK_uc003fhi.2_Missense_Mutation_p.F262I|TNIK_uc003fhj.2_Missense_Mutation_p.F262I|TNIK_uc003fhk.2_Missense_Mutation_p.F262I|TNIK_uc003fhl.2_Missense_Mutation_p.F262I|TNIK_uc003fhm.2_Missense_Mutation_p.F262I|TNIK_uc003fhn.2_Missense_Mutation_p.F262I|TNIK_uc003fho.2_Missense_Mutation_p.F262I	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	262	Protein kinase.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			AATGACTGGAATTTTTTTGAC	0.378													4	55					0	0	1	0	0		T	170885049	T	T	170885049	3	4	27	1	0	0	0	0	1	0	0	0	16338	101	4	5	3394	5	TNIK	3	170885049	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	640610	170885049	27137381	2050	24401											
TNIK	23043	broad.mit.edu	37	chr3	170945964	170945964	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacacttacccctgtgacaTccataaccttgatggctgca	11	10	7	13	0	0	3	0	2	0	1	1	3	1	3	4	1	3	2	4	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:170945964T>A	uc003fhh.2	-	3	515	c.170A>T	c.(169-171)GAT>GTT	p.D57V	TNIK_uc003fhi.2_Missense_Mutation_p.D57V|TNIK_uc003fhj.2_Missense_Mutation_p.D57V|TNIK_uc003fhk.2_Missense_Mutation_p.D57V|TNIK_uc003fhl.2_Missense_Mutation_p.D57V|TNIK_uc003fhm.2_Missense_Mutation_p.D57V|TNIK_uc003fhn.2_Missense_Mutation_p.D57V|TNIK_uc003fho.2_Missense_Mutation_p.D57V	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	57	Protein kinase.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			CCCTGTGACATCCATAACCTT	0.289													8	85					0	0	1	0	0		A	170945964	A	A	170945964	3	1	27	1	0	0	0	0	1	0	0	0	16338	1435	50	5	4036	5	TNIK	3	170945964	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	60915	170945964	27076466	2051	24402											
PLD1	5337	broad.mit.edu	37	chr3	171431737	171431737	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgtctccttcttccccAccttaattttgaattctttg	5	21	3	12	0	4	1	0	1	4	0	6	1	5	1	4	0	0	0	4	0	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:171431737A>G	uc003fhs.2	-	9	973	c.857T>C	c.(856-858)GTG>GCG	p.V286A	PLD1_uc003fht.2_Missense_Mutation_p.V286A	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	286	PH.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	CTTCTTCCCCACCTTAATTTT	0.343													4	117					0	0	1	0	0		G	171431737	G	G	171431737	3	3	27	1	0	0	0	0	1	0	0	0	12064	159	6	3	2443	3	PLD1	3	171431737	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	485773	171431737	26590693	2052	24403											
PLD1	5337	broad.mit.edu	37	chr3	171455832	171455832	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttacccgtggctcgttttTcagtgacatgttaactttgg	7	17	9	8	2	1	1	1	1	0	0	2	1	1	1	1	2	2	3	1	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:171455832T>C	uc003fhs.2	-	2	126	c.10A>G	c.(10-12)AAA>GAA	p.K4E	PLD1_uc003fht.2_Missense_Mutation_p.K4E	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	4					cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	GGCTCGTTTTTCAGTGACATG	0.408													5	47					0	0	1	0	0		C	171455832	C	C	171455832	3	2	27	1	0	0	0	0	1	0	0	0	12064	1792	62	3	3318	3	PLD1	3	171455832	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	24095	171455832	26566598	2053	24404											
FNDC3B	64778	broad.mit.edu	37	chr3	172046865	172046865	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgaaacgacattggtaccAggtatgacgtttccttgtcc	9	12	9	11	3	0	1	0	1	0	0	3	3	2	1	3	2	2	3	3	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:172046865A>G	uc003fhy.2	+	12	1550	c.1378A>G	c.(1378-1380)AGT>GGT	p.S460G	FNDC3B_uc003fhz.3_Missense_Mutation_p.S460G|FNDC3B_uc003fia.2_Missense_Mutation_p.S391G	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	460	Fibronectin type-III 2.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		CATTGGTACCAGGTATGACGT	0.527													4	181					0	0	1	0	0		G	172046865	G	G	172046865	3	3	27	1	0	0	0	0	1	0	0	0	5984	202	7	3	1420	3	FNDC3B	3	172046865	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	591033	172046865	25975565	2054	24405											
GHSR	2693	broad.mit.edu	37	chr3	172165751	172165751	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccttggtgaccaccaccttGgcccggagtgggaagcagat	8	7	13	13	1	0	2	0	1	0	1	0	4	0	4	5	4	1	1	5	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:172165751G>A	uc003fib.1	-	1	453	c.453C>T	c.(451-453)GCC>GCT	p.A151A	GHSR_uc011bpv.1_Silent_p.A151A	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	151	Cytoplasmic (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			CCACCACCTTGGCCCGGAGTG	0.632													3	43					0	0	1	0	0		A	172165751	A	A	172165751	2	1	27	1	0	0	0	0	0	0	0	1	6390	1335	47	4		4	GHSR	3	172165751	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	118886	172165751	25856679	2055	24406											
ECT2	1894	broad.mit.edu	37	chr3	172473166	172473166	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttataaaagccttaaaggTacggagttttaggttttagt	13	15	9	4	1	0	0	0	0	0	0	0	1	0	1	1	3	2	3	1	3	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:172473166T>C	uc003fii.2	+	3	348	c.210_splice	c.e3+2	p.K70_splice	ECT2_uc010hwv.1_Splice_Site_p.K70_splice|ECT2_uc003fih.2_Splice_Site_p.K69_splice|ECT2_uc003fij.1_Splice_Site_p.K70_splice|ECT2_uc003fik.1_Splice_Site_p.K70_splice|ECT2_uc003fil.1_Splice_Site_p.K70_splice	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			GCCTTAAAGGTACGGAGTTTT	0.308													4	38					0	0	1	0	0		C	172473166	C	C	172473166	5	2	27	1	0	0	0	0	0	0	1	0	4907	1652	57	3	218	3	ECT2	3	172473166	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	307415	172473166	25549264	2056	24407											
ECT2	1894	broad.mit.edu	37	chr3	172482158	172482158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtcgtttaaaagaaacaCttgctcagctttcaagagag	14	10	9	8	2	2	2	2	0	0	2	3	4	2	2	0	0	3	3	0	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:172482158C>T	uc003fii.2	+	11	1204	c.1066C>T	c.(1066-1068)CTT>TTT	p.L356F	ECT2_uc010hwv.1_Missense_Mutation_p.L387F|ECT2_uc003fih.2_Missense_Mutation_p.L355F|ECT2_uc003fij.1_Missense_Mutation_p.L356F|ECT2_uc003fik.1_Missense_Mutation_p.L356F|ECT2_uc003fil.1_Missense_Mutation_p.L387F	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	356					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			AAAAGAAACACTTGCTCAGCT	0.453													5	67					0	0	1	0	0		T	172482158	T	T	172482158	3	4	27	1	0	0	0	0	1	0	0	0	4907	565	20	4	1104	4	ECT2	3	172482158	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8992	172482158	25540272	2057	24408											
SPATA16	83893	broad.mit.edu	37	chr3	172607409	172607409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatttttgttttttgccttCgagcagttctcagtttttta	5	23	6	7	1	2	0	2	0	1	0	4	1	2	0	1	0	2	4	1	0	1	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:172607409C>T	uc003fin.3	-	11	1819	c.1661G>A	c.(1660-1662)CGA>CAA	p.R554Q		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	554					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			TTTTTGCCTTCGAGCAGTTCT	0.378													20	151					0	0	1	0	0		T	172607409	T	T	172607409	3	4	27	1	0	0	0	0	1	0	0	0	15026	884	31	1	52	1	SPATA16	3	172607409	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	125251	172607409	25415021	2058	24409											
NLGN1	22871	broad.mit.edu	37	chr3	173999064	173999064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccccatccccatccccacCcccattcacattcaacaacc	10	7	1	23	0	2	0	2	0	0	0	4	0	4	0	9	0	3	0	9	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:173999064C>T	uc003fio.1	+	7	2866	c.2443C>T	c.(2443-2445)CCC>TCC	p.P815S	NLGN1_uc003fip.1_Missense_Mutation_p.P815S	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	832	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			CCATCCCCACCCCCATTCACA	0.423													4	27					0	0	1	0	0		T	173999064	T	T	173999064	3	4	27	1	0	0	0	0	1	0	0	0	10480	623	22	4	2461	4	NLGN1	3	173999064	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1391655	173999064	24023366	2059	24410											
NAALADL2	254827	broad.mit.edu	37	chr3	174814900	174814900	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagagcaatcgctgcaacTtttgccacgtcttaaaaata	15	10	6	10	2	1	1	0	0	1	1	2	1	1	1	1	0	4	3	1	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:174814900T>G	uc003fit.2	+	2	451	c.364T>G	c.(364-366)TTT>GTT	p.F122V	NAALADL2_uc003fiu.1_Missense_Mutation_p.F115V	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	122	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		TCGCTGCAACTTTTGCCACGT	0.393													6	159					0	0	1	0	0		G	174814900	G	G	174814900	3	3	27	1	0	0	0	0	1	0	0	0	10148	1609	56	5	370	5	NAALADL2	3	174814900	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	815836	174814900	23207530	2060	24411											
ZMAT3	64393	broad.mit.edu	37	chr3	178748682	178748682	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcacctgcggagggactgGaacaactggagtagctgcag	10	7	14	10	1	1	0	1	0	1	0	2	4	1	4	1	4	5	3	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:178748682G>T	uc003fjg.2	-	3	635	c.376C>A	c.(376-378)CCA>ACA	p.P126T	ZMAT3_uc010hxa.2_Missense_Mutation_p.P126T|ZMAT3_uc003fji.2_Missense_Mutation_p.P126T	NM_022470	NP_071915	Q9HA38	ZMAT3_HUMAN	p53 target zinc finger protein isoform 1	126					apoptosis|protein transport|regulation of growth|response to DNA damage stimulus|transmembrane transport	nucleolus	RNA binding|zinc ion binding			ovary(2)	2	all_cancers(143;3.31e-18)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;6.74e-27)|GBM - Glioblastoma multiforme(14;0.00448)|BRCA - Breast invasive adenocarcinoma(182;0.0527)			GGAGGGACTGGAACAACTGGA	0.468													13	164					2.32078e-09	2.56161e-09	1	1	0		T	178748682	T	T	178748682	3	4	27	1	0	0	0	0	1	0	0	0	17718	1174	41	5	509	5	ZMAT3	3	178748682	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3933782	178748682	19273748	2061	24412											
PIK3CA	5290	broad.mit.edu	37	chr3	178917660	178917660	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcttcaccagaattgccaAagcacatatataataaatta	19	11	3	8	0	2	1	1	0	1	1	2	1	2	1	2	0	2	1	2	0	9	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:178917660A>G	uc003fjk.2	+	3	692	c.535A>G	c.(535-537)AAG>GAG	p.K179E		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	179	PI3K-RBD.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.K179T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AGAATTGCCAAAGCACATATA	0.328		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			6	165					0	0	1	0	0		G	178917660	G	G	178917660	3	3	27	1	0	0	0	0	1	0	0	0	11932	15	1	3	541	3	PIK3CA	3	178917660	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	168978	178917660	19104770	2062	24413											
PIK3CA	5290	broad.mit.edu	37	chr3	178919243	178919243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaacaactaaaactctgtgTtttagaatatcagggcaagt	15	12	8	6	0	2	2	1	1	1	1	2	2	2	2	0	1	3	2	0	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:178919243T>C	uc003fjk.2	+	4	885	c.728T>C	c.(727-729)GTT>GCT	p.V243A		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	243	PI3K-RBD.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AAACTCTGTGTTTTAGAATAT	0.343		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			3	83					0	0	1	0	0		C	178919243	C	C	178919243	3	2	27	1	0	0	0	0	1	0	0	0	11932	1725	60	3	738	3	PIK3CA	3	178919243	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1583	178919243	19103187	2063	24414											
PIK3CA	5290	broad.mit.edu	37	chr3	178921493	178921493	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggagaaacatctacaaaAtccctttgggttataaatag	17	11	7	6	0	1	1	0	0	1	1	2	2	2	1	1	2	2	1	1	2	9	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:178921493A>G	uc003fjk.2	+	5	1132	c.975A>G	c.(973-975)AAA>AAG	p.K325K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	325					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			CATCTACAAAATCCCTTTGGG	0.363		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			13	119					0	0	1	0	0		G	178921493	G	G	178921493	2	3	27	1	0	0	0	0	0	0	0	1	11932	98	4	3		3	PIK3CA	3	178921493	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2250	178921493	19100937	2064	24415											
PIK3CA	5290	broad.mit.edu	37	chr3	178927472	178927472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catttgctctgttaaaggccGaaagggtgctaaagaggtaa	13	10	12	6	1	1	1	0	0	1	1	1	2	1	1	1	3	2	4	1	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:178927472G>A	uc003fjk.2	+	7	1392	c.1235G>A	c.(1234-1236)CGA>CAA	p.R412Q		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	412	C2 PI3K-type.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GTTAAAGGCCGAAAGGGTGCT	0.358		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			44	148					0	0	1	0	0		A	178927472	A	A	178927472	3	1	27	1	0	0	0	0	1	0	0	0	11932	1058	37	1	1257	1	PIK3CA	3	178927472	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5979	178927472	19094958	2065	24416											
PIK3CA	5290	broad.mit.edu	37	chr3	178936097	178936097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctctgaaatcactgagcagGagaaagattttctatggagt	13	12	10	6	0	3	4	1	2	2	2	4	6	3	5	0	2	1	1	0	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:178936097G>A	uc003fjk.2	+	10	1796	c.1639G>A	c.(1639-1641)GAG>AAG	p.E547K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	547	PI3K helical.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E547K(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			CACTGAGCAGGAGAAAGATTT	0.363		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			7	92					0	0	1	0	0		A	178936097	A	A	178936097	3	1	27	1	0	0	0	0	1	0	0	0	11932	1175	41	4	1673	4	PIK3CA	3	178936097	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8625	178936097	19086333	2066	24417											
PIK3CA	5290	broad.mit.edu	37	chr3	178952085	178952085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacaaatgaatgatgcacAtcatggtggctggacaacaa	17	7	10	7	0	1	2	1	2	0	0	1	4	1	3	0	3	3	2	0	3	5	0	rs121913279		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:178952085A>G	uc003fjk.2	+	21	3297	c.3140A>G	c.(3139-3141)CAT>CGT	p.H1047R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1047	PI3K/PI4K.		H -> L (in cancer).|H -> R (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; requires binding to p85 regulatory subunit to induce cellular transformation but not interaction with RAS; may mimic the conformatitonal change triggered by the interaction with RAS; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells; increases lipid kinase activity; may alter the interaction of the PI3K/ PI4K kinase domain with the cell membrane).|H -> Y (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.H1047R(1269)|p.H1047L(152)|p.H1047Y(31)|p.H1047Q(3)|p.H1047T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AATGATGCACATCATGGTGGC	0.378	H1047R(BT20_BREAST)|H1047R(NCIH1048_LUNG)|H1047R(MCAS_OVARY)|H1047R(HCC1954_BREAST)|H1047R(RKO_LARGE_INTESTINE)|H1047L(EFM19_BREAST)|H1047R(CAL33_UPPER_AERODIGESTIVE_TRACT)|H1047R(CAL29_URINARY_TRACT)|H1047R(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|H1047R(LS180_LARGE_INTESTINE)|H1047R(T47D_BREAST)|H1047R(HCT116_LARGE_INTESTINE)|H1047R(HSC2_UPPER_AERODIGESTIVE_TRACT)|H1047R(SKOV3_OVARY)|H1047R(MDAMB453_BREAST)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			10	61					0	0	1	0	0		G	178952085	G	G	178952085	3	3	27	1	0	0	0	0	1	0	0	0	11932	217	8	3	3218	3	PIK3CA	3	178952085	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	15988	178952085	19070345	2067	24418											
ZNF639	51193	broad.mit.edu	37	chr3	179052007	179052007	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaagtatgctagaatatTgcaagcatttaaattcacat	15	15	5	6	0	2	1	2	0	0	1	2	1	2	1	0	0	3	4	0	0	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:179052007T>C	uc003fjq.1	+	6	1598	c.1255T>C	c.(1255-1257)TGC>CGC	p.C419R	ZNF639_uc003fjr.1_Missense_Mutation_p.C419R	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	419	Interaction with CTNNA2.|C2H2-type 6.				initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			GCTAGAATATTGCAAGCATTT	0.299													17	85					0	0	1	0	0		C	179052007	C	C	179052007	3	2	27	1	0	0	0	0	1	0	0	0	18081	1812	63	3	1269	3	ZNF639	3	179052007	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	99922	179052007	18970423	2068	24419											
MFN1	55669	broad.mit.edu	37	chr3	179093044	179093044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcagtgaaaacaaagttcGaacagcacactatcagagct	17	6	8	10	1	1	2	1	1	0	1	2	3	1	2	0	0	5	4	0	0	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:179093044G>A	uc003fjs.2	+	10	1138	c.1012G>A	c.(1012-1014)GAA>AAA	p.E338K	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Missense_Mutation_p.E366K|MFN1_uc010hxc.2_Missense_Mutation_p.E191K	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	338	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			AACAAAGTTCGAACAGCACAC	0.403													5	45					0	0	1	0	0		A	179093044	A	A	179093044	3	1	27	1	0	0	0	0	1	0	0	0	9541	1059	37	1	1046	1	MFN1	3	179093044	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	41037	179093044	18929386	2069	24420											
MFN1	55669	broad.mit.edu	37	chr3	179095217	179095217	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttcatcctaatccagatgTattaaaaatatataaaagtg	17	14	5	5	0	1	1	1	0	0	1	3	1	3	1	2	0	0	2	2	0	9	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:179095217T>C	uc003fjs.2	+	12	1436	c.1310T>C	c.(1309-1311)GTA>GCA	p.V437A	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Missense_Mutation_p.V465A|MFN1_uc010hxc.2_Missense_Mutation_p.V290A	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	437	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			AATCCAGATGTATTAAAAATA	0.279													10	92					0	0	1	0	0		C	179095217	C	C	179095217	3	2	27	1	0	0	0	0	1	0	0	0	9541	1638	57	3	1352	3	MFN1	3	179095217	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2173	179095217	18927213	2070	24421											
MFN1	55669	broad.mit.edu	37	chr3	179104341	179104341	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcgagcctttaaacagcagTttgtaaactatgcaactgaa	15	10	8	8	1	0	1	0	1	0	0	0	2	0	1	1	0	7	4	1	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:179104341T>C	uc003fjs.2	+	16	2062	c.1936T>C	c.(1936-1938)TTT>CTT	p.F646L	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Missense_Mutation_p.F674L|MFN1_uc010hxc.2_Missense_Mutation_p.F388L	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	646	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			TAAACAGCAGTTTGTAAACTA	0.418													4	91					0	0	1	0	0		C	179104341	C	C	179104341	3	2	27	1	0	0	0	0	1	0	0	0	9541	1725	60	3	1994	3	MFN1	3	179104341	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9124	179104341	18918089	2071	24422											
ACTL6A	86	broad.mit.edu	37	chr3	179292257	179292257	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaactgcagttttgacagcgTatccttgaaagagtaatacc	14	11	8	8	1	0	3	0	2	0	1	1	3	1	3	2	0	4	4	2	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:179292257T>C	uc003fjw.2	+	5	649	c.476_splice	c.e5+2	p.A159_splice	ACTL6A_uc003fjx.2_Splice_Site_p.A117_splice|ACTL6A_uc003fjy.2_Splice_Site_p.A117_splice	NM_004301	NP_004292	O96019	ACL6A_HUMAN	actin-like 6A isoform 1						chromatin remodeling|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|nervous system development|regulation of growth|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	Ino80 complex|npBAF complex|NuA4 histone acetyltransferase complex|plasma membrane|SWI/SNF complex	ATP binding|chromatin binding			ovary(1)	1	all_cancers(143;3.94e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)			TTTGACAGCGTATCCTTGAAA	0.388													15	204					0	0	1	0	0		C	179292257	C	C	179292257	5	2	27	1	0	0	0	0	0	0	1	0	198	1652	57	3	496	3	ACTL6A	3	179292257	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	187916	179292257	18730173	2072	24423											
ACTL6A	86	broad.mit.edu	37	chr3	179294685	179294685	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggttacgaggtcttggcAcaattatatgtgtaatgtaa	12	14	10	5	1	2	0	1	0	1	0	2	1	2	0	0	3	1	4	0	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:179294685A>G	uc003fjw.2	+	8	925	c.752A>G	c.(751-753)CAC>CGC	p.H251R	ACTL6A_uc003fjx.2_Missense_Mutation_p.H209R|ACTL6A_uc003fjy.2_Missense_Mutation_p.H209R	NM_004301	NP_004292	O96019	ACL6A_HUMAN	actin-like 6A isoform 1	251					chromatin remodeling|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|nervous system development|regulation of growth|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	Ino80 complex|npBAF complex|NuA4 histone acetyltransferase complex|plasma membrane|SWI/SNF complex	ATP binding|chromatin binding			ovary(1)	1	all_cancers(143;3.94e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)			AGGTCTTGGCACAATTATATG	0.373													4	73					0	0	1	0	0		G	179294685	G	G	179294685	3	3	27	1	0	0	0	0	1	0	0	0	198	159	6	3	782	3	ACTL6A	3	179294685	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2428	179294685	18727745	2073	24424											
MRPL47	57129	broad.mit.edu	37	chr3	179310501	179310501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcttttatttaggtgccaaGgtataacccactgcttgaac	11	14	7	9	0	1	1	0	1	1	0	1	1	1	1	2	2	4	2	2	2	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:179310501G>A	uc003fjz.2	-	6	582	c.560C>T	c.(559-561)CCT>CTT	p.P187L	MRPL47_uc003fka.2_Missense_Mutation_p.P77L|MRPL47_uc003fkb.2_Missense_Mutation_p.P167L	NM_020409	NP_065142	Q9HD33	RM47_HUMAN	mitochondrial ribosomal protein L47 isoform a	187					translation	mitochondrial ribosome	structural constituent of ribosome				0	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)			TAGGTGCCAAGGTATAACCCA	0.343													4	73					0	0	1	0	0		A	179310501	A	A	179310501	3	1	27	1	0	0	0	0	1	0	0	0	9829	1000	35	4	200	4	MRPL47	3	179310501	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15816	179310501	18711929	2074	24425											
TTC14	151613	broad.mit.edu	37	chr3	180322027	180322027	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacaggctctttgtcccttAagagatgtgccttctcacag	8	14	8	11	0	2	1	1	0	2	1	4	2	3	1	2	1	2	1	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:180322027A>C	uc003fkk.2	+	4	633	c.501A>C	c.(499-501)TTA>TTC	p.L167F	TTC14_uc003fkl.2_Missense_Mutation_p.L167F|TTC14_uc003fkm.2_Missense_Mutation_p.L167F	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	167	S1 motif.						RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TTTGTCCCTTAAGAGATGTGC	0.348													15	80					0	0	1	0	0		C	180322027	C	C	180322027	3	2	27	1	0	0	0	0	1	0	0	0	16707	359	13	5	515	5	TTC14	3	180322027	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1011526	180322027	17700403	2075	24426											
TTC14	151613	broad.mit.edu	37	chr3	180327713	180327713	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagcaggataggttacagTatgaaaagacacagataaaa	20	6	11	4	0	0	3	0	1	0	2	0	5	0	5	0	3	2	3	0	3	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:180327713T>C	uc003fkk.2	+	12	1828	c.1696T>C	c.(1696-1698)TAT>CAT	p.Y566H	TTC14_uc003fkl.2_3'UTR|TTC14_uc003fkm.2_Missense_Mutation_p.Y566H	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	566							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TAGGTTACAGTATGAAAAGAC	0.403													15	255					0	0	1	0	0		C	180327713	C	C	180327713	3	2	27	1	0	0	0	0	1	0	0	0	16707	1638	57	3	1772	3	TTC14	3	180327713	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5686	180327713	17694717	2076	24427											
CCDC39	339829	broad.mit.edu	37	chr3	180364906	180364906	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttccaaaaggccacatgtAgattttttctcttccaaaga	12	14	6	9	0	1	2	0	0	1	2	4	2	3	2	3	1	0	2	3	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:180364906A>G	uc010hxe.2	-	11	1603	c.1488T>C	c.(1486-1488)TCT>TCC	p.S496S	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	496	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			GGCCACATGTAGATTTTTTCT	0.338													7	118					0	0	1	0	0		G	180364906	G	G	180364906	2	3	27	1	0	0	0	0	0	0	0	1	2814	407	15	3		3	CCDC39	3	180364906	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37193	180364906	17657524	2077	24428											
FXR1	8087	broad.mit.edu	37	chr3	180686004	180686004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcagggggtcgaggtcGtggtggaccacgtggtggca	5	10	19	7	3	1	0	1	0	0	0	3	2	1	1	1	7	0	2	1	7	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:180686004G>A	uc003fkq.2	+	14	1386	c.1364G>A	c.(1363-1365)CGT>CAT	p.R455H	FXR1_uc003fkp.2_Missense_Mutation_p.R370H|FXR1_uc003fkr.2_Missense_Mutation_p.R455H|FXR1_uc011bqj.1_Missense_Mutation_p.R369H|FXR1_uc003fks.2_Missense_Mutation_p.R398H|FXR1_uc011bqk.1_Missense_Mutation_p.R406H|FXR1_uc011bql.1_Missense_Mutation_p.R442H	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	455	RNA-binding RGG-box.				apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			GGTCGAGGTCGTGGTGGACCA	0.483													12	40					0	0	1	0	0		A	180686004	A	A	180686004	3	1	27	1	0	0	0	0	1	0	0	0	6129	1145	40	1	1418	1	FXR1	3	180686004	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	321098	180686004	17336426	2078	24429											
ATP11B	23200	broad.mit.edu	37	chr3	182598714	182598714	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaacctataacattggcTgttggtgatggtgctaatga	12	12	12	5	0	0	3	0	2	0	1	0	4	0	3	1	3	3	3	1	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:182598714T>A	uc003flb.2	+	21	2711	c.2454T>A	c.(2452-2454)GCT>GCA	p.A818A	ATP11B_uc003flc.2_Silent_p.A402A|ATP11B_uc011bqm.1_Silent_p.A122A|ATP11B_uc010hxf.1_5'UTR	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	818	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			TAACATTGGCTGTTGGTGATG	0.343													8	62					0	0	1	0	0		A	182598714	A	A	182598714	2	1	27	1	0	0	0	0	0	0	0	1	1121	1567	55	5		5	ATP11B	3	182598714	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1912710	182598714	15423716	2079	24430											
ATP11B	23200	broad.mit.edu	37	chr3	182605474	182605474	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcatgtagaccctcatgTgttacaaaataagcccaccc	14	8	6	13	0	1	1	1	0	0	1	1	1	1	1	3	0	3	3	3	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:182605474T>C	uc003flb.2	+	24	3073	c.2816T>C	c.(2815-2817)GTG>GCG	p.V939A	ATP11B_uc003flc.2_Missense_Mutation_p.V523A|ATP11B_uc011bqm.1_Silent_p.C219C|ATP11B_uc010hxf.1_Missense_Mutation_p.V101A	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	939	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			GACCCTCATGTGTTACAAAAT	0.318													12	126					0	0	1	0	0		C	182605474	C	C	182605474	3	2	27	1	0	0	0	0	1	0	0	0	1121	1696	59	3	2910	3	ATP11B	3	182605474	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6760	182605474	15416956	2080	24431											
LAMP3	27074	broad.mit.edu	37	chr3	182871831	182871831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggtgatggtgggtggcagtGaataaggggctaagctaggg	9	8	21	3	0	0	2	0	2	0	0	0	2	0	2	0	7	1	3	0	7	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:182871831G>A	uc003flh.3	-	2	622	c.398C>T	c.(397-399)TCA>TTA	p.S133L		NM_014398	NP_055213	Q9UQV4	LAMP3_HUMAN	lysosomal-associated membrane protein 3	133	Lumenal (Potential).|Thr-rich.				cell proliferation	integral to membrane|lysosomal membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;9.14e-14)|Ovarian(172;0.0355)		all cancers(12;2.91e-44)|Epithelial(37;5.52e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;4.16e-21)			GGGTGGCAGTGAATAAGGGGC	0.537													7	227					0	0	1	0	0		A	182871831	A	A	182871831	3	1	27	1	0	0	0	0	1	0	0	0	8635	1294	45	4	872	4	LAMP3	3	182871831	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	266357	182871831	15150599	2081	24432											
MCF2L2	23101	broad.mit.edu	37	chr3	183013131	183013131	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgatgacacccattttggTgaagactcaggatgtggggc	9	12	13	7	0	1	4	1	3	0	1	1	5	1	5	1	4	0	0	1	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:183013131T>C	uc003fli.1	-	13	1722	c.1632A>G	c.(1630-1632)TCA>TCG	p.S544S	MCF2L2_uc003flj.1_Silent_p.S544S|MCF2L2_uc011bqr.1_RNA|uc003fln.1_Intron|uc003flo.2_5'Flank	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	544					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			CCCATTTTGGTGAAGACTCAG	0.483													9	100					0	0	1	0	0		C	183013131	C	C	183013131	2	2	27	1	0	0	0	0	0	0	0	1	9398	1683	59	3		3	MCF2L2	3	183013131	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	141300	183013131	15009299	2082	24433											
KLHL6	89857	broad.mit.edu	37	chr3	183209848	183209848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgggcctcggggtcccagCacagcaccgtggcgataacc	7	6	13	15	3	1	0	0	0	1	0	3	1	2	0	4	4	3	2	4	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:183209848C>T	uc003flr.2	-	7	1791	c.1733G>A	c.(1732-1734)TGC>TAC	p.C578Y	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_3'UTR|KLHL6_uc010hxk.1_RNA	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	578	Kelch 6.									haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			GGGGTCCCAGCACAGCACCGT	0.662													11	110					0	0	1	0	0		T	183209848	T	T	183209848	3	4	27	1	0	0	0	0	1	0	0	0	8409	710	25	2	136	2	KLHL6	3	183209848	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	196717	183209848	14812582	2083	24434											
KLHL24	54800	broad.mit.edu	37	chr3	183368392	183368392	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttccttgccatagagctgTgctctcagcctgtagcagct	7	13	9	12	0	1	1	1	0	1	1	3	1	2	1	3	0	6	5	3	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:183368392T>C	uc003flv.2	+	3	543	c.248T>C	c.(247-249)GTG>GCG	p.V83A	KLHL24_uc003flw.2_Missense_Mutation_p.V83A|KLHL24_uc003flx.2_Missense_Mutation_p.V83A	NM_017644	NP_060114	Q6TFL4	KLH24_HUMAN	DRE1 protein	83	BTB.					axon|cytoplasm|perikaryon				ovary(1)	1	all_cancers(143;2.88e-10)|Ovarian(172;0.0303)		all cancers(12;1.43e-42)|Epithelial(37;1.73e-36)|OV - Ovarian serous cystadenocarcinoma(80;8.75e-22)			CATAGAGCTGTGCTCTCAGCC	0.398													13	158					0	0	1	0	0		C	183368392	C	C	183368392	3	2	27	1	0	0	0	0	1	0	0	0	8395	1696	59	3	250	3	KLHL24	3	183368392	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	158544	183368392	14654038	2084	24435											
KLHL24	54800	broad.mit.edu	37	chr3	183390214	183390214	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggactgaccaaggcaatatActgttacgatccagttgaag	13	10	10	8	1	0	2	0	2	0	0	1	4	1	3	2	2	2	3	2	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:183390214A>G	uc003flv.2	+	7	1839	c.1544A>G	c.(1543-1545)TAC>TGC	p.Y515C	KLHL24_uc003flw.2_Missense_Mutation_p.Y515C|KLHL24_uc003flx.2_Missense_Mutation_p.Y515C	NM_017644	NP_060114	Q6TFL4	KLH24_HUMAN	DRE1 protein	515	Kelch 5.			Y -> C (in Ref. 3; BAB15447).		axon|cytoplasm|perikaryon				ovary(1)	1	all_cancers(143;2.88e-10)|Ovarian(172;0.0303)		all cancers(12;1.43e-42)|Epithelial(37;1.73e-36)|OV - Ovarian serous cystadenocarcinoma(80;8.75e-22)			AAGGCAATATACTGTTACGAT	0.408													5	38					0	0	1	0	0		G	183390214	G	G	183390214	3	3	27	1	0	0	0	0	1	0	0	0	8395	391	14	3	1562	3	KLHL24	3	183390214	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21822	183390214	14632216	2085	24436											
YEATS2	55689	broad.mit.edu	37	chr3	183435470	183435470	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtgcagaagattgagacTattatcaaagaacagtttgc	14	11	10	6	0	1	4	1	1	0	4	1	5	1	4	0	0	3	3	0	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:183435470T>C	uc003fly.2	+	3	327	c.132T>C	c.(130-132)ACT>ACC	p.T44T		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	44					histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			AGATTGAGACTATTATCAAAG	0.338													12	138					0	0	1	0	0		C	183435470	C	C	183435470	2	2	27	1	0	0	0	0	0	0	0	1	17498	1509	53	3		3	YEATS2	3	183435470	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	45256	183435470	14586960	2086	24437											
YEATS2	55689	broad.mit.edu	37	chr3	183479352	183479352	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccaattgggagtcaccctAaggttcaaagccccaaacct	12	7	8	14	0	2	0	2	0	0	0	2	1	2	1	5	2	2	1	5	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:183479352A>G	uc003fly.2	+	14	1909	c.1714A>G	c.(1714-1716)AAG>GAG	p.K572E		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	572					histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GAGTCACCCTAAGGTTCAAAG	0.418													16	198					0	0	1	0	0		G	183479352	G	G	183479352	3	3	27	1	0	0	0	0	1	0	0	0	17498	363	13	3	1764	3	YEATS2	3	183479352	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	43882	183479352	14543078	2087	24438											
ABCC5	10057	broad.mit.edu	37	chr3	183660562	183660562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctctttaggtttgatcGtgaaggatactttctttagg	7	19	9	6	1	3	2	0	2	3	0	5	3	3	3	0	3	1	1	0	3	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:183660562G>A	uc003fmg.2	-	25	3812	c.3647C>T	c.(3646-3648)ACG>ATG	p.T1216M	ABCC5_uc011bqt.1_Missense_Mutation_p.T744M|ABCC5_uc010hxl.2_Missense_Mutation_p.T1173M	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	1216	ABC transporter 2.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			AGGTTTGATCGTGAAGGATAC	0.498													9	72					0	0	1	0	0		A	183660562	A	A	183660562	3	1	27	1	0	0	0	0	1	0	0	0	56	1145	40	1	690	1	ABCC5	3	183660562	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	181210	183660562	14361868	2088	24439											
ABCC5	10057	broad.mit.edu	37	chr3	183700588	183700588	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggatttctctttaatgtTctttaacttaaggatcttct	9	19	6	7	0	4	0	0	0	4	0	5	2	4	2	0	2	1	1	0	2	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:183700588T>A	uc003fmg.2	-	6	964	c.799A>T	c.(799-801)AAC>TAC	p.N267Y	ABCC5_uc011bqt.1_5'UTR|ABCC5_uc010hxl.2_Missense_Mutation_p.N267Y	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	267	ABC transmembrane type-1 1.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TCTTTAATGTTCTTTAACTTA	0.502													6	53					0	0	1	0	0		A	183700588	A	A	183700588	3	1	27	1	0	0	0	0	1	0	0	0	56	1783	62	5	3614	5	ABCC5	3	183700588	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	40026	183700588	14321842	2089	24440											
EIF2B5	8893	broad.mit.edu	37	chr3	183854437	183854437	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgtggcattaattgactAcactctggaattcctgactg	11	13	8	9	0	1	2	0	2	1	0	2	3	2	3	1	2	1	1	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:183854437A>G	uc003fmp.2	+	2	597	c.233A>G	c.(232-234)TAC>TGC	p.Y78C	EIF2B5_uc010hxs.2_Missense_Mutation_p.Y78C|EIF2B5_uc003fmq.2_5'UTR	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	78					astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			TTAATTGACTACACTCTGGAA	0.453													14	160					0	0	1	0	0		G	183854437	G	G	183854437	3	3	27	1	0	0	0	0	1	0	0	0	5010	391	14	3	239	3	EIF2B5	3	183854437	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	153849	183854437	14167993	2090	24441											
ABCF3	55324	broad.mit.edu	37	chr3	183911336	183911336	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctgtctttcagggtggtgtGattctggtgtcccacgatga	5	14	13	9	1	3	2	1	2	2	0	4	3	4	2	2	3	0	0	2	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:183911336G>A	uc003fmz.2	+	21	2113	c.1980G>A	c.(1978-1980)GTG>GTA	p.V660V	ABCF3_uc003fna.2_Silent_p.V654V|ABCF3_uc003fnb.2_Silent_p.V341V	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	660	ABC transporter 2.						ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGGGTGGTGTGATTCTGGTGT	0.612													16	193					0	0	1	0	0		A	183911336	A	A	183911336	2	1	27	1	0	0	0	0	0	0	0	1	67	1277	45	4		4	ABCF3	3	183911336	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	56899	183911336	14111094	2091	24442											
PSMD2	5708	broad.mit.edu	37	chr3	184025236	184025236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acgactcaacatcctggataCcctaagcaaattctctcatg	13	10	5	13	1	3	0	2	0	1	0	5	2	4	1	2	1	3	1	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:184025236C>T	uc003fnn.1	+	17	2159	c.2126C>T	c.(2125-2127)ACC>ATC	p.T709I	PSMD2_uc011brj.1_Missense_Mutation_p.T550I|PSMD2_uc011brk.1_Missense_Mutation_p.T579I	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	709	PC 6.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	ATCCTGGATACCCTAAGCAAA	0.493													10	101					0	0	1	0	0		T	184025236	T	T	184025236	3	4	27	1	0	0	0	0	1	0	0	0	12720	507	18	4	2192	4	PSMD2	3	184025236	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	113900	184025236	13997194	2092	24443											
EIF4G1	1981	broad.mit.edu	37	chr3	184046703	184046703	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcttcttgtagggagatTacaaagcctctgagaccgtt	9	14	9	9	1	3	2	0	1	3	2	4	4	3	2	2	1	2	2	2	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:184046703T>A	uc003fnp.2	+	28	4284	c.4086T>A	c.(4084-4086)ATT>ATA	p.I1362I	EIF4G1_uc003fnt.2_Silent_p.I1073I|EIF4G1_uc003fnq.2_Silent_p.I1275I|EIF4G1_uc003fnr.2_Silent_p.I1198I|EIF4G1_uc010hxx.2_Silent_p.I1369I|EIF4G1_uc003fns.2_Silent_p.I1322I|EIF4G1_uc010hxy.2_Silent_p.I1369I|EIF4G1_uc003fnv.3_Silent_p.I1363I|EIF4G1_uc003fnu.3_Silent_p.I1362I|EIF4G1_uc003fnw.2_Silent_p.I1369I|EIF4G1_uc003fnx.2_Silent_p.I1167I|EIF4G1_uc003fny.3_Silent_p.I1166I|EIF4G1_uc003foa.2_Silent_p.I34I	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1362	MI.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GTAGGGAGATTACAAAGCCTC	0.532													10	100					0	0	1	0	0		A	184046703	A	A	184046703	2	1	27	1	0	0	0	0	0	0	0	1	5044	1742	61	5		5	EIF4G1	3	184046703	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	21467	184046703	13975727	2093	24444											
EIF4G1	1981	broad.mit.edu	37	chr3	184049520	184049520	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtttctcccatacaggccaAcctgagtgagcagcagatag	11	9	10	11	0	1	3	0	2	1	1	2	3	1	3	3	1	4	3	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:184049520A>T	uc003fnp.2	+	31	4598	c.4400A>T	c.(4399-4401)AAC>ATC	p.N1467I	EIF4G1_uc003fnt.2_Missense_Mutation_p.N1178I|EIF4G1_uc003fnq.2_Missense_Mutation_p.N1380I|EIF4G1_uc003fnr.2_Missense_Mutation_p.N1303I|EIF4G1_uc010hxx.2_Missense_Mutation_p.N1474I|EIF4G1_uc003fns.2_Missense_Mutation_p.N1427I|EIF4G1_uc010hxy.2_Missense_Mutation_p.N1474I|EIF4G1_uc003fnv.3_Missense_Mutation_p.N1468I|EIF4G1_uc003fnu.3_Missense_Mutation_p.N1467I|EIF4G1_uc003fnw.2_Missense_Mutation_p.N1474I|EIF4G1_uc003fnx.2_Missense_Mutation_p.N1272I|EIF4G1_uc003fny.3_Missense_Mutation_p.N1271I|EIF4G1_uc003foa.2_Missense_Mutation_p.N139I	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1467	W2.|EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ATACAGGCCAACCTGAGTGAG	0.493													12	128					0	0	1	0	0		T	184049520	T	T	184049520	3	4	27	1	0	0	0	0	1	0	0	0	5044	43	2	5	4514	5	EIF4G1	3	184049520	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2817	184049520	13972910	2094	24445											
CLCN2	1181	broad.mit.edu	37	chr3	184069837	184069837	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctccaccagctggaagggAgcaggatcaattttgcagtc	10	8	12	11	1	1	0	1	0	0	0	3	3	2	3	2	3	3	4	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:184069837A>G	uc003foi.2	-	22	2503	c.2379T>C	c.(2377-2379)GCT>GCC	p.A793A	CLCN2_uc003foh.2_Intron|CLCN2_uc010hya.1_Silent_p.A776A|CLCN2_uc011brl.1_Silent_p.A793A|CLCN2_uc011brm.1_Silent_p.A749A	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	793	CBS 2.|Cytoplasmic (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	GCTGGAAGGGAGCAGGATCAA	0.557													9	180					0	0	1	0	0		G	184069837	G	G	184069837	2	3	27	1	0	0	0	0	0	0	0	1	3466	291	11	3		3	CLCN2	3	184069837	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20317	184069837	13952593	2095	24446											
CLCN2	1181	broad.mit.edu	37	chr3	184075458	184075458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccacggcacaggcggcaGccagcatctctgtgttccgg	6	6	12	17	3	1	0	0	0	1	0	3	0	2	0	4	4	2	4	4	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:184075458G>A	uc003foi.2	-	7	846	c.722C>T	c.(721-723)GCT>GTT	p.A241V	CLCN2_uc003foh.2_5'Flank|CLCN2_uc010hya.1_Missense_Mutation_p.A241V|CLCN2_uc011brl.1_Missense_Mutation_p.A241V|CLCN2_uc011brm.1_Missense_Mutation_p.A197V|CLCN2_uc011brn.1_Missense_Mutation_p.A241V	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	241						chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	ACAGGCGGCAGCCAGCATCTC	0.652													9	80					0	0	1	0	0		A	184075458	A	A	184075458	3	1	27	1	0	0	0	0	1	0	0	0	3466	971	34	2	2046	2	CLCN2	3	184075458	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5621	184075458	13946972	2096	24447											
THPO	7066	broad.mit.edu	37	chr3	184090537	184090537	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtgtctgatgttcctgAggaaatgtccggggctccta	6	12	13	10	1	1	2	0	2	1	0	4	3	4	3	4	3	0	2	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:184090537A>G	uc003fol.1	-	6	1041	c.826T>C	c.(826-828)TCA>CCA	p.S276P	THPO_uc003fom.1_Missense_Mutation_p.S272P|THPO_uc003fon.2_Missense_Mutation_p.L237P|THPO_uc011bro.1_Intron|THPO_uc003fop.2_Missense_Mutation_p.L233P|THPO_uc011brp.1_Intron|THPO_uc011brq.1_Missense_Mutation_p.L197P	NM_000460	NP_000451	P40225	TPO_HUMAN	thrombopoietin precursor	276					cell proliferation|platelet activation	extracellular space	cytokine activity|growth factor activity|hormone activity			ovary(1)	1	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GATGTTCCTGAGGAAATGTCC	0.552													13	196					0	0	1	0	0		G	184090537	G	G	184090537	3	3	27	1	0	0	0	0	1	0	0	0	15897	304	11	3	239	3	THPO	3	184090537	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	15079	184090537	13931893	2097	24448											
EPHB3	2049	broad.mit.edu	37	chr3	184290963	184290963	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccaaggagtcccagtgccgCcgtgagtggggactgtcctg	6	7	16	12	2	0	1	0	1	0	0	2	3	2	3	5	3	1	0	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:184290963C>T	uc003foz.2	+	3	1292	c.855C>T	c.(853-855)CGC>CGT	p.R285R		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	285	Cys-rich.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			CCCAGTGCCGCCGTGAGTGGG	0.662													4	49					0	0	1	0	0		T	184290963	T	T	184290963	2	4	27	1	0	0	0	0	0	0	0	1	5184	753	26	2		2	EPHB3	3	184290963	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	200426	184290963	13731467	2098	24449											
EPHB3	2049	broad.mit.edu	37	chr3	184298290	184298290	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaactatgtgcaccgcgAcctggctgctcgcaacatcc	9	8	10	14	3	0	1	0	1	0	0	2	3	1	1	3	1	4	4	3	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:184298290A>G	uc003foz.2	+	12	2710	c.2273A>G	c.(2272-2274)GAC>GGC	p.D758G		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	758	Cytoplasmic (Potential).|Protein kinase.	Proton acceptor (By similarity).				integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			GTGCACCGCGACCTGGCTGCT	0.582													9	112					0	0	1	0	0		G	184298290	G	G	184298290	3	3	27	1	0	0	0	0	1	0	0	0	5184	275	10	3	2319	3	EPHB3	3	184298290	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7327	184298290	13724140	2099	24450											
VPS8	23355	broad.mit.edu	37	chr3	184632771	184632771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcattcttttcttctagctGttgtctagcaggtcgtgcct	4	18	8	11	1	5	0	1	0	4	0	6	0	5	0	1	1	3	3	1	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:184632771G>A	uc003fpb.1	+	26	2357	c.2186G>A	c.(2185-2187)TGT>TAT	p.C729Y	VPS8_uc010hyd.1_Missense_Mutation_p.C639Y|VPS8_uc010hye.1_Missense_Mutation_p.C158Y	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	731							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TCTTCTAGCTGTTGTCTAGCA	0.403													8	105					0	0	1	0	0		A	184632771	A	A	184632771	3	1	27	1	0	0	0	0	1	0	0	0	17244	1377	48	4	2290	4	VPS8	3	184632771	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	334481	184632771	13389659	2100	24451											
EHHADH	1962	broad.mit.edu	37	chr3	184910033	184910033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atcacaatttactgctagggGagcctgccaagctttgccat	10	11	9	11	0	1	0	1	0	0	0	1	1	1	1	3	2	6	2	3	2	4	4	rs140662313		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:184910033G>A	uc003fpf.2	-	7	2180	c.2153C>T	c.(2152-2154)TCC>TTC	p.S718F	EHHADH_uc011brs.1_Missense_Mutation_p.S622F	NM_001966	NP_001957	Q08426	ECHP_HUMAN	enoyl-Coenzyme A, hydratase/3-hydroxyacyl	718						peroxisome	3-hydroxyacyl-CoA dehydrogenase activity|coenzyme binding|dodecenoyl-CoA delta-isomerase activity|enoyl-CoA hydratase activity			ovary(3)	3	all_cancers(143;4.04e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.98e-32)|OV - Ovarian serous cystadenocarcinoma(80;5.55e-21)		NADH(DB00157)	ACTGCTAGGGGAGCCTGCCAA	0.433													5	105					0	0	1	0	0		A	184910033	A	A	184910033	3	1	27	1	0	0	0	0	1	0	0	0	4988	1174	41	4	22	4	EHHADH	3	184910033	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	277262	184910033	13112397	2101	24452											
EHHADH	1962	broad.mit.edu	37	chr3	184922382	184922382	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgatgcccacttcataGggatactgcacagcagcctg	9	11	9	12	0	2	1	1	1	1	0	2	2	2	2	2	1	5	2	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:184922382G>T	uc003fpf.2	-	6	759	c.732C>A	c.(730-732)CCC>CCA	p.P244P	EHHADH_uc011brs.1_Silent_p.P148P	NM_001966	NP_001957	Q08426	ECHP_HUMAN	enoyl-Coenzyme A, hydratase/3-hydroxyacyl	244	Enoyl-CoA hydratase / isomerase.					peroxisome	3-hydroxyacyl-CoA dehydrogenase activity|coenzyme binding|dodecenoyl-CoA delta-isomerase activity|enoyl-CoA hydratase activity			ovary(3)	3	all_cancers(143;4.04e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.98e-32)|OV - Ovarian serous cystadenocarcinoma(80;5.55e-21)		NADH(DB00157)	CCACTTCATAGGGATACTGCA	0.522													18	163					8.28177e-16	9.2545e-16	1	1	0		T	184922382	T	T	184922382	2	4	27	1	0	0	0	0	0	0	0	1	4988	987	35	5		5	EHHADH	3	184922382	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	12349	184922382	13100048	2102	24453											
ETV5	2119	broad.mit.edu	37	chr3	185782253	185782253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcatgtaggatgactggCagttaggcacttctgaaagg	10	11	12	8	0	2	2	1	2	2	0	3	3	2	3	0	4	0	4	0	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:185782253C>T	uc003fpz.2	-	9	1170	c.923G>A	c.(922-924)TGC>TAC	p.C308Y	ETV5_uc003fpy.2_Missense_Mutation_p.C350Y	NM_004454	NP_004445	P41161	ETV5_HUMAN	ets variant gene 5 (ets-related molecule)	308					cellular response to oxidative stress	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|skin(2)|breast(1)	5	all_cancers(143;4.06e-12)|Ovarian(172;0.0386)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.62e-24)			GGATGACTGGCAGTTAGGCAC	0.388			T	TMPRSS2|SCL45A3	Prostate 								10	130					0	0	1	0	0		T	185782253	T	T	185782253	3	4	27	1	0	0	0	0	1	0	0	0	5290	710	25	2	629	2	ETV5	3	185782253	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	859871	185782253	12240177	2103	24454											
CRYGS	1427	broad.mit.edu	37	chr3	186256574	186256574	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccttcttgtccaggaggtActgcctgccacggtagttgg	5	12	12	12	1	1	0	0	0	1	0	3	1	3	1	4	4	3	3	4	4	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:186256574A>G	uc003fqe.2	-	3	500	c.448T>C	c.(448-450)TAC>CAC	p.Y150H	CRYGS_uc003fqf.2_Missense_Mutation_p.Y150H	NM_017541	NP_060011	P22914	CRBS_HUMAN	crystallin, gamma S	150	Beta/gamma crystallin 'Greek key' 4.						structural constituent of eye lens				0	all_cancers(143;3.75e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.5e-22)	GBM - Glioblastoma multiforme(93;0.0906)		TCCAGGAGGTACTGCCTGCCA	0.532													4	62					0	0	1	0	0		G	186256574	G	G	186256574	3	3	27	1	0	0	0	0	1	0	0	0	3922	391	14	3	92	3	CRYGS	3	186256574	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	474321	186256574	11765856	2104	24455											
TBCCD1	55171	broad.mit.edu	37	chr3	186272759	186272759	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtgcccccgccagagtgTctgagctcttagccagtgtc	6	10	11	14	1	2	2	0	1	2	1	3	2	2	2	4	0	3	1	4	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:186272759T>C	uc003fqg.2	-	5	1103	c.974A>G	c.(973-975)GAC>GGC	p.D325G	TBCCD1_uc011bry.1_Missense_Mutation_p.D325G|TBCCD1_uc003fqh.2_Missense_Mutation_p.D229G	NM_018138	NP_060608	Q9NVR7	TBCC1_HUMAN	TBCC domain containing 1	325	C-CAP/cofactor C-like.				cell morphogenesis|maintenance of centrosome location|maintenance of Golgi location|regulation of cell migration|regulation of cell shape	spindle pole centrosome	binding			large_intestine(1)|ovary(1)	2	all_cancers(143;3.75e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.3e-21)	GBM - Glioblastoma multiforme(93;0.0474)		CGCCAGAGTGTCTGAGCTCTT	0.458													4	99					0	0	1	0	0		C	186272759	C	C	186272759	3	2	27	1	0	0	0	0	1	0	0	0	15657	1667	58	3	711	3	TBCCD1	3	186272759	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	16185	186272759	11749671	2105	24456											
FETUB	26998	broad.mit.edu	37	chr3	186364090	186364090	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaattaaagaatcaccatgTactaaatcccaggccagcag	16	9	6	10	0	1	1	1	0	0	1	2	1	2	1	3	1	2	2	3	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:186364090T>C	uc010hyq.2	+	6	909	c.648T>C	c.(646-648)TGT>TGC	p.C216C	FETUB_uc011brz.1_Silent_p.C68C|FETUB_uc003fqn.2_Silent_p.C216C|FETUB_uc003fqo.2_Silent_p.C111C|FETUB_uc010hyr.2_Silent_p.C179C|FETUB_uc010hys.2_Silent_p.C68C|FETUB_uc003fqp.3_Silent_p.C151C	NM_014375	NP_055190	Q9UGM5	FETUB_HUMAN	fetuin B precursor	216	Cystatin fetuin-B-type 2.					extracellular space	cysteine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0479)		AATCACCATGTACTAAATCCC	0.408													19	200					0	0	1	0	0		C	186364090	C	C	186364090	2	2	27	1	0	0	0	0	0	0	0	1	5835	1644	57	3		3	FETUB	3	186364090	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	91331	186364090	11658340	2106	24457											
KNG1	3827	broad.mit.edu	37	chr3	186459531	186459531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggccataaacatgaacGtgaccaagggcatgggcacc	13	5	11	12	1	0	2	0	2	0	0	0	2	0	2	4	3	2	2	4	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:186459531G>A	uc011bsa.1	+	10	1558	c.1346G>A	c.(1345-1347)CGT>CAT	p.R449H	KNG1_uc003fqr.2_Intron	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	449	|His-rich.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	AAACATGAACGTGACCAAGGG	0.468													4	43					0	0	1	0	0		A	186459531	A	A	186459531	3	1	27	1	0	0	0	0	1	0	0	0	8443	1145	40	1	1384	1	KNG1	3	186459531	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	95441	186459531	11562899	2107	24458											
EIF4A2	1974	broad.mit.edu	37	chr3	186505288	186505288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtttattaatttgcagcatgGtgacatggaccagaaggaga	13	11	12	5	0	0	3	0	1	0	2	0	5	0	4	1	3	2	3	1	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:186505288G>A	uc003fqs.2	+	9	953	c.914G>A	c.(913-915)GGT>GAT	p.G305D	EIF4A2_uc003fqt.2_RNA|EIF4A2_uc003fqu.2_Missense_Mutation_p.G306D|EIF4A2_uc003fqv.2_Missense_Mutation_p.G210D|EIF4A2_uc003fqw.2_Missense_Mutation_p.G210D|EIF4A2_uc011bsb.1_Missense_Mutation_p.G178D|SNORA4_uc010hyx.1_5'Flank	NM_001967	NP_001958	Q14240	IF4A2_HUMAN	eukaryotic translation initiation factor 4A2	305	Helicase C-terminal.				interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|protein binding|translation initiation factor activity			ovary(2)|breast(2)	4	all_cancers(143;2.68e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.07e-20)	GBM - Glioblastoma multiforme(93;0.0704)		TTGCAGCATGGTGACATGGAC	0.423			T	BCL6	NHL								36	147					0	0	1	0	0		A	186505288	A	A	186505288	3	1	27	1	0	0	0	0	1	0	0	0	5033	1261	44	4	948	4	EIF4A2	3	186505288	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	45757	186505288	11517142	2108	24459											
LEPREL1	55214	broad.mit.edu	37	chr3	189690672	189690672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaatctcaccagacagggCtgttcggcagaccatgtgtg	9	9	12	11	1	1	2	1	0	1	2	3	2	1	2	2	2	1	4	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:189690672C>T	uc011bsk.1	-	11	2078	c.1690G>A	c.(1690-1692)GCC>ACC	p.A564T	LEPREL1_uc003fsg.2_Missense_Mutation_p.A383T	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	564	Fe2OG dioxygenase.				collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	CCAGACAGGGCTGTTCGGCAG	0.403													4	58					0	0	1	0	0		T	189690672	T	T	189690672	3	4	27	1	0	0	0	0	1	0	0	0	8746	797	28	2	456	2	LEPREL1	3	189690672	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3185384	189690672	8331758	2109	24460											
LEPREL1	55214	broad.mit.edu	37	chr3	189690757	189690757	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaatccttcgagccttttcGctgatgtcataaaacagacg	12	11	7	11	3	1	2	1	1	0	1	4	3	2	2	2	0	2	1	2	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:189690757G>A	uc011bsk.1	-	11	1993	c.1605C>T	c.(1603-1605)AGC>AGT	p.S535S	LEPREL1_uc003fsg.2_Silent_p.S354S	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	535					collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GAGCCTTTTCGCTGATGTCAT	0.413													4	41					0	0	1	0	0		A	189690757	A	A	189690757	2	1	27	1	0	0	0	0	0	0	0	1	8746	1078	38	1		1	LEPREL1	3	189690757	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	85	189690757	8331673	2110	24461											
LEPREL1	55214	broad.mit.edu	37	chr3	189706761	189706761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctcgatgggagagaggCggccagggcgggtggcaagt	9	6	19	7	3	1	1	0	0	1	1	2	4	1	2	1	6	0	1	1	6	2	1	rs143105580		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:189706761C>T	uc011bsk.1	-	4	1278	c.890G>A	c.(889-891)CGC>CAC	p.R297H	LEPREL1_uc003fsg.2_Missense_Mutation_p.R116H	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	297					collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GGGAGAGAGGCGGCCAGGGCG	0.502													4	79					0	0	1	0	0		T	189706761	T	T	189706761	3	4	27	1	0	0	0	0	1	0	0	0	8746	768	27	1	1284	1	LEPREL1	3	189706761	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16004	189706761	8315669	2111	24462											
TMEM207	131920	broad.mit.edu	37	chr3	190158100	190158100	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgagaatcaattcggggTctcctcagccagcactggag	9	9	12	11	1	3	1	2	1	1	1	5	3	3	2	2	3	2	1	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:190158100T>A	uc003fsj.2	-	4	304	c.237A>T	c.(235-237)AGA>AGT	p.R79S		NM_207316	NP_997199	Q6UWW9	TM207_HUMAN	transmembrane protein 207 precursor	79						integral to membrane					0	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.0176)		CAATTCGGGGTCTCCTCAGCC	0.517													7	59					0	0	1	0	0		A	190158100	A	A	190158100	3	1	27	1	0	0	0	0	1	0	0	0	16157	1664	58	5	211	5	TMEM207	3	190158100	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	451339	190158100	7864330	2112	24463											
IL1RAP	3556	broad.mit.edu	37	chr3	190341190	190341190	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctaatgatcatgtggtctAtgagaaagaaccaggtaatt	15	11	9	6	0	2	3	1	2	1	2	2	4	2	3	2	2	1	1	2	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:190341190A>T	uc003fsm.1	+	7	967	c.761A>T	c.(760-762)TAT>TTT	p.Y254F	IL1RAP_uc003fsk.2_Missense_Mutation_p.Y254F|IL1RAP_uc003fsl.2_Missense_Mutation_p.Y254F|IL1RAP_uc010hzf.2_Missense_Mutation_p.Y113F|IL1RAP_uc010hzg.1_Missense_Mutation_p.Y254F|IL1RAP_uc003fsn.1_RNA|IL1RAP_uc003fso.1_Missense_Mutation_p.Y254F|IL1RAP_uc003fsp.1_RNA|IL1RAP_uc003fsq.2_Missense_Mutation_p.Y254F	NM_002182	NP_002173	Q9NPH3	IL1AP_HUMAN	interleukin 1 receptor accessory protein isoform	254	Extracellular (Potential).|Ig-like C2-type 3.				inflammatory response|innate immune response|protein complex assembly	extracellular region|integral to plasma membrane				ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0733)|Breast(254;0.21)		Lung(62;1.95e-06)|LUSC - Lung squamous cell carcinoma(58;2.05e-06)	GBM - Glioblastoma multiforme(93;0.00851)		CATGTGGTCTATGAGAAAGAA	0.353													7	74					0	0	1	0	0		T	190341190	T	T	190341190	3	4	27	1	0	0	0	0	1	0	0	0	7676	449	16	5	779	5	IL1RAP	3	190341190	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	183090	190341190	7681240	2113	24464											
IL1RAP	3556	broad.mit.edu	37	chr3	190345194	190345194	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttggtggaccattgatggAaaaaaacctgatgacatcac	14	10	10	7	0	1	3	1	3	0	0	1	5	1	5	2	3	1	1	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:190345194A>G	uc003fsm.1	+	8	1064	c.858A>G	c.(856-858)GGA>GGG	p.G286G	IL1RAP_uc003fsk.2_Silent_p.G286G|IL1RAP_uc003fsl.2_Silent_p.G286G|IL1RAP_uc010hzf.2_Silent_p.G145G|IL1RAP_uc010hzg.1_Silent_p.G286G|IL1RAP_uc003fsn.1_RNA|IL1RAP_uc003fso.1_Silent_p.G286G|IL1RAP_uc003fsp.1_RNA|IL1RAP_uc003fsq.2_Silent_p.G286G	NM_002182	NP_002173	Q9NPH3	IL1AP_HUMAN	interleukin 1 receptor accessory protein isoform	286	Extracellular (Potential).|Ig-like C2-type 3.				inflammatory response|innate immune response|protein complex assembly	extracellular region|integral to plasma membrane				ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0733)|Breast(254;0.21)		Lung(62;1.95e-06)|LUSC - Lung squamous cell carcinoma(58;2.05e-06)	GBM - Glioblastoma multiforme(93;0.00851)		CCATTGATGGAAAAAAACCTG	0.388													3	62					0	0	1	0	0		G	190345194	G	G	190345194	2	3	27	1	0	0	0	0	0	0	0	1	7676	233	9	3		3	IL1RAP	3	190345194	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4004	190345194	7677236	2114	24465											
IL1RAP	3556	broad.mit.edu	37	chr3	190366254	190366254	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcctagaaaatatggcCtctcggggcaacatcaacgt	11	8	11	11	2	2	1	1	0	1	1	3	1	2	1	2	4	2	2	2	4	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:190366254C>A	uc003fsm.1	+	12	1679	c.1473C>A	c.(1471-1473)GCC>GCA	p.A491A	IL1RAP_uc010hzg.1_Silent_p.A491A|IL1RAP_uc003fsn.1_RNA|IL1RAP_uc003fso.1_Silent_p.A491A|IL1RAP_uc003fsp.1_RNA|IL1RAP_uc003fsq.2_Intron	NM_002182	NP_002173	Q9NPH3	IL1AP_HUMAN	interleukin 1 receptor accessory protein isoform	491	Cytoplasmic (Potential).|TIR.				inflammatory response|innate immune response|protein complex assembly	extracellular region|integral to plasma membrane				ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0733)|Breast(254;0.21)		Lung(62;1.95e-06)|LUSC - Lung squamous cell carcinoma(58;2.05e-06)	GBM - Glioblastoma multiforme(93;0.00851)		AAAATATGGCCTCTCGGGGCA	0.512													11	115					9.70103e-10	1.07188e-09	1	1	0		A	190366254	A	A	190366254	2	1	27	1	0	0	0	0	0	0	0	1	7676	668	24	5		5	IL1RAP	3	190366254	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21060	190366254	7656176	2115	24466											
OSTN	344901	broad.mit.edu	37	chr3	190930420	190930420	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtagatgtaacaacaacAgaggtaatggaaactagctt	17	9	9	6	0	1	2	1	0	0	2	1	3	1	3	0	2	5	4	0	2	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:190930420A>G	uc011bsn.1	+	1	99	c.99A>G	c.(97-99)ACA>ACG	p.T33T		NM_198184	NP_937827	P61366	OSTN_HUMAN	osteocrin precursor	33					cell differentiation|multicellular organismal development|ossification		hormone activity			pancreas(1)|skin(1)	2	all_cancers(143;6.79e-09)|Ovarian(172;0.103)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000254)		TAACAACAACAGAGGTAATGG	0.343													4	30					0	0	1	0	0		G	190930420	G	G	190930420	2	3	27	1	0	0	0	0	0	0	0	1	11318	175	7	3		3	OSTN	3	190930420	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	564166	190930420	7092010	2116	24467											
FGF12	2257	broad.mit.edu	37	chr3	192125880	192125880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgctgaacaccccgaggaCgtgcctctcgcacagggagc	8	7	12	14	3	1	1	0	1	1	0	2	4	1	3	3	2	4	2	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:192125880C>T	uc003fsx.2	-	1	959	c.133G>A	c.(133-135)GTC>ATC	p.V45I	FGF12_uc003fsy.2_Intron	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	45					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		ACCCCGAGGACGTGCCTCTCG	0.682													28	132					0	0	1	0	0		T	192125880	T	T	192125880	3	4	27	1	0	0	0	0	1	0	0	0	5855	536	19	1	618	1	FGF12	3	192125880	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1195460	192125880	5896550	2117	24468											
C3orf59	151963	broad.mit.edu	37	chr3	192516331	192516331	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcccctccgtcagactgTggagaggggatgctggtggt	5	9	18	9	1	1	2	1	0	0	2	3	4	3	3	3	6	1	1	3	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:192516331T>A	uc011bsp.1	-	2	1641	c.1320A>T	c.(1318-1320)CCA>CCT	p.P440P		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	440											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		CGTCAGACTGTGGAGAGGGGA	0.577													11	113					0	0	1	0	0		A	192516331	A	A	192516331	2	1	27	1	0	0	0	0	0	0	0	1	2240	1683	59	5		5	C3orf59	3	192516331	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	390451	192516331	5506099	2118	24469											
ATP13A5	344905	broad.mit.edu	37	chr3	192993034	192993034	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctatattgacttttagagtAgaatccaaattctcttttga	12	17	5	7	0	1	4	0	2	1	2	3	4	2	4	2	0	0	1	2	0	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:192993034A>G	uc011bsq.1	-	30	3454	c.3454T>C	c.(3454-3456)TAC>CAC	p.Y1152H		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	1152					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		CTTTTAGAGTAGAATCCAAAT	0.393													3	114					0	0	1	0	0		G	192993034	G	G	192993034	3	3	27	1	0	0	0	0	1	0	0	0	1128	420	15	3	204	3	ATP13A5	3	192993034	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	476703	192993034	5029396	2119	24470											
ATP13A5	344905	broad.mit.edu	37	chr3	193039614	193039614	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcacaaggtgatgatggCttccactggactctgcaagc	9	9	12	11	0	1	2	0	2	1	0	2	3	2	3	1	4	2	3	1	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:193039614C>A	uc011bsq.1	-	16	1771	c.1771G>T	c.(1771-1773)GCC>TCC	p.A591S		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	591					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		GTGATGATGGCTTCCACTGGA	0.473													5	54					1.23904e-05	1.32877e-05	1	1	0		A	193039614	A	A	193039614	3	1	27	1	0	0	0	0	1	0	0	0	1128	797	28	5	1943	5	ATP13A5	3	193039614	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	46580	193039614	4982816	2120	24471											
ATP13A5	344905	broad.mit.edu	37	chr3	193071938	193071938	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttaacaagcagcttccatAtgggttggatttcaacctca	11	13	8	9	0	2	0	2	0	0	0	3	1	3	1	2	2	4	4	2	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:193071938A>G	uc011bsq.1	-	6	584	c.584T>C	c.(583-585)ATA>ACA	p.I195T		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	195					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		CAGCTTCCATATGGGTTGGAT	0.383													10	78					0	0	1	0	0		G	193071938	G	G	193071938	3	3	27	1	0	0	0	0	1	0	0	0	1128	449	16	3	3170	3	ATP13A5	3	193071938	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	32324	193071938	4950492	2121	24472											
ATP13A4	84239	broad.mit.edu	37	chr3	193210730	193210730	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctgttcttctcttgtcAagcctgatccaaatttttga	7	18	5	11	0	4	2	1	2	3	0	7	2	5	2	3	0	1	1	3	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:193210730A>G	uc003ftd.2	-	5	617	c.509T>C	c.(508-510)TTG>TCG	p.L170S	ATP13A4_uc003fte.1_Missense_Mutation_p.L170S|ATP13A4_uc011bsr.1_5'UTR	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	170	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		TTCTCTTGTCAAGCCTGATCC	0.313													16	66					0	0	1	0	0		G	193210730	G	G	193210730	3	3	27	1	0	0	0	0	1	0	0	0	1127	131	5	3	3185	3	ATP13A4	3	193210730	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	138792	193210730	4811700	2122	24473											
OPA1	4976	broad.mit.edu	37	chr3	193353272	193353272	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaattgagaaaattagtattGcagaaagatgacaaaggcat	19	9	10	3	0	0	4	0	2	0	3	0	6	0	4	0	1	1	3	0	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:193353272G>A	uc003ftm.2	+	7	978	c.744G>A	c.(742-744)TTG>TTA	p.L248L	OPA1_uc003ftg.2_Silent_p.L303L|OPA1_uc003fth.2_Silent_p.L267L|OPA1_uc003fti.2_Silent_p.L285L|OPA1_uc003ftj.2_Silent_p.L266L|OPA1_uc003ftk.2_Silent_p.L249L|OPA1_uc003ftl.2_Silent_p.L230L|OPA1_uc003ftn.2_Silent_p.L212L	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1	248	Mitochondrial intermembrane (By similarity).|Potential.				apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		AATTAGTATTGCAGAAAGATG	0.303													13	130					0	0	1	0	0		A	193353272	A	A	193353272	2	1	27	1	0	0	0	0	0	0	0	1	10890	1310	46	2		2	OPA1	3	193353272	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	142542	193353272	4669158	2123	24474											
CPN2	1370	broad.mit.edu	37	chr3	194062642	194062642	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaaaggtcagattacccaGggaggcaaagatggagagcg	15	4	15	7	1	1	4	1	0	0	4	1	6	1	5	1	4	2	1	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:194062642G>T	uc003fts.2	-	2	880	c.790C>A	c.(790-792)CTG>ATG	p.L264M		NM_001080513	NP_001073982	P22792	CPN2_HUMAN	carboxypeptidase N, polypeptide 2	264					protein stabilization	extracellular region	enzyme regulator activity			ovary(5)	5	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.65e-05)		AGATTACCCAGGGAGGCAAAG	0.617													5	57					1.23904e-05	1.32877e-05	1	1	0		T	194062642	T	T	194062642	3	4	27	1	0	0	0	0	1	0	0	0	3813	991	35	5	851	5	CPN2	3	194062642	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	709370	194062642	3959788	2124	24475											
LRRC15	131578	broad.mit.edu	37	chr3	194080147	194080147	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaatgccaattacaatggcGgcaatggccagcccgctctg	11	7	10	13	2	1	0	0	0	1	0	1	0	1	0	3	3	3	2	3	3	5	1	rs113394891	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:194080147G>A	uc003ftu.2	-	2	1712	c.1626C>T	c.(1624-1626)GCC>GCT	p.A542A	LRRC15_uc003ftt.2_Silent_p.A548A	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	542	Helical; (Potential).					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		TTACAATGGCGGCAATGGCCA	0.597													16	70					0	0	1	0	0		A	194080147	A	A	194080147	2	1	27	1	0	0	0	0	0	0	0	1	8988	1103	39	1		1	LRRC15	3	194080147	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17505	194080147	3942283	2125	24476											
GP5	2814	broad.mit.edu	37	chr3	194118737	194118737	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttatcaggtcactgaaggtgCcgggggcaacggcggaaatg	10	7	16	8	3	2	1	2	1	0	0	2	2	2	2	1	6	2	1	1	6	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:194118737C>A	uc003ftv.1	-	2	306	c.275G>T	c.(274-276)GGC>GTC	p.G92V		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	92	LRR 1.|Extracellular (Potential).				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		ACTGAAGGTGCCGGGGGCAAC	0.597													7	109					0.000157383	0.000166242	1	1	0		A	194118737	A	A	194118737	3	1	27	1	0	0	0	0	1	0	0	0	6598	739	26	5	1411	5	GP5	3	194118737	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	38590	194118737	3903693	2126	24477											
ATP13A3	79572	broad.mit.edu	37	chr3	194158135	194158135	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccctggcaaccacactcAtacgttgcaaagcagaagaa	15	5	8	13	1	1	2	1	0	0	2	1	2	1	2	2	1	4	5	2	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:194158135A>G	uc003fty.3	-	18	2306	c.1904T>C	c.(1903-1905)ATG>ACG	p.M635T	ATP13A3_uc003ftz.1_Missense_Mutation_p.M341T	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	635					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		AACCACACTCATACGTTGCAA	0.458													15	97					0	0	1	0	0		G	194158135	G	G	194158135	3	3	27	1	0	0	0	0	1	0	0	0	1126	217	8	3	1836	3	ATP13A3	3	194158135	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	39398	194158135	3864295	2127	24478											
MUC20	200958	broad.mit.edu	37	chr3	195453411	195453411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacagccacgcccacgactgCccggacgaggccgaccacag	11	1	11	18	5	0	0	0	0	0	0	0	4	0	1	5	2	3	0	5	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:195453411C>T	uc010hzo.2	+	3	1550	c.1424C>T	c.(1423-1425)GCC>GTC	p.A475V	MUC20_uc010hzp.2_Missense_Mutation_p.A440V|MUC20_uc011bte.1_RNA	NM_152673	NP_689886	Q8N307	MUC20_HUMAN	mucin 20 isoform L	646	Involved in oligomerization.|Thr-rich.				protein homooligomerization	apical plasma membrane|basal plasma membrane|extracellular region|microvillus membrane					0	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.191)	Epithelial(36;1e-21)|all cancers(36;9.02e-20)|OV - Ovarian serous cystadenocarcinoma(49;1.6e-18)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;1.66e-05)		CCCACGACTGCCCGGACGAGG	0.597													4	113					0	0	1	0	0		T	195453411	T	T	195453411	3	4	27	1	0	0	0	0	1	0	0	0	9994	739	26	2	1434	2	MUC20	3	195453411	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1295276	195453411	2569019	2128	24479											
MUC4	4585	broad.mit.edu	37	chr3	195485993	195485993	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagccagccaaatagtcctAccaaagagctccaagtcggt	13	6	8	14	1	0	1	0	0	0	1	3	1	2	1	6	1	4	1	6	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:195485993A>G	uc011bto.1	-	18	15062	c.14602_splice	c.e18+1	p.E4868_splice	MUC4_uc003fuz.2_Splice_Site_p.E594_splice|MUC4_uc003fva.2_Splice_Site_p.E476_splice|MUC4_uc003fvb.2_Splice_Site_p.E512_splice|MUC4_uc003fvc.2_Splice_Site|MUC4_uc003fvd.2_Splice_Site|MUC4_uc003fve.2_Splice_Site_p.E512_splice|MUC4_uc010hzr.2_Splice_Site|MUC4_uc011btf.1_Splice_Site_p.E476_splice|MUC4_uc011btg.1_Splice_Site|MUC4_uc011bth.1_Splice_Site_p.E560_splice|MUC4_uc011bti.1_Splice_Site_p.E560_splice|MUC4_uc011btj.1_Splice_Site_p.E737_splice|MUC4_uc011btk.1_Splice_Site_p.E476_splice|MUC4_uc011btl.1_Splice_Site_p.E505_splice|MUC4_uc011btm.1_Splice_Site_p.E685_splice|MUC4_uc011btn.1_Splice_Site_p.E476_splice|MUC4_uc003fvo.2_Splice_Site_p.E760_splice|MUC4_uc003fvp.2_Splice_Site_p.E709_splice	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a						cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AAATAGTCCTACCAAAGAGCT	0.537													9	248					0	0	1	0	0		G	195485993	G	G	195485993	5	3	27	1	0	0	0	0	0	0	1	0	9996	405	14	3	1286	3	MUC4	3	195485993	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	32582	195485993	2536437	2129	24480											
MUC4	4585	broad.mit.edu	37	chr3	195498640	195498640	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgggttggggtaggagaaAatctggtagtctgactctgg	9	11	17	4	0	3	2	0	1	3	1	3	3	3	2	0	6	0	3	0	6	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:195498640A>G	uc011bto.1	-	6	13201	c.12741T>C	c.(12739-12741)ATT>ATC	p.I4247I	MUC4_uc003fuz.2_Missense_Mutation_p.F55S|MUC4_uc003fva.2_Intron|MUC4_uc003fvb.2_Intron|MUC4_uc003fvc.2_Intron|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_5'UTR|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_5'UTR|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_5'UTR|MUC4_uc011bti.1_Intron|MUC4_uc011btj.1_Silent_p.I116I|MUC4_uc011btk.1_5'UTR|MUC4_uc011btl.1_Intron|MUC4_uc011btm.1_Silent_p.I116I|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Silent_p.I139I|MUC4_uc003fvp.2_Silent_p.I88I|MUC4_uc010hzu.1_Silent_p.I987I	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1132					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGTAGGAGAAAATCTGGTAGT	0.572													4	105					0	0	1	0	0		G	195498640	G	G	195498640	2	3	27	1	0	0	0	0	0	0	0	1	9996	10	1	3		3	MUC4	3	195498640	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	12647	195498640	2523790	2130	24481											
TM4SF19	116211	broad.mit.edu	37	chr3	196050829	196050829	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acagctgcagagggctccagGcagacggagttccagagcga	11	4	15	11	2	0	3	0	0	0	3	2	5	2	4	2	3	3	5	2	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:196050829G>A	uc003fwl.1	-	5	614	c.489C>T	c.(487-489)TGC>TGT	p.C163C	TM4SF19_uc003fwj.2_RNA|uc003fwk.1_Missense_Mutation_p.A32T|TM4SF19_uc010iad.1_Missense_Mutation_p.A162V|TM4SF19_uc011btv.1_Silent_p.C137C	NM_138461	NP_612470	Q96DZ7	T4S19_HUMAN	transmembrane 4 L six family member 19	163	Extracellular (Potential).					integral to membrane					0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;4.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		AGGGCTCCAGGCAGACGGAGT	0.532													11	53					0	0	1	0	0		A	196050829	A	A	196050829	2	1	27	1	0	0	0	0	0	0	0	1	15993	1195	42	2		2	TM4SF19	3	196050829	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	552189	196050829	1971601	2131	24482											
RNF168	165918	broad.mit.edu	37	chr3	196214296	196214296	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgcttagctttcttgccaGttcctcatcacttttcagtt	7	18	5	11	0	4	0	3	0	1	0	5	0	5	0	2	0	3	4	2	0	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:196214296G>T	uc003fwq.2	-	3	1070	c.532C>A	c.(532-534)CTG>ATG	p.L178M	RNF168_uc010iah.2_Missense_Mutation_p.L11M	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	178	MIU motif 1.				double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		TTTCTTGCCAGTTCCTCATCA	0.458													7	323					0.00448238	0.00462772	1	1	0		T	196214296	T	T	196214296	3	4	27	1	0	0	0	0	1	0	0	0	13484	1020	36	5	1199	5	RNF168	3	196214296	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	163467	196214296	1808134	2132	24483											
FBXO45	200933	broad.mit.edu	37	chr3	196304328	196304328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcatctttttagatacGtgcttttcaacatgccttca	8	20	4	9	1	4	1	3	0	1	1	4	1	4	1	1	0	4	1	1	0	3	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:196304328G>A	uc010iai.2	+	2	454	c.323G>A	c.(322-324)CGT>CAT	p.R108H		NM_001105573	NP_001099043	P0C2W1	FBSP1_HUMAN	F-box protein 45	108	B30.2/SPRY.				nervous system development|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	cell junction|postsynaptic membrane|presynaptic membrane	protein binding			skin(1)	1	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;2.75e-23)|all cancers(36;2.47e-21)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		TTTTAGATACGTGCTTTTCAA	0.313													3	40					0	0	1	0	0		A	196304328	A	A	196304328	3	1	27	1	0	0	0	0	1	0	0	0	5768	1145	40	1	329	1	FBXO45	3	196304328	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	90032	196304328	1718102	2133	24484											
SENP5	205564	broad.mit.edu	37	chr3	196612777	196612777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attatccatgattagatttcGgtacaggattctcagatccc	11	14	7	9	1	1	3	1	1	1	2	5	4	3	4	2	2	1	1	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:196612777G>A	uc003fwz.3	+	2	974	c.725G>A	c.(724-726)CGG>CAG	p.R242Q	SENP5_uc011bty.1_Missense_Mutation_p.R242Q	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	242					cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		ATTAGATTTCGGTACAGGATT	0.418													5	78					0	0	1	0	0		A	196612777	A	A	196612777	3	1	27	1	0	0	0	0	1	0	0	0	14074	1116	39	1	727	1	SENP5	3	196612777	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	308449	196612777	1409653	2134	24485											
SENP5	205564	broad.mit.edu	37	chr3	196626927	196626927	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtcagaactggctgaaTgaccaggttagtatattgta	12	12	12	5	0	1	3	1	2	0	1	1	4	1	3	1	3	1	4	1	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:196626927T>C	uc003fwz.3	+	4	2001	c.1752T>C	c.(1750-1752)AAT>AAC	p.N584N	SENP5_uc011bty.1_Silent_p.N584N	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	584	Protease.				cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		ACTGGCTGAATGACCAGGTTA	0.403													11	65					0	0	1	0	0		C	196626927	C	C	196626927	2	2	27	1	0	0	0	0	0	0	0	1	14074	1461	51	3		3	SENP5	3	196626927	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	14150	196626927	1395503	2135	24486											
MFI2	4241	broad.mit.edu	37	chr3	196730954	196730954	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacccgttcttattgtggTcgtctccaaacaggtcctgg	7	13	10	11	2	2	1	0	1	2	0	5	1	3	1	3	3	2	1	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:196730954T>C	uc003fxk.3	-	15	2068	c.1955A>G	c.(1954-1956)GAC>GGC	p.D652G	uc003fxi.2_5'Flank|uc003fxj.1_Intron	NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	652	Transferrin-like 2.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		CTTATTGTGGTCGTCTCCAAA	0.582													7	215					0	0	1	0	0		C	196730954	C	C	196730954	3	2	27	1	0	0	0	0	1	0	0	0	9540	1667	58	3	269	3	MFI2	3	196730954	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	104027	196730954	1291476	2136	24487											
MFI2	4241	broad.mit.edu	37	chr3	196736663	196736663	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccacggccaccacgtagtAcgagttgctgctgtcttccg	7	9	10	15	4	1	0	0	0	1	0	2	1	2	0	4	1	3	5	4	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:196736663A>G	uc003fxk.3	-	11	1464	c.1351T>C	c.(1351-1353)TAC>CAC	p.Y451H		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	451	Transferrin-like 2.	Iron 2 (By similarity).			cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		ACCACGTAGTACGAGTTGCTG	0.657													8	58					0	0	1	0	0		G	196736663	G	G	196736663	3	3	27	1	0	0	0	0	1	0	0	0	9540	391	14	3	889	3	MFI2	3	196736663	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5709	196736663	1285767	2137	24488											
MFI2	4241	broad.mit.edu	37	chr3	196751234	196751234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctccaccaggtagcccacggGcacgttccagcccactgtgc	7	6	10	18	2	0	0	0	0	0	0	2	0	2	0	5	2	3	3	5	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:196751234G>A	uc003fxk.3	-	4	540	c.427C>T	c.(427-429)CCC>TCC	p.P143S	MFI2_uc003fxl.3_Missense_Mutation_p.P143S|MFI2_uc011bua.1_Missense_Mutation_p.P143S	NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	143	Transferrin-like 1.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		TAGCCCACGGGCACGTTCCAG	0.642													6	74					0	0	1	0	0		A	196751234	A	A	196751234	3	1	27	1	0	0	0	0	1	0	0	0	9540	1203	42	2	2042	2	MFI2	3	196751234	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	14571	196751234	1271196	2138	24489											
DLG1	1739	broad.mit.edu	37	chr3	197023333	197023333	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatattcctccaaaaggtgcAatgctctctgggtatctgag	10	12	10	9	0	2	1	0	1	2	0	5	2	4	1	2	2	2	3	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:197023333A>G	uc003fxo.3	-	3	225	c.35T>C	c.(34-36)TTG>TCG	p.L12S	DLG1_uc003fxn.3_Missense_Mutation_p.L12S|DLG1_uc011bue.1_Missense_Mutation_p.L12S|DLG1_uc010ial.2_Missense_Mutation_p.L12S|DLG1_uc011buf.1_RNA|DLG1_uc003fxp.2_RNA|DLG1_uc010iam.1_Missense_Mutation_p.L12S|uc003fxq.2_5'Flank	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	12	L27.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		CAAAAGGTGCAATGCTCTCTG	0.373													5	109					0	0	1	0	0		G	197023333	G	G	197023333	3	3	27	1	0	0	0	0	1	0	0	0	4560	131	5	3	2879	3	DLG1	3	197023333	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	272099	197023333	999097	2139	24490											
KIAA0226	9711	broad.mit.edu	37	chr3	197428660	197428660	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatagctgtttggaggggTgtatgtggaactgggcaggg	8	10	19	4	0	0	0	0	0	0	0	0	2	0	2	0	6	3	5	0	6	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:197428660T>C	uc003fyc.2	-	6	829	c.646A>G	c.(646-648)ACC>GCC	p.T216A	KIAA0226_uc003fyd.3_Missense_Mutation_p.T156A|KIAA0226_uc003fye.1_5'UTR|KIAA0226_uc003fyf.2_Missense_Mutation_p.T49A|KIAA0226_uc003fyg.2_Missense_Mutation_p.T209A	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	216	Ser-rich.				autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		TTTGGAGGGGTGTATGTGGAA	0.512													11	51					0	0	1	0	0		C	197428660	C	C	197428660	3	2	27	1	0	0	0	0	1	0	0	0	8178	1696	59	3	2381	3	KIAA0226	3	197428660	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	405327	197428660	593770	2140	24491											
IQCG	84223	broad.mit.edu	37	chr3	197665523	197665523	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttaaactccacagcgaaccgGcctctgtgtctgatttctgg	8	12	9	12	2	3	1	0	1	3	0	4	2	4	1	3	2	3	0	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:197665523G>A	uc003fyo.2	-	4	557	c.411C>T	c.(409-411)GGC>GGT	p.G137G	IQCG_uc003fyn.2_Silent_p.G39G|IQCG_uc003fyp.2_Silent_p.G137G|IQCG_uc003fyq.3_Silent_p.G137G	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	137											0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;7.19e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.149)		CAGCGAACCGGCCTCTGTGTC	0.433													37	281					0	0	1	0	0		A	197665523	A	A	197665523	2	1	27	1	0	0	0	0	0	0	0	1	7826	1190	42	2		2	IQCG	3	197665523	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	236863	197665523	356907	2141	24492											
LMLN	89782	broad.mit.edu	37	chr3	197707271	197707271	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaagaaggcatctcagaTgcagactttgttctttacgt	11	12	9	9	1	2	3	1	0	2	3	3	4	2	3	1	1	2	3	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr3:197707271T>G	uc011buo.1	+	6	646	c.624T>G	c.(622-624)GAT>GAG	p.D208E	LMLN_uc003fyt.2_Missense_Mutation_p.D156E|LMLN_uc010iar.2_Missense_Mutation_p.D208E|LMLN_uc010ias.2_Missense_Mutation_p.D156E|LMLN_uc003fyu.2_5'UTR	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2	208					cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		GCATCTCAGATGCAGACTTTG	0.532													10	159					0	0	1	0	0		G	197707271	G	G	197707271	3	3	27	1	0	0	0	0	1	0	0	0	8864	1461	51	5	646	5	LMLN	3	197707271	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	41748	197707271	315159	2142	24493											
ZNF721	170960	broad.mit.edu	37	chr4	436572	436572	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctaaaggttttgccacAttcttcacatgtgtagggtt	8	16	9	8	0	3	0	1	0	2	0	3	0	3	0	1	2	1	3	1	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:436572A>G	uc003gag.2	-	3	2375	c.1684T>C	c.(1684-1686)TGT>CGT	p.C562R	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.C594R|ZNF721_uc010ibe.2_Missense_Mutation_p.C550R	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	562						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GTTTTGCCACATTCTTCACAT	0.413													5	122					0	0	1	0	0		G	436572	G	G	436572	3	3	27	1	0	0	0	0	1	0	0	0	18147	217	8	3	1091	3	ZNF721	4	436572	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08		436572	190717704	2143	24494											
PCGF3	10336	broad.mit.edu	37	chr4	731294	731294	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatattgtttacaaattggtAccaggcctccaagaaggtga	13	11	10	7	0	0	2	0	1	0	1	1	3	1	2	3	3	2	2	3	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:731294A>G	uc011bva.1	+	7	721	c.246A>G	c.(244-246)GTA>GTG	p.V82V	PCGF3_uc003gbd.1_RNA|PCGF3_uc003gbe.2_Silent_p.V82V|PCGF3_uc010ibh.2_Silent_p.V82V|PCGF3_uc003gbg.1_Silent_p.V48V|PCGF3_uc003gbh.2_Silent_p.V48V	NM_006315	NP_006306	Q3KNV8	PCGF3_HUMAN	ring finger protein 3	82					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PcG protein complex	zinc ion binding				0						ACAAATTGGTACCAGGCCTCC	0.473													11	92					0	0	1	0	0		G	731294	G	G	731294	2	3	27	1	0	0	0	0	0	0	0	1	11595	378	14	3		3	PCGF3	4	731294	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	294722	731294	190422982	2144	24495											
TMEM175	84286	broad.mit.edu	37	chr4	949616	949616	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccactcagcaaggagcgCgtggaagccttcagcgacgg	10	4	15	12	4	2	0	2	0	0	0	2	4	2	2	2	3	5	1	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:949616C>T	uc003gbq.2	+	10	878	c.780C>T	c.(778-780)CGC>CGT	p.R260R	TMEM175_uc010ibl.1_Silent_p.R260R|TMEM175_uc003gbp.1_Silent_p.R178R|TMEM175_uc003gbr.2_Silent_p.R178R|TMEM175_uc003gbu.2_Silent_p.R178R|TMEM175_uc003gbs.2_Silent_p.R143R|TMEM175_uc003gbt.2_Silent_p.R143R|TMEM175_uc003gbv.2_Silent_p.R143R|TMEM175_uc010ibm.2_Silent_p.R76R	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	260						integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GCAAGGAGCGCGTGGAAGCCT	0.642													3	28					0	0	1	0	0		T	949616	T	T	949616	2	4	27	1	0	0	0	0	0	0	0	1	16116	755	27	1		1	TMEM175	4	949616	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	218322	949616	190204660	2145	24496											
SLC26A1	10861	broad.mit.edu	37	chr4	985234	985234	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaatgagtaggcgatggcCtgcggcaccaggatgatgcc	10	6	15	10	2	0	2	0	2	0	0	0	4	0	3	3	4	3	3	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:985234C>A	uc003gcb.2	-	3	636	c.258G>T	c.(256-258)CAG>CAT	p.Q86H	SLC26A1_uc003gbx.2_Missense_Mutation_p.Q86H|IDUA_uc003gby.2_Intron|IDUA_uc003gbz.2_Intron|IDUA_uc003gca.2_Intron|SLC26A1_uc003gcc.2_Missense_Mutation_p.Q86H	NM_213613	NP_998778	Q9H2B4	S26A1_HUMAN	solute carrier family 26, member 1 isoform a	86	Helical; (Potential).					integral to membrane|plasma membrane	secondary active sulfate transmembrane transporter activity			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			AGGCGATGGCCTGCGGCACCA	0.642													9	81					0.000442599	0.000464839	1	1	0		A	985234	A	A	985234	3	1	27	1	0	0	0	0	1	0	0	0	14539	680	24	5	1958	5	SLC26A1	4	985234	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	35618	985234	190169042	2146	24497											
IDUA	3425	broad.mit.edu	37	chr4	996113	996113	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accacctccgccttcccctaCgcgctcctgagcaacgacaa	9	6	6	20	4	0	1	0	1	0	0	3	2	3	1	7	0	3	2	7	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:996113C>T	uc003gby.2	+	8	1117	c.1029C>T	c.(1027-1029)TAC>TAT	p.Y343Y	IDUA_uc003gbz.2_RNA|IDUA_uc003gca.2_Silent_p.Y365Y	NM_000203	NP_000194	P35475	IDUA_HUMAN	alpha-L-iduronidase precursor	343					disaccharide metabolic process	lysosome	cation binding|L-iduronidase activity				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)		Laronidase(DB00090)	CCTTCCCCTACGCGCTCCTGA	0.687													3	24					0	0	1	0	0		T	996113	T	T	996113	2	4	27	1	0	0	0	0	0	0	0	1	7520	547	19	1		1	IDUA	4	996113	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10879	996113	190158163	2147	24498											
IDUA	3425	broad.mit.edu	37	chr4	996128	996128	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctacgcgctcctgagcaaCgacaatgccttcctgagcta	9	8	8	16	3	0	2	0	2	0	0	2	3	2	2	4	0	5	3	4	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:996128C>T	uc003gby.2	+	8	1132	c.1044C>T	c.(1042-1044)AAC>AAT	p.N348N	IDUA_uc003gbz.2_RNA|IDUA_uc003gca.2_Silent_p.N370N	NM_000203	NP_000194	P35475	IDUA_HUMAN	alpha-L-iduronidase precursor	348					disaccharide metabolic process	lysosome	cation binding|L-iduronidase activity				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)		Laronidase(DB00090)	TCCTGAGCAACGACAATGCCT	0.672													3	30					0	0	1	0	0		T	996128	T	T	996128	2	4	27	1	0	0	0	0	0	0	0	1	7520	535	19	1		1	IDUA	4	996128	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15	996128	190158148	2148	24499											
RNF212	285498	broad.mit.edu	37	chr4	1067437	1067437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggagattctcgcagggccgGctgctatctcagactaagaa	10	9	12	10	2	2	3	1	0	2	3	4	4	2	3	1	3	1	3	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:1067437G>A	uc003gcj.2	-	9	854	c.524C>T	c.(523-525)GCC>GTC	p.A175V	RNF212_uc003gch.2_Missense_Mutation_p.A17V|RNF212_uc003gci.2_Missense_Mutation_p.A175V|RNF212_uc010ibp.2_RNA|RNF212_uc010ibq.2_3'UTR	NM_001131034	NP_001124506	Q495C1	RN212_HUMAN	ring finger protein 212 isoform a	175							zinc ion binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0179)	UCEC - Uterine corpus endometrioid carcinoma (64;0.151)		CGCAGGGCCGGCTGCTATCTC	0.433											OREG0016028	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	28					0	0	1	0	0		A	1067437	A	A	1067437	3	1	27	1	0	0	0	0	1	0	0	0	13501	1203	42	2	377	2	RNF212	4	1067437	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	71309	1067437	190086839	2149	24500											
KIAA1530	57654	broad.mit.edu	37	chr4	1347004	1347004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctggcacccctgacccccGggacggggagcagccctgct	5	5	14	17	2	1	1	0	1	1	0	1	3	1	3	5	4	3	3	5	4	0	0	rs76217876	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:1347004G>A	uc003gde.3	+	5	1184	c.737G>A	c.(736-738)CGG>CAG	p.R246Q		NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	246											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			CCTGACCCCCGGGACGGGGAG	0.706													4	34					0	0	1	0	0		A	1347004	A	A	1347004	3	1	27	1	0	0	0	0	1	0	0	0	8257	1116	39	1	751	1	KIAA1530	4	1347004	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	279567	1347004	189807272	2150	24501											
CRIPAK	285464	broad.mit.edu	37	chr4	1388698	1388698	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcacacgtgcccatgcGgagtgcccgcctgctcacac	6	7	10	18	3	2	0	2	0	0	0	2	1	2	1	3	1	5	2	3	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:1388698G>A	uc003gdf.2	+	1	3359	c.399G>A	c.(397-399)GCG>GCA	p.A133A		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	133					ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			GTGCCCATGCGGAGTGCCCGC	0.701													5	133					0	0	1	0	0		A	1388698	A	A	1388698	2	1	27	1	0	0	0	0	0	0	0	1	3880	1103	39	1		1	CRIPAK	4	1388698	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	41694	1388698	189765578	2151	24502											
CRIPAK	285464	broad.mit.edu	37	chr4	1389092	1389092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcccgcctgctcacacgtgCccatgtggagtgcccgcctg	4	8	12	17	3	1	0	1	0	0	0	1	1	1	1	5	1	4	1	5	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:1389092C>T	uc003gdf.2	+	1	3753	c.793C>T	c.(793-795)CCC>TCC	p.P265S		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	265	7.				ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			CTCACACGTGCCCATGTGGAG	0.677													19	218					0	0	1	0	0		T	1389092	T	T	1389092	3	4	27	1	0	0	0	0	1	0	0	0	3880	739	26	2	795	2	CRIPAK	4	1389092	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	394	1389092	189765184	2152	24503											
FAM53A	152877	broad.mit.edu	37	chr4	1656774	1656774	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctcacgcctccgtttgcgCcggctcctcttcccactgag	3	11	8	19	4	2	1	1	1	1	0	6	1	6	1	6	1	1	2	6	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:1656774C>T	uc011bve.1	-	4	1011	c.813G>A	c.(811-813)CGG>CGA	p.R271R	FAM53A_uc010ibw.2_Silent_p.R271R	NM_001013622	NP_001013644	Q6NSI3	FA53A_HUMAN	dorsal neural-tube nuclear protein	271	Nuclear localization signal (Potential).					nucleus					0		all_epithelial(65;0.206)|Breast(71;0.212)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)			TCCGTTTGCGCCGGCTCCTCT	0.667													3	32					0	0	1	0	0		T	1656774	T	T	1656774	2	4	27	1	0	0	0	0	0	0	0	1	5593	726	26	2		2	FAM53A	4	1656774	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	267682	1656774	189497502	2153	24504											
FAM53A	152877	broad.mit.edu	37	chr4	1656868	1656868	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtggacgtggggctgctgCtggcccagggcaggggagtg	4	6	22	9	2	0	0	0	0	0	0	0	2	0	2	1	7	2	4	1	7	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:1656868C>T	uc011bve.1	-	4	917	c.719G>A	c.(718-720)AGC>AAC	p.S240N	FAM53A_uc010ibw.2_Missense_Mutation_p.S240N	NM_001013622	NP_001013644	Q6NSI3	FA53A_HUMAN	dorsal neural-tube nuclear protein	240						nucleus					0		all_epithelial(65;0.206)|Breast(71;0.212)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)			GGGGCTGCTGCTGGCCCAGGG	0.731													4	19					0	0	1	0	0		T	1656868	T	T	1656868	3	4	27	1	0	0	0	0	1	0	0	0	5593	797	28	2	485	2	FAM53A	4	1656868	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	94	1656868	189497408	2154	24505											
WHSC1	7468	broad.mit.edu	37	chr4	1902809	1902809	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctctctttgaatcttccaTttgtggtgacagtgctgctg	5	16	10	10	0	2	2	0	2	2	0	4	2	3	2	2	1	2	2	2	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:1902809T>G	uc003gdz.3	+	2	604	c.428T>G	c.(427-429)ATT>AGT	p.I143S	WHSC1_uc003geb.3_Missense_Mutation_p.I143S|WHSC1_uc003gec.3_Missense_Mutation_p.I143S|WHSC1_uc003ged.3_Missense_Mutation_p.I143S|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gdx.2_Missense_Mutation_p.I143S|WHSC1_uc003gdy.1_Missense_Mutation_p.I143S|WHSC1_uc010icd.1_Missense_Mutation_p.I143S|WHSC1_uc003gea.1_Missense_Mutation_p.I143S|WHSC1_uc010ice.1_Missense_Mutation_p.I143S|WHSC1_uc003geg.1_Missense_Mutation_p.I143S|WHSC1_uc003geh.1_Missense_Mutation_p.I143S	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	143					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		GAATCTTCCATTTGTGGTGAC	0.418			T	IGH@	MM								3	47					0	0	1	0	0		G	1902809	G	G	1902809	3	3	27	1	0	0	0	0	1	0	0	0	17388	1493	52	5	430	5	WHSC1	4	1902809	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	245941	1902809	189251467	2155	24506											
ZFYVE28	57732	broad.mit.edu	37	chr4	2273447	2273447	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgccagttcagaggatgAcagggtctcctggcacagtg	8	8	15	10	0	2	2	1	1	1	1	3	3	2	3	2	4	1	3	2	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:2273447A>G	uc003gex.1	-	11	2702	c.2383T>C	c.(2383-2385)TCA>CCA	p.S795P	ZFYVE28_uc011bvk.1_Missense_Mutation_p.S725P|ZFYVE28_uc011bvl.1_Missense_Mutation_p.S765P|ZFYVE28_uc003gew.1_Missense_Mutation_p.S681P	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	795					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						TCAGAGGATGACAGGGTCTCC	0.632													5	119					0	0	1	0	0		G	2273447	G	G	2273447	3	3	27	1	0	0	0	0	1	0	0	0	17695	275	10	3	292	3	ZFYVE28	4	2273447	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	370638	2273447	188880829	2156	24507											
SH3BP2	6452	broad.mit.edu	37	chr4	2834759	2834759	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctctaacaaagtgaggaacTatcgcatttttgagaaggtg	13	11	10	7	1	1	2	0	2	1	1	2	4	1	3	1	2	2	1	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:2834759T>C	uc003gfi.3	+	12	1651	c.1531T>C	c.(1531-1533)TAT>CAT	p.Y511H	SH3BP2_uc011bvp.1_Missense_Mutation_p.Y539H|SH3BP2_uc003gfj.3_Missense_Mutation_p.Y568H|SH3BP2_uc003gfk.3_Missense_Mutation_p.Y511H|SH3BP2_uc003gfl.3_Missense_Mutation_p.Y444H|SH3BP2_uc003gfm.3_Missense_Mutation_p.Y486H	NM_001122681	NP_001116153	P78314	3BP2_HUMAN	SH3-domain binding protein 2 isoform a	511	SH2.				signal transduction		SH3 domain binding|SH3/SH2 adaptor activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.164)		AGTGAGGAACTATCGCATTTT	0.602									Cherubism				13	107					0	0	1	0	0		C	2834759	C	C	2834759	3	2	27	1	0	0	0	0	1	0	0	0	14270	1522	53	3	1832	3	SH3BP2	4	2834759	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	561312	2834759	188319517	2157	24508											
ADD1	118	broad.mit.edu	37	chr4	2886334	2886334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattacggtgtaaattggcaGcgttttatagactagcagat	12	14	10	5	2	0	2	0	0	0	2	0	2	0	2	0	2	3	4	0	2	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:2886334G>A	uc003gfr.2	+	4	639	c.451G>A	c.(451-453)GCG>ACG	p.A151T	ADD1_uc003gfn.2_Intron|ADD1_uc010ico.1_Missense_Mutation_p.A151T|ADD1_uc003gfo.2_Missense_Mutation_p.A151T|ADD1_uc003gfp.2_Missense_Mutation_p.A151T|ADD1_uc003gfq.2_Missense_Mutation_p.A151T|ADD1_uc003gfs.2_Missense_Mutation_p.A151T|ADD1_uc003gft.3_Missense_Mutation_p.A151T|ADD1_uc003gfu.2_5'Flank	NM_001119	NP_001110	P35611	ADDA_HUMAN	adducin 1 (alpha) isoform a	151					actin filament bundle assembly|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|positive regulation of protein binding	cytosol|F-actin capping protein complex|nucleus|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding|transcription factor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TAAATTGGCAGCGTTTTATAG	0.383													18	148					0	0	1	0	0		A	2886334	A	A	2886334	3	1	27	1	0	0	0	0	1	0	0	0	304	971	34	2	461	2	ADD1	4	2886334	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	51575	2886334	188267942	2158	24509											
GRK4	2868	broad.mit.edu	37	chr4	3037113	3037113	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatttctgcctcttgcagTtactcaccaagaatccaagc	10	12	6	13	0	3	1	1	0	2	1	4	1	4	1	3	0	5	3	3	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:3037113T>C	uc003ggn.1	+	13	1725	c.1270T>C	c.(1270-1272)TTA>CTA	p.L424L	GRK4_uc003ggo.1_Silent_p.L424L|GRK4_uc003ggp.1_Silent_p.L392L|GRK4_uc003ggq.1_Silent_p.L392L	NM_182982	NP_892027	P32298	GRK4_HUMAN	G protein-coupled receptor kinase 4 isoform	424	Protein kinase.					cell cortex	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CCTCTTGCAGTTACTCACCAA	0.532													13	94					0	0	1	0	0		C	3037113	C	C	3037113	2	2	27	1	0	0	0	0	0	0	0	1	6807	1739	60	3		3	GRK4	4	3037113	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	150779	3037113	188117163	2159	24510											
HTT	3064	broad.mit.edu	37	chr4	3148604	3148604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgattctgaccctgctctCgtcagcttggttcccattgg	6	14	9	12	1	3	2	1	2	2	0	5	2	4	2	2	2	2	3	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:3148604C>T	uc011bvq.1	+	26	3375	c.3230C>T	c.(3229-3231)TCG>TTG	p.S1077L		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1075					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		ACCCTGCTCTCGTCAGCTTGG	0.507													49	487					0	0	1	0	0		T	3148604	T	T	3148604	3	4	27	1	0	0	0	0	1	0	0	0	7473	893	31	1	3322	1	HTT	4	3148604	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	111491	3148604	188005672	2160	24511											
RGS12	6002	broad.mit.edu	37	chr4	3318001	3318001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggccggctacggattcaCgctttcgggacaggcaccct	7	7	14	13	4	1	0	1	0	0	0	2	3	1	2	2	5	1	3	2	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:3318001C>T	uc003ggw.2	+	2	1008	c.104C>T	c.(103-105)ACG>ATG	p.T35M	RGS12_uc003ggu.2_Missense_Mutation_p.T35M|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Missense_Mutation_p.T35M|RGS12_uc003ggx.1_Missense_Mutation_p.T35M	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	35	PDZ.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TACGGATTCACGCTTTCGGGA	0.642													9	74					0	0	1	0	0		T	3318001	T	T	3318001	3	4	27	1	0	0	0	0	1	0	0	0	13320	536	19	1	106	1	RGS12	4	3318001	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	169397	3318001	187836275	2161	24512											
RGS12	6002	broad.mit.edu	37	chr4	3318443	3318443	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaactcgatttgatgttggAcatgaaagtataaataatcc	15	12	8	6	1	0	2	0	2	0	0	2	4	1	3	1	1	1	3	1	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:3318443A>G	uc003ggw.2	+	2	1450	c.546A>G	c.(544-546)GGA>GGG	p.G182G	RGS12_uc003ggu.2_Silent_p.G182G|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Silent_p.G182G|RGS12_uc003ggx.1_Silent_p.G182G	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	182						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TTGATGTTGGACATGAAAGTA	0.388													5	65					0	0	1	0	0		G	3318443	G	G	3318443	2	3	27	1	0	0	0	0	0	0	0	1	13320	262	10	3		3	RGS12	4	3318443	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	442	3318443	187835833	2162	24513											
LRPAP1	4043	broad.mit.edu	37	chr4	3526647	3526647	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacgtaccattgaggttgcgTatgagtctcgcttccttctc	7	14	9	11	3	2	2	0	2	2	0	5	2	3	2	2	1	3	4	2	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:3526647T>C	uc003ghi.2	-	2	421	c.336A>G	c.(334-336)ATA>ATG	p.I112M		NM_002337	NP_002328	P30533	AMRP_HUMAN	low density lipoprotein receptor-related protein	112					negative regulation of protein binding|negative regulation of very-low-density lipoprotein particle clearance|protein folding|vesicle-mediated transport	cell surface|integral to membrane|plasma membrane	asialoglycoprotein receptor activity|heparin binding|low-density lipoprotein particle receptor binding|receptor antagonist activity|unfolded protein binding|very-low-density lipoprotein particle receptor binding			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.165)		TGAGGTTGCGTATGAGTCTCG	0.333													22	359					0	0	1	0	0		C	3526647	C	C	3526647	3	2	27	1	0	0	0	0	1	0	0	0	8982	1628	57	3	765	3	LRPAP1	4	3526647	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	208204	3526647	187627629	2163	24514											
ADRA2C	152	broad.mit.edu	37	chr4	3769612	3769612	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttcttcttctggatcggcTactgcaacagctcgctcaac	8	12	8	13	2	4	0	1	0	3	0	6	1	4	1	0	2	5	5	0	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:3769612T>C	uc003ghm.2	+	1	1317	c.1279T>C	c.(1279-1281)TAC>CAC	p.Y427H	ADRA2C_uc010icx.2_Intron	NM_000683	NP_000674	P18825	ADA2C_HUMAN	alpha-2C-adrenergic receptor	427	Helical; Name=7; (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation|regulation of insulin secretion	endosome|integral to plasma membrane	alpha-2A adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|protein heterodimerization activity|protein homodimerization activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)	Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	CTGGATCGGCTACTGCAACAG	0.582													4	36					0	0	1	0	0		C	3769612	C	C	3769612	3	2	27	1	0	0	0	0	1	0	0	0	339	1522	53	3	1281	3	ADRA2C	4	3769612	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	242965	3769612	187384664	2164	24515											
EVC2	132884	broad.mit.edu	37	chr4	5624510	5624510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgagttctgcaggcgcCgcagctcgtcggtggccttt	3	11	15	12	4	1	1	0	1	1	0	3	1	1	1	2	4	2	5	2	4	0	2	rs139717271		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:5624510C>T	uc003gij.2	-	14	2309	c.2255G>A	c.(2254-2256)CGG>CAG	p.R752Q	EVC2_uc011bwb.1_Missense_Mutation_p.R192Q|EVC2_uc003gik.2_Missense_Mutation_p.R672Q	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	752	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						CTGCAGGCGCCGCAGCTCGTC	0.647													14	52					0	0	1	0	0		T	5624510	T	T	5624510	3	4	27	1	0	0	0	0	1	0	0	0	5294	652	23	1	1707	1	EVC2	4	5624510	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1854898	5624510	185529766	2165	24516											
EVC	2121	broad.mit.edu	37	chr4	5754593	5754593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggacgatggggcgggcgCacatggcaaaagtgattgag	12	5	18	6	3	0	3	0	2	0	1	0	5	0	4	0	5	0	2	0	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:5754593C>T	uc003gil.1	+	9	1313	c.1129C>T	c.(1129-1131)CAC>TAC	p.H377Y	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	377					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				GGGGCGGGCGCACATGGCAAA	0.587													17	60					0	0	1	0	0		T	5754593	T	T	5754593	3	4	27	1	0	0	0	0	1	0	0	0	5293	710	25	2	1163	2	EVC	4	5754593	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	130083	5754593	185399683	2166	24517											
JAKMIP1	152789	broad.mit.edu	37	chr4	6064122	6064122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagggcctggtactcccGggtcagctggcagaagcgca	7	7	15	12	2	1	1	1	0	0	1	2	1	2	1	2	4	4	5	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:6064122G>A	uc003giu.3	-	10	1753	c.1477C>T	c.(1477-1479)CGG>TGG	p.R493W	JAKMIP1_uc010idb.1_Missense_Mutation_p.R493W|JAKMIP1_uc010idc.1_Missense_Mutation_p.R308W|JAKMIP1_uc010idd.1_Missense_Mutation_p.R493W|JAKMIP1_uc011bwc.1_Missense_Mutation_p.R328W|JAKMIP1_uc003giv.3_Missense_Mutation_p.R493W|JAKMIP1_uc010ide.2_Missense_Mutation_p.R493W	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	493	Mediates interaction with TYK2 and GABBR1.|Potential.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding	p.R493L(1)		large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TGGTACTCCCGGGTCAGCTGG	0.577													5	73					0	0	1	0	0		A	6064122	A	A	6064122	3	1	27	1	0	0	0	0	1	0	0	0	7956	1115	39	1	1141	1	JAKMIP1	4	6064122	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	309529	6064122	185090154	2167	24518											
JAKMIP1	152789	broad.mit.edu	37	chr4	6083425	6083425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcattcttcttgttcatccGcttgttcttctccaccaggg	4	17	6	14	1	6	0	2	0	4	0	8	0	7	0	3	1	0	3	3	1	0	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:6083425G>A	uc003giu.3	-	6	1288	c.1012C>T	c.(1012-1014)CGG>TGG	p.R338W	JAKMIP1_uc010idb.1_Missense_Mutation_p.R338W|JAKMIP1_uc010idc.1_Missense_Mutation_p.R173W|JAKMIP1_uc010idd.1_Missense_Mutation_p.R338W|JAKMIP1_uc011bwc.1_Missense_Mutation_p.R173W|JAKMIP1_uc003giv.3_Missense_Mutation_p.R338W|JAKMIP1_uc010ide.2_Missense_Mutation_p.R338W	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	338	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TTGTTCATCCGCTTGTTCTTC	0.512													16	65					0	0	1	0	0		A	6083425	A	A	6083425	3	1	27	1	0	0	0	0	1	0	0	0	7956	1086	38	1	1622	1	JAKMIP1	4	6083425	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19303	6083425	185070851	2168	24519											
WFS1	7466	broad.mit.edu	37	chr4	6303480	6303480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctggttctatgtgtaccGctcagagggcatgaaggtct	7	12	13	9	1	3	2	1	1	2	1	3	2	3	2	1	3	2	5	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:6303480G>A	uc003giy.2	+	8	2124	c.1958G>A	c.(1957-1959)CGC>CAC	p.R653H	WFS1_uc003gix.2_Missense_Mutation_p.R653H|WFS1_uc003giz.2_Missense_Mutation_p.R471H	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	653			R -> C (in a patient with type 2 diabetes).		endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		TATGTGTACCGCTCAGAGGGC	0.612													16	191					0	0	1	0	0		A	6303480	A	A	6303480	3	1	27	1	0	0	0	0	1	0	0	0	17386	1087	38	1	1984	1	WFS1	4	6303480	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	220055	6303480	184850796	2169	24520											
WFS1	7466	broad.mit.edu	37	chr4	6303751	6303751	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaggcctaccctgcctgcagCcctggcaacacctccacggc	7	5	10	19	1	0	0	0	0	0	0	1	1	1	0	6	3	5	2	6	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:6303751C>T	uc003giy.2	+	8	2395	c.2229C>T	c.(2227-2229)AGC>AGT	p.S743S	WFS1_uc003gix.2_Silent_p.S743S|WFS1_uc003giz.2_Silent_p.S561S	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	743					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		CTGCCTGCAGCCCTGGCAACA	0.607													5	16					0	0	1	0	0		T	6303751	T	T	6303751	2	4	27	1	0	0	0	0	0	0	0	1	17386	738	26	2		2	WFS1	4	6303751	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	271	6303751	184850525	2170	24521											
PPP2R2C	5522	broad.mit.edu	37	chr4	6380273	6380273	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgtacacgtcgtattcGccctggctgtggggcgcatt	4	12	14	11	4	0	0	0	0	0	0	2	0	0	0	1	3	2	5	1	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:6380273G>A	uc003gjc.2	-	3	565	c.195C>T	c.(193-195)GGC>GGT	p.G65G	PPP2R2C_uc003gjb.2_Silent_p.G48G|PPP2R2C_uc011bwd.1_Silent_p.G58G|PPP2R2C_uc011bwe.1_Silent_p.G58G|PPP2R2C_uc003gja.2_Silent_p.G65G|PPP2R2C_uc003gjd.1_Silent_p.G153G	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	65					signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						CGTCGTATTCGCCCTGGCTGT	0.587													19	95					0	0	1	0	0		A	6380273	A	A	6380273	2	1	27	1	0	0	0	0	0	0	0	1	12408	1074	38	1		1	PPP2R2C	4	6380273	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	76522	6380273	184774003	2171	24522											
KIAA0232	9778	broad.mit.edu	37	chr4	6826332	6826332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaagagctcgagaaatgtgGcattgatgccatgatttaca	14	10	10	7	1	0	4	0	2	0	2	1	5	0	4	1	1	3	2	1	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:6826332G>A	uc003gjr.3	+	3	615	c.152G>A	c.(151-153)GGC>GAC	p.G51D	KIAA0232_uc003gjq.3_Missense_Mutation_p.G51D	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	51							ATP binding			ovary(2)	2						GAGAAATGTGGCATTGATGCC	0.463													12	104					0	0	1	0	0		A	6826332	A	A	6826332	3	1	27	1	0	0	0	0	1	0	0	0	8179	1203	42	2	154	2	KIAA0232	4	6826332	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	446059	6826332	184327944	2172	24523											
KIAA0232	9778	broad.mit.edu	37	chr4	6863906	6863906	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgttcatccagctccggTgatgctgatggggagagttt	6	13	14	8	1	1	3	1	2	0	1	3	4	3	3	2	3	3	5	2	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:6863906T>C	uc003gjr.3	+	7	2260	c.1797T>C	c.(1795-1797)GGT>GGC	p.G599G	KIAA0232_uc003gjq.3_Silent_p.G599G	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	599							ATP binding			ovary(2)	2						CCAGCTCCGGTGATGCTGATG	0.517													9	113					0	0	1	0	0		C	6863906	C	C	6863906	2	2	27	1	0	0	0	0	0	0	0	1	8179	1683	59	3		3	KIAA0232	4	6863906	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37574	6863906	184290370	2173	24524											
TBC1D14	57533	broad.mit.edu	37	chr4	7011616	7011616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttttagggtggtccatatCatgacatgttgcacagtatt	9	15	9	8	0	1	1	1	1	0	0	2	1	2	1	2	2	1	3	2	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:7011616C>T	uc011bwg.1	+	10	1538	c.1459C>T	c.(1459-1461)CAT>TAT	p.H487Y	TBC1D14_uc003gjs.3_Missense_Mutation_p.H487Y|TBC1D14_uc010idh.2_Missense_Mutation_p.H207Y|TBC1D14_uc011bwh.1_Missense_Mutation_p.H134Y|TBC1D14_uc003gju.3_Intron	NM_001113361	NP_001106832	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14 isoform a	487	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			ovary(1)|pancreas(1)	2						TGGTCCATATCATGACATGTT	0.408													9	152					0	0	1	0	0		T	7011616	T	T	7011616	3	4	27	1	0	0	0	0	1	0	0	0	15628	826	29	4	1500	4	TBC1D14	4	7011616	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	147710	7011616	184142660	2174	24525											
TADA2B	93624	broad.mit.edu	37	chr4	7056629	7056629	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtccagcccgctacgtgActgtgaagactattataatt	11	12	9	9	2	0	4	0	3	0	1	1	4	1	4	2	0	2	1	2	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:7056629A>G	uc003gjw.3	+	2	1262	c.1111A>G	c.(1111-1113)ACT>GCT	p.T371A	TADA2B_uc010idi.2_Missense_Mutation_p.T296A	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	371					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0						CCGCTACGTGACTGTGAAGAC	0.512													7	80					0	0	1	0	0		G	7056629	G	G	7056629	3	3	27	1	0	0	0	0	1	0	0	0	15536	275	10	3	1117	3	TADA2B	4	7056629	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	45013	7056629	184097647	2175	24526											
GRPEL1	80273	broad.mit.edu	37	chr4	7064145	7064145	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctccaccaatttctggcTcctctgccgtaagttctcag	6	13	6	16	1	3	0	1	0	3	0	7	0	6	0	5	1	1	3	5	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:7064145T>C	uc003gjy.1	-	3	315	c.274A>G	c.(274-276)AGC>GGC	p.S92G	GRPEL1_uc003gjz.1_Missense_Mutation_p.S92G	NM_025196	NP_079472	Q9HAV7	GRPE1_HUMAN	GrpE-like 1, mitochondrial precursor	92					protein folding|protein import into mitochondrial matrix	mitochondrial matrix	adenyl-nucleotide exchange factor activity|chaperone binding|protein homodimerization activity|unfolded protein binding				0						AATTTCTGGCTCCTCTGCCGT	0.368													12	141					0	0	1	0	0		C	7064145	C	C	7064145	3	2	27	1	0	0	0	0	1	0	0	0	6822	1551	54	3	387	3	GRPEL1	4	7064145	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7516	7064145	184090131	2176	24527											
AFAP1	60312	broad.mit.edu	37	chr4	7788020	7788020	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatatgggttagcagatatAacacgcctgttcatgaaact	14	11	9	7	1	1	3	1	1	0	2	1	3	1	3	1	1	3	3	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:7788020A>G	uc003gkg.1	-	12	1704	c.1431T>C	c.(1429-1431)GTT>GTC	p.V477V	AFAP1_uc011bwk.1_Silent_p.V477V	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	477						actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						TAGCAGATATAACACGCCTGT	0.478													10	92					0	0	1	0	0		G	7788020	G	G	7788020	2	3	27	1	0	0	0	0	0	0	0	1	353	349	13	3		3	AFAP1	4	7788020	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	723875	7788020	183366256	2177	24528											
AFAP1	60312	broad.mit.edu	37	chr4	7795484	7795484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtcatagtgcagagcctccgGgtctgtggacgatcccgtct	6	10	13	12	3	3	1	1	0	2	1	5	3	5	2	3	2	2	1	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:7795484G>A	uc003gkg.1	-	11	1609	c.1336C>T	c.(1336-1338)CCG>TCG	p.P446S	AFAP1_uc011bwk.1_Missense_Mutation_p.P446S	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	446						actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						AGAGCCTCCGGGTCTGTGGAC	0.488													12	146					0	0	1	0	0		A	7795484	A	A	7795484	3	1	27	1	0	0	0	0	1	0	0	0	353	1232	43	4	1140	4	AFAP1	4	7795484	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7464	7795484	183358792	2178	24529											
AFAP1	60312	broad.mit.edu	37	chr4	7840356	7840356	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcttctttttgctgtctttCgggatgtacgtaatgttaca	6	20	8	7	2	3	0	0	0	3	0	4	1	3	1	0	1	3	4	0	1	3	8	rs144556165		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:7840356C>T	uc003gkg.1	-	6	894	c.621G>A	c.(619-621)CCG>CCA	p.P207P	AFAP1_uc011bwk.1_Silent_p.P207P	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	207	PH 1.					actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						TGCTGTCTTTCGGGATGTACG	0.512													21	100					0	0	1	0	0		T	7840356	T	T	7840356	2	4	27	1	0	0	0	0	0	0	0	1	353	871	31	1		1	AFAP1	4	7840356	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	44872	7840356	183313920	2179	24530											
SH3TC1	54436	broad.mit.edu	37	chr4	8229166	8229166	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtcccaggcccgggtgtActttgaggaagcgctggggg	5	8	18	10	2	0	1	0	1	0	0	1	2	1	2	2	5	2	3	2	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:8229166A>T	uc003gkv.3	+	12	1846	c.1745A>T	c.(1744-1746)TAC>TTC	p.Y582F	SH3TC1_uc003gkw.3_Missense_Mutation_p.Y506F|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	582	TPR 1.						binding			large_intestine(2)|pancreas(1)	3						GCCCGGGTGTACTTTGAGGAA	0.652													7	105					0	0	1	0	0		T	8229166	T	T	8229166	3	4	27	1	0	0	0	0	1	0	0	0	14286	391	14	5	1787	5	SH3TC1	4	8229166	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	388810	8229166	182925110	2180	24531											
SH3TC1	54436	broad.mit.edu	37	chr4	8229515	8229515	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttttgcacagggactcGggagccccagaggccgcgtg	6	7	15	13	3	0	1	0	0	0	1	1	3	0	3	3	3	3	2	3	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:8229515G>A	uc003gkv.3	+	12	2195	c.2094G>A	c.(2092-2094)TCG>TCA	p.S698S	SH3TC1_uc003gkw.3_Silent_p.S622S|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	698	TPR 3.						binding			large_intestine(2)|pancreas(1)	3						ACAGGGACTCGGGAGCCCCAG	0.662													9	29					0	0	1	0	0		A	8229515	A	A	8229515	2	1	27	1	0	0	0	0	0	0	0	1	14286	1103	39	1		1	SH3TC1	4	8229515	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	349	8229515	182924761	2181	24532											
SH3TC1	54436	broad.mit.edu	37	chr4	8233870	8233870	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccagctctacctgtccCtgggcaccgagcggtgaggg	6	7	14	14	2	2	1	1	1	1	0	3	2	3	1	4	3	4	2	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:8233870C>A	uc003gkv.3	+	13	3219	c.3118C>A	c.(3118-3120)CTG>ATG	p.L1040M	SH3TC1_uc003gkw.3_Missense_Mutation_p.L964M|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_RNA	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	1040	TPR 7.						binding			large_intestine(2)|pancreas(1)	3						CTACCTGTCCCTGGGCACCGA	0.493													6	21					3.59834e-05	3.83694e-05	1	1	0		A	8233870	A	A	8233870	3	1	27	1	0	0	0	0	1	0	0	0	14286	680	24	5	3164	5	SH3TC1	4	8233870	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4355	8233870	182920406	2182	24533											
HTRA3	94031	broad.mit.edu	37	chr4	8271808	8271808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcgcggtgtcccagcccccGctgccccggcggctacgtgc	2	6	14	19	6	0	0	0	0	0	0	2	0	1	0	5	3	4	2	5	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:8271808G>A	uc003gla.2	+	1	317	c.113G>A	c.(112-114)CGC>CAC	p.R38H	HTRA3_uc003gkz.2_Missense_Mutation_p.R38H	NM_053044	NP_444272	P83110	HTRA3_HUMAN	HtrA serine peptidase 3 precursor	38	IGFBP N-terminal.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity			ovary(1)	1						CCCAGCCCCCGCTGCCCCGGC	0.786													3	9					0	0	1	0	0		A	8271808	A	A	8271808	3	1	27	1	0	0	0	0	1	0	0	0	7471	1087	38	1	115	1	HTRA3	4	8271808	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	37938	8271808	182882468	2183	24534											
HTRA3	94031	broad.mit.edu	37	chr4	8307843	8307843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgacctcctcttcagcatcGcacctgaggtggtcatgtga	8	10	10	13	2	3	2	2	2	1	0	5	3	4	2	3	2	1	2	3	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:8307843G>A	uc003gla.2	+	9	1546	c.1342G>A	c.(1342-1344)GCA>ACA	p.A448T		NM_053044	NP_444272	P83110	HTRA3_HUMAN	HtrA serine peptidase 3 precursor	448					proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity			ovary(1)	1						CTTCAGCATCGCACCTGAGGT	0.647													8	24					0	0	1	0	0		A	8307843	A	A	8307843	3	1	27	1	0	0	0	0	1	0	0	0	7471	1087	38	1	1376	1	HTRA3	4	8307843	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	36035	8307843	182846433	2184	24535											
ZNF518B	85460	broad.mit.edu	37	chr4	10447359	10447359	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atataatcatttctaatagcAccatagtcacaatactcaca	17	12	2	10	0	4	0	3	0	1	0	4	0	4	0	1	0	2	1	1	0	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:10447359A>G	uc003gmn.2	-	3	1081	c.594T>C	c.(592-594)GGT>GGC	p.G198G		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	198	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						TTCTAATAGCACCATAGTCAC	0.428													13	151					0	0	1	0	0		G	10447359	G	G	10447359	2	3	27	1	0	0	0	0	0	0	0	1	17988	146	6	3		3	ZNF518B	4	10447359	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2139516	10447359	180706917	2185	24536											
BOD1L	259282	broad.mit.edu	37	chr4	13590398	13590398	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatggcttctgcgttgtctTttctaccactggatatctct	5	19	7	10	1	4	0	0	0	4	0	5	1	4	1	1	2	2	2	1	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:13590398T>C	uc003gmz.1	-	15	8345	c.8228A>G	c.(8227-8229)AAA>AGA	p.K2743R		NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2743							DNA binding			ovary(5)|breast(1)	6						TGCGTTGTCTTTTCTACCACT	0.289													4	19					0	0	1	0	0		C	13590398	C	C	13590398	3	2	27	1	0	0	0	0	1	0	0	0	1484	1841	64	3	975	3	BOD1L	4	13590398	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3143039	13590398	177563878	2186	24537											
BOD1L	259282	broad.mit.edu	37	chr4	13603610	13603610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgctatttacattggcttcGattttaactgcatgcacagc	10	14	7	10	2	0	0	0	0	0	0	1	1	0	0	0	1	5	4	0	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:13603610G>A	uc003gmz.1	-	10	5031	c.4914C>T	c.(4912-4914)ATC>ATT	p.I1638I	BOD1L_uc010idr.1_Silent_p.I975I	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1638							DNA binding			ovary(5)|breast(1)	6						CATTGGCTTCGATTTTAACTG	0.473													47	208					0	0	1	0	0		A	13603610	A	A	13603610	2	1	27	1	0	0	0	0	0	0	0	1	1484	1048	37	1		1	BOD1L	4	13603610	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13212	13603610	177550666	2187	24538											
BOD1L	259282	broad.mit.edu	37	chr4	13616982	13616982	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctcatcatcgggagctgtGttgccacttccttcctcttt	4	17	7	13	1	3	0	2	0	2	0	7	1	5	1	3	1	2	2	3	1	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:13616982G>A	uc003gmz.1	-	3	630	c.513C>T	c.(511-513)AAC>AAT	p.N171N	BOD1L_uc010idr.1_5'UTR|BOD1L_uc010ids.1_RNA	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	171							DNA binding			ovary(5)|breast(1)	6						CGGGAGCTGTGTTGCCACTTC	0.433													7	235					0	0	1	0	0		A	13616982	A	A	13616982	2	1	27	1	0	0	0	0	0	0	0	1	1484	1368	48	4		4	BOD1L	4	13616982	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13372	13616982	177537294	2188	24539											
CPEB2	132864	broad.mit.edu	37	chr4	15018811	15018811	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttttcctcttctcttccaGgatcgaagtagaatgtatga	9	17	7	8	1	2	2	0	1	2	1	6	4	4	3	2	1	0	2	2	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:15018811G>A	uc003gni.1	+	4	811	c.724_splice	c.e4-1	p.D242_splice	CPEB2_uc003gnj.1_Splice_Site_p.D212_splice|CPEB2_uc003gnk.1_Splice_Site_p.D242_splice|CPEB2_uc003gnl.1_Splice_Site_p.D215_splice|CPEB2_uc003gnm.1_Splice_Site_p.D212_splice|CPEB2_uc003gnn.1_Splice_Site_p.D215_splice	NM_182485	NP_872291	Q7Z5Q1	CPEB2_HUMAN	cytoplasmic polyadenylation element binding						regulation of translation	cytoplasm	nucleotide binding|RNA binding			skin(1)	1						TTCTCTTCCAGGATCGAAGTA	0.338													5	55					0	0	1	0	0		A	15018811	A	A	15018811	5	1	27	1	0	0	0	0	0	0	1	0	3804	1014	35	4	2057	4	CPEB2	4	15018811	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1401829	15018811	176135465	2189	24540											
FBXL5	26234	broad.mit.edu	37	chr4	15614035	15614035	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccctcctcccagagtcaaaAccctgtaagaaaaataattt	15	9	5	12	0	1	2	1	0	0	2	3	2	3	2	4	0	1	1	4	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:15614035A>C	uc003goc.1	-	10	1956	c.1853T>G	c.(1852-1854)GTT>GGT	p.V618G	FBXL5_uc010idw.1_Missense_Mutation_p.V531G|FBXL5_uc003gob.1_Missense_Mutation_p.V492G|FBXL5_uc010idx.1_Missense_Mutation_p.V617G|FBXL5_uc003god.1_Missense_Mutation_p.V601G|FBXL5_uc010idy.1_Missense_Mutation_p.V618G	NM_012161	NP_036293	Q9UKA1	FBXL5_HUMAN	F-box and leucine-rich repeat protein 5 isoform	618	LRR 6.				iron ion homeostasis|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|SCF ubiquitin ligase complex	iron ion binding|protein binding|ubiquitin-protein ligase activity				0						CAGAGTCAAAACCCTGTAAGA	0.368													4	46					0	0	1	0	0		C	15614035	C	C	15614035	3	2	27	1	0	0	0	0	1	0	0	0	5736	43	2	5	230	5	FBXL5	4	15614035	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	595224	15614035	175540241	2190	24541											
FGFBP2	83888	broad.mit.edu	37	chr4	15964674	15964674	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattcctccccagtgcttcCttgcttttgcctcggggcct	3	14	9	15	1	0	0	0	0	0	0	4	1	3	0	6	2	3	2	6	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:15964674C>A	uc003gon.2	-	1	186	c.79G>T	c.(79-81)GGA>TGA	p.G27*		NM_031950	NP_114156	Q9BYJ0	FGFP2_HUMAN	killer-specific secretory protein of 37 kDa	27						extracellular space	growth factor binding				0						CCAGTGCTTCCTTGCTTTTGC	0.577													6	69					0.000157383	0.000166242	1	1	0		A	15964674	A	A	15964674	4	1	27	1	0	0	0	0	0	1	0	0	5875	690	24	5	596	5	FGFBP2	4	15964674	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	350639	15964674	175189602	2191	24542											
PROM1	8842	broad.mit.edu	37	chr4	15994012	15994012	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcactgcttatgcttccagtAtgctgcgaaaaaaggaagtt	12	12	9	8	1	1	0	1	0	0	0	2	2	2	1	1	1	4	5	1	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:15994012A>G	uc003goo.2	-	16	1982	c.1770T>C	c.(1768-1770)CAT>CAC	p.H590H	PROM1_uc003gor.2_Silent_p.H590H|PROM1_uc003gos.2_Silent_p.H581H|PROM1_uc003got.2_Silent_p.H590H|PROM1_uc003gou.2_Silent_p.H581H|PROM1_uc003gop.2_Silent_p.H581H|PROM1_uc003goq.3_Silent_p.H581H	NM_006017	NP_006008	O43490	PROM1_HUMAN	prominin 1 isoform 1	590	Extracellular (Potential).				camera-type eye photoreceptor cell differentiation|photoreceptor cell maintenance|retina layer formation	apical plasma membrane|cell surface|integral to plasma membrane|microvillus membrane|photoreceptor outer segment membrane|plasma membrane	beta-actinin binding|cadherin binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	7						TGCTTCCAGTATGCTGCGAAA	0.333													6	73					0	0	1	0	0		G	15994012	G	G	15994012	2	3	27	1	0	0	0	0	0	0	0	1	12577	446	16	3		3	PROM1	4	15994012	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	29338	15994012	175160264	2192	24543											
TAPT1	202018	broad.mit.edu	37	chr4	16188435	16188435	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgatagtaagcaaagacTtgttgtgtgagttaaaagct	14	13	10	4	0	1	3	1	2	0	1	1	3	1	3	0	0	2	5	0	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:16188435T>C	uc010ied.1	-	6	896	c.815A>G	c.(814-816)AAG>AGG	p.K272R	TAPT1_uc011bxd.1_Intron|TAPT1_uc011bxe.1_Missense_Mutation_p.K161R	NM_153365	NP_699196	Q6NXT6	TAPT1_HUMAN	transmembrane anterior posterior transformation	272						integral to membrane	growth hormone-releasing hormone receptor activity				0						AAGCAAAGACTTGTTGTGTGA	0.328													7	67					0	0	1	0	0		C	16188435	C	C	16188435	3	2	27	1	0	0	0	0	1	0	0	0	15579	1609	56	3	924	3	TAPT1	4	16188435	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	194423	16188435	174965841	2193	24544											
LDB2	9079	broad.mit.edu	37	chr4	16504355	16504355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggctgttgttccccagcgCgggtgaattgttgaagtcct	5	12	14	10	3	0	2	0	2	0	0	2	2	2	2	3	2	1	4	3	2	2	4	rs138614817		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:16504355C>T	uc003goz.2	-	8	1349	c.1033G>A	c.(1033-1035)GCG>ACG	p.A345T	LDB2_uc003gpa.2_3'UTR|LDB2_uc003gpb.2_Missense_Mutation_p.A343T|LDB2_uc011bxh.1_Missense_Mutation_p.A317T|LDB2_uc010iee.2_3'UTR|LDB2_uc003goy.2_Missense_Mutation_p.A220T|LDB2_uc011bxi.1_3'UTR	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	345							LIM domain binding|transcription cofactor activity				0						TTCCCCAGCGCGGGTGAATTG	0.532													47	163					0	0	1	0	0		T	16504355	T	T	16504355	3	4	27	1	0	0	0	0	1	0	0	0	8712	768	27	1	92	1	LDB2	4	16504355	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	315920	16504355	174649921	2194	24545											
DCAF16	54876	broad.mit.edu	37	chr4	17805232	17805232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttagtcagccagccacagCaacacccagaaacacatgaa	16	6	6	13	0	1	2	1	1	0	1	1	2	1	2	3	0	5	1	3	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:17805232C>T	uc003gpn.2	-	3	1594	c.533G>A	c.(532-534)TGC>TAC	p.C178Y	DCAF16_uc003gpo.2_RNA	NM_017741	NP_060211	Q9NXF7	DCA16_HUMAN	DDB1 and CUL4 associated factor 16	178						CUL4 RING ubiquitin ligase complex				ovary(1)	1						CCAGCCACAGCAACACCCAGA	0.428													11	81					0	0	1	0	0		T	17805232	T	T	17805232	3	4	27	1	0	0	0	0	1	0	0	0	4271	710	25	2	121	2	DCAF16	4	17805232	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1300877	17805232	173349044	2195	24546											
DCAF16	54876	broad.mit.edu	37	chr4	17805389	17805389	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgggacttgtaagaggctTttgaaaaggtgggactccac	10	10	14	7	0	0	2	0	1	0	1	1	4	1	4	1	4	0	3	1	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:17805389T>C	uc003gpn.2	-	3	1437	c.376A>G	c.(376-378)AAG>GAG	p.K126E	DCAF16_uc003gpo.2_RNA	NM_017741	NP_060211	Q9NXF7	DCA16_HUMAN	DDB1 and CUL4 associated factor 16	126						CUL4 RING ubiquitin ligase complex				ovary(1)	1						GTAAGAGGCTTTTGAAAAGGT	0.502													19	177					0	0	1	0	0		C	17805389	C	C	17805389	3	2	27	1	0	0	0	0	1	0	0	0	4271	1850	64	3	278	3	DCAF16	4	17805389	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	157	17805389	173348887	2196	24547											
SLIT2	9353	broad.mit.edu	37	chr4	20521008	20521008	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	taaaatatttttttcagtgtCctctatggaaataaaatcac	15	16	4	6	0	3	0	2	0	1	0	4	1	4	1	1	1	0	0	1	1	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:20521008C>T	uc003gpr.1	+	12	1266	c.1062C>T	c.(1060-1062)GTC>GTT	p.V354V	SLIT2_uc003gps.1_Silent_p.V354V	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	354	LRR 9.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						ttttCAGTGTCCTCTATGGAA	0.328													11	37					0	0	1	0	0		T	20521008	T	T	20521008	2	4	27	1	0	0	0	0	0	0	0	1	14765	842	30	4		4	SLIT2	4	20521008	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2715619	20521008	170633268	2197	24548											
SLIT2	9353	broad.mit.edu	37	chr4	20525792	20525792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcaaaagcaagaaattccGttgttcaggtaatttcttca	14	13	7	7	1	4	1	3	0	1	1	5	2	5	1	1	1	1	4	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:20525792G>A	uc003gpr.1	+	14	1634	c.1430G>A	c.(1429-1431)CGT>CAT	p.R477H	SLIT2_uc003gps.1_Missense_Mutation_p.R477H	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	477	LRRCT 2.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						AAGAAATTCCGTTGTTCAGGT	0.478													11	91					0	0	1	0	0		A	20525792	A	A	20525792	3	1	27	1	0	0	0	0	1	0	0	0	14765	1145	40	1	1484	1	SLIT2	4	20525792	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4784	20525792	170628484	2198	24549											
SLIT2	9353	broad.mit.edu	37	chr4	20597443	20597443	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacggctatacgtgcatatgCcccgaaggttacaggtaaaa	14	8	10	9	3	0	0	0	0	0	0	0	1	0	0	2	3	5	4	2	3	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:20597443C>T	uc003gpr.1	+	31	3510	c.3306C>T	c.(3304-3306)TGC>TGT	p.C1102C	SLIT2_uc003gps.1_Silent_p.C1094C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1102	EGF-like 5; calcium-binding (Potential).				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CGTGCATATGCCCCGAAGGTT	0.303													4	86					0	0	1	0	0		T	20597443	T	T	20597443	2	4	27	1	0	0	0	0	0	0	0	1	14765	747	26	2		2	SLIT2	4	20597443	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	71651	20597443	170556833	2199	24550											
PACRGL	133015	broad.mit.edu	37	chr4	20711339	20711339	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtaaaacacagattacaGtgggaatgtcctcctgaaag	15	9	9	8	0	1	2	1	1	0	1	3	3	3	3	2	1	2	1	2	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:20711339G>A	uc010iek.2	+	5	700	c.309G>A	c.(307-309)CAG>CAA	p.Q103Q	PACRGL_uc003gpu.2_RNA|PACRGL_uc010iei.1_Silent_p.Q151Q|PACRGL_uc003gpz.2_Silent_p.Q103Q|PACRGL_uc011bxm.1_Intron|PACRGL_uc003gqa.2_Intron|PACRGL_uc003gpx.3_RNA|PACRGL_uc003gpv.2_Silent_p.Q103Q|PACRGL_uc003gpw.2_RNA|PACRGL_uc010iej.1_RNA|PACRGL_uc011bxn.1_Intron|PACRGL_uc003gpy.2_Intron	NM_145048	NP_659485	Q8N7B6	PACRL_HUMAN	PARK2 co-regulated-like isoform 1	103							binding				0						ACAGATTACAGTGGGAATGTC	0.294													5	92					0	0	1	0	0		A	20711339	A	A	20711339	2	1	27	1	0	0	0	0	0	0	0	1	11390	1020	36	4		4	PACRGL	4	20711339	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	113896	20711339	170442937	2200	24551											
KCNIP4	80333	broad.mit.edu	37	chr4	20734355	20734355	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcttctttgaggacaggAtatgtacatttacccatcat	11	14	7	9	0	3	1	1	1	2	0	3	3	3	3	1	2	2	2	1	2	3	6	rs141959590	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:20734355A>T	uc003gqe.2	-	6	624	c.540T>A	c.(538-540)TAT>TAA	p.Y180*	KCNIP4_uc003gqf.1_Nonsense_Mutation_p.Y176*|KCNIP4_uc003gqg.1_Nonsense_Mutation_p.Y135*|KCNIP4_uc003gqh.1_Nonsense_Mutation_p.Y172*|KCNIP4_uc003gqi.1_Nonsense_Mutation_p.Y135*|PACRGL_uc003gpu.2_Intron|PACRGL_uc003gpx.3_Intron|PACRGL_uc003gpw.2_Intron|KCNIP4_uc010iel.2_Nonsense_Mutation_p.Y177*|KCNIP4_uc003gqd.3_Nonsense_Mutation_p.Y160*	NM_147182	NP_671711	Q6PIL6	KCIP4_HUMAN	Kv channel interacting protein 4 isoform 3	197						plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)				TGAGGACAGGATATGTACATT	0.368													4	57					0	0	1	0	0		T	20734355	T	T	20734355	4	4	27	1	0	0	0	0	0	1	0	0	8058	340	12	5	173	5	KCNIP4	4	20734355	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	23016	20734355	170419921	2201	24552											
GPR125	166647	broad.mit.edu	37	chr4	22463404	22463404	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaaggcacctggatctatActactaataagattgtttcg	13	12	8	8	1	1	2	0	0	1	2	2	3	1	3	1	2	2	2	1	2	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:22463404A>G	uc003gqm.1	-	3	622	c.357T>C	c.(355-357)AGT>AGC	p.S119S	GPR125_uc003gqo.2_Silent_p.S119S	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	119	Extracellular (Potential).|LRR 2.				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				CTGGATCTATACTACTAATAA	0.348													10	85					0	0	1	0	0		G	22463404	G	G	22463404	2	3	27	1	0	0	0	0	0	0	0	1	6654	388	14	3		3	GPR125	4	22463404	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1729049	22463404	168690872	2202	24553											
GBA3	57733	broad.mit.edu	37	chr4	22737695	22737695	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaagaaccagactggcgaTgtagcttgtggcagctacac	11	9	11	10	1	1	2	1	0	0	2	1	3	1	2	1	2	4	4	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:22737695T>C	uc003gqp.3	+	2	241	c.150T>C	c.(148-150)GAT>GAC	p.D50D	GBA3_uc010iep.2_Silent_p.D50D|GBA3_uc011bxo.1_Silent_p.D51D	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	50					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						AGACTGGCGATGTAGCTTGTG	0.478													14	102					0	0	1	0	0		C	22737695	C	C	22737695	2	2	27	1	0	0	0	0	0	0	0	1	6283	1461	51	3		3	GBA3	4	22737695	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	274291	22737695	168416581	2203	24554											
DHX15	1665	broad.mit.edu	37	chr4	24550530	24550530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggtggaggctcaaaaatgCgttgctgctgctgaggtgga	9	9	17	6	1	1	1	1	1	0	0	1	4	1	3	0	5	4	5	0	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:24550530C>T	uc003gqx.2	-	6	1364	c.1196G>A	c.(1195-1197)CGC>CAC	p.R399H		NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	399	Helicase C-terminal.				mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				CTCAAAAATGCGTTGCTGCTG	0.363													6	47					0	0	1	0	0		T	24550530	T	T	24550530	3	4	27	1	0	0	0	0	1	0	0	0	4507	768	27	1	1227	1	DHX15	4	24550530	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1812835	24550530	166603746	2204	24555											
DHX15	1665	broad.mit.edu	37	chr4	24556472	24556472	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggagtatagaagatctcaAcaggatgtgtacgcccagga	13	8	12	8	1	1	2	1	0	1	2	2	5	1	5	1	3	2	2	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:24556472A>G	uc003gqx.2	-	5	1124	c.956T>C	c.(955-957)GTT>GCT	p.V319A		NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	319					mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				GAAGATCTCAACAGGATGTGT	0.403													14	107					0	0	1	0	0		G	24556472	G	G	24556472	3	3	27	1	0	0	0	0	1	0	0	0	4507	43	2	3	1471	3	DHX15	4	24556472	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5942	24556472	166597804	2205	24556											
SEPSECS	51091	broad.mit.edu	37	chr4	25146678	25146678	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatcattaaagccagcaatTatagcaccacctactggaac	16	8	6	11	0	1	0	1	0	0	0	1	2	1	1	3	1	5	2	3	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:25146678T>C	uc003grg.2	-	7	1095	c.882A>G	c.(880-882)ATA>ATG	p.I294M	SEPSECS_uc003gri.2_Missense_Mutation_p.I293M|SEPSECS_uc003grh.2_Missense_Mutation_p.I215M	NM_153825	NP_722547	Q9HD40	SPCS_HUMAN	Sep (O-phosphoserine) tRNA:Sec (selenocysteine)	294					selenocysteine incorporation	cytoplasm|nucleus	pyridoxal phosphate binding|transferase activity, transferring selenium-containing groups|tRNA binding				0		Breast(46;0.173)			Pyridoxal Phosphate(DB00114)	AGCCAGCAATTATAGCACCAC	0.343													12	64					0	0	1	0	0		C	25146678	C	C	25146678	3	2	27	1	0	0	0	0	1	0	0	0	14083	1744	61	3	643	3	SEPSECS	4	25146678	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	590206	25146678	166007598	2206	24557											
STIM2	57620	broad.mit.edu	37	chr4	27010471	27010471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatctgtggctttcagataGcccataactcaggactcccc	10	10	8	13	0	3	2	2	0	1	2	4	3	4	3	3	2	2	1	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:27010471G>A	uc003gsh.3	+	11	1837	c.1621G>A	c.(1621-1623)GCC>ACC	p.A541T	STIM2_uc003gsg.3_Missense_Mutation_p.A533T|STIM2_uc010iex.2_Missense_Mutation_p.A533T|STIM2_uc010iey.2_Missense_Mutation_p.A157T	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2	446	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)				CTTTCAGATAGCCCATAACTC	0.478													10	67					0	0	1	0	0		A	27010471	A	A	27010471	3	1	27	1	0	0	0	0	1	0	0	0	15309	971	34	2	1402	2	STIM2	4	27010471	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1863793	27010471	164143805	2207	24558											
PCDH7	5099	broad.mit.edu	37	chr4	30725086	30725086	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcctgtacatagaggagaAcaataacattttttctattg	14	13	8	6	0	1	2	0	0	1	2	1	4	1	2	1	1	4	1	1	1	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:30725086A>G	uc003gsk.1	+	1	3050	c.2042A>G	c.(2041-2043)AAC>AGC	p.N681S	PCDH7_uc011bxw.1_Missense_Mutation_p.N634S|PCDH7_uc011bxx.1_Missense_Mutation_p.N681S	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	681	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						ATAGAGGAGAACAATAACATT	0.468													15	123					0	0	1	0	0		G	30725086	G	G	30725086	3	3	27	1	0	0	0	0	1	0	0	0	11535	43	2	3	2044	3	PCDH7	4	30725086	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3714615	30725086	160429190	2208	24559											
ARAP2	116984	broad.mit.edu	37	chr4	36109300	36109300	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctccagtacattttccttgTagtgaagaggacgctctgta	9	13	10	9	1	1	2	0	1	1	1	3	3	3	3	2	1	1	5	2	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:36109300T>C	uc003gsq.1	-	27	4510	c.4172A>G	c.(4171-4173)TAC>TGC	p.Y1391C		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1391	Ras-associating.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						ATTTTCCTTGTAGTGAAGAGG	0.343													8	115					0	0	1	0	0		C	36109300	C	C	36109300	3	2	27	1	0	0	0	0	1	0	0	0	839	1638	57	3	970	3	ARAP2	4	36109300	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5384214	36109300	155044976	2209	24560											
ARAP2	116984	broad.mit.edu	37	chr4	36149198	36149198	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtcttcttaagtgcatTctatctccctgaacttcttg	7	17	6	11	0	5	1	0	1	5	0	6	1	5	1	1	0	3	2	1	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:36149198T>A	uc003gsq.1	-	18	3509	c.3171A>T	c.(3169-3171)AGA>AGT	p.R1057S		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1057	PH 4.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TTAAGTGCATTCTATCTCCCT	0.398													4	45					0	0	1	0	0		A	36149198	A	A	36149198	3	1	27	1	0	0	0	0	1	0	0	0	839	1780	62	5	2007	5	ARAP2	4	36149198	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	39898	36149198	155005078	2210	24561											
ARAP2	116984	broad.mit.edu	37	chr4	36161111	36161111	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagaacatccggtttcactAcagcagcacatagagcctgg	12	8	9	12	1	1	2	1	0	0	2	2	2	2	2	2	2	5	3	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:36161111A>G	uc003gsq.1	-	14	2797	c.2459T>C	c.(2458-2460)GTA>GCA	p.V820A		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	820					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						CGGTTTCACTACAGCAGCACA	0.408													7	83					0	0	1	0	0		G	36161111	G	G	36161111	3	3	27	1	0	0	0	0	1	0	0	0	839	391	14	3	2735	3	ARAP2	4	36161111	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11913	36161111	154993165	2211	24562											
TBC1D1	23216	broad.mit.edu	37	chr4	38138948	38138948	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcacgcagcccgagcccacgGgcgactgacagctctgcagg	8	3	14	16	4	1	1	0	1	1	0	1	3	1	1	2	2	4	4	2	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:38138948G>T	uc003gtb.2	+	20	3842	c.3499G>T	c.(3499-3501)GGC>TGC	p.G1167C	TBC1D1_uc011byd.1_Missense_Mutation_p.G1158C|TBC1D1_uc010ifd.2_Missense_Mutation_p.G954C|TBC1D1_uc003gtd.2_Missense_Mutation_p.G179C	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	1167						nucleus	Rab GTPase activator activity			ovary(1)	1						CGAGCCCACGGGCGACTGACA	0.662													4	22					0.150653	0.151846	1	1	0		T	38138948	T	T	38138948	3	4	27	1	0	0	0	0	1	0	0	0	15622	1232	43	5	3573	5	TBC1D1	4	38138948	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1977837	38138948	153015328	2212	24563											
TLR10	81793	broad.mit.edu	37	chr4	38776589	38776589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagtcttgattccatcaCgcaaaagaacccagaaattt	15	11	6	9	1	2	4	1	2	1	2	3	4	3	4	2	0	1	1	2	0	5	4	rs147715812		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:38776589C>T	uc003gti.2	-	2	1002	c.623G>A	c.(622-624)CGT>CAT	p.R208H	TLR10_uc003gtj.2_Missense_Mutation_p.R208H|TLR10_uc003gtk.2_Missense_Mutation_p.R208H	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	208	Extracellular (Potential).				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						GATTCCATCACGCAAAAGAAC	0.333													10	61					0	0	1	0	0		T	38776589	T	T	38776589	3	4	27	1	0	0	0	0	1	0	0	0	15975	536	19	1	1816	1	TLR10	4	38776589	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	637641	38776589	152377687	2213	24564											
TLR1	7096	broad.mit.edu	37	chr4	38798650	38798650	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggcagatccaagtagctGcagagggaggtcacagtcac	12	5	14	10	0	2	2	2	0	0	2	3	3	3	3	1	3	2	4	1	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:38798650G>A	uc003gtl.2	-	4	2077	c.1803C>T	c.(1801-1803)TGC>TGT	p.C601C		NM_003263	NP_003254	Q15399	TLR1_HUMAN	toll-like receptor 1 precursor	601	Helical; (Potential).				cellular response to triacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|inflammatory response|innate immune response|macrophage activation|positive regulation of interleukin-6 biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	integral to plasma membrane|phagocytic vesicle membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	protein heterodimerization activity|transmembrane receptor activity			lung(2)|skin(2)|prostate(1)	5						CCAAGTAGCTGCAGAGGGAGG	0.527													9	85					0	0	1	0	0		A	38798650	A	A	38798650	2	1	27	1	0	0	0	0	0	0	0	1	15974	1311	46	2		2	TLR1	4	38798650	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	22061	38798650	152355626	2214	24565											
TLR1	7096	broad.mit.edu	37	chr4	38798749	38798749	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcagacatgtgaaagtcCtttagtagggttcctctata	12	14	8	7	0	2	2	1	1	1	1	4	2	4	2	2	1	0	2	2	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:38798749C>A	uc003gtl.2	-	4	1978	c.1704G>T	c.(1702-1704)AAG>AAT	p.K568N		NM_003263	NP_003254	Q15399	TLR1_HUMAN	toll-like receptor 1 precursor	568	Extracellular (Potential).|LRRCT.				cellular response to triacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|inflammatory response|innate immune response|macrophage activation|positive regulation of interleukin-6 biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	integral to plasma membrane|phagocytic vesicle membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	protein heterodimerization activity|transmembrane receptor activity			lung(2)|skin(2)|prostate(1)	5						TGTGAAAGTCCTTTAGTAGGG	0.448													9	143					3.09899e-07	3.3784e-07	1	1	0		A	38798749	A	A	38798749	3	1	27	1	0	0	0	0	1	0	0	0	15974	680	24	5	660	5	TLR1	4	38798749	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	99	38798749	152355527	2215	24566											
TLR6	10333	broad.mit.edu	37	chr4	38830867	38830867	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctcaaaactgtcaactcTgatagaaagctcatgtcaga	15	10	7	9	0	5	3	4	1	2	2	6	3	5	3	0	0	3	1	0	0	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:38830867T>C	uc003gtm.2	-	1	294	c.228A>G	c.(226-228)TCA>TCG	p.S76S	TLR6_uc010ifg.1_Silent_p.S76S	NM_006068	NP_006059	Q9Y2C9	TLR6_HUMAN	toll-like receptor 6 precursor	76	Extracellular (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to diacyl bacterial lipopeptide|defense response to bacterium|detection of diacyl bacterial lipopeptide|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-6 biosynthetic process|positive regulation of JUN kinase activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	integral to plasma membrane|phagocytic vesicle membrane	lipopeptide binding|transmembrane receptor activity			ovary(2)	2						CTGTCAACTCTGATAGAAAGC	0.368													3	60					0	0	1	0	0		C	38830867	C	C	38830867	2	2	27	1	0	0	0	0	0	0	0	1	15980	1567	55	3		3	TLR6	4	38830867	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	32118	38830867	152323409	2216	24567											
KLHL5	51088	broad.mit.edu	37	chr4	39064525	39064525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attcaccttcttggccaatgGcatccacctctgaagtccct	8	12	6	15	0	3	1	1	1	2	0	5	1	5	1	5	2	0	1	5	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:39064525G>A	uc003gts.2	+	1	466	c.391G>A	c.(391-393)GCA>ACA	p.A131T	KLHL5_uc003gtp.2_Missense_Mutation_p.A85T|KLHL5_uc003gtq.2_Intron|KLHL5_uc003gtr.1_Missense_Mutation_p.A131T|KLHL5_uc003gtt.2_Missense_Mutation_p.A131T	NM_015990	NP_057074	Q96PQ7	KLHL5_HUMAN	kelch-like 5 isoform 1	131						cytoplasm|cytoskeleton	actin binding			ovary(1)	1						TTGGCCAATGGCATCCACCTC	0.458													37	87					0	0	1	0	0		A	39064525	A	A	39064525	3	1	27	1	0	0	0	0	1	0	0	0	8408	1203	42	2	393	2	KLHL5	4	39064525	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	233658	39064525	152089751	2217	24568											
KLHL5	51088	broad.mit.edu	37	chr4	39083781	39083781	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctcacaattatactatggTatgtattttttgaaggtgag	11	16	10	4	0	1	2	1	2	0	0	1	2	1	2	0	3	1	3	0	3	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:39083781T>C	uc003gts.2	+	4	1113	c.1038_splice	c.e4+2	p.M346_splice	KLHL5_uc003gtp.2_Splice_Site_p.M300_splice|KLHL5_uc003gtq.2_Splice_Site_p.M159_splice|KLHL5_uc003gtr.1_Splice_Site_p.M346_splice|KLHL5_uc003gtt.2_Splice_Site_p.M285_splice	NM_015990	NP_057074	Q96PQ7	KLHL5_HUMAN	kelch-like 5 isoform 1							cytoplasm|cytoskeleton	actin binding			ovary(1)	1						TATACTATGGTATGTATTTTT	0.398													14	136					0	0	1	0	0		C	39083781	C	C	39083781	5	2	27	1	0	0	0	0	0	0	1	0	8408	1652	57	3	1054	3	KLHL5	4	39083781	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	19256	39083781	152070495	2218	24569											
RFC1	5981	broad.mit.edu	37	chr4	39297264	39297264	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgcaaggccaggtcctgaAcaatacgatcatgtttgcct	11	11	9	10	1	1	1	1	1	0	0	2	2	2	1	3	2	4	2	3	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:39297264A>G	uc003gty.1	-	22	3061	c.2927T>C	c.(2926-2928)GTT>GCT	p.V976A	RFC1_uc003gtx.1_Missense_Mutation_p.V975A	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit	976					DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4						CAGGTCCTGAACAATACGATC	0.478													9	68					0	0	1	0	0		G	39297264	G	G	39297264	3	3	27	1	0	0	0	0	1	0	0	0	13269	43	2	3	535	3	RFC1	4	39297264	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	213483	39297264	151857012	2219	24570											
PDS5A	23244	broad.mit.edu	37	chr4	39843614	39843614	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacaggtgtgactgaaataAtcctcacagggttctcttca	11	13	8	9	0	3	2	2	2	1	0	5	2	4	2	1	2	1	1	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:39843614A>C	uc003guv.3	-	31	4151	c.3611T>G	c.(3610-3612)ATT>AGT	p.I1204S	PDS5A_uc010ifo.2_Missense_Mutation_p.I1164S	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1204					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						GACTGAAATAATCCTCACAGG	0.328													8	64					0	0	1	0	0		C	39843614	C	C	39843614	3	2	27	1	0	0	0	0	1	0	0	0	11710	101	4	5	414	5	PDS5A	4	39843614	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	546350	39843614	151310662	2220	24571											
PDS5A	23244	broad.mit.edu	37	chr4	39863914	39863914	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggctagcaggtgaatcatgTatggaactacatattcaggc	12	10	12	7	0	2	1	2	1	0	0	2	2	2	2	0	4	3	3	0	4	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:39863914T>C	uc003guv.3	-	26	3551	c.3011A>G	c.(3010-3012)TAC>TGC	p.Y1004C	PDS5A_uc010ifo.2_Missense_Mutation_p.Y964C	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1004					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						GTGAATCATGTATGGAACTAC	0.333													2	6					0	0	1	0	0		C	39863914	C	C	39863914	3	2	27	1	0	0	0	0	1	0	0	0	11710	1638	57	3	1034	3	PDS5A	4	39863914	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20300	39863914	151290362	2221	24572											
N4BP2	55728	broad.mit.edu	37	chr4	40123127	40123127	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggattctgaaactaagttAtgtgaggatacagagtttga	13	14	11	3	0	1	4	0	3	1	1	1	6	1	6	0	2	2	2	0	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:40123127A>T	uc003guy.3	+	9	3734	c.3396A>T	c.(3394-3396)TTA>TTT	p.L1132F	N4BP2_uc010ifq.2_Missense_Mutation_p.L1052F|N4BP2_uc010ifr.2_Missense_Mutation_p.L1052F	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	1132						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						AAACTAAGTTATGTGAGGATA	0.358													6	72					0	0	1	0	0		T	40123127	T	T	40123127	3	4	27	1	0	0	0	0	1	0	0	0	10128	446	16	5	3422	5	N4BP2	4	40123127	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	259213	40123127	151031149	2222	24573											
RBM47	54502	broad.mit.edu	37	chr4	40440004	40440004	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagccctccagctcagtgcCgttgaggttgttcatggcat	6	11	12	12	2	2	1	2	1	0	0	3	2	3	1	3	2	3	5	3	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:40440004C>A	uc003gvc.2	-	4	1617	c.907G>T	c.(907-909)GGC>TGC	p.G303C	RBM47_uc003gvd.2_Missense_Mutation_p.G303C|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Missense_Mutation_p.G265C|RBM47_uc003gvg.1_Missense_Mutation_p.G303C	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	303	RRM 3.					nucleus	nucleotide binding|RNA binding			breast(3)	3						AGCTCAGTGCCGTTGAGGTTG	0.662													3	50					1	1	1	1	0		A	40440004	A	A	40440004	3	1	27	1	0	0	0	0	1	0	0	0	13166	652	23	5	890	5	RBM47	4	40440004	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	316877	40440004	150714272	2223	24574											
NSUN7	79730	broad.mit.edu	37	chr4	40776855	40776855	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgtattgcatattgatgAtaaagtctttgctgtggatc	10	17	9	5	0	2	2	0	2	2	0	3	3	2	3	0	1	2	3	0	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:40776855A>T	uc003gvj.3	+	6	1208	c.713A>T	c.(712-714)GAT>GTT	p.D238V	NSUN7_uc003gvh.2_Missense_Mutation_p.D238V|NSUN7_uc003gvi.3_Missense_Mutation_p.D238V	NM_024677	NP_078953			NOL1/NOP2/Sun domain family, member 7												0						CATATTGATGATAAAGTCTTT	0.269													4	78					0	0	1	0	0		T	40776855	T	T	40776855	3	4	27	1	0	0	0	0	1	0	0	0	10702	333	12	5	731	5	NSUN7	4	40776855	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	336851	40776855	150377421	2224	24575											
APBB2	323	broad.mit.edu	37	chr4	41016219	41016219	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggccgcctggatgttagtTagtgcatattttttcctgca	7	16	10	8	1	0	0	0	0	0	0	1	1	1	1	3	2	2	4	3	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:41016219T>C	uc003gvl.2	-	6	846	c.216A>G	c.(214-216)CTA>CTG	p.L72L	APBB2_uc003gvm.2_Silent_p.L72L|APBB2_uc003gvn.2_Silent_p.L72L|APBB2_uc011byt.1_Silent_p.L55L	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	72					cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						GGATGTTAGTTAGTGCATATT	0.498													6	136					0	0	1	0	0		C	41016219	C	C	41016219	2	2	27	1	0	0	0	0	0	0	0	1	761	1741	61	3		3	APBB2	4	41016219	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	239364	41016219	150138057	2225	24576											
TMEM33	55161	broad.mit.edu	37	chr4	41951356	41951356	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaaccttttatatactatAgatttcttacccttcgatat	11	18	2	10	1	1	1	0	0	1	1	3	2	2	1	3	0	3	0	3	0	8	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:41951356A>G	uc003gwi.2	+	6	933	c.568A>G	c.(568-570)AGA>GGA	p.R190G	TMEM33_uc010ifw.2_RNA	NM_018126	NP_060596	P57088	TMM33_HUMAN	transmembrane protein 33	190						integral to membrane|melanosome	protein binding			ovary(1)	1						TATATACTATAGATTTCTTAC	0.318													5	91					0	0	1	0	0		G	41951356	G	G	41951356	3	3	27	1	0	0	0	0	1	0	0	0	16181	412	15	3	590	3	TMEM33	4	41951356	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	935137	41951356	149202920	2226	24577											
TMEM33	55161	broad.mit.edu	37	chr4	41951372	41951372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctatagatttcttacccttcGatattcgtctcgaagaaacc	11	14	5	11	3	2	2	0	0	2	2	5	4	2	2	2	0	2	0	2	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:41951372G>A	uc003gwi.2	+	6	949	c.584G>A	c.(583-585)CGA>CAA	p.R195Q	TMEM33_uc010ifw.2_RNA	NM_018126	NP_060596	P57088	TMM33_HUMAN	transmembrane protein 33	195						integral to membrane|melanosome	protein binding			ovary(1)	1						CTTACCCTTCGATATTCGTCT	0.318													6	84					0	0	1	0	0		A	41951372	A	A	41951372	3	1	27	1	0	0	0	0	1	0	0	0	16181	1058	37	1	606	1	TMEM33	4	41951372	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16	41951372	149202904	2227	24578											
SLC30A9	10463	broad.mit.edu	37	chr4	42065102	42065102	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtaccatggagtcatgggAttgcttcatcctcaaccaat	10	12	9	10	0	3	0	3	0	0	0	4	2	4	2	3	3	3	2	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:42065102A>T	uc003gwl.2	+	11	1142	c.996A>T	c.(994-996)GGA>GGT	p.G332G	SLC30A9_uc011byx.1_Silent_p.G92G	NM_006345	NP_006336	Q6PML9	ZNT9_HUMAN	solute carrier family 30 (zinc transporter),	332	Helical; (Potential).				nucleotide-excision repair|zinc ion transport	cytoskeleton|integral to membrane|nucleus	cation transmembrane transporter activity|nucleotide binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3						GAGTCATGGGATTGCTTCATC	0.393													12	105					0	0	1	0	0		T	42065102	T	T	42065102	2	4	27	1	0	0	0	0	0	0	0	1	14587	320	12	5		5	SLC30A9	4	42065102	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	113730	42065102	149089174	2228	24579											
SLC30A9	10463	broad.mit.edu	37	chr4	42069122	42069122	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatggaaagtcgtgatcctAgtacaaatgtgatattattg	14	14	9	4	1	0	2	0	2	0	0	2	3	1	3	1	1	1	1	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:42069122A>G	uc003gwl.2	+	14	1311	c.1165A>G	c.(1165-1167)AGT>GGT	p.S389G	SLC30A9_uc011byx.1_Missense_Mutation_p.S149G	NM_006345	NP_006336	Q6PML9	ZNT9_HUMAN	solute carrier family 30 (zinc transporter),	389					nucleotide-excision repair|zinc ion transport	cytoskeleton|integral to membrane|nucleus	cation transmembrane transporter activity|nucleotide binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3						TCGTGATCCTAGTACAAATGT	0.348													10	157					0	0	1	0	0		G	42069122	G	G	42069122	3	3	27	1	0	0	0	0	1	0	0	0	14587	420	15	3	1219	3	SLC30A9	4	42069122	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4020	42069122	149085154	2229	24580											
ATP8A1	10396	broad.mit.edu	37	chr4	42416673	42416673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgttgcaaggattcagagCggtacaagttcacgtggttc	9	13	12	7	2	2	1	2	0	0	1	3	2	2	2	0	3	3	5	0	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:42416673C>T	uc003gwr.2	-	36	3600	c.3368G>A	c.(3367-3369)CGC>CAC	p.R1123H	ATP8A1_uc003gwq.2_Missense_Mutation_p.R349H|ATP8A1_uc003gws.2_Missense_Mutation_p.R1108H	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	1123	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	GGATTCAGAGCGGTACAAGTT	0.403													8	149					0	0	1	0	0		T	42416673	T	T	42416673	3	4	27	1	0	0	0	0	1	0	0	0	1193	768	27	1	134	1	ATP8A1	4	42416673	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	347551	42416673	148737603	2230	24581											
ATP8A1	10396	broad.mit.edu	37	chr4	42467001	42467001	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgtctgtatcatgctgAcatcatttgctccatcaccg	7	13	8	13	2	4	1	3	1	1	0	5	1	5	1	2	0	2	4	2	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:42467001A>T	uc003gwr.2	-	26	2649	c.2417T>A	c.(2416-2418)GTC>GAC	p.V806D	ATP8A1_uc003gwq.2_Missense_Mutation_p.V32D|ATP8A1_uc003gws.2_Missense_Mutation_p.V791D	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	806	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	TATCATGCTGACATCATTTGC	0.448													4	56					0	0	1	0	0		T	42467001	T	T	42467001	3	4	27	1	0	0	0	0	1	0	0	0	1193	275	10	5	1125	5	ATP8A1	4	42467001	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	50328	42467001	148687275	2231	24582											
ATP8A1	10396	broad.mit.edu	37	chr4	42588453	42588453	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgccagaaatcctcatcAaactgtcaacgtctttgata	12	13	5	11	1	5	2	3	1	2	1	6	2	6	2	2	0	3	0	2	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:42588453A>G	uc003gwr.2	-	9	867	c.635T>C	c.(634-636)TTG>TCG	p.L212S	ATP8A1_uc003gws.2_Missense_Mutation_p.L212S|ATP8A1_uc011byz.1_Missense_Mutation_p.L212S	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	212	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	AATCCTCATCAAACTGTCAAC	0.363													4	60					0	0	1	0	0		G	42588453	G	G	42588453	3	3	27	1	0	0	0	0	1	0	0	0	1193	131	5	3	2975	3	ATP8A1	4	42588453	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	121452	42588453	148565823	2232	24583											
GRXCR1	389207	broad.mit.edu	37	chr4	42895339	42895339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacggaaagtccggtttcGgatcgcgtcctctcacagtg	7	9	12	13	5	1	0	1	0	1	0	6	2	3	2	3	3	0	1	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:42895339G>A	uc003gwt.2	+	1	56	c.56G>A	c.(55-57)CGG>CAG	p.R19Q		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	19					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						GTCCGGTTTCGGATCGCGTCC	0.512													14	116					0	0	1	0	0		A	42895339	A	A	42895339	3	1	27	1	0	0	0	0	1	0	0	0	6828	1116	39	1	58	1	GRXCR1	4	42895339	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	306886	42895339	148258937	2233	24584											
GRXCR1	389207	broad.mit.edu	37	chr4	42964999	42964999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctttgaaagatgtgaactgGttagaaagattttccaaaac	15	12	8	6	0	0	5	0	2	0	3	1	5	1	5	2	1	2	1	2	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:42964999G>A	uc003gwt.2	+	2	475	c.475G>A	c.(475-477)GTT>ATT	p.V159I		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	159	Glutaredoxin.				cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						ATGTGAACTGGTTAGAAAGAT	0.418													21	161					0	0	1	0	0		A	42964999	A	A	42964999	3	1	27	1	0	0	0	0	1	0	0	0	6828	1261	44	4	481	4	GRXCR1	4	42964999	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	69660	42964999	148189277	2234	24585											
KCTD8	386617	broad.mit.edu	37	chr4	44450344	44450344	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctggccaaagtactgtccGggacgctgagcagcgtcgag	8	7	15	11	4	0	1	0	1	0	0	2	3	1	2	2	2	4	4	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:44450344G>A	uc003gwu.2	-	1	481	c.197C>T	c.(196-198)CCG>CTG	p.P66L		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	66	BTB.					cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						AGTACTGTCCGGGACGCTGAG	0.517										HNSCC(17;0.042)			7	21					0	0	1	0	0		A	44450344	A	A	44450344	3	1	27	1	0	0	0	0	1	0	0	0	8131	1116	39	1	1232	1	KCTD8	4	44450344	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1485345	44450344	146703932	2235	24586											
GUF1	60558	broad.mit.edu	37	chr4	44692771	44692771	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattacaattatcaatcctgCacaattccccgataaatcaa	17	11	2	11	1	2	0	2	0	0	0	4	1	4	0	3	0	2	1	3	0	9	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:44692771C>G	uc003gww.3	+	12	1580	c.1373C>G	c.(1372-1374)GCA>GGA	p.A458G		NM_021927	NP_068746	Q8N442	GUF1_HUMAN	GUF1 GTPase homolog	458					translation	mitochondrial inner membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)	1						ATCAATCCTGCACAATTCCCC	0.284													5	66					0	0	1	0	0		G	44692771	G	G	44692771	3	3	27	1	0	0	0	0	1	0	0	0	6915	710	25	5	1419	5	GUF1	4	44692771	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	242427	44692771	146461505	2236	24587											
GABRA2	2555	broad.mit.edu	37	chr4	46252449	46252449	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattttgctaacactgttgAaagttttctttgcttcagct	9	18	6	8	0	2	1	1	1	1	0	2	1	2	1	0	0	4	5	0	0	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:46252449A>G	uc003gxc.3	-	9	1905	c.1232T>C	c.(1231-1233)TTC>TCC	p.F411S	GABRA2_uc010igc.2_Missense_Mutation_p.F411S|GABRA2_uc011bzc.1_Missense_Mutation_p.F416S	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	411	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	AACACTGTTGAAAGTTTTCTT	0.388													14	216					0	0	1	0	0		G	46252449	G	G	46252449	3	3	27	1	0	0	0	0	1	0	0	0	6175	246	9	3	127	3	GABRA2	4	46252449	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1559678	46252449	144901827	2237	24588											
GABRA2	2555	broad.mit.edu	37	chr4	46305564	46305564	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgatgcaaggcagataggTttgaatcacaaaatacccaa	17	8	8	8	0	1	3	1	2	0	1	1	3	1	3	1	2	2	3	1	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:46305564T>G	uc003gxc.3	-	7	1442	c.769A>C	c.(769-771)ACC>CCC	p.T257P	GABRA2_uc010igc.2_Missense_Mutation_p.T257P|GABRA2_uc011bzc.1_Missense_Mutation_p.T202P|GABRA2_uc003gxe.2_Missense_Mutation_p.T257P	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	257	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GGCAGATAGGTTTGAATCACA	0.373													6	82					0	0	1	0	0		G	46305564	G	G	46305564	3	3	27	1	0	0	0	0	1	0	0	0	6175	1725	60	5	598	5	GABRA2	4	46305564	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53115	46305564	144848712	2238	24589											
GABRA2	2555	broad.mit.edu	37	chr4	46334631	46334631	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actatttaatgaaaaactcaCcatatctgtatctgagacag	16	12	5	8	0	3	2	1	2	2	1	3	3	3	2	1	0	1	1	1	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:46334631C>T	uc003gxc.3	-	3	928	c.255_splice	c.e3+1	p.M85_splice	GABRA2_uc010igc.2_Splice_Site_p.M85_splice|GABRA2_uc011bzc.1_Intron|GABRA2_uc003gxe.2_Splice_Site_p.M85_splice	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2						gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GAAAAACTCACCATATCTGTA	0.313													14	74					0	0	1	0	0		T	46334631	T	T	46334631	5	4	27	1	0	0	0	0	0	0	1	0	6175	521	18	4	1127	4	GABRA2	4	46334631	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	29067	46334631	144819645	2239	24590											
GABRA4	2557	broad.mit.edu	37	chr4	46930514	46930514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccaactgaagcctttcgagGcatatatccagttcggatag	11	11	9	10	2	0	1	0	1	0	0	4	3	2	2	3	2	2	2	3	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:46930514G>A	uc003gxg.2	-	9	1532	c.1393C>T	c.(1393-1395)CCT>TCT	p.P465S		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	465	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GCCTTTCGAGGCATATATCCA	0.473													4	97					0	0	1	0	0		A	46930514	A	A	46930514	3	1	27	1	0	0	0	0	1	0	0	0	6177	1203	42	2	275	2	GABRA4	4	46930514	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	595883	46930514	144223762	2240	24591											
GABRA4	2557	broad.mit.edu	37	chr4	46930536	46930536	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatatccagttcggatagaAgtaggagaagcagatggaag	16	8	13	4	1	0	3	0	0	0	3	2	6	1	5	1	3	1	3	1	3	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:46930536A>C	uc003gxg.2	-	9	1510	c.1371T>G	c.(1369-1371)ACT>ACG	p.T457T		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	457	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TTCGGATAGAAGTAGGAGAAG	0.473													4	82					0	0	1	0	0		C	46930536	C	C	46930536	2	2	27	1	0	0	0	0	0	0	0	1	6177	59	3	5		5	GABRA4	4	46930536	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	22	46930536	144223740	2241	24592											
GABRA4	2557	broad.mit.edu	37	chr4	46995427	46995427	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcgatcgcgggtaccttCttggcagaaaccatctttgc	9	10	11	11	3	2	2	0	0	2	2	3	3	2	2	2	2	4	2	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:46995427C>A	uc003gxg.2	-	1	154	c.15G>T	c.(13-15)AAG>AAT	p.K5N		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	5					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CGGGTACCTTCTTGGCAGAAA	0.602													6	71					3.59834e-05	3.83694e-05	1	1	0		A	46995427	A	A	46995427	3	1	27	1	0	0	0	0	1	0	0	0	6177	912	32	5	1685	5	GABRA4	4	46995427	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	64891	46995427	144158849	2242	24593											
ATP10D	57205	broad.mit.edu	37	chr4	47571042	47571042	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcaagaaagtctgcaaaaGcagttcctggaactgacatc	14	8	9	10	0	1	2	0	1	1	1	3	3	2	3	1	1	4	4	1	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:47571042G>T	uc003gxk.1	+	16	3206	c.3042G>T	c.(3040-3042)AAG>AAT	p.K1014N	ATP10D_uc003gxl.1_Missense_Mutation_p.K262N	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	1014	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						GTCTGCAAAAGCAGTTCCTGG	0.537													8	69					0.27861	0.279635	1	1	0		T	47571042	T	T	47571042	3	4	27	1	0	0	0	0	1	0	0	0	1119	962	34	5	3100	5	ATP10D	4	47571042	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	575615	47571042	143583234	2243	24594											
CORIN	10699	broad.mit.edu	37	chr4	47663845	47663845	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcccaagaacagactcacAgcgttctttagagtgttcac	13	10	7	11	1	3	3	2	0	1	3	4	3	4	3	1	0	2	2	1	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:47663845A>G	uc003gxm.2	-	12	1711	c.1618T>C	c.(1618-1620)TGT>CGT	p.C540R	CORIN_uc011bzf.1_Missense_Mutation_p.C401R|CORIN_uc011bzg.1_Missense_Mutation_p.C473R|CORIN_uc011bzh.1_Missense_Mutation_p.C503R|CORIN_uc011bzi.1_Missense_Mutation_p.C503R	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	540	Extracellular (Potential).|FZ 2.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						ACAGACTCACAGCGTTCTTTA	0.423													9	53					0	0	1	0	0		G	47663845	G	G	47663845	3	3	27	1	0	0	0	0	1	0	0	0	3755	188	7	3	1554	3	CORIN	4	47663845	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	92803	47663845	143490431	2244	24595											
CORIN	10699	broad.mit.edu	37	chr4	47695094	47695094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagttctcaccccttccaCagagcactaaaaaaaaaggg	17	6	7	11	0	1	1	1	0	1	1	3	2	2	1	3	1	1	2	3	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:47695094C>T	uc003gxm.2	-	6	899	c.806G>A	c.(805-807)TGT>TAT	p.C269Y	CORIN_uc011bzf.1_Missense_Mutation_p.C130Y|CORIN_uc011bzg.1_Missense_Mutation_p.C202Y|CORIN_uc011bzh.1_Missense_Mutation_p.C269Y|CORIN_uc011bzi.1_Missense_Mutation_p.C269Y|CORIN_uc003gxn.3_Missense_Mutation_p.C269Y	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	269	Extracellular (Potential).|LDL-receptor class A 1.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						ACCCCTTCCACAGAGCACTAA	0.398													17	50					0	0	1	0	0		T	47695094	T	T	47695094	3	4	27	1	0	0	0	0	1	0	0	0	3755	478	17	4	2390	4	CORIN	4	47695094	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31249	47695094	143459182	2245	24596											
CNGA1	1259	broad.mit.edu	37	chr4	47939081	47939081	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaatcagcaaaaatgcgtAccttttttaatgtgtctaag	14	13	6	8	1	2	0	1	0	1	0	2	0	2	0	1	0	3	2	1	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:47939081A>G	uc003gxt.3	-	11	1696	c.1430T>C	c.(1429-1431)GTA>GCA	p.V477A	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.V546A	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	477	Extracellular (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						AAAAATGCGTACCTTTTTTAA	0.378													6	178					0	0	1	0	0		G	47939081	G	G	47939081	3	3	27	1	0	0	0	0	1	0	0	0	3599	391	14	3	646	3	CNGA1	4	47939081	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	243987	47939081	143215195	2246	24597											
CNGA1	1259	broad.mit.edu	37	chr4	47939244	47939244	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctttgcttacatttcgaaAatgcatatattgcttgatag	12	17	6	6	1	1	1	0	1	1	0	2	2	1	1	0	0	4	3	0	0	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:47939244A>G	uc003gxt.3	-	11	1533	c.1267T>C	c.(1267-1269)TTT>CTT	p.F423L	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.F492L	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	423	Extracellular (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						ACATTTCGAAAATGCATATAT	0.353													8	113					0	0	1	0	0		G	47939244	G	G	47939244	3	3	27	1	0	0	0	0	1	0	0	0	3599	14	1	3	809	3	CNGA1	4	47939244	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	163	47939244	143215032	2247	24598											
CNGA1	1259	broad.mit.edu	37	chr4	47939482	47939482	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgtattttctagccaaacgGccaaattcaggatcattaat	14	12	6	9	2	3	0	2	0	1	0	3	1	3	1	2	2	2	1	2	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:47939482G>A	uc003gxt.3	-	11	1295	c.1029C>T	c.(1027-1029)GGC>GGT	p.G343G	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Silent_p.G412G	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	343	Cytoplasmic (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						TAGCCAAACGGCCAAATTCAG	0.413													6	113					0	0	1	0	0		A	47939482	A	A	47939482	2	1	27	1	0	0	0	0	0	0	0	1	3599	1190	42	2		2	CNGA1	4	47939482	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	238	47939482	143214794	2248	24599											
TEC	7006	broad.mit.edu	37	chr4	48147163	48147163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacacacatcctgacacatgCtcagcagtacgtctctactg	11	9	6	15	1	2	1	1	1	1	0	4	1	3	1	1	0	4	3	1	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:48147163C>T	uc003gxz.2	-	14	1494	c.1403G>A	c.(1402-1404)AGC>AAC	p.S468N		NM_003215	NP_003206	P42680	TEC_HUMAN	tec protein tyrosine kinase	468	Protein kinase.				intracellular protein kinase cascade	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)	9						CTGACACATGCTCAGCAGTAC	0.468													21	146					0	0	1	0	0		T	48147163	T	T	48147163	3	4	27	1	0	0	0	0	1	0	0	0	15767	797	28	2	512	2	TEC	4	48147163	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	207681	48147163	143007113	2249	24600											
FRYL	285527	broad.mit.edu	37	chr4	48542963	48542963	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgtttcccattataggaTcatgatatgaggttcttaaa	12	16	7	6	0	2	2	1	2	1	0	3	3	3	3	1	2	0	2	1	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:48542963T>C	uc003gyh.1	-	46	6307	c.5702A>G	c.(5701-5703)GAT>GGT	p.D1901G	FRYL_uc003gyg.1_Missense_Mutation_p.D597G|FRYL_uc003gyi.1_Missense_Mutation_p.D789G|FRYL_uc003gyj.1_Missense_Mutation_p.D196G	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	1901					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						CATTATAGGATCATGATATGA	0.328													10	83					0	0	1	0	0		C	48542963	C	C	48542963	3	2	27	1	0	0	0	0	1	0	0	0	6078	1435	50	3	3415	3	FRYL	4	48542963	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	395800	48542963	142611313	2250	24601											
FRYL	285527	broad.mit.edu	37	chr4	48566115	48566115	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttcacagcccagctggTgaacctaggtaaaggttgtg	9	10	12	10	0	1	1	1	1	0	0	1	1	1	1	2	3	4	4	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:48566115T>C	uc003gyh.1	-	31	4051	c.3446A>G	c.(3445-3447)CAC>CGC	p.H1149R	FRYL_uc003gyk.2_Missense_Mutation_p.H1149R|FRYL_uc003gyi.1_Missense_Mutation_p.H38R	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	1149					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						GCCCAGCTGGTGAACCTAGGT	0.453													4	61					0	0	1	0	0		C	48566115	C	C	48566115	3	2	27	1	0	0	0	0	1	0	0	0	6078	1696	59	3	5731	3	FRYL	4	48566115	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	23152	48566115	142588161	2251	24602											
FRYL	285527	broad.mit.edu	37	chr4	48584736	48584736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcacgcagttcttcatcCatatgaattgtgagcctacc	11	11	8	11	1	2	3	1	2	1	1	3	3	3	3	3	0	3	3	3	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:48584736C>T	uc003gyh.1	-	20	2369	c.1764G>A	c.(1762-1764)ATG>ATA	p.M588I	FRYL_uc003gyk.2_Missense_Mutation_p.M588I	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	588					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						GTTCTTCATCCATATGAATTG	0.353													5	81					0	0	1	0	0		T	48584736	T	T	48584736	3	4	27	1	0	0	0	0	1	0	0	0	6078	594	21	4	7457	4	FRYL	4	48584736	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18621	48584736	142569540	2252	24603											
FRYL	285527	broad.mit.edu	37	chr4	48588650	48588650	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatttaccttgctaacaatTcaatcaggtcagttctgctc	10	15	5	11	0	5	0	4	0	1	0	6	0	5	0	1	1	4	3	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:48588650T>A	uc003gyh.1	-	19	2341	c.1736A>T	c.(1735-1737)GAA>GTA	p.E579V	FRYL_uc003gyk.2_Missense_Mutation_p.E579V	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	579					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TGCTAACAATTCAATCAGGTC	0.348													4	51					0	0	1	0	0		A	48588650	A	A	48588650	3	1	27	1	0	0	0	0	1	0	0	0	6078	1783	62	5	7489	5	FRYL	4	48588650	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3914	48588650	142565626	2253	24604											
OCIAD1	54940	broad.mit.edu	37	chr4	48859353	48859353	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgacccctcagtcaggcCtatgcatgaaagagtgccaa	12	7	10	12	0	2	3	2	2	0	1	2	4	2	3	4	1	2	1	4	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:48859353C>A	uc003gyo.2	+	8	928	c.671C>A	c.(670-672)CCT>CAT	p.P224H	OCIAD1_uc003gyr.2_Missense_Mutation_p.P224H|OCIAD1_uc003gyp.2_Intron|OCIAD1_uc003gys.2_Intron|OCIAD1_uc003gyq.2_Intron|OCIAD1_uc010igk.2_Missense_Mutation_p.P229H	NM_017830	NP_060300	Q9NX40	OCAD1_HUMAN	OCIA domain containing 1 isoform 1	224						endosome	protein binding				0						TCAGTCAGGCCTATGCATGAA	0.323													7	49					0.00307968	0.00318367	1	1	0		A	48859353	A	A	48859353	3	1	27	1	0	0	0	0	1	0	0	0	10836	681	24	5	733	5	OCIAD1	4	48859353	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	270703	48859353	142294923	2254	24605											
DCUN1D4	23142	broad.mit.edu	37	chr4	52758003	52758003	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaggagtggttaaaaggAatgacttctctccagtaagt	13	11	10	7	0	1	1	0	1	1	0	3	3	2	3	1	3	1	2	1	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:52758003A>G	uc003gze.2	+	7	625	c.492A>G	c.(490-492)GGA>GGG	p.G164G	DCUN1D4_uc003gzf.2_Silent_p.G164G|DCUN1D4_uc011bzn.1_Silent_p.G104G|DCUN1D4_uc003gzg.2_RNA|DCUN1D4_uc003gzh.2_RNA|DCUN1D4_uc011bzo.1_Silent_p.G208G	NM_001040402	NP_001035492	Q92564	DCNL4_HUMAN	DCN1, defective in cullin neddylation 1, domain	164	DCUN1.									ovary(2)	2			GBM - Glioblastoma multiforme(4;1.93e-11)|LUSC - Lung squamous cell carcinoma(32;0.00654)			GGTTAAAAGGAATGACTTCTC	0.443													8	54					0	0	1	0	0		G	52758003	G	G	52758003	2	3	27	1	0	0	0	0	0	0	0	1	4319	233	9	3		3	DCUN1D4	4	52758003	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3898650	52758003	138396273	2255	24606											
LRRC66	339977	broad.mit.edu	37	chr4	52861789	52861789	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatcaggaattacggtggCgtgtgggtgtggctgtgtca	6	13	16	6	2	3	0	2	0	1	0	3	1	3	1	0	5	1	1	0	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:52861789C>A	uc003gzi.2	-	4	1412	c.1399G>T	c.(1399-1401)GCC>TCC	p.A467S		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	467						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						ATTACGGTGGCGTGTGGGTGT	0.577													13	90					4.3838e-07	4.77687e-07	1	1	0		A	52861789	A	A	52861789	3	1	27	1	0	0	0	0	1	0	0	0	9036	768	27	5	1247	5	LRRC66	4	52861789	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	103786	52861789	138292487	2256	24607											
SPATA18	132671	broad.mit.edu	37	chr4	52945916	52945916	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgtttttcaggatgtgAtccgagccatgaatgtcaat	9	16	9	7	1	2	2	2	2	0	0	3	4	3	3	2	1	1	1	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:52945916A>C	uc003gzl.2	+	9	1464	c.1186A>C	c.(1186-1188)ATC>CTC	p.I396L	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.I364L|SPATA18_uc003gzk.1_Missense_Mutation_p.I396L	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	396					mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			TCAGGATGTGATCCGAGCCAT	0.428													13	157					0	0	1	0	0		C	52945916	C	C	52945916	3	2	27	1	0	0	0	0	1	0	0	0	15028	333	12	5	1220	5	SPATA18	4	52945916	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	84127	52945916	138208360	2257	24608											
SCFD2	152579	broad.mit.edu	37	chr4	54231548	54231548	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtccggtcgggcgctattAaggaggtgcacatcctgggg	6	10	16	9	3	0	0	0	0	0	0	3	1	2	1	2	6	1	2	2	6	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:54231548A>G	uc003gzu.2	-	1	695	c.561T>C	c.(559-561)CTT>CTC	p.L187L	SCFD2_uc010igm.2_Silent_p.L187L	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2	187					protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			GGGCGCTATTAAGGAGGTGCA	0.562													4	42					0	0	1	0	0		G	54231548	G	G	54231548	2	3	27	1	0	0	0	0	0	0	0	1	13915	349	13	3		3	SCFD2	4	54231548	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1285632	54231548	136922728	2258	24609											
LNX1	84708	broad.mit.edu	37	chr4	54440034	54440034	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggggtccagcaaagcctGcaggcagatgtggcagatga	11	5	16	9	0	0	3	0	1	0	2	1	3	1	3	2	4	3	4	2	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:54440034G>A	uc003hag.3	-	2	392	c.136C>T	c.(136-138)CAG>TAG	p.Q46*	PDGFRA_uc003haa.2_Intron|LNX1_uc003hah.3_RNA	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	46	RING-type.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			AGCAAAGCCTGCAGGCAGATG	0.572													5	24					0	0	1	0	0		A	54440034	A	A	54440034	4	1	27	1	0	0	0	0	0	1	0	0	8882	1328	46	2	2186	2	LNX1	4	54440034	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	208486	54440034	136714242	2259	24610											
KIT	3815	broad.mit.edu	37	chr4	55524239	55524239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgctcctactgcttcgcGtccagacaggtgggacaccg	6	10	11	14	3	1	1	0	0	1	1	4	2	3	2	3	2	3	2	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:55524239G>A	uc010igr.2	+	1	145	c.58G>A	c.(58-60)GTC>ATC	p.V20I	KIT_uc010igs.2_Missense_Mutation_p.V20I	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	20					male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	ACTGCTTCGCGTCCAGACAGG	0.667		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				7	33					0	0	1	0	0		A	55524239	A	A	55524239	3	1	27	1	0	0	0	0	1	0	0	0	8345	1145	40	1	60	1	KIT	4	55524239	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1084205	55524239	135630037	2260	24611											
KIT	3815	broad.mit.edu	37	chr4	55565802	55565802	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttttcattctagccttcaAagctgtgcctgttgtgtctg	5	18	8	10	0	5	0	2	0	3	0	5	0	5	0	2	0	3	2	2	0	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:55565802A>T	uc010igr.2	+	4	713	c.626A>T	c.(625-627)AAA>ATA	p.K209I	KIT_uc010igs.2_Missense_Mutation_p.K209I	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	209	Extracellular (Potential).				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CTAGCCTTCAAAGCTGTGCCT	0.383		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				4	46					0	0	1	0	0		T	55565802	T	T	55565802	3	4	27	1	0	0	0	0	1	0	0	0	8345	14	1	5	640	5	KIT	4	55565802	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	41563	55565802	135588474	2261	24612											
KIT	3815	broad.mit.edu	37	chr4	55592157	55592157	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacggttgaatgtaaggcttAcaacgatgtgggcaagactt	12	10	12	7	2	0	2	0	1	0	1	0	3	0	2	0	3	2	4	0	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:55592157A>G	uc010igr.2	+	9	1568	c.1481A>G	c.(1480-1482)TAC>TGC	p.Y494C	KIT_uc010igs.2_Missense_Mutation_p.Y494C|KIT_uc011bzw.1_5'Flank|KIT_uc010igt.1_5'Flank	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	494	Extracellular (Potential).|Ig-like C2-type 5.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity	p.Y494Y(1)|p.E490_F504>DHIVVSLTF(1)		soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TGTAAGGCTTACAACGATGTG	0.388		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				4	63					0	0	1	0	0		G	55592157	G	G	55592157	3	3	27	1	0	0	0	0	1	0	0	0	8345	391	14	3	1515	3	KIT	4	55592157	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26355	55592157	135562119	2262	24613											
KDR	3791	broad.mit.edu	37	chr4	55964961	55964961	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatttccaagttcgtctttTcctgggcacctggaaagaca	9	13	9	10	1	1	2	0	1	1	1	4	3	3	3	3	2	0	2	3	2	2	4	rs151060903		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:55964961T>A	uc003has.2	-	16	2578	c.2276A>T	c.(2275-2277)GAA>GTA	p.E759V	KDR_uc003hat.1_Missense_Mutation_p.E759V	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	759	Extracellular (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	GTTCGTCTTTTCCTGGGCACC	0.408			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			6	73					0	0	1	0	0		A	55964961	A	A	55964961	3	1	27	1	0	0	0	0	1	0	0	0	8155	1783	62	5	1854	5	KDR	4	55964961	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	372804	55964961	135189315	2263	24614											
KDR	3791	broad.mit.edu	37	chr4	55972863	55972863	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaactcactttgtttttTccttcaattagagcaaattg	11	18	4	8	0	3	1	3	0	0	1	4	1	4	1	1	0	2	2	1	0	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:55972863T>C	uc003has.2	-	11	1829	c.1527A>G	c.(1525-1527)GGA>GGG	p.G509G	KDR_uc003hat.1_Silent_p.G509G|KDR_uc011bzx.1_Silent_p.G509G	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	509	Ig-like C2-type 5.|Extracellular (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	CTTTGTTTTTTCCTTCAATTA	0.323			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			5	33					0	0	1	0	0		C	55972863	C	C	55972863	2	2	27	1	0	0	0	0	0	0	0	1	8155	1770	62	3		3	KDR	4	55972863	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7902	55972863	135181413	2264	24615											
EXOC1	55763	broad.mit.edu	37	chr4	56730485	56730485	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcatttatttcatgcatttgGaaattgaatcagcgatatct	12	16	7	6	1	3	1	2	1	1	0	3	3	3	2	0	1	2	2	0	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:56730485G>A	uc003hbe.1	+	4	506	c.348G>A	c.(346-348)TGG>TGA	p.W116*	EXOC1_uc003hbf.1_Nonsense_Mutation_p.W116*|EXOC1_uc003hbg.1_Nonsense_Mutation_p.W116*	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	116					exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					CATGCATTTGGAAATTGAATC	0.299													10	43					0	0	1	0	0		A	56730485	A	A	56730485	4	1	27	1	0	0	0	0	0	1	0	0	5309	1183	41	4	358	4	EXOC1	4	56730485	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	757622	56730485	134423791	2265	24616											
PPAT	5471	broad.mit.edu	37	chr4	57269249	57269249	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaataagacgaccaatgcaTaagggacgatttccataagg	16	7	11	7	2	0	1	0	0	0	1	1	5	1	3	2	3	1	1	2	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:57269249T>C	uc003hbr.2	-	5	820	c.618A>G	c.(616-618)TTA>TTG	p.L206L		NM_002703	NP_002694	Q06203	PUR1_HUMAN	phosphoribosyl pyrophosphate amidotransferase	206	Glutamine amidotransferase type-2.				glutamine metabolic process|nucleoside metabolic process|purine base biosynthetic process|purine ribonucleoside monophosphate biosynthetic process	cytosol	4 iron, 4 sulfur cluster binding|amidophosphoribosyltransferase activity|metal ion binding				0	Glioma(25;0.08)|all_neural(26;0.101)				L-Glutamine(DB00130)|Thioguanine(DB00352)	GACCAATGCATAAGGGACGAT	0.358													9	54					0	0	1	0	0		C	57269249	C	C	57269249	2	2	27	1	0	0	0	0	0	0	0	1	12321	1403	49	3		3	PPAT	4	57269249	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	538764	57269249	133885027	2266	24617											
ARL9	132946	broad.mit.edu	37	chr4	57384867	57384867	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcagtaaaccttttcggTcctactgggaaatgtaccta	10	12	10	9	1	0	0	0	0	0	0	2	1	1	1	3	3	3	3	3	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:57384867T>A	uc003hby.1	+	3	488	c.40T>A	c.(40-42)TCC>ACC	p.S14T		NM_206919	NP_996802	Q6T311	ARL9_HUMAN	ADP-ribosylation factor-like 9	78							GTP binding				0	Glioma(25;0.08)|all_neural(26;0.101)					ACCTTTTCGGTCCTACTGGGA	0.483													12	124					0	0	1	0	0		A	57384867	A	A	57384867	3	1	27	1	0	0	0	0	1	0	0	0	949	1667	58	5	46	5	ARL9	4	57384867	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	115618	57384867	133769409	2267	24618											
ARL9	132946	broad.mit.edu	37	chr4	57389893	57389893	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcctatcacattacagatAtccatgaagctttggcatta	13	12	6	10	0	1	2	1	1	0	1	2	2	2	2	2	1	3	2	2	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:57389893A>T	uc003hby.1	+	4	671	c.223A>T	c.(223-225)ATC>TTC	p.I75F		NM_206919	NP_996802	Q6T311	ARL9_HUMAN	ADP-ribosylation factor-like 9	139							GTP binding				0	Glioma(25;0.08)|all_neural(26;0.101)					CATTACAGATATCCATGAAGC	0.398													5	40					0	0	1	0	0		T	57389893	T	T	57389893	3	4	27	1	0	0	0	0	1	0	0	0	949	449	16	5	233	5	ARL9	4	57389893	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5026	57389893	133764383	2268	24619											
POLR2B	5431	broad.mit.edu	37	chr4	57897134	57897134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttatgtctatgagtattgcaCcgcgaatgatgagtgtttag	10	15	11	5	2	1	3	0	3	1	0	1	4	1	3	1	0	1	3	1	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:57897134C>T	uc003hcl.1	+	25	3548	c.3505C>T	c.(3505-3507)CCG>TCG	p.P1169S	POLR2B_uc011cae.1_Missense_Mutation_p.P1162S|POLR2B_uc011caf.1_Missense_Mutation_p.P1094S|POLR2B_uc003hcm.1_Missense_Mutation_p.P662S	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	1169					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					GAGTATTGCACCGCGAATGAT	0.333													13	63					0	0	1	0	0		T	57897134	T	T	57897134	3	4	27	1	0	0	0	0	1	0	0	0	12234	507	18	4	3603	4	POLR2B	4	57897134	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	507241	57897134	133257142	2269	24620											
EPHA5	2044	broad.mit.edu	37	chr4	66535289	66535289	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctccctaccttcgttgcTggggctggccaggagggtcc	4	10	13	14	1	1	0	0	0	1	0	4	1	2	1	4	5	2	3	4	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:66535289T>G	uc003hcy.2	-	1	365	c.172A>C	c.(172-174)AGC>CGC	p.S58R	EPHA5_uc003hcx.2_5'Flank|EPHA5_uc003hcz.2_Missense_Mutation_p.S58R|EPHA5_uc011cah.1_Missense_Mutation_p.S58R|EPHA5_uc011cai.1_Missense_Mutation_p.S58R|EPHA5_uc003hda.2_Missense_Mutation_p.S58R|uc003hdb.2_5'Flank	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	58	Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CCTTCGTTGCTGGGGCTGGCC	0.716										TSP Lung(17;0.13)			7	15					0	0	1	0	0		G	66535289	G	G	66535289	3	3	27	1	0	0	0	0	1	0	0	0	5178	1580	55	5	3013	5	EPHA5	4	66535289	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8638155	66535289	124618987	2270	24621											
UBA6	55236	broad.mit.edu	37	chr4	68489854	68489854	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatacatacctgattttagTtttccttacttcagttgtct	8	20	4	9	0	3	1	2	1	1	0	4	1	4	1	2	0	3	2	2	0	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:68489854T>C	uc003hdg.3	-	30	2882	c.2830A>G	c.(2830-2832)ACT>GCT	p.T944A		NM_018227	NP_060697	A0AVT1	UBA6_HUMAN	ubiquitin-activating enzyme E1-like 2	944					protein ubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm	ATP binding|FAT10 activating enzyme activity|ligase activity|protein binding				0						CTGATTTTAGTTTTCCTTACT	0.294													4	65					0	0	1	0	0		C	68489854	C	C	68489854	3	2	27	1	0	0	0	0	1	0	0	0	16858	1725	60	3	344	3	UBA6	4	68489854	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1954565	68489854	122664422	2271	24622											
UBA6	55236	broad.mit.edu	37	chr4	68490772	68490772	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataattttaccagctatgcgCtttgttttgaaacggtcagc	10	15	8	8	2	1	1	1	1	0	0	1	1	1	1	1	1	5	3	1	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:68490772C>A	uc003hdg.3	-	29	2704	c.2652G>T	c.(2650-2652)AAG>AAT	p.K884N		NM_018227	NP_060697	A0AVT1	UBA6_HUMAN	ubiquitin-activating enzyme E1-like 2	884					protein ubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm	ATP binding|FAT10 activating enzyme activity|ligase activity|protein binding				0						CAGCTATGCGCTTTGTTTTGA	0.373													6	68					0.0215528	0.0219246	1	1	0		A	68490772	A	A	68490772	3	1	27	1	0	0	0	0	1	0	0	0	16858	796	28	5	526	5	UBA6	4	68490772	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	918	68490772	122663504	2272	24623											
GNRHR	2798	broad.mit.edu	37	chr4	68610386	68610386	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagaggcagctgaaggtGaaaaagttataaaatgcttg	17	9	12	3	0	0	4	0	3	0	1	0	4	0	4	0	2	2	4	0	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:68610386G>T	uc003hdn.2	-	2	2393	c.642C>A	c.(640-642)TTC>TTA	p.F214L	LOC550112_uc003hdl.3_Intron|GNRHR_uc003hdm.2_Intron	NM_000406	NP_000397	P30968	GNRHR_HUMAN	gonadotropin-releasing hormone receptor isoform	214	Helical; Name=5; (Potential).				multicellular organismal development	integral to plasma membrane	gonadotropin-releasing hormone receptor activity			ovary(1)	1					Abarelix(DB00106)|Cetrorelix(DB00050)|Danazol(DB01406)|Gonadorelin(DB00644)|Leuprolide(DB00007)|Nafarelin(DB00666)	AGCTGAAGGTGAAAAAGTTAT	0.438													25	92					1.64293e-13	1.83183e-13	1	1	0		T	68610386	T	T	68610386	3	4	27	1	0	0	0	0	1	0	0	0	6564	1281	45	5	352	5	GNRHR	4	68610386	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	119614	68610386	122543890	2273	24624											
GNRHR	2798	broad.mit.edu	37	chr4	68610404	68610404	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaaaaagttataaaatgcTtgatgccaccattgtgaaaa	17	11	8	5	0	0	3	0	3	0	0	0	3	0	3	2	0	2	2	2	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:68610404T>G	uc003hdn.2	-	2	2375	c.624A>C	c.(622-624)CAA>CAC	p.Q208H	LOC550112_uc003hdl.3_Intron|GNRHR_uc003hdm.2_Intron	NM_000406	NP_000397	P30968	GNRHR_HUMAN	gonadotropin-releasing hormone receptor isoform	208	Extracellular (Potential).				multicellular organismal development	integral to plasma membrane	gonadotropin-releasing hormone receptor activity			ovary(1)	1					Abarelix(DB00106)|Cetrorelix(DB00050)|Danazol(DB01406)|Gonadorelin(DB00644)|Leuprolide(DB00007)|Nafarelin(DB00666)	TATAAAATGCTTGATGCCACC	0.413													28	93					0	0	1	0	0		G	68610404	G	G	68610404	3	3	27	1	0	0	0	0	1	0	0	0	6564	1606	56	5	370	5	GNRHR	4	68610404	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18	68610404	122543872	2274	24625											
GNRHR	2798	broad.mit.edu	37	chr4	68619626	68619626	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagctaggggcctcgtgAtagccagggagcggtccagg	9	6	16	10	2	1	1	1	1	0	0	3	2	2	2	3	5	3	1	3	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:68619626A>T	uc003hdn.2	-	1	2179	c.428T>A	c.(427-429)ATC>AAC	p.I143N	LOC550112_uc003hdl.3_Intron|GNRHR_uc003hdm.2_Missense_Mutation_p.I143N	NM_000406	NP_000397	P30968	GNRHR_HUMAN	gonadotropin-releasing hormone receptor isoform	143	Cytoplasmic (Potential).				multicellular organismal development	integral to plasma membrane	gonadotropin-releasing hormone receptor activity			ovary(1)	1					Abarelix(DB00106)|Cetrorelix(DB00050)|Danazol(DB01406)|Gonadorelin(DB00644)|Leuprolide(DB00007)|Nafarelin(DB00666)	GGGCCTCGTGATAGCCAGGGA	0.522													8	44					0	0	1	0	0		T	68619626	T	T	68619626	3	4	27	1	0	0	0	0	1	0	0	0	6564	333	12	5	570	5	GNRHR	4	68619626	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	9222	68619626	122534650	2275	24626											
TMPRSS11D	9407	broad.mit.edu	37	chr4	68699088	68699088	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgttattaggtctggacCggccccacattctaatgaga	11	11	9	10	1	2	1	0	1	2	1	2	3	2	2	3	3	0	1	3	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:68699088C>A	uc003hdq.2	-	7	591	c.526G>T	c.(526-528)GGT>TGT	p.G176C	LOC550112_uc003hdl.3_Intron|TMPRSS11D_uc003hdp.2_5'UTR|TMPRSS11D_uc011caj.1_Missense_Mutation_p.G59C	NM_004262	NP_004253	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	176	Extracellular (Potential).				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						AGGTCTGGACCGGCCCCACAT	0.468													5	126					0.014758	0.0150623	1	1	0		A	68699088	A	A	68699088	3	1	27	1	0	0	0	0	1	0	0	0	16266	652	23	5	746	5	TMPRSS11D	4	68699088	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	79462	68699088	122455188	2276	24627											
YTHDC1	91746	broad.mit.edu	37	chr4	69202890	69202890	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgttcatattcttcttcTtcctcctcctcctcctcctc	2	19	1	19	0	4	0	1	0	3	0	12	0	11	0	7	0	0	1	7	0	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:69202890T>C	uc003hdx.2	-	4	1091	c.738A>G	c.(736-738)GAA>GAG	p.E246E	YTHDC1_uc003hdy.2_Silent_p.E246E	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	246	Glu-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						Attcttcttcttcctcctcct	0.204													4	47					0	0	1	0	0		C	69202890	C	C	69202890	2	2	27	1	0	0	0	0	0	0	0	1	17522	1606	56	3		3	YTHDC1	4	69202890	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	503802	69202890	121951386	2277	24628											
YTHDC1	91746	broad.mit.edu	37	chr4	69203419	69203419	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgaattttccgatcagcAtctagacgcttgtttctttc	9	15	7	10	3	3	2	1	0	2	2	5	4	4	2	1	0	1	3	1	0	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:69203419A>G	uc003hdx.2	-	3	683	c.330T>C	c.(328-330)GAT>GAC	p.D110D	YTHDC1_uc003hdy.2_Silent_p.D110D	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	110										upper_aerodigestive_tract(1)|ovary(1)	2						TCCGATCAGCATCTAGACGCT	0.388													6	80					0	0	1	0	0		G	69203419	G	G	69203419	2	3	27	1	0	0	0	0	0	0	0	1	17522	214	8	3		3	YTHDC1	4	69203419	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	529	69203419	121950857	2278	24629											
UGT2A3	79799	broad.mit.edu	37	chr4	69811057	69811057	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcaggtttacagtgcaaTcctccaacaaactcaaagtt	13	11	7	10	0	1	0	1	0	0	0	3	0	3	0	2	2	4	4	2	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:69811057T>G	uc003hef.2	-	2	862	c.831A>C	c.(829-831)GGA>GGC	p.G277G	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	277	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						TACAGTGCAATCCTCCAACAA	0.368													6	80					0	0	1	0	0		G	69811057	G	G	69811057	2	3	27	1	0	0	0	0	0	0	0	1	16981	1422	50	5		5	UGT2A3	4	69811057	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	607638	69811057	121343219	2279	24630											
UGT2B10	7365	broad.mit.edu	37	chr4	69870725	69870725	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaaccaggtgaggtcatggGctgcaactcgaaggtgtttg	9	9	16	7	1	1	1	1	1	0	0	2	3	1	2	1	5	3	3	1	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:69870725G>A	uc011cao.1	-	9	1461	c.1325C>T	c.(1324-1326)GCC>GTC	p.A442V	UGT2B10_uc011can.1_Missense_Mutation_p.A358V			P36537	UDB10_HUMAN	RecName: Full=UDP-glucuronosyltransferase 2B28;          Short=UDPGT 2B28;          EC=2.4.1.17; Flags: Precursor;	479					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						GAGGTCATGGGCTGCAACTCG	0.483													17	165					0	0	1	0	0		A	69870725	A	A	69870725	3	1	27	1	0	0	0	0	1	0	0	0	16982	1203	42	2	1765	2	UGT2B10	4	69870725	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	59668	69870725	121283551	2280	24631											
UGT2B11	10720	broad.mit.edu	37	chr4	70066414	70066414	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcatgttgaattcttgatAatttcataatattctcttta	12	20	4	5	0	4	2	2	2	2	0	5	3	4	2	0	0	0	1	0	0	5	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:70066414A>G	uc003heh.2	-	6	1343	c.1334T>C	c.(1333-1335)TTA>TCA	p.L445S	uc003hei.1_Intron	NM_001073	NP_001064	O75310	UDB11_HUMAN	UDP glucuronosyltransferase 2 family,	445					estrogen metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3						AATTCTTGATAATTTCATAAT	0.363													4	92					0	0	1	0	0		G	70066414	G	G	70066414	3	3	27	1	0	0	0	0	1	0	0	0	16983	372	13	3	259	3	UGT2B11	4	70066414	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	195689	70066414	121087862	2281	24632											
UGT2B28	54490	broad.mit.edu	37	chr4	70152532	70152532	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgttttctctggggtcAgtgataagtaacatgacagc	9	13	13	6	0	2	2	1	2	1	0	3	2	2	2	0	3	2	2	0	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:70152532A>G	uc003hej.2	+	3	935	c.933A>G	c.(931-933)TCA>TCG	p.S311S	UGT2B28_uc010ihr.2_Silent_p.S311S	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	311					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	CTCTGGGGTCAGTGATAAGTA	0.408													6	181					0	0	1	0	0		G	70152532	G	G	70152532	2	3	27	1	0	0	0	0	0	0	0	1	16986	175	7	3		3	UGT2B28	4	70152532	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	86118	70152532	121001744	2282	24633											
SULT1B1	27284	broad.mit.edu	37	chr4	70592890	70592890	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcattttgggccacggtGaagtaattcttccagtcacc	8	14	8	11	1	3	1	2	1	2	0	5	1	4	1	3	2	0	1	3	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:70592890G>T	uc003hen.2	-	8	1105	c.807C>A	c.(805-807)TTC>TTA	p.F269L		NM_014465	NP_055280	O43704	ST1B1_HUMAN	sulfotransferase family, cytosolic, 1B, member	269					3'-phosphoadenosine 5'-phosphosulfate metabolic process|cellular biogenic amine metabolic process|flavonoid metabolic process|steroid metabolic process|sulfation|thyroid hormone metabolic process|xenobiotic metabolic process	cytosol					0						GGGCCACGGTGAAGTAATTCT	0.348													4	57					0.014758	0.0150623	1	1	0		T	70592890	T	T	70592890	3	4	27	1	0	0	0	0	1	0	0	0	15401	1281	45	5	87	5	SULT1B1	4	70592890	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	440358	70592890	120561386	2283	24634											
C4orf35	85438	broad.mit.edu	37	chr4	71200957	71200957	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaacaactacagacaacaaActgacagctaaaaaggaaaa	23	4	5	9	0	1	2	1	1	0	1	1	3	1	3	0	1	6	1	0	1	10	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:71200957A>G	uc003hff.2	+	1	287	c.201A>G	c.(199-201)AAA>AAG	p.K67K		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	67						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				CAGACAACAAACTGACAGCTA	0.363													6	119					0	0	1	0	0		G	71200957	G	G	71200957	2	3	27	1	0	0	0	0	0	0	0	1	2268	40	2	3		3	C4orf35	4	71200957	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	608067	71200957	119953319	2284	24635											
C4orf35	85438	broad.mit.edu	37	chr4	71201519	71201519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagatgacaccagtgctgtgGctacattaactgactctgat	12	11	9	9	0	1	4	0	3	1	1	1	4	1	4	1	1	3	2	1	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:71201519G>A	uc003hff.2	+	1	849	c.763G>A	c.(763-765)GCT>ACT	p.A255T		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	255						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				CAGTGCTGTGGCTACATTAAC	0.388													8	56					0	0	1	0	0		A	71201519	A	A	71201519	3	1	27	1	0	0	0	0	1	0	0	0	2268	1203	42	2	765	2	C4orf35	4	71201519	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	562	71201519	119952757	2285	24636											
ENAM	10117	broad.mit.edu	37	chr4	71508727	71508727	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagggtcaagaaggatgccAtatgaatcagaaactaatca	17	9	9	6	0	3	3	3	1	0	2	3	4	3	4	1	2	2	0	1	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:71508727A>G	uc011caw.1	+	9	1865	c.1584A>G	c.(1582-1584)CCA>CCG	p.P528P		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	528					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			GAAGGATGCCATATGAATCAG	0.418													24	104					0	0	1	0	0		G	71508727	G	G	71508727	2	3	27	1	0	0	0	0	0	0	0	1	5120	204	8	3		3	ENAM	4	71508727	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	307208	71508727	119645549	2286	24637											
ENAM	10117	broad.mit.edu	37	chr4	71509784	71509784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgctggtagctccacaGggcccaaggacaatccacta	10	7	11	13	0	0	0	0	0	0	0	2	1	2	1	3	3	2	4	3	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:71509784G>A	uc011caw.1	+	9	2922	c.2641G>A	c.(2641-2643)GGG>AGG	p.G881R		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	881					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			TAGCTCCACAGGGCCCAAGGA	0.493													3	61					0	0	1	0	0		A	71509784	A	A	71509784	3	1	27	1	0	0	0	0	1	0	0	0	5120	1000	35	4	2671	4	ENAM	4	71509784	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1057	71509784	119644492	2287	24638											
UTP3	57050	broad.mit.edu	37	chr4	71555419	71555419	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaactgattccaaaagcaaAatccaccaagcccaaaccaa	20	4	4	13	0	0	2	0	1	0	1	2	2	2	2	5	0	4	1	5	0	8	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:71555419A>G	uc003hfo.2	+	1	1224	c.1025A>G	c.(1024-1026)AAA>AGA	p.K342R		NM_020368	NP_065101	Q9NQZ2	SAS10_HUMAN	UTP3, small subunit processome component	342					brain development|chromatin modification|gene silencing	nucleolus					0			Lung(101;0.235)			CCAAAAGCAAAATCCACCAAG	0.403													5	138					0	0	1	0	0		G	71555419	G	G	71555419	3	3	27	1	0	0	0	0	1	0	0	0	17127	14	1	3	1027	3	UTP3	4	71555419	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	45635	71555419	119598857	2288	24639											
RUFY3	22902	broad.mit.edu	37	chr4	71634299	71634299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catgatggaagaagaaggagCcataattgctggtctgttgg	12	10	14	5	0	1	3	0	1	1	2	1	5	1	5	1	4	2	2	1	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:71634299C>T	uc003hfq.2	+	5	1212	c.617C>T	c.(616-618)GCC>GTC	p.A206V	RUFY3_uc003hfp.3_Missense_Mutation_p.A266V|RUFY3_uc011cax.1_Missense_Mutation_p.A224V|RUFY3_uc003hfr.2_Missense_Mutation_p.A206V|RUFY3_uc011cay.1_Missense_Mutation_p.A142V	NM_014961	NP_055776	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 2	206	RUN.				negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			GAAGAAGGAGCCATAATTGCT	0.408													14	148					0	0	1	0	0		T	71634299	T	T	71634299	3	4	27	1	0	0	0	0	1	0	0	0	13765	739	26	2	997	2	RUFY3	4	71634299	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	78880	71634299	119519977	2289	24640											
SLC4A4	8671	broad.mit.edu	37	chr4	72363287	72363287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatacggaggaaacctcGtcgggaacaactgtaatttt	15	9	9	8	3	0	0	0	0	0	0	2	3	0	3	1	3	4	1	1	3	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:72363287G>A	uc003hfy.2	+	16	2161	c.2044G>A	c.(2044-2046)GTC>ATC	p.V682I	SLC4A4_uc010iic.2_Missense_Mutation_p.V682I|SLC4A4_uc010iib.2_Missense_Mutation_p.V682I|SLC4A4_uc003hfz.2_Missense_Mutation_p.V682I|SLC4A4_uc003hgc.3_Missense_Mutation_p.V638I|SLC4A4_uc010iid.2_Intron	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	682	Extracellular (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			AGGAAACCTCGTCGGGAACAA	0.373													15	42					0	0	1	0	0		A	72363287	A	A	72363287	3	1	27	1	0	0	0	0	1	0	0	0	14681	1145	40	1	2223	1	SLC4A4	4	72363287	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	728988	72363287	118790989	2290	24641											
SLC4A4	8671	broad.mit.edu	37	chr4	72429508	72429508	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgtacatttttttcacAgtctgactgcccatactcag	8	16	5	12	0	4	1	2	1	2	0	4	1	4	1	1	0	3	1	1	0	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:72429508A>G	uc003hfy.2	+	24	3217	c.3100_splice	c.e24-2	p.S1034_splice	SLC4A4_uc010iic.2_Intron|SLC4A4_uc010iib.2_Splice_Site_p.S950_splice|SLC4A4_uc003hfz.2_Splice_Site_p.S1034_splice|SLC4A4_uc003hgc.3_Splice_Site_p.S990_splice|SLC4A4_uc010iid.2_Splice_Site_p.S238_splice	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate							basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			TTTTTTTCACAGTCTGACTGC	0.358													16	143					0	0	1	0	0		G	72429508	G	G	72429508	5	3	27	1	0	0	0	0	0	0	1	0	14681	202	7	3	3309	3	SLC4A4	4	72429508	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	66221	72429508	118724768	2291	24642											
NPFFR2	10886	broad.mit.edu	37	chr4	72994607	72994607	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggcatattctgcatgcCtataacactgctggacaata	12	12	8	9	0	1	0	0	0	1	0	1	1	1	1	1	2	4	4	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:72994607C>A	uc003hgg.2	+	2	703	c.605C>A	c.(604-606)CCT>CAT	p.P202H	NPFFR2_uc010iig.1_Intron|NPFFR2_uc003hgi.2_Missense_Mutation_p.P103H|NPFFR2_uc003hgh.2_Missense_Mutation_p.P100H	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	202	Helical; Name=2; (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			TTCTGCATGCCTATAACACTG	0.373													9	120					2.17888e-05	2.33116e-05	1	1	0		A	72994607	A	A	72994607	3	1	27	1	0	0	0	0	1	0	0	0	10597	681	24	5	617	5	NPFFR2	4	72994607	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	565099	72994607	118159669	2292	24643											
ANKRD17	26057	broad.mit.edu	37	chr4	73943171	73943171	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcgctccattgcttgatgTtgtgaaaatactcctgggtc	7	15	9	10	1	1	2	0	2	1	0	5	2	3	2	2	1	2	3	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:73943171T>C	uc003hgp.2	-	32	7605	c.7488A>G	c.(7486-7488)CAA>CAG	p.Q2496Q	ANKRD17_uc003hgo.2_Silent_p.Q2383Q|ANKRD17_uc003hgq.2_Silent_p.Q2245Q|ANKRD17_uc003hgr.2_Silent_p.Q2495Q	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	2496					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TTGCTTGATGTTGTGAAAATA	0.468													14	132					0	0	1	0	0		C	73943171	C	C	73943171	2	2	27	1	0	0	0	0	0	0	0	1	646	1722	60	3		3	ANKRD17	4	73943171	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	948564	73943171	117211105	2293	24644											
ANKRD17	26057	broad.mit.edu	37	chr4	73956669	73956669	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attctgacaagcactttgtgTacttaaggtcgaaggtagct	11	13	10	7	1	1	1	0	1	1	0	2	2	1	1	0	2	3	4	0	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:73956669T>A	uc003hgp.2	-	29	6793	c.6676A>T	c.(6676-6678)ACA>TCA	p.T2226S	ANKRD17_uc003hgo.2_Missense_Mutation_p.T2113S|ANKRD17_uc003hgq.2_Missense_Mutation_p.T1975S|ANKRD17_uc003hgr.2_Missense_Mutation_p.T2225S	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	2226					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GCACTTTGTGTACTTAAGGTC	0.438													13	255					0	0	1	0	0		A	73956669	A	A	73956669	3	1	27	1	0	0	0	0	1	0	0	0	646	1638	57	5	1159	5	ANKRD17	4	73956669	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	13498	73956669	117197607	2294	24645											
ANKRD17	26057	broad.mit.edu	37	chr4	73957601	73957601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attgagctggtggaaaagtaCctccaaagtgggtcatgggc	11	9	14	7	0	1	1	1	1	0	0	2	2	2	2	2	4	2	2	2	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:73957601C>T	uc003hgp.2	-	29	5861	c.5744G>A	c.(5743-5745)GGT>GAT	p.G1915D	ANKRD17_uc003hgo.2_Missense_Mutation_p.G1802D|ANKRD17_uc003hgq.2_Missense_Mutation_p.G1664D|ANKRD17_uc003hgr.2_Missense_Mutation_p.G1914D	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1915					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TGGAAAAGTACCTCCAAAGTG	0.542													11	79					0	0	1	0	0		T	73957601	T	T	73957601	3	4	27	1	0	0	0	0	1	0	0	0	646	507	18	4	2091	4	ANKRD17	4	73957601	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	932	73957601	117196675	2295	24646											
ANKRD17	26057	broad.mit.edu	37	chr4	73957799	73957799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggcacagtgagtgctgtgGcagtttgagatgttgatgac	9	11	15	6	0	0	4	0	4	0	1	0	5	0	4	0	2	1	5	0	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:73957799G>A	uc003hgp.2	-	29	5663	c.5546C>T	c.(5545-5547)GCC>GTC	p.A1849V	ANKRD17_uc003hgo.2_Missense_Mutation_p.A1736V|ANKRD17_uc003hgq.2_Missense_Mutation_p.A1598V|ANKRD17_uc003hgr.2_Missense_Mutation_p.A1848V	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1849					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GAGTGCTGTGGCAGTTTGAGA	0.438													16	149					0	0	1	0	0		A	73957799	A	A	73957799	3	1	27	1	0	0	0	0	1	0	0	0	646	1203	42	2	2289	2	ANKRD17	4	73957799	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	198	73957799	117196477	2296	24647											
ANKRD17	26057	broad.mit.edu	37	chr4	74005463	74005463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcaaagcttgaggcatcGccagaggctggattggcgca	10	6	16	9	2	0	2	0	1	0	1	1	4	0	3	1	5	1	5	1	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:74005463G>A	uc003hgp.2	-	15	2987	c.2870C>T	c.(2869-2871)GCG>GTG	p.A957V	ANKRD17_uc003hgo.2_Missense_Mutation_p.A844V|ANKRD17_uc003hgq.2_Intron|ANKRD17_uc003hgr.2_Missense_Mutation_p.A957V|ANKRD17_uc011cbd.1_Missense_Mutation_p.A522V	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	957	Gln-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TTGAGGCATCGCCAGAGGCTG	0.532													9	98					0	0	1	0	0		A	74005463	A	A	74005463	3	1	27	1	0	0	0	0	1	0	0	0	646	1087	38	1	5021	1	ANKRD17	4	74005463	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	47664	74005463	117148813	2297	24648											
ANKRD17	26057	broad.mit.edu	37	chr4	74005740	74005740	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgtagttcctccaaaaTcttttgtttcttctgaattt	7	22	4	8	0	4	1	0	1	4	0	6	1	6	1	2	0	0	3	2	0	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:74005740T>A	uc003hgp.2	-	15	2710	c.2593A>T	c.(2593-2595)ATT>TTT	p.I865F	ANKRD17_uc003hgo.2_Missense_Mutation_p.I752F|ANKRD17_uc003hgq.2_Intron|ANKRD17_uc003hgr.2_Missense_Mutation_p.I865F|ANKRD17_uc011cbd.1_Missense_Mutation_p.I430F	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	865	Gln-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCCTCCAAAATCTTTTGTTTC	0.413													20	189					0	0	1	0	0		A	74005740	A	A	74005740	3	1	27	1	0	0	0	0	1	0	0	0	646	1435	50	5	5298	5	ANKRD17	4	74005740	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	277	74005740	117148536	2298	24649											
ANKRD17	26057	broad.mit.edu	37	chr4	74007530	74007530	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgaggtggaacaaccaTgggcagtgcttgaactggta	10	9	13	9	0	0	2	0	2	0	0	1	3	1	3	2	4	4	3	2	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:74007530T>C	uc003hgp.2	-	14	2377	c.2260A>G	c.(2260-2262)ATG>GTG	p.M754V	ANKRD17_uc003hgo.2_Missense_Mutation_p.M641V|ANKRD17_uc003hgq.2_Missense_Mutation_p.M754V|ANKRD17_uc003hgr.2_Missense_Mutation_p.M754V|ANKRD17_uc011cbd.1_Missense_Mutation_p.M319V	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	754					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GGAACAACCATGGGCAGTGCT	0.433													4	36					0	0	1	0	0		C	74007530	C	C	74007530	3	2	27	1	0	0	0	0	1	0	0	0	646	1464	51	3	5635	3	ANKRD17	4	74007530	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1790	74007530	117146746	2299	24650											
ALB	213	broad.mit.edu	37	chr4	74275073	74275073	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctttttcaaaatttagaTacttatatgaaattgccaga	14	18	4	5	0	2	3	1	1	1	2	2	3	2	3	1	0	2	0	1	0	7	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:74275073T>A	uc003hgs.3	+	5	557	c.484T>A	c.(484-486)TAC>AAC	p.Y162N	ALB_uc003hgw.3_Intron|ALB_uc011cbe.1_5'UTR|ALB_uc003hgt.3_Missense_Mutation_p.Y162N|ALB_uc010iii.2_Missense_Mutation_p.Y47N|ALB_uc003hgu.3_Missense_Mutation_p.Y12N|ALB_uc003hgv.3_5'UTR|ALB_uc011cbf.1_Missense_Mutation_p.Y52N|ALB_uc010iij.2_RNA|ALB_uc003hgx.3_5'UTR	NM_000477	NP_000468	P02768	ALBU_HUMAN	albumin preproprotein	162	Albumin 1.				bile acid and bile salt transport|bile acid metabolic process|cellular response to starvation|hemolysis by symbiont of host erythrocytes|lipoprotein metabolic process|maintenance of mitochondrion location|negative regulation of apoptosis|platelet activation|platelet degranulation|sodium-independent organic anion transport|transmembrane transport	extracellular space|platelet alpha granule lumen|protein complex	antioxidant activity|chaperone binding|copper ion binding|DNA binding|drug binding|fatty acid binding|pyridoxal phosphate binding|toxin binding			ovary(3)|skin(3)	6	Breast(15;0.00102)		Epithelial(6;4.8e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000263)|all cancers(17;0.000472)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Acenocoumarol(DB01418)|Acitretin(DB00459)|Alfentanil(DB00802)|Aluminium(DB01370)|Auranofin(DB00995)|Bismuth(DB01402)|Captopril(DB01197)|Carboplatin(DB00958)|Cefalotin(DB00456)|Cefazolin(DB01327)|Cefonicid(DB01328)|Cefoperazone(DB01329)|Chlorpheniramine(DB01114)|Chlorpromazine(DB00477)|Ciprofloxacin(DB00537)|Clonazepam(DB01068)|Cloxacillin(DB01147)|Cytarabine(DB00987)|Dantrolene(DB01219)|Diclofenac(DB00586)|Diflunisal(DB00861)|Digitoxin(DB01396)|Estrone(DB00655)|Ethacrynic acid(DB00903)|Etodolac(DB00749)|Flurbiprofen(DB00712)|Gadobenate Dimeglumine(DB00743)|Gatifloxacin(DB01044)|Gliclazide(DB01120)|Halothane(DB01159)|Human Serum Albumin(DB00062)|Hyaluronidase(DB00070)|Ibuprofen(DB01050)|Insulin-detemir(DB01307)|Insulin-glargine(DB01308)|Iodipamide(DB04711)|Ketoprofen(DB01009)|Levamisole(DB00848)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Mefenamic acid(DB00784)|Mephenytoin(DB00532)|Methotrexate(DB00563)|Nortriptyline(DB00540)|Oxazepam(DB00842)|Paclitaxel(DB01229)|Phenprocoumon(DB00946)|Probenecid(DB01032)|Propofol(DB00818)|Pyridoxine(DB00165)|Salicyclic acid(DB00936)|Saquinavir(DB01232)|Serum albumin(DB00096)|Serum albumin iodonated(DB00064)|Sodium lauryl sulfate(DB00815)|Sucralfate(DB00364)|Sulfamethizole(DB00576)|Sulindac(DB00605)|Suprofen(DB00870)|Testosterone(DB00624)|Xanthophyll(DB00137)	AAAATTTAGATACTTATATGA	0.343													5	81					0	0	1	0	0		A	74275073	A	A	74275073	3	1	27	1	0	0	0	0	1	0	0	0	486	1420	49	5	502	5	ALB	4	74275073	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	267543	74275073	116879203	2300	24651											
ALB	213	broad.mit.edu	37	chr4	74283993	74283993	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatgcagatatatgcacActttctgagaaggagagaca	14	10	9	8	0	1	3	0	1	1	3	2	6	2	4	1	1	2	2	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:74283993A>G	uc003hgs.3	+	12	1690	c.1617A>G	c.(1615-1617)ACA>ACG	p.T539T	ALB_uc003hgw.3_Silent_p.T347T|ALB_uc011cbe.1_Silent_p.T218T|ALB_uc003hgt.3_Silent_p.T539T|ALB_uc010iii.2_Silent_p.T424T|ALB_uc003hgu.3_Silent_p.T389T|ALB_uc003hgv.3_Silent_p.T218T|ALB_uc011cbf.1_Silent_p.T429T|ALB_uc010iij.2_RNA|ALB_uc003hgx.3_Silent_p.T218T	NM_000477	NP_000468	P02768	ALBU_HUMAN	albumin preproprotein	539	Albumin 3.				bile acid and bile salt transport|bile acid metabolic process|cellular response to starvation|hemolysis by symbiont of host erythrocytes|lipoprotein metabolic process|maintenance of mitochondrion location|negative regulation of apoptosis|platelet activation|platelet degranulation|sodium-independent organic anion transport|transmembrane transport	extracellular space|platelet alpha granule lumen|protein complex	antioxidant activity|chaperone binding|copper ion binding|DNA binding|drug binding|fatty acid binding|pyridoxal phosphate binding|toxin binding			ovary(3)|skin(3)	6	Breast(15;0.00102)		Epithelial(6;4.8e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000263)|all cancers(17;0.000472)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Acenocoumarol(DB01418)|Acitretin(DB00459)|Alfentanil(DB00802)|Aluminium(DB01370)|Auranofin(DB00995)|Bismuth(DB01402)|Captopril(DB01197)|Carboplatin(DB00958)|Cefalotin(DB00456)|Cefazolin(DB01327)|Cefonicid(DB01328)|Cefoperazone(DB01329)|Chlorpheniramine(DB01114)|Chlorpromazine(DB00477)|Ciprofloxacin(DB00537)|Clonazepam(DB01068)|Cloxacillin(DB01147)|Cytarabine(DB00987)|Dantrolene(DB01219)|Diclofenac(DB00586)|Diflunisal(DB00861)|Digitoxin(DB01396)|Estrone(DB00655)|Ethacrynic acid(DB00903)|Etodolac(DB00749)|Flurbiprofen(DB00712)|Gadobenate Dimeglumine(DB00743)|Gatifloxacin(DB01044)|Gliclazide(DB01120)|Halothane(DB01159)|Human Serum Albumin(DB00062)|Hyaluronidase(DB00070)|Ibuprofen(DB01050)|Insulin-detemir(DB01307)|Insulin-glargine(DB01308)|Iodipamide(DB04711)|Ketoprofen(DB01009)|Levamisole(DB00848)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Mefenamic acid(DB00784)|Mephenytoin(DB00532)|Methotrexate(DB00563)|Nortriptyline(DB00540)|Oxazepam(DB00842)|Paclitaxel(DB01229)|Phenprocoumon(DB00946)|Probenecid(DB01032)|Propofol(DB00818)|Pyridoxine(DB00165)|Salicyclic acid(DB00936)|Saquinavir(DB01232)|Serum albumin(DB00096)|Serum albumin iodonated(DB00064)|Sodium lauryl sulfate(DB00815)|Sucralfate(DB00364)|Sulfamethizole(DB00576)|Sulindac(DB00605)|Suprofen(DB00870)|Testosterone(DB00624)|Xanthophyll(DB00137)	ATATATGCACACTTTCTGAGA	0.398													3	66					0	0	1	0	0		G	74283993	G	G	74283993	2	3	27	1	0	0	0	0	0	0	0	1	486	146	6	3		3	ALB	4	74283993	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8920	74283993	116870283	2301	24652											
AFM	173	broad.mit.edu	37	chr4	74357801	74357801	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacccagacaccttctttgcGaagtaatataactctttatt	12	14	5	10	1	2	1	0	0	2	1	2	3	2	1	2	0	2	1	2	0	5	8	rs141061547		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:74357801G>A	uc003hhb.2	+	8	1087	c.1056G>A	c.(1054-1056)GCG>GCA	p.A352A		NM_001133	NP_001124	P43652	AFAM_HUMAN	afamin precursor	352	Albumin 2.				vitamin transport		vitamin E binding			ovary(2)|central_nervous_system(1)	3	Breast(15;0.00102)		Epithelial(6;5.69e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|all cancers(17;0.000555)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CCTTCTTTGCGAAGTAATATA	0.343													13	33					0	0	1	0	0		A	74357801	A	A	74357801	2	1	27	1	0	0	0	0	0	0	0	1	361	1045	37	1		1	AFM	4	74357801	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	73808	74357801	116796475	2302	24653											
G3BP2	9908	broad.mit.edu	37	chr4	76582913	76582913	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatactttgtggtgtataTcctttattagggagggaggg	10	15	13	3	0	0	0	0	0	0	0	1	2	1	2	1	4	1	1	1	4	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:76582913T>A	uc003hir.2	-	4	344	c.179A>T	c.(178-180)GAT>GTT	p.D60V	G3BP2_uc003his.2_Missense_Mutation_p.D60V|G3BP2_uc003hit.2_Missense_Mutation_p.D60V	NM_012297	NP_036429	Q9UN86	G3BP2_HUMAN	Ras-GTPase activating protein SH3 domain-binding	60	NTF2.				cytoplasmic sequestering of NF-kappaB|mRNA transport|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	GTPase activator activity|nucleotide binding|receptor signaling complex scaffold activity|RNA binding			breast(2)|central_nervous_system(1)	3			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			GTGGTGTATATCCTTTATTAG	0.373													12	121					0	0	1	0	0		A	76582913	A	A	76582913	3	1	27	1	0	0	0	0	1	0	0	0	6156	1449	50	5	1305	5	G3BP2	4	76582913	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2225112	76582913	114571363	2303	24654											
USO1	8615	broad.mit.edu	37	chr4	76731585	76731585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttccaatttctaatttcagGcaaaatcagttgaggtacaa	14	14	6	7	0	3	1	2	1	1	0	4	1	4	1	1	2	1	3	1	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:76731585G>A	uc003hiu.2	+	21	2651	c.2476G>A	c.(2476-2478)GCA>ACA	p.A826T	USO1_uc003hiv.2_Missense_Mutation_p.A668T|USO1_uc003hiw.2_Missense_Mutation_p.A661T	NM_003715	NP_003706	O60763	USO1_HUMAN	USO1 homolog, vesicle docking protein	826	Potential.				intracellular protein transport|vesicle fusion with Golgi apparatus	cytosol|Golgi membrane	protein binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			CTAATTTCAGGCAAAATCAGT	0.328													4	23					0	0	1	0	0		A	76731585	A	A	76731585	3	1	27	1	0	0	0	0	1	0	0	0	17065	1217	42	2	2403	2	USO1	4	76731585	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	148672	76731585	114422691	2304	24655											
USO1	8615	broad.mit.edu	37	chr4	76734383	76734383	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagaggatgaacttgaaTctggagaccaagaggatgag	17	6	14	4	0	1	7	0	3	1	4	1	10	1	9	1	3	1	0	1	3	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:76734383T>A	uc003hiu.2	+	23	2999	c.2824T>A	c.(2824-2826)TCT>ACT	p.S942T	USO1_uc003hiv.2_Missense_Mutation_p.S784T|USO1_uc003hiw.2_Missense_Mutation_p.S777T	NM_003715	NP_003706	O60763	USO1_HUMAN	USO1 homolog, vesicle docking protein	942	Asp/Glu-rich (acidic).			S->D: Decreased association with Golgi membranes.|S->A: Loss of phosphorylation. Promotes association with Golgi membranes.	intracellular protein transport|vesicle fusion with Golgi apparatus	cytosol|Golgi membrane	protein binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TGAACTTGAATCTGGAGACCA	0.338													10	72					0	0	1	0	0		A	76734383	A	A	76734383	3	1	27	1	0	0	0	0	1	0	0	0	17065	1435	50	5	2759	5	USO1	4	76734383	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2798	76734383	114419893	2305	24656											
NAAA	27163	broad.mit.edu	37	chr4	76842211	76842211	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaatgtaataaacatcAgcaataaggggagtcttggc	16	8	9	8	0	2	0	1	0	1	0	2	1	2	1	1	3	3	2	1	3	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:76842211A>G	uc003hjb.2	-	6	796	c.732T>C	c.(730-732)GCT>GCC	p.A244A	NAAA_uc003hja.2_Silent_p.A244A|NAAA_uc003hjc.3_Silent_p.A244A|NAAA_uc003hjd.3_RNA|NAAA_uc011cbq.1_Silent_p.A143A	NM_014435	NP_055250	Q02083	NAAA_HUMAN	N-acylethanolamine acid amidase isoform 1	244					lipid metabolic process	lysosome	hydrolase activity			skin(1)	1						AATAAACATCAGCAATAAGGG	0.527													4	66					0	0	1	0	0		G	76842211	G	G	76842211	2	3	27	1	0	0	0	0	0	0	0	1	10145	175	7	3		3	NAAA	4	76842211	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	107828	76842211	114312065	2306	24657											
ART3	419	broad.mit.edu	37	chr4	77003397	77003397	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaaactgtggtatatagaAcaagccagggcacttcattt	14	10	8	9	0	1	1	1	0	0	1	1	1	1	1	2	2	3	2	2	2	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:77003397A>G	uc003hjo.2	+	3	609	c.490A>G	c.(490-492)ACA>GCA	p.T164A	ART3_uc003hji.2_Missense_Mutation_p.T164A|ART3_uc003hjj.2_Missense_Mutation_p.T164A|ART3_uc003hjk.2_Missense_Mutation_p.T164A|ART3_uc010ija.1_Missense_Mutation_p.T164A|ART3_uc003hjn.2_Missense_Mutation_p.T164A|ART3_uc003hjp.2_Intron|ART3_uc010ijb.2_Intron|ART3_uc003hjq.2_Intron|ART3_uc003hjr.2_Missense_Mutation_p.T134A|ART3_uc010ijc.2_Missense_Mutation_p.T134A|ART3_uc010ijd.2_Missense_Mutation_p.T134A	NM_001130016	NP_001123488	Q13508	NAR3_HUMAN	ADP-ribosyltransferase 3 isoform a	164					protein ADP-ribosylation	anchored to membrane|integral to plasma membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity			ovary(2)	2			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			GGTATATAGAACAAGCCAGGG	0.463													4	40					0	0	1	0	0		G	77003397	G	G	77003397	3	3	27	1	0	0	0	0	1	0	0	0	999	43	2	3	496	3	ART3	4	77003397	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	161186	77003397	114150879	2307	24658											
NUP54	53371	broad.mit.edu	37	chr4	77057529	77057529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagctggttggactgggtaGgagcttgtgtaggctgactg	6	12	17	6	0	1	1	1	1	0	0	1	3	1	3	0	5	2	6	0	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:77057529G>A	uc003hjs.2	-	4	460	c.332C>T	c.(331-333)CCT>CTT	p.P111L	NUP54_uc010ije.2_Intron|NUP54_uc011cbs.1_Intron|NUP54_uc011cbt.1_Missense_Mutation_p.P63L|NUP54_uc003hjt.2_Intron	NM_017426	NP_059122	Q7Z3B4	NUP54_HUMAN	nucleoporin 54kDa	111	9 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|mRNA transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleoplasm				ovary(1)|lung(1)	2						GGACTGGGTAGGAGCTTGTGT	0.383													17	92					0	0	1	0	0		A	77057529	A	A	77057529	3	1	27	1	0	0	0	0	1	0	0	0	10786	1000	35	4	1227	4	NUP54	4	77057529	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	54132	77057529	114096747	2308	24659											
SHROOM3	57619	broad.mit.edu	37	chr4	77677703	77677703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcttccagactccaaacttCtatcaagggttcagaggctg	10	10	10	11	0	3	2	2	0	1	2	5	2	5	2	2	3	1	3	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:77677703C>T	uc011cbx.1	+	8	5764	c.4811C>T	c.(4810-4812)TCT>TTT	p.S1604F	SHROOM3_uc003hkg.2_Missense_Mutation_p.S1382F	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	1604					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			CTCCAAACTTCTATCAAGGGT	0.527													4	51					0	0	1	0	0		T	77677703	T	T	77677703	3	4	27	1	0	0	0	0	1	0	0	0	14320	913	32	4	4841	4	SHROOM3	4	77677703	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	620174	77677703	113476573	2309	24660											
ANKRD56	345079	broad.mit.edu	37	chr4	77817430	77817430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctggatcgaggtgggcGccgacttcttttcagcaagc	6	11	12	12	3	2	0	1	0	1	0	4	3	3	1	2	3	2	1	2	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:77817430G>A	uc003hki.2	-	1	1573	c.1573C>T	c.(1573-1575)CGC>TGC	p.R525C		NM_001029870	NP_001025041	A6NEL2	ANR56_HUMAN	ankyrin repeat domain 56	525											0						CGAGGTGGGCGCCGACTTCTT	0.552													9	40					0	0	1	0	0		A	77817430	A	A	77817430	3	1	27	1	0	0	0	0	1	0	0	0	682	1087	38	1	812	1	ANKRD56	4	77817430	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	139727	77817430	113336846	2310	24661											
SEPT11	55752	broad.mit.edu	37	chr4	77926846	77926846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcacaatgaaccaggtgttCggttaaaagccagaagttat	14	10	9	8	1	1	2	1	1	0	1	2	2	1	2	2	2	2	3	2	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:77926846C>T	uc003hkj.2	+	3	397	c.235C>T	c.(235-237)CGG>TGG	p.R79W	SEPT11_uc010ijh.1_Missense_Mutation_p.R71W|SEPT11_uc011cca.1_Missense_Mutation_p.R89W	NM_018243	NP_060713	Q9NVA2	SEP11_HUMAN	septin 11	79					cell cycle|cell division|protein heterooligomerization	axon|cell junction|dendritic spine|septin complex|stress fiber|synapse	GTP binding|protein binding				0						ACCAGGTGTTCGGTTAAAAGC	0.418													8	89					0	0	1	0	0		T	77926846	T	T	77926846	3	4	27	1	0	0	0	0	1	0	0	0	14086	875	31	1	245	1	SEPT11	4	77926846	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	109416	77926846	113227430	2311	24662											
FRAS1	80144	broad.mit.edu	37	chr4	79258953	79258953	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaagagcagttcctcaacCtcgtgggatactgtgctggt	8	10	14	9	1	1	1	1	0	0	1	3	3	2	3	2	3	4	3	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:79258953C>A	uc003hlb.2	+	20	2844	c.2404C>A	c.(2404-2406)CTC>ATC	p.L802I	FRAS1_uc003hkw.2_Missense_Mutation_p.L802I|FRAS1_uc003hkz.2_Missense_Mutation_p.L506I	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	802	Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						GTTCCTCAACCTCGTGGGATA	0.552													9	69					7.48243e-07	8.13385e-07	1	1	0		A	79258953	A	A	79258953	3	1	27	1	0	0	0	0	1	0	0	0	6056	681	24	5	2482	5	FRAS1	4	79258953	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1332107	79258953	111895323	2312	24663											
FRAS1	80144	broad.mit.edu	37	chr4	79367983	79367983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctttgagcctgcaagacctgGacaccccagataatgagctc	11	8	9	13	0	0	4	0	2	0	2	1	5	0	5	4	1	3	2	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:79367983G>A	uc003hlb.2	+	43	6399	c.5959G>A	c.(5959-5961)GAC>AAC	p.D1987N		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	1986	CSPG 8.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						GCAAGACCTGGACACCCCAGA	0.498													3	18					0	0	1	0	0		A	79367983	A	A	79367983	3	1	27	1	0	0	0	0	1	0	0	0	6056	1174	41	4	6204	4	FRAS1	4	79367983	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	109030	79367983	111786293	2313	24664											
FRAS1	80144	broad.mit.edu	37	chr4	79461776	79461776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtccagcgctctctcacagCtccactcagacgcaaccgaa	10	6	8	17	3	3	1	2	0	1	1	6	2	5	1	3	1	3	3	3	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:79461776C>T	uc003hlb.2	+	74	11977	c.11537C>T	c.(11536-11538)GCT>GTT	p.A3846V		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	3841	Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TCTCTCACAGCTCCACTCAGA	0.562													3	44					0	0	1	0	0		T	79461776	T	T	79461776	3	4	27	1	0	0	0	0	1	0	0	0	6056	797	28	2	11906	2	FRAS1	4	79461776	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	93793	79461776	111692500	2314	24665											
BMP3	651	broad.mit.edu	37	chr4	81967100	81967100	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accctcaaattcagcagaaaCcaaagtcaactccttggcca	15	7	5	14	0	3	1	3	0	0	1	4	1	4	1	4	1	3	1	4	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:81967100C>T	uc003hmg.3	+	2	845	c.525C>T	c.(523-525)AAC>AAT	p.N175N		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	175					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						TCAGCAGAAACCAAAGTCAAC	0.458													37	120					0	0	1	0	0		T	81967100	T	T	81967100	2	4	27	1	0	0	0	0	0	0	0	1	1462	506	18	4		4	BMP3	4	81967100	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2505324	81967100	109187176	2315	24666											
BMP3	651	broad.mit.edu	37	chr4	81967414	81967414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggatagccacatcagagctgCcctttccattgagcggagga	10	8	12	11	1	1	2	1	1	0	1	2	5	2	5	3	3	4	1	3	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:81967414C>T	uc003hmg.3	+	2	1159	c.839C>T	c.(838-840)GCC>GTC	p.A280V		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	280					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						ATCAGAGCTGCCCTTTCCATT	0.517													13	86					0	0	1	0	0		T	81967414	T	T	81967414	3	4	27	1	0	0	0	0	1	0	0	0	1462	739	26	2	845	2	BMP3	4	81967414	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	314	81967414	109186862	2316	24667											
PRKG2	5593	broad.mit.edu	37	chr4	82096046	82096046	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattccaccatgtctttgaTctgctgaggatccagtcttt	7	15	8	11	0	3	2	0	2	3	0	5	3	5	3	3	1	1	2	3	1	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:82096046T>G	uc003hmh.2	-	2	543	c.529A>C	c.(529-531)ATC>CTC	p.I177L	PRKG2_uc011cch.1_Missense_Mutation_p.I177L	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	177	cGMP 1.				platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						ATGTCTTTGATCTGCTGAGGA	0.393													12	132					0	0	1	0	0		G	82096046	G	G	82096046	3	3	27	1	0	0	0	0	1	0	0	0	12545	1435	50	5	1827	5	PRKG2	4	82096046	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	128632	82096046	109058230	2317	24668											
ENOPH1	58478	broad.mit.edu	37	chr4	83378162	83378162	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattgggtgctcaaccaacaAcattttgtttctgacagatg	11	13	8	9	0	2	2	1	1	1	1	2	2	2	2	1	1	4	2	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:83378162A>G	uc003hmv.2	+	5	874	c.617A>G	c.(616-618)AAC>AGC	p.N206S	ENOPH1_uc003hmw.2_Missense_Mutation_p.N118S|ENOPH1_uc003hmx.2_Missense_Mutation_p.N60S	NM_021204	NP_067027	Q9UHY7	ENOPH_HUMAN	enolase-phosphatase 1	206					L-methionine salvage from methylthioadenosine	cytoplasm|nucleus	2,3-diketo-5-methylthiopentyl-1-phosphate enolase activity|2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase activity|acireductone synthase activity|magnesium ion binding|phosphoglycolate phosphatase activity				0						TCAACCAACAACATTTTGTTT	0.398													10	71					0	0	1	0	0		G	83378162	G	G	83378162	3	3	27	1	0	0	0	0	1	0	0	0	5132	43	2	3	635	3	ENOPH1	4	83378162	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1282116	83378162	107776114	2318	24669											
MRPS18C	51023	broad.mit.edu	37	chr4	84379541	84379541	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaagaacctcttaagaaaTgtatcttgtgtggaaagcat	16	12	8	5	0	2	2	0	0	2	2	2	3	2	3	1	1	2	2	1	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:84379541T>C	uc003hor.3	+	3	306	c.193T>C	c.(193-195)TGT>CGT	p.C65R	HELQ_uc003hom.2_5'Flank|HELQ_uc010ikb.2_5'Flank|HELQ_uc003hol.3_5'Flank|HELQ_uc010ikc.2_5'Flank|HELQ_uc003hon.1_5'Flank|HELQ_uc003hoo.1_5'Flank|HELQ_uc003hop.1_5'Flank|HELQ_uc003hoq.1_5'Flank|MRPS18C_uc011ccu.1_Missense_Mutation_p.C65R	NM_016067	NP_057151	Q9Y3D5	RT18C_HUMAN	mitochondrial ribosomal protein S18C precursor	65					translation	mitochondrial small ribosomal subunit	structural constituent of ribosome				0		Hepatocellular(203;0.114)				TCTTAAGAAATGTATCTTGTG	0.318													7	64					0	0	1	0	0		C	84379541	C	C	84379541	3	2	27	1	0	0	0	0	1	0	0	0	9848	1464	51	3	203	3	MRPS18C	4	84379541	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1001379	84379541	106774735	2319	24670											
NKX6-1	4825	broad.mit.edu	37	chr4	85414655	85414655	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttggccgtggccatctcGgcagcgtgcttcttcctcca	3	13	10	15	3	3	0	0	0	3	0	6	0	5	0	4	3	2	2	4	3	0	4	rs140353706	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:85414655G>A	uc003hpa.1	-	3	897	c.891C>T	c.(889-891)GCC>GCT	p.A297A		NM_006168	NP_006159	P78426	NKX61_HUMAN	NK6 transcription factor related, locus 1	297					detection of glucose|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|type B pancreatic cell maturation	nucleus					0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.0013)		TGGCCATCTCGGCAGCGTGCT	0.602													7	69					0	0	1	0	0		A	85414655	A	A	85414655	2	1	27	1	0	0	0	0	0	0	0	1	10476	1103	39	1		1	NKX6-1	4	85414655	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1035114	85414655	105739621	2320	24671											
CDS1	1040	broad.mit.edu	37	chr4	85552990	85552990	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtttctgcatgtttgtacTgagtttggtgaagaaacatt	10	16	11	4	0	1	3	0	2	1	1	1	3	1	3	0	2	3	5	0	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:85552990T>A	uc011ccv.1	+	6	1097	c.599T>A	c.(598-600)CTG>CAG	p.L200Q	CDS1_uc010ike.1_Missense_Mutation_p.L4Q	NM_001263	NP_001254	Q92903	CDS1_HUMAN	CDP-diacylglycerol synthase 1	200	Helical; (Potential).				signal transduction|visual perception	endoplasmic reticulum membrane|integral to membrane	diacylglycerol cholinephosphotransferase activity|phosphatidate cytidylyltransferase activity			large_intestine(2)|ovary(1)|breast(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.00101)		ATGTTTGTACTGAGTTTGGTG	0.323													7	164					0	0	1	0	0		A	85552990	A	A	85552990	3	1	27	1	0	0	0	0	1	0	0	0	3180	1580	55	5	621	5	CDS1	4	85552990	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	138335	85552990	105601286	2321	24672											
WDFY3	23001	broad.mit.edu	37	chr4	85612938	85612938	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctacaggttctttgagtTctagaaaaaagaaatcatgg	14	12	9	6	0	3	3	1	1	2	2	4	3	4	3	1	2	1	2	1	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:85612938T>C	uc003hpd.2	-	60	9458	c.9050A>G	c.(9049-9051)GAA>GGA	p.E3017G	WDFY3_uc003hpe.1_Missense_Mutation_p.E628G	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	3017						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TTCTTTGAGTTCTAGAAAAAA	0.328													7	40					0	0	1	0	0		C	85612938	C	C	85612938	3	2	27	1	0	0	0	0	1	0	0	0	17296	1797	62	3	1566	3	WDFY3	4	85612938	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	59948	85612938	105541338	2322	24673											
WDFY3	23001	broad.mit.edu	37	chr4	85654602	85654602	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataaaacatatcatttcgcAccatctttttcctcatcctg	11	16	2	12	1	3	0	2	0	1	0	6	0	5	0	3	0	1	1	3	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:85654602A>G	uc003hpd.2	-	44	7562	c.7154T>C	c.(7153-7155)GTG>GCG	p.V2385A	WDFY3_uc003hpe.1_Missense_Mutation_p.V13A	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2385						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		ATCATTTCGCACCATCTTTTT	0.512													8	249					0	0	1	0	0		G	85654602	G	G	85654602	3	3	27	1	0	0	0	0	1	0	0	0	17296	159	6	3	3526	3	WDFY3	4	85654602	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	41664	85654602	105499674	2323	24674											
WDFY3	23001	broad.mit.edu	37	chr4	85657439	85657439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taatttggactgtgtggtggGcgctaaagcttctcctcgac	7	13	12	9	2	1	0	0	0	1	0	3	2	1	1	1	3	1	2	1	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:85657439G>A	uc003hpd.2	-	42	7207	c.6799C>T	c.(6799-6801)CCC>TCC	p.P2267S	WDFY3_uc003hpe.1_5'Flank	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2267						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TGTGTGGTGGGCGCTAAAGCT	0.358													7	75					0	0	1	0	0		A	85657439	A	A	85657439	3	1	27	1	0	0	0	0	1	0	0	0	17296	1203	42	2	3889	2	WDFY3	4	85657439	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2837	85657439	105496837	2324	24675											
WDFY3	23001	broad.mit.edu	37	chr4	85658471	85658471	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacttgtttcttactatgtAtcagttcagtccaaactctg	10	16	6	9	0	4	1	2	0	2	1	5	1	5	1	1	0	2	3	1	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:85658471A>T	uc003hpd.2	-	41	7031	c.6623T>A	c.(6622-6624)ATA>AAA	p.I2208K		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2208						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CTTACTATGTATCAGTTCAGT	0.348													9	63					0	0	1	0	0		T	85658471	T	T	85658471	3	4	27	1	0	0	0	0	1	0	0	0	17296	449	16	5	4069	5	WDFY3	4	85658471	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1032	85658471	105495805	2325	24676											
WDFY3	23001	broad.mit.edu	37	chr4	85687073	85687073	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagactgattacttagtaggAcaacaagaatcctcatggct	14	11	8	8	0	1	3	1	1	0	2	2	4	2	4	1	2	2	2	1	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:85687073A>G	uc003hpd.2	-	32	5486	c.5078T>C	c.(5077-5079)GTC>GCC	p.V1693A		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1693						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		ACTTAGTAGGACAACAAGAAT	0.408													12	106					0	0	1	0	0		G	85687073	G	G	85687073	3	3	27	1	0	0	0	0	1	0	0	0	17296	275	10	3	5650	3	WDFY3	4	85687073	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	28602	85687073	105467203	2326	24677											
WDFY3	23001	broad.mit.edu	37	chr4	85707196	85707196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggattcttgccactgttagaGacgacacagagagtgcatag	12	9	12	8	1	1	2	0	0	1	2	1	6	1	3	1	1	2	2	1	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:85707196G>A	uc003hpd.2	-	24	4406	c.3998C>T	c.(3997-3999)TCT>TTT	p.S1333F		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1333						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CACTGTTAGAGACGACACAGA	0.448													9	75					0	0	1	0	0		A	85707196	A	A	85707196	3	1	27	1	0	0	0	0	1	0	0	0	17296	942	33	4	6762	4	WDFY3	4	85707196	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20123	85707196	105447080	2327	24678											
WDFY3	23001	broad.mit.edu	37	chr4	85731320	85731320	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgcagtcaacgtgcagaAcacagtgtgaagaagttcaa	14	8	11	8	1	2	3	2	1	0	2	2	3	2	3	0	0	5	4	0	0	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:85731320A>G	uc003hpd.2	-	14	2473	c.2065T>C	c.(2065-2067)TTC>CTC	p.F689L	WDFY3_uc003hpf.2_Missense_Mutation_p.F689L	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	689						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AACGTGCAGAACACAGTGTGA	0.448													4	96					0	0	1	0	0		G	85731320	G	G	85731320	3	3	27	1	0	0	0	0	1	0	0	0	17296	43	2	3	8778	3	WDFY3	4	85731320	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	24124	85731320	105422956	2328	24679											
WDFY3	23001	broad.mit.edu	37	chr4	85771148	85771148	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatcagaaaatttttctgTcattgtattcggcggagcat	12	14	9	6	2	3	2	2	0	1	2	4	3	3	3	0	2	1	2	0	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:85771148T>C	uc003hpd.2	-	5	619	c.211A>G	c.(211-213)ACA>GCA	p.T71A	WDFY3_uc003hpf.2_Missense_Mutation_p.T71A	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	71						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AATTTTTCTGTCATTGTATTC	0.343													6	106					0	0	1	0	0		C	85771148	C	C	85771148	3	2	27	1	0	0	0	0	1	0	0	0	17296	1667	58	3	10668	3	WDFY3	4	85771148	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	39828	85771148	105383128	2329	24680											
ARHGAP24	83478	broad.mit.edu	37	chr4	86916261	86916261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaatggaacggtgcgcatggGcattttgaacagcgacacac	12	7	13	9	3	0	1	0	1	0	0	0	4	0	2	0	3	4	2	0	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:86916261G>A	uc003hpk.2	+	9	1903	c.1454G>A	c.(1453-1455)GGC>GAC	p.G485D	ARHGAP24_uc003hpl.2_Missense_Mutation_p.G390D|ARHGAP24_uc010ikf.2_Missense_Mutation_p.G400D|ARHGAP24_uc003hpm.2_Missense_Mutation_p.G392D	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1	485					angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		GTGCGCATGGGCATTTTGAAC	0.517													8	84					0	0	1	0	0		A	86916261	A	A	86916261	3	1	27	1	0	0	0	0	1	0	0	0	873	1203	42	2	1600	2	ARHGAP24	4	86916261	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1145113	86916261	104238015	2330	24681											
ARHGAP24	83478	broad.mit.edu	37	chr4	86916682	86916682	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaagtagtcgtgccaccagTagcagtgacaacagtgagac	13	6	12	10	2	0	2	0	2	0	1	1	4	0	2	2	0	3	3	2	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:86916682T>C	uc003hpk.2	+	9	2324	c.1875T>C	c.(1873-1875)AGT>AGC	p.S625S	ARHGAP24_uc003hpl.2_Silent_p.S530S|ARHGAP24_uc010ikf.2_Silent_p.S540S|ARHGAP24_uc003hpm.2_Silent_p.S532S	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1	625					angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		GTGCCACCAGTAGCAGTGACA	0.527													9	102					0	0	1	0	0		C	86916682	C	C	86916682	2	2	27	1	0	0	0	0	0	0	0	1	873	1635	57	3		3	ARHGAP24	4	86916682	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	421	86916682	104237594	2331	24682											
MAPK10	5602	broad.mit.edu	37	chr4	87028482	87028482	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttaatggccacatttctgTcaaggacagcatcatacgcg	11	11	8	11	2	4	0	2	0	2	0	4	1	4	1	1	2	2	1	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:87028482T>C	uc003hpq.2	-	4	327	c.260A>G	c.(259-261)GAC>GGC	p.D87G	MAPK10_uc010ikg.2_Missense_Mutation_p.D49G|MAPK10_uc003hpr.2_Missense_Mutation_p.D49G|MAPK10_uc003hps.2_Missense_Mutation_p.D87G|MAPK10_uc003hpt.2_Missense_Mutation_p.D87G|MAPK10_uc003hpu.2_Missense_Mutation_p.D87G|MAPK10_uc003hpv.2_5'UTR|MAPK10_uc010ikh.1_RNA|MAPK10_uc003hpo.2_5'UTR|MAPK10_uc011ccw.1_5'UTR|MAPK10_uc003hpp.2_5'UTR	NM_138982	NP_620448	P53779	MK10_HUMAN	mitogen-activated protein kinase 10 isoform 2	87	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)		CACATTTCTGTCAAGGACAGC	0.453													3	63					0	0	1	0	0		C	87028482	C	C	87028482	3	2	27	1	0	0	0	0	1	0	0	0	9290	1667	58	3	1179	3	MAPK10	4	87028482	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	111800	87028482	104125794	2332	24683											
PTPN13	5783	broad.mit.edu	37	chr4	87694086	87694086	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctttgaaaaatgacttggAaaatcaccttgaagactttg	15	12	7	7	0	1	4	1	3	0	1	1	5	1	5	2	1	0	0	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:87694086A>G	uc003hpz.2	+	32	5804	c.5324A>G	c.(5323-5325)GAA>GGA	p.E1775G	PTPN13_uc003hpy.2_Missense_Mutation_p.E1780G|PTPN13_uc003hqa.2_Missense_Mutation_p.E1756G|PTPN13_uc003hqb.2_Missense_Mutation_p.E1584G|PTPN13_uc003hqc.1_Missense_Mutation_p.E141G	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1775						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		AATGACTTGGAAAATCACCTT	0.313													6	47					0	0	1	0	0		G	87694086	G	G	87694086	3	3	27	1	0	0	0	0	1	0	0	0	12805	246	9	3	5461	3	PTPN13	4	87694086	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	665604	87694086	103460190	2333	24684											
C4orf36	132989	broad.mit.edu	37	chr4	87809323	87809323	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggtggtacattttgtgagCtgcacagaaccaccaaatga	13	10	10	8	0	0	3	0	2	0	1	0	3	0	3	2	2	4	3	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:87809323C>T	uc003hqe.3	-	3	484	c.171G>A	c.(169-171)CAG>CAA	p.Q57Q		NM_144645	NP_653246	Q96KX1	CD036_HUMAN	hypothetical protein LOC132989	57											0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00141)		ATTTTGTGAGCTGCACAGAAC	0.393													8	79					0	0	1	0	0		T	87809323	T	T	87809323	2	4	27	1	0	0	0	0	0	0	0	1	2269	796	28	2		2	C4orf36	4	87809323	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	115237	87809323	103344953	2334	24685											
AFF1	4299	broad.mit.edu	37	chr4	87967930	87967930	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagttccttagtactaaGtctcacactcatcgcctgga	11	11	8	11	1	2	0	2	0	1	0	5	2	3	2	2	2	1	2	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:87967930G>T	uc003hqj.3	+	3	629	c.222G>T	c.(220-222)AAG>AAT	p.K74N	AFF1_uc011ccx.1_Missense_Mutation_p.K15N|AFF1_uc003hqh.1_Missense_Mutation_p.K81N|AFF1_uc011ccy.1_Missense_Mutation_p.K81N|AFF1_uc011ccz.1_Missense_Mutation_p.K81N|AFF1_uc003hqk.3_Missense_Mutation_p.K74N|AFF1_uc011cda.1_Intron	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	74						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		TTAGTACTAAGTCTCACACTC	0.433													20	251					6.21321e-17	6.95437e-17	1	1	0		T	87967930	T	T	87967930	3	4	27	1	0	0	0	0	1	0	0	0	356	1020	36	5	274	5	AFF1	4	87967930	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	158607	87967930	103186346	2335	24686											
AFF1	4299	broad.mit.edu	37	chr4	88055677	88055677	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttctcctgccagctccgtAgggtcccagtcaagtgctgg	5	10	11	15	1	2	0	1	0	1	0	5	0	4	0	5	2	3	3	5	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:88055677A>G	uc003hqj.3	+	19	3749	c.3342A>G	c.(3340-3342)GTA>GTG	p.V1114V	AFF1_uc011ccz.1_Silent_p.V1122V|AFF1_uc003hqk.3_Silent_p.V1115V|AFF1_uc011cda.1_Silent_p.V753V	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1114						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		CCAGCTCCGTAGGGTCCCAGT	0.552													18	281					0	0	1	0	0		G	88055677	G	G	88055677	2	3	27	1	0	0	0	0	0	0	0	1	356	407	15	3		3	AFF1	4	88055677	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	87747	88055677	103098599	2336	24687											
KLHL8	57563	broad.mit.edu	37	chr4	88106516	88106516	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatttagatcactggaggAcaaaagcttatggaggtgct	14	11	11	5	0	1	1	1	0	0	1	1	4	1	4	0	4	2	2	0	4	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:88106516A>G	uc011cdb.1	-	3	1037	c.652T>C	c.(652-654)TCC>CCC	p.S218P	KLHL8_uc003hql.1_Missense_Mutation_p.S218P|KLHL8_uc003hqm.1_Missense_Mutation_p.S142P|KLHL8_uc003hqn.1_Intron|KLHL8_uc010ikj.1_Intron	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8	218											0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		TCACTGGAGGACAAAAGCTTA	0.428													4	104					0	0	1	0	0		G	88106516	G	G	88106516	3	3	27	1	0	0	0	0	1	0	0	0	8411	275	10	3	1242	3	KLHL8	4	88106516	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	50839	88106516	103047760	2337	24688											
HSD17B13	345275	broad.mit.edu	37	chr4	88243812	88243812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcccacagaaccaatatgCtctgtcgttttgcaaattca	12	13	5	11	1	2	1	1	0	1	1	4	1	3	1	2	0	3	3	2	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:88243812C>T	uc003hqo.2	-	1	245	c.182G>A	c.(181-183)AGC>AAC	p.S61N	HSD17B13_uc010ikk.2_Missense_Mutation_p.S61N	NM_178135	NP_835236	Q7Z5P4	DHB13_HUMAN	hydroxysteroid (17-beta) dehydrogenase 13	61	NAD (By similarity).					extracellular region	binding|oxidoreductase activity				0		Acute lymphoblastic leukemia(40;0.244)|all_hematologic(202;0.248)		OV - Ovarian serous cystadenocarcinoma(123;0.000308)		AACCAATATGCTCTGTCGTTT	0.378													5	105					0	0	1	0	0		T	88243812	T	T	88243812	3	4	27	1	0	0	0	0	1	0	0	0	7398	797	28	2	748	2	HSD17B13	4	88243812	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	137296	88243812	102910464	2338	24689											
SPARCL1	8404	broad.mit.edu	37	chr4	88394950	88394950	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaagagattttcatctaTgtcctctataaaaaaacaag	19	11	4	7	0	3	1	1	0	2	1	4	2	4	1	1	0	2	0	1	0	9	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:88394950T>C	uc010ikm.2	-	12	2544	c.1972A>G	c.(1972-1974)ATA>GTA	p.I658V	SPARCL1_uc011cdc.1_Missense_Mutation_p.I533V|SPARCL1_uc003hqs.3_Missense_Mutation_p.I658V|SPARCL1_uc011cdd.1_Missense_Mutation_p.I533V	NM_001128310	NP_001121782	Q14515	SPRL1_HUMAN	SPARC-like 1 precursor	658					signal transduction	extracellular space|proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00118)		TTTTCATCTATGTCCTCTATA	0.348													10	112					0	0	1	0	0		C	88394950	C	C	88394950	3	2	27	1	0	0	0	0	1	0	0	0	15021	1464	51	3	26	3	SPARCL1	4	88394950	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	151138	88394950	102759326	2339	24690											
DSPP	1834	broad.mit.edu	37	chr4	88535299	88535299	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagatgcttcttataactcTgatgaatcaaaagataatgg	15	12	9	5	0	3	4	1	2	2	2	3	5	3	4	0	2	2	1	0	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:88535299T>C	uc003hqu.2	+	5	1605	c.1485T>C	c.(1483-1485)TCT>TCC	p.S495S		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	495	Asp/Ser-rich.				biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		CTTATAACTCTGATGAATCAA	0.393													13	46					0	0	1	0	0		C	88535299	C	C	88535299	2	2	27	1	0	0	0	0	0	0	0	1	4788	1567	55	3		3	DSPP	4	88535299	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	140349	88535299	102618977	2340	24691											
IBSP	3381	broad.mit.edu	37	chr4	88731774	88731774	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaggagacttcaaatgaagGagaaaacaatgaagaatcga	21	5	10	5	1	1	5	1	2	0	3	2	8	1	5	0	2	1	0	0	2	7	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:88731774G>T	uc003hqx.3	+	6	361	c.263G>T	c.(262-264)GGA>GTA	p.G88V		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	88	Asp/Glu-rich (acidic).				biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		TCAAATGAAGGAGAAAACAAT	0.383													6	81					0.00198382	0.00205548	1	1	0		T	88731774	T	T	88731774	3	4	27	1	0	0	0	0	1	0	0	0	7491	1174	41	5	281	5	IBSP	4	88731774	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	196475	88731774	102422502	2341	24692											
IBSP	3381	broad.mit.edu	37	chr4	88732877	88732877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttttgggaaaaccaccaccGttgaatacgagggggagtac	12	8	12	9	2	0	1	0	1	0	0	0	4	0	3	3	3	3	2	3	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:88732877G>A	uc003hqx.3	+	7	867	c.769G>A	c.(769-771)GTT>ATT	p.V257I		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	257					biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		AACCACCACCGTTGAATACGA	0.483													4	40					0	0	1	0	0		A	88732877	A	A	88732877	3	1	27	1	0	0	0	0	1	0	0	0	7491	1145	40	1	791	1	IBSP	4	88732877	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1103	88732877	102421399	2342	24693											
PKD2	5311	broad.mit.edu	37	chr4	88964569	88964569	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaacttttattgacttcTcagtgtacaacgccaacatt	11	13	7	10	1	1	1	1	1	1	0	2	1	1	1	1	1	4	2	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:88964569T>C	uc003hre.2	+	5	1345	c.1279T>C	c.(1279-1281)TCA>CCA	p.S427P	PKD2_uc011cdf.1_5'UTR	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	427	Extracellular (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		TATTGACTTCTCAGTGTACAA	0.453													4	63					0	0	1	0	0		C	88964569	C	C	88964569	3	2	27	1	0	0	0	0	1	0	0	0	11985	1551	54	3	1297	3	PKD2	4	88964569	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	231692	88964569	102189707	2343	24694											
HERC5	51191	broad.mit.edu	37	chr4	89384765	89384765	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtggctctcacagtgccctActcacacaggtgggtgtacc	7	9	12	13	0	2	0	2	0	1	0	3	0	2	0	2	4	3	2	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:89384765A>G	uc003hrt.2	+	5	924	c.771A>G	c.(769-771)CTA>CTG	p.L257L		NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	257	RCC1 3.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		ACAGTGCCCTACTCACACAGG	0.408													9	101					0	0	1	0	0		G	89384765	G	G	89384765	2	3	27	1	0	0	0	0	0	0	0	1	7077	378	14	3		3	HERC5	4	89384765	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	420196	89384765	101769511	2344	24695											
HERC3	8916	broad.mit.edu	37	chr4	89527116	89527116	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgggggaaaccactctgtgTtcctgctggaagatggggaa	9	9	16	7	0	1	1	0	0	1	1	2	4	2	4	2	5	2	2	2	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:89527116T>C	uc003hrw.1	+	3	308	c.142T>C	c.(142-144)TTC>CTC	p.F48L	HERC3_uc003hrv.2_Missense_Mutation_p.F48L|HERC3_uc011cdn.1_Intron	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	48	RCC1 1.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		CCACTCTGTGTTCCTGCTGGA	0.532													3	66					0	0	1	0	0		C	89527116	C	C	89527116	3	2	27	1	0	0	0	0	1	0	0	0	7075	1725	60	3	144	3	HERC3	4	89527116	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	142351	89527116	101627160	2345	24696											
HERC3	8916	broad.mit.edu	37	chr4	89577147	89577147	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccatctcctgtcaagggtTactgggctgcccacagtggc	6	9	12	14	0	2	0	1	0	1	0	3	0	2	0	3	3	2	2	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:89577147T>C	uc003hrw.1	+	9	1196	c.1030T>C	c.(1030-1032)TAC>CAC	p.Y344H	HERC3_uc003hrv.2_Missense_Mutation_p.Y344H|HERC3_uc011cdn.1_Missense_Mutation_p.Y226H|HERC3_uc011cdo.1_5'Flank	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	344	RCC1 7.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		TGTCAAGGGTTACTGGGCTGC	0.453													4	53					0	0	1	0	0		C	89577147	C	C	89577147	3	2	27	1	0	0	0	0	1	0	0	0	7075	1754	61	3	1056	3	HERC3	4	89577147	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	50031	89577147	101577129	2346	24697											
FAM13A	10144	broad.mit.edu	37	chr4	89668866	89668866	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtggcttcaacactgggCtttattgctttatccaccag	9	14	8	10	0	1	0	1	0	0	0	2	0	2	0	2	2	2	3	2	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:89668866C>T	uc003hse.1	-	18	2506	c.2298G>A	c.(2296-2298)AAG>AAA	p.K766K	FAM13A_uc003hsa.1_Silent_p.K237K|FAM13A_uc003hsb.1_Silent_p.K440K|FAM13A_uc003hsd.1_Silent_p.K440K|FAM13A_uc003hsc.1_Silent_p.K426K|FAM13A_uc011cdq.1_Silent_p.K412K|FAM13A_uc003hsf.1_Silent_p.K352K|FAM13A_uc003hsg.1_Silent_p.K237K	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	766					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						CAACACTGGGCTTTATTGCTT	0.502													20	229					0	0	1	0	0		T	89668866	T	T	89668866	2	4	27	1	0	0	0	0	0	0	0	1	5463	796	28	2		2	FAM13A	4	89668866	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	91719	89668866	101485410	2347	24698											
TIGD2	166815	broad.mit.edu	37	chr4	90034768	90034768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatcatcattatgtgttgcGcaaatgccacaggtttacac	12	12	8	9	1	2	0	2	0	0	0	2	1	2	0	1	1	3	3	1	1	4	4	rs147964825		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:90034768G>A	uc003hsk.2	+	1	801	c.643G>A	c.(643-645)GCA>ACA	p.A215T	FAM13A_uc003hsh.1_5'Flank	NM_145715	NP_663761	Q4W5G0	TIGD2_HUMAN	tigger transposable element derived 2	215	DDE.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;3.86e-05)		TATGTGTTGCGCAAATGCCAC	0.398													20	64					0	0	1	0	0		A	90034768	A	A	90034768	3	1	27	1	0	0	0	0	1	0	0	0	15921	1087	38	1	645	1	TIGD2	4	90034768	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	365902	90034768	101119508	2348	24699											
MMRN1	22915	broad.mit.edu	37	chr4	90844386	90844386	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagctgttggcagaggagtAgctgagcagcagcagcagca	12	5	15	9	0	0	2	0	1	0	1	0	3	0	3	0	2	7	10	0	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:90844386A>G	uc003hst.2	+	4	989	c.918A>G	c.(916-918)GTA>GTG	p.V306V	MMRN1_uc010iku.2_Silent_p.V272V|MMRN1_uc011cds.1_Silent_p.V48V	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	306					cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		GCAGAGGAGTAGCTGAGCAGC	0.443													4	177					0	0	1	0	0		G	90844386	G	G	90844386	2	3	27	1	0	0	0	0	0	0	0	1	9688	407	15	3		3	MMRN1	4	90844386	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	809618	90844386	100309890	2349	24700											
GRID2	2895	broad.mit.edu	37	chr4	94690472	94690472	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacaaagcagaaaggaggCgccctggacataaagagctt	16	4	12	9	1	0	2	0	0	0	2	0	5	0	4	1	3	2	2	1	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:94690472C>T	uc011cdt.1	+	15	2730	c.2472C>T	c.(2470-2472)GGC>GGT	p.G824G	GRID2_uc011cdu.1_Silent_p.G729G	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	824	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	AGAAAGGAGGCGCCCTGGACA	0.512													12	94					0	0	1	0	0		T	94690472	T	T	94690472	2	4	27	1	0	0	0	0	0	0	0	1	6788	755	27	1		1	GRID2	4	94690472	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3846086	94690472	96463804	2350	24701											
SMARCAD1	56916	broad.mit.edu	37	chr4	95162126	95162126	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagatgaatttaatgatgAtcaatctataaaaaagacaa	21	10	7	3	0	2	5	1	3	1	2	2	6	2	6	0	1	0	0	0	1	9	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:95162126A>T	uc003htc.3	+	6	929	c.674A>T	c.(673-675)GAT>GTT	p.D225V	SMARCAD1_uc003htb.3_Missense_Mutation_p.D225V|SMARCAD1_uc003htd.3_Missense_Mutation_p.D225V|SMARCAD1_uc010ila.2_Missense_Mutation_p.D88V	NM_020159	NP_064544	Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated	225					chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		TTTAATGATGATCAATCTATA	0.353													4	35					0	0	1	0	0		T	95162126	T	T	95162126	3	4	27	1	0	0	0	0	1	0	0	0	14797	333	12	5	692	5	SMARCAD1	4	95162126	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	471654	95162126	95992150	2351	24702											
SMARCAD1	56916	broad.mit.edu	37	chr4	95174135	95174135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaagataacagaactccggCcctttaatagttgggaggct	13	9	11	8	1	0	3	0	0	0	3	1	4	1	4	2	3	2	2	2	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:95174135C>T	uc003htc.3	+	9	1513	c.1258C>T	c.(1258-1260)CCC>TCC	p.P420S	SMARCAD1_uc003htb.3_Missense_Mutation_p.P420S|SMARCAD1_uc003htd.3_Missense_Mutation_p.P420S|SMARCAD1_uc010ila.2_Missense_Mutation_p.P283S|SMARCAD1_uc011cdw.1_5'Flank	NM_020159	NP_064544	Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated	420					chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		AGAACTCCGGCCCTTTAATAG	0.388													13	144					0	0	1	0	0		T	95174135	T	T	95174135	3	4	27	1	0	0	0	0	1	0	0	0	14797	739	26	2	1288	2	SMARCAD1	4	95174135	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12009	95174135	95980141	2352	24703											
PDLIM5	10611	broad.mit.edu	37	chr4	95496995	95496995	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgccgtcactcctcccctgTtcgctgcatctggactgcat	4	12	8	17	2	2	0	1	0	1	0	5	1	4	1	4	1	3	4	4	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:95496995T>C	uc003hti.2	+	5	671	c.520T>C	c.(520-522)TTC>CTC	p.F174L	PDLIM5_uc003htf.2_Intron|PDLIM5_uc003htg.2_Intron|PDLIM5_uc011cdx.1_Intron|PDLIM5_uc003hth.2_Intron|PDLIM5_uc003htj.2_Intron|PDLIM5_uc003htk.2_Intron|PDLIM5_uc011cdy.1_Missense_Mutation_p.F52L	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	174					regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		TCCTCCCCTGTTCGCTGCATC	0.572													8	108					0	0	1	0	0		C	95496995	C	C	95496995	3	2	27	1	0	0	0	0	1	0	0	0	11702	1725	60	3	534	3	PDLIM5	4	95496995	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	322860	95496995	95657281	2353	24704											
PDLIM5	10611	broad.mit.edu	37	chr4	95575695	95575695	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatacaatggcctacatTggatttgtagaggagaaagg	17	9	11	4	0	0	2	0	0	0	2	0	4	0	3	1	4	2	1	1	4	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:95575695T>C	uc003hti.2	+	10	1519	c.1368T>C	c.(1366-1368)ATT>ATC	p.I456I	PDLIM5_uc011cdx.1_Silent_p.I353I|PDLIM5_uc003hth.2_Silent_p.I347I|PDLIM5_uc003htj.2_Silent_p.I131I|PDLIM5_uc003htk.2_Silent_p.I485I|PDLIM5_uc011cdy.1_Silent_p.I334I|PDLIM5_uc003htl.2_Silent_p.I131I	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	456	LIM zinc-binding 1.				regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		TGGCCTACATTGGATTTGTAG	0.453													7	82					0	0	1	0	0		C	95575695	C	C	95575695	2	2	27	1	0	0	0	0	0	0	0	1	11702	1800	63	3		3	PDLIM5	4	95575695	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	78700	95575695	95578581	2354	24705											
BMPR1B	658	broad.mit.edu	37	chr4	96025677	96025677	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggtcttgcgttgtaaatgCcaccaccattgtccagaaga	12	10	9	10	1	1	2	0	0	1	2	2	2	2	2	4	1	2	2	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:96025677C>T	uc003htm.3	+	4	376	c.102C>T	c.(100-102)TGC>TGT	p.C34C	BMPR1B_uc010ilb.2_Silent_p.C34C|BMPR1B_uc003htn.3_Silent_p.C34C	NM_001203	NP_001194	O00238	BMR1B_HUMAN	bone morphogenetic protein receptor, type IB	34	Extracellular (Potential).				BMP signaling pathway|cartilage condensation|eye development|limb morphogenesis|ovarian cumulus expansion|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	receptor complex	ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta receptor activity			lung(4)|skin(2)|stomach(1)|breast(1)	8		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.51e-07)		GTTGTAAATGCCACCACCATT	0.423													9	44					0	0	1	0	0		T	96025677	T	T	96025677	2	4	27	1	0	0	0	0	0	0	0	1	1471	747	26	2		2	BMPR1B	4	96025677	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	449982	96025677	95128599	2355	24706											
BMPR1B	658	broad.mit.edu	37	chr4	96035907	96035907	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgatgatagaagaggaTgactctgggttgcctgtggt	9	12	14	6	1	2	4	1	2	1	2	2	6	2	5	1	3	1	1	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:96035907T>C	uc003htm.3	+	5	454	c.180T>C	c.(178-180)GAT>GAC	p.D60D	BMPR1B_uc010ilb.2_Silent_p.D60D|BMPR1B_uc003htn.3_Silent_p.D60D	NM_001203	NP_001194	O00238	BMR1B_HUMAN	bone morphogenetic protein receptor, type IB	60	Extracellular (Potential).				BMP signaling pathway|cartilage condensation|eye development|limb morphogenesis|ovarian cumulus expansion|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	receptor complex	ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta receptor activity			lung(4)|skin(2)|stomach(1)|breast(1)	8		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.51e-07)		TAGAAGAGGATGACTCTGGGT	0.363													55	178					0	0	1	0	0		C	96035907	C	C	96035907	2	2	27	1	0	0	0	0	0	0	0	1	1471	1461	51	3		3	BMPR1B	4	96035907	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10230	96035907	95118369	2356	24707											
PDHA2	5161	broad.mit.edu	37	chr4	96761865	96761865	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaggaaacgatgagatctgTttgactttatatggggatgg	13	12	13	3	1	1	2	0	2	1	1	1	6	1	4	0	4	1	1	0	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:96761865T>C	uc003htr.3	+	1	627	c.564T>C	c.(562-564)TGT>TGC	p.C188C		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	188					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	ATGAGATCTGTTTGACTTTAT	0.493													9	73					0	0	1	0	0		C	96761865	C	C	96761865	2	2	27	1	0	0	0	0	0	0	0	1	11684	1731	60	3		3	PDHA2	4	96761865	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	725958	96761865	94392411	2357	24708											
METAP1	23173	broad.mit.edu	37	chr4	99969899	99969899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcagtgaagcctggtgttcGgtacagagaattgggaaaca	12	10	13	6	1	1	2	1	1	0	1	2	4	1	3	1	3	3	2	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:99969899G>A	uc003huf.3	+	9	920	c.803G>A	c.(802-804)CGG>CAG	p.R268Q	METAP1_uc003hug.2_RNA|METAP1_uc010ild.2_Intron	NM_015143	NP_055958	P53582	AMPM1_HUMAN	methionyl aminopeptidase 1	268					N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis|regulation of translation	cytoplasm	aminopeptidase activity|metal ion binding|metalloexopeptidase activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;3.12e-07)		CCTGGTGTTCGGTACAGAGAA	0.333													35	117					0	0	1	0	0		A	99969899	A	A	99969899	3	1	27	1	0	0	0	0	1	0	0	0	9504	1116	39	1	837	1	METAP1	4	99969899	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3208034	99969899	91184377	2358	24709											
ADH7	131	broad.mit.edu	37	chr4	100341722	100341722	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcccaataacttcaaaggTgtatcccacgttgttgcctg	10	12	8	11	1	1	0	1	0	0	0	2	0	2	0	3	1	3	3	3	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:100341722T>C	uc003huv.1	-	6	928	c.829A>G	c.(829-831)ACC>GCC	p.T277A		NM_000673	NP_000664	P40394	ADH7_HUMAN	class IV alcohol dehydrogenase, mu or sigma	277					ethanol oxidation|fatty acid omega-oxidation|response to bacterium|response to ethanol|xenobiotic metabolic process	cytosol|soluble fraction	alcohol dehydrogenase activity, zinc-dependent|aldehyde oxidase activity|ethanol binding|receptor antagonist activity|retinol binding|retinol dehydrogenase activity			lung(2)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(123;1.75e-08)	NADH(DB00157)	ACTTCAAAGGTGTATCCCACG	0.438													9	71					0	0	1	0	0		C	100341722	C	C	100341722	3	2	27	1	0	0	0	0	1	0	0	0	313	1696	59	3	347	3	ADH7	4	100341722	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	371823	100341722	90812554	2359	24710											
MTTP	4547	broad.mit.edu	37	chr4	100522814	100522814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacatcagagaaactgttatGatcatcactgggacacttgt	13	11	9	8	0	3	2	3	1	0	1	3	5	3	3	0	1	1	1	0	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:100522814G>A	uc003hvc.3	+	11	1543	c.1287G>A	c.(1285-1287)ATG>ATA	p.M429I	MTTP_uc011cej.1_Missense_Mutation_p.M456I	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	429	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	AAACTGTTATGATCATCACTG	0.358													10	120					0	0	1	0	0		A	100522814	A	A	100522814	3	1	27	1	0	0	0	0	1	0	0	0	9982	1290	45	4	1325	4	MTTP	4	100522814	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	181092	100522814	90631462	2360	24711											
DNAJB14	79982	broad.mit.edu	37	chr4	100824976	100824976	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtaataacattcctttatAttcatttttgaagtccttgt	10	21	4	6	0	1	1	1	1	0	0	3	1	3	1	2	0	1	1	2	0	5	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:100824976A>T	uc003hvl.2	-	7	1073	c.922T>A	c.(922-924)TAT>AAT	p.Y308N	DNAJB14_uc003hvk.2_Missense_Mutation_p.Y223N|DNAJB14_uc010ili.2_Missense_Mutation_p.Y241N	NM_001031723	NP_001026893	Q8TBM8	DJB14_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 14	308					protein folding	integral to membrane	heat shock protein binding|unfolded protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;4.59e-09)		ATTCCTTTATATTCATTTTTG	0.318													5	65					0	0	1	0	0		T	100824976	T	T	100824976	3	4	27	1	0	0	0	0	1	0	0	0	4625	449	16	5	225	5	DNAJB14	4	100824976	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	302162	100824976	90329300	2361	24712											
DNAJB14	79982	broad.mit.edu	37	chr4	100844339	100844339	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtaatttttacatttgttTatgctgtgaacaagagagtg	12	17	9	3	0	0	2	0	1	0	1	0	3	0	2	0	0	3	3	0	0	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:100844339T>C	uc003hvl.2	-	3	460	c.309A>G	c.(307-309)ATA>ATG	p.I103M	DNAJB14_uc003hvk.2_Missense_Mutation_p.I18M|DNAJB14_uc010ili.2_Missense_Mutation_p.I36M	NM_001031723	NP_001026893	Q8TBM8	DJB14_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 14	103					protein folding	integral to membrane	heat shock protein binding|unfolded protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;4.59e-09)		TACATTTGTTTATGCTGTGAA	0.274													3	39					0	0	1	0	0		C	100844339	C	C	100844339	3	2	27	1	0	0	0	0	1	0	0	0	4625	1744	61	3	854	3	DNAJB14	4	100844339	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	19363	100844339	90309937	2362	24713											
DDIT4L	115265	broad.mit.edu	37	chr4	101108899	101108899	+	Nonsense_Mutation	SNP	C	A	A																															tttcttaacaagtcgaaatcCtgagctgaggatcagagttc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:101108899C>A	uc003hvq.2	-	3	720	c.517G>T	c.(517-519)GGA>TGA	p.G173*		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	173					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		AGTCGAAATCCTGAGCTGAGG	0.393													26	81					4.87955e-14	5.4444e-14	1	1	0		A	101108899	A	A	101108899	4	1	27	1	0	0	0	0	0	1	0	0	4335	690	24	5	68	5	DDIT4L	4	101108899	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	264560	101108899	90045377	2363	24714	46	2	4	10		4	3	50	N	C_A	8.821123e-05
DDIT4L	115265	broad.mit.edu	37	chr4	101108907	101108907	+	Missense_Mutation	SNP	A	G	G																															caagtcgaaatcctgagctgAggatcagagttctcctgaaa																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:101108907A>G	uc003hvq.2	-	3	712	c.509T>C	c.(508-510)CTC>CCC	p.L170P		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	170					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		TCCTGAGCTGAGGATCAGAGT	0.393													9	95					0	0	1	0	0		G	101108907	G	G	101108907	3	3	27	1	0	0	0	0	1	0	0	0	4335	304	11	3	76	3	DDIT4L	4	101108907	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8	101108907	90045369	2364	24715	46	2	4	10		4	3	50	N	C_A	8.821123e-05
DDIT4L	115265	broad.mit.edu	37	chr4	101108927	101108927	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggatcagagttctcctgaaAccagaggagaagcgacctct	13	7	11	10	1	3	4	1	1	2	3	4	7	3	5	3	2	2	1	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:101108927A>C	uc003hvq.2	-	3	692	c.489T>G	c.(487-489)GGT>GGG	p.G163G		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	163					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		TTCTCCTGAAACCAGAGGAGA	0.423													9	102					0	0	1	0	0		C	101108927	C	C	101108927	2	2	27	1	0	0	0	0	0	0	0	1	4335	30	2	5		5	DDIT4L	4	101108927	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20	101108927	90045349	2365	24716			4	10		4	3	50	N	C_A	8.821123e-05
DDIT4L	115265	broad.mit.edu	37	chr4	101108948	101108948	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagaggagaagcgacctctActaaagaaaaagtccctgaa	17	5	9	10	1	1	4	0	1	1	3	2	6	2	4	3	1	2	0	3	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:101108948A>G	uc003hvq.2	-	3	671	c.468T>C	c.(466-468)AGT>AGC	p.S156S		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	156					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		AGCGACCTCTACTAAAGAAAA	0.428													8	96					0	0	1	0	0		G	101108948	G	G	101108948	2	3	27	1	0	0	0	0	0	0	0	1	4335	388	14	3		3	DDIT4L	4	101108948	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21	101108948	90045328	2366	24717			4	10		4	3	50	N	C_A	8.821123e-05
NFKB1	4790	broad.mit.edu	37	chr4	103500113	103500113	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagcgtggtgcggctcaTgtttacagcttttcttccgg	4	14	11	12	3	3	0	2	0	1	0	4	0	4	0	2	3	4	3	2	3	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:103500113T>G	uc011ceq.1	+	8	1111	c.644T>G	c.(643-645)ATG>AGG	p.M215R	NFKB1_uc011cep.1_Missense_Mutation_p.M216R|NFKB1_uc011cer.1_Missense_Mutation_p.M35R	NM_003998	NP_003989	P19838	NFKB1_HUMAN	nuclear factor kappa-B, subunit 1 isoform 1	215	RHD.				anti-apoptosis|apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of calcidiol 1-monooxygenase activity|nerve growth factor receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter	cytosol|I-kappaB/NF-kappaB complex|mitochondrion|nucleoplasm	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|breast(2)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.59e-08)	Dexamethasone(DB01234)|Pranlukast(DB01411)|Thalidomide(DB01041)	GTGCGGCTCATGTTTACAGCT	0.532													5	81					0	0	1	0	0		G	103500113	G	G	103500113	3	3	27	1	0	0	0	0	1	0	0	0	10394	1464	51	5	673	5	NFKB1	4	103500113	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2391165	103500113	87654163	2367	24718											
NFKB1	4790	broad.mit.edu	37	chr4	103500181	103500181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacccgtggtatcagacGccatctatgacagtagtgag	11	9	12	9	2	2	3	1	2	1	1	2	4	2	4	2	2	1	2	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:103500181G>A	uc011ceq.1	+	8	1179	c.712G>A	c.(712-714)GCC>ACC	p.A238T	NFKB1_uc011cep.1_Missense_Mutation_p.A239T|NFKB1_uc011cer.1_Missense_Mutation_p.A58T	NM_003998	NP_003989	P19838	NFKB1_HUMAN	nuclear factor kappa-B, subunit 1 isoform 1	238	RHD.				anti-apoptosis|apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of calcidiol 1-monooxygenase activity|nerve growth factor receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter	cytosol|I-kappaB/NF-kappaB complex|mitochondrion|nucleoplasm	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|breast(2)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.59e-08)	Dexamethasone(DB01234)|Pranlukast(DB01411)|Thalidomide(DB01041)	GGTATCAGACGCCATCTATGA	0.418													14	42					0	0	1	0	0		A	103500181	A	A	103500181	3	1	27	1	0	0	0	0	1	0	0	0	10394	1087	38	1	741	1	NFKB1	4	103500181	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	68	103500181	87654095	2368	24719											
NFKB1	4790	broad.mit.edu	37	chr4	103501757	103501757	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctggatgtgtgactggaGgggaggaaatttatcttctt	9	13	14	5	0	2	1	0	1	2	0	2	5	2	5	0	5	1	1	0	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:103501757G>T	uc011ceq.1	+	9	1260	c.793G>T	c.(793-795)GGG>TGG	p.G265W	NFKB1_uc011cep.1_Missense_Mutation_p.G266W|NFKB1_uc011cer.1_Missense_Mutation_p.G85W	NM_003998	NP_003989	P19838	NFKB1_HUMAN	nuclear factor kappa-B, subunit 1 isoform 1	265	RHD.				anti-apoptosis|apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of calcidiol 1-monooxygenase activity|nerve growth factor receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter	cytosol|I-kappaB/NF-kappaB complex|mitochondrion|nucleoplasm	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|breast(2)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.59e-08)	Dexamethasone(DB01234)|Pranlukast(DB01411)|Thalidomide(DB01041)	TGTGACTGGAGGGGAGGAAAT	0.403													4	47					0.000602214	0.000630257	1	1	0		T	103501757	T	T	103501757	3	4	27	1	0	0	0	0	1	0	0	0	10394	1000	35	5	826	5	NFKB1	4	103501757	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1576	103501757	87652519	2369	24720											
NFKB1	4790	broad.mit.edu	37	chr4	103514652	103514652	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatagtttcggcggtggtagTggtgctggagctggaggcgg	5	10	21	5	3	0	0	0	0	0	0	1	3	0	2	0	8	2	4	0	8	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:103514652T>C	uc011ceq.1	+	12	1601	c.1134T>C	c.(1132-1134)AGT>AGC	p.S378S	NFKB1_uc011cep.1_Silent_p.S379S|NFKB1_uc011cer.1_Silent_p.S198S	NM_003998	NP_003989	P19838	NFKB1_HUMAN	nuclear factor kappa-B, subunit 1 isoform 1	378	GRR.|Gly-rich.				anti-apoptosis|apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of calcidiol 1-monooxygenase activity|nerve growth factor receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter	cytosol|I-kappaB/NF-kappaB complex|mitochondrion|nucleoplasm	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|breast(2)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.59e-08)	Dexamethasone(DB01234)|Pranlukast(DB01411)|Thalidomide(DB01041)	GCGGTGGTAGTGGTGCTGGAG	0.483													17	180					0	0	1	0	0		C	103514652	C	C	103514652	2	2	27	1	0	0	0	0	0	0	0	1	10394	1693	59	3		3	NFKB1	4	103514652	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12895	103514652	87639624	2370	24721											
NFKB1	4790	broad.mit.edu	37	chr4	103527752	103527752	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggaccgcttgggtaacTctgttttgcacctagctgcc	5	14	10	12	1	2	0	0	0	2	0	2	1	2	1	3	2	4	5	3	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:103527752T>G	uc011ceq.1	+	17	2316	c.1849T>G	c.(1849-1851)TCT>GCT	p.S617A	NFKB1_uc011cep.1_Missense_Mutation_p.S618A|NFKB1_uc011cer.1_Missense_Mutation_p.S437A	NM_003998	NP_003989	P19838	NFKB1_HUMAN	nuclear factor kappa-B, subunit 1 isoform 1	617	Interaction with CFLAR.|ANK 3.				anti-apoptosis|apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of calcidiol 1-monooxygenase activity|nerve growth factor receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter	cytosol|I-kappaB/NF-kappaB complex|mitochondrion|nucleoplasm	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|breast(2)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.59e-08)	Dexamethasone(DB01234)|Pranlukast(DB01411)|Thalidomide(DB01041)	CTTGGGTAACTCTGTTTTGCA	0.522													9	90					0	0	1	0	0		G	103527752	G	G	103527752	3	3	27	1	0	0	0	0	1	0	0	0	10394	1551	54	5	1914	5	NFKB1	4	103527752	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	13100	103527752	87626524	2371	24722											
MANBA	4126	broad.mit.edu	37	chr4	103595084	103595084	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaataacttacaactcagaGgttactcggtcctggaatga	14	10	8	9	1	1	2	1	1	0	1	3	3	2	3	1	3	4	1	1	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:103595084G>T	uc003hwg.2	-	8	1204	c.1104C>A	c.(1102-1104)ACC>ACA	p.T368T	MANBA_uc011ces.1_Silent_p.T311T	NM_005908	NP_005899	O00462	MANBA_HUMAN	mannosidase, beta A, lysosomal precursor	368					carbohydrate metabolic process|protein modification process	lysosome	beta-mannosidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;4.44e-08)		ACAACTCAGAGGTTACTCGGT	0.373													9	76					2.17888e-05	2.33116e-05	1	1	0		T	103595084	T	T	103595084	2	4	27	1	0	0	0	0	0	0	0	1	9237	987	35	5		5	MANBA	4	103595084	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	67332	103595084	87559192	2372	24723											
NHEDC1	150159	broad.mit.edu	37	chr4	103827697	103827697	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaattattcttaccaacAatatttgattcaagcgatga	14	15	4	8	1	3	2	1	2	2	0	3	3	3	2	1	0	3	0	1	0	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:103827697A>G	uc003hww.2	-	10	1313	c.1191T>C	c.(1189-1191)ATT>ATC	p.I397I	NHEDC1_uc003hwu.2_Silent_p.I397I|NHEDC1_uc010ilm.2_Silent_p.I164I|NHEDC1_uc003hwv.2_RNA|NHEDC1_uc011cev.1_Silent_p.I170I	NM_139173	NP_631912	Q4ZJI4	NHDC1_HUMAN	Na+/H+ exchanger domain containing 1 isoform 1	397						integral to membrane	solute:hydrogen antiporter activity			ovary(1)|skin(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;1.5e-08)		TCTTACCAACAATATTTGATT	0.229													8	38					0	0	1	0	0		G	103827697	G	G	103827697	2	3	27	1	0	0	0	0	0	0	0	1	10419	126	5	3		3	NHEDC1	4	103827697	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	232613	103827697	87326579	2373	24724											
NHEDC1	150159	broad.mit.edu	37	chr4	103831634	103831634	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccctgcaatgaaactcaAcactagtgtgcataatcctc	12	11	6	12	0	1	1	1	1	0	0	4	1	3	1	2	0	4	2	2	0	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:103831634A>G	uc003hww.2	-	9	1170	c.1048T>C	c.(1048-1050)TTG>CTG	p.L350L	NHEDC1_uc003hwu.2_Silent_p.L350L|NHEDC1_uc010ilm.2_Silent_p.L117L|NHEDC1_uc003hwv.2_RNA|NHEDC1_uc011cev.1_Silent_p.L123L	NM_139173	NP_631912	Q4ZJI4	NHDC1_HUMAN	Na+/H+ exchanger domain containing 1 isoform 1	350	Helical; (Potential).					integral to membrane	solute:hydrogen antiporter activity			ovary(1)|skin(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;1.5e-08)		ATGAAACTCAACACTAGTGTG	0.343													3	61					0	0	1	0	0		G	103831634	G	G	103831634	2	3	27	1	0	0	0	0	0	0	0	1	10419	40	2	3		3	NHEDC1	4	103831634	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3937	103831634	87322642	2374	24725											
CENPE	1062	broad.mit.edu	37	chr4	104059586	104059586	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaaccttttttcaggtttTacttggtggttctgtcggtc	5	19	10	7	1	2	0	1	0	1	0	4	0	2	0	1	4	2	3	1	4	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:104059586T>C	uc003hxb.1	-	39	6315	c.6225A>G	c.(6223-6225)GTA>GTG	p.V2075V	CENPE_uc003hxc.1_Silent_p.V1954V|CENPE_uc003hxd.1_RNA	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	2075	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TTTCAGGTTTTACTTGGTGGT	0.373													9	188					0	0	1	0	0		C	104059586	C	C	104059586	2	2	27	1	0	0	0	0	0	0	0	1	3233	1741	61	3		3	CENPE	4	104059586	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	227952	104059586	87094690	2375	24726											
CENPE	1062	broad.mit.edu	37	chr4	104080340	104080340	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagtgcttttataattcgActgtgtagttgctaggtcat	9	17	9	6	1	2	0	2	0	0	0	3	1	2	0	0	1	2	4	0	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:104080340A>G	uc003hxb.1	-	22	2518	c.2428T>C	c.(2428-2430)TCG>CCG	p.S810P	CENPE_uc003hxc.1_Missense_Mutation_p.S785P	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	810	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TTATAATTCGACTGTGTAGTT	0.333													7	80					0	0	1	0	0		G	104080340	G	G	104080340	3	3	27	1	0	0	0	0	1	0	0	0	3233	275	10	3	5789	3	CENPE	4	104080340	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20754	104080340	87073936	2376	24727											
CENPE	1062	broad.mit.edu	37	chr4	104101599	104101599	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccaattggtctttttccaTtgcctgagcccgcgtctcta	5	14	9	13	2	2	1	0	1	2	0	4	1	3	1	4	2	2	0	4	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:104101599T>C	uc003hxb.1	-	13	1201	c.1111A>G	c.(1111-1113)ATG>GTG	p.M371V	CENPE_uc003hxc.1_Missense_Mutation_p.M371V	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	371	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TCTTTTTCCATTGCCTGAGCC	0.353													6	62					0	0	1	0	0		C	104101599	C	C	104101599	3	2	27	1	0	0	0	0	1	0	0	0	3233	1493	52	3	7142	3	CENPE	4	104101599	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	21259	104101599	87052677	2377	24728											
CENPE	1062	broad.mit.edu	37	chr4	104106977	104106977	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaattacctgcagcgccTgtttgagcagctctttcact	7	16	7	11	1	2	1	1	1	1	0	2	1	2	1	2	0	5	4	2	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:104106977T>C	uc003hxb.1	-	9	825	c.735A>G	c.(733-735)ACA>ACG	p.T245T	CENPE_uc003hxc.1_Silent_p.T245T	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	245	Kinesin-motor.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		CTGCAGCGCCTGTTTGAGCAG	0.308													8	87					0	0	1	0	0		C	104106977	C	C	104106977	2	2	27	1	0	0	0	0	0	0	0	1	3233	1567	55	3		3	CENPE	4	104106977	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5378	104106977	87047299	2378	24729											
TACR3	6870	broad.mit.edu	37	chr4	104577457	104577457	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatgtaatacccatgatgAgcaatgggaaacagtacacc	15	9	9	8	0	0	2	0	2	0	0	0	3	0	3	2	1	4	4	2	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:104577457A>C	uc003hxe.1	-	3	925	c.782T>G	c.(781-783)CTC>CGC	p.L261R		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	261	Helical; Name=5; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		ACCCATGATGAGCAATGGGAA	0.388													11	116					0	0	1	0	0		C	104577457	C	C	104577457	3	2	27	1	0	0	0	0	1	0	0	0	15532	304	11	5	627	5	TACR3	4	104577457	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	470480	104577457	86576819	2379	24730											
TET2	54790	broad.mit.edu	37	chr4	106155657	106155657	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagattctgaatgagcaggaGgggaaaagtgctaattacca	15	8	12	6	0	1	3	0	2	1	1	1	5	1	5	1	3	3	2	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:106155657G>A	uc003hxk.2	+	3	944	c.558G>A	c.(556-558)GAG>GAA	p.E186E	TET2_uc011cez.1_Silent_p.E207E|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Silent_p.E186E|TET2_uc003hxi.1_Silent_p.E186E	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	186					cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		ATGAGCAGGAGGGGAAAAGTG	0.418			Mis N|F		MDS								6	38					0	0	1	0	0		A	106155657	A	A	106155657	2	1	27	1	0	0	0	0	0	0	0	1	15795	991	35	4		4	TET2	4	106155657	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1578200	106155657	84998619	2380	24731											
TET2	54790	broad.mit.edu	37	chr4	106156631	106156631	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaagaccaatgtcagaacAcctcaagcataacccaccaa	19	4	4	14	0	2	2	2	0	0	2	2	2	2	2	4	0	4	1	4	0	7	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:106156631A>G	uc003hxk.2	+	3	1918	c.1532A>G	c.(1531-1533)CAC>CGC	p.H511R	TET2_uc011cez.1_Missense_Mutation_p.H532R|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Missense_Mutation_p.H511R|TET2_uc003hxi.1_Missense_Mutation_p.H511R	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	511					cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		ATGTCAGAACACCTCAAGCAT	0.443			Mis N|F		MDS								8	68					0	0	1	0	0		G	106156631	G	G	106156631	3	3	27	1	0	0	0	0	1	0	0	0	15795	159	6	3	1534	3	TET2	4	106156631	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	974	106156631	84997645	2381	24732											
NPNT	255743	broad.mit.edu	37	chr4	106848532	106848532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caaacatggtgaatgtatcgGgccaaacaagtgcaagtgtc	14	8	11	8	1	0	1	0	1	0	0	2	1	0	1	1	2	3	2	1	2	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:106848532G>A	uc003hya.2	+	3	417	c.212G>A	c.(211-213)GGG>GAG	p.G71E	NPNT_uc011cfc.1_Missense_Mutation_p.G88E|NPNT_uc011cfd.1_Missense_Mutation_p.G71E|NPNT_uc011cfe.1_Missense_Mutation_p.G71E|NPNT_uc010ilt.1_Missense_Mutation_p.G71E|NPNT_uc011cff.1_Missense_Mutation_p.G71E|NPNT_uc010ilu.1_5'UTR	NM_001033047	NP_001028219	Q6UXI9	NPNT_HUMAN	nephronectin precursor	71	EGF-like 1.				cell differentiation	membrane	calcium ion binding			skin(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.41e-07)		GAATGTATCGGGCCAAACAAG	0.413													7	44					0	0	1	0	0		A	106848532	A	A	106848532	3	1	27	1	0	0	0	0	1	0	0	0	10609	1232	43	4	277	4	NPNT	4	106848532	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	691901	106848532	84305744	2382	24733											
NPNT	255743	broad.mit.edu	37	chr4	106861286	106861286	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctagatttaggcaatgtgTcaacacttttgggagctaca	11	12	9	9	0	1	1	1	0	0	1	1	2	1	2	1	2	3	2	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:106861286T>C	uc003hya.2	+	6	765	c.560T>C	c.(559-561)GTC>GCC	p.V187A	NPNT_uc011cfc.1_Missense_Mutation_p.V204A|NPNT_uc011cfd.1_Missense_Mutation_p.V217A|NPNT_uc011cfe.1_Missense_Mutation_p.V217A|NPNT_uc010ilt.1_Missense_Mutation_p.V187A|NPNT_uc011cff.1_Missense_Mutation_p.V187A|NPNT_uc010ilu.1_Missense_Mutation_p.V83A	NM_001033047	NP_001028219	Q6UXI9	NPNT_HUMAN	nephronectin precursor	187	EGF-like 4; calcium-binding (Potential).				cell differentiation	membrane	calcium ion binding			skin(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.41e-07)		AGGCAATGTGTCAACACTTTT	0.403													23	78					0	0	1	0	0		C	106861286	C	C	106861286	3	2	27	1	0	0	0	0	1	0	0	0	10609	1667	58	3	731	3	NPNT	4	106861286	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12754	106861286	84292990	2383	24734											
PAPSS1	9061	broad.mit.edu	37	chr4	108566127	108566127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggaggaggaggacagggCgccggtagcccctctctaga	8	5	18	10	2	1	1	0	0	1	1	2	5	1	5	3	7	1	1	3	7	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:108566127C>T	uc003hyk.2	-	10	1421	c.1337G>A	c.(1336-1338)CGC>CAC	p.R446H		NM_005443	NP_005434	O43252	PAPS1_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase	446	Adenylyl-sulfate kinase.				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|sulfate adenylyltransferase (ATP) activity			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.49e-05)		GAGGACAGGGCGCCGGTAGCC	0.532													17	77					0	0	1	0	0		T	108566127	T	T	108566127	3	4	27	1	0	0	0	0	1	0	0	0	11453	768	27	1	549	1	PAPSS1	4	108566127	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1704841	108566127	82588149	2384	24735											
HADH	3033	broad.mit.edu	37	chr4	108954337	108954337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgttttctccttaggtgacGcatccaaagaagacattgac	11	11	8	11	2	1	4	0	2	1	2	3	4	2	4	3	1	0	2	3	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:108954337G>A	uc003hyq.2	+	7	864	c.715G>A	c.(715-717)GCA>ACA	p.A239T	HADH_uc010ilx.2_Missense_Mutation_p.A256T|HADH_uc010ily.2_Missense_Mutation_p.A62T|HADH_uc003hyr.2_Missense_Mutation_p.A243T	NM_005327	NP_005318	Q16836	HCDH_HUMAN	L-3-hydroxyacyl-Coenzyme A dehydrogenase	239					fatty acid beta-oxidation	mitochondrial matrix	3-hydroxyacyl-CoA dehydrogenase activity|NAD+ binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000168)	NADH(DB00157)	CTTAGGTGACGCATCCAAAGA	0.453													10	100					0	0	1	0	0		A	108954337	A	A	108954337	3	1	27	1	0	0	0	0	1	0	0	0	6958	1087	38	1	796	1	HADH	4	108954337	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	388210	108954337	82199939	2385	24736											
COL25A1	84570	broad.mit.edu	37	chr4	110223192	110223192	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcgtggcggggtcggccGtctcggcttcgcttcccacc	2	9	14	16	6	1	0	0	0	1	0	6	0	2	0	3	5	0	3	3	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:110223192G>A	uc003hze.1	-	2	515	c.-16C>T	c.(-18--14)GACGG>GATGG		COL25A1_uc003hzg.2_Translation_Start_Site|COL25A1_uc003hzh.1_Translation_Start_Site	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1							collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		GGGGTCGGCCGTCTCGGCTTC	0.582													7	33					0	0	1	0	0		A	110223192	A	A	110223192	1	1	27	1	0	0	0	0	0	0	0	0	3687	1160	40	1		1	COL25A1	4	110223192	Translation_Start_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1268855	110223192	80931084	2386	24737											
SEC24B	10427	broad.mit.edu	37	chr4	110427546	110427546	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagtcttcagagttctccAcaaccagaaagcctgagacc	12	9	8	12	0	3	4	1	2	2	3	4	5	3	4	4	0	2	1	4	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:110427546A>G	uc003hzk.2	+	7	1606	c.1551A>G	c.(1549-1551)CCA>CCG	p.P517P	SEC24B_uc003hzl.2_Silent_p.P482P|SEC24B_uc011cfp.1_Silent_p.P547P|SEC24B_uc011cfq.1_Silent_p.P516P|SEC24B_uc011cfr.1_Silent_p.P481P	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	517					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		AGAGTTCTCCACAACCAGAAA	0.418													12	130					0	0	1	0	0		G	110427546	G	G	110427546	2	3	27	1	0	0	0	0	0	0	0	1	14020	146	6	3		3	SEC24B	4	110427546	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	204354	110427546	80726730	2387	24738											
CFI	3426	broad.mit.edu	37	chr4	110685814	110685814	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactattccctctgaatctgTatttccatgcttcaaggaaa	12	14	5	10	0	3	1	1	1	2	0	5	2	5	2	2	1	2	2	2	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:110685814T>C	uc003hzr.3	-	3	569	c.361A>G	c.(361-363)ACA>GCA	p.T121A	CFI_uc003hzq.2_5'Flank|CFI_uc011cft.1_Missense_Mutation_p.T121A|CFI_uc003hzs.3_Missense_Mutation_p.T121A	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	121	SRCR.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		TCTGAATCTGTATTTCCATGC	0.353													9	70					0	0	1	0	0		C	110685814	C	C	110685814	3	2	27	1	0	0	0	0	1	0	0	0	3292	1638	57	3	1434	3	CFI	4	110685814	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	258268	110685814	80468462	2388	24739											
EGF	1950	broad.mit.edu	37	chr4	110925696	110925696	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgaaaaacccaaagaatcCttatgaggagtcgagcagag	17	6	10	8	2	0	3	0	1	0	2	3	6	1	4	2	1	2	1	2	1	5	1	rs121434567		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:110925696C>A	uc003hzy.3	+	22	3661	c.3209C>A	c.(3208-3210)CCT>CAT	p.P1070H	EGF_uc011cfu.1_Missense_Mutation_p.P1028H|EGF_uc011cfv.1_Missense_Mutation_p.P1029H|EGF_uc010imk.2_Missense_Mutation_p.P218H	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	1070	Cytoplasmic (Potential).		P -> L (in HOMG4; affects basolateral sorting of pro-EGF preventing the hormone to stimulate EGFR; lack of TRPM6 activation).		angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	CCAAAGAATCCTTATGAGGAG	0.468													11	109					4.68919e-08	5.14072e-08	1	1	0		A	110925696	A	A	110925696	3	1	27	1	0	0	0	0	1	0	0	0	4968	681	24	5	3295	5	EGF	4	110925696	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	239882	110925696	80228580	2389	24740											
ENPEP	2028	broad.mit.edu	37	chr4	111470987	111470987	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacttcattagctcaagaaAaagaaaaactgctgtatgga	19	9	7	6	0	2	2	2	0	0	2	2	3	2	3	0	1	4	3	0	1	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:111470987A>T	uc003iab.3	+	17	2788	c.2446A>T	c.(2446-2448)AAA>TAA	p.K816*		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	816	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	AGCTCAAGAAAAAGAAAAACT	0.363													4	60					0	0	1	0	0		T	111470987	T	T	111470987	4	4	27	1	0	0	0	0	0	1	0	0	5136	15	1	5	2512	5	ENPEP	4	111470987	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	545291	111470987	79683289	2390	24741											
ENPEP	2028	broad.mit.edu	37	chr4	111474605	111474605	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaactgggactatctagTcaacaggtgggatgatctga	12	10	11	8	0	4	2	2	2	2	0	4	4	4	4	0	3	2	0	0	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:111474605T>C	uc003iab.3	+	18	2978	c.2636T>C	c.(2635-2637)GTC>GCC	p.V879A		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	879	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	GACTATCTAGTCAACAGGTGG	0.398													9	118					0	0	1	0	0		C	111474605	C	C	111474605	3	2	27	1	0	0	0	0	1	0	0	0	5136	1667	58	3	2706	3	ENPEP	4	111474605	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3618	111474605	79679671	2391	24742											
ALPK1	80216	broad.mit.edu	37	chr4	113353667	113353667	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagctgttggcaggagtgagGcatgattggctgtttcagag	9	11	16	5	0	1	3	1	2	0	1	1	4	1	4	0	4	1	6	0	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:113353667G>A	uc003iap.3	+	11	3243	c.2964G>A	c.(2962-2964)AGG>AGA	p.R988R	ALPK1_uc003ian.3_Silent_p.R988R|ALPK1_uc011cfx.1_Silent_p.R910R|ALPK1_uc003iao.3_Intron|ALPK1_uc010imo.2_Silent_p.R816R	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	988							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		CAGGAGTGAGGCATGATTGGC	0.478													15	180					0	0	1	0	0		A	113353667	A	A	113353667	2	1	27	1	0	0	0	0	0	0	0	1	544	1194	42	2		2	ALPK1	4	113353667	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1879062	113353667	77800609	2392	24743											
ALPK1	80216	broad.mit.edu	37	chr4	113362087	113362087	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttaggttgggtaaccggtAatggaaaaggactcatctac	12	12	11	6	1	2	0	1	0	1	0	2	2	2	2	1	5	2	3	1	5	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:113362087A>G	uc003iap.3	+	15	3832	c.3553A>G	c.(3553-3555)AAT>GAT	p.N1185D	ALPK1_uc003ian.3_Missense_Mutation_p.N1185D|ALPK1_uc011cfx.1_Missense_Mutation_p.N1107D|ALPK1_uc003iao.3_RNA|ALPK1_uc010imo.2_Missense_Mutation_p.N1013D	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	1185	Alpha-type protein kinase.						ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		GGTAACCGGTAATGGAAAAGG	0.333													8	102					0	0	1	0	0		G	113362087	G	G	113362087	3	3	27	1	0	0	0	0	1	0	0	0	544	362	13	3	3603	3	ALPK1	4	113362087	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8420	113362087	77792189	2393	24744											
ANK2	287	broad.mit.edu	37	chr4	114276808	114276808	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacctacaggactgactgAggaggcagcctgtgatgaag	12	6	14	9	0	0	4	0	4	0	0	0	7	0	6	2	3	2	1	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:114276808A>G	uc003ibe.3	+	38	7134	c.7034A>G	c.(7033-7035)GAG>GGG	p.E2345G	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_5'Flank|ANK2_uc011cgb.1_Missense_Mutation_p.E2360G	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2312					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GGACTGACTGAGGAGGCAGCC	0.488													5	68					0	0	1	0	0		G	114276808	G	G	114276808	3	3	27	1	0	0	0	0	1	0	0	0	621	304	11	3	7249	3	ANK2	4	114276808	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	914721	114276808	76877468	2394	24745											
ANK2	287	broad.mit.edu	37	chr4	114277375	114277375	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggagagctcagggaagaGccccctttctcctgacaccc	9	7	10	15	0	2	3	1	1	1	2	3	5	2	4	4	2	2	1	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:114277375G>T	uc003ibe.3	+	38	7701	c.7601G>T	c.(7600-7602)AGC>ATC	p.S2534I	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Intron|ANK2_uc011cgb.1_Missense_Mutation_p.S2549I	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2501					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TCAGGGAAGAGCCCCCTTTCT	0.537													8	155					0.00307968	0.00318367	1	1	0		T	114277375	T	T	114277375	3	4	27	1	0	0	0	0	1	0	0	0	621	971	34	5	7816	5	ANK2	4	114277375	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	567	114277375	76876901	2395	24746											
ANK2	287	broad.mit.edu	37	chr4	114280116	114280116	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattgccagttaagagcagaAgcactacatcttcctgcagg	12	9	10	10	0	1	2	0	0	1	2	2	3	2	2	2	1	5	4	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:114280116A>G	uc003ibe.3	+	38	10442	c.10342A>G	c.(10342-10344)AGC>GGC	p.S3448G	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.S750G|ANK2_uc011cgb.1_Missense_Mutation_p.S3463G	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3415					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TAAGAGCAGAAGCACTACATC	0.463													5	50					0	0	1	0	0		G	114280116	G	G	114280116	3	3	27	1	0	0	0	0	1	0	0	0	621	72	3	3	10557	3	ANK2	4	114280116	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2741	114280116	76874160	2396	24747											
ANK2	287	broad.mit.edu	37	chr4	114294255	114294255	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caactgtttagggagacgatAtgcctgaaatacccccagaa	14	8	9	10	1	0	3	0	1	0	2	0	5	0	3	3	1	3	1	3	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:114294255A>G	uc003ibe.3	+	44	11720	c.11620A>G	c.(11620-11622)ATG>GTG	p.M3874V	ANK2_uc003ibd.3_Missense_Mutation_p.M1780V|ANK2_uc003ibf.3_Missense_Mutation_p.M1789V|ANK2_uc011cgc.1_Missense_Mutation_p.M965V|ANK2_uc003ibg.3_Missense_Mutation_p.M804V|ANK2_uc003ibh.3_Missense_Mutation_p.M494V|ANK2_uc011cgd.1_Missense_Mutation_p.M1176V|ANK2_uc010imr.2_5'Flank|ANK2_uc010ims.2_5'Flank	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3841					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GGGAGACGATATGCCTGAAAT	0.428													13	106					0	0	1	0	0		G	114294255	G	G	114294255	3	3	27	1	0	0	0	0	1	0	0	0	621	449	16	3	11859	3	ANK2	4	114294255	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14139	114294255	76860021	2397	24748											
ANK2	287	broad.mit.edu	37	chr4	114294470	114294470	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatcattaggcggtatgtAtcctctgaaggcacagagaa	15	9	10	7	1	2	2	1	1	1	1	3	3	3	2	1	3	0	3	1	3	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:114294470A>G	uc003ibe.3	+	45	11824	c.11724A>G	c.(11722-11724)GTA>GTG	p.V3908V	ANK2_uc003ibd.3_Silent_p.V1814V|ANK2_uc003ibf.3_Silent_p.V1823V|ANK2_uc011cgc.1_Silent_p.V999V|ANK2_uc003ibg.3_Silent_p.V838V|ANK2_uc003ibh.3_Silent_p.V528V|ANK2_uc011cgd.1_Silent_p.V1210V|ANK2_uc010imr.2_5'UTR|ANK2_uc010ims.2_5'UTR	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3875					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GGCGGTATGTATCCTCTGAAG	0.388													3	67					0	0	1	0	0		G	114294470	G	G	114294470	2	3	27	1	0	0	0	0	0	0	0	1	621	436	16	3		3	ANK2	4	114294470	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	215	114294470	76859806	2398	24749											
CAMK2D	817	broad.mit.edu	37	chr4	114473243	114473243	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcttcaaacagttcaccTccagtaactctgggaagata	13	11	7	10	0	4	1	2	0	2	1	5	2	5	2	2	1	2	2	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:114473243T>C	uc003ibi.2	-	5	1144	c.285A>G	c.(283-285)GGA>GGG	p.G95G	CAMK2D_uc003ibj.2_Silent_p.G95G|CAMK2D_uc003ibk.2_Silent_p.G95G|CAMK2D_uc003ibo.3_Silent_p.G95G|CAMK2D_uc003ibm.2_Silent_p.G95G|CAMK2D_uc003ibn.2_Silent_p.G95G|CAMK2D_uc003ibl.2_Silent_p.G95G	NM_001221	NP_001212	Q13557	KCC2D_HUMAN	calcium/calmodulin-dependent protein kinase II	95	Protein kinase.				interferon-gamma-mediated signaling pathway|regulation of cell growth|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1		Ovarian(17;0.00369)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000271)		ACAGTTCACCTCCAGTAACTC	0.353													7	70					0	0	1	0	0		C	114473243	C	C	114473243	2	2	27	1	0	0	0	0	0	0	0	1	2604	1538	54	3		3	CAMK2D	4	114473243	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	178773	114473243	76681033	2399	24750											
NDST4	64579	broad.mit.edu	37	chr4	115767046	115767046	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatcttggctttggggacaAgagatgcggctcgtcttgga	7	12	15	7	2	2	2	0	1	2	1	3	5	2	4	0	5	1	2	0	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:115767046A>G	uc003ibu.2	-	10	2727	c.2048T>C	c.(2047-2049)CTT>CCT	p.L683P	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	683	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TTTGGGGACAAGAGATGCGGC	0.443													5	96					0	0	1	0	0		G	115767046	G	G	115767046	3	3	27	1	0	0	0	0	1	0	0	0	10277	72	3	3	590	3	NDST4	4	115767046	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1293803	115767046	75387230	2400	24751											
NDST4	64579	broad.mit.edu	37	chr4	115998016	115998016	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagctccattgacctataTggtagaattttgatgtcagt	10	16	8	7	0	2	3	2	2	0	1	3	3	3	3	2	1	1	2	2	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:115998016T>A	uc003ibu.2	-	2	856	c.177A>T	c.(175-177)CCA>CCT	p.P59P	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	59	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TTGACCTATATGGTAGAATTT	0.418													5	70					0	0	1	0	0		A	115998016	A	A	115998016	2	1	27	1	0	0	0	0	0	0	0	1	10277	1451	51	5		5	NDST4	4	115998016	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	230970	115998016	75156260	2401	24752											
TRAM1L1	133022	broad.mit.edu	37	chr4	118005579	118005579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgaatattagaatcttctAcccacctctgaagccagaga	13	10	6	12	0	3	4	0	2	3	2	3	5	3	4	4	0	2	0	4	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:118005579A>G	uc003ibv.3	-	1	1158	c.971T>C	c.(970-972)GTA>GCA	p.V324A		NM_152402	NP_689615	Q8N609	TR1L1_HUMAN	translocation associated membrane protein 1-like	324	Cytoplasmic (Potential).|TLC.				protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane				central_nervous_system(1)	1						AGAATCTTCTACCCACCTCTG	0.408													15	200					0	0	1	0	0		G	118005579	G	G	118005579	3	3	27	1	0	0	0	0	1	0	0	0	16478	391	14	3	142	3	TRAM1L1	4	118005579	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2007563	118005579	73148697	2402	24753											
METTL14	57721	broad.mit.edu	37	chr4	119631199	119631199	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaatagcaactacaatgcAgaaacatatgcatcctattt	18	10	4	9	0	0	1	0	0	0	1	1	1	1	1	1	0	6	3	1	0	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:119631199A>G	uc003icf.2	+	11	1229	c.1113A>G	c.(1111-1113)GCA>GCG	p.A371A	METTL14_uc003icg.2_Silent_p.A333A	NM_020961	NP_066012	Q9HCE5	MTL14_HUMAN	methyltransferase like 14	371						nucleus	mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity				0						ACTACAATGCAGAAACATATG	0.378													21	99					0	0	1	0	0		G	119631199	G	G	119631199	2	3	27	1	0	0	0	0	0	0	0	1	9516	175	7	3		3	METTL14	4	119631199	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1625620	119631199	71523077	2403	24754											
METTL14	57721	broad.mit.edu	37	chr4	119631225	119631225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatgcatcctatttcagtgCtcctaattcctacttgactg	9	16	5	11	0	1	1	1	1	0	0	4	1	4	1	3	0	3	2	3	0	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:119631225C>T	uc003icf.2	+	11	1255	c.1139C>T	c.(1138-1140)GCT>GTT	p.A380V	METTL14_uc003icg.2_Missense_Mutation_p.A342V	NM_020961	NP_066012	Q9HCE5	MTL14_HUMAN	methyltransferase like 14	380						nucleus	mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity				0						TATTTCAGTGCTCCTAATTCC	0.433													6	91					0	0	1	0	0		T	119631225	T	T	119631225	3	4	27	1	0	0	0	0	1	0	0	0	9516	797	28	2	1181	2	METTL14	4	119631225	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	26	119631225	71523051	2404	24755											
SEC24D	9871	broad.mit.edu	37	chr4	119644689	119644689	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaattaagcagctgacagAtctccttgtgaacacaacaa	16	10	6	9	0	1	3	0	2	1	1	2	3	1	3	1	0	4	2	1	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:119644689A>G	uc003ici.3	-	23	3352	c.3080T>C	c.(3079-3081)ATC>ACC	p.I1027T	SEC24D_uc003ich.3_RNA|SEC24D_uc003icj.3_Missense_Mutation_p.I1028T	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D	1027					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0						CAGCTGACAGATCTCCTTGTG	0.393													7	97					0	0	1	0	0		G	119644689	G	G	119644689	3	3	27	1	0	0	0	0	1	0	0	0	14022	333	12	3	22	3	SEC24D	4	119644689	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	13464	119644689	71509587	2405	24756											
SEC24D	9871	broad.mit.edu	37	chr4	119644736	119644736	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacataagaagagcctccGtaaagtcctttgtcttctac	11	12	6	12	1	2	2	0	0	2	2	5	2	5	2	4	0	2	1	4	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:119644736G>A	uc003ici.3	-	23	3305	c.3033C>T	c.(3031-3033)TAC>TAT	p.Y1011Y	SEC24D_uc003ich.3_RNA|SEC24D_uc003icj.3_Silent_p.Y1012Y	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D	1011					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0						AAGAGCCTCCGTAAAGTCCTT	0.383													28	112					0	0	1	0	0		A	119644736	A	A	119644736	2	1	27	1	0	0	0	0	0	0	0	1	14022	1140	40	1		1	SEC24D	4	119644736	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	47	119644736	71509540	2406	24757											
SEC24D	9871	broad.mit.edu	37	chr4	119686061	119686061	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggtccagatgttggaaatAgaatggtggaactaataaaa	16	10	12	3	0	0	2	0	0	0	2	1	4	1	4	1	4	1	1	1	4	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:119686061A>G	uc003ici.3	-	10	1464	c.1192T>C	c.(1192-1194)TAT>CAT	p.Y398H	SEC24D_uc003ich.3_RNA|SEC24D_uc003icj.3_Missense_Mutation_p.Y399H|SEC24D_uc003icl.2_RNA|SEC24D_uc010imz.1_RNA	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D	398					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0						TGTTGGAAATAGAATGGTGGA	0.318													6	75					0	0	1	0	0		G	119686061	G	G	119686061	3	3	27	1	0	0	0	0	1	0	0	0	14022	420	15	3	1962	3	SEC24D	4	119686061	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	41325	119686061	71468215	2407	24758											
SYNPO2	171024	broad.mit.edu	37	chr4	119947952	119947952	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagactgaagttcccctagCtgagaaccaaagaagtggtc	14	7	10	10	0	0	4	0	2	0	3	2	5	1	4	3	1	2	2	3	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:119947952C>A	uc003icm.3	+	3	624	c.428C>A	c.(427-429)GCT>GAT	p.A143D	SYNPO2_uc010ina.2_Missense_Mutation_p.A143D|SYNPO2_uc010inb.2_Missense_Mutation_p.A143D|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Missense_Mutation_p.A71D	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	143						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						GTTCCCCTAGCTGAGAACCAA	0.547													6	65					0.0293803	0.0298427	1	1	0		A	119947952	A	A	119947952	3	1	27	1	0	0	0	0	1	0	0	0	15482	797	28	5	438	5	SYNPO2	4	119947952	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	261891	119947952	71206324	2408	24759											
MYOZ2	51778	broad.mit.edu	37	chr4	120107215	120107215	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattgctaacagatcccaggTttatgtcctttgtcaatccc	9	15	6	11	0	1	1	1	0	0	1	4	1	4	1	3	1	2	2	3	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:120107215T>G	uc003icp.3	+	6	868	c.655T>G	c.(655-657)TTT>GTT	p.F219V		NM_016599	NP_057683	Q9NPC6	MYOZ2_HUMAN	myozenin 2	219							protein phosphatase 2B binding				0						AGATCCCAGGTTTATGTCCTT	0.408													7	78					0	0	1	0	0		G	120107215	G	G	120107215	3	3	27	1	0	0	0	0	1	0	0	0	10114	1725	60	5	673	5	MYOZ2	4	120107215	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	159263	120107215	71047061	2409	24760											
USP53	54532	broad.mit.edu	37	chr4	120181691	120181691	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccaaaaaataaaaattcgCcgtgttttaatgaattgccc	15	11	7	8	2	0	1	0	1	0	0	1	1	0	1	3	1	1	1	3	1	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:120181691C>T	uc003ics.3	+	10	1771	c.705C>T	c.(703-705)CGC>CGT	p.R235R	USP53_uc003icr.3_Silent_p.R235R|USP53_uc003icu.3_5'UTR	NM_019050	NP_061923	Q70EK8	UBP53_HUMAN	ubiquitin specific protease 53	235					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			ovary(1)|breast(1)|kidney(1)|skin(1)	4						TAAAAATTCGCCGTGTTTTAA	0.373													4	54					0	0	1	0	0		T	120181691	T	T	120181691	2	4	27	1	0	0	0	0	0	0	0	1	17110	726	26	2		2	USP53	4	120181691	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	74476	120181691	70972585	2410	24761											
PRDM5	11107	broad.mit.edu	37	chr4	121719441	121719441	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttcttatgattcttgtaaAcatttctgtgggcaaatccc	9	16	6	10	0	3	1	0	1	3	0	4	1	4	1	2	1	1	2	2	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:121719441A>T	uc003idn.2	-	10	1419	c.1169T>A	c.(1168-1170)GTT>GAT	p.V390D	PRDM5_uc003ido.2_Missense_Mutation_p.V359D|PRDM5_uc010ine.2_Missense_Mutation_p.V359D	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	390	C2H2-type 8.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						ATTCTTGTAAACATTTCTGTG	0.303													5	37					0	0	1	0	0		T	121719441	T	T	121719441	3	4	27	1	0	0	0	0	1	0	0	0	12482	43	2	5	751	5	PRDM5	4	121719441	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1537750	121719441	69434835	2411	24762											
PRDM5	11107	broad.mit.edu	37	chr4	121742449	121742449	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	caggtagccaatcagaagctCcgtgtctgtttctatatctt	9	14	8	10	1	4	1	1	0	3	1	5	1	5	1	2	1	2	3	2	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:121742449C>G	uc003idn.2	-	4	602	c.352G>C	c.(352-354)GAG>CAG	p.E118Q	PRDM5_uc003ido.2_Missense_Mutation_p.E118Q|PRDM5_uc010ine.2_Missense_Mutation_p.E118Q|PRDM5_uc010inf.2_Missense_Mutation_p.E118Q	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	118	SET.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						ATCAGAAGCTCCGTGTCTGTT	0.373													13	87					0	0	1	0	0		G	121742449	G	G	121742449	3	3	27	1	0	0	0	0	1	0	0	0	12482	864	30	5	1592	5	PRDM5	4	121742449	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23008	121742449	69411827	2412	24763											
C4orf31	79625	broad.mit.edu	37	chr4	121957507	121957507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cataaacatccagcaggtaaGatttgccaggctgaagacct	14	8	9	10	0	0	3	0	1	0	2	1	3	1	3	3	2	3	3	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:121957507G>A	uc003idq.1	-	4	2146	c.1619C>T	c.(1618-1620)TCT>TTT	p.S540F		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	540	Fibronectin type-III 2.										0						CAGCAGGTAAGATTTGCCAGG	0.403													9	108					0	0	1	0	0		A	121957507	A	A	121957507	3	1	27	1	0	0	0	0	1	0	0	0	2264	942	33	4	91	4	C4orf31	4	121957507	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	215058	121957507	69196769	2413	24764											
KIAA1109	84162	broad.mit.edu	37	chr4	123107245	123107245	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgactttgaatttcatgTctataatcgctcggatcttt	10	17	6	8	2	3	2	1	2	2	0	5	3	3	3	0	1	0	1	0	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:123107245T>C	uc003ieh.2	+	5	458	c.413T>C	c.(412-414)GTC>GCC	p.V138A	KIAA1109_uc003iei.1_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	138					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GAATTTCATGTCTATAATCGC	0.343													5	66					0	0	1	0	0		C	123107245	C	C	123107245	3	2	27	1	0	0	0	0	1	0	0	0	8224	1667	58	3	431	3	KIAA1109	4	123107245	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1149738	123107245	68047031	2414	24765											
KIAA1109	84162	broad.mit.edu	37	chr4	123109221	123109221	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttgttcctagtccaagaTatgttggtcttcaaaatgat	10	16	8	7	0	2	2	1	1	1	1	4	2	4	2	2	1	1	3	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:123109221T>G	uc003ieh.2	+	7	844	c.799T>G	c.(799-801)TAT>GAT	p.Y267D	KIAA1109_uc003iei.1_Missense_Mutation_p.Y21D	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	267					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TAGTCCAAGATATGTTGGTCT	0.303													4	61					0	0	1	0	0		G	123109221	G	G	123109221	3	3	27	1	0	0	0	0	1	0	0	0	8224	1406	49	5	825	5	KIAA1109	4	123109221	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1976	123109221	68045055	2415	24766											
KIAA1109	84162	broad.mit.edu	37	chr4	123145659	123145659	+	Frame_Shift_Del	DEL	C	-	-																															attattgttttcagcagcgaCcccctgtggatgaagtactc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:123145659delC	uc003ieh.2	+	21	2665	c.2620delC	c.(2620-2622)CCCfs	p.P874fs	KIAA1109_uc003iei.1_Frame_Shift_Del_p.P627fs|KIAA1109_uc010ins.1_Frame_Shift_Del_p.P217fs|KIAA1109_uc003iej.1_Frame_Shift_Del_p.P259fs	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	874					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TCAGCAGCGACCCCCTGTGGA	0.443													15	34	---	---	---	---						.	-	123145659	-	-	123145659	7	5	27	1	0	1	0	1	0	0	0	0	8224	507	18	0	2702	0	KIAA1109	4	123145659	Frame_Shift_Del	DEL	C	TCGA-BR-6452-01A-12D-1800-08	36438	123145659	68008617	2416	24767											
KIAA1109	84162	broad.mit.edu	37	chr4	123184100	123184100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaggtactcctcagagaaGcagtgctgctgtgaaaagta	13	8	13	7	0	1	2	1	1	0	1	2	4	2	3	1	2	4	5	1	2	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:123184100G>A	uc003ieh.2	+	41	6989	c.6944G>A	c.(6943-6945)AGC>AAC	p.S2315N	KIAA1109_uc003iel.1_Missense_Mutation_p.S250N|KIAA1109_uc003iek.2_Missense_Mutation_p.S934N	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2315					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CCTCAGAGAAGCAGTGCTGCT	0.473													6	56					0	0	1	0	0		A	123184100	A	A	123184100	3	1	27	1	0	0	0	0	1	0	0	0	8224	971	34	2	7106	2	KIAA1109	4	123184100	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	38441	123184100	67970176	2417	24768											
KIAA1109	84162	broad.mit.edu	37	chr4	123229282	123229282	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctcactgtcaatgatctGggaatttgcctacctatcac	10	12	7	12	0	4	1	3	1	1	0	4	2	4	2	2	1	3	1	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:123229282G>A	uc003ieh.2	+	56	10065	c.10020G>A	c.(10018-10020)CTG>CTA	p.L3340L	KIAA1109_uc003iel.1_Silent_p.L1275L	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3340					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TCAATGATCTGGGAATTTGCC	0.413													19	243					0	0	1	0	0		A	123229282	A	A	123229282	2	1	27	1	0	0	0	0	0	0	0	1	8224	1335	47	4		4	KIAA1109	4	123229282	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	45182	123229282	67924994	2418	24769											
KIAA1109	84162	broad.mit.edu	37	chr4	123254921	123254921	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacagacaaagcctagtgActtagaaacaacagtatttt	16	11	6	8	0	1	3	0	1	1	2	1	3	1	3	1	0	4	1	1	0	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:123254921A>G	uc003ieh.2	+	66	11648	c.11603A>G	c.(11602-11604)GAC>GGC	p.D3868G	KIAA1109_uc003iem.2_Missense_Mutation_p.D259G	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3868					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAGCCTAGTGACTTAGAAACA	0.368													3	31					0	0	1	0	0		G	123254921	G	G	123254921	3	3	27	1	0	0	0	0	1	0	0	0	8224	275	10	3	11865	3	KIAA1109	4	123254921	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	25639	123254921	67899355	2419	24770											
KIAA1109	84162	broad.mit.edu	37	chr4	123257435	123257435	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaagaaatggttattagTccctgcctattagactttct	11	14	7	9	0	1	3	0	0	1	3	2	3	2	3	3	1	1	1	3	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:123257435T>A	uc003ieh.2	+	68	11982	c.11937T>A	c.(11935-11937)AGT>AGA	p.S3979R	KIAA1109_uc003iem.2_Missense_Mutation_p.S335R|KIAA1109_uc003ien.2_5'Flank	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3979					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TGGTTATTAGTCCCTGCCTAT	0.403													6	55					0	0	1	0	0		A	123257435	A	A	123257435	3	1	27	1	0	0	0	0	1	0	0	0	8224	1664	58	5	12207	5	KIAA1109	4	123257435	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2514	123257435	67896841	2420	24771											
ADAD1	132612	broad.mit.edu	37	chr4	123302219	123302219	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccttcctccaaaaaaaaTacctaaggaatttataatga	17	12	4	8	0	0	1	0	1	0	0	3	2	3	2	4	1	1	0	4	1	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:123302219T>A	uc003ieo.2	+	4	477	c.245T>A	c.(244-246)ATA>AAA	p.I82K	ADAD1_uc003iep.2_Missense_Mutation_p.I82K|ADAD1_uc003ieq.2_Missense_Mutation_p.I64K	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	82					multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						CCAAAAAAAATACCTAAGGAA	0.363													10	76					0	0	1	0	0		A	123302219	A	A	123302219	3	1	27	1	0	0	0	0	1	0	0	0	231	1406	49	5	251	5	ADAD1	4	123302219	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	44784	123302219	67852057	2421	24772											
NUDT6	11162	broad.mit.edu	37	chr4	123838694	123838694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgaagcatatcctggtaatCtgctgggcccttctctcagc	7	12	10	12	0	3	1	1	1	2	0	5	1	4	1	2	2	3	3	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:123838694C>T	uc003iew.2	-	2	436	c.404G>A	c.(403-405)AGA>AAA	p.R135K	NUDT6_uc003iex.2_5'UTR	NM_007083	NP_009014	P53370	NUDT6_HUMAN	nudix-type motif 6 isoform a	135						mitochondrion|nucleus	growth factor activity|hydrolase activity				0						TCCTGGTAATCTGCTGGGCCC	0.468													13	112					0	0	1	0	0		T	123838694	T	T	123838694	3	4	27	1	0	0	0	0	1	0	0	0	10762	913	32	4	562	4	NUDT6	4	123838694	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	536475	123838694	67315582	2422	24773											
NUDT6	11162	broad.mit.edu	37	chr4	123843587	123843587	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaatctgtccagctcgccCtgcagatcgcacgctccaac	8	7	8	18	4	1	1	0	0	1	1	5	2	3	1	4	0	3	4	4	0	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:123843587C>A	uc003iew.2	-	1	173	c.141G>T	c.(139-141)CAG>CAT	p.Q47H	SPATA5_uc003iey.2_5'Flank|SPATA5_uc003iez.3_5'Flank|NUDT6_uc003iex.2_Intron	NM_007083	NP_009014	P53370	NUDT6_HUMAN	nudix-type motif 6 isoform a	47						mitochondrion|nucleus	growth factor activity|hydrolase activity				0						CCAGCTCGCCCTGCAGATCGC	0.701													3	27					0.00024832	0.000261516	1	1	0		A	123843587	A	A	123843587	3	1	27	1	0	0	0	0	1	0	0	0	10762	680	24	5	829	5	NUDT6	4	123843587	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4893	123843587	67310689	2423	24774											
SPATA5	166378	broad.mit.edu	37	chr4	123844395	123844395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgcggaggcacgggctcCttctgctggatcagacttcg	5	11	14	11	3	2	1	1	0	1	1	4	3	3	3	1	4	2	3	1	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:123844395C>T	uc003iez.3	+	1	171	c.98C>T	c.(97-99)CCT>CTT	p.P33L	SPATA5_uc003iey.2_Missense_Mutation_p.P33L|NUDT6_uc003iew.2_5'Flank|NUDT6_uc003iex.2_5'Flank	NM_145207	NP_660208	Q8NB90	SPAT5_HUMAN	spermatogenesis associated 5	33					cell differentiation|multicellular organismal development|spermatogenesis	mitochondrion	ATP binding|nucleoside-triphosphatase activity				0						GCACGGGCTCCTTCTGCTGGA	0.542													8	145					0	0	1	0	0		T	123844395	T	T	123844395	3	4	27	1	0	0	0	0	1	0	0	0	15036	681	24	4	100	4	SPATA5	4	123844395	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	808	123844395	67309881	2424	24775											
ANKRD50	57182	broad.mit.edu	37	chr4	125590911	125590911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacagtgatgacttctgcCggtcaactgtagaatctgga	10	12	11	8	1	3	4	1	3	2	1	3	5	3	5	1	2	2	1	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:125590911C>T	uc003ifg.3	-	3	3787	c.3521G>A	c.(3520-3522)CGG>CAG	p.R1174Q	ANKRD50_uc011cgo.1_Missense_Mutation_p.R995Q|ANKRD50_uc010inw.2_Missense_Mutation_p.R1174Q	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	1174	Ser-rich.									central_nervous_system(1)	1						TGACTTCTGCCGGTCAACTGT	0.428													27	85					0	0	1	0	0		T	125590911	T	T	125590911	3	4	27	1	0	0	0	0	1	0	0	0	677	652	23	1	772	1	ANKRD50	4	125590911	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1746516	125590911	65563365	2425	24776											
ANKRD50	57182	broad.mit.edu	37	chr4	125591399	125591399	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactgcaaagcagagcgcttTtcattgtctgcagcattgac	10	11	10	10	1	2	2	1	1	1	1	2	3	2	2	0	0	5	5	0	0	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:125591399T>C	uc003ifg.3	-	3	3299	c.3033A>G	c.(3031-3033)GAA>GAG	p.E1011E	ANKRD50_uc011cgo.1_Silent_p.E832E|ANKRD50_uc010inw.2_Silent_p.E1011E	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	1011	ANK 17.									central_nervous_system(1)	1						CAGAGCGCTTTTCATTGTCTG	0.488													4	56					0	0	1	0	0		C	125591399	C	C	125591399	2	2	27	1	0	0	0	0	0	0	0	1	677	1838	64	3		3	ANKRD50	4	125591399	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	488	125591399	65562877	2426	24777											
ANKRD50	57182	broad.mit.edu	37	chr4	125591412	125591412	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcgcttttcattgtctgcaGcattgacgtcagcatggtat	8	14	10	9	2	3	1	2	1	1	0	3	1	3	1	0	1	4	5	0	1	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:125591412G>T	uc003ifg.3	-	3	3286	c.3020C>A	c.(3019-3021)GCT>GAT	p.A1007D	ANKRD50_uc011cgo.1_Missense_Mutation_p.A828D|ANKRD50_uc010inw.2_Missense_Mutation_p.A1007D	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	1007	ANK 16.									central_nervous_system(1)	1						ATTGTCTGCAGCATTGACGTC	0.498													6	55					0.00116845	0.00121513	1	1	0		T	125591412	T	T	125591412	3	4	27	1	0	0	0	0	1	0	0	0	677	971	34	5	1273	5	ANKRD50	4	125591412	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13	125591412	65562864	2427	24778											
FAT4	79633	broad.mit.edu	37	chr4	126239682	126239682	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggagaatgagcctggaggtAgctacatcaccactgtgtct	11	9	12	9	0	2	2	1	1	1	1	2	4	2	3	2	3	3	2	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:126239682A>G	uc003ifj.3	+	1	2116	c.2116A>G	c.(2116-2118)AGC>GGC	p.S706G		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	706	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GCCTGGAGGTAGCTACATCAC	0.473													7	77					0	0	1	0	0		G	126239682	G	G	126239682	3	3	27	1	0	0	0	0	1	0	0	0	5706	420	15	3	2118	3	FAT4	4	126239682	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	648270	126239682	64914594	2428	24779											
FAT4	79633	broad.mit.edu	37	chr4	126241702	126241702	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttgccaaaaaactggActttgaaacacagtctttgt	12	15	6	8	0	2	1	0	1	2	0	2	2	2	2	1	1	3	0	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:126241702A>T	uc003ifj.3	+	1	4136	c.4136A>T	c.(4135-4137)GAC>GTC	p.D1379V		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1379	Cadherin 13.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AAAAAACTGGACTTTGAAACA	0.378													9	156					0	0	1	0	0		T	126241702	T	T	126241702	3	4	27	1	0	0	0	0	1	0	0	0	5706	275	10	5	4138	5	FAT4	4	126241702	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2020	126241702	64912574	2429	24780											
FAT4	79633	broad.mit.edu	37	chr4	126371457	126371457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctcaaagccacatgagtGcaaccatccctgagagccat	12	8	7	14	0	2	2	1	2	1	1	4	3	3	2	4	0	4	1	4	0	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:126371457G>A	uc003ifj.3	+	9	9286	c.9286G>A	c.(9286-9288)GCA>ACA	p.A3096T	FAT4_uc011cgp.1_Missense_Mutation_p.A1394T|FAT4_uc003ifi.1_Missense_Mutation_p.A574T	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3096	Cadherin 30.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CCACATGAGTGCAACCATCCC	0.448													6	59					0	0	1	0	0		A	126371457	A	A	126371457	3	1	27	1	0	0	0	0	1	0	0	0	5706	1319	46	2	9320	2	FAT4	4	126371457	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	129755	126371457	64782819	2430	24781											
FAT4	79633	broad.mit.edu	37	chr4	126373323	126373323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcatcttacttcgtctcGgcgtaccaacagtaaaggac	12	9	8	12	3	2	0	0	0	2	0	4	1	2	1	1	2	4	3	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:126373323G>A	uc003ifj.3	+	9	11152	c.11152G>A	c.(11152-11154)GGC>AGC	p.G3718S	FAT4_uc011cgp.1_Missense_Mutation_p.G2016S|FAT4_uc003ifi.1_Missense_Mutation_p.G1196S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3718	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACTTCGTCTCGGCGTACCAAC	0.463													15	159					0	0	1	0	0		A	126373323	A	A	126373323	3	1	27	1	0	0	0	0	1	0	0	0	5706	1116	39	1	11186	1	FAT4	4	126373323	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1866	126373323	64780953	2431	24782											
FAT4	79633	broad.mit.edu	37	chr4	126411099	126411099	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctatgtggtatggtggagaAagtcttcctttcagcgggaa	9	13	13	6	1	3	1	1	0	2	1	4	3	4	2	1	4	1	1	1	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:126411099A>C	uc003ifj.3	+	17	13122	c.13122A>C	c.(13120-13122)GAA>GAC	p.E4374D	FAT4_uc011cgp.1_Missense_Mutation_p.E2615D|FAT4_uc003ifi.1_Missense_Mutation_p.E1851D	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4374	Laminin G-like 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ATGGTGGAGAAAGTCTTCCTT	0.448													56	229					0	0	1	0	0		C	126411099	C	C	126411099	3	2	27	1	0	0	0	0	1	0	0	0	5706	11	1	5	13188	5	FAT4	4	126411099	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37776	126411099	64743177	2432	24783											
FAT4	79633	broad.mit.edu	37	chr4	126412663	126412663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcctcgaaggtaccacggtCgcagggccgagggaggacct	9	4	16	12	4	0	0	0	0	0	0	2	4	0	2	4	5	2	2	4	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:126412663C>T	uc003ifj.3	+	17	14686	c.14686C>T	c.(14686-14688)CGC>TGC	p.R4896C	FAT4_uc011cgp.1_Missense_Mutation_p.R3137C|FAT4_uc003ifi.1_Missense_Mutation_p.R2373C	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4896	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GTACCACGGTCGCAGGGCCGA	0.522													18	53					0	0	1	0	0		T	126412663	T	T	126412663	3	4	27	1	0	0	0	0	1	0	0	0	5706	884	31	1	14752	1	FAT4	4	126412663	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1564	126412663	64741613	2433	24784											
INTU	27152	broad.mit.edu	37	chr4	128584698	128584698	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acactcctcatatcattatgTatctcacactacagctcgac	12	12	3	14	1	3	0	3	0	1	0	6	1	4	0	1	0	2	2	1	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:128584698T>C	uc003ifk.1	+	4	1001	c.931T>C	c.(931-933)TAT>CAT	p.Y311H	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	311										ovary(1)	1						TATCATTATGTATCTCACACT	0.423													9	81					0	0	1	0	0		C	128584698	C	C	128584698	3	2	27	1	0	0	0	0	1	0	0	0	7802	1638	57	3	945	3	INTU	4	128584698	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2172035	128584698	62569578	2434	24785											
INTU	27152	broad.mit.edu	37	chr4	128627710	128627710	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagctattgggagtcctggAccagactgtgtatatgtgga	11	11	13	6	0	0	1	0	0	0	1	1	4	1	4	2	3	1	2	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:128627710A>G	uc003ifk.1	+	12	1927	c.1857A>G	c.(1855-1857)GGA>GGG	p.G619G	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	619										ovary(1)	1						GGAGTCCTGGACCAGACTGTG	0.418													12	138					0	0	1	0	0		G	128627710	G	G	128627710	2	3	27	1	0	0	0	0	0	0	0	1	7802	262	10	3		3	INTU	4	128627710	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	43012	128627710	62526566	2435	24786											
HSPA4L	22824	broad.mit.edu	37	chr4	128724795	128724795	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attaaacaggtcttggctacTacctttgatccatatttggg	10	15	8	8	0	1	1	0	1	1	0	2	1	2	1	2	3	3	1	2	3	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:128724795T>C	uc003ifm.2	+	7	928	c.675T>C	c.(673-675)ACT>ACC	p.T225T	HSPA4L_uc010iny.1_Silent_p.T184T|HSPA4L_uc011cgr.1_Silent_p.T192T	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	225					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						TCTTGGCTACTACCTTTGATC	0.299													5	68					0	0	1	0	0		C	128724795	C	C	128724795	2	2	27	1	0	0	0	0	0	0	0	1	7429	1509	53	3		3	HSPA4L	4	128724795	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	97085	128724795	62429481	2436	24787											
SCLT1	132320	broad.mit.edu	37	chr4	129812262	129812262	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agctgagaaagcagctcttgGgtatgaagtttctgtcgact	10	12	12	7	1	2	2	0	2	2	1	3	4	2	2	0	1	3	5	0	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:129812262G>A	uc003igp.2	-	19	2366	c.1860C>T	c.(1858-1860)ACC>ACT	p.T620T	SCLT1_uc003ign.2_Silent_p.T284T|SCLT1_uc003igo.2_Silent_p.T230T|SCLT1_uc003igq.2_Silent_p.T239T|SCLT1_uc010iob.1_Silent_p.T107T	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	620	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						GCAGCTCTTGGGTATGAAGTT	0.398													5	86					0	0	1	0	0		A	129812262	A	A	129812262	2	1	27	1	0	0	0	0	0	0	0	1	13931	1219	43	4		4	SCLT1	4	129812262	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1087467	129812262	61342014	2437	24788											
SCLT1	132320	broad.mit.edu	37	chr4	129886438	129886438	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtaaacgcctatctgatgcTtcctctcttccatgggcaga	8	13	8	12	1	2	2	0	1	2	1	5	2	4	2	3	1	2	3	3	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:129886438T>G	uc003igp.2	-	11	1319	c.813A>C	c.(811-813)GAA>GAC	p.E271D	SCLT1_uc003ign.2_Intron|SCLT1_uc003igo.2_5'UTR|SCLT1_uc003igq.2_Intron|SCLT1_uc010iob.1_Intron	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	271	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						TATCTGATGCTTCCTCTCTTC	0.348													6	87					0	0	1	0	0		G	129886438	G	G	129886438	3	3	27	1	0	0	0	0	1	0	0	0	13931	1606	56	5	1297	5	SCLT1	4	129886438	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	74176	129886438	61267838	2438	24789											
SCLT1	132320	broad.mit.edu	37	chr4	129920859	129920859	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actttcaaatacatgaatctGggcctcagtcatatgttcct	11	14	6	10	0	4	1	3	1	1	0	5	1	5	1	2	1	1	1	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:129920859G>A	uc003igp.2	-	7	1023	c.517C>T	c.(517-519)CAG>TAG	p.Q173*	SCLT1_uc003igo.2_5'Flank|SCLT1_uc003igq.2_Nonsense_Mutation_p.Q173*|SCLT1_uc010iob.1_Intron	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	173	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						ACATGAATCTGGGCCTCAGTC	0.358													12	51					0	0	1	0	0		A	129920859	A	A	129920859	4	1	27	1	0	0	0	0	0	1	0	0	13931	1357	47	4	1609	4	SCLT1	4	129920859	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	34421	129920859	61233417	2439	24790											
PCDH10	57575	broad.mit.edu	37	chr4	134071888	134071888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagcagcaagcggtgcaccGctacgtgctgaccgcggtgg	8	5	16	12	5	0	2	0	1	0	1	0	2	0	2	2	3	6	5	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:134071888G>A	uc003iha.2	+	1	1419	c.593G>A	c.(592-594)CGC>CAC	p.R198H	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.R198H	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	198	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GCGGTGCACCGCTACGTGCTG	0.493													4	33					0	0	1	0	0		A	134071888	A	A	134071888	3	1	27	1	0	0	0	0	1	0	0	0	11526	1087	38	1	595	1	PCDH10	4	134071888	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4151029	134071888	57082388	2440	24791											
PCDH10	57575	broad.mit.edu	37	chr4	134073029	134073029	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgccatcgtggcgcctctAccagggcgcaacgggactcc	6	6	12	17	4	1	0	0	0	1	0	3	1	2	1	5	3	3	1	5	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:134073029A>G	uc003iha.2	+	1	2560	c.1734A>G	c.(1732-1734)CTA>CTG	p.L578L	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.L578L	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	578	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TGGCGCCTCTACCAGGGCGCA	0.697													3	57					0	0	1	0	0		G	134073029	G	G	134073029	2	3	27	1	0	0	0	0	0	0	0	1	11526	378	14	3		3	PCDH10	4	134073029	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1141	134073029	57081247	2441	24792											
PCDH10	57575	broad.mit.edu	37	chr4	134073742	134073742	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttggctcccaccaccacaAccagaattactgctatcagg	11	9	6	15	0	1	1	1	0	0	1	2	1	2	1	4	2	3	2	4	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:134073742A>G	uc003iha.2	+	1	3273	c.2447A>G	c.(2446-2448)AAC>AGC	p.N816S	PCDH10_uc003igz.2_Missense_Mutation_p.N816S	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	816	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CACCACCACAACCAGAATTAC	0.577													4	33					0	0	1	0	0		G	134073742	G	G	134073742	3	3	27	1	0	0	0	0	1	0	0	0	11526	43	2	3	2449	3	PCDH10	4	134073742	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	713	134073742	57080534	2442	24793											
PCDH18	54510	broad.mit.edu	37	chr4	138451511	138451511	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attattacgcaatgcaggccCtataaccacaggaacgttgt	13	10	8	10	2	0	0	0	0	0	0	0	1	0	1	2	2	4	3	2	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:138451511C>A	uc003ihe.3	-	1	2119	c.1732G>T	c.(1732-1734)GGG>TGG	p.G578W	PCDH18_uc003ihf.3_Missense_Mutation_p.G571W|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.G358W|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	578	Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					AATGCAGGCCCTATAACCACA	0.468													16	209					5.3912e-06	5.81687e-06	1	1	0		A	138451511	A	A	138451511	3	1	27	1	0	0	0	0	1	0	0	0	11532	681	24	5	1691	5	PCDH18	4	138451511	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4377769	138451511	52702765	2443	24794											
SLC7A11	23657	broad.mit.edu	37	chr4	139103485	139103485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtagaggagtgtgcttgCggacatgaatcatggagagg	10	9	17	5	1	1	3	1	1	0	2	1	6	1	5	0	5	2	2	0	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:139103485C>T	uc011chb.1	-	9	1362	c.1082G>A	c.(1081-1083)CGC>CAC	p.R361H		NM_014331	NP_055146	Q9UPY5	XCT_HUMAN	solute carrier family 7, (cationic amino acid	361	Cytoplasmic (Potential).				blood coagulation|cellular nitrogen compound metabolic process|leukocyte migration|response to toxin	integral to membrane|plasma membrane	cystine:glutamate antiporter activity|protein binding			skin(1)	1	all_hematologic(180;0.166)				L-Cystine(DB00138)|L-Glutamic Acid(DB00142)|Sulfasalazine(DB00795)	AGTGTGCTTGCGGACATGAAT	0.403													8	74					0	0	1	0	0		T	139103485	T	T	139103485	3	4	27	1	0	0	0	0	1	0	0	0	14719	768	27	1	439	1	SLC7A11	4	139103485	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	651974	139103485	52050791	2444	24795											
NAA15	80155	broad.mit.edu	37	chr4	140265423	140265423	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaagcaggtctctatagAgaagctttggaacatctttg	11	11	12	7	1	2	1	0	0	2	1	3	4	2	3	0	3	3	2	0	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:140265423A>T	uc003ihu.1	+	6	877	c.621A>T	c.(619-621)AGA>AGT	p.R207S		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	207					angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2						GTCTCTATAGAGAAGCTTTGG	0.338													8	102					0	0	1	0	0		T	140265423	T	T	140265423	3	4	27	1	0	0	0	0	1	0	0	0	10136	301	11	5	643	5	NAA15	4	140265423	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1161938	140265423	50888853	2445	24796											
MAML3	55534	broad.mit.edu	37	chr4	140641423	140641423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgccatcagccgtgacgttCgcatgctctggagggctgct	5	10	14	12	3	2	1	1	1	1	0	3	2	2	2	2	2	4	5	2	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:140641423C>T	uc003ihz.1	-	7	3208	c.2456G>A	c.(2455-2457)CGA>CAA	p.R819Q	MGST2_uc010ioi.1_Intron|MAML3_uc011chd.1_Missense_Mutation_p.R287Q	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	820	Gln-rich.				Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					CCGTGACGTTCGCATGCTCTG	0.572													12	100					0	0	1	0	0		T	140641423	T	T	140641423	3	4	27	1	0	0	0	0	1	0	0	0	9225	884	31	1	949	1	MAML3	4	140641423	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	376000	140641423	50512853	2446	24797											
MAML3	55534	broad.mit.edu	37	chr4	140811420	140811420	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaaggtaaactagtggcCgtggagacagtagaaaaggg	16	5	15	5	1	0	3	0	0	0	3	0	4	0	3	1	4	1	2	1	4	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:140811420C>T	uc003ihz.1	-	2	1922	c.1170G>A	c.(1168-1170)ACG>ACA	p.T390T	MAML3_uc011chd.1_Intron	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	390					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					AACTAGTGGCCGTGGAGACAG	0.562													12	116					0	0	1	0	0		T	140811420	T	T	140811420	2	4	27	1	0	0	0	0	0	0	0	1	9225	639	23	1		1	MAML3	4	140811420	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	169997	140811420	50342856	2447	24798											
MAML3	55534	broad.mit.edu	37	chr4	140811851	140811851	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaatctcagggagcctacCattcttacttagatcttcta	10	16	5	10	0	4	1	1	0	4	1	5	2	4	2	2	1	3	0	2	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:140811851C>A	uc003ihz.1	-	2	1491	c.739G>T	c.(739-741)GGT>TGT	p.G247C	MAML3_uc011chd.1_Intron	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	247					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					GGGAGCCTACCATTCTTACTT	0.473													19	102					1.00905e-13	1.12519e-13	1	1	0		A	140811851	A	A	140811851	3	1	27	1	0	0	0	0	1	0	0	0	9225	594	21	5	2685	5	MAML3	4	140811851	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	431	140811851	50342425	2448	24799											
CLGN	1047	broad.mit.edu	37	chr4	141310438	141310438	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccatctccagatcctgtGctctcatctgcttctttcat	5	15	6	15	0	5	1	2	0	4	1	8	1	6	1	3	1	2	2	3	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:141310438G>A	uc011chi.1	-	16	1991	c.1773C>T	c.(1771-1773)AGC>AGT	p.S591S	CLGN_uc003iii.2_Silent_p.S591S	NM_001130675	NP_001124147	O14967	CLGN_HUMAN	calmegin precursor	591	Cytoplasmic (Potential).				protein folding	endoplasmic reticulum membrane|integral to membrane	calcium ion binding|unfolded protein binding			ovary(2)|skin(1)	3	all_hematologic(180;0.162)					CAGATCCTGTGCTCTCATCTG	0.318													7	69					0	0	1	0	0		A	141310438	A	A	141310438	2	1	27	1	0	0	0	0	0	0	0	1	3527	1310	46	2		2	CLGN	4	141310438	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	498587	141310438	49843838	2449	24800											
CLGN	1047	broad.mit.edu	37	chr4	141317342	141317342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacttgaatcttctatttggGcaggttcactttcatccctg	7	16	7	11	0	4	1	2	1	2	0	5	1	5	1	1	2	0	2	1	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:141317342G>A	uc011chi.1	-	10	1120	c.902C>T	c.(901-903)GCC>GTC	p.A301V	CLGN_uc003iii.2_Missense_Mutation_p.A301V	NM_001130675	NP_001124147	O14967	CLGN_HUMAN	calmegin precursor	301	Lumenal (Potential).				protein folding	endoplasmic reticulum membrane|integral to membrane	calcium ion binding|unfolded protein binding			ovary(2)|skin(1)	3	all_hematologic(180;0.162)					TTCTATTTGGGCAGGTTCACT	0.338													5	130					0	0	1	0	0		A	141317342	A	A	141317342	3	1	27	1	0	0	0	0	1	0	0	0	3527	1203	42	2	958	2	CLGN	4	141317342	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6904	141317342	49836934	2450	24801											
CLGN	1047	broad.mit.edu	37	chr4	141321662	141321662	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctccacatttatctggTccaaacataatgatatagga	13	14	5	9	0	3	1	0	1	3	0	5	2	4	2	2	2	1	0	2	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:141321662T>C	uc011chi.1	-	8	761	c.543A>G	c.(541-543)GGA>GGG	p.G181G	CLGN_uc003iii.2_Silent_p.G181G	NM_001130675	NP_001124147	O14967	CLGN_HUMAN	calmegin precursor	181	Lumenal (Potential).				protein folding	endoplasmic reticulum membrane|integral to membrane	calcium ion binding|unfolded protein binding			ovary(2)|skin(1)	3	all_hematologic(180;0.162)					ATTTATCTGGTCCAAACATAA	0.338													6	54					0	0	1	0	0		C	141321662	C	C	141321662	2	2	27	1	0	0	0	0	0	0	0	1	3527	1654	58	3		3	CLGN	4	141321662	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4320	141321662	49832614	2451	24802											
RNF150	57484	broad.mit.edu	37	chr4	142053845	142053845	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgttcacgaaggcggtgtAccattcctccttctcggcca	7	11	10	13	3	2	0	1	0	1	0	5	2	4	0	4	3	1	2	4	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:142053845A>G	uc003iio.1	-	1	772	c.118T>C	c.(118-120)TAC>CAC	p.Y40H	RNF150_uc010iok.1_Missense_Mutation_p.Y40H|RNF150_uc003iip.1_Missense_Mutation_p.Y40H	NM_020724	NP_065775	Q9ULK6	RN150_HUMAN	ring finger protein 150 precursor	40	Extracellular (Potential).					integral to membrane	zinc ion binding			ovary(1)	1	all_hematologic(180;0.162)					AAGGCGGTGTACCATTCCTCC	0.428													15	33					0	0	1	0	0		G	142053845	G	G	142053845	3	3	27	1	0	0	0	0	1	0	0	0	13476	391	14	3	1226	3	RNF150	4	142053845	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	732183	142053845	49100431	2452	24803											
INPP4B	8821	broad.mit.edu	37	chr4	143067143	143067143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttccccacattggcccacaCcctgtcctgaaaaaagcatg	11	8	6	16	0	0	1	0	1	0	0	2	1	2	1	5	1	1	1	5	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:143067143C>T	uc003iix.3	-	19	2165	c.1570G>A	c.(1570-1572)GTG>ATG	p.V524M	INPP4B_uc003iiw.3_Missense_Mutation_p.V524M|INPP4B_uc011chm.1_RNA|INPP4B_uc011chn.1_Missense_Mutation_p.V339M|INPP4B_uc011cho.1_RNA|INPP4B_uc011chp.1_Missense_Mutation_p.V395M	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	524					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					TTGGCCCACACCCTGTCCTGA	0.428													13	108					0	0	1	0	0		T	143067143	T	T	143067143	3	4	27	1	0	0	0	0	1	0	0	0	7769	507	18	4	1240	4	INPP4B	4	143067143	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1013298	143067143	48087133	2453	24804											
INPP4B	8821	broad.mit.edu	37	chr4	143181673	143181673	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaaggtaagttatctttTccgctcacactttccggggc	11	12	8	10	2	2	0	1	0	1	0	4	0	4	0	2	3	0	3	2	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:143181673T>G	uc003iix.3	-	12	1255	c.660A>C	c.(658-660)GGA>GGC	p.G220G	INPP4B_uc003iiw.3_Silent_p.G220G|INPP4B_uc011chm.1_RNA|INPP4B_uc011chn.1_Silent_p.G35G|INPP4B_uc011cho.1_RNA|INPP4B_uc011chp.1_Silent_p.G91G	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	220					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					AGTTATCTTTTCCGCTCACAC	0.284													3	40					0	0	1	0	0		G	143181673	G	G	143181673	2	3	27	1	0	0	0	0	0	0	0	1	7769	1770	62	5		5	INPP4B	4	143181673	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	114530	143181673	47972603	2454	24805											
USP38	84640	broad.mit.edu	37	chr4	144127279	144127279	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttggcgtcttgcttgtctAgactttctggaaaatctgaa	8	16	9	8	1	4	2	0	1	4	1	4	3	4	3	0	2	1	1	0	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:144127279A>G	uc003ijb.2	+	6	1837	c.1303A>G	c.(1303-1305)AGA>GGA	p.R435G	USP38_uc003ija.3_Missense_Mutation_p.R435G|USP38_uc003ijc.2_RNA	NM_032557	NP_115946	Q8NB14	UBP38_HUMAN	ubiquitin specific peptidase 38	435					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_hematologic(180;0.158)					TTGCTTGTCTAGACTTTCTGG	0.378													8	60					0	0	1	0	0		G	144127279	G	G	144127279	3	3	27	1	0	0	0	0	1	0	0	0	17095	412	15	3	1325	3	USP38	4	144127279	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	945606	144127279	47026997	2455	24806											
GAB1	2549	broad.mit.edu	37	chr4	144380563	144380563	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagcgcctttagaaataaaAcctttgccagaatgggaaga	15	8	9	9	1	0	3	0	0	0	3	0	4	0	4	4	1	3	0	4	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:144380563A>G	uc003ije.2	+	7	1970	c.1611A>G	c.(1609-1611)AAA>AAG	p.K537K	GAB1_uc003ijd.2_Silent_p.K567K|GAB1_uc011chq.1_Silent_p.K434K	NM_002039	NP_002030	Q13480	GAB1_HUMAN	GRB2-associated binding protein 1 isoform b	537	Pro-rich.				cell proliferation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			breast(2)|lung(1)|skin(1)	4	all_hematologic(180;0.158)					TAGAAATAAAACCTTTGCCAG	0.363													13	188					0	0	1	0	0		G	144380563	G	G	144380563	2	3	27	1	0	0	0	0	0	0	0	1	6162	40	2	3		3	GAB1	4	144380563	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	253284	144380563	46773713	2456	24807											
SMARCA5	8467	broad.mit.edu	37	chr4	144468578	144468578	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacgagctccaggacatagaGaagattatggctcagattga	15	8	11	7	1	1	4	1	1	0	3	2	7	2	5	1	2	2	2	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:144468578G>A	uc003ijg.2	+	21	3156	c.2694G>A	c.(2692-2694)GAG>GAA	p.E898E		NM_003601	NP_003592	O60264	SMCA5_HUMAN	SWI/SNF-related matrix-associated	898					CenH3-containing nucleosome assembly at centromere|nucleosome positioning|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	condensed chromosome|nucleolus|nucleoplasm|NURF complex|RSF complex	ATP binding|ATPase activity|DNA binding|helicase activity|nucleosome binding|protein binding			skin(1)	1	all_hematologic(180;0.158)					AGGACATAGAGAAGATTATGG	0.338													7	79					0	0	1	0	0		A	144468578	A	A	144468578	2	1	27	1	0	0	0	0	0	0	0	1	14796	933	33	4		4	SMARCA5	4	144468578	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	88015	144468578	46685698	2457	24808											
GYPA	2993	broad.mit.edu	37	chr4	145038087	145038087	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccccaaaaataatgagtgTtatctctacaggagataaag	17	9	7	8	0	1	2	0	1	1	1	2	3	1	2	2	1	1	1	2	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:145038087T>G	uc003ijo.3	-	5	393	c.277A>C	c.(277-279)ACA>CCA	p.T93P	GYPA_uc003ijn.2_Intron|GYPA_uc011cia.1_RNA|GYPA_uc011cib.1_Missense_Mutation_p.T60P|GYPA_uc003ijp.3_Missense_Mutation_p.T61P|GYPA_uc010ioq.2_Missense_Mutation_p.T80P|GYPA_uc010ior.2_Missense_Mutation_p.T28P|GYPA_uc010ios.1_RNA	NM_002099	NP_002090	P02724	GLPA_HUMAN	glycophorin A precursor	93	Helical.				interspecies interaction between organisms	membrane fraction	receptor activity			central_nervous_system(2)	2	all_hematologic(180;0.15)					ATAATGAGTGTTATCTCTACA	0.348													6	137					0	0	1	0	0		G	145038087	G	G	145038087	3	3	27	1	0	0	0	0	1	0	0	0	6924	1725	60	5	187	5	GYPA	4	145038087	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	569509	145038087	46116189	2458	24809											
OTUD4	54726	broad.mit.edu	37	chr4	146059221	146059221	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgttgaaactgaaccacaAtctttagacagatccagatt	15	11	6	9	0	1	5	0	2	1	3	2	5	2	5	2	0	2	1	2	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:146059221A>G	uc003ika.3	-	21	2649	c.2511T>C	c.(2509-2511)GAT>GAC	p.D837D	OTUD4_uc003ijz.3_Silent_p.D836D	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	901							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					CTGAACCACAATCTTTAGACA	0.443													3	45					0	0	1	0	0		G	146059221	G	G	146059221	2	3	27	1	0	0	0	0	0	0	0	1	11333	98	4	3		3	OTUD4	4	146059221	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1021134	146059221	45095055	2459	24810											
OTUD4	54726	broad.mit.edu	37	chr4	146065564	146065564	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggattgctactctgagaaGctgactgattgactgatgag	11	12	12	6	0	1	6	0	6	1	1	1	8	1	7	0	1	3	2	0	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:146065564G>T	uc003ika.3	-	15	1388	c.1250C>A	c.(1249-1251)GCT>GAT	p.A417D	OTUD4_uc003ijz.3_Missense_Mutation_p.A416D	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	481							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					ACTCTGAGAAGCTGACTGATT	0.368													39	130					1.36161e-19	1.52529e-19	1	1	0		T	146065564	T	T	146065564	3	4	27	1	0	0	0	0	1	0	0	0	11333	971	34	5	1927	5	OTUD4	4	146065564	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6343	146065564	45088712	2460	24811											
SMAD1	4086	broad.mit.edu	37	chr4	146468016	146468016	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaccgtttctgccttgggCtgctctccaatgttaaccgg	7	12	10	12	2	2	1	0	0	2	1	3	1	2	1	4	2	4	4	4	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:146468016C>T	uc003ikc.2	+	5	1353	c.937C>T	c.(937-939)CTG>TTG	p.L313L	SMAD1_uc003ikd.2_Silent_p.L313L|SMAD1_uc010iov.2_Silent_p.L313L|SMAD1_uc011cic.1_Silent_p.L274L	NM_005900	NP_005891	Q15797	SMAD1_HUMAN	Sma- and Mad-related protein 1	313	MH2.				BMP signaling pathway|embryonic pattern specification|primary miRNA processing|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|nuclear inner membrane	co-SMAD binding|I-SMAD binding|identical protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity			ovary(1)	1	all_hematologic(180;0.151)					CTGCCTTGGGCTGCTCTCCAA	0.448													8	101					0	0	1	0	0		T	146468016	T	T	146468016	2	4	27	1	0	0	0	0	0	0	0	1	14782	796	28	2		2	SMAD1	4	146468016	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	402452	146468016	44686260	2461	24812											
ZNF827	152485	broad.mit.edu	37	chr4	146770638	146770638	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggctgggtgatatcgagAcatgggagtcctggatgtca	8	10	15	8	2	1	2	1	1	0	1	4	5	3	4	2	4	0	1	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:146770638A>G	uc003ikn.2	-	6	2105	c.2057T>C	c.(2056-2058)GTC>GCC	p.V686A	ZNF827_uc003ikm.2_Missense_Mutation_p.V686A|ZNF827_uc010iox.2_Missense_Mutation_p.V336A	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	686					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					TGATATCGAGACATGGGAGTC	0.498													8	166					0	0	1	0	0		G	146770638	G	G	146770638	3	3	27	1	0	0	0	0	1	0	0	0	18205	275	10	3	1208	3	ZNF827	4	146770638	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	302622	146770638	44383638	2462	24813											
ZNF827	152485	broad.mit.edu	37	chr4	146806922	146806922	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccacatactcggaggggTctttcagctttgtgtggttg	5	14	14	8	1	2	0	1	0	1	0	3	1	2	1	1	5	2	2	1	5	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:146806922T>C	uc003ikn.2	-	4	1703	c.1655A>G	c.(1654-1656)GAC>GGC	p.D552G	ZNF827_uc003ikm.2_Missense_Mutation_p.D552G|ZNF827_uc010iox.2_Missense_Mutation_p.D202G	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	552					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					CTCGGAGGGGTCTTTCAGCTT	0.522													6	76					0	0	1	0	0		C	146806922	C	C	146806922	3	2	27	1	0	0	0	0	1	0	0	0	18205	1667	58	3	1618	3	ZNF827	4	146806922	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	36284	146806922	44347354	2463	24814											
ARHGAP10	79658	broad.mit.edu	37	chr4	148803060	148803060	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccattgacagaaggttttgTtttgacatagaagctgctga	11	14	10	6	0	0	5	0	3	0	2	1	5	1	5	1	1	2	4	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:148803060T>C	uc003ilf.2	+	10	1011	c.1011T>C	c.(1009-1011)TGT>TGC	p.C337C	ARHGAP10_uc003ilg.2_5'UTR	NM_024605	NP_078881	A1A4S6	RHG10_HUMAN	Rho GTPase activating protein 10	337	PH.				apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			skin(2)|pancreas(1)|lung(1)	4	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)		GAAGGTTTTGTTTTGACATAG	0.353													11	118					0	0	1	0	0		C	148803060	C	C	148803060	2	2	27	1	0	0	0	0	0	0	0	1	862	1731	60	3		3	ARHGAP10	4	148803060	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1996138	148803060	42351216	2464	24815											
MAB21L2	10586	broad.mit.edu	37	chr4	151504543	151504543	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgagttcatcacggcgtcggGctatctctcagcgcgtaaga	8	9	12	12	6	4	1	3	0	1	1	6	2	4	1	0	2	1	3	0	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:151504543G>C	uc003ilw.2	+	1	1467	c.362G>C	c.(361-363)GGC>GCC	p.G121A	LRBA_uc003ils.3_5'Flank|LRBA_uc003ilt.3_Intron|LRBA_uc003ilu.3_Intron|LRBA_uc010ipj.2_Intron	NM_006439	NP_006430	Q9Y586	MB212_HUMAN	mab-21-like protein 2	121					nervous system development	nucleus				ovary(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.159)		ACGGCGTCGGGCTATCTCTCA	0.627													10	84					0	0	1	0	0		C	151504543	C	C	151504543	3	2	27	1	0	0	0	0	1	0	0	0	9160	1203	42	5	364	5	MAB21L2	4	151504543	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2701483	151504543	39649733	2465	24816											
SH3D19	152503	broad.mit.edu	37	chr4	152065098	152065098	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agatgttcatcaagtggagtGataatcttcatttgagacag	13	13	10	5	0	4	3	3	2	1	2	4	5	4	4	0	1	0	1	0	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:152065098G>A	uc010ipl.1	-	13	2506	c.1416C>T	c.(1414-1416)ATC>ATT	p.I472I	SH3D19_uc003imb.2_Silent_p.I227I|SH3D19_uc003imc.2_Silent_p.I413I|SH3D19_uc003ime.2_Silent_p.I449I|SH3D19_uc010ipm.2_Silent_p.I449I	NM_001009555	NP_001009555	Q5HYK7	SH319_HUMAN	SH3 domain containing 19 isoform a	472					cellular membrane organization|positive regulation of membrane protein ectodomain proteolysis|post-Golgi vesicle-mediated transport	cytosol|Golgi apparatus|nucleus|plasma membrane	proline-rich region binding			ovary(1)|skin(1)	2	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)				CAAGTGGAGTGATAATCTTCA	0.403													7	75					0	0	1	0	0		A	152065098	A	A	152065098	2	1	27	1	0	0	0	0	0	0	0	1	14274	1280	45	4		4	SH3D19	4	152065098	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	560555	152065098	39089178	2466	24817											
TIGD4	201798	broad.mit.edu	37	chr4	153690946	153690946	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attctactcctgcccccagaGcatcagcaaccaaatccaga	13	7	5	16	0	2	2	1	0	1	2	4	2	4	2	5	0	5	2	5	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:153690946G>T	uc003imy.2	-	2	1993	c.1211C>A	c.(1210-1212)GCT>GAT	p.A404D		NM_145720	NP_663772	Q8IY51	TIGD4_HUMAN	tigger transposable element derived 4	404					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|DNA binding			ovary(1)	1	all_hematologic(180;0.093)					TGCCCCCAGAGCATCAGCAAC	0.418													12	91					3.07112e-06	3.32223e-06	1	1	0		T	153690946	T	T	153690946	3	4	27	1	0	0	0	0	1	0	0	0	15923	971	34	5	331	5	TIGD4	4	153690946	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1625848	153690946	37463330	2467	24818											
TRIM2	23321	broad.mit.edu	37	chr4	154191569	154191569	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaccaacatcccaagtcCtgtggtgcgccagattgaca	11	7	10	13	1	0	2	0	1	0	1	2	2	2	2	4	2	2	1	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:154191569C>A	uc003ing.2	+	2	233	c.32C>A	c.(31-33)CCT>CAT	p.P11H	TRIM2_uc003inh.2_Missense_Mutation_p.P38H|TRIM2_uc003ini.1_Missense_Mutation_p.P29H	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	11						cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		ATCCCAAGTCCTGTGGTGCGC	0.537													8	100					0.00448238	0.00462772	1	1	0		A	154191569	A	A	154191569	3	1	27	1	0	0	0	0	1	0	0	0	16520	681	24	5	119	5	TRIM2	4	154191569	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	500623	154191569	36962707	2468	24819											
TRIM2	23321	broad.mit.edu	37	chr4	154216755	154216755	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagacagtggccacgggCgaggggctgcggcagaccat	9	4	17	11	3	1	2	1	0	0	2	1	4	1	2	2	5	1	2	2	5	0	0	rs116558260	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:154216755C>T	uc003ing.2	+	6	1197	c.996C>T	c.(994-996)GGC>GGT	p.G332G	TRIM2_uc003inh.2_Silent_p.G359G	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	332	Filamin.					cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		TGGCCACGGGCGAGGGGCTGC	0.592													8	33					0	0	1	0	0		T	154216755	T	T	154216755	2	4	27	1	0	0	0	0	0	0	0	1	16520	755	27	1		1	TRIM2	4	154216755	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25186	154216755	36937521	2469	24820											
KIAA0922	23240	broad.mit.edu	37	chr4	154508908	154508908	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctaggaagggagtctgggTtttgaagtgatagcacattg	11	12	14	4	0	2	2	0	2	2	0	2	4	2	4	0	3	1	2	0	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:154508908T>G	uc003inm.3	+	15	1546	c.1494T>G	c.(1492-1494)GGT>GGG	p.G498G	KIAA0922_uc010ipp.2_Silent_p.G499G|KIAA0922_uc010ipq.2_Silent_p.G351G|KIAA0922_uc010ips.1_Missense_Mutation_p.V109G	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	498	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				GGAGTCTGGGTTTTGAAGTGA	0.348													11	141					0	0	1	0	0		G	154508908	G	G	154508908	2	3	27	1	0	0	0	0	0	0	0	1	8217	1712	60	5		5	KIAA0922	4	154508908	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	292153	154508908	36645368	2470	24821											
TLR2	7097	broad.mit.edu	37	chr4	154624623	154624623	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgcttcagatctacagagCtatgagccaaaaagtttgaa	15	10	9	7	0	2	4	1	2	1	2	2	5	2	4	1	0	4	3	1	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:154624623C>T	uc003inq.2	+	3	783	c.564C>T	c.(562-564)AGC>AGT	p.S188S	TLR2_uc003inr.2_Silent_p.S188S|TLR2_uc003ins.2_Silent_p.S188S	NM_003264	NP_003255	O60603	TLR2_HUMAN	toll-like receptor 2 precursor	188	LRR 6.|Extracellular (Potential).				cellular response to diacyl bacterial lipopeptide|cellular response to lipoteichoic acid|cellular response to triacyl bacterial lipopeptide|detection of diacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|I-kappaB phosphorylation|induction of apoptosis|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of interferon-beta production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of Wnt receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|integral to plasma membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	Gram-positive bacterial cell surface binding|lipopolysaccharide receptor activity|peptidoglycan binding|protein heterodimerization activity|transmembrane receptor activity|triacyl lipopeptide binding			ovary(1)|lung(1)|breast(1)	3	all_hematologic(180;0.093)	Renal(120;0.117)				ATCTACAGAGCTATGAGCCAA	0.368													7	86					0	0	1	0	0		T	154624623	T	T	154624623	2	4	27	1	0	0	0	0	0	0	0	1	15976	796	28	2		2	TLR2	4	154624623	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	115715	154624623	36529653	2471	24822											
TLR2	7097	broad.mit.edu	37	chr4	154625730	154625730	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggccaaagtcttgattgaTtggccagcaaattacctgtg	10	12	10	9	0	1	2	0	2	1	0	1	2	1	2	3	2	2	1	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:154625730T>C	uc003inq.2	+	3	1890	c.1671T>C	c.(1669-1671)GAT>GAC	p.D557D	TLR2_uc003inr.2_Silent_p.D557D|TLR2_uc003ins.2_Silent_p.D557D	NM_003264	NP_003255	O60603	TLR2_HUMAN	toll-like receptor 2 precursor	557	Extracellular (Potential).				cellular response to diacyl bacterial lipopeptide|cellular response to lipoteichoic acid|cellular response to triacyl bacterial lipopeptide|detection of diacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|I-kappaB phosphorylation|induction of apoptosis|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of interferon-beta production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of Wnt receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|integral to plasma membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	Gram-positive bacterial cell surface binding|lipopolysaccharide receptor activity|peptidoglycan binding|protein heterodimerization activity|transmembrane receptor activity|triacyl lipopeptide binding			ovary(1)|lung(1)|breast(1)	3	all_hematologic(180;0.093)	Renal(120;0.117)				TCTTGATTGATTGGCCAGCAA	0.522													12	95					0	0	1	0	0		C	154625730	C	C	154625730	2	2	27	1	0	0	0	0	0	0	0	1	15976	1490	52	3		3	TLR2	4	154625730	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1107	154625730	36528546	2472	24823											
DCHS2	54798	broad.mit.edu	37	chr4	155156833	155156833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgattgaaaagctgctggCgaacactgccaagggtgttc	10	9	13	9	1	0	2	0	2	0	0	1	3	0	2	1	2	4	4	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:155156833C>T	uc003inw.2	-	25	7606	c.7606G>A	c.(7606-7608)GCC>ACC	p.A2536T		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2536					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AAGCTGCTGGCGAACACTGCC	0.393													13	42					0	0	1	0	0		T	155156833	T	T	155156833	3	4	27	1	0	0	0	0	1	0	0	0	4291	768	27	1	1148	1	DCHS2	4	155156833	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	531103	155156833	35997443	2473	24824											
DCHS2	54798	broad.mit.edu	37	chr4	155219718	155219718	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actctaacttgcaggtgtatTacagagctcctaggtggatc	10	12	10	9	0	1	1	0	0	1	1	3	2	2	2	1	3	4	3	1	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:155219718T>C	uc003inw.2	-	18	4383	c.4383A>G	c.(4381-4383)GTA>GTG	p.V1461V		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1461	Cadherin 12.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GCAGGTGTATTACAGAGCTCC	0.473													4	150					0	0	1	0	0		C	155219718	C	C	155219718	2	2	27	1	0	0	0	0	0	0	0	1	4291	1741	61	3		3	DCHS2	4	155219718	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	62885	155219718	35934558	2474	24825											
FGA	2243	broad.mit.edu	37	chr4	155509977	155509977	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatcgcctctcaaaattTccattatattagtggtcaac	15	13	4	9	1	2	0	2	0	1	0	5	0	3	0	2	1	1	0	2	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:155509977T>C	uc003iod.1	-	3	390	c.332A>G	c.(331-333)GAA>GGA	p.E111G	FGA_uc003ioe.1_Missense_Mutation_p.E111G|FGA_uc003iof.1_Missense_Mutation_p.E111G	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	111	By similarity.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	TCTCAAAATTTCCATTATATT	0.269													20	187					0	0	1	0	0		C	155509977	C	C	155509977	3	2	27	1	0	0	0	0	1	0	0	0	5844	1783	62	3	2328	3	FGA	4	155509977	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	290259	155509977	35644299	2475	24826											
FGA	2243	broad.mit.edu	37	chr4	155510666	155510666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccacaacccttgggccacGcacgcctcctccttcagcta	7	9	6	19	2	1	0	1	0	0	0	4	0	4	0	6	1	2	2	6	1	2	4	rs121909606		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:155510666G>A	uc003iod.1	-	2	161	c.103C>T	c.(103-105)CGT>TGT	p.R35C	FGA_uc003ioe.1_Missense_Mutation_p.R35C|FGA_uc003iof.1_Missense_Mutation_p.R35C	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	35		Cleavage; by thrombin; to release fibrinopeptide A.	R -> C.|R -> H.		platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	CTTGGGCCACGCACGCCTCCT	0.493													12	121					0	0	1	0	0		A	155510666	A	A	155510666	3	1	27	1	0	0	0	0	1	0	0	0	5844	1087	38	1	2561	1	FGA	4	155510666	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	689	155510666	35643610	2476	24827											
GUCY1A3	2982	broad.mit.edu	37	chr4	156625120	156625120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgcacttcagagaacattgGcaaagcacaaaataaaagaa	20	7	7	7	0	1	2	1	0	0	2	1	3	1	2	0	1	3	3	0	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:156625120G>A	uc003iov.2	+	5	828	c.292G>A	c.(292-294)GCA>ACA	p.A98T	GUCY1A3_uc003iou.2_Missense_Mutation_p.A98T|GUCY1A3_uc010iqc.2_Missense_Mutation_p.A98T|GUCY1A3_uc003iow.2_Missense_Mutation_p.A98T|GUCY1A3_uc010iqd.2_Missense_Mutation_p.A98T|GUCY1A3_uc003iox.2_Missense_Mutation_p.A98T|GUCY1A3_uc003ioz.2_5'UTR|GUCY1A3_uc003ioy.2_Missense_Mutation_p.A98T|GUCY1A3_uc010iqe.2_5'UTR|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.A98T	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	98					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		GAGAACATTGGCAAAGCACAA	0.323													9	124					0	0	1	0	0		A	156625120	A	A	156625120	3	1	27	1	0	0	0	0	1	0	0	0	6910	1203	42	2	298	2	GUCY1A3	4	156625120	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1114454	156625120	34529156	2477	24828											
GUCY1A3	2982	broad.mit.edu	37	chr4	156629407	156629407	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaatctttggaaagagaaGactttgaaaaaacaattgca	19	9	9	4	0	1	3	0	1	1	2	1	6	1	5	0	2	2	1	0	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:156629407G>T	uc003iov.2	+	6	873	c.337G>T	c.(337-339)GAC>TAC	p.D113Y	GUCY1A3_uc003iou.2_Missense_Mutation_p.D113Y|GUCY1A3_uc010iqc.2_Missense_Mutation_p.D113Y|GUCY1A3_uc003iow.2_Missense_Mutation_p.D113Y|GUCY1A3_uc010iqd.2_Missense_Mutation_p.D113Y|GUCY1A3_uc003iox.2_Missense_Mutation_p.D113Y|GUCY1A3_uc003ioz.2_5'UTR|GUCY1A3_uc003ioy.2_Missense_Mutation_p.D113Y|GUCY1A3_uc010iqe.2_5'UTR|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.D113Y	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	113					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		GGAAAGAGAAGACTTTGAAAA	0.279													7	96					0.00307968	0.00318367	1	1	0		T	156629407	T	T	156629407	3	4	27	1	0	0	0	0	1	0	0	0	6910	942	33	5	347	5	GUCY1A3	4	156629407	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4287	156629407	34524869	2478	24829											
GUCY1A3	2982	broad.mit.edu	37	chr4	156632185	156632185	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaagacatttccattccatTtcatgtttgacaaagatatg	13	14	6	8	0	1	3	1	1	0	2	3	3	3	3	2	0	0	2	2	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:156632185T>A	uc003iov.2	+	7	1404	c.868T>A	c.(868-870)TTC>ATC	p.F290I	GUCY1A3_uc003iou.2_Missense_Mutation_p.F290I|GUCY1A3_uc010iqc.2_Missense_Mutation_p.F290I|GUCY1A3_uc003iow.2_Missense_Mutation_p.F290I|GUCY1A3_uc010iqd.2_Missense_Mutation_p.F289I|GUCY1A3_uc003iox.2_Missense_Mutation_p.F290I|GUCY1A3_uc003ioz.2_Missense_Mutation_p.F55I|GUCY1A3_uc003ioy.2_Missense_Mutation_p.F290I|GUCY1A3_uc010iqe.2_Missense_Mutation_p.F55I|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Missense_Mutation_p.F290I	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	290					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		TCCATTCCATTTCATGTTTGA	0.443													12	59					0	0	1	0	0		A	156632185	A	A	156632185	3	1	27	1	0	0	0	0	1	0	0	0	6910	1841	64	5	882	5	GUCY1A3	4	156632185	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2778	156632185	34522091	2479	24830											
GUCY1B3	2983	broad.mit.edu	37	chr4	156723547	156723547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgagctgcggcacaagcGtccagtgcctgccaaaagat	12	6	11	12	2	0	2	0	1	0	1	1	2	1	2	3	1	5	2	3	1	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:156723547G>A	uc003ipc.2	+	10	1396	c.1229G>A	c.(1228-1230)CGT>CAT	p.R410H	GUCY1B3_uc011cio.1_Missense_Mutation_p.R432H|GUCY1B3_uc011cip.1_Missense_Mutation_p.R390H|GUCY1B3_uc003ipd.2_Missense_Mutation_p.R338H|GUCY1B3_uc010iqf.2_Intron|GUCY1B3_uc010iqg.2_Missense_Mutation_p.R381H|GUCY1B3_uc011ciq.1_Missense_Mutation_p.R338H	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	410					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		CGGCACAAGCGTCCAGTGCCT	0.488													21	58					0	0	1	0	0		A	156723547	A	A	156723547	3	1	27	1	0	0	0	0	1	0	0	0	6911	1145	40	1	1267	1	GUCY1B3	4	156723547	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	91362	156723547	34430729	2480	24831											
CTSO	1519	broad.mit.edu	37	chr4	156858514	156858514	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taatacaataagatctttacCtgaagtcatatgcagaataa	18	12	5	6	0	2	3	1	1	1	2	2	3	2	3	1	0	3	1	1	0	9	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:156858514C>A	uc003ipg.2	-	5	723	c.674G>T	c.(673-675)AGT>ATT	p.S225I		NM_001334	NP_001325	P43234	CATO_HUMAN	cathepsin O preproprotein	225					proteolysis	lysosome	cysteine-type endopeptidase activity				0	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.05)|Kidney(143;0.0627)|COAD - Colon adenocarcinoma(41;0.148)		AGATCTTTACCTGAAGTCATA	0.294													4	45					1	1	1	1	0		A	156858514	A	A	156858514	3	1	27	1	0	0	0	0	1	0	0	0	4043	695	24	5	307	5	CTSO	4	156858514	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	134967	156858514	34295762	2481	24832											
GRIA2	2891	broad.mit.edu	37	chr4	158284014	158284014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacatccttgtcgggggcCttggtttggcaatgctggtg	4	14	14	9	1	1	0	0	0	1	0	3	0	2	0	2	5	2	3	2	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:158284014C>T	uc003ipm.3	+	15	2929	c.2470C>T	c.(2470-2472)CTT>TTT	p.L824F	GRIA2_uc011cit.1_Missense_Mutation_p.L777F|GRIA2_uc003ipl.3_Missense_Mutation_p.L824F|GRIA2_uc003ipk.3_Missense_Mutation_p.L777F|GRIA2_uc011civ.1_RNA|GRIA2_uc011ciw.1_RNA|GRIA2_uc011cix.1_3'UTR|GRIA2_uc011ciy.1_3'UTR|GRIA2_uc011ciz.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	824	Helical; (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	TGTCGGGGGCCTTGGTTTGGC	0.468													4	87					0	0	1	0	0		T	158284014	T	T	158284014	3	4	27	1	0	0	0	0	1	0	0	0	6784	681	24	4	2647	4	GRIA2	4	158284014	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1425500	158284014	32870262	2482	24833											
FAM198B	51313	broad.mit.edu	37	chr4	159052070	159052070	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctagagccgcagaacctTggtcatcacattttggcctc	8	11	10	12	1	2	2	2	0	0	2	3	2	2	2	3	2	3	2	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:159052070T>C	uc003ipp.3	-	4	1672	c.1220A>G	c.(1219-1221)CAA>CGA	p.Q407R	FAM198B_uc003ipq.3_Missense_Mutation_p.Q415R|FAM198B_uc003ipr.3_Missense_Mutation_p.Q407R	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	407	Extracellular (Potential).					Golgi membrane|integral to membrane					0						CGCAGAACCTTGGTCATCACA	0.423													4	50					0	0	1	0	0		C	159052070	C	C	159052070	3	2	27	1	0	0	0	0	1	0	0	0	5540	1812	63	3	347	3	FAM198B	4	159052070	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	768056	159052070	32102206	2483	24834											
PPID	5481	broad.mit.edu	37	chr4	159640370	159640370	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttcaaatttttcaccatAaatactttctccacctgtcc	11	16	1	13	0	4	0	2	0	2	0	6	0	5	0	4	0	1	0	4	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:159640370A>G	uc003iqc.2	-	3	407	c.295T>C	c.(295-297)TAT>CAT	p.Y99H		NM_005038	NP_005029	Q08752	PPID_HUMAN	peptidylprolyl isomerase D	99	PPIase cyclophilin-type.				protein folding	cytoplasm|intermediate filament cytoskeleton	cyclosporin A binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0159)		TTTTCACCATAAATACTTTCT	0.308													9	47					0	0	1	0	0		G	159640370	G	G	159640370	3	3	27	1	0	0	0	0	1	0	0	0	12343	362	13	3	849	3	PPID	4	159640370	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	588300	159640370	31513906	2484	24835											
RAPGEF2	9693	broad.mit.edu	37	chr4	160252876	160252876	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaccatcccgagaagctcCtttgccttttatcttacttg	10	14	5	12	1	1	1	0	0	1	1	3	2	3	1	4	0	4	1	4	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:160252876C>A	uc003iqg.3	+	9	1497	c.1187C>A	c.(1186-1188)CCT>CAT	p.P396H		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	396	PDZ.				cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		CGAGAAGCTCCTTTGCCTTTT	0.428													32	90					6.50621e-10	7.19464e-10	1	1	0		A	160252876	A	A	160252876	3	1	27	1	0	0	0	0	1	0	0	0	13069	681	24	5	1221	5	RAPGEF2	4	160252876	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	612506	160252876	30901400	2485	24836											
RAPGEF2	9693	broad.mit.edu	37	chr4	160264153	160264153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctaaacctggcaccagtgGcaagactgcgaacgacctgg	11	5	12	13	2	0	1	0	0	0	1	0	3	0	1	4	3	3	2	4	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:160264153G>A	uc003iqg.3	+	15	2768	c.2458G>A	c.(2458-2460)GCA>ACA	p.A820T		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	820	Ras-GEF.				cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GGCACCAGTGGCAAGACTGCG	0.378													11	25					0	0	1	0	0		A	160264153	A	A	160264153	3	1	27	1	0	0	0	0	1	0	0	0	13069	1203	42	2	2516	2	RAPGEF2	4	160264153	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11277	160264153	30890123	2486	24837											
TKTL2	84076	broad.mit.edu	37	chr4	164393149	164393149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatcaggctccctggagaCagctgcacaaacagcttctc	11	8	9	13	0	2	1	1	0	1	1	4	3	3	1	1	2	4	4	1	2	2	2	rs140731828		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:164393149C>T	uc003iqp.3	-	1	1899	c.1738G>A	c.(1738-1740)GTC>ATC	p.V580I		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	580						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TCCCTGGAGACAGCTGCACAA	0.512													23	59					0	0	1	0	0		T	164393149	T	T	164393149	3	4	27	1	0	0	0	0	1	0	0	0	15961	478	17	4	146	4	TKTL2	4	164393149	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4128996	164393149	26761127	2487	24838											
KLHL2	11275	broad.mit.edu	37	chr4	166159928	166159928	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcttattcctttgtgttttAggtgagatgagtgagagccg	7	16	12	6	1	1	3	0	3	1	2	2	5	2	3	2	1	1	1	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:166159928A>G	uc003irb.2	+	4	519	c.260_splice	c.e4-2	p.G87_splice	KLHL2_uc011cjm.1_Splice_Site_p.G91_splice|KLHL2_uc003irc.2_Splice_Site	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1						intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		TTTGTGTTTTAGGTGAGATGA	0.408													4	40					0	0	1	0	0		G	166159928	G	G	166159928	5	3	27	1	0	0	0	0	0	0	1	0	8390	434	15	3	314	3	KLHL2	4	166159928	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1766779	166159928	24994348	2488	24839											
KLHL2	11275	broad.mit.edu	37	chr4	166160009	166160009	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggatgctaattgattaTgtttacactgcagaaattca	13	14	8	6	0	1	3	1	2	0	1	1	4	1	4	0	1	3	3	0	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:166160009T>C	uc003irb.2	+	4	598	c.339T>C	c.(337-339)TAT>TAC	p.Y113Y	KLHL2_uc011cjm.1_Silent_p.Y117Y|KLHL2_uc003irc.2_Silent_p.Y25Y	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	113	BTB.				intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		TAATTGATTATGTTTACACTG	0.358													10	102					0	0	1	0	0		C	166160009	C	C	166160009	2	2	27	1	0	0	0	0	0	0	0	1	8390	1471	51	3		3	KLHL2	4	166160009	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	81	166160009	24994267	2489	24840											
KLHL2	11275	broad.mit.edu	37	chr4	166232671	166232671	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgagtggtttcatgtagcTcccatgaatacaaggaggag	13	10	12	6	0	1	2	1	2	0	0	2	4	2	4	1	3	2	3	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:166232671T>A	uc003irb.2	+	11	1552	c.1293T>A	c.(1291-1293)GCT>GCA	p.A431A	KLHL2_uc011cjm.1_Silent_p.A435A|KLHL2_uc003irc.2_Silent_p.A343A|KLHL2_uc010ira.2_Silent_p.A84A	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	431	Kelch 3.				intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		TTCATGTAGCTCCCATGAATA	0.403													17	113					0	0	1	0	0		A	166232671	A	A	166232671	2	1	27	1	0	0	0	0	0	0	0	1	8390	1538	54	5		5	KLHL2	4	166232671	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	72662	166232671	24921605	2490	24841											
TLL1	7092	broad.mit.edu	37	chr4	166913959	166913959	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccttttattctttaaggtgGacttggagaccatgctatgt	8	17	9	7	0	1	1	0	0	1	1	2	3	2	2	2	3	1	1	2	3	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:166913959G>T	uc003irh.1	+	3	931	c.284G>T	c.(283-285)GGA>GTA	p.G95V	TLL1_uc011cjn.1_Missense_Mutation_p.G95V|TLL1_uc011cjo.1_5'UTR	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	95					cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		CTTTAAGGTGGACTTGGAGAC	0.348													5	78					0.000602214	0.000630257	1	1	0		T	166913959	T	T	166913959	3	4	27	1	0	0	0	0	1	0	0	0	15970	1174	41	5	294	5	TLL1	4	166913959	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	681288	166913959	24240317	2491	24842											
TLL1	7092	broad.mit.edu	37	chr4	166924671	166924671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttttggcatgaacacacaaGaccagatcgagataaccacg	15	7	8	11	2	0	4	0	1	0	3	1	5	0	4	2	1	2	1	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:166924671G>A	uc003irh.1	+	6	1408	c.761G>A	c.(760-762)AGA>AAA	p.R254K	TLL1_uc011cjn.1_Missense_Mutation_p.R254K|TLL1_uc011cjo.1_Missense_Mutation_p.R78K	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	254	Metalloprotease (By similarity).				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		GAACACACAAGACCAGATCGA	0.423													9	55					0	0	1	0	0		A	166924671	A	A	166924671	3	1	27	1	0	0	0	0	1	0	0	0	15970	942	33	4	783	4	TLL1	4	166924671	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10712	166924671	24229605	2492	24843											
SPOCK3	50859	broad.mit.edu	37	chr4	167656082	167656082	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcatcaatcaaatgtatAcatcatggtcatcaccacca	14	11	4	12	0	6	0	6	0	0	0	6	0	6	0	2	1	1	1	2	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:167656082A>G	uc003iri.1	-	12	1442	c.1301T>C	c.(1300-1302)GTA>GCA	p.V434A	SPOCK3_uc011cjp.1_Missense_Mutation_p.V391A|SPOCK3_uc011cjq.1_Missense_Mutation_p.V443A|SPOCK3_uc011cjr.1_Missense_Mutation_p.V314A|SPOCK3_uc003irj.1_Missense_Mutation_p.V431A|SPOCK3_uc011cjs.1_Missense_Mutation_p.V383A|SPOCK3_uc011cjt.1_Missense_Mutation_p.V342A|SPOCK3_uc011cju.1_Missense_Mutation_p.V327A|SPOCK3_uc011cjv.1_Missense_Mutation_p.V336A	NM_016950	NP_058646	Q9BQ16	TICN3_HUMAN	testican 3 isoform 2	434	Asp-rich.				signal transduction	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase inhibitor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)		tcaaatgtatacatcatggtc	0.08													7	40					0	0	1	0	0		G	167656082	G	G	167656082	3	3	27	1	0	0	0	0	1	0	0	0	15106	391	14	3	13	3	SPOCK3	4	167656082	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	731411	167656082	23498194	2493	24844											
SPOCK3	50859	broad.mit.edu	37	chr4	167675702	167675702	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccactcattattagatatTaaactgtccttgtatgtgtc	11	16	5	9	0	1	1	1	0	0	1	3	1	2	1	2	0	1	1	2	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:167675702T>A	uc003iri.1	-	9	1038	c.897A>T	c.(895-897)TTA>TTT	p.L299F	SPOCK3_uc011cjp.1_Missense_Mutation_p.L256F|SPOCK3_uc011cjq.1_Missense_Mutation_p.L308F|SPOCK3_uc011cjr.1_Missense_Mutation_p.L179F|SPOCK3_uc003irj.1_Missense_Mutation_p.L296F|SPOCK3_uc011cjs.1_Missense_Mutation_p.L248F|SPOCK3_uc011cjt.1_Missense_Mutation_p.L207F|SPOCK3_uc011cju.1_Missense_Mutation_p.L192F|SPOCK3_uc011cjv.1_Missense_Mutation_p.L201F|SPOCK3_uc003irk.3_Missense_Mutation_p.L296F	NM_016950	NP_058646	Q9BQ16	TICN3_HUMAN	testican 3 isoform 2	299					signal transduction	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase inhibitor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)		TATTAGATATTAAACTGTCCT	0.393													10	74					0	0	1	0	0		A	167675702	A	A	167675702	3	1	27	1	0	0	0	0	1	0	0	0	15106	1751	61	5	429	5	SPOCK3	4	167675702	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	19620	167675702	23478574	2494	24845											
ANXA10	11199	broad.mit.edu	37	chr4	169099117	169099117	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcctgtgcaacaagagctAccagcagctgcggctgggta	10	7	13	11	1	0	1	0	0	0	1	1	2	1	1	2	2	7	6	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:169099117A>G	uc003irm.2	+	8	756	c.611A>G	c.(610-612)TAC>TGC	p.Y204C	ANXA10_uc003irn.2_Missense_Mutation_p.Y76C	NM_007193	NP_009124	Q9UJ72	ANX10_HUMAN	annexin A10	204	Annexin 3.						calcium ion binding|calcium-dependent phospholipid binding				0		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0325)		AACAAGAGCTACCAGCAGCTG	0.448													8	56					0	0	1	0	0		G	169099117	G	G	169099117	3	3	27	1	0	0	0	0	1	0	0	0	715	391	14	3	641	3	ANXA10	4	169099117	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1423415	169099117	22055159	2495	24846											
DDX60	55601	broad.mit.edu	37	chr4	169176911	169176911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacttttcgaagtttgttagCcatgacatgggcttctttat	9	17	8	7	1	1	1	0	1	1	0	2	2	1	1	1	1	2	3	1	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:169176911C>T	uc003irp.2	-	26	3800	c.3508G>A	c.(3508-3510)GCT>ACT	p.A1170T		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	1170							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		AGTTTGTTAGCCATGACATGG	0.373													7	60					0	0	1	0	0		T	169176911	T	T	169176911	3	4	27	1	0	0	0	0	1	0	0	0	4381	739	26	2	1682	2	DDX60	4	169176911	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	77794	169176911	21977365	2496	24847											
DDX60	55601	broad.mit.edu	37	chr4	169176992	169176992	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaagtgctcacactttcagCtgcgttttctacagctccta	9	13	7	12	1	3	0	2	0	1	0	4	1	4	0	1	0	5	4	1	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:169176992C>T	uc003irp.2	-	26	3719	c.3427G>A	c.(3427-3429)GCT>ACT	p.A1143T		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	1143							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		ACACTTTCAGCTGCGTTTTCT	0.373													15	42					0	0	1	0	0		T	169176992	T	T	169176992	3	4	27	1	0	0	0	0	1	0	0	0	4381	797	28	2	1763	2	DDX60	4	169176992	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	81	169176992	21977284	2497	24848											
DDX60L	91351	broad.mit.edu	37	chr4	169294923	169294923	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagctcatcaagtgagacAcgagttgggagtcttcacat	11	10	11	9	1	4	1	3	1	1	1	4	4	4	2	0	1	2	3	0	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:169294923A>G	uc003irq.3	-	35	4891	c.4670T>C	c.(4669-4671)GTG>GCG	p.V1557A		NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	1557							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		CAAGTGAGACACGAGTTGGGA	0.408													13	129					0	0	1	0	0		G	169294923	G	G	169294923	3	3	27	1	0	0	0	0	1	0	0	0	4382	159	6	3	466	3	DDX60L	4	169294923	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	117931	169294923	21859353	2498	24849											
DDX60L	91351	broad.mit.edu	37	chr4	169322010	169322010	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcctcactttttcaagtActtcatctattgcaaagaca	11	16	3	11	0	5	1	3	0	2	1	6	1	6	1	1	0	2	2	1	0	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:169322010A>G	uc003irq.3	-	26	3679	c.3458T>C	c.(3457-3459)GTA>GCA	p.V1153A	DDX60L_uc003irr.1_Missense_Mutation_p.V1153A|DDX60L_uc003irs.1_Missense_Mutation_p.V848A	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	1153							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		TTTTTCAAGTACTTCATCTAT	0.373													3	53					0	0	1	0	0		G	169322010	G	G	169322010	3	3	27	1	0	0	0	0	1	0	0	0	4382	391	14	3	1714	3	DDX60L	4	169322010	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	27087	169322010	21832266	2499	24850											
PALLD	23022	broad.mit.edu	37	chr4	169433123	169433123	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaacgtaaagcccaaaacGccacatcaaagaaagggtgg	19	3	9	10	2	1	1	1	0	0	1	1	1	1	1	2	2	3	1	2	2	7	1	rs146108255		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:169433123G>A	uc011cjx.1	+	2	679	c.468G>A	c.(466-468)ACG>ACA	p.T156T	PALLD_uc003iru.2_Silent_p.T156T	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2	156					cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)		AGCCCAAAACGCCACATCAAA	0.517									Pancreatic_Cancer_Familial_Clustering_of				16	54					0	0	1	0	0		A	169433123	A	A	169433123	2	1	27	1	0	0	0	0	0	0	0	1	11426	1074	38	1		1	PALLD	4	169433123	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	111113	169433123	21721153	2500	24851											
CLCN3	1182	broad.mit.edu	37	chr4	170613350	170613350	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccatcacattagtcctggCtgtggcatcaggtttgagtt	9	13	10	9	0	2	1	2	1	0	0	3	1	3	1	2	3	1	4	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:170613350C>A	uc003isi.2	+	7	1324	c.815C>A	c.(814-816)GCT>GAT	p.A272D	CLCN3_uc003ish.2_Missense_Mutation_p.A272D|CLCN3_uc011cjz.1_Missense_Mutation_p.A255D|CLCN3_uc011cka.1_Missense_Mutation_p.A272D|CLCN3_uc003isj.1_Missense_Mutation_p.A245D	NM_001829	NP_001820	P51790	CLCN3_HUMAN	chloride channel 3 isoform b	272	Helical; (By similarity).				endosomal lumen acidification	cell surface|early endosome membrane|Golgi membrane|integral to membrane|late endosome membrane|transport vesicle membrane	antiporter activity|ATP binding|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|voltage-gated chloride channel activity			breast(2)|ovary(1)	3		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0233)|LUSC - Lung squamous cell carcinoma(193;0.131)		TTAGTCCTGGCTGTGGCATCA	0.388													19	156					2.32416e-17	2.60201e-17	1	1	0		A	170613350	A	A	170613350	3	1	27	1	0	0	0	0	1	0	0	0	3467	797	28	5	837	5	CLCN3	4	170613350	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1180227	170613350	20540926	2501	24852											
C4orf27	54969	broad.mit.edu	37	chr4	170663209	170663209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctatgtttttcaagagatTgattttctttttatccgtta	9	22	5	5	1	3	2	1	1	2	1	4	3	4	2	1	0	0	2	1	0	4	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:170663209T>C	uc003isl.3	-	5	612	c.547A>G	c.(547-549)AAT>GAT	p.N183D		NM_017867	NP_060337	Q9NWY4	CD027_HUMAN	hypothetical protein LOC54969	183						nucleus				ovary(1)|pancreas(1)	2		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.018)|LUSC - Lung squamous cell carcinoma(193;0.116)		TTCAAGAGATTGATTTTCTTT	0.358													7	54					0	0	1	0	0		C	170663209	C	C	170663209	3	2	27	1	0	0	0	0	1	0	0	0	2261	1812	63	3	509	3	C4orf27	4	170663209	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	49859	170663209	20491067	2502	24853											
AADAT	51166	broad.mit.edu	37	chr4	171010811	171010811	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagggtttctggctgcgcTcgctgccgtgatgaaccgtg	6	10	15	10	4	1	3	0	2	1	1	2	3	1	3	2	2	3	4	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:171010811T>C	uc003isr.2	-	1	373	c.31A>G	c.(31-33)AGC>GGC	p.S11G	AADAT_uc003iss.2_Missense_Mutation_p.S11G|AADAT_uc003ist.2_Missense_Mutation_p.S11G	NM_016228	NP_057312	Q8N5Z0	AADAT_HUMAN	kynurenine aminotransferase II	11					2-oxoglutarate metabolic process|biosynthetic process|glutamate metabolic process|lysine catabolic process	mitochondrial matrix	2-aminoadipate transaminase activity|kynurenine-oxoglutarate transaminase activity|protein homodimerization activity				0		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0355)|LUSC - Lung squamous cell carcinoma(193;0.118)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CTGGCTGCGCTCGCTGCCGTG	0.542											OREG0016403	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	160					0	0	1	0	0		C	171010811	C	C	171010811	3	2	27	1	0	0	0	0	1	0	0	0	14	1551	54	3	1298	3	AADAT	4	171010811	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	347602	171010811	20143465	2503	24854											
WDR17	116966	broad.mit.edu	37	chr4	177071675	177071675	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgataaaaggacaggaTgatagcttacttcctcagaa	14	10	10	7	0	1	3	1	2	0	1	2	5	2	5	1	2	2	2	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:177071675T>C	uc003iuj.2	+	17	2463	c.2307T>C	c.(2305-2307)GAT>GAC	p.D769D	WDR17_uc003iuk.2_Silent_p.D745D|WDR17_uc003ium.3_Silent_p.D745D|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_5'UTR	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	769										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		AAGGACAGGATGATAGCTTAC	0.333													8	76					0	0	1	0	0		C	177071675	C	C	177071675	2	2	27	1	0	0	0	0	0	0	0	1	17303	1461	51	3		3	WDR17	4	177071675	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6060864	177071675	14082601	2504	24855											
ODZ3	55714	broad.mit.edu	37	chr4	183575044	183575044	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcattaccttctggagacaAtggtaagcgaaagaattatg	14	11	10	6	1	2	2	1	0	1	2	2	4	2	2	1	2	2	1	1	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:183575044A>G	uc003ivd.1	+	5	1146	c.1109A>G	c.(1108-1110)AAT>AGT	p.N370S		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	370	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TCTGGAGACAATGGTAAGCGA	0.368													8	82					0	0	1	0	0		G	183575044	G	G	183575044	3	3	27	1	0	0	0	0	1	0	0	0	10855	101	4	3	1127	3	ODZ3	4	183575044	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6503369	183575044	7579232	2505	24856											
ODZ3	55714	broad.mit.edu	37	chr4	183652077	183652077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctctctaactttggtatttGaacgatccccattcctcact	8	15	4	14	1	2	1	1	1	1	0	5	2	4	1	4	1	2	1	4	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:183652077G>A	uc003ivd.1	+	15	2789	c.2752G>A	c.(2752-2754)GAA>AAA	p.E918K	ODZ3_uc003ive.1_Missense_Mutation_p.E324K	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	918	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TTTGGTATTTGAACGATCCCC	0.408													3	39					0	0	1	0	0		A	183652077	A	A	183652077	3	1	27	1	0	0	0	0	1	0	0	0	10855	1291	45	4	2810	4	ODZ3	4	183652077	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	77033	183652077	7502199	2506	24857											
IRF2	3660	broad.mit.edu	37	chr4	185309962	185309962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccgatgttttcttgatgaCgctggcccgggtctcccggt	4	13	12	12	4	2	2	0	2	2	0	4	3	3	2	3	3	0	2	3	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:185309962C>T	uc003iwf.3	-	9	1200	c.1000G>A	c.(1000-1002)GTC>ATC	p.V334I		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	334					blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		TTCTTGATGACGCTGGCCCGG	0.572													16	68					0	0	1	0	0		T	185309962	T	T	185309962	3	4	27	1	0	0	0	0	1	0	0	0	7844	536	19	1	53	1	IRF2	4	185309962	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1657885	185309962	5844314	2507	24858											
IRF2	3660	broad.mit.edu	37	chr4	185329430	185329430	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgactcaactggttcttgCtaggaagaagaaaagaaaaa	18	8	10	5	0	2	4	1	1	1	3	2	6	2	5	0	2	2	2	0	2	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:185329430C>T	uc003iwf.3	-	6	612	c.412_splice	c.e6-1	p.Q138_splice		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2						blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		CTGGTTCTTGCTAGGAAGAAG	0.408													6	67					0	0	1	0	0		T	185329430	T	T	185329430	5	4	27	1	0	0	0	0	0	0	1	0	7844	811	28	2	654	2	IRF2	4	185329430	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	19468	185329430	5824846	2508	24859											
IRF2	3660	broad.mit.edu	37	chr4	185340707	185340707	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgcatgcatccaggggatctGaaaaatcttcttttcctgaa	11	12	8	10	1	3	2	0	2	3	0	5	3	5	3	2	2	1	2	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:185340707G>A	uc003iwf.3	-	3	303	c.103C>T	c.(103-105)CAG>TAG	p.Q35*		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	35	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		CAGGGGATCTGAAAAATCTTC	0.423													18	84					0	0	1	0	0		A	185340707	A	A	185340707	4	1	27	1	0	0	0	0	0	1	0	0	7844	1299	45	4	974	4	IRF2	4	185340707	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11277	185340707	5813569	2509	24860											
CCDC111	201973	broad.mit.edu	37	chr4	185593326	185593326	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gataatagcttttttccttaGgtaattttttgagaaaaatt	13	19	6	3	0	0	1	0	1	0	1	1	3	1	1	1	1	1	2	1	1	6	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:185593326G>T	uc003iwk.2	+	7	990	c.557_splice	c.e7-1	p.G186_splice	CCDC111_uc010isd.1_Splice_Site|CCDC111_uc003iwj.2_Splice_Site_p.G186_splice|CCDC111_uc003iwl.2_Splice_Site_p.G186_splice|CCDC111_uc003iwm.2_Splice_Site_p.G57_splice|CCDC111_uc003iwn.2_Splice_Site_p.G11_splice	NM_152683	NP_689896	Q96LW4	CC111_HUMAN	coiled-coil domain containing 111						DNA replication, synthesis of RNA primer		DNA primase activity			central_nervous_system(1)	1		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.00531)|Hepatocellular(41;0.00932)|Renal(120;0.0246)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|all_neural(102;0.131)		all cancers(43;5.84e-27)|Epithelial(43;2.2e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.28e-11)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.03e-05)|Colorectal(24;7.57e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000249)|COAD - Colon adenocarcinoma(29;0.000502)|LUSC - Lung squamous cell carcinoma(40;0.00995)|READ - Rectum adenocarcinoma(43;0.173)		TTTTTCCTTAGGTAATTTTTT	0.413													10	110					0.000673444	0.000703801	1	1	0		T	185593326	T	T	185593326	5	4	27	1	0	0	0	0	0	0	1	0	2751	1014	35	5	574	5	CCDC111	4	185593326	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	252619	185593326	5560950	2510	24861											
HELT	391723	broad.mit.edu	37	chr4	185941859	185941859	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggaccggcattacctcaAcctgatcggccacgcgcacc	8	6	9	18	4	1	1	1	1	0	0	2	2	1	2	6	3	2	2	6	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:185941859A>G	uc011ckq.1	+	4	917	c.917A>G	c.(916-918)AAC>AGC	p.N306S	HELT_uc011cko.1_Missense_Mutation_p.N221S|HELT_uc003ixa.3_Missense_Mutation_p.N220S|HELT_uc011ckp.1_Missense_Mutation_p.N164S	NM_001029887	NP_001025058	A6NFD8	HELT_HUMAN	HES/HEY-like transcription factor	306							DNA binding				0		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;8.92e-26)|Epithelial(43;3.02e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-11)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		CATTACCTCAACCTGATCGGC	0.687													3	48					0	0	1	0	0		G	185941859	G	G	185941859	3	3	27	1	0	0	0	0	1	0	0	0	7064	43	2	3	931	3	HELT	4	185941859	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	348533	185941859	5212417	2511	24862											
SLC25A4	291	broad.mit.edu	37	chr4	186065961	186065961	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtgctgagaagcagtacaAagggatcattgattgtgtgg	12	10	14	5	0	1	2	1	2	0	1	1	4	1	3	0	2	3	3	0	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:186065961A>G	uc003ixd.2	+	2	284	c.155A>G	c.(154-156)AAA>AGA	p.K52R	SLC25A4_uc003ixe.2_RNA	NM_001151	NP_001142	P12235	ADT1_HUMAN	adenine nucleotide translocator 1	52	Solcar 1.				energy reserve metabolic process|interspecies interaction between organisms|mitochondrial genome maintenance|negative regulation of necrotic cell death|regulation of insulin secretion|viral reproduction	integral to plasma membrane|mitochondrial inner membrane	adenine transmembrane transporter activity|protein binding			ovary(1)	1		all_lung(41;1.19e-13)|Lung NSC(41;3.16e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00872)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;4.48e-44)|Epithelial(43;2.1e-41)|all cancers(43;1.37e-36)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)	Adenosine triphosphate(DB00171)|Clodronate(DB00720)	AAGCAGTACAAAGGGATCATT	0.557													8	74					0	0	1	0	0		G	186065961	G	G	186065961	3	3	27	1	0	0	0	0	1	0	0	0	14529	14	1	3	161	3	SLC25A4	4	186065961	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	124102	186065961	5088315	2512	24863											
SNX25	83891	broad.mit.edu	37	chr4	186253808	186253808	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtaccaatcagatcaatgaAcaagccagttttgctgtaaa	15	10	8	8	0	2	2	2	1	0	1	2	2	2	2	2	1	4	4	2	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:186253808A>C	uc003ixh.2	+	10	1506	c.1317A>C	c.(1315-1317)GAA>GAC	p.E439D	SNX25_uc010ish.2_Missense_Mutation_p.E210D|SNX25_uc003ixi.2_5'UTR	NM_031953	NP_114159	Q9H3E2	SNX25_HUMAN	sorting nexin 25	439	Potential.				cell communication|protein transport	endosome membrane	phosphatidylinositol binding|signal transducer activity			ovary(2)|breast(2)|pancreas(1)	5		all_lung(41;1.03e-13)|Lung NSC(41;2.5e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00886)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;2.13e-24)|Epithelial(43;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.6e-11)|BRCA - Breast invasive adenocarcinoma(30;0.00013)|Colorectal(24;0.000165)|GBM - Glioblastoma multiforme(59;0.000357)|COAD - Colon adenocarcinoma(29;0.000887)|STAD - Stomach adenocarcinoma(60;0.00118)|LUSC - Lung squamous cell carcinoma(40;0.0129)|READ - Rectum adenocarcinoma(43;0.228)		AGATCAATGAACAAGCCAGTT	0.413													7	57					0	0	1	0	0		C	186253808	C	C	186253808	3	2	27	1	0	0	0	0	1	0	0	0	14921	40	2	5	1351	5	SNX25	4	186253808	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	187847	186253808	4900468	2513	24864											
LRP2BP	55805	broad.mit.edu	37	chr4	186294059	186294059	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatttcatcttatagtaatActccacgagattcccttgag	13	14	5	9	1	2	2	1	1	1	1	4	3	4	2	2	0	1	1	2	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:186294059A>G	uc003ixj.1	-	6	1566	c.754T>C	c.(754-756)TAT>CAT	p.Y252H	LRP2BP_uc003ixk.1_Missense_Mutation_p.Y226H|LRP2BP_uc011ckr.1_Missense_Mutation_p.Y252H	NM_018409	NP_060879	Q9P2M1	LR2BP_HUMAN	LRP2 binding protein	252	Sel1-like 5.					cytoplasm	protein binding				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;2.14e-25)|Epithelial(43;1.55e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-11)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000766)|Colorectal(24;0.00116)|LUSC - Lung squamous cell carcinoma(40;0.00904)|COAD - Colon adenocarcinoma(29;0.0101)|READ - Rectum adenocarcinoma(43;0.161)		TTATAGTAATACTCCACGAGA	0.343													3	92					0	0	1	0	0		G	186294059	G	G	186294059	3	3	27	1	0	0	0	0	1	0	0	0	8975	391	14	3	301	3	LRP2BP	4	186294059	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	40251	186294059	4860217	2514	24865											
CCDC110	256309	broad.mit.edu	37	chr4	186381022	186381022	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgatagaatggcaaatgTcatctaaattttcacaaaat	16	14	6	5	0	3	2	2	1	1	1	3	2	3	2	0	1	0	2	0	1	7	5	rs143728634		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:186381022T>A	uc003ixu.3	-	6	795	c.719A>T	c.(718-720)GAC>GTC	p.D240V	CCDC110_uc003ixv.3_Missense_Mutation_p.D203V|CCDC110_uc011ckt.1_Missense_Mutation_p.D240V	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	240						nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		ATGGCAAATGTCATCTAAATT	0.363													7	105					0	0	1	0	0		A	186381022	A	A	186381022	3	1	27	1	0	0	0	0	1	0	0	0	2750	1667	58	5	1790	5	CCDC110	4	186381022	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	86963	186381022	4773254	2515	24866											
CCDC110	256309	broad.mit.edu	37	chr4	186382236	186382236	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgcgtgccaaacaccagAtttttttctgagctaaattg	11	13	8	9	2	1	2	0	1	1	1	1	2	1	2	2	0	4	1	2	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:186382236A>T	uc003ixu.3	-	5	391	c.315T>A	c.(313-315)AAT>AAA	p.N105K	CCDC110_uc003ixv.3_Intron|CCDC110_uc011ckt.1_Missense_Mutation_p.N105K	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	105						nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		CAAACACCAGATTTTTTTCTG	0.318													12	124					0	0	1	0	0		T	186382236	T	T	186382236	3	4	27	1	0	0	0	0	1	0	0	0	2750	330	12	5	2198	5	CCDC110	4	186382236	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1214	186382236	4772040	2516	24867											
SORBS2	8470	broad.mit.edu	37	chr4	186533060	186533060	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggaaacagggaagatgccTtgtctgttggttcctgggat	9	12	14	6	0	1	1	0	0	1	1	2	4	2	4	2	4	2	2	2	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:186533060T>C	uc003iyl.2	-	18	3816	c.2958A>G	c.(2956-2958)CAA>CAG	p.Q986Q	SORBS2_uc003iyh.2_Silent_p.Q710Q|SORBS2_uc011ckw.1_Silent_p.Q547Q|SORBS2_uc003iyi.2_Silent_p.Q617Q|SORBS2_uc011ckx.1_Silent_p.Q552Q|SORBS2_uc003iyk.2_Silent_p.Q530Q|SORBS2_uc003iym.2_Silent_p.Q1086Q|SORBS2_uc003iyn.1_Silent_p.Q577Q|SORBS2_uc011cku.1_Silent_p.Q378Q|SORBS2_uc011ckv.1_Silent_p.Q890Q|SORBS2_uc003iyd.2_Silent_p.Q685Q|SORBS2_uc003iye.2_Silent_p.Q559Q|SORBS2_uc003iya.2_Silent_p.Q506Q|SORBS2_uc003iyb.2_Silent_p.Q459Q|SORBS2_uc003iyc.2_Silent_p.Q439Q|SORBS2_uc003iyg.2_Silent_p.Q1100Q|SORBS2_uc003iyf.2_Silent_p.Q522Q|SORBS2_uc003iyo.1_Silent_p.Q435Q	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	986	SH3 2.					actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		GGAAGATGCCTTGTCTGTTGG	0.413													5	68					0	0	1	0	0		C	186533060	C	C	186533060	2	2	27	1	0	0	0	0	0	0	0	1	14953	1606	56	3		3	SORBS2	4	186533060	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	150824	186533060	4621216	2517	24868											
SORBS2	8470	broad.mit.edu	37	chr4	186544479	186544479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaggactgactagaaaagCaagtttagaaaggccagggt	16	6	12	7	0	0	3	0	1	0	2	0	4	0	4	1	3	1	2	1	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:186544479C>T	uc003iyl.2	-	13	2950	c.2092G>A	c.(2092-2094)GCT>ACT	p.A698T	SORBS2_uc003iyh.2_Intron|SORBS2_uc011ckw.1_Intron|SORBS2_uc003iyi.2_Intron|SORBS2_uc011ckx.1_Intron|SORBS2_uc003iyk.2_Intron|SORBS2_uc003iym.2_Missense_Mutation_p.A798T|SORBS2_uc003iyn.1_Intron|SORBS2_uc011cku.1_Intron|SORBS2_uc011ckv.1_Missense_Mutation_p.A602T|SORBS2_uc003iyd.2_Intron|SORBS2_uc003iye.2_Intron|SORBS2_uc003iya.2_Intron|SORBS2_uc003iyb.2_Intron|SORBS2_uc003iyc.2_Intron|SORBS2_uc003iyg.2_Missense_Mutation_p.A812T|SORBS2_uc003iyf.2_Intron|SORBS2_uc003iyo.1_Intron	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	698						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		ACTAGAAAAGCAAGTTTAGAA	0.443													14	189					0	0	1	0	0		T	186544479	T	T	186544479	3	4	27	1	0	0	0	0	1	0	0	0	14953	710	25	2	1246	2	SORBS2	4	186544479	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11419	186544479	4609797	2518	24869											
KLKB1	3818	broad.mit.edu	37	chr4	187177156	187177156	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgtttcagaattccaaaaAccaatatgcctaccttccaa	15	12	3	11	0	1	1	1	0	0	1	3	1	3	1	5	0	3	1	5	0	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:187177156A>C	uc003iyy.2	+	13	1571	c.1500A>C	c.(1498-1500)AAA>AAC	p.K500N	KLKB1_uc011clc.1_Missense_Mutation_p.K298N|KLKB1_uc011cld.1_Missense_Mutation_p.K462N	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	500	Peptidase S1.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		AATTCCAAAAACCAATATGCC	0.353													7	39					0	0	1	0	0		C	187177156	C	C	187177156	3	2	27	1	0	0	0	0	1	0	0	0	8428	40	2	5	1546	5	KLKB1	4	187177156	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	632677	187177156	3977120	2519	24870											
KLKB1	3818	broad.mit.edu	37	chr4	187177180	187177180	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgcctaccttccaaaggTgacacaagcacaatttatac	15	10	5	11	0	0	1	0	1	0	0	1	1	1	1	3	1	4	1	3	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:187177180T>C	uc003iyy.2	+	13	1595	c.1524T>C	c.(1522-1524)GGT>GGC	p.G508G	KLKB1_uc011clc.1_Silent_p.G306G|KLKB1_uc011cld.1_Silent_p.G470G	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	508	Peptidase S1.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		CTTCCAAAGGTGACACAAGCA	0.348													3	52					0	0	1	0	0		C	187177180	C	C	187177180	2	2	27	1	0	0	0	0	0	0	0	1	8428	1683	59	3		3	KLKB1	4	187177180	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	24	187177180	3977096	2520	24871											
FAT1	2195	broad.mit.edu	37	chr4	187521118	187521118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggcgcagtcttccgtggCcgtcaggaagcagcctggag	6	7	16	12	3	2	0	1	0	1	0	3	2	3	2	3	4	2	3	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:187521118C>T	uc003izf.2	-	22	12225	c.12037G>A	c.(12037-12039)GCC>ACC	p.A4013T	FAT1_uc003ize.2_5'Flank	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4013	Extracellular (Potential).|EGF-like 2.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TCTTCCGTGGCCGTCAGGAAG	0.522										HNSCC(5;0.00058)			15	63					0	0	1	0	0		T	187521118	T	T	187521118	3	4	27	1	0	0	0	0	1	0	0	0	5703	739	26	2	1753	2	FAT1	4	187521118	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	343938	187521118	3633158	2521	24872											
FAT1	2195	broad.mit.edu	37	chr4	187524831	187524831	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtcgtgaacttcccatctgTtacgctgacattgagaaggt	9	12	10	10	3	1	3	0	3	1	1	3	4	2	3	1	1	2	2	1	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:187524831T>C	uc003izf.2	-	19	11037	c.10849A>G	c.(10849-10851)ACA>GCA	p.T3617A		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3617	Extracellular (Potential).|Cadherin 33.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TTCCCATCTGTTACGCTGACA	0.507										HNSCC(5;0.00058)			6	51					0	0	1	0	0		C	187524831	C	C	187524831	3	2	27	1	0	0	0	0	1	0	0	0	5703	1725	60	3	2953	3	FAT1	4	187524831	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3713	187524831	3629445	2522	24873											
FAT1	2195	broad.mit.edu	37	chr4	187540078	187540078	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgccggggtttctcgatcAagtttttccaaagtaaatat	10	14	8	9	3	2	0	1	0	1	0	5	1	4	0	3	2	0	3	3	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:187540078A>C	uc003izf.2	-	10	7850	c.7662T>G	c.(7660-7662)CTT>CTG	p.L2554L		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2554	Extracellular (Potential).|Cadherin 23.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TTTCTCGATCAAGTTTTTCCA	0.403										HNSCC(5;0.00058)			4	56					0	0	1	0	0		C	187540078	C	C	187540078	2	2	27	1	0	0	0	0	0	0	0	1	5703	117	5	5		5	FAT1	4	187540078	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	15247	187540078	3614198	2523	24874											
FAT1	2195	broad.mit.edu	37	chr4	187541346	187541346	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcagtgaaatttcacccaAgggtccaatttgaaagtgtt	12	14	8	7	0	2	2	2	2	0	0	3	2	3	2	2	1	0	1	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:187541346A>C	uc003izf.2	-	10	6582	c.6394T>G	c.(6394-6396)TTG>GTG	p.L2132V		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2132	Extracellular (Potential).|Cadherin 19.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						ATTTCACCCAAGGGTCCAATT	0.423										HNSCC(5;0.00058)			7	126					0	0	1	0	0		C	187541346	C	C	187541346	3	2	27	1	0	0	0	0	1	0	0	0	5703	69	3	5	7444	5	FAT1	4	187541346	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1268	187541346	3612930	2524	24875											
FAT1	2195	broad.mit.edu	37	chr4	187549799	187549799	+	Missense_Mutation	SNP	A	G	G																															tgtttttctcatcctgatccAcagcactgatttgcaaaatt																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:187549799A>G	uc003izf.2	-	8	4630	c.4442T>C	c.(4441-4443)GTG>GCG	p.V1481A		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1481	Extracellular (Potential).|Cadherin 13.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						ATCCTGATCCACAGCACTGAT	0.418										HNSCC(5;0.00058)			4	70					0	0	1	0	0		G	187549799	G	G	187549799	3	3	27	1	0	0	0	0	1	0	0	0	5703	159	6	3	9404	3	FAT1	4	187549799	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8453	187549799	3604477	2525	24876	47	2									
FAT1	2195	broad.mit.edu	37	chr4	187549801	187549801	+	Silent	SNP	A	G	G																															tttttctcatcctgatccacAgcactgatttgcaaaatttc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:187549801A>G	uc003izf.2	-	8	4628	c.4440T>C	c.(4438-4440)GCT>GCC	p.A1480A		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1480	Extracellular (Potential).|Cadherin 13.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CCTGATCCACAGCACTGATTT	0.413										HNSCC(5;0.00058)			4	68					0	0	1	0	0		G	187549801	G	G	187549801	2	3	27	1	0	0	0	0	0	0	0	1	5703	175	7	3		3	FAT1	4	187549801	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2	187549801	3604475	2526	24877	47	2									
FAT1	2195	broad.mit.edu	37	chr4	187627796	187627796	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctccccatctcttctggcGtcctcatcatgagccgacac	7	11	6	17	2	5	1	2	1	3	0	8	2	6	1	4	1	1	0	4	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:187627796G>A	uc003izf.2	-	2	3374	c.3186C>T	c.(3184-3186)GAC>GAT	p.D1062D	FAT1_uc010iso.1_Silent_p.D1062D	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1062	Extracellular (Potential).|Cadherin 9.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTCTTCTGGCGTCCTCATCAT	0.468										HNSCC(5;0.00058)			42	178					0	0	1	0	0		A	187627796	A	A	187627796	2	1	27	1	0	0	0	0	0	0	0	1	5703	1136	40	1		1	FAT1	4	187627796	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	77995	187627796	3526480	2527	24878											
ZFP42	132625	broad.mit.edu	37	chr4	188923990	188923990	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaactgaagaaacgggcaaAgacaagacaccagaaaggcc	19	1	11	10	1	0	5	0	1	0	4	0	5	0	5	2	2	2	2	2	2	6	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:188923990A>G	uc003izg.1	+	3	274	c.29A>G	c.(28-30)AAG>AGG	p.K10R	ZFP42_uc003izh.1_Missense_Mutation_p.K10R|ZFP42_uc003izi.1_Missense_Mutation_p.K10R	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	10					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		AAACGGGCAAAGACAAGACAC	0.537													6	44					0	0	1	0	0		G	188923990	G	G	188923990	3	3	27	1	0	0	0	0	1	0	0	0	17675	72	3	3	31	3	ZFP42	4	188923990	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1296194	188923990	2230286	2528	24879											
TUBB4Q	56604	broad.mit.edu	37	chr4	190905503	190905503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagatccacgagcacagcgcGggacacgtacctgccacctg	10	4	11	16	4	0	1	0	0	0	1	1	3	1	2	4	1	4	2	4	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr4:190905503G>A	uc011clg.1	-	3	184	c.181C>T	c.(181-183)CGC>TGC	p.R61C		NM_020040	NP_064424	Q99867	TBB4Q_HUMAN	tubulin, beta polypeptide 4, member Q	62					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;4.1e-31)|Epithelial(3;1.44e-30)|OV - Ovarian serous cystadenocarcinoma(60;2.03e-15)|BRCA - Breast invasive adenocarcinoma(30;8.54e-06)|Lung(3;3.23e-05)|STAD - Stomach adenocarcinoma(60;8.24e-05)|LUSC - Lung squamous cell carcinoma(40;0.000184)|GBM - Glioblastoma multiforme(59;0.00839)|READ - Rectum adenocarcinoma(43;0.155)		AGCACAGCGCGGGACACGTAC	0.697													15	76					0	0	1	0	0		A	190905503	A	A	190905503	3	1	27	1	0	0	0	0	1	0	0	0	16785	1116	39	1	1127	1	TUBB4Q	4	190905503	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1981513	190905503	248773	2529	24880											
PLEKHG4B	153478	broad.mit.edu	37	chr5	169511	169511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagagagggagtacattcGgtgcttaggatacgtcattg	11	10	13	7	2	1	1	1	0	0	1	2	4	1	3	0	3	3	2	0	3	3	5	rs146749875		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:169511G>A	uc003jak.2	+	12	2515	c.2465G>A	c.(2464-2466)CGG>CAG	p.R822Q		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	822	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		GAGTACATTCGGTGCTTAGGA	0.552													5	103					0	0	1	0	0		A	169511	A	A	169511	3	1	27	1	0	0	0	0	1	0	0	0	12091	1116	39	1	2511	1	PLEKHG4B	5	169511	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08		169511	180745749	2530	24881											
LRRC14B	389257	broad.mit.edu	37	chr5	192330	192330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacaacgtgcggctgcatgCgggccacgtgcagcagcttc	7	6	14	14	4	0	0	0	0	0	0	1	0	0	0	1	2	7	6	1	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:192330C>T	uc003jal.1	+	1	705	c.677C>T	c.(676-678)GCG>GTG	p.A226V		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	226										skin(1)	1						CGGCTGCATGCGGGCCACGTG	0.711													3	7					0	0	1	0	0		T	192330	T	T	192330	3	4	27	1	0	0	0	0	1	0	0	0	8987	768	27	1	679	1	LRRC14B	5	192330	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	22819	192330	180722930	2531	24882											
LRRC14B	389257	broad.mit.edu	37	chr5	195116	195116	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagctcaagttcctcgggaAcccgctgtcggcccgcgccc	5	6	11	19	5	1	0	1	0	0	0	4	1	2	1	5	2	2	3	5	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:195116A>T	uc003jal.1	+	2	1221	c.1193A>T	c.(1192-1194)AAC>ATC	p.N398I		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	398	LRR 5.									skin(1)	1						TTCCTCGGGAACCCGCTGTCG	0.672													5	37					0	0	1	0	0		T	195116	T	T	195116	3	4	27	1	0	0	0	0	1	0	0	0	8987	43	2	5	1199	5	LRRC14B	5	195116	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2786	195116	180720144	2532	24883											
CCDC127	133957	broad.mit.edu	37	chr5	205460	205460	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttaaacttcttcagttcGacaacgagttcccagtattt	10	15	5	11	2	3	0	1	0	2	0	5	2	4	0	1	0	2	3	1	0	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:205460G>A	uc003jam.1	-	3	835	c.735C>T	c.(733-735)GTC>GTT	p.V245V		NM_145265	NP_660308	Q96BQ5	CC127_HUMAN	coiled-coil domain containing 127	245											0			all cancers(22;0.0236)|Lung(60;0.113)			TCTTCAGTTCGACAACGAGTT	0.433													7	122					0	0	1	0	0		A	205460	A	A	205460	2	1	27	1	0	0	0	0	0	0	0	1	2766	1045	37	1		1	CCDC127	5	205460	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10344	205460	180709800	2533	24884											
SDHA	6389	broad.mit.edu	37	chr5	235410	235410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatccctgtcctccccaccGtgcattataacatgggcggc	7	9	9	16	3	0	0	0	0	0	0	3	1	3	0	5	2	2	1	5	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:235410G>A	uc003jao.3	+	9	1331	c.1216G>A	c.(1216-1218)GTG>ATG	p.V406M	SDHA_uc003jan.2_Missense_Mutation_p.V406M|SDHA_uc011clv.1_Missense_Mutation_p.V406M|SDHA_uc011clw.1_Missense_Mutation_p.V358M|SDHA_uc003jap.3_Missense_Mutation_p.V406M|SDHA_uc003jaq.3_Missense_Mutation_p.V181M|SDHA_uc003jar.3_Intron	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	406					nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	CCTCCCCACCGTGCATTATAA	0.627									Familial_Paragangliomas				12	39					0	0	1	0	0		A	235410	A	A	235410	3	1	27	1	0	0	0	0	1	0	0	0	13988	1145	40	1	1250	1	SDHA	5	235410	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	29950	235410	180679850	2534	24885											
PDCD6	10016	broad.mit.edu	37	chr5	306755	306755	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggccggcgtgaacttcAgcgagttcacgggtgtgtgg	8	8	16	9	4	2	1	2	1	0	0	2	2	2	1	1	4	2	1	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:306755A>G	uc003jat.1	+	4	347	c.247A>G	c.(247-249)AGC>GGC	p.S83G	AHRR_uc003jav.2_Intron|AHRR_uc003jaw.2_Intron|AHRR_uc010isy.2_Intron|PDCD6_uc003jau.1_Missense_Mutation_p.S115G	NM_013232	NP_037364	O75340	PDCD6_HUMAN	programmed cell death 6	83	EF-hand 2.|2 (Potential).				induction of apoptosis by extracellular signals|response to calcium ion	endoplasmic reticulum membrane|nuclear membrane	binding, bridging|calcium ion binding|calcium-dependent protein binding			breast(1)	1			Epithelial(17;0.00193)|OV - Ovarian serous cystadenocarcinoma(19;0.00489)|all cancers(22;0.00511)|Lung(60;0.113)			CGTGAACTTCAGCGAGTTCAC	0.532													5	79					0	0	1	0	0		G	306755	G	G	306755	3	3	27	1	0	0	0	0	1	0	0	0	11642	188	7	3	261	3	PDCD6	5	306755	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	71345	306755	180608505	2535	24886											
EXOC3	11336	broad.mit.edu	37	chr5	453871	453871	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggagaaaatgttcaccAtcttggagaggactgtgacc	13	8	13	7	0	2	3	1	1	1	2	2	7	2	5	2	4	0	1	2	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:453871A>G	uc003jba.2	+	4	879	c.751A>G	c.(751-753)ATC>GTC	p.I251V		NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein	262					exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			AATGTTCACCATCTTGGAGAG	0.483													7	75					0	0	1	0	0		G	453871	G	G	453871	3	3	27	1	0	0	0	0	1	0	0	0	5311	217	8	3	761	3	EXOC3	5	453871	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	147116	453871	180461389	2536	24887											
CEP72	55722	broad.mit.edu	37	chr5	640603	640603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatggtgggtgaagatgtcGgctccctggctctggagagt	6	10	17	8	2	1	3	0	1	1	2	3	5	2	3	1	5	0	2	1	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:640603G>A	uc003jbf.2	+	9	1495	c.1423G>A	c.(1423-1425)GGC>AGC	p.G475S		NM_018140	NP_060610	Q9P209	CEP72_HUMAN	centrosomal protein 72 kDa	475					G2/M transition of mitotic cell cycle|gamma-tubulin complex localization|spindle organization	centrosome|cytosol				ovary(1)	1			Epithelial(17;0.000339)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|Lung(60;0.0863)			TGAAGATGTCGGCTCCCTGGC	0.567													16	65					0	0	1	0	0		A	640603	A	A	640603	3	1	27	1	0	0	0	0	1	0	0	0	3263	1116	39	1	1457	1	CEP72	5	640603	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	186732	640603	180274657	2537	24888											
SLC12A7	10723	broad.mit.edu	37	chr5	1073789	1073789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtgcttgtccaggtacgTcccctccagcaccgagccca	7	8	9	17	2	0	0	0	0	0	0	3	1	3	0	6	1	4	3	6	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:1073789T>C	uc003jbu.2	-	17	2266	c.2200A>G	c.(2200-2202)ACG>GCG	p.T734A		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	734					potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	TCCAGGTACGTCCCCTCCAGC	0.701													3	104					0	0	1	0	0		C	1073789	C	C	1073789	3	2	27	1	0	0	0	0	1	0	0	0	14413	1667	58	3	1083	3	SLC12A7	5	1073789	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	433186	1073789	179841471	2538	24889											
IRX2	153572	broad.mit.edu	37	chr5	2748698	2748698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggggcggcccagcagcggcGaggcagggtagggcgagcct	6	2	22	11	4	0	0	0	0	0	0	0	2	0	0	2	7	3	3	2	7	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:2748698G>A	uc003jda.2	-	3	1366	c.1124C>T	c.(1123-1125)TCG>TTG	p.S375L	IRX2_uc003jdb.2_Missense_Mutation_p.S375L	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	375						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		CAGCAGCGGCGAGGCAGGGTA	0.512													6	44					0	0	1	0	0		A	2748698	A	A	2748698	3	1	27	1	0	0	0	0	1	0	0	0	7860	1059	37	1	299	1	IRX2	5	2748698	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1674909	2748698	178166562	2539	24890											
IRX2	153572	broad.mit.edu	37	chr5	2749541	2749541	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccctcctgcgccttgtcggGactctcgtccttgcttctgg	1	13	11	16	3	2	0	0	0	2	0	6	1	4	1	4	2	2	1	4	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:2749541G>T	uc003jda.2	-	2	852	c.610C>A	c.(610-612)CCC>ACC	p.P204T	C5orf38_uc003jdc.2_5'Flank|C5orf38_uc011cmg.1_5'Flank|C5orf38_uc011cmh.1_5'Flank|C5orf38_uc011cmi.1_5'Flank|C5orf38_uc011cmj.1_5'Flank|IRX2_uc003jdb.2_Missense_Mutation_p.P204T	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	204						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		GCCTTGTCGGGACTCTCGTCC	0.652													9	48					2.52707e-12	2.81139e-12	1	1	0		T	2749541	T	T	2749541	3	4	27	1	0	0	0	0	1	0	0	0	7860	1174	41	5	817	5	IRX2	5	2749541	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	843	2749541	178165719	2540	24891											
C5orf38	153571	broad.mit.edu	37	chr5	2752744	2752744	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctctttcagatttgtgtTgtcaaaacactggggggatg	8	14	11	8	0	3	1	2	0	1	1	4	2	4	2	1	3	1	1	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:2752744T>C	uc003jdc.2	+	2	326	c.209T>C	c.(208-210)TTG>TCG	p.L70S	C5orf38_uc011cmg.1_Missense_Mutation_p.L70S|C5orf38_uc011cmh.1_Intron|C5orf38_uc011cmi.1_Intron|C5orf38_uc011cmj.1_Intron	NM_178569	NP_848664	Q86SI9	CEI_HUMAN	hypothetical protein LOC153571 precursor	70						extracellular region					0				GBM - Glioblastoma multiforme(108;0.205)		AGATTTGTGTTGTCAAAACAC	0.498													7	97					0	0	1	0	0		C	2752744	C	C	2752744	3	2	27	1	0	0	0	0	1	0	0	0	2299	1821	63	3	215	3	C5orf38	5	2752744	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3203	2752744	178162516	2541	24892											
IRX1	79192	broad.mit.edu	37	chr5	3600783	3600783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaaagtcgcccttccagcCggtacgcgacaagtgagtgc	9	8	12	12	4	0	1	0	1	0	0	2	2	1	1	3	1	3	2	3	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:3600783C>T	uc003jde.2	+	3	1425	c.1373C>T	c.(1372-1374)CCG>CTG	p.P458L		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	458						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CCCTTCCAGCCGGTACGCGAC	0.632													15	33					0	0	1	0	0		T	3600783	T	T	3600783	3	4	27	1	0	0	0	0	1	0	0	0	7859	652	23	1	1383	1	IRX1	5	3600783	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	848039	3600783	177314477	2542	24893											
KIAA0947	23379	broad.mit.edu	37	chr5	5463038	5463038	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactctgtttctgaatgttcTagtaaaggaaccctaagtaa	13	13	8	7	0	3	1	0	1	3	0	3	3	3	2	1	1	1	4	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:5463038T>C	uc003jdm.3	+	13	3813	c.3591T>C	c.(3589-3591)TCT>TCC	p.S1197S		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1197										ovary(1)|central_nervous_system(1)	2						CTGAATGTTCTAGTAAAGGAA	0.388													3	18					0	0	1	0	0		C	5463038	C	C	5463038	2	2	27	1	0	0	0	0	0	0	0	1	8218	1509	53	3		3	KIAA0947	5	5463038	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1862255	5463038	175452222	2543	24894											
KIAA0947	23379	broad.mit.edu	37	chr5	5463287	5463287	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgaagattgcaatggtaaAgatactggcagtttattgct	12	14	10	5	0	1	3	0	1	1	2	1	3	1	3	0	2	3	5	0	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:5463287A>T	uc003jdm.3	+	13	4062	c.3840A>T	c.(3838-3840)AAA>AAT	p.K1280N		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1280										ovary(1)|central_nervous_system(1)	2						GCAATGGTAAAGATACTGGCA	0.383													6	27					0	0	1	0	0		T	5463287	T	T	5463287	3	4	27	1	0	0	0	0	1	0	0	0	8218	69	3	5	3890	5	KIAA0947	5	5463287	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	249	5463287	175451973	2544	24895											
KIAA0947	23379	broad.mit.edu	37	chr5	5464075	5464075	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctgatcacacatattataActcaaaactagagccatctg	15	11	5	10	0	4	2	2	1	2	1	4	2	4	2	1	0	3	0	1	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:5464075A>G	uc003jdm.3	+	13	4850	c.4628A>G	c.(4627-4629)AAC>AGC	p.N1543S		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1543										ovary(1)|central_nervous_system(1)	2						ACATATTATAACTCAAAACTA	0.363													4	39					0	0	1	0	0		G	5464075	G	G	5464075	3	3	27	1	0	0	0	0	1	0	0	0	8218	43	2	3	4678	3	KIAA0947	5	5464075	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	788	5464075	175451185	2545	24896											
ADCY2	108	broad.mit.edu	37	chr5	7773061	7773061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagtactttatctacagctGcattctgggactgatatcct	9	15	7	10	0	3	1	1	1	2	0	4	2	4	2	1	1	4	3	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:7773061G>A	uc003jdz.1	+	18	2298	c.2231G>A	c.(2230-2232)TGC>TAC	p.C744Y	ADCY2_uc011cmo.1_Missense_Mutation_p.C564Y	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	744	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						ATCTACAGCTGCATTCTGGGA	0.473													14	179					0	0	1	0	0		A	7773061	A	A	7773061	3	1	27	1	0	0	0	0	1	0	0	0	294	1319	46	2	2301	2	ADCY2	5	7773061	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2308986	7773061	173142199	2546	24897											
SEMA5A	9037	broad.mit.edu	37	chr5	9054308	9054308	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgggtcctcatatagtgTccaccgccgcatgttgctga	7	10	12	12	3	1	1	1	1	0	0	3	2	3	1	4	1	2	3	4	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:9054308T>C	uc003jek.2	-	19	3292	c.2580A>G	c.(2578-2580)GGA>GGG	p.G860G		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	860	TSP type-1 6.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						TCATATAGTGTCCACCGCCGC	0.557													6	54					0	0	1	0	0		C	9054308	C	C	9054308	2	2	27	1	0	0	0	0	0	0	0	1	14062	1654	58	3		3	SEMA5A	5	9054308	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1281247	9054308	171860952	2547	24898											
SEMA5A	9037	broad.mit.edu	37	chr5	9154655	9154655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcttgaccacgtgctcccGcaggcccacgaacaggacac	10	5	10	16	3	1	1	0	1	1	0	2	4	2	2	3	2	2	2	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:9154655G>A	uc003jek.2	-	12	2138	c.1426C>T	c.(1426-1428)CGG>TGG	p.R476W		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	476	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						ACGTGCTCCCGCAGGCCCACG	0.607													11	83					0	0	1	0	0		A	9154655	A	A	9154655	3	1	27	1	0	0	0	0	1	0	0	0	14062	1086	38	1	1846	1	SEMA5A	5	9154655	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	100347	9154655	171760605	2548	24899											
SEMA5A	9037	broad.mit.edu	37	chr5	9154780	9154780	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaggtctgattcaggggtAcccgcactttcttaatggtt	7	15	11	8	1	3	2	1	2	2	0	3	2	3	2	1	4	1	3	1	4	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:9154780A>G	uc003jek.2	-	12	2013	c.1301T>C	c.(1300-1302)GTA>GCA	p.V434A		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	434	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						ATTCAGGGGTACCCGCACTTT	0.512													8	94					0	0	1	0	0		G	9154780	G	G	9154780	3	3	27	1	0	0	0	0	1	0	0	0	14062	391	14	3	1971	3	SEMA5A	5	9154780	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	125	9154780	171760480	2549	24900											
MARCH6	10299	broad.mit.edu	37	chr5	10407250	10407250	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcctcctgatgctttggCttcctatacgtataattaag	8	17	7	9	1	0	1	0	1	0	0	3	1	3	1	3	1	2	3	3	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:10407250C>A	uc003jet.1	+	17	1672	c.1489C>A	c.(1489-1491)CTT>ATT	p.L497I	MARCH6_uc011cmu.1_Missense_Mutation_p.L449I|MARCH6_uc003jeu.1_Missense_Mutation_p.L195I|MARCH6_uc011cmv.1_Missense_Mutation_p.L392I	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	497	Helical; (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						GATGCTTTGGCTTCCTATACG	0.388													8	174					0.0581538	0.0588749	1	1	0		A	10407250	A	A	10407250	3	1	27	1	0	0	0	0	1	0	0	0	9323	797	28	5	1555	5	MARCH6	5	10407250	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1252470	10407250	170508010	2550	24901											
ROPN1L	83853	broad.mit.edu	37	chr5	10464976	10464976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttagagacgccaggaagaacGgcatgataggtctttcagat	13	9	12	7	2	2	4	1	1	1	3	2	6	2	5	1	3	1	1	1	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:10464976G>A	uc003jex.3	+	5	881	c.610G>A	c.(610-612)GGC>AGC	p.G204S		NM_031916	NP_114122	Q96C74	ROP1L_HUMAN	ropporin 1-like	204					ciliary or flagellar motility|signal transduction	cytoplasm|motile cilium	cAMP-dependent protein kinase regulator activity|protein binding			ovary(1)	1						CAGGAAGAACGGCATGATAGG	0.303													29	91					0	0	1	0	0		A	10464976	A	A	10464976	3	1	27	1	0	0	0	0	1	0	0	0	13550	1116	39	1	628	1	ROPN1L	5	10464976	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	57726	10464976	170450284	2551	24902											
CTNND2	1501	broad.mit.edu	37	chr5	10992687	10992687	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggttgttgggagacacgcGcacaggggagatggagggcg	8	5	21	7	4	0	2	0	0	0	2	0	5	0	3	0	6	0	3	0	6	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:10992687G>A	uc003jfa.1	-	19	3332	c.3187C>T	c.(3187-3189)CGC>TGC	p.R1063C	CTNND2_uc010itt.2_Missense_Mutation_p.R972C|CTNND2_uc011cmy.1_Missense_Mutation_p.R726C|CTNND2_uc011cmz.1_Missense_Mutation_p.R630C|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.R655C	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	1063					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GGAGACACGCGCACAGGGGAG	0.592													8	70					0	0	1	0	0		A	10992687	A	A	10992687	3	1	27	1	0	0	0	0	1	0	0	0	4023	1087	38	1	506	1	CTNND2	5	10992687	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	527711	10992687	169922573	2552	24903											
CTNND2	1501	broad.mit.edu	37	chr5	11159707	11159707	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttaggcacccggtggcgtTacgcagcacctgtgatgaat	8	9	12	12	3	0	2	0	2	0	0	0	2	0	2	3	3	2	4	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:11159707T>C	uc003jfa.1	-	12	2285	c.2140A>G	c.(2140-2142)AAC>GAC	p.N714D	CTNND2_uc010itt.2_Missense_Mutation_p.N623D|CTNND2_uc011cmy.1_Missense_Mutation_p.N377D|CTNND2_uc011cmz.1_Missense_Mutation_p.N281D|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.N281D	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	714	ARM 5.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						CCGGTGGCGTTACGCAGCACC	0.537													4	110					0	0	1	0	0		C	11159707	C	C	11159707	3	2	27	1	0	0	0	0	1	0	0	0	4023	1754	61	3	1581	3	CTNND2	5	11159707	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	167020	11159707	169755553	2553	24904											
CTNND2	1501	broad.mit.edu	37	chr5	11411702	11411702	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgattcctgtagtgaccTaatacaggagtccaccagct	10	11	8	12	0	0	2	0	2	0	0	3	3	3	3	5	1	2	2	5	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:11411702T>G	uc003jfa.1	-	5	530	c.385A>C	c.(385-387)AGG>CGG	p.R129R	CTNND2_uc010itt.2_Silent_p.R38R|CTNND2_uc011cmy.1_Silent_p.R38R|CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	129					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						TGTAGTGACCTAATACAGGAG	0.388													16	53					0	0	1	0	0		G	11411702	G	G	11411702	2	3	27	1	0	0	0	0	0	0	0	1	4023	1521	53	5		5	CTNND2	5	11411702	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	251995	11411702	169503558	2554	24905											
DNAH5	1767	broad.mit.edu	37	chr5	13735943	13735943	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacctggctaaggaaaggtCaaataagcccagaaactggc	15	6	11	9	0	1	1	1	0	0	1	1	2	1	2	2	4	3	2	2	4	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:13735943C>A	uc003jfd.2	-	67	11596	c.11554G>T	c.(11554-11556)GAC>TAC	p.D3852Y	DNAH5_uc003jfc.2_Missense_Mutation_p.D20Y	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3852					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AAGGAAAGGTCAAATAAGCCC	0.453									Kartagener_syndrome				29	91					6.38683e-12	7.09549e-12	1	1	0		A	13735943	A	A	13735943	3	1	27	1	0	0	0	0	1	0	0	0	4610	826	29	5	2372	5	DNAH5	5	13735943	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2324241	13735943	167179317	2555	24906											
DNAH5	1767	broad.mit.edu	37	chr5	13759025	13759025	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctgcttgtcatccaacTcggcctgggctttctgcaga	5	11	10	15	2	2	1	1	0	1	1	4	1	3	1	4	2	3	3	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:13759025T>C	uc003jfd.2	-	61	10391	c.10349A>G	c.(10348-10350)GAG>GGG	p.E3450G	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3450	Stalk (By similarity).|Potential.				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GTCATCCAACTCGGCCTGGGC	0.552									Kartagener_syndrome				9	152					0	0	1	0	0		C	13759025	C	C	13759025	3	2	27	1	0	0	0	0	1	0	0	0	4610	1551	54	3	3601	3	DNAH5	5	13759025	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	23082	13759025	167156235	2556	24907											
DNAH5	1767	broad.mit.edu	37	chr5	13811930	13811930	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgagcgtttcttaagaaaAccctgtcagttcacagacaa	13	10	9	9	1	3	3	2	1	1	2	3	3	3	3	1	1	2	2	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:13811930A>C	uc003jfd.2	-	44	7275	c.7233T>G	c.(7231-7233)GGT>GGG	p.G2411G		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2411	AAA 2 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TCTTAAGAAAACCCTGTCAGT	0.373									Kartagener_syndrome				5	39					0	0	1	0	0		C	13811930	C	C	13811930	2	2	27	1	0	0	0	0	0	0	0	1	4610	30	2	5		5	DNAH5	5	13811930	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	52905	13811930	167103330	2557	24908											
DNAH5	1767	broad.mit.edu	37	chr5	13916508	13916508	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtattatagtaatgagagatActatagatcattttaattgc	15	16	7	3	0	1	3	1	1	0	2	1	4	1	3	0	0	2	2	0	0	8	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:13916508A>G	uc003jfd.2	-	9	1188	c.1146T>C	c.(1144-1146)AGT>AGC	p.S382S	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	382	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AATGAGAGATACTATAGATCA	0.323									Kartagener_syndrome				3	66					0	0	1	0	0		G	13916508	G	G	13916508	2	3	27	1	0	0	0	0	0	0	0	1	4610	388	14	3		3	DNAH5	5	13916508	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	104578	13916508	166998752	2558	24909											
DNAH5	1767	broad.mit.edu	37	chr5	13919401	13919401	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttttttccagtgctccaGctccgctcgtggcccaacgt	4	14	8	15	3	1	0	0	0	1	0	5	0	4	0	4	1	3	3	4	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:13919401G>A	uc003jfd.2	-	7	901	c.859C>T	c.(859-861)CTG>TTG	p.L287L	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	287	Potential.|Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CAGTGCTCCAGCTCCGCTCGT	0.532									Kartagener_syndrome				27	191					0	0	1	0	0		A	13919401	A	A	13919401	2	1	27	1	0	0	0	0	0	0	0	1	4610	962	34	2		2	DNAH5	5	13919401	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2893	13919401	166995859	2559	24910											
TRIO	7204	broad.mit.edu	37	chr5	14485290	14485290	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcattcatctagtccaaGtgtccggcaaacttggatcc	9	13	8	11	1	2	0	1	0	1	0	5	1	5	1	3	2	2	2	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:14485290G>T	uc003jff.2	+	47	6776	c.6770G>T	c.(6769-6771)AGT>ATT	p.S2257I	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Missense_Mutation_p.S1906I	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2257	PH 2.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					TCTAGTCCAAGTGTCCGGCAA	0.408													6	109					0.0215528	0.0219246	1	1	0		T	14485290	T	T	14485290	3	4	27	1	0	0	0	0	1	0	0	0	16578	1029	36	5	6956	5	TRIO	5	14485290	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	565889	14485290	166429970	2560	24911											
TRIO	7204	broad.mit.edu	37	chr5	14492761	14492761	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggatgagatcaacgtctAccaaggagaggtcgttcaaa	14	7	13	7	2	3	2	2	1	1	2	4	6	3	4	1	4	2	1	1	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:14492761A>G	uc003jff.2	+	49	7724	c.7718A>G	c.(7717-7719)TAC>TGC	p.Y2573C	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2573	SH3 2.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					ATCAACGTCTACCAAGGAGAG	0.542													3	34					0	0	1	0	0		G	14492761	G	G	14492761	3	3	27	1	0	0	0	0	1	0	0	0	16578	391	14	3	7912	3	TRIO	5	14492761	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7471	14492761	166422499	2561	24912											
FAM105B	90268	broad.mit.edu	37	chr5	14681660	14681660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagggccacgctgttccagGccatgagccaggctgtgggg	6	7	17	11	1	0	2	0	2	0	0	1	2	1	2	4	5	1	3	4	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:14681660G>A	uc003jfk.2	+	4	564	c.412G>A	c.(412-414)GCC>ACC	p.A138T		NM_138348	NP_612357	Q96BN8	F105B_HUMAN	hypothetical protein LOC90268	138										ovary(2)	2	Lung NSC(4;0.00696)					GCTGTTCCAGGCCATGAGCCA	0.557													12	102					0	0	1	0	0		A	14681660	A	A	14681660	3	1	27	1	0	0	0	0	1	0	0	0	5399	1203	42	2	426	2	FAM105B	5	14681660	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	188899	14681660	166233600	2562	24913											
ANKH	56172	broad.mit.edu	37	chr5	14871519	14871519	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcaccaagaaccggatcAggggccagtagtgcgtgagc	10	4	17	10	2	1	2	1	1	0	1	1	3	1	3	3	5	3	2	3	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:14871519A>G	uc003jfm.3	-	1	369	c.38T>C	c.(37-39)CTG>CCG	p.L13P		NM_054027	NP_473368	Q9HCJ1	ANKH_HUMAN	progressive ankylosis protein	13	Cytoplasmic (Potential).				locomotory behavior|regulation of bone mineralization|skeletal system development	integral to plasma membrane|outer membrane	inorganic diphosphate transmembrane transporter activity|inorganic phosphate transmembrane transporter activity			upper_aerodigestive_tract(1)	1						GAACCGGATCAGGGGCCAGTA	0.667													4	56					0	0	1	0	0		G	14871519	G	G	14871519	3	3	27	1	0	0	0	0	1	0	0	0	627	188	7	3	1488	3	ANKH	5	14871519	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	189859	14871519	166043741	2563	24914											
MYO10	4651	broad.mit.edu	37	chr5	16672884	16672884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtattcaaacaaagcaaaCatgttcctgctgtcctccat	12	13	5	11	0	1	0	1	0	0	0	4	0	4	0	3	0	4	4	3	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:16672884C>T	uc003jft.3	-	37	5691	c.5223G>A	c.(5221-5223)ATG>ATA	p.M1741I	MYO10_uc011cnb.1_Missense_Mutation_p.M370I|MYO10_uc011cnc.1_Missense_Mutation_p.M620I|MYO10_uc011cnd.1_Missense_Mutation_p.M1098I|MYO10_uc011cne.1_Missense_Mutation_p.M1098I|MYO10_uc010itx.2_Missense_Mutation_p.M1363I	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1741	FERM.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						ACAAAGCAAACATGTTCCTGC	0.522													5	45					0	0	1	0	0		T	16672884	T	T	16672884	3	4	27	1	0	0	0	0	1	0	0	0	10080	478	17	4	973	4	MYO10	5	16672884	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1801365	16672884	164242376	2564	24915											
CDH12	1010	broad.mit.edu	37	chr5	21752182	21752182	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaattttgttctcctcaatCacttttgggtttctcagagc	7	17	7	10	1	4	1	3	0	2	1	6	2	4	1	1	1	1	2	1	1	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:21752182C>A	uc010iuc.2	-	12	2507	c.2049G>T	c.(2047-2049)GTG>GTT	p.V683V	CDH12_uc011cno.1_Silent_p.V643V|CDH12_uc003jgk.2_Silent_p.V683V|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	683	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TCTCCTCAATCACTTTTGGGT	0.458										HNSCC(59;0.17)			4	63					0.00909568	0.0093211	1	1	0		A	21752182	A	A	21752182	2	1	27	1	0	0	0	0	0	0	0	1	3101	813	29	5		5	CDH12	5	21752182	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5079298	21752182	159163078	2565	24916											
CDH12	1010	broad.mit.edu	37	chr5	21752247	21752247	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctccccacctccttcatCatcgtaatggatgacgttgt	7	14	6	14	2	2	1	2	1	0	0	6	2	5	2	5	1	0	2	5	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:21752247C>A	uc010iuc.2	-	12	2442	c.1984G>T	c.(1984-1986)GAT>TAT	p.D662Y	CDH12_uc011cno.1_Missense_Mutation_p.D622Y|CDH12_uc003jgk.2_Missense_Mutation_p.D662Y|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	662	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CCTCCTTCATCATCGTAATGG	0.458										HNSCC(59;0.17)			4	88					0.014758	0.0150623	1	1	0		A	21752247	A	A	21752247	3	1	27	1	0	0	0	0	1	0	0	0	3101	826	29	5	404	5	CDH12	5	21752247	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	65	21752247	159163013	2566	24917											
CDH12	1010	broad.mit.edu	37	chr5	21975268	21975268	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actttggctcattatcattaAtatcctgcactttgatgatg	10	17	6	8	0	2	2	2	2	0	0	3	2	3	2	1	1	1	2	1	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:21975268A>T	uc010iuc.2	-	3	916	c.458T>A	c.(457-459)ATT>AAT	p.I153N	CDH12_uc011cno.1_Missense_Mutation_p.I153N|CDH12_uc003jgk.2_Missense_Mutation_p.I153N	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	153	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						ATTATCATTAATATCCTGCAC	0.423										HNSCC(59;0.17)			28	79					0	0	1	0	0		T	21975268	T	T	21975268	3	4	27	1	0	0	0	0	1	0	0	0	3101	101	4	5	1966	5	CDH12	5	21975268	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	223021	21975268	158939992	2567	24918											
PRDM9	56979	broad.mit.edu	37	chr5	23522467	23522467	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tagcctgcgagaaagaaaggGtcatgcatacaaagaggtca	16	6	12	7	1	2	3	2	0	0	3	2	4	2	3	1	2	4	1	1	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:23522467G>C	uc003jgo.2	+	7	745	c.563G>C	c.(562-564)GGT>GCT	p.G188A		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	188					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						GAAAGAAAGGGTCATGCATAC	0.468										HNSCC(3;0.000094)			26	133					0	0	1	0	0		C	23522467	C	C	23522467	3	2	27	1	0	0	0	0	1	0	0	0	12485	1261	44	5	585	5	PRDM9	5	23522467	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1547199	23522467	157392793	2568	24919											
CDH10	1008	broad.mit.edu	37	chr5	24488088	24488088	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatatctcgccggagctttTtttcctcaatggctgcagga	8	14	9	10	2	2	0	1	0	1	0	4	2	3	2	2	3	2	3	2	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:24488088T>A	uc003jgr.1	-	12	2383	c.2051A>T	c.(2050-2052)AAA>ATA	p.K684I	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	684	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CCGGAGCTTTTTTTCCTCAAT	0.483										HNSCC(23;0.051)			14	90					0	0	1	0	0		A	24488088	A	A	24488088	3	1	27	1	0	0	0	0	1	0	0	0	3099	1841	64	5	319	5	CDH10	5	24488088	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	965621	24488088	156427172	2569	24920											
CDH9	1007	broad.mit.edu	37	chr5	26881477	26881477	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttcgatggataaaatctTgtacatcaatattttcccac	13	15	4	9	1	3	0	1	0	2	0	5	2	4	1	1	1	1	1	1	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:26881477T>C	uc003jgs.1	-	12	2307	c.2138A>G	c.(2137-2139)CAA>CGA	p.Q713R	CDH9_uc011cnv.1_Missense_Mutation_p.Q306R	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	713	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						GATAAAATCTTGTACATCAAT	0.418													6	101					0	0	1	0	0		C	26881477	C	C	26881477	3	2	27	1	0	0	0	0	1	0	0	0	3120	1812	63	3	235	3	CDH9	5	26881477	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2393389	26881477	154033783	2570	24921											
CDH9	1007	broad.mit.edu	37	chr5	26886083	26886083	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcttatacctttattaTctacaatggtgaaattcgga	12	18	5	6	1	2	1	0	1	2	0	3	2	2	2	1	2	2	0	1	2	7	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:26886083T>C	uc003jgs.1	-	10	1791	c.1622A>G	c.(1621-1623)GAT>GGT	p.D541G	CDH9_uc011cnv.1_Missense_Mutation_p.D134G	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	541	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						ACCTTTATTATCTACAATGGT	0.303													13	147					0	0	1	0	0		C	26886083	C	C	26886083	3	2	27	1	0	0	0	0	1	0	0	0	3120	1435	50	3	759	3	CDH9	5	26886083	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4606	26886083	154029177	2571	24922											
CDH9	1007	broad.mit.edu	37	chr5	26906938	26906938	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgttgcagttacttgtataAcagatgtacctacatgaaac	13	13	7	8	0	0	2	0	1	0	1	0	2	0	2	1	0	6	5	1	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:26906938A>G	uc003jgs.1	-	4	702	c.533T>C	c.(532-534)GTT>GCT	p.V178A	CDH9_uc010iug.2_Missense_Mutation_p.V178A	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	178	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TACTTGTATAACAGATGTACC	0.383													4	55					0	0	1	0	0		G	26906938	G	G	26906938	3	3	27	1	0	0	0	0	1	0	0	0	3120	43	2	3	1872	3	CDH9	5	26906938	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20855	26906938	154008322	2572	24923											
CDH6	1004	broad.mit.edu	37	chr5	31305342	31305342	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagcctccaatccttatgTtgagccacgatttctctact	9	13	7	12	1	1	1	0	1	1	0	4	3	3	2	4	1	3	1	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:31305342T>G	uc003jhe.1	+	7	1387	c.1061T>G	c.(1060-1062)GTT>GGT	p.V354G	CDH6_uc003jhd.1_Missense_Mutation_p.V354G	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	354	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						AATCCTTATGTTGAGCCACGA	0.458													11	108					0	0	1	0	0		G	31305342	G	G	31305342	3	3	27	1	0	0	0	0	1	0	0	0	3117	1725	60	5	1083	5	CDH6	5	31305342	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4398404	31305342	149609918	2573	24924											
PDZD2	23037	broad.mit.edu	37	chr5	31983390	31983390	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccaggagaaacacctacCttggagctgggtgaccgaac	13	5	12	11	1	0	2	0	1	0	1	0	6	0	3	4	3	5	1	4	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:31983390C>A	uc003jhl.2	+	3	994	c.606C>A	c.(604-606)ACC>ACA	p.T202T	PDZD2_uc003jhm.2_Silent_p.T202T|PDZD2_uc011cnx.1_Silent_p.T28T	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	202					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						AAACACCTACCTTGGAGCTGG	0.512													6	90					0.0215528	0.0219246	1	1	0		A	31983390	A	A	31983390	2	1	27	1	0	0	0	0	0	0	0	1	11720	668	24	5		5	PDZD2	5	31983390	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	678048	31983390	148931870	2574	24925											
ZFR	51663	broad.mit.edu	37	chr5	32355933	32355933	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccatcaactccatcactaTctcttcttcgtttcctgttg	7	17	3	14	1	4	0	2	0	2	0	9	0	7	0	3	0	1	2	3	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:32355933T>C	uc003jhr.1	-	20	3238	c.3158A>G	c.(3157-3159)GAT>GGT	p.D1053G	ZFR_uc010ium.1_Missense_Mutation_p.D184G|ZFR_uc011cny.1_RNA	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	1053					multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		TCCATCACTATCTCTTCTTCG	0.373													14	155					0	0	1	0	0		C	32355933	C	C	32355933	3	2	27	1	0	0	0	0	1	0	0	0	17684	1435	50	3	70	3	ZFR	5	32355933	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	372543	32355933	148559327	2575	24926											
ZFR	51663	broad.mit.edu	37	chr5	32387778	32387778	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaatccttttgccaatacTcccactcgcaaaactccttt	11	13	3	14	1	0	0	0	0	0	0	4	0	3	0	4	0	3	2	4	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:32387778T>C	uc003jhr.1	-	14	2456	c.2376A>G	c.(2374-2376)GGA>GGG	p.G792G	ZFR_uc011cny.1_RNA	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	792	DZF.				multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		TTGCCAATACTCCCACTCGCA	0.358													6	65					0	0	1	0	0		C	32387778	C	C	32387778	2	2	27	1	0	0	0	0	0	0	0	1	17684	1538	54	3		3	ZFR	5	32387778	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31845	32387778	148527482	2576	24927											
C5orf23	79614	broad.mit.edu	37	chr5	32789518	32789518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacaggtttcatgagaaggtCcctgaaaacatcacatttct	13	11	7	10	0	3	2	2	2	1	1	4	3	4	2	1	2	1	1	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:32789518C>T	uc003jhw.1	+	1	574	c.11C>T	c.(10-12)TCC>TTC	p.S4F		NM_024563	NP_078839			hypothetical protein LOC79614												0						ATGAGAAGGTCCCTGAAAACA	0.388													5	109					0	0	1	0	0		T	32789518	T	T	32789518	3	4	27	1	0	0	0	0	1	0	0	0	2289	855	30	4	13	4	C5orf23	5	32789518	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	401740	32789518	148125742	2577	24928											
TARS	6897	broad.mit.edu	37	chr5	33455788	33455788	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agactggaagttaagaaagaAactttactggcaatgtttaa	17	11	9	4	0	0	3	0	0	0	3	0	4	0	4	0	2	2	3	0	2	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:33455788A>G	uc003jhy.2	+	6	967	c.672A>G	c.(670-672)GAA>GAG	p.E224E	TARS_uc011cob.1_Silent_p.E212E|TARS_uc010iup.1_Silent_p.E165E|TARS_uc011coc.1_Silent_p.E245E|TARS_uc003jhz.2_Silent_p.E120E|TARS_uc011cod.1_Silent_p.E103E	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	224					threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)	TTAAGAAAGAAACTTTACTGG	0.383													7	66					0	0	1	0	0		G	33455788	G	G	33455788	2	3	27	1	0	0	0	0	0	0	0	1	15584	11	1	3		3	TARS	5	33455788	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	666270	33455788	147459472	2578	24929											
TARS	6897	broad.mit.edu	37	chr5	33457508	33457508	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatcataggaaaattggcagGgtatgttcaagaacaatgat	16	10	11	4	0	2	2	2	1	0	1	2	4	2	3	0	3	1	3	0	3	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:33457508G>T	uc003jhy.2	+	9	1279	c.984G>T	c.(982-984)AGG>AGT	p.R328S	TARS_uc011cob.1_Missense_Mutation_p.R316S|TARS_uc010iup.1_Missense_Mutation_p.R269S|TARS_uc011coc.1_Missense_Mutation_p.R349S|TARS_uc003jhz.2_Missense_Mutation_p.R224S|TARS_uc011cod.1_Missense_Mutation_p.R207S	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	328					threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)	AAATTGGCAGGGTATGTTCAA	0.363													8	60					0.0381472	0.0386818	1	1	0		T	33457508	T	T	33457508	3	4	27	1	0	0	0	0	1	0	0	0	15584	1246	43	5	1018	5	TARS	5	33457508	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1720	33457508	147457752	2579	24930											
RXFP3	51289	broad.mit.edu	37	chr5	33938202	33938202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctactacccacctggcgtcGtggtctacagcggggggcgc	5	8	14	14	4	2	0	0	0	2	0	3	0	2	0	2	5	4	0	2	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:33938202G>A	uc003jic.1	+	1	1714	c.1357G>A	c.(1357-1359)GTG>ATG	p.V453M		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	453	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						ACCTGGCGTCGTGGTCTACAG	0.597													8	24					0	0	1	0	0		A	33938202	A	A	33938202	3	1	27	1	0	0	0	0	1	0	0	0	13786	1145	40	1	1359	1	RXFP3	5	33938202	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	480694	33938202	146977058	2580	24931											
SLC45A2	51151	broad.mit.edu	37	chr5	33944918	33944918	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accatgcatgtgagggtggcGcagtccatgcccttccctct	6	10	11	14	1	1	1	0	1	1	0	3	1	3	1	4	2	2	2	4	2	0	1	rs139551409		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:33944918G>A	uc003jid.2	-	7	1520	c.1428C>T	c.(1426-1428)TGC>TGT	p.C476C		NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	476	Cytoplasmic (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						TGAGGGTGGCGCAGTCCATGC	0.602													7	16					0	0	1	0	0		A	33944918	A	A	33944918	2	1	27	1	0	0	0	0	0	0	0	1	14666	1079	38	1		1	SLC45A2	5	33944918	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6716	33944918	146970342	2581	24932											
RAI14	26064	broad.mit.edu	37	chr5	34814723	34814723	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccccaagatcaataacttcGactccactatcgggaaagga	14	8	7	12	2	1	1	1	0	0	1	5	4	3	3	3	2	1	0	3	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:34814723G>A	uc003jir.2	+	12	1084	c.888G>A	c.(886-888)TCG>TCA	p.S296S	RAI14_uc010iur.2_Silent_p.S267S|RAI14_uc011coj.1_Silent_p.S296S|RAI14_uc010ius.1_Silent_p.S225S|RAI14_uc003jis.2_Silent_p.S299S|RAI14_uc003jit.2_Silent_p.S296S|RAI14_uc011cok.1_Silent_p.S288S	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	296						cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					CAATAACTTCGACTCCACTAT	0.343													4	52					0	0	1	0	0		A	34814723	A	A	34814723	2	1	27	1	0	0	0	0	0	0	0	1	13033	1045	37	1		1	RAI14	5	34814723	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	869805	34814723	146100537	2582	24933											
SPEF2	79925	broad.mit.edu	37	chr5	35806994	35806994	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtgttcaaagggggaagTgaagcacaggactccaatag	16	6	13	6	0	1	1	1	1	0	0	2	3	2	3	1	3	1	2	1	3	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:35806994T>C	uc003jjo.2	+	35	5307	c.5196T>C	c.(5194-5196)AGT>AGC	p.S1732S	SPEF2_uc003jjp.1_Silent_p.S1218S|SPEF2_uc003jjr.2_Silent_p.S787S	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1732					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AAGGGGGAAGTGAAGCACAGG	0.393													3	41					0	0	1	0	0		C	35806994	C	C	35806994	2	2	27	1	0	0	0	0	0	0	0	1	15060	1693	59	3		3	SPEF2	5	35806994	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	992271	35806994	145108266	2583	24934											
IL7R	3575	broad.mit.edu	37	chr5	35860990	35860990	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaactggatgactactcatTctcatgctatagccagttgg	11	12	9	9	0	2	2	2	1	1	1	3	3	2	3	1	2	4	2	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:35860990T>C	uc003jjs.2	+	2	208	c.119T>C	c.(118-120)TTC>TCC	p.F40S	IL7R_uc011coo.1_Missense_Mutation_p.F40S|IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	40	Extracellular (Potential).				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			GACTACTCATTCTCATGCTAT	0.423													15	130					0	0	1	0	0		C	35860990	C	C	35860990	3	2	27	1	0	0	0	0	1	0	0	0	7721	1783	62	3	125	3	IL7R	5	35860990	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53996	35860990	145054270	2584	24935											
SKP2	6502	broad.mit.edu	37	chr5	36153144	36153144	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaatcgagagaactttccaGgtaaggacatgagggtaaaa	17	8	11	5	1	0	2	0	1	0	1	2	5	1	3	1	3	1	2	1	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:36153144G>T	uc003jkc.1	+	2	462	c.280G>T	c.(280-282)GGT>TGT	p.G94C	SKP2_uc011cou.1_Translation_Start_Site|SKP2_uc003jkd.2_Missense_Mutation_p.G94C|LMBRD2_uc003jkb.1_5'Flank	NM_005983	NP_005974	Q13309	SKP2_HUMAN	S-phase kinase-associated protein 2 isoform 1	94	F-box.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G1/S transition of mitotic cell cycle|S phase of mitotic cell cycle	nucleoplasm|SCF ubiquitin ligase complex	protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4	all_lung(31;5.63e-05)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GAACTTTCCAGGTAAGGACAT	0.468													7	55					0.0293803	0.0298427	1	1	0		T	36153144	T	T	36153144	3	4	27	1	0	0	0	0	1	0	0	0	14387	1014	35	5	286	5	SKP2	5	36153144	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	292154	36153144	144762116	2585	24936											
SKP2	6502	broad.mit.edu	37	chr5	36182033	36182033	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacagattaattgctcccAtttcaccaccattgccaggc	10	12	5	14	0	2	1	1	0	1	1	3	1	3	1	4	1	3	1	4	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:36182033A>G	uc003jkc.1	+	10	1357	c.1175A>G	c.(1174-1176)CAT>CGT	p.H392R	SKP2_uc011cou.1_Missense_Mutation_p.H178R|SKP2_uc003jkd.2_Intron	NM_005983	NP_005974	Q13309	SKP2_HUMAN	S-phase kinase-associated protein 2 isoform 1	392					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G1/S transition of mitotic cell cycle|S phase of mitotic cell cycle	nucleoplasm|SCF ubiquitin ligase complex	protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4	all_lung(31;5.63e-05)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AATTGCTCCCATTTCACCACC	0.443													15	98					0	0	1	0	0		G	36182033	G	G	36182033	3	3	27	1	0	0	0	0	1	0	0	0	14387	217	8	3	1213	3	SKP2	5	36182033	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	28889	36182033	144733227	2586	24937											
NIPBL	25836	broad.mit.edu	37	chr5	36961658	36961658	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatcttccaattatcaacAaaccactatctcacatagcc	14	11	2	14	0	3	0	2	0	2	0	5	0	4	0	3	0	4	1	3	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:36961658A>G	uc003jkl.3	+	5	930	c.431A>G	c.(430-432)CAA>CGA	p.Q144R	NIPBL_uc003jkk.3_Missense_Mutation_p.Q144R|NIPBL_uc003jkm.1_Missense_Mutation_p.Q23R	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	144					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			AATTATCAACAAACCACTATC	0.343													5	80					0	0	1	0	0		G	36961658	G	G	36961658	3	3	27	1	0	0	0	0	1	0	0	0	10447	130	5	3	445	3	NIPBL	5	36961658	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	779625	36961658	143953602	2587	24938											
NIPBL	25836	broad.mit.edu	37	chr5	37006671	37006671	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcagtatgatcctgtttaCagattagatcctcatggagg	10	13	9	9	0	2	3	2	1	0	2	4	4	4	4	3	2	1	2	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:37006671C>A	uc003jkl.3	+	17	4567	c.4068C>A	c.(4066-4068)TAC>TAA	p.Y1356*	NIPBL_uc003jkk.3_Nonsense_Mutation_p.Y1356*	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1356					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			ATCCTGTTTACAGATTAGATC	0.318													5	22					0.000602214	0.000630257	1	1	0		A	37006671	A	A	37006671	4	1	27	1	0	0	0	0	0	1	0	0	10447	489	17	5	4130	5	NIPBL	5	37006671	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	45013	37006671	143908589	2588	24939											
NIPBL	25836	broad.mit.edu	37	chr5	37020717	37020717	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgcatcgagctgaaaacCgaaaaaagtttcttagaagc	16	10	8	7	2	1	2	0	1	1	1	2	4	1	2	1	0	4	3	1	0	8	3	rs121918267		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:37020717C>T	uc003jkl.3	+	26	5666	c.5167C>T	c.(5167-5169)CGA>TGA	p.R1723*	NIPBL_uc003jkk.3_Nonsense_Mutation_p.R1723*	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1723					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			AGCTGAAAACCGAAAAAAGTT	0.343													21	80					0	0	1	0	0		T	37020717	T	T	37020717	4	4	27	1	0	0	0	0	0	1	0	0	10447	644	23	1	5265	1	NIPBL	5	37020717	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14046	37020717	143894543	2589	24940											
NIPBL	25836	broad.mit.edu	37	chr5	37020965	37020965	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtttgcccagagctttgatAtttatttgacacaggtaaac	11	14	8	8	1	0	3	0	2	0	1	0	3	0	3	1	1	3	3	1	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:37020965A>T	uc003jkl.3	+	27	5813	c.5314A>T	c.(5314-5316)ATT>TTT	p.I1772F	NIPBL_uc003jkk.3_Missense_Mutation_p.I1772F	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1772	HEAT 1.				brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GAGCTTTGATATTTATTTGAC	0.373													20	154					0	0	1	0	0		T	37020965	T	T	37020965	3	4	27	1	0	0	0	0	1	0	0	0	10447	449	16	5	5416	5	NIPBL	5	37020965	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	248	37020965	143894295	2590	24941											
C5orf42	65250	broad.mit.edu	37	chr5	37187584	37187584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataagttcttccatattaaAaaaccgagagaaaggcagca	19	8	7	7	1	1	1	0	0	1	1	2	3	2	1	2	1	2	3	2	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:37187584A>G	uc011cpa.1	-	23	4243	c.4012T>C	c.(4012-4014)TTT>CTT	p.F1338L	C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.F413L|C5orf42_uc011cpb.1_Missense_Mutation_p.F219L	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1338										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			TCCATATTAAAAAACCGAGAG	0.378													6	48					0	0	1	0	0		G	37187584	G	G	37187584	3	3	27	1	0	0	0	0	1	0	0	0	2304	14	1	3	5701	3	C5orf42	5	37187584	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	166619	37187584	143727676	2591	24942											
NUP155	9631	broad.mit.edu	37	chr5	37328463	37328463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaaagaaaagaggtaccatGagacggtgttcccaaaaagg	18	5	11	7	1	0	3	0	1	0	3	1	4	1	3	2	3	1	2	2	3	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:37328463G>A	uc003jku.1	-	17	1991	c.1873C>T	c.(1873-1875)CAT>TAT	p.H625Y	NUP155_uc003jkt.1_Missense_Mutation_p.H566Y|NUP155_uc010iuz.1_Missense_Mutation_p.H625Y	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	625	Pro-rich.				carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GAGGTACCATGAGACGGTGTT	0.353													4	48					0	0	1	0	0		A	37328463	A	A	37328463	3	1	27	1	0	0	0	0	1	0	0	0	10775	1290	45	4	2378	4	NUP155	5	37328463	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	140879	37328463	143586797	2592	24943											
NUP155	9631	broad.mit.edu	37	chr5	37364478	37364478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgacatgccagaaacggTgggattatctacaaaaagaa	17	8	9	7	1	2	3	0	1	2	2	2	4	2	4	1	2	3	0	1	2	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:37364478T>C	uc003jku.1	-	2	284	c.166A>G	c.(166-168)ACC>GCC	p.T56A	NUP155_uc003jkt.1_5'UTR|NUP155_uc010iuz.1_Missense_Mutation_p.T56A	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	56					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CCAGAAACGGTGGGATTATCT	0.408													3	33					0	0	1	0	0		C	37364478	C	C	37364478	3	2	27	1	0	0	0	0	1	0	0	0	10775	1696	59	3	4145	3	NUP155	5	37364478	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	36015	37364478	143550782	2593	24944											
WDR70	55100	broad.mit.edu	37	chr5	37605339	37605339	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctgggaccgaaatttgaCtgtaagttaaatcttttctt	11	16	8	6	1	3	1	0	1	3	0	3	4	3	2	1	1	0	2	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:37605339C>A	uc003jkv.2	+	10	1149	c.1091C>A	c.(1090-1092)ACT>AAT	p.T364N	WDR70_uc010iva.1_Missense_Mutation_p.T364N	NM_018034	NP_060504	Q9NW82	WDR70_HUMAN	WD repeat domain 70	364	WD 4.									ovary(1)|central_nervous_system(1)	2	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CGAAATTTGACTGTAAGTTAA	0.393													3	36					0.004672	0.0048188	1	1	0		A	37605339	A	A	37605339	3	1	27	1	0	0	0	0	1	0	0	0	17347	579	20	5	1129	5	WDR70	5	37605339	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	240861	37605339	143309921	2594	24945											
LIFR	3977	broad.mit.edu	37	chr5	38511961	38511961	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatgaagattgtcaatgtAgcatctaatttccacaaaat	18	12	5	6	0	2	2	1	1	1	1	3	2	3	2	1	0	1	2	1	0	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:38511961A>G	uc010ive.1	-	6	999	c.667T>C	c.(667-669)TAC>CAC	p.Y223H	LIFR_uc003jli.2_Missense_Mutation_p.Y223H	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	223	Extracellular (Potential).				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					TTGTCAATGTAGCATCTAATT	0.398			T	PLAG1	salivary adenoma								5	40					0	0	1	0	0		G	38511961	G	G	38511961	3	3	27	1	0	0	0	0	1	0	0	0	8796	420	15	3	2686	3	LIFR	5	38511961	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	906622	38511961	142403299	2595	24946											
RICTOR	253260	broad.mit.edu	37	chr5	38947539	38947539	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcataacttaaggctttcaTgaacctataaaaccataaag	17	11	5	8	0	1	1	1	1	0	0	1	1	1	1	2	1	4	2	2	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:38947539T>C	uc003jlp.2	-	32	4165	c.4141A>G	c.(4141-4143)ATG>GTG	p.M1381V	RICTOR_uc003jlo.2_Missense_Mutation_p.M1405V|RICTOR_uc010ivf.2_Missense_Mutation_p.M1096V	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	1381					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					AAGGCTTTCATGAACCTATAA	0.323													11	26					0	0	1	0	0		C	38947539	C	C	38947539	3	2	27	1	0	0	0	0	1	0	0	0	13383	1464	51	3	1013	3	RICTOR	5	38947539	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	435578	38947539	141967721	2596	24947											
RICTOR	253260	broad.mit.edu	37	chr5	38952456	38952456	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactatgcctcacagcatccCagttgtgacattttagaata	12	12	7	10	0	1	2	1	1	0	1	2	3	2	2	2	0	2	2	2	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:38952456C>G	uc003jlp.2	-	30	2993	c.2969G>C	c.(2968-2970)TGG>TCG	p.W990S	RICTOR_uc003jlo.2_Missense_Mutation_p.W990S|RICTOR_uc010ivf.2_Missense_Mutation_p.W705S	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	990					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					CACAGCATCCCAGTTGTGACA	0.408													17	59					0	0	1	0	0		G	38952456	G	G	38952456	3	3	27	1	0	0	0	0	1	0	0	0	13383	595	21	5	2193	5	RICTOR	5	38952456	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4917	38952456	141962804	2597	24948											
RICTOR	253260	broad.mit.edu	37	chr5	39002671	39002671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtccactttcaattttagcaCcttctggagaatactggagt	10	14	8	9	0	2	1	1	0	1	1	3	3	3	2	2	2	2	1	2	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:39002671C>T	uc003jlp.2	-	5	382	c.358G>A	c.(358-360)GTG>ATG	p.V120M	RICTOR_uc003jlo.2_Missense_Mutation_p.V120M|RICTOR_uc010ivf.2_Translation_Start_Site|RICTOR_uc003jlq.1_Missense_Mutation_p.V104M|RICTOR_uc011cpk.1_Missense_Mutation_p.V120M	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	120					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					AATTTTAGCACCTTCTGGAGA	0.378													9	164					0	0	1	0	0		T	39002671	T	T	39002671	3	4	27	1	0	0	0	0	1	0	0	0	13383	507	18	4	4904	4	RICTOR	5	39002671	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	50215	39002671	141912589	2598	24949											
RICTOR	253260	broad.mit.edu	37	chr5	39002727	39002727	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcgctcgtagccctgctGctcgcacttcttttgcttca	5	13	9	14	3	2	0	1	0	1	0	4	1	2	0	1	0	5	6	1	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:39002727G>A	uc003jlp.2	-	5	326	c.302C>T	c.(301-303)GCA>GTA	p.A101V	RICTOR_uc003jlo.2_Missense_Mutation_p.A101V|RICTOR_uc010ivf.2_5'UTR|RICTOR_uc003jlq.1_Missense_Mutation_p.A85V|RICTOR_uc011cpk.1_Missense_Mutation_p.A101V	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	101					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					TAGCCCTGCTGCTCGCACTTC	0.378													17	166					0	0	1	0	0		A	39002727	A	A	39002727	3	1	27	1	0	0	0	0	1	0	0	0	13383	1319	46	2	4960	2	RICTOR	5	39002727	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	56	39002727	141912533	2599	24950											
C9	735	broad.mit.edu	37	chr5	39311418	39311418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgtgagcacaacatcgCgatttctcattacaaatctt	11	15	6	9	2	2	1	1	1	2	0	4	2	2	1	0	0	3	2	0	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:39311418C>T	uc003jlv.3	-	7	1021	c.932G>A	c.(931-933)CGC>CAC	p.R311H		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	311	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			CACAACATCGCGATTTCTCAT	0.363													15	65					0	0	1	0	0		T	39311418	T	T	39311418	3	4	27	1	0	0	0	0	1	0	0	0	2446	768	27	1	767	1	C9	5	39311418	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	308691	39311418	141603842	2600	24951											
DAB2	1601	broad.mit.edu	37	chr5	39376984	39376984	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtctaaggcagtgaaggcAtcactggagatgtccttggg	9	9	16	7	0	2	2	1	1	1	1	3	3	3	2	1	5	0	2	1	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:39376984A>C	uc003jlx.2	-	12	2436	c.1905T>G	c.(1903-1905)GAT>GAG	p.D635E	DAB2_uc003jlw.2_Missense_Mutation_p.D614E	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	635					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			CAGTGAAGGCATCACTGGAGA	0.567											OREG0016586	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	110					0	0	1	0	0		C	39376984	C	C	39376984	3	2	27	1	0	0	0	0	1	0	0	0	4221	214	8	5	419	5	DAB2	5	39376984	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	65566	39376984	141538276	2601	24952											
DAB2	1601	broad.mit.edu	37	chr5	39382948	39382948	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgagttctcactgctggctgGgtttgcgaacttgaaaaggg	8	12	14	7	1	1	2	1	2	1	0	2	3	1	2	0	3	3	4	0	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:39382948G>T	uc003jlx.2	-	10	1644	c.1113C>A	c.(1111-1113)ACC>ACA	p.T371T	DAB2_uc003jlw.2_Silent_p.T350T	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	371					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			CTGCTGGCTGGGTTTGCGAAC	0.507													8	74					0.000157383	0.000166242	1	1	0		T	39382948	T	T	39382948	2	4	27	1	0	0	0	0	0	0	0	1	4221	1219	43	5		5	DAB2	5	39382948	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5964	39382948	141532312	2602	24953											
DAB2	1601	broad.mit.edu	37	chr5	39390565	39390565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgttgcccggtttttatgGcaaaaaactgatgctggcct	8	13	10	10	1	0	1	0	1	0	0	0	1	0	1	3	3	3	4	3	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:39390565G>A	uc003jlx.2	-	5	974	c.443C>T	c.(442-444)GCC>GTC	p.A148V	DAB2_uc003jlw.2_Missense_Mutation_p.A148V	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	148	PID.			A -> T (in Ref. 2; AAA98975).	cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			GGTTTTTATGGCAAAAAACTG	0.453													16	79					0	0	1	0	0		A	39390565	A	A	39390565	3	1	27	1	0	0	0	0	1	0	0	0	4221	1203	42	2	1909	2	DAB2	5	39390565	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7617	39390565	141524695	2603	24954											
DAB2	1601	broad.mit.edu	37	chr5	39392490	39392490	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttttctcatcaattatttTtatcccagaaagggaaatgt	13	16	6	6	0	2	1	2	0	1	1	4	2	3	2	1	1	0	1	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:39392490T>C	uc003jlx.2	-	4	838	c.307A>G	c.(307-309)AAA>GAA	p.K103E	DAB2_uc003jlw.2_Missense_Mutation_p.K103E	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	103	PID.				cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			TCAATTATTTTTATCCCAGAA	0.453													8	78					0	0	1	0	0		C	39392490	C	C	39392490	3	2	27	1	0	0	0	0	1	0	0	0	4221	1850	64	3	2049	3	DAB2	5	39392490	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1925	39392490	141522770	2604	24955											
PTGER4	5734	broad.mit.edu	37	chr5	40691943	40691943	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagaagtcagtaaaaatccAgatttgcaggccatccgaat	15	8	9	9	2	1	2	1	0	0	2	3	4	3	2	3	1	1	2	3	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:40691943A>G	uc003jlz.2	+	3	1522	c.930A>G	c.(928-930)CCA>CCG	p.P310P		NM_000958	NP_000949	P35408	PE2R4_HUMAN	prostaglandin E receptor 4, subtype EP4	310	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|immune response	integral to membrane|plasma membrane	prostaglandin E receptor activity			lung(2)	2						GTAAAAATCCAGATTTGCAGG	0.428													11	133					0	0	1	0	0		G	40691943	G	G	40691943	2	3	27	1	0	0	0	0	0	0	0	1	12768	175	7	3		3	PTGER4	5	40691943	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1299453	40691943	140223317	2605	24956											
PTGER4	5734	broad.mit.edu	37	chr5	40691998	40691998	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatcctagacccctggataTatatcctcctgagaaagaca	13	9	6	13	0	0	3	0	1	0	3	3	5	3	4	6	1	0	0	6	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:40691998T>C	uc003jlz.2	+	3	1577	c.985T>C	c.(985-987)TAT>CAT	p.Y329H		NM_000958	NP_000949	P35408	PE2R4_HUMAN	prostaglandin E receptor 4, subtype EP4	329	Helical; Name=7; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|immune response	integral to membrane|plasma membrane	prostaglandin E receptor activity			lung(2)	2						CCCCTGGATATATATCCTCCT	0.502													5	149					0	0	1	0	0		C	40691998	C	C	40691998	3	2	27	1	0	0	0	0	1	0	0	0	12768	1406	49	3	991	3	PTGER4	5	40691998	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	55	40691998	140223262	2606	24957											
PTGER4	5734	broad.mit.edu	37	chr5	40692107	40692107	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccggacagcactgctcagAcagtcaaaggacatcttctg	11	8	9	13	1	4	1	2	0	2	1	5	3	5	3	1	2	2	2	1	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:40692107A>G	uc003jlz.2	+	3	1686	c.1094A>G	c.(1093-1095)GAC>GGC	p.D365G		NM_000958	NP_000949	P35408	PE2R4_HUMAN	prostaglandin E receptor 4, subtype EP4	365	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|immune response	integral to membrane|plasma membrane	prostaglandin E receptor activity	p.D365D(1)		lung(2)	2						CACTGCTCAGACAGTCAAAGG	0.557													5	46					0	0	1	0	0		G	40692107	G	G	40692107	3	3	27	1	0	0	0	0	1	0	0	0	12768	275	10	3	1100	3	PTGER4	5	40692107	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	109	40692107	140223153	2607	24958											
PRKAA1	5562	broad.mit.edu	37	chr5	40777625	40777625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctaccacatcaaggctcCgaatcttctgtcgattgagt	9	13	7	12	2	3	1	1	1	2	0	6	3	5	1	3	1	1	1	3	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:40777625C>T	uc003jmc.2	-	2	197	c.191G>A	c.(190-192)CGG>CAG	p.R64Q	PRKAA1_uc003jmb.2_Missense_Mutation_p.R64Q	NM_006251	NP_006242	Q13131	AAPK1_HUMAN	protein kinase, AMP-activated, alpha 1 catalytic	64	Protein kinase.				activation of MAPK activity|cell cycle arrest|cholesterol biosynthetic process|fatty acid biosynthetic process|insulin receptor signaling pathway|negative regulation of glucosylceramide biosynthetic process|positive regulation of anti-apoptosis|positive regulation of cholesterol biosynthetic process|regulation of fatty acid oxidation|response to hypoxia	cytosol	ATP binding|cAMP-dependent protein kinase activity|metal ion binding|protein binding			breast(1)	1					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)|Phenformin(DB00914)	ATCAAGGCTCCGAATCTTCTG	0.343													6	60					0	0	1	0	0		T	40777625	T	T	40777625	3	4	27	1	0	0	0	0	1	0	0	0	12515	652	23	1	1569	1	PRKAA1	5	40777625	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	85518	40777625	140137635	2608	24959											
CARD6	84674	broad.mit.edu	37	chr5	40853695	40853695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaagcctcctgggttatggGccgcccctttgggtcagagc	6	9	14	12	1	1	1	1	0	0	1	2	2	2	1	5	3	2	1	5	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:40853695G>A	uc003jmg.2	+	3	2336	c.2261G>A	c.(2260-2262)GGC>GAC	p.G754D		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	754					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						TGGGTTATGGGCCGCCCCTTT	0.507													23	208					0	0	1	0	0		A	40853695	A	A	40853695	3	1	27	1	0	0	0	0	1	0	0	0	2653	1203	42	2	2271	2	CARD6	5	40853695	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	76070	40853695	140061565	2609	24960											
C7	730	broad.mit.edu	37	chr5	40955575	40955575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gccttagttacctagagctgGacaatcctgctggaaacaaa	13	9	9	10	0	0	1	0	0	0	1	1	3	1	3	3	2	4	3	3	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:40955575G>A	uc003jmh.2	+	10	1294	c.1180G>A	c.(1180-1182)GAC>AAC	p.D394N	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	394	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				CCTAGAGCTGGACAATCCTGC	0.443													15	156					0	0	1	0	0		A	40955575	A	A	40955575	3	1	27	1	0	0	0	0	1	0	0	0	2378	1174	41	4	1218	4	C7	5	40955575	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	101880	40955575	139959685	2610	24961											
OXCT1	5019	broad.mit.edu	37	chr5	41842866	41842866	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccaaaataaagtgctgAccattgaactccctcacctg	12	10	5	14	0	1	2	1	2	0	0	4	2	4	2	5	0	2	1	5	0	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:41842866A>T	uc003jmn.2	-	6	913	c.582T>A	c.(580-582)GGT>GGA	p.G194G		NM_000436	NP_000427	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1 precursor	194					cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)	TAAAGTGCTGACCATTGAACT	0.443													20	229					0	0	1	0	0		T	41842866	T	T	41842866	2	4	27	1	0	0	0	0	0	0	0	1	11348	262	10	5		5	OXCT1	5	41842866	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	887291	41842866	139072394	2611	24962											
OXCT1	5019	broad.mit.edu	37	chr5	41850186	41850186	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgttgtatttgatgggCgatcctccttcttgtaccag	5	18	9	9	1	2	1	0	1	2	0	4	2	4	1	3	1	1	3	3	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:41850186C>T	uc003jmn.2	-	5	841	c.510G>A	c.(508-510)TCG>TCA	p.S170S		NM_000436	NP_000427	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1 precursor	170					cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)	ATTTGATGGGCGATCCTCCTT	0.512													22	91					0	0	1	0	0		T	41850186	T	T	41850186	2	4	27	1	0	0	0	0	0	0	0	1	11348	755	27	1		1	OXCT1	5	41850186	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7320	41850186	139065074	2612	24963											
OXCT1	5019	broad.mit.edu	37	chr5	41850248	41850248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtaaaatgcaggaactccagCcccgcctgcacggatcctct	10	7	9	15	2	1	0	0	0	1	0	3	2	3	2	5	2	4	3	5	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:41850248C>T	uc003jmn.2	-	5	779	c.448G>A	c.(448-450)GCT>ACT	p.A150T		NM_000436	NP_000427	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1 precursor	150					cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)	GGAACTCCAGCCCCGCCTGCA	0.507													7	40					0	0	1	0	0		T	41850248	T	T	41850248	3	4	27	1	0	0	0	0	1	0	0	0	11348	739	26	2	1166	2	OXCT1	5	41850248	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	62	41850248	139065012	2613	24964											
FBXO4	26272	broad.mit.edu	37	chr5	41927319	41927319	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagcctatatctgaggtcActgatggtgcattttttgac	11	14	9	7	0	2	3	1	3	1	0	2	3	2	3	1	2	2	1	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:41927319A>G	uc003jmq.2	+	2	450	c.394A>G	c.(394-396)ACT>GCT	p.T132A	FBXO4_uc003jmp.2_Missense_Mutation_p.T132A|FBXO4_uc003jmr.2_Missense_Mutation_p.T132A	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	132				T -> S (in Ref. 1; AAF04468).	positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)				ATCTGAGGTCACTGATGGTGC	0.323													4	108					0	0	1	0	0		G	41927319	G	G	41927319	3	3	27	1	0	0	0	0	1	0	0	0	5762	159	6	3	400	3	FBXO4	5	41927319	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	77071	41927319	138987941	2614	24965											
PAIP1	10605	broad.mit.edu	37	chr5	43527569	43527569	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcatcaatatcatccaagTatctgtaaaagcaaagatga	18	10	5	8	0	4	2	3	1	1	1	5	2	5	2	1	0	1	3	1	0	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:43527569T>C	uc003job.2	-	11	1596	c.1349A>G	c.(1348-1350)TAC>TGC	p.Y450C	PAIP1_uc003joa.2_Missense_Mutation_p.Y371C|PAIP1_uc010ivp.2_Missense_Mutation_p.T340A|PAIP1_uc010ivo.2_RNA|PAIP1_uc003joc.2_Missense_Mutation_p.Y338C	NM_006451	NP_006442	Q9H074	PAIP1_HUMAN	poly(A) binding protein interacting protein 1	450	PABPC1-interacting motif-1 (PAM1).				mRNA stabilization|nuclear-transcribed mRNA poly(A) tail shortening|translational initiation	cytosol	protein binding|RNA binding|translation activator activity			ovary(1)	1	Lung NSC(6;2.07e-05)					ATCATCCAAGTATCTGTAAAA	0.313													6	48					0	0	1	0	0		C	43527569	C	C	43527569	3	2	27	1	0	0	0	0	1	0	0	0	11415	1638	57	3	94	3	PAIP1	5	43527569	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1600250	43527569	137387691	2615	24966											
PAIP1	10605	broad.mit.edu	37	chr5	43556088	43556088	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaactaggtggagctctcagGggcctcgtttgctctgcaaa	8	10	13	10	1	2	0	1	0	2	0	4	2	2	1	1	4	4	4	1	4	3	2	rs144446267		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:43556088G>A	uc003job.2	-	2	526	c.279C>T	c.(277-279)CCC>CCT	p.P93P	PAIP1_uc003joa.2_Silent_p.P14P|PAIP1_uc010ivp.2_Silent_p.P14P|PAIP1_uc010ivo.2_RNA|PAIP1_uc003joc.2_5'UTR	NM_006451	NP_006442	Q9H074	PAIP1_HUMAN	poly(A) binding protein interacting protein 1	93	Pro-rich.				mRNA stabilization|nuclear-transcribed mRNA poly(A) tail shortening|translational initiation	cytosol	protein binding|RNA binding|translation activator activity			ovary(1)	1	Lung NSC(6;2.07e-05)					GAGCTCTCAGGGGCCTCGTTT	0.458													17	177					0	0	1	0	0		A	43556088	A	A	43556088	2	1	27	1	0	0	0	0	0	0	0	1	11415	1219	43	4		4	PAIP1	5	43556088	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	28519	43556088	137359172	2616	24967											
NNT	23530	broad.mit.edu	37	chr5	43616140	43616140	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattgctcagggatatgatgCgctaagctccatggccaaca	12	9	10	10	1	1	1	1	1	0	0	2	2	2	2	2	2	4	3	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:43616140C>A	uc003joe.2	+	4	827	c.572C>A	c.(571-573)GCG>GAG	p.A191E	NNT_uc003jof.2_Missense_Mutation_p.A191E	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	191	Mitochondrial matrix.				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	GGATATGATGCGCTAAGCTCC	0.438													6	179					0.0293803	0.0298427	1	1	0		A	43616140	A	A	43616140	3	1	27	1	0	0	0	0	1	0	0	0	10529	768	27	5	582	5	NNT	5	43616140	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	60052	43616140	137299120	2617	24968											
NNT	23530	broad.mit.edu	37	chr5	43624143	43624143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtcttctagattctgataGttggtggtggtgttgctggg	4	17	15	5	0	3	2	0	1	3	1	3	2	3	2	0	4	1	3	0	4	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:43624143G>A	uc003joe.2	+	6	952	c.697G>A	c.(697-699)GTT>ATT	p.V233I	NNT_uc003jof.2_Missense_Mutation_p.V233I	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	233	Mitochondrial matrix.|NAD (By similarity).				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	GATTCTGATAGTTGGTGGTGG	0.418													20	196					0	0	1	0	0		A	43624143	A	A	43624143	3	1	27	1	0	0	0	0	1	0	0	0	10529	1029	36	4	715	4	NNT	5	43624143	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8003	43624143	137291117	2618	24969											
MRPS30	10884	broad.mit.edu	37	chr5	44809273	44809273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcgctggcaggcgacggTgcacgctgcggagtcggtag	6	5	19	11	7	0	0	0	0	0	0	1	3	0	1	0	5	3	5	0	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:44809273T>C	uc003joh.2	+	1	247	c.209T>C	c.(208-210)GTG>GCG	p.V70A	MRPS30_uc003joi.1_5'Flank	NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	70					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)					CAGGCGACGGTGCACGCTGCG	0.637													3	18					0	0	1	0	0		C	44809273	C	C	44809273	3	2	27	1	0	0	0	0	1	0	0	0	9858	1696	59	3	211	3	MRPS30	5	44809273	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1185130	44809273	136105987	2619	24970											
HCN1	348980	broad.mit.edu	37	chr5	45262884	45262884	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgttcagatccttctggaaCttttgcagaagaattgaatt	11	15	9	6	0	2	4	1	1	1	3	3	5	3	5	1	1	2	2	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:45262884C>T	uc003jok.2	-	8	1837	c.1812G>A	c.(1810-1812)AAG>AAA	p.K604K		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	604	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CCTTCTGGAACTTTTGCAGAA	0.433													8	54					0	0	1	0	0		T	45262884	T	T	45262884	2	4	27	1	0	0	0	0	0	0	0	1	7012	564	20	4		4	HCN1	5	45262884	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	453611	45262884	135652376	2620	24971											
HCN1	348980	broad.mit.edu	37	chr5	45695850	45695850	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttccaccgccttctggcTcccaaacatgcggagggaga	8	9	10	14	2	1	1	0	0	1	1	3	3	3	2	4	3	2	1	4	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:45695850T>A	uc003jok.2	-	1	371	c.346A>T	c.(346-348)AGC>TGC	p.S116C		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	116	Involved in subunit assembly (By similarity).|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GCCTTCTGGCTCCCAAACATG	0.597													6	62					0	0	1	0	0		A	45695850	A	A	45695850	3	1	27	1	0	0	0	0	1	0	0	0	7012	1551	54	5	2358	5	HCN1	5	45695850	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	432966	45695850	135219410	2621	24972											
ITGA1	3672	broad.mit.edu	37	chr5	52157298	52157298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtgcttattggttctcCgttagttggccaacccaaaa	9	12	10	10	1	1	0	0	0	1	0	2	0	1	0	3	3	2	4	3	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:52157298C>T	uc003jou.2	+	3	252	c.200C>T	c.(199-201)CCG>CTG	p.P67L	ITGA1_uc003jov.2_RNA	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	67	Extracellular (Potential).|FG-GAP 1.				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				ATTGGTTCTCCGTTAGTTGGC	0.358													25	121					0	0	1	0	0		T	52157298	T	T	52157298	3	4	27	1	0	0	0	0	1	0	0	0	7888	652	23	1	210	1	ITGA1	5	52157298	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6461448	52157298	128757962	2622	24973											
ITGA1	3672	broad.mit.edu	37	chr5	52221106	52221106	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttcctgtcatcatttcAgattccctttgccaaagatt	8	18	4	11	0	4	2	3	0	1	2	6	2	6	2	3	0	1	0	3	0	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:52221106A>G	uc003jou.2	+	19	2456	c.2404_splice	c.e19-2	p.I802_splice	ITGA1_uc003jov.2_Splice_Site|ITGA1_uc003jow.2_Splice_Site_p.I333_splice	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor						axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				TCATCATTTCAGATTCCCTTT	0.388													4	56					0	0	1	0	0		G	52221106	G	G	52221106	5	3	27	1	0	0	0	0	0	0	1	0	7888	202	7	3	2476	3	ITGA1	5	52221106	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	63808	52221106	128694154	2623	24974											
ITGA2	3673	broad.mit.edu	37	chr5	52344509	52344509	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgttgtggttgtgtgtgAtgaatcaaatagtatttatc	11	17	11	2	0	1	3	1	2	0	1	2	3	1	3	0	1	0	3	0	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:52344509A>G	uc003joy.2	+	6	682	c.539A>G	c.(538-540)GAT>GGT	p.D180G	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Missense_Mutation_p.D104G|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	180	Extracellular (Potential).				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				GTTGTGTGTGATGAATCAAAT	0.398													11	185					0	0	1	0	0		G	52344509	G	G	52344509	3	3	27	1	0	0	0	0	1	0	0	0	7891	333	12	3	561	3	ITGA2	5	52344509	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	123403	52344509	128570751	2624	24975											
ITGA2	3673	broad.mit.edu	37	chr5	52353888	52353888	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagacaactttcagatggAaatgtcacaagtgggattca	15	9	11	6	0	3	2	3	0	0	2	3	5	3	4	0	3	1	0	0	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:52353888A>G	uc003joy.2	+	10	1273	c.1130A>G	c.(1129-1131)GAA>GGA	p.E377G	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Missense_Mutation_p.E301G|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	377	Extracellular (Potential).|FG-GAP 3.				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				TTTCAGATGGAAATGTCACAA	0.333													4	55					0	0	1	0	0		G	52353888	G	G	52353888	3	3	27	1	0	0	0	0	1	0	0	0	7891	246	9	3	1168	3	ITGA2	5	52353888	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	9379	52353888	128561372	2625	24976											
ITGA2	3673	broad.mit.edu	37	chr5	52367773	52367773	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgtatgtttaggagccCtctgatgttgtcaactcttt	6	18	10	7	0	3	1	1	1	2	0	3	2	3	2	1	1	2	3	1	1	3	5	rs41366951	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:52367773C>A	uc003joy.2	+	18	2384	c.2241C>A	c.(2239-2241)CCC>CCA	p.P747P	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Silent_p.P671P|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	747	Extracellular (Potential).				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				TTTAGGAGCCCTCTGATGTTG	0.438													6	52					0.00116845	0.00121513	1	1	0		A	52367773	A	A	52367773	2	1	27	1	0	0	0	0	0	0	0	1	7891	668	24	5		5	ITGA2	5	52367773	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13885	52367773	128547487	2626	24977											
SKIV2L2	23517	broad.mit.edu	37	chr5	54603888	54603888	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcagcgtgttcgagggcgActcgaccactgcggcgggaa	7	7	16	11	6	1	0	1	0	0	0	3	4	1	1	1	3	2	2	1	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:54603888A>T	uc003jpy.3	+	1	313	c.47A>T	c.(46-48)GAC>GTC	p.D16V	SKIV2L2_uc011cqi.1_5'UTR|DHX29_uc003jpx.2_5'Flank|DHX29_uc010ivw.2_5'Flank	NM_015360	NP_056175	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2	16					maturation of 5.8S rRNA	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(1)|skin(1)	2		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				TTCGAGGGCGACTCGACCACT	0.572													4	77					0	0	1	0	0		T	54603888	T	T	54603888	3	4	27	1	0	0	0	0	1	0	0	0	14385	275	10	5	49	5	SKIV2L2	5	54603888	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2236115	54603888	126311372	2627	24978											
SKIV2L2	23517	broad.mit.edu	37	chr5	54603965	54603965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggggcctccagggtctgcaGacaaggcagggtaaggaaga	12	4	17	8	0	1	2	0	0	1	2	2	3	2	3	2	6	1	3	2	6	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:54603965G>A	uc003jpy.3	+	1	390	c.124G>A	c.(124-126)GAC>AAC	p.D42N	SKIV2L2_uc011cqi.1_Missense_Mutation_p.R9K|DHX29_uc003jpx.2_5'Flank|DHX29_uc010ivw.2_5'Flank	NM_015360	NP_056175	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2	42					maturation of 5.8S rRNA	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(1)|skin(1)	2		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				AGGGTCTGCAGACAAGGCAGG	0.507													5	78					0	0	1	0	0		A	54603965	A	A	54603965	3	1	27	1	0	0	0	0	1	0	0	0	14385	942	33	4	126	4	SKIV2L2	5	54603965	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	77	54603965	126311295	2628	24979											
SKIV2L2	23517	broad.mit.edu	37	chr5	54696086	54696086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcagaaacgttttcctgacgGcatccccttattagacccta	10	12	6	13	2	1	3	1	1	0	2	3	3	3	3	4	1	1	2	4	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:54696086G>A	uc003jpy.3	+	21	2584	c.2318G>A	c.(2317-2319)GGC>GAC	p.G773D	SKIV2L2_uc011cqi.1_Missense_Mutation_p.G672D	NM_015360	NP_056175	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2	773					maturation of 5.8S rRNA	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(1)|skin(1)	2		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				TTTCCTGACGGCATCCCCTTA	0.348													6	61					0	0	1	0	0		A	54696086	A	A	54696086	3	1	27	1	0	0	0	0	1	0	0	0	14385	1203	42	2	2400	2	SKIV2L2	5	54696086	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	92121	54696086	126219174	2629	24980											
IL31RA	133396	broad.mit.edu	37	chr5	55168208	55168208	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcccagataattataccaTtgaggtggaagctgaaaatg	15	10	10	6	0	0	3	0	2	0	1	1	5	1	4	2	2	2	1	2	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:55168208T>A	uc003jql.2	+	4	448	c.383T>A	c.(382-384)ATT>AAT	p.I128N	IL31RA_uc003jqk.2_Missense_Mutation_p.I128N|IL31RA_uc011cqj.1_Translation_Start_Site|IL31RA_uc003jqm.2_Missense_Mutation_p.I96N|IL31RA_uc003jqn.2_Missense_Mutation_p.I128N|IL31RA_uc010iwa.1_Missense_Mutation_p.I96N|IL31RA_uc003jqo.2_Translation_Start_Site	NM_139017	NP_620586	Q8NI17	IL31R_HUMAN	gp130-like monocyte receptor	96	Extracellular (Potential).|Fibronectin type-III 1.				anti-apoptosis|defense response|homeostatic process|JAK-STAT cascade|macrophage differentiation|MAPKKK cascade|monocyte differentiation|negative regulation of macrophage activation|positive regulation of cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|plasma membrane	cytokine receptor activity|protein kinase binding|transcription coactivator activity			ovary(1)	1		Lung NSC(810;6.93e-05)|Prostate(74;0.00741)|Breast(144;0.0544)|Ovarian(174;0.223)				AATTATACCATTGAGGTGGAA	0.333													8	93					0	0	1	0	0		A	55168208	A	A	55168208	3	1	27	1	0	0	0	0	1	0	0	0	7707	1493	52	5	397	5	IL31RA	5	55168208	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	472122	55168208	125747052	2630	24981											
IL6ST	3572	broad.mit.edu	37	chr5	55237466	55237466	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttggcctagaagatgacAtgcatgaagaccccccaata	13	8	9	11	0	0	5	0	2	0	3	0	5	0	5	4	1	2	2	4	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:55237466A>G	uc003jqq.2	-	17	2456	c.2201T>C	c.(2200-2202)ATG>ACG	p.M734T	uc003jqp.2_5'Flank|IL6ST_uc010iwb.2_Missense_Mutation_p.M673T|IL6ST_uc010iwc.2_3'UTR|IL6ST_uc010iwd.2_Missense_Mutation_p.M53T|IL6ST_uc011cqk.1_Missense_Mutation_p.M445T|IL6ST_uc003jqr.2_3'UTR	NM_002184	NP_002175	P40189	IL6RB_HUMAN	interleukin 6 signal transducer isoform 1	734	Cytoplasmic (Potential).|Ser-rich.				interleukin-6-mediated signaling pathway|leukemia inhibitory factor signaling pathway|negative regulation of interleukin-6-mediated signaling pathway|positive regulation of anti-apoptosis|positive regulation of cardiac muscle hypertrophy|positive regulation of osteoblast differentiation|positive regulation of T cell proliferation|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation vascular endothelial growth factor production	ciliary neurotrophic factor receptor complex|extracellular region|extracellular space|interleukin-6 receptor complex|oncostatin-M receptor complex	ciliary neurotrophic factor receptor activity|ciliary neurotrophic factor receptor binding|growth factor binding|protein homodimerization activity			large_intestine(1)|ovary(1)	2		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)				AGAAGATGACATGCATGAAGA	0.413			O		hepatocellular ca								19	135					0	0	1	0	0		G	55237466	G	G	55237466	3	3	27	1	0	0	0	0	1	0	0	0	7719	217	8	3	559	3	IL6ST	5	55237466	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	69258	55237466	125677794	2631	24982											
ANKRD55	79722	broad.mit.edu	37	chr5	55407092	55407092	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgattagaatcactctTccaggggttatctagtaaca	12	13	7	9	0	3	2	1	1	2	1	4	2	4	2	2	2	2	2	2	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:55407092T>C	uc003jqu.2	-	10	1635	c.1483A>G	c.(1483-1485)AAG>GAG	p.K495E	ANKRD55_uc003jqt.2_Missense_Mutation_p.K207E	NM_024669	NP_078945	Q3KP44	ANR55_HUMAN	ankyrin repeat domain 55 isoform 1	494										skin(1)	1		Lung NSC(810;8.69e-05)|Prostate(74;0.00634)|Breast(144;0.0334)|Ovarian(174;0.223)				GAATCACTCTTCCAGGGGTTA	0.448													21	168					0	0	1	0	0		C	55407092	C	C	55407092	3	2	27	1	0	0	0	0	1	0	0	0	681	1792	62	3	373	3	ANKRD55	5	55407092	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	169626	55407092	125508168	2632	24983											
MIER3	166968	broad.mit.edu	37	chr5	56219147	56219147	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcataaaggattcagggacGgcaatgcccattttcaatct	12	12	8	9	1	4	0	3	0	1	0	4	2	4	2	1	3	1	1	1	3	4	5	rs141090261		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:56219147G>T	uc003jrd.1	-	13	1486	c.1461C>A	c.(1459-1461)GCC>GCA	p.A487A	MIER3_uc003jqz.1_Silent_p.A424A|MIER3_uc003jra.1_Silent_p.A486A|MIER3_uc003jrb.1_Silent_p.A311A|MIER3_uc003jrc.1_Silent_p.A492A	NM_152622	NP_689835	Q7Z3K6	MIER3_HUMAN	mesoderm induction early response 1, family	487					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Lung NSC(810;4.65e-05)|Prostate(74;0.0253)|Breast(144;0.0503)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;1.24e-37)		ATTCAGGGACGGCAATGCCCA	0.408													25	85					4.26978e-12	4.74409e-12	1	1	0		T	56219147	T	T	56219147	2	4	27	1	0	0	0	0	0	0	0	1	9600	1103	39	5		5	MIER3	5	56219147	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	812055	56219147	124696113	2633	24984											
MIER3	166968	broad.mit.edu	37	chr5	56231255	56231255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcaaaagctttccttacCtttctcattaccatcgtact	12	15	2	12	1	2	0	2	0	1	0	5	0	3	0	3	0	4	2	3	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:56231255C>T	uc003jrd.1	-	7	620	c.595G>A	c.(595-597)GTA>ATA	p.V199I	MIER3_uc003jqz.1_Missense_Mutation_p.V136I|MIER3_uc003jra.1_Missense_Mutation_p.V199I|MIER3_uc003jrb.1_Missense_Mutation_p.V23I|MIER3_uc003jrc.1_Missense_Mutation_p.V204I	NM_152622	NP_689835	Q7Z3K6	MIER3_HUMAN	mesoderm induction early response 1, family	199	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Lung NSC(810;4.65e-05)|Prostate(74;0.0253)|Breast(144;0.0503)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;1.24e-37)		CTTTCCTTACCTTTCTCATTA	0.338													25	96					0	0	1	0	0		T	56231255	T	T	56231255	3	4	27	1	0	0	0	0	1	0	0	0	9600	695	24	4	1082	4	MIER3	5	56231255	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12108	56231255	124684005	2634	24985											
PLK2	10769	broad.mit.edu	37	chr5	57751521	57751521	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgctctttgggaatgcaAtcagcttccggcatgttttc	7	14	10	10	1	2	0	1	0	1	0	4	1	3	1	1	2	4	6	1	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:57751521A>G	uc003jrn.2	-	11	1597	c.1470T>C	c.(1468-1470)GAT>GAC	p.D490D		NM_006622	NP_006613	Q9NYY3	PLK2_HUMAN	polo-like kinase 2	490					positive regulation of I-kappaB kinase/NF-kappaB cascade		ATP binding|protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|lung(1)|skin(1)	4		all_cancers(5;1.76e-12)|all_epithelial(5;2.09e-13)|all_lung(5;6.64e-05)|Lung NSC(5;0.000127)|Prostate(74;0.055)|Breast(144;0.0602)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;7.03e-37)		TGGGAATGCAATCAGCTTCCG	0.483													3	41					0	0	1	0	0		G	57751521	G	G	57751521	2	3	27	1	0	0	0	0	0	0	0	1	12115	98	4	3		3	PLK2	5	57751521	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1520266	57751521	123163739	2635	24986											
DEPDC1B	55789	broad.mit.edu	37	chr5	59943345	59943345	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggatatggtttcaggggTgaagaaggaggaaatctaaa	14	11	14	2	0	2	2	1	1	1	1	2	5	2	5	0	6	0	1	0	6	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:59943345T>C	uc003jsh.2	-	3	403	c.330A>G	c.(328-330)TCA>TCG	p.S110S	DEPDC1B_uc011cqm.1_Silent_p.S110S|DEPDC1B_uc011cqn.1_Silent_p.S83S	NM_018369	NP_060839	Q8WUY9	DEP1B_HUMAN	DEP domain containing 1B isoform 1	110					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)	1		Lung NSC(810;0.000214)|Prostate(74;0.0147)|Breast(144;0.0991)|Ovarian(174;0.17)				GTTTCAGGGGTGAAGAAGGAG	0.408													24	75					0	0	1	0	0		C	59943345	C	C	59943345	2	2	27	1	0	0	0	0	0	0	0	1	4446	1683	59	3		3	DEPDC1B	5	59943345	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2191824	59943345	120971915	2636	24987											
ERCC8	1161	broad.mit.edu	37	chr5	60195478	60195478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaacagcttgtgacttttTcccattatgttgatcaagag	10	16	7	8	0	2	3	2	2	0	1	3	3	3	3	1	0	2	2	1	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:60195478T>C	uc003jsm.3	-	8	764	c.694A>G	c.(694-696)AAA>GAA	p.K232E	ERCC8_uc003jsk.2_RNA|ERCC8_uc003jsl.3_Missense_Mutation_p.K174E|ERCC8_uc011cqp.1_Missense_Mutation_p.K79E	NM_000082	NP_000073	Q13216	ERCC8_HUMAN	excision repair cross-complementing rodent	232					positive regulation of DNA repair|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein polyubiquitination|response to oxidative stress|response to UV|response to UV|transcription-coupled nucleotide-excision repair	Cul4A-RING ubiquitin ligase complex|nuclear matrix|nucleoplasm|nucleotide-excision repair complex|soluble fraction	protein binding|protein complex binding				0		Lung NSC(810;1.51e-06)|Prostate(74;0.0322)|Ovarian(174;0.0481)|Breast(144;0.077)				TGTGACTTTTTCCCATTATGT	0.308								Direct_reversal_of_damage|NER					44	110					0	0	1	0	0		C	60195478	C	C	60195478	3	2	27	1	0	0	0	0	1	0	0	0	5227	1792	62	3	516	3	ERCC8	5	60195478	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	252133	60195478	120719782	2637	24988											
HTR1A	3350	broad.mit.edu	37	chr5	63256873	63256873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttgaccgtcttgcggatgCggaagcgcgcagctcggaat	7	10	14	10	6	1	1	0	1	1	0	2	4	1	4	1	3	4	2	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:63256873C>T	uc011cqt.1	-	1	674	c.674G>A	c.(673-675)CGC>CAC	p.R225H		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	225	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	CTTGCGGATGCGGAAGCGCGC	0.572													15	83					0	0	1	0	0		T	63256873	T	T	63256873	3	4	27	1	0	0	0	0	1	0	0	0	7452	768	27	1	597	1	HTR1A	5	63256873	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3061395	63256873	117658387	2638	24989											
HTR1A	3350	broad.mit.edu	37	chr5	63256991	63256991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccttgctaatggtgcatgCgtcggggtccgagcggtctt	5	12	14	10	4	1	0	0	0	1	0	4	1	3	0	2	4	4	2	2	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:63256991C>T	uc011cqt.1	-	1	556	c.556G>A	c.(556-558)GCA>ACA	p.A186T		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	186	Extracellular (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	ATGGTGCATGCGTCGGGGTCC	0.572													17	174					0	0	1	0	0		T	63256991	T	T	63256991	3	4	27	1	0	0	0	0	1	0	0	0	7452	768	27	1	715	1	HTR1A	5	63256991	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	118	63256991	117658269	2639	24990											
HTR1A	3350	broad.mit.edu	37	chr5	63257128	63257128	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcacgtagtcgatggggTccgtgatggcccagtacctg	6	11	14	10	3	1	1	1	1	0	0	3	2	2	1	3	3	1	3	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:63257128T>A	uc011cqt.1	-	1	419	c.419A>T	c.(418-420)GAC>GTC	p.D140V		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	140	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	GTCGATGGGGTCCGTGATGGC	0.617													4	47					0	0	1	0	0		A	63257128	A	A	63257128	3	1	27	1	0	0	0	0	1	0	0	0	7452	1667	58	5	852	5	HTR1A	5	63257128	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	137	63257128	117658132	2640	24991											
CENPK	64105	broad.mit.edu	37	chr5	64850721	64850721	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtactatccggatctagaTcctcctgattcattgatata	11	15	6	9	1	2	3	1	2	1	1	5	4	5	4	3	1	1	1	3	1	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:64850721T>C	uc003jts.2	-	3	226	c.14A>G	c.(13-15)GAT>GGT	p.D5G	CENPK_uc003jtt.2_5'UTR|CENPK_uc003jtu.2_Missense_Mutation_p.D5G	NM_022145	NP_071428	Q9BS16	CENPK_HUMAN	SoxLZ/Sox6 leucine zipper binding protein	5					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm					0		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00466)		CGGATCTAGATCCTCCTGATT	0.264													9	213					0	0	1	0	0		C	64850721	C	C	64850721	3	2	27	1	0	0	0	0	1	0	0	0	3238	1435	50	3	831	3	CENPK	5	64850721	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1593593	64850721	116064539	2641	24992											
PPWD1	23398	broad.mit.edu	37	chr5	64867672	64867672	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttacgattttagctatttTcctggacagtgtgagtggat	8	17	10	6	1	0	1	0	1	0	0	1	4	1	3	1	2	2	1	1	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:64867672T>C	uc003jtv.3	+	5	535	c.528T>C	c.(526-528)TTT>TTC	p.F176F	PPWD1_uc011cqv.1_Silent_p.F146F|PPWD1_uc011cqw.1_Silent_p.F20F	NM_015342	NP_056157	Q96BP3	PPWD1_HUMAN	peptidylprolyl isomerase domain and WD repeat	176					protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00451)		TTAGCTATTTTCCTGGACAGT	0.428													7	71					0	0	1	0	0		C	64867672	C	C	64867672	2	2	27	1	0	0	0	0	0	0	0	1	12436	1780	62	3		3	PPWD1	5	64867672	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	16951	64867672	116047588	2642	24993											
TRIM23	373	broad.mit.edu	37	chr5	64900754	64900754	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttacctttgtaaaagtgacaGggatgctggcatccaactga	12	11	10	8	0	0	2	0	2	0	0	1	3	1	3	2	2	3	3	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:64900754G>T	uc003jty.2	-	7	1249	c.1163C>A	c.(1162-1164)CCT>CAT	p.P388H	TRIM23_uc003jtw.2_Missense_Mutation_p.P388H|TRIM23_uc003jtx.2_Missense_Mutation_p.P388H	NM_001656	NP_001647	P36406	TRI23_HUMAN	ADP-ribosylation factor domain protein 1 isoform	388					interspecies interaction between organisms|small GTPase mediated signal transduction	Golgi membrane|lysosomal membrane	enzyme activator activity|GDP binding|GTP binding|GTPase activity|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Breast(144;0.0433)|Ovarian(174;0.0545)|Colorectal(97;0.234)		Lung(70;0.00473)		AAAAGTGACAGGGATGCTGGC	0.353													24	102					3.5997e-14	4.01733e-14	1	1	0		T	64900754	T	T	64900754	3	4	27	1	0	0	0	0	1	0	0	0	16523	1000	35	5	648	5	TRIM23	5	64900754	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	33082	64900754	116014506	2643	24994											
NLN	57486	broad.mit.edu	37	chr5	65077166	65077166	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattaccttaaaatatccacActatttccctgtcatgaaga	15	13	3	10	0	1	2	1	1	0	1	3	2	3	2	3	0	1	0	3	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:65077166A>G	uc003juf.2	+	6	856	c.740A>G	c.(739-741)CAC>CGC	p.H247R	NLN_uc003jue.2_Missense_Mutation_p.H247R|NLN_uc003jug.2_Missense_Mutation_p.H76R	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	247					proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)		AAATATCCACACTATTTCCCT	0.333													6	67					0	0	1	0	0		G	65077166	G	G	65077166	3	3	27	1	0	0	0	0	1	0	0	0	10486	159	6	3	762	3	NLN	5	65077166	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	176412	65077166	115838094	2644	24995											
SFRS12	140890	broad.mit.edu	37	chr5	65466667	65466667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaggacaaagaaaaggaacGagaaaaagacagatccaaag	24	1	10	6	1	0	4	0	0	0	4	1	7	1	6	1	2	1	0	1	2	7	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:65466667G>A	uc003juo.2	+	10	1688	c.1028G>A	c.(1027-1029)CGA>CAA	p.R343Q	SFRS12_uc003jun.2_Missense_Mutation_p.R459Q|SFRS12_uc010iwy.2_Missense_Mutation_p.R343Q	NM_139168	NP_631907	Q8WXA9	SREK1_HUMAN	splicing factor, arginine/serine-rich 12 isoform	343	Arg/Glu/Lys/Ser-rich.				mRNA processing|RNA splicing	spliceosomal complex	nucleic acid binding|nucleotide binding|protein binding				0		Lung NSC(167;9.34e-06)|Prostate(74;0.00187)|Ovarian(174;0.0545)|Breast(144;0.0928)|Colorectal(97;0.234)		Lung(70;0.00449)		gaaaaggaACGAGAAAAAGAC	0.199													9	34					0	0	1	0	0		A	65466667	A	A	65466667	3	1	27	1	0	0	0	0	1	0	0	0	14192	1058	37	1	1410	1	SFRS12	5	65466667	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	389501	65466667	115448593	2645	24996											
MAST4	375449	broad.mit.edu	37	chr5	66459236	66459236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggcaattccaagatcgCgcaagcctttcccagcaaga	12	7	9	13	2	0	2	0	0	0	2	3	2	2	2	3	1	2	3	3	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:66459236C>T	uc003jut.1	+	28	3730	c.3662C>T	c.(3661-3663)GCG>GTG	p.A1221V	MAST4_uc003juw.2_Missense_Mutation_p.A1149V|MAST4_uc003jux.2_5'Flank	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1413						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		TCCAAGATCGCGCAAGCCTTT	0.667													6	21					0	0	1	0	0		T	66459236	T	T	66459236	3	4	27	1	0	0	0	0	1	0	0	0	9345	768	27	1	4473	1	MAST4	5	66459236	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	992569	66459236	114456024	2646	24997											
PIK3R1	5295	broad.mit.edu	37	chr5	67593317	67593317	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccgagccctataacttgtAcagctctctgaaagaactgg	11	10	9	11	1	1	2	0	1	1	1	2	3	1	2	2	1	6	2	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:67593317A>G	uc003jva.2	+	16	2623	c.2063A>G	c.(2062-2064)TAC>TGC	p.Y688C	PIK3R1_uc003jvb.2_Missense_Mutation_p.Y688C|PIK3R1_uc003jvc.2_Missense_Mutation_p.Y388C|PIK3R1_uc003jvd.2_Missense_Mutation_p.Y418C|PIK3R1_uc003jve.2_Missense_Mutation_p.Y367C	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	688	SH2 2.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoproterenol(DB01064)	TATAACTTGTACAGCTCTCTG	0.473			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			24	208					0	0	1	0	0		G	67593317	G	G	67593317	3	3	27	1	0	0	0	0	1	0	0	0	11937	391	14	3	2251	3	PIK3R1	5	67593317	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1134081	67593317	113321943	2647	24998											
BDP1	55814	broad.mit.edu	37	chr5	70782320	70782320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttaaacagaggaaaagcGcccttttgacttcgattttt	11	15	7	8	2	1	2	0	1	1	1	2	4	1	3	1	1	2	0	1	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:70782320G>A	uc003kbp.1	+	9	1342	c.1079G>A	c.(1078-1080)CGC>CAC	p.R360H	BDP1_uc003kbn.1_Missense_Mutation_p.R360H|BDP1_uc003kbo.2_Missense_Mutation_p.R360H	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	360	Required for phosphorylation by CSNK2A1.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		GAGGAAAAGCGCCCTTTTGAC	0.303													15	87					0	0	1	0	0		A	70782320	A	A	70782320	3	1	27	1	0	0	0	0	1	0	0	0	1396	1087	38	1	1113	1	BDP1	5	70782320	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3189003	70782320	110132940	2648	24999											
BDP1	55814	broad.mit.edu	37	chr5	70809109	70809109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccaaacttagcaagagcaGctttgaagagagagactaca	18	6	9	8	0	0	4	0	1	0	3	0	6	0	4	1	0	6	3	1	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:70809109G>A	uc003kbp.1	+	19	4608	c.4345G>A	c.(4345-4347)GCT>ACT	p.A1449T	BDP1_uc003kbo.2_Missense_Mutation_p.A1449T	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1449					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AGCAAGAGCAGCTTTGAAGAG	0.358													12	107					0	0	1	0	0		A	70809109	A	A	70809109	3	1	27	1	0	0	0	0	1	0	0	0	1396	971	34	2	4419	2	BDP1	5	70809109	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26789	70809109	110106151	2649	25000											
BDP1	55814	broad.mit.edu	37	chr5	70818630	70818630	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggtttcagcaagaaaagaTtgtgtaggttccaaagagtc	14	10	12	5	0	1	3	1	0	0	3	3	4	2	3	1	2	1	4	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:70818630T>C	uc003kbp.1	+	24	5504	c.5241T>C	c.(5239-5241)GAT>GAC	p.D1747D	BDP1_uc003kbo.2_Silent_p.D1747D|BDP1_uc003kbq.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1747					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		CAAGAAAAGATTGTGTAGGTT	0.368													5	76					0	0	1	0	0		C	70818630	C	C	70818630	2	2	27	1	0	0	0	0	0	0	0	1	1396	1490	52	3		3	BDP1	5	70818630	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9521	70818630	110096630	2650	25001											
MAP1B	4131	broad.mit.edu	37	chr5	71495096	71495096	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccccccgaagtgagtggtTacagctatgaaaagactgag	12	7	12	10	1	0	4	0	3	0	1	0	5	0	4	3	1	2	2	3	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:71495096T>C	uc003kbw.3	+	5	6155	c.5914T>C	c.(5914-5916)TAC>CAC	p.Y1972H	MAP1B_uc010iyw.1_Missense_Mutation_p.Y1989H|MAP1B_uc010iyx.1_Missense_Mutation_p.Y1846H|MAP1B_uc010iyy.1_Missense_Mutation_p.Y1846H	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1972	MAP1B 6.					microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		AGTGAGTGGTTACAGCTATGA	0.498													12	133					0	0	1	0	0		C	71495096	C	C	71495096	3	2	27	1	0	0	0	0	1	0	0	0	9246	1754	61	3	5932	3	MAP1B	5	71495096	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	676466	71495096	109420164	2651	25002											
MRPS27	23107	broad.mit.edu	37	chr5	71521893	71521893	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaacataccgcttctctAcacagctttatgtcttctgg	10	13	7	11	1	3	1	0	0	3	1	4	2	3	1	1	1	4	2	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:71521893A>G	uc003kbz.3	-	9	864	c.828T>C	c.(826-828)TGT>TGC	p.C276C	MRPS27_uc003kca.3_Silent_p.C220C|MRPS27_uc011cse.1_Silent_p.C290C|MRPS27_uc011csd.1_Silent_p.C57C|MRPS27_uc010iyz.1_RNA	NM_015084	NP_055899	Q92552	RT27_HUMAN	mitochondrial ribosomal protein S27	276						mitochondrion|ribosome					0		Lung NSC(167;0.00237)|Ovarian(174;0.0175)|Prostate(461;0.141)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.46e-53)		CCGCTTCTCTACACAGCTTTA	0.453													3	60					0	0	1	0	0		G	71521893	G	G	71521893	2	3	27	1	0	0	0	0	0	0	0	1	9856	389	14	3		3	MRPS27	5	71521893	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26797	71521893	109393367	2652	25003											
ZNF366	167465	broad.mit.edu	37	chr5	71756528	71756528	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgtgggtgaccaggttgtActtggaggtgtaggacttct	7	13	16	5	0	1	1	0	1	1	0	1	4	1	3	1	5	1	3	1	5	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:71756528A>T	uc003kce.1	-	2	982	c.796T>A	c.(796-798)TAC>AAC	p.Y266N		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	266	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		ACCAGGTTGTACTTGGAGGTG	0.617													10	142					0	0	1	0	0		T	71756528	T	T	71756528	3	4	27	1	0	0	0	0	1	0	0	0	17895	391	14	5	1454	5	ZNF366	5	71756528	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	234635	71756528	109158732	2653	25004											
TNPO1	3842	broad.mit.edu	37	chr5	72173107	72173107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtggctttagaagcctGtgaattttggctaactttag	11	15	10	5	0	0	2	0	1	0	1	0	2	0	2	1	2	2	2	1	2	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:72173107G>A	uc003kck.3	+	9	1001	c.854G>A	c.(853-855)TGT>TAT	p.C285Y	TNPO1_uc011csi.1_RNA|TNPO1_uc011csj.1_Missense_Mutation_p.C235Y|TNPO1_uc003kch.2_Missense_Mutation_p.C277Y|TNPO1_uc003kci.3_Missense_Mutation_p.C277Y|TNPO1_uc003kcg.3_Missense_Mutation_p.C277Y	NM_002270	NP_002261	Q92973	TNPO1_HUMAN	transportin 1 isoform 1	285					interspecies interaction between organisms|mRNA metabolic process|protein import into nucleus, translocation	cytosol|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			skin(3)|urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)	7		Lung NSC(167;0.0053)|Ovarian(174;0.0175)		OV - Ovarian serous cystadenocarcinoma(47;6.14e-54)		TTAGAAGCCTGTGAATTTTGG	0.373													6	62					0	0	1	0	0		A	72173107	A	A	72173107	3	1	27	1	0	0	0	0	1	0	0	0	16360	1377	48	4	888	4	TNPO1	5	72173107	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	416579	72173107	108742153	2654	25005											
TNPO1	3842	broad.mit.edu	37	chr5	72183988	72183988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgataaaaaggctcttgtgCgttccataacatgctggact	11	12	9	9	1	1	1	0	1	1	0	2	2	2	2	1	2	3	3	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:72183988C>T	uc003kck.3	+	13	1534	c.1387C>T	c.(1387-1389)CGT>TGT	p.R463C	TNPO1_uc011csj.1_Missense_Mutation_p.R413C|TNPO1_uc003kch.2_Missense_Mutation_p.R455C|TNPO1_uc003kci.3_Missense_Mutation_p.R455C|TNPO1_uc003kcg.3_Missense_Mutation_p.R455C	NM_002270	NP_002261	Q92973	TNPO1_HUMAN	transportin 1 isoform 1	463	HEAT 5.				interspecies interaction between organisms|mRNA metabolic process|protein import into nucleus, translocation	cytosol|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			skin(3)|urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)	7		Lung NSC(167;0.0053)|Ovarian(174;0.0175)		OV - Ovarian serous cystadenocarcinoma(47;6.14e-54)		GGCTCTTGTGCGTTCCATAAC	0.463													9	145					0	0	1	0	0		T	72183988	T	T	72183988	3	4	27	1	0	0	0	0	1	0	0	0	16360	768	27	1	1437	1	TNPO1	5	72183988	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10881	72183988	108731272	2655	25006											
UTP15	84135	broad.mit.edu	37	chr5	72864245	72864245	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgtttttcatcttgtagAttcacatttatggccgatac	9	18	6	8	1	3	1	2	0	1	1	3	2	3	1	1	1	2	2	1	1	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:72864245A>T	uc003kcw.1	+	4	407	c.184A>T	c.(184-186)ATT>TTT	p.I62F	UTP15_uc011cso.1_Missense_Mutation_p.I43F|UTP15_uc011csp.1_5'UTR|UTP15_uc010ize.1_Missense_Mutation_p.I62F|ANKRA2_uc003kcu.1_5'Flank|ANKRA2_uc003kcv.2_5'Flank	NM_032175	NP_115551	Q8TED0	UTP15_HUMAN	UTP15, U3 small nucleolar ribonucleoprotein,	62	WD 1.				rRNA processing	cytoplasm|nucleolus					0		Lung NSC(167;0.00405)|Ovarian(174;0.0129)		OV - Ovarian serous cystadenocarcinoma(47;7.76e-55)		CATCTTGTAGATTCACATTTA	0.328													10	94					0	0	1	0	0		T	72864245	T	T	72864245	3	4	27	1	0	0	0	0	1	0	0	0	17123	347	12	5	194	5	UTP15	5	72864245	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	680257	72864245	108051015	2656	25007											
UTP15	84135	broad.mit.edu	37	chr5	72873772	72873772	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaggaatcacttcccaGaagaagaaggcctgcatatc	17	6	9	9	0	1	4	1	0	0	4	3	5	2	5	2	2	1	1	2	2	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:72873772G>T	uc003kcw.1	+	9	1209	c.986G>T	c.(985-987)AGA>ATA	p.R329I	UTP15_uc011cso.1_Missense_Mutation_p.R310I|UTP15_uc011csp.1_Missense_Mutation_p.R139I|UTP15_uc010ize.1_Missense_Mutation_p.R329I	NM_032175	NP_115551	Q8TED0	UTP15_HUMAN	UTP15, U3 small nucleolar ribonucleoprotein,	329					rRNA processing	cytoplasm|nucleolus					0		Lung NSC(167;0.00405)|Ovarian(174;0.0129)		OV - Ovarian serous cystadenocarcinoma(47;7.76e-55)		TCACTTCCCAGAAGAAGAAGG	0.353													7	64					0.00198382	0.00205548	1	1	0		T	72873772	T	T	72873772	3	4	27	1	0	0	0	0	1	0	0	0	17123	942	33	5	1016	5	UTP15	5	72873772	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9527	72873772	108041488	2657	25008											
HMGCR	3156	broad.mit.edu	37	chr5	74646159	74646159	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttttagaagaagaagaaaAtaagccgaatcctgtaactc	18	9	8	6	1	0	4	0	0	0	4	2	5	1	4	2	0	2	2	2	0	9	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:74646159A>T	uc003kdp.2	+	8	896	c.740A>T	c.(739-741)AAT>ATT	p.N247I	HMGCR_uc011cst.1_Missense_Mutation_p.N267I|HMGCR_uc003kdq.2_Missense_Mutation_p.N247I|HMGCR_uc010izn.1_Intron	NM_000859	NP_000850	P04035	HMDH_HUMAN	3-hydroxy-3-methylglutaryl-Coenzyme A reductase	247					cholesterol biosynthetic process|coenzyme A metabolic process|germ cell migration|gonad development|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal membrane	hydroxymethylglutaryl-CoA reductase (NADPH) activity|NADP binding			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;2.24e-54)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Cerivastatin(DB00439)|Fluvastatin(DB01095)|Lovastatin(DB00227)|NADH(DB00157)|Pravastatin(DB00175)|Rosuvastatin(DB01098)|Simvastatin(DB00641)	GAAGAAGAAAATAAGCCGAAT	0.403													6	49					0	0	1	0	0		T	74646159	T	T	74646159	3	4	27	1	0	0	0	0	1	0	0	0	7247	101	4	5	766	5	HMGCR	5	74646159	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1772387	74646159	106269101	2658	25009											
HMGCR	3156	broad.mit.edu	37	chr5	74650443	74650443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcgtggtgtatctattcGccgacagttactttccaaga	9	13	10	9	3	1	2	0	1	1	1	3	3	2	2	2	1	2	2	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:74650443G>A	uc003kdp.2	+	12	1640	c.1484G>A	c.(1483-1485)CGC>CAC	p.R495H	HMGCR_uc011cst.1_Missense_Mutation_p.R515H|HMGCR_uc003kdq.2_Missense_Mutation_p.R495H	NM_000859	NP_000850	P04035	HMDH_HUMAN	3-hydroxy-3-methylglutaryl-Coenzyme A reductase	495	Catalytic.				cholesterol biosynthetic process|coenzyme A metabolic process|germ cell migration|gonad development|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal membrane	hydroxymethylglutaryl-CoA reductase (NADPH) activity|NADP binding			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;2.24e-54)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Cerivastatin(DB00439)|Fluvastatin(DB01095)|Lovastatin(DB00227)|NADH(DB00157)|Pravastatin(DB00175)|Rosuvastatin(DB01098)|Simvastatin(DB00641)	GTATCTATTCGCCGACAGTTA	0.408													25	61					0	0	1	0	0		A	74650443	A	A	74650443	3	1	27	1	0	0	0	0	1	0	0	0	7247	1087	38	1	1526	1	HMGCR	5	74650443	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4284	74650443	106264817	2659	25010											
IQGAP2	10788	broad.mit.edu	37	chr5	75950035	75950035	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacctttcagattcagtcctGgttccgaatggcaactgcaa	11	11	8	11	1	2	1	2	0	0	1	4	2	4	1	3	2	3	3	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:75950035G>T	uc003kek.2	+	19	2411	c.2189G>T	c.(2188-2190)TGG>TTG	p.W730L	IQGAP2_uc010izv.2_Missense_Mutation_p.W283L|IQGAP2_uc011csv.1_Missense_Mutation_p.W226L|IQGAP2_uc003kel.2_Missense_Mutation_p.W226L	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	730	IQ 2.				small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		ATTCAGTCCTGGTTCCGAATG	0.343													5	61					0.248553	0.249545	1	1	0		T	75950035	T	T	75950035	3	4	27	1	0	0	0	0	1	0	0	0	7831	1357	47	5	2263	5	IQGAP2	5	75950035	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1299592	75950035	104965225	2660	25011											
IQGAP2	10788	broad.mit.edu	37	chr5	75954306	75954306	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctctgaaaacccaccattAacagtaattcgcaaatttgt	14	11	6	10	1	1	1	0	1	1	0	2	1	1	1	2	1	2	3	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:75954306A>G	uc003kek.2	+	21	2565	c.2343A>G	c.(2341-2343)TTA>TTG	p.L781L	IQGAP2_uc010izv.2_Silent_p.L334L|IQGAP2_uc011csv.1_Silent_p.L277L|IQGAP2_uc003kel.2_Silent_p.L277L	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	781					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		ACCCACCATTAACAGTAATTC	0.398													5	108					0	0	1	0	0		G	75954306	G	G	75954306	2	3	27	1	0	0	0	0	0	0	0	1	7831	359	13	3		3	IQGAP2	5	75954306	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4271	75954306	104960954	2661	25012											
IQGAP2	10788	broad.mit.edu	37	chr5	75991429	75991429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agaggaatcttcggacgttgGaacagactggacacgtgtca	12	8	13	8	3	2	2	1	0	1	2	3	6	2	6	0	4	1	1	0	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:75991429G>A	uc003kek.2	+	32	4366	c.4144G>A	c.(4144-4146)GAA>AAA	p.E1382K	IQGAP2_uc011csv.1_Missense_Mutation_p.E878K|IQGAP2_uc003kel.2_Missense_Mutation_p.E878K|IQGAP2_uc010izw.1_Missense_Mutation_p.E83K	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	1382					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		TCGGACGTTGGAACAGACTGG	0.388													4	65					0	0	1	0	0		A	75991429	A	A	75991429	3	1	27	1	0	0	0	0	1	0	0	0	7831	1175	41	4	4270	4	IQGAP2	5	75991429	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	37123	75991429	104923831	2662	25013											
F2R	2149	broad.mit.edu	37	chr5	76029054	76029054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaaacgtcctcctgattgCgcattactcattcctttctc	8	14	4	15	2	2	1	1	1	1	0	6	1	5	1	3	0	3	1	3	0	2	4	rs17849599		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:76029054C>T	uc003ken.3	+	2	1269	c.1004C>T	c.(1003-1005)GCG>GTG	p.A335V		NM_001992	NP_001983	P25116	PAR1_HUMAN	coagulation factor II receptor precursor	335	Extracellular (Potential).				activation of caspase activity|anatomical structure morphogenesis|connective tissue replacement involved in inflammatory response wound healing|negative regulation of cell proliferation|platelet activation|positive regulation of blood coagulation|positive regulation of cell migration|positive regulation of collagen biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of JAK-STAT cascade|positive regulation of MAPKKK cascade|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of transcription, DNA-dependent|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	caveola|extracellular region|Golgi apparatus|integral to plasma membrane|platelet dense tubular network	receptor binding|thrombin receptor activity			ovary(3)	3		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Prostate(461;0.00955)|Ovarian(174;0.0129)		all cancers(79;4.43e-43)	Streptokinase(DB00086)	CTCCTGATTGCGCATTACTCA	0.527													28	92					0	0	1	0	0		T	76029054	T	T	76029054	3	4	27	1	0	0	0	0	1	0	0	0	5351	768	27	1	1010	1	F2R	5	76029054	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37625	76029054	104886206	2663	25014											
PDE8B	8622	broad.mit.edu	37	chr5	76621393	76621393	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttgcaaaggaagatagTcagagcgatggcttctggtg	11	11	13	6	1	3	2	1	0	2	2	3	4	3	3	0	3	2	2	0	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:76621393T>C	uc003kfa.2	+	3	474	c.429T>C	c.(427-429)AGT>AGC	p.S143S	PDE8B_uc003kfb.2_Silent_p.S123S|PDE8B_uc003kfc.2_Silent_p.S143S|PDE8B_uc003kfd.2_Silent_p.S143S|PDE8B_uc003kfe.2_Silent_p.S143S	NM_003719	NP_003710	O95263	PDE8B_HUMAN	phosphodiesterase 8B isoform 1	143					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity				0		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)		AGGAAGATAGTCAGAGCGATG	0.423													5	158					0	0	1	0	0		C	76621393	C	C	76621393	2	2	27	1	0	0	0	0	0	0	0	1	11673	1664	58	3		3	PDE8B	5	76621393	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	592339	76621393	104293867	2664	25015											
AP3B1	8546	broad.mit.edu	37	chr5	77316593	77316593	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtggctgaatattaacaTtgaagcaatcatccttggta	13	12	9	7	0	1	2	1	2	0	0	2	2	2	2	1	3	2	3	1	3	6	5	rs139968311	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:77316593T>G	uc003kfj.2	-	25	3040	c.2915A>C	c.(2914-2916)AAT>ACT	p.N972T		NM_003664	NP_003655	O00203	AP3B1_HUMAN	adaptor-related protein complex 3, beta 1	972					endocytosis|melanosome organization	clathrin coated vesicle membrane|Golgi apparatus|membrane coat	protein phosphatase binding|protein transporter activity			central_nervous_system(1)	1		all_lung(232;0.000397)|Lung NSC(167;0.00106)|Ovarian(174;0.0105)|Prostate(461;0.215)		OV - Ovarian serous cystadenocarcinoma(54;8.23e-47)|Epithelial(54;2.74e-41)|all cancers(79;4.8e-36)		AATATTAACATTGAAGCAATC	0.343									Hermansky-Pudlak_syndrome				9	53					0	0	1	0	0		G	77316593	G	G	77316593	3	3	27	1	0	0	0	0	1	0	0	0	744	1493	52	5	381	5	AP3B1	5	77316593	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	695200	77316593	103598667	2665	25016											
DMGDH	29958	broad.mit.edu	37	chr5	78324268	78324268	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcttaccagtataagataTcctaatagcagtgacaggaa	17	10	7	7	0	1	2	0	1	1	1	2	3	2	3	2	1	2	2	2	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:78324268T>A	uc003kfs.2	-	12	2026	c.2020A>T	c.(2020-2022)ATA>TTA	p.I674L	DMGDH_uc011cte.1_Missense_Mutation_p.I524L|DMGDH_uc011ctf.1_Missense_Mutation_p.I473L|DMGDH_uc011ctg.1_Missense_Mutation_p.I294L	NM_013391	NP_037523	Q9UI17	M2GD_HUMAN	dimethylglycine dehydrogenase precursor	674					choline metabolic process|glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|dimethylglycine dehydrogenase activity|electron carrier activity			ovary(2)|liver(1)|skin(1)	4		all_lung(232;0.000638)|Lung NSC(167;0.00173)|Ovarian(174;0.0262)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;6.52e-45)|Epithelial(54;5.96e-40)|all cancers(79;3.56e-35)		GTATAAGATATCCTAATAGCA	0.323													9	55					0	0	1	0	0		A	78324268	A	A	78324268	3	1	27	1	0	0	0	0	1	0	0	0	4587	1435	50	5	600	5	DMGDH	5	78324268	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1007675	78324268	102590992	2666	25017											
BHMT2	23743	broad.mit.edu	37	chr5	78375267	78375267	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttttctgccagtgaggAcaatatggaaagcaaggtaa	14	10	10	7	0	1	1	0	1	1	0	1	3	1	3	2	3	3	2	2	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:78375267A>T	uc003kft.2	+	3	265	c.242A>T	c.(241-243)GAC>GTC	p.D81V	BHMT2_uc011cth.1_Missense_Mutation_p.D81V	NM_017614	NP_060084	Q9H2M3	BHMT2_HUMAN	betaine-homocysteine methyltransferase 2	81	Hcy-binding.				methionine biosynthetic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00063)|Lung NSC(167;0.00171)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;2.09e-45)|Epithelial(54;9.3e-41)|all cancers(79;4.09e-36)	L-Methionine(DB00134)	GCCAGTGAGGACAATATGGAA	0.408													4	44					0	0	1	0	0		T	78375267	T	T	78375267	3	4	27	1	0	0	0	0	1	0	0	0	1427	275	10	5	252	5	BHMT2	5	78375267	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	50999	78375267	102539993	2667	25018											
BHMT2	23743	broad.mit.edu	37	chr5	78376559	78376559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctcgccagggaagtggctgGcaaaggtgatgctttggtag	8	9	16	8	1	0	1	0	1	0	0	1	2	0	2	2	5	1	4	2	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:78376559G>A	uc003kft.2	+	4	331	c.308G>A	c.(307-309)GGC>GAC	p.G103D	BHMT2_uc011cth.1_Intron	NM_017614	NP_060084	Q9H2M3	BHMT2_HUMAN	betaine-homocysteine methyltransferase 2	103	Hcy-binding.				methionine biosynthetic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00063)|Lung NSC(167;0.00171)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;2.09e-45)|Epithelial(54;9.3e-41)|all cancers(79;4.09e-36)	L-Methionine(DB00134)	GAAGTGGCTGGCAAAGGTGAT	0.458													7	111					0	0	1	0	0		A	78376559	A	A	78376559	3	1	27	1	0	0	0	0	1	0	0	0	1427	1203	42	2	322	2	BHMT2	5	78376559	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1292	78376559	102538701	2668	25019											
CMYA5	202333	broad.mit.edu	37	chr5	79025398	79025398	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcatccattagtctagaGccagatttggacaatagtgg	12	11	11	7	0	1	2	0	0	1	2	2	4	2	3	2	2	2	1	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:79025398G>A	uc003kgc.2	+	2	882	c.810G>A	c.(808-810)GAG>GAA	p.E270E		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	270						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TTAGTCTAGAGCCAGATTTGG	0.353													17	69					0	0	1	0	0		A	79025398	A	A	79025398	2	1	27	1	0	0	0	0	0	0	0	1	3593	962	34	2		2	CMYA5	5	79025398	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	648839	79025398	101889862	2669	25020											
CMYA5	202333	broad.mit.edu	37	chr5	79025453	79025453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaacacgcaaattagtaGcccaaagcatagaggataaa	20	5	7	9	1	0	1	0	0	0	1	0	2	0	2	2	1	3	3	2	1	9	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:79025453G>A	uc003kgc.2	+	2	937	c.865G>A	c.(865-867)GCC>ACC	p.A289T		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	289						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CAAATTAGTAGCCCAAAGCAT	0.408													5	103					0	0	1	0	0		A	79025453	A	A	79025453	3	1	27	1	0	0	0	0	1	0	0	0	3593	971	34	2	871	2	CMYA5	5	79025453	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55	79025453	101889807	2670	25021											
CMYA5	202333	broad.mit.edu	37	chr5	79030209	79030209	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatttatgacaaccaagcCtgcggatgtcaaagaaacaa	17	8	7	9	1	2	2	2	1	0	1	2	3	2	3	2	1	4	0	2	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:79030209C>A	uc003kgc.2	+	2	5693	c.5621C>A	c.(5620-5622)CCT>CAT	p.P1874H		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1874						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		ACAACCAAGCCTGCGGATGTC	0.368													8	98					5.4927e-09	6.05217e-09	1	1	0		A	79030209	A	A	79030209	3	1	27	1	0	0	0	0	1	0	0	0	3593	681	24	5	5627	5	CMYA5	5	79030209	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4756	79030209	101885051	2671	25022											
CMYA5	202333	broad.mit.edu	37	chr5	79031080	79031080	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaccaaaggtggctaagccGgaccttcctgaggaaaaggg	13	5	13	10	1	0	1	0	1	0	0	1	3	1	3	4	5	2	1	4	5	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:79031080G>T	uc003kgc.2	+	2	6564	c.6492G>T	c.(6490-6492)CCG>CCT	p.P2164P		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2164						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TGGCTAAGCCGGACCTTCCTG	0.458													8	75					0.000157383	0.000166242	1	1	0		T	79031080	T	T	79031080	2	4	27	1	0	0	0	0	0	0	0	1	3593	1103	39	5		5	CMYA5	5	79031080	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	871	79031080	101884180	2672	25023											
CMYA5	202333	broad.mit.edu	37	chr5	79032520	79032520	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggctctttcttgtcgtgaTgaaatagagaaccactcttt	9	15	9	8	1	3	3	0	2	3	1	4	4	3	3	1	1	1	1	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:79032520T>C	uc003kgc.2	+	2	8004	c.7932T>C	c.(7930-7932)GAT>GAC	p.D2644D		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2644						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CTTGTCGTGATGAAATAGAGA	0.408													6	64					0	0	1	0	0		C	79032520	C	C	79032520	2	2	27	1	0	0	0	0	0	0	0	1	3593	1461	51	3		3	CMYA5	5	79032520	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1440	79032520	101882740	2673	25024											
CMYA5	202333	broad.mit.edu	37	chr5	79084905	79084905	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggacaagtgaacagagtgaAgctgctctcatctccaccag	12	7	11	11	0	2	3	1	2	2	1	4	4	2	4	2	1	3	2	2	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:79084905A>G	uc003kgc.2	+	10	11739	c.11667A>G	c.(11665-11667)GAA>GAG	p.E3889E		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3889	Fibronectin type-III 2.|B30.2/SPRY.					perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AACAGAGTGAAGCTGCTCTCA	0.453													9	256					0	0	1	0	0		G	79084905	G	G	79084905	2	3	27	1	0	0	0	0	0	0	0	1	3593	69	3	3		3	CMYA5	5	79084905	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	52385	79084905	101830355	2674	25025											
MSH3	4437	broad.mit.edu	37	chr5	80064662	80064662	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgattttttagagttggggAtaaaactgaattatttaaag	14	17	9	1	0	0	3	0	2	0	1	0	4	0	4	0	2	1	1	0	2	7	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:80064662A>G	uc003kgz.2	+	15	2346	c.2093A>G	c.(2092-2094)GAT>GGT	p.D698G		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	698					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		AGAGTTGGGGATAAAACTGAA	0.308								MMR					4	119					0	0	1	0	0		G	80064662	G	G	80064662	3	3	27	1	0	0	0	0	1	0	0	0	9889	333	12	3	2151	3	MSH3	5	80064662	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	979757	80064662	100850598	2675	25026											
RASGRF2	5924	broad.mit.edu	37	chr5	80381689	80381689	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgagcatgtggaaaggaaAagcctggagtttgccaaatc	14	8	12	7	0	0	1	0	1	0	0	1	4	0	4	2	3	3	2	2	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:80381689A>G	uc003kha.1	+	8	1230	c.1230A>G	c.(1228-1230)AAA>AAG	p.K410K	RASGRF2_uc011ctn.1_RNA|RASGRF2_uc003khb.1_Silent_p.K238K	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	410	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		TGGAAAGGAAAAGCCTGGAGT	0.458													18	129					0	0	1	0	0		G	80381689	G	G	80381689	2	3	27	1	0	0	0	0	0	0	0	1	13098	11	1	3		3	RASGRF2	5	80381689	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	317027	80381689	100533571	2676	25027											
RASGRF2	5924	broad.mit.edu	37	chr5	80521507	80521507	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttttcaggtcgcacagtActtgcttgacaaagacctta	10	15	7	9	1	1	2	1	1	0	1	2	2	1	2	1	1	2	3	1	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:80521507A>G	uc003kha.1	+	27	3632	c.3632A>G	c.(3631-3633)TAC>TGC	p.Y1211C	RNU5E_uc011cto.1_Intron|RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	1211	Ras-GEF.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		GTCGCACAGTACTTGCTTGAC	0.428													10	25					0	0	1	0	0		G	80521507	G	G	80521507	3	3	27	1	0	0	0	0	1	0	0	0	13098	391	14	3	3738	3	RASGRF2	5	80521507	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	139818	80521507	100393753	2677	25028											
CKMT2	1160	broad.mit.edu	37	chr5	80559317	80559317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctttgtcctaggacccacGcttttctaagatcctggaaa	9	12	7	13	1	1	1	0	0	1	1	3	3	3	3	4	2	0	1	4	2	3	5	rs148114477		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:80559317G>A	uc003khc.3	+	10	1264	c.1022G>A	c.(1021-1023)CGC>CAC	p.R341H	RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Missense_Mutation_p.R341H|CKMT2_uc003khd.3_Missense_Mutation_p.R341H|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816	P17540	KCRS_HUMAN	sarcomeric mitochondrial creatine kinase	341	Phosphagen kinase C-terminal.				creatine metabolic process|muscle contraction	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;2.29e-44)|Epithelial(54;1.05e-38)|all cancers(79;4.15e-34)	Creatine(DB00148)	TAGGACCCACGCTTTTCTAAG	0.438													29	65					0	0	1	0	0		A	80559317	A	A	80559317	3	1	27	1	0	0	0	0	1	0	0	0	3454	1087	38	1	1052	1	CKMT2	5	80559317	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	37810	80559317	100355943	2678	25029											
ACOT12	134526	broad.mit.edu	37	chr5	80626717	80626717	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgtggagacggggggacCgatggcaaaatgaccgactt	11	7	15	8	3	0	2	0	1	0	1	0	6	0	3	2	5	1	1	2	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:80626717C>T	uc003khl.3	-	14	1489	c.1434G>A	c.(1432-1434)TCG>TCA	p.S478S	RNU5E_uc011cto.1_Intron	NM_130767	NP_570123	Q8WYK0	ACO12_HUMAN	acyl-CoA thioesterase 12	478	START.				acyl-CoA metabolic process|fatty acid metabolic process	cytosol	acetyl-CoA hydrolase activity|carboxylesterase activity			ovary(1)|kidney(1)	2		Lung NSC(167;0.0176)|all_lung(232;0.0205)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;1.37e-45)|Epithelial(54;1.25e-39)|all cancers(79;5.01e-34)		ACGGGGGGACCGATGGCAAAA	0.398													5	43					0	0	1	0	0		T	80626717	T	T	80626717	2	4	27	1	0	0	0	0	0	0	0	1	150	639	23	1		1	ACOT12	5	80626717	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	67400	80626717	100288543	2679	25030											
ATG10	83734	broad.mit.edu	37	chr5	81474333	81474333	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacctttaactctgaaggAcatatgggaaggagttcatg	13	10	12	6	0	2	2	1	1	1	1	2	6	2	5	1	3	1	1	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:81474333A>G	uc003khs.2	+	6	809	c.380A>G	c.(379-381)GAC>GGC	p.D127G	ATG10_uc003khr.2_Missense_Mutation_p.D127G|ATG10_uc010jas.2_Missense_Mutation_p.D91G	NM_001131028	NP_001124500	Q9H0Y0	ATG10_HUMAN	APG10 autophagy 10-like	127					autophagy in response to ER overload|positive regulation of protein modification process|protein lipidation|protein modification by small protein conjugation|protein transport	cytoplasm	Atg12 ligase activity|protein binding				0		Lung NSC(167;0.0258)|all_lung(232;0.0294)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;9.94e-41)|Epithelial(54;6.3e-36)|all cancers(79;2.31e-30)		ACTCTGAAGGACATATGGGAA	0.418													14	112					0	0	1	0	0		G	81474333	G	G	81474333	3	3	27	1	0	0	0	0	1	0	0	0	1090	275	10	3	394	3	ATG10	5	81474333	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	847616	81474333	99440927	2680	25031											
ATP6AP1L	92270	broad.mit.edu	37	chr5	81614007	81614007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatcgcctctcctgcccActtctcgcagctgaaagctc	6	11	6	18	2	3	1	1	1	3	0	8	1	3	1	3	0	3	3	3	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:81614007A>G	uc003khv.2	+	10	1888	c.563A>G	c.(562-564)CAC>CGC	p.H188R	ATP6AP1L_uc003khw.2_Missense_Mutation_p.H188R	NM_001017971	NP_001017971	Q52LC2	VAS1L_HUMAN	ATPase, H+ transporting, lysosomal accessory	188					ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						TCTCCTGCCCACTTCTCGCAG	0.537													3	70					0	0	1	0	0		G	81614007	G	G	81614007	3	3	27	1	0	0	0	0	1	0	0	0	1167	159	6	3	577	3	ATP6AP1L	5	81614007	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	139674	81614007	99301253	2681	25032											
XRCC4	7518	broad.mit.edu	37	chr5	82400807	82400807	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcattttctacaagtatcTtgggagaaaacactggaatc	14	12	7	8	0	3	1	1	0	2	1	4	3	3	2	0	2	2	1	0	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:82400807T>C	uc003kib.2	+	2	197	c.69T>C	c.(67-69)TCT>TCC	p.S23S	XRCC4_uc003kia.1_Silent_p.S23S|XRCC4_uc003kid.2_Silent_p.S23S|XRCC4_uc003kic.2_Silent_p.S23S|XRCC4_uc003kie.2_Silent_p.S23S|XRCC4_uc003kif.1_Silent_p.S23S	NM_022406	NP_071801	Q13426	XRCC4_HUMAN	X-ray repair cross complementing protein 4	23					DNA ligation involved in DNA repair|double-strand break repair via nonhomologous end joining|initiation of viral infection|positive regulation of ligase activity|provirus integration|response to X-ray	cytosol|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|nucleoplasm	DNA binding|protein C-terminus binding			skin(3)	3		Lung NSC(167;0.00132)|all_lung(232;0.00154)|Ovarian(174;0.034)		OV - Ovarian serous cystadenocarcinoma(54;1.44e-38)|Epithelial(54;3.72e-33)|all cancers(79;9.22e-28)		TACAAGTATCTTGGGAGAAAA	0.338								NHEJ					10	105					0	0	1	0	0		C	82400807	C	C	82400807	2	2	27	1	0	0	0	0	0	0	0	1	17481	1596	56	3		3	XRCC4	5	82400807	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	786800	82400807	98514453	2682	25033											
XRCC4	7518	broad.mit.edu	37	chr5	82491701	82491701	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcaagccaaaaatgagcAcctgcagaaagaaaatgaaa	23	4	7	7	0	1	4	1	2	0	2	1	4	1	4	2	0	3	2	2	0	8	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:82491701A>G	uc003kib.2	+	4	556	c.428A>G	c.(427-429)CAC>CGC	p.H143R	XRCC4_uc003kia.1_Missense_Mutation_p.H143R|XRCC4_uc003kid.2_Missense_Mutation_p.H143R|XRCC4_uc003kic.2_Missense_Mutation_p.H143R|XRCC4_uc003kie.2_Missense_Mutation_p.H143R|XRCC4_uc003kif.1_Missense_Mutation_p.H143R	NM_022406	NP_071801	Q13426	XRCC4_HUMAN	X-ray repair cross complementing protein 4	143	Potential.				DNA ligation involved in DNA repair|double-strand break repair via nonhomologous end joining|initiation of viral infection|positive regulation of ligase activity|provirus integration|response to X-ray	cytosol|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|nucleoplasm	DNA binding|protein C-terminus binding			skin(3)	3		Lung NSC(167;0.00132)|all_lung(232;0.00154)|Ovarian(174;0.034)		OV - Ovarian serous cystadenocarcinoma(54;1.44e-38)|Epithelial(54;3.72e-33)|all cancers(79;9.22e-28)		AAAAATGAGCACCTGCAGAAA	0.398								NHEJ					6	53					0	0	1	0	0		G	82491701	G	G	82491701	3	3	27	1	0	0	0	0	1	0	0	0	17481	159	6	3	438	3	XRCC4	5	82491701	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	90894	82491701	98423559	2683	25034											
VCAN	1462	broad.mit.edu	37	chr5	82779373	82779373	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagagcatcttatggatgtgTtcaaccttaatagtaaccca	14	12	7	8	0	2	1	1	0	1	1	2	2	2	2	2	1	3	3	2	1	6	5	rs113090098		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:82779373T>A	uc003kii.3	+	2	392	c.36T>A	c.(34-36)TGT>TGA	p.C12*	VCAN_uc003kij.3_Nonsense_Mutation_p.C12*|VCAN_uc010jau.2_Nonsense_Mutation_p.C12*|VCAN_uc003kik.3_Nonsense_Mutation_p.C12*|VCAN_uc003kih.3_Nonsense_Mutation_p.C12*	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	12					cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TATGGATGTGTTCAACCTTAA	0.338													14	49					0	0	1	0	0		A	82779373	A	A	82779373	4	1	27	1	0	0	0	0	0	1	0	0	17164	1731	60	5	38	5	VCAN	5	82779373	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	287672	82779373	98135887	2684	25035											
VCAN	1462	broad.mit.edu	37	chr5	82815597	82815597	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatcggttacacagattgAacaaatagaagtgggtcctt	15	10	10	6	1	0	4	0	1	0	3	2	4	1	4	1	2	2	1	1	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:82815597A>G	uc003kii.3	+	7	1828	c.1472A>G	c.(1471-1473)GAA>GGA	p.E491G	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.E491G|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	491	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ACACAGATTGAACAAATAGAA	0.418													4	93					0	0	1	0	0		G	82815597	G	G	82815597	3	3	27	1	0	0	0	0	1	0	0	0	17164	246	9	3	1494	3	VCAN	5	82815597	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	36224	82815597	98099663	2685	25036											
RASA1	5921	broad.mit.edu	37	chr5	86659208	86659208	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatattttatcttagagggTagtgatgcccaacttattta	11	18	7	5	0	1	2	0	1	1	1	1	2	1	2	1	1	2	1	1	1	8	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:86659208T>C	uc003kiw.2	+	11	1615	c.1497T>C	c.(1495-1497)GGT>GGC	p.G499G	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Silent_p.G322G|RASA1_uc011ctv.1_Silent_p.G332G|RASA1_uc011ctw.1_Silent_p.G333G|RASA1_uc010jaw.2_Silent_p.G321G	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	499	PH.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		TCTTAGAGGGTAGTGATGCCC	0.308													5	93					0	0	1	0	0		C	86659208	C	C	86659208	2	2	27	1	0	0	0	0	0	0	0	1	13085	1625	57	3		3	RASA1	5	86659208	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3843611	86659208	94256052	2686	25037											
TMEM161B	153396	broad.mit.edu	37	chr5	87494828	87494828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccgtgcttattcgccccgCttctttcttcatctgatcca	6	15	5	15	3	4	1	1	1	3	0	6	1	5	1	4	0	2	2	4	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:87494828C>T	uc003kjc.2	-	10	1179	c.1054G>A	c.(1054-1056)GCG>ACG	p.A352T	TMEM161B_uc011cty.1_Missense_Mutation_p.A341T|TMEM161B_uc010jax.2_RNA|TMEM161B_uc011ctx.1_Missense_Mutation_p.A143T	NM_153354	NP_699185	Q8NDZ6	T161B_HUMAN	transmembrane protein 161B	352						integral to membrane				skin(2)	2		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)		ATTCGCCCCGCTTCTTTCTTC	0.378													7	59					0	0	1	0	0		T	87494828	T	T	87494828	3	4	27	1	0	0	0	0	1	0	0	0	16102	797	28	2	421	2	TMEM161B	5	87494828	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	835620	87494828	93420432	2687	25038											
MEF2C	4208	broad.mit.edu	37	chr5	88027692	88027692	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaccagcagacctggtgAgtttcggggattgccatacc	9	9	13	10	1	0	3	0	2	0	2	1	5	0	4	4	3	3	2	4	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:88027692A>G	uc003kjj.2	-	7	1337	c.664T>C	c.(664-666)TCA>CCA	p.S222P	MEF2C_uc003kji.2_Missense_Mutation_p.S222P|MEF2C_uc003kjk.2_Missense_Mutation_p.S222P|MEF2C_uc003kjm.2_Missense_Mutation_p.S220P|MEF2C_uc003kjl.2_Missense_Mutation_p.S240P	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	222					apoptosis|B cell proliferation|innate immune response|learning or memory|muscle cell differentiation|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|neuron development|positive regulation of muscle cell differentiation|positive regulation of survival gene product expression|positive regulation of transcription from RNA polymerase II promoter|regulation of germinal center formation|regulation of megakaryocyte differentiation|regulation of synaptic activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nuclear speck	activating transcription factor binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(3)|breast(2)|ovary(1)|large_intestine(1)	7		all_cancers(142;6.67e-05)|all_epithelial(76;7.77e-07)|Lung NSC(167;0.00566)|all_lung(232;0.00732)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;1.04e-33)|Epithelial(54;1.6e-28)|all cancers(79;2.9e-25)		AGACCTGGTGAGTTTCGGGGA	0.403										HNSCC(66;0.2)			4	53					0	0	1	0	0		G	88027692	G	G	88027692	3	3	27	1	0	0	0	0	1	0	0	0	9475	304	11	3	777	3	MEF2C	5	88027692	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	532864	88027692	92887568	2688	25039											
GPR98	84059	broad.mit.edu	37	chr5	89923354	89923354	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaacacaactgttgttttTccaccttttattcatgaatc	11	16	3	11	0	1	1	1	1	0	0	3	1	2	1	3	0	2	2	3	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:89923354T>C	uc003kju.2	+	7	1095	c.999T>C	c.(997-999)TTT>TTC	p.F333F	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	333	Calx-beta 3.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CTGTTGTTTTTCCACCTTTTA	0.378													12	145					0	0	1	0	0		C	89923354	C	C	89923354	2	2	27	1	0	0	0	0	0	0	0	1	6737	1780	62	3		3	GPR98	5	89923354	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1895662	89923354	90991906	2689	25040											
GPR98	84059	broad.mit.edu	37	chr5	89940532	89940532	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttcacagctgtttatgAtgtagtaagaaatcgaggca	13	12	9	7	1	1	2	1	1	0	1	2	3	1	2	1	1	1	5	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:89940532A>G	uc003kju.2	+	15	2840	c.2744A>G	c.(2743-2745)GAT>GGT	p.D915G	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	915	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GCTGTTTATGATGTAGTAAGA	0.328													10	200					0	0	1	0	0		G	89940532	G	G	89940532	3	3	27	1	0	0	0	0	1	0	0	0	6737	333	12	3	2802	3	GPR98	5	89940532	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17178	89940532	90974728	2690	25041											
GPR98	84059	broad.mit.edu	37	chr5	90052421	90052421	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaaaatgacgatcccagaGgaatttttatgtttcatgtt	14	14	8	5	1	1	3	1	1	0	2	2	5	2	4	1	1	0	2	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:90052421G>T	uc003kju.2	+	56	11827	c.11731G>T	c.(11731-11733)GGA>TGA	p.G3911*	GPR98_uc003kjt.2_Nonsense_Mutation_p.G1617*|GPR98_uc003kjv.2_Nonsense_Mutation_p.G1511*	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3911	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CGATCCCAGAGGAATTTTTAT	0.423													8	55					0.000157383	0.000166242	1	1	0		T	90052421	T	T	90052421	4	4	27	1	0	0	0	0	0	1	0	0	6737	1001	35	5	11953	5	GPR98	5	90052421	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	111889	90052421	90862839	2691	25042											
NR2F1	7025	broad.mit.edu	37	chr5	92923678	92923678	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatccaggccagtacgcactCaccaacggggaccccctcaa	12	4	8	17	2	2	0	2	0	0	0	3	1	3	1	5	3	2	2	5	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:92923678C>T	uc003kkj.2	+	2	2206	c.519C>T	c.(517-519)CTC>CTT	p.L173L		NM_005654	NP_005645	P10589	COT1_HUMAN	nuclear receptor subfamily 2, group F, member 1	173					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			urinary_tract(1)|ovary(1)|lung(1)	3		all_cancers(142;1.62e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0416)|all cancers(79;9.57e-18)		AGTACGCACTCACCAACGGGG	0.612													4	63					0	0	1	0	0		T	92923678	T	T	92923678	2	4	27	1	0	0	0	0	0	0	0	1	10646	813	29	4		4	NR2F1	5	92923678	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2871257	92923678	87991582	2692	25043											
ANKRD32	84250	broad.mit.edu	37	chr5	94030751	94030751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaatttttgttcaatttttGatttatcttcagagttcatt	10	23	4	4	0	4	2	3	1	1	1	4	2	4	2	0	0	0	2	0	0	4	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:94030751G>A	uc003kkr.3	+	21	2991	c.2911G>A	c.(2911-2913)GAT>AAT	p.D971N	ANKRD32_uc003kks.2_Missense_Mutation_p.D335N	NM_032290	NP_115666	Q9BQI6	ANR32_HUMAN	ankyrin repeat domain 32	971										ovary(2)	2		all_cancers(142;1.51e-09)|all_epithelial(76;4.68e-12)|all_lung(232;5.94e-05)|Ovarian(174;0.000953)|Lung NSC(167;0.00105)|Colorectal(57;0.122)|Lung SC(612;0.152)		all cancers(79;3.88e-18)		TTCAATTTTTGATTTATCTTC	0.333													6	40					0	0	1	0	0		A	94030751	A	A	94030751	3	1	27	1	0	0	0	0	1	0	0	0	660	1290	45	4	2989	4	ANKRD32	5	94030751	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1107073	94030751	86884509	2693	25044											
FAM81B	153643	broad.mit.edu	37	chr5	94731831	94731831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttaggtaagattatctccagCcaaaatgtcaaccaagaatt	16	11	6	8	0	2	2	1	0	1	2	3	2	2	2	3	1	2	1	3	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:94731831C>T	uc003kla.1	+	3	291	c.245C>T	c.(244-246)GCC>GTC	p.A82V	FAM81B_uc010jbe.1_5'UTR	NM_152548	NP_689761	Q96LP2	FA81B_HUMAN	hypothetical protein LOC153643	82										ovary(1)|skin(1)	2		all_cancers(142;1.1e-06)|all_epithelial(76;1.48e-09)|all_lung(232;0.000696)|Lung NSC(167;0.000947)|Ovarian(225;0.00473)		all cancers(79;1.04e-16)		TTATCTCCAGCCAAAATGTCA	0.294													16	84					0	0	1	0	0		T	94731831	T	T	94731831	3	4	27	1	0	0	0	0	1	0	0	0	5643	739	26	2	255	2	FAM81B	5	94731831	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	701080	94731831	86183429	2694	25045											
TTC37	9652	broad.mit.edu	37	chr5	94826671	94826671	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatcctctttggctgagtgTtgttcactaaggccagttta	7	16	9	9	0	2	1	1	1	1	0	3	1	3	1	2	2	0	4	2	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:94826671T>C	uc003klb.2	-	37	4142	c.3872A>G	c.(3871-3873)AAC>AGC	p.N1291S		NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	1291							binding			ovary(3)|pancreas(1)	4						TGGCTGAGTGTTGTTCACTAA	0.398													5	31					0	0	1	0	0		C	94826671	C	C	94826671	3	2	27	1	0	0	0	0	1	0	0	0	16731	1725	60	3	850	3	TTC37	5	94826671	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	94840	94826671	86088589	2695	25046											
TTC37	9652	broad.mit.edu	37	chr5	94849321	94849321	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagagatccatggtgtcaTaacttccaactgcctcagca	12	10	8	11	0	2	2	2	1	0	1	4	3	4	2	3	1	4	1	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:94849321T>A	uc003klb.2	-	27	3002	c.2732A>T	c.(2731-2733)TAT>TTT	p.Y911F		NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	911							binding			ovary(3)|pancreas(1)	4						CATGGTGTCATAACTTCCAAC	0.328													12	110					0	0	1	0	0		A	94849321	A	A	94849321	3	1	27	1	0	0	0	0	1	0	0	0	16731	1406	49	5	2030	5	TTC37	5	94849321	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	22650	94849321	86065939	2696	25047											
TTC37	9652	broad.mit.edu	37	chr5	94857846	94857846	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttgcctaggatttgctgTattgctgcaaccttaaacac	10	15	7	9	0	0	0	0	0	0	0	0	1	0	1	2	1	6	4	2	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:94857846T>C	uc003klb.2	-	19	2193	c.1923A>G	c.(1921-1923)ATA>ATG	p.I641M	TTC37_uc010jbf.1_Missense_Mutation_p.I593M	NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	641	TPR 11.						binding			ovary(3)|pancreas(1)	4						GGATTTGCTGTATTGCTGCAA	0.388													7	117					0	0	1	0	0		C	94857846	C	C	94857846	3	2	27	1	0	0	0	0	1	0	0	0	16731	1628	57	3	2871	3	TTC37	5	94857846	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8525	94857846	86057414	2697	25048											
SPATA9	83890	broad.mit.edu	37	chr5	94994504	94994504	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacataggctccgaaagcacAggctcagaaaaggcttttct	14	8	9	10	1	2	1	1	0	1	1	3	2	3	1	1	3	2	4	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:94994504A>C	uc003klj.1	-	5	744	c.588T>G	c.(586-588)CCT>CCG	p.P196P	SPATA9_uc010jbh.1_RNA|SPATA9_uc003klh.1_RNA|SPATA9_uc003kli.1_RNA	NM_031952	NP_114158	Q9BWV2	SPAT9_HUMAN	spermatogenesis associated 9	196					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane					0		all_cancers(142;1.28e-06)|all_epithelial(76;1.55e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.00473)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.91e-16)		CCGAAAGCACAGGCTCAGAAA	0.428													6	52					0	0	1	0	0		C	94994504	C	C	94994504	2	2	27	1	0	0	0	0	0	0	0	1	15041	175	7	5		5	SPATA9	5	94994504	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	136658	94994504	85920756	2698	25049											
ELL2	22936	broad.mit.edu	37	chr5	95249552	95249552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcctgggtcattctttctCgtgtcatctgatacgagtcg	5	15	10	11	3	5	1	2	1	3	0	7	2	5	1	1	1	2	0	1	1	1	3	rs146144447		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:95249552C>T	uc003klr.3	-	4	754	c.404G>A	c.(403-405)CGA>CAA	p.R135Q		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	135					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		CATTCTTTCTCGTGTCATCTG	0.448													26	127					0	0	1	0	0		T	95249552	T	T	95249552	3	4	27	1	0	0	0	0	1	0	0	0	5071	884	31	1	1554	1	ELL2	5	95249552	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	255048	95249552	85665708	2699	25050											
PCSK1	5122	broad.mit.edu	37	chr5	95746500	95746500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttctctggtcggtgtaatctCcgctgctgtaagaggtggcc	5	13	13	10	2	2	1	0	0	2	1	5	1	2	1	2	4	1	4	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:95746500C>T	uc003kls.1	-	8	1279	c.1073G>A	c.(1072-1074)GGA>GAA	p.G358E	PCSK1_uc010jbi.1_Intron	NM_000439	NP_000430	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	358	Catalytic.				cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity			ovary(2)	2		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GGTGTAATCTCCGCTGCTGTA	0.517													14	185					0	0	1	0	0		T	95746500	T	T	95746500	3	4	27	1	0	0	0	0	1	0	0	0	11619	855	30	4	1216	4	PCSK1	5	95746500	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	496948	95746500	85168760	2700	25051											
ERAP1	51752	broad.mit.edu	37	chr5	96139196	96139196	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catagtgaatgacaactgtgTacgggagcccgacaaggagg	13	6	14	8	2	0	2	0	2	0	0	0	5	0	4	1	3	3	1	1	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:96139196T>C	uc003kmm.2	-	2	781	c.434A>G	c.(433-435)TAC>TGC	p.Y145C	ERAP1_uc003kml.2_Missense_Mutation_p.Y145C|ERAP1_uc010jbm.1_Intron|ERAP1_uc003kmn.2_Missense_Mutation_p.Y145C	NM_001040458	NP_001035548	Q9NZ08	ERAP1_HUMAN	type 1 tumor necrosis factor receptor shedding	145	Lumenal (Potential).				angiogenesis|antigen processing and presentation of endogenous peptide antigen via MHC class I|fat cell differentiation|membrane protein ectodomain proteolysis|regulation of blood pressure|regulation of innate immune response|response to bacterium	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|integral to membrane	aminopeptidase activity|interleukin-1, Type II receptor binding|interleukin-6 receptor binding|metalloexopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		all_cancers(142;1.75e-06)|all_epithelial(76;3.08e-09)|all_lung(232;0.000435)|Lung NSC(167;0.000601)|Ovarian(225;0.024)|Colorectal(57;0.0432)|Breast(839;0.244)		all cancers(79;7.26e-15)|COAD - Colon adenocarcinoma(37;0.071)		GACAACTGTGTACGGGAGCCC	0.527													10	102					0	0	1	0	0		C	96139196	C	C	96139196	3	2	27	1	0	0	0	0	1	0	0	0	5211	1638	57	3	2496	3	ERAP1	5	96139196	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	392696	96139196	84776064	2701	25052											
ERAP2	64167	broad.mit.edu	37	chr5	96251474	96251474	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaaggataagttgcaagagGtttgtgactttctgttttta	10	16	10	5	0	1	2	0	1	1	1	1	3	1	3	1	2	1	4	1	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:96251474G>A	uc003kmq.2	+	18	3449	c.2739_splice	c.e18+1	p.E913_splice	uc003kmo.1_Intron|ERAP2_uc003kmt.2_Splice_Site_p.E913_splice|ERAP2_uc003kmr.2_Splice_Site|ERAP2_uc003kms.2_Splice_Site_p.E862_splice|ERAP2_uc003kmu.2_Splice_Site	NM_022350	NP_071745	Q6P179	ERAP2_HUMAN	endoplasmic reticulum aminopeptidase 2						antigen processing and presentation of endogenous peptide antigen via MHC class I|proteolysis|regulation of blood pressure	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding				0		all_cancers(142;0.000311)|all_epithelial(76;1.54e-06)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0596)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0703)		GTTGCAAGAGGTTTGTGACTT	0.249													8	117					0	0	1	0	0		A	96251474	A	A	96251474	5	1	27	1	0	0	0	0	0	0	1	0	5212	1275	44	4	2806	4	ERAP2	5	96251474	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	112278	96251474	84663786	2702	25053											
RGMB	285704	broad.mit.edu	37	chr5	98129124	98129124	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcatcgatgacgggcagggCcaggtgtctgccatcctggg	6	7	16	12	3	1	1	0	1	1	0	3	2	2	1	3	4	1	2	3	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:98129124C>T	uc003knc.2	+	5	1506	c.1104C>T	c.(1102-1104)GGC>GGT	p.G368G		NM_001012761	NP_001012779	Q6NW40	RGMB_HUMAN	RGM domain family, member B	327					axon guidance|BMP signaling pathway|cell adhesion|positive regulation of transcription, DNA-dependent	anchored to plasma membrane|ER-Golgi intermediate compartment|membrane raft	identical protein binding				0		all_cancers(142;2.76e-08)|all_epithelial(76;2.98e-11)|all_lung(232;0.000485)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0587)		ACGGGCAGGGCCAGGTGTCTG	0.622													3	6					0	0	1	0	0		T	98129124	T	T	98129124	2	4	27	1	0	0	0	0	0	0	0	1	13306	726	26	2		2	RGMB	5	98129124	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1877650	98129124	82786136	2703	25054											
CHD1	1105	broad.mit.edu	37	chr5	98194704	98194704	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaggattcaagttgctgtTttgatcactgttttgctaaa	9	17	10	5	0	2	2	2	2	0	0	2	3	2	3	0	1	2	5	0	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:98194704T>C	uc003knf.2	-	33	4688	c.4540A>G	c.(4540-4542)AAC>GAC	p.N1514D	CHD1_uc010jbn.2_Missense_Mutation_p.N240D	NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	1514					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	AAGTTGCTGTTTTGATCACTG	0.274													3	45					0	0	1	0	0		C	98194704	C	C	98194704	3	2	27	1	0	0	0	0	1	0	0	0	3326	1841	64	3	604	3	CHD1	5	98194704	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	65580	98194704	82720556	2704	25055											
SLCO4C1	353189	broad.mit.edu	37	chr5	101606335	101606335	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagtaaacttacctatataGagagaagacttgtgtgtggg	14	11	12	4	0	0	4	0	0	0	4	0	5	0	4	1	1	2	1	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:101606335G>A	uc003knm.2	-	3	1082	c.795C>T	c.(793-795)CTC>CTT	p.L265L		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	265	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		TACCTATATAGAGAGAAGACT	0.373													18	57					0	0	1	0	0		A	101606335	A	A	101606335	2	1	27	1	0	0	0	0	0	0	0	1	14755	929	33	4		4	SLCO4C1	5	101606335	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3411631	101606335	79308925	2705	25056											
SLCO4C1	353189	broad.mit.edu	37	chr5	101627089	101627089	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattctccactgaaaaattGtggcaatgagaatacaagtg	16	11	8	6	0	1	2	0	2	1	1	2	3	1	2	1	1	1	1	1	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:101627089G>A	uc003knm.2	-	2	864	c.577C>T	c.(577-579)CAA>TAA	p.Q193*		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	193	Helical; Name=3; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		CTGAAAAATTGTGGCAATGAG	0.358													6	46					0	0	1	0	0		A	101627089	A	A	101627089	4	1	27	1	0	0	0	0	0	1	0	0	14755	1386	48	4	1645	4	SLCO4C1	5	101627089	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20754	101627089	79288171	2706	25057											
SLCO6A1	133482	broad.mit.edu	37	chr5	101774410	101774410	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagctccaataataactaaaTattctgtagcttttgacaga	16	13	5	7	0	1	2	0	1	1	1	2	2	2	2	1	0	3	3	1	0	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:101774410T>C	uc003knn.2	-	7	1359	c.1187A>G	c.(1186-1188)TAT>TGT	p.Y396C	SLCO6A1_uc003kno.2_Intron|SLCO6A1_uc003knp.2_Missense_Mutation_p.Y396C|SLCO6A1_uc003knq.2_Missense_Mutation_p.Y334C	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	396	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		AATAACTAAATATTCTGTAGC	0.289													34	66					0	0	1	0	0		C	101774410	C	C	101774410	3	2	27	1	0	0	0	0	1	0	0	0	14757	1406	49	3	1000	3	SLCO6A1	5	101774410	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	147321	101774410	79140850	2707	25058											
PPIP5K2	23262	broad.mit.edu	37	chr5	102509634	102509634	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaccagtgaaagtcatgtAcattctttgctgtctattct	9	18	6	8	0	4	1	1	1	3	0	4	1	4	1	1	0	3	2	1	0	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:102509634A>G	uc003kod.3	+	21	3006	c.2487A>G	c.(2485-2487)GTA>GTG	p.V829V	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Silent_p.V829V|PPIP5K2_uc003kof.2_Silent_p.V130V	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	829					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						AAAGTCATGTACATTCTTTGC	0.318													8	97					0	0	1	0	0		G	102509634	G	G	102509634	2	3	27	1	0	0	0	0	0	0	0	1	12355	378	14	3		3	PPIP5K2	5	102509634	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	735224	102509634	78405626	2708	25059											
EFNA5	1946	broad.mit.edu	37	chr5	106763092	106763092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgtagccatcaaagttcaCcatgtagaggacatagcgct	13	9	9	10	1	2	1	2	0	0	1	2	2	2	2	2	1	2	4	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:106763092C>T	uc003kol.2	-	2	526	c.244G>A	c.(244-246)GTG>ATG	p.V82M	EFNA5_uc010jbr.1_Missense_Mutation_p.V82M	NM_001962	NP_001953	P52803	EFNA5_HUMAN	ephrin-A5 precursor	82					cell-cell signaling	anchored to plasma membrane|caveola|extracellular space	ephrin receptor binding				0		all_cancers(142;5.15e-06)|all_epithelial(76;4.39e-07)|Prostate(80;0.00726)|Lung NSC(167;0.0736)|Ovarian(225;0.0797)|all_lung(232;0.0854)|Colorectal(57;0.241)		Epithelial(69;1.25e-12)|OV - Ovarian serous cystadenocarcinoma(64;1.32e-11)|BRCA - Breast invasive adenocarcinoma(61;0.0376)|COAD - Colon adenocarcinoma(37;0.109)		TCAAAGTTCACCATGTAGAGG	0.488													14	143					0	0	1	0	0		T	106763092	T	T	106763092	3	4	27	1	0	0	0	0	1	0	0	0	4960	507	18	4	458	4	EFNA5	5	106763092	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4253458	106763092	74152168	2709	25060											
FER	2241	broad.mit.edu	37	chr5	108290576	108290576	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggaaacctggtgaataTgtcctttctgtatattctga	10	15	9	7	0	2	2	0	2	2	0	3	3	3	3	2	2	1	1	2	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:108290576T>C	uc003kop.1	+	12	1860	c.1476T>C	c.(1474-1476)TAT>TAC	p.Y492Y	FER_uc011cvf.1_Intron|FER_uc011cvg.1_Silent_p.Y317Y	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	492	SH2.				intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		CTGGTGAATATGTCCTTTCTG	0.368													12	104					0	0	1	0	0		C	108290576	C	C	108290576	2	2	27	1	0	0	0	0	0	0	0	1	5827	1471	51	3		3	FER	5	108290576	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1527484	108290576	72624684	2710	25061											
FER	2241	broad.mit.edu	37	chr5	108523190	108523190	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatttccaaaatcatgatgAagtgttgggattataaacct	15	14	7	5	0	1	2	1	2	0	0	2	3	2	3	2	1	1	1	2	1	7	5	rs149517787		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:108523190A>G	uc003kop.1	+	20	2767	c.2383A>G	c.(2383-2385)AAG>GAG	p.K795E	FER_uc011cvg.1_Missense_Mutation_p.K620E	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	795	Protein kinase.				intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		AATCATGATGAAGTGTTGGGA	0.433													7	88					0	0	1	0	0		G	108523190	G	G	108523190	3	3	27	1	0	0	0	0	1	0	0	0	5827	247	9	3	2453	3	FER	5	108523190	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	232614	108523190	72392070	2711	25062											
FER	2241	broad.mit.edu	37	chr5	108523233	108523233	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcgccctaagttcagtgAacttcagaaagagctcacta	15	9	7	10	1	3	3	3	1	0	2	4	3	3	3	1	0	2	2	1	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:108523233A>G	uc003kop.1	+	20	2810	c.2426A>G	c.(2425-2427)GAA>GGA	p.E809G	FER_uc011cvg.1_Missense_Mutation_p.E634G	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	809	Protein kinase.				intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		AAGTTCAGTGAACTTCAGAAA	0.453													3	68					0	0	1	0	0		G	108523233	G	G	108523233	3	3	27	1	0	0	0	0	1	0	0	0	5827	246	9	3	2496	3	FER	5	108523233	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	43	108523233	72392027	2712	25063											
PJA2	9867	broad.mit.edu	37	chr5	108698724	108698724	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccaaggatgtctgttccCtagtacaaacattttaaagg	12	13	7	9	0	1	0	0	0	1	0	3	1	3	1	2	2	2	2	2	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:108698724C>A	uc003kos.3	-	6	1690	c.1470_splice	c.e6-1	p.G490_splice		NM_014819	NP_055634	O43164	PJA2_HUMAN	praja 2, RING-H2 motif containing						long-term memory|regulation of protein kinase A signaling cascade	cell junction|endoplasmic reticulum membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	ligase activity|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(142;4.4e-06)|all_epithelial(76;8.17e-08)|Prostate(80;0.00676)|Lung NSC(167;0.0436)|Ovarian(225;0.0443)|all_lung(232;0.053)|Colorectal(57;0.0946)|Breast(839;0.151)		OV - Ovarian serous cystadenocarcinoma(64;3.46e-10)|Epithelial(69;6.02e-09)|COAD - Colon adenocarcinoma(37;0.224)		TGTCTGTTCCCTAGTACAAAC	0.343													11	142					6.40141e-05	6.80234e-05	1	1	0		A	108698724	A	A	108698724	5	1	27	1	0	0	0	0	0	0	1	0	11981	695	24	5	677	5	PJA2	5	108698724	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	175491	108698724	72216536	2713	25064											
PJA2	9867	broad.mit.edu	37	chr5	108717314	108717314	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggtttaaaactgacataaGcatgtcttcttccatatctc	12	15	5	9	0	3	1	0	1	3	0	5	1	4	1	1	1	2	2	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:108717314G>T	uc003kos.3	-	3	342	c.122C>A	c.(121-123)GCT>GAT	p.A41D		NM_014819	NP_055634	O43164	PJA2_HUMAN	praja 2, RING-H2 motif containing	41					long-term memory|regulation of protein kinase A signaling cascade	cell junction|endoplasmic reticulum membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	ligase activity|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(142;4.4e-06)|all_epithelial(76;8.17e-08)|Prostate(80;0.00676)|Lung NSC(167;0.0436)|Ovarian(225;0.0443)|all_lung(232;0.053)|Colorectal(57;0.0946)|Breast(839;0.151)		OV - Ovarian serous cystadenocarcinoma(64;3.46e-10)|Epithelial(69;6.02e-09)|COAD - Colon adenocarcinoma(37;0.224)		ACTGACATAAGCATGTCTTCT	0.433													5	78					0.000602214	0.000630257	1	1	0		T	108717314	T	T	108717314	3	4	27	1	0	0	0	0	1	0	0	0	11981	971	34	5	2036	5	PJA2	5	108717314	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	18590	108717314	72197946	2714	25065											
MAN2A1	4124	broad.mit.edu	37	chr5	109049437	109049437	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgacactgcagactgtctgTttgcttcacaaagtggaagt	10	13	10	8	0	2	2	1	1	1	1	2	3	2	3	0	1	2	3	0	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:109049437T>C	uc003kou.1	+	2	1315	c.352T>C	c.(352-354)TTT>CTT	p.F118L		NM_002372	NP_002363	Q16706	MA2A1_HUMAN	mannosidase, alpha, class 2A, member 1	118	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(142;8.66e-07)|all_epithelial(76;7.73e-09)|Prostate(80;0.000303)|Lung NSC(167;0.0186)|all_lung(232;0.0241)|Ovarian(225;0.0444)|Colorectal(57;0.0959)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;2.17e-10)|Epithelial(69;1.37e-09)|COAD - Colon adenocarcinoma(37;0.141)		AGACTGTCTGTTTGCTTCACA	0.398													14	101					0	0	1	0	0		C	109049437	C	C	109049437	3	2	27	1	0	0	0	0	1	0	0	0	9232	1725	60	3	358	3	MAN2A1	5	109049437	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	332123	109049437	71865823	2715	25066											
WDR36	134430	broad.mit.edu	37	chr5	110428101	110428101	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagacacgctgaagggactgGgtacgtgttttccttcagga	9	11	13	8	2	1	2	1	1	0	1	2	4	2	4	1	3	1	3	1	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:110428101G>T	uc003kpd.2	+	1	232	c.115G>T	c.(115-117)GGT>TGT	p.G39C	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	39					response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		GAAGGGACTGGGTACGTGTTT	0.632													12	107					1.08611e-07	1.18661e-07	1	1	0		T	110428101	T	T	110428101	3	4	27	1	0	0	0	0	1	0	0	0	17316	1232	43	5	117	5	WDR36	5	110428101	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1378664	110428101	70487159	2716	25067											
WDR36	134430	broad.mit.edu	37	chr5	110462438	110462438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttctttgcagttacacCttaaaatgcttccttcagag	10	17	5	9	0	2	1	1	0	1	1	3	1	3	1	2	0	3	3	2	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:110462438C>T	uc003kpd.2	+	23	2830	c.2713C>T	c.(2713-2715)CTT>TTT	p.L905F	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	905					response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		GCAGTTACACCTTAAAATGCT	0.338													3	75					0	0	1	0	0		T	110462438	T	T	110462438	3	4	27	1	0	0	0	0	1	0	0	0	17316	681	24	4	2803	4	WDR36	5	110462438	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	34337	110462438	70452822	2717	25068											
CAMK4	814	broad.mit.edu	37	chr5	110712562	110712562	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatatctttccctagataaAacttaaagagatatttgaaa	17	15	4	5	0	1	3	0	1	1	2	2	4	2	3	1	0	1	0	1	0	9	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:110712562A>G	uc011cvj.1	+	5	407	c.308A>G	c.(307-309)AAA>AGA	p.K103R	CAMK4_uc003kpf.2_Missense_Mutation_p.K103R|CAMK4_uc010jbv.2_Intron	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	103	Protein kinase.				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		CCCTAGATAAAACTTAAAGAG	0.338													14	100					0	0	1	0	0		G	110712562	G	G	110712562	3	3	27	1	0	0	0	0	1	0	0	0	2608	14	1	3	322	3	CAMK4	5	110712562	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	250124	110712562	70202698	2718	25069											
CAMK4	814	broad.mit.edu	37	chr5	110730432	110730432	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaaaagggatattacagTgagcgagatgctgcagatgc	13	8	15	5	1	0	3	0	1	0	2	0	6	0	5	0	2	5	2	0	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:110730432T>C	uc011cvj.1	+	6	510	c.411T>C	c.(409-411)AGT>AGC	p.S137S	CAMK4_uc003kpf.2_Silent_p.S137S|CAMK4_uc010jbv.2_5'UTR	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	137	Protein kinase.				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		GATATTACAGTGAGCGAGATG	0.378													5	77					0	0	1	0	0		C	110730432	C	C	110730432	2	2	27	1	0	0	0	0	0	0	0	1	2608	1693	59	3		3	CAMK4	5	110730432	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	17870	110730432	70184828	2719	25070											
EPB41L4A	64097	broad.mit.edu	37	chr5	111500719	111500719	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgaggcgggaagcttgtaTagtttttattgtttttgctg	6	19	12	4	1	0	1	0	1	0	0	0	2	0	2	0	2	2	5	0	2	4	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:111500719T>C	uc003kpv.1	-	23	2303	c.2029A>G	c.(2029-2031)ATA>GTA	p.I677V	EPB41L4A_uc003kpp.1_Intron|EPB41L4A_uc003kpu.1_RNA	NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	677						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		GAAGCTTGTATAGTTTTTATT	0.438													4	40					0	0	1	0	0		C	111500719	C	C	111500719	3	2	27	1	0	0	0	0	1	0	0	0	5163	1406	49	3	35	3	EPB41L4A	5	111500719	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	770287	111500719	69414541	2720	25071											
EPB41L4A	64097	broad.mit.edu	37	chr5	111600650	111600650	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcttccttctgatcaggaAcaaaccggtactcagataca	12	11	7	11	1	4	2	2	1	2	1	5	3	5	3	2	2	4	2	2	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:111600650A>G	uc003kpv.1	-	6	771	c.497T>C	c.(496-498)GTT>GCT	p.V166A	EPB41L4A_uc003kpw.1_Missense_Mutation_p.V166A	NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	166	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		CTGATCAGGAACAAACCGGTA	0.353													5	149					0	0	1	0	0		G	111600650	G	G	111600650	3	3	27	1	0	0	0	0	1	0	0	0	5163	43	2	3	1635	3	EPB41L4A	5	111600650	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	99931	111600650	69314610	2721	25072											
EPB41L4A	64097	broad.mit.edu	37	chr5	111600664	111600664	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggaacaaaccggtactcAgatacatatcctgcagtatg	14	9	8	10	1	2	1	2	0	0	1	3	2	3	2	2	2	5	3	2	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:111600664A>C	uc003kpv.1	-	6	757	c.483T>G	c.(481-483)TCT>TCG	p.S161S	EPB41L4A_uc003kpw.1_Silent_p.S161S	NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	161	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		ACCGGTACTCAGATACATATC	0.343													5	141					0	0	1	0	0		C	111600664	C	C	111600664	2	2	27	1	0	0	0	0	0	0	0	1	5163	175	7	5		5	EPB41L4A	5	111600664	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14	111600664	69314596	2722	25073											
APC	324	broad.mit.edu	37	chr5	112178940	112178940	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggaacctggaaacgtgAgcacagcaaacattcatcat	15	7	9	10	1	3	1	3	1	0	0	3	3	3	3	1	2	5	2	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:112178940A>T	uc010jby.2	+	16	8029	c.7649A>T	c.(7648-7650)GAG>GTG	p.E2550V	APC_uc011cvt.1_Missense_Mutation_p.E2532V|APC_uc003kpz.3_Missense_Mutation_p.E2550V|APC_uc003kpy.3_Missense_Mutation_p.E2550V|APC_uc010jbz.2_Missense_Mutation_p.E2267V|APC_uc010jca.2_Missense_Mutation_p.E1850V	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	2550	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGGAAACGTGAGCACAGCAAA	0.423		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			11	109					0	0	1	0	0		T	112178940	T	T	112178940	3	4	27	1	0	0	0	0	1	0	0	0	763	304	11	5	7707	5	APC	5	112178940	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	578276	112178940	68736320	2723	25074											
SRP19	6728	broad.mit.edu	37	chr5	112200164	112200164	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactgttcaggctgttgaaaAtcctacagctacagagattc	13	11	8	9	0	1	2	1	1	0	1	3	3	2	2	1	1	4	4	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:112200164A>G	uc003kqc.2	+	3	209	c.128A>G	c.(127-129)AAT>AGT	p.N43S	SRP19_uc003kqb.1_Missense_Mutation_p.N43S|SRP19_uc011cvu.1_5'UTR|SRP19_uc011cvv.1_5'UTR	NM_003135	NP_003126	P09132	SRP19_HUMAN	signal recognition particle 19kDa	43					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|mitochondrion|nucleolus|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding				0		all_cancers(142;0.00328)|all_epithelial(76;6.39e-05)|Prostate(80;0.00174)|Colorectal(10;0.00372)|Ovarian(225;0.156)		Epithelial(69;1.7e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.17e-08)|all cancers(49;3.96e-07)|Colorectal(14;0.0056)|COAD - Colon adenocarcinoma(37;0.0104)		GCTGTTGAAAATCCTACAGCT	0.338													15	87					0	0	1	0	0		G	112200164	G	G	112200164	3	3	27	1	0	0	0	0	1	0	0	0	15179	101	4	3	138	3	SRP19	5	112200164	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21224	112200164	68715096	2724	25075											
MCC	4163	broad.mit.edu	37	chr5	112406914	112406914	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggaggtcattttgggatTtgaggtgctcaatccggcta	8	13	13	7	1	3	1	3	1	0	0	4	3	4	3	1	5	1	2	1	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:112406914T>C	uc003kqj.3	-	10	1762	c.1232A>G	c.(1231-1233)AAA>AGA	p.K411R	MCC_uc003kqk.3_RNA|MCC_uc003kql.3_Missense_Mutation_p.K601R|MCC_uc011cwb.1_Missense_Mutation_p.K411R|MCC_uc010jcd.1_Missense_Mutation_p.K373R	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2	411					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		ATTTTGGGATTTGAGGTGCTC	0.428													13	127					0	0	1	0	0		C	112406914	C	C	112406914	3	2	27	1	0	0	0	0	1	0	0	0	9391	1841	64	3	1289	3	MCC	5	112406914	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	206750	112406914	68508346	2725	25076											
TRIM36	55521	broad.mit.edu	37	chr5	114462533	114462533	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcctcacttccactgtcAtgcccactgtcttgctcata	7	13	5	16	0	4	0	3	0	1	0	6	0	6	0	3	0	2	2	3	0	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:114462533A>G	uc003kqs.2	-	10	2363	c.1854T>C	c.(1852-1854)CAT>CAC	p.H618H	TRIM36_uc011cwc.1_Silent_p.H606H|TRIM36_uc003kqt.2_Silent_p.H463H	NM_018700	NP_061170	Q9NQ86	TRI36_HUMAN	tripartite motif-containing 36 isoform 1	618	B30.2/SPRY.					acrosomal vesicle|cytoskeleton	ligase activity|zinc ion binding			ovary(4)|lung(2)|breast(2)	8		all_cancers(142;0.00133)|all_epithelial(76;2.41e-05)|Prostate(80;0.00955)|Ovarian(225;0.0443)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;3.62e-08)|Epithelial(69;7.69e-08)|all cancers(49;9.33e-06)		TTCCACTGTCATGCCCACTGT	0.348													3	54					0	0	1	0	0		G	114462533	G	G	114462533	2	3	27	1	0	0	0	0	0	0	0	1	16536	214	8	3		3	TRIM36	5	114462533	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2055619	114462533	66452727	2726	25077											
PGGT1B	5229	broad.mit.edu	37	chr5	114548274	114548274	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcccaaagtatgcatgcAaagcatctgaaaagaaggca	18	6	9	8	0	1	3	0	1	1	2	2	3	2	3	1	1	3	5	1	1	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:114548274A>G	uc003kqw.3	-	9	980	c.959T>C	c.(958-960)TTG>TCG	p.L320S	PGGT1B_uc003kqx.3_Missense_Mutation_p.L197S|PGGT1B_uc010jch.2_Missense_Mutation_p.L243S	NM_005023	NP_005014	P53609	PGTB1_HUMAN	geranylgeranyltransferase type 1 beta	320	PFTB 4.				protein geranylgeranylation	CAAX-protein geranylgeranyltransferase complex	CAAX-protein geranylgeranyltransferase activity				0		all_cancers(142;0.000523)|all_epithelial(76;6.45e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		Epithelial(69;2.95e-08)|OV - Ovarian serous cystadenocarcinoma(64;4.98e-08)|all cancers(49;3.1e-06)	Pravastatin(DB00175)	GTATGCATGCAAAGCATCTGA	0.398													7	55					0	0	1	0	0		G	114548274	G	G	114548274	3	3	27	1	0	0	0	0	1	0	0	0	11808	131	5	3	178	3	PGGT1B	5	114548274	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	85741	114548274	66366986	2727	25078											
AQPEP	206338	broad.mit.edu	37	chr5	115298718	115298718	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgcgtgaacatcacggTgcgctgcacggtggccacct	6	7	14	14	5	1	1	1	1	0	0	1	1	1	1	3	4	3	2	3	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:115298718T>A	uc003kro.2	+	1	568	c.404T>A	c.(403-405)GTG>GAG	p.V135E	AQPEP_uc003krp.2_RNA|uc003krn.1_5'UTR	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	135	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						AACATCACGGTGCGCTGCACG	0.682													4	83					0	0	1	0	0		A	115298718	A	A	115298718	3	1	27	1	0	0	0	0	1	0	0	0	834	1696	59	5	406	5	AQPEP	5	115298718	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	750444	115298718	65616542	2728	25079											
SEMA6A	57556	broad.mit.edu	37	chr5	115782800	115782800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggttctccacaaggttcaCcccatggttgggactcttgc	7	11	10	13	0	3	0	1	0	2	0	4	1	3	1	3	4	1	3	3	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:115782800C>T	uc010jck.2	-	19	3311	c.2602G>A	c.(2602-2604)GTG>ATG	p.V868M	SEMA6A_uc003krx.3_Missense_Mutation_p.V885M|SEMA6A_uc011cwe.1_Missense_Mutation_p.V247M|SEMA6A_uc003krv.3_Missense_Mutation_p.V295M|SEMA6A_uc003krw.3_Missense_Mutation_p.V345M|SEMA6A_uc010jcj.2_Missense_Mutation_p.V412M	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	868	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		ACAAGGTTCACCCCATGGTTG	0.617													17	220					0	0	1	0	0		T	115782800	T	T	115782800	3	4	27	1	0	0	0	0	1	0	0	0	14064	507	18	4	494	4	SEMA6A	5	115782800	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	484082	115782800	65132460	2729	25080											
DMXL1	1657	broad.mit.edu	37	chr5	118513830	118513830	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccacacattcaagtaatgaGctatttcggattgtggccca	11	11	9	10	1	1	1	1	1	0	0	2	2	1	2	2	2	1	2	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:118513830G>A	uc003ksd.2	+	28	7207	c.7026G>A	c.(7024-7026)GAG>GAA	p.E2342E	DMXL1_uc010jcl.1_Silent_p.E2342E	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2342										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		CAAGTAATGAGCTATTTCGGA	0.458													7	118					0	0	1	0	0		A	118513830	A	A	118513830	2	1	27	1	0	0	0	0	0	0	0	1	4600	962	34	2		2	DMXL1	5	118513830	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2731030	118513830	62401430	2730	25081											
FAM170A	340069	broad.mit.edu	37	chr5	118970053	118970053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggacagaatcagacagcctgCcaggctcacccaccgttgag	11	5	11	14	1	2	3	2	1	0	2	2	4	2	4	4	2	2	2	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:118970053C>T	uc003ksm.2	+	3	820	c.610C>T	c.(610-612)CCA>TCA	p.P204S	FAM170A_uc003ksl.2_Intron|FAM170A_uc003ksn.2_Missense_Mutation_p.P204S|FAM170A_uc003kso.2_Missense_Mutation_p.P157S	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	204						intracellular	zinc ion binding			skin(1)	1						AGACAGCCTGCCAGGCTCACC	0.587													6	103					0	0	1	0	0		T	118970053	T	T	118970053	3	4	27	1	0	0	0	0	1	0	0	0	5500	739	26	2	620	2	FAM170A	5	118970053	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	456223	118970053	61945207	2731	25082											
PRR16	51334	broad.mit.edu	37	chr5	120022012	120022012	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atggagatatctgctgcataCccaacagtaacttggacaag	14	9	9	9	0	1	1	0	0	1	1	1	3	1	2	1	2	5	3	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:120022012C>G	uc003ksq.2	+	2	686	c.523C>G	c.(523-525)CCC>GCC	p.P175A	PRR16_uc003ksp.2_Missense_Mutation_p.P152A|PRR16_uc003ksr.2_Missense_Mutation_p.P105A	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16	175	Pro-rich.									pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		CTGCTGCATACCCAACAGTAA	0.478													4	62					0	0	1	0	0		G	120022012	G	G	120022012	3	3	27	1	0	0	0	0	1	0	0	0	12611	507	18	5	460	5	PRR16	5	120022012	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1051959	120022012	60893248	2732	25083											
LOX	4015	broad.mit.edu	37	chr5	121409723	121409723	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catacctgtgtgtgtgcagtAcatgcaaatcgcctgtggta	9	12	11	9	1	0	0	0	0	0	0	1	0	0	0	2	1	4	4	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:121409723A>G	uc003ksu.2	-	4	1395	c.1020T>C	c.(1018-1020)TGT>TGC	p.C340C	LOX_uc010jcp.2_Silent_p.C43C|LOX_uc010jcq.2_Silent_p.C43C|LOX_uc011cwk.1_Silent_p.C110C|LOX_uc010jcr.2_Silent_p.C43C	NM_002317	NP_002308	P28300	LYOX_HUMAN	lysyl oxidase preproprotein	340	Lysyl-oxidase like.				protein modification process	extracellular space	copper ion binding|protein-lysine 6-oxidase activity			lung(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)|Ovarian(225;0.0814)|Breast(839;0.143)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;2.14e-11)|OV - Ovarian serous cystadenocarcinoma(64;7.87e-10)|all cancers(49;2.49e-09)|COAD - Colon adenocarcinoma(49;0.02)		TGTGTGCAGTACATGCAAATC	0.473													23	248					0	0	1	0	0		G	121409723	G	G	121409723	2	3	27	1	0	0	0	0	0	0	0	1	8916	389	14	3		3	LOX	5	121409723	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1387711	121409723	59505537	2733	25084											
SNCAIP	9627	broad.mit.edu	37	chr5	121767674	121767674	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaacctagaatggtcagtTggagtgcgtacgctggatgg	11	10	14	6	2	1	1	1	0	0	1	1	3	1	3	1	4	3	3	1	4	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:121767674T>A	uc003ksw.1	+	6	1399	c.1193T>A	c.(1192-1194)TTG>TAG	p.L398*	SNCAIP_uc011cwl.1_5'UTR|SNCAIP_uc010jct.2_Nonsense_Mutation_p.L398*|SNCAIP_uc003ksx.1_Nonsense_Mutation_p.L445*|SNCAIP_uc003ksy.1_Nonsense_Mutation_p.L32*|SNCAIP_uc003ksz.1_Nonsense_Mutation_p.L32*|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Nonsense_Mutation_p.L32*|SNCAIP_uc003kta.1_Nonsense_Mutation_p.L30*|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Nonsense_Mutation_p.L92*|SNCAIP_uc010jcx.1_Nonsense_Mutation_p.L338*	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	398	ANK 2.				cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		AATGGTCAGTTGGAGTGCGTA	0.398													4	46					0	0	1	0	0		A	121767674	A	A	121767674	4	1	27	1	0	0	0	0	0	1	0	0	14866	1821	63	5	1211	5	SNCAIP	5	121767674	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	357951	121767674	59147586	2734	25085											
SNCAIP	9627	broad.mit.edu	37	chr5	121786643	121786643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaaggctgaccgaccaaggCcgcagcccattgtagaaagc	12	4	13	12	2	0	2	0	1	0	1	0	4	0	3	4	3	2	3	4	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:121786643C>T	uc003ksw.1	+	10	2307	c.2101C>T	c.(2101-2103)CCG>TCG	p.P701S	SNCAIP_uc011cwl.1_Missense_Mutation_p.P259S|SNCAIP_uc003ksx.1_Missense_Mutation_p.P748S|SNCAIP_uc003ksy.1_Missense_Mutation_p.P335S|SNCAIP_uc003ksz.1_Missense_Mutation_p.P335S|SNCAIP_uc010jcu.2_Missense_Mutation_p.P297S|SNCAIP_uc011cwm.1_Missense_Mutation_p.P335S|SNCAIP_uc003kta.1_Missense_Mutation_p.P333S|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.P395S|SNCAIP_uc010jcx.1_Missense_Mutation_p.P641S|uc003ktb.1_Intron|SNCAIP_uc003ktc.1_Missense_Mutation_p.P217S	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	701	ANK 6.				cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		CCGACCAAGGCCGCAGCCCAT	0.547													7	38					0	0	1	0	0		T	121786643	T	T	121786643	3	4	27	1	0	0	0	0	1	0	0	0	14866	739	26	2	2135	2	SNCAIP	5	121786643	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18969	121786643	59128617	2735	25086											
SNCAIP	9627	broad.mit.edu	37	chr5	121786917	121786917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tactgctgcccagaaagttgCcacaagtcccaagagtgccc	11	7	9	14	0	0	2	0	0	0	2	1	2	1	2	4	0	5	2	4	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:121786917C>T	uc003ksw.1	+	10	2581	c.2375C>T	c.(2374-2376)GCC>GTC	p.A792V	SNCAIP_uc011cwl.1_Missense_Mutation_p.A350V|SNCAIP_uc003ksx.1_Missense_Mutation_p.A839V|SNCAIP_uc003ksy.1_Missense_Mutation_p.A426V|SNCAIP_uc003ksz.1_Missense_Mutation_p.A426V|SNCAIP_uc010jcu.2_Missense_Mutation_p.A388V|SNCAIP_uc011cwm.1_Missense_Mutation_p.A426V|SNCAIP_uc003kta.1_Missense_Mutation_p.A424V|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.A486V|SNCAIP_uc010jcx.1_Missense_Mutation_p.A732V|uc003ktb.1_Intron|SNCAIP_uc003ktc.1_Missense_Mutation_p.A308V	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	792					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		CAGAAAGTTGCCACAAGTCCC	0.527													3	55					0	0	1	0	0		T	121786917	T	T	121786917	3	4	27	1	0	0	0	0	1	0	0	0	14866	739	26	2	2409	2	SNCAIP	5	121786917	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	274	121786917	59128343	2736	25087											
CSNK1G3	1456	broad.mit.edu	37	chr5	122926221	122926221	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaaaaggatatatgtttgAttatgaatatgactggattg	14	15	10	2	1	0	3	0	3	0	0	1	6	0	5	0	2	0	1	0	2	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:122926221A>T	uc003ktm.2	+	9	1678	c.959A>T	c.(958-960)GAT>GTT	p.D320V	CSNK1G3_uc003ktl.2_Missense_Mutation_p.D320V|CSNK1G3_uc003ktn.2_Missense_Mutation_p.D320V|CSNK1G3_uc003kto.2_Missense_Mutation_p.D320V|CSNK1G3_uc011cwr.1_Missense_Mutation_p.D245V|CSNK1G3_uc011cws.1_Missense_Mutation_p.D208V|CSNK1G3_uc010jda.2_Missense_Mutation_p.D321V	NM_004384	NP_004375	Q9Y6M4	KC1G3_HUMAN	casein kinase 1, gamma 3 isoform 1	320					Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0		all_cancers(142;0.0156)|Prostate(80;0.0322)|Lung NSC(810;0.245)	KIRC - Kidney renal clear cell carcinoma(527;0.165)|Kidney(363;0.229)	OV - Ovarian serous cystadenocarcinoma(64;0.000121)|Epithelial(69;0.000227)|all cancers(49;0.00176)		TATATGTTTGATTATGAATAT	0.284													10	104					0	0	1	0	0		T	122926221	T	T	122926221	3	4	27	1	0	0	0	0	1	0	0	0	3959	333	12	5	989	5	CSNK1G3	5	122926221	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1139304	122926221	57989039	2737	25088											
ZNF608	57507	broad.mit.edu	37	chr5	123982525	123982525	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctggtgattggagagaagCtgcgatttacctgtctcctc	7	13	12	9	1	1	2	0	1	1	1	3	5	1	3	2	2	4	2	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:123982525C>A	uc003ktq.1	-	4	3675	c.3552G>T	c.(3550-3552)CAG>CAT	p.Q1184H	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Missense_Mutation_p.Q1184H|ZNF608_uc003ktt.1_Missense_Mutation_p.Q1184H|ZNF608_uc003ktp.1_5'Flank	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	1184						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		TGGAGAGAAGCTGCGATTTAC	0.468													14	161					2.23348e-06	2.42022e-06	1	1	0		A	123982525	A	A	123982525	3	1	27	1	0	0	0	0	1	0	0	0	18059	796	28	5	1010	5	ZNF608	5	123982525	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1056304	123982525	56932735	2738	25089											
ZNF608	57507	broad.mit.edu	37	chr5	123984764	123984764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcagcagcagcagacctcGctctcttccctctgccccgg	5	7	11	18	2	2	1	0	0	2	1	5	1	3	1	4	2	4	5	4	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:123984764G>A	uc003ktq.1	-	4	1436	c.1313C>T	c.(1312-1314)GCG>GTG	p.A438V	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Missense_Mutation_p.A438V|ZNF608_uc003ktt.1_Missense_Mutation_p.A438V	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	438						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		AGCAGACCTCGCTCTCTTCCC	0.592													13	48					0	0	1	0	0		A	123984764	A	A	123984764	3	1	27	1	0	0	0	0	1	0	0	0	18059	1087	38	1	3249	1	ZNF608	5	123984764	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2239	123984764	56930496	2739	25090											
ZNF608	57507	broad.mit.edu	37	chr5	124080438	124080438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaacagaagcaaattttaggCcatcagctaaggctgcggta	14	8	11	8	1	1	1	1	0	0	1	1	2	1	1	1	3	4	4	1	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:124080438C>T	uc003ktq.1	-	1	368	c.245G>A	c.(244-246)GGC>GAC	p.G82D	ZNF608_uc003ktr.1_RNA|ZNF608_uc003kts.1_Missense_Mutation_p.G82D|ZNF608_uc003ktt.1_Missense_Mutation_p.G82D	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	82						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		AAATTTTAGGCCATCAGCTAA	0.498													4	76					0	0	1	0	0		T	124080438	T	T	124080438	3	4	27	1	0	0	0	0	1	0	0	0	18059	739	26	2	4329	2	ZNF608	5	124080438	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	95674	124080438	56834822	2740	25091											
ZNF608	57507	broad.mit.edu	37	chr5	124080611	124080611	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaccccgatttcccaatcAtcgccactgtcataagtatc	11	10	4	16	2	2	0	2	0	0	0	5	1	3	0	5	0	1	1	5	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:124080611A>G	uc003ktq.1	-	1	195	c.72T>C	c.(70-72)GAT>GAC	p.D24D	ZNF608_uc003ktr.1_RNA|ZNF608_uc003kts.1_Silent_p.D24D|ZNF608_uc003ktt.1_Silent_p.D24D	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	24						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		TTTCCCAATCATCGCCACTGT	0.388													8	82					0	0	1	0	0		G	124080611	G	G	124080611	2	3	27	1	0	0	0	0	0	0	0	1	18059	214	8	3		3	ZNF608	5	124080611	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	173	124080611	56834649	2741	25092											
GRAMD3	65983	broad.mit.edu	37	chr5	125805413	125805413	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctttagcaagtgataagaAcgactgtaaaacagaaagca	18	8	8	7	1	1	3	0	1	1	2	1	4	1	3	0	0	4	3	0	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:125805413A>G	uc003ktu.2	+	3	678	c.248A>G	c.(247-249)AAC>AGC	p.N83S	GRAMD3_uc011cwt.1_Missense_Mutation_p.N98S|GRAMD3_uc011cwv.1_Missense_Mutation_p.N91S|GRAMD3_uc011cww.1_Intron|GRAMD3_uc011cwx.1_Intron|GRAMD3_uc011cwy.1_5'UTR|GRAMD3_uc011cwz.1_Missense_Mutation_p.N67S|GRAMD3_uc011cwu.1_Missense_Mutation_p.N67S	NM_023927	NP_076416	Q96HH9	GRAM3_HUMAN	GRAM domain containing 3 isoform 2	83										central_nervous_system(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0401)|OV - Ovarian serous cystadenocarcinoma(64;0.0604)|all cancers(49;0.108)		AGTGATAAGAACGACTGTAAA	0.318													17	168					0	0	1	0	0		G	125805413	G	G	125805413	3	3	27	1	0	0	0	0	1	0	0	0	6767	43	2	3	472	3	GRAMD3	5	125805413	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1724802	125805413	55109847	2742	25093											
MARCH3	115123	broad.mit.edu	37	chr5	126206470	126206470	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgttgtacaatcgacagtggTacctaaatgacacctgggga	12	9	11	9	2	0	1	0	1	0	0	1	3	0	2	2	3	2	3	2	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:126206470T>C	uc003kuf.2	-	5	1072	c.617A>G	c.(616-618)TAC>TGC	p.Y206C		NM_178450	NP_848545	Q86UD3	MARH3_HUMAN	membrane-associated ring finger (C3HC4) 3	206					endocytosis	cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosome	ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.074)|OV - Ovarian serous cystadenocarcinoma(64;0.0793)		TCGACAGTGGTACCTAAATGA	0.438													4	41					0	0	1	0	0		C	126206470	C	C	126206470	3	2	27	1	0	0	0	0	1	0	0	0	9320	1638	57	3	148	3	MARCH3	5	126206470	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	401057	126206470	54708790	2743	25094											
MARCH3	115123	broad.mit.edu	37	chr5	126250640	126250640	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctccactaacggcctgggTttgcgctcgactgcaaacct	8	9	9	15	3	0	0	0	0	0	0	2	1	1	0	4	2	4	3	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:126250640T>C	uc003kuf.2	-	3	830	c.375A>G	c.(373-375)AAA>AAG	p.K125K	MARCH3_uc011cxc.1_Silent_p.K125K	NM_178450	NP_848545	Q86UD3	MARH3_HUMAN	membrane-associated ring finger (C3HC4) 3	125					endocytosis	cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosome	ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.074)|OV - Ovarian serous cystadenocarcinoma(64;0.0793)		ACGGCCTGGGTTTGCGCTCGA	0.517													6	55					0	0	1	0	0		C	126250640	C	C	126250640	2	2	27	1	0	0	0	0	0	0	0	1	9320	1722	60	3		3	MARCH3	5	126250640	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	44170	126250640	54664620	2744	25095											
MEGF10	84466	broad.mit.edu	37	chr5	126783362	126783362	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcaacaacagggacaggAtgactgtcacgaaggtgaga	15	5	13	8	2	2	2	2	2	0	1	2	6	2	4	0	3	2	0	0	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:126783362A>T	uc003kuh.3	+	22	3204	c.2842A>T	c.(2842-2844)ATG>TTG	p.M948L	MEGF10_uc003kui.3_Missense_Mutation_p.M948L	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	948	Cytoplasmic (Potential).|Necessary for formation of large intracellular vacuoles.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		CAGGGACAGGATGACTGTCAC	0.438													7	57					0	0	1	0	0		T	126783362	T	T	126783362	3	4	27	1	0	0	0	0	1	0	0	0	9478	333	12	5	2920	5	MEGF10	5	126783362	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	532722	126783362	54131898	2745	25096											
SLC12A2	6558	broad.mit.edu	37	chr5	127520070	127520070	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaaagtattatagctttTgaggaaatcattgagccata	14	16	7	4	0	1	2	1	2	0	0	1	3	1	3	1	1	2	2	1	1	7	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:127520070T>C	uc003kus.2	+	25	3476	c.3312T>C	c.(3310-3312)TTT>TTC	p.F1104F	SLC12A2_uc010jdf.2_RNA|SLC12A2_uc010jdg.2_Silent_p.F1088F	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12	1104	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	TTATAGCTTTTGAGGAAATCA	0.284													8	114					0	0	1	0	0		C	127520070	C	C	127520070	2	2	27	1	0	0	0	0	0	0	0	1	14408	1809	63	3		3	SLC12A2	5	127520070	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	736708	127520070	53395190	2746	25097											
SLC12A2	6558	broad.mit.edu	37	chr5	127520484	127520484	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcctgtttcatttcagacaTaccggcagatcaggttaaat	11	13	8	9	1	3	2	3	0	0	2	4	2	4	2	2	2	1	3	2	2	3	4	rs116065946	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:127520484T>C	uc003kus.2	+	26	3603	c.3439T>C	c.(3439-3441)TAC>CAC	p.Y1147H	SLC12A2_uc010jdf.2_RNA|SLC12A2_uc010jdg.2_Missense_Mutation_p.Y1131H	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12	1147	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	ATTTCAGACATACCGGCAGAT	0.308													17	157					0	0	1	0	0		C	127520484	C	C	127520484	3	2	27	1	0	0	0	0	1	0	0	0	14408	1406	49	3	3541	3	SLC12A2	5	127520484	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	414	127520484	53394776	2747	25098											
FBN2	2201	broad.mit.edu	37	chr5	127645675	127645675	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctcagagttctttacctacCcatgcagttgtggcctccat	7	14	7	13	0	2	1	1	0	2	1	4	1	3	1	4	1	3	3	4	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:127645675C>A	uc003kuu.2	-	40	5639	c.5200G>T	c.(5200-5202)GAC>TAC	p.D1734Y		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1734					bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		CTTTACCTACCCATGCAGTTG	0.453													6	82					0.217242	0.218248	1	1	0		A	127645675	A	A	127645675	3	1	27	1	0	0	0	0	1	0	0	0	5717	637	22	5	3642	5	FBN2	5	127645675	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	125191	127645675	53269585	2748	25099											
FBN2	2201	broad.mit.edu	37	chr5	127686696	127686696	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaggtccccttcaggctGtctgaaaaggaacaggaaag	14	6	11	10	0	2	1	1	1	1	0	3	3	3	3	2	4	2	1	2	4	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:127686696G>A	uc003kuu.2	-	21	3115	c.2676C>T	c.(2674-2676)GAC>GAT	p.D892D	FBN2_uc003kuv.2_Silent_p.D859D	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	892					bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		CCTTCAGGCTGTCTGAAAAGG	0.458													5	76					0	0	1	0	0		A	127686696	A	A	127686696	2	1	27	1	0	0	0	0	0	0	0	1	5717	1391	48	4		4	FBN2	5	127686696	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	41021	127686696	53228564	2749	25100											
FBN2	2201	broad.mit.edu	37	chr5	127704962	127704962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggacttggtcactgcacCggggaaaggacgcacacaca	11	6	12	12	3	1	0	1	0	0	0	2	3	1	3	1	5	1	2	1	5	1	2	rs149733159		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:127704962C>T	uc003kuu.2	-	16	2600	c.2161G>A	c.(2161-2163)GGT>AGT	p.G721S	FBN2_uc003kuv.2_Missense_Mutation_p.G688S	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	721	TB 3.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GTCACTGCACCGGGGAAAGGA	0.488													14	82					0	0	1	0	0		T	127704962	T	T	127704962	3	4	27	1	0	0	0	0	1	0	0	0	5717	652	23	1	6777	1	FBN2	5	127704962	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18266	127704962	53210298	2750	25101											
SLC27A6	28965	broad.mit.edu	37	chr5	128320892	128320892	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatcagtgtttgggggatgaAagattctgttccacaaggtg	10	13	13	5	0	2	2	1	1	1	1	3	3	3	3	1	3	0	2	1	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:128320892A>G	uc003kuy.2	+	3	944	c.548A>G	c.(547-549)AAA>AGA	p.K183R	SLC27A6_uc003kuz.2_Missense_Mutation_p.K183R	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	183					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		TGGGGGATGAAAGATTCTGTT	0.453													3	54					0	0	1	0	0		G	128320892	G	G	128320892	3	3	27	1	0	0	0	0	1	0	0	0	14555	14	1	3	554	3	SLC27A6	5	128320892	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	615930	128320892	52594368	2751	25102											
ADAMTS19	171019	broad.mit.edu	37	chr5	129001264	129001264	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggaaaagccggcacataGctatttaggtaacctgtgtt	12	10	12	7	1	0	0	0	0	0	0	0	2	0	2	2	4	3	4	2	4	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:129001264G>A	uc003kvb.1	+	16	2480	c.2480G>A	c.(2479-2481)AGC>AAC	p.S827N	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	827	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		CCGGCACATAGCTATTTAGGT	0.433													4	22					0	0	1	0	0		A	129001264	A	A	129001264	3	1	27	1	0	0	0	0	1	0	0	0	264	971	34	2	2542	2	ADAMTS19	5	129001264	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	680372	129001264	51913996	2752	25103											
CHSY3	337876	broad.mit.edu	37	chr5	129243849	129243849	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactggcctggggaatatTgaagagcttggaaagctggg	11	8	16	6	0	0	3	0	1	0	2	0	5	0	5	1	5	2	2	1	5	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:129243849T>C	uc003kvd.2	+	2	882	c.882T>C	c.(880-882)ATT>ATC	p.I294I		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	294	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		TGGGGAATATTGAAGAGCTTG	0.478													7	47					0	0	1	0	0		C	129243849	C	C	129243849	2	2	27	1	0	0	0	0	0	0	0	1	3416	1800	63	3		3	CHSY3	5	129243849	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	242585	129243849	51671411	2753	25104											
FNIP1	96459	broad.mit.edu	37	chr5	131042175	131042175	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgctggtagctgctggcAcaacttcgggtaagtgagga	8	9	15	9	3	0	1	0	1	0	0	2	2	0	2	0	4	3	6	0	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:131042175A>G	uc003kvs.1	-	9	985	c.843T>C	c.(841-843)TGT>TGC	p.C281C	RAPGEF6_uc003kvp.1_Intron|FNIP1_uc003kvt.1_Silent_p.C253C|FNIP1_uc010jdm.1_Silent_p.C236C|FNIP1_uc003kvu.2_Silent_p.C281C	NM_133372	NP_588613	Q8TF40	FNIP1_HUMAN	folliculin interacting protein 1 isoform 1	281					regulation of protein phosphorylation	cytoplasm	protein binding			pancreas(1)|skin(1)	2		all_cancers(142;0.00347)|Lung NSC(810;0.106)|all_lung(232;0.123)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0665)		AGCTGCTGGCACAACTTCGGG	0.448													6	66					0	0	1	0	0		G	131042175	G	G	131042175	2	3	27	1	0	0	0	0	0	0	0	1	5989	157	6	3		3	FNIP1	5	131042175	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1798326	131042175	49873085	2754	25105											
FNIP1	96459	broad.mit.edu	37	chr5	131055060	131055060	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagctcattgctactgaGccaaacatcatctctccaag	11	12	6	12	0	3	1	2	1	1	0	5	1	4	1	2	0	5	3	2	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:131055060G>A	uc003kvs.1	-	4	547	c.405C>T	c.(403-405)GGC>GGT	p.G135G	RAPGEF6_uc003kvp.1_Intron|FNIP1_uc003kvt.1_Silent_p.G135G|FNIP1_uc010jdm.1_Silent_p.G90G|FNIP1_uc003kvu.2_Silent_p.G135G	NM_133372	NP_588613	Q8TF40	FNIP1_HUMAN	folliculin interacting protein 1 isoform 1	135					regulation of protein phosphorylation	cytoplasm	protein binding			pancreas(1)|skin(1)	2		all_cancers(142;0.00347)|Lung NSC(810;0.106)|all_lung(232;0.123)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0665)		TTGCTACTGAGCCAAACATCA	0.353													3	49					0	0	1	0	0		A	131055060	A	A	131055060	2	1	27	1	0	0	0	0	0	0	0	1	5989	958	34	2		2	FNIP1	5	131055060	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	12885	131055060	49860200	2755	25106											
ACSL6	23305	broad.mit.edu	37	chr5	131323899	131323899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccttctgaggtttgtccaCaatcacggtgctgatgtccg	7	12	11	11	2	2	2	1	2	1	0	4	2	4	2	3	2	2	2	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:131323899C>T	uc010jdo.1	-	7	681	c.598G>A	c.(598-600)GTG>ATG	p.V200M	ACSL6_uc003kvv.1_RNA|ACSL6_uc003kvx.1_Missense_Mutation_p.V225M|ACSL6_uc003kvy.1_Missense_Mutation_p.V225M|ACSL6_uc003kwb.2_Missense_Mutation_p.V190M|ACSL6_uc003kvz.1_Missense_Mutation_p.V165M|ACSL6_uc003kwa.1_Missense_Mutation_p.V211M|ACSL6_uc010jdn.1_Missense_Mutation_p.V215M|ACSL6_uc010jdp.1_5'Flank	NM_015256	NP_056071	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6	200	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GGTTTGTCCACAATCACGGTG	0.577													13	232					0	0	1	0	0		T	131323899	T	T	131323899	3	4	27	1	0	0	0	0	1	0	0	0	181	478	17	4	1637	4	ACSL6	5	131323899	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	268839	131323899	49591361	2756	25107											
RAD50	10111	broad.mit.edu	37	chr5	131892985	131892985	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaagcctttgtgggctccaGgtccctggtgagattagaaa	9	12	12	8	0	0	2	0	1	0	2	2	3	2	2	3	3	1	1	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:131892985G>T	uc003kxi.2	+	1	356	c.-31G>T	c.(-33--29)CAGGT>CATGT		RAD50_uc003kxg.1_Intron|RAD50_uc003kxh.2_Translation_Start_Site	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1						DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GTGGGCTCCAGGTCCCTGGTG	0.562								Homologous_recombination					5	54					0.000602214	0.000630257	1	1	0		T	131892985	T	T	131892985	1	4	27	1	0	0	0	0	0	0	0	0	13009	1015	35	5		5	RAD50	5	131892985	Translation_Start_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	569086	131892985	49022275	2757	25108											
RAD50	10111	broad.mit.edu	37	chr5	131976465	131976465	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaacaaatcttgaccgagaAaacattgaatctcttgcaca	17	9	5	10	1	2	3	0	2	2	1	3	4	2	3	1	0	3	1	1	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:131976465A>G	uc003kxi.2	+	24	4107	c.3720A>G	c.(3718-3720)GAA>GAG	p.E1240E	RAD50_uc003kxh.2_Silent_p.E1101E	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	1240					DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTGACCGAGAAAACATTGAAT	0.458								Homologous_recombination					13	167					0	0	1	0	0		G	131976465	G	G	131976465	2	3	27	1	0	0	0	0	0	0	0	1	13009	11	1	3		3	RAD50	5	131976465	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	83480	131976465	48938795	2758	25109											
SHROOM1	134549	broad.mit.edu	37	chr5	132159772	132159773	+	Frame_Shift_Ins	INS	-	C	C																															tggaaccaggctggccagtgINScccctggctagggcagtatt																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:132159772_132159773insC	uc003kxx.2	-	7	2385_2386	c.1580_1581insG	c.(1579-1581)GGCfs	p.G527fs	SHROOM1_uc003kxy.1_Frame_Shift_Ins_p.G527fs	NM_133456	NP_597713	Q2M3G4	SHRM1_HUMAN	shroom family member 1	527					actin filament bundle assembly|cell morphogenesis	cytoplasm|microtubule	actin filament binding			pancreas(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GCTGGCCAGTGCCCCTGGCTAG	0.579													13	27	---	---	---	---						.	C	132159773	C	C	132159772	7	5	27	1	0	1	1	0	0	0	0	0	14318	1306	46	0	993	0	SHROOM1	5	132159772	Frame_Shift_Ins	INS	-	TCGA-BR-6452-01A-12D-1800-08	183307	132159772	48755488	2759	25110											
AFF4	27125	broad.mit.edu	37	chr5	132232641	132232641	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggttgttttttgcctacagTtcttctctgtgttgtgctgt	2	21	11	7	0	2	0	0	0	2	0	3	0	2	0	1	1	3	5	1	1	1	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:132232641T>C	uc003kyd.2	-	11	2089	c.1681A>G	c.(1681-1683)ACT>GCT	p.T561A	AFF4_uc011cxk.1_Missense_Mutation_p.T239A|AFF4_uc003kye.1_Missense_Mutation_p.T561A	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	561					transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTGCCTACAGTTCTTCTCTGT	0.507													13	166					0	0	1	0	0		C	132232641	C	C	132232641	3	2	27	1	0	0	0	0	1	0	0	0	359	1725	60	3	1854	3	AFF4	5	132232641	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	72869	132232641	48682619	2760	25111											
PHF15	23338	broad.mit.edu	37	chr5	133909374	133909374	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtgacaaggcgcgagagaAcgaaacacgccatctgcaaa	15	4	12	10	4	1	2	0	1	1	1	1	5	1	2	1	2	3	1	1	2	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:133909374A>G	uc003kzo.1	+	10	1653	c.1474A>G	c.(1474-1476)ACG>GCG	p.T492A	PHF15_uc011cxt.1_Missense_Mutation_p.T492A|PHF15_uc003kzk.2_Missense_Mutation_p.T508A|PHF15_uc003kzl.2_Missense_Mutation_p.T492A|PHF15_uc003kzm.2_Missense_Mutation_p.T492A|PHF15_uc003kzn.2_Intron|PHF15_uc003kzp.2_Missense_Mutation_p.T200A	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	492					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GCGCGAGAGAACGAAACACGC	0.512													3	68					0	0	1	0	0		G	133909374	G	G	133909374	3	3	27	1	0	0	0	0	1	0	0	0	11845	43	2	3	1508	3	PHF15	5	133909374	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1676733	133909374	47005886	2761	25112											
DDX46	9879	broad.mit.edu	37	chr5	134130617	134130617	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actttccccagagctatggaGgctttggctcgcaggatcct	7	11	11	12	1	0	1	0	0	0	1	3	3	2	3	3	4	1	4	3	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:134130617G>T	uc003kzw.2	+	14	1872	c.1704G>T	c.(1702-1704)GAG>GAT	p.E568D	DDX46_uc003kzv.1_RNA	NM_014829	NP_055644	Q7L014	DDX46_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46	568	Helicase ATP-binding.				mRNA processing|RNA splicing	Cajal body|nuclear speck	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GAGCTATGGAGGCTTTGGCTC	0.468													14	179					1.49906e-05	1.60671e-05	1	1	0		T	134130617	T	T	134130617	3	4	27	1	0	0	0	0	1	0	0	0	4367	991	35	5	1758	5	DDX46	5	134130617	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	221243	134130617	46784643	2762	25113											
CATSPER3	347732	broad.mit.edu	37	chr5	134303734	134303734	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcatttctagttcaccagTtgacactacatcggtgggat	10	13	9	9	1	3	1	2	1	1	0	4	2	3	2	1	2	1	2	1	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:134303734T>C	uc003lag.2	+	1	121	c.53T>C	c.(52-54)GTT>GCT	p.V18A	PCBD2_uc011cxw.1_3'UTR	NM_178019	NP_821138	Q86XQ3	CTSR3_HUMAN	cation channel, sperm associated 3	18	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AGTTCACCAGTTGACACTACA	0.383													5	58					0	0	1	0	0		C	134303734	C	C	134303734	3	2	27	1	0	0	0	0	1	0	0	0	2692	1725	60	3	55	3	CATSPER3	5	134303734	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	173117	134303734	46611526	2763	25114											
H2AFY	9555	broad.mit.edu	37	chr5	134681658	134681658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtggctttcccacctcacCtccagctacttccaagggcc	6	9	8	18	1	1	0	1	0	0	0	4	0	4	0	6	3	2	2	6	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:134681658C>T	uc003lam.1	-	7	988	c.778G>A	c.(778-780)GCT>ACT	p.A260T	H2AFY_uc003lal.1_RNA|H2AFY_uc003lao.1_Missense_Mutation_p.A259T|H2AFY_uc003lan.1_Missense_Mutation_p.A257T|H2AFY_uc003lap.1_RNA|H2AFY_uc003laq.1_RNA|H2AFY_uc003lar.1_RNA|H2AFY_uc011cxz.1_Missense_Mutation_p.A88T|H2AFY_uc003las.1_Missense_Mutation_p.A260T|H2AFY_uc003lat.1_Missense_Mutation_p.A259T	NM_138610	NP_613258	O75367	H2AY_HUMAN	H2A histone family, member Y isoform 3	260	Macro.				chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CCCACCTCACCTCCAGCTACT	0.507													12	57					0	0	1	0	0		T	134681658	T	T	134681658	3	4	27	1	0	0	0	0	1	0	0	0	6945	695	24	4	352	4	H2AFY	5	134681658	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	377924	134681658	46233602	2764	25115											
TIFAB	497189	broad.mit.edu	37	chr5	134785592	134785592	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgggcccagcgtgggatggTacaggctcactcgcaggacg	8	6	16	11	3	1	0	1	0	0	0	2	2	1	2	1	5	2	3	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:134785592T>C	uc003law.3	-	2	239	c.38A>G	c.(37-39)TAC>TGC	p.Y13C	C5orf20_uc003lav.2_5'Flank	NM_001099221	NP_001092691	Q6ZNK6	TIFAB_HUMAN	TIFA-related protein TIFAB	13											0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CGTGGGATGGTACAGGCTCAC	0.607													6	80					0	0	1	0	0		C	134785592	C	C	134785592	3	2	27	1	0	0	0	0	1	0	0	0	15920	1638	57	3	451	3	TIFAB	5	134785592	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	103934	134785592	46129668	2765	25116											
NEUROG1	4762	broad.mit.edu	37	chr5	134871139	134871139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgcagcagcgcctcggagCggacccgcgtccggccgcgg	5	3	17	16	8	0	0	0	0	0	0	2	2	1	2	4	4	4	2	4	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:134871139C>T	uc003lax.2	-	1	501	c.242G>A	c.(241-243)CGC>CAC	p.R81H		NM_006161	NP_006152	Q92886	NGN1_HUMAN	neurogenin 1	81					positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter	nucleus	chromatin binding|E-box binding|sequence-specific DNA binding transcription factor activity|transcription factor binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CGCCTCGGAGCGGACCCGCGT	0.647													4	5					0	0	1	0	0		T	134871139	T	T	134871139	3	4	27	1	0	0	0	0	1	0	0	0	10371	768	27	1	475	1	NEUROG1	5	134871139	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	85547	134871139	46044121	2766	25117											
LOC153328	153328	broad.mit.edu	37	chr5	135207269	135207269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggcggggctataccgggggGccagtgccatgctgctgagg	5	7	19	10	2	0	1	0	1	0	0	0	1	0	1	3	7	4	3	3	7	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:135207269G>A	uc003laz.1	+	5	713	c.541G>A	c.(541-543)GCC>ACC	p.A181T	LOC153328_uc003lba.2_Intron			Q6ZT89	S2548_HUMAN	RecName: Full=Putative mitochondrial carrier protein FLJ44862;	181	Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ATACCGGGGGGCCAGTGCCAT	0.617													16	121					0	0	1	0	0		A	135207269	A	A	135207269	3	1	27	1	0	0	0	0	1	0	0	0	8888	1218	42	2		2	LOC153328	5	135207269	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	336130	135207269	45707991	2767	25118											
TRPC7	57113	broad.mit.edu	37	chr5	135692301	135692301	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtggaagagttaccttaaAttcagtctcaatgttggcta	13	13	9	6	0	2	1	2	0	1	1	3	2	2	2	1	2	1	3	1	2	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:135692301A>G	uc003lbn.1	-	1	775	c.772T>C	c.(772-774)TTT>CTT	p.F258L	TRPC7_uc010jef.1_Missense_Mutation_p.F250L|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.F250L|TRPC7_uc010jei.1_Missense_Mutation_p.F250L|TRPC7_uc010jej.1_5'UTR	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	259	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GTTACCTTAAATTCAGTCTCA	0.537													3	17					0	0	1	0	0		G	135692301	G	G	135692301	3	3	27	1	0	0	0	0	1	0	0	0	16610	101	4	3	1857	3	TRPC7	5	135692301	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	485032	135692301	45222959	2768	25119											
NME5	8382	broad.mit.edu	37	chr5	137454523	137454523	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaccaaaggatctgctggtTtttgcttacaaagctctgtg	9	15	9	8	0	2	0	0	0	2	0	2	1	2	1	1	2	5	4	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:137454523T>C	uc003lce.2	-	5	617	c.539A>G	c.(538-540)AAA>AGA	p.K180R	BRD8_uc003lcc.1_Intron	NM_003551	NP_003542	P56597	NDK5_HUMAN	non-metastatic cells 5, protein expressed in	180					anti-apoptosis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatid development|UTP biosynthetic process		ATP binding|nucleoside diphosphate kinase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			ATCTGCTGGTTTTTGCTTACA	0.269													8	37					0	0	1	0	0		C	137454523	C	C	137454523	3	2	27	1	0	0	0	0	1	0	0	0	10513	1841	64	3	107	3	NME5	5	137454523	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1762222	137454523	43460737	2769	25120											
BRD8	10902	broad.mit.edu	37	chr5	137500695	137500695	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccagtctctcttgcttgAccgtcatttctggtgcaggg	5	14	11	11	1	4	1	1	1	3	0	6	1	5	1	2	2	2	2	2	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:137500695A>G	uc003lcf.1	-	12	1494	c.1439T>C	c.(1438-1440)GTC>GCC	p.V480A	BRD8_uc003lcc.1_RNA|BRD8_uc011cyl.1_Missense_Mutation_p.V259A|BRD8_uc003lcg.2_Missense_Mutation_p.V553A|BRD8_uc003lci.2_Missense_Mutation_p.V483A|BRD8_uc003lch.2_Missense_Mutation_p.V374A|BRD8_uc011cym.1_Missense_Mutation_p.V464A|BRD8_uc010jer.1_Missense_Mutation_p.V449A|BRD8_uc011cyn.1_Missense_Mutation_p.V439A	NM_139199	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 2	480					cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CTCTTGCTTGACCGTCATTTC	0.537													12	129					0	0	1	0	0		G	137500695	G	G	137500695	3	3	27	1	0	0	0	0	1	0	0	0	1509	275	10	3	2396	3	BRD8	5	137500695	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	46172	137500695	43414565	2770	25121											
GFRA3	2676	broad.mit.edu	37	chr5	137593531	137593531	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagctgcctgaggcagacGtggcgctggcagtggggccc	6	5	18	12	2	0	2	0	1	0	1	0	2	0	2	2	5	3	5	2	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:137593531G>A	uc003lcn.2	-	4	722	c.582C>T	c.(580-582)CAC>CAT	p.H194H	GFRA3_uc003lco.2_Silent_p.H163H	NM_001496	NP_001487	O60609	GFRA3_HUMAN	GDNF family receptor alpha 3 preproprotein	194					peripheral nervous system development	anchored to membrane|cytoplasm|extrinsic to membrane|intracellular membrane-bounded organelle	receptor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			TGAGGCAGACGTGGCGCTGGC	0.662													9	37					0	0	1	0	0		A	137593531	A	A	137593531	2	1	27	1	0	0	0	0	0	0	0	1	6364	1136	40	1		1	GFRA3	5	137593531	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	92836	137593531	43321729	2771	25122											
CDC25C	995	broad.mit.edu	37	chr5	137665314	137665314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgctaagattcgaaagatCgaggcaacgttttggggttc	11	11	12	7	3	0	2	0	0	0	2	3	4	0	2	0	3	2	4	0	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:137665314C>T	uc003lcp.1	-	3	488	c.217G>A	c.(217-219)GAT>AAT	p.D73N	CDC25C_uc003lcq.1_Intron|CDC25C_uc003lcr.1_Missense_Mutation_p.D73N|CDC25C_uc011cyp.1_Missense_Mutation_p.D90N|CDC25C_uc003lcs.1_Missense_Mutation_p.D151N|CDC25C_uc010jet.1_Missense_Mutation_p.D73N|CDC25C_uc003lct.1_Missense_Mutation_p.D73N|CDC25C_uc003lcu.1_Intron	NM_001790	NP_001781	P30307	MPIP3_HUMAN	cell division cycle 25C isoform a	73					cell cycle checkpoint|cell division|cell proliferation|DNA replication|G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm	protein tyrosine phosphatase activity|WW domain binding			lung(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			TTCGAAAGATCGAGGCAACGT	0.418													13	121					0	0	1	0	0		T	137665314	T	T	137665314	3	4	27	1	0	0	0	0	1	0	0	0	3067	884	31	1	1252	1	CDC25C	5	137665314	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	71783	137665314	43249946	2772	25123											
FAM53C	51307	broad.mit.edu	37	chr5	137677511	137677511	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttagcctttgcctgatcAtgcagacatctccaactgtg	8	14	7	12	0	3	2	1	1	2	1	4	2	3	2	3	0	4	1	3	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:137677511A>G	uc003lcv.2	+	3	562	c.92A>G	c.(91-93)CAT>CGT	p.H31R	FAM53C_uc003lcw.2_Missense_Mutation_p.H31R|FAM53C_uc011cyq.1_RNA|FAM53C_uc011cyr.1_Intron	NM_001135647	NP_001129119	Q9NYF3	FA53C_HUMAN	hypothetical protein LOC51307	31										ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			TTGCCTGATCATGCAGACATC	0.463													21	108					0	0	1	0	0		G	137677511	G	G	137677511	3	3	27	1	0	0	0	0	1	0	0	0	5595	217	8	3	98	3	FAM53C	5	137677511	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	12197	137677511	43237749	2773	25124											
KDM3B	51780	broad.mit.edu	37	chr5	137722193	137722193	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcatagtggcttccgcAgctgtggtcactaccgccag	7	8	13	13	2	1	0	1	0	0	0	2	0	2	0	3	3	2	4	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:137722193A>G	uc003lcy.1	+	7	1463	c.1263A>G	c.(1261-1263)GCA>GCG	p.A421A	KDM3B_uc010jew.1_Silent_p.A77A|KDM3B_uc011cys.1_5'UTR	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	421					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						TGGCTTCCGCAGCTGTGGTCA	0.572													5	75					0	0	1	0	0		G	137722193	G	G	137722193	2	3	27	1	0	0	0	0	0	0	0	1	8143	175	7	3		3	KDM3B	5	137722193	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	44682	137722193	43193067	2774	25125											
ETF1	2107	broad.mit.edu	37	chr5	137844390	137844390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaatcctttcacaaactgaGacccttcttgtgatttatct	11	15	4	11	0	3	2	1	2	2	1	4	3	4	2	2	0	1	0	2	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:137844390G>A	uc003ldc.3	-	10	1364	c.1199C>T	c.(1198-1200)TCT>TTT	p.S400F	ETF1_uc011cyv.1_Missense_Mutation_p.S386F|ETF1_uc010jex.2_RNA|ETF1_uc003ldd.3_Missense_Mutation_p.S367F	NM_004730	NP_004721	P62495	ERF1_HUMAN	eukaryotic translation termination factor 1	400					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation|regulation of translational termination	cytoplasm	protein binding|ribosome binding|translation release factor activity, codon specific			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CACAAACTGAGACCCTTCTTG	0.443													31	211					0	0	1	0	0		A	137844390	A	A	137844390	3	1	27	1	0	0	0	0	1	0	0	0	5276	942	33	4	122	4	ETF1	5	137844390	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	122197	137844390	43070870	2775	25126											
SIL1	64374	broad.mit.edu	37	chr5	138282992	138282992	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtcaggaggacgcccagTgtctgcagcaccttctcacg	7	8	13	13	2	3	0	2	0	2	0	4	2	3	2	2	3	2	2	2	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:138282992T>C	uc003ldm.2	-	9	1217	c.1200A>G	c.(1198-1200)ACA>ACG	p.T400T	SIL1_uc003ldn.2_Silent_p.T399T|SIL1_uc003ldo.2_Silent_p.T400T|SIL1_uc003ldp.2_Silent_p.T400T	NM_022464	NP_071909	Q9H173	SIL1_HUMAN	SIL1 protein precursor	400					intracellular protein transport|protein folding|transmembrane transport	endoplasmic reticulum lumen	unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GGACGCCCAGTGTCTGCAGCA	0.677									Marinesco-Sj_gren_syndrome				6	48					0	0	1	0	0		C	138282992	C	C	138282992	2	2	27	1	0	0	0	0	0	0	0	1	14346	1683	59	3		3	SIL1	5	138282992	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	438602	138282992	42632268	2776	25127											
MATR3	9782	broad.mit.edu	37	chr5	138658651	138658651	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagcaaagaaaaagcttAaaaaggtaaagaaagataca	24	4	8	5	0	0	3	0	0	0	3	0	3	0	3	0	1	4	4	0	1	10	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:138658651A>T	uc003ldu.2	+	15	2570	c.2143A>T	c.(2143-2145)AAA>TAA	p.K715*	MATR3_uc010jfb.2_Nonsense_Mutation_p.K715*|MATR3_uc003ldt.2_Nonsense_Mutation_p.K377*|MATR3_uc003ldw.2_Nonsense_Mutation_p.K715*|MATR3_uc003ldx.2_Nonsense_Mutation_p.K715*|MATR3_uc010jfc.2_Nonsense_Mutation_p.K715*|MATR3_uc003ldy.2_Nonsense_Mutation_p.K392*|MATR3_uc011czb.1_Nonsense_Mutation_p.K427*|MATR3_uc003ldz.2_Nonsense_Mutation_p.K715*|MATR3_uc003lea.2_Nonsense_Mutation_p.K715*|MATR3_uc003leb.2_Nonsense_Mutation_p.K377*|MATR3_uc003lec.2_Nonsense_Mutation_p.K392*	NM_199189	NP_954659	P43243	MATR3_HUMAN	matrin 3	715	Nuclear localization signal (Potential).					nuclear inner membrane|nuclear matrix	nucleotide binding|protein binding|RNA binding|structural molecule activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GAAAAAGCTTAAAAAGGTAAA	0.328													7	53					0	0	1	0	0		T	138658651	T	T	138658651	4	4	27	1	0	0	0	0	0	1	0	0	9355	363	13	5	2185	5	MATR3	5	138658651	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	375659	138658651	42256609	2777	25128											
SLC23A1	9963	broad.mit.edu	37	chr5	138718265	138718265	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacttaggctctgtgggtagCggggtcgaggggtccctggt	5	10	18	8	2	1	0	0	0	1	0	3	1	2	0	1	7	2	2	1	7	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:138718265C>T	uc003leh.2	-	2	163	c.66G>A	c.(64-66)CCG>CCA	p.P22P	SLC23A1_uc003leg.2_Silent_p.P22P	NM_005847	NP_005838	Q9UHI7	S23A1_HUMAN	solute carrier family 23 (nucleobase	22					brain development|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|response to toxin|transepithelial L-ascorbic acid transport|water-soluble vitamin metabolic process	apical plasma membrane|cytoplasm|integral to plasma membrane|intracellular organelle|membrane fraction	dehydroascorbic acid transporter activity|L-ascorbate:sodium symporter activity|nucleobase transmembrane transporter activity|protein binding|sodium-dependent L-ascorbate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)		Vitamin C(DB00126)	CTGTGGGTAGCGGGGTCGAGG	0.567													17	52					0	0	1	0	0		T	138718265	T	T	138718265	2	4	27	1	0	0	0	0	0	0	0	1	14487	755	27	1		1	SLC23A1	5	138718265	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	59614	138718265	42196995	2778	25129											
MGC29506	51237	broad.mit.edu	37	chr5	138723491	138723491	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctgacaccttctctgagCaggccccctggggtccccca	5	8	11	17	0	1	2	0	2	1	0	3	2	2	2	5	4	1	2	5	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:138723491C>A	uc003lei.2	-	4	593	c.533G>T	c.(532-534)TGC>TTC	p.C178F	MGC29506_uc010jfd.2_Missense_Mutation_p.C101F|MGC29506_uc010jfe.2_Missense_Mutation_p.C148F|MGC29506_uc003lej.2_Missense_Mutation_p.C119F	NM_016459	NP_057543	Q8WU39	PERP1_HUMAN	proapoptotic caspase adapter protein precursor	178				C->S: Does not affect activity.	apoptosis|positive regulation of immunoglobulin biosynthetic process	cytoplasm|endoplasmic reticulum chaperone complex	protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CTTCTCTGAGCAGGCCCCCTG	0.582													14	62					6.94344e-10	7.67725e-10	1	1	0		A	138723491	A	A	138723491	3	1	27	1	0	0	0	0	1	0	0	0	9569	710	25	5	40	5	MGC29506	5	138723491	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5226	138723491	42191769	2779	25130											
NRG2	9542	broad.mit.edu	37	chr5	139231249	139231249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtgatagggtggcgcggtgGccctgcgccgctcctccagg	3	7	17	14	5	0	1	0	1	0	0	2	1	2	1	4	5	1	1	4	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:139231249G>A	uc003lex.1	-	9	1937	c.1712C>T	c.(1711-1713)GCC>GTC	p.A571V	NRG2_uc003lev.1_Missense_Mutation_p.A579V|NRG2_uc003lew.1_Missense_Mutation_p.A573V|NRG2_uc003ley.1_Missense_Mutation_p.A565V	NM_004883	NP_004874	O14511	NRG2_HUMAN	neuregulin 2 isoform 1	571	Cytoplasmic (Potential).				embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGCGCGGTGGCCCTGCGCCG	0.627													8	64					0	0	1	0	0		A	139231249	A	A	139231249	3	1	27	1	0	0	0	0	1	0	0	0	10667	1203	42	2	848	2	NRG2	5	139231249	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	507758	139231249	41684011	2780	25131											
SLC4A9	83697	broad.mit.edu	37	chr5	139742516	139742516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaattccagtggtcagttcGtcgggccagcaaccttcatg	8	10	11	12	2	2	0	2	0	0	0	5	0	3	0	3	2	2	3	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:139742516G>A	uc003lfm.2	+	7	934	c.899G>A	c.(898-900)CGT>CAT	p.R300H	SLC4A9_uc003lfj.2_Missense_Mutation_p.R276H|SLC4A9_uc011czg.1_Missense_Mutation_p.R276H|SLC4A9_uc003lfl.2_Missense_Mutation_p.R276H|SLC4A9_uc003lfk.2_Missense_Mutation_p.R276H	NM_031467	NP_113655	Q96Q91	B3A4_HUMAN	solute carrier family 4, sodium bicarbonate	300	Cytoplasmic (Potential).					integral to membrane|plasma membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTCAGTTCGTCGGGCCAGC	0.537											OREG0016461	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	116					0	0	1	0	0		A	139742516	A	A	139742516	3	1	27	1	0	0	0	0	1	0	0	0	14685	1145	40	1	853	1	SLC4A9	5	139742516	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	511267	139742516	41172744	2781	25132											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139884538	139884538	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtgtatccttcagttgAcattgatgcacatgtgagta	9	15	9	8	0	1	3	1	3	0	0	3	3	3	3	2	0	1	4	2	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:139884538A>G	uc003lfs.1	+	16	3261	c.3137A>G	c.(3136-3138)GAC>GGC	p.D1046G	ANKHD1_uc003lfq.1_Missense_Mutation_p.D1065G|ANKHD1_uc003lfr.2_Missense_Mutation_p.D1046G|ANKHD1_uc003lft.1_Missense_Mutation_p.D257G|ANKHD1_uc003lfu.1_Missense_Mutation_p.D526G|ANKHD1_uc003lfv.1_Missense_Mutation_p.D123G	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1046						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTTCAGTTGACATTGATGCA	0.383													6	95					0	0	1	0	0		G	139884538	G	G	139884538	3	3	27	1	0	0	0	0	1	0	0	0	629	275	10	3	3199	3	ANKHD1-EIF4EBP3	5	139884538	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	142022	139884538	41030722	2782	25133											
APBB3	10307	broad.mit.edu	37	chr5	139941253	139941253	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatggcacttgagcatacaGctatctttgtcacttgccac	10	12	7	12	0	2	1	1	1	1	0	2	1	2	1	1	1	4	3	1	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:139941253G>A	uc003lgd.1	-	7	1040	c.681C>T	c.(679-681)AGC>AGT	p.S227S	APBB3_uc003lgb.1_5'UTR|APBB3_uc003lgc.1_5'UTR|APBB3_uc003lge.1_Silent_p.S220S|APBB3_uc003lgf.1_RNA|APBB3_uc010jfp.1_RNA|APBB3_uc011czi.1_5'UTR|APBB3_uc010jfq.1_5'UTR	NM_133172	NP_573418	O95704	APBB3_HUMAN	amyloid beta precursor protein-binding, family	222	PID 1.					actin cytoskeleton|cytoplasm				ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAGCATACAGCTATCTTTGT	0.567													8	79					0	0	1	0	0		A	139941253	A	A	139941253	2	1	27	1	0	0	0	0	0	0	0	1	762	962	34	2		2	APBB3	5	139941253	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	56715	139941253	40974007	2783	25134											
SLC35A4	113829	broad.mit.edu	37	chr5	139947206	139947206	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgctgctgctgctgatggCtgcgggagcctgctatgcag	5	9	16	11	2	0	1	0	1	0	0	0	2	0	2	1	2	8	7	1	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:139947206C>A	uc003lgg.1	+	3	1180	c.452C>A	c.(451-453)GCT>GAT	p.A151D	SLC35A4_uc003lgh.1_Missense_Mutation_p.A151D	NM_080670	NP_542401	Q96G79	S35A4_HUMAN	solute carrier family 35, member A4	151	Leu-rich.|Helical; (Potential).					Golgi membrane|integral to membrane	sugar:hydrogen symporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCTGATGGCTGCGGGAGCC	0.627													4	61					1	1	1	1	0		A	139947206	A	A	139947206	3	1	27	1	0	0	0	0	1	0	0	0	14598	797	28	5	454	5	SLC35A4	5	139947206	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5953	139947206	40968054	2784	25135											
IK	3550	broad.mit.edu	37	chr5	140038640	140038640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagagacagagaccgtgaccGagagcgagagcgagaacgag	16	1	16	8	5	0	6	0	1	0	5	0	12	0	6	2	0	3	0	2	0	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140038640G>A	uc003lgq.2	+	12	1177	c.1067G>A	c.(1066-1068)CGA>CAA	p.R356Q		NM_006083	NP_006074	Q13123	RED_HUMAN	RED protein	356	8.|17 X 2 AA tandem repeats of R-[ED].				cell-cell signaling|immune response	extracellular space|nucleus|soluble fraction				large_intestine(1)	1		all_hematologic(541;4.8e-07)|all_lung(500;0.000434)|Lung NSC(810;0.00161)|Breast(839;0.128)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			gaccgtgaccgagagcgagag	0.149													4	37					0	0	1	0	0		A	140038640	A	A	140038640	3	1	27	1	0	0	0	0	1	0	0	0	7624	1058	37	1	1113	1	IK	5	140038640	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	91434	140038640	40876620	2785	25136											
WDR55	54853	broad.mit.edu	37	chr5	140048054	140048054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttctagatgtggagcaggGccaactggaaagacgtgttt	10	11	14	6	1	1	2	0	0	1	2	1	4	1	4	1	3	2	3	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140048054G>A	uc003lgr.3	+	3	461	c.347G>A	c.(346-348)GGC>GAC	p.G116D	WDR55_uc011czl.1_5'Flank	NM_017706	NP_060176	Q9H6Y2	WDR55_HUMAN	WD repeat domain 55	116	WD 2.				rRNA processing	cytoplasm|nucleolus				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGAGCAGGGCCAACTGGAA	0.537													8	164					0	0	1	0	0		A	140048054	A	A	140048054	3	1	27	1	0	0	0	0	1	0	0	0	17333	1203	42	2	357	2	WDR55	5	140048054	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9414	140048054	40867206	2786	25137											
PCDHA2	56146	broad.mit.edu	37	chr5	140176593	140176593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacccaaggcctcgtcgcggGcgtgggtgggcgccgcgggc	3	4	19	15	7	0	0	0	0	0	0	2	0	0	0	3	5	0	0	3	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140176593G>A	uc003lhd.2	+	1	2150	c.2044G>A	c.(2044-2046)GCG>ACG	p.A682T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.A682T|PCDHA2_uc011czy.1_Missense_Mutation_p.A682T	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	682	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCGTCGCGGGCGTGGGTGGG	0.647													13	118					0	0	1	0	0		A	140176593	A	A	140176593	3	1	27	1	0	0	0	0	1	0	0	0	11543	1203	42	2	2046	2	PCDHA2	5	140176593	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	128539	140176593	40738667	2787	25138											
PCDHA2	56146	broad.mit.edu	37	chr5	140176640	140176640	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctacgctggtggatgtcaaCgtgtacctgatcatcgccat	8	11	11	11	3	2	1	2	1	0	0	3	2	2	2	2	2	3	3	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140176640C>T	uc003lhd.2	+	1	2197	c.2091C>T	c.(2089-2091)AAC>AAT	p.N697N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.N697N|PCDHA2_uc011czy.1_Silent_p.N697N	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	697	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGATGTCAACGTGTACCTGA	0.657													15	132					0	0	1	0	0		T	140176640	T	T	140176640	2	4	27	1	0	0	0	0	0	0	0	1	11543	535	19	1		1	PCDHA2	5	140176640	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	47	140176640	40738620	2788	25139											
PCDHA3	56145	broad.mit.edu	37	chr5	140182255	140182255	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagaacgccctggtgtcCtactcgctggtggaacggcg	7	7	15	12	4	0	1	0	0	0	1	2	3	1	2	2	5	3	1	2	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140182255C>A	uc003lhf.2	+	1	1473	c.1473C>A	c.(1471-1473)TCC>TCA	p.S491S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.S491S	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	491	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTGGTGTCCTACTCGCTGG	0.682													10	103					1.58986e-06	1.72494e-06	1	1	0		A	140182255	A	A	140182255	2	1	27	1	0	0	0	0	0	0	0	1	11544	668	24	5		5	PCDHA3	5	140182255	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5615	140182255	40733005	2789	25140											
PCDHA4	56144	broad.mit.edu	37	chr5	140188402	140188402	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgcgatgccggcgtgccaCctctgggcagcaacgtgacg	6	6	14	15	6	1	1	0	1	1	0	2	2	1	1	3	2	4	2	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140188402C>A	uc003lhi.2	+	1	1731	c.1630C>A	c.(1630-1632)CCT>ACT	p.P544T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.P544T|PCDHA4_uc011daa.1_Missense_Mutation_p.P544T	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	544	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGCGTGCCACCTCTGGGCAG	0.667													6	96					5.18039e-06	5.59131e-06	1	1	0		A	140188402	A	A	140188402	3	1	27	1	0	0	0	0	1	0	0	0	11545	507	18	5	1632	5	PCDHA4	5	140188402	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6147	140188402	40726858	2790	25141											
PCDHA5	56143	broad.mit.edu	37	chr5	140202809	140202809	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcacgggacgcggacgcGcaggagaacgccctggtgtc	7	5	16	13	6	1	1	0	0	1	1	2	4	1	3	1	4	2	2	1	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140202809G>A	uc003lhl.2	+	1	1449	c.1449G>A	c.(1447-1449)GCG>GCA	p.A483A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.A483A|PCDHA5_uc003lhj.1_Silent_p.A483A	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	483	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGCGGACGCGCAGGAGAACG	0.667													17	80					0	0	1	0	0		A	140202809	A	A	140202809	2	1	27	1	0	0	0	0	0	0	0	1	11546	1074	38	1		1	PCDHA5	5	140202809	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	14407	140202809	40712451	2791	25142											
PCDHA5	56143	broad.mit.edu	37	chr5	140203209	140203209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagccagcgcctggcagtGcgcgcatcccgttccgcgtg	4	7	14	16	6	0	0	0	0	0	0	2	0	2	0	4	1	4	4	4	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140203209G>A	uc003lhl.2	+	1	1849	c.1849G>A	c.(1849-1851)GCG>ACG	p.A617T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.A617T|PCDHA5_uc003lhj.1_Missense_Mutation_p.A617T	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	617	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCTGGCAGTGCGCGCATCCC	0.652													24	55					0	0	1	0	0		A	140203209	A	A	140203209	3	1	27	1	0	0	0	0	1	0	0	0	11546	1319	46	2	1851	2	PCDHA5	5	140203209	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	400	140203209	40712051	2792	25143											
PCDHA6	56142	broad.mit.edu	37	chr5	140207924	140207924	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaaatctgcagaatggcaTtttgtttgtgaattctcgga	10	15	11	5	1	2	2	0	1	2	1	3	3	2	3	0	3	1	4	0	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140207924T>C	uc003lho.2	+	1	275	c.248T>C	c.(247-249)ATT>ACT	p.I83T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.I83T|PCDHA6_uc011dab.1_Missense_Mutation_p.I83T	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	83	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGAATGGCATTTTGTTTGTG	0.622													22	216					0	0	1	0	0		C	140207924	C	C	140207924	3	2	27	1	0	0	0	0	1	0	0	0	11547	1493	52	3	250	3	PCDHA6	5	140207924	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4715	140207924	40707336	2793	25144											
PCDHA6	56142	broad.mit.edu	37	chr5	140209242	140209242	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggtgtacgcgctgcagccGctggaccacgaggagctaga	10	5	15	11	4	0	1	0	0	0	1	0	4	0	3	2	3	4	5	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140209242G>A	uc003lho.2	+	1	1593	c.1566G>A	c.(1564-1566)CCG>CCA	p.P522P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.P522P|PCDHA6_uc011dab.1_Silent_p.P522P	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	522	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCTGCAGCCGCTGGACCACG	0.682													5	181					0	0	1	0	0		A	140209242	A	A	140209242	2	1	27	1	0	0	0	0	0	0	0	1	11547	1074	38	1		1	PCDHA6	5	140209242	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1318	140209242	40706018	2794	25145											
PCDHA7	56141	broad.mit.edu	37	chr5	140214222	140214222	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgcagaatggcattttgtTtgtgaattctcggatcgacc	8	15	10	8	2	2	2	0	1	2	1	4	4	2	3	1	2	1	3	1	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140214222T>C	uc003lhq.2	+	1	254	c.254T>C	c.(253-255)TTT>TCT	p.F85S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.F85S	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	85	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCATTTTGTTTGTGAATTCT	0.607													23	250					0	0	1	0	0		C	140214222	C	C	140214222	3	2	27	1	0	0	0	0	1	0	0	0	11548	1841	64	3	256	3	PCDHA7	5	140214222	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4980	140214222	40701038	2795	25146											
PCDHA8	56140	broad.mit.edu	37	chr5	140222879	140222879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaggatcatggtgaacctgCgctgaccgccacggccacgg	9	5	14	13	4	1	2	1	2	0	0	1	4	1	3	4	4	2	1	4	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140222879C>T	uc003lhs.2	+	1	1973	c.1973C>T	c.(1972-1974)GCG>GTG	p.A658V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.A658V	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	658	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGAACCTGCGCTGACCGCC	0.652													23	76					0	0	1	0	0		T	140222879	T	T	140222879	3	4	27	1	0	0	0	0	1	0	0	0	11549	768	27	1	1975	1	PCDHA8	5	140222879	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8657	140222879	40692381	2796	25147											
PCDHA9	9752	broad.mit.edu	37	chr5	140230182	140230182	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtcaacgtgtacctgaTcatcgccatctgcgcggtgt	7	11	12	11	4	3	1	2	1	1	0	4	2	3	2	2	2	3	1	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140230182T>C	uc003lhu.2	+	1	2826	c.2102T>C	c.(2101-2103)ATC>ACC	p.I701T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.I701T	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	701	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGTACCTGATCATCGCCATC	0.662													5	88					0	0	1	0	0		C	140230182	C	C	140230182	3	2	27	1	0	0	0	0	1	0	0	0	11550	1435	50	3	2104	3	PCDHA9	5	140230182	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7303	140230182	40685078	2797	25148											
PCDHA11	56138	broad.mit.edu	37	chr5	140248964	140248964	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaattctcggatcgaccgCgaggagctgtgcgggcagag	8	7	17	9	5	1	2	0	1	1	1	3	6	1	4	1	3	2	2	1	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140248964C>T	uc003lia.2	+	1	1134	c.276C>T	c.(274-276)CGC>CGT	p.R92R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Silent_p.R92R	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	92	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGATCGACCGCGAGGAGCTGT	0.577													18	246					0	0	1	0	0		T	140248964	T	T	140248964	2	4	27	1	0	0	0	0	0	0	0	1	11540	755	27	1		1	PCDHA11	5	140248964	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18782	140248964	40666296	2798	25149											
PCDHA11	56138	broad.mit.edu	37	chr5	140249904	140249904	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttcaagaattactactcgTtggtgctggacagcgccctg	8	11	10	12	2	1	1	1	0	0	1	2	2	1	2	2	2	4	2	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140249904T>C	uc003lia.2	+	1	2074	c.1216T>C	c.(1216-1218)TTG>CTG	p.L406L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Silent_p.L406L	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	406	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTACTACTCGTTGGTGCTGGA	0.617													16	152					0	0	1	0	0		C	140249904	C	C	140249904	2	2	27	1	0	0	0	0	0	0	0	1	11540	1722	60	3		3	PCDHA11	5	140249904	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	940	140249904	40665356	2799	25150											
PCDHA11	56138	broad.mit.edu	37	chr5	140250499	140250499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggactcaggctacaacgCgtggctttcatatgaattgc	9	11	11	10	3	2	1	2	1	0	0	2	2	2	2	0	3	4	2	0	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140250499C>T	uc003lia.2	+	1	2669	c.1811C>T	c.(1810-1812)GCG>GTG	p.A604V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.A604V	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	604	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCTACAACGCGTGGCTTTCA	0.667													9	90					0	0	1	0	0		T	140250499	T	T	140250499	3	4	27	1	0	0	0	0	1	0	0	0	11540	768	27	1	1813	1	PCDHA11	5	140250499	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	595	140250499	40664761	2800	25151											
PCDHA11	56138	broad.mit.edu	37	chr5	140250882	140250882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccactgagggcgcgtgcGcgccggggaagcccacgctg	5	3	17	16	7	0	1	0	1	0	0	0	2	0	2	3	3	2	1	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140250882G>A	uc003lia.2	+	1	3052	c.2194G>A	c.(2194-2196)GCG>ACG	p.A732T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.A732T	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	732	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCGCGTGCGCGCCGGGGAA	0.677													9	27					0	0	1	0	0		A	140250882	A	A	140250882	3	1	27	1	0	0	0	0	1	0	0	0	11540	1087	38	1	2196	1	PCDHA11	5	140250882	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	383	140250882	40664378	2801	25152											
PCDHA12	56137	broad.mit.edu	37	chr5	140256548	140256548	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctactcgctggtggagcgGcgggtgggcgagcacgcact	5	7	17	12	5	0	0	0	0	0	0	2	2	1	1	1	5	3	3	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140256548G>A	uc003lic.2	+	1	1618	c.1491G>A	c.(1489-1491)CGG>CGA	p.R497R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.R497R	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	497	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTGGAGCGGCGGGTGGGCG	0.672													10	63					0	0	1	0	0		A	140256548	A	A	140256548	2	1	27	1	0	0	0	0	0	0	0	1	11541	1190	42	2		2	PCDHA12	5	140256548	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5666	140256548	40658712	2802	25153											
PCDHA13	56136	broad.mit.edu	37	chr5	140263955	140263955	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtcaatgtttacttgaTcattgccatctgcgcggtgt	7	15	11	8	2	3	1	2	1	1	0	3	2	3	2	1	2	3	1	1	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140263955T>C	uc003lif.2	+	1	2102	c.2102T>C	c.(2101-2103)ATC>ACC	p.I701T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.I701T|PCDHA13_uc003lid.2_Missense_Mutation_p.I701T	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	701	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTTACTTGATCATTGCCATC	0.662													7	100					0	0	1	0	0		C	140263955	C	C	140263955	3	2	27	1	0	0	0	0	1	0	0	0	11542	1435	50	3	2104	3	PCDHA13	5	140263955	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7407	140263955	40651305	2803	25154											
PCDHB1	29930	broad.mit.edu	37	chr5	140431551	140431551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctggacgtgggccttaacGgtctccagaactacaccctg	9	9	10	13	2	2	1	0	0	2	1	3	2	2	2	3	3	3	0	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140431551G>A	uc003lik.1	+	1	573	c.496G>A	c.(496-498)GGT>AGT	p.G166S		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	166	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGGCCTTAACGGTCTCCAGAA	0.542													8	60					0	0	1	0	0		A	140431551	A	A	140431551	3	1	27	1	0	0	0	0	1	0	0	0	11553	1116	39	1	498	1	PCDHB1	5	140431551	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	167596	140431551	40483709	2804	25155											
PCDHB1	29930	broad.mit.edu	37	chr5	140433299	140433299	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggacaaggcaatggatcCttatctcggccttgtccata	11	10	9	11	1	1	0	0	0	1	0	4	2	3	2	3	4	0	1	3	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140433299C>A	uc003lik.1	+	1	2321	c.2244C>A	c.(2242-2244)TCC>TCA	p.S748S		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	748	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCAATGGATCCTTATCTCGGC	0.398													8	84					0.00307968	0.00318367	1	1	0		A	140433299	A	A	140433299	2	1	27	1	0	0	0	0	0	0	0	1	11553	668	24	5		5	PCDHB1	5	140433299	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1748	140433299	40481961	2805	25156											
PCDHB3	56132	broad.mit.edu	37	chr5	140481490	140481490	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagatccgagtacaacatTaccatcactatcactgacct	14	9	4	14	1	2	2	2	1	0	1	3	3	3	2	4	0	3	1	4	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140481490T>C	uc003lio.2	+	1	1257	c.1257T>C	c.(1255-1257)ATT>ATC	p.I419I	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	419	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGTACAACATTACCATCACTA	0.512													11	90					0	0	1	0	0		C	140481490	C	C	140481490	2	2	27	1	0	0	0	0	0	0	0	1	11562	1742	61	3		3	PCDHB3	5	140481490	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	48191	140481490	40433770	2806	25157											
PCDHB4	56131	broad.mit.edu	37	chr5	140501585	140501585	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacctggactccaacatgaAgaagctagggagaattcatc	14	7	11	9	0	1	3	1	1	0	2	3	6	2	5	2	3	2	1	2	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140501585A>G	uc003lip.1	+	1	5	c.5A>G	c.(4-6)AAG>AGG	p.K2R		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	2					calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCAACATGAAGAAGCTAGGG	0.458													12	41					0	0	1	0	0		G	140501585	G	G	140501585	3	3	27	1	0	0	0	0	1	0	0	0	11563	72	3	3	7	3	PCDHB4	5	140501585	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20095	140501585	40413675	2807	25158											
PCDHB5	26167	broad.mit.edu	37	chr5	140515442	140515442	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaggaaatgctcctaaaaatCccagagagcacccagccagg	16	4	9	12	0	0	1	0	0	0	1	2	3	2	2	4	2	3	2	4	2	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140515442C>T	uc003liq.2	+	1	643	c.426C>T	c.(424-426)ATC>ATT	p.I142I		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	142	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCTAAAAATCCCAGAGAGCA	0.438													20	81					0	0	1	0	0		T	140515442	T	T	140515442	2	4	27	1	0	0	0	0	0	0	0	1	11564	845	30	4		4	PCDHB5	5	140515442	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13857	140515442	40399818	2808	25159											
PCDHB5	26167	broad.mit.edu	37	chr5	140515648	140515648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggcctgagctcagcttaaCactcactgcactggacggtg	8	8	12	13	2	2	1	2	1	0	0	2	2	2	2	1	3	4	3	1	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140515648C>T	uc003liq.2	+	1	849	c.632C>T	c.(631-633)ACA>ATA	p.T211I		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	211	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTCAGCTTAACACTCACTGCA	0.547													7	104					0	0	1	0	0		T	140515648	T	T	140515648	3	4	27	1	0	0	0	0	1	0	0	0	11564	478	17	4	634	4	PCDHB5	5	140515648	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	206	140515648	40399612	2809	25160											
PCDHB5	26167	broad.mit.edu	37	chr5	140516313	140516313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacacccaggctgaaaaccGagcacaacataacggtcctg	14	4	10	13	2	0	1	0	1	0	0	1	3	1	2	3	3	4	2	3	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140516313G>A	uc003liq.2	+	1	1514	c.1297G>A	c.(1297-1299)GAG>AAG	p.E433K		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	433	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTGAAAACCGAGCACAACAT	0.562													10	94					0	0	1	0	0		A	140516313	A	A	140516313	3	1	27	1	0	0	0	0	1	0	0	0	11564	1059	37	1	1299	1	PCDHB5	5	140516313	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	665	140516313	40398947	2810	25161											
PCDHB5	26167	broad.mit.edu	37	chr5	140516700	140516700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaactcgcccttcgtgctgTatccgctgcagaacggctcg	7	9	10	15	5	0	1	0	0	0	1	4	1	1	1	2	1	4	5	2	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140516700T>C	uc003liq.2	+	1	1901	c.1684T>C	c.(1684-1686)TAT>CAT	p.Y562H		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	562	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTTCGTGCTGTATCCGCTGCA	0.726													4	48					0	0	1	0	0		C	140516700	C	C	140516700	3	2	27	1	0	0	0	0	1	0	0	0	11564	1638	57	3	1686	3	PCDHB5	5	140516700	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	387	140516700	40398560	2811	25162											
PCDHB6	56130	broad.mit.edu	37	chr5	140531928	140531928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcgttggcctcggtgtcgtCgctcttcctcttttcggtgc	0	15	13	13	5	2	0	0	0	2	0	7	0	3	0	2	4	1	2	2	4	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140531928C>T	uc003lir.2	+	1	2090	c.2090C>T	c.(2089-2091)TCG>TTG	p.S697L	PCDHB6_uc011dah.1_Missense_Mutation_p.S561L	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	697	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGGTGTCGTCGCTCTTCCTC	0.682													19	151					0	0	1	0	0		T	140531928	T	T	140531928	3	4	27	1	0	0	0	0	1	0	0	0	11565	893	31	1	2092	1	PCDHB6	5	140531928	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15228	140531928	40383332	2812	25163											
PCDHB7	56129	broad.mit.edu	37	chr5	140553330	140553330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcagtcttcatcttaaagCgcaattggactatgaggcaa	12	11	10	8	1	3	1	1	1	2	0	3	2	3	2	0	3	1	3	0	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140553330C>T	uc003lit.2	+	1	1088	c.914C>T	c.(913-915)GCG>GTG	p.A305V		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	305	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CATCTTAAAGCGCAATTGGAC	0.413													8	79					0	0	1	0	0		T	140553330	T	T	140553330	3	4	27	1	0	0	0	0	1	0	0	0	11566	768	27	1	916	1	PCDHB7	5	140553330	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21402	140553330	40361930	2813	25164											
PCDHB7	56129	broad.mit.edu	37	chr5	140554272	140554272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggctattcggcgtgtgggCgcacaatggcgaggtgcgta	6	8	18	9	6	0	0	0	0	0	0	1	1	0	0	0	5	1	3	0	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140554272C>T	uc003lit.2	+	1	2030	c.1856C>T	c.(1855-1857)GCG>GTG	p.A619V		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	619	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCGTGTGGGCGCACAATGGC	0.687													5	156					0	0	1	0	0		T	140554272	T	T	140554272	3	4	27	1	0	0	0	0	1	0	0	0	11566	768	27	1	1858	1	PCDHB7	5	140554272	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	942	140554272	40360988	2814	25165											
PCDHB7	56129	broad.mit.edu	37	chr5	140554319	140554319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgctgagcgagcgcgacGcagccaagcagaggctggtg	8	4	18	11	4	0	2	0	1	0	1	0	4	0	2	1	3	5	5	1	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140554319G>A	uc003lit.2	+	1	2077	c.1903G>A	c.(1903-1905)GCA>ACA	p.A635T		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	635	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGAGCGCGACGCAGCCAAGCA	0.687													8	159					0	0	1	0	0		A	140554319	A	A	140554319	3	1	27	1	0	0	0	0	1	0	0	0	11566	1087	38	1	1905	1	PCDHB7	5	140554319	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	47	140554319	40360941	2815	25166											
PCDHB7	56129	broad.mit.edu	37	chr5	140554538	140554538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcggtgctcctgttcgtgGcggtgcggctgtgcaggagg	2	11	18	10	4	1	0	0	0	1	0	4	1	2	1	1	6	3	4	1	6	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140554538G>A	uc003lit.2	+	1	2296	c.2122G>A	c.(2122-2124)GCG>ACG	p.A708T	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	708	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTGTTCGTGGCGGTGCGGCT	0.697													16	273					0	0	1	0	0		A	140554538	A	A	140554538	3	1	27	1	0	0	0	0	1	0	0	0	11566	1203	42	2	2124	2	PCDHB7	5	140554538	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	219	140554538	40360722	2816	25167											
PCDHB8	56128	broad.mit.edu	37	chr5	140559013	140559013	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcgtccgcgagaacaacagCcccgccctgcacatcggcag	9	5	10	17	5	0	1	0	0	0	1	3	2	1	1	4	1	4	2	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140559013C>T	uc011dai.1	+	1	1584	c.1398C>T	c.(1396-1398)AGC>AGT	p.S466S	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	466	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGAACAACAGCCCCGCCCTGC	0.632													27	216					0	0	1	0	0		T	140559013	T	T	140559013	2	4	27	1	0	0	0	0	0	0	0	1	11567	738	26	2		2	PCDHB8	5	140559013	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4475	140559013	40356247	2817	25168											
PCDHB8	56128	broad.mit.edu	37	chr5	140559044	140559044	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcggcagcgtcagcgccAcagacagagactcgggcacc	11	3	12	15	4	1	2	1	0	0	2	3	3	1	2	2	2	2	2	2	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140559044A>G	uc011dai.1	+	1	1615	c.1429A>G	c.(1429-1431)ACA>GCA	p.T477A	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	477	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGTCAGCGCCACAGACAGAGA	0.652													12	183					0	0	1	0	0		G	140559044	G	G	140559044	3	3	27	1	0	0	0	0	1	0	0	0	11567	159	6	3	1431	3	PCDHB8	5	140559044	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	31	140559044	40356216	2818	25169											
PCDHB8	56128	broad.mit.edu	37	chr5	140559515	140559515	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgccaggctgctgagcgagCgcgacgcggccaagcagagg	8	2	17	14	6	0	2	0	1	0	1	0	4	0	2	3	3	4	3	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140559515C>T	uc011dai.1	+	1	2086	c.1900C>T	c.(1900-1902)CGC>TGC	p.R634C	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	634	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTGAGCGAGCGCGACGCGGC	0.692													5	63					0	0	1	0	0		T	140559515	T	T	140559515	3	4	27	1	0	0	0	0	1	0	0	0	11567	768	27	1	1902	1	PCDHB8	5	140559515	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	471	140559515	40355745	2819	25170											
PCDHB16	57717	broad.mit.edu	37	chr5	140564217	140564217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctacctggtggtggcgttgGcctcggtgtcgtcgctcttc	1	14	14	12	4	2	0	0	0	2	0	6	0	2	0	2	5	1	2	2	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140564217G>A	uc003liv.2	+	1	3238	c.2083G>A	c.(2083-2085)GCC>ACC	p.A695T	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	695	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGTGGCGTTGGCCTCGGTGTC	0.697													10	146					0	0	1	0	0		A	140564217	A	A	140564217	3	1	27	1	0	0	0	0	1	0	0	0	11560	1203	42	2	2085	2	PCDHB16	5	140564217	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4702	140564217	40351043	2820	25171											
PCDHB9	56127	broad.mit.edu	37	chr5	140568905	140568905	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcttctcccagccctacctgCctctcccggaggcggccccg	3	7	10	21	3	2	0	0	0	2	0	4	1	2	1	7	3	3	1	7	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140568905C>T	uc003liw.1	+	3	2014	c.2014C>T	c.(2014-2016)CCT>TCT	p.P672S		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	672	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCCTACCTGCCTCTCCCGGA	0.687													15	130					0	0	1	0	0		T	140568905	T	T	140568905	3	4	27	1	0	0	0	0	1	0	0	0	11568	747	26	2	2015	2	PCDHB9	5	140568905	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4688	140568905	40346355	2821	25172											
PCDHB12	56124	broad.mit.edu	37	chr5	140589857	140589857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttcctacgccctgttcGtccgcgagaacaacagcccc	10	7	7	17	4	0	1	0	0	0	1	3	2	2	1	5	0	5	1	5	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140589857G>A	uc003liz.2	+	1	1567	c.1378G>A	c.(1378-1380)GTC>ATC	p.V460I	PCDHB12_uc011dak.1_Missense_Mutation_p.V123I	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	460	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCCCTGTTCGTCCGCGAGAA	0.622													38	73					0	0	1	0	0		A	140589857	A	A	140589857	3	1	27	1	0	0	0	0	1	0	0	0	11556	1145	40	1	1380	1	PCDHB12	5	140589857	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20952	140589857	40325403	2822	25173											
PCDHB14	56122	broad.mit.edu	37	chr5	140603685	140603685	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatagagctttagattatgAacaggaagctgaactcagat	16	10	10	5	0	1	6	1	2	0	4	1	7	1	7	0	1	4	2	0	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140603685A>G	uc003ljb.2	+	1	608	c.608A>G	c.(607-609)GAA>GGA	p.E203G	PCDHB14_uc011dal.1_Missense_Mutation_p.E50G	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	203	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTAGATTATGAACAGGAAGCT	0.438													11	70					0	0	1	0	0		G	140603685	G	G	140603685	3	3	27	1	0	0	0	0	1	0	0	0	11558	246	9	3	610	3	PCDHB14	5	140603685	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	13828	140603685	40311575	2823	25174											
PCDHB14	56122	broad.mit.edu	37	chr5	140605248	140605248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggcggcctcggtgggtcGctgctcggtgcccgagggtc	2	7	19	13	5	0	0	0	0	0	0	4	1	0	0	2	6	2	2	2	6	0	0	rs142658705		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140605248G>A	uc003ljb.2	+	1	2171	c.2171G>A	c.(2170-2172)CGC>CAC	p.R724H	PCDHB14_uc011dal.1_Missense_Mutation_p.R571H	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	724	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGGTGGGTCGCTGCTCGGTG	0.662													46	131					0	0	1	0	0		A	140605248	A	A	140605248	3	1	27	1	0	0	0	0	1	0	0	0	11558	1087	38	1	2173	1	PCDHB14	5	140605248	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1563	140605248	40310012	2824	25175											
PCDHB15	56121	broad.mit.edu	37	chr5	140626180	140626180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgttaacgataacttccCggaactaagtatttcatcac	13	12	7	9	2	2	0	2	0	0	0	3	3	3	2	1	2	3	2	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140626180C>T	uc003lje.2	+	1	1034	c.1034C>T	c.(1033-1035)CCG>CTG	p.P345L		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	345	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GATAACTTCCCGGAACTAAGT	0.453													6	83					0	0	1	0	0		T	140626180	T	T	140626180	3	4	27	1	0	0	0	0	1	0	0	0	11559	652	23	1	1036	1	PCDHB15	5	140626180	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20932	140626180	40289080	2825	25176											
SLC25A2	83884	broad.mit.edu	37	chr5	140683071	140683071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtggggcagagagccagtGcagcaaatgcagaggcgaag	13	3	17	8	1	0	2	0	0	0	2	0	4	0	2	1	3	4	4	1	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140683071G>A	uc003ljf.2	-	1	542	c.362C>T	c.(361-363)GCA>GTA	p.A121V		NM_031947	NP_114153	Q9BXI2	ORNT2_HUMAN	solute carrier family 25 member 2	121	Helical; Name=3; (Potential).|Solcar 2.				mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity			ovary(1)	1		all_lung(500;0.000249)|Lung NSC(810;0.0011)|Ovarian(839;0.00556)|Breast(839;0.0173)|all_hematologic(541;0.152)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.00204)	L-Ornithine(DB00129)	GAGAGCCAGTGCAGCAAATGC	0.522													9	128					0	0	1	0	0		A	140683071	A	A	140683071	3	1	27	1	0	0	0	0	1	0	0	0	14507	1319	46	2	547	2	SLC25A2	5	140683071	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	56891	140683071	40232189	2826	25177											
SLC25A2	83884	broad.mit.edu	37	chr5	140683297	140683297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggaagcagtcggtgaggcCcttgtacaggtcagggaacg	10	6	16	9	2	1	1	1	1	0	0	2	3	1	3	1	5	3	2	1	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140683297C>T	uc003ljf.2	-	1	316	c.136G>A	c.(136-138)GGC>AGC	p.G46S		NM_031947	NP_114153	Q9BXI2	ORNT2_HUMAN	solute carrier family 25 member 2	46	Solcar 1.				mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity			ovary(1)	1		all_lung(500;0.000249)|Lung NSC(810;0.0011)|Ovarian(839;0.00556)|Breast(839;0.0173)|all_hematologic(541;0.152)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.00204)	L-Ornithine(DB00129)	TCGGTGAGGCCCTTGTACAGG	0.607													7	80					0	0	1	0	0		T	140683297	T	T	140683297	3	4	27	1	0	0	0	0	1	0	0	0	14507	623	22	4	773	4	SLC25A2	5	140683297	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	226	140683297	40231963	2827	25178											
TAF7	6879	broad.mit.edu	37	chr5	140699608	140699608	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatcatctttgcttttacTcatctttatttccttgtgat	7	21	4	9	0	4	1	2	1	2	0	5	1	5	1	1	0	3	2	1	0	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140699608T>A	uc003ljg.2	-	1	744	c.4A>T	c.(4-6)AGT>TGT	p.S2C		NM_005642	NP_005633	Q15545	TAF7_HUMAN	TATA box-binding protein-associated factor 2F	2					negative regulation of histone acetylation|negative regulation of protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|spermine transport|transcription initiation from RNA polymerase II promoter	Golgi apparatus|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	histone acetyltransferase binding|thyroid hormone receptor binding|transcription coactivator activity|transcription regulatory region DNA binding|vitamin D receptor binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGCTTTTACTCATCTTTATT	0.408											OREG0016852	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	45					0	0	1	0	0		A	140699608	A	A	140699608	3	1	27	1	0	0	0	0	1	0	0	0	15557	1551	54	5	1049	5	TAF7	5	140699608	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	16311	140699608	40215652	2828	25179											
PCDHGA2	56113	broad.mit.edu	37	chr5	140719387	140719387	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggtatattttctagagaaAagccctggagaaacctcaga	14	10	10	7	0	2	3	1	0	1	3	2	5	2	3	2	2	2	1	2	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140719387A>G	uc003ljk.1	+	1	1034	c.849A>G	c.(847-849)AAA>AAG	p.K283K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Silent_p.K283K	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	283	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCTAGAGAAAAGCCCTGGAG	0.463													13	199					0	0	1	0	0		G	140719387	G	G	140719387	2	3	27	1	0	0	0	0	0	0	0	1	11573	11	1	3		3	PCDHGA2	5	140719387	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19779	140719387	40195873	2829	25180											
PCDHGA2	56113	broad.mit.edu	37	chr5	140720359	140720359	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacgcctggctgtcttaccaCctgctcaaggccagcgagcc	8	7	10	16	2	2	0	1	0	1	0	2	1	2	0	5	2	5	2	5	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140720359C>T	uc003ljk.1	+	1	2006	c.1821C>T	c.(1819-1821)CAC>CAT	p.H607H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Silent_p.H607H	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	607	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCTTACCACCTGCTCAAGG	0.692													10	108					0	0	1	0	0		T	140720359	T	T	140720359	2	4	27	1	0	0	0	0	0	0	0	1	11573	506	18	4		4	PCDHGA2	5	140720359	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	972	140720359	40194901	2830	25181											
PCDHGA2	56113	broad.mit.edu	37	chr5	140720427	140720427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcgaggtgcgcacggcgcGagccctgctggacagagacg	7	3	19	12	6	0	1	0	0	0	1	0	5	0	2	1	4	3	2	1	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140720427G>A	uc003ljk.1	+	1	2074	c.1889G>A	c.(1888-1890)CGA>CAA	p.R630Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.R630Q	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	630	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCACGGCGCGAGCCCTGCTG	0.692													5	80					0	0	1	0	0		A	140720427	A	A	140720427	3	1	27	1	0	0	0	0	1	0	0	0	11573	1058	37	1	1891	1	PCDHGA2	5	140720427	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	68	140720427	40194833	2831	25182											
PCDHGA3	56112	broad.mit.edu	37	chr5	140724148	140724148	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacttctctctggctgtgaAtagcgtctctgagggggcca	6	12	12	11	1	3	2	0	2	3	0	5	2	3	2	1	3	2	1	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140724148A>C	uc003ljm.1	+	1	548	c.548A>C	c.(547-549)AAT>ACT	p.N183T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Missense_Mutation_p.N183T	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	183	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGCTGTGAATAGCGTCTCT	0.502													8	146					0	0	1	0	0		C	140724148	C	C	140724148	3	2	27	1	0	0	0	0	1	0	0	0	11574	101	4	5	550	5	PCDHGA3	5	140724148	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3721	140724148	40191112	2832	25183											
PCDHGA3	56112	broad.mit.edu	37	chr5	140724815	140724815	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatcaatattaccgcttagtGacggccacatccctggaccg	10	9	9	13	3	1	1	1	1	0	0	2	3	2	2	4	2	1	1	4	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140724815G>A	uc003ljm.1	+	1	1215	c.1215G>A	c.(1213-1215)GTG>GTA	p.V405V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.V165V|PCDHGA3_uc011dap.1_Silent_p.V405V	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	405	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCGCTTAGTGACGGCCACAT	0.453													10	70					0	0	1	0	0		A	140724815	A	A	140724815	2	1	27	1	0	0	0	0	0	0	0	1	11574	1277	45	4		4	PCDHGA3	5	140724815	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	667	140724815	40190445	2833	25184											
PCDHGA3	56112	broad.mit.edu	37	chr5	140725277	140725277	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaccagaacgacaacgcGcccgagatcctgtaccccgc	10	4	10	17	5	0	2	0	0	0	2	1	5	1	3	5	1	3	1	5	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140725277G>A	uc003ljm.1	+	1	1677	c.1677G>A	c.(1675-1677)GCG>GCA	p.A559A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.A319A|PCDHGA3_uc011dap.1_Silent_p.A559A	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	559	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGACAACGCGCCCGAGATCC	0.642													8	150					0	0	1	0	0		A	140725277	A	A	140725277	2	1	27	1	0	0	0	0	0	0	0	1	11574	1074	38	1		1	PCDHGA3	5	140725277	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	462	140725277	40189983	2834	25185											
PCDHGB1	56104	broad.mit.edu	37	chr5	140730650	140730650	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcattaatgcagagatcAcctatgccttcctcaattcc	11	11	7	12	0	2	1	2	0	0	1	4	2	4	1	4	1	2	2	4	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140730650A>G	uc003ljo.1	+	1	823	c.823A>G	c.(823-825)ACC>GCC	p.T275A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Missense_Mutation_p.T275A	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	275	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCAGAGATCACCTATGCCTT	0.498													15	123					0	0	1	0	0		G	140730650	G	G	140730650	3	3	27	1	0	0	0	0	1	0	0	0	11581	159	6	3	825	3	PCDHGB1	5	140730650	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5373	140730650	40184610	2835	25186											
PCDHGA4	56111	broad.mit.edu	37	chr5	140735028	140735028	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcggcaccttggtcaccgcGggtaggatagacagggagga	10	5	17	9	3	1	1	1	0	0	1	1	4	1	4	2	6	1	2	2	6	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140735028G>A	uc003ljq.1	+	1	261	c.261G>A	c.(259-261)GCG>GCA	p.A87A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Silent_p.A87A	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	87	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTCACCGCGGGTAGGATAG	0.597													8	57					0	0	1	0	0		A	140735028	A	A	140735028	2	1	27	1	0	0	0	0	0	0	0	1	11575	1103	39	1		1	PCDHGA4	5	140735028	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4378	140735028	40180232	2836	25187											
PCDHGA5	56110	broad.mit.edu	37	chr5	140745654	140745654	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgctccgcagaacctggctAcctggtgaccaaggtggtag	8	8	13	12	2	0	2	0	1	0	1	2	2	1	2	4	4	2	4	4	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140745654A>G	uc003lju.1	+	1	1757	c.1757A>G	c.(1756-1758)TAC>TGC	p.Y586C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.Y586C	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	586	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAACCTGGCTACCTGGTGACC	0.627													11	72					0	0	1	0	0		G	140745654	G	G	140745654	3	3	27	1	0	0	0	0	1	0	0	0	11576	391	14	3	1759	3	PCDHGA5	5	140745654	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10626	140745654	40169606	2837	25188											
PCDHGB3	56102	broad.mit.edu	37	chr5	140751474	140751474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgggagctgtcgtcctacGtgtccgtgagcgcgcggagc	4	7	17	13	8	0	1	0	1	0	0	3	3	2	3	2	2	4	1	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140751474G>A	uc003ljw.1	+	1	1513	c.1513G>A	c.(1513-1515)GTG>ATG	p.V505M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.V505M|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	505	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTCGTCCTACGTGTCCGTGAG	0.662													9	80					0	0	1	0	0		A	140751474	A	A	140751474	3	1	27	1	0	0	0	0	1	0	0	0	11583	1145	40	1	1515	1	PCDHGB3	5	140751474	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5820	140751474	40163786	2838	25189											
PCDHGA7	56108	broad.mit.edu	37	chr5	140763143	140763143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgccccgatccagcaccgCccacatccaggtgacagtgg	8	4	10	19	3	0	1	0	1	0	0	2	2	2	1	7	2	1	1	7	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140763143C>T	uc003lka.1	+	1	677	c.677C>T	c.(676-678)GCC>GTC	p.A226V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.A226V	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	226	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCAGCACCGCCCACATCCAG	0.617													3	23					0	0	1	0	0		T	140763143	T	T	140763143	3	4	27	1	0	0	0	0	1	0	0	0	11578	739	26	2	679	2	PCDHGA7	5	140763143	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11669	140763143	40152117	2839	25190											
PCDHGA7	56108	broad.mit.edu	37	chr5	140764162	140764162	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgcccgagatcctgtacccgGccctccccacagatggttct	6	8	9	18	3	1	2	0	0	1	2	3	3	3	2	6	2	1	2	6	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140764162G>A	uc003lka.1	+	1	1696	c.1696G>A	c.(1696-1698)GCC>ACC	p.A566T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.A566T	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	566	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGTACCCGGCCCTCCCCAC	0.627													4	99					0	0	1	0	0		A	140764162	A	A	140764162	3	1	27	1	0	0	0	0	1	0	0	0	11578	1203	42	2	1698	2	PCDHGA7	5	140764162	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1019	140764162	40151098	2840	25191											
PCDHGA7	56108	broad.mit.edu	37	chr5	140764596	140764596	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctagccttcgtcctcgtActgctggcgctcaggctgcg	3	12	11	15	4	1	0	1	0	0	0	5	0	3	0	3	2	4	4	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140764596A>G	uc003lka.1	+	1	2130	c.2130A>G	c.(2128-2130)GTA>GTG	p.V710V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGB4_uc003lkc.1_5'Flank|PCDHGA7_uc003ljz.1_Silent_p.V710V|PCDHGB4_uc011dav.1_5'Flank	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	710	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGTCCTCGTACTGCTGGCGC	0.627													4	72					0	0	1	0	0		G	140764596	G	G	140764596	2	3	27	1	0	0	0	0	0	0	0	1	11578	378	14	3		3	PCDHGA7	5	140764596	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	434	140764596	40150664	2841	25192											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769090	140769090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagcgcgaacgtgagcctgCgcgtgttagtggacgaccgc	7	7	15	12	7	1	1	1	1	0	0	1	4	1	2	2	1	4	1	2	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140769090C>T	uc003lkc.1	+	1	1639	c.1639C>T	c.(1639-1641)CGC>TGC	p.R547C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.R547C	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	547	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGAGCCTGCGCGTGTTAGT	0.697													17	42					0	0	1	0	0		T	140769090	T	T	140769090	3	4	27	1	0	0	0	0	1	0	0	0	11584	768	27	1	1641	1	PCDHGB4	5	140769090	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4494	140769090	40146170	2842	25193											
PCDHGA8	9708	broad.mit.edu	37	chr5	140773828	140773828	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacgaccccgacagccaggAgaatgcccaggtcacttact	12	5	9	15	2	1	1	1	0	0	1	1	4	1	1	4	2	3	0	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140773828A>G	uc003lkd.1	+	1	2346	c.1448A>G	c.(1447-1449)GAG>GGG	p.E483G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.E483G	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	483	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACAGCCAGGAGAATGCCCAG	0.562													4	27					0	0	1	0	0		G	140773828	G	G	140773828	3	3	27	1	0	0	0	0	1	0	0	0	11579	304	11	3	1450	3	PCDHGA8	5	140773828	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4738	140773828	40141432	2843	25194											
PCDHGA8	9708	broad.mit.edu	37	chr5	140774055	140774055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggaccagaatgacaacGcgcccgagatcctgtacccc	10	6	10	15	3	0	3	0	1	0	2	1	5	1	4	5	1	3	2	5	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140774055G>A	uc003lkd.1	+	1	2573	c.1675G>A	c.(1675-1677)GCG>ACG	p.A559T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.A559T	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	559	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAATGACAACGCGCCCGAGAT	0.657													16	117					0	0	1	0	0		A	140774055	A	A	140774055	3	1	27	1	0	0	0	0	1	0	0	0	11579	1087	38	1	1677	1	PCDHGA8	5	140774055	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	227	140774055	40141205	2844	25195											
PCDHGA9	56107	broad.mit.edu	37	chr5	140784150	140784150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaagcccaccacttagcaGcaatgtgtcattgagactgt	11	10	10	10	0	1	1	1	1	0	1	1	3	1	2	2	1	3	2	2	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140784150G>A	uc003lkh.1	+	1	1631	c.1631G>A	c.(1630-1632)AGC>AAC	p.S544N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.S544N	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	544	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCACTTAGCAGCAATGTGTCA	0.498													6	100					0	0	1	0	0		A	140784150	A	A	140784150	3	1	27	1	0	0	0	0	1	0	0	0	11580	971	34	2	1633	2	PCDHGA9	5	140784150	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10095	140784150	40131110	2845	25196											
PCDHGB7	56099	broad.mit.edu	37	chr5	140797634	140797634	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcgagctgcgagtgagcGcggagaagctgcacttcagc	8	6	15	12	5	1	2	1	1	0	1	2	5	1	2	0	1	6	3	0	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140797634G>T	uc003lkn.1	+	1	353	c.208G>T	c.(208-210)GCG>TCG	p.A70S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.A70S|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	70	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGAGTGAGCGCGGAGAAGCT	0.572													3	48					6.4e-05	6.80234e-05	1	1	0		T	140797634	T	T	140797634	3	4	27	1	0	0	0	0	1	0	0	0	11587	1087	38	5	210	5	PCDHGB7	5	140797634	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13484	140797634	40117626	2846	25197											
PCDHGB7	56099	broad.mit.edu	37	chr5	140799290	140799290	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctcttcagcctggggctgCgaacaggcgaggtgcgcatg	6	7	17	11	3	2	0	1	0	1	0	2	2	2	0	1	5	4	3	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140799290C>T	uc003lkn.1	+	1	2009	c.1864C>T	c.(1864-1866)CGA>TGA	p.R622*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Nonsense_Mutation_p.R622*|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	622	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGGGGCTGCGAACAGGCGA	0.657													8	79					0	0	1	0	0		T	140799290	T	T	140799290	4	4	27	1	0	0	0	0	0	1	0	0	11587	760	27	1	1866	1	PCDHGB7	5	140799290	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1656	140799290	40115970	2847	25198											
PCDHGA11	56105	broad.mit.edu	37	chr5	140800891	140800891	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttccgggccaggcagatcCgatattcggtgccagaagag	9	7	15	10	3	0	3	0	0	0	3	3	4	2	3	4	4	1	2	4	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140800891C>T	uc003lkq.1	+	1	355	c.97C>T	c.(97-99)CGA>TGA	p.R33*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Nonsense_Mutation_p.R33*|PCDHGA11_uc003lkp.1_Nonsense_Mutation_p.R33*	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	33	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGCAGATCCGATATTCGGT	0.657													4	39					0	0	1	0	0		T	140800891	T	T	140800891	4	4	27	1	0	0	0	0	0	1	0	0	11571	644	23	1	99	1	PCDHGA11	5	140800891	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1601	140800891	40114369	2848	25199											
PCDHGA11	56105	broad.mit.edu	37	chr5	140802352	140802352	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttctctatgccctacaaTccttcgactatgagcagttt	8	15	7	11	1	1	1	0	1	1	0	4	2	2	1	2	0	3	3	2	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140802352T>A	uc003lkq.1	+	1	1816	c.1558T>A	c.(1558-1560)TCC>ACC	p.S520T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.S520T|PCDHGA11_uc003lkp.1_Missense_Mutation_p.S520T	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	520	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCCCTACAATCCTTCGACTA	0.537													11	120					0	0	1	0	0		A	140802352	A	A	140802352	3	1	27	1	0	0	0	0	1	0	0	0	11571	1435	50	5	1560	5	PCDHGA11	5	140802352	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1461	140802352	40112908	2849	25200											
PCDHGA12	26025	broad.mit.edu	37	chr5	140812139	140812139	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggccagaacgcctggctgTcctaccgtctgctcaaggcc	6	7	11	17	3	2	1	1	0	1	1	3	1	3	1	6	3	3	2	6	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140812139T>C	uc003lkt.1	+	1	1982	c.1813T>C	c.(1813-1815)TCC>CCC	p.S605P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.S605P	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	605	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCCTGGCTGTCCTACCGTCT	0.692													31	95					0	0	1	0	0		C	140812139	C	C	140812139	3	2	27	1	0	0	0	0	1	0	0	0	11572	1667	58	3	1815	3	PCDHGA12	5	140812139	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9787	140812139	40103121	2850	25201											
PCDHGA12	26025	broad.mit.edu	37	chr5	140812199	140812199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtgggtctgcacacgggcGaggtgcgcacggcgcgagcc	5	4	19	13	7	1	0	0	0	1	0	1	2	1	0	1	5	3	2	1	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140812199G>A	uc003lkt.1	+	1	2042	c.1873G>A	c.(1873-1875)GAG>AAG	p.E625K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.E625K	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	625	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCACACGGGCGAGGTGCGCAC	0.692													21	75					0	0	1	0	0		A	140812199	A	A	140812199	3	1	27	1	0	0	0	0	1	0	0	0	11572	1059	37	1	1875	1	PCDHGA12	5	140812199	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	60	140812199	40103061	2851	25202											
PCDHGC3	5098	broad.mit.edu	37	chr5	140857037	140857037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcaagtgtccgacatcaatGacaaccctccacaatcttct	12	11	4	14	1	4	1	2	1	2	0	6	2	6	1	3	0	1	0	3	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140857037G>A	uc003lkv.1	+	1	1469	c.1354G>A	c.(1354-1356)GAC>AAC	p.D452N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Missense_Mutation_p.D452N|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	452	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGACATCAATGACAACCCTCC	0.517													15	134					0	0	1	0	0		A	140857037	A	A	140857037	3	1	27	1	0	0	0	0	1	0	0	0	11588	1290	45	4	1356	4	PCDHGC3	5	140857037	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	44838	140857037	40058223	2852	25203											
PCDHGC4	56098	broad.mit.edu	37	chr5	140866146	140866146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgttcctgagaacaatcGcccaggggacctgctttgct	7	12	11	11	1	0	1	0	1	0	1	2	3	1	2	3	2	3	4	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:140866146G>A	uc003lky.1	+	1	1406	c.1406G>A	c.(1405-1407)CGC>CAC	p.R469H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Missense_Mutation_p.R469H|PCDHGC5_uc011dbc.1_5'Flank|PCDHGC5_uc003lla.1_5'Flank	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	469	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGAACAATCGCCCAGGGGAC	0.483													12	141					0	0	1	0	0		A	140866146	A	A	140866146	3	1	27	1	0	0	0	0	1	0	0	0	11589	1087	38	1	1408	1	PCDHGC4	5	140866146	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9109	140866146	40049114	2853	25204											
PCDH1	5097	broad.mit.edu	37	chr5	141243630	141243630	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagggttgccacctgcaaTgctgtagatcagctcagcat	11	10	10	10	0	2	1	2	0	0	1	2	1	2	1	2	1	5	6	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:141243630T>C	uc003llq.2	-	3	2383	c.2266A>G	c.(2266-2268)ATT>GTT	p.I756V	PCDH1_uc003llp.2_Missense_Mutation_p.I756V|PCDH1_uc011dbf.1_Missense_Mutation_p.I734V	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	756	Extracellular (Potential).|Cadherin 7.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		CCACCTGCAATGCTGTAGATC	0.572													7	39					0	0	1	0	0		C	141243630	C	C	141243630	3	2	27	1	0	0	0	0	1	0	0	0	11525	1464	51	3	1543	3	PCDH1	5	141243630	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	377484	141243630	39671630	2854	25205											
PCDH1	5097	broad.mit.edu	37	chr5	141244610	141244610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccaccacacaggtgacaGctgcattctctccctcatct	8	10	6	17	0	3	1	1	1	2	0	5	1	4	1	3	1	3	2	3	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:141244610G>A	uc003llq.2	-	3	1403	c.1286C>T	c.(1285-1287)GCT>GTT	p.A429V	PCDH1_uc003llp.2_Missense_Mutation_p.A429V|PCDH1_uc011dbf.1_Missense_Mutation_p.A407V	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	429	Extracellular (Potential).|Cadherin 4.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		ACAGGTGACAGCTGCATTCTC	0.562													13	105					0	0	1	0	0		A	141244610	A	A	141244610	3	1	27	1	0	0	0	0	1	0	0	0	11525	971	34	2	2523	2	PCDH1	5	141244610	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	980	141244610	39670650	2855	25206											
PCDH1	5097	broad.mit.edu	37	chr5	141248319	141248319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataggagtcccagcgctcacGgtccaggttgcccatcacaa	10	7	10	14	2	2	0	2	0	0	0	4	1	4	1	3	3	2	2	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:141248319G>A	uc003llq.2	-	2	835	c.718C>T	c.(718-720)CGT>TGT	p.R240C	PCDH1_uc003llp.2_Missense_Mutation_p.R240C|PCDH1_uc011dbf.1_Missense_Mutation_p.R218C	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	240	Extracellular (Potential).|Cadherin 2.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		CAGCGCTCACGGTCCAGGTTG	0.642													4	55					0	0	1	0	0		A	141248319	A	A	141248319	3	1	27	1	0	0	0	0	1	0	0	0	11525	1116	39	1	3095	1	PCDH1	5	141248319	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3709	141248319	39666941	2856	25207											
PCDH12	51294	broad.mit.edu	37	chr5	141336597	141336597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccacctccccattggggcCttggtcagggtctgtggcgg	3	10	14	14	1	2	0	1	0	1	0	4	0	4	0	5	6	0	0	5	6	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:141336597C>T	uc003llx.2	-	1	2031	c.820G>A	c.(820-822)GGC>AGC	p.G274S		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	274	Extracellular (Potential).|Cadherin 3.				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCATTGGGGCCTTGGTCAGGG	0.542													6	83					0	0	1	0	0		T	141336597	T	T	141336597	3	4	27	1	0	0	0	0	1	0	0	0	11529	681	24	4	2750	4	PCDH12	5	141336597	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	88278	141336597	39578663	2857	25208											
RNF14	9604	broad.mit.edu	37	chr5	141354437	141354437	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctttctgcctccacttgtgCtgaactttgaactgccacca	7	13	7	14	0	1	2	0	2	1	0	2	2	2	2	4	0	5	2	4	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:141354437C>A	uc003lly.2	+	3	262	c.223C>A	c.(223-225)CTG>ATG	p.L75M	RNF14_uc003llz.2_Missense_Mutation_p.L75M|RNF14_uc003lma.2_Missense_Mutation_p.L75M|RNF14_uc003lmb.2_Intron|RNF14_uc003lmc.2_Missense_Mutation_p.L75M|RNF14_uc011dbg.1_Missense_Mutation_p.L75M|RNF14_uc011dbh.1_Intron|RNF14_uc003lmd.2_Missense_Mutation_p.L75M	NM_183399	NP_899646	Q9UBS8	RNF14_HUMAN	ring finger protein 14 isoform 1	75	RWD.				androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|protein ubiquitination|regulation of androgen receptor signaling pathway|regulation of transcription from RNA polymerase II promoter|response to estradiol stimulus|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|small conjugating protein ligase activity|transcription coactivator activity|zinc ion binding				0		all_hematologic(541;0.0536)|Ovarian(839;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.0407)		TCCACTTGTGCTGAACTTTGA	0.423													13	115					1.05317e-09	1.16272e-09	1	1	0		A	141354437	A	A	141354437	3	1	27	1	0	0	0	0	1	0	0	0	13468	796	28	5	229	5	RNF14	5	141354437	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17840	141354437	39560823	2858	25209											
YIPF5	81555	broad.mit.edu	37	chr5	143545034	143545034	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcctcaaagttgtttccaTagaaaggctgaggtgaagct	12	11	10	8	0	1	3	1	2	0	1	3	3	3	3	2	2	1	4	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:143545034T>C	uc003lnk.3	-	3	686	c.245A>G	c.(244-246)TAT>TGT	p.Y82C	YIPF5_uc003lnl.3_Missense_Mutation_p.Y82C|YIPF5_uc010jgl.2_Missense_Mutation_p.Y28C	NM_001024947	NP_001020118	Q969M3	YIPF5_HUMAN	Yip1 domain family, member 5	82	Cytoplasmic (Potential).|Interaction with Sec23.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle|Golgi cisterna membrane|integral to membrane				ovary(1)|skin(1)	2		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			GTTGTTTCCATAGAAAGGCTG	0.423													8	81					0	0	1	0	0		C	143545034	C	C	143545034	3	2	27	1	0	0	0	0	1	0	0	0	17507	1406	49	3	544	3	YIPF5	5	143545034	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2190597	143545034	37370226	2859	25210											
PLAC8L1	153770	broad.mit.edu	37	chr5	145477795	145477795	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggacaattgctgtgattgtCgtcctgccactggctccccg	5	12	11	13	2	0	1	0	1	0	0	3	2	2	2	4	2	2	2	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:145477795C>T	uc003lnv.2	-	2	252	c.180G>A	c.(178-180)ACG>ACA	p.T60T	PLAC8L1_uc011dbp.1_RNA	NM_001029869	NP_001025040	A1L4L8	PL8L1_HUMAN	PLAC8-like 1	60											0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTGTGATTGTCGTCCTGCCAC	0.512													7	70					0	0	1	0	0		T	145477795	T	T	145477795	2	4	27	1	0	0	0	0	0	0	0	1	12035	871	31	1		1	PLAC8L1	5	145477795	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1932761	145477795	35437465	2860	25211											
LARS	51520	broad.mit.edu	37	chr5	145537173	145537173	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagcagccaccaagaaaatAtttttacctttcaggccact	13	11	6	11	0	1	1	1	0	0	1	1	1	1	1	4	1	3	2	4	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:145537173A>T	uc003lnx.1	-	10	1096	c.858T>A	c.(856-858)AAT>AAA	p.N286K	LARS_uc011dbq.1_Missense_Mutation_p.N240K|LARS_uc011dbr.1_Missense_Mutation_p.N232K|LARS_uc011dbs.1_Missense_Mutation_p.N259K	NM_020117	NP_064502	Q9P2J5	SYLC_HUMAN	leucyl-tRNA synthetase	286	Editing domain.				leucyl-tRNA aminoacylation	cytosol	ATP binding|leucine-tRNA ligase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Leucine(DB00149)	CCAAGAAAATATTTTTACCTT	0.373													3	52					0	0	1	0	0		T	145537173	T	T	145537173	3	4	27	1	0	0	0	0	1	0	0	0	8650	446	16	5	2764	5	LARS	5	145537173	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	59378	145537173	35378087	2861	25212											
POU4F3	5459	broad.mit.edu	37	chr5	145719218	145719218	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaccatccgttcaagccCgacgccacctaccataccat	13	6	5	17	3	1	1	1	0	0	1	2	2	2	1	7	0	4	1	7	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:145719218C>A	uc003loa.2	+	2	317	c.228C>A	c.(226-228)CCC>CCA	p.P76P		NM_002700	NP_002691	Q15319	PO4F3_HUMAN	POU class 4 homeobox 3	76					sensory perception of sound|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CGTTCAAGCCCGACGCCACCT	0.607													5	71					0.000602214	0.000630257	1	1	0		A	145719218	A	A	145719218	2	1	27	1	0	0	0	0	0	0	0	1	12299	639	23	5		5	POU4F3	5	145719218	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	182045	145719218	35196042	2862	25213											
TCERG1	10915	broad.mit.edu	37	chr5	145838891	145838891	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctacttcagttgcgcagAcagtatcaagtgagtaccac	11	10	9	11	1	2	2	2	1	0	1	2	2	2	2	1	0	4	5	1	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:145838891A>G	uc003lob.2	+	4	923	c.883A>G	c.(883-885)ACA>GCA	p.T295A	TCERG1_uc003loc.2_Missense_Mutation_p.T295A|TCERG1_uc011dbt.1_Missense_Mutation_p.T295A	NM_006706	NP_006697	O14776	TCRG1_HUMAN	transcription elongation regulator 1 isoform 1	295	Thr-rich.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			ovary(1)|skin(1)	2		Lung NSC(249;0.00188)|all_lung(500;0.00307)|all_neural(839;0.0424)|Breast(839;0.0743)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGTTGCGCAGACAGTATCAAG	0.458													6	147					0	0	1	0	0		G	145838891	G	G	145838891	3	3	27	1	0	0	0	0	1	0	0	0	15710	275	10	3	897	3	TCERG1	5	145838891	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	119673	145838891	35076369	2863	25214											
TCERG1	10915	broad.mit.edu	37	chr5	145888807	145888807	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaccaaatttataacatatAggtgtgtgcaatgaaatgtt	16	13	8	4	0	0	2	0	1	0	1	0	2	0	2	1	1	2	2	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:145888807A>G	uc003lob.2	+	21	3134	c.3094A>G	c.(3094-3096)AGA>GGA	p.R1032G	TCERG1_uc003loc.2_Missense_Mutation_p.R1011G	NM_006706	NP_006697	O14776	TCRG1_HUMAN	transcription elongation regulator 1 isoform 1	1032	FF 6.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			ovary(1)|skin(1)	2		Lung NSC(249;0.00188)|all_lung(500;0.00307)|all_neural(839;0.0424)|Breast(839;0.0743)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TATAACATATAGGTGTGTGCA	0.338													5	78					0	0	1	0	0		G	145888807	G	G	145888807	3	3	27	1	0	0	0	0	1	0	0	0	15710	434	15	3	3176	3	TCERG1	5	145888807	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	49916	145888807	35026453	2864	25215											
STK32A	202374	broad.mit.edu	37	chr5	146722576	146722576	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttactcctctagggatatgAagcctgacaatattttactt	11	16	6	8	0	1	2	0	2	1	0	2	3	2	3	2	1	3	0	2	1	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:146722576A>G	uc010jgn.1	+	6	722	c.442A>G	c.(442-444)AAG>GAG	p.K148E	STK32A_uc003lol.3_Missense_Mutation_p.K148E|STK32A_uc003lom.2_Missense_Mutation_p.K148E|STK32A_uc011dbw.1_Missense_Mutation_p.K148E	NM_001112724	NP_001106195	Q8WU08	ST32A_HUMAN	serine/threonine kinase 32A isoform 1	148	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGGGATATGAAGCCTGACAA	0.383													15	149					0	0	1	0	0		G	146722576	G	G	146722576	3	3	27	1	0	0	0	0	1	0	0	0	15322	247	9	3	460	3	STK32A	5	146722576	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	833769	146722576	34192684	2865	25216											
DPYSL3	1809	broad.mit.edu	37	chr5	146780384	146780384	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgggcactcccagatagCtgcagatccccgctggcaaa	10	6	11	14	1	0	2	0	0	0	2	2	2	2	2	3	2	2	5	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:146780384C>T	uc003lon.1	-	10	1091	c.981G>A	c.(979-981)CAG>CAA	p.Q327Q	DPYSL3_uc003loo.2_Silent_p.Q441Q	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	327					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCCAGATAGCTGCAGATCCC	0.547													7	37					0	0	1	0	0		T	146780384	T	T	146780384	2	4	27	1	0	0	0	0	0	0	0	1	4754	796	28	2		2	DPYSL3	5	146780384	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	57808	146780384	34134876	2866	25217											
DPYSL3	1809	broad.mit.edu	37	chr5	146788299	146788299	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctgtaacttacctcttctgGcctgctcagtacatggcctt	6	14	7	14	0	3	0	1	0	2	0	3	0	3	0	4	2	4	3	4	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:146788299G>T	uc003lon.1	-	7	792	c.682C>A	c.(682-684)CCA>ACA	p.P228T	DPYSL3_uc003loo.2_Missense_Mutation_p.P342T	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	228					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCTCTTCTGGCCTGCTCAGT	0.443													8	116					0.00307968	0.00318367	1	1	0		T	146788299	T	T	146788299	3	4	27	1	0	0	0	0	1	0	0	0	4754	1203	42	5	1062	5	DPYSL3	5	146788299	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7915	146788299	34126961	2867	25218											
DPYSL3	1809	broad.mit.edu	37	chr5	146795370	146795370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagcaactcttcccatcaGcccactctctccatttctca	9	11	2	19	0	4	0	2	0	3	0	8	0	6	0	3	0	3	1	3	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:146795370G>A	uc003lon.1	-	4	490	c.380C>T	c.(379-381)GCT>GTT	p.A127V	DPYSL3_uc003loo.2_Missense_Mutation_p.A241V	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	127					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTCCCATCAGCCCACTCTCT	0.527													13	126					0	0	1	0	0		A	146795370	A	A	146795370	3	1	27	1	0	0	0	0	1	0	0	0	4754	971	34	2	1376	2	DPYSL3	5	146795370	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7071	146795370	34119890	2868	25219											
SPINK1	6690	broad.mit.edu	37	chr5	147207595	147207595	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtactcaccgattttcaaAacataacacgcattcattgg	13	13	5	10	2	3	0	3	0	0	0	3	1	3	0	1	1	3	2	1	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:147207595A>G	uc003los.2	-	3	304	c.184T>C	c.(184-186)TTT>CTT	p.F62L		NM_003122	NP_003113	P00995	ISK1_HUMAN	serine protease inhibitor, Kazal type 1	62	Kazal-like.					extracellular region	protein binding|serine-type endopeptidase inhibitor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGATTTTCAAAACATAACACG	0.338									Hereditary_Pancreatitis				3	27					0	0	1	0	0		G	147207595	G	G	147207595	3	3	27	1	0	0	0	0	1	0	0	0	15082	14	1	3	63	3	SPINK1	5	147207595	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	412225	147207595	33707665	2869	25220											
SPINK14	408187	broad.mit.edu	37	chr5	147553843	147553843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgagctggtacaatggaaCggtcaacccctgccctggct	8	9	11	13	1	1	1	1	1	0	0	1	2	1	2	3	4	5	3	3	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:147553843C>T	uc003loz.1	+	3	158	c.158C>T	c.(157-159)ACG>ATG	p.T53M		NM_001001325	NP_001001325	Q6IE38	ISK14_HUMAN	Kazal type serine protease inhibitor 5-like 2	53	Kazal-like.					extracellular region	serine-type endopeptidase inhibitor activity				0						TACAATGGAACGGTCAACCCC	0.418													10	90					0	0	1	0	0		T	147553843	T	T	147553843	3	4	27	1	0	0	0	0	1	0	0	0	15084	536	19	1	168	1	SPINK14	5	147553843	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	346248	147553843	33361417	2870	25221											
ADRB2	154	broad.mit.edu	37	chr5	148206582	148206582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccattgccaagttcgagcGtctgcagacggtcaccaact	10	8	10	13	3	2	1	1	0	1	1	3	2	2	1	3	1	5	2	3	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:148206582G>A	uc003lpr.1	+	1	427	c.188G>A	c.(187-189)CGT>CAT	p.R63H	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	63	Cytoplasmic.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	AAGTTCGAGCGTCTGCAGACG	0.567													8	48					0	0	1	0	0		A	148206582	A	A	148206582	3	1	27	1	0	0	0	0	1	0	0	0	341	1145	40	1	190	1	ADRB2	5	148206582	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	652739	148206582	32708678	2871	25222											
ADRB2	154	broad.mit.edu	37	chr5	148207139	148207139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccagaaccttagccaggtgGagcaggatgggcggacgggg	9	5	18	9	2	0	1	0	0	0	1	1	4	1	4	3	7	3	1	3	7	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:148207139G>A	uc003lpr.1	+	1	984	c.745G>A	c.(745-747)GAG>AAG	p.E249K	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	249	Cytoplasmic.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	TAGCCAGGTGGAGCAGGATGG	0.547													6	68					0	0	1	0	0		A	148207139	A	A	148207139	3	1	27	1	0	0	0	0	1	0	0	0	341	1175	41	4	747	4	ADRB2	5	148207139	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	557	148207139	32708121	2872	25223											
SH3TC2	79628	broad.mit.edu	37	chr5	148420185	148420185	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaatctgataggagcctgTccaatccctcttcctggaaa	11	10	7	13	0	2	1	0	1	2	0	5	3	5	3	5	2	1	0	5	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:148420185T>C	uc003lpu.2	-	7	939	c.787A>G	c.(787-789)ACA>GCA	p.T263A	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_5'UTR|SH3TC2_uc010jgx.2_Missense_Mutation_p.T256A|SH3TC2_uc003lpv.1_5'UTR|SH3TC2_uc011dbz.1_Missense_Mutation_p.T148A	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	263							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGGAGCCTGTCCAATCCCTC	0.423													8	79					0	0	1	0	0		C	148420185	C	C	148420185	3	2	27	1	0	0	0	0	1	0	0	0	14287	1667	58	3	3123	3	SH3TC2	5	148420185	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	213046	148420185	32495075	2873	25224											
ABLIM3	22885	broad.mit.edu	37	chr5	148626049	148626049	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctgtcttttgacagtgccCcgagccagaaggttctcgtc	6	13	10	12	2	3	2	0	1	3	1	5	3	3	2	3	1	2	1	3	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:148626049C>A	uc003lpy.2	+	17	1742	c.1491C>A	c.(1489-1491)CCC>CCA	p.P497P	ABLIM3_uc003lpz.1_Silent_p.P497P|ABLIM3_uc003lqa.1_Silent_p.P394P|ABLIM3_uc003lqb.2_Silent_p.P386P|ABLIM3_uc003lqc.1_Silent_p.P464P|ABLIM3_uc003lqd.1_Silent_p.P402P|ABLIM3_uc003lqf.2_Silent_p.P386P|ABLIM3_uc003lqe.1_Silent_p.P386P	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3	497					axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGACAGTGCCCCGAGCCAGAA	0.483													4	44					0.150653	0.151846	1	1	0		A	148626049	A	A	148626049	2	1	27	1	0	0	0	0	0	0	0	1	96	610	22	5		5	ABLIM3	5	148626049	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	205864	148626049	32289211	2874	25225											
AFAP1L1	134265	broad.mit.edu	37	chr5	148687000	148687000	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgagcagctcctatgagTcctacgatgaagaggaggag	13	7	13	8	1	0	4	0	3	0	1	2	7	2	6	2	2	3	2	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:148687000T>A	uc003lqh.2	+	7	702	c.571T>A	c.(571-573)TCC>ACC	p.S191T	AFAP1L1_uc003lqg.3_Missense_Mutation_p.S191T|AFAP1L1_uc010jgy.2_Missense_Mutation_p.S191T	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	191							protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCCTATGAGTCCTACGATGA	0.582													9	88					0	0	1	0	0		A	148687000	A	A	148687000	3	1	27	1	0	0	0	0	1	0	0	0	354	1667	58	5	597	5	AFAP1L1	5	148687000	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	60951	148687000	32228260	2875	25226											
IL17B	27190	broad.mit.edu	37	chr5	148754010	148754010	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctgtgcggggcggtggCgggcagaggcggcggcgcac	3	3	23	12	6	0	1	0	0	0	1	0	1	0	1	1	9	1	2	1	9	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:148754010C>T	uc003lqo.2	-	3	515	c.465G>A	c.(463-465)CCG>CCA	p.P155P		NM_014443	NP_055258	Q9UHF5	IL17B_HUMAN	interleukin 17B precursor	155					cell-cell signaling|immune response|inflammatory response	extracellular space	cytokine activity|signal transducer activity			central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGGCGGTGGCGGGCAGAGGC	0.667													9	62					0	0	1	0	0		T	148754010	T	T	148754010	2	4	27	1	0	0	0	0	0	0	0	1	7651	755	27	1		1	IL17B	5	148754010	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	67010	148754010	32161250	2876	25227											
IL17B	27190	broad.mit.edu	37	chr5	148756561	148756561	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgggctggcccagccccaGgaagatggaaatggtaagaa	12	5	14	10	0	0	2	0	0	0	2	0	4	0	4	4	5	1	2	4	5	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:148756561G>T	uc003lqo.2	-	2	99	c.49C>A	c.(49-51)CTG>ATG	p.L17M		NM_014443	NP_055258	Q9UHF5	IL17B_HUMAN	interleukin 17B precursor	17					cell-cell signaling|immune response|inflammatory response	extracellular space	cytokine activity|signal transducer activity			central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCAGCCCCAGGAAGATGGAA	0.622													4	45					0.00024832	0.000261516	1	1	0		T	148756561	T	T	148756561	3	4	27	1	0	0	0	0	1	0	0	0	7651	991	35	5	501	5	IL17B	5	148756561	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2551	148756561	32158699	2877	25228											
ARHGEF37	389337	broad.mit.edu	37	chr5	149001301	149001301	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgtctccccacagaagcaAcggctagaaggcctggtgtg	10	7	12	12	1	1	2	0	0	1	2	2	2	1	2	3	3	2	2	3	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:149001301A>T	uc003lra.1	+	9	1075	c.1011A>T	c.(1009-1011)CAA>CAT	p.Q337H		NM_001001669	NP_001001669	A1IGU5	ARH37_HUMAN	hypothetical protein LOC389337	337	BAR.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0						CACAGAAGCAACGGCTAGAAG	0.443													10	93					0	0	1	0	0		T	149001301	T	T	149001301	3	4	27	1	0	0	0	0	1	0	0	0	906	40	2	5	1041	5	ARHGEF37	5	149001301	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	244740	149001301	31913959	2878	25229											
PPARGC1B	133522	broad.mit.edu	37	chr5	149212461	149212461	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgggcagggcagacccCggtgccccggtttcccagga	5	6	15	15	2	1	1	0	0	1	1	2	2	2	2	5	5	1	4	5	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:149212461C>T	uc003lrc.2	+	5	867	c.825C>T	c.(823-825)CCC>CCT	p.P275P	PPARGC1B_uc003lrb.1_Silent_p.P275P|PPARGC1B_uc003lrd.2_Silent_p.P236P|PPARGC1B_uc003lrf.2_Silent_p.P254P|PPARGC1B_uc003lre.1_Silent_p.P254P	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	275					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			GGGCAGACCCCGGTGCCCCGG	0.667													5	92					0	0	1	0	0		T	149212461	T	T	149212461	2	4	27	1	0	0	0	0	0	0	0	1	12320	639	23	1		1	PPARGC1B	5	149212461	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	211160	149212461	31702799	2879	25230											
SLC26A2	1836	broad.mit.edu	37	chr5	149361002	149361002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taaaggtggcttggaagaagGcagcaaagagaaagatcaaa	19	5	13	4	0	1	3	1	0	0	3	1	5	1	4	0	4	1	3	0	4	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:149361002G>A	uc003lrh.2	+	3	2114	c.1846G>A	c.(1846-1848)GCA>ACA	p.A616T		NM_000112	NP_000103	P50443	S26A2_HUMAN	solute carrier family 26 member 2	616	STAS.|Extracellular (Potential).					integral to plasma membrane|membrane fraction	secondary active sulfate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TTGGAAGAAGGCAGCAAAGAG	0.393													29	76					0	0	1	0	0		A	149361002	A	A	149361002	3	1	27	1	0	0	0	0	1	0	0	0	14542	1203	42	2	1852	2	SLC26A2	5	149361002	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	148541	149361002	31554258	2880	25231											
CSF1R	1436	broad.mit.edu	37	chr5	149456864	149456864	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccggaagaacatggaggtGgagtgcttgccctgcacgtt	9	8	14	10	2	0	1	0	0	0	1	0	4	0	4	2	4	4	3	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:149456864G>A	uc003lrl.2	-	5	1059	c.864C>T	c.(862-864)TCC>TCT	p.S288S	CSF1R_uc011dcd.1_Silent_p.S140S|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Silent_p.S288S|CSF1R_uc011dce.1_Silent_p.S288S|CSF1R_uc011dcf.1_Silent_p.S288S	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	288	Extracellular (Potential).|Ig-like C2-type 3.				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	ACATGGAGGTGGAGTGCTTGC	0.552													6	83					0	0	1	0	0		A	149456864	A	A	149456864	2	1	27	1	0	0	0	0	0	0	0	1	3935	1335	47	4		4	CSF1R	5	149456864	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	95862	149456864	31458396	2881	25232											
SLC6A7	6534	broad.mit.edu	37	chr5	149583563	149583563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctcagggctcatctgcGtggccatgtacctgatgggg	5	12	14	10	1	3	1	2	1	2	0	4	1	3	1	2	4	2	3	2	4	1	2	rs139016893		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:149583563G>A	uc003lrr.2	+	10	1665	c.1294G>A	c.(1294-1296)GTG>ATG	p.V432M		NM_014228	NP_055043	Q99884	SC6A7_HUMAN	solute carrier family 6, member 7	432	Helical; Name=9; (Potential).					integral to plasma membrane|membrane fraction	neurotransmitter:sodium symporter activity|proline:sodium symporter activity				0		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Proline(DB00172)	GCTCATCTGCGTGGCCATGTA	0.577													4	26					0	0	1	0	0		A	149583563	A	A	149583563	3	1	27	1	0	0	0	0	1	0	0	0	14714	1145	40	1	1332	1	SLC6A7	5	149583563	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	126699	149583563	31331697	2882	25233											
ARSI	340075	broad.mit.edu	37	chr5	149677666	149677666	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccaggtgatgttgcgcAcagcctcatccatgcaggtc	7	8	13	13	1	1	1	1	1	0	0	3	1	2	1	3	3	3	3	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:149677666A>C	uc003lrv.2	-	2	1410	c.821T>G	c.(820-822)GTG>GGG	p.V274G		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	274						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GATGTTGCGCACAGCCTCATC	0.602													5	33					0	0	1	0	0		C	149677666	C	C	149677666	3	2	27	1	0	0	0	0	1	0	0	0	995	159	6	5	892	5	ARSI	5	149677666	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	94103	149677666	31237594	2883	25234											
TCOF1	6949	broad.mit.edu	37	chr5	149755412	149755412	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggacaactcggagagcagCgaggagtcatcggacagtgc	12	5	15	9	3	1	1	1	0	0	1	3	6	1	4	0	4	4	1	0	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:149755412C>T	uc003lry.2	+	12	1941	c.1833C>T	c.(1831-1833)AGC>AGT	p.S611S	TCOF1_uc003lrw.2_Silent_p.S611S|TCOF1_uc011dch.1_Silent_p.S611S|TCOF1_uc003lrz.2_Silent_p.S611S|TCOF1_uc003lrx.2_Silent_p.S534S|TCOF1_uc003lsa.2_Silent_p.S534S|TCOF1_uc011dci.1_Silent_p.S100S	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	611					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CGGAGAGCAGCGAGGAGTCAT	0.627													7	63					0	0	1	0	0		T	149755412	T	T	149755412	2	4	27	1	0	0	0	0	0	0	0	1	15733	767	27	1		1	TCOF1	5	149755412	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	77746	149755412	31159848	2884	25235											
SYNPO	11346	broad.mit.edu	37	chr5	150027979	150027979	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcacctgtcccaaaacCgagaggcccagcagtcctca	10	5	10	16	1	1	1	1	0	0	1	3	2	3	1	5	2	3	3	5	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:150027979C>A	uc003lsn.2	+	3	1248	c.874C>A	c.(874-876)CGA>AGA	p.R292R	SYNPO_uc003lso.3_Silent_p.R48R|SYNPO_uc003lsp.2_Silent_p.R48R	NM_001109974	NP_001103444	Q8N3V7	SYNPO_HUMAN	synaptopodin isoform B	292					positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GTCCCAAAACCGAGAGGCCCA	0.597													8	97					0.00307968	0.00318367	1	1	0		A	150027979	A	A	150027979	2	1	27	1	0	0	0	0	0	0	0	1	15481	644	23	5		5	SYNPO	5	150027979	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	272567	150027979	30887281	2885	25236											
DCTN4	51164	broad.mit.edu	37	chr5	150138455	150138455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccagcgaccgcagttcgCtacaatagcggcagaagtag	12	7	11	11	4	0	1	0	0	0	1	2	2	1	1	2	1	3	5	2	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:150138455C>T	uc003lsv.2	-	1	203	c.101G>A	c.(100-102)AGC>AAC	p.S34N	DCTN4_uc003lsu.2_5'Flank|DCTN4_uc010jhi.2_Missense_Mutation_p.S34N|DCTN4_uc010jhj.2_RNA|DCTN4_uc011dck.1_5'Flank	NM_016221	NP_057305	Q9UJW0	DCTN4_HUMAN	dynactin 4 (p62) isoform b	34						centrosome|nucleus	protein N-terminus binding			central_nervous_system(1)	1		Medulloblastoma(196;0.167)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCGCAGTTCGCTACAATAGCG	0.587													19	133					0	0	1	0	0		T	150138455	T	T	150138455	3	4	27	1	0	0	0	0	1	0	0	0	4312	797	28	2	1358	2	DCTN4	5	150138455	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	110476	150138455	30776805	2886	25237											
ZNF300	91975	broad.mit.edu	37	chr5	150275987	150275987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaggcttttccacatgtaaCacatacacagcttttctctt	12	14	4	11	0	1	0	0	0	1	0	3	0	2	0	1	1	3	3	1	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:150275987C>T	uc003lsy.1	-	6	1081	c.814G>A	c.(814-816)GTT>ATT	p.V272I	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	272	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCACATGTAACACATACACAG	0.348													13	130					0	0	1	0	0		T	150275987	T	T	150275987	3	4	27	1	0	0	0	0	1	0	0	0	17856	478	17	4	1004	4	ZNF300	5	150275987	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	137532	150275987	30639273	2887	25238											
SLC36A2	153201	broad.mit.edu	37	chr5	150704980	150704980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggatggctgggaagtggcGggcattcttcatcttgtttt	6	14	14	7	1	3	0	1	0	2	0	3	2	3	2	0	5	0	3	0	5	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:150704980G>A	uc003lty.2	-	8	1007	c.877C>T	c.(877-879)CGC>TGC	p.R293C	GM2A_uc011dcs.1_Intron|SLC36A2_uc003ltz.2_RNA|SLC36A2_uc003lua.2_Missense_Mutation_p.R95C|SLC36A2_uc010jhv.2_Missense_Mutation_p.R293C	NM_181776	NP_861441	Q495M3	S36A2_HUMAN	solute carrier family 36, member 2	293	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	cytoplasm|integral to membrane|plasma membrane	glycine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGGAAGTGGCGGGCATTCTTC	0.383													5	47					0	0	1	0	0		A	150704980	A	A	150704980	3	1	27	1	0	0	0	0	1	0	0	0	14619	1116	39	1	586	1	SLC36A2	5	150704980	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	428993	150704980	30210280	2888	25239											
SLC36A1	206358	broad.mit.edu	37	chr5	150838460	150838460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caacaacctctcctccccggGctcctaccagcgctttggtc	6	9	7	19	2	1	0	0	0	1	0	5	0	3	0	6	2	4	2	6	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:150838460G>A	uc003luc.2	+	2	324	c.107G>A	c.(106-108)GGC>GAC	p.G36D	GM2A_uc011dcs.1_Intron|SLC36A1_uc003lub.1_Missense_Mutation_p.G36D|SLC36A1_uc010jhw.1_Missense_Mutation_p.G36D	NM_078483	NP_510968	Q7Z2H8	S36A1_HUMAN	solute carrier family 36 member 1	36	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	endoplasmic reticulum|integral to membrane|lysosomal membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			skin(1)	1		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)|all_neural(839;0.138)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Glycine(DB00145)|L-Alanine(DB00160)	TCCTCCCCGGGCTCCTACCAG	0.567													5	61					0	0	1	0	0		A	150838460	A	A	150838460	3	1	27	1	0	0	0	0	1	0	0	0	14618	1203	42	2	109	2	SLC36A1	5	150838460	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	133480	150838460	30076800	2889	25240											
FAT2	2196	broad.mit.edu	37	chr5	150887158	150887158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttctgaacaacccctcGcctccatttcacacctgcgg	7	10	6	18	2	2	1	1	1	1	0	5	1	4	1	6	1	3	0	6	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:150887158G>A	uc003lue.3	-	22	12087	c.12074C>T	c.(12073-12075)GCG>GTG	p.A4025V	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.A632V	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	4025	Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACAACCCCTCGCCTCCATTTC	0.552													5	33					0	0	1	0	0		A	150887158	A	A	150887158	3	1	27	1	0	0	0	0	1	0	0	0	5704	1087	38	1	983	1	FAT2	5	150887158	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	48698	150887158	30028102	2890	25241											
FAT2	2196	broad.mit.edu	37	chr5	150897202	150897202	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagggagacggacgctgtTtcattggtgaatagaagaat	12	11	13	5	2	2	4	2	1	0	3	2	6	2	5	0	3	0	2	0	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:150897202T>C	uc003lue.3	-	19	11455	c.11442A>G	c.(11440-11442)GAA>GAG	p.E3814E	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Silent_p.E507E	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3814	Extracellular (Potential).|Laminin G-like.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CGGACGCTGTTTCATTGGTGA	0.552													3	82					0	0	1	0	0		C	150897202	C	C	150897202	2	2	27	1	0	0	0	0	0	0	0	1	5704	1838	64	3		3	FAT2	5	150897202	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10044	150897202	30018058	2891	25242											
FAT2	2196	broad.mit.edu	37	chr5	150901461	150901461	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttctgccaggctataggTcagcgtgtcctgggggtctc	4	12	13	12	1	4	0	1	0	3	0	6	0	5	0	2	4	2	1	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:150901461T>C	uc003lue.3	-	18	10706	c.10693A>G	c.(10693-10695)ACC>GCC	p.T3565A	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.T258A	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3565	Cadherin 32.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGGCTATAGGTCAGCGTGTCC	0.597													4	45					0	0	1	0	0		C	150901461	C	C	150901461	3	2	27	1	0	0	0	0	1	0	0	0	5704	1667	58	3	2380	3	FAT2	5	150901461	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4259	150901461	30013799	2892	25243											
FAT2	2196	broad.mit.edu	37	chr5	150922517	150922517	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtgccccgcactagactgTagatgactggatcttgagct	9	11	11	10	1	1	4	0	2	1	2	1	5	1	5	2	1	2	3	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:150922517T>C	uc003lue.3	-	9	8184	c.8171A>G	c.(8170-8172)TAC>TGC	p.Y2724C	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	2724	Cadherin 24.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CACTAGACTGTAGATGACTGG	0.498													9	93					0	0	1	0	0		C	150922517	C	C	150922517	3	2	27	1	0	0	0	0	1	0	0	0	5704	1638	57	3	4938	3	FAT2	5	150922517	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	21056	150922517	29992743	2893	25244											
FAT2	2196	broad.mit.edu	37	chr5	150945761	150945761	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctccaatgtgattatcAggtcagtgacagagaagagc	13	9	10	9	0	2	4	2	2	0	2	4	5	4	4	2	1	1	0	2	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:150945761A>G	uc003lue.3	-	1	2745	c.2732T>C	c.(2731-2733)CTG>CCG	p.L911P	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.L911P	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	911	Extracellular (Potential).|Cadherin 7.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGTGATTATCAGGTCAGTGAC	0.562													3	43					0	0	1	0	0		G	150945761	G	G	150945761	3	3	27	1	0	0	0	0	1	0	0	0	5704	188	7	3	10409	3	FAT2	5	150945761	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	23244	150945761	29969499	2894	25245											
GLRA1	2741	broad.mit.edu	37	chr5	151208616	151208616	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccaaatgtcaatggcttTcacataggacacctagagtg	13	10	8	10	0	2	1	2	0	0	1	3	2	3	2	2	2	0	1	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:151208616T>C	uc003lut.2	-	8	1212	c.925A>G	c.(925-927)AAA>GAA	p.K309E	GLRA1_uc003lur.2_Missense_Mutation_p.K309E|GLRA1_uc003lus.2_Missense_Mutation_p.K226E	NM_001146040	NP_001139512	P23415	GLRA1_HUMAN	glycine receptor, alpha 1 isoform 1 precursor	309					muscle contraction|negative regulation of transmission of nerve impulse|neuropeptide signaling pathway|positive regulation of acrosome reaction|regulation of membrane potential|startle response	cell junction|chloride channel complex|integral to plasma membrane|intracellular membrane-bounded organelle|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|protein binding|receptor activity|taurine binding|transmitter-gated ion channel activity			ovary(1)|central_nervous_system(1)	2		all_hematologic(541;0.0341)|Medulloblastoma(196;0.0912)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Ethanol(DB00898)|Glycine(DB00145)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TCAATGGCTTTCACATAGGAC	0.463													11	115					0	0	1	0	0		C	151208616	C	C	151208616	3	2	27	1	0	0	0	0	1	0	0	0	6469	1792	62	3	456	3	GLRA1	5	151208616	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	262855	151208616	29706644	2895	25246											
FAM114A2	10827	broad.mit.edu	37	chr5	153372657	153372657	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggcgtcctggatgtaggagGcactgtttgatgcctgccag	7	10	15	9	1	0	1	0	1	0	0	1	3	1	3	3	4	2	3	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:153372657G>C	uc003lvb.2	-	14	1985	c.1397C>G	c.(1396-1398)GCC>GGC	p.A466G	FAM114A2_uc003lvc.2_Missense_Mutation_p.A466G|FAM114A2_uc003lvd.2_Missense_Mutation_p.A466G|FAM114A2_uc003lve.2_Missense_Mutation_p.A282G|FAM114A2_uc011dda.1_Missense_Mutation_p.A396G	NM_018691	NP_061161	Q9NRY5	F1142_HUMAN	hypothetical protein LOC10827	466							purine nucleotide binding				0						GATGTAGGAGGCACTGTTTGA	0.408													4	61					0	0	1	0	0		C	153372657	C	C	153372657	3	2	27	1	0	0	0	0	1	0	0	0	5415	1203	42	5	124	5	FAM114A2	5	153372657	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2164041	153372657	27542603	2896	25247											
GALNT10	55568	broad.mit.edu	37	chr5	153792469	153792469	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atccgaaatgtgggcacaggGctgtgtgcagacacaaagca	13	6	13	9	1	0	1	0	0	0	1	1	2	1	1	1	2	2	4	1	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:153792469G>A	uc003lvh.2	+	10	1539	c.1407G>A	c.(1405-1407)GGG>GGA	p.G469G	GALNT10_uc010jic.2_RNA|GALNT10_uc010jid.2_Silent_p.G310G|uc003lvi.2_Intron|GALNT10_uc003lvj.2_Silent_p.G140G	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	469	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			TGGGCACAGGGCTGTGTGCAG	0.602													9	83					0	0	1	0	0		A	153792469	A	A	153792469	2	1	27	1	0	0	0	0	0	0	0	1	6223	1190	42	2		2	GALNT10	5	153792469	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	419812	153792469	27122791	2897	25248											
SAP30L	79685	broad.mit.edu	37	chr5	153830686	153830686	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgtgattttcacaaaaaTttcatccagagtgtccgaaa	14	13	6	8	1	3	2	2	1	1	1	5	3	5	2	2	0	0	0	2	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:153830686T>A	uc003lvk.2	+	2	885	c.237T>A	c.(235-237)AAT>AAA	p.N79K	SAP30L_uc003lvm.3_RNA|SAP30L_uc011ddc.1_Intron|SAP30L_uc011ddd.1_Intron|SAP30L_uc003lvl.2_RNA	NM_024632	NP_078908	Q9HAJ7	SP30L_HUMAN	SAP30-like isoform 1	79					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|metal ion binding				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			TTCACAAAAATTTCATCCAGA	0.433													5	59					0	0	1	0	0		A	153830686	A	A	153830686	3	1	27	1	0	0	0	0	1	0	0	0	13860	1490	52	5	243	5	SAP30L	5	153830686	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	38217	153830686	27084574	2898	25249											
LARP1	23367	broad.mit.edu	37	chr5	154135745	154135745	+	Frame_Shift_Del	DEL	C	-	-																															gaccaccgtgaacggacagtCccccccaggtgggtctccct																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:154135745delC	uc003lvp.2	+	1	857	c.428delC	c.(427-429)TCCfs	p.S143fs	LARP1_uc003lvo.2_Intron|LARP1_uc010jie.1_5'Flank	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	143							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			AACGGACAGTCCCCCCCAGGT	0.642													4	8	---	---	---	---						.	-	154135745	-	-	154135745	7	5	27	1	0	1	0	1	0	0	0	0	8644	870	30	0		0	LARP1	5	154135745	Frame_Shift_Del	DEL	C	TCGA-BR-6452-01A-12D-1800-08	305059	154135745	26779515	2899	25250											
LARP1	23367	broad.mit.edu	37	chr5	154169932	154169932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcagctgttcctaaacagCgcaaaggcagcaaggtaaag	14	5	13	9	1	0	0	0	0	0	0	1	0	1	0	1	3	4	7	1	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:154169932C>T	uc003lvp.2	+	2	913	c.484C>T	c.(484-486)CGC>TGC	p.R162C	LARP1_uc003lvo.2_Missense_Mutation_p.R85C|LARP1_uc010jie.1_5'UTR	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	162							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TCCTAAACAGCGCAAAGGCAG	0.517													9	39					0	0	1	0	0		T	154169932	T	T	154169932	3	4	27	1	0	0	0	0	1	0	0	0	8644	768	27	1	259	1	LARP1	5	154169932	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	34187	154169932	26745328	2900	25251											
LARP1	23367	broad.mit.edu	37	chr5	154185462	154185462	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcccctcagaagggacGcctacagttggcagctatgg	9	7	12	13	1	1	1	1	0	0	1	2	2	2	2	4	3	3	3	4	3	3	3	rs138080657		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:154185462G>A	uc003lvp.2	+	15	2997	c.2568G>A	c.(2566-2568)ACG>ACA	p.T856T	LARP1_uc003lvo.2_Silent_p.T779T	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	856							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CAGAAGGGACGCCTACAGTTG	0.542													7	149					0	0	1	0	0		A	154185462	A	A	154185462	2	1	27	1	0	0	0	0	0	0	0	1	8644	1074	38	1		1	LARP1	5	154185462	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15530	154185462	26729798	2901	25252											
GEMIN5	25929	broad.mit.edu	37	chr5	154287325	154287325	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggctttttcttctttttggGctttgccttaggttgagaga	4	19	12	6	0	2	2	0	1	2	1	2	3	2	2	1	3	1	3	1	3	1	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:154287325G>A	uc003lvx.3	-	16	2304	c.2221C>T	c.(2221-2223)CCC>TCC	p.P741S	GEMIN5_uc011ddk.1_Missense_Mutation_p.P740S	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	741	Poly-Lys.				ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TTCTTTTTGGGCTTTGCCTTA	0.388													13	179					0	0	1	0	0		A	154287325	A	A	154287325	3	1	27	1	0	0	0	0	1	0	0	0	6346	1203	42	2	2357	2	GEMIN5	5	154287325	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	101863	154287325	26627935	2902	25253											
GEMIN5	25929	broad.mit.edu	37	chr5	154311781	154311781	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcctttcttactgatgTcaattatcaccactatgcca	9	16	3	13	0	4	1	2	1	2	0	5	1	4	1	3	0	2	0	3	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:154311781T>C	uc003lvx.3	-	4	622	c.539A>G	c.(538-540)GAC>GGC	p.D180G	GEMIN5_uc011ddk.1_Missense_Mutation_p.D180G	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	180	WD 3.				ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CTTACTGATGTCAATTATCAC	0.383													3	113					0	0	1	0	0		C	154311781	C	C	154311781	3	2	27	1	0	0	0	0	1	0	0	0	6346	1667	58	3	4087	3	GEMIN5	5	154311781	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	24456	154311781	26603479	2903	25254											
KIF4B	285643	broad.mit.edu	37	chr5	154393675	154393675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatataatgcaacggtcctgGcctatgggcagactggctct	9	10	12	10	1	1	1	0	0	1	1	2	2	2	1	2	4	2	3	2	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:154393675G>A	uc010jih.1	+	1	416	c.256G>A	c.(256-258)GCC>ACC	p.A86T		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	86	Kinesin-motor.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			AACGGTCCTGGCCTATGGGCA	0.453													13	119					0	0	1	0	0		A	154393675	A	A	154393675	3	1	27	1	0	0	0	0	1	0	0	0	8320	1203	42	2	258	2	KIF4B	5	154393675	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	81894	154393675	26521585	2904	25255											
HAVCR2	84868	broad.mit.edu	37	chr5	156514181	156514181	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgctgacatagcaataatActcattgggctcctccactt	10	12	7	12	0	1	1	1	1	0	0	3	1	3	1	2	1	3	4	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:156514181A>G	uc003lwk.1	-	7	982	c.838T>C	c.(838-840)TAT>CAT	p.Y280H		NM_032782	NP_116171	Q8TDQ0	HAVR2_HUMAN	T cell immunoglobulin mucin 3 precursor	280	Cytoplasmic (Potential).					integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TAGCAATAATACTCATTGGGC	0.448													7	58					0	0	1	0	0		G	156514181	G	G	156514181	3	3	27	1	0	0	0	0	1	0	0	0	6990	391	14	3	71	3	HAVCR2	5	156514181	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2120506	156514181	24401079	2905	25256											
HAVCR2	84868	broad.mit.edu	37	chr5	156533902	156533902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacgaggttccctggggCggctggggtgtagaagcagg	6	6	21	8	2	0	1	0	0	0	1	1	2	1	1	1	8	1	5	1	8	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:156533902C>T	uc003lwk.1	-	2	274	c.130G>A	c.(130-132)GCC>ACC	p.A44T	HAVCR2_uc003lwl.2_Missense_Mutation_p.A44T	NM_032782	NP_116171	Q8TDQ0	HAVR2_HUMAN	T cell immunoglobulin mucin 3 precursor	44	Ig-like V-type.|Extracellular (Potential).					integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TTCCCTGGGGCGGCTGGGGTG	0.562													31	133					0	0	1	0	0		T	156533902	T	T	156533902	3	4	27	1	0	0	0	0	1	0	0	0	6990	768	27	1	799	1	HAVCR2	5	156533902	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	19721	156533902	24381358	2906	25257											
FAM71B	153745	broad.mit.edu	37	chr5	156589648	156589648	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgtttttgaaccaggagtgGccctgaggctccttaaaaaa	11	12	10	8	0	0	2	0	2	0	0	1	3	1	3	3	3	1	2	3	3	4	4	rs17852327		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:156589648G>T	uc003lwn.2	-	2	1728	c.1628C>A	c.(1627-1629)GCC>GAC	p.A543D		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	543						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ACCAGGAGTGGCCCTGAGGCT	0.453													16	159					6.72482e-11	7.44932e-11	1	1	0		T	156589648	T	T	156589648	3	4	27	1	0	0	0	0	1	0	0	0	5622	1203	42	5	193	5	FAM71B	5	156589648	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55746	156589648	24325612	2907	25258											
FAM71B	153745	broad.mit.edu	37	chr5	156590270	156590270	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaataccctctgaggataTgttggcagcacctgccatgg	9	10	11	11	0	1	1	0	1	1	0	1	2	1	2	3	3	3	4	3	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:156590270T>C	uc003lwn.2	-	2	1106	c.1006A>G	c.(1006-1008)ATA>GTA	p.I336V		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	336						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TCTGAGGATATGTTGGCAGCA	0.567													28	124					0	0	1	0	0		C	156590270	C	C	156590270	3	2	27	1	0	0	0	0	1	0	0	0	5622	1464	51	3	815	3	FAM71B	5	156590270	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	622	156590270	24324990	2908	25259											
ITK	3702	broad.mit.edu	37	chr5	156608049	156608049	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcccaacaaaagagaagaActtctccctcgaactttaaa	18	8	4	11	1	1	2	0	0	1	2	4	4	2	2	2	0	3	0	2	0	9	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:156608049A>G	uc003lwo.1	+	1	143	c.61A>G	c.(61-63)ACT>GCT	p.T21A		NM_005546	NP_005537	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase	21	PH.				cellular defense response|intracellular signal transduction|T cell receptor signaling pathway	cytosol|plasma membrane	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(12)|ovary(8)|skin(4)|stomach(1)|central_nervous_system(1)	26	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AAAGAGAAGAACTTCTCCCTC	0.443			T	SYK	peripheral T-cell lymphoma								5	112					0	0	1	0	0		G	156608049	G	G	156608049	3	3	27	1	0	0	0	0	1	0	0	0	7925	43	2	3	63	3	ITK	5	156608049	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17779	156608049	24307211	2909	25260											
NIPAL4	348938	broad.mit.edu	37	chr5	156895765	156895765	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgccaactttggagcctacGcatttgcacctgcaacagtc	9	11	8	13	1	0	0	0	0	0	0	1	1	0	1	3	1	7	3	3	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:156895765G>T	uc003lwx.3	+	4	672	c.556G>T	c.(556-558)GCA>TCA	p.A186S	ADAM19_uc003lww.1_Intron|NIPAL4_uc011ddq.1_Missense_Mutation_p.A167S|NIPAL4_uc010jin.1_3'UTR	NM_001099287	NP_001092757	Q0D2K0	NIPA4_HUMAN	ichthyin protein	186	Extracellular (Potential).					integral to membrane	receptor activity				0						TGGAGCCTACGCATTTGCACC	0.507													14	117					1.3612e-06	1.47786e-06	1	1	0		T	156895765	T	T	156895765	3	4	27	1	0	0	0	0	1	0	0	0	10446	1087	38	5	570	5	NIPAL4	5	156895765	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	287716	156895765	24019495	2910	25261											
NIPAL4	348938	broad.mit.edu	37	chr5	156899932	156899932	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgccagcacctcatcaccAgaagagaaacccaaagtatt	15	7	6	13	0	2	2	2	0	0	2	2	3	2	2	4	0	3	2	4	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:156899932A>T	uc003lwx.3	+	6	1481	c.1365A>T	c.(1363-1365)CCA>CCT	p.P455P	ADAM19_uc003lww.1_Intron|NIPAL4_uc011ddq.1_Silent_p.P436P	NM_001099287	NP_001092757	Q0D2K0	NIPA4_HUMAN	ichthyin protein	455	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						CCTCATCACCAGAAGAGAAAC	0.473													4	65					0	0	1	0	0		T	156899932	T	T	156899932	2	4	27	1	0	0	0	0	0	0	0	1	10446	175	7	5		5	NIPAL4	5	156899932	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4167	156899932	24015328	2911	25262											
ADAM19	8728	broad.mit.edu	37	chr5	156920054	156920054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccctcctcctcaggacctCggtagacgtgggtgccccgg	5	7	12	17	3	1	1	1	0	0	1	4	2	3	2	6	4	1	1	6	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:156920054C>T	uc003lwz.2	-	16	1899	c.1835G>A	c.(1834-1836)CGA>CAA	p.R612Q	ADAM19_uc003lww.1_Missense_Mutation_p.R345Q|ADAM19_uc003lwy.2_Missense_Mutation_p.R211Q|ADAM19_uc011ddr.1_Missense_Mutation_p.R543Q	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	612	Extracellular (Potential).|Cys-rich.				proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTCAGGACCTCGGTAGACGTG	0.617													16	55					0	0	1	0	0		T	156920054	T	T	156920054	3	4	27	1	0	0	0	0	1	0	0	0	240	884	31	1	953	1	ADAM19	5	156920054	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20122	156920054	23995206	2912	25263											
RNF145	153830	broad.mit.edu	37	chr5	158596721	158596721	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcattcatgaaagctcgatAaccctgcaagtaaaacttgc	15	10	6	10	1	2	1	2	1	0	0	3	2	2	1	1	0	5	3	1	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:158596721A>G	uc003lxp.2	-	7	1217	c.904T>C	c.(904-906)TAT>CAT	p.Y302H	RNF145_uc011ddy.1_Missense_Mutation_p.Y316H|RNF145_uc003lxo.1_Missense_Mutation_p.Y330H|RNF145_uc011ddz.1_Missense_Mutation_p.Y319H|RNF145_uc010jiq.1_Missense_Mutation_p.Y332H|RNF145_uc011dea.1_Missense_Mutation_p.Y318H	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	302						integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AAAGCTCGATAACCCTGCAAG	0.398													3	43					0	0	1	0	0		G	158596721	G	G	158596721	3	3	27	1	0	0	0	0	1	0	0	0	13472	362	13	3	1107	3	RNF145	5	158596721	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1676667	158596721	22318539	2913	25264											
IL12B	3593	broad.mit.edu	37	chr5	158747327	158747327	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aactcactgatgtccctgatGaagaagctgctggtgtagtt	10	12	11	8	0	1	4	1	3	0	1	2	4	2	4	1	1	3	4	1	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:158747327G>A	uc003lxr.1	-	5	726	c.684C>T	c.(682-684)TTC>TTT	p.F228F		NM_002187	NP_002178	P29460	IL12B_HUMAN	interleukin 12B precursor	228					cell cycle arrest|cell migration|defense response to Gram-negative bacterium|interferon-gamma biosynthetic process|natural killer cell activation|negative regulation of interleukin-10 production|negative regulation of interleukin-17 production|negative regulation of smooth muscle cell proliferation|positive regulation of activated T cell proliferation|positive regulation of activation of JAK2 kinase activity|positive regulation of cell adhesion|positive regulation of defense response to virus by host|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-17 production|positive regulation of memory T cell differentiation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|positive regulation of natural killer cell proliferation|positive regulation of NF-kappaB import into nucleus|positive regulation of NK T cell activation|positive regulation of NK T cell proliferation|positive regulation of osteoclast differentiation|positive regulation of smooth muscle cell apoptosis|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat4 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|regulation of tyrosine phosphorylation of Stat1 protein|response to UV-B|sexual reproduction|T-helper 1 type immune response|T-helper cell differentiation	interleukin-12 complex|interleukin-23 complex|membrane	cytokine activity|cytokine receptor activity|interleukin-12 receptor binding|protein heterodimerization activity				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGTCCCTGATGAAGAAGCTGC	0.363													7	78					0	0	1	0	0		A	158747327	A	A	158747327	2	1	27	1	0	0	0	0	0	0	0	1	7641	1281	45	4		4	IL12B	5	158747327	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	150606	158747327	22167933	2914	25265											
SLU7	10569	broad.mit.edu	37	chr5	159832114	159832114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcatttgtatccccatcggCcttctttccagtacgatccc	7	13	6	15	2	1	0	0	0	1	0	5	1	4	0	5	1	2	3	5	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:159832114C>T	uc003lyg.2	-	13	1471	c.1316G>A	c.(1315-1317)GGC>GAC	p.G439D		NM_006425	NP_006416	O95391	SLU7_HUMAN	step II splicing factor SLU7	439					alternative nuclear mRNA splicing, via spliceosome|nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|cytoplasm|nuclear speck|small nuclear ribonucleoprotein complex	pre-mRNA 3'-splice site binding|second spliceosomal transesterification activity|zinc ion binding			ovary(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCCCCATCGGCCTTCTTTCCA	0.328													9	81					0	0	1	0	0		T	159832114	T	T	159832114	3	4	27	1	0	0	0	0	1	0	0	0	14780	739	26	2	460	2	SLU7	5	159832114	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1084787	159832114	21083146	2915	25266											
GABRA1	2554	broad.mit.edu	37	chr5	161317996	161317996	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatgcataatgacagtgAttctctcacaagtctccttc	10	13	6	12	0	3	2	1	2	2	0	6	2	3	2	2	0	2	1	2	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:161317996A>T	uc010jiw.2	+	9	1264	c.796A>T	c.(796-798)ATT>TTT	p.I266F	GABRA1_uc010jix.2_Missense_Mutation_p.I266F|GABRA1_uc010jiy.2_Missense_Mutation_p.I266F|GABRA1_uc003lyx.3_Missense_Mutation_p.I266F|GABRA1_uc010jiz.2_Missense_Mutation_p.I266F|GABRA1_uc010jja.2_Missense_Mutation_p.I266F|GABRA1_uc010jjb.2_Missense_Mutation_p.I266F	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	266	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	AATGACAGTGATTCTCTCACA	0.418													6	110					0	0	1	0	0		T	161317996	T	T	161317996	3	4	27	1	0	0	0	0	1	0	0	0	6174	333	12	5	822	5	GABRA1	5	161317996	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1485882	161317996	19597264	2916	25267											
GABRG2	2566	broad.mit.edu	37	chr5	161580347	161580347	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcctgtttaatctggtCtattgggtctcctacctcta	5	18	7	11	0	5	0	0	0	5	0	6	0	5	0	3	2	2	1	3	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:161580347C>A	uc003lyz.3	+	9	1735	c.1377C>A	c.(1375-1377)GTC>GTA	p.V459V	GABRG2_uc010jjc.2_Silent_p.V507V|GABRG2_uc003lyy.3_Silent_p.V467V|GABRG2_uc011dej.1_Silent_p.V364V	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	459	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		TTAATCTGGTCTATTGGGTCT	0.468													10	249					2.27111e-07	2.47899e-07	1	1	0		A	161580347	A	A	161580347	2	1	27	1	0	0	0	0	0	0	0	1	6186	900	32	5		5	GABRG2	5	161580347	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	262351	161580347	19334913	2917	25268											
ODZ2	57451	broad.mit.edu	37	chr5	167674382	167674382	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagatcatcaccactgcCgtgatgaccctcagcaaaca	14	6	6	15	1	3	3	3	2	0	1	3	3	3	3	4	0	4	1	4	0	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:167674382C>T	uc010jjd.2	+	27	6411	c.6411C>T	c.(6409-6411)GCC>GCT	p.A2137A	ODZ2_uc003lzr.3_Silent_p.A1907A|ODZ2_uc003lzt.3_Silent_p.A1510A|ODZ2_uc010jje.2_Silent_p.A1401A	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		TCACCACTGCCGTGATGACCC	0.493													14	78					0	0	1	0	0		T	167674382	T	T	167674382	2	4	27	1	0	0	0	0	0	0	0	1	10854	639	23	1		1	ODZ2	5	167674382	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6094035	167674382	13240878	2918	25269											
WWC1	23286	broad.mit.edu	37	chr5	167855037	167855037	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttccattttccttccctaGctgtgaatacggcccagggg	6	13	9	13	1	0	1	0	1	0	0	3	1	3	1	4	3	2	1	4	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:167855037G>T	uc003lzu.2	+	12	1904	c.1811_splice	c.e12-1	p.A604_splice	WWC1_uc003lzv.2_Splice_Site_p.A604_splice|WWC1_uc011den.1_Splice_Site_p.A604_splice|WWC1_uc003lzw.2_Splice_Site_p.A403_splice	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3						cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		TCCTTCCCTAGCTGTGAATAC	0.458													6	37					8.12818e-05	8.61523e-05	1	1	0		T	167855037	T	T	167855037	5	4	27	1	0	0	0	0	0	0	1	0	17437	985	34	5	1856	5	WWC1	5	167855037	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	180655	167855037	13060223	2919	25270											
SLIT3	6586	broad.mit.edu	37	chr5	168244401	168244401	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactggccaactgtccgtcGctgtcgcagccaatccgaga	9	7	11	14	4	0	1	0	0	0	1	4	3	2	1	4	1	3	2	4	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:168244401G>A	uc003mab.2	-	8	1117	c.697C>T	c.(697-699)CGA>TGA	p.R233*	SLIT3_uc010jjg.2_Nonsense_Mutation_p.R233*|SLIT3_uc010jji.2_Nonsense_Mutation_p.R233*|SLIT3_uc003mac.1_Nonsense_Mutation_p.R30*	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	233	LRRCT 1.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACTGTCCGTCGCTGTCGCAGC	0.612													13	38					0	0	1	0	0		A	168244401	A	A	168244401	4	1	27	1	0	0	0	0	0	1	0	0	14766	1095	38	1	3990	1	SLIT3	5	168244401	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	389364	168244401	12670859	2920	25271											
CCDC99	54908	broad.mit.edu	37	chr5	169018068	169018068	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagagttatgaacaagaaaAatatacccttcaaagagaag	20	8	7	6	0	2	4	2	1	0	3	2	5	2	4	1	0	2	1	1	0	9	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:169018068A>G	uc003mae.3	+	3	455	c.176A>G	c.(175-177)AAA>AGA	p.K59R	CCDC99_uc010jjj.2_5'UTR|CCDC99_uc011deq.1_5'UTR|CCDC99_uc010jjk.2_5'UTR	NM_017785	NP_060255	Q96EA4	SPDLY_HUMAN	coiled-coil domain containing 99	59	Potential.				cell division|establishment of mitotic spindle orientation|mitotic metaphase plate congression|mitotic prometaphase|protein localization to kinetochore	condensed chromosome outer kinetochore|cytosol|microtubule organizing center|nucleus|spindle pole	kinetochore binding|protein binding			ovary(1)|liver(1)	2	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAACAAGAAAAATATACCCTT	0.313													3	49					0	0	1	0	0		G	169018068	G	G	169018068	3	3	27	1	0	0	0	0	1	0	0	0	2879	14	1	3	182	3	CCDC99	5	169018068	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	773667	169018068	11897192	2921	25272											
DOCK2	1794	broad.mit.edu	37	chr5	169139186	169139186	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgatgaaagaagatgggActactctacacgatggattc	14	9	11	7	1	1	4	0	2	1	2	2	7	1	6	0	2	3	1	0	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:169139186A>G	uc003maf.2	+	17	1698	c.1618A>G	c.(1618-1620)ACT>GCT	p.T540A	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Intron|DOCK2_uc010jjl.1_Missense_Mutation_p.T58A	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	540	DHR-1.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGAAGATGGGACTACTCTACA	0.448													7	54					0	0	1	0	0		G	169139186	G	G	169139186	3	3	27	1	0	0	0	0	1	0	0	0	4693	275	10	3	1684	3	DOCK2	5	169139186	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	121118	169139186	11776074	2922	25273											
DOCK2	1794	broad.mit.edu	37	chr5	169139203	169139203	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactactctacacgatggAttccatgacttagttgtcct	9	13	9	10	1	1	1	0	1	1	0	3	4	3	3	2	2	2	1	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:169139203A>G	uc003maf.2	+	17	1715	c.1635A>G	c.(1633-1635)GGA>GGG	p.G545G	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Intron|DOCK2_uc010jjl.1_Silent_p.G63G	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	545	DHR-1.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TACACGATGGATTCCATGACT	0.433													7	49					0	0	1	0	0		G	169139203	G	G	169139203	2	3	27	1	0	0	0	0	0	0	0	1	4693	320	12	3		3	DOCK2	5	169139203	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17	169139203	11776057	2923	25274											
DOCK2	1794	broad.mit.edu	37	chr5	169188543	169188543	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaactcctgtatgagttctAcacctgcatccctcctgtga	8	12	6	15	0	1	2	0	2	1	0	4	2	4	2	5	0	3	3	5	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:169188543A>G	uc003maf.2	+	25	2548	c.2468A>G	c.(2467-2469)TAC>TGC	p.Y823C	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.Y315C	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	823					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TATGAGTTCTACACCTGCATC	0.483													41	136					0	0	1	0	0		G	169188543	G	G	169188543	3	3	27	1	0	0	0	0	1	0	0	0	4693	391	14	3	2566	3	DOCK2	5	169188543	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	49340	169188543	11726717	2924	25275											
DOCK2	1794	broad.mit.edu	37	chr5	169445980	169445980	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggtcagaacaaaatctgCttcatcccaggcatggtagg	12	9	10	10	0	4	1	3	0	1	1	5	1	5	1	1	4	2	3	1	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:169445980C>T	uc003maf.2	+	33	3329	c.3249C>T	c.(3247-3249)TGC>TGT	p.C1083C	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.C575C	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1083	Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACAAAATCTGCTTCATCCCAG	0.478													50	209					0	0	1	0	0		T	169445980	T	T	169445980	2	4	27	1	0	0	0	0	0	0	0	1	4693	805	28	2		2	DOCK2	5	169445980	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	257437	169445980	11469280	2925	25276											
LCP2	3937	broad.mit.edu	37	chr5	169675795	169675795	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcattttcctgaagtagTcaataatatctgacacagac	13	12	8	8	0	2	3	1	2	1	1	3	3	3	3	1	1	0	2	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:169675795T>A	uc003man.1	-	21	1715	c.1508A>T	c.(1507-1509)GAC>GTC	p.D503V	C5orf58_uc003mal.2_Intron|LCP2_uc011des.1_Missense_Mutation_p.D298V|LCP2_uc011det.1_Missense_Mutation_p.D332V	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	503	SH2.				immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		CCTGAAGTAGTCAATAATATC	0.413													14	166					0	0	1	0	0		A	169675795	A	A	169675795	3	1	27	1	0	0	0	0	1	0	0	0	8708	1667	58	5	97	5	LCP2	5	169675795	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	229815	169675795	11239465	2926	25277											
LCP2	3937	broad.mit.edu	37	chr5	169685133	169685133	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggaaagtgttggagctcatAggaagtagtgctggctgggg	9	9	19	4	0	1	0	1	0	0	0	1	3	1	3	0	6	2	5	0	6	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:169685133A>G	uc003man.1	-	16	1215	c.1008T>C	c.(1006-1008)CCT>CCC	p.P336P	LCP2_uc011des.1_Silent_p.P131P|LCP2_uc011det.1_Silent_p.P165P	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	336					immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		TGGAGCTCATAGGAAGTAGTG	0.483													8	163					0	0	1	0	0		G	169685133	G	G	169685133	2	3	27	1	0	0	0	0	0	0	0	1	8708	407	15	3		3	LCP2	5	169685133	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	9338	169685133	11230127	2927	25278											
KCNIP1	30820	broad.mit.edu	37	chr5	170149719	170149719	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttttccccttctcaggaCtttgtaaccgctctgtcgat	5	15	7	14	2	2	0	1	0	2	0	5	2	3	1	4	1	1	2	4	1	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:170149719C>G	uc003mas.2	+	6	892	c.363C>G	c.(361-363)GAC>GAG	p.D121E	KCNIP1_uc003map.2_Missense_Mutation_p.D119E|KCNIP1_uc003mat.2_Missense_Mutation_p.D110E|KCNIP1_uc010jjp.2_Missense_Mutation_p.D82E|KCNIP1_uc010jjq.2_Missense_Mutation_p.D135E	NM_001034837	NP_001030009	Q9NZI2	KCIP1_HUMAN	Kv channel interacting protein 1 isoform 1	121	EF-hand 2.				detection of calcium ion|signal transduction|synaptic transmission	plasma membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0191)|all_lung(126;0.0297)	Medulloblastoma(196;0.0109)|all_neural(177;0.0177)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTTCTCAGGACTTTGTAACCG	0.428													6	42					0	0	1	0	0		G	170149719	G	G	170149719	3	3	27	1	0	0	0	0	1	0	0	0	8055	564	20	5	477	5	KCNIP1	5	170149719	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	464586	170149719	10765541	2928	25279											
RANBP17	64901	broad.mit.edu	37	chr5	170669797	170669797	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcatgtatgttctcacaTctatctcagagggactcact	10	14	6	11	0	5	1	4	0	3	1	7	2	5	2	0	1	1	2	0	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:170669797T>A	uc003mba.2	+	24	2765	c.2749T>A	c.(2749-2751)TCT>ACT	p.S917T	RANBP17_uc003mbb.2_Missense_Mutation_p.S242T|RANBP17_uc003mbd.2_Missense_Mutation_p.S280T|RANBP17_uc010jjs.2_RNA	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	917					mRNA transport|protein import into nucleus|transmembrane transport	cytoplasm|nuclear pore	GTP binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00751)|all_lung(126;0.0123)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TGTTCTCACATCTATCTCAGA	0.403			T	TRD@	ALL								11	148					0	0	1	0	0		A	170669797	A	A	170669797	3	1	27	1	0	0	0	0	1	0	0	0	13052	1435	50	5	2843	5	RANBP17	5	170669797	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	520078	170669797	10245463	2929	25280											
RANBP17	64901	broad.mit.edu	37	chr5	170725821	170725821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggcagaggcgttgcgcagtGatggcaacactgaaccatgc	10	7	14	10	2	0	3	0	2	0	1	0	3	0	3	1	3	4	4	1	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:170725821G>A	uc003mba.2	+	28	3242	c.3226G>A	c.(3226-3228)GAT>AAT	p.D1076N	RANBP17_uc003mbb.2_Missense_Mutation_p.D401N|RANBP17_uc010jjs.2_RNA	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	1076					mRNA transport|protein import into nucleus|transmembrane transport	cytoplasm|nuclear pore	GTP binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00751)|all_lung(126;0.0123)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GTTGCGCAGTGATGGCAACAC	0.502			T	TRD@	ALL								5	51					0	0	1	0	0		A	170725821	A	A	170725821	3	1	27	1	0	0	0	0	1	0	0	0	13052	1290	45	4	3336	4	RANBP17	5	170725821	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	56024	170725821	10189439	2930	25281											
NPM1	4869	broad.mit.edu	37	chr5	170818392	170818392	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggcagtccaattaaagtAacactggcaactttgaaaat	17	9	8	7	0	0	1	0	1	0	0	1	2	1	1	1	2	2	3	1	2	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:170818392A>T	uc011dex.1	+	4	357	c.222A>T	c.(220-222)GTA>GTT	p.V74V	NPM1_uc003mbh.2_Silent_p.V74V|NPM1_uc003mbi.2_Silent_p.V74V|NPM1_uc003mbj.2_Silent_p.V74V	NM_002520	NP_002511	P06748	NPM_HUMAN	nucleophosmin 1 isoform 1	74	Necessary for interaction with APEX1.|Required for interaction with SENP3.				anti-apoptosis|cell aging|CenH3-containing nucleosome assembly at centromere|centrosome cycle|DNA repair|interspecies interaction between organisms|intracellular protein transport|negative regulation of cell proliferation|negative regulation of centrosome duplication|nucleocytoplasmic transport|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|regulation of endodeoxyribonuclease activity|regulation of endoribonuclease activity|ribosome assembly|signal transduction	nucleolus|nucleoplasm|ribonucleoprotein complex|spindle pole centrosome	histone binding|NF-kappaB binding|protein binding|protein heterodimerization activity|protein homodimerization activity|ribosomal large subunit binding|ribosomal small subunit binding|RNA binding|Tat protein binding|transcription coactivator activity|unfolded protein binding		NPM1/ALK(632)	haematopoietic_and_lymphoid_tissue(3109)|skin(1)	3110	Renal(175;0.000159)|Lung NSC(126;0.00576)|all_lung(126;0.00963)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CAATTAAAGTAACACTGGCAA	0.403			T|F 	ALK|RARA|MLF1	NHL|APL|AML								9	111					0	0	1	0	0		T	170818392	T	T	170818392	2	4	27	1	0	0	0	0	0	0	0	1	10606	349	13	5		5	NPM1	5	170818392	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	92571	170818392	10096868	2931	25282											
FBXW11	23291	broad.mit.edu	37	chr5	171303497	171303497	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacagcctcattgtggtggAtcaatgtgttaagaacttca	12	13	9	7	0	3	1	3	0	0	1	3	2	3	2	1	2	3	1	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:171303497A>T	uc003mbm.1	-	8	1321	c.950T>A	c.(949-951)ATC>AAC	p.I317N	FBXW11_uc011dey.1_Missense_Mutation_p.I285N|FBXW11_uc003mbl.1_Missense_Mutation_p.I304N|FBXW11_uc003mbn.1_Missense_Mutation_p.I283N	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	317					cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			ATTGTGGTGGATCAATGTGTT	0.478													7	35					0	0	1	0	0		T	171303497	T	T	171303497	3	4	27	1	0	0	0	0	1	0	0	0	5778	333	12	5	698	5	FBXW11	5	171303497	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	485105	171303497	9611763	2932	25283											
RPL26L1	51121	broad.mit.edu	37	chr5	172386991	172386991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccgctctccaaggagctgCggcagaagtacaatgtccgc	9	6	11	15	3	1	1	0	0	1	1	3	2	2	2	4	2	3	4	4	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:172386991C>T	uc003mcc.2	+	2	157	c.115C>T	c.(115-117)CGG>TGG	p.R39W	LOC100268168_uc011dfb.1_5'Flank|LOC100268168_uc011dfc.1_5'Flank	NM_016093	NP_057177	Q9UNX3	RL26L_HUMAN	ribosomal protein L26-like 1	39					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|large ribosomal subunit	structural constituent of ribosome				0	Renal(175;0.000159)|Lung NSC(126;0.00344)|all_lung(126;0.00594)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CAAGGAGCTGCGGCAGAAGTA	0.597													28	84					0	0	1	0	0		T	172386991	T	T	172386991	3	4	27	1	0	0	0	0	1	0	0	0	13599	759	27	1	117	1	RPL26L1	5	172386991	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1083494	172386991	8528269	2933	25284											
NKX2-5	1482	broad.mit.edu	37	chr5	172660160	172660160	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcgcccggggccgctccgcGttgtccgcctctgtcttctc	0	10	12	19	7	3	0	0	0	3	0	6	0	5	0	5	2	0	2	5	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:172660160G>A	uc003mcm.1	-	2	563	c.387C>T	c.(385-387)AAC>AAT	p.N129N	NKX2-5_uc011dfe.1_3'UTR|NKX2-5_uc010jjt.1_3'UTR	NM_004387	NP_004378	P52952	NKX25_HUMAN	NK2 transcription factor related, locus 5	129					adult heart development|atrial cardiac muscle cell development|atrial septum morphogenesis|heart looping|hemopoiesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell apoptosis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|outflow tract septum morphogenesis|pharyngeal system development|positive regulation of calcium ion transport via voltage-gated calcium channel activity|positive regulation of cardioblast differentiation|positive regulation of cell proliferation|positive regulation of heart contraction|positive regulation of neuron differentiation|positive regulation of sodium ion transport|positive regulation of survival gene product expression|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of cardiac muscle contraction|right ventricular cardiac muscle tissue morphogenesis|septum secundum development|spleen development|thyroid gland development|vasculogenesis|ventricular septum morphogenesis		chromatin binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GCCGCTCCGCGTTGTCCGCCT	0.672													5	7					0	0	1	0	0		A	172660160	A	A	172660160	2	1	27	1	0	0	0	0	0	0	0	1	10472	1136	40	1		1	NKX2-5	5	172660160	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	273169	172660160	8255100	2934	25285											
STC2	8614	broad.mit.edu	37	chr5	172752893	172752893	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcatcaaattttccagcgTtgtgcagaaaagtcatgcaa	13	10	10	8	1	2	1	2	0	0	1	3	1	3	1	1	1	3	4	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:172752893T>C	uc003mco.1	-	2	1582	c.272A>G	c.(271-273)AAC>AGC	p.N91S	STC2_uc003mcn.1_Missense_Mutation_p.N6S	NM_003714	NP_003705	O76061	STC2_HUMAN	stanniocalcin 2 precursor	91					cell surface receptor linked signaling pathway|cell-cell signaling	extracellular region	hormone activity			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.223)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TTTTCCAGCGTTGTGCAGAAA	0.448													33	395					0	0	1	0	0		C	172752893	C	C	172752893	3	2	27	1	0	0	0	0	1	0	0	0	15301	1725	60	3	648	3	STC2	5	172752893	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	92733	172752893	8162367	2935	25286											
HMP19	51617	broad.mit.edu	37	chr5	173531319	173531319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacctatgatcacagctGcccagagggattcgtctata	10	11	8	12	1	3	2	2	1	1	1	4	3	3	3	2	1	2	1	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:173531319G>A	uc003mcx.2	+	4	447	c.302G>A	c.(301-303)TGC>TAC	p.C101Y	HMP19_uc011dfh.1_Missense_Mutation_p.A5T	NM_015980	NP_057064	Q9Y328	NSG2_HUMAN	HMP19 protein	101	Lumenal (Potential).				dopamine receptor signaling pathway	cytoplasmic vesicle membrane|Golgi cisterna membrane|integral to membrane|multivesicular body membrane	dopamine receptor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00925)|all_lung(126;0.0148)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GATCACAGCTGCCCAGAGGGA	0.488													24	58					0	0	1	0	0		A	173531319	A	A	173531319	3	1	27	1	0	0	0	0	1	0	0	0	7261	1319	46	2	312	2	HMP19	5	173531319	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	778426	173531319	7383941	2936	25287											
CDHR2	54825	broad.mit.edu	37	chr5	176004773	176004773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccagagcacagcgccaccGgctctgtggtcaccgacagc	8	5	12	16	3	2	1	1	0	1	1	2	2	2	1	4	2	4	2	4	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176004773G>A	uc003mem.1	+	14	1552	c.1486G>A	c.(1486-1488)GGC>AGC	p.G496S	CDHR2_uc003men.1_Missense_Mutation_p.G496S	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	496	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						CAGCGCCACCGGCTCTGTGGT	0.532													5	23					0	0	1	0	0		A	176004773	A	A	176004773	3	1	27	1	0	0	0	0	1	0	0	0	3122	1116	39	1	1536	1	CDHR2	5	176004773	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2473454	176004773	4910487	2937	25288											
CDHR2	54825	broad.mit.edu	37	chr5	176005480	176005480	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctgcaggccacagacggCgggaacctgtcctcctccac	8	5	11	17	3	0	1	0	0	0	1	3	2	3	2	5	3	2	2	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176005480C>T	uc003mem.1	+	16	1755	c.1689C>T	c.(1687-1689)GGC>GGT	p.G563G	CDHR2_uc003men.1_Silent_p.G563G	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	563	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						CCACAGACGGCGGGAACCTGT	0.617													5	25					0	0	1	0	0		T	176005480	T	T	176005480	2	4	27	1	0	0	0	0	0	0	0	1	3122	755	27	1		1	CDHR2	5	176005480	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	707	176005480	4909780	2938	25289											
CDHR2	54825	broad.mit.edu	37	chr5	176011262	176011262	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaaggaggaggatccaggTatgtgctccctgggccagga	9	7	17	8	0	0	1	0	1	0	0	2	5	2	5	3	6	1	2	3	6	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176011262T>C	uc003mem.1	+	18	2194	c.2128_splice	c.e18+2	p.G710_splice	CDHR2_uc003men.1_Splice_Site_p.G710_splice	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor						homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						AGGATCCAGGTATGTGCTCCC	0.567													5	56					0	0	1	0	0		C	176011262	C	C	176011262	5	2	27	1	0	0	0	0	0	0	1	0	3122	1652	57	3	2196	3	CDHR2	5	176011262	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5782	176011262	4903998	2939	25290											
TSPAN17	26262	broad.mit.edu	37	chr5	176079745	176079745	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtatgcccaaccccagtTctccgtgttcctcggtctca	5	13	7	16	2	3	0	1	0	3	0	7	0	4	0	5	1	2	3	5	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176079745T>A	uc003met.2	+	4	516	c.287T>A	c.(286-288)TTC>TAC	p.F96Y	TSPAN17_uc003mes.3_Missense_Mutation_p.F30Y|TSPAN17_uc003meu.2_Missense_Mutation_p.F96Y|TSPAN17_uc003mev.2_Missense_Mutation_p.F96Y|TSPAN17_uc003mew.2_Missense_Mutation_p.F96Y	NM_012171	NP_036303	Q96FV3	TSN17_HUMAN	transmembrane 4 superfamily member 17 isoform a	96	Helical; (Potential).					integral to membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0	all_cancers(89;0.00141)|Renal(175;0.000269)|Lung NSC(126;0.00814)|all_lung(126;0.0133)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAACCCCAGTTCTCCGTGTTC	0.577													6	164					0	0	1	0	0		A	176079745	A	A	176079745	3	1	27	1	0	0	0	0	1	0	0	0	16667	1797	62	5	301	5	TSPAN17	5	176079745	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	68483	176079745	4835515	2940	25291											
UNC5A	90249	broad.mit.edu	37	chr5	176295830	176295830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtggacccgtccctggacCccaatgtatacatcacgcgg	8	8	11	14	3	1	0	1	0	0	0	2	2	2	2	4	4	1	1	4	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176295830C>T	uc003mey.2	+	5	778	c.586C>T	c.(586-588)CCC>TCC	p.P196S	UNC5A_uc003mex.1_Missense_Mutation_p.P196S|UNC5A_uc010jkg.1_Missense_Mutation_p.P156S	NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	196	Ig-like C2-type.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTCCCTGGACCCCAATGTATA	0.652													7	52					0	0	1	0	0		T	176295830	T	T	176295830	3	4	27	1	0	0	0	0	1	0	0	0	17017	623	22	4	604	4	UNC5A	5	176295830	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	216085	176295830	4619430	2941	25292											
UNC5A	90249	broad.mit.edu	37	chr5	176297464	176297464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctctgacccagcaccccGcaacggaggggaggagtgcc	8	4	15	14	2	1	1	0	1	1	0	1	4	1	4	4	4	4	3	4	4	1	0	rs147243158	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176297464G>A	uc003mey.2	+	6	1007	c.815G>A	c.(814-816)CGC>CAC	p.R272H	UNC5A_uc003mex.1_Missense_Mutation_p.R272H|UNC5A_uc010jkg.1_Missense_Mutation_p.R232H	NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	272	TSP type-1.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCAGCACCCCGCAACGGAGGG	0.642													7	50					0	0	1	0	0		A	176297464	A	A	176297464	3	1	27	1	0	0	0	0	1	0	0	0	17017	1087	38	1	837	1	UNC5A	5	176297464	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1634	176297464	4617796	2942	25293											
UNC5A	90249	broad.mit.edu	37	chr5	176306343	176306343	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagctgctggctctggaGagtgaagcgggggtcccagc	6	7	18	10	1	1	3	0	2	1	1	2	4	2	3	1	4	4	4	1	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176306343G>T	uc003mey.2	+	14	2409	c.2217G>T	c.(2215-2217)GAG>GAT	p.E739D		NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	739	Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGGCTCTGGAGAGTGAAGCGG	0.617													9	149					0.0581538	0.0588749	1	1	0		T	176306343	T	T	176306343	3	4	27	1	0	0	0	0	1	0	0	0	17017	933	33	5	2271	5	UNC5A	5	176306343	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8879	176306343	4608917	2943	25294											
HK3	3101	broad.mit.edu	37	chr5	176314586	176314586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcatggttcaaccggaatGgggccagggtctcctccagc	8	8	13	12	1	3	0	2	0	1	0	5	2	4	1	4	5	2	1	4	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176314586G>A	uc003mfa.2	-	11	1558	c.1466C>T	c.(1465-1467)CCA>CTA	p.P489L	HK3_uc003mez.2_Missense_Mutation_p.P45L	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	489	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAACCGGAATGGGGCCAGGGT	0.672													4	44					0	0	1	0	0		A	176314586	A	A	176314586	3	1	27	1	0	0	0	0	1	0	0	0	7208	1348	47	4	1341	4	HK3	5	176314586	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8243	176314586	4600674	2944	25295											
NSD1	64324	broad.mit.edu	37	chr5	176562872	176562872	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagcagcccttctcccagcCcccttttcactaggagacac	10	8	6	17	0	2	1	1	0	1	1	3	2	2	1	4	1	3	1	4	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176562872C>T	uc003mfr.3	+	2	906	c.768C>T	c.(766-768)GCC>GCT	p.A256A	NSD1_uc003mft.3_Intron|NSD1_uc003mfs.1_Silent_p.A256A|NSD1_uc011dfx.1_Intron|NSD1_uc003mfp.2_Silent_p.A256A|NSD1_uc003mfq.2_Silent_p.A256A	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	256					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		TTCTCCCAGCCCCCTTTTCAC	0.398			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			4	45					0	0	1	0	0		T	176562872	T	T	176562872	2	4	27	1	0	0	0	0	0	0	0	1	10688	610	22	4		4	NSD1	5	176562872	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	248286	176562872	4352388	2945	25296											
NSD1	64324	broad.mit.edu	37	chr5	176694615	176694615	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgcttttcatcgtgaatgCctgaacattgatatccctga	9	14	8	10	1	1	4	1	4	0	0	3	4	2	4	2	0	3	2	2	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176694615C>T	uc003mfr.3	+	15	5337	c.5199C>T	c.(5197-5199)TGC>TGT	p.C1733C	NSD1_uc003mft.3_Silent_p.C1464C|NSD1_uc003mfs.1_Silent_p.C1630C|NSD1_uc011dfx.1_Silent_p.C1381C	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1733	PHD-type 3.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		ATCGTGAATGCCTGAACATTG	0.448			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			37	172					0	0	1	0	0		T	176694615	T	T	176694615	2	4	27	1	0	0	0	0	0	0	0	1	10688	747	26	2		2	NSD1	5	176694615	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	131743	176694615	4220645	2946	25297											
NSD1	64324	broad.mit.edu	37	chr5	176707623	176707623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacttatctgaaatacccCgttgcaactgtaaagctact	13	11	6	11	1	1	2	0	1	1	1	1	2	1	2	2	0	5	4	2	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176707623C>T	uc003mfr.3	+	18	5818	c.5680C>T	c.(5680-5682)CGT>TGT	p.R1894C	NSD1_uc003mft.3_Missense_Mutation_p.R1625C|NSD1_uc003mfs.1_Missense_Mutation_p.R1791C|NSD1_uc011dfx.1_Missense_Mutation_p.R1542C	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1894	AWS.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		TGAAATACCCCGTTGCAACTG	0.478			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			8	95					0	0	1	0	0		T	176707623	T	T	176707623	3	4	27	1	0	0	0	0	1	0	0	0	10688	652	23	1	5746	1	NSD1	5	176707623	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13008	176707623	4207637	2947	25298											
MXD3	83463	broad.mit.edu	37	chr5	176734623	176734623	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgccgtgcgagtagctgTgctcctggccggcgacgaag	5	6	16	14	7	0	0	0	0	0	0	1	3	1	0	4	2	3	3	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176734623T>C	uc003mgb.2	-	6	1048	c.587A>G	c.(586-588)CAC>CGC	p.H196R	MXD3_uc010jkk.2_Intron|MXD3_uc003mga.3_Missense_Mutation_p.T222A|MXD3_uc003mgc.2_Missense_Mutation_p.H186R	NM_031300	NP_112590	Q9BW11	MAD3_HUMAN	MAX dimerization protein 3 isoform a	196					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0	all_cancers(89;2.49e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CGAGTAGCTGTGCTCCTGGCC	0.706													4	47					0	0	1	0	0		C	176734623	C	C	176734623	3	2	27	1	0	0	0	0	1	0	0	0	10018	1696	59	3	118	3	MXD3	5	176734623	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	27000	176734623	4180637	2948	25299											
LMAN2	10960	broad.mit.edu	37	chr5	176765512	176765512	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacgaggcggtcccgggtgTaccacaaggcgatgccgtct	7	6	15	13	5	1	0	0	0	1	0	2	2	2	0	3	4	2	2	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176765512T>C	uc003mge.2	-	3	647	c.410A>G	c.(409-411)TAC>TGC	p.Y137C	LMAN2_uc003mgd.2_Missense_Mutation_p.Y137C	NM_006816	NP_006807	Q12907	LMAN2_HUMAN	lectin, mannose-binding 2 precursor	137	Lumenal (Potential).|L-type lectin-like.				protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	metal ion binding|sugar binding				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTCCCGGGTGTACCACAAGGC	0.647													5	132					0	0	1	0	0		C	176765512	C	C	176765512	3	2	27	1	0	0	0	0	1	0	0	0	8855	1638	57	3	684	3	LMAN2	5	176765512	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	30889	176765512	4149748	2949	25300											
SLC34A1	6569	broad.mit.edu	37	chr5	176814840	176814840	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccaacaccatcgtggccCtgatgcaggcgggggacagg	9	5	14	13	2	1	1	1	1	0	0	2	2	1	2	3	5	2	1	3	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176814840C>T	uc003mgk.3	+	6	711	c.610C>T	c.(610-612)CTG>TTG	p.L204L		NM_003052	NP_003043	Q06495	NPT2A_HUMAN	solute carrier family 34 (sodium phosphate),	204	Extracellular (Potential).				phosphate ion homeostasis|response to cadmium ion|response to lead ion|response to mercury ion|sodium ion transport	brush border membrane|integral to plasma membrane	protein binding|sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(1)	1	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CATCGTGGCCCTGATGCAGGC	0.642													3	57					0	0	1	0	0		T	176814840	T	T	176814840	2	4	27	1	0	0	0	0	0	0	0	1	14592	680	24	4		4	SLC34A1	5	176814840	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	49328	176814840	4100420	2950	25301											
DDX41	51428	broad.mit.edu	37	chr5	176943356	176943356	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttggactgagggcctagcggGatgtcgtcctcatctccccg	5	10	13	13	3	2	1	1	1	1	0	5	3	3	3	4	3	1	0	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:176943356G>A	uc003mho.2	-	3	252	c.231C>T	c.(229-231)ATC>ATT	p.I77I	DDX41_uc003mhm.2_5'Flank|DDX41_uc003mhn.2_5'UTR|DDX41_uc003mhp.2_5'UTR|DDX41_uc003mhq.1_5'UTR	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	77					apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			GGCCTAGCGGGATGTCGTCCT	0.612													9	109					0	0	1	0	0		A	176943356	A	A	176943356	2	1	27	1	0	0	0	0	0	0	0	1	4364	1164	41	4		4	DDX41	5	176943356	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	128516	176943356	3971904	2951	25302											
TMED9	54732	broad.mit.edu	37	chr5	177022356	177022356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagaccctcatcctcgtggCcatcggtgtctggcagatgc	6	9	12	14	2	2	2	1	0	1	2	5	2	3	2	3	3	1	2	3	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:177022356C>T	uc003mhx.2	+	5	650	c.647C>T	c.(646-648)GCC>GTC	p.A216V	TMED9_uc010jko.2_RNA	NM_017510	NP_059980	Q9BVK6	TMED9_HUMAN	transmembrane emp24 protein transport domain	216	Helical; (Potential).				transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|integral to membrane					0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ATCCTCGTGGCCATCGGTGTC	0.612													6	90					0	0	1	0	0		T	177022356	T	T	177022356	3	4	27	1	0	0	0	0	1	0	0	0	16037	739	26	2	665	2	TMED9	5	177022356	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	79000	177022356	3892904	2952	25303											
PROP1	5626	broad.mit.edu	37	chr5	177419899	177419899	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taggggtgagggaagcaggtCactggtggtggtggtgctgc	6	9	21	5	0	1	1	1	1	0	0	1	2	1	2	0	8	3	2	0	8	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:177419899C>T	uc003mif.1	-	3	801	c.492G>A	c.(490-492)GTG>GTA	p.V164V		NM_006261	NP_006252	O75360	PROP1_HUMAN	PROP paired-like homeobox 1	164					central nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(89;0.00176)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGAAGCAGGTCACTGGTGGTG	0.597													5	24					0	0	1	0	0		T	177419899	T	T	177419899	2	4	27	1	0	0	0	0	0	0	0	1	12579	813	29	4		4	PROP1	5	177419899	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	397543	177419899	3495361	2953	25304											
COL23A1	91522	broad.mit.edu	37	chr5	177682016	177682016	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctccctgctcgcccttgagGcctggggcaccctgaggcag	4	8	13	16	1	1	2	0	2	1	0	3	2	1	2	4	4	1	3	4	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:177682016G>A	uc003mje.2	-	16	1252	c.894C>T	c.(892-894)GGC>GGT	p.G298G	COL23A1_uc010jkt.2_Silent_p.G180G	NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	298	Extracellular (Potential).|Collagen-like 2.|Gly-rich.					collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		CGCCCTTGAGGCCTGGGGCAC	0.552													9	154					0	0	1	0	0		A	177682016	A	A	177682016	2	1	27	1	0	0	0	0	0	0	0	1	3685	1190	42	2		2	COL23A1	5	177682016	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	262117	177682016	3233244	2954	25305											
ZNF354B	117608	broad.mit.edu	37	chr5	178293336	178293336	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaacttgtaccgggatgTgatgctggagaactatagga	13	9	14	5	1	0	3	0	1	0	2	0	7	0	5	1	3	4	2	1	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:178293336T>C	uc003mjl.2	+	3	351	c.125T>C	c.(124-126)GTG>GCG	p.V42A	ZNF354B_uc003mjm.2_Missense_Mutation_p.V42A	NM_058230	NP_478137	Q96LW1	Z354B_HUMAN	zinc finger protein 354B	42	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TACCGGGATGTGATGCTGGAG	0.483													19	76					0	0	1	0	0		C	178293336	C	C	178293336	3	2	27	1	0	0	0	0	1	0	0	0	17890	1696	59	3	131	3	ZNF354B	5	178293336	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	611320	178293336	2621924	2955	25306											
ZFP2	80108	broad.mit.edu	37	chr5	178359389	178359389	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccttatgagtgtatggtgTgtggaaaacatttcactgga	12	13	11	5	0	1	1	1	1	0	0	1	3	1	3	1	3	2	1	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:178359389T>C	uc003mjn.1	+	5	1584	c.1075T>C	c.(1075-1077)TGT>CGT	p.C359R	ZFP2_uc010jky.2_Missense_Mutation_p.C359R|ZFP2_uc010jkx.1_Missense_Mutation_p.C359R	NM_030613	NP_085116	Q6ZN57	ZFP2_HUMAN	zinc finger protein 2 homolog	359	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.00655)|GBM - Glioblastoma multiforme(465;0.0302)|OV - Ovarian serous cystadenocarcinoma(192;0.0615)|Epithelial(171;0.111)		GTGTATGGTGTGTGGAAAACA	0.413													4	54					0	0	1	0	0		C	178359389	C	C	178359389	3	2	27	1	0	0	0	0	1	0	0	0	17666	1696	59	3	1077	3	ZFP2	5	178359389	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	66053	178359389	2555871	2956	25307											
ZNF454	285676	broad.mit.edu	37	chr5	178392092	178392092	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagcctttcaccagagtacGcaccttatccatcaccaaag	14	8	5	14	1	2	1	2	0	0	1	3	1	3	1	5	0	2	2	5	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:178392092G>A	uc003mjo.1	+	5	958	c.687G>A	c.(685-687)ACG>ACA	p.T229T	ZNF454_uc010jkz.1_Silent_p.T229T	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	229	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(89;0.000904)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.225)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.234)		ACCAGAGTACGCACCTTATCC	0.388													5	100					0	0	1	0	0		A	178392092	A	A	178392092	2	1	27	1	0	0	0	0	0	0	0	1	17948	1074	38	1		1	ZNF454	5	178392092	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	32703	178392092	2523168	2957	25308											
GRM6	2916	broad.mit.edu	37	chr5	178408805	178408805	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagcatgccgagggacacCgaggcactcaggctcaagga	12	4	14	11	2	2	1	2	0	0	1	2	5	2	3	2	4	2	3	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:178408805C>T	uc003mjr.2	-	10	2666	c.2487G>A	c.(2485-2487)TCG>TCA	p.S829S	GRM6_uc003mjq.2_Silent_p.S232S	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	829	Helical; Name=7; (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		CGAGGGACACCGAGGCACTCA	0.577													7	156					0	0	1	0	0		T	178408805	T	T	178408805	2	4	27	1	0	0	0	0	0	0	0	1	6817	639	23	1		1	GRM6	5	178408805	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16713	178408805	2506455	2958	25309											
GRM6	2916	broad.mit.edu	37	chr5	178413301	178413301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggaagagcctgcgggCggcacagaccgcggccccag	8	1	16	16	4	0	2	0	0	0	2	0	3	0	3	5	4	2	1	5	4	1	0	rs150850494		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:178413301C>T	uc003mjr.2	-	8	2133	c.1954G>A	c.(1954-1956)GCC>ACC	p.A652T	GRM6_uc003mjq.2_5'Flank|GRM6_uc010jla.1_Missense_Mutation_p.A235T|GRM6_uc003mjs.1_Missense_Mutation_p.A272T	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	652	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		AGCCTGCGGGCGGCACAGACC	0.642													11	26					0	0	1	0	0		T	178413301	T	T	178413301	3	4	27	1	0	0	0	0	1	0	0	0	6817	768	27	1	691	1	GRM6	5	178413301	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4496	178413301	2501959	2959	25310											
ADAMTS2	9509	broad.mit.edu	37	chr5	178699971	178699971	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtggccggcgatacaccAcatgcacacggccttgctca	8	7	12	14	3	1	0	1	0	0	0	1	1	1	0	3	4	3	2	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:178699971A>G	uc003mjw.2	-	3	629	c.629T>C	c.(628-630)GTG>GCG	p.V210A	ADAMTS2_uc011dgm.1_Missense_Mutation_p.V210A	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	210					collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		GCGATACACCACATGCACACG	0.667													10	70					0	0	1	0	0		G	178699971	G	G	178699971	3	3	27	1	0	0	0	0	1	0	0	0	265	159	6	3	3161	3	ADAMTS2	5	178699971	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	286670	178699971	2215289	2960	25311											
MAML1	9794	broad.mit.edu	37	chr5	179201856	179201856	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtggatgagtgatttggAcgacctgttagggtctcagt	8	12	16	5	1	1	2	1	2	1	0	2	6	1	5	1	4	0	1	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:179201856A>G	uc003mkm.2	+	5	3292	c.3029A>G	c.(3028-3030)GAC>GGC	p.D1010G	MAML1_uc003mkn.1_Intron	NM_014757	NP_055572	Q92585	MAML1_HUMAN	mastermind-like 1	1010					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	peptide antigen binding|protein kinase binding|transcription coactivator activity			lung(4)|ovary(2)	6	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGTGATTTGGACGACCTGTTA	0.448													12	133					0	0	1	0	0		G	179201856	G	G	179201856	3	3	27	1	0	0	0	0	1	0	0	0	9223	275	10	3	3047	3	MAML1	5	179201856	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	501885	179201856	1713404	2961	25312											
SQSTM1	8878	broad.mit.edu	37	chr5	179251252	179251252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtggccaggatgggaaatggGtccaccaggaaactggagcc	11	5	16	9	0	0	0	0	0	0	0	1	4	1	4	4	6	2	0	4	6	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:179251252G>A	uc003mkw.3	+	4	697	c.602G>A	c.(601-603)GGT>GAT	p.G201D	SQSTM1_uc011dgr.1_Missense_Mutation_p.G117D|SQSTM1_uc011dgs.1_Missense_Mutation_p.G117D|SQSTM1_uc003mkv.3_Missense_Mutation_p.G201D|SQSTM1_uc003mkx.2_Missense_Mutation_p.G117D	NM_003900	NP_003891	Q13501	SQSTM_HUMAN	sequestosome 1 isoform 1	201	Interaction with GABRR3 (By similarity).|LIM protein-binding (LB).				anti-apoptosis|apoptosis|cell differentiation|endosome transport|induction of apoptosis by extracellular signals|intracellular signal transduction|macroautophagy|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein localization|regulation of I-kappaB kinase/NF-kappaB cascade|ubiquitin-dependent protein catabolic process	cytosol|late endosome|nucleoplasm	protein kinase C binding|receptor tyrosine kinase binding|SH2 domain binding|ubiquitin binding|zinc ion binding		SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(89;0.000205)|all_epithelial(37;7.15e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0395)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGGGAAATGGGTCCACCAGGA	0.637									Paget_Disease_of_Bone				10	79					0	0	1	0	0		A	179251252	A	A	179251252	3	1	27	1	0	0	0	0	1	0	0	0	15155	1261	44	4	616	4	SQSTM1	5	179251252	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	49396	179251252	1664008	2962	25313											
TBC1D9B	23061	broad.mit.edu	37	chr5	179302057	179302057	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgctctcgaagggcatgacGctgaggaagagggtcaggaa	11	5	17	8	3	2	3	1	2	1	1	3	6	2	5	0	4	0	3	0	4	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:179302057G>A	uc003mlh.2	-	12	2068	c.2031C>T	c.(2029-2031)AGC>AGT	p.S677S	TBC1D9B_uc003mli.2_Silent_p.S677S|TBC1D9B_uc003mlj.2_Silent_p.S677S|TBC1D9B_uc011dgv.1_5'Flank	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	677	Helical; (Potential).|Rab-GAP TBC.					integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGGGCATGACGCTGAGGAAGA	0.602													8	66					0	0	1	0	0		A	179302057	A	A	179302057	2	1	27	1	0	0	0	0	0	0	0	1	15653	1078	38	1		1	TBC1D9B	5	179302057	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	50805	179302057	1613203	2963	25314											
RASGEF1C	255426	broad.mit.edu	37	chr5	179548085	179548085	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatctcagttgccaccaggTagcacagcctgttgaaccat	11	9	9	12	0	1	2	1	1	1	1	2	2	1	2	4	1	4	4	4	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:179548085T>C	uc003mlq.2	-	6	1076	c.779A>G	c.(778-780)TAC>TGC	p.Y260C	RASGEF1C_uc003mlr.2_Missense_Mutation_p.Y260C|RASGEF1C_uc003mlp.3_Missense_Mutation_p.Y109C	NM_175062	NP_778232	Q8N431	RGF1C_HUMAN	RasGEF domain family, member 1C	260	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(89;3.44e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0242)|Medulloblastoma(196;0.00498)|all_neural(177;0.0137)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGCCACCAGGTAGCACAGCCT	0.587													3	72					0	0	1	0	0		C	179548085	C	C	179548085	3	2	27	1	0	0	0	0	1	0	0	0	13096	1638	57	3	653	3	RASGEF1C	5	179548085	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	246028	179548085	1367175	2964	25315											
RASGEF1C	255426	broad.mit.edu	37	chr5	179564616	179564616	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaccggcttgtccagctGctgctgctcgatgcacaggt	6	9	12	14	2	0	0	0	0	0	0	2	1	1	0	2	2	6	7	2	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:179564616G>A	uc003mlq.2	-	2	571	c.274C>T	c.(274-276)CAG>TAG	p.Q92*	RASGEF1C_uc003mlr.2_Nonsense_Mutation_p.Q92*|RASGEF1C_uc003mlp.3_5'Flank	NM_175062	NP_778232	Q8N431	RGF1C_HUMAN	RasGEF domain family, member 1C	92	N-terminal Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(89;3.44e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0242)|Medulloblastoma(196;0.00498)|all_neural(177;0.0137)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TTGTCCAGCTGCTGCTGCTCG	0.632													3	8					0	0	1	0	0		A	179564616	A	A	179564616	4	1	27	1	0	0	0	0	0	1	0	0	13096	1328	46	2	1174	2	RASGEF1C	5	179564616	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16531	179564616	1350644	2965	25316											
RASGEF1C	255426	broad.mit.edu	37	chr5	179565047	179565047	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaggcactcagcgtctgTggcatgtctgcctgcaatgg	6	10	14	11	2	3	0	1	0	2	0	4	1	3	1	1	4	3	3	1	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:179565047T>C	uc003mlq.2	-	1	303	c.6A>G	c.(4-6)CCA>CCG	p.P2P	RASGEF1C_uc003mlr.2_Silent_p.P2P|RASGEF1C_uc003mlp.3_5'Flank	NM_175062	NP_778232	Q8N431	RGF1C_HUMAN	RasGEF domain family, member 1C	2					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(89;3.44e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0242)|Medulloblastoma(196;0.00498)|all_neural(177;0.0137)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCAGCGTCTGTGGCATGTCTG	0.667													4	53					0	0	1	0	0		C	179565047	C	C	179565047	2	2	27	1	0	0	0	0	0	0	0	1	13096	1683	59	3		3	RASGEF1C	5	179565047	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	431	179565047	1350213	2966	25317											
MAPK9	5601	broad.mit.edu	37	chr5	179688787	179688787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccatgtgaataacctgaCataagttagcatccattaat	14	12	6	9	0	0	2	0	2	0	0	2	2	2	2	3	0	2	3	3	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:179688787C>T	uc003mls.3	-	5	618	c.347G>A	c.(346-348)TGT>TAT	p.C116Y	MAPK9_uc003mlt.3_Missense_Mutation_p.C116Y|MAPK9_uc010jlc.2_Missense_Mutation_p.C116Y|MAPK9_uc003mlv.3_Missense_Mutation_p.C116Y|MAPK9_uc011dgx.1_Missense_Mutation_p.C116Y	NM_002752	NP_002743	P45984	MK09_HUMAN	mitogen-activated protein kinase 9 isoform JNK2	116	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|protein binding|protein binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)	4	all_cancers(89;6.54e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0236)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AATAACCTGACATAAGTTAGC	0.338													15	255					0	0	1	0	0		T	179688787	T	T	179688787	3	4	27	1	0	0	0	0	1	0	0	0	9305	478	17	4	1081	4	MAPK9	5	179688787	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	123740	179688787	1226473	2967	25318											
MAPK9	5601	broad.mit.edu	37	chr5	179696371	179696371	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacggcttagtttcttgActgcaacatttatcccaaga	12	12	8	9	1	1	2	0	1	1	1	2	3	2	3	1	2	2	3	1	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:179696371A>T	uc003mls.3	-	3	432	c.161T>A	c.(160-162)GTC>GAC	p.V54D	MAPK9_uc003mlt.3_Missense_Mutation_p.V54D|MAPK9_uc010jlc.2_Missense_Mutation_p.V54D|MAPK9_uc003mlv.3_Missense_Mutation_p.V54D|MAPK9_uc011dgx.1_Missense_Mutation_p.V54D	NM_002752	NP_002743	P45984	MK09_HUMAN	mitogen-activated protein kinase 9 isoform JNK2	54	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|protein binding|protein binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)	4	all_cancers(89;6.54e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0236)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TAGTTTCTTGACTGCAACATT	0.353													6	60					0	0	1	0	0		T	179696371	T	T	179696371	3	4	27	1	0	0	0	0	1	0	0	0	9305	275	10	5	1275	5	MAPK9	5	179696371	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7584	179696371	1218889	2968	25319											
FLT4	2324	broad.mit.edu	37	chr5	180049752	180049752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcacatagaagtagatgaGccgctcatcctggcccacct	10	8	10	13	1	2	3	2	1	0	2	3	3	3	3	4	2	1	2	4	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:180049752G>A	uc003mma.3	-	12	1715	c.1636C>T	c.(1636-1638)CTC>TTC	p.L546F	FLT4_uc003mlz.3_Missense_Mutation_p.L546F|FLT4_uc003mmb.1_Missense_Mutation_p.L79F|FLT4_uc011dgy.1_Missense_Mutation_p.L546F	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	546	Ig-like C2-type 5.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	AAGTAGATGAGCCGCTCATCC	0.577									Congenital_Hereditary_Lymphedema				4	50					0	0	1	0	0		A	180049752	A	A	180049752	3	1	27	1	0	0	0	0	1	0	0	0	5958	971	34	2	2539	2	FLT4	5	180049752	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	353381	180049752	865508	2969	25320											
OR2Y1	134083	broad.mit.edu	37	chr5	180166620	180166620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacccgcaccccaggaggCgatagccagggtctggcaga	11	3	14	13	2	1	1	0	0	1	1	1	4	1	2	4	4	2	2	4	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:180166620C>T	uc003mmf.1	-	1	439	c.439G>A	c.(439-441)GCC>ACC	p.A147T		NM_001001657	NP_001001657	Q8NGV0	OR2Y1_HUMAN	olfactory receptor, family 2, subfamily Y,	147	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(89;1.25e-05)|all_epithelial(37;4.36e-06)|Renal(175;0.000159)|Lung NSC(126;0.00317)|all_lung(126;0.0041)|Breast(19;0.114)	all_cancers(40;0.0834)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCCCAGGAGGCGATAGCCAGG	0.572													8	33					0	0	1	0	0		T	180166620	T	T	180166620	3	4	27	1	0	0	0	0	1	0	0	0	11054	768	27	1	500	1	OR2Y1	5	180166620	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	116868	180166620	748640	2970	25321											
MGAT1	4245	broad.mit.edu	37	chr5	180219453	180219453	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacttgcggtggtccggCggcaccgcaatgctgctcag	6	8	15	12	4	1	0	1	0	0	0	2	1	2	1	2	5	4	4	2	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:180219453C>T	uc003mmg.3	-	2	1014	c.519G>A	c.(517-519)CCG>CCA	p.P173P	MGAT1_uc010jlf.2_Silent_p.P173P|MGAT1_uc010jlg.2_Silent_p.P173P|MGAT1_uc003mmh.3_Silent_p.P173P|MGAT1_uc010jlh.2_Silent_p.P173P|MGAT1_uc003mmi.3_Silent_p.P173P	NM_002406	NP_002397	P26572	MGAT1_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	173	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(1)	1	all_cancers(89;1.11e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.0027)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00356)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGTGGTCCGGCGGCACCGCAA	0.706													10	56					0	0	1	0	0		T	180219453	T	T	180219453	2	4	27	1	0	0	0	0	0	0	0	1	9560	755	27	1		1	MGAT1	5	180219453	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	52833	180219453	695807	2971	25322											
OR2V2	285659	broad.mit.edu	37	chr5	180582008	180582008	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaggcatcttctcccacagTactgctgaccttgtcctctt	6	15	6	14	0	3	1	0	1	3	0	5	1	4	1	3	1	2	3	3	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:180582008T>C	uc011dhj.1	+	1	66	c.66T>C	c.(64-66)AGT>AGC	p.S22S		NM_206880	NP_996763	Q96R30	OR2V2_HUMAN	olfactory receptor, family 2, subfamily V,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2	all_cancers(89;8.26e-06)|all_epithelial(37;1.02e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.0103)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.0652)|all_lung(500;0.149)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCTCCCACAGTACTGCTGACC	0.537													19	210					0	0	1	0	0		C	180582008	C	C	180582008	2	2	27	1	0	0	0	0	0	0	0	1	11050	1635	57	3		3	OR2V2	5	180582008	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	362555	180582008	333252	2972	25323											
TRIM52	84851	broad.mit.edu	37	chr5	180687728	180687728	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccacagctgatggacacgggGtccttgaagtaatccaagca	12	7	11	11	1	0	2	0	2	0	0	2	3	2	3	3	3	2	3	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr5:180687728G>A	uc003mnp.2	-	1	392	c.87C>T	c.(85-87)GAC>GAT	p.D29D	uc003mnq.2_5'Flank	NM_032765	NP_116154	Q96A61	TRI52_HUMAN	tripartite motif-containing 52	29	RING-type.					intracellular	zinc ion binding				0	all_cancers(89;8.79e-06)|all_epithelial(37;1.13e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0654)	all_cancers(40;0.0106)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.0588)|all_lung(500;0.149)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.232)		TGGACACGGGGTCCTTGAAGT	0.468													3	46					0	0	1	0	0		A	180687728	A	A	180687728	2	1	27	1	0	0	0	0	0	0	0	1	16553	1252	44	4		4	TRIM52	5	180687728	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	105720	180687728	227532	2973	25324											
DUSP22	56940	broad.mit.edu	37	chr6	335142	335142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacctgtgcatcccagcagCggattcaccatctcaaaacc	12	8	6	15	1	2	0	2	0	1	0	4	1	3	1	4	1	5	2	4	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:335142C>T	uc003msx.2	+	4	606	c.167C>T	c.(166-168)GCG>GTG	p.A56V	DUSP22_uc011dhn.1_Missense_Mutation_p.A56V|DUSP22_uc003msy.1_Missense_Mutation_p.A13V	NM_020185	NP_064570	Q9NRW4	DUS22_HUMAN	dual specificity phosphatase 22	56					apoptosis|cell proliferation|inactivation of MAPK activity|multicellular organismal development|positive regulation of JNK cascade|regulation of cell proliferation|transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(77;0.228)	Breast(5;0.0249)|all_hematologic(90;0.0489)		OV - Ovarian serous cystadenocarcinoma(45;0.0277)|BRCA - Breast invasive adenocarcinoma(62;0.0669)		ATCCCAGCAGCGGATTCACCA	0.323													9	67					0	0	1	0	0		T	335142	T	T	335142	3	4	27	1	0	0	0	0	1	0	0	0	4827	768	27	1	181	1	DUSP22	6	335142	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08		335142	170779925	2974	25325											
IRF4	3662	broad.mit.edu	37	chr6	405036	405036	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctgcaagcgtttgctcAccacggccgctccctgccaa	8	7	10	16	3	1	1	1	0	0	1	2	1	2	1	4	1	5	5	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:405036A>G	uc003msz.3	+	8	1231	c.1118A>G	c.(1117-1119)CAC>CGC	p.H373R	IRF4_uc003mta.3_RNA|IRF4_uc003mtb.3_Missense_Mutation_p.H372R	NM_002460	NP_002451	Q15306	IRF4_HUMAN	interferon regulatory factor 4	373					interferon-gamma-mediated signaling pathway|positive regulation of interleukin-10 biosynthetic process|positive regulation of interleukin-13 biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of transcription, DNA-dependent|regulation of T-helper cell differentiation|T cell activation|type I interferon-mediated signaling pathway	cytoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1		Breast(5;0.0155)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.03)|BRCA - Breast invasive adenocarcinoma(62;0.0702)		GCGTTTGCTCACCACGGCCGC	0.512			T	IGH@	MM 								4	54					0	0	1	0	0		G	405036	G	G	405036	3	3	27	1	0	0	0	0	1	0	0	0	7848	159	6	3	1144	3	IRF4	6	405036	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	69894	405036	170710031	2975	25326											
EXOC2	55770	broad.mit.edu	37	chr6	486729	486729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgagctgcaagtgcatgCtactcttgaacttgttcagg	9	12	12	8	0	2	2	1	2	1	0	2	2	2	2	0	2	6	5	0	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:486729C>T	uc003mtd.2	-	28	2851	c.2717G>A	c.(2716-2718)AGC>AAC	p.S906N	EXOC2_uc003mte.2_Missense_Mutation_p.S906N|EXOC2_uc011dho.1_Missense_Mutation_p.S501N	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	906					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		CAAGTGCATGCTACTCTTGAA	0.453													22	75					0	0	1	0	0		T	486729	T	T	486729	3	4	27	1	0	0	0	0	1	0	0	0	5310	797	28	2	61	2	EXOC2	6	486729	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	81693	486729	170628338	2976	25327											
EXOC2	55770	broad.mit.edu	37	chr6	532476	532476	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttattacttacctgttggAggcaggcagtccttccaatc	8	14	8	11	0	0	0	0	0	0	0	3	1	2	1	3	3	2	3	3	3	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:532476A>T	uc003mtd.2	-	23	2507	c.2373T>A	c.(2371-2373)CCT>CCA	p.P791P	EXOC2_uc003mte.2_Silent_p.P791P|EXOC2_uc011dho.1_Silent_p.P386P	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	791					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		TACCTGTTGGAGGCAGGCAGT	0.348													10	84					0	0	1	0	0		T	532476	T	T	532476	2	4	27	1	0	0	0	0	0	0	0	1	5310	291	11	5		5	EXOC2	6	532476	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	45747	532476	170582591	2977	25328											
EXOC2	55770	broad.mit.edu	37	chr6	592505	592505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagccctctttgcaactgtGcatgagctgaaggatccact	9	11	10	11	0	1	2	0	2	1	0	2	3	2	3	2	1	5	4	2	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:592505G>A	uc003mtd.2	-	11	1290	c.1156C>T	c.(1156-1158)CAC>TAC	p.H386Y	EXOC2_uc003mte.2_Missense_Mutation_p.H386Y|EXOC2_uc011dho.1_Intron	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	386					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		TTGCAACTGTGCATGAGCTGA	0.463													4	58					0	0	1	0	0		A	592505	A	A	592505	3	1	27	1	0	0	0	0	1	0	0	0	5310	1319	46	2	1690	2	EXOC2	6	592505	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	60029	592505	170522562	2978	25329											
MYLK4	340156	broad.mit.edu	37	chr6	2680510	2680510	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttagcatcccgattcacacAcaggatattctcaggctgcc	10	10	7	14	1	2	0	2	0	1	0	4	2	3	1	2	2	2	2	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:2680510A>G	uc003mty.3	-	8	1000	c.703T>C	c.(703-705)TGT>CGT	p.C235R	MYLK4_uc003mtx.3_5'Flank	NM_001012418	NP_001012418	Q86YV6	MYLK4_HUMAN	myosin light chain kinase family, member 4	235	Protein kinase.						ATP binding|protein serine/threonine kinase activity			breast(3)|ovary(1)	4	Ovarian(93;0.0412)	all_hematologic(90;0.0897)				CGATTCACACACAGGATATTC	0.398													11	175					0	0	1	0	0		G	2680510	G	G	2680510	3	3	27	1	0	0	0	0	1	0	0	0	10077	159	6	3	483	3	MYLK4	6	2680510	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2088005	2680510	168434557	2979	25330											
SERPINB6	5269	broad.mit.edu	37	chr6	2948804	2948804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcagtcatgcccaggttgcGcaggacactctccatgtcgt	8	10	10	13	2	3	0	2	0	1	0	5	1	3	1	2	2	2	2	2	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:2948804G>A	uc003muk.2	-	6	2854	c.859C>T	c.(859-861)CGC>TGC	p.R287C	SERPINB6_uc003mui.2_Missense_Mutation_p.R170C|SERPINB6_uc003muj.2_RNA|SERPINB6_uc003mul.2_Missense_Mutation_p.R287C|SERPINB6_uc003mum.2_Missense_Mutation_p.R287C|SERPINB6_uc003mun.2_Missense_Mutation_p.R287C|SERPINB6_uc003muo.2_Missense_Mutation_p.R287C	NM_004568	NP_004559	P35237	SPB6_HUMAN	serine (or cysteine) proteinase inhibitor, clade	287					regulation of proteolysis	centrosome|cytosol|protein complex	protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Drotrecogin alfa(DB00055)	CCCAGGTTGCGCAGGACACTC	0.542													14	186					0	0	1	0	0		A	2948804	A	A	2948804	3	1	27	1	0	0	0	0	1	0	0	0	14130	1087	38	1	275	1	SERPINB6	6	2948804	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	268294	2948804	168166263	2980	25331											
SERPINB6	5269	broad.mit.edu	37	chr6	2954826	2954826	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaataacaatacattttcacCttctgtcttttcagctaccc	11	15	3	12	0	4	0	2	0	2	0	4	1	4	0	2	0	4	1	2	0	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:2954826C>A	uc003muk.2	-	3	2425	c.430G>T	c.(430-432)GGT>TGT	p.G144C	SERPINB6_uc003mui.2_Missense_Mutation_p.G27C|SERPINB6_uc003muj.2_RNA|SERPINB6_uc003mul.2_Missense_Mutation_p.G144C|SERPINB6_uc003mum.2_Missense_Mutation_p.G144C|SERPINB6_uc003mun.2_Missense_Mutation_p.G144C|SERPINB6_uc003muo.2_Missense_Mutation_p.G144C	NM_004568	NP_004559	P35237	SPB6_HUMAN	serine (or cysteine) proteinase inhibitor, clade	144					regulation of proteolysis	centrosome|cytosol|protein complex	protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Drotrecogin alfa(DB00055)	ACATTTTCACCTTCTGTCTTT	0.363													6	72					5.9392e-07	6.46363e-07	1	1	0		A	2954826	A	A	2954826	3	1	27	1	0	0	0	0	1	0	0	0	14130	695	24	5	716	5	SERPINB6	6	2954826	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6022	2954826	168160241	2981	25332											
FAM50B	26240	broad.mit.edu	37	chr6	3850883	3850883	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgcgcctgctcagcgacGccaccatggagaaggacgag	10	4	14	13	5	1	1	1	0	0	1	1	5	1	2	3	2	3	1	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:3850883G>T	uc003mvu.2	+	2	950	c.838G>T	c.(838-840)GCC>TCC	p.A280S		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	280						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				GCTCAGCGACGCCACCATGGA	0.632													8	47					5.18039e-06	5.59131e-06	1	1	0		T	3850883	T	T	3850883	3	4	27	1	0	0	0	0	1	0	0	0	5592	1087	38	5	840	5	FAM50B	6	3850883	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	896057	3850883	167264184	2982	25333											
PRPF4B	8899	broad.mit.edu	37	chr6	4031897	4031897	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacaaaaaaaagaagcataAacacagaagtaaacataaga	26	4	5	6	0	1	3	1	0	0	3	1	3	1	3	0	0	3	2	0	0	11	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:4031897A>G	uc003mvv.2	+	2	237	c.146A>G	c.(145-147)AAA>AGA	p.K49R	PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	49	His-rich.|Arg/Lys-rich (basic).					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				aagaagcataaacacagaagt	0.154													3	32					0	0	1	0	0		G	4031897	G	G	4031897	3	3	27	1	0	0	0	0	1	0	0	0	12595	14	1	3	152	3	PRPF4B	6	4031897	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	181014	4031897	167083170	2983	25334											
PRPF4B	8899	broad.mit.edu	37	chr6	4032892	4032892	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatctaagcagagcaaaTccccctcgcggacactgtct	12	7	9	13	2	2	2	0	0	2	2	4	4	3	3	2	1	2	2	2	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:4032892T>C	uc003mvv.2	+	2	1232	c.1141T>C	c.(1141-1143)TCC>CCC	p.S381P	PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	381	Arg/Lys-rich (basic).					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				GCAGAGCAAATCCCCCTCGCG	0.458													17	104					0	0	1	0	0		C	4032892	C	C	4032892	3	2	27	1	0	0	0	0	1	0	0	0	12595	1435	50	3	1147	3	PRPF4B	6	4032892	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	995	4032892	167082175	2984	25335											
PRPF4B	8899	broad.mit.edu	37	chr6	4053072	4053072	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactccttaaaagatgcaatAtcctacatgcagatatcaag	17	10	5	9	0	1	2	1	0	0	2	3	2	3	2	2	0	4	2	2	0	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:4053072A>G	uc003mvv.2	+	11	2522	c.2431A>G	c.(2431-2433)ATC>GTC	p.I811V	PRPF4B_uc003mvw.2_RNA|C6orf146_uc010jnq.1_Intron|PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	811	Protein kinase.					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				AAGATGCAATATCCTACATGC	0.368													3	34					0	0	1	0	0		G	4053072	G	G	4053072	3	3	27	1	0	0	0	0	1	0	0	0	12595	449	16	3	2473	3	PRPF4B	6	4053072	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20180	4053072	167061995	2985	25336											
CDYL	9425	broad.mit.edu	37	chr6	4716115	4716115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tattcctgaagagaaacaacGgtaagaacttgcaggaatca	17	8	9	7	1	1	3	1	1	0	2	2	5	2	4	1	2	4	2	1	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:4716115G>A	uc003mwi.2	+	2	234	c.103G>A	c.(103-105)GTG>ATG	p.V35M		NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	35					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		GAGAAACAACGGTAAGAACTT	0.388													3	21					0	0	1	0	0		A	4716115	A	A	4716115	3	1	27	1	0	0	0	0	1	0	0	0	3188	1131	39	1		1	CDYL	6	4716115	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	663043	4716115	166398952	2986	25337											
CDYL	9425	broad.mit.edu	37	chr6	4892095	4892095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccacgacttcaacagacGccacacggagaagcagaagg	15	3	10	13	3	1	3	1	0	0	3	2	5	2	3	2	2	2	1	2	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:4892095G>A	uc003mwi.2	+	4	466	c.335G>A	c.(334-336)CGC>CAC	p.R112H	CDYL_uc003mwj.2_Missense_Mutation_p.R58H|CDYL_uc003mwk.2_Intron|CDYL_uc011dhx.1_5'UTR|CDYL_uc011dhy.1_5'UTR	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	112	Chromo.				regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		TTCAACAGACGCCACACGGAG	0.502													6	47					0	0	1	0	0		A	4892095	A	A	4892095	3	1	27	1	0	0	0	0	1	0	0	0	3188	1087	38	1	179	1	CDYL	6	4892095	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	175980	4892095	166222972	2987	25338											
FARS2	10667	broad.mit.edu	37	chr6	5613496	5613496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctatgacttagtccgaaCaattggaggagacctggtgg	10	12	12	7	1	1	2	0	1	1	1	2	5	2	3	2	4	1	0	2	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:5613496C>T	uc010jnv.1	+	6	1496	c.1160C>T	c.(1159-1161)ACA>ATA	p.T387I	FARS2_uc003mwr.2_Missense_Mutation_p.T387I	NM_006567	NP_006558	O95363	SYFM_HUMAN	phenylalanyl-tRNA synthetase 2 precursor	387	FDX-ACB.				phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)	TTAGTCCGAACAATTGGAGGA	0.393													5	89					0	0	1	0	0		T	5613496	T	T	5613496	3	4	27	1	0	0	0	0	1	0	0	0	5692	478	17	4	1178	4	FARS2	6	5613496	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	721401	5613496	165501571	2988	25339											
CAGE1	285782	broad.mit.edu	37	chr6	7374252	7374252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatgcctgccgaagaccaaGttgagacaatttctggcctc	12	9	9	11	1	1	2	0	1	1	2	2	4	1	2	4	1	2	1	4	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:7374252G>A	uc003mxi.2	-	4	1113	c.392C>T	c.(391-393)ACT>ATT	p.T131I	CAGE1_uc003mxh.2_RNA|CAGE1_uc003mxj.2_Missense_Mutation_p.T22I|CAGE1_uc003mxk.1_Missense_Mutation_p.T22I	NM_205864	NP_995586	Q8TC20	CAGE1_HUMAN	cancer antigen 1	267											0	Ovarian(93;0.0418)					CGAAGACCAAGTTGAGACAAT	0.468													11	151					0	0	1	0	0		A	7374252	A	A	7374252	3	1	27	1	0	0	0	0	1	0	0	0	2575	1029	36	4	1865	4	CAGE1	6	7374252	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1760756	7374252	163740815	2989	25340											
DSP	1832	broad.mit.edu	37	chr6	7571730	7571730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtttggagatgatgacaagCggaaaatacagtctcagttc	13	11	11	6	1	1	3	1	2	1	1	3	5	1	4	0	2	2	2	0	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:7571730C>T	uc003mxp.1	+	14	2095	c.1816C>T	c.(1816-1818)CGG>TGG	p.R606W	DSP_uc003mxq.1_Missense_Mutation_p.R606W	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	606	Globular 1.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TGATGACAAGCGGAAAATACA	0.498													13	186					0	0	1	0	0		T	7571730	T	T	7571730	3	4	27	1	0	0	0	0	1	0	0	0	4787	759	27	1	1870	1	DSP	6	7571730	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	197478	7571730	163543337	2990	25341											
DSP	1832	broad.mit.edu	37	chr6	7580889	7580889	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatagaaaggttaaaacaacTgatcgacaaagaaacaaatg	22	6	8	5	1	0	3	0	1	0	2	1	5	0	3	0	1	3	1	0	1	8	2	rs143380327		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:7580889T>C	uc003mxp.1	+	23	4745	c.4466T>C	c.(4465-4467)CTG>CCG	p.L1489P	DSP_uc003mxq.1_Intron	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1489	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TTAAAACAACTGATCGACAAA	0.428													13	71					0	0	1	0	0		C	7580889	C	C	7580889	3	2	27	1	0	0	0	0	1	0	0	0	4787	1580	55	3	4556	3	DSP	6	7580889	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9159	7580889	163534178	2991	25342											
DSP	1832	broad.mit.edu	37	chr6	7584584	7584584	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactcatcgaaaagggccaCggtattcgcttattagaagc	13	9	10	9	3	1	1	1	0	0	1	3	3	1	1	1	2	2	2	1	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:7584584C>T	uc003mxp.1	+	24	7368	c.7089C>T	c.(7087-7089)CAC>CAT	p.H2363H	DSP_uc003mxq.1_Silent_p.H1764H	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2363	Plectin 9.|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		AAAAGGGCCACGGTATTCGCT	0.458													16	53					0	0	1	0	0		T	7584584	T	T	7584584	2	4	27	1	0	0	0	0	0	0	0	1	4787	535	19	1		1	DSP	6	7584584	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3695	7584584	163530483	2992	25343											
SNRNP48	154007	broad.mit.edu	37	chr6	7601735	7601735	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcgatctctttgtagaCttggctgccaaaatcaatca	12	11	8	10	1	3	1	2	0	1	1	4	3	3	1	1	1	2	2	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:7601735C>A	uc003mxr.2	+	5	632	c.573C>A	c.(571-573)GAC>GAA	p.D191E	SNRNP48_uc003mxs.2_RNA	NM_152551	NP_689764	Q6IEG0	SNR48_HUMAN	U11/U12 snRNP 48K	191					mRNA processing	cytoplasm|U12-type spliceosomal complex	metal ion binding				0						TCTTTGTAGACTTGGCTGCCA	0.348													4	70					0.00909568	0.0093211	1	1	0		A	7601735	A	A	7601735	3	1	27	1	0	0	0	0	1	0	0	0	14882	564	20	5	591	5	SNRNP48	6	7601735	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17151	7601735	163513332	2993	25344											
SLC35B3	51000	broad.mit.edu	37	chr6	8428191	8428191	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctccttttgtcctgaataAgctgaagttctattaggcca	9	15	7	10	0	1	2	0	2	1	0	4	2	4	2	4	1	1	2	4	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:8428191A>G	uc010joe.2	-	4	564	c.398T>C	c.(397-399)CTT>CCT	p.L133P	SLC35B3_uc003mya.2_Missense_Mutation_p.L101P|SLC35B3_uc003myc.2_RNA|SLC35B3_uc003myb.2_Missense_Mutation_p.L133P|SLC35B3_uc011did.1_Missense_Mutation_p.L133P|SLC35B3_uc003myd.2_RNA	NM_001142541	NP_001136013	Q9H1N7	S35B3_HUMAN	solute carrier family 35, member B3	133	Helical; (Potential).				transmembrane transport	Golgi membrane|integral to membrane					0	Ovarian(93;0.0569)					GTCCTGAATAAGCTGAAGTTC	0.328													7	151					0	0	1	0	0		G	8428191	G	G	8428191	3	3	27	1	0	0	0	0	1	0	0	0	14602	72	3	3	839	3	SLC35B3	6	8428191	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	826456	8428191	162686876	2994	25345											
PAK1IP1	55003	broad.mit.edu	37	chr6	10709645	10709645	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaatggtagaaatgttggAaaagaagaggaaaaagaaga	23	5	13	0	0	0	5	0	0	0	5	0	8	0	7	0	3	0	2	0	3	10	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:10709645A>G	uc003mzg.2	+	10	1170	c.1139A>G	c.(1138-1140)GAA>GGA	p.E380G		NM_017906	NP_060376	Q9NWT1	PK1IP_HUMAN	PAK1 interacting protein 1	380					negative regulation of signal transduction	nucleolus|plasma membrane					0	Ovarian(93;0.107)|Breast(50;0.137)	all_hematologic(90;0.117)				GAAATGTTGGAAAAGAAGAGG	0.353													8	60					0	0	1	0	0		G	10709645	G	G	10709645	3	3	27	1	0	0	0	0	1	0	0	0	11419	246	9	3	1177	3	PAK1IP1	6	10709645	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2281454	10709645	160405422	2995	25346											
MAK	4117	broad.mit.edu	37	chr6	10796316	10796316	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaggttgctggacgctcAggttctgtggcggctgaatg	5	12	17	7	2	2	1	1	1	1	0	2	3	2	3	0	6	1	5	0	6	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:10796316A>G	uc003mzl.2	-	8	1287	c.1058T>C	c.(1057-1059)CTG>CCG	p.L353P	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Missense_Mutation_p.L353P|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	353	Glu/Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				CTGGACGCTCAGGTTCTGTGG	0.537													29	300					0	0	1	0	0		G	10796316	G	G	10796316	3	3	27	1	0	0	0	0	1	0	0	0	9215	188	7	3	837	3	MAK	6	10796316	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	86671	10796316	160318751	2996	25347											
MAK	4117	broad.mit.edu	37	chr6	10802142	10802142	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctggcttgctgtcggtcGtttctttggatcccaattca	5	16	9	11	2	2	0	1	0	1	0	5	1	3	1	2	3	2	3	2	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:10802142G>A	uc003mzl.2	-	7	1043	c.814C>T	c.(814-816)CGA>TGA	p.R272*	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Nonsense_Mutation_p.R272*|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	272	Protein kinase.		R -> P (in a breast infiltrating ductal carcinoma sample; somatic mutation).		cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity	p.R272P(2)		breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				GCTGTCGGTCGTTTCTTTGGA	0.393											OREG0017187	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	100					0	0	1	0	0		A	10802142	A	A	10802142	4	1	27	1	0	0	0	0	0	1	0	0	9215	1153	40	1	1085	1	MAK	6	10802142	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5826	10802142	160312925	2997	25348											
ELOVL2	54898	broad.mit.edu	37	chr6	10989995	10989995	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catataagatgactggaagaTgagacaaccgaaggggaagc	17	5	13	6	1	0	4	0	2	0	3	0	8	0	6	1	3	2	0	1	3	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:10989995T>C	uc003mzp.3	-	7	867	c.706A>G	c.(706-708)ATC>GTC	p.I236V		NM_017770	NP_060240	Q9NXB9	ELOV2_HUMAN	elongation of very long chain fatty acids-like	236	Helical; (Potential).				fatty acid elongation, polyunsaturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding				0	Breast(50;0.0418)|Ovarian(93;0.0919)	all_hematologic(90;0.117)	Epithelial(50;0.176)			GACTGGAAGATGAGACAACCG	0.473													4	68					0	0	1	0	0		C	10989995	C	C	10989995	3	2	27	1	0	0	0	0	1	0	0	0	5082	1464	51	3	192	3	ELOVL2	6	10989995	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	187853	10989995	160125072	2998	25349											
NEDD9	4739	broad.mit.edu	37	chr6	11191156	11191156	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcgggggacatcatatgCgtcgttctgagagcccactg	7	9	13	12	3	2	1	1	1	1	1	4	3	2	2	2	2	2	1	2	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:11191156C>T	uc003mzv.2	-	5	1113	c.946G>A	c.(946-948)GCA>ACA	p.A316T	NEDD9_uc010joz.2_Missense_Mutation_p.A316T|NEDD9_uc003mzw.3_Missense_Mutation_p.A170T	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	316					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			ACATCATATGCGTCGTTCTGA	0.572													9	76					0	0	1	0	0		T	11191156	T	T	11191156	3	4	27	1	0	0	0	0	1	0	0	0	10332	768	27	1	1570	1	NEDD9	6	11191156	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	201161	11191156	159923911	2999	25350											
TMEM170B	100113407	broad.mit.edu	37	chr6	11565992	11565992	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgtgatgctgcagaggcAtaggcagggaagagtcatct	10	10	15	6	0	2	3	1	1	1	2	2	4	2	4	0	3	2	5	0	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:11565992A>T	uc010jpa.2	+	2	191	c.191A>T	c.(190-192)CAT>CTT	p.H64L		NM_001100829	NP_001094299	Q5T4T1	T170B_HUMAN	transmembrane protein 170B	64	Cytoplasmic (Potential).					integral to membrane					0						CTGCAGAGGCATAGGCAGGGA	0.463													18	215					0	0	1	0	0		T	11565992	T	T	11565992	3	4	27	1	0	0	0	0	1	0	0	0	16112	217	8	5	197	5	TMEM170B	6	11565992	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	374836	11565992	159549075	3000	25351											
SIRT5	23408	broad.mit.edu	37	chr6	13588569	13588569	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcactctgtttaggtatggCagattttcgaaagttttttg	8	19	9	5	1	2	1	1	0	1	1	3	2	2	1	0	2	0	4	0	2	3	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:13588569C>G	uc003nay.2	+	4	418	c.122C>G	c.(121-123)GCA>GGA	p.A41G	SIRT5_uc003naw.2_Missense_Mutation_p.A41G|SIRT5_uc003nax.2_Intron|SIRT5_uc011dit.1_Missense_Mutation_p.A41G	NM_012241	NP_036373	Q9NXA8	SIRT5_HUMAN	sirtuin 5 isoform 1	41	Deacetylase sirtuin-type.				chromatin silencing|protein ADP-ribosylation|protein deacetylation	mitochondrial intermembrane space|mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|zinc ion binding			skin(2)|upper_aerodigestive_tract(1)	3	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.176)		Suramin(DB04786)	TTAGGTATGGCAGATTTTCGA	0.403													4	45					0	0	1	0	0		G	13588569	G	G	13588569	3	3	27	1	0	0	0	0	1	0	0	0	14366	710	25	5	128	5	SIRT5	6	13588569	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2022577	13588569	157526498	3001	25352											
RANBP9	10048	broad.mit.edu	37	chr6	13634706	13634706	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttcgtggtcatgtttagaGctaccatttaggaaaccatt	11	15	8	7	1	1	1	1	0	0	1	2	2	1	2	2	2	3	2	2	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:13634706G>A	uc003nbb.2	-	11	1811	c.1752C>T	c.(1750-1752)AGC>AGT	p.S584S	RANBP9_uc003nba.2_Silent_p.S243S	NM_005493	NP_005484	Q96S59	RANB9_HUMAN	RAN binding protein 9	584					axon guidance|microtubule nucleation|protein complex assembly	cytosol|microtubule associated complex|nucleus	Ran GTPase binding			lung(1)|skin(1)	2	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)			CATGTTTAGAGCTACCATTTA	0.358													9	78					0	0	1	0	0		A	13634706	A	A	13634706	2	1	27	1	0	0	0	0	0	0	0	1	13057	962	34	2		2	RANBP9	6	13634706	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46137	13634706	157480361	3002	25353											
CCDC90A	63933	broad.mit.edu	37	chr6	13792125	13792125	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacctgctaaatatttaaTattatcaagcttgtgtgact	12	17	5	7	0	1	1	1	1	0	0	1	1	1	1	1	0	3	2	1	0	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:13792125T>C	uc003nbd.2	-	8	1137	c.1009A>G	c.(1009-1011)ATT>GTT	p.I337V	uc003nbc.1_5'Flank|CCDC90A_uc010jpf.2_RNA	NM_001031713	NP_001026883	Q96AQ8	CC90A_HUMAN	coiled-coil domain containing 90A precursor	337						integral to membrane|mitochondrion					0	Breast(50;0.0027)|Ovarian(93;0.0964)	all_hematologic(90;0.117)				AAATATTTAATATTATCAAGC	0.348													3	55					0	0	1	0	0		C	13792125	C	C	13792125	3	2	27	1	0	0	0	0	1	0	0	0	2871	1406	49	3	78	3	CCDC90A	6	13792125	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	157419	13792125	157322942	3003	25354											
CCDC90A	63933	broad.mit.edu	37	chr6	13802559	13802559	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcagacacaatgatttcTgcttgttgagtagcaaaccc	13	11	8	9	0	1	3	0	2	1	1	1	3	1	3	1	0	4	5	1	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:13802559T>C	uc003nbd.2	-	3	683	c.555A>G	c.(553-555)GCA>GCG	p.A185A	CCDC90A_uc010jpf.2_RNA	NM_001031713	NP_001026883	Q96AQ8	CC90A_HUMAN	coiled-coil domain containing 90A precursor	185						integral to membrane|mitochondrion					0	Breast(50;0.0027)|Ovarian(93;0.0964)	all_hematologic(90;0.117)				CAATGATTTCTGCTTGTTGAG	0.443													11	106					0	0	1	0	0		C	13802559	C	C	13802559	2	2	27	1	0	0	0	0	0	0	0	1	2871	1567	55	3		3	CCDC90A	6	13802559	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10434	13802559	157312508	3004	25355											
JARID2	3720	broad.mit.edu	37	chr6	15496890	15496890	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaggccccggccgagagAggtctgctgaacggacacgt	11	4	15	11	4	1	3	0	1	1	2	1	6	1	4	3	4	2	1	3	4	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:15496890A>G	uc003nbj.2	+	7	1678	c.1434A>G	c.(1432-1434)AGA>AGG	p.R478R	JARID2_uc011diu.1_Silent_p.R342R|JARID2_uc011div.1_Silent_p.R306R|JARID2_uc011diw.1_Silent_p.R440R	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	478					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				CGGCCGAGAGAGGTCTGCTGA	0.677													3	29					0	0	1	0	0		G	15496890	G	G	15496890	2	3	27	1	0	0	0	0	0	0	0	1	7961	301	11	3		3	JARID2	6	15496890	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1694331	15496890	155618177	3005	25356											
JARID2	3720	broad.mit.edu	37	chr6	15501302	15501302	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaggaggcctactgccagTacctactctcctacgactcc	8	9	8	16	1	1	0	0	0	1	0	3	2	2	1	5	2	6	2	5	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:15501302T>C	uc003nbj.2	+	8	2354	c.2110T>C	c.(2110-2112)TAC>CAC	p.Y704H	JARID2_uc011div.1_Missense_Mutation_p.Y532H|JARID2_uc011diw.1_Missense_Mutation_p.Y666H	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	704	ARID.				central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				CTACTGCCAGTACCTACTCTC	0.597													5	85					0	0	1	0	0		C	15501302	C	C	15501302	3	2	27	1	0	0	0	0	1	0	0	0	7961	1638	57	3	2140	3	JARID2	6	15501302	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4412	15501302	155613765	3006	25357											
JARID2	3720	broad.mit.edu	37	chr6	15512570	15512570	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtacagcgtgtctgaaacCgtgcactttgctaccaccca	9	9	10	13	2	1	1	0	1	1	0	1	1	1	1	3	1	6	3	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:15512570C>T	uc003nbj.2	+	14	3328	c.3084C>T	c.(3082-3084)ACC>ACT	p.T1028T	JARID2_uc011div.1_Silent_p.T856T	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	1028	JmjC.				central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				TGTCTGAAACCGTGCACTTTG	0.597													13	117					0	0	1	0	0		T	15512570	T	T	15512570	2	4	27	1	0	0	0	0	0	0	0	1	7961	639	23	1		1	JARID2	6	15512570	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11268	15512570	155602497	3007	25358											
DTNBP1	84062	broad.mit.edu	37	chr6	15523311	15523311	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcatcggactgaacaacGggggactccccaccctcact	9	7	8	17	2	2	1	2	1	0	0	5	3	4	3	4	3	2	0	4	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:15523311G>T	uc003nbm.2	-	10	1122	c.951C>A	c.(949-951)CCC>CCA	p.P317P	DTNBP1_uc003nbl.2_Silent_p.P236P|DTNBP1_uc003nbn.2_RNA|DTNBP1_uc003nbo.2_RNA	NM_032122	NP_115498	Q96EV8	DTBP1_HUMAN	dystrobrevin binding protein 1 isoform a	317	Dysbindin.				actin cytoskeleton reorganization|cellular membrane organization|neuron projection morphogenesis|post-Golgi vesicle-mediated transport|regulation of dopamine receptor signaling pathway	axon part|BLOC-1 complex|cell junction|dendritic spine|endoplasmic reticulum membrane|endosome membrane|growth cone|melanosome membrane|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|synaptic vesicle membrane|synaptosome	identical protein binding				0	Breast(50;0.0289)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.211)			ACTGAACAACGGGGGACTCCC	0.587									Hermansky-Pudlak_syndrome				8	105					0.00307968	0.00318367	1	1	0		T	15523311	T	T	15523311	2	4	27	1	0	0	0	0	0	0	0	1	4796	1103	39	5		5	DTNBP1	6	15523311	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10741	15523311	155591756	3008	25359											
GMPR	2766	broad.mit.edu	37	chr6	16279053	16279053	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaccaagacgggagtggggTacccccagctgagtgccgtc	8	5	15	13	2	0	2	0	1	0	1	1	3	0	3	4	3	3	3	4	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:16279053T>C	uc003nbs.2	+	6	700	c.586T>C	c.(586-588)TAC>CAC	p.Y196H		NM_006877	NP_006868	P36959	GMPR1_HUMAN	guanosine monophosphate reductase	196					nucleotide metabolic process|purine base metabolic process|purine-containing compound salvage|response to cold	cytosol	GMP reductase activity|metal ion binding			ovary(1)	1	Breast(50;0.0427)|Ovarian(93;0.103)	all_hematologic(90;0.0895)				GGGAGTGGGGTACCCCCAGCT	0.567													8	66					0	0	1	0	0		C	16279053	C	C	16279053	3	2	27	1	0	0	0	0	1	0	0	0	6511	1638	57	3	608	3	GMPR	6	16279053	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	755742	16279053	154836014	3009	25360											
ATXN1	6310	broad.mit.edu	37	chr6	16307007	16307007	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacacggcaaatcaaagagCtggctggttctctccggaca	12	7	11	11	2	2	1	1	0	1	1	4	3	3	2	1	4	2	4	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:16307007C>T	uc003nbt.2	-	9	2972	c.2001G>A	c.(1999-2001)CAG>CAA	p.Q667Q	ATXN1_uc010jpi.2_Silent_p.Q667Q|ATXN1_uc010jpj.1_RNA	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	667	Interaction with USP7.|RNA-binding.|AXH.				cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				AATCAAAGAGCTGGCTGGTTC	0.507													8	86					0	0	1	0	0		T	16307007	T	T	16307007	2	4	27	1	0	0	0	0	0	0	0	1	1210	796	28	2		2	ATXN1	6	16307007	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	27954	16307007	154808060	3010	25361											
RBM24	221662	broad.mit.edu	37	chr6	17292149	17292149	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgctgccgccgccgcTgctgcctatgaccagtaccc	4	8	11	18	3	0	1	0	1	0	0	0	1	0	1	6	0	6	6	6	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:17292149T>C	uc003nbz.3	+	4	514	c.510T>C	c.(508-510)GCT>GCC	p.A170A	RBM24_uc003nby.3_3'UTR|RBM24_uc011dix.1_Silent_p.A112A|RBM24_uc003nca.2_Silent_p.A125A|RBM24_uc011diy.1_Missense_Mutation_p.L84P|RBM24_uc011diz.1_Missense_Mutation_p.L69P	NM_001143942	NP_001137414	Q9BX46	RBM24_HUMAN	RNA binding motif protein 24 isoform 1	170	Ala-rich.				cell differentiation|regulation of mRNA stability|regulation of myotube differentiation	cytoplasm|nucleus	mRNA 3'-UTR binding|nucleotide binding			ovary(1)|skin(1)	2	Breast(50;0.0615)|Ovarian(93;0.0733)	all_hematologic(90;0.062)	all cancers(50;0.131)|Epithelial(50;0.15)			ccgccgccgctgctgcCTATG	0.488													10	26					0	0	1	0	0		C	17292149	C	C	17292149	2	2	27	1	0	0	0	0	0	0	0	1	13149	1567	55	3		3	RBM24	6	17292149	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	985142	17292149	153822918	3011	25362											
NUP153	9972	broad.mit.edu	37	chr6	17626268	17626268	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactgtccaaacacaaaggtAgccacaggtggattggagga	14	6	13	8	0	0	0	0	0	0	0	1	4	1	3	2	5	2	1	2	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:17626268A>G	uc003ncd.1	-	19	3872	c.3672T>C	c.(3670-3672)GCT>GCC	p.A1224A	NUP153_uc011dje.1_Silent_p.A1255A|NUP153_uc010jpl.1_Silent_p.A1182A	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	1224					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			ACACAAAGGTAGCCACAGGTG	0.473													9	50					0	0	1	0	0		G	17626268	G	G	17626268	2	3	27	1	0	0	0	0	0	0	0	1	10774	407	15	3		3	NUP153	6	17626268	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	334119	17626268	153488799	3012	25363											
NUP153	9972	broad.mit.edu	37	chr6	17632925	17632925	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgcactttcacatgccAaacatttggtagagtctgcc	9	13	8	11	0	2	1	1	0	1	1	2	1	2	1	2	1	4	3	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:17632925A>G	uc003ncd.1	-	17	2815	c.2615T>C	c.(2614-2616)TTG>TCG	p.L872S	NUP153_uc011dje.1_Missense_Mutation_p.L903S|NUP153_uc010jpl.1_Missense_Mutation_p.L830S	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	872	RanBP2-type 4.				carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			TTCACATGCCAAACATTTGGT	0.433													10	107					0	0	1	0	0		G	17632925	G	G	17632925	3	3	27	1	0	0	0	0	1	0	0	0	10774	131	5	3	1836	3	NUP153	6	17632925	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6657	17632925	153482142	3013	25364											
NUP153	9972	broad.mit.edu	37	chr6	17637492	17637492	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttttgaatttatctccaaAtcctaaggtaccagtggtta	11	15	6	9	0	1	1	0	1	1	0	3	1	2	1	4	2	1	2	4	2	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:17637492A>C	uc003ncd.1	-	16	2556	c.2356T>G	c.(2356-2358)TTT>GTT	p.F786V	NUP153_uc011dje.1_Missense_Mutation_p.F817V|NUP153_uc010jpl.1_Missense_Mutation_p.F744V	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	786					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			TTATCTCCAAATCCTAAGGTA	0.433													10	87					0	0	1	0	0		C	17637492	C	C	17637492	3	2	27	1	0	0	0	0	1	0	0	0	10774	101	4	5	2099	5	NUP153	6	17637492	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4567	17637492	153477575	3014	25365											
NUP153	9972	broad.mit.edu	37	chr6	17637537	17637537	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctggaagatgaagcagTcatagtctcagcactttccg	11	9	11	10	1	2	2	2	1	1	1	4	3	3	3	1	1	3	4	1	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:17637537T>A	uc003ncd.1	-	16	2511	c.2311A>T	c.(2311-2313)ACT>TCT	p.T771S	NUP153_uc011dje.1_Missense_Mutation_p.T802S|NUP153_uc010jpl.1_Missense_Mutation_p.T729S	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	771					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			GATGAAGCAGTCATAGTCTCA	0.448													9	95					0	0	1	0	0		A	17637537	A	A	17637537	3	1	27	1	0	0	0	0	1	0	0	0	10774	1667	58	5	2144	5	NUP153	6	17637537	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	45	17637537	153477530	3015	25366											
KIF13A	63971	broad.mit.edu	37	chr6	17764724	17764724	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctctgggatgatgggcTccctttggctaaggcactgt	6	12	14	9	0	1	1	0	1	1	0	2	3	2	2	1	4	1	4	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:17764724T>C	uc003ncg.3	-	39	5140	c.5035A>G	c.(5035-5037)AGC>GGC	p.S1679G	KIF13A_uc003ncf.2_Missense_Mutation_p.S1631G|KIF13A_uc003nch.3_Missense_Mutation_p.S1644G|KIF13A_uc003nci.3_Missense_Mutation_p.S1631G|KIF13A_uc003nce.1_Missense_Mutation_p.S230G	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	1679					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			GATGATGGGCTCCCTTTGGCT	0.488													7	77					0	0	1	0	0		C	17764724	C	C	17764724	3	2	27	1	0	0	0	0	1	0	0	0	8290	1551	54	3	411	3	KIF13A	6	17764724	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	127187	17764724	153350343	3016	25367											
NHLRC1	378884	broad.mit.edu	37	chr6	18122144	18122144	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaccctgcctccgcatcagTtaccacaatcccattctgag	9	9	7	16	1	2	1	1	1	1	0	4	2	4	2	5	1	2	2	5	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:18122144T>C	uc003ncl.1	-	1	708	c.694A>G	c.(694-696)ACT>GCT	p.T232A		NM_198586	NP_940988	Q6VVB1	NHLC1_HUMAN	NHL repeat containing 1	232	NHL 3.				proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	endoplasmic reticulum|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0	Ovarian(93;0.016)|Breast(50;0.0245)	all_hematologic(90;0.165)	all cancers(50;0.0451)|Epithelial(50;0.0493)			TCCGCATCAGTTACCACAATC	0.537													5	46					0	0	1	0	0		C	18122144	C	C	18122144	3	2	27	1	0	0	0	0	1	0	0	0	10424	1725	60	3	497	3	NHLRC1	6	18122144	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	357420	18122144	152992923	3017	25368											
KDM1B	221656	broad.mit.edu	37	chr6	18217973	18217973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attggacataggaggtcccaGatcccacaaagtattttgtc	12	11	9	9	0	0	1	0	0	0	1	3	3	2	3	2	3	0	1	2	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:18217973G>A	uc003nco.1	+	14	1708	c.1633G>A	c.(1633-1635)GAT>AAT	p.D545N	KDM1B_uc003ncn.1_Missense_Mutation_p.D516N|KDM1B_uc003ncp.1_Missense_Mutation_p.D101N|KDM1B_uc003ncq.1_Missense_Mutation_p.D101N	NM_153042	NP_694587	Q8NB78	KDM1B_HUMAN	amine oxidase (flavin containing) domain 1	748					multicellular organismal development|regulation of DNA methylation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-monomethyl-K4 specific)|oxidoreductase activity|zinc ion binding			skin(1)	1						GGAGGTCCCAGATCCCACAAA	0.368													6	72					0	0	1	0	0		A	18217973	A	A	18217973	3	1	27	1	0	0	0	0	1	0	0	0	8139	942	33	4	1604	4	KDM1B	6	18217973	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	95829	18217973	152897094	3018	25369											
RNF144B	255488	broad.mit.edu	37	chr6	18465249	18465249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtataatctgttgtgtctGcaagtcctgtcggggcaaga	9	13	12	7	1	2	1	0	0	2	1	4	1	3	1	1	2	1	4	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:18465249G>A	uc003ncs.2	+	8	1167	c.863G>A	c.(862-864)TGC>TAC	p.C288Y		NM_182757	NP_877434	Q7Z419	R144B_HUMAN	IBR domain containing 2	288					apoptosis|positive regulation of anti-apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|mitochondrial membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0	Ovarian(93;0.00365)|Breast(50;0.0145)	all_hematologic(90;0.0536)	OV - Ovarian serous cystadenocarcinoma(7;0.00165)|all cancers(50;0.0102)|Epithelial(50;0.0105)			TGTTGTGTCTGCAAGTCCTGT	0.488													6	34					0	0	1	0	0		A	18465249	A	A	18465249	3	1	27	1	0	0	0	0	1	0	0	0	13471	1319	46	2	889	2	RNF144B	6	18465249	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	247276	18465249	152649818	3019	25370											
E2F3	1871	broad.mit.edu	37	chr6	20483131	20483131	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacctcaaactgttaacCgaggattcagagaatcaaag	15	8	9	9	1	3	1	3	0	0	1	3	5	3	3	2	2	2	1	2	2	4	2	rs139915140		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:20483131C>T	uc003nda.2	+	4	1191	c.864C>T	c.(862-864)ACC>ACT	p.T288T	E2F3_uc003ncz.2_Silent_p.T282T	NM_001949	NP_001940	O00716	E2F3_HUMAN	E2F transcription factor 3	288	Dimerization (Potential).				G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(95;0.154)|all_epithelial(95;0.0585)|Breast(50;0.146)|Ovarian(93;0.148)		OV - Ovarian serous cystadenocarcinoma(7;0.0068)|all cancers(50;0.0148)|Epithelial(50;0.0562)			AACTGTTAACCGAGGATTCAG	0.453													5	72					0	0	1	0	0		T	20483131	T	T	20483131	2	4	27	1	0	0	0	0	0	0	0	1	4874	639	23	1		1	E2F3	6	20483131	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2017882	20483131	150631936	3020	25371											
E2F3	1871	broad.mit.edu	37	chr6	20490487	20490487	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccccagccaacctcttacaGcagactgaggaccaaattcc	12	7	6	16	0	1	2	0	1	1	1	3	3	3	3	6	1	4	1	6	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:20490487G>A	uc003nda.2	+	7	1551	c.1224G>A	c.(1222-1224)CAG>CAA	p.Q408Q		NM_001949	NP_001940	O00716	E2F3_HUMAN	E2F transcription factor 3	408	Transactivation (Potential).				G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(95;0.154)|all_epithelial(95;0.0585)|Breast(50;0.146)|Ovarian(93;0.148)		OV - Ovarian serous cystadenocarcinoma(7;0.0068)|all cancers(50;0.0148)|Epithelial(50;0.0562)			ACCTCTTACAGCAGACTGAGG	0.512													5	66					0	0	1	0	0		A	20490487	A	A	20490487	2	1	27	1	0	0	0	0	0	0	0	1	4874	962	34	2		2	E2F3	6	20490487	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7356	20490487	150624580	3021	25372											
DCDC2	51473	broad.mit.edu	37	chr6	24178686	24178686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatttacacgagcagggcGtgcctgctgctcactgtgat	7	11	11	12	2	1	1	1	1	0	0	2	2	2	1	2	1	5	3	2	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:24178686G>A	uc003ndx.2	-	9	1500	c.1198C>T	c.(1198-1200)CGC>TGC	p.R400C	DCDC2_uc003ndy.2_Missense_Mutation_p.R400C|DCDC2_uc003ndw.2_Missense_Mutation_p.R151C	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	400					cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				CGAGCAGGGCGTGCCTGCTGC	0.517													7	95					0	0	1	0	0		A	24178686	A	A	24178686	3	1	27	1	0	0	0	0	1	0	0	0	4288	1145	40	1	240	1	DCDC2	6	24178686	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3688199	24178686	146936381	3022	25373											
DCDC2	51473	broad.mit.edu	37	chr6	24178771	24178771	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccttcctcttcaaggtcAccattcattcctgaaaagtc	9	13	4	15	0	4	1	3	1	1	0	8	1	7	1	5	1	0	0	5	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:24178771A>G	uc003ndx.2	-	9	1415	c.1113T>C	c.(1111-1113)GGT>GGC	p.G371G	DCDC2_uc003ndy.2_Silent_p.G371G|DCDC2_uc003ndw.2_Silent_p.G122G	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	371					cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				CTTCAAGGTCACCATTCATTC	0.502													8	94					0	0	1	0	0		G	24178771	G	G	24178771	2	3	27	1	0	0	0	0	0	0	0	1	4288	146	6	3		3	DCDC2	6	24178771	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	85	24178771	146936296	3023	25374											
GPLD1	2822	broad.mit.edu	37	chr6	24436855	24436855	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcatttgccagtcatgtcAccaagggtggtctctttgcc	6	14	10	11	0	3	0	2	0	1	0	4	0	3	0	3	2	3	1	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:24436855A>G	uc003ned.1	-	22	2418	c.2307T>C	c.(2305-2307)GGT>GGC	p.G769G		NM_001503	NP_001494	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific	769	FG-GAP 6.					extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3						CAGTCATGTCACCAAGGGTGG	0.433													6	123					0	0	1	0	0		G	24436855	G	G	24436855	2	3	27	1	0	0	0	0	0	0	0	1	6629	146	6	3		3	GPLD1	6	24436855	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	258084	24436855	146678212	3024	25375											
GPLD1	2822	broad.mit.edu	37	chr6	24463015	24463015	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagagggttctcaggcaggTtgcagtcactgaggaaacag	12	7	14	8	0	2	2	2	1	1	1	3	3	2	3	0	4	2	4	0	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:24463015T>C	uc003ned.1	-	11	941	c.830A>G	c.(829-831)AAC>AGC	p.N277S	GPLD1_uc010jpr.1_Missense_Mutation_p.N114S|GPLD1_uc010jps.1_Missense_Mutation_p.N277S	NM_001503	NP_001494	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific	277						extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3						CTCAGGCAGGTTGCAGTCACT	0.448													7	111					0	0	1	0	0		C	24463015	C	C	24463015	3	2	27	1	0	0	0	0	1	0	0	0	6629	1725	60	3	1752	3	GPLD1	6	24463015	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	26160	24463015	146652052	3025	25376											
FAM65B	9750	broad.mit.edu	37	chr6	24850864	24850864	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actatcaggggcagaaaaacTgtttcttctccatcccagct	11	11	7	12	0	3	1	1	0	2	1	5	1	4	1	2	2	2	3	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:24850864T>C	uc003neo.1	-	10	935	c.759A>G	c.(757-759)ACA>ACG	p.T253T	FAM65B_uc011djs.1_Silent_p.T282T|FAM65B_uc011dju.1_Silent_p.T287T|FAM65B_uc003nep.2_Silent_p.T253T|FAM65B_uc011djt.1_Silent_p.T253T	NM_014722	NP_055537	Q9Y4F9	FA65B_HUMAN	hypothetical protein LOC9750 isoform 1	253					cell differentiation|muscle organ development	cytoskeleton|filopodium|mitochondrion	binding			ovary(1)	1						GCAGAAAAACTGTTTCTTCTC	0.478													10	59					0	0	1	0	0		C	24850864	C	C	24850864	2	2	27	1	0	0	0	0	0	0	0	1	5614	1567	55	3		3	FAM65B	6	24850864	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	387849	24850864	146264203	3026	25377											
LRRC16A	55604	broad.mit.edu	37	chr6	25600765	25600765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaggacacaaaggccgccGagcacaatggcaattctgaa	15	4	12	10	2	1	1	0	1	1	0	1	4	1	3	2	4	1	2	2	4	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:25600765G>A	uc011djw.1	+	33	3719	c.3343G>A	c.(3343-3345)GAG>AAG	p.E1115K	LRRC16A_uc010jpx.2_Missense_Mutation_p.E1115K|LRRC16A_uc010jpy.2_Missense_Mutation_p.E1115K	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	1115					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						AAAGGCCGCCGAGCACAATGG	0.517													8	55					0	0	1	0	0		A	25600765	A	A	25600765	3	1	27	1	0	0	0	0	1	0	0	0	8989	1059	37	1	3473	1	LRRC16A	6	25600765	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	749901	25600765	145514302	3027	25378											
HIST1H2AA	221613	broad.mit.edu	37	chr6	25726369	25726369	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaccttaagttacttgctTtgggctttatggtggtgact	8	16	10	7	0	0	1	0	1	0	0	0	1	0	1	1	3	3	3	1	3	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:25726369T>C	uc003nfc.2	-	1	422	c.387A>G	c.(385-387)CAA>CAG	p.Q129Q	HIST1H2BA_uc003nfd.2_5'Flank	NM_170745	NP_734466	Q96QV6	H2A1A_HUMAN	histone cluster 1, H2aa	129					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GTTACTTGCTTTGGGCTTTAT	0.488													22	231					0	0	1	0	0		C	25726369	C	C	25726369	2	2	27	1	0	0	0	0	0	0	0	1	7144	1838	64	3		3	HIST1H2AA	6	25726369	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	125604	25726369	145388698	3028	25379											
SLC17A1	6568	broad.mit.edu	37	chr6	25819947	25819947	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcgacatacaacgaccCaagctactccaattccagct	12	8	5	16	2	0	0	0	0	0	0	3	2	2	0	3	0	6	3	3	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:25819947C>T	uc003nfh.3	-	4	520	c.404G>A	c.(403-405)TGG>TAG	p.W135*	SLC17A1_uc011djy.1_RNA|SLC17A1_uc010jqb.1_Nonsense_Mutation_p.W133*|SLC17A1_uc010jqc.1_Nonsense_Mutation_p.W133*	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),	135	Helical; (Potential).				sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						TACAACGACCCAAGCTACTCC	0.408													7	60					0	0	1	0	0		T	25819947	T	T	25819947	4	4	27	1	0	0	0	0	0	1	0	0	14441	595	21	4	1035	4	SLC17A1	6	25819947	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	93578	25819947	145295120	3029	25380											
SLC17A2	10246	broad.mit.edu	37	chr6	25921479	25921479	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagccagtggtgtaaaGagggtgagaagggaagagat	14	6	17	4	0	1	3	1	1	0	3	1	6	1	4	1	3	2	2	1	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:25921479G>T	uc011dkb.1	-	3	485	c.402C>A	c.(400-402)CTC>CTA	p.L134L	SLC17A2_uc011dkc.1_Silent_p.L134L|SLC17A2_uc003nfl.2_Silent_p.L134L			O00624	NPT3_HUMAN	SubName: Full=Solute carrier family 17 (Sodium phosphate), member 2, isoform CRA_b; SubName: Full=Putative uncharacterized protein SLC17A2;	134	Helical; (Potential).				phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			ovary(1)	1						GTGGTGTAAAGAGGGTGAGAA	0.468													4	89					0.014758	0.0150623	1	1	0		T	25921479	T	T	25921479	2	4	27	1	0	0	0	0	0	0	0	1	14442	929	33	5		5	SLC17A2	6	25921479	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	101532	25921479	145193588	3030	25381											
TRIM38	10475	broad.mit.edu	37	chr6	25983804	25983804	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtatccttttataacgggaaTactggctgccacatctttac	10	14	7	10	1	1	0	0	0	1	0	2	1	2	1	2	2	4	2	2	2	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:25983804T>A	uc003nfm.2	+	8	1722	c.1287T>A	c.(1285-1287)AAT>AAA	p.N429K	TRIM38_uc003nfn.2_Missense_Mutation_p.N411K|TRIM38_uc010jqd.2_Missense_Mutation_p.N65K	NM_006355	NP_006346	O00635	TRI38_HUMAN	tripartite motif-containing 38	429	B30.2/SPRY.				positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular	signal transducer activity|zinc ion binding				0						ATAACGGGAATACTGGCTGCC	0.478													6	106					0	0	1	0	0		A	25983804	A	A	25983804	3	1	27	1	0	0	0	0	1	0	0	0	16538	1403	49	5	1309	5	TRIM38	6	25983804	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	62325	25983804	145131263	3031	25382											
HIST1H4A	8359	broad.mit.edu	37	chr6	26022115	26022115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaacgtgatccgtgacgCtgtcacctatacggagcacg	10	7	13	11	5	1	3	1	2	0	1	2	5	2	4	2	2	3	2	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:26022115C>T	uc003nfq.2	+	1	209	c.209C>T	c.(208-210)GCT>GTT	p.A70V		NM_003538	NP_003529	P62805	H4_HUMAN	histone cluster 1, H4a	70					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding				0						ATCCGTGACGCTGTCACCTAT	0.602													4	62					0	0	1	0	0		T	26022115	T	T	26022115	3	4	27	1	0	0	0	0	1	0	0	0	7181	797	28	2	211	2	HIST1H4A	6	26022115	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	38311	26022115	145092952	3032	25383											
HIST1H3C	8352	broad.mit.edu	37	chr6	26045888	26045888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggacttcaaaaccgacctgCgtttccagagctctgcggtg	9	9	11	12	3	2	1	1	0	1	1	3	3	3	2	3	2	4	2	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:26045888C>T	uc003nfv.2	+	1	250	c.250C>T	c.(250-252)CGT>TGT	p.R84C	HIST1H2BB_uc003nfu.2_5'Flank	NM_003531	NP_003522	P68431	H31_HUMAN	histone cluster 1, H3c	84					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1						AACCGACCTGCGTTTCCAGAG	0.587													15	50					0	0	1	0	0		T	26045888	T	T	26045888	3	4	27	1	0	0	0	0	1	0	0	0	7173	768	27	1	252	1	HIST1H3C	6	26045888	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23773	26045888	145069179	3033	25384											
HIST1H1C	3006	broad.mit.edu	37	chr6	26056483	26056483	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttttcagagcagccagAgaaactccgctacgctcttt	9	12	8	12	2	2	2	1	0	1	2	3	3	3	2	2	0	4	4	2	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:26056483A>T	uc003nfw.2	-	1	217	c.174T>A	c.(172-174)TCT>TCA	p.S58S		NM_005319	NP_005310	P16403	H12_HUMAN	histone cluster 1, H1c	58	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)|skin(2)	5						GAGCAGCCAGAGAAACTCCGC	0.567													8	116					0	0	1	0	0		T	26056483	T	T	26056483	2	4	27	1	0	0	0	0	0	0	0	1	7140	291	11	5		5	HIST1H1C	6	26056483	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10595	26056483	145058584	3034	25385											
HIST1H2BC	8347	broad.mit.edu	37	chr6	26123956	26123956	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagaattcatgatgcccatGgccttggaagagatgccagt	13	9	11	8	0	1	3	1	1	0	2	1	5	1	4	3	2	2	0	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:26123956G>T	uc003ngk.3	-	1	199	c.177C>A	c.(175-177)GCC>GCA	p.A59A	HIST1H2BC_uc003ngl.2_Silent_p.A59A|HIST1H2AC_uc003ngm.2_5'Flank|HIST1H2AC_uc003ngn.2_5'Flank|HIST1H2AC_uc003ngo.2_5'Flank|HIST1H2AC_uc003ngp.2_5'Flank	NM_003526	NP_003517	P62807	H2B1C_HUMAN	histone cluster 1, H2bc	59					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			ovary(1)	1						TGATGCCCATGGCCTTGGAAG	0.547													19	182					5.03518e-11	5.57959e-11	1	1	0		T	26123956	T	T	26123956	2	4	27	1	0	0	0	0	0	0	0	1	7158	1335	47	5		5	HIST1H2BC	6	26123956	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	67473	26123956	144991111	3035	25386											
HIST1H4D	8360	broad.mit.edu	37	chr6	26189068	26189068	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatggctgtgactgtcttGcgtttggcgtgttccgtgta	3	16	13	9	3	1	1	0	1	1	0	3	1	3	1	2	2	1	4	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:26189068G>A	uc003ngu.2	-	1	237	c.237C>T	c.(235-237)CGC>CGT	p.R79R		NM_003539	NP_003530	P62805	H4_HUMAN	histone cluster 1, H4d	79					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.196)				TGACTGTCTTGCGTTTGGCGT	0.532													18	75					0	0	1	0	0		A	26189068	A	A	26189068	2	1	27	1	0	0	0	0	0	0	0	1	7184	1306	46	2		2	HIST1H4D	6	26189068	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	65112	26189068	144925999	3036	25387											
HIST1H2BF	8343	broad.mit.edu	37	chr6	26200153	26200153	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggccgtcaccaagtacAccagctctaagtaattctaa	14	8	6	13	1	3	0	1	0	2	0	3	0	3	0	4	1	2	3	4	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:26200153A>T	uc003ngx.2	+	1	367	c.367A>T	c.(367-369)ACC>TCC	p.T123S	HIST1H3D_uc003ngv.2_5'Flank|HIST1H2AD_uc003ngw.2_5'Flank	NM_003522	NP_003513	P62807	H2B1C_HUMAN	histone cluster 1, H2bf	123					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0		all_hematologic(11;0.196)				CACCAAGTACACCAGCTCTAA	0.522													6	52					0	0	1	0	0		T	26200153	T	T	26200153	3	4	27	1	0	0	0	0	1	0	0	0	7161	159	6	5	369	5	HIST1H2BF	6	26200153	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11085	26200153	144914914	3037	25388											
HIST1H2AE	3012	broad.mit.edu	37	chr6	26217403	26217403	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgagatcttagagctagcTggcaacgcggctcgcgacaa	10	6	13	12	5	1	2	0	0	1	2	2	4	1	2	1	2	3	4	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:26217403T>A	uc003nha.1	+	1	256	c.201T>A	c.(199-201)GCT>GCA	p.A67A	HIST1H2BG_uc003ngz.2_5'Flank	NM_021052	NP_066390	P04908	H2A1B_HUMAN	histone cluster 1, H2ae	67					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2		all_hematologic(11;0.196)				TAGAGCTAGCTGGCAACGCGG	0.602													4	71					0	0	1	0	0		A	26217403	A	A	26217403	2	1	27	1	0	0	0	0	0	0	0	1	7148	1567	55	5		5	HIST1H2AE	6	26217403	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	17250	26217403	144897664	3038	25389											
HIST1H1D	3007	broad.mit.edu	37	chr6	26235016	26235016	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgctccttagaagctgccActgccttggtgataagctca	8	11	10	12	1	1	2	1	1	0	1	2	2	2	2	3	1	5	3	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:26235016A>G	uc003nhd.2	-	1	201	c.146T>C	c.(145-147)GTG>GCG	p.V49A		NM_005320	NP_005311	P16402	H13_HUMAN	histone cluster 1, H1d	49	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding			skin(1)	1		all_hematologic(11;0.0945)|Acute lymphoblastic leukemia(11;0.167)				AGAAGCTGCCACTGCCTTGGT	0.532													7	118					0	0	1	0	0		G	26235016	G	G	26235016	3	3	27	1	0	0	0	0	1	0	0	0	7141	159	6	3	523	3	HIST1H1D	6	26235016	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17613	26235016	144880051	3039	25390											
BTN2A2	10385	broad.mit.edu	37	chr6	26384079	26384079	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgctgctctgcacttctcCctgccagcctccctcctcct	2	12	6	21	0	2	0	0	0	2	0	6	0	5	0	6	0	5	4	6	0	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:26384079C>A	uc003nhq.2	+	2	116	c.30C>A	c.(28-30)TCC>TCA	p.S10S	BTN2A2_uc011dkf.1_Silent_p.S10S|BTN2A2_uc011dkg.1_Silent_p.S10S|BTN2A2_uc003nhr.2_Silent_p.S10S|BTN2A2_uc011dkh.1_Silent_p.S10S|BTN2A2_uc003nhs.2_Silent_p.S10S|BTN2A2_uc003nht.2_Silent_p.S10S	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	10					negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						TGCACTTCTCCCTGCCAGCCT	0.498													4	85					1	1	1	1	0		A	26384079	A	A	26384079	2	1	27	1	0	0	0	0	0	0	0	1	1564	610	22	5		5	BTN2A2	6	26384079	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	149063	26384079	144730988	3040	25391											
BTN2A2	10385	broad.mit.edu	37	chr6	26393114	26393114	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccatcttcatctgcccTgcactcacaggagccagtgg	8	8	9	16	0	4	0	2	0	2	0	4	1	4	1	4	2	4	1	4	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:26393114T>C	uc003nhq.2	+	8	1577	c.1491T>C	c.(1489-1491)CCT>CCC	p.P497P	BTN2A2_uc011dkg.1_3'UTR|BTN2A2_uc003nhr.2_Silent_p.P381P|BTN2A2_uc011dkh.1_Silent_p.P287P|BTN2A2_uc003nhs.2_Intron|BTN2A2_uc003nht.2_Silent_p.P497P|BTN2A2_uc011dki.1_3'UTR	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	497	B30.2/SPRY.|Cytoplasmic (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						TCATCTGCCCTGCACTCACAG	0.542													26	62					0	0	1	0	0		C	26393114	C	C	26393114	2	2	27	1	0	0	0	0	0	0	0	1	1564	1567	55	3		3	BTN2A2	6	26393114	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9035	26393114	144721953	3041	25392											
BTN3A1	11119	broad.mit.edu	37	chr6	26405878	26405878	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctcatgcctcactcaggTagggaacaattccacgcttg	9	10	9	13	1	3	0	3	0	0	0	4	1	4	1	2	2	3	3	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:26405878T>C	uc003nhv.2	+	2	453	c.85_splice	c.e2+2	p.A29_splice	BTN3A1_uc011dkj.1_Splice_Site_p.A29_splice|BTN3A1_uc011dkk.1_Splice_Site_p.A29_splice|BTN3A1_uc010jqj.2_Splice_Site_p.A29_splice	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a						lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						CTCACTCAGGTAGGGAACAAT	0.463													5	59					0	0	1	0	0		C	26405878	C	C	26405878	5	2	27	1	0	0	0	0	0	0	1	0	1565	1652	57	3	89	3	BTN3A1	6	26405878	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12764	26405878	144709189	3042	25393											
HIST1H2BM	8342	broad.mit.edu	37	chr6	27782898	27782898	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacaaggctcagaagaaggAtggaaagaagcgcaaacgca	19	3	12	7	2	1	3	1	0	0	3	1	5	1	5	0	3	3	3	0	3	7	1	rs147325799		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:27782898A>T	uc003njo.2	+	1	77	c.77A>T	c.(76-78)GAT>GTT	p.D26V	HIST1H2AJ_uc003njn.1_5'Flank	NM_003521	NP_003512	Q99879	H2B1M_HUMAN	histone cluster 1, H2bm	26					nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(1)	1						CAGAAGAAGGATGGAAAGAAG	0.493													8	143					0	0	1	0	0		T	27782898	T	T	27782898	3	4	27	1	0	0	0	0	1	0	0	0	7168	333	12	5	79	5	HIST1H2BM	6	27782898	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1377020	27782898	143332169	3043	25394											
HIST1H1B	3009	broad.mit.edu	37	chr6	27834982	27834982	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccgccttcttgttgagtTtaaaggagccagaagcacca	11	9	11	10	1	1	2	0	1	1	1	1	3	1	3	4	2	2	3	4	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:27834982T>C	uc003njx.2	-	1	378	c.326A>G	c.(325-327)AAA>AGA	p.K109R		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	109	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						CTTGTTGAGTTTAAAGGAGCC	0.597													20	153					0	0	1	0	0		C	27834982	C	C	27834982	3	2	27	1	0	0	0	0	1	0	0	0	7139	1841	64	3	358	3	HIST1H1B	6	27834982	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	52084	27834982	143280085	3044	25395											
HIST1H1B	3009	broad.mit.edu	37	chr6	27835025	27835025	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccttggtctgcaccagggTgcccttgctcaccaagctct	5	10	10	16	0	3	0	1	0	2	0	3	0	3	0	4	2	4	3	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:27835025T>C	uc003njx.2	-	1	335	c.283A>G	c.(283-285)ACC>GCC	p.T95A		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	95	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						TGCACCAGGGTGCCCTTGCTC	0.587													18	167					0	0	1	0	0		C	27835025	C	C	27835025	3	2	27	1	0	0	0	0	1	0	0	0	7139	1696	59	3	401	3	HIST1H1B	6	27835025	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	43	27835025	143280042	3045	25396											
OR2B2	81697	broad.mit.edu	37	chr6	27879120	27879120	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtaaggtaagtaagcacTgtgtctttagcaaagcttat	13	14	9	5	0	1	0	0	0	1	0	1	0	1	0	0	1	3	6	0	1	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:27879120T>G	uc011dkw.1	-	1	978	c.978A>C	c.(976-978)ACA>ACC	p.T326T		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	326	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AAGTAAGCACTGTGTCTTTAG	0.333													5	69					0	0	1	0	0		G	27879120	G	G	27879120	2	3	27	1	0	0	0	0	0	0	0	1	11008	1567	55	5		5	OR2B2	6	27879120	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	44095	27879120	143235947	3046	25397											
ZNF165	7718	broad.mit.edu	37	chr6	28056987	28056987	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcacactggggaaagaccCtttggttgcaaagaatgtgg	12	10	12	7	0	1	2	1	0	0	2	1	3	1	3	1	4	1	2	1	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:28056987C>A	uc003nkg.2	+	5	2281	c.1197C>A	c.(1195-1197)CCC>CCA	p.P399P	ZNF165_uc003nkh.2_Silent_p.P399P|ZNF165_uc003nki.3_Silent_p.P399P|ZSCAN12P1_uc003nkj.3_5'Flank	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	399					viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GGGAAAGACCCTTTGGTTGCA	0.443													8	75					0.0477658	0.0483837	1	1	0		A	28056987	A	A	28056987	2	1	27	1	0	0	0	0	0	0	0	1	17765	668	24	5		5	ZNF165	6	28056987	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	177867	28056987	143058080	3047	25398											
ZKSCAN4	387032	broad.mit.edu	37	chr6	28212924	28212924	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agagtttttttccctacatgGcttctctgatgttgaacaag	9	16	8	8	0	1	3	0	2	1	1	3	3	2	3	1	1	2	3	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:28212924G>A	uc003nks.1	-	5	1852	c.1608C>T	c.(1606-1608)AGC>AGT	p.S536S	ZKSCAN4_uc011dlb.1_Silent_p.S381S	NM_019110	NP_061983	Q969J2	ZKSC4_HUMAN	zinc finger with KRAB and SCAN domains 4	536	C2H2-type 7.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						TCCCTACATGGCTTCTCTGAT	0.438													4	106					0	0	1	0	0		A	28212924	A	A	28212924	2	1	27	1	0	0	0	0	0	0	0	1	17714	1194	42	2		2	ZKSCAN4	6	28212924	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	155937	28212924	142902143	3048	25399											
PGBD1	84547	broad.mit.edu	37	chr6	28268774	28268774	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcaaaagaagttaaaGgtatcatgtttcccagaaaa	16	10	7	8	0	2	2	2	0	0	2	3	2	3	2	2	1	1	4	2	1	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:28268774G>T	uc003nky.2	+	7	1513	c.1143G>T	c.(1141-1143)AAG>AAT	p.K381N	PGBD1_uc003nkz.2_Missense_Mutation_p.K381N	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	381					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						AGAAGTTAAAGGTATCATGTT	0.443													7	90					2.7689e-08	3.04041e-08	1	1	0		T	28268774	T	T	28268774	3	4	27	1	0	0	0	0	1	0	0	0	11799	991	35	5	1165	5	PGBD1	6	28268774	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55850	28268774	142846293	3049	25400											
ZNF323	64288	broad.mit.edu	37	chr6	28294205	28294205	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcattcatatggttttTcccctgtgtggattcttctg	4	20	8	9	0	3	0	1	0	2	0	4	1	4	1	2	2	1	2	2	2	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:28294205T>C	uc003nla.2	-	4	1359	c.959A>G	c.(958-960)GAA>GGA	p.E320G	ZNF323_uc003nld.2_Missense_Mutation_p.E320G|ZNF323_uc010jra.2_Missense_Mutation_p.E320G|ZNF323_uc003nlb.2_Missense_Mutation_p.E161G|ZNF323_uc010jrb.2_Missense_Mutation_p.E161G|ZNF323_uc003nlc.2_Missense_Mutation_p.E320G	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	320					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						ATATGGTTTTTCCCCTGTGTG	0.502													14	193					0	0	1	0	0		C	28294205	C	C	28294205	3	2	27	1	0	0	0	0	1	0	0	0	17868	1783	62	3	265	3	ZNF323	6	28294205	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25431	28294205	142820862	3050	25401											
ZKSCAN3	80317	broad.mit.edu	37	chr6	28327716	28327716	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagcggggaggaggtggTggtgctattggagtatttgg	8	10	21	2	1	0	1	0	0	0	1	0	5	0	4	0	8	2	2	0	8	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:28327716T>C	uc003nle.3	+	2	569	c.353T>C	c.(352-354)GTG>GCG	p.V118A	ZKSCAN3_uc010jrc.2_Missense_Mutation_p.V118A|ZKSCAN3_uc003nlf.3_Intron	NM_024493	NP_077819	Q9BRR0	ZKSC3_HUMAN	zinc finger with KRAB and SCAN domains 3	118	SCAN box.				positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	chromatin binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						GAGGAGGTGGTGGTGCTATTG	0.592													4	39					0	0	1	0	0		C	28327716	C	C	28327716	3	2	27	1	0	0	0	0	1	0	0	0	17713	1696	59	3	355	3	ZKSCAN3	6	28327716	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	33511	28327716	142787351	3051	25402											
SCAND3	114821	broad.mit.edu	37	chr6	28554087	28554087	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctcacctgctgtctaggTtcatcaagctccctctccaa	7	14	5	15	0	5	0	3	0	3	0	8	0	6	0	3	1	2	3	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:28554087T>A	uc003nlo.2	-	1	1026	c.408A>T	c.(406-408)GAA>GAT	p.E136D	uc003nlp.1_5'Flank	NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	136					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCTGTCTAGGTTCATCAAGCT	0.512													24	230					0	0	1	0	0		A	28554087	A	A	28554087	3	1	27	1	0	0	0	0	1	0	0	0	13901	1722	60	5	3585	5	SCAND3	6	28554087	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	226371	28554087	142560980	3052	25403											
OR2J3	442186	broad.mit.edu	37	chr6	29079854	29079854	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccatctgcacacaccaatgTacttcttcctttcaaacctc	10	12	2	17	0	3	0	1	0	2	0	5	0	4	0	4	0	3	2	4	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:29079854T>C	uc011dll.1	+	1	187	c.187T>C	c.(187-189)TAC>CAC	p.Y63H		NM_001005216	NP_001005216	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J,	63	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CACACCAATGTACTTCTTCCT	0.463													17	207					0	0	1	0	0		C	29079854	C	C	29079854	3	2	27	1	0	0	0	0	1	0	0	0	11023	1638	57	3	189	3	OR2J3	6	29079854	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	525767	29079854	142035213	3053	25404											
OR11A1	26531	broad.mit.edu	37	chr6	29394945	29394945	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccagggccacaaccagTccatctaccacaaatccaga	14	4	6	17	0	1	1	0	0	1	1	3	1	3	1	7	1	2	0	7	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:29394945T>C	uc003nmg.2	-	1	565	c.474A>G	c.(472-474)GGA>GGG	p.G158G		NM_013937	NP_039225	Q9GZK7	O11A1_HUMAN	olfactory receptor, family 11, subfamily A,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCACAACCAGTCCATCTACCA	0.567													3	34					0	0	1	0	0		C	29394945	C	C	29394945	2	2	27	1	0	0	0	0	0	0	0	1	10943	1654	58	3		3	OR11A1	6	29394945	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	315091	29394945	141720122	3054	25405											
GABBR1	2550	broad.mit.edu	37	chr6	29576503	29576503	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggttgggctgtgagttctGgatataactagggcagaggt	9	11	16	5	0	1	2	0	1	1	1	1	3	1	3	0	5	1	4	0	5	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:29576503G>T	uc003nmt.3	-	16	2203	c.1867C>A	c.(1867-1869)CAG>AAG	p.Q623K	GABBR1_uc003nmp.3_Missense_Mutation_p.Q506K|GABBR1_uc003nms.3_Missense_Mutation_p.Q506K|GABBR1_uc003nmu.3_Missense_Mutation_p.Q561K|GABBR1_uc011dlr.1_Missense_Mutation_p.Q446K|GABBR1_uc011dls.1_Silent_p.S572S	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	623	Cytoplasmic (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	TGTGAGTTCTGGATATAACTA	0.557													6	79					0.00198382	0.00205548	1	1	0		T	29576503	T	T	29576503	3	4	27	1	0	0	0	0	1	0	0	0	6169	1357	47	5	1050	5	GABBR1	6	29576503	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	181558	29576503	141538564	3055	25406											
ZFP57	346171	broad.mit.edu	37	chr6	29643256	29643256	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagctctggcttatgcagaaAgattctggctgatgtgtggg	8	13	14	6	0	2	3	0	1	2	2	2	3	2	3	0	3	2	4	0	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:29643256A>G	uc011dlw.1	-	3	410	c.259T>C	c.(259-261)TTT>CTT	p.F87L	ZFP57_uc003nnl.3_Missense_Mutation_p.F67L	NM_001109809	NP_001103279	Q9NU63	ZFP57_HUMAN	zinc finger protein 57 homolog	59	KRAB.				DNA methylation involved in embryo development|regulation of gene expression by genetic imprinting|transcription, DNA-dependent		DNA binding|zinc ion binding			ovary(3)|skin(2)	5						TTATGCAGAAAGATTCTGGCT	0.488													16	157					0	0	1	0	0		G	29643256	G	G	29643256	3	3	27	1	0	0	0	0	1	0	0	0	17676	72	3	3	1359	3	ZFP57	6	29643256	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	66753	29643256	141471811	3056	25407											
RNF39	80352	broad.mit.edu	37	chr6	30043021	30043021	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccgggcaggtccaggcaGcccatggtggggatgcgccc	5	6	16	14	2	1	0	0	0	1	0	3	1	2	1	4	6	2	2	4	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:30043021G>A	uc003npe.2	-	1	608	c.546C>T	c.(544-546)GGC>GGT	p.G182G	RNF39_uc003npd.2_Silent_p.G182G	NM_025236	NP_079512	Q9H2S5	RNF39_HUMAN	ring finger protein 39 isoform 1	182						cytoplasm	zinc ion binding				0						GGTCCAGGCAGCCCATGGTGG	0.716													3	3					0	0	1	0	0		A	30043021	A	A	30043021	2	1	27	1	0	0	0	0	0	0	0	1	13516	958	34	2		2	RNF39	6	30043021	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	399765	30043021	141072046	3057	25408											
RNF39	80352	broad.mit.edu	37	chr6	30043550	30043550	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagagtctcagtctcgtcAaatctctccaccacatcagg	11	9	6	15	1	5	1	3	0	3	1	9	1	6	1	3	1	0	0	3	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:30043550A>G	uc003npe.2	-	1	79	c.17T>C	c.(16-18)TTG>TCG	p.L6S	RNF39_uc003npd.2_Missense_Mutation_p.L6S	NM_025236	NP_079512	Q9H2S5	RNF39_HUMAN	ring finger protein 39 isoform 1	6						cytoplasm	zinc ion binding				0						CAGTCTCGTCAAATCTCTCCA	0.557													16	49					0	0	1	0	0		G	30043550	G	G	30043550	3	3	27	1	0	0	0	0	1	0	0	0	13516	131	5	3	1261	3	RNF39	6	30043550	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	529	30043550	141071517	3058	25409											
GNL1	2794	broad.mit.edu	37	chr6	30514577	30514577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacacatcattccgagccGccttggctgtcttgtaacca	8	12	8	13	2	2	0	1	0	1	0	3	1	3	0	4	1	3	3	4	1	2	5	rs141407258	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:30514577G>A	uc003nqh.2	-	11	2506	c.1478C>T	c.(1477-1479)GCG>GTG	p.A493V	GNL1_uc011dmi.1_Missense_Mutation_p.A290V|GNL1_uc011dmj.1_Missense_Mutation_p.A491V|GNL1_uc011dmk.1_Missense_Mutation_p.A148V	NM_005275	NP_005266	P36915	GNL1_HUMAN	guanine nucleotide binding protein-like 1	493					response to DNA damage stimulus|signal transduction|T cell mediated immunity	extracellular space|intracellular	GTP binding|structural molecule activity			ovary(3)	3						ATTCCGAGCCGCCTTGGCTGT	0.532													14	78					0	0	1	0	0		A	30514577	A	A	30514577	3	1	27	1	0	0	0	0	1	0	0	0	6550	1087	38	1	353	1	GNL1	6	30514577	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	471027	30514577	140600490	3059	25410											
GNL1	2794	broad.mit.edu	37	chr6	30523965	30523965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttctgcttcacgctgaatgGcttcttcctcggcatggccc	4	13	9	15	2	3	1	1	1	2	0	5	1	4	1	2	3	1	4	2	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:30523965G>A	uc003nqh.2	-	1	1044	c.16C>T	c.(16-18)CCA>TCA	p.P6S	GNL1_uc011dmi.1_5'Flank|GNL1_uc011dmj.1_5'Flank|GNL1_uc011dmk.1_5'UTR|PRR3_uc003nqi.1_5'Flank|PRR3_uc003nqj.1_5'Flank	NM_005275	NP_005266	P36915	GNL1_HUMAN	guanine nucleotide binding protein-like 1	6					response to DNA damage stimulus|signal transduction|T cell mediated immunity	extracellular space|intracellular	GTP binding|structural molecule activity			ovary(3)	3						ACGCTGAATGGCTTCTTCCTC	0.577													6	51					0	0	1	0	0		A	30523965	A	A	30523965	3	1	27	1	0	0	0	0	1	0	0	0	6550	1203	42	2	1855	2	GNL1	6	30523965	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9388	30523965	140591102	3060	25411											
PPP1R10	5514	broad.mit.edu	37	chr6	30569986	30569986	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccagggccttcatggggacGatggccactgccaccactga	8	6	13	14	1	1	1	1	1	0	0	1	3	1	2	5	4	1	0	5	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:30569986G>A	uc003nqn.1	-	19	2992	c.2440C>T	c.(2440-2442)CGT>TGT	p.R814C	PPP1R10_uc010jsc.1_Missense_Mutation_p.R468C	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	814	Gly-rich.				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						TCATGGGGACGATGGCCACTG	0.672													33	95					0	0	1	0	0		A	30569986	A	A	30569986	3	1	27	1	0	0	0	0	1	0	0	0	12374	1058	37	1	390	1	PPP1R10	6	30569986	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46021	30569986	140545081	3061	25412											
PPP1R10	5514	broad.mit.edu	37	chr6	30571905	30571905	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaaccaggggccgggggCacacccagggcaccttctcc	8	3	14	16	1	1	1	0	0	1	1	2	1	1	1	5	5	1	3	5	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:30571905C>T	uc003nqn.1	-	14	1940	c.1388G>A	c.(1387-1389)TGC>TAC	p.C463Y	PPP1R10_uc010jsc.1_Missense_Mutation_p.C117Y	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	463	Interaction with WDR82 (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						GGGCCGGGGGCACACCCAGGG	0.587													12	210					0	0	1	0	0		T	30571905	T	T	30571905	3	4	27	1	0	0	0	0	1	0	0	0	12374	710	25	2	1462	2	PPP1R10	6	30571905	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1919	30571905	140543162	3062	25413											
PPP1R10	5514	broad.mit.edu	37	chr6	30572227	30572227	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcctgcctttccgggtcagTtggttaggatctccaggact	5	14	11	11	1	2	0	1	0	1	0	5	2	4	2	4	4	1	2	4	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:30572227T>C	uc003nqn.1	-	13	1716	c.1164A>G	c.(1162-1164)CAA>CAG	p.Q388Q	PPP1R10_uc010jsc.1_Silent_p.Q42Q	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	388	Necessary for interaction with PPP1CA (By similarity).|Essential for PPP1CA inhibition (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						TCCGGGTCAGTTGGTTAGGAT	0.493													14	107					0	0	1	0	0		C	30572227	C	C	30572227	2	2	27	1	0	0	0	0	0	0	0	1	12374	1722	60	3		3	PPP1R10	6	30572227	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	322	30572227	140542840	3063	25414											
MRPS18B	28973	broad.mit.edu	37	chr6	30587523	30587523	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctcgccccgtctgggcTgactaccgccgcaaccacaa	7	7	10	17	4	2	1	0	1	2	0	3	1	2	1	5	2	2	3	5	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:30587523T>C	uc003nqo.2	+	3	382	c.225T>C	c.(223-225)GCT>GCC	p.A75A	PPP1R10_uc003nqn.1_5'Flank|PPP1R10_uc010jsc.1_5'Flank|MRPS18B_uc011dml.1_Silent_p.A75A|MRPS18B_uc010jsd.1_Silent_p.A75A	NM_014046	NP_054765	Q9Y676	RT18B_HUMAN	mitochondrial ribosomal protein S18B precursor	75					translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(1)	1						CCGTCTGGGCTGACTACCGCC	0.547													9	80					0	0	1	0	0		C	30587523	C	C	30587523	2	2	27	1	0	0	0	0	0	0	0	1	9847	1567	55	3		3	MRPS18B	6	30587523	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	15296	30587523	140527544	3064	25415											
DHX16	8449	broad.mit.edu	37	chr6	30630513	30630513	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcctcaaagcggatgctgtAgccaacctggtcaagggaac	11	7	12	11	1	2	0	2	0	0	0	3	2	3	2	3	3	5	2	3	3	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:30630513A>G	uc003nqz.2	-	9	1647	c.1435T>C	c.(1435-1437)TAC>CAC	p.Y479H	DHX16_uc003nqy.2_5'Flank|DHX16_uc011dmo.1_Missense_Mutation_p.Y419H	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	479	Helicase ATP-binding.				mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4						CGGATGCTGTAGCCAACCTGG	0.562													5	37					0	0	1	0	0		G	30630513	G	G	30630513	3	3	27	1	0	0	0	0	1	0	0	0	4508	420	15	3	1738	3	DHX16	6	30630513	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	42990	30630513	140484554	3065	25416											
MDC1	9656	broad.mit.edu	37	chr6	30671508	30671508	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgtggtggtgaatccaTggtagctaaagacctcttgc	9	13	12	7	0	1	3	0	2	1	1	2	3	2	3	2	3	2	2	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:30671508T>C	uc003nrg.3	-	10	5892	c.5452A>G	c.(5452-5454)ATG>GTG	p.M1818V	MDC1_uc003nrf.3_Missense_Mutation_p.M449V|MDC1_uc011dmp.1_Missense_Mutation_p.M1425V	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1818	Required for nuclear localization (NLS2).				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						GGTGAATCCATGGTAGCTAAA	0.517								Other_conserved_DNA_damage_response_genes					43	152					0	0	1	0	0		C	30671508	C	C	30671508	3	2	27	1	0	0	0	0	1	0	0	0	9421	1464	51	3	841	3	MDC1	6	30671508	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	40995	30671508	140443559	3066	25417											
MDC1	9656	broad.mit.edu	37	chr6	30675399	30675399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccacctgactggctcccaGaaggtacgggggctgaggta	8	8	14	11	1	0	3	0	2	0	1	2	3	2	3	3	5	1	4	3	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:30675399G>A	uc003nrg.3	-	8	3397	c.2957C>T	c.(2956-2958)TCT>TTT	p.S986F	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Intron	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	986				Missing (in Ref. 2; CAH18685).	cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						CTGGCTCCCAGAAGGTACGGG	0.652								Other_conserved_DNA_damage_response_genes					6	102					0	0	1	0	0		A	30675399	A	A	30675399	3	1	27	1	0	0	0	0	1	0	0	0	9421	942	33	4	3344	4	MDC1	6	30675399	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3891	30675399	140439668	3067	25418											
VARS2	57176	broad.mit.edu	37	chr6	30890980	30890980	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcctcaatgctttaggggAgaaatttgtgccacagcctg	10	12	10	9	0	1	1	1	0	0	1	2	2	2	1	3	2	3	1	3	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:30890980A>T	uc003nsc.1	+	23	2917	c.2285A>T	c.(2284-2286)GAG>GTG	p.E762V	VARS2_uc011dmx.1_Missense_Mutation_p.E762V|VARS2_uc011dmy.1_Missense_Mutation_p.E622V|VARS2_uc011dmz.1_Missense_Mutation_p.E792V|VARS2_uc011dna.1_Missense_Mutation_p.E760V|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_Missense_Mutation_p.E200V|VARS2_uc010jsg.1_Missense_Mutation_p.E134V|VARS2_uc010jsh.1_5'UTR	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	762					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						GCTTTAGGGGAGAAATTTGTG	0.527													9	119					0	0	1	0	0		T	30890980	T	T	30890980	3	4	27	1	0	0	0	0	1	0	0	0	17150	304	11	5	2469	5	VARS2	6	30890980	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	215581	30890980	140224087	3068	25419											
CCHCR1	54535	broad.mit.edu	37	chr6	31116476	31116476	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atggcctgctcctggctctgGgatgtcactttttcctggag	4	14	12	11	0	2	0	1	0	1	0	4	2	4	2	3	4	1	2	3	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31116476G>A	uc003nsr.3	-	9	1248	c.1125C>T	c.(1123-1125)TCC>TCT	p.S375S	CCHCR1_uc011dne.1_Silent_p.S375S|CCHCR1_uc003nsq.3_Silent_p.S428S|CCHCR1_uc003nsp.3_Silent_p.S464S|CCHCR1_uc010jsk.1_Silent_p.S375S	NM_019052	NP_061925	Q8TD31	CCHCR_HUMAN	coiled-coil alpha-helical rod protein 1 isoform	375	Potential.				cell differentiation|multicellular organismal development	cytoplasm|nucleus	protein binding			skin(1)	1						CCTGGCTCTGGGATGTCACTT	0.597													9	80					0	0	1	0	0		A	31116476	A	A	31116476	2	1	27	1	0	0	0	0	0	0	0	1	2880	1219	43	4		4	CCHCR1	6	31116476	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	225496	31116476	139998591	3069	25420											
TCF19	6941	broad.mit.edu	37	chr6	31130321	31130321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccccctgcagttgggggcGgggagccctgtgcagctcct	3	8	15	15	1	0	0	0	0	0	0	2	1	2	1	4	4	4	4	4	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31130321G>A	uc003nss.2	+	4	1389	c.865G>A	c.(865-867)GGG>AGG	p.G289R	TCF19_uc003nst.2_Missense_Mutation_p.G289R	NM_001077511	NP_001070979	Q9Y242	TCF19_HUMAN	transcription factor 19	289	Pro-rich.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AGTTGGGGGCGGGGAGCCCTG	0.617													16	60					0	0	1	0	0		A	31130321	A	A	31130321	3	1	27	1	0	0	0	0	1	0	0	0	15714	1116	39	1	875	1	TCF19	6	31130321	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13845	31130321	139984746	3070	25421											
LTA	4049	broad.mit.edu	37	chr6	31540749	31540749	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttcagctgcccagactgcCcgtcagcaccccaagatgca	9	6	8	18	1	2	2	2	0	0	2	2	2	2	2	5	0	5	3	5	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31540749C>A	uc011dnu.1	+	3	357	c.144C>A	c.(142-144)GCC>GCA	p.A48A	LTA_uc003nue.1_Silent_p.A48A|LTA_uc003nuf.2_RNA|LTA_uc003nuh.2_5'UTR|LTA_uc003nug.2_5'UTR|LTA_uc010jsr.2_RNA|TNF_uc003nui.2_5'Flank	NM_001159740	NP_001153212	P01374	TNFB_HUMAN	lymphotoxin alpha precursor	48					cell-cell signaling|induction of apoptosis|signal transduction	extracellular space|membrane	cytokine activity|tumor necrosis factor receptor binding				0					Etanercept(DB00005)	CCCAGACTGCCCGTCAGCACC	0.602													10	25					3.86212e-05	4.11225e-05	1	1	0		A	31540749	A	A	31540749	2	1	27	1	0	0	0	0	0	0	0	1	9086	610	22	5		5	LTA	6	31540749	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	410428	31540749	139574318	3071	25422											
LTA	4049	broad.mit.edu	37	chr6	31541079	31541079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaccccagcaagcagaactCactgctctggagagcaaaca	15	4	9	13	0	2	3	1	0	1	3	2	4	2	3	2	1	6	4	2	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31541079C>T	uc011dnu.1	+	4	440	c.227C>T	c.(226-228)TCA>TTA	p.S76L	LTA_uc003nue.1_Missense_Mutation_p.S76L|LTA_uc003nuf.2_Intron|LTA_uc003nuh.2_Missense_Mutation_p.S23L|LTA_uc003nug.2_Missense_Mutation_p.S23L|LTA_uc010jsr.2_Intron|TNF_uc003nui.2_5'Flank	NM_001159740	NP_001153212	P01374	TNFB_HUMAN	lymphotoxin alpha precursor	76					cell-cell signaling|induction of apoptosis|signal transduction	extracellular space|membrane	cytokine activity|tumor necrosis factor receptor binding				0					Etanercept(DB00005)	AAGCAGAACTCACTGCTCTGG	0.567													18	43					0	0	1	0	0		T	31541079	T	T	31541079	3	4	27	1	0	0	0	0	1	0	0	0	9086	838	29	4	237	4	LTA	6	31541079	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	330	31541079	139573988	3072	25423											
BAT2	7916	broad.mit.edu	37	chr6	31593291	31593291	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgatgagctggagggccCggactccaaacttcatcatg	9	8	11	13	1	2	2	2	2	0	0	3	4	3	4	3	3	2	1	3	3	1	1	rs144276631		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31593291C>A	uc003nvb.3	+	7	911	c.662C>A	c.(661-663)CCG>CAG	p.P221Q	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Missense_Mutation_p.P221Q|BAT2_uc003nve.2_3'UTR	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	221	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						CTGGAGGGCCCGGACTCCAAA	0.567													7	88					8.12818e-05	8.61523e-05	1	1	0		A	31593291	A	A	31593291	3	1	27	1	0	0	0	0	1	0	0	0	1320	652	23	5	684	5	BAT2	6	31593291	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	52212	31593291	139521776	3073	25424											
BAT2	7916	broad.mit.edu	37	chr6	31600367	31600367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcgccgggcagctgccaagtCtcctgatctgtcaaaccaga	9	8	10	14	2	3	2	1	1	2	1	5	2	3	2	4	1	3	2	4	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31600367C>T	uc003nvb.3	+	16	4166	c.3917C>T	c.(3916-3918)TCT>TTT	p.S1306F	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.S1306F	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1306	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						GCTGCCAAGTCTCCTGATCTG	0.602													19	74					0	0	1	0	0		T	31600367	T	T	31600367	3	4	27	1	0	0	0	0	1	0	0	0	1320	913	32	4	3975	4	BAT2	6	31600367	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7076	31600367	139514700	3074	25425											
BAT2	7916	broad.mit.edu	37	chr6	31602965	31602965	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggcacagaacgatcacaGcgtacagaccgaggcacaga	15	4	11	11	3	1	3	1	0	0	3	1	5	1	3	1	2	3	3	1	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31602965G>T	uc003nvb.3	+	22	5466	c.5217G>T	c.(5215-5217)CAG>CAT	p.Q1739H	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Missense_Mutation_p.Q1739H	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1739	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						AACGATCACAGCGTACAGACC	0.622													7	59					0.00198382	0.00205548	1	1	0		T	31602965	T	T	31602965	3	4	27	1	0	0	0	0	1	0	0	0	1320	962	34	5	5299	5	BAT2	6	31602965	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2598	31602965	139512102	3075	25426											
BAT3	7917	broad.mit.edu	37	chr6	31611972	31611972	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcctggcacctgctgtcCtgtgggtggcagaagagaca	9	7	15	10	0	0	2	0	0	0	2	1	4	1	2	3	3	2	3	3	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31611972C>A	uc003nvg.3	-	12	1780	c.1466_splice	c.e12-1	p.G489_splice	BAT3_uc003nvf.3_Splice_Site_p.G483_splice|BAT3_uc003nvh.3_Splice_Site_p.G483_splice|BAT3_uc003nvi.3_Splice_Site_p.G483_splice|BAT3_uc011dnw.1_Splice_Site_p.G483_splice|BAT3_uc011dnx.1_Splice_Site_p.G483_splice	NM_004639	NP_004630	P46379	BAG6_HUMAN	HLA-B associated transcript-3 isoform a						apoptosis in response to endoplasmic reticulum stress|brain development|cell differentiation|chromatin modification|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|embryo development|internal peptidyl-lysine acetylation|kidney development|lung development|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|protein stabilization|spermatogenesis|synaptonemal complex assembly|tail-anchored membrane protein insertion into ER membrane|transport|ubiquitin-dependent protein catabolic process	BAT3 complex|nucleus	polyubiquitin binding|proteasome binding|ribosome binding				0						ACCTGCTGTCCTGTGGGTGGC	0.667													3	20					0.115264	0.116483	1	1	0		A	31611972	A	A	31611972	5	1	27	1	0	0	0	0	0	0	1	0	1323	695	24	5	1989	5	BAT3	6	31611972	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9007	31611972	139503095	3076	25427											
C6orf47	57827	broad.mit.edu	37	chr6	31627032	31627032	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggctcagaacagcatggagCccatgcagggcagccaggaa	13	3	14	11	0	1	1	1	0	0	1	1	3	1	3	2	4	5	4	2	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31627032C>G	uc003nvm.1	-	1	1518	c.693G>C	c.(691-693)GGG>GGC	p.G231G		NM_021184	NP_067007	O95873	CF047_HUMAN	G4 protein	231										ovary(1)	1						CAGCATGGAGCCCATGCAGGG	0.642													8	39					0	0	1	0	0		G	31627032	G	G	31627032	2	3	27	1	0	0	0	0	0	0	0	1	2367	726	26	5		5	C6orf47	6	31627032	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15060	31627032	139488035	3077	25428											
CSNK2B	1460	broad.mit.edu	37	chr6	31637275	31637275	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagagacctgccaaccagTttgtgcccaggtagggagca	11	6	12	12	0	0	1	0	0	0	1	0	3	0	2	5	2	4	3	5	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31637275T>C	uc003nvr.1	+	6	887	c.547T>C	c.(547-549)TTT>CTT	p.F183L	CSNK2B_uc003nvs.1_Missense_Mutation_p.F183L|LY6G5B_uc003nvt.1_5'Flank	NM_001320	NP_001311	P67870	CSK2B_HUMAN	casein kinase 2, beta polypeptide	183					adiponectin-mediated signaling pathway|axon guidance|cellular protein complex assembly|negative regulation of cell proliferation|regulation of DNA binding|Wnt receptor signaling pathway	cytosol|nucleus|protein kinase CK2 complex	identical protein binding|protein domain specific binding|protein kinase regulator activity|receptor binding|transcription factor binding				0						TGCCAACCAGTTTGTGCCCAG	0.577													4	101					0	0	1	0	0		C	31637275	C	C	31637275	3	2	27	1	0	0	0	0	1	0	0	0	3962	1725	60	3	565	3	CSNK2B	6	31637275	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10243	31637275	139477792	3078	25429											
VARS	7407	broad.mit.edu	37	chr6	31747231	31747231	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatccgggtgaggttgtagTcggcccgcagggagcgcacg	6	6	19	10	5	0	1	0	1	0	0	2	3	1	3	2	5	1	4	2	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31747231T>A	uc003nxe.2	-	28	3794	c.3371A>T	c.(3370-3372)GAC>GTC	p.D1124V	C6orf27_uc011dog.1_5'Flank|C6orf27_uc003nxd.2_5'Flank|C6orf27_uc011doh.1_5'Flank|VARS_uc003nxf.1_Missense_Mutation_p.D61V	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	1124					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	GAGGTTGTAGTCGGCCCGCAG	0.687													7	32					0	0	1	0	0		A	31747231	A	A	31747231	3	1	27	1	0	0	0	0	1	0	0	0	17149	1667	58	5	435	5	VARS	6	31747231	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	109956	31747231	139367836	3079	25430											
CFB	629	broad.mit.edu	37	chr6	31914250	31914250	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttccgacttctccaagagggCcaggcactggagtacgtgtg	8	9	13	11	2	1	1	0	0	1	1	3	3	2	2	3	3	1	2	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31914250C>T	uc003nyj.3	+	2	443	c.165C>T	c.(163-165)GGC>GGT	p.G55G	CFB_uc011dor.1_Silent_p.G557G|CFB_uc011dos.1_Silent_p.G55G|CFB_uc003nyi.2_Silent_p.G55G	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	55	Sushi 1.				complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						TCCAAGAGGGCCAGGCACTGG	0.602													4	46					0	0	1	0	0		T	31914250	T	T	31914250	2	4	27	1	0	0	0	0	0	0	0	1	3281	726	26	2		2	CFB	6	31914250	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	167019	31914250	139200817	3080	25431											
C4A	720	broad.mit.edu	37	chr6	31963556	31963556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatgcggcttggttgtcacGggacagcagcacctggtgag	7	9	15	10	2	1	1	1	1	0	0	1	2	1	2	1	4	3	4	1	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31963556G>A	uc011doy.1	+	25	3266	c.3215G>A	c.(3214-3216)CGG>CAG	p.R1072Q	C4A_uc011doz.1_Missense_Mutation_p.R1072Q	NM_007293	NP_009224	P0C0L4	CO4A_HUMAN	complement component 4A preproprotein	1072					complement activation, classical pathway|inflammatory response|innate immune response	extracellular space	endopeptidase inhibitor activity				0						TGGTTGTCACGGGACAGCAGC	0.622													9	49					0	0	1	0	0		A	31963556	A	A	31963556	3	1	27	1	0	0	0	0	1	0	0	0	2250	1116	39	1	3313	1	C4A	6	31963556	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	49306	31963556	139151511	3081	25432											
C4A	720	broad.mit.edu	37	chr6	31963570	31963570	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcacgggacagcagcaccTggtgagcttgggagagtggt	8	8	17	8	1	1	2	1	1	0	1	1	4	1	3	1	4	3	3	1	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:31963570T>C	uc011doy.1	+	25	3280	c.3229T>C	c.(3229-3231)TGG>CGG	p.W1077R	C4A_uc011doz.1_Missense_Mutation_p.W1077R	NM_007293	NP_009224	P0C0L4	CO4A_HUMAN	complement component 4A preproprotein	1077					complement activation, classical pathway|inflammatory response|innate immune response	extracellular space	endopeptidase inhibitor activity				0						CAGCAGCACCTGGTGAGCTTG	0.617													9	44					0	0	1	0	0		C	31963570	C	C	31963570	3	2	27	1	0	0	0	0	1	0	0	0	2250	1594	55	3	3327	3	C4A	6	31963570	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	14	31963570	139151497	3082	25433											
TNXB	7148	broad.mit.edu	37	chr6	32017118	32017118	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtacagatgcatcttgtatTtgcgcccgggctccaggccc	6	10	11	14	3	1	1	0	0	1	1	2	1	2	1	3	2	3	4	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32017118T>C	uc003nzl.2	-	28	9882	c.9680A>G	c.(9679-9681)AAA>AGA	p.K3227R	TNXB_uc003nzh.1_5'Flank	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3274	Fibronectin type-III 24.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CATCTTGTATTTGCGCCCGGG	0.687													3	44					0	0	1	0	0		C	32017118	C	C	32017118	3	2	27	1	0	0	0	0	1	0	0	0	16371	1841	64	3	5101	3	TNXB	6	32017118	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53548	32017118	139097949	3083	25434											
TNXB	7148	broad.mit.edu	37	chr6	32021419	32021419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacggtcagctccccgaggCgaggcttgttggggggctca	5	8	16	12	3	3	0	3	0	0	0	4	2	4	0	2	6	1	4	2	6	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32021419C>T	uc003nzl.2	-	25	8733	c.8531G>A	c.(8530-8532)CGC>CAC	p.R2844H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2893	Fibronectin type-III 21.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CTCCCCGAGGCGAGGCTTGTT	0.632													7	65					0	0	1	0	0		T	32021419	T	T	32021419	3	4	27	1	0	0	0	0	1	0	0	0	16371	768	27	1	6262	1	TNXB	6	32021419	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4301	32021419	139093648	3084	25435											
TNXB	7148	broad.mit.edu	37	chr6	32046840	32046840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggcggacaccgggcccaCgcgctgcccctcgtggaggc	5	3	15	18	6	0	0	0	0	0	0	1	2	0	2	4	5	1	1	4	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32046840C>T	uc003nzl.2	-	11	4547	c.4345G>A	c.(4345-4347)GTG>ATG	p.V1449M		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1536	Fibronectin type-III 7.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						ACCGGGCCCACGCGCTGCCCC	0.672													4	39					0	0	1	0	0		T	32046840	T	T	32046840	3	4	27	1	0	0	0	0	1	0	0	0	16371	536	19	1	10504	1	TNXB	6	32046840	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25421	32046840	139068227	3085	25436											
TNXB	7148	broad.mit.edu	37	chr6	32064256	32064256	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgcacaccgcagtcctcGccgctgtagcccgcattgca	6	7	10	18	5	0	0	0	0	0	0	2	0	1	0	4	0	3	6	4	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32064256G>A	uc003nzl.2	-	3	1576	c.1374C>T	c.(1372-1374)GGC>GGT	p.G458G		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	458	EGF-like 10.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CGCAGTCCTCGCCGCTGTAGC	0.687													3	17					0	0	1	0	0		A	32064256	A	A	32064256	2	1	27	1	0	0	0	0	0	0	0	1	16371	1074	38	1		1	TNXB	6	32064256	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17416	32064256	139050811	3086	25437											
TNXB	7148	broad.mit.edu	37	chr6	32065914	32065914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagagaaggggcctgctctgGctgtgctcagcagcaccagg	9	6	15	11	0	2	1	1	0	1	1	2	2	2	1	2	4	4	5	2	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32065914G>A	uc003nzl.2	-	2	264	c.62C>T	c.(61-63)GCC>GTC	p.A21V	TNXB_uc010jts.1_Missense_Mutation_p.A20V|ATF6B_uc003nzm.1_3'UTR	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	21					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GCCTGCTCTGGCTGTGCTCAG	0.637													4	36					0	0	1	0	0		A	32065914	A	A	32065914	3	1	27	1	0	0	0	0	1	0	0	0	16371	1203	42	2	14823	2	TNXB	6	32065914	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1658	32065914	139049153	3087	25438											
PBX2	5089	broad.mit.edu	37	chr6	32155497	32155497	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggatatgggttactcaggTgggagtagaaatactcattt	12	13	12	4	0	2	1	2	0	0	1	2	3	2	3	0	4	2	2	0	4	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32155497T>C	uc003oav.1	-	5	1068	c.797A>G	c.(796-798)CAC>CGC	p.H266R	PBX2_uc003oaw.2_Missense_Mutation_p.H266R	NM_002586	NP_002577	P40425	PBX2_HUMAN	pre-B-cell leukemia homeobox 2	266	Homeobox; TALE-type.						transcription factor binding			ovary(1)	1						GTTACTCAGGTGGGAGTAGAA	0.517													6	21					0	0	1	0	0		C	32155497	C	C	32155497	3	2	27	1	0	0	0	0	1	0	0	0	11512	1696	59	3	515	3	PBX2	6	32155497	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	89583	32155497	138959570	3088	25439											
HLA-DRA	3122	broad.mit.edu	37	chr6	32410334	32410334	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtggatatggcaaagaaGgagacggtctggcggcttga	11	8	16	6	2	1	3	0	1	1	2	1	5	1	4	0	6	0	2	0	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32410334G>A	uc003obh.2	+	2	273	c.192G>A	c.(190-192)AAG>AAA	p.K64K	HLA-DRA_uc003obi.2_Silent_p.K64K	NM_019111	NP_061984	P01903	DRA_HUMAN	major histocompatibility complex, class II, DR	64	Extracellular (Potential).|Alpha-1.			K -> L (in Ref. 12; AA sequence).	antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|Golgi apparatus|integral to plasma membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity			ovary(1)|skin(1)	2						TGGCAAAGAAGGAGACGGTCT	0.468									T-cell_Lymphoma_(Cutaneous)__Familial_Clustering_of|Kaposi_Sarcoma_Familial_Clustering_of				12	115					0	0	1	0	0		A	32410334	A	A	32410334	2	1	27	1	0	0	0	0	0	0	0	1	7223	991	35	4		4	HLA-DRA	6	32410334	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	254837	32410334	138704733	3089	25440											
TAP2	6891	broad.mit.edu	37	chr6	32782325	32782325	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagagcagtgcagcagatTatgctggtgcaggagtgggg	10	7	17	7	0	0	2	0	0	0	2	0	3	0	3	0	4	5	5	0	4	1	1	rs139684832		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32782325T>A	uc011dqf.1	-	14	2358	c.2236A>T	c.(2236-2238)AAT>TAT	p.N746Y	HLA-DOB_uc003oca.2_Missense_Mutation_p.N139Y|HLA-DOB_uc011dqg.1_Missense_Mutation_p.N139Y	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	Error:Variant_position_missing_in_Q03519_after_alignment					antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						TGCAGCAGATTATGCTGGTGC	0.532													16	141					0	0	1	0	0		A	32782325	A	A	32782325	3	1	27	1	0	0	0	0	1	0	0	0	15576	1754	61	5		5	TAP2	6	32782325	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	371991	32782325	138332742	3090	25441											
TAP2	6891	broad.mit.edu	37	chr6	32782846	32782846	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccccacagtgaagggtgcGcccagcctgtagttgtgtct	6	10	12	13	1	1	1	0	1	1	0	2	1	2	1	4	1	2	2	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32782846G>A	uc011dqf.1	-	13	2279	c.2157C>T	c.(2155-2157)GGC>GGT	p.G719G	HLA-DOB_uc003oca.2_Silent_p.G112G|HLA-DOB_uc011dqg.1_Silent_p.G112G	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	Error:Variant_position_missing_in_Q03519_after_alignment					antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						TGAAGGGTGCGCCCAGCCTGT	0.592													10	32					0	0	1	0	0		A	32782846	A	A	32782846	2	1	27	1	0	0	0	0	0	0	0	1	15576	1074	38	1		1	TAP2	6	32782846	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	521	32782846	138332221	3091	25442											
TAP2	6891	broad.mit.edu	37	chr6	32800520	32800520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctcggccccaaaactgcGaacggtctgcagccctccaa	9	6	8	18	3	1	0	0	0	1	0	4	1	3	0	5	2	5	1	5	2	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32800520G>A	uc003occ.2	-	5	1058	c.1027C>T	c.(1027-1029)CGC>TGC	p.R343C	TAP2_uc011dqf.1_Missense_Mutation_p.R343C|TAP2_uc003ocb.1_Missense_Mutation_p.R343C|TAP2_uc003ocd.2_Missense_Mutation_p.R343C	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	343	Involved in peptide-binding site.|ABC transmembrane type-1.|Cytoplasmic (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						CCAAAACTGCGAACGGTCTGC	0.602													4	71					0	0	1	0	0		A	32800520	A	A	32800520	3	1	27	1	0	0	0	0	1	0	0	0	15576	1058	37	1	1146	1	TAP2	6	32800520	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17674	32800520	138314547	3092	25443											
HLA-DMB	3109	broad.mit.edu	37	chr6	32906545	32906545	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcaagcgctgcatcagggTgtctttttggttgaggtgct	5	13	15	8	2	2	1	1	1	1	0	2	1	2	1	0	3	3	5	0	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32906545T>C	uc003ocl.1	-	2	486	c.253A>G	c.(253-255)ACC>GCC	p.T85A	HLA-DMB_uc003ocj.1_Missense_Mutation_p.T85A|HLA-DMB_uc003ock.1_5'Flank|HLA-DMB_uc010jud.1_5'Flank|HLA-DMB_uc010jue.1_5'Flank|HLA-DMB_uc010juf.1_5'Flank|HLA-DMB_uc011dql.1_Missense_Mutation_p.T85A	NM_002118	NP_002109	P28068	DMB_HUMAN	major histocompatibility complex, class II, DM	85	Beta-1.|Lumenal (Potential).				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0						TGCATCAGGGTGTCTTTTTGG	0.552													7	115					0	0	1	0	0		C	32906545	C	C	32906545	3	2	27	1	0	0	0	0	1	0	0	0	7215	1696	59	3	558	3	HLA-DMB	6	32906545	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	106025	32906545	138208522	3093	25444											
BRD2	6046	broad.mit.edu	37	chr6	32944082	32944082	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccgtctcttctgtgtcAcacacagccctgtatactcc	6	12	6	17	1	3	0	1	0	2	0	5	0	4	0	4	0	3	1	4	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32944082A>G	uc003ocn.3	+	6	2367	c.666A>G	c.(664-666)TCA>TCG	p.S222S	BRD2_uc003oco.2_RNA|BRD2_uc003ocq.3_Silent_p.S222S|BRD2_uc003ocp.3_Silent_p.S102S|BRD2_uc010juh.2_Silent_p.S222S	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	222					spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						CTTCTGTGTCACACACAGCCC	0.498													7	68					0	0	1	0	0		G	32944082	G	G	32944082	2	3	27	1	0	0	0	0	0	0	0	1	1505	146	6	3		3	BRD2	6	32944082	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37537	32944082	138170985	3094	25445											
BRD2	6046	broad.mit.edu	37	chr6	32946140	32946140	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttaggcccttctggctttGgaccttctggaggaagtggc	5	13	13	10	0	2	0	0	0	2	0	2	3	2	3	2	6	0	1	2	6	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32946140G>T	uc003ocn.3	+	10	3517	c.1816G>T	c.(1816-1818)GGA>TGA	p.G606*	BRD2_uc003oco.2_RNA|BRD2_uc003ocq.3_Nonsense_Mutation_p.G606*|BRD2_uc003ocp.3_Nonsense_Mutation_p.G486*|BRD2_uc010juh.2_Nonsense_Mutation_p.G606*	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	606					spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						TTCTGGCTTTGGACCTTCTGG	0.542													5	183					0.217242	0.218248	1	1	0		T	32946140	T	T	32946140	4	4	27	1	0	0	0	0	0	1	0	0	1505	1349	47	5	1850	5	BRD2	6	32946140	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2058	32946140	138168927	3095	25446											
BRD2	6046	broad.mit.edu	37	chr6	32947622	32947622	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggctccccaaaaaggccaCaaagacagccccacctgccc	13	3	7	18	0	0	1	0	0	0	1	1	1	1	1	7	2	2	1	7	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32947622C>G	uc003ocn.3	+	11	3560	c.1859C>G	c.(1858-1860)ACA>AGA	p.T620R	BRD2_uc003ocq.3_Missense_Mutation_p.T620R|BRD2_uc003ocp.3_Missense_Mutation_p.T500R|BRD2_uc010juh.2_Missense_Mutation_p.T655R	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	620					spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						AAAAAGGCCACAAAGACAGCC	0.498													3	35					0	0	1	0	0		G	32947622	G	G	32947622	3	3	27	1	0	0	0	0	1	0	0	0	1505	478	17	5	1897	5	BRD2	6	32947622	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1482	32947622	138167445	3096	25447											
HLA-DOA	3111	broad.mit.edu	37	chr6	32975164	32975164	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtcctcggctgagggcacGaagggcaggtagtggaactt	9	7	16	9	3	0	1	0	1	0	0	2	3	1	2	1	5	1	4	1	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:32975164G>A	uc003ocr.2	-	3	613	c.537C>T	c.(535-537)TTC>TTT	p.F179F	HLA-DOA_uc010juj.2_Silent_p.F149F|HLA-DOA_uc010jui.2_Silent_p.F179F	NM_002119	NP_002110	P06340	DOA_HUMAN	major histocompatibility complex, class II, DO	179	Extracellular (Potential).|Alpha-2.|Ig-like C1-type.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endosome membrane|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0						CTGAGGGCACGAAGGGCAGGT	0.627													6	111					0	0	1	0	0		A	32975164	A	A	32975164	2	1	27	1	0	0	0	0	0	0	0	1	7216	1049	37	1		1	HLA-DOA	6	32975164	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27542	32975164	138139903	3097	25448											
COL11A2	1302	broad.mit.edu	37	chr6	33133401	33133401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgggtccctgttggccGcctcatctgctcgatctcct	2	13	10	16	2	3	0	1	0	2	0	7	1	5	0	5	2	1	2	5	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:33133401G>A	uc003ocx.1	-	63	4903	c.4675C>T	c.(4675-4677)CGG>TGG	p.R1559W	COL11A2_uc010jul.1_Missense_Mutation_p.R129W|COL11A2_uc003ocy.1_Missense_Mutation_p.R1473W|COL11A2_uc003ocz.1_Missense_Mutation_p.R1452W	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1559	Fibrillar collagen NC1.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						CCTGTTGGCCGCCTCATCTGC	0.662													23	59					0	0	1	0	0		A	33133401	A	A	33133401	3	1	27	1	0	0	0	0	1	0	0	0	3671	1086	38	1	551	1	COL11A2	6	33133401	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	158237	33133401	137981666	3098	25449											
COL11A2	1302	broad.mit.edu	37	chr6	33133486	33133486	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggactgccgggggctcccccGgtcggtatggcctcatcttc	3	9	14	15	3	2	0	1	0	1	0	5	1	3	1	4	6	1	2	4	6	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:33133486G>A	uc003ocx.1	-	63	4818	c.4590C>T	c.(4588-4590)ACC>ACT	p.T1530T	COL11A2_uc010jul.1_Silent_p.T100T|COL11A2_uc003ocy.1_Silent_p.T1444T|COL11A2_uc003ocz.1_Silent_p.T1423T	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1530					cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						GGGCTCCCCCGGTCGGTATGG	0.647													14	62					0	0	1	0	0		A	33133486	A	A	33133486	2	1	27	1	0	0	0	0	0	0	0	1	3671	1103	39	1		1	COL11A2	6	33133486	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	85	33133486	137981581	3099	25450											
RING1	6015	broad.mit.edu	37	chr6	33177443	33177443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagattgctgtttcccctcGgtcactgcattcagaactca	9	12	8	12	1	3	2	3	0	0	2	5	3	4	2	2	1	3	3	2	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:33177443G>A	uc003odk.2	+	3	313	c.119G>A	c.(118-120)CGG>CAG	p.R40Q	RING1_uc011dqw.1_3'UTR|RING1_uc011dqx.1_Missense_Mutation_p.R40Q|RING1_uc003odl.2_Missense_Mutation_p.R11Q	NM_002931	NP_002922	Q06587	RING1_HUMAN	ring finger protein 1	40	Necessary for transcriptional repression (By similarity).				histone H2A monoubiquitination|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear speck|PcG protein complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						GTTTCCCCTCGGTCACTGCAT	0.493													30	65					0	0	1	0	0		A	33177443	A	A	33177443	3	1	27	1	0	0	0	0	1	0	0	0	13399	1116	39	1	125	1	RING1	6	33177443	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	43957	33177443	137937624	3100	25451											
B3GALT4	8705	broad.mit.edu	37	chr6	33245430	33245430	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctgctcatcctggtgtgCacggctccggagaacctgaa	7	10	11	13	2	1	2	1	1	0	1	4	3	4	2	4	3	3	3	4	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:33245430C>T	uc003odr.2	+	1	514	c.234C>T	c.(232-234)TGC>TGT	p.C78C		NM_003782	NP_003773	O96024	B3GT4_HUMAN	UDP-Gal:betaGlcNAc beta	78	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	ganglioside galactosyltransferase activity|UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)|breast(1)	2						TCCTGGTGTGCACGGCTCCGG	0.687													19	113					0	0	1	0	0		T	33245430	T	T	33245430	2	4	27	1	0	0	0	0	0	0	0	1	1250	718	25	2		2	B3GALT4	6	33245430	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	67987	33245430	137869637	3101	25452											
B3GALT4	8705	broad.mit.edu	37	chr6	33245707	33245707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgccccatggcccgatacGtcctcaagacggacgatgat	10	7	10	14	4	1	2	1	1	0	1	2	5	2	3	4	2	2	0	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:33245707G>A	uc003odr.2	+	1	791	c.511G>A	c.(511-513)GTC>ATC	p.V171I		NM_003782	NP_003773	O96024	B3GT4_HUMAN	UDP-Gal:betaGlcNAc beta	171	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	ganglioside galactosyltransferase activity|UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)|breast(1)	2						GGCCCGATACGTCCTCAAGAC	0.587													22	63					0	0	1	0	0		A	33245707	A	A	33245707	3	1	27	1	0	0	0	0	1	0	0	0	1250	1145	40	1	513	1	B3GALT4	6	33245707	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	277	33245707	137869360	3102	25453											
WDR46	9277	broad.mit.edu	37	chr6	33247573	33247573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgctccttctttccctgctCcagggagatgacatccacct	6	12	7	16	0	1	2	0	1	1	1	5	3	5	2	5	1	2	2	5	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:33247573C>T	uc003ods.2	-	13	1632	c.1588G>A	c.(1588-1590)GAG>AAG	p.E530K	WDR46_uc011dra.1_Missense_Mutation_p.E476K	NM_005452	NP_005443	O15213	WDR46_HUMAN	WD repeat domain 46 isoform 1	530											0						TTTCCCTGCTCCAGGGAGATG	0.602													9	39					0	0	1	0	0		T	33247573	T	T	33247573	3	4	27	1	0	0	0	0	1	0	0	0	17325	864	30	4	256	4	WDR46	6	33247573	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1866	33247573	137867494	3103	25454											
KIFC1	3833	broad.mit.edu	37	chr6	33365928	33365928	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgaccagatggaagatggCctggagcctgagaaggtgag	11	6	16	8	0	0	5	0	3	0	3	0	8	0	7	4	4	1	0	4	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:33365928C>T	uc003oef.3	+	2	585	c.135C>T	c.(133-135)GGC>GGT	p.G45G	KIFC1_uc011drf.1_Silent_p.G45G|uc011drg.1_5'Flank	NM_002263	NP_002254	Q9BW19	KIFC1_HUMAN	kinesin family member C1	45					blood coagulation|cell division|microtubule-based movement|mitotic sister chromatid segregation	early endosome|microtubule|microtubule associated complex|microtubule organizing center|nucleus|spindle	ATP binding|microtubule motor activity				0						TGGAAGATGGCCTGGAGCCTG	0.537													5	40					0	0	1	0	0		T	33365928	T	T	33365928	2	4	27	1	0	0	0	0	0	0	0	1	8328	726	26	2		2	KIFC1	6	33365928	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	118355	33365928	137749139	3104	25455											
ITPR3	3710	broad.mit.edu	37	chr6	33641390	33641390	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctcaatgtccgcctggAttaccgcatatcctacctgc	8	11	6	16	2	1	0	1	0	0	0	4	1	4	1	6	1	3	1	6	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:33641390A>T	uc011drk.1	+	23	3170	c.2951A>T	c.(2950-2952)GAT>GTT	p.D984V		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	984	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GTCCGCCTGGATTACCGCATA	0.542													18	185					0	0	1	0	0		T	33641390	T	T	33641390	3	4	27	1	0	0	0	0	1	0	0	0	7938	333	12	5	3041	5	ITPR3	6	33641390	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	275462	33641390	137473677	3105	25456											
ITPR3	3710	broad.mit.edu	37	chr6	33648175	33648175	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtggagatgaaggagatcTacaccagcaaccacatctgg	14	6	12	9	0	2	3	0	1	2	2	2	5	2	3	2	4	3	1	2	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:33648175T>C	uc011drk.1	+	32	4513	c.4294T>C	c.(4294-4296)TAC>CAC	p.Y1432H		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1432	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GAAGGAGATCTACACCAGCAA	0.592													8	54					0	0	1	0	0		C	33648175	C	C	33648175	3	2	27	1	0	0	0	0	1	0	0	0	7938	1522	53	3	4420	3	ITPR3	6	33648175	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6785	33648175	137466892	3106	25457											
C6orf125	84300	broad.mit.edu	37	chr6	33669177	33669177	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctctcgtacatctgatcAcaggcctcaggctctgcaac	10	9	8	14	1	5	1	2	1	3	0	6	1	5	1	1	2	4	4	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:33669177A>G	uc003ofa.1	-	2	200	c.159T>C	c.(157-159)TGT>TGC	p.C53C	C6orf125_uc003oez.1_5'Flank|C6orf125_uc010jve.1_RNA	NM_032340	NP_115716	Q9BRT2	CF125_HUMAN	hypothetical protein LOC84300	53											0						ACATCTGATCACAGGCCTCAG	0.493													17	155					0	0	1	0	0		G	33669177	G	G	33669177	2	3	27	1	0	0	0	0	0	0	0	1	2328	157	6	3		3	C6orf125	6	33669177	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21002	33669177	137445890	3107	25458											
LEMD2	221496	broad.mit.edu	37	chr6	33746099	33746099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caacacccatgcgggggtggGcagattccaggcagaccacc	10	4	13	14	1	0	2	0	0	0	2	1	2	1	2	4	4	2	2	4	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:33746099G>A	uc011drm.1	-	6	1089	c.1076C>T	c.(1075-1077)GCC>GTC	p.A359V	LEMD2_uc010jvg.2_Missense_Mutation_p.A68V|LEMD2_uc011drl.1_Missense_Mutation_p.A57V|LEMD2_uc003ofe.2_Missense_Mutation_p.A57V	NM_181336	NP_851853	Q8NC56	LEMD2_HUMAN	LEM domain containing 2 isoform 1	359						integral to nuclear inner membrane				central_nervous_system(1)	1						GCGGGGGTGGGCAGATTCCAG	0.572													6	102					0	0	1	0	0		A	33746099	A	A	33746099	3	1	27	1	0	0	0	0	1	0	0	0	8736	1203	42	2	451	2	LEMD2	6	33746099	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	76922	33746099	137368968	3108	25459											
PACSIN1	29993	broad.mit.edu	37	chr6	34495114	34495114	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgcttggccgccaggtgggGaactacaagcggaccgtgaa	9	6	15	11	3	0	1	0	1	0	0	0	3	0	3	3	5	4	1	3	5	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:34495114G>A	uc003ojo.2	+	3	275	c.69G>A	c.(67-69)GGG>GGA	p.G23G	PACSIN1_uc003ojp.2_Silent_p.G23G	NM_020804	NP_065855	Q9BY11	PACN1_HUMAN	protein kinase C and casein kinase substrate in	23	FCH.				endocytosis		protein kinase activity				0						GCCAGGTGGGGAACTACAAGC	0.677											OREG0017366	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	9					0	0	1	0	0		A	34495114	A	A	34495114	2	1	27	1	0	0	0	0	0	0	0	1	11393	1161	41	4		4	PACSIN1	6	34495114	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	749015	34495114	136619953	3109	25460											
UHRF1BP1	54887	broad.mit.edu	37	chr6	34826075	34826075	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgagttctttcattccaatTatgatcactttcctaaggtt	9	18	5	9	0	3	2	2	2	1	0	5	2	5	2	2	1	0	2	2	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:34826075T>C	uc003oju.3	+	14	2176	c.1942T>C	c.(1942-1944)TAT>CAT	p.Y648H	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	648										ovary(3)	3						TCATTCCAATTATGATCACTT	0.463													9	120					0	0	1	0	0		C	34826075	C	C	34826075	3	2	27	1	0	0	0	0	1	0	0	0	16994	1754	61	3	1996	3	UHRF1BP1	6	34826075	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	330961	34826075	136288992	3110	25461											
ANKS1A	23294	broad.mit.edu	37	chr6	34935065	34935065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgacagcactggctacacaCccctgcaccatgctgctttg	8	10	8	15	0	0	1	0	1	0	0	0	1	0	1	3	1	5	5	3	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:34935065C>T	uc003ojx.3	+	2	389	c.247C>T	c.(247-249)CCC>TCC	p.P83S	ANKS1A_uc011dss.1_Missense_Mutation_p.P83S|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR|ANKS1A_uc010jvq.1_5'Flank	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	83	ANK 1.					cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						TGGCTACACACCCCTGCACCA	0.458													9	124					0	0	1	0	0		T	34935065	T	T	34935065	3	4	27	1	0	0	0	0	1	0	0	0	688	507	18	4	253	4	ANKS1A	6	34935065	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	108990	34935065	136180002	3111	25462											
ANKS1A	23294	broad.mit.edu	37	chr6	34985579	34985579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgcaccctgaaactttgActcacacagcatctccgcac	10	8	6	17	2	2	2	1	2	1	0	4	2	2	2	2	0	2	4	2	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:34985579A>G	uc003ojx.3	+	11	1895	c.1753A>G	c.(1753-1755)ACT>GCT	p.T585A	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Missense_Mutation_p.T125A|ANKS1A_uc010jvp.1_Intron	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	585						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						TGAAACTTTGACTCACACAGC	0.627													10	132					0	0	1	0	0		G	34985579	G	G	34985579	3	3	27	1	0	0	0	0	1	0	0	0	688	275	10	3	1795	3	ANKS1A	6	34985579	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	50514	34985579	136129488	3112	25463											
TULP1	7287	broad.mit.edu	37	chr6	35477055	35477055	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtagctgcctcctcctcCtcttcttcctccttcctcgc	2	14	4	21	2	2	0	0	0	2	0	9	0	8	0	8	0	2	2	8	0	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:35477055C>T	uc003okv.3	-	8	765	c.753G>A	c.(751-753)GAG>GAA	p.E251E	TULP1_uc003okw.3_Silent_p.E198E	NM_003322	NP_003313	O00294	TULP1_HUMAN	tubby like protein 1	251	Poly-Glu.				dendrite development|eye photoreceptor cell development|phagocytosis|photoreceptor cell maintenance|positive regulation of phagocytosis	cell junction|cytoplasm|extracellular region|photoreceptor inner segment|photoreceptor outer segment|synapse	actin filament binding|phosphatidylinositol-4,5-bisphosphate binding			ovary(2)|central_nervous_system(1)	3						CCTCCTCCTCCTCTTCTTCCT	0.512													5	275					0	0	1	0	0		T	35477055	T	T	35477055	2	4	27	1	0	0	0	0	0	0	0	1	16799	680	24	4		4	TULP1	6	35477055	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	491476	35477055	135638012	3113	25464											
STK38	11329	broad.mit.edu	37	chr6	36465624	36465624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcaactccaggagctcCaattctatgttcccattcac	9	13	4	15	0	3	0	2	0	1	0	7	1	7	1	4	1	2	2	4	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:36465624C>T	uc003omg.2	-	11	1693	c.1105G>A	c.(1105-1107)GGA>AGA	p.G369R	STK38_uc003omh.2_Missense_Mutation_p.G369R|STK38_uc003omi.2_Missense_Mutation_p.G369R	NM_007271	NP_009202	Q15208	STK38_HUMAN	serine/threonine kinase 38	369	Protein kinase.				intracellular protein kinase cascade|negative regulation of MAP kinase activity	cytoplasm|MLL5-L complex	ATP binding|magnesium ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6						CCAGGAGCTCCAATTCTATGT	0.363													15	43					0	0	1	0	0		T	36465624	T	T	36465624	3	4	27	1	0	0	0	0	1	0	0	0	15328	603	21	4	304	4	STK38	6	36465624	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	988569	36465624	134649443	3114	25465											
STK38	11329	broad.mit.edu	37	chr6	36489556	36489556	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacggagtattttcattgcAtacacatgtcccgtatcttt	9	17	6	9	2	2	0	1	0	1	0	3	1	3	1	1	1	3	3	1	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:36489556A>T	uc003omg.2	-	4	933	c.345T>A	c.(343-345)TAT>TAA	p.Y115*	STK38_uc003omh.2_Nonsense_Mutation_p.Y115*|STK38_uc003omi.2_Nonsense_Mutation_p.Y115*	NM_007271	NP_009202	Q15208	STK38_HUMAN	serine/threonine kinase 38	115	Protein kinase.				intracellular protein kinase cascade|negative regulation of MAP kinase activity	cytoplasm|MLL5-L complex	ATP binding|magnesium ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6						TTTTCATTGCATACACATGTC	0.358													5	119					0	0	1	0	0		T	36489556	T	T	36489556	4	4	27	1	0	0	0	0	0	1	0	0	15328	224	8	5	1092	5	STK38	6	36489556	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	23932	36489556	134625511	3115	25466											
BTBD9	114781	broad.mit.edu	37	chr6	38560367	38560367	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttactgagcatgcctctatAattgaggtccatatcccggc	9	12	8	12	1	1	2	0	2	1	0	3	2	3	2	3	2	3	1	3	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:38560367A>G	uc003ooa.3	-	5	1375	c.799T>C	c.(799-801)TAT>CAT	p.Y267H	BTBD9_uc003ony.3_Missense_Mutation_p.Y199H|BTBD9_uc010jwv.2_Missense_Mutation_p.Y199H|BTBD9_uc010jww.2_RNA|BTBD9_uc010jwx.2_Missense_Mutation_p.Y267H	NM_052893	NP_443125	Q96Q07	BTBD9_HUMAN	BTB (POZ) domain containing 9 isoform a	267					cell adhesion						0						ATGCCTCTATAATTGAGGTCC	0.473													6	94					0	0	1	0	0		G	38560367	G	G	38560367	3	3	27	1	0	0	0	0	1	0	0	0	1551	362	13	3	1162	3	BTBD9	6	38560367	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2070811	38560367	132554700	3116	25467											
DNAH8	1769	broad.mit.edu	37	chr6	38738194	38738194	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttacttttctcataggactgCatttttctattcaaggaata	11	18	5	7	0	3	0	2	0	2	0	4	2	3	2	0	2	2	1	0	2	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:38738194C>T	uc003ooe.1	+	10	1572	c.972C>T	c.(970-972)TGC>TGT	p.C324C		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CATAGGACTGCATTTTTCTAT	0.333													4	44					0	0	1	0	0		T	38738194	T	T	38738194	2	4	27	1	0	0	0	0	0	0	0	1	4613	718	25	2		2	DNAH8	6	38738194	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	177827	38738194	132376873	3117	25468											
DNAH8	1769	broad.mit.edu	37	chr6	38813476	38813476	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggagagctcctgctcaaaGgaaccgaatcgggagaaatt	15	6	12	8	2	1	2	1	0	0	2	3	6	2	3	2	3	3	2	2	3	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:38813476G>T	uc003ooe.1	+	34	4921	c.4321G>T	c.(4321-4323)GGA>TGA	p.G1441*		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CCTGCTCAAAGGAACCGAATC	0.403													7	81					0.0293803	0.0298427	1	1	0		T	38813476	T	T	38813476	4	4	27	1	0	0	0	0	0	1	0	0	4613	1001	35	5	4447	5	DNAH8	6	38813476	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	75282	38813476	132301591	3118	25469											
DNAH8	1769	broad.mit.edu	37	chr6	38858521	38858521	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctcagtgggtagagtgcTgtggcaatggactaaggtac	10	10	15	6	0	1	1	1	0	1	1	2	2	1	2	0	4	2	4	0	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:38858521T>C	uc003ooe.1	+	56	8516	c.7916T>C	c.(7915-7917)CTG>CCG	p.L2639P		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GGTAGAGTGCTGTGGCAATGG	0.373													13	89					0	0	1	0	0		C	38858521	C	C	38858521	3	2	27	1	0	0	0	0	1	0	0	0	4613	1580	55	3	8130	3	DNAH8	6	38858521	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	45045	38858521	132256546	3119	25470											
DNAH8	1769	broad.mit.edu	37	chr6	38951995	38951995	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataaagggtgtatcatggaAtacggttcggtacatgatcg	13	11	12	5	3	1	1	1	1	0	0	3	2	1	2	0	4	2	3	0	4	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:38951995A>G	uc003ooe.1	+	85	12914	c.12314A>G	c.(12313-12315)AAT>AGT	p.N4105S	DNAH8_uc003oog.1_Missense_Mutation_p.N554S	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GTATCATGGAATACGGTTCGG	0.368													3	52					0	0	1	0	0		G	38951995	G	G	38951995	3	3	27	1	0	0	0	0	1	0	0	0	4613	101	4	3	12644	3	DNAH8	6	38951995	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	93474	38951995	132163072	3120	25471											
KIF6	221458	broad.mit.edu	37	chr6	39563911	39563911	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccagtctttgcaactcgCtctgaaccagccaggtcaac	10	9	7	15	1	3	1	1	1	2	0	5	1	4	1	3	1	5	2	3	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:39563911C>A	uc003oot.2	-	7	860	c.765G>T	c.(763-765)GAG>GAT	p.E255D	KIF6_uc010jxa.1_Missense_Mutation_p.E46D|KIF6_uc011dua.1_Missense_Mutation_p.E255D|KIF6_uc010jxb.1_Missense_Mutation_p.E255D	NM_145027	NP_659464	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	255	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3						TTGCAACTCGCTCTGAACCAG	0.473													6	57					3.59834e-05	3.83694e-05	1	1	0		A	39563911	A	A	39563911	3	1	27	1	0	0	0	0	1	0	0	0	8324	796	28	5	1747	5	KIF6	6	39563911	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	611916	39563911	131551156	3121	25472											
KIF6	221458	broad.mit.edu	37	chr6	39563941	39563941	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaggtcaaccagatggagTttggcatgtcgtacagttgc	9	10	13	9	1	1	1	1	0	0	1	2	2	1	2	2	3	3	4	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:39563941T>C	uc003oot.2	-	7	830	c.735A>G	c.(733-735)AAA>AAG	p.K245K	KIF6_uc010jxa.1_Silent_p.K36K|KIF6_uc011dua.1_Silent_p.K245K|KIF6_uc010jxb.1_Silent_p.K245K	NM_145027	NP_659464	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	245	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3						CCAGATGGAGTTTGGCATGTC	0.468													5	54					0	0	1	0	0		C	39563941	C	C	39563941	2	2	27	1	0	0	0	0	0	0	0	1	8324	1722	60	3		3	KIF6	6	39563941	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	30	39563941	131551126	3122	25473											
DAAM2	23500	broad.mit.edu	37	chr6	39843127	39843127	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacggaacggtggctactTccagcagtggcagctcctgg	9	7	13	12	2	0	0	0	0	0	0	2	1	2	1	2	5	5	4	2	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:39843127T>A	uc003oow.2	+	11	1340	c.1184T>A	c.(1183-1185)TTC>TAC	p.F395Y	DAAM2_uc010jxc.2_Missense_Mutation_p.F395Y|DAAM2_uc003oox.2_Missense_Mutation_p.F395Y	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	395	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GGTGGCTACTTCCAGCAGTGG	0.582													4	104					0	0	1	0	0		A	39843127	A	A	39843127	3	1	27	1	0	0	0	0	1	0	0	0	4219	1783	62	5	1222	5	DAAM2	6	39843127	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	279186	39843127	131271940	3123	25474											
MOCS1	4337	broad.mit.edu	37	chr6	39877611	39877611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcttcctgcccacagcaGccccaatgattctcagcagc	8	9	7	17	0	2	1	1	1	2	0	4	1	3	1	4	0	5	3	4	0	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:39877611G>A	uc003opb.2	-	8	1208	c.1070C>T	c.(1069-1071)GCT>GTT	p.A357V	MOCS1_uc003opa.2_Missense_Mutation_p.A357V|MOCS1_uc003opc.2_Missense_Mutation_p.A357V|MOCS1_uc003opd.2_Missense_Mutation_p.A357V|MOCS1_uc003ope.2_Missense_Mutation_p.A270V	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	357	Molybdenum cofactor biosynthesis protein A.				Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding	p.A357V(1)		ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GCCCACAGCAGCCCCAATGAT	0.617													8	64					0	0	1	0	0		A	39877611	A	A	39877611	3	1	27	1	0	0	0	0	1	0	0	0	9708	971	34	2	95	2	MOCS1	6	39877611	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	34484	39877611	131237456	3124	25475											
MOCS1	4337	broad.mit.edu	37	chr6	39880039	39880039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagctgtgattcgcaggCggttgcaggtcccacagaaa	10	8	12	11	2	1	2	1	1	0	1	3	2	2	2	1	3	2	4	1	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:39880039C>T	uc003opb.2	-	7	1088	c.950G>A	c.(949-951)CGC>CAC	p.R317H	MOCS1_uc003opa.2_Missense_Mutation_p.R317H|MOCS1_uc003opc.2_Missense_Mutation_p.R317H|MOCS1_uc003opd.2_Missense_Mutation_p.R317H|MOCS1_uc003ope.2_Missense_Mutation_p.R230H	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	317	Molybdenum cofactor biosynthesis protein A.				Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding			ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GATTCGCAGGCGGTTGCAGGT	0.572													6	123					0	0	1	0	0		T	39880039	T	T	39880039	3	4	27	1	0	0	0	0	1	0	0	0	9708	768	27	1	219	1	MOCS1	6	39880039	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2428	39880039	131235028	3125	25476											
UNC5CL	222643	broad.mit.edu	37	chr6	40996189	40996189	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgggctgccgccgtgtgTcccactcaggtagttctgga	4	10	14	13	2	2	0	1	0	1	0	3	1	3	1	4	3	1	3	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:40996189T>A	uc003opi.2	-	9	1569	c.1480A>T	c.(1480-1482)ACA>TCA	p.T494S		NM_173561	NP_775832	Q8IV45	UN5CL_HUMAN	unc-5 homolog C-like	494	Death.|Cytoplasmic (Potential).				signal transduction	cytoplasm|integral to membrane				ovary(2)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					CCGCCGTGTGTCCCACTCAGG	0.687											OREG0017423	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	44					0	0	1	0	0		A	40996189	A	A	40996189	3	1	27	1	0	0	0	0	1	0	0	0	17020	1667	58	5	80	5	UNC5CL	6	40996189	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1116150	40996189	130118878	3126	25477											
MDFI	4188	broad.mit.edu	37	chr6	41613964	41613964	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccctggaggaggcggcaacCcccatgccccaaggcaatgg	9	4	13	15	1	0	0	0	0	0	0	1	2	1	2	5	6	2	2	5	6	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:41613964C>A	uc003oqp.3	+	4	506	c.177C>A	c.(175-177)ACC>ACA	p.T59T	MDFI_uc003oqq.3_Silent_p.T59T|MDFI_uc010jxn.2_Silent_p.T59T	NM_005586	NP_005577	Q99750	MDFI_HUMAN	MyoD family inhibitor	59					cytoplasmic sequestering of transcription factor|dorsal/ventral axis specification|negative regulation of DNA binding|negative regulation of transcription from RNA polymerase II promoter|negative regulation of Wnt receptor signaling pathway	cytoplasm|nucleus					0	Ovarian(28;0.0327)|Colorectal(47;0.121)		Colorectal(64;0.0123)|COAD - Colon adenocarcinoma(64;0.0264)|KIRC - Kidney renal clear cell carcinoma(1;0.138)			AGGCGGCAACCCCCATGCCCC	0.652													5	51					0.184627	0.185716	1	1	0		A	41613964	A	A	41613964	2	1	27	1	0	0	0	0	0	0	0	1	9422	610	22	5		5	MDFI	6	41613964	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	617775	41613964	129501103	3127	25478											
MDFI	4188	broad.mit.edu	37	chr6	41617445	41617445	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcggcaccagacgggcGgggaatggtgccctgggtgg	5	5	21	10	3	0	1	0	0	0	1	0	2	0	2	2	8	1	1	2	8	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:41617445G>T	uc003oqp.3	+	5	677	c.348G>T	c.(346-348)GCG>GCT	p.A116A	MDFI_uc003oqq.3_Silent_p.A116A|MDFI_uc010jxn.2_Silent_p.A116A	NM_005586	NP_005577	Q99750	MDFI_HUMAN	MyoD family inhibitor	116					cytoplasmic sequestering of transcription factor|dorsal/ventral axis specification|negative regulation of DNA binding|negative regulation of transcription from RNA polymerase II promoter|negative regulation of Wnt receptor signaling pathway	cytoplasm|nucleus					0	Ovarian(28;0.0327)|Colorectal(47;0.121)		Colorectal(64;0.0123)|COAD - Colon adenocarcinoma(64;0.0264)|KIRC - Kidney renal clear cell carcinoma(1;0.138)			CCAGACGGGCGGGGAATGGTG	0.642													21	146					1.40151e-16	1.56777e-16	1	1	0		T	41617445	T	T	41617445	2	4	27	1	0	0	0	0	0	0	0	1	9422	1103	39	5		5	MDFI	6	41617445	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3481	41617445	129497622	3128	25479											
FRS3	10817	broad.mit.edu	37	chr6	41738995	41738995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggtgcacttgggctgggCtggacactcagaaggggcct	7	8	17	9	0	1	1	1	0	0	1	1	2	1	2	1	6	1	4	1	6	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:41738995C>T	uc003orc.1	-	7	1085	c.841G>A	c.(841-843)GCC>ACC	p.A281T		NM_006653	NP_006644	O43559	FRS3_HUMAN	fibroblast growth factor receptor substrate 3	281					fibroblast growth factor receptor signaling pathway	plasma membrane	fibroblast growth factor receptor binding|insulin receptor binding			ovary(2)	2	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TTGGGCTGGGCTGGACACTCA	0.647													3	51					0	0	1	0	0		T	41738995	T	T	41738995	3	4	27	1	0	0	0	0	1	0	0	0	6076	797	28	2	641	2	FRS3	6	41738995	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	121550	41738995	129376072	3129	25480											
USP49	25862	broad.mit.edu	37	chr6	41773764	41773764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcgcatgcctcggccctgtCatttctcaaggacagctccg	6	10	9	16	3	2	0	2	0	1	0	6	1	3	1	3	2	2	2	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:41773764C>T	uc003ori.2	-	4	1180	c.958G>A	c.(958-960)GAC>AAC	p.D320N		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	320					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TCGGCCCTGTCATTTCTCAAG	0.567													11	65					0	0	1	0	0		T	41773764	T	T	41773764	3	4	27	1	0	0	0	0	1	0	0	0	17106	826	29	4	980	4	USP49	6	41773764	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	34769	41773764	129341303	3130	25481											
TRERF1	55809	broad.mit.edu	37	chr6	42225919	42225919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccctggggtgaccgtcaCgttgctgccatcgatgctgt	5	10	14	12	3	1	1	1	1	0	0	2	2	1	1	3	3	3	3	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:42225919C>T	uc003osd.2	-	10	2853	c.2290G>A	c.(2290-2292)GTG>ATG	p.V764M	TRERF1_uc011duq.1_Missense_Mutation_p.V681M|TRERF1_uc003osb.2_Missense_Mutation_p.V520M|TRERF1_uc003osc.2_Missense_Mutation_p.V520M|TRERF1_uc003ose.2_Missense_Mutation_p.V784M	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	764	Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GTGACCGTCACGTTGCTGCCA	0.438													6	61					0	0	1	0	0		T	42225919	T	T	42225919	3	4	27	1	0	0	0	0	1	0	0	0	16501	536	19	1	1348	1	TRERF1	6	42225919	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	452155	42225919	128889148	3131	25482											
UBR2	23304	broad.mit.edu	37	chr6	42562040	42562040	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgaaattgaggaagaaGaggtaaaaacattttcacaa	18	9	8	6	0	2	4	1	2	1	2	2	5	2	5	1	2	1	1	1	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:42562040G>T	uc011dur.1	+	4	529	c.529G>T	c.(529-531)GAG>TAG	p.E177*	UBR2_uc003osf.2_Nonsense_Mutation_p.E177*	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	177					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			TGAGGAAGAAGAGGTAAAAAC	0.358													9	112					7.48243e-07	8.13385e-07	1	1	0		T	42562040	T	T	42562040	4	4	27	1	0	0	0	0	0	1	0	0	16928	943	33	5	543	5	UBR2	6	42562040	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	336121	42562040	128553027	3132	25483											
UBR2	23304	broad.mit.edu	37	chr6	42603281	42603281	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaggactggtgtgcttcAgatgtgagtttcttctgggt	6	15	14	6	0	3	2	1	1	2	1	3	3	3	3	0	3	2	3	0	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:42603281A>G	uc011dur.1	+	14	1671	c.1671A>G	c.(1669-1671)TCA>TCG	p.S557S	UBR2_uc011dus.1_Silent_p.S202S|UBR2_uc010jxv.1_Silent_p.S61S|UBR2_uc003osh.2_RNA	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	557					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			GGTGTGCTTCAGATGTGAGTT	0.418													9	114					0	0	1	0	0		G	42603281	G	G	42603281	2	3	27	1	0	0	0	0	0	0	0	1	16928	175	7	3		3	UBR2	6	42603281	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	41241	42603281	128511786	3133	25484											
UBR2	23304	broad.mit.edu	37	chr6	42641876	42641876	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctgtagcactggtgcctaAtgacagccatgaggaacttc	11	10	10	10	0	1	2	0	2	1	0	2	3	1	3	2	2	4	2	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:42641876A>C	uc011dur.1	+	38	4196	c.4196A>C	c.(4195-4197)AAT>ACT	p.N1399T	UBR2_uc011dus.1_Missense_Mutation_p.N1044T|UBR2_uc003osh.2_RNA|UBR2_uc011dut.1_5'UTR	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	1399					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			CTGGTGCCTAATGACAGCCAT	0.333													22	104					0	0	1	0	0		C	42641876	C	C	42641876	3	2	27	1	0	0	0	0	1	0	0	0	16928	101	4	5	4492	5	UBR2	6	42641876	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	38595	42641876	128473191	3134	25485											
UBR2	23304	broad.mit.edu	37	chr6	42647508	42647508	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatgtagctatctttccctAccaaacaacctcatttgcct	10	15	3	13	0	2	0	1	0	1	0	3	0	3	0	4	0	5	2	4	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:42647508A>G	uc011dur.1	+	42	4656	c.4656A>G	c.(4654-4656)CTA>CTG	p.L1552L	UBR2_uc011dus.1_Silent_p.L1197L|UBR2_uc003osh.2_RNA|UBR2_uc011dut.1_Silent_p.L140L	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	1552					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			ATCTTTCCCTACCAAACAACC	0.323													4	66					0	0	1	0	0		G	42647508	G	G	42647508	2	3	27	1	0	0	0	0	0	0	0	1	16928	378	14	3		3	UBR2	6	42647508	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5632	42647508	128467559	3135	25486											
CUL7	9820	broad.mit.edu	37	chr6	43020464	43020464	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggatcagctcatcaggAtaggcatgtaagccgggccc	9	7	14	11	2	3	0	3	0	0	0	3	2	3	2	2	5	2	3	2	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43020464A>G	uc003otq.2	-	2	366	c.63T>C	c.(61-63)TAT>TAC	p.Y21Y	CUL7_uc011dvb.1_Silent_p.Y73Y|CUL7_uc010jyh.2_5'UTR|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	21					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GCTCATCAGGATAGGCATGTA	0.617													4	54					0	0	1	0	0		G	43020464	G	G	43020464	2	3	27	1	0	0	0	0	0	0	0	1	4063	340	12	3		3	CUL7	6	43020464	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	372956	43020464	128094603	3136	25487											
KLC4	89953	broad.mit.edu	37	chr6	43038134	43038134	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctgtgctctatggcaaaAggggcaagtacaaggaggca	12	7	15	7	0	1	0	0	0	1	0	1	1	1	1	0	6	2	6	0	6	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43038134A>G	uc003otv.1	+	7	999	c.922A>G	c.(922-924)AGG>GGG	p.R308G	KLC4_uc003otr.1_RNA|KLC4_uc011dvd.1_Missense_Mutation_p.R231G|KLC4_uc003otw.1_Missense_Mutation_p.R326G|KLC4_uc003otx.1_Missense_Mutation_p.R308G|KLC4_uc003oty.1_Missense_Mutation_p.R308G|KLC4_uc003otz.1_Missense_Mutation_p.R308G	NM_201521	NP_958929	Q9NSK0	KLC4_HUMAN	kinesin-like 8 isoform a	308	TPR 4.					cytoplasm|kinesin complex|microtubule	microtubule motor activity|protein binding			skin(3)|ovary(1)	4			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)			CTATGGCAAAAGGGGCAAGTA	0.532											OREG0017448	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	76					0	0	1	0	0		G	43038134	G	G	43038134	3	3	27	1	0	0	0	0	1	0	0	0	8352	63	3	3	1071	3	KLC4	6	43038134	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17670	43038134	128076933	3137	25488											
KLC4	89953	broad.mit.edu	37	chr6	43039057	43039057	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatatgctgaggctgagacActatacaaagagatcctgac	16	8	9	8	0	0	4	0	3	0	2	1	6	1	4	1	1	2	2	1	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43039057A>G	uc003otv.1	+	9	1277	c.1200A>G	c.(1198-1200)ACA>ACG	p.T400T	KLC4_uc003otr.1_RNA|KLC4_uc011dvd.1_Silent_p.T323T|KLC4_uc003otw.1_Silent_p.T418T|KLC4_uc003otx.1_Silent_p.T400T|KLC4_uc003oty.1_Silent_p.T400T|KLC4_uc003otz.1_Silent_p.T400T	NM_201521	NP_958929	Q9NSK0	KLC4_HUMAN	kinesin-like 8 isoform a	400	TPR 6.					cytoplasm|kinesin complex|microtubule	microtubule motor activity|protein binding			skin(3)|ovary(1)	4			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)			AGGCTGAGACACTATACAAAG	0.512													6	65					0	0	1	0	0		G	43039057	G	G	43039057	2	3	27	1	0	0	0	0	0	0	0	1	8352	146	6	3		3	KLC4	6	43039057	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	923	43039057	128076010	3138	25489											
CUL9	23113	broad.mit.edu	37	chr6	43155142	43155142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggacttgtgtgagcagcagCcaattttccagaatctttgg	9	13	11	8	0	1	2	0	1	1	1	2	3	2	3	2	2	3	2	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43155142C>T	uc003ouk.2	+	6	1621	c.1546C>T	c.(1546-1548)CCA>TCA	p.P516S	CUL9_uc003ouj.1_Intron|CUL9_uc003oul.2_Missense_Mutation_p.P516S|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_Intron	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	516					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TGAGCAGCAGCCAATTTTCCA	0.468													9	110					0	0	1	0	0		T	43155142	T	T	43155142	3	4	27	1	0	0	0	0	1	0	0	0	4064	739	26	2	1564	2	CUL9	6	43155142	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	116085	43155142	127959925	3139	25490											
CUL9	23113	broad.mit.edu	37	chr6	43155582	43155582	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactcccagatctacaccaaGtatgggctgctgtctaatga	12	10	8	11	0	2	2	0	1	2	1	3	2	3	2	2	1	3	3	2	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43155582G>A	uc003ouk.2	+	7	1788	c.1713G>A	c.(1711-1713)AAG>AAA	p.K571K	CUL9_uc003ouj.1_Silent_p.K461K|CUL9_uc003oul.2_Silent_p.K571K|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_Silent_p.K29K	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	571					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TCTACACCAAGTATGGGCTGC	0.527													5	60					0	0	1	0	0		A	43155582	A	A	43155582	2	1	27	1	0	0	0	0	0	0	0	1	4064	1020	36	4		4	CUL9	6	43155582	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	440	43155582	127959485	3140	25491											
CUL9	23113	broad.mit.edu	37	chr6	43168555	43168555	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacatcaccctgcacatgcaCcgtggtgttcttgttaggtg	7	13	10	11	1	2	0	1	0	1	0	2	0	2	0	2	2	3	4	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43168555C>T	uc003ouk.2	+	16	3705	c.3630C>T	c.(3628-3630)CAC>CAT	p.H1210H	CUL9_uc003oul.2_Silent_p.H1210H|CUL9_uc010jyk.2_Silent_p.H362H	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1210	DOC.				ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TGCACATGCACCGTGGTGTTC	0.552													9	69					0	0	1	0	0		T	43168555	T	T	43168555	2	4	27	1	0	0	0	0	0	0	0	1	4064	506	18	4		4	CUL9	6	43168555	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12973	43168555	127946512	3141	25492											
CUL9	23113	broad.mit.edu	37	chr6	43172842	43172842	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcagcagtccttcctcActgctgctcacgtgagtccc	5	11	9	16	1	2	1	2	1	0	0	5	1	5	1	3	0	5	5	3	0	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43172842A>G	uc003ouk.2	+	23	4696	c.4621A>G	c.(4621-4623)ACT>GCT	p.T1541A	CUL9_uc003oul.2_Missense_Mutation_p.T1541A|CUL9_uc010jyk.2_Missense_Mutation_p.T693A	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1541					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GTCCTTCCTCACTGCTGCTCA	0.597													7	53					0	0	1	0	0		G	43172842	G	G	43172842	3	3	27	1	0	0	0	0	1	0	0	0	4064	159	6	3	4707	3	CUL9	6	43172842	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4287	43172842	127942225	3142	25493											
TTBK1	84630	broad.mit.edu	37	chr6	43226815	43226815	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgcctggggacctgctccgGgagaacaccgaggatgtgct	7	7	16	11	2	0	1	0	0	0	1	1	5	1	3	4	4	4	2	4	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43226815G>A	uc003ouq.1	+	11	1335	c.1056G>A	c.(1054-1056)CGG>CGA	p.R352R		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	352						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			ACCTGCTCCGGGAGAACACCG	0.662													4	52					0	0	1	0	0		A	43226815	A	A	43226815	2	1	27	1	0	0	0	0	0	0	0	1	16702	1219	43	4		4	TTBK1	6	43226815	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	53973	43226815	127888252	3143	25494											
ABCC10	89845	broad.mit.edu	37	chr6	43406490	43406490	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacatttgatgcacagctgtAcaaggaggtgctagaagcct	12	9	12	8	0	0	2	0	1	0	1	0	4	0	3	1	2	5	4	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43406490A>G	uc003ouy.1	+	8	2299	c.2084A>G	c.(2083-2085)TAC>TGC	p.Y695C	ABCC10_uc003ouz.1_Missense_Mutation_p.Y667C|ABCC10_uc010jyo.1_5'UTR	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	695	ABC transporter 1.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			GCACAGCTGTACAAGGAGGTG	0.552													10	92					0	0	1	0	0		G	43406490	G	G	43406490	3	3	27	1	0	0	0	0	1	0	0	0	50	391	14	3	2022	3	ABCC10	6	43406490	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	179675	43406490	127708577	3144	25495											
DLK2	65989	broad.mit.edu	37	chr6	43418614	43418614	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggctggccccgtggcaggtAccactacagctgaggtgggc	6	6	17	12	1	0	1	0	1	0	0	0	1	0	1	3	6	3	4	3	6	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43418614A>G	uc003ova.2	-	6	1024	c.815T>C	c.(814-816)GTA>GCA	p.V272A	DLK2_uc003ovb.2_Missense_Mutation_p.V272A	NM_023932	NP_076421	Q6UY11	DLK2_HUMAN	EGF-like-domain, multiple 9 precursor	272	Extracellular (Potential).					integral to membrane	calcium ion binding				0	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CGTGGCAGGTACCACTACAGC	0.647													5	76					0	0	1	0	0		G	43418614	G	G	43418614	3	3	27	1	0	0	0	0	1	0	0	0	4571	391	14	3	340	3	DLK2	6	43418614	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	12124	43418614	127696453	3145	25496											
POLR1C	9533	broad.mit.edu	37	chr6	43488739	43488739	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaatcttccggaatgagaAgctaaagaaggttgtgaggc	15	8	13	5	1	1	4	0	2	1	3	2	6	2	5	1	3	1	2	1	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43488739A>T	uc003ovn.2	+	8	932	c.875A>T	c.(874-876)AAG>ATG	p.K292M	POLR1C_uc003ovo.1_Missense_Mutation_p.K292M	NM_203290	NP_976035	O15160	RPAC1_HUMAN	RNA polymerase I subunit isoform 1	292					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein dimerization activity				0	all_cancers(18;3.79e-05)|Lung NSC(15;0.00217)|all_lung(25;0.00536)		Colorectal(64;0.00245)|all cancers(41;0.00511)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0711)			CGGAATGAGAAGCTAAAGAAG	0.473													6	98					0	0	1	0	0		T	43488739	T	T	43488739	3	4	27	1	0	0	0	0	1	0	0	0	12230	72	3	5	905	5	POLR1C	6	43488739	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	70125	43488739	127626328	3146	25497											
XPO5	57510	broad.mit.edu	37	chr6	43541338	43541338	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctttaaactcctcacaaaActgaaagaagaaaagttagt	18	11	5	7	0	2	3	1	1	1	2	3	3	3	3	1	0	2	1	1	0	9	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43541338A>T	uc003ovp.2	-	2	317	c.106T>A	c.(106-108)TTT>ATT	p.F36I	POLH_uc010jyu.2_5'Flank|POLH_uc011dvl.1_5'Flank|POLH_uc003ovq.3_5'Flank	NM_020750	NP_065801	Q9HAV4	XPO5_HUMAN	exportin 5	36	Necessary for interaction with Ran.				gene silencing by RNA	cytosol|nucleoplasm	protein binding|tRNA binding			skin(2)|breast(1)|kidney(1)	4	all_cancers(18;2.08e-05)|Lung NSC(15;0.000907)|all_lung(25;0.00243)		all cancers(41;0.000321)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0524)			TCCTCACAAAACTGAAAGAAG	0.383													4	30					0	0	1	0	0		T	43541338	T	T	43541338	3	4	27	1	0	0	0	0	1	0	0	0	17473	57	2	5	3632	5	XPO5	6	43541338	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	52599	43541338	127573729	3147	25498											
POLH	5429	broad.mit.edu	37	chr6	43581998	43581998	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttccaaatctgtgctggagGtgactcagaaagcaacccca	12	8	9	12	0	2	2	1	1	1	1	3	3	3	3	3	2	3	2	3	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:43581998G>T	uc003ovq.3	+	11	2150	c.1846G>T	c.(1846-1848)GTG>TTG	p.V616L	POLH_uc010jyu.2_Missense_Mutation_p.V492L|POLH_uc011dvl.1_RNA|POLH_uc003ovr.3_Missense_Mutation_p.V517L	NM_006502	NP_006493	Q9Y253	POLH_HUMAN	DNA-directed DNA polymerase eta	616					DNA replication|DNA synthesis involved in DNA repair|regulation of DNA repair|response to UV-C	cytoplasm|nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			breast(2)	2	all_cancers(18;1.89e-05)|Lung NSC(15;0.00161)|all_lung(25;0.004)		all cancers(41;0.000753)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0826)|OV - Ovarian serous cystadenocarcinoma(102;0.167)			TGTGCTGGAGGTGACTCAGAA	0.517								DNA_polymerases_(catalytic_subunits)	Xeroderma_Pigmentosum				28	87					1.77063e-15	1.97744e-15	1	1	0		T	43581998	T	T	43581998	3	4	27	1	0	0	0	0	1	0	0	0	12221	1261	44	5	1884	5	POLH	6	43581998	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	40660	43581998	127533069	3148	25499											
TMEM63B	55362	broad.mit.edu	37	chr6	44121530	44121530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaaccaggtggtggccgCgcccatcctctgcctcttct	4	11	11	15	2	3	1	0	1	3	0	4	1	4	1	5	3	2	0	5	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:44121530C>T	uc003owr.2	+	21	2124	c.2060C>T	c.(2059-2061)GCG>GTG	p.A687V	TMEM63B_uc003ows.2_Missense_Mutation_p.A590V|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	687	Helical; (Potential).					integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			GTGGTGGCCGCGCCCATCCTC	0.612													16	70					0	0	1	0	0		T	44121530	T	T	44121530	3	4	27	1	0	0	0	0	1	0	0	0	16216	768	27	1	2138	1	TMEM63B	6	44121530	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	539532	44121530	126993537	3149	25500											
HSP90AB1	3326	broad.mit.edu	37	chr6	44216456	44216456	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcatgtccctcatcatcaaTaccttctattccaacaagga	12	12	3	14	0	5	0	4	0	1	0	7	1	7	1	3	1	2	0	3	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:44216456T>C	uc003oxa.1	+	2	174	c.90T>C	c.(88-90)AAT>AAC	p.N30N	HSP90AB1_uc011dvr.1_Silent_p.N30N|HSP90AB1_uc003oxb.1_Silent_p.N30N|HSP90AB1_uc011dvs.1_5'UTR|HSP90AB1_uc003oxc.1_5'Flank	NM_007355	NP_031381	P08238	HS90B_HUMAN	heat shock 90kDa protein 1, beta	30					axon guidance|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of nitric oxide biosynthetic process|protein folding|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to unfolded protein	cytosol|melanosome	ATP binding|nitric-oxide synthase regulator activity|TPR domain binding|unfolded protein binding			lung(3)|breast(1)	4	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TCATCATCAATACCTTCTATT	0.428													22	158					0	0	1	0	0		C	44216456	C	C	44216456	2	2	27	1	0	0	0	0	0	0	0	1	7418	1403	49	3		3	HSP90AB1	6	44216456	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	94926	44216456	126898611	3150	25501											
SLC35B2	347734	broad.mit.edu	37	chr6	44222795	44222795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccccctgttctagcagtgagCccactgtgaagaggcaggag	9	7	13	12	0	1	3	0	2	1	1	1	4	1	4	3	2	2	3	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:44222795C>T	uc003oxd.2	-	4	1083	c.947G>A	c.(946-948)GGC>GAC	p.G316D	SLC35B2_uc011dvt.1_Missense_Mutation_p.G219D|SLC35B2_uc011dvu.1_Missense_Mutation_p.G183D	NM_178148	NP_835361	Q8TB61	S35B2_HUMAN	solute carrier family 35, member B2	316	Helical; (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate transmembrane transporter activity|signal transducer activity			ovary(1)|central_nervous_system(1)	2	all_cancers(18;2e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TAGCAGTGAGCCCACTGTGAA	0.552													4	59					0	0	1	0	0		T	44222795	T	T	44222795	3	4	27	1	0	0	0	0	1	0	0	0	14601	739	26	2	355	2	SLC35B2	6	44222795	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6339	44222795	126892272	3151	25502											
AARS2	57505	broad.mit.edu	37	chr6	44271037	44271037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcacctcatccagagagcGcaggccagggacctgggcag	10	4	13	14	1	2	1	2	0	0	1	3	3	3	2	4	3	1	2	4	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:44271037G>A	uc010jza.1	-	15	2134	c.2131C>T	c.(2131-2133)CGC>TGC	p.R711C	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	711					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	TCCAGAGAGCGCAGGCCAGGG	0.617													4	43					0	0	1	0	0		A	44271037	A	A	44271037	3	1	27	1	0	0	0	0	1	0	0	0	20	1087	38	1	858	1	AARS2	6	44271037	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	48242	44271037	126844030	3152	25503											
AARS2	57505	broad.mit.edu	37	chr6	44279148	44279148	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagctcagccagatgtccCtggtctccaggtctgggtcc	6	10	11	14	0	3	1	1	0	2	1	6	1	5	1	4	3	2	1	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:44279148C>A	uc010jza.1	-	3	563	c.560G>T	c.(559-561)AGG>ATG	p.R187M	SPATS1_uc003oxg.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	187					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	CCAGATGTCCCTGGTCTCCAG	0.552													8	90					0.307466	0.308564	1	1	0		A	44279148	A	A	44279148	3	1	27	1	0	0	0	0	1	0	0	0	20	681	24	5	2477	5	AARS2	6	44279148	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8111	44279148	126835919	3153	25504											
SPATS1	221409	broad.mit.edu	37	chr6	44320601	44320601	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcctccccagagtgtctgCttacgtagagtaagtaaggg	9	10	13	9	1	1	2	0	0	1	2	2	2	2	2	3	2	2	4	3	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:44320601C>A	uc003oxk.2	+	2	625	c.278C>A	c.(277-279)GCT>GAT	p.A93D	SPATS1_uc003oxg.2_RNA|SPATS1_uc010jzb.2_5'UTR	NM_145026	NP_659463	Q496A3	SPAS1_HUMAN	spermatogenesis associated, serine-rich 1	93										skin(1)	1	all_lung(25;0.00469)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			AGAGTGTCTGCTTACGTAGAG	0.473													7	47					0.000157383	0.000166242	1	1	0		A	44320601	A	A	44320601	3	1	27	1	0	0	0	0	1	0	0	0	15043	797	28	5	284	5	SPATS1	6	44320601	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	41453	44320601	126794466	3154	25505											
CDC5L	988	broad.mit.edu	37	chr6	44371587	44371587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaagagaacttcgagcagCtggcatagaaattcagaaga	18	6	11	6	1	1	5	1	0	0	5	2	7	1	5	0	1	3	3	0	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:44371587C>T	uc003oxl.2	+	6	840	c.581C>T	c.(580-582)GCT>GTT	p.A194V		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	194	Potential.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CTTCGAGCAGCTGGCATAGAA	0.373													11	73					0	0	1	0	0		T	44371587	T	T	44371587	3	4	27	1	0	0	0	0	1	0	0	0	3085	797	28	2	603	2	CDC5L	6	44371587	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	50986	44371587	126743480	3155	25506											
RUNX2	860	broad.mit.edu	37	chr6	45514701	45514701	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccagtcacctcaggcatgTccctcggtatgtccgccacc	6	8	9	18	3	2	0	2	0	0	0	5	0	4	0	6	2	0	2	6	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:45514701T>C	uc011dvx.1	+	9	1435	c.1225T>C	c.(1225-1227)TCC>CCC	p.S409P	RUNX2_uc011dvy.1_Missense_Mutation_p.S387P|RUNX2_uc003oxt.2_Missense_Mutation_p.S395P	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	409	Interaction with MYST3 (By similarity).|Pro/Ser/Thr-rich.|Interaction with MYST4.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						CTCAGGCATGTCCCTCGGTAT	0.587													3	66					0	0	1	0	0		C	45514701	C	C	45514701	3	2	27	1	0	0	0	0	1	0	0	0	13773	1667	58	3	1271	3	RUNX2	6	45514701	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1143114	45514701	125600366	3156	25507											
CLIC5	53405	broad.mit.edu	37	chr6	45917038	45917038	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaactcctcgatcttattgAcgtctgtcttcacgtccccg	6	13	8	14	4	4	1	1	1	3	0	7	3	6	2	3	1	1	0	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:45917038A>T	uc003oxv.3	-	3	837	c.731T>A	c.(730-732)GTC>GAC	p.V244D	CLIC5_uc003oxu.3_Missense_Mutation_p.V85D|CLIC5_uc003oxx.2_Missense_Mutation_p.V85D	NM_001114086	NP_001107558	Q9NZA1	CLIC5_HUMAN	chloride intracellular channel 5 isoform a	244					female pregnancy	actin cytoskeleton|cell cortex|chloride channel complex|Golgi apparatus|Golgi apparatus|insoluble fraction|microtubule organizing center	protein binding|voltage-gated chloride channel activity			ovary(1)|skin(1)	2						GATCTTATTGACGTCTGTCTT	0.537													11	150					0	0	1	0	0		T	45917038	T	T	45917038	3	4	27	1	0	0	0	0	1	0	0	0	3532	275	10	5	517	5	CLIC5	6	45917038	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	402337	45917038	125198029	3157	25508											
ENPP5	59084	broad.mit.edu	37	chr6	46129477	46129477	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgctaacgcattatcgtaAccgtggttgcctactgtaaa	10	13	8	10	3	1	0	0	0	1	0	2	0	1	0	2	1	5	5	2	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:46129477A>T	uc003oxz.1	-	4	1228	c.1020T>A	c.(1018-1020)GGT>GGA	p.G340G	ENPP5_uc003oya.1_Silent_p.G340G|ENPP5_uc011dvz.1_Silent_p.G246G|ENPP5_uc010jzc.1_Missense_Mutation_p.L342I	NM_021572	NP_067547	Q9UJA9	ENPP5_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	340						extracellular region|integral to membrane	hydrolase activity				0						CATTATCGTAACCGTGGTTGC	0.358													17	266					0	0	1	0	0		T	46129477	T	T	46129477	2	4	27	1	0	0	0	0	0	0	0	1	5141	30	2	5		5	ENPP5	6	46129477	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	212439	46129477	124985590	3158	25509											
TDRD6	221400	broad.mit.edu	37	chr6	46658498	46658498	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttctgaaggttaaggcacAggcttttaggtgcagtcttt	9	15	11	6	0	2	1	0	1	2	0	2	1	2	1	0	4	1	4	0	4	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:46658498A>G	uc003oyj.2	+	1	2633	c.2633A>G	c.(2632-2634)CAG>CGG	p.Q878R	TDRD6_uc010jze.2_Missense_Mutation_p.Q872R	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	878					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			GTTAAGGCACAGGCTTTTAGG	0.338													6	118					0	0	1	0	0		G	46658498	G	G	46658498	3	3	27	1	0	0	0	0	1	0	0	0	15759	188	7	3	2635	3	TDRD6	6	46658498	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	529021	46658498	124456569	3159	25510											
TDRD6	221400	broad.mit.edu	37	chr6	46658994	46658994	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaccttgtgccttgccaaGtatactgatggaaactggta	11	11	11	8	0	0	1	0	1	0	0	0	3	0	3	3	3	5	2	3	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:46658994G>T	uc003oyj.2	+	1	3129	c.3129G>T	c.(3127-3129)AAG>AAT	p.K1043N	TDRD6_uc010jze.2_Missense_Mutation_p.K1037N	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1043	Tudor 5.				cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			GCCTTGCCAAGTATACTGATG	0.343													9	105					1.58986e-06	1.72494e-06	1	1	0		T	46658994	T	T	46658994	3	4	27	1	0	0	0	0	1	0	0	0	15759	1020	36	5	3131	5	TDRD6	6	46658994	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	496	46658994	124456073	3160	25511											
MEP1A	4224	broad.mit.edu	37	chr6	46806859	46806859	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcgccatcctttcccaaAggccaaggaagtgacctgcc	10	8	8	15	1	1	1	1	1	0	0	4	2	3	2	6	2	1	0	6	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:46806859A>G	uc010jzh.1	+	14	2269	c.2227A>G	c.(2227-2229)AGG>GGG	p.R743G	MEP1A_uc011dwg.1_Missense_Mutation_p.R465G|MEP1A_uc011dwh.1_Missense_Mutation_p.R771G|MEP1A_uc011dwi.1_Missense_Mutation_p.R643G	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	743	Cytoplasmic (Potential).				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			CCTTTCCCAAAGGCCAAGGAA	0.572													3	69					0	0	1	0	0		G	46806859	G	G	46806859	3	3	27	1	0	0	0	0	1	0	0	0	9493	63	3	3	2281	3	MEP1A	6	46806859	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	147865	46806859	124308208	3161	25512											
GPR116	221395	broad.mit.edu	37	chr6	46821794	46821794	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggttgcttctggggtggAaacattatacgttcctgaaa	9	13	12	7	1	1	1	0	1	1	0	2	2	2	2	1	4	3	4	1	4	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:46821794A>G	uc003oyo.3	-	21	4265	c.3976T>C	c.(3976-3978)TCC>CCC	p.S1326P	GPR116_uc011dwj.1_Missense_Mutation_p.S881P|GPR116_uc011dwk.1_3'UTR|GPR116_uc003oyp.3_Missense_Mutation_p.S1184P|GPR116_uc003oyq.3_Missense_Mutation_p.S1326P	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	1326	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			TCTGGGGTGGAAACATTATAC	0.507													6	178					0	0	1	0	0		G	46821794	G	G	46821794	3	3	27	1	0	0	0	0	1	0	0	0	6648	246	9	3	68	3	GPR116	6	46821794	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14935	46821794	124293273	3162	25513											
GPR116	221395	broad.mit.edu	37	chr6	46827202	46827202	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtccattgctgttgtaaaAccttccaggtgttcaagacg	9	13	10	9	1	1	1	1	0	0	1	3	1	3	1	3	2	2	4	3	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:46827202A>C	uc003oyo.3	-	17	2727	c.2438T>G	c.(2437-2439)GTT>GGT	p.V813G	GPR116_uc011dwj.1_Missense_Mutation_p.V368G|GPR116_uc011dwk.1_Missense_Mutation_p.V242G|GPR116_uc003oyp.3_Missense_Mutation_p.V671G|GPR116_uc003oyq.3_Missense_Mutation_p.V813G|GPR116_uc010jzi.1_Missense_Mutation_p.V485G	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	813	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			CTGTTGTAAAACCTTCCAGGT	0.448													5	48					0	0	1	0	0		C	46827202	C	C	46827202	3	2	27	1	0	0	0	0	1	0	0	0	6648	43	2	5	1622	5	GPR116	6	46827202	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5408	46827202	124287865	3163	25514											
GPR116	221395	broad.mit.edu	37	chr6	46851907	46851907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgccctgggaggaagaCgtcacgctcttgacaaatga	11	8	13	9	2	2	3	1	2	1	1	2	5	2	5	1	3	1	1	1	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:46851907C>T	uc003oyo.3	-	5	719	c.430G>A	c.(430-432)GTC>ATC	p.V144I	GPR116_uc003oyp.3_Missense_Mutation_p.V144I|GPR116_uc003oyq.3_Missense_Mutation_p.V144I|GPR116_uc003oyr.2_Missense_Mutation_p.V144I	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	144	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			GGGAGGAAGACGTCACGCTCT	0.502													25	100					0	0	1	0	0		T	46851907	T	T	46851907	3	4	27	1	0	0	0	0	1	0	0	0	6648	536	19	1	3678	1	GPR116	6	46851907	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	24705	46851907	124263160	3164	25515											
GPR110	266977	broad.mit.edu	37	chr6	46977420	46977420	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cataggtgatccattttacaAcggggaagattgtagagggg	12	10	14	5	1	0	3	0	1	0	2	1	4	1	4	1	5	2	1	1	5	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:46977420A>G	uc003oyt.2	-	11	1950	c.1751T>C	c.(1750-1752)GTT>GCT	p.V584A	GPR110_uc011dwl.1_Missense_Mutation_p.V272A	NM_153840	NP_722582	Q5T601	GP110_HUMAN	G-protein coupled receptor 110 isoform 1	584	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|pancreas(1)	3						CCATTTTACAACGGGGAAGAT	0.428													11	85					0	0	1	0	0		G	46977420	G	G	46977420	3	3	27	1	0	0	0	0	1	0	0	0	6642	43	2	3	1001	3	GPR110	6	46977420	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	125513	46977420	124137647	3165	25516											
TNFRSF21	27242	broad.mit.edu	37	chr6	47254265	47254265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcacggtcaacatggcGgtatgtgccaatgagattcg	9	9	15	8	3	1	1	1	1	0	1	2	2	1	1	1	5	2	2	1	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:47254265G>A	uc003oyv.2	-	2	596	c.163C>T	c.(163-165)CGC>TGC	p.R55C		NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,	55	Extracellular (Potential).|TNFR-Cys 1.				cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)			TCAACATGGCGGTATGTGCCA	0.532													4	57					0	0	1	0	0		A	47254265	A	A	47254265	3	1	27	1	0	0	0	0	1	0	0	0	16320	1116	39	1	1824	1	TNFRSF21	6	47254265	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	276845	47254265	123860802	3166	25517											
GPR115	221393	broad.mit.edu	37	chr6	47675983	47675983	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagataaacttcaaagcccTgaagggaaacccaagactgg	16	5	11	9	0	1	3	1	1	0	2	1	5	1	4	2	3	3	0	2	3	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:47675983T>C	uc003oza.1	+	3	375	c.117T>C	c.(115-117)CCT>CCC	p.P39P	GPR115_uc003oyz.1_Silent_p.P96P|GPR115_uc003ozb.1_Silent_p.P37P	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	39	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						TTCAAAGCCCTGAAGGGAAAC	0.448													3	32					0	0	1	0	0		C	47675983	C	C	47675983	2	2	27	1	0	0	0	0	0	0	0	1	6647	1567	55	3		3	GPR115	6	47675983	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	421718	47675983	123439084	3167	25518											
CRISP2	7180	broad.mit.edu	37	chr6	49676859	49676859	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacctttccttctgcaggTaaagatggaagcagcacagt	11	11	9	10	0	1	1	0	0	1	1	2	2	2	2	2	2	4	4	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:49676859T>C	uc003ozq.2	-	4	307	c.51A>G	c.(49-51)TTA>TTG	p.L17L	CRISP2_uc003ozl.2_Silent_p.L17L|CRISP2_uc003ozn.2_Silent_p.L17L|CRISP2_uc003ozr.2_Silent_p.L17L|CRISP2_uc003ozo.2_Silent_p.L17L|CRISP2_uc003ozm.2_Silent_p.L17L|CRISP2_uc003ozp.2_Silent_p.L17L	NM_001142408	NP_001135880	P16562	CRIS2_HUMAN	cysteine-rich secretory protein 2 precursor	17						extracellular space				skin(1)	1	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			CTTCTGCAGGTAAAGATGGAA	0.403													7	81					0	0	1	0	0		C	49676859	C	C	49676859	2	2	27	1	0	0	0	0	0	0	0	1	3883	1635	57	3		3	CRISP2	6	49676859	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2000876	49676859	121438208	3168	25519											
TFAP2D	83741	broad.mit.edu	37	chr6	50681799	50681799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctttccgggactagtccacGatgccgaggtattattactt	8	13	9	11	3	0	0	0	0	0	0	2	3	2	1	4	2	2	1	4	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:50681799G>A	uc003paf.2	+	1	543	c.31G>A	c.(31-33)GAT>AAT	p.D11N	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	11							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					ACTAGTCCACGATGCCGAGGT	0.323													8	70					0	0	1	0	0		A	50681799	A	A	50681799	3	1	27	1	0	0	0	0	1	0	0	0	15815	1058	37	1	33	1	TFAP2D	6	50681799	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1004940	50681799	120433268	3169	25520											
TFAP2B	7021	broad.mit.edu	37	chr6	50796364	50796364	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaataacagcggcatgaaTctattggaccagtctgtcat	12	10	9	10	1	3	1	1	1	2	0	3	2	3	2	2	2	2	1	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:50796364T>A	uc003pag.2	+	3	739	c.573T>A	c.(571-573)AAT>AAA	p.N191K		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	191					nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					GCGGCATGAATCTATTGGACC	0.333													9	90					0	0	1	0	0		A	50796364	A	A	50796364	3	1	27	1	0	0	0	0	1	0	0	0	15813	1432	50	5	583	5	TFAP2B	6	50796364	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	114565	50796364	120318703	3170	25521											
PKHD1	5314	broad.mit.edu	37	chr6	51619589	51619589	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accaaagccttaccaatatgCcggtgtttgagccgttcata	11	11	8	11	2	1	1	1	1	0	0	1	1	1	1	5	1	4	2	5	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:51619589C>T	uc003pah.1	-	56	9066	c.8790G>A	c.(8788-8790)CGG>CGA	p.R2930R	PKHD1_uc010jzn.1_Silent_p.R913R|PKHD1_uc003pai.2_Silent_p.R2930R	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2930	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TACCAATATGCCGGTGTTTGA	0.478													4	64					0	0	1	0	0		T	51619589	T	T	51619589	2	4	27	1	0	0	0	0	0	0	0	1	11990	726	26	2		2	PKHD1	6	51619589	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	823225	51619589	119495478	3171	25522											
PKHD1	5314	broad.mit.edu	37	chr6	51897950	51897950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacagtcacattcacaatgCgtccatctttcccctgaaaa	12	11	4	14	1	4	1	3	1	1	0	6	1	6	1	3	0	1	0	3	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:51897950C>T	uc003pah.1	-	29	3518	c.3242G>A	c.(3241-3243)CGC>CAC	p.R1081H	PKHD1_uc003pai.2_Missense_Mutation_p.R1081H	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1081	IPT/TIG 5.|Extracellular (Potential).		R -> C (in a colorectal cancer sample; somatic mutation).		cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity	p.R1081C(1)		lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					ATTCACAATGCGTCCATCTTT	0.363													6	54					0	0	1	0	0		T	51897950	T	T	51897950	3	4	27	1	0	0	0	0	1	0	0	0	11990	768	27	1	9177	1	PKHD1	6	51897950	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	278361	51897950	119217117	3172	25523											
ELOVL5	60481	broad.mit.edu	37	chr6	53134010	53134010	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cattcacagcagccatggacCcattctggtggtccttcagg	8	10	10	13	0	3	0	2	0	1	0	4	1	4	1	3	4	2	1	3	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:53134010C>A	uc003pbq.1	-	8	1263	c.815G>T	c.(814-816)GGG>GTG	p.G272V	ELOVL5_uc003pbr.1_Missense_Mutation_p.G272V|ELOVL5_uc011dwx.1_Missense_Mutation_p.G299V|ELOVL5_uc003pbs.1_Missense_Mutation_p.W230C	NM_021814	NP_068586	Q9NYP7	ELOV5_HUMAN	elongation of very long chain fatty acids-like	272					fatty acid elongation, monounsaturated fatty acid|fatty acid elongation, polyunsaturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding				0	Lung NSC(77;0.116)					AGCCATGGACCCATTCTGGTG	0.478													15	82					2.32078e-09	2.56161e-09	1	1	0		A	53134010	A	A	53134010	3	1	27	1	0	0	0	0	1	0	0	0	5085	623	22	5	88	5	ELOVL5	6	53134010	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1236060	53134010	117981057	3173	25524											
KLHL31	401265	broad.mit.edu	37	chr6	53519830	53519830	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaacatcaaaggatttggTtttggtaccaatgactaagt	14	13	9	5	0	1	2	1	2	0	0	1	3	1	3	1	3	2	2	1	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:53519830T>G	uc003pcb.3	-	2	382	c.241A>C	c.(241-243)ACC>CCC	p.T81P		NM_001003760	NP_001003760	Q9H511	KLH31_HUMAN	kelch repeat and BTB (POZ) domain containing 1	81	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent					ovary(1)	1	Lung NSC(77;0.0158)					AAGGATTTGGTTTTGGTACCA	0.403													10	93					0	0	1	0	0		G	53519830	G	G	53519830	3	3	27	1	0	0	0	0	1	0	0	0	8401	1725	60	5	1671	5	KLHL31	6	53519830	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	385820	53519830	117595237	3174	25525											
LRRC1	55227	broad.mit.edu	37	chr6	53784454	53784454	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcctcagctgccttctgAacctacttgtcaaggtgaat	9	13	7	12	0	3	2	2	2	1	0	4	2	4	2	3	1	4	1	3	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:53784454A>C	uc003pcd.1	+	12	1542	c.1265A>C	c.(1264-1266)GAA>GCA	p.E422A		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	422						cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		CTGCCTTCTGAACCTACTTGT	0.463													7	97					0	0	1	0	0		C	53784454	C	C	53784454	3	2	27	1	0	0	0	0	1	0	0	0	8984	246	9	5	1311	5	LRRC1	6	53784454	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	264624	53784454	117330613	3175	25526											
C6orf142	90523	broad.mit.edu	37	chr6	53989479	53989479	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggggaagatgaggctgcaaGcagaaaagttgaacaaggcc	16	4	15	6	0	0	4	0	2	0	2	0	5	0	5	1	4	3	4	1	4	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:53989479G>A	uc003pcg.3	+	3	541	c.428G>A	c.(427-429)AGC>AAC	p.S143N	C6orf142_uc003pcf.2_Missense_Mutation_p.S143N|C6orf142_uc003pch.3_Missense_Mutation_p.S81N|C6orf142_uc011dwz.1_Missense_Mutation_p.S102N|C6orf142_uc011dxa.1_Missense_Mutation_p.S154N	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523	143						nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					GAGGCTGCAAGCAGAAAAGTT	0.517													9	75					0	0	1	0	0		A	53989479	A	A	53989479	3	1	27	1	0	0	0	0	1	0	0	0	2336	971	34	2	438	2	C6orf142	6	53989479	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	205025	53989479	117125588	3176	25527											
FAM83B	222584	broad.mit.edu	37	chr6	54806068	54806068	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagttaagggttccccaagtTttttgaaaaaggggtctcag	12	12	11	6	0	1	1	1	1	1	0	3	1	2	1	2	3	0	3	2	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:54806068T>G	uc003pck.2	+	5	2415	c.2299T>G	c.(2299-2301)TTT>GTT	p.F767V		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	767										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					TTCCCCAAGTTTTTTGAAAAA	0.353													7	65					0	0	1	0	0		G	54806068	G	G	54806068	3	3	27	1	0	0	0	0	1	0	0	0	5648	1841	64	5	2313	5	FAM83B	6	54806068	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	816589	54806068	116308999	3177	25528											
DST	667	broad.mit.edu	37	chr6	56354379	56354379	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgactcttctagccacTccataagtttactccaagct	9	15	4	13	0	3	1	0	1	3	0	5	1	5	1	3	0	3	2	3	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:56354379T>C	uc003pdf.2	-	80	14457	c.14429A>G	c.(14428-14430)GAG>GGG	p.E4810G	DST_uc003pcz.3_Missense_Mutation_p.E4632G|DST_uc011dxj.1_Missense_Mutation_p.E4661G|DST_uc011dxk.1_Missense_Mutation_p.E4672G|DST_uc003pcy.3_Missense_Mutation_p.E4306G|DST_uc003pda.3_Missense_Mutation_p.E2G	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6718	Spectrin 18.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TTCTAGCCACTCCATAAGTTT	0.358													45	121					0	0	1	0	0		C	56354379	C	C	56354379	3	2	27	1	0	0	0	0	1	0	0	0	4789	1551	54	3	2670	3	DST	6	56354379	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1548311	56354379	114760688	3178	25529											
DST	667	broad.mit.edu	37	chr6	56376047	56376049	+	In_Frame_Del	DEL	TCT	-	-																															ccacagcacgctttttgacaTcttctttaatttgactgtaa																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:56376047_56376049delTCT	uc003pdf.2	-	67	12397_12399	c.12369_12371delAGA	c.(12367-12372)GAAGAT>GAT	p.E4123del	DST_uc003pcz.3_In_Frame_Del_p.E3945del|DST_uc011dxj.1_In_Frame_Del_p.E3974del|DST_uc011dxk.1_In_Frame_Del_p.E3985del|DST_uc003pcy.3_In_Frame_Del_p.E3619del	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6031	Spectrin 11.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CTTTTTGACATCTTCTTTAATTT	0.433													7	12	---	---	---	---						.	-	56376049	-	-	56376047	7	5	27	1	0	1	0	1	0	0	0	0	4789	1435	50	0	4780	0	DST	6	56376047	In_Frame_Del	DEL	TCT	TCGA-BR-6452-01A-12D-1800-08	21668	56376047	114739020	3179	25530											
DST	667	broad.mit.edu	37	chr6	56417167	56417167	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggctcggtccagtaactTgttgcattgtttgcttaagg	6	16	12	7	1	0	0	0	0	0	0	2	0	1	0	1	3	3	6	1	3	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:56417167T>C	uc003pdf.2	-	55	10094	c.10066A>G	c.(10066-10068)AAG>GAG	p.K3356E	DST_uc003pcz.3_Missense_Mutation_p.K3178E|DST_uc011dxj.1_Missense_Mutation_p.K3207E|DST_uc011dxk.1_Missense_Mutation_p.K3218E|DST_uc003pcy.3_Missense_Mutation_p.K2852E	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5264					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TCCAGTAACTTGTTGCATTGT	0.428													10	71					0	0	1	0	0		C	56417167	C	C	56417167	3	2	27	1	0	0	0	0	1	0	0	0	4789	1821	63	3	7133	3	DST	6	56417167	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	41120	56417167	114697900	3180	25531											
DST	667	broad.mit.edu	37	chr6	56437713	56437713	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtttctttgtgtttatgActtgcttctgaaaaccgagc	9	16	9	7	1	2	3	0	2	2	1	2	4	2	3	1	0	3	3	1	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:56437713A>G	uc003pdf.2	-	46	7057	c.7029T>C	c.(7027-7029)AGT>AGC	p.S2343S	DST_uc003pcz.3_Silent_p.S2165S|DST_uc011dxj.1_Silent_p.S2194S|DST_uc011dxk.1_Silent_p.S2205S|DST_uc003pcy.3_Silent_p.S1839S|DST_uc010kaa.1_RNA	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	4251					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TGTGTTTATGACTTGCTTCTG	0.378													3	33					0	0	1	0	0		G	56437713	G	G	56437713	2	3	27	1	0	0	0	0	0	0	0	1	4789	272	10	3		3	DST	6	56437713	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20546	56437713	114677354	3181	25532											
DST	667	broad.mit.edu	37	chr6	56819348	56819348	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagggcacattggatgctgTagggtctcagcaagacgagg	11	7	16	7	1	1	2	1	0	1	2	2	4	1	3	0	4	2	4	0	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:56819348T>C	uc003pdf.2	-	1	66	c.38A>G	c.(37-39)TAC>TGC	p.Y13C	BEND6_uc010kab.2_5'Flank|BEND6_uc003pdg.2_5'Flank	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	Error:Variant_position_missing_in_Q03001_after_alignment					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TTGGATGCTGTAGGGTCTCAG	0.657													3	35					0	0	1	0	0		C	56819348	C	C	56819348	3	2	27	1	0	0	0	0	1	0	0	0	4789	1653	57	3		3	DST	6	56819348	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	381635	56819348	114295719	3182	25533											
BEND6	221336	broad.mit.edu	37	chr6	56880075	56880075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agattcatttgcctcaacatGcagtaattctaattctaact	13	15	4	9	0	4	1	2	0	2	1	4	1	4	1	1	0	4	2	1	0	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:56880075G>A	uc010kab.2	+	4	1029	c.443G>A	c.(442-444)TGC>TAC	p.C148Y	BEND6_uc003pdi.3_Missense_Mutation_p.C50Y	NM_152731	NP_689944	Q5SZJ8	BEND6_HUMAN	BEN domain containing 6	148											0						GCCTCAACATGCAGTAATTCT	0.473													9	78					0	0	1	0	0		A	56880075	A	A	56880075	3	1	27	1	0	0	0	0	1	0	0	0	1403	1319	46	2	453	2	BEND6	6	56880075	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	60727	56880075	114234992	3183	25534											
KIAA1586	57691	broad.mit.edu	37	chr6	56918985	56918985	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcaaacgtaccataagagCtttggaaaatttaaaaattg	18	11	7	5	1	1	1	1	0	0	1	1	3	1	2	1	1	3	2	1	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:56918985C>A	uc003pdj.2	+	4	1858	c.1688C>A	c.(1687-1689)GCT>GAT	p.A563D	KIAA1586_uc011dxm.1_Missense_Mutation_p.A536D	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	563							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			ACCATAAGAGCTTTGGAAAAT	0.269													3	30					0.004672	0.0048188	1	1	0		A	56918985	A	A	56918985	3	1	27	1	0	0	0	0	1	0	0	0	8261	797	28	5	1702	5	KIAA1586	6	56918985	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	38910	56918985	114196082	3184	25535											
ZNF451	26036	broad.mit.edu	37	chr6	57015643	57015643	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatctaaaccaaggaacatTtatttggggctttcaaggta	13	12	9	7	0	2	0	1	0	1	0	2	1	2	1	1	4	2	3	1	4	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:57015643T>C	uc003pdm.1	+	11	2959	c.2735T>C	c.(2734-2736)TTT>TCT	p.F912S	ZNF451_uc003pdl.2_Missense_Mutation_p.F912S|ZNF451_uc003pdn.1_Intron|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Missense_Mutation_p.F912S	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	912					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			CAAGGAACATTTATTTGGGGC	0.353													13	137					0	0	1	0	0		C	57015643	C	C	57015643	3	2	27	1	0	0	0	0	1	0	0	0	17947	1841	64	3	2777	3	ZNF451	6	57015643	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	96658	57015643	114099424	3185	25536											
LGSN	51557	broad.mit.edu	37	chr6	63990621	63990621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagggtaaatgcattatcagCtgagctaatgccaaattcag	14	10	10	7	0	2	1	2	1	0	0	2	2	2	1	1	1	4	4	1	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:63990621C>T	uc003peh.2	-	4	869	c.835G>A	c.(835-837)GCT>ACT	p.A279T	LGSN_uc003pei.2_Intron	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	279					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	GCATTATCAGCTGAGCTAATG	0.438													4	50					0	0	1	0	0		T	63990621	T	T	63990621	3	4	27	1	0	0	0	0	1	0	0	0	8775	797	28	2	698	2	LGSN	6	63990621	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6974978	63990621	107124446	3186	25537											
LGSN	51557	broad.mit.edu	37	chr6	63995646	63995646	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcaaaatttgactgctgTccctcatgcaatctgcaaaa	12	11	8	10	0	3	1	2	1	1	0	4	1	4	1	1	1	3	3	1	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:63995646T>C	uc003peh.2	-	3	210	c.176A>G	c.(175-177)GAC>GGC	p.D59G	LGSN_uc003pei.2_Missense_Mutation_p.D59G|LGSN_uc003pej.1_Intron	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	59					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	TTGACTGCTGTCCCTCATGCA	0.403													3	34					0	0	1	0	0		C	63995646	C	C	63995646	3	2	27	1	0	0	0	0	1	0	0	0	8775	1667	58	3	1361	3	LGSN	6	63995646	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5025	63995646	107119421	3187	25538											
PTP4A1	7803	broad.mit.edu	37	chr6	64286857	64286857	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatttcttattacacacaaTccaaccaatgcgaccttaaa	16	11	3	11	1	1	1	0	0	1	1	2	2	2	1	3	0	3	0	3	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:64286857T>A	uc003pek.2	+	4	1058	c.72T>A	c.(70-72)AAT>AAA	p.N24K	PTP4A1_uc003pel.2_Missense_Mutation_p.N24K	NM_003463	NP_003454	Q93096	TP4A1_HUMAN	protein tyrosine phosphatase type IVA, member 1	24					cell cycle|multicellular organismal development	early endosome|endoplasmic reticulum|internal side of plasma membrane|spindle	protein binding|protein tyrosine phosphatase activity				0	all_cancers(3;0.071)|all_epithelial(2;0.0146)|Lung NSC(77;0.175)		Epithelial(2;0.0365)|LUSC - Lung squamous cell carcinoma(74;0.0644)|all cancers(2;0.112)|Lung(124;0.13)			TTACACACAATCCAACCAATG	0.338													4	61					0	0	1	0	0		A	64286857	A	A	64286857	3	1	27	1	0	0	0	0	1	0	0	0	12793	1432	50	5	74	5	PTP4A1	6	64286857	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	291211	64286857	106828210	3188	25539											
PTP4A1	7803	broad.mit.edu	37	chr6	64288363	64288363	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacttaagaagtatggagttAccacaatagtaagagtatgt	17	11	9	4	0	0	2	0	0	0	2	0	3	0	3	1	1	2	4	1	1	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:64288363A>G	uc003pek.2	+	5	1113	c.127A>G	c.(127-129)ACC>GCC	p.T43A	PTP4A1_uc003pel.2_Missense_Mutation_p.T43A	NM_003463	NP_003454	Q93096	TP4A1_HUMAN	protein tyrosine phosphatase type IVA, member 1	43					cell cycle|multicellular organismal development	early endosome|endoplasmic reticulum|internal side of plasma membrane|spindle	protein binding|protein tyrosine phosphatase activity				0	all_cancers(3;0.071)|all_epithelial(2;0.0146)|Lung NSC(77;0.175)		Epithelial(2;0.0365)|LUSC - Lung squamous cell carcinoma(74;0.0644)|all cancers(2;0.112)|Lung(124;0.13)			GTATGGAGTTACCACAATAGT	0.313													3	72					0	0	1	0	0		G	64288363	G	G	64288363	3	3	27	1	0	0	0	0	1	0	0	0	12793	391	14	3	133	3	PTP4A1	6	64288363	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1506	64288363	106826704	3189	25540											
PHF3	23469	broad.mit.edu	37	chr6	64422823	64422823	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatttccttctaaaagcaTcacctttacttccagaagca	14	12	4	11	0	2	2	1	0	1	2	4	2	4	2	3	0	3	2	3	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:64422823T>A	uc003pep.1	+	15	5365	c.5339T>A	c.(5338-5340)ATC>AAC	p.I1780N	PHF3_uc003pen.2_Missense_Mutation_p.I1692N|PHF3_uc011dxs.1_Missense_Mutation_p.I1049N	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	1780					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			TCTAAAAGCATCACCTTTACT	0.453													9	99					0	0	1	0	0		A	64422823	A	A	64422823	3	1	27	1	0	0	0	0	1	0	0	0	11855	1435	50	5	5397	5	PHF3	6	64422823	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	134460	64422823	106692244	3190	25541											
EYS	346007	broad.mit.edu	37	chr6	66115115	66115115	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctgacatggtactaatgaAaactcactgacatcagtttc	13	13	6	9	0	3	3	2	3	1	0	4	3	3	3	0	1	2	2	0	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:66115115A>G	uc011dxu.1	-	6	1546	c.1008T>C	c.(1006-1008)TTT>TTC	p.F336F	EYS_uc003peq.2_Silent_p.F336F|EYS_uc003per.1_Silent_p.F336F	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	336	EGF-like 4.				response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						GTACTAATGAAAACTCACTGA	0.333													7	119					0	0	1	0	0		G	66115115	G	G	66115115	2	3	27	1	0	0	0	0	0	0	0	1	5340	11	1	3		3	EYS	6	66115115	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1692292	66115115	104999952	3191	25542											
BAI3	577	broad.mit.edu	37	chr6	69703697	69703697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggggcagcgaatgctggCaggtgatggaatgtcccagg	10	7	17	7	1	0	1	0	1	0	0	1	3	1	2	1	6	2	3	1	6	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:69703697C>T	uc003pev.3	+	11	2220	c.1772C>T	c.(1771-1773)GCA>GTA	p.A591V	BAI3_uc010kak.2_Missense_Mutation_p.A591V	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	591	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				CGAATGCTGGCAGGTGATGGA	0.423													49	172					0	0	1	0	0		T	69703697	T	T	69703697	3	4	27	1	0	0	0	0	1	0	0	0	1301	710	25	2	1806	2	BAI3	6	69703697	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3588582	69703697	101411370	3192	25543											
BAI3	577	broad.mit.edu	37	chr6	69758078	69758078	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attatttcttttttaatagtGgctagtattcagaagcttcc	10	19	6	6	0	2	1	1	0	1	1	3	1	3	1	1	1	1	3	1	1	6	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:69758078G>C	uc003pev.3	+	14	2557	c.2109G>C	c.(2107-2109)GTG>GTC	p.V703V	BAI3_uc010kak.2_Silent_p.V703V	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	703	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TTTTAATAGTGGCTAGTATTC	0.338													8	76					0	0	1	0	0		C	69758078	C	C	69758078	2	2	27	1	0	0	0	0	0	0	0	1	1301	1362	47	5		5	BAI3	6	69758078	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	54381	69758078	101356989	3193	25544											
BAI3	577	broad.mit.edu	37	chr6	70064145	70064145	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttcaggatgcatttagatgCcgattgagaaactgtcagga	12	11	12	6	1	2	2	2	1	0	2	2	6	2	4	1	2	3	2	1	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:70064145C>T	uc003pev.3	+	27	3928	c.3480C>T	c.(3478-3480)TGC>TGT	p.C1160C	BAI3_uc010kak.2_Silent_p.C1160C|BAI3_uc011dxx.1_Silent_p.C366C	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1160	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				CATTTAGATGCCGATTGAGAA	0.418													9	118					0	0	1	0	0		T	70064145	T	T	70064145	2	4	27	1	0	0	0	0	0	0	0	1	1301	747	26	2		2	BAI3	6	70064145	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	306067	70064145	101050922	3194	25545											
LMBRD1	55788	broad.mit.edu	37	chr6	70409017	70409017	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctagtgtgaaggacaataAgcagaagtatcatgcagaga	17	7	12	5	0	1	3	1	1	0	2	1	5	1	4	0	1	3	4	0	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:70409017A>G	uc003pfa.2	-	13	1371	c.1256T>C	c.(1255-1257)CTT>CCT	p.L419P	LMBRD1_uc003pey.2_Missense_Mutation_p.L215P|LMBRD1_uc003pez.2_Missense_Mutation_p.L346P|LMBRD1_uc010kal.2_Missense_Mutation_p.L346P|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	419	Helical; Name=8; (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						AAGGACAATAAGCAGAAGTAT	0.353													4	87					0	0	1	0	0		G	70409017	G	G	70409017	3	3	27	1	0	0	0	0	1	0	0	0	8859	72	3	3	382	3	LMBRD1	6	70409017	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	344872	70409017	100706050	3195	25546											
LMBRD1	55788	broad.mit.edu	37	chr6	70428954	70428954	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttatcagatttaaaggtAacgcagacatgccataggcc	13	11	8	9	1	1	2	1	0	0	2	1	2	1	2	2	2	2	2	2	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:70428954A>G	uc003pfa.2	-	8	771	c.656T>C	c.(655-657)TTA>TCA	p.L219S	LMBRD1_uc003pey.2_Missense_Mutation_p.L15S|LMBRD1_uc003pez.2_Missense_Mutation_p.L146S|LMBRD1_uc010kal.2_Missense_Mutation_p.L146S|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	219	Cytoplasmic (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						ATTTAAAGGTAACGCAGACAT	0.303													9	48					0	0	1	0	0		G	70428954	G	G	70428954	3	3	27	1	0	0	0	0	1	0	0	0	8859	372	13	3	1002	3	LMBRD1	6	70428954	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19937	70428954	100686113	3196	25547											
LMBRD1	55788	broad.mit.edu	37	chr6	70462228	70462228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatccagaagaacacacagaAcaatataacagaatataaag	23	5	6	7	0	0	4	0	0	0	4	1	5	1	4	1	0	3	0	1	0	10	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:70462228A>G	uc003pfa.2	-	4	443	c.328T>C	c.(328-330)TTC>CTC	p.F110L	LMBRD1_uc003pez.2_Missense_Mutation_p.F37L|LMBRD1_uc010kal.2_Missense_Mutation_p.F37L|LMBRD1_uc003pfb.2_Intron	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	110	Helical; Name=3; (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						AACACACAGAACAATATAACA	0.279													4	59					0	0	1	0	0		G	70462228	G	G	70462228	3	3	27	1	0	0	0	0	1	0	0	0	8859	43	2	3	1346	3	LMBRD1	6	70462228	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	33274	70462228	100652839	3197	25548											
COL19A1	1310	broad.mit.edu	37	chr6	70744135	70744135	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggttatattctttctacAgggtttgaaaggtgacttgg	9	17	11	4	0	2	2	0	2	2	0	2	2	2	2	0	4	1	2	0	4	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:70744135A>C	uc003pfc.1	+	13	1198	c.1081_splice	c.e13-2	p.G361_splice	COL19A1_uc010kam.1_Splice_Site_p.G257_splice	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor						cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TTCTTTCTACAGGGTTTGAAA	0.373													5	59					0	0	1	0	0		C	70744135	C	C	70744135	5	2	27	1	0	0	0	0	0	0	1	0	3679	202	7	5	1125	5	COL19A1	6	70744135	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	281907	70744135	100370932	3198	25549											
OGFRL1	79627	broad.mit.edu	37	chr6	72006048	72006048	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgaagaagttctaagtaaAtggaaaggagattatgaaaa	20	10	10	1	0	1	4	0	2	1	2	1	6	1	5	0	2	0	2	0	2	9	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:72006048A>G	uc003pfx.1	+	4	592	c.429A>G	c.(427-429)AAA>AAG	p.K143K		NM_024576	NP_078852	Q5TC84	OGRL1_HUMAN	opioid growth factor receptor-like 1	143						membrane	receptor activity				0						TTCTAAGTAAATGGAAAGGAG	0.303													6	75					0	0	1	0	0		G	72006048	G	G	72006048	2	3	27	1	0	0	0	0	0	0	0	1	10863	98	4	3		3	OGFRL1	6	72006048	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1261913	72006048	99109019	3199	25550											
RIMS1	22999	broad.mit.edu	37	chr6	72960976	72960976	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgcattggtataaacttcAgacacatgatgagtcttcac	13	11	7	10	1	3	3	2	2	1	1	3	3	3	3	1	1	1	2	1	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:72960976A>G	uc003pga.2	+	15	2680	c.2603A>G	c.(2602-2604)CAG>CGG	p.Q868R	RIMS1_uc011dyb.1_Missense_Mutation_p.Q494R|RIMS1_uc003pgc.2_Missense_Mutation_p.Q494R|RIMS1_uc010kaq.2_Missense_Mutation_p.Q342R|RIMS1_uc011dyc.1_Missense_Mutation_p.Q342R|RIMS1_uc010kar.2_Missense_Mutation_p.Q261R|RIMS1_uc011dyd.1_Missense_Mutation_p.Q327R|RIMS1_uc003pgf.2_Missense_Mutation_p.Q85R|RIMS1_uc003pgg.2_Missense_Mutation_p.Q85R|RIMS1_uc003pgi.2_Missense_Mutation_p.Q85R|RIMS1_uc003pgh.2_Missense_Mutation_p.Q85R|RIMS1_uc003pgd.2_Missense_Mutation_p.Q85R|RIMS1_uc003pge.2_Missense_Mutation_p.Q85R|RIMS1_uc011dye.1_5'Flank|RIMS1_uc003pgb.3_Missense_Mutation_p.Q494R|RIMS1_uc010kas.1_Missense_Mutation_p.Q327R	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	868					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				TATAAACTTCAGACACATGAT	0.408													3	15					0	0	1	0	0		G	72960976	G	G	72960976	3	3	27	1	0	0	0	0	1	0	0	0	13392	188	7	3	2824	3	RIMS1	6	72960976	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	954928	72960976	98154091	3200	25551											
KCNQ5	56479	broad.mit.edu	37	chr6	73904299	73904299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttttgaatgtgaacagaCatctgactatcaaagccctg	13	11	7	10	0	2	4	1	3	1	1	2	4	2	4	2	0	2	0	2	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:73904299C>T	uc003pgk.2	+	14	2308	c.1961C>T	c.(1960-1962)ACA>ATA	p.T654I	KCNQ5_uc011dyh.1_Missense_Mutation_p.T673I|KCNQ5_uc011dyi.1_Missense_Mutation_p.T664I|KCNQ5_uc010kat.2_Missense_Mutation_p.T645I|KCNQ5_uc011dyj.1_Missense_Mutation_p.T544I|KCNQ5_uc011dyk.1_Missense_Mutation_p.T404I	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	654					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		TGTGAACAGACATCTGACTAT	0.493													14	96					0	0	1	0	0		T	73904299	T	T	73904299	3	4	27	1	0	0	0	0	1	0	0	0	8102	478	17	4	2076	4	KCNQ5	6	73904299	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	943323	73904299	97210768	3201	25552											
KCNQ5	56479	broad.mit.edu	37	chr6	73904338	73904338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggatagcaaagatctttCgggttccgcacaaaacagtg	12	10	11	8	2	1	1	0	0	1	1	3	2	2	2	1	2	2	3	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:73904338C>T	uc003pgk.2	+	14	2347	c.2000C>T	c.(1999-2001)TCG>TTG	p.S667L	KCNQ5_uc011dyh.1_Missense_Mutation_p.S686L|KCNQ5_uc011dyi.1_Missense_Mutation_p.S677L|KCNQ5_uc010kat.2_Missense_Mutation_p.S658L|KCNQ5_uc011dyj.1_Missense_Mutation_p.S557L|KCNQ5_uc011dyk.1_Missense_Mutation_p.S417L	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	667					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		AAAGATCTTTCGGGTTCCGCA	0.502													27	88					0	0	1	0	0		T	73904338	T	T	73904338	3	4	27	1	0	0	0	0	1	0	0	0	8102	893	31	1	2115	1	KCNQ5	6	73904338	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	39	73904338	97210729	3202	25553											
KCNQ5	56479	broad.mit.edu	37	chr6	73904905	73904905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgagtcaagtggctccagagGcagccaagatttttacccca	11	9	10	11	0	1	3	1	1	0	2	2	3	2	3	4	2	2	2	4	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:73904905G>A	uc003pgk.2	+	14	2914	c.2567G>A	c.(2566-2568)GGC>GAC	p.G856D	KCNQ5_uc011dyh.1_Missense_Mutation_p.G875D|KCNQ5_uc011dyi.1_Missense_Mutation_p.G866D|KCNQ5_uc010kat.2_Missense_Mutation_p.G847D|KCNQ5_uc011dyj.1_Missense_Mutation_p.G746D|KCNQ5_uc011dyk.1_Missense_Mutation_p.G606D	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	856					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		GGCTCCAGAGGCAGCCAAGAT	0.473													6	53					0	0	1	0	0		A	73904905	A	A	73904905	3	1	27	1	0	0	0	0	1	0	0	0	8102	1203	42	2	2682	2	KCNQ5	6	73904905	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	567	73904905	97210162	3203	25554											
MTO1	25821	broad.mit.edu	37	chr6	74210336	74210336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccggagtaacacctgccGccatcatcaatctgctgaga	11	8	8	14	2	3	1	2	1	1	1	3	3	3	2	4	1	4	2	4	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:74210336G>A	uc003pgy.3	+	13	2156	c.2032G>A	c.(2032-2034)GCC>ACC	p.A678T	MTO1_uc010kav.2_Missense_Mutation_p.A693T|MTO1_uc003pgz.3_Missense_Mutation_p.A653T|MTO1_uc003pha.3_Missense_Mutation_p.A315T|MTO1_uc003phb.3_Missense_Mutation_p.A604T	NM_133645	NP_598400	Q9Y2Z2	MTO1_HUMAN	mitochondrial translation optimization 1 homolog	678					tRNA processing	mitochondrion	flavin adenine dinucleotide binding			ovary(3)|skin(2)|pancreas(1)	6						AACACCTGCCGCCATCATCAA	0.423													18	51					0	0	1	0	0		A	74210336	A	A	74210336	3	1	27	1	0	0	0	0	1	0	0	0	9971	1087	38	1	2206	1	MTO1	6	74210336	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	305431	74210336	96904731	3204	25555											
CD109	135228	broad.mit.edu	37	chr6	74476735	74476735	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaggagttaagctatatggTaatctcttatagaatctaaa	16	13	8	4	0	2	1	0	0	2	1	3	3	2	2	0	2	1	3	0	2	10	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:74476735T>C	uc003php.2	+	13	1922	c.1497_splice	c.e13+2	p.M499_splice	CD109_uc010kaz.2_Splice_Site_p.M499_splice|CD109_uc003phq.2_Splice_Site_p.M499_splice|CD109_uc010kba.2_Splice_Site_p.M422_splice	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor							anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						AGCTATATGGTAATCTCTTAT	0.234													9	59					0	0	1	0	0		C	74476735	C	C	74476735	5	2	27	1	0	0	0	0	0	0	1	0	2966	1652	57	3	1549	3	CD109	6	74476735	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	266399	74476735	96638332	3205	25556											
CD109	135228	broad.mit.edu	37	chr6	74481262	74481262	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtagctgttgacaaaagTgtgaatctgatgaatgcctc	12	13	10	6	0	1	4	0	4	1	0	2	4	1	4	1	0	2	3	1	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:74481262T>C	uc003php.2	+	15	2210	c.1785T>C	c.(1783-1785)AGT>AGC	p.S595S	CD109_uc010kaz.2_Silent_p.S595S|CD109_uc003phq.2_Silent_p.S595S|CD109_uc010kba.2_Silent_p.S518S	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	595	Bait region (approximate) (By similarity).					anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						TTGACAAAAGTGTGAATCTGA	0.353													8	69					0	0	1	0	0		C	74481262	C	C	74481262	2	2	27	1	0	0	0	0	0	0	0	1	2966	1693	59	3		3	CD109	6	74481262	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4527	74481262	96633805	3206	25557											
COL12A1	1303	broad.mit.edu	37	chr6	75827138	75827138	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaatgtaataagattgtcTtcgatcttctcaaaagattc	15	14	5	7	1	3	2	1	0	3	2	6	3	3	2	0	0	0	1	0	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:75827138T>C	uc003phs.2	-	47	7645	c.7479A>G	c.(7477-7479)GAA>GAG	p.E2493E	COL12A1_uc003pht.2_Silent_p.E1329E	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2493	Nonhelical region (NC3).|VWFA 4.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TAAGATTGTCTTCGATCTTCT	0.388													7	84					0	0	1	0	0		C	75827138	C	C	75827138	2	2	27	1	0	0	0	0	0	0	0	1	3672	1606	56	3		3	COL12A1	6	75827138	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1345876	75827138	95287929	3207	25558											
COL12A1	1303	broad.mit.edu	37	chr6	75853014	75853014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtatcgaacaatatatttaCgcacttttccaggcacaggt	12	13	7	9	2	0	0	0	0	0	0	2	1	1	0	1	2	2	3	1	2	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:75853014C>T	uc003phs.2	-	26	4947	c.4781G>A	c.(4780-4782)CGT>CAT	p.R1594H	COL12A1_uc003pht.2_Missense_Mutation_p.R430H	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1594	Fibronectin type-III 11.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						AATATATTTACGCACTTTTCC	0.393													7	98					0	0	1	0	0		T	75853014	T	T	75853014	3	4	27	1	0	0	0	0	1	0	0	0	3672	536	19	1	4574	1	COL12A1	6	75853014	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25876	75853014	95262053	3208	25559											
COL12A1	1303	broad.mit.edu	37	chr6	75884990	75884990	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atttcatagtagacgtcgtaGggtcagaaactcttaagtct	12	13	9	7	2	4	2	2	0	2	2	5	2	4	2	0	1	1	2	0	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:75884990G>T	uc003phs.2	-	13	2640	c.2474C>A	c.(2473-2475)CCT>CAT	p.P825H	COL12A1_uc003pht.2_Intron	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	825	Fibronectin type-III 5.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						AGACGTCGTAGGGTCAGAAAC	0.388													9	84					3.09899e-07	3.3784e-07	1	1	0		T	75884990	T	T	75884990	3	4	27	1	0	0	0	0	1	0	0	0	3672	1000	35	5	6933	5	COL12A1	6	75884990	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31976	75884990	95230077	3209	25560											
COL12A1	1303	broad.mit.edu	37	chr6	75898176	75898176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccacaattgcatcaaagttgGccacattgaaaacatggttc	14	10	7	10	0	1	1	1	1	0	0	2	1	1	1	2	2	2	3	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:75898176G>A	uc003phs.2	-	8	1065	c.899C>T	c.(898-900)GCC>GTC	p.A300V	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_5'UTR	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	300	VWFA 1.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						ATCAAAGTTGGCCACATTGAA	0.408													10	97					0	0	1	0	0		A	75898176	A	A	75898176	3	1	27	1	0	0	0	0	1	0	0	0	3672	1203	42	2	8528	2	COL12A1	6	75898176	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13186	75898176	95216891	3210	25561											
FILIP1	27145	broad.mit.edu	37	chr6	76023662	76023662	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcaagtgttagttccttaAtcttattatcttccgggcag	8	18	7	8	1	3	0	1	0	2	0	5	0	5	0	2	1	0	3	2	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:76023662A>G	uc003pia.2	-	5	2259	c.1886T>C	c.(1885-1887)ATT>ACT	p.I629T	FILIP1_uc003phy.1_Missense_Mutation_p.I629T|FILIP1_uc003phz.2_Missense_Mutation_p.I530T|FILIP1_uc010kbe.2_Missense_Mutation_p.I632T|FILIP1_uc003pib.1_Missense_Mutation_p.I381T	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	629	Potential.									skin(3)|ovary(1)	4						TAGTTCCTTAATCTTATTATC	0.413													28	232					0	0	1	0	0		G	76023662	G	G	76023662	3	3	27	1	0	0	0	0	1	0	0	0	5908	101	4	3	1763	3	FILIP1	6	76023662	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	125486	76023662	95091405	3211	25562											
MYO6	4646	broad.mit.edu	37	chr6	76545675	76545675	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgacagaattgttgaaggTattgctaatttttcagttgt	11	17	10	3	0	1	3	1	2	0	1	1	4	1	3	0	1	1	4	0	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:76545675T>C	uc003pih.1	+	7	832	c.553_splice	c.e7+2	p.A185_splice	MYO6_uc003pig.1_Splice_Site_p.A185_splice|MYO6_uc003pii.1_Splice_Site_p.A185_splice	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI						actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		TTGTTGAAGGTATTGCTAATT	0.244													4	53					0	0	1	0	0		C	76545675	C	C	76545675	5	2	27	1	0	0	0	0	0	0	1	0	10099	1652	57	3	577	3	MYO6	6	76545675	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	522013	76545675	94569392	3212	25563											
MYO6	4646	broad.mit.edu	37	chr6	76617407	76617407	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatatgcagaactacgtgatAccatcaatacttcttgtggt	13	13	7	8	1	2	2	1	1	1	1	2	2	2	2	1	1	5	1	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:76617407A>G	uc003pih.1	+	31	3541	c.3262A>G	c.(3262-3264)ACC>GCC	p.T1088A	MYO6_uc003pig.1_Missense_Mutation_p.T1065A|MYO6_uc003pii.1_Missense_Mutation_p.T1065A|MYO6_uc003pij.1_Missense_Mutation_p.T45A	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	1097					actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		ACTACGTGATACCATCAATAC	0.348													5	40					0	0	1	0	0		G	76617407	G	G	76617407	3	3	27	1	0	0	0	0	1	0	0	0	10099	391	14	3	3380	3	MYO6	6	76617407	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	71732	76617407	94497660	3213	25564											
IMPG1	3617	broad.mit.edu	37	chr6	76657071	76657071	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tagctgtctatttccagatgGagttgttgggctgcagcaga	8	13	13	7	0	1	2	0	0	1	2	2	3	2	3	1	2	3	6	1	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:76657071G>A	uc003pik.1	-	14	2134	c.2004C>T	c.(2002-2004)CTC>CTT	p.L668L		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	668	SEA 2.				visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				TTTCCAGATGGAGTTGTTGGG	0.423													11	62					0	0	1	0	0		A	76657071	A	A	76657071	2	1	27	1	0	0	0	0	0	0	0	1	7744	1161	41	4		4	IMPG1	6	76657071	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39664	76657071	94457996	3214	25565											
IMPG1	3617	broad.mit.edu	37	chr6	76715197	76715197	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacttgcagggctttttgcTtctgcactgtgtctcttaaa	6	17	8	10	0	3	0	1	0	2	0	4	0	3	0	0	1	3	4	0	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:76715197T>G	uc003pik.1	-	10	1072	c.942A>C	c.(940-942)GAA>GAC	p.E314D		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	314	SEA 1.				visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				GGCTTTTTGCTTCTGCACTGT	0.458													10	113					0	0	1	0	0		G	76715197	G	G	76715197	3	3	27	1	0	0	0	0	1	0	0	0	7744	1606	56	5	1483	5	IMPG1	6	76715197	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	58126	76715197	94399870	3215	25566											
IMPG1	3617	broad.mit.edu	37	chr6	76734953	76734953	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggctctcccaatgtctTctctgcagatatttcatctt	8	15	5	13	0	5	1	1	0	4	1	7	1	5	1	2	1	1	2	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:76734953T>C	uc003pik.1	-	5	650	c.520A>G	c.(520-522)AAG>GAG	p.K174E		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	174					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				CCCAATGTCTTCTCTGCAGAT	0.343													12	64					0	0	1	0	0		C	76734953	C	C	76734953	3	2	27	1	0	0	0	0	1	0	0	0	7744	1792	62	3	1925	3	IMPG1	6	76734953	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	19756	76734953	94380114	3216	25567											
BCKDHB	594	broad.mit.edu	37	chr6	80816557	80816557	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggatgcggcccagaggcgGcaggtggctcattttacttt	7	10	15	9	2	1	1	1	0	0	1	1	3	1	2	1	6	2	2	1	6	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:80816557G>A	uc003pjd.2	+	1	214	c.147G>A	c.(145-147)CGG>CGA	p.R49R	BCKDHB_uc003pje.2_Silent_p.R49R	NM_000056	NP_000047	P21953	ODBB_HUMAN	branched chain keto acid dehydrogenase E1 beta	49					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|carboxy-lyase activity|protein binding				0		all_cancers(76;1.38e-05)|Acute lymphoblastic leukemia(125;1.15e-05)|all_hematologic(105;0.00118)|all_epithelial(107;0.0149)		BRCA - Breast invasive adenocarcinoma(397;0.0291)		CCCAGAGGCGGCAGGTGGCTC	0.716													3	9					0	0	1	0	0		A	80816557	A	A	80816557	2	1	27	1	0	0	0	0	0	0	0	1	1361	1190	42	2		2	BCKDHB	6	80816557	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4081604	80816557	90298510	3217	25568											
UBE2CBP	90025	broad.mit.edu	37	chr6	83732251	83732251	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagagctgcaccagacacTgggcgatcacgctctggaca	11	5	13	12	2	2	2	1	0	1	2	2	5	2	3	1	3	2	3	1	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:83732251T>C	uc003pjp.2	-	7	875	c.767A>G	c.(766-768)CAG>CGG	p.Q256R	UBE2CBP_uc011dyx.1_RNA|UBE2CBP_uc003pjq.2_Missense_Mutation_p.Q46R	NM_198920	NP_944602	Q7Z6J8	UB2CB_HUMAN	ubiquitin-conjugating enzyme E2C binding	256	Interaction with UBE2C.					cytoplasm	ligase activity			ovary(1)	1		all_cancers(76;0.000374)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0548)		BRCA - Breast invasive adenocarcinoma(397;0.0944)		CACCAGACACTGGGCGATCAC	0.383													9	24					0	0	1	0	0		C	83732251	C	C	83732251	3	2	27	1	0	0	0	0	1	0	0	0	16873	1580	55	3	418	3	UBE2CBP	6	83732251	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2915694	83732251	87382816	3218	25569											
DOPEY1	23033	broad.mit.edu	37	chr6	83818737	83818737	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaaaacactgaaacctggTctacagggattgcttactgg	12	10	11	8	0	1	1	0	1	1	0	1	2	1	2	1	4	5	2	1	4	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:83818737T>A	uc003pjs.1	+	5	689	c.429T>A	c.(427-429)GGT>GGA	p.G143G	DOPEY1_uc011dyy.1_Silent_p.G143G|DOPEY1_uc010kbl.1_Silent_p.G143G	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	143					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		TGAAACCTGGTCTACAGGGAT	0.388													6	90					0	0	1	0	0		A	83818737	A	A	83818737	2	1	27	1	0	0	0	0	0	0	0	1	4713	1654	58	5		5	DOPEY1	6	83818737	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	86486	83818737	87296330	3219	25570											
DOPEY1	23033	broad.mit.edu	37	chr6	83830457	83830457	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagagaacactctaatgcAggatctaaagccttttcgca	15	9	8	9	1	2	2	0	0	2	2	3	4	2	3	1	1	3	2	1	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:83830457A>G	uc003pjs.1	+	10	1306	c.1046A>G	c.(1045-1047)CAG>CGG	p.Q349R	DOPEY1_uc011dyy.1_Missense_Mutation_p.Q340R|DOPEY1_uc010kbl.1_Missense_Mutation_p.Q340R	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	349					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		ACTCTAATGCAGGATCTAAAG	0.373													8	53					0	0	1	0	0		G	83830457	G	G	83830457	3	3	27	1	0	0	0	0	1	0	0	0	4713	188	7	3	1076	3	DOPEY1	6	83830457	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11720	83830457	87284610	3220	25571											
DOPEY1	23033	broad.mit.edu	37	chr6	83848231	83848231	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacatgcaaatgatgagcatAgaaattctgacactactctt	16	11	6	8	0	2	4	0	3	2	1	2	4	2	4	0	0	4	2	0	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:83848231A>G	uc003pjs.1	+	21	4730	c.4470A>G	c.(4468-4470)ATA>ATG	p.I1490M	DOPEY1_uc011dyy.1_Missense_Mutation_p.I1481M|DOPEY1_uc010kbl.1_Missense_Mutation_p.I1481M|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1490					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		TGATGAGCATAGAAATTCTGA	0.378													10	71					0	0	1	0	0		G	83848231	G	G	83848231	3	3	27	1	0	0	0	0	1	0	0	0	4713	410	15	3	4544	3	DOPEY1	6	83848231	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17774	83848231	87266836	3221	25572											
DOPEY1	23033	broad.mit.edu	37	chr6	83863667	83863667	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgctcagcagtcttagTgggtatcagtacacacggag	10	9	12	10	1	3	0	2	0	1	0	3	1	3	1	0	2	4	5	0	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:83863667T>C	uc003pjs.1	+	32	6554	c.6294T>C	c.(6292-6294)AGT>AGC	p.S2098S	DOPEY1_uc011dyy.1_Silent_p.S2089S|DOPEY1_uc010kbl.1_Silent_p.S2089S|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	2098					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		GCAGTCTTAGTGGGTATCAGT	0.428													15	112					0	0	1	0	0		C	83863667	C	C	83863667	2	2	27	1	0	0	0	0	0	0	0	1	4713	1693	59	3		3	DOPEY1	6	83863667	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	15436	83863667	87251400	3222	25573											
PGM3	5238	broad.mit.edu	37	chr6	83888390	83888390	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaacaaaaatggttcaatAccttcataacttcttcaaga	18	11	4	8	0	4	1	3	0	1	1	4	2	4	1	1	1	3	1	1	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:83888390A>G	uc003pjv.2	-	8	1069	c.1029_splice	c.e8+1	p.K343_splice	PGM3_uc003pjw.2_Splice_Site_p.K262_splice|PGM3_uc011dyz.1_Splice_Site_p.K371_splice	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3						dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		ATGGTTCAATACCTTCATAAC	0.328													7	69					0	0	1	0	0		G	83888390	G	G	83888390	5	3	27	1	0	0	0	0	0	0	1	0	11819	405	14	3	621	3	PGM3	6	83888390	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	24723	83888390	87226677	3223	25574											
MRAP2	112609	broad.mit.edu	37	chr6	84799100	84799100	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaactttgtgaacacagAccagaactactttggggagg	12	8	10	11	0	0	3	0	1	0	2	0	4	0	4	3	3	4	0	3	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:84799100A>G	uc003pkg.3	+	4	708	c.518A>G	c.(517-519)GAC>GGC	p.D173G	MRAP2_uc010kbo.2_Missense_Mutation_p.D87G	NM_138409	NP_612418	Q96G30	MRAP2_HUMAN	melanocortin 2 receptor accessory protein 2	173					positive regulation of cAMP biosynthetic process|protein localization at cell surface	endoplasmic reticulum|plasma membrane	corticotropin hormone receptor binding|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding|type 5 melanocortin receptor binding			skin(2)	2						GTGAACACAGACCAGAACTAC	0.488													22	68					0	0	1	0	0		G	84799100	G	G	84799100	3	3	27	1	0	0	0	0	1	0	0	0	9772	275	10	3	528	3	MRAP2	6	84799100	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	910710	84799100	86315967	3224	25575											
KIAA1009	22832	broad.mit.edu	37	chr6	84910585	84910585	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatcttgttcatcaagatTgacctctgcaacagagtcta	11	15	6	9	0	5	3	2	1	3	2	5	3	5	3	1	0	2	2	1	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:84910585T>C	uc010kbp.2	-	9	854	c.757A>G	c.(757-759)AAT>GAT	p.N253D	KIAA1009_uc003pkj.3_Missense_Mutation_p.N177D|KIAA1009_uc003pkk.2_Missense_Mutation_p.N253D	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	253					cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		TCATCAAGATTGACCTCTGCA	0.353													11	149					0	0	1	0	0		C	84910585	C	C	84910585	3	2	27	1	0	0	0	0	1	0	0	0	8219	1812	63	3	3530	3	KIAA1009	6	84910585	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	111485	84910585	86204482	3225	25576											
TBX18	9096	broad.mit.edu	37	chr6	85446856	85446856	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgctgctcacgcccacAtaggagggagtcctgggcgg	6	7	16	12	2	1	0	1	0	0	0	2	2	2	2	2	4	3	3	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:85446856A>G	uc003pkl.1	-	8	1371	c.1371T>C	c.(1369-1371)TAT>TAC	p.Y457Y	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	457					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TCACGCCCACATAGGAGGGAG	0.587													8	87					0	0	1	0	0		G	85446856	G	G	85446856	2	3	27	1	0	0	0	0	0	0	0	1	15678	224	8	3		3	TBX18	6	85446856	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	536271	85446856	85668211	3226	25577											
SNX14	57231	broad.mit.edu	37	chr6	86267737	86267737	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctatatgcttcattgcTgcttttaatagtttcttggt	7	21	6	7	0	3	0	1	0	2	0	3	0	3	0	0	1	3	4	0	1	4	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:86267737T>C	uc003pkr.2	-	7	784	c.591A>G	c.(589-591)GCA>GCG	p.A197A	SNX14_uc003pkp.2_Silent_p.A60A|SNX14_uc003pkq.2_5'UTR|SNX14_uc011dzg.1_Silent_p.A145A|SNX14_uc003pks.2_Silent_p.A153A|SNX14_uc003pkt.2_Silent_p.A197A	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a	197	PXA.				cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		GCTTCATTGCTGCTTTTAATA	0.284													9	133					0	0	1	0	0		C	86267737	C	C	86267737	2	2	27	1	0	0	0	0	0	0	0	1	14910	1567	55	3		3	SNX14	6	86267737	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	820881	86267737	84847330	3227	25578											
SNX14	57231	broad.mit.edu	37	chr6	86281934	86281934	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaagtagcaaagaaggcCtaaagaaaaattatacaact	20	9	6	6	0	1	2	1	0	0	2	1	2	1	2	1	1	3	2	1	1	11	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:86281934C>A	uc003pkr.2	-	4	532	c.339_splice	c.e4-1	p.R113_splice	SNX14_uc003pkq.2_Splice_Site|SNX14_uc011dzg.1_Splice_Site_p.R61_splice|SNX14_uc003pks.2_Splice_Site_p.R113_splice|SNX14_uc003pkt.2_Splice_Site_p.R113_splice	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a						cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		CAAAGAAGGCCTAAAGAAAAA	0.303													7	90					0.00198382	0.00205548	1	1	0		A	86281934	A	A	86281934	5	1	27	1	0	0	0	0	0	0	1	0	14910	695	24	5	2606	5	SNX14	6	86281934	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14197	86281934	84833133	3228	25579											
SYNCRIP	10492	broad.mit.edu	37	chr6	86329028	86329028	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaaatgaatgaacgcataAtcttttaacttcttcactcg	14	14	4	9	2	4	2	2	2	2	0	5	2	4	2	0	0	2	1	0	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:86329028A>T	uc003pla.2	-	9	1657	c.1116T>A	c.(1114-1116)GAT>GAA	p.D372E	SYNCRIP_uc003pku.2_Missense_Mutation_p.D372E|SYNCRIP_uc003pkw.2_Missense_Mutation_p.D337E|SYNCRIP_uc003pky.2_Missense_Mutation_p.D274E|SYNCRIP_uc003pkv.2_Missense_Mutation_p.D372E|SYNCRIP_uc003pkx.2_Missense_Mutation_p.D220E|SYNCRIP_uc003pkz.2_Missense_Mutation_p.D337E	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	372	RRM 3.				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		TGAACGCATAATCTTTTAACT	0.363													8	83					0	0	1	0	0		T	86329028	T	T	86329028	3	4	27	1	0	0	0	0	1	0	0	0	15469	98	4	5	813	5	SYNCRIP	6	86329028	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	47094	86329028	84786039	3229	25580											
ZNF292	23036	broad.mit.edu	37	chr6	87965271	87965271	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaaaagaatagtctctatTcaacagattttatagtgttt	16	16	5	4	0	2	2	1	0	1	2	3	2	2	2	0	0	1	1	0	0	9	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:87965271T>G	uc003plm.3	+	8	1965	c.1924T>G	c.(1924-1926)TCA>GCA	p.S642A		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	642					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		TAGTCTCTATTCAACAGATTT	0.373													3	31					0	0	1	0	0		G	87965271	G	G	87965271	3	3	27	1	0	0	0	0	1	0	0	0	17851	1783	62	5	1954	5	ZNF292	6	87965271	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1636243	87965271	83149796	3230	25581											
ZNF292	23036	broad.mit.edu	37	chr6	87967776	87967776	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctcgatctggtgtgactAactttaataccagtgtcagt	9	15	8	9	1	2	1	1	1	1	0	4	2	3	1	2	1	2	0	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:87967776A>G	uc003plm.3	+	8	4470	c.4429A>G	c.(4429-4431)AAC>GAC	p.N1477D		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1477					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		TGGTGTGACTAACTTTAATAC	0.403													3	58					0	0	1	0	0		G	87967776	G	G	87967776	3	3	27	1	0	0	0	0	1	0	0	0	17851	362	13	3	4459	3	ZNF292	6	87967776	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2505	87967776	83147291	3231	25582											
AKIRIN2	55122	broad.mit.edu	37	chr6	88385594	88385594	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacagctagcaggctgttcTccatatcgtcgcattatttg	8	15	8	10	2	1	0	0	0	1	0	4	0	1	0	1	1	3	5	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:88385594T>C	uc003pmk.2	-	4	1168	c.585A>G	c.(583-585)GGA>GGG	p.G195G		NM_018064	NP_060534	Q53H80	AKIR2_HUMAN	akirin 2	195					innate immune response|transcription, DNA-dependent	transcriptional repressor complex					0						CAGGCTGTTCTCCATATCGTC	0.303													8	79					0	0	1	0	0		C	88385594	C	C	88385594	2	2	27	1	0	0	0	0	0	0	0	1	462	1538	54	3		3	AKIRIN2	6	88385594	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	417818	88385594	82729473	3232	25583											
AKIRIN2	55122	broad.mit.edu	37	chr6	88387678	88387678	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggtgaggatgctgcagaTgaagtccctatgtacaatga	13	10	12	6	0	0	4	0	3	0	1	1	5	1	5	1	2	3	3	1	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:88387678T>C	uc003pmk.2	-	3	970	c.387A>G	c.(385-387)TCA>TCG	p.S129S		NM_018064	NP_060534	Q53H80	AKIR2_HUMAN	akirin 2	129					innate immune response|transcription, DNA-dependent	transcriptional repressor complex					0						ATGCTGCAGATGAAGTCCCTA	0.383													16	34					0	0	1	0	0		C	88387678	C	C	88387678	2	2	27	1	0	0	0	0	0	0	0	1	462	1451	51	3		3	AKIRIN2	6	88387678	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2084	88387678	82727389	3233	25584											
CNR1	1268	broad.mit.edu	37	chr6	88853779	88853779	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatgctccggaaagcgtgTcgcaggtccttactcctcag	9	9	10	13	3	1	0	1	0	0	0	5	1	4	1	3	2	4	2	3	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:88853779T>C	uc011dzq.1	-	2	4778	c.1215A>G	c.(1213-1215)CGA>CGG	p.R405R	CNR1_uc010kbz.2_Silent_p.R405R|CNR1_uc011dzr.1_Silent_p.R405R|CNR1_uc011dzs.1_Silent_p.R405R|CNR1_uc003pmq.3_Silent_p.R405R|CNR1_uc011dzt.1_Silent_p.R405R|CNR1_uc010kca.2_Silent_p.R372R	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	405	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	GGAAAGCGTGTCGCAGGTCCT	0.532													5	80					0	0	1	0	0		C	88853779	C	C	88853779	2	2	27	1	0	0	0	0	0	0	0	1	3634	1654	58	3		3	CNR1	6	88853779	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	466101	88853779	82261288	3234	25585											
RNGTT	8732	broad.mit.edu	37	chr6	89563349	89563349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atacataaatatgacttacgCcatccaagagagtatttgat	16	12	6	7	1	0	3	0	2	0	1	1	4	1	3	2	0	2	1	2	0	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:89563349C>T	uc003pmr.2	-	9	1251	c.1031G>A	c.(1030-1032)GGC>GAC	p.G344D	RNGTT_uc003pms.2_Missense_Mutation_p.G344D|RNGTT_uc011dzu.1_Missense_Mutation_p.G284D|RNGTT_uc003pmt.2_Missense_Mutation_p.G344D	NM_003800	NP_003791	O60942	MCE1_HUMAN	RNA guanylyltransferase and 5'-phosphatase	344	GTase.				interspecies interaction between organisms|mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	GTP binding|mRNA guanylyltransferase activity|polynucleotide 5'-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1		all_cancers(76;4.07e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;6.86e-05)		BRCA - Breast invasive adenocarcinoma(108;0.151)		ATGACTTACGCCATCCAAGAG	0.279													4	103					0	0	1	0	0		T	89563349	T	T	89563349	3	4	27	1	0	0	0	0	1	0	0	0	13528	753	26	2	794	2	RNGTT	6	89563349	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	709570	89563349	81551718	3235	25586											
GABRR1	2569	broad.mit.edu	37	chr6	89890057	89890057	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcctgcacagtggtcaggTagttgacggccgcatactcc	7	10	11	13	2	2	1	1	1	1	0	4	1	3	1	3	3	2	4	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:89890057T>C	uc003pna.2	-	9	1555	c.1100A>G	c.(1099-1101)TAC>TGC	p.Y367C	GABRR1_uc011dzv.1_Missense_Mutation_p.Y344C	NM_002042	NP_002033	P24046	GBRR1_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 1	367	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			pancreas(1)	1		all_cancers(76;9.49e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.46e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00917)	Picrotoxin(DB00466)	AGTGGTCAGGTAGTTGACGGC	0.557													8	38					0	0	1	0	0		C	89890057	C	C	89890057	3	2	27	1	0	0	0	0	1	0	0	0	6190	1638	57	3	347	3	GABRR1	6	89890057	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	326708	89890057	81225010	3236	25587											
MDN1	23195	broad.mit.edu	37	chr6	90372614	90372614	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatctagtttgtcagctTcctcaccattgagatcgccc	7	14	6	14	1	4	1	3	1	2	1	7	2	5	1	3	0	1	2	3	0	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:90372614T>C	uc003pnn.1	-	86	14425	c.14309A>G	c.(14308-14310)GAA>GGA	p.E4770G		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4770					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TTTGTCAGCTTCCTCACCATT	0.403													14	226					0	0	1	0	0		C	90372614	C	C	90372614	3	2	27	1	0	0	0	0	1	0	0	0	9433	1783	62	3	2549	3	MDN1	6	90372614	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	482557	90372614	80742453	3237	25588											
MDN1	23195	broad.mit.edu	37	chr6	90410395	90410395	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttccaaaatatttgctcTgaggatcagtccccaggctt	10	13	7	11	0	3	1	1	1	2	0	5	2	5	2	3	2	1	2	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:90410395T>C	uc003pnn.1	-	56	8724	c.8608A>G	c.(8608-8610)AGA>GGA	p.R2870G		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2870					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		ATATTTGCTCTGAGGATCAGT	0.443													8	70					0	0	1	0	0		C	90410395	C	C	90410395	3	2	27	1	0	0	0	0	1	0	0	0	9433	1588	55	3	8370	3	MDN1	6	90410395	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37781	90410395	80704672	3238	25589											
MDN1	23195	broad.mit.edu	37	chr6	90410508	90410508	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccccaagggcagacatcTgctccctgatggcaaggact	9	8	10	14	0	2	2	0	1	2	1	4	3	3	3	3	3	1	3	3	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:90410508T>C	uc003pnn.1	-	56	8611	c.8495A>G	c.(8494-8496)CAG>CGG	p.Q2832R		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2832					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GGCAGACATCTGCTCCCTGAT	0.483													4	44					0	0	1	0	0		C	90410508	C	C	90410508	3	2	27	1	0	0	0	0	1	0	0	0	9433	1580	55	3	8483	3	MDN1	6	90410508	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	113	90410508	80704559	3239	25590											
MDN1	23195	broad.mit.edu	37	chr6	90491146	90491146	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taattctcttccctcaagggTtggtcttttgttttctcttc	4	21	6	10	0	4	0	1	0	3	0	8	0	5	0	1	2	0	2	1	2	2	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:90491146T>C	uc003pnn.1	-	10	1731	c.1615A>G	c.(1615-1617)ACC>GCC	p.T539A	MDN1_uc003pno.1_5'UTR|MDN1_uc003pnp.1_Missense_Mutation_p.T539A	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	539					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CCCTCAAGGGTTGGTCTTTTG	0.303													8	100					0	0	1	0	0		C	90491146	C	C	90491146	3	2	27	1	0	0	0	0	1	0	0	0	9433	1725	60	3	15547	3	MDN1	6	90491146	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	80638	90491146	80623921	3240	25591											
MDN1	23195	broad.mit.edu	37	chr6	90494776	90494776	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttatccaggtgaattttggtCcaatatttgtctagcaaagt	11	16	8	6	0	1	1	0	1	1	0	3	1	3	1	2	2	1	1	2	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:90494776C>A	uc003pnn.1	-	9	1520	c.1404G>T	c.(1402-1404)TGG>TGT	p.W468C	MDN1_uc003pno.1_5'UTR|MDN1_uc003pnp.1_Missense_Mutation_p.W468C	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	468					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GAATTTTGGTCCAATATTTGT	0.448													12	163					1.05317e-09	1.16272e-09	1	1	0		A	90494776	A	A	90494776	3	1	27	1	0	0	0	0	1	0	0	0	9433	856	30	5	15762	5	MDN1	6	90494776	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3630	90494776	80620291	3241	25592											
CASP8AP2	9994	broad.mit.edu	37	chr6	90571956	90571956	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttggatgattgttcaaaGactgatcacagagctaaaag	15	11	9	6	0	2	4	2	2	0	2	2	5	2	5	0	1	1	2	0	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:90571956G>T	uc003pnr.2	+	7	724	c.528G>T	c.(526-528)AAG>AAT	p.K176N	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.K176N|CASP8AP2_uc011dzz.1_Missense_Mutation_p.K176N	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	176					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		ATTGTTCAAAGACTGATCACA	0.333													11	124					0.000673444	0.000703801	1	1	0		T	90571956	T	T	90571956	3	4	27	1	0	0	0	0	1	0	0	0	2681	933	33	5	550	5	CASP8AP2	6	90571956	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	77180	90571956	80543111	3242	25593											
CASP8AP2	9994	broad.mit.edu	37	chr6	90577062	90577062	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctagagactcttaagtgCgagtctataccagcttgtac	10	12	9	10	1	2	1	0	0	2	1	2	3	2	1	1	0	5	3	1	0	5	6	rs147437828	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:90577062C>T	uc003pnr.2	+	8	4249	c.4053C>T	c.(4051-4053)TGC>TGT	p.C1351C	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Silent_p.C1351C|CASP8AP2_uc011dzz.1_Silent_p.C1351C	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	1351					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		CTCTTAAGTGCGAGTCTATAC	0.408													11	55					0	0	1	0	0		T	90577062	T	T	90577062	2	4	27	1	0	0	0	0	0	0	0	1	2681	776	27	1		1	CASP8AP2	6	90577062	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5106	90577062	80538005	3243	25594											
CASP8AP2	9994	broad.mit.edu	37	chr6	90578332	90578332	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtagatgaagataattgtAaggaagaaaaggcacaagtg	19	7	13	2	0	0	4	0	1	0	3	0	5	0	5	0	3	0	3	0	3	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:90578332A>G	uc003pnr.2	+	8	5519	c.5323A>G	c.(5323-5325)AAG>GAG	p.K1775E	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.K1775E|CASP8AP2_uc011dzz.1_Missense_Mutation_p.K1775E	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	1775	NCOA2-binding.				cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		AGATAATTGTAAGGAAGAAAA	0.413													5	40					0	0	1	0	0		G	90578332	G	G	90578332	3	3	27	1	0	0	0	0	1	0	0	0	2681	363	13	3	5349	3	CASP8AP2	6	90578332	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1270	90578332	80536735	3244	25595											
BACH2	60468	broad.mit.edu	37	chr6	90642371	90642371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcacgttttcccccactGcgcattgggaggccgcaatg	7	8	13	13	3	0	0	0	0	0	0	1	1	1	1	3	3	1	4	3	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:90642371G>A	uc011eab.1	-	9	3091	c.2282C>T	c.(2281-2283)GCA>GTA	p.A761V	BACH2_uc003pnw.2_Missense_Mutation_p.A761V	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	761						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		TTCCCCCACTGCGCATTGGGA	0.647													10	38					0	0	1	0	0		A	90642371	A	A	90642371	3	1	27	1	0	0	0	0	1	0	0	0	1285	1319	46	2	247	2	BACH2	6	90642371	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	64039	90642371	80472696	3245	25596											
BACH2	60468	broad.mit.edu	37	chr6	90661298	90661298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctggggcaagccatcttgGccgtctctgaatccatcgtc	6	10	10	15	2	2	1	0	1	2	0	6	1	3	1	4	3	1	1	4	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:90661298G>A	uc011eab.1	-	7	1336	c.527C>T	c.(526-528)GCC>GTC	p.A176V	BACH2_uc003pnw.2_Missense_Mutation_p.A176V|BACH2_uc010kch.2_Missense_Mutation_p.A176V	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	176						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		AGCCATCTTGGCCGTCTCTGA	0.622													17	89					0	0	1	0	0		A	90661298	A	A	90661298	3	1	27	1	0	0	0	0	1	0	0	0	1285	1203	42	2	2010	2	BACH2	6	90661298	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	18927	90661298	80453769	3246	25597											
BACH2	60468	broad.mit.edu	37	chr6	90661318	90661318	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccgtctctgaatccatcgtCtcctcctcttcatcctcctc	4	14	4	19	2	4	1	1	1	3	0	12	1	8	1	6	0	0	0	6	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:90661318C>T	uc011eab.1	-	7	1316	c.507G>A	c.(505-507)GAG>GAA	p.E169E	BACH2_uc003pnw.2_Silent_p.E169E|BACH2_uc010kch.2_Silent_p.E169E	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	169	Poly-Glu.					nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		AATCCATCGTCTCCTCCTCTT	0.612													6	94					0	0	1	0	0		T	90661318	T	T	90661318	2	4	27	1	0	0	0	0	0	0	0	1	1285	912	32	4		4	BACH2	6	90661318	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20	90661318	80453749	3247	25598											
MAP3K7	6885	broad.mit.edu	37	chr6	91226365	91226365	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagatgtattttgctggtccTtttcatcctggtccagttct	5	18	9	9	0	2	1	1	0	1	1	5	2	5	1	3	2	1	3	3	2	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:91226365T>C	uc003pnz.1	-	17	1838	c.1676A>G	c.(1675-1677)AAG>AGG	p.K559R	MAP3K7_uc003pny.1_Missense_Mutation_p.K96R|MAP3K7_uc003poa.1_3'UTR|MAP3K7_uc003pob.1_Missense_Mutation_p.K532R|MAP3K7_uc003poc.1_3'UTR	NM_145331	NP_663304	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	559					activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		TTGCTGGTCCTTTTCATCCTG	0.363													11	88					0	0	1	0	0		C	91226365	C	C	91226365	3	2	27	1	0	0	0	0	1	0	0	0	9273	1609	56	3	148	3	MAP3K7	6	91226365	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	565047	91226365	79888702	3248	25599											
MAP3K7	6885	broad.mit.edu	37	chr6	91233425	91233425	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcaggggtccatggatgActtcgagttggcttttctga	7	14	12	8	1	3	2	2	2	1	0	5	4	4	3	1	4	0	2	1	4	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:91233425A>T	uc003pnz.1	-	14	1596	c.1434T>A	c.(1432-1434)AGT>AGA	p.S478R	MAP3K7_uc003pny.1_Missense_Mutation_p.S15R|MAP3K7_uc003poa.1_Missense_Mutation_p.S478R|MAP3K7_uc003pob.1_Missense_Mutation_p.S451R|MAP3K7_uc003poc.1_Missense_Mutation_p.S451R	NM_145331	NP_663304	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	478					activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		TCCATGGATGACTTCGAGTTG	0.443													8	63					0	0	1	0	0		T	91233425	T	T	91233425	3	4	27	1	0	0	0	0	1	0	0	0	9273	272	10	5	402	5	MAP3K7	6	91233425	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7060	91233425	79881642	3249	25600											
MAP3K7	6885	broad.mit.edu	37	chr6	91260185	91260185	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcttccaatctatccatttAcctgtactggtggcagagtt	8	15	7	11	0	2	1	0	0	2	1	4	1	4	1	3	2	2	3	3	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:91260185A>T	uc003pnz.1	-	9	1111	c.949_splice	c.e9+1	p.G317_splice	MAP3K7_uc003poa.1_Splice_Site_p.G317_splice|MAP3K7_uc003pob.1_Splice_Site_p.G317_splice|MAP3K7_uc003poc.1_Splice_Site_p.G317_splice	NM_145331	NP_663304	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7						activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		CTATCCATTTACCTGTACTGG	0.348													4	63					0	0	1	0	0		T	91260185	T	T	91260185	5	4	27	1	0	0	0	0	0	0	1	0	9273	405	14	5	905	5	MAP3K7	6	91260185	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26760	91260185	79854882	3250	25601											
FUT9	10690	broad.mit.edu	37	chr6	96651601	96651601	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaaagagaaattggtgtgCtgggttgtgagtaactggaa	13	10	15	3	0	0	2	0	1	0	1	0	4	0	3	0	3	3	4	0	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:96651601C>T	uc003pop.3	+	3	911	c.570C>T	c.(568-570)TGC>TGT	p.C190C		NM_006581	NP_006572	Q9Y231	FUT9_HUMAN	fucosyltransferase 9 (alpha (1,3)	190	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			skin(4)|ovary(1)	5		all_cancers(76;4.77e-07)|Acute lymphoblastic leukemia(125;4.01e-09)|all_hematologic(75;1.25e-06)|all_epithelial(107;0.00279)|Colorectal(196;0.0356)		BRCA - Breast invasive adenocarcinoma(108;0.08)		AATTGGTGTGCTGGGTTGTGA	0.458													5	65					0	0	1	0	0		T	96651601	T	T	96651601	2	4	27	1	0	0	0	0	0	0	0	1	6125	805	28	2		2	FUT9	6	96651601	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5391416	96651601	74463466	3251	25602											
KIAA0776	23376	broad.mit.edu	37	chr6	96986536	96986536	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccacttctttatcagttgaAgatgctgccatattgcttca	9	15	6	11	0	3	2	2	1	1	1	3	2	3	2	2	0	3	3	2	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:96986536A>C	uc003por.2	+	10	1056	c.1008A>C	c.(1006-1008)GAA>GAC	p.E336D	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	336					negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		TATCAGTTGAAGATGCTGCCA	0.353													13	51					0	0	1	0	0		C	96986536	C	C	96986536	3	2	27	1	0	0	0	0	1	0	0	0	8209	69	3	5	1046	5	KIAA0776	6	96986536	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	334935	96986536	74128531	3252	25603											
C6orf167	253714	broad.mit.edu	37	chr6	97634560	97634560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctgacacaattgttgatgCatactcctaaaaagaaataa	17	11	5	8	0	0	3	0	2	0	1	2	3	2	3	2	0	2	2	2	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:97634560C>T	uc003ppb.2	-	15	2312	c.2046G>A	c.(2044-2046)ATG>ATA	p.M682I	C6orf167_uc011eaf.1_Missense_Mutation_p.M642I	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	682					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		ATTGTTGATGCATACTCCTAA	0.353													4	29					0	0	1	0	0		T	97634560	T	T	97634560	3	4	27	1	0	0	0	0	1	0	0	0	2345	710	25	2	1729	2	C6orf167	6	97634560	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	648024	97634560	73480507	3253	25604											
C6orf168	84553	broad.mit.edu	37	chr6	99729068	99729068	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgttcgtggtctgtatagTcatccatgtccacatccgaa	9	13	8	11	2	2	0	1	0	1	0	6	1	5	0	3	1	0	2	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:99729068T>A	uc003ppj.3	-	6	1485	c.1202A>T	c.(1201-1203)GAC>GTC	p.D401V	C6orf168_uc003ppi.3_Missense_Mutation_p.D121V	NM_032511	NP_115900	Q5TGI0	CF168_HUMAN	hypothetical protein LOC84553	401										ovary(2)|central_nervous_system(1)	3		all_cancers(76;1.63e-06)|Acute lymphoblastic leukemia(125;5.12e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00898)|Colorectal(196;0.0699)|Lung NSC(302;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.073)		GTCTGTATAGTCATCCATGTC	0.502													11	110					0	0	1	0	0		A	99729068	A	A	99729068	3	1	27	1	0	0	0	0	1	0	0	0	2346	1667	58	5	31	5	C6orf168	6	99729068	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2094508	99729068	71385999	3254	25605											
SFRS18	25957	broad.mit.edu	37	chr6	99849264	99849264	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtactactagtactactagTtctgctattgctactggaac	11	14	7	9	0	1	0	0	0	1	0	1	1	1	1	0	1	8	5	0	1	9	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:99849264T>C	uc003ppo.3	-	12	1798	c.1570A>G	c.(1570-1572)ACT>GCT	p.T524A	SFRS18_uc003ppl.2_Missense_Mutation_p.T70A|SFRS18_uc003ppp.3_Missense_Mutation_p.T524A|SFRS18_uc011eag.1_Missense_Mutation_p.T524A	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	524	Ser-rich.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		gtactactagttctgctattg	0.294													3	39					0	0	1	0	0		C	99849264	C	C	99849264	3	2	27	1	0	0	0	0	1	0	0	0	14199	1725	60	3	851	3	SFRS18	6	99849264	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	120196	99849264	71265803	3255	25606											
SFRS18	25957	broad.mit.edu	37	chr6	99862500	99862500	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cattgttgctggttcaagggCcactgctgccaaggctgtcc	6	11	12	12	0	1	0	1	0	0	0	2	0	2	0	3	3	3	5	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:99862500C>A	uc003ppo.3	-	3	264	c.36G>T	c.(34-36)TGG>TGT	p.W12C	SFRS18_uc003ppp.3_Missense_Mutation_p.W12C|SFRS18_uc011eag.1_Missense_Mutation_p.W12C|SFRS18_uc003ppr.2_Missense_Mutation_p.W12C|SFRS18_uc003ppt.2_Missense_Mutation_p.W12C|SFRS18_uc003pps.2_Missense_Mutation_p.W12C	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	12	Gln-rich.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		GGTTCAAGGGCCACTGCTGCC	0.388													10	102					1.33987e-11	1.48629e-11	1	1	0		A	99862500	A	A	99862500	3	1	27	1	0	0	0	0	1	0	0	0	14199	740	26	5	2421	5	SFRS18	6	99862500	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13236	99862500	71252567	3256	25607											
SIM1	6492	broad.mit.edu	37	chr6	100841584	100841584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagcctcgagtggtcaagcGcaaagccatagcagagagag	13	4	13	11	2	1	2	1	0	0	2	2	4	1	2	3	1	4	2	3	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:100841584G>A	uc003pqj.3	-	10	1556	c.1349C>T	c.(1348-1350)GCG>GTG	p.A450V	SIM1_uc010kcu.2_Missense_Mutation_p.A450V	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	450	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		GTGGTCAAGCGCAAAGCCATA	0.622													18	69					0	0	1	0	0		A	100841584	A	A	100841584	3	1	27	1	0	0	0	0	1	0	0	0	14348	1087	38	1	959	1	SIM1	6	100841584	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	979084	100841584	70273483	3257	25608											
ASCC3	10973	broad.mit.edu	37	chr6	101099511	101099511	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttttgtgagcatcaaagagTtcattaaaggtctaccaaag	14	12	9	6	0	3	2	2	1	1	1	3	2	3	2	1	1	2	3	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:101099511T>C	uc003pqk.2	-	19	3329	c.3000A>G	c.(2998-3000)GAA>GAG	p.E1000E	ASCC3_uc011eai.1_Silent_p.E902E	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1000	SEC63 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CATCAAAGAGTTCATTAAAGG	0.234													4	56					0	0	1	0	0		C	101099511	C	C	101099511	2	2	27	1	0	0	0	0	0	0	0	1	1034	1722	60	3		3	ASCC3	6	101099511	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	257927	101099511	70015556	3258	25609											
ASCC3	10973	broad.mit.edu	37	chr6	101296112	101296112	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactcttggcacttcagtcAtttccttcaaagttgaattt	9	17	5	10	0	4	1	3	1	1	0	5	1	5	1	1	1	1	2	1	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:101296112A>G	uc003pqk.2	-	4	1042	c.713T>C	c.(712-714)ATG>ACG	p.M238T	ASCC3_uc011eai.1_Missense_Mutation_p.M140T|ASCC3_uc003pql.2_Missense_Mutation_p.M238T|ASCC3_uc010kcv.2_Missense_Mutation_p.M238T	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	238					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CACTTCAGTCATTTCCTTCAA	0.388													8	74					0	0	1	0	0		G	101296112	G	G	101296112	3	3	27	1	0	0	0	0	1	0	0	0	1034	217	8	3	6051	3	ASCC3	6	101296112	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	196601	101296112	69818955	3259	25610											
ASCC3	10973	broad.mit.edu	37	chr6	101296277	101296277	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgagtttcaccatttattGgcagttcgtcaaagtggtcc	8	15	9	9	1	3	1	2	1	1	0	5	1	4	1	2	2	0	3	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:101296277G>T	uc003pqk.2	-	4	877	c.548C>A	c.(547-549)CCA>CAA	p.P183Q	ASCC3_uc011eai.1_Missense_Mutation_p.P85Q|ASCC3_uc003pql.2_Missense_Mutation_p.P183Q|ASCC3_uc010kcv.2_Missense_Mutation_p.P183Q	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	183					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		ACCATTTATTGGCAGTTCGTC	0.388													7	71					0.00198382	0.00205548	1	1	0		T	101296277	T	T	101296277	3	4	27	1	0	0	0	0	1	0	0	0	1034	1348	47	5	6216	5	ASCC3	6	101296277	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	165	101296277	69818790	3260	25611											
POPDC3	64208	broad.mit.edu	37	chr6	105606454	105606454	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagccgaatatcatagtgaTatctttttcctatatatacc	12	16	5	8	1	2	1	1	1	1	0	3	2	3	1	3	0	2	1	3	0	9	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:105606454T>C	uc003prb.2	-	4	1169	c.767A>G	c.(766-768)TAT>TGT	p.Y256C	uc003pqz.2_Intron|POPDC3_uc003pra.2_RNA	NM_022361	NP_071756	Q9HBV1	POPD3_HUMAN	popeye protein 3	256						integral to membrane				skin(3)|ovary(2)	5		all_cancers(87;4.87e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0157)|Colorectal(196;0.202)|Lung NSC(302;0.238)				ATCATAGTGATATCTTTTTCC	0.408													8	125					0	0	1	0	0		C	105606454	C	C	105606454	3	2	27	1	0	0	0	0	1	0	0	0	12275	1406	49	3	112	3	POPDC3	6	105606454	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4310177	105606454	65508613	3261	25612											
PREP	5550	broad.mit.edu	37	chr6	105736671	105736671	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatgttgaagccgccataGccatataagaaagctggatg	14	9	11	7	1	0	2	0	1	0	1	0	4	0	3	3	1	3	2	3	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:105736671G>A	uc003prc.2	-	11	1619	c.1416C>T	c.(1414-1416)GGC>GGT	p.G472G		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	472					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)	AGCCGCCATAGCCATATAAGA	0.418													11	49					0	0	1	0	0		A	105736671	A	A	105736671	2	1	27	1	0	0	0	0	0	0	0	1	12496	958	34	2		2	PREP	6	105736671	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	130217	105736671	65378396	3262	25613											
AIM1	202	broad.mit.edu	37	chr6	106968337	106968337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaatggccaggatagccctgCcagccttttgaacatttctg	10	11	9	11	0	1	1	0	1	1	0	1	2	1	2	4	2	4	0	4	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:106968337C>T	uc003prh.2	+	2	2517	c.2030C>T	c.(2029-2031)GCC>GTC	p.A677V		NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	677							sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		GATAGCCCTGCCAGCCTTTTG	0.438													4	53					0	0	1	0	0		T	106968337	T	T	106968337	3	4	27	1	0	0	0	0	1	0	0	0	430	739	26	2	2036	2	AIM1	6	106968337	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1231666	106968337	64146730	3263	25614											
RTN4IP1	84816	broad.mit.edu	37	chr6	107050795	107050795	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaagcgcctaagattagaAcactgaaatgcaaaggaaac	18	6	9	8	1	0	4	0	2	0	2	0	5	0	5	1	1	4	1	1	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:107050795A>G	uc003prj.2	-	5	1100	c.623T>C	c.(622-624)GTT>GCT	p.V208A	RTN4IP1_uc010kdd.2_Intron|RTN4IP1_uc003prk.2_Missense_Mutation_p.V108A	NM_032730	NP_116119	Q8WWV3	RT4I1_HUMAN	reticulon 4 interacting protein 1 precursor	208						mitochondrion	oxidoreductase activity|zinc ion binding				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;9.45e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.0144)	Epithelial(6;0.000873)|all cancers(7;0.00363)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0394)	all cancers(137;0.113)|BRCA - Breast invasive adenocarcinoma(108;0.127)|Epithelial(106;0.144)		TAAGATTAGAACACTGAAATG	0.269													5	76					0	0	1	0	0		G	107050795	G	G	107050795	3	3	27	1	0	0	0	0	1	0	0	0	13754	43	2	3	587	3	RTN4IP1	6	107050795	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	82458	107050795	64064272	3264	25615											
QRSL1	55278	broad.mit.edu	37	chr6	107096961	107096961	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggagttattcaaaacaaTatagagaaaagaggaagcag	19	7	10	5	0	1	2	1	0	0	2	1	5	1	4	1	2	2	2	1	2	9	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:107096961T>A	uc003prm.2	+	5	558	c.442T>A	c.(442-444)TAT>AAT	p.Y148N	QRSL1_uc003prl.2_Missense_Mutation_p.Y148N	NM_018292	NP_060762	Q9H0R6	QRSL1_HUMAN	glutaminyl-tRNA synthase	148					translation		ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;0.00768)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.248)	Epithelial(6;0.000334)|all cancers(7;0.00157)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0152)	BRCA - Breast invasive adenocarcinoma(108;0.118)|all cancers(137;0.167)|Epithelial(106;0.176)		TTCAAAACAATATAGAGAAAA	0.448													15	50					0	0	1	0	0		A	107096961	A	A	107096961	3	1	27	1	0	0	0	0	1	0	0	0	12906	1406	49	5	460	5	QRSL1	6	107096961	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	46166	107096961	64018106	3265	25616											
SCML4	256380	broad.mit.edu	37	chr6	108067978	108067978	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtcgatgcaggcttggacGgcctgctgcagcaccgccga	7	6	14	14	4	0	0	0	0	0	0	1	3	0	1	3	3	4	5	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:108067978G>A	uc010kdf.2	-	4	653	c.402C>T	c.(400-402)GCC>GCT	p.A134A	SCML4_uc003prz.3_Silent_p.A76A|SCML4_uc011eam.1_Silent_p.A134A|SCML4_uc003psa.3_Silent_p.A105A	NM_198081	NP_932347	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4	134					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		all_cancers(87;3.26e-06)|Acute lymphoblastic leukemia(125;3.08e-08)|all_hematologic(75;1.15e-06)|all_epithelial(87;0.00142)|Colorectal(196;0.0316)		BRCA - Breast invasive adenocarcinoma(108;0.01)|Epithelial(106;0.0509)|all cancers(137;0.0586)|OV - Ovarian serous cystadenocarcinoma(136;0.0758)		AGGCTTGGACGGCCTGCTGCA	0.637													13	59					0	0	1	0	0		A	108067978	A	A	108067978	2	1	27	1	0	0	0	0	0	0	0	1	13936	1103	39	1		1	SCML4	6	108067978	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	971017	108067978	63047089	3266	25617											
SEC63	11231	broad.mit.edu	37	chr6	108246125	108246125	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatgcccatcctgcaagcAgaactattttcctgtttagg	11	12	7	11	0	0	1	0	0	0	1	2	1	2	1	3	1	4	3	3	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:108246125A>G	uc003psc.3	-	3	505	c.236T>C	c.(235-237)CTG>CCG	p.L79P		NM_007214	NP_009145	Q9UGP8	SEC63_HUMAN	SEC63-like protein	79	Helical; (Potential).				protein folding|protein targeting to membrane	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|receptor activity|unfolded protein binding			ovary(1)|skin(1)	2		all_cancers(87;5.35e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0294)		BRCA - Breast invasive adenocarcinoma(108;0.0079)|Epithelial(106;0.0356)|all cancers(137;0.0525)|OV - Ovarian serous cystadenocarcinoma(136;0.054)		TCCTGCAAGCAGAACTATTTT	0.343													5	65					0	0	1	0	0		G	108246125	G	G	108246125	3	3	27	1	0	0	0	0	1	0	0	0	14030	188	7	3	2122	3	SEC63	6	108246125	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	178147	108246125	62868942	3267	25618											
OSTM1	28962	broad.mit.edu	37	chr6	108395540	108395540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaggcgcacgggccgggCgctgcgcaccagacaccctg	8	2	15	16	5	0	2	0	0	0	2	0	2	0	2	3	3	1	3	3	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:108395540C>T	uc003psd.2	-	1	402	c.316G>A	c.(316-318)GCC>ACC	p.A106T		NM_014028	NP_054747	Q86WC4	OSTM1_HUMAN	osteopetrosis associated transmembrane protein 1	106	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1		all_cancers(87;3.82e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000195)|Colorectal(196;0.0293)|all_lung(197;0.0938)		BRCA - Breast invasive adenocarcinoma(108;0.0131)|Epithelial(106;0.0438)|OV - Ovarian serous cystadenocarcinoma(136;0.0571)|all cancers(137;0.0581)		ACGGGCCGGGCGCTGCGCACC	0.672													3	25					0	0	1	0	0		T	108395540	T	T	108395540	3	4	27	1	0	0	0	0	1	0	0	0	11317	768	27	1	712	1	OSTM1	6	108395540	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	149415	108395540	62719527	3268	25619											
SESN1	27244	broad.mit.edu	37	chr6	109315666	109315666	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atataatggttgttcttaccTgaagagaagacaaacatact	16	12	7	6	0	1	3	0	1	1	2	1	4	1	3	1	1	3	2	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:109315666T>C	uc003pst.3	-	6	1034	c.942A>G	c.(940-942)TCA>TCG	p.S314S	SESN1_uc003psu.2_Silent_p.S373S	NM_014454	NP_055269	Q9Y6P5	SESN1_HUMAN	sestrin 1	314					cell cycle arrest|negative regulation of cell proliferation|response to DNA damage stimulus	nucleus				ovary(1)	1		all_cancers(87;6.45e-05)|Acute lymphoblastic leukemia(125;3.55e-10)|all_hematologic(75;1.68e-07)|all_epithelial(87;0.0106)|Colorectal(196;0.0637)		Epithelial(106;0.0014)|BRCA - Breast invasive adenocarcinoma(108;0.00146)|all cancers(137;0.0031)|OV - Ovarian serous cystadenocarcinoma(136;0.0117)		TGTTCTTACCTGAAGAGAAGA	0.318													6	117					0	0	1	0	0		C	109315666	C	C	109315666	2	2	27	1	0	0	0	0	0	0	0	1	14149	1594	55	3		3	SESN1	6	109315666	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	920126	109315666	61799401	3269	25620											
C6orf182	285753	broad.mit.edu	37	chr6	109484127	109484127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatccaatacgagttcataAtcttcaaatgaaattgagaa	17	12	5	7	1	4	2	3	2	1	1	5	4	5	2	1	0	1	1	1	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:109484127A>G	uc010kdk.2	+	13	1914	c.1337A>G	c.(1336-1338)AAT>AGT	p.N446S	C6orf182_uc003psx.3_3'UTR|C6orf182_uc010kdl.2_Missense_Mutation_p.N446S|C6orf182_uc003psy.3_Missense_Mutation_p.N446S	NM_001083535	NP_001077004	Q8IYX8	CE57L_HUMAN	hypothetical protein LOC285753	446						microtubule|microtubule organizing center					0		all_cancers(87;4.45e-07)|Acute lymphoblastic leukemia(125;2.15e-10)|all_hematologic(75;3.25e-08)|all_epithelial(87;0.000254)|Colorectal(196;0.0293)|all_lung(197;0.11)		BRCA - Breast invasive adenocarcinoma(108;0.00123)|Epithelial(106;0.0022)|all cancers(137;0.00405)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)		CGAGTTCATAATCTTCAAATG	0.348													5	33					0	0	1	0	0		G	109484127	G	G	109484127	3	3	27	1	0	0	0	0	1	0	0	0	2349	101	4	3	1375	3	C6orf182	6	109484127	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	168461	109484127	61630940	3270	25621											
PPIL6	285755	broad.mit.edu	37	chr6	109748083	109748083	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagccattctgtactattcGatgaaaaatggaatttttgt	12	15	7	7	1	1	1	0	1	1	0	2	3	1	2	2	1	2	1	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:109748083G>A	uc003ptg.3	-	5	652	c.598C>T	c.(598-600)CGA>TGA	p.R200*	PPIL6_uc010kdo.2_Nonsense_Mutation_p.R168*|PPIL6_uc010kdp.2_Nonsense_Mutation_p.R200*	NM_173672	NP_775943	Q8IXY8	PPIL6_HUMAN	peptidylprolyl isomerase-like 6 isoform 1	200	PPIase cyclophilin-type.				protein folding		peptidyl-prolyl cis-trans isomerase activity				0		all_cancers(87;1.1e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000144)|all_lung(197;0.0221)|Colorectal(196;0.0488)|Lung SC(18;0.0548)		Epithelial(106;0.00684)|BRCA - Breast invasive adenocarcinoma(108;0.00889)|all cancers(137;0.0106)|OV - Ovarian serous cystadenocarcinoma(136;0.0259)		TGTACTATTCGATGAAAAATG	0.348													6	136					0	0	1	0	0		A	109748083	A	A	109748083	4	1	27	1	0	0	0	0	0	1	0	0	12353	1066	37	1	435	1	PPIL6	6	109748083	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	263956	109748083	61366984	3271	25622											
ZBTB24	9841	broad.mit.edu	37	chr6	109803146	109803146	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctttcttcctctgatcCtcaaaactggccagcacagt	10	11	6	14	0	3	1	1	1	2	0	5	1	5	1	4	1	3	1	4	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:109803146C>A	uc003ptl.1	-	2	252	c.84G>T	c.(82-84)GAG>GAT	p.E28D	ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Missense_Mutation_p.E28D|ZBTB24_uc010kdt.1_RNA|ZBTB24_uc003ptm.2_Missense_Mutation_p.E28D	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	28	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		TCCTCTGATCCTCAAAACTGG	0.483													7	61					1.06961e-07	1.16939e-07	1	1	0		A	109803146	A	A	109803146	3	1	27	1	0	0	0	0	1	0	0	0	17556	680	24	5	2083	5	ZBTB24	6	109803146	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	55063	109803146	61311921	3272	25623											
AKD1	221264	broad.mit.edu	37	chr6	109854523	109854523	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttttgttttagtttccaCttttcaatttgggcaggaag	7	20	8	6	0	2	0	1	0	1	0	3	1	3	1	1	2	0	3	1	2	3	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:109854523C>G	uc003ptn.2	-	28	3578	c.3501G>C	c.(3499-3501)AAG>AAC	p.K1167N	AKD1_uc011eat.1_Missense_Mutation_p.K246N	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1167					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TTAGTTTCCACTTTTCAATTT	0.343													4	45					0	0	1	0	0		G	109854523	G	G	109854523	3	3	27	1	0	0	0	0	1	0	0	0	460	564	20	5	2290	5	AKD1	6	109854523	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	51377	109854523	61260544	3273	25624											
AKD1	221264	broad.mit.edu	37	chr6	109867248	109867248	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaactgaatgtgaaaaatgTttaatttttctgccaactgt	14	15	6	6	0	1	2	0	2	1	0	1	2	1	2	1	0	3	1	1	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:109867248T>C	uc003ptn.2	-	26	3124	c.3047A>G	c.(3046-3048)AAC>AGC	p.N1016S	AKD1_uc011eat.1_Missense_Mutation_p.N95S	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1016					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						GTGAAAAATGTTTAATTTTTC	0.428													6	142					0	0	1	0	0		C	109867248	C	C	109867248	3	2	27	1	0	0	0	0	1	0	0	0	460	1725	60	3	2752	3	AKD1	6	109867248	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12725	109867248	61247819	3274	25625											
AKD1	221264	broad.mit.edu	37	chr6	109871475	109871475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttttgtgtctcccaaatGcctctttctctccttcattt	4	20	5	12	0	4	0	1	0	3	0	7	0	5	0	3	0	1	1	3	0	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:109871475G>A	uc003ptn.2	-	25	2859	c.2782C>T	c.(2782-2784)CAT>TAT	p.H928Y	AKD1_uc011eat.1_Missense_Mutation_p.H7Y	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	928					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TCTCCCAAATGCCTCTTTCTC	0.363													8	110					0	0	1	0	0		A	109871475	A	A	109871475	3	1	27	1	0	0	0	0	1	0	0	0	460	1319	46	2	3021	2	AKD1	6	109871475	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4227	109871475	61243592	3275	25626											
GPR6	2830	broad.mit.edu	37	chr6	110300428	110300428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacacgggcgaatggggacCccctgctgcggcggctctag	6	5	17	13	4	1	0	0	0	1	0	1	3	1	2	2	6	2	2	2	6	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:110300428C>T	uc011eaw.1	+	2	293	c.113C>T	c.(112-114)CCC>CTC	p.P38L	GPR6_uc011eav.1_Missense_Mutation_p.P53L|GPR6_uc003ptu.2_Missense_Mutation_p.P38L	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	38	Extracellular (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		GAATGGGGACCCCCTGCTGCG	0.502													10	40					0	0	1	0	0		T	110300428	T	T	110300428	3	4	27	1	0	0	0	0	1	0	0	0	6716	623	22	4	115	4	GPR6	6	110300428	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	428953	110300428	60814639	3276	25627											
GPR6	2830	broad.mit.edu	37	chr6	110300509	110300509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgtcggctgggccacCgggactcctgctgccagcgg	4	6	16	15	3	0	0	0	0	0	0	2	1	1	1	4	4	4	4	4	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:110300509C>T	uc011eaw.1	+	2	374	c.194C>T	c.(193-195)CCG>CTG	p.P65L	GPR6_uc011eav.1_Missense_Mutation_p.P80L|GPR6_uc003ptu.2_Missense_Mutation_p.P65L	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	65	Extracellular (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		GCTGGGCCACCGGGACTCCTG	0.682													26	109					0	0	1	0	0		T	110300509	T	T	110300509	3	4	27	1	0	0	0	0	1	0	0	0	6716	652	23	1	196	1	GPR6	6	110300509	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	81	110300509	60814558	3277	25628											
GPR6	2830	broad.mit.edu	37	chr6	110300639	110300639	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgctgcgcacgcccatgttCgtgctggtaggcagcctggc	4	8	15	14	4	0	0	0	0	0	0	1	0	0	0	2	3	3	6	2	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:110300639C>T	uc011eaw.1	+	2	504	c.324C>T	c.(322-324)TTC>TTT	p.F108F	GPR6_uc011eav.1_Silent_p.F123F|GPR6_uc003ptu.2_Silent_p.F108F	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	108	Helical; Name=2; (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		CGCCCATGTTCGTGCTGGTAG	0.642													6	111					0	0	1	0	0		T	110300639	T	T	110300639	2	4	27	1	0	0	0	0	0	0	0	1	6716	883	31	1		1	GPR6	6	110300639	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	130	110300639	60814428	3278	25629											
SLC22A16	85413	broad.mit.edu	37	chr6	110777921	110777921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggaaactctttcttactgCcagtgtattcatagcccaaa	13	12	6	10	0	3	0	1	0	2	0	3	1	3	1	2	1	4	1	2	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:110777921C>T	uc003puf.2	-	2	420	c.353G>A	c.(352-354)GGC>GAC	p.G118D	SLC22A16_uc003pue.2_Missense_Mutation_p.G99D|SLC22A16_uc003pug.2_Missense_Mutation_p.G118D	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	118					acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		TTTCTTACTGCCAGTGTATTC	0.473													15	187					0	0	1	0	0		T	110777921	T	T	110777921	3	4	27	1	0	0	0	0	1	0	0	0	14472	739	26	2	1408	2	SLC22A16	6	110777921	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	477282	110777921	60337146	3279	25630											
AMD1	262	broad.mit.edu	37	chr6	111213504	111213504	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttaatttttatttaggtActtatatactctggatttcc	9	23	4	5	0	1	0	0	0	1	0	2	1	2	1	1	2	2	1	1	2	7	13			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:111213504A>G	uc003puk.1	+	6	795	c.473A>G	c.(472-474)TAC>TGC	p.Y158C	AMD1_uc011eay.1_Missense_Mutation_p.Y89C|AMD1_uc011eaz.1_Missense_Mutation_p.Y129C|AMD1_uc011eba.1_Missense_Mutation_p.Y38C|AMD1_uc003pul.1_Missense_Mutation_p.Y10C	NM_001634	NP_001625	P17707	DCAM_HUMAN	adenosylmethionine decarboxylase 1 isoform 1	158					spermidine biosynthetic process|spermine biosynthetic process	cytosol	adenosylmethionine decarboxylase activity			upper_aerodigestive_tract(1)	1		all_cancers(87;3.83e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.0522)|Epithelial(106;0.111)|all cancers(137;0.143)	S-Adenosylmethionine(DB00118)	TTATTTAGGTACTTATATACT	0.353													7	80					0	0	1	0	0		G	111213504	G	G	111213504	3	3	27	1	0	0	0	0	1	0	0	0	566	391	14	3	495	3	AMD1	6	111213504	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	435583	111213504	59901563	3280	25631											
KIAA1919	91749	broad.mit.edu	37	chr6	111585063	111585063	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcggctaccaccgttggtcTttatcttgttcctttttgca	4	18	8	11	2	2	0	0	0	2	0	4	0	3	0	3	2	2	4	3	2	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:111585063T>C	uc003puv.3	+	3	649	c.227T>C	c.(226-228)CTT>CCT	p.L76P		NM_153369	NP_699200	Q5TF39	NAGT1_HUMAN	sodium-dependent glucose transporter 1	76	Helical; (Potential).				carbohydrate transport|sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(3)	3		all_cancers(87;2.35e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.055)|all cancers(137;0.0871)|Epithelial(106;0.0884)		ACCGTTGGTCTTTATCTTGTT	0.383													17	135					0	0	1	0	0		C	111585063	C	C	111585063	3	2	27	1	0	0	0	0	1	0	0	0	8278	1609	56	3	237	3	KIAA1919	6	111585063	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	371559	111585063	59530004	3281	25632											
REV3L	5980	broad.mit.edu	37	chr6	111680216	111680216	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgattagggtaagattttgtAtctataaaagcaaataaata	18	14	7	2	0	1	2	0	1	1	1	1	2	1	2	0	1	1	3	0	1	10	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:111680216A>T	uc003puy.3	-	17	7204	c.6881T>A	c.(6880-6882)ATA>AAA	p.I2294K	REV3L_uc003pux.3_Missense_Mutation_p.I2216K|REV3L_uc003puz.3_Missense_Mutation_p.I2216K|REV3L_uc003pva.1_RNA	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2294					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		AAGATTTTGTATCTATAAAAG	0.353								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					3	53					0	0	1	0	0		T	111680216	T	T	111680216	3	4	27	1	0	0	0	0	1	0	0	0	13265	463	16	5	2575	5	REV3L	6	111680216	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	95153	111680216	59434851	3282	25633											
REV3L	5980	broad.mit.edu	37	chr6	111694279	111694279	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgaacacagaaagaaTccattattgagttagaccga	15	9	8	9	1	0	5	0	2	0	3	1	6	1	5	3	0	2	2	3	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:111694279T>A	uc003puy.3	-	13	5602	c.5279A>T	c.(5278-5280)GAT>GTT	p.D1760V	REV3L_uc003pux.3_Missense_Mutation_p.D1682V|REV3L_uc003puz.3_Missense_Mutation_p.D1682V	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1760					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		ACAGAAAGAATCCATTATTGA	0.398								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					10	161					0	0	1	0	0		A	111694279	A	A	111694279	3	1	27	1	0	0	0	0	1	0	0	0	13265	1435	50	5	4193	5	REV3L	6	111694279	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	14063	111694279	59420788	3283	25634											
REV3L	5980	broad.mit.edu	37	chr6	111696103	111696103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttcttatatacattaggaCccttaaaaagcattgcctct	12	15	4	10	0	3	0	0	0	3	0	3	1	3	1	2	1	3	1	2	1	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:111696103C>T	uc003puy.3	-	13	3778	c.3455G>A	c.(3454-3456)GGT>GAT	p.G1152D	REV3L_uc003pux.3_Missense_Mutation_p.G1074D|REV3L_uc003puz.3_Missense_Mutation_p.G1074D	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1152					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TACATTAGGACCCTTAAAAAG	0.418								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					7	139					0	0	1	0	0		T	111696103	T	T	111696103	3	4	27	1	0	0	0	0	1	0	0	0	13265	507	18	4	6017	4	REV3L	6	111696103	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1824	111696103	59418964	3284	25635											
REV3L	5980	broad.mit.edu	37	chr6	111696362	111696362	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttttaatattttcattatTtgtcctttgttgtttaccag	7	24	4	6	0	2	0	1	0	1	0	3	0	3	0	2	0	1	2	2	0	4	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:111696362T>C	uc003puy.3	-	13	3519	c.3196A>G	c.(3196-3198)AAT>GAT	p.N1066D	REV3L_uc003pux.3_Missense_Mutation_p.N988D|REV3L_uc003puz.3_Missense_Mutation_p.N988D	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1066					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TTTTCATTATTTGTCCTTTGT	0.333								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					5	75					0	0	1	0	0		C	111696362	C	C	111696362	3	2	27	1	0	0	0	0	1	0	0	0	13265	1841	64	3	6276	3	REV3L	6	111696362	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	259	111696362	59418705	3285	25636											
FYN	2534	broad.mit.edu	37	chr6	112041137	112041137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaggtcacaccgaagctggGgtagtgctgaggggtggggt	7	7	21	6	1	1	1	1	1	0	0	1	3	1	2	1	8	2	3	1	8	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:112041137G>A	uc003pvj.2	-	3	458	c.118C>T	c.(118-120)CCC>TCC	p.P40S	FYN_uc003pvi.2_Missense_Mutation_p.P40S|FYN_uc003pvk.2_Missense_Mutation_p.P40S|FYN_uc003pvh.2_Missense_Mutation_p.P40S	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	40					axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	CCGAAGCTGGGGTAGTGCTGA	0.567													5	57					0	0	1	0	0		A	112041137	A	A	112041137	3	1	27	1	0	0	0	0	1	0	0	0	6140	1232	43	4	1699	4	FYN	6	112041137	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	344775	112041137	59073930	3286	25637											
HDAC2	3066	broad.mit.edu	37	chr6	114267237	114267237	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatcgagcaacattacggAttgtgtagccacctcctcca	12	9	7	13	2	0	0	0	0	0	0	3	2	2	1	4	1	5	2	4	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:114267237A>T	uc003pwd.1	-	9	1199	c.1199T>A	c.(1198-1200)ATC>AAC	p.I400N	HDAC2_uc003pwc.1_Missense_Mutation_p.I276N|HDAC2_uc003pwe.1_Missense_Mutation_p.I276N	NM_001527	NP_001518	Q92769	HDAC2_HUMAN	histone deacetylase 2	306	Histone deacetylase.				blood coagulation|dendrite development|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|maintenance of chromatin silencing|negative regulation of apoptosis|negative regulation of cell cycle|negative regulation of neuron projection development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of proteolysis|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|ESC/E(Z) complex|NuRD complex|Sin3 complex	chromatin binding|enzyme binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|sequence-specific DNA binding|transcription factor binding			skin(2)|ovary(1)|central_nervous_system(1)	4		all_cancers(87;0.000629)|all_epithelial(87;0.00274)|Colorectal(196;0.0317)|all_lung(197;0.24)		all cancers(137;0.00318)|OV - Ovarian serous cystadenocarcinoma(136;0.00569)|Epithelial(106;0.0112)|GBM - Glioblastoma multiforme(226;0.0832)	Vorinostat(DB02546)	AACATTACGGATTGTGTAGCC	0.378													7	96					0	0	1	0	0		T	114267237	T	T	114267237	3	4	27	1	0	0	0	0	1	0	0	0	7023	333	12	5	573	5	HDAC2	6	114267237	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2226100	114267237	56847830	3287	25638											
DSE	29940	broad.mit.edu	37	chr6	116758204	116758204	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagatgaagaaatgaaagAccttttagattttgcagatg	16	12	10	3	0	0	8	0	3	0	5	0	8	0	8	1	0	1	1	1	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:116758204A>G	uc003pws.2	+	6	2767	c.2573A>G	c.(2572-2574)GAC>GGC	p.D858G	DSE_uc011ebg.1_Missense_Mutation_p.D877G|DSE_uc003pwt.2_Missense_Mutation_p.D858G|DSE_uc003pwu.2_Missense_Mutation_p.D525G	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	858					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		GAAATGAAAGACCTTTTAGAT	0.388													4	57					0	0	1	0	0		G	116758204	G	G	116758204	3	3	27	1	0	0	0	0	1	0	0	0	4780	275	10	3	2591	3	DSE	6	116758204	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2490967	116758204	54356863	3288	25639											
ZUFSP	221302	broad.mit.edu	37	chr6	116987885	116987885	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctatttttccacagaaTggacattcaggaggactgta	11	13	8	9	0	2	1	1	0	1	1	4	4	4	4	2	3	0	1	2	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:116987885T>C	uc003pxf.1	-	2	717	c.471A>G	c.(469-471)CCA>CCG	p.P157P	ZUFSP_uc010kef.1_Intron	NM_145062	NP_659499	Q96AP4	ZUFSP_HUMAN	zinc finger with UFM1-specific peptidase domain	157	C2H2-type 2.					intracellular	zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(226;0.0258)|all cancers(137;0.0368)|OV - Ovarian serous cystadenocarcinoma(136;0.0464)|Epithelial(106;0.186)		TTCCACAGAATGGACATTCAG	0.373													7	80					0	0	1	0	0		C	116987885	C	C	116987885	2	2	27	1	0	0	0	0	0	0	0	1	18271	1451	51	3		3	ZUFSP	6	116987885	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	229681	116987885	54127182	3289	25640											
GPRC6A	222545	broad.mit.edu	37	chr6	117113550	117113550	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcttgagaaaggcagactTtgtgttaatctcttgcttac	10	15	8	8	0	2	2	0	1	2	2	3	3	2	2	0	1	2	3	0	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:117113550T>C	uc003pxj.1	-	6	2558	c.2536A>G	c.(2536-2538)AAG>GAG	p.K846E	GPRC6A_uc003pxk.1_Missense_Mutation_p.K671E|GPRC6A_uc003pxl.1_Missense_Mutation_p.K775E	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	846	Cytoplasmic (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		AAGGCAGACTTTGTGTTAATC	0.398													10	85					0	0	1	0	0		C	117113550	C	C	117113550	3	2	27	1	0	0	0	0	1	0	0	0	6744	1850	64	3	248	3	GPRC6A	6	117113550	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	125665	117113550	54001517	3290	25641											
RFX6	222546	broad.mit.edu	37	chr6	117237196	117237196	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacgctcataatgatgtacaAaactcactgccagtgtatcc	13	11	6	11	1	2	1	2	1	0	0	3	1	3	1	2	0	4	3	2	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:117237196A>G	uc003pxm.2	+	8	869	c.806A>G	c.(805-807)AAA>AGA	p.K269R		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	269					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						ATGATGTACAAAACTCACTGC	0.313													16	70					0	0	1	0	0		G	117237196	G	G	117237196	3	3	27	1	0	0	0	0	1	0	0	0	13292	14	1	3	836	3	RFX6	6	117237196	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	123646	117237196	53877871	3291	25642											
ROS1	6098	broad.mit.edu	37	chr6	117715341	117715341	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaccagttcatccatgatgAaatacattctttgataaagc	15	13	5	8	0	2	3	1	3	1	0	3	3	3	3	2	0	3	1	2	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:117715341A>G	uc003pxp.1	-	10	1347	c.1148T>C	c.(1147-1149)TTC>TCC	p.F383S	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	383	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		ATCCATGATGAAATACATTCT	0.338			T	GOPC|ROS1	glioblastoma|NSCLC								4	56					0	0	1	0	0		G	117715341	G	G	117715341	3	3	27	1	0	0	0	0	1	0	0	0	13556	246	9	3	6031	3	ROS1	6	117715341	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	478145	117715341	53399726	3292	25643											
DCBLD1	285761	broad.mit.edu	37	chr6	117861842	117861842	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctataggtgtttcagggTaactctaactttcgggaccc	8	14	9	10	1	3	0	1	0	2	0	4	1	3	1	1	3	2	2	1	3	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:117861842T>C	uc003pxs.2	+	10	1238	c.1113T>C	c.(1111-1113)GGT>GGC	p.G371G	GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxr.1_Silent_p.G371G|DCBLD1_uc003pxt.1_Silent_p.G26G	NM_173674	NP_775945	Q8N8Z6	DCBD1_HUMAN	discoidin, CUB and LCCL domain containing 1	371	F5/8 type C.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(1)	1		all_cancers(87;0.171)		GBM - Glioblastoma multiforme(226;0.0447)|OV - Ovarian serous cystadenocarcinoma(136;0.0921)|all cancers(137;0.125)		TGTTTCAGGGTAACTCTAACT	0.428													3	97					0	0	1	0	0		C	117861842	C	C	117861842	2	2	27	1	0	0	0	0	0	0	0	1	4283	1625	57	3		3	DCBLD1	6	117861842	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	146501	117861842	53253225	3293	25644											
ASF1A	25842	broad.mit.edu	37	chr6	119221946	119221946	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctagacttggaatggaaaaTtatctatgtgggctctgcag	11	12	11	7	0	2	1	0	0	2	1	2	3	2	3	1	3	1	2	1	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:119221946T>C	uc011ebn.1	+	2	462	c.125T>C	c.(124-126)ATT>ACT	p.I42T		NM_014034	NP_054753	Q9Y294	ASF1A_HUMAN	ASF1 anti-silencing function 1 homolog A	42	Interaction with histone H3, CHAF1B, and HIRA.				chromatin modification|DNA repair|loss of chromatin silencing|nucleosome assembly|transcription, DNA-dependent	chromatin remodeling complex	chromatin binding|histone binding				0		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0633)|OV - Ovarian serous cystadenocarcinoma(136;0.188)		GAATGGAAAATTATCTATGTG	0.368													9	223					0	0	1	0	0		C	119221946	C	C	119221946	3	2	27	1	0	0	0	0	1	0	0	0	1038	1493	52	3	18	3	ASF1A	6	119221946	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1360104	119221946	51893121	3294	25645											
FAM184A	79632	broad.mit.edu	37	chr6	119341193	119341193	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttcatccagactttgggTtttgcttcgcaaaaaagctc	9	14	7	11	1	2	1	1	0	1	1	5	1	3	1	1	1	2	4	1	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:119341193T>G	uc003pyj.2	-	4	1630	c.1282A>C	c.(1282-1284)ACC>CCC	p.T428P	FAM184A_uc003pyk.3_Missense_Mutation_p.T308P|FAM184A_uc003pyl.3_Missense_Mutation_p.T308P	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	428	Potential.									ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						AGACTTTGGGTTTTGCTTCGC	0.398													4	74					0	0	1	0	0		G	119341193	G	G	119341193	3	3	27	1	0	0	0	0	1	0	0	0	5522	1725	60	5	2200	5	FAM184A	6	119341193	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	119247	119341193	51773874	3295	25646											
C6orf170	221322	broad.mit.edu	37	chr6	121452891	121452891	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataataaaagcttgtcaagAtcattgtctaatcagaaaga	18	11	6	6	0	4	3	3	0	1	3	4	3	4	3	0	0	1	1	0	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:121452891A>T	uc003pyo.1	-	25	2849	c.2781T>A	c.(2779-2781)GAT>GAA	p.D927E	C6orf170_uc003pyq.1_RNA|C6orf170_uc010kej.1_Missense_Mutation_p.D26E|C6orf170_uc003pyp.1_Missense_Mutation_p.D487E	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	927					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		GCTTGTCAAGATCATTGTCTA	0.279													6	32					0	0	1	0	0		T	121452891	T	T	121452891	3	4	27	1	0	0	0	0	1	0	0	0	2347	330	12	5	1024	5	C6orf170	6	121452891	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2111698	121452891	49662176	3296	25647											
GJA1	2697	broad.mit.edu	37	chr6	121768523	121768523	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgatccagtggtacatctAtggattcagcttgagtgctg	8	13	12	8	0	2	2	1	2	1	0	3	3	3	3	1	2	3	4	1	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:121768523A>G	uc003pyr.2	+	2	780	c.530A>G	c.(529-531)TAT>TGT	p.Y177C	GJA1_uc011ebo.1_Missense_Mutation_p.Y78C|GJA1_uc011ebp.1_5'UTR	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	177	Helical; (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	TGGTACATCTATGGATTCAGC	0.488													27	109					0	0	1	0	0		G	121768523	G	G	121768523	3	3	27	1	0	0	0	0	1	0	0	0	6415	449	16	3	532	3	GJA1	6	121768523	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	315632	121768523	49346544	3297	25648											
GJA1	2697	broad.mit.edu	37	chr6	121768775	121768775	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagccctgccaaagactgtgGgtctcaaaaatatgcttatt	12	11	9	9	0	1	1	1	0	1	1	2	2	1	1	2	1	3	1	2	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:121768775G>T	uc003pyr.2	+	2	1032	c.782G>T	c.(781-783)GGG>GTG	p.G261V	GJA1_uc011ebo.1_Missense_Mutation_p.G162V|GJA1_uc011ebp.1_Missense_Mutation_p.G49V	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	261	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	AAAGACTGTGGGTCTCAAAAA	0.522													7	71					8.12818e-05	8.61523e-05	1	1	0		T	121768775	T	T	121768775	3	4	27	1	0	0	0	0	1	0	0	0	6415	1232	43	5	784	5	GJA1	6	121768775	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	252	121768775	49346292	3298	25649											
SERINC1	57515	broad.mit.edu	37	chr6	122777743	122777743	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatatacagctttatagccaAccaaaatgttacaagggaca	17	9	7	8	0	0	0	0	0	0	0	0	2	0	1	2	1	5	2	2	1	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:122777743A>G	uc003pyy.1	-	3	324	c.254T>C	c.(253-255)GTT>GCT	p.V85A		NM_020755	NP_065806	Q9NRX5	SERC1_HUMAN	serine incorporator 1	85	Lumenal (Potential).				phosphatidylserine metabolic process|phospholipid biosynthetic process|positive regulation of transferase activity|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	L-serine transmembrane transporter activity|protein binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.126)		TTTATAGCCAACCAAAATGTT	0.338													9	37					0	0	1	0	0		G	122777743	G	G	122777743	3	3	27	1	0	0	0	0	1	0	0	0	14104	43	2	3	1139	3	SERINC1	6	122777743	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1008968	122777743	48337324	3299	25650											
CLVS2	134829	broad.mit.edu	37	chr6	123332155	123332155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggtggatattttgcgtGccatcttactttctttagaa	8	17	8	8	1	2	1	0	0	2	1	2	2	2	2	1	2	3	0	1	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:123332155G>A	uc003pzi.1	+	3	1284	c.415G>A	c.(415-417)GCC>ACC	p.A139T		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	139	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						TATTTTGCGTGCCATCTTACT	0.383													8	116					0	0	1	0	0		A	123332155	A	A	123332155	3	1	27	1	0	0	0	0	1	0	0	0	3575	1319	46	2	421	2	CLVS2	6	123332155	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	554412	123332155	47782912	3300	25651											
TPD52L1	7164	broad.mit.edu	37	chr6	125541286	125541286	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtagccagtgctgacttcTctagcatgctctctgaggag	8	11	11	11	0	2	2	0	2	2	0	4	3	2	3	1	1	4	4	1	1	2	3	rs150625143	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:125541286T>C	uc003pzu.1	+	2	301	c.82T>C	c.(82-84)TCT>CCT	p.S28P	TPD52L1_uc003pzv.1_Missense_Mutation_p.S28P|TPD52L1_uc003pzw.1_Missense_Mutation_p.S28P|TPD52L1_uc003pzx.1_5'UTR|TPD52L1_uc003pzy.1_5'UTR|TPD52L1_uc003pzz.1_5'UTR	NM_003287	NP_003278	Q16890	TPD53_HUMAN	tumor protein D52-like 1 isoform 1	28	Potential.				DNA fragmentation involved in apoptotic nuclear change|G2/M transition of mitotic cell cycle|induction of apoptosis|positive regulation of JNK cascade|positive regulation of MAP kinase activity	perinuclear region of cytoplasm	caspase activator activity|protein heterodimerization activity|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0265)		TGCTGACTTCTCTAGCATGCT	0.388													20	127					0	0	1	0	0		C	125541286	C	C	125541286	3	2	27	1	0	0	0	0	1	0	0	0	16424	1551	54	3	88	3	TPD52L1	6	125541286	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2209131	125541286	45573781	3301	25652											
HDDC2	51020	broad.mit.edu	37	chr6	125621699	125621699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaccggtctttgttaagaCggtcatctttgatcaccata	9	15	7	10	2	4	2	2	1	2	1	4	2	4	2	2	2	1	1	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:125621699C>T	uc003qaa.1	-	2	395	c.191G>A	c.(190-192)CGT>CAT	p.R64H	HDDC2_uc003qab.1_RNA	NM_016063	NP_057147	Q7Z4H3	HDDC2_HUMAN	HD domain containing 2	64	HD.						metal ion binding|phosphoric diester hydrolase activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0186)		TTTGTTAAGACGGTCATCTTT	0.488													11	100					0	0	1	0	0		T	125621699	T	T	125621699	3	4	27	1	0	0	0	0	1	0	0	0	7032	536	19	1	443	1	HDDC2	6	125621699	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	80413	125621699	45493368	3302	25653											
NCOA7	135112	broad.mit.edu	37	chr6	126203608	126203608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaaggccttgaaacccattGaaagagtcttatcgtctact	13	11	8	9	1	2	3	0	2	2	1	3	4	2	3	2	1	2	0	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:126203608G>A	uc010kes.2	+	9	1059	c.610G>A	c.(610-612)GAA>AAA	p.E204K	NCOA7_uc003qae.3_Missense_Mutation_p.E204K|NCOA7_uc003qah.2_Missense_Mutation_p.E204K|NCOA7_uc003qai.2_Missense_Mutation_p.E204K|NCOA7_uc010ket.2_Missense_Mutation_p.E100K|NCOA7_uc003qaf.2_Missense_Mutation_p.E204K|NCOA7_uc003qag.2_Missense_Mutation_p.E204K	NM_181782	NP_861447	Q8NI08	NCOA7_HUMAN	nuclear receptor coactivator 7 isoform 1	204					cell wall macromolecule catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)		GAAACCCATTGAAAGAGTCTT	0.338													10	40					0	0	1	0	0		A	126203608	A	A	126203608	3	1	27	1	0	0	0	0	1	0	0	0	10253	1291	45	4	632	4	NCOA7	6	126203608	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	581909	126203608	44911459	3303	25654											
HINT3	135114	broad.mit.edu	37	chr6	126293417	126293417	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttacagttgagaacatggTaactgttggaaaaaccattc	14	13	8	6	0	0	1	0	1	0	1	1	3	0	2	1	2	4	3	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:126293417T>C	uc003qal.3	+	3	595	c.332T>C	c.(331-333)GTA>GCA	p.V111A	HINT3_uc010keu.2_Missense_Mutation_p.V2A	NM_138571	NP_612638	Q9NQE9	HINT3_HUMAN	histidine triad nucleotide binding protein 3	111	HIT.					mitochondrion|nucleolus	hydrolase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.153)|GBM - Glioblastoma multiforme(226;0.0321)		GAGAACATGGTAACTGTTGGA	0.343													16	97					0	0	1	0	0		C	126293417	C	C	126293417	3	2	27	1	0	0	0	0	1	0	0	0	7129	1638	57	3	342	3	HINT3	6	126293417	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	89809	126293417	44821650	3304	25655											
RSPO3	84870	broad.mit.edu	37	chr6	127476519	127476519	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcaaagggtaacctgtgTcccccaacaaatgagacaag	15	6	9	11	0	1	1	1	1	0	1	2	2	2	1	3	1	3	2	3	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:127476519T>C	uc003qar.2	+	4	860	c.570T>C	c.(568-570)TGT>TGC	p.C190C	RSPO3_uc003qas.1_Silent_p.C190C	NM_032784	NP_116173	Q9BXY4	RSPO3_HUMAN	R-spondin 3 precursor	190	TSP type-1.					extracellular region	heparin binding				0				GBM - Glioblastoma multiforme(226;0.0555)		GTAACCTGTGTCCCCCAACAA	0.433													4	57					0	0	1	0	0		C	127476519	C	C	127476519	2	2	27	1	0	0	0	0	0	0	0	1	13736	1673	58	3		3	RSPO3	6	127476519	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1183102	127476519	43638548	3305	25656											
RNF146	81847	broad.mit.edu	37	chr6	127608346	127608346	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaaacctagcaagagagagCtctgctgacggagcggacag	13	5	14	9	2	1	3	0	1	1	2	1	6	1	5	1	2	5	4	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:127608346C>T	uc003qav.2	+	3	747	c.588C>T	c.(586-588)AGC>AGT	p.S196S	RNF146_uc003qat.2_Silent_p.S195S|RNF146_uc003qau.2_Silent_p.S195S|RNF146_uc003qaw.2_Silent_p.S195S	NM_030963	NP_112225	Q9NTX7	RN146_HUMAN	ring finger protein 146	196					positive regulation of canonical Wnt receptor signaling pathway|protein autoubiquitination|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol	poly-ADP-D-ribose binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1				GBM - Glioblastoma multiforme(226;0.0407)|all cancers(137;0.2)		CAAGAGAGAGCTCTGCTGACG	0.468													6	63					0	0	1	0	0		T	127608346	T	T	127608346	2	4	27	1	0	0	0	0	0	0	0	1	13473	796	28	2		2	RNF146	6	127608346	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	131827	127608346	43506721	3306	25657											
C6orf174	387104	broad.mit.edu	37	chr6	127796643	127796643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttggccacgtagatgcgcGcctcggtgatgatggtgctc	5	10	15	11	5	0	3	0	2	0	1	2	3	0	3	2	3	2	3	2	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:127796643G>A	uc003qbd.2	-	6	3393	c.2528C>T	c.(2527-2529)GCG>GTG	p.A843V	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	843						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		GTAGATGCGCGCCTCGGTGAT	0.652													31	110					0	0	1	0	0		A	127796643	A	A	127796643	3	1	27	1	0	0	0	0	1	0	0	0	2348	1087	38	1	323	1	C6orf174	6	127796643	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	188297	127796643	43318424	3307	25658											
C6orf174	387104	broad.mit.edu	37	chr6	127836177	127836177	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgtccatctcggttctcaGctcatcgatctcgttctgag	5	14	8	14	4	5	1	2	1	4	0	11	2	6	1	1	1	1	3	1	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:127836177G>T	uc003qbd.2	-	3	1982	c.1117C>A	c.(1117-1119)CTG>ATG	p.L373M		NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	373	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		TCGGTTCTCAGCTCATCGATC	0.537													7	106					2.0095e-06	2.17775e-06	1	1	0		T	127836177	T	T	127836177	3	4	27	1	0	0	0	0	1	0	0	0	2348	962	34	5	1746	5	C6orf174	6	127836177	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39534	127836177	43278890	3308	25659											
C6orf174	387104	broad.mit.edu	37	chr6	127837089	127837089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgccggttcctggggttttgCccgcagaagaggaggatgga	7	9	17	8	2	0	2	0	0	0	2	1	5	1	5	3	6	2	3	3	6	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:127837089C>T	uc003qbd.2	-	2	1536	c.671G>A	c.(670-672)GGC>GAC	p.G224D		NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	224	Gly-rich.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		TGGGGTTTTGCCCGCAGAAGA	0.692													4	22					0	0	1	0	0		T	127837089	T	T	127837089	3	4	27	1	0	0	0	0	1	0	0	0	2348	739	26	2	2196	2	C6orf174	6	127837089	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	912	127837089	43277978	3309	25660											
C6orf174	387104	broad.mit.edu	37	chr6	127837612	127837612	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgcgattgtctgtcgcaGcgaactgtccctcggtctag	5	10	13	13	5	2	0	0	0	2	0	5	2	3	0	2	2	2	1	2	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:127837612G>A	uc003qbd.2	-	2	1013	c.148C>T	c.(148-150)CTG>TTG	p.L50L		NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	50						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		GTCTGTCGCAGCGAACTGTCC	0.542													4	45					0	0	1	0	0		A	127837612	A	A	127837612	2	1	27	1	0	0	0	0	0	0	0	1	2348	962	34	2		2	C6orf174	6	127837612	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	523	127837612	43277455	3310	25661											
THEMIS	387357	broad.mit.edu	37	chr6	128040898	128040898	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaccaaatcattctgactaCcaatcagtacttttgaatcc	13	12	3	13	0	3	2	2	2	1	0	4	2	4	2	4	0	2	1	4	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:128040898C>A	uc003qbi.2	-	6	2148	c.1829G>T	c.(1828-1830)GGT>GTT	p.G610V	THEMIS_uc010kfa.2_Missense_Mutation_p.G513V|THEMIS_uc011ebt.1_Missense_Mutation_p.G649V|THEMIS_uc010kfb.2_Missense_Mutation_p.G575V	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	610					negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						ATTCTGACTACCAATCAGTAC	0.433													11	68					6.40141e-05	6.80234e-05	1	1	0		A	128040898	A	A	128040898	3	1	27	1	0	0	0	0	1	0	0	0	15885	507	18	5	104	5	THEMIS	6	128040898	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	203286	128040898	43074169	3311	25662											
PTPRK	5796	broad.mit.edu	37	chr6	128302346	128302346	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgtcaggtggcagcatgTccatgaaacggttcttgtca	9	12	11	9	1	4	1	2	1	2	0	5	1	5	1	1	3	2	3	1	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:128302346T>C	uc003qbk.2	-	25	3990	c.3623A>G	c.(3622-3624)GAC>GGC	p.D1208G	PTPRK_uc003qbj.2_Missense_Mutation_p.D1209G|PTPRK_uc010kfc.2_Missense_Mutation_p.D1215G|PTPRK_uc011ebu.1_Missense_Mutation_p.D1231G	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	1208	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		TGGCAGCATGTCCATGAAACG	0.453													13	61					0	0	1	0	0		C	128302346	C	C	128302346	3	2	27	1	0	0	0	0	1	0	0	0	12830	1667	58	3	720	3	PTPRK	6	128302346	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	261448	128302346	42812721	3312	25663											
PTPRK	5796	broad.mit.edu	37	chr6	128388793	128388793	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggctcaggtaggtttccCggggggagttctgcagcaaa	8	8	16	9	1	2	0	1	0	1	0	3	1	3	1	1	6	2	7	1	6	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:128388793C>T	uc003qbk.2	-	12	2395	c.2028G>A	c.(2026-2028)CCG>CCA	p.P676P	PTPRK_uc003qbj.2_Silent_p.P676P|PTPRK_uc010kfc.2_Silent_p.P676P|PTPRK_uc011ebu.1_Silent_p.P676P|PTPRK_uc003qbl.1_Silent_p.P546P|PTPRK_uc011ebv.1_Silent_p.P676P	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	676	Extracellular (Potential).|Fibronectin type-III 4.				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		GTAGGTTTCCCGGGGGGAGTT	0.547													7	103					0	0	1	0	0		T	128388793	T	T	128388793	2	4	27	1	0	0	0	0	0	0	0	1	12830	639	23	1		1	PTPRK	6	128388793	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	86447	128388793	42726274	3313	25664											
PTPRK	5796	broad.mit.edu	37	chr6	128410836	128410836	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaagtatgagcataccAtcttcatcagtttgaataat	15	12	6	8	0	3	2	2	2	1	0	3	2	3	2	1	0	3	4	1	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:128410836A>G	uc003qbk.2	-	8	1831	c.1464T>C	c.(1462-1464)GAT>GAC	p.D488D	PTPRK_uc003qbj.2_Silent_p.D488D|PTPRK_uc010kfc.2_Silent_p.D488D|PTPRK_uc011ebu.1_Silent_p.D488D|PTPRK_uc003qbl.1_Silent_p.D358D|PTPRK_uc011ebv.1_Silent_p.D488D	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	488	Extracellular (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		TGAGCATACCATCTTCATCAG	0.373													25	88					0	0	1	0	0		G	128410836	G	G	128410836	2	3	27	1	0	0	0	0	0	0	0	1	12830	231	8	3		3	PTPRK	6	128410836	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	22043	128410836	42704231	3314	25665											
LAMA2	3908	broad.mit.edu	37	chr6	129636704	129636704	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaagggcattgtttttcaAcatccagagattgttgccca	11	12	8	10	0	1	1	1	0	0	1	2	2	2	1	3	1	2	3	3	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:129636704A>G	uc003qbn.2	+	25	3744	c.3639A>G	c.(3637-3639)CAA>CAG	p.Q1213Q	LAMA2_uc003qbo.2_Silent_p.Q1213Q	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1213	Laminin IV type A 2.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TTGTTTTTCAACATCCAGAGA	0.458													4	91					0	0	1	0	0		G	129636704	G	G	129636704	2	3	27	1	0	0	0	0	0	0	0	1	8622	40	2	3		3	LAMA2	6	129636704	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1225868	129636704	41478363	3315	25666											
LAMA2	3908	broad.mit.edu	37	chr6	129704342	129704342	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acacaagagcaaagtccctgGgagaattcattaaggagctt	15	8	10	8	0	1	2	1	0	0	2	2	4	2	3	1	2	2	2	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:129704342G>T	uc003qbn.2	+	35	5140	c.5035G>T	c.(5035-5037)GGA>TGA	p.G1679*	LAMA2_uc003qbo.2_Nonsense_Mutation_p.G1679*	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1679	Domain II and I.|Potential.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		AAAGTCCCTGGGAGAATTCAT	0.458													6	61					0.0215528	0.0219246	1	1	0		T	129704342	T	T	129704342	4	4	27	1	0	0	0	0	0	1	0	0	8622	1233	43	5	5173	5	LAMA2	6	129704342	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	67638	129704342	41410725	3316	25667											
LAMA2	3908	broad.mit.edu	37	chr6	129799866	129799866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaatctgaagaaatattccGgctgcctcaaagatattgaa	16	11	7	7	1	2	4	1	2	1	2	3	4	3	4	2	1	1	1	2	1	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:129799866G>A	uc003qbn.2	+	53	7585	c.7480G>A	c.(7480-7482)GGC>AGC	p.G2494S	LAMA2_uc003qbo.2_Missense_Mutation_p.G2490S	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2494	Laminin G-like 2.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GAAATATTCCGGCTGCCTCAA	0.393													19	84					0	0	1	0	0		A	129799866	A	A	129799866	3	1	27	1	0	0	0	0	1	0	0	0	8622	1116	39	1	7694	1	LAMA2	6	129799866	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	95524	129799866	41315201	3317	25668											
LAMA2	3908	broad.mit.edu	37	chr6	129802444	129802444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttcctaagcctggttttGtggagctctcccctgtgcca	4	14	10	13	0	1	0	0	0	1	0	3	1	2	1	5	2	3	3	5	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:129802444G>A	uc003qbn.2	+	54	7714	c.7609G>A	c.(7609-7611)GTG>ATG	p.V2537M	LAMA2_uc003qbo.2_Missense_Mutation_p.V2533M|uc003qbq.2_RNA	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2537	Laminin G-like 3.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GCCTGGTTTTGTGGAGCTCTC	0.408													9	87					0	0	1	0	0		A	129802444	A	A	129802444	3	1	27	1	0	0	0	0	1	0	0	0	8622	1377	48	4	7827	4	LAMA2	6	129802444	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2578	129802444	41312623	3318	25669											
LAMA2	3908	broad.mit.edu	37	chr6	129826384	129826384	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaagaaggaattctttatGtagatggggcttccaacaga	14	10	11	6	0	1	3	0	0	1	3	2	4	2	4	1	3	2	3	1	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:129826384G>T	uc003qbn.2	+	60	8692	c.8587G>T	c.(8587-8589)GTA>TTA	p.V2863L	LAMA2_uc003qbo.2_Missense_Mutation_p.V2859L|uc003qbq.2_Intron	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2863	Laminin G-like 4.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		AATTCTTTATGTAGATGGGGC	0.398													9	78					0.000274275	0.000288501	1	1	0		T	129826384	T	T	129826384	3	4	27	1	0	0	0	0	1	0	0	0	8622	1377	48	5	8829	5	LAMA2	6	129826384	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23940	129826384	41288683	3319	25670											
L3MBTL3	84456	broad.mit.edu	37	chr6	130381225	130381225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatggattcaaagttggcatGaaattagaaggcgtggatcc	14	10	12	5	1	1	2	1	1	0	1	2	4	2	4	1	4	0	2	1	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:130381225G>A	uc003qbt.2	+	10	974	c.804G>A	c.(802-804)ATG>ATA	p.M268I	L3MBTL3_uc003qbu.2_Missense_Mutation_p.M243I	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	268	MBT 1.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		AAGTTGGCATGAAATTAGAAG	0.393													4	40					0	0	1	0	0		A	130381225	A	A	130381225	3	1	27	1	0	0	0	0	1	0	0	0	8609	1290	45	4	834	4	L3MBTL3	6	130381225	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	554841	130381225	40733842	3320	25671											
SAMD3	154075	broad.mit.edu	37	chr6	130465868	130465868	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtccacctttgtgagcctctCcctttctaaatataaagaaa	12	13	5	11	0	2	2	0	1	2	1	4	2	3	2	4	0	1	0	4	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:130465868C>T	uc003qbv.2	-	13	1686	c.1360G>A	c.(1360-1362)GAG>AAG	p.E454K	SAMD3_uc003qbx.2_Missense_Mutation_p.E454K|SAMD3_uc003qbw.2_Missense_Mutation_p.E454K	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	454										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		GTGAGCCTCTCCCTTTCTAAA	0.443													5	75					0	0	1	0	0		T	130465868	T	T	130465868	3	4	27	1	0	0	0	0	1	0	0	0	13845	864	30	4	206	4	SAMD3	6	130465868	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	84643	130465868	40649199	3321	25672											
EPB41L2	2037	broad.mit.edu	37	chr6	131220650	131220650	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttggcatgatgtaggtcaAcaccatacatggaaagcctc	12	9	9	11	0	1	1	1	1	0	0	2	2	1	2	3	3	3	2	3	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:131220650A>T	uc003qch.2	-	8	1399	c.1217T>A	c.(1216-1218)GTT>GAT	p.V406D	EPB41L2_uc003qcg.1_Missense_Mutation_p.V406D|EPB41L2_uc011eby.1_Missense_Mutation_p.V406D|EPB41L2_uc003qci.2_Missense_Mutation_p.V406D|EPB41L2_uc010kfk.2_Missense_Mutation_p.V406D|EPB41L2_uc010kfl.1_Missense_Mutation_p.V406D	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	406	FERM.				cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		ATGTAGGTCAACACCATACAT	0.428													4	56					0	0	1	0	0		T	131220650	T	T	131220650	3	4	27	1	0	0	0	0	1	0	0	0	5161	43	2	5	1848	5	EPB41L2	6	131220650	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	754782	131220650	39894417	3322	25673											
EPB41L2	2037	broad.mit.edu	37	chr6	131277431	131277431	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgctctccgatgtttccttCtctctcttctggcggcgtag	2	16	9	14	3	4	0	0	0	4	0	8	1	5	0	2	2	1	3	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:131277431C>T	uc003qch.2	-	2	377	c.195G>A	c.(193-195)GAG>GAA	p.E65E	EPB41L2_uc003qcg.1_Silent_p.E65E|EPB41L2_uc011eby.1_Silent_p.E65E|EPB41L2_uc003qci.2_Silent_p.E65E|EPB41L2_uc010kfk.2_Silent_p.E65E|EPB41L2_uc010kfl.1_Silent_p.E65E	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	65					cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		ATGTTTCCTTCTCTCTCTTCT	0.363													10	144					0	0	1	0	0		T	131277431	T	T	131277431	2	4	27	1	0	0	0	0	0	0	0	1	5161	912	32	4		4	EPB41L2	6	131277431	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	56781	131277431	39837636	3323	25674											
EPB41L2	2037	broad.mit.edu	37	chr6	131277633	131277633	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcagtagtcatggccacaGcttatgctgtaatcaaaaca	13	11	7	10	0	3	0	3	0	0	0	3	0	3	0	1	1	3	4	1	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:131277633G>T	uc003qch.2	-	2	175	c.-7C>A	c.(-9--5)AGCTG>AGATG		EPB41L2_uc003qcg.1_Translation_Start_Site|EPB41L2_uc011eby.1_Translation_Start_Site|EPB41L2_uc003qci.2_Translation_Start_Site|EPB41L2_uc010kfk.2_Translation_Start_Site|EPB41L2_uc010kfl.1_Translation_Start_Site	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2						cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		CATGGCCACAGCTTATGCTGT	0.393													4	60					0.00909568	0.0093211	1	1	0		T	131277633	T	T	131277633	1	4	27	1	0	0	0	0	0	0	0	0	5161	986	34	5		5	EPB41L2	6	131277633	Translation_Start_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	202	131277633	39837434	3324	25675											
MED23	9439	broad.mit.edu	37	chr6	131915302	131915302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggaacccaaggattttcctCtcgtgcattcatagcgcatt	9	13	8	11	2	2	0	1	0	1	0	4	2	3	2	2	2	3	2	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:131915302C>T	uc003qcs.1	-	23	3343	c.3169G>A	c.(3169-3171)GAG>AAG	p.E1057K	MED23_uc003qcq.2_Missense_Mutation_p.E1063K|MED23_uc003qcr.1_5'Flank|MED23_uc011eca.1_Missense_Mutation_p.E698K	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	1057					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		GGATTTTCCTCTCGTGCATTC	0.433													5	67					0	0	1	0	0		T	131915302	T	T	131915302	3	4	27	1	0	0	0	0	1	0	0	0	9459	922	32	4	972	4	MED23	6	131915302	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	637669	131915302	39199765	3325	25676											
MED23	9439	broad.mit.edu	37	chr6	131915477	131915477	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agataagtcactggacgatcTgccaagaaaaaaacatacca	19	6	7	9	1	2	2	1	0	1	2	2	4	2	3	2	1	3	0	2	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:131915477T>C	uc003qcs.1	-	23	3170	c.2996_splice	c.e23-1	p.D999_splice	MED23_uc003qcq.2_Splice_Site_p.D1005_splice|MED23_uc003qcr.1_5'Flank|MED23_uc011eca.1_Intron	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a						regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		CTGGACGATCTGCCAAGAAAA	0.393													4	93					0	0	1	0	0		C	131915477	C	C	131915477	5	2	27	1	0	0	0	0	0	0	1	0	9459	1594	55	3	1147	3	MED23	6	131915477	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	175	131915477	39199590	3326	25677											
MED23	9439	broad.mit.edu	37	chr6	131927653	131927653	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggaatgaggtattggaaTctgtagcttggagttgtcat	10	14	14	3	0	2	1	1	1	1	0	2	4	2	4	0	4	1	4	0	4	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:131927653T>A	uc003qcs.1	-	13	1507	c.1333A>T	c.(1333-1335)ATT>TTT	p.I445F	MED23_uc003qcq.2_Missense_Mutation_p.I451F|MED23_uc011eca.1_Missense_Mutation_p.I86F|MED23_uc003qct.1_Missense_Mutation_p.I451F|MED23_uc011ecb.1_RNA	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	445					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		GGTATTGGAATCTGTAGCTTG	0.348													8	69					0	0	1	0	0		A	131927653	A	A	131927653	3	1	27	1	0	0	0	0	1	0	0	0	9459	1435	50	5	2848	5	MED23	6	131927653	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12176	131927653	39187414	3327	25678											
ENPP3	5169	broad.mit.edu	37	chr6	131992414	131992414	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaattcattcaaaatacAtgagagctatgtatcctacc	14	12	7	8	0	2	1	2	1	0	1	3	3	3	2	2	1	3	2	2	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:131992414A>G	uc003qcu.3	+	8	936	c.589A>G	c.(589-591)ATG>GTG	p.M197V	ENPP3_uc010kfn.1_RNA|ENPP3_uc011ecc.1_Missense_Mutation_p.M163V|ENPP3_uc010kfo.1_RNA|ENPP3_uc010kfp.1_RNA|ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Missense_Mutation_p.M197V	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	197	Extracellular (Potential).|Phosphodiesterase.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		TTCAAAATACATGAGAGCTAT	0.378													11	108					0	0	1	0	0		G	131992414	G	G	131992414	3	3	27	1	0	0	0	0	1	0	0	0	5139	217	8	3	615	3	ENPP3	6	131992414	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	64761	131992414	39122653	3328	25679											
CTAGE9	643854	broad.mit.edu	37	chr6	132031748	132031748	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaagttcagaattggacCtgctcagcttttcacaggtt	9	13	8	11	0	4	1	4	0	0	1	4	2	4	2	2	2	2	4	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:132031748C>A	uc011ece.1	-	1	410	c.410G>T	c.(409-411)AGG>ATG	p.R137M	ENPP3_uc003qcu.3_Intron|ENPP3_uc010kfq.2_Intron|ENPP3_uc003qcv.2_Intron	NM_001145659	NP_001139131	A4FU28	CTGE9_HUMAN	CTAGE family, member 4-like	137	Potential.					integral to membrane					0						AGAATTGGACCTGCTCAGCTT	0.418													13	231					4.14922e-12	4.61121e-12	1	1	0		A	132031748	A	A	132031748	3	1	27	1	0	0	0	0	1	0	0	0	3999	681	24	5	1927	5	CTAGE9	6	132031748	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	39334	132031748	39083319	3329	25680											
ENPP1	5167	broad.mit.edu	37	chr6	132190497	132190497	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggattttttttttctcctaGgcatggaacaaggcagttgt	8	16	11	6	0	1	0	0	0	1	0	2	2	1	2	1	4	1	3	1	4	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:132190497G>A	uc011ecf.1	+	13	1294	c.1274_splice	c.e13-1	p.G425_splice	ENPP1_uc003qcy.2_Splice_Site_p.G55_splice	NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase						3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	TTTTCTCCTAGGCATGGAACA	0.318													3	49					0	0	1	0	0		A	132190497	A	A	132190497	5	1	27	1	0	0	0	0	0	0	1	0	5137	1014	35	4	1323	4	ENPP1	6	132190497	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	158749	132190497	38924570	3330	25681											
MOXD1	26002	broad.mit.edu	37	chr6	132636881	132636881	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggtaataaagaaggtaTgagagacacatttcactcct	14	11	9	7	0	1	3	1	1	0	2	2	4	2	3	1	2	0	2	1	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:132636881T>C	uc003qdf.2	-	10	1500	c.1401A>G	c.(1399-1401)TCA>TCG	p.S467S	MOXD1_uc003qde.2_Silent_p.S399S	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	467	Lumenal (Potential).				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		AAAGAAGGTATGAGAGACACA	0.373													11	119					0	0	1	0	0		C	132636881	C	C	132636881	2	2	27	1	0	0	0	0	0	0	0	1	9738	1451	51	3		3	MOXD1	6	132636881	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	446384	132636881	38478186	3331	25682											
MOXD1	26002	broad.mit.edu	37	chr6	132695860	132695860	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttccatggcatattctagAtggtaatcttgctgagcatc	9	16	8	8	0	2	2	0	1	2	1	4	2	3	2	1	2	2	4	1	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:132695860A>G	uc003qdf.2	-	2	420	c.321T>C	c.(319-321)CAT>CAC	p.H107H	MOXD1_uc003qde.2_Silent_p.H39H	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	107	Lumenal (Potential).|DOMON.				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		CATATTCTAGATGGTAATCTT	0.338													10	78					0	0	1	0	0		G	132695860	G	G	132695860	2	3	27	1	0	0	0	0	0	0	0	1	9738	330	12	3		3	MOXD1	6	132695860	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	58979	132695860	38419207	3332	25683											
TAAR5	9038	broad.mit.edu	37	chr6	132909949	132909949	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgagttgaagtaagcaaAccagataaagatgtcaaaga	18	7	11	5	0	1	5	1	2	0	3	1	5	1	5	1	1	2	4	1	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:132909949A>C	uc003qdk.2	-	1	929	c.877T>G	c.(877-879)TTT>GTT	p.F293V		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	293	Helical; Name=7; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		AAGTAAGCAAACCAGATAAAG	0.488													11	97					0	0	1	0	0		C	132909949	C	C	132909949	3	2	27	1	0	0	0	0	1	0	0	0	15516	43	2	5	140	5	TAAR5	6	132909949	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	214089	132909949	38205118	3333	25684											
VNN2	8875	broad.mit.edu	37	chr6	133072393	133072393	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttaaatgacagcaaagcTccttttgacagactgtaagg	14	10	9	8	0	0	3	0	2	0	1	1	3	1	3	1	1	3	4	1	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:133072393T>C	uc003qdt.2	-	5	1102	c.1091A>G	c.(1090-1092)GAG>GGG	p.E364G	VNN2_uc003qds.2_Missense_Mutation_p.E73G|VNN2_uc010kgb.2_Intron|VNN2_uc003qdv.2_Missense_Mutation_p.E311G	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor	364					cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		ACAGCAAAGCTCCTTTTGACA	0.393													13	110					0	0	1	0	0		C	133072393	C	C	133072393	3	2	27	1	0	0	0	0	1	0	0	0	17209	1551	54	3	483	3	VNN2	6	133072393	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	162444	133072393	38042674	3334	25685											
C6orf192	116843	broad.mit.edu	37	chr6	133092043	133092043	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatacctttttctccttgaAtactccagtagataaaacaa	14	13	3	11	0	1	2	0	1	1	1	3	2	2	2	4	0	3	1	4	0	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:133092043A>G	uc003qdw.1	-	13	1442	c.1290T>C	c.(1288-1290)TAT>TAC	p.Y430Y	C6orf192_uc010kgd.1_RNA	NM_052831	NP_439896	Q6NT16	CF192_HUMAN	hypothetical protein LOC116843	430	Cytoplasmic (Potential).				transmembrane transport	integral to membrane				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;0.00303)|GBM - Glioblastoma multiforme(226;0.0265)		TTCTCCTTGAATACTCCAGTA	0.303													13	212					0	0	1	0	0		G	133092043	G	G	133092043	2	3	27	1	0	0	0	0	0	0	0	1	2352	108	4	3		3	C6orf192	6	133092043	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19650	133092043	38023024	3335	25686											
EYA4	2070	broad.mit.edu	37	chr6	133834178	133834178	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacaagaacaacgttggaggTatgtgtggctttttcaatct	11	14	10	6	1	2	1	1	0	1	1	2	2	2	2	0	3	3	3	0	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:133834178T>C	uc003qec.3	+	16	1959	c.1501_splice	c.e16+2	p.G501_splice	EYA4_uc011ecq.1_Splice_Site_p.G447_splice|EYA4_uc011ecr.1_Splice_Site_p.G453_splice|EYA4_uc003qed.3_Splice_Site_p.G501_splice|EYA4_uc003qee.3_Splice_Site_p.G478_splice|EYA4_uc011ecs.1_Splice_Site_p.G507_splice|uc003qeg.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a						anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		ACGTTGGAGGTATGTGTGGCT	0.378													6	49					0	0	1	0	0		C	133834178	C	C	133834178	5	2	27	1	0	0	0	0	0	0	1	0	5339	1652	57	3	1561	3	EYA4	6	133834178	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	742135	133834178	37280889	3336	25687											
TCF21	6943	broad.mit.edu	37	chr6	134210807	134210807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacgcgcgagagcgggcccGcatgcgagtgctgagcaagg	9	3	17	12	6	0	2	0	1	0	1	0	4	0	2	1	2	5	3	1	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:134210807G>A	uc003qei.3	+	1	548	c.272G>A	c.(271-273)CGC>CAC	p.R91H	uc003qeg.1_5'Flank|TCF21_uc003qej.2_Missense_Mutation_p.R91H	NM_003206	NP_003197	O43680	TCF21_HUMAN	transcription factor 21	91	Basic motif.				branching involved in ureteric bud morphogenesis|mesoderm development|negative regulation of androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus	androgen receptor binding|E-box binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity				0	Colorectal(23;0.221)|Breast(56;0.247)			GBM - Glioblastoma multiforme(68;0.00518)|OV - Ovarian serous cystadenocarcinoma(155;0.00783)		GAGCGGGCCCGCATGCGAGTG	0.682													24	70					0	0	1	0	0		A	134210807	A	A	134210807	3	1	27	1	0	0	0	0	1	0	0	0	15716	1087	38	1	274	1	TCF21	6	134210807	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	376629	134210807	36904260	3337	25688											
TCF21	6943	broad.mit.edu	37	chr6	134210965	134210965	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgacaaatacgagaacgggTacattcacccggtcaacctg	14	6	9	12	4	2	1	2	0	0	1	2	3	2	1	2	2	4	1	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:134210965T>C	uc003qei.3	+	1	706	c.430T>C	c.(430-432)TAC>CAC	p.Y144H	uc003qeg.1_5'Flank|TCF21_uc003qej.2_Missense_Mutation_p.Y144H	NM_003206	NP_003197	O43680	TCF21_HUMAN	transcription factor 21	144					branching involved in ureteric bud morphogenesis|mesoderm development|negative regulation of androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus	androgen receptor binding|E-box binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity				0	Colorectal(23;0.221)|Breast(56;0.247)			GBM - Glioblastoma multiforme(68;0.00518)|OV - Ovarian serous cystadenocarcinoma(155;0.00783)		CGAGAACGGGTACATTCACCC	0.667													7	76					0	0	1	0	0		C	134210965	C	C	134210965	3	2	27	1	0	0	0	0	1	0	0	0	15716	1638	57	3	432	3	TCF21	6	134210965	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	158	134210965	36904102	3338	25689											
ALDH8A1	64577	broad.mit.edu	37	chr6	135271131	135271131	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatctatatatgagctacAaggtaaaaattttccatcta	17	13	5	6	0	2	2	0	1	2	1	3	2	3	2	1	1	2	2	1	1	10	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:135271131A>G	uc003qew.2	-	1	114	c.61T>C	c.(61-63)TGT>CGT	p.C21R	ALDH8A1_uc003qex.2_Missense_Mutation_p.C21R|ALDH8A1_uc010kgh.2_5'UTR|ALDH8A1_uc011ecx.1_Missense_Mutation_p.C21R	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	21					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		TATGAGCTACAAGGTAAAAAT	0.398													12	81					0	0	1	0	0		G	135271131	G	G	135271131	3	3	27	1	0	0	0	0	1	0	0	0	505	130	5	3	1430	3	ALDH8A1	6	135271131	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1060166	135271131	35843936	3339	25690											
AHI1	54806	broad.mit.edu	37	chr6	135751062	135751062	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtactgtctttggtatggAttaacaaacgttttccattg	11	16	8	6	1	1	0	0	0	1	0	2	1	2	1	1	2	3	3	1	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:135751062A>T	uc003qgi.2	-	18	2834	c.2450T>A	c.(2449-2451)ATC>AAC	p.I817N	AHI1_uc003qgf.2_RNA|AHI1_uc003qgg.2_Missense_Mutation_p.I267N|AHI1_uc003qgh.2_Missense_Mutation_p.I817N|AHI1_uc003qgj.2_Missense_Mutation_p.I817N|AHI1_uc003qgk.3_RNA|AHI1_uc003qgl.3_Missense_Mutation_p.I817N	NM_001134831	NP_001128303	Q8N157	AHI1_HUMAN	Abelson helper integration site 1 isoform a	817	WD 5.					adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		TTTGGTATGGATTAACAAACG	0.299													3	13					0	0	1	0	0		T	135751062	T	T	135751062	3	4	27	1	0	0	0	0	1	0	0	0	413	333	12	5	1245	5	AHI1	6	135751062	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	479931	135751062	35364005	3340	25691											
AHI1	54806	broad.mit.edu	37	chr6	135778714	135778714	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagaaatcataaaatctgActtaagtctatcagttcggt	14	13	8	6	1	4	2	2	2	2	1	5	3	4	2	0	1	0	1	0	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:135778714A>G	uc003qgi.2	-	9	1453	c.1069T>C	c.(1069-1071)TCA>CCA	p.S357P	AHI1_uc003qgh.2_Missense_Mutation_p.S357P|AHI1_uc003qgj.2_Missense_Mutation_p.S357P|AHI1_uc003qgk.3_RNA|AHI1_uc003qgl.3_Missense_Mutation_p.S357P	NM_001134831	NP_001128303	Q8N157	AHI1_HUMAN	Abelson helper integration site 1 isoform a	357						adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		ATAAAATCTGACTTAAGTCTA	0.358													6	86					0	0	1	0	0		G	135778714	G	G	135778714	3	3	27	1	0	0	0	0	1	0	0	0	413	275	10	3	2662	3	AHI1	6	135778714	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	27652	135778714	35336353	3341	25692											
PDE7B	27115	broad.mit.edu	37	chr6	136173140	136173140	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgccactatggttaaatgTcttgtttaatggttgaggta	10	16	10	5	0	1	1	0	1	1	0	1	1	1	1	1	3	1	4	1	3	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:136173140T>C	uc003qgp.2	+	1	307	c.4T>C	c.(4-6)TCT>CCT	p.S2P		NM_018945	NP_061818	Q9NP56	PDE7B_HUMAN	phosphodiesterase 7B	2					signal transduction|synaptic transmission	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(1)	1	Colorectal(23;0.24)			OV - Ovarian serous cystadenocarcinoma(155;0.0136)|GBM - Glioblastoma multiforme(68;0.0147)	Dyphylline(DB00651)|Ketotifen(DB00920)	TGGTTAAATGTCTTGTTTAAT	0.403													7	109					0	0	1	0	0		C	136173140	C	C	136173140	3	2	27	1	0	0	0	0	1	0	0	0	11671	1667	58	3	6	3	PDE7B	6	136173140	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	394426	136173140	34941927	3342	25693											
PDE7B	27115	broad.mit.edu	37	chr6	136472325	136472325	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtaacactgttgtgccAcctcttcaatacccatggac	9	11	7	14	0	2	0	1	0	1	0	2	1	2	1	4	2	3	2	4	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:136472325A>G	uc003qgp.2	+	6	713	c.410A>G	c.(409-411)CAC>CGC	p.H137R	uc003qgq.1_Intron|PDE7B_uc003qgr.2_Missense_Mutation_p.H189R	NM_018945	NP_061818	Q9NP56	PDE7B_HUMAN	phosphodiesterase 7B	137					signal transduction|synaptic transmission	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(1)	1	Colorectal(23;0.24)			OV - Ovarian serous cystadenocarcinoma(155;0.0136)|GBM - Glioblastoma multiforme(68;0.0147)	Dyphylline(DB00651)|Ketotifen(DB00920)	CTGTTGTGCCACCTCTTCAAT	0.383													9	63					0	0	1	0	0		G	136472325	G	G	136472325	3	3	27	1	0	0	0	0	1	0	0	0	11671	159	6	3	432	3	PDE7B	6	136472325	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	299185	136472325	34642742	3343	25694											
BCLAF1	9774	broad.mit.edu	37	chr6	136599062	136599062	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaccatcaggataaaacgaGgaacggcccctagactcatc	14	5	8	14	2	2	1	2	0	0	1	3	4	2	3	4	3	2	0	4	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:136599062G>T	uc003qgx.1	-	4	1210	c.957C>A	c.(955-957)TCC>TCA	p.S319S	BCLAF1_uc003qgw.1_Silent_p.S319S|BCLAF1_uc003qgy.1_Silent_p.S317S|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.S317S	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	319					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		GATAAAACGAGGAACGGCCCC	0.398													6	121					2.0095e-06	2.17775e-06	1	1	0		T	136599062	T	T	136599062	2	4	27	1	0	0	0	0	0	0	0	1	1384	987	35	5		5	BCLAF1	6	136599062	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	126737	136599062	34516005	3344	25695											
BCLAF1	9774	broad.mit.edu	37	chr6	136601001	136601001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatctagaattggagcgacCcatttcttttctcctaatca	10	15	6	10	1	4	2	1	1	3	1	5	4	4	3	2	1	1	0	2	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:136601001C>T	uc003qgx.1	-	3	257	c.4G>A	c.(4-6)GGT>AGT	p.G2S	BCLAF1_uc003qgw.1_Missense_Mutation_p.G2S|BCLAF1_uc003qgy.1_Missense_Mutation_p.G2S|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.G2S	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	2					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TTGGAGCGACCCATTTCTTTT	0.303													3	52					0	0	1	0	0		T	136601001	T	T	136601001	3	4	27	1	0	0	0	0	1	0	0	0	1384	623	22	4	2802	4	BCLAF1	6	136601001	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1939	136601001	34514066	3345	25696											
MAP7	9053	broad.mit.edu	37	chr6	136677924	136677924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttgttgtacatggaagtgCagacacctctgggcatagta	10	12	12	7	0	1	1	0	0	1	1	1	2	1	2	1	2	2	6	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:136677924C>T	uc003qgz.2	-	16	2167	c.1921G>A	c.(1921-1923)GCA>ACA	p.A641T	MAP7_uc011edf.1_Missense_Mutation_p.A626T|MAP7_uc011edg.1_Missense_Mutation_p.A671T|MAP7_uc010kgu.2_Missense_Mutation_p.A663T|MAP7_uc011edh.1_Missense_Mutation_p.A626T|MAP7_uc010kgv.2_Missense_Mutation_p.A663T|MAP7_uc010kgs.2_Missense_Mutation_p.A495T|MAP7_uc011edi.1_Missense_Mutation_p.A495T|MAP7_uc010kgq.1_Missense_Mutation_p.A547T|MAP7_uc003qha.1_Missense_Mutation_p.A604T	NM_003980	NP_003971	Q14244	MAP7_HUMAN	microtubule-associated protein 7	641					establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)		CATGGAAGTGCAGACACCTCT	0.408													5	72					0	0	1	0	0		T	136677924	T	T	136677924	3	4	27	1	0	0	0	0	1	0	0	0	9284	710	25	2	340	2	MAP7	6	136677924	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	76923	136677924	34437143	3346	25697											
PEX7	5191	broad.mit.edu	37	chr6	137187764	137187764	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaagtcttcctttttactaGgtgatcagactctgagaata	11	15	7	8	0	4	3	2	2	2	2	5	4	5	3	1	1	1	0	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:137187764G>A	uc003qhd.2	+	6	629	c.527_splice	c.e6-1	p.G176_splice	PEX7_uc010kgx.2_Splice_Site	NM_000288	NP_000279	O00628	PEX7_HUMAN	peroxisomal biogenesis factor 7						ether lipid biosynthetic process|protein import into peroxisome matrix	peroxisome	peroxisome matrix targeting signal-2 binding				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000257)|OV - Ovarian serous cystadenocarcinoma(155;0.00492)		CTTTTTACTAGGTGATCAGAC	0.393													4	32					0	0	1	0	0		A	137187764	A	A	137187764	5	1	27	1	0	0	0	0	0	0	1	0	11770	1014	35	4	548	4	PEX7	6	137187764	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	509840	137187764	33927303	3347	25698											
PEX7	5191	broad.mit.edu	37	chr6	137187813	137187813	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcagcaggagtaagaaTcgtgattcctgcacatcagg	13	7	13	8	1	1	2	1	1	0	1	3	4	2	3	1	3	2	4	1	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:137187813T>A	uc003qhd.2	+	6	677	c.575T>A	c.(574-576)ATC>AAC	p.I192N	PEX7_uc010kgx.2_RNA	NM_000288	NP_000279	O00628	PEX7_HUMAN	peroxisomal biogenesis factor 7	192					ether lipid biosynthetic process|protein import into peroxisome matrix	peroxisome	peroxisome matrix targeting signal-2 binding				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000257)|OV - Ovarian serous cystadenocarcinoma(155;0.00492)		GGAGTAAGAATCGTGATTCCT	0.428													4	32					0	0	1	0	0		A	137187813	A	A	137187813	3	1	27	1	0	0	0	0	1	0	0	0	11770	1435	50	5	597	5	PEX7	6	137187813	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	49	137187813	33927254	3348	25699											
IFNGR1	3459	broad.mit.edu	37	chr6	137519370	137519370	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attctgagtcagataaggagCtatgtgattccagacagctg	12	11	11	7	0	2	4	1	2	1	2	3	5	3	5	1	1	2	2	1	1	2	4	rs121913188		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:137519370C>A	uc003qho.2	-	7	1371	c.1268G>T	c.(1267-1269)AGC>ATC	p.S423I	IFNGR1_uc011edm.1_Missense_Mutation_p.S395I	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	423	Cytoplasmic (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	AGATAAGGAGCTATGTGATTC	0.413													7	60					0.0293803	0.0298427	1	1	0		A	137519370	A	A	137519370	3	1	27	1	0	0	0	0	1	0	0	0	7565	797	28	5	205	5	IFNGR1	6	137519370	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	331557	137519370	33595697	3349	25700											
IFNGR1	3459	broad.mit.edu	37	chr6	137519722	137519722	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtatgacgtgatgagtgAtacatattttgattcaggtt	10	16	11	4	1	1	5	1	5	0	0	1	5	1	5	0	2	1	2	0	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:137519722A>G	uc003qho.2	-	7	1019	c.916T>C	c.(916-918)TCA>CCA	p.S306P	IFNGR1_uc011edm.1_Missense_Mutation_p.S278P	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	306	Cytoplasmic (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	GTGATGAGTGATACATATTTT	0.388													6	58					0	0	1	0	0		G	137519722	G	G	137519722	3	3	27	1	0	0	0	0	1	0	0	0	7565	333	12	3	557	3	IFNGR1	6	137519722	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	352	137519722	33595345	3350	25701											
KIAA1244	57221	broad.mit.edu	37	chr6	138583990	138583990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcaactgctgcttctgcGccttgaggagctgaaggatg	7	10	15	9	1	1	2	0	2	1	0	1	4	1	4	1	3	6	4	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:138583990G>A	uc003qhu.2	+	12	1370	c.1370G>A	c.(1369-1371)CGC>CAC	p.R457H		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	457					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CTGCTTCTGCGCCTTGAGGAG	0.602													8	36					0	0	1	0	0		A	138583990	A	A	138583990	3	1	27	1	0	0	0	0	1	0	0	0	8233	1087	38	1	1416	1	KIAA1244	6	138583990	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1064268	138583990	32531077	3351	25702											
ECT2L	345930	broad.mit.edu	37	chr6	139203916	139203916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggggcccagctcactgtGtgggagaaatagtcacgaag	12	7	14	8	1	2	1	2	0	0	1	2	3	2	1	1	3	1	1	1	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:139203916G>A	uc003qif.1	+	14	2039	c.1936G>A	c.(1936-1938)GTG>ATG	p.V646M	ECT2L_uc011edq.1_Missense_Mutation_p.V577M	NM_001077706	NP_001071174	Q008S8	ECT2L_HUMAN	epithelial cell transforming sequence 2	646	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0						AGCTCACTGTGTGGGAGAAAT	0.403													8	60					0	0	1	0	0		A	139203916	A	A	139203916	3	1	27	1	0	0	0	0	1	0	0	0	4908	1377	48	4	1990	4	ECT2L	6	139203916	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	619926	139203916	31911151	3352	25703											
HECA	51696	broad.mit.edu	37	chr6	139487472	139487472	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcggtaggccggtggaccTggagaaggacgactaccaga	10	6	15	10	3	0	2	0	0	0	2	1	6	0	4	3	6	1	1	3	6	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:139487472T>C	uc003qin.2	+	2	608	c.323T>C	c.(322-324)CTG>CCG	p.L108P		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	108					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		CCGGTGGACCTGGAGAAGGAC	0.512													11	103					0	0	1	0	0		C	139487472	C	C	139487472	3	2	27	1	0	0	0	0	1	0	0	0	7054	1580	55	3	329	3	HECA	6	139487472	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	283556	139487472	31627595	3353	25704											
TXLNB	167838	broad.mit.edu	37	chr6	139591760	139591760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttgctcagtacgatgttcatCcagctgtacacatggagata	11	12	9	9	1	2	1	2	0	0	1	3	3	3	1	1	1	4	5	1	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:139591760C>T	uc011eds.1	-	4	685	c.520G>A	c.(520-522)GAT>AAT	p.D174N		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	174	Potential.					cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		CGATGTTCATCCAGCTGTACA	0.393													5	45					0	0	1	0	0		T	139591760	T	T	139591760	3	4	27	1	0	0	0	0	1	0	0	0	16814	855	30	4	1562	4	TXLNB	6	139591760	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	104288	139591760	31523307	3354	25705											
NMBR	4829	broad.mit.edu	37	chr6	142397169	142397169	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaagcacaattttagccagGcgtttccgtgtttccatctg	9	13	8	11	2	1	0	0	0	1	0	3	0	3	0	3	1	2	3	3	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:142397169G>A	uc003qiu.2	-	3	930	c.789C>T	c.(787-789)CGC>CGT	p.R263R		NM_002511	NP_002502	P28336	NMBR_HUMAN	neuromedin B receptor	263	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			central_nervous_system(3)|breast(1)	4	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		TTTTAGCCAGGCGTTTCCGTG	0.393													3	39					0	0	1	0	0		A	142397169	A	A	142397169	2	1	27	1	0	0	0	0	0	0	0	1	10506	1190	42	2		2	NMBR	6	142397169	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2805409	142397169	28717898	3355	25706											
GPR126	57211	broad.mit.edu	37	chr6	142688767	142688767	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggacctttacttctccAtgctaccctaacgactaccc	8	12	5	16	1	2	0	0	0	2	0	3	2	2	1	4	1	5	1	4	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:142688767A>G	uc010khc.2	+	3	576	c.165A>G	c.(163-165)CCA>CCG	p.P55P	GPR126_uc010khd.2_Silent_p.P55P|GPR126_uc010khe.2_Silent_p.P55P|GPR126_uc010khf.2_Silent_p.P55P|GPR126_uc003qix.2_Silent_p.P55P	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	55	CUB.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		TTACTTCTCCATGCTACCCTA	0.517													3	69					0	0	1	0	0		G	142688767	G	G	142688767	2	3	27	1	0	0	0	0	0	0	0	1	6655	204	8	3		3	GPR126	6	142688767	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	291598	142688767	28426300	3356	25707											
GPR126	57211	broad.mit.edu	37	chr6	142714119	142714119	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaaattggaactacacggTttatgtcgttaatatcaggt	13	13	8	7	2	1	0	1	0	0	0	2	1	1	1	1	3	2	2	1	3	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:142714119T>G	uc010khc.2	+	8	1754	c.1343T>G	c.(1342-1344)GTT>GGT	p.V448G	GPR126_uc010khd.2_Missense_Mutation_p.V420G|GPR126_uc010khe.2_Missense_Mutation_p.V448G|GPR126_uc010khf.2_Missense_Mutation_p.V420G	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	448	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		AACTACACGGTTTATGTCGTT	0.294													12	50					0	0	1	0	0		G	142714119	G	G	142714119	3	3	27	1	0	0	0	0	1	0	0	0	6655	1725	60	5	1373	5	GPR126	6	142714119	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25352	142714119	28400948	3357	25708											
GPR126	57211	broad.mit.edu	37	chr6	142741057	142741057	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgttcattgtggtaatggtGcagatctgtgggaggaatgg	9	13	16	3	0	2	1	1	0	1	1	2	3	2	3	0	5	1	3	0	5	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:142741057G>A	uc010khc.2	+	22	3546	c.3135G>A	c.(3133-3135)GTG>GTA	p.V1045V	GPR126_uc010khd.2_Silent_p.V1017V|GPR126_uc010khe.2_Silent_p.V1045V|GPR126_uc010khf.2_Silent_p.V1017V|GPR126_uc011edv.1_Silent_p.V105V	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	1045	Helical; Name=5; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		TGGTAATGGTGCAGATCTGTG	0.458													36	137					0	0	1	0	0		A	142741057	A	A	142741057	2	1	27	1	0	0	0	0	0	0	0	1	6655	1306	46	2		2	GPR126	6	142741057	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26938	142741057	28374010	3358	25709											
GPR126	57211	broad.mit.edu	37	chr6	142764510	142764510	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caagtccttgtcaaaactggCccatgctgatggagatcaaa	13	9	9	10	0	2	2	2	1	0	1	3	3	3	2	2	2	2	1	2	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:142764510C>T	uc010khc.2	+	26	4068	c.3657C>T	c.(3655-3657)GGC>GGT	p.G1219G	GPR126_uc010khd.2_Silent_p.G1191G|GPR126_uc010khe.2_Missense_Mutation_p.A1204V|GPR126_uc010khf.2_Missense_Mutation_p.A1176V|GPR126_uc011edv.1_Missense_Mutation_p.A264V	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	1219	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		TCAAAACTGGCCCATGCTGAT	0.428													45	195					0	0	1	0	0		T	142764510	T	T	142764510	2	4	27	1	0	0	0	0	0	0	0	1	6655	739	26	2		2	GPR126	6	142764510	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23453	142764510	28350557	3359	25710											
HIVEP2	3097	broad.mit.edu	37	chr6	143093789	143093789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctcttctctttccggcgtTtcctgttttcacaggtagtt	3	18	8	12	3	3	0	1	0	2	0	6	0	5	0	2	2	0	5	2	2	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:143093789T>C	uc003qjd.2	-	5	2830	c.2087A>G	c.(2086-2088)AAA>AGA	p.K696R		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	696					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		TTTCCGGCGTTTCCTGTTTTC	0.493													23	141					0	0	1	0	0		C	143093789	C	C	143093789	3	2	27	1	0	0	0	0	1	0	0	0	7203	1841	64	3	5277	3	HIVEP2	6	143093789	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	329279	143093789	28021278	3360	25711											
STX11	8676	broad.mit.edu	37	chr6	144507898	144507898	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacatcctggagtccctgtAccgagacatccgggacattc	9	8	9	15	2	0	1	0	0	0	1	4	4	3	3	5	2	1	1	5	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:144507898A>G	uc003qks.3	+	2	326	c.134A>G	c.(133-135)TAC>TGC	p.Y45C		NM_003764	NP_003755	O75558	STX11_HUMAN	syntaxin 11	45	Potential.				cellular membrane fusion|intracellular protein transport|vesicle-mediated transport	Golgi apparatus|membrane	SNAP receptor activity			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(155;2.17e-06)|GBM - Glioblastoma multiforme(68;0.0492)		GAGTCCCTGTACCGAGACATC	0.597									Familial_Hemophagocytic_Lymphohistiocytosis				6	38					0	0	1	0	0		G	144507898	G	G	144507898	3	3	27	1	0	0	0	0	1	0	0	0	15362	391	14	3	136	3	STX11	6	144507898	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1414109	144507898	26607169	3361	25712											
UTRN	7402	broad.mit.edu	37	chr6	144747473	144747473	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctgcagcagacgaacagTgagaagatcctgctcagctg	12	6	12	11	1	1	3	1	1	0	3	2	6	2	3	2	0	5	4	2	0	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:144747473T>C	uc003qkt.2	+	6	548	c.456T>C	c.(454-456)AGT>AGC	p.S152S	UTRN_uc010khq.1_Silent_p.S152S	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	152	CH 2.|Actin-binding.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		AGACGAACAGTGAGAAGATCC	0.498													10	92					0	0	1	0	0		C	144747473	C	C	144747473	2	2	27	1	0	0	0	0	0	0	0	1	17129	1693	59	3		3	UTRN	6	144747473	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	239575	144747473	26367594	3362	25713											
UTRN	7402	broad.mit.edu	37	chr6	144750813	144750813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaccatagacgccatccGtgaggtagagacactcccaa	13	6	9	13	2	1	3	1	1	0	2	3	4	3	3	4	1	0	1	4	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:144750813G>A	uc003qkt.2	+	8	883	c.791G>A	c.(790-792)CGT>CAT	p.R264H	UTRN_uc010khq.1_Missense_Mutation_p.R264H	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	264	Spectrin 1.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GACGCCATCCGTGAGGTAGAG	0.383													20	63					0	0	1	0	0		A	144750813	A	A	144750813	3	1	27	1	0	0	0	0	1	0	0	0	17129	1145	40	1	821	1	UTRN	6	144750813	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3340	144750813	26364254	3363	25714											
UTRN	7402	broad.mit.edu	37	chr6	144811253	144811253	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctaaccctagaggagtTgagaagaaatatgcgttctc	13	10	11	7	1	1	4	0	2	1	3	2	6	1	5	1	1	3	3	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:144811253T>C	uc003qkt.2	+	30	4273	c.4181T>C	c.(4180-4182)TTG>TCG	p.L1394S		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1394	Interaction with SYNM.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		CTAGAGGAGTTGAGAAGAAAT	0.463													12	117					0	0	1	0	0		C	144811253	C	C	144811253	3	2	27	1	0	0	0	0	1	0	0	0	17129	1821	63	3	4299	3	UTRN	6	144811253	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	60440	144811253	26303814	3364	25715											
UTRN	7402	broad.mit.edu	37	chr6	144835835	144835835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaggttgaaaatgtccGcgatcaagcccttattttga	10	12	8	11	2	1	2	1	2	0	0	3	3	3	2	4	1	1	1	4	1	4	4	rs115466543	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:144835835G>A	uc003qkt.2	+	36	5215	c.5123G>A	c.(5122-5124)CGC>CAC	p.R1708H		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1708	Interaction with SYNM.|Spectrin 12.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GAAAATGTCCGCGATCAAGCC	0.413													29	114					0	0	1	0	0		A	144835835	A	A	144835835	3	1	27	1	0	0	0	0	1	0	0	0	17129	1087	38	1	5265	1	UTRN	6	144835835	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	24582	144835835	26279232	3365	25716											
UTRN	7402	broad.mit.edu	37	chr6	145156925	145156925	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcttgctagggaagacgaGcacgccctcatccagcagta	10	8	11	12	2	2	1	1	0	1	1	3	3	3	2	2	1	3	4	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:145156925G>A	uc003qkt.2	+	69	9767	c.9675G>A	c.(9673-9675)GAG>GAA	p.E3225E		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	3225					muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GGGAAGACGAGCACGCCCTCA	0.512													19	245					0	0	1	0	0		A	145156925	A	A	145156925	2	1	27	1	0	0	0	0	0	0	0	1	17129	962	34	2		2	UTRN	6	145156925	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	321090	145156925	25958142	3366	25717											
FBXO30	84085	broad.mit.edu	37	chr6	146126254	146126254	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctcctagacaaaaaagcaAtgctgctgtgatcagatcta	15	10	7	9	0	3	3	1	1	2	2	4	3	3	3	1	0	3	3	1	0	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:146126254A>G	uc003qla.2	-	2	1487	c.1288T>C	c.(1288-1290)TTG>CTG	p.L430L	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	430							ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		CAAAAAAGCAATGCTGCTGTG	0.428													16	183					0	0	1	0	0		G	146126254	G	G	146126254	2	3	27	1	0	0	0	0	0	0	0	1	5754	98	4	3		3	FBXO30	6	146126254	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	969329	146126254	24988813	3367	25718											
SHPRH	257218	broad.mit.edu	37	chr6	146264379	146264379	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagttgctcttgttgacActggttccattgcaacaagg	9	13	10	9	0	2	2	1	1	1	1	3	2	3	2	1	2	3	5	1	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:146264379A>G	uc003qlf.2	-	9	2537	c.2138T>C	c.(2137-2139)GTG>GCG	p.V713A	SHPRH_uc003qld.2_Missense_Mutation_p.V713A|SHPRH_uc003qle.2_Missense_Mutation_p.V713A|SHPRH_uc003qlg.1_Missense_Mutation_p.V269A|SHPRH_uc003qlj.1_Missense_Mutation_p.V602A	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	713	Helicase ATP-binding; second part.				DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		TCTTGTTGACACTGGTTCCAT	0.463													3	58					0	0	1	0	0		G	146264379	G	G	146264379	3	3	27	1	0	0	0	0	1	0	0	0	14316	159	6	3	3045	3	SHPRH	6	146264379	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	138125	146264379	24850688	3368	25719											
GRM1	2911	broad.mit.edu	37	chr6	146720540	146720540	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgaggccaaatatatcgcgTtcaccatgtacaccacctgt	12	9	7	13	3	1	0	1	0	0	0	2	1	1	0	4	1	1	2	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:146720540T>C	uc010khw.1	+	8	2835	c.2365T>C	c.(2365-2367)TTC>CTC	p.F789L	GRM1_uc010khv.1_Missense_Mutation_p.F789L|GRM1_uc003qll.2_Missense_Mutation_p.F789L|GRM1_uc011edz.1_Missense_Mutation_p.F789L|GRM1_uc011eea.1_Missense_Mutation_p.F789L	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	789	Helical; Name=6; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	ATATATCGCGTTCACCATGTA	0.488													14	89					0	0	1	0	0		C	146720540	C	C	146720540	3	2	27	1	0	0	0	0	1	0	0	0	6812	1725	60	3	2391	3	GRM1	6	146720540	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	456161	146720540	24394527	3369	25720											
GRM1	2911	broad.mit.edu	37	chr6	146755885	146755885	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctcccaacgtatcctacGcctctgtcattctgcgggac	6	10	7	18	3	3	0	1	0	2	0	5	1	5	1	5	1	3	1	5	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:146755885G>A	uc010khw.1	+	9	4008	c.3538G>A	c.(3538-3540)GCC>ACC	p.A1180T	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	1180	Ser-rich.|Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CGTATCCTACGCCTCTGTCAT	0.617													10	67					0	0	1	0	0		A	146755885	A	A	146755885	3	1	27	1	0	0	0	0	1	0	0	0	6812	1087	38	1	3633	1	GRM1	6	146755885	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	35345	146755885	24359182	3370	25721											
STXBP5	134957	broad.mit.edu	37	chr6	147655326	147655326	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattagtgaagggactgttgTtccagaggatcgctgcaaat	11	12	12	6	1	0	2	0	1	0	1	2	4	1	4	1	2	1	4	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:147655326T>A	uc003qlz.2	+	19	2275	c.2114T>A	c.(2113-2115)GTT>GAT	p.V705D	STXBP5_uc010khz.1_Missense_Mutation_p.V705D|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Missense_Mutation_p.V376D|STXBP5_uc003qma.2_Missense_Mutation_p.V52D	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	705					exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		GGGACTGTTGTTCCAGAGGAT	0.318													6	62					0	0	1	0	0		A	147655326	A	A	147655326	3	1	27	1	0	0	0	0	1	0	0	0	15381	1725	60	5	2188	5	STXBP5	6	147655326	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	899441	147655326	23459741	3371	25722											
SASH1	23328	broad.mit.edu	37	chr6	148854021	148854021	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgacgaagagccgccttaCcgaggcccgttctgcgggcg	7	6	15	13	6	1	2	0	1	1	1	1	5	1	2	4	2	3	1	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:148854021C>T	uc003qme.1	+	14	2128	c.1653C>T	c.(1651-1653)TAC>TAT	p.Y551Y	SASH1_uc011eeb.1_Silent_p.Y312Y|SASH1_uc003qmf.1_5'UTR	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	551							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		AGCCGCCTTACCGAGGCCCGT	0.582													12	86					0	0	1	0	0		T	148854021	T	T	148854021	2	4	27	1	0	0	0	0	0	0	0	1	13873	518	18	4		4	SASH1	6	148854021	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1198695	148854021	22261046	3372	25723											
SASH1	23328	broad.mit.edu	37	chr6	148865849	148865849	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgaagctgggcccggctttGaccaggaaggtctcctgtgc	6	9	15	11	1	1	2	0	2	1	0	2	3	1	3	3	4	2	2	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:148865849G>C	uc003qme.1	+	18	3718	c.3243G>C	c.(3241-3243)TTG>TTC	p.L1081F	SASH1_uc011eeb.1_Missense_Mutation_p.L842F|SASH1_uc003qmf.1_Missense_Mutation_p.L491F	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	1081							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		GCCCGGCTTTGACCAGGAAGG	0.622													4	13					0	0	1	0	0		C	148865849	C	C	148865849	3	2	27	1	0	0	0	0	1	0	0	0	13873	1281	45	5	3313	5	SASH1	6	148865849	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11828	148865849	22249218	3373	25724											
UST	10090	broad.mit.edu	37	chr6	149340278	149340278	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtattttctcttctaggatAtcaatgagtgtattcttgaa	10	19	7	5	0	4	2	1	2	3	0	5	3	4	3	0	1	0	2	0	1	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:149340278A>G	uc003qmg.2	+	6	981	c.685A>G	c.(685-687)ATC>GTC	p.I229V		NM_005715	NP_005706	Q9Y2C2	UST_HUMAN	uronyl-2-sulfotransferase	229	Lumenal (Potential).				protein sulfation	Golgi membrane|integral to membrane	sulfotransferase activity			ovary(2)	2		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.78e-10)|GBM - Glioblastoma multiforme(68;0.138)		CTTCTAGGATATCAATGAGTG	0.398													6	72					0	0	1	0	0		G	149340278	G	G	149340278	3	3	27	1	0	0	0	0	1	0	0	0	17119	449	16	3	707	3	UST	6	149340278	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	474429	149340278	21774789	3374	25725											
TAB2	23118	broad.mit.edu	37	chr6	149699487	149699487	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttggaatgtccagttccTctggtgcttcaaattcagca	8	16	8	9	0	3	0	2	0	1	0	5	1	5	1	2	2	2	3	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:149699487T>C	uc003qmj.2	+	3	614	c.436T>C	c.(436-438)TCT>CCT	p.S146P	TAB2_uc011eec.1_Missense_Mutation_p.S114P|TAB2_uc010kia.1_Missense_Mutation_p.S146P|TAB2_uc010kib.1_Missense_Mutation_p.S146P|TAB2_uc003qmk.3_RNA	NM_015093	NP_055908	Q9NYJ8	TAB2_HUMAN	mitogen-activated protein kinase kinase kinase 7	146					activation of MAPK activity|heart development|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	K63-linked polyubiquitin binding|zinc ion binding				0						GTCCAGTTCCTCTGGTGCTTC	0.443													6	60					0	0	1	0	0		C	149699487	C	C	149699487	3	2	27	1	0	0	0	0	1	0	0	0	15521	1551	54	3	442	3	TAB2	6	149699487	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	359209	149699487	21415580	3375	25726											
TAB2	23118	broad.mit.edu	37	chr6	149699659	149699659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catacatggtgtacctccacCtgtacttaacagtccacagg	11	10	7	13	0	0	0	0	0	0	0	2	0	2	0	4	2	4	2	4	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:149699659C>T	uc003qmj.2	+	3	786	c.608C>T	c.(607-609)CCT>CTT	p.P203L	TAB2_uc011eec.1_Missense_Mutation_p.P171L|TAB2_uc010kia.1_Missense_Mutation_p.P203L|TAB2_uc010kib.1_Missense_Mutation_p.P203L|TAB2_uc003qmk.3_RNA	NM_015093	NP_055908	Q9NYJ8	TAB2_HUMAN	mitogen-activated protein kinase kinase kinase 7	203					activation of MAPK activity|heart development|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	K63-linked polyubiquitin binding|zinc ion binding				0						GTACCTCCACCTGTACTTAAC	0.428													8	138					0	0	1	0	0		T	149699659	T	T	149699659	3	4	27	1	0	0	0	0	1	0	0	0	15521	681	24	4	614	4	TAB2	6	149699659	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	172	149699659	21415408	3376	25727											
TAB2	23118	broad.mit.edu	37	chr6	149700267	149700267	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcatgcggaatcagcccAcactcttcatatccacaaac	13	8	6	14	1	4	0	3	0	1	0	5	1	5	1	2	2	3	0	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:149700267A>G	uc003qmj.2	+	3	1394	c.1216A>G	c.(1216-1218)ACA>GCA	p.T406A	TAB2_uc011eec.1_Missense_Mutation_p.T374A|TAB2_uc010kia.1_Missense_Mutation_p.T406A|TAB2_uc010kib.1_Missense_Mutation_p.T406A|TAB2_uc003qmk.3_RNA	NM_015093	NP_055908	Q9NYJ8	TAB2_HUMAN	mitogen-activated protein kinase kinase kinase 7	406					activation of MAPK activity|heart development|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	K63-linked polyubiquitin binding|zinc ion binding				0						GAATCAGCCCACACTCTTCAT	0.512													8	68					0	0	1	0	0		G	149700267	G	G	149700267	3	3	27	1	0	0	0	0	1	0	0	0	15521	159	6	3	1222	3	TAB2	6	149700267	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	608	149700267	21414800	3377	25728											
C6orf72	116254	broad.mit.edu	37	chr6	149900053	149900053	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggcctatgacatctggtTccagtttgcaactaattgtc	9	14	9	9	0	1	1	0	1	1	0	3	1	2	1	2	2	2	3	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:149900053T>C	uc003qmq.1	+	4	400	c.373T>C	c.(373-375)TCC>CCC	p.S125P	C6orf72_uc010kie.1_Missense_Mutation_p.S5P	NM_138785	NP_620140	Q9NU53	CF072_HUMAN	hypothetical protein LOC116254 precursor	125	Extracellular (Potential).					integral to membrane					0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;9.66e-12)|GBM - Glioblastoma multiforme(68;0.171)		GACATCTGGTTCCAGTTTGCA	0.303													4	55					0	0	1	0	0		C	149900053	C	C	149900053	3	2	27	1	0	0	0	0	1	0	0	0	2374	1783	62	3	387	3	C6orf72	6	149900053	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	199786	149900053	21215014	3378	25729											
KATNA1	11104	broad.mit.edu	37	chr6	149924471	149924471	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaacactacggcttccttaAgcaactttttagcttctact	10	15	5	11	1	1	0	0	0	1	0	2	0	2	0	1	1	6	4	1	1	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:149924471A>G	uc003qmr.1	-	5	707	c.662T>C	c.(661-663)CTT>CCT	p.L221P	KATNA1_uc003qms.2_Missense_Mutation_p.L221P|KATNA1_uc003qmt.2_Intron|KATNA1_uc011eed.1_Intron	NM_007044	NP_008975	O75449	KTNA1_HUMAN	katanin p60 subunit A 1	221					cell division|interphase of mitotic cell cycle|mitosis	microtubule|microtubule organizing center|spindle pole	ATP binding|microtubule binding|microtubule-severing ATPase activity|protein heterodimerization activity			skin(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;2.95e-12)|GBM - Glioblastoma multiforme(68;0.173)		GGCTTCCTTAAGCAACTTTTT	0.378													6	55					0	0	1	0	0		G	149924471	G	G	149924471	3	3	27	1	0	0	0	0	1	0	0	0	8000	72	3	3	837	3	KATNA1	6	149924471	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	24418	149924471	21190596	3379	25730											
KATNA1	11104	broad.mit.edu	37	chr6	149944357	149944357	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacagttgtacttggacgaTtaccatgtgatttagggtca	10	14	11	6	1	1	2	1	2	0	0	1	4	1	3	1	2	2	2	1	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:149944357T>C	uc003qmr.1	-	3	428	c.383A>G	c.(382-384)AAT>AGT	p.N128S	KATNA1_uc003qms.2_Missense_Mutation_p.N128S|KATNA1_uc003qmt.2_Missense_Mutation_p.N128S|KATNA1_uc011eed.1_Missense_Mutation_p.N128S	NM_007044	NP_008975	O75449	KTNA1_HUMAN	katanin p60 subunit A 1	128	Interaction with microtubule.				cell division|interphase of mitotic cell cycle|mitosis	microtubule|microtubule organizing center|spindle pole	ATP binding|microtubule binding|microtubule-severing ATPase activity|protein heterodimerization activity			skin(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;2.95e-12)|GBM - Glioblastoma multiforme(68;0.173)		ACTTGGACGATTACCATGTGA	0.403													15	102					0	0	1	0	0		C	149944357	C	C	149944357	3	2	27	1	0	0	0	0	1	0	0	0	8000	1493	52	3	1124	3	KATNA1	6	149944357	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	19886	149944357	21170710	3380	25731											
LATS1	9113	broad.mit.edu	37	chr6	150001426	150001426	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgcatacaaagccttagtAtctacttttcttgctagaca	11	15	6	9	0	2	1	0	0	2	1	2	1	2	1	1	0	5	4	1	0	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:150001426A>G	uc003qmu.1	-	5	2726	c.2178T>C	c.(2176-2178)GAT>GAC	p.D726D	LATS1_uc010kif.1_Silent_p.D621D|LATS1_uc003qmv.1_Silent_p.D726D	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	726	Protein kinase.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		AAGCCTTAGTATCTACTTTTC	0.388													5	139					0	0	1	0	0		G	150001426	G	G	150001426	2	3	27	1	0	0	0	0	0	0	0	1	8662	446	16	3		3	LATS1	6	150001426	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	57069	150001426	21113641	3381	25732											
LATS1	9113	broad.mit.edu	37	chr6	150001570	150001570	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatctttctcatttgatcCtgggcatcttgagataatcc	9	15	7	10	0	3	2	1	2	3	1	6	3	5	2	2	1	1	2	2	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:150001570C>A	uc003qmu.1	-	5	2582	c.2034G>T	c.(2032-2034)CAG>CAT	p.Q678H	LATS1_uc010kif.1_Missense_Mutation_p.Q573H|LATS1_uc003qmv.1_Missense_Mutation_p.Q678H	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	678					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		TCATTTGATCCTGGGCATCTT	0.313													6	100					1.06961e-07	1.16939e-07	1	1	0		A	150001570	A	A	150001570	3	1	27	1	0	0	0	0	1	0	0	0	8662	680	24	5	1374	5	LATS1	6	150001570	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	144	150001570	21113497	3382	25733											
LRP11	84918	broad.mit.edu	37	chr6	150147481	150147481	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcttttctgttcttccCtgaggaactactatctgcag	6	17	6	12	0	4	1	0	1	4	0	6	2	6	2	2	1	3	2	2	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:150147481C>A	uc003qng.2	-	6	1591	c.1267G>T	c.(1267-1269)GGG>TGG	p.G423W	LRP11_uc003qnh.1_Missense_Mutation_p.G423W	NM_032832	NP_116221	Q86VZ4	LRP11_HUMAN	low density lipoprotein receptor-related protein	423	Extracellular (Potential).					integral to membrane	receptor activity				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;4.56e-12)|GBM - Glioblastoma multiforme(68;0.225)		CTGTTCTTCCCTGAGGAACTA	0.393													11	85					0.000673444	0.000703801	1	1	0		A	150147481	A	A	150147481	3	1	27	1	0	0	0	0	1	0	0	0	8971	681	24	5	243	5	LRP11	6	150147481	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	145911	150147481	20967586	3383	25734											
IYD	389434	broad.mit.edu	37	chr6	150713543	150713543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttgtgaaggacccagacGtgaagcacaagattcgaaag	14	7	13	7	2	0	4	0	2	0	2	1	6	0	5	1	2	1	2	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:150713543G>A	uc003qnu.1	+	3	573	c.433G>A	c.(433-435)GTG>ATG	p.V145M	IYD_uc003qnv.1_Missense_Mutation_p.V145M|IYD_uc003qnw.1_RNA|IYD_uc003qnx.1_Missense_Mutation_p.V145M|IYD_uc010kik.1_Missense_Mutation_p.V63M	NM_203395	NP_981932	Q6PHW0	IYD1_HUMAN	iodotyrosine dehalogenase 1 isoform 2	145	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process	integral to membrane|plasma membrane				ovary(2)	2		Ovarian(120;0.028)	BRCA - Breast invasive adenocarcinoma(37;0.215)	OV - Ovarian serous cystadenocarcinoma(155;4.16e-12)		GGACCCAGACGTGAAGCACAA	0.488													29	77					0	0	1	0	0		A	150713543	A	A	150713543	3	1	27	1	0	0	0	0	1	0	0	0	7948	1145	40	1	443	1	IYD	6	150713543	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	566062	150713543	20401524	3384	25735											
MTHFD1L	25902	broad.mit.edu	37	chr6	151270190	151270190	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaataaataagactgaTccgagcacactgacagaaga	17	6	10	8	1	0	5	0	2	0	3	1	7	1	6	1	1	1	1	1	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:151270190T>C	uc003qob.2	+	16	1915	c.1647T>C	c.(1645-1647)GAT>GAC	p.D549D	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Silent_p.D550D|MTHFD1L_uc003qoc.2_Silent_p.D497D	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	549	Formyltetrahydrofolate synthetase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		ATAAGACTGATCCGAGCACAC	0.443													5	63					0	0	1	0	0		C	151270190	C	C	151270190	2	2	27	1	0	0	0	0	0	0	0	1	9946	1432	50	3		3	MTHFD1L	6	151270190	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	556647	151270190	19844877	3385	25736											
MTHFD1L	25902	broad.mit.edu	37	chr6	151331062	151331062	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtgttagtggcaacggtgCgagctctgaagatgcatgga	9	11	15	6	2	1	2	0	1	1	1	1	4	1	3	0	3	4	4	0	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:151331062C>T	uc003qob.2	+	21	2501	c.2233C>T	c.(2233-2235)CGA>TGA	p.R745*	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Nonsense_Mutation_p.R746*|MTHFD1L_uc003qoc.2_Nonsense_Mutation_p.R693*	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	745	Formyltetrahydrofolate synthetase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		GGCAACGGTGCGAGCTCTGAA	0.488													7	91					0	0	1	0	0		T	151331062	T	T	151331062	4	4	27	1	0	0	0	0	0	1	0	0	9946	760	27	1	2315	1	MTHFD1L	6	151331062	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	60872	151331062	19784005	3386	25737											
ZBTB2	57621	broad.mit.edu	37	chr6	151687891	151687891	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgaatgagcgggtaggCgtgcagaaacttgatgccct	9	10	13	9	2	0	4	0	3	0	1	1	4	1	4	2	2	4	2	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:151687891C>T	uc003qoh.2	-	3	445	c.310G>A	c.(310-312)GCC>ACC	p.A104T		NM_020861	NP_065912	Q8N680	ZBTB2_HUMAN	zinc finger and BTB domain containing 2	104					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.63e-11)		AGCGGGTAGGCGTGCAGAAAC	0.522													8	112					0	0	1	0	0		T	151687891	T	T	151687891	3	4	27	1	0	0	0	0	1	0	0	0	17553	768	27	1	1238	1	ZBTB2	6	151687891	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	356829	151687891	19427176	3387	25738											
C6orf211	79624	broad.mit.edu	37	chr6	151790133	151790133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccataagaacattaaaagCtgaaattcaggttggtctgc	15	11	8	7	0	2	2	1	1	1	1	2	2	2	2	1	2	4	2	1	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:151790133C>T	uc003qok.1	+	5	1473	c.1214C>T	c.(1213-1215)GCT>GTT	p.A405V	C6orf211_uc011ees.1_Missense_Mutation_p.A286V	NM_024573	NP_078849	Q9H993	CF211_HUMAN	hypothetical protein LOC79624	405							protein binding				0			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)		ACATTAAAAGCTGAAATTCAG	0.473													6	62					0	0	1	0	0		T	151790133	T	T	151790133	3	4	27	1	0	0	0	0	1	0	0	0	2357	797	28	2	1232	2	C6orf211	6	151790133	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	102242	151790133	19324934	3388	25739											
C6orf97	80129	broad.mit.edu	37	chr6	151869554	151869554	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaaacgatcatgaggcTggcttcagaagtcaacagag	15	6	12	8	1	3	4	3	1	0	3	3	6	3	4	0	2	2	2	0	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:151869554T>C	uc003qol.2	+	5	793	c.704T>C	c.(703-705)CTG>CCG	p.L235P		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	235	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		ATCATGAGGCTGGCTTCAGAA	0.398													5	48					0	0	1	0	0		C	151869554	C	C	151869554	3	2	27	1	0	0	0	0	1	0	0	0	2377	1580	55	3	722	3	C6orf97	6	151869554	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	79421	151869554	19245513	3389	25740											
ESR1	2099	broad.mit.edu	37	chr6	152415579	152415579	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagaaggaccatatccacCgagtcctggacaagatcaca	16	5	9	11	1	1	2	1	0	0	2	3	6	3	4	4	2	0	0	4	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:152415579C>T	uc003qom.3	+	9	1799	c.1429C>T	c.(1429-1431)CGA>TGA	p.R477*	ESR1_uc010kin.2_Nonsense_Mutation_p.R477*|ESR1_uc010kio.2_Nonsense_Mutation_p.R479*|ESR1_uc010kip.2_Nonsense_Mutation_p.R476*|ESR1_uc003qon.3_Nonsense_Mutation_p.R477*|ESR1_uc003qoo.3_Nonsense_Mutation_p.R477*|ESR1_uc010kiq.2_Nonsense_Mutation_p.R75*|ESR1_uc010kir.2_Nonsense_Mutation_p.R216*|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Nonsense_Mutation_p.R62*|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Nonsense_Mutation_p.R146*|ESR1_uc011eex.1_Intron|ESR1_uc011eey.1_Intron	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	477	Steroid-binding.|Interaction with AKAP13.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	CCATATCCACCGAGTCCTGGA	0.552													19	107					0	0	1	0	0		T	152415579	T	T	152415579	4	4	27	1	0	0	0	0	0	1	0	0	5264	644	23	1	1455	1	ESR1	6	152415579	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	546025	152415579	18699488	3390	25741											
SYNE1	23345	broad.mit.edu	37	chr6	152453334	152453334	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagttcatcagcagaagAccaggaagacaaatcctatg	15	7	9	10	0	2	3	2	0	0	3	4	4	4	4	3	1	1	2	3	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:152453334A>T	uc010kiw.2	-	144	26619	c.26017T>A	c.(26017-26019)TCT>ACT	p.S8673T	SYNE1_uc010kiv.2_Missense_Mutation_p.S3197T|SYNE1_uc003qos.3_Missense_Mutation_p.S3197T|SYNE1_uc003qot.3_Missense_Mutation_p.S8625T|SYNE1_uc003qou.3_Missense_Mutation_p.S8673T|SYNE1_uc003qop.3_Missense_Mutation_p.S858T|SYNE1_uc011eez.1_Missense_Mutation_p.S875T|SYNE1_uc003qoq.3_Missense_Mutation_p.S875T|SYNE1_uc003qor.3_Missense_Mutation_p.S1596T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	8673	Ser-rich.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCAGCAGAAGACCAGGAAGAC	0.502										HNSCC(10;0.0054)			13	121					0	0	1	0	0		T	152453334	T	T	152453334	3	4	27	1	0	0	0	0	1	0	0	0	15470	275	10	5	388	5	SYNE1	6	152453334	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37755	152453334	18661733	3391	25742											
SYNE1	23345	broad.mit.edu	37	chr6	152473104	152473104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagcaaaaaccttgagtctgCgcaagatggaggtgacacgc	13	7	12	9	2	1	3	0	2	1	1	1	4	1	4	1	2	3	2	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:152473104C>T	uc010kiw.2	-	134	24904	c.24302G>A	c.(24301-24303)CGC>CAC	p.R8101H	SYNE1_uc010kiv.2_Missense_Mutation_p.R2625H|SYNE1_uc003qos.3_Missense_Mutation_p.R2625H|SYNE1_uc003qot.3_Missense_Mutation_p.R8030H|SYNE1_uc003qou.3_Missense_Mutation_p.R8101H|SYNE1_uc003qop.3_Missense_Mutation_p.R263H|SYNE1_uc011eez.1_Missense_Mutation_p.R303H|SYNE1_uc003qoq.3_Missense_Mutation_p.R303H|SYNE1_uc003qor.3_Missense_Mutation_p.R1001H	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	8101	Spectrin 29.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTTGAGTCTGCGCAAGATGGA	0.488										HNSCC(10;0.0054)			4	31					0	0	1	0	0		T	152473104	T	T	152473104	3	4	27	1	0	0	0	0	1	0	0	0	15470	768	27	1	2216	1	SYNE1	6	152473104	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	19770	152473104	18641963	3392	25743											
SYNE1	23345	broad.mit.edu	37	chr6	152558018	152558018	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accagacccacgcttgggatGctgctttccaccacctccag	8	8	8	17	1	0	1	0	0	0	1	2	2	2	2	6	1	2	3	6	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:152558018G>A	uc010kiw.2	-	109	20735	c.20133C>T	c.(20131-20133)AGC>AGT	p.S6711S	SYNE1_uc010kiv.2_Silent_p.S1235S|SYNE1_uc003qos.3_Silent_p.S1235S|SYNE1_uc003qot.3_Silent_p.S6640S|SYNE1_uc003qou.3_Silent_p.S6711S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6711	Cytoplasmic (Potential).|Potential.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CGCTTGGGATGCTGCTTTCCA	0.517										HNSCC(10;0.0054)			10	50					0	0	1	0	0		A	152558018	A	A	152558018	2	1	27	1	0	0	0	0	0	0	0	1	15470	1310	46	2		2	SYNE1	6	152558018	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	84914	152558018	18557049	3393	25744											
SYNE1	23345	broad.mit.edu	37	chr6	152599230	152599230	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggaaccctcacctgcatGttgagctgcttatcatgcag	8	11	10	12	0	2	1	2	1	0	0	2	2	2	2	2	1	5	6	2	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:152599230G>A	uc010kiw.2	-	98	19169	c.18567C>T	c.(18565-18567)AAC>AAT	p.N6189N	SYNE1_uc010kiv.2_Silent_p.N713N|SYNE1_uc003qos.3_Silent_p.N713N|SYNE1_uc003qot.3_Silent_p.N6118N|SYNE1_uc003qou.3_Silent_p.N6189N|SYNE1_uc010kiy.1_Silent_p.N368N	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6189	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCACCTGCATGTTGAGCTGCT	0.582										HNSCC(10;0.0054)			43	109					0	0	1	0	0		A	152599230	A	A	152599230	2	1	27	1	0	0	0	0	0	0	0	1	15470	1368	48	4		4	SYNE1	6	152599230	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	41212	152599230	18515837	3394	25745											
SYNE1	23345	broad.mit.edu	37	chr6	152652942	152652942	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttgatctttcagatctTcaatagcatactttctctcc	8	18	4	11	0	5	2	2	1	3	1	7	2	6	2	1	0	2	2	1	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:152652942T>C	uc010kiw.2	-	78	13480	c.12878A>G	c.(12877-12879)GAA>GGA	p.E4293G	SYNE1_uc003qot.3_Missense_Mutation_p.E4222G|SYNE1_uc003qou.3_Missense_Mutation_p.E4293G|SYNE1_uc010kiz.2_Missense_Mutation_p.E48G	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4293	Cytoplasmic (Potential).|Spectrin 12.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTTCAGATCTTCAATAGCATA	0.383										HNSCC(10;0.0054)			8	96					0	0	1	0	0		C	152652942	C	C	152652942	3	2	27	1	0	0	0	0	1	0	0	0	15470	1783	62	3	13864	3	SYNE1	6	152652942	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53712	152652942	18462125	3395	25746											
SYNE1	23345	broad.mit.edu	37	chr6	152771898	152771898	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcccgcactgggagtttcAcacagagttcctcgatgagc	8	9	12	12	2	1	2	1	1	0	1	4	4	3	3	2	2	1	3	2	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:152771898A>G	uc010kiw.2	-	27	3859	c.3257T>C	c.(3256-3258)GTG>GCG	p.V1086A	SYNE1_uc003qot.3_Missense_Mutation_p.V1093A|SYNE1_uc003qou.3_Missense_Mutation_p.V1086A|SYNE1_uc010kjb.1_Missense_Mutation_p.V1069A|SYNE1_uc003qow.2_Missense_Mutation_p.V381A|SYNE1_uc003qox.1_Missense_Mutation_p.V602A	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1086	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TGGGAGTTTCACACAGAGTTC	0.468										HNSCC(10;0.0054)			16	206					0	0	1	0	0		G	152771898	G	G	152771898	3	3	27	1	0	0	0	0	1	0	0	0	15470	159	6	3	23689	3	SYNE1	6	152771898	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	118956	152771898	18343169	3396	25747											
SYNE1	23345	broad.mit.edu	37	chr6	152771937	152771937	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtaaccttttctcacagAgatgatgaggacctttgtca	10	13	9	9	0	2	3	2	2	1	1	3	5	2	4	2	1	1	2	2	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:152771937A>T	uc010kiw.2	-	27	3820	c.3218T>A	c.(3217-3219)CTC>CAC	p.L1073H	SYNE1_uc003qot.3_Missense_Mutation_p.L1080H|SYNE1_uc003qou.3_Missense_Mutation_p.L1073H|SYNE1_uc010kjb.1_Missense_Mutation_p.L1056H|SYNE1_uc003qow.2_Missense_Mutation_p.L368H|SYNE1_uc003qox.1_Missense_Mutation_p.L589H	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1073	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTTCTCACAGAGATGATGAGG	0.433										HNSCC(10;0.0054)			14	167					0	0	1	0	0		T	152771937	T	T	152771937	3	4	27	1	0	0	0	0	1	0	0	0	15470	304	11	5	23728	5	SYNE1	6	152771937	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	39	152771937	18343130	3397	25748											
MYCT1	80177	broad.mit.edu	37	chr6	153043137	153043137	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaagcttccctggaacaaGcaaattcctttccaagaaaa	16	8	6	11	0	0	1	0	0	0	1	3	3	3	2	3	1	3	2	3	1	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:153043137G>T	uc003qpd.3	+	2	465	c.457G>T	c.(457-459)GCA>TCA	p.A153S	MYCT1_uc010kjc.1_Missense_Mutation_p.A105S|MYCT1_uc003qpc.3_Missense_Mutation_p.A153S	NM_025107	NP_079383	Q8N699	MYCT1_HUMAN	myc target 1	153						nucleus				ovary(1)	1		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;1.33e-10)|BRCA - Breast invasive adenocarcinoma(81;0.143)		CCTGGAACAAGCAAATTCCTT	0.498													7	97					0.248553	0.249545	1	1	0		T	153043137	T	T	153043137	3	4	27	1	0	0	0	0	1	0	0	0	10040	971	34	5	463	5	MYCT1	6	153043137	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	271200	153043137	18071930	3398	25749											
FBXO5	26271	broad.mit.edu	37	chr6	153293537	153293537	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagccagtggggttctgAacataacatattctctggtt	11	12	10	8	0	2	2	0	1	2	1	3	2	2	2	1	3	3	2	1	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:153293537A>C	uc003qpg.2	-	4	1071	c.962T>G	c.(961-963)TTC>TGC	p.F321C	FBXO5_uc003qph.2_Missense_Mutation_p.F275C	NM_012177	NP_036309	Q9UKT4	FBX5_HUMAN	F-box only protein 5 isoform a	321					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm|spindle	metal ion binding|protein binding				0		Ovarian(120;0.125)		OV - Ovarian serous cystadenocarcinoma(155;4.38e-10)|BRCA - Breast invasive adenocarcinoma(81;0.0893)		TGGGGTTCTGAACATAACATA	0.333													14	74					0	0	1	0	0		C	153293537	C	C	153293537	3	2	27	1	0	0	0	0	1	0	0	0	5772	246	9	5	389	5	FBXO5	6	153293537	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	250400	153293537	17821530	3399	25750											
MTRF1L	54516	broad.mit.edu	37	chr6	153312324	153312324	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaattctttttttacctgaAtttttctagcattctgtctt	9	22	3	7	0	4	1	0	1	4	0	4	1	4	1	1	0	2	1	1	0	5	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:153312324A>T	uc003qpi.3	-	6	1043	c.938T>A	c.(937-939)ATT>AAT	p.I313N	MTRF1L_uc003qpl.3_Intron|MTRF1L_uc011efa.1_Missense_Mutation_p.I277N|MTRF1L_uc003qpj.3_Missense_Mutation_p.I171N|MTRF1L_uc003qpk.3_Intron	NM_019041	NP_061914	Q9UGC7	RF1ML_HUMAN	mitochondrial translational release factor	313						mitochondrion	translation release factor activity, codon specific				0		Ovarian(120;0.125)		OV - Ovarian serous cystadenocarcinoma(155;4.24e-10)|BRCA - Breast invasive adenocarcinoma(81;0.0888)		TTTTACCTGAATTTTTCTAGC	0.254													3	9					0	0	1	0	0		T	153312324	T	T	153312324	3	4	27	1	0	0	0	0	1	0	0	0	9978	101	4	5	212	5	MTRF1L	6	153312324	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	18787	153312324	17802743	3400	25751											
OPRM1	4988	broad.mit.edu	37	chr6	154360916	154360916	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcatggccctctactccatCgtgtgcgtggtggggctctt	4	13	12	12	2	3	0	1	0	2	0	5	0	4	0	2	4	2	1	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:154360916C>T	uc003qpr.2	+	1	474	c.237C>T	c.(235-237)ATC>ATT	p.I79I	OPRM1_uc011efb.1_Silent_p.I127I|OPRM1_uc011efc.1_Intron|OPRM1_uc011efd.1_Intron|OPRM1_uc011efe.1_Silent_p.I172I|OPRM1_uc003qpn.2_Silent_p.I79I|OPRM1_uc003qpo.1_Silent_p.I79I|OPRM1_uc011eff.1_Silent_p.I79I|OPRM1_uc011efg.1_Silent_p.I79I|OPRM1_uc011efh.1_Silent_p.I79I|OPRM1_uc003qpq.1_Silent_p.I79I|OPRM1_uc003qpt.1_Silent_p.I79I|OPRM1_uc011efi.1_Silent_p.I79I|OPRM1_uc003qpp.2_RNA|OPRM1_uc003qps.2_RNA	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	79	Helical; Name=1; (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	TCTACTCCATCGTGTGCGTGG	0.617													15	57					0	0	1	0	0		T	154360916	T	T	154360916	2	4	27	1	0	0	0	0	0	0	0	1	10906	874	31	1		1	OPRM1	6	154360916	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1048592	154360916	16754151	3401	25752											
RBM16	22828	broad.mit.edu	37	chr6	155113964	155113964	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttttctctagagtaaaaTagtgagagtactaaacttat	14	17	6	4	0	1	2	0	1	1	2	2	3	1	2	0	0	2	2	0	0	8	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:155113964T>C	uc003qqa.2	+	6	561	c.329T>C	c.(328-330)ATA>ACA	p.I110T	RBM16_uc011efj.1_Missense_Mutation_p.I176T|RBM16_uc011efk.1_Missense_Mutation_p.I155T|RBM16_uc003qpz.2_Missense_Mutation_p.I110T|RBM16_uc010kji.2_Missense_Mutation_p.I131T	NM_014892	NP_055707	Q9UPN6	SCAF8_HUMAN	RNA-binding motif protein 16	110	CID.				mRNA processing|RNA splicing	nuclear matrix|spliceosomal complex	nucleotide binding|RNA binding|RNA polymerase core enzyme binding				0		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;2.33e-15)|BRCA - Breast invasive adenocarcinoma(81;0.00524)		TAGAGTAAAATAGTGAGAGTA	0.279													6	46					0	0	1	0	0		C	155113964	C	C	155113964	3	2	27	1	0	0	0	0	1	0	0	0	13143	1406	49	3	347	3	RBM16	6	155113964	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	753048	155113964	16001103	3402	25753											
RBM16	22828	broad.mit.edu	37	chr6	155153655	155153655	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttttagtcaaccagaaaGaccttttttagctcctggaa	12	15	6	8	0	1	2	1	0	0	2	2	3	2	3	3	1	2	1	3	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:155153655G>T	uc003qqa.2	+	21	3174	c.2942G>T	c.(2941-2943)AGA>ATA	p.R981I	TIAM2_uc003qqb.2_5'Flank|RBM16_uc011efj.1_Missense_Mutation_p.R1047I|RBM16_uc011efk.1_Missense_Mutation_p.R1026I|RBM16_uc003qpz.2_Missense_Mutation_p.R981I|RBM16_uc010kji.2_Intron	NM_014892	NP_055707	Q9UPN6	SCAF8_HUMAN	RNA-binding motif protein 16	981	Pro-rich.				mRNA processing|RNA splicing	nuclear matrix|spliceosomal complex	nucleotide binding|RNA binding|RNA polymerase core enzyme binding				0		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;2.33e-15)|BRCA - Breast invasive adenocarcinoma(81;0.00524)		CAACCAGAAAGACCTTTTTTA	0.458													14	156					4.93089e-13	5.49462e-13	1	1	0		T	155153655	T	T	155153655	3	4	27	1	0	0	0	0	1	0	0	0	13143	942	33	5	3020	5	RBM16	6	155153655	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39691	155153655	15961412	3403	25754											
TIAM2	26230	broad.mit.edu	37	chr6	155503432	155503432	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataagcgacgttcttcccgAtggcctggcgtatggggaag	8	10	14	9	4	1	0	0	0	1	0	2	3	2	1	2	4	1	2	2	4	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:155503432A>G	uc003qqb.2	+	15	4053	c.2780A>G	c.(2779-2781)GAT>GGT	p.D927G	TIAM2_uc003qqe.2_Missense_Mutation_p.D927G|TIAM2_uc010kjj.2_Missense_Mutation_p.D460G|TIAM2_uc003qqf.2_Missense_Mutation_p.D303G|TIAM2_uc011efl.1_Missense_Mutation_p.D263G|TIAM2_uc003qqg.2_Missense_Mutation_p.D239G	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	927	PDZ.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		GTTCTTCCCGATGGCCTGGCG	0.493													6	86					0	0	1	0	0		G	155503432	G	G	155503432	3	3	27	1	0	0	0	0	1	0	0	0	15916	333	12	3	2818	3	TIAM2	6	155503432	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	349777	155503432	15611635	3404	25755											
TIAM2	26230	broad.mit.edu	37	chr6	155577773	155577773	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagggcaggcaggactccAagagcacttctcccgggaaa	11	5	13	12	1	1	2	0	1	1	1	3	4	2	4	2	4	1	3	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:155577773A>G	uc003qqb.2	+	29	5897	c.4624A>G	c.(4624-4626)AAG>GAG	p.K1542E	TIAM2_uc003qqe.2_Missense_Mutation_p.K1542E|TIAM2_uc010kjj.2_Missense_Mutation_p.K1104E|TIAM2_uc003qqf.2_Missense_Mutation_p.K918E|TIAM2_uc011efl.1_Missense_Mutation_p.K886E|TIAM2_uc003qqg.2_Missense_Mutation_p.K854E|TIAM2_uc003qqh.2_Missense_Mutation_p.K467E|uc003qqi.1_RNA	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1542					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		GCAGGACTCCAAGAGCACTTC	0.587													9	29					0	0	1	0	0		G	155577773	G	G	155577773	3	3	27	1	0	0	0	0	1	0	0	0	15916	131	5	3	4718	3	TIAM2	6	155577773	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	74341	155577773	15537294	3405	25756											
ARID1B	57492	broad.mit.edu	37	chr6	157495225	157495225	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacggcaaagaagaaggcActccacagcccgagagcaag	16	1	12	12	2	0	4	0	0	0	4	1	5	1	4	2	2	2	3	2	2	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:157495225A>G	uc003qqn.2	+	10	3048	c.2896A>G	c.(2896-2898)ACT>GCT	p.T966A	ARID1B_uc003qqo.2_Missense_Mutation_p.T979A|ARID1B_uc003qqp.2_Missense_Mutation_p.T966A|ARID1B_uc010kjl.2_Missense_Mutation_p.T164A	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		AGAAGAAGGCACTCCACAGCC	0.527													6	46					0	0	1	0	0		G	157495225	G	G	157495225	3	3	27	1	0	0	0	0	1	0	0	0	914	159	6	3	3151	3	ARID1B	6	157495225	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1917452	157495225	13619842	3406	25757											
ARID1B	57492	broad.mit.edu	37	chr6	157525017	157525017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttactcctgaggcgtggCgtgtgatgatgtcccttaaa	8	12	12	9	2	0	3	0	3	0	0	2	3	2	3	2	2	1	1	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:157525017C>T	uc003qqn.2	+	19	5010	c.4858C>T	c.(4858-4860)CGT>TGT	p.R1620C	ARID1B_uc003qqo.2_Missense_Mutation_p.R1580C|ARID1B_uc003qqp.2_Missense_Mutation_p.R1567C	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1625					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TGAGGCGTGGCGTGTGATGAT	0.403													20	664					0	0	1	0	0		T	157525017	T	T	157525017	3	4	27	1	0	0	0	0	1	0	0	0	914	768	27	1	4986	1	ARID1B	6	157525017	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	29792	157525017	13590050	3407	25758											
C6orf35	729515	broad.mit.edu	37	chr6	157714011	157714011	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttggaaatattgattgcatTttacttcgaaagtcgttcat	11	17	8	5	2	1	1	1	1	0	0	3	3	1	2	0	1	2	3	0	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:157714011T>G	uc003sih.3	-	4	611	c.348A>C	c.(346-348)AAA>AAC	p.K116N		NM_018452	NP_060922	Q9NWH2	CF035_HUMAN	hypothetical protein LOC729515	116						integral to membrane					0						TTGATTGCATTTTACTTCGAA	0.353													13	124					0	0	1	0	0		G	157714011	G	G	157714011	3	3	27	1	0	0	0	0	1	0	0	0	2366	1838	64	5	81	5	C6orf35	6	157714011	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	188994	157714011	13401056	3408	25759											
TULP4	56995	broad.mit.edu	37	chr6	158873219	158873219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcaagcctctgctcaccGtcagcttcacctcgggagac	9	8	8	16	2	5	1	4	0	1	1	6	2	5	1	3	1	3	2	3	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:158873219G>A	uc003qrf.2	+	5	2135	c.778G>A	c.(778-780)GTC>ATC	p.V260I	TULP4_uc011efo.1_Missense_Mutation_p.V260I|TULP4_uc003qrg.2_Missense_Mutation_p.V260I	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	260					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		TCTGCTCACCGTCAGCTTCAC	0.537													8	143					0	0	1	0	0		A	158873219	A	A	158873219	3	1	27	1	0	0	0	0	1	0	0	0	16802	1145	40	1	796	1	TULP4	6	158873219	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1159208	158873219	12241848	3409	25760											
TULP4	56995	broad.mit.edu	37	chr6	158925039	158925039	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggaggaggccaagtgccgGcgggccagtgagaaggagga	10	3	20	8	2	0	1	0	1	0	1	0	6	0	5	3	7	1	0	3	7	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:158925039G>A	uc003qrf.2	+	13	5701	c.4344G>A	c.(4342-4344)CGG>CGA	p.R1448R	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	1448					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CCAAGTGCCGGCGGGCCAGTG	0.672													5	22					0	0	1	0	0		A	158925039	A	A	158925039	2	1	27	1	0	0	0	0	0	0	0	1	16802	1190	42	2		2	TULP4	6	158925039	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	51820	158925039	12190028	3410	25761											
TAGAP	117289	broad.mit.edu	37	chr6	159457718	159457718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgggagcaccgaacccgggGccaagttcttgatcttcagg	8	7	14	12	3	3	1	1	1	2	0	3	3	3	2	3	4	2	2	3	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:159457718G>A	uc003qrz.2	-	10	1669	c.1337C>T	c.(1336-1338)GCC>GTC	p.A446V	TAGAP_uc011eft.1_Missense_Mutation_p.A383V|TAGAP_uc003qsa.2_Missense_Mutation_p.A268V	NM_054114	NP_473455	Q8N103	TAGAP_HUMAN	T-cell activation Rho GTPase-activating protein	446					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-16)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		CGAACCCGGGGCCAAGTTCTT	0.597													8	162					0	0	1	0	0		A	159457718	A	A	159457718	3	1	27	1	0	0	0	0	1	0	0	0	15562	1203	42	2	862	2	TAGAP	6	159457718	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	532679	159457718	11657349	3411	25762											
FNDC1	84624	broad.mit.edu	37	chr6	159653499	159653499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactcagacgaagatgagcGcgctgtgggctccctccacc	8	6	13	14	3	1	3	1	1	0	2	3	5	3	4	3	2	1	2	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:159653499G>A	uc010kjv.2	+	11	2155	c.1955G>A	c.(1954-1956)CGC>CAC	p.R652H	FNDC1_uc010kjw.1_Missense_Mutation_p.R537H	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	652						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		GAAGATGAGCGCGCTGTGGGC	0.677													14	51					0	0	1	0	0		A	159653499	A	A	159653499	3	1	27	1	0	0	0	0	1	0	0	0	5982	1087	38	1	1997	1	FNDC1	6	159653499	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	195781	159653499	11461568	3412	25763											
FNDC1	84624	broad.mit.edu	37	chr6	159654614	159654614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaccccagagcagagacGcgggtcggtcaccttcccag	8	4	14	15	4	1	2	1	0	0	2	3	4	2	3	4	3	1	1	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:159654614G>A	uc010kjv.2	+	11	3270	c.3070G>A	c.(3070-3072)GCG>ACG	p.A1024T	FNDC1_uc010kjw.1_Missense_Mutation_p.A909T	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	1024						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		GAGCAGAGACGCGGGTCGGTC	0.721													4	4					0	0	1	0	0		A	159654614	A	A	159654614	3	1	27	1	0	0	0	0	1	0	0	0	5982	1087	38	1	3112	1	FNDC1	6	159654614	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1115	159654614	11460453	3413	25764											
MRPL18	29074	broad.mit.edu	37	chr6	160219095	160219095	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaaccagatgaaacgactAcaaagtgccatgacagaagg	19	4	9	9	1	0	4	0	2	0	2	0	5	0	4	2	1	4	0	2	1	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:160219095A>T	uc003qsw.3	+	4	611	c.483A>T	c.(481-483)CTA>CTT	p.L161L	MRPL18_uc010kkb.2_RNA|PNLDC1_uc003qsx.1_5'Flank|PNLDC1_uc003qsy.1_5'Flank	NM_014161	NP_054880	Q9H0U6	RM18_HUMAN	mitochondrial ribosomal protein L18 precursor	161					rRNA transport|translation	mitochondrial ribosome	5S rRNA binding|structural constituent of ribosome				0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.44e-18)|BRCA - Breast invasive adenocarcinoma(81;5.79e-06)		TGAAACGACTACAAAGTGCCA	0.353													13	26					0	0	1	0	0		T	160219095	T	T	160219095	2	4	27	1	0	0	0	0	0	0	0	1	9801	378	14	5		5	MRPL18	6	160219095	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	564481	160219095	10895972	3414	25765											
PNLDC1	154197	broad.mit.edu	37	chr6	160221765	160221765	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggagtgctggcgatgtTctgcacccgaggactgctat	7	10	15	9	2	1	1	0	1	1	0	1	5	1	3	1	3	3	4	1	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:160221765T>A	uc003qsx.1	+	2	176	c.5T>A	c.(4-6)TTC>TAC	p.F2Y	PNLDC1_uc003qsy.1_Intron	NM_173516	NP_775787	Q8NA58	PNDC1_HUMAN	poly(A)-specific ribonuclease (PARN)-like domain	2						integral to membrane|nucleus	nucleic acid binding				0		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;1.55e-18)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		CTGGCGATGTTCTGCACCCGA	0.567													12	160					0	0	1	0	0		A	160221765	A	A	160221765	3	1	27	1	0	0	0	0	1	0	0	0	12167	1783	62	5	7	5	PNLDC1	6	160221765	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2670	160221765	10893302	3415	25766											
MAS1	4142	broad.mit.edu	37	chr6	160328535	160328535	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagtcactctcggaatgActgccgagcagtcatcatct	11	9	10	11	2	5	2	3	1	2	1	6	5	5	3	1	1	2	1	1	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:160328535A>T	uc003qsz.2	+	1	562	c.548A>T	c.(547-549)GAC>GTC	p.D183V		NM_002377	NP_002368	P04201	MAS_HUMAN	MAS1 oncogene	183	Extracellular (Potential).				anatomical structure morphogenesis|cell proliferation|protein kinase C signaling cascade	integral to plasma membrane	angiotensin type II receptor activity			ovary(2)|lung(2)	4		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.44e-18)|BRCA - Breast invasive adenocarcinoma(81;5.6e-06)		TCTCGGAATGACTGCCGAGCA	0.527													10	105					0	0	1	0	0		T	160328535	T	T	160328535	3	4	27	1	0	0	0	0	1	0	0	0	9338	275	10	5	550	5	MAS1	6	160328535	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	106770	160328535	10786532	3416	25767											
IGF2R	3482	broad.mit.edu	37	chr6	160469473	160469473	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacaactcaggggaacatgtCacgtggaggaaatactacat	15	7	11	8	1	2	0	2	0	0	0	2	4	2	3	0	4	4	0	0	4	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:160469473C>T	uc003qta.2	+	18	2560	c.2412C>T	c.(2410-2412)GTC>GTT	p.V804V		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	804	6.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GGGAACATGTCACGTGGAGGA	0.448													4	46					0	0	1	0	0		T	160469473	T	T	160469473	2	4	27	1	0	0	0	0	0	0	0	1	7592	813	29	4		4	IGF2R	6	160469473	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	140938	160469473	10645594	3417	25768											
IGF2R	3482	broad.mit.edu	37	chr6	160482540	160482540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttgttgtgtttcagacctgGctggaaatgagtacgacctg	8	14	12	7	1	1	2	1	1	0	1	1	4	1	3	2	2	1	4	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:160482540G>A	uc003qta.2	+	24	3416	c.3268G>A	c.(3268-3270)GCT>ACT	p.A1090T		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1090	7.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		TTCAGACCTGGCTGGAAATGA	0.502													8	135					0	0	1	0	0		A	160482540	A	A	160482540	3	1	27	1	0	0	0	0	1	0	0	0	7592	1203	42	2	3362	2	IGF2R	6	160482540	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13067	160482540	10632527	3418	25769											
IGF2R	3482	broad.mit.edu	37	chr6	160484579	160484579	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgggaagctttcctcagAcgtctgccccacaagtgaca	9	9	10	13	1	2	2	1	1	1	1	3	3	3	3	3	1	2	1	3	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:160484579A>T	uc003qta.2	+	27	3951	c.3803A>T	c.(3802-3804)GAC>GTC	p.D1268V		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1268	9.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		CTTTCCTCAGACGTCTGCCCC	0.537													7	71					0	0	1	0	0		T	160484579	T	T	160484579	3	4	27	1	0	0	0	0	1	0	0	0	7592	275	10	5	3909	5	IGF2R	6	160484579	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2039	160484579	10630488	3419	25770											
PLG	5340	broad.mit.edu	37	chr6	161127481	161127481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgtgaatacccagggggCttcactgttcagtgtcacta	9	12	10	10	0	3	1	3	1	0	0	3	1	3	1	1	2	1	2	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:161127481C>T	uc003qtm.3	+	2	155	c.92C>T	c.(91-93)GCT>GTT	p.A31V		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	31	PAN.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	ACCCAGGGGGCTTCACTGTTC	0.453													12	120					0	0	1	0	0		T	161127481	T	T	161127481	3	4	27	1	0	0	0	0	1	0	0	0	12105	797	28	2	98	2	PLG	6	161127481	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	642902	161127481	9987586	3420	25771											
MAP3K4	4216	broad.mit.edu	37	chr6	161470278	161470278	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtacttcagtagaagggcAgtgcaaagccactcctggaa	12	8	12	9	0	1	1	1	0	0	1	2	2	2	2	2	3	3	4	2	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:161470278A>G	uc003qtn.2	+	3	1116	c.974A>G	c.(973-975)CAG>CGG	p.Q325R	MAP3K4_uc010kkc.1_Missense_Mutation_p.Q325R|MAP3K4_uc003qto.2_Missense_Mutation_p.Q325R|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_5'UTR	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	325					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		GTAGAAGGGCAGTGCAAAGCC	0.423													5	119					0	0	1	0	0		G	161470278	G	G	161470278	3	3	27	1	0	0	0	0	1	0	0	0	9270	188	7	3	984	3	MAP3K4	6	161470278	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	342797	161470278	9644789	3421	25772											
PARK2	5071	broad.mit.edu	37	chr6	161781224	161781224	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcggcggctctttcaTcgactctgtaggcctgggga	4	11	13	13	3	3	0	1	0	2	0	5	2	3	1	2	5	1	3	2	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:161781224T>C	uc003qtx.3	-	11	1315	c.1181A>G	c.(1180-1182)GAT>GGT	p.D394G	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Missense_Mutation_p.D203G|PARK2_uc003qtw.3_Intron|PARK2_uc003qty.3_Missense_Mutation_p.D366G|PARK2_uc003qtz.3_Missense_Mutation_p.D245G|PARK2_uc011egf.1_Missense_Mutation_p.D68G	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	394					aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GGCTCTTTCATCGACTCTGTA	0.502													6	98					0	0	1	0	0		C	161781224	C	C	161781224	3	2	27	1	0	0	0	0	1	0	0	0	11468	1435	50	3	224	3	PARK2	6	161781224	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	310946	161781224	9333843	3422	25773											
C6orf118	168090	broad.mit.edu	37	chr6	165715755	165715755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacacagggtcttcacgcctGgcgtctcgcagtgcttccac	6	10	10	15	3	3	0	1	0	2	0	5	0	4	0	2	2	2	2	2	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:165715755G>A	uc003qum.3	-	2	92	c.56C>T	c.(55-57)CCA>CTA	p.P19L	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	19											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		CTTCACGCCTGGCGTCTCGCA	0.512													28	73					0	0	1	0	0		A	165715755	A	A	165715755	3	1	27	1	0	0	0	0	1	0	0	0	2326	1348	47	4	1385	4	C6orf118	6	165715755	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3934531	165715755	5399312	3423	25774											
PDE10A	10846	broad.mit.edu	37	chr6	165806270	165806270	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacataataaaacgacacaaCttttcaagctcaaagctgca	18	8	5	10	1	2	0	2	0	0	0	2	2	2	0	0	0	5	3	0	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:165806270C>T	uc003qun.2	-	17	1732	c.1491G>A	c.(1489-1491)AAG>AAA	p.K497K	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Silent_p.K427K|PDE10A_uc003quo.2_Silent_p.K507K	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	497					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	AACGACACAACTTTTCAAGCT	0.408													4	53					0	0	1	0	0		T	165806270	T	T	165806270	2	4	27	1	0	0	0	0	0	0	0	1	11649	564	20	4		4	PDE10A	6	165806270	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	90515	165806270	5308797	3424	25775											
BRP44L	51660	broad.mit.edu	37	chr6	166779545	166779545	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagaagccagttccgaggCtgtaccttgtaggcaaatct	12	9	10	10	1	1	1	0	0	1	1	2	2	2	1	3	2	3	5	3	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:166779545C>T	uc011egn.1	-	3	344	c.222G>A	c.(220-222)CAG>CAA	p.Q74Q	BRP44L_uc003qva.2_RNA	NM_016098	NP_057182	Q9Y5U8	BR44L_HUMAN	brain protein 44-like	74						mitochondrion				central_nervous_system(1)	1		Breast(66;0.000148)|Prostate(117;0.109)|Ovarian(120;0.199)		OV - Ovarian serous cystadenocarcinoma(33;1.8e-19)|BRCA - Breast invasive adenocarcinoma(81;4.68e-06)|GBM - Glioblastoma multiforme(31;0.000122)		AGTTCCGAGGCTGTACCTTGT	0.438													5	62					0	0	1	0	0		T	166779545	T	T	166779545	2	4	27	1	0	0	0	0	0	0	0	1	1522	796	28	2		2	BRP44L	6	166779545	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	973275	166779545	4335522	3425	25776											
RPS6KA2	6196	broad.mit.edu	37	chr6	166902367	166902367	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagagagctcgcagcaaactCtgtgcctccccactgaggaa	12	6	10	13	1	1	2	0	1	1	1	3	4	2	3	3	1	4	3	3	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:166902367C>T	uc003qvb.1	-	10	1080	c.861G>A	c.(859-861)CAG>CAA	p.Q287Q	RPS6KA2_uc011ego.1_Silent_p.Q198Q|RPS6KA2_uc010kkl.1_Silent_p.Q198Q|RPS6KA2_uc003qvc.1_Silent_p.Q295Q|RPS6KA2_uc003qvd.1_Silent_p.Q312Q	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	287	Protein kinase 1.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		GCAGCAAACTCTGTGCCTCCC	0.547													5	25					0	0	1	0	0		T	166902367	T	T	166902367	2	4	27	1	0	0	0	0	0	0	0	1	13676	912	32	4		4	RPS6KA2	6	166902367	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	122822	166902367	4212700	3426	25777											
RPS6KA2	6196	broad.mit.edu	37	chr6	166944731	166944731	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agctcttaccttttagggtgGctttcttaaggaccttcatg	7	16	9	9	0	3	0	1	0	2	0	3	1	3	1	2	3	2	2	2	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:166944731G>T	uc003qvb.1	-	3	506	c.287C>A	c.(286-288)GCC>GAC	p.A96D	RPS6KA2_uc011ego.1_Missense_Mutation_p.A7D|RPS6KA2_uc010kkl.1_Missense_Mutation_p.A7D|RPS6KA2_uc003qvc.1_Missense_Mutation_p.A104D|RPS6KA2_uc003qvd.1_Missense_Mutation_p.A121D	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	96	Protein kinase 1.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		TTTTAGGGTGGCTTTCTTAAG	0.478													10	122					2.80697e-09	3.09538e-09	1	1	0		T	166944731	T	T	166944731	3	4	27	1	0	0	0	0	1	0	0	0	13676	1203	42	5	1990	5	RPS6KA2	6	166944731	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	42364	166944731	4170336	3427	25778											
TTLL2	83887	broad.mit.edu	37	chr6	167754976	167754976	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacgcgtccctcttccagTcgcactcctgcaagaccaag	8	8	7	18	3	1	1	0	0	1	1	5	1	4	1	5	0	2	2	5	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:167754976T>C	uc003qvs.1	+	3	1676	c.1588T>C	c.(1588-1590)TCG>CCG	p.S530P	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	530					protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CCTCTTCCAGTCGCACTCCTG	0.532													7	79					0	0	1	0	0		C	167754976	C	C	167754976	3	2	27	1	0	0	0	0	1	0	0	0	16753	1667	58	3	1598	3	TTLL2	6	167754976	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	810245	167754976	3360091	3428	25779											
SMOC2	64094	broad.mit.edu	37	chr6	168999591	168999591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctgagtgtgcgcacggcgGcctctacaagccagtgcagt	7	7	13	14	3	1	1	0	1	1	0	1	1	1	1	3	2	4	2	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:168999591G>A	uc003qws.1	+	8	751	c.731G>A	c.(730-732)GGC>GAC	p.G244D	SMOC2_uc003qwr.1_Missense_Mutation_p.G255D	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	244	Thyroglobulin type-1 2.				signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		GCGCACGGCGGCCTCTACAAG	0.622													5	16					0	0	1	0	0		A	168999591	A	A	168999591	3	1	27	1	0	0	0	0	1	0	0	0	14827	1203	42	2	794	2	SMOC2	6	168999591	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1244615	168999591	2115476	3429	25780											
SMOC2	64094	broad.mit.edu	37	chr6	169053890	169053890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgaaagaggacggcaaagcgGacaccaagaaacgccacagt	17	1	12	11	4	0	2	0	0	0	2	0	5	0	4	2	3	2	1	2	3	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:169053890G>A	uc003qws.1	+	11	1287	c.1267G>A	c.(1267-1269)GAC>AAC	p.D423N	SMOC2_uc003qwr.1_Missense_Mutation_p.D434N|SMOC2_uc011egu.1_Missense_Mutation_p.D100N	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	423					signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		CGGCAAAGCGGACACCAAGAA	0.532													12	45					0	0	1	0	0		A	169053890	A	A	169053890	3	1	27	1	0	0	0	0	1	0	0	0	14827	1174	41	4	1342	4	SMOC2	6	169053890	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	54299	169053890	2061177	3430	25781											
THBS2	7058	broad.mit.edu	37	chr6	169625300	169625300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtccctgtcatcggggaCgccatcgttgtcatcatcag	6	12	11	12	3	4	0	4	0	0	0	7	1	5	1	2	2	0	2	2	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:169625300C>T	uc003qwt.2	-	18	2961	c.2713G>A	c.(2713-2715)GTC>ATC	p.V905I		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	905	TSP type-3 7.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		tcatcggggacgccatcgttg	0.239													5	46					0	0	1	0	0		T	169625300	T	T	169625300	3	4	27	1	0	0	0	0	1	0	0	0	15879	536	19	1	829	1	THBS2	6	169625300	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	571410	169625300	1489767	3431	25782											
TCTE3	6991	broad.mit.edu	37	chr6	170151476	170151476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggcctcctttctttcctagGcgtcaccggagcctgctgag	5	11	11	14	2	2	1	1	1	1	0	4	2	4	2	5	3	2	1	5	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:170151476G>A	uc003qxe.1	-	1	163	c.79C>T	c.(79-81)CCT>TCT	p.P27S	TCTE3_uc003qxf.2_RNA|C6orf70_uc003qxg.1_5'Flank|C6orf70_uc011ehb.1_5'Flank|C6orf70_uc003qxh.1_5'Flank|C6orf70_uc010kky.1_5'Flank	NM_174910	NP_777570	Q8IZS6	TC1D3_HUMAN	t-complex-associated-testis-expressed 3	27					transport	cytoplasm|dynein complex|membrane|microtubule	motor activity				0		Breast(66;0.000338)		OV - Ovarian serous cystadenocarcinoma(33;1.08e-21)|BRCA - Breast invasive adenocarcinoma(81;1.32e-07)|GBM - Glioblastoma multiforme(31;0.00157)		TCTTTCCTAGGCGTCACCGGA	0.602													10	107					0	0	1	0	0		A	170151476	A	A	170151476	3	1	27	1	0	0	0	0	1	0	0	0	15743	1203	42	2	533	2	TCTE3	6	170151476	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	526176	170151476	963591	3432	25783											
C6orf70	55780	broad.mit.edu	37	chr6	170176102	170176102	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgacggatgagctgtaTcaccatatgcctgagaatcg	14	9	10	8	2	1	3	1	3	0	1	2	5	1	4	2	1	2	2	2	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:170176102T>A	uc003qxg.1	+	15	1494	c.1461T>A	c.(1459-1461)TAT>TAA	p.Y487*	C6orf70_uc011ehb.1_Nonsense_Mutation_p.Y361*|C6orf70_uc003qxh.1_Nonsense_Mutation_p.Y487*|C6orf70_uc010kky.1_Nonsense_Mutation_p.Y361*|C6orf70_uc003qxi.1_Nonsense_Mutation_p.Y135*	NM_018341	NP_060811	Q5T6L9	CF070_HUMAN	hypothetical protein LOC55780	487						integral to membrane				ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.2e-22)|BRCA - Breast invasive adenocarcinoma(81;1.49e-07)|GBM - Glioblastoma multiforme(31;0.00191)		ATGAGCTGTATCACCATATGC	0.373													4	57					0	0	1	0	0		A	170176102	A	A	170176102	4	1	27	1	0	0	0	0	0	1	0	0	2373	1442	50	5	1519	5	C6orf70	6	170176102	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	24626	170176102	938965	3433	25784											
FAM120B	84498	broad.mit.edu	37	chr6	170627418	170627418	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggacaaaaatctccatggTttttccaaaaacccaaaggt	16	9	6	10	0	1	0	0	0	1	0	3	1	2	1	3	3	1	1	3	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr6:170627418T>G	uc003qxp.2	+	2	1048	c.940T>G	c.(940-942)TTT>GTT	p.F314V	FAM120B_uc003qxo.1_Missense_Mutation_p.F314V|FAM120B_uc011ehd.1_Intron	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	314					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		ATCTCCATGGTTTTTCCAAAA	0.378													7	80					0	0	1	0	0		G	170627418	G	G	170627418	3	3	27	1	0	0	0	0	1	0	0	0	5428	1725	60	5	942	5	FAM120B	6	170627418	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	451316	170627418	487649	3434	25785											
HEATR2	54919	broad.mit.edu	37	chr7	810177	810177	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctgcagccctcccaagAcccgcagatgcgcctgaagc	8	6	10	17	2	1	3	0	1	1	2	2	3	2	3	4	0	4	2	4	0	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:810177A>G	uc010krz.1	+	9	1873	c.1853A>G	c.(1852-1854)GAC>GGC	p.D618G	HEATR2_uc003siz.2_Missense_Mutation_p.D486G|HEATR2_uc003sja.2_Missense_Mutation_p.D76G|HEATR2_uc003sjb.2_5'UTR|HEATR2_uc003sjc.2_Missense_Mutation_p.D43G	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	618	HEAT 7.						protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		CCCTCCCAAGACCCGCAGATG	0.647													3	39					0	0	1	0	0		G	810177	G	G	810177	3	3	27	1	0	0	0	0	1	0	0	0	7044	275	10	3	1887	3	HEATR2	7	810177	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08		810177	158328486	3435	25786											
SUN1	23353	broad.mit.edu	37	chr7	883126	883126	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggcccccgggcccgtgtcGagagtttattctagggacag	6	8	15	12	4	1	1	0	0	1	1	2	3	1	2	3	3	0	1	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:883126G>A	uc011jvp.1	+	6	706	c.627G>A	c.(625-627)TCG>TCA	p.S209S	SUN1_uc010ksa.1_Silent_p.S230S|SUN1_uc003sje.1_Silent_p.S209S|SUN1_uc003sjf.2_Silent_p.S159S|SUN1_uc011jvq.1_Intron|SUN1_uc003sjg.2_Silent_p.S20S	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	209	SYNE2-binding.|Nuclear.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						GGCCCGTGTCGAGAGTTTATT	0.522													10	236					0	0	1	0	0		A	883126	A	A	883126	2	1	27	1	0	0	0	0	0	0	0	1	15416	1045	37	1		1	SUN1	7	883126	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	72949	883126	158255537	3436	25787											
GPR146	115330	broad.mit.edu	37	chr7	1097377	1097377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcagtggcaggcctggtgCtcagcgccctggcccctgtg	3	8	16	14	1	1	0	1	0	0	0	1	0	1	0	4	5	2	3	4	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:1097377C>T	uc003sjw.2	+	2	302	c.226C>T	c.(226-228)CTC>TTC	p.L76F	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPR146_uc003sjx.3_Missense_Mutation_p.L76F|GPR146_uc003sjy.1_Missense_Mutation_p.L76F	NM_138445	NP_612454	Q96CH1	GP146_HUMAN	G protein-coupled receptor 146	76	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		AGGCCTGGTGCTCAGCGCCCT	0.662													4	24					0	0	1	0	0		T	1097377	T	T	1097377	3	4	27	1	0	0	0	0	1	0	0	0	6667	797	28	2	228	2	GPR146	7	1097377	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	214251	1097377	158041286	3437	25788											
GPER	2852	broad.mit.edu	37	chr7	1131927	1131927	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggatggcatccgtgtcagCcacgctggtgcccttcaccg	5	9	12	15	3	2	0	2	0	0	0	3	1	3	1	4	3	2	2	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:1131927C>T	uc010ksd.1	+	2	952	c.563C>T	c.(562-564)GCC>GTC	p.A188V	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPER_uc003sjz.1_Missense_Mutation_p.A188V|GPER_uc003ska.1_Missense_Mutation_p.A188V|GPER_uc003skb.2_Missense_Mutation_p.A188V	NM_001098201	NP_001091671	Q99527	GPER_HUMAN	G protein-coupled receptor 30	188	Helical; Name=4; (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;2.32e-16)		TCCGTGTCAGCCACGCTGGTG	0.672													3	26					0	0	1	0	0		T	1131927	T	T	1131927	3	4	27	1	0	0	0	0	1	0	0	0	6622	739	26	2	565	2	GPER	7	1131927	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	34550	1131927	158006736	3438	25789											
UNCX	340260	broad.mit.edu	37	chr7	1273256	1273256	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctggagaaggcgttcaaCgagagccactatcccgacgt	11	6	13	11	4	1	2	1	0	0	2	2	6	2	2	2	2	3	2	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:1273256C>T	uc011jvw.1	+	2	375	c.375C>T	c.(373-375)AAC>AAT	p.N125N		NM_001080461	NP_001073930	A6NJT0	UNC4_HUMAN	UNC homeobox	125	Homeobox.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		AGGCGTTCAACGAGAGCCACT	0.677													9	34					0	0	1	0	0		T	1273256	T	T	1273256	2	4	27	1	0	0	0	0	0	0	0	1	17024	535	19	1		1	UNCX	7	1273256	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	141329	1273256	157865407	3439	25790											
INTS1	26173	broad.mit.edu	37	chr7	1513960	1513960	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggaagttgaggtgggtGcggccgtgcaggagcgccgc	5	7	19	10	4	0	1	0	1	0	0	1	3	1	3	3	5	3	2	3	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:1513960G>T	uc003skn.2	-	41	5774	c.5673C>A	c.(5671-5673)CGC>CGA	p.R1891R	INTS1_uc003skm.1_Silent_p.R28R	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	1891					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		TGAGGTGGGTGCGGCCGTGCA	0.716													7	54					1.12685e-05	1.21022e-05	1	1	0		T	1513960	T	T	1513960	2	4	27	1	0	0	0	0	0	0	0	1	7791	1306	46	5		5	INTS1	7	1513960	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	240704	1513960	157624703	3440	25791											
INTS1	26173	broad.mit.edu	37	chr7	1526379	1526379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtagcaggtcctgcaggCggcccagcagctgccgctgc	6	5	14	16	2	0	0	0	0	0	0	1	0	1	0	4	3	6	6	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:1526379C>T	uc003skn.2	-	22	2959	c.2858G>A	c.(2857-2859)CGC>CAC	p.R953H	INTS1_uc003skp.1_Missense_Mutation_p.R300H	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	953					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		GTCCTGCAGGCGGCCCAGCAG	0.687													3	20					0	0	1	0	0		T	1526379	T	T	1526379	3	4	27	1	0	0	0	0	1	0	0	0	7791	768	27	1	3822	1	INTS1	7	1526379	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12419	1526379	157612284	3441	25792											
INTS1	26173	broad.mit.edu	37	chr7	1538925	1538925	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctcctgctcggggctcaGcttctcctccgcgatcagca	4	9	10	18	3	3	0	2	0	1	0	7	1	5	0	4	2	3	4	4	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:1538925G>A	uc003skn.2	-	7	1017	c.916C>T	c.(916-918)CTG>TTG	p.L306L	INTS1_uc003skq.2_Silent_p.L306L	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	306					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		TCGGGGCTCAGCTTCTCCTCC	0.557													7	97					0	0	1	0	0		A	1538925	A	A	1538925	2	1	27	1	0	0	0	0	0	0	0	1	7791	962	34	2		2	INTS1	7	1538925	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	12546	1538925	157599738	3442	25793											
MAD1L1	8379	broad.mit.edu	37	chr7	1855722	1855722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctacgccacggtctggCggctgaagagctcgagggtg	7	6	17	11	4	1	2	0	1	1	1	2	3	1	2	1	5	2	3	1	5	2	1	rs148957172	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:1855722C>T	uc003slh.1	-	19	2407	c.2141G>A	c.(2140-2142)CGC>CAC	p.R714H	MAD1L1_uc003sle.1_Missense_Mutation_p.R443H|MAD1L1_uc003slf.1_Missense_Mutation_p.R714H|MAD1L1_uc003slg.1_Missense_Mutation_p.R714H|MAD1L1_uc010ksh.1_Missense_Mutation_p.R714H|MAD1L1_uc003sli.1_Missense_Mutation_p.R622H|MAD1L1_uc003sld.1_Missense_Mutation_p.R170H	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	714					cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		CACGGTCTGGCGGCTGAAGAG	0.687													7	28					0	0	1	0	0		T	1855722	T	T	1855722	3	4	27	1	0	0	0	0	1	0	0	0	9165	768	27	1	19	1	MAD1L1	7	1855722	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	316797	1855722	157282941	3443	25794											
MAD1L1	8379	broad.mit.edu	37	chr7	2262372	2262372	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgcgcgtcaggagctcctgGttgcggtcgacctcacgctg	5	9	14	13	5	2	0	2	0	0	0	4	2	3	1	2	3	3	3	2	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:2262372G>A	uc003slh.1	-	5	575	c.309C>T	c.(307-309)AAC>AAT	p.N103N	MAD1L1_uc003slf.1_Silent_p.N103N|MAD1L1_uc003slg.1_Silent_p.N103N|MAD1L1_uc010ksh.1_Silent_p.N103N|MAD1L1_uc003sli.1_5'UTR|MAD1L1_uc010ksi.1_Silent_p.N56N|MAD1L1_uc010ksj.2_Silent_p.N103N	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	103	Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		GGAGCTCCTGGTTGCGGTCGA	0.657													7	42					0	0	1	0	0		A	2262372	A	A	2262372	2	1	27	1	0	0	0	0	0	0	0	1	9165	1252	44	4		4	MAD1L1	7	2262372	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	406650	2262372	156876291	3444	25795											
SNX8	29886	broad.mit.edu	37	chr7	2311504	2311504	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagccgctgaaggacaggAagagcttgaggaccacatcc	12	4	13	12	2	0	3	0	2	0	1	1	7	1	6	4	3	2	2	4	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:2311504A>G	uc003slw.2	-	4	564	c.521T>C	c.(520-522)TTC>TCC	p.F174S		NM_013321	NP_037453	Q9Y5X2	SNX8_HUMAN	sorting nexin 8	174	PX.				cell communication|early endosome to Golgi transport|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0853)|OV - Ovarian serous cystadenocarcinoma(56;3.79e-14)		GAAGGACAGGAAGAGCTTGAG	0.652													3	22					0	0	1	0	0		G	2311504	G	G	2311504	3	3	27	1	0	0	0	0	1	0	0	0	14933	246	9	3	908	3	SNX8	7	2311504	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	49132	2311504	156827159	3445	25796											
GNA12	2768	broad.mit.edu	37	chr7	2770886	2770886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatggaacacgaagcggaCgttctcggtgtcgatggcgg	9	7	16	9	6	1	0	0	0	1	0	3	4	1	2	0	5	3	2	0	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:2770886C>T	uc003smu.2	-	4	1239	c.1075G>A	c.(1075-1077)GTC>ATC	p.V359I	GNA12_uc011jwb.1_Missense_Mutation_p.V342I|GNA12_uc003smt.2_Missense_Mutation_p.V300I	NM_007353	NP_031379	Q03113	GNA12_HUMAN	guanine nucleotide binding protein (G protein)	359					G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|Rho protein signal transduction	brush border membrane|heterotrimeric G-protein complex	D5 dopamine receptor binding|G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.02e-13)		ACGAAGCGGACGTTCTCGGTG	0.587													17	81					0	0	1	0	0		T	2770886	T	T	2770886	3	4	27	1	0	0	0	0	1	0	0	0	6515	536	19	1	74	1	GNA12	7	2770886	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	459382	2770886	156367777	3446	25797											
CARD11	84433	broad.mit.edu	37	chr7	2951840	2951840	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaatgttggcaggggcgAtgcattcgaacgcgttgggg	7	10	16	8	4	1	0	1	0	0	0	2	2	1	0	0	5	2	4	0	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:2951840A>T	uc003smv.2	-	23	3514	c.3110T>A	c.(3109-3111)ATC>AAC	p.I1037N		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	1037	Guanylate kinase-like.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GGCAGGGGCGATGCATTCGAA	0.577			Mis		DLBCL								7	43					0	0	1	0	0		T	2951840	T	T	2951840	3	4	27	1	0	0	0	0	1	0	0	0	2648	333	12	5	366	5	CARD11	7	2951840	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	180954	2951840	156186823	3447	25798											
SDK1	221935	broad.mit.edu	37	chr7	4116654	4116654	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagatctcttgggaagtgtAcggcaggaacgactctcgtc	9	10	12	10	3	3	1	1	0	2	1	6	4	3	3	0	3	2	2	0	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:4116654A>G	uc003smx.2	+	21	3174	c.3035A>G	c.(3034-3036)TAC>TGC	p.Y1012C	SDK1_uc010kso.2_Missense_Mutation_p.Y288C	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1012	Fibronectin type-III 4.				cell adhesion	integral to membrane		p.Y1012Y(1)		large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TGGGAAGTGTACGGCAGGAAC	0.547													4	37					0	0	1	0	0		G	4116654	G	G	4116654	3	3	27	1	0	0	0	0	1	0	0	0	13993	391	14	3	3117	3	SDK1	7	4116654	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1164814	4116654	155022009	3448	25799											
SDK1	221935	broad.mit.edu	37	chr7	4277380	4277380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgttcgccctcgtcctgCacgggcagaataagaagtat	9	10	12	10	3	0	2	0	0	0	2	3	2	1	2	2	2	1	4	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:4277380C>T	uc003smx.2	+	42	6233	c.6094C>T	c.(6094-6096)CAC>TAC	p.H2032Y	SDK1_uc010kso.2_Missense_Mutation_p.H1288Y|SDK1_uc003smy.2_Missense_Mutation_p.H519Y|SDK1_uc003smz.2_Missense_Mutation_p.H92Y	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	2032	Extracellular (Potential).|Cytoplasmic (Potential).				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CCTCGTCCTGCACGGGCAGAA	0.567													11	76					0	0	1	0	0		T	4277380	T	T	4277380	3	4	27	1	0	0	0	0	1	0	0	0	13993	710	25	2	6260	2	SDK1	7	4277380	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	160726	4277380	154861283	3449	25800											
FOXK1	221937	broad.mit.edu	37	chr7	4780606	4780606	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccacatcccggagccggAcctccggagcatggtcagcc	8	5	12	16	3	1	0	1	0	0	0	4	4	4	3	6	4	3	1	6	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:4780606A>G	uc003snc.1	+	2	708	c.698A>G	c.(697-699)GAC>GGC	p.D233G	FOXK1_uc003sna.1_Missense_Mutation_p.D70G|FOXK1_uc003snb.1_Missense_Mutation_p.D233G	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	forkhead box K1	233					cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		CCGGAGCCGGACCTCCGGAGC	0.667													8	67					0	0	1	0	0		G	4780606	G	G	4780606	3	3	27	1	0	0	0	0	1	0	0	0	6028	275	10	3	704	3	FOXK1	7	4780606	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	503226	4780606	154358057	3450	25801											
KIAA0415	9907	broad.mit.edu	37	chr7	4825911	4825911	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtggactcggaagccgTctaccagcacctgttcacca	9	8	10	14	2	2	0	1	0	1	0	3	2	2	2	4	2	4	3	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:4825911T>A	uc003sne.2	+	10	1246	c.1163T>A	c.(1162-1164)GTC>GAC	p.V388D	KIAA0415_uc010ksp.2_RNA|KIAA0415_uc003snf.2_5'Flank	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	388					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		TCGGAAGCCGTCTACCAGCAC	0.617													7	51					0	0	1	0	0		A	4825911	A	A	4825911	3	1	27	1	0	0	0	0	1	0	0	0	8191	1667	58	5	1201	5	KIAA0415	7	4825911	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	45305	4825911	154312752	3451	25802											
PAPOLB	56903	broad.mit.edu	37	chr7	4901085	4901085	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacatgacttggtgcaacGcacaaggcgtcaatatctgc	11	9	9	12	2	2	1	1	1	1	0	3	1	3	1	1	2	3	2	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:4901085G>A	uc003snk.2	-	1	541	c.357C>T	c.(355-357)TGC>TGT	p.C119C	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	118					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		TTGGTGCAACGCACAAGGCGT	0.438													11	25					0	0	1	0	0		A	4901085	A	A	4901085	2	1	27	1	0	0	0	0	0	0	0	1	11449	1079	38	1		1	PAPOLB	7	4901085	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	75174	4901085	154237578	3452	25803											
MMD2	221938	broad.mit.edu	37	chr7	4965157	4965157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggcagggactcggtggttCatgaacctggaaggagaggg	9	7	19	6	1	1	2	1	1	0	1	2	5	1	4	1	7	1	2	1	7	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:4965157C>T	uc003sno.3	-	2	250	c.54G>A	c.(52-54)ATG>ATA	p.M18I	MMD2_uc003snl.1_RNA|MMD2_uc003snn.3_Missense_Mutation_p.M18I|MMD2_uc010ksq.2_Missense_Mutation_p.M18I	NM_001100600	NP_001094070	Q8IY49	PAQRA_HUMAN	monocyte to macrophage	18	Cytoplasmic (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.097)|OV - Ovarian serous cystadenocarcinoma(56;3.4e-14)		CTCGGTGGTTCATGAACCTGG	0.567													13	112					0	0	1	0	0		T	4965157	T	T	4965157	3	4	27	1	0	0	0	0	1	0	0	0	9662	826	29	4	782	4	MMD2	7	4965157	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	64072	4965157	154173506	3453	25804											
RBAK	57786	broad.mit.edu	37	chr7	5104918	5104918	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcagaaatcatatctcActatacatcatcgaattcat	14	14	2	11	1	6	1	5	0	2	1	9	2	6	1	0	0	1	0	0	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:5104918A>G	uc010kss.1	+	6	2155	c.1831A>G	c.(1831-1833)ACT>GCT	p.T611A	LOC389458_uc003snr.2_Intron|RBAK_uc003sns.1_Missense_Mutation_p.T611A	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	611	C2H2-type 13.|Interaction with AR.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		ATCATATCTCACTATACATCA	0.393													8	50					0	0	1	0	0		G	5104918	G	G	5104918	3	3	27	1	0	0	0	0	1	0	0	0	13125	159	6	3	1845	3	RBAK	7	5104918	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	139761	5104918	154033745	3454	25805											
WIPI2	26100	broad.mit.edu	37	chr7	5232779	5232779	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcatcaagagcagctggTcttggccgtcgcgctgttgt	5	10	16	10	3	2	1	1	0	1	1	3	1	2	1	1	4	2	5	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:5232779T>A	uc003snv.2	+	2	321	c.105T>A	c.(103-105)GGT>GGA	p.G35G	WIPI2_uc003snw.2_Silent_p.G35G|WIPI2_uc003snx.2_Intron|WIPI2_uc003sny.2_Intron|WIPI2_uc010ksv.2_5'UTR	NM_015610	NP_056425	Q9Y4P8	WIPI2_HUMAN	WD repeat domain, phosphoinositide interacting 2	35					autophagic vacuole assembly	cytosol|PAS complex|pre-autophagosomal structure membrane	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding			ovary(2)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0925)|OV - Ovarian serous cystadenocarcinoma(56;2.59e-14)		GAGCAGCTGGTCTTGGCCGTC	0.378													8	115					0	0	1	0	0		A	5232779	A	A	5232779	2	1	27	1	0	0	0	0	0	0	0	1	17397	1654	58	5		5	WIPI2	7	5232779	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	127861	5232779	153905884	3455	25806											
WIPI2	26100	broad.mit.edu	37	chr7	5265492	5265492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctggccttcagcatggacgGcatgttcctctccgcctcca	5	10	9	17	2	2	0	1	0	1	0	5	1	4	1	6	3	1	3	6	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:5265492G>A	uc003snv.2	+	9	995	c.779G>A	c.(778-780)GGC>GAC	p.G260D	WIPI2_uc003snw.2_Missense_Mutation_p.G260D|WIPI2_uc003snx.2_Missense_Mutation_p.G242D|WIPI2_uc003sny.2_Missense_Mutation_p.G242D|WIPI2_uc010ksv.2_Missense_Mutation_p.G116D|WIPI2_uc003soa.2_Missense_Mutation_p.G201D|WIPI2_uc003sob.2_Missense_Mutation_p.G3D	NM_015610	NP_056425	Q9Y4P8	WIPI2_HUMAN	WD repeat domain, phosphoinositide interacting 2	260	WD 2.				autophagic vacuole assembly	cytosol|PAS complex|pre-autophagosomal structure membrane	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding			ovary(2)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0925)|OV - Ovarian serous cystadenocarcinoma(56;2.59e-14)		AGCATGGACGGCATGTTCCTC	0.552													3	39					0	0	1	0	0		A	5265492	A	A	5265492	3	1	27	1	0	0	0	0	1	0	0	0	17397	1203	42	2	847	2	WIPI2	7	5265492	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	32713	5265492	153873171	3456	25807											
TNRC18	84629	broad.mit.edu	37	chr7	5352438	5352438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggggagcgccgcctgcGcggaagggccagccgtgggg	4	4	22	11	5	0	0	0	0	0	0	0	2	0	2	4	7	3	0	4	7	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:5352438G>A	uc003soi.3	-	27	8433	c.8084C>T	c.(8083-8085)GCG>GTG	p.A2695V		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2695							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CGCCGCCTGCGCGGAAGGGCC	0.637													3	5					0	0	1	0	0		A	5352438	A	A	5352438	3	1	27	1	0	0	0	0	1	0	0	0	16364	1087	38	1	838	1	TNRC18	7	5352438	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	86946	5352438	153786225	3457	25808											
TNRC18	84629	broad.mit.edu	37	chr7	5427427	5427427	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccacaggcgggtgtcgcacTtctgcctcaccctgggcacc	5	7	11	18	2	2	0	1	0	1	0	3	0	2	0	4	3	1	2	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:5427427T>A	uc003soi.3	-	5	2377	c.2028A>T	c.(2026-2028)GAA>GAT	p.E676D	TNRC18_uc010ksx.1_Missense_Mutation_p.E602D	NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	676							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GGTGTCGCACTTCTGCCTCAC	0.721													7	37					0	0	1	0	0		A	5427427	A	A	5427427	3	1	27	1	0	0	0	0	1	0	0	0	16364	1606	56	5	6982	5	TNRC18	7	5427427	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	74989	5427427	153711236	3458	25809											
RSPH10B2	728194	broad.mit.edu	37	chr7	6006678	6006679	+	Frame_Shift_Ins	INS	-	AG	AG																															ttggaaaagtctagattatcINSagagagagatgagggagagc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:6006678_6006679insAG	uc003sph.1	-	3	340_341	c.69_70insCT	c.(67-72)TCTGATfs	p.S23fs	RSPH10B2_uc010ktd.1_Frame_Shift_Ins_p.S23fs	NM_173565	NP_775836	B2RC85	R10B2_HUMAN	radial spoke head 10 homolog B	23_24										ovary(1)|pancreas(1)|skin(1)	3						TCTAGATTATCAGAGAGAGATG	0.465													6	10	---	---	---	---						.	AG	6006679	AG	AG	6006678	7	5	27	1	0	1	1	0	0	0	0	0	13729	826	29	0	2618	0	RSPH10B2	7	6006678	Frame_Shift_Ins	INS	-	TCGA-BR-6452-01A-12D-1800-08	579251	6006678	153131985	3459	25810											
EIF2AK1	27102	broad.mit.edu	37	chr7	6064312	6064312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagtccactttcatcccaCgcccccatcctttccgtcat	7	13	3	18	2	2	0	2	0	0	0	6	0	6	0	6	0	0	0	6	0	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:6064312C>T	uc003spp.2	-	15	2031	c.1885G>A	c.(1885-1887)GTG>ATG	p.V629M	EIF2AK1_uc003spq.2_Missense_Mutation_p.V628M|EIF2AK1_uc011jwm.1_Intron	NM_014413	NP_055228	Q9BQI3	E2AK1_HUMAN	eukaryotic translation initiation factor 2-alpha	629					negative regulation of hemoglobin biosynthetic process|negative regulation of translational initiation by iron|protein autophosphorylation|response to external stimulus|response to stress	cytoplasm	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|heme binding|protein homodimerization activity			upper_aerodigestive_tract(1)|stomach(1)|lung(1)|central_nervous_system(1)	4		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.106)|OV - Ovarian serous cystadenocarcinoma(56;5.22e-14)		TTTCATCCCACGCCCCCATCC	0.373													23	95					0	0	1	0	0		T	6064312	T	T	6064312	3	4	27	1	0	0	0	0	1	0	0	0	5002	536	19	1	11	1	EIF2AK1	7	6064312	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	57634	6064312	153074351	3460	25811											
COL28A1	340267	broad.mit.edu	37	chr7	7476083	7476083	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccaggtatcccaggtccTcctctatctccctgtacatt	8	13	5	15	0	2	0	0	0	2	0	7	0	6	0	5	2	1	2	5	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:7476083T>C	uc003src.1	-	23	1920	c.1803A>G	c.(1801-1803)GGA>GGG	p.G601G	COL28A1_uc011jxe.1_Silent_p.G284G|COL28A1_uc003srd.2_Silent_p.G156G|COL28A1_uc003sre.1_Silent_p.G22G	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	601					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		TCCCAGGTCCTCCTCTATCTC	0.393													5	58					0	0	1	0	0		C	7476083	C	C	7476083	2	2	27	1	0	0	0	0	0	0	0	1	3689	1538	54	3		3	COL28A1	7	7476083	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1411771	7476083	151662580	3461	25812											
MIOS	54468	broad.mit.edu	37	chr7	7625282	7625282	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaggagatctgaatctcaAtgtggtagcaatggctttat	11	13	11	6	0	2	2	1	1	2	1	3	3	2	2	0	3	2	4	0	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:7625282A>G	uc003srf.2	+	7	1972	c.1664A>G	c.(1663-1665)AAT>AGT	p.N555S	MIOS_uc003srg.2_Missense_Mutation_p.N90S|MIOS_uc010ktq.2_5'UTR	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	555											0						CTGAATCTCAATGTGGTAGCA	0.368													27	80					0	0	1	0	0		G	7625282	G	G	7625282	3	3	27	1	0	0	0	0	1	0	0	0	9607	101	4	3	1678	3	MIOS	7	7625282	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	149199	7625282	151513381	3462	25813											
MIOS	54468	broad.mit.edu	37	chr7	7636009	7636009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaacgaaatctaaagtcaCaagttgtcctggctgtcgaa	14	9	8	10	2	2	0	1	0	1	0	4	2	3	0	2	1	1	2	2	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:7636009C>T	uc003srf.2	+	11	2626	c.2318C>T	c.(2317-2319)ACA>ATA	p.T773I	MIOS_uc003srg.2_Missense_Mutation_p.T308I|MIOS_uc010ktq.2_Missense_Mutation_p.T168I	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	773											0						TCTAAAGTCACAAGTTGTCCT	0.458													10	113					0	0	1	0	0		T	7636009	T	T	7636009	3	4	27	1	0	0	0	0	1	0	0	0	9607	478	17	4	2348	4	MIOS	7	7636009	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10727	7636009	151502654	3463	25814											
ICA1	3382	broad.mit.edu	37	chr7	8272362	8272362	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttatcttgagcatatcgaTcctgtaagtcccagggataa	12	12	8	9	1	1	1	0	1	1	0	4	3	3	2	2	1	1	2	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:8272362T>A	uc003srm.2	-	3	108	c.41A>T	c.(40-42)GAT>GTT	p.D14V	ICA1_uc010ktr.2_Missense_Mutation_p.D14V|ICA1_uc003srl.2_Missense_Mutation_p.D2V|ICA1_uc003srn.3_5'UTR|ICA1_uc003srp.3_Missense_Mutation_p.D13V|ICA1_uc010kts.2_RNA|ICA1_uc003srq.2_Missense_Mutation_p.D14V|ICA1_uc003srr.2_Missense_Mutation_p.D13V|ICA1_uc003sro.3_Missense_Mutation_p.D14V|ICA1_uc011jxg.1_Missense_Mutation_p.D14V|ICA1_uc003srs.1_Missense_Mutation_p.D14V	NM_022307	NP_071682	Q05084	ICA69_HUMAN	islet cell autoantigen 1	14					neurotransmitter transport	cell junction|cytosol|Golgi membrane|nucleus|secretory granule membrane|synaptic vesicle membrane|transport vesicle membrane				central_nervous_system(1)	1		Ovarian(82;0.0612)		UCEC - Uterine corpus endometrioid carcinoma (126;0.246)		AGCATATCGATCCTGTAAGTC	0.333													11	83					0	0	1	0	0		A	8272362	A	A	8272362	3	1	27	1	0	0	0	0	1	0	0	0	7493	1435	50	5	1458	5	ICA1	7	8272362	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	636353	8272362	150866301	3464	25815											
PHF14	9678	broad.mit.edu	37	chr7	11101630	11101630	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagacaaagacagtctgtgTtgcaaaagaagcccaaggct	16	6	11	8	0	1	3	0	0	1	3	1	4	1	3	1	1	2	3	1	1	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:11101630T>C	uc003sry.1	+	16	3007	c.2572T>C	c.(2572-2574)TTG>CTG	p.L858L	PHF14_uc011jxi.1_Silent_p.L573L|PHF14_uc003srz.2_Silent_p.L858L|PHF14_uc011jxj.1_Silent_p.L573L	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	858							zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		ACAGTCTGTGTTGCAAAAGAA	0.373													3	24					0	0	1	0	0		C	11101630	C	C	11101630	2	2	27	1	0	0	0	0	0	0	0	1	11844	1722	60	3		3	PHF14	7	11101630	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2829268	11101630	148037033	3465	25816											
THSD7A	221981	broad.mit.edu	37	chr7	11422208	11422208	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgggaagagcccttccaagCactggccatccatttatatt	10	11	8	12	1	0	1	0	0	0	1	3	2	2	2	4	2	2	1	4	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:11422208C>A	uc003ssf.3	-	23	4699	c.4447G>T	c.(4447-4449)GCT>TCT	p.A1483S	uc003ssb.2_Intron|THSD7A_uc003ssd.3_5'Flank	NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1483	Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		CCCTTCCAAGCACTGGCCATC	0.423										HNSCC(18;0.044)			7	30					0.00448238	0.00462772	1	1	0		A	11422208	A	A	11422208	3	1	27	1	0	0	0	0	1	0	0	0	15904	710	25	5	546	5	THSD7A	7	11422208	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	320578	11422208	147716455	3466	25817											
THSD7A	221981	broad.mit.edu	37	chr7	11676020	11676020	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggccccacatgcaggctGtacctgagctcctcggcctc	6	7	11	17	1	0	1	0	1	0	0	3	1	1	1	5	3	3	4	5	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:11676020G>T	uc003ssf.3	-	2	1011	c.759C>A	c.(757-759)TAC>TAA	p.Y253*		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	253	Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		CATGCAGGCTGTACCTGAGCT	0.602										HNSCC(18;0.044)			5	63					0.000602214	0.000630257	1	1	0		T	11676020	T	T	11676020	4	4	27	1	0	0	0	0	0	1	0	0	15904	1372	48	5	4318	5	THSD7A	7	11676020	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	253812	11676020	147462643	3467	25818											
TMEM106B	54664	broad.mit.edu	37	chr7	12271530	12271530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagaggtatcagtatgtcGactgtggaagaaacacaact	15	8	12	6	1	1	2	1	0	0	2	2	5	1	3	0	3	2	2	0	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:12271530G>A	uc011jxk.1	+	9	1154	c.754G>A	c.(754-756)GAC>AAC	p.D252N	TMEM106B_uc003ssh.2_Missense_Mutation_p.D252N	NM_018374	NP_060844	Q9NUM4	T106B_HUMAN	transmembrane protein 106B	252						integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (126;0.185)		TCAGTATGTCGACTGTGGAAG	0.373													4	33					0	0	1	0	0		A	12271530	A	A	12271530	3	1	27	1	0	0	0	0	1	0	0	0	16046	1058	37	1	780	1	TMEM106B	7	12271530	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	595510	12271530	146867133	3468	25819											
DGKB	1607	broad.mit.edu	37	chr7	14613887	14613887	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtaaggcactgggtctcCtttctcatctttgtcattag	7	16	8	10	0	4	0	2	0	3	0	6	0	4	0	1	2	0	2	1	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:14613887C>A	uc003ssz.2	-	19	1910	c.1723G>T	c.(1723-1725)GGA>TGA	p.G575*	DGKB_uc011jxt.1_Nonsense_Mutation_p.G556*|DGKB_uc003sta.2_Nonsense_Mutation_p.G575*|DGKB_uc011jxu.1_Nonsense_Mutation_p.G574*	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	575					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	ACTGGGTCTCCTTTCTCATCT	0.358													22	178					7.45023e-12	8.27399e-12	1	1	0		A	14613887	A	A	14613887	4	1	27	1	0	0	0	0	0	1	0	0	4472	690	24	5	734	5	DGKB	7	14613887	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2342357	14613887	144524776	3469	25820											
DGKB	1607	broad.mit.edu	37	chr7	14724957	14724957	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgttaaagtgcttcagtcGccacacgtgctgtccatcat	8	14	8	11	2	2	0	2	0	0	0	4	0	3	0	2	0	2	3	2	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:14724957G>A	uc003ssz.2	-	9	929	c.742C>T	c.(742-744)CGA>TGA	p.R248*	DGKB_uc011jxt.1_Nonsense_Mutation_p.R241*|DGKB_uc003sta.2_Nonsense_Mutation_p.R248*|DGKB_uc011jxu.1_Nonsense_Mutation_p.R248*|DGKB_uc011jxv.1_Nonsense_Mutation_p.R248*	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	248	Phorbol-ester/DAG-type 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	TGCTTCAGTCGCCACACGTGC	0.458													18	47					0	0	1	0	0		A	14724957	A	A	14724957	4	1	27	1	0	0	0	0	0	1	0	0	4472	1095	38	1	1755	1	DGKB	7	14724957	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	111070	14724957	144413706	3470	25821											
SOSTDC1	25928	broad.mit.edu	37	chr7	16505200	16505200	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaaccacatgtgaataaaGgatttctgtggcatcatttt	12	16	7	6	0	2	1	1	1	1	0	2	2	2	2	1	2	1	1	1	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:16505200G>T	uc003stg.2	-	1	275	c.94C>A	c.(94-96)CTT>ATT	p.L32I	SOSTDC1_uc003sth.2_Missense_Mutation_p.L32I	NM_015464	NP_056279	Q6X4U4	SOSD1_HUMAN	sclerostin domain containing 1 precursor	32					Wnt receptor signaling pathway					ovary(2)|central_nervous_system(1)	3	Lung NSC(10;0.185)			UCEC - Uterine corpus endometrioid carcinoma (126;0.177)		TGTGAATAAAGGATTTCTGTG	0.448													10	86					7.48243e-07	8.13385e-07	1	1	0		T	16505200	T	T	16505200	3	4	27	1	0	0	0	0	1	0	0	0	14964	1000	35	5	534	5	SOSTDC1	7	16505200	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1780243	16505200	142633463	3471	25822											
MACC1	346389	broad.mit.edu	37	chr7	20180770	20180770	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacagaaaatcataggcaggTttccacatcatctataaaga	17	10	6	8	0	3	2	2	0	1	2	4	2	4	2	1	2	1	2	1	2	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:20180770T>A	uc003sus.3	-	7	2667	c.2358A>T	c.(2356-2358)AAA>AAT	p.K786N	MACC1_uc010kug.2_Missense_Mutation_p.K786N	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	786					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						CATAGGCAGGTTTCCACATCA	0.348													5	73					0	0	1	0	0		A	20180770	A	A	20180770	3	1	27	1	0	0	0	0	1	0	0	0	9161	1722	60	5	204	5	MACC1	7	20180770	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3675570	20180770	138957893	3472	25823											
MACC1	346389	broad.mit.edu	37	chr7	20199707	20199707	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttcctttaagatggaaaTattatttctcttcctgttat	10	20	4	7	0	2	1	0	0	2	1	5	2	4	2	2	1	0	1	2	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:20199707T>A	uc003sus.3	-	5	586	c.277A>T	c.(277-279)ATT>TTT	p.I93F	MACC1_uc010kug.2_Missense_Mutation_p.I93F	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	93					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						AAGATGGAAATATTATTTCTC	0.343													4	52					0	0	1	0	0		A	20199707	A	A	20199707	3	1	27	1	0	0	0	0	1	0	0	0	9161	1406	49	5	2293	5	MACC1	7	20199707	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18937	20199707	138938956	3473	25824											
ITGB8	3696	broad.mit.edu	37	chr7	20449319	20449319	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgggttgcttaaagtccTgatcattagacaggtgatac	11	13	11	6	0	1	3	1	2	0	1	2	4	2	3	1	2	2	2	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:20449319T>C	uc003suu.2	+	13	2810	c.2105T>C	c.(2104-2106)CTG>CCG	p.L702P	ITGB8_uc011jyh.1_Missense_Mutation_p.L567P	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	702	Helical; (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						CTTAAAGTCCTGATCATTAGA	0.333													32	103					0	0	1	0	0		C	20449319	C	C	20449319	3	2	27	1	0	0	0	0	1	0	0	0	7917	1580	55	3	2155	3	ITGB8	7	20449319	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	249612	20449319	138689344	3474	25825											
ABCB5	340273	broad.mit.edu	37	chr7	20666232	20666232	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcagttggatctattgagAtagtaagtgaaatcagttag	15	12	11	3	0	2	2	1	2	1	1	2	4	2	3	0	1	1	4	0	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:20666232A>T	uc010kuh.2	+	3	343	c.106A>T	c.(106-108)ATA>TTA	p.I36L		NM_001163941	NP_001157413	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	689	Cytoplasmic (Potential).|ABC transporter 2.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						ATCTATTGAGATAGTAAGTGA	0.328													3	22					0	0	1	0	0		T	20666232	T	T	20666232	3	4	27	1	0	0	0	0	1	0	0	0	44	333	12	5	112	5	ABCB5	7	20666232	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	216913	20666232	138472431	3475	25826											
ABCB5	340273	broad.mit.edu	37	chr7	20778637	20778637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caattgcatatggagctatgGccatcggagaaacgctcgtt	11	10	11	9	3	0	1	0	0	0	1	2	3	0	2	1	3	3	4	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:20778637G>A	uc003suw.3	+	15	2110	c.1564G>A	c.(1564-1566)GCC>ACC	p.A522T	ABCB5_uc010kuh.2_Missense_Mutation_p.A967T	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	522	Helical; (Potential).|ABC transmembrane type-1.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						TGGAGCTATGGCCATCGGAGA	0.403													3	24					0	0	1	0	0		A	20778637	A	A	20778637	3	1	27	1	0	0	0	0	1	0	0	0	44	1203	42	2	3030	2	ABCB5	7	20778637	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	112405	20778637	138360026	3476	25827											
DNAH11	8701	broad.mit.edu	37	chr7	21603998	21603998	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttattgcaagagttttgtAatctcttcattaaccaggta	11	18	6	6	0	2	1	1	0	1	1	3	1	2	1	1	1	2	4	1	1	5	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:21603998A>T	uc003svc.2	+	6	1208	c.1177A>T	c.(1177-1179)AAT>TAT	p.N393Y		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	393	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AGAGTTTTGTAATCTCTTCAT	0.353									Kartagener_syndrome				4	47					0	0	1	0	0		T	21603998	T	T	21603998	3	4	27	1	0	0	0	0	1	0	0	0	4605	362	13	5	1199	5	DNAH11	7	21603998	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	825361	21603998	137534665	3477	25828											
DNAH11	8701	broad.mit.edu	37	chr7	21609853	21609853	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaagctgagaccatgggAtttccagtctcatctggtgt	11	11	11	8	0	2	2	1	1	2	2	4	4	3	3	2	2	1	1	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:21609853A>T	uc003svc.2	+	7	1392	c.1361A>T	c.(1360-1362)GAT>GTT	p.D454V		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	454	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AGACCATGGGATTTCCAGTCT	0.323									Kartagener_syndrome				6	111					0	0	1	0	0		T	21609853	T	T	21609853	3	4	27	1	0	0	0	0	1	0	0	0	4605	333	12	5	1387	5	DNAH11	7	21609853	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5855	21609853	137528810	3478	25829											
DNAH11	8701	broad.mit.edu	37	chr7	21906122	21906122	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaatttcgaggcatagAccgagatgtggaaggatctg	13	8	15	5	2	1	3	0	0	1	3	2	8	1	6	1	4	0	1	1	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:21906122A>T	uc003svc.2	+	72	11583	c.11552A>T	c.(11551-11553)GAC>GTC	p.D3851V		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3851					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CGAGGCATAGACCGAGATGTG	0.413									Kartagener_syndrome				11	99					0	0	1	0	0		T	21906122	T	T	21906122	3	4	27	1	0	0	0	0	1	0	0	0	4605	275	10	5	11835	5	DNAH11	7	21906122	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	296269	21906122	137232541	3479	25830											
DNAH11	8701	broad.mit.edu	37	chr7	21923982	21923982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcacagatgactgggatcGcaaactgtgtcgggtgtatt	10	11	12	8	2	1	2	1	1	0	1	3	3	1	3	0	2	1	2	0	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:21923982G>A	uc003svc.2	+	77	12513	c.12482G>A	c.(12481-12483)CGC>CAC	p.R4161H		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4161					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GACTGGGATCGCAAACTGTGT	0.383									Kartagener_syndrome				24	70					0	0	1	0	0		A	21923982	A	A	21923982	3	1	27	1	0	0	0	0	1	0	0	0	4605	1087	38	1	12785	1	DNAH11	7	21923982	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17860	21923982	137214681	3480	25831											
KLHL7	55975	broad.mit.edu	37	chr7	23164720	23164720	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggatgcagcaaaccaatAtcagattgaacctgtgaaga	15	8	10	8	0	1	4	1	2	0	2	1	5	1	5	2	1	4	3	2	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:23164720A>G	uc003svs.3	+	4	664	c.371A>G	c.(370-372)TAT>TGT	p.Y124C	KLHL7_uc003svr.3_Missense_Mutation_p.Y102C|KLHL7_uc011jys.1_Missense_Mutation_p.Y48C|KLHL7_uc011jyt.1_Intron|KLHL7_uc003svt.2_Missense_Mutation_p.Y76C|KLHL7_uc003svp.2_Missense_Mutation_p.Y102C|KLHL7_uc003svq.2_Missense_Mutation_p.Y124C|KLHL7_uc011jyu.1_Missense_Mutation_p.Y102C	NM_001031710	NP_001026880	Q8IXQ5	KLHL7_HUMAN	kelch-like 7 isoform 1	124						Golgi apparatus|nucleolus|plasma membrane					0						GCAAACCAATATCAGATTGAA	0.333													8	61					0	0	1	0	0		G	23164720	G	G	23164720	3	3	27	1	0	0	0	0	1	0	0	0	8410	449	16	3	385	3	KLHL7	7	23164720	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1240738	23164720	135973943	3481	25832											
C7orf46	340277	broad.mit.edu	37	chr7	23724154	23724154	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggagggaaactttttacTcctgaagaatatgaagaata	16	11	10	4	0	0	4	0	2	0	2	1	7	1	6	1	2	2	0	1	2	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:23724154T>A	uc003swo.3	+	2	191	c.102T>A	c.(100-102)ACT>ACA	p.T34T	C7orf46_uc003swq.3_Silent_p.T34T|C7orf46_uc003swr.3_Intron|C7orf46_uc003swp.3_RNA|C7orf46_uc010kup.2_RNA	NM_199136	NP_954587	A4D161	CG046_HUMAN	hypothetical protein LOC340277 isoform 1	34											0						AACTTTTTACTCCTGAAGAAT	0.274													7	43					0	0	1	0	0		A	23724154	A	A	23724154	2	1	27	1	0	0	0	0	0	0	0	1	2399	1538	54	5		5	C7orf46	7	23724154	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	559434	23724154	135414509	3482	25833											
STK31	56164	broad.mit.edu	37	chr7	23751728	23751728	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgttctagtttttcaggaAttgttcaaatggatgaagat	12	17	9	3	0	3	2	2	1	1	1	3	4	3	4	0	2	0	3	0	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:23751728A>T	uc003sws.3	+	2	128	c.61A>T	c.(61-63)ATT>TTT	p.I21F	STK31_uc003swt.3_5'UTR|STK31_uc011jze.1_Missense_Mutation_p.I21F|STK31_uc010kuq.2_5'UTR	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	21							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						TTTTTCAGGAATTGTTCAAAT	0.274													4	25					0	0	1	0	0		T	23751728	T	T	23751728	3	4	27	1	0	0	0	0	1	0	0	0	15321	101	4	5	67	5	STK31	7	23751728	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	27574	23751728	135386935	3483	25834											
STK31	56164	broad.mit.edu	37	chr7	23809300	23809300	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcactgatttcagaagaCgcaatggataatattgatga	15	11	10	5	1	2	5	2	3	0	2	2	7	2	7	0	2	0	1	0	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:23809300C>T	uc003sws.3	+	13	1705	c.1638C>T	c.(1636-1638)GAC>GAT	p.D546D	STK31_uc003swt.3_Silent_p.D523D|STK31_uc011jze.1_Silent_p.D546D|STK31_uc010kuq.2_Silent_p.D523D	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	546							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						TTTCAGAAGACGCAATGGATA	0.353													13	104					0	0	1	0	0		T	23809300	T	T	23809300	2	4	27	1	0	0	0	0	0	0	0	1	15321	535	19	1		1	STK31	7	23809300	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	57572	23809300	135329363	3484	25835											
SKAP2	8935	broad.mit.edu	37	chr7	26724393	26724393	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatcaccacgcttaaatgAcaactcatcagaaaaagctc	17	7	4	13	1	3	2	3	1	0	1	4	2	3	2	1	0	2	2	1	0	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:26724393A>C	uc003syc.2	-	11	1242	c.949T>G	c.(949-951)TCA>GCA	p.S317A	SKAP2_uc011jzi.1_Missense_Mutation_p.S145A|SKAP2_uc011jzj.1_Missense_Mutation_p.S302A	NM_003930	NP_003921	O75563	SKAP2_HUMAN	src kinase associated phosphoprotein 2	317	SH3.				B cell activation|cell junction assembly|protein complex assembly|signal transduction	cytosol|plasma membrane	SH3/SH2 adaptor activity			pancreas(1)	1						CGCTTAAATGACAACTCATCA	0.378													6	41					0	0	1	0	0		C	26724393	C	C	26724393	3	2	27	1	0	0	0	0	1	0	0	0	14381	275	10	5	138	5	SKAP2	7	26724393	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2915093	26724393	132414270	3485	25836											
HOXA2	3199	broad.mit.edu	37	chr7	27141056	27141056	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggcgccgcgatcccccGccgctgccatcggcgatttc	4	7	11	19	7	1	0	1	0	0	0	4	2	2	0	5	2	1	1	5	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:27141056G>A	uc003syh.2	-	2	695	c.420C>T	c.(418-420)GGC>GGT	p.G140G		NM_006735	NP_006726	O43364	HXA2_HUMAN	homeobox A2	140						nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GCGATCCCCCGCCGCTGCCAT	0.552													4	36					0	0	1	0	0		A	27141056	A	A	27141056	2	1	27	1	0	0	0	0	0	0	0	1	7308	1074	38	1		1	HOXA2	7	27141056	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	416663	27141056	131997607	3486	25837											
HOXA3	3200	broad.mit.edu	37	chr7	27147767	27147767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccacatagctgccccccaCgaagacggggcttccctgta	8	7	9	17	2	0	1	0	0	0	1	2	2	2	1	5	2	2	3	5	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:27147767C>T	uc011jzl.1	-	3	1299	c.1099G>A	c.(1099-1101)GTG>ATG	p.V367M	HOXA3_uc011jzk.1_Missense_Mutation_p.V209M|HOXA3_uc003syk.2_Missense_Mutation_p.V367M	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	367					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						CTGCCCCCCACGAAGACGGGG	0.677													3	25					0	0	1	0	0		T	27147767	T	T	27147767	3	4	27	1	0	0	0	0	1	0	0	0	7309	536	19	1	236	1	HOXA3	7	27147767	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6711	27147767	131990896	3487	25838											
HOXA3	3200	broad.mit.edu	37	chr7	27149900	27149900	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaggcagaagagggaggCgggggcgcggcaggggtagg	8	1	27	5	3	0	2	0	0	0	2	0	4	0	4	0	11	0	3	0	11	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:27149900C>T	uc011jzl.1	-	2	560	c.360G>A	c.(358-360)CCG>CCA	p.P120P	HOXA3_uc011jzk.1_Splice_Site|HOXA3_uc003syk.2_Silent_p.P120P	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	120	Pro-rich.				angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						AAGAGggaggcgggggcgcgg	0.299													4	24					0	0	1	0	0		T	27149900	T	T	27149900	2	4	27	1	0	0	0	0	0	0	0	1	7309	755	27	1		1	HOXA3	7	27149900	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2133	27149900	131988763	3488	25839											
HOXA3	3200	broad.mit.edu	37	chr7	27150214	27150214	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttggctgcctggtaggggtAgccaccgtagatcgccgagc	6	8	16	11	3	0	1	0	0	0	1	1	2	0	1	4	4	3	5	4	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:27150214A>G	uc011jzl.1	-	2	246	c.46T>C	c.(46-48)TAC>CAC	p.Y16H	HOXA3_uc011jzk.1_Intron|HOXA3_uc003syk.2_Missense_Mutation_p.Y16H	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	16					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						TGGTAGGGGTAGCCACCGTAG	0.607													5	79					0	0	1	0	0		G	27150214	G	G	27150214	3	3	27	1	0	0	0	0	1	0	0	0	7309	420	15	3	1293	3	HOXA3	7	27150214	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	314	27150214	131988449	3489	25840											
CPVL	54504	broad.mit.edu	37	chr7	29111986	29111986	+	Silent	SNP	G	A	A																															atcttcacctctctcacaggGttgagggaatggatgaggtg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:29111986G>A	uc003szv.2	-	8	782	c.663C>T	c.(661-663)AAC>AAT	p.N221N	CPVL_uc003szw.2_Silent_p.N221N|CPVL_uc003szx.2_Silent_p.N221N	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	221					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						CTCTCACAGGGTTGAGGGAAT	0.438													7	55					0	0	1	0	0		A	29111986	A	A	29111986	2	1	27	1	0	0	0	0	0	0	0	1	3838	1252	44	4		4	CPVL	7	29111986	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1961772	29111986	130026677	3490	25841	48	2									
CPVL	54504	broad.mit.edu	37	chr7	29111991	29111991	+	Missense_Mutation	SNP	G	T	T																															cacctctctcacagggttgaGggaatggatgaggtgtgcaa																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:29111991G>T	uc003szv.2	-	8	777	c.658C>A	c.(658-660)CTC>ATC	p.L220I	CPVL_uc003szw.2_Missense_Mutation_p.L220I|CPVL_uc003szx.2_Missense_Mutation_p.L220I	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	220					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						ACAGGGTTGAGGGAATGGATG	0.433													4	59					2.56e-06	2.77152e-06	1	1	0		T	29111991	T	T	29111991	3	4	27	1	0	0	0	0	1	0	0	0	3838	1000	35	5	796	5	CPVL	7	29111991	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5	29111991	130026672	3491	25842	48	2									
CPVL	54504	broad.mit.edu	37	chr7	29160521	29160521	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacttacctttttggatctTcccagcttcaatgtaagggg	8	16	8	9	0	2	0	1	0	1	0	3	1	3	1	2	3	3	2	2	3	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:29160521T>C	uc003szv.2	-	2	276	c.157A>G	c.(157-159)AAG>GAG	p.K53E	CPVL_uc003szw.2_Missense_Mutation_p.K53E|CPVL_uc003szx.2_Missense_Mutation_p.K53E	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	53					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						TTTTGGATCTTCCCAGCTTCA	0.348													4	67					0	0	1	0	0		C	29160521	C	C	29160521	3	2	27	1	0	0	0	0	1	0	0	0	3838	1792	62	3	1321	3	CPVL	7	29160521	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	48530	29160521	129978142	3492	25843											
CHN2	1124	broad.mit.edu	37	chr7	29552310	29552310	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgcggtaccaaaagctgAttgtgcagattttaatagaa	15	12	9	5	1	0	3	0	1	0	2	0	3	0	3	1	1	4	3	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:29552310A>G	uc003szz.2	+	13	1803	c.1366A>G	c.(1366-1368)ATT>GTT	p.I456V	CHN2_uc011jzs.1_Missense_Mutation_p.I531V|CHN2_uc010kva.2_3'UTR|CHN2_uc010kvb.2_RNA|CHN2_uc010kvc.2_Missense_Mutation_p.I421V|CHN2_uc011jzt.1_Missense_Mutation_p.I469V|CHN2_uc010kvd.2_Missense_Mutation_p.I312V|CHN2_uc011jzu.1_Missense_Mutation_p.I441V|CHN2_uc010kvg.2_Missense_Mutation_p.I274V|CHN2_uc010kvh.2_Missense_Mutation_p.I216V|CHN2_uc010kvi.2_Missense_Mutation_p.I248V|CHN2_uc010kve.2_3'UTR|CHN2_uc003taa.2_Missense_Mutation_p.I320V|CHN2_uc010kvf.2_Missense_Mutation_p.I262V|CHN2_uc010kvj.2_Missense_Mutation_p.I229V|CHN2_uc010kvk.2_Missense_Mutation_p.I131V|CHN2_uc010kvl.2_RNA|CHN2_uc010kvm.2_Missense_Mutation_p.I275V|CHN2_uc011jzv.1_Missense_Mutation_p.I249V	NM_004067	NP_004058	P52757	CHIO_HUMAN	beta chimerin isoform 2	456	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|membrane	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)	2						CCAAAAGCTGATTGTGCAGAT	0.483													8	55					0	0	1	0	0		G	29552310	G	G	29552310	3	3	27	1	0	0	0	0	1	0	0	0	3366	333	12	3	1584	3	CHN2	7	29552310	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	391789	29552310	129586353	3493	25844											
PLEKHA8	84725	broad.mit.edu	37	chr7	30094922	30094922	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggcattcccacagaagcaTtcttggcatcatgttatgct	9	13	9	10	0	2	1	1	0	1	1	3	1	3	1	1	2	2	5	1	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:30094922T>A	uc003tam.1	+	9	1094	c.1003T>A	c.(1003-1005)TTC>ATC	p.F335I	PLEKHA8_uc003tao.2_Missense_Mutation_p.F219I|PLEKHA8_uc003tap.1_Missense_Mutation_p.F335I|PLEKHA8_uc003tan.2_Missense_Mutation_p.F335I	NM_032639	NP_116028	Q96JA3	PKHA8_HUMAN	pleckstrin homology domain containing, family A	335					protein transport	cytoplasm	glycolipid binding|glycolipid transporter activity			breast(3)|ovary(1)	4						CACAGAAGCATTCTTGGCATC	0.388													9	110					0	0	1	0	0		A	30094922	A	A	30094922	3	1	27	1	0	0	0	0	1	0	0	0	12081	1493	52	5	1037	5	PLEKHA8	7	30094922	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	542612	30094922	129043741	3494	25845											
NOD1	10392	broad.mit.edu	37	chr7	30490868	30490868	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgaagcagggctgcagcTcccgcacgccgtagtcgttg	6	7	15	13	4	0	1	0	1	0	0	2	1	1	1	2	2	3	8	2	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:30490868T>C	uc003tav.2	-	6	2688	c.2165A>G	c.(2164-2166)GAG>GGG	p.E722G		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	722	LRR 2.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						GGGCTGCAGCTCCCGCACGCC	0.662													4	53					0	0	1	0	0		C	30490868	C	C	30490868	3	2	27	1	0	0	0	0	1	0	0	0	10535	1551	54	3	732	3	NOD1	7	30490868	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	395946	30490868	128647795	3495	25846											
NOD1	10392	broad.mit.edu	37	chr7	30491688	30491688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcgtggagggtctccactgGgctgcgtgtgttccgctgca	3	10	17	11	3	1	0	0	0	1	0	3	1	2	1	2	4	2	4	2	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:30491688G>A	uc003tav.2	-	6	1868	c.1345C>T	c.(1345-1347)CCA>TCA	p.P449S		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	449	NACHT.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						GTCTCCACTGGGCTGCGTGTG	0.637													5	54					0	0	1	0	0		A	30491688	A	A	30491688	3	1	27	1	0	0	0	0	1	0	0	0	10535	1232	43	4	1552	4	NOD1	7	30491688	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	820	30491688	128646975	3496	25847											
GARS	2617	broad.mit.edu	37	chr7	30661016	30661016	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatatctttttagggttggaTtgagattgttggatgtgctg	7	19	13	2	0	1	1	0	1	1	1	1	4	1	3	0	3	1	3	0	3	3	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:30661016T>A	uc003tbm.2	+	11	1724	c.1367T>A	c.(1366-1368)ATT>AAT	p.I456N		NM_002047	NP_002038	P41250	SYG_HUMAN	glycyl-tRNA synthetase	456					cell death|diadenosine tetraphosphate biosynthetic process|glycyl-tRNA aminoacylation	cytosol|mitochondrial matrix|soluble fraction	ATP binding|glycine-tRNA ligase activity|protein dimerization activity			ovary(1)	1					Glycine(DB00145)	TAGGGTTGGATTGAGATTGTT	0.368													9	226					0	0	1	0	0		A	30661016	A	A	30661016	3	1	27	1	0	0	0	0	1	0	0	0	6257	1493	52	5	1409	5	GARS	7	30661016	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	169328	30661016	128477647	3497	25848											
CRHR2	1395	broad.mit.edu	37	chr7	30693176	30693176	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactcgaagggagtgatggTcctgccagcggtgccacctc	7	7	15	12	2	0	1	0	1	0	0	3	4	1	3	4	4	3	0	4	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:30693176T>C	uc003tbn.2	-	12	1380	c.1136A>G	c.(1135-1137)GAC>GGC	p.D379G	CRHR2_uc010kvw.1_3'UTR|CRHR2_uc010kvx.1_Missense_Mutation_p.D378G|CRHR2_uc010kvy.1_Missense_Mutation_p.D215G|CRHR2_uc003tbo.2_Missense_Mutation_p.D365G|CRHR2_uc003tbp.2_Missense_Mutation_p.D406G	NM_001883	NP_001874	Q13324	CRFR2_HUMAN	corticotropin releasing hormone receptor 2	379	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(2)|ovary(1)|skin(1)	4						GGAGTGATGGTCCTGCCAGCG	0.642													7	88					0	0	1	0	0		C	30693176	C	C	30693176	3	2	27	1	0	0	0	0	1	0	0	0	3875	1667	58	3	103	3	CRHR2	7	30693176	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	32160	30693176	128445487	3498	25849											
GHRHR	2692	broad.mit.edu	37	chr7	31014631	31014631	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctactggtggatcatcaaAgggcccattgtcctctcggt	7	11	10	13	1	3	0	2	0	1	0	5	1	4	1	3	4	1	0	3	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:31014631A>G	uc003tbx.2	+	9	906	c.858A>G	c.(856-858)AAA>AAG	p.K286K	GHRHR_uc003tbw.1_Silent_p.K286K|GHRHR_uc003tby.2_Silent_p.K222K|GHRHR_uc003tbz.2_Missense_Mutation_p.R53G	NM_000823	NP_000814	Q02643	GHRHR_HUMAN	growth hormone releasing hormone receptor	286	Helical; Name=5; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to estrogen stimulus|response to glucocorticoid stimulus	cell surface|integral to membrane|nuclear inner membrane|nuclear matrix|nuclear outer membrane|plasma membrane|stored secretory granule	growth factor binding|growth hormone-releasing hormone receptor activity|peptide hormone binding			ovary(2)|lung(1)|breast(1)|large_intestine(1)	5					Sermorelin(DB00010)	GGATCATCAAAGGGCCCATTG	0.567											OREG0017943	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	60					0	0	1	0	0		G	31014631	G	G	31014631	2	3	27	1	0	0	0	0	0	0	0	1	6388	69	3	3		3	GHRHR	7	31014631	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	321455	31014631	128124032	3499	25850											
ADCYAP1R1	117	broad.mit.edu	37	chr7	31102904	31102904	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggtgtcgtgcacgtttcCctggctgctctcctcctgct	1	14	11	15	2	1	0	0	0	1	0	5	0	3	0	3	2	3	6	3	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:31102904C>T	uc003tca.1	+	2	247	c.24C>T	c.(22-24)TCC>TCT	p.S8S	ADCYAP1R1_uc003tcb.1_Silent_p.S8S|ADCYAP1R1_uc003tcc.1_Silent_p.S8S|ADCYAP1R1_uc003tcd.1_Silent_p.S8S|ADCYAP1R1_uc003tce.1_Silent_p.S8S	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	8					activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						TGCACGTTTCCCTGGCTGCTC	0.602													6	61					0	0	1	0	0		T	31102904	T	T	31102904	2	4	27	1	0	0	0	0	0	0	0	1	303	610	22	4		4	ADCYAP1R1	7	31102904	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	88273	31102904	128035759	3500	25851											
CCDC129	223075	broad.mit.edu	37	chr7	31683452	31683452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggggagaggcaaagccctgGccctgaaccctcagtctgta	9	6	13	13	1	2	2	1	1	1	1	2	3	2	2	3	4	2	2	3	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:31683452G>A	uc003tcj.1	+	11	3461	c.2468G>A	c.(2467-2469)GGC>GAC	p.G823D	CCDC129_uc011kad.1_Missense_Mutation_p.G833D|CCDC129_uc003tci.1_Missense_Mutation_p.G674D|CCDC129_uc011kae.1_Missense_Mutation_p.G849D|CCDC129_uc003tck.1_Missense_Mutation_p.G731D	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	823	Cys-rich.										0						CAAAGCCCTGGCCCTGAACCC	0.562													12	67					0	0	1	0	0		A	31683452	A	A	31683452	3	1	27	1	0	0	0	0	1	0	0	0	2767	1203	42	2	2506	2	CCDC129	7	31683452	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	580548	31683452	127455211	3501	25852											
KBTBD2	25948	broad.mit.edu	37	chr7	32909594	32909594	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcacaaggtaaagggcttAccatcgtccactcatctttc	12	10	7	12	1	2	0	1	0	1	0	5	0	3	0	2	2	2	3	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:32909594A>G	uc003tdb.2	-	4	1894	c.1235T>C	c.(1234-1236)GTA>GCA	p.V412A	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	412	Kelch 2.										0			GBM - Glioblastoma multiforme(11;0.0499)			TAAAGGGCTTACCATCGTCCA	0.448													10	141					0	0	1	0	0		G	32909594	G	G	32909594	3	3	27	1	0	0	0	0	1	0	0	0	8009	391	14	3	640	3	KBTBD2	7	32909594	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1226142	32909594	126229069	3502	25853											
FKBP9	11328	broad.mit.edu	37	chr7	33042307	33042307	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggagaagtgcccggcagTgccgtattagtgtttgacat	9	11	14	7	2	0	2	0	1	0	1	0	4	0	2	2	2	2	3	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:33042307T>C	uc003tdh.2	+	9	1573	c.1392T>C	c.(1390-1392)AGT>AGC	p.S464S	AVL9_uc011kai.1_Intron|FKBP9_uc011kak.1_RNA|FKBP9_uc011kal.1_Silent_p.S517S|FKBP9_uc011kam.1_Silent_p.S232S	NM_007270	NP_009201	O95302	FKBP9_HUMAN	FK506 binding protein 9 precursor	464	PPIase FKBP-type 4.				protein folding	endoplasmic reticulum|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			central_nervous_system(13)|ovary(1)	14			GBM - Glioblastoma multiforme(11;0.0156)			TGCCCGGCAGTGCCGTATTAG	0.587													3	31					0	0	1	0	0		C	33042307	C	C	33042307	2	2	27	1	0	0	0	0	0	0	0	1	5929	1693	59	3		3	FKBP9	7	33042307	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	132713	33042307	126096356	3503	25854											
BBS9	27241	broad.mit.edu	37	chr7	33303972	33303972	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacagcaaaaacttggttctGgaaaaagactagttgtaagg	17	9	10	5	0	1	1	0	0	1	1	1	2	1	2	0	3	3	4	0	3	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:33303972G>T	uc003tdn.1	+	7	1201	c.688G>T	c.(688-690)GGA>TGA	p.G230*	BBS9_uc003tdo.1_Nonsense_Mutation_p.G230*|BBS9_uc003tdp.1_Nonsense_Mutation_p.G230*|BBS9_uc003tdq.1_Nonsense_Mutation_p.G230*|BBS9_uc010kwn.1_RNA|BBS9_uc011kan.1_Nonsense_Mutation_p.G230*|BBS9_uc011kao.1_Nonsense_Mutation_p.G108*	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	230					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			ACTTGGTTCTGGAAAAAGACT	0.289									Bardet-Biedl_syndrome				5	59					1.23904e-05	1.32877e-05	1	1	0		T	33303972	T	T	33303972	4	4	27	1	0	0	0	0	0	1	0	0	1343	1349	47	5	710	5	BBS9	7	33303972	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	261665	33303972	125834691	3504	25855											
BBS9	27241	broad.mit.edu	37	chr7	33573721	33573721	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaccttgctctgcgatagAttatccaaaggtggccgtct	9	12	9	11	2	3	1	1	0	2	1	4	2	4	1	3	2	2	1	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:33573721A>T	uc003tdn.1	+	21	2967	c.2454A>T	c.(2452-2454)AGA>AGT	p.R818S	BBS9_uc003tdo.1_Missense_Mutation_p.R783S|BBS9_uc003tdp.1_Missense_Mutation_p.R813S|BBS9_uc003tdq.1_Missense_Mutation_p.R778S|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Missense_Mutation_p.R342S|BBS9_uc003tds.1_Missense_Mutation_p.R241S|BBS9_uc003tdt.2_RNA	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	818					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			TCTGCGATAGATTATCCAAAG	0.498									Bardet-Biedl_syndrome				5	55					0	0	1	0	0		T	33573721	T	T	33573721	3	4	27	1	0	0	0	0	1	0	0	0	1343	330	12	5	2532	5	BBS9	7	33573721	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	269749	33573721	125564942	3505	25856											
BMPER	168667	broad.mit.edu	37	chr7	34006121	34006121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaggaaatacctataacaGctccttcaaatggcagagcc	15	8	8	10	0	1	2	1	1	0	1	2	3	2	3	3	2	4	2	3	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:34006121G>A	uc011kap.1	+	4	464	c.350G>A	c.(349-351)AGC>AAC	p.S117N		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	117	VWFC 2.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						ACCTATAACAGCTCCTTCAAA	0.458													8	93					0	0	1	0	0		A	34006121	A	A	34006121	3	1	27	1	0	0	0	0	1	0	0	0	1469	971	34	2	364	2	BMPER	7	34006121	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	432400	34006121	125132542	3506	25857											
EEPD1	80820	broad.mit.edu	37	chr7	36194118	36194118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgacgcgtgccgtggcacGcagcatcgtggagtaccgag	7	6	17	11	6	0	1	0	1	0	0	1	3	0	2	2	3	3	4	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:36194118G>A	uc003tfa.2	+	2	825	c.185G>A	c.(184-186)CGC>CAC	p.R62H		NM_030636	NP_085139	Q7L9B9	EEPD1_HUMAN	endonuclease/exonuclease/phosphatase family	62	HhH.				DNA repair		DNA binding				0						GCCGTGGCACGCAGCATCGTG	0.577													23	90					0	0	1	0	0		A	36194118	A	A	36194118	3	1	27	1	0	0	0	0	1	0	0	0	4938	1087	38	1	187	1	EEPD1	7	36194118	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2187997	36194118	122944545	3507	25858											
ELMO1	9844	broad.mit.edu	37	chr7	36934620	36934620	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctccttcaccacctgcatTacctgaagatgaaaggaaga	13	9	8	11	0	1	4	1	2	0	2	2	5	2	5	4	1	3	2	4	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:36934620T>C	uc003tfk.1	-	17	1747	c.1440A>G	c.(1438-1440)GTA>GTG	p.V480V	ELMO1_uc003tfi.1_5'UTR|ELMO1_uc003tfj.1_5'UTR|ELMO1_uc011kbb.1_RNA|ELMO1_uc011kbc.1_Silent_p.V384V|ELMO1_uc010kxg.1_Silent_p.V480V	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	480	ELMO.				actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						CCACCTGCATTACCTGAAGAT	0.507													7	81					0	0	1	0	0		C	36934620	C	C	36934620	2	2	27	1	0	0	0	0	0	0	0	1	5073	1741	61	3		3	ELMO1	7	36934620	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	740502	36934620	122204043	3508	25859											
ELMO1	9844	broad.mit.edu	37	chr7	37172811	37172811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcccaggtggagtctgcGtgaagtccatggcagggttg	8	9	15	9	1	1	1	0	1	1	0	3	2	3	2	2	4	1	2	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:37172811G>A	uc003tfk.1	-	14	1422	c.1115C>T	c.(1114-1116)ACG>ATG	p.T372M	ELMO1_uc011kbc.1_Missense_Mutation_p.T276M|ELMO1_uc010kxg.1_Missense_Mutation_p.T372M	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	372	ELMO.				actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						TGGAGTCTGCGTGAAGTCCAT	0.463													9	114					0	0	1	0	0		A	37172811	A	A	37172811	3	1	27	1	0	0	0	0	1	0	0	0	5073	1145	40	1	1104	1	ELMO1	7	37172811	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	238191	37172811	121965852	3509	25860											
ELMO1	9844	broad.mit.edu	37	chr7	37311473	37311473	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaaggatagtgccatttttTatctcattgcggttctggaa	9	15	10	7	2	2	0	1	0	2	0	3	3	2	2	1	3	2	1	1	3	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:37311473T>C	uc003tfk.1	-	5	514	c.207A>G	c.(205-207)ATA>ATG	p.I69M	ELMO1_uc011kbc.1_Translation_Start_Site|ELMO1_uc010kxg.1_Missense_Mutation_p.I69M	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	69					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						TGCCATTTTTTATCTCATTGC	0.353													5	97					0	0	1	0	0		C	37311473	C	C	37311473	3	2	27	1	0	0	0	0	1	0	0	0	5073	1744	61	3	2048	3	ELMO1	7	37311473	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	138662	37311473	121827190	3510	25861											
GPR141	353345	broad.mit.edu	37	chr7	37780268	37780268	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcccttctgcaaatttgtGagtgccatgctgcacatcca	8	12	8	13	0	1	1	0	1	1	0	2	1	2	1	3	0	5	3	3	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:37780268G>A	uc003tfm.1	+	1	273	c.273G>A	c.(271-273)GTG>GTA	p.V91V	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	91	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						GCAAATTTGTGAGTGCCATGC	0.483													4	88					0	0	1	0	0		A	37780268	A	A	37780268	2	1	27	1	0	0	0	0	0	0	0	1	6664	1277	45	4		4	GPR141	7	37780268	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	468795	37780268	121358395	3511	25862											
TXNDC3	51314	broad.mit.edu	37	chr7	37907455	37907455	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgaggatcaacctgaggTcgaagcccaggttacacctg	11	8	11	11	1	2	2	1	2	1	0	3	4	2	3	3	3	3	1	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:37907455T>C	uc003tfn.2	+	11	1145	c.773T>C	c.(772-774)GTC>GCC	p.V258A		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	258					cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						CAACCTGAGGTCGAAGCCCAG	0.443									Kartagener_syndrome				3	42					0	0	1	0	0		C	37907455	C	C	37907455	3	2	27	1	0	0	0	0	1	0	0	0	16824	1667	58	3	807	3	TXNDC3	7	37907455	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	127187	37907455	121231208	3512	25863											
EPDR1	54749	broad.mit.edu	37	chr7	37960798	37960798	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgagaggaaggcgctgaTcccctgcaagaggtacaggt	11	5	16	9	2	0	3	0	1	0	2	1	6	1	5	2	5	2	3	2	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:37960798T>A	uc003tfp.2	+	1	636	c.617T>A	c.(616-618)ATC>AAC	p.I206N	EPDR1_uc003tfq.2_Missense_Mutation_p.I206N|EPDR1_uc010kxh.2_5'Flank	NM_017549	NP_060019	Q9UM22	EPDR1_HUMAN	ependymin related protein 1 precursor	86					cell-matrix adhesion	extracellular region	calcium ion binding			upper_aerodigestive_tract(1)	1						AAGGCGCTGATCCCCTGCAAG	0.682													3	32					0	0	1	0	0		A	37960798	A	A	37960798	3	1	27	1	0	0	0	0	1	0	0	0	5171	1435	50	5	619	5	EPDR1	7	37960798	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53343	37960798	121177865	3513	25864											
STARD3NL	83930	broad.mit.edu	37	chr7	38247245	38247245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgaaggaagggaaaagaaagGcatatctgatgtcaggagga	17	6	15	3	0	2	3	1	2	1	1	2	7	2	7	0	5	0	1	0	5	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:38247245G>A	uc003tfr.2	+	2	288	c.140G>A	c.(139-141)GGC>GAC	p.G47D	STARD3NL_uc003tfs.2_Missense_Mutation_p.G47D|STARD3NL_uc003tft.2_Missense_Mutation_p.G47D	NM_032016	NP_114405	O95772	MENTO_HUMAN	MLN64 N-terminal homolog	47	Cytoplasmic (Potential).					integral to membrane|late endosome membrane				ovary(1)	1						GAAAAGAAAGGCATATCTGAT	0.443													10	103					0	0	1	0	0		A	38247245	A	A	38247245	3	1	27	1	0	0	0	0	1	0	0	0	15283	1203	42	2	142	2	STARD3NL	7	38247245	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	286447	38247245	120891418	3514	25865											
AMPH	273	broad.mit.edu	37	chr7	38502674	38502674	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggtgaaggctcctcaggCggtgatggtgtctttgcaat	7	11	16	7	1	2	2	1	2	1	0	3	2	3	2	1	6	1	2	1	6	2	1	rs148695925		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:38502674C>T	uc003tgu.2	-	10	858	c.789G>A	c.(787-789)CCG>CCA	p.P263P	AMPH_uc003tgv.2_Silent_p.P263P|AMPH_uc003tgt.2_Silent_p.P16P	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	263					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						GCTCCTCAGGCGGTGATGGTG	0.567													9	108					0	0	1	0	0		T	38502674	T	T	38502674	2	4	27	1	0	0	0	0	0	0	0	1	588	755	27	1		1	AMPH	7	38502674	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	255429	38502674	120635989	3515	25866											
CDK13	8621	broad.mit.edu	37	chr7	40134332	40134332	+	Missense_Mutation	SNP	A	T	T																															ccatagatttgaatatagccAtggtcctattgcagtcctgg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:40134332A>T	uc003thh.3	+	14	4574	c.4292A>T	c.(4291-4293)CAT>CTT	p.H1431L	CDK13_uc003thi.3_Missense_Mutation_p.H1371L|CDK13_uc003thj.2_Missense_Mutation_p.H482L|CDK13_uc003thk.2_Missense_Mutation_p.H364L	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	1431					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						GAATATAGCCATGGTCCTATT	0.468													5	77					0	0	1	0	0		T	40134332	T	T	40134332	3	4	27	1	0	0	0	0	1	0	0	0	3132	217	8	5	4346	5	CDK13	7	40134332	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1631658	40134332	119004331	3516	25867	49	2									
CDK13	8621	broad.mit.edu	37	chr7	40134336	40134336	+	Silent	SNP	T	C	C																															agatttgaatatagccatggTcctattgcagtcctggcaaa																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:40134336T>C	uc003thh.3	+	14	4578	c.4296T>C	c.(4294-4296)GGT>GGC	p.G1432G	CDK13_uc003thi.3_Silent_p.G1372G|CDK13_uc003thj.2_Silent_p.G483G|CDK13_uc003thk.2_Silent_p.G365G	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	1432					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						ATAGCCATGGTCCTATTGCAG	0.463													8	71					0	0	1	0	0		C	40134336	C	C	40134336	2	2	27	1	0	0	0	0	0	0	0	1	3132	1654	58	3		3	CDK13	7	40134336	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4	40134336	119004327	3517	25868	49	2									
CDK13	8621	broad.mit.edu	37	chr7	40134465	40134465	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatccgagtggccccagcctCatgcatggacagacctggac	10	6	11	14	1	1	1	1	0	0	1	2	4	2	3	5	3	2	1	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:40134465C>T	uc003thh.3	+	14	4707	c.4425C>T	c.(4423-4425)CTC>CTT	p.L1475L	CDK13_uc003thi.3_Silent_p.L1415L|CDK13_uc003thj.2_Silent_p.L526L|CDK13_uc003thk.2_Silent_p.L408L	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	1475					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						GCCCCAGCCTCATGCATGGAC	0.517													11	76					0	0	1	0	0		T	40134465	T	T	40134465	2	4	27	1	0	0	0	0	0	0	0	1	3132	813	29	4		4	CDK13	7	40134465	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	129	40134465	119004198	3518	25869											
C7orf10	79783	broad.mit.edu	37	chr7	40314127	40314127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcagaatggagatccagttCgcccaggagtagctatgact	12	9	11	9	1	1	3	1	1	0	2	3	5	2	4	2	2	1	3	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:40314127C>T	uc003thn.1	+	8	637	c.592C>T	c.(592-594)CGC>TGC	p.R198C	C7orf10_uc003thm.1_Missense_Mutation_p.R168C|C7orf10_uc003tho.1_Intron	NM_024728	NP_079004	Q9HAC7	CG010_HUMAN	dermal papilla derived protein 13	205							transferase activity			ovary(2)	2						AGATCCAGTTCGCCCAGGAGT	0.363													9	61					0	0	1	0	0		T	40314127	T	T	40314127	3	4	27	1	0	0	0	0	1	0	0	0	2379	884	31	1	532	1	C7orf10	7	40314127	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	179662	40314127	118824536	3519	25870											
STK17A	9263	broad.mit.edu	37	chr7	43647896	43647896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaccagtgtgttgcagacaGagaagaagcctttaaagaaa	16	8	11	6	0	0	5	0	1	0	4	0	6	0	5	2	0	2	2	2	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:43647896G>A	uc003tih.2	+	3	612	c.461G>A	c.(460-462)AGA>AAA	p.R154K		NM_004760	NP_004751	Q9UEE5	ST17A_HUMAN	serine/threonine kinase 17a	154	Protein kinase.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			skin(2)	2						GTTGCAGACAGAGAAGAAGCC	0.373													7	49					0	0	1	0	0		A	43647896	A	A	43647896	3	1	27	1	0	0	0	0	1	0	0	0	15315	942	33	4	471	4	STK17A	7	43647896	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3333769	43647896	115490767	3520	25871											
BLVRA	644	broad.mit.edu	37	chr7	43830895	43830895	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagatttctttggaggAtgctctttccagccaagagg	9	11	11	10	0	2	2	0	0	2	2	3	4	3	4	3	3	3	2	3	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:43830895A>G	uc003tir.2	+	4	265	c.182A>G	c.(181-183)GAT>GGT	p.D61G	BLVRA_uc010kxv.2_Missense_Mutation_p.D61G	NM_000712	NP_000703	P53004	BIEA_HUMAN	biliverdin reductase A precursor	61					heme catabolic process	cytosol	biliverdin reductase activity|zinc ion binding			ovary(1)	1					NADH(DB00157)	TCTTTGGAGGATGCTCTTTCC	0.458													25	100					0	0	1	0	0		G	43830895	G	G	43830895	3	3	27	1	0	0	0	0	1	0	0	0	1452	333	12	3	192	3	BLVRA	7	43830895	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	182999	43830895	115307768	3521	25872											
BLVRA	644	broad.mit.edu	37	chr7	43846580	43846580	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttgtctttgcagtccaCtgtcatggattgaagaaaaa	11	15	8	7	0	3	2	1	1	2	1	4	3	4	3	1	1	1	1	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:43846580C>T	uc003tir.2	+	8	720	c.637C>T	c.(637-639)CTG>TTG	p.L213L	BLVRA_uc010kxv.2_Silent_p.L213L	NM_000712	NP_000703	P53004	BIEA_HUMAN	biliverdin reductase A precursor	213					heme catabolic process	cytosol	biliverdin reductase activity|zinc ion binding			ovary(1)	1					NADH(DB00157)	TTGCAGTCCACTGTCATGGAT	0.433													4	60					0	0	1	0	0		T	43846580	T	T	43846580	2	4	27	1	0	0	0	0	0	0	0	1	1452	564	20	4		4	BLVRA	7	43846580	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15685	43846580	115292083	3522	25873											
URGCP	55665	broad.mit.edu	37	chr7	43917311	43917311	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaagcgtctccggaggcTgtctcagtcgcggctgggcc	5	8	16	12	4	2	1	1	1	2	1	5	3	2	2	2	4	1	2	2	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:43917311T>C	uc003tiw.2	-	6	1808	c.1751A>G	c.(1750-1752)CAG>CGG	p.Q584R	URGCP_uc003tiu.2_Missense_Mutation_p.Q541R|URGCP_uc003tiv.2_Missense_Mutation_p.Q509R|URGCP_uc003tix.2_Missense_Mutation_p.Q575R|URGCP_uc003tiy.2_Missense_Mutation_p.Q541R|URGCP_uc003tiz.2_Missense_Mutation_p.Q541R|URGCP_uc011kbj.1_Missense_Mutation_p.Q541R	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	584					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						CTCCGGAGGCTGTCTCAGTCG	0.637													5	49					0	0	1	0	0		C	43917311	C	C	43917311	3	2	27	1	0	0	0	0	1	0	0	0	17052	1580	55	3	1048	3	URGCP	7	43917311	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	70731	43917311	115221352	3523	25874											
POLM	27434	broad.mit.edu	37	chr7	44116212	44116212	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcttcacaccgaccccgAagatctgggtgaagagctgt	10	8	11	12	2	3	3	1	1	2	2	3	5	3	3	3	1	1	1	3	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:44116212A>G	uc003tjt.2	-	6	823	c.731T>C	c.(730-732)TTC>TCC	p.F244S	POLM_uc003tjw.1_5'UTR|POLM_uc003tju.2_Missense_Mutation_p.F244S|POLM_uc003tjx.2_Intron|POLM_uc003tjv.2_RNA|POLM_uc011kbt.1_Intron|POLM_uc003tka.1_RNA|POLM_uc003tjz.3_Missense_Mutation_p.S239P	NM_013284	NP_037416	Q9NP87	DPOLM_HUMAN	DNA-directed DNA polymerase mu	244					DNA recombination|DNA repair	nucleus	DNA binding|DNA nucleotidylexotransferase activity|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3						ACCGACCCCGAAGATCTGGGT	0.602								DNA_polymerases_(catalytic_subunits)					7	73					0	0	1	0	0		G	44116212	G	G	44116212	3	3	27	1	0	0	0	0	1	0	0	0	12225	246	9	3	777	3	POLM	7	44116212	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	198901	44116212	115022451	3524	25875											
MYL7	58498	broad.mit.edu	37	chr7	44178596	44178596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgttccccgccaggtccatgGgtgtcagggcgaacatctgc	6	9	13	13	2	2	0	1	0	1	0	4	1	4	0	4	3	2	1	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:44178596G>A	uc003tkg.2	-	7	464	c.452C>T	c.(451-453)CCC>CTC	p.P151L		NM_021223	NP_067046	Q01449	MLRA_HUMAN	myosin light chain 2a	151	EF-hand 3.				actin filament-based movement|smooth muscle contraction	A band|myosin complex	ATPase activity, coupled|calcium ion binding|microfilament motor activity				0						CAGGTCCATGGGTGTCAGGGC	0.632													5	55					0	0	1	0	0		A	44178596	A	A	44178596	3	1	27	1	0	0	0	0	1	0	0	0	10071	1232	43	4	79	4	MYL7	7	44178596	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	62384	44178596	114960067	3525	25876											
YKT6	10652	broad.mit.edu	37	chr7	44246004	44246004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actatctgtgccacgtctacGtccggaatgatagtcttgca	9	12	9	11	3	3	1	0	1	3	0	4	2	4	2	2	1	3	1	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:44246004G>A	uc003tkm.2	+	3	365	c.208G>A	c.(208-210)GTC>ATC	p.V70I	YKT6_uc011kbv.1_Missense_Mutation_p.V70I	NM_006555	NP_006546	O15498	YKT6_HUMAN	YKT6 v-SNARE protein	70	Longin.				ER to Golgi vesicle-mediated transport|protein transport|retrograde transport, endosome to Golgi|vesicle docking involved in exocytosis|vesicle targeting	cytoplasmic vesicle membrane|cytosol|endoplasmic reticulum|endosome|Golgi membrane|integral to plasma membrane|mitochondrion|SNARE complex	protein-cysteine S-palmitoleyltransferase activity|SNAP receptor activity				0						CCACGTCTACGTCCGGAATGA	0.473													5	72					0	0	1	0	0		A	44246004	A	A	44246004	3	1	27	1	0	0	0	0	1	0	0	0	17511	1145	40	1	218	1	YKT6	7	44246004	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	67408	44246004	114892659	3526	25877											
H2AFV	94239	broad.mit.edu	37	chr7	44882918	44882918	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagatactgccttagccttGgccttcccactgtcctttcc	5	13	7	16	1	0	1	0	0	0	1	3	2	3	1	6	1	3	0	6	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:44882918G>A	uc003tma.2	-	2	194	c.39C>T	c.(37-39)GCC>GCT	p.A13A	H2AFV_uc003tlz.2_Silent_p.A13A|H2AFV_uc003tmb.2_Silent_p.A13A|H2AFV_uc003tmc.2_Silent_p.A13A|H2AFV_uc003tmd.2_Intron	NM_012412	NP_036544	Q71UI9	H2AV_HUMAN	H2A histone family, member V isoform 1	13					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CCTTAGCCTTGGCCTTCCCAC	0.373													6	56					0	0	1	0	0		A	44882918	A	A	44882918	2	1	27	1	0	0	0	0	0	0	0	1	6943	1335	47	4		4	H2AFV	7	44882918	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	636914	44882918	114255745	3527	25878											
TBRG4	9238	broad.mit.edu	37	chr7	45142067	45142067	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggctccaggcctggcagCtctgaccccagcttctcatg	5	9	11	16	0	2	1	1	1	2	0	4	1	3	1	4	3	2	5	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:45142067C>A	uc003tmv.2	-	7	1326	c.1200G>T	c.(1198-1200)GAG>GAT	p.E400D	TBRG4_uc003tmu.2_Missense_Mutation_p.E225D|TBRG4_uc003tmw.2_Missense_Mutation_p.E290D|TBRG4_uc003tmx.2_Missense_Mutation_p.E290D|TBRG4_uc011kcd.1_Missense_Mutation_p.E411D	NM_004749	NP_004740	Q969Z0	TBRG4_HUMAN	cell cycle progression 2 protein isoform 1	400					apoptosis|cell cycle arrest|cellular respiration|G1 phase of mitotic cell cycle|positive regulation of cell proliferation	mitochondrion	ATP binding|protein binding|protein kinase activity				0						GGCCTGGCAGCTCTGACCCCA	0.617													5	36					0.014758	0.0150623	1	1	0		A	45142067	A	A	45142067	3	1	27	1	0	0	0	0	1	0	0	0	15674	796	28	5	715	5	TBRG4	7	45142067	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	259149	45142067	113996596	3528	25879											
RAMP3	10268	broad.mit.edu	37	chr7	45216982	45216982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgtgtgggaaggctttcGcagacatgatgggcaaggtg	8	9	16	8	1	0	2	0	1	0	1	1	3	0	3	1	4	0	3	1	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:45216982G>A	uc003tnb.2	+	2	194	c.133G>A	c.(133-135)GCA>ACA	p.A45T	RAMP3_uc003tnc.2_Missense_Mutation_p.A13T	NM_005856	NP_005847	O60896	RAMP3_HUMAN	receptor activity modifying protein 3 precursor	45	Extracellular (Potential).				intracellular protein transport|receptor-mediated endocytosis|regulation of G-protein coupled receptor protein signaling pathway	integral to plasma membrane|lysosome	protein transporter activity				0					Pramlintide(DB01278)	GAAGGCTTTCGCAGACATGAT	0.592													7	45					0	0	1	0	0		A	45216982	A	A	45216982	3	1	27	1	0	0	0	0	1	0	0	0	13048	1087	38	1	139	1	RAMP3	7	45216982	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	74915	45216982	113921681	3529	25880											
ADCY1	107	broad.mit.edu	37	chr7	45717627	45717627	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcagacctgaacttctttAccctgaagtacaaacatgtc	12	11	7	11	0	1	3	0	2	1	1	2	3	1	3	2	1	4	2	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:45717627A>G	uc003tne.3	+	9	1783	c.1765A>G	c.(1765-1767)ACC>GCC	p.T589A		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	589	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GAACTTCTTTACCCTGAAGTA	0.567													24	67					0	0	1	0	0		G	45717627	G	G	45717627	3	3	27	1	0	0	0	0	1	0	0	0	292	391	14	3	1799	3	ADCY1	7	45717627	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	500645	45717627	113421036	3530	25881											
ADCY1	107	broad.mit.edu	37	chr7	45743052	45743052	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaacctcctgccggcccaCgtcgcccagcacttcctcat	6	9	6	20	3	2	0	2	0	0	0	5	0	4	0	6	1	3	1	6	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:45743052C>T	uc003tne.3	+	15	2550	c.2532C>T	c.(2530-2532)CAC>CAT	p.H844H		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	844	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TGCCGGCCCACGTCGCCCAGC	0.612													5	30					0	0	1	0	0		T	45743052	T	T	45743052	2	4	27	1	0	0	0	0	0	0	0	1	292	535	19	1		1	ADCY1	7	45743052	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25425	45743052	113395611	3531	25882											
ADCY1	107	broad.mit.edu	37	chr7	45750165	45750165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtggctggagtgattggcGctcgcaggccccagtacgac	6	8	16	11	3	0	1	0	1	0	0	1	3	0	2	2	5	1	4	2	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:45750165G>A	uc003tne.3	+	19	2989	c.2971G>A	c.(2971-2973)GCT>ACT	p.A991T		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	991	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	AGTGATTGGCGCTCGCAGGCC	0.577													9	65					0	0	1	0	0		A	45750165	A	A	45750165	3	1	27	1	0	0	0	0	1	0	0	0	292	1087	38	1	3045	1	ADCY1	7	45750165	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7113	45750165	113388498	3532	25883											
ADCY1	107	broad.mit.edu	37	chr7	45750202	45750202	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacatctggggaaacacagTcaacgtggccagtcggatgg	11	6	14	10	3	2	0	1	0	1	0	3	3	2	2	1	5	2	0	1	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:45750202T>C	uc003tne.3	+	19	3026	c.3008T>C	c.(3007-3009)GTC>GCC	p.V1003A		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	1003	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GGAAACACAGTCAACGTGGCC	0.527													11	54					0	0	1	0	0		C	45750202	C	C	45750202	3	2	27	1	0	0	0	0	1	0	0	0	292	1667	58	3	3082	3	ADCY1	7	45750202	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37	45750202	113388461	3533	25884											
IGFBP3	3486	broad.mit.edu	37	chr7	45957003	45957003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgggctctccacactgcCggcgctgcggtcttcctccg	3	8	13	17	5	2	0	0	0	2	0	5	1	4	1	4	4	2	2	4	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:45957003C>T	uc003tns.2	-	2	571	c.439G>A	c.(439-441)GGC>AGC	p.G147S	IGFBP3_uc003tnq.2_RNA|IGFBP3_uc003tnr.2_Missense_Mutation_p.G153S|IGFBP3_uc003tnt.2_Missense_Mutation_p.G50S	NM_000598	NP_000589	P17936	IBP3_HUMAN	insulin-like growth factor binding protein 3	147	Ser/Thr-rich.				negative regulation of protein phosphorylation|negative regulation of signal transduction|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|positive regulation of apoptosis|positive regulation of myoblast differentiation|protein phosphorylation|regulation of cell growth	nucleus	insulin-like growth factor I binding|metal ion binding|protein tyrosine phosphatase activator activity			large_intestine(2)|lung(1)	3					Mecasermin(DB01277)	TCCACACTGCCGGCGCTGCGG	0.498											OREG0018049	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	46					0	0	1	0	0		T	45957003	T	T	45957003	3	4	27	1	0	0	0	0	1	0	0	0	7596	652	23	1	448	1	IGFBP3	7	45957003	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	206801	45957003	113181660	3534	25885											
TNS3	64759	broad.mit.edu	37	chr7	47408173	47408173	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcgatgtccagggtgggCgagcctggggaggggcctgt	4	8	21	8	2	0	0	0	0	0	0	2	3	1	1	3	7	1	0	3	7	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:47408173C>T	uc003tnv.2	-	17	2437	c.2070G>A	c.(2068-2070)TCG>TCA	p.S690S	TNS3_uc003tnw.2_Silent_p.S690S	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	690						focal adhesion	protein binding			ovary(4)	4						CCAGGGTGGGCGAGCCTGGGG	0.627													18	237					0	0	1	0	0		T	47408173	T	T	47408173	2	4	27	1	0	0	0	0	0	0	0	1	16369	755	27	1		1	TNS3	7	47408173	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1451170	47408173	111730490	3535	25886											
TNS3	64759	broad.mit.edu	37	chr7	47408194	47408194	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcctggggaggggcctgtGctcagctctgggccggctcc	3	7	18	13	1	2	0	1	0	1	0	3	2	3	1	4	6	3	3	4	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:47408194G>A	uc003tnv.2	-	17	2416	c.2049C>T	c.(2047-2049)AGC>AGT	p.S683S	TNS3_uc003tnw.2_Silent_p.S683S	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	683						focal adhesion	protein binding			ovary(4)	4						AGGGGCCTGTGCTCAGCTCTG	0.632													27	232					0	0	1	0	0		A	47408194	A	A	47408194	2	1	27	1	0	0	0	0	0	0	0	1	16369	1310	46	2		2	TNS3	7	47408194	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21	47408194	111730469	3536	25887											
TNS3	64759	broad.mit.edu	37	chr7	47453571	47453571	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacaggctgcatggcttggTagagcttcagaaagggccgg	10	7	15	9	1	1	2	1	0	0	2	1	2	1	2	1	5	2	5	1	5	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:47453571T>C	uc003tnv.2	-	12	978	c.611A>G	c.(610-612)TAC>TGC	p.Y204C	TNS3_uc003tnw.2_Missense_Mutation_p.Y204C|TNS3_uc010kyo.1_Missense_Mutation_p.Y204C	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	204	C2 tensin-type.					focal adhesion	protein binding			ovary(4)	4						CATGGCTTGGTAGAGCTTCAG	0.468													10	92					0	0	1	0	0		C	47453571	C	C	47453571	3	2	27	1	0	0	0	0	1	0	0	0	16369	1638	57	3	3806	3	TNS3	7	47453571	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	45377	47453571	111685092	3537	25888											
PKD1L1	168507	broad.mit.edu	37	chr7	47869198	47869198	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacccaaggccatgaggcatAcctggaaggaaaaacatgac	17	4	10	10	0	0	2	0	2	0	0	0	4	0	4	3	4	3	1	3	4	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:47869198A>G	uc003tny.1	-	44	6560	c.6560T>C	c.(6559-6561)GTA>GCA	p.V2187A	C7orf69_uc003toa.1_Intron|PKD1L1_uc003tob.2_5'Flank	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2187	Helical; (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CATGAGGCATACCTGGAAGGA	0.488													15	164					0	0	1	0	0		G	47869198	G	G	47869198	3	3	27	1	0	0	0	0	1	0	0	0	11983	405	14	3	2045	3	PKD1L1	7	47869198	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	415627	47869198	111269465	3538	25889											
PKD1L1	168507	broad.mit.edu	37	chr7	47894797	47894797	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccatcacgggtttccttaGccattgcctgttgatgggtc	6	13	11	11	1	1	1	1	1	0	0	3	2	2	1	4	2	2	2	4	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:47894797G>A	uc003tny.1	-	29	4657	c.4657C>T	c.(4657-4659)CTA>TTA	p.L1553L		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	1553	Extracellular (Potential).|REJ.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GGTTTCCTTAGCCATTGCCTG	0.502													9	85					0	0	1	0	0		A	47894797	A	A	47894797	2	1	27	1	0	0	0	0	0	0	0	1	11983	962	34	2		2	PKD1L1	7	47894797	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	25599	47894797	111243866	3539	25890											
PKD1L1	168507	broad.mit.edu	37	chr7	47897384	47897384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgtaatgaagaagggtcCggaactccatctgcccagtg	10	9	13	9	1	1	2	0	1	1	1	3	3	3	3	3	3	2	2	3	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:47897384C>T	uc003tny.1	-	28	4409	c.4409G>A	c.(4408-4410)CGG>CAG	p.R1470Q		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	1470	Extracellular (Potential).|REJ.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AAGAAGGGTCCGGAACTCCAT	0.507													12	71					0	0	1	0	0		T	47897384	T	T	47897384	3	4	27	1	0	0	0	0	1	0	0	0	11983	652	23	1	4260	1	PKD1L1	7	47897384	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2587	47897384	111241279	3540	25891											
ABCA13	154664	broad.mit.edu	37	chr7	48269449	48269449	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatccctagaagatttagaTtggcttccactcaaccaaac	14	11	5	11	0	1	3	1	0	0	3	3	3	3	3	3	1	2	1	3	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:48269449T>C	uc003toq.2	+	7	685	c.660T>C	c.(658-660)GAT>GAC	p.D220D	ABCA13_uc003top.2_3'UTR|ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	220					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AAGATTTAGATTGGCTTCCAC	0.378													7	230					0	0	1	0	0		C	48269449	C	C	48269449	2	2	27	1	0	0	0	0	0	0	0	1	31	1490	52	3		3	ABCA13	7	48269449	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	372065	48269449	110869214	3541	25892											
ABCA13	154664	broad.mit.edu	37	chr7	48314550	48314550	+	Frame_Shift_Del	DEL	A	-	-																															tcctgcagggagtacctggtAaaaacatcactgaaggcctc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:48314550delA	uc003toq.2	+	17	5312	c.5287delA	c.(5287-5289)AAAfs	p.K1763fs	ABCA13_uc010kyr.2_Frame_Shift_Del_p.K1266fs	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1763					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AGTACCTGGTAAAAACATCAC	0.448													22	51	---	---	---	---						.	-	48314550	-	-	48314550	7	5	27	1	0	1	0	1	0	0	0	0	31	363	13	0	5182	0	ABCA13	7	48314550	Frame_Shift_Del	DEL	A	TCGA-BR-6452-01A-12D-1800-08	45101	48314550	110824113	3542	25893											
ABCA13	154664	broad.mit.edu	37	chr7	48314843	48314843	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtggccagtatacttgaTcatttccacctgtctcccca	10	12	6	13	0	2	1	1	1	1	0	4	1	3	1	5	1	1	1	5	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:48314843T>C	uc003toq.2	+	17	5605	c.5580T>C	c.(5578-5580)GAT>GAC	p.D1860D	ABCA13_uc010kyr.2_Silent_p.D1363D	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1860					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GTATACTTGATCATTTCCACC	0.418													3	69					0	0	1	0	0		C	48314843	C	C	48314843	2	2	27	1	0	0	0	0	0	0	0	1	31	1432	50	3		3	ABCA13	7	48314843	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	293	48314843	110823820	3543	25894											
ABCA13	154664	broad.mit.edu	37	chr7	48315257	48315257	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatctgttcaaaatattatTtcctcaaatttggaaaggac	15	14	5	7	0	3	0	2	0	1	0	4	2	4	2	1	2	0	1	1	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:48315257T>C	uc003toq.2	+	17	6019	c.5994T>C	c.(5992-5994)ATT>ATC	p.I1998I	ABCA13_uc010kyr.2_Silent_p.I1501I	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1998					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AAAATATTATTTCCTCAAATT	0.323													4	15					0	0	1	0	0		C	48315257	C	C	48315257	2	2	27	1	0	0	0	0	0	0	0	1	31	1829	64	3		3	ABCA13	7	48315257	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	414	48315257	110823406	3544	25895											
ABCA13	154664	broad.mit.edu	37	chr7	48315591	48315591	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcctggaaatcctggatTcaccgtcattgaagacatta	12	13	7	9	1	2	2	2	1	0	1	4	4	4	4	3	2	0	0	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:48315591T>C	uc003toq.2	+	17	6353	c.6328T>C	c.(6328-6330)TCA>CCA	p.S2110P	ABCA13_uc010kyr.2_Missense_Mutation_p.S1613P	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2110					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AATCCTGGATTCACCGTCATT	0.348													4	40					0	0	1	0	0		C	48315591	C	C	48315591	3	2	27	1	0	0	0	0	1	0	0	0	31	1783	62	3	6223	3	ABCA13	7	48315591	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	334	48315591	110823072	3545	25896											
ABCA13	154664	broad.mit.edu	37	chr7	48318231	48318231	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attactaagagattagttggTgctatttcaagagcaagtga	14	13	10	4	0	1	3	1	1	0	2	1	4	1	3	0	1	3	3	0	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:48318231T>C	uc003toq.2	+	18	7465	c.7440T>C	c.(7438-7440)GGT>GGC	p.G2480G	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2480					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GATTAGTTGGTGCTATTTCAA	0.378													20	226					0	0	1	0	0		C	48318231	C	C	48318231	2	2	27	1	0	0	0	0	0	0	0	1	31	1683	59	3		3	ABCA13	7	48318231	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2640	48318231	110820432	3546	25897											
ABCA13	154664	broad.mit.edu	37	chr7	48318639	48318639	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaaactctgatattttcagTatgtcacctagcatactctc	11	15	4	11	0	5	1	3	1	2	0	6	1	5	1	1	0	3	2	1	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:48318639T>C	uc003toq.2	+	18	7873	c.7848T>C	c.(7846-7848)AGT>AGC	p.S2616S	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2616					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ATATTTTCAGTATGTCACCTA	0.323													6	55					0	0	1	0	0		C	48318639	C	C	48318639	2	2	27	1	0	0	0	0	0	0	0	1	31	1635	57	3		3	ABCA13	7	48318639	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	408	48318639	110820024	3547	25898											
ABCA13	154664	broad.mit.edu	37	chr7	48337993	48337993	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagatttgatgaagaataTcaccaagttgactgaggagc	17	9	10	5	0	1	6	1	4	0	2	1	7	1	7	1	1	1	1	1	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:48337993T>C	uc003toq.2	+	23	9255	c.9230T>C	c.(9229-9231)ATC>ACC	p.I3077T	ABCA13_uc010kys.1_Missense_Mutation_p.I151T	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3077					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ATGAAGAATATCACCAAGTTG	0.353													9	41					0	0	1	0	0		C	48337993	C	C	48337993	3	2	27	1	0	0	0	0	1	0	0	0	31	1435	50	3	9149	3	ABCA13	7	48337993	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	19354	48337993	110800670	3548	25899											
VWC2	375567	broad.mit.edu	37	chr7	49951753	49951753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcgagcggcaggccatgtGcacgagacatgaatgcaggc	12	5	14	10	3	0	2	0	1	0	1	1	4	0	2	1	3	3	3	1	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:49951753G>A	uc003tot.1	+	4	1506	c.950G>A	c.(949-951)TGC>TAC	p.C317Y		NM_198570	NP_940972	Q2TAL6	VWC2_HUMAN	von Willebrand factor C domain containing 2	317					negative regulation of BMP signaling pathway|positive regulation of neuron differentiation	basement membrane|extracellular space					0						CAGGCCATGTGCACGAGACAT	0.483													9	64					0	0	1	0	0		A	49951753	A	A	49951753	3	1	27	1	0	0	0	0	1	0	0	0	17269	1319	46	2	960	2	VWC2	7	49951753	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1613760	49951753	109186910	3549	25900											
FIGNL1	63979	broad.mit.edu	37	chr7	50513108	50513108	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgttatggtagcaatgtcAgcagtttgtaaactgcgaat	11	13	12	5	1	1	0	1	0	0	0	1	1	1	0	0	2	4	6	0	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:50513108A>G	uc003tpc.2	-	4	2255	c.1878T>C	c.(1876-1878)GCT>GCC	p.A626A	FIGNL1_uc003tpb.2_Silent_p.A515A|FIGNL1_uc003tpd.2_Silent_p.A626A|FIGNL1_uc003tpe.2_Silent_p.A626A|FIGNL1_uc010kyy.2_Silent_p.A626A	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	626					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)				TAGCAATGTCAGCAGTTTGTA	0.428													4	68					0	0	1	0	0		G	50513108	G	G	50513108	2	3	27	1	0	0	0	0	0	0	0	1	5906	175	7	3		3	FIGNL1	7	50513108	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	561355	50513108	108625555	3550	25901											
FIGNL1	63979	broad.mit.edu	37	chr7	50513894	50513894	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtgctggttctgtaggTcctgccccataaggcttaca	7	12	12	10	0	1	0	0	0	1	0	2	1	2	1	3	4	3	4	3	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:50513894T>A	uc003tpc.2	-	4	1469	c.1092A>T	c.(1090-1092)GGA>GGT	p.G364G	FIGNL1_uc003tpb.2_Silent_p.G253G|FIGNL1_uc003tpd.2_Silent_p.G364G|FIGNL1_uc003tpe.2_Silent_p.G364G|FIGNL1_uc010kyy.2_Silent_p.G364G	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	364					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)				GTTCTGTAGGTCCTGCCCCAT	0.463													15	141					0	0	1	0	0		A	50513894	A	A	50513894	2	1	27	1	0	0	0	0	0	0	0	1	5906	1654	58	5		5	FIGNL1	7	50513894	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	786	50513894	108624769	3551	25902											
DDC	1644	broad.mit.edu	37	chr7	50535009	50535009	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaactcatgggacagctggAcatgcttcaaagaggaaagg	15	6	12	8	0	2	1	2	0	0	1	2	4	2	4	0	4	3	2	0	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:50535009A>G	uc003tpf.3	-	13	1231	c.1145T>C	c.(1144-1146)GTC>GCC	p.V382A	DDC_uc010kza.2_Missense_Mutation_p.V297A|DDC_uc003tpg.3_Missense_Mutation_p.V382A	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	382					cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	GGACAGCTGGACATGCTTCAA	0.438													10	94					0	0	1	0	0		G	50535009	G	G	50535009	3	3	27	1	0	0	0	0	1	0	0	0	4328	275	10	3	305	3	DDC	7	50535009	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21115	50535009	108603654	3552	25903											
COBL	23242	broad.mit.edu	37	chr7	51095676	51095676	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctggggcgcgcacagaGccattgaccagctccctgct	6	7	13	15	2	0	2	0	1	0	1	1	2	1	2	4	3	3	3	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:51095676G>A	uc003tpr.3	-	10	3302	c.3117C>T	c.(3115-3117)GGC>GGT	p.G1039G	COBL_uc003tps.2_Silent_p.G1096G|COBL_uc011kcl.1_Silent_p.G1039G|COBL_uc003tpp.3_Silent_p.G825G|COBL_uc003tpq.3_Silent_p.G980G|COBL_uc003tpo.3_Silent_p.G581G	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	1039										skin(3)|ovary(2)	5	Glioma(55;0.08)					CGCGCACAGAGCCATTGACCA	0.617													4	73					0	0	1	0	0		A	51095676	A	A	51095676	2	1	27	1	0	0	0	0	0	0	0	1	3656	958	34	2		2	COBL	7	51095676	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	560667	51095676	108042987	3553	25904											
COBL	23242	broad.mit.edu	37	chr7	51096298	51096298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtggggggctggtttctcCcctcccctagggggttccgg	1	11	17	12	1	1	0	0	0	1	0	4	0	3	0	5	8	0	3	5	8	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:51096298C>T	uc003tpr.3	-	10	2680	c.2495G>A	c.(2494-2496)GGG>GAG	p.G832E	COBL_uc003tps.2_Missense_Mutation_p.G889E|COBL_uc011kcl.1_Missense_Mutation_p.G832E|COBL_uc003tpp.3_Missense_Mutation_p.G618E|COBL_uc003tpq.3_Missense_Mutation_p.G773E|COBL_uc003tpo.3_Missense_Mutation_p.G374E	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	832										skin(3)|ovary(2)	5	Glioma(55;0.08)					CTGGTTTCTCCCCTCCCCTAG	0.602													4	85					0	0	1	0	0		T	51096298	T	T	51096298	3	4	27	1	0	0	0	0	1	0	0	0	3656	623	22	4	1306	4	COBL	7	51096298	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	622	51096298	108042365	3554	25905											
COBL	23242	broad.mit.edu	37	chr7	51096557	51096557	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggaaatgatcctgatgcCggtggcgtgaggactcacca	10	7	14	10	2	1	3	1	3	0	0	2	5	2	5	3	4	1	0	3	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:51096557C>A	uc003tpr.3	-	10	2421	c.2236G>T	c.(2236-2238)GGC>TGC	p.G746C	COBL_uc003tps.2_Missense_Mutation_p.G803C|COBL_uc011kcl.1_Missense_Mutation_p.G746C|COBL_uc003tpp.3_Missense_Mutation_p.G532C|COBL_uc003tpq.3_Missense_Mutation_p.G687C|COBL_uc003tpo.3_Missense_Mutation_p.G288C	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	746										skin(3)|ovary(2)	5	Glioma(55;0.08)					ATCCTGATGCCGGTGGCGTGA	0.517													7	58					0.000442599	0.000464839	1	1	0		A	51096557	A	A	51096557	3	1	27	1	0	0	0	0	1	0	0	0	3656	652	23	5	1565	5	COBL	7	51096557	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	259	51096557	108042106	3555	25906											
COBL	23242	broad.mit.edu	37	chr7	51096763	51096763	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaggcagcgtttttatcgTtgctgtccttttcattcacc	6	16	7	12	2	2	0	2	0	0	0	4	0	3	0	3	1	2	4	3	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:51096763T>A	uc003tpr.3	-	10	2215	c.2030A>T	c.(2029-2031)AAC>ATC	p.N677I	COBL_uc003tps.2_Missense_Mutation_p.N734I|COBL_uc011kcl.1_Missense_Mutation_p.N677I|COBL_uc003tpp.3_Missense_Mutation_p.N463I|COBL_uc003tpq.3_Missense_Mutation_p.N618I|COBL_uc003tpo.3_Missense_Mutation_p.N219I	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	677										skin(3)|ovary(2)	5	Glioma(55;0.08)					GTTTTTATCGTTGCTGTCCTT	0.483													16	121					0	0	1	0	0		A	51096763	A	A	51096763	3	1	27	1	0	0	0	0	1	0	0	0	3656	1725	60	5	1771	5	COBL	7	51096763	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	206	51096763	108041900	3556	25907											
EGFR	1956	broad.mit.edu	37	chr7	55229200	55229200	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctccgcagaggccacaGgccaggtctgccatgccttg	6	8	12	15	1	2	1	0	0	2	1	3	1	2	1	5	3	2	1	5	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:55229200G>T	uc003tqk.2	+	13	1753	c.1507G>T	c.(1507-1509)GGC>TGC	p.G503C	EGFR_uc003tqi.2_Missense_Mutation_p.G503C|EGFR_uc003tqj.2_Missense_Mutation_p.G503C|EGFR_uc010kzg.1_Missense_Mutation_p.G458C|EGFR_uc011kco.1_Missense_Mutation_p.G450C|EGFR_uc011kcp.1_Intron|EGFR_uc011kcq.1_Intron	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	503	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	AGAGGCCACAGGCCAGGTCTG	0.692		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			6	68					0.0215528	0.0219246	1	1	0		T	55229200	T	T	55229200	3	4	27	1	0	0	0	0	1	0	0	0	4973	1000	35	5	1568	5	EGFR	7	55229200	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4132437	55229200	103909463	3557	25908											
LANCL2	55915	broad.mit.edu	37	chr7	55496101	55496101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctagattacggagcacacGggtgccgcattcctgacaga	10	8	12	11	3	1	3	0	1	1	2	2	4	2	4	2	2	3	2	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:55496101G>A	uc003tqp.2	+	8	1797	c.1219G>A	c.(1219-1221)GGG>AGG	p.G407R		NM_018697	NP_061167	Q9NS86	LANC2_HUMAN	LanC lantibiotic synthetase component C-like 2	407					negative regulation of transcription, DNA-dependent|positive regulation of abscisic acid mediated signaling pathway	cortical actin cytoskeleton|cytosol|nucleus|plasma membrane	ATP binding|catalytic activity|GTP binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding			ovary(1)|skin(1)	2	Breast(14;0.0379)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00128)|Epithelial(13;0.0706)			CGGAGCACACGGGTGCCGCAT	0.418													11	57					0	0	1	0	0		A	55496101	A	A	55496101	3	1	27	1	0	0	0	0	1	0	0	0	8637	1116	39	1	1249	1	LANCL2	7	55496101	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	266901	55496101	103642562	3558	25909											
GBAS	2631	broad.mit.edu	37	chr7	56062618	56062618	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccgcttcagacaggatggtAacgaagccgtcggaggattc	10	8	13	10	4	1	1	1	0	0	1	4	5	2	4	2	4	2	2	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:56062618A>G	uc003tre.1	+	8	657	c.649A>G	c.(649-651)AAC>GAC	p.N217D	GBAS_uc003trf.1_Missense_Mutation_p.N178D	NM_001483	NP_001474	O75323	NIPS2_HUMAN	nipsnap homolog 2	217						integral to plasma membrane|membrane fraction|mitochondrion	protein binding			central_nervous_system(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			ACAGGATGGTAACGAAGCCGT	0.443													5	151					0	0	1	0	0		G	56062618	G	G	56062618	3	3	27	1	0	0	0	0	1	0	0	0	6284	362	13	3	679	3	GBAS	7	56062618	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	566517	56062618	103076045	3559	25910											
SUMF2	25870	broad.mit.edu	37	chr7	56132072	56132072	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggcgcgtggctcaagctagGtcagtgaaccggccgtccat	7	7	14	13	5	2	1	2	1	0	0	3	1	3	1	3	4	2	2	3	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:56132072G>A	uc003trv.2	+	1	155	c.124_splice	c.e1+1	p.G42_splice	PSPH_uc003trj.2_Intron|SUMF2_uc003tro.2_Splice_Site_p.G42_splice|SUMF2_uc011kcv.1_Splice_Site|SUMF2_uc011kcw.1_Splice_Site_p.G42_splice|SUMF2_uc011kcx.1_Splice_Site_p.G42_splice|SUMF2_uc003trt.2_Splice_Site|SUMF2_uc011kcy.1_Splice_Site_p.G42_splice|SUMF2_uc011kcz.1_Splice_Site_p.G42_splice|SUMF2_uc003tru.2_Splice_Site|SUMF2_uc011kda.1_Splice_Site|SUMF2_uc003trx.2_Splice_Site	NM_001130069	NP_001123541	Q8NBJ7	SUMF2_HUMAN	sulfatase modifying factor 2 isoform e							endoplasmic reticulum lumen	metal ion binding			ovary(1)|skin(1)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CTCAAGCTAGGTCAGTGAACC	0.706													5	18					0	0	1	0	0		A	56132072	A	A	56132072	5	1	27	1	0	0	0	0	0	0	1	0	15411	1275	44	4	127	4	SUMF2	7	56132072	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	69454	56132072	103006591	3560	25911											
ZNF735	730291	broad.mit.edu	37	chr7	63674419	63674419	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctctaagccagacttgatCgcctgtctggagcaaaataa	12	10	9	10	1	2	2	0	1	2	1	4	3	2	3	2	1	2	1	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:63674419C>T	uc011kdn.1	+	3	195	c.195C>T	c.(193-195)ATC>ATT	p.I65I		NM_001159524	NP_001152996	P0CB33	ZN735_HUMAN	zinc finger protein 735	65	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CAGACTTGATCGCCTGTCTGG	0.328													5	62					0	0	1	0	0		T	63674419	T	T	63674419	2	4	27	1	0	0	0	0	0	0	0	1	18149	874	31	1		1	ZNF735	7	63674419	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7542347	63674419	95464244	3561	25912											
ZNF680	340252	broad.mit.edu	37	chr7	63982663	63982663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagactttcacgtatttatCacattgaaatattttgctct	13	17	4	7	1	3	2	2	1	1	1	3	2	3	2	0	0	1	2	0	0	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:63982663C>T	uc003tta.2	-	4	642	c.469G>A	c.(469-471)GAT>AAT	p.D157N	ZNF680_uc010kzr.2_Missense_Mutation_p.D84N	NM_178558	NP_848653	Q8NEM1	ZN680_HUMAN	zinc finger protein 680 isoform 1	157					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.118)|all_lung(88;0.243)				ACGTATTTATCACATTGAAAT	0.299													4	35					0	0	1	0	0		T	63982663	T	T	63982663	3	4	27	1	0	0	0	0	1	0	0	0	18112	826	29	4	1127	4	ZNF680	7	63982663	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	308244	63982663	95156000	3562	25913											
ZNF138	7697	broad.mit.edu	37	chr7	64291846	64291846	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctctgtgttctcgttttGcccaagacctttggctagag	6	14	10	11	1	2	2	0	0	2	2	3	2	2	2	2	1	2	4	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:64291846G>A	uc011kdp.1	+	5	539	c.363G>A	c.(361-363)TTG>TTA	p.L121L	ZNF138_uc003ttg.2_Missense_Mutation_p.A19T|ZNF138_uc011kdq.1_Missense_Mutation_p.A50T|ZNF138_uc003tth.2_RNA|ZNF138_uc010kzs.2_Missense_Mutation_p.A44T	NM_001160183	NP_001153655	B4DFX2	B4DFX2_HUMAN	zinc finger protein 138 isoform 2	121					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding				0		Lung NSC(55;0.0795)|all_lung(88;0.18)				TTCTCGTTTTGCCCAAGACCT	0.328													10	80					0	0	1	0	0		A	64291846	A	A	64291846	2	1	27	1	0	0	0	0	0	0	0	1	17752	1319	46	2		2	ZNF138	7	64291846	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	309183	64291846	94846817	3563	25914											
ZNF273	10793	broad.mit.edu	37	chr7	64377979	64377979	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccactgacatttagggaTgtggccatagaattctctct	10	12	10	9	0	2	2	0	1	2	1	3	4	2	4	2	3	0	0	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:64377979T>C	uc003tto.2	+	2	199	c.123T>C	c.(121-123)GAT>GAC	p.D41D	ZNF273_uc003ttl.2_5'UTR|ZNF273_uc003ttm.1_RNA|ZNF273_uc003ttn.2_5'UTR|ZNF273_uc003ttp.1_RNA	NM_021148	NP_066971	Q14593	ZN273_HUMAN	zinc finger protein 273	41					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(55;0.0295)|all_lung(88;0.0691)				CATTTAGGGATGTGGCCATAG	0.413													13	123					0	0	1	0	0		C	64377979	C	C	64377979	2	2	27	1	0	0	0	0	0	0	0	1	17833	1461	51	3		3	ZNF273	7	64377979	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	86133	64377979	94760684	3564	25915											
ZNF117	51351	broad.mit.edu	37	chr7	64438701	64438701	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccacattcttcacatttgtaGagtttctctccagtatgaat	10	16	5	10	0	3	2	1	1	2	1	5	2	4	2	2	0	0	3	2	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:64438701G>A	uc003ttr.2	-	4	2533	c.1248C>T	c.(1246-1248)CTC>CTT	p.L416L		NM_015852	NP_056936	Q03924	ZN117_HUMAN	zinc finger protein 117	416						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Lung NSC(55;0.0295)|all_lung(88;0.0691)				CACATTTGTAGAGTTTCTCTC	0.373													11	82					0	0	1	0	0		A	64438701	A	A	64438701	2	1	27	1	0	0	0	0	0	0	0	1	17742	929	33	4		4	ZNF117	7	64438701	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	60722	64438701	94699962	3565	25916											
CRCP	27297	broad.mit.edu	37	chr7	65599349	65599349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacagcattgaaaagccAcaagttgaccaagtaagtaa	17	8	7	9	0	1	2	1	2	1	0	2	2	1	2	2	0	2	4	2	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:65599349A>G	uc003tus.2	+	4	372	c.227A>G	c.(226-228)CAC>CGC	p.H76R	CRCP_uc003tuv.2_RNA|CRCP_uc011kdw.1_Missense_Mutation_p.H69R|CRCP_uc003tut.2_Missense_Mutation_p.H43R|CRCP_uc003tuu.2_Intron	NM_014478	NP_055293	O75575	RPC9_HUMAN	calcitonin gene-related peptide-receptor	76					acrosome reaction|innate immune response|response to virus|transcription from RNA polymerase III promoter	DNA polymerase III complex|nucleus|plasma membrane	calcitonin receptor activity|DNA-directed RNA polymerase activity|nucleotide binding				0						TTGAAAAGCCACAAGTTGACC	0.378													8	100					0	0	1	0	0		G	65599349	G	G	65599349	3	3	27	1	0	0	0	0	1	0	0	0	3855	159	6	3	331	3	CRCP	7	65599349	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1160648	65599349	93539314	3566	25917											
TPST1	8460	broad.mit.edu	37	chr7	65705699	65705699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacgcacatcctgacattcGctgtggagaggaaaccaggg	11	6	14	10	2	0	2	0	1	0	1	2	5	1	4	2	4	1	2	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:65705699G>A	uc003tuw.2	+	2	639	c.287G>A	c.(286-288)CGC>CAC	p.R96H	TPST1_uc010kzy.2_Intron|TPST1_uc010kzz.2_Missense_Mutation_p.R96H|TPST1_uc010laa.2_Missense_Mutation_p.R96H	NM_003596	NP_003587	O60507	TPST1_HUMAN	tyrosylprotein sulfotransferase 1	96	Lumenal (Potential).				inflammatory response|peptidyl-tyrosine sulfation	Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity				0						CCTGACATTCGCTGTGGAGAG	0.512													8	62					0	0	1	0	0		A	65705699	A	A	65705699	3	1	27	1	0	0	0	0	1	0	0	0	16453	1087	38	1	289	1	TPST1	7	65705699	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	106350	65705699	93432964	3567	25918											
RABGEF1	27342	broad.mit.edu	37	chr7	66236966	66236966	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaaaggatgtggttactacgGcaaccctgcctggcagggtt	9	9	14	9	1	0	0	0	0	0	0	0	2	0	1	2	5	4	4	2	5	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:66236966G>T	uc011kee.1	+	2	286	c.122G>T	c.(121-123)GGC>GTC	p.G41V	RABGEF1_uc003tvf.2_5'UTR|RABGEF1_uc003tvg.2_5'UTR|RABGEF1_uc010lag.2_Missense_Mutation_p.G27V|RABGEF1_uc003tvh.2_Missense_Mutation_p.G27V|RABGEF1_uc003tvi.2_5'UTR	NM_014504	NP_055319	Q9UJ41	RABX5_HUMAN	RAB guanine nucleotide exchange factor (GEF) 1	165	Interaction with ubiquitinated proteins.|A20-type.				endocytosis|protein transport	early endosome|recycling endosome	DNA binding|protein binding|zinc ion binding			ovary(1)	1						GGTTACTACGGCAACCCTGCC	0.542													5	92					0.014758	0.0150623	1	1	0		T	66236966	T	T	66236966	3	4	27	1	0	0	0	0	1	0	0	0	12991	1203	42	5	82	5	RABGEF1	7	66236966	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	531267	66236966	92901697	3568	25919											
AUTS2	26053	broad.mit.edu	37	chr7	70246639	70246639	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacataagctggactttggActgaaacctgagttcctgag	11	10	10	10	0	0	3	0	3	0	0	1	5	1	5	3	2	2	2	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:70246639A>G	uc003tvw.3	+	15	2786	c.2043A>G	c.(2041-2043)GGA>GGG	p.G681G	AUTS2_uc003tvx.3_Silent_p.G657G|AUTS2_uc011keg.1_Silent_p.G133G	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	681										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		TGGACTTTGGACTGAAACCTG	0.542													8	114					0	0	1	0	0		G	70246639	G	G	70246639	2	3	27	1	0	0	0	0	0	0	0	1	1226	262	10	3		3	AUTS2	7	70246639	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4009673	70246639	88892024	3569	25920											
AUTS2	26053	broad.mit.edu	37	chr7	70255176	70255176	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggaaggaagaccatgacCtgcctccagaggccccgcag	11	3	13	14	2	0	3	0	1	0	2	1	5	1	5	6	3	2	1	6	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:70255176C>T	uc003tvw.3	+	19	3717	c.2974C>T	c.(2974-2976)CTG>TTG	p.L992L	AUTS2_uc003tvx.3_Silent_p.L968L|AUTS2_uc011keg.1_Silent_p.L444L	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	992										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		AGACCATGACCTGCCTCCAGA	0.701													4	22					0	0	1	0	0		T	70255176	T	T	70255176	2	4	27	1	0	0	0	0	0	0	0	1	1226	680	24	4		4	AUTS2	7	70255176	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8537	70255176	88883487	3570	25921											
WBSCR17	64409	broad.mit.edu	37	chr7	70880917	70880917	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagtatgtccacaaacgctAccccgggctggtgaaggtgg	9	7	15	10	2	0	1	0	1	0	0	1	2	1	2	3	5	2	3	3	5	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:70880917A>G	uc003tvy.2	+	4	632	c.632A>G	c.(631-633)TAC>TGC	p.Y211C	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	211	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				CACAAACGCTACCCCGGGCTG	0.512													6	30					0	0	1	0	0		G	70880917	G	G	70880917	3	3	27	1	0	0	0	0	1	0	0	0	17290	391	14	3	646	3	WBSCR17	7	70880917	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	625741	70880917	88257746	3571	25922											
WBSCR17	64409	broad.mit.edu	37	chr7	71135084	71135084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagatacaataataccgttgCttacggggaggtaattcaga	15	10	10	6	2	1	2	1	0	0	2	1	3	1	3	1	3	4	3	1	3	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:71135084C>T	uc003tvy.2	+	8	1394	c.1394C>T	c.(1393-1395)GCT>GTT	p.A465V	WBSCR17_uc003tvz.2_Missense_Mutation_p.A164V	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	465	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				AATACCGTTGCTTACGGGGAG	0.423													13	175					0	0	1	0	0		T	71135084	T	T	71135084	3	4	27	1	0	0	0	0	1	0	0	0	17290	797	28	2	1424	2	WBSCR17	7	71135084	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	254167	71135084	88003579	3572	25923											
TYW1B	441250	broad.mit.edu	37	chr7	72209569	72209569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaacaagctcctctccctcGgagcatcgactatgacaagt	11	9	8	13	2	1	1	0	1	1	0	5	3	2	2	2	1	3	3	2	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:72209569G>A	uc011kej.1	-	8	1133	c.974C>T	c.(973-975)CCG>CTG	p.P325L	TYW1B_uc011keh.1_Missense_Mutation_p.P163L|TYW1B_uc011kei.1_5'UTR|TYW1B_uc011kek.1_RNA	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform	325					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						CCTCTCCCTCGGAGCATCGAC	0.418													7	59					0	0	1	0	0		A	72209569	A	A	72209569	3	1	27	1	0	0	0	0	1	0	0	0	16845	1116	39	1	1182	1	TYW1B	7	72209569	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1074485	72209569	86929094	3573	25924											
STAG3L3	442578	broad.mit.edu	37	chr7	72470007	72470007	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcacttaaggataagtaTcagtaatctgacggcctcca	13	10	8	10	1	3	1	2	1	1	0	4	3	4	2	2	2	0	2	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:72470007T>A	uc003txd.3	-	6	850	c.334A>T	c.(334-336)ATA>TTA	p.I112L	FKBP6_uc003twz.2_Intron|STAG3L3_uc011kem.1_RNA|STAG3L3_uc003txa.2_RNA|STAG3L3_uc010laq.1_RNA	NM_001013739	NP_001013761	P0CL85	ST3L3_HUMAN	stromal antigen 3-like 3	112						nucleus	binding				0		Lung NSC(55;0.197)				AGGATAAGTATCAGTAATCTG	0.507													10	232					0	0	1	0	0		A	72470007	A	A	72470007	3	1	27	1	0	0	0	0	1	0	0	0	15271	1435	50	5	78	5	STAG3L3	7	72470007	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	260438	72470007	86668656	3574	25925											
MLXIPL	51085	broad.mit.edu	37	chr7	73010717	73010717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgctgtctggacggccccGgctgaggatgggttgcgggg	3	9	20	9	3	1	1	0	1	1	0	1	3	1	3	2	7	2	4	2	7	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:73010717G>A	uc003tyn.1	-	12	1963	c.1915C>T	c.(1915-1917)CGG>TGG	p.R639W	MLXIPL_uc003tyj.1_Missense_Mutation_p.R20W|MLXIPL_uc003tyk.1_Missense_Mutation_p.R639W|MLXIPL_uc003tyl.1_Missense_Mutation_p.R639W|MLXIPL_uc003tym.1_Missense_Mutation_p.R639W|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_Missense_Mutation_p.R545W	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	639					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				GGACGGCCCCGGCTGAGGATG	0.657													26	67					0	0	1	0	0		A	73010717	A	A	73010717	3	1	27	1	0	0	0	0	1	0	0	0	9655	1115	39	1	667	1	MLXIPL	7	73010717	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	540710	73010717	86127946	3575	25926											
ABHD11	83451	broad.mit.edu	37	chr7	73153044	73153044	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcaccctcgcgaagctaggGccgtgggggccgagtccctc	5	5	16	15	4	0	0	0	0	0	0	3	2	1	0	4	4	1	2	4	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:73153044G>A	uc003tzb.2	-	1	141	c.84C>T	c.(82-84)GGC>GGT	p.G28G	RFC2_uc011kfa.1_Intron|ABHD11_uc011kfb.1_Silent_p.G28G|ABHD11_uc003tzc.2_Silent_p.G28G|ABHD11_uc003tza.2_5'UTR|ABHD11_uc003tzf.2_Silent_p.G28G|ABHD11_uc011kfc.1_Silent_p.G28G	NM_148912	NP_683710	Q8NFV4	ABHDB_HUMAN	abhydrolase domain containing 11 isoform 1	28							hydrolase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				CGAAGCTAGGGCCGTGGGGGC	0.716													5	12					0	0	1	0	0		A	73153044	A	A	73153044	2	1	27	1	0	0	0	0	0	0	0	1	75	1190	42	2		2	ABHD11	7	73153044	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	142327	73153044	85985619	3576	25927											
CLDN4	1364	broad.mit.edu	37	chr7	73245601	73245601	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggctggccgtcatgctgTgctgcgcgctgcccatgtgg	2	10	16	13	3	1	0	1	0	0	0	1	0	1	0	2	3	4	5	2	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:73245601T>C	uc003tzi.3	+	1	409	c.70T>C	c.(70-72)TGC>CGC	p.C24R	RFC2_uc011kfa.1_Intron|CLDN4_uc003tzh.1_RNA	NM_001305	NP_001296	O14493	CLD4_HUMAN	claudin 4	24	Helical; (Potential).				calcium-independent cell-cell adhesion	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity|transmembrane receptor activity				0		Lung NSC(55;0.159)				CGTCATGCTGTGCTGCGCGCT	0.637													4	46					0	0	1	0	0		C	73245601	C	C	73245601	3	2	27	1	0	0	0	0	1	0	0	0	3490	1696	59	3	72	3	CLDN4	7	73245601	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	92557	73245601	85893062	3577	25928											
CLDN4	1364	broad.mit.edu	37	chr7	73246012	73246012	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccgggcagaagcgggagatgGgtgcctcgctctacgtcggc	6	6	17	12	5	1	2	0	0	1	2	3	3	1	2	2	4	3	2	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:73246012G>T	uc003tzi.3	+	1	820	c.481G>T	c.(481-483)GGT>TGT	p.G161C	RFC2_uc011kfa.1_Intron|CLDN4_uc003tzh.1_RNA	NM_001305	NP_001296	O14493	CLD4_HUMAN	claudin 4	161	Helical; (Potential).				calcium-independent cell-cell adhesion	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity|transmembrane receptor activity				0		Lung NSC(55;0.159)				GCGGGAGATGGGTGCCTCGCT	0.647													5	52					0.014758	0.0150623	1	1	0		T	73246012	T	T	73246012	3	4	27	1	0	0	0	0	1	0	0	0	3490	1232	43	5	483	5	CLDN4	7	73246012	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	411	73246012	85892651	3578	25929											
ELN	2006	broad.mit.edu	37	chr7	73462858	73462858	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccccaggcagcagcagcAgcggcagctaaagcagcagc	11	1	14	15	1	0	0	0	0	0	0	0	0	0	0	2	3	8	8	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:73462858A>G	uc003tzw.2	+	15	862	c.771A>G	c.(769-771)GCA>GCG	p.A257A	RFC2_uc011kfa.1_Intron|ELN_uc003tzm.1_Splice_Site|ELN_uc011kfe.1_Silent_p.A226A|ELN_uc003tzn.2_Silent_p.A257A|ELN_uc003tzz.2_Silent_p.A221A|ELN_uc003tzo.2_Silent_p.A243A|ELN_uc003tzp.2_Silent_p.A213A|ELN_uc003tzq.2_Silent_p.A140A|ELN_uc003tzr.2_RNA|ELN_uc003tzs.2_Silent_p.A257A|ELN_uc003tzt.2_Silent_p.A262A|ELN_uc003tzu.2_Silent_p.A262A|ELN_uc003tzv.2_Silent_p.A247A|ELN_uc003tzx.2_Silent_p.A247A|ELN_uc011kff.1_Silent_p.A257A|ELN_uc003tzy.2_Silent_p.A252A	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	257	Ala-rich.				blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	cagcagcagcagcggcagcta	0.507			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						15	70					0	0	1	0	0		G	73462858	G	G	73462858	2	3	27	1	0	0	0	0	0	0	0	1	5079	175	7	3		3	ELN	7	73462858	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	216846	73462858	85675805	3579	25930											
ELN	2006	broad.mit.edu	37	chr7	73462877	73462877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcggcagctaaagcagcaGcaaagttcggtgagtgcccc	11	5	13	12	2	0	1	0	1	0	0	1	1	0	1	2	2	6	6	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:73462877G>A	uc003tzw.2	+	15	881	c.790G>A	c.(790-792)GCA>ACA	p.A264T	RFC2_uc011kfa.1_Intron|ELN_uc003tzm.1_RNA|ELN_uc011kfe.1_Missense_Mutation_p.A233T|ELN_uc003tzn.2_Missense_Mutation_p.A264T|ELN_uc003tzz.2_Missense_Mutation_p.A228T|ELN_uc003tzo.2_Missense_Mutation_p.A250T|ELN_uc003tzp.2_Missense_Mutation_p.A220T|ELN_uc003tzq.2_Missense_Mutation_p.A147T|ELN_uc003tzr.2_RNA|ELN_uc003tzs.2_Missense_Mutation_p.A264T|ELN_uc003tzt.2_Missense_Mutation_p.A269T|ELN_uc003tzu.2_Missense_Mutation_p.A269T|ELN_uc003tzv.2_Missense_Mutation_p.A254T|ELN_uc003tzx.2_Missense_Mutation_p.A254T|ELN_uc011kff.1_Missense_Mutation_p.A264T|ELN_uc003tzy.2_Missense_Mutation_p.A259T	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	264	Ala-rich.				blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	taaagcagcagcaAAGTTCGG	0.507			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						9	52					0	0	1	0	0		A	73462877	A	A	73462877	3	1	27	1	0	0	0	0	1	0	0	0	5079	971	34	2	863	2	ELN	7	73462877	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19	73462877	85675786	3580	25931											
LIMK1	3984	broad.mit.edu	37	chr7	73510954	73510954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggcccctctcctgcaggtGttgtgactgcagtgcctccc	3	10	11	17	1	1	1	0	1	1	0	3	1	2	1	6	2	3	3	6	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:73510954G>A	uc003uaa.1	+	3	320	c.155G>A	c.(154-156)TGT>TAT	p.C52Y	RFC2_uc011kfa.1_Intron|LIMK1_uc010lbl.1_RNA|LIMK1_uc003uab.2_Missense_Mutation_p.C18Y|LIMK1_uc003uac.1_5'Flank	NM_002314	NP_002305	P53667	LIMK1_HUMAN	LIM domain kinase 1	52	LIM zinc-binding 1.				actin cytoskeleton organization|axon guidance|negative regulation of ubiquitin-protein ligase activity|positive regulation of actin filament bundle assembly|positive regulation of axon extension|Rho protein signal transduction	cytosol|growth cone|nucleus	ATP binding|heat shock protein binding|protein serine/threonine kinase activity|zinc ion binding			stomach(2)|ovary(1)	3		Lung NSC(55;0.137)				TCCTGCAGGTGTTGTGACTGC	0.607													8	44					0	0	1	0	0		A	73510954	A	A	73510954	3	1	27	1	0	0	0	0	1	0	0	0	8817	1377	48	4	165	4	LIMK1	7	73510954	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	48077	73510954	85627709	3581	25932											
EIF4H	7458	broad.mit.edu	37	chr7	73604186	73604186	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcacttcgtgtggacattgCagaaggcagaaaacaagata	15	8	11	7	1	1	3	1	0	0	3	2	4	1	4	0	2	2	2	0	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:73604186C>A	uc003uad.1	+	4	355	c.347C>A	c.(346-348)GCA>GAA	p.A116E	RFC2_uc011kfa.1_Intron|EIF4H_uc011kfg.1_Missense_Mutation_p.A116E|EIF4H_uc010lbm.2_Missense_Mutation_p.A116E|EIF4H_uc003uae.1_Missense_Mutation_p.A116E|EIF4H_uc003uaf.1_RNA|MIR590_hsa-mir-590|MI0003602_5'Flank	NM_022170	NP_071496	Q15056	IF4H_HUMAN	eukaryotic translation initiation factor 4H	116	RRM.				interspecies interaction between organisms|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0						GTGGACATTGCAGAAGGCAGA	0.403													5	78					0.00198382	0.00205548	1	1	0		A	73604186	A	A	73604186	3	1	27	1	0	0	0	0	1	0	0	0	5047	710	25	5	361	5	EIF4H	7	73604186	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	93232	73604186	85534477	3582	25933											
RFC2	5982	broad.mit.edu	37	chr7	73666758	73666758	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaaaaaaaaaagccactcaCctctagcctgctcacggtgt	16	7	6	12	1	3	0	2	0	1	0	3	0	3	0	3	1	3	1	3	1	7	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:73666758C>T	uc003uaj.2	-	2	208	c.183_splice	c.e2+1	p.E61_splice	RFC2_uc011kfa.1_Splice_Site|RFC2_uc003uak.2_Splice_Site_p.E61_splice|RFC2_uc010lbp.2_Splice_Site_p.E24_splice|RFC2_uc003ual.2_Intron	NM_181471	NP_852136	P35250	RFC2_HUMAN	replication factor C 2 isoform 1						cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding			liver(1)|central_nervous_system(1)	2						aaGCCACTCACCTCTAGCCTG	0.229													7	61					0	0	1	0	0		T	73666758	T	T	73666758	5	4	27	1	0	0	0	0	0	0	1	0	13270	521	18	4	920	4	RFC2	7	73666758	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	62572	73666758	85471905	3583	25934											
CLIP2	7461	broad.mit.edu	37	chr7	73731916	73731916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaagccccccggccgtgggGggaagcactccagccccatg	7	4	14	16	2	0	1	0	1	0	0	1	2	1	2	7	4	3	1	7	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:73731916G>A	uc003uam.2	+	2	367	c.40G>A	c.(40-42)GGG>AGG	p.G14R	CLIP2_uc003uan.2_Missense_Mutation_p.G14R	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	14						microtubule associated complex				skin(3)	3						CGGCCGTGGGGGGAAGCACTC	0.662													10	113					0	0	1	0	0		A	73731916	A	A	73731916	3	1	27	1	0	0	0	0	1	0	0	0	3536	1232	43	4	42	4	CLIP2	7	73731916	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	65158	73731916	85406747	3584	25935											
GTF2IRD1	9569	broad.mit.edu	37	chr7	73935629	73935629	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcgtccatgacaagtcaggTaggacagcgcccacgaagca	13	5	11	12	3	1	1	1	1	0	0	3	3	2	2	2	2	2	2	2	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:73935629T>C	uc003uaq.2	+	7	1399	c.1006_splice	c.e7+2	p.E336_splice	GTF2IRD1_uc010lbq.2_Splice_Site_p.E368_splice|GTF2IRD1_uc003uap.2_Splice_Site_p.E336_splice|GTF2IRD1_uc003uar.1_Splice_Site_p.E336_splice	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1							nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						ACAAGTCAGGTAGGACAGCGC	0.552													3	47					0	0	1	0	0		C	73935629	C	C	73935629	5	2	27	1	0	0	0	0	0	0	1	0	6884	1652	57	3	1030	3	GTF2IRD1	7	73935629	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	203713	73935629	85203034	3585	25936											
GTF2IRD1	9569	broad.mit.edu	37	chr7	73953039	73953039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggagctgggcgggctgaggCcgatcaaaattgagccagag	10	5	18	8	2	1	3	1	2	0	1	1	5	1	4	2	4	2	2	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:73953039C>T	uc003uaq.2	+	13	1870	c.1477C>T	c.(1477-1479)CCG>TCG	p.P493S	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.P525S|GTF2IRD1_uc003uap.2_Missense_Mutation_p.P493S|GTF2IRD1_uc003uar.1_Missense_Mutation_p.P493S	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	493						nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CGGGCTGAGGCCGATCAAAAT	0.587													5	100					0	0	1	0	0		T	73953039	T	T	73953039	3	4	27	1	0	0	0	0	1	0	0	0	6884	739	26	2	1523	2	GTF2IRD1	7	73953039	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17410	73953039	85185624	3586	25937											
GTF2I	2969	broad.mit.edu	37	chr7	74148279	74148279	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcagacatgagcttctgaAttcaacacgtgaagatttac	13	13	7	8	1	3	5	2	3	1	2	3	5	3	5	0	0	3	1	0	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:74148279A>G	uc003uau.2	+	16	1689	c.1319A>G	c.(1318-1320)AAT>AGT	p.N440S	GTF2I_uc003uav.2_Missense_Mutation_p.N419S|GTF2I_uc003uaw.2_Missense_Mutation_p.N420S|GTF2I_uc003uay.2_Missense_Mutation_p.N418S|GTF2I_uc003uax.2_Missense_Mutation_p.N399S	NM_032999	NP_127492	P78347	GTF2I_HUMAN	general transcription factor IIi isoform 1	440	GTF2I-like 2.				negative regulation of angiogenesis|signal transduction|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0						GAGCTTCTGAATTCAACACGT	0.358													4	120					0	0	1	0	0		G	74148279	G	G	74148279	3	3	27	1	0	0	0	0	1	0	0	0	6883	101	4	3	1377	3	GTF2I	7	74148279	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	195240	74148279	84990384	3587	25938											
POM121C	100101267	broad.mit.edu	37	chr7	75068445	75068445	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacaaaagaagcggggacTccactggccaccaggggctc	11	3	14	13	1	0	1	0	0	0	1	2	2	1	2	3	6	1	2	3	6	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:75068445T>C	uc010lde.1	-	4	1011	c.1011A>G	c.(1009-1011)GGA>GGG	p.G337G	POM121C_uc003udk.3_Silent_p.G95G			A8CG34	P121C_HUMAN	Homo sapiens POM121-2 mRNA for nuclear pore membrane protein 121-2, partial cds.	337	Required for targeting to the nucleus and nuclear pore complex.|Pore side (Potential).|Ser-rich.				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						AAGCGGGGACTCCACTGGCCA	0.463													11	155					0	0	1	0	0		C	75068445	C	C	75068445	2	2	27	1	0	0	0	0	0	0	0	1	12259	1538	54	3		3	POM121C	7	75068445	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	920166	75068445	84070218	3588	25939											
RHBDD2	57414	broad.mit.edu	37	chr7	75517387	75517387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccaccctgtgtcccagaCgcagcacgccagtggtcaga	10	5	11	15	2	1	2	1	0	0	2	2	2	2	2	4	1	2	2	4	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:75517387C>T	uc003udw.1	+	4	899	c.815C>T	c.(814-816)ACG>ATG	p.T272M	RHBDD2_uc003udv.1_Missense_Mutation_p.T131M	NM_001040456	NP_001035546	Q6NTF9	RHBD2_HUMAN	rhomboid domain containing 2 isoform a	272						integral to membrane	serine-type endopeptidase activity				0						GTGTCCCAGACGCAGCACGCC	0.642													32	108					0	0	1	0	0		T	75517387	T	T	75517387	3	4	27	1	0	0	0	0	1	0	0	0	13342	536	19	1	829	1	RHBDD2	7	75517387	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	448942	75517387	83621276	3589	25940											
POR	5447	broad.mit.edu	37	chr7	75614176	75614176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctggacatcaccaaccCgccgcgtaccaacgtgctgt	9	7	8	17	4	1	0	1	0	0	0	1	1	1	1	5	1	5	2	5	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:75614176C>T	uc003udy.2	+	11	1230	c.1148C>T	c.(1147-1149)CCG>CTG	p.P383L	POR_uc011kgc.1_Missense_Mutation_p.P191L|POR_uc011kgd.1_Missense_Mutation_p.P282L|POR_uc011kge.1_Missense_Mutation_p.P121L|POR_uc003uea.2_5'Flank	NM_000941	NP_000932	P16435	NCPR_HUMAN	cytochrome P450 reductase	380	FAD-binding FR-type.				cellular organofluorine metabolic process|positive regulation of monooxygenase activity	endoplasmic reticulum membrane	iron ion binding|NADPH-hemoprotein reductase activity			central_nervous_system(1)	1					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Lipoic Acid(DB00166)|Menadione(DB00170)|Methoxyflurane(DB01028)|Mitomycin(DB00305)|Nilutamide(DB00665)	ATCACCAACCCGCCGCGTACC	0.647													5	48					0	0	1	0	0		T	75614176	T	T	75614176	3	4	27	1	0	0	0	0	1	0	0	0	12276	652	23	1	1186	1	POR	7	75614176	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	96789	75614176	83524487	3590	25941											
YWHAG	7532	broad.mit.edu	37	chr7	75959437	75959437	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtctgcagatgtcttctgCtcaatgctactgatgaccct	7	13	8	13	1	4	3	1	2	3	1	4	3	4	3	2	0	4	3	2	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:75959437C>T	uc011kgj.1	-	2	418	c.201G>A	c.(199-201)GAG>GAA	p.E67E		NM_012479	NP_036611	P61981	1433G_HUMAN	tyrosine 3-monooxygenase/tryptophan	67					G2/M transition of mitotic cell cycle|regulation of neuron differentiation|regulation of signal transduction|regulation of synaptic plasticity	cytosol	insulin-like growth factor receptor binding|protein kinase C binding|protein kinase C inhibitor activity			ovary(1)|lung(1)	2						ATGTCTTCTGCTCAATGCTAC	0.537													15	124					0	0	1	0	0		T	75959437	T	T	75959437	2	4	27	1	0	0	0	0	0	0	0	1	17529	796	28	2		2	YWHAG	7	75959437	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	345261	75959437	83179226	3591	25942											
DTX2	113878	broad.mit.edu	37	chr7	76126704	76126704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactccctgtgtgtcttagcCgcgcaccccagcccaccagc	6	7	9	19	2	1	0	0	0	1	0	2	1	2	0	6	0	3	1	6	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:76126704C>T	uc003uff.3	+	7	1616	c.1060C>T	c.(1060-1062)CGC>TGC	p.R354C	DTX2_uc011kgk.1_Missense_Mutation_p.R263C|DTX2_uc003ufg.3_Missense_Mutation_p.R354C|DTX2_uc003ufh.3_Missense_Mutation_p.R354C|DTX2_uc003ufj.3_Intron|DTX2_uc003ufk.3_Intron|DTX2_uc003ufl.1_Missense_Mutation_p.R17C|DTX2_uc003ufm.3_5'Flank	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	354					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						GTGTCTTAGCCGCGCACCCCA	0.557													13	116					0	0	1	0	0		T	76126704	T	T	76126704	3	4	27	1	0	0	0	0	1	0	0	0	4800	652	23	1	1074	1	DTX2	7	76126704	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	167267	76126704	83011959	3592	25943											
FGL2	10875	broad.mit.edu	37	chr7	76825713	76825713	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccccagaaaatcccattacgGacacctctgtatttttggtg	10	12	7	12	1	1	1	0	0	1	1	2	2	2	2	4	2	1	1	4	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:76825713G>A	uc003ugb.2	-	2	1243	c.1203C>T	c.(1201-1203)GTC>GTT	p.V401V	CCDC146_uc003ufz.1_Intron|CCDC146_uc003uga.2_Intron	NM_006682	NP_006673	Q14314	FGL2_HUMAN	fibrinogen-like 2 precursor	401	Fibrinogen C-terminal.				signal transduction	fibrinogen complex	receptor binding			skin(2)	2						TCCCATTACGGACACCTCTGT	0.473													13	43					0	0	1	0	0		A	76825713	A	A	76825713	2	1	27	1	0	0	0	0	0	0	0	1	5887	1161	41	4		4	FGL2	7	76825713	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	699009	76825713	82312950	3593	25944											
FGL2	10875	broad.mit.edu	37	chr7	76829058	76829058	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtttgccacaaccaaaaaaCcgtaagtggcaagaacagct	16	7	8	10	1	0	1	0	0	0	1	0	1	0	1	3	1	5	4	3	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:76829058C>A	uc003ugb.2	-	1	93	c.53G>T	c.(52-54)GGT>GTT	p.G18V	CCDC146_uc003ufz.1_Intron|CCDC146_uc003uga.2_Intron	NM_006682	NP_006673	Q14314	FGL2_HUMAN	fibrinogen-like 2 precursor	18					signal transduction	fibrinogen complex	receptor binding			skin(2)	2						AACCAAAAAACCGTAAGTGGC	0.498													7	68					8.12818e-05	8.61523e-05	1	1	0		A	76829058	A	A	76829058	3	1	27	1	0	0	0	0	1	0	0	0	5887	507	18	5	1274	5	FGL2	7	76829058	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3345	76829058	82309605	3594	25945											
MAGI2	9863	broad.mit.edu	37	chr7	77708270	77708270	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtgaaacgtaccatattCtgggacctgtcccgtgcctc	9	10	9	13	3	1	1	0	1	1	0	3	2	2	2	4	1	4	1	4	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:77708270C>A	uc003ugx.2	-	21	3954	c.3700G>T	c.(3700-3702)GAA>TAA	p.E1234*	MAGI2_uc003ugy.2_Nonsense_Mutation_p.E1220*|MAGI2_uc010ldx.1_Nonsense_Mutation_p.E827*	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	1234				E -> Q (in Ref. 1; AAC05370).		cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				GTACCATATTCTGGGACCTGT	0.438													10	105					0.000442599	0.000464839	1	1	0		A	77708270	A	A	77708270	4	1	27	1	0	0	0	0	0	1	0	0	9209	922	32	5	675	5	MAGI2	7	77708270	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	879212	77708270	81430393	3595	25946											
MAGI2	9863	broad.mit.edu	37	chr7	77789472	77789472	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgaagccttcagggggagaGgcattgctactgggggcagc	8	6	18	9	1	1	1	1	0	0	1	1	3	1	1	1	5	4	3	1	5	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:77789472G>T	uc003ugx.2	-	16	2969	c.2715C>A	c.(2713-2715)GCC>GCA	p.A905A	MAGI2_uc003ugy.2_Silent_p.A891A|MAGI2_uc010ldx.1_Silent_p.A498A	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	905						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				CAGGGGGAGAGGCATTGCTAC	0.582													8	62					1.06961e-07	1.16939e-07	1	1	0		T	77789472	T	T	77789472	2	4	27	1	0	0	0	0	0	0	0	1	9209	987	35	5		5	MAGI2	7	77789472	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	81202	77789472	81349191	3596	25947											
MAGI2	9863	broad.mit.edu	37	chr7	78636429	78636429	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaccgtgcggaggtagaggTtgtcacgaatgatttgctga	9	10	15	7	3	1	3	1	2	0	1	1	5	1	4	1	3	2	4	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:78636429T>C	uc003ugx.2	-	2	649	c.395A>G	c.(394-396)AAC>AGC	p.N132S	MAGI2_uc003ugy.2_Missense_Mutation_p.N132S	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	132	Guanylate kinase-like.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				GAGGTAGAGGTTGTCACGAAT	0.368													3	80					0	0	1	0	0		C	78636429	C	C	78636429	3	2	27	1	0	0	0	0	1	0	0	0	9209	1725	60	3	4056	3	MAGI2	7	78636429	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	846957	78636429	80502234	3597	25948											
MAGI2	9863	broad.mit.edu	37	chr7	79082520	79082520	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccccaggtaggggaactgTccattctcggcgcccccctt	5	9	10	17	2	1	0	0	0	1	0	4	1	3	1	6	4	1	1	6	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:79082520T>A	uc003ugx.2	-	1	371	c.117A>T	c.(115-117)GGA>GGT	p.G39G	MAGI2_uc003ugy.2_Silent_p.G39G|uc010lea.1_5'Flank	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	39	PDZ 1.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				AGGGGAACTGTCCATTCTCGG	0.592													5	104					0	0	1	0	0		A	79082520	A	A	79082520	2	1	27	1	0	0	0	0	0	0	0	1	9209	1654	58	5		5	MAGI2	7	79082520	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	446091	79082520	80056143	3598	25949											
HGF	3082	broad.mit.edu	37	chr7	81374395	81374395	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgattctgtatgatccaTgagacctcgataactctccc	9	12	7	13	1	2	3	0	3	2	1	5	5	3	3	4	0	1	1	4	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:81374395T>C	uc003uhl.2	-	6	832	c.667A>G	c.(667-669)ATG>GTG	p.M223V	HGF_uc003uhm.2_Missense_Mutation_p.M218V|HGF_uc003uhn.1_Missense_Mutation_p.M223V|HGF_uc003uho.1_Missense_Mutation_p.M218V	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	223	Kringle 2.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						GTATGATCCATGAGACCTCGA	0.393													4	47					0	0	1	0	0		C	81374395	C	C	81374395	3	2	27	1	0	0	0	0	1	0	0	0	7101	1464	51	3	1583	3	HGF	7	81374395	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2291875	81374395	77764268	3599	25950											
HGF	3082	broad.mit.edu	37	chr7	81381566	81381566	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtctttaccccgatagctCgaaggcaaaaagctagtttt	12	11	9	9	2	1	0	0	0	1	0	2	2	1	0	2	2	3	4	2	2	6	6	rs137853235		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:81381566C>T	uc003uhl.2	-	5	660	c.495G>A	c.(493-495)TCG>TCA	p.S165S	HGF_uc003uhm.2_Intron|HGF_uc003uhn.1_Silent_p.S165S|HGF_uc003uho.1_Intron|HGF_uc003uhp.2_Silent_p.S165S	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	165	Kringle 1.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						CCCGATAGCTCGAAGGCAAAA	0.403													14	70					0	0	1	0	0		T	81381566	T	T	81381566	2	4	27	1	0	0	0	0	0	0	0	1	7101	871	31	1		1	HGF	7	81381566	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7171	81381566	77757097	3600	25951											
HGF	3082	broad.mit.edu	37	chr7	81388093	81388093	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggggaaccagaggcattgTtttcttgctttatcaaaaac	13	12	9	7	0	2	1	1	0	1	1	2	2	2	2	1	3	3	3	1	3	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:81388093T>C	uc003uhl.2	-	3	447	c.282A>G	c.(280-282)AAA>AAG	p.K94K	HGF_uc003uhm.2_Silent_p.K94K|HGF_uc003uhn.1_Silent_p.K94K|HGF_uc003uho.1_Silent_p.K94K|HGF_uc003uhp.2_Silent_p.K94K	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	94	PAN.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						AGAGGCATTGTTTTCTTGCTT	0.338													4	102					0	0	1	0	0		C	81388093	C	C	81388093	2	2	27	1	0	0	0	0	0	0	0	1	7101	1722	60	3		3	HGF	7	81388093	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6527	81388093	77750570	3601	25952											
PCLO	27445	broad.mit.edu	37	chr7	82579252	82579252	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcaggtgctgaaatgtgtTtaattatttctaccttggca	9	18	8	6	0	2	1	1	1	1	0	2	1	2	1	1	2	2	3	1	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:82579252T>C	uc003uhx.2	-	6	10941	c.10652A>G	c.(10651-10653)AAA>AGA	p.K3551R	PCLO_uc003uhv.2_Missense_Mutation_p.K3551R|PCLO_uc010lec.2_Missense_Mutation_p.K516R	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3482					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TGAAATGTGTTTAATTATTTC	0.438													9	80					0	0	1	0	0		C	82579252	C	C	82579252	3	2	27	1	0	0	0	0	1	0	0	0	11602	1841	64	3	4873	3	PCLO	7	82579252	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1191159	82579252	76559411	3602	25953											
PCLO	27445	broad.mit.edu	37	chr7	82583904	82583904	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggatagagagtgttgcaCtgctggtcgaatctgtaaga	10	11	14	6	1	1	2	0	0	1	2	2	5	1	3	0	2	2	4	0	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:82583904C>A	uc003uhx.2	-	5	6654	c.6365G>T	c.(6364-6366)AGT>ATT	p.S2122I	PCLO_uc003uhv.2_Missense_Mutation_p.S2122I	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2053					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GAGTGTTGCACTGCTGGTCGA	0.408													4	59					0.00024832	0.000261516	1	1	0		A	82583904	A	A	82583904	3	1	27	1	0	0	0	0	1	0	0	0	11602	565	20	5	9164	5	PCLO	7	82583904	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4652	82583904	76554759	3603	25954											
PCLO	27445	broad.mit.edu	37	chr7	82763785	82763785	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctatccttaataggtggTggctttttttctgtttctgt	4	22	9	6	0	2	0	0	0	2	0	3	0	3	0	1	3	1	3	1	3	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:82763785T>A	uc003uhx.2	-	3	3370	c.3081A>T	c.(3079-3081)CCA>CCT	p.P1027P	PCLO_uc003uhv.2_Silent_p.P1027P	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	973	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TAATAGGTGGTGGCTTTTTTT	0.428													15	34					0	0	1	0	0		A	82763785	A	A	82763785	2	1	27	1	0	0	0	0	0	0	0	1	11602	1683	59	5		5	PCLO	7	82763785	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	179881	82763785	76374878	3604	25955											
PCLO	27445	broad.mit.edu	37	chr7	82784146	82784146	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatgtgttaaaattggccTtttctggaacatgcaacaga	12	13	9	7	0	1	1	0	0	1	1	1	2	1	2	1	2	4	3	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:82784146T>C	uc003uhx.2	-	2	2100	c.1811A>G	c.(1810-1812)AAG>AGG	p.K604R	PCLO_uc003uhv.2_Missense_Mutation_p.K604R	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	550	C4-type (Potential).|Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AAAATTGGCCTTTTCTGGAAC	0.433													14	186					0	0	1	0	0		C	82784146	C	C	82784146	3	2	27	1	0	0	0	0	1	0	0	0	11602	1609	56	3	13730	3	PCLO	7	82784146	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20361	82784146	76354517	3605	25956											
PCLO	27445	broad.mit.edu	37	chr7	82785615	82785615	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctgaaagtgtctgtagtTctacttttactgagaccagg	10	13	10	8	0	2	2	0	2	2	1	2	4	2	2	2	1	2	2	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:82785615T>G	uc003uhx.2	-	2	631	c.342A>C	c.(340-342)AGA>AGC	p.R114S	PCLO_uc003uhv.2_Missense_Mutation_p.R114S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	114					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TGTCTGTAGTTCTACTTTTAC	0.468													4	58					0	0	1	0	0		G	82785615	G	G	82785615	3	3	27	1	0	0	0	0	1	0	0	0	11602	1780	62	5	15199	5	PCLO	7	82785615	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1469	82785615	76353048	3606	25957											
SEMA3D	223117	broad.mit.edu	37	chr7	84671486	84671486	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaggaaagaaggaacttaCgaagctcatcaaagtaagta	20	6	10	5	1	2	2	2	0	0	2	2	5	2	4	0	2	3	3	0	2	9	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:84671486C>T	uc003uic.2	-	8	1016	c.976_splice	c.e8+1	p.Q326_splice	SEMA3D_uc010led.2_Splice_Site_p.Q326_splice|SEMA3D_uc003uib.2_5'Flank	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor						cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						AAGGAACTTACGAAGCTCATC	0.413													23	221					0	0	1	0	0		T	84671486	T	T	84671486	5	4	27	1	0	0	0	0	0	0	1	0	14052	550	19	1	1396	1	SEMA3D	7	84671486	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1885871	84671486	74467177	3607	25958											
GRM3	2913	broad.mit.edu	37	chr7	86415639	86415639	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacgcatccaccagcgccaaActcagtgataagtcgcgcta	12	7	8	14	4	1	1	1	1	0	0	3	1	2	1	3	0	3	2	3	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:86415639A>G	uc003uid.2	+	3	1630	c.531A>G	c.(529-531)AAA>AAG	p.K177K	GRM3_uc010lef.2_Silent_p.K175K|GRM3_uc010leg.2_Silent_p.K49K|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	177	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	CCAGCGCCAAACTCAGTGATA	0.552													4	156					0	0	1	0	0		G	86415639	G	G	86415639	2	3	27	1	0	0	0	0	0	0	0	1	6814	40	2	3		3	GRM3	7	86415639	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1744153	86415639	72723024	3608	25959											
KIAA1324L	222223	broad.mit.edu	37	chr7	86541542	86541542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggtagaaaaagcagtcaCtatagcaaaccgaatggtcc	16	7	9	9	1	1	1	1	0	0	1	2	2	2	1	2	2	3	3	2	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:86541542C>T	uc011kha.1	-	15	2200	c.2015G>A	c.(2014-2016)AGT>AAT	p.S672N	KIAA1324L_uc003uif.1_Missense_Mutation_p.S432N|KIAA1324L_uc011kgz.1_Missense_Mutation_p.S558N|KIAA1324L_uc003uie.2_Missense_Mutation_p.S505N	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	672	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					AAAGCAGTCACTATAGCAAAC	0.368													23	107					0	0	1	0	0		T	86541542	T	T	86541542	3	4	27	1	0	0	0	0	1	0	0	0	8240	565	20	4	1106	4	KIAA1324L	7	86541542	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	125903	86541542	72597121	3609	25960											
DMTF1	9988	broad.mit.edu	37	chr7	86802919	86802919	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagtttcagcagttagccaAgcatggtttacaactaaaga	15	10	9	7	0	1	1	1	0	0	1	1	2	1	1	1	1	5	5	1	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:86802919A>G	uc003uih.2	+	6	722	c.396A>G	c.(394-396)CAA>CAG	p.Q132Q	DMTF1_uc003uii.2_5'UTR|DMTF1_uc003uij.2_5'UTR|DMTF1_uc011khb.1_Silent_p.Q44Q|DMTF1_uc003uik.2_RNA|DMTF1_uc003uil.2_Silent_p.Q132Q|DMTF1_uc003uim.1_Silent_p.Q132Q|DMTF1_uc003uin.2_5'UTR	NM_001142327	NP_001135799	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	132	Required for transcriptional activation (By similarity).|Interaction with CCND2 (By similarity).|Required for DNA-binding (By similarity).				cell cycle	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(14;0.0058)					CAGTTAGCCAAGCATGGTTTA	0.318													6	66					0	0	1	0	0		G	86802919	G	G	86802919	2	3	27	1	0	0	0	0	0	0	0	1	4598	69	3	3		3	DMTF1	7	86802919	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	261377	86802919	72335744	3610	25961											
DMTF1	9988	broad.mit.edu	37	chr7	86824348	86824348	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttgaaactcattacagaTcccatactccaacatcatca	16	10	2	13	0	3	2	3	1	0	1	5	2	5	2	2	0	5	0	2	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:86824348T>A	uc003uih.2	+	18	2501	c.2175T>A	c.(2173-2175)GAT>GAA	p.D725E	DMTF1_uc003uii.2_Missense_Mutation_p.D459E|DMTF1_uc003uij.2_Missense_Mutation_p.D459E|DMTF1_uc011khb.1_Missense_Mutation_p.D637E|DMTF1_uc003uik.2_RNA|DMTF1_uc003uil.2_Missense_Mutation_p.D725E|DMTF1_uc003uin.2_Missense_Mutation_p.D459E	NM_001142327	NP_001135799	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	725	Interaction with CCND1, CCND2 and CCND3 (By similarity).|Required for transcriptional activation (By similarity).				cell cycle	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(14;0.0058)					TCATTACAGATCCCATACTCC	0.353													7	89					0	0	1	0	0		A	86824348	A	A	86824348	3	1	27	1	0	0	0	0	1	0	0	0	4598	1449	50	5	2237	5	DMTF1	7	86824348	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	21429	86824348	72314315	3611	25962											
ABCB1	5243	broad.mit.edu	37	chr7	87179871	87179871	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctggtttgtgcccactcttCgaatagctgtcaatacttgg	7	15	9	10	1	3	0	1	0	2	0	4	1	3	0	1	2	3	2	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:87179871C>T	uc003uiz.1	-	12	1555	c.1137G>A	c.(1135-1137)TCG>TCA	p.S379S	ABCB1_uc011khc.1_Silent_p.S315S	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	379	Cytoplasmic (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	GCCCACTCTTCGAATAGCTGT	0.333													16	61					0	0	1	0	0		T	87179871	T	T	87179871	2	4	27	1	0	0	0	0	0	0	0	1	40	871	31	1		1	ABCB1	7	87179871	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	355523	87179871	71958792	3612	25963											
RUNDC3B	154661	broad.mit.edu	37	chr7	87258157	87258157	+	Frame_Shift_Del	DEL	G	-	-																															gccatggcctcccggagcctGgggggcctgagcgggatccg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:87258157delG	uc003ujb.2	+	1	429	c.18delG	c.(16-18)CTGfs	p.L6fs	ABCB1_uc003uiz.1_Intron|ABCB1_uc003uja.1_Intron|ABCB1_uc010lei.1_Intron|RUNDC3B_uc011khd.1_Frame_Shift_Del_p.L6fs|RUNDC3B_uc011khe.1_Frame_Shift_Del_p.L6fs|RUNDC3B_uc003ujc.2_Frame_Shift_Del_p.L6fs	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	6										skin(1)	1	Esophageal squamous(14;0.00164)					CCCGGAGCCTGGGGGGCCTGA	0.701													4	5	---	---	---	---						.	-	87258157	-	-	87258157	7	5	27	1	0	1	0	1	0	0	0	0	13770	1335	47	0	20	0	RUNDC3B	7	87258157	Frame_Shift_Del	DEL	G	TCGA-BR-6452-01A-12D-1800-08	78286	87258157	71880506	3613	25964											
DBF4	10926	broad.mit.edu	37	chr7	87507464	87507464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caaatgtaagccactttgggGaaaagtattttaccttgact	13	13	8	7	0	0	1	0	1	0	0	0	2	0	2	2	2	2	2	2	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:87507464G>A	uc003ujf.1	+	2	647	c.143G>A	c.(142-144)GGA>GAA	p.G48E	SLC25A40_uc003uje.2_5'Flank|DBF4_uc003ujh.1_5'UTR|DBF4_uc003ujg.1_Intron|DBF4_uc011khf.1_5'UTR	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	48	BRCT 1.				cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				CCACTTTGGGGAAAAGTATTT	0.383													9	149					0	0	1	0	0		A	87507464	A	A	87507464	3	1	27	1	0	0	0	0	1	0	0	0	4251	1174	41	4	149	4	DBF4	7	87507464	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	249307	87507464	71631199	3614	25965											
DBF4	10926	broad.mit.edu	37	chr7	87516180	87516180	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtttaagcagaggaaaaTtattagttgaaaaagctatc	16	13	9	3	0	0	2	0	1	0	1	1	3	0	3	0	1	2	4	0	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:87516180T>A	uc003ujf.1	+	4	925	c.421T>A	c.(421-423)TTA>ATA	p.L141I	DBF4_uc003ujh.1_5'UTR|DBF4_uc003ujg.1_5'UTR|DBF4_uc011khf.1_5'UTR	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	141					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				CAGAGGAAAATTATTAGTTGA	0.294													10	117					0	0	1	0	0		A	87516180	A	A	87516180	3	1	27	1	0	0	0	0	1	0	0	0	4251	1490	52	5	435	5	DBF4	7	87516180	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8716	87516180	71622483	3615	25966											
ADAM22	53616	broad.mit.edu	37	chr7	87760680	87760680	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctgaaaatccattgatcAccctacgtgagtttatgaaa	14	13	6	8	1	2	4	1	4	1	0	3	4	3	4	2	0	1	1	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:87760680A>G	uc003ujn.2	+	11	1001	c.922A>G	c.(922-924)ACC>GCC	p.T308A	ADAM22_uc003ujj.1_Missense_Mutation_p.T308A|ADAM22_uc003ujk.1_Missense_Mutation_p.T308A|ADAM22_uc003ujl.1_Missense_Mutation_p.T308A|ADAM22_uc003ujm.2_Missense_Mutation_p.T308A|ADAM22_uc003ujo.2_Missense_Mutation_p.T308A|ADAM22_uc003ujp.1_Missense_Mutation_p.T360A	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	308	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			TCCATTGATCACCCTACGTGA	0.368													6	59					0	0	1	0	0		G	87760680	G	G	87760680	3	3	27	1	0	0	0	0	1	0	0	0	244	159	6	3	964	3	ADAM22	7	87760680	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	244500	87760680	71377983	3616	25967											
ADAM22	53616	broad.mit.edu	37	chr7	87780325	87780325	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatattcataaaatggatggAtattcatgtgatggtgttca	14	15	9	3	0	3	1	3	1	0	0	3	3	3	3	0	3	0	1	0	3	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:87780325A>T	uc003ujn.2	+	19	1675	c.1596A>T	c.(1594-1596)GGA>GGT	p.G532G	ADAM22_uc003ujk.1_Silent_p.G532G|ADAM22_uc003ujl.1_Silent_p.G532G|ADAM22_uc003ujm.2_Silent_p.G532G|ADAM22_uc003ujo.2_Silent_p.G532G|ADAM22_uc003ujp.1_Silent_p.G584G	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	532	Cys-rich.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			AAATGGATGGATATTCATGTG	0.343													31	117					0	0	1	0	0		T	87780325	T	T	87780325	2	4	27	1	0	0	0	0	0	0	0	1	244	320	12	5		5	ADAM22	7	87780325	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19645	87780325	71358338	3617	25968											
STEAP4	79689	broad.mit.edu	37	chr7	87912203	87912203	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagtgctgttattggaaagAtacgatttggaatggaaata	15	13	11	2	1	0	1	0	0	0	1	0	5	0	4	0	3	2	2	0	3	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:87912203A>G	uc003ujs.2	-	3	842	c.737T>C	c.(736-738)ATC>ACC	p.I246T	STEAP4_uc010lek.2_Intron|STEAP4_uc003ujt.2_Missense_Mutation_p.I246T	NM_024636	NP_078912	Q687X5	STEA4_HUMAN	tumor necrosis factor, alpha-induced protein 9	246	Helical; (Potential).				fat cell differentiation|ion transport|iron ion homeostasis	Golgi membrane|integral to membrane|plasma membrane	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	Esophageal squamous(14;0.00802)					TATTGGAAAGATACGATTTGG	0.368													7	82					0	0	1	0	0		G	87912203	G	G	87912203	3	3	27	1	0	0	0	0	1	0	0	0	15305	333	12	3	654	3	STEAP4	7	87912203	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	131878	87912203	71226460	3618	25969											
MGC26647	219557	broad.mit.edu	37	chr7	88424168	88424168	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcttcttgaaagtgcaggTaattgctacgtgggacttgg	8	14	12	7	1	2	1	0	1	2	0	3	2	2	2	0	3	3	3	0	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:88424168T>C	uc003ujv.2	-	2	271	c.89A>G	c.(88-90)TAC>TGC	p.Y30C	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	30											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			AAAGTGCAGGTAATTGCTACG	0.418													15	148					0	0	1	0	0		C	88424168	C	C	88424168	3	2	27	1	0	0	0	0	1	0	0	0	9568	1638	57	3	676	3	MGC26647	7	88424168	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	511965	88424168	70714495	3619	25970											
ZNF804B	219578	broad.mit.edu	37	chr7	88847605	88847605	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttatgaccatgctcataAgcaggtaaggcaaagtggga	13	10	11	7	0	2	1	1	1	1	0	2	2	2	2	1	3	2	4	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:88847605A>C	uc011khi.1	+	2	783	c.245A>C	c.(244-246)AAG>ACG	p.K82T		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	82						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CATGCTCATAAGCAGGTAAGG	0.353										HNSCC(36;0.09)			7	90					0	0	1	0	0		C	88847605	C	C	88847605	3	2	27	1	0	0	0	0	1	0	0	0	18196	72	3	5	251	5	ZNF804B	7	88847605	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	423437	88847605	70291058	3620	25971											
STEAP2	261729	broad.mit.edu	37	chr7	89854552	89854552	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accattcgacttattagatgCggctatcatgtggtcatagg	10	13	10	8	2	2	1	2	0	0	1	3	2	2	1	1	3	1	1	1	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:89854552C>T	uc003ujz.2	+	2	549	c.156C>T	c.(154-156)TGC>TGT	p.C52C	STEAP2_uc003ujy.2_Silent_p.C94C|STEAP2_uc010len.2_Silent_p.C52C|STEAP2_uc003uka.2_Silent_p.C52C|STEAP2_uc003ukb.2_Silent_p.C52C|STEAP2_uc003ukc.2_Silent_p.C52C|STEAP2_uc003ukd.2_Silent_p.C52C	NM_152999	NP_694544	Q8NFT2	STEA2_HUMAN	six transmembrane epithelial antigen of the	52					electron transport chain|endocytosis|Golgi to plasma membrane transport|ion transport|iron ion homeostasis|regulated secretory pathway|response to hormone stimulus	cytosol|early endosome|endosome membrane|integral to Golgi membrane|plasma membrane|trans-Golgi network transport vesicle|vesicular fraction	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity|transporter activity			ovary(2)	2	all_hematologic(106;0.112)					TTATTAGATGCGGCTATCATG	0.393													14	61					0	0	1	0	0		T	89854552	T	T	89854552	2	4	27	1	0	0	0	0	0	0	0	1	15303	776	27	1		1	STEAP2	7	89854552	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1006947	89854552	69284111	3621	25972											
STEAP2	261729	broad.mit.edu	37	chr7	89856621	89856621	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatacctcgcaggtcttctgGcagctgcttatcaactttat	8	15	7	11	1	3	0	1	0	2	0	4	0	3	0	1	2	4	4	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:89856621G>T	uc003ujz.2	+	3	1222	c.829G>T	c.(829-831)GCA>TCA	p.A277S	STEAP2_uc003ujy.2_Missense_Mutation_p.A319S|STEAP2_uc010len.2_Missense_Mutation_p.A277S|STEAP2_uc003uka.2_Missense_Mutation_p.A277S|STEAP2_uc003ukb.2_Missense_Mutation_p.A277S|STEAP2_uc003ukc.2_Missense_Mutation_p.A277S|STEAP2_uc003ukd.2_Missense_Mutation_p.A277S	NM_152999	NP_694544	Q8NFT2	STEA2_HUMAN	six transmembrane epithelial antigen of the	277	Ferric oxidoreductase.|Helical; (Potential).				electron transport chain|endocytosis|Golgi to plasma membrane transport|ion transport|iron ion homeostasis|regulated secretory pathway|response to hormone stimulus	cytosol|early endosome|endosome membrane|integral to Golgi membrane|plasma membrane|trans-Golgi network transport vesicle|vesicular fraction	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity|transporter activity			ovary(2)	2	all_hematologic(106;0.112)					AGGTCTTCTGGCAGCTGCTTA	0.393													11	91					4.68919e-08	5.14072e-08	1	1	0		T	89856621	T	T	89856621	3	4	27	1	0	0	0	0	1	0	0	0	15303	1203	42	5	835	5	STEAP2	7	89856621	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2069	89856621	69282042	3622	25973											
GTPBP10	85865	broad.mit.edu	37	chr7	90014459	90014459	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttactacttccaaaatggaTataatttaaatatattaaaa	19	15	3	4	0	0	0	0	0	0	0	1	1	1	1	1	1	2	1	1	1	12	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:90014459T>C	uc003ukm.1	+	10	1221	c.1155T>C	c.(1153-1155)GAT>GAC	p.D385D	GTPBP10_uc003ukn.1_Silent_p.D306D|GTPBP10_uc003uko.1_Silent_p.D195D|CLDN12_uc003ukp.2_5'UTR|CLDN12_uc003ukq.2_5'UTR	NM_033107	NP_149098	A4D1E9	GTPBA_HUMAN	GTP-binding protein 10 isoform 2	385					ribosome biogenesis	chromosome|nucleolus	GTP binding|GTPase activity|magnesium ion binding				0						CCAAAATGGatataatttaaa	0.199													6	73					0	0	1	0	0		C	90014459	C	C	90014459	2	2	27	1	0	0	0	0	0	0	0	1	6895	1403	49	3		3	GTPBP10	7	90014459	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	157838	90014459	69124204	3623	25974											
CDK14	5218	broad.mit.edu	37	chr7	90356055	90356055	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcattctgagaacaatgctTgcattaactttaagacctcc	12	13	6	10	0	1	2	0	1	1	2	2	3	2	2	2	0	5	3	2	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:90356055T>C	uc003uky.2	+	3	520	c.298T>C	c.(298-300)TGC>CGC	p.C100R	CDK14_uc003ukt.1_Missense_Mutation_p.C54R|CDK14_uc003ukv.1_Missense_Mutation_p.C54R|CDK14_uc003uku.1_Missense_Mutation_p.C54R|CDK14_uc003ukx.1_Intron|CDK14_uc003ukz.1_Missense_Mutation_p.C82R|CDK14_uc010les.1_Missense_Mutation_p.C54R|CDK14_uc011khl.1_Silent_p.L2L	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	100					cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						GAACAATGCTTGCATTAACTT	0.448													7	66					0	0	1	0	0		C	90356055	C	C	90356055	3	2	27	1	0	0	0	0	1	0	0	0	3133	1812	63	3	250	3	CDK14	7	90356055	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	341596	90356055	68782608	3624	25975											
FZD1	8321	broad.mit.edu	37	chr7	90895161	90895161	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgcgcttctcgcgcacctgGattggcatttggtcagtgct	4	13	12	12	3	2	0	1	0	1	0	3	1	2	1	1	3	2	4	1	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:90895161G>A	uc003ula.2	+	1	1379	c.966G>A	c.(964-966)TGG>TGA	p.W322*		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	322	Extracellular (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			CGCGCACCTGGATTGGCATTT	0.627													4	81					0	0	1	0	0		A	90895161	A	A	90895161	4	1	27	1	0	0	0	0	0	1	0	0	6142	1183	41	4	968	4	FZD1	7	90895161	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	539106	90895161	68243502	3625	25976											
FZD1	8321	broad.mit.edu	37	chr7	90895558	90895558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acctggccgcctgggctgtgCcggccatcaagaccatcacc	7	6	11	17	2	2	1	2	0	0	1	2	1	2	1	7	3	1	1	7	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:90895558C>T	uc003ula.2	+	1	1776	c.1363C>T	c.(1363-1365)CCG>TCG	p.P455S		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	455	Helical; Name=4; (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			CTGGGCTGTGCCGGCCATCAA	0.637													11	74					0	0	1	0	0		T	90895558	T	T	90895558	3	4	27	1	0	0	0	0	1	0	0	0	6142	739	26	2	1365	2	FZD1	7	90895558	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	397	90895558	68243105	3626	25977											
MTERF	7978	broad.mit.edu	37	chr7	91503256	91503256	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctggcatagtcattggaAaggtctaggatttcagctcc	9	13	10	9	0	4	0	2	0	2	0	5	2	5	2	1	4	1	2	1	4	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:91503256A>G	uc003ulb.1	-	2	896	c.852T>C	c.(850-852)CTT>CTC	p.L284L	MTERF_uc010let.1_Intron|MTERF_uc003ulc.1_Silent_p.L284L|MTERF_uc011khm.1_Silent_p.L264L|MTERF_uc010leu.1_Silent_p.L264L	NM_006980	NP_008911	Q99551	MTERF_HUMAN	mitochondrial transcription termination factor	284					DNA geometric change|regulation of transcription, DNA-dependent|termination of mitochondrial transcription	mitochondrial nucleoid	double-stranded DNA binding				0	all_cancers(62;2.28e-09)|all_epithelial(64;1.07e-07)|Breast(17;0.00371)|all_hematologic(106;0.091)|all_lung(186;0.178)|Lung NSC(181;0.235)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.0993)|Kidney(17;0.118)|Epithelial(20;0.136)|LUSC - Lung squamous cell carcinoma(200;0.176)			AGTCATTGGAAAGGTCTAGGA	0.413													3	57					0	0	1	0	0		G	91503256	G	G	91503256	2	3	27	1	0	0	0	0	0	0	0	1	9936	1	1	3		3	MTERF	7	91503256	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	607698	91503256	67635407	3627	25978											
AKAP9	10142	broad.mit.edu	37	chr7	91708815	91708815	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgttaacgtggctatagaTcatctgagcaaagacaaacc	15	9	9	8	1	2	3	1	1	1	2	2	3	2	3	1	1	3	3	1	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:91708815T>A	uc003ulg.2	+	31	7593	c.7368T>A	c.(7366-7368)GAT>GAA	p.D2456E	AKAP9_uc003ulf.2_Missense_Mutation_p.D2448E|AKAP9_uc003uli.2_Missense_Mutation_p.D2079E|AKAP9_uc003ulj.2_Missense_Mutation_p.D226E	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2468	Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TGGCTATAGATCATCTGAGCA	0.363			T	BRAF	papillary thyroid								8	74					0	0	1	0	0		A	91708815	A	A	91708815	3	1	27	1	0	0	0	0	1	0	0	0	459	1432	50	5	7490	5	AKAP9	7	91708815	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	205559	91708815	67429848	3628	25979											
ANKIB1	54467	broad.mit.edu	37	chr7	92020590	92020590	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccttgtacagcagaagagGcaagaattcctggcatctgt	11	10	11	9	0	1	3	0	0	1	3	2	3	2	3	2	2	3	4	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:92020590G>A	uc003ulw.2	+	16	2539	c.2163G>A	c.(2161-2163)AGG>AGA	p.R721R	ANKIB1_uc010lew.1_Missense_Mutation_p.A8T	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	721							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AGCAGAAGAGGCAAGAATTCC	0.517													7	59					0	0	1	0	0		A	92020590	A	A	92020590	2	1	27	1	0	0	0	0	0	0	0	1	630	1194	42	2		2	ANKIB1	7	92020590	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	311775	92020590	67118073	3629	25980											
ANKIB1	54467	broad.mit.edu	37	chr7	92027890	92027890	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggccaggaccccaacatcaAtgacaatcttctcggcaaca	13	7	7	14	1	3	1	1	1	2	0	4	2	3	2	3	3	2	1	3	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:92027890A>G	uc003ulw.2	+	20	3273	c.2897A>G	c.(2896-2898)AAT>AGT	p.N966S	ANKIB1_uc010lew.1_Missense_Mutation_p.N235S	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	966							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CCCAACATCAATGACAATCTT	0.493													6	135					0	0	1	0	0		G	92027890	G	G	92027890	3	3	27	1	0	0	0	0	1	0	0	0	630	101	4	3	2971	3	ANKIB1	7	92027890	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7300	92027890	67110773	3630	25981											
PEX1	5189	broad.mit.edu	37	chr7	92129140	92129140	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtatgggcaagtttgcaaAtaattctggatactgagaaa	14	12	10	5	1	1	1	0	1	1	1	2	3	1	2	0	2	2	4	0	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:92129140A>C	uc003uly.2	-	16	2692	c.2596T>G	c.(2596-2598)TTT>GTT	p.F866V	PEX1_uc011khr.1_Missense_Mutation_p.F658V|PEX1_uc010ley.2_Missense_Mutation_p.F809V|PEX1_uc011khs.1_Missense_Mutation_p.F544V|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	866					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			AAGTTTGCAAATAATTCTGGA	0.363													6	82					0	0	1	0	0		C	92129140	C	C	92129140	3	2	27	1	0	0	0	0	1	0	0	0	11754	101	4	5	1291	5	PEX1	7	92129140	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	101250	92129140	67009523	3631	25982											
CDK6	1021	broad.mit.edu	37	chr7	92247520	92247520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctgggagtccaatcaCgctacaaaagaaccacacat	14	8	6	13	1	2	1	1	0	1	1	4	2	3	2	3	1	2	1	3	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:92247520C>T	uc011khw.1	-	7	1112	c.700G>A	c.(700-702)GTG>ATG	p.V234M	CDK6_uc010lez.2_Missense_Mutation_p.V234M	NM_001259	NP_001250	Q00534	CDK6_HUMAN	cyclin-dependent kinase 6	234	Protein kinase.				cell dedifferentiation|cell division|G1 phase of mitotic cell cycle|gliogenesis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|negative regulation of osteoblast differentiation|positive regulation of cell-matrix adhesion|positive regulation of fibroblast proliferation|regulation of erythrocyte differentiation|regulation of gene expression|response to virus	cyclin-dependent protein kinase holoenzyme complex|cytosol|nucleus|ruffle	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			central_nervous_system(1)|skin(1)	2	all_cancers(62;8.72e-12)|all_epithelial(64;3.65e-10)|Breast(17;0.000675)|all_lung(186;0.0392)|Lung NSC(181;0.053)|all_neural(327;0.219)|all_hematologic(106;0.237)		STAD - Stomach adenocarcinoma(4;6.16e-07)|GBM - Glioblastoma multiforme(5;1.2e-06)|all cancers(6;3.1e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			AGTCCAATCACGCTACAAAAG	0.443			T	MLLT10	ALL								6	53					0	0	1	0	0		T	92247520	T	T	92247520	3	4	27	1	0	0	0	0	1	0	0	0	3151	550	19	1	288	1	CDK6	7	92247520	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	118380	92247520	66891143	3632	25983											
CDK6	1021	broad.mit.edu	37	chr7	92404119	92404119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttggtttctctgtctgttCgtgacactgtgcacacatca	6	16	9	10	1	3	1	1	1	2	0	5	1	3	1	0	1	1	4	0	1	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:92404119C>T	uc011khw.1	-	3	672	c.260G>A	c.(259-261)CGA>CAA	p.R87Q	CDK6_uc010lez.2_Missense_Mutation_p.R87Q	NM_001259	NP_001250	Q00534	CDK6_HUMAN	cyclin-dependent kinase 6	87	Protein kinase.				cell dedifferentiation|cell division|G1 phase of mitotic cell cycle|gliogenesis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|negative regulation of osteoblast differentiation|positive regulation of cell-matrix adhesion|positive regulation of fibroblast proliferation|regulation of erythrocyte differentiation|regulation of gene expression|response to virus	cyclin-dependent protein kinase holoenzyme complex|cytosol|nucleus|ruffle	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			central_nervous_system(1)|skin(1)	2	all_cancers(62;8.72e-12)|all_epithelial(64;3.65e-10)|Breast(17;0.000675)|all_lung(186;0.0392)|Lung NSC(181;0.053)|all_neural(327;0.219)|all_hematologic(106;0.237)		STAD - Stomach adenocarcinoma(4;6.16e-07)|GBM - Glioblastoma multiforme(5;1.2e-06)|all cancers(6;3.1e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			TCTGTCTGTTCGTGACACTGT	0.398			T	MLLT10	ALL								7	51					0	0	1	0	0		T	92404119	T	T	92404119	3	4	27	1	0	0	0	0	1	0	0	0	3151	884	31	1	744	1	CDK6	7	92404119	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	156599	92404119	66734544	3633	25984											
SAMD9	54809	broad.mit.edu	37	chr7	92734465	92734465	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaaataatcatattggcAttcagagaactgtggaataa	16	11	9	5	0	2	1	2	0	0	1	2	4	2	3	0	3	1	1	0	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:92734465A>T	uc003umf.2	-	3	1202	c.946T>A	c.(946-948)TGC>AGC	p.C316S	SAMD9_uc003umg.2_Missense_Mutation_p.C316S	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	316						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			TCATATTGGCATTCAGAGAAC	0.353													8	73					0	0	1	0	0		T	92734465	T	T	92734465	3	4	27	1	0	0	0	0	1	0	0	0	13851	217	8	5	3827	5	SAMD9	7	92734465	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	330346	92734465	66404198	3634	25985											
SAMD9	54809	broad.mit.edu	37	chr7	92735292	92735292	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagactgctccattcacgTcttgttcagtcaaaatttcc	10	14	5	12	1	5	1	4	0	1	1	7	1	7	1	2	0	1	2	2	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:92735292T>C	uc003umf.2	-	3	375	c.119A>G	c.(118-120)GAC>GGC	p.D40G	SAMD9_uc003umg.2_Missense_Mutation_p.D40G	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	40	SAM.					cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			TCCATTCACGTCTTGTTCAGT	0.358													9	126					0	0	1	0	0		C	92735292	C	C	92735292	3	2	27	1	0	0	0	0	1	0	0	0	13851	1667	58	3	4654	3	SAMD9	7	92735292	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	827	92735292	66403371	3635	25986											
SAMD9L	219285	broad.mit.edu	37	chr7	92760589	92760589	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaatcctaggtagaaagAcactctttctatgttcctac	13	12	7	9	0	2	2	0	0	2	2	4	3	4	3	2	2	1	2	2	2	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:92760589A>G	uc003umh.1	-	5	5912	c.4696T>C	c.(4696-4698)TCT>CCT	p.S1566P	SAMD9L_uc003umj.1_Missense_Mutation_p.S1566P|SAMD9L_uc003umi.1_Missense_Mutation_p.S1566P|SAMD9L_uc010lfb.1_Missense_Mutation_p.S1566P|SAMD9L_uc003umk.1_Missense_Mutation_p.S1566P|SAMD9L_uc010lfc.1_Missense_Mutation_p.S1566P|SAMD9L_uc010lfd.1_Missense_Mutation_p.S1566P|SAMD9L_uc011khx.1_3'UTR	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1566										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			AGGTAGAAAGACACTCTTTCT	0.338													6	55					0	0	1	0	0		G	92760589	G	G	92760589	3	3	27	1	0	0	0	0	1	0	0	0	13852	275	10	3	62	3	SAMD9L	7	92760589	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	25297	92760589	66378074	3636	25987											
GNGT1	2792	broad.mit.edu	37	chr7	93540172	93540172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgaggatccactggtaaaggGcatcccagaggacaaaaatc	15	5	11	10	1	0	1	0	0	0	1	3	4	2	3	2	4	0	2	2	4	4	1	rs138254553		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:93540172G>A	uc003unc.1	+	3	315	c.167G>A	c.(166-168)GGC>GAC	p.G56D	GNGT1_uc003umx.1_RNA	NM_021955	NP_068774	P63211	GBG1_HUMAN	guanine nucleotide binding protein (G protein),	56					G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	GTPase activity|signal transducer activity				0	all_cancers(62;2.39e-10)|all_epithelial(64;1.54e-09)|Lung NSC(181;0.218)		STAD - Stomach adenocarcinoma(171;0.000967)			CTGGTAAAGGGCATCCCAGAG	0.383													6	70					0	0	1	0	0		A	93540172	A	A	93540172	3	1	27	1	0	0	0	0	1	0	0	0	6548	1203	42	2	173	2	GNGT1	7	93540172	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	779583	93540172	65598491	3637	25988											
COL1A2	1278	broad.mit.edu	37	chr7	94057608	94057608	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttattttcttaaaaggttActactggattgaccctaacc	11	16	6	8	0	1	1	0	1	1	0	1	2	1	2	2	2	3	2	2	2	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:94057608A>G	uc003ung.1	+	50	4001	c.3530A>G	c.(3529-3531)TAC>TGC	p.Y1177C	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1177	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TTAAAAGGTTACTACTGGATT	0.373										HNSCC(75;0.22)			4	113					0	0	1	0	0		G	94057608	G	G	94057608	3	3	27	1	0	0	0	0	1	0	0	0	3681	391	14	3	3728	3	COL1A2	7	94057608	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	517436	94057608	65081055	3638	25989											
CASD1	64921	broad.mit.edu	37	chr7	94146970	94146970	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcataaatacaaaatcaggTaacatttcttcattttgttg	14	16	5	6	0	3	0	2	0	1	0	3	0	3	0	0	1	3	3	0	1	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:94146970T>C	uc003uni.3	+	2	457	c.230_splice	c.e2+2	p.S77_splice	CASD1_uc003unh.2_Splice_Site_p.S77_splice|CASD1_uc003unj.3_Splice_Site_p.S77_splice	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor							integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			CAAAATCAGGTAACATTTCTT	0.383													4	56					0	0	1	0	0		C	94146970	C	C	94146970	5	2	27	1	0	0	0	0	0	0	1	0	2667	1652	57	3	238	3	CASD1	7	94146970	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	89362	94146970	64991693	3639	25990											
PPP1R9A	55607	broad.mit.edu	37	chr7	94827660	94827660	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgttaacctttccacaGatttgttattgggcgggaaa	9	16	9	7	1	1	1	0	0	1	1	2	2	2	2	2	2	1	2	2	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:94827660G>T	uc003unp.2	+	6	2037	c.1755_splice	c.e6-1	p.R585_splice	PPP1R9A_uc010lfj.2_Splice_Site_p.R585_splice|PPP1R9A_uc011kif.1_Splice_Site_p.R585_splice|PPP1R9A_uc003unq.2_Splice_Site_p.R585_splice|PPP1R9A_uc011kig.1_Splice_Site_p.R585_splice	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)							cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			cctttccACAGATTTGTTATT	0.274										HNSCC(28;0.073)			7	66					0.00198382	0.00205548	1	1	0		T	94827660	T	T	94827660	5	4	27	1	0	0	0	0	0	0	1	0	12400	956	33	5	1772	5	PPP1R9A	7	94827660	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	680690	94827660	64311003	3640	25991											
PPP1R9A	55607	broad.mit.edu	37	chr7	94879417	94879417	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagagaataaggAaagaatgttgaagttggaaa	22	7	11	1	0	0	4	0	1	0	3	0	7	0	6	0	2	1	2	0	2	9	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:94879417A>G	uc003unp.2	+	9	2462	c.2180A>G	c.(2179-2181)GAA>GGA	p.E727G	PPP1R9A_uc010lfj.2_Missense_Mutation_p.E749G|PPP1R9A_uc011kif.1_Missense_Mutation_p.E727G|PPP1R9A_uc003unq.2_Missense_Mutation_p.E727G|PPP1R9A_uc011kig.1_Missense_Mutation_p.E727G	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	727	Interacts with TGN38 (By similarity).|Potential.					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			GAGAATAAGGAAAGAATGTTG	0.433										HNSCC(28;0.073)			3	52					0	0	1	0	0		G	94879417	G	G	94879417	3	3	27	1	0	0	0	0	1	0	0	0	12400	246	9	3	2280	3	PPP1R9A	7	94879417	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	51757	94879417	64259246	3641	25992											
PON1	5444	broad.mit.edu	37	chr7	94944662	94944662	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaatgtgctaatcccatgAgggttaaatgaagatacatc	14	11	10	6	0	0	4	0	3	0	1	2	4	1	4	1	1	2	2	1	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:94944662A>C	uc003uns.2	-	4	439	c.342T>G	c.(340-342)CCT>CCG	p.P114P	PON1_uc011kih.1_Silent_p.P114P	NM_000446	NP_000437	P27169	PON1_HUMAN	paraoxonase 1 precursor	114					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	TAATCCCATGAGGGTTAAATG	0.333													5	51					0	0	1	0	0		C	94944662	C	C	94944662	2	2	27	1	0	0	0	0	0	0	0	1	12267	291	11	5		5	PON1	7	94944662	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	65245	94944662	64194001	3642	25993											
PON1	5444	broad.mit.edu	37	chr7	95025597	95025597	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccactcacctaaacgcCaggaacatctccccgactaa	13	6	6	16	2	2	0	1	0	1	0	3	3	2	1	5	1	3	0	5	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:95025597C>G	uc011kih.1	-	1	91	c.66G>C	c.(64-66)CTG>CTC	p.L22L	PON3_uc003unt.2_Silent_p.L22L|PON3_uc011kii.1_Silent_p.L22L			P27169	PON1_HUMAN	SubName: Full=cDNA FLJ57644, highly similar to Serum paraoxonase/arylesterase 1 (EC 3.1.1.2);	22					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	ACCTAAACGCCAGGAACATCT	0.657													7	92					0	0	1	0	0		G	95025597	G	G	95025597	2	3	27	1	0	0	0	0	0	0	0	1	12267	581	21	5		5	PON1	7	95025597	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	80935	95025597	64113066	3643	25994											
SLC25A13	10165	broad.mit.edu	37	chr7	95813609	95813609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctctatacagtccaaagaagCcttcatagcgtagcactttc	12	11	6	12	1	2	1	1	0	1	1	4	1	3	1	2	0	4	2	2	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:95813609C>T	uc003uof.3	-	11	1348	c.1157G>A	c.(1156-1158)GGC>GAC	p.G386D	SLC25A13_uc003uog.3_Missense_Mutation_p.G387D|SLC25A13_uc011kik.1_Missense_Mutation_p.G278D	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	386	Solcar 1.				ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	TCCAAAGAAGCCTTCATAGCG	0.398													7	85					0	0	1	0	0		T	95813609	T	T	95813609	3	4	27	1	0	0	0	0	1	0	0	0	14500	739	26	2	902	2	SLC25A13	7	95813609	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	788012	95813609	63325054	3644	25995											
SLC25A13	10165	broad.mit.edu	37	chr7	95814285	95814285	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtaggccgactctgcaacTtgtagaagaactggtcgagc	10	9	12	10	2	1	2	0	0	1	2	2	4	1	2	1	2	4	3	1	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:95814285T>C	uc003uof.3	-	10	1163	c.972A>G	c.(970-972)CAA>CAG	p.Q324Q	SLC25A13_uc003uog.3_Silent_p.Q325Q|SLC25A13_uc011kik.1_Silent_p.Q216Q	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	324					ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	ACTCTGCAACTTGTAGAAGAA	0.433													8	84					0	0	1	0	0		C	95814285	C	C	95814285	2	2	27	1	0	0	0	0	0	0	0	1	14500	1606	56	3		3	SLC25A13	7	95814285	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	676	95814285	63324378	3645	25996											
DLX6	1750	broad.mit.edu	37	chr7	96639170	96639170	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgaagcagggcagtaaTcctcatgagagcgaccccct	10	7	11	13	1	1	2	1	2	0	1	2	4	2	2	3	1	3	4	3	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:96639170T>A	uc003uom.2	+	4	609	c.609T>A	c.(607-609)AAT>AAA	p.N203K	DLX6AS_uc003uol.2_Intron|DLX6AS_uc010lfo.1_Intron	NM_005222	NP_005213	P56179	DLX6_HUMAN	distal-less homeobox 6	113					nervous system development|skeletal system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					AGGGCAGTAATCCTCATGAGA	0.552													16	65					0	0	1	0	0		A	96639170	A	A	96639170	3	1	27	1	0	0	0	0	1	0	0	0	4581	1432	50	5	703	5	DLX6	7	96639170	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	824885	96639170	62499493	3646	25997											
ASNS	440	broad.mit.edu	37	chr7	97498452	97498452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcatcactgccaaacagcGcccaaatgccacacatggtg	14	6	7	14	1	2	0	2	0	0	0	2	0	2	0	3	1	4	0	3	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:97498452G>A	uc003uot.3	-	3	523	c.17C>T	c.(16-18)GCG>GTG	p.A6V	ASNS_uc011kin.1_Intron|ASNS_uc003uou.3_Missense_Mutation_p.A6V|ASNS_uc003uov.3_Missense_Mutation_p.A6V|ASNS_uc011kio.1_Intron|ASNS_uc003uow.3_Intron|ASNS_uc003uox.3_Intron	NM_133436	NP_597680	P08243	ASNS_HUMAN	asparagine synthetase	6	Glutamine amidotransferase type-2.				cellular response to glucose starvation|glutamine metabolic process|negative regulation of apoptosis|positive regulation of mitotic cell cycle	cytosol|soluble fraction	asparagine synthase (glutamine-hydrolyzing) activity|ATP binding			ovary(1)	1	all_cancers(62;6.64e-09)|all_epithelial(64;1.58e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0342)|all_lung(186;0.0369)				Adenosine triphosphate(DB00171)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GCCAAACAGCGCCCAAATGCC	0.408													9	42					0	0	1	0	0		A	97498452	A	A	97498452	3	1	27	1	0	0	0	0	1	0	0	0	1049	1087	38	1	1712	1	ASNS	7	97498452	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	859282	97498452	61640211	3647	25998											
LMTK2	22853	broad.mit.edu	37	chr7	97766717	97766717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagtgttaattgcaaactGtgtatcctgctgtaaggacc	12	13	9	7	0	0	0	0	0	0	0	1	1	1	1	2	1	3	5	2	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:97766717G>A	uc003upd.1	+	2	487	c.194G>A	c.(193-195)TGT>TAT	p.C65Y		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	65					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					ATTGCAAACTGTGTATCCTGC	0.398													4	50					0	0	1	0	0		A	97766717	A	A	97766717	3	1	27	1	0	0	0	0	1	0	0	0	8876	1377	48	4	200	4	LMTK2	7	97766717	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	268265	97766717	61371946	3648	25999											
LMTK2	22853	broad.mit.edu	37	chr7	97823866	97823866	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtttttcgatgatgtcacAgtctacctgtttgaccaggt	8	15	9	9	2	2	2	1	2	1	0	3	3	2	2	2	1	1	2	2	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:97823866A>G	uc003upd.1	+	11	4382	c.4089A>G	c.(4087-4089)ACA>ACG	p.T1363T		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	1363					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					ATGATGTCACAGTCTACCTGT	0.473													4	48					0	0	1	0	0		G	97823866	G	G	97823866	2	3	27	1	0	0	0	0	0	0	0	1	8876	175	7	3		3	LMTK2	7	97823866	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	57149	97823866	61314797	3649	26000											
TECPR1	25851	broad.mit.edu	37	chr7	97860361	97860361	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccttgcaggtgatggaccAgatggcctgcggggacgggc	6	6	17	12	2	0	2	0	1	0	1	0	4	0	4	4	6	2	1	4	6	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:97860361A>G	uc003upg.2	-	15	2399	c.2194T>C	c.(2194-2196)TGG>CGG	p.W732R	TECPR1_uc003uph.1_Missense_Mutation_p.W662R	NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	732	TECPR 5.					integral to membrane	protein binding			pancreas(1)	1						GTGATGGACCAGATGGCCTGC	0.677													4	20					0	0	1	0	0		G	97860361	G	G	97860361	3	3	27	1	0	0	0	0	1	0	0	0	15768	188	7	3	1351	3	TECPR1	7	97860361	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	36495	97860361	61278302	3650	26001											
TRRAP	8295	broad.mit.edu	37	chr7	98513399	98513399	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctcgcgcagactgccaaGgaaccctacaactacttctt	11	8	8	14	2	1	1	0	0	1	1	2	3	1	2	2	1	6	2	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:98513399G>T	uc003upp.2	+	19	2462	c.2253G>T	c.(2251-2253)AAG>AAT	p.K751N	TRRAP_uc011kis.1_Missense_Mutation_p.K751N|TRRAP_uc003upr.2_Missense_Mutation_p.K443N	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	751					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			AGACTGCCAAGGAACCCTACA	0.527													6	98					0.00198382	0.00205548	1	1	0		T	98513399	T	T	98513399	3	4	27	1	0	0	0	0	1	0	0	0	16627	991	35	5	2323	5	TRRAP	7	98513399	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	653038	98513399	60625264	3651	26002											
TRRAP	8295	broad.mit.edu	37	chr7	98530903	98530903	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctaagaagcacctgctcCgacaccagcctgccaacgca	11	4	7	19	2	0	1	0	0	0	1	1	2	1	1	7	0	5	3	7	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:98530903C>A	uc003upp.2	+	27	4101	c.3892C>A	c.(3892-3894)CGA>AGA	p.R1298R	TRRAP_uc011kis.1_Silent_p.R1298R|TRRAP_uc003upr.2_Silent_p.R990R	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1298					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GCACCTGCTCCGACACCAGCC	0.572													5	23					1.23904e-05	1.32877e-05	1	1	0		A	98530903	A	A	98530903	2	1	27	1	0	0	0	0	0	0	0	1	16627	644	23	5		5	TRRAP	7	98530903	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17504	98530903	60607760	3652	26003											
TRRAP	8295	broad.mit.edu	37	chr7	98533266	98533266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgttataaaagccttcCgtcactcgtacctttacgaa	10	12	6	13	3	1	0	1	0	0	0	3	1	2	0	4	0	3	2	4	0	6	6	rs139426093		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:98533266C>T	uc003upp.2	+	28	4288	c.4079C>T	c.(4078-4080)CCG>CTG	p.P1360L	TRRAP_uc011kis.1_Missense_Mutation_p.P1360L|TRRAP_uc003upr.2_Missense_Mutation_p.P1052L	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1360					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			AAAAGCCTTCCGTCACTCGTA	0.388													4	46					0	0	1	0	0		T	98533266	T	T	98533266	3	4	27	1	0	0	0	0	1	0	0	0	16627	652	23	1	4185	1	TRRAP	7	98533266	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2363	98533266	60605397	3653	26004											
TRRAP	8295	broad.mit.edu	37	chr7	98535356	98535356	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgctgggagattaccggagCttgacgctgaatgttgtgaa	10	11	14	6	2	0	4	0	3	0	1	0	6	0	5	1	2	3	4	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:98535356C>T	uc003upp.2	+	30	4526	c.4317C>T	c.(4315-4317)AGC>AGT	p.S1439S	TRRAP_uc011kis.1_Silent_p.S1439S|TRRAP_uc003upr.2_Silent_p.S1131S	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1439					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			ATTACCGGAGCTTGACGCTGA	0.418													18	48					0	0	1	0	0		T	98535356	T	T	98535356	2	4	27	1	0	0	0	0	0	0	0	1	16627	796	28	2		2	TRRAP	7	98535356	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2090	98535356	60603307	3654	26005											
SMURF1	57154	broad.mit.edu	37	chr7	98655120	98655120	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctccctgtttcttgtgAattttcttatggttccacac	6	17	6	12	0	2	1	0	1	2	0	4	1	4	1	3	1	1	3	3	1	2	6	rs150079661		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:98655120A>T	uc003upu.1	-	4	578	c.258T>A	c.(256-258)ATT>ATA	p.I86I	SMURF1_uc003upv.1_Silent_p.I86I|SMURF1_uc003upt.2_Silent_p.I86I	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	86	C2.				BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			GTTTCTTGTGAATTTTCTTAT	0.413													8	55					0	0	1	0	0		T	98655120	T	T	98655120	2	4	27	1	0	0	0	0	0	0	0	1	14844	242	9	5		5	SMURF1	7	98655120	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	119764	98655120	60483543	3655	26006											
PDAP1	11333	broad.mit.edu	37	chr7	99002518	99002518	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcagcctgcagctgcgcGtcgatctcctcagggcttgt	4	12	11	14	3	3	0	2	0	2	0	6	1	3	0	2	1	4	3	2	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99002518G>A	uc003uqe.2	-	2	193	c.72C>T	c.(70-72)GAC>GAT	p.D24D		NM_014891	NP_055706	Q13442	HAP28_HUMAN	PDGFA associated protein 1	24					cell proliferation|signal transduction						0	all_cancers(62;3.49e-09)|all_epithelial(64;2.57e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)		Becaplermin(DB00102)	GCAGCTGCGCGTCGATCTCCT	0.607													5	50					0	0	1	0	0		A	99002518	A	A	99002518	2	1	27	1	0	0	0	0	0	0	0	1	11632	1136	40	1		1	PDAP1	7	99002518	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	347398	99002518	60136145	3656	26007											
PTCD1	26024	broad.mit.edu	37	chr7	99022974	99022974	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctggaggcccaagtgccTgagaaggttccagaaacagc	11	6	13	11	0	1	2	0	1	1	2	2	4	2	3	3	3	3	2	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99022974T>C	uc003uqh.2	-	6	1312	c.1181A>G	c.(1180-1182)CAG>CGG	p.Q394R	PTCD1_uc011kiw.1_Missense_Mutation_p.Q443R	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	394										ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			CCCAAGTGCCTGAGAAGGTTC	0.637													9	99					0	0	1	0	0		C	99022974	C	C	99022974	3	2	27	1	0	0	0	0	1	0	0	0	12749	1580	55	3	933	3	PTCD1	7	99022974	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20456	99022974	60115689	3657	26008											
ZNF789	285989	broad.mit.edu	37	chr7	99084466	99084466	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaatgtggaaaagtcattagGcgtaaggcatggtttgatca	13	11	13	4	1	2	1	2	1	0	0	2	3	2	2	0	4	0	3	0	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99084466G>A	uc003uqq.1	+	5	852	c.633G>A	c.(631-633)AGG>AGA	p.R211R	ZNF789_uc010lfw.1_Silent_p.R116R|ZNF789_uc003uqr.1_Silent_p.R153R	NM_213603	NP_998768	Q5FWF6	ZN789_HUMAN	zinc finger protein 789 isoform 1	211	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					AAGTCATTAGGCGTAAGGCAT	0.418													9	98					0	0	1	0	0		A	99084466	A	A	99084466	2	1	27	1	0	0	0	0	0	0	0	1	18185	1194	42	2		2	ZNF789	7	99084466	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	61492	99084466	60054197	3658	26009											
ZNF394	84124	broad.mit.edu	37	chr7	99092051	99092051	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgagatgctgttgagtcCttctgcttcaggagaatttt	8	16	10	7	0	3	3	1	2	2	2	4	5	4	3	1	1	2	3	1	1	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99092051C>A	uc003uqs.2	-	3	948	c.787G>T	c.(787-789)GGA>TGA	p.G263*	ZNF394_uc003uqt.2_Nonsense_Mutation_p.G56*	NM_032164	NP_115540	Q53GI3	ZN394_HUMAN	zinc finger protein 394	263					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					CTGTTGAGTCCTTCTGCTTCA	0.468													13	141					7.93312e-07	8.61692e-07	1	1	0		A	99092051	A	A	99092051	4	1	27	1	0	0	0	0	0	1	0	0	17905	690	24	5	902	5	ZNF394	7	99092051	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7585	99092051	60046612	3659	26010											
ZKSCAN5	23660	broad.mit.edu	37	chr7	99123562	99123562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagactttgcagaagtcaGtgaccttaaaggcatggtac	12	10	10	9	0	1	3	1	1	0	2	2	3	2	3	2	2	2	3	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99123562G>A	uc003uqv.2	+	6	1023	c.899G>A	c.(898-900)AGT>AAT	p.S300N	ZKSCAN5_uc010lfx.2_Missense_Mutation_p.S300N|ZKSCAN5_uc003uqw.2_Missense_Mutation_p.S300N|ZKSCAN5_uc003uqx.2_Missense_Mutation_p.S227N|ZKSCAN5_uc003uqy.2_Missense_Mutation_p.S36N	NM_145102	NP_659570	Q9Y2L8	ZKSC5_HUMAN	zinc finger with KRAB and SCAN domains 5	300					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					GCAGAAGTCAGTGACCTTAAA	0.502													4	87					0	0	1	0	0		A	99123562	A	A	99123562	3	1	27	1	0	0	0	0	1	0	0	0	17715	1029	36	4	917	4	ZKSCAN5	7	99123562	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31511	99123562	60015101	3660	26011											
ZKSCAN5	23660	broad.mit.edu	37	chr7	99129621	99129621	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagagaaaatgttggccagTgttcccacaccaaacaacat	15	8	8	10	0	0	1	0	0	0	1	1	2	1	1	3	1	2	3	3	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99129621T>C	uc003uqv.2	+	7	2393	c.2269T>C	c.(2269-2271)TGT>CGT	p.C757R	ZKSCAN5_uc010lfx.2_Missense_Mutation_p.C757R|ZKSCAN5_uc003uqw.2_Missense_Mutation_p.C757R|ZKSCAN5_uc003uqx.2_Missense_Mutation_p.C684R|ZKSCAN5_uc003uqy.2_Missense_Mutation_p.C493R	NM_145102	NP_659570	Q9Y2L8	ZKSC5_HUMAN	zinc finger with KRAB and SCAN domains 5	757	C2H2-type 11; atypical.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					TGTTGGCCAGTGTTCCCACAC	0.403													10	92					0	0	1	0	0		C	99129621	C	C	99129621	3	2	27	1	0	0	0	0	1	0	0	0	17715	1696	59	3	2291	3	ZKSCAN5	7	99129621	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6059	99129621	60009042	3661	26012											
ZNF498	221785	broad.mit.edu	37	chr7	99227533	99227533	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccgacaccagagaatccatAcaggggagaagccctaccac	14	4	9	14	1	0	2	0	0	0	2	2	5	2	2	5	2	3	0	5	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99227533A>G	uc003url.1	+	8	1852	c.1525A>G	c.(1525-1527)ACA>GCA	p.T509A	ZNF498_uc003urm.1_Missense_Mutation_p.T345A|ZNF498_uc010lge.1_Missense_Mutation_p.T345A|ZNF498_uc003urn.2_Intron|ZNF498_uc010lgf.1_Missense_Mutation_p.T437A|ZNF498_uc003uro.1_Missense_Mutation_p.T293A	NM_145115	NP_660090	Q6NSZ9	ZN498_HUMAN	zinc finger and SCAN domain containing 25	509					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_epithelial(64;1.95e-08)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					GAGAATCCATACAGGGGAGAA	0.642													4	28					0	0	1	0	0		G	99227533	G	G	99227533	3	3	27	1	0	0	0	0	1	0	0	0	17972	391	14	3	1543	3	ZNF498	7	99227533	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	97912	99227533	59911130	3662	26013											
CYP3A4	1576	broad.mit.edu	37	chr7	99366086	99366086	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgatgttcactccaaatgaTgtgctagtgatcacatccat	11	13	7	10	1	2	2	2	2	0	0	5	3	4	2	2	0	1	2	2	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99366086T>C	uc003urv.1	-	7	665	c.561A>G	c.(559-561)ACA>ACG	p.T187T	CYP3A4_uc003urw.1_Silent_p.T187T|CYP3A4_uc011kiz.1_Silent_p.T146T|CYP3A4_uc011kja.1_Silent_p.T138T|CYP3A4_uc011kjb.1_Silent_p.T37T	NM_017460	NP_059488	P08684	CP3A4_HUMAN	cytochrome P450, family 3, subfamily A,	187				T -> S (in Ref. 1; BAA00001/AAA35742).	alkaloid catabolic process|androgen metabolic process|exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|oxidative demethylation|steroid catabolic process|xenobiotic metabolic process	cell surface|endoplasmic reticulum membrane|integral to membrane|microsome	albendazole monooxygenase activity|caffeine oxidase activity|electron carrier activity|enzyme binding|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen|oxygen binding|quinine 3-monooxygenase activity|steroid binding|taurochenodeoxycholate 6alpha-hydroxylase activity|testosterone 6-beta-hydroxylase activity|vitamin D 24-hydroxylase activity|vitamin D3 25-hydroxylase activity			central_nervous_system(3)|ovary(1)	4	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)				Albendazole(DB00518)|Alclometasone(DB00240)|Alfentanil(DB00802)|Alfuzosin(DB00346)|Aliskiren(DB01258)|Almotriptan(DB00918)|Alosetron(DB00969)|Alprazolam(DB00404)|Amlodipine(DB00381)|Amprenavir(DB00701)|Aprepitant(DB00673)|Aripiprazole(DB01238)|Astemizole(DB00637)|Atazanavir(DB01072)|Atorvastatin(DB01076)|Benazepril(DB00542)|Bepridil(DB01244)|Betamethasone(DB00443)|Bexarotene(DB00307)|Bortezomib(DB00188)|Bosentan(DB00559)|Bromocriptine(DB01200)|Budesonide(DB01222)|Bupivacaine(DB00297)|Buprenorphine(DB00921)|Buspirone(DB00490)|Busulfan(DB01008)|Carbamazepine(DB00564)|Cevimeline(DB00185)|Chlorpheniramine(DB01114)|Ciclesonide(DB01410)|Cilostazol(DB01166)|Cinacalcet(DB01012)|Cisapride(DB00604)|Clarithromycin(DB01211)|Clindamycin(DB01190)|Clofibrate(DB00636)|Clonazepam(DB01068)|Clopidogrel(DB00758)|Cocaine(DB00907)|Conivaptan(DB00872)|Conjugated Estrogens(DB00286)|Cyproterone(DB04839)|Darifenacin(DB00496)|Darunavir(DB01264)|Dasatinib(DB01254)|Delavirdine(DB00705)|Desogestrel(DB00304)|Dexamethasone(DB01234)|Diazepam(DB00829)|Dihydroergotamine(DB00320)|Diltiazem(DB00343)|Diphenhydramine(DB01075)|Disopyramide(DB00280)|Dofetilide(DB00204)|Dolasetron(DB00757)|Domperidone(DB01184)|Donepezil(DB00843)|Doxorubicin(DB00997)|Drospirenone(DB01395)|Dutasteride(DB01126)|Efavirenz(DB00625)|Eletriptan(DB00216)|Enalapril(DB00584)|Epirubicin(DB00445)|Eplerenone(DB00700)|Ergotamine(DB00696)|Erlotinib(DB00530)|Erythromycin(DB00199)|Escitalopram(DB01175)|Esomeprazole(DB00736)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethinyl Estradiol(DB00977)|Ethosuximide(DB00593)|Etonogestrel(DB00294)|Etoposide(DB00773)|Etoricoxib(DB01628)|Exemestane(DB00990)|Felodipine(DB01023)|Fentanyl(DB00813)|Fexofenadine(DB00950)|Finasteride(DB01216)|Fluconazole(DB00196)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Fosamprenavir(DB01319)|Fulvestrant(DB00947)|Galantamine(DB00674)|Gefitinib(DB00317)|Gemfibrozil(DB01241)|Granisetron(DB00889)|Grepafloxacin(DB00365)|Halofantrine(DB01218)|Hydrocodone(DB00956)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Hydromorphone(DB00327)|Imatinib(DB00619)|Indinavir(DB00224)|Ipratropium(DB00332)|Irinotecan(DB00762)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Isradipine(DB00270)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Lercanidipine(DB00528)|Letrozole(DB01006)|Levobupivacaine(DB01002)|Levomethadyl Acetate(DB01227)|Levothyroxine(DB00451)|Lomustine(DB01206)|Loperamide(DB00836)|Lopinavir(DB01601)|Loratadine(DB00455)|Losartan(DB00678)|Lovastatin(DB00227)|Maraviroc(DB04835)|Marinol(DB00470)|Mebendazole(DB00643)|Medroxyprogesterone(DB00603)|Methadone(DB00333)|Methylprednisolone(DB00959)|Metyrapone(DB01011)|Mibefradil(DB01388)|Midazolam(DB00683)|Mifepristone(DB00834)|Mirtazapine(DB00370)|Modafinil(DB00745)|Mometasone(DB00764)|Montelukast(DB00471)|Nateglinide(DB00731)|Nefazodone(DB01149)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Norethindrone(DB00717)|Norgestrel(DB00506)|Nystatin(DB00646)|Ondansetron(DB00904)|Oxybutynin(DB01062)|Paclitaxel(DB01229)|Paliperidone(DB01267)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Paricalcitol(DB00910)|Phenmetrazine(DB00830)|Pimecrolimus(DB00337)|Pimozide(DB01100)|Pioglitazone(DB01132)|Posaconazole(DB01263)|Pranlukast(DB01411)|Prednisolone(DB00860)|Prednisone(DB00635)|Prochlorperazine(DB00433)|Quetiapine(DB01224)|Quinapril(DB00881)|Quinine(DB00468)|Rabeprazole(DB01129)|Ranolazine(DB00243)|Reboxetine(DB00234)|Retapamulin(DB01256)|Rifabutin(DB00615)|Rifampin(DB01045)|Rimonabant(DB06155)|Ritonavir(DB00503)|Rofecoxib(DB00533)|Roxithromycin(DB00778)|Salmeterol(DB00938)|Saquinavir(DB01232)|Sertindole(DB06144)|Sibutramine(DB01105)|Simvastatin(DB00641)|Sirolimus(DB00877)|Sitagliptin(DB01261)|Solifenacin(DB01591)|Sorafenib(DB00398)|Sunitinib(DB01268)|Tacrolimus(DB00864)|Tadalafil(DB00820)|Tamoxifen(DB00675)|Telithromycin(DB00976)|Terconazole(DB00251)|Terfenadine(DB00342)|Testosterone(DB00624)|Tiagabine(DB00906)|Ticlopidine(DB00208)|Tinidazole(DB00911)|Tiotropium(DB01409)|Tipranavir(DB00932)|Toremifene(DB00539)|Triazolam(DB00897)|Trimetrexate(DB01157)|Troglitazone(DB00197)|Valdecoxib(DB00580)|Vardenafil(DB00862)|Vinblastine(DB00570)|Vincristine(DB00541)|Vindesine(DB00309)|Vinorelbine(DB00361)|Voriconazole(DB00582)|Zaleplon(DB00962)|Zileuton(DB00744)|Ziprasidone(DB00246)|Zolpidem(DB00425)|Zonisamide(DB00909)	CTCCAAATGATGTGCTAGTGA	0.413													6	88					0	0	1	0	0		C	99366086	C	C	99366086	2	2	27	1	0	0	0	0	0	0	0	1	4181	1451	51	3		3	CYP3A4	7	99366086	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	138553	99366086	59772577	3663	26014											
TRIM4	89122	broad.mit.edu	37	chr7	99490087	99490087	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgatcagtaattcccatgAcgtcctcccgacacacccca	12	7	5	17	3	1	1	1	1	0	0	4	3	4	1	5	0	1	1	5	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99490087A>C	uc003usd.2	-	7	1332	c.1202T>G	c.(1201-1203)GTC>GGC	p.V401G	TRIM4_uc003use.2_Missense_Mutation_p.V375G|TRIM4_uc011kjc.1_Missense_Mutation_p.V231G	NM_033017	NP_148977	Q9C037	TRIM4_HUMAN	tripartite motif protein TRIM4 isoform alpha	401	B30.2/SPRY.				protein trimerization	cytoplasm|plasma membrane	zinc ion binding			ovary(1)|kidney(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)	Ovarian(593;0.238)				AATTCCCATGACGTCCTCCCG	0.493													4	184					0	0	1	0	0		C	99490087	C	C	99490087	3	2	27	1	0	0	0	0	1	0	0	0	16540	275	10	5	304	5	TRIM4	7	99490087	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	124001	99490087	59648576	3664	26015											
GJC3	349149	broad.mit.edu	37	chr7	99526644	99526644	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtaaacaagagacagaaAccgctgactccaaacatggt	19	5	8	9	1	0	3	0	1	0	2	1	4	1	3	2	1	3	2	2	1	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99526644A>C	uc011kjd.1	-	1	600	c.600T>G	c.(598-600)GGT>GGG	p.G200G		NM_181538	NP_853516	Q8NFK1	CXG3_HUMAN	gap junction protein, gamma 3, 30.2kDa	200	Helical; (Potential).					connexon complex|integral to membrane				ovary(1)	1	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)					AGAGACAGAAACCGCTGACTC	0.468													11	90					0	0	1	0	0		C	99526644	C	C	99526644	2	2	27	1	0	0	0	0	0	0	0	1	6431	30	2	5		5	GJC3	7	99526644	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	36557	99526644	59612019	3665	26016											
ZKSCAN1	7586	broad.mit.edu	37	chr7	99631365	99631365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtagtgagtgtgggaaaGccttcagtcttaactccaac	12	11	10	8	0	2	1	1	1	1	0	3	2	3	2	2	1	3	1	2	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99631365G>A	uc003usk.1	+	6	1456	c.1237G>A	c.(1237-1239)GCC>ACC	p.A413T	ZKSCAN1_uc003usl.1_Missense_Mutation_p.A377T|ZKSCAN1_uc003usm.1_Missense_Mutation_p.A200T	NM_003439	NP_003430	P17029	ZKSC1_HUMAN	zinc finger protein 36	413	C2H2-type 2.				viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			GTGTGGGAAAGCCTTCAGTCT	0.458													15	172					0	0	1	0	0		A	99631365	A	A	99631365	3	1	27	1	0	0	0	0	1	0	0	0	17711	971	34	2	1255	2	ZKSCAN1	7	99631365	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	104721	99631365	59507298	3666	26017											
AP4M1	9179	broad.mit.edu	37	chr7	99703151	99703151	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctgtgcagtgggaccgAggctcaggccggtgagacaa	8	6	15	12	2	2	1	1	1	1	1	2	4	2	2	3	4	1	2	3	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99703151A>G	uc003utb.3	+	11	1126	c.918A>G	c.(916-918)CGA>CGG	p.R306R	AP4M1_uc011kjg.1_Silent_p.R260R|AP4M1_uc010lgl.1_Silent_p.R281R|AP4M1_uc003utc.3_Silent_p.R313R|AP4M1_uc010lgm.2_Silent_p.R178R|AP4M1_uc003utd.2_Silent_p.R306R|AP4M1_uc011kjh.1_Silent_p.R258R|AP4M1_uc003ute.3_Silent_p.R81R|AP4M1_uc003utf.3_Silent_p.R178R	NM_004722	NP_004713	O00189	AP4M1_HUMAN	adaptor-related protein complex 4, mu 1 subunit	306	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|coated pit|Golgi trans cisterna	transporter activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AGTGGGACCGAGGCTCAGGCC	0.587													4	36					0	0	1	0	0		G	99703151	G	G	99703151	2	3	27	1	0	0	0	0	0	0	0	1	753	291	11	3		3	AP4M1	7	99703151	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	71786	99703151	59435512	3667	26018											
TAF6	6878	broad.mit.edu	37	chr7	99710518	99710518	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggggttctgtggcttcAgccttctgttgctctttggg	2	17	13	9	0	5	0	2	0	3	0	5	0	5	0	1	4	2	4	1	4	0	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99710518A>G	uc003uti.2	-	6	558	c.477T>C	c.(475-477)GCT>GCC	p.A159A	TAF6_uc003utg.2_Silent_p.A81A|TAF6_uc003uth.2_Silent_p.A216A|TAF6_uc003utk.2_Silent_p.A159A|TAF6_uc011kji.1_Silent_p.A196A|TAF6_uc003utj.2_Silent_p.A149A|TAF6_uc003utl.2_Silent_p.A159A|TAF6_uc003utm.2_Silent_p.A159A|TAF6_uc003utn.1_RNA	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha	159					negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CTGTGGCTTCAGCCTTCTGTT	0.547													6	239					0	0	1	0	0		G	99710518	G	G	99710518	2	3	27	1	0	0	0	0	0	0	0	1	15555	175	7	3		3	TAF6	7	99710518	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7367	99710518	59428145	3668	26019											
C7orf43	55262	broad.mit.edu	37	chr7	99754477	99754477	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttatgctcacctccttggcCcctggagggggctgctcacc	4	10	11	16	0	2	0	2	0	0	0	3	1	3	1	5	4	2	3	5	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99754477C>T	uc003utr.2	-	6	1164	c.984G>A	c.(982-984)GGG>GGA	p.G328G	C7orf43_uc010lgo.2_5'Flank|C7orf43_uc010lgp.2_5'UTR|C7orf43_uc011kjj.1_Silent_p.G96G|C7orf43_uc003uts.2_Silent_p.G59G	NM_018275	NP_060745	Q8WVR3	CG043_HUMAN	hypothetical protein LOC55262	328											0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CCTCCTTGGCCCCTGGAGGGG	0.602													9	80					0	0	1	0	0		T	99754477	T	T	99754477	2	4	27	1	0	0	0	0	0	0	0	1	2396	610	22	4		4	C7orf43	7	99754477	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	43959	99754477	59384186	3669	26020											
GAL3ST4	79690	broad.mit.edu	37	chr7	99757655	99757655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctcaggggtagctaggcGctcacattcctcttggtctt	6	12	12	11	1	4	0	2	0	2	0	5	1	5	0	1	4	2	4	1	4	2	5	rs150667953	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99757655G>A	uc003utt.2	-	3	2374	c.1357C>T	c.(1357-1359)CGC>TGC	p.R453C	C7orf43_uc010lgp.2_5'Flank|C7orf43_uc011kjj.1_5'Flank|C7orf43_uc003utr.2_5'Flank|C7orf43_uc003uts.2_5'Flank|GAL3ST4_uc003utu.2_Missense_Mutation_p.R453C|GAL3ST4_uc010lgq.2_Missense_Mutation_p.R391C	NM_024637	NP_078913	Q96RP7	G3ST4_HUMAN	galactose-3-O-sulfotransferase 4	453	Lumenal (Potential).				cell-cell signaling|oligosaccharide metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane|membrane fraction	3'-phosphoadenosine 5'-phosphosulfate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(3)	3	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GTAGCTAGGCGCTCACATTCC	0.572													22	53					0	0	1	0	0		A	99757655	A	A	99757655	3	1	27	1	0	0	0	0	1	0	0	0	6215	1087	38	1	107	1	GAL3ST4	7	99757655	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3178	99757655	59381008	3670	26021											
STAG3	10734	broad.mit.edu	37	chr7	99811392	99811392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcttccaccagtgagcgcgGgctggacctcttagattcta	7	11	10	13	2	3	2	0	1	3	1	4	3	4	3	3	2	1	1	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:99811392G>A	uc003utx.1	+	33	3787	c.3632G>A	c.(3631-3633)GGG>GAG	p.G1211E	STAG3_uc011kjk.1_Missense_Mutation_p.G1153E|GATS_uc003uty.3_Intron|GATS_uc003utz.3_Intron|GATS_uc003uua.3_Intron|GATS_uc010lgt.2_Intron|STAG3_uc003uub.1_Missense_Mutation_p.G436E|GATS_uc011kjl.1_Intron|GATS_uc010lgu.2_Intron	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	1211					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AGTGAGCGCGGGCTGGACCTC	0.478													41	96					0	0	1	0	0		A	99811392	A	A	99811392	3	1	27	1	0	0	0	0	1	0	0	0	15269	1232	43	4	3758	4	STAG3	7	99811392	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	53737	99811392	59327271	3671	26022											
MEPCE	56257	broad.mit.edu	37	chr7	100028639	100028639	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtggtgtctccccttcCatctgctctgcagggtccct	4	13	10	14	0	3	1	0	1	3	0	6	1	5	1	4	2	2	2	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100028639C>A	uc003uuw.2	+	1	1111	c.998C>A	c.(997-999)CCA>CAA	p.P333Q	ZCWPW1_uc003uut.2_5'Flank|ZCWPW1_uc011kjr.1_5'Flank|ZCWPW1_uc003uuu.1_5'Flank|ZCWPW1_uc011kjt.1_5'Flank|ZCWPW1_uc011kju.1_5'Flank|MEPCE_uc003uuv.2_5'UTR	NM_019606	NP_062552	Q7L2J0	MEPCE_HUMAN	bin3, bicoid-interacting 3	333							methyltransferase activity			upper_aerodigestive_tract(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TCTCCCCTTCCATCTGCTCTG	0.612													39	117					3.78316e-11	4.19317e-11	1	1	0		A	100028639	A	A	100028639	3	1	27	1	0	0	0	0	1	0	0	0	9495	594	21	5	1000	5	MEPCE	7	100028639	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	217247	100028639	59110024	3672	26023											
C7orf51	222950	broad.mit.edu	37	chr7	100086267	100086267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccagcttcagccctccCgagccggagggacgggacgc	6	3	14	18	5	1	0	1	0	0	0	2	4	2	3	5	3	3	1	5	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100086267C>T	uc003uvd.1	+	4	1082	c.923C>T	c.(922-924)CCG>CTG	p.P308L	C7orf51_uc003uve.1_Missense_Mutation_p.P90L	NM_173564	NP_775835	Q6ZVC0	CG051_HUMAN	hypothetical protein FLJ37538	308	Pro-rich.									skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TCAGCCCTCCCGAGCCGGAGG	0.697													13	86					0	0	1	0	0		T	100086267	T	T	100086267	3	4	27	1	0	0	0	0	1	0	0	0	2403	652	23	1	933	1	C7orf51	7	100086267	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	57628	100086267	59052396	3673	26024											
ACTL6B	51412	broad.mit.edu	37	chr7	100243920	100243920	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggggctgaacttgcgctcCatggtgctgttgctggcaat	6	11	14	10	1	0	1	0	1	0	0	1	1	1	1	1	4	4	6	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100243920C>A	uc003uvy.2	-	13	1259	c.1152G>T	c.(1150-1152)ATG>ATT	p.M384I	ACTL6B_uc003uvx.1_Missense_Mutation_p.M175I|ACTL6B_uc003uvz.2_RNA	NM_016188	NP_057272	O94805	ACL6B_HUMAN	actin-like 6B	384					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex|SWI/SNF complex	ATP binding|protein binding|structural constituent of cytoskeleton			ovary(1)	1	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					ACTTGCGCTCCATGGTGCTGT	0.607													5	19					0.014758	0.0150623	1	1	0		A	100243920	A	A	100243920	3	1	27	1	0	0	0	0	1	0	0	0	199	594	21	5	136	5	ACTL6B	7	100243920	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	157653	100243920	58894743	3674	26025											
ZAN	7455	broad.mit.edu	37	chr7	100350794	100350794	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgtctccacatgctccAagtacccctatgaccagtgt	9	11	8	13	0	1	2	0	2	1	0	3	2	2	2	5	0	2	2	5	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100350794A>G	uc003uwj.2	+	14	3231	c.3066A>G	c.(3064-3066)CCA>CCG	p.P1022P	ZAN_uc003uwk.2_Silent_p.P1022P|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1022	66 X heptapeptide repeats (approximate) (mucin-like domain).|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CACATGCTCCAAGTACCCCTA	0.582													5	56					0	0	1	0	0		G	100350794	G	G	100350794	2	3	27	1	0	0	0	0	0	0	0	1	17539	117	5	3		3	ZAN	7	100350794	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	106874	100350794	58787869	3675	26026											
TRIP6	7205	broad.mit.edu	37	chr7	100469238	100469238	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgggctatggggaaggcctAccaccctggctgcttcacct	6	8	13	14	1	1	0	1	0	0	0	1	1	1	1	4	5	2	3	4	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100469238A>G	uc003uww.2	+	7	1243	c.1073A>G	c.(1072-1074)TAC>TGC	p.Y358C		NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6	358	LIM zinc-binding 2.				focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)					GGGAAGGCCTACCACCCTGGC	0.612													7	59					0	0	1	0	0		G	100469238	G	G	100469238	3	3	27	1	0	0	0	0	1	0	0	0	16585	391	14	3	1099	3	TRIP6	7	100469238	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	118444	100469238	58669425	3676	26027											
ACHE	43	broad.mit.edu	37	chr7	100490064	100490064	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcccaaagatgaactcgaTctcgtagccgtggggcaccc	10	7	11	13	3	1	2	0	1	1	1	4	4	2	2	3	2	2	2	3	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100490064T>C	uc003uxd.2	-	2	1600	c.1444A>G	c.(1444-1446)ATC>GTC	p.I482V	UFSP1_uc003uxc.3_5'Flank|ACHE_uc003uxe.2_Missense_Mutation_p.I482V|ACHE_uc003uxf.2_Missense_Mutation_p.I482V|ACHE_uc003uxg.2_Missense_Mutation_p.I482V|ACHE_uc003uxh.2_Missense_Mutation_p.I394V|ACHE_uc003uxi.2_Missense_Mutation_p.I482V	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	482					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	ATGAACTCGATCTCGTAGCCG	0.607													5	42					0	0	1	0	0		C	100490064	C	C	100490064	3	2	27	1	0	0	0	0	1	0	0	0	141	1435	50	3	547	3	ACHE	7	100490064	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20826	100490064	58648599	3677	26028											
ACHE	43	broad.mit.edu	37	chr7	100491298	100491298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggccaggaagccaaaggCtcccacccggtagttcatgg	10	5	13	13	1	1	0	1	0	0	0	2	1	2	1	4	5	1	3	4	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100491298C>T	uc003uxd.2	-	1	712	c.556G>A	c.(556-558)GCC>ACC	p.A186T	ACHE_uc003uxe.2_Missense_Mutation_p.A186T|ACHE_uc003uxf.2_Missense_Mutation_p.A186T|ACHE_uc003uxg.2_Missense_Mutation_p.A186T|ACHE_uc003uxh.2_Missense_Mutation_p.A186T|ACHE_uc003uxi.2_Missense_Mutation_p.A186T|ACHE_uc003uxj.1_Missense_Mutation_p.A305T	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	186					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	AAGCCAAAGGCTCCCACCCGG	0.647													9	87					0	0	1	0	0		T	100491298	T	T	100491298	3	4	27	1	0	0	0	0	1	0	0	0	141	797	28	2	1439	2	ACHE	7	100491298	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1234	100491298	58647365	3678	26029											
MUC17	140453	broad.mit.edu	37	chr7	100677683	100677683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtcagccacacgctggtgGccaattctgaggctagcacc	8	8	11	14	1	2	1	1	1	1	0	2	1	2	1	3	3	2	3	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100677683G>A	uc003uxp.1	+	3	3039	c.2986G>A	c.(2986-2988)GCC>ACC	p.A996T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	996	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|14.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CACGCTGGTGGCCAATTCTGA	0.512													31	304					0	0	1	0	0		A	100677683	A	A	100677683	3	1	27	1	0	0	0	0	1	0	0	0	9992	1203	42	2	2996	2	MUC17	7	100677683	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	186385	100677683	58460980	3679	26030											
MUC17	140453	broad.mit.edu	37	chr7	100679615	100679615	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacaagtatacctgtcagcAccacgccggtggccagtcct	10	8	9	14	2	1	0	1	0	0	0	2	0	2	0	5	2	3	2	5	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100679615A>G	uc003uxp.1	+	3	4971	c.4918A>G	c.(4918-4920)ACC>GCC	p.T1640A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1640	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|25.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ACCTGTCAGCACCACGCCGGT	0.483													28	328					0	0	1	0	0		G	100679615	G	G	100679615	3	3	27	1	0	0	0	0	1	0	0	0	9992	159	6	3	4928	3	MUC17	7	100679615	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1932	100679615	58459048	3680	26031											
MUC17	140453	broad.mit.edu	37	chr7	100683690	100683690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtctgtcagcaccatgcCggtggccagttctgaggcta	7	11	12	11	1	3	1	1	1	2	0	3	1	3	1	3	3	2	3	3	3	2	3	rs142796970		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100683690C>T	uc003uxp.1	+	3	9046	c.8993C>T	c.(8992-8994)CCG>CTG	p.P2998L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2998	Extracellular (Potential).|Ser-rich.|48.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AGCACCATGCCGGTGGCCAGT	0.507													25	354					0	0	1	0	0		T	100683690	T	T	100683690	3	4	27	1	0	0	0	0	1	0	0	0	9992	652	23	1	9003	1	MUC17	7	100683690	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4075	100683690	58454973	3681	26032											
MUC17	140453	broad.mit.edu	37	chr7	100686475	100686475	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagccaccaccatatctgtAtcagtgatcacagaaggaag	14	8	9	10	0	3	2	2	1	1	1	3	3	3	3	3	1	1	2	3	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100686475A>G	uc003uxp.1	+	3	11831	c.11778A>G	c.(11776-11778)GTA>GTG	p.V3926V	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3926	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CCATATCTGTATCAGTGATCA	0.483													14	153					0	0	1	0	0		G	100686475	G	G	100686475	2	3	27	1	0	0	0	0	0	0	0	1	9992	436	16	3		3	MUC17	7	100686475	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2785	100686475	58452188	3682	26033											
TRIM56	81844	broad.mit.edu	37	chr7	100732344	100732344	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgaagtgcagtggcgcagggCcctgagcctctcccaggcca	7	5	14	15	2	1	1	0	1	1	0	2	2	1	1	4	3	2	2	4	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100732344C>T	uc003uxq.2	+	3	1982	c.1751C>T	c.(1750-1752)GCC>GTC	p.A584V	TRIM56_uc003uxr.2_Intron	NM_030961	NP_112223	Q9BRZ2	TRI56_HUMAN	tripartite motif-containing 56	584					defense response to virus|interferon-beta production|protein K63-linked ubiquitination|response to type I interferon	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			kidney(1)|central_nervous_system(1)|skin(1)	3	Lung NSC(181;0.136)|all_lung(186;0.182)					TGGCGCAGGGCCCTGAGCCTC	0.687													6	101					0	0	1	0	0		T	100732344	T	T	100732344	3	4	27	1	0	0	0	0	1	0	0	0	16556	739	26	2	1753	2	TRIM56	7	100732344	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	45869	100732344	58406319	3683	26034											
PLOD3	8985	broad.mit.edu	37	chr7	100856390	100856390	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagaccactggtggcacctTagtgggaccgtttccatgga	8	10	13	10	1	0	1	0	1	0	1	1	4	1	3	4	4	0	2	4	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:100856390T>C	uc003uyd.2	-	7	1231	c.775A>G	c.(775-777)AAG>GAG	p.K259E	PLOD3_uc010lhs.2_5'Flank	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	259					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	GGTGGCACCTTAGTGGGACCG	0.602													5	33					0	0	1	0	0		C	100856390	C	C	100856390	3	2	27	1	0	0	0	0	1	0	0	0	12122	1763	61	3	1493	3	PLOD3	7	100856390	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	124046	100856390	58282273	3684	26035											
EMID2	136227	broad.mit.edu	37	chr7	101188738	101188738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacagcccccagggcgccCtctactccctgcagccgcct	7	5	8	21	2	1	0	0	0	1	0	2	0	2	0	6	1	5	1	6	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:101188738C>T	uc010lhy.1	+	7	1009	c.817C>T	c.(817-819)CTC>TTC	p.L273F	EMID2_uc003uyo.1_Missense_Mutation_p.L275F	NM_133457	NP_597714	Q96A83	EMID2_HUMAN	EMI domain containing 2	275						collagen				ovary(1)	1	Lung NSC(181;0.215)					CCAGGGCGCCCTCTACTCCCT	0.687													5	21					0	0	1	0	0		T	101188738	T	T	101188738	3	4	27	1	0	0	0	0	1	0	0	0	5100	681	24	4	843	4	EMID2	7	101188738	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	332348	101188738	57949925	3685	26036											
CUX1	1523	broad.mit.edu	37	chr7	101840234	101840234	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacaggtccatacagcacaAactccatatcttcccaaagt	15	8	4	14	0	1	0	0	0	1	0	4	0	4	0	3	1	4	1	3	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:101840234A>G	uc003uyx.3	+	15	1581	c.1543A>G	c.(1543-1545)AAC>GAC	p.N515D	CUX1_uc003uys.3_Missense_Mutation_p.N526D|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	515					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						ATACAGCACAAACTCCATATC	0.522													3	91					0	0	1	0	0		G	101840234	G	G	101840234	3	3	27	1	0	0	0	0	1	0	0	0	4067	14	1	3	1668	3	CUX1	7	101840234	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	651496	101840234	57298429	3686	26037											
SH2B2	10603	broad.mit.edu	37	chr7	101960844	101960844	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccagtgtcacgtacagcAtctgtggttccagtctgtgc	6	11	12	12	2	3	0	1	0	2	0	4	0	4	0	2	2	3	3	2	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:101960844A>G	uc011kko.1	+	6	1616	c.1571A>G	c.(1570-1572)CAT>CGT	p.H524R		NM_020979	NP_066189	O14492	SH2B2_HUMAN	SH2B adaptor protein 2	481	SH2.				blood coagulation|insulin receptor signaling pathway|intracellular signal transduction	cytosol|plasma membrane	JAK pathway signal transduction adaptor activity|SH3/SH2 adaptor activity|signal transducer activity				0						CACGTACAGCATCTGTGGTTC	0.642													6	67					0	0	1	0	0		G	101960844	G	G	101960844	3	3	27	1	0	0	0	0	1	0	0	0	14253	217	8	3	1333	3	SH2B2	7	101960844	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	120610	101960844	57177819	3687	26038											
LRWD1	222229	broad.mit.edu	37	chr7	102106487	102106487	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aactcagcctggagggcaacCccttcctgacggtaagtggg	9	7	13	12	1	1	1	1	1	0	0	2	2	2	2	4	4	3	2	4	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:102106487C>T	uc003uzn.2	+	2	442	c.304C>T	c.(304-306)CCC>TCC	p.P102S	ALKBH4_uc003uzl.2_5'Flank|ALKBH4_uc003uzm.2_5'Flank|LRWD1_uc003uzo.2_5'UTR	NM_152892	NP_690852	Q9UFC0	LRWD1_HUMAN	leucine-rich repeats and WD repeat domain	102	LRR 4.				chromatin modification|DNA-dependent DNA replication initiation|establishment of protein localization to chromatin|G1 phase of mitotic cell cycle	centromeric heterochromatin|nuclear origin of replication recognition complex|telomeric heterochromatin	chromatin binding|methyl-CpG binding|methylated histone residue binding			skin(1)	1						GGAGGGCAACCCCTTCCTGAC	0.622													5	42					0	0	1	0	0		T	102106487	T	T	102106487	3	4	27	1	0	0	0	0	1	0	0	0	9065	623	22	4	310	4	LRWD1	7	102106487	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	145643	102106487	57032176	3688	26039											
LRWD1	222229	broad.mit.edu	37	chr7	102108751	102108751	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacttcctgcagtgccaCagcaagaacaacagccccca	12	5	7	17	0	0	1	0	0	0	1	1	1	1	1	4	0	7	3	4	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:102108751C>T	uc003uzn.2	+	7	984	c.846C>T	c.(844-846)CAC>CAT	p.H282H	LRWD1_uc003uzo.2_Silent_p.H130H	NM_152892	NP_690852	Q9UFC0	LRWD1_HUMAN	leucine-rich repeats and WD repeat domain	282					chromatin modification|DNA-dependent DNA replication initiation|establishment of protein localization to chromatin|G1 phase of mitotic cell cycle	centromeric heterochromatin|nuclear origin of replication recognition complex|telomeric heterochromatin	chromatin binding|methyl-CpG binding|methylated histone residue binding			skin(1)	1						TGCAGTGCCACAGCAAGAACA	0.667													3	22					0	0	1	0	0		T	102108751	T	T	102108751	2	4	27	1	0	0	0	0	0	0	0	1	9065	477	17	4		4	LRWD1	7	102108751	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2264	102108751	57029912	3689	26040											
NAPEPLD	222236	broad.mit.edu	37	chr7	102760524	102760524	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgagagctaaagatgggAtccgtgagaaatatgagctc	14	7	13	7	2	0	4	0	2	0	3	2	7	1	5	1	1	2	3	1	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:102760524A>T	uc003vbc.2	-	3	769	c.441T>A	c.(439-441)GAT>GAA	p.D147E	NAPEPLD_uc003vbd.2_Missense_Mutation_p.D147E|NAPEPLD_uc011klj.1_Missense_Mutation_p.D220E|NAPEPLD_uc003vbe.2_RNA	NM_198990	NP_945341	Q6IQ20	NAPEP_HUMAN	N-acyl phosphatidylethanolamine phospholipase D	147					phospholipid catabolic process	membrane	metal ion binding			skin(1)	1						TAAAGATGGGATCCGTGAGAA	0.512													8	124					0	0	1	0	0		T	102760524	T	T	102760524	3	4	27	1	0	0	0	0	1	0	0	0	10181	330	12	5	752	5	NAPEPLD	7	102760524	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	651773	102760524	56378139	3690	26041											
PMPCB	9512	broad.mit.edu	37	chr7	102948078	102948078	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattgcttgacttagcaaagTttcatttcggtgactcttta	10	17	7	7	1	2	2	1	2	1	0	3	2	2	2	0	1	2	3	0	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:102948078T>C	uc003vbl.2	+	7	806	c.772T>C	c.(772-774)TTT>CTT	p.F258L	PMPCB_uc010liu.1_Missense_Mutation_p.F258L|PMPCB_uc003vbk.1_Missense_Mutation_p.F258L|PMPCB_uc003vbm.2_Missense_Mutation_p.F167L|PMPCB_uc010liv.2_Missense_Mutation_p.F164L|PMPCB_uc010liw.2_Missense_Mutation_p.F167L|PMPCB_uc011kll.1_Missense_Mutation_p.F153L|PMPCB_uc011klm.1_Missense_Mutation_p.F133L	NM_004279	NP_004270	O75439	MPPB_HUMAN	mitochondrial processing peptidase beta subunit	258					proteolysis	mitochondrial matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)	4						CTTAGCAAAGTTTCATTTCGG	0.398													7	50					0	0	1	0	0		C	102948078	C	C	102948078	3	2	27	1	0	0	0	0	1	0	0	0	12160	1725	60	3	798	3	PMPCB	7	102948078	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	187554	102948078	56190585	3691	26042											
RELN	5649	broad.mit.edu	37	chr7	103124188	103124188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtgatcccgttgttgaCgctgtattgcagcagcactg	7	11	12	11	2	0	2	0	2	0	0	1	2	1	2	2	1	3	7	2	1	1	4	rs115035120	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:103124188C>T	uc003vca.2	-	62	10253	c.10093G>A	c.(10093-10095)GTC>ATC	p.V3365I	RELN_uc010liz.2_Missense_Mutation_p.V3365I	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3365	BNR 16.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity	p.V3365I(1)		ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCGTTGTTGACGCTGTATTGC	0.552													32	126					0	0	1	0	0		T	103124188	T	T	103124188	3	4	27	1	0	0	0	0	1	0	0	0	13245	536	19	1	305	1	RELN	7	103124188	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	176110	103124188	56014475	3692	26043											
RELN	5649	broad.mit.edu	37	chr7	103130326	103130326	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtttcttctcccttctggAtccagcggaactgtgttgca	6	14	9	12	1	3	0	0	0	3	0	5	2	4	2	2	2	3	3	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:103130326A>T	uc003vca.2	-	60	9786	c.9626T>A	c.(9625-9627)ATC>AAC	p.I3209N	RELN_uc010liz.2_Missense_Mutation_p.I3209N	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3209					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TCCCTTCTGGATCCAGCGGAA	0.542													5	60					0	0	1	0	0		T	103130326	T	T	103130326	3	4	27	1	0	0	0	0	1	0	0	0	13245	333	12	5	780	5	RELN	7	103130326	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6138	103130326	56008337	3693	26044											
RELN	5649	broad.mit.edu	37	chr7	103191549	103191549	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcccaaagtgcacgacctcCctcctccagccctgcatggt	7	9	7	18	1	0	0	0	0	0	0	4	1	4	0	6	1	3	2	6	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:103191549C>A	uc003vca.2	-	41	6427	c.6267G>T	c.(6265-6267)AGG>AGT	p.R2089S	RELN_uc010liz.2_Missense_Mutation_p.R2089S	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2089					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		GCACGACCTCCCTCCTCCAGC	0.562													8	49					0.00307968	0.00318367	1	1	0		A	103191549	A	A	103191549	3	1	27	1	0	0	0	0	1	0	0	0	13245	622	22	5	4215	5	RELN	7	103191549	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61223	103191549	55947114	3694	26045											
RELN	5649	broad.mit.edu	37	chr7	103230160	103230160	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccttcgcatcctttgcctGcagaagccgggtaacagcct	7	11	9	14	2	0	1	0	0	0	1	3	1	2	1	5	1	5	3	5	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:103230160G>T	uc003vca.2	-	28	4188	c.4028C>A	c.(4027-4029)GCA>GAA	p.A1343E	RELN_uc010liz.2_Missense_Mutation_p.A1343E	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1343					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TCCTTTGCCTGCAGAAGCCGG	0.468													12	125					3.07112e-06	3.32223e-06	1	1	0		T	103230160	T	T	103230160	3	4	27	1	0	0	0	0	1	0	0	0	13245	1319	46	5	6506	5	RELN	7	103230160	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	38611	103230160	55908503	3695	26046											
CDHR3	222256	broad.mit.edu	37	chr7	105641973	105641973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcgtggccaatatcacagCggaggatcctgatgatgaag	12	8	12	9	2	1	3	1	3	0	0	3	5	2	5	2	3	1	0	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:105641973C>T	uc003vdl.3	+	7	887	c.779C>T	c.(778-780)GCG>GTG	p.A260V	CDHR3_uc003vdk.2_Intron|CDHR3_uc011kls.1_RNA|CDHR3_uc003vdm.3_Missense_Mutation_p.A247V|CDHR3_uc011klt.1_Missense_Mutation_p.A172V|CDHR3_uc003vdn.2_5'UTR	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	260	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						AATATCACAGCGGAGGATCCT	0.483													17	197					0	0	1	0	0		T	105641973	T	T	105641973	3	4	27	1	0	0	0	0	1	0	0	0	3123	768	27	1	805	1	CDHR3	7	105641973	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2411813	105641973	53496690	3696	26047											
PIK3CG	5294	broad.mit.edu	37	chr7	106508059	106508059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgagagaggacaactgccGaaggcgccggaggatgaagc	12	3	17	9	3	0	3	0	2	0	1	0	8	0	6	2	4	3	1	2	4	3	0	rs142380460	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:106508059G>A	uc003vdv.3	+	2	138	c.53G>A	c.(52-54)CGA>CAA	p.R18Q	PIK3CG_uc003vdu.2_Missense_Mutation_p.R18Q|PIK3CG_uc003vdw.2_Missense_Mutation_p.R18Q	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	18					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding	p.R18Q(1)		lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						GACAACTGCCGAAGGCGCCGG	0.612													13	80					0	0	1	0	0		A	106508059	A	A	106508059	3	1	27	1	0	0	0	0	1	0	0	0	11935	1058	37	1	55	1	PIK3CG	7	106508059	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	866086	106508059	52630604	3697	26048											
PRKAR2B	5577	broad.mit.edu	37	chr7	106781302	106781302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaaaaataggagcagatgtCtcaagtattagatgccatgt	15	12	9	5	0	1	2	1	0	1	2	2	3	1	3	1	1	2	2	1	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:106781302C>T	uc003vdx.2	+	5	666	c.491C>T	c.(490-492)TCT>TTT	p.S164F		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	164	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						GAGCAGATGTCTCAAGTATTA	0.323													8	39					0	0	1	0	0		T	106781302	T	T	106781302	3	4	27	1	0	0	0	0	1	0	0	0	12528	913	32	4	509	4	PRKAR2B	7	106781302	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	273243	106781302	52357361	3698	26049											
PRKAR2B	5577	broad.mit.edu	37	chr7	106799932	106799932	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaaggcttctgggacctTgcatggaaattatgaaaagg	13	11	12	5	0	1	2	0	2	1	0	1	4	1	4	1	4	1	2	1	4	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:106799932T>A	uc003vdx.2	+	11	1337	c.1162T>A	c.(1162-1164)TGC>AGC	p.C388S		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	388	cAMP 2.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						TCTGGGACCTTGCATGGAAAT	0.373													9	62					0	0	1	0	0		A	106799932	A	A	106799932	3	1	27	1	0	0	0	0	1	0	0	0	12528	1812	63	5	1204	5	PRKAR2B	7	106799932	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18630	106799932	52338731	3699	26050											
HBP1	26959	broad.mit.edu	37	chr7	106830637	106830637	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttggtcatcattttatccAagcttgactgtggtacagca	9	14	10	8	0	2	1	2	1	0	0	3	1	3	1	1	3	3	4	1	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:106830637A>G	uc003vdy.2	+	8	1128	c.942A>G	c.(940-942)CCA>CCG	p.P314P	HBP1_uc011klv.1_Silent_p.P324P|HBP1_uc003vdz.2_Silent_p.P314P|HBP1_uc003vea.2_Silent_p.P314P|HBP1_uc003veb.1_Silent_p.P314P	NM_012257	NP_036389	O60381	HBP1_HUMAN	HMG-box transcription factor 1	314	AXH.				cell cycle arrest|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	DNA binding			skin(1)	1						CATTTTATCCAAGCTTGACTG	0.393													7	177					0	0	1	0	0		G	106830637	G	G	106830637	2	3	27	1	0	0	0	0	0	0	0	1	7001	117	5	3		3	HBP1	7	106830637	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	30705	106830637	52308026	3700	26051											
BCAP29	55973	broad.mit.edu	37	chr7	107258781	107258781	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttccttacaggatcgtttAgaaagaggcaacaagaaaag	16	10	9	6	1	0	3	0	0	0	3	2	4	1	4	1	2	2	2	1	2	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:107258781A>G	uc003vej.2	+	8	1038	c.699A>G	c.(697-699)TTA>TTG	p.L233L	BCAP29_uc011kly.1_Silent_p.L139L|BCAP29_uc011klz.1_Intron|BCAP29_uc011kma.1_Missense_Mutation_p.R260G	NM_018844	NP_061332	Q9UHQ4	BAP29_HUMAN	B-cell receptor-associated protein BAP29 isoform	233	Cytoplasmic (Potential).				apoptosis|intracellular protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|integral to membrane				large_intestine(1)|ovary(1)	2						AGGATCGTTTAGAAAGAGGCA	0.294													5	79					0	0	1	0	0		G	107258781	G	G	107258781	2	3	27	1	0	0	0	0	0	0	0	1	1347	421	15	3		3	BCAP29	7	107258781	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	428144	107258781	51879882	3701	26052											
LAMB1	3912	broad.mit.edu	37	chr7	107575974	107575974	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattctcgctccatcatcacGtcttctactctgtctctcat	6	16	4	15	2	8	0	3	0	5	0	11	1	9	0	1	0	1	1	1	0	1	3	rs146681738		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:107575974G>A	uc003vew.2	-	27	4409	c.4074C>T	c.(4072-4074)GAC>GAT	p.D1358D	LAMB1_uc003vev.2_Silent_p.D1382D	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1358	Potential.|Domain II.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCATCATCACGTCTTCTACTC	0.527													17	304					0	0	1	0	0		A	107575974	A	A	107575974	2	1	27	1	0	0	0	0	0	0	0	1	8626	1136	40	1		1	LAMB1	7	107575974	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	317193	107575974	51562689	3702	26053											
LAMB4	22798	broad.mit.edu	37	chr7	107677924	107677924	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtaatcctcacagagttGcatatgtttctgtattttga	9	17	7	8	0	2	2	1	1	1	1	3	2	3	2	2	0	1	5	2	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:107677924G>A	uc010ljo.1	-	30	4672	c.4588C>T	c.(4588-4590)CAA>TAA	p.Q1530*	LAMB4_uc003vey.2_Nonsense_Mutation_p.Q1530*|LAMB4_uc010ljp.1_Nonsense_Mutation_p.Q499*	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	1530	Potential.|Domain I.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						TCACAGAGTTGCATATGTTTC	0.418													9	194					0	0	1	0	0		A	107677924	A	A	107677924	4	1	27	1	0	0	0	0	0	1	0	0	8629	1328	46	2	717	2	LAMB4	7	107677924	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	101950	107677924	51460739	3703	26054											
DNAJB9	4189	broad.mit.edu	37	chr7	108213489	108213489	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgatgacttatttaaagacTttggcttttttggtcaaaac	11	18	7	5	0	1	3	1	2	0	1	1	3	1	3	0	2	1	1	0	2	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:108213489T>C	uc003vfn.2	+	3	566	c.364T>C	c.(364-366)TTT>CTT	p.F122L		NM_012328	NP_036460	Q9UBS3	DNJB9_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 9	122					ER-associated protein catabolic process|protein folding	endoplasmic reticulum|nucleolus	heat shock protein binding|misfolded protein binding|unfolded protein binding				0						ATTTAAAGACTTTGGCTTTTT	0.388													4	57					0	0	1	0	0		C	108213489	C	C	108213489	3	2	27	1	0	0	0	0	1	0	0	0	4633	1609	56	3	370	3	DNAJB9	7	108213489	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	535565	108213489	50925174	3704	26055											
LRRN3	54674	broad.mit.edu	37	chr7	110763174	110763174	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atattaatgtaaaaaagatgCctcagctcctttctgtgtac	13	14	6	8	0	2	1	1	0	1	1	3	1	3	1	2	0	3	3	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:110763174C>T	uc003vft.3	+	4	1392	c.346C>T	c.(346-348)CCT>TCT	p.P116S	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.P116S|LRRN3_uc003vfs.3_Missense_Mutation_p.P116S	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	116	Extracellular (Potential).					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		AAAAAAGATGCCTCAGCTCCT	0.353													17	43					0	0	1	0	0		T	110763174	T	T	110763174	3	4	27	1	0	0	0	0	1	0	0	0	9054	739	26	2	348	2	LRRN3	7	110763174	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2549685	110763174	48375489	3705	26056											
LRRN3	54674	broad.mit.edu	37	chr7	110764599	110764599	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccatcaactgagtataaaAtttgtattgatattcccacc	14	14	4	9	0	1	2	1	2	0	0	3	2	3	2	3	0	1	2	3	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:110764599A>G	uc003vft.3	+	4	2817	c.1771A>G	c.(1771-1773)ATT>GTT	p.I591V	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.I591V|LRRN3_uc003vfs.3_Missense_Mutation_p.I591V	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	591	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		TGAGTATAAAATTTGTATTGA	0.348													7	49					0	0	1	0	0		G	110764599	G	G	110764599	3	3	27	1	0	0	0	0	1	0	0	0	9054	101	4	3	1773	3	LRRN3	7	110764599	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1425	110764599	48374064	3706	26057											
LRRN3	54674	broad.mit.edu	37	chr7	110764825	110764825	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctatgtgaggaattactTacagaaaccaacctttgcat	14	11	7	9	0	0	2	0	1	0	1	0	3	0	3	2	1	6	2	2	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:110764825T>A	uc003vft.3	+	4	3043	c.1997T>A	c.(1996-1998)TTA>TAA	p.L666*	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Nonsense_Mutation_p.L666*|LRRN3_uc003vfs.3_Nonsense_Mutation_p.L666*	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	666	Cytoplasmic (Potential).					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		AGGAATTACTTACAGAAACCA	0.418													15	137					0	0	1	0	0		A	110764825	A	A	110764825	4	1	27	1	0	0	0	0	0	1	0	0	9054	1764	61	5	1999	5	LRRN3	7	110764825	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	226	110764825	48373838	3707	26058											
GPR85	54329	broad.mit.edu	37	chr7	112723818	112723818	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccagacagcagctgttagaAatccccctggtactacaggc	11	8	9	13	0	0	2	0	0	0	2	2	2	2	2	3	2	4	4	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:112723818A>T	uc010ljv.2	-	2	1476	c.959T>A	c.(958-960)TTT>TAT	p.F320Y	GPR85_uc003vgp.1_Missense_Mutation_p.F320Y|GPR85_uc003vgq.2_Missense_Mutation_p.F320Y|GPR85_uc010ljw.1_Missense_Mutation_p.F320Y	NM_001146266	NP_001139738	P60893	GPR85_HUMAN	G protein-coupled receptor 85	320	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)	2						AGCTGTTAGAAATCCCCCTGG	0.473													4	49					0	0	1	0	0		T	112723818	T	T	112723818	3	4	27	1	0	0	0	0	1	0	0	0	6730	14	1	5	157	5	GPR85	7	112723818	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1958993	112723818	46414845	3708	26059											
PPP1R3A	5506	broad.mit.edu	37	chr7	113519801	113519801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcaaggtatttgcactgtgCcattgccatgggctggatta	8	12	13	8	0	0	0	0	0	0	0	0	1	0	1	2	4	3	4	2	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:113519801C>T	uc010ljy.1	-	4	1377	c.1346G>A	c.(1345-1347)GGC>GAC	p.G449D		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	449					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TTGCACTGTGCCATTGCCATG	0.398													39	95					0	0	1	0	0		T	113519801	T	T	113519801	3	4	27	1	0	0	0	0	1	0	0	0	12393	739	26	2	2026	2	PPP1R3A	7	113519801	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	795983	113519801	45618862	3709	26060											
PPP1R3A	5506	broad.mit.edu	37	chr7	113558357	113558357	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggctcttgttctttctttTgacaaatgaatgtataattt	9	19	6	7	1	3	2	0	2	3	0	3	2	3	2	1	1	0	3	1	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:113558357T>C	uc010ljy.1	-	1	726	c.695A>G	c.(694-696)CAA>CGA	p.Q232R		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	232					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TTCTTTCTTTTGACAAATGAA	0.338													8	136					0	0	1	0	0		C	113558357	C	C	113558357	3	2	27	1	0	0	0	0	1	0	0	0	12393	1812	63	3	2689	3	PPP1R3A	7	113558357	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	38556	113558357	45580306	3710	26061											
FOXP2	93986	broad.mit.edu	37	chr7	114304425	114304425	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccgtccacgaagacctcaAtggttctctggatcacattg	9	10	10	12	2	3	1	2	0	1	1	5	3	4	2	3	3	0	1	3	3	2	2	rs145154396	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:114304425A>G	uc003vhb.2	+	16	2311	c.1937A>G	c.(1936-1938)AAT>AGT	p.N646S	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Missense_Mutation_p.N671S|FOXP2_uc003vha.2_Missense_Mutation_p.N554S|FOXP2_uc011kmu.1_Missense_Mutation_p.N663S|FOXP2_uc011kmv.1_Missense_Mutation_p.N645S|FOXP2_uc010ljz.1_Missense_Mutation_p.N461S	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	646					camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						GAAGACCTCAATGGTTCTCTG	0.493													8	50					0	0	1	0	0		G	114304425	G	G	114304425	3	3	27	1	0	0	0	0	1	0	0	0	6041	101	4	3	2162	3	FOXP2	7	114304425	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	746068	114304425	44834238	3711	26062											
MET	4233	broad.mit.edu	37	chr7	116339390	116339390	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcagaaggttgctgagtaCaagactgggcctgtgctgga	9	10	14	8	0	1	3	1	1	0	2	1	4	1	4	1	3	3	4	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:116339390C>T	uc003vij.2	+	2	439	c.252C>T	c.(250-252)TAC>TAT	p.Y84Y	MET_uc010lkh.2_Silent_p.Y84Y|MET_uc011knc.1_Silent_p.Y84Y|MET_uc011knd.1_Silent_p.Y84Y|MET_uc011kne.1_Silent_p.Y84Y|MET_uc011knf.1_Silent_p.Y84Y|MET_uc011kng.1_Silent_p.Y84Y|MET_uc011knh.1_Silent_p.Y84Y|MET_uc011kni.1_Silent_p.Y84Y|MET_uc003vii.1_Silent_p.Y103Y|MET_uc010lkg.2_Silent_p.Y84Y|MET_uc011kmz.1_Silent_p.Y84Y|MET_uc011kna.1_Silent_p.Y84Y|MET_uc011knb.1_Silent_p.Y84Y	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	84	Extracellular (Potential).|Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			TTGCTGAGTACAAGACTGGGC	0.433			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				7	75					0	0	1	0	0		T	116339390	T	T	116339390	2	4	27	1	0	0	0	0	0	0	0	1	9503	489	17	4		4	MET	7	116339390	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2034965	116339390	42799273	3712	26063											
MET	4233	broad.mit.edu	37	chr7	116339813	116339813	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaaaggaaacgaaagatggTtttatgtttttgacggacca	14	12	10	5	2	0	2	0	1	0	1	0	5	0	4	1	3	1	2	1	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:116339813T>C	uc003vij.2	+	2	862	c.675T>C	c.(673-675)GGT>GGC	p.G225G	MET_uc010lkh.2_Silent_p.G225G|MET_uc011knc.1_Silent_p.G225G|MET_uc011knd.1_Silent_p.G225G|MET_uc011kne.1_Silent_p.G225G|MET_uc011knf.1_Silent_p.G225G|MET_uc011kng.1_Silent_p.G225G|MET_uc011knh.1_Silent_p.G225G|MET_uc011kni.1_Silent_p.G225G|MET_uc003vii.1_Silent_p.G244G|MET_uc010lkg.2_Silent_p.G225G|MET_uc011kmz.1_Silent_p.G225G|MET_uc011kna.1_Silent_p.G225G|MET_uc011knb.1_Silent_p.G225G	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	225	Extracellular (Potential).|Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			CGAAAGATGGTTTTATGTTTT	0.363			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				19	180					0	0	1	0	0		C	116339813	C	C	116339813	2	2	27	1	0	0	0	0	0	0	0	1	9503	1712	60	3		3	MET	7	116339813	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	423	116339813	42798850	3713	26064											
WNT2	7472	broad.mit.edu	37	chr7	116955236	116955236	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgatcccatagtcaatgttAtcactgcagccaccccaatc	11	11	5	14	0	2	1	2	1	0	0	4	1	3	1	4	0	2	2	4	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:116955236A>T	uc003viz.2	-	3	777	c.477T>A	c.(475-477)GAT>GAA	p.D159E	WNT2_uc003vja.2_Missense_Mutation_p.D63E	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	159					atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		AGTCAATGTTATCACTGCAGC	0.428													8	124					0	0	1	0	0		T	116955236	T	T	116955236	3	4	27	1	0	0	0	0	1	0	0	0	17412	446	16	5	617	5	WNT2	7	116955236	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	615423	116955236	42183427	3714	26065											
WNT2	7472	broad.mit.edu	37	chr7	116960775	116960775	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggatgtcggtgacacagctgCcgctggctgctcaccaggcc	6	7	14	14	2	1	1	1	1	0	0	2	2	1	2	3	4	3	4	3	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:116960775C>T	uc003viz.2	-	2	456	c.156G>A	c.(154-156)CGG>CGA	p.R52R	WNT2_uc003vja.2_5'UTR	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	52					atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		GACACAGCTGCCGCTGGCTGC	0.597													4	25					0	0	1	0	0		T	116960775	T	T	116960775	2	4	27	1	0	0	0	0	0	0	0	1	17412	726	26	2		2	WNT2	7	116960775	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5539	116960775	42177888	3715	26066											
CTTNBP2	83992	broad.mit.edu	37	chr7	117431265	117431265	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatggaagagcaaaaggcaAtggtggtaggaatgacaagg	16	7	15	3	0	0	2	0	1	0	1	0	4	0	4	0	6	1	3	0	6	8	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:117431265A>G	uc003vjf.2	-	4	2077	c.1985T>C	c.(1984-1986)ATT>ACT	p.I662T		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	662										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GCAAAAGGCAATGGTGGTAGG	0.547													12	88					0	0	1	0	0		G	117431265	G	G	117431265	3	3	27	1	0	0	0	0	1	0	0	0	4048	101	4	3	3086	3	CTTNBP2	7	117431265	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	470490	117431265	41707398	3716	26067											
CTTNBP2	83992	broad.mit.edu	37	chr7	117432080	117432080	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactggttggatctggtgtTgagccagtgcttggtccatt	5	15	13	8	0	1	1	0	1	1	0	2	2	2	2	2	4	3	3	2	4	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:117432080T>C	uc003vjf.2	-	4	1262	c.1170A>G	c.(1168-1170)TCA>TCG	p.S390S		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	390	Pro-rich.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GATCTGGTGTTGAGCCAGTGC	0.547													7	174					0	0	1	0	0		C	117432080	C	C	117432080	2	2	27	1	0	0	0	0	0	0	0	1	4048	1799	63	3		3	CTTNBP2	7	117432080	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	815	117432080	41706583	3717	26068											
ANKRD7	56311	broad.mit.edu	37	chr7	117876922	117876922	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcaaggtgtggaattatgTtacgaaggtattgtggattc	11	13	13	4	1	0	0	0	0	0	0	1	3	0	2	0	4	2	3	0	4	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:117876922T>C	uc003vji.2	+	5	827	c.654T>C	c.(652-654)TGT>TGC	p.C218C		NM_019644	NP_062618	Q92527	ANKR7_HUMAN	ankyrin repeat domain 7	218	ANK 5.				male gonad development						0						TGGAATTATGTTACGAAGGTA	0.398													13	191					0	0	1	0	0		C	117876922	C	C	117876922	2	2	27	1	0	0	0	0	0	0	0	1	686	1731	60	3		3	ANKRD7	7	117876922	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	444842	117876922	41261741	3718	26069											
TSPAN12	23554	broad.mit.edu	37	chr7	120496772	120496772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaagagcagattgagggCgtagagcaggcagcgcagac	14	3	15	9	2	0	5	0	1	0	4	0	5	0	5	1	2	3	5	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:120496772C>T	uc003vjk.2	-	2	420	c.46G>A	c.(46-48)GCC>ACC	p.A16T		NM_012338	NP_036470	O95859	TSN12_HUMAN	transmembrane 4 superfamily member 12	16	Helical; (Potential).				angiogenesis|cell surface receptor linked signaling pathway|regulation of angiogenesis|retina layer formation	integral to plasma membrane|membrane fraction					0	all_neural(327;0.117)					AGATTGAGGGCGTAGAGCAGG	0.557													6	39					0	0	1	0	0		T	120496772	T	T	120496772	3	4	27	1	0	0	0	0	1	0	0	0	16662	768	27	1	899	1	TSPAN12	7	120496772	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2619850	120496772	38641891	3719	26070											
PTPRZ1	5803	broad.mit.edu	37	chr7	121650696	121650696	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgccacctcacactgtggaAggtacttcagcctctttaaa	10	11	7	13	0	3	0	2	0	1	0	3	1	3	1	3	2	3	1	3	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:121650696A>C	uc003vjy.2	+	12	1991	c.1596A>C	c.(1594-1596)GAA>GAC	p.E532D	PTPRZ1_uc003vjz.2_Missense_Mutation_p.E532D|PTPRZ1_uc011knt.1_5'UTR	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	532	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						ACACTGTGGAAGGTACTTCAG	0.398													7	86					0	0	1	0	0		C	121650696	C	C	121650696	3	2	27	1	0	0	0	0	1	0	0	0	12839	69	3	5	1642	5	PTPRZ1	7	121650696	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1153924	121650696	37487967	3720	26071											
PTPRZ1	5803	broad.mit.edu	37	chr7	121652348	121652348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatgtaaataagttgaatgCgtctttacaagaaacctctg	15	13	7	6	1	2	2	0	1	2	1	2	2	2	2	1	0	3	2	1	0	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:121652348C>T	uc003vjy.2	+	12	3643	c.3248C>T	c.(3247-3249)GCG>GTG	p.A1083V	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1083	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						AAGTTGAATGCGTCTTTACAA	0.398													15	64					0	0	1	0	0		T	121652348	T	T	121652348	3	4	27	1	0	0	0	0	1	0	0	0	12839	768	27	1	3294	1	PTPRZ1	7	121652348	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1652	121652348	37486315	3721	26072											
PTPRZ1	5803	broad.mit.edu	37	chr7	121694043	121694043	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatttctggaggatgatatGggaccataatgcccaactgg	11	10	13	7	0	1	1	0	1	1	0	1	5	1	5	2	5	2	0	2	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:121694043G>A	uc003vjy.2	+	26	6727	c.6332G>A	c.(6331-6333)TGG>TAG	p.W2111*	PTPRZ1_uc003vjz.2_Nonsense_Mutation_p.W1244*|PTPRZ1_uc011knt.1_Nonsense_Mutation_p.W701*	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	2111	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						AGGATGATATGGGACCATAAT	0.438													11	163					0	0	1	0	0		A	121694043	A	A	121694043	4	1	27	1	0	0	0	0	0	1	0	0	12839	1357	47	4	6434	4	PTPRZ1	7	121694043	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	41695	121694043	37444620	3722	26073											
AASS	10157	broad.mit.edu	37	chr7	121719675	121719675	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcagcctccaactgggtaTtgtctcctcctagtttctta	7	14	7	13	0	2	0	0	0	2	0	5	0	4	0	4	1	3	3	4	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:121719675T>C	uc003vka.2	-	20	2468	c.2372A>G	c.(2371-2373)AAT>AGT	p.N791S	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.N791S|AASS_uc011knw.1_Missense_Mutation_p.N279S	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	791	Saccharopine dehydrogenase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	CAACTGGGTATTGTCTCCTCC	0.423													6	57					0	0	1	0	0		C	121719675	C	C	121719675	3	2	27	1	0	0	0	0	1	0	0	0	24	1493	52	3	424	3	AASS	7	121719675	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25632	121719675	37418988	3723	26074											
AASS	10157	broad.mit.edu	37	chr7	121773641	121773641	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagattggtgatgcctttgAtgtgcttgggagctagcggg	6	12	16	7	1	0	3	0	2	0	1	0	4	0	4	2	3	4	2	2	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:121773641A>G	uc003vka.2	-	1	236	c.140T>C	c.(139-141)ATC>ACC	p.I47T	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.I47T|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	47	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	GATGCCTTTGATGTGCTTGGG	0.517													6	77					0	0	1	0	0		G	121773641	G	G	121773641	3	3	27	1	0	0	0	0	1	0	0	0	24	333	12	3	2732	3	AASS	7	121773641	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	53966	121773641	37365022	3724	26075											
CADPS2	93664	broad.mit.edu	37	chr7	121960379	121960379	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaccctgcaatcgaaagTccctgtaggttttctgaaga	12	10	8	11	1	1	2	0	1	1	1	3	3	2	2	2	1	1	3	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:121960379T>C	uc010lkp.2	-	29	3894	c.3731A>G	c.(3730-3732)GAC>GGC	p.D1244G	CADPS2_uc011knx.1_Missense_Mutation_p.D619G|CADPS2_uc003vkg.3_Missense_Mutation_p.D898G|CADPS2_uc010lkq.2_Missense_Mutation_p.D1203G	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	1244					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						CAATCGAAAGTCCCTGTAGGT	0.388													9	189					0	0	1	0	0		C	121960379	C	C	121960379	3	2	27	1	0	0	0	0	1	0	0	0	2574	1667	58	3	163	3	CADPS2	7	121960379	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	186738	121960379	37178284	3725	26076											
RNF148	378925	broad.mit.edu	37	chr7	122342388	122342388	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctggtgagacatgggaaaTactttactgcccgtaccttg	9	11	10	11	1	0	1	0	1	0	1	0	3	0	2	3	2	4	1	3	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:122342388T>A	uc003vkk.1	-	1	634	c.417A>T	c.(415-417)GTA>GTT	p.V139V	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron|RNF148_uc010lkr.1_Intron	NM_198085	NP_932351	Q8N7C7	RN148_HUMAN	ring finger protein 148 precursor	139	PA.					integral to membrane	zinc ion binding				0						ACATGGGAAATACTTTACTGC	0.448													27	338					0	0	1	0	0		A	122342388	A	A	122342388	2	1	27	1	0	0	0	0	0	0	0	1	13474	1393	49	5		5	RNF148	7	122342388	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	382009	122342388	36796275	3726	26077											
TAS2R16	50833	broad.mit.edu	37	chr7	122635453	122635453	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaggtgattgttaagttgCaaagtacataattcaaatta	15	13	7	6	0	1	1	1	1	0	0	1	1	1	1	1	1	2	4	1	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:122635453C>A	uc003vkl.1	-	1	302	c.236G>T	c.(235-237)TGC>TTC	p.C79F		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	79	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						TGTTAAGTTGCAAAGTACATA	0.388													5	37					0.184627	0.185716	1	1	0		A	122635453	A	A	122635453	3	1	27	1	0	0	0	0	1	0	0	0	15594	710	25	5	643	5	TAS2R16	7	122635453	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	293065	122635453	36503210	3727	26078											
TAS2R16	50833	broad.mit.edu	37	chr7	122635559	122635559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatgagaatcatgtccacagGcatcagccttctgacttgca	11	10	9	11	0	3	2	2	2	1	1	4	4	4	2	2	1	2	2	2	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:122635559G>A	uc003vkl.1	-	1	196	c.130C>T	c.(130-132)CCT>TCT	p.P44S		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	44	Helical; Name=2; (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						ATGTCCACAGGCATCAGCCTT	0.443													16	48					0	0	1	0	0		A	122635559	A	A	122635559	3	1	27	1	0	0	0	0	1	0	0	0	15594	1203	42	2	749	2	TAS2R16	7	122635559	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	106	122635559	36503104	3728	26079											
TAS2R16	50833	broad.mit.edu	37	chr7	122635650	122635650	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaggactcaagcacataGatgatcatgaagaagacagt	17	7	10	7	0	3	5	3	2	0	3	3	6	3	6	0	1	1	1	0	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:122635650G>T	uc003vkl.1	-	1	105	c.39C>A	c.(37-39)ATC>ATA	p.I13I		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	13	Helical; Name=1; (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						CAAGCACATAGATGATCATGA	0.453													4	39					0.00909568	0.0093211	1	1	0		T	122635650	T	T	122635650	2	4	27	1	0	0	0	0	0	0	0	1	15594	932	33	5		5	TAS2R16	7	122635650	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	91	122635650	36503013	3729	26080											
IQUB	154865	broad.mit.edu	37	chr7	123143001	123143001	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaataaaaacattacctgCgtatccctacaaaatatact	19	10	2	10	1	0	0	0	0	0	0	1	0	1	0	2	0	5	1	2	0	11	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:123143001C>T	uc003vkn.2	-	5	1441	c.864G>A	c.(862-864)ACG>ACA	p.T288T	IQUB_uc003vko.2_Silent_p.T288T|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Silent_p.T288T|IQUB_uc003vkq.2_3'UTR	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	288										ovary(3)|large_intestine(1)	4						ACATTACCTGCGTATCCCTAC	0.338													5	98					0	0	1	0	0		T	123143001	T	T	123143001	2	4	27	1	0	0	0	0	0	0	0	1	7836	755	27	1		1	IQUB	7	123143001	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	507351	123143001	35995662	3730	26081											
GPR37	2861	broad.mit.edu	37	chr7	124387074	124387074	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcgtgggcaaacaaaagtaAcagccaaaataccaccacag	19	3	8	11	1	0	0	0	0	0	0	0	0	0	0	3	1	5	2	3	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:124387074A>G	uc003vli.2	-	2	1998	c.1347T>C	c.(1345-1347)TGT>TGC	p.C449C		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	449	Helical; Name=5; (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						AACAAAAGTAACAGCCAAAAT	0.478													17	68					0	0	1	0	0		G	124387074	G	G	124387074	2	3	27	1	0	0	0	0	0	0	0	1	6706	41	2	3		3	GPR37	7	124387074	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1244073	124387074	34751589	3731	26082											
GRM8	2918	broad.mit.edu	37	chr7	126173162	126173162	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagtacaagtgaccatcaaGaggatactgtatccaagtga	16	8	9	8	0	1	3	1	2	0	1	2	4	2	4	2	1	2	2	2	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:126173162G>A	uc003vlr.2	-	8	2585	c.2274C>T	c.(2272-2274)CTC>CTT	p.L758L	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.L758L|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	758	Helical; Name=5; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TGACCATCAAGAGGATACTGT	0.448										HNSCC(24;0.065)			5	67					0	0	1	0	0		A	126173162	A	A	126173162	2	1	27	1	0	0	0	0	0	0	0	1	6819	929	33	4		4	GRM8	7	126173162	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1786088	126173162	32965501	3732	26083											
FSCN3	29999	broad.mit.edu	37	chr7	127238634	127238634	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacagcctgctgatggccaAtgtcatccttccaggtgagt	9	10	10	12	0	1	2	1	2	0	0	3	2	3	2	4	2	3	1	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:127238634A>G	uc003vmd.1	+	4	1325	c.1106A>G	c.(1105-1107)AAT>AGT	p.N369S	FSCN3_uc011koh.1_Missense_Mutation_p.N235S|FSCN3_uc010llc.1_Missense_Mutation_p.N369S	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	369						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						CTGATGGCCAATGTCATCCTT	0.532													9	114					0	0	1	0	0		G	127238634	G	G	127238634	3	3	27	1	0	0	0	0	1	0	0	0	6083	101	4	3	1120	3	FSCN3	7	127238634	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1065472	127238634	31900029	3733	26084											
SND1	27044	broad.mit.edu	37	chr7	127361418	127361418	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagacgattcacctgtccagCatccgaccaccgaggctgga	11	6	10	14	3	1	1	1	0	0	1	3	5	3	2	5	2	1	2	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:127361418C>T	uc003vmi.2	+	10	1342	c.1116C>T	c.(1114-1116)AGC>AGT	p.S372S	SND1_uc010lle.2_Silent_p.S25S	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	372	TNase-like 3.				gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						ACCTGTCCAGCATCCGACCAC	0.502													8	70					0	0	1	0	0		T	127361418	T	T	127361418	2	4	27	1	0	0	0	0	0	0	0	1	14869	709	25	2		2	SND1	7	127361418	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	122784	127361418	31777245	3734	26085											
SND1	27044	broad.mit.edu	37	chr7	127731895	127731895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctcgtccctccagatcacaGaatacctgaatgcccaagag	12	8	7	14	1	2	4	1	1	1	3	5	4	4	4	4	0	2	0	4	0	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:127731895G>A	uc003vmi.2	+	23	2855	c.2629G>A	c.(2629-2631)GAA>AAA	p.E877K	SND1_uc010lle.2_Missense_Mutation_p.E530K	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	877					gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						CCAGATCACAGAATACCTGAA	0.413													11	167					0	0	1	0	0		A	127731895	A	A	127731895	3	1	27	1	0	0	0	0	1	0	0	0	14869	943	33	4	2719	4	SND1	7	127731895	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	370477	127731895	31406768	3735	26086											
IMPDH1	3614	broad.mit.edu	37	chr7	128038643	128038643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggccaccagctcatcgCaatcattgacgataggcagc	11	8	10	12	2	2	2	2	2	0	0	3	3	2	2	2	2	2	3	2	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:128038643C>T	uc011kol.1	-	7	750	c.644G>A	c.(643-645)TGC>TAC	p.C215Y	IMPDH1_uc011kom.1_Missense_Mutation_p.C210Y|IMPDH1_uc003vmt.2_Missense_Mutation_p.C190Y|IMPDH1_uc003vmu.2_Missense_Mutation_p.C300Y|IMPDH1_uc003vmw.2_Missense_Mutation_p.C290Y|IMPDH1_uc011kon.1_Missense_Mutation_p.C267Y|IMPDH1_uc003vmv.2_Missense_Mutation_p.C264Y|IMPDH1_uc003vmx.2_Missense_Mutation_p.C223Y|IMPDH1_uc003vmy.2_Missense_Mutation_p.C231Y	NM_001142573	NP_001136045	P20839	IMDH1_HUMAN	inosine monophosphate dehydrogenase 1 isoform e	215	CBS 2.				GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	DNA binding|IMP dehydrogenase activity|metal ion binding			skin(2)|lung(1)|central_nervous_system(1)	4					Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)|Ribavirin(DB00811)|Thioguanine(DB00352)	CAGCTCATCGCAATCATTGAC	0.552											OREG0018292	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	94					0	0	1	0	0		T	128038643	T	T	128038643	3	4	27	1	0	0	0	0	1	0	0	0	7742	710	25	2	932	2	IMPDH1	7	128038643	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	306748	128038643	31100020	3736	26087											
CCDC136	64753	broad.mit.edu	37	chr7	128452045	128452045	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccccttctataaaaatgagCcttgagtcctacgggaagag	12	10	9	10	1	1	3	0	2	1	1	3	4	3	4	4	1	2	0	4	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:128452045C>T	uc003vnv.1	+	13	2587	c.2220C>T	c.(2218-2220)AGC>AGT	p.S740S	CCDC136_uc003vnu.1_Intron|CCDC136_uc003vnw.1_Intron|CCDC136_uc003vnx.1_Silent_p.S556S|CCDC136_uc010llq.1_Silent_p.S109S|CCDC136_uc003vny.1_Silent_p.S350S	NM_022742	NP_073579	Q96JN2	CC136_HUMAN	coiled-coil domain containing 136	740						integral to membrane	protein binding			ovary(2)	2						TAAAAATGAGCCTTGAGTCCT	0.507													5	88					0	0	1	0	0		T	128452045	T	T	128452045	2	4	27	1	0	0	0	0	0	0	0	1	2773	738	26	2		2	CCDC136	7	128452045	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	413402	128452045	30686618	3737	26088											
FLNC	2318	broad.mit.edu	37	chr7	128470877	128470877	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctgaccgacctgcagcgCgacctcagcgacgggctccg	6	4	13	18	7	1	1	1	1	0	0	2	4	2	1	5	1	3	2	5	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:128470877C>T	uc003vnz.3	+	1	395	c.186C>T	c.(184-186)CGC>CGT	p.R62R	FLNC_uc003voa.3_Silent_p.R62R	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	62	CH 1.|Actin-binding.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						ACCTGCAGCGCGACCTCAGCG	0.637													4	23					0	0	1	0	0		T	128470877	T	T	128470877	2	4	27	1	0	0	0	0	0	0	0	1	5949	755	27	1		1	FLNC	7	128470877	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18832	128470877	30667786	3738	26089											
FLNC	2318	broad.mit.edu	37	chr7	128478072	128478072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccaacaatgacaaggatcGcacctatgctgtctcctatg	11	10	7	13	1	1	1	0	1	1	0	4	2	2	2	3	1	2	2	3	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:128478072G>A	uc003vnz.3	+	6	1210	c.1001G>A	c.(1000-1002)CGC>CAC	p.R334H	FLNC_uc003voa.3_Missense_Mutation_p.R334H	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	334	Filamin 1.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GACAAGGATCGCACCTATGCT	0.542													4	64					0	0	1	0	0		A	128478072	A	A	128478072	3	1	27	1	0	0	0	0	1	0	0	0	5949	1087	38	1	1023	1	FLNC	7	128478072	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7195	128478072	30660591	3739	26090											
TNPO3	23534	broad.mit.edu	37	chr7	128610202	128610202	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatgaaaacaatcttacCggtctgtcaacctgcatgat	12	11	6	12	1	4	2	2	2	2	0	4	2	4	2	3	1	4	1	3	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:128610202C>T	uc003vol.1	-	20	2972	c.2598G>A	c.(2596-2598)CCG>CCA	p.P866P	TNPO3_uc010llx.1_Silent_p.P277P|TNPO3_uc003vom.1_Silent_p.P800P|TNPO3_uc010lly.1_Silent_p.P900P|TNPO3_uc010llz.1_Silent_p.P802P	NM_012470	NP_036602	Q9Y5L0	TNPO3_HUMAN	transportin 3	866					splicing factor protein import into nucleus	cytoplasm|nucleus	protein binding|receptor activity			ovary(2)|skin(2)|lung(1)	5						ACAATCTTACCGGTCTGTCAA	0.468													10	108					0	0	1	0	0		T	128610202	T	T	128610202	2	4	27	1	0	0	0	0	0	0	0	1	16362	666	23	1		1	TNPO3	7	128610202	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	132130	128610202	30528461	3740	26091											
TSPAN33	340348	broad.mit.edu	37	chr7	128804332	128804332	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctcgagggaaagtgagTgagatcatcaacaatgccat	14	7	12	8	1	2	2	2	2	0	1	3	5	2	3	1	2	2	1	1	2	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:128804332T>C	uc003vop.1	+	5	610	c.381T>C	c.(379-381)AGT>AGC	p.S127S	TSPAN33_uc003voq.1_5'Flank	NM_178562	NP_848657	Q86UF1	TSN33_HUMAN	tetraspanin 33	127	Extracellular (Potential).					integral to membrane				ovary(1)	1						GGAAAGTGAGTGAGATCATCA	0.483											OREG0018304	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	100					0	0	1	0	0		C	128804332	C	C	128804332	2	2	27	1	0	0	0	0	0	0	0	1	16674	1693	59	3		3	TSPAN33	7	128804332	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	194130	128804332	30334331	3741	26092											
SMO	6608	broad.mit.edu	37	chr7	128843398	128843398	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcctgacttcctgcgcTgcactcctgaccgcttccct	3	11	9	18	2	0	2	0	2	0	0	3	2	3	2	5	1	2	4	5	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:128843398T>G	uc003vor.2	+	2	785	c.505T>G	c.(505-507)TGC>GGC	p.C169G		NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	169	FZ.|Extracellular (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						CTTCCTGCGCTGCACTCCTGA	0.667			Mis		skin basal cell 								4	20					0	0	1	0	0		G	128843398	G	G	128843398	3	3	27	1	0	0	0	0	1	0	0	0	14825	1580	55	5	511	5	SMO	7	128843398	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	39066	128843398	30295265	3742	26093											
FAM40B	57464	broad.mit.edu	37	chr7	129122759	129122759	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatgctgcaactttatgTcctaaagctactaaagttac	12	12	7	10	0	0	0	0	0	0	0	1	0	1	0	2	1	6	4	2	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:129122759T>A	uc011koy.1	+	20	2166	c.2126T>A	c.(2125-2127)GTC>GAC	p.V709D	FAM40B_uc003vow.2_Missense_Mutation_p.V709D|FAM40B_uc011koz.1_Missense_Mutation_p.V201D	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	709											0						CAACTTTATGTCCTAAAGCTA	0.483													8	71					0	0	1	0	0		A	129122759	A	A	129122759	3	1	27	1	0	0	0	0	1	0	0	0	5575	1667	58	5	2204	5	FAM40B	7	129122759	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	279361	129122759	30015904	3743	26094											
FAM40B	57464	broad.mit.edu	37	chr7	129122851	129122851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccatttaccagaaagtgCgtcaccgcatgaacgatgac	13	7	9	12	3	1	3	1	2	0	1	1	4	1	3	3	0	4	1	3	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:129122851C>T	uc011koy.1	+	20	2258	c.2218C>T	c.(2218-2220)CGT>TGT	p.R740C	FAM40B_uc003vow.2_Missense_Mutation_p.R740C|FAM40B_uc011koz.1_Missense_Mutation_p.R232C	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	740											0						CCAGAAAGTGCGTCACCGCAT	0.448													12	50					0	0	1	0	0		T	129122851	T	T	129122851	3	4	27	1	0	0	0	0	1	0	0	0	5575	768	27	1	2296	1	FAM40B	7	129122851	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	92	129122851	30015812	3744	26095											
MKLN1	4289	broad.mit.edu	37	chr7	131113829	131113829	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtggctgggatggaacacaAgatcttgctgacttctgggc	8	10	15	8	0	2	2	0	1	2	1	2	4	2	4	0	5	2	2	0	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:131113829A>G	uc011kpm.1	+	9	949	c.885A>G	c.(883-885)CAA>CAG	p.Q295Q	MKLN1_uc011kpl.1_Silent_p.Q272Q|MKLN1_uc010lmh.2_Silent_p.Q295Q|MKLN1_uc003vqs.2_Silent_p.Q88Q	NM_013255	NP_037387	Q9UL63	MKLN1_HUMAN	muskelin 1, intracellular mediator containing	295	Kelch 1.				signal transduction	cytoplasm	protein binding			breast(1)	1	Melanoma(18;0.162)					ATGGAACACAAGATCTTGCTG	0.388													9	75					0	0	1	0	0		G	131113829	G	G	131113829	2	3	27	1	0	0	0	0	0	0	0	1	9621	69	3	3		3	MKLN1	7	131113829	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1990978	131113829	28024834	3745	26096											
PLXNA4	91584	broad.mit.edu	37	chr7	131883351	131883351	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaggttctcccctcggatAgtgaccttggtgcccccttc	4	11	9	17	1	1	1	0	1	1	0	4	2	1	2	6	3	1	1	6	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:131883351A>C	uc003vra.3	-	13	2860	c.2631T>G	c.(2629-2631)ACT>ACG	p.T877T		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	877	IPT/TIG 1.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CCCCTCGGATAGTGACCTTGG	0.557													11	79					0	0	1	0	0		C	131883351	C	C	131883351	2	2	27	1	0	0	0	0	0	0	0	1	12141	407	15	5		5	PLXNA4	7	131883351	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	769522	131883351	27255312	3746	26097											
PLXNA4	91584	broad.mit.edu	37	chr7	131982870	131982870	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcctctctgacatgatgtAgagttgctcgtggtccttgg	5	14	12	10	1	1	3	0	2	1	1	4	3	2	3	2	2	2	3	2	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:131982870A>G	uc003vra.3	-	4	1712	c.1483T>C	c.(1483-1485)TAC>CAC	p.Y495H		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	495	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GACATGATGTAGAGTTGCTCG	0.572													5	75					0	0	1	0	0		G	131982870	G	G	131982870	3	3	27	1	0	0	0	0	1	0	0	0	12141	420	15	3	4317	3	PLXNA4	7	131982870	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	99519	131982870	27155793	3747	26098											
PLXNA4	91584	broad.mit.edu	37	chr7	132192892	132192892	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggcttcccatccactgcCgtggcaatgaacagcttgtc	7	10	10	14	2	0	1	0	1	0	0	4	1	2	1	3	2	3	3	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:132192892C>T	uc003vra.3	-	2	790	c.561G>A	c.(559-561)ACG>ACA	p.T187T	PLXNA4_uc003vrc.2_Silent_p.T187T|PLXNA4_uc003vrb.2_Silent_p.T187T	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	187	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CATCCACTGCCGTGGCAATGA	0.527													8	107					0	0	1	0	0		T	132192892	T	T	132192892	2	4	27	1	0	0	0	0	0	0	0	1	12141	639	23	1		1	PLXNA4	7	132192892	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	210022	132192892	26945771	3748	26099											
EXOC4	60412	broad.mit.edu	37	chr7	132959843	132959843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggatgaattgattgtacagCactacacagaattgacgaca	15	10	9	7	1	0	4	0	3	0	1	0	6	0	5	0	1	3	2	0	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:132959843C>T	uc003vrk.2	+	2	228	c.193C>T	c.(193-195)CAC>TAC	p.H65Y	EXOC4_uc011kpo.1_5'UTR|EXOC4_uc003vri.2_Missense_Mutation_p.H65Y|EXOC4_uc003vrj.2_Missense_Mutation_p.H65Y	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	65	Potential.				vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				GATTGTACAGCACTACACAGA	0.458													18	58					0	0	1	0	0		T	132959843	T	T	132959843	3	4	27	1	0	0	0	0	1	0	0	0	5314	710	25	2	199	2	EXOC4	7	132959843	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	766951	132959843	26178820	3749	26100											
EXOC4	60412	broad.mit.edu	37	chr7	133002097	133002097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacaaacctccctactcctcGaaaattccttgatacctctc	11	12	2	16	1	1	1	0	1	1	0	6	2	4	1	5	0	4	0	5	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:133002097G>A	uc003vrk.2	+	5	751	c.716G>A	c.(715-717)CGA>CAA	p.R239Q	EXOC4_uc011kpo.1_Missense_Mutation_p.R138Q|EXOC4_uc003vri.2_Missense_Mutation_p.R239Q|EXOC4_uc003vrj.2_Missense_Mutation_p.R239Q	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	239					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				CCTACTCCTCGAAAATTCCTT	0.403													26	167					0	0	1	0	0		A	133002097	A	A	133002097	3	1	27	1	0	0	0	0	1	0	0	0	5314	1058	37	1	734	1	EXOC4	7	133002097	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	42254	133002097	26136566	3750	26101											
AKR1B1	231	broad.mit.edu	37	chr7	134133174	134133174	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagccgagggggctgtaggcGgtcaccacgatgcctttgga	7	7	17	10	3	1	0	1	0	0	0	1	4	1	1	3	5	2	2	3	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:134133174G>A	uc003vrp.1	-	6	698	c.624C>T	c.(622-624)ACC>ACT	p.T208T	AKR1B1_uc003vrq.1_RNA	NM_001628	NP_001619	P15121	ALDR_HUMAN	aldo-keto reductase family 1, member B1	208					C21-steroid hormone biosynthetic process|carbohydrate metabolic process|response to stress	cytosol|extracellular space|nucleus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding			ovary(3)	3					NADH(DB00157)|Sulindac(DB00605)	GGCTGTAGGCGGTCACCACGA	0.512													17	71					0	0	1	0	0		A	134133174	A	A	134133174	2	1	27	1	0	0	0	0	0	0	0	1	466	1103	39	1		1	AKR1B1	7	134133174	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1131077	134133174	25005489	3751	26102											
AKR1B10	57016	broad.mit.edu	37	chr7	134221503	134221503	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaacaaacctggactgaaAtataaaccagtgactaacca	18	8	6	9	0	0	3	0	3	0	0	0	4	0	4	3	1	4	0	3	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:134221503A>G	uc003vrr.2	+	5	851	c.531A>G	c.(529-531)AAA>AAG	p.K177K		NM_020299	NP_064695	O60218	AK1BA_HUMAN	aldo-keto reductase family 1, member B10	177					cellular aldehyde metabolic process|digestion|steroid metabolic process	cytoplasm	aldo-keto reductase (NADP) activity|protein binding			skin(5)	5						CTGGACTGAAATATAAACCAG	0.463													15	138					0	0	1	0	0		G	134221503	G	G	134221503	2	3	27	1	0	0	0	0	0	0	0	1	467	98	4	3		3	AKR1B10	7	134221503	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	88329	134221503	24917160	3752	26103											
BPGM	669	broad.mit.edu	37	chr7	134346583	134346583	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatggctttgaatcatggTgaagaacaagtgaggctctg	12	10	13	6	0	2	5	1	3	1	2	2	5	2	5	0	3	1	2	0	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:134346583T>C	uc003vrv.2	+	3	865	c.324T>C	c.(322-324)GGT>GGC	p.G108G	BPGM_uc003vrw.2_Silent_p.G108G|BPGM_uc003vrx.2_Silent_p.G108G	NM_199186	NP_954655	P07738	PMGE_HUMAN	bisphosphoglycerate mutase	108					glycolysis|respiratory gaseous exchange		2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity|phosphoglycerate mutase activity				0						TGAATCATGGTGAAGAACAAG	0.517													5	53					0	0	1	0	0		C	134346583	C	C	134346583	2	2	27	1	0	0	0	0	0	0	0	1	1491	1683	59	3		3	BPGM	7	134346583	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	125080	134346583	24792080	3753	26104											
CNOT4	4850	broad.mit.edu	37	chr7	135098336	135098336	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atattctttaagaagtaactGcagtattttgttgtacctag	12	17	7	5	0	1	1	0	0	1	1	1	1	1	1	1	0	3	5	1	0	7	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:135098336G>A	uc003vsv.1	-	6	895	c.588C>T	c.(586-588)TGC>TGT	p.C196C	CNOT4_uc003vss.2_Silent_p.C196C|CNOT4_uc011kpz.1_Silent_p.C196C|CNOT4_uc003vst.2_Silent_p.C196C|CNOT4_uc003vsu.1_Silent_p.C196C|CNOT4_uc011kpy.1_Silent_p.C196C	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	196	C3H1-type.				nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						AGAAGTAACTGCAGTATTTTG	0.428													6	40					0	0	1	0	0		A	135098336	A	A	135098336	2	1	27	1	0	0	0	0	0	0	0	1	3624	1311	46	2		2	CNOT4	7	135098336	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	751753	135098336	24040327	3754	26105											
NUP205	23165	broad.mit.edu	37	chr7	135292081	135292081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagaacaggcccagtggcgGtgcgagaatctcctcagctg	9	6	15	11	2	2	2	1	0	1	2	3	4	2	2	2	4	3	1	2	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:135292081G>A	uc003vsw.2	+	22	3188	c.3157G>A	c.(3157-3159)GTG>ATG	p.V1053M		NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1053					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						CCCAGTGGCGGTGCGAGAATC	0.498													4	52					0	0	1	0	0		A	135292081	A	A	135292081	3	1	27	1	0	0	0	0	1	0	0	0	10778	1261	44	4	3243	4	NUP205	7	135292081	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	193745	135292081	23846582	3755	26106											
NUP205	23165	broad.mit.edu	37	chr7	135304309	135304309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccagcagaggcccattacGcttttatgcttgatagttgc	9	12	10	10	1	0	2	0	1	0	1	0	3	0	2	2	1	4	4	2	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:135304309G>A	uc003vsw.2	+	29	4133	c.4102G>A	c.(4102-4104)GCT>ACT	p.A1368T	NUP205_uc003vsx.2_5'Flank	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1368					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						GGCCCATTACGCTTTTATGCT	0.488													6	61					0	0	1	0	0		A	135304309	A	A	135304309	3	1	27	1	0	0	0	0	1	0	0	0	10778	1087	38	1	4216	1	NUP205	7	135304309	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	12228	135304309	23834354	3756	26107											
NUP205	23165	broad.mit.edu	37	chr7	135309918	135309918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tattcttccttcagatgctgGccctggctctacttgataga	7	15	8	11	0	3	3	1	1	2	2	4	3	4	3	2	2	2	2	2	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:135309918G>A	uc003vsw.2	+	32	4517	c.4486G>A	c.(4486-4488)GCC>ACC	p.A1496T	NUP205_uc003vsx.2_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1496					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						TCAGATGCTGGCCCTGGCTCT	0.388													12	98					0	0	1	0	0		A	135309918	A	A	135309918	3	1	27	1	0	0	0	0	1	0	0	0	10778	1203	42	2	4612	2	NUP205	7	135309918	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5609	135309918	23828745	3757	26108											
NUP205	23165	broad.mit.edu	37	chr7	135333207	135333207	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacaaaagaaacttctggAcattgaaggattatattcaa	18	11	6	6	0	2	2	1	1	1	1	2	4	2	4	0	2	2	0	0	2	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:135333207A>T	uc003vsw.2	+	43	5973	c.5942A>T	c.(5941-5943)GAC>GTC	p.D1981V	NUP205_uc003vsx.2_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1981					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						AAACTTCTGGACATTGAAGGA	0.393													13	98					0	0	1	0	0		T	135333207	T	T	135333207	3	4	27	1	0	0	0	0	1	0	0	0	10778	275	10	5	6112	5	NUP205	7	135333207	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	23289	135333207	23805456	3758	26109											
SLC13A4	26266	broad.mit.edu	37	chr7	135392908	135392908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccatgcgcagagcaatgcGcttatgcaggttccacttct	9	10	10	12	2	1	1	0	0	1	1	2	2	2	1	2	1	4	5	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:135392908G>A	uc003vta.2	-	3	1008	c.319C>T	c.(319-321)CGC>TGC	p.R107C	SLC13A4_uc003vtb.2_Missense_Mutation_p.R107C|SLC13A4_uc003vtc.1_Missense_Mutation_p.R107C	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	107						integral to plasma membrane	sodium:sulfate symporter activity				0						AGAGCAATGCGCTTATGCAGG	0.592													10	108					0	0	1	0	0		A	135392908	A	A	135392908	3	1	27	1	0	0	0	0	1	0	0	0	14419	1087	38	1	1617	1	SLC13A4	7	135392908	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	59701	135392908	23745755	3759	26110											
PTN	5764	broad.mit.edu	37	chr7	136936085	136936085	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttccagttctggtcttcaGggctgtgttcaggtcacatt	6	15	10	10	0	5	0	3	0	2	0	6	0	6	0	1	3	0	3	1	3	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:136936085G>T	uc003vtq.2	-	4	706	c.343C>A	c.(343-345)CTG>ATG	p.L115M	PTN_uc010lmx.2_Missense_Mutation_p.L115M|PTN_uc003vtr.1_Missense_Mutation_p.L115M	NM_002825	NP_002816	P21246	PTN_HUMAN	pleiotrophin	115					nervous system development|positive regulation of cell division|positive regulation of cell proliferation|transmembrane receptor protein tyrosine phosphatase signaling pathway	endoplasmic reticulum|extracellular space	growth factor activity|heparin binding|protein phosphatase inhibitor activity			upper_aerodigestive_tract(1)|pancreas(1)	2						CTGGTCTTCAGGGCTGTGTTC	0.522													18	167					1.40151e-16	1.56777e-16	1	1	0		T	136936085	T	T	136936085	3	4	27	1	0	0	0	0	1	0	0	0	12791	991	35	5	171	5	PTN	7	136936085	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1543177	136936085	22202578	3760	26111											
DGKI	9162	broad.mit.edu	37	chr7	137282651	137282651	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtactttcctatacaattcaAgcctgtagaggaaatagaag	15	11	8	7	0	1	2	1	0	0	2	2	3	2	3	2	1	3	2	2	1	9	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:137282651A>C	uc003vtt.2	-	12	1254	c.1253T>G	c.(1252-1254)CTT>CGT	p.L418R	DGKI_uc003vtu.2_Missense_Mutation_p.L118R	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	418	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						ATACAATTCAAGCCTGTAGAG	0.458													3	26					0	0	1	0	0		C	137282651	C	C	137282651	3	2	27	1	0	0	0	0	1	0	0	0	4477	72	3	5	2036	5	DGKI	7	137282651	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	346566	137282651	21856012	3761	26112											
CREB3L2	64764	broad.mit.edu	37	chr7	137590509	137590509	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgattttgacaggggcAatttggtggggatgggatag	8	12	16	5	0	1	2	0	2	1	0	1	4	1	4	1	6	0	1	1	6	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:137590509A>G	uc003vtw.2	-	6	1249	c.854T>C	c.(853-855)TTG>TCG	p.L285S	CREB3L2_uc003vtx.1_Missense_Mutation_p.L285S|CREB3L2_uc003vtv.2_Missense_Mutation_p.L222S	NM_194071	NP_919047	Q70SY1	CR3L2_HUMAN	cAMP responsive element binding protein 3-like	285	Cytoplasmic (Potential).				chondrocyte differentiation|positive regulation of transcription, DNA-dependent|response to endoplasmic reticulum stress|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	cAMP response element binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		FUS/CREB3L2(158)	soft_tissue(158)|upper_aerodigestive_tract(1)|ovary(1)	160						TGACAGGGGCAATTTGGTGGG	0.522			T	FUS	fibromyxoid sarcoma								15	195					0	0	1	0	0		G	137590509	G	G	137590509	3	3	27	1	0	0	0	0	1	0	0	0	3860	131	5	3	736	3	CREB3L2	7	137590509	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	307858	137590509	21548154	3762	26113											
AKR1D1	6718	broad.mit.edu	37	chr7	137773399	137773399	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttgctattgacacagggtAccgacatattgatggggcct	9	11	13	8	1	0	2	0	2	0	0	0	3	0	2	2	4	2	3	2	4	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:137773399A>G	uc003vtz.2	+	2	215	c.146A>G	c.(145-147)TAC>TGC	p.Y49C	AKR1D1_uc011kqb.1_Missense_Mutation_p.Y49C|AKR1D1_uc011kqc.1_RNA|AKR1D1_uc011kqd.1_Intron|AKR1D1_uc011kqe.1_Missense_Mutation_p.Y49C|AKR1D1_uc011kqf.1_Missense_Mutation_p.Y49C	NM_005989	NP_005980	P51857	AK1D1_HUMAN	aldo-keto reductase family 1, member D1	49					androgen metabolic process|bile acid biosynthetic process|bile acid catabolic process|C21-steroid hormone metabolic process|cholesterol catabolic process|digestion	cytosol	aldo-keto reductase (NADP) activity|delta4-3-oxosteroid 5beta-reductase activity|steroid binding			skin(1)	1						GACACAGGGTACCGACATATT	0.493													11	42					0	0	1	0	0		G	137773399	G	G	137773399	3	3	27	1	0	0	0	0	1	0	0	0	473	391	14	3	152	3	AKR1D1	7	137773399	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	182890	137773399	21365264	3763	26114											
TRIM24	8805	broad.mit.edu	37	chr7	138210040	138210040	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtgatcatagatacactAatcaccaaactgatggaaaa	20	8	6	7	0	2	3	2	2	0	1	2	4	2	4	1	1	2	0	1	1	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:138210040A>G	uc003vuc.2	+	5	1034	c.819A>G	c.(817-819)CTA>CTG	p.L273L	TRIM24_uc003vub.2_Silent_p.L273L	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	273					cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						TAGATACACTAATCACCAAAC	0.249													6	50					0	0	1	0	0		G	138210040	G	G	138210040	2	3	27	1	0	0	0	0	0	0	0	1	16524	349	13	3		3	TRIM24	7	138210040	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	436641	138210040	20928623	3764	26115											
KIAA1549	57670	broad.mit.edu	37	chr7	138556002	138556002	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggcgataagctggatcttActggggacccgccggctagc	8	8	14	11	3	1	0	0	0	1	0	1	3	1	2	2	5	3	2	2	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:138556002A>G	uc011kql.1	-	13	4501	c.4452T>C	c.(4450-4452)AGT>AGC	p.S1484S	KIAA1549_uc011kqi.1_Silent_p.S268S|KIAA1549_uc003vuk.3_Silent_p.S1434S|KIAA1549_uc011kqj.1_Silent_p.S1484S|KIAA1549_uc011kqk.1_Silent_p.S268S	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1484						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GCTGGATCTTACTGGGGACCC	0.627			O	BRAF	pilocytic astrocytoma								4	56					0	0	1	0	0		G	138556002	G	G	138556002	2	3	27	1	0	0	0	0	0	0	0	1	8260	388	14	3		3	KIAA1549	7	138556002	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	345962	138556002	20582661	3765	26116											
KIAA1549	57670	broad.mit.edu	37	chr7	138603255	138603255	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgaaacatcagttggtgAagcagaggacgcaaatgcaa	17	6	12	6	1	1	4	1	2	0	2	1	5	1	5	0	2	3	4	0	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:138603255A>G	uc011kql.1	-	2	1166	c.1117T>C	c.(1117-1119)TCA>CCA	p.S373P	KIAA1549_uc003vuk.3_Missense_Mutation_p.S323P|KIAA1549_uc011kqj.1_Missense_Mutation_p.S373P	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	373						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TCAGTTGGTGAAGCAGAGGAC	0.507			O	BRAF	pilocytic astrocytoma								11	103					0	0	1	0	0		G	138603255	G	G	138603255	3	3	27	1	0	0	0	0	1	0	0	0	8260	246	9	3	4811	3	KIAA1549	7	138603255	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	47253	138603255	20535408	3766	26117											
KIAA1549	57670	broad.mit.edu	37	chr7	138603418	138603418	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcagtgtatctgtctgcActtgtggcccaaacctcctc	8	12	7	14	0	3	0	1	0	2	0	5	0	4	0	3	1	2	2	3	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:138603418A>G	uc011kql.1	-	2	1003	c.954T>C	c.(952-954)AGT>AGC	p.S318S	KIAA1549_uc003vuk.3_Silent_p.S268S|KIAA1549_uc011kqj.1_Silent_p.S318S	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	318						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						ATCTGTCTGCACTTGTGGCCC	0.547			O	BRAF	pilocytic astrocytoma								8	100					0	0	1	0	0		G	138603418	G	G	138603418	2	3	27	1	0	0	0	0	0	0	0	1	8260	156	6	3		3	KIAA1549	7	138603418	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	163	138603418	20535245	3767	26118											
KIAA1549	57670	broad.mit.edu	37	chr7	138603691	138603691	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccgaaaggtgtggaaatgActggcggactcagcatatgc	12	7	14	8	2	1	1	1	1	0	0	1	5	1	3	1	4	2	1	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:138603691A>T	uc011kql.1	-	2	730	c.681T>A	c.(679-681)AGT>AGA	p.S227R	KIAA1549_uc003vuk.3_Missense_Mutation_p.S177R|KIAA1549_uc011kqj.1_Missense_Mutation_p.S227R	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	227						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TGTGGAAATGACTGGCGGACT	0.493			O	BRAF	pilocytic astrocytoma								9	106					0	0	1	0	0		T	138603691	T	T	138603691	3	4	27	1	0	0	0	0	1	0	0	0	8260	272	10	5	5247	5	KIAA1549	7	138603691	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	273	138603691	20534972	3768	26119											
ZC3HAV1	56829	broad.mit.edu	37	chr7	138764925	138764925	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaattcttggctgccctgAaagaaccgatctctactctt	11	12	7	11	1	3	3	0	1	3	2	4	4	3	3	2	1	3	1	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:138764925A>G	uc003vun.2	-	4	1150	c.762T>C	c.(760-762)TTT>TTC	p.F254F	ZC3HAV1_uc003vuo.2_5'Flank|ZC3HAV1_uc003vup.2_Silent_p.F254F	NM_020119	NP_064504	Q7Z2W4	ZCCHV_HUMAN	zinc finger antiviral protein isoform 1	254	Binding to EXOSC5 (By similarity).				response to virus	cytoplasm|nucleus	NAD+ ADP-ribosyltransferase activity|RNA binding|zinc ion binding			ovary(1)	1						GGCTGCCCTGAAAGAACCGAT	0.478													19	239					0	0	1	0	0		G	138764925	G	G	138764925	2	3	27	1	0	0	0	0	0	0	0	1	17600	243	9	3		3	ZC3HAV1	7	138764925	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	161234	138764925	20373738	3769	26120											
UBN2	254048	broad.mit.edu	37	chr7	138968607	138968607	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaccgccttcccttatctAccccctcacctggaaatggt	7	12	6	16	1	2	0	1	0	1	0	3	1	3	1	6	2	2	1	6	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:138968607A>G	uc011kqr.1	+	15	2956	c.2956A>G	c.(2956-2958)ACC>GCC	p.T986A		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	986	Ser-rich.									ovary(1)|skin(1)	2						TCCCTTATCTACCCCCTCACC	0.483													7	84					0	0	1	0	0		G	138968607	G	G	138968607	3	3	27	1	0	0	0	0	1	0	0	0	16919	391	14	3	3014	3	UBN2	7	138968607	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	203682	138968607	20170056	3770	26121											
KLRG2	346689	broad.mit.edu	37	chr7	139168212	139168212	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgagggctccaggcctgcGcccgccgccttctccacggc	3	6	12	20	5	1	0	0	0	1	0	4	1	2	0	6	3	1	1	6	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:139168212G>A	uc003vvb.2	-	1	246	c.177C>T	c.(175-177)GGC>GGT	p.G59G	KLRG2_uc010lnc.2_Silent_p.G59G	NM_198508	NP_940910	A4D1S0	KLRG2_HUMAN	killer cell lectin-like receptor subfamily G,	59	Pro-rich.					integral to membrane	sugar binding			central_nervous_system(1)	1	Melanoma(164;0.233)					CCAGGCCTGCGCCCGCCGCCT	0.736													7	24					0	0	1	0	0		A	139168212	A	A	139168212	2	1	27	1	0	0	0	0	0	0	0	1	8438	1074	38	1		1	KLRG2	7	139168212	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	199605	139168212	19970451	3771	26122											
JHDM1D	80853	broad.mit.edu	37	chr7	139826622	139826622	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctccaccaattcagacaTcctttcaaaaaacaaacata	18	8	2	13	0	2	1	2	0	0	1	4	2	4	1	4	0	2	0	4	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:139826622T>A	uc003vvm.2	-	6	707	c.703A>T	c.(703-705)ATG>TTG	p.M235L		NM_030647	NP_085150	Q6ZMT4	KDM7_HUMAN	jumonji C domain containing histone demethylase	235	JmjC.				midbrain development|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1	Melanoma(164;0.0142)					AATTCAGACATCCTTTCAAAA	0.353													7	49					0	0	1	0	0		A	139826622	A	A	139826622	3	1	27	1	0	0	0	0	1	0	0	0	7964	1449	50	5	2182	5	JHDM1D	7	139826622	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	658410	139826622	19312041	3772	26123											
BRAF	673	broad.mit.edu	37	chr7	140439719	140439719	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttactgagatctggagacaGgtatcctcgtcccaccataa	11	10	8	12	1	1	2	0	1	1	2	4	4	3	2	3	2	1	1	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:140439719G>A	uc003vwc.3	-	17	2081	c.2020C>T	c.(2020-2022)CTG>TTG	p.L674L		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	674	Protein kinase.				activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCTGGAGACAGGTATCCTCGT	0.373		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				6	62					0	0	1	0	0		A	140439719	A	A	140439719	2	1	27	1	0	0	0	0	0	0	0	1	1499	991	35	4		4	BRAF	7	140439719	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	613097	140439719	18698944	3773	26124											
AGK	55750	broad.mit.edu	37	chr7	141341172	141341172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaatattacgaaggcttgCgtcctactgggcacaaccac	12	8	10	11	2	0	1	0	0	0	1	1	3	1	1	2	2	4	2	2	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:141341172C>T	uc003vwi.2	+	12	1022	c.851C>T	c.(850-852)GCG>GTG	p.A284V	AGK_uc011krg.1_Intron	NM_018238	NP_060708	Q53H12	AGK_HUMAN	acylglycerol kinase precursor	284					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway	mitochondrial membrane	acylglycerol kinase activity|ATP binding|diacylglycerol kinase activity|NAD+ kinase activity			ovary(1)|breast(1)	2	Melanoma(164;0.0171)					CGAAGGCTTGCGTCCTACTGG	0.498													12	34					0	0	1	0	0		T	141341172	T	T	141341172	3	4	27	1	0	0	0	0	1	0	0	0	383	768	27	1	893	1	AGK	7	141341172	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	901453	141341172	17797491	3774	26125											
WEE2	494551	broad.mit.edu	37	chr7	141422951	141422951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtgggagtttgcaagctGctatatctgaaaacactaag	13	10	11	7	0	1	1	0	1	1	0	1	2	1	2	0	2	4	4	0	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:141422951G>A	uc003vwn.2	+	6	1304	c.898G>A	c.(898-900)GCT>ACT	p.A300T	FLJ40852_uc011krh.1_Intron|FLJ40852_uc010lnm.2_Intron|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028	P0C1S8	WEE2_HUMAN	WEE1 homolog 2	300	Protein kinase.				egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)					TTTGCAAGCTGCTATATCTGA	0.368													6	125					0	0	1	0	0		A	141422951	A	A	141422951	3	1	27	1	0	0	0	0	1	0	0	0	17371	1319	46	2	920	2	WEE2	7	141422951	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	81779	141422951	17715712	3775	26126											
TAS2R3	50831	broad.mit.edu	37	chr7	141464641	141464641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagagatccaaccactgaggCccacaagagggccatcagaa	15	3	10	13	0	1	4	1	1	0	3	2	5	2	4	4	2	1	0	4	2	3	0	rs149980259		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:141464641C>T	uc003vwp.1	+	1	745	c.683C>T	c.(682-684)GCC>GTC	p.A228V		NM_016943	NP_058639	Q9NYW6	TA2R3_HUMAN	taste receptor T2R3	228	Cytoplasmic (Potential).				sensory perception of taste		taste receptor activity			central_nervous_system(1)	1	Melanoma(164;0.0171)					ACCACTGAGGCCCACAAGAGG	0.388													5	53					0	0	1	0	0		T	141464641	T	T	141464641	3	4	27	1	0	0	0	0	1	0	0	0	15597	739	26	2	685	2	TAS2R3	7	141464641	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	41690	141464641	17674022	3776	26127											
TAS2R4	50832	broad.mit.edu	37	chr7	141478688	141478688	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaagatccccaggctgctgCtggcctgtgtgctgatttct	6	12	11	12	0	1	2	0	1	1	1	2	2	2	2	3	2	3	4	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:141478688C>T	uc003vwq.1	+	1	400	c.400C>T	c.(400-402)CTG>TTG	p.L134L		NM_016944	NP_058640	Q9NYW5	TA2R4_HUMAN	taste receptor T2R4	134	Helical; Name=4; (Potential).				sensory perception of taste	cilium membrane	taste receptor activity				0	Melanoma(164;0.0171)			BRCA - Breast invasive adenocarcinoma(188;0.196)		CAGGCTGCTGCTGGCCTGTGT	0.468													44	129					0	0	1	0	0		T	141478688	T	T	141478688	2	4	27	1	0	0	0	0	0	0	0	1	15602	796	28	2		2	TAS2R4	7	141478688	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14047	141478688	17659975	3777	26128											
MGAM	8972	broad.mit.edu	37	chr7	141724940	141724940	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtttctgatgaacagcAatgccatgggtaaaggaata	13	10	13	5	0	1	2	0	2	1	0	1	3	1	3	1	3	3	3	1	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:141724940A>G	uc003vwy.2	+	8	1027	c.973A>G	c.(973-975)AAT>GAT	p.N325D		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	325	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GATGAACAGCAATGCCATGGG	0.408													5	56					0	0	1	0	0		G	141724940	G	G	141724940	3	3	27	1	0	0	0	0	1	0	0	0	9559	130	5	3	999	3	MGAM	7	141724940	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	246252	141724940	17413723	3778	26129											
MGAM	8972	broad.mit.edu	37	chr7	141765238	141765238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgggagacaacacggccGcatgggatcagctgaagaag	12	4	16	9	2	1	3	1	1	0	2	1	5	1	4	1	4	2	3	1	4	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:141765238G>A	uc003vwy.2	+	38	4642	c.4588G>A	c.(4588-4590)GCA>ACA	p.A1530T		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1530	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	CAACACGGCCGCATGGGATCA	0.617													3	16					0	0	1	0	0		A	141765238	A	A	141765238	3	1	27	1	0	0	0	0	1	0	0	0	9559	1087	38	1	4734	1	MGAM	7	141765238	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	40298	141765238	17373425	3779	26130											
TRPV5	56302	broad.mit.edu	37	chr7	142611854	142611854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccatcagccagcagaaaCgcattaggtctccaaaaatc	15	6	7	13	1	2	1	1	0	1	1	4	1	2	1	3	1	4	2	3	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:142611854C>T	uc003wby.1	-	12	1739	c.1475G>A	c.(1474-1476)CGT>CAT	p.R492H		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	492	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					CCAGCAGAAACGCATTAGGTC	0.468													7	22					0	0	1	0	0		T	142611854	T	T	142611854	3	4	27	1	0	0	0	0	1	0	0	0	16625	536	19	1	730	1	TRPV5	7	142611854	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	846616	142611854	16526809	3780	26131											
C7orf34	135927	broad.mit.edu	37	chr7	142637475	142637475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttcgaagagcactttgtggCctcctcagtgggtgagatgt	7	12	14	8	1	1	2	1	1	0	2	3	4	2	2	2	2	1	2	2	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:142637475C>T	uc003wca.2	+	2	286	c.245C>T	c.(244-246)GCC>GTC	p.A82V		NM_178829	NP_849151	Q96L11	CG034_HUMAN	hypothetical protein LOC135927	57						extracellular region					0	Melanoma(164;0.059)					CACTTTGTGGCCTCCTCAGTG	0.547													4	65					0	0	1	0	0		T	142637475	T	T	142637475	3	4	27	1	0	0	0	0	1	0	0	0	2392	739	26	2	251	2	C7orf34	7	142637475	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25621	142637475	16501188	3781	26132											
KEL	3792	broad.mit.edu	37	chr7	142638398	142638398	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accacgtgcacagcggaaatAcctggcaaaggctggggtgc	11	5	14	11	2	0	0	0	0	0	0	0	1	0	1	2	5	4	3	2	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:142638398A>G	uc003wcb.2	-	19	2350	c.2140T>C	c.(2140-2142)TAT>CAT	p.Y714H		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	714	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					CAGCGGAAATACCTGGCAAAG	0.592													5	84					0	0	1	0	0		G	142638398	G	G	142638398	3	3	27	1	0	0	0	0	1	0	0	0	8158	391	14	3	62	3	KEL	7	142638398	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	923	142638398	16500265	3782	26133											
KEL	3792	broad.mit.edu	37	chr7	142640415	142640415	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatgatgctgccagcagcGccaaagttcacggctctagg	9	7	12	13	2	2	1	1	1	1	0	2	1	2	1	3	2	4	4	3	2	2	2	rs145850557		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:142640415G>A	uc003wcb.2	-	16	1929	c.1719C>T	c.(1717-1719)GGC>GGT	p.G573G		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	573	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					TGCCAGCAGCGCCAAAGTTCA	0.537													4	39					0	0	1	0	0		A	142640415	A	A	142640415	2	1	27	1	0	0	0	0	0	0	0	1	8158	1074	38	1		1	KEL	7	142640415	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2017	142640415	16498248	3783	26134											
TAS2R39	259285	broad.mit.edu	37	chr7	142881406	142881406	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaataatttgtgccagatcAtcatggctgcctaccctgcc	9	11	9	12	0	2	1	2	0	0	1	2	2	2	2	4	2	4	1	4	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:142881406A>G	uc011ksw.1	+	1	895	c.895A>G	c.(895-897)ATC>GTC	p.I299V		NM_176881	NP_795362	P59534	T2R39_HUMAN	taste receptor, type 2, member 39	299	Helical; Name=7; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			skin(1)	1	Melanoma(164;0.059)					GTGCCAGATCATCATGGCTGC	0.443													8	43					0	0	1	0	0		G	142881406	G	G	142881406	3	3	27	1	0	0	0	0	1	0	0	0	15601	217	8	3	897	3	TAS2R39	7	142881406	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	240991	142881406	16257257	3784	26135											
TAS2R40	259286	broad.mit.edu	37	chr7	142919425	142919425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattttcagtctgctattccGaattgtttataaccaaaact	12	16	4	9	1	2	0	1	0	1	0	3	1	3	0	2	0	3	2	2	0	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:142919425G>A	uc011ksx.1	+	1	254	c.254G>A	c.(253-255)CGA>CAA	p.R85Q		NM_176882	NP_795363	P59535	T2R40_HUMAN	taste receptor, type 2, member 40	85	Extracellular (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			ovary(1)	1	Melanoma(164;0.059)					CTGCTATTCCGAATTGTTTAT	0.433													12	95					0	0	1	0	0		A	142919425	A	A	142919425	3	1	27	1	0	0	0	0	1	0	0	0	15603	1058	37	1	256	1	TAS2R40	7	142919425	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	38019	142919425	16219238	3785	26136											
CLCN1	1180	broad.mit.edu	37	chr7	143013357	143013357	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaacaaagctggtggggtAgtgacccccagtaccagtat	11	8	13	9	0	0	2	0	2	0	0	0	2	0	2	3	3	3	4	3	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:143013357A>G	uc003wcr.1	+	1	139	c.52A>G	c.(52-54)AGT>GGT	p.S18G	CLCN1_uc011ktc.1_5'UTR	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	18	Cytoplasmic (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					CTGGTGGGGTAGTGACCCCCA	0.632													4	93					0	0	1	0	0		G	143013357	G	G	143013357	3	3	27	1	0	0	0	0	1	0	0	0	3465	420	15	3	54	3	CLCN1	7	143013357	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	93932	143013357	16125306	3786	26137											
CLCN1	1180	broad.mit.edu	37	chr7	143039041	143039041	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcagcagcgctgactggTgccgtttcccacacagtctc	7	8	12	14	2	1	1	0	1	1	0	3	2	2	2	2	2	4	4	2	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:143039041T>C	uc003wcr.1	+	15	1689	c.1602T>C	c.(1600-1602)GGT>GGC	p.G534G	CLCN1_uc011ktc.1_Silent_p.G146G	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	534					muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					CGCTGACTGGTGCCGTTTCCC	0.507													5	47					0	0	1	0	0		C	143039041	C	C	143039041	2	2	27	1	0	0	0	0	0	0	0	1	3465	1683	59	3		3	CLCN1	7	143039041	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25684	143039041	16099622	3787	26138											
OR2A5	393046	broad.mit.edu	37	chr7	143747579	143747579	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagatgctcctctctgggCttttctccctgttatacgtc	4	17	7	13	1	3	1	1	0	2	1	7	1	4	1	2	1	2	3	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:143747579C>A	uc011ktw.1	+	1	85	c.85C>A	c.(85-87)CTT>ATT	p.L29I		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	29	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					CCTCTCTGGGCTTTTCTCCCT	0.507													9	130					1.12685e-05	1.21022e-05	1	1	0		A	143747579	A	A	143747579	3	1	27	1	0	0	0	0	1	0	0	0	11000	797	28	5	87	5	OR2A5	7	143747579	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	708538	143747579	15391084	3788	26139											
OR2A12	346525	broad.mit.edu	37	chr7	143792746	143792746	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttctgtcaaatcatgtcCgtattcaaattggcctgtgc	8	17	7	9	1	4	0	3	0	1	0	5	0	5	0	2	1	1	1	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:143792746C>A	uc011kty.1	+	1	546	c.546C>A	c.(544-546)TCC>TCA	p.S182S		NM_001004135	NP_001004135	Q8NGT7	O2A12_HUMAN	olfactory receptor, family 2, subfamily A,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	Melanoma(164;0.0783)					AAATCATGTCCGTATTCAAAT	0.478													12	124					1.61879e-10	1.79257e-10	1	1	0		A	143792746	A	A	143792746	2	1	27	1	0	0	0	0	0	0	0	1	10994	639	23	5		5	OR2A12	7	143792746	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	45167	143792746	15345917	3789	26140											
TPK1	27010	broad.mit.edu	37	chr7	144150652	144150652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacaggttagcttttgatggCcatggtccagaggagtgggt	9	11	15	6	0	0	2	0	1	0	1	1	3	1	3	2	5	2	2	2	5	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:144150652C>T	uc003weq.2	-	9	821	c.718G>A	c.(718-720)GCC>ACC	p.A240T	TPK1_uc003weo.2_Missense_Mutation_p.A186T|TPK1_uc003wep.2_RNA|TPK1_uc003wer.2_Missense_Mutation_p.A191T|TPK1_uc003wes.2_RNA	NM_022445	NP_071890	Q9H3S4	TPK1_HUMAN	thiamin pyrophosphokinase 1 isoform a	240					thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)	CTTTTGATGGCCATGGTCCAG	0.473													13	165					0	0	1	0	0		T	144150652	T	T	144150652	3	4	27	1	0	0	0	0	1	0	0	0	16430	739	26	2	17	2	TPK1	7	144150652	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	357906	144150652	14988011	3790	26141											
CNTNAP2	26047	broad.mit.edu	37	chr7	146805249	146805249	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgttttaggggctgatgtTatcaactttgatggccatgt	7	18	11	5	0	1	2	1	2	0	0	1	2	1	2	1	3	1	3	1	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:146805249T>A	uc003weu.1	+	5	1077	c.561T>A	c.(559-561)GTT>GTA	p.V187V		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	187	Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GGGCTGATGTTATCAACTTTG	0.333										HNSCC(39;0.1)			8	60					0	0	1	0	0		A	146805249	A	A	146805249	2	1	27	1	0	0	0	0	0	0	0	1	3650	1741	61	5		5	CNTNAP2	7	146805249	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2654597	146805249	12333414	3791	26142											
CNTNAP2	26047	broad.mit.edu	37	chr7	147844651	147844651	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattgtagtgaggtcaccaAcccctctcaacgatgaccag	12	8	9	12	1	2	3	2	2	1	1	3	4	2	3	4	1	2	1	4	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:147844651A>G	uc003weu.1	+	17	3139	c.2623A>G	c.(2623-2625)ACC>GCC	p.T875A		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	875	Laminin G-like 3.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GAGGTCACCAACCCCTCTCAA	0.542										HNSCC(39;0.1)			12	117					0	0	1	0	0		G	147844651	G	G	147844651	3	3	27	1	0	0	0	0	1	0	0	0	3650	43	2	3	2689	3	CNTNAP2	7	147844651	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1039402	147844651	11294012	3792	26143											
CUL1	8454	broad.mit.edu	37	chr7	148497652	148497652	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagtggatggtgaaaaggAcacctacagttacttggctt	11	10	13	7	1	0	1	0	1	0	0	0	4	0	3	1	4	2	2	1	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:148497652A>G	uc010lpg.2	+	22	2835	c.2309A>G	c.(2308-2310)GAC>GGC	p.D770G	CUL1_uc003wey.2_Missense_Mutation_p.D770G|CUL1_uc003wez.2_Missense_Mutation_p.D660G|CUL1_uc003wfa.2_Missense_Mutation_p.D431G	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	770					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GGTGAAAAGGACACCTACAGT	0.393													7	75					0	0	1	0	0		G	148497652	G	G	148497652	3	3	27	1	0	0	0	0	1	0	0	0	4057	275	10	3	2391	3	CUL1	7	148497652	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	653001	148497652	10641011	3793	26144											
EZH2	2146	broad.mit.edu	37	chr7	148525902	148525902	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtctccatcatcatcatcGtcatcatcattatattgacc	10	15	3	13	2	7	1	6	1	1	0	10	1	7	1	2	0	0	0	2	0	2	3	rs137864062		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:148525902G>A	uc003wfd.1	-	6	721	c.555C>T	c.(553-555)GAC>GAT	p.D185D	EZH2_uc011kug.1_Silent_p.D176D|EZH2_uc003wfb.1_Silent_p.D185D|EZH2_uc003wfc.1_Silent_p.D146D|EZH2_uc011kuh.1_Silent_p.D176D|EZH2_uc011kui.1_Silent_p.D185D|EZH2_uc011kuj.1_RNA	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	185	Interaction with DNMT1, DNMT3A and DNMT3B.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			catcatcatcgtcatcatcat	0.348			Mis		DLBCL								4	60					0	0	1	0	0		A	148525902	A	A	148525902	2	1	27	1	0	0	0	0	0	0	0	1	5342	1136	40	1		1	EZH2	7	148525902	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	28250	148525902	10612761	3794	26145											
ZNF786	136051	broad.mit.edu	37	chr7	148769148	148769148	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacacgccacaccggaagTgcctctgtacccgagggctg	8	5	12	16	4	1	0	0	0	1	0	1	2	1	1	4	2	2	3	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:148769148T>A	uc003wfh.2	-	4	853	c.716A>T	c.(715-717)CAC>CTC	p.H239L	ZNF786_uc011kuk.1_Missense_Mutation_p.H202L|ZNF786_uc003wfi.2_Missense_Mutation_p.H153L	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	239					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			ACACCGGAAGTGCCTCTGTAC	0.652													5	19					0	0	1	0	0		A	148769148	A	A	148769148	3	1	27	1	0	0	0	0	1	0	0	0	18183	1696	59	5	1636	5	ZNF786	7	148769148	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	243246	148769148	10369515	3795	26146											
ZNF425	155054	broad.mit.edu	37	chr7	148800939	148800939	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaagctgcccctgatgcagTagctcttgtcacactccgga	8	10	9	14	1	3	1	2	1	1	0	4	2	4	2	3	1	4	4	3	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:148800939T>C	uc003wfj.2	-	4	2097	c.2024A>G	c.(2023-2025)TAC>TGC	p.Y675C		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	675	C2H2-type 17.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			CCTGATGCAGTAGCTCTTGTC	0.547													15	129					0	0	1	0	0		C	148800939	C	C	148800939	3	2	27	1	0	0	0	0	1	0	0	0	17924	1638	57	3	238	3	ZNF425	7	148800939	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31791	148800939	10337724	3796	26147											
ZNF282	8427	broad.mit.edu	37	chr7	148895675	148895675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggccgactgtgaaaagaCggccgtggaatttgggaacc	10	7	15	9	3	0	2	0	1	0	1	0	5	0	4	3	4	1	1	3	4	4	1	rs139886507		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:148895675C>T	uc003wfm.2	+	2	521	c.416C>T	c.(415-417)ACG>ATG	p.T139M	ZNF282_uc011kun.1_Missense_Mutation_p.T139M|ZNF282_uc003wfn.2_Missense_Mutation_p.T79M|ZNF282_uc003wfo.2_Missense_Mutation_p.T79M	NM_003575	NP_003566	Q9UDV7	ZN282_HUMAN	zinc finger protein 282	139					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)	Lung(243;0.145)		TGTGAAAAGACGGCCGTGGAA	0.642													18	66					0	0	1	0	0		T	148895675	T	T	148895675	3	4	27	1	0	0	0	0	1	0	0	0	17844	536	19	1	422	1	ZNF282	7	148895675	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	94736	148895675	10242988	3797	26148											
ZNF777	27153	broad.mit.edu	37	chr7	149129101	149129101	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatgaagctcttgccgcaCtcggggcaggcgtgcggccg	5	6	17	13	6	1	1	0	1	1	0	2	2	1	2	2	5	3	3	2	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:149129101C>T	uc003wfv.2	-	6	2425	c.2262G>A	c.(2260-2262)GAG>GAA	p.E754E		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	Error:Variant_position_missing_in_Q9ULD5_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			TCTTGCCGCACTCGGGGCAGG	0.667													7	79					0	0	1	0	0		T	149129101	T	T	149129101	2	4	27	1	0	0	0	0	0	0	0	1	18175	564	20	4		4	ZNF777	7	149129101	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	233426	149129101	10009562	3798	26149											
ZNF777	27153	broad.mit.edu	37	chr7	149129387	149129387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgtagggccgctcacccGtgtgcgtgatctggtgtttg	4	12	15	10	4	2	1	1	1	1	0	2	1	2	1	2	2	1	3	2	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:149129387G>A	uc003wfv.2	-	6	2139	c.1976C>T	c.(1975-1977)ACG>ATG	p.T659M		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	659					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			CCGCTCACCCGTGTGCGTGAT	0.632													35	162					0	0	1	0	0		A	149129387	A	A	149129387	3	1	27	1	0	0	0	0	1	0	0	0	18175	1145	40	1	523	1	ZNF777	7	149129387	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	286	149129387	10009276	3799	26150											
ZNF777	27153	broad.mit.edu	37	chr7	149152807	149152807	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgggggtggatactgggTcccttcctgggaagccaggg	6	8	18	9	0	0	0	0	0	0	0	2	2	2	2	3	6	3	1	3	6	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:149152807T>C	uc003wfv.2	-	2	470	c.307A>G	c.(307-309)ACC>GCC	p.T103A		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	103					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GGATACTGGGTCCCTTCCTGG	0.617													28	139					0	0	1	0	0		C	149152807	C	C	149152807	3	2	27	1	0	0	0	0	1	0	0	0	18175	1667	58	3	2208	3	ZNF777	7	149152807	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	23420	149152807	9985856	3800	26151											
ZNF467	168544	broad.mit.edu	37	chr7	149467579	149467579	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaagaggacatctgctccTgggcattatgggatccttcc	9	11	11	10	0	1	2	0	0	1	2	4	4	4	4	3	3	1	2	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:149467579T>C	uc003wgd.2	-	3	242	c.101A>G	c.(100-102)CAG>CGG	p.Q34R	ZNF467_uc003wgc.2_Missense_Mutation_p.Q34R	NM_207336	NP_997219	Q7Z7K2	ZN467_HUMAN	zinc finger protein 467	34					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CATCTGCTCCTGGGCATTATG	0.537													5	76					0	0	1	0	0		C	149467579	C	C	149467579	3	2	27	1	0	0	0	0	1	0	0	0	17952	1580	55	3	1698	3	ZNF467	7	149467579	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	314772	149467579	9671084	3801	26152											
ZNF467	168544	broad.mit.edu	37	chr7	149468102	149468102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcacccagggagctgaggGcctccaaggtctctctcatg	7	8	12	14	0	3	1	2	1	2	0	6	2	4	2	3	3	1	2	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:149468102G>A	uc003wgd.2	-	2	161	c.20C>T	c.(19-21)GCC>GTC	p.A7V	ZNF467_uc003wgc.2_Missense_Mutation_p.A7V	NM_207336	NP_997219	Q7Z7K2	ZN467_HUMAN	zinc finger protein 467	7					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GGAGCTGAGGGCCTCCAAGGT	0.542													4	59					0	0	1	0	0		A	149468102	A	A	149468102	3	1	27	1	0	0	0	0	1	0	0	0	17952	1203	42	2	1783	2	ZNF467	7	149468102	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	523	149468102	9670561	3802	26153											
SSPO	23145	broad.mit.edu	37	chr7	149516491	149516491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcccgcagctgcggagtggGccagcagcgccgcctgcggg	4	4	17	16	5	0	0	0	0	0	0	1	1	1	1	4	3	5	3	4	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:149516491G>A	uc010lpk.2	+	85	11894	c.11894G>A	c.(11893-11895)GGC>GAC	p.G3965D	SSPO_uc010lpm.1_5'Flank|SSPO_uc003wgg.2_5'Flank|SSPO_uc003wgh.2_5'Flank|SSPO_uc003wgi.1_5'Flank	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3965	TSP type-1 17.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TGCGGAGTGGGCCAGCAGCGC	0.701													3	26					0	0	1	0	0		A	149516491	A	A	149516491	3	1	27	1	0	0	0	0	1	0	0	0	15214	1203	42	2	12222	2	SSPO	7	149516491	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	48389	149516491	9622172	3803	26154											
SSPO	23145	broad.mit.edu	37	chr7	149529972	149529972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagagcccgtggtgctgcCggtcatccacagctgccagt	7	7	12	15	2	1	1	1	0	0	1	2	1	2	1	4	2	5	2	4	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:149529972C>T	uc010lpk.2	+	111	15386	c.15386C>T	c.(15385-15387)CCG>CTG	p.P5129L	SSPO_uc003wgh.2_RNA	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	5129	CTCK.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GTGGTGCTGCCGGTCATCCAC	0.662													4	19					0	0	1	0	0		T	149529972	T	T	149529972	3	4	27	1	0	0	0	0	1	0	0	0	15214	652	23	1	15811	1	SSPO	7	149529972	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13481	149529972	9608691	3804	26155											
ZNF862	643641	broad.mit.edu	37	chr7	149557749	149557749	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaatctccatgataaatcAtctcggttagtcagaggtta	12	13	7	9	1	4	2	2	1	2	1	6	2	4	2	2	2	0	2	2	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:149557749A>G	uc010lpn.2	+	7	1692	c.1500A>G	c.(1498-1500)TCA>TCG	p.S500S	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	500	TTF-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						ATGATAAATCATCTCGGTTAG	0.453													8	108					0	0	1	0	0		G	149557749	G	G	149557749	2	3	27	1	0	0	0	0	0	0	0	1	18220	204	8	3		3	ZNF862	7	149557749	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	27777	149557749	9580914	3805	26156											
GIMAP8	155038	broad.mit.edu	37	chr7	150174507	150174507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggacaaaacagctgtggCgaaactggaggccatctttg	13	7	13	8	1	1	1	0	0	1	1	1	4	1	3	1	4	3	1	1	4	3	1	rs146125013		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:150174507C>T	uc003whj.2	+	5	1967	c.1637C>T	c.(1636-1638)GCG>GTG	p.A546V		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	546						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		ACAGCTGTGGCGAAACTGGAG	0.502													13	81					0	0	1	0	0		T	150174507	T	T	150174507	3	4	27	1	0	0	0	0	1	0	0	0	6400	768	27	1	1651	1	GIMAP8	7	150174507	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	616758	150174507	8964156	3806	26157											
ABP1	26	broad.mit.edu	37	chr7	150553893	150553893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggagcatcccaatgtcaCcgagtttgctgtggggcccc	7	8	12	14	1	1	0	1	0	0	0	2	2	2	1	5	3	2	3	5	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:150553893C>T	uc003why.1	+	3	4553	c.335C>T	c.(334-336)ACC>ATC	p.T112I	ABP1_uc003whz.1_Missense_Mutation_p.T112I|ABP1_uc003wia.1_Missense_Mutation_p.T112I	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	112					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	CCCAATGTCACCGAGTTTGCT	0.597													6	93					0	0	1	0	0		T	150553893	T	T	150553893	3	4	27	1	0	0	0	0	1	0	0	0	98	507	18	4	337	4	ABP1	7	150553893	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	379386	150553893	8584770	3807	26158											
ABP1	26	broad.mit.edu	37	chr7	150553979	150553979	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtcctcctgggcatcgAggcccatctccacagcagag	9	6	10	16	1	1	1	0	0	1	1	5	2	3	1	5	2	1	2	5	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:150553979A>G	uc003why.1	+	3	4639	c.421A>G	c.(421-423)AGG>GGG	p.R141G	ABP1_uc003whz.1_Missense_Mutation_p.R141G|ABP1_uc003wia.1_Missense_Mutation_p.R141G	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	141					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	CTGGGCATCGAGGCCCATCTC	0.607													9	70					0	0	1	0	0		G	150553979	G	G	150553979	3	3	27	1	0	0	0	0	1	0	0	0	98	295	11	3	423	3	ABP1	7	150553979	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	86	150553979	8584684	3808	26159											
ABP1	26	broad.mit.edu	37	chr7	150554819	150554819	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagccctctgcctctttgaaAtgcccacaggggtgcccctt	6	10	10	15	0	2	1	0	1	2	0	2	2	2	1	5	2	4	0	5	2	1	2	rs67761274		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:150554819A>G	uc003why.1	+	3	5479	c.1261A>G	c.(1261-1263)ATG>GTG	p.M421V	ABP1_uc003whz.1_Missense_Mutation_p.M421V|ABP1_uc003wia.1_Missense_Mutation_p.M421V	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	421					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	CCTCTTTGAAATGCCCACAGG	0.587													3	48					0	0	1	0	0		G	150554819	G	G	150554819	3	3	27	1	0	0	0	0	1	0	0	0	98	101	4	3	1263	3	ABP1	7	150554819	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	840	150554819	8583844	3809	26160											
ABP1	26	broad.mit.edu	37	chr7	150555934	150555934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caagacaccgcgtggtccagCcaactctggagcagacgcag	11	4	12	14	3	1	2	0	0	1	2	2	3	2	3	3	2	3	2	3	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:150555934C>T	uc003why.1	+	4	5872	c.1654C>T	c.(1654-1656)CCA>TCA	p.P552S	ABP1_uc003whz.1_Missense_Mutation_p.P552S|ABP1_uc003wia.1_Missense_Mutation_p.P552S	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	552					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	CGTGGTCCAGCCAACTCTGGA	0.577													4	40					0	0	1	0	0		T	150555934	T	T	150555934	3	4	27	1	0	0	0	0	1	0	0	0	98	739	26	2	1660	2	ABP1	7	150555934	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1115	150555934	8582729	3810	26161											
ATG9B	285973	broad.mit.edu	37	chr7	150715789	150715789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtcctcgtcgtagacggTgagcacaagcagcgcggcga	9	5	14	13	7	0	2	0	1	0	1	3	3	1	2	1	2	3	3	1	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:150715789T>C	uc011kvc.1	-	6	1712	c.1636A>G	c.(1636-1638)ACC>GCC	p.T546A	ATG9B_uc003wig.3_Intron	NM_173681	NP_775952	Q674R7	ATG9B_HUMAN	ATG9 autophagy related 9 homolog B	546	Helical; (Potential).				autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane				ovary(1)	1	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TCGTAGACGGTGAGCACAAGC	0.716													4	30					0	0	1	0	0		C	150715789	C	C	150715789	3	2	27	1	0	0	0	0	1	0	0	0	1104	1696	59	3	1169	3	ATG9B	7	150715789	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	159855	150715789	8422874	3811	26162											
CHPF2	54480	broad.mit.edu	37	chr7	150932145	150932145	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccacaggactcggtacaTccagacagagctgggctccc	9	8	10	14	1	0	2	0	0	0	2	4	3	3	3	3	3	2	3	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:150932145T>A	uc003wjr.1	+	2	1788	c.275T>A	c.(274-276)ATC>AAC	p.I92N	CHPF2_uc003wjq.1_Missense_Mutation_p.I84N	NM_019015	NP_061888	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	92	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(1)	1						ACTCGGTACATCCAGACAGAG	0.567													4	57					0	0	1	0	0		A	150932145	A	A	150932145	3	1	27	1	0	0	0	0	1	0	0	0	3372	1435	50	5	281	5	CHPF2	7	150932145	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	216356	150932145	8206518	3812	26163											
NUB1	51667	broad.mit.edu	37	chr7	151049913	151049913	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagaatagctgaaaccttTggacttcaagaaaattatat	17	12	6	6	0	1	3	1	1	0	2	1	4	1	4	1	1	3	1	1	1	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:151049913T>C	uc003wjx.2	+	5	437	c.432T>C	c.(430-432)TTT>TTC	p.F144F	NUB1_uc003wjv.2_RNA|NUB1_uc003wjw.2_Silent_p.F120F|NUB1_uc010lqb.2_RNA|NUB1_uc003wjy.2_RNA|NUB1_uc011kvj.1_RNA|NUB1_uc010lqc.2_5'Flank	NM_016118	NP_057202	Q9Y5A7	NUB1_HUMAN	NEDD8 ultimate buster-1	120					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|response to interferon-gamma|response to tumor necrosis factor|ubiquitin-dependent protein catabolic process	nucleus	protein binding				0			OV - Ovarian serous cystadenocarcinoma(82;0.00569)	UCEC - Uterine corpus endometrioid carcinoma (81;0.172)		CTGAAACCTTTGGACTTCAAG	0.239													9	62					0	0	1	0	0		C	151049913	C	C	151049913	2	2	27	1	0	0	0	0	0	0	0	1	10733	1809	63	3		3	NUB1	7	151049913	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	117768	151049913	8088750	3813	26164											
NUB1	51667	broad.mit.edu	37	chr7	151053219	151053219	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggttttgttacagcagcaGagacagtggtggatccagaa	11	11	13	6	0	0	2	0	0	0	2	1	4	1	3	1	3	3	4	1	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:151053219G>T	uc003wjx.2	+	7	681	c.676G>T	c.(676-678)GAG>TAG	p.E226*	NUB1_uc003wjv.2_RNA|NUB1_uc003wjw.2_Nonsense_Mutation_p.E202*|NUB1_uc010lqb.2_RNA|NUB1_uc003wjy.2_RNA|NUB1_uc011kvj.1_Intron|NUB1_uc010lqc.2_RNA	NM_016118	NP_057202	Q9Y5A7	NUB1_HUMAN	NEDD8 ultimate buster-1	202	Potential.				positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|response to interferon-gamma|response to tumor necrosis factor|ubiquitin-dependent protein catabolic process	nucleus	protein binding				0			OV - Ovarian serous cystadenocarcinoma(82;0.00569)	UCEC - Uterine corpus endometrioid carcinoma (81;0.172)		TACAGCAGCAGAGACAGTGGT	0.408													4	29					0.00909568	0.0093211	1	1	0		T	151053219	T	T	151053219	4	4	27	1	0	0	0	0	0	1	0	0	10733	943	33	5	626	5	NUB1	7	151053219	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3306	151053219	8085444	3814	26165											
GALNTL5	168391	broad.mit.edu	37	chr7	151716738	151716738	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattttcatttaggagcagtTttttcttcgaaagcctggtc	8	18	8	7	1	2	0	1	0	1	0	4	2	2	1	1	2	2	2	1	2	3	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:151716738T>C	uc003wkp.2	+	9	1407	c.1184T>C	c.(1183-1185)TTT>TCT	p.F395S	GALNTL5_uc003wkq.2_Missense_Mutation_p.F146S|GALNTL5_uc003wkr.2_RNA|GALNTL5_uc003wks.2_RNA|GALNTL5_uc010lqf.2_Missense_Mutation_p.F284S	NM_145292	NP_660335	Q7Z4T8	GLTL5_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	395	Lumenal (Potential).					Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2	all_neural(206;0.187)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00427)	UCEC - Uterine corpus endometrioid carcinoma (81;0.18)|BRCA - Breast invasive adenocarcinoma(188;0.166)		TAGGAGCAGTTTTTTCTTCGA	0.373													6	79					0	0	1	0	0		C	151716738	C	C	151716738	3	2	27	1	0	0	0	0	1	0	0	0	6239	1841	64	3	1214	3	GALNTL5	7	151716738	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	663519	151716738	7421925	3815	26166											
MLL3	58508	broad.mit.edu	37	chr7	151845263	151845263	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgagtgctccagtacagccgGctggcttcatagcccacagg	8	7	12	14	2	1	0	1	0	0	0	2	1	2	0	3	3	4	4	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:151845263G>A	uc003wla.2	-	52	13968	c.13749C>T	c.(13747-13749)AGC>AGT	p.S4583S	MLL3_uc003wkz.2_Silent_p.S3701S|MLL3_uc003wkx.2_Silent_p.S741S|MLL3_uc003wky.2_Silent_p.S2147S	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4583	FYR N-terminal.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		AGTACAGCCGGCTGGCTTCAT	0.547			N		medulloblastoma								4	66					0	0	1	0	0		A	151845263	A	A	151845263	2	1	27	1	0	0	0	0	0	0	0	1	9640	1194	42	2		2	MLL3	7	151845263	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	128525	151845263	7293400	3816	26167											
MLL3	58508	broad.mit.edu	37	chr7	151845492	151845492	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcatgaattccctttggtTtgtgcatggggcaaagcata	9	13	11	8	0	1	1	1	1	0	0	2	1	2	1	1	3	2	5	1	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:151845492T>C	uc003wla.2	-	52	13739	c.13520A>G	c.(13519-13521)AAA>AGA	p.K4507R	MLL3_uc003wkz.2_Missense_Mutation_p.K3625R|MLL3_uc003wkx.2_Missense_Mutation_p.K665R|MLL3_uc003wky.2_Missense_Mutation_p.K2071R	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4507					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TCCCTTTGGTTTGTGCATGGG	0.428			N		medulloblastoma								13	130					0	0	1	0	0		C	151845492	C	C	151845492	3	2	27	1	0	0	0	0	1	0	0	0	9640	1841	64	3	1247	3	MLL3	7	151845492	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	229	151845492	7293171	3817	26168											
MLL3	58508	broad.mit.edu	37	chr7	151859810	151859810	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgatggagccttggtggAttctgcatcatcatctcttt	7	16	10	8	0	4	1	2	1	2	0	5	3	4	3	1	3	2	2	1	3	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:151859810A>T	uc003wla.2	-	43	11071	c.10852T>A	c.(10852-10854)TCC>ACC	p.S3618T	MLL3_uc003wkz.2_Missense_Mutation_p.S2679T|MLL3_uc003wky.2_Missense_Mutation_p.S1127T	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3618					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GCCTTGGTGGATTCTGCATCA	0.368			N		medulloblastoma								8	79					0	0	1	0	0		T	151859810	T	T	151859810	3	4	27	1	0	0	0	0	1	0	0	0	9640	333	12	5	3951	5	MLL3	7	151859810	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14318	151859810	7278853	3818	26169											
MLL3	58508	broad.mit.edu	37	chr7	151864460	151864460	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catactgcttacgctgtgaaTcatctgaggaaaaattaaaa	16	11	7	7	1	2	2	1	2	1	0	2	3	2	3	0	1	3	2	0	1	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:151864460T>A	uc003wla.2	-	42	9740	c.9521A>T	c.(9520-9522)GAT>GTT	p.D3174V	MLL3_uc003wkz.2_Missense_Mutation_p.D2235V|MLL3_uc003wky.2_Missense_Mutation_p.D683V	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3174	Gln-rich.|Potential.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACGCTGTGAATCATCTGAGGA	0.363			N		medulloblastoma								5	70					0	0	1	0	0		A	151864460	A	A	151864460	3	1	27	1	0	0	0	0	1	0	0	0	9640	1435	50	5	5286	5	MLL3	7	151864460	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4650	151864460	7274203	3819	26170											
MLL3	58508	broad.mit.edu	37	chr7	151873608	151873608	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaacatggtttaccctaGagactactgtcacattagaa	17	10	6	8	0	1	2	1	0	0	2	1	3	1	2	1	1	3	1	1	1	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:151873608G>T	uc003wla.2	-	38	9149	c.8930C>A	c.(8929-8931)TCT>TAT	p.S2977Y	MLL3_uc003wkz.2_Missense_Mutation_p.S2038Y|MLL3_uc003wky.2_Missense_Mutation_p.S486Y	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2977					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GTTTACCCTAGAGACTACTGT	0.488			N		medulloblastoma								5	47					0.014758	0.0150623	1	1	0		T	151873608	T	T	151873608	3	4	27	1	0	0	0	0	1	0	0	0	9640	942	33	5	5893	5	MLL3	7	151873608	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9148	151873608	7265055	3820	26171											
MLL3	58508	broad.mit.edu	37	chr7	151874681	151874681	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaaatctgggtgcacaggTagctgattaggtagaccctg	10	10	12	9	0	1	2	0	1	1	1	2	2	2	2	2	3	2	4	2	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:151874681T>C	uc003wla.2	-	38	8076	c.7857A>G	c.(7855-7857)CTA>CTG	p.L2619L	MLL3_uc003wkz.2_Silent_p.L1680L|MLL3_uc003wky.2_Silent_p.L128L	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2619	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGTGCACAGGTAGCTGATTAG	0.517			N		medulloblastoma								14	142					0	0	1	0	0		C	151874681	C	C	151874681	2	2	27	1	0	0	0	0	0	0	0	1	9640	1625	57	3		3	MLL3	7	151874681	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1073	151874681	7263982	3821	26172											
MLL3	58508	broad.mit.edu	37	chr7	151917681	151917681	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggtctgaaggacggccacGctattctgatttataatctt	9	13	11	8	2	3	2	0	2	3	0	3	3	3	3	1	4	0	1	1	4	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:151917681G>A	uc003wla.2	-	23	3858	c.3639C>T	c.(3637-3639)AGC>AGT	p.S1213S	MLL3_uc003wkz.2_Silent_p.S274S	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1213					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGACGGCCACGCTATTCTGAT	0.398			N		medulloblastoma								12	44					0	0	1	0	0		A	151917681	A	A	151917681	2	1	27	1	0	0	0	0	0	0	0	1	9640	1078	38	1		1	MLL3	7	151917681	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	43000	151917681	7220982	3822	26173											
MLL3	58508	broad.mit.edu	37	chr7	151960175	151960175	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatgataccctttgtcacAcgtatcacacactagcatct	12	12	5	12	1	3	1	2	1	1	0	3	1	3	1	1	0	2	3	1	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:151960175A>G	uc003wla.2	-	9	1444	c.1225T>C	c.(1225-1227)TGT>CGT	p.C409R		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	409	PHD-type 2.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CCTTTGTCACACGTATCACAC	0.313			N		medulloblastoma								11	78					0	0	1	0	0		G	151960175	G	G	151960175	3	3	27	1	0	0	0	0	1	0	0	0	9640	159	6	3	13714	3	MLL3	7	151960175	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	42494	151960175	7178488	3823	26174											
XRCC2	7516	broad.mit.edu	37	chr7	152346370	152346370	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccaccttctgatttgggaAgtatacatcgtgctgttagg	8	13	12	8	1	1	1	0	1	1	0	2	2	1	2	2	3	2	3	2	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:152346370A>G	uc003wld.2	-	3	286	c.200T>C	c.(199-201)CTT>CCT	p.L67P		NM_005431	NP_005422	O43543	XRCC2_HUMAN	X-ray repair cross complementing protein 2	67					meiosis	nucleus	ATP binding|DNA binding|DNA-dependent ATPase activity			breast(1)|liver(1)	2		all_hematologic(28;0.0592)|Prostate(32;0.081)	OV - Ovarian serous cystadenocarcinoma(82;0.0423)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0429)		TGATTTGGGAAGTATACATCG	0.373								Homologous_recombination					5	68					0	0	1	0	0		G	152346370	G	G	152346370	3	3	27	1	0	0	0	0	1	0	0	0	17479	72	3	3	646	3	XRCC2	7	152346370	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	386195	152346370	6792293	3824	26175											
DPP6	1804	broad.mit.edu	37	chr7	154645512	154645512	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggtgttcctatggtgacGgtgcacaacacaacagataa	12	9	10	10	1	0	2	0	1	0	1	1	2	1	2	2	3	3	2	2	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:154645512G>A	uc003wlk.2	+	17	1818	c.1689G>A	c.(1687-1689)ACG>ACA	p.T563T	DPP6_uc003wli.2_Silent_p.T499T|DPP6_uc003wlm.2_Silent_p.T501T|DPP6_uc011kvq.1_Silent_p.T456T	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	563	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CTATGGTGACGGTGCACAACA	0.413													12	110					0	0	1	0	0		A	154645512	A	A	154645512	2	1	27	1	0	0	0	0	0	0	0	1	4736	1103	39	1		1	DPP6	7	154645512	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2299142	154645512	4493151	3825	26176											
DPP6	1804	broad.mit.edu	37	chr7	154679407	154679407	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgcgttttccgagaggtActtgggcctccatggacttg	5	13	12	11	2	1	1	0	0	1	1	3	3	3	2	3	3	2	2	3	3	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:154679407A>G	uc003wlk.2	+	23	2396	c.2267A>G	c.(2266-2268)TAC>TGC	p.Y756C	DPP6_uc003wli.2_Missense_Mutation_p.Y692C|DPP6_uc003wlm.2_Missense_Mutation_p.Y694C|DPP6_uc011kvq.1_Missense_Mutation_p.Y649C	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	756	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			TCCGAGAGGTACTTGGGCCTC	0.582													6	265					0	0	1	0	0		G	154679407	G	G	154679407	3	3	27	1	0	0	0	0	1	0	0	0	4736	391	14	3	2473	3	DPP6	7	154679407	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	33895	154679407	4459256	3826	26177											
HTR5A	3361	broad.mit.edu	37	chr7	154863077	154863077	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgctccgcacccgcaagtgCgtctccaacgtcatgatcgc	8	7	9	17	6	2	1	1	1	1	0	5	1	3	1	3	0	2	3	3	0	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:154863077C>T	uc003wlu.1	+	1	532	c.468C>T	c.(466-468)TGC>TGT	p.C156C	uc011kvt.1_5'UTR|uc003wlt.2_5'UTR	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	156	Cytoplasmic (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		CCCGCAAGTGCGTCTCCAACG	0.622													10	39					0	0	1	0	0		T	154863077	T	T	154863077	2	4	27	1	0	0	0	0	0	0	0	1	7466	776	27	1		1	HTR5A	7	154863077	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	183670	154863077	4275586	3827	26178											
INSIG1	3638	broad.mit.edu	37	chr7	155094494	155094494	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctatattcgttcttggCtcccttgtatatttttctca	5	21	4	11	1	3	0	1	0	3	0	7	0	5	0	2	1	0	3	2	1	4	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:155094494C>A	uc003wly.2	+	5	953	c.742C>A	c.(742-744)CTC>ATC	p.L248I	INSIG1_uc011kvu.1_Missense_Mutation_p.L96I|INSIG1_uc003wlz.2_Silent_p.G150G	NM_005542	NP_005533	O15503	INSI1_HUMAN	insulin induced gene 1 isoform 1	248	Helical; (Potential).				cell proliferation|ER-nuclear sterol response pathway	endoplasmic reticulum membrane|integral to membrane	protein binding				0	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TCGTTCTTGGCTCCCTTGTAT	0.418													11	142					3.07112e-06	3.32223e-06	1	1	0		A	155094494	A	A	155094494	3	1	27	1	0	0	0	0	1	0	0	0	7781	797	28	5	756	5	INSIG1	7	155094494	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	231417	155094494	4044169	3828	26179											
RBM33	155435	broad.mit.edu	37	chr7	155556609	155556609	+	Frame_Shift_Del	DEL	G	-	-																															ccgcaaggtgacgctgaccaGggggggcctccagcagcccc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:155556609delG	uc010lqk.1	+	15	3451	c.3083delG	c.(3082-3084)AGGfs	p.R1028fs	RBM33_uc011kvv.1_Frame_Shift_Del_p.R838fs|RBM33_uc003wmg.2_5'UTR	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	1028							nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		ACGCTGACCAGGGGGGGCCTC	0.662													6	11	---	---	---	---						.	-	155556609	-	-	155556609	7	5	27	1	0	1	0	1	0	0	0	0	13155	1000	35	0	3141	0	RBM33	7	155556609	Frame_Shift_Del	DEL	G	TCGA-BR-6452-01A-12D-1800-08	462115	155556609	3582054	3829	26180											
NOM1	64434	broad.mit.edu	37	chr7	156758976	156758976	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttctaggcttggacttaaGgatcagcaggagagagaaat	13	11	12	5	0	2	2	1	0	1	2	2	6	2	4	0	4	1	2	0	4	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:156758976G>T	uc003wmy.2	+	8	2061	c.2046G>T	c.(2044-2046)AAG>AAT	p.K682N		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	682	MI.				RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		TTGGACTTAAGGATCAGCAGG	0.443													7	126					5.18039e-06	5.59131e-06	1	1	0		T	156758976	T	T	156758976	3	4	27	1	0	0	0	0	1	0	0	0	10549	991	35	5	2076	5	NOM1	7	156758976	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1202367	156758976	2379687	3830	26181											
UBE3C	9690	broad.mit.edu	37	chr7	156963085	156963085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgctaatggccccaaccttAcccttttggtaaggcagctt	8	13	8	12	0	0	0	0	0	0	0	0	0	0	0	4	3	4	4	4	3	4	7	rs138777174		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:156963085A>G	uc010lqs.2	+	4	595	c.283A>G	c.(283-285)ACC>GCC	p.T95A	UBE3C_uc003wnf.2_Missense_Mutation_p.T52A|UBE3C_uc003wng.2_Missense_Mutation_p.T95A	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	95					protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		CCCCAACCTTACCCTTTTGGT	0.428													4	88					0	0	1	0	0		G	156963085	G	G	156963085	3	3	27	1	0	0	0	0	1	0	0	0	16907	391	14	3	297	3	UBE3C	7	156963085	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	204109	156963085	2175578	3831	26182											
UBE3C	9690	broad.mit.edu	37	chr7	157009567	157009567	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttcttttcaggttatcAccaatctagtgaaaatgttg	10	18	6	7	0	5	1	2	1	3	0	5	1	5	1	1	1	0	2	1	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:157009567A>T	uc010lqs.2	+	14	2128	c.1816A>T	c.(1816-1818)ACC>TCC	p.T606S	UBE3C_uc003wng.2_Missense_Mutation_p.T606S	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	606					protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		TCAGGTTATCACCAATCTAGT	0.458													3	42					0	0	1	0	0		T	157009567	T	T	157009567	3	4	27	1	0	0	0	0	1	0	0	0	16907	159	6	5	1870	5	UBE3C	7	157009567	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	46482	157009567	2129096	3832	26183											
PTPRN2	5799	broad.mit.edu	37	chr7	157985112	157985112	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggaagggcaggtggcgTcggagggcgttggccagggc	6	5	21	9	3	0	0	0	0	0	0	2	2	1	2	2	8	0	2	2	8	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:157985112T>A	uc003wno.2	-	5	577	c.456A>T	c.(454-456)CGA>CGT	p.R152R	PTPRN2_uc003wnp.2_Silent_p.R135R|PTPRN2_uc003wnq.2_Silent_p.R152R|PTPRN2_uc003wnr.2_Silent_p.R114R|PTPRN2_uc011kwa.1_Silent_p.R175R	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	152	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		GCAGGTGGCGTCGGAGGGCGT	0.657													10	85					0	0	1	0	0		A	157985112	A	A	157985112	2	1	27	1	0	0	0	0	0	0	0	1	12833	1654	58	5		5	PTPRN2	7	157985112	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	975545	157985112	1153551	3833	26184											
NCAPG2	54892	broad.mit.edu	37	chr7	158447815	158447815	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttaagacttctaacctggaTaatttgctgataaatgaccc	13	13	6	9	0	1	3	0	2	1	1	1	4	1	4	2	1	2	1	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:158447815T>C	uc003wnv.1	-	21	2786	c.2641A>G	c.(2641-2643)ATC>GTC	p.I881V	NCAPG2_uc010lqu.1_Missense_Mutation_p.I673V|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.I881V|NCAPG2_uc011kwe.1_Missense_Mutation_p.I881V|NCAPG2_uc011kwc.1_Missense_Mutation_p.I382V|NCAPG2_uc011kwd.1_Missense_Mutation_p.I324V	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	881					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		CTAACCTGGATAATTTGCTGA	0.323													6	74					0	0	1	0	0		C	158447815	C	C	158447815	3	2	27	1	0	0	0	0	1	0	0	0	10227	1406	49	3	822	3	NCAPG2	7	158447815	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	462703	158447815	690848	3834	26185											
VIPR2	7434	broad.mit.edu	37	chr7	158829484	158829484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccaggaagcaccttctagggGggagcatggccaccaggagg	10	4	16	11	0	1	0	0	0	1	0	1	3	1	3	4	7	2	2	4	7	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr7:158829484G>A	uc003woh.2	-	7	893	c.707C>T	c.(706-708)CCC>CTC	p.P236L	VIPR2_uc010lqx.2_RNA|VIPR2_uc010lqy.2_RNA	NM_003382	NP_003373	P41587	VIPR2_HUMAN	vasoactive intestinal peptide receptor 2	236	Cytoplasmic (Potential).				cell-cell signaling	integral to plasma membrane				lung(1)|central_nervous_system(1)	2	Ovarian(565;0.152)	all_cancers(7;1.13e-11)|all_epithelial(9;0.000545)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)|STAD - Stomach adenocarcinoma(7;0.18)		CCTTCTAGGGGGGAGCATGGC	0.597													3	28					0	0	1	0	0		A	158829484	A	A	158829484	3	1	27	1	0	0	0	0	1	0	0	0	17196	1232	43	4	637	4	VIPR2	7	158829484	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	381669	158829484	309179	3835	26186											
ZNF596	169270	broad.mit.edu	37	chr8	196313	196313	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcctttagtaaattttttaAccttagacaacatgagagaa	16	13	6	6	0	0	3	0	1	0	2	0	4	0	3	2	0	3	1	2	0	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:196313A>G	uc003wot.2	+	6	1754	c.1466A>G	c.(1465-1467)AAC>AGC	p.N489S	ZNF596_uc003wou.2_Missense_Mutation_p.N388S|ZNF596_uc003wov.2_Missense_Mutation_p.N489S|ZNF596_uc003wow.2_Missense_Mutation_p.N489S	NM_173539	NP_775810	Q8TC21	ZN596_HUMAN	zinc finger protein 596	489	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(2;4.81e-29)|all_epithelial(2;5.03e-19)|Lung NSC(2;8.68e-08)|all_lung(2;1.52e-07)|Ovarian(12;0.00965)|Colorectal(14;0.0367)|all_neural(12;0.0837)|Myeloproliferative disorder(644;0.116)|all_hematologic(2;0.138)|Acute lymphoblastic leukemia(644;0.242)		Epithelial(5;3.77e-18)|all cancers(2;5.2e-17)|OV - Ovarian serous cystadenocarcinoma(5;5.37e-09)|BRCA - Breast invasive adenocarcinoma(11;1.7e-06)|Colorectal(2;6.51e-05)|READ - Rectum adenocarcinoma(2;0.0276)|COAD - Colon adenocarcinoma(149;0.0702)		AAATTTTTTAACCTTAGACAA	0.338													9	110					0	0	1	0	0		G	196313	G	G	196313	3	3	27	1	0	0	0	0	1	0	0	0	18051	43	2	3	1484	3	ZNF596	8	196313	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08		196313	146167709	3836	26187											
C8orf42	157695	broad.mit.edu	37	chr8	442651	442651	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaccttcaatttcatctggTtttttagactgtatattctg	9	19	5	8	0	4	1	2	0	2	1	4	1	4	1	1	1	1	2	1	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:442651T>G	uc003wpd.2	-	3	880	c.306A>C	c.(304-306)AAA>AAC	p.K102N	C8orf42_uc011kwg.1_Missense_Mutation_p.K102N	NM_175075	NP_778250	Q86YL5	CH042_HUMAN	hypothetical protein LOC157695	102											0		Ovarian(12;0.0481)|Colorectal(14;0.0815)|Hepatocellular(245;0.0968)|Myeloproliferative disorder(644;0.116)|all_neural(12;0.122)		Epithelial(5;5.16e-14)|OV - Ovarian serous cystadenocarcinoma(5;7.35e-07)|BRCA - Breast invasive adenocarcinoma(11;4.17e-06)|COAD - Colon adenocarcinoma(149;0.0255)		TTTCATCTGGTTTTTTAGACT	0.428													8	125					0	0	1	0	0		G	442651	G	G	442651	3	3	27	1	0	0	0	0	1	0	0	0	2431	1722	60	5	255	5	C8orf42	8	442651	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	246338	442651	145921371	3837	26188											
ERICH1	157697	broad.mit.edu	37	chr8	614628	614628	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgctcttctcaggaaggAtatgtgtgatccagtaacta	11	12	9	9	0	2	1	1	1	2	0	4	3	3	3	1	2	2	2	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:614628A>T	uc003wph.2	-	6	1372	c.1307T>A	c.(1306-1308)ATC>AAC	p.I436N	ERICH1_uc011kwh.1_Intron|ERICH1_uc003wpe.1_Intron	NM_207332	NP_997215	Q86X53	ERIC1_HUMAN	glutamate-rich 1	436										large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		CTCAGGAAGGATATGTGTGAT	0.294													10	147					0	0	1	0	0		T	614628	T	T	614628	3	4	27	1	0	0	0	0	1	0	0	0	5238	333	12	5	28	5	ERICH1	8	614628	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	171977	614628	145749394	3838	26189											
DLGAP2	9228	broad.mit.edu	37	chr8	1497551	1497551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgacagcacctatcggaCgcccagcgtgctcaaccggc	9	4	11	17	5	1	0	1	0	0	0	2	2	1	1	3	2	5	2	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:1497551C>T	uc003wpl.2	+	2	789	c.692C>T	c.(691-693)ACG>ATG	p.T231M	DLGAP2_uc003wpm.2_Missense_Mutation_p.T231M	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	310					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		ACCTATCGGACGCCCAGCGTG	0.687													6	99					0	0	1	0	0		T	1497551	T	T	1497551	3	4	27	1	0	0	0	0	1	0	0	0	4566	536	19	1	694	1	DLGAP2	8	1497551	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	882923	1497551	144866471	3839	26190											
DLGAP2	9228	broad.mit.edu	37	chr8	1497607	1497607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccactgctaccccgacGcgctgcagagccccttcggg	5	6	12	18	4	0	1	0	0	0	1	1	2	0	1	5	2	4	3	5	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:1497607G>A	uc003wpl.2	+	2	845	c.748G>A	c.(748-750)GCG>ACG	p.A250T	DLGAP2_uc003wpm.2_Missense_Mutation_p.A250T	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	329					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		CTACCCCGACGCGCTGCAGAG	0.677													13	128					0	0	1	0	0		A	1497607	A	A	1497607	3	1	27	1	0	0	0	0	1	0	0	0	4566	1087	38	1	750	1	DLGAP2	8	1497607	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	56	1497607	144866415	3840	26191											
CLN8	2055	broad.mit.edu	37	chr8	1719553	1719553	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcacatcacgacagcaacGggattcttttgctttgaaaa	12	13	7	9	2	3	1	2	1	1	0	3	3	3	2	0	1	3	2	0	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:1719553G>A	uc003wpo.3	+	2	638	c.333G>A	c.(331-333)ACG>ACA	p.T111T		NM_018941	NP_061764	Q9UBY8	CLN8_HUMAN	ceroid-lipofuscinosis, neuronal 8	111	TLC.|Helical; (Potential).				cell death|ceramide biosynthetic process|cholesterol metabolic process|lipid transport|negative regulation of proteolysis|phospholipid metabolic process	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(12;0.0563)|Colorectal(14;0.0815)|Hepatocellular(245;0.0831)		BRCA - Breast invasive adenocarcinoma(11;7.67e-05)|READ - Rectum adenocarcinoma(644;0.0913)		CGACAGCAACGGGATTCTTTT	0.537													12	193					0	0	1	0	0		A	1719553	A	A	1719553	2	1	27	1	0	0	0	0	0	0	0	1	3549	1103	39	1		1	CLN8	8	1719553	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	221946	1719553	144644469	3841	26192											
ARHGEF10	9639	broad.mit.edu	37	chr8	1828298	1828298	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacggtgggcgtggtggagAttcagcagctcaggcagaag	9	6	18	8	2	2	2	2	0	0	2	2	3	2	2	0	5	2	4	0	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:1828298A>T	uc003wpr.2	+	9	1106	c.928A>T	c.(928-930)ATT>TTT	p.I310F	ARHGEF10_uc003wpq.1_Missense_Mutation_p.I335F|ARHGEF10_uc003wps.2_Intron|ARHGEF10_uc003wpt.2_Intron|ARHGEF10_uc003wpv.2_Intron|ARHGEF10_uc010lre.2_5'Flank	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	335	Potential.				centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		CGTGGTGGAGATTCAGCAGCT	0.537													6	69					0	0	1	0	0		T	1828298	T	T	1828298	3	4	27	1	0	0	0	0	1	0	0	0	894	333	12	5	958	5	ARHGEF10	8	1828298	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	108745	1828298	144535724	3842	26193											
ARHGEF10	9639	broad.mit.edu	37	chr8	1851564	1851564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaagagagatgctgatcaaCgctgtgaagtgaagcaaata	17	7	12	5	1	1	5	1	3	0	2	1	7	1	5	0	0	3	3	0	0	6	1	rs141069028		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:1851564C>T	uc003wpr.2	+	16	1946	c.1768C>T	c.(1768-1770)CGC>TGC	p.R590C	ARHGEF10_uc003wpq.1_Missense_Mutation_p.R614C|ARHGEF10_uc003wps.2_Missense_Mutation_p.R552C|ARHGEF10_uc003wpt.2_Missense_Mutation_p.R466C|ARHGEF10_uc003wpv.2_Missense_Mutation_p.R323C|ARHGEF10_uc010lre.2_Missense_Mutation_p.R270C	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	615					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TGCTGATCAACGCTGTGAAGT	0.433													16	91					0	0	1	0	0		T	1851564	T	T	1851564	3	4	27	1	0	0	0	0	1	0	0	0	894	536	19	1	1826	1	ARHGEF10	8	1851564	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23266	1851564	144512458	3843	26194											
ARHGEF10	9639	broad.mit.edu	37	chr8	1877548	1877548	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgagcctggcttgcacGtctcagagcctgtacgctgg	6	10	13	12	2	2	2	2	1	1	1	3	2	2	2	2	2	4	4	2	2	1	2	rs148672492	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:1877548G>A	uc003wpr.2	+	25	3196	c.3018G>A	c.(3016-3018)ACG>ACA	p.T1006T	ARHGEF10_uc003wps.2_Silent_p.T968T|ARHGEF10_uc010lre.2_Silent_p.T657T	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	1031					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TGGCTTGCACGTCTCAGAGCC	0.572													9	159					0	0	1	0	0		A	1877548	A	A	1877548	2	1	27	1	0	0	0	0	0	0	0	1	894	1132	40	1		1	ARHGEF10	8	1877548	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	25984	1877548	144486474	3844	26195											
ARHGEF10	9639	broad.mit.edu	37	chr8	1904934	1904934	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaagaggcatggtctcctaCcatgcacacaacagtcctgt	11	8	10	12	0	1	1	0	0	1	1	3	2	2	2	3	3	3	2	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:1904934C>T	uc003wpr.2	+	29	3718	c.3540C>T	c.(3538-3540)TAC>TAT	p.Y1180Y	ARHGEF10_uc003wps.2_Silent_p.Y1142Y|ARHGEF10_uc010lre.2_Silent_p.Y831Y	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	1205					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TGGTCTCCTACCATGCACACA	0.498													7	101					0	0	1	0	0		T	1904934	T	T	1904934	2	4	27	1	0	0	0	0	0	0	0	1	894	518	18	4		4	ARHGEF10	8	1904934	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	27386	1904934	144459088	3845	26196											
MYOM2	9172	broad.mit.edu	37	chr8	2005502	2005502	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcctatggtgaggccaaGcgacagcgcttcctcagcga	8	6	13	14	4	1	1	1	1	0	0	2	3	2	1	4	2	3	1	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:2005502G>T	uc003wpx.3	+	4	438	c.300G>T	c.(298-300)AAG>AAT	p.K100N	MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	100					muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		GTGAGGCCAAGCGACAGCGCT	0.627													4	63					0.00909568	0.0093211	1	1	0		T	2005502	T	T	2005502	3	4	27	1	0	0	0	0	1	0	0	0	10110	962	34	5	310	5	MYOM2	8	2005502	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	100568	2005502	144358520	3846	26197											
MYOM2	9172	broad.mit.edu	37	chr8	2037899	2037899	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagatccccgagatatgcCgtgtttgacctcatggaagg	9	10	13	9	2	1	3	1	2	0	2	2	6	2	4	4	2	1	1	4	2	2	2	rs144220288		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:2037899C>G	uc003wpx.3	+	15	1851	c.1713C>G	c.(1711-1713)GCC>GCG	p.A571A	MYOM2_uc011kwi.1_5'UTR	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	571	Fibronectin type-III 2.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CGAGATATGCCGTGTTTGACC	0.562													6	85					0	0	1	0	0		G	2037899	G	G	2037899	2	3	27	1	0	0	0	0	0	0	0	1	10110	639	23	5		5	MYOM2	8	2037899	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	32397	2037899	144326123	3847	26198											
MYOM2	9172	broad.mit.edu	37	chr8	2056581	2056581	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttcttcgttttagagctCgagcgtttgatggcattgag	6	18	11	6	3	1	3	0	2	1	1	3	4	1	3	0	1	2	4	0	1	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:2056581C>T	uc003wpx.3	+	24	3141	c.3003C>T	c.(3001-3003)CTC>CTT	p.L1001L	MYOM2_uc011kwi.1_Silent_p.L426L	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1001	Ig-like C2-type 3.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		TTTTAGAGCTCGAGCGTTTGA	0.488													9	186					0	0	1	0	0		T	2056581	T	T	2056581	2	4	27	1	0	0	0	0	0	0	0	1	10110	871	31	1		1	MYOM2	8	2056581	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18682	2056581	144307441	3848	26199											
CSMD1	64478	broad.mit.edu	37	chr8	2830724	2830724	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagctggtgccccatttcAcaggagaagcggagaagact	11	7	12	11	1	2	3	2	0	0	3	2	5	2	3	2	3	3	1	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:2830724A>T	uc011kwk.1	-	57	9231	c.8841T>A	c.(8839-8841)TGT>TGA	p.C2947*	CSMD1_uc011kwj.1_Nonsense_Mutation_p.C2276*|CSMD1_uc010lrg.2_Nonsense_Mutation_p.C957*	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2947	Extracellular (Potential).|Sushi 22.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GCCCCATTTCACAGGAGAAGC	0.552													27	206					0	0	1	0	0		T	2830724	T	T	2830724	4	4	27	1	0	0	0	0	0	1	0	0	3947	157	6	5	1912	5	CSMD1	8	2830724	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	774143	2830724	143533298	3849	26200											
CSMD1	64478	broad.mit.edu	37	chr8	3038700	3038700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaatgcaggtagagttggTtggaagtactgttcagcagt	11	11	15	4	0	1	1	1	0	0	1	1	3	1	3	0	4	3	7	0	4	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:3038700T>C	uc011kwk.1	-	37	6050	c.5660A>G	c.(5659-5661)AAC>AGC	p.N1887S	CSMD1_uc011kwj.1_Missense_Mutation_p.N1279S|CSMD1_uc003wqe.2_Missense_Mutation_p.N1043S|CSMD1_uc010lrg.2_5'UTR	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1887	Extracellular (Potential).|CUB 11.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GTAGAGTTGGTTGGAAGTACT	0.403													3	40					0	0	1	0	0		C	3038700	C	C	3038700	3	2	27	1	0	0	0	0	1	0	0	0	3947	1725	60	3	5173	3	CSMD1	8	3038700	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	207976	3038700	143325322	3850	26201											
CSMD1	64478	broad.mit.edu	37	chr8	3087575	3087575	+	Silent	SNP	A	G	G																															ctgatacctatgcatgtaggAgggtctggttgccaaaagaa																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:3087575A>G	uc011kwk.1	-	27	4725	c.4335T>C	c.(4333-4335)CCT>CCC	p.P1445P	CSMD1_uc011kwj.1_Silent_p.P837P|CSMD1_uc003wqe.2_Silent_p.P601P	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1445	Extracellular (Potential).|Sushi 8.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TGCATGTAGGAGGGTCTGGTT	0.433													16	88					0	0	1	0	0		G	3087575	G	G	3087575	2	3	27	1	0	0	0	0	0	0	0	1	3947	291	11	3		3	CSMD1	8	3087575	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	48875	3087575	143276447	3851	26202	50	2									
CSMD1	64478	broad.mit.edu	37	chr8	3087584	3087584	+	Silent	SNP	T	C	C																															atgcatgtaggagggtctggTtgccaaaagaaccggttatt																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:3087584T>C	uc011kwk.1	-	27	4716	c.4326A>G	c.(4324-4326)CAA>CAG	p.Q1442Q	CSMD1_uc011kwj.1_Silent_p.Q834Q|CSMD1_uc003wqe.2_Silent_p.Q598Q	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1442	Extracellular (Potential).|Sushi 8.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GAGGGTCTGGTTGCCAAAAGA	0.453													10	105					0	0	1	0	0		C	3087584	C	C	3087584	2	2	27	1	0	0	0	0	0	0	0	1	3947	1722	60	3		3	CSMD1	8	3087584	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9	3087584	143276438	3852	26203	50	2									
CSMD1	64478	broad.mit.edu	37	chr8	3165968	3165968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtaaagtggccttcatcaCggatcctatagccgtagtta	10	11	10	10	3	2	0	2	0	0	0	3	1	3	1	3	3	1	3	3	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:3165968C>T	uc011kwk.1	-	24	4082	c.3692G>A	c.(3691-3693)CGT>CAT	p.R1231H	CSMD1_uc011kwj.1_Missense_Mutation_p.R623H|CSMD1_uc003wqe.2_Missense_Mutation_p.R387H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1231	Extracellular (Potential).|Sushi 7.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GCCTTCATCACGGATCCTATA	0.512													7	36					0	0	1	0	0		T	3165968	T	T	3165968	3	4	27	1	0	0	0	0	1	0	0	0	3947	536	19	1	7193	1	CSMD1	8	3165968	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	78384	3165968	143198054	3853	26204											
CSMD1	64478	broad.mit.edu	37	chr8	3474301	3474301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacacatgtcagagaccaatGcaacacctccttggctcact	12	8	7	14	0	2	1	2	0	0	1	3	3	3	1	3	1	2	2	3	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:3474301G>A	uc011kwk.1	-	8	1418	c.1028C>T	c.(1027-1029)GCA>GTA	p.A343V		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	343	Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		AGAGACCAATGCAACACCTCC	0.393													5	49					0	0	1	0	0		A	3474301	A	A	3474301	3	1	27	1	0	0	0	0	1	0	0	0	3947	1319	46	2	9731	2	CSMD1	8	3474301	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	308333	3474301	142889721	3854	26205											
MCPH1	79648	broad.mit.edu	37	chr8	6302609	6302609	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggagagaacaagcataTttgaaatgtctgatttttcc	15	12	9	5	0	1	4	0	2	1	2	2	6	2	5	1	1	2	1	1	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:6302609T>A	uc003wqi.2	+	8	1434	c.1366T>A	c.(1366-1368)TTT>ATT	p.F456I	MCPH1_uc003wqh.2_Missense_Mutation_p.F456I|MCPH1_uc011kwl.1_Missense_Mutation_p.F408I	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	456						microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		AACAAGCATATTTGAAATGTC	0.423													10	129					0	0	1	0	0		A	6302609	A	A	6302609	3	1	27	1	0	0	0	0	1	0	0	0	9416	1493	52	5	1396	5	MCPH1	8	6302609	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2828308	6302609	140061413	3855	26206											
MCPH1	79648	broad.mit.edu	37	chr8	6302810	6302810	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagacgcatgcccagagggaAatggcttttcttacaccatt	12	10	9	10	1	1	2	0	0	1	2	1	3	1	3	2	2	2	2	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:6302810A>G	uc003wqi.2	+	8	1635	c.1567A>G	c.(1567-1569)AAT>GAT	p.N523D	MCPH1_uc003wqh.2_Missense_Mutation_p.N523D|MCPH1_uc011kwl.1_Missense_Mutation_p.N475D	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	523						microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		CCCAGAGGGAAATGGCTTTTC	0.488													6	135					0	0	1	0	0		G	6302810	G	G	6302810	3	3	27	1	0	0	0	0	1	0	0	0	9416	14	1	3	1597	3	MCPH1	8	6302810	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	201	6302810	140061212	3856	26207											
DEFA4	1669	broad.mit.edu	37	chr8	6793553	6793553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagaacgttaatcgacacGcgtgcagcagtatgtgaaac	14	7	11	9	4	0	2	0	1	0	1	1	3	0	2	0	0	5	5	0	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:6793553G>A	uc003wqu.1	-	3	334	c.283C>T	c.(283-285)CGT>TGT	p.R95C		NM_001925	NP_001916	P12838	DEF4_HUMAN	defensin, alpha 4 preproprotein	95					defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular space				large_intestine(1)	1				COAD - Colon adenocarcinoma(149;0.0572)|READ - Rectum adenocarcinoma(644;0.121)		TAATCGACACGCGTGCAGCAG	0.507													20	114					0	0	1	0	0		A	6793553	A	A	6793553	3	1	27	1	0	0	0	0	1	0	0	0	4394	1087	38	1	14	1	DEFA4	8	6793553	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	490743	6793553	139570469	3857	26208											
SGK223	157285	broad.mit.edu	37	chr8	8185778	8185778	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcttggggcttgctgttccGggcttgggggagccttgggt	2	12	19	8	1	0	0	0	0	0	0	1	1	1	1	2	6	3	5	2	6	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:8185778G>A	uc003wsh.3	-	4	2514	c.2514C>T	c.(2512-2514)CCC>CCT	p.P838P		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	838							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						TTGCTGTTCCGGGCTTGGGGG	0.607													41	272					0	0	1	0	0		A	8185778	A	A	8185778	2	1	27	1	0	0	0	0	0	0	0	1	14235	1103	39	1		1	SGK223	8	8185778	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1392225	8185778	138178244	3858	26209											
SGK223	157285	broad.mit.edu	37	chr8	8234932	8234932	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atggcagcctccgaggtgagGgacagtttcttggggcccag	7	8	16	10	1	1	1	0	1	1	0	2	3	2	2	3	5	1	2	3	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:8234932G>T	uc003wsh.3	-	2	987	c.987C>A	c.(985-987)TCC>TCA	p.S329S		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	329							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						CCGAGGTGAGGGACAGTTTCT	0.677													5	87					0.014758	0.0150623	1	1	0		T	8234932	T	T	8234932	2	4	27	1	0	0	0	0	0	0	0	1	14235	1219	43	5		5	SGK223	8	8234932	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	49154	8234932	138129090	3859	26210											
MFHAS1	9258	broad.mit.edu	37	chr8	8748972	8748972	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtgggtgcccacgatgcAcaccaccgcgtggggcactc	6	6	14	15	4	0	0	0	0	0	0	1	1	0	0	3	3	3	2	3	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:8748972A>G	uc003wsj.1	-	1	2160	c.1597T>C	c.(1597-1599)TGC>CGC	p.C533R		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	533	Roc.										0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		CCCACGATGCACACCACCGCG	0.637													4	59					0	0	1	0	0		G	8748972	G	G	8748972	3	3	27	1	0	0	0	0	1	0	0	0	9539	159	6	3	1573	3	MFHAS1	8	8748972	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	514040	8748972	137615050	3860	26211											
PPP1R3B	79660	broad.mit.edu	37	chr8	8998972	8998972	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctggttgtctgcgaaggAcacccgctttttcaccttct	5	13	8	15	2	3	0	1	0	2	0	3	2	3	1	4	2	1	2	4	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:8998972A>G	uc003wsn.3	-	2	355	c.190T>C	c.(190-192)TCC>CCC	p.S64P	PPP1R3B_uc003wso.3_Missense_Mutation_p.S63P	NM_024607	NP_078883	Q86XI6	PPR3B_HUMAN	protein phosphatase 1, regulatory (inhibitor)	64					glycogen metabolic process					ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(149;0.0717)|READ - Rectum adenocarcinoma(644;0.241)		TCTGCGAAGGACACCCGCTTT	0.537													10	147					0	0	1	0	0		G	8998972	G	G	8998972	3	3	27	1	0	0	0	0	1	0	0	0	12394	275	10	3	671	3	PPP1R3B	8	8998972	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	250000	8998972	137365050	3861	26212											
PPP1R3B	79660	broad.mit.edu	37	chr8	8999110	8999110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaggcaaacctctcttggcGcaaggaaggagccatgcagt	13	6	12	10	1	1	0	0	0	1	0	2	2	1	2	2	4	3	3	2	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:8999110G>A	uc003wsn.3	-	2	217	c.52C>T	c.(52-54)CGC>TGC	p.R18C	PPP1R3B_uc003wso.3_Missense_Mutation_p.R17C	NM_024607	NP_078883	Q86XI6	PPR3B_HUMAN	protein phosphatase 1, regulatory (inhibitor)	18					glycogen metabolic process					ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(149;0.0717)|READ - Rectum adenocarcinoma(644;0.241)		CTCTCTTGGCGCAAGGAAGGA	0.502													8	53					0	0	1	0	0		A	8999110	A	A	8999110	3	1	27	1	0	0	0	0	1	0	0	0	12394	1087	38	1	809	1	PPP1R3B	8	8999110	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	138	8999110	137364912	3862	26213											
TNKS	8658	broad.mit.edu	37	chr8	9413539	9413539	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcagcgccgccgccgccAcctcctcccccactcagccc	4	5	7	25	4	2	0	2	0	0	0	4	0	4	0	9	0	2	1	9	0	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:9413539A>G	uc003wss.2	+	1	95	c.90A>G	c.(88-90)CCA>CCG	p.P30P	TNKS_uc011kwv.1_Silent_p.P30P|uc003wsr.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	30	Poly-Pro.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		CGCCGCCGCCACCTCCTCCCC	0.731													6	37					0	0	1	0	0		G	9413539	G	G	9413539	2	3	27	1	0	0	0	0	0	0	0	1	16344	146	6	3		3	TNKS	8	9413539	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	414429	9413539	136950483	3863	26214											
TNKS	8658	broad.mit.edu	37	chr8	9588519	9588519	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtacctgctacaccacggTgccgatgtccatgccaaaga	11	7	10	13	2	0	1	0	0	0	1	1	3	1	1	5	1	5	2	5	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:9588519T>A	uc003wss.2	+	14	2126	c.2121T>A	c.(2119-2121)GGT>GGA	p.G707G	TNKS_uc011kww.1_Silent_p.G470G|TNKS_uc010lrs.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	707	ANK 10.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		TACACCACGGTGCCGATGTCC	0.453													5	96					0	0	1	0	0		A	9588519	A	A	9588519	2	1	27	1	0	0	0	0	0	0	0	1	16344	1683	59	5		5	TNKS	8	9588519	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	174980	9588519	136775503	3864	26215											
TNKS	8658	broad.mit.edu	37	chr8	9622236	9622236	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttctgtagatgcaaagtaCtattcgagaacacagagatg	14	11	10	6	1	1	3	0	0	1	3	2	5	1	3	0	0	3	4	0	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:9622236C>G	uc003wss.2	+	23	3388	c.3383C>G	c.(3382-3384)ACT>AGT	p.T1128S	TNKS_uc011kww.1_Missense_Mutation_p.T891S	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1128	PARP catalytic.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		ATGCAAAGTACTATTCGAGAA	0.318													4	81					0	0	1	0	0		G	9622236	G	G	9622236	3	3	27	1	0	0	0	0	1	0	0	0	16344	565	20	5	3473	5	TNKS	8	9622236	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	33717	9622236	136741786	3865	26216											
RP1L1	94137	broad.mit.edu	37	chr8	10464716	10464716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggatgctctggaggaggaagGgcctgtttgggagcctggcc	6	8	19	8	0	1	0	0	0	1	0	1	5	1	5	3	7	2	2	3	7	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:10464716G>A	uc003wtc.2	-	4	7121	c.6892C>T	c.(6892-6894)CCT>TCT	p.P2298S		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	2298					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GAGGAGGAAGGGCCTGTTTGG	0.592													54	295					0	0	1	0	0		A	10464716	A	A	10464716	3	1	27	1	0	0	0	0	1	0	0	0	13558	1232	43	4	314	4	RP1L1	8	10464716	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	842480	10464716	135899306	3866	26217											
RP1L1	94137	broad.mit.edu	37	chr8	10465537	10465537	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgactttggctgggccTctacaccgtctgactctggc	4	13	10	14	1	4	2	0	2	4	0	4	2	4	2	2	3	1	1	2	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:10465537T>C	uc003wtc.2	-	4	6300	c.6071A>G	c.(6070-6072)GAG>GGG	p.E2024G		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	2024					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TGGCTGGGCCTCTACACCGTC	0.612													23	356					0	0	1	0	0		C	10465537	C	C	10465537	3	2	27	1	0	0	0	0	1	0	0	0	13558	1551	54	3	1135	3	RP1L1	8	10465537	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	821	10465537	135898485	3867	26218											
RP1L1	94137	broad.mit.edu	37	chr8	10465791	10465791	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcttctgcctcttgggcCtctgcaccttctgactctgg	2	14	9	16	0	6	1	0	1	6	0	6	1	6	1	4	2	2	1	4	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:10465791C>A	uc003wtc.2	-	4	6046	c.5817G>T	c.(5815-5817)GAG>GAT	p.E1939D		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1939					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CCTCTTGGGCCTCTGCACCTT	0.612													16	295					2.31682e-05	2.47736e-05	1	1	0		A	10465791	A	A	10465791	3	1	27	1	0	0	0	0	1	0	0	0	13558	680	24	5	1389	5	RP1L1	8	10465791	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	254	10465791	135898231	3868	26219											
RP1L1	94137	broad.mit.edu	37	chr8	10466551	10466551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaatctgctgcaggtcaaagGcctctttgatgggacctctg	8	11	12	10	0	4	1	1	1	3	0	4	3	4	2	2	3	2	2	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:10466551G>A	uc003wtc.2	-	4	5286	c.5057C>T	c.(5056-5058)GCC>GTC	p.A1686V		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1686					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CAGGTCAAAGGCCTCTTTGAT	0.617													12	118					0	0	1	0	0		A	10466551	A	A	10466551	3	1	27	1	0	0	0	0	1	0	0	0	13558	1203	42	2	2149	2	RP1L1	8	10466551	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	760	10466551	135897471	3869	26220											
RP1L1	94137	broad.mit.edu	37	chr8	10466938	10466938	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcctgctgcagctcggccGccatctggtccagcagatca	6	8	11	16	3	2	1	1	0	1	1	5	1	4	1	4	2	4	4	4	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:10466938G>A	uc003wtc.2	-	4	4899	c.4670C>T	c.(4669-4671)GCG>GTG	p.A1557V		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1557					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CAGCTCGGCCGCCATCTGGTC	0.657													4	32					0	0	1	0	0		A	10466938	A	A	10466938	3	1	27	1	0	0	0	0	1	0	0	0	13558	1087	38	1	2536	1	RP1L1	8	10466938	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	387	10466938	135897084	3870	26221											
RP1L1	94137	broad.mit.edu	37	chr8	10468315	10468315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagacacttcgggcacgctgCtgggccggccctgcttggag	5	8	15	13	3	0	1	0	0	0	1	1	2	0	2	2	4	2	4	2	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:10468315C>T	uc003wtc.2	-	4	3522	c.3293G>A	c.(3292-3294)AGC>AAC	p.S1098N		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1098					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GGGCACGCTGCTGGGCCGGCC	0.652													7	137					0	0	1	0	0		T	10468315	T	T	10468315	3	4	27	1	0	0	0	0	1	0	0	0	13558	797	28	2	3913	2	RP1L1	8	10468315	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1377	10468315	135895707	3871	26222											
RP1L1	94137	broad.mit.edu	37	chr8	10468389	10468389	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacacccggccaggaagtgcCcgcaggctcaccctgcagcc	8	3	12	18	2	1	0	1	0	0	0	1	2	1	1	5	3	3	3	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:10468389C>T	uc003wtc.2	-	4	3448	c.3219G>A	c.(3217-3219)CGG>CGA	p.R1073R		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1073					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CAGGAAGTGCCCGCAGGCTCA	0.692													3	36					0	0	1	0	0		T	10468389	T	T	10468389	2	4	27	1	0	0	0	0	0	0	0	1	13558	610	22	4		4	RP1L1	8	10468389	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	74	10468389	135895633	3872	26223											
RP1L1	94137	broad.mit.edu	37	chr8	10469390	10469390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtggactgcaggggtgaCagtggcactgctggttccca	7	8	16	10	1	0	1	0	1	0	0	1	3	1	2	1	5	2	4	1	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:10469390C>T	uc003wtc.2	-	4	2447	c.2218G>A	c.(2218-2220)GTC>ATC	p.V740I		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	740					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GCAGGGGTGACAGTGGCACTG	0.637													11	77					0	0	1	0	0		T	10469390	T	T	10469390	3	4	27	1	0	0	0	0	1	0	0	0	13558	478	17	4	4988	4	RP1L1	8	10469390	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1001	10469390	135894632	3873	26224											
RP1L1	94137	broad.mit.edu	37	chr8	10470474	10470474	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggtccccacaccccaggCtctgagaagccccaagggta	9	4	12	16	1	1	1	0	1	1	1	2	2	2	1	6	4	1	2	6	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:10470474C>A	uc003wtc.2	-	4	1363	c.1134G>T	c.(1132-1134)GAG>GAT	p.E378D		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	378					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		ACACCCCAGGCTCTGAGAAGC	0.677													16	108					6.49762e-13	7.23709e-13	1	1	0		A	10470474	A	A	10470474	3	1	27	1	0	0	0	0	1	0	0	0	13558	796	28	5	6072	5	RP1L1	8	10470474	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1084	10470474	135893548	3874	26225											
RP1L1	94137	broad.mit.edu	37	chr8	10480279	10480279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggggttttaagactcttccGggaggaggaggtgcctgggg	6	9	20	6	1	1	1	0	0	1	1	2	4	2	4	2	8	1	1	2	8	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:10480279G>A	uc003wtc.2	-	2	662	c.433C>T	c.(433-435)CGG>TGG	p.R145W		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	145					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		AGACTCTTCCGGGAGGAGGAG	0.592													4	97					0	0	1	0	0		A	10480279	A	A	10480279	3	1	27	1	0	0	0	0	1	0	0	0	13558	1115	39	1	6781	1	RP1L1	8	10480279	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9805	10480279	135883743	3875	26226											
XKR6	286046	broad.mit.edu	37	chr8	11058241	11058241	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggcccccatcatgggggggCcccggctggtgagcccctcc	3	5	15	18	2	1	1	1	1	0	0	2	1	2	1	7	6	1	1	7	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:11058241C>G	uc003wtk.1	-	1	635	c.608G>C	c.(607-609)GGC>GCC	p.G203A		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	203						integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		CATGGGGGGGCCCCGGCTGGT	0.766													4	19					0	0	1	0	0		G	11058241	G	G	11058241	3	3	27	1	0	0	0	0	1	0	0	0	17461	739	26	5	1329	5	XKR6	8	11058241	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	577962	11058241	135305781	3876	26227											
MTMR9	66036	broad.mit.edu	37	chr8	11167152	11167152	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taactggctgactcacatcaAagagattctgacaactgcct	13	10	7	11	0	3	3	2	2	1	1	3	4	3	3	1	1	3	1	1	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:11167152A>G	uc003wtm.2	+	6	1324	c.926A>G	c.(925-927)AAA>AGA	p.K309R	MTMR9_uc010lrx.2_Missense_Mutation_p.K202R|MTMR9_uc011kxa.1_Missense_Mutation_p.K224R	NM_015458	NP_056273	Q96QG7	MTMR9_HUMAN	myotubularin related protein 9	309	Myotubularin phosphatase.					cytoplasm	phosphatase activity|protein binding				0			STAD - Stomach adenocarcinoma(15;0.215)	COAD - Colon adenocarcinoma(149;0.0678)		ACTCACATCAAAGAGATTCTG	0.473													6	100					0	0	1	0	0		G	11167152	G	G	11167152	3	3	27	1	0	0	0	0	1	0	0	0	9968	14	1	3	948	3	MTMR9	8	11167152	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	108911	11167152	135196870	3877	26228											
AMAC1L2	83650	broad.mit.edu	37	chr8	11189446	11189446	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggctatgcggtcaccaaggcCcaccctgccctggtgtgcgc	5	7	13	16	2	1	0	1	0	0	0	1	0	1	0	4	4	3	1	4	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:11189446C>A	uc003wtp.1	+	1	952	c.831C>A	c.(829-831)GCC>GCA	p.A277A		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	277	DUF6 2.					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		TCACCAAGGCCCACCCTGCCC	0.572													35	181					1.06647e-15	1.19146e-15	1	1	0		A	11189446	A	A	11189446	2	1	27	1	0	0	0	0	0	0	0	1	560	610	22	5		5	AMAC1L2	8	11189446	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	22294	11189446	135174576	3878	26229											
BLK	640	broad.mit.edu	37	chr8	11414274	11414274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatgaaggctctgcagcacGagcggctggtccgactctac	8	8	13	12	3	2	2	0	2	2	0	3	4	3	2	1	3	4	4	1	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:11414274G>A	uc003wty.2	+	9	1461	c.880G>A	c.(880-882)GAG>AAG	p.E294K	BLK_uc003wtz.2_Missense_Mutation_p.E223K	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	294	Protein kinase.				intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		TCTGCAGCACGAGCGGCTGGT	0.577													9	59					0	0	1	0	0		A	11414274	A	A	11414274	3	1	27	1	0	0	0	0	1	0	0	0	1445	1059	37	1	910	1	BLK	8	11414274	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	224828	11414274	134949748	3879	26230											
DEFB135	613209	broad.mit.edu	37	chr8	11842018	11842018	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggccaaaatgtctaaaaaaCgaacaatatcgtattttgtg	16	11	7	7	3	1	0	0	0	1	0	2	1	1	0	1	1	2	1	1	1	9	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:11842018C>T	uc003wuw.1	+	2	153	c.153C>T	c.(151-153)AAC>AAT	p.N51N		NM_001033017	NP_001028189	Q30KP9	DB135_HUMAN	beta-defensin 135 precursor	51					defense response to bacterium	extracellular region					0						GTCTAAAAAACGAACAATATC	0.383													21	104					0	0	1	0	0		T	11842018	T	T	11842018	2	4	27	1	0	0	0	0	0	0	0	1	4425	535	19	1		1	DEFB135	8	11842018	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	427744	11842018	134522004	3880	26231											
LONRF1	91694	broad.mit.edu	37	chr8	12598381	12598381	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taattgttggtaaactgattAccttttgtacttgcagcttt	9	19	7	6	0	0	1	0	1	0	0	0	1	0	1	1	1	5	5	1	1	5	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:12598381A>T	uc003wwd.1	-	3	1026	c.963_splice	c.e3+1	p.K321_splice	LONRF1_uc010lsp.1_Splice_Site	NM_152271	NP_689484	Q17RB8	LONF1_HUMAN	LON peptidase N-terminal domain and ring finger						proteolysis		ATP-dependent peptidase activity|zinc ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(644;0.236)		TAAACTGATTACCTTTTGTAC	0.373													13	192					0	0	1	0	0		T	12598381	T	T	12598381	5	4	27	1	0	0	0	0	0	0	1	0	8912	405	14	5	1396	5	LONRF1	8	12598381	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	756363	12598381	133765641	3881	26232											
DLC1	10395	broad.mit.edu	37	chr8	12947943	12947943	+	Missense_Mutation	SNP	T	C	C																															gggcttcagctcttgttcggTataggaattacgacatcggc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:12947943T>C	uc003wwm.2	-	15	4336	c.3892A>G	c.(3892-3894)ACC>GCC	p.T1298A	DLC1_uc003wwk.1_Missense_Mutation_p.T861A|DLC1_uc003wwl.1_Missense_Mutation_p.T895A|DLC1_uc011kxx.1_Missense_Mutation_p.T787A	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1298					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TCTTGTTCGGTATAGGAATTA	0.522													5	105					0	0	1	0	0		C	12947943	C	C	12947943	3	2	27	1	0	0	0	0	1	0	0	0	4556	1638	57	3	710	3	DLC1	8	12947943	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	349562	12947943	133416079	3882	26233	51	2									
DLC1	10395	broad.mit.edu	37	chr8	12947952	12947952	+	Missense_Mutation	SNP	T	C	C																															ctcttgttcggtataggaatTacgacatcggctcatttcct																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:12947952T>C	uc003wwm.2	-	15	4327	c.3883A>G	c.(3883-3885)AAT>GAT	p.N1295D	DLC1_uc003wwk.1_Missense_Mutation_p.N858D|DLC1_uc003wwl.1_Missense_Mutation_p.N892D|DLC1_uc011kxx.1_Missense_Mutation_p.N784D	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1295					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GTATAGGAATTACGACATCGG	0.517													4	97					0	0	1	0	0		C	12947952	C	C	12947952	3	2	27	1	0	0	0	0	1	0	0	0	4556	1754	61	3	719	3	DLC1	8	12947952	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9	12947952	133416070	3883	26234	51	2									
DLC1	10395	broad.mit.edu	37	chr8	12957440	12957440	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtagaacaccgtgtcctcTgggtagctctcgcggttctt	6	13	11	11	3	3	1	0	0	3	1	5	1	4	1	2	2	2	4	2	2	3	4	rs17854877		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:12957440T>G	uc003wwm.2	-	9	2850	c.2406A>C	c.(2404-2406)CCA>CCC	p.P802P	DLC1_uc003wwk.1_Silent_p.P365P|DLC1_uc003wwl.1_Silent_p.P399P|DLC1_uc011kxx.1_Silent_p.P291P	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	802					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CCGTGTCCTCTGGGTAGCTCT	0.517													23	215					0	0	1	0	0		G	12957440	G	G	12957440	2	3	27	1	0	0	0	0	0	0	0	1	4556	1567	55	5		5	DLC1	8	12957440	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9488	12957440	133406582	3884	26235											
DLC1	10395	broad.mit.edu	37	chr8	13357407	13357407	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagtcaggtagtgaaacAcacttctctttgcggtccac	10	10	9	12	1	2	1	1	1	1	0	4	1	3	1	1	2	3	2	1	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:13357407A>G	uc003wwm.2	-	2	618	c.174T>C	c.(172-174)TGT>TGC	p.C58C	DLC1_uc003wwn.2_Silent_p.C58C|DLC1_uc011kxy.1_Silent_p.C58C	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	58					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GTAGTGAAACACACTTCTCTT	0.458													28	332					0	0	1	0	0		G	13357407	G	G	13357407	2	3	27	1	0	0	0	0	0	0	0	1	4556	157	6	3		3	DLC1	8	13357407	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	399967	13357407	133006615	3885	26236											
DLC1	10395	broad.mit.edu	37	chr8	13357493	13357493	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactagtccatgatgacatgCtgtgttacgatcatcagaat	12	13	8	8	1	2	3	2	2	0	1	3	4	3	3	1	0	3	2	1	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:13357493C>A	uc003wwm.2	-	2	532	c.88G>T	c.(88-90)GCA>TCA	p.A30S	DLC1_uc003wwn.2_Missense_Mutation_p.A30S|DLC1_uc011kxy.1_Missense_Mutation_p.A30S	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	30					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TGATGACATGCTGTGTTACGA	0.438													13	173					2.68362e-12	2.98486e-12	1	1	0		A	13357493	A	A	13357493	3	1	27	1	0	0	0	0	1	0	0	0	4556	797	28	5	4651	5	DLC1	8	13357493	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	86	13357493	133006529	3886	26237											
TUSC3	7991	broad.mit.edu	37	chr8	15480695	15480695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttataaaggcaccacctcGaaactattccatgattgtta	14	13	5	9	1	0	1	0	1	0	0	2	2	1	1	3	1	1	2	3	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:15480695G>A	uc003wwt.2	+	2	455	c.245G>A	c.(244-246)CGA>CAA	p.R82Q	TUSC3_uc003wwr.2_Missense_Mutation_p.R82Q|TUSC3_uc003wws.2_Missense_Mutation_p.R82Q|TUSC3_uc003wwu.2_Missense_Mutation_p.R82Q|TUSC3_uc003wwv.2_Missense_Mutation_p.R82Q|TUSC3_uc003www.2_Missense_Mutation_p.R82Q|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.R82Q	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	82					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		GCACCACCTCGAAACTATTCC	0.358													7	98					0	0	1	0	0		A	15480695	A	A	15480695	3	1	27	1	0	0	0	0	1	0	0	0	16804	1058	37	1	251	1	TUSC3	8	15480695	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2123202	15480695	130883327	3887	26238											
EFHA2	286097	broad.mit.edu	37	chr8	16884801	16884801	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccgctatggctgcgctgCgaaggctcttgtggccgcca	4	9	13	15	4	1	0	0	0	1	0	2	1	2	0	4	3	2	4	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:16884801C>T	uc003wxd.2	+	1	55	c.13C>T	c.(13-15)CGA>TGA	p.R5*		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	5						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		GGCTGCGCTGCGAAGGCTCTT	0.627													4	47					0	0	1	0	0		T	16884801	T	T	16884801	4	4	27	1	0	0	0	0	0	1	0	0	4950	760	27	1	15	1	EFHA2	8	16884801	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1404106	16884801	129479221	3888	26239											
EFHA2	286097	broad.mit.edu	37	chr8	16935341	16935341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accagtttggaaaggctcatCgaagctatttcgaaatctta	13	12	8	8	2	2	0	1	0	1	0	4	3	2	1	1	2	1	3	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:16935341C>T	uc003wxd.2	+	4	659	c.617C>T	c.(616-618)TCG>TTG	p.S206L		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	206						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		AAAGGCTCATCGAAGCTATTT	0.294													7	52					0	0	1	0	0		T	16935341	T	T	16935341	3	4	27	1	0	0	0	0	1	0	0	0	4950	893	31	1	631	1	EFHA2	8	16935341	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	50540	16935341	129428681	3889	26240											
VPS37A	137492	broad.mit.edu	37	chr8	17137631	17137631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacaaattattaccgacaaaGatgacttagtaaaaagtatt	20	11	5	5	1	0	2	0	1	0	1	0	3	0	2	1	0	2	2	1	0	10	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:17137631G>A	uc003wxj.2	+	7	1161	c.808G>A	c.(808-810)GAT>AAT	p.D270N	VPS37A_uc003wxk.2_Missense_Mutation_p.D245N|VPS37A_uc003wxl.2_Missense_Mutation_p.D47N	NM_152415	NP_689628	Q8NEZ2	VP37A_HUMAN	hepatocellular carcinoma related protein 1	270					cellular membrane organization|endosome transport|protein transport	centrosome|late endosome membrane|nucleus					0				Colorectal(111;0.0553)|COAD - Colon adenocarcinoma(73;0.212)		TACCGACAAAGATGACTTAGT	0.353													5	142					0	0	1	0	0		A	17137631	A	A	17137631	3	1	27	1	0	0	0	0	1	0	0	0	17231	942	33	4	834	4	VPS37A	8	17137631	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	202290	17137631	129226391	3890	26241											
MTMR7	9108	broad.mit.edu	37	chr8	17157398	17157398	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagaaacacggcttcatcAgaatcccggtccttgccact	10	9	9	13	2	2	2	2	1	0	2	4	3	4	2	3	2	2	1	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:17157398A>G	uc003wxm.2	-	14	2195	c.1956T>C	c.(1954-1956)TCT>TCC	p.S652S	MTMR7_uc011kya.1_Silent_p.S286S|MTMR7_uc011kyb.1_Silent_p.S243S	NM_004686	NP_004677	Q9Y216	MTMR7_HUMAN	myotubularin related protein 7	652							protein tyrosine phosphatase activity			skin(1)	1				Colorectal(111;0.112)		CGGCTTCATCAGAATCCCGGT	0.498													9	133					0	0	1	0	0		G	17157398	G	G	17157398	2	3	27	1	0	0	0	0	0	0	0	1	9966	175	7	3		3	MTMR7	8	17157398	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19767	17157398	129206624	3891	26242											
MTMR7	9108	broad.mit.edu	37	chr8	17198974	17198974	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcaccgggcactgaagccGgacaggggctggctgctccg	7	4	17	13	3	0	1	0	1	0	0	1	2	1	2	3	6	2	5	3	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:17198974G>A	uc003wxm.2	-	6	869	c.630C>T	c.(628-630)TCC>TCT	p.S210S	MTMR7_uc003wxn.2_5'UTR	NM_004686	NP_004677	Q9Y216	MTMR7_HUMAN	myotubularin related protein 7	210	Myotubularin phosphatase.						protein tyrosine phosphatase activity			skin(1)	1				Colorectal(111;0.112)		CACTGAAGCCGGACAGGGGCT	0.577													10	79					0	0	1	0	0		A	17198974	A	A	17198974	2	1	27	1	0	0	0	0	0	0	0	1	9966	1103	39	1		1	MTMR7	8	17198974	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	41576	17198974	129165048	3892	26243											
SLC7A2	6542	broad.mit.edu	37	chr8	17401121	17401121	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctatgccgaatttggggcCcgtgttcccaagacggggtc	6	10	14	11	3	0	1	0	0	0	1	2	2	1	1	3	4	2	2	3	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:17401121C>T	uc011kyc.1	+	2	442	c.273C>T	c.(271-273)GCC>GCT	p.A91A	SLC7A2_uc011kyd.1_Silent_p.A131A|SLC7A2_uc011kye.1_Silent_p.A131A|SLC7A2_uc011kyf.1_Silent_p.A91A	NM_001008539	NP_001008539	P52569	CTR2_HUMAN	solute carrier family 7, member 2 isoform 2	91	Cytoplasmic (Potential).				cellular amino acid metabolic process|ion transport	cytoplasm|integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity			ovary(2)|skin(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	L-Lysine(DB00123)|L-Ornithine(DB00129)	AATTTGGGGCCCGTGTTCCCA	0.562													5	74					0	0	1	0	0		T	17401121	T	T	17401121	2	4	27	1	0	0	0	0	0	0	0	1	14722	610	22	4		4	SLC7A2	8	17401121	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	202147	17401121	128962901	3893	26244											
PCM1	5108	broad.mit.edu	37	chr8	17810589	17810589	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtttacctgatgagaaagtCgaactttttagcaaaatgag	14	12	9	6	2	0	3	0	3	0	1	1	5	0	3	1	0	3	2	1	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:17810589C>T	uc003wyi.3	+	9	1604	c.1182C>T	c.(1180-1182)GTC>GTT	p.V394V	PCM1_uc011kyh.1_Silent_p.V394V|PCM1_uc003wyj.3_Silent_p.V394V|PCM1_uc003wyg.2_Silent_p.V394V|PCM1_uc003wyh.2_Silent_p.V433V|PCM1_uc010lta.1_Silent_p.V433V	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	394					centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		ATGAGAAAGTCGAACTTTTTA	0.388			T	RET|JAK2	papillary thyroid|CML|MPD								9	22					0	0	1	0	0		T	17810589	T	T	17810589	2	4	27	1	0	0	0	0	0	0	0	1	11603	871	31	1		1	PCM1	8	17810589	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	409468	17810589	128553433	3894	26245											
NAT1	9	broad.mit.edu	37	chr8	18079909	18079909	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgaccattgatggcaggaActacattgtcgatgctgggt	9	11	14	7	1	0	2	0	2	0	0	1	4	0	3	1	4	3	2	1	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:18079909A>G	uc010ltd.2	+	5	720	c.353A>G	c.(352-354)AAC>AGC	p.N118S	NAT1_uc003wyt.2_Missense_Mutation_p.N180S|NAT1_uc003wyu.2_Missense_Mutation_p.N118S|NAT1_uc003wyv.2_Missense_Mutation_p.N118S|NAT1_uc010ltc.2_Missense_Mutation_p.N118S|NAT1_uc003wys.2_Missense_Mutation_p.N180S|NAT1_uc003wyr.2_Missense_Mutation_p.N118S|NAT1_uc003wyq.2_Missense_Mutation_p.N118S|NAT1_uc011kyl.1_Missense_Mutation_p.N118S	NM_001160179	NP_001153651	P18440	ARY1_HUMAN	N-acetyltransferase 1 isoform a	118					xenobiotic metabolic process	cytosol	arylamine N-acetyltransferase activity				0				Colorectal(111;0.0519)|COAD - Colon adenocarcinoma(73;0.208)		GATGGCAGGAACTACATTGTC	0.507													14	314					0	0	1	0	0		G	18079909	G	G	18079909	3	3	27	1	0	0	0	0	1	0	0	0	10191	43	2	3	549	3	NAT1	8	18079909	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	269320	18079909	128284113	3895	26246											
PSD3	23362	broad.mit.edu	37	chr8	18430047	18430047	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagatgattacctgagacagTtttgttgtagtggcaggcag	11	12	13	5	0	0	3	0	2	0	2	0	4	0	3	1	2	1	5	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:18430047T>C	uc003wza.2	-	14	2878	c.2775A>G	c.(2773-2775)AAA>AAG	p.K925K	PSD3_uc003wyx.3_Silent_p.K254K|PSD3_uc003wyy.2_Silent_p.K391K|PSD3_uc003wyz.2_Silent_p.K226K	NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	926	Potential.				regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		CCTGAGACAGTTTTGTTGTAG	0.403													5	178					0	0	1	0	0		C	18430047	C	C	18430047	2	2	27	1	0	0	0	0	0	0	0	1	12670	1722	60	3		3	PSD3	8	18430047	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	350138	18430047	127933975	3896	26247											
PSD3	23362	broad.mit.edu	37	chr8	18729510	18729510	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcctgggcgtcccatggaGctgcttcgatcacatccccc	5	8	11	17	3	1	0	1	0	0	0	4	2	3	1	4	3	2	2	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:18729510G>A	uc003wza.2	-	3	967	c.864C>T	c.(862-864)AGC>AGT	p.S288S		NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	288					regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		GTCCCATGGAGCTGCTTCGAT	0.542													6	151					0	0	1	0	0		A	18729510	A	A	18729510	2	1	27	1	0	0	0	0	0	0	0	1	12670	962	34	2		2	PSD3	8	18729510	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	299463	18729510	127634512	3897	26248											
INTS10	55174	broad.mit.edu	37	chr8	19681411	19681411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggatacatctgatttaatgtCacctagcaaacgtagctctc	12	12	7	10	1	3	1	1	1	2	0	4	2	3	2	1	1	4	3	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:19681411C>T	uc003wzj.2	+	7	823	c.692C>T	c.(691-693)TCA>TTA	p.S231L		NM_018142	NP_060612	Q9NVR2	INT10_HUMAN	integrator complex subunit 10	231					snRNA processing	integrator complex	protein binding			ovary(1)	1				Colorectal(111;0.057)|COAD - Colon adenocarcinoma(73;0.215)		GATTTAATGTCACCTAGCAAA	0.398													7	118					0	0	1	0	0		T	19681411	T	T	19681411	3	4	27	1	0	0	0	0	1	0	0	0	7792	838	29	4	718	4	INTS10	8	19681411	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	951901	19681411	126682611	3898	26249											
INTS10	55174	broad.mit.edu	37	chr8	19690705	19690705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atataaaaaggcgatagccaGcctgcatcacttagcagctc	14	8	8	11	1	1	0	1	0	0	0	2	1	1	0	2	1	5	3	2	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:19690705G>A	uc003wzj.2	+	12	1534	c.1403G>A	c.(1402-1404)AGC>AAC	p.S468N		NM_018142	NP_060612	Q9NVR2	INT10_HUMAN	integrator complex subunit 10	468					snRNA processing	integrator complex	protein binding			ovary(1)	1				Colorectal(111;0.057)|COAD - Colon adenocarcinoma(73;0.215)		GCGATAGCCAGCCTGCATCAC	0.488													8	204					0	0	1	0	0		A	19690705	A	A	19690705	3	1	27	1	0	0	0	0	1	0	0	0	7792	971	34	2	1449	2	INTS10	8	19690705	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9294	19690705	126673317	3899	26250											
LZTS1	11178	broad.mit.edu	37	chr8	20110461	20110461	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaggtgcaggacctgctgCgcgcgctggctcttctgcga	4	9	15	13	4	2	0	0	0	2	0	2	2	2	1	1	3	5	5	1	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:20110461C>T	uc003wzr.2	-	2	1092	c.981G>A	c.(979-981)GCG>GCA	p.A327A	LZTS1_uc010ltg.1_Silent_p.A327A	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	327	Potential.				cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		GGACCTGCTGCGCGCGCTGGC	0.677													5	47					0	0	1	0	0		T	20110461	T	T	20110461	2	4	27	1	0	0	0	0	0	0	0	1	9156	755	27	1		1	LZTS1	8	20110461	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	419756	20110461	126253561	3900	26251											
FGF17	8822	broad.mit.edu	37	chr8	21903733	21903733	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaccaactctacagcaggAccagtggcaagcacgtgcag	13	5	11	12	1	1	0	0	0	1	0	1	1	1	1	2	2	6	5	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:21903733A>G	uc003xag.2	+	3	193	c.181A>G	c.(181-183)ACC>GCC	p.T61A	FGF17_uc003xah.2_Missense_Mutation_p.T50A|FGF17_uc003xai.2_Missense_Mutation_p.T84A	NM_003867	NP_003858	O60258	FGF17_HUMAN	fibroblast growth factor 17 precursor	61					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|nervous system development	extracellular space	growth factor activity|type 1 fibroblast growth factor receptor binding|type 2 fibroblast growth factor receptor binding				0				Colorectal(74;8.48e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0618)		CTACAGCAGGACCAGTGGCAA	0.632													8	136					0	0	1	0	0		G	21903733	G	G	21903733	3	3	27	1	0	0	0	0	1	0	0	0	5859	275	10	3	191	3	FGF17	8	21903733	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1793272	21903733	124460289	3901	26252											
HR	55806	broad.mit.edu	37	chr8	21976568	21976568	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccctccccgtccaggccTgaaaggaagtctgaggagga	10	5	13	13	1	1	2	0	2	1	0	3	5	3	5	6	4	1	0	6	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:21976568T>G	uc003xas.2	-	16	3773	c.3108A>C	c.(3106-3108)TCA>TCC	p.S1036S	HR_uc003xat.2_Silent_p.S1036S	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	1036	JmjC.						DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		CGTCCAGGCCTGAAAGGAAGT	0.662													8	71					0	0	1	0	0		G	21976568	G	G	21976568	2	3	27	1	0	0	0	0	0	0	0	1	7363	1567	55	5		5	HR	8	21976568	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	72835	21976568	124387454	3902	26253											
HR	55806	broad.mit.edu	37	chr8	21976797	21976797	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccggtgcgggctcacacCtgcatggcaatagagaaaga	11	6	12	12	2	1	2	1	0	0	2	2	3	2	2	3	3	2	3	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:21976797C>T	uc003xas.2	-	15	3643	c.2978_splice	c.e15-1	p.G993_splice	HR_uc003xat.2_Splice_Site_p.G993_splice	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a								DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		GGGCTCACACCTGCATGGCAA	0.413													10	62					0	0	1	0	0		T	21976797	T	T	21976797	5	4	27	1	0	0	0	0	0	0	1	0	7363	695	24	4	612	4	HR	8	21976797	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	229	21976797	124387225	3903	26254											
REEP4	80346	broad.mit.edu	37	chr8	21996041	21996041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacagtctttttcctcgtccGaaccttcagggagcgcgagg	7	10	11	13	4	2	0	1	0	1	0	5	3	4	1	3	2	2	0	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:21996041G>A	uc003xau.1	-	8	1186	c.733C>T	c.(733-735)CGG>TGG	p.R245W	REEP4_uc010ltt.1_3'UTR	NM_025232	NP_079508	Q9H6H4	REEP4_HUMAN	receptor accessory protein 4	245						integral to membrane				skin(1)	1				Colorectal(74;0.00187)|COAD - Colon adenocarcinoma(73;0.061)|READ - Rectum adenocarcinoma(644;0.0993)		TTCCTCGTCCGAACCTTCAGG	0.637											OREG0018606	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	120					0	0	1	0	0		A	21996041	A	A	21996041	3	1	27	1	0	0	0	0	1	0	0	0	13232	1057	37	1	44	1	REEP4	8	21996041	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19244	21996041	124367981	3904	26255											
REEP4	80346	broad.mit.edu	37	chr8	21996183	21996183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcttcctcttgaccacaCgcaggctctggctgcggatt	5	11	12	13	2	2	1	0	1	2	0	3	2	3	2	2	4	1	4	2	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:21996183C>T	uc003xau.1	-	7	1130	c.677G>A	c.(676-678)CGT>CAT	p.R226H	REEP4_uc010ltt.1_3'UTR	NM_025232	NP_079508	Q9H6H4	REEP4_HUMAN	receptor accessory protein 4	226						integral to membrane				skin(1)	1				Colorectal(74;0.00187)|COAD - Colon adenocarcinoma(73;0.061)|READ - Rectum adenocarcinoma(644;0.0993)		CTTGACCACACGCAGGCTCTG	0.662													14	100					0	0	1	0	0		T	21996183	T	T	21996183	3	4	27	1	0	0	0	0	1	0	0	0	13232	536	19	1	104	1	REEP4	8	21996183	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	142	21996183	124367839	3905	26256											
LGI3	203190	broad.mit.edu	37	chr8	22006022	22006022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggcacaggtagctgtcgCggccggcacgaaagtgtttc	8	8	15	10	4	0	1	0	1	0	0	2	2	0	1	1	4	1	5	1	4	2	2	rs113893603	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:22006022C>T	uc003xav.2	-	8	1587	c.1298G>A	c.(1297-1299)CGC>CAC	p.R433H	LGI3_uc010ltu.2_Missense_Mutation_p.R409H	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	433	EAR 5.				exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		GTAGCTGTCGCGGCCGGCACG	0.637													8	34					0	0	1	0	0		T	22006022	T	T	22006022	3	4	27	1	0	0	0	0	1	0	0	0	8769	768	27	1	352	1	LGI3	8	22006022	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9839	22006022	124358000	3906	26257											
LGI3	203190	broad.mit.edu	37	chr8	22012934	22012934	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagcgggaggtgggagaaCgctccatcctggatctctga	9	7	15	10	2	1	2	0	1	1	1	4	5	3	4	2	4	3	2	2	4	1	0	rs142850097		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:22012934C>T	uc003xav.2	-	2	538	c.249G>A	c.(247-249)GCG>GCA	p.A83A	LGI3_uc010ltu.2_Silent_p.A83A	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	83					exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		GGTGGGAGAACGCTCCATCCT	0.612													39	156					0	0	1	0	0		T	22012934	T	T	22012934	2	4	27	1	0	0	0	0	0	0	0	1	8769	523	19	1		1	LGI3	8	22012934	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6912	22012934	124351088	3907	26258											
SFTPC	6440	broad.mit.edu	37	chr8	22020985	22020985	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagcccctggcacctgcTgctacatcatgaagatagct	10	8	9	14	0	1	2	1	1	0	1	1	2	1	2	4	1	6	4	4	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:22020985T>C	uc003xax.3	+	4	519	c.361T>C	c.(361-363)TGC>CGC	p.C121R	SFTPC_uc003xaw.3_Missense_Mutation_p.C170R|SFTPC_uc011kza.1_Intron|SFTPC_uc003xaz.2_Missense_Mutation_p.C121R|SFTPC_uc003xay.3_Missense_Mutation_p.C121R|BMP1_uc011kzb.1_5'Flank|BMP1_uc003xba.2_5'Flank|BMP1_uc003xbb.2_5'Flank|BMP1_uc003xbe.2_5'Flank|BMP1_uc003xbc.2_5'Flank|BMP1_uc003xbd.2_5'Flank|BMP1_uc003xbf.2_5'Flank|BMP1_uc003xbg.2_5'Flank|BMP1_uc011kzc.1_5'Flank|BMP1_uc003xbh.2_5'Flank|BMP1_uc003xbi.2_5'Flank	NM_003018	NP_003009	P11686	PSPC_HUMAN	surfactant protein C precursor	121	BRICHOS.				respiratory gaseous exchange	extracellular space					0				Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		TGGCACCTGCTGCTACATCAT	0.562													3	90					0	0	1	0	0		C	22020985	C	C	22020985	3	2	27	1	0	0	0	0	1	0	0	0	14217	1580	55	3	375	3	SFTPC	8	22020985	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8051	22020985	124343037	3908	26259											
POLR3D	661	broad.mit.edu	37	chr8	22105428	22105428	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagggacagagaccgacaaCgagaggggcatggacgaggg	15	1	18	7	3	0	2	0	0	0	2	0	8	0	4	1	5	1	1	1	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:22105428C>T	uc003xbl.2	+	4	351	c.268C>T	c.(268-270)CGA>TGA	p.R90*	uc011kzd.1_5'Flank|MIR320A_hsa-mir-320a|MI0000542_5'Flank|POLR3D_uc003xbm.2_Nonsense_Mutation_p.R90*|POLR3D_uc011kze.1_RNA	NM_001722	NP_001713	P05423	RPC4_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	90					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity				0				Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		AGACCGACAACGAGAGGGGCA	0.498													15	92					0	0	1	0	0		T	22105428	T	T	22105428	4	4	27	1	0	0	0	0	0	1	0	0	12250	528	19	1	278	1	POLR3D	8	22105428	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	84443	22105428	124258594	3909	26260											
PIWIL2	55124	broad.mit.edu	37	chr8	22137081	22137081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggaaccaagcacacagaGggggccagcacaaagggtaa	17	1	14	9	0	0	2	0	0	0	2	0	3	0	3	2	4	3	3	2	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:22137081G>A	uc003xbn.2	+	2	330	c.182G>A	c.(181-183)AGG>AAG	p.R61K	PIWIL2_uc011kzf.1_Missense_Mutation_p.R61K|PIWIL2_uc010ltv.2_Missense_Mutation_p.R61K	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2	61					DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		AGCACACAGAGGGGGCCAGCA	0.542													6	127					0	0	1	0	0		A	22137081	A	A	22137081	3	1	27	1	0	0	0	0	1	0	0	0	11977	1000	35	4	184	4	PIWIL2	8	22137081	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31653	22137081	124226941	3910	26261											
PIWIL2	55124	broad.mit.edu	37	chr8	22163529	22163529	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggacttcagagccatgaaGgttggagtcctgtgttttca	10	12	12	7	0	2	2	2	1	0	1	3	4	3	4	2	3	1	2	2	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:22163529G>T	uc003xbn.2	+	13	1693	c.1545G>T	c.(1543-1545)AAG>AAT	p.K515N	PIWIL2_uc011kzf.1_Missense_Mutation_p.K515N|PIWIL2_uc010ltv.2_Missense_Mutation_p.K515N	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2	515					DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		GAGCCATGAAGGTTGGAGTCC	0.438													7	115					2.0095e-06	2.17775e-06	1	1	0		T	22163529	T	T	22163529	3	4	27	1	0	0	0	0	1	0	0	0	11977	1014	35	5	1591	5	PIWIL2	8	22163529	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26448	22163529	124200493	3911	26262											
SLC39A14	23516	broad.mit.edu	37	chr8	22262401	22262401	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggtgacagcctcactctgCagcagctgaaggccctactc	9	7	11	14	0	2	2	1	2	1	0	3	2	2	2	2	2	5	3	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:22262401C>T	uc003xbq.3	+	2	353	c.178C>T	c.(178-180)CAG>TAG	p.Q60*	SLC39A14_uc011kzg.1_Nonsense_Mutation_p.Q60*|SLC39A14_uc003xbp.3_Nonsense_Mutation_p.Q60*|SLC39A14_uc011kzh.1_Nonsense_Mutation_p.Q60*	NM_001128431	NP_001121903	Q15043	S39AE_HUMAN	solute carrier family 39 (zinc transporter),	60	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|lamellipodium|plasma membrane	zinc ion transmembrane transporter activity				0				Colorectal(74;0.019)|COAD - Colon adenocarcinoma(73;0.0731)		CCTCACTCTGCAGCAGCTGAA	0.592													7	107					0	0	1	0	0		T	22262401	T	T	22262401	4	4	27	1	0	0	0	0	0	1	0	0	14642	711	25	2	180	2	SLC39A14	8	22262401	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	98872	22262401	124101621	3912	26263											
RHOBTB2	23221	broad.mit.edu	37	chr8	22864590	22864590	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcaggagcgggtgcgcAtctttgcccacaagatctac	8	9	12	12	2	2	1	0	0	2	1	2	2	2	2	1	2	6	3	1	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:22864590A>G	uc003xcq.2	+	5	1369	c.832A>G	c.(832-834)ATC>GTC	p.I278V	RHOBTB2_uc003xcp.2_Missense_Mutation_p.I300V|RHOBTB2_uc011kzp.1_Missense_Mutation_p.I285V|uc003xcr.2_RNA	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	278	BTB 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		GCGGGTGCGCATCTTTGCCCA	0.662													11	160					0	0	1	0	0		G	22864590	G	G	22864590	3	3	27	1	0	0	0	0	1	0	0	0	13359	217	8	3	931	3	RHOBTB2	8	22864590	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	602189	22864590	123499432	3913	26264											
RHOBTB2	23221	broad.mit.edu	37	chr8	22864808	22864808	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctttgacgtgtgcgagagCgtggatgaggctgggggctc	6	9	19	7	3	0	3	0	2	0	1	1	5	0	4	0	4	3	3	0	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:22864808C>T	uc003xcq.2	+	5	1587	c.1050C>T	c.(1048-1050)AGC>AGT	p.S350S	RHOBTB2_uc003xcp.2_Silent_p.S372S|RHOBTB2_uc011kzp.1_Silent_p.S357S|uc003xcr.2_RNA	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	350	BTB 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		TGTGCGAGAGCGTGGATGAGG	0.567													4	108					0	0	1	0	0		T	22864808	T	T	22864808	2	4	27	1	0	0	0	0	0	0	0	1	13359	767	27	1		1	RHOBTB2	8	22864808	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	218	22864808	123499214	3914	26265											
TNFRSF10B	8795	broad.mit.edu	37	chr8	22881771	22881771	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacctttcagcttctgccggTtcctgtaacacatagtgggg	7	12	11	11	1	2	0	1	0	1	0	3	1	3	0	3	3	3	3	3	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:22881771T>A	uc003xcu.2	-	8	1232	c.939A>T	c.(937-939)GAA>GAT	p.E313D	TNFRSF10B_uc003xcs.1_Missense_Mutation_p.E78D|TNFRSF10B_uc003xct.2_Missense_Mutation_p.E284D|TNFRSF10B_uc011kzq.1_Missense_Mutation_p.E133D|TNFRSF10B_uc003xcv.2_Missense_Mutation_p.E211D	NM_003842	NP_003833	O14763	TR10B_HUMAN	tumor necrosis factor receptor superfamily,	313	Cytoplasmic (Potential).				activation of NF-kappaB-inducing kinase activity|activation of pro-apoptotic gene products|cell surface receptor linked signaling pathway|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|positive regulation of I-kappaB kinase/NF-kappaB cascade	plasma membrane	caspase activator activity|receptor activity|TRAIL binding				0		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0179)|COAD - Colon adenocarcinoma(73;0.0703)		CTTCTGCCGGTTCCTGTAACA	0.294													14	127					0	0	1	0	0		A	22881771	A	A	22881771	3	1	27	1	0	0	0	0	1	0	0	0	16306	1722	60	5	391	5	TNFRSF10B	8	22881771	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	16963	22881771	123482251	3915	26266											
TNFRSF10C	8794	broad.mit.edu	37	chr8	22969324	22969324	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcacagcttcaagggggAggagtgtccagcaggtgcac	10	5	17	9	0	1	0	1	0	0	0	2	3	2	2	1	5	3	4	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:22969324A>G	uc003xcy.2	+	2	353	c.152A>G	c.(151-153)GAG>GGG	p.E51G	TNFRSF10C_uc011kzr.1_Intron	NM_003841	NP_003832	O14798	TR10C_HUMAN	tumor necrosis factor receptor superfamily,	51	TNFR-Cys 1.				apoptosis	anchored to membrane|integral to plasma membrane	TRAIL binding|transmembrane receptor activity				0		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0147)|COAD - Colon adenocarcinoma(73;0.0612)		TTCAAGGGGGAGGAGTGTCCA	0.393													4	46					0	0	1	0	0		G	22969324	G	G	22969324	3	3	27	1	0	0	0	0	1	0	0	0	16307	304	11	3	158	3	TNFRSF10C	8	22969324	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	87553	22969324	123394698	3916	26267											
TNFRSF10D	8793	broad.mit.edu	37	chr8	22995760	22995760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcctctgacacccttcaGcttctgcctgttcctgtaac	5	14	5	17	0	3	1	1	1	2	0	6	1	6	1	5	0	3	3	5	0	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:22995760G>A	uc003xcz.1	-	8	1060	c.968C>T	c.(967-969)GCT>GTT	p.A323V		NM_003840	NP_003831	Q9UBN6	TR10D_HUMAN	tumor necrosis factor receptor superfamily,	323	Cytoplasmic (Potential).				anti-apoptosis|apoptosis	integral to membrane	TRAIL binding|transmembrane receptor activity				0		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0147)|COAD - Colon adenocarcinoma(73;0.0612)		ACACCCTTCAGCTTCTGCCTG	0.338													4	84					0	0	1	0	0		A	22995760	A	A	22995760	3	1	27	1	0	0	0	0	1	0	0	0	16308	971	34	2	200	2	TNFRSF10D	8	22995760	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26436	22995760	123368262	3917	26268											
LOXL2	4017	broad.mit.edu	37	chr8	23155621	23155621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaactttttttccgtctcttCgctgaaggaaccacctgaag	10	13	7	11	2	1	2	0	2	1	0	4	3	2	3	3	1	2	1	3	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:23155621C>T	uc003xdh.1	-	14	2599	c.2260G>A	c.(2260-2262)GAA>AAA	p.E754K	LOXL2_uc010lty.1_Silent_p.A255A	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	754					aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		TCCGTCTCTTCGCTGAAGGAA	0.557													17	87					0	0	1	0	0		T	23155621	T	T	23155621	3	4	27	1	0	0	0	0	1	0	0	0	8918	893	31	1	68	1	LOXL2	8	23155621	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	159861	23155621	123208401	3918	26269											
LOXL2	4017	broad.mit.edu	37	chr8	23167310	23167310	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggtggggtcggtctgcgcgGctgaggccgagaggcagttc	4	8	20	9	4	1	2	0	1	1	1	3	3	1	2	1	7	1	3	1	7	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:23167310G>A	uc003xdh.1	-	10	2090	c.1751C>T	c.(1750-1752)GCC>GTC	p.A584V	LOXL2_uc010lty.1_Missense_Mutation_p.A123V	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	584	Lysyl-oxidase like.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		GGTCTGCGCGGCTGAGGCCGA	0.652													4	44					0	0	1	0	0		A	23167310	A	A	23167310	3	1	27	1	0	0	0	0	1	0	0	0	8918	1203	42	2	593	2	LOXL2	8	23167310	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11689	23167310	123196712	3919	26270											
LOXL2	4017	broad.mit.edu	37	chr8	23177441	23177441	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcccagctggcggcagAccaccatggcctccacgatg	8	4	12	17	2	0	1	0	0	0	1	1	2	1	1	6	4	1	2	6	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:23177441A>G	uc003xdh.1	-	8	1766	c.1427T>C	c.(1426-1428)GTC>GCC	p.V476A	LOXL2_uc010lty.1_Missense_Mutation_p.V15A	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	476	SRCR 4.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		CTGGCGGCAGACCACCATGGC	0.652													11	70					0	0	1	0	0		G	23177441	G	G	23177441	3	3	27	1	0	0	0	0	1	0	0	0	8918	275	10	3	925	3	LOXL2	8	23177441	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10131	23177441	123186581	3920	26271											
LOXL2	4017	broad.mit.edu	37	chr8	23198524	23198524	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgtacactttggtattgtAtgtcctctccccagggaagc	7	14	9	11	0	1	0	0	0	1	0	3	1	2	1	3	2	2	3	3	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:23198524A>G	uc003xdh.1	-	4	1063	c.724T>C	c.(724-726)TAC>CAC	p.Y242H	uc003xdj.2_Intron|uc003xdi.2_Intron	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	242	SRCR 2.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		TTGGTATTGTATGTCCTCTCC	0.547													20	123					0	0	1	0	0		G	23198524	G	G	23198524	3	3	27	1	0	0	0	0	1	0	0	0	8918	449	16	3	1644	3	LOXL2	8	23198524	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21083	23198524	123165498	3921	26272											
NKX3-1	4824	broad.mit.edu	37	chr8	23538760	23538760	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaagctgggctccagctgcCcacgcagtacaggtatgggt	10	7	13	11	1	0	0	0	0	0	0	1	0	1	0	2	3	4	6	2	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:23538760C>G	uc011kzx.1	-	2	727	c.679G>C	c.(679-681)GGC>CGC	p.G227R	NKX3-1_uc003xdv.1_Intron	NM_006167	NP_006158	Q99801	NKX31_HUMAN	NK3 homeobox 1	227					negative regulation of estrogen receptor binding|negative regulation of transcription, DNA-dependent|positive regulation of cell division|positive regulation of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter	nucleus	estrogen receptor activity|estrogen receptor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region sequence-specific DNA binding				0		Prostate(55;0.114)		Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)|BRCA - Breast invasive adenocarcinoma(99;0.0708)		CTCCAGCTGCCCACGCAGTAC	0.547													8	111					0	0	1	0	0		G	23538760	G	G	23538760	3	3	27	1	0	0	0	0	1	0	0	0	10474	623	22	5	29	5	NKX3-1	8	23538760	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	340236	23538760	122825262	3922	26273											
ADAM28	10863	broad.mit.edu	37	chr8	24200626	24200626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actttcaggtttgcattaatGcagaatgtgtggatattgag	11	15	11	4	0	1	2	1	1	0	1	1	3	1	3	0	2	2	3	0	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:24200626G>A	uc003xdy.2	+	17	1926	c.1843G>A	c.(1843-1845)GCA>ACA	p.A615T	ADAM28_uc011laa.1_RNA|ADAM28_uc010lua.2_Missense_Mutation_p.A302T	NM_014265	NP_055080	Q9UKQ2	ADA28_HUMAN	ADAM metallopeptidase domain 28 isoform 1	615	Extracellular (Potential).|Cys-rich.				proteolysis|spermatogenesis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|lung(1)|central_nervous_system(1)	5		Prostate(55;0.0959)		Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0434)|BRCA - Breast invasive adenocarcinoma(99;0.175)		TTGCATTAATGCAGAATGTGT	0.388													11	82					0	0	1	0	0		A	24200626	A	A	24200626	3	1	27	1	0	0	0	0	1	0	0	0	246	1319	46	2	1965	2	ADAM28	8	24200626	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	661866	24200626	122163396	3923	26274											
ADAM7	8756	broad.mit.edu	37	chr8	24356804	24356804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctatatctcaaccaattGcccctctcagtgcaatgaaa	12	11	6	12	0	3	1	2	1	3	0	5	1	3	1	3	1	3	1	3	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:24356804G>A	uc003xeb.2	+	17	2011	c.1898G>A	c.(1897-1899)TGC>TAC	p.C633Y	ADAM7_uc003xec.2_Missense_Mutation_p.C405Y	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	633	Extracellular (Potential).|Cys-rich.				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		TCAACCAATTGCCCCTCTCAG	0.333													6	61					0	0	1	0	0		A	24356804	A	A	24356804	3	1	27	1	0	0	0	0	1	0	0	0	251	1319	46	2	1964	2	ADAM7	8	24356804	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	156178	24356804	122007218	3924	26275											
NEFM	4741	broad.mit.edu	37	chr8	24771921	24771921	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgaggcggccatccgcgcGctgcgcaaagacatcgagga	10	4	14	13	6	0	2	0	1	0	1	2	4	1	3	2	3	1	2	2	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:24771921G>A	uc003xed.3	+	1	648	c.615G>A	c.(613-615)GCG>GCA	p.A205A	NEFM_uc011lac.1_Silent_p.A205A|NEFM_uc010lue.2_5'Flank|uc010luc.1_Silent_p.S49S	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	205	Rod.|Coil 1B.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		CCATCCGCGCGCTGCGCAAAG	0.647													8	38					0	0	1	0	0		A	24771921	A	A	24771921	2	1	27	1	0	0	0	0	0	0	0	1	10335	1074	38	1		1	NEFM	8	24771921	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	415117	24771921	121592101	3925	26276											
NEFM	4741	broad.mit.edu	37	chr8	24772257	24772257	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctccgccaaggaagagatCgccgagtaccggcgccagct	9	4	13	15	6	0	1	0	0	0	1	2	4	1	2	5	2	2	3	5	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:24772257C>T	uc003xed.3	+	1	984	c.951C>T	c.(949-951)ATC>ATT	p.I317I	NEFM_uc011lac.1_Silent_p.I317I|NEFM_uc010lue.2_5'Flank|uc010luc.1_5'Flank	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	317	Rod.|Coil 2B.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		AGGAAGAGATCGCCGAGTACC	0.637													3	24					0	0	1	0	0		T	24772257	T	T	24772257	2	4	27	1	0	0	0	0	0	0	0	1	10335	874	31	1		1	NEFM	8	24772257	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	336	24772257	121591765	3926	26277											
NEFM	4741	broad.mit.edu	37	chr8	24775961	24775961	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagaaaaaatcaccagtgagGggggagatggtgctaccaaa	16	6	13	6	0	1	3	1	1	0	2	1	4	1	3	2	4	2	1	2	4	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:24775961G>T	uc003xed.3	+	3	2626	c.2593G>T	c.(2593-2595)GGG>TGG	p.G865W	NEFM_uc011lac.1_Missense_Mutation_p.G647W|NEFM_uc010lue.2_Missense_Mutation_p.G489W	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	865	Tail.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		CACCAGTGAGGGGGGAGATGG	0.448													6	126					2.7689e-08	3.04041e-08	1	1	0		T	24775961	T	T	24775961	3	4	27	1	0	0	0	0	1	0	0	0	10335	1232	43	5	2603	5	NEFM	8	24775961	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3704	24775961	121588061	3927	26278											
DOCK5	80005	broad.mit.edu	37	chr8	25203086	25203086	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accacgaggcaagctcgcagCttctgagcaacatcctggag	11	6	11	13	2	1	1	0	1	1	0	3	3	2	2	2	2	4	5	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:25203086C>A	uc003xeg.2	+	26	2850	c.2713C>A	c.(2713-2715)CTT>ATT	p.L905I	DOCK5_uc010luf.1_RNA|DOCK5_uc003xeh.1_Missense_Mutation_p.L619I|DOCK5_uc003xei.2_Missense_Mutation_p.L475I|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	905						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		AAGCTCGCAGCTTCTGAGCAA	0.552													12	145					0.0167234	0.0170664	1	1	0		A	25203086	A	A	25203086	3	1	27	1	0	0	0	0	1	0	0	0	4696	797	28	5	2815	5	DOCK5	8	25203086	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	427125	25203086	121160936	3928	26279											
KCTD9	54793	broad.mit.edu	37	chr8	25293964	25293964	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctaggtgttcaatcaaTgagtcaataccaaaaaatct	16	12	5	8	0	5	1	3	1	2	0	5	1	5	1	1	1	1	1	1	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:25293964T>C	uc003xeo.2	-	7	695	c.537A>G	c.(535-537)TCA>TCG	p.S179S	PPP2R2A_uc003xek.2_Intron	NM_017634	NP_060104	Q7L273	KCTD9_HUMAN	potassium channel tetramerisation domain	179						voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		GTTCAATCAATGAGTCAATAC	0.323													4	79					0	0	1	0	0		C	25293964	C	C	25293964	2	2	27	1	0	0	0	0	0	0	0	1	8132	1451	51	3		3	KCTD9	8	25293964	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	90878	25293964	121070058	3929	26280											
CDCA2	157313	broad.mit.edu	37	chr8	25317936	25317936	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgggaactgggaagattgTgactcctcagaagcatgccg	10	10	13	8	1	1	3	1	1	0	2	2	5	2	5	2	2	3	1	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:25317936T>C	uc003xep.1	+	3	577	c.98T>C	c.(97-99)GTG>GCG	p.V33A	PPP2R2A_uc003xek.2_Intron|KCTD9_uc003xeo.2_5'Flank|CDCA2_uc011lae.1_Missense_Mutation_p.V33A|CDCA2_uc003xeq.1_Missense_Mutation_p.V18A	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	33					cell division|mitosis	cytoplasm|nucleus					0		all_cancers(63;0.0378)|Ovarian(32;0.000878)|all_epithelial(46;0.0162)|Breast(100;0.0164)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.022)|Epithelial(17;1.37e-11)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0443)		GGGAAGATTGTGACTCCTCAG	0.433													23	361					0	0	1	0	0		C	25317936	C	C	25317936	3	2	27	1	0	0	0	0	1	0	0	0	3089	1696	59	3	104	3	CDCA2	8	25317936	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	23972	25317936	121046086	3930	26281											
CDCA2	157313	broad.mit.edu	37	chr8	25325834	25325834	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagagactctgatgaaaatCtgacggatgctgaaggaaaa	17	7	12	5	1	2	6	0	4	2	2	2	9	2	8	0	2	1	1	0	2	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:25325834C>T	uc003xep.1	+	6	1119	c.640C>T	c.(640-642)CTG>TTG	p.L214L	PPP2R2A_uc003xek.2_Intron|CDCA2_uc011lae.1_Silent_p.L214L|CDCA2_uc003xeq.1_Silent_p.L199L|CDCA2_uc003xer.1_5'UTR	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	214					cell division|mitosis	cytoplasm|nucleus					0		all_cancers(63;0.0378)|Ovarian(32;0.000878)|all_epithelial(46;0.0162)|Breast(100;0.0164)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.022)|Epithelial(17;1.37e-11)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0443)		TGATGAAAATCTGACGGATGC	0.443													4	115					0	0	1	0	0		T	25325834	T	T	25325834	2	4	27	1	0	0	0	0	0	0	0	1	3089	912	32	4		4	CDCA2	8	25325834	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7898	25325834	121038188	3931	26282											
EBF2	64641	broad.mit.edu	37	chr8	25718615	25718615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctgaccccaagctggctgCcataggagttgattcccatc	8	10	10	13	0	0	2	0	2	0	0	2	3	1	3	4	2	3	4	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:25718615C>T	uc003xes.1	-	13	1309	c.1292G>A	c.(1291-1293)GGC>GAC	p.G431D	PPP2R2A_uc003xek.2_Intron|EBF2_uc010lug.1_RNA	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	431					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		AAGCTGGCTGCCATAGGAGTT	0.478													16	172					0	0	1	0	0		T	25718615	T	T	25718615	3	4	27	1	0	0	0	0	1	0	0	0	4887	739	26	2	451	2	EBF2	8	25718615	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	392781	25718615	120645407	3932	26283											
PPP2R2A	5520	broad.mit.edu	37	chr8	26220238	26220238	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgccaatatggaagagctaAcagaggtgattacagcagca	15	7	11	8	0	0	3	0	1	0	2	0	4	0	4	1	2	6	3	1	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:26220238A>C	uc003xeu.2	+	7	978	c.676A>C	c.(676-678)ACA>CCA	p.T226P	PPP2R2A_uc003xek.2_Missense_Mutation_p.T227P|PPP2R2A_uc011laf.1_Missense_Mutation_p.T236P	NM_002717	NP_002708	P63151	2ABA_HUMAN	alpha isoform of regulatory subunit B55, protein	226	WD 4.				protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)		GGAAGAGCTAACAGAGGTGAT	0.368													7	62					0	0	1	0	0		C	26220238	C	C	26220238	3	2	27	1	0	0	0	0	1	0	0	0	12406	43	2	5	743	5	PPP2R2A	8	26220238	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	501623	26220238	120143784	3933	26284											
PPP2R2A	5520	broad.mit.edu	37	chr8	26227921	26227921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatatatttcaagacaaaGtgaattagggttggcattcc	13	14	9	5	0	1	2	1	1	0	1	2	2	2	2	1	2	0	3	1	2	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:26227921G>A	uc003xeu.2	+	10	1638	c.1336G>A	c.(1336-1338)GTG>ATG	p.V446M	PPP2R2A_uc003xek.2_Missense_Mutation_p.V447M|PPP2R2A_uc011laf.1_Missense_Mutation_p.V456M	NM_002717	NP_002708	P63151	2ABA_HUMAN	alpha isoform of regulatory subunit B55, protein	446	WD 7.				protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)		TCAAGACAAAGTGAATTAGGG	0.403													5	82					0	0	1	0	0		A	26227921	A	A	26227921	3	1	27	1	0	0	0	0	1	0	0	0	12406	1029	36	4	1415	4	PPP2R2A	8	26227921	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7683	26227921	120136101	3934	26285											
DPYSL2	1808	broad.mit.edu	37	chr8	26505247	26505247	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggccgcattgctgtgggAtccgatgccgacctggtcat	8	9	13	11	3	1	0	1	0	0	0	2	3	2	1	4	3	2	2	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:26505247A>T	uc003xfb.1	+	11	1562	c.1212A>T	c.(1210-1212)GGA>GGT	p.G404G	DPYSL2_uc003xfa.2_Silent_p.G509G|DPYSL2_uc010luk.1_RNA|DPYSL2_uc011lah.1_Silent_p.G368G	NM_001386	NP_001377	Q16555	DPYL2_HUMAN	dihydropyrimidinase-like 2	404					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	dihydropyrimidinase activity|protein binding			large_intestine(1)	1		all_cancers(63;0.121)|Ovarian(32;2.68e-05)|all_epithelial(46;0.116)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;3.33e-10)|Colorectal(74;0.183)		TTGCTGTGGGATCCGATGCCG	0.542													8	103					0	0	1	0	0		T	26505247	T	T	26505247	2	4	27	1	0	0	0	0	0	0	0	1	4753	320	12	5		5	DPYSL2	8	26505247	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	277326	26505247	119858775	3935	26286											
STMN4	81551	broad.mit.edu	37	chr8	27097663	27097663	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgctaggtgtttcaggAgctccgcttcctggtactgg	4	14	12	11	1	2	0	1	0	1	0	5	1	4	1	2	4	3	5	2	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:27097663A>G	uc003xfk.2	-	5	449	c.335T>C	c.(334-336)CTC>CCC	p.L112P	STMN4_uc003xfj.2_Missense_Mutation_p.L139P|STMN4_uc011lai.1_Missense_Mutation_p.L139P|STMN4_uc011laj.1_Missense_Mutation_p.L103P|STMN4_uc011lak.1_Missense_Mutation_p.L139P|STMN4_uc010luo.2_Missense_Mutation_p.L112P			Q9H169	STMN4_HUMAN	RecName: Full=Stathmin-4; AltName: Full=Stathmin-like protein B3;          Short=RB3;	112	Potential.				intracellular signal transduction					large_intestine(1)|pancreas(1)	2		Ovarian(32;0.00167)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0214)|Epithelial(17;9.82e-10)|Colorectal(74;0.142)		GTGTTTCAGGAGCTCCGCTTC	0.488													7	114					0	0	1	0	0		G	27097663	G	G	27097663	3	3	27	1	0	0	0	0	1	0	0	0	15336	304	11	3	242	3	STMN4	8	27097663	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	592416	27097663	119266359	3936	26287											
TRIM35	23087	broad.mit.edu	37	chr8	27145580	27145580	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtagccatggttggtgacGctggtgaggtcgtcagacac	7	9	16	9	3	1	3	1	2	0	1	2	3	1	3	1	5	1	3	1	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:27145580G>A	uc003xfl.1	-	6	1051	c.969C>T	c.(967-969)AGC>AGT	p.S323S	TRIM35_uc010lup.1_3'UTR	NM_171982	NP_741983	Q9UPQ4	TRI35_HUMAN	tripartite motif-containing 35 isoform 2	323	B30.2/SPRY.				apoptosis|induction of apoptosis|negative regulation of mitotic cell cycle	cytoplasm|nucleus	zinc ion binding				0		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|Epithelial(17;9.34e-10)|Colorectal(74;0.141)		GGTTGGTGACGCTGGTGAGGT	0.632													4	83					0	0	1	0	0		A	27145580	A	A	27145580	2	1	27	1	0	0	0	0	0	0	0	1	16535	1078	38	1		1	TRIM35	8	27145580	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	47917	27145580	119218442	3937	26288											
PTK2B	2185	broad.mit.edu	37	chr8	27255114	27255114	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagaggatgtctggggtgTccgagcccctgagtcgagta	7	9	16	9	2	1	2	0	2	1	1	3	6	2	3	3	3	1	1	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:27255114T>A	uc003xfn.1	+	7	821	c.13T>A	c.(13-15)TCC>ACC	p.S5T	PTK2B_uc003xfo.1_Missense_Mutation_p.S5T|PTK2B_uc003xfp.1_Missense_Mutation_p.S5T|PTK2B_uc003xfq.1_Missense_Mutation_p.S5T	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	5					apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		GTCTGGGGTGTCCGAGCCCCT	0.597													6	127					0	0	1	0	0		A	27255114	A	A	27255114	3	1	27	1	0	0	0	0	1	0	0	0	12786	1667	58	5	15	5	PTK2B	8	27255114	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	109534	27255114	119108908	3938	26289											
CHRNA2	1135	broad.mit.edu	37	chr8	27320949	27320949	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatggacagggtgacgaaGatcatggtgaacagcaggta	14	6	15	6	2	1	3	1	2	0	1	1	6	1	4	0	4	2	2	0	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:27320949G>T	uc010lur.2	-	6	1620	c.1011C>A	c.(1009-1011)ATC>ATA	p.I337I	CHRNA2_uc011lal.1_Silent_p.I322I|CHRNA2_uc010lus.2_Silent_p.I139I	NM_000742	NP_000733	Q15822	ACHA2_HUMAN	cholinergic receptor, nicotinic, alpha	337	Helical; (Potential).					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)	1		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0208)|Epithelial(17;2.77e-10)|Colorectal(74;0.136)	Atracurium(DB00732)|Biperiden(DB00810)|Carbachol(DB00411)|Cisatracurium Besylate(DB00565)|Decamethonium(DB01245)|Dextromethorphan(DB00514)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Gallamine Triethiodide(DB00483)|Levallorphan(DB00504)|Mecamylamine(DB00657)|Metocurine(DB01336)|Metocurine Iodide(DB00416)|Mivacurium(DB01226)|Nicotine(DB00184)|Pancuronium(DB01337)|Pipecuronium(DB01338)|Rocuronium(DB00728)|Tubocurarine(DB01199)	GGGTGACGAAGATCATGGTGA	0.612													5	99					0.000602214	0.000630257	1	1	0		T	27320949	T	T	27320949	2	4	27	1	0	0	0	0	0	0	0	1	3386	932	33	5		5	CHRNA2	8	27320949	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	65835	27320949	119043073	3939	26290											
EPHX2	2053	broad.mit.edu	37	chr8	27382949	27382949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctttggagagtatcaaaGccaacccagtatttgattac	12	11	7	11	0	1	2	1	1	0	1	1	3	1	2	4	1	3	2	4	1	5	5	rs148677997		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:27382949G>A	uc003xfu.2	+	12	1210	c.1129G>A	c.(1129-1131)GCC>ACC	p.A377T	EPHX2_uc010lut.1_Missense_Mutation_p.A377T|EPHX2_uc010luu.2_Missense_Mutation_p.A345T|EPHX2_uc010luv.2_Missense_Mutation_p.A311T|EPHX2_uc003xfv.2_Missense_Mutation_p.A324T|EPHX2_uc010luw.2_Missense_Mutation_p.A311T	NM_001979	NP_001970	P34913	HYES_HUMAN	epoxide hydrolase 2, cytoplasmic	377	Epoxide hydrolase.				aromatic compound catabolic process|cellular calcium ion homeostasis|drug metabolic process|inflammatory response|positive regulation of vasodilation|reactive oxygen species metabolic process|regulation of blood pressure|response to toxin|xenobiotic metabolic process	cytosol|focal adhesion|Golgi apparatus|nucleolus|peroxisome|soluble fraction	epoxide hydrolase activity|metal ion binding|protein homodimerization activity			ovary(1)	1		Ovarian(32;2.61e-05)|all_epithelial(46;0.207)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0226)|Epithelial(17;1.12e-09)|Colorectal(74;0.157)	Tamoxifen(DB00675)	GAGTATCAAAGCCAACCCAGT	0.473													9	239					0	0	1	0	0		A	27382949	A	A	27382949	3	1	27	1	0	0	0	0	1	0	0	0	5188	971	34	2	1175	2	EPHX2	8	27382949	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	62000	27382949	118981073	3940	26291											
CLU	1191	broad.mit.edu	37	chr8	27457490	27457490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggattcgtcgagctcccgcCgcagcttagcctgggagggg	5	7	17	12	4	0	0	0	0	0	0	3	3	1	2	3	4	3	3	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:27457490C>T	uc003xfw.1	-	6	1029	c.971G>A	c.(970-972)CGG>CAG	p.R324Q	CLU_uc010lux.1_Missense_Mutation_p.R189Q|CLU_uc003xfx.1_Missense_Mutation_p.R324Q|CLU_uc003xfy.1_Missense_Mutation_p.R335Q|CLU_uc003xfz.1_Missense_Mutation_p.R376Q	NM_203339	NP_976084	P10909	CLUS_HUMAN	clusterin isoform 2	324					chaperone-mediated protein folding|complement activation, classical pathway|innate immune response|lipid metabolic process|negative regulation of apoptosis|negative regulation of protein homooligomerization|platelet activation|platelet degranulation|positive regulation of NF-kappaB transcription factor activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|response to misfolded protein|response to virus|reverse cholesterol transport	chromaffin granule|cytosol|endoplasmic reticulum|microsome|mitochondrial membrane|nucleus|perinuclear region of cytoplasm|platelet alpha granule lumen|spherical high-density lipoprotein particle	misfolded protein binding|ubiquitin protein ligase binding			ovary(2)	2		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|Colorectal(74;0.132)		GAGCTCCCGCCGCAGCTTAGC	0.547													18	51					0	0	1	0	0		T	27457490	T	T	27457490	3	4	27	1	0	0	0	0	1	0	0	0	3571	652	23	1	390	1	CLU	8	27457490	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	74541	27457490	118906532	3941	26292											
SCARA3	51435	broad.mit.edu	37	chr8	27516928	27516928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcaccacagacctgctccGggagcgcttcagcctgctca	7	6	12	16	2	2	1	2	0	0	1	3	2	3	2	4	2	4	4	4	2	0	1	rs142551514		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:27516928G>A	uc003xga.1	+	5	1382	c.1241G>A	c.(1240-1242)CGG>CAG	p.R414Q	SCARA3_uc003xgb.1_Missense_Mutation_p.R414Q	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	414	Extracellular (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		GACCTGCTCCGGGAGCGCTTC	0.607													7	28					0	0	1	0	0		A	27516928	A	A	27516928	3	1	27	1	0	0	0	0	1	0	0	0	13904	1116	39	1	1259	1	SCARA3	8	27516928	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	59438	27516928	118847094	3942	26293											
CCDC25	55246	broad.mit.edu	37	chr8	27606083	27606083	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcaggttagaccacggcgTatataccacattaacgttgt	11	12	8	10	3	1	1	1	0	0	1	1	1	1	1	2	2	2	3	2	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:27606083T>C	uc003xgc.2	-	6	390	c.277A>G	c.(277-279)ACG>GCG	p.T93A	CCDC25_uc003xgd.2_Missense_Mutation_p.T25A|CCDC25_uc011lan.1_Intron|CCDC25_uc011lao.1_Intron|CCDC25_uc003xge.2_Intron|CCDC25_uc003xgf.1_RNA	NM_018246	NP_060716	Q86WR0	CCD25_HUMAN	coiled-coil domain containing 25	93											0		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0223)|KIRC - Kidney renal clear cell carcinoma(542;0.11)|Kidney(114;0.131)|Colorectal(74;0.154)		GACCACGGCGTATATACCACA	0.493													13	248					0	0	1	0	0		C	27606083	C	C	27606083	3	2	27	1	0	0	0	0	1	0	0	0	2803	1638	57	3	365	3	CCDC25	8	27606083	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	89155	27606083	118757939	3943	26294											
ESCO2	157570	broad.mit.edu	37	chr8	27650265	27650265	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccaaacaaaataaaaacTtttctttttatatctgatga	16	16	3	6	0	2	2	0	2	2	0	3	2	3	2	1	0	2	0	1	0	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:27650265T>C	uc003xgg.2	+	9	1517	c.1434T>C	c.(1432-1434)ACT>ACC	p.T478T	ESCO2_uc010luy.1_RNA	NM_001017420	NP_001017420	Q56NI9	ESCO2_HUMAN	establishment of cohesion 1 homolog 2	478					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding			central_nervous_system(1)	1		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|KIRC - Kidney renal clear cell carcinoma(542;0.0955)|Kidney(114;0.115)|Colorectal(74;0.132)		AAATAAAAACTTTTCTTTTTA	0.303									SC_Phocomelia_syndrome				10	81					0	0	1	0	0		C	27650265	C	C	27650265	2	2	27	1	0	0	0	0	0	0	0	1	5257	1596	56	3		3	ESCO2	8	27650265	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	44182	27650265	118713757	3944	26295											
PBK	55872	broad.mit.edu	37	chr8	27680702	27680702	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttacagcccaaggagaaTgagacaaacctcttggagat	14	10	9	8	0	1	3	0	1	1	3	1	6	1	3	2	2	3	0	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:27680702T>C	uc003xgi.2	-	4	374	c.173A>G	c.(172-174)CAT>CGT	p.H58R	PBK_uc011lap.1_Missense_Mutation_p.H58R	NM_018492	NP_060962	Q96KB5	TOPK_HUMAN	PDZ binding kinase	58	Protein kinase.				mitosis		ATP binding|protein binding|protein serine/threonine kinase activity				0		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|KIRC - Kidney renal clear cell carcinoma(542;0.101)|Kidney(114;0.121)|Colorectal(74;0.141)		CCAAGGAGAATGAGACAAACC	0.294													7	109					0	0	1	0	0		C	27680702	C	C	27680702	3	2	27	1	0	0	0	0	1	0	0	0	11507	1464	51	3	815	3	PBK	8	27680702	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	30437	27680702	118683320	3945	26296											
SCARA5	286133	broad.mit.edu	37	chr8	27737144	27737144	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgcggaagccgagcatgcgGcacaccacgtctccgtcctt	7	6	11	17	6	1	0	0	0	1	0	3	2	2	1	5	2	3	2	5	2	1	1	rs138986901	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:27737144G>A	uc003xgj.2	-	8	1733	c.1293C>T	c.(1291-1293)TGC>TGT	p.C431C	SCARA5_uc010luz.2_Silent_p.C206C	NM_173833	NP_776194	Q6ZMJ2	SCAR5_HUMAN	scavenger receptor class A, member 5	431	SRCR.|Extracellular (Potential).				cellular iron ion homeostasis|endocytosis|iron ion transmembrane transport|protein homotrimerization	integral to plasma membrane	ferritin receptor activity|scavenger receptor activity			central_nervous_system(1)|skin(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)|Colorectal(74;0.228)		CGAGCATGCGGCACACCACGT	0.647													25	111					0	0	1	0	0		A	27737144	A	A	27737144	2	1	27	1	0	0	0	0	0	0	0	1	13905	1195	42	2		2	SCARA5	8	27737144	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	56442	27737144	118626878	3946	26297											
SCARA5	286133	broad.mit.edu	37	chr8	27764677	27764677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttattacctttgaacccacGcatgcccattggtcctgtgg	7	13	9	12	1	0	1	0	1	0	0	1	1	1	1	4	2	3	2	4	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:27764677G>A	uc003xgj.2	-	6	1524	c.1084C>T	c.(1084-1086)CGT>TGT	p.R362C	SCARA5_uc010luz.2_Missense_Mutation_p.R137C|SCARA5_uc003xgk.2_Missense_Mutation_p.R319C|SCARA5_uc003xgl.2_Missense_Mutation_p.R362C	NM_173833	NP_776194	Q6ZMJ2	SCAR5_HUMAN	scavenger receptor class A, member 5	362	Collagen-like.|Extracellular (Potential).				cellular iron ion homeostasis|endocytosis|iron ion transmembrane transport|protein homotrimerization	integral to plasma membrane	ferritin receptor activity|scavenger receptor activity			central_nervous_system(1)|skin(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)|Colorectal(74;0.228)		TTGAACCCACGCATGCCCATT	0.483													27	144					0	0	1	0	0		A	27764677	A	A	27764677	3	1	27	1	0	0	0	0	1	0	0	0	13905	1087	38	1	419	1	SCARA5	8	27764677	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27533	27764677	118599345	3947	26298											
ELP3	55140	broad.mit.edu	37	chr8	28017959	28017959	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagcagccgggatcctactAaatttcagcatcaggtatcc	11	10	9	11	1	2	1	2	1	0	0	4	2	4	2	3	2	4	3	3	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:28017959A>G	uc003xgo.3	+	13	1619	c.1471A>G	c.(1471-1473)AAA>GAA	p.K491E	ELP3_uc003xgn.3_Missense_Mutation_p.K476E|ELP3_uc011laq.1_Missense_Mutation_p.K419E|ELP3_uc011lar.1_Missense_Mutation_p.K399E|ELP3_uc011las.1_Missense_Mutation_p.K372E|ELP3_uc011lat.1_Missense_Mutation_p.K372E	NM_018091	NP_060561	Q9H9T3	ELP3_HUMAN	elongation protein 3 homolog	491	N-acetyltransferase.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	histone acetyltransferase activity|iron-sulfur cluster binding|metal ion binding|phosphorylase kinase regulator activity|protein binding				0		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.151)|Colorectal(74;0.183)		GGATCCTACTAAATTTCAGCA	0.368													3	47					0	0	1	0	0		G	28017959	G	G	28017959	3	3	27	1	0	0	0	0	1	0	0	0	5089	363	13	3	1521	3	ELP3	8	28017959	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	253282	28017959	118346063	3948	26299											
ELP3	55140	broad.mit.edu	37	chr8	28019591	28019591	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgggaaaatcgctgtgatAtcaggtaactgggggagggc	10	9	16	6	1	2	1	1	1	1	0	3	3	2	3	0	5	1	2	0	5	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:28019591A>G	uc003xgo.3	+	14	1711	c.1563A>G	c.(1561-1563)ATA>ATG	p.I521M	ELP3_uc003xgn.3_Missense_Mutation_p.I506M|ELP3_uc011laq.1_Missense_Mutation_p.I449M|ELP3_uc011lar.1_Missense_Mutation_p.I429M|ELP3_uc011las.1_Missense_Mutation_p.I402M|ELP3_uc011lat.1_Missense_Mutation_p.I402M	NM_018091	NP_060561	Q9H9T3	ELP3_HUMAN	elongation protein 3 homolog	521	N-acetyltransferase.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	histone acetyltransferase activity|iron-sulfur cluster binding|metal ion binding|phosphorylase kinase regulator activity|protein binding				0		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.151)|Colorectal(74;0.183)		TCGCTGTGATATCAGGTAACT	0.493													9	123					0	0	1	0	0		G	28019591	G	G	28019591	3	3	27	1	0	0	0	0	1	0	0	0	5089	439	16	3	1617	3	ELP3	8	28019591	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1632	28019591	118344431	3949	26300											
ZNF395	55893	broad.mit.edu	37	chr8	28210108	28210108	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccagatggagggctttgAcgtgtcgtttgatgcccaca	8	10	12	11	2	0	3	0	2	0	1	1	4	0	4	3	2	1	2	3	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:28210108A>T	uc003xgq.2	-	6	990	c.902T>A	c.(901-903)GTC>GAC	p.V301D	ZNF395_uc003xgt.2_Missense_Mutation_p.V301D|ZNF395_uc003xgr.2_Missense_Mutation_p.V301D|ZNF395_uc003xgs.2_Missense_Mutation_p.V301D	NM_018660	NP_061130	Q9H8N7	ZN395_HUMAN	zinc finger protein 395	301	C2H2-type.				transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.102)|Kidney(114;0.123)|Colorectal(74;0.142)		GAGGGCTTTGACGTGTCGTTT	0.582													8	113					0	0	1	0	0		T	28210108	T	T	28210108	3	4	27	1	0	0	0	0	1	0	0	0	17906	275	10	5	659	5	ZNF395	8	28210108	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	190517	28210108	118153914	3950	26301											
ZNF395	55893	broad.mit.edu	37	chr8	28210168	28210168	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagtttggccacaggcacTtgtacatcaccttcacagag	11	9	8	13	0	2	1	2	0	0	1	2	1	2	1	2	2	1	3	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:28210168T>C	uc003xgq.2	-	6	930	c.842A>G	c.(841-843)AAG>AGG	p.K281R	ZNF395_uc003xgt.2_Missense_Mutation_p.K281R|ZNF395_uc003xgr.2_Missense_Mutation_p.K281R|ZNF395_uc003xgs.2_Missense_Mutation_p.K281R	NM_018660	NP_061130	Q9H8N7	ZN395_HUMAN	zinc finger protein 395	281	C2H2-type.				transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.102)|Kidney(114;0.123)|Colorectal(74;0.142)		CCACAGGCACTTGTACATCAC	0.532													7	136					0	0	1	0	0		C	28210168	C	C	28210168	3	2	27	1	0	0	0	0	1	0	0	0	17906	1609	56	3	719	3	ZNF395	8	28210168	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	60	28210168	118153854	3951	26302											
INTS9	55756	broad.mit.edu	37	chr8	28625833	28625833	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaccttaatatcactgaAgccatgctgctccagaagaa	13	9	6	13	0	1	3	1	1	0	2	3	3	3	3	4	0	3	2	4	0	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:28625833A>G	uc003xha.2	-	17	2106	c.1807T>C	c.(1807-1809)TTC>CTC	p.F603L	INTS9_uc011lav.1_Missense_Mutation_p.F579L|INTS9_uc011law.1_Missense_Mutation_p.F582L|INTS9_uc011lax.1_Missense_Mutation_p.F496L|INTS9_uc010lvc.2_RNA	NM_018250	NP_060720	Q9NV88	INT9_HUMAN	integrator complex subunit 9 isoform 1	603					snRNA processing	integrator complex	protein binding			central_nervous_system(1)|pancreas(1)	2		Ovarian(32;0.0439)		KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.152)		ATATCACTGAAGCCATGCTGC	0.493													10	240					0	0	1	0	0		G	28625833	G	G	28625833	3	3	27	1	0	0	0	0	1	0	0	0	7801	72	3	3	173	3	INTS9	8	28625833	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	415665	28625833	117738189	3952	26303											
KIF13B	23303	broad.mit.edu	37	chr8	29025093	29025093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggtcttgctgttaccccCgaggctgtcctacaggagaa	7	9	13	12	2	1	1	0	0	1	1	2	3	2	1	3	4	3	3	3	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:29025093C>T	uc003xhh.3	-	11	1014	c.955G>A	c.(955-957)GGG>AGG	p.G319R	KIF13B_uc003xhj.2_Missense_Mutation_p.G216R|KIF13B_uc010lvf.1_Missense_Mutation_p.G255R	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	319					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		CTGTTACCCCCGAGGCTGTCC	0.393													25	169					0	0	1	0	0		T	29025093	T	T	29025093	3	4	27	1	0	0	0	0	1	0	0	0	8291	652	23	1	4645	1	KIF13B	8	29025093	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	399260	29025093	117338929	3953	26304											
RBPMS	11030	broad.mit.edu	37	chr8	30416475	30416475	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttctgctgaatactatgTaagtactcgctttcctttgg	8	16	8	9	1	1	1	0	1	1	0	3	1	2	1	1	1	3	5	1	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:30416475T>C	uc003xic.1	+	7	1263	c.598_splice	c.e7+2		RBPMS_uc003xid.1_Splice_Site|RBPMS_uc003xie.1_Splice_Site|RBPMS_uc003xif.1_Splice_Site	NM_006867	NP_006858	Q93062	RBPMS_HUMAN	RNA-binding protein with multiple splicing						positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|nucleus	nucleotide binding|poly(A) RNA binding|protein binding|transcription coactivator activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.144)|Kidney(114;0.172)		GAATACTATGTAAGTACTCGC	0.547													6	88					0	0	1	0	0		C	30416475	C	C	30416475	5	2	27	1	0	0	0	0	0	0	1	0	13188	1652	57	3		3	RBPMS	8	30416475	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1391382	30416475	115947547	3954	26305											
GTF2E2	2961	broad.mit.edu	37	chr8	30510971	30510971	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattttgtttagagcctgAcgatcctccatgttctacct	9	15	7	10	1	1	3	0	1	1	2	3	4	3	3	4	0	2	2	4	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:30510971A>G	uc003xig.2	-	2	398	c.145T>C	c.(145-147)TCA>CCA	p.S49P		NM_002095	NP_002086	P29084	T2EB_HUMAN	general transcription factor IIE, polypeptide 2,	49					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	transcription factor TFIIE complex	DNA binding|protein binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.113)|Kidney(114;0.135)		TTAGAGCCTGACGATCCTCCA	0.363													29	219					0	0	1	0	0		G	30510971	G	G	30510971	3	3	27	1	0	0	0	0	1	0	0	0	6873	275	10	3	758	3	GTF2E2	8	30510971	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	94496	30510971	115853051	3955	26306											
GSR	2936	broad.mit.edu	37	chr8	30539451	30539451	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttaaatacctaccttcCgtgagtcccactgtcccaat	9	14	5	13	1	0	1	0	1	0	0	3	1	3	1	5	0	2	1	5	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:30539451C>T	uc003xih.1	-	11	1372	c.1281G>A	c.(1279-1281)ACG>ACA	p.T427T		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	427					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)	ACCTACCTTCCGTGAGTCCCA	0.433													4	98					0	0	1	0	0		T	30539451	T	T	30539451	2	4	27	1	0	0	0	0	0	0	0	1	6844	639	23	1		1	GSR	8	30539451	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	28480	30539451	115824571	3956	26307											
TEX15	56154	broad.mit.edu	37	chr8	30695219	30695219	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatttttaagaaatttctGcaaaagcgtcccatggtctg	12	13	9	7	1	2	1	0	0	2	1	3	2	3	2	1	2	2	1	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:30695219G>A	uc003xil.2	-	3	7432	c.7432C>T	c.(7432-7434)CAG>TAG	p.Q2478*		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2478										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		AGAAATTTCTGCAAAAGCGTC	0.408													35	171					0	0	1	0	0		A	30695219	A	A	30695219	4	1	27	1	0	0	0	0	0	1	0	0	15804	1328	46	2	945	2	TEX15	8	30695219	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	155768	30695219	115668803	3957	26308											
TEX15	56154	broad.mit.edu	37	chr8	30701846	30701846	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaattcctggtttggaaataTaggctatttctgaatgtaat	12	16	9	4	0	1	1	0	1	1	0	2	3	2	2	1	3	0	3	1	3	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:30701846T>C	uc003xil.2	-	1	4688	c.4688A>G	c.(4687-4689)TAT>TGT	p.Y1563C		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1563										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TTTGGAAATATAGGCTATTTC	0.393													10	201					0	0	1	0	0		C	30701846	C	C	30701846	3	2	27	1	0	0	0	0	1	0	0	0	15804	1406	49	3	3697	3	TEX15	8	30701846	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6627	30701846	115662176	3958	26309											
TEX15	56154	broad.mit.edu	37	chr8	30702154	30702154	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgtttaactttccacgtTattctgtcctcagtgtcttt	5	20	6	10	1	3	0	1	0	2	0	5	0	5	0	2	0	1	3	2	0	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:30702154T>C	uc003xil.2	-	1	4380	c.4380A>G	c.(4378-4380)ATA>ATG	p.I1460M		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1460										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		CTTTCCACGTTATTCTGTCCT	0.338													6	114					0	0	1	0	0		C	30702154	C	C	30702154	3	2	27	1	0	0	0	0	1	0	0	0	15804	1744	61	3	4005	3	TEX15	8	30702154	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	308	30702154	115661868	3959	26310											
TEX15	56154	broad.mit.edu	37	chr8	30703082	30703082	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattgcttacactgctattaTaataaactgactgacttgta	13	15	6	7	0	0	2	0	2	0	0	0	3	0	2	0	0	4	3	0	0	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:30703082T>C	uc003xil.2	-	1	3452	c.3452A>G	c.(3451-3453)TAT>TGT	p.Y1151C		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1151	Ser-rich.									ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		ACTGCTATTATAATAAACTGA	0.408													7	140					0	0	1	0	0		C	30703082	C	C	30703082	3	2	27	1	0	0	0	0	1	0	0	0	15804	1406	49	3	4933	3	TEX15	8	30703082	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	928	30703082	115660940	3960	26311											
TEX15	56154	broad.mit.edu	37	chr8	30704392	30704392	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcccaactgatacgagaCttcagagccttatatgaggt	11	11	8	11	1	1	4	1	2	0	2	2	5	2	4	3	1	3	0	3	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:30704392C>A	uc003xil.2	-	1	2142	c.2142G>T	c.(2140-2142)AAG>AAT	p.K714N		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	714										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TGATACGAGACTTCAGAGCCT	0.383													9	141					0.000274275	0.000288501	1	1	0		A	30704392	A	A	30704392	3	1	27	1	0	0	0	0	1	0	0	0	15804	564	20	5	6243	5	TEX15	8	30704392	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1310	30704392	115659630	3961	26312											
TEX15	56154	broad.mit.edu	37	chr8	30704541	30704541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctctgaagaactaagttctCatttattgattgatgaaatg	13	15	8	5	0	2	5	1	4	2	1	3	5	2	5	0	0	1	2	0	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:30704541C>T	uc003xil.2	-	1	1993	c.1993G>A	c.(1993-1995)GAG>AAG	p.E665K		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	665										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		ACTAAGTTCTCATTTATTGAT	0.289													6	96					0	0	1	0	0		T	30704541	T	T	30704541	3	4	27	1	0	0	0	0	1	0	0	0	15804	835	29	4	6392	4	TEX15	8	30704541	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	149	30704541	115659481	3962	26313											
TEX15	56154	broad.mit.edu	37	chr8	30704620	30704620	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagaaaccctatgttttacTaacaaaccaaaatctggact	16	11	4	10	0	2	1	1	0	1	1	2	2	2	2	2	1	4	1	2	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:30704620T>C	uc003xil.2	-	1	1914	c.1914A>G	c.(1912-1914)TTA>TTG	p.L638L		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	638										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TATGTTTTACTAACAAACCAA	0.323													14	83					0	0	1	0	0		C	30704620	C	C	30704620	2	2	27	1	0	0	0	0	0	0	0	1	15804	1519	53	3		3	TEX15	8	30704620	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	79	30704620	115659402	3963	26314											
PURG	29942	broad.mit.edu	37	chr8	30889514	30889514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaaagaagtcccctctGggagttcaagcgggtcatcg	9	9	12	11	2	4	2	2	1	2	1	6	3	5	3	2	2	1	1	2	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:30889514G>A	uc003xin.2	-	1	804	c.785C>T	c.(784-786)CCA>CTA	p.P262L	WRN_uc003xio.3_5'Flank|PURG_uc003xim.1_Missense_Mutation_p.P262L	NM_013357	NP_037489	Q9UJV8	PURG_HUMAN	purine-rich element binding protein G isoform A	262	By similarity.					nucleus	DNA binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.0895)|Kidney(114;0.108)		AGTCCCCTCTGGGAGTTCAAG	0.448													8	126					0	0	1	0	0		A	30889514	A	A	30889514	3	1	27	1	0	0	0	0	1	0	0	0	12854	1348	47	4	371	4	PURG	8	30889514	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	184894	30889514	115474508	3964	26315											
WRN	7486	broad.mit.edu	37	chr8	30933738	30933738	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacagttgacttcaatctcTgaggaagtgatggatctggc	12	11	11	7	0	3	3	1	3	2	0	4	5	3	5	0	3	1	1	0	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:30933738T>C	uc003xio.3	+	8	1562	c.774T>C	c.(772-774)TCT>TCC	p.S258S		NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	258	Interaction with WRNIP1 (By similarity).				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		CTTCAATCTCTGAGGAAGTGA	0.343			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				10	149					0	0	1	0	0		C	30933738	C	C	30933738	2	2	27	1	0	0	0	0	0	0	0	1	17428	1567	55	3		3	WRN	8	30933738	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	44224	30933738	115430284	3965	26316											
WRN	7486	broad.mit.edu	37	chr8	31007893	31007893	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtaaaaaggattgatggTgtttctgaaggcaaagctgc	14	10	12	5	1	1	2	0	2	1	0	1	3	1	3	0	3	3	4	0	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:31007893T>G	uc003xio.3	+	31	4397	c.3609T>G	c.(3607-3609)GGT>GGG	p.G1203G	WRN_uc010lvk.2_Silent_p.G670G	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	1203	HRDC.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		GGATTGATGGTGTTTCTGAAG	0.368			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				10	93					0	0	1	0	0		G	31007893	G	G	31007893	2	3	27	1	0	0	0	0	0	0	0	1	17428	1683	59	5		5	WRN	8	31007893	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	74155	31007893	115356129	3966	26317											
NRG1	3084	broad.mit.edu	37	chr8	32621679	32621679	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacattgctaacagattggAagtggacagcaacacaagct	15	7	9	10	0	0	1	0	0	0	1	0	3	0	3	1	2	5	3	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:32621679A>C	uc003xiv.2	+	12	2199	c.1682A>C	c.(1681-1683)GAA>GCA	p.E561A	NRG1_uc010lvo.2_3'UTR|NRG1_uc003xiu.2_Missense_Mutation_p.E566A|NRG1_uc003xiw.2_Missense_Mutation_p.E558A|NRG1_uc003xit.2_3'UTR|NRG1_uc010lvr.2_Missense_Mutation_p.E303A|NRG1_uc010lvs.2_Missense_Mutation_p.E303A|NRG1_uc010lvp.2_Missense_Mutation_p.E515A|NRG1_uc010lvq.2_Missense_Mutation_p.E498A|NRG1_uc011lbg.1_3'UTR|NRG1_uc011lbh.1_Missense_Mutation_p.E404A|NRG1_uc003xja.2_Missense_Mutation_p.E372A	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	561	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		AACAGATTGGAAGTGGACAGC	0.512													12	59					0	0	1	0	0		C	32621679	C	C	32621679	3	2	27	1	0	0	0	0	1	0	0	0	10666	246	9	5	3453	5	NRG1	8	32621679	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1613786	32621679	113742343	3967	26318											
FUT10	84750	broad.mit.edu	37	chr8	33246774	33246774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtgatgctgggggatcCgtaatatacagggactaccc	9	10	13	9	1	1	1	0	1	1	0	2	3	2	3	2	3	3	2	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:33246774C>T	uc003xje.2	-	4	1275	c.919G>A	c.(919-921)GGA>AGA	p.G307R	FUT10_uc003xjc.2_Missense_Mutation_p.G314R|FUT10_uc003xjd.2_Missense_Mutation_p.G279R|FUT10_uc011lbi.1_Missense_Mutation_p.G357R|FUT10_uc003xjf.2_Missense_Mutation_p.G245R|FUT10_uc003xjg.2_Missense_Mutation_p.G279R|FUT10_uc003xjh.2_Missense_Mutation_p.G307R	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	307	Lumenal (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		CTGGGGGATCCGTAATATACA	0.443													3	54					0	0	1	0	0		T	33246774	T	T	33246774	3	4	27	1	0	0	0	0	1	0	0	0	6116	661	23	1	528	1	FUT10	8	33246774	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	625095	33246774	113117248	3968	26319											
FUT10	84750	broad.mit.edu	37	chr8	33246847	33246847	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtagtcatcacaaactgcAttctcaaaagctaggataaa	17	10	6	8	0	3	0	3	0	1	0	4	1	3	1	0	1	3	3	0	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:33246847A>G	uc003xje.2	-	4	1202	c.846T>C	c.(844-846)AAT>AAC	p.N282N	FUT10_uc003xjc.2_Silent_p.N289N|FUT10_uc003xjd.2_Silent_p.N254N|FUT10_uc011lbi.1_Silent_p.N332N|FUT10_uc003xjf.2_Silent_p.N220N|FUT10_uc003xjg.2_Silent_p.N254N|FUT10_uc003xjh.2_Silent_p.N282N	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	282	Lumenal (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		CACAAACTGCATTCTCAAAAG	0.463													6	85					0	0	1	0	0		G	33246847	G	G	33246847	2	3	27	1	0	0	0	0	0	0	0	1	6116	214	8	3		3	FUT10	8	33246847	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	73	33246847	113117175	3969	26320											
C8orf41	80185	broad.mit.edu	37	chr8	33369888	33369888	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttttgctacctgccccaGtgtctccggcattccgcgga	4	11	11	15	3	1	0	0	0	1	0	3	1	2	1	5	3	3	3	5	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:33369888G>T	uc003xjl.3	-	1	769	c.244C>A	c.(244-246)CTG>ATG	p.L82M	C8orf41_uc003xjk.3_Missense_Mutation_p.L82M|C8orf41_uc010lvv.2_Missense_Mutation_p.L82M|C8orf41_uc003xjm.3_Missense_Mutation_p.L82M|C8orf41_uc003xjn.1_Missense_Mutation_p.L82M	NM_025115	NP_079391	Q6NXR4	CH041_HUMAN	hypothetical protein LOC80185	82							binding				0				KIRC - Kidney renal clear cell carcinoma(67;0.0923)|Kidney(114;0.111)		ACCTGCCCCAGTGTCTCCGGC	0.557													8	122					0.0581538	0.0588749	1	1	0		T	33369888	T	T	33369888	3	4	27	1	0	0	0	0	1	0	0	0	2430	1020	36	5	1310	5	C8orf41	8	33369888	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	123041	33369888	112994134	3970	26321											
KCNU1	157855	broad.mit.edu	37	chr8	36644837	36644837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgtaggaactgttcacatCaggtaccatcgctaggagcc	11	10	10	10	1	2	0	2	0	0	0	3	2	2	2	2	3	3	4	2	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:36644837C>T	uc010lvw.2	+	2	296	c.209C>T	c.(208-210)TCA>TTA	p.S70L	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	70	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		CTGTTCACATCAGGTACCATC	0.438													5	27					0	0	1	0	0		T	36644837	T	T	36644837	3	4	27	1	0	0	0	0	1	0	0	0	8109	838	29	4	215	4	KCNU1	8	36644837	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3274949	36644837	109719185	3971	26322											
ZNF703	80139	broad.mit.edu	37	chr8	37556065	37556065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagccggtaccacccctatgGcaagagccacttatccacag	12	6	8	15	1	0	1	0	0	0	1	1	1	1	1	6	2	3	2	6	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:37556065G>A	uc003xjy.1	+	2	1843	c.1646G>A	c.(1645-1647)GGC>GAC	p.G549D		NM_025069	NP_079345	Q9H7S9	ZN703_HUMAN	zinc finger protein 703	549					adherens junction assembly|mammary gland epithelial cell differentiation|negative regulation of homotypic cell-cell adhesion|negative regulation of transcription, DNA-dependent|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of mammary gland epithelial cell proliferation|regulation of canonical Wnt receptor signaling pathway|regulation of cell cycle|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			breast(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(5;7.93e-25)|LUSC - Lung squamous cell carcinoma(8;1.05e-09)			CACCCCTATGGCAAGAGCCAC	0.517													3	40					0	0	1	0	0		A	37556065	A	A	37556065	3	1	27	1	0	0	0	0	1	0	0	0	18131	1203	42	2	1652	2	ZNF703	8	37556065	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	911228	37556065	108807957	3972	26323											
BRF2	55290	broad.mit.edu	37	chr8	37704490	37704490	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatctgcatacaacagcgTgcagatggcccccattgtta	12	9	8	12	1	1	1	0	0	1	1	1	1	1	1	2	1	5	3	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:37704490T>G	uc003xkk.2	-	3	528	c.418A>C	c.(418-420)ACG>CCG	p.T140P		NM_018310	NP_060780	Q9HAW0	BRF2_HUMAN	RNA polymerase III transcription initiation	140	1.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter|transcription initiation, DNA-dependent	nucleoplasm	protein binding|zinc ion binding				0		Lung NSC(58;0.118)|all_lung(54;0.195)	BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;1.81e-10)			TACAACAGCGTGCAGATGGCC	0.532													34	371					0	0	1	0	0		G	37704490	G	G	37704490	3	3	27	1	0	0	0	0	1	0	0	0	1514	1696	59	5	849	5	BRF2	8	37704490	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	148425	37704490	108659532	3973	26324											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37729405	37729405	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtcatcttcaacctgatctAttctttcatcatccgatgcg	8	15	5	13	3	7	1	4	1	3	0	8	2	8	1	2	0	2	0	2	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:37729405A>T	uc003xkm.1	-	4	2959	c.2915T>A	c.(2914-2916)ATA>AAA	p.I972K	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Missense_Mutation_p.I301K|RAB11FIP1_uc003xko.1_Missense_Mutation_p.I301K|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	972					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			AACCTGATCTATTCTTTCATC	0.453													10	195					0	0	1	0	0		T	37729405	T	T	37729405	3	4	27	1	0	0	0	0	1	0	0	0	12918	449	16	5	948	5	RAB11FIP1	8	37729405	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	24915	37729405	108634617	3974	26325											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37734665	37734665	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcatcctcattgtcatctTcatcccactgggactgaaag	10	12	6	13	0	5	1	4	1	1	0	7	2	7	2	2	1	0	0	2	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:37734665T>A	uc003xkm.1	-	2	820	c.776A>T	c.(775-777)GAA>GTA	p.E259V	RAB11FIP1_uc010lvz.1_Missense_Mutation_p.E107V|RAB11FIP1_uc003xkn.1_Missense_Mutation_p.E259V|RAB11FIP1_uc003xkp.1_Missense_Mutation_p.E107V	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	259					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			ATTGTCATCTTCATCCCACTG	0.522													7	111					0	0	1	0	0		A	37734665	A	A	37734665	3	1	27	1	0	0	0	0	1	0	0	0	12918	1783	62	5	3095	5	RAB11FIP1	8	37734665	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5260	37734665	108629357	3975	26326											
ASH2L	9070	broad.mit.edu	37	chr8	37964605	37964605	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggatgaagagaatggcCgacagttgggtgaggtagag	11	7	18	5	2	0	4	0	2	0	2	0	7	0	5	2	4	0	2	2	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:37964605C>T	uc003xkt.3	+	3	380	c.322C>T	c.(322-324)CGA>TGA	p.R108*	ASH2L_uc011lbk.1_Intron|ASH2L_uc003xku.3_Nonsense_Mutation_p.R14*|ASH2L_uc010lwa.2_Nonsense_Mutation_p.R14*	NM_004674	NP_004665	Q9UBL3	ASH2L_HUMAN	ash2-like isoform a	108					hemopoiesis|histone H3-K4 methylation|positive regulation of cell proliferation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription from RNA polymerase II promoter	Set1C/COMPASS complex	metal ion binding|protein binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2	Colorectal(12;0.000501)	Lung NSC(58;0.0295)|all_lung(54;0.0413)				AGAGAATGGCCGACAGTTGGG	0.483													8	61					0	0	1	0	0		T	37964605	T	T	37964605	4	4	27	1	0	0	0	0	0	1	0	0	1043	644	23	1	332	1	ASH2L	8	37964605	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	229940	37964605	108399417	3976	26327											
ASH2L	9070	broad.mit.edu	37	chr8	37986298	37986298	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccttcaagctcctttaggTtatgataaatttagctattc	12	16	5	8	0	1	1	1	1	0	0	3	1	2	1	2	1	3	3	2	1	8	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:37986298T>C	uc003xkt.3	+	12	1414	c.1356T>C	c.(1354-1356)GGT>GGC	p.G452G	ASH2L_uc011lbk.1_Silent_p.G313G|ASH2L_uc003xku.3_Silent_p.G358G|ASH2L_uc010lwa.2_Silent_p.G358G	NM_004674	NP_004665	Q9UBL3	ASH2L_HUMAN	ash2-like isoform a	452	B30.2/SPRY.				hemopoiesis|histone H3-K4 methylation|positive regulation of cell proliferation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription from RNA polymerase II promoter	Set1C/COMPASS complex	metal ion binding|protein binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2	Colorectal(12;0.000501)	Lung NSC(58;0.0295)|all_lung(54;0.0413)				CTCCTTTAGGTTATGATAAAT	0.418													5	235					0	0	1	0	0		C	37986298	C	C	37986298	2	2	27	1	0	0	0	0	0	0	0	1	1043	1712	60	3		3	ASH2L	8	37986298	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	21693	37986298	108377724	3977	26328											
STAR	6770	broad.mit.edu	37	chr8	38005720	38005720	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctccccgacacttacctGctgactctccttcttccagc	5	13	4	19	1	3	1	0	1	3	0	6	2	4	1	5	0	3	1	5	0	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:38005720G>A	uc003xkv.1	-	3	568	c.304C>T	c.(304-306)CAG>TAG	p.Q102*	STAR_uc010lwc.1_Nonsense_Mutation_p.Q64*	NM_001007243	NP_001007244	P49675	STAR_HUMAN	steroidogenic acute regulatory protein isoform	102	START.				C21-steroid hormone biosynthetic process	mitochondrial intermembrane space	cholesterol transporter activity			ovary(1)	1	Colorectal(12;0.000442)	all_lung(54;0.0151)|Lung NSC(58;0.0295)		READ - Rectum adenocarcinoma(644;0.188)		ACACTTACCTGCTGACTCTCC	0.567													5	50					0	0	1	0	0		A	38005720	A	A	38005720	4	1	27	1	0	0	0	0	0	1	0	0	15279	1328	46	2	573	2	STAR	8	38005720	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19422	38005720	108358302	3978	26329											
LSM1	27257	broad.mit.edu	37	chr8	38027366	38027366	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctctgaccacaaaaatcCctcgaggaatatcaccgtat	13	9	5	14	2	2	1	1	1	1	0	5	3	4	2	4	1	0	1	4	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:38027366C>A	uc003xkw.2	-	3	373	c.185G>T	c.(184-186)GGG>GTG	p.G62V	LSM1_uc003xkx.2_RNA	NM_014462	NP_055277	O15116	LSM1_HUMAN	Lsm1 protein	62					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|mRNA processing|RNA splicing, via transesterification reactions	cytosol|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0	Colorectal(12;0.000442)					CACAAAAATCCCTCGAGGAAT	0.383													5	180					0.184627	0.185716	1	1	0		A	38027366	A	A	38027366	3	1	27	1	0	0	0	0	1	0	0	0	9068	623	22	5	224	5	LSM1	8	38027366	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21646	38027366	108336656	3979	26330											
DDHD2	23259	broad.mit.edu	37	chr8	38103772	38103772	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgcttatattgtttgataTcctaacaaatcagaaagatt	14	16	5	6	1	1	3	1	1	0	2	3	3	2	3	1	0	1	2	1	0	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:38103772T>A	uc003xlb.2	+	9	1456	c.1079T>A	c.(1078-1080)ATC>AAC	p.I360N	DDHD2_uc003xlc.2_Missense_Mutation_p.I360N|DDHD2_uc011lbl.1_Missense_Mutation_p.I172N|DDHD2_uc003xld.2_5'Flank	NM_015214	NP_056029	O94830	DDHD2_HUMAN	DDHD domain containing 2 isoform 1	360					lipid catabolic process	centrosome	hydrolase activity|metal ion binding			large_intestine(1)|ovary(1)	2	Colorectal(12;0.000442)	all_lung(54;0.0657)|Lung NSC(58;0.175)	BRCA - Breast invasive adenocarcinoma(5;3.76e-25)|COAD - Colon adenocarcinoma(9;0.0977)			TTGTTTGATATCCTAACAAAT	0.323													11	176					0	0	1	0	0		A	38103772	A	A	38103772	3	1	27	1	0	0	0	0	1	0	0	0	4330	1435	50	5	1171	5	DDHD2	8	38103772	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	76406	38103772	108260250	3980	26331											
WHSC1L1	54904	broad.mit.edu	37	chr8	38189055	38189055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtttttcatgaacccacGccctctctggctggttgcta	5	13	8	15	2	2	1	1	1	1	0	3	1	2	1	3	2	2	4	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:38189055G>A	uc003xli.2	-	5	1477	c.959C>T	c.(958-960)GCG>GTG	p.A320V	WHSC1L1_uc011lbm.1_Missense_Mutation_p.A320V|WHSC1L1_uc010lwe.2_Missense_Mutation_p.A320V|WHSC1L1_uc003xlj.2_Missense_Mutation_p.A320V	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	320	PWWP 1.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			ATGAACCCACGCCCTCTCTGG	0.403			T	NUP98	AML								19	99					0	0	1	0	0		A	38189055	A	A	38189055	3	1	27	1	0	0	0	0	1	0	0	0	17389	1087	38	1	3521	1	WHSC1L1	8	38189055	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	85283	38189055	108174967	3981	26332											
WHSC1L1	54904	broad.mit.edu	37	chr8	38205606	38205606	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcaaaggcatcctcctgacgGatgttggcggagtcaatgag	10	9	13	9	2	2	2	2	2	0	0	4	4	4	4	2	4	0	2	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:38205606G>A	uc003xli.2	-	2	602	c.84C>T	c.(82-84)ATC>ATT	p.I28I	WHSC1L1_uc011lbm.1_Silent_p.I28I|WHSC1L1_uc010lwe.2_Silent_p.I28I|WHSC1L1_uc003xlj.2_Silent_p.I28I	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	28					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			CCTCCTGACGGATGTTGGCGG	0.468			T	NUP98	AML								9	203					0	0	1	0	0		A	38205606	A	A	38205606	2	1	27	1	0	0	0	0	0	0	0	1	17389	1164	41	4		4	WHSC1L1	8	38205606	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16551	38205606	108158416	3982	26333											
LETM2	137994	broad.mit.edu	37	chr8	38264558	38264558	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaactgaagggaactaaggTtagacagttactttccattt	13	13	8	7	0	1	2	1	1	0	1	2	3	2	3	1	2	3	2	1	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:38264558T>C	uc003xlm.1	+	9	1341	c.1170_splice	c.e9+2	p.K390_splice	LETM2_uc003xll.1_Splice_Site_p.K342_splice|LETM2_uc003xln.1_Splice_Site_p.K234_splice|LETM2_uc003xlo.1_Splice_Site_p.K234_splice	NM_144652	NP_653253	Q2VYF4	LETM2_HUMAN	leucine zipper-EF-hand containing transmembrane							integral to membrane|mitochondrial inner membrane					0	all_cancers(2;6.77e-47)|all_epithelial(2;1.01e-50)|all_lung(3;1.25e-23)|Lung NSC(2;2.76e-23)|Colorectal(12;0.000442)|Esophageal squamous(3;0.00202)	all_lung(54;0.0657)|Hepatocellular(245;0.152)|Lung NSC(58;0.175)	Epithelial(3;1.17e-42)|all cancers(3;5.44e-38)|BRCA - Breast invasive adenocarcinoma(5;5.44e-27)|LUSC - Lung squamous cell carcinoma(2;7.12e-25)|Lung(2;4.49e-22)|COAD - Colon adenocarcinoma(9;0.114)			GGAACTAAGGTTAGACAGTTA	0.353													8	74					0	0	1	0	0		C	38264558	C	C	38264558	5	2	27	1	0	0	0	0	0	0	1	0	8751	1739	60	3	1050	3	LETM2	8	38264558	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	58952	38264558	108099464	3983	26334											
FGFR1	2260	broad.mit.edu	37	chr8	38279324	38279324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagtgtgtaccttccagaaCggtcaaccatgcagagtgat	12	9	10	10	1	1	3	1	1	0	2	2	3	2	3	3	1	4	2	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:38279324C>T	uc003xlp.2	-	8	2014	c.1072G>A	c.(1072-1074)GTT>ATT	p.V358I	FGFR1_uc011lbo.1_Missense_Mutation_p.V356I|FGFR1_uc011lbp.1_Missense_Mutation_p.V269I|FGFR1_uc011lbq.1_Missense_Mutation_p.V267I|FGFR1_uc010lwk.2_Missense_Mutation_p.V350I|FGFR1_uc011lbr.1_RNA|FGFR1_uc011lbs.1_Missense_Mutation_p.V198I|FGFR1_uc011lbt.1_Intron|FGFR1_uc011lbu.1_Missense_Mutation_p.V389I|FGFR1_uc011lbv.1_Missense_Mutation_p.V356I|FGFR1_uc011lbw.1_Missense_Mutation_p.V269I|FGFR1_uc011lbx.1_Missense_Mutation_p.V269I	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	358	Extracellular (Potential).				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	CCTTCCAGAACGGTCAACCAT	0.557		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						18	112					0	0	1	0	0		T	38279324	T	T	38279324	3	4	27	1	0	0	0	0	1	0	0	0	5877	536	19	1	1440	1	FGFR1	8	38279324	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14766	38279324	108084698	3984	26335											
ADAM18	8749	broad.mit.edu	37	chr8	39495122	39495122	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggtcaaatgaaaaccagAtttccaccagtggggatgct	12	10	11	8	0	1	2	1	1	0	1	2	3	2	3	3	3	2	1	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:39495122A>T	uc003xni.2	+	9	727	c.727A>T	c.(727-729)ATT>TTT	p.I243F	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.I219F	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	243	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TGAAAACCAGATTTCCACCAG	0.363													6	81					0	0	1	0	0		T	39495122	T	T	39495122	3	4	27	1	0	0	0	0	1	0	0	0	239	333	12	5	761	5	ADAM18	8	39495122	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1215798	39495122	106868900	3985	26336											
ADAM18	8749	broad.mit.edu	37	chr8	39525578	39525578	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagtgtgattttacagagtActgcaatggaacctctagta	13	12	10	6	0	1	3	0	1	1	2	1	4	1	4	1	1	4	3	1	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:39525578A>T	uc003xni.2	+	14	1388	c.1388A>T	c.(1387-1389)TAC>TTC	p.Y463F	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.Y439F	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	463	Disintegrin.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TTTACAGAGTACTGCAATGGA	0.388													13	168					0	0	1	0	0		T	39525578	T	T	39525578	3	4	27	1	0	0	0	0	1	0	0	0	239	391	14	5	1442	5	ADAM18	8	39525578	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	30456	39525578	106838444	3986	26337											
ADAM2	2515	broad.mit.edu	37	chr8	39644522	39644522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctcctgcatagtttgcatCacacatcttcccttgaaagg	10	12	6	13	0	2	1	1	1	1	0	4	1	4	1	3	1	2	3	3	1	2	4	rs1059133		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:39644522C>T	uc003xnj.2	-	10	937	c.862G>A	c.(862-864)GAT>AAT	p.D288N	ADAM2_uc003xnk.2_Missense_Mutation_p.D269N|ADAM2_uc011lck.1_Missense_Mutation_p.D288N|ADAM2_uc003xnl.2_Intron	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	288	Extracellular (Potential).|Peptidase M12B.			D -> H (in Ref. 1; AAC51110).	cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		TAGTTTGCATCACACATCTTC	0.284													5	82					0	0	1	0	0		T	39644522	T	T	39644522	3	4	27	1	0	0	0	0	1	0	0	0	241	826	29	4	1389	4	ADAM2	8	39644522	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	118944	39644522	106719500	3987	26338											
SFRP1	6422	broad.mit.edu	37	chr8	41122885	41122885	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcagccccattcttcaggTacagcacaagcttcttcagg	10	10	8	13	0	5	0	3	0	2	0	5	0	5	0	2	2	4	3	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:41122885T>C	uc003xnt.2	-	3	1048	c.746A>G	c.(745-747)TAC>TGC	p.Y249C		NM_003012	NP_003003	Q8N474	SFRP1_HUMAN	secreted frizzled-related protein 1 precursor	249	NTR.				brain development|canonical Wnt receptor signaling pathway|cellular response to BMP stimulus|cellular response to estradiol stimulus|cellular response to fibroblast growth factor stimulus|cellular response to heparin|cellular response to hypoxia|cellular response to interleukin-1|cellular response to prostaglandin E stimulus|cellular response to starvation|cellular response to transforming growth factor beta stimulus|cellular response to tumor necrosis factor|cellular response to vitamin D|DNA fragmentation involved in apoptotic nuclear change|dorsal/ventral axis specification|hemopoietic progenitor cell differentiation|hemopoietic stem cell differentiation|menstrual cycle phase|negative regulation of androgen receptor signaling pathway|negative regulation of B cell differentiation|negative regulation of bone remodeling|negative regulation of canonical Wnt receptor signaling pathway involved in controlling type B pancreatic cell proliferation|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cysteine-type endopeptidase activity|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast apoptosis|negative regulation of fibroblast proliferation|negative regulation of insulin secretion|negative regulation of ossification|negative regulation of osteoblast proliferation|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|osteoblast differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell growth|positive regulation of epithelial cell proliferation|positive regulation of fat cell differentiation|positive regulation of fibroblast apoptosis|positive regulation of focal adhesion assembly|positive regulation of non-canonical Wnt receptor signaling pathway|positive regulation of Rac GTPase activity|positive regulation of smoothened signaling pathway|positive regulation of stress fiber assembly|positive regulation of transcription, DNA-dependent|regulation of angiogenesis|regulation of cell cycle process|response to drug|response to organic cyclic compound|vasculature development	cell surface|cytosol|extracellular space|plasma membrane|proteinaceous extracellular matrix	cysteine-type endopeptidase activity|drug binding|frizzled binding|heparin binding|identical protein binding|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1	Breast(1;9.19e-13)|Ovarian(28;0.00769)|Colorectal(14;0.0305)|Lung SC(25;0.211)	all_lung(54;0.0034)|Lung NSC(58;0.0134)|Hepatocellular(245;0.023)|Esophageal squamous(32;0.0559)	BRCA - Breast invasive adenocarcinoma(1;1.11e-10)|LUSC - Lung squamous cell carcinoma(45;0.00894)|COAD - Colon adenocarcinoma(11;0.0174)			ATTCTTCAGGTACAGCACAAG	0.527													8	110					0	0	1	0	0		C	41122885	C	C	41122885	3	2	27	1	0	0	0	0	1	0	0	0	14186	1638	57	3	202	3	SFRP1	8	41122885	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1478363	41122885	105241137	3988	26339											
GOLGA7	51125	broad.mit.edu	37	chr8	41355108	41355108	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagctcggcggccagtcAtatctcgaaggttgtttggc	8	10	14	9	3	2	1	1	0	1	1	4	3	2	1	1	4	1	3	1	4	3	3	rs149099838		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:41355108A>G	uc003xnu.2	+	3	270	c.192A>G	c.(190-192)TCA>TCG	p.S64S	GOLGA7_uc003xnv.2_RNA|GOLGA7_uc003xnw.2_Silent_p.S64S	NM_016099	NP_057183	Q7Z5G4	GOGA7_HUMAN	golgi autoantigen, golgin subfamily a, 7	64						Golgi membrane				breast(1)	1	Ovarian(28;0.014)|Colorectal(14;0.0234)|Lung SC(25;0.211)	all_lung(54;0.000771)|Lung NSC(58;0.0031)|Hepatocellular(245;0.014)|Esophageal squamous(32;0.0559)	Colorectal(10;0.0014)|OV - Ovarian serous cystadenocarcinoma(14;0.00596)|LUSC - Lung squamous cell carcinoma(45;0.0137)|COAD - Colon adenocarcinoma(11;0.0147)			GCGGCCAGTCATATCTCGAAG	0.373													14	280					0	0	1	0	0		G	41355108	G	G	41355108	2	3	27	1	0	0	0	0	0	0	0	1	6576	204	8	3		3	GOLGA7	8	41355108	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	232223	41355108	105008914	3989	26340											
GOLGA7	51125	broad.mit.edu	37	chr8	41363518	41363518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgacagaccctattgagcGaggactgcgagttgtatctt	9	11	11	10	2	1	3	0	2	1	1	1	6	1	4	2	1	2	2	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:41363518G>A	uc003xnu.2	+	4	431	c.353G>A	c.(352-354)CGA>CAA	p.R118Q	GOLGA7_uc003xnv.2_RNA|GOLGA7_uc003xnw.2_Missense_Mutation_p.R118Q	NM_016099	NP_057183	Q7Z5G4	GOGA7_HUMAN	golgi autoantigen, golgin subfamily a, 7	118						Golgi membrane				breast(1)	1	Ovarian(28;0.014)|Colorectal(14;0.0234)|Lung SC(25;0.211)	all_lung(54;0.000771)|Lung NSC(58;0.0031)|Hepatocellular(245;0.014)|Esophageal squamous(32;0.0559)	Colorectal(10;0.0014)|OV - Ovarian serous cystadenocarcinoma(14;0.00596)|LUSC - Lung squamous cell carcinoma(45;0.0137)|COAD - Colon adenocarcinoma(11;0.0147)			CCTATTGAGCGAGGACTGCGA	0.388													14	88					0	0	1	0	0		A	41363518	A	A	41363518	3	1	27	1	0	0	0	0	1	0	0	0	6576	1058	37	1	363	1	GOLGA7	8	41363518	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8410	41363518	105000504	3990	26341											
AGPAT6	137964	broad.mit.edu	37	chr8	41469463	41469463	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatgttcacttaatgtgttAccggatctgcgtgcgagcgc	8	12	11	10	4	2	0	1	0	1	0	2	2	2	1	1	1	4	2	1	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:41469463A>G	uc003xnz.2	+	6	1592	c.653A>G	c.(652-654)TAC>TGC	p.Y218C		NM_178819	NP_848934	Q86UL3	GPAT4_HUMAN	lysophosphatidic acid acyltransferase zeta	218					acyl-CoA metabolic process|lactation|phosphatidylcholine biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|membrane fraction	glycerol-3-phosphate O-acyltransferase activity				0	Ovarian(28;0.00769)|Colorectal(14;0.0202)|Lung SC(25;0.211)	all_lung(54;0.0131)|Lung NSC(58;0.0363)|Hepatocellular(245;0.0462)|Esophageal squamous(32;0.0844)	OV - Ovarian serous cystadenocarcinoma(14;0.00126)|Colorectal(10;0.0014)|Lung(22;0.00177)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0147)			TTAATGTGTTACCGGATCTGC	0.453													5	59					0	0	1	0	0		G	41469463	G	G	41469463	3	3	27	1	0	0	0	0	1	0	0	0	391	391	14	3	671	3	AGPAT6	8	41469463	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	105945	41469463	104894559	3991	26342											
ANK1	286	broad.mit.edu	37	chr8	41550216	41550216	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagttctcatgctgctccaGggtcttgtccactttatcat	7	15	8	11	0	3	0	2	0	2	0	6	1	5	0	2	1	2	3	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:41550216G>T	uc003xok.2	-	31	3892	c.3808C>A	c.(3808-3810)CTG>ATG	p.L1270M	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Missense_Mutation_p.L586M|ANK1_uc003xoi.2_Missense_Mutation_p.L1270M|ANK1_uc003xoj.2_Missense_Mutation_p.L1270M|ANK1_uc003xol.2_Missense_Mutation_p.L1270M|ANK1_uc003xom.2_Missense_Mutation_p.L1311M	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1270					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TGCTGCTCCAGGGTCTTGTCC	0.587													8	521					2.17888e-05	2.33116e-05	1	1	0		T	41550216	T	T	41550216	3	4	27	1	0	0	0	0	1	0	0	0	620	991	35	5	2211	5	ANK1	8	41550216	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	80753	41550216	104813806	3992	26343											
ANK1	286	broad.mit.edu	37	chr8	41577192	41577192	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactcaccagggctctggagTtgggtttggcccctttatcc	5	12	11	13	0	2	0	1	0	1	0	3	1	3	1	4	4	0	3	4	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:41577192T>G	uc003xok.2	-	10	1178	c.1094A>C	c.(1093-1095)AAC>ACC	p.N365T	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Missense_Mutation_p.N365T|ANK1_uc003xoj.2_Missense_Mutation_p.N365T|ANK1_uc003xol.2_Missense_Mutation_p.N365T|ANK1_uc003xom.2_Missense_Mutation_p.N398T	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	365	ANK 10.|89 kDa domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			GGCTCTGGAGTTGGGTTTGGC	0.642													13	221					0	0	1	0	0		G	41577192	G	G	41577192	3	3	27	1	0	0	0	0	1	0	0	0	620	1725	60	5	5037	5	ANK1	8	41577192	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	26976	41577192	104786830	3993	26344											
ANK1	286	broad.mit.edu	37	chr8	41581066	41581066	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaccttggtcttggttTctatctgggctccccgatcc	4	13	8	16	1	3	0	0	0	3	0	5	1	5	0	5	3	0	2	5	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:41581066T>C	uc003xok.2	-	8	881	c.797A>G	c.(796-798)GAA>GGA	p.E266G	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Missense_Mutation_p.E266G|ANK1_uc003xoj.2_Missense_Mutation_p.E266G|ANK1_uc003xol.2_Missense_Mutation_p.E266G|ANK1_uc003xom.2_Missense_Mutation_p.E299G	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	266	ANK 7.|89 kDa domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			GGTCTTGGTTTCTATCTGGGC	0.652													5	98					0	0	1	0	0		C	41581066	C	C	41581066	3	2	27	1	0	0	0	0	1	0	0	0	620	1783	62	3	5342	3	ANK1	8	41581066	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3874	41581066	104782956	3994	26345											
ANK1	286	broad.mit.edu	37	chr8	41581127	41581127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgttgcccctgcgggaggCgatgtgcagtggcgtgatgc	5	8	17	11	4	0	1	0	1	0	0	0	3	0	2	2	3	4	2	2	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:41581127C>T	uc003xok.2	-	8	820	c.736G>A	c.(736-738)GCC>ACC	p.A246T	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Missense_Mutation_p.A246T|ANK1_uc003xoj.2_Missense_Mutation_p.A246T|ANK1_uc003xol.2_Missense_Mutation_p.A246T|ANK1_uc003xom.2_Missense_Mutation_p.A279T	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	246	ANK 7.|89 kDa domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			CTGCGGGAGGCGATGTGCAGT	0.632													5	86					0	0	1	0	0		T	41581127	T	T	41581127	3	4	27	1	0	0	0	0	1	0	0	0	620	768	27	1	5403	1	ANK1	8	41581127	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61	41581127	104782895	3995	26346											
AP3M2	10947	broad.mit.edu	37	chr8	42019935	42019935	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcaattattgataaatcAggtaggtgcttttaatatgt	13	16	9	3	0	1	1	1	1	0	0	1	2	1	1	0	2	2	3	0	2	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:42019935A>T	uc003xop.2	+	5	873	c.582A>T	c.(580-582)TCA>TCT	p.S194S	AP3M2_uc003xoo.2_Silent_p.S194S|AP3M2_uc010lxe.2_RNA|AP3M2_uc003xoq.1_Silent_p.S79S|AP3M2_uc003xor.1_Silent_p.S194S	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	194	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			TTGATAAATCAGGTAGGTGCT	0.353													12	388					0	0	1	0	0		T	42019935	T	T	42019935	2	4	27	1	0	0	0	0	0	0	0	1	748	202	7	5		5	AP3M2	8	42019935	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	438808	42019935	104344087	3996	26347											
AP3M2	10947	broad.mit.edu	37	chr8	42023011	42023011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaacgctgggaatctgagCgcatcctctccttcatccct	8	11	7	15	2	4	1	2	1	2	0	7	2	6	2	3	1	2	2	3	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:42023011C>T	uc003xop.2	+	7	1027	c.736C>T	c.(736-738)CGC>TGC	p.R246C	AP3M2_uc003xoo.2_Missense_Mutation_p.R246C|AP3M2_uc010lxe.2_RNA|AP3M2_uc003xoq.1_Missense_Mutation_p.R131C|AP3M2_uc003xor.1_Missense_Mutation_p.R246C	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	246	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			GGAATCTGAGCGCATCCTCTC	0.478													17	243					0	0	1	0	0		T	42023011	T	T	42023011	3	4	27	1	0	0	0	0	1	0	0	0	748	768	27	1	754	1	AP3M2	8	42023011	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3076	42023011	104341011	3997	26348											
AP3M2	10947	broad.mit.edu	37	chr8	42025322	42025322	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagatccagcagctggccAtttctggtaagtgacccaga	11	10	10	10	0	1	3	0	1	1	2	2	3	2	3	3	2	2	3	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:42025322A>G	uc003xop.2	+	9	1441	c.1150A>G	c.(1150-1152)ATT>GTT	p.I384V	AP3M2_uc003xoo.2_Missense_Mutation_p.I384V|AP3M2_uc010lxe.2_RNA	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	384	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			GCAGCTGGCCATTTCTGGTAA	0.512													26	191					0	0	1	0	0		G	42025322	G	G	42025322	3	3	27	1	0	0	0	0	1	0	0	0	748	217	8	3	1176	3	AP3M2	8	42025322	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2311	42025322	104338700	3998	26349											
C8orf40	114926	broad.mit.edu	37	chr8	42401751	42401751	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcatgtatgccaaaaggTaaatttttgtttctcagggt	10	17	8	6	0	3	0	2	0	2	0	4	0	3	0	1	2	1	3	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:42401751T>C	uc011lcv.1	+	2	183	c.134_splice	c.e2+2	p.R45_splice	C8orf40_uc003xph.2_Splice_Site_p.R45_splice|C8orf40_uc003xpg.2_Splice_Site_p.R45_splice|C8orf40_uc010lxo.2_Splice_Site_p.R45_splice	NM_001135676	NP_001129148	Q96E16	CH040_HUMAN	hypothetical protein LOC114926							cytoplasm|integral to membrane|nucleolus					0	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			TGCCAAAAGGTAAATTTTTGT	0.313													6	106					0	0	1	0	0		C	42401751	C	C	42401751	5	2	27	1	0	0	0	0	0	0	1	0	2429	1652	57	3	138	3	C8orf40	8	42401751	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	376429	42401751	103962271	3999	26350											
FNTA	2339	broad.mit.edu	37	chr8	42932477	42932477	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctaacaccactggctacaAtgatcgtgctgtattggaga	11	12	9	9	1	1	2	0	1	1	1	2	3	1	2	1	2	3	3	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:42932477A>G	uc003xps.2	+	6	800	c.752A>G	c.(751-753)AAT>AGT	p.N251S	FNTA_uc003xpt.2_Missense_Mutation_p.N160S|FNTA_uc003xpu.2_Missense_Mutation_p.N184S|FNTA_uc003xpv.2_RNA	NM_002027	NP_002018	P49354	FNTA_HUMAN	farnesyltransferase, CAAX box, alpha isoform a	251					cellular component disassembly involved in apoptosis|positive regulation of deacetylase activity|positive regulation of tubulin deacetylation|protein farnesylation|protein geranylgeranylation|transforming growth factor beta receptor signaling pathway	cytosol|microtubule associated complex	alpha-tubulin binding|CAAX-protein geranylgeranyltransferase activity|microtubule binding|protein farnesyltransferase activity			ovary(1)	1	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			ACTGGCTACAATGATCGTGCT	0.318													6	126					0	0	1	0	0		G	42932477	G	G	42932477	3	3	27	1	0	0	0	0	1	0	0	0	5991	101	4	3	774	3	FNTA	8	42932477	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	530726	42932477	103431545	4000	26351											
SGK196	84197	broad.mit.edu	37	chr8	42977574	42977574	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgggcacacgggtcatgTgcgactccaacgacctgccg	7	7	13	14	4	1	0	1	0	0	0	2	2	2	0	3	2	3	1	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:42977574T>A	uc003xpw.2	+	5	866	c.607T>A	c.(607-609)TGC>AGC	p.C203S		NM_032237	NP_115613	Q9H5K3	SG196_HUMAN	protein kinase-like protein SgK196	203	Protein kinase.					integral to membrane	ATP binding|protein kinase activity				0						ACGGGTCATGTGCGACTCCAA	0.532													3	46					0	0	1	0	0		A	42977574	A	A	42977574	3	1	27	1	0	0	0	0	1	0	0	0	14233	1696	59	5	613	5	SGK196	8	42977574	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	45097	42977574	103386448	4001	26352											
POTEA	340441	broad.mit.edu	37	chr8	43147761	43147761	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcaagaacaacatgggtgCttggagagaccacgacgaca	14	4	13	10	3	0	2	0	0	0	2	0	6	0	3	1	3	3	2	1	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:43147761C>A	uc003xpz.1	+	1	177	c.134C>A	c.(133-135)GCT>GAT	p.A45D	POTEA_uc003xqa.1_Missense_Mutation_p.A45D	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	45										ovary(1)	1						AACATGGGTGCTTGGAGAGAC	0.597													9	116					1.12685e-05	1.21022e-05	1	1	0		A	43147761	A	A	43147761	3	1	27	1	0	0	0	0	1	0	0	0	12280	797	28	5	136	5	POTEA	8	43147761	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	170187	43147761	103216261	4002	26353											
KIAA0146	23514	broad.mit.edu	37	chr8	48309037	48309037	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcccctcacaaataccaCgtgcagtttgcatcggatgc	11	9	8	13	2	1	0	1	0	0	0	3	2	2	1	3	1	4	3	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:48309037C>T	uc003xqd.2	+	6	636	c.627C>T	c.(625-627)CAC>CAT	p.H209H	KIAA0146_uc011lcz.1_Intron|KIAA0146_uc011lda.1_Intron|KIAA0146_uc011ldb.1_Silent_p.H209H|KIAA0146_uc010lxs.2_Translation_Start_Site|KIAA0146_uc011ldc.1_Silent_p.H139H|KIAA0146_uc011ldd.1_Silent_p.H149H|KIAA0146_uc003xqe.2_Intron|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc011lde.1_Intron	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	209											0		Lung NSC(58;0.175)				ACAAATACCACGTGCAGTTTG	0.383													19	164					0	0	1	0	0		T	48309037	T	T	48309037	2	4	27	1	0	0	0	0	0	0	0	1	8173	535	19	1		1	KIAA0146	8	48309037	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5161276	48309037	98054985	4003	26354											
KIAA0146	23514	broad.mit.edu	37	chr8	48613001	48613001	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtttgattgacaccctgtgGcccccagcgatacctctgaa	9	10	9	13	1	1	3	0	3	1	0	1	4	1	3	4	1	2	1	4	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:48613001G>A	uc003xqd.2	+	12	1731	c.1722G>A	c.(1720-1722)TGG>TGA	p.W574*	KIAA0146_uc011ldb.1_Nonsense_Mutation_p.W574*|KIAA0146_uc010lxs.2_Nonsense_Mutation_p.W49*|KIAA0146_uc011ldc.1_Nonsense_Mutation_p.W504*|KIAA0146_uc011ldd.1_Nonsense_Mutation_p.W514*|KIAA0146_uc003xqe.2_Nonsense_Mutation_p.W49*|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc011lde.1_Nonsense_Mutation_p.W263*|KIAA0146_uc010lxt.2_Nonsense_Mutation_p.W263*|KIAA0146_uc011ldf.1_Nonsense_Mutation_p.W79*|KIAA0146_uc011ldg.1_Nonsense_Mutation_p.W64*|KIAA0146_uc010lxv.1_Nonsense_Mutation_p.W68*	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	574											0		Lung NSC(58;0.175)				ACACCCTGTGGCCCCCAGCGA	0.522													12	169					0	0	1	0	0		A	48613001	A	A	48613001	4	1	27	1	0	0	0	0	0	1	0	0	8173	1212	42	2	1768	2	KIAA0146	8	48613001	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	303964	48613001	97751021	4004	26355											
KIAA0146	23514	broad.mit.edu	37	chr8	48641551	48641551	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacatctcctgttctcaagaGgcacctgcaggtcttcctgg	7	11	9	14	0	3	1	1	0	3	1	6	1	4	1	3	3	1	3	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:48641551G>T	uc003xqd.2	+	18	2501	c.2492G>T	c.(2491-2493)AGG>ATG	p.R831M	KIAA0146_uc011ldc.1_Missense_Mutation_p.R761M|KIAA0146_uc011ldd.1_Missense_Mutation_p.R771M|KIAA0146_uc003xqe.2_Missense_Mutation_p.R306M|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc010lxt.2_Intron|KIAA0146_uc011ldf.1_Missense_Mutation_p.R336M|KIAA0146_uc011ldg.1_Missense_Mutation_p.R321M|KIAA0146_uc003xqg.1_Intron	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	831											0		Lung NSC(58;0.175)				GTTCTCAAGAGGCACCTGCAG	0.597													4	84					1	1	1	1	0		T	48641551	T	T	48641551	3	4	27	1	0	0	0	0	1	0	0	0	8173	1000	35	5	2562	5	KIAA0146	8	48641551	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	28550	48641551	97722471	4005	26356											
KIAA0146	23514	broad.mit.edu	37	chr8	48647993	48647993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgagcttctgagtgcaggagGggcctctgcagaacactagc	9	7	14	11	1	2	2	0	1	2	1	2	4	2	3	1	3	5	3	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:48647993G>A	uc003xqd.2	+	20	2738	c.2729G>A	c.(2728-2730)GGG>GAG	p.G910E	KIAA0146_uc011ldc.1_Missense_Mutation_p.G840E|KIAA0146_uc011ldd.1_Silent_p.R850R|KIAA0146_uc003xqe.2_Missense_Mutation_p.G385E|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc010lxt.2_3'UTR|KIAA0146_uc011ldf.1_Missense_Mutation_p.G415E|KIAA0146_uc011ldg.1_Missense_Mutation_p.G400E|KIAA0146_uc003xqg.1_Intron	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	910											0		Lung NSC(58;0.175)				AGTGCAGGAGGGGCCTCTGCA	0.527													7	106					0	0	1	0	0		A	48647993	A	A	48647993	3	1	27	1	0	0	0	0	1	0	0	0	8173	1232	43	4	2807	4	KIAA0146	8	48647993	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6442	48647993	97716029	4006	26357											
PRKDC	5591	broad.mit.edu	37	chr8	48689516	48689516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttcttgaatccatgaccctCcttttttcagcattttctgt	6	20	4	11	0	3	2	1	2	2	0	5	2	5	2	3	0	1	1	3	0	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:48689516C>T	uc003xqi.2	-	86	12128	c.12071G>A	c.(12070-12072)GGA>GAA	p.G4024E	PRKDC_uc003xqj.2_Missense_Mutation_p.G3993E|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	4024					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CCATGACCCTCCTTTTTTCAG	0.363								NHEJ					15	124					0	0	1	0	0		T	48689516	T	T	48689516	3	4	27	1	0	0	0	0	1	0	0	0	12543	855	30	4	323	4	PRKDC	8	48689516	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	41523	48689516	97674506	4007	26358											
PRKDC	5591	broad.mit.edu	37	chr8	48748958	48748958	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccttatctgccctgccActggccagcgagctgagagg	6	8	13	14	1	1	1	0	1	1	1	1	3	1	1	4	3	4	1	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:48748958A>G	uc003xqi.2	-	59	7949	c.7892T>C	c.(7891-7893)GTG>GCG	p.V2631A	PRKDC_uc003xqj.2_Missense_Mutation_p.V2631A|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2631	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CTGCCCTGCCACTGGCCAGCG	0.602								NHEJ					3	25					0	0	1	0	0		G	48748958	G	G	48748958	3	3	27	1	0	0	0	0	1	0	0	0	12543	159	6	3	4610	3	PRKDC	8	48748958	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	59442	48748958	97615064	4008	26359											
EFCAB1	79645	broad.mit.edu	37	chr8	49643102	49643102	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacctgcaatcttacattTcattttttcttccaaagatc	12	16	2	11	0	3	1	1	0	2	1	5	1	4	1	2	0	3	1	2	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:49643102T>C	uc003xqo.2	-	3	476	c.316A>G	c.(316-318)AAA>GAA	p.K106E	EFCAB1_uc003xqn.3_Intron|EFCAB1_uc011ldj.1_Missense_Mutation_p.K54E|EFCAB1_uc010lxx.2_RNA|EFCAB1_uc011ldk.1_RNA	NM_024593	NP_078869	Q9HAE3	EFCB1_HUMAN	EF-hand calcium binding domain 1 isoform a	106	EF-hand 2.						calcium ion binding				0		all_epithelial(80;0.0134)|Lung NSC(129;0.0207)|all_lung(136;0.0464)				ATCTTACATTTCATTTTTTCT	0.343													9	39					0	0	1	0	0		C	49643102	C	C	49643102	3	2	27	1	0	0	0	0	1	0	0	0	4939	1792	62	3	335	3	EFCAB1	8	49643102	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	894144	49643102	96720920	4009	26360											
SNAI2	6591	broad.mit.edu	37	chr8	49832964	49832964	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttgtggtatgacaggcAtggagtaactctcatagaga	11	11	13	6	0	1	2	1	1	1	1	2	4	1	3	0	4	1	4	0	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:49832964A>G	uc003xqp.2	-	2	280	c.116T>C	c.(115-117)ATG>ACG	p.M39T		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	39					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				TATGACAGGCATGGAGTAACT	0.473													12	226					0	0	1	0	0		G	49832964	G	G	49832964	3	3	27	1	0	0	0	0	1	0	0	0	14852	217	8	3	698	3	SNAI2	8	49832964	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	189862	49832964	96531058	4010	26361											
SNTG1	54212	broad.mit.edu	37	chr8	51415351	51415351	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttcaggttcaggttcttcGgaatgctggagaagaagtga	10	13	13	5	1	3	3	2	1	1	2	4	5	3	4	0	4	1	3	0	4	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:51415351G>T	uc010lxy.1	+	10	748	c.377G>T	c.(376-378)CGG>CTG	p.R126L	SNTG1_uc003xqs.1_Missense_Mutation_p.R126L|SNTG1_uc010lxz.1_Missense_Mutation_p.R126L|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	126	PDZ.				cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				CAGGTTCTTCGGAATGCTGGA	0.333													8	62					2.17888e-05	2.33116e-05	1	1	0		T	51415351	T	T	51415351	3	4	27	1	0	0	0	0	1	0	0	0	14899	1116	39	5	403	5	SNTG1	8	51415351	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1582387	51415351	94948671	4011	26362											
PXDNL	137902	broad.mit.edu	37	chr8	52321321	52321321	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcccggtggtccccggccaGgaaacaggggctctcctgct	5	6	15	15	2	1	0	0	0	1	0	3	1	2	1	5	7	2	2	5	7	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:52321321G>T	uc003xqu.3	-	17	2964	c.2863C>A	c.(2863-2865)CTG>ATG	p.L955M	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	955					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TCCCCGGCCAGGAAACAGGGG	0.652													3	19					1	1	1	1	0		T	52321321	T	T	52321321	3	4	27	1	0	0	0	0	1	0	0	0	12873	991	35	5	1556	5	PXDNL	8	52321321	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	905970	52321321	94042701	4012	26363											
PXDNL	137902	broad.mit.edu	37	chr8	52321557	52321557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catagactgaatccaccgtcGcagagggacggccgctggca	10	5	13	13	4	0	3	0	1	0	2	2	4	1	4	3	3	0	3	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:52321557G>A	uc003xqu.3	-	17	2728	c.2627C>T	c.(2626-2628)GCG>GTG	p.A876V	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	876					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				ATCCACCGTCGCAGAGGGACG	0.657													5	62					0	0	1	0	0		A	52321557	A	A	52321557	3	1	27	1	0	0	0	0	1	0	0	0	12873	1087	38	1	1792	1	PXDNL	8	52321557	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	236	52321557	94042465	4013	26364											
PXDNL	137902	broad.mit.edu	37	chr8	52321906	52321906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcggggcgcgcggatgcCgtcccggtaggctggctgca	3	5	18	15	7	0	0	0	0	0	0	1	1	1	1	3	6	2	4	3	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:52321906C>T	uc003xqu.3	-	17	2379	c.2278G>A	c.(2278-2280)GGC>AGC	p.G760S	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	760					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GCGCGGATGCCGTCCCGGTAG	0.786													3	7					0	0	1	0	0		T	52321906	T	T	52321906	3	4	27	1	0	0	0	0	1	0	0	0	12873	652	23	1	2141	1	PXDNL	8	52321906	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	349	52321906	94042116	4014	26365											
ST18	9705	broad.mit.edu	37	chr8	53077746	53077746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccccttcctgtgcatcccGgcgtgggacacttgagcaca	7	8	11	15	2	0	1	0	1	0	0	2	3	2	2	4	2	2	2	4	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:53077746G>A	uc003xqz.2	-	7	1400	c.1244C>T	c.(1243-1245)CCG>CTG	p.P415L	ST18_uc011ldq.1_Missense_Mutation_p.P62L|ST18_uc011ldr.1_Missense_Mutation_p.P380L|ST18_uc011lds.1_Missense_Mutation_p.P320L|ST18_uc003xra.2_Missense_Mutation_p.P415L|ST18_uc003xrb.2_Missense_Mutation_p.P415L	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	415	C2HC-type 2.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				TGTGCATCCCGGCGTGGGACA	0.403													10	324					0	0	1	0	0		A	53077746	A	A	53077746	3	1	27	1	0	0	0	0	1	0	0	0	15237	1116	39	1	1959	1	ST18	8	53077746	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	755840	53077746	93286276	4015	26366											
ST18	9705	broad.mit.edu	37	chr8	53084434	53084434	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctaggtgctccagcaggaaCctatccagctctttgtaggt	8	11	11	11	0	1	0	0	0	1	0	3	1	3	1	3	3	4	5	3	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:53084434C>A	uc003xqz.2	-	5	1143	c.987G>T	c.(985-987)AGG>AGT	p.R329S	ST18_uc011ldq.1_5'UTR|ST18_uc011ldr.1_Missense_Mutation_p.R294S|ST18_uc011lds.1_Missense_Mutation_p.R234S|ST18_uc003xra.2_Missense_Mutation_p.R329S|ST18_uc003xrb.2_Missense_Mutation_p.R329S	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	329						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				CCAGCAGGAACCTATCCAGCT	0.458													20	139					2.27731e-05	2.4362e-05	1	1	0		A	53084434	A	A	53084434	3	1	27	1	0	0	0	0	1	0	0	0	15237	506	18	5	2224	5	ST18	8	53084434	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6688	53084434	93279588	4016	26367											
ST18	9705	broad.mit.edu	37	chr8	53084924	53084924	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaatgaatcagaaagcacTcgtctgcttcatcgctctct	11	11	7	12	2	4	3	2	1	2	2	7	3	4	3	0	0	2	3	0	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:53084924T>A	uc003xqz.2	-	5	653	c.497A>T	c.(496-498)GAG>GTG	p.E166V	ST18_uc011ldq.1_5'UTR|ST18_uc011ldr.1_Missense_Mutation_p.E131V|ST18_uc011lds.1_Missense_Mutation_p.E71V|ST18_uc003xra.2_Missense_Mutation_p.E166V|ST18_uc003xrb.2_Missense_Mutation_p.E166V	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	166						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				CAGAAAGCACTCGTCTGCTTC	0.393													22	116					0	0	1	0	0		A	53084924	A	A	53084924	3	1	27	1	0	0	0	0	1	0	0	0	15237	1551	54	5	2714	5	ST18	8	53084924	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	490	53084924	93279098	4017	26368											
RB1CC1	9821	broad.mit.edu	37	chr8	53569953	53569953	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtcttccttaatggtttgTatactgaagtgagagtcttg	9	16	11	5	0	2	2	0	2	2	1	3	3	3	2	1	2	1	2	1	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:53569953T>A	uc003xre.3	-	15	2994	c.2436A>T	c.(2434-2436)ATA>ATT	p.I812I	RB1CC1_uc003xrf.3_Silent_p.I812I	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	812					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				TAATGGTTTGTATACTGAAGT	0.353													9	168					0	0	1	0	0		A	53569953	A	A	53569953	2	1	27	1	0	0	0	0	0	0	0	1	13124	1628	57	5		5	RB1CC1	8	53569953	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	485029	53569953	92794069	4018	26369											
NPBWR1	2831	broad.mit.edu	37	chr8	53853261	53853261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgcctcctctgctggaCgccctaccacctgagcaccg	5	8	11	17	2	1	1	0	1	1	0	2	2	2	2	6	2	4	2	6	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:53853261C>T	uc011ldu.1	+	1	794	c.794C>T	c.(793-795)ACG>ATG	p.T265M		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	265	Helical; Name=6; (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				CTCTGCTGGACGCCCTACCAC	0.667													7	40					0	0	1	0	0		T	53853261	T	T	53853261	3	4	27	1	0	0	0	0	1	0	0	0	10587	536	19	1	796	1	NPBWR1	8	53853261	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	283308	53853261	92510761	4019	26370											
OPRK1	4986	broad.mit.edu	37	chr8	54142295	54142295	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgatgaggacagggatcacGaaggcaaagatgaagacgca	17	4	14	6	2	1	5	1	3	0	2	1	8	1	7	0	3	0	2	0	3	3	0	rs112014812	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:54142295G>A	uc003xrh.1	-	3	1080	c.705C>T	c.(703-705)TTC>TTT	p.F235F	OPRK1_uc003xri.1_Silent_p.F235F|OPRK1_uc010lyc.1_Silent_p.F146F	NM_000912	NP_000903	P41145	OPRK_HUMAN	opioid receptor, kappa 1	235	Helical; Name=5; (Potential).				behavior|immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception|synaptic transmission|viral genome replication	integral to plasma membrane	kappa-opioid receptor activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Buprenorphine(DB00921)|Butorphanol(DB00611)|Cocaine(DB00907)|Codeine(DB00318)|Dezocine(DB01209)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Meperidine(DB00454)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Tramadol(DB00193)	CAGGGATCACGAAGGCAAAGA	0.532													13	77					0	0	1	0	0		A	54142295	A	A	54142295	2	1	27	1	0	0	0	0	0	0	0	1	10904	1049	37	1		1	OPRK1	8	54142295	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	289034	54142295	92221727	4020	26371											
OPRK1	4986	broad.mit.edu	37	chr8	54163422	54163422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaccgccgtgatgatgaccGggatggccggggagatgtgc	8	6	18	9	4	0	5	0	3	0	2	0	7	0	6	4	4	1	0	4	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:54163422G>A	uc003xrh.1	-	1	551	c.176C>T	c.(175-177)CCG>CTG	p.P59L	OPRK1_uc003xri.1_Missense_Mutation_p.P59L|OPRK1_uc010lyc.1_5'UTR	NM_000912	NP_000903	P41145	OPRK_HUMAN	opioid receptor, kappa 1	59	Helical; Name=1; (Potential).				behavior|immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception|synaptic transmission|viral genome replication	integral to plasma membrane	kappa-opioid receptor activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Buprenorphine(DB00921)|Butorphanol(DB00611)|Cocaine(DB00907)|Codeine(DB00318)|Dezocine(DB01209)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Meperidine(DB00454)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Tramadol(DB00193)	GATGATGACCGGGATGGCCGG	0.687													3	31					0	0	1	0	0		A	54163422	A	A	54163422	3	1	27	1	0	0	0	0	1	0	0	0	10904	1116	39	1	978	1	OPRK1	8	54163422	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21127	54163422	92200600	4021	26372											
ATP6V1H	51606	broad.mit.edu	37	chr8	54708210	54708210	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacataaaacacttacacgAaatgctgcaagaatgattct	18	9	5	9	1	1	2	0	1	1	1	1	3	1	2	0	0	5	2	0	0	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:54708210A>G	uc003xrl.2	-	9	1019	c.867T>C	c.(865-867)TTT>TTC	p.F289F	ATP6V1H_uc003xrk.2_Silent_p.F249F|ATP6V1H_uc003xrm.2_Silent_p.F289F|ATP6V1H_uc003xrn.2_Silent_p.F271F|ATP6V1H_uc011ldv.1_Silent_p.F209F|ATP6V1H_uc010lyd.2_Silent_p.F225F	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	289					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)			CACTTACACGAAATGCTGCAA	0.383													9	173					0	0	1	0	0		G	54708210	G	G	54708210	2	3	27	1	0	0	0	0	0	0	0	1	1190	243	9	3		3	ATP6V1H	8	54708210	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	544788	54708210	91655812	4022	26373											
ATP6V1H	51606	broad.mit.edu	37	chr8	54708265	54708265	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagactcctgaaggataTcagacagaactggaatgata	16	8	10	7	0	1	6	1	3	0	3	2	8	2	8	1	2	1	0	1	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:54708265T>A	uc003xrl.2	-	9	964	c.812A>T	c.(811-813)GAT>GTT	p.D271V	ATP6V1H_uc003xrk.2_Missense_Mutation_p.D231V|ATP6V1H_uc003xrm.2_Missense_Mutation_p.D271V|ATP6V1H_uc003xrn.2_Missense_Mutation_p.D253V|ATP6V1H_uc011ldv.1_Missense_Mutation_p.D191V|ATP6V1H_uc010lyd.2_Missense_Mutation_p.D207V	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	271					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)			CTGAAGGATATCAGACAGAAC	0.393													14	182					0	0	1	0	0		A	54708265	A	A	54708265	3	1	27	1	0	0	0	0	1	0	0	0	1190	1435	50	5	663	5	ATP6V1H	8	54708265	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	55	54708265	91655757	4023	26374											
ATP6V1H	51606	broad.mit.edu	37	chr8	54708289	54708289	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagaactggaatgatattaTagcgccgcaggtgttcacac	13	9	10	9	2	1	2	1	1	0	1	1	3	1	3	1	2	2	2	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:54708289T>C	uc003xrl.2	-	9	940	c.788A>G	c.(787-789)TAT>TGT	p.Y263C	ATP6V1H_uc003xrk.2_Missense_Mutation_p.Y223C|ATP6V1H_uc003xrm.2_Missense_Mutation_p.Y263C|ATP6V1H_uc003xrn.2_Missense_Mutation_p.Y245C|ATP6V1H_uc011ldv.1_Missense_Mutation_p.Y183C|ATP6V1H_uc010lyd.2_Missense_Mutation_p.Y199C	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	263					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)			AATGATATTATAGCGCCGCAG	0.403													29	159					0	0	1	0	0		C	54708289	C	C	54708289	3	2	27	1	0	0	0	0	1	0	0	0	1190	1406	49	3	687	3	ATP6V1H	8	54708289	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	24	54708289	91655733	4024	26375											
TCEA1	6917	broad.mit.edu	37	chr8	54891698	54891698	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttctttggtcaagttttTccgcatctctttcagctcat	5	18	7	11	1	5	0	3	0	2	0	7	0	6	0	1	2	1	4	1	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:54891698T>C	uc003xru.2	-	8	1035	c.712A>G	c.(712-714)AAA>GAA	p.K238E	TCEA1_uc003xrv.2_Missense_Mutation_p.K217E|TCEA1_uc011ldw.1_Missense_Mutation_p.K54E|TCEA1_uc010lyg.2_RNA	NM_006756	NP_006747	P23193	TCEA1_HUMAN	transcription elongation factor A 1 isoform 1	238	TFIIS central.				positive regulation of viral transcription|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	nucleoplasm	DNA binding|translation elongation factor activity|zinc ion binding				0		Lung NSC(129;0.109)|all_epithelial(80;0.11)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;9.1e-07)|Epithelial(17;9.44e-05)|all cancers(17;0.000699)			GTCAAGTTTTTCCGCATCTCT	0.428			T	PLAG1	salivary adenoma								9	164					0	0	1	0	0		C	54891698	C	C	54891698	3	2	27	1	0	0	0	0	1	0	0	0	15692	1792	62	3	205	3	TCEA1	8	54891698	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	183409	54891698	91472324	4025	26376											
RP1	6101	broad.mit.edu	37	chr8	55534073	55534073	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacccagagcttcgaggcaTttctacagcacctgacagag	11	8	9	13	1	2	3	1	1	1	2	3	4	2	3	2	1	3	3	2	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:55534073T>C	uc003xsd.1	+	2	695	c.547T>C	c.(547-549)TTT>CTT	p.F183L	RP1_uc011ldy.1_Missense_Mutation_p.F183L	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	183	Doublecortin 2.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CTTCGAGGCATTTCTACAGCA	0.637													6	179					0	0	1	0	0		C	55534073	C	C	55534073	3	2	27	1	0	0	0	0	1	0	0	0	13557	1493	52	3	549	3	RP1	8	55534073	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	642375	55534073	90829949	4026	26377											
RP1	6101	broad.mit.edu	37	chr8	55534123	55534123	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccctgtggtcaagctgtaCgctacggacggaaggagggt	8	7	16	10	4	1	0	1	0	0	0	1	3	1	3	1	5	3	3	1	5	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:55534123C>T	uc003xsd.1	+	2	745	c.597C>T	c.(595-597)TAC>TAT	p.Y199Y	RP1_uc011ldy.1_Silent_p.Y199Y	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	199	Doublecortin 2.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TCAAGCTGTACGCTACGGACG	0.577													12	149					0	0	1	0	0		T	55534123	T	T	55534123	2	4	27	1	0	0	0	0	0	0	0	1	13557	547	19	1		1	RP1	8	55534123	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	50	55534123	90829899	4027	26378											
XKR4	114786	broad.mit.edu	37	chr8	56015541	56015541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgcaagtgttcagcttcCgctggtttgtgcacgatttc	5	14	12	10	3	1	0	1	0	0	0	3	1	2	0	1	2	3	6	1	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:56015541C>T	uc003xsf.2	+	1	525	c.493C>T	c.(493-495)CGC>TGC	p.R165C		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	165						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			GTTCAGCTTCCGCTGGTTTGT	0.662													14	56					0	0	1	0	0		T	56015541	T	T	56015541	3	4	27	1	0	0	0	0	1	0	0	0	17459	652	23	1	495	1	XKR4	8	56015541	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	481418	56015541	90348481	4028	26379											
LYN	4067	broad.mit.edu	37	chr8	56863306	56863306	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcaccaggaaatagcgcTggagctttccttattagaga	11	11	11	8	1	0	1	0	0	0	1	1	4	1	3	2	3	2	3	2	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:56863306T>C	uc003xsk.3	+	6	732	c.450T>C	c.(448-450)GCT>GCC	p.A150A	LYN_uc003xsl.3_Silent_p.A129A	NM_002350	NP_002341	P07948	LYN_HUMAN	Yamaguchi sarcoma viral (v-yes-1) oncogene	150	SH2.				erythrocyte differentiation|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of cellular component movement|positive regulation of stress-activated protein kinase signaling cascade|positive regulation of tyrosine phosphorylation of STAT protein|response to DNA damage stimulus|T cell costimulation	cytosol|Golgi apparatus|membrane raft|nucleus|perinuclear region of cytoplasm	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|receptor signaling protein tyrosine kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_lung(136;0.0555)|Lung NSC(129;0.0726)|all_epithelial(80;0.0772)	Epithelial(17;0.000834)|all cancers(17;0.00598)			GAAATAGCGCTGGAGCTTTCC	0.353													23	203					0	0	1	0	0		C	56863306	C	C	56863306	2	2	27	1	0	0	0	0	0	0	0	1	9125	1567	55	3		3	LYN	8	56863306	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	847765	56863306	89500716	4029	26380											
LYN	4067	broad.mit.edu	37	chr8	56910922	56910922	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattgcagagggaatggcAtacatcgagcggaagaacta	15	6	13	7	2	0	3	0	0	0	3	1	6	0	5	0	3	4	2	0	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:56910922A>T	uc003xsk.3	+	11	1350	c.1068A>T	c.(1066-1068)GCA>GCT	p.A356A	LYN_uc003xsl.3_Silent_p.A335A	NM_002350	NP_002341	P07948	LYN_HUMAN	Yamaguchi sarcoma viral (v-yes-1) oncogene	356	Protein kinase.				erythrocyte differentiation|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of cellular component movement|positive regulation of stress-activated protein kinase signaling cascade|positive regulation of tyrosine phosphorylation of STAT protein|response to DNA damage stimulus|T cell costimulation	cytosol|Golgi apparatus|membrane raft|nucleus|perinuclear region of cytoplasm	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|receptor signaling protein tyrosine kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_lung(136;0.0555)|Lung NSC(129;0.0726)|all_epithelial(80;0.0772)	Epithelial(17;0.000834)|all cancers(17;0.00598)			AGGGAATGGCATACATCGAGC	0.458													4	67					0	0	1	0	0		T	56910922	T	T	56910922	2	4	27	1	0	0	0	0	0	0	0	1	9125	204	8	5		5	LYN	8	56910922	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	47616	56910922	89453100	4030	26381											
LYN	4067	broad.mit.edu	37	chr8	56922616	56922616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttgactacttacagagcGtcctggatgatttctacaca	10	13	8	10	2	1	3	0	2	1	1	2	4	2	4	1	1	4	1	1	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:56922616G>A	uc003xsk.3	+	13	1768	c.1486G>A	c.(1486-1488)GTC>ATC	p.V496I	LYN_uc003xsl.3_Missense_Mutation_p.V475I	NM_002350	NP_002341	P07948	LYN_HUMAN	Yamaguchi sarcoma viral (v-yes-1) oncogene	496	Protein kinase.				erythrocyte differentiation|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of cellular component movement|positive regulation of stress-activated protein kinase signaling cascade|positive regulation of tyrosine phosphorylation of STAT protein|response to DNA damage stimulus|T cell costimulation	cytosol|Golgi apparatus|membrane raft|nucleus|perinuclear region of cytoplasm	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|receptor signaling protein tyrosine kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_lung(136;0.0555)|Lung NSC(129;0.0726)|all_epithelial(80;0.0772)	Epithelial(17;0.000834)|all cancers(17;0.00598)			CTTACAGAGCGTCCTGGATGA	0.517													26	114					0	0	1	0	0		A	56922616	A	A	56922616	3	1	27	1	0	0	0	0	1	0	0	0	9125	1145	40	1	1532	1	LYN	8	56922616	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11694	56922616	89441406	4031	26382											
MOS	4342	broad.mit.edu	37	chr8	57025752	57025752	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagagtgatggcaaaggAataaatgtcggctttaggcg	13	8	14	6	2	0	2	0	1	0	1	1	4	0	3	1	4	0	2	1	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:57025752A>G	uc011leb.1	-	1	790	c.790T>C	c.(790-792)TCC>CCC	p.S264P		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	264	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			ATGGCAAAGGAATAAATGTCG	0.602													4	91					0	0	1	0	0		G	57025752	G	G	57025752	3	3	27	1	0	0	0	0	1	0	0	0	9730	246	9	3	253	3	MOS	8	57025752	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	103136	57025752	89338270	4032	26383											
MOS	4342	broad.mit.edu	37	chr8	57026295	57026295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cacttgctttatggccacagGaacaccgcggtaagtcgcct	9	9	10	13	3	0	0	0	0	0	0	1	1	0	1	3	3	2	2	3	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:57026295G>A	uc011leb.1	-	1	247	c.247C>T	c.(247-249)CCT>TCT	p.P83S		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	83	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			ATGGCCACAGGAACACCGCGG	0.582													15	161					0	0	1	0	0		A	57026295	A	A	57026295	3	1	27	1	0	0	0	0	1	0	0	0	9730	1174	41	4	796	4	MOS	8	57026295	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	543	57026295	89337727	4033	26384											
PLAG1	5324	broad.mit.edu	37	chr8	57079567	57079567	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtcaaggaaatccactggTtctgttttgaccttcagaag	10	12	11	8	0	3	2	2	1	1	1	4	3	4	3	2	3	0	2	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:57079567T>G	uc003xsq.3	-	3	1189	c.738A>C	c.(736-738)GAA>GAC	p.E246D	PLAG1_uc003xsr.3_Missense_Mutation_p.E246D|PLAG1_uc010lyi.2_Missense_Mutation_p.E246D|PLAG1_uc010lyj.2_Missense_Mutation_p.E164D	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	246	Activates transcription; Inhibition of nuclear import due to lack of NLS and KPNA2 interaction.|Repression domain; contains 3 sumoylation motifs and massively decrease transcription activity.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			AATCCACTGGTTCTGTTTTGA	0.448			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								19	257					0	0	1	0	0		G	57079567	G	G	57079567	3	3	27	1	0	0	0	0	1	0	0	0	12037	1722	60	5	768	5	PLAG1	8	57079567	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53272	57079567	89284455	4034	26385											
PLAG1	5324	broad.mit.edu	37	chr8	57079616	57079616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgactcttcttcatatgtCgagtcaggtgatcctttcgc	6	16	9	10	2	4	2	2	2	2	0	7	3	5	2	1	1	0	0	1	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:57079616C>T	uc003xsq.3	-	3	1140	c.689G>A	c.(688-690)CGA>CAA	p.R230Q	PLAG1_uc003xsr.3_Missense_Mutation_p.R230Q|PLAG1_uc010lyi.2_Missense_Mutation_p.R230Q|PLAG1_uc010lyj.2_Missense_Mutation_p.R148Q	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	230	Decreased nuclear import with localization in the nucleus but also in the cytoplasm.|C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			CTTCATATGTCGAGTCAGGTG	0.458			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								8	192					0	0	1	0	0		T	57079616	T	T	57079616	3	4	27	1	0	0	0	0	1	0	0	0	12037	884	31	1	817	1	PLAG1	8	57079616	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	49	57079616	89284406	4035	26386											
CHCHD7	79145	broad.mit.edu	37	chr8	57129004	57129004	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtaaggaatctgatgctTccaccagatgtctggatgaa	11	12	10	8	0	3	3	0	2	3	1	4	5	4	5	2	2	1	2	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:57129004T>C	uc003xsx.2	+	3	165	c.67T>C	c.(67-69)TCC>CCC	p.S23P	CHCHD7_uc003xss.2_Silent_p.L49L|CHCHD7_uc003xst.2_Silent_p.L62L|CHCHD7_uc003xsu.2_Missense_Mutation_p.S35P|CHCHD7_uc003xsv.2_Missense_Mutation_p.S48P|CHCHD7_uc003xsw.2_Silent_p.L37L	NM_001011671	NP_001011671	Q9BUK0	CHCH7_HUMAN	coiled-coil-helix-coiled-coil-helix domain	23	CHCH.								CHCHD7/PLAG1(12)	salivary_gland(12)	12		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00159)|all cancers(17;0.0112)			ATCTGATGCTTCCACCAGATG	0.373			T	PLAG1	salivary adenoma								7	78					0	0	1	0	0		C	57129004	C	C	57129004	3	2	27	1	0	0	0	0	1	0	0	0	3324	1783	62	3	196	3	CHCHD7	8	57129004	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	49388	57129004	89235018	4036	26387											
SDR16C5	195814	broad.mit.edu	37	chr8	57218238	57218238	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatagcttctactattttttCaactgcatattttggttcca	10	19	4	8	0	2	0	1	0	1	0	3	0	3	0	1	1	4	3	1	1	6	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:57218238C>G	uc003xsy.1	-	6	1392	c.754G>C	c.(754-756)GAA>CAA	p.E252Q	SDR16C5_uc010lyk.1_Missense_Mutation_p.E252Q|SDR16C5_uc010lyl.1_Missense_Mutation_p.E208Q	NM_138969	NP_620419	Q8N3Y7	RDHE2_HUMAN	epidermal retinal dehydrogenase 2	252					detection of light stimulus involved in visual perception|keratinocyte proliferation|retinal metabolic process|retinol metabolic process	endoplasmic reticulum membrane|integral to membrane|integral to membrane of membrane fraction	binding|retinol dehydrogenase activity			ovary(1)|central_nervous_system(1)|skin(1)	3						ACTATTTTTTCAACTGCATAT	0.303													8	99					0	0	1	0	0		G	57218238	G	G	57218238	3	3	27	1	0	0	0	0	1	0	0	0	13996	835	29	5	183	5	SDR16C5	8	57218238	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	89234	57218238	89145784	4037	26388											
IMPAD1	54928	broad.mit.edu	37	chr8	57890688	57890688	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacacaccatagtagtgacGtactttcgaagatcctctat	13	11	6	11	2	1	2	0	1	1	1	3	3	2	2	2	0	1	2	2	0	5	5	rs144109066	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:57890688G>A	uc003xte.3	-	3	850	c.567C>T	c.(565-567)TAC>TAT	p.Y189Y		NM_017813	NP_060283	Q9NX62	IMPA3_HUMAN	inositol monophosphatase domain containing 1	189						Golgi apparatus|integral to membrane	inositol-1(or 4)-monophosphatase activity|metal ion binding			ovary(1)	1		all_cancers(86;0.175)|all_lung(136;0.0321)|Lung NSC(129;0.0417)|all_epithelial(80;0.0448)				TAGTAGTGACGTACTTTCGAA	0.333													13	233					0	0	1	0	0		A	57890688	A	A	57890688	2	1	27	1	0	0	0	0	0	0	0	1	7741	1140	40	1		1	IMPAD1	8	57890688	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	672450	57890688	88473334	4038	26389											
SDCBP	6386	broad.mit.edu	37	chr8	59493089	59493089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatcaggactctcaaattgCagacatactgtcaacatctg	13	12	6	10	0	4	1	3	0	2	1	5	2	4	2	0	1	3	1	0	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:59493089C>T	uc003xtn.2	+	8	914	c.764C>T	c.(763-765)GCA>GTA	p.A255V	SDCBP_uc003xto.2_Missense_Mutation_p.A254V|SDCBP_uc003xtr.2_Missense_Mutation_p.A254V|SDCBP_uc003xtp.2_Missense_Mutation_p.A249V|SDCBP_uc003xtq.2_Missense_Mutation_p.A255V|SDCBP_uc003xts.2_Missense_Mutation_p.A261V|SDCBP_uc011led.1_Missense_Mutation_p.A196V	NM_005625	NP_005616	O00560	SDCB1_HUMAN	syntenin isoform 1	255	PDZ 2.				actin cytoskeleton organization|axon guidance|positive regulation of phosphorylation|protein targeting to membrane|substrate-dependent cell migration, cell extension|synaptic transmission	cytoskeleton|cytosol|endoplasmic reticulum membrane|focal adhesion|interleukin-5 receptor complex|melanosome|nucleus	cytoskeletal adaptor activity|frizzled binding|interleukin-5 receptor binding|protein heterodimerization activity|protein N-terminus binding|syndecan binding				0		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				TCTCAAATTGCAGACATACTG	0.308													9	72					0	0	1	0	0		T	59493089	T	T	59493089	3	4	27	1	0	0	0	0	1	0	0	0	13980	710	25	2	790	2	SDCBP	8	59493089	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1602401	59493089	86870933	4039	26390											
NSMAF	8439	broad.mit.edu	37	chr8	59506822	59506822	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaatactgaagatccattGcgagagaccgtgattccagt	12	10	11	8	2	0	5	0	3	0	2	2	7	2	5	3	0	2	0	3	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:59506822G>A	uc003xtt.2	-	23	2134	c.1920C>T	c.(1918-1920)CGC>CGT	p.R640R	NSMAF_uc011lee.1_Silent_p.R671R	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	640	WD 1.				ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				AAGATCCATTGCGAGAGACCG	0.403													19	79					0	0	1	0	0		A	59506822	A	A	59506822	2	1	27	1	0	0	0	0	0	0	0	1	10693	1306	46	2		2	NSMAF	8	59506822	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13733	59506822	86857200	4040	26391											
NSMAF	8439	broad.mit.edu	37	chr8	59515915	59515915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgccactgcagcatgtagCtctcagcagtgtgctccgcc	6	9	11	15	1	1	0	1	0	1	0	3	0	2	0	3	0	6	7	3	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:59515915C>T	uc003xtt.2	-	13	1113	c.899G>A	c.(898-900)AGC>AAC	p.S300N	NSMAF_uc011lee.1_Missense_Mutation_p.S331N|NSMAF_uc003xtu.2_Missense_Mutation_p.S300N	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	300	BEACH.				ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				CAGCATGTAGCTCTCAGCAGT	0.557													7	100					0	0	1	0	0		T	59515915	T	T	59515915	3	4	27	1	0	0	0	0	1	0	0	0	10693	797	28	2	1930	2	NSMAF	8	59515915	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9093	59515915	86848107	4041	26392											
CHD7	55636	broad.mit.edu	37	chr8	61743114	61743114	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggaattgcggaagtgctgCaatcatccgtaccttatcaa	12	11	9	9	2	2	0	2	0	0	0	3	2	3	2	2	2	4	3	2	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:61743114C>T	uc003xue.2	+	15	4233	c.3756C>T	c.(3754-3756)TGC>TGT	p.C1252C		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1252					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GGAAGTGCTGCAATCATCCGT	0.473													25	115					0	0	1	0	0		T	61743114	T	T	61743114	2	4	27	1	0	0	0	0	0	0	0	1	3333	718	25	2		2	CHD7	8	61743114	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2227199	61743114	84620908	4042	26393											
CHD7	55636	broad.mit.edu	37	chr8	61764653	61764653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccctgactacacgtctgcGccggctcattactgcctatc	8	10	7	16	3	2	1	1	1	1	0	3	1	2	1	3	1	5	1	3	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:61764653G>A	uc003xue.2	+	29	6218	c.5741G>A	c.(5740-5742)CGC>CAC	p.R1914H		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1914					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			ACACGTCTGCGCCGGCTCATT	0.522													8	48					0	0	1	0	0		A	61764653	A	A	61764653	3	1	27	1	0	0	0	0	1	0	0	0	3333	1087	38	1	5851	1	CHD7	8	61764653	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21539	61764653	84599369	4043	26394											
YTHDF3	253943	broad.mit.edu	37	chr8	64099143	64099143	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtattgagcaaggcatgActggactgaaaattggtggt	12	10	14	5	0	0	3	0	3	0	0	0	4	0	4	0	4	1	4	0	4	4	3	rs13255728		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:64099143A>T	uc003xuy.2	+	5	890	c.574A>T	c.(574-576)ACT>TCT	p.T192S	YTHDF3_uc010lys.2_Missense_Mutation_p.T136S|YTHDF3_uc003xuz.2_Missense_Mutation_p.T136S|YTHDF3_uc003xva.2_Missense_Mutation_p.T136S|YTHDF3_uc011len.1_Missense_Mutation_p.T136S	NM_152758	NP_689971	Q7Z739	YTHD3_HUMAN	YTH domain family, member 3	192											0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)			GCAAGGCATGACTGGACTGAA	0.458													9	82					0	0	1	0	0		T	64099143	T	T	64099143	3	4	27	1	0	0	0	0	1	0	0	0	17526	288	10	5	587	5	YTHDF3	8	64099143	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2334490	64099143	82264879	4044	26395											
BHLHE22	27319	broad.mit.edu	37	chr8	65494116	65494116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagagcgccggcggatgcacGacctgaacgacgcgctggac	9	3	16	13	7	0	2	0	1	0	1	0	7	0	4	2	3	3	2	2	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:65494116G>A	uc003xvi.2	+	1	1303	c.769G>A	c.(769-771)GAC>AAC	p.D257N	LOC401463_uc003xvh.2_Intron	NM_152414	NP_689627	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix domain containing, class	257	Helix-loop-helix motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						GCGGATGCACGACCTGAACGA	0.522													3	20					0	0	1	0	0		A	65494116	A	A	65494116	3	1	27	1	0	0	0	0	1	0	0	0	1422	1058	37	1	771	1	BHLHE22	8	65494116	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1394973	65494116	80869906	4045	26396											
MTFR1	9650	broad.mit.edu	37	chr8	66619259	66619259	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtaggtgacttagattctAccacatttggtaccatacca	11	13	7	10	0	1	2	0	1	1	1	1	2	1	2	3	2	3	2	3	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:66619259A>G	uc003xvm.2	+	6	744	c.532A>G	c.(532-534)ACC>GCC	p.T178A	MTFR1_uc011lep.1_Missense_Mutation_p.T178A|MTFR1_uc003xvn.2_Missense_Mutation_p.T145A|MTFR1_uc003xvo.1_Missense_Mutation_p.T168A	NM_014637	NP_055452	Q15390	MTFR1_HUMAN	mitochondrial fission regulator 1 isoform 1	178						mitochondrion|plasma membrane				pancreas(1)	1			Epithelial(68;0.0526)|BRCA - Breast invasive adenocarcinoma(89;0.156)|all cancers(69;0.171)|OV - Ovarian serous cystadenocarcinoma(28;0.194)			CTTAGATTCTACCACATTTGG	0.443													3	83					0	0	1	0	0		G	66619259	G	G	66619259	3	3	27	1	0	0	0	0	1	0	0	0	9943	391	14	3	550	3	MTFR1	8	66619259	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1125143	66619259	79744763	4046	26397											
MTFR1	9650	broad.mit.edu	37	chr8	66620183	66620183	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatcggtatcgaagtgatagCcaagatgaagttgaaaaagg	16	9	12	4	2	0	4	0	3	0	1	2	5	0	4	1	2	1	2	1	2	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:66620183C>T	uc003xvm.2	+	7	1082	c.870C>T	c.(868-870)AGC>AGT	p.S290S	MTFR1_uc011lep.1_Silent_p.S290S|MTFR1_uc003xvn.2_Silent_p.S257S|MTFR1_uc003xvo.1_Silent_p.S280S	NM_014637	NP_055452	Q15390	MTFR1_HUMAN	mitochondrial fission regulator 1 isoform 1	290						mitochondrion|plasma membrane				pancreas(1)	1			Epithelial(68;0.0526)|BRCA - Breast invasive adenocarcinoma(89;0.156)|all cancers(69;0.171)|OV - Ovarian serous cystadenocarcinoma(28;0.194)			GAAGTGATAGCCAAGATGAAG	0.448													10	150					0	0	1	0	0		T	66620183	T	T	66620183	2	4	27	1	0	0	0	0	0	0	0	1	9943	738	26	2		2	MTFR1	8	66620183	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	924	66620183	79743839	4047	26398											
PDE7A	5150	broad.mit.edu	37	chr8	66651787	66651787	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatggaagtactcaattaatCcatgaagactaaataaatga	20	10	6	5	0	1	3	1	2	0	1	2	4	2	4	1	1	1	1	1	1	10	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:66651787C>A	uc003xvq.2	-	6	557	c.545G>T	c.(544-546)GGA>GTA	p.G182V	PDE7A_uc003xvr.2_Missense_Mutation_p.G182V|PDE7A_uc003xvp.2_Missense_Mutation_p.G156V	NM_002604	NP_002595	Q13946	PDE7A_HUMAN	phosphodiesterase 7A isoform b	182						cell fraction|cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding				0			Epithelial(68;0.0509)|BRCA - Breast invasive adenocarcinoma(89;0.111)|all cancers(69;0.168)|OV - Ovarian serous cystadenocarcinoma(28;0.238)		Dyphylline(DB00651)|Ketotifen(DB00920)	CTCAATTAATCCATGAAGACT	0.279													5	79					0.184627	0.185716	1	1	0		A	66651787	A	A	66651787	3	1	27	1	0	0	0	0	1	0	0	0	11670	855	30	5	967	5	PDE7A	8	66651787	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31604	66651787	79712235	4048	26399											
DNAJC5B	85479	broad.mit.edu	37	chr8	66963796	66963796	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagaaaatggcatgtaacaTacctaaccaaagacagcgga	18	7	8	8	1	0	2	0	0	0	2	0	3	0	3	2	2	4	2	2	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:66963796T>C	uc003xvs.1	+	3	305	c.14T>C	c.(13-15)ATA>ACA	p.I5T	DNAJC5B_uc003xvt.1_RNA	NM_033105	NP_149096	Q9UF47	DNJ5B_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	5					protein folding	membrane	heat shock protein binding|unfolded protein binding				0		Lung NSC(129;0.114)|all_lung(136;0.188)	Epithelial(68;0.0213)|all cancers(69;0.0839)|BRCA - Breast invasive adenocarcinoma(89;0.0886)|OV - Ovarian serous cystadenocarcinoma(28;0.112)			GCATGTAACATACCTAACCAA	0.418													16	101					0	0	1	0	0		C	66963796	C	C	66963796	3	2	27	1	0	0	0	0	1	0	0	0	4657	1406	49	3	16	3	DNAJC5B	8	66963796	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	312009	66963796	79400226	4049	26400											
ADHFE1	137872	broad.mit.edu	37	chr8	67364293	67364293	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcaacccaatcagtgaCatttgggctatccacgcgct	10	8	10	13	2	1	1	1	1	0	0	2	1	2	1	2	2	2	4	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:67364293C>T	uc003xwb.3	+	9	874	c.840C>T	c.(838-840)GAC>GAT	p.D280D	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Silent_p.D232D|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_RNA|ADHFE1_uc011les.1_Silent_p.D210D|ADHFE1_uc011leq.1_RNA|ADHFE1_uc011ler.1_RNA	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	280					2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			CAATCAGTGACATTTGGGCTA	0.577													11	67					0	0	1	0	0		T	67364293	T	T	67364293	2	4	27	1	0	0	0	0	0	0	0	1	314	477	17	4		4	ADHFE1	8	67364293	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	400497	67364293	78999729	4050	26401											
VCPIP1	80124	broad.mit.edu	37	chr8	67577516	67577516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagaattagttctgtctcCatccaaatacacaatagacc	14	11	4	12	0	2	2	0	0	2	2	4	2	3	2	4	0	1	1	4	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:67577516C>T	uc003xwn.2	-	1	1937	c.1678G>A	c.(1678-1680)GGA>AGA	p.G560R	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	560					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			GTTCTGTCTCCATCCAAATAC	0.448													12	252					0	0	1	0	0		T	67577516	T	T	67577516	3	4	27	1	0	0	0	0	1	0	0	0	17167	603	21	4	2002	4	VCPIP1	8	67577516	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	213223	67577516	78786506	4051	26402											
C8orf44	56260	broad.mit.edu	37	chr8	67592020	67592020	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagaagcagaaaaggcaaaAggggtctttggccatcttct	13	8	13	7	0	3	2	0	0	3	2	3	3	3	2	1	5	1	2	1	5	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:67592020A>G	uc003xwo.1	+	3	464	c.311A>G	c.(310-312)AAG>AGG	p.K104R	SGK3_uc003xwp.2_5'UTR|C8orf44_uc003xwq.1_Missense_Mutation_p.K104R	NM_019607	NP_062553	Q96CB5	CH044_HUMAN	hypothetical protein LOC56260	104											0	Breast(64;0.186)		Epithelial(68;0.000959)|OV - Ovarian serous cystadenocarcinoma(28;0.00318)|all cancers(69;0.00363)|BRCA - Breast invasive adenocarcinoma(89;0.149)			AAAAGGCAAAAGGGGTCTTTG	0.413													4	151					0	0	1	0	0		G	67592020	G	G	67592020	3	3	27	1	0	0	0	0	1	0	0	0	2432	72	3	3	317	3	C8orf44	8	67592020	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14504	67592020	78772002	4052	26403											
CSPP1	79848	broad.mit.edu	37	chr8	68076737	68076737	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagtgatgatgaaattcCtatcaggcaagtttagaatt	14	12	10	5	0	1	4	1	3	0	1	2	5	2	5	1	2	0	2	1	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:68076737C>A	uc003xxi.2	+	24	2943	c.2912C>A	c.(2911-2913)CCT>CAT	p.P971H	CSPP1_uc003xxj.2_Missense_Mutation_p.P936H|CSPP1_uc003xxk.2_Missense_Mutation_p.P591H|CSPP1_uc010lyw.2_Missense_Mutation_p.P31H	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	971						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			GATGAAATTCCTATCAGGCAA	0.368													13	224					1.05317e-09	1.16272e-09	1	1	0		A	68076737	A	A	68076737	3	1	27	1	0	0	0	0	1	0	0	0	3965	681	24	5	3006	5	CSPP1	8	68076737	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	484717	68076737	78287285	4053	26404											
ARFGEF1	10565	broad.mit.edu	37	chr8	68208816	68208816	+	Silent	SNP	G	A	A																															gtcccttcatgaatttctatGtgttgtgatgttactgcagt																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:68208816G>A	uc003xxo.1	-	5	879	c.489C>T	c.(487-489)CAC>CAT	p.H163H		NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	163					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GAATTTCTATGTGTTGTGATG	0.279													4	69					0	0	1	0	0		A	68208816	A	A	68208816	2	1	27	1	0	0	0	0	0	0	0	1	852	1368	48	4		4	ARFGEF1	8	68208816	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	132079	68208816	78155206	4054	26405	52	2									
ARFGEF1	10565	broad.mit.edu	37	chr8	68208822	68208822	+	Silent	SNP	T	C	C																															tcatgaatttctatgtgttgTgatgttactgcagtaagtaa																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:68208822T>C	uc003xxo.1	-	5	873	c.483A>G	c.(481-483)TCA>TCG	p.S161S		NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	161					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			CTATGTGTTGTGATGTTACTG	0.269													5	68					0	0	1	0	0		C	68208822	C	C	68208822	2	2	27	1	0	0	0	0	0	0	0	1	852	1683	59	3		3	ARFGEF1	8	68208822	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6	68208822	78155200	4055	26406	52	2									
CPA6	57094	broad.mit.edu	37	chr8	68658339	68658339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaggaaagcagctgcctggCccctgcgcttcccgagacac	8	5	12	16	2	0	1	0	0	0	1	1	3	1	2	4	2	4	4	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:68658339C>T	uc003xxq.3	-	1	282	c.26G>A	c.(25-27)GGC>GAC	p.G9D	CPA6_uc003xxr.3_5'UTR|CPA6_uc003xxs.2_Missense_Mutation_p.G9D	NM_020361	NP_065094	Q8N4T0	CBPA6_HUMAN	carboxypeptidase A6 isoform 1 precursor	9					proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)			AGCTGCCTGGCCCCTGCGCTT	0.537													10	52					0	0	1	0	0		T	68658339	T	T	68658339	3	4	27	1	0	0	0	0	1	0	0	0	3797	739	26	2	1331	2	CPA6	8	68658339	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	449517	68658339	77705683	4056	26407											
PREX2	80243	broad.mit.edu	37	chr8	68939498	68939498	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaagaacacagatgttccCttggaaggatatttagtaac	14	10	10	7	1	0	2	0	0	0	2	1	5	1	5	1	3	2	2	1	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:68939498C>A	uc003xxv.1	+	5	510	c.483C>A	c.(481-483)CCC>CCA	p.P161P	PREX2_uc003xxu.1_Silent_p.P161P|PREX2_uc011lez.1_Silent_p.P96P	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	161	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CAGATGTTCCCTTGGAAGGAT	0.353													6	104					0.0381472	0.0386818	1	1	0		A	68939498	A	A	68939498	2	1	27	1	0	0	0	0	0	0	0	1	12499	668	24	5		5	PREX2	8	68939498	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	281159	68939498	77424524	4057	26408											
PREX2	80243	broad.mit.edu	37	chr8	68956765	68956765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagatggacatcggtacCtttttcgtggccggatcaac	9	11	10	11	3	1	1	1	0	0	1	3	3	1	3	2	4	3	1	2	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:68956765C>T	uc003xxv.1	+	8	910	c.883C>T	c.(883-885)CTT>TTT	p.L295F	PREX2_uc003xxu.1_Missense_Mutation_p.L295F|PREX2_uc011lez.1_Missense_Mutation_p.L230F	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	295	PH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ACATCGGTACCTTTTTCGTGG	0.403													12	175					0	0	1	0	0		T	68956765	T	T	68956765	3	4	27	1	0	0	0	0	1	0	0	0	12499	681	24	4	913	4	PREX2	8	68956765	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17267	68956765	77407257	4058	26409											
PREX2	80243	broad.mit.edu	37	chr8	68965388	68965388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatggaagatacataacacaGcaaaaaataaatggtttgtt	19	10	8	4	0	0	1	0	0	0	1	0	3	0	2	0	2	3	3	0	2	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:68965388G>A	uc003xxv.1	+	9	1027	c.1000G>A	c.(1000-1002)GCA>ACA	p.A334T	PREX2_uc003xxu.1_Missense_Mutation_p.A334T|PREX2_uc011lez.1_Missense_Mutation_p.A269T	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	334	PH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ACATAACACAGCAAAAAATAA	0.363													17	80					0	0	1	0	0		A	68965388	A	A	68965388	3	1	27	1	0	0	0	0	1	0	0	0	12499	971	34	2	1034	2	PREX2	8	68965388	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8623	68965388	77398634	4059	26410											
PREX2	80243	broad.mit.edu	37	chr8	68993075	68993075	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagggatctaatgctgaggTaatgtaaattagcgttttaa	15	13	10	3	1	1	1	0	1	1	0	1	2	1	2	0	2	2	4	0	2	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:68993075T>C	uc003xxv.1	+	17	1905	c.1878_splice	c.e17+2	p.E626_splice	PREX2_uc003xxu.1_Splice_Site_p.E626_splice|PREX2_uc011lez.1_Splice_Site_p.E561_splice	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a						G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						AATGCTGAGGTAATGTAAATT	0.289													12	78					0	0	1	0	0		C	68993075	C	C	68993075	5	2	27	1	0	0	0	0	0	0	1	0	12499	1652	57	3	1946	3	PREX2	8	68993075	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	27687	68993075	77370947	4060	26411											
PREX2	80243	broad.mit.edu	37	chr8	69011996	69011996	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctaaatgaagtgattcCtactgaccttcagagtaaat	13	14	6	8	0	2	4	1	3	1	1	4	4	3	4	2	0	1	1	2	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:69011996C>A	uc003xxv.1	+	23	2660	c.2633C>A	c.(2632-2634)CCT>CAT	p.P878H	PREX2_uc003xxu.1_Missense_Mutation_p.P878H|PREX2_uc011lez.1_Missense_Mutation_p.P813H	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	878					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GAAGTGATTCCTACTGACCTT	0.343													12	106					2.27111e-07	2.47899e-07	1	1	0		A	69011996	A	A	69011996	3	1	27	1	0	0	0	0	1	0	0	0	12499	681	24	5	2723	5	PREX2	8	69011996	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18921	69011996	77352026	4061	26412											
PREX2	80243	broad.mit.edu	37	chr8	69039639	69039639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtgtaggctactcctggctCttcttgaatattcaggtaac	9	14	9	9	0	3	1	1	1	2	0	4	1	4	1	1	3	2	4	1	3	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:69039639C>T	uc003xxv.1	+	31	3778	c.3751C>T	c.(3751-3753)CTT>TTT	p.L1251F		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1251					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ACTCCTGGCTCTTCTTGAATA	0.358													6	157					0	0	1	0	0		T	69039639	T	T	69039639	3	4	27	1	0	0	0	0	1	0	0	0	12499	913	32	4	4102	4	PREX2	8	69039639	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	27643	69039639	77324383	4062	26413											
C8orf34	116328	broad.mit.edu	37	chr8	69351824	69351824	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaacaagggaaccgtggaCaacttcaaagaactttgtct	15	9	8	9	1	2	1	1	0	1	1	2	3	2	3	1	2	4	0	1	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:69351824C>T	uc010lyz.2	+	2	209	c.160C>T	c.(160-162)CAA>TAA	p.Q54*	C8orf34_uc010lyx.1_Nonsense_Mutation_p.Q54*|C8orf34_uc010lyy.1_Nonsense_Mutation_p.Q54*|C8orf34_uc003xyb.2_Nonsense_Mutation_p.Q29*	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	54					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			GAACCGTGGACAACTTCAAAG	0.398													5	85					0	0	1	0	0		T	69351824	T	T	69351824	4	4	27	1	0	0	0	0	0	1	0	0	2425	479	17	4	87	4	C8orf34	8	69351824	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	312185	69351824	77012198	4063	26414											
SULF1	23213	broad.mit.edu	37	chr8	70512941	70512941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttacaaacattctacagCgcaaaaggctccagactttg	15	10	6	10	1	1	1	0	0	1	1	2	1	2	1	1	1	4	2	1	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:70512941C>T	uc010lza.1	+	9	1555	c.838C>T	c.(838-840)CGC>TGC	p.R280C	SULF1_uc003xyd.2_Missense_Mutation_p.R280C|SULF1_uc003xye.2_Missense_Mutation_p.R280C|SULF1_uc003xyf.2_Missense_Mutation_p.R280C|SULF1_uc003xyg.2_Missense_Mutation_p.R280C|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	280					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			CATTCTACAGCGCAAAAGGCT	0.433													5	237					0	0	1	0	0		T	70512941	T	T	70512941	3	4	27	1	0	0	0	0	1	0	0	0	15395	768	27	1	856	1	SULF1	8	70512941	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1161117	70512941	75851081	4064	26415											
SLCO5A1	81796	broad.mit.edu	37	chr8	70588860	70588860	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaccaagtgttcgcaacaaAacaaactgcattcccagtgc	14	8	7	12	1	0	0	0	0	0	0	2	0	1	0	2	0	6	4	2	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:70588860A>C	uc003xyl.2	-	9	2780	c.2073T>G	c.(2071-2073)GTT>GTG	p.V691V	SLCO5A1_uc010lzb.2_Silent_p.V636V|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Intron	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	691	Helical; Name=11; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			TTCGCAACAAAACAAACTGCA	0.413													7	172					0	0	1	0	0		C	70588860	C	C	70588860	2	2	27	1	0	0	0	0	0	0	0	1	14756	1	1	5		5	SLCO5A1	8	70588860	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	75919	70588860	75775162	4065	26416											
PRDM14	63978	broad.mit.edu	37	chr8	70971024	70971024	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggtgcttatctctgtaatAtttgtaggtaaataccttcc	10	16	8	7	0	1	0	0	0	1	0	3	1	2	0	2	2	2	4	2	2	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:70971024A>G	uc003xym.2	-	6	1439	c.1237T>C	c.(1237-1239)TAT>CAT	p.Y413H		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	413	C2H2-type 1; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			TCTCTGTAATATTTGTAGGTA	0.463													8	94					0	0	1	0	0		G	70971024	G	G	70971024	3	3	27	1	0	0	0	0	1	0	0	0	12477	449	16	3	490	3	PRDM14	8	70971024	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	382164	70971024	75392998	4066	26417											
PRDM14	63978	broad.mit.edu	37	chr8	70980555	70980555	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaaacctgactcctttggcGataaaactactgcagaacac	14	8	6	13	1	0	2	0	1	0	1	1	3	1	2	3	1	5	1	3	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:70980555G>A	uc003xym.2	-	4	1024	c.822C>T	c.(820-822)ATC>ATT	p.I274I		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	274	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			CTCCTTTGGCGATAAAACTAC	0.478													10	115					0	0	1	0	0		A	70980555	A	A	70980555	2	1	27	1	0	0	0	0	0	0	0	1	12477	1048	37	1		1	PRDM14	8	70980555	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9531	70980555	75383467	4067	26418											
NCOA2	10499	broad.mit.edu	37	chr8	71060570	71060570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtgacagggctgttttcaGctgtgagttgcatgaggtca	7	13	15	6	0	2	3	2	3	0	0	2	3	2	3	0	2	2	5	0	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:71060570G>A	uc003xyn.1	-	12	2705	c.2543C>T	c.(2542-2544)GCT>GTT	p.A848V	NCOA2_uc011lfb.1_Missense_Mutation_p.A5V	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	848					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			GCTGTTTTCAGCTGTGAGTTG	0.488			T	RUNXBP2	AML						OREG0018819	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	295					0	0	1	0	0		A	71060570	A	A	71060570	3	1	27	1	0	0	0	0	1	0	0	0	10248	971	34	2	1899	2	NCOA2	8	71060570	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	80015	71060570	75303452	4068	26419											
NCOA2	10499	broad.mit.edu	37	chr8	71068691	71068691	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaggagtttggtctgccCtttgctgtcatgcagtctgc	4	14	12	11	0	3	0	1	0	2	0	3	1	3	1	1	2	5	4	1	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:71068691C>A	uc003xyn.1	-	11	2071	c.1909G>T	c.(1909-1911)GGG>TGG	p.G637W		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	637					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TTGGTCTGCCCTTTGCTGTCA	0.562			T	RUNXBP2	AML								12	162					5.50884e-06	5.93776e-06	1	1	0		A	71068691	A	A	71068691	3	1	27	1	0	0	0	0	1	0	0	0	10248	681	24	5	2537	5	NCOA2	8	71068691	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8121	71068691	75295331	4069	26420											
EYA1	2138	broad.mit.edu	37	chr8	72234492	72234492	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcgtgggctgaaactacTgctcccaattgctggaaaac	10	10	11	10	1	0	1	0	1	0	0	2	2	1	2	1	3	5	3	1	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:72234492T>C	uc003xys.3	-	4	501	c.214A>G	c.(214-216)AGT>GGT	p.S72G	EYA1_uc003xyr.3_Missense_Mutation_p.S72G|EYA1_uc003xyt.3_Missense_Mutation_p.S39G|EYA1_uc010lzf.2_5'UTR|EYA1_uc003xyu.2_Missense_Mutation_p.S72G|EYA1_uc011lfe.1_Missense_Mutation_p.S72G|EYA1_uc003xyv.2_5'UTR	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	72					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			CTGAAACTACTGCTCCCAATT	0.343													22	123					0	0	1	0	0		C	72234492	C	C	72234492	3	2	27	1	0	0	0	0	1	0	0	0	5336	1580	55	3	1620	3	EYA1	8	72234492	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1165801	72234492	74129530	4070	26421											
MSC	9242	broad.mit.edu	37	chr8	72755945	72755945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacagctgccgcaggtgagCgatgtaactggaagccagcc	11	5	13	12	2	0	1	0	1	0	0	0	3	0	2	3	2	7	3	3	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:72755945C>T	uc003xyx.1	-	1	787	c.469G>A	c.(469-471)GCT>ACT	p.A157T	uc011lff.1_Intron|uc003xyy.2_5'Flank	NM_005098	NP_005089	O60682	MUSC_HUMAN	musculin	157	Helix-loop-helix motif.				transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Breast(64;0.176)		Epithelial(68;0.137)|BRCA - Breast invasive adenocarcinoma(89;0.203)			CGCAGGTGAGCGATGTAACTG	0.637											OREG0018826	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	88					0	0	1	0	0		T	72755945	T	T	72755945	3	4	27	1	0	0	0	0	1	0	0	0	9886	768	27	1	159	1	MSC	8	72755945	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	521453	72755945	73608077	4071	26422											
TRPA1	8989	broad.mit.edu	37	chr8	72981364	72981364	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgagaagaaacttaacgCtttcaatttggtttttttct	10	18	7	6	1	2	2	1	1	1	2	2	3	2	2	0	1	3	3	0	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:72981364C>A	uc003xza.2	-	3	513	c.338G>T	c.(337-339)AGC>ATC	p.S113I		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	113	Cytoplasmic (Potential).|ANK 2.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AAACTTAACGCTTTCAATTTG	0.403													16	337					4.14922e-12	4.61121e-12	1	1	0		A	72981364	A	A	72981364	3	1	27	1	0	0	0	0	1	0	0	0	16603	797	28	5	3121	5	TRPA1	8	72981364	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	225419	72981364	73382658	4072	26423											
TRPA1	8989	broad.mit.edu	37	chr8	72987597	72987597	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagacaacgccctggggCtccttcttttctccagggcg	6	11	10	14	2	3	1	1	0	2	1	5	1	4	1	3	3	1	1	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:72987597C>A	uc003xza.2	-	1	223	c.48G>T	c.(46-48)GAG>GAT	p.E16D		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	16	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	CGCCCTGGGGCTCCTTCTTTT	0.637													12	228					9.31168e-06	1.00265e-05	1	1	0		A	72987597	A	A	72987597	3	1	27	1	0	0	0	0	1	0	0	0	16603	796	28	5	3419	5	TRPA1	8	72987597	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6233	72987597	73376425	4073	26424											
KCNB2	9312	broad.mit.edu	37	chr8	73480200	73480200	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagagcctcctggaagtgtgCgacgactataatctgaacga	12	8	12	9	3	1	2	0	1	1	1	2	7	2	3	2	1	3	0	2	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:73480200C>T	uc003xzb.2	+	2	819	c.231C>T	c.(229-231)TGC>TGT	p.C77C		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	77	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			TGGAAGTGTGCGACGACTATA	0.522													24	116					0	0	1	0	0		T	73480200	T	T	73480200	2	4	27	1	0	0	0	0	0	0	0	1	8029	776	27	1		1	KCNB2	8	73480200	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	492603	73480200	72883822	4074	26425											
KCNB2	9312	broad.mit.edu	37	chr8	73848595	73848595	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcggagttacaatgaattGggcttgttgatattgtttct	9	16	12	4	1	1	2	0	2	1	0	1	3	1	3	0	3	1	4	0	3	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:73848595G>T	uc003xzb.2	+	3	1593	c.1005G>T	c.(1003-1005)TTG>TTT	p.L335F		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	335	Helical; Name=Segment S5; (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			ACAATGAATTGGGCTTGTTGA	0.473													26	159					1.42536e-11	1.58075e-11	1	1	0		T	73848595	T	T	73848595	3	4	27	1	0	0	0	0	1	0	0	0	8029	1339	47	5	1011	5	KCNB2	8	73848595	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	368395	73848595	72515427	4075	26426											
KCNB2	9312	broad.mit.edu	37	chr8	73848886	73848886	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcagaaacgccaagagaaAgcaattaaaaggagggaggc	19	2	14	6	1	0	2	0	0	0	2	0	6	0	4	1	3	3	2	1	3	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:73848886A>G	uc003xzb.2	+	3	1884	c.1296A>G	c.(1294-1296)AAA>AAG	p.K432K		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	432	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			GCCAAGAGAAAGCAATTAAAA	0.438													7	97					0	0	1	0	0		G	73848886	G	G	73848886	2	3	27	1	0	0	0	0	0	0	0	1	8029	69	3	3		3	KCNB2	8	73848886	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	291	73848886	72515136	4076	26427											
KCNB2	9312	broad.mit.edu	37	chr8	73848931	73848931	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgggccaaaaggaacggAagcatcgtttctatgaactt	13	8	12	8	3	1	1	0	1	1	0	2	4	1	3	1	3	4	2	1	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:73848931A>G	uc003xzb.2	+	3	1929	c.1341A>G	c.(1339-1341)GGA>GGG	p.G447G		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	447	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			AAAGGAACGGAAGCATCGTTT	0.448													7	148					0	0	1	0	0		G	73848931	G	G	73848931	2	3	27	1	0	0	0	0	0	0	0	1	8029	233	9	3		3	KCNB2	8	73848931	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	45	73848931	72515091	4077	26428											
KCNB2	9312	broad.mit.edu	37	chr8	73849687	73849687	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgacaatgccaccgacagTcctaagagctctctaaaagg	13	8	8	12	1	2	2	0	1	2	1	4	3	3	2	3	1	2	1	3	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:73849687T>C	uc003xzb.2	+	3	2685	c.2097T>C	c.(2095-2097)AGT>AGC	p.S699S		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	699	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			CCACCGACAGTCCTAAGAGCT	0.522													5	114					0	0	1	0	0		C	73849687	C	C	73849687	2	2	27	1	0	0	0	0	0	0	0	1	8029	1664	58	3		3	KCNB2	8	73849687	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	756	73849687	72514335	4078	26429											
RPL7	6129	broad.mit.edu	37	chr8	74203895	74203895	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactgacttcagattggggtAcctgaagtgaaaaagcaaac	15	9	10	7	0	1	4	1	3	0	1	1	4	1	4	1	2	4	2	1	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:74203895A>G	uc003xzg.2	-	5	452	c.430T>C	c.(430-432)TAC>CAC	p.Y144H	RPL7_uc003xzh.1_Missense_Mutation_p.Y104H	NM_000971	NP_000962	P18124	RL7_HUMAN	ribosomal protein L7	144					endocrine pancreas development|ribosomal large subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	DNA binding|mRNA binding|protein homodimerization activity|structural constituent of ribosome				0	Breast(64;0.0954)		Epithelial(68;0.0193)|all cancers(69;0.0766)|BRCA - Breast invasive adenocarcinoma(89;0.134)			AGATTGGGGTACCTGAAGTGA	0.343													3	72					0	0	1	0	0		G	74203895	G	G	74203895	3	3	27	1	0	0	0	0	1	0	0	0	13624	405	14	3	324	3	RPL7	8	74203895	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	354208	74203895	72160127	4079	26430											
PI15	51050	broad.mit.edu	37	chr8	75757705	75757705	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgtgtggcgacgtgcagTttacttggtatgcaactatg	8	14	12	7	2	1	0	0	0	1	0	1	1	1	0	0	2	4	4	0	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:75757705T>C	uc003yal.2	+	5	793	c.614T>C	c.(613-615)GTT>GCT	p.V205A	uc003yak.1_Intron|PI15_uc003yam.2_Missense_Mutation_p.V205A	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	205						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			CGACGTGCAGTTTACTTGGTA	0.423													4	139					0	0	1	0	0		C	75757705	C	C	75757705	3	2	27	1	0	0	0	0	1	0	0	0	11887	1725	60	3	628	3	PI15	8	75757705	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1553810	75757705	70606317	4080	26431											
HNF4G	3174	broad.mit.edu	37	chr8	76470782	76470782	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttattcaccgcaacagcTgtgaagttgagattagccgt	11	12	10	8	2	1	2	1	2	0	1	1	3	1	2	2	0	3	4	2	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:76470782T>A	uc003yaq.2	+	8	892	c.622T>A	c.(622-624)TGT>AGT	p.C208S	HNF4G_uc003yar.2_Missense_Mutation_p.C245S	NM_004133	NP_004124	Q14541	HNF4G_HUMAN	hepatocyte nuclear factor 4, gamma	208					endocrine pancreas development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1	Breast(64;0.0448)		BRCA - Breast invasive adenocarcinoma(89;0.161)			CCGCAACAGCTGTGAAGTTGA	0.363													8	188					0	0	1	0	0		A	76470782	A	A	76470782	3	1	27	1	0	0	0	0	1	0	0	0	7270	1580	55	5	759	5	HNF4G	8	76470782	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	713077	76470782	69893240	4081	26432											
ZFHX4	79776	broad.mit.edu	37	chr8	77767582	77767582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agacttcatcgattaatacgGcaatcagtgacgccaccacc	13	8	7	13	3	2	2	2	1	0	1	3	3	2	2	3	1	1	1	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:77767582G>A	uc003yav.2	+	10	8677	c.8290G>A	c.(8290-8292)GCA>ACA	p.A2764T	ZFHX4_uc003yau.1_Missense_Mutation_p.A2809T|ZFHX4_uc003yaw.1_Missense_Mutation_p.A2764T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2764						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GATTAATACGGCAATCAGTGA	0.473										HNSCC(33;0.089)			7	61					0	0	1	0	0		A	77767582	A	A	77767582	3	1	27	1	0	0	0	0	1	0	0	0	17660	1203	42	2	8459	2	ZFHX4	8	77767582	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1296800	77767582	68596440	4082	26433											
IL7	3574	broad.mit.edu	37	chr8	79646004	79646004	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaagtttttatctcttgtaAtagtctctttaggaaacaca	13	16	5	7	0	2	0	0	0	2	0	4	1	2	1	0	1	1	2	0	1	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:79646004A>T	uc003ybg.2	-	6	1079	c.478T>A	c.(478-480)TTA>ATA	p.L160I	IL7_uc003ybe.2_Missense_Mutation_p.L75I|IL7_uc011lfm.1_RNA|IL7_uc003ybh.2_RNA|IL7_uc003ybi.3_RNA	NM_000880	NP_000871	P13232	IL7_HUMAN	interleukin 7 precursor	160					bone resorption|cell-cell signaling|humoral immune response|organ morphogenesis|positive regulation of B cell proliferation|positive regulation of T cell differentiation	extracellular space	cytokine activity|growth factor activity|interleukin-7 receptor binding				0						ATCTCTTGTAATAGTCTCTTT	0.299													7	147					0	0	1	0	0		T	79646004	T	T	79646004	3	4	27	1	0	0	0	0	1	0	0	0	7720	98	4	5	59	5	IL7	8	79646004	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1878422	79646004	66718018	4083	26434											
TPD52	7163	broad.mit.edu	37	chr8	80965534	80965534	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgcagatgttgctgtcacGtcttgccaccctttggcaat	7	13	9	12	2	2	1	1	0	1	1	2	1	2	1	2	1	3	4	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:80965534G>A	uc003ybr.1	-	3	709	c.387C>T	c.(385-387)GAC>GAT	p.D129D	TPD52_uc010lzr.2_RNA|TPD52_uc010lzs.1_RNA|TPD52_uc003ybs.1_Silent_p.D89D|TPD52_uc003ybt.1_Silent_p.D89D|TPD52_uc003ybq.1_RNA|TPD52_uc003ybu.1_RNA	NM_001025252	NP_001020423	P55327	TPD52_HUMAN	tumor protein D52 isoform 1	129					anatomical structure morphogenesis|B cell differentiation|secretion	endoplasmic reticulum|perinuclear region of cytoplasm	calcium ion binding|protein heterodimerization activity|protein homodimerization activity			ovary(1)	1	all_epithelial(4;1.13e-09)|Lung NSC(7;9.71e-07)|all_lung(9;3.75e-06)	Lung NSC(129;3.55e-06)|all_lung(136;1.53e-05)|Acute lymphoblastic leukemia(644;0.158)	BRCA - Breast invasive adenocarcinoma(6;0.00181)|Epithelial(68;0.0149)|all cancers(69;0.0612)			TTGCTGTCACGTCTTGCCACC	0.438													8	218					0	0	1	0	0		A	80965534	A	A	80965534	2	1	27	1	0	0	0	0	0	0	0	1	16423	1136	40	1		1	TPD52	8	80965534	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1319530	80965534	65398488	4084	26435											
ZBTB10	65986	broad.mit.edu	37	chr8	81431715	81431715	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagatcagaatgatccCtctcgatgggatgaatcagg	13	8	13	7	1	3	5	2	2	1	3	5	8	4	6	1	3	0	0	1	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:81431715C>A	uc003ybx.3	+	6	3166	c.2568C>A	c.(2566-2568)CCC>CCA	p.P856P	ZBTB10_uc003ybv.3_Silent_p.P564P|ZBTB10_uc003ybw.3_Silent_p.P832P|ZBTB10_uc010lzt.2_Silent_p.P854P	NM_001105539	NP_001099009	Q96DT7	ZBT10_HUMAN	zinc finger and BTB domain containing 10 isoform	856					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)	1	all_cancers(3;1.68e-09)|all_epithelial(4;5.13e-11)|Lung NSC(7;1.75e-07)|all_lung(9;7.38e-07)|Breast(3;2.96e-06)		BRCA - Breast invasive adenocarcinoma(6;0.000434)|Epithelial(68;0.00486)|all cancers(69;0.0296)			AGAATGATCCCTCTCGATGGG	0.423													9	34					3.09899e-07	3.3784e-07	1	1	0		A	81431715	A	A	81431715	2	1	27	1	0	0	0	0	0	0	0	1	17548	668	24	5		5	ZBTB10	8	81431715	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	466181	81431715	64932307	4085	26436											
PAG1	55824	broad.mit.edu	37	chr8	81897578	81897578	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctggacttcctcgtaatgCtgcatgcaggtcagagtact	8	12	11	10	1	2	1	1	0	1	1	4	2	3	2	1	2	4	5	1	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:81897578C>G	uc003ybz.2	-	7	1020	c.309G>C	c.(307-309)CAG>CAC	p.Q103H		NM_018440	NP_060910	Q9NWQ8	PAG1_HUMAN	phosphoprotein associated with glycosphingolipid	103	Cytoplasmic (Potential).				epidermal growth factor receptor signaling pathway|intracellular signal transduction|T cell receptor signaling pathway	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding|SH3/SH2 adaptor activity				0	Lung NSC(7;5.76e-06)|all_lung(9;2e-05)		BRCA - Breast invasive adenocarcinoma(6;0.0567)|Epithelial(68;0.0634)|all cancers(69;0.197)			CCTCGTAATGCTGCATGCAGG	0.483													3	58					0	0	1	0	0		G	81897578	G	G	81897578	3	3	27	1	0	0	0	0	1	0	0	0	11407	796	28	5	1001	5	PAG1	8	81897578	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	465863	81897578	64466444	4086	26437											
FABP5	2171	broad.mit.edu	37	chr8	82196782	82196782	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatgtcacctgtactcggAtctatgaaaaagtagaataa	17	10	7	7	1	2	2	1	1	1	1	3	3	2	3	1	1	1	2	1	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:82196782A>G	uc003yca.1	+	4	436	c.388A>G	c.(388-390)ATC>GTC	p.I130V		NM_001444	NP_001435	Q01469	FABP5_HUMAN	fatty acid binding protein 5	130	Fatty acid binding (By similarity).				epidermis development	cytoplasm	fatty acid binding|protein binding|transporter activity				0	Lung NSC(7;3.57e-05)|all_lung(9;0.00011)		Epithelial(68;0.102)			CTGTACTCGGATCTATGAAAA	0.363													6	64					0	0	1	0	0		G	82196782	G	G	82196782	3	3	27	1	0	0	0	0	1	0	0	0	5371	333	12	3	402	3	FABP5	8	82196782	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	299204	82196782	64167240	4087	26438											
IMPA1	3612	broad.mit.edu	37	chr8	82593741	82593741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttagctcatacctctccagCttgtcttgctagagttactg	7	15	7	12	0	3	1	1	0	2	1	4	1	3	1	2	0	5	4	2	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:82593741C>T	uc003ych.2	-	2	182	c.55G>A	c.(55-57)GCT>ACT	p.A19T	IMPA1_uc011lfq.1_Missense_Mutation_p.A78T|IMPA1_uc011lfr.1_Missense_Mutation_p.A19T	NM_005536	NP_005527	P29218	IMPA1_HUMAN	inositol(myo)-1(or 4)-monophosphatase 1 isoform	19					inositol phosphate dephosphorylation|phosphatidylinositol biosynthetic process|signal transduction	cytoplasm	inositol-1(or 4)-monophosphatase activity|metal ion binding|protein homodimerization activity			skin(1)	1					Lithium(DB01356)	ACCTCTCCAGCTTGTCTTGCT	0.353													6	66					0	0	1	0	0		T	82593741	T	T	82593741	3	4	27	1	0	0	0	0	1	0	0	0	7738	797	28	2	810	2	IMPA1	8	82593741	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	396959	82593741	63770281	4088	26439											
E2F5	1875	broad.mit.edu	37	chr8	86121514	86121514	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgatgacctcacacaGccttcctcccagtccttgac	8	9	5	19	0	1	3	1	3	0	0	4	3	4	3	7	0	1	0	7	0	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:86121514G>A	uc003ycz.3	+	6	790	c.753G>A	c.(751-753)CAG>CAA	p.Q251Q	E2F5_uc003yda.3_Silent_p.Q251Q|E2F5_uc010mab.2_Silent_p.Q90Q|E2F5_uc003ydb.3_Silent_p.Q70Q	NM_001951	NP_001942	Q15329	E2F5_HUMAN	E2F transcription factor 5 isoform 1	251					G1 phase of mitotic cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1						ACCTCACACAGCCTTCCTCCC	0.493													5	85					0	0	1	0	0		A	86121514	A	A	86121514	2	1	27	1	0	0	0	0	0	0	0	1	4876	962	34	2		2	E2F5	8	86121514	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3527773	86121514	60242508	4089	26440											
C8orf59	401466	broad.mit.edu	37	chr8	86127243	86127243	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctttatttactctgttaacTttttcctcattcataatgtt	8	22	3	8	0	3	0	2	0	1	0	4	0	4	0	1	0	2	3	1	0	4	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:86127243T>G	uc010mac.1	-	4	378	c.138A>C	c.(136-138)AAA>AAC	p.K46N	C8orf59_uc003ydd.2_Missense_Mutation_p.K46N|C8orf59_uc010mad.1_Missense_Mutation_p.K46N|C8orf59_uc003yde.2_Missense_Mutation_p.K46N|uc003ydc.1_RNA|C8orf59_uc011lfu.1_Intron	NM_001099670	NP_001093140	Q8N0T1	CH059_HUMAN	hypothetical protein LOC401466	46											0						CTCTGTTAACTTTTTCCTCAT	0.289													3	33					0	0	1	0	0		G	86127243	G	G	86127243	3	3	27	1	0	0	0	0	1	0	0	0	2437	1606	56	5	166	5	C8orf59	8	86127243	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5729	86127243	60236779	4090	26441											
CA3	761	broad.mit.edu	37	chr8	86360305	86360305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctccagtgctgagaacgagCccccagtgcctcttgtgagc	7	9	11	14	1	2	2	0	2	2	1	3	4	2	2	4	0	5	1	4	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:86360305C>T	uc003ydj.2	+	7	789	c.706C>T	c.(706-708)CCC>TCC	p.P236S	CA3_uc011lfv.1_RNA	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	236					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0						TGAGAACGAGCCCCCAGTGCC	0.557													4	64					0	0	1	0	0		T	86360305	T	T	86360305	3	4	27	1	0	0	0	0	1	0	0	0	2520	739	26	2	732	2	CA3	8	86360305	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	233062	86360305	60003717	4091	26442											
SLC7A13	157724	broad.mit.edu	37	chr8	87230005	87230005	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtagaaatagcaaaaggCataatccatgctaatgaggg	17	7	12	5	0	0	2	0	1	0	1	1	3	1	2	1	3	2	4	1	3	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:87230005C>A	uc003ydq.1	-	3	971	c.873G>T	c.(871-873)ATG>ATT	p.M291I	SLC7A13_uc003ydr.1_Missense_Mutation_p.M282I	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	291	Helical; Name=8; (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						TAGCAAAAGGCATAATCCATG	0.373													28	167					1.17739e-12	1.31108e-12	1	1	0		A	87230005	A	A	87230005	3	1	27	1	0	0	0	0	1	0	0	0	14720	710	25	5	547	5	SLC7A13	8	87230005	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	869700	87230005	59134017	4092	26443											
WWP1	11059	broad.mit.edu	37	chr8	87443720	87443720	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagatccaagaactcaaggGtatgtatatacagcagcctt	15	9	9	8	0	1	2	1	0	0	2	2	3	2	2	2	1	4	3	2	1	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:87443720G>T	uc003ydt.2	+	13	1752	c.1472_splice	c.e13+1	p.G491_splice	WWP1_uc010mai.2_Splice_Site_p.G267_splice	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase						central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						GAACTCAAGGGTATGTATATA	0.363													13	86					1.3612e-06	1.47786e-06	1	1	0		T	87443720	T	T	87443720	5	4	27	1	0	0	0	0	0	0	1	0	17441	1275	44	5	1515	5	WWP1	8	87443720	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	213715	87443720	58920302	4093	26444											
CNGB3	54714	broad.mit.edu	37	chr8	87638291	87638291	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccgtagttggtagggtctTaagcaaatcagactcatctt	11	12	10	8	1	4	1	2	0	2	1	4	2	4	1	1	2	1	4	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:87638291T>C	uc003ydx.2	-	13	1544	c.1498A>G	c.(1498-1500)AAG>GAG	p.K500E	CNGB3_uc010maj.2_Missense_Mutation_p.K362E	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	500	Extracellular (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						GGTAGGGTCTTAAGCAAATCA	0.368													3	68					0	0	1	0	0		C	87638291	C	C	87638291	3	2	27	1	0	0	0	0	1	0	0	0	3604	1763	61	3	955	3	CNGB3	8	87638291	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	194571	87638291	58725731	4094	26445											
CNGB3	54714	broad.mit.edu	37	chr8	87751940	87751940	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgacttggttttgagagAtttctcttcacctttgtttt	6	21	8	6	0	2	3	1	2	1	1	3	4	2	3	1	1	0	3	1	1	0	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:87751940A>T	uc003ydx.2	-	2	200	c.154T>A	c.(154-156)TCT>ACT	p.S52T		NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	52	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						GTTTTGAGAGATTTCTCTTCA	0.318													4	104					0	0	1	0	0		T	87751940	T	T	87751940	3	4	27	1	0	0	0	0	1	0	0	0	3604	333	12	5	2343	5	CNGB3	8	87751940	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	113649	87751940	58612082	4095	26446											
CNBD1	168975	broad.mit.edu	37	chr8	87951865	87951865	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagtcaacatcaacaacCtgatgattctaacaatatag	18	9	6	8	0	3	2	2	2	1	0	3	3	3	3	1	1	4	0	1	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:87951865C>A	uc003ydy.2	+	4	362	c.314C>A	c.(313-315)CCT>CAT	p.P105H		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	105										ovary(3)	3						CATCAACAACCTGATGATTCT	0.343													5	142					0.0215528	0.0219246	1	1	0		A	87951865	A	A	87951865	3	1	27	1	0	0	0	0	1	0	0	0	3594	681	24	5	328	5	CNBD1	8	87951865	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	199925	87951865	58412157	4096	26447											
MMP16	4325	broad.mit.edu	37	chr8	89086947	89086947	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatccatcaccctgttgtTtctcactcgccaaaaccact	9	12	3	17	1	2	0	2	0	1	0	6	0	4	0	5	0	1	2	5	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:89086947T>C	uc003yeb.3	-	7	1390	c.1108A>G	c.(1108-1110)AAC>GAC	p.N370D	MMP16_uc003yec.2_Missense_Mutation_p.N370D	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	370	Extracellular (Potential).|Hemopexin-like 1.				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						ACCCTGTTGTTTCTCACTCGC	0.498													26	164					0	0	1	0	0		C	89086947	C	C	89086947	3	2	27	1	0	0	0	0	1	0	0	0	9673	1841	64	3	887	3	MMP16	8	89086947	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1135082	89086947	57277075	4097	26448											
MMP16	4325	broad.mit.edu	37	chr8	89128833	89128833	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gataggagggtctgccggttGgaggccgaggaggttttggc	6	9	20	6	2	1	0	0	0	1	0	1	5	1	3	2	8	1	2	2	8	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:89128833G>A	uc003yeb.3	-	6	1268	c.986C>T	c.(985-987)CCA>CTA	p.P329L	MMP16_uc003yec.2_Missense_Mutation_p.P329L	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	329	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						TCTGCCGGTTGGAGGCCGAGG	0.522													14	171					0	0	1	0	0		A	89128833	A	A	89128833	3	1	27	1	0	0	0	0	1	0	0	0	9673	1348	47	4	1013	4	MMP16	8	89128833	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	41886	89128833	57235189	4098	26449											
RIPK2	8767	broad.mit.edu	37	chr8	90802434	90802434	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccagggacttgatcatgaaAgaggactatgaacttgttag	13	11	11	6	0	1	4	1	3	0	1	2	6	2	6	1	2	1	1	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:90802434A>C	uc003yee.2	+	11	1727	c.1413A>C	c.(1411-1413)AAA>AAC	p.K471N	RIPK2_uc003yef.2_Missense_Mutation_p.K334N	NM_003821	NP_003812	O43353	RIPK2_HUMAN	receptor-interacting serine-threonine kinase 2	471	CARD.				activation of MAPK activity|anti-apoptosis|apoptosis|inflammatory response|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|CARD domain binding|LIM domain binding|protein homodimerization activity|protein serine/threonine kinase activity|signal transducer activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.0474)			TGATCATGAAAGAGGACTATG	0.438													5	102					0	0	1	0	0		C	90802434	C	C	90802434	3	2	27	1	0	0	0	0	1	0	0	0	13406	69	3	5	1455	5	RIPK2	8	90802434	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1673601	90802434	55561588	4099	26450											
SLC26A7	115111	broad.mit.edu	37	chr8	92374603	92374603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatatgggtcagtacatatgTatttacaatatgctttgctg	12	16	8	5	0	1	0	1	0	0	0	1	0	1	0	0	1	4	4	0	1	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:92374603T>C	uc003yex.2	+	13	1615	c.1337T>C	c.(1336-1338)GTA>GCA	p.V446A	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Missense_Mutation_p.V446A|SLC26A7_uc003yfa.2_Missense_Mutation_p.V446A	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	446	Extracellular (Potential).					basolateral plasma membrane|integral to membrane|recycling endosome membrane	anion:anion antiporter activity|bicarbonate transmembrane transporter activity|chloride channel activity|oxalate transmembrane transporter activity|sulfate transmembrane transporter activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.00802)			AGTACATATGTATTTACAATA	0.388													13	213					0	0	1	0	0		C	92374603	C	C	92374603	3	2	27	1	0	0	0	0	1	0	0	0	14547	1638	57	3	1379	3	SLC26A7	8	92374603	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1572169	92374603	53989419	4100	26451											
RBM12B	389677	broad.mit.edu	37	chr8	94745668	94745668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttaacttttcggggcccaaCtggcctatcatttagatctt	8	15	7	11	1	2	1	1	0	1	1	3	1	2	1	2	3	2	0	2	3	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:94745668C>T	uc003yfz.2	-	3	3164	c.2971G>A	c.(2971-2973)GTT>ATT	p.V991I		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	991	RRM 4.						nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			CGGGGCCCAACTGGCCTATCA	0.368													7	68					0	0	1	0	0		T	94745668	T	T	94745668	3	4	27	1	0	0	0	0	1	0	0	0	13139	565	20	4	38	4	RBM12B	8	94745668	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2371065	94745668	51618354	4101	26452											
RBM12B	389677	broad.mit.edu	37	chr8	94747482	94747482	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgagagtatttttgtgaaAcatgtccgggcctatctctc	8	15	9	9	1	1	2	0	2	1	1	4	3	2	2	2	1	1	1	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:94747482A>G	uc003yfz.2	-	3	1350	c.1157T>C	c.(1156-1158)GTT>GCT	p.V386A		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	386							nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			TTTTTGTGAAACATGTCCGGG	0.368													14	259					0	0	1	0	0		G	94747482	G	G	94747482	3	3	27	1	0	0	0	0	1	0	0	0	13139	43	2	3	1852	3	RBM12B	8	94747482	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1814	94747482	51616540	4102	26453											
KIAA1429	25962	broad.mit.edu	37	chr8	95523820	95523820	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaactctgtgaagggtagTccccatgttgacatggagcc	10	10	12	9	0	1	2	0	2	1	0	2	3	2	3	3	2	2	3	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:95523820T>C	uc003ygo.1	-	13	2996	c.2983A>G	c.(2983-2985)ACT>GCT	p.T995A	KIAA1429_uc003ygp.2_Missense_Mutation_p.T995A|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	995					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			TGAAGGGTAGTCCCCATGTTG	0.433													4	162					0	0	1	0	0		C	95523820	C	C	95523820	3	2	27	1	0	0	0	0	1	0	0	0	8247	1667	58	3	2557	3	KIAA1429	8	95523820	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	776338	95523820	50840202	4103	26454											
DPY19L4	286148	broad.mit.edu	37	chr8	95746890	95746890	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgctttgcaaagattttcAttggctgtcttgcagcggtt	8	15	10	8	2	2	1	1	0	1	1	2	1	2	1	0	2	4	5	0	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:95746890A>G	uc003ygx.2	+	3	284	c.160A>G	c.(160-162)ATT>GTT	p.I54V	DPY19L4_uc003ygy.2_5'UTR	NM_181787	NP_861452	Q7Z388	D19L4_HUMAN	dpy-19-like 4	54	Helical; (Potential).					integral to membrane				ovary(2)	2	Breast(36;3.85e-06)					AAAGATTTTCATTGGCTGTCT	0.289													4	81					0	0	1	0	0		G	95746890	G	G	95746890	3	3	27	1	0	0	0	0	1	0	0	0	4749	217	8	3	170	3	DPY19L4	8	95746890	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	223070	95746890	50617132	4104	26455											
DPY19L4	286148	broad.mit.edu	37	chr8	95782721	95782721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttactcttgaagatggacGaattggagaaagaccagaaa	16	9	11	5	1	1	5	0	1	1	4	1	8	1	6	1	2	1	1	1	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:95782721G>A	uc003ygx.2	+	13	1500	c.1376G>A	c.(1375-1377)CGA>CAA	p.R459Q		NM_181787	NP_861452	Q7Z388	D19L4_HUMAN	dpy-19-like 4	459						integral to membrane				ovary(2)	2	Breast(36;3.85e-06)					GAAGATGGACGAATTGGAGAA	0.303													13	85					0	0	1	0	0		A	95782721	A	A	95782721	3	1	27	1	0	0	0	0	1	0	0	0	4749	1058	37	1	1426	1	DPY19L4	8	95782721	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	35831	95782721	50581301	4105	26456											
GDF6	392255	broad.mit.edu	37	chr8	97172915	97172915	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagagcaggaccctgggagtAtccatggcgggcaagtggct	9	6	17	9	1	0	1	0	0	0	1	1	4	1	3	2	5	1	4	2	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:97172915A>T	uc003yhp.2	-	1	106	c.6T>A	c.(4-6)GAT>GAA	p.D2E		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	2					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					CCCTGGGAGTATCCATGGCGG	0.697													10	47					0	0	1	0	0		T	97172915	T	T	97172915	3	4	27	1	0	0	0	0	1	0	0	0	6332	446	16	5	1369	5	GDF6	8	97172915	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1390194	97172915	49191107	4106	26457											
MTDH	92140	broad.mit.edu	37	chr8	98703401	98703401	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagttggagtgaccgttcaAtattttctggcattggtaag	9	14	13	5	1	2	1	1	1	1	0	2	3	2	3	1	4	0	4	1	4	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:98703401A>G	uc003yhz.2	+	6	1361	c.1033A>G	c.(1033-1035)ATA>GTA	p.I345V	MTDH_uc010mbf.2_RNA	NM_178812	NP_848927	Q86UE4	LYRIC_HUMAN	metadherin	345	Cytoplasmic (Potential).				lipopolysaccharide-mediated signaling pathway|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of angiogenesis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein kinase B signaling cascade	apical plasma membrane|endoplasmic reticulum membrane|integral to membrane|intercellular canaliculus|nuclear body|nuclear membrane|nucleolus|perinuclear region of cytoplasm|tight junction	NF-kappaB binding|RNA polymerase II transcription factor binding|transcription coactivator activity			liver(1)|central_nervous_system(1)	2	Breast(36;2.56e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.178)			TGACCGTTCAATATTTTCTGG	0.333													6	118					0	0	1	0	0		G	98703401	G	G	98703401	3	3	27	1	0	0	0	0	1	0	0	0	9935	101	4	3	1055	3	MTDH	8	98703401	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1530486	98703401	47660621	4107	26458											
MATN2	4147	broad.mit.edu	37	chr8	98943671	98943671	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagtccattgggagtgagccCcatgaggaccatgtcttcct	9	10	11	11	0	1	2	0	2	1	0	3	4	3	4	5	2	1	0	5	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:98943671C>T	uc003yic.2	+	3	864	c.633C>T	c.(631-633)CCC>CCT	p.P211P	MATN2_uc003yib.1_Silent_p.P211P|MATN2_uc010mbh.1_Silent_p.P211P|MATN2_uc003yid.2_Silent_p.P211P|MATN2_uc003yie.1_Silent_p.P211P|MATN2_uc010mbi.1_Silent_p.P85P	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	211	VWFA 1.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			GGAGTGAGCCCCATGAGGACC	0.537													4	97					0	0	1	0	0		T	98943671	T	T	98943671	2	4	27	1	0	0	0	0	0	0	0	1	9352	610	22	4		4	MATN2	8	98943671	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	240270	98943671	47420351	4108	26459											
MATN2	4147	broad.mit.edu	37	chr8	99039747	99039747	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtttgtcactggaattatAgattccttgacaatttcccc	10	15	6	10	0	1	2	1	1	0	1	3	3	3	3	3	1	0	1	3	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:99039747A>C	uc003yic.2	+	14	2277	c.2046A>C	c.(2044-2046)ATA>ATC	p.I682I	MATN2_uc010mbh.1_Silent_p.I641I|MATN2_uc003yid.2_Silent_p.I682I|MATN2_uc003yie.1_Silent_p.I682I|MATN2_uc010mbi.1_Silent_p.I515I|MATN2_uc010mbj.1_Intron|RPL30_uc010mbk.1_Intron	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	682	VWFA 2.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			CTGGAATTATAGATTCCTTGA	0.483													9	141					0	0	1	0	0		C	99039747	C	C	99039747	2	2	27	1	0	0	0	0	0	0	0	1	9352	410	15	5		5	MATN2	8	99039747	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	96076	99039747	47324275	4109	26460											
NIPAL2	79815	broad.mit.edu	37	chr8	99248423	99248423	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattgtctttcagaaatgtAacagaaataatggcactacc	17	11	6	7	0	2	2	1	0	1	2	2	2	2	2	1	1	2	2	1	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:99248423A>G	uc003yil.1	-	4	652	c.396T>C	c.(394-396)GTT>GTC	p.V132V	NIPAL2_uc011lgw.1_5'UTR|NIPAL2_uc003yim.1_Silent_p.V132V	NM_024759	NP_079035	Q9H841	NPAL2_HUMAN	NIPA-like domain containing 2	132						integral to membrane					0						TCAGAAATGTAACAGAAATAA	0.313													5	69					0	0	1	0	0		G	99248423	G	G	99248423	2	3	27	1	0	0	0	0	0	0	0	1	10444	349	13	3		3	NIPAL2	8	99248423	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	208676	99248423	47115599	4110	26461											
KCNS2	3788	broad.mit.edu	37	chr8	99440332	99440332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcgcttccccgagacgcGcctgggccgcttgctgctct	2	9	13	17	5	1	1	0	0	1	1	2	2	2	1	4	1	3	5	4	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:99440332G>A	uc003yin.2	+	2	475	c.125G>A	c.(124-126)CGC>CAC	p.R42H		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	42	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			CCCGAGACGCGCCTGGGCCGC	0.652													6	72					0	0	1	0	0		A	99440332	A	A	99440332	3	1	27	1	0	0	0	0	1	0	0	0	8105	1087	38	1	127	1	KCNS2	8	99440332	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	191909	99440332	46923690	4111	26462											
STK3	6788	broad.mit.edu	37	chr8	99468135	99468135	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggctgtcttttcgcagTgtatctctgacgaagttctt	7	16	10	8	2	3	1	0	1	3	0	5	2	3	1	0	1	0	4	0	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:99468135T>C	uc003yip.2	-	11	1552	c.1411A>G	c.(1411-1413)ACT>GCT	p.T471A	STK3_uc003yio.2_Missense_Mutation_p.T499A	NM_006281	NP_006272	Q13188	STK3_HUMAN	serine/threonine kinase 3	471	SARAH.|Potential.				apoptosis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of apoptosis	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein dimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	Breast(36;2.4e-06)	Breast(495;0.106)	OV - Ovarian serous cystadenocarcinoma(57;0.0382)	KIRC - Kidney renal clear cell carcinoma(542;9.44e-06)		CTTTTCGCAGTGTATCTCTGA	0.403													4	53					0	0	1	0	0		C	99468135	C	C	99468135	3	2	27	1	0	0	0	0	1	0	0	0	15320	1696	59	3	68	3	STK3	8	99468135	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	27803	99468135	46895887	4112	26463											
VPS13B	157680	broad.mit.edu	37	chr8	100050747	100050747	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcagaaccagtggtaattAccatcaatactatggaatgc	14	11	8	8	0	2	1	2	0	0	1	2	2	2	2	2	2	4	2	2	2	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:100050747A>G	uc003yiv.2	+	3	355	c.244A>G	c.(244-246)ACC>GCC	p.T82A	VPS13B_uc003yiw.2_Missense_Mutation_p.T82A|VPS13B_uc003yit.2_Missense_Mutation_p.T82A|VPS13B_uc003yiu.1_Missense_Mutation_p.T82A|VPS13B_uc003yis.2_Missense_Mutation_p.T82A|VPS13B_uc011lgy.1_5'UTR	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	82					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AGTGGTAATTACCATCAATAC	0.318													4	65					0	0	1	0	0		G	100050747	G	G	100050747	3	3	27	1	0	0	0	0	1	0	0	0	17216	391	14	3	250	3	VPS13B	8	100050747	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	582612	100050747	46313275	4113	26464											
VPS13B	157680	broad.mit.edu	37	chr8	100729416	100729416	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcataattcttgggtcaTcatttctactcagtataaac	12	14	6	9	0	5	0	3	0	2	0	5	0	5	0	0	2	2	2	0	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:100729416T>A	uc003yiv.2	+	37	6658	c.6547T>A	c.(6547-6549)TCA>ACA	p.S2183T	VPS13B_uc003yiw.2_Missense_Mutation_p.S2158T	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2183					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TCTTGGGTCATCATTTCTACT	0.333													9	70					0	0	1	0	0		A	100729416	A	A	100729416	3	1	27	1	0	0	0	0	1	0	0	0	17216	1435	50	5	6883	5	VPS13B	8	100729416	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	678669	100729416	45634606	4114	26465											
RGS22	26166	broad.mit.edu	37	chr8	101020754	101020754	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttttcctgttggagtccaAtgtcaagagtggcagaagga	10	12	12	7	0	2	2	1	0	1	2	4	4	4	4	2	3	0	2	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:101020754A>G	uc003yjb.1	-	15	2405	c.2210T>C	c.(2209-2211)ATT>ACT	p.I737T	RGS22_uc003yja.1_Missense_Mutation_p.I556T|RGS22_uc003yjc.1_Missense_Mutation_p.I725T|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	737					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			TTGGAGTCCAATGTCAAGAGT	0.403													7	60					0	0	1	0	0		G	101020754	G	G	101020754	3	3	27	1	0	0	0	0	1	0	0	0	13330	101	4	3	1636	3	RGS22	8	101020754	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	291338	101020754	45343268	4115	26466											
FBXO43	286151	broad.mit.edu	37	chr8	101153423	101153423	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagtagttcttgaaaagaAccctcctggtcagacaggga	12	9	11	9	0	2	3	1	1	1	2	3	4	3	4	2	2	2	3	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:101153423A>G	uc003yjd.2	-	2	1772	c.1059T>C	c.(1057-1059)GGT>GGC	p.G353G	FBXO43_uc003yje.2_Silent_p.G319G|FBXO43_uc010mbp.1_Silent_p.G353G	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	353					meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			CTTGAAAAGAACCCTCCTGGT	0.463													15	199					0	0	1	0	0		G	101153423	G	G	101153423	2	3	27	1	0	0	0	0	0	0	0	1	5766	30	2	3		3	FBXO43	8	101153423	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	132669	101153423	45210599	4116	26467											
SPAG1	6674	broad.mit.edu	37	chr8	101203638	101203638	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcttctgcgtcgtgctactAcatataaacatcaaaacaag	14	11	5	11	2	3	0	1	0	2	0	4	0	3	0	0	0	6	1	0	0	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:101203638A>G	uc003yjh.1	+	9	939	c.853A>G	c.(853-855)ACA>GCA	p.T285A	SPAG1_uc003yjg.1_Missense_Mutation_p.T285A|SPAG1_uc003yji.1_Missense_Mutation_p.T285A	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	285	TPR 3.				single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		TCGTGCTACTACATATAAACA	0.343													7	88					0	0	1	0	0		G	101203638	G	G	101203638	3	3	27	1	0	0	0	0	1	0	0	0	15000	391	14	3	883	3	SPAG1	8	101203638	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	50215	101203638	45160384	4117	26468											
SPAG1	6674	broad.mit.edu	37	chr8	101237493	101237493	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttctgtgccactgcaagCttggcatccggcaaaagaga	10	9	11	11	1	1	1	0	0	1	1	2	2	2	1	2	2	4	5	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:101237493C>A	uc003yjh.1	+	14	1867	c.1781C>A	c.(1780-1782)GCT>GAT	p.A594D	SPAG1_uc003yji.1_Missense_Mutation_p.A594D	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	594					single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		CCACTGCAAGCTTGGCATCCG	0.517													8	61					0.000157383	0.000166242	1	1	0		A	101237493	A	A	101237493	3	1	27	1	0	0	0	0	1	0	0	0	15000	797	28	5	1831	5	SPAG1	8	101237493	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	33855	101237493	45126529	4118	26469											
GRHL2	79977	broad.mit.edu	37	chr8	102589676	102589676	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgaagacaaaaacagagAtgaacagctcaaatactgga	20	5	9	7	0	1	4	1	2	0	2	1	6	1	5	0	1	4	1	0	1	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:102589676A>T	uc010mbu.2	+	7	1262	c.932A>T	c.(931-933)GAT>GTT	p.D311V		NM_024915	NP_079191	Q6ISB3	GRHL2_HUMAN	transcription factor CP2-like 3	311						cytoplasm|nucleus	DNA binding			ovary(2)|skin(1)	3	all_cancers(14;4.39e-08)|all_epithelial(15;4.09e-10)|Lung NSC(17;7.11e-06)|all_lung(17;1.44e-05)		Epithelial(11;5.81e-09)|all cancers(13;3.81e-07)|OV - Ovarian serous cystadenocarcinoma(57;0.000213)			AAAAACAGAGATGAACAGCTC	0.483													8	139					0	0	1	0	0		T	102589676	T	T	102589676	3	4	27	1	0	0	0	0	1	0	0	0	6780	333	12	5	958	5	GRHL2	8	102589676	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1352183	102589676	43774346	4119	26470											
RRM2B	50484	broad.mit.edu	37	chr8	103236354	103236354	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggcatggtttcaattgcaTtaaataaaaattccctgtaa	15	13	7	6	0	1	0	1	0	0	0	2	0	2	0	1	2	1	4	1	2	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:103236354T>C	uc003ykn.2	-	5	714	c.470A>G	c.(469-471)AAT>AGT	p.N157S	RRM2B_uc003yko.2_RNA|RRM2B_uc010mbv.1_Missense_Mutation_p.N105S|RRM2B_uc010mbw.1_Intron|RRM2B_uc010mbx.1_Intron|RRM2B_uc010mby.1_Intron	NM_015713	NP_056528	Q7LG56	RIR2B_HUMAN	ribonucleotide reductase M2 B (TP53 inducible)	157					deoxyribonucleoside diphosphate metabolic process|DNA repair|nucleobase, nucleoside and nucleotide interconversion	nucleoplasm	ribonucleoside-diphosphate reductase activity|transition metal ion binding			ovary(2)	2	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000728)			TTCAATTGCATTAAATAAAAA	0.259								Direct_reversal_of_damage|Modulation_of_nucleotide_pools					29	211					0	0	1	0	0		C	103236354	C	C	103236354	3	2	27	1	0	0	0	0	1	0	0	0	13708	1493	52	3	605	3	RRM2B	8	103236354	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	646678	103236354	43127668	4120	26471											
ODF1	4956	broad.mit.edu	37	chr8	103564230	103564230	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctctcagaagtttggagaGgaaagccatcagagccatag	14	8	11	8	0	3	3	2	0	1	3	4	5	3	4	2	2	2	1	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:103564230G>T	uc003ykt.2	+	1	383	c.275G>T	c.(274-276)AGG>ATG	p.R92M		NM_024410	NP_077721	Q14990	ODFP1_HUMAN	outer dense fiber of sperm tails 1	92					cell differentiation|multicellular organismal development|spermatogenesis	outer dense fiber	structural molecule activity			ovary(2)	2	all_cancers(14;2.76e-05)|all_epithelial(15;4.54e-08)|Lung NSC(17;4.08e-05)|all_lung(17;9.15e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000125)|STAD - Stomach adenocarcinoma(118;0.0826)			AGTTTGGAGAGGAAAGCCATC	0.413													32	172					1.08312e-15	1.20991e-15	1	1	0		T	103564230	T	T	103564230	3	4	27	1	0	0	0	0	1	0	0	0	10845	1000	35	5	277	5	ODF1	8	103564230	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	327876	103564230	42799792	4121	26472											
ATP6V1C1	528	broad.mit.edu	37	chr8	104078589	104078589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccaagcaatgctacttcagCccaataagaaaactttgaag	16	9	6	10	0	1	2	1	1	0	1	2	2	2	2	2	0	5	2	2	0	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:104078589C>T	uc003ykz.3	+	12	1212	c.967C>T	c.(967-969)CCC>TCC	p.P323S	ATP6V1C1_uc010mbz.2_Missense_Mutation_p.P248S|ATP6V1C1_uc003yla.2_Missense_Mutation_p.P323S|ATP6V1C1_uc011lhl.1_Missense_Mutation_p.P248S	NM_001695	NP_001686	P21283	VATC1_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit	323					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|plasma membrane|proton-transporting V-type ATPase, V1 domain	protein binding|proton-transporting ATPase activity, rotational mechanism				0	Lung NSC(17;0.000427)|all_lung(17;0.000533)		OV - Ovarian serous cystadenocarcinoma(57;3.57e-05)|STAD - Stomach adenocarcinoma(118;0.133)			GCTACTTCAGCCCAATAAGAA	0.343													5	85					0	0	1	0	0		T	104078589	T	T	104078589	3	4	27	1	0	0	0	0	1	0	0	0	1181	739	26	2	1009	2	ATP6V1C1	8	104078589	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	514359	104078589	42285433	4122	26473											
DCAF13	25879	broad.mit.edu	37	chr8	104452374	104452374	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttctatagggaggtatatCatacaaagagaatgcaacat	16	12	8	5	0	2	1	1	0	1	1	2	3	2	2	0	2	3	2	0	2	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:104452374C>G	uc003yln.2	+	9	1694	c.1417C>G	c.(1417-1419)CAT>GAT	p.H473D	DCAF13_uc003ylm.1_Missense_Mutation_p.H206D|DCAF13_uc003ylo.2_Missense_Mutation_p.H184D	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	321					rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						GGAGGTATATCATACAAAGAG	0.353													7	143					0	0	1	0	0		G	104452374	G	G	104452374	3	3	27	1	0	0	0	0	1	0	0	0	4269	826	29	5	1451	5	DCAF13	8	104452374	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	373785	104452374	41911648	4123	26474											
DCAF13	25879	broad.mit.edu	37	chr8	104452496	104452496	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcttctgaaaaattgggTgtggtaagagaattcatttt	13	15	10	3	0	2	2	1	1	1	1	2	3	2	2	0	2	1	2	0	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:104452496T>C	uc003yln.2	+	9	1816	c.1539T>C	c.(1537-1539)GGT>GGC	p.G513G	DCAF13_uc003ylm.1_Silent_p.G246G|DCAF13_uc003ylo.2_Silent_p.G224G	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	361	WD 7.				rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						AAAAATTGGGTGTGGTAAGAG	0.299													7	149					0	0	1	0	0		C	104452496	C	C	104452496	2	2	27	1	0	0	0	0	0	0	0	1	4269	1683	59	3		3	DCAF13	8	104452496	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	122	104452496	41911526	4124	26475											
RIMS2	9699	broad.mit.edu	37	chr8	104898191	104898191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggcgtactgactcactacGgaaacagcaccacttagatc	13	7	9	12	2	1	2	1	1	0	1	2	4	1	3	1	2	4	2	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:104898191G>A	uc003yls.2	+	2	939	c.698G>A	c.(697-699)CGG>CAG	p.R233Q	RIMS2_uc003ylp.2_Missense_Mutation_p.R455Q|RIMS2_uc003ylw.2_Missense_Mutation_p.R263Q|RIMS2_uc003ylq.2_Missense_Mutation_p.R263Q|RIMS2_uc003ylr.2_Missense_Mutation_p.R263Q	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	486					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GACTCACTACGGAAACAGCAC	0.448										HNSCC(12;0.0054)			14	78					0	0	1	0	0		A	104898191	A	A	104898191	3	1	27	1	0	0	0	0	1	0	0	0	13393	1116	39	1	1504	1	RIMS2	8	104898191	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	445695	104898191	41465831	4125	26476											
RIMS2	9699	broad.mit.edu	37	chr8	104955055	104955055	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgagccacattggtacaaaCttcagacgcatgatgtctct	12	11	8	10	1	2	3	1	2	1	1	3	3	2	3	1	1	3	2	1	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:104955055C>A	uc003yls.2	+	12	2177	c.1936C>A	c.(1936-1938)CTT>ATT	p.L646I	RIMS2_uc003ylp.2_Missense_Mutation_p.L868I|RIMS2_uc003ylw.2_Missense_Mutation_p.L660I|RIMS2_uc003ylq.2_Missense_Mutation_p.L660I|RIMS2_uc003ylr.2_Missense_Mutation_p.L707I|RIMS2_uc003ylt.2_Missense_Mutation_p.L253I	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	930					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TTGGTACAAACTTCAGACGCA	0.413										HNSCC(12;0.0054)			5	64					0.000602214	0.000630257	1	1	0		A	104955055	A	A	104955055	3	1	27	1	0	0	0	0	1	0	0	0	13393	565	20	5	2782	5	RIMS2	8	104955055	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	56864	104955055	41408967	4126	26477											
TM7SF4	81501	broad.mit.edu	37	chr8	105361020	105361020	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctccaagcatgcacgatgTtttattcttcttgtctttct	6	19	6	10	1	4	0	0	0	4	0	5	1	5	0	1	0	3	4	1	0	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:105361020T>C	uc003ylx.1	+	2	289	c.240T>C	c.(238-240)TGT>TGC	p.C80C		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	80					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			ATGCACGATGTTTTATTCTTC	0.507													17	116					0	0	1	0	0		C	105361020	C	C	105361020	2	2	27	1	0	0	0	0	0	0	0	1	16001	1731	60	3		3	TM7SF4	8	105361020	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	405965	105361020	41003002	4127	26478											
DPYS	1807	broad.mit.edu	37	chr8	105405147	105405147	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaaatagtcacaaggggCaccccgtggcaaaccatgcc	12	6	10	13	1	1	1	1	1	0	0	1	1	1	1	4	3	2	2	4	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:105405147C>T	uc003yly.3	-	8	1437	c.1308G>A	c.(1306-1308)GTG>GTA	p.V436V	DPYS_uc010mcf.1_Silent_p.V6V	NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	436					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			TCACAAGGGGCACCCCGTGGC	0.433													5	188					0	0	1	0	0		T	105405147	T	T	105405147	2	4	27	1	0	0	0	0	0	0	0	1	4752	697	25	2		2	DPYS	8	105405147	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	44127	105405147	40958875	4128	26479											
LRP12	29967	broad.mit.edu	37	chr8	105521172	105521172	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaggtagaattaccttatAgtaatgatttcgcctgggtt	12	14	10	5	1	0	2	0	1	0	1	1	3	0	2	2	2	1	3	2	2	7	7	rs146591291		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:105521172A>G	uc003yma.2	-	3	362	c.267T>C	c.(265-267)ACT>ACC	p.T89T	LRP12_uc003ymb.2_Silent_p.T70T|LRP12_uc003ymc.3_Silent_p.T70T	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	89	Extracellular (Potential).|CUB 1.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			ATTACCTTATAGTAATGATTT	0.328													21	106					0	0	1	0	0		G	105521172	G	G	105521172	2	3	27	1	0	0	0	0	0	0	0	1	8972	407	15	3		3	LRP12	8	105521172	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	116025	105521172	40842850	4129	26480											
LRP12	29967	broad.mit.edu	37	chr8	105521252	105521252	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagaaggccagcctgggcTtgtgattatgccacttggtg	7	12	13	9	0	1	2	1	1	0	1	1	2	1	2	3	3	2	1	3	3	2	4	rs113326704		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:105521252T>G	uc003yma.2	-	3	282	c.187A>C	c.(187-189)AGC>CGC	p.S63R	LRP12_uc003ymb.2_Missense_Mutation_p.S44R|LRP12_uc003ymc.3_Missense_Mutation_p.S44R	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	63	Extracellular (Potential).|CUB 1.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CAGCCTGGGCTTGTGATTATG	0.418													11	168					0	0	1	0	0		G	105521252	G	G	105521252	3	3	27	1	0	0	0	0	1	0	0	0	8972	1609	56	5	2412	5	LRP12	8	105521252	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	80	105521252	40842770	4130	26481											
RSPO2	340419	broad.mit.edu	37	chr8	109001322	109001322	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggggctcggtgtccatagTacccggatgggcaggaatgc	7	8	16	10	2	0	0	0	0	0	0	2	2	1	2	2	6	2	3	2	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:109001322T>C	uc003yms.2	-	3	903	c.245A>G	c.(244-246)TAC>TGC	p.Y82C	RSPO2_uc003ymq.2_Missense_Mutation_p.Y15C|RSPO2_uc003ymr.2_Intron	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	82					Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			GTGTCCATAGTACCCGGATGG	0.488													4	100					0	0	1	0	0		C	109001322	C	C	109001322	3	2	27	1	0	0	0	0	1	0	0	0	13735	1638	57	3	502	3	RSPO2	8	109001322	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3480070	109001322	37362700	4131	26482											
TMEM74	157753	broad.mit.edu	37	chr8	109796640	109796640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagccccgcaatcacacagcGgtccaggtgagcccccagcc	9	3	11	18	2	1	1	1	1	0	0	2	2	2	1	6	2	4	1	6	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:109796640G>A	uc003ymy.1	-	2	793	c.688C>T	c.(688-690)CGC>TGC	p.R230C	TMEM74_uc003ymx.2_Intron	NM_153015	NP_694560	Q96NL1	TMM74_HUMAN	transmembrane protein 74	230					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(57;3.08e-10)			ATCACACAGCGGTCCAGGTGA	0.622													4	77					0	0	1	0	0		A	109796640	A	A	109796640	3	1	27	1	0	0	0	0	1	0	0	0	16227	1116	39	1	233	1	TMEM74	8	109796640	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	795318	109796640	36567382	4132	26483											
TMEM74	157753	broad.mit.edu	37	chr8	109796927	109796927	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccaagctccccagggtgaTtatgcccttttgctgatggc	7	11	11	12	0	0	2	0	2	0	0	1	2	1	2	4	2	4	2	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:109796927T>C	uc003ymy.1	-	2	506	c.401A>G	c.(400-402)AAT>AGT	p.N134S	TMEM74_uc003ymx.2_Intron	NM_153015	NP_694560	Q96NL1	TMM74_HUMAN	transmembrane protein 74	134					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(57;3.08e-10)			CCCAGGGTGATTATGCCCTTT	0.478													22	161					0	0	1	0	0		C	109796927	C	C	109796927	3	2	27	1	0	0	0	0	1	0	0	0	16227	1493	52	3	520	3	TMEM74	8	109796927	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	287	109796927	36567095	4133	26484											
ENY2	56943	broad.mit.edu	37	chr8	110351554	110351554	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctgtttcaacagcctcaAagagttgctgagagctaaat	12	12	8	9	0	3	2	2	1	1	2	3	3	3	2	1	0	4	4	1	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:110351554A>G	uc003ynd.2	+	3	151	c.89A>G	c.(88-90)AAA>AGA	p.K30R	ENY2_uc003ync.2_Missense_Mutation_p.K25R	NM_020189	NP_064574	Q9NPA8	ENY2_HUMAN	enhancer of yellow 2 homolog	30					histone deubiquitination|mRNA transport|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity				0	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;9.05e-13)			AACAGCCTCAAAGAGTTGCTG	0.353													5	108					0	0	1	0	0		G	110351554	G	G	110351554	3	3	27	1	0	0	0	0	1	0	0	0	5154	14	1	3	99	3	ENY2	8	110351554	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	554627	110351554	36012468	4134	26485											
PKHD1L1	93035	broad.mit.edu	37	chr8	110471910	110471910	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actaagtaacccactaaattAcacacacttaggaattacgg	17	9	5	10	1	0	0	0	0	0	0	0	1	0	1	1	2	3	1	1	2	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:110471910A>G	uc003yne.2	+	47	7195	c.7091A>G	c.(7090-7092)TAC>TGC	p.Y2364C		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2364	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CCACTAAATTACACACACTTA	0.363										HNSCC(38;0.096)			6	42					0	0	1	0	0		G	110471910	G	G	110471910	3	3	27	1	0	0	0	0	1	0	0	0	11991	391	14	3	7277	3	PKHD1L1	8	110471910	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	120356	110471910	35892112	4135	26486											
PKHD1L1	93035	broad.mit.edu	37	chr8	110509267	110509267	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaaggatttaccatttggAcatgctgggattatggaatt	12	14	10	5	0	0	0	0	0	0	0	0	4	0	4	1	4	3	1	1	4	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:110509267A>G	uc003yne.2	+	64	10551	c.10447A>G	c.(10447-10449)ACA>GCA	p.T3483A		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3483	PbH1 8.|Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TACCATTTGGACATGCTGGGA	0.338										HNSCC(38;0.096)			5	166					0	0	1	0	0		G	110509267	G	G	110509267	3	3	27	1	0	0	0	0	1	0	0	0	11991	275	10	3	10701	3	PKHD1L1	8	110509267	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37357	110509267	35854755	4136	26487											
PKHD1L1	93035	broad.mit.edu	37	chr8	110535613	110535613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaccttactccccttagaaCaggtgggtgcactattttgg	9	12	10	10	0	0	2	0	0	0	2	1	2	1	2	3	3	3	1	3	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:110535613C>T	uc003yne.2	+	76	12586	c.12482C>T	c.(12481-12483)ACA>ATA	p.T4161I		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	4161	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CCCCTTAGAACAGGTGGGTGC	0.388										HNSCC(38;0.096)			10	173					0	0	1	0	0		T	110535613	T	T	110535613	3	4	27	1	0	0	0	0	1	0	0	0	11991	478	17	4	12784	4	PKHD1L1	8	110535613	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	26346	110535613	35828409	4137	26488											
SYBU	55638	broad.mit.edu	37	chr8	110587443	110587443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttctgcatccacattggCgtagggggtctccacgggag	8	9	13	11	2	2	0	0	0	2	0	4	1	3	1	2	4	2	2	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:110587443C>T	uc003ynj.3	-	7	1847	c.1684G>A	c.(1684-1686)GCC>ACC	p.A562T	SYBU_uc003yni.3_Missense_Mutation_p.A559T|SYBU_uc003ynk.3_Missense_Mutation_p.A443T|SYBU_uc010mco.2_Missense_Mutation_p.A561T|SYBU_uc003ynl.3_Missense_Mutation_p.A561T|SYBU_uc010mcp.2_Missense_Mutation_p.A562T|SYBU_uc010mcq.2_Missense_Mutation_p.A562T|SYBU_uc003yno.3_Missense_Mutation_p.A443T|SYBU_uc010mcr.2_Missense_Mutation_p.A562T|SYBU_uc003ynm.3_Missense_Mutation_p.A561T|SYBU_uc003ynn.3_Missense_Mutation_p.A561T|SYBU_uc010mcs.2_Missense_Mutation_p.A443T|SYBU_uc010mct.2_Missense_Mutation_p.A562T|SYBU_uc010mcu.2_Missense_Mutation_p.A561T|SYBU_uc003ynp.3_Missense_Mutation_p.A494T|SYBU_uc010mcv.2_Missense_Mutation_p.A562T|SYBU_uc003ynh.3_Missense_Mutation_p.A356T|SYBU_uc011lhw.1_Missense_Mutation_p.A432T	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	562						cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						TCCACATTGGCGTAGGGGGTC	0.527													14	95					0	0	1	0	0		T	110587443	T	T	110587443	3	4	27	1	0	0	0	0	1	0	0	0	15452	768	27	1	311	1	SYBU	8	110587443	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	51830	110587443	35776579	4138	26489											
SYBU	55638	broad.mit.edu	37	chr8	110588041	110588041	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttcttgttttggatgttTatgtccacaaaatatttctg	9	19	7	6	0	2	0	0	0	2	0	3	1	3	1	1	1	1	3	1	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:110588041T>C	uc003ynj.3	-	7	1249	c.1086A>G	c.(1084-1086)ATA>ATG	p.I362M	SYBU_uc003yni.3_Missense_Mutation_p.I359M|SYBU_uc003ynk.3_Missense_Mutation_p.I243M|SYBU_uc010mco.2_Missense_Mutation_p.I361M|SYBU_uc003ynl.3_Missense_Mutation_p.I361M|SYBU_uc010mcp.2_Missense_Mutation_p.I362M|SYBU_uc010mcq.2_Missense_Mutation_p.I362M|SYBU_uc003yno.3_Missense_Mutation_p.I243M|SYBU_uc010mcr.2_Missense_Mutation_p.I362M|SYBU_uc003ynm.3_Missense_Mutation_p.I361M|SYBU_uc003ynn.3_Missense_Mutation_p.I361M|SYBU_uc010mcs.2_Missense_Mutation_p.I243M|SYBU_uc010mct.2_Missense_Mutation_p.I362M|SYBU_uc010mcu.2_Missense_Mutation_p.I361M|SYBU_uc003ynp.3_Missense_Mutation_p.I294M|SYBU_uc010mcv.2_Missense_Mutation_p.I362M|SYBU_uc003ynh.3_Missense_Mutation_p.I156M|SYBU_uc011lhw.1_Missense_Mutation_p.I232M	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	362	Sufficient for interaction with STX1A.|Sufficient for interaction with KIF5B.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						TTTGGATGTTTATGTCCACAA	0.448													7	127					0	0	1	0	0		C	110588041	C	C	110588041	3	2	27	1	0	0	0	0	1	0	0	0	15452	1744	61	3	909	3	SYBU	8	110588041	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	598	110588041	35775981	4139	26490											
SYBU	55638	broad.mit.edu	37	chr8	110588192	110588192	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacactcctcctcaatccagTcctctcgcatgcgggccagc	7	8	8	18	2	2	0	1	0	1	0	7	1	6	0	5	1	2	1	5	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:110588192T>A	uc003ynj.3	-	7	1098	c.935A>T	c.(934-936)GAC>GTC	p.D312V	SYBU_uc003yni.3_Missense_Mutation_p.D309V|SYBU_uc003ynk.3_Missense_Mutation_p.D193V|SYBU_uc010mco.2_Missense_Mutation_p.D311V|SYBU_uc003ynl.3_Missense_Mutation_p.D311V|SYBU_uc010mcp.2_Missense_Mutation_p.D312V|SYBU_uc010mcq.2_Missense_Mutation_p.D312V|SYBU_uc003yno.3_Missense_Mutation_p.D193V|SYBU_uc010mcr.2_Missense_Mutation_p.D312V|SYBU_uc003ynm.3_Missense_Mutation_p.D311V|SYBU_uc003ynn.3_Missense_Mutation_p.D311V|SYBU_uc010mcs.2_Missense_Mutation_p.D193V|SYBU_uc010mct.2_Missense_Mutation_p.D312V|SYBU_uc010mcu.2_Missense_Mutation_p.D311V|SYBU_uc003ynp.3_Missense_Mutation_p.D244V|SYBU_uc010mcv.2_Missense_Mutation_p.D312V|SYBU_uc003ynh.3_Missense_Mutation_p.D106V|SYBU_uc011lhw.1_Missense_Mutation_p.D182V	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	312	Sufficient for interaction with STX1A.|Potential.|Sufficient for interaction with KIF5B.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						CTCAATCCAGTCCTCTCGCAT	0.463													7	126					0	0	1	0	0		A	110588192	A	A	110588192	3	1	27	1	0	0	0	0	1	0	0	0	15452	1667	58	5	1060	5	SYBU	8	110588192	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	151	110588192	35775830	4140	26491											
KCNV1	27012	broad.mit.edu	37	chr8	110980549	110980549	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcgatcgttaataatagcaAtaggcaaggccaagacaaga	18	6	10	7	2	0	2	0	0	0	2	1	3	0	2	1	2	2	3	1	2	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:110980549A>T	uc003ynr.3	-	3	1613	c.1271T>A	c.(1270-1272)ATT>AAT	p.I424N	KCNV1_uc010mcw.2_Missense_Mutation_p.I424N	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	424	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			AATAATAGCAATAGGCAAGGC	0.448													5	167					0	0	1	0	0		T	110980549	T	T	110980549	3	4	27	1	0	0	0	0	1	0	0	0	8110	101	4	5	235	5	KCNV1	8	110980549	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	392357	110980549	35383473	4141	26492											
KCNV1	27012	broad.mit.edu	37	chr8	110984530	110984530	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatgcgcagagccctgagCagcctcaacacctggacaat	12	5	10	14	1	1	2	1	1	0	1	1	3	1	3	3	1	6	3	3	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:110984530C>T	uc003ynr.3	-	2	1290	c.948G>A	c.(946-948)CTG>CTA	p.L316L	KCNV1_uc010mcw.2_Silent_p.L316L	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	316	Helical; Voltage-sensor; Name=Segment S4; (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			GAGCCCTGAGCAGCCTCAACA	0.507													9	67					0	0	1	0	0		T	110984530	T	T	110984530	2	4	27	1	0	0	0	0	0	0	0	1	8110	697	25	2		2	KCNV1	8	110984530	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3981	110984530	35379492	4142	26493											
CSMD3	114788	broad.mit.edu	37	chr8	113241000	113241000	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacctttgtttataaagaTaaaatccaaatcctgcaaat	16	14	3	8	0	0	1	0	0	0	1	2	1	2	1	3	0	2	2	3	0	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:113241000T>G	uc003ynu.2	-	70	11108	c.10949A>C	c.(10948-10950)TAT>TCT	p.Y3650S	CSMD3_uc003yns.2_Missense_Mutation_p.Y2852S|CSMD3_uc003ynt.2_Missense_Mutation_p.Y3610S|CSMD3_uc011lhx.1_Missense_Mutation_p.Y3481S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3650	Helical; (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TTTATAAAGATAAAATCCAAA	0.299										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			5	94					0	0	1	0	0		G	113241000	G	G	113241000	3	3	27	1	0	0	0	0	1	0	0	0	3949	1406	49	5	182	5	CSMD3	8	113241000	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2256470	113241000	33123022	4143	26494											
CSMD3	114788	broad.mit.edu	37	chr8	113256732	113256732	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caggtataaatcagtgtataCccatgagatggaaggtccat	14	10	10	7	0	1	1	1	1	0	1	2	3	2	2	2	3	1	2	2	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:113256732C>T	uc003ynu.2	-	65	10452	c.10293G>A	c.(10291-10293)GGG>GGA	p.G3431G	CSMD3_uc003yns.2_Silent_p.G2633G|CSMD3_uc003ynt.2_Silent_p.G3391G|CSMD3_uc011lhx.1_Silent_p.G3262G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3431	Extracellular (Potential).|Sushi 28.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TCAGTGTATACCCATGAGATG	0.433										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			8	84					0	0	1	0	0		T	113256732	T	T	113256732	2	4	27	1	0	0	0	0	0	0	0	1	3949	494	18	4		4	CSMD3	8	113256732	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15732	113256732	33107290	4144	26495											
CSMD3	114788	broad.mit.edu	37	chr8	113308208	113308208	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgacttgaccattcacaAtcagttctggaattccacaa	14	11	5	11	0	3	2	2	2	1	0	4	3	4	3	2	1	0	1	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:113308208A>T	uc003ynu.2	-	54	8627	c.8468T>A	c.(8467-8469)ATT>AAT	p.I2823N	CSMD3_uc003yns.2_Missense_Mutation_p.I2025N|CSMD3_uc003ynt.2_Missense_Mutation_p.I2783N|CSMD3_uc011lhx.1_Missense_Mutation_p.I2654N	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2823	Extracellular (Potential).|Sushi 18.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ACCATTCACAATCAGTTCTGG	0.313										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			6	58					0	0	1	0	0		T	113308208	T	T	113308208	3	4	27	1	0	0	0	0	1	0	0	0	3949	101	4	5	2727	5	CSMD3	8	113308208	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	51476	113308208	33055814	4145	26496											
CSMD3	114788	broad.mit.edu	37	chr8	113353786	113353786	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtttcatgggtggtgctgAataaggaagatggtatttga	10	14	15	2	0	1	3	1	2	0	1	1	4	1	4	0	5	1	3	0	5	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:113353786A>G	uc003ynu.2	-	42	6731	c.6572T>C	c.(6571-6573)TTC>TCC	p.F2191S	CSMD3_uc003yns.2_Missense_Mutation_p.F1393S|CSMD3_uc003ynt.2_Missense_Mutation_p.F2151S|CSMD3_uc011lhx.1_Missense_Mutation_p.F2087S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2191	Extracellular (Potential).|CUB 12.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GGTGGTGCTGAATAAGGAAGA	0.363										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			8	111					0	0	1	0	0		G	113353786	G	G	113353786	3	3	27	1	0	0	0	0	1	0	0	0	3949	246	9	3	4671	3	CSMD3	8	113353786	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	45578	113353786	33010236	4146	26497											
TRPS1	7227	broad.mit.edu	37	chr8	116426319	116426319	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcccctctggatatgtgTtgtgaagtcatatttgtccg	7	14	11	9	1	2	1	1	1	1	0	3	2	3	2	3	2	0	1	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:116426319T>C	uc003ynz.2	-	6	4237	c.3778A>G	c.(3778-3780)ACA>GCA	p.T1260A	TRPS1_uc011lhy.1_Missense_Mutation_p.T1264A|TRPS1_uc003yny.2_Missense_Mutation_p.T1273A|TRPS1_uc010mcy.2_Missense_Mutation_p.T1260A	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1260	C2H2-type 7.|Transcriptional repressor domain (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TGGATATGTGTTGTGAAGTCA	0.408									Langer-Giedion_syndrome				7	195					0	0	1	0	0		C	116426319	C	C	116426319	3	2	27	1	0	0	0	0	1	0	0	0	16619	1725	60	3	71	3	TRPS1	8	116426319	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3072533	116426319	29937703	4147	26498											
TRPS1	7227	broad.mit.edu	37	chr8	116599390	116599390	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgccagatgggcggcctcCacattgggactatcccttag	7	8	12	14	3	0	1	0	0	0	1	2	2	2	2	4	3	0	0	4	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:116599390C>T	uc003ynz.2	-	4	2958	c.2499G>A	c.(2497-2499)GTG>GTA	p.V833V	TRPS1_uc011lhy.1_Silent_p.V837V|TRPS1_uc003yny.2_Silent_p.V846V|TRPS1_uc010mcy.2_Silent_p.V833V	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	833					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GGGCGGCCTCCACATTGGGAC	0.617									Langer-Giedion_syndrome				7	136					0	0	1	0	0		T	116599390	T	T	116599390	2	4	27	1	0	0	0	0	0	0	0	1	16619	581	21	4		4	TRPS1	8	116599390	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	173071	116599390	29764632	4148	26499											
TRPS1	7227	broad.mit.edu	37	chr8	116631923	116631923	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggagacttcaagggctcacaGactcccccagcagctggaga	11	5	12	13	0	2	3	2	0	0	3	3	5	3	3	2	3	2	3	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:116631923G>A	uc003ynz.2	-	2	822	c.363C>T	c.(361-363)GTC>GTT	p.V121V	TRPS1_uc011lhy.1_Silent_p.V125V|TRPS1_uc003yny.2_Silent_p.V134V|TRPS1_uc010mcy.2_Silent_p.V121V	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	121					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			AGGGCTCACAGACTCCCCCAG	0.527									Langer-Giedion_syndrome				8	117					0	0	1	0	0		A	116631923	A	A	116631923	2	1	27	1	0	0	0	0	0	0	0	1	16619	929	33	4		4	TRPS1	8	116631923	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	32533	116631923	29732099	4149	26500											
EIF3H	8667	broad.mit.edu	37	chr8	117658772	117658772	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgaagagtttggacaggTcctcctcagggagcgggggt	7	10	17	7	1	1	2	1	1	0	1	3	4	3	4	2	5	1	2	2	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:117658772T>A	uc003yoa.2	-	7	925	c.899A>T	c.(898-900)GAC>GTC	p.D300V	EIF3H_uc003yob.2_Missense_Mutation_p.D314V	NM_003756	NP_003747	O15372	EIF3H_HUMAN	eukaryotic translation initiation factor 3,	300					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(3)	3	all_cancers(13;3.98e-22)|Lung NSC(37;0.000183)|Ovarian(258;0.0172)					TTTGGACAGGTCCTCCTCAGG	0.537													22	248					0	0	1	0	0		A	117658772	A	A	117658772	3	1	27	1	0	0	0	0	1	0	0	0	5026	1667	58	5	167	5	EIF3H	8	117658772	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1026849	117658772	28705250	4150	26501											
C8orf85	441376	broad.mit.edu	37	chr8	117950578	117950578	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttggttcccacctcgtccCgcgtgcgacttcttcgggga	3	12	11	15	5	1	0	0	0	1	0	5	2	3	1	3	3	1	1	3	3	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:117950578C>T	uc003yof.2	+	1	115	c.96C>T	c.(94-96)CCC>CCT	p.P32P		NM_001025357	NP_001020528	Q4LEZ3	AARD_HUMAN	alanine and arginine-rich domain-containing	32											0						CACCTCGTCCCGCGTGCGACT	0.697													5	30					0	0	1	0	0		T	117950578	T	T	117950578	2	4	27	1	0	0	0	0	0	0	0	1	2444	639	23	1		1	C8orf85	8	117950578	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	291806	117950578	28413444	4151	26502											
COLEC10	10584	broad.mit.edu	37	chr8	120079598	120079598	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttttgcaaattcagagtctGggtctggatattgatagccg	9	14	11	7	1	3	2	1	1	2	1	3	3	3	3	1	2	2	1	1	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:120079598G>A	uc003yoo.2	+	1	175	c.78G>A	c.(76-78)CTG>CTA	p.L26L		NM_006438	NP_006429	Q9Y6Z7	COL10_HUMAN	collectin sub-family member 10 precursor	26						collagen|cytoplasm	mannose binding			ovary(2)|skin(1)	3	all_cancers(13;4.13e-26)|Lung NSC(37;1.36e-07)|Ovarian(258;0.018)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00113)			TTCAGAGTCTGGGTCTGGATA	0.438													4	86					0	0	1	0	0		A	120079598	A	A	120079598	2	1	27	1	0	0	0	0	0	0	0	1	3713	1335	47	4		4	COLEC10	8	120079598	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2129020	120079598	26284424	4152	26503											
NOV	4856	broad.mit.edu	37	chr8	120431371	120431371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttatttatacatcccatagCttacaggccagaagccaccc	12	11	5	13	0	0	1	0	0	0	1	1	1	1	1	4	1	4	1	4	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:120431371C>T	uc003yoq.2	+	4	784	c.563C>T	c.(562-564)GCT>GTT	p.A188V		NM_002514	NP_002505	P48745	NOV_HUMAN	nephroblastoma overexpressed precursor	188					regulation of cell growth		growth factor activity|insulin-like growth factor binding			ovary(2)|skin(2)|kidney(1)	5	all_cancers(13;3.84e-26)|Lung NSC(37;1.19e-08)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000507)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CATCCCATAGCTTACAGGCCA	0.453													7	84					0	0	1	0	0		T	120431371	T	T	120431371	3	4	27	1	0	0	0	0	1	0	0	0	10572	811	28	2	577	2	NOV	8	120431371	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	351773	120431371	25932651	4153	26504											
NOV	4856	broad.mit.edu	37	chr8	120431495	120431495	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttctccacccgggtcacCaataggaaccgtcaatgtga	10	8	11	12	2	3	1	2	1	1	0	4	2	3	2	4	3	1	1	4	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:120431495C>T	uc003yoq.2	+	4	908	c.687C>T	c.(685-687)ACC>ACT	p.T229T		NM_002514	NP_002505	P48745	NOV_HUMAN	nephroblastoma overexpressed precursor	229	TSP type-1.				regulation of cell growth		growth factor activity|insulin-like growth factor binding			ovary(2)|skin(2)|kidney(1)	5	all_cancers(13;3.84e-26)|Lung NSC(37;1.19e-08)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000507)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CCCGGGTCACCAATAGGAACC	0.532													9	172					0	0	1	0	0		T	120431495	T	T	120431495	2	4	27	1	0	0	0	0	0	0	0	1	10572	581	21	4		4	NOV	8	120431495	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	124	120431495	25932527	4154	26505											
NOV	4856	broad.mit.edu	37	chr8	120435193	120435193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggtctgcagtgatggcCgctgctgcactccccacaat	6	9	13	13	1	1	1	0	1	1	0	2	1	2	1	3	3	3	4	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:120435193C>T	uc003yoq.2	+	5	1116	c.895C>T	c.(895-897)CGC>TGC	p.R299C		NM_002514	NP_002505	P48745	NOV_HUMAN	nephroblastoma overexpressed precursor	299	CTCK.				regulation of cell growth		growth factor activity|insulin-like growth factor binding			ovary(2)|skin(2)|kidney(1)	5	all_cancers(13;3.84e-26)|Lung NSC(37;1.19e-08)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000507)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CAGTGATGGCCGCTGCTGCAC	0.557													7	170					0	0	1	0	0		T	120435193	T	T	120435193	3	4	27	1	0	0	0	0	1	0	0	0	10572	652	23	1	913	1	NOV	8	120435193	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3698	120435193	25928829	4155	26506											
TAF2	6873	broad.mit.edu	37	chr8	120809250	120809250	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagacattctagatatgaaAcaaccaaaaaactgctgggc	18	7	7	9	0	1	3	0	1	1	2	1	3	1	3	1	1	4	1	1	1	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:120809250A>G	uc003you.2	-	8	1341	c.1071T>C	c.(1069-1071)TGT>TGC	p.C357C		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	357					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TAGATATGAAACAACCAAAAA	0.378													6	118					0	0	1	0	0		G	120809250	G	G	120809250	2	3	27	1	0	0	0	0	0	0	0	1	15549	41	2	3		3	TAF2	8	120809250	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	374057	120809250	25554772	4156	26507											
DSCC1	79075	broad.mit.edu	37	chr8	120847196	120847196	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatcgaagaatgagaataTttagtgagtaatgcacctat	15	12	9	5	1	0	3	0	2	0	2	1	5	0	3	1	0	2	3	1	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:120847196T>A	uc003yov.2	-	9	1254	c.1119A>T	c.(1117-1119)AAA>AAT	p.K373N	TAF2_uc003you.2_5'Flank	NM_024094	NP_076999	Q9BVC3	DCC1_HUMAN	defective in sister chromatid cohesion 1	373					DNA replication|maintenance of mitotic sister chromatid cohesion|post-translational protein acetylation|regulation of DNA replication	chromatin|chromosome, centromeric region|nucleoplasm	DNA binding|protein binding			pancreas(1)	1	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			AATGAGAATATTTAGTGAGTA	0.318													7	110					0	0	1	0	0		A	120847196	A	A	120847196	3	1	27	1	0	0	0	0	1	0	0	0	4776	1490	52	5	66	5	DSCC1	8	120847196	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37946	120847196	25516826	4157	26508											
COL14A1	7373	broad.mit.edu	37	chr8	121357685	121357685	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catccatccggactgtccaaGggcctcctggggagcctggg	6	7	14	14	1	0	0	0	0	0	0	4	2	4	2	6	5	1	0	6	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:121357685G>T	uc003yox.2	+	45	5225	c.4960G>T	c.(4960-4962)GGG>TGG	p.G1654W	COL14A1_uc003yoz.2_Missense_Mutation_p.G619W	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	1654	Triple-helical region 2 (COL1).				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			GACTGTCCAAGGGCCTCCTGG	0.612													4	90					0.150653	0.151846	1	1	0		T	121357685	T	T	121357685	3	4	27	1	0	0	0	0	1	0	0	0	3674	1000	35	5	5134	5	COL14A1	8	121357685	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	510489	121357685	25006337	4158	26509											
MTBP	27085	broad.mit.edu	37	chr8	121519098	121519098	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaacctttaccgattcaaaAggggtaggttataaacttat	14	13	7	7	1	2	0	2	0	0	0	2	1	2	0	2	3	3	2	2	3	9	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:121519098A>G	uc003ypc.1	+	16	1925	c.1880A>G	c.(1879-1881)AAG>AGG	p.K627R		NM_022045	NP_071328	Q96DY7	MTBP_HUMAN	Mdm2, transformed 3T3 cell double minute 2, p53	627	Interaction with MDM2 (By similarity).				cell cycle arrest					skin(2)|ovary(1)	3	Lung NSC(37;5.68e-08)|Ovarian(258;0.00769)|all_neural(195;0.0804)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00503)			CCGATTCAAAAGGGGTAGGTT	0.323													3	82					0	0	1	0	0		G	121519098	G	G	121519098	3	3	27	1	0	0	0	0	1	0	0	0	9930	72	3	3	1942	3	MTBP	8	121519098	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	161413	121519098	24844924	4159	26510											
MTBP	27085	broad.mit.edu	37	chr8	121528287	121528287	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttttccagtacctactgTgttgagccctcttccatctc	7	15	6	13	0	2	1	0	1	2	0	5	1	4	1	4	0	3	3	4	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:121528287T>C	uc003ypc.1	+	18	2147	c.2102T>C	c.(2101-2103)GTG>GCG	p.V701A		NM_022045	NP_071328	Q96DY7	MTBP_HUMAN	Mdm2, transformed 3T3 cell double minute 2, p53	701	Interaction with MDM2 (By similarity).				cell cycle arrest					skin(2)|ovary(1)	3	Lung NSC(37;5.68e-08)|Ovarian(258;0.00769)|all_neural(195;0.0804)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00503)			GTACCTACTGTGTTGAGCCCT	0.433													8	181					0	0	1	0	0		C	121528287	C	C	121528287	3	2	27	1	0	0	0	0	1	0	0	0	9930	1696	59	3	2172	3	MTBP	8	121528287	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9189	121528287	24835735	4160	26511											
SNTB1	6641	broad.mit.edu	37	chr8	121587442	121587442	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaccagggctggtttccaCtgtttcttgctctcccctgg	5	13	9	14	0	2	0	0	0	2	0	4	0	3	0	4	3	2	4	4	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:121587442C>T	uc010mdg.2	-	4	1246	c.1020G>A	c.(1018-1020)CAG>CAA	p.Q340Q	SNTB1_uc003ype.2_Silent_p.Q340Q	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	340	PH 2.				muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			CTGGTTTCCACTGTTTCTTGC	0.488													10	231					0	0	1	0	0		T	121587442	T	T	121587442	2	4	27	1	0	0	0	0	0	0	0	1	14897	564	20	4		4	SNTB1	8	121587442	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	59155	121587442	24776580	4161	26512											
HAS2	3037	broad.mit.edu	37	chr8	122641366	122641366	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggggtttctagggattttTtcatttttcggtgctccaaa	6	18	11	6	1	2	0	1	0	1	0	4	1	3	1	1	4	1	2	1	4	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:122641366T>C	uc003yph.2	-	2	753	c.215A>G	c.(214-216)AAA>AGA	p.K72R		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	72	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			TAGGGATTTTTTCATTTTTCG	0.403													61	305					0	0	1	0	0		C	122641366	C	C	122641366	3	2	27	1	0	0	0	0	1	0	0	0	6978	1841	64	3	1455	3	HAS2	8	122641366	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1053924	122641366	23722656	4162	26513											
WDR67	93594	broad.mit.edu	37	chr8	124153051	124153051	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaatgcgagcagatgcAgatgcctatagacgaaaagt	18	6	11	6	2	0	4	0	0	0	4	0	6	0	4	1	0	4	2	1	0	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:124153051A>G	uc003ypp.1	+	18	2640	c.2550A>G	c.(2548-2550)GCA>GCG	p.A850A	WDR67_uc011lig.1_Silent_p.A819A|WDR67_uc011lih.1_Silent_p.A740A|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Silent_p.A484A|WDR67_uc003ypt.1_Silent_p.A307A|WDR67_uc003ypu.1_Silent_p.A307A	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	850	Potential.					centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			GAGCAGATGCAGATGCCTATA	0.338													10	135					0	0	1	0	0		G	124153051	G	G	124153051	2	3	27	1	0	0	0	0	0	0	0	1	17344	175	7	3		3	WDR67	8	124153051	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1511685	124153051	22210971	4163	26514											
FBXO32	114907	broad.mit.edu	37	chr8	124544137	124544137	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttaggcacttgagacttaCccggaccacgtagttaaatc	11	11	8	11	2	0	1	0	1	0	1	1	3	0	2	2	2	1	3	2	2	5	6	rs111742108		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:124544137C>A	uc003yqr.2	-	4	564	c.372_splice	c.e4+1	p.R124_splice	FBXO32_uc003yqq.2_Intron|FBXO32_uc010mdk.2_Splice_Site_p.R124_splice	NM_058229	NP_478136	Q969P5	FBX32_HUMAN	F-box only protein 32 isoform 1											skin(3)|breast(2)|lung(1)	6	Lung NSC(37;1.13e-13)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TTGAGACTTACCCGGACCACG	0.453													4	123					0.00116845	0.00121513	1	1	0		A	124544137	A	A	124544137	5	1	27	1	0	0	0	0	0	0	1	0	5756	521	18	5	718	5	FBXO32	8	124544137	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	391086	124544137	21819885	4164	26515											
KLHL38	340359	broad.mit.edu	37	chr8	124664667	124664667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttcaggtcggccgatgcgGccacctctgggaaggacgtc	6	7	14	14	4	2	0	1	0	1	0	4	3	2	2	4	5	1	0	4	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:124664667G>A	uc003yqs.1	-	1	524	c.500C>T	c.(499-501)GCC>GTC	p.A167V		NM_001081675	NP_001075144	Q2WGJ6	KLH38_HUMAN	kelch-like 38	167	BACK.										0						GGCCGATGCGGCCACCTCTGG	0.567													14	119					0	0	1	0	0		A	124664667	A	A	124664667	3	1	27	1	0	0	0	0	1	0	0	0	8406	1203	42	2	1257	2	KLHL38	8	124664667	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	120530	124664667	21699355	4165	26516											
FAM91A1	157769	broad.mit.edu	37	chr8	124787521	124787521	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggataacaccattttcatatTatactgggattatggaggtg	12	14	10	5	0	1	0	1	0	0	0	1	3	1	3	1	4	2	0	1	4	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:124787521T>C	uc003yqv.2	+	3	353	c.292T>C	c.(292-294)TAT>CAT	p.Y98H	FAM91A1_uc011lik.1_Missense_Mutation_p.Y98H|FAM91A1_uc011lil.1_5'UTR	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769	98										ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			ATTTTCATATTATACTGGGAT	0.448													8	111					0	0	1	0	0		C	124787521	C	C	124787521	3	2	27	1	0	0	0	0	1	0	0	0	5665	1754	61	3	302	3	FAM91A1	8	124787521	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	122854	124787521	21576501	4166	26517											
FAM91A1	157769	broad.mit.edu	37	chr8	124799566	124799566	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaagcgcatcgcattcctgTttgactccactcttactgcc	7	12	7	15	3	1	1	0	1	1	0	4	2	3	1	3	0	3	3	3	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:124799566T>C	uc003yqv.2	+	13	1205	c.1144T>C	c.(1144-1146)TTT>CTT	p.F382L	FAM91A1_uc011lik.1_Missense_Mutation_p.F382L|FAM91A1_uc011lil.1_Missense_Mutation_p.F140L	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769	382										ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			CGCATTCCTGTTTGACTCCAC	0.383													5	129					0	0	1	0	0		C	124799566	C	C	124799566	3	2	27	1	0	0	0	0	1	0	0	0	5665	1725	60	3	1194	3	FAM91A1	8	124799566	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12045	124799566	21564456	4167	26518											
FER1L6	654463	broad.mit.edu	37	chr8	124992848	124992848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcttggtagaaattgctGtggaaatcctctcaggacgg	11	11	12	7	1	2	1	1	0	2	1	4	4	3	3	1	4	1	2	1	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:124992848G>A	uc003yqw.2	+	11	1413	c.1207G>A	c.(1207-1209)GTG>ATG	p.V403M		NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	403	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			AGAAATTGCTGTGGAAATCCT	0.493											OREG0018964	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	236					0	0	1	0	0		A	124992848	A	A	124992848	3	1	27	1	0	0	0	0	1	0	0	0	5829	1377	48	4	1245	4	FER1L6	8	124992848	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	193282	124992848	21371174	4168	26519											
RNF139	11236	broad.mit.edu	37	chr8	125498225	125498225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctatggtgcctacaacacgtCagcttttggaattgagctgc	9	12	10	10	1	1	1	1	1	0	0	1	2	1	2	1	2	6	2	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:125498225C>T	uc003yrc.2	+	2	678	c.335C>T	c.(334-336)TCA>TTA	p.S112L		NM_007218	NP_009149	Q8WU17	RN139_HUMAN	ring finger protein 139	112					negative regulation of cell proliferation|regulation of protein ubiquitination	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			TACAACACGTCAGCTTTTGGA	0.433									Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				8	130					0	0	1	0	0		T	125498225	T	T	125498225	3	4	27	1	0	0	0	0	1	0	0	0	13467	838	29	4	341	4	RNF139	8	125498225	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	505377	125498225	20865797	4169	26520											
MTSS1	9788	broad.mit.edu	37	chr8	125565432	125565432	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcagcttcactttctggaAttgcctgtctgtgctcctca	5	16	7	13	0	5	0	3	0	2	0	6	1	6	1	2	1	3	2	2	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:125565432A>T	uc003yrk.2	-	14	2603	c.2069T>A	c.(2068-2070)ATT>AAT	p.I690N	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_Missense_Mutation_p.I339N|MTSS1_uc011lin.1_Missense_Mutation_p.I464N|MTSS1_uc011lio.1_Missense_Mutation_p.I580N|MTSS1_uc003yri.2_Missense_Mutation_p.I408N|MTSS1_uc003yrj.2_Missense_Mutation_p.I665N|MTSS1_uc003yrl.2_Missense_Mutation_p.I694N	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	690	Pro-rich.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			ACTTTCTGGAATTGCCTGTCT	0.592													19	326					0	0	1	0	0		T	125565432	T	T	125565432	3	4	27	1	0	0	0	0	1	0	0	0	9980	101	4	5	202	5	MTSS1	8	125565432	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	67207	125565432	20798590	4170	26521											
SQLE	6713	broad.mit.edu	37	chr8	126021568	126021568	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaatacatggttgaaaaaaTttacccacaaatacctggta	18	10	6	7	0	0	2	0	1	0	1	0	2	0	2	2	2	3	2	2	2	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:126021568T>A	uc011liq.1	+	6	2017	c.1091T>A	c.(1090-1092)ATT>AAT	p.I364N		NM_003129	NP_003120	Q14534	ERG1_HUMAN	squalene epoxidase	364					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome	flavin adenine dinucleotide binding|squalene monooxygenase activity			ovary(1)|breast(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)		Butenafine(DB01091)|Naftifine(DB00735)|Terbinafine(DB00857)	GTTGAAAAAATTTACCCACAA	0.383													10	48					0	0	1	0	0		A	126021568	A	A	126021568	3	1	27	1	0	0	0	0	1	0	0	0	15153	1493	52	5	1012	5	SQLE	8	126021568	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	456136	126021568	20342454	4171	26522											
KIAA0196	9897	broad.mit.edu	37	chr8	126088714	126088714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtttgccagggctgtgctgCgatgctccggcaaaggatac	7	9	15	10	2	0	0	0	0	0	0	1	2	1	1	2	4	5	5	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:126088714C>T	uc003yrt.2	-	7	1069	c.740G>A	c.(739-741)CGC>CAC	p.R247H	KIAA0196_uc011lir.1_Missense_Mutation_p.R99H	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	247					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			GGCTGTGCTGCGATGCTCCGG	0.493													10	88					0	0	1	0	0		T	126088714	T	T	126088714	3	4	27	1	0	0	0	0	1	0	0	0	8177	768	27	1	2831	1	KIAA0196	8	126088714	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	67146	126088714	20275308	4172	26523											
FAM84B	157638	broad.mit.edu	37	chr8	127569528	127569528	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcgtcattggagaaaatgTaggagaccccaatgcggggc	12	7	13	9	2	1	2	1	0	0	2	2	4	1	2	2	4	1	1	2	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:127569528T>C	uc003yrz.1	-	2	391	c.107A>G	c.(106-108)TAC>TGC	p.Y36C		NM_174911	NP_777571	Q96KN1	FA84B_HUMAN	family with sequence similarity 84, member B	36						cytoplasm|plasma membrane	protein binding				0	Ovarian(5;9.43e-05)|Esophageal squamous(12;0.0012)|Hepatocellular(40;0.128)|Myeloproliferative disorder(2;0.135)		STAD - Stomach adenocarcinoma(47;0.000556)|Colorectal(2;0.0102)|Lung(2;0.0136)|READ - Rectum adenocarcinoma(2;0.0723)			GGAGAAAATGTAGGAGACCCC	0.672													3	42					0	0	1	0	0		C	127569528	C	C	127569528	3	2	27	1	0	0	0	0	1	0	0	0	5656	1638	57	3	829	3	FAM84B	8	127569528	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1480814	127569528	18794494	4173	26524											
POU5F1B	5462	broad.mit.edu	37	chr8	128428863	128428863	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggagaatttgttcctgcAgtgcccgaaacccacactgc	9	9	9	14	1	0	1	0	0	0	1	1	3	1	1	4	1	4	2	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:128428863A>G	uc003ysf.2	+	1	1007	c.752A>G	c.(751-753)CAG>CGG	p.Q251R	uc003ysc.1_Intron|uc003ysd.1_Intron|LOC727677_uc003yse.1_Intron|uc011liu.1_5'Flank	NM_001159542	NP_001153014	Q06416	P5F1B_HUMAN	POU class 5 homeobox 1B	251	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TTGTTCCTGCAGTGCCCGAAA	0.562													4	10					0	0	1	0	0		G	128428863	G	G	128428863	3	3	27	1	0	0	0	0	1	0	0	0	12301	188	7	3	754	3	POU5F1B	8	128428863	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	859335	128428863	17935159	4174	26525											
MYC	4609	broad.mit.edu	37	chr8	128750987	128750987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggctgcgcgcaaagacagcgGcagcccgaaccccgcccgcg	8	1	14	18	7	0	1	0	0	0	1	0	2	0	1	4	2	4	3	4	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:128750987G>A	uc003ysh.1	+	3	992	c.479G>A	c.(478-480)GGC>GAC	p.G160D	MYC_uc003ysi.2_Missense_Mutation_p.G175D	NM_002467	NP_002458	P01106	MYC_HUMAN	myc proto-oncogene protein	160					branching involved in ureteric bud morphogenesis|cell cycle arrest|cell proliferation|cellular iron ion homeostasis|positive regulation of metanephric cap mesenchymal cell proliferation|positive regulation of transcription, DNA-dependent|regulation of telomere maintenance|regulation of transcription from RNA polymerase II promoter|response to drug	nucleolus|nucleoplasm	E-box binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(3)|ovary(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(1;6.19e-134)|all_epithelial(1;1.75e-119)|all_lung(1;5.66e-51)|Breast(1;1.08e-22)|all_neural(1;4.45e-21)|Medulloblastoma(1;1.88e-20)|Colorectal(1;1.92e-09)|Lung SC(1;4.52e-07)|Ovarian(5;0.000122)|Esophageal squamous(12;0.000995)|Renal(1;0.0921)|Hepatocellular(40;0.108)|Myeloproliferative disorder(2;0.135)|Melanoma(291;0.185)	Myeloproliferative disorder(644;0.0255)|Ovarian(118;0.0654)|Breast(495;0.212)|Acute lymphoblastic leukemia(644;0.22)	Epithelial(1;1.63e-94)|all cancers(1;5.82e-87)|OV - Ovarian serous cystadenocarcinoma(1;2.12e-71)|BRCA - Breast invasive adenocarcinoma(1;4.3e-14)|Lung(2;0.000381)|Colorectal(2;0.0102)|LUAD - Lung adenocarcinoma(14;0.0172)|READ - Rectum adenocarcinoma(2;0.0723)|LUSC - Lung squamous cell carcinoma(258;0.151)	KIRC - Kidney renal clear cell carcinoma(542;0.248)		AAAGACAGCGGCAGCCCGAAC	0.657		3	A|T	IGK@|BCL5|BCL7A |BTG1|TRA@|IGH@	Burkitt lymphoma| amplified in other cancers|B-CLL						OREG0018982	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	49					0	0	1	0	0		A	128750987	A	A	128750987	3	1	27	1	0	0	0	0	1	0	0	0	10034	1203	42	2	530	2	MYC	8	128750987	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	322124	128750987	17613035	4175	26526											
GSDMC	56169	broad.mit.edu	37	chr8	130789814	130789814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaccaaatttttgctaatgCgttccaacatggagggcatg	11	12	10	8	1	0	1	0	1	0	0	1	2	1	2	2	2	3	3	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:130789814C>T	uc003ysr.2	-	2	902	c.20G>A	c.(19-21)CGC>CAC	p.R7H		NM_031415	NP_113603	Q9BYG8	GSDMC_HUMAN	melanoma-derived leucine zipper, extra-nuclear	7						mitochondrion				ovary(2)|skin(1)	3						TTTGCTAATGCGTTCCAACAT	0.403													10	156					0	0	1	0	0		T	130789814	T	T	130789814	3	4	27	1	0	0	0	0	1	0	0	0	6834	768	27	1	1558	1	GSDMC	8	130789814	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2038827	130789814	15574208	4176	26527											
FAM49B	51571	broad.mit.edu	37	chr8	130866573	130866573	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatagctgaaatcattctgtAtggcaggatttgtcatctga	12	14	9	6	0	4	2	2	2	2	0	4	3	4	3	0	2	1	3	0	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:130866573A>G	uc003yss.2	-	10	1004	c.455T>C	c.(454-456)ATA>ACA	p.I152T	FAM49B_uc003yst.2_Missense_Mutation_p.I152T|FAM49B_uc003ysu.2_Missense_Mutation_p.I152T|FAM49B_uc003ysv.2_Missense_Mutation_p.I6T|FAM49B_uc003ysw.2_Missense_Mutation_p.I152T|FAM49B_uc003ysx.2_Missense_Mutation_p.I152T|FAM49B_uc003ysy.1_Missense_Mutation_p.I152T	NM_016623	NP_057707	Q9NUQ9	FA49B_HUMAN	hypothetical protein LOC51571	152											0	Ovarian(5;0.000567)|Esophageal squamous(12;0.00693)|Acute lymphoblastic leukemia(118;0.155)		LUAD - Lung adenocarcinoma(14;0.0989)			ATCATTCTGTATGGCAGGATT	0.303													7	105					0	0	1	0	0		G	130866573	G	G	130866573	3	3	27	1	0	0	0	0	1	0	0	0	5590	449	16	3	543	3	FAM49B	8	130866573	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	76759	130866573	15497449	4177	26528											
ASAP1	50807	broad.mit.edu	37	chr8	131072887	131072887	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaggcgtgaggtcgttggAgtcttcagatgcttgctttt	6	15	14	6	2	2	2	1	1	1	1	3	3	2	3	0	3	2	4	0	3	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:131072887A>T	uc003yta.1	-	27	3158	c.3130T>A	c.(3130-3132)TCC>ACC	p.S1044T	ASAP1_uc003ysz.1_Missense_Mutation_p.S855T|ASAP1_uc011liw.1_Missense_Mutation_p.S1037T	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	1044					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						AGGTCGTTGGAGTCTTCAGAT	0.532													8	257					0	0	1	0	0		T	131072887	T	T	131072887	3	4	27	1	0	0	0	0	1	0	0	0	1011	304	11	5	271	5	ASAP1	8	131072887	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	206314	131072887	15291135	4178	26529											
ASAP1	50807	broad.mit.edu	37	chr8	131172154	131172154	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccttcttttcactgccataTtccttattgccctggagctg	5	16	6	14	0	2	0	1	0	1	0	3	1	3	1	4	1	3	1	4	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:131172154T>C	uc003yta.1	-	11	994	c.966A>G	c.(964-966)GAA>GAG	p.E322E	ASAP1_uc003ysz.1_Silent_p.E133E|ASAP1_uc011liw.1_Silent_p.E315E	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	322					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						CACTGCCATATTCCTTATTGC	0.433													11	242					0	0	1	0	0		C	131172154	C	C	131172154	2	2	27	1	0	0	0	0	0	0	0	1	1011	1490	52	3		3	ASAP1	8	131172154	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	99267	131172154	15191868	4179	26530											
ADCY8	114	broad.mit.edu	37	chr8	131896899	131896899	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccactccgcaagtcgatggTatgttctattctcttgttaa	8	15	8	10	2	2	0	0	0	2	0	5	1	3	0	2	1	0	4	2	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:131896899T>A	uc003ytd.3	-	8	2276	c.2020A>T	c.(2020-2022)ACC>TCC	p.T674S	ADCY8_uc010mds.2_Missense_Mutation_p.T674S	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	674	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			AAGTCGATGGTATGTTCTATT	0.443										HNSCC(32;0.087)			12	229					0	0	1	0	0		A	131896899	A	A	131896899	3	1	27	1	0	0	0	0	1	0	0	0	300	1638	57	5	1779	5	ADCY8	8	131896899	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	724745	131896899	14467123	4180	26531											
ADCY8	114	broad.mit.edu	37	chr8	131916273	131916273	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacagtccagcgtggctttGgaaatgtgaatcctcctgtg	9	11	12	9	1	0	2	0	1	0	1	3	3	3	3	3	2	1	1	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:131916273G>A	uc003ytd.3	-	7	1912	c.1656C>T	c.(1654-1656)TCC>TCT	p.S552S	ADCY8_uc010mds.2_Silent_p.S552S	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	552	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GCGTGGCTTTGGAAATGTGAA	0.438										HNSCC(32;0.087)			13	296					0	0	1	0	0		A	131916273	A	A	131916273	2	1	27	1	0	0	0	0	0	0	0	1	300	1335	47	4		4	ADCY8	8	131916273	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19374	131916273	14447749	4181	26532											
OC90	729330	broad.mit.edu	37	chr8	133036882	133036882	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcacagggtgcaggctgTcttcacaggctgctggctgc	5	8	16	12	1	2	0	1	0	1	0	2	0	2	0	0	5	3	6	0	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:133036882T>C	uc003ytg.2	-	13	1280	c.1280A>G	c.(1279-1281)GAC>GGC	p.D427G	OC90_uc011lix.1_Missense_Mutation_p.D427G	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	443					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GTGCAGGCTGTCTTCACAGGC	0.652													3	40					0	0	1	0	0		C	133036882	C	C	133036882	3	2	27	1	0	0	0	0	1	0	0	0	10833	1667	58	3	157	3	OC90	8	133036882	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1120609	133036882	13327140	4182	26533											
KCNQ3	3786	broad.mit.edu	37	chr8	133150247	133150247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgaatttttttttatagaGacggaattgtagaattctgc	11	18	8	4	1	1	3	0	1	1	2	1	5	1	4	0	1	1	1	0	1	6	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:133150247G>A	uc003ytj.2	-	12	1810	c.1585C>T	c.(1585-1587)CTC>TTC	p.L529F	KCNQ3_uc010mdt.2_Missense_Mutation_p.L529F	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	529					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			TTTTTATAGAGACGGAATTGT	0.458													5	140					0	0	1	0	0		A	133150247	A	A	133150247	3	1	27	1	0	0	0	0	1	0	0	0	8100	942	33	4	1049	4	KCNQ3	8	133150247	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	113365	133150247	13213775	4183	26534											
KCNQ3	3786	broad.mit.edu	37	chr8	133187785	133187785	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctctgggacgtctttcTcaaccaggtagacaagaaat	12	9	8	12	1	3	2	1	0	3	2	4	3	3	3	3	2	1	1	3	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:133187785T>C	uc003ytj.2	-	5	1073	c.848A>G	c.(847-849)GAG>GGG	p.E283G	KCNQ3_uc010mdt.2_Missense_Mutation_p.E283G	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	283					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			GACGTCTTTCTCAACCAGGTA	0.488													5	136					0	0	1	0	0		C	133187785	C	C	133187785	3	2	27	1	0	0	0	0	1	0	0	0	8100	1551	54	3	1814	3	KCNQ3	8	133187785	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37538	133187785	13176237	4184	26535											
KCNQ3	3786	broad.mit.edu	37	chr8	133196541	133196541	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcggccccgccagcctttgTatcggcagcaacatccagca	8	7	10	16	3	0	0	0	0	0	0	3	0	1	0	5	2	4	4	5	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:133196541T>C	uc003ytj.2	-	3	776	c.551A>G	c.(550-552)TAC>TGC	p.Y184C	KCNQ3_uc010mdt.2_Missense_Mutation_p.Y184C	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	184					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			CCAGCCTTTGTATCGGCAGCA	0.537													16	146					0	0	1	0	0		C	133196541	C	C	133196541	3	2	27	1	0	0	0	0	1	0	0	0	8100	1638	57	3	2119	3	KCNQ3	8	133196541	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8756	133196541	13167481	4185	26536											
KCNQ3	3786	broad.mit.edu	37	chr8	133492463	133492463	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtagatcaaagtttggatgCgccggtacttggcgttgttt	7	14	13	7	4	1	1	1	0	0	1	1	2	1	2	1	3	2	5	1	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:133492463C>T	uc003ytj.2	-	1	542	c.317G>A	c.(316-318)CGC>CAC	p.R106H	KCNQ3_uc010mdt.2_Missense_Mutation_p.R106H	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	106					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			AGTTTGGATGCGCCGGTACTT	0.582													3	34					0	0	1	0	0		T	133492463	T	T	133492463	3	4	27	1	0	0	0	0	1	0	0	0	8100	768	27	1	2361	1	KCNQ3	8	133492463	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	295922	133492463	12871559	4186	26537											
LRRC6	23639	broad.mit.edu	37	chr8	133645002	133645002	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atacagagtagcattgatgtCtgtgtaccaacgtccatcaa	13	11	8	9	1	2	2	1	1	1	1	3	2	3	2	2	0	4	3	2	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:133645002C>T	uc003ytk.2	-	5	711	c.637G>A	c.(637-639)GAC>AAC	p.D213N	LRRC6_uc003ytl.2_RNA	NM_012472	NP_036604	Q86X45	LRRC6_HUMAN	leucine rich repeat containing 6	213						cytoplasm				ovary(1)|kidney(1)	2	Ovarian(258;0.00352)|Esophageal squamous(12;0.00507)|all_neural(3;0.0052)|Medulloblastoma(3;0.0922)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			GCATTGATGTCTGTGTACCAA	0.378													19	295					0	0	1	0	0		T	133645002	T	T	133645002	3	4	27	1	0	0	0	0	1	0	0	0	9034	913	32	4	795	4	LRRC6	8	133645002	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	152539	133645002	12719020	4187	26538											
PHF20L1	51105	broad.mit.edu	37	chr8	133837511	133837511	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcacttttatcttttaggtAagagaaaagaaaaagataag	18	13	7	3	0	2	3	1	0	1	3	2	4	2	3	0	1	0	1	0	1	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:133837511A>G	uc003ytt.2	+	14	1964	c.1639A>G	c.(1639-1641)AAG>GAG	p.K547E	PHF20L1_uc003yts.2_3'UTR|PHF20L1_uc011lja.1_Missense_Mutation_p.K521E|PHF20L1_uc003ytu.1_RNA	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	547	Lys-rich.						nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			TCTTTTAGGTaagagaaaaga	0.214													4	63					0	0	1	0	0		G	133837511	G	G	133837511	3	3	27	1	0	0	0	0	1	0	0	0	11851	363	13	3	1785	3	PHF20L1	8	133837511	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	192509	133837511	12526511	4188	26539											
PHF20L1	51105	broad.mit.edu	37	chr8	133851656	133851656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtggagtgcaaaatatcGttatgataaggagtggttga	13	11	15	2	1	0	2	0	2	0	0	1	5	0	4	0	4	1	3	0	4	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:133851656G>A	uc003ytt.2	+	18	2541	c.2216G>A	c.(2215-2217)CGT>CAT	p.R739H	PHF20L1_uc011lja.1_Missense_Mutation_p.R713H	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	739							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			GCAAAATATCGTTATGATAAG	0.368													6	147					0	0	1	0	0		A	133851656	A	A	133851656	3	1	27	1	0	0	0	0	1	0	0	0	11851	1145	40	1	2378	1	PHF20L1	8	133851656	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	14145	133851656	12512366	4189	26540											
TG	7038	broad.mit.edu	37	chr8	133895214	133895214	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggggaaggaaatgcatggaAcccggcagcaaggggagccg	13	2	18	8	2	0	0	0	0	0	0	0	4	0	4	2	7	4	3	2	7	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:133895214A>G	uc003ytw.2	+	8	1086	c.1045A>G	c.(1045-1047)ACC>GCC	p.T349A		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	349	Thyroglobulin type-1 4.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AATGCATGGAACCCGGCAGCA	0.612													6	49					0	0	1	0	0		G	133895214	G	G	133895214	3	3	27	1	0	0	0	0	1	0	0	0	15838	43	2	3	1075	3	TG	8	133895214	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	43558	133895214	12468808	4190	26541											
TG	7038	broad.mit.edu	37	chr8	133984908	133984908	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcagtgaggagaatggaGgagcctggcgcattttggac	9	9	17	6	1	0	2	0	1	0	1	0	6	0	5	1	5	2	2	1	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:133984908G>T	uc003ytw.2	+	34	6162	c.6121G>T	c.(6121-6123)GGA>TGA	p.G2041*	TG_uc010mdw.2_Nonsense_Mutation_p.G800*|TG_uc011ljb.1_Nonsense_Mutation_p.G410*|TG_uc011ljc.1_Nonsense_Mutation_p.G195*	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2041	Type IIIB.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GGAGAATGGAGGAGCCTGGCG	0.483													7	192					8.12818e-05	8.61523e-05	1	1	0		T	133984908	T	T	133984908	4	4	27	1	0	0	0	0	0	1	0	0	15838	1001	35	5	6255	5	TG	8	133984908	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	89694	133984908	12379114	4191	26542											
SLA	6503	broad.mit.edu	37	chr8	134062229	134062229	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagctttccaccagccccCttcactgtaagaacaagaac	14	8	5	14	0	1	2	1	0	0	2	2	2	2	2	4	0	4	2	4	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:134062229C>T	uc003ytz.2	-	5	998	c.166G>A	c.(166-168)GGG>AGG	p.G56R	TG_uc003ytw.2_Intron|TG_uc010mdw.2_Intron|TG_uc011ljb.1_Intron|TG_uc011ljc.1_Intron|SLA_uc011lje.1_Missense_Mutation_p.G73R|SLA_uc011ljf.1_5'UTR|SLA_uc011ljg.1_Missense_Mutation_p.G73R|SLA_uc010mdy.1_Missense_Mutation_p.G56R|SLA_uc010mdz.1_Missense_Mutation_p.G56R|SLA_uc010mea.2_RNA|SLA_uc011ljd.1_Missense_Mutation_p.G96R	NM_001045556	NP_001039021	Q13239	SLAP1_HUMAN	Src-like-adaptor isoform a	56	SH3.					endosome	SH3/SH2 adaptor activity			lung(1)|liver(1)	2	all_epithelial(106;3.51e-21)|Lung NSC(106;4.24e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0279)|Breast(495;0.037)	BRCA - Breast invasive adenocarcinoma(115;0.000701)			CACCAGCCCCCTTCACTGTAA	0.418													16	71					0	0	1	0	0		T	134062229	T	T	134062229	3	4	27	1	0	0	0	0	1	0	0	0	14388	681	24	4	684	4	SLA	8	134062229	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	77321	134062229	12301793	4192	26543											
TG	7038	broad.mit.edu	37	chr8	134108554	134108554	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaggtctttatgggtagaGgtcgatctgctcattgggag	9	12	15	5	1	3	2	1	0	2	2	4	4	3	3	0	4	1	2	0	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:134108554G>T	uc003ytw.2	+	43	7550	c.7509G>T	c.(7507-7509)GAG>GAT	p.E2503D	TG_uc010mdw.2_Missense_Mutation_p.E1262D|TG_uc011ljb.1_Missense_Mutation_p.E872D|TG_uc011ljc.1_Missense_Mutation_p.E636D|SLA_uc003ytz.2_Intron|SLA_uc011lje.1_Intron|SLA_uc011ljf.1_Intron|SLA_uc011ljg.1_Intron|SLA_uc010mea.2_Intron	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2503					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TATGGGTAGAGGTCGATCTGC	0.587													10	250					0.00621372	0.00640274	1	1	0		T	134108554	T	T	134108554	3	4	27	1	0	0	0	0	1	0	0	0	15838	991	35	5	7679	5	TG	8	134108554	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46325	134108554	12255468	4193	26544											
TG	7038	broad.mit.edu	37	chr8	134145772	134145772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacatttgcaaccccctggCctgactttgtaccccgtgct	6	11	7	17	1	0	1	0	1	0	0	0	1	0	1	6	1	4	3	6	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:134145772C>T	uc003ytw.2	+	47	8097	c.8056C>T	c.(8056-8058)CCT>TCT	p.P2686S	TG_uc010mdw.2_Missense_Mutation_p.P1445S|TG_uc011ljb.1_Missense_Mutation_p.P1055S|TG_uc011ljc.1_Missense_Mutation_p.P819S	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2686					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AACCCCCTGGCCTGACTTTGT	0.502													8	163					0	0	1	0	0		T	134145772	T	T	134145772	3	4	27	1	0	0	0	0	1	0	0	0	15838	739	26	2	8242	2	TG	8	134145772	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37218	134145772	12218250	4194	26545											
NDRG1	10397	broad.mit.edu	37	chr8	134276877	134276877	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacgtgaacagagccatgtaAagtctcgatgtcctgctcct	10	10	10	11	2	1	2	0	1	1	1	4	4	3	2	3	0	3	2	3	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:134276877A>C	uc003yuh.2	-	4	704	c.118T>G	c.(118-120)TTA>GTA	p.L40V	NDRG1_uc003yug.2_Missense_Mutation_p.L40V|NDRG1_uc010mee.2_Intron|NDRG1_uc010mef.2_5'UTR|NDRG1_uc011ljh.1_5'UTR|NDRG1_uc011lji.1_Intron	NM_001135242	NP_001128714	Q92597	NDRG1_HUMAN	N-myc downstream regulated 1	40					cellular response to hypoxia|response to metal ion	cytoplasm|microtubule cytoskeleton|nucleus|plasma membrane	protein binding			ovary(4)	4	all_epithelial(106;4.26e-24)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GAGCCATGTAAAGTCTCGATG	0.562													9	123					0	0	1	0	0		C	134276877	C	C	134276877	3	2	27	1	0	0	0	0	1	0	0	0	10270	11	1	5	1118	5	NDRG1	8	134276877	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	131105	134276877	12087145	4195	26546											
FAM135B	51059	broad.mit.edu	37	chr8	139164378	139164378	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcatcttcagcagcctcCtctgggctactgatgtgggg	5	11	12	13	1	3	1	1	1	2	0	5	1	5	1	3	3	3	3	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:139164378C>A	uc003yuy.2	-	13	2511	c.2340G>T	c.(2338-2340)GAG>GAT	p.E780D	FAM135B_uc003yux.2_Missense_Mutation_p.E681D|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.E342D|FAM135B_uc003yvb.2_Missense_Mutation_p.E342D	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	780										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CAGCAGCCTCCTCTGGGCTAC	0.517										HNSCC(54;0.14)			16	94					1.67942e-08	1.84707e-08	1	1	0		A	139164378	A	A	139164378	3	1	27	1	0	0	0	0	1	0	0	0	5460	680	24	5	1912	5	FAM135B	8	139164378	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4887501	139164378	7199644	4196	26547											
FAM135B	51059	broad.mit.edu	37	chr8	139180136	139180136	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccaaaacaaaacagacaaAcctgtcgcagggcagtccac	16	5	7	13	1	0	1	0	0	0	1	3	1	2	1	3	1	3	2	3	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:139180136A>C	uc003yuy.2	-	12	1429	c.1258_splice	c.e12+1	p.G420_splice	FAM135B_uc003yux.2_Splice_Site_p.G321_splice|FAM135B_uc003yuz.2_Splice_Site	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059											ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			AAACAGACAAACCTGTCGCAG	0.502										HNSCC(54;0.14)			14	149					0	0	1	0	0		C	139180136	C	C	139180136	5	2	27	1	0	0	0	0	0	0	1	0	5460	57	2	5	2996	5	FAM135B	8	139180136	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	15758	139180136	7183886	4197	26548											
FAM135B	51059	broad.mit.edu	37	chr8	139278000	139278000	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accacagcatcatttatgggTacctcttcattccggtataa	11	13	6	11	1	3	0	2	0	1	0	4	0	4	0	3	2	2	3	3	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:139278000T>C	uc003yuy.2	-	4	414	c.243A>G	c.(241-243)GTA>GTG	p.V81V	FAM135B_uc003yux.2_5'UTR|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	81										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CATTTATGGGTACCTCTTCAT	0.483										HNSCC(54;0.14)			16	83					0	0	1	0	0		C	139278000	C	C	139278000	2	2	27	1	0	0	0	0	0	0	0	1	5460	1625	57	3		3	FAM135B	8	139278000	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	97864	139278000	7086022	4198	26549											
KCNK9	51305	broad.mit.edu	37	chr8	140715061	140715061	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccagctccagctgccggtAgtcctcgctgctgatgttgt	5	11	11	14	2	0	1	0	1	0	0	3	1	2	1	4	1	4	6	4	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:140715061A>G	uc003yvf.1	-	1	239	c.175T>C	c.(175-177)TAC>CAC	p.Y59H	KCNK9_uc003yvg.1_Missense_Mutation_p.Y59H	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	59	Extracellular (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			AGCTGCCGGTAGTCCTCGCTG	0.607													4	50					0	0	1	0	0		G	140715061	G	G	140715061	3	3	27	1	0	0	0	0	1	0	0	0	8088	420	15	3	957	3	KCNK9	8	140715061	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1437061	140715061	5648961	4199	26550											
TRAPPC9	83696	broad.mit.edu	37	chr8	141297761	141297761	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgacgagcgtcactgggtAcagaccagattcagccggaa	11	5	12	13	4	2	2	2	0	0	2	2	5	2	3	3	2	3	1	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:141297761A>G	uc003yvj.2	-	13	2061	c.1927T>C	c.(1927-1929)TAC>CAC	p.Y643H	TRAPPC9_uc003yvh.2_Missense_Mutation_p.Y741H|TRAPPC9_uc010mel.1_Missense_Mutation_p.Y64H|TRAPPC9_uc003yvi.1_Missense_Mutation_p.Y634H	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	643					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						GTCACTGGGTACAGACCAGAT	0.587													4	92					0	0	1	0	0		G	141297761	G	G	141297761	3	3	27	1	0	0	0	0	1	0	0	0	16491	391	14	3	1563	3	TRAPPC9	8	141297761	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	582700	141297761	5066261	4200	26551											
TRAPPC9	83696	broad.mit.edu	37	chr8	141301164	141301164	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcacacacatctccttgAacccactggaaatctagaaa	15	9	4	13	0	3	2	1	1	2	1	4	3	3	3	2	1	1	0	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:141301164A>G	uc003yvj.2	-	12	1916	c.1782T>C	c.(1780-1782)GTT>GTC	p.V594V	TRAPPC9_uc003yvh.2_Silent_p.V692V|TRAPPC9_uc010mel.1_Silent_p.V15V|TRAPPC9_uc003yvi.1_Silent_p.V585V	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	594					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						CATCTCCTTGAACCCACTGGA	0.358													12	70					0	0	1	0	0		G	141301164	G	G	141301164	2	3	27	1	0	0	0	0	0	0	0	1	16491	233	9	3		3	TRAPPC9	8	141301164	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3403	141301164	5062858	4201	26552											
TRAPPC9	83696	broad.mit.edu	37	chr8	141449272	141449272	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccacgtgcttccgcatgcgGccttggcaccgcttcttgta	4	11	10	16	4	1	0	0	0	1	0	2	0	2	0	4	2	2	5	4	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:141449272G>A	uc003yvj.2	-	3	743	c.609C>T	c.(607-609)GGC>GGT	p.G203G	TRAPPC9_uc003yvh.2_Silent_p.G301G|TRAPPC9_uc003yvi.1_Silent_p.G203G	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	203					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						TCCGCATGCGGCCTTGGCACC	0.507													16	99					0	0	1	0	0		A	141449272	A	A	141449272	2	1	27	1	0	0	0	0	0	0	0	1	16491	1190	42	2		2	TRAPPC9	8	141449272	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	148108	141449272	4914750	4202	26553											
EIF2C2	27161	broad.mit.edu	37	chr8	141542676	141542676	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaggagaaacgattgtcGtcccagaggacgtgatagtg	12	8	14	7	3	1	4	1	1	0	3	3	7	2	5	1	2	1	0	1	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:141542676G>A	uc003yvn.2	-	18	2350	c.2310C>T	c.(2308-2310)GAC>GAT	p.D770D	EIF2C2_uc010men.2_Silent_p.D693D|EIF2C2_uc010meo.2_Silent_p.D736D	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	770	Piwi.				mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			AACGATTGTCGTCCCAGAGGA	0.517													13	96					0	0	1	0	0		A	141542676	A	A	141542676	2	1	27	1	0	0	0	0	0	0	0	1	5012	1136	40	1		1	EIF2C2	8	141542676	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	93404	141542676	4821346	4203	26554											
EIF2C2	27161	broad.mit.edu	37	chr8	141551423	141551423	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacgcgcacggtggcgcagTagcgattggggtgggcgtcc	5	6	19	11	6	0	0	0	0	0	0	1	1	1	0	1	5	1	4	1	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:141551423T>C	uc003yvn.2	-	15	1914	c.1874A>G	c.(1873-1875)TAC>TGC	p.Y625C	EIF2C2_uc010men.2_Missense_Mutation_p.Y548C|EIF2C2_uc010meo.2_Missense_Mutation_p.Y625C	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	625	Piwi.				mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			GGTGGCGCAGTAGCGATTGGG	0.622													4	63					0	0	1	0	0		C	141551423	C	C	141551423	3	2	27	1	0	0	0	0	1	0	0	0	5012	1638	57	3	725	3	EIF2C2	8	141551423	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8747	141551423	4812599	4204	26555											
EIF2C2	27161	broad.mit.edu	37	chr8	141559224	141559224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacctaccgtacacgggcGtcttgccgggcaggatgacc	8	6	12	15	4	1	1	0	1	1	0	1	2	1	2	4	3	3	2	4	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:141559224G>A	uc003yvn.2	-	12	1617	c.1577C>T	c.(1576-1578)ACG>ATG	p.T526M	EIF2C2_uc010men.2_Missense_Mutation_p.T449M|EIF2C2_uc010meo.2_Missense_Mutation_p.T526M	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	526	Piwi.				mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			GTACACGGGCGTCTTGCCGGG	0.647													5	33					0	0	1	0	0		A	141559224	A	A	141559224	3	1	27	1	0	0	0	0	1	0	0	0	5012	1145	40	1	1034	1	EIF2C2	8	141559224	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7801	141559224	4804798	4205	26556											
EIF2C2	27161	broad.mit.edu	37	chr8	141566109	141566109	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctgtgttgaaacttgcActtcgcatctggcaaaggga	10	11	12	8	1	2	1	0	1	2	0	3	3	2	3	0	3	2	4	0	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:141566109A>G	uc003yvn.2	-	10	1195	c.1155T>C	c.(1153-1155)AGT>AGC	p.S385S	EIF2C2_uc010men.2_Silent_p.S308S|EIF2C2_uc010meo.2_Silent_p.S385S	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	385					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			TGAAACTTGCACTTCGCATCT	0.537													5	141					0	0	1	0	0		G	141566109	G	G	141566109	2	3	27	1	0	0	0	0	0	0	0	1	5012	156	6	3		3	EIF2C2	8	141566109	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6885	141566109	4797913	4206	26557											
PTK2	5747	broad.mit.edu	37	chr8	141745491	141745491	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaattcgaccgattacaTcattgttcttcactccttga	9	17	4	11	2	4	1	3	1	1	0	6	3	5	1	2	0	1	1	2	0	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:141745491T>C	uc003yvu.2	-	22	2119	c.1889A>G	c.(1888-1890)GAT>GGT	p.D630G	PTK2_uc003yvo.2_Missense_Mutation_p.D258G|PTK2_uc011ljq.1_Missense_Mutation_p.D325G|PTK2_uc003yvp.2_Missense_Mutation_p.D298G|PTK2_uc003yvq.2_Missense_Mutation_p.D156G|PTK2_uc003yvr.2_Missense_Mutation_p.D570G|PTK2_uc003yvs.2_Missense_Mutation_p.D630G|PTK2_uc003yvt.2_Missense_Mutation_p.D652G|PTK2_uc003yvv.2_Missense_Mutation_p.D530G|PTK2_uc011ljr.1_Missense_Mutation_p.D630G|MIR151_hsa-mir-151|MI0000809_5'Flank	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	630	Protein kinase.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			ACCGATTACATCATTGTTCTT	0.458													5	114					0	0	1	0	0		C	141745491	C	C	141745491	3	2	27	1	0	0	0	0	1	0	0	0	12785	1435	50	3	1313	3	PTK2	8	141745491	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	179382	141745491	4618531	4207	26558											
PTK2	5747	broad.mit.edu	37	chr8	141754863	141754863	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttacttgcaaaaatgaccTcagcttttggaacaatgacc	13	11	6	11	0	1	2	1	2	0	0	1	3	1	3	3	1	4	2	3	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:141754863T>C	uc003yvu.2	-	19	1752	c.1522A>G	c.(1522-1524)AGG>GGG	p.R508G	PTK2_uc003yvo.2_Missense_Mutation_p.R136G|PTK2_uc011ljq.1_Missense_Mutation_p.R203G|PTK2_uc003yvp.2_Missense_Mutation_p.R176G|PTK2_uc003yvq.2_Missense_Mutation_p.R34G|PTK2_uc003yvr.2_Missense_Mutation_p.R448G|PTK2_uc003yvs.2_Missense_Mutation_p.R508G|PTK2_uc003yvt.2_Missense_Mutation_p.R530G|PTK2_uc003yvv.2_Missense_Mutation_p.R408G|PTK2_uc011ljr.1_Missense_Mutation_p.R508G	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	508	Protein kinase.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			AAAAATGACCTCAGCTTTTGG	0.343													7	87					0	0	1	0	0		C	141754863	C	C	141754863	3	2	27	1	0	0	0	0	1	0	0	0	12785	1550	54	3	1692	3	PTK2	8	141754863	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9372	141754863	4609159	4208	26559											
PTK2	5747	broad.mit.edu	37	chr8	141889685	141889685	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgactgaggcggaatccatAgcaggccacatgctttactt	10	10	11	10	1	0	2	0	2	0	0	1	3	1	3	2	3	3	2	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:141889685A>G	uc003yvu.2	-	4	477	c.247T>C	c.(247-249)TAT>CAT	p.Y83H	PTK2_uc003yvr.2_5'UTR|PTK2_uc003yvs.2_Missense_Mutation_p.Y83H|PTK2_uc003yvt.2_Missense_Mutation_p.Y105H|PTK2_uc003yvv.2_Intron|PTK2_uc011ljr.1_Missense_Mutation_p.Y83H	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	83	FERM.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			CGGAATCCATAGCAGGCCACA	0.478													22	380					0	0	1	0	0		G	141889685	G	G	141889685	3	3	27	1	0	0	0	0	1	0	0	0	12785	420	15	3	3027	3	PTK2	8	141889685	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	134822	141889685	4474337	4209	26560											
DENND3	22898	broad.mit.edu	37	chr8	142178176	142178176	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttccgctggagagcaagtgCgtgcaggcataccatgccca	9	8	12	12	2	0	1	0	0	0	1	1	2	1	1	3	2	5	4	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:142178176C>T	uc003yvy.2	+	13	1865	c.1587C>T	c.(1585-1587)TGC>TGT	p.C529C	DENND3_uc010mep.2_Silent_p.C490C|DENND3_uc003yvz.1_Silent_p.C213C	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	529										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			AGAGCAAGTGCGTGCAGGCAT	0.532													10	175					0	0	1	0	0		T	142178176	T	T	142178176	2	4	27	1	0	0	0	0	0	0	0	1	4438	776	27	1		1	DENND3	8	142178176	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	288491	142178176	4185846	4210	26561											
SLC45A4	57210	broad.mit.edu	37	chr8	142231844	142231844	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaggaaccaggtgaggcTgtagtactgctccggaaggc	9	7	15	10	1	1	1	1	1	0	0	2	3	2	3	2	5	3	5	2	5	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:142231844T>C	uc003ywd.1	-	2	417	c.109A>G	c.(109-111)AGC>GGC	p.S37G	SLC45A4_uc003ywc.1_Missense_Mutation_p.S37G|SLC45A4_uc010meq.1_Missense_Mutation_p.S35G	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	88	Helical; (Potential).				transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CAGGTGAGGCTGTAGTACTGC	0.672													8	98					0	0	1	0	0		C	142231844	C	C	142231844	3	2	27	1	0	0	0	0	1	0	0	0	14668	1580	55	3	2315	3	SLC45A4	8	142231844	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53668	142231844	4132178	4211	26562											
FLJ43860	389690	broad.mit.edu	37	chr8	142445024	142445024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aattcctcctggctgcgggtCatctggccggaggagagcac	7	8	14	12	2	2	1	1	0	1	1	4	3	4	2	3	5	2	2	3	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:142445024C>T	uc003ywi.2	-	30	3762	c.3681G>A	c.(3679-3681)ATG>ATA	p.M1227I	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_Intron	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	1227							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GGCTGCGGGTCATCTGGCCGG	0.637													4	83					0	0	1	0	0		T	142445024	T	T	142445024	3	4	27	1	0	0	0	0	1	0	0	0	5944	826	29	4	287	4	FLJ43860	8	142445024	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	213180	142445024	3918998	4212	26563											
BAI1	575	broad.mit.edu	37	chr8	143623370	143623370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cactgaagcggccgtctctgCccgaggaggagaagctgaag	10	5	15	11	3	1	3	0	2	1	1	2	6	1	4	2	3	3	1	2	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:143623370C>T	uc003ywm.2	+	27	3958	c.3775C>T	c.(3775-3777)CCC>TCC	p.P1259S		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1259	Cytoplasmic (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GCCGTCTCTGCCCGAGGAGGA	0.672													4	11					0	0	1	0	0		T	143623370	T	T	143623370	3	4	27	1	0	0	0	0	1	0	0	0	1299	739	26	2	3881	2	BAI1	8	143623370	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1178346	143623370	2740652	4213	26564											
ARC	23237	broad.mit.edu	37	chr8	143694743	143694743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacaggaactggtccagcGgctcgccctgcttctgcggc	5	7	13	16	3	1	0	0	0	1	0	3	1	2	1	3	4	4	2	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:143694743G>A	uc003ywn.1	-	1	1091	c.890C>T	c.(889-891)CCG>CTG	p.P297L		NM_015193	NP_056008	Q7LC44	ARC_HUMAN	activity-regulated cytoskeleton-associated	297					endocytosis	acrosomal vesicle|cell junction|dendritic spine|endosome|postsynaptic density|postsynaptic membrane				breast(1)	1	all_cancers(97;3.55e-12)|all_epithelial(106;1.03e-08)|Lung NSC(106;0.000353)|all_lung(105;0.00092)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.0279)				CTGGTCCAGCGGCTCGCCCTG	0.647													5	48					0	0	1	0	0		A	143694743	A	A	143694743	3	1	27	1	0	0	0	0	1	0	0	0	841	1116	39	1	304	1	ARC	8	143694743	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	71373	143694743	2669279	4214	26565											
ARC	23237	broad.mit.edu	37	chr8	143694953	143694953	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccgcccacctgccgcaagTactcctctaggtggctcagg	7	7	11	16	2	2	0	1	0	1	0	3	0	3	0	5	3	3	3	5	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:143694953T>C	uc003ywn.1	-	1	881	c.680A>G	c.(679-681)TAC>TGC	p.Y227C		NM_015193	NP_056008	Q7LC44	ARC_HUMAN	activity-regulated cytoskeleton-associated	227					endocytosis	acrosomal vesicle|cell junction|dendritic spine|endosome|postsynaptic density|postsynaptic membrane				breast(1)	1	all_cancers(97;3.55e-12)|all_epithelial(106;1.03e-08)|Lung NSC(106;0.000353)|all_lung(105;0.00092)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.0279)				CTGCCGCAAGTACTCCTCTAG	0.647													3	46					0	0	1	0	0		C	143694953	C	C	143694953	3	2	27	1	0	0	0	0	1	0	0	0	841	1638	57	3	514	3	ARC	8	143694953	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	210	143694953	2669069	4215	26566											
LY6K	54742	broad.mit.edu	37	chr8	143784650	143784650	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagtgttgtaaaattcgctActgcaatttagaggggccac	12	11	10	8	1	0	1	0	0	0	1	1	1	0	1	1	2	2	4	1	2	6	6	rs141724373	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:143784650A>G	uc011ljv.1	+	3	776	c.359A>G	c.(358-360)TAC>TGC	p.Y120C	LY6K_uc011ljw.1_3'UTR|LY6K_uc011ljx.1_3'UTR	NM_017527	NP_059997	Q17RY6	LY6K_HUMAN	lymphocyte antigen 6 complex, locus K isoform 1	120	UPAR/Ly6.					anchored to membrane|cytoplasm|extracellular region|nucleolus|plasma membrane				central_nervous_system(1)	1	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					AAAATTCGCTACTGCAATTTA	0.527													4	125					0	0	1	0	0		G	143784650	G	G	143784650	3	3	27	1	0	0	0	0	1	0	0	0	9116	391	14	3	519	3	LY6K	8	143784650	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	89697	143784650	2579372	4216	26567											
CYP11B1	1584	broad.mit.edu	37	chr8	143961155	143961155	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacccgggcggctctcgtGcccagtgcctgtgccctttg	2	9	15	15	3	1	0	0	0	1	0	2	1	1	1	4	3	3	1	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:143961155G>A	uc003yxi.2	-	1	82	c.75C>T	c.(73-75)GGC>GGT	p.G25G	CYP11B1_uc003yxj.2_Silent_p.G25G|CYP11B1_uc010mey.2_Silent_p.G25G	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	25					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	CGGCTCTCGTGCCCAGTGCCT	0.652									Familial_Hyperaldosteronism_type_I				6	127					0	0	1	0	0		A	143961155	A	A	143961155	2	1	27	1	0	0	0	0	0	0	0	1	4148	1306	46	2		2	CYP11B1	8	143961155	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	176505	143961155	2402867	4217	26568											
CYP11B2	1585	broad.mit.edu	37	chr8	143994781	143994781	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttcactgatgctggctgcGgcggccaggctctcctggcg	3	10	15	13	3	2	1	1	1	1	0	3	1	2	1	2	5	2	4	2	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:143994781G>A	uc003yxk.1	-	6	1044	c.1041C>T	c.(1039-1041)GCC>GCT	p.A347A		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	347					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	TGCTGGCTGCGGCGGCCAGGC	0.642									Familial_Hyperaldosteronism_type_I				17	114					0	0	1	0	0		A	143994781	A	A	143994781	2	1	27	1	0	0	0	0	0	0	0	1	4149	1103	39	1		1	CYP11B2	8	143994781	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	33626	143994781	2369241	4218	26569											
ZNF696	79943	broad.mit.edu	37	chr8	144378517	144378517	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggccagaggtcggacgcCgccaagcaccgccgcaccca	8	3	12	18	6	0	1	0	0	0	1	2	2	0	2	6	3	1	2	6	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144378517C>T	uc003yxy.3	+	3	1081	c.672C>T	c.(670-672)GCC>GCT	p.A224A		NM_030895	NP_112157	Q9H7X3	ZN696_HUMAN	zinc finger protein 696	224	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			GGTCGGACGCCGCCAAGCACC	0.716													4	16					0	0	1	0	0		T	144378517	T	T	144378517	2	4	27	1	0	0	0	0	0	0	0	1	18124	639	23	1		1	ZNF696	8	144378517	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	383736	144378517	1985505	4219	26570											
TOP1MT	116447	broad.mit.edu	37	chr8	144413431	144413431	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actccgtcgggaaggggctcGtatgggggtgcgaagtacgg	7	7	19	8	5	0	0	0	0	0	0	3	2	1	1	1	6	2	3	1	6	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144413431G>A	uc003yxz.2	-	2	220	c.201C>T	c.(199-201)TAC>TAT	p.Y67Y	TOP1MT_uc011lkd.1_Translation_Start_Site|TOP1MT_uc011lke.1_Translation_Start_Site|TOP1MT_uc010mfb.2_Translation_Start_Site|TOP1MT_uc010mfd.1_Translation_Start_Site	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	67					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	GAAGGGGCTCGTATGGGGGTG	0.622													8	113					0	0	1	0	0		A	144413431	A	A	144413431	2	1	27	1	0	0	0	0	0	0	0	1	16390	1140	40	1		1	TOP1MT	8	144413431	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	34914	144413431	1950591	4220	26571											
ZC3H3	23144	broad.mit.edu	37	chr8	144620360	144620360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggcctccgactgccaacGgaaggaggaagaggaggagg	11	3	18	9	2	0	1	0	0	0	1	1	7	1	6	3	7	2	1	3	7	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144620360G>A	uc003yyd.2	-	2	1206	c.1177C>T	c.(1177-1179)CGT>TGT	p.R393C		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	393					mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			GACTGCCAACGGAAGGAGGAA	0.647													10	151					0	0	1	0	0		A	144620360	A	A	144620360	3	1	27	1	0	0	0	0	1	0	0	0	17594	1116	39	1	1713	1	ZC3H3	8	144620360	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	206929	144620360	1743662	4221	26572											
TSTA3	7264	broad.mit.edu	37	chr8	144696501	144696501	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcactcactcttggccaggTgcaccttgtggatgaggcca	7	9	12	13	1	2	1	1	1	1	0	2	2	2	2	3	4	1	2	3	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144696501T>C	uc003yza.2	-	6	623	c.587A>G	c.(586-588)CAC>CGC	p.H196R	TSTA3_uc003yzb.2_Missense_Mutation_p.H196R	NM_003313	NP_003304	Q13630	FCL_HUMAN	tissue specific transplantation antigen P35B	196					'de novo' GDP-L-fucose biosynthetic process|leukocyte cell-cell adhesion		coenzyme binding|electron carrier activity|GDP-4-dehydro-D-rhamnose reductase activity|GDP-L-fucose synthase activity|isomerase activity			pancreas(1)	1	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.17e-38)|Epithelial(56;7.17e-37)|all cancers(56;2.46e-32)|Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)		NADH(DB00157)	CTTGGCCAGGTGCACCTTGTG	0.632													7	102					0	0	1	0	0		C	144696501	C	C	144696501	3	2	27	1	0	0	0	0	1	0	0	0	16700	1696	59	3	402	3	TSTA3	8	144696501	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	76141	144696501	1667521	4222	26573											
ZNF623	9831	broad.mit.edu	37	chr8	144732976	144732976	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accttattgaacaccagagaAttcacaccggagagagaccc	15	6	8	12	1	1	4	1	1	0	3	1	7	1	4	4	1	1	0	4	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144732976A>T	uc003yzd.2	+	1	1023	c.934A>T	c.(934-936)ATT>TTT	p.I312F	ZNF623_uc011lkp.1_Missense_Mutation_p.I272F|ZNF623_uc003yzc.2_Missense_Mutation_p.I272F	NM_014789	NP_055604	O75123	ZN623_HUMAN	zinc finger protein 623 isoform 1	312	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;5.28e-40)|all cancers(56;5.23e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			ACACCAGAGAATTCACACCGG	0.458													6	97					0	0	1	0	0		T	144732976	T	T	144732976	3	4	27	1	0	0	0	0	1	0	0	0	18072	101	4	5	936	5	ZNF623	8	144732976	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	36475	144732976	1631046	4223	26574											
SCRIB	23513	broad.mit.edu	37	chr8	144874878	144874878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacttccgtgcccctcacCttcctcctcctgcatcttcc	3	12	3	23	1	2	0	1	0	1	0	7	0	7	0	9	0	2	1	9	0	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144874878C>T	uc003yzp.1	-	30	4184	c.4177G>A	c.(4177-4179)GCC>ACC	p.A1393T	SCRIB_uc003yzn.1_Missense_Mutation_p.G102S|SCRIB_uc003yzo.1_Missense_Mutation_p.A1393T	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	1393	Potential.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			TGCCCCTCACCTTCCTCCTCC	0.667													3	20					0	0	1	0	0		T	144874878	T	T	144874878	3	4	27	1	0	0	0	0	1	0	0	0	13962	695	24	4	822	4	SCRIB	8	144874878	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	141902	144874878	1489144	4224	26575											
SCRIB	23513	broad.mit.edu	37	chr8	144877663	144877663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggctgttccggtggccgatgCctgccgcaaaggggttggca	5	8	17	11	3	0	0	0	0	0	0	1	1	1	0	4	6	2	5	4	6	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144877663C>T	uc003yzp.1	-	25	3648	c.3641G>A	c.(3640-3642)GGC>GAC	p.G1214D	SCRIB_uc003yzn.1_5'UTR|SCRIB_uc003yzo.1_Missense_Mutation_p.G1214D	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	1214	Interaction with ARHGEF7.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			GTGGCCGATGCCTGCCGCAAA	0.667													6	33					0	0	1	0	0		T	144877663	T	T	144877663	3	4	27	1	0	0	0	0	1	0	0	0	13962	739	26	2	1378	2	SCRIB	8	144877663	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2785	144877663	1486359	4225	26576											
PUF60	22827	broad.mit.edu	37	chr8	144898884	144898884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctcttggtagatgatgaCgcggttcacggccccgaact	7	12	11	11	4	2	3	1	2	1	1	3	4	2	3	2	3	1	2	2	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144898884C>T	uc003yzs.2	-	12	1550	c.1486G>A	c.(1486-1488)GTC>ATC	p.V496I	SCRIB_uc003yzo.1_5'Flank|SCRIB_uc003yzp.1_5'Flank|PUF60_uc003yzr.2_Missense_Mutation_p.V436I|PUF60_uc003yzt.2_Missense_Mutation_p.V479I|PUF60_uc003yzq.2_Missense_Mutation_p.V453I	NM_078480	NP_510965	Q9UHX1	PUF60_HUMAN	poly-U binding splicing factor 60KDa isoform a	496	RRM 3; atypical.|Inhibits homodimerization.|Inhibits transcriptional repression, interaction with ERCC3 and apoptosis induction.				apoptosis|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleus|ribonucleoprotein complex	DNA binding|nucleotide binding|protein binding|RNA binding				0	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			TAGATGATGACGCGGTTCACG	0.517													33	296					0	0	1	0	0		T	144898884	T	T	144898884	3	4	27	1	0	0	0	0	1	0	0	0	12849	536	19	1	197	1	PUF60	8	144898884	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21221	144898884	1465138	4226	26577											
PUF60	22827	broad.mit.edu	37	chr8	144900179	144900179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgtagatgcggttgaaggCccgtgcctcctcagccaact	8	8	11	14	3	1	2	1	1	0	1	2	2	2	2	4	2	4	2	4	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144900179C>T	uc003yzs.2	-	8	734	c.670G>A	c.(670-672)GCC>ACC	p.A224T	SCRIB_uc003yzo.1_5'Flank|SCRIB_uc003yzp.1_5'Flank|PUF60_uc003yzr.2_Missense_Mutation_p.A164T|PUF60_uc003yzt.2_Missense_Mutation_p.A207T|PUF60_uc003yzq.2_Missense_Mutation_p.A181T|PUF60_uc003yzu.1_Missense_Mutation_p.A213T	NM_078480	NP_510965	Q9UHX1	PUF60_HUMAN	poly-U binding splicing factor 60KDa isoform a	224	Inhibits homodimerization.|Inhibits transcriptional repression, interaction with ERCC3 and apoptosis induction.				apoptosis|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleus|ribonucleoprotein complex	DNA binding|nucleotide binding|protein binding|RNA binding				0	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			CGGTTGAAGGCCCGTGCCTCC	0.587													4	52					0	0	1	0	0		T	144900179	T	T	144900179	3	4	27	1	0	0	0	0	1	0	0	0	12849	739	26	2	1029	2	PUF60	8	144900179	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1295	144900179	1463843	4227	26578											
PUF60	22827	broad.mit.edu	37	chr8	144902883	144902883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaagcccattgtcactgctgCcatctgaaagacagtaaaga	15	8	8	10	0	2	3	1	1	1	2	2	3	2	3	2	0	3	2	2	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144902883C>T	uc003yzs.2	-	5	365	c.301G>A	c.(301-303)GCA>ACA	p.A101T	PUF60_uc003yzr.2_Intron|PUF60_uc003yzt.2_Intron|PUF60_uc003yzq.2_Missense_Mutation_p.A58T|PUF60_uc003yzu.1_Missense_Mutation_p.A90T	NM_078480	NP_510965	Q9UHX1	PUF60_HUMAN	poly-U binding splicing factor 60KDa isoform a	101	Inhibits homodimerization.|Inhibits transcriptional repression, interaction with ERCC3 and apoptosis induction.				apoptosis|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleus|ribonucleoprotein complex	DNA binding|nucleotide binding|protein binding|RNA binding				0	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			GTCACTGCTGCCATCTGAAAG	0.542													29	233					0	0	1	0	0		T	144902883	T	T	144902883	3	4	27	1	0	0	0	0	1	0	0	0	12849	739	26	2	1410	2	PUF60	8	144902883	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2704	144902883	1461139	4228	26579											
NRBP2	340371	broad.mit.edu	37	chr8	144920921	144920921	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgacccgggtgtccccAttggtctggatttccagtac	5	13	11	12	1	2	1	0	1	2	0	4	2	4	2	4	3	1	1	4	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144920921A>G	uc011lkt.1	-	10	911	c.771T>C	c.(769-771)AAT>AAC	p.N257N	NRBP2_uc003yzv.2_Silent_p.N14N|NRBP2_uc003yzz.1_5'Flank|NRBP2_uc003yzw.2_5'Flank|NRBP2_uc010mfl.2_5'Flank|NRBP2_uc010mfm.2_Silent_p.N14N|NRBP2_uc011lks.1_Silent_p.N14N|NRBP2_uc003yzy.2_Silent_p.N14N	NM_178564	NP_848659	Q9NSY0	NRBP2_HUMAN	nuclear receptor binding protein 2	257	Protein kinase.				negative regulation of neuron apoptosis|neuron differentiation	cytoplasm	ATP binding|protein kinase activity			central_nervous_system(2)	2	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			GGGTGTCCCCATTGGTCTGGA	0.637													4	23					0	0	1	0	0		G	144920921	G	G	144920921	2	3	27	1	0	0	0	0	0	0	0	1	10662	214	8	3		3	NRBP2	8	144920921	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	18038	144920921	1443101	4229	26580											
EPPK1	83481	broad.mit.edu	37	chr8	144940304	144940304	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggtcggccaggacgcggTtcatctcctcgtcgaagtag	6	9	15	11	5	2	0	1	0	1	0	6	2	2	1	2	5	0	2	2	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144940304T>C	uc003zaa.1	-	2	15141	c.15128A>G	c.(15127-15129)AAC>AGC	p.N5043S		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	5043	Plectin 64.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CAGGACGCGGTTCATCTCCTC	0.682													18	614					0	0	1	0	0		C	144940304	C	C	144940304	3	2	27	1	0	0	0	0	1	0	0	0	5198	1725	60	3	148	3	EPPK1	8	144940304	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	19383	144940304	1423718	4230	26581											
EPPK1	83481	broad.mit.edu	37	chr8	144942445	144942445	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctggaagagggagatctgCtgcccggtataggggtcggt	7	8	18	8	2	1	2	0	0	1	2	2	4	1	3	2	6	2	2	2	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144942445C>T	uc003zaa.1	-	1	4990	c.4977G>A	c.(4975-4977)CAG>CAA	p.Q1659Q		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1659	Plectin 28.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGGAGATCTGCTGCCCGGTAT	0.637													22	106					0	0	1	0	0		T	144942445	T	T	144942445	2	4	27	1	0	0	0	0	0	0	0	1	5198	796	28	2		2	EPPK1	8	144942445	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2141	144942445	1421577	4231	26582											
PLEC	5339	broad.mit.edu	37	chr8	144991141	144991141	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgtctccgtgtccaggAtgccagccacggggcccgtc	5	6	13	17	4	1	0	0	0	1	0	4	1	2	1	6	3	3	0	6	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144991141A>G	uc003zaf.1	-	32	13429	c.13259T>C	c.(13258-13260)ATC>ACC	p.I4420T	PLEC_uc003zab.1_Missense_Mutation_p.I4283T|PLEC_uc003zac.1_Missense_Mutation_p.I4287T|PLEC_uc003zad.2_Missense_Mutation_p.I4283T|PLEC_uc003zae.1_Missense_Mutation_p.I4251T|PLEC_uc003zag.1_Missense_Mutation_p.I4261T|PLEC_uc003zah.2_Missense_Mutation_p.I4269T|PLEC_uc003zaj.2_Missense_Mutation_p.I4310T	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4420	Globular 2.|Plectin 29.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CGTGTCCAGGATGCCAGCCAC	0.677													7	73					0	0	1	0	0		G	144991141	G	G	144991141	3	3	27	1	0	0	0	0	1	0	0	0	12071	333	12	3	799	3	PLEC	8	144991141	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	48696	144991141	1372881	4232	26583											
PLEC	5339	broad.mit.edu	37	chr8	144991345	144991345	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggtccagtgccgagcggTcgatgaggttcttggcgatg	6	10	16	9	4	1	1	0	1	1	0	3	4	2	1	2	4	2	1	2	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144991345T>C	uc003zaf.1	-	32	13225	c.13055A>G	c.(13054-13056)GAC>GGC	p.D4352G	PLEC_uc003zab.1_Missense_Mutation_p.D4215G|PLEC_uc003zac.1_Missense_Mutation_p.D4219G|PLEC_uc003zad.2_Missense_Mutation_p.D4215G|PLEC_uc003zae.1_Missense_Mutation_p.D4183G|PLEC_uc003zag.1_Missense_Mutation_p.D4193G|PLEC_uc003zah.2_Missense_Mutation_p.D4201G|PLEC_uc003zaj.2_Missense_Mutation_p.D4242G	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4352	Globular 2.|Plectin 28.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TGCCGAGCGGTCGATGAGGTT	0.647													11	69					0	0	1	0	0		C	144991345	C	C	144991345	3	2	27	1	0	0	0	0	1	0	0	0	12071	1667	58	3	1003	3	PLEC	8	144991345	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	204	144991345	1372677	4233	26584											
PLEC	5339	broad.mit.edu	37	chr8	144993077	144993077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgcacgtagtcgtaggaggCcagaccctgctggcggatga	8	6	16	11	4	0	2	0	1	0	1	1	4	0	4	2	4	1	4	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144993077C>T	uc003zaf.1	-	32	11493	c.11323G>A	c.(11323-11325)GCC>ACC	p.A3775T	PLEC_uc003zab.1_Missense_Mutation_p.A3638T|PLEC_uc003zac.1_Missense_Mutation_p.A3642T|PLEC_uc003zad.2_Missense_Mutation_p.A3638T|PLEC_uc003zae.1_Missense_Mutation_p.A3606T|PLEC_uc003zag.1_Missense_Mutation_p.A3616T|PLEC_uc003zah.2_Missense_Mutation_p.A3624T|PLEC_uc003zaj.2_Missense_Mutation_p.A3665T	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3775	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TCGTAGGAGGCCAGACCCTGC	0.602													11	156					0	0	1	0	0		T	144993077	T	T	144993077	3	4	27	1	0	0	0	0	1	0	0	0	12071	739	26	2	2735	2	PLEC	8	144993077	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1732	144993077	1370945	4234	26585											
PLEC	5339	broad.mit.edu	37	chr8	144993131	144993131	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgatctcgatgatgatgaTgatcatgcgttccttggtca	10	14	10	7	2	3	5	2	5	1	0	5	6	4	5	1	1	1	1	1	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144993131T>C	uc003zaf.1	-	32	11439	c.11269A>G	c.(11269-11271)ATC>GTC	p.I3757V	PLEC_uc003zab.1_Missense_Mutation_p.I3620V|PLEC_uc003zac.1_Missense_Mutation_p.I3624V|PLEC_uc003zad.2_Missense_Mutation_p.I3620V|PLEC_uc003zae.1_Missense_Mutation_p.I3588V|PLEC_uc003zag.1_Missense_Mutation_p.I3598V|PLEC_uc003zah.2_Missense_Mutation_p.I3606V|PLEC_uc003zaj.2_Missense_Mutation_p.I3647V	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3757	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						ATGATGATGATGATCATGCGT	0.617													19	129					0	0	1	0	0		C	144993131	C	C	144993131	3	2	27	1	0	0	0	0	1	0	0	0	12071	1464	51	3	2789	3	PLEC	8	144993131	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	54	144993131	1370891	4235	26586											
PLEC	5339	broad.mit.edu	37	chr8	144996247	144996247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagctcctcctgctgcCgccgctgctgctccagctgc	3	8	10	20	2	0	0	0	0	0	0	3	0	3	0	6	0	8	7	6	0	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:144996247C>T	uc003zaf.1	-	32	8323	c.8153G>A	c.(8152-8154)CGG>CAG	p.R2718Q	PLEC_uc003zab.1_Missense_Mutation_p.R2581Q|PLEC_uc003zac.1_Missense_Mutation_p.R2585Q|PLEC_uc003zad.2_Missense_Mutation_p.R2581Q|PLEC_uc003zae.1_Missense_Mutation_p.R2549Q|PLEC_uc003zag.1_Missense_Mutation_p.R2559Q|PLEC_uc003zah.2_Missense_Mutation_p.R2567Q|PLEC_uc003zaj.2_Missense_Mutation_p.R2608Q	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2718	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CTCctgctgccgccgctgctg	0.557													4	16					0	0	1	0	0		T	144996247	T	T	144996247	3	4	27	1	0	0	0	0	1	0	0	0	12071	652	23	1	5905	1	PLEC	8	144996247	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3116	144996247	1367775	4236	26587											
PLEC	5339	broad.mit.edu	37	chr8	145000981	145000981	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatgcgccgcagagtctCgctgatgaacttgatgtact	8	11	10	12	3	1	4	0	3	1	1	3	4	2	4	2	0	3	3	2	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145000981C>A	uc003zaf.1	-	30	4596	c.4426G>T	c.(4426-4428)GAG>TAG	p.E1476*	PLEC_uc003zab.1_Nonsense_Mutation_p.E1339*|PLEC_uc003zac.1_Nonsense_Mutation_p.E1343*|PLEC_uc003zad.2_Nonsense_Mutation_p.E1339*|PLEC_uc003zae.1_Nonsense_Mutation_p.E1307*|PLEC_uc003zag.1_Nonsense_Mutation_p.E1317*|PLEC_uc003zah.2_Nonsense_Mutation_p.E1325*|PLEC_uc003zaj.2_Nonsense_Mutation_p.E1366*	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	1476	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CGCAGAGTCTCGCTGATGAAC	0.607													13	131					5.50884e-06	5.93776e-06	1	1	0		A	145000981	A	A	145000981	4	1	27	1	0	0	0	0	0	1	0	0	12071	893	31	5	9640	5	PLEC	8	145000981	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4734	145000981	1363041	4237	26588											
PLEC	5339	broad.mit.edu	37	chr8	145009229	145009229	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgcggggcatggcgtcatAcagcgacgagacgtaggtga	10	5	16	10	6	1	2	1	1	0	1	1	4	1	2	0	4	2	2	0	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145009229A>G	uc003zaf.1	-	8	1356	c.1186T>C	c.(1186-1188)TAT>CAT	p.Y396H	PLEC_uc003zab.1_Missense_Mutation_p.Y259H|PLEC_uc003zac.1_Missense_Mutation_p.Y263H|PLEC_uc003zad.2_Missense_Mutation_p.Y259H|PLEC_uc003zae.1_Missense_Mutation_p.Y227H|PLEC_uc003zag.1_Missense_Mutation_p.Y237H|PLEC_uc003zah.2_Missense_Mutation_p.Y245H|PLEC_uc003zaj.2_Missense_Mutation_p.Y286H	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	396	CH 2.|Globular 1.|Actin-binding.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						ATGGCGTCATACAGCGACGAG	0.692													4	132					0	0	1	0	0		G	145009229	G	G	145009229	3	3	27	1	0	0	0	0	1	0	0	0	12071	391	14	3	12968	3	PLEC	8	145009229	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8248	145009229	1354793	4238	26589											
PARP10	84875	broad.mit.edu	37	chr8	145059959	145059959	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggctggccaaggcacagcaAggctgtactgggagccccga	9	4	16	12	1	0	0	0	0	0	0	0	2	0	1	3	5	3	5	3	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145059959A>C	uc003zal.3	-	3	474	c.366T>G	c.(364-366)CCT>CCG	p.P122P	PARP10_uc003zak.3_5'Flank|PARP10_uc011lku.1_Silent_p.P134P|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Silent_p.P122P|PARP10_uc010mfn.1_Intron|PARP10_uc010mfo.1_Missense_Mutation_p.L15R	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	122						Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			AGGCACAGCAAGGCTGTACTG	0.687													6	64					0	0	1	0	0		C	145059959	C	C	145059959	2	2	27	1	0	0	0	0	0	0	0	1	11474	59	3	5		5	PARP10	8	145059959	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	50730	145059959	1304063	4239	26590											
GPAA1	8733	broad.mit.edu	37	chr8	145140934	145140934	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctagcccagggtgtgctggAgcaccacacctacggcgccc	7	5	13	16	2	0	0	0	0	0	0	0	1	0	1	4	3	4	3	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145140934A>G	uc003zax.2	+	12	1882	c.1772A>G	c.(1771-1773)GAG>GGG	p.E591G		NM_003801	NP_003792	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment	591	Cytoplasmic (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein complex assembly|protein retention in ER lumen	GPI-anchor transamidase complex	tubulin binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGTGTGCTGGAGCACCACACC	0.642													6	56					0	0	1	0	0		G	145140934	G	G	145140934	3	3	27	1	0	0	0	0	1	0	0	0	6602	304	11	3	1818	3	GPAA1	8	145140934	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	80975	145140934	1223088	4240	26591											
SHARPIN	81858	broad.mit.edu	37	chr8	145154002	145154002	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acctggagtggactgggcagGctggaggcagctggctgggg	6	6	21	8	0	0	0	0	0	0	0	0	3	0	3	1	9	1	5	1	9	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145154002G>A	uc003zba.2	-	7	1513	c.1029C>T	c.(1027-1029)AGC>AGT	p.S343S	SHARPIN_uc003zbb.2_Intron	NM_030974	NP_112236	Q9H0F6	SHRPN_HUMAN	shank-interacting protein-like 1	343					negative regulation of inflammatory response|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein linear polyubiquitination|regulation of CD40 signaling pathway|regulation of tumor necrosis factor-mediated signaling pathway	cytosol|LUBAC complex	polyubiquitin binding|zinc ion binding			ovary(1)	1	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.1e-42)|Epithelial(56;1.58e-40)|all cancers(56;6.12e-36)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GACTGGGCAGGCTGGAGGCAG	0.642													4	53					0	0	1	0	0		A	145154002	A	A	145154002	2	1	27	1	0	0	0	0	0	0	0	1	14292	1194	42	2		2	SHARPIN	8	145154002	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13068	145154002	1210020	4241	26592											
MAF1	84232	broad.mit.edu	37	chr8	145161332	145161332	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgtggaacgcggtggaCgaggagatctgcctggctga	8	7	17	9	3	1	2	0	1	1	1	1	6	1	4	1	5	3	2	1	5	1	0	rs145544925		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145161332C>T	uc003zbc.1	+	5	966	c.465C>T	c.(463-465)GAC>GAT	p.D155D	SHARPIN_uc003zba.2_5'Flank|SHARPIN_uc003zbb.2_5'Flank|KIAA1875_uc003zbd.3_5'Flank|KIAA1875_uc011lky.1_5'Flank	NM_032272	NP_115648	Q9H063	MAF1_HUMAN	MAF1 protein	155					negative regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	cytoplasm|nucleus					0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.1e-42)|Epithelial(56;1.23e-40)|all cancers(56;4.84e-36)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ACGCGGTGGACGAGGAGATCT	0.592													4	51					0	0	1	0	0		T	145161332	T	T	145161332	2	4	27	1	0	0	0	0	0	0	0	1	9174	535	19	1		1	MAF1	8	145161332	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7330	145161332	1202690	4242	26593											
HSF1	3297	broad.mit.edu	37	chr8	145537516	145537516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcctccgcagctgttcaGcccctcggtgaccgtgcccg	3	8	10	20	4	1	1	1	1	0	0	4	1	3	1	7	1	3	3	7	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145537516G>A	uc003zbt.3	+	11	1426	c.1256G>A	c.(1255-1257)AGC>AAC	p.S419N	HSF1_uc003zbu.3_RNA	NM_005526	NP_005517	Q00613	HSF1_HUMAN	heat shock transcription factor 1	419	Transactivation domain.|9aaTAD.					cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.12e-39)|all cancers(56;9.11e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0547)|Colorectal(110;0.055)			CAGCTGTTCAGCCCCTCGGTG	0.488													4	55					0	0	1	0	0		A	145537516	A	A	145537516	3	1	27	1	0	0	0	0	1	0	0	0	7411	971	34	2	1298	2	HSF1	8	145537516	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	376184	145537516	826506	4243	26594											
DGAT1	8694	broad.mit.edu	37	chr8	145542209	145542209	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgtgcagcagcagtccCgcctgctccgtcagggcacc	6	5	12	18	3	1	0	1	0	0	0	3	0	3	0	5	1	4	5	5	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145542209C>T	uc003zbv.3	-	6	757	c.489G>A	c.(487-489)GCG>GCA	p.A163A	DGAT1_uc010mfv.2_Silent_p.A163A	NM_012079	NP_036211	O75907	DGAT1_HUMAN	diacylglycerol O-acyltransferase 1	163	Lumenal (Potential).				triglyceride biosynthetic process|very-low-density lipoprotein particle assembly	endoplasmic reticulum membrane|integral to membrane	diacylglycerol O-acyltransferase activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;7.67e-40)|all cancers(56;7.88e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			GCAGCAGTCCCGCCTGCTCCG	0.657													7	34					0	0	1	0	0		T	145542209	T	T	145542209	2	4	27	1	0	0	0	0	0	0	0	1	4463	639	23	1		1	DGAT1	8	145542209	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4693	145542209	821813	4244	26595											
SCRT1	83482	broad.mit.edu	37	chr8	145557088	145557088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggtttctcgccggtgtgcGagcgcatgtggccctgcagc	4	9	16	12	4	1	0	0	0	1	0	2	1	1	0	2	3	4	3	2	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145557088G>A	uc003zbw.1	-	2	918	c.806C>T	c.(805-807)TCG>TTG	p.S269L		NM_031309	NP_112599	Q9BWW7	SCRT1_HUMAN	scratch	269	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.35e-39)|all cancers(56;1.37e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			GCCGGTGTGCGAGCGCATGTG	0.687													3	24					0	0	1	0	0		A	145557088	A	A	145557088	3	1	27	1	0	0	0	0	1	0	0	0	13966	1059	37	1	244	1	SCRT1	8	145557088	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	14879	145557088	806934	4245	26596											
GPR172A	79581	broad.mit.edu	37	chr8	145582977	145582977	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcacccacgcccgcccgTccggtgctgacccacctgct	5	5	10	21	4	0	1	0	1	0	0	1	1	1	1	6	1	3	4	6	1	0	0	rs146942171		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145582977T>C	uc003zcc.1	+	2	181	c.24T>C	c.(22-24)CGT>CGC	p.R8R	FBXL6_uc003zbz.2_5'Flank|FBXL6_uc003zca.2_5'Flank|FBXL6_uc003zcb.2_5'Flank|FBXL6_uc010mfx.2_Intron|GPR172A_uc003zcd.1_Silent_p.R8R|GPR172A_uc003zce.1_Silent_p.R8R|GPR172A_uc010mfy.1_Silent_p.R8R|GPR172A_uc003zcf.1_Silent_p.R8R|GPR172A_uc011llc.1_5'UTR	NM_024531	NP_078807	Q9HAB3	RFT3_HUMAN	G protein-coupled receptor 172A precursor	8						integral to plasma membrane	receptor activity|riboflavin transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			CGCCCGCCCGTCCGGTGCTGA	0.637													10	70					0	0	1	0	0		C	145582977	C	C	145582977	2	2	27	1	0	0	0	0	0	0	0	1	6684	1654	58	3		3	GPR172A	8	145582977	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25889	145582977	781045	4246	26597											
CPSF1	29894	broad.mit.edu	37	chr8	145620666	145620666	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaccttagactccacgtggTaagccacatagtgggccgtg	10	8	12	11	2	0	2	0	0	0	2	1	2	1	2	4	2	1	1	4	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145620666T>C	uc003zcj.2	-	27	3155	c.3080A>G	c.(3079-3081)TAC>TGC	p.Y1027C	MIR939_hsa-mir-939|MI0005761_5'Flank|CPSF1_uc011lld.1_RNA	NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	1027					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			CTCCACGTGGTAAGCCACATA	0.637													4	57					0	0	1	0	0		C	145620666	C	C	145620666	3	2	27	1	0	0	0	0	1	0	0	0	3827	1638	57	3	1299	3	CPSF1	8	145620666	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37689	145620666	743356	4247	26598											
SLC39A4	55630	broad.mit.edu	37	chr8	145641443	145641443	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctgacccctcaggctcGcccaggcccagggcgtcctc	5	5	11	20	2	1	1	1	1	0	0	4	1	2	1	6	3	1	1	6	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145641443G>A	uc003zcq.2	-	2	325	c.225C>T	c.(223-225)GGC>GGT	p.G75G	SLC39A4_uc003zcm.1_5'Flank|SLC39A4_uc003zcn.2_5'Flank|SLC39A4_uc003zco.2_5'Flank|SLC39A4_uc003zcp.2_Silent_p.G50G	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	75	Extracellular (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|recycling endosome membrane	zinc ion transmembrane transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			CCTCAGGCTCGCCCAGGCCCA	0.736													5	40					0	0	1	0	0		A	145641443	A	A	145641443	2	1	27	1	0	0	0	0	0	0	0	1	14645	1074	38	1		1	SLC39A4	8	145641443	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20777	145641443	722579	4248	26599											
NFKBIL2	4796	broad.mit.edu	37	chr8	145661146	145661146	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgggccctgcgttaacTggcgcactgcaactctgcat	6	10	11	14	2	1	0	0	0	1	0	1	0	1	0	1	2	6	5	1	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145661146T>C	uc011llg.1	-	17	2685	c.2670A>G	c.(2668-2670)CCA>CCG	p.P890P	uc011llh.1_Intron	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	890					cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CTGCGTTAACTGGCGCACTGC	0.677													8	124					0	0	1	0	0		C	145661146	C	C	145661146	2	2	27	1	0	0	0	0	0	0	0	1	10401	1567	55	3		3	NFKBIL2	8	145661146	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	19703	145661146	702876	4249	26600											
NFKBIL2	4796	broad.mit.edu	37	chr8	145664103	145664103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctccagctgcggggtcaggCcatcggtgtcgtcctctgga	4	9	14	14	3	2	0	1	0	1	0	6	1	4	1	4	5	2	1	4	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145664103C>T	uc011llg.1	-	12	1511	c.1496G>A	c.(1495-1497)GGC>GAC	p.G499D	uc011llh.1_RNA	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	499	Glu-rich.				cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CGGGGTCAGGCCATCGGTGTC	0.687													7	36					0	0	1	0	0		T	145664103	T	T	145664103	3	4	27	1	0	0	0	0	1	0	0	0	10401	739	26	2	2700	2	NFKBIL2	8	145664103	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2957	145664103	699919	4250	26601											
NFKBIL2	4796	broad.mit.edu	37	chr8	145665767	145665767	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctgggcctgctgggcacaGctgagcgctttctggaagca	6	8	15	12	2	1	1	0	1	1	0	1	2	1	2	1	3	4	6	1	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145665767G>A	uc011llg.1	-	10	1272	c.1257C>T	c.(1255-1257)AGC>AGT	p.S419S		NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	419					cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			GCTGGGCACAGCTGAGCGCTT	0.677													5	68					0	0	1	0	0		A	145665767	A	A	145665767	2	1	27	1	0	0	0	0	0	0	0	1	10401	962	34	2		2	NFKBIL2	8	145665767	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1664	145665767	698255	4251	26602											
MFSD3	113655	broad.mit.edu	37	chr8	145735993	145735993	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcccaggaaactgctgccTctgttgaggtcggtgctgcg	6	10	13	12	2	1	1	0	1	1	0	3	2	2	2	2	3	5	3	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145735993T>C	uc003zdi.1	+	3	1008	c.843T>C	c.(841-843)CCT>CCC	p.P281P		NM_138431	NP_612440	Q96ES6	MFSD3_HUMAN	major facilitator superfamily domain containing	281	Leu-rich.				transmembrane transport	integral to membrane				central_nervous_system(2)	2	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			AACTGCTGCCTCTGTTGAGGT	0.637													8	201					0	0	1	0	0		C	145735993	C	C	145735993	2	2	27	1	0	0	0	0	0	0	0	1	9550	1538	54	3		3	MFSD3	8	145735993	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	70226	145735993	628029	4252	26603											
RECQL4	9401	broad.mit.edu	37	chr8	145741442	145741442	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgcttcatgttgagccgtAcgtaattgcccctgtcatgg	6	14	10	11	2	3	1	2	1	1	0	3	1	3	1	3	1	4	4	3	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145741442A>G	uc003zdj.2	-	5	1093	c.1061T>C	c.(1060-1062)GTA>GCA	p.V354A	LRRC14_uc003zdk.1_5'Flank|LRRC14_uc003zdl.1_5'Flank	NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	354					DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			GTTGAGCCGTACGTAATTGCC	0.637			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				4	91					0	0	1	0	0		G	145741442	G	G	145741442	3	3	27	1	0	0	0	0	1	0	0	0	13227	391	14	3	2634	3	RECQL4	8	145741442	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5449	145741442	622580	4253	26604											
LRRC14	9684	broad.mit.edu	37	chr8	145745664	145745664	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatgacgggcctcttggaTgatggtgtggaacaggatcc	9	9	15	8	1	1	2	0	2	1	0	2	6	2	5	2	5	1	0	2	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145745664T>C	uc003zdk.1	+	3	518	c.372T>C	c.(370-372)GAT>GAC	p.D124D	RECQL4_uc003zdj.2_5'Flank|LRRC14_uc003zdl.1_Silent_p.D124D|LRRC14_uc003zdo.2_5'Flank	NM_014665	NP_055480	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	124											0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			GCCTCTTGGATGATGGTGTGG	0.632													5	160					0	0	1	0	0		C	145745664	C	C	145745664	2	2	27	1	0	0	0	0	0	0	0	1	8986	1461	51	3		3	LRRC14	8	145745664	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4222	145745664	618358	4254	26605											
LRRC14	9684	broad.mit.edu	37	chr8	145745995	145745995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcaacaatctgggcctgCgcggcctgtctgtgatcatc	6	11	11	13	2	4	1	2	1	2	0	5	1	4	1	2	2	2	1	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145745995C>T	uc003zdk.1	+	3	849	c.703C>T	c.(703-705)CGC>TGC	p.R235C	RECQL4_uc003zdj.2_5'Flank|LRRC14_uc003zdl.1_Missense_Mutation_p.R235C|LRRC14_uc003zdo.2_5'Flank	NM_014665	NP_055480	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	235											0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			TCTGGGCCTGCGCGGCCTGTC	0.652													7	80					0	0	1	0	0		T	145745995	T	T	145745995	3	4	27	1	0	0	0	0	1	0	0	0	8986	768	27	1	709	1	LRRC14	8	145745995	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	331	145745995	618027	4255	26606											
ZNF251	90987	broad.mit.edu	37	chr8	145947422	145947422	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaaaggctctgccgtgcttCtctccagtgggaatctgtcc	6	13	10	12	1	3	0	0	0	3	0	6	1	5	1	3	2	2	2	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:145947422C>T	uc003zdv.3	-	5	1879	c.1623G>A	c.(1621-1623)GAG>GAA	p.E541E		NM_138367	NP_612376	Q9BRH9	ZN251_HUMAN	zinc finger protein 251	541					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;7.54e-38)|all cancers(56;6.19e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.198)		TGCCGTGCTTCTCTCCAGTGG	0.478													11	160					0	0	1	0	0		T	145947422	T	T	145947422	2	4	27	1	0	0	0	0	0	0	0	1	17821	912	32	4		4	ZNF251	8	145947422	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	201427	145947422	416600	4256	26607											
ZNF34	80778	broad.mit.edu	37	chr8	146003509	146003509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcggccccattcctccCgggagaggtacacagccacg	8	4	12	17	3	0	1	0	0	0	1	2	2	2	1	6	4	2	1	6	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:146003509C>T	uc003zdy.3	-	4	239	c.137G>A	c.(136-138)CGG>CAG	p.R46Q	ZNF34_uc010mgb.2_5'UTR|ZNF34_uc003zdx.3_Missense_Mutation_p.R25Q	NM_030580	NP_085057	Q8IZ26	ZNF34_HUMAN	zinc finger protein 34	46	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.221)	OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;5.18e-38)|all cancers(56;4.41e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.0179)		CCATTCCTCCCGGGAGAGGTA	0.652													3	56					0	0	1	0	0		T	146003509	T	T	146003509	3	4	27	1	0	0	0	0	1	0	0	0	17881	652	23	1	1557	1	ZNF34	8	146003509	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	56087	146003509	360513	4257	26608											
ZNF34	80778	broad.mit.edu	37	chr8	146003824	146003824	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaggacagacactcacCtggggtggggcagacaggaa	12	3	16	10	0	1	2	1	0	0	2	1	5	1	5	2	7	0	1	2	7	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:146003824C>A	uc003zdy.3	-	3	198	c.96G>T	c.(94-96)CAG>CAT	p.Q32H	ZNF34_uc010mgb.2_Translation_Start_Site|ZNF34_uc003zdx.3_Missense_Mutation_p.Q11H	NM_030580	NP_085057	Q8IZ26	ZNF34_HUMAN	zinc finger protein 34	32					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.221)	OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;5.18e-38)|all cancers(56;4.41e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.0179)		AGACACTCACCTGGGGTGGGG	0.567													4	15					0.00909568	0.0093211	1	1	0		A	146003824	A	A	146003824	3	1	27	1	0	0	0	0	1	0	0	0	17881	695	24	5	1602	5	ZNF34	8	146003824	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	315	146003824	360198	4258	26609											
RPL8	6132	broad.mit.edu	37	chr8	146016676	146016676	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcaccaaccacagctctgTtggctgaggagataaccttc	11	9	8	13	0	2	2	1	1	1	1	3	3	2	2	3	2	3	3	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:146016676T>C	uc003zeb.2	-	4	596	c.485A>G	c.(484-486)AAC>AGC	p.N162S	RPL8_uc003zdz.2_RNA|RPL8_uc003zea.2_Missense_Mutation_p.N126S|RPL8_uc003zec.2_Missense_Mutation_p.N162S|RPL8_uc010mgc.2_3'UTR	NM_033301	NP_150644	P62917	RL8_HUMAN	ribosomal protein L8	162					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	rRNA binding|structural constituent of ribosome				0	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;5.47e-39)|OV - Ovarian serous cystadenocarcinoma(54;6.38e-39)|all cancers(56;5.47e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.191)		CACAGCTCTGTTGGCTGAGGA	0.448													7	98					0	0	1	0	0		C	146016676	C	C	146016676	3	2	27	1	0	0	0	0	1	0	0	0	13627	1725	60	3	300	3	RPL8	8	146016676	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12852	146016676	347346	4259	26610											
RPL8	6132	broad.mit.edu	37	chr8	146017173	146017173	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaacccttcttgccgcaatAcacaaactggcccgtgtgaa	11	9	7	14	2	1	1	0	1	1	0	1	1	1	1	3	1	4	1	3	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:146017173A>G	uc003zeb.2	-	3	376	c.265T>C	c.(265-267)TAT>CAT	p.Y89H	RPL8_uc003zdz.2_RNA|RPL8_uc003zea.2_Missense_Mutation_p.Y53H|RPL8_uc003zec.2_Missense_Mutation_p.Y89H|RPL8_uc010mgc.2_Missense_Mutation_p.Y89H	NM_033301	NP_150644	P62917	RL8_HUMAN	ribosomal protein L8	89					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	rRNA binding|structural constituent of ribosome				0	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;5.47e-39)|OV - Ovarian serous cystadenocarcinoma(54;6.38e-39)|all cancers(56;5.47e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.191)		TTGCCGCAATACACAAACTGG	0.612													11	156					0	0	1	0	0		G	146017173	G	G	146017173	3	3	27	1	0	0	0	0	1	0	0	0	13627	391	14	3	524	3	RPL8	8	146017173	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	497	146017173	346849	4260	26611											
ZNF16	7564	broad.mit.edu	37	chr8	146156647	146156647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttgtcgcctgtgtgcacgCcctggtgctgaatgagggct	4	11	15	11	2	0	2	0	2	0	0	1	2	0	2	2	2	2	4	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr8:146156647C>T	uc003zet.2	-	4	1713	c.1526G>A	c.(1525-1527)GGC>GAC	p.G509D	ZNF16_uc003zeu.2_Missense_Mutation_p.G509D	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	509	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		TGTGTGCACGCCCTGGTGCTG	0.597													5	105					0	0	1	0	0		T	146156647	T	T	146156647	3	4	27	1	0	0	0	0	1	0	0	0	17763	739	26	2	526	2	ZNF16	8	146156647	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	139474	146156647	207375	4261	26612											
FOXD4	2298	broad.mit.edu	37	chr9	117366	117366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagcgtaagggcgtctccCggggccggtgttggggtagg	5	7	20	9	4	1	1	0	0	1	1	2	1	1	1	2	7	1	3	2	7	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:117366C>T	uc003zfz.2	-	1	1052	c.754G>A	c.(754-756)GGG>AGG	p.G252R		NM_207305	NP_997188	Q12950	FOXD4_HUMAN	forkhead box D4	252	Pro-rich.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	all_lung(41;0.218)	all_cancers(5;0.0395)|Acute lymphoblastic leukemia(5;1.91e-07)|all_hematologic(5;1.95e-06)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GGGCGTCTCCCGGGGCCGGTG	0.726													4	5					0	0	1	0	0		T	117366	T	T	117366	3	4	27	1	0	0	0	0	1	0	0	0	6013	652	23	1	569	1	FOXD4	9	117366	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08		117366	141096065	4262	26613											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													9	195					0	0	1	0	0		G	164038	G	G	164038	5	3	27	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	46672	164038	141049393	4263	26614											
KANK1	23189	broad.mit.edu	37	chr9	710960	710960	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaagactgaacatccagaAgaggcggaagccgtccgtgc	14	4	12	11	3	0	4	0	1	0	3	2	5	2	5	3	2	3	0	3	2	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:710960A>C	uc003zgl.1	+	7	843	c.194A>C	c.(193-195)AAG>ACG	p.K65T	KANK1_uc003zgm.2_Missense_Mutation_p.K65T|KANK1_uc003zgn.1_Missense_Mutation_p.K65T|KANK1_uc003zgo.1_Missense_Mutation_p.K65T|KANK1_uc003zgp.1_Missense_Mutation_p.K65T|KANK1_uc003zgq.2_5'UTR|KANK1_uc003zgr.1_5'UTR|KANK1_uc003zgs.1_5'UTR	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	65					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		AACATCCAGAAGAGGCGGAAG	0.473													7	73					0	0	1	0	0		C	710960	C	C	710960	3	2	27	1	0	0	0	0	1	0	0	0	7992	72	3	5	200	5	KANK1	9	710960	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	546922	710960	140502471	4264	26615											
DMRT3	58524	broad.mit.edu	37	chr9	977247	977247	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcagcaggccaacgagagCttggagagcctcatccccga	10	4	13	14	3	1	2	1	0	0	2	2	5	2	2	4	3	4	3	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:977247C>T	uc003zgw.1	+	1	284	c.246C>T	c.(244-246)AGC>AGT	p.S82S		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	82					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		CCAACGAGAGCTTGGAGAGCC	0.473													3	31					0	0	1	0	0		T	977247	T	T	977247	2	4	27	1	0	0	0	0	0	0	0	1	4593	796	28	2		2	DMRT3	9	977247	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	266287	977247	140236184	4265	26616											
DMRT3	58524	broad.mit.edu	37	chr9	990339	990339	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaaagccaacagaccgccGcttgaagtgttaaaaaagat	16	8	9	8	2	0	4	0	2	0	2	0	4	0	4	3	0	2	2	3	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:990339G>A	uc003zgw.1	+	2	791	c.753G>A	c.(751-753)CCG>CCA	p.P251P		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	251					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		ACAGACCGCCGCTTGAAGTGT	0.577													7	92					0	0	1	0	0		A	990339	A	A	990339	2	1	27	1	0	0	0	0	0	0	0	1	4593	1074	38	1		1	DMRT3	9	990339	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13092	990339	140223092	4266	26617											
DMRT2	10655	broad.mit.edu	37	chr9	1057243	1057243	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtctattcttaagaggccTtcatctgccatcactcgtgt	8	14	8	11	1	5	1	2	0	3	1	6	2	5	1	2	1	1	0	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:1057243T>C	uc003zha.2	+	4	1856	c.1656T>C	c.(1654-1656)CCT>CCC	p.P552P	DMRT2_uc003zgx.3_Silent_p.P319P|DMRT2_uc010mgz.2_Silent_p.P319P|DMRT2_uc003zgy.3_Silent_p.P396P|DMRT2_uc003zhb.3_3'UTR|DMRT2_uc011llt.1_3'UTR|DMRT2_uc011llu.1_3'UTR|DMRT2_uc011llv.1_Silent_p.P552P	NM_181872	NP_870987	Q9Y5R5	DMRT2_HUMAN	doublesex and mab-3 related transcription factor	552					male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0		all_lung(10;1.49e-09)|Lung NSC(10;1.86e-09)		Lung(218;0.0195)|GBM - Glioblastoma multiforme(50;0.0388)		TTAAGAGGCCTTCATCTGCCA	0.393													5	82					0	0	1	0	0		C	1057243	C	C	1057243	2	2	27	1	0	0	0	0	0	0	0	1	4592	1596	56	3		3	DMRT2	9	1057243	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	66904	1057243	140156188	4267	26618											
SMARCA2	6595	broad.mit.edu	37	chr9	2039604	2039604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgatccgcaggccatgaGccagcccaacagaggtccct	10	5	12	14	1	0	3	0	2	0	1	2	3	2	3	5	3	3	1	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:2039604G>A	uc003zhc.2	+	4	593	c.494G>A	c.(493-495)AGC>AAC	p.S165N	SMARCA2_uc003zhd.2_Missense_Mutation_p.S165N|SMARCA2_uc010mha.2_Missense_Mutation_p.S156N	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	165					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		CAGGCCATGAGCCAGCCCAAC	0.607													8	82					0	0	1	0	0		A	2039604	A	A	2039604	3	1	27	1	0	0	0	0	1	0	0	0	14794	971	34	2	504	2	SMARCA2	9	2039604	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	982361	2039604	139173827	4268	26619											
SMARCA2	6595	broad.mit.edu	37	chr9	2039854	2039854	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccgccgcaaccacagacGcagcaacaacagcagccggc	13	0	10	18	4	0	1	0	0	0	1	0	1	0	1	4	1	7	4	4	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:2039854G>A	uc003zhc.2	+	4	843	c.744G>A	c.(742-744)ACG>ACA	p.T248T	SMARCA2_uc003zhd.2_Silent_p.T248T|SMARCA2_uc010mha.2_Silent_p.T239T	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	248	Poly-Gln.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		aaccacagacgcagcaacaac	0.179													10	29					0	0	1	0	0		A	2039854	A	A	2039854	2	1	27	1	0	0	0	0	0	0	0	1	14794	1074	38	1		1	SMARCA2	9	2039854	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	250	2039854	139173577	4269	26620											
SMARCA2	6595	broad.mit.edu	37	chr9	2170423	2170423	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctactctaccgcaggtgtAacgtggagaaggtgcccagt	9	10	12	10	2	2	1	0	0	2	1	2	2	2	1	2	3	4	2	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:2170423A>G	uc003zhc.2	+	29	4303	c.4204A>G	c.(4204-4206)AAC>GAC	p.N1402D	SMARCA2_uc003zhd.2_Intron|SMARCA2_uc010mha.2_Intron|SMARCA2_uc011llw.1_Intron|SMARCA2_uc003zhf.2_Missense_Mutation_p.N66D|SMARCA2_uc011llx.1_Intron|SMARCA2_uc003zhe.2_Intron|SMARCA2_uc003zhg.2_Intron|SMARCA2_uc010mhb.2_Intron	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1402					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		ccgcaGGTGTAACGTGGAGAA	0.234													5	50					0	0	1	0	0		G	2170423	G	G	2170423	3	3	27	1	0	0	0	0	1	0	0	0	14794	362	13	3	4314	3	SMARCA2	9	2170423	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	130569	2170423	139043008	4270	26621											
VLDLR	7436	broad.mit.edu	37	chr9	2635505	2635505	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgcacaaatggtcgctgTattacgctgttgtggaaatg	10	12	12	7	2	0	0	0	0	0	0	1	1	0	1	0	2	2	5	0	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:2635505T>C	uc003zhk.1	+	2	532	c.135T>C	c.(133-135)TGT>TGC	p.C45C	VLDLR_uc003zhl.1_Silent_p.C45C|VLDLR_uc003zhm.1_RNA|VLDLR_uc003zhn.1_Silent_p.C45C	NM_003383	NP_003374	P98155	VLDLR_HUMAN	very low density lipoprotein receptor isoform a	45	Extracellular (Potential).|LDL-receptor class A 1.				cholesterol metabolic process|endocytosis|lipid transport|memory|very-low-density lipoprotein particle clearance	coated pit|integral to membrane|membrane fraction|plasma membrane|very-low-density lipoprotein particle	apolipoprotein binding|calcium ion binding|low-density lipoprotein receptor activity|very-low-density lipoprotein particle receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(50;0.0668)|Lung(218;0.123)		ATGGTCGCTGTATTACGCTGT	0.413													12	137					0	0	1	0	0		C	2635505	C	C	2635505	2	2	27	1	0	0	0	0	0	0	0	1	17200	1644	57	3		3	VLDLR	9	2635505	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	465082	2635505	138577926	4271	26622											
VLDLR	7436	broad.mit.edu	37	chr9	2648781	2648781	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatgatgcccaagacatcaTtgtctatcatgaacttgtac	13	12	7	9	0	3	3	2	2	1	1	3	4	3	3	1	0	3	1	1	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:2648781T>C	uc003zhk.1	+	14	2472	c.2075T>C	c.(2074-2076)ATT>ACT	p.I692T	VLDLR_uc003zhl.1_Missense_Mutation_p.I692T|VLDLR_uc003zhm.1_RNA|VLDLR_uc003zhn.1_Missense_Mutation_p.I651T	NM_003383	NP_003374	P98155	VLDLR_HUMAN	very low density lipoprotein receptor isoform a	692	Extracellular (Potential).|LDL-receptor class B 6.				cholesterol metabolic process|endocytosis|lipid transport|memory|very-low-density lipoprotein particle clearance	coated pit|integral to membrane|membrane fraction|plasma membrane|very-low-density lipoprotein particle	apolipoprotein binding|calcium ion binding|low-density lipoprotein receptor activity|very-low-density lipoprotein particle receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(50;0.0668)|Lung(218;0.123)		CAAGACATCATTGTCTATCAT	0.443													8	69					0	0	1	0	0		C	2648781	C	C	2648781	3	2	27	1	0	0	0	0	1	0	0	0	17200	1493	52	3	2129	3	VLDLR	9	2648781	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	13276	2648781	138564650	4272	26623											
KCNV2	169522	broad.mit.edu	37	chr9	2718173	2718173	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgacgactacgaggagcAgacagacgaatacttcttcg	12	7	12	10	5	1	2	0	0	1	2	2	7	1	3	0	1	4	1	0	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:2718173A>T	uc003zho.1	+	1	648	c.434A>T	c.(433-435)CAG>CTG	p.Q145L		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	145	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		TACGAGGAGCAGACAGACGAA	0.647													4	28					0	0	1	0	0		T	2718173	T	T	2718173	3	4	27	1	0	0	0	0	1	0	0	0	8111	188	7	5	436	5	KCNV2	9	2718173	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	69392	2718173	138495258	4273	26624											
KCNV2	169522	broad.mit.edu	37	chr9	2718962	2718962	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcacgctgcgccagtgctAccagcaggtgggctgcctgc	5	8	13	15	2	1	0	1	0	0	0	1	0	1	0	3	2	6	4	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:2718962A>G	uc003zho.1	+	1	1437	c.1223A>G	c.(1222-1224)TAC>TGC	p.Y408C		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	408	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		CGCCAGTGCTACCAGCAGGTG	0.622													3	41					0	0	1	0	0		G	2718962	G	G	2718962	3	3	27	1	0	0	0	0	1	0	0	0	8111	391	14	3	1225	3	KCNV2	9	2718962	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	789	2718962	138494469	4274	26625											
KCNV2	169522	broad.mit.edu	37	chr9	2729454	2729454	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctctacaggtgagcatCtccaccgtgggctacggaga	8	9	11	13	2	2	2	0	1	2	1	4	3	3	2	3	3	3	2	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:2729454C>A	uc003zho.1	+	2	1579	c.1365C>A	c.(1363-1365)ATC>ATA	p.I455I		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	455						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		AGGTGAGCATCTCCACCGTGG	0.542													5	73					0.014758	0.0150623	1	1	0		A	2729454	A	A	2729454	2	1	27	1	0	0	0	0	0	0	0	1	8111	903	32	5		5	KCNV2	9	2729454	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10492	2729454	138483977	4275	26626											
GLIS3	169792	broad.mit.edu	37	chr9	3898791	3898791	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcagggactgcacggtgagGcaatctgtgagcaggtctgg	8	8	17	8	1	2	2	0	2	2	0	2	3	2	3	0	5	3	4	0	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:3898791G>A	uc003zhw.1	-	6	1757	c.1563C>T	c.(1561-1563)TGC>TGT	p.C521C	GLIS3_uc003zhx.1_Silent_p.C676C|GLIS3_uc010mhf.1_Silent_p.C70C|GLIS3_uc003zhv.1_RNA|GLIS3_uc003zhy.1_Silent_p.C454C|GLIS3_uc003zhz.1_Silent_p.C454C|C9orf70_uc003zia.2_RNA	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	521					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		GCACGGTGAGGCAATCTGTGA	0.582													13	41					0	0	1	0	0		A	3898791	A	A	3898791	2	1	27	1	0	0	0	0	0	0	0	1	6462	1195	42	2		2	GLIS3	9	3898791	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1169337	3898791	137314640	4276	26627											
GLIS3	169792	broad.mit.edu	37	chr9	4117945	4117945	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgagctcctcctgctggtcGtacagggcgctgcagtcgat	6	9	13	13	4	0	0	0	0	0	0	4	2	2	0	2	2	4	5	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:4117945G>A	uc003zhw.1	-	3	1262	c.1068C>T	c.(1066-1068)TAC>TAT	p.Y356Y	GLIS3_uc003zhx.1_Silent_p.Y511Y|GLIS3_uc003zic.1_Silent_p.Y511Y|GLIS3_uc003zie.1_Silent_p.Y511Y|GLIS3_uc010mhh.1_Silent_p.Y386Y|GLIS3_uc003zid.1_Silent_p.Y289Y|GLIS3_uc010mhi.1_Silent_p.Y318Y|GLIS3_uc003zif.1_Silent_p.Y289Y|GLIS3_uc003zig.1_Silent_p.Y355Y|GLIS3_uc003zih.1_Silent_p.Y289Y|GLIS3_uc003zhy.1_Silent_p.Y289Y|GLIS3_uc003zhz.1_Silent_p.Y289Y|GLIS3_uc003zib.1_Silent_p.Y355Y|GLIS3_uc010mhg.1_Silent_p.Y289Y	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	356	C2H2-type 1.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		CCTGCTGGTCGTACAGGGCGC	0.647													9	84					0	0	1	0	0		A	4117945	A	A	4117945	2	1	27	1	0	0	0	0	0	0	0	1	6462	1140	40	1		1	GLIS3	9	4117945	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	219154	4117945	137095486	4277	26628											
GLIS3	169792	broad.mit.edu	37	chr9	4285971	4285971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttccataggatttgctggCagaaaatgggatgggggaga	11	11	15	4	0	0	2	0	0	0	2	1	5	1	4	1	5	1	2	1	5	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:4285971C>T	uc003zii.1	-	2	1168	c.455G>A	c.(454-456)TGC>TAC	p.C152Y	GLIS3_uc003zhx.1_Intron|GLIS3_uc003zic.1_Intron|GLIS3_uc003zie.1_Intron|GLIS3_uc010mhh.1_Intron|GLIS3_uc003zid.1_Intron|GLIS3_uc010mhi.1_Intron|GLIS3_uc003zif.1_Intron|GLIS3_uc003zig.1_Intron|GLIS3_uc003zih.1_Intron			Q8NEA6	GLIS3_HUMAN	SubName: Full=GLIS family zinc finger 3 transcript variant TS2; SubName: Full=GLIS family zinc finger 3 transcript variant TS3; SubName: Full=GLIS family zinc finger 3 transcript variant TS4; SubName: Full=GLIS family zinc finger 3 transcript variant TS5; Flags: Fragment;	Error:Variant_position_missing_in_Q8NEA6_after_alignment					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		GATTTGCTGGCAGAAAATGGG	0.398													9	43					0	0	1	0	0		T	4285971	T	T	4285971	3	4	27	1	0	0	0	0	1	0	0	0	6462	725	25	2		2	GLIS3	9	4285971	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	168026	4285971	136927460	4278	26629											
JAK2	3717	broad.mit.edu	37	chr9	5044429	5044429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcctcgttggtattgcaGtggcagcaacagagcctatc	8	12	10	11	1	0	1	0	0	0	1	3	1	1	1	2	2	4	5	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:5044429G>A	uc010mhm.2	+	4	490	c.377G>A	c.(376-378)AGT>AAT	p.S126N	JAK2_uc003ziw.2_Missense_Mutation_p.S126N	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	126	Interaction with cytokine/interferon/growth hormone receptors (By similarity).|FERM.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		TGGTATTGCAGTGGCAGCAAC	0.388		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				6	78					0	0	1	0	0		A	5044429	A	A	5044429	3	1	27	1	0	0	0	0	1	0	0	0	7954	1029	36	4	387	4	JAK2	9	5044429	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	758458	5044429	136169002	4279	26630											
JAK2	3717	broad.mit.edu	37	chr9	5070030	5070030	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaatggtgtttcacaaaaTcagaaatgaagatttgatat	17	12	7	5	0	2	4	2	2	0	2	2	4	2	4	1	1	0	1	1	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:5070030T>A	uc010mhm.2	+	11	1732	c.1619T>A	c.(1618-1620)ATC>AAC	p.I540N	JAK2_uc003ziw.2_Missense_Mutation_p.I540N	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	540					actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding	p.I540_E543>MK(7)|p.I540_D544>MK(1)|p.I540I(1)|p.I540_E543>KK(1)|p.I540_N542>S(1)|p.H538_I540>DLS(1)	PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		TTTCACAAAATCAGAAATGAA	0.333		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				4	32					0	0	1	0	0		A	5070030	A	A	5070030	3	1	27	1	0	0	0	0	1	0	0	0	7954	1435	50	5	1657	5	JAK2	9	5070030	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25601	5070030	136143401	4280	26631											
PDCD1LG2	80380	broad.mit.edu	37	chr9	5557640	5557640	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatggaacccaggacccaTccaacttggctgcttcacat	11	8	8	14	0	1	1	1	0	0	1	2	3	2	3	3	3	3	2	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:5557640T>A	uc003zjg.3	+	5	927	c.654T>A	c.(652-654)CAT>CAA	p.H218Q	C9orf46_uc003zjd.2_Intron|PDCD1LG2_uc011lmc.1_Missense_Mutation_p.H218Q|PDCD1LG2_uc011lmd.1_Missense_Mutation_p.S217T|PDCD1LG2_uc010mhp.1_Missense_Mutation_p.S127T|PDCD1LG2_uc010mho.1_Missense_Mutation_p.H128Q	NM_025239	NP_079515	Q9BQ51	PD1L2_HUMAN	programmed cell death 1 ligand 2 precursor	218	Extracellular (Potential).				immune response|T cell costimulation	endomembrane system|extracellular region|integral to membrane|plasma membrane	receptor activity				0	all_hematologic(13;0.158)	Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000767)|Lung(218;0.112)		CCAGGACCCATCCAACTTGGC	0.473													14	144					0	0	1	0	0		A	5557640	A	A	5557640	3	1	27	1	0	0	0	0	1	0	0	0	11637	1432	50	5	668	5	PDCD1LG2	9	5557640	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	487610	5557640	135655791	4281	26632											
KDM4C	23081	broad.mit.edu	37	chr9	7013971	7013971	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaagtctccttatttccTgtgcaaagtgctgcgtacgg	9	12	10	10	2	1	0	0	0	1	0	3	1	2	0	2	1	5	3	2	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:7013971T>C	uc003zkh.2	+	14	2732	c.2152T>C	c.(2152-2154)TGT>CGT	p.C718R	KDM4C_uc010mhu.2_Missense_Mutation_p.C740R|KDM4C_uc011lmi.1_Missense_Mutation_p.C718R|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Missense_Mutation_p.C718R|KDM4C_uc011lmk.1_Missense_Mutation_p.C463R|KDM4C_uc011lml.1_Missense_Mutation_p.C405R	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	718	PHD-type 1.				positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						CCTTATTTCCTGTGCAAAGTG	0.368													9	96					0	0	1	0	0		C	7013971	C	C	7013971	3	2	27	1	0	0	0	0	1	0	0	0	8146	1580	55	3	2272	3	KDM4C	9	7013971	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1456331	7013971	134199460	4282	26633											
PTPRD	5789	broad.mit.edu	37	chr9	8633320	8633320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcacttgagcacttaccccGcaaaactgtgagtctggtgg	9	11	10	11	1	2	2	1	2	1	0	2	2	2	2	2	2	3	2	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:8633320G>A	uc003zkk.2	-	13	1060	c.349C>T	c.(349-351)CGG>TGG	p.R117W	PTPRD_uc003zkp.2_Missense_Mutation_p.R117W|PTPRD_uc003zkq.2_Missense_Mutation_p.R117W|PTPRD_uc003zkr.2_Missense_Mutation_p.R117W|PTPRD_uc003zks.2_Missense_Mutation_p.R117W|PTPRD_uc003zkl.2_Missense_Mutation_p.R117W|PTPRD_uc003zkm.2_Missense_Mutation_p.R117W|PTPRD_uc003zkn.2_Missense_Mutation_p.R117W|PTPRD_uc003zko.2_Missense_Mutation_p.R117W|PTPRD_uc003zkt.1_Missense_Mutation_p.R117W	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	117	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CACTTACCCCGCAAAACTGTG	0.418										TSP Lung(15;0.13)			6	75					0	0	1	0	0		A	8633320	A	A	8633320	3	1	27	1	0	0	0	0	1	0	0	0	12824	1086	38	1	5589	1	PTPRD	9	8633320	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1619349	8633320	132580111	4283	26634											
MPDZ	8777	broad.mit.edu	37	chr9	13107034	13107034	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacagcttcttcatgggtgActccttctagactctgccca	8	12	7	14	0	4	2	1	1	3	1	5	2	5	2	2	1	3	1	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:13107034A>G	uc010mhy.2	-	45	6107	c.6056T>C	c.(6055-6057)GTC>GCC	p.V2019A	MPDZ_uc003zkx.3_Missense_Mutation_p.V243A|MPDZ_uc003zky.3_Missense_Mutation_p.V582A|MPDZ_uc010mib.2_Missense_Mutation_p.V753A|MPDZ_uc010mhx.2_Missense_Mutation_p.V870A|MPDZ_uc011lmm.1_Missense_Mutation_p.V907A|MPDZ_uc003zkz.3_Missense_Mutation_p.V741A|MPDZ_uc010mhz.2_Missense_Mutation_p.V2015A|MPDZ_uc011lmn.1_Missense_Mutation_p.V1986A|MPDZ_uc003zlb.3_Missense_Mutation_p.V2019A	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	2048	PDZ 13.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		TTCATGGGTGACTCCTTCTAG	0.473													37	154					0	0	1	0	0		G	13107034	G	G	13107034	3	3	27	1	0	0	0	0	1	0	0	0	9740	275	10	3	73	3	MPDZ	9	13107034	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4473714	13107034	128106397	4284	26635											
MPDZ	8777	broad.mit.edu	37	chr9	13168518	13168518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacctccatgaataatgcttCgaacgatcatccccaagcca	13	8	5	15	2	1	1	1	1	0	0	4	3	3	1	5	0	3	1	5	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:13168518C>T	uc010mia.1	-	21	3158	c.3101G>A	c.(3100-3102)CGA>CAA	p.R1034Q	MPDZ_uc003zkz.3_5'UTR|MPDZ_uc010mhy.2_Missense_Mutation_p.R1034Q|MPDZ_uc010mhz.2_Missense_Mutation_p.R1034Q|MPDZ_uc011lmn.1_Missense_Mutation_p.R1034Q|MPDZ_uc003zlb.3_Missense_Mutation_p.R1034Q	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1034	PDZ 6.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		AATAATGCTTCGAACGATCAT	0.363													54	191					0	0	1	0	0		T	13168518	T	T	13168518	3	4	27	1	0	0	0	0	1	0	0	0	9740	884	31	1	3124	1	MPDZ	9	13168518	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61484	13168518	128044913	4285	26636											
MPDZ	8777	broad.mit.edu	37	chr9	13247792	13247792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctgctgcatgcagggcccGatttttgtctataccaaaga	9	12	9	11	1	2	1	0	0	2	1	2	2	2	1	2	1	4	3	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:13247792G>A	uc010mia.1	-	2	82	c.25C>T	c.(25-27)CGG>TGG	p.R9W	MPDZ_uc010mhy.2_Missense_Mutation_p.R9W|MPDZ_uc010mhz.2_Missense_Mutation_p.R9W|MPDZ_uc011lmn.1_Missense_Mutation_p.R9W|MPDZ_uc003zlb.3_Missense_Mutation_p.R9W	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	9	L27.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		TGCAGGGCCCGATTTTTGTCT	0.458													20	228					0	0	1	0	0		A	13247792	A	A	13247792	3	1	27	1	0	0	0	0	1	0	0	0	9740	1057	37	1	6276	1	MPDZ	9	13247792	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	79274	13247792	127965639	4286	26637											
NFIB	4781	broad.mit.edu	37	chr9	14120524	14120524	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtggggaggatatctgAttgttggatgagaaaagtag	12	11	16	2	0	2	2	1	2	1	1	2	6	2	5	0	5	0	2	0	5	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:14120524A>T	uc003zle.2	-	8	1595	c.1160T>A	c.(1159-1161)ATC>AAC	p.I387N	NFIB_uc003zld.2_Missense_Mutation_p.I135N|NFIB_uc003zlf.2_Missense_Mutation_p.I387N|NFIB_uc011lmo.1_Missense_Mutation_p.I387N	NM_005596	NP_005587	O00712	NFIB_HUMAN	nuclear factor I/B	387					anterior commissure morphogenesis|chondrocyte differentiation|Clara cell differentiation|commissural neuron axon guidance|DNA replication|glial cell differentiation|lung ciliated cell differentiation|negative regulation of DNA binding|negative regulation of epithelial cell proliferation involved in lung morphogenesis|negative regulation of mesenchymal cell proliferation involved in lung development|positive regulation of transcription from RNA polymerase II promoter|principal sensory nucleus of trigeminal nerve development|Type I pneumocyte differentiation|Type II pneumocyte differentiation	cerebellar mossy fiber|nucleolus|nucleus	RNA polymerase II transcription corepressor activity|sequence-specific DNA binding RNA polymerase II transcription factor activity				0				GBM - Glioblastoma multiforme(50;4.4e-08)|LUAD - Lung adenocarcinoma(58;0.119)|Lung(218;0.164)		AGGATATCTGATTGTTGGATG	0.473			T	MYB|HGMA2	adenoid cystic carcinoma|lipoma								6	125					0	0	1	0	0		T	14120524	T	T	14120524	3	4	27	1	0	0	0	0	1	0	0	0	10390	333	12	5	110	5	NFIB	9	14120524	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	872732	14120524	127092907	4287	26638											
FREM1	158326	broad.mit.edu	37	chr9	14842570	14842570	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaaatatccggaagaccacGaagtctttggtggagtcgct	11	10	11	9	3	2	1	1	0	1	1	4	4	3	3	2	3	0	1	2	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:14842570G>A	uc003zlm.2	-	9	2072	c.1482C>T	c.(1480-1482)TTC>TTT	p.F494F	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	494	CSPG 2.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GGAAGACCACGAAGTCTTTGG	0.517													7	124					0	0	1	0	0		A	14842570	A	A	14842570	2	1	27	1	0	0	0	0	0	0	0	1	6058	1049	37	1		1	FREM1	9	14842570	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	722046	14842570	126370861	4288	26639											
BNC2	54796	broad.mit.edu	37	chr9	16583063	16583063	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacattcacatgtgcagttTaccagtgtgcaacggatggc	12	10	10	9	1	1	0	1	0	0	0	1	1	1	1	1	2	5	3	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:16583063T>C	uc003zml.2	-	4	491	c.351A>G	c.(349-351)GTA>GTG	p.V117V	BNC2_uc011lmw.1_Silent_p.V22V|BNC2_uc003zmm.2_Silent_p.V75V|BNC2_uc003zmq.1_Silent_p.V131V|BNC2_uc003zmr.1_Silent_p.V154V|BNC2_uc003zmp.1_Silent_p.V145V|BNC2_uc010mij.1_Silent_p.V39V|BNC2_uc003zmu.1_RNA|BNC2_uc010mim.1_RNA|BNC2_uc010min.1_RNA|BNC2_uc003zmo.1_Silent_p.V39V|BNC2_uc003zms.1_RNA|BNC2_uc010mik.1_RNA|BNC2_uc010mil.1_RNA|BNC2_uc003zmt.1_RNA	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	117					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		ATGTGCAGTTTACCAGTGTGC	0.418													13	134					0	0	1	0	0		C	16583063	C	C	16583063	2	2	27	1	0	0	0	0	0	0	0	1	1476	1741	61	3		3	BNC2	9	16583063	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1740493	16583063	124630368	4289	26640											
CNTLN	54875	broad.mit.edu	37	chr9	17394904	17394904	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgaaagtgagatctggaCgatatgattgtaagacaact	15	10	10	6	1	1	4	0	3	1	2	1	7	1	5	1	1	1	1	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:17394904C>T	uc003zmz.2	+	15	2478	c.2452C>T	c.(2452-2454)CGA>TGA	p.R818*	CNTLN_uc003zmy.2_Nonsense_Mutation_p.R818*|CNTLN_uc010mio.2_Nonsense_Mutation_p.R497*	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	818						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		GAGATCTGGACGATATGATTG	0.418													10	51					0	0	1	0	0		T	17394904	T	T	17394904	4	4	27	1	0	0	0	0	0	1	0	0	3642	528	19	1	2540	1	CNTLN	9	17394904	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	811841	17394904	123818527	4290	26641											
SH3GL2	6456	broad.mit.edu	37	chr9	17789413	17789413	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctaaagaagttggagggTcgacgcctggattttgatta	11	12	12	6	2	1	2	0	1	1	1	2	5	1	4	1	3	0	1	1	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:17789413T>G	uc003zna.2	+	6	777	c.489T>G	c.(487-489)GGT>GGG	p.G163G	SH3GL2_uc011lmx.1_Silent_p.G128G|SH3GL2_uc011lmy.1_Silent_p.G116G	NM_003026	NP_003017	Q99962	SH3G2_HUMAN	SH3-domain GRB2-like 2	163	BAR.				axon guidance|central nervous system development|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	cytosol|Golgi membrane|plasma membrane	identical protein binding|lipid binding			skin(1)	1				GBM - Glioblastoma multiforme(50;2.71e-10)|Lung(42;0.203)		AGTTGGAGGGTCGACGCCTGG	0.428													4	81					0	0	1	0	0		G	17789413	G	G	17789413	2	3	27	1	0	0	0	0	0	0	0	1	14276	1654	58	5		5	SH3GL2	9	17789413	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	394509	17789413	123424018	4291	26642											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18684731	18684731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagagaaacttccagtcgagGccaagttgccatggttcaaa	13	8	10	10	1	1	1	1	0	0	1	3	3	2	1	3	2	2	2	3	2	3	3	rs149221350	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:18684731G>A	uc003zne.3	+	13	1634	c.1507G>A	c.(1507-1509)GCC>ACC	p.A503T	ADAMTSL1_uc003znc.3_Missense_Mutation_p.A503T	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	503						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		TCCAGTCGAGGCCAAGTTGCC	0.428													3	35					0	0	1	0	0		A	18684731	A	A	18684731	3	1	27	1	0	0	0	0	1	0	0	0	274	1203	42	2	1557	2	ADAMTSL1	9	18684731	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	895318	18684731	122528700	4292	26643											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18826377	18826377	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgctgctcacaaacgtgTcctcctcggatcagggcctg	6	10	10	15	2	2	0	2	0	0	0	5	1	4	1	4	2	3	2	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:18826377T>C	uc003zne.3	+	22	4157	c.4030T>C	c.(4030-4032)TCC>CCC	p.S1344P	ADAMTSL1_uc003znf.3_Missense_Mutation_p.S45P	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	1344	Ig-like C2-type 3.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		CACAAACGTGTCCTCCTCGGA	0.552													3	27					0	0	1	0	0		C	18826377	C	C	18826377	3	2	27	1	0	0	0	0	1	0	0	0	274	1667	58	3	4120	3	ADAMTSL1	9	18826377	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	141646	18826377	122387054	4293	26644											
FAM154A	158297	broad.mit.edu	37	chr9	18928404	18928404	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagtccagctggggaacGggcttgactggctctgtgcg	6	8	17	10	2	1	1	0	1	1	0	2	2	2	2	1	5	3	4	1	5	2	1	rs141278609		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:18928404G>A	uc003zni.1	-	4	1349	c.1071C>T	c.(1069-1071)CCC>CCT	p.P357P	FAM154A_uc010mip.1_Silent_p.P165P	NM_153707	NP_714918	Q8IYX7	F154A_HUMAN	hypothetical protein LOC158297	357										pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.53e-16)		GCTGGGGAACGGGCTTGACTG	0.577													12	50					0	0	1	0	0		A	18928404	A	A	18928404	2	1	27	1	0	0	0	0	0	0	0	1	5474	1103	39	1		1	FAM154A	9	18928404	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	102027	18928404	122285027	4294	26645											
FAM154A	158297	broad.mit.edu	37	chr9	18941824	18941824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactggtgccactttgtgagGcccaaaatctctcctgtaag	9	11	9	12	0	1	1	0	1	1	0	3	1	2	1	3	2	1	1	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:18941824G>A	uc003zni.1	-	3	510	c.232C>T	c.(232-234)CCT>TCT	p.P78S	FAM154A_uc010mip.1_Intron	NM_153707	NP_714918	Q8IYX7	F154A_HUMAN	hypothetical protein LOC158297	78										pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.53e-16)		ACTTTGTGAGGCCCAAAATCT	0.463													9	83					0	0	1	0	0		A	18941824	A	A	18941824	3	1	27	1	0	0	0	0	1	0	0	0	5474	1203	42	2	1200	2	FAM154A	9	18941824	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13420	18941824	122271607	4295	26646											
SLC24A2	25769	broad.mit.edu	37	chr9	19786630	19786630	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctgatggtaaccctgtgCtaccctagggccacttacaa	9	11	8	13	0	1	1	0	1	1	0	2	1	1	1	3	2	4	2	3	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:19786630C>A	uc003zoa.1	-	1	297	c.235G>T	c.(235-237)GCA>TCA	p.A79S	SLC24A2_uc003zob.1_Missense_Mutation_p.A79S	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	79	Extracellular (Potential).				visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		TAACCCTGTGCTACCCTAGGG	0.453													4	107					0.00024832	0.000261516	1	1	0		A	19786630	A	A	19786630	3	1	27	1	0	0	0	0	1	0	0	0	14491	797	28	5	1790	5	SLC24A2	9	19786630	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	844806	19786630	121426801	4296	26647											
KIAA1797	54914	broad.mit.edu	37	chr9	20881935	20881935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atatgcctcgtgggatatatCactctgcattaaaaggaggt	12	12	10	7	1	2	0	1	0	1	0	3	2	2	2	1	3	2	1	1	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:20881935C>T	uc003zog.1	+	22	2746	c.2383C>T	c.(2383-2385)CAC>TAC	p.H795Y	KIAA1797_uc003zoh.1_Missense_Mutation_p.H231Y	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	795						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		TGGGATATATCACTCTGCATT	0.393													12	121					0	0	1	0	0		T	20881935	T	T	20881935	3	4	27	1	0	0	0	0	1	0	0	0	8274	826	29	4	2457	4	KIAA1797	9	20881935	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1095305	20881935	120331496	4297	26648											
KLHL9	55958	broad.mit.edu	37	chr9	21333123	21333123	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaagtgactctggaagaTcaaaaactttatgccactca	15	9	6	11	0	3	2	2	1	1	1	3	3	3	3	2	1	2	0	2	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:21333123T>A	uc003zoy.2	-	1	2307	c.1736A>T	c.(1735-1737)GAT>GTT	p.D579V	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	579	Kelch 6.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		CTCTGGAAGATCAAAAACTTT	0.403													4	79					0	0	1	0	0		A	21333123	A	A	21333123	3	1	27	1	0	0	0	0	1	0	0	0	8412	1435	50	5	121	5	KLHL9	9	21333123	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	451188	21333123	119880308	4298	26649											
IFNA8	3445	broad.mit.edu	37	chr9	21409397	21409397	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataaacagttccagaaggcTcaagccatctctgtcctcca	12	9	7	13	0	2	1	1	0	1	1	6	2	5	1	4	1	2	2	4	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:21409397T>A	uc003zpc.1	+	1	252	c.222T>A	c.(220-222)GCT>GCA	p.A74A		NM_002170	NP_002161	P32881	IFNA8_HUMAN	interferon, alpha 8 precursor	74					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.0174)		TCCAGAAGGCTCAAGCCATCT	0.473													14	96					0	0	1	0	0		A	21409397	A	A	21409397	2	1	27	1	0	0	0	0	0	0	0	1	7559	1538	54	5		5	IFNA8	9	21409397	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	76274	21409397	119804034	4299	26650											
IFNE	338376	broad.mit.edu	37	chr9	21481336	21481336	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtcccatgagtgcttctaGgtattctagctgttgatgaa	9	14	10	8	0	2	3	0	3	2	0	3	3	3	3	1	1	2	4	1	1	4	6	rs143925423		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:21481336G>T	uc003zpg.2	-	1	977	c.358C>A	c.(358-360)CTA>ATA	p.L120I	LOC554202_uc003zpe.2_Intron|LOC554202_uc003zpf.2_Intron	NM_176891	NP_795372	Q86WN2	IFNE_HUMAN	interferon, epsilon precursor	120					defense response|response to virus	extracellular space	cytokine activity|cytokine receptor binding				0						AGTGCTTCTAGGTATTCTAGC	0.428													20	155					3.62473e-10	4.01013e-10	1	1	0		T	21481336	T	T	21481336	3	4	27	1	0	0	0	0	1	0	0	0	7563	991	35	5	272	5	IFNE	9	21481336	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	71939	21481336	119732095	4300	26651											
MTAP	4507	broad.mit.edu	37	chr9	21816750	21816750	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggggaagataaaaaatgTtgattgcgtcctccttgcaa	12	13	10	6	1	0	2	0	1	0	1	2	3	2	3	2	2	2	2	2	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:21816750T>C	uc003zph.2	+	3	271	c.158T>C	c.(157-159)GTT>GCT	p.V53A	MTAP_uc003zpi.1_Missense_Mutation_p.V53A|MTAP_uc010mit.2_RNA|MTAP_uc011lnk.1_Missense_Mutation_p.V70A|MTAP_uc011lnl.1_5'Flank	NM_002451	NP_002442	Q13126	MTAP_HUMAN	5'-methylthioadenosine phosphorylase	53					nucleoside metabolic process	cytoplasm	phosphorylase activity|S-methyl-5-thioadenosine phosphorylase activity			central_nervous_system(1)	1		all_cancers(5;0)|Hepatocellular(5;0.00162)|Colorectal(97;0.173)		GBM - Glioblastoma multiforme(3;0)|Lung(24;2.24e-57)|LUSC - Lung squamous cell carcinoma(38;1.97e-36)|STAD - Stomach adenocarcinoma(4;3.26e-05)|OV - Ovarian serous cystadenocarcinoma(39;0.00931)|COAD - Colon adenocarcinoma(8;0.15)	Adenine(DB00173)	ATAAAAAATGTTGATTGCGTC	0.294													5	197					0	0	1	0	0		C	21816750	C	C	21816750	3	2	27	1	0	0	0	0	1	0	0	0	9929	1725	60	3	168	3	MTAP	9	21816750	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	335414	21816750	119396681	4301	26652											
DMRTA1	63951	broad.mit.edu	37	chr9	22447088	22447088	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcggtcacagtgtggcagCagagaccgaggcgttagcgg	9	5	18	9	4	1	1	1	0	0	1	1	4	1	1	1	4	3	3	1	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:22447088C>G	uc003zpp.1	+	1	249	c.24C>G	c.(22-24)AGC>AGG	p.S8R		NM_022160	NP_071443	Q5VZB9	DMRTA_HUMAN	DMRT-like family A1	8					cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|skin(1)	2		all_cancers(5;4.09e-243)|Acute lymphoblastic leukemia(3;8.25e-150)|all_hematologic(3;4.25e-147)|Esophageal squamous(3;2.32e-09)|Renal(3;1.71e-07)|Breast(3;2.07e-06)|Hepatocellular(5;0.00563)		GBM - Glioblastoma multiforme(1;5.12e-278)|Lung(24;8.2e-52)|LUSC - Lung squamous cell carcinoma(38;1.46e-37)|OV - Ovarian serous cystadenocarcinoma(39;0.0517)		AGTGTGGCAGCAGAGACCGAG	0.667													3	13					0	0	1	0	0		G	22447088	G	G	22447088	3	3	27	1	0	0	0	0	1	0	0	0	4594	709	25	5	26	5	DMRTA1	9	22447088	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	630338	22447088	118766343	4302	26653											
C9orf82	79886	broad.mit.edu	37	chr9	26842414	26842414	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgaacatcttctggtggaGgaacagccagggtggctgct	8	10	15	8	0	2	1	0	1	2	0	2	3	2	3	1	5	4	3	1	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:26842414G>T	uc003zqc.2	-	6	983	c.971C>A	c.(970-972)CCT>CAT	p.P324H	C9orf82_uc003zqb.2_Missense_Mutation_p.P179H	NM_024828	NP_079104	Q9H8G2	CI082_HUMAN	hypothetical protein LOC79886	324											0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(42;1.39e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)		TTCTGGTGGAGGAACAGCCAG	0.473													21	90					4.35082e-09	4.79675e-09	1	1	0		T	26842414	T	T	26842414	3	4	27	1	0	0	0	0	1	0	0	0	2502	1000	35	5	118	5	C9orf82	9	26842414	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4395326	26842414	114371017	4303	26654											
PLAA	9373	broad.mit.edu	37	chr9	26919405	26919405	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgatccagaaacataggAttcaaatcattcttctgtaa	15	13	5	8	0	4	2	2	1	2	1	5	3	5	3	1	1	1	1	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:26919405A>T	uc003zqd.2	-	9	1745	c.1320T>A	c.(1318-1320)AAT>AAA	p.N440K	PLAA_uc003zqe.2_Missense_Mutation_p.N440K	NM_001031689	NP_001026859	Q9Y263	PLAP_HUMAN	phospholipase A2-activating protein	440	PFU.				phospholipid metabolic process|signal transduction		phospholipase A2 activator activity				0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(218;1.32e-05)|LUSC - Lung squamous cell carcinoma(38;0.00011)		GAAACATAGGATTCAAATCAT	0.353													13	158					0	0	1	0	0		T	26919405	T	T	26919405	3	4	27	1	0	0	0	0	1	0	0	0	12030	330	12	5	1091	5	PLAA	9	26919405	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	76991	26919405	114294026	4304	26655											
PLAA	9373	broad.mit.edu	37	chr9	26935065	26935065	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattggactgtccagtgagaAaatgcatatattgtggtcat	12	13	10	6	0	1	1	1	1	0	1	2	3	2	2	1	2	1	1	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:26935065A>G	uc003zqd.2	-	2	714	c.289T>C	c.(289-291)TTC>CTC	p.F97L	PLAA_uc003zqe.2_Missense_Mutation_p.F97L	NM_001031689	NP_001026859	Q9Y263	PLAP_HUMAN	phospholipase A2-activating protein	97	WD 2.			F -> L (in Ref. 5; AAD42075).	phospholipid metabolic process|signal transduction		phospholipase A2 activator activity				0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(218;1.32e-05)|LUSC - Lung squamous cell carcinoma(38;0.00011)		TCCAGTGAGAAAATGCATATA	0.378													5	70					0	0	1	0	0		G	26935065	G	G	26935065	3	3	27	1	0	0	0	0	1	0	0	0	12030	14	1	3	2150	3	PLAA	9	26935065	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	15660	26935065	114278366	4305	26656											
LRRC19	64922	broad.mit.edu	37	chr9	26997993	26997993	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaccctgttgaattacatAgatggagtttctacagatat	12	14	8	7	0	1	3	0	1	1	2	1	4	1	4	1	1	3	3	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:26997993A>G	uc003zqh.2	-	3	439	c.328T>C	c.(328-330)TAT>CAT	p.Y110H	IFT74_uc010mja.2_Intron|IFT74_uc010mjb.2_Intron|IFT74_uc003zqf.3_Intron|IFT74_uc003zqg.3_Intron	NM_022901	NP_075052	Q9H756	LRC19_HUMAN	leucine rich repeat containing 19 precursor	110	LRR 3.|Extracellular (Potential).					integral to membrane					0		all_neural(11;1.81e-09)		Lung(218;1.06e-05)|LUSC - Lung squamous cell carcinoma(38;0.0001)		TGAATTACATAGATGGAGTTT	0.323													15	118					0	0	1	0	0		G	26997993	G	G	26997993	3	3	27	1	0	0	0	0	1	0	0	0	8993	420	15	3	796	3	LRRC19	9	26997993	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	62928	26997993	114215438	4306	26657											
MOBKL2B	79817	broad.mit.edu	37	chr9	27455355	27455355	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatccgattgaagaagtccAccacatgtactgccacccag	12	8	8	13	1	0	3	0	2	0	1	2	4	2	3	5	0	2	1	5	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:27455355A>G	uc003zqn.2	-	2	690	c.194T>C	c.(193-195)GTG>GCG	p.V65A		NM_024761	NP_079037	Q86TA1	MOL2B_HUMAN	MOB1, Mps One Binder kinase activator-like 2B	65							metal ion binding|protein binding			ovary(1)|pleura(1)	2		all_neural(11;9.12e-11)		Lung(218;6.54e-05)|LUSC - Lung squamous cell carcinoma(38;0.000397)		GAAGAAGTCCACCACATGTAC	0.562													7	89					0	0	1	0	0		G	27455355	G	G	27455355	3	3	27	1	0	0	0	0	1	0	0	0	9703	159	6	3	468	3	MOBKL2B	9	27455355	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	457362	27455355	113758076	4307	26658											
ACO1	48	broad.mit.edu	37	chr9	32418352	32418352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggcttttcacaacatGcggattattccccctggctc	7	12	7	15	1	1	0	1	0	0	0	4	1	3	1	3	3	2	2	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:32418352G>A	uc003zqw.3	+	6	656	c.501G>A	c.(499-501)ATG>ATA	p.M167I	ACO1_uc010mjh.1_Missense_Mutation_p.M1I|ACO1_uc003zqx.3_Missense_Mutation_p.M167I|ACO1_uc003zqy.3_RNA	NM_002197	NP_002188	P21399	ACOC_HUMAN	aconitase 1	167					citrate metabolic process|response to iron(II) ion|tricarboxylic acid cycle	cytosol|endoplasmic reticulum|Golgi apparatus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron-responsive element binding|isocitrate hydro-lyase (cis-aconitate-forming) activity|metal ion binding|protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;3.94e-06)		TTCACAACATGCGGATTATTC	0.463													6	81					0	0	1	0	0		A	32418352	A	A	32418352	3	1	27	1	0	0	0	0	1	0	0	0	146	1319	46	2	519	2	ACO1	9	32418352	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4962997	32418352	108795079	4308	26659											
ACO1	48	broad.mit.edu	37	chr9	32434640	32434640	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcggtaacaactgaccacatCtccccagctggaaatattgc	12	9	7	13	1	1	1	0	1	1	0	3	2	1	2	3	2	4	2	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:32434640C>T	uc003zqw.3	+	17	2195	c.2040C>T	c.(2038-2040)ATC>ATT	p.I680I	ACO1_uc010mjh.1_Silent_p.I514I|ACO1_uc003zqx.3_Silent_p.I680I|ACO1_uc003zqy.3_RNA	NM_002197	NP_002188	P21399	ACOC_HUMAN	aconitase 1	680					citrate metabolic process|response to iron(II) ion|tricarboxylic acid cycle	cytosol|endoplasmic reticulum|Golgi apparatus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron-responsive element binding|isocitrate hydro-lyase (cis-aconitate-forming) activity|metal ion binding|protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;3.94e-06)		CTGACCACATCTCCCCAGCTG	0.433													6	145					0	0	1	0	0		T	32434640	T	T	32434640	2	4	27	1	0	0	0	0	0	0	0	1	146	903	32	4		4	ACO1	9	32434640	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16288	32434640	108778791	4309	26660											
DDX58	23586	broad.mit.edu	37	chr9	32500831	32500831	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctagggcatccaaaaagccAcggaaccagccttcctcctg	11	7	8	15	1	1	0	0	0	1	0	4	1	4	1	6	2	3	1	6	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:32500831A>G	uc003zra.2	-	2	371	c.213T>C	c.(211-213)CGT>CGC	p.R71R	DDX58_uc010mjj.2_RNA|DDX58_uc010mjk.1_Intron|DDX58_uc011lnr.1_5'UTR|DDX58_uc010mji.2_5'UTR	NM_014314	NP_055129	O95786	DDX58_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	71	CARD 1.				detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		CCAAAAAGCCACGGAACCAGC	0.433													4	105					0	0	1	0	0		G	32500831	G	G	32500831	2	3	27	1	0	0	0	0	0	0	0	1	4378	146	6	3		3	DDX58	9	32500831	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	66191	32500831	108712600	4310	26661											
TAF1L	138474	broad.mit.edu	37	chr9	32630784	32630784	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtccattatacttaacActgttggcaagaataaggtt	13	13	8	7	0	1	1	1	0	0	1	2	1	2	1	1	3	2	3	1	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:32630784A>G	uc003zrg.1	-	1	4884	c.4794T>C	c.(4792-4794)AGT>AGC	p.S1598S	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1598	Bromo 2.				male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TATACTTAACACTGTTGGCAA	0.403													8	93					0	0	1	0	0		G	32630784	G	G	32630784	2	3	27	1	0	0	0	0	0	0	0	1	15548	156	6	3		3	TAF1L	9	32630784	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	129953	32630784	108582647	4311	26662											
TAF1L	138474	broad.mit.edu	37	chr9	32633593	32633593	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcttggccttttttttgAtgtgctttagcaaaggttgg	6	19	10	6	0	2	1	1	1	1	0	2	1	2	1	1	3	2	3	1	3	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:32633593A>T	uc003zrg.1	-	1	2075	c.1985T>A	c.(1984-1986)ATC>AAC	p.I662N	uc003zrh.1_RNA	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	662					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CTTTTTTTTGATGTGCTTTAG	0.478													8	109					0	0	1	0	0		T	32633593	T	T	32633593	3	4	27	1	0	0	0	0	1	0	0	0	15548	333	12	5	3499	5	TAF1L	9	32633593	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2809	32633593	108579838	4312	26663											
TAF1L	138474	broad.mit.edu	37	chr9	32634929	32634929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcagattctgcctgtgttgCttcctgaggtcccatctcag	5	14	9	13	0	3	2	2	1	2	1	6	2	5	2	3	1	2	2	3	1	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:32634929C>T	uc003zrg.1	-	1	739	c.649G>A	c.(649-651)GCA>ACA	p.A217T	uc003zrh.1_RNA	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	217					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		GCCTGTGTTGCTTCCTGAGGT	0.483													13	134					0	0	1	0	0		T	32634929	T	T	32634929	3	4	27	1	0	0	0	0	1	0	0	0	15548	797	28	2	4835	2	TAF1L	9	32634929	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1336	32634929	108578502	4313	26664											
CHMP5	51510	broad.mit.edu	37	chr9	33271164	33271164	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttaggttgatgctatgaaActgggagtaaaggaaatgaa	15	11	12	3	0	1	3	0	3	1	0	1	5	1	5	0	3	2	3	0	3	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:33271164A>G	uc003zsl.3	+	6	685	c.330A>G	c.(328-330)AAA>AAG	p.K110K	SUGT1P1_uc010mjq.1_Intron|CHMP5_uc003zsm.3_Silent_p.K110K|CHMP5_uc011lnv.1_Silent_p.K110K|CHMP5_uc003zsn.2_RNA	NM_016410	NP_057494	Q9NZZ3	CHMP5_HUMAN	chromatin modifying protein 5	110	Potential.				cellular membrane organization|protein transport	cytosol|endosome membrane	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)			ATGCTATGAAACTGGGAGTAA	0.318													4	56					0	0	1	0	0		G	33271164	G	G	33271164	2	3	27	1	0	0	0	0	0	0	0	1	3362	40	2	3		3	CHMP5	9	33271164	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	636235	33271164	107942267	4314	26665											
AQP7	364	broad.mit.edu	37	chr9	33386120	33386120	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgtgatcaggaaggtaGgtggcaaaaatgccagctgt	12	9	14	6	0	2	1	2	1	0	0	2	2	2	2	1	4	2	3	1	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:33386120G>A	uc003zst.2	-	6	652	c.480C>T	c.(478-480)ACC>ACT	p.T160T	SUGT1P1_uc010mjq.1_Intron|AQP7_uc003zsu.1_Silent_p.T103T|AQP7_uc010mjs.2_Silent_p.T68T|AQP7_uc010mjt.2_Silent_p.T68T|AQP7_uc011lnx.1_Silent_p.T160T|AQP7_uc011lny.1_Silent_p.T159T|AQP7_uc003zss.3_Silent_p.T68T|AQP7_uc011lnz.1_Silent_p.T68T|AQP7_uc011loa.1_Intron	NM_001170	NP_001161	O14520	AQP7_HUMAN	aquaporin 7	160	Extracellular (Potential).				excretion|generation of precursor metabolites and energy	cell-cell junction|cytoplasm|integral to plasma membrane	glycerol channel activity|water channel activity				0			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		CAGGAAGGTAGGTGGCAAAAA	0.587													5	72					0	0	1	0	0		A	33386120	A	A	33386120	2	1	27	1	0	0	0	0	0	0	0	1	831	987	35	4		4	AQP7	9	33386120	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	114956	33386120	107827311	4315	26666											
NOL6	65083	broad.mit.edu	37	chr9	33463366	33463366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgagtccacagcctggCggtgccgcgggatatggcga	6	6	17	12	5	0	0	0	0	0	0	1	3	1	1	3	5	2	0	3	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:33463366C>T	uc003zsz.2	-	24	3169	c.3068G>A	c.(3067-3069)CGC>CAC	p.R1023H	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zsy.2_Missense_Mutation_p.R77H|NOL6_uc003zta.2_Intron|NOL6_uc010mjv.2_Missense_Mutation_p.R1020H|NOL6_uc011lob.1_Missense_Mutation_p.R971H|NOL6_uc003ztb.1_Intron	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	1023					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		CACAGCCTGGCGGTGCCGCGG	0.652													3	27					0	0	1	0	0		T	33463366	T	T	33463366	3	4	27	1	0	0	0	0	1	0	0	0	10544	768	27	1	384	1	NOL6	9	33463366	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	77246	33463366	107750065	4316	26667											
NOL6	65083	broad.mit.edu	37	chr9	33468037	33468037	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaaactcactgcaggacaTggtcaaaagcccggatcatg	13	7	9	12	1	3	0	3	0	0	0	3	2	3	2	2	3	3	1	2	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:33468037T>C	uc003zsz.2	-	11	1516	c.1415A>G	c.(1414-1416)CAT>CGT	p.H472R	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zsy.2_5'Flank|NOL6_uc003zta.2_Missense_Mutation_p.H472R|NOL6_uc010mjv.2_Missense_Mutation_p.H469R|NOL6_uc011lob.1_Missense_Mutation_p.H420R|NOL6_uc003ztb.1_Missense_Mutation_p.H472R	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	472					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		CTGCAGGACATGGTCAAAAGC	0.562													10	129					0	0	1	0	0		C	33468037	C	C	33468037	3	2	27	1	0	0	0	0	1	0	0	0	10544	1464	51	3	2089	3	NOL6	9	33468037	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4671	33468037	107745394	4317	26668											
UBAP2	55833	broad.mit.edu	37	chr9	33973225	33973225	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcccctctccctctgccAcgtccaaatcctttaaaaaa	10	10	3	18	1	2	0	0	0	2	0	5	0	4	0	7	0	2	0	7	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:33973225A>G	uc003ztq.1	-	7	644	c.531T>C	c.(529-531)CGT>CGC	p.R177R	UBAP2_uc011loc.1_Intron|UBAP2_uc011lod.1_Intron|UBAP2_uc011loe.1_Intron|UBAP2_uc011lof.1_Silent_p.R102R|UBAP2_uc011log.1_Intron|UBAP2_uc003ztr.2_Intron	NM_018449	NP_060919	Q5T6F2	UBAP2_HUMAN	ubiquitin associated protein 2	177										ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)		TCCCTCTGCCACGTCCAAATC	0.378													7	143					0	0	1	0	0		G	33973225	G	G	33973225	2	3	27	1	0	0	0	0	0	0	0	1	16863	146	6	3		3	UBAP2	9	33973225	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	505188	33973225	107240206	4318	26669											
KIF24	347240	broad.mit.edu	37	chr9	34256008	34256008	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgtaggtccagaatggggTacccccatatgtatggtggt	9	11	14	7	0	0	1	0	0	0	1	1	1	1	1	3	5	1	3	3	5	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:34256008T>C	uc003zua.3	-	11	3717	c.3597A>G	c.(3595-3597)GTA>GTG	p.V1199V	KIF24_uc010mkb.2_Intron	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	1199					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			CAGAATGGGGTACCCCCATAT	0.557													8	98					0	0	1	0	0		C	34256008	C	C	34256008	2	2	27	1	0	0	0	0	0	0	0	1	8308	1625	57	3		3	KIF24	9	34256008	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	282783	34256008	106957423	4319	26670											
NUDT2	318	broad.mit.edu	37	chr9	34343290	34343290	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttactggctggcggaggtgaAggactatgacgtggagatcc	9	9	16	7	2	0	3	0	2	0	1	1	6	1	5	1	6	1	1	1	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:34343290A>G	uc003zub.2	+	5	654	c.296A>G	c.(295-297)AAG>AGG	p.K99R	NUDT2_uc003zuc.2_Missense_Mutation_p.K99R|NUDT2_uc003zud.2_Missense_Mutation_p.K99R	NM_001161	NP_001152	P50583	AP4A_HUMAN	nudix-type motif 2	99	Nudix hydrolase.				induction of apoptosis|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) activity|bis(5'-nucleosyl)-tetraphosphatase (symmetrical) activity|GTP binding				0			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		GCGGAGGTGAAGGACTATGAC	0.547													6	86					0	0	1	0	0		G	34343290	G	G	34343290	3	3	27	1	0	0	0	0	1	0	0	0	10756	72	3	3	302	3	NUDT2	9	34343290	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	87282	34343290	106870141	4320	26671											
KIAA1161	57462	broad.mit.edu	37	chr9	34372048	34372048	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggcttgttgaagtagcgAcgcaccatgtacttgtggat	9	11	13	8	3	0	1	0	1	0	0	0	4	0	2	1	2	2	5	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:34372048A>G	uc003zue.3	-	3	1061	c.894T>C	c.(892-894)CGT>CGC	p.R298R		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	298	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		TGAAGTAGCGACGCACCATGT	0.662													14	32					0	0	1	0	0		G	34372048	G	G	34372048	2	3	27	1	0	0	0	0	0	0	0	1	8227	262	10	3		3	KIAA1161	9	34372048	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	28758	34372048	106841383	4321	26672											
GALT	2592	broad.mit.edu	37	chr9	34648762	34648762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccattctgtcttcctaggaaCgtctggtcctaaccagtgag	8	12	9	12	1	3	1	0	1	3	0	5	2	5	2	4	2	2	0	4	2	3	4	rs111033749		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:34648762C>T	uc003zve.2	+	8	758	c.691C>T	c.(691-693)CGT>TGT	p.R231C	GALT_uc003zvf.2_Missense_Mutation_p.R122C|GALT_uc003zvg.2_Missense_Mutation_p.R103C|GALT_uc003zvh.2_Missense_Mutation_p.R183C|GALT_uc011lop.1_Missense_Mutation_p.R183C|IL11RA_uc003zvi.2_5'Flank	NM_000155	NP_000146	P07902	GALT_HUMAN	galactose-1-phosphate uridylyltransferase	231			R -> H (in GALCT; 15% of normal activity).		galactose catabolic process	cytosol	UDP-glucose:hexose-1-phosphate uridylyltransferase activity|zinc ion binding				0	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.173)		TTCCTAGGAACGTCTGGTCCT	0.522									Galactosemia				13	179					0	0	1	0	0		T	34648762	T	T	34648762	3	4	27	1	0	0	0	0	1	0	0	0	6245	536	19	1	721	1	GALT	9	34648762	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	276714	34648762	106564669	4322	26673											
KIAA1045	23349	broad.mit.edu	37	chr9	34971621	34971621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcgttcatccgccccacccGgaagctggatgatgacaaac	10	7	10	14	3	1	2	1	2	0	0	2	4	2	4	4	2	3	2	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:34971621G>A	uc003zvq.2	+	2	504	c.326G>A	c.(325-327)CGG>CAG	p.R109Q	KIAA1045_uc003zvr.2_Missense_Mutation_p.R109Q	NM_015297	NP_056112	Q9UPV7	K1045_HUMAN	hypothetical protein LOC23349	109							calcium ion binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00575)			CGCCCCACCCGGAAGCTGGAT	0.597													15	167					0	0	1	0	0		A	34971621	A	A	34971621	3	1	27	1	0	0	0	0	1	0	0	0	8223	1116	39	1	328	1	KIAA1045	9	34971621	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	322859	34971621	106241810	4323	26674											
KIAA1045	23349	broad.mit.edu	37	chr9	34972347	34972347	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatctttctgcaggttgTcaacgatgagatgtgtgatg	8	14	12	7	1	3	2	1	2	2	1	3	4	3	2	1	1	3	2	1	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:34972347T>A	uc003zvq.2	+	3	561	c.383T>A	c.(382-384)GTC>GAC	p.V128D	KIAA1045_uc003zvr.2_Missense_Mutation_p.V128D	NM_015297	NP_056112	Q9UPV7	K1045_HUMAN	hypothetical protein LOC23349	128							calcium ion binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00575)			CTGCAGGTTGTCAACGATGAG	0.547													6	182					0	0	1	0	0		A	34972347	A	A	34972347	3	1	27	1	0	0	0	0	1	0	0	0	8223	1667	58	5	389	5	KIAA1045	9	34972347	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	726	34972347	106241084	4324	26675											
KIAA1045	23349	broad.mit.edu	37	chr9	34978047	34978047	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttcctgcaagagaatgTcctctacatcctggctgctc	8	12	7	14	0	1	1	0	0	1	1	5	2	4	1	4	1	4	3	4	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:34978047T>A	uc003zvq.2	+	8	1320	c.1142T>A	c.(1141-1143)GTC>GAC	p.V381D	KIAA1045_uc003zvr.2_Missense_Mutation_p.V381D	NM_015297	NP_056112	Q9UPV7	K1045_HUMAN	hypothetical protein LOC23349	381							calcium ion binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00575)			CAAGAGAATGTCCTCTACATC	0.557													9	123					0	0	1	0	0		A	34978047	A	A	34978047	3	1	27	1	0	0	0	0	1	0	0	0	8223	1667	58	5	1168	5	KIAA1045	9	34978047	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5700	34978047	106235384	4325	26676											
C9orf131	138724	broad.mit.edu	37	chr9	35043238	35043238	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtctcccctctctgcacagCgagtccttggaggccatctt	5	11	10	15	1	3	0	0	0	3	0	6	2	4	1	4	3	2	1	4	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35043238C>T	uc003zvw.2	+	2	641	c.612C>T	c.(610-612)AGC>AGT	p.S204S	C9orf131_uc003zvu.2_Silent_p.S156S|C9orf131_uc003zvv.2_Silent_p.S131S|C9orf131_uc003zvx.2_Silent_p.S169S	NM_203299	NP_976044	Q5VYM1	CI131_HUMAN	hypothetical protein LOC138724 isoform A	204											0	all_epithelial(49;0.22)		LUSC - Lung squamous cell carcinoma(32;0.00117)|Lung(28;0.00309)			CTCTGCACAGCGAGTCCTTGG	0.537													10	131					0	0	1	0	0		T	35043238	T	T	35043238	2	4	27	1	0	0	0	0	0	0	0	1	2460	767	27	1		1	C9orf131	9	35043238	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	65191	35043238	106170193	4326	26677											
FANCG	2189	broad.mit.edu	37	chr9	35078616	35078616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacctctctctaggctcCgctggatatcctgggcctga	5	11	9	16	1	3	1	1	1	2	0	6	2	5	2	5	3	0	2	5	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35078616C>T	uc003zwb.1	-	3	785	c.293G>A	c.(292-294)CGG>CAG	p.R98Q	FANCG_uc003zwa.1_5'Flank|FANCG_uc010mkj.1_5'UTR|FANCG_uc011lot.1_Missense_Mutation_p.R98Q	NM_004629	NP_004620	O15287	FANCG_HUMAN	Fanconi anemia, complementation group G	98					cell cycle checkpoint|DNA repair|mitochondrion organization	mitochondrion|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|large_intestine(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			CTCTAGGCTCCGCTGGATATC	0.527			Mis|N|F|S			AML|leukemia		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				8	37					0	0	1	0	0		T	35078616	T	T	35078616	3	4	27	1	0	0	0	0	1	0	0	0	5682	652	23	1	1623	1	FANCG	9	35078616	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	35378	35078616	106134815	4327	26678											
PIGO	84720	broad.mit.edu	37	chr9	35091255	35091255	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggggtggtgacgggtaTcccagcagcaagcagatgta	11	6	15	9	1	0	2	0	1	0	1	1	2	1	2	2	4	3	5	2	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35091255T>A	uc003zwd.2	-	7	3025	c.2629A>T	c.(2629-2631)ATA>TTA	p.I877L	PIGO_uc003zwc.1_3'UTR|PIGO_uc003zwe.2_Missense_Mutation_p.I460L|PIGO_uc003zwf.2_Missense_Mutation_p.I460L|PIGO_uc003zwg.1_Missense_Mutation_p.I440L	NM_032634	NP_116023	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	877	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	transferase activity			large_intestine(1)|ovary(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GTGACGGGTATCCCAGCAGCA	0.512													4	58					0	0	1	0	0		A	35091255	A	A	35091255	3	1	27	1	0	0	0	0	1	0	0	0	11913	1435	50	5	660	5	PIGO	9	35091255	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12639	35091255	106122176	4328	26679											
KIAA1539	80256	broad.mit.edu	37	chr9	35107420	35107420	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcaggtggctccagaaGggtgtggctttggcatcaga	8	8	17	8	0	1	2	1	0	0	2	2	2	2	2	1	6	1	5	1	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35107420G>T	uc003zwl.2	-	3	1177	c.852C>A	c.(850-852)CCC>CCA	p.P284P	KIAA1539_uc003zwm.2_Silent_p.P284P|KIAA1539_uc003zwn.2_5'UTR|KIAA1539_uc003zwo.2_Silent_p.P284P|KIAA1539_uc003zwp.1_Silent_p.P284P|KIAA1539_uc010mkk.1_RNA	NM_025182	NP_079458	Q7L5A3	K1539_HUMAN	hypothetical protein LOC80256	284						nucleus				ovary(2)	2	all_epithelial(49;0.217)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GGCTCCAGAAGGGTGTGGCTT	0.507													22	174					2.21704e-12	2.46676e-12	1	1	0		T	35107420	T	T	35107420	2	4	27	1	0	0	0	0	0	0	0	1	8258	987	35	5		5	KIAA1539	9	35107420	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16165	35107420	106106011	4329	26680											
KIAA1539	80256	broad.mit.edu	37	chr9	35107652	35107652	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggccagaggctacccccaTtgcccaccccagccactggg	8	5	10	18	0	0	1	0	0	0	1	0	1	0	1	7	3	3	1	7	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35107652T>A	uc003zwl.2	-	3	945	c.620A>T	c.(619-621)AAT>ATT	p.N207I	KIAA1539_uc003zwm.2_Missense_Mutation_p.N207I|KIAA1539_uc003zwn.2_Intron|KIAA1539_uc003zwo.2_Missense_Mutation_p.N207I|KIAA1539_uc003zwp.1_Missense_Mutation_p.N207I|KIAA1539_uc010mkk.1_Intron	NM_025182	NP_079458	Q7L5A3	K1539_HUMAN	hypothetical protein LOC80256	207						nucleus				ovary(2)	2	all_epithelial(49;0.217)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GCTACCCCCATTGCCCACCCC	0.662													4	69					0	0	1	0	0		A	35107652	A	A	35107652	3	1	27	1	0	0	0	0	1	0	0	0	8258	1493	52	5	1024	5	KIAA1539	9	35107652	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	232	35107652	106105779	4330	26681											
UNC13B	10497	broad.mit.edu	37	chr9	35380473	35380473	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taattctctcacagtgagtgCcacaactcctctgaccgcat	10	11	6	14	1	3	2	1	2	2	0	5	2	4	2	3	0	2	1	3	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35380473C>T	uc003zwq.2	+	17	2257	c.1965C>T	c.(1963-1965)TGC>TGT	p.C655C	UNC13B_uc003zwr.2_Silent_p.C655C	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	655	C2 2.				excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			ACAGTGAGTGCCACAACTCCT	0.502													7	56					0	0	1	0	0		T	35380473	T	T	35380473	2	4	27	1	0	0	0	0	0	0	0	1	17011	747	26	2		2	UNC13B	9	35380473	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	272821	35380473	105832958	4331	26682											
UNC13B	10497	broad.mit.edu	37	chr9	35382434	35382434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttactggccaacatcaacgCctactatgcccacacaactg	12	8	5	16	1	1	0	1	0	0	0	1	0	1	0	3	1	6	0	3	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35382434C>T	uc003zwq.2	+	20	2781	c.2489C>T	c.(2488-2490)GCC>GTC	p.A830V	UNC13B_uc003zwr.2_Missense_Mutation_p.A830V	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	830					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			AACATCAACGCCTACTATGCC	0.483													12	139					0	0	1	0	0		T	35382434	T	T	35382434	3	4	27	1	0	0	0	0	1	0	0	0	17011	739	26	2	2567	2	UNC13B	9	35382434	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1961	35382434	105830997	4332	26683											
RUSC2	9853	broad.mit.edu	37	chr9	35547295	35547295	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagcacatccagtcagtcCgaggcagctgaccagtccat	11	7	10	13	1	1	1	1	1	0	0	4	2	4	1	4	1	2	4	4	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35547295C>T	uc003zww.2	+	2	1032	c.777C>T	c.(775-777)TCC>TCT	p.S259S	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Silent_p.S259S	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	259						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			CCAGTCAGTCCGAGGCAGCTG	0.567													9	42					0	0	1	0	0		T	35547295	T	T	35547295	2	4	27	1	0	0	0	0	0	0	0	1	13776	639	23	1		1	RUSC2	9	35547295	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	164861	35547295	105666136	4333	26684											
RUSC2	9853	broad.mit.edu	37	chr9	35547634	35547634	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgcccacactgtgagccGtgcccagcagtggctgacct	7	7	11	16	2	0	2	0	2	0	0	0	2	0	2	5	1	4	2	5	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35547634G>A	uc003zww.2	+	2	1371	c.1116G>A	c.(1114-1116)CCG>CCA	p.P372P	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Silent_p.P372P	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	372						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			ACTGTGAGCCGTGCCCAGCAG	0.547													9	79					0	0	1	0	0		A	35547634	A	A	35547634	2	1	27	1	0	0	0	0	0	0	0	1	13776	1132	40	1		1	RUSC2	9	35547634	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	339	35547634	105665797	4334	26685											
RUSC2	9853	broad.mit.edu	37	chr9	35561189	35561189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccccagtgaggtgcaggCactgtgccaccacctggcca	7	8	11	15	0	0	1	0	1	0	0	1	1	1	1	6	3	2	2	6	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35561189C>T	uc003zww.2	+	12	4616	c.4361C>T	c.(4360-4362)GCA>GTA	p.A1454V	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.A1454V	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	1454	SH3.					cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			GAGGTGCAGGCACTGTGCCAC	0.642													6	78					0	0	1	0	0		T	35561189	T	T	35561189	3	4	27	1	0	0	0	0	1	0	0	0	13776	710	25	2	4403	2	RUSC2	9	35561189	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13555	35561189	105652242	4335	26686											
TESK1	7016	broad.mit.edu	37	chr9	35609008	35609008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtcaaccccttctcactaCgggaagacctcaggggtggc	9	7	12	13	1	3	1	3	0	1	1	4	3	3	2	3	4	2	0	3	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35609008C>T	uc003zxa.2	+	10	1486	c.1150C>T	c.(1150-1152)CGG>TGG	p.R384W	TESK1_uc003zwz.1_Intron|TESK1_uc010mks.2_Missense_Mutation_p.R224W	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	384					cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CTTCTCACTACGGGAAGACCT	0.592													39	100					0	0	1	0	0		T	35609008	T	T	35609008	3	4	27	1	0	0	0	0	1	0	0	0	15792	527	19	1	1188	1	TESK1	9	35609008	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	47819	35609008	105604423	4336	26687											
SIT1	27240	broad.mit.edu	37	chr9	35650822	35650822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagagtccacaagcacactGctctgagccgagggtcagcc	10	6	12	13	1	2	2	1	2	1	1	3	4	3	2	3	1	4	2	3	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35650822G>A	uc003zxe.1	-	1	126	c.29C>T	c.(28-30)GCA>GTA	p.A10V	SIT1_uc003zxf.1_RNA	NM_014450	NP_055265	Q9Y3P8	SIT1_HUMAN	SHP2-interacting transmembrane adaptor protein	10					regulation of T cell activation|signal transduction	integral to plasma membrane	kinase binding|SH2 domain binding				0			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CAAGCACACTGCTCTGAGCCG	0.627													3	13					0	0	1	0	0		A	35650822	A	A	35650822	3	1	27	1	0	0	0	0	1	0	0	0	14369	1319	46	2	581	2	SIT1	9	35650822	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	41814	35650822	105562609	4337	26688											
TPM2	7169	broad.mit.edu	37	chr9	35685136	35685136	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcctccagctgtctggctcgGctgggggcagcgggcagggg	3	7	19	12	2	1	0	0	0	1	0	4	0	3	0	2	7	2	5	2	7	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35685136G>A	uc003zxq.2	-	6	803	c.564C>T	c.(562-564)AGC>AGT	p.S188S	TPM2_uc003zxr.2_Intron|TPM2_uc003zxs.2_Intron|TPM2_uc010mkz.2_Silent_p.S188S|TPM2_uc011lpa.1_3'UTR	NM_213674	NP_998839	P07951	TPM2_HUMAN	tropomyosin 2 (beta) isoform 2	188	By similarity.				muscle filament sliding|regulation of ATPase activity	cytosol|muscle thin filament tropomyosin	actin binding|structural constituent of muscle			ovary(1)	1	all_epithelial(49;0.121)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GTCTGGCTCGGCTGGGGGCAG	0.627													8	67					0	0	1	0	0		A	35685136	A	A	35685136	2	1	27	1	0	0	0	0	0	0	0	1	16432	1217	42	2		2	TPM2	9	35685136	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	34314	35685136	105528295	4338	26689											
TLN1	7094	broad.mit.edu	37	chr9	35720857	35720857	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaatgagctgtgcaatctgCtccccttcagttgtctgtac	7	13	9	12	0	3	1	1	1	2	0	4	1	4	1	2	0	4	6	2	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:35720857C>T	uc003zxt.2	-	11	1512	c.1158G>A	c.(1156-1158)GAG>GAA	p.E386E		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	386	FERM.|Interaction with LAYN (By similarity).				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GTGCAATCTGCTCCCCTTCAG	0.502													4	84					0	0	1	0	0		T	35720857	T	T	35720857	2	4	27	1	0	0	0	0	0	0	0	1	15972	796	28	2		2	TLN1	9	35720857	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	35721	35720857	105492574	4339	26690											
ZBTB5	9925	broad.mit.edu	37	chr9	37440560	37440560	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctctgccagcgcaggcaGgtagtctttgagtgcttata	7	12	12	10	1	2	1	0	1	2	0	2	1	2	1	1	2	4	5	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:37440560G>A	uc003zzx.2	-	2	2189	c.1989C>T	c.(1987-1989)ACC>ACT	p.T663T		NM_014872	NP_055687	O15062	ZBTB5_HUMAN	zinc finger and BTB domain containing 5	663	C2H2-type 2; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(29;0.00733)|Lung(182;0.226)		AGCGCAGGCAGGTAGTCTTTG	0.502													7	49					0	0	1	0	0		A	37440560	A	A	37440560	2	1	27	1	0	0	0	0	0	0	0	1	17576	987	35	4		4	ZBTB5	9	37440560	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1719703	37440560	103772871	4340	26691											
FBXO10	26267	broad.mit.edu	37	chr9	37521836	37521836	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaccacagcccttgttagCtgggacagtgagaggagctg	10	7	13	11	0	0	1	0	1	0	1	0	4	0	3	2	2	3	3	2	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:37521836C>T	uc004aab.2	-	8	1980	c.1931_splice	c.e8-1	p.A644_splice	FBXO10_uc004aac.2_Splice_Site_p.A660_splice|FBXO10_uc004aad.2_Splice_Site_p.A194_splice	NM_012166	NP_036298	Q9UK96	FBX10_HUMAN	F-box protein 10							ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(5)	5				GBM - Glioblastoma multiforme(29;0.0107)		CCCTTGTTAGCTGGGACAGTG	0.567													4	23					0	0	1	0	0		T	37521836	T	T	37521836	5	4	27	1	0	0	0	0	0	0	1	0	5740	811	28	2	956	2	FBXO10	9	37521836	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	81276	37521836	103691595	4341	26692											
MCART1	92014	broad.mit.edu	37	chr9	37888102	37888102	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtaaatttgtcatgatgcTtgtggtcttgaagcaatgtc	9	16	11	5	0	2	2	1	2	1	0	3	2	2	2	0	2	2	3	0	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:37888102T>G	uc004aau.2	-	3	1190	c.446A>C	c.(445-447)AAG>ACG	p.K149T	MCART1_uc004aar.1_Intron|MCART1_uc004aaq.1_Intron|uc004aat.1_5'Flank|MCART1_uc004aav.2_Missense_Mutation_p.K149T	NM_033412	NP_219480	Q9H1U9	MCAR1_HUMAN	mitochondrial carrier triple repeat 1	149	Solcar 2.				transport	integral to membrane|mitochondrial inner membrane				ovary(2)|breast(1)	3				GBM - Glioblastoma multiforme(29;0.00559)|Lung(182;0.0422)		GTCATGATGCTTGTGGTCTTG	0.473													15	133					0	0	1	0	0		G	37888102	G	G	37888102	3	3	27	1	0	0	0	0	1	0	0	0	9387	1609	56	5	451	5	MCART1	9	37888102	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	366266	37888102	103325329	4342	26693											
ANKRD20A3	441425	broad.mit.edu	37	chr9	42368597	42368597	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaggagcggagacctggaCgccctggacaagcagcacag	11	2	15	13	3	0	1	0	0	0	1	0	5	0	4	2	4	3	3	2	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:42368597C>T	uc004acd.2	+	1	295	c.183C>T	c.(181-183)GAC>GAT	p.D61D	ANKRD20A3_uc010mmv.2_Silent_p.D61D	NM_001012419	NP_001012419	Q5VUR7	A20A3_HUMAN	ankyrin repeat domain 20 family, member A3	61											0						GAGACCTGGACGCCCTGGACA	0.721													9	79					0	0	1	0	0		T	42368597	T	T	42368597	2	4	27	1	0	0	0	0	0	0	0	1	649	535	19	1		1	ANKRD20A3	9	42368597	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4480495	42368597	98844834	4343	26694											
FAM75A6	389730	broad.mit.edu	37	chr9	43630570	43630570	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatggaagtaagataagtaGgggagtaataggaagaagaa	20	6	14	1	0	0	3	0	0	0	3	0	6	0	6	0	4	0	3	0	4	10	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:43630570G>T	uc011lrb.1	-	1	161	c.132C>A	c.(130-132)CCC>CCA	p.P44P		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	44						integral to membrane					0						AAGATAAGTAGGGGAGTAATA	0.522													11	193					0.00136819	0.0014224	1	1	0		T	43630570	T	T	43630570	2	4	27	1	0	0	0	0	0	0	0	1	5636	987	35	5		5	FAM75A6	9	43630570	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1261973	43630570	97582861	4344	26695											
FOXD4L3	286380	broad.mit.edu	37	chr9	70918913	70918913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaatttgtccccgaccgcGtggagctactgccacctgct	7	9	10	15	3	0	1	0	0	0	1	1	3	1	2	5	1	4	2	5	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:70918913G>A	uc004agm.1	+	1	1131	c.1046G>A	c.(1045-1047)CGT>CAT	p.R349H		NM_199135	NP_954586	Q6VB84	FX4L3_HUMAN	forkhead box D4-like 3	349						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				all cancers(8;0.00136)|Epithelial(8;0.0288)|GBM - Glioblastoma multiforme(74;0.0402)|OV - Ovarian serous cystadenocarcinoma(323;0.18)		CCCCGACCGCGTGGAGCTACT	0.632													17	152					0	0	1	0	0		A	70918913	A	A	70918913	3	1	27	1	0	0	0	0	1	0	0	0	6015	1145	40	1	1048	1	FOXD4L3	9	70918913	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27288343	70918913	70294518	4345	26696											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													6	86					0	0	1	0	0		G	70993145	G	G	70993145	3	3	27	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	74232	70993145	70220286	4346	26697											
PGM5	5239	broad.mit.edu	37	chr9	70999325	70999325	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acattttaggtcctgcacccGatgttgtctcagacaaaatc	11	12	7	11	1	1	1	1	0	1	1	4	2	2	1	2	1	1	2	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:70999325G>A	uc004agr.2	+	3	665	c.436G>A	c.(436-438)GAT>AAT	p.D146N		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	146					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						TCCTGCACCCGATGTTGTCTC	0.418													8	88					0	0	1	0	0		A	70999325	A	A	70999325	3	1	27	1	0	0	0	0	1	0	0	0	11820	1058	37	1	446	1	PGM5	9	70999325	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6180	70999325	70214106	4347	26698											
TJP2	9414	broad.mit.edu	37	chr9	71836211	71836211	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcattgaccaggactacgagCgagcctatcaccgggcctac	10	6	11	14	3	1	1	1	1	0	0	1	4	1	2	4	2	4	1	4	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:71836211C>T	uc004ahe.2	+	5	951	c.751C>T	c.(751-753)CGA>TGA	p.R251*	TJP2_uc011lrs.1_Nonsense_Mutation_p.R228*|TJP2_uc004ahb.1_Nonsense_Mutation_p.R228*|TJP2_uc011lrt.1_Nonsense_Mutation_p.R228*|TJP2_uc004ahd.2_Nonsense_Mutation_p.R251*|TJP2_uc004ahf.2_Nonsense_Mutation_p.R251*|TJP2_uc011lru.1_Nonsense_Mutation_p.R255*|TJP2_uc011lrv.1_Nonsense_Mutation_p.R273*	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)	251					cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						GGACTACGAGCGAGCCTATCA	0.721													3	9					0	0	1	0	0		T	71836211	T	T	71836211	4	4	27	1	0	0	0	0	0	1	0	0	15955	760	27	1	926	1	TJP2	9	71836211	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	836886	71836211	69377220	4348	26699											
APBA1	320	broad.mit.edu	37	chr9	72046302	72046302	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacatcgcggctggcattgTcttcatatgaatctgagggt	8	13	12	8	2	3	2	1	2	2	0	4	2	3	2	0	3	1	3	0	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:72046302T>C	uc004ahh.2	-	13	2731	c.2455A>G	c.(2455-2457)ACA>GCA	p.T819A		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	819	PDZ 2.				axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						GCTGGCATTGTCTTCATATGA	0.617													6	101					0	0	1	0	0		C	72046302	C	C	72046302	3	2	27	1	0	0	0	0	1	0	0	0	756	1667	58	3	62	3	APBA1	9	72046302	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	210091	72046302	69167129	4349	26700											
PTAR1	375743	broad.mit.edu	37	chr9	72338404	72338404	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggctggctcacttctcaaaGgattttgctccatcacagaa	10	11	9	11	0	3	1	3	0	1	1	5	2	4	2	1	3	1	3	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:72338404G>T	uc004ahj.3	-	6	807	c.785C>A	c.(784-786)CCT>CAT	p.P262H	PTAR1_uc004ahi.2_Missense_Mutation_p.P183H	NM_001099666	NP_001093136	Q7Z6K3	PTAR1_HUMAN	protein prenyltransferase alpha subunit repeat	262					protein prenylation		protein prenyltransferase activity			central_nervous_system(1)	1						ACTTCTCAAAGGATTTTGCTC	0.423													11	91					1.58986e-06	1.72494e-06	1	1	0		T	72338404	T	T	72338404	3	4	27	1	0	0	0	0	1	0	0	0	12746	1000	35	5	435	5	PTAR1	9	72338404	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	292102	72338404	68875027	4350	26701											
KLF9	687	broad.mit.edu	37	chr9	73002756	73002756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtggaactcggtgtgcCgccgggcgtgctttgtgagg	3	10	20	8	4	0	1	0	1	0	0	1	2	0	2	2	6	3	1	2	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:73002756C>T	uc004aht.2	-	2	1965	c.671G>A	c.(670-672)CGG>CAG	p.R224Q		NM_001206	NP_001197	Q13886	KLF9_HUMAN	Kruppel-like factor 9	224	C2H2-type 3.				regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTCGGTGTGCCGCCGGGCGTG	0.622													15	60					0	0	1	0	0		T	73002756	T	T	73002756	3	4	27	1	0	0	0	0	1	0	0	0	8369	652	23	1	67	1	KLF9	9	73002756	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	664352	73002756	68210675	4351	26702											
TRPM3	80036	broad.mit.edu	37	chr9	73213415	73213415	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacggatataccagtaaaTgatgttcacgcagtagatga	15	9	11	6	2	1	4	1	2	0	2	1	6	1	5	1	1	1	4	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:73213415T>G	uc004aid.2	-	20	3176	c.2932A>C	c.(2932-2934)ATT>CTT	p.I978L	TRPM3_uc004ahu.2_Missense_Mutation_p.I808L|TRPM3_uc004ahv.2_Missense_Mutation_p.I780L|TRPM3_uc004ahw.2_Missense_Mutation_p.I850L|TRPM3_uc004ahx.2_Missense_Mutation_p.I837L|TRPM3_uc004ahy.2_Missense_Mutation_p.I840L|TRPM3_uc004ahz.2_Missense_Mutation_p.I827L|TRPM3_uc004aia.2_Missense_Mutation_p.I825L|TRPM3_uc004aib.2_Missense_Mutation_p.I815L|TRPM3_uc004aic.2_Missense_Mutation_p.I978L	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1003	Helical; (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						TACCAGTAAATGATGTTCACG	0.478													5	154					0	0	1	0	0		G	73213415	G	G	73213415	3	3	27	1	0	0	0	0	1	0	0	0	16613	1464	51	5	2215	5	TRPM3	9	73213415	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	210659	73213415	68000016	4352	26703											
TRPM3	80036	broad.mit.edu	37	chr9	73225634	73225634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctcttcatccttcttcctgGaggactccccgttgtttcgt	3	16	7	15	2	3	0	1	0	2	0	7	2	6	2	5	2	0	2	5	2	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:73225634G>A	uc004aid.2	-	18	2766	c.2522C>T	c.(2521-2523)TCC>TTC	p.S841F	TRPM3_uc004ahu.2_Missense_Mutation_p.S671F|TRPM3_uc004ahv.2_Missense_Mutation_p.S643F|TRPM3_uc004ahw.2_Missense_Mutation_p.S713F|TRPM3_uc004ahx.2_Missense_Mutation_p.S700F|TRPM3_uc004ahy.2_Missense_Mutation_p.S703F|TRPM3_uc004ahz.2_Missense_Mutation_p.S690F|TRPM3_uc004aia.2_Missense_Mutation_p.S688F|TRPM3_uc004aib.2_Missense_Mutation_p.S678F|TRPM3_uc004aic.2_Missense_Mutation_p.S841F	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	866	Extracellular (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						CTTCTTCCTGGAGGACTCCCC	0.378													4	103					0	0	1	0	0		A	73225634	A	A	73225634	3	1	27	1	0	0	0	0	1	0	0	0	16613	1174	41	4	2633	4	TRPM3	9	73225634	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	12219	73225634	67987797	4353	26704											
TRPM3	80036	broad.mit.edu	37	chr9	73240126	73240126	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctcttggggccgaagaggTtgtggtagagggtccggaag	7	8	18	8	2	1	2	0	0	1	2	2	4	2	3	3	6	0	2	3	6	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:73240126T>C	uc004aid.2	-	13	1998	c.1754A>G	c.(1753-1755)AAC>AGC	p.N585S	TRPM3_uc004ahu.2_Missense_Mutation_p.N415S|TRPM3_uc004ahv.2_Missense_Mutation_p.N397S|TRPM3_uc004ahw.2_Missense_Mutation_p.N457S|TRPM3_uc004ahx.2_Missense_Mutation_p.N444S|TRPM3_uc004ahy.2_Missense_Mutation_p.N457S|TRPM3_uc004ahz.2_Missense_Mutation_p.N444S|TRPM3_uc004aia.2_Missense_Mutation_p.N432S|TRPM3_uc004aib.2_Missense_Mutation_p.N432S|TRPM3_uc004aic.2_Missense_Mutation_p.N585S	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	610	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GCCGAAGAGGTTGTGGTAGAG	0.577													3	32					0	0	1	0	0		C	73240126	C	C	73240126	3	2	27	1	0	0	0	0	1	0	0	0	16613	1725	60	3	3421	3	TRPM3	9	73240126	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	14492	73240126	67973305	4354	26705											
TRPM3	80036	broad.mit.edu	37	chr9	73376598	73376598	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtatgtgaaagtcttctgTatagtcaccaacagctggtc	10	13	10	8	0	3	1	1	1	2	0	4	1	3	1	1	1	2	3	1	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:73376598T>C	uc004aid.2	-	8	1435	c.1191A>G	c.(1189-1191)ATA>ATG	p.I397M	TRPM3_uc004ahu.2_Missense_Mutation_p.I227M|TRPM3_uc004ahv.2_Missense_Mutation_p.I227M|TRPM3_uc004ahw.2_Missense_Mutation_p.I269M|TRPM3_uc004ahx.2_Missense_Mutation_p.I244M|TRPM3_uc004ahy.2_Missense_Mutation_p.I269M|TRPM3_uc004ahz.2_Missense_Mutation_p.I244M|TRPM3_uc004aia.2_Missense_Mutation_p.I244M|TRPM3_uc004aib.2_Missense_Mutation_p.I244M|TRPM3_uc004aic.2_Missense_Mutation_p.I397M|TRPM3_uc010mor.2_Missense_Mutation_p.I397M|TRPM3_uc004aie.2_Missense_Mutation_p.I244M	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	422	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						AAGTCTTCTGTATAGTCACCA	0.423													3	58					0	0	1	0	0		C	73376598	C	C	73376598	3	2	27	1	0	0	0	0	1	0	0	0	16613	1628	57	3	4044	3	TRPM3	9	73376598	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	136472	73376598	67836833	4355	26706											
TMEM2	23670	broad.mit.edu	37	chr9	74315635	74315635	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgaatgcacaggctcataTtcttcgattttggataatga	12	14	9	6	1	2	2	1	2	1	0	3	4	2	3	0	2	1	2	0	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:74315635T>A	uc011lsa.1	-	19	3840	c.3300A>T	c.(3298-3300)GAA>GAT	p.E1100D	TMEM2_uc011lrz.1_Missense_Mutation_p.E93D|TMEM2_uc010mos.2_Missense_Mutation_p.E1037D|TMEM2_uc011lsb.1_RNA|TMEM2_uc004aik.2_5'Flank	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	1100						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		CAGGCTCATATTCTTCGATTT	0.428													8	89					0	0	1	0	0		A	74315635	A	A	74315635	3	1	27	1	0	0	0	0	1	0	0	0	16146	1490	52	5	875	5	TMEM2	9	74315635	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	939037	74315635	66897796	4356	26707											
TMEM2	23670	broad.mit.edu	37	chr9	74360123	74360123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggtatcaaatctctcaCtttccaaaattttggccgtg	10	14	7	10	1	3	0	2	0	1	0	5	0	4	0	2	2	0	1	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:74360123C>T	uc011lsa.1	-	4	1385	c.845G>A	c.(844-846)AGT>AAT	p.S282N	TMEM2_uc010mos.2_Missense_Mutation_p.S282N|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	282						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		AAATCTCTCACTTTCCAAAAT	0.502													4	58					0	0	1	0	0		T	74360123	T	T	74360123	3	4	27	1	0	0	0	0	1	0	0	0	16146	565	20	4	3390	4	TMEM2	9	74360123	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	44488	74360123	66853308	4357	26708											
GDA	9615	broad.mit.edu	37	chr9	74817550	74817550	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagtattcctttgctggAagtagcatagacctgccact	9	13	8	11	0	1	1	1	0	1	1	3	2	2	2	3	1	3	4	3	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:74817550A>G	uc004aiq.2	+	3	459	c.276A>G	c.(274-276)GGA>GGG	p.G92G	GDA_uc011lse.1_Silent_p.G18G|GDA_uc011lsf.1_Silent_p.G18G|GDA_uc004air.2_Silent_p.G92G|GDA_uc010mow.1_RNA|GDA_uc004ais.2_Silent_p.G50G|GDA_uc004ait.1_Silent_p.G18G	NM_004293	NP_004284	Q9Y2T3	GUAD_HUMAN	guanine deaminase	92					nervous system development|purine base metabolic process|purine nucleotide catabolic process	cytosol	guanine deaminase activity|zinc ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		CCTTTGCTGGAAGTAGCATAG	0.413													9	98					0	0	1	0	0		G	74817550	G	G	74817550	2	3	27	1	0	0	0	0	0	0	0	1	6321	233	9	3		3	GDA	9	74817550	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	457427	74817550	66395881	4358	26709											
TMC1	117531	broad.mit.edu	37	chr9	75355124	75355124	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttaagatgatgatggccaAggtaggtatttttatagttg	12	16	11	2	0	0	3	0	2	0	1	0	3	0	3	1	3	0	3	1	3	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:75355124A>C	uc004aiz.1	+	9	992	c.452A>C	c.(451-453)AAG>ACG	p.K151T	TMC1_uc010moz.1_Missense_Mutation_p.K109T|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Missense_Mutation_p.K5T|TMC1_uc010mpa.1_Missense_Mutation_p.K5T	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	151	Cytoplasmic (Potential).|Arg/Asp/Glu/Lys-rich (highly charged).				sensory perception of sound	integral to membrane				ovary(1)	1						ATGATGGCCAAGGTAGGTATT	0.244													13	49					0	0	1	0	0		C	75355124	C	C	75355124	3	2	27	1	0	0	0	0	1	0	0	0	16009	86	3	5	470	5	TMC1	9	75355124	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	537574	75355124	65858307	4359	26710											
RORB	6096	broad.mit.edu	37	chr9	77280434	77280434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggttttagtgagaatgtGccgtgccttcaacccattaa	10	13	10	8	1	1	1	1	1	0	1	1	2	1	1	3	1	3	1	3	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:77280434G>A	uc004aji.2	+	7	1005	c.956G>A	c.(955-957)TGC>TAC	p.C319Y	RORB_uc004ajh.2_Missense_Mutation_p.C308Y	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	319	Ligand-binding (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						GTGAGAATGTGCCGTGCCTTC	0.308													9	86					0	0	1	0	0		A	77280434	A	A	77280434	3	1	27	1	0	0	0	0	1	0	0	0	13554	1319	46	2	949	2	RORB	9	77280434	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1925310	77280434	63932997	4360	26711											
TRPM6	140803	broad.mit.edu	37	chr9	77397726	77397726	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccactccaaagctcagcAggactatggccatgatgatc	11	8	10	12	0	1	2	1	2	0	0	3	3	2	3	3	2	3	2	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:77397726A>G	uc004ajl.1	-	22	3201	c.2963T>C	c.(2962-2964)CTG>CCG	p.L988P	TRPM6_uc004ajk.1_Missense_Mutation_p.L983P|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_Missense_Mutation_p.L274P	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	988	Helical; (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						AAAGCTCAGCAGGACTATGGC	0.423													5	89					0	0	1	0	0		G	77397726	G	G	77397726	3	3	27	1	0	0	0	0	1	0	0	0	16616	188	7	3	3177	3	TRPM6	9	77397726	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	117292	77397726	63815705	4361	26712											
OSTF1	26578	broad.mit.edu	37	chr9	77755767	77755767	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggtgctagaacagacttaAgaaacattgagaagaagctg	18	7	11	5	0	0	5	0	1	0	5	0	6	0	5	0	1	4	2	0	1	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:77755767A>G	uc004ajv.3	+	9	716	c.505A>G	c.(505-507)AGA>GGA	p.R169G	OSTF1_uc004ajw.3_Missense_Mutation_p.R126G|OSTF1_uc004ajx.3_Missense_Mutation_p.R172G	NM_012383	NP_036515	Q92882	OSTF1_HUMAN	osteoclast stimulating factor 1	169					ossification|signal transduction	cytoplasm	identical protein binding			skin(1)	1						AACAGACTTAAGAAACATTGA	0.413													8	95					0	0	1	0	0		G	77755767	G	G	77755767	3	3	27	1	0	0	0	0	1	0	0	0	11316	64	3	3	539	3	OSTF1	9	77755767	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	358041	77755767	63457664	4362	26713											
PCSK5	5125	broad.mit.edu	37	chr9	78771999	78771999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggactgatggacgcagaaGccatggtgatggaggcagag	11	7	17	6	1	0	4	0	2	0	2	0	7	0	7	1	5	1	2	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:78771999G>A	uc004ajz.2	+	11	1889	c.1351G>A	c.(1351-1353)GCC>ACC	p.A451T	PCSK5_uc004ajy.2_Missense_Mutation_p.A451T|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	451	Catalytic.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						GGACGCAGAAGCCATGGTGAT	0.507													5	120					0	0	1	0	0		A	78771999	A	A	78771999	3	1	27	1	0	0	0	0	1	0	0	0	11622	971	34	2	1393	2	PCSK5	9	78771999	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1016232	78771999	62441432	4363	26714											
PRUNE2	158471	broad.mit.edu	37	chr9	79323928	79323928	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtcggtttgtttcattgtAcagttgcatcatgctggggt	5	18	12	6	1	2	0	2	0	0	0	3	0	2	0	0	3	3	6	0	3	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:79323928A>G	uc010mpk.2	-	8	3386	c.3262T>C	c.(3262-3264)TAC>CAC	p.Y1088H		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1088					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						GTTTCATTGTACAGTTGCATC	0.512													9	139					0	0	1	0	0		G	79323928	G	G	79323928	3	3	27	1	0	0	0	0	1	0	0	0	12663	391	14	3	6052	3	PRUNE2	9	79323928	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	551929	79323928	61889503	4364	26715											
PRUNE2	158471	broad.mit.edu	37	chr9	79465470	79465470	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcatcccggaatatgtggaAtgattcggaaatatttagct	12	14	9	6	2	1	1	1	1	0	0	3	4	2	4	1	3	1	1	1	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:79465470A>G	uc010mpk.2	-	3	377	c.253T>C	c.(253-255)TTC>CTC	p.F85L	PRUNE2_uc004akn.2_Missense_Mutation_p.F85L	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	85					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						AATATGTGGAATGATTCGGAA	0.418													11	172					0	0	1	0	0		G	79465470	G	G	79465470	3	3	27	1	0	0	0	0	1	0	0	0	12663	101	4	3	9081	3	PRUNE2	9	79465470	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	141542	79465470	61747961	4365	26716											
FOXB2	442425	broad.mit.edu	37	chr9	79634780	79634780	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacctctccttcaacgactgCttcatcaagattccgcggag	10	10	7	14	3	4	1	3	0	1	1	6	3	5	2	3	1	3	1	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:79634780C>A	uc004ako.1	+	1	210	c.210C>A	c.(208-210)TGC>TGA	p.C70*		NM_001013735	NP_001013757	Q5VYV0	FOXB2_HUMAN	forkhead box B2	70	Fork-head.				brain development|embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						TCAACGACTGCTTCATCAAGA	0.612													3	50					0.115264	0.116483	1	1	0		A	79634780	A	A	79634780	4	1	27	1	0	0	0	0	0	1	0	0	6007	805	28	5	212	5	FOXB2	9	79634780	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	169310	79634780	61578651	4366	26717											
VPS13A	23230	broad.mit.edu	37	chr9	79896801	79896801	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggctgaaaagaatgtacccGacttgaaaagtacctataac	17	8	8	8	1	0	3	0	2	0	1	0	4	0	3	2	1	3	3	2	1	9	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:79896801G>A	uc004akr.2	+	28	3183	c.2923G>A	c.(2923-2925)GAC>AAC	p.D975N	VPS13A_uc004akp.3_Missense_Mutation_p.D975N|VPS13A_uc004akq.3_Missense_Mutation_p.D975N|VPS13A_uc004aks.2_Missense_Mutation_p.D975N	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	975					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GAATGTACCCGACTTGAAAAG	0.269													4	45					0	0	1	0	0		A	79896801	A	A	79896801	3	1	27	1	0	0	0	0	1	0	0	0	17215	1058	37	1	3033	1	VPS13A	9	79896801	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	262021	79896801	61316630	4367	26718											
VPS13A	23230	broad.mit.edu	37	chr9	79946953	79946953	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatttttcagtcccactgTctgtttacgaaggggatacc	9	14	8	10	1	3	0	2	0	1	0	4	2	4	1	2	2	2	1	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:79946953T>C	uc004akr.2	+	46	6279	c.6019T>C	c.(6019-6021)TCT>CCT	p.S2007P	VPS13A_uc004akp.3_Missense_Mutation_p.S2007P|VPS13A_uc004akq.3_Missense_Mutation_p.S2007P|VPS13A_uc004aks.2_Missense_Mutation_p.S1968P|VPS13A_uc004akt.2_Missense_Mutation_p.S347P	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2007					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						AGTCCCACTGTCTGTTTACGA	0.308													22	164					0	0	1	0	0		C	79946953	C	C	79946953	3	2	27	1	0	0	0	0	1	0	0	0	17215	1667	58	3	6201	3	VPS13A	9	79946953	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	50152	79946953	61266478	4368	26719											
GNA14	9630	broad.mit.edu	37	chr9	80144131	80144131	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacccatggataattctcaTctgcttgataaaggtgcttt	11	14	8	8	0	2	2	1	1	2	1	3	3	2	3	1	2	2	2	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:80144131T>C	uc004aku.2	-	2	686	c.163A>G	c.(163-165)ATG>GTG	p.M55V		NM_004297	NP_004288	O95837	GNA14_HUMAN	G alpha 14	55					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(2)	2						ATAATTCTCATCTGCTTGATA	0.448													27	266					0	0	1	0	0		C	80144131	C	C	80144131	3	2	27	1	0	0	0	0	1	0	0	0	6517	1435	50	3	928	3	GNA14	9	80144131	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	197178	80144131	61069300	4369	26720											
GNAQ	2776	broad.mit.edu	37	chr9	80343493	80343493	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctcctctagaagatcttTcttgtttaagaacagaataa	13	16	5	7	0	4	4	0	0	4	4	5	4	4	4	1	0	1	1	1	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:80343493T>C	uc004akw.2	-	6	867	c.826A>G	c.(826-828)AAA>GAA	p.K276E	GNAQ_uc011lso.1_Missense_Mutation_p.K74E	NM_002072	NP_002063	P50148	GNAQ_HUMAN	guanine nucleotide binding protein (G protein),	276	GTP (By similarity).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|glutamate signaling pathway|negative regulation of protein kinase activity|platelet activation|protein ADP-ribosylation|protein stabilization|regulation of action potential|regulation of catenin import into nucleus	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activator activity|GTPase activity|signal transducer activity			eye(136)|skin(44)|meninges(11)|ovary(1)|kidney(1)	193						AGAAGATCTTTCTTGTTTAAG	0.413			Mis		uveal melanoma								21	226					0	0	1	0	0		C	80343493	C	C	80343493	3	2	27	1	0	0	0	0	1	0	0	0	6524	1792	62	3	261	3	GNAQ	9	80343493	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	199362	80343493	60869938	4370	26721											
PSAT1	29968	broad.mit.edu	37	chr9	80915531	80915531	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctaggtgttgttagagaTacaaaaggaattattagact	14	15	9	3	0	1	2	0	0	1	2	1	4	1	3	0	2	1	2	0	2	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:80915531T>C	uc004ala.2	+	2	142	c.74T>C	c.(73-75)ATA>ACA	p.I25T	PSAT1_uc004alb.2_Missense_Mutation_p.I25T	NM_058179	NP_478059	Q9Y617	SERC_HUMAN	phosphoserine aminotransferase 1 isoform 1	25					L-serine biosynthetic process|pyridoxine biosynthetic process		O-phospho-L-serine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)	TTGTTAGAGATACAAAAGGAA	0.343													3	41					0	0	1	0	0		C	80915531	C	C	80915531	3	2	27	1	0	0	0	0	1	0	0	0	12666	1406	49	3	80	3	PSAT1	9	80915531	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	572038	80915531	60297900	4371	26722											
PSAT1	29968	broad.mit.edu	37	chr9	80943013	80943013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagatgaatattccattcCgcattggcaatgccaaagga	14	9	9	9	1	0	2	0	1	0	1	2	3	2	3	3	2	1	3	3	2	5	4	rs113824905		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:80943013C>T	uc004ala.2	+	8	984	c.916C>T	c.(916-918)CGC>TGC	p.R306C	PSAT1_uc004alb.2_Intron	NM_058179	NP_478059	Q9Y617	SERC_HUMAN	phosphoserine aminotransferase 1 isoform 1	306					L-serine biosynthetic process|pyridoxine biosynthetic process		O-phospho-L-serine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)	TATTCCATTCCGCATTGGCAA	0.373													6	56					0	0	1	0	0		T	80943013	T	T	80943013	3	4	27	1	0	0	0	0	1	0	0	0	12666	652	23	1	946	1	PSAT1	9	80943013	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	27482	80943013	60270418	4372	26723											
TLE4	7091	broad.mit.edu	37	chr9	82242307	82242307	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaccagcaacaagtggtgCaggctgtggaacgggccaag	12	4	15	10	1	0	0	0	0	0	0	0	1	0	1	2	4	5	4	2	4	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:82242307C>T	uc004ald.2	+	6	1162	c.313C>T	c.(313-315)CAG>TAG	p.Q105*	TLE4_uc004alc.2_Nonsense_Mutation_p.Q112*|TLE4_uc010mpr.2_5'UTR|TLE4_uc004ale.2_5'UTR|TLE4_uc011lsq.1_Intron|TLE4_uc010mps.2_Nonsense_Mutation_p.Q105*|TLE4_uc004alf.2_Nonsense_Mutation_p.Q50*	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						ACAAGTGGTGCAGGCTGTGGA	0.438													11	91					0	0	1	0	0		T	82242307	T	T	82242307	4	4	27	1	0	0	0	0	0	1	0	0	15966	711	25	2	356	2	TLE4	9	82242307	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1299294	82242307	58971124	4373	26724											
TLE1	7088	broad.mit.edu	37	chr9	84199195	84199195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catccacagagatgtcacagCtaagcactgacgaggactct	13	7	9	12	1	2	2	1	1	1	1	3	5	3	3	1	1	2	2	1	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:84199195C>T	uc004aly.2	-	20	2672	c.2231G>A	c.(2230-2232)AGC>AAC	p.S744N	TLE1_uc004alz.2_Missense_Mutation_p.S754N|TLE1_uc011lsr.1_Missense_Mutation_p.S729N	NM_005077	NP_005068	Q04724	TLE1_HUMAN	transducin-like enhancer protein 1	744	WD 6.				negative regulation of Wnt receptor signaling pathway|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway		transcription factor binding			ovary(1)|skin(1)	2						GATGTCACAGCTAAGCACTGA	0.468													7	88					0	0	1	0	0		T	84199195	T	T	84199195	3	4	27	1	0	0	0	0	1	0	0	0	15963	797	28	2	85	2	TLE1	9	84199195	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1956888	84199195	57014236	4374	26725											
TLE1	7088	broad.mit.edu	37	chr9	84248267	84248267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgtttgagtacttactgtgCccggctctctgtctgctccc	3	14	10	14	2	2	1	0	1	2	0	4	1	3	1	2	1	4	4	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:84248267C>T	uc004aly.2	-	8	1031	c.590G>A	c.(589-591)GGC>GAC	p.G197D	TLE1_uc004alz.2_Missense_Mutation_p.G207D|TLE1_uc011lsr.1_Missense_Mutation_p.G197D|TLE1_uc004ama.1_Missense_Mutation_p.G197D|TLE1_uc011lss.1_Intron	NM_005077	NP_005068	Q04724	TLE1_HUMAN	transducin-like enhancer protein 1	197	Gly/Pro-rich.				negative regulation of Wnt receptor signaling pathway|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway		transcription factor binding			ovary(1)|skin(1)	2						ACTTACTGTGCCCGGCTCTCT	0.413													9	40					0	0	1	0	0		T	84248267	T	T	84248267	3	4	27	1	0	0	0	0	1	0	0	0	15963	739	26	2	1774	2	TLE1	9	84248267	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	49072	84248267	56965164	4375	26726											
FLJ46321	389763	broad.mit.edu	37	chr9	84606307	84606307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catctgctttaccaccggaaGattgcactgtgactcagtct	9	12	8	12	1	3	2	1	1	2	1	3	3	3	3	2	1	3	2	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:84606307G>A	uc004amn.2	+	4	969	c.922G>A	c.(922-924)GAT>AAT	p.D308N		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	308						integral to membrane					0						ACCACCGGAAGATTGCACTGT	0.498													9	274					0	0	1	0	0		A	84606307	A	A	84606307	3	1	27	1	0	0	0	0	1	0	0	0	5946	942	33	4	936	4	FLJ46321	9	84606307	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	358040	84606307	56607124	4376	26727											
FLJ46321	389763	broad.mit.edu	37	chr9	84606581	84606581	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcactctgtggccaacctcaTagagcctgttaacatctcat	10	11	7	13	0	3	1	2	0	2	1	4	1	3	1	3	1	3	2	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:84606581T>C	uc004amn.2	+	4	1243	c.1196T>C	c.(1195-1197)ATA>ACA	p.I399T		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	399						integral to membrane					0						GCCAACCTCATAGAGCCTGTT	0.443													6	69					0	0	1	0	0		C	84606581	C	C	84606581	3	2	27	1	0	0	0	0	1	0	0	0	5946	1406	49	3	1210	3	FLJ46321	9	84606581	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	274	84606581	56606850	4377	26728											
FLJ46321	389763	broad.mit.edu	37	chr9	84607051	84607051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccccaacctctgtccttgCctagtacccaaccactaccc	8	9	3	21	0	1	0	0	0	1	0	3	0	3	0	8	0	5	1	8	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:84607051C>T	uc004amn.2	+	4	1713	c.1666C>T	c.(1666-1668)CCT>TCT	p.P556S		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	556						integral to membrane					0						TCTGTCCTTGCCTAGTACCCA	0.512													15	129					0	0	1	0	0		T	84607051	T	T	84607051	3	4	27	1	0	0	0	0	1	0	0	0	5946	739	26	2	1680	2	FLJ46321	9	84607051	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	470	84607051	56606380	4378	26729											
FLJ46321	389763	broad.mit.edu	37	chr9	84608052	84608052	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccactgcgttgatacttcCcaggaaatttccttccttag	9	13	7	12	1	0	1	0	1	0	0	3	3	3	2	4	1	2	1	4	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:84608052C>A	uc004amn.2	+	4	2714	c.2667C>A	c.(2665-2667)TCC>TCA	p.S889S		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	889						integral to membrane					0						TTGATACTTCCCAGGAAATTT	0.448													6	73					0.0293803	0.0298427	1	1	0		A	84608052	A	A	84608052	2	1	27	1	0	0	0	0	0	0	0	1	5946	610	22	5		5	FLJ46321	9	84608052	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1001	84608052	56605379	4379	26730											
RASEF	158158	broad.mit.edu	37	chr9	85612040	85612040	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacttggcaatacttctgaAtctgagaaagagaaaaccac	17	8	8	8	0	2	4	0	2	2	3	2	6	2	4	1	1	2	1	1	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:85612040A>T	uc004amo.1	-	14	2068	c.1807T>A	c.(1807-1809)TTC>ATC	p.F603I		NM_152573	NP_689786	Q8IZ41	RASEF_HUMAN	RAS and EF-hand domain containing	603					protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3						ATACTTCTGAATCTGAGAAAG	0.373													6	52					0	0	1	0	0		T	85612040	T	T	85612040	3	4	27	1	0	0	0	0	1	0	0	0	13093	115	4	5	431	5	RASEF	9	85612040	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1003988	85612040	55601391	4380	26731											
RASEF	158158	broad.mit.edu	37	chr9	85615158	85615158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactagacttccccactgcaGcgtccccagcaagtacaatc	12	7	6	16	1	0	1	0	0	0	1	3	1	2	1	4	0	5	3	4	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:85615158G>A	uc004amo.1	-	12	1910	c.1649C>T	c.(1648-1650)GCT>GTT	p.A550V		NM_152573	NP_689786	Q8IZ41	RASEF_HUMAN	RAS and EF-hand domain containing	550	GTP (Probable).				protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3						CCCCACTGCAGCGTCCCCAGC	0.453													4	55					0	0	1	0	0		A	85615158	A	A	85615158	3	1	27	1	0	0	0	0	1	0	0	0	13093	971	34	2	597	2	RASEF	9	85615158	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3118	85615158	55598273	4381	26732											
FRMD3	257019	broad.mit.edu	37	chr9	85913663	85913663	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtgatcatccactcacCtgtgcacctcaggaggctcc	9	8	8	16	0	3	1	3	1	0	0	5	2	5	2	4	2	1	2	4	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:85913663C>A	uc004ams.1	-	12	1272	c.1070G>T	c.(1069-1071)AGA>ATA	p.R357I	FRMD3_uc004amr.1_Missense_Mutation_p.R343I	NM_174938	NP_777598	A2A2Y4	FRMD3_HUMAN	FERM domain containing 3	357						cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2						ATCCACTCACCTGTGCACCTC	0.478													4	47					0.184627	0.185716	1	1	0		A	85913663	A	A	85913663	3	1	27	1	0	0	0	0	1	0	0	0	6064	695	24	5	735	5	FRMD3	9	85913663	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	298505	85913663	55299768	4382	26733											
UBQLN1	29979	broad.mit.edu	37	chr9	86276735	86276735	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcccagtaacctttcaatAgctgcattgatatcacctcc	11	11	6	13	0	2	1	2	1	0	0	3	2	3	1	4	0	4	3	4	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:86276735A>C	uc004amv.2	-	11	2311	c.1737T>G	c.(1735-1737)GCT>GCG	p.A579A	UBQLN1_uc004amw.2_Silent_p.A551A	NM_013438	NP_038466	Q9UMX0	UBQL1_HUMAN	ubiquilin 1 isoform 1	579	UBA.				apoptosis|regulation of protein ubiquitination|response to hypoxia	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm|proteasome complex	kinase binding				0						ACCTTTCAATAGCTGCATTGA	0.378													7	114					0	0	1	0	0		C	86276735	C	C	86276735	2	2	27	1	0	0	0	0	0	0	0	1	16922	407	15	5		5	UBQLN1	9	86276735	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	363072	86276735	54936696	4383	26734											
UBQLN1	29979	broad.mit.edu	37	chr9	86294735	86294735	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatatgactaatttctggAtttctctgtatcaactgctg	11	16	6	8	0	3	1	1	1	2	0	4	2	3	2	0	1	3	2	0	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:86294735A>T	uc004amv.2	-	4	1240	c.666T>A	c.(664-666)AAT>AAA	p.N222K	UBQLN1_uc004amw.2_Missense_Mutation_p.N222K	NM_013438	NP_038466	Q9UMX0	UBQL1_HUMAN	ubiquilin 1 isoform 1	222					apoptosis|regulation of protein ubiquitination|response to hypoxia	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm|proteasome complex	kinase binding				0						TAATTTCTGGATTTCTCTGTA	0.338													12	96					0	0	1	0	0		T	86294735	T	T	86294735	3	4	27	1	0	0	0	0	1	0	0	0	16922	330	12	5	1135	5	UBQLN1	9	86294735	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	18000	86294735	54918696	4384	26735											
C9orf64	84267	broad.mit.edu	37	chr9	86570365	86570365	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcattaacttctgcgcactAttctcactttctcggacgca	8	14	6	13	3	3	0	1	0	3	0	5	1	3	1	0	1	3	3	0	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:86570365A>G	uc004anb.2	-	2	776	c.528T>C	c.(526-528)AAT>AAC	p.N176N	C9orf64_uc004anc.2_Silent_p.N35N	NM_032307	NP_115683	Q5T6V5	CI064_HUMAN	hypothetical protein LOC84267	176											0						TCTGCGCACTATTCTCACTTT	0.438													5	83					0	0	1	0	0		G	86570365	G	G	86570365	2	3	27	1	0	0	0	0	0	0	0	1	2492	446	16	3		3	C9orf64	9	86570365	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	275630	86570365	54643066	4385	26736											
NTRK2	4915	broad.mit.edu	37	chr9	87285819	87285819	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcgacccttctcctggcatCgtggcatttccgagattgga	7	11	11	12	3	1	1	0	0	1	1	4	4	2	2	3	3	1	2	3	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:87285819C>T	uc004aoa.1	+	4	1094	c.156C>T	c.(154-156)ATC>ATT	p.I52I	NTRK2_uc004anv.1_Silent_p.I52I|NTRK2_uc004any.1_Silent_p.I52I|NTRK2_uc004anz.1_Silent_p.I52I|NTRK2_uc011lsz.1_Silent_p.I52I|NTRK2_uc011lta.1_Silent_p.I52I|NTRK2_uc004aob.1_Silent_p.I52I|NTRK2_uc011ltb.1_5'Flank	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	neurotrophic tyrosine kinase, receptor, type 2	52	Extracellular (Potential).|LRRNT.				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16						CTCCTGGCATCGTGGCATTTC	0.562										TSP Lung(25;0.17)			19	59					0	0	1	0	0		T	87285819	T	T	87285819	2	4	27	1	0	0	0	0	0	0	0	1	10726	874	31	1		1	NTRK2	9	87285819	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	715454	87285819	53927612	4386	26737											
NTRK2	4915	broad.mit.edu	37	chr9	87635214	87635214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaagcgacgtctggagcctgGgggtcgtgttgtgggagatt	7	10	18	6	3	1	1	0	0	1	1	2	4	1	2	1	4	2	1	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:87635214G>A	uc004aoa.1	+	19	3156	c.2218G>A	c.(2218-2220)GGG>AGG	p.G740R	NTRK2_uc004anz.1_Missense_Mutation_p.G756R	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	neurotrophic tyrosine kinase, receptor, type 2	740	Protein kinase.|Cytoplasmic (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16						CTGGAGCCTGGGGGTCGTGTT	0.567										TSP Lung(25;0.17)			15	138					0	0	1	0	0		A	87635214	A	A	87635214	3	1	27	1	0	0	0	0	1	0	0	0	10726	1232	43	4	2407	4	NTRK2	9	87635214	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	349395	87635214	53578217	4387	26738											
AGTPBP1	23287	broad.mit.edu	37	chr9	88234216	88234216	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctcttctggaatggtgtaActaaataaaagttttaaagt	14	14	7	6	0	2	0	0	0	2	0	2	1	2	1	1	2	1	2	1	2	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:88234216A>C	uc011ltd.1	-	15	2133	c.2100T>G	c.(2098-2100)AAT>AAG	p.N700K	AGTPBP1_uc004aod.3_Missense_Mutation_p.N326K|AGTPBP1_uc011ltc.1_Missense_Mutation_p.N598K|AGTPBP1_uc010mqc.2_Missense_Mutation_p.N660K|AGTPBP1_uc011lte.1_Missense_Mutation_p.N712K	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	700					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						GAATGGTGTAACTAAATAAAA	0.269													3	26					0	0	1	0	0		C	88234216	C	C	88234216	3	2	27	1	0	0	0	0	1	0	0	0	400	57	2	5	1624	5	AGTPBP1	9	88234216	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	599002	88234216	52979215	4388	26739											
ZCCHC6	79670	broad.mit.edu	37	chr9	88943388	88943388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttgaaattccctagtttgCttaatgagaatccttcaatc	11	15	7	8	0	1	2	1	2	0	1	4	3	3	2	2	1	1	3	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:88943388C>T	uc004aoq.2	-	11	1690	c.1475G>A	c.(1474-1476)AGC>AAC	p.S492N	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.S369N|ZCCHC6_uc004aou.2_Missense_Mutation_p.S492N	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	492					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						CCCTAGTTTGCTTAATGAGAA	0.338													12	107					0	0	1	0	0		T	88943388	T	T	88943388	3	4	27	1	0	0	0	0	1	0	0	0	17617	797	28	2	3080	2	ZCCHC6	9	88943388	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	709172	88943388	52270043	4389	26740											
DAPK1	1612	broad.mit.edu	37	chr9	90313624	90313624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtcctggtggccacccacGctgacatcatgaatgttcct	7	12	9	13	1	1	2	1	2	0	0	3	2	3	2	4	2	0	2	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:90313624G>A	uc004apc.2	+	23	2803	c.2665G>A	c.(2665-2667)GCT>ACT	p.A889T	DAPK1_uc004apd.2_Missense_Mutation_p.A889T|DAPK1_uc011ltg.1_Missense_Mutation_p.A823T|DAPK1_uc011lth.1_Missense_Mutation_p.A626T	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	889	ANK 9.				apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						GGCCACCCACGCTGACATCAT	0.572									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				4	79					0	0	1	0	0		A	90313624	A	A	90313624	3	1	27	1	0	0	0	0	1	0	0	0	4238	1087	38	1	2751	1	DAPK1	9	90313624	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1370236	90313624	50899807	4390	26741											
C9orf79	286234	broad.mit.edu	37	chr9	90503684	90503684	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatggcaagcacctcgggcGgcccccatccacagctgcag	9	4	12	16	2	0	0	0	0	0	0	2	1	1	0	4	3	3	4	4	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:90503684G>A	uc004app.3	+	4	4317	c.4282G>A	c.(4282-4284)GGC>AGC	p.G1428S		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	1428						integral to membrane				ovary(3)	3						CACCTCGGGCGGCCCCCATCC	0.617													7	32					0	0	1	0	0		A	90503684	A	A	90503684	3	1	27	1	0	0	0	0	1	0	0	0	2500	1116	39	1	4296	1	C9orf79	9	90503684	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	190060	90503684	50709747	4391	26742											
FAM75C1	441452	broad.mit.edu	37	chr9	90535543	90535543	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcttcactcctcctcccCtgcgggactccactctgtta	6	11	7	17	1	2	0	1	0	1	0	6	1	6	1	5	2	1	2	5	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:90535543C>A	uc010mqi.2	+	4	750	c.721C>A	c.(721-723)CTG>ATG	p.L241M	FAM75C1_uc004apq.3_Missense_Mutation_p.L224M	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						TCCTCCTCCCCTGCGGGACTC	0.602													12	165					9.31168e-06	1.00265e-05	1	1	0		A	90535543	A	A	90535543	3	1	27	1	0	0	0	0	1	0	0	0	5637	680	24	5	735	5	FAM75C1	9	90535543	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31859	90535543	50677888	4392	26743											
FAM75C1	441452	broad.mit.edu	37	chr9	90536093	90536093	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaccctctagggtccaaaAatctcaggacgtctttagtg	10	13	8	10	1	3	0	1	0	3	0	5	1	4	1	2	2	1	0	2	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:90536093A>G	uc010mqi.2	+	4	1300	c.1271A>G	c.(1270-1272)AAA>AGA	p.K424R	FAM75C1_uc004apq.3_Missense_Mutation_p.K407R	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						AGGGTCCAAAAATCTCAGGAC	0.483													19	206					0	0	1	0	0		G	90536093	G	G	90536093	3	3	27	1	0	0	0	0	1	0	0	0	5637	14	1	3	1285	3	FAM75C1	9	90536093	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	550	90536093	50677338	4393	26744											
FAM75C1	441452	broad.mit.edu	37	chr9	90537596	90537596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcttcccaggagctatGtgacctcatgtcagccagaa	10	8	11	12	0	2	2	2	1	0	1	3	3	3	3	3	2	2	3	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:90537596G>A	uc010mqi.2	+	4	2803	c.2774G>A	c.(2773-2775)TGT>TAT	p.C925Y	FAM75C1_uc004apq.3_Missense_Mutation_p.C908Y	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						CAGGAGCTATGTGACCTCATG	0.552													6	103					0	0	1	0	0		A	90537596	A	A	90537596	3	1	27	1	0	0	0	0	1	0	0	0	5637	1377	48	4	2788	4	FAM75C1	9	90537596	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1503	90537596	50675835	4394	26745											
S1PR3	1903	broad.mit.edu	37	chr9	91617218	91617218	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcctgcatcatggacaagaAcgcagcacttcagaatggga	14	7	10	10	1	2	2	2	0	0	2	3	4	3	4	1	2	3	3	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:91617218A>G	uc004aqe.2	+	2	1499	c.1103A>G	c.(1102-1104)AAC>AGC	p.N368S		NM_005226	NP_005217	Q99500	S1PR3_HUMAN	sphingosine-1-phosphate receptor 3	368	Cytoplasmic (By similarity).				anatomical structure morphogenesis|elevation of cytosolic calcium ion concentration|inflammatory response|positive regulation of cell proliferation	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)|central_nervous_system(1)|skin(1)	5						ATGGACAAGAACGCAGCACTT	0.537													4	36					0	0	1	0	0		G	91617218	G	G	91617218	3	3	27	1	0	0	0	0	1	0	0	0	13820	43	2	3	1105	3	S1PR3	9	91617218	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1079622	91617218	49596213	4395	26746											
SECISBP2	79048	broad.mit.edu	37	chr9	91934566	91934566	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacctcatatttttcctcaGggcatcaagttatcagcaga	13	12	6	10	0	4	1	4	0	0	1	5	1	5	1	2	1	2	3	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:91934566G>T	uc004aqj.1	+	2	117	c.37_splice	c.e2-1	p.G13_splice	SECISBP2_uc010mqn.1_Splice_Site_p.G13_splice|SECISBP2_uc004aqi.1_Splice_Site|SECISBP2_uc011ltk.1_Splice_Site_p.G13_splice|SECISBP2_uc004aqk.1_Splice_Site|SECISBP2_uc010mqo.1_Splice_Site|SECISBP2_uc011ltl.1_Splice_Site	NM_024077	NP_076982	Q96T21	SEBP2_HUMAN	SECIS binding protein 2						translation	nucleus	mRNA 3'-UTR binding			ovary(2)|skin(1)	3						TTTTTCCTCAGGGCATCAAGT	0.438													14	204					3.45872e-05	3.69714e-05	1	1	0		T	91934566	T	T	91934566	5	4	27	1	0	0	0	0	0	0	1	0	14031	1014	35	5	42	5	SECISBP2	9	91934566	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	317348	91934566	49278865	4396	26747											
SECISBP2	79048	broad.mit.edu	37	chr9	91972374	91972374	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgattatgcctgtgagcAgaacattccctttgtgtttg	8	17	9	7	0	0	3	0	2	0	1	1	3	1	3	2	0	3	2	2	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:91972374A>G	uc004aqj.1	+	15	2242	c.2162A>G	c.(2161-2163)CAG>CGG	p.Q721R	SECISBP2_uc011ltk.1_Missense_Mutation_p.Q720R|SECISBP2_uc004aqk.1_Missense_Mutation_p.Q648R|SECISBP2_uc010mqo.1_Missense_Mutation_p.Q426R|SECISBP2_uc011ltl.1_Missense_Mutation_p.Q653R	NM_024077	NP_076982	Q96T21	SEBP2_HUMAN	SECIS binding protein 2	721					translation	nucleus	mRNA 3'-UTR binding			ovary(2)|skin(1)	3						GCCTGTGAGCAGAACATTCCC	0.478													7	208					0	0	1	0	0		G	91972374	G	G	91972374	3	3	27	1	0	0	0	0	1	0	0	0	14031	188	7	3	2220	3	SECISBP2	9	91972374	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37808	91972374	49241057	4397	26748											
SEMA4D	10507	broad.mit.edu	37	chr9	92003858	92003858	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcacgaagacatcccgCagcacattgaagaccaagcc	14	4	9	14	2	0	4	0	2	0	2	1	5	1	4	3	0	3	3	3	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:92003858C>T	uc004aqo.1	-	12	1451	c.879G>A	c.(877-879)CTG>CTA	p.L293L	SEMA4D_uc011ltm.1_Silent_p.L293L|SEMA4D_uc011ltn.1_RNA|SEMA4D_uc011lto.1_RNA|SEMA4D_uc004aqp.1_Silent_p.L291L	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	293	Sema.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						AGACATCCCGCAGCACATTGA	0.607													13	142					0	0	1	0	0		T	92003858	T	T	92003858	2	4	27	1	0	0	0	0	0	0	0	1	14059	697	25	2		2	SEMA4D	9	92003858	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31484	92003858	49209573	4398	26749											
SEMA4D	10507	broad.mit.edu	37	chr9	92008521	92008521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgctgggtcaaagggacatCttcctttgccatcttcattt	7	15	9	10	0	4	0	2	0	2	0	5	1	5	1	2	2	2	1	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:92008521C>T	uc004aqo.1	-	9	1036	c.464G>A	c.(463-465)AGA>AAA	p.R155K	SEMA4D_uc011ltm.1_Missense_Mutation_p.R155K|SEMA4D_uc011ltn.1_RNA|SEMA4D_uc011lto.1_RNA|SEMA4D_uc004aqp.1_Missense_Mutation_p.R153K	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	155	Sema.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						AAAGGGACATCTTCCTTTGCC	0.423													8	97					0	0	1	0	0		T	92008521	T	T	92008521	3	4	27	1	0	0	0	0	1	0	0	0	14059	913	32	4	2734	4	SEMA4D	9	92008521	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4663	92008521	49204910	4399	26750											
SYK	6850	broad.mit.edu	37	chr9	93606454	93606454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccgacctctgccactacCactcccaggagtctgatggc	7	7	9	18	2	2	1	0	1	2	0	3	3	3	2	6	2	2	0	6	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:93606454C>T	uc004aqz.2	+	2	479	c.274C>T	c.(274-276)CAC>TAC	p.H92Y	SYK_uc004aqy.2_Missense_Mutation_p.H92Y|SYK_uc004ara.2_Missense_Mutation_p.H92Y|SYK_uc004arb.2_Missense_Mutation_p.H92Y|SYK_uc004arc.2_Missense_Mutation_p.H92Y|SYK_uc011ltr.1_RNA|SYK_uc011lts.1_RNA|SYK_uc011ltt.1_RNA	NM_003177	NP_003168	P43405	KSYK_HUMAN	spleen tyrosine kinase isoform 1	92	SH2 1.				cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						CTGCCACTACCACTCCCAGGA	0.632			T	ETV6|ITK	MDS|peripheral T-cell lymphoma								4	41					0	0	1	0	0		T	93606454	T	T	93606454	3	4	27	1	0	0	0	0	1	0	0	0	15463	594	21	4	276	4	SYK	9	93606454	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1597933	93606454	47606977	4400	26751											
SYK	6850	broad.mit.edu	37	chr9	93636501	93636501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttagtcctcccctgcccaaGggaaccggcaagagagtact	10	8	10	13	1	0	1	0	0	0	1	2	3	2	2	5	2	3	2	5	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:93636501G>A	uc004aqz.2	+	8	1136	c.931G>A	c.(931-933)GGG>AGG	p.G311R	SYK_uc004ara.2_Missense_Mutation_p.G288R|SYK_uc004arb.2_Missense_Mutation_p.G288R|SYK_uc004arc.2_Missense_Mutation_p.G311R|SYK_uc011ltr.1_RNA|SYK_uc011lts.1_RNA|SYK_uc011ltt.1_RNA	NM_003177	NP_003168	P43405	KSYK_HUMAN	spleen tyrosine kinase isoform 1	311	Linker.				cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						CCCTGCCCAAGGGAACCGGCA	0.423			T	ETV6|ITK	MDS|peripheral T-cell lymphoma								6	62					0	0	1	0	0		A	93636501	A	A	93636501	3	1	27	1	0	0	0	0	1	0	0	0	15463	1000	35	4	957	4	SYK	9	93636501	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	30047	93636501	47576930	4401	26752											
AUH	549	broad.mit.edu	37	chr9	93979588	93979588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgattaattgctaattttgCcactctcattgcaacaggtc	10	16	6	9	0	1	1	1	1	1	0	3	1	1	1	1	1	4	2	1	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:93979588C>T	uc004arf.3	-	8	900	c.865G>A	c.(865-867)GCA>ACA	p.A289T	AUH_uc004arg.3_Missense_Mutation_p.A260T	NM_001698	NP_001689	Q13825	AUHM_HUMAN	AU RNA binding protein/enoyl-Coenzyme A	289					branched chain family amino acid catabolic process|mRNA catabolic process	mitochondrial matrix	enoyl-CoA hydratase activity|methylglutaconyl-CoA hydratase activity|mRNA 3'-UTR binding				0						GCTAATTTTGCCACTCTCATT	0.313													6	52					0	0	1	0	0		T	93979588	T	T	93979588	3	4	27	1	0	0	0	0	1	0	0	0	1220	739	26	2	166	2	AUH	9	93979588	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	343087	93979588	47233843	4402	26753											
NFIL3	4783	broad.mit.edu	37	chr9	94172249	94172249	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtagtgggggagagtgTgagtacccagagaaagaatt	13	8	16	4	0	0	4	0	1	0	3	0	6	0	4	1	2	2	3	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:94172249T>C	uc004arh.2	-	2	1163	c.768A>G	c.(766-768)TCA>TCG	p.S256S		NM_005384	NP_005375	Q16649	NFIL3_HUMAN	nuclear factor, interleukin 3 regulated	256					circadian rhythm|immune response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						GGGGAGAGTGTGAGTACCCAG	0.493													13	146					0	0	1	0	0		C	94172249	C	C	94172249	2	2	27	1	0	0	0	0	0	0	0	1	10392	1683	59	3		3	NFIL3	9	94172249	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	192661	94172249	47041182	4403	26754											
ROR2	4920	broad.mit.edu	37	chr9	94486078	94486078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggccccatcttctggggCgttctgtgtgtcatcagcgc	3	12	13	13	2	5	0	2	0	3	0	5	0	5	0	2	3	1	1	2	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:94486078C>T	uc004arj.1	-	9	2897	c.2698G>A	c.(2698-2700)GCC>ACC	p.A900T	ROR2_uc004ari.1_Intron	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	900	Cytoplasmic (Potential).				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						TCTTCTGGGGCGTTCTGTGTG	0.632													6	117					0	0	1	0	0		T	94486078	T	T	94486078	3	4	27	1	0	0	0	0	1	0	0	0	13552	768	27	1	137	1	ROR2	9	94486078	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	313829	94486078	46727353	4404	26755											
ROR2	4920	broad.mit.edu	37	chr9	94487031	94487031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccagggcggacttcaccGtgcggtcatcatcggtgctg	5	9	14	13	4	3	0	3	0	0	0	5	1	4	1	2	4	2	2	2	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:94487031G>A	uc004arj.1	-	9	1944	c.1745C>T	c.(1744-1746)ACG>ATG	p.T582M	ROR2_uc004ari.1_Missense_Mutation_p.T442M	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	582	Cytoplasmic (Potential).|Protein kinase.				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						GGACTTCACCGTGCGGTCATC	0.627													14	40					0	0	1	0	0		A	94487031	A	A	94487031	3	1	27	1	0	0	0	0	1	0	0	0	13552	1145	40	1	1090	1	ROR2	9	94487031	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	953	94487031	46726400	4405	26756											
IARS	3376	broad.mit.edu	37	chr9	95040154	95040154	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctaagcttaccttcaggaaAtagtcaaacaggggcctgta	13	9	9	10	0	2	0	2	0	0	0	2	1	2	1	3	3	3	2	3	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:95040154A>T	uc004art.1	-	9	1142	c.885T>A	c.(883-885)TAT>TAA	p.Y295*	IARS_uc004ars.1_Nonsense_Mutation_p.Y140*|IARS_uc004aru.3_Nonsense_Mutation_p.Y295*|IARS_uc010mqr.2_Nonsense_Mutation_p.Y185*|IARS_uc010mqt.2_Intron	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	295					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	CCTTCAGGAAATAGTCAAACA	0.408													4	31					0	0	1	0	0		T	95040154	T	T	95040154	4	4	27	1	0	0	0	0	0	1	0	0	7489	108	4	5	3007	5	IARS	9	95040154	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	553123	95040154	46173277	4406	26757											
NOL8	55035	broad.mit.edu	37	chr9	95077604	95077604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccatgactgagggctgactCtacattgctttttctttttt	6	19	7	9	0	2	3	0	3	2	0	3	3	3	3	1	1	2	2	1	1	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:95077604C>T	uc004arv.2	-	7	1640	c.1303G>A	c.(1303-1305)GAG>AAG	p.E435K	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Intron|NOL8_uc011ltw.1_Missense_Mutation_p.E367K	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	435					DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						AGGGCTGACTCTACATTGCTT	0.363													6	39					0	0	1	0	0		T	95077604	T	T	95077604	3	4	27	1	0	0	0	0	1	0	0	0	10546	922	32	4	2244	4	NOL8	9	95077604	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37450	95077604	46135827	4407	26758											
ECM2	1842	broad.mit.edu	37	chr9	95258669	95258669	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaatgtgtaagatggtatTtctctaattttaatataatt	15	18	6	2	0	1	1	0	0	1	1	2	2	1	1	0	1	0	2	0	1	8	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:95258669T>A	uc004ash.2	-	10	2093	c.2028A>T	c.(2026-2028)GAA>GAT	p.E676D	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ECM2_uc004asf.3_Intron|ECM2_uc011lty.1_Missense_Mutation_p.E676D|ECM2_uc004asg.2_Missense_Mutation_p.E654D|ECM2_uc010mqz.1_Missense_Mutation_p.E98D	NM_001393	NP_001384	O94769	ECM2_HUMAN	extracellular matrix protein 2 precursor	676	LRR 13.				cell-matrix adhesion		integrin binding			ovary(1)|skin(1)	2						AAGATGGTATTTCTCTAATTT	0.303													5	71					0	0	1	0	0		A	95258669	A	A	95258669	3	1	27	1	0	0	0	0	1	0	0	0	4904	1838	64	5	75	5	ECM2	9	95258669	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	181065	95258669	45954762	4408	26759											
IPPK	64768	broad.mit.edu	37	chr9	95418797	95418797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatttttcccaaagtccaCtatgttctgcaggtgttgaa	10	14	8	9	0	1	1	0	1	1	0	3	2	3	1	2	1	1	3	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:95418797C>T	uc004asl.1	-	3	443	c.166G>A	c.(166-168)GTG>ATG	p.V56M		NM_022755	NP_073592	Q9H8X2	IPPK_HUMAN	inositol 1,3,4,5,6-pentakisphosphate 2-kinase	56					inositol or phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol pentakisphosphate 2-kinase activity			ovary(2)	2						CCAAAGTCCACTATGTTCTGC	0.448													24	62					0	0	1	0	0		T	95418797	T	T	95418797	3	4	27	1	0	0	0	0	1	0	0	0	7817	565	20	4	1353	4	IPPK	9	95418797	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	160128	95418797	45794634	4409	26760											
BICD2	23299	broad.mit.edu	37	chr9	95482980	95482980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcctccagctggctgttgaGgtactcggtctcctcctcca	5	12	9	15	1	1	1	0	1	1	0	7	1	5	1	5	3	2	4	5	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:95482980G>A	uc004aso.1	-	4	721	c.664C>T	c.(664-666)CTC>TTC	p.L222F	BICD2_uc004asp.1_Missense_Mutation_p.L222F	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	222	Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						TGGCTGTTGAGGTACTCGGTC	0.567													8	61					0	0	1	0	0		A	95482980	A	A	95482980	3	1	27	1	0	0	0	0	1	0	0	0	1430	1000	35	4	1929	4	BICD2	9	95482980	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	64183	95482980	45730451	4410	26761											
BICD2	23299	broad.mit.edu	37	chr9	95485026	95485026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagcagacgagcttccCggaatttgtactccttgatg	8	11	10	12	2	0	2	0	1	0	1	2	4	2	3	3	1	4	4	3	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:95485026C>T	uc004aso.1	-	3	575	c.518G>A	c.(517-519)CGG>CAG	p.R173Q	BICD2_uc004asp.1_Missense_Mutation_p.R173Q	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	173	Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						ACGAGCTTCCCGGAATTTGTA	0.562													8	48					0	0	1	0	0		T	95485026	T	T	95485026	3	4	27	1	0	0	0	0	1	0	0	0	1430	652	23	1	2079	1	BICD2	9	95485026	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2046	95485026	45728405	4411	26762											
BICD2	23299	broad.mit.edu	37	chr9	95491462	95491462	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctggatcaggctctcctcCcggctctctccgtcagcagc	4	10	9	18	2	4	0	2	0	2	0	9	1	7	1	4	3	2	3	4	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:95491462C>T	uc004aso.1	-	2	354	c.297G>A	c.(295-297)CGG>CGA	p.R99R	BICD2_uc004asp.1_Silent_p.R99R	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	99	Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						GGCTCTCCTCCCGGCTCTCTC	0.592													6	56					0	0	1	0	0		T	95491462	T	T	95491462	2	4	27	1	0	0	0	0	0	0	0	1	1430	610	22	4		4	BICD2	9	95491462	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6436	95491462	45721969	4412	26763											
FGD3	89846	broad.mit.edu	37	chr9	95780478	95780478	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcataacaggaagaaaaaggTccctggagctgcagacgcgg	14	5	13	9	2	1	2	1	0	0	2	2	4	2	4	1	4	3	2	1	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:95780478T>A	uc004asw.2	+	11	1964	c.1336T>A	c.(1336-1338)TCC>ACC	p.S446T	FGD3_uc004asx.2_Missense_Mutation_p.S446T|FGD3_uc004asz.2_Missense_Mutation_p.S446T|FGD3_uc004ata.2_Missense_Mutation_p.S249T|FGD3_uc011luc.1_Missense_Mutation_p.S49T	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	446	PH 1.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						AAGAAAAAGGTCCCTGGAGCT	0.428													10	81					0	0	1	0	0		A	95780478	A	A	95780478	3	1	27	1	0	0	0	0	1	0	0	0	5848	1667	58	5	1370	5	FGD3	9	95780478	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	289016	95780478	45432953	4413	26764											
FGD3	89846	broad.mit.edu	37	chr9	95795136	95795136	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttcctgacacagccagTggcccctgagagcacagagg	9	8	12	12	0	0	3	0	2	0	2	1	4	1	3	4	2	2	2	4	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:95795136T>C	uc004asw.2	+	16	2394	c.1766T>C	c.(1765-1767)GTG>GCG	p.V589A	FGD3_uc004asx.2_Missense_Mutation_p.V589A|FGD3_uc004asz.2_Missense_Mutation_p.V589A|FGD3_uc011luc.1_Missense_Mutation_p.V192A	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	589					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						ACACAGCCAGTGGCCCCTGAG	0.637													10	94					0	0	1	0	0		C	95795136	C	C	95795136	3	2	27	1	0	0	0	0	1	0	0	0	5848	1696	59	3	1820	3	FGD3	9	95795136	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	14658	95795136	45418295	4414	26765											
FAM120A	23196	broad.mit.edu	37	chr9	96294524	96294524	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctataggccagttcgtcagTatgtttacggagtcctgttt	7	16	10	8	2	2	0	1	0	1	0	4	1	3	1	2	2	1	4	2	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:96294524T>C	uc004atw.2	+	10	1847	c.1822T>C	c.(1822-1824)TAT>CAT	p.Y608H	FAM120A_uc004atx.2_Missense_Mutation_p.Y390H|FAM120A_uc004aty.2_Missense_Mutation_p.Y389H|FAM120A_uc004atz.2_Missense_Mutation_p.Y257H|FAM120A_uc010mrg.2_5'UTR	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	608						cytoplasm|plasma membrane	RNA binding				0						AGTTCGTCAGTATGTTTACGG	0.433													18	171					0	0	1	0	0		C	96294524	C	C	96294524	3	2	27	1	0	0	0	0	1	0	0	0	5426	1638	57	3	1860	3	FAM120A	9	96294524	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	499388	96294524	44918907	4415	26766											
FAM120A	23196	broad.mit.edu	37	chr9	96312895	96312895	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgggagcacgcatccttcgGcgtcaggagctagatgcctt	7	8	13	13	4	1	1	1	0	0	1	3	3	2	3	3	3	3	3	3	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:96312895G>A	uc004atw.2	+	12	2221	c.2196G>A	c.(2194-2196)CGG>CGA	p.R732R	FAM120A_uc004aty.2_Silent_p.R513R|FAM120A_uc004atz.2_Silent_p.R381R|FAM120A_uc010mrg.2_Silent_p.R45R	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	732						cytoplasm|plasma membrane	RNA binding				0						GCATCCTTCGGCGTCAGGAGC	0.552													5	76					0	0	1	0	0		A	96312895	A	A	96312895	2	1	27	1	0	0	0	0	0	0	0	1	5426	1190	42	2		2	FAM120A	9	96312895	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	18371	96312895	44900536	4416	26767											
PTCH1	5727	broad.mit.edu	37	chr9	98209422	98209422	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtcacggaggcagaagcCgtcacagtggtgatgggctg	10	6	16	9	2	2	2	2	1	0	1	2	3	2	3	1	4	1	2	1	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:98209422C>A	uc004avk.3	-	23	4304	c.4116G>T	c.(4114-4116)ACG>ACT	p.T1372T	PTCH1_uc010mrn.2_Silent_p.T164T|PTCH1_uc010mro.2_Silent_p.T1221T|PTCH1_uc010mrp.2_Silent_p.T1221T|PTCH1_uc010mrq.2_Silent_p.T1221T|PTCH1_uc004avl.3_Silent_p.T1221T|PTCH1_uc010mrr.2_Silent_p.T1306T|PTCH1_uc004avm.3_Silent_p.T1371T	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	1372	Cytoplasmic (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				AGGCAGAAGCCGTCACAGTGG	0.711									Basal_Cell_Nevus_syndrome				10	53					0.00621372	0.00640274	1	1	0		A	98209422	A	A	98209422	2	1	27	1	0	0	0	0	0	0	0	1	12752	639	23	5		5	PTCH1	9	98209422	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1896527	98209422	43004009	4417	26768											
PTCH1	5727	broad.mit.edu	37	chr9	98222017	98222017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtcaggtagatgtagaaagCgctgggattaatgatgccat	12	10	13	6	2	1	3	1	1	0	2	1	4	1	4	1	2	2	3	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:98222017C>T	uc004avk.3	-	17	2940	c.2752G>A	c.(2752-2754)GCT>ACT	p.A918T	PTCH1_uc010mro.2_Missense_Mutation_p.A767T|PTCH1_uc010mrp.2_Missense_Mutation_p.A767T|PTCH1_uc010mrq.2_Missense_Mutation_p.A767T|PTCH1_uc004avl.3_Missense_Mutation_p.A767T|PTCH1_uc010mrr.2_Missense_Mutation_p.A852T|PTCH1_uc004avm.3_Missense_Mutation_p.A917T	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	918	Extracellular (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				ATGTAGAAAGCGCTGGGATTA	0.547									Basal_Cell_Nevus_syndrome				17	46					0	0	1	0	0		T	98222017	T	T	98222017	3	4	27	1	0	0	0	0	1	0	0	0	12752	768	27	1	1619	1	PTCH1	9	98222017	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12595	98222017	42991414	4418	26769											
PTCH1	5727	broad.mit.edu	37	chr9	98231206	98231206	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgagggtgtcctgtgTcacggtgacgggctgcacag	6	8	17	10	2	1	2	1	2	0	0	2	2	2	2	1	3	2	4	1	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:98231206T>C	uc004avk.3	-	14	2265	c.2077A>G	c.(2077-2079)ACA>GCA	p.T693A	PTCH1_uc010mro.2_Missense_Mutation_p.T542A|PTCH1_uc010mrp.2_Missense_Mutation_p.T542A|PTCH1_uc010mrq.2_Missense_Mutation_p.T542A|PTCH1_uc004avl.3_Missense_Mutation_p.T542A|PTCH1_uc010mrr.2_Missense_Mutation_p.T627A|PTCH1_uc004avm.3_Missense_Mutation_p.T692A|PTCH1_uc010mrs.1_Missense_Mutation_p.T361A	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	693	Cytoplasmic (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				GTGTCCTGTGTCACGGTGACG	0.657									Basal_Cell_Nevus_syndrome				7	82					0	0	1	0	0		C	98231206	C	C	98231206	3	2	27	1	0	0	0	0	1	0	0	0	12752	1667	58	3	2306	3	PTCH1	9	98231206	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9189	98231206	42982225	4419	26770											
PTCH1	5727	broad.mit.edu	37	chr9	98232174	98232174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaattgcaggaaaaatgaGcagaaccatggcaaaattga	19	6	11	5	0	0	4	0	2	0	2	0	6	0	5	1	2	3	3	1	2	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:98232174G>A	uc004avk.3	-	13	1956	c.1768C>T	c.(1768-1770)CTC>TTC	p.L590F	PTCH1_uc010mro.2_Missense_Mutation_p.L439F|PTCH1_uc010mrp.2_Missense_Mutation_p.L439F|PTCH1_uc010mrq.2_Missense_Mutation_p.L439F|PTCH1_uc004avl.3_Missense_Mutation_p.L439F|PTCH1_uc010mrr.2_Missense_Mutation_p.L524F|PTCH1_uc004avm.3_Missense_Mutation_p.L589F|PTCH1_uc010mrs.1_Missense_Mutation_p.L258F	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	590	SSD.|Helical; (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				GGAAAAATGAGCAGAACCATG	0.458									Basal_Cell_Nevus_syndrome				13	100					0	0	1	0	0		A	98232174	A	A	98232174	3	1	27	1	0	0	0	0	1	0	0	0	12752	971	34	2	2619	2	PTCH1	9	98232174	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	968	98232174	42981257	4420	26771											
PTCH1	5727	broad.mit.edu	37	chr9	98242681	98242681	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggtactcactttggttgaAtttttgttgggggctgtggc	4	17	14	6	0	1	1	1	1	0	0	1	1	1	1	0	5	1	4	0	5	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:98242681A>T	uc004avk.3	-	6	1124	c.936T>A	c.(934-936)AAT>AAA	p.N312K	PTCH1_uc010mro.2_Missense_Mutation_p.N161K|PTCH1_uc010mrp.2_Missense_Mutation_p.N161K|PTCH1_uc010mrq.2_Missense_Mutation_p.N161K|PTCH1_uc004avl.3_Missense_Mutation_p.N161K|PTCH1_uc010mrr.2_Missense_Mutation_p.N246K|PTCH1_uc004avm.3_Missense_Mutation_p.N311K|PTCH1_uc010mrs.1_Missense_Mutation_p.N32K|PTCH1_uc010mrt.1_RNA|PTCH1_uc010mru.1_RNA	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	312	Extracellular (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				CTTTGGTTGAATTTTTGTTGG	0.478									Basal_Cell_Nevus_syndrome				16	129					0	0	1	0	0		T	98242681	T	T	98242681	3	4	27	1	0	0	0	0	1	0	0	0	12752	98	4	5	3479	5	PTCH1	9	98242681	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10507	98242681	42970750	4421	26772											
C9orf102	375748	broad.mit.edu	37	chr9	98678046	98678046	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aaagctttgaaatgtaatgtCcgcattggcctcactggaac	12	11	9	9	1	1	1	1	1	0	0	2	2	2	2	2	2	2	3	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:98678046C>G	uc004avt.3	+	5	1306	c.918C>G	c.(916-918)GTC>GTG	p.V306V	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Silent_p.V8V|C9orf102_uc010mry.1_Silent_p.V8V|C9orf102_uc010mrz.2_Silent_p.V117V	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	306	Helicase ATP-binding.				DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				AATGTAATGTCCGCATTGGCC	0.373													12	85					0	0	1	0	0		G	98678046	G	G	98678046	2	3	27	1	0	0	0	0	0	0	0	1	2448	842	30	5		5	C9orf102	9	98678046	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	435365	98678046	42535385	4422	26773											
C9orf102	375748	broad.mit.edu	37	chr9	98683463	98683463	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttatcttggcagatggtgTattgttctttgacagatttc	7	20	9	5	0	2	3	0	1	2	2	3	3	2	3	0	2	0	3	0	2	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:98683463T>C	uc004avt.3	+	7	1586	c.1198T>C	c.(1198-1200)TAT>CAT	p.Y400H	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Missense_Mutation_p.Y102H|C9orf102_uc010mry.1_Missense_Mutation_p.Y102H|C9orf102_uc010mrz.2_Missense_Mutation_p.Y211H|C9orf102_uc004avu.2_5'Flank	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	400					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				GCAGATGGTGTATTGTTCTTT	0.318													3	41					0	0	1	0	0		C	98683463	C	C	98683463	3	2	27	1	0	0	0	0	1	0	0	0	2448	1638	57	3	1224	3	C9orf102	9	98683463	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5417	98683463	42529968	4423	26774											
ZNF510	22869	broad.mit.edu	37	chr9	99521344	99521344	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagtgtgaattctttgatGcactctgagggttgatgtcc	7	14	11	9	0	2	4	0	4	2	0	3	4	3	4	2	1	1	2	2	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:99521344G>A	uc004awn.1	-	6	1957	c.1768C>T	c.(1768-1770)CAT>TAT	p.H590Y	ZNF510_uc004awo.1_Missense_Mutation_p.H590Y	NM_014930	NP_055745	Q9Y2H8	ZN510_HUMAN	zinc finger protein 510	590	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				ATTCTTTGATGCACTCTGAGG	0.403													7	75					0	0	1	0	0		A	99521344	A	A	99521344	3	1	27	1	0	0	0	0	1	0	0	0	17979	1319	46	2	287	2	ZNF510	9	99521344	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	837881	99521344	41692087	4424	26775											
ZNF510	22869	broad.mit.edu	37	chr9	99522242	99522242	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagagttttcttatcacaAtttttcctaaattcatcatc	13	17	3	8	0	4	1	3	0	1	1	6	2	5	1	1	0	0	1	1	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:99522242A>T	uc004awn.1	-	6	1059	c.870T>A	c.(868-870)AAT>AAA	p.N290K	ZNF510_uc004awo.1_Missense_Mutation_p.N290K	NM_014930	NP_055745	Q9Y2H8	ZN510_HUMAN	zinc finger protein 510	290					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				TCTTATCACAATTTTTCCTAA	0.368													5	55					0	0	1	0	0		T	99522242	T	T	99522242	3	4	27	1	0	0	0	0	1	0	0	0	17979	98	4	5	1185	5	ZNF510	9	99522242	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	898	99522242	41691189	4425	26776											
KIAA1529	57653	broad.mit.edu	37	chr9	100074423	100074423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagccaagagggaaaaaGcccgagagagtgagaacacc	19	1	13	8	1	0	4	0	1	0	4	0	8	0	5	3	1	3	0	3	1	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:100074423G>A	uc011lut.1	+	16	1611	c.838G>A	c.(838-840)GCC>ACC	p.A280T	KIAA1529_uc004axe.1_Missense_Mutation_p.A280T|KIAA1529_uc004axg.1_Missense_Mutation_p.A141T|KIAA1529_uc011lus.1_Missense_Mutation_p.A141T|KIAA1529_uc010msm.1_RNA|KIAA1529_uc004axf.2_Missense_Mutation_p.A141T|KIAA1529_uc011luv.1_Missense_Mutation_p.A141T	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				GAGGGAAAAAGCCCGAGAGAG	0.562													7	77					0	0	1	0	0		A	100074423	A	A	100074423	3	1	27	1	0	0	0	0	1	0	0	0	8256	971	34	2	864	2	KIAA1529	9	100074423	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	552181	100074423	41139008	4426	26777											
TDRD7	23424	broad.mit.edu	37	chr9	100204028	100204028	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggttcaaaatcgcataaaGgaaatactaaacaagcataa	21	7	7	6	1	1	0	1	0	0	0	2	2	1	1	0	2	3	3	0	2	10	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:100204028G>A	uc004axj.2	+	6	951	c.726G>A	c.(724-726)AAG>AAA	p.K242K	TDRD7_uc011lux.1_Silent_p.K168K	NM_014290	NP_055105	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	242	Lotus/OST-HTH 2.				lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)				ATCGCATAAAGGAAATACTAA	0.299													4	57					0	0	1	0	0		A	100204028	A	A	100204028	2	1	27	1	0	0	0	0	0	0	0	1	15760	991	35	4		4	TDRD7	9	100204028	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	129605	100204028	41009403	4427	26778											
TDRD7	23424	broad.mit.edu	37	chr9	100222954	100222954	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgctaatacctttatggaGgacataacagttcctccttt	11	14	7	9	0	0	0	0	0	0	0	2	2	2	2	3	2	3	2	3	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:100222954G>T	uc004axj.2	+	7	1575	c.1350G>T	c.(1348-1350)GAG>GAT	p.E450D	TDRD7_uc011lux.1_Missense_Mutation_p.E376D	NM_014290	NP_055105	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	450					lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)				CCTTTATGGAGGACATAACAG	0.403													10	48					2.17888e-05	2.33116e-05	1	1	0		T	100222954	T	T	100222954	3	4	27	1	0	0	0	0	1	0	0	0	15760	991	35	5	1372	5	TDRD7	9	100222954	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	18926	100222954	40990477	4428	26779											
NCBP1	4686	broad.mit.edu	37	chr9	100403911	100403911	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagctgatcttcctaactAcaagagcaagatcttaaggc	14	9	9	9	0	2	3	0	1	2	2	3	4	3	4	1	2	4	2	1	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:100403911A>G	uc004axq.2	+	3	650	c.191A>G	c.(190-192)TAC>TGC	p.Y64C		NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa	64	MIF4G.				gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)				CTTCCTAACTACAAGAGCAAG	0.388													8	130					0	0	1	0	0		G	100403911	G	G	100403911	3	3	27	1	0	0	0	0	1	0	0	0	10230	391	14	3	201	3	NCBP1	9	100403911	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	180957	100403911	40809520	4429	26780											
NCBP1	4686	broad.mit.edu	37	chr9	100425241	100425241	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcattatcaaaaggtttcAtgaagtcttcaaaaccctag	15	12	5	9	0	5	1	4	1	1	0	5	1	5	1	1	1	1	1	1	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:100425241A>G	uc004axq.2	+	18	2168	c.1709A>G	c.(1708-1710)CAT>CGT	p.H570R		NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa	570					gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)				AAAAGGTTTCATGAAGTCTTC	0.308													20	76					0	0	1	0	0		G	100425241	G	G	100425241	3	3	27	1	0	0	0	0	1	0	0	0	10230	217	8	3	1779	3	NCBP1	9	100425241	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21330	100425241	40788190	4430	26781											
GALNT12	79695	broad.mit.edu	37	chr9	101602296	101602296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttctcaggaaccttttgggGatgtgacagagaggaagcag	11	10	14	6	0	1	2	1	1	1	1	2	6	1	5	1	4	2	1	1	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:101602296G>A	uc004ayz.2	+	7	1225	c.1225G>A	c.(1225-1227)GAT>AAT	p.D409N		NM_024642	NP_078918	Q8IXK2	GLT12_HUMAN	N-acetylgalactosaminyltransferase 12	409	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(62;0.0559)				ACCTTTTGGGGATGTGACAGA	0.493													9	118					0	0	1	0	0		A	101602296	A	A	101602296	3	1	27	1	0	0	0	0	1	0	0	0	6225	1174	41	4	1251	4	GALNT12	9	101602296	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1177055	101602296	39611135	4431	26782											
COL15A1	1306	broad.mit.edu	37	chr9	101824277	101824277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagcattcagcaacatggatGacatgctgcagaaagcgcat	14	7	10	10	1	1	2	1	1	0	1	1	3	1	3	0	1	6	5	0	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:101824277G>A	uc004azb.1	+	37	3633	c.3427G>A	c.(3427-3429)GAC>AAC	p.D1143N		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1143	Nonhelical region 10 (NC10).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				CAACATGGATGACATGCTGCA	0.423													8	142					0	0	1	0	0		A	101824277	A	A	101824277	3	1	27	1	0	0	0	0	1	0	0	0	3675	1290	45	4	3573	4	COL15A1	9	101824277	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	221981	101824277	39389154	4432	26783											
INVS	27130	broad.mit.edu	37	chr9	103002483	103002483	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaatataacgtcttatgatAacttatttcgaaccccactg	13	13	5	10	2	1	1	0	1	1	0	2	2	1	1	2	0	3	1	2	0	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:103002483A>G	uc004bap.1	+	6	969	c.757A>G	c.(757-759)AAC>GAC	p.N253D	INVS_uc010mta.1_Missense_Mutation_p.N157D|INVS_uc011lve.1_Missense_Mutation_p.N157D|INVS_uc004bao.1_Missense_Mutation_p.N253D|INVS_uc004baq.1_Missense_Mutation_p.N157D|INVS_uc004bar.1_Missense_Mutation_p.N157D|INVS_uc010mtb.1_Translation_Start_Site	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	253					negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				GTCTTATGATAACTTATTTCG	0.428													4	68					0	0	1	0	0		G	103002483	G	G	103002483	3	3	27	1	0	0	0	0	1	0	0	0	7803	362	13	3	775	3	INVS	9	103002483	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1178206	103002483	38210948	4433	26784											
INVS	27130	broad.mit.edu	37	chr9	103054911	103054911	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggccaaatgtgccccccAgaaaaggcgcactcaagagc	14	3	10	14	1	1	2	1	0	0	2	1	2	1	2	4	2	2	1	4	2	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:103054911A>G	uc004bap.1	+	14	2584	c.2372A>G	c.(2371-2373)CAG>CGG	p.Q791R	INVS_uc011lve.1_Missense_Mutation_p.Q695R|INVS_uc004bao.1_Intron|INVS_uc004baq.1_Intron|INVS_uc004bar.1_Missense_Mutation_p.Q695R|INVS_uc010mtb.1_Missense_Mutation_p.Q465R	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	791					negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				TGTGCCCCCCAGAAAAGGCGC	0.647													4	45					0	0	1	0	0		G	103054911	G	G	103054911	3	3	27	1	0	0	0	0	1	0	0	0	7803	188	7	3	2422	3	INVS	9	103054911	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	52428	103054911	38158520	4434	26785											
INVS	27130	broad.mit.edu	37	chr9	103054982	103054982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagccgccctggcagtgccCggggggaggcggtccatgct	4	6	17	14	3	0	0	0	0	0	0	1	1	1	1	4	6	3	2	4	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:103054982C>T	uc004bap.1	+	14	2655	c.2443C>T	c.(2443-2445)CGG>TGG	p.R815W	INVS_uc011lve.1_Missense_Mutation_p.R719W|INVS_uc004bao.1_Intron|INVS_uc004baq.1_Intron|INVS_uc004bar.1_Missense_Mutation_p.R719W|INVS_uc010mtb.1_Missense_Mutation_p.R489W	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	815					negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				TGGCAGTGCCCGGGGGGAGGC	0.587													4	58					0	0	1	0	0		T	103054982	T	T	103054982	3	4	27	1	0	0	0	0	1	0	0	0	7803	643	23	1	2493	1	INVS	9	103054982	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	71	103054982	38158449	4435	26786											
INVS	27130	broad.mit.edu	37	chr9	103055045	103055045	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacaccaagaaacaaagtgAcacaagccaagctcacagga	19	3	8	11	0	1	2	1	1	0	1	1	3	1	3	2	1	4	2	2	1	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:103055045A>G	uc004bap.1	+	14	2718	c.2506A>G	c.(2506-2508)ACA>GCA	p.T836A	INVS_uc011lve.1_Missense_Mutation_p.T740A|INVS_uc004bao.1_Intron|INVS_uc004baq.1_Intron|INVS_uc004bar.1_Missense_Mutation_p.T740A|INVS_uc010mtb.1_Missense_Mutation_p.T510A	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	836					negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				AAACAAAGTGACACAAGCCAA	0.592													6	61					0	0	1	0	0		G	103055045	G	G	103055045	3	3	27	1	0	0	0	0	1	0	0	0	7803	275	10	3	2556	3	INVS	9	103055045	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	63	103055045	38158386	4436	26787											
TEX10	54881	broad.mit.edu	37	chr9	103109393	103109393	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccaaaacttttaaagagTcctcctgaattccttcagta	12	14	5	10	0	1	2	1	1	0	1	5	2	5	2	4	0	1	1	4	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:103109393T>A	uc004bas.2	-	3	691	c.476A>T	c.(475-477)GAC>GTC	p.D159V	TEX10_uc011lvf.1_Intron|TEX10_uc011lvg.1_Missense_Mutation_p.D162V|TEX10_uc011lvh.1_Missense_Mutation_p.D94V|TEX10_uc004bat.2_Missense_Mutation_p.D159V	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	159						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		TTTTAAAGAGTCCTCCTGAAT	0.403													11	107					0	0	1	0	0		A	103109393	A	A	103109393	3	1	27	1	0	0	0	0	1	0	0	0	15797	1667	58	5	2365	5	TEX10	9	103109393	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	54348	103109393	38104038	4437	26788											
LPPR1	54886	broad.mit.edu	37	chr9	104048518	104048518	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggatcataagattcacaGgtgagtacaagatggtgctg	14	9	13	5	0	2	3	2	1	0	2	2	5	2	4	0	3	2	2	0	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:104048518G>T	uc004bbb.2	+	4	784	c.385G>T	c.(385-387)GGG>TGG	p.G129W	LPPR1_uc011lvi.1_Missense_Mutation_p.G105W|LPPR1_uc004bbc.2_Missense_Mutation_p.G129W|LPPR1_uc010mtc.2_Missense_Mutation_p.G113W	NM_207299	NP_997182	Q8TBJ4	LPPR1_HUMAN	plasticity related gene 3	129	Helical; (Potential).					integral to membrane	catalytic activity				0						AAGATTCACAGGTGAGTACAA	0.368													5	61					0.184627	0.185716	1	1	0		T	104048518	T	T	104048518	3	4	27	1	0	0	0	0	1	0	0	0	8942	1014	35	5	395	5	LPPR1	9	104048518	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	939125	104048518	37164913	4438	26789											
RNF20	56254	broad.mit.edu	37	chr9	104312974	104312974	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttctccgtcttgtataaTgagagcctacagttgaaagc	11	12	9	9	1	2	2	0	2	2	1	3	3	2	2	2	0	3	3	2	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:104312974T>C	uc004bbn.2	+	10	1269	c.1179T>C	c.(1177-1179)AAT>AAC	p.N393N		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	393					histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		TCTTGTATAATGAGAGCCTAC	0.512													20	183					0	0	1	0	0		C	104312974	C	C	104312974	2	2	27	1	0	0	0	0	0	0	0	1	13498	1461	51	3		3	RNF20	9	104312974	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	264456	104312974	36900457	4439	26790											
RNF20	56254	broad.mit.edu	37	chr9	104324610	104324610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgtcttctgctttgagtGtgtgaagacacgctatgaca	9	14	10	8	1	3	4	1	3	2	1	3	4	3	4	0	0	1	2	0	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:104324610G>A	uc004bbn.2	+	20	2924	c.2834G>A	c.(2833-2835)TGT>TAT	p.C945Y		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	945	RING-type.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		TGCTTTGAGTGTGTGAAGACA	0.438													4	76					0	0	1	0	0		A	104324610	A	A	104324610	3	1	27	1	0	0	0	0	1	0	0	0	13498	1377	48	4	2908	4	RNF20	9	104324610	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11636	104324610	36888821	4440	26791											
PPP3R2	5535	broad.mit.edu	37	chr9	104356949	104356949	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttctgctcctcgtcgccCttgacgctgaactgggaggt	6	11	11	13	3	1	2	0	2	1	0	4	3	2	3	2	2	3	2	2	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:104356949C>A	uc004bbr.2	-	1	335	c.264G>T	c.(262-264)AAG>AAT	p.K88N	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_Intron	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	85	EF-hand 2.						calcium ion binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	CCTCGTCGCCCTTGACGCTGA	0.537													16	133					1.37657e-19	1.54186e-19	1	1	0		A	104356949	A	A	104356949	3	1	27	1	0	0	0	0	1	0	0	0	12423	680	24	5	261	5	PPP3R2	9	104356949	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	32339	104356949	36856482	4441	26792											
GRIN3A	116443	broad.mit.edu	37	chr9	104385604	104385604	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgactgattaataccttcTatggcaaatggcttccccac	11	12	7	11	0	1	2	0	2	1	0	2	2	2	2	3	2	1	2	3	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:104385604T>C	uc004bbp.1	-	5	3211	c.2610A>G	c.(2608-2610)ATA>ATG	p.I870M	GRIN3A_uc004bbq.1_Missense_Mutation_p.I870M	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	870	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	TAATACCTTCTATGGCAAATG	0.423													6	85					0	0	1	0	0		C	104385604	C	C	104385604	3	2	27	1	0	0	0	0	1	0	0	0	6799	1512	53	3	757	3	GRIN3A	9	104385604	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	28655	104385604	36827827	4442	26793											
GRIN3A	116443	broad.mit.edu	37	chr9	104385638	104385638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccccacagtgagaagtttgCagtcagcatctattgacact	11	11	8	11	0	2	2	1	2	1	1	3	3	3	2	2	0	2	3	2	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:104385638C>T	uc004bbp.1	-	5	3177	c.2576G>A	c.(2575-2577)TGC>TAC	p.C859Y	GRIN3A_uc004bbq.1_Missense_Mutation_p.C859Y	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	859	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	GAGAAGTTTGCAGTCAGCATC	0.418													9	113					0	0	1	0	0		T	104385638	T	T	104385638	3	4	27	1	0	0	0	0	1	0	0	0	6799	710	25	2	791	2	GRIN3A	9	104385638	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	34	104385638	36827793	4443	26794											
CYLC2	1539	broad.mit.edu	37	chr9	105767460	105767460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaatctgaagatgaaaaaGgaggtgcaaagaaagataac	21	5	11	4	0	1	6	0	2	1	4	1	7	1	7	0	2	2	1	0	2	7	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:105767460G>A	uc004bbs.2	+	5	617	c.547G>A	c.(547-549)GGA>AGA	p.G183R		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	183	3 X approximate tandem repeats.|31 X 3 AA repeats of K-K-X.|1.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				agatgaaaaaggaggtgcaaa	0.129													3	24					0	0	1	0	0		A	105767460	A	A	105767460	3	1	27	1	0	0	0	0	1	0	0	0	4145	1001	35	4	565	4	CYLC2	9	105767460	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1381822	105767460	35445971	4444	26795											
SMC2	10592	broad.mit.edu	37	chr9	106900323	106900323	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagtggccttgtcattaatActgtccatgcttctcttcaa	8	17	6	10	0	3	0	2	0	1	0	5	0	4	0	2	1	2	1	2	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:106900323A>G	uc004bbv.2	+	24	3582	c.3294A>G	c.(3292-3294)ATA>ATG	p.I1098M	SMC2_uc004bbw.2_Missense_Mutation_p.I1098M|SMC2_uc011lvl.1_Missense_Mutation_p.I1098M|SMC2_uc004bbx.2_Missense_Mutation_p.I1098M|SMC2_uc004bby.2_RNA	NM_001042551	NP_001036016	O95347	SMC2_HUMAN	structural maintenance of chromosomes 2	1098	Ala/Asp-rich (DA-box).				cell division|mitotic chromosome condensation|symbiosis, encompassing mutualism through parasitism	condensin complex|cytoplasm|nuclear chromosome	ATP binding|protein heterodimerization activity			ovary(4)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|breast(1)	9						TGTCATTAATACTGTCCATGC	0.373													9	89					0	0	1	0	0		G	106900323	G	G	106900323	3	3	27	1	0	0	0	0	1	0	0	0	14808	381	14	3	3384	3	SMC2	9	106900323	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1132863	106900323	34313108	4445	26796											
OR13F1	138805	broad.mit.edu	37	chr9	107266759	107266759	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctctcctttctggacatctgGtactcctcttctgccctctc	3	16	5	17	0	6	0	0	0	6	0	9	1	7	1	3	2	2	1	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:107266759G>A	uc011lvm.1	+	1	216	c.216G>A	c.(214-216)TGG>TGA	p.W72*		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	72	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						TGGACATCTGGTACTCCTCTT	0.488													9	140					0	0	1	0	0		A	107266759	A	A	107266759	4	1	27	1	0	0	0	0	0	1	0	0	10960	1270	44	4	218	4	OR13F1	9	107266759	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	366436	107266759	33946672	4446	26797											
OR13F1	138805	broad.mit.edu	37	chr9	107267453	107267453	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaagtggccttgaaaaaaTtgctgattagaaatcatttt	15	14	8	4	0	1	4	1	3	0	1	1	4	1	4	1	1	1	1	1	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:107267453T>A	uc011lvm.1	+	1	910	c.910T>A	c.(910-912)TTG>ATG	p.L304M		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	304	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						CTTGAAAAAATTGCTGATTAG	0.358													3	57					0	0	1	0	0		A	107267453	A	A	107267453	3	1	27	1	0	0	0	0	1	0	0	0	10960	1490	52	5	912	5	OR13F1	9	107267453	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	694	107267453	33945978	4447	26798											
OR13C4	138804	broad.mit.edu	37	chr9	107289076	107289076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcagcagtacatacaccaCcttgttcatgatgatggggt	11	11	10	9	0	2	2	2	2	0	0	2	2	2	2	2	2	3	3	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:107289076C>T	uc011lvn.1	-	1	415	c.415G>A	c.(415-417)GTG>ATG	p.V139M		NM_001001919	NP_001001919	Q8NGS5	O13C4_HUMAN	olfactory receptor, family 13, subfamily C,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ACATACACCACCTTGTTCATG	0.458													12	83					0	0	1	0	0		T	107289076	T	T	107289076	3	4	27	1	0	0	0	0	1	0	0	0	10955	507	18	4	543	4	OR13C4	9	107289076	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21623	107289076	33924355	4448	26799											
OR13C4	138804	broad.mit.edu	37	chr9	107289113	107289113	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gggtatctcagagggttacaGatggccacataacgatcaaa	14	8	11	8	1	2	2	2	0	1	2	3	3	2	2	1	3	2	2	1	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:107289113G>C	uc011lvn.1	-	1	378	c.378C>G	c.(376-378)ATC>ATG	p.I126M		NM_001001919	NP_001001919	Q8NGS5	O13C4_HUMAN	olfactory receptor, family 13, subfamily C,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GAGGGTTACAGATGGCCACAT	0.453													14	89					0	0	1	0	0		C	107289113	C	C	107289113	3	2	27	1	0	0	0	0	1	0	0	0	10955	932	33	5	580	5	OR13C4	9	107289113	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	37	107289113	33924318	4449	26800											
OR13C5	138799	broad.mit.edu	37	chr9	107361037	107361037	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagatgctcaaaatgattaAcgtgtaagagacaataatta	19	10	8	4	1	1	3	1	1	0	2	1	5	1	3	0	0	2	2	0	0	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:107361037A>T	uc011lvp.1	-	1	658	c.658T>A	c.(658-660)TTA>ATA	p.L220I		NM_001004482	NP_001004482	Q8NGS8	O13C5_HUMAN	olfactory receptor, family 13, subfamily C,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4						AAAATGATTAACGTGTAAGAG	0.433													10	99					0	0	1	0	0		T	107361037	T	T	107361037	3	4	27	1	0	0	0	0	1	0	0	0	10956	40	2	5	300	5	OR13C5	9	107361037	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	71924	107361037	33852394	4450	26801											
OR13D1	286365	broad.mit.edu	37	chr9	107457074	107457074	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtctgagagaaaatccatCtccttcattggctgtgctct	9	14	8	10	0	4	2	1	1	3	1	6	3	5	2	2	1	1	2	2	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:107457074C>A	uc011lvs.1	+	1	372	c.372C>A	c.(370-372)ATC>ATA	p.I124I		NM_001004484	NP_001004484	Q8NGV5	O13D1_HUMAN	olfactory receptor, family 13, subfamily D,	124	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GAAAATCCATCTCCTTCATTG	0.458													14	179					1.49906e-05	1.60671e-05	1	1	0		A	107457074	A	A	107457074	2	1	27	1	0	0	0	0	0	0	0	1	10959	903	32	5		5	OR13D1	9	107457074	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	96037	107457074	33756357	4451	26802											
NIPSNAP3B	55335	broad.mit.edu	37	chr9	107535336	107535336	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcttctgattcctgcatcAttttcaccattgaaatagtt	10	17	5	9	0	3	2	2	2	1	0	4	2	4	2	2	0	2	3	2	0	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:107535336A>G	uc004bci.2	+	6	797	c.726A>G	c.(724-726)TCA>TCG	p.S242S	NIPSNAP3B_uc004bcj.1_RNA|LOC286367_uc004bck.3_5'Flank	NM_018376	NP_060846	Q9BS92	NPS3B_HUMAN	nipsnap homolog 3B	242										pancreas(1)|skin(1)	2						TTCCTGCATCATTTTCACCAT	0.358													4	53					0	0	1	0	0		G	107535336	G	G	107535336	2	3	27	1	0	0	0	0	0	0	0	1	10450	204	8	3		3	NIPSNAP3B	9	107535336	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	78262	107535336	33678095	4452	26803											
ZNF462	58499	broad.mit.edu	37	chr9	109687976	109687976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagccacccacacaagccGcacctctgcacccatacaaa	14	3	4	20	1	1	0	0	0	1	0	1	0	1	0	5	0	4	2	5	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:109687976G>A	uc004bcz.2	+	3	2072	c.1783G>A	c.(1783-1785)GCA>ACA	p.A595T	ZNF462_uc010mto.2_Missense_Mutation_p.A443T|ZNF462_uc004bda.2_Missense_Mutation_p.A443T	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	595					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						CACACAAGCCGCACCTCTGCA	0.547													6	89					0	0	1	0	0		A	109687976	A	A	109687976	3	1	27	1	0	0	0	0	1	0	0	0	17951	1087	38	1	1789	1	ZNF462	9	109687976	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2152640	109687976	31525455	4453	26804											
ZNF462	58499	broad.mit.edu	37	chr9	109688970	109688970	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcactcggacctgatctaccGgtgtcggttttgttcataca	7	14	9	11	3	3	1	2	1	1	0	5	2	3	2	2	3	2	2	2	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:109688970G>T	uc004bcz.2	+	3	3066	c.2777G>T	c.(2776-2778)CGG>CTG	p.R926L	ZNF462_uc010mto.2_Missense_Mutation_p.R774L|ZNF462_uc004bda.2_Missense_Mutation_p.R774L	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	926	C2H2-type 9.				transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						CTGATCTACCGGTGTCGGTTT	0.468													15	158					6.31663e-08	6.9209e-08	1	1	0		T	109688970	T	T	109688970	3	4	27	1	0	0	0	0	1	0	0	0	17951	1116	39	5	2783	5	ZNF462	9	109688970	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	994	109688970	31524461	4454	26805											
ACTL7B	10880	broad.mit.edu	37	chr9	111617647	111617647	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccccgaggtcttgccgtaGgagtagatggacagcaacga	11	6	14	10	3	1	1	0	0	1	1	1	5	1	3	3	3	4	3	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:111617647G>A	uc004bdi.2	-	1	629	c.564C>T	c.(562-564)TCC>TCT	p.S188S		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	188						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						TCTTGCCGTAGGAGTAGATGG	0.662													15	31					0	0	1	0	0		A	111617647	A	A	111617647	2	1	27	1	0	0	0	0	0	0	0	1	201	987	35	4		4	ACTL7B	9	111617647	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1928677	111617647	29595784	4455	26806											
ACTL7B	10880	broad.mit.edu	37	chr9	111617817	111617817	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggcggtgcggaagatgtActcccagatgtcctgcacgc	8	8	13	12	3	0	2	0	0	0	2	2	3	2	3	2	3	3	2	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:111617817A>G	uc004bdi.2	-	1	459	c.394T>C	c.(394-396)TAC>CAC	p.Y132H		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	132						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						CGGAAGATGTACTCCCAGATG	0.642													3	40					0	0	1	0	0		G	111617817	G	G	111617817	3	3	27	1	0	0	0	0	1	0	0	0	201	391	14	3	857	3	ACTL7B	9	111617817	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	170	111617817	29595614	4456	26807											
ACTL7A	10881	broad.mit.edu	37	chr9	111625473	111625473	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatcccattgaggagaagAaagtccctctcagtgagcat	12	9	11	9	0	1	4	1	2	1	2	4	6	3	5	2	2	1	1	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:111625473A>G	uc004bdj.1	+	1	871	c.871A>G	c.(871-873)AAA>GAA	p.K291E		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	291						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						TGAGGAGAAGAAAGTCCCTCT	0.542													5	63					0	0	1	0	0		G	111625473	G	G	111625473	3	3	27	1	0	0	0	0	1	0	0	0	200	247	9	3	873	3	ACTL7A	9	111625473	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7656	111625473	29587958	4457	26808											
ACTL7A	10881	broad.mit.edu	37	chr9	111625641	111625641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtcctgccttaacaagtgtGacatcgccctcaaacgggac	10	9	9	13	2	1	1	1	1	0	0	3	2	2	2	3	1	3	0	3	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:111625641G>A	uc004bdj.1	+	1	1039	c.1039G>A	c.(1039-1041)GAC>AAC	p.D347N		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	347						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						TAACAAGTGTGACATCGCCCT	0.572													12	100					0	0	1	0	0		A	111625641	A	A	111625641	3	1	27	1	0	0	0	0	1	0	0	0	200	1290	45	4	1041	4	ACTL7A	9	111625641	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	168	111625641	29587790	4458	26809											
C9orf6	54942	broad.mit.edu	37	chr9	111697919	111697919	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcatgtattcttctagaTgtcaaaggaaaattttgtga	13	15	8	5	0	4	2	2	1	2	1	4	4	4	3	0	1	0	1	0	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:111697919T>C	uc004bdn.2	+	2	175	c.81T>C	c.(79-81)GAT>GAC	p.D27D	IKBKAP_uc004bdm.3_5'Flank|IKBKAP_uc011lwc.1_5'Flank|IKBKAP_uc010mtq.2_5'Flank|C9orf6_uc010mtr.2_RNA	NM_017832	NP_060302	Q9NX38	CI006_HUMAN	hypothetical protein LOC54942	27					glycine catabolic process	glycine cleavage complex				pancreas(1)	1		Myeloproliferative disorder(63;0.0511)		OV - Ovarian serous cystadenocarcinoma(323;9.58e-07)		TTCTTCTAGATGTCAAAGGAA	0.333													5	49					0	0	1	0	0		C	111697919	C	C	111697919	2	2	27	1	0	0	0	0	0	0	0	1	2491	1478	51	3		3	C9orf6	9	111697919	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	72278	111697919	29515512	4459	26810											
C9orf4	23732	broad.mit.edu	37	chr9	111911987	111911987	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatccacaggaggagcagtAgggaaggggtaacctgggca	12	4	18	7	0	0	0	0	0	0	0	1	4	1	4	2	7	2	4	2	7	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:111911987A>G	uc004bdw.1	-	2	405	c.405T>C	c.(403-405)CCT>CCC	p.P135P		NM_014334	NP_055149	Q9P0K9	CI004_HUMAN	hypothetical protein LOC23732	135						integral to membrane					0						GAGGAGCAGTAGGGAAGGGGT	0.408													3	52					0	0	1	0	0		G	111911987	G	G	111911987	2	3	27	1	0	0	0	0	0	0	0	1	2483	407	15	3		3	C9orf4	9	111911987	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	214068	111911987	29301444	4460	26811											
EPB41L4B	54566	broad.mit.edu	37	chr9	112029765	112029765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctaccttgtaaactccTcacgaaggttgtttggttct	7	15	9	10	1	2	0	1	0	1	0	3	1	3	0	3	3	2	4	3	3	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:112029765T>C	uc004bdz.1	-	4	816	c.521A>G	c.(520-522)GAG>GGG	p.E174G	EPB41L4B_uc004bea.2_Missense_Mutation_p.E174G	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	174	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						TGTAAACTCCTCACGAAGGTT	0.438													5	64					0	0	1	0	0		C	112029765	C	C	112029765	3	2	27	1	0	0	0	0	1	0	0	0	5164	1551	54	3	2425	3	EPB41L4B	9	112029765	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	117778	112029765	29183666	4461	26812											
PTPN3	5774	broad.mit.edu	37	chr9	112225670	112225670	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggtaactccgaggtgcgTatattattaattcttccacc	9	15	8	9	2	1	0	0	0	1	0	3	1	3	0	3	2	2	2	3	2	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:112225670T>C	uc004bed.2	-	2	157	c.45A>G	c.(43-45)ATA>ATG	p.I15M	PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Missense_Mutation_p.I15M|PTPN3_uc011lwh.1_Translation_Start_Site|PTPN3_uc004bee.3_Missense_Mutation_p.I15M	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	15					negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						CCGAGGTGCGTATATTATTAA	0.398													6	97					0	0	1	0	0		C	112225670	C	C	112225670	3	2	27	1	0	0	0	0	1	0	0	0	12814	1628	57	3	2796	3	PTPN3	9	112225670	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	195905	112225670	28987761	4462	26813											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112898690	112898690	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagatccgctatctagatgAggtgctagaggccaactgct	11	9	12	9	1	1	4	0	1	1	3	2	5	2	4	2	2	3	3	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:112898690A>T	uc004bei.2	+	9	1754	c.1562A>T	c.(1561-1563)GAG>GTG	p.E521V	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.E289V|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.E289V|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.E99V|AKAP2_uc011lwi.1_Missense_Mutation_p.E147V|AKAP2_uc004bem.2_Missense_Mutation_p.E147V|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.E107V|AKAP2_uc011lwj.1_Missense_Mutation_p.E58V|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.E58V	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	58							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						TATCTAGATGAGGTGCTAGAG	0.537													6	96					0	0	1	0	0		T	112898690	T	T	112898690	3	4	27	1	0	0	0	0	1	0	0	0	11429	304	11	5	896	5	PALM2-AKAP2	9	112898690	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	673020	112898690	28314741	4463	26814											
SVEP1	79987	broad.mit.edu	37	chr9	113169574	113169574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatgaaatggcttcacagCgtggggaggcaccactccac	10	7	12	12	1	1	1	1	1	0	0	2	2	2	2	2	4	2	3	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:113169574C>T	uc010mtz.2	-	38	8643	c.8306G>A	c.(8305-8307)CGC>CAC	p.R2769H	SVEP1_uc010mty.2_Missense_Mutation_p.R695H	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	2769	Sushi 22.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GGCTTCACAGCGTGGGGAGGC	0.463													31	97					0	0	1	0	0		T	113169574	T	T	113169574	3	4	27	1	0	0	0	0	1	0	0	0	15445	768	27	1	2453	1	SVEP1	9	113169574	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	270884	113169574	28043857	4464	26815											
LPAR1	1902	broad.mit.edu	37	chr9	113637717	113637717	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttctaaaccacagagtggTcattgctgtgaactccagcc	10	10	9	12	1	2	2	1	1	1	1	3	2	3	2	3	1	4	2	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:113637717T>A	uc004bfa.2	-	5	1334	c.1079A>T	c.(1078-1080)GAC>GTC	p.D360V	LPAR1_uc011lwm.1_Missense_Mutation_p.D361V|LPAR1_uc004bfb.2_Missense_Mutation_p.D360V|LPAR1_uc004bfc.2_Missense_Mutation_p.D360V|LPAR1_uc011lwn.1_Missense_Mutation_p.D342V|LPAR1_uc011lwo.1_Missense_Mutation_p.D361V|LPAR1_uc010mub.2_Missense_Mutation_p.D360V	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	360	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						CACAGAGTGGTCATTGCTGTG	0.587													5	39					0	0	1	0	0		A	113637717	A	A	113637717	3	1	27	1	0	0	0	0	1	0	0	0	8922	1667	58	5	19	5	LPAR1	9	113637717	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	468143	113637717	27575714	4465	26816											
KIAA0368	23392	broad.mit.edu	37	chr9	114134086	114134086	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtaattaactcctgcaggtAtaatcgaatgccaccaaagg	15	9	8	9	1	0	0	0	0	0	0	2	1	1	0	3	2	3	3	3	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:114134086A>T	uc004bfe.1	-	44	5086	c.5086T>A	c.(5086-5088)TAC>AAC	p.Y1696N		NM_001080398	NP_001073867			KIAA0368 protein												0						TCCTGCAGGTATAATCGAATG	0.373													7	102					0	0	1	0	0		T	114134086	T	T	114134086	3	4	27	1	0	0	0	0	1	0	0	0	8187	449	16	5	999	5	KIAA0368	9	114134086	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	496369	114134086	27079345	4466	26817											
ZNF483	158399	broad.mit.edu	37	chr9	114305075	114305075	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacttttagccattttacGtctgtgatttatcatcaaag	11	17	6	7	1	3	2	2	2	1	0	3	2	3	2	1	0	2	0	1	0	4	6	rs142830150		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:114305075G>A	uc004bff.2	+	6	2084	c.1860G>A	c.(1858-1860)ACG>ACA	p.T620T	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	620	C2H2-type 7.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						GCCATTTTACGTCTGTGATTT	0.408													11	33					0	0	1	0	0		A	114305075	A	A	114305075	2	1	27	1	0	0	0	0	0	0	0	1	17961	1132	40	1		1	ZNF483	9	114305075	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	170989	114305075	26908356	4467	26818											
PTGR1	22949	broad.mit.edu	37	chr9	114337052	114337052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttctgttatatgtagagatgGctccacatatggcaatcctt	10	15	8	8	0	1	1	0	0	1	1	3	2	3	1	2	2	0	4	2	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:114337052G>A	uc004bfh.2	-	8	825	c.722C>T	c.(721-723)GCC>GTC	p.A241V	ZNF483_uc004bfg.2_Intron|PTGR1_uc011lwr.1_Missense_Mutation_p.A241V|PTGR1_uc004bfi.3_Missense_Mutation_p.A241V|PTGR1_uc004bfj.3_Missense_Mutation_p.A118V|PTGR1_uc010mue.2_Missense_Mutation_p.A241V	NM_012212	NP_036344	Q14914	PTGR1_HUMAN	prostaglandin reductase 1 isoform 1	241	NADP.				leukotriene metabolic process	cytoplasm	15-oxoprostaglandin 13-oxidase activity|2-alkenal reductase activity|alcohol dehydrogenase (NAD) activity|zinc ion binding				0						TGTAGAGATGGCTCCACATAT	0.433													16	140					0	0	1	0	0		A	114337052	A	A	114337052	3	1	27	1	0	0	0	0	1	0	0	0	12776	1203	42	2	310	2	PTGR1	9	114337052	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31977	114337052	26876379	4468	26819											
C9orf84	158401	broad.mit.edu	37	chr9	114454706	114454706	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggtactaatctgattcCtattttcctgaggtgacgaa	12	13	8	8	1	1	3	0	3	1	0	3	4	3	3	2	2	1	1	2	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:114454706C>A	uc004bfr.2	-	25	3494	c.3359G>T	c.(3358-3360)AGG>ATG	p.R1120M	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Missense_Mutation_p.R1081M|C9orf84_uc010mug.2_Missense_Mutation_p.R1031M	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	1120										ovary(2)	2						AATCTGATTCCTATTTTCCTG	0.333													7	94					2.0095e-06	2.17775e-06	1	1	0		A	114454706	A	A	114454706	3	1	27	1	0	0	0	0	1	0	0	0	2503	681	24	5	983	5	C9orf84	9	114454706	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	117654	114454706	26758725	4469	26820											
C9orf84	158401	broad.mit.edu	37	chr9	114456540	114456540	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaactttaagccaggattTatccaaccattcatgaggat	14	12	7	8	0	1	2	1	2	0	0	2	4	2	4	3	2	3	0	3	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:114456540T>C	uc004bfr.2	-	23	3229	c.3094A>G	c.(3094-3096)AAA>GAA	p.K1032E	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Missense_Mutation_p.K993E|C9orf84_uc010mug.2_Missense_Mutation_p.K943E	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	1032										ovary(2)	2						AGCCAGGATTTATCCAACCAT	0.338													23	225					0	0	1	0	0		C	114456540	C	C	114456540	3	2	27	1	0	0	0	0	1	0	0	0	2503	1763	61	3	1256	3	C9orf84	9	114456540	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1834	114456540	26756891	4470	26821											
HSDL2	84263	broad.mit.edu	37	chr9	115166290	115166290	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtaggaggctggcaggatgTacagtttttatcacaggtgc	9	12	14	6	0	1	0	1	0	0	0	1	2	1	2	0	5	2	5	0	5	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:115166290T>C	uc004bga.1	+	2	126	c.33T>C	c.(31-33)TGT>TGC	p.C11C	HSDL2_uc011lwv.1_Intron|HSDL2_uc004bgb.1_5'UTR|HSDL2_uc004bgc.1_Silent_p.C11C|HSDL2_uc011lww.1_5'UTR	NM_032303	NP_115679	Q6YN16	HSDL2_HUMAN	hydroxysteroid dehydrogenase like 2	11						peroxisome	oxidoreductase activity|sterol binding				0						TGGCAGGATGTACAGTTTTTA	0.413													13	109					0	0	1	0	0		C	115166290	C	C	115166290	2	2	27	1	0	0	0	0	0	0	0	1	7410	1644	57	3		3	HSDL2	9	115166290	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	709750	115166290	26047141	4471	26822											
SNX30	401548	broad.mit.edu	37	chr9	115600867	115600867	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacccctggagggtgtgTcagcttgcattgggaactgc	7	10	14	10	0	1	1	1	1	0	0	1	3	1	3	2	3	5	2	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:115600867T>A	uc004bgj.3	+	6	1052	c.904T>A	c.(904-906)TCA>ACA	p.S302T	SNX30_uc004bgi.3_5'UTR	NM_001012994	NP_001013012	Q5VWJ9	SNX30_HUMAN	sorting nexin family member 30	302					cell communication|protein transport	cytoplasm	phosphatidylinositol binding				0						GGAGGGTGTGTCAGCTTGCAT	0.512													11	114					0	0	1	0	0		A	115600867	A	A	115600867	3	1	27	1	0	0	0	0	1	0	0	0	14925	1667	58	5	926	5	SNX30	9	115600867	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	434577	115600867	25612564	4472	26823											
SNX30	401548	broad.mit.edu	37	chr9	115626531	115626531	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctcccttttccaggtacCggcggacgtcgagaaatgtc	7	10	11	13	4	0	1	0	0	0	1	4	3	2	2	4	3	2	1	4	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:115626531C>A	uc004bgj.3	+	8	1254	c.1106C>A	c.(1105-1107)CCG>CAG	p.P369Q	SNX30_uc004bgi.3_Missense_Mutation_p.P51Q	NM_001012994	NP_001013012	Q5VWJ9	SNX30_HUMAN	sorting nexin family member 30	369					cell communication|protein transport	cytoplasm	phosphatidylinositol binding				0						TTCCAGGTACCGGCGGACGTC	0.542													6	20					0.0293803	0.0298427	1	1	0		A	115626531	A	A	115626531	3	1	27	1	0	0	0	0	1	0	0	0	14925	652	23	5	1136	5	SNX30	9	115626531	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25664	115626531	25586900	4473	26824											
FKBP15	23307	broad.mit.edu	37	chr9	115931875	115931875	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaattgaagtcgggggcccTagaactctgtgggatgggat	9	9	17	6	1	1	2	0	1	1	1	2	5	1	5	1	5	1	0	1	5	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:115931875T>C	uc004bgs.2	-	26	3232	c.3114A>G	c.(3112-3114)CTA>CTG	p.L1038L	FKBP15_uc004bgr.2_Silent_p.L475L|FKBP15_uc011lxc.1_Silent_p.L619L|FKBP15_uc011lxd.1_Silent_p.L970L	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	1038					endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						TCGGGGGCCCTAGAACTCTGT	0.557													10	94					0	0	1	0	0		C	115931875	C	C	115931875	2	2	27	1	0	0	0	0	0	0	0	1	5919	1509	53	3		3	FKBP15	9	115931875	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	305344	115931875	25281556	4474	26825											
FKBP15	23307	broad.mit.edu	37	chr9	115936846	115936846	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctcttgagctgacttcttTttcctttctgagaggttctt	4	19	8	10	1	4	3	0	3	4	1	5	4	5	3	1	1	1	3	1	1	0	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:115936846T>C	uc004bgs.2	-	22	2359	c.2241A>G	c.(2239-2241)AAA>AAG	p.K747K	FKBP15_uc004bgr.2_Silent_p.K184K|FKBP15_uc011lxc.1_Silent_p.K328K|FKBP15_uc011lxd.1_Silent_p.K679K	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	747	Potential.				endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						CTGACTTCTTTTTCCTTTCTG	0.438													10	100					0	0	1	0	0		C	115936846	C	C	115936846	2	2	27	1	0	0	0	0	0	0	0	1	5919	1838	64	3		3	FKBP15	9	115936846	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4971	115936846	25276585	4475	26826											
PRPF4	9128	broad.mit.edu	37	chr9	116049018	116049018	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggagcaattgtattccAtcccaaatccactgtctcct	10	13	6	12	0	1	0	0	0	1	0	5	1	4	1	4	1	1	3	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:116049018A>G	uc004bgx.2	+	9	895	c.845A>G	c.(844-846)CAT>CGT	p.H282R	PRPF4_uc004bgy.2_Missense_Mutation_p.H281R	NM_004697	NP_004688	O43172	PRP4_HUMAN	PRP4 pre-mRNA processing factor 4 homolog	282	WD 2.			NVGAIVFH -> KKEQLHSI (in Ref. 3; AAC02261).		Cajal body|nuclear speck|spliceosomal complex|U4/U6 snRNP	protein binding			ovary(2)|pancreas(1)	3						ATTGTATTCCATCCCAAATCC	0.443													30	343					0	0	1	0	0		G	116049018	G	G	116049018	3	3	27	1	0	0	0	0	1	0	0	0	12592	217	8	3	879	3	PRPF4	9	116049018	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	112172	116049018	25164413	4476	26827											
ALAD	210	broad.mit.edu	37	chr9	116151752	116151752	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccgcacgatgtccaggtagGgcattcccggcttcaccatg	7	8	11	15	3	1	0	1	0	0	0	3	1	3	0	4	3	0	4	4	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:116151752G>T	uc011lxf.1	-	10	969	c.767C>A	c.(766-768)CCC>CAC	p.P256H	ALAD_uc011lxe.1_Missense_Mutation_p.P239H|ALAD_uc004bhl.3_Missense_Mutation_p.P285H	NM_000031	NP_000022	P13716	HEM2_HUMAN	delta-aminolevulinic acid dehydratase	256					heme biosynthetic process|protein homooligomerization	cytosol	identical protein binding|lead ion binding|porphobilinogen synthase activity|zinc ion binding				0					Aminolevulinic acid(DB00855)	GTCCAGGTAGGGCATTCCCGG	0.587													17	74					3.5997e-14	4.01733e-14	1	1	0		T	116151752	T	T	116151752	3	4	27	1	0	0	0	0	1	0	0	0	483	1232	43	5	237	5	ALAD	9	116151752	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	102734	116151752	25061679	4477	26828											
RGS3	5998	broad.mit.edu	37	chr9	116359109	116359109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgcagagcgtcacgcgggGctgcttcgacctggcacaga	7	6	14	14	4	1	2	1	0	0	2	2	3	1	2	2	3	3	4	2	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:116359109G>A	uc004bhq.2	+	26	3682	c.3473G>A	c.(3472-3474)GGC>GAC	p.G1158D	RGS3_uc004bhs.2_Missense_Mutation_p.G1048D|RGS3_uc004bht.2_Missense_Mutation_p.G877D|RGS3_uc010muy.2_Missense_Mutation_p.G551D|RGS3_uc004bhv.2_Missense_Mutation_p.G479D|RGS3_uc004bhw.2_Missense_Mutation_p.G128D|RGS3_uc011lxh.1_Missense_Mutation_p.G468D|RGS3_uc004bhx.2_Missense_Mutation_p.G479D|RGS3_uc004bhz.2_Missense_Mutation_p.G500D|RGS3_uc004bia.2_Missense_Mutation_p.G271D	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	1158	RGS.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						GTCACGCGGGGCTGCTTCGAC	0.602													6	66					0	0	1	0	0		A	116359109	A	A	116359109	3	1	27	1	0	0	0	0	1	0	0	0	13331	1203	42	2	4247	2	RGS3	9	116359109	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	207357	116359109	24854322	4478	26829											
PAPPA	5069	broad.mit.edu	37	chr9	119065092	119065093	+	Frame_Shift_Ins	INS	-	A	A																															ggtatgtgaggagtttgaacINSaaaaaaccagcattaaggac																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:119065092_119065093insA	uc004bjn.2	+	10	3391_3392	c.3010_3011insA	c.(3010-3012)CAAfs	p.Q1004fs	PAPPA_uc011lxp.1_Frame_Shift_Ins_p.Q699fs|PAPPA_uc011lxq.1_Frame_Shift_Ins_p.Q379fs	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1004					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GGAGTTTGAACAAAAAACCAGC	0.446													31	68	---	---	---	---						.	A	119065093	A	A	119065092	7	5	27	1	0	1	1	0	0	0	0	0	11451	479	17	0	3048	0	PAPPA	9	119065092	Frame_Shift_Ins	INS	-	TCGA-BR-6452-01A-12D-1800-08	2705983	119065092	22148339	4479	26830											
ASTN2	23245	broad.mit.edu	37	chr9	119414057	119414057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acttgagctccttcttgctgCccagctctgtggtctctgga	4	14	10	13	0	3	1	0	1	3	0	5	2	4	2	2	2	4	3	2	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:119414057C>T	uc004bjs.1	-	17	2923	c.2822G>A	c.(2821-2823)GGC>GAC	p.G941D	ASTN2_uc004bjr.1_Missense_Mutation_p.G937D|ASTN2_uc004bjt.1_Missense_Mutation_p.G890D|ASTN2_uc004bjp.1_Missense_Mutation_p.G34D|ASTN2_uc004bjq.1_5'UTR|ASTN2_uc011lxr.1_5'UTR|ASTN2_uc011lxs.1_5'UTR|ASTN2_uc011lxt.1_5'UTR|ASTN2_uc004bjv.1_5'UTR	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	941	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CTTCTTGCTGCCCAGCTCTGT	0.493													7	81					0	0	1	0	0		T	119414057	T	T	119414057	3	4	27	1	0	0	0	0	1	0	0	0	1066	739	26	2	1344	2	ASTN2	9	119414057	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	348965	119414057	21799374	4480	26831											
TRIM32	22954	broad.mit.edu	37	chr9	119460783	119460783	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggcagatgtagcactactGgaggagacagctgatgagga	13	6	15	7	0	0	4	0	2	0	2	0	7	0	6	0	4	3	4	0	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:119460783G>A	uc004bjx.2	+	2	920	c.762G>A	c.(760-762)CTG>CTA	p.L254L	ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjs.1_Intron|ASTN2_uc004bjt.1_Intron|TRIM32_uc004bjw.2_Silent_p.L254L	NM_001099679	NP_001093149	Q13049	TRI32_HUMAN	tripartite motif-containing 32	254					fat cell differentiation|innate immune response|negative regulation of apoptosis|negative regulation of fibroblast proliferation|positive regulation of cell cycle|positive regulation of cell growth|positive regulation of cell migration|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein catabolic process|positive regulation of proteolysis|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to tumor necrosis factor|response to UV	nucleus	myosin binding|protein self-association|RNA binding|Tat protein binding|transcription coactivator activity|translation initiation factor binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(2)|kidney(1)	3						TAGCACTACTGGAGGAGACAG	0.552									Bardet-Biedl_syndrome				10	33					0	0	1	0	0		A	119460783	A	A	119460783	2	1	27	1	0	0	0	0	0	0	0	1	16532	1335	47	4		4	TRIM32	9	119460783	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46726	119460783	21752648	4481	26832											
ASTN2	23245	broad.mit.edu	37	chr9	119488179	119488179	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctggatgaaggacagcaGctcctcccgactgctctcct	7	9	11	14	1	1	1	0	1	1	0	4	4	3	3	3	2	4	4	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:119488179G>T	uc004bjs.1	-	16	2778	c.2677C>A	c.(2677-2679)CTG>ATG	p.L893M	ASTN2_uc004bjr.1_Missense_Mutation_p.L889M|ASTN2_uc004bjt.1_Missense_Mutation_p.L842M	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	893	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						AAGGACAGCAGCTCCTCCCGA	0.557													9	118					1.76689e-08	1.94149e-08	1	1	0		T	119488179	T	T	119488179	3	4	27	1	0	0	0	0	1	0	0	0	1066	962	34	5	1606	5	ASTN2	9	119488179	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27396	119488179	21725252	4482	26833											
ASTN2	23245	broad.mit.edu	37	chr9	119582989	119582989	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagccgccattaaagccaTcagagcagtcaatgcctttg	12	8	8	13	1	2	1	2	0	0	1	2	1	2	1	4	0	4	1	4	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:119582989T>C	uc004bjs.1	-	12	2215	c.2114A>G	c.(2113-2115)GAT>GGT	p.D705G	ASTN2_uc004bjr.1_Missense_Mutation_p.D701G|ASTN2_uc004bjt.1_Missense_Mutation_p.D654G	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	705	Extracellular (Potential).|EGF-like 3.					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						ATTAAAGCCATCAGAGCAGTC	0.582													4	59					0	0	1	0	0		C	119582989	C	C	119582989	3	2	27	1	0	0	0	0	1	0	0	0	1066	1435	50	3	2185	3	ASTN2	9	119582989	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	94810	119582989	21630442	4483	26834											
TLR4	7099	broad.mit.edu	37	chr9	120476261	120476261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcagataagcagggcatgCctgtgctgagtttgaatatc	10	12	11	8	0	1	3	1	2	0	1	2	3	1	3	1	1	3	4	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:120476261C>T	uc004bjz.2	+	3	2146	c.1855C>T	c.(1855-1857)CCT>TCT	p.P619S	TLR4_uc004bka.2_Missense_Mutation_p.P579S|TLR4_uc004bkb.2_Missense_Mutation_p.P419S	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	619	LRRCT.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						GCAGGGCATGCCTGTGCTGAG	0.468													4	34					0	0	1	0	0		T	120476261	T	T	120476261	3	4	27	1	0	0	0	0	1	0	0	0	15978	739	26	2	1865	2	TLR4	9	120476261	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	893272	120476261	20737170	4484	26835											
DBC1	1620	broad.mit.edu	37	chr9	121971132	121971132	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgtagcggttctgcaggTcccagtcattgccccagtgc	5	11	12	13	1	2	0	1	0	1	0	3	0	3	0	3	2	4	4	3	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:121971132T>C	uc004bkc.2	-	7	1466	c.1010A>G	c.(1009-1011)GAC>GGC	p.D337G		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	337					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GTTCTGCAGGTCCCAGTCATT	0.537													7	81					0	0	1	0	0		C	121971132	C	C	121971132	3	2	27	1	0	0	0	0	1	0	0	0	4250	1667	58	3	1283	3	DBC1	9	121971132	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1494871	121971132	19242299	4485	26836											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123210340	123210340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgggtggcagggagaCgatacatatttcctaatgac	10	10	11	10	1	0	2	0	1	0	1	2	4	2	2	3	3	1	1	3	3	3	4	rs149193447	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:123210340C>T	uc004bkf.2	-	22	3039	c.2858G>A	c.(2857-2859)CGT>CAT	p.R953H	CDK5RAP2_uc010mvi.2_Missense_Mutation_p.R3H|CDK5RAP2_uc004bke.2_Missense_Mutation_p.R238H|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.R953H|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.R218H|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.R218H|CDK5RAP2_uc011lya.1_Missense_Mutation_p.R218H|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.R723H|CDK5RAP2_uc004bki.2_Missense_Mutation_p.R720H	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	953	Interaction with MAPRE1.				brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						GGCAGGGAGACGATACATATT	0.473													40	92					0	0	1	0	0		T	123210340	T	T	123210340	3	4	27	1	0	0	0	0	1	0	0	0	3149	536	19	1	2891	1	CDK5RAP2	9	123210340	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1239208	123210340	18003091	4486	26837											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123253685	123253685	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcactcagaagactcttgTaacgattttccattgctttc	9	17	5	10	1	3	2	2	0	1	2	5	3	4	2	1	0	2	2	1	0	2	7	rs140513883		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:123253685T>C	uc004bkf.2	-	13	1563	c.1382A>G	c.(1381-1383)TAC>TGC	p.Y461C	CDK5RAP2_uc004bkg.2_Missense_Mutation_p.Y461C|CDK5RAP2_uc011lxw.1_5'UTR|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_5'UTR|CDK5RAP2_uc011lya.1_5'UTR|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.Y461C|CDK5RAP2_uc004bki.2_Missense_Mutation_p.Y260C	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	461					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						AAGACTCTTGTAACGATTTTC	0.338													4	48					0	0	1	0	0		C	123253685	C	C	123253685	3	2	27	1	0	0	0	0	1	0	0	0	3149	1638	57	3	4403	3	CDK5RAP2	9	123253685	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	43345	123253685	17959746	4487	26838											
C5	727	broad.mit.edu	37	chr9	123776296	123776296	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtttcatcattattaacGcaggctccatcgtaacaaca	13	11	6	11	2	2	0	2	0	0	0	4	0	3	0	1	2	3	4	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:123776296G>A	uc004bkv.2	-	17	2142	c.2112C>T	c.(2110-2112)TGC>TGT	p.C704C	C5_uc010mvm.1_Silent_p.C704C	NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	704	Anaphylatoxin-like.				activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	CATTATTAACGCAGGCTCCAT	0.408													5	61					0	0	1	0	0		A	123776296	A	A	123776296	2	1	27	1	0	0	0	0	0	0	0	1	2283	1079	38	1		1	C5	9	123776296	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	522611	123776296	17437135	4488	26839											
C5	727	broad.mit.edu	37	chr9	123782388	123782388	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaactttggctgagagatgAgtatgctattgctcggtaac	10	13	12	6	1	0	3	0	2	0	1	1	4	0	3	0	2	4	6	0	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:123782388A>T	uc004bkv.2	-	12	1402	c.1372T>A	c.(1372-1374)TCA>ACA	p.S458T	C5_uc010mvm.1_Missense_Mutation_p.S458T|C5_uc010mvn.1_Missense_Mutation_p.S458T	NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	458					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	CTGAGAGATGAGTATGCTATT	0.398													8	111					0	0	1	0	0		T	123782388	T	T	123782388	3	4	27	1	0	0	0	0	1	0	0	0	2283	304	11	5	3778	5	C5	9	123782388	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6092	123782388	17431043	4489	26840											
CEP110	11064	broad.mit.edu	37	chr9	123920323	123920323	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggatcaccacctgcaggTccttaaagaatctgaggtgc	11	9	11	10	0	2	3	1	2	1	1	3	4	3	4	3	3	2	1	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:123920323T>A	uc004bkx.1	+	28	4731	c.4700T>A	c.(4699-4701)GTC>GAC	p.V1567D	CEP110_uc010mvo.1_Missense_Mutation_p.V236D|CEP110_uc004blb.1_Missense_Mutation_p.V236D|CEP110_uc010mvp.1_Intron	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	1567	Potential.				cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						CACCTGCAGGTCCTTAAAGAA	0.468													8	98					0	0	1	0	0		A	123920323	A	A	123920323	3	1	27	1	0	0	0	0	1	0	0	0	3248	1667	58	5	4810	5	CEP110	9	123920323	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	137935	123920323	17293108	4490	26841											
GSN	2934	broad.mit.edu	37	chr9	124081025	124081025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggacccagaccagacagatgGcctgggcttgtcctaccttt	8	9	11	13	0	0	3	0	0	0	3	1	4	1	4	5	3	1	1	5	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:124081025G>A	uc004blf.1	+	9	1272	c.1211G>A	c.(1210-1212)GGC>GAC	p.G404D	GSN_uc004bld.1_Missense_Mutation_p.G353D|GSN_uc010mvq.1_Missense_Mutation_p.G364D|GSN_uc010mvr.1_Missense_Mutation_p.G364D|GSN_uc010mvu.1_Missense_Mutation_p.G353D|GSN_uc010mvt.1_Missense_Mutation_p.G353D|GSN_uc010mvs.1_Missense_Mutation_p.G353D|GSN_uc004ble.1_Missense_Mutation_p.G353D|GSN_uc010mvv.1_Missense_Mutation_p.G353D|GSN_uc011lyh.1_Missense_Mutation_p.G370D|GSN_uc011lyi.1_Missense_Mutation_p.G353D|GSN_uc011lyj.1_Missense_Mutation_p.G377D|GSN_uc004blg.1_Missense_Mutation_p.G135D	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	404					actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						CAGACAGATGGCCTGGGCTTG	0.642													6	44					0	0	1	0	0		A	124081025	A	A	124081025	3	1	27	1	0	0	0	0	1	0	0	0	6841	1203	42	2	1273	2	GSN	9	124081025	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	160702	124081025	17132406	4491	26842											
DAB2IP	153090	broad.mit.edu	37	chr9	124535066	124535066	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatggtggacctccaggaCgcccgcacgctggatgggga	7	6	15	13	3	0	0	0	0	0	0	2	4	2	4	4	6	0	2	4	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:124535066C>T	uc004bln.2	+	12	2244	c.2175C>T	c.(2173-2175)GAC>GAT	p.D725D	DAB2IP_uc004blo.2_Silent_p.D629D|DAB2IP_uc004blp.2_Silent_p.D158D	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	753					activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						ACCTCCAGGACGCCCGCACGC	0.697													5	19					0	0	1	0	0		T	124535066	T	T	124535066	2	4	27	1	0	0	0	0	0	0	0	1	4222	535	19	1		1	DAB2IP	9	124535066	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	454041	124535066	16678365	4492	26843											
NDUFA8	4702	broad.mit.edu	37	chr9	124906577	124906577	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaggctgcagatctccctcGatctcagggctgggatccgg	6	8	14	13	2	2	1	1	0	2	1	6	3	3	2	2	4	1	4	2	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:124906577G>A	uc004blv.2	-	4	604	c.462C>T	c.(460-462)ATC>ATT	p.I154I		NM_014222	NP_055037	P51970	NDUA8_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	154					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			breast(1)	1					NADH(DB00157)	GATCTCCCTCGATCTCAGGGC	0.547													15	68					0	0	1	0	0		A	124906577	A	A	124906577	2	1	27	1	0	0	0	0	0	0	0	1	10290	1048	37	1		1	NDUFA8	9	124906577	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	371511	124906577	16306854	4493	26844											
RBM18	92400	broad.mit.edu	37	chr9	125009820	125009820	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacttgagcatgtgcccatcGcaccaccagcttcttggaca	9	10	8	14	1	1	1	0	1	1	0	2	2	1	2	3	1	4	3	3	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:125009820G>A	uc004bma.2	-	4	470	c.304C>T	c.(304-306)CGA>TGA	p.R102*	RBM18_uc004blz.2_RNA|RBM18_uc010mvy.2_RNA|RBM18_uc011lyp.1_Intron	NM_033117	NP_149108	Q96H35	RBM18_HUMAN	RNA binding motif protein 18	102	RRM.						nucleotide binding|RNA binding				0						TGTGCCCATCGCACCACCAGC	0.483													16	53					0	0	1	0	0		A	125009820	A	A	125009820	4	1	27	1	0	0	0	0	0	1	0	0	13145	1095	38	1	280	1	RBM18	9	125009820	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	103243	125009820	16203611	4494	26845											
OR1L8	138881	broad.mit.edu	37	chr9	125330036	125330036	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaggtaaaaaccacaggTggagaaggctttgcgtttcc	11	9	14	7	1	0	2	0	1	0	1	1	3	1	2	2	5	2	3	2	5	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:125330036T>C	uc004bmp.1	-	1	721	c.721A>G	c.(721-723)ACC>GCC	p.T241A		NM_001004454	NP_001004454	Q8NGR8	OR1L8_HUMAN	olfactory receptor, family 1, subfamily L,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3						AAACCACAGGTGGAGAAGGCT	0.473													6	40					0	0	1	0	0		C	125330036	C	C	125330036	3	2	27	1	0	0	0	0	1	0	0	0	10986	1696	59	3	212	3	OR1L8	9	125330036	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	320216	125330036	15883395	4495	26846											
OR5C1	392391	broad.mit.edu	37	chr9	125551853	125551853	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcatccagacagccacGgtgttagctatcacggtgtc	8	10	11	12	2	2	1	2	0	0	1	4	1	3	1	2	3	2	3	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:125551853G>A	uc011lzd.1	+	1	642	c.642G>A	c.(640-642)ACG>ACA	p.T214T		NM_001001923	NP_001001923	Q8NGR4	OR5C1_HUMAN	olfactory receptor, family 5, subfamily C,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1						AGACAGCCACGGTGTTAGCTA	0.582													5	45					0	0	1	0	0		A	125551853	A	A	125551853	2	1	27	1	0	0	0	0	0	0	0	1	11172	1103	39	1		1	OR5C1	9	125551853	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	221817	125551853	15661578	4496	26847											
OR5C1	392391	broad.mit.edu	37	chr9	125551886	125551886	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acggtgtcttatggcttcatCgctggggctgtgatccacat	6	13	12	10	2	2	1	1	1	1	0	4	1	3	1	1	4	0	3	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:125551886C>T	uc011lzd.1	+	1	675	c.675C>T	c.(673-675)ATC>ATT	p.I225I		NM_001001923	NP_001001923	Q8NGR4	OR5C1_HUMAN	olfactory receptor, family 5, subfamily C,	225	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1						ATGGCTTCATCGCTGGGGCTG	0.592													12	45					0	0	1	0	0		T	125551886	T	T	125551886	2	4	27	1	0	0	0	0	0	0	0	1	11172	874	31	1		1	OR5C1	9	125551886	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	33	125551886	15661545	4497	26848											
OR1K1	392392	broad.mit.edu	37	chr9	125562695	125562695	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccatctcgctggctggctgCctgacccaaatgtacttctt	6	13	8	14	1	2	1	0	1	2	0	4	1	3	1	3	2	2	4	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:125562695C>G	uc011lze.1	+	1	294	c.294C>G	c.(292-294)TGC>TGG	p.C98W		NM_080859	NP_543135	Q8NGR3	OR1K1_HUMAN	olfactory receptor, family 1, subfamily K,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TGGCTGGCTGCCTGACCCAAA	0.592													26	73					0	0	1	0	0		G	125562695	G	G	125562695	3	3	27	1	0	0	0	0	1	0	0	0	10981	747	26	5	296	5	OR1K1	9	125562695	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10809	125562695	15650736	4498	26849											
RC3H2	54542	broad.mit.edu	37	chr9	125617543	125617543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggtatggtaacctgtacggGaagatctggaaatcgcaccc	11	9	12	9	2	1	1	0	0	1	1	2	3	1	3	2	4	2	4	2	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:125617543G>A	uc010mwc.1	-	15	2976	c.2735C>T	c.(2734-2736)TCC>TTC	p.S912F	RC3H2_uc004bnc.2_RNA|RC3H2_uc004bnd.1_Missense_Mutation_p.S912F|RC3H2_uc004bne.3_Missense_Mutation_p.S912F	NM_001100588	NP_001094058	Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type zinc finger domains 2	912						cell surface|endomembrane system|membrane|membrane fraction|perinuclear region of cytoplasm	DNA binding|zinc ion binding			ovary(2)|lung(2)	4						ACCTGTACGGGAAGATCTGGA	0.438													6	48					0	0	1	0	0		A	125617543	A	A	125617543	3	1	27	1	0	0	0	0	1	0	0	0	13192	1174	41	4	946	4	RC3H2	9	125617543	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	54848	125617543	15595888	4499	26850											
ZBTB6	10773	broad.mit.edu	37	chr9	125673310	125673310	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagggccgtatgcccatgtGtcctcggatgtgtcggttga	7	11	14	9	3	0	1	0	1	0	0	3	2	1	2	3	3	1	2	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:125673310G>T	uc004bnh.2	-	2	1131	c.1042C>A	c.(1042-1044)CAC>AAC	p.H348N		NM_006626	NP_006617	Q15916	ZBTB6_HUMAN	zinc finger and BTB domain containing 6	348	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGCCCATGTGTCCTCGGATG	0.443													19	71					1.67942e-08	1.84707e-08	1	1	0		T	125673310	T	T	125673310	3	4	27	1	0	0	0	0	1	0	0	0	17577	1377	48	5	236	5	ZBTB6	9	125673310	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55767	125673310	15540121	4500	26851											
RABGAP1	23637	broad.mit.edu	37	chr9	125759568	125759568	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaagttcagatggaaagTcgtatgttattacggggagc	13	10	13	5	2	1	1	1	0	0	1	2	3	1	3	0	3	2	4	0	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:125759568T>C	uc011lzh.1	+	9	1266	c.1132T>C	c.(1132-1134)TCG>CCG	p.S378P	RABGAP1_uc004bnl.3_RNA	NM_012197	NP_036329	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	378					cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5						AGATGGAAAGTCGTATGTTAT	0.388													4	61					0	0	1	0	0		C	125759568	C	C	125759568	3	2	27	1	0	0	0	0	1	0	0	0	12989	1667	58	3	1162	3	RABGAP1	9	125759568	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	86258	125759568	15453863	4501	26852											
RABGAP1	23637	broad.mit.edu	37	chr9	125836696	125836696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttccatatcatcgacctgCttttatgtgaggtatgtatc	8	17	7	9	1	2	1	1	1	1	0	5	2	3	1	2	1	1	3	2	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:125836696C>T	uc011lzh.1	+	17	2376	c.2242C>T	c.(2242-2244)CTT>TTT	p.L748F	RABGAP1_uc004bnl.3_RNA|RABGAP1_uc011lzj.1_Missense_Mutation_p.L87F	NM_012197	NP_036329	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	748	Rab-GAP TBC.				cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5						CATCGACCTGCTTTTATGTGA	0.428													8	65					0	0	1	0	0		T	125836696	T	T	125836696	3	4	27	1	0	0	0	0	1	0	0	0	12989	797	28	2	2304	2	RABGAP1	9	125836696	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	77128	125836696	15376735	4502	26853											
DENND1A	57706	broad.mit.edu	37	chr9	126144873	126144873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggccactgtcaccccgCggctcctctcactcccgccc	5	7	7	22	3	3	0	3	0	1	0	6	0	5	0	6	2	0	1	6	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:126144873C>T	uc004bnz.1	-	22	2101	c.1868G>A	c.(1867-1869)CGC>CAC	p.R623H	DENND1A_uc011lzl.1_Missense_Mutation_p.R441H|DENND1A_uc004bny.1_Missense_Mutation_p.R405H|DENND1A_uc011lzm.1_Missense_Mutation_p.R634H|DENND1A_uc010mwh.1_Missense_Mutation_p.R44H	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	623						cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						TGTCACCCCGCGGCTCCTCTC	0.642													14	43					0	0	1	0	0		T	126144873	T	T	126144873	3	4	27	1	0	0	0	0	1	0	0	0	4432	768	27	1	1165	1	DENND1A	9	126144873	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	308177	126144873	15068558	4503	26854											
DENND1A	57706	broad.mit.edu	37	chr9	126214597	126214597	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccggatttgctttggtcttTacagtattcagaattgctcc	7	16	9	9	1	2	1	1	0	1	1	3	2	3	2	2	2	3	3	2	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:126214597T>C	uc004bnz.1	-	17	1490	c.1257A>G	c.(1255-1257)GTA>GTG	p.V419V	DENND1A_uc011lzl.1_Silent_p.V194V|DENND1A_uc004bny.1_Silent_p.V158V|DENND1A_uc011lzm.1_Silent_p.V387V|DENND1A_uc004boa.1_Silent_p.V419V|DENND1A_uc004bob.1_Silent_p.V389V|DENND1A_uc004boc.2_Silent_p.V387V	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	419						cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						CTTTGGTCTTTACAGTATTCA	0.413													7	61					0	0	1	0	0		C	126214597	C	C	126214597	2	2	27	1	0	0	0	0	0	0	0	1	4432	1741	61	3		3	DENND1A	9	126214597	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	69724	126214597	14998834	4504	26855											
NEK6	10783	broad.mit.edu	37	chr9	127110081	127110081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgactaccccccactccccGgggagcactactccgagaag	9	5	10	17	2	0	2	0	1	0	1	2	4	2	3	6	2	3	1	6	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:127110081G>A	uc004bog.2	+	9	960	c.811G>A	c.(811-813)GGG>AGG	p.G271R	NEK6_uc004bof.2_Missense_Mutation_p.G289R|NEK6_uc004boh.2_Missense_Mutation_p.G305R|NEK6_uc010mwj.2_Missense_Mutation_p.G224R|NEK6_uc010mwk.2_Missense_Mutation_p.G271R|NEK6_uc004boi.2_Missense_Mutation_p.G271R	NM_014397	NP_055212	Q9HC98	NEK6_HUMAN	NIMA-related kinase 6 isoform 2	271	Protein kinase.				apoptosis|cell division|chromosome segregation|mitosis|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of mitotic metaphase/anaphase transition	cytoplasm|nucleus	ATP binding|kinesin binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|kidney(1)	3						CCCACTCCCCGGGGAGCACTA	0.607													17	122					0	0	1	0	0		A	127110081	A	A	127110081	3	1	27	1	0	0	0	0	1	0	0	0	10347	1116	39	1	1026	1	NEK6	9	127110081	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	895484	127110081	14103350	4505	26856											
NR6A1	2649	broad.mit.edu	37	chr9	127298343	127298343	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcttgatccaggcaatcTgcctaaagagcagctcgtcg	9	11	10	11	2	2	2	0	1	2	1	5	2	3	2	2	1	3	4	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:127298343T>C	uc004bor.1	-	7	1071	c.893A>G	c.(892-894)CAG>CGG	p.Q298R	NR6A1_uc004boq.1_Missense_Mutation_p.Q293R|NR6A1_uc010mwq.1_Missense_Mutation_p.Q294R	NM_033334	NP_201591	Q15406	NR6A1_HUMAN	nuclear receptor subfamily 6, group A, member 1	298					cell proliferation|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	transcription factor complex	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						CCAGGCAATCTGCCTAAAGAG	0.542													21	93					0	0	1	0	0		C	127298343	C	C	127298343	3	2	27	1	0	0	0	0	1	0	0	0	10656	1580	55	3	565	3	NR6A1	9	127298343	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	188262	127298343	13915088	4506	26857											
RABEPK	10244	broad.mit.edu	37	chr9	127996243	127996243	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctatgacgattgtattgTgactgtagtggactaataaa	14	14	9	4	1	1	2	0	2	1	0	1	4	1	3	0	1	0	2	0	1	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:127996243T>G	uc004bpi.2	+	9	1276	c.1103T>G	c.(1102-1104)GTG>GGG	p.V368G	RABEPK_uc004bpj.2_Missense_Mutation_p.V317G|RABEPK_uc004bpk.2_Missense_Mutation_p.V368G|RABEPK_uc004bpl.1_3'UTR|RABEPK_uc004bpm.2_Missense_Mutation_p.V368G	NM_005833	NP_005824	Q7Z6M1	RABEK_HUMAN	Rab9 effector protein with kelch motifs	368					receptor-mediated endocytosis|vesicle docking involved in exocytosis	endosome membrane|plasma membrane				ovary(1)	1						GATTGTATTGTGACTGTAGTG	0.378													34	122					0	0	1	0	0		G	127996243	G	G	127996243	3	3	27	1	0	0	0	0	1	0	0	0	12988	1696	59	5	1129	5	RABEPK	9	127996243	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	697900	127996243	13217188	4507	26858											
GAPVD1	26130	broad.mit.edu	37	chr9	128099736	128099736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgtccggagacccatgagtGaccccagctggaaccggcgt	8	6	13	14	3	0	3	0	2	0	1	1	5	1	4	5	3	2	1	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:128099736G>A	uc010mwx.2	+	17	3069	c.2743G>A	c.(2743-2745)GAC>AAC	p.D915N	GAPVD1_uc011lzs.1_Missense_Mutation_p.D915N|GAPVD1_uc004bpp.2_Missense_Mutation_p.D942N|GAPVD1_uc004bpq.2_Missense_Mutation_p.D915N|GAPVD1_uc004bpr.2_Missense_Mutation_p.D894N|GAPVD1_uc004bps.2_Missense_Mutation_p.D915N|GAPVD1_uc010mwy.1_Missense_Mutation_p.D748N	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	915					endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						ACCCATGAGTGACCCCAGCTG	0.418													5	80					0	0	1	0	0		A	128099736	A	A	128099736	3	1	27	1	0	0	0	0	1	0	0	0	6254	1290	45	4	2882	4	GAPVD1	9	128099736	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	103493	128099736	13113695	4508	26859											
GAPVD1	26130	broad.mit.edu	37	chr9	128111746	128111746	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acatctcggctgatgatctcCcagactctgcaagccaagca	11	8	8	14	1	3	3	0	2	3	1	5	3	3	3	2	1	3	3	2	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:128111746C>A	uc010mwx.2	+	21	3627	c.3301C>A	c.(3301-3303)CCA>ACA	p.P1101T	GAPVD1_uc004bpp.2_Missense_Mutation_p.P1110T|GAPVD1_uc004bpq.2_Missense_Mutation_p.P1083T|GAPVD1_uc004bpr.2_Missense_Mutation_p.P1062T|GAPVD1_uc004bps.2_Missense_Mutation_p.P1056T|GAPVD1_uc004bpt.2_Missense_Mutation_p.P116T	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	1101					endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						TGATGATCTCCCAGACTCTGC	0.483													5	79					0.000602214	0.000630257	1	1	0		A	128111746	A	A	128111746	3	1	27	1	0	0	0	0	1	0	0	0	6254	623	22	5	3402	5	GAPVD1	9	128111746	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12010	128111746	13101685	4509	26860											
MAPKAP1	79109	broad.mit.edu	37	chr9	128347881	128347881	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtatactgccagcagatgagCccgatcaggtcctgcaccct	9	8	10	14	1	1	2	1	1	0	1	2	3	2	2	4	1	5	3	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:128347881C>T	uc004bpv.2	-	5	957	c.624G>A	c.(622-624)GGG>GGA	p.G208G	MAPKAP1_uc011lzt.1_Silent_p.G11G|MAPKAP1_uc010mwz.2_RNA|MAPKAP1_uc011lzu.1_Silent_p.G11G|MAPKAP1_uc011lzv.1_Silent_p.G11G|MAPKAP1_uc004bpw.2_Silent_p.G16G|MAPKAP1_uc004bpx.2_Silent_p.G16G|MAPKAP1_uc004bpy.2_Silent_p.G208G|MAPKAP1_uc004bpz.2_Silent_p.G208G|MAPKAP1_uc010mxa.2_RNA|MAPKAP1_uc010mxb.1_Silent_p.G11G|MAPKAP1_uc004bqa.2_Silent_p.G208G|MAPKAP1_uc010mxc.1_Silent_p.G80G	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	208					nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4						AGCAGATGAGCCCGATCAGGT	0.552													8	78					0	0	1	0	0		T	128347881	T	T	128347881	2	4	27	1	0	0	0	0	0	0	0	1	9306	726	26	2		2	MAPKAP1	9	128347881	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	236135	128347881	12865550	4510	26861											
LMX1B	4010	broad.mit.edu	37	chr9	129458638	129458638	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcctcagcgactgcttcCtcggctcctcagacgtgggc	5	8	11	17	3	2	1	2	0	0	1	5	2	4	1	4	2	3	2	4	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:129458638C>A	uc004bqj.2	+	8	1098	c.1048C>A	c.(1048-1050)CTC>ATC	p.L350I	LMX1B_uc004bqi.2_Missense_Mutation_p.L343I|LMX1B_uc011maa.1_Missense_Mutation_p.L354I	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	350					dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CGACTGCTTCCTCGGCTCCTC	0.627									Nail-Patella_Syndrome				30	118					3.90053e-15	4.3556e-15	1	1	0		A	129458638	A	A	129458638	3	1	27	1	0	0	0	0	1	0	0	0	8879	681	24	5	1180	5	LMX1B	9	129458638	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1110757	129458638	11754793	4511	26862											
RALGPS1	9649	broad.mit.edu	37	chr9	129740006	129740006	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaatggatatacctgtgttTaaagctatccagccggaggt	11	13	10	7	1	0	0	0	0	0	0	1	2	1	2	3	3	3	2	3	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:129740006T>C	uc004bqo.1	+	4	465	c.198T>C	c.(196-198)TTT>TTC	p.F66F	RALGPS1_uc011mab.1_Silent_p.F66F|RALGPS1_uc011mac.1_Silent_p.F66F|RALGPS1_uc004bqq.3_Silent_p.F66F	NM_014636	NP_055451	Q5JS13	RGPS1_HUMAN	Ral GEF with PH domain and SH3 binding motif 1	66	Ras-GEF.				small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity			ovary(1)	1						TACCTGTGTTTAAAGCTATCC	0.393													10	93					0	0	1	0	0		C	129740006	C	C	129740006	2	2	27	1	0	0	0	0	0	0	0	1	13042	1751	61	3		3	RALGPS1	9	129740006	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	281368	129740006	11473425	4512	26863											
GARNL3	84253	broad.mit.edu	37	chr9	130073930	130073930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacagaatgcaactgccctgCctggtacttggcgaagaaca	12	8	10	11	1	0	2	0	0	0	2	0	3	0	2	2	2	7	2	2	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:130073930C>T	uc011mae.1	+	3	636	c.235C>T	c.(235-237)CCT>TCT	p.P79S	GARNL3_uc011mad.1_Missense_Mutation_p.P57S	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	79					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						AACTGCCCTGCCTGGTACTTG	0.413													5	48					0	0	1	0	0		T	130073930	T	T	130073930	3	4	27	1	0	0	0	0	1	0	0	0	6256	739	26	2	245	2	GARNL3	9	130073930	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	333924	130073930	11139501	4513	26864											
GARNL3	84253	broad.mit.edu	37	chr9	130083001	130083001	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctatttcagtgccatgAatctggacaaatttgagaaa	14	13	7	7	0	3	2	1	2	2	1	3	4	3	3	1	1	1	0	1	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:130083001A>G	uc011mae.1	+	6	912	c.511A>G	c.(511-513)AAT>GAT	p.N171D	GARNL3_uc011mad.1_Missense_Mutation_p.N149D	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	171					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						CAGTGCCATGAATCTGGACAA	0.378													6	35					0	0	1	0	0		G	130083001	G	G	130083001	3	3	27	1	0	0	0	0	1	0	0	0	6256	246	9	3	533	3	GARNL3	9	130083001	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	9071	130083001	11130430	4514	26865											
RPL12	6136	broad.mit.edu	37	chr9	130210270	130210270	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggatctctttaatggttccTttaagtaaagaaatggtggc	12	14	10	5	0	1	1	0	0	1	1	3	2	2	2	1	4	0	2	1	4	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:130210270T>C	uc004bqy.1	-	6	468	c.380_splice	c.e6-1	p.G127_splice	RPL12_uc004bqx.1_Splice_Site|RPL12_uc004bqz.1_Splice_Site_p.G94_splice	NM_000976	NP_000967	P30050	RL12_HUMAN	ribosomal protein L12						endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	RNA binding|structural constituent of ribosome				0						TAATGGTTCCTTTAAGTAAAG	0.498													3	36					0	0	1	0	0		C	130210270	C	C	130210270	5	2	27	1	0	0	0	0	0	0	1	0	13583	1623	56	3	127	3	RPL12	9	130210270	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	127269	130210270	11003161	4515	26866											
LRSAM1	90678	broad.mit.edu	37	chr9	130219605	130219605	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccacacaggtgctgatcgTccacacgaatcacctcactt	10	9	6	16	2	2	1	2	1	0	0	5	2	4	1	3	1	1	1	3	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:130219605T>A	uc004brb.1	+	6	530	c.185T>A	c.(184-186)GTC>GAC	p.V62D	LRSAM1_uc010mxk.1_Missense_Mutation_p.V62D|LRSAM1_uc004brc.1_Missense_Mutation_p.V62D|LRSAM1_uc004brd.1_Missense_Mutation_p.V62D	NM_001005373	NP_001005373	Q6UWE0	LRSM1_HUMAN	leucine rich repeat and sterile alpha motif	62	LRR 2.				negative regulation of endocytosis|non-lytic virus budding|protein autoubiquitination|protein catabolic process|protein polyubiquitination|protein transport|ubiquitin-dependent endocytosis	cytoplasm|extracellular region|membrane part	hormone activity|ubiquitin-protein ligase activity|zinc ion binding				0						GTGCTGATCGTCCACACGAAT	0.642													5	32					0	0	1	0	0		A	130219605	A	A	130219605	3	1	27	1	0	0	0	0	1	0	0	0	9061	1667	58	5	199	5	LRSAM1	9	130219605	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9335	130219605	10993826	4516	26867											
PTRH1	138428	broad.mit.edu	37	chr9	130476504	130476504	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagcagcccagcacatgggCctgaaccgcctcagggtgcg	9	4	14	14	2	1	1	1	1	0	0	1	2	1	1	4	2	5	2	4	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:130476504C>A	uc004bro.2	-	5	538	c.520G>T	c.(520-522)GCC>TCC	p.A174S	PTRH1_uc004brm.2_Intron|PTRH1_uc010mxm.2_Missense_Mutation_p.R171S|PTRH1_uc011mah.1_Missense_Mutation_p.A187S|TTC16_uc004brq.1_5'Flank|TTC16_uc011mai.1_5'Flank|TTC16_uc004brr.1_5'Flank	NM_001002913	NP_001002913	Q86Y79	PTH_HUMAN	peptidyl-tRNA hydrolase 1 homolog	174					translation		aminoacyl-tRNA hydrolase activity|protein binding				0						AGCACATGGGCCTGAACCGCC	0.657													4	52					0.00909568	0.0093211	1	1	0		A	130476504	A	A	130476504	3	1	27	1	0	0	0	0	1	0	0	0	12841	739	26	5	128	5	PTRH1	9	130476504	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	256899	130476504	10736927	4517	26868											
CDK9	1025	broad.mit.edu	37	chr9	130550553	130550553	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgtgatggggtcctgaagCtggcagactttgggctggcc	5	10	16	10	1	0	3	0	2	0	1	2	3	1	3	2	5	1	3	2	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:130550553C>A	uc004bse.2	+	5	616	c.493C>A	c.(493-495)CTG>ATG	p.L165M		NM_001261	NP_001252	P50750	CDK9_HUMAN	cyclin-dependent kinase 9	165	Protein kinase.				cell proliferation|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	transcription elongation factor complex	ATP binding|cyclin-dependent protein kinase activity|DNA binding|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(1)	1						GGTCCTGAAGCTGGCAGACTT	0.592													3	24					6.4e-05	6.80234e-05	1	1	0		A	130550553	A	A	130550553	3	1	27	1	0	0	0	0	1	0	0	0	3154	796	28	5	511	5	CDK9	9	130550553	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	74049	130550553	10662878	4518	26869											
SLC27A4	10999	broad.mit.edu	37	chr9	131107478	131107478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcaaaggtgcgacagtGcctgcaggagcggcggacag	11	3	18	9	3	0	0	0	0	0	0	0	4	0	2	1	5	4	2	1	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131107478G>A	uc004but.2	+	3	490	c.206G>A	c.(205-207)TGC>TAC	p.C69Y	SLC27A4_uc004buu.2_Intron	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	69					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						GTGCGACAGTGCCTGCAGGAG	0.622													7	25					0	0	1	0	0		A	131107478	A	A	131107478	3	1	27	1	0	0	0	0	1	0	0	0	14553	1319	46	2	212	2	SLC27A4	9	131107478	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	556925	131107478	10105953	4519	26870											
ODF2	4957	broad.mit.edu	37	chr9	131262534	131262534	+	Nonstop_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgatctcctcctgcctgAggccacttatcagggcctgg	5	10	10	16	1	2	1	1	1	1	0	5	2	4	1	6	3	1	0	6	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131262534A>T	uc011mbd.1	+	21	2801	c.2490A>T	c.(2488-2490)TGA>TGT	p.*830C	ODF2_uc004bvb.2_Nonstop_Mutation_p.*806C|ODF2_uc011mbe.1_Nonstop_Mutation_p.*825C|ODF2_uc004bvc.2_Nonstop_Mutation_p.*806C|ODF2_uc004bvd.3_Nonstop_Mutation_p.*830C|ODF2_uc004bvh.2_Nonstop_Mutation_p.*236C	NM_002540	NP_002531	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2 isoform 1	830					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centriole|cilium|cytosol|microtubule|spindle pole	protein binding|structural molecule activity			ovary(1)	1						CTCCTGCCTGAGGCCACTTAT	0.547													21	78					0	0	1	0	0		T	131262534	T	T	131262534	4	4	27	1	0	0	0	0	0	0	0	0	10846	317	11	5	2686	5	ODF2	9	131262534	Nonstop_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	155056	131262534	9950897	4520	26871											
SPTAN1	6709	broad.mit.edu	37	chr9	131337514	131337514	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagagctgggccaggatCtggagcatgtagaggtttta	10	10	15	6	0	1	3	0	1	1	2	1	5	1	5	1	4	2	4	1	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131337514C>A	uc004bvl.3	+	5	654	c.541C>A	c.(541-543)CTG>ATG	p.L181M	SPTAN1_uc011mbg.1_Missense_Mutation_p.L181M|SPTAN1_uc011mbh.1_Missense_Mutation_p.L193M|SPTAN1_uc004bvm.3_Missense_Mutation_p.L181M|SPTAN1_uc004bvn.3_Missense_Mutation_p.L181M	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	181	Spectrin 3.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						GGGCCAGGATCTGGAGCATGT	0.418													10	102					0.00621372	0.00640274	1	1	0		A	131337514	A	A	131337514	3	1	27	1	0	0	0	0	1	0	0	0	15142	912	32	5	555	5	SPTAN1	9	131337514	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	74980	131337514	9875917	4521	26872											
SPTAN1	6709	broad.mit.edu	37	chr9	131387430	131387430	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattatggccgagacctgtCttctgtgcagacgctcctca	7	12	10	12	2	3	3	1	1	2	2	4	4	4	3	3	1	1	2	3	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131387430C>A	uc004bvl.3	+	46	6139	c.6026C>A	c.(6025-6027)TCT>TAT	p.S2009Y	SPTAN1_uc004bvm.3_Missense_Mutation_p.S2014Y|SPTAN1_uc004bvn.3_Missense_Mutation_p.S1989Y|SPTAN1_uc010mye.1_5'Flank|SPTAN1_uc010myf.1_5'Flank	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	2009	Spectrin 21.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						CGAGACCTGTCTTCTGTGCAG	0.478													8	55					5.18039e-06	5.59131e-06	1	1	0		A	131387430	A	A	131387430	3	1	27	1	0	0	0	0	1	0	0	0	15142	913	32	5	6223	5	SPTAN1	9	131387430	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	49916	131387430	9826001	4522	26873											
WDR34	89891	broad.mit.edu	37	chr9	131399212	131399212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcaccggccgtaggcacagGccaccacagagccagtggag	10	3	13	15	2	1	1	1	0	0	1	1	2	1	2	5	4	1	2	5	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131399212G>A	uc004bvq.1	-	3	654	c.530C>T	c.(529-531)GCC>GTC	p.A177V	WDR34_uc004bvs.1_Missense_Mutation_p.A168V|WDR34_uc004bvr.1_Missense_Mutation_p.A177V|WDR34_uc011mbi.1_Missense_Mutation_p.A60V	NM_052844	NP_443076	Q96EX3	WDR34_HUMAN	WD repeat domain 34	177						cytoplasm				central_nervous_system(2)|skin(1)	3						GTAGGCACAGGCCACCACAGA	0.657													4	29					0	0	1	0	0		A	131399212	A	A	131399212	3	1	27	1	0	0	0	0	1	0	0	0	17314	1203	42	2	1108	2	WDR34	9	131399212	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11782	131399212	9814219	4523	26874											
TBC1D13	54662	broad.mit.edu	37	chr9	131559484	131559484	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtggcccggaaccggagtggGgtcacaaatgtgagtgccaa	10	6	16	9	2	1	1	1	1	0	0	1	3	1	3	3	5	2	0	3	5	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131559484G>T	uc010myj.2	+	7	657	c.534G>T	c.(532-534)GGG>GGT	p.G178G	TBC1D13_uc010myk.2_Silent_p.G178G|TBC1D13_uc010myl.2_5'UTR	NM_018201	NP_060671	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	178	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0						ACCGGAGTGGGGTCACAAATG	0.537													8	48					0.00307968	0.00318367	1	1	0		T	131559484	T	T	131559484	2	4	27	1	0	0	0	0	0	0	0	1	15627	1219	43	5		5	TBC1D13	9	131559484	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	160272	131559484	9653947	4524	26875											
C9orf114	51490	broad.mit.edu	37	chr9	131591016	131591016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagaccccagctcaccgCggtcctccttctctgccgct	5	8	7	21	3	2	1	1	0	1	1	5	1	4	1	7	1	2	2	7	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131591016C>T	uc004bwd.2	-	3	232	c.206G>A	c.(205-207)CGC>CAC	p.R69H	C9orf114_uc004bwe.2_Missense_Mutation_p.R69H|C9orf114_uc010mym.2_RNA	NM_016390	NP_057474	Q5T280	CI114_HUMAN	hypothetical protein LOC51490	69											0						CAGCTCACCGCGGTCCTCCTT	0.527													14	121					0	0	1	0	0		T	131591016	T	T	131591016	3	4	27	1	0	0	0	0	1	0	0	0	2452	768	27	1	964	1	C9orf114	9	131591016	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31532	131591016	9622415	4525	26876											
LRRC8A	56262	broad.mit.edu	37	chr9	131670363	131670363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcctgacgggctaccgcaCctaccgctgtgcccaccccc	6	5	10	20	3	0	1	0	1	0	0	0	2	0	1	7	1	4	3	7	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131670363C>T	uc004bwl.3	+	3	1174	c.920C>T	c.(919-921)ACC>ATC	p.T307I	LRRC8A_uc010myp.2_Missense_Mutation_p.T307I|LRRC8A_uc010myq.2_Missense_Mutation_p.T307I	NM_019594	NP_062540	Q8IWT6	LRC8A_HUMAN	leucine rich repeat containing 8 family, member	307					pre-B cell differentiation	integral to membrane					0						GGCTACCGCACCTACCGCTGT	0.542													18	117					0	0	1	0	0		T	131670363	T	T	131670363	3	4	27	1	0	0	0	0	1	0	0	0	9039	507	18	4	922	4	LRRC8A	9	131670363	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	79347	131670363	9543068	4526	26877											
NUP188	23511	broad.mit.edu	37	chr9	131741566	131741566	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattgatacagcatgtgaagTattggccgacccttctcttc	10	13	8	10	1	1	2	0	2	1	0	3	3	1	2	2	1	2	2	2	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131741566T>C	uc004bws.1	+	13	1251	c.1229T>C	c.(1228-1230)GTA>GCA	p.V410A		NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	410					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						GCATGTGAAGTATTGGCCGAC	0.358													11	68					0	0	1	0	0		C	131741566	C	C	131741566	3	2	27	1	0	0	0	0	1	0	0	0	10777	1638	57	3	1279	3	NUP188	9	131741566	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	71203	131741566	9471865	4527	26878											
NUP188	23511	broad.mit.edu	37	chr9	131755596	131755596	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaaagtcatgattctagagTtcctcactgttgcagtagag	11	13	9	8	0	4	3	3	1	1	2	5	3	5	3	1	0	1	4	1	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131755596T>C	uc004bws.1	+	26	2783	c.2761T>C	c.(2761-2763)TTC>CTC	p.F921L	NUP188_uc004bwu.2_Missense_Mutation_p.F264L	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	921					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						GATTCTAGAGTTCCTCACTGT	0.502											OREG0019527	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	72					0	0	1	0	0		C	131755596	C	C	131755596	3	2	27	1	0	0	0	0	1	0	0	0	10777	1725	60	3	2863	3	NUP188	9	131755596	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	14030	131755596	9457835	4528	26879											
CRAT	1384	broad.mit.edu	37	chr9	131862874	131862874	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggcctgccacgtggctgcgGtacacgtcttctgagaccct	5	10	12	14	3	2	1	0	1	2	1	2	2	2	1	3	3	3	2	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131862874G>A	uc004bxh.2	-	7	1182	c.900C>T	c.(898-900)TAC>TAT	p.Y300Y	CRAT_uc004bxg.2_Silent_p.Y279Y|CRAT_uc004bxk.3_Silent_p.Y279Y	NM_000755	NP_000746	P43155	CACP_HUMAN	carnitine acetyltransferase precursor	300					energy derivation by oxidation of organic compounds|fatty acid beta-oxidation using acyl-CoA oxidase|transport	endoplasmic reticulum|mitochondrial inner membrane|peroxisomal matrix	carnitine O-acetyltransferase activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)	L-Carnitine(DB00583)	CGTGGCTGCGGTACACGTCTT	0.632													4	34					0	0	1	0	0		A	131862874	A	A	131862874	2	1	27	1	0	0	0	0	0	0	0	1	3850	1256	44	4		4	CRAT	9	131862874	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	107278	131862874	9350557	4529	26880											
PPP2R4	5524	broad.mit.edu	37	chr9	131890312	131890312	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtcctgcgatgaatgcataCcattaccccgcgccgggcac	8	8	10	15	4	0	1	0	1	0	0	1	2	1	1	5	1	4	2	5	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131890312C>G	uc004bxm.1	+	4	553	c.286C>G	c.(286-288)CCA>GCA	p.P96A	PPP2R4_uc004bxl.1_Intron|PPP2R4_uc011mbo.1_Missense_Mutation_p.P96A|PPP2R4_uc010myr.1_Intron|PPP2R4_uc004bxn.1_Intron|PPP2R4_uc004bxo.1_Intron|PPP2R4_uc011mbp.1_Intron|PPP2R4_uc011mbq.1_Intron|PPP2R4_uc010mys.1_Intron	NM_178001	NP_821068	Q15257	PTPA_HUMAN	protein phosphatase 2A, regulatory subunit B'	96					ATP catabolic process|negative regulation of phosphoprotein phosphatase activity|negative regulation of protein dephosphorylation|positive regulation of apoptosis|positive regulation of phosphoprotein phosphatase activity|positive regulation of protein dephosphorylation	calcium channel complex|cytoplasm|nucleus|protein phosphatase type 2A complex|soluble fraction	ATP binding|peptidyl-prolyl cis-trans isomerase activity|protein heterodimerization activity|protein homodimerization activity|protein phosphatase 2A binding|protein phosphatase type 2A regulator activity|protein tyrosine phosphatase activator activity|receptor binding			ovary(1)|lung(1)|pancreas(1)	3		Medulloblastoma(224;0.235)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)		TGAATGCATACCATTACCCCG	0.154													3	8					0	0	1	0	0		G	131890312	G	G	131890312	3	3	27	1	0	0	0	0	1	0	0	0	12413	507	18	5	300	5	PPP2R4	9	131890312	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	27438	131890312	9323119	4530	26881											
PPP2R4	5524	broad.mit.edu	37	chr9	131897123	131897123	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgctgtctctgcaagattggGgtgctccgggtggatgacca	6	11	15	9	1	1	2	0	1	1	1	3	3	2	3	2	4	3	3	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:131897123G>T	uc004bxm.1	+	7	882	c.615G>T	c.(613-615)GGG>GGT	p.G205G	PPP2R4_uc004bxl.1_Silent_p.G170G|PPP2R4_uc011mbo.1_Silent_p.G205G|PPP2R4_uc010myr.1_Intron|PPP2R4_uc004bxn.1_Silent_p.G170G|PPP2R4_uc004bxo.1_Silent_p.G128G|PPP2R4_uc011mbp.1_Silent_p.G141G|PPP2R4_uc011mbq.1_Silent_p.G128G|PPP2R4_uc010mys.1_Silent_p.G135G	NM_178001	NP_821068	Q15257	PTPA_HUMAN	protein phosphatase 2A, regulatory subunit B'	205					ATP catabolic process|negative regulation of phosphoprotein phosphatase activity|negative regulation of protein dephosphorylation|positive regulation of apoptosis|positive regulation of phosphoprotein phosphatase activity|positive regulation of protein dephosphorylation	calcium channel complex|cytoplasm|nucleus|protein phosphatase type 2A complex|soluble fraction	ATP binding|peptidyl-prolyl cis-trans isomerase activity|protein heterodimerization activity|protein homodimerization activity|protein phosphatase 2A binding|protein phosphatase type 2A regulator activity|protein tyrosine phosphatase activator activity|receptor binding			ovary(1)|lung(1)|pancreas(1)	3		Medulloblastoma(224;0.235)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)		GCAAGATTGGGGTGCTCCGGG	0.552													14	62					7.93312e-07	8.61692e-07	1	1	0		T	131897123	T	T	131897123	2	4	27	1	0	0	0	0	0	0	0	1	12413	1219	43	5		5	PPP2R4	9	131897123	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6811	131897123	9316308	4531	26882											
C9orf106	414318	broad.mit.edu	37	chr9	132084570	132084570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttccccagcacatcggcagGccctaaggggacattcgctt	8	9	10	14	2	0	0	0	0	0	0	3	1	1	1	3	4	1	3	3	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:132084570G>A	uc004bxs.2	+	2	531	c.478G>A	c.(478-480)GCC>ACC	p.A160T		NM_001012715	NP_001012733	Q8NAJ2	CI106_HUMAN	hypothetical protein LOC414318	160											0		Ovarian(14;0.00556)|Medulloblastoma(224;0.235)				ACATCGGCAGGCCCTAAGGGG	0.612													4	32					0	0	1	0	0		A	132084570	A	A	132084570	3	1	27	1	0	0	0	0	1	0	0	0	2450	1203	42	2	480	2	C9orf106	9	132084570	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	187447	132084570	9128861	4532	26883											
ASB6	140459	broad.mit.edu	37	chr9	132400113	132400113	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgtgctcgctaaggaggtAccacttcagcctgtcgggca	8	9	12	12	2	1	0	1	0	0	0	3	1	1	1	2	3	3	4	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:132400113A>G	uc004byf.1	-	6	1388	c.1222T>C	c.(1222-1224)TAC>CAC	p.Y408H	ASB6_uc004bye.1_Missense_Mutation_p.Y333H|ASB6_uc004byg.1_3'UTR|ASB6_uc011mbt.1_Missense_Mutation_p.Y329H|ASB6_uc010myx.1_Missense_Mutation_p.Y379H	NM_017873	NP_060343	Q9NWX5	ASB6_HUMAN	ankyrin repeat and SOCS box-containing 6 isoform	408	SOCS box.				intracellular signal transduction	cytoplasm					0		Ovarian(14;0.00556)				CTAAGGAGGTACCACTTCAGC	0.602													9	75					0	0	1	0	0		G	132400113	G	G	132400113	3	3	27	1	0	0	0	0	1	0	0	0	1028	391	14	3	47	3	ASB6	9	132400113	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	315543	132400113	8813318	4533	26884											
PRRX2	51450	broad.mit.edu	37	chr9	132482979	132482979	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacagccaggaggccgccatCgagcagcccgtggctccccg	7	4	13	17	4	0	0	0	0	0	0	2	2	1	1	6	3	4	2	6	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:132482979C>T	uc004byh.2	+	3	779	c.552C>T	c.(550-552)ATC>ATT	p.I184I		NM_016307	NP_057391	Q99811	PRRX2_HUMAN	paired related homeobox 2	184						nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1		Ovarian(14;0.00556)				AGGCCGCCATCGAGCAGCCCG	0.652													8	44					0	0	1	0	0		T	132482979	T	T	132482979	2	4	27	1	0	0	0	0	0	0	0	1	12635	874	31	1		1	PRRX2	9	132482979	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	82866	132482979	8730452	4534	26885											
TOR1B	27348	broad.mit.edu	37	chr9	132569491	132569491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttacagaagtggatccgcGgtaatgtgagtgcatgtgcg	10	10	15	6	3	0	2	0	1	0	1	1	3	1	3	1	2	3	3	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:132569491G>A	uc004byk.1	+	3	550	c.490G>A	c.(490-492)GGT>AGT	p.G164S		NM_014506	NP_055321	O14657	TOR1B_HUMAN	torsin family 1, member B (torsin B) precursor	164					chaperone mediated protein folding requiring cofactor|response to unfolded protein	endoplasmic reticulum lumen	ATP binding|nucleoside-triphosphatase activity|unfolded protein binding				0		Ovarian(14;0.0586)				GTGGATCCGCGGTAATGTGAG	0.493													6	128					0	0	1	0	0		A	132569491	A	A	132569491	3	1	27	1	0	0	0	0	1	0	0	0	16400	1116	39	1	500	1	TOR1B	9	132569491	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	86512	132569491	8643940	4535	26886											
FUBP3	8939	broad.mit.edu	37	chr9	133511486	133511486	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcgctttctacggacagacGttagggcaggcgcaggccca	8	7	14	12	4	1	1	0	0	1	1	2	2	1	2	1	4	1	4	1	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:133511486G>A	uc004bzr.1	+	18	1791	c.1683G>A	c.(1681-1683)ACG>ACA	p.T561T	FUBP3_uc004bzs.1_Silent_p.T450T	NM_003934	NP_003925	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	561					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		ACGGACAGACGTTAGGGCAGG	0.632													14	42					0	0	1	0	0		A	133511486	A	A	133511486	2	1	27	1	0	0	0	0	0	0	0	1	6107	1132	40	1		1	FUBP3	9	133511486	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	941995	133511486	7701945	4536	26887											
LAMC3	10319	broad.mit.edu	37	chr9	133901837	133901837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgagggccagtacctgcGccccggcgaggacgagcgcg	6	2	17	16	7	0	0	0	0	0	0	0	4	0	1	5	3	3	1	5	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:133901837G>A	uc004caa.1	+	2	637	c.539G>A	c.(538-540)CGC>CAC	p.R180H		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	180	Laminin N-terminal.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		CAGTACCTGCGCCCCGGCGAG	0.692													17	47					0	0	1	0	0		A	133901837	A	A	133901837	3	1	27	1	0	0	0	0	1	0	0	0	8632	1087	38	1	545	1	LAMC3	9	133901837	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	390351	133901837	7311594	4537	26888											
BAT2L1	84726	broad.mit.edu	37	chr9	134305536	134305536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atgacatttcatcgcaatgtCcgatcgtttggggcaaatta	11	13	9	8	3	1	1	1	1	0	0	4	2	2	1	1	2	0	3	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:134305536C>T	uc004can.3	+	1	60	c.5C>T	c.(4-6)TCC>TTC	p.S2F	BAT2L1_uc004cam.1_Missense_Mutation_p.S2F	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	2							protein binding				0						ATCGCAATGTCCGATCGTTTG	0.378													4	11					0	0	1	0	0		T	134305536	T	T	134305536	3	4	27	1	0	0	0	0	1	0	0	0	1321	855	30	4	7	4	BAT2L1	9	134305536	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	403699	134305536	6907895	4538	26889											
BAT2L1	84726	broad.mit.edu	37	chr9	134351905	134351905	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagccaacagaatgggacGcctttgaaagtgaaaaggta	16	6	13	6	1	0	4	0	2	0	2	0	6	0	5	2	2	2	1	2	2	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:134351905G>A	uc004can.3	+	15	4444	c.4389G>A	c.(4387-4389)ACG>ACA	p.T1463T	BAT2L1_uc010mzj.1_Silent_p.T1046T|BAT2L1_uc004cao.3_Silent_p.T821T	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1463							protein binding				0						AGAATGGGACGCCTTTGAAAG	0.552													10	29					0	0	1	0	0		A	134351905	A	A	134351905	2	1	27	1	0	0	0	0	0	0	0	1	1321	1074	38	1		1	BAT2L1	9	134351905	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46369	134351905	6861526	4539	26890											
RAPGEF1	2889	broad.mit.edu	37	chr9	134465325	134465325	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacgtgttcttgctgacgcGcttcttgaatgtgtcggcaa	7	13	12	9	4	2	2	0	2	2	0	3	3	2	2	0	1	2	4	0	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:134465325G>A	uc004cbc.2	-	16	2387	c.2257C>T	c.(2257-2259)CGC>TGC	p.R753C	RAPGEF1_uc004cbb.2_Missense_Mutation_p.R771C	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	753	N-terminal Ras-GEF.				activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		TTGCTGACGCGCTTCTTGAAT	0.562													12	66					0	0	1	0	0		A	134465325	A	A	134465325	3	1	27	1	0	0	0	0	1	0	0	0	13068	1087	38	1	1012	1	RAPGEF1	9	134465325	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	113420	134465325	6748106	4540	26891											
NTNG2	84628	broad.mit.edu	37	chr9	135116397	135116397	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccccaagtgcgacgactgCctccccacgcactactggcg	7	5	11	18	4	0	0	0	0	0	0	1	2	1	0	5	2	3	1	5	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:135116397C>T	uc004cbh.2	+	7	2099	c.1323C>T	c.(1321-1323)TGC>TGT	p.C441C		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	441	Laminin EGF-like 3.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		GCGACGACTGCCTCCCCACGC	0.617													3	11					0	0	1	0	0		T	135116397	T	T	135116397	2	4	27	1	0	0	0	0	0	0	0	1	10724	747	26	2		2	NTNG2	9	135116397	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	651072	135116397	6097034	4541	26892											
SETX	23064	broad.mit.edu	37	chr9	135204906	135204906	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttcagtaaaaatgtttttActactctgctttaagcatga	12	17	5	7	0	2	1	1	1	1	0	2	1	2	1	0	0	4	4	0	0	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:135204906A>G	uc004cbk.2	-	10	2262	c.2079T>C	c.(2077-2079)AGT>AGC	p.S693S	SETX_uc004cbj.2_Silent_p.S312S|SETX_uc010mzt.2_Silent_p.S312S	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	693					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		AAATGTTTTTACTACTCTGCT	0.338													4	94					0	0	1	0	0		G	135204906	G	G	135204906	2	3	27	1	0	0	0	0	0	0	0	1	14166	388	14	3		3	SETX	9	135204906	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	88509	135204906	6008525	4542	26893											
TTF1	7270	broad.mit.edu	37	chr9	135275582	135275582	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatctcctgaatctgcagaTaagtatcttatttcggaatc	11	14	7	9	1	3	2	0	1	3	1	6	3	3	3	1	1	1	3	1	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:135275582T>A	uc004cbl.2	-	3	1483	c.1431A>T	c.(1429-1431)TTA>TTT	p.L477F	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_5'UTR	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	477					negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		AATCTGCAGATAAGTATCTTA	0.428													14	110					0	0	1	0	0		A	135275582	A	A	135275582	3	1	27	1	0	0	0	0	1	0	0	0	16744	1403	49	5	1322	5	TTF1	9	135275582	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	70676	135275582	5937849	4543	26894											
BARHL1	56751	broad.mit.edu	37	chr9	135462883	135462883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggaccgcatggagctcGccgcctcgctcaacctcacc	7	6	10	18	4	2	0	2	0	0	0	4	2	2	2	5	2	3	4	5	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:135462883G>A	uc004cbp.1	+	2	826	c.634G>A	c.(634-636)GCC>ACC	p.A212T		NM_020064	NP_064448	Q9BZE3	BARH1_HUMAN	BarH-like homeobox 1	212	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;1.79e-06)|Epithelial(140;3.12e-05)		CATGGAGCTCGCCGCCTCGCT	0.657													3	17					0	0	1	0	0		A	135462883	A	A	135462883	3	1	27	1	0	0	0	0	1	0	0	0	1314	1087	38	1	640	1	BARHL1	9	135462883	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	187301	135462883	5750548	4544	26895											
GTF3C4	9329	broad.mit.edu	37	chr9	135554007	135554007	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatgagtggccttattgtggGgagtgcttttggacccataa	9	13	13	6	0	0	1	0	1	0	0	0	3	0	3	2	4	1	1	2	4	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:135554007G>T	uc010mzv.2	+	2	1259	c.1001G>T	c.(1000-1002)GGG>GTG	p.G334V	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	334					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		CTTATTGTGGGGAGTGCTTTT	0.408													9	116					5.4927e-09	6.05217e-09	1	1	0		T	135554007	T	T	135554007	3	4	27	1	0	0	0	0	1	0	0	0	6891	1232	43	5	1007	5	GTF3C4	9	135554007	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	91124	135554007	5659424	4545	26896											
TSC1	7248	broad.mit.edu	37	chr9	135772974	135772974	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttctagctctttccgataGgcggctttcatcatttctac	6	18	6	11	2	5	0	2	0	3	0	6	1	6	0	1	2	2	2	1	2	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:135772974G>T	uc004cca.2	-	21	2883	c.2649C>A	c.(2647-2649)GCC>GCA	p.A883A	TSC1_uc004ccb.3_Silent_p.A882A|TSC1_uc011mcq.1_Silent_p.A832A|TSC1_uc011mcr.1_Intron	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	883	Potential.				activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding	p.?(1)		lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		CTTTCCGATAGGCGGCTTTCA	0.363			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				16	203					1.52009e-12	1.6921e-12	1	1	0		T	135772974	T	T	135772974	2	4	27	1	0	0	0	0	0	0	0	1	16631	987	35	5		5	TSC1	9	135772974	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	218967	135772974	5440457	4546	26897											
TSC1	7248	broad.mit.edu	37	chr9	135786003	135786003	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggggagtgaaatgtgcacGtagtcatccgaatgacagag	12	8	15	6	2	1	3	1	2	0	1	2	5	2	4	1	2	1	2	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:135786003G>A	uc004cca.2	-	12	1452	c.1218C>T	c.(1216-1218)TAC>TAT	p.Y406Y	TSC1_uc004ccb.3_Silent_p.Y405Y|TSC1_uc011mcq.1_Silent_p.Y355Y|TSC1_uc011mcr.1_Intron|TSC1_uc011mcs.1_Silent_p.Y285Y|TSC1_uc004ccc.1_Silent_p.Y406Y	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	406					activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding	p.?(1)		lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		AAATGTGCACGTAGTCATCCG	0.567			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				12	161					0	0	1	0	0		A	135786003	A	A	135786003	2	1	27	1	0	0	0	0	0	0	0	1	16631	1140	40	1		1	TSC1	9	135786003	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13029	135786003	5427428	4547	26898											
GFI1B	8328	broad.mit.edu	37	chr9	135865239	135865239	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctacccctgccagttctgCggcaagcgtttccaccagaa	8	8	8	17	2	1	1	0	0	1	1	2	1	2	1	6	1	4	3	6	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:135865239C>T	uc004ccg.2	+	6	910	c.759C>T	c.(757-759)TGC>TGT	p.C253C	GFI1B_uc010mzy.2_Silent_p.C207C	NM_004188	NP_004179	Q5VTD9	GFI1B_HUMAN	growth factor independent 1B transcription	253	Mediates interaction with GATA1.|C2H2-type 4.|Interaction with ARIH2.				cell proliferation|chromatin modification|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;9.04e-07)|Epithelial(140;1.17e-05)		GCCAGTTCTGCGGCAAGCGTT	0.627													12	27					0	0	1	0	0		T	135865239	T	T	135865239	2	4	27	1	0	0	0	0	0	0	0	1	6355	776	27	1		1	GFI1B	9	135865239	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	79236	135865239	5348192	4548	26899											
GTF3C5	9328	broad.mit.edu	37	chr9	135932181	135932181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatcattcaccgcaatgacGgggcagagaattcctgcaca	13	7	10	11	2	2	3	2	1	0	2	3	4	3	3	2	2	1	3	2	2	2	2	rs144801827	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:135932181G>A	uc004cci.3	+	10	1616	c.1279G>A	c.(1279-1281)GGG>AGG	p.G427R	GTF3C5_uc004ccj.3_Missense_Mutation_p.G434R	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	427						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		CCGCAATGACGGGGCAGAGAA	0.587													5	57					0	0	1	0	0		A	135932181	A	A	135932181	3	1	27	1	0	0	0	0	1	0	0	0	6892	1116	39	1	1342	1	GTF3C5	9	135932181	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	66942	135932181	5281250	4549	26900											
CEL	1056	broad.mit.edu	37	chr9	135941940	135941940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actatggccttcgggatcagCacatggccattgcttgggtg	7	11	13	10	1	1	0	1	0	0	0	2	1	1	1	2	4	2	2	2	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:135941940C>T	uc010naa.1	+	5	587	c.571C>T	c.(571-573)CAC>TAC	p.H191Y		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	188					cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		TCGGGATCAGCACATGGCCAT	0.637													6	86					0	0	1	0	0		T	135941940	T	T	135941940	3	4	27	1	0	0	0	0	1	0	0	0	3212	710	25	2	589	2	CEL	9	135941940	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9759	135941940	5271491	4550	26901											
SURF6	6838	broad.mit.edu	37	chr9	136198743	136198743	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggtcctgcggcaggaTgcggcccttcttgcgggctc	3	9	14	15	3	1	0	0	0	1	0	4	1	3	1	3	5	3	2	3	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:136198743T>C	uc004cdb.3	-	5	1126	c.1048A>G	c.(1048-1050)ATC>GTC	p.I350V		NM_006753	NP_006744	O75683	SURF6_HUMAN	surfeit 6	350						granular component	DNA binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.16e-06)|Epithelial(140;8.34e-06)|all cancers(34;7.08e-05)		TGCGGCAGGATGCGGCCCTTC	0.701													3	16					0	0	1	0	0		C	136198743	C	C	136198743	3	2	27	1	0	0	0	0	1	0	0	0	15431	1464	51	3	41	3	SURF6	9	136198743	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	256803	136198743	5014688	4551	26902											
ADAMTSL2	9719	broad.mit.edu	37	chr9	136402566	136402566	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atagcctggaggggggcaccGacgccacggccttctggtgg	6	6	17	12	3	1	0	0	0	1	0	1	2	1	1	4	7	1	1	4	7	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:136402566G>A	uc011mdl.1	+	3	687	c.130G>A	c.(130-132)GAC>AAC	p.D44N	ADAMTSL2_uc004cei.2_Missense_Mutation_p.D44N	NM_001145320	NP_001138792	Q86TH1	ATL2_HUMAN	ADAMTS-like 2 precursor	44					negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;9.31e-08)|Epithelial(140;6.62e-07)|all cancers(34;7.74e-06)		GGGGGGCACCGACGCCACGGC	0.672													23	84					0	0	1	0	0		A	136402566	A	A	136402566	3	1	27	1	0	0	0	0	1	0	0	0	275	1058	37	1	136	1	ADAMTSL2	9	136402566	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	203823	136402566	4810865	4552	26903											
ADAMTSL2	9719	broad.mit.edu	37	chr9	136412226	136412226	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggacagccccaagaactTcaacatcgcaggcacggtgg	11	5	13	12	2	1	1	1	0	0	1	2	2	1	2	2	5	3	2	2	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:136412226T>C	uc011mdl.1	+	9	1387	c.830T>C	c.(829-831)TTC>TCC	p.F277S	ADAMTSL2_uc004cei.2_Missense_Mutation_p.F277S	NM_001145320	NP_001138792	Q86TH1	ATL2_HUMAN	ADAMTS-like 2 precursor	277					negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;9.31e-08)|Epithelial(140;6.62e-07)|all cancers(34;7.74e-06)		CCCAAGAACTTCAACATCGCA	0.577													27	184					0	0	1	0	0		C	136412226	C	C	136412226	3	2	27	1	0	0	0	0	1	0	0	0	275	1783	62	3	860	3	ADAMTSL2	9	136412226	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9660	136412226	4801205	4553	26904											
SARDH	1757	broad.mit.edu	37	chr9	136529132	136529132	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctcttcacaaagtccagcGagacctaggagcagaggtgg	11	6	13	11	2	2	2	1	0	1	2	3	4	3	3	2	3	2	2	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:136529132G>A	uc004cep.3	-	21	2770	c.2636C>T	c.(2635-2637)TCG>TTG	p.S879L	SARDH_uc004ceo.2_Missense_Mutation_p.S879L|SARDH_uc011mdn.1_Missense_Mutation_p.S879L|SARDH_uc011mdo.1_Missense_Mutation_p.S711L|SARDH_uc004cen.2_Missense_Mutation_p.S329L	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	879					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		AAAGTCCAGCGAGACCTAGGA	0.582													4	39					0	0	1	0	0		A	136529132	A	A	136529132	3	1	27	1	0	0	0	0	1	0	0	0	13866	1059	37	1	124	1	SARDH	9	136529132	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	116906	136529132	4684299	4554	26905											
SARDH	1757	broad.mit.edu	37	chr9	136555518	136555518	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacctggctgggccctggaTactgatcatacccaggtcct	7	10	10	14	0	2	1	2	1	0	0	3	2	3	2	4	4	2	1	4	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:136555518T>C	uc004cep.3	-	16	2187	c.2053A>G	c.(2053-2055)ATC>GTC	p.I685V	SARDH_uc004ceo.2_Missense_Mutation_p.I685V|SARDH_uc011mdn.1_Missense_Mutation_p.I685V|SARDH_uc011mdo.1_Missense_Mutation_p.I517V|SARDH_uc004cen.2_Missense_Mutation_p.I113V	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	685					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		GGGCCCTGGATACTGATCATA	0.642													5	63					0	0	1	0	0		C	136555518	C	C	136555518	3	2	27	1	0	0	0	0	1	0	0	0	13866	1406	49	3	727	3	SARDH	9	136555518	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	26386	136555518	4657913	4555	26906											
VAV2	7410	broad.mit.edu	37	chr9	136650998	136650998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgaattaggtagaagcCgtaggaccactgcagggggg	12	6	17	6	1	0	2	0	1	0	1	0	3	0	3	2	6	2	3	2	6	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:136650998C>T	uc004ces.2	-	17	1478	c.1432G>A	c.(1432-1434)GGC>AGC	p.G478S	VAV2_uc004cer.2_Missense_Mutation_p.G468S|VAV2_uc004cet.1_Missense_Mutation_p.G17S	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	478	PH.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		AGGTAGAAGCCGTAGGACCAC	0.517													4	27					0	0	1	0	0		T	136650998	T	T	136650998	3	4	27	1	0	0	0	0	1	0	0	0	17158	652	23	1	1260	1	VAV2	9	136650998	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	95480	136650998	4562433	4556	26907											
VAV2	7410	broad.mit.edu	37	chr9	136656961	136656961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcaaggtctccttgtcccGtttaacttcattgatgtaca	8	15	6	12	1	3	1	2	1	1	0	5	1	4	1	3	1	2	2	3	1	3	6	rs142018797		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:136656961G>A	uc004ces.2	-	13	1178	c.1132C>T	c.(1132-1134)CGG>TGG	p.R378W	VAV2_uc004cer.2_Missense_Mutation_p.R373W|VAV2_uc004cet.1_5'Flank	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	378					angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		TCCTTGTCCCGTTTAACTTCA	0.488													21	61					0	0	1	0	0		A	136656961	A	A	136656961	3	1	27	1	0	0	0	0	1	0	0	0	17158	1144	40	1	1576	1	VAV2	9	136656961	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5963	136656961	4556470	4557	26908											
VAV2	7410	broad.mit.edu	37	chr9	136662845	136662845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttacctcgactttctgcCtgaagtcctcccggctggcc	5	11	9	16	2	1	1	0	1	1	0	4	3	3	1	5	2	2	1	5	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:136662845C>T	uc004ces.2	-	10	969	c.923G>A	c.(922-924)AGG>AAG	p.R308K	VAV2_uc004cer.2_Missense_Mutation_p.R303K	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	308	DH.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		GACTTTCTGCCTGAAGTCCTC	0.612													4	21					0	0	1	0	0		T	136662845	T	T	136662845	3	4	27	1	0	0	0	0	1	0	0	0	17158	681	24	4	1797	4	VAV2	9	136662845	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5884	136662845	4550586	4558	26909											
BRD3	8019	broad.mit.edu	37	chr9	136901428	136901428	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggaggcagatgcctgcttGccgcctttcttcagctgtct	5	13	11	12	1	3	1	1	0	2	1	3	2	3	2	3	2	4	3	3	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:136901428G>A	uc004cew.2	-	10	1850	c.1662C>T	c.(1660-1662)GGC>GGT	p.G554G	BRD3_uc004cex.2_3'UTR	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	554	Lys-rich.					nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		ATGCCTGCTTGCCGCCTTTCT	0.607			T	NUT|C15orf55	lethal midline carcinoma of young people								6	67					0	0	1	0	0		A	136901428	A	A	136901428	2	1	27	1	0	0	0	0	0	0	0	1	1506	1306	46	2		2	BRD3	9	136901428	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	238583	136901428	4312003	4559	26910											
BRD3	8019	broad.mit.edu	37	chr9	136918499	136918499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgcagctggttggtcttgCggccgggcttgctggggttg	2	12	18	9	2	1	0	0	0	1	0	1	0	1	0	1	6	4	6	1	6	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:136918499C>T	uc004cew.2	-	2	289	c.101G>A	c.(100-102)CGC>CAC	p.R34H	BRD3_uc004cex.2_Missense_Mutation_p.R34H	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	34						nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		GTTGGTCTTGCGGCCGGGCTT	0.657			T	NUT|C15orf55	lethal midline carcinoma of young people								8	47					0	0	1	0	0		T	136918499	T	T	136918499	3	4	27	1	0	0	0	0	1	0	0	0	1506	768	27	1	2123	1	BRD3	9	136918499	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17071	136918499	4294932	4560	26911											
COL5A1	1289	broad.mit.edu	37	chr9	137591897	137591897	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctctcccgtcttcctctaCgaggaccacacggggaagcc	7	7	10	17	4	3	0	0	0	3	0	5	3	4	2	4	3	2	1	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:137591897C>T	uc004cfe.2	+	3	802	c.420C>T	c.(418-420)TAC>TAT	p.Y140Y		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	140	TSP N-terminal.|Laminin G-like.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		TCTTCCTCTACGAGGACCACA	0.607													6	91					0	0	1	0	0		T	137591897	T	T	137591897	2	4	27	1	0	0	0	0	0	0	0	1	3699	547	19	1		1	COL5A1	9	137591897	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	673398	137591897	3621534	4561	26912											
COL5A1	1289	broad.mit.edu	37	chr9	137658311	137658311	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtacacagggtgtcacgggTatggacggccagccggggcc	7	5	17	12	4	1	0	1	0	0	0	1	1	1	1	3	6	2	2	3	6	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:137658311T>C	uc004cfe.2	+	22	2482	c.2100T>C	c.(2098-2100)GGT>GGC	p.G700G		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	700	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GTGTCACGGGTATGGACGGCC	0.537													4	43					0	0	1	0	0		C	137658311	C	C	137658311	2	2	27	1	0	0	0	0	0	0	0	1	3699	1625	57	3		3	COL5A1	9	137658311	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	66414	137658311	3555120	4562	26913											
KIAA0649	9858	broad.mit.edu	37	chr9	138377887	138377887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccctgtccgcaagcccaCtcttctactccccgaacgtg	6	9	8	18	3	2	0	0	0	2	0	5	1	5	0	5	1	3	1	5	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:138377887C>T	uc004cfr.1	+	4	2080	c.1531C>T	c.(1531-1533)CTC>TTC	p.L511F		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	511						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		CGCAAGCCCACTCTTCTACTC	0.592													8	61					0	0	1	0	0		T	138377887	T	T	138377887	3	4	27	1	0	0	0	0	1	0	0	0	8203	565	20	4	1533	4	KIAA0649	9	138377887	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	719576	138377887	2835544	4563	26914											
LCN1	3933	broad.mit.edu	37	chr9	138413364	138413364	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagcccctgctcctggcCgtcagccttggcctcattgc	5	10	10	16	1	2	1	2	1	0	0	3	1	3	1	6	2	4	1	6	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:138413364C>T	uc004cfz.1	+	1	79	c.21C>T	c.(19-21)GCC>GCT	p.A7A	LCN1_uc004cga.1_Silent_p.A7A	NM_002297	NP_002288	P31025	LCN1_HUMAN	lipocalin 1 precursor	7					proteolysis|response to stimulus|sensory perception of taste	extracellular region	cysteine-type endopeptidase inhibitor activity|transporter activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.54e-08)|Epithelial(140;5.25e-08)|all cancers(34;9.27e-07)|READ - Rectum adenocarcinoma(205;0.155)		TGCTCCTGGCCGTCAGCCTTG	0.667													5	30					0	0	1	0	0		T	138413364	T	T	138413364	2	4	27	1	0	0	0	0	0	0	0	1	8696	639	23	1		1	LCN1	9	138413364	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	35477	138413364	2800067	4564	26915											
KCNT1	57582	broad.mit.edu	37	chr9	138594154	138594154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggcgtctgccgggaggCgcgcggcgggggctacacca	4	3	22	12	6	1	0	0	0	1	0	1	1	1	1	2	8	2	1	2	8	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:138594154C>T	uc011mdq.1	+	1	124	c.50C>T	c.(49-51)GCG>GTG	p.A17V	KCNT1_uc011mdr.1_5'UTR|KCNT1_uc010nbf.2_Missense_Mutation_p.A17V|SOHLH1_uc010nbe.2_5'Flank|SOHLH1_uc004cgl.2_5'Flank	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	17						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		tgccgggaggcgcgcggcggg	0.532													8	32					0	0	1	0	0		T	138594154	T	T	138594154	3	4	27	1	0	0	0	0	1	0	0	0	8107	768	27	1	52	1	KCNT1	9	138594154	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	180790	138594154	2619277	4565	26916											
CAMSAP1	157922	broad.mit.edu	37	chr9	138713275	138713275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacgcccgtgggagagagtgGctccacgaagtggactggtg	8	6	17	10	3	0	1	0	0	0	1	1	5	1	3	2	4	0	1	2	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:138713275G>A	uc004cgr.3	-	11	3232	c.3232C>T	c.(3232-3234)CCA>TCA	p.P1078S	CAMSAP1_uc004cgq.3_Missense_Mutation_p.P968S|CAMSAP1_uc010nbg.2_Missense_Mutation_p.P800S	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1078						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		GGAGAGAGTGGCTCCACGAAG	0.622													10	56					0	0	1	0	0		A	138713275	A	A	138713275	3	1	27	1	0	0	0	0	1	0	0	0	2614	1203	42	2	1604	2	CAMSAP1	9	138713275	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	119121	138713275	2500156	4566	26917											
CAMSAP1	157922	broad.mit.edu	37	chr9	138713714	138713714	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctttgcaaagtgctccggCctgaggggtggggcagcctc	5	9	15	12	1	0	1	0	1	0	0	3	1	2	1	4	5	3	3	4	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:138713714C>T	uc004cgr.3	-	11	2793	c.2793G>A	c.(2791-2793)AGG>AGA	p.R931R	CAMSAP1_uc004cgq.3_Silent_p.R821R|CAMSAP1_uc010nbg.2_Silent_p.R653R	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	931						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		AGTGCTCCGGCCTGAGGGGTG	0.602													42	131					0	0	1	0	0		T	138713714	T	T	138713714	2	4	27	1	0	0	0	0	0	0	0	1	2614	738	26	2		2	CAMSAP1	9	138713714	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	439	138713714	2499717	4567	26918											
PMPCA	23203	broad.mit.edu	37	chr9	139306576	139306576	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggacaggaaaagtttgaaAccaaagtaaccacattggat	18	8	9	6	0	0	1	0	1	0	0	0	4	0	4	2	3	2	2	2	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:139306576A>G	uc004chl.2	+	2	204	c.199A>G	c.(199-201)ACC>GCC	p.T67A	SDCCAG3_uc004chi.2_5'Flank|SDCCAG3_uc004chj.2_5'Flank|SDCCAG3_uc004chk.2_5'Flank|PMPCA_uc011mdy.1_Missense_Mutation_p.T67A|PMPCA_uc010nbk.2_RNA|PMPCA_uc010nbl.2_5'UTR|PMPCA_uc011mdz.1_5'UTR	NM_015160	NP_055975	Q10713	MPPA_HUMAN	peptidase (mitochondrial processing) alpha	67					proteolysis	mitochondrial inner membrane|mitochondrial matrix	metalloendopeptidase activity|zinc ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;9.3e-06)|Epithelial(140;1.15e-05)		AAAGTTTGAAACCAAAGTAAC	0.458													8	115					0	0	1	0	0		G	139306576	G	G	139306576	3	3	27	1	0	0	0	0	1	0	0	0	12159	43	2	3	205	3	PMPCA	9	139306576	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	592862	139306576	1906855	4568	26919											
INPP5E	56623	broad.mit.edu	37	chr9	139326422	139326422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagaacacctcatcgaagCgggtggtgacgtccgctgcg	9	6	13	13	5	1	2	1	1	0	1	3	3	2	2	3	2	3	1	3	2	2	0	rs112089228		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:139326422C>T	uc004cho.2	-	7	1788	c.1403G>A	c.(1402-1404)CGC>CAC	p.R468H	INPP5E_uc010nbm.2_Missense_Mutation_p.R467H	NM_019892	NP_063945	Q9NRR6	INP5E_HUMAN	inositol polyphosphate-5-phosphatase E	468						cilium axoneme|cytoskeleton|Golgi cisterna membrane	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity			skin(1)	1		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.36e-06)|Epithelial(140;1.4e-05)		CTCATCGAAGCGGGTGGTGAC	0.657													9	33					0	0	1	0	0		T	139326422	T	T	139326422	3	4	27	1	0	0	0	0	1	0	0	0	7773	768	27	1	547	1	INPP5E	9	139326422	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	19846	139326422	1887009	4569	26920											
NOTCH1	4851	broad.mit.edu	37	chr9	139390958	139390958	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggctgtggtggtggtggTggcggctgcaggctttgctg	1	12	21	7	2	0	0	0	0	0	0	0	0	0	0	0	8	3	5	0	8	0	1	rs11574911	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:139390958T>C	uc004chz.2	-	34	7233	c.7233A>G	c.(7231-7233)CCA>CCG	p.P2411P		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2411	Cytoplasmic (Potential).|Poly-Pro.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.P2412P(1)|p.P2411fs*12(1)|p.P2412del(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GTGGTGGTGGTGGCGGCTGCA	0.642			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			3	64					0	0	1	0	0		C	139390958	C	C	139390958	2	2	27	1	0	0	0	0	0	0	0	1	10566	1683	59	3		3	NOTCH1	9	139390958	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	64536	139390958	1822473	4570	26921											
NOTCH1	4851	broad.mit.edu	37	chr9	139395101	139395101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgctggcctccagcaggCgcttggcggcatcagagcgt	5	7	15	14	4	1	1	1	0	0	1	2	1	2	1	2	4	3	4	2	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:139395101C>T	uc004chz.2	-	31	5837	c.5837G>A	c.(5836-5838)CGC>CAC	p.R1946H		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1946	Cytoplasmic (Potential).|ANK 1.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CTCCAGCAGGCGCTTGGCGGC	0.657			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			6	159					0	0	1	0	0		T	139395101	T	T	139395101	3	4	27	1	0	0	0	0	1	0	0	0	10566	768	27	1	1846	1	NOTCH1	9	139395101	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4143	139395101	1818330	4571	26922											
NOTCH1	4851	broad.mit.edu	37	chr9	139404366	139404366	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgggcaggcagtcgcagaAggccgtgttgatgccgtctg	6	7	17	11	4	1	2	0	1	1	1	2	2	1	2	3	3	1	4	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:139404366A>G	uc004chz.2	-	18	2788	c.2788T>C	c.(2788-2790)TTC>CTC	p.F930L	NOTCH1_uc004cia.1_Missense_Mutation_p.F160L	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	930	Extracellular (Potential).|EGF-like 24.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CAGTCGCAGAAGGCCGTGTTG	0.647			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			4	102					0	0	1	0	0		G	139404366	G	G	139404366	3	3	27	1	0	0	0	0	1	0	0	0	10566	72	3	3	4947	3	NOTCH1	9	139404366	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	9265	139404366	1809065	4572	26923											
NOTCH1	4851	broad.mit.edu	37	chr9	139413179	139413179	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccagccgttgacacacacGcagttgtagccaccgtgggt	8	8	12	13	3	0	1	0	1	0	0	1	1	1	1	4	1	2	4	4	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:139413179G>A	uc004chz.2	-	6	963	c.963C>T	c.(961-963)TGC>TGT	p.C321C		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	321	Extracellular (Potential).|EGF-like 8; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		TGACACACACGCAGTTGTAGC	0.617			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			5	40					0	0	1	0	0		A	139413179	A	A	139413179	2	1	27	1	0	0	0	0	0	0	0	1	10566	1079	38	1		1	NOTCH1	9	139413179	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8813	139413179	1800252	4573	26924											
LCN10	414332	broad.mit.edu	37	chr9	139635324	139635324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtagttttgggttgcacGccccaggcggaggtagacca	7	10	14	10	2	0	1	0	0	0	1	0	2	0	2	3	4	1	5	3	4	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:139635324G>A	uc010nbq.2	-	3	459	c.400C>T	c.(400-402)CGT>TGT	p.R134C	LCN10_uc004civ.2_Missense_Mutation_p.R147C|LCN10_uc011med.1_Intron|LCN10_uc011mee.1_Intron|LCN10_uc011mef.1_Intron|LCN10_uc004ciw.2_RNA			Q6JVE6	LCN10_HUMAN	SubName: Full=LCN10 protein;	134					transport	extracellular region	binding			large_intestine(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.32e-06)|Epithelial(140;7.83e-05)		TGGGTTGCACGCCCCAGGCGG	0.468													3	31					0	0	1	0	0		A	139635324	A	A	139635324	3	1	27	1	0	0	0	0	1	0	0	0	8697	1087	38	1	175	1	LCN10	9	139635324	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	222145	139635324	1578107	4574	26925											
EDF1	8721	broad.mit.edu	37	chr9	139757745	139757745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggcgcagcctcaccgtggCcaggtccttctgcgtaagcc	5	7	12	17	4	2	0	1	0	1	0	3	0	3	0	6	3	3	2	6	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:139757745C>T	uc004cjt.1	-	3	314	c.286G>A	c.(286-288)GCC>ACC	p.A96T	EDF1_uc004cju.1_Missense_Mutation_p.A96T	NM_003792	NP_003783	O60869	EDF1_HUMAN	endothelial differentiation-related factor 1	96	Interaction with TBP and NR5A1.|HTH cro/C1-type.|Interaction with NR5A2, PPARG and NR1H3.|H-T-H motif (Potential).				endothelial cell differentiation|multicellular organismal development|positive regulation of DNA binding|positive regulation of transcription, DNA-dependent|regulation of lipid metabolic process|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleolus|nucleus	calmodulin binding|protein binding|protein binding|sequence-specific DNA binding|transcription coactivator activity				0	all_cancers(76;0.0841)|all_epithelial(76;0.217)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		CTCACCGTGGCCAGGTCCTTC	0.667													12	39					0	0	1	0	0		T	139757745	T	T	139757745	3	4	27	1	0	0	0	0	1	0	0	0	4920	739	26	2	207	2	EDF1	9	139757745	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	122421	139757745	1455686	4575	26926											
LCN12	286256	broad.mit.edu	37	chr9	139847450	139847450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttgagctaagtgatgatgGccgctttgaggtgtggaatg	8	14	15	4	1	0	4	0	4	0	0	0	5	0	5	1	3	1	2	1	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:139847450G>A	uc004ckb.2	+	2	233	c.221G>A	c.(220-222)GGC>GAC	p.G74D	LCN12_uc004ckc.2_Missense_Mutation_p.G74D	NM_178536	NP_848631	Q6JVE5	LCN12_HUMAN	lipocalcin 12 precursor	74					lipid metabolic process	extracellular region	binding|transporter activity				0	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.19)	OV - Ovarian serous cystadenocarcinoma(145;7.8e-06)|Epithelial(140;0.000106)		AGTGATGATGGCCGCTTTGAG	0.637													7	125					0	0	1	0	0		A	139847450	A	A	139847450	3	1	27	1	0	0	0	0	1	0	0	0	8698	1203	42	2	227	2	LCN12	9	139847450	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	89705	139847450	1365981	4576	26927											
FUT7	2529	broad.mit.edu	37	chr9	139925299	139925299	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtcacgccaggcaaagaAgcgttggtatcggctctcat	9	9	11	12	3	2	1	2	0	1	1	4	1	2	1	2	3	1	4	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:139925299A>G	uc004ckq.2	-	2	1741	c.892T>C	c.(892-894)TTC>CTC	p.F298L	ABCA2_uc011mel.1_5'Flank|ABCA2_uc011mem.1_5'Flank|ABCA2_uc004ckl.1_5'Flank|ABCA2_uc004ckm.1_5'Flank|C9orf139_uc004ckp.1_Intron	NM_004479	NP_004470	Q11130	FUT7_HUMAN	fucosyltransferase 7	298	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity				0	all_cancers(76;0.0893)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.96e-05)|Epithelial(140;0.000486)		CAGGCAAAGAAGCGTTGGTAT	0.612													3	36					0	0	1	0	0		G	139925299	G	G	139925299	3	3	27	1	0	0	0	0	1	0	0	0	6123	72	3	3	140	3	FUT7	9	139925299	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	77849	139925299	1288132	4577	26928											
GRIN1	2902	broad.mit.edu	37	chr9	140055611	140055611	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgacccagtcaagaaggTgatctgcaccgggcccaacg	10	4	13	14	4	2	2	1	1	1	1	2	3	2	2	3	3	2	1	3	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:140055611T>C	uc004clk.2	+	9	1631	c.1301T>C	c.(1300-1302)GTG>GCG	p.V434A	GRIN1_uc004cli.1_Missense_Mutation_p.V109A|GRIN1_uc004clj.1_Missense_Mutation_p.V431A|GRIN1_uc004cll.2_Missense_Mutation_p.V434A|GRIN1_uc004clm.2_Missense_Mutation_p.V434A|GRIN1_uc004cln.2_Missense_Mutation_p.V452A|GRIN1_uc004clo.2_Missense_Mutation_p.V452A	NM_007327	NP_015566	Q05586	NMDZ1_HUMAN	NMDA receptor 1 isoform NR1-3 precursor	434	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|regulation of excitatory postsynaptic membrane potential|response to ethanol|visual learning	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane|synaptic vesicle|synaptosome	calcium ion binding|calmodulin binding|extracellular-glutamate-gated ion channel activity|glutamate binding|glycine binding			skin(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;6.87e-05)|Epithelial(140;0.00095)	L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	GTCAAGAAGGTGATCTGCACC	0.473													3	25					0	0	1	0	0		C	140055611	C	C	140055611	3	2	27	1	0	0	0	0	1	0	0	0	6794	1696	59	3	1402	3	GRIN1	9	140055611	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	130312	140055611	1157820	4578	26929											
ANAPC2	29882	broad.mit.edu	37	chr9	140082263	140082263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccatcagcaagcccaggCgagtccatttctccagcagc	9	7	9	16	1	2	0	1	0	1	0	4	1	3	0	4	1	5	2	4	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:140082263C>T	uc004clr.1	-	2	483	c.410G>A	c.(409-411)CGC>CAC	p.R137H	ANAPC2_uc004clq.1_5'UTR|ANAPC2_uc011mer.1_Missense_Mutation_p.R137H|SSNA1_uc004cls.2_5'Flank	NM_013366	NP_037498	Q9UJX6	ANC2_HUMAN	anaphase-promoting complex subunit 2	137					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cyclin catabolic process|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of synapse maturation|positive regulation of synaptic plasticity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of cyclin-dependent protein kinase activity	anaphase-promoting complex|cytosol|nucleoplasm	ubiquitin protein ligase binding|ubiquitin-protein ligase activity			ovary(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.000858)		CAAGCCCAGGCGAGTCCATTT	0.582													13	92					0	0	1	0	0		T	140082263	T	T	140082263	3	4	27	1	0	0	0	0	1	0	0	0	603	768	27	1	2106	1	ANAPC2	9	140082263	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	26652	140082263	1131168	4579	26930											
SLC34A3	142680	broad.mit.edu	37	chr9	140127157	140127157	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttccagctgctgggcagTgagtgacgggacgggtgccc	5	7	17	12	2	0	2	0	2	0	0	1	3	1	3	3	3	3	3	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:140127157T>C	uc004cmf.1	+	4	490	c.304_splice	c.e4+2	p.S102_splice	SLC34A3_uc004cmc.1_Splice_Site|SLC34A3_uc004cmd.1_Splice_Site_p.S102_splice|SLC34A3_uc011met.1_Splice_Site_p.S102_splice	NM_080877	NP_543153	Q8N130	NPT2C_HUMAN	solute carrier family 34 (sodium phosphate),						cellular phosphate ion homeostasis	apical plasma membrane|integral to membrane	sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		TGCTGGGCAGTGAGTGACGGG	0.667													5	67					0	0	1	0	0		C	140127157	C	C	140127157	5	2	27	1	0	0	0	0	0	0	1	0	14594	1710	59	3	316	3	SLC34A3	9	140127157	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	44894	140127157	1086274	4580	26931											
NELF	26012	broad.mit.edu	37	chr9	140347525	140347525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatgacctttggtggcaCgaagccttcggtgtcgcagg	7	9	13	12	3	0	1	0	1	0	0	2	2	0	1	3	4	1	2	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:140347525C>T	uc004cna.2	-	9	1262	c.1030G>A	c.(1030-1032)GTG>ATG	p.V344M	C9orf167_uc011mew.1_Intron|NELF_uc011mex.1_Missense_Mutation_p.V141M|NELF_uc010nci.2_Missense_Mutation_p.V88M|NELF_uc011mey.1_RNA|NELF_uc011mez.1_Missense_Mutation_p.V321M|NELF_uc004cmz.2_Missense_Mutation_p.V342M|NELF_uc004cnc.2_Missense_Mutation_p.V319M|NELF_uc004cnb.2_Missense_Mutation_p.V314M	NM_001130969	NP_001124441	Q6X4W1	NELF_HUMAN	nasal embryonic LHRH factor isoform a	344						nucleus|plasma membrane					0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000222)|Epithelial(140;0.000888)		TTTGGTGGCACGAAGCCTTCG	0.672													5	53					0	0	1	0	0		T	140347525	T	T	140347525	3	4	27	1	0	0	0	0	1	0	0	0	10351	536	19	1	594	1	NELF	9	140347525	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	220368	140347525	865906	4581	26932											
ZMYND19	116225	broad.mit.edu	37	chr9	140476996	140476996	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtgtggctcccctgcccgtCatcgctctggctcaagctca	4	11	10	16	2	4	0	3	0	1	0	6	0	5	0	3	2	2	4	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:140476996C>T	uc004cno.1	-	6	905	c.683G>A	c.(682-684)TGA>TAA	p.*228*		NM_138462	NP_612471	Q96E35	ZMY19_HUMAN	zinc finger, MYND domain containing 19	228						Golgi apparatus|plasma membrane	zinc ion binding			skin(1)	1	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000275)|Epithelial(140;0.00047)		CCCTGCCCGTCATCGCTCTGG	0.617													5	50					0	0	1	0	0		T	140476996	T	T	140476996	2	4	27	1	0	0	0	0	0	0	0	1	17735	837	29	4		4	ZMYND19	9	140476996	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	129471	140476996	736435	4582	26933											
ZMYND19	116225	broad.mit.edu	37	chr9	140477035	140477035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctggaagggacgcttcCtctcccgacagtgcttcttg	6	11	11	13	2	2	0	0	0	2	0	4	3	3	2	2	2	2	3	2	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:140477035C>T	uc004cno.1	-	6	866	c.644G>A	c.(643-645)AGG>AAG	p.R215K		NM_138462	NP_612471	Q96E35	ZMY19_HUMAN	zinc finger, MYND domain containing 19	215						Golgi apparatus|plasma membrane	zinc ion binding			skin(1)	1	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000275)|Epithelial(140;0.00047)		GGGACGCTTCCTCTCCCGACA	0.647													5	61					0	0	1	0	0		T	140477035	T	T	140477035	3	4	27	1	0	0	0	0	1	0	0	0	17735	681	24	4	43	4	ZMYND19	9	140477035	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	39	140477035	736396	4583	26934											
ARRDC1	92714	broad.mit.edu	37	chr9	140507931	140507931	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggagcctgcccgctggagaGcacagcttccccttccagtt	6	8	12	15	1	0	1	0	0	0	1	2	3	2	2	5	2	4	4	5	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:140507931G>A	uc004cns.2	+	3	323	c.249G>A	c.(247-249)GAG>GAA	p.E83E	ARRDC1_uc004cnt.2_5'UTR|ARRDC1_uc004cnu.2_RNA|ARRDC1_uc004cnv.2_Silent_p.E46E|ARRDC1_uc004cnw.2_5'UTR|ARRDC1_uc004cnp.1_Silent_p.E83E|ARRDC1_uc004cnq.1_Silent_p.E83E|ARRDC1_uc011mfb.1_5'UTR|ARRDC1_uc004cnx.1_5'UTR|ARRDC1_uc004cny.2_5'Flank	NM_152285	NP_689498	Q8N5I2	ARRD1_HUMAN	arrestin domain containing 1	83											0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000273)|Epithelial(140;0.000464)		CCGCTGGAGAGCACAGCTTCC	0.667													4	15					0	0	1	0	0		A	140507931	A	A	140507931	2	1	27	1	0	0	0	0	0	0	0	1	983	962	34	2		2	ARRDC1	9	140507931	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	30896	140507931	705500	4584	26935											
ARRDC1	92714	broad.mit.edu	37	chr9	140509383	140509383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctactttgcagagggctccGgggggccagtgcccactacc	6	7	13	15	1	0	1	0	0	0	1	1	1	1	1	5	4	4	2	5	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:140509383G>A	uc004cns.2	+	7	1242	c.1168G>A	c.(1168-1170)GGG>AGG	p.G390R	ARRDC1_uc004cnt.2_Missense_Mutation_p.G265R|ARRDC1_uc004cnu.2_RNA|ARRDC1_uc004cnv.2_Missense_Mutation_p.G370R|ARRDC1_uc004cnw.2_Missense_Mutation_p.G265R|ARRDC1_uc004cnp.1_Missense_Mutation_p.G390R|ARRDC1_uc004cnq.1_Missense_Mutation_p.G372R|ARRDC1_uc011mfb.1_Missense_Mutation_p.G265R|ARRDC1_uc004cnx.1_Missense_Mutation_p.G265R|ARRDC1_uc004cny.2_Intron	NM_152285	NP_689498	Q8N5I2	ARRD1_HUMAN	arrestin domain containing 1	390	Pro-rich.										0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000273)|Epithelial(140;0.000464)		AGAGGGCTCCGGGGGGCCAGT	0.627													7	77					0	0	1	0	0		A	140509383	A	A	140509383	3	1	27	1	0	0	0	0	1	0	0	0	983	1116	39	1	1194	1	ARRDC1	9	140509383	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1452	140509383	704048	4585	26936											
EHMT1	79813	broad.mit.edu	37	chr9	140671153	140671153	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcgagtcaataacgccagCtattgtccccactgtgggga	9	10	10	12	2	2	0	1	0	1	0	4	2	3	1	3	2	2	1	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:140671153C>T	uc011mfc.1	+	12	1912	c.1875C>T	c.(1873-1875)AGC>AGT	p.S625S	EHMT1_uc004coa.2_Silent_p.S625S|EHMT1_uc004cob.1_Silent_p.S594S	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	625					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		ATAACGCCAGCTATTGTCCCC	0.542													7	86					0	0	1	0	0		T	140671153	T	T	140671153	2	4	27	1	0	0	0	0	0	0	0	1	4989	796	28	2		2	EHMT1	9	140671153	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	161770	140671153	542278	4586	26937											
CACNA1B	774	broad.mit.edu	37	chr9	140948380	140948380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctcttcatgttcatatttgCcgtcattgcggtgcagctct	5	16	9	11	2	5	0	3	0	2	0	5	0	5	0	1	1	4	4	1	1	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr9:140948380C>T	uc004cog.2	+	26	4035	c.3890C>T	c.(3889-3891)GCC>GTC	p.A1297V	CACNA1B_uc011mfd.1_Missense_Mutation_p.A827V|CACNA1B_uc004coi.2_Missense_Mutation_p.A511V	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	1297	Helical; Name=S5 of repeat III; (Potential).|III.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TTCATATTTGCCGTCATTGCG	0.498													19	190					0	0	1	0	0		T	140948380	T	T	140948380	3	4	27	1	0	0	0	0	1	0	0	0	2542	739	26	2	3992	2	CACNA1B	9	140948380	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	277227	140948380	265051	4587	26938											
TUBB8	347688	broad.mit.edu	37	chr10	94047	94047	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagttgtttccggccccAcactgacctgtaagacagca	9	8	9	15	1	0	2	0	1	0	1	1	2	1	2	5	1	1	4	5	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:94047A>G	uc001ifi.2	-	4	285	c.285T>C	c.(283-285)TGT>TGC	p.C95C	TUBB8_uc009xhe.2_Silent_p.C58C|TUBB8_uc010pzs.1_Silent_p.C23C	NM_177987	NP_817124	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 isoform 1	95					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		all_cancers(4;0.00131)|all_lung(4;0.000777)|Lung NSC(4;0.0043)|all_epithelial(10;0.0154)|Colorectal(49;0.235)		Epithelial(11;0.00341)|all cancers(11;0.00922)|OV - Ovarian serous cystadenocarcinoma(14;0.0508)|Lung(33;0.132)		TTCCGGCCCCACACTGACCTG	0.567													5	16					0	0	1	0	0		G	94047	G	G	94047	2	3	27	1	0	0	0	0	0	0	0	1	16787	157	6	3		3	TUBB8	10	94047	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08		94047	135440700	4588	26939											
ZMYND11	10771	broad.mit.edu	37	chr10	294540	294540	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtgttgtccgagaagctCtggagaaggtaatgcttgtc	9	11	14	7	2	1	2	0	0	1	2	3	4	2	2	1	2	3	4	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:294540C>A	uc010pzt.1	+	13	1920	c.1492C>A	c.(1492-1494)CTG>ATG	p.L498M	ZMYND11_uc001ifk.2_Missense_Mutation_p.L497M|ZMYND11_uc010pzu.1_Missense_Mutation_p.L498M|ZMYND11_uc010pzv.1_Missense_Mutation_p.L443M|ZMYND11_uc010pzw.1_Missense_Mutation_p.L413M|ZMYND11_uc001ifm.2_Missense_Mutation_p.L444M|ZMYND11_uc010pzx.1_Missense_Mutation_p.L498M|ZMYND11_uc001ifn.2_Missense_Mutation_p.L444M|ZMYND11_uc009xhg.2_Missense_Mutation_p.L481M|ZMYND11_uc009xhh.2_Missense_Mutation_p.L372M|ZMYND11_uc010pzy.1_Missense_Mutation_p.L350M	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	458	Interaction with human adenovirus E1A.				cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CCGAGAAGCTCTGGAGAAGGT	0.537													4	32					0.00024832	0.000261516	1	1	0		A	294540	A	A	294540	3	1	27	1	0	0	0	0	1	0	0	0	17731	912	32	5	1538	5	ZMYND11	10	294540	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	200493	294540	135240207	4589	26940											
DIP2C	22982	broad.mit.edu	37	chr10	445117	445117	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggcagccgtagaaagccgCcatgaaggcagccggatcat	12	4	13	12	3	1	2	1	1	0	1	1	3	1	3	4	3	3	3	4	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:445117C>A	uc001ifp.2	-	10	1282	c.1192G>T	c.(1192-1194)GCG>TCG	p.A398S	DIP2C_uc009xhj.1_Missense_Mutation_p.A94S	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	398						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		TAGAAAGCCGCCATGAAGGCA	0.627													4	63					0.000602214	0.000630257	1	1	0		A	445117	A	A	445117	3	1	27	1	0	0	0	0	1	0	0	0	4535	739	26	5	3590	5	DIP2C	10	445117	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	150577	445117	135089630	4590	26941											
DIP2C	22982	broad.mit.edu	37	chr10	468784	468784	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgtgggtctgagccatgAcgtccgccagcctgtgggca	6	9	14	12	2	1	2	0	2	1	0	2	2	2	2	4	2	2	1	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:468784A>G	uc001ifp.2	-	5	674	c.584T>C	c.(583-585)GTC>GCC	p.V195A	DIP2C_uc009xhk.1_Missense_Mutation_p.S197P	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	195						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CTGAGCCATGACGTCCGCCAG	0.607													11	84					0	0	1	0	0		G	468784	G	G	468784	3	3	27	1	0	0	0	0	1	0	0	0	4535	275	10	3	4218	3	DIP2C	10	468784	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	23667	468784	135065963	4591	26942											
ADARB2	105	broad.mit.edu	37	chr10	1779250	1779250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgcggtccttacctttcCgcttggacctccgcctcctc	3	11	7	20	4	0	0	0	0	0	0	5	1	4	1	8	2	1	1	8	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:1779250C>T	uc009xhq.2	-	1	469	c.95G>A	c.(94-96)CGG>CAG	p.R32Q		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	32					mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		CTTACCTTTCCGCTTGGACCT	0.677													24	61					0	0	1	0	0		T	1779250	T	T	1779250	3	4	27	1	0	0	0	0	1	0	0	0	283	652	23	1	2164	1	ADARB2	10	1779250	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1310466	1779250	133755497	4592	26943											
PFKP	5214	broad.mit.edu	37	chr10	3151612	3151612	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accccggacaccccagcttgCgtcgtgtcactgaacgggaa	9	6	11	15	4	1	1	1	1	0	0	2	3	1	3	4	2	3	1	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:3151612C>T	uc001igp.2	+	10	1065	c.1029C>T	c.(1027-1029)TGC>TGT	p.C343C	PFKP_uc001igq.2_Silent_p.C335C|PFKP_uc009xhr.2_Silent_p.C305C|PFKP_uc009xhs.1_Silent_p.C127C|PFKP_uc009xht.2_Silent_p.C81C	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	343					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		CCCCAGCTTGCGTCGTGTCAC	0.672													9	17					0	0	1	0	0		T	3151612	T	T	3151612	2	4	27	1	0	0	0	0	0	0	0	1	11785	776	27	1		1	PFKP	10	3151612	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1372362	3151612	132383135	4593	26944											
KLF6	1316	broad.mit.edu	37	chr10	3822350	3822350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggtgtgctttcggaagtGcctggttaactcatcacttc	6	13	10	12	2	2	0	2	0	0	0	4	1	2	1	2	3	3	2	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:3822350G>A	uc001iha.2	-	3	1015	c.748C>T	c.(748-750)CAC>TAC	p.H250Y	KLF6_uc010qaj.1_Intron|KLF6_uc010qak.1_RNA|KLF6_uc010qal.1_Missense_Mutation_p.H208Y	NM_001300	NP_001291	Q99612	KLF6_HUMAN	Kruppel-like factor 6 isoform A	250	C2H2-type 2.				B cell differentiation	nucleus	zinc ion binding			central_nervous_system(3)|lung(1)	4				Colorectal(1;0.238)		TTTCGGAAGTGCCTGGTTAAC	0.557													13	73					0	0	1	0	0		A	3822350	A	A	3822350	3	1	27	1	0	0	0	0	1	0	0	0	8366	1319	46	2	111	2	KLF6	10	3822350	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	670738	3822350	131712397	4594	26945											
TUBAL3	79861	broad.mit.edu	37	chr10	5435860	5435860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctatagagtaggcagcaggCcatgtacttcccaagccgag	11	8	11	11	1	1	1	0	0	1	1	2	2	2	1	3	2	3	4	3	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:5435860C>T	uc001ihy.2	-	4	1001	c.961G>A	c.(961-963)GCC>ACC	p.A321T	TUBAL3_uc001ihz.2_Missense_Mutation_p.A281T	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	321					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						AGGCAGCAGGCCATGTACTTC	0.532													5	66					0	0	1	0	0		T	5435860	T	T	5435860	3	4	27	1	0	0	0	0	1	0	0	0	16777	739	26	2	383	2	TUBAL3	10	5435860	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1613510	5435860	130098887	4595	26946											
CALML5	51806	broad.mit.edu	37	chr10	5541029	5541029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcctggtccacgtcggcctCgcggatcatggcgtccagct	4	9	13	15	5	1	0	1	0	0	0	6	1	4	1	4	4	1	1	4	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:5541029C>T	uc001iic.2	-	1	505	c.373G>A	c.(373-375)GAG>AAG	p.E125K		NM_017422	NP_059118	Q9NZT1	CALL5_HUMAN	calmodulin-like 5	125	EF-hand 4.				epidermis development|signal transduction		calcium ion binding|protein binding				0						ACGTCGGCCTCGCGGATCATG	0.716													5	9					0	0	1	0	0		T	5541029	T	T	5541029	3	4	27	1	0	0	0	0	1	0	0	0	2592	893	31	1	71	1	CALML5	10	5541029	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	105169	5541029	129993718	4596	26947											
C10orf18	54906	broad.mit.edu	37	chr10	5773004	5773004	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcgtcaaatctgagagtgCagcctaagaggaaggccagc	13	5	13	10	1	2	2	1	1	1	2	2	4	2	3	2	2	4	1	2	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:5773004C>T	uc001iij.2	+	11	1667	c.1042C>T	c.(1042-1044)CAG>TAG	p.Q348*	C10orf18_uc001iik.2_Intron	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	348										ovary(1)|central_nervous_system(1)	2						TCTGAGAGTGCAGCCTAAGAG	0.448													5	63					0	0	1	0	0		T	5773004	T	T	5773004	4	4	27	1	0	0	0	0	0	1	0	0	1599	711	25	2	1072	2	C10orf18	10	5773004	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	231975	5773004	129761743	4597	26948											
C10orf18	54906	broad.mit.edu	37	chr10	5798695	5798695	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagatatatcatcacatttGcatcaggtcggttggaaata	14	12	9	6	1	3	1	3	0	0	1	4	3	3	2	0	3	1	2	0	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:5798695G>A	uc001iij.2	+	16	7351	c.6726G>A	c.(6724-6726)TTG>TTA	p.L2242L	C10orf18_uc001iik.2_Silent_p.L1086L	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	2242										ovary(1)|central_nervous_system(1)	2						CATCACATTTGCATCAGGTCG	0.378													9	51					0	0	1	0	0		A	5798695	A	A	5798695	2	1	27	1	0	0	0	0	0	0	0	1	1599	1310	46	2		2	C10orf18	10	5798695	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	25691	5798695	129736052	4598	26949											
SFMBT2	57713	broad.mit.edu	37	chr10	7409612	7409612	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgaaacaggggctcaccGtccggcggcatcaacacctt	9	8	10	14	3	2	1	2	1	0	0	3	1	3	1	3	4	2	2	3	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:7409612G>A	uc009xio.1	-	4	526	c.435C>T	c.(433-435)GAC>GAT	p.D145D	SFMBT2_uc001ijn.1_Silent_p.D145D|SFMBT2_uc010qay.1_Silent_p.D145D|SFMBT2_uc001ijo.1_Silent_p.D145D	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	145					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GGGGCTCACCGTCCGGCGGCA	0.562													14	27					0	0	1	0	0		A	7409612	A	A	7409612	2	1	27	1	0	0	0	0	0	0	0	1	14183	1159	40	1		1	SFMBT2	10	7409612	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1610917	7409612	128125135	4599	26950											
ITIH5	80760	broad.mit.edu	37	chr10	7608186	7608186	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagctccccaccaccacActctggttgcaggggagcac	8	5	9	19	0	1	0	0	0	1	0	2	1	2	1	6	3	3	4	6	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:7608186A>G	uc001ijq.2	-	13	2413	c.2334T>C	c.(2332-2334)AGT>AGC	p.S778S	ITIH5_uc001ijp.2_Silent_p.S564S	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	778					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CCACCACCACACTCTGGTTGC	0.577													4	31					0	0	1	0	0		G	7608186	G	G	7608186	2	3	27	1	0	0	0	0	0	0	0	1	7923	156	6	3		3	ITIH5	10	7608186	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	198574	7608186	127926561	4600	26951											
ITIH5	80760	broad.mit.edu	37	chr10	7618579	7618579	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagctcacagccagggcctgGgcccgctgccgcagccgctc	5	5	13	18	3	1	0	1	0	0	0	2	0	1	0	5	2	4	4	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:7618579G>A	uc001ijq.2	-	10	1894	c.1815C>T	c.(1813-1815)GCC>GCT	p.A605A	ITIH5_uc001ijp.2_Silent_p.A391A|ITIH5_uc001ijr.1_Silent_p.A605A	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	605					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CCAGGGCCTGGGCCCGCTGCC	0.647													4	61					0	0	1	0	0		A	7618579	A	A	7618579	2	1	27	1	0	0	0	0	0	0	0	1	7923	1219	43	4		4	ITIH5	10	7618579	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10393	7618579	127916168	4601	26952											
ITIH5	80760	broad.mit.edu	37	chr10	7618800	7618800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatttcttactgttgctggCggtgacctccacgtgcaggt	6	13	12	10	2	1	1	0	1	1	0	2	2	2	1	2	3	3	3	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:7618800C>T	uc001ijq.2	-	10	1673	c.1594G>A	c.(1594-1596)GCC>ACC	p.A532T	ITIH5_uc001ijp.2_Missense_Mutation_p.A318T|ITIH5_uc001ijr.1_Missense_Mutation_p.A532T	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	532					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity	p.A532P(1)		ovary(2)|central_nervous_system(2)	4						CTGTTGCTGGCGGTGACCTCC	0.567													6	80					0	0	1	0	0		T	7618800	T	T	7618800	3	4	27	1	0	0	0	0	1	0	0	0	7923	768	27	1	1377	1	ITIH5	10	7618800	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	221	7618800	127915947	4602	26953											
ITIH5	80760	broad.mit.edu	37	chr10	7657973	7657973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttggttcccaccatagaaGcactgctgtcaagcacgaat	11	10	9	11	1	1	1	1	0	0	1	2	2	2	1	2	1	3	5	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:7657973G>A	uc001ijq.2	-	7	990	c.911C>T	c.(910-912)GCT>GTT	p.A304V	ITIH5_uc001ijp.2_Missense_Mutation_p.A90V|ITIH5_uc001ijr.1_Missense_Mutation_p.A304V	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	304	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CACCATAGAAGCACTGCTGTC	0.483													7	94					0	0	1	0	0		A	7657973	A	A	7657973	3	1	27	1	0	0	0	0	1	0	0	0	7923	971	34	2	2072	2	ITIH5	10	7657973	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39173	7657973	127876774	4603	26954											
ITIH5	80760	broad.mit.edu	37	chr10	7679259	7679259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagggatgcgatgcccGcgctctccaggatattcacg	7	8	11	15	4	2	0	1	0	1	0	4	3	3	2	4	2	2	1	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:7679259G>A	uc001ijq.2	-	5	663	c.584C>T	c.(583-585)GCG>GTG	p.A195V	ITIH5_uc001ijr.1_Missense_Mutation_p.A195V	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	195					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						TGCGATGCCCGCGCTCTCCAG	0.657													12	93					0	0	1	0	0		A	7679259	A	A	7679259	3	1	27	1	0	0	0	0	1	0	0	0	7923	1087	38	1	2421	1	ITIH5	10	7679259	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21286	7679259	127855488	4604	26955											
KIN	22944	broad.mit.edu	37	chr10	7820934	7820934	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtttctgggtccctgtctAtgtactgaatataccagcct	8	15	8	10	0	2	1	0	1	2	0	3	1	3	1	3	1	3	2	3	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:7820934A>G	uc001ijt.2	-	5	473	c.425T>C	c.(424-426)ATA>ACA	p.I142T	KIN_uc010qaz.1_RNA|KIN_uc009xip.2_Missense_Mutation_p.I142T|KIN_uc010qba.1_Missense_Mutation_p.I36T	NM_012311	NP_036443	O60870	KIN17_HUMAN	HsKin17 protein	142					DNA recombination|DNA repair|DNA replication|interspecies interaction between organisms|mRNA processing	cytoplasm|nuclear matrix	double-stranded DNA binding|RNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						GTCCCTGTCTATGTACTGAAT	0.403													16	132					0	0	1	0	0		G	7820934	G	G	7820934	3	3	27	1	0	0	0	0	1	0	0	0	8331	449	16	3	792	3	KIN	10	7820934	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	141675	7820934	127713813	4605	26956											
GATA3	2625	broad.mit.edu	37	chr10	8100631	8100631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggagtcgtcccactcccGtggcagcatgaccgccctgg	5	7	13	16	3	0	1	0	1	0	0	3	2	2	2	4	3	1	3	4	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:8100631G>A	uc001ika.2	+	3	1162	c.605G>A	c.(604-606)CGT>CAT	p.R202H	GATA3_uc001ijz.2_Missense_Mutation_p.R202H	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	202					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						TCCCACTCCCGTGGCAGCATG	0.682			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						5	78					0	0	1	0	0		A	8100631	A	A	8100631	3	1	27	1	0	0	0	0	1	0	0	0	6270	1145	40	1	611	1	GATA3	10	8100631	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	279697	8100631	127434116	4606	26957											
MCM10	55388	broad.mit.edu	37	chr10	13224949	13224949	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagggaaaaaccttcagcaTatggaaactgaatgatcttc	15	9	8	9	0	2	2	1	2	1	0	3	4	2	4	2	2	3	1	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:13224949T>G	uc001ima.2	+	8	1051	c.950T>G	c.(949-951)ATA>AGA	p.I317R	MCM10_uc001imb.2_Missense_Mutation_p.I316R|MCM10_uc001imc.2_Missense_Mutation_p.I316R	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	317					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						ACCTTCAGCATATGGAAACTG	0.388													5	72					0	0	1	0	0		G	13224949	G	G	13224949	3	3	27	1	0	0	0	0	1	0	0	0	9403	1406	49	5	976	5	MCM10	10	13224949	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5124318	13224949	122309798	4607	26958											
BEND7	222389	broad.mit.edu	37	chr10	13481460	13481460	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	actagggtcaccgctgcactCccacccggcagaacagtgca	10	5	10	16	2	1	1	1	0	0	1	2	1	2	1	3	2	3	4	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:13481460C>T	uc001imm.2	-	9	1416	c.1119G>A	c.(1117-1119)GGG>GGA	p.G373G	BEND7_uc001iml.2_RNA	NM_152751	NP_689964	Q8N7W2	BEND7_HUMAN	BEN domain containing 7 isoform 1	424							protein binding			ovary(1)|breast(1)	2						CCGCTGCACTCCCACCCGGCA	0.483													6	52					0	0	1	0	0		T	13481460	T	T	13481460	2	4	27	1	0	0	0	0	0	0	0	1	1404	842	30	4		4	BEND7	10	13481460	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	256511	13481460	122053287	4608	26959											
NMT2	9397	broad.mit.edu	37	chr10	15210574	15210574	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtcgtccagttccaggCtctgctggctggccgcagac	4	9	13	15	2	1	1	0	0	1	1	4	1	3	1	4	4	1	5	4	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:15210574C>A	uc001inz.1	-	1	122	c.38G>T	c.(37-39)AGC>ATC	p.S13I	NMT2_uc001ioa.1_5'UTR|NMT2_uc009xjo.1_Missense_Mutation_p.S13I	NM_004808	NP_004799	O60551	NMT2_HUMAN	N-myristoyltransferase 2	13					N-terminal protein myristoylation|protein lipoylation	Golgi apparatus|plasma membrane	glycylpeptide N-tetradecanoyltransferase activity			ovary(1)	1						CAGTTCCAGGCTCTGCTGGCT	0.736													5	84					0.000602214	0.000630257	1	1	0		A	15210574	A	A	15210574	3	1	27	1	0	0	0	0	1	0	0	0	10523	797	28	5	1506	5	NMT2	10	15210574	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1729114	15210574	120324173	4609	26960											
FAM171A1	221061	broad.mit.edu	37	chr10	15256309	15256309	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaggagctcctcccgggaGctaaattcctgggaggtgct	8	8	15	10	1	0	1	0	0	0	1	3	5	3	4	3	4	3	3	3	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:15256309G>A	uc001iob.2	-	8	1285	c.1278C>T	c.(1276-1278)AGC>AGT	p.S426S		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	426	Cytoplasmic (Potential).					integral to membrane		p.S426R(1)		ovary(2)|breast(1)|skin(1)	4						CCTCCCGGGAGCTAAATTCCT	0.537													13	75					0	0	1	0	0		A	15256309	A	A	15256309	2	1	27	1	0	0	0	0	0	0	0	1	5501	962	34	2		2	FAM171A1	10	15256309	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	45735	15256309	120278438	4610	26961											
FAM188A	80013	broad.mit.edu	37	chr10	15883459	15883459	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaactagactctgcaggActcccagaaatactagcagt	13	8	9	11	0	1	2	0	0	1	2	2	3	2	3	1	2	4	3	1	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:15883459A>G	uc001iod.1	-	4	596	c.375T>C	c.(373-375)AGT>AGC	p.S125S	FAM188A_uc001ioe.1_5'UTR|FAM188A_uc001iof.1_Silent_p.S125S	NM_024948	NP_079224	Q9H8M7	F188A_HUMAN	chromosome 10 open reading frame 97	125					apoptosis	nucleus	calcium ion binding			ovary(1)	1						ACTCTGCAGGACTCCCAGAAA	0.348													7	50					0	0	1	0	0		G	15883459	G	G	15883459	2	3	27	1	0	0	0	0	0	0	0	1	5525	272	10	3		3	FAM188A	10	15883459	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	627150	15883459	119651288	4611	26962											
PTER	9317	broad.mit.edu	37	chr10	16528542	16528542	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggacggagctccagggcAccatttcagattatccgaat	10	9	10	12	2	1	1	1	0	0	1	3	4	3	3	4	3	1	2	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:16528542A>T	uc001iog.1	+	4	831	c.624A>T	c.(622-624)GCA>GCT	p.A208A	PTER_uc001ioh.1_Silent_p.A208A|PTER_uc001ioi.1_Silent_p.A208A|PTER_uc009xjp.1_Silent_p.A208A	NM_030664	NP_109589	Q96BW5	PTER_HUMAN	phosphotriesterase related	208					catabolic process		hydrolase activity, acting on ester bonds|zinc ion binding			ovary(2)	2						GCTCCAGGGCACCATTTCAGA	0.483													8	76					0	0	1	0	0		T	16528542	T	T	16528542	2	4	27	1	0	0	0	0	0	0	0	1	12761	146	6	5		5	PTER	10	16528542	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	645083	16528542	119006205	4612	26963											
CUBN	8029	broad.mit.edu	37	chr10	16882941	16882941	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaatgttaagtcactgaTgaattgaaccgtaaggaagt	14	12	9	6	1	2	3	1	3	1	0	2	4	2	4	1	1	1	2	1	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:16882941T>C	uc001ioo.2	-	61	9821	c.9769A>G	c.(9769-9771)ATC>GTC	p.I3257V		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3257	CUB 24.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AAGTCACTGATGAATTGAACC	0.383													4	60					0	0	1	0	0		C	16882941	C	C	16882941	3	2	27	1	0	0	0	0	1	0	0	0	4054	1464	51	3	1130	3	CUBN	10	16882941	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	354399	16882941	118651806	4613	26964											
TRDMT1	1787	broad.mit.edu	37	chr10	17195517	17195517	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccacataccgaactctggaGgaaatccaaggagatttgct	13	8	9	11	1	1	1	0	0	1	1	2	5	2	3	3	3	3	1	3	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:17195517G>A	uc001iop.2	-	10	1112	c.1064C>T	c.(1063-1065)CCT>CTT	p.P355L	TRDMT1_uc001ioq.2_Missense_Mutation_p.P331L|TRDMT1_uc001ior.2_Missense_Mutation_p.P309L|TRDMT1_uc001ios.2_Missense_Mutation_p.P284L|TRDMT1_uc009xjt.2_Missense_Mutation_p.P274L|TRDMT1_uc010qcc.1_Missense_Mutation_p.P284L|TRDMT1_uc010qcd.1_Missense_Mutation_p.P232L	NM_004412	NP_004403	O14717	TRDMT_HUMAN	tRNA aspartic acid methyltransferase 1 isoform	355					tRNA processing	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|RNA binding			ovary(1)	1						GAACTCTGGAGGAAATCCAAG	0.373													5	40					0	0	1	0	0		A	17195517	A	A	17195517	3	1	27	1	0	0	0	0	1	0	0	0	16493	1000	35	4	119	4	TRDMT1	10	17195517	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	312576	17195517	118339230	4614	26965											
MRC1	4360	broad.mit.edu	37	chr10	17865224	17865224	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagattatgagtgttgcattTaaattatgcctgggagtgcc	10	14	11	6	0	0	2	0	1	0	1	0	3	0	3	2	1	3	2	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:17865224T>G	uc001ipk.2	+	2	316	c.213T>G	c.(211-213)TTT>TTG	p.F71L		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	71	Extracellular (Potential).|Ricin B-type lectin.				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						GTGTTGCATTTAAATTATGCC	0.463													22	178					0	0	1	0	0		G	17865224	G	G	17865224	3	3	27	1	0	0	0	0	1	0	0	0	9774	1751	61	5	219	5	MRC1	10	17865224	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	669707	17865224	117669523	4615	26966											
MRC1	4360	broad.mit.edu	37	chr10	17891615	17891615	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactcactgtcctagtcagTggtggccgtatgccggtcac	6	11	11	13	2	3	0	3	0	0	0	4	0	4	0	3	3	2	1	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:17891615T>A	uc001ipk.2	+	7	1199	c.1096T>A	c.(1096-1098)TGG>AGG	p.W366R		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	366	Extracellular (Potential).				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						TCCTAGTCAGTGGTGGCCGTA	0.398													9	122					0	0	1	0	0		A	17891615	A	A	17891615	3	1	27	1	0	0	0	0	1	0	0	0	9774	1696	59	5	1122	5	MRC1	10	17891615	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	26391	17891615	117643132	4616	26967											
CACNB2	783	broad.mit.edu	37	chr10	18789845	18789845	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacatgaggctgcagcatgaAcagagagccaagcaagggaa	17	3	13	8	0	0	3	0	2	0	1	0	5	0	4	1	2	6	4	1	2	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:18789845A>G	uc001ipr.2	+	5	621	c.561A>G	c.(559-561)GAA>GAG	p.E187E	CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Silent_p.E187E|CACNB2_uc001ipt.2_Silent_p.E187E|CACNB2_uc010qcl.1_RNA|CACNB2_uc001ipu.2_Silent_p.E159E|CACNB2_uc001ipv.2_Silent_p.E159E|CACNB2_uc009xka.1_Silent_p.E159E|CACNB2_uc001ipw.2_Silent_p.E132E|CACNB2_uc001ipx.2_Silent_p.E132E|CACNB2_uc009xkb.1_Silent_p.E133E|CACNB2_uc010qcm.1_Silent_p.E133E|CACNB2_uc001ipz.2_Silent_p.E133E|CACNB2_uc001ipy.2_Silent_p.E133E|CACNB2_uc010qcn.1_Silent_p.E139E|CACNB2_uc010qco.1_Silent_p.E139E|CACNB2_uc001iqa.2_Silent_p.E139E	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	187					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TGCAGCATGAACAGAGAGCCA	0.423													4	38					0	0	1	0	0		G	18789845	G	G	18789845	2	3	27	1	0	0	0	0	0	0	0	1	2556	40	2	3		3	CACNB2	10	18789845	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	898230	18789845	116744902	4617	26968											
CACNB2	783	broad.mit.edu	37	chr10	18825082	18825082	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctcaagctaaacacctcaAcgtccagatggtagcagctg	13	8	8	12	1	2	1	2	0	1	1	4	1	3	1	2	1	5	4	2	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:18825082A>G	uc001ipr.2	+	12	1319	c.1259A>G	c.(1258-1260)AAC>AGC	p.N420S	CACNB2_uc009xjz.1_Missense_Mutation_p.N170S|CACNB2_uc001ips.2_Missense_Mutation_p.N396S|CACNB2_uc001ipt.2_Missense_Mutation_p.N382S|CACNB2_uc001ipu.2_Missense_Mutation_p.N392S|CACNB2_uc001ipv.2_Missense_Mutation_p.N368S|CACNB2_uc009xka.1_Missense_Mutation_p.N354S|CACNB2_uc001ipw.2_Missense_Mutation_p.N327S|CACNB2_uc001ipx.2_Missense_Mutation_p.N365S|CACNB2_uc001ipz.2_Missense_Mutation_p.N342S|CACNB2_uc001ipy.2_Missense_Mutation_p.N366S|CACNB2_uc010qco.1_Missense_Mutation_p.N334S|CACNB2_uc001iqa.2_Missense_Mutation_p.N372S|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	420					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	AAACACCTCAACGTCCAGATG	0.358													6	34					0	0	1	0	0		G	18825082	G	G	18825082	3	3	27	1	0	0	0	0	1	0	0	0	2556	43	2	3	1615	3	CACNB2	10	18825082	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	35237	18825082	116709665	4618	26969											
CACNB2	783	broad.mit.edu	37	chr10	18827115	18827115	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctgcctctgcaggagctgTtcgatgtgatcttggatgag	6	13	14	8	1	3	2	0	2	3	0	4	5	3	4	1	2	3	3	1	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:18827115T>C	uc001ipr.2	+	13	1369	c.1309T>C	c.(1309-1311)TTC>CTC	p.F437L	CACNB2_uc009xjz.1_Missense_Mutation_p.F187L|CACNB2_uc001ips.2_Missense_Mutation_p.F413L|CACNB2_uc001ipt.2_Missense_Mutation_p.F399L|CACNB2_uc001ipu.2_Missense_Mutation_p.F409L|CACNB2_uc001ipv.2_Missense_Mutation_p.F385L|CACNB2_uc009xka.1_Missense_Mutation_p.F371L|CACNB2_uc001ipw.2_Missense_Mutation_p.F344L|CACNB2_uc001ipx.2_Missense_Mutation_p.F382L|CACNB2_uc001ipz.2_Missense_Mutation_p.F359L|CACNB2_uc001ipy.2_Missense_Mutation_p.F383L|CACNB2_uc010qco.1_Missense_Mutation_p.F351L|CACNB2_uc001iqa.2_Missense_Mutation_p.F389L|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	437					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GCAGGAGCTGTTCGATGTGAT	0.562													9	91					0	0	1	0	0		C	18827115	C	C	18827115	3	2	27	1	0	0	0	0	1	0	0	0	2556	1725	60	3	1669	3	CACNB2	10	18827115	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2033	18827115	116707632	4619	26970											
NSUN6	221078	broad.mit.edu	37	chr10	18834947	18834947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaacatgtcttctcttctgGcctctctaagagagtccatg	8	13	8	12	0	4	1	0	0	4	1	7	2	5	1	2	1	1	1	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:18834947G>A	uc010qcp.1	-	11	1743	c.1325C>T	c.(1324-1326)GCC>GTC	p.A442V	NSUN6_uc001iqb.2_5'Flank	NM_182543	NP_872349	Q8TEA1	NSUN6_HUMAN	NOL1/NOP2/Sun domain family, member 6	442							methyltransferase activity|RNA binding			ovary(2)	2						TTCTCTTCTGGCCTCTCTAAG	0.458													13	195					0	0	1	0	0		A	18834947	A	A	18834947	3	1	27	1	0	0	0	0	1	0	0	0	10701	1203	42	2	88	2	NSUN6	10	18834947	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7832	18834947	116699800	4620	26971											
NEBL	10529	broad.mit.edu	37	chr10	21134226	21134226	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtactttacatgtaaaaaTtctggagtcttgtctaaatc	13	16	6	6	0	3	0	0	0	3	0	4	1	3	1	0	1	2	2	0	1	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:21134226T>A	uc001iqi.2	-	12	1585	c.1188A>T	c.(1186-1188)GAA>GAT	p.E396D	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	396	Nebulin 11.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						CATGTAAAAATTCTGGAGTCT	0.318													4	88					0	0	1	0	0		A	21134226	A	A	21134226	3	1	27	1	0	0	0	0	1	0	0	0	10322	1490	52	5	1924	5	NEBL	10	21134226	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2299279	21134226	114400521	4621	26972											
NEBL	10529	broad.mit.edu	37	chr10	21309122	21309122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggtgaaggactgcttcGggtagtgtctgtggggaaat	7	11	17	6	2	1	1	0	1	1	0	2	3	1	3	1	5	1	2	1	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:21309122G>A	uc001iqk.2	-	3	527	c.173C>T	c.(172-174)CCG>CTG	p.P58L		NM_213569	NP_998734	O76041	NEBL_HUMAN	nebulette non-muscle isoform	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						GGACTGCTTCGGGTAGTGTCT	0.413													15	87					0	0	1	0	0		A	21309122	A	A	21309122	3	1	27	1	0	0	0	0	1	0	0	0	10322	1116	39	1	3348	1	NEBL	10	21309122	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	174896	21309122	114225625	4622	26973											
DNAJC1	64215	broad.mit.edu	37	chr10	22208825	22208825	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctgccagtctttttttTcttttctctcttttttctac	2	25	3	11	0	5	0	0	0	5	0	6	0	5	0	1	0	3	1	1	0	1	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:22208825T>C	uc001irc.2	-	5	858	c.571A>G	c.(571-573)AAA>GAA	p.K191E	DNAJC1_uc001ird.2_Missense_Mutation_p.K77E	NM_022365	NP_071760	Q96KC8	DNJC1_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 1	191	Cytoplasmic (By similarity).				negative regulation of proteolysis|regulation of protein secretion|regulation of transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	ATPase activator activity|DNA binding|heat shock protein binding|unfolded protein binding			lung(1)	1		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)				GTCTTTTTTTTCTTTTCTCTC	0.318													15	115					0	0	1	0	0		C	22208825	C	C	22208825	3	2	27	1	0	0	0	0	1	0	0	0	4634	1792	62	3	1125	3	DNAJC1	10	22208825	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	899703	22208825	113325922	4623	26974											
SPAG6	9576	broad.mit.edu	37	chr10	22657522	22657522	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattgtggagcactggatacGctggtcatatgcttggaaga	10	11	14	6	1	1	1	1	0	0	1	1	5	1	4	0	4	3	3	0	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:22657522G>C	uc001iri.2	+	4	529	c.387G>C	c.(385-387)ACG>ACC	p.T129T	SPAG6_uc001irj.2_Silent_p.T129T|SPAG6_uc010qct.1_Silent_p.T99T|SPAG6_uc009xkh.2_Silent_p.T107T	NM_012443	NP_036575	O75602	SPAG6_HUMAN	sperm associated antigen 6 isoform 1	129	ARM 3.				cell projection organization|spermatid development	axoneme|cilium|cytoplasm|flagellum|microtubule	binding			breast(1)	1						CACTGGATACGCTGGTCATAT	0.458													4	94					0	0	1	0	0		C	22657522	C	C	22657522	2	2	27	1	0	0	0	0	0	0	0	1	15007	1074	38	5		5	SPAG6	10	22657522	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	448697	22657522	112877225	4624	26975											
SPAG6	9576	broad.mit.edu	37	chr10	22676751	22676751	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttttttttttgcttcacaGcatcagatcctttcagctct	6	20	5	10	0	4	1	3	0	1	1	5	1	5	1	1	0	3	4	1	0	0	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:22676751G>A	uc001iri.2	+	6	821	c.679_splice	c.e6-1	p.H227_splice	SPAG6_uc001irj.2_Splice_Site_p.H227_splice|SPAG6_uc010qct.1_Splice_Site_p.H197_splice|SPAG6_uc009xkh.2_Splice_Site_p.H205_splice	NM_012443	NP_036575	O75602	SPAG6_HUMAN	sperm associated antigen 6 isoform 1						cell projection organization|spermatid development	axoneme|cilium|cytoplasm|flagellum|microtubule	binding			breast(1)	1						TTGCTTCACAGCATCAGATCC	0.353													4	54					0	0	1	0	0		A	22676751	A	A	22676751	5	1	27	1	0	0	0	0	0	0	1	0	15007	985	34	2	700	2	SPAG6	10	22676751	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19229	22676751	112857996	4625	26976											
KIAA1217	56243	broad.mit.edu	37	chr10	24813641	24813641	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgccatgcagagcttgtTcattgaagaaatccacagtg	11	11	10	9	0	2	3	1	1	1	2	3	3	3	3	2	0	3	3	2	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:24813641T>A	uc001iru.3	+	13	3249	c.2846T>A	c.(2845-2847)TTC>TAC	p.F949Y	KIAA1217_uc001irs.2_Missense_Mutation_p.F869Y|KIAA1217_uc001irt.3_Missense_Mutation_p.F914Y|KIAA1217_uc010qcy.1_Missense_Mutation_p.F914Y|KIAA1217_uc010qcz.1_Missense_Mutation_p.F914Y|KIAA1217_uc001irv.1_Missense_Mutation_p.F764Y|KIAA1217_uc010qda.1_Intron|KIAA1217_uc001irw.2_Missense_Mutation_p.F632Y|KIAA1217_uc001irz.2_Missense_Mutation_p.F632Y|KIAA1217_uc001irx.2_Missense_Mutation_p.F632Y|KIAA1217_uc001iry.2_Missense_Mutation_p.F632Y	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	949					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						CAGAGCTTGTTCATTGAAGAA	0.522													11	48					0	0	1	0	0		A	24813641	A	A	24813641	3	1	27	1	0	0	0	0	1	0	0	0	8232	1783	62	5	2896	5	KIAA1217	10	24813641	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2136890	24813641	110721106	4626	26977											
ARHGAP21	57584	broad.mit.edu	37	chr10	24908746	24908746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgttttcactcgactgagggGcaggcttggcagaggctcca	7	9	14	11	2	1	2	1	1	0	1	3	3	2	2	1	5	0	5	1	5	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:24908746G>A	uc001isb.2	-	9	2565	c.2078C>T	c.(2077-2079)GCC>GTC	p.A693V	ARHGAP21_uc010qdb.1_RNA|ARHGAP21_uc009xkl.1_Missense_Mutation_p.A693V|ARHGAP21_uc010qdc.1_Missense_Mutation_p.A528V|ARHGAP21_uc001isc.1_Missense_Mutation_p.A683V	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	692					signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						CGACTGAGGGGCAGGCTTGGC	0.483													5	49					0	0	1	0	0		A	24908746	A	A	24908746	3	1	27	1	0	0	0	0	1	0	0	0	871	1203	42	2	3870	2	ARHGAP21	10	24908746	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	95105	24908746	110626001	4627	26978											
ARHGAP21	57584	broad.mit.edu	37	chr10	24909193	24909193	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgaatttcttgctgcctaGgtctttcacaaatacctcgt	9	16	6	10	1	3	1	1	1	2	0	4	1	3	1	2	1	3	1	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:24909193G>T	uc001isb.2	-	9	2118	c.1631C>A	c.(1630-1632)CCT>CAT	p.P544H	ARHGAP21_uc010qdb.1_RNA|ARHGAP21_uc009xkl.1_Missense_Mutation_p.P544H|ARHGAP21_uc010qdc.1_Missense_Mutation_p.P379H|ARHGAP21_uc001isc.1_Missense_Mutation_p.P534H	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	543					signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						TTGCTGCCTAGGTCTTTCACA	0.413													10	109					1.76689e-08	1.94149e-08	1	1	0		T	24909193	T	T	24909193	3	4	27	1	0	0	0	0	1	0	0	0	871	1000	35	5	4317	5	ARHGAP21	10	24909193	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	447	24909193	110625554	4628	26979											
PRTFDC1	56952	broad.mit.edu	37	chr10	25226286	25226286	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcataatatccttggccaGccgctcaattctgaaagaag	12	12	7	10	1	3	2	2	1	1	1	4	2	4	2	3	1	1	1	3	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:25226286G>A	uc001ise.1	-	3	195	c.166C>T	c.(166-168)CTG>TTG	p.L56L	PRTFDC1_uc010qdd.1_Silent_p.L56L|PRTFDC1_uc001isf.1_RNA|PRTFDC1_uc009xkm.1_RNA	NM_020200	NP_064585	Q9NRG1	PRDC1_HUMAN	phosphoribosyl transferase domain containing 1	56					adenine salvage|central nervous system neuron development|cerebral cortex neuron differentiation|cytolysis|dendrite morphogenesis|GMP salvage|grooming behavior|hypoxanthine metabolic process|IMP salvage|lymphocyte proliferation|positive regulation of dopamine metabolic process|purine ribonucleoside salvage|response to amphetamine|striatum development	cytosol	hypoxanthine phosphoribosyltransferase activity|magnesium ion binding|nucleotide binding|protein homodimerization activity			ovary(1)	1						TCCTTGGCCAGCCGCTCAATT	0.368													5	52					0	0	1	0	0		A	25226286	A	A	25226286	2	1	27	1	0	0	0	0	0	0	0	1	12659	962	34	2		2	PRTFDC1	10	25226286	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	317093	25226286	110308461	4629	26980											
ANKRD26	22852	broad.mit.edu	37	chr10	27324093	27324093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttaggtccttttgtacccGttctaaacccaaagtctttt	8	16	6	11	1	2	0	0	0	2	0	3	0	3	0	3	1	2	3	3	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:27324093G>A	uc001ith.2	-	24	3455	c.3283C>T	c.(3283-3285)CGG>TGG	p.R1095W	ANKRD26_uc001itg.2_Missense_Mutation_p.R782W|ANKRD26_uc009xku.1_Missense_Mutation_p.R1096W	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1095	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TTTTGTACCCGTTCTAAACCC	0.353													32	134					0	0	1	0	0		A	27324093	A	A	27324093	3	1	27	1	0	0	0	0	1	0	0	0	654	1144	40	1	1890	1	ANKRD26	10	27324093	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2097807	27324093	108210654	4630	26981											
ACBD5	91452	broad.mit.edu	37	chr10	27512277	27512277	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagtccaacctgaggttatAtcagaactcctgccactctt	11	12	6	12	0	2	2	1	1	1	1	4	2	4	2	4	1	3	1	4	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:27512277A>T	uc010qdp.1	-	5	671	c.480T>A	c.(478-480)GAT>GAA	p.D160E	ACBD5_uc010qdm.1_Missense_Mutation_p.D158E|ACBD5_uc010qdn.1_Missense_Mutation_p.D51E|ACBD5_uc010qdo.1_Missense_Mutation_p.D51E|ACBD5_uc001ito.2_Missense_Mutation_p.D125E|ACBD5_uc001itp.2_Missense_Mutation_p.D51E|ACBD5_uc001itq.2_Missense_Mutation_p.D51E|ACBD5_uc001itr.1_5'UTR	NM_145698	NP_663736	Q5T8D3	ACBD5_HUMAN	acyl-Coenzyme A binding domain containing 5	158					transport	integral to membrane|peroxisomal membrane	fatty-acyl-CoA binding				0						CTGAGGTTATATCAGAACTCC	0.318													7	59					0	0	1	0	0		T	27512277	T	T	27512277	3	4	27	1	0	0	0	0	1	0	0	0	125	446	16	5	1133	5	ACBD5	10	27512277	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	188184	27512277	108022470	4631	26982											
PTCHD3	374308	broad.mit.edu	37	chr10	27688067	27688067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgattgtaatagacactGccgcttttgaatagacattg	11	14	10	6	1	0	4	0	2	0	2	0	4	0	4	1	1	1	2	1	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:27688067G>A	uc001itu.2	-	4	1578	c.1460C>T	c.(1459-1461)GCA>GTA	p.A487V		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	487	SSD.|Helical; (Potential).				spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						AATAGACACTGCCGCTTTTGA	0.423													12	84					0	0	1	0	0		A	27688067	A	A	27688067	3	1	27	1	0	0	0	0	1	0	0	0	12756	1319	46	2	847	2	PTCHD3	10	27688067	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	175790	27688067	107846680	4632	26983											
MPP7	143098	broad.mit.edu	37	chr10	28378687	28378687	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtacgtcagctgtgtcgtActgatcactcttcttgcatt	6	15	10	10	2	4	1	2	1	2	0	5	1	4	1	0	1	4	4	0	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:28378687A>G	uc001iua.1	-	14	1440	c.1036T>C	c.(1036-1038)TAC>CAC	p.Y346H	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Missense_Mutation_p.Y346H|MPP7_uc009xla.2_Missense_Mutation_p.Y346H|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	346					establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						GCTGTGTCGTACTGATCACTC	0.363													4	124					0	0	1	0	0		G	28378687	G	G	28378687	3	3	27	1	0	0	0	0	1	0	0	0	9757	391	14	3	718	3	MPP7	10	28378687	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	690620	28378687	107156060	4633	26984											
WAC	51322	broad.mit.edu	37	chr10	28878772	28878772	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgggaaaaaccaaaagagtgGcttgaaaggtaattagcttt	16	10	11	4	0	0	2	0	1	0	1	0	3	0	3	1	3	2	3	1	3	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:28878772G>A	uc001iuf.2	+	5	574	c.489G>A	c.(487-489)TGG>TGA	p.W163*	WAC_uc001iud.2_Nonsense_Mutation_p.W118*|WAC_uc001iue.2_Intron|WAC_uc009xlb.2_Nonsense_Mutation_p.W118*|WAC_uc001iug.2_Nonsense_Mutation_p.W163*|WAC_uc001iuh.2_Nonsense_Mutation_p.W118*	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	163					cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						CAAAAGAGTGGCTTGAAAGGT	0.333													25	103					0	0	1	0	0		A	28878772	A	A	28878772	4	1	27	1	0	0	0	0	0	1	0	0	17273	1212	42	2	507	2	WAC	10	28878772	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	500085	28878772	106655975	4634	26985											
WAC	51322	broad.mit.edu	37	chr10	28903500	28903500	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattttgacatttcaggttaGtactccagtagttaagcaag	12	14	9	6	0	1	1	1	1	0	0	2	2	2	1	1	1	2	5	1	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:28903500G>C	uc001iuf.2	+	11	1527	c.1442G>C	c.(1441-1443)AGT>ACT	p.S481T	WAC_uc001iud.2_Missense_Mutation_p.S436T|WAC_uc001iue.2_Missense_Mutation_p.S171T|WAC_uc001iug.2_Missense_Mutation_p.S378T|WAC_uc001iuh.2_Missense_Mutation_p.S433T	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	481					cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						TTTCAGGTTAGTACTCCAGTA	0.458													4	62					0	0	1	0	0		C	28903500	C	C	28903500	3	2	27	1	0	0	0	0	1	0	0	0	17273	1029	36	5	1484	5	WAC	10	28903500	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	24728	28903500	106631247	4635	26986											
WAC	51322	broad.mit.edu	37	chr10	28903522	28903522	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccagtagttaagcaaggAccagtgtcacagtcagccac	13	7	9	12	0	2	0	2	0	0	0	3	1	3	1	3	1	2	3	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:28903522A>G	uc001iuf.2	+	11	1549	c.1464A>G	c.(1462-1464)GGA>GGG	p.G488G	WAC_uc001iud.2_Silent_p.G443G|WAC_uc001iue.2_Silent_p.G178G|WAC_uc001iug.2_Silent_p.G385G|WAC_uc001iuh.2_Silent_p.G440G	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	488					cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						TTAAGCAAGGACCAGTGTCAC	0.478													3	57					0	0	1	0	0		G	28903522	G	G	28903522	2	3	27	1	0	0	0	0	0	0	0	1	17273	262	10	3		3	WAC	10	28903522	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	22	28903522	106631225	4636	26987											
BAMBI	25805	broad.mit.edu	37	chr10	28970330	28970330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggctgcctggactctcttGcaagcacgacagacatctgc	9	9	10	13	1	2	1	0	0	2	1	3	3	2	2	1	2	4	3	1	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:28970330G>A	uc001iuj.1	+	2	623	c.220G>A	c.(220-222)GCA>ACA	p.A74T	BAMBI_uc001iui.2_Missense_Mutation_p.A74T	NM_012342	NP_036474	Q13145	BAMBI_HUMAN	BMP and activin membrane-bound inhibitor	74	Extracellular (Potential).				cell migration|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of cell proliferation|positive regulation of epithelial to mesenchymal transition|positive regulation of protein binding|positive regulation of transcription, DNA-dependent|regulation of cell shape	cytoplasm|integral to membrane|plasma membrane	frizzled binding|type II transforming growth factor beta receptor binding			central_nervous_system(4)	4						GGACTCTCTTGCAAGCACGAC	0.498													10	81					0	0	1	0	0		A	28970330	A	A	28970330	3	1	27	1	0	0	0	0	1	0	0	0	1307	1319	46	2	226	2	BAMBI	10	28970330	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	66808	28970330	106564417	4637	26988											
SVIL	6840	broad.mit.edu	37	chr10	29759284	29759284	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatccgtgccacaggtagaTgagggccttgttgacgttaa	9	10	13	9	2	0	3	0	2	0	1	1	3	1	3	3	2	1	4	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:29759284T>C	uc001iut.1	-	32	6517	c.5764A>G	c.(5764-5766)ATC>GTC	p.I1922V	LOC387647_uc001iup.2_Intron|LOC387647_uc001iuq.1_Intron|SVIL_uc010qdw.1_Missense_Mutation_p.I836V|SVIL_uc001iuu.1_Missense_Mutation_p.I1496V	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1922	Gelsolin-like 4.				cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				CACAGGTAGATGAGGGCCTTG	0.572													12	108					0	0	1	0	0		C	29759284	C	C	29759284	3	2	27	1	0	0	0	0	1	0	0	0	15446	1464	51	3	908	3	SVIL	10	29759284	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	788954	29759284	105775463	4638	26989											
SVIL	6840	broad.mit.edu	37	chr10	29788121	29788121	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctctcgtcttccaggcCtcctctctcacagtgatgag	5	12	8	16	1	4	2	1	2	3	0	8	2	6	2	4	1	1	0	4	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:29788121C>A	uc001iut.1	-	18	4341	c.3588G>T	c.(3586-3588)GAG>GAT	p.E1196D	SVIL_uc010qdw.1_Missense_Mutation_p.E110D|SVIL_uc001iuu.1_Missense_Mutation_p.E770D|SVIL_uc009xlc.2_5'Flank	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1196					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TCTTCCAGGCCTCCTCTCTCA	0.522													7	56					3.09899e-07	3.3784e-07	1	1	0		A	29788121	A	A	29788121	3	1	27	1	0	0	0	0	1	0	0	0	15446	680	24	5	3140	5	SVIL	10	29788121	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	28837	29788121	105746626	4639	26990											
SVIL	6840	broad.mit.edu	37	chr10	29811383	29811383	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtgagtcaagaaggccCtcccctgtcggcgttttgat	6	11	13	11	2	1	3	1	2	0	1	3	3	2	3	3	3	0	1	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:29811383C>A	uc001iut.1	-	16	4098	c.3345G>T	c.(3343-3345)GAG>GAT	p.E1115D	SVIL_uc010qdw.1_Missense_Mutation_p.E13D|SVIL_uc001iuu.1_Missense_Mutation_p.E689D	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1115					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				CAAGAAGGCCCTCCCCTGTCG	0.507													5	82					3.59834e-05	3.83694e-05	1	1	0		A	29811383	A	A	29811383	3	1	27	1	0	0	0	0	1	0	0	0	15446	680	24	5	3391	5	SVIL	10	29811383	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23262	29811383	105723364	4640	26991											
SVIL	6840	broad.mit.edu	37	chr10	29821634	29821634	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcaaggcctggagctgaggGgggcctgtgaaatctgacag	9	8	16	8	0	2	3	1	3	1	0	2	4	2	4	2	5	1	1	2	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:29821634G>T	uc001iut.1	-	8	2415	c.1662C>A	c.(1660-1662)CCC>CCA	p.P554P	SVIL_uc001iuu.1_Intron|SVIL_uc009xld.1_Silent_p.P554P	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	554					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				GGAGCTGAGGGGGGCCTGTGA	0.582													24	102					6.44725e-10	7.13027e-10	1	1	0		T	29821634	T	T	29821634	2	4	27	1	0	0	0	0	0	0	0	1	15446	1219	43	5		5	SVIL	10	29821634	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10251	29821634	105713113	4641	26992											
KIAA1462	57608	broad.mit.edu	37	chr10	30316580	30316580	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaaaactttctaactgacTgatcaaatcccagggacgac	14	10	7	10	1	2	2	1	2	1	0	3	4	3	3	1	1	2	1	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:30316580T>C	uc001iux.2	-	2	2556	c.2497A>G	c.(2497-2499)AGT>GGT	p.S833G	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.S695G|KIAA1462_uc009xle.1_Missense_Mutation_p.S833G	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	833										ovary(4)	4						TCTAACTGACTGATCAAATCC	0.448													11	99					0	0	1	0	0		C	30316580	C	C	30316580	3	2	27	1	0	0	0	0	1	0	0	0	8250	1580	55	3	1590	3	KIAA1462	10	30316580	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	494946	30316580	105218167	4642	26993											
MAP3K8	1326	broad.mit.edu	37	chr10	30749657	30749657	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgtgcacaggaagcacCgaggaatctgagatgctcaa	12	8	11	10	2	3	1	1	1	2	1	4	5	3	3	1	2	3	3	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:30749657C>T	uc001ivi.1	+	9	1992	c.1296C>T	c.(1294-1296)ACC>ACT	p.T432T	MAP3K8_uc009xlf.1_Silent_p.T432T|MAP3K8_uc001ivj.1_Silent_p.T432T	NM_005204	NP_005195	P41279	M3K8_HUMAN	mitogen-activated protein kinase kinase kinase	432			Missing (in oncogenic form).		cell cycle|T cell costimulation	cytosol	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			breast(3)|central_nervous_system(1)	4		Prostate(175;0.151)				CAGGAAGCACCGAGGAATCTG	0.453													21	54					0	0	1	0	0		T	30749657	T	T	30749657	2	4	27	1	0	0	0	0	0	0	0	1	9274	639	23	1		1	MAP3K8	10	30749657	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	433077	30749657	104785090	4643	26994											
ZNF438	220929	broad.mit.edu	37	chr10	31134156	31134156	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggtccttcattttccaTgagcatttccacgccattct	6	15	7	13	1	2	1	1	1	1	0	5	1	5	1	4	2	1	1	4	2	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:31134156T>C	uc010qdz.1	-	8	2656	c.2221A>G	c.(2221-2223)ATG>GTG	p.M741V	ZNF438_uc001ivn.2_Missense_Mutation_p.M692V|ZNF438_uc010qdy.1_Missense_Mutation_p.M731V|ZNF438_uc001ivo.3_Missense_Mutation_p.M305V|ZNF438_uc009xlg.2_Missense_Mutation_p.M741V|ZNF438_uc001ivp.3_Missense_Mutation_p.M731V|ZNF438_uc010qea.1_Missense_Mutation_p.M741V|ZNF438_uc010qeb.1_Missense_Mutation_p.M741V	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	741					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				TCATTTTCCATGAGCATTTCC	0.537													9	125					0	0	1	0	0		C	31134156	C	C	31134156	3	2	27	1	0	0	0	0	1	0	0	0	17935	1464	51	3	269	3	ZNF438	10	31134156	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	384499	31134156	104400591	4644	26995											
ZEB1	6935	broad.mit.edu	37	chr10	31809776	31809776	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgctacaaacagttgtaaaAgtgaaaagttaccagaagat	18	9	8	6	1	0	3	0	1	0	2	1	3	0	3	1	0	3	4	1	0	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:31809776A>G	uc001ivs.3	+	7	1576	c.1513A>G	c.(1513-1515)AGT>GGT	p.S505G	ZEB1_uc001ivr.3_Missense_Mutation_p.S287G|ZEB1_uc010qee.1_Missense_Mutation_p.S287G|ZEB1_uc010qef.1_Missense_Mutation_p.S287G|ZEB1_uc009xlj.1_Missense_Mutation_p.S431G|ZEB1_uc010qeg.1_Missense_Mutation_p.S364G|ZEB1_uc009xlk.1_Missense_Mutation_p.S287G|ZEB1_uc001ivt.3_Missense_Mutation_p.S287G|ZEB1_uc001ivu.3_Missense_Mutation_p.S506G|ZEB1_uc001ivv.3_Missense_Mutation_p.S485G|ZEB1_uc010qeh.1_Missense_Mutation_p.S438G|ZEB1_uc009xlo.1_Missense_Mutation_p.S488G|ZEB1_uc009xlp.2_Missense_Mutation_p.S489G	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	505					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				CAGTTGTAAAAGTGAAAAGTT	0.378													6	91					0	0	1	0	0		G	31809776	G	G	31809776	3	3	27	1	0	0	0	0	1	0	0	0	17648	72	3	3	1553	3	ZEB1	10	31809776	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	675620	31809776	103724971	4645	26996											
EPC1	80314	broad.mit.edu	37	chr10	32560682	32560682	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccaatcagaacctgagtTgttgcagaattggcagcagt	11	11	10	9	0	1	3	1	1	0	2	2	3	2	3	2	1	3	5	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:32560682T>C	uc001iwg.1	-	14	2508	c.2238A>G	c.(2236-2238)ACA>ACG	p.T746T	EPC1_uc001iwi.3_Silent_p.T673T|EPC1_uc001iwh.1_Silent_p.T723T	NM_025209	NP_079485	Q9H2F5	EPC1_HUMAN	enhancer of polycomb 1	746					histone H2A acetylation|histone H4 acetylation|negative regulation of gene expression, epigenetic|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear membrane|Piccolo NuA4 histone acetyltransferase complex				ovary(3)|central_nervous_system(1)	4		Prostate(175;0.0199)				GAACCTGAGTTGTTGCAGAAT	0.428													11	134					0	0	1	0	0		C	32560682	C	C	32560682	2	2	27	1	0	0	0	0	0	0	0	1	5168	1799	63	3		3	EPC1	10	32560682	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	750906	32560682	102974065	4646	26997											
ITGB1	3688	broad.mit.edu	37	chr10	33208821	33208821	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccagcttacctgcacgcGccacactcaaatgtcccatt	10	8	5	18	2	1	0	1	0	0	0	2	0	2	0	4	0	3	2	4	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:33208821G>A	uc001iws.3	-	11	1597	c.1461C>T	c.(1459-1461)GGC>GGT	p.G487G	ITGB1_uc001iwp.3_Silent_p.G487G|ITGB1_uc001iwq.3_Silent_p.G487G|ITGB1_uc001iwr.3_Silent_p.G487G|ITGB1_uc001iwt.3_Silent_p.G487G|ITGB1_uc001iwu.1_Silent_p.G487G	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	487	Extracellular (Potential).|I.|Cysteine-rich tandem repeats.				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				ACCTGCACGCGCCACACTCAA	0.453													4	83					0	0	1	0	0		A	33208821	A	A	33208821	2	1	27	1	0	0	0	0	0	0	0	1	7906	1074	38	1		1	ITGB1	10	33208821	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	648139	33208821	102325926	4647	26998											
NRP1	8829	broad.mit.edu	37	chr10	33491884	33491884	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgtcatcacattcatccAccaagttcccgttgggagtg	8	11	10	12	2	3	0	3	0	0	0	6	1	5	1	3	2	0	2	3	2	1	3	rs143549013		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:33491884A>G	uc001iwx.3	-	11	2322	c.1799T>C	c.(1798-1800)GTG>GCG	p.V600A	NRP1_uc001iwv.3_Missense_Mutation_p.V600A|NRP1_uc009xlz.2_Missense_Mutation_p.V600A|NRP1_uc001iww.3_Missense_Mutation_p.V419A|NRP1_uc001iwy.3_Missense_Mutation_p.V600A|NRP1_uc001iwz.2_Missense_Mutation_p.V600A|NRP1_uc001ixa.2_Intron|NRP1_uc001ixb.1_Missense_Mutation_p.V600A	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	600	Extracellular (Potential).				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	ACATTCATCCACCAAGTTCCC	0.502													8	109					0	0	1	0	0		G	33491884	G	G	33491884	3	3	27	1	0	0	0	0	1	0	0	0	10679	159	6	3	1011	3	NRP1	10	33491884	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	283063	33491884	102042863	4648	26999											
PARD3	56288	broad.mit.edu	37	chr10	34671688	34671688	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagccctgcactgttcacActcctgttgtcaatatactg	9	13	7	12	0	2	1	2	1	0	0	3	1	3	1	2	0	3	3	2	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:34671688A>G	uc010qej.1	-	9	1179	c.1179T>C	c.(1177-1179)AGT>AGC	p.S393S	PARD3_uc010qek.1_Silent_p.S393S|PARD3_uc010qel.1_Silent_p.S393S|PARD3_uc010qem.1_Silent_p.S393S|PARD3_uc010qen.1_Silent_p.S393S|PARD3_uc010qeo.1_Silent_p.S393S|PARD3_uc010qep.1_Silent_p.S349S|PARD3_uc010qeq.1_Silent_p.S349S|PARD3_uc001ixo.1_Silent_p.S123S|PARD3_uc001ixp.1_Silent_p.S258S|PARD3_uc001ixq.1_Silent_p.S393S|PARD3_uc001ixr.1_Silent_p.S393S|PARD3_uc001ixt.1_Silent_p.S214S|PARD3_uc001ixu.1_Silent_p.S349S|PARD3_uc001ixs.1_Silent_p.S46S	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	393					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				CACTGTTCACACTCCTGTTGT	0.488													4	84					0	0	1	0	0		G	34671688	G	G	34671688	2	3	27	1	0	0	0	0	0	0	0	1	11462	156	6	3		3	PARD3	10	34671688	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1179804	34671688	100863059	4649	27000											
CUL2	8453	broad.mit.edu	37	chr10	35360229	35360229	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttcatcaaaatctactactCttggtttcaaagacattgtg	12	16	5	8	0	5	1	3	0	2	1	5	1	5	1	0	1	2	1	0	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:35360229C>T	uc001ixv.2	-	2	227	c.17G>A	c.(16-18)AGA>AAA	p.R6K	CUL2_uc009xma.2_5'UTR|CUL2_uc010qer.1_Missense_Mutation_p.R25K|CUL2_uc001ixw.2_Missense_Mutation_p.R6K|CUL2_uc010qes.1_Missense_Mutation_p.R6K	NM_003591	NP_003582	Q13617	CUL2_HUMAN	cullin 2	6					cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding			ovary(3)	3						ATCTACTACTCTTGGTTTCAA	0.333													4	53					0	0	1	0	0		T	35360229	T	T	35360229	3	4	27	1	0	0	0	0	1	0	0	0	4058	913	32	4	2300	4	CUL2	10	35360229	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	688541	35360229	100174518	4650	27001											
GJD4	219770	broad.mit.edu	37	chr10	35896548	35896548	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctgctgcggatgctggTgattgtcttggcggggcgac	4	11	18	8	3	1	1	0	1	1	0	1	4	1	2	0	5	4	3	0	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:35896548T>C	uc001iyy.1	+	2	265	c.107T>C	c.(106-108)GTG>GCG	p.V36A		NM_153368	NP_699199	Q96KN9	CXD4_HUMAN	connexin40.1	36	Helical; (Potential).				cell communication	connexon complex|integral to membrane				large_intestine(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CGGATGCTGGTGATTGTCTTG	0.587													4	42					0	0	1	0	0		C	35896548	C	C	35896548	3	2	27	1	0	0	0	0	1	0	0	0	6434	1696	59	3	113	3	GJD4	10	35896548	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	536319	35896548	99638199	4651	27002											
FZD8	8325	broad.mit.edu	37	chr10	35929473	35929473	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgataaggaaggtggagacGgtggcgaaggtggacacgaa	13	5	18	5	4	0	1	0	0	0	1	1	7	0	3	0	7	0	0	0	7	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:35929473G>A	uc001iyz.1	-	1	890	c.885C>T	c.(883-885)ACC>ACT	p.T295T		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	295	Helical; Name=1; (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						AGGTGGAGACGGTGGCGAAGG	0.607													7	31					0	0	1	0	0		A	35929473	A	A	35929473	2	1	27	1	0	0	0	0	0	0	0	1	6150	1103	39	1		1	FZD8	10	35929473	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	32925	35929473	99605274	4652	27003											
ZNF248	57209	broad.mit.edu	37	chr10	38127040	38127040	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgaatgacacttgttcCtgtaatagtatactcttttt	9	19	5	8	0	1	2	0	2	1	0	3	2	3	2	2	0	1	3	2	0	5	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:38127040C>A	uc001izd.1	-	4	515	c.16_splice	c.e4-1	p.E6_splice	ZNF248_uc009xmc.2_Splice_Site_p.E6_splice|ZNF248_uc001izb.2_Splice_Site|ZNF248_uc001izc.2_Splice_Site_p.E6_splice|ZNF248_uc010qeu.1_Splice_Site_p.E6_splice	NM_021045	NP_066383	Q8NDW4	ZN248_HUMAN	zinc finger protein 248						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ACACTTGTTCCTGTAATAGTA	0.373													12	137					1.08611e-07	1.18661e-07	1	1	0		A	38127040	A	A	38127040	5	1	27	1	0	0	0	0	0	0	1	0	17818	695	24	5	1736	5	ZNF248	10	38127040	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2197567	38127040	97407707	4653	27004											
ZNF25	219749	broad.mit.edu	37	chr10	38241129	38241129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgacttctggataaaggtttCcccacactcctgacactcat	10	12	6	13	0	2	2	1	2	1	0	4	3	4	3	3	2	0	1	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:38241129C>T	uc001ize.1	-	6	1402	c.1297G>A	c.(1297-1299)GAA>AAA	p.E433K	ZNF25_uc001izf.1_Missense_Mutation_p.E397K	NM_145011	NP_659448	P17030	ZNF25_HUMAN	zinc finger protein 25	433	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|central_nervous_system(1)	4		all_neural(218;0.0218)|Breast(68;0.0389)|Ovarian(717;0.0443)|Renal(717;0.157)				ATAAAGGTTTCCCCACACTCC	0.428													5	143					0	0	1	0	0		T	38241129	T	T	38241129	3	4	27	1	0	0	0	0	1	0	0	0	17819	864	30	4	77	4	ZNF25	10	38241129	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	114089	38241129	97293618	4654	27005											
ZNF33B	7582	broad.mit.edu	37	chr10	43089023	43089023	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgtgtgagttctctggtGtactgtaaggtgtgaattca	8	15	12	6	0	2	2	1	2	1	0	3	2	2	2	1	2	1	3	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:43089023G>T	uc001jaf.1	-	5	1490	c.1375C>A	c.(1375-1377)CAC>AAC	p.H459N	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Missense_Mutation_p.H347N|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	459	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GTTCTCTGGTGTACTGTAAGG	0.403													6	85					0.0215528	0.0219246	1	1	0		T	43089023	T	T	43089023	3	4	27	1	0	0	0	0	1	0	0	0	17880	1377	48	5	965	5	ZNF33B	10	43089023	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4847894	43089023	92445724	4655	27006											
ZNF33B	7582	broad.mit.edu	37	chr10	43089341	43089341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acattgaaagtgtttctctcCtgtgtgcaccctctgatgtc	7	15	8	11	0	2	2	0	2	2	0	5	2	3	2	2	0	1	2	2	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:43089341C>T	uc001jaf.1	-	5	1172	c.1057G>A	c.(1057-1059)GGA>AGA	p.G353R	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Missense_Mutation_p.G241R|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	353						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TGTTTCTCTCCTGTGTGCACC	0.413													11	109					0	0	1	0	0		T	43089341	T	T	43089341	3	4	27	1	0	0	0	0	1	0	0	0	17880	690	24	4	1283	4	ZNF33B	10	43089341	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	318	43089341	92445406	4656	27007											
BMS1	9790	broad.mit.edu	37	chr10	43325851	43325851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggagaccggccgtcatacGcgagcctcatgaaagaaagg	12	4	14	11	5	2	3	2	1	0	2	2	5	2	3	3	3	2	0	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:43325851G>A	uc001jaj.2	+	22	3957	c.3599G>A	c.(3598-3600)CGC>CAC	p.R1200H		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	1200					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity	p.R1200G(1)		ovary(2)|upper_aerodigestive_tract(1)	3						GCCGTCATACGCGAGCCTCAT	0.517													7	52					0	0	1	0	0		A	43325851	A	A	43325851	3	1	27	1	0	0	0	0	1	0	0	0	1473	1087	38	1	3681	1	BMS1	10	43325851	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	236510	43325851	92208896	4657	27008											
ZNF32	7580	broad.mit.edu	37	chr10	44139744	44139744	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaggcttttccacactgAtcacatctatagggcttctc	9	13	7	12	0	3	2	1	2	2	0	5	2	4	2	1	2	0	2	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:44139744A>T	uc001jbb.2	-	3	765	c.576T>A	c.(574-576)GAT>GAA	p.D192E	uc001jba.2_Intron|ZNF32_uc001jbc.2_Missense_Mutation_p.D192E	NM_001005368	NP_001005368	P17041	ZNF32_HUMAN	zinc finger protein 32	192	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		all_neural(218;0.0182)|Ovarian(717;0.0443)|Renal(717;0.157)		Lung(62;0.179)		TTCCACACTGATCACATCTAT	0.473													9	103					0	0	1	0	0		T	44139744	T	T	44139744	3	4	27	1	0	0	0	0	1	0	0	0	17863	330	12	5	249	5	ZNF32	10	44139744	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	813893	44139744	91395003	4658	27009											
ZNF32	7580	broad.mit.edu	37	chr10	44139814	44139814	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttactctgattcctgaagCttctctgacaaatagcacac	11	12	7	11	0	2	3	0	3	2	0	4	3	3	3	1	1	3	3	1	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:44139814C>G	uc001jbb.2	-	3	695	c.506G>C	c.(505-507)AGC>ACC	p.S169T	uc001jba.2_Intron|ZNF32_uc001jbc.2_Missense_Mutation_p.S169T	NM_001005368	NP_001005368	P17041	ZNF32_HUMAN	zinc finger protein 32	169	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		all_neural(218;0.0182)|Ovarian(717;0.0443)|Renal(717;0.157)		Lung(62;0.179)		ATTCCTGAAGCTTCTCTGACA	0.483													9	93					0	0	1	0	0		G	44139814	G	G	44139814	3	3	27	1	0	0	0	0	1	0	0	0	17863	797	28	5	319	5	ZNF32	10	44139814	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	70	44139814	91394933	4659	27010											
RASSF4	83937	broad.mit.edu	37	chr10	45480371	45480371	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccggtgaggcccagcgcAtccggcgacaccggttctct	5	6	12	18	5	1	1	0	1	1	0	3	2	2	1	5	4	1	2	5	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:45480371A>G	uc001jbo.2	+	6	618	c.484A>G	c.(484-486)ATC>GTC	p.I162V	RASSF4_uc001jbp.2_Missense_Mutation_p.I193V|RASSF4_uc009xmn.2_Missense_Mutation_p.I92V|RASSF4_uc001jbq.2_Missense_Mutation_p.I59V|RASSF4_uc001jbt.2_Missense_Mutation_p.I119V	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	162					cell cycle|signal transduction		protein binding			large_intestine(1)	1						GGCCCAGCGCATCCGGCGACA	0.672													9	128					0	0	1	0	0		G	45480371	G	G	45480371	3	3	27	1	0	0	0	0	1	0	0	0	13113	217	8	3	502	3	RASSF4	10	45480371	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1340557	45480371	90054376	4660	27011											
RASSF4	83937	broad.mit.edu	37	chr10	45480399	45480399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaccggttctctatcaacgGccacttctacaatcataagg	12	10	6	13	2	4	0	2	0	2	0	5	0	4	0	2	3	2	1	2	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:45480399G>A	uc001jbo.2	+	6	646	c.512G>A	c.(511-513)GGC>GAC	p.G171D	RASSF4_uc001jbp.2_Missense_Mutation_p.G202D|RASSF4_uc009xmn.2_Missense_Mutation_p.G101D|RASSF4_uc001jbq.2_Missense_Mutation_p.G68D|RASSF4_uc001jbt.2_Missense_Mutation_p.G128D	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	171					cell cycle|signal transduction		protein binding			large_intestine(1)	1						TCTATCAACGGCCACTTCTAC	0.652													17	88					0	0	1	0	0		A	45480399	A	A	45480399	3	1	27	1	0	0	0	0	1	0	0	0	13113	1203	42	2	530	2	RASSF4	10	45480399	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	28	45480399	90054348	4661	27012											
ANUBL1	93550	broad.mit.edu	37	chr10	46121968	46121968	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgctgctctggagctttcaAccctttgtcagcattagtga	8	14	9	10	0	3	1	2	1	1	0	3	2	3	2	1	1	5	4	1	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:46121968A>T	uc001jcp.3	-	7	1545	c.1303T>A	c.(1303-1305)TTG>ATG	p.L435M	ANUBL1_uc001jcl.3_Translation_Start_Site|ANUBL1_uc001jcm.3_Missense_Mutation_p.L435M|ANUBL1_uc009xmu.2_Missense_Mutation_p.L361M|ANUBL1_uc001jcn.3_Missense_Mutation_p.L361M|ANUBL1_uc001jco.3_Intron	NM_001128324	NP_001121796	Q86XD8	ANUB1_HUMAN	AN1, ubiquitin-like, homolog	435							zinc ion binding				0						GGAGCTTTCAACCCTTTGTCA	0.468													14	197					0	0	1	0	0		T	46121968	T	T	46121968	3	4	27	1	0	0	0	0	1	0	0	0	713	40	2	5	896	5	ANUBL1	10	46121968	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	641569	46121968	89412779	4662	27013											
RBP3	5949	broad.mit.edu	37	chr10	48389189	48389189	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgatctcacctaccagTgtggcccagcccagcgactg	7	7	12	15	2	1	1	1	1	1	0	2	2	1	1	4	2	3	0	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:48389189T>C	uc001jez.2	-	1	1803	c.1689A>G	c.(1687-1689)ACA>ACG	p.T563T		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	563	4 X approximate tandem repeats.|2.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	CACCTACCAGTGTGGCCCAGC	0.677													6	61					0	0	1	0	0		C	48389189	C	C	48389189	2	2	27	1	0	0	0	0	0	0	0	1	13182	1683	59	3		3	RBP3	10	48389189	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2267221	48389189	87145558	4663	27014											
RBP3	5949	broad.mit.edu	37	chr10	48390762	48390762	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggttctccgggaagcagTagttatccaagaggaccttg	10	9	13	9	1	1	1	0	0	1	1	3	3	2	3	3	3	1	5	3	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:48390762T>C	uc001jez.2	-	1	230	c.116A>G	c.(115-117)TAC>TGC	p.Y39C		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	39	4 X approximate tandem repeats.|1.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	CGGGAAGCAGTAGTTATCCAA	0.597													3	66					0	0	1	0	0		C	48390762	C	C	48390762	3	2	27	1	0	0	0	0	1	0	0	0	13182	1638	57	3	3643	3	RBP3	10	48390762	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1573	48390762	87143985	4664	27015											
GDF2	2658	broad.mit.edu	37	chr10	48413794	48413794	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaggggaagaagcagccGcccttacactcgtaggcttc	10	6	12	13	2	0	1	0	0	0	1	2	2	0	2	3	3	3	3	3	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:48413794G>A	uc001jfa.1	-	2	1237	c.1074C>T	c.(1072-1074)GGC>GGT	p.G358G		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	358					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						AGAAGCAGCCGCCCTTACACT	0.572													15	63					0	0	1	0	0		A	48413794	A	A	48413794	2	1	27	1	0	0	0	0	0	0	0	1	6329	1074	38	1		1	GDF2	10	48413794	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23032	48413794	87120953	4665	27016											
FRMPD2	143162	broad.mit.edu	37	chr10	49420096	49420096	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtagagcggtcatcctctcGatcagactcgctgggatgta	8	10	12	11	4	3	2	2	0	1	2	6	4	4	3	1	2	1	3	1	2	2	2	rs116034209	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:49420096G>A	uc001jgi.2	-	13	1619	c.1512C>T	c.(1510-1512)ATC>ATT	p.I504I	FRMPD2_uc001jgh.2_Silent_p.I472I|FRMPD2_uc001jgj.2_Silent_p.I482I	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	504	FERM.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		TCATCCTCTCGATCAGACTCG	0.532													6	31					0	0	1	0	0		A	49420096	A	A	49420096	2	1	27	1	0	0	0	0	0	0	0	1	6072	1048	37	1		1	FRMPD2	10	49420096	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1006302	49420096	86114651	4666	27017											
FRMPD2	143162	broad.mit.edu	37	chr10	49448436	49448436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagacactccggggcctgtgCcgctgggctctcgctgcttg	3	9	14	15	3	1	1	0	0	1	1	3	1	2	1	3	3	2	4	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:49448436C>T	uc001jgi.2	-	6	774	c.667G>A	c.(667-669)GCA>ACA	p.A223T	FRMPD2_uc001jgh.2_Missense_Mutation_p.A192T|FRMPD2_uc001jgj.2_Missense_Mutation_p.A201T	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	223					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		GGGGCCTGTGCCGCTGGGCTC	0.582													4	40					0	0	1	0	0		T	49448436	T	T	49448436	3	4	27	1	0	0	0	0	1	0	0	0	6072	739	26	2	3358	2	FRMPD2	10	49448436	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	28340	49448436	86086311	4667	27018											
ARHGAP22	58504	broad.mit.edu	37	chr10	49654565	49654565	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcccgttcagagttccgcaGctttatttccagcatgatgt	7	13	9	12	3	1	2	1	1	0	1	3	2	3	2	3	0	2	5	3	0	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:49654565G>A	uc001jgt.2	-	10	2263	c.1966C>T	c.(1966-1968)CTG>TTG	p.L656L	ARHGAP22_uc001jgs.2_Silent_p.L566L|ARHGAP22_uc001jgu.2_Silent_p.L672L|ARHGAP22_uc010qgl.1_Silent_p.L613L|ARHGAP22_uc010qgm.1_Silent_p.L662L|ARHGAP22_uc001jgv.2_Silent_p.L354L|ARHGAP22_uc001jgr.2_Silent_p.L373L	NM_021226	NP_067049	Q7Z5H3	RHG22_HUMAN	Rho GTPase activating protein 2	656	Potential.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol|nucleus	GTPase activator activity			ovary(1)	1						GAGTTCCGCAGCTTTATTTCC	0.493													22	71					0	0	1	0	0		A	49654565	A	A	49654565	2	1	27	1	0	0	0	0	0	0	0	1	872	962	34	2		2	ARHGAP22	10	49654565	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	206129	49654565	85880182	4668	27019											
C10orf72	196740	broad.mit.edu	37	chr10	50227737	50227737	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggatctgggcgtagacagtGctggtgggggcgcctttggc	5	9	19	8	2	1	1	0	0	1	1	1	2	1	2	1	6	1	2	1	6	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:50227737G>A	uc001jhf.2	-	8	950	c.921C>T	c.(919-921)AGC>AGT	p.S307S		NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	307	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0						CGTAGACAGTGCTGGTGGGGG	0.498													9	51					0	0	1	0	0		A	50227737	A	A	50227737	2	1	27	1	0	0	0	0	0	0	0	1	1618	1310	46	2		2	C10orf72	10	50227737	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	573172	50227737	85307010	4669	27020											
ERCC6	2074	broad.mit.edu	37	chr10	50736484	50736484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatcctcctccagactggCgtgatctagttcaattttca	8	14	7	12	1	3	2	2	1	1	1	6	2	6	2	3	1	1	2	3	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:50736484C>T	uc001jhs.3	-	4	785	c.631G>A	c.(631-633)GCC>ACC	p.A211T	PGBD3_uc009xoe.2_Missense_Mutation_p.A211T|PGBD3_uc001jhu.2_Missense_Mutation_p.A211T	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	211					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						TCCAGACTGGCGTGATCTAGT	0.463								Direct_reversal_of_damage|NER					21	78					0	0	1	0	0		T	50736484	T	T	50736484	3	4	27	1	0	0	0	0	1	0	0	0	5225	768	27	1	3922	1	ERCC6	10	50736484	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	508747	50736484	84798263	4670	27021											
SLC18A3	6572	broad.mit.edu	37	chr10	50819081	50819081	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctacacggccaacacctcgGcgtccccgacagctgcgtgg	7	5	11	18	5	0	0	0	0	0	0	2	1	1	0	5	3	4	1	5	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:50819081G>C	uc001jhw.2	+	1	735	c.295G>C	c.(295-297)GCG>CCG	p.A99P	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	99	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CAACACCTCGGCGTCCCCGAC	0.716													5	53					0	0	1	0	0		C	50819081	C	C	50819081	3	2	27	1	0	0	0	0	1	0	0	0	14452	1203	42	5	297	5	SLC18A3	10	50819081	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	82597	50819081	84715666	4671	27022											
CHAT	1103	broad.mit.edu	37	chr10	50833609	50833609	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggctcttctcctcctaccgGctccccggccatacccagga	5	8	9	19	2	2	0	0	0	2	0	5	1	4	1	7	4	2	2	7	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:50833609G>A	uc001jhz.2	+	6	996	c.843G>A	c.(841-843)CGG>CGA	p.R281R	CHAT_uc001jhv.1_Silent_p.R163R|CHAT_uc001jhx.1_Silent_p.R163R|CHAT_uc001jhy.1_Silent_p.R163R|CHAT_uc001jia.2_Silent_p.R163R|CHAT_uc010qgs.1_Silent_p.R163R	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	281					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	CCTCCTACCGGCTCCCCGGCC	0.587													7	17					0	0	1	0	0		A	50833609	A	A	50833609	2	1	27	1	0	0	0	0	0	0	0	1	3316	1190	42	2		2	CHAT	10	50833609	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	14528	50833609	84701138	4672	27023											
AGAP7	653268	broad.mit.edu	37	chr10	51465221	51465221	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggctctggatggcttggAcccatgcatcccgctcctca	5	11	10	15	1	3	0	1	0	2	0	5	2	5	2	3	4	1	4	3	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:51465221A>G	uc001jio.2	-	7	1361	c.1235T>C	c.(1234-1236)GTC>GCC	p.V412A	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron	NM_001077685	NP_001071153	Q5VUJ5	AGAP7_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	412	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						GATGGCTTGGACCCATGCATC	0.552													13	230					0	0	1	0	0		G	51465221	G	G	51465221	3	3	27	1	0	0	0	0	1	0	0	0	373	275	10	3	760	3	AGAP7	10	51465221	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	631612	51465221	84069526	4673	27024											
AGAP6	414189	broad.mit.edu	37	chr10	51768714	51768714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaatcatgctgacaccatcGggagcggtagagccatcccc	11	6	11	13	2	1	3	1	1	0	2	3	4	2	4	4	2	3	2	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:51768714G>A	uc001jix.3	+	8	1227	c.829G>A	c.(829-831)GGG>AGG	p.G277R		NM_001077665	NP_001071133	Q5VW22	AGAP6_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	277					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			skin(1)	1						TGACACCATCGGGAGCGGTAG	0.507													32	393					0	0	1	0	0		A	51768714	A	A	51768714	3	1	27	1	0	0	0	0	1	0	0	0	372	1116	39	1	859	1	AGAP6	10	51768714	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	303493	51768714	83766033	4674	27025											
AGAP6	414189	broad.mit.edu	37	chr10	51769756	51769756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacctgtggggagggagacgGctgcacggcgctccatctgg	6	6	18	11	3	1	1	0	0	1	1	2	4	2	2	2	6	1	3	2	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:51769756G>A	uc001jix.3	+	8	2269	c.1871G>A	c.(1870-1872)GGC>GAC	p.G624D		NM_001077665	NP_001071133	Q5VW22	AGAP6_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	624					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			skin(1)	1						GAGGGAGACGGCTGCACGGCG	0.667													15	124					0	0	1	0	0		A	51769756	A	A	51769756	3	1	27	1	0	0	0	0	1	0	0	0	372	1203	42	2	1901	2	AGAP6	10	51769756	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1042	51769756	83764991	4675	27026											
SGMS1	259230	broad.mit.edu	37	chr10	52071042	52071042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actctttgataaataagtagGtaagtgttagcatgaccgtg	13	13	10	5	1	1	2	0	2	1	0	1	2	1	2	1	1	1	4	1	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:52071042G>A	uc001jje.2	-	9	1829	c.875C>T	c.(874-876)ACC>ATC	p.T292I	SGMS1_uc010qhk.1_Missense_Mutation_p.T123I|SGMS1_uc009xot.1_RNA	NM_147156	NP_671512	Q86VZ5	SMS1_HUMAN	sphingomyelin synthase 1	298	Helical; (Potential).				apoptosis|cell growth|sphingomyelin biosynthetic process	endoplasmic reticulum|Golgi trans cisterna|integral to Golgi membrane|nucleus|plasma membrane	ceramide cholinephosphotransferase activity|kinase activity|sphingomyelin synthase activity			ovary(1)|kidney(1)	2						AAATAAGTAGGTAAGTGTTAG	0.433													7	38					0	0	1	0	0		A	52071042	A	A	52071042	3	1	27	1	0	0	0	0	1	0	0	0	14239	1261	44	4	378	4	SGMS1	10	52071042	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	301286	52071042	83463705	4676	27027											
CSTF2T	23283	broad.mit.edu	37	chr10	53457790	53457790	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtatgcctgtaccctgcataCcagctccaggattccccacc	8	9	7	17	0	0	0	0	0	0	0	2	1	2	1	7	1	5	4	7	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:53457790C>G	uc001jjp.2	-	1	1566	c.1520G>C	c.(1519-1521)GGT>GCT	p.G507A	PRKG1_uc001jjm.2_Intron|PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron	NM_015235	NP_056050	Q9H0L4	CSTFT_HUMAN	cleavage stimulation factor, 3' pre-RNA, subunit	507	2-1.|9 X 5 AA tandem repeats of G-[AT]-G-[MI]- Q.|Gly-rich.				mRNA processing	nucleus	nucleotide binding|RNA binding			ovary(1)	1				COAD - Colon adenocarcinoma(2;0.00736)|Colorectal(2;0.00898)|all cancers(4;0.0188)|GBM - Glioblastoma multiforme(4;0.0778)|Epithelial(53;0.122)		ACCCTGCATACCAGCTCCAGG	0.328													3	26					0	0	1	0	0		G	53457790	G	G	53457790	3	3	27	1	0	0	0	0	1	0	0	0	3988	507	18	5	334	5	CSTF2T	10	53457790	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1386748	53457790	82076957	4677	27028											
MBL2	4153	broad.mit.edu	37	chr10	54530479	54530479	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttggtcctggtgacccAgaaggccctggatttcctgg	5	11	12	13	0	0	2	0	1	0	1	2	3	2	3	5	5	0	0	5	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:54530479A>G	uc001jjt.2	-	2	320	c.255T>C	c.(253-255)TCT>TCC	p.S85S		NM_000242	NP_000233	P11226	MBL2_HUMAN	soluble mannose-binding lectin precursor	85	Collagen-like.				acute-phase response|complement activation, classical pathway|complement activation, lectin pathway|defense response to Gram-positive bacterium|negative regulation of growth of symbiont in host|opsonization|response to oxidative stress	collagen|extracellular space	bacterial cell surface binding|calcium-dependent protein binding|eukaryotic cell surface binding|mannose binding|receptor binding			ovary(1)	1						CTGGTGACCCAGAAGGCCCTG	0.552													26	91					0	0	1	0	0		G	54530479	G	G	54530479	2	3	27	1	0	0	0	0	0	0	0	1	9368	175	7	3		3	MBL2	10	54530479	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1072689	54530479	81004268	4678	27029											
PCDH15	65217	broad.mit.edu	37	chr10	55566537	55566537	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtcagtccccacagggcaAggggcaaatgtaaccagagt	12	7	12	10	0	1	1	1	0	0	1	2	1	2	1	3	3	1	3	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:55566537A>G	uc010qhq.1	-	36	5246	c.4851T>C	c.(4849-4851)CCT>CCC	p.P1617P	PCDH15_uc010qhr.1_Silent_p.P1612P	NM_001142771	NP_001136243	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD3-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CCACAGGGCAAGGGGCAAATG	0.453										HNSCC(58;0.16)			32	272					0	0	1	0	0		G	55566537	G	G	55566537	2	3	27	1	0	0	0	0	0	0	0	1	11530	59	3	3		3	PCDH15	10	55566537	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1036058	55566537	79968210	4679	27030											
PCDH15	65217	broad.mit.edu	37	chr10	55582009	55582009	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaggaggtggagggcaaGgaatagaaggaggtggtgga	13	5	21	2	0	0	2	0	1	0	1	0	7	0	7	0	9	0	1	0	9	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:55582009G>T	uc001jju.1	-	33	5872	c.5477C>A	c.(5476-5478)CCT>CAT	p.P1826H	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.P1823H|PCDH15_uc010qhw.1_Missense_Mutation_p.P1786H|PCDH15_uc010qhx.1_Missense_Mutation_p.P1757H|PCDH15_uc010qhy.1_Missense_Mutation_p.P1833H|PCDH15_uc010qhz.1_Missense_Mutation_p.P1828H|PCDH15_uc010qia.1_Missense_Mutation_p.P1806H|PCDH15_uc010qib.1_Missense_Mutation_p.P1803H	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1826	Poly-Pro.|Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				tggagggcaaggaatagaagg	0.269										HNSCC(58;0.16)			4	60					0.00909568	0.0093211	1	1	0		T	55582009	T	T	55582009	3	4	27	1	0	0	0	0	1	0	0	0	11530	1000	35	5	2000	5	PCDH15	10	55582009	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15472	55582009	79952738	4680	27031											
ZWINT	11130	broad.mit.edu	37	chr10	58119836	58119836	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagtgtcctcctgagccaGgatgttctgcaggaaatccg	9	9	12	11	1	1	1	0	1	1	0	4	3	4	3	4	2	3	3	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:58119836G>T	uc001jjx.1	-	3	236	c.199C>A	c.(199-201)CTG>ATG	p.L67M	ZWINT_uc001jjy.1_Missense_Mutation_p.L67M|ZWINT_uc001jka.1_Missense_Mutation_p.L67M|ZWINT_uc009xoy.1_Intron	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a	67					cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0						TCCTGAGCCAGGATGTTCTGC	0.572													11	64					4.68919e-08	5.14072e-08	1	1	0		T	58119836	T	T	58119836	3	4	27	1	0	0	0	0	1	0	0	0	18274	991	35	5	658	5	ZWINT	10	58119836	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2537827	58119836	77414911	4681	27032											
BICC1	80114	broad.mit.edu	37	chr10	60273031	60273031	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccggggcgaccctgcacaGcccggagtggagcgaggagc	7	2	18	14	5	0	0	0	0	0	0	0	5	0	3	3	5	4	1	3	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:60273031G>T	uc001jki.1	+	1	128	c.128G>T	c.(127-129)AGC>ATC	p.S43I		NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	43					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						ACCCTGCACAGCCCGGAGTGG	0.672													4	22					1	1	1	1	0		T	60273031	T	T	60273031	3	4	27	1	0	0	0	0	1	0	0	0	1428	971	34	5	130	5	BICC1	10	60273031	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2153195	60273031	75261716	4682	27033											
BICC1	80114	broad.mit.edu	37	chr10	60562892	60562892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgctaccgaaagccctttgGctgacaagaaggctccaggg	10	7	13	11	1	0	2	0	1	0	1	1	3	1	2	3	3	3	3	3	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:60562892G>A	uc001jki.1	+	15	2071	c.2071G>A	c.(2071-2073)GCT>ACT	p.A691T	BICC1_uc001jkj.1_Missense_Mutation_p.A332T	NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	691					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						AAGCCCTTTGGCTGACAAGAA	0.522													13	38					0	0	1	0	0		A	60562892	A	A	60562892	3	1	27	1	0	0	0	0	1	0	0	0	1428	1203	42	2	2129	2	BICC1	10	60562892	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	289861	60562892	74971855	4683	27034											
FAM13C	220965	broad.mit.edu	37	chr10	61083850	61083850	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacactctgactggctggatAccacatgctctgtctcctgc	7	11	9	14	0	3	1	0	1	3	0	4	3	3	2	2	2	3	2	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:61083850A>G	uc001jkn.2	-	5	475	c.341T>C	c.(340-342)GTA>GCA	p.V114A	FAM13C_uc001jko.2_Missense_Mutation_p.V114A|FAM13C_uc010qid.1_Missense_Mutation_p.V31A|FAM13C_uc010qie.1_Missense_Mutation_p.V31A|FAM13C_uc010qif.1_Missense_Mutation_p.V136A|FAM13C_uc001jkp.2_Missense_Mutation_p.V31A	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	114										ovary(2)	2						CTGGCTGGATACCACATGCTC	0.483													12	242					0	0	1	0	0		G	61083850	G	G	61083850	3	3	27	1	0	0	0	0	1	0	0	0	5465	391	14	3	1460	3	FAM13C	10	61083850	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	520958	61083850	74450897	4684	27035											
ANK3	288	broad.mit.edu	37	chr10	61828702	61828702	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctaactttaactgtgcaGctggtggtggtggtagtggt	6	15	14	6	0	0	0	0	0	0	0	1	0	1	0	1	5	4	3	1	5	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:61828702G>A	uc001jky.2	-	37	12129	c.11937C>T	c.(11935-11937)AGC>AGT	p.S3979S	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	3979	Thr-rich.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TAACTGTGCAGCtggtggtgg	0.284													13	87					0	0	1	0	0		A	61828702	A	A	61828702	2	1	27	1	0	0	0	0	0	0	0	1	622	962	34	2		2	ANK3	10	61828702	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	744852	61828702	73706045	4685	27036											
ANK3	288	broad.mit.edu	37	chr10	61832930	61832930	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctatcttcatatatcaacTtctctctacctctgtctaat	9	17	1	14	0	7	0	2	0	5	0	8	0	7	0	2	0	2	0	2	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:61832930T>C	uc001jky.2	-	37	7901	c.7709A>G	c.(7708-7710)AAG>AGG	p.K2570R	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2570					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						ATATATCAACTTCTCTCTACC	0.408													4	119					0	0	1	0	0		C	61832930	C	C	61832930	3	2	27	1	0	0	0	0	1	0	0	0	622	1609	56	3	5765	3	ANK3	10	61832930	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4228	61832930	73701817	4686	27037											
ANK3	288	broad.mit.edu	37	chr10	61834285	61834285	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggacttttatcttggtcGtgttgagaaaagtcatcagg	11	13	12	5	1	3	1	2	1	1	1	4	3	3	2	0	3	0	1	0	3	4	4	rs116585069	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:61834285G>A	uc001jky.2	-	37	6546	c.6354C>T	c.(6352-6354)CAC>CAT	p.H2118H	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2118					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TATCTTGGTCGTGTTGAGAAA	0.428													27	78					0	0	1	0	0		A	61834285	A	A	61834285	2	1	27	1	0	0	0	0	0	0	0	1	622	1136	40	1		1	ANK3	10	61834285	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1355	61834285	73700462	4687	27038											
RHOBTB1	9886	broad.mit.edu	37	chr10	62652726	62652726	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaattgggattagcaatCgaaaaacagaggaccacaac	18	5	11	7	1	0	1	0	0	0	1	1	5	0	4	1	3	3	1	1	3	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:62652726C>A	uc001jli.2	-	6	762	c.324G>T	c.(322-324)TCG>TCT	p.S108S	RHOBTB1_uc001jlh.2_Silent_p.S108S|RHOBTB1_uc001jlj.2_Silent_p.S108S|RHOBTB1_uc001jlk.2_Silent_p.S108S|RHOBTB1_uc009xpe.1_Intron	NM_014836	NP_055651	O94844	RHBT1_HUMAN	Rho-related BTB domain containing 1	108	Rho-like.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)					GATTAGCAATCGAAAAACAGA	0.403													25	62					1.42536e-11	1.58075e-11	1	1	0		A	62652726	A	A	62652726	2	1	27	1	0	0	0	0	0	0	0	1	13358	871	31	5		5	RHOBTB1	10	62652726	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	818441	62652726	72882021	4688	27039											
TMEM26	219623	broad.mit.edu	37	chr10	63188896	63188896	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagataagttattcacaaaAactttggcctgtttaacaga	15	13	7	6	0	1	2	1	0	0	2	1	2	1	2	1	1	2	3	1	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:63188896A>G	uc001jlo.2	-	4	762	c.393T>C	c.(391-393)GTT>GTC	p.V131V	TMEM26_uc010qij.1_RNA|TMEM26_uc001jlq.2_RNA	NM_178505	NP_848600	Q6ZUK4	TMM26_HUMAN	transmembrane protein 26	131						integral to membrane					0	Prostate(12;0.0112)					TATTCACAAAAACTTTGGCCT	0.383													6	49					0	0	1	0	0		G	63188896	G	G	63188896	2	3	27	1	0	0	0	0	0	0	0	1	16176	1	1	3		3	TMEM26	10	63188896	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	536170	63188896	72345851	4689	27040											
RTKN2	219790	broad.mit.edu	37	chr10	63976892	63976892	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaccttgttaatgggtacTaccaaagctggttccacttt	9	16	7	9	0	0	0	0	0	0	0	1	0	1	0	3	2	4	4	3	2	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:63976892T>C	uc001jlw.2	-	9	1102	c.1005A>G	c.(1003-1005)GTA>GTG	p.V335V	RTKN2_uc009xpf.1_Silent_p.V116V	NM_145307	NP_660350	Q8IZC4	RTKN2_HUMAN	rhotekin 2	335	PH.				signal transduction	intracellular					0	Prostate(12;0.0297)|all_hematologic(501;0.215)					TAATGGGTACTACCAAAGCTG	0.343													4	107					0	0	1	0	0		C	63976892	C	C	63976892	2	2	27	1	0	0	0	0	0	0	0	1	13748	1509	53	3		3	RTKN2	10	63976892	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	787996	63976892	71557855	4690	27041											
ZNF365	22891	broad.mit.edu	37	chr10	64415333	64415333	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatacacttgcagagtcGtgctgtggtctctccgagct	7	12	11	11	2	1	2	0	1	1	1	4	3	2	2	1	1	4	3	1	1	2	2	rs141141483		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:64415333G>A	uc001jmd.1	+	4	667	c.333G>A	c.(331-333)TCG>TCA	p.S111S	ZNF365_uc001jmc.2_Intron|ZNF365_uc001jme.1_Intron|ZNF365_uc001jmf.1_Intron|ZNF365_uc009xpg.1_Intron	NM_199452	NP_955524	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform D	111										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					TTGCAGAGTCGTGCTGTGGTC	0.512													10	88					0	0	1	0	0		A	64415333	A	A	64415333	2	1	27	1	0	0	0	0	0	0	0	1	17894	1132	40	1		1	ZNF365	10	64415333	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	438441	64415333	71119414	4691	27042											
JMJD1C	221037	broad.mit.edu	37	chr10	64937580	64937580	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatcttttccttaaaatgTcatccaaatcttcttcctca	11	17	1	12	0	6	0	3	0	3	0	9	0	9	0	3	0	0	0	3	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:64937580T>C	uc001jmn.2	-	23	7421	c.7121A>G	c.(7120-7122)GAC>GGC	p.D2374G	JMJD1C_uc001jml.2_Missense_Mutation_p.D2137G|JMJD1C_uc001jmm.2_Missense_Mutation_p.D2086G|JMJD1C_uc010qiq.1_Missense_Mutation_p.D2192G|JMJD1C_uc009xpi.2_Missense_Mutation_p.D2192G|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmk.2_5'Flank|JMJD1C_uc001jmo.2_Missense_Mutation_p.D281G	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	2374	JmjC.				blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					CCTTAAAATGTCATCCAAATC	0.358													5	26					0	0	1	0	0		C	64937580	C	C	64937580	3	2	27	1	0	0	0	0	1	0	0	0	7966	1667	58	3	517	3	JMJD1C	10	64937580	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	522247	64937580	70597167	4692	27043											
JMJD1C	221037	broad.mit.edu	37	chr10	64944401	64944401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caacctgggtcctagatcagGacgtacaaaaaatcctggca	14	7	9	11	1	1	1	1	0	0	1	3	2	3	2	3	3	2	2	3	3	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:64944401G>A	uc001jmn.2	-	21	7228	c.6928C>T	c.(6928-6930)CCT>TCT	p.P2310S	JMJD1C_uc001jml.2_Missense_Mutation_p.P2073S|JMJD1C_uc001jmm.2_Missense_Mutation_p.P2022S|JMJD1C_uc010qiq.1_Missense_Mutation_p.P2128S|JMJD1C_uc009xpi.2_Missense_Mutation_p.P2128S|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmo.2_Missense_Mutation_p.P217S	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	2310	JmjC.				blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					CCTAGATCAGGACGTACAAAA	0.358													6	91					0	0	1	0	0		A	64944401	A	A	64944401	3	1	27	1	0	0	0	0	1	0	0	0	7966	1174	41	4	718	4	JMJD1C	10	64944401	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6821	64944401	70590346	4693	27044											
CTNNA3	29119	broad.mit.edu	37	chr10	68280520	68280520	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcagccaaagcaagtgcAgcattaataatctataaaga	17	9	7	8	0	1	1	0	0	1	1	1	1	1	1	1	0	5	4	1	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:68280520A>G	uc009xpn.1	-	11	1509	c.1386T>C	c.(1384-1386)GCT>GCC	p.A462A	CTNNA3_uc001jmw.2_Silent_p.A462A|CTNNA3_uc001jmx.3_Silent_p.A462A	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	462					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						AAGCAAGTGCAGCATTAATAA	0.239													3	67					0	0	1	0	0		G	68280520	G	G	68280520	2	3	27	1	0	0	0	0	0	0	0	1	4017	175	7	3		3	CTNNA3	10	68280520	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3336119	68280520	67254227	4694	27045											
LRRTM3	347731	broad.mit.edu	37	chr10	68686693	68686693	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccaggtttcaatgtaattAggctactgagcggatcagct	10	13	10	8	1	2	1	2	1	0	0	3	2	3	2	1	3	3	4	1	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:68686693A>G	uc001jmz.1	+	2	569	c.19A>G	c.(19-21)AGG>GGG	p.R7G	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.R7G	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	7						integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CAATGTAATTAGGCTACTGAG	0.393													6	56					0	0	1	0	0		G	68686693	G	G	68686693	3	3	27	1	0	0	0	0	1	0	0	0	9059	411	15	3	25	3	LRRTM3	10	68686693	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	406173	68686693	66848054	4695	27046											
LRRTM3	347731	broad.mit.edu	37	chr10	68686785	68686785	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgaggatgccctaagggCtgtaggtgtgaaggcaaaat	13	7	15	6	1	0	1	0	1	0	0	0	4	0	2	1	4	2	3	1	4	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:68686785C>T	uc001jmz.1	+	2	661	c.111C>T	c.(109-111)GGC>GGT	p.G37G	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Silent_p.G37G	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	37	Extracellular (Potential).|LRRNT.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GCCCTAAGGGCTGTAGGTGTG	0.453													23	54					0	0	1	0	0		T	68686785	T	T	68686785	2	4	27	1	0	0	0	0	0	0	0	1	9059	784	28	2		2	LRRTM3	10	68686785	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	92	68686785	66847962	4696	27047											
CTNNA3	29119	broad.mit.edu	37	chr10	68979622	68979622	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctctctgatttggagattTtaagtcctgagaaggtaaat	12	15	9	5	0	2	3	0	2	2	2	4	5	3	3	1	2	0	1	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:68979622T>C	uc009xpn.1	-	6	709	c.586A>G	c.(586-588)AAA>GAA	p.K196E	CTNNA3_uc001jmw.2_Missense_Mutation_p.K196E|CTNNA3_uc001jmx.3_Missense_Mutation_p.K196E|CTNNA3_uc009xpo.1_Missense_Mutation_p.K56E|CTNNA3_uc001jna.2_Missense_Mutation_p.K208E	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	196					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						TTTGGAGATTTTAAGTCCTGA	0.363													6	56					0	0	1	0	0		C	68979622	C	C	68979622	3	2	27	1	0	0	0	0	1	0	0	0	4017	1850	64	3	2153	3	CTNNA3	10	68979622	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	292837	68979622	66555125	4697	27048											
CTNNA3	29119	broad.mit.edu	37	chr10	69407206	69407206	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctccagtagcttctccacGgtgaatgtttggacctgcag	7	11	12	11	1	1	1	0	1	1	0	3	2	2	2	3	3	2	5	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:69407206G>A	uc009xpn.1	-	2	189	c.66C>T	c.(64-66)ACC>ACT	p.T22T	CTNNA3_uc001jmw.2_Silent_p.T22T|CTNNA3_uc001jmx.3_Silent_p.T22T|CTNNA3_uc009xpo.1_5'UTR|CTNNA3_uc001jna.2_Silent_p.T34T	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	22					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						GCTTCTCCACGGTGAATGTTT	0.393													10	139					0	0	1	0	0		A	69407206	A	A	69407206	2	1	27	1	0	0	0	0	0	0	0	1	4017	1103	39	1		1	CTNNA3	10	69407206	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	427584	69407206	66127541	4698	27049											
DNAJC12	56521	broad.mit.edu	37	chr10	69583091	69583091	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctttggggttttcaggAtgcttgtctgggtgacattc	5	15	13	8	0	2	1	1	1	1	0	3	2	2	2	1	4	2	3	1	4	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:69583091A>G	uc001jnb.2	-	2	306	c.138T>C	c.(136-138)CAT>CAC	p.H46H	DNAJC12_uc001jnc.2_Silent_p.H46H	NM_021800	NP_068572	Q9UKB3	DJC12_HUMAN	J domain containing protein 1 isoform a	46	J.				protein folding		heat shock protein binding|unfolded protein binding			breast(1)	1						GGTTTTCAGGATGCTTGTCTG	0.343													7	94					0	0	1	0	0		G	69583091	G	G	69583091	2	3	27	1	0	0	0	0	0	0	0	1	4637	330	12	3		3	DNAJC12	10	69583091	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	175885	69583091	65951656	4699	27050											
MYPN	84665	broad.mit.edu	37	chr10	69948775	69948775	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacatgatgagatccccacGggcaagtgtattgctcccat	11	9	9	12	1	0	2	0	2	0	1	2	3	2	2	3	1	2	3	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:69948775G>A	uc001jnm.3	+	14	3002	c.2817G>A	c.(2815-2817)ACG>ACA	p.T939T	MYPN_uc001jnn.3_Silent_p.T664T|MYPN_uc001jno.3_Silent_p.T939T|MYPN_uc009xpt.2_Silent_p.T939T|MYPN_uc010qit.1_Silent_p.T645T|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	939						nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						AGATCCCCACGGGCAAGTGTA	0.453													10	55					0	0	1	0	0		A	69948775	A	A	69948775	2	1	27	1	0	0	0	0	0	0	0	1	10116	1103	39	1		1	MYPN	10	69948775	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	365684	69948775	65585972	4700	27051											
PBLD	64081	broad.mit.edu	37	chr10	70056653	70056653	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatatttactttgtgcaaaGttgtctgtcgggtgcagttt	7	17	11	6	1	1	0	0	0	1	0	2	0	1	0	0	1	3	5	0	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:70056653G>A	uc001jns.1	-	3	377	c.174C>T	c.(172-174)AAC>AAT	p.N58N	PBLD_uc001jnr.1_Silent_p.N25N|PBLD_uc001jnt.1_Silent_p.N58N|PBLD_uc001jnu.1_Silent_p.N58N|PBLD_uc001jnv.1_Silent_p.N58N	NM_022129	NP_071412	P30039	PBLD_HUMAN	MAWD binding protein isoform a	58					biosynthetic process		isomerase activity			skin(2)|ovary(1)	3						TTTGTGCAAAGTTGTCTGTCG	0.234													8	93					0	0	1	0	0		A	70056653	A	A	70056653	2	1	27	1	0	0	0	0	0	0	0	1	11508	1020	36	4		4	PBLD	10	70056653	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	107878	70056653	65478094	4701	27052											
DNA2	1763	broad.mit.edu	37	chr10	70204764	70204764	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcaaagaagcaagctgTgtcttctgtctagtagcaga	11	11	12	7	0	3	2	0	0	3	2	3	2	3	2	0	1	3	5	0	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:70204764T>C	uc001jof.2	-	8	1392	c.1392A>G	c.(1390-1392)ACA>ACG	p.T464T	DNA2_uc001jog.1_Silent_p.T378T|DNA2_uc001joh.1_RNA	NM_001080449	NP_001073918	P51530	DNA2L_HUMAN	DNA replication helicase 2 homolog	378					base-excision repair|DNA replication, removal of RNA primer|mitochondrial DNA repair|mitochondrial DNA replication|positive regulation of DNA replication|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	mitochondrial nucleoid|nucleoplasm	5'-flap endonuclease activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|site-specific endodeoxyribonuclease activity, specific for altered base				0						AAGCAAGCTGTGTCTTCTGTC	0.333													9	90					0	0	1	0	0		C	70204764	C	C	70204764	2	2	27	1	0	0	0	0	0	0	0	1	4602	1683	59	3		3	DNA2	10	70204764	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	148111	70204764	65329983	4702	27053											
TET1	80312	broad.mit.edu	37	chr10	70404504	70404504	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaagtcagaatccatggActacagtagatgtggtcatg	12	9	10	10	0	2	2	2	0	0	2	3	3	3	3	3	2	1	1	3	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:70404504A>T	uc001jok.3	+	4	2523	c.2018A>T	c.(2017-2019)GAC>GTC	p.D673V		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	673	Sufficient for binding to genomic CpG islands.				DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						GAATCCATGGACTACAGTAGA	0.363													4	33					0	0	1	0	0		T	70404504	T	T	70404504	3	4	27	1	0	0	0	0	1	0	0	0	15794	275	10	5	2028	5	TET1	10	70404504	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	199740	70404504	65130243	4703	27054											
CCAR1	55749	broad.mit.edu	37	chr10	70496769	70496769	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacaaactgctgcattgcaGcaacaagccgcagctgcagc	13	5	9	14	1	0	0	0	0	0	0	0	0	0	0	1	0	10	7	1	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:70496769G>T	uc001joo.2	+	3	329	c.210G>T	c.(208-210)CAG>CAT	p.Q70H	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_5'UTR|CCAR1_uc009xpx.1_Missense_Mutation_p.Q70H|CCAR1_uc001jon.1_Missense_Mutation_p.A60S|CCAR1_uc010qiz.1_Missense_Mutation_p.Q70H|CCAR1_uc010qja.1_Missense_Mutation_p.Q70H|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	70					apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						CTGCATTGCAGCAACAAGCCG	0.408													4	15					0.00909568	0.0093211	1	1	0		T	70496769	T	T	70496769	3	4	27	1	0	0	0	0	1	0	0	0	2733	962	34	5	216	5	CCAR1	10	70496769	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	92265	70496769	65037978	4704	27055											
CCAR1	55749	broad.mit.edu	37	chr10	70500386	70500386	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttatttttctgttttcagTtacagcaaccccagcaaacc	10	15	5	11	0	2	0	1	0	1	0	2	0	2	0	3	0	5	5	3	0	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:70500386T>C	uc001joo.2	+	5	411	c.292T>C	c.(292-294)TTA>CTA	p.L98L	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_5'UTR|CCAR1_uc009xpx.1_Intron|CCAR1_uc001jon.1_Intron|CCAR1_uc010qiz.1_Silent_p.L83L|CCAR1_uc010qja.1_Silent_p.L83L|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	98					apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						CTGTTTTCAGTTACAGCAACC	0.318													7	114					0	0	1	0	0		C	70500386	C	C	70500386	2	2	27	1	0	0	0	0	0	0	0	1	2733	1739	60	3		3	CCAR1	10	70500386	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3617	70500386	65034361	4705	27056											
STOX1	219736	broad.mit.edu	37	chr10	70645238	70645238	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgataaaatggaagcagaAtccatttacataaatgaccc	19	9	6	7	0	0	3	0	2	0	1	1	4	1	4	2	1	2	1	2	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:70645238A>G	uc001jos.2	+	3	1773	c.1686A>G	c.(1684-1686)GAA>GAG	p.E562E	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Silent_p.E452E	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	562						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						TGGAAGCAGAATCCATTTACA	0.413													5	58					0	0	1	0	0		G	70645238	G	G	70645238	2	3	27	1	0	0	0	0	0	0	0	1	15344	98	4	3		3	STOX1	10	70645238	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	144852	70645238	64889509	4706	27057											
EIF4EBP2	1979	broad.mit.edu	37	chr10	72179739	72179739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccatggctcagaccccacCctgccacctgcccaatatcc	8	7	5	21	0	1	1	1	0	0	1	3	1	3	1	8	1	2	1	8	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:72179739C>T	uc001jrb.2	+	2	512	c.215C>T	c.(214-216)CCC>CTC	p.P72L		NM_004096	NP_004087	Q13542	4EBP2_HUMAN	eukaryotic translation initiation factor 4E	72					negative regulation of translational initiation|translation		eukaryotic initiation factor 4E binding				0						CAGACCCCACCCTGCCACCTG	0.443													5	86					0	0	1	0	0		T	72179739	T	T	72179739	3	4	27	1	0	0	0	0	1	0	0	0	5041	623	22	4	221	4	EIF4EBP2	10	72179739	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1534501	72179739	63355008	4707	27058											
KIAA1274	27143	broad.mit.edu	37	chr10	72291167	72291167	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaacctccagggccttggacCcggggtccgggtggagagcc	6	5	17	13	2	0	1	0	0	0	1	2	4	2	2	6	6	2	0	6	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:72291167C>A	uc001jrd.3	+	5	871	c.590C>A	c.(589-591)CCC>CAC	p.P197H		NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	197										ovary(2)|central_nervous_system(1)	3						GGCCTTGGACCCGGGGTCCGG	0.617													6	73					0.217242	0.218248	1	1	0		A	72291167	A	A	72291167	3	1	27	1	0	0	0	0	1	0	0	0	8236	623	22	5	604	5	KIAA1274	10	72291167	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	111428	72291167	63243580	4708	27059											
KIAA1274	27143	broad.mit.edu	37	chr10	72297649	72297649	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgatcctgtttaactactAccttcatgagcaggtggggc	8	12	10	11	0	1	2	1	2	0	0	2	2	2	2	3	3	4	2	3	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:72297649A>G	uc001jrd.3	+	11	1591	c.1310A>G	c.(1309-1311)TAC>TGC	p.Y437C	KIAA1274_uc001jre.3_5'Flank	NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	437										ovary(2)|central_nervous_system(1)	3						TTTAACTACTACCTTCATGAG	0.637													9	65					0	0	1	0	0		G	72297649	G	G	72297649	3	3	27	1	0	0	0	0	1	0	0	0	8236	391	14	3	1348	3	KIAA1274	10	72297649	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6482	72297649	63237098	4709	27060											
SLC29A3	55315	broad.mit.edu	37	chr10	73082559	73082559	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacagttcaaactccacCtacagaaccacaagcagcag	16	4	6	15	0	1	1	1	0	0	1	2	1	2	1	3	0	6	4	3	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:73082559C>A	uc001jrr.3	+	2	105	c.48C>A	c.(46-48)ACC>ACA	p.T16T	SLC29A3_uc001jrs.3_Silent_p.T16T|SLC29A3_uc010qjq.1_5'UTR|SLC29A3_uc001jrt.3_5'UTR|SLC29A3_uc001jru.3_Intron	NM_018344	NP_060814	Q9BZD2	S29A3_HUMAN	solute carrier family 29 (nucleoside	16	Cytoplasmic (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to membrane|late endosome membrane|lysosomal membrane	nucleoside transmembrane transporter activity				0						CAAACTCCACCTACAGAACCA	0.592													23	170					8.24728e-16	9.21704e-16	1	1	0		A	73082559	A	A	73082559	2	1	27	1	0	0	0	0	0	0	0	1	14561	668	24	5		5	SLC29A3	10	73082559	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	784910	73082559	62452188	4710	27061											
CDH23	64072	broad.mit.edu	37	chr10	73377101	73377101	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatcactgagctggcacAggtcggctttgcccttccac	6	9	11	15	1	1	1	1	1	0	0	3	1	2	1	3	4	2	3	3	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:73377101A>G	uc001jrx.3	+	11	1462	c.1085A>G	c.(1084-1086)CAG>CGG	p.Q362R	CDH23_uc001jrw.3_Missense_Mutation_p.Q362R|CDH23_uc009xql.2_Missense_Mutation_p.Q407R	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	362	Cadherin 4.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GAGCTGGCACAGGTCGGCTTT	0.557													3	36					0	0	1	0	0		G	73377101	G	G	73377101	3	3	27	1	0	0	0	0	1	0	0	0	3111	188	7	3	1123	3	CDH23	10	73377101	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	294542	73377101	62157646	4711	27062											
CDH23	64072	broad.mit.edu	37	chr10	73468938	73468938	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggaccgggagaccacaGccgcctacatgctcatcctg	8	6	11	16	2	1	1	1	0	0	1	2	3	2	2	6	2	3	1	6	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:73468938G>A	uc001jrx.3	+	26	3567	c.3190G>A	c.(3190-3192)GCC>ACC	p.A1064T	CDH23_uc001jrz.2_Missense_Mutation_p.A680T	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1064	Cadherin 10.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GGAGACCACAGCCGCCTACAT	0.622													5	71					0	0	1	0	0		A	73468938	A	A	73468938	3	1	27	1	0	0	0	0	1	0	0	0	3111	971	34	2	3599	2	CDH23	10	73468938	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	91837	73468938	62065809	4712	27063											
CDH23	64072	broad.mit.edu	37	chr10	73537513	73537513	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagccccactatgaggTgctgctggatgagggcccag	8	6	14	13	0	0	2	0	2	0	0	0	3	0	3	4	3	4	3	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:73537513T>C	uc001jrx.3	+	37	5299	c.4922T>C	c.(4921-4923)GTG>GCG	p.V1641A		NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1641	Cadherin 16.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CACTATGAGGTGCTGCTGGAT	0.582													4	32					0	0	1	0	0		C	73537513	C	C	73537513	3	2	27	1	0	0	0	0	1	0	0	0	3111	1696	59	3	5417	3	CDH23	10	73537513	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	68575	73537513	61997234	4713	27064											
OIT3	170392	broad.mit.edu	37	chr10	74692183	74692183	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccgctgtgcccagggttgCcaccggcgaatgcgtcgtgg	4	8	15	14	5	0	0	0	0	0	0	2	1	1	0	4	3	3	2	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:74692183C>T	uc001jte.1	+	9	1757	c.1539C>T	c.(1537-1539)TGC>TGT	p.C513C	OIT3_uc009xqs.1_RNA	NM_152635	NP_689848	Q8WWZ8	OIT3_HUMAN	oncoprotein-induced transcript 3 precursor	513	ZP.					nuclear envelope	calcium ion binding			ovary(2)	2	Prostate(51;0.0198)					CCCAGGGTTGCCACCGGCGAA	0.592													12	123					0	0	1	0	0		T	74692183	T	T	74692183	2	4	27	1	0	0	0	0	0	0	0	1	10868	747	26	2		2	OIT3	10	74692183	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1154670	74692183	60842564	4714	27065											
ZMYND17	118490	broad.mit.edu	37	chr10	75185715	75185715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgaggtgctctgtgaaaagCcagtagctacatctacaccc	11	10	9	11	0	2	2	0	2	2	0	2	2	2	2	2	1	5	3	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:75185715C>T	uc001jud.2	-	5	989	c.923G>A	c.(922-924)GGC>GAC	p.G308D	ZMYND17_uc001juc.2_Missense_Mutation_p.G308D|ZMYND17_uc009xrh.2_Missense_Mutation_p.G331D|ZMYND17_uc009xrg.2_Intron	NM_001024593	NP_001019764	Q4VC12	ZMY17_HUMAN	zinc finger, MYND domain containing 17	308							zinc ion binding			ovary(1)	1	Prostate(51;0.0119)					CTGTGAAAAGCCAGTAGCTAC	0.527													8	44					0	0	1	0	0		T	75185715	T	T	75185715	3	4	27	1	0	0	0	0	1	0	0	0	17734	739	26	2	471	2	ZMYND17	10	75185715	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	493532	75185715	60349032	4715	27066											
PPP3CB	5532	broad.mit.edu	37	chr10	75231343	75231343	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcttccatacaagcttcAtagactctttccgaatactt	13	13	4	11	1	2	1	1	0	1	1	4	2	4	1	2	0	4	2	2	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:75231343A>G	uc001jue.2	-	5	687	c.552T>C	c.(550-552)TAT>TAC	p.Y184Y	PPP3CB_uc001juf.2_Silent_p.Y184Y|PPP3CB_uc001jug.2_Silent_p.Y184Y|PPP3CB_uc001jui.2_Silent_p.Y202Y|PPP3CB_uc001juh.2_Silent_p.Y98Y	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	184	Catalytic.									skin(1)	1	Prostate(51;0.0119)					TACAAGCTTCATAGACTCTTT	0.328													10	93					0	0	1	0	0		G	75231343	G	G	75231343	2	3	27	1	0	0	0	0	0	0	0	1	12420	224	8	3		3	PPP3CB	10	75231343	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	45628	75231343	60303404	4716	27067											
USP54	159195	broad.mit.edu	37	chr10	75260443	75260443	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgggctcccctgccatggTgggcatcaggacatctgggg	6	9	15	11	0	2	0	1	0	1	0	3	1	3	1	3	6	1	2	3	6	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:75260443T>C	uc001juo.2	-	21	4482	c.4465A>G	c.(4465-4467)ACC>GCC	p.T1489A	USP54_uc010qkk.1_Missense_Mutation_p.T624A|USP54_uc001juk.2_Missense_Mutation_p.T577A|USP54_uc001jul.2_Missense_Mutation_p.T530A|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	1489					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					CCTGCCATGGTGGGCATCAGG	0.527													8	124					0	0	1	0	0		C	75260443	C	C	75260443	3	2	27	1	0	0	0	0	1	0	0	0	17111	1696	59	3	597	3	USP54	10	75260443	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	29100	75260443	60274304	4717	27068											
USP54	159195	broad.mit.edu	37	chr10	75331241	75331241	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttgtaagctgcctaaagcTacgtcggaagatatccaagt	13	10	10	8	2	0	1	0	0	0	1	2	2	1	2	2	1	4	4	2	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:75331241T>C	uc001juo.2	-	2	195	c.178A>G	c.(178-180)AGC>GGC	p.S60G	USP54_uc001jup.2_Missense_Mutation_p.S60G|USP54_uc010qkl.1_Missense_Mutation_p.S60G	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	60					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					TGCCTAAAGCTACGTCGGAAG	0.373													7	93					0	0	1	0	0		C	75331241	C	C	75331241	3	2	27	1	0	0	0	0	1	0	0	0	17111	1522	53	3	4960	3	USP54	10	75331241	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	70798	75331241	60203506	4718	27069											
SYNPO2L	79933	broad.mit.edu	37	chr10	75406539	75406539	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttctggtggctgaaaaTcggggcctggctacctggaa	7	10	14	10	1	1	1	0	1	1	0	2	2	1	2	3	6	1	3	3	6	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:75406539T>A	uc001jut.3	-	4	3023	c.2871A>T	c.(2869-2871)CGA>CGT	p.R957R	SYNPO2L_uc001jus.3_Silent_p.R733R	NM_001114133	NP_001107605	Q9H987	SYP2L_HUMAN	synaptopodin 2-like isoform a	957						cytoplasm|cytoskeleton	actin binding			ovary(1)	1	Prostate(51;0.0112)					TGGCTGAAAATCGGGGCCTGG	0.637													7	121					0	0	1	0	0		A	75406539	A	A	75406539	2	1	27	1	0	0	0	0	0	0	0	1	15483	1422	50	5		5	SYNPO2L	10	75406539	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	75298	75406539	60128208	4719	27070											
KIAA0913	23053	broad.mit.edu	37	chr10	75555382	75555382	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgacctggcattagcactAatgatcacttacaaggacga	13	9	10	9	1	1	2	1	2	0	0	1	4	1	3	1	3	2	2	1	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:75555382A>G	uc009xrl.2	+	15	3011	c.2979A>G	c.(2977-2979)CTA>CTG	p.L993L	KIAA0913_uc001jve.2_Silent_p.L998L|KIAA0913_uc001jvf.2_Silent_p.L993L|KIAA0913_uc001jvh.2_RNA|KIAA0913_uc001jvi.2_Silent_p.L421L|KIAA0913_uc010qkr.1_Silent_p.L416L|KIAA0913_uc001jvj.2_Silent_p.L416L	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	993							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					CATTAGCACTAATGATCACTT	0.388													6	65					0	0	1	0	0		G	75555382	G	G	75555382	2	3	27	1	0	0	0	0	0	0	0	1	8216	349	13	3		3	KIAA0913	10	75555382	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	148843	75555382	59979365	4720	27071											
CAMK2G	818	broad.mit.edu	37	chr10	75576871	75576871	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaggcctggatcacaaaTcttcctacagggagaaaaaa	16	7	10	8	0	2	2	1	1	1	1	3	4	3	3	2	3	1	0	2	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:75576871T>C	uc001jvv.1	-	19	1448	c.1324A>G	c.(1324-1326)ATT>GTT	p.I442V	CAMK2G_uc001jvm.1_Missense_Mutation_p.I450V|CAMK2G_uc001jvo.1_Missense_Mutation_p.I421V|CAMK2G_uc001jvq.1_Missense_Mutation_p.I398V|CAMK2G_uc001jvr.1_Missense_Mutation_p.I389V|CAMK2G_uc001jvp.1_Missense_Mutation_p.I412V|CAMK2G_uc001jvs.1_Missense_Mutation_p.I433V|CAMK2G_uc001jvt.1_RNA|CAMK2G_uc001jvu.1_Missense_Mutation_p.I390V|CAMK2G_uc009xrp.1_Missense_Mutation_p.I39V	NM_172171	NP_751911	Q13555	KCC2G_HUMAN	calcium/calmodulin-dependent protein kinase II	452					insulin secretion|interferon-gamma-mediated signaling pathway|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calcium-dependent protein serine/threonine phosphatase activity|calmodulin binding|calmodulin-dependent protein kinase activity			lung(1)|stomach(1)	2	Prostate(51;0.0112)					GGATCACAAATCTTCCTACAG	0.478													7	87					0	0	1	0	0		C	75576871	C	C	75576871	3	2	27	1	0	0	0	0	1	0	0	0	2605	1435	50	3	330	3	CAMK2G	10	75576871	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	21489	75576871	59957876	4721	27072											
VCL	7414	broad.mit.edu	37	chr10	75868743	75868743	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagctaacagatgagctTgctcctcccaaaccacctct	10	12	5	14	0	1	2	0	1	1	1	3	2	3	2	4	0	5	3	4	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:75868743T>C	uc001jwd.2	+	18	2668	c.2574T>C	c.(2572-2574)CTT>CTC	p.L858L	VCL_uc009xrr.2_Silent_p.L607L|VCL_uc010qky.1_Silent_p.L765L|VCL_uc001jwe.2_Silent_p.L858L|VCL_uc010qkz.1_Intron	NM_014000	NP_054706	P18206	VINC_HUMAN	vinculin isoform meta-VCL	858	Linker (Pro-rich).|Pro-rich.				adherens junction assembly|apical junction assembly|cell-matrix adhesion|cellular component movement|epithelial cell-cell adhesion|lamellipodium assembly|morphogenesis of an epithelium|muscle contraction|negative regulation of cell migration|platelet activation|platelet degranulation|protein localization at cell surface	costamere|cytosol|extracellular region|focal adhesion	actin binding|alpha-catenin binding|beta-catenin binding|beta-dystroglycan binding|cadherin binding|structural molecule activity		VCL/ALK(4)	kidney(4)|ovary(1)|central_nervous_system(1)	6	Prostate(51;0.0112)					CAGATGAGCTTGCTCCTCCCA	0.488													10	85					0	0	1	0	0		C	75868743	C	C	75868743	2	2	27	1	0	0	0	0	0	0	0	1	17165	1799	63	3		3	VCL	10	75868743	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	291872	75868743	59666004	4722	27073											
SAMD8	142891	broad.mit.edu	37	chr10	76924444	76924444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgccatgacggaagtatGtggcatgattctgtgctata	9	14	11	7	1	1	2	0	2	1	0	1	3	1	3	1	2	2	3	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:76924444G>A	uc001jwx.1	+	3	723	c.620G>A	c.(619-621)TGT>TAT	p.C207Y	SAMD8_uc001jwy.1_Missense_Mutation_p.C207Y	NM_144660	NP_653261	Q96LT4	SAMD8_HUMAN	sterile alpha motif domain containing 8	207	Helical; (Potential).				sphingomyelin biosynthetic process	integral to membrane					0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					ACGGAAGTATGTGGCATGATT	0.408													5	120					0	0	1	0	0		A	76924444	A	A	76924444	3	1	27	1	0	0	0	0	1	0	0	0	13850	1377	48	4	626	4	SAMD8	10	76924444	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1055701	76924444	58610303	4723	27074											
DLG5	9231	broad.mit.edu	37	chr10	79556266	79556266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagcatctccttcaccaCgtccagcaaaggccccagaa	12	5	6	18	1	2	1	1	0	1	1	4	1	3	1	6	1	2	2	6	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:79556266C>T	uc001jzk.2	-	28	5321	c.5251G>A	c.(5251-5253)GTG>ATG	p.V1751M	DLG5_uc001jzi.2_Missense_Mutation_p.V506M|DLG5_uc001jzj.2_Missense_Mutation_p.V1166M|DLG5_uc009xru.1_RNA	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1751	Guanylate kinase-like.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			TCCTTCACCACGTCCAGCAAA	0.597													5	54					0	0	1	0	0		T	79556266	T	T	79556266	3	4	27	1	0	0	0	0	1	0	0	0	4564	536	19	1	528	1	DLG5	10	79556266	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2631822	79556266	55978481	4724	27075											
DLG5	9231	broad.mit.edu	37	chr10	79569349	79569349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggccgtcaggacccttggCaggactgtcatcctccacct	7	8	11	15	1	2	0	2	0	0	0	4	3	4	2	5	4	0	1	5	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:79569349C>T	uc001jzk.2	-	24	4673	c.4603G>A	c.(4603-4605)GCC>ACC	p.A1535T	DLG5_uc001jzi.2_Missense_Mutation_p.A290T|DLG5_uc001jzj.2_Missense_Mutation_p.A950T|DLG5_uc009xru.1_RNA	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1535	PDZ 4.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			GGACCCTTGGCAGGACTGTCA	0.602													14	137					0	0	1	0	0		T	79569349	T	T	79569349	3	4	27	1	0	0	0	0	1	0	0	0	4564	710	25	2	1192	2	DLG5	10	79569349	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13083	79569349	55965398	4725	27076											
POLR3A	11128	broad.mit.edu	37	chr10	79761991	79761991	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatggtgagggggctgtTgctcttgtccagctcccgga	5	10	15	11	1	1	1	0	1	1	0	3	2	3	2	3	4	3	4	3	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:79761991T>C	uc001jzn.2	-	17	2417	c.2323A>G	c.(2323-2325)AAC>GAC	p.N775D		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	775					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			AGGGGGCTGTTGCTCTTGTCC	0.592													4	21					0	0	1	0	0		C	79761991	C	C	79761991	3	2	27	1	0	0	0	0	1	0	0	0	12247	1812	63	3	1909	3	POLR3A	10	79761991	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	192642	79761991	55772756	4726	27077											
POLR3A	11128	broad.mit.edu	37	chr10	79773500	79773500	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagtcagcattatagggtgTacagacacactcattaaatc	16	10	7	8	0	2	1	2	0	0	1	3	1	2	1	0	1	2	2	0	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:79773500T>C	uc001jzn.2	-	11	1574	c.1480A>G	c.(1480-1482)ACA>GCA	p.T494A		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	494					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			TTATAGGGTGTACAGACACAC	0.448													10	116					0	0	1	0	0		C	79773500	C	C	79773500	3	2	27	1	0	0	0	0	1	0	0	0	12247	1638	57	3	2776	3	POLR3A	10	79773500	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	11509	79773500	55761247	4727	27078											
ZMIZ1	57178	broad.mit.edu	37	chr10	80968104	80968104	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccacagcacttacagaaTcctgccaacttccacaatgc	12	9	4	16	0	0	1	0	0	0	1	3	1	3	1	4	0	5	1	4	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:80968104T>A	uc001kaf.2	+	6	644	c.72T>A	c.(70-72)AAT>AAA	p.N24K	ZMIZ1_uc001kae.2_Missense_Mutation_p.N24K	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	24					transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			ACTTACAGAATCCTGCCAACT	0.622													4	57					0	0	1	0	0		A	80968104	A	A	80968104	3	1	27	1	0	0	0	0	1	0	0	0	17721	1432	50	5	78	5	ZMIZ1	10	80968104	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1194604	80968104	54566643	4728	27079											
DYDC2	84332	broad.mit.edu	37	chr10	82126469	82126469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttctgaaactgtttccaCgaagaagaccatattcatgc	13	11	7	10	1	2	3	1	1	1	2	3	5	3	3	2	0	2	1	2	0	4	4	rs142842576		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:82126469C>T	uc001kca.1	+	5	676	c.296C>T	c.(295-297)ACG>ATG	p.T99M	DYDC2_uc001kbz.1_RNA|DYDC2_uc001kcb.1_Missense_Mutation_p.T99M	NM_032372	NP_115748	Q96IM9	DYDC2_HUMAN	DPY30 domain containing 2	99							protein binding				0			Colorectal(32;0.229)			ACTGTTTCCACGAAGAAGACC	0.418													11	154					0	0	1	0	0		T	82126469	T	T	82126469	3	4	27	1	0	0	0	0	1	0	0	0	4845	536	19	1	306	1	DYDC2	10	82126469	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1158365	82126469	53408278	4729	27080											
CDHR1	92211	broad.mit.edu	37	chr10	85970802	85970802	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaagttcagttccacaGcggatgttgtgatccagctc	10	10	11	10	1	1	2	1	1	0	1	4	4	3	3	2	1	2	4	2	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:85970802G>T	uc001kcv.2	+	13	1366	c.1366G>T	c.(1366-1368)GCG>TCG	p.A456S	CDHR1_uc001kcw.2_Missense_Mutation_p.A456S|CDHR1_uc009xst.2_Intron|CDHR1_uc001kcx.2_5'Flank	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	456	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						CAGTTCCACAGCGGATGTTGT	0.562													17	157					4.14922e-12	4.61121e-12	1	1	0		T	85970802	T	T	85970802	3	4	27	1	0	0	0	0	1	0	0	0	3121	971	34	5	1416	5	CDHR1	10	85970802	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3844333	85970802	49563945	4730	27081											
CDHR1	92211	broad.mit.edu	37	chr10	85973041	85973041	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccctagaggtgcaggccaaGgaccggggctccccatcctt	7	7	12	15	1	0	1	0	0	0	1	3	2	3	2	6	5	1	2	6	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:85973041G>T	uc001kcv.2	+	16	1977	c.1977G>T	c.(1975-1977)AAG>AAT	p.K659N	CDHR1_uc001kcw.2_Missense_Mutation_p.K659N|CDHR1_uc009xst.2_Missense_Mutation_p.K363N|CDHR1_uc001kcx.2_Translation_Start_Site	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	659	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						TGCAGGCCAAGGACCGGGGCT	0.567													11	121					3.86212e-05	4.11225e-05	1	1	0		T	85973041	T	T	85973041	3	4	27	1	0	0	0	0	1	0	0	0	3121	991	35	5	2039	5	CDHR1	10	85973041	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2239	85973041	49561706	4731	27082											
GRID1	2894	broad.mit.edu	37	chr10	87373349	87373349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcacagcggcccatgtgcgGccaccacttctgcttcagca	7	8	10	16	2	3	0	2	0	1	0	3	0	3	0	3	2	4	2	3	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:87373349G>A	uc001kdl.1	-	15	2517	c.2416C>T	c.(2416-2418)CCG>TCG	p.P806S	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.P377S	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	806	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CCCATGTGCGGCCACCACTTC	0.602										Multiple Myeloma(13;0.14)			7	74					0	0	1	0	0		A	87373349	A	A	87373349	3	1	27	1	0	0	0	0	1	0	0	0	6787	1203	42	2	621	2	GRID1	10	87373349	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1400308	87373349	48161398	4732	27083											
MMRN2	79812	broad.mit.edu	37	chr10	88703005	88703005	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtctcctccagggcacgCgtggcgtccctctggccctc	2	9	13	17	3	2	0	0	0	2	0	6	0	4	0	4	4	0	1	4	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:88703005C>T	uc001kea.2	-	6	1663	c.1536G>A	c.(1534-1536)ACG>ACA	p.T512T	MMRN2_uc010qmn.1_Silent_p.T155T|MMRN2_uc009xtb.2_Silent_p.T469T	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	512						extracellular space				large_intestine(1)	1						CCAGGGCACGCGTGGCGTCCC	0.657													16	38					0	0	1	0	0		T	88703005	T	T	88703005	2	4	27	1	0	0	0	0	0	0	0	1	9689	755	27	1		1	MMRN2	10	88703005	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1329656	88703005	46831742	4733	27084											
MMRN2	79812	broad.mit.edu	37	chr10	88703232	88703232	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcgccgtgtggttcacctGcagctcctccacctgccgct	4	9	11	17	3	1	0	1	0	0	0	3	1	3	0	6	1	4	4	6	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:88703232G>A	uc001kea.2	-	6	1436	c.1309C>T	c.(1309-1311)CAG>TAG	p.Q437*	MMRN2_uc010qmn.1_Nonsense_Mutation_p.Q80*|MMRN2_uc009xtb.2_Nonsense_Mutation_p.Q394*	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	437	Potential.					extracellular space				large_intestine(1)	1						TGGTTCACCTGCAGCTCCTCC	0.587													5	74					0	0	1	0	0		A	88703232	A	A	88703232	4	1	27	1	0	0	0	0	0	1	0	0	9689	1328	46	2	1548	2	MMRN2	10	88703232	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	227	88703232	46831515	4734	27085											
MMRN2	79812	broad.mit.edu	37	chr10	88705404	88705404	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctctgttttgcaaagagcTagtaaggtgaccagcttgga	10	13	11	7	0	1	2	0	1	1	1	2	3	1	3	1	2	3	5	1	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:88705404T>C	uc001kea.2	-	2	334	c.207A>G	c.(205-207)CTA>CTG	p.L69L	MMRN2_uc010qmn.1_5'UTR|MMRN2_uc009xtb.2_Intron	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	69	EMI.					extracellular space				large_intestine(1)	1						TGCAAAGAGCTAGTAAGGTGA	0.552													4	28					0	0	1	0	0		C	88705404	C	C	88705404	2	2	27	1	0	0	0	0	0	0	0	1	9689	1509	53	3		3	MMRN2	10	88705404	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2172	88705404	46829343	4735	27086											
GLUD1	2746	broad.mit.edu	37	chr10	88817455	88817455	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccacactcaccgatatcCtgtcttggaactctgccgtg	8	11	7	15	2	4	0	2	0	2	0	5	2	5	1	4	1	2	0	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:88817455C>A	uc001keh.2	-	11	1584	c.1487G>T	c.(1486-1488)AGG>ATG	p.R496M	GLUD1_uc001keg.2_Missense_Mutation_p.R329M|GLUD1_uc010qmp.1_Missense_Mutation_p.R363M	NM_005271	NP_005262	P00367	DHE3_HUMAN	glutamate dehydrogenase 1 precursor	496					glutamate biosynthetic process|glutamate catabolic process|positive regulation of insulin secretion	mitochondrial matrix	ADP binding|ATP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|identical protein binding|leucine binding|NAD+ binding				0					L-Glutamic Acid(DB00142)|NADH(DB00157)	CACCGATATCCTGTCTTGGAA	0.443													8	132					7.48243e-07	8.13385e-07	1	1	0		A	88817455	A	A	88817455	3	1	27	1	0	0	0	0	1	0	0	0	6491	681	24	5	201	5	GLUD1	10	88817455	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	112051	88817455	46717292	4736	27087											
MINPP1	9562	broad.mit.edu	37	chr10	89312069	89312069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactcctaaagaacaattccGagtgcagatgttattaaatg	15	11	8	7	1	0	2	0	0	0	2	2	4	2	2	2	0	2	2	2	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:89312069G>A	uc001keu.2	+	5	1748	c.1298G>A	c.(1297-1299)CGA>CAA	p.R433Q	MINPP1_uc009xtf.1_RNA|MINPP1_uc001kev.2_3'UTR	NM_004897	NP_004888	Q9UNW1	MINP1_HUMAN	multiple inositol polyphosphate histidine	433					bone mineralization|polyphosphate metabolic process	endoplasmic reticulum lumen	acid phosphatase activity|bisphosphoglycerate 3-phosphatase activity|multiple inositol-polyphosphate phosphatase activity|phosphohistidine phosphatase activity			urinary_tract(1)	1		Colorectal(252;0.122)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00123)		GAACAATTCCGAGTGCAGATG	0.388													8	90					0	0	1	0	0		A	89312069	A	A	89312069	3	1	27	1	0	0	0	0	1	0	0	0	9606	1058	37	1	1354	1	MINPP1	10	89312069	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	494614	89312069	46222678	4737	27088											
PAPSS2	9060	broad.mit.edu	37	chr10	89469058	89469058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggttccgaggatgtaccGtgtggctaacaggtatgtca	8	11	15	7	2	1	0	1	0	0	0	2	2	2	1	2	4	2	4	2	4	3	4	rs142362349		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:89469058G>A	uc001kex.2	+	2	396	c.133G>A	c.(133-135)GTG>ATG	p.V45M	PAPSS2_uc001kew.2_Missense_Mutation_p.V45M|PAPSS2_uc009xtg.1_RNA	NM_004670	NP_004661	O95340	PAPS2_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase 2	45	Adenylyl-sulfate kinase.				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|protein binding|sulfate adenylyltransferase (ATP) activity			central_nervous_system(1)|skin(1)	2		Melanoma(5;0.019)|Colorectal(252;0.123)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00164)|Colorectal(12;0.000323)|COAD - Colon adenocarcinoma(12;0.00124)		AGGATGTACCGTGTGGCTAAC	0.408													6	45					0	0	1	0	0		A	89469058	A	A	89469058	3	1	27	1	0	0	0	0	1	0	0	0	11454	1145	40	1	139	1	PAPSS2	10	89469058	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	156989	89469058	46065689	4738	27089											
PTEN	5728	broad.mit.edu	37	chr10	89653818	89653818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattgctatgggatttcctgCagaaagacttgaaggcgtat	11	13	11	6	1	0	3	0	1	0	2	1	4	1	4	1	2	2	3	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:89653818C>T	uc001kfb.2	+	3	1147	c.116C>T	c.(115-117)GCA>GTA	p.A39V		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	39	Phosphatase tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(4)|p.Y27_N212>Y(2)|p.Y27fs*1(2)|p.A39fs*5(1)|p.A39T(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		GGATTTCCTGCAGAAAGACTT	0.294		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			4	61					0	0	1	0	0		T	89653818	T	T	89653818	3	4	27	1	0	0	0	0	1	0	0	0	12760	710	25	2	122	2	PTEN	10	89653818	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	184760	89653818	45880929	4739	27090											
PTEN	5728	broad.mit.edu	37	chr10	89685303	89685303	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagcataaaaaccattacaaGatatacaatctgtaagtatg	20	10	5	6	0	1	1	0	0	1	1	1	1	1	1	1	0	4	3	1	0	11	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:89685303G>A	uc001kfb.2	+	4	1229	c.198G>A	c.(196-198)AAG>AAA	p.K66K		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	66	Phosphatase tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(4)|p.R55fs*1(4)|p.K66N(3)|p.K66E(2)|p.Y27fs*1(2)|p.Y27_N212>Y(2)|p.K66fs*38(1)|p.K66Q(1)|p.V54fs*29(1)|p.R55_L70>S(1)|p.F56fs*2(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		ACCATTACAAGATATACAATC	0.279		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			5	41					0	0	1	0	0		A	89685303	A	A	89685303	2	1	27	1	0	0	0	0	0	0	0	1	12760	933	33	4		4	PTEN	10	89685303	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31485	89685303	45849444	4740	27091											
PTEN	5728	broad.mit.edu	37	chr10	89692811	89692811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accataacccaccacagctaGaacttatcaaacccttttgt	14	10	3	14	0	1	1	1	0	0	1	1	1	1	1	4	0	4	1	4	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:89692811G>A	uc001kfb.2	+	6	1326	c.295G>A	c.(295-297)GAA>AAA	p.E99K		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	99	Phosphatase tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.R55fs*1(4)|p.E99*(3)|p.?(2)|p.Y27fs*1(2)|p.Y27_N212>Y(2)|p.H93fs*5(1)|p.E99fs*15(1)|p.F56fs*2(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		ACCACAGCTAGAACTTATCAA	0.363		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			6	91					0	0	1	0	0		A	89692811	A	A	89692811	3	1	27	1	0	0	0	0	1	0	0	0	12760	943	33	4	313	4	PTEN	10	89692811	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7508	89692811	45841936	4741	27092											
PTEN	5728	broad.mit.edu	37	chr10	89692895	89692895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaattcactgtaaagctGgaaagggacgaactggtgta	14	8	12	7	1	1	0	1	0	0	0	1	3	1	2	0	3	3	4	0	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:89692895G>A	uc001kfb.2	+	6	1410	c.379G>A	c.(379-381)GGA>AGA	p.G127R		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	127	Phosphatase tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.R55fs*1(4)|p.G127E(3)|p.?(2)|p.Y27fs*1(2)|p.Y27_N212>Y(2)|p.A121_F145del(1)|p.G127fs*5(1)|p.G127V(1)|p.F56fs*2(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		CTGTAAAGCTGGAAAGGGACG	0.408		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			7	122					0	0	1	0	0		A	89692895	A	A	89692895	3	1	27	1	0	0	0	0	1	0	0	0	12760	1349	47	4	397	4	PTEN	10	89692895	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	84	89692895	45841852	4742	27093											
LIPN	643418	broad.mit.edu	37	chr10	90521167	90521167	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgccaggcatttctatgaTgtggctgcttttaacaacaa	11	14	8	8	0	1	1	0	1	1	0	1	1	1	1	1	2	4	3	1	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:90521167T>C	uc010qmw.1	+	1	5	c.5T>C	c.(4-6)ATG>ACG	p.M2T		NM_001102469	NP_001095939	Q5VXI9	LIPN_HUMAN	lipase-like, ab-hydrolase domain containing 4	2					lipid catabolic process	extracellular region	hydrolase activity				0		Colorectal(252;0.0161)		Colorectal(12;4.83e-05)|COAD - Colon adenocarcinoma(12;6.5e-05)		ATTTCTATGATGTGGCTGCTT	0.299													4	115					0	0	1	0	0		C	90521167	C	C	90521167	3	2	27	1	0	0	0	0	1	0	0	0	8845	1464	51	3	7	3	LIPN	10	90521167	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	828272	90521167	45013580	4743	27094											
CH25H	9023	broad.mit.edu	37	chr10	90966740	90966740	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcgggcccaatgcagcaGcgtcacggggaacacaaaca	12	3	13	13	3	1	0	1	0	0	0	1	1	1	1	1	3	6	3	1	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:90966740G>A	uc001kfz.2	-	1	332	c.310C>T	c.(310-312)CTG>TTG	p.L104L		NM_003956	NP_003947	O95992	CH25H_HUMAN	cholesterol 25-hydroxylase	104	Helical; (Potential).				bile acid biosynthetic process|fatty acid biosynthetic process|sterol biosynthetic process	cytosol|endoplasmic reticulum membrane|integral to membrane	cholesterol 25-hydroxylase activity|iron ion binding				0		Colorectal(252;0.0161)		GBM - Glioblastoma multiforme(2;0.000133)		CAATGCAGCAGCGTCACGGGG	0.622													10	27					0	0	1	0	0		A	90966740	A	A	90966740	2	1	27	1	0	0	0	0	0	0	0	1	3310	962	34	2		2	CH25H	10	90966740	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	445573	90966740	44568007	4744	27095											
IFIT2	3433	broad.mit.edu	37	chr10	91066414	91066414	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggaaggtgaaggagagaAgttagttgaagaagccttgg	15	7	17	2	0	0	5	0	2	0	3	0	8	0	7	1	4	1	2	1	4	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:91066414A>G	uc009xts.2	+	2	876	c.701A>G	c.(700-702)AAG>AGG	p.K234R	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron	NM_001547	NP_001538	P09913	IFIT2_HUMAN	interferon-induced protein with	234					negative regulation of protein binding|response to virus|type I interferon-mediated signaling pathway		protein binding			ovary(1)|skin(1)	2		Colorectal(252;0.0161)				GAAGGAGAGAAGTTAGTTGAA	0.468													14	74					0	0	1	0	0		G	91066414	G	G	91066414	3	3	27	1	0	0	0	0	1	0	0	0	7539	72	3	3	707	3	IFIT2	10	91066414	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	99674	91066414	44468333	4745	27096											
KIF20B	9585	broad.mit.edu	37	chr10	91469715	91469715	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaactacacagaaggaatTctttcagggttgcattatgc	13	11	9	8	0	2	1	1	0	1	1	2	2	2	2	0	2	5	3	0	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:91469715T>G	uc001kgs.1	+	5	455	c.383T>G	c.(382-384)TTC>TGC	p.F128C	KIF20B_uc001kgr.1_Missense_Mutation_p.F128C	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	128	Kinesin-motor.				cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						CAGAAGGAATTCTTTCAGGGT	0.348													4	98					0	0	1	0	0		G	91469715	G	G	91469715	3	3	27	1	0	0	0	0	1	0	0	0	8303	1783	62	5	397	5	KIF20B	10	91469715	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	403301	91469715	44065032	4746	27097											
HTR7	3363	broad.mit.edu	37	chr10	92502258	92502258	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaatcatgaatcatgaccTttttttctacagtagtcagc	11	16	5	9	0	5	2	4	2	1	0	5	2	5	2	1	0	2	1	1	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:92502258T>C	uc001kha.2	-	4	1664	c.1421A>G	c.(1420-1422)AAG>AGG	p.K474R	HTR7_uc001kgz.2_Silent_p.K441K|HTR7_uc001khb.2_3'UTR	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	474	Cytoplasmic (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	AATCATGACCTTTTTTTCTAC	0.328													7	50					0	0	1	0	0		C	92502258	C	C	92502258	3	2	27	1	0	0	0	0	1	0	0	0	7468	1609	56	3	22	3	HTR7	10	92502258	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1032543	92502258	43032489	4747	27098											
RPP30	10556	broad.mit.edu	37	chr10	92656116	92656116	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacgccaaggctgcggtgTccaccaactgccgagcagcg	8	5	14	14	4	0	1	0	1	0	0	1	2	1	1	4	2	5	2	4	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:92656116T>C	uc009xtx.2	+	10	699	c.664T>C	c.(664-666)TCC>CCC	p.S222P	RPP30_uc001khd.2_Missense_Mutation_p.S222P	NM_006413	NP_006404	P78346	RPP30_HUMAN	ribonuclease P/MRP 30kDa subunit isoform b	222					tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity				0						GGCTGCGGTGTCCACCAACTG	0.493													4	73					0	0	1	0	0		C	92656116	C	C	92656116	3	2	27	1	0	0	0	0	1	0	0	0	13637	1667	58	3	702	3	RPP30	10	92656116	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	153858	92656116	42878631	4748	27099											
HECTD2	143279	broad.mit.edu	37	chr10	93242786	93242786	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacttgctacgacagatagcTaccttagtggaagctgacca	12	9	9	11	1	0	2	0	1	0	1	0	4	0	3	2	1	5	3	2	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:93242786T>C	uc001khl.2	+	8	874	c.774T>C	c.(772-774)GCT>GCC	p.A258A	LOC100188947_uc010qnl.1_Intron|HECTD2_uc010qnm.1_Silent_p.A258A|HECTD2_uc001khm.2_RNA|HECTD2_uc009xty.1_5'UTR|HECTD2_uc001khn.1_5'Flank	NM_182765	NP_877497	Q5U5R9	HECD2_HUMAN	HECT domain containing 2 isoform a	258					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			skin(1)	1						GACAGATAGCTACCTTAGTGG	0.313													4	56					0	0	1	0	0		C	93242786	C	C	93242786	2	2	27	1	0	0	0	0	0	0	0	1	7056	1509	53	3		3	HECTD2	10	93242786	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	586670	93242786	42291961	4749	27100											
PPP1R3C	5507	broad.mit.edu	37	chr10	93390605	93390605	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacttgtcaaaggacgtggAtctaaaacctggatcattct	13	11	9	8	1	4	0	2	0	2	0	4	4	4	3	1	3	2	0	1	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:93390605A>T	uc001kho.2	-	2	165	c.33T>A	c.(31-33)GAT>GAA	p.D11E		NM_005398	NP_005389	Q9UQK1	PPR3C_HUMAN	protein phosphatase 1, regulatory (inhibitor)	11							protein serine/threonine phosphatase activity			breast(1)	1		Colorectal(252;0.235)				AAGGACGTGGATCTAAAACCT	0.473													8	64					0	0	1	0	0		T	93390605	T	T	93390605	3	4	27	1	0	0	0	0	1	0	0	0	12395	330	12	5	924	5	PPP1R3C	10	93390605	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	147819	93390605	42144142	4750	27101											
TNKS2	80351	broad.mit.edu	37	chr10	93602099	93602099	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtcttctcctgataatgtAaattgccgcgatacccaagg	10	13	8	10	2	2	1	0	1	2	0	3	2	2	1	3	1	2	1	3	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:93602099A>G	uc001khp.2	+	16	2307	c.2010A>G	c.(2008-2010)GTA>GTG	p.V670V		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	670					positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				CTGATAATGTAAATTGCCGCG	0.413													9	59					0	0	1	0	0		G	93602099	G	G	93602099	2	3	27	1	0	0	0	0	0	0	0	1	16346	349	13	3		3	TNKS2	10	93602099	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	211494	93602099	41932648	4751	27102											
BTAF1	9044	broad.mit.edu	37	chr10	93711220	93711220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attattacagaagaaacttgGccttaatatgggagaagcaa	17	10	9	5	0	0	3	0	0	0	3	0	4	0	3	1	2	3	1	1	2	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:93711220G>A	uc001khr.2	+	5	559	c.461G>A	c.(460-462)GGC>GAC	p.G154D	BTAF1_uc009xua.1_RNA	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	154					negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				AAGAAACTTGGCCTTAATATG	0.363													14	46					0	0	1	0	0		A	93711220	A	A	93711220	3	1	27	1	0	0	0	0	1	0	0	0	1539	1203	42	2	479	2	BTAF1	10	93711220	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	109121	93711220	41823527	4752	27103											
BTAF1	9044	broad.mit.edu	37	chr10	93740222	93740222	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttttcagaactcttcatcTtggcttatacctatactgcc	8	17	5	11	0	4	1	2	0	2	1	4	1	4	1	2	1	4	2	2	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:93740222T>G	uc001khr.2	+	15	1760	c.1662T>G	c.(1660-1662)TCT>TCG	p.S554S	BTAF1_uc001khs.1_Silent_p.S224S|BTAF1_uc001kht.1_5'UTR	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	554	HEAT 4.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				ACTCTTCATCTTGGCTTATAC	0.353													10	75					0	0	1	0	0		G	93740222	G	G	93740222	2	3	27	1	0	0	0	0	0	0	0	1	1539	1596	56	5		5	BTAF1	10	93740222	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	29002	93740222	41794525	4753	27104											
KIF11	3832	broad.mit.edu	37	chr10	94373156	94373156	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatcttgcaggaagtgaaaAcattggccgttctggagctg	10	11	13	7	1	2	2	0	2	2	0	2	4	2	4	1	3	3	3	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:94373156A>G	uc001kic.2	+	8	1120	c.812A>G	c.(811-813)AAC>AGC	p.N271S	KIF11_uc010qnq.1_Intron	NM_004523	NP_004514	P52732	KIF11_HUMAN	kinesin family member 11	271	Kinesin-motor.				blood coagulation|cell division|microtubule-based movement|spindle assembly involved in mitosis	chromatin remodeling complex|cytosol|kinesin complex|microtubule|spindle pole	ATP binding|microtubule motor activity|protein kinase binding			skin(1)	1						GGAAGTGAAAACATTGGCCGT	0.368													9	25					0	0	1	0	0		G	94373156	G	G	94373156	3	3	27	1	0	0	0	0	1	0	0	0	8288	43	2	3	842	3	KIF11	10	94373156	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	632934	94373156	41161591	4754	27105											
EXOC6	54536	broad.mit.edu	37	chr10	94688101	94688101	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgattttattttagggtgaCgaggaaacatttgaaaacta	14	14	9	4	1	0	3	0	3	0	0	0	5	0	4	0	2	2	0	0	2	6	6	rs75784691	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:94688101C>T	uc001kig.2	+	9	960	c.894C>T	c.(892-894)GAC>GAT	p.D298D	EXOC6_uc010qnr.1_Silent_p.D314D|EXOC6_uc001kie.2_Silent_p.D293D|EXOC6_uc009xub.2_Silent_p.D298D|EXOC6_uc009xuc.2_Silent_p.D275D|EXOC6_uc001kih.2_RNA	NM_019053	NP_061926	Q8TAG9	EXOC6_HUMAN	SEC15-like 1 isoform a	298					protein transport|vesicle docking involved in exocytosis	exocyst				skin(1)	1		Colorectal(252;0.123)				TTTAGGGTGACGAGGAAACAT	0.333													7	78					0	0	1	0	0		T	94688101	T	T	94688101	2	4	27	1	0	0	0	0	0	0	0	1	5316	535	19	1		1	EXOC6	10	94688101	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	314945	94688101	40846646	4755	27106											
CYP26C1	340665	broad.mit.edu	37	chr10	94822706	94822706	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcgagcagctcgtggagaAcctcttctcactgcctctgg	6	11	10	14	2	3	1	1	0	3	1	6	3	3	1	2	2	4	2	2	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:94822706A>G	uc010qns.1	+	3	659	c.659A>G	c.(658-660)AAC>AGC	p.N220S	CYP26C1_uc009xud.2_RNA	NM_183374	NP_899230	Q6V0L0	CP26C_HUMAN	cytochrome P450, family 26, subfamily C,	220					anterior/posterior pattern formation|central nervous system development|negative regulation of retinoic acid receptor signaling pathway|neural crest cell development|organelle fusion|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			central_nervous_system(1)	1		Colorectal(252;0.122)				CTCGTGGAGAACCTCTTCTCA	0.711													5	50					0	0	1	0	0		G	94822706	G	G	94822706	3	3	27	1	0	0	0	0	1	0	0	0	4160	43	2	3	669	3	CYP26C1	10	94822706	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	134605	94822706	40712041	4756	27107											
MYOF	26509	broad.mit.edu	37	chr10	95110997	95110997	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcctgatcccctgggggAccatgtatagatttggcgcc	7	9	13	12	1	0	2	0	1	0	1	1	3	1	3	5	4	0	1	5	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:95110997A>G	uc001kin.2	-	35	4001	c.3878T>C	c.(3877-3879)GTC>GCC	p.V1293A	MYOF_uc001kio.2_Missense_Mutation_p.V1280A|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1293	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						CCCCTGGGGGACCATGTATAG	0.512													5	39					0	0	1	0	0		G	95110997	G	G	95110997	3	3	27	1	0	0	0	0	1	0	0	0	10107	275	10	3	2387	3	MYOF	10	95110997	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	288291	95110997	40423750	4757	27108											
MYOF	26509	broad.mit.edu	37	chr10	95119640	95119640	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atctttcttgcgttttcggaCcagccttcgccgtctatgag	5	15	9	12	4	3	1	0	1	3	0	5	2	3	2	3	1	2	1	3	1	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:95119640C>A	uc001kin.2	-	29	3193	c.3070G>T	c.(3070-3072)GTC>TTC	p.V1024F	MYOF_uc001kio.2_Missense_Mutation_p.V1011F|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1024	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						CGTTTTCGGACCAGCCTTCGC	0.517													15	129					2.31682e-05	2.47736e-05	1	1	0		A	95119640	A	A	95119640	3	1	27	1	0	0	0	0	1	0	0	0	10107	507	18	5	3219	5	MYOF	10	95119640	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8643	95119640	40415107	4758	27109											
TMEM20	159371	broad.mit.edu	37	chr10	95660549	95660549	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtcaacgaattttcctcAttctcagaggagtccttggt	10	13	9	9	1	3	1	3	0	1	1	6	3	5	2	2	3	1	0	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:95660549A>G	uc001kjg.1	+	3	461	c.400A>G	c.(400-402)ATT>GTT	p.I134V	TMEM20_uc001kji.2_Intron|TMEM20_uc001kjf.1_Missense_Mutation_p.I133V|TMEM20_uc001kjh.2_Intron|TMEM20_uc010qnw.1_Missense_Mutation_p.I117V|TMEM20_uc001kjj.2_Intron	NM_001134658	NP_001128130	Q2M3R5	TMM20_HUMAN	transmembrane protein 20 isoform 1	134	DUF6 1.|Helical; (Potential).					integral to membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;3.46e-05)|Renal(717;0.018)|Ovarian(717;0.0228)|all_hematologic(284;0.189)		STAD - Stomach adenocarcinoma(243;0.00345)		AATTTTCCTCATTCTCAGAGG	0.353													8	89					0	0	1	0	0		G	95660549	G	G	95660549	3	3	27	1	0	0	0	0	1	0	0	0	16147	217	8	3	410	3	TMEM20	10	95660549	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	540909	95660549	39874198	4759	27110											
PLCE1	51196	broad.mit.edu	37	chr10	96033402	96033402	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcttccttcacctgaccaActcagaaagaaagttcttct	12	12	5	12	0	4	3	2	1	2	2	5	3	5	3	3	0	2	2	3	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:96033402A>G	uc001kjk.2	+	19	5224	c.4590A>G	c.(4588-4590)CAA>CAG	p.Q1530Q	PLCE1_uc010qnx.1_Silent_p.Q1514Q|PLCE1_uc001kjm.2_Silent_p.Q1222Q	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1530	PI-PLC X-box.				activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				CACCTGACCAACTCAGAAAGA	0.383													6	55					0	0	1	0	0		G	96033402	G	G	96033402	2	3	27	1	0	0	0	0	0	0	0	1	12053	40	2	3		3	PLCE1	10	96033402	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	372853	96033402	39501345	4760	27111											
PLCE1	51196	broad.mit.edu	37	chr10	96084175	96084175	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caagcgactatgtgcttttgGaagaggtggtgaaagacact	12	10	13	6	1	0	3	0	1	0	2	0	5	0	4	0	3	2	1	0	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:96084175G>A	uc001kjk.2	+	31	7205	c.6571G>A	c.(6571-6573)GAA>AAA	p.E2191K	PLCE1_uc010qnx.1_Missense_Mutation_p.E2175K|PLCE1_uc001kjm.2_Missense_Mutation_p.E1883K|PLCE1_uc001kjp.2_Missense_Mutation_p.E549K	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	2191	Ras-associating 2.				activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				TGTGCTTTTGGAAGAGGTGGT	0.448													60	170					0	0	1	0	0		A	96084175	A	A	96084175	3	1	27	1	0	0	0	0	1	0	0	0	12053	1175	41	4	6975	4	PLCE1	10	96084175	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	50773	96084175	39450572	4761	27112											
NOC3L	64318	broad.mit.edu	37	chr10	96109949	96109949	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaatgaggtagtgccaccAacagctcacacaagctcttc	14	8	7	12	0	2	1	1	1	1	0	3	1	2	1	2	1	4	3	2	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:96109949A>G	uc001kjq.1	-	9	1137	c.1049T>C	c.(1048-1050)TTG>TCG	p.L350S	NOC3L_uc009xuk.1_Missense_Mutation_p.L135S	NM_022451	NP_071896	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog	350						nuclear speck|nucleolus	binding			ovary(1)	1		Colorectal(252;0.0897)				TAGTGCCACCAACAGCTCACA	0.403													13	135					0	0	1	0	0		G	96109949	G	G	96109949	3	3	27	1	0	0	0	0	1	0	0	0	10533	131	5	3	1405	3	NOC3L	10	96109949	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	25774	96109949	39424798	4762	27113											
HELLS	3070	broad.mit.edu	37	chr10	96313922	96313922	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagagtcgacagaaattcggTaccgtagacttcaacatttg	13	10	10	8	3	1	3	1	0	0	3	3	5	1	3	1	1	2	2	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:96313922T>C	uc001kjt.2	+	3	298	c.193T>C	c.(193-195)TAC>CAC	p.Y65H	HELLS_uc001kjs.2_Missense_Mutation_p.Y49H|HELLS_uc009xul.2_Missense_Mutation_p.Y65H|HELLS_uc009xum.2_Missense_Mutation_p.Y65H|HELLS_uc009xun.2_5'UTR|HELLS_uc009xuo.2_Missense_Mutation_p.Y65H|HELLS_uc001kju.2_5'UTR|HELLS_uc009xup.2_RNA|HELLS_uc009xuq.2_5'UTR|HELLS_uc009xur.2_RNA	NM_018063	NP_060533	Q9NRZ9	HELLS_HUMAN	helicase, lymphoid-specific	65	Potential.				cell division|centromeric heterochromatin formation|lymphocyte proliferation|maintenance of DNA methylation|methylation-dependent chromatin silencing|mitosis|transcription, DNA-dependent	centromeric heterochromatin|nucleus	ATP binding|DNA binding|helicase activity			ovary(1)|kidney(1)	2		Colorectal(252;0.0429)		all cancers(201;2.13e-05)		AGAAATTCGGTACCGTAGACT	0.338													7	105					0	0	1	0	0		C	96313922	C	C	96313922	3	2	27	1	0	0	0	0	1	0	0	0	7062	1638	57	3	203	3	HELLS	10	96313922	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	203973	96313922	39220825	4763	27114											
CYP2C19	1557	broad.mit.edu	37	chr10	96535189	96535189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagatggaaggagatccggcGtttctccctcatgacgctgc	8	9	13	11	3	2	3	1	1	1	2	4	6	3	4	2	3	1	2	2	3	1	1	rs141774245	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:96535189G>A	uc010qnz.1	+	3	374	c.374G>A	c.(373-375)CGT>CAT	p.R125H	CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Missense_Mutation_p.R103H	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	125					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	GAGATCCGGCGTTTCTCCCTC	0.507													10	99					0	0	1	0	0		A	96535189	A	A	96535189	3	1	27	1	0	0	0	0	1	0	0	0	4169	1145	40	1	384	1	CYP2C19	10	96535189	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	221267	96535189	38999558	4764	27115											
CCNJ	54619	broad.mit.edu	37	chr10	97817790	97817790	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaagctgtcagcagattgTatcgaccacacacacctcat	13	8	6	14	1	2	1	2	0	0	1	3	2	2	1	3	0	2	3	3	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:97817790T>C	uc001klm.2	+	6	1270	c.911T>C	c.(910-912)GTA>GCA	p.V304A	uc001klg.1_Intron|uc001klj.1_Intron|uc009xvb.1_Intron|CCNJ_uc010qoq.1_Missense_Mutation_p.V315A|CCNJ_uc001kln.2_Missense_Mutation_p.V303A	NM_019084	NP_061957	Q5T5M9	CCNJ_HUMAN	cyclin J isoform 2	304						nucleus				ovary(1)	1				Epithelial(162;6.1e-08)|all cancers(201;2.32e-06)		CAGCAGATTGTATCGACCACA	0.502													19	157					0	0	1	0	0		C	97817790	C	C	97817790	3	2	27	1	0	0	0	0	1	0	0	0	2931	1638	57	3	962	3	CCNJ	10	97817790	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1282601	97817790	37716957	4765	27116											
CCNJ	54619	broad.mit.edu	37	chr10	97817887	97817887	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cacatgcagactggtgttggGatgtcactggcaataccagt	10	10	12	9	0	1	1	1	0	0	1	1	2	1	2	1	3	2	3	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:97817887G>A	uc001klm.2	+	6	1367	c.1008G>A	c.(1006-1008)GGG>GGA	p.G336G	uc001klg.1_Intron|uc001klj.1_Intron|uc009xvb.1_Intron|CCNJ_uc010qoq.1_Silent_p.G347G|CCNJ_uc001kln.2_Silent_p.G335G	NM_019084	NP_061957	Q5T5M9	CCNJ_HUMAN	cyclin J isoform 2	336						nucleus				ovary(1)	1				Epithelial(162;6.1e-08)|all cancers(201;2.32e-06)		CTGGTGTTGGGATGTCACTGG	0.453													13	122					0	0	1	0	0		A	97817887	A	A	97817887	2	1	27	1	0	0	0	0	0	0	0	1	2931	1161	41	4		4	CCNJ	10	97817887	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	97	97817887	37716860	4766	27117											
DNTT	1791	broad.mit.edu	37	chr10	98087280	98087280	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagggcagaagcagaggcCgtcagtgtgctggttaaaga	12	6	15	8	1	1	3	1	0	0	3	1	3	1	3	2	3	2	4	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:98087280C>T	uc001kmf.2	+	7	1100	c.930C>T	c.(928-930)GCC>GCT	p.A310A	DNTT_uc001kmg.2_Silent_p.A310A	NM_004088	NP_004079	P04053	TDT_HUMAN	terminal deoxynucleotidyltransferase isoform 1	310	Mediates interaction with DNTTIP2.				DNA modification	nucleus	DNA binding|DNA nucleotidylexotransferase activity|DNA-directed DNA polymerase activity|metal ion binding			ovary(1)	1		Colorectal(252;0.0815)|all_hematologic(284;0.224)		Epithelial(162;7.97e-08)|all cancers(201;1.89e-06)		AAGCAGAGGCCGTCAGTGTGC	0.512													44	180					0	0	1	0	0		T	98087280	T	T	98087280	2	4	27	1	0	0	0	0	0	0	0	1	4686	639	23	1		1	DNTT	10	98087280	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	269393	98087280	37447467	4767	27118											
TLL2	7093	broad.mit.edu	37	chr10	98192700	98192700	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccagggctgtgcaggagTgtggtattctcccggccatc	5	10	14	12	1	1	0	0	0	1	0	4	1	2	1	3	4	1	3	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:98192700T>C	uc001kml.1	-	4	610	c.384A>G	c.(382-384)ACA>ACG	p.T128T	TLL2_uc009xvf.1_Intron	NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	128					cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		TGTGCAGGAGTGTGGTATTCT	0.522													8	67					0	0	1	0	0		C	98192700	C	C	98192700	2	2	27	1	0	0	0	0	0	0	0	1	15971	1683	59	3		3	TLL2	10	98192700	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	105420	98192700	37342047	4768	27119											
TM9SF3	56889	broad.mit.edu	37	chr10	98303917	98303917	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgccacacaccatagcTgggataaggaatgccccaat	13	6	10	12	0	0	0	0	0	0	0	0	2	0	2	4	2	3	2	4	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:98303917T>G	uc001kmm.3	-	9	1318	c.1101A>C	c.(1099-1101)CCA>CCC	p.P367P	TM9SF3_uc010qot.1_Silent_p.P367P|TM9SF3_uc001kmn.1_Silent_p.P136P	NM_020123	NP_064508	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3 precursor	367	Helical; (Potential).					integral to membrane	binding				0		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		ACACCATAGCTGGGATAAGGA	0.363													10	44					0	0	1	0	0		G	98303917	G	G	98303917	2	3	27	1	0	0	0	0	0	0	0	1	16004	1567	55	5		5	TM9SF3	10	98303917	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	111217	98303917	37230830	4769	27120											
TM9SF3	56889	broad.mit.edu	37	chr10	98307727	98307727	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcatagacaaatatggctgTactgagcattgatcccctcc	12	10	8	11	0	0	3	0	2	0	1	2	3	2	3	3	1	3	4	3	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:98307727T>C	uc001kmm.3	-	8	1196	c.979A>G	c.(979-981)ACA>GCA	p.T327A	TM9SF3_uc010qot.1_Missense_Mutation_p.T327A|TM9SF3_uc001kmn.1_Missense_Mutation_p.T96A	NM_020123	NP_064508	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3 precursor	327						integral to membrane	binding				0		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		AATATGGCTGTACTGAGCATT	0.338													7	79					0	0	1	0	0		C	98307727	C	C	98307727	3	2	27	1	0	0	0	0	1	0	0	0	16004	1638	57	3	822	3	TM9SF3	10	98307727	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3810	98307727	37227020	4770	27121											
PIK3AP1	118788	broad.mit.edu	37	chr10	98355389	98355389	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggtctccctggtcggaGgcctaaaatgaaagataagg	13	7	14	7	1	1	2	0	1	1	1	3	4	1	4	2	6	0	0	2	6	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:98355389G>T	uc001kmq.2	-	17	2491	c.2363C>A	c.(2362-2364)CCT>CAT	p.P788H	PIK3AP1_uc001kmo.2_Missense_Mutation_p.P387H|PIK3AP1_uc001kmp.2_Missense_Mutation_p.P610H	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	788	Pro-rich.					cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		CCTGGTCGGAGGCCTAAAATG	0.423													7	102					0.0381472	0.0386818	1	1	0		T	98355389	T	T	98355389	3	4	27	1	0	0	0	0	1	0	0	0	11927	1000	35	5	58	5	PIK3AP1	10	98355389	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	47662	98355389	37179358	4771	27122											
PIK3AP1	118788	broad.mit.edu	37	chr10	98416661	98416661	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccttctcgtcctcaggcTcagtgtcagtgactgagtca	8	11	9	13	1	5	2	4	2	1	0	7	2	6	2	2	1	1	1	2	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:98416661T>C	uc001kmq.2	-	3	589	c.461A>G	c.(460-462)GAG>GGG	p.E154G	PIK3AP1_uc001kmp.2_5'UTR	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	154						cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		GTCCTCAGGCTCAGTGTCAGT	0.552													3	60					0	0	1	0	0		C	98416661	C	C	98416661	3	2	27	1	0	0	0	0	1	0	0	0	11927	1551	54	3	2016	3	PIK3AP1	10	98416661	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	61272	98416661	37118086	4772	27123											
LCOR	84458	broad.mit.edu	37	chr10	98714929	98714929	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggattacagaatcatggAcaacacttaatattatccag	15	12	6	8	0	2	1	1	0	1	1	3	3	3	3	1	2	2	0	1	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:98714929A>T	uc001kms.1	+	8	1073	c.552A>T	c.(550-552)GGA>GGT	p.G184G	LCOR_uc001kmr.2_Silent_p.G184G|C10orf12_uc009xvg.1_Intron|LCOR_uc001kmt.1_Silent_p.G184G|LCOR_uc001kmu.1_Silent_p.G184G	NM_032440	NP_115816	Q96JN0	LCOR_HUMAN	ligand dependent nuclear receptor corepressor	184						nucleus	DNA binding			ovary(3)	3		Colorectal(252;0.162)		Epithelial(162;4.43e-09)|all cancers(201;2.96e-07)		AGAATCATGGACAACACTTAA	0.478													6	62					0	0	1	0	0		T	98714929	T	T	98714929	2	4	27	1	0	0	0	0	0	0	0	1	8705	262	10	5		5	LCOR	10	98714929	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	298268	98714929	36819818	4773	27124											
C10orf12	26148	broad.mit.edu	37	chr10	98741550	98741550	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacactcaagaaccaagatgAtatcaacctccatcaagaca	18	6	5	12	0	3	4	3	1	0	3	4	5	4	4	3	0	2	0	3	0	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:98741550A>G	uc001kmv.2	+	1	510	c.403A>G	c.(403-405)ATA>GTA	p.I135V	C10orf12_uc009xvg.1_Missense_Mutation_p.I445V	NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	135										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		AACCAAGATGATATCAACCTC	0.448													7	82					0	0	1	0	0		G	98741550	G	G	98741550	3	3	27	1	0	0	0	0	1	0	0	0	1592	333	12	3	405	3	C10orf12	10	98741550	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26621	98741550	36793197	4774	27125											
ARHGAP19	84986	broad.mit.edu	37	chr10	99016073	99016073	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaatgctatcccttacctAccttaaaaagtttctgggag	12	12	6	11	0	1	0	0	0	1	0	2	1	2	1	4	1	3	2	4	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:99016073A>G	uc001knb.2	-	6	956	c.927_splice	c.e6+1	p.K309_splice	ARHGAP19_uc001kmy.2_Splice_Site|ARHGAP19_uc001kna.2_Splice_Site_p.K300_splice|ARHGAP19_uc009xvi.2_Splice_Site|ARHGAP19_uc009xvj.2_Intron|ARHGAP19_uc009xvk.2_Splice_Site_p.K103_splice	NM_032900	NP_116289	Q14CB8	RHG19_HUMAN	Rho GTPase activating protein 19						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	GTPase activator activity				0		Colorectal(252;0.0854)		Epithelial(162;7.65e-09)|all cancers(201;4.49e-07)		TCCCTTACCTACCTTAAAAAG	0.403													13	216					0	0	1	0	0		G	99016073	G	G	99016073	5	3	27	1	0	0	0	0	0	0	1	0	869	405	14	3	583	3	ARHGAP19	10	99016073	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	274523	99016073	36518674	4775	27126											
MMS19	64210	broad.mit.edu	37	chr10	99236709	99236709	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaggtgaagtcagctcctaGgctctttagctctgggaagg	10	10	13	8	0	3	1	1	1	2	0	4	2	4	2	1	4	2	3	1	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:99236709G>T	uc001kns.3	-	7	730	c.505C>A	c.(505-507)CTA>ATA	p.L169I	MMS19_uc009xvt.2_Missense_Mutation_p.L11I|MMS19_uc001knr.2_Missense_Mutation_p.L11I|MMS19_uc010qox.1_Intron|MMS19_uc001knt.2_Missense_Mutation_p.L169I|MMS19_uc001knu.1_RNA	NM_022362	NP_071757	Q96T76	MMS19_HUMAN	MMS19 nucleotide excision repair homolog	169					chromosome segregation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|response to hormone stimulus|transcription, DNA-dependent|two-component signal transduction system (phosphorelay)	cytoplasm|holo TFIIH complex|MMXD complex	estrogen receptor binding|protein binding, bridging|receptor signaling complex scaffold activity|transcription coactivator activity				0		Colorectal(252;0.0846)		Epithelial(162;3.33e-10)|all cancers(201;2.74e-08)		TCAGCTCCTAGGCTCTTTAGC	0.507								Direct_reversal_of_damage|NER					8	103					1.76689e-08	1.94149e-08	1	1	0		T	99236709	T	T	99236709	3	4	27	1	0	0	0	0	1	0	0	0	9690	991	35	5	2687	5	MMS19	10	99236709	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	220636	99236709	36298038	4776	27127											
UBTD1	80019	broad.mit.edu	37	chr10	99327773	99327773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgagttctgggacacagCgcctgccttcgagggccgca	7	7	15	12	3	1	1	0	1	1	0	2	4	1	3	3	3	2	2	3	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:99327773C>T	uc001knv.1	+	2	366	c.173C>T	c.(172-174)GCG>GTG	p.A58V		NM_024954	NP_079230	Q9HAC8	UBTD1_HUMAN	ubiquitin domain containing 1	58											0		Colorectal(252;0.162)		Epithelial(162;3.04e-10)|all cancers(201;2.86e-08)		TGGGACACAGCGCCTGCCTTC	0.617													5	93					0	0	1	0	0		T	99327773	T	T	99327773	3	4	27	1	0	0	0	0	1	0	0	0	16933	768	27	1	179	1	UBTD1	10	99327773	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	91064	99327773	36206974	4777	27128											
C10orf62	414157	broad.mit.edu	37	chr10	99349971	99349971	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatctgggccctcagtgaTccaagagatccaccaggagt	11	7	11	12	0	2	2	1	1	1	1	4	5	4	3	4	2	0	0	4	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:99349971T>A	uc001koa.2	+	1	488	c.317T>A	c.(316-318)ATC>AAC	p.I106N	DHDPSL_uc001knx.2_Intron|DHDPSL_uc001kny.2_Intron|DHDPSL_uc001knz.2_Intron|PI4K2A_uc010qoy.1_Intron	NM_001009997	NP_001009997	Q5T681	CJ062_HUMAN	hypothetical protein LOC414157	106							protein binding				0		Colorectal(252;0.162)		Epithelial(162;9.58e-11)|all cancers(201;8.62e-09)		CCCTCAGTGATCCAAGAGATC	0.607													7	67					0	0	1	0	0		A	99349971	A	A	99349971	3	1	27	1	0	0	0	0	1	0	0	0	1614	1435	50	5	319	5	C10orf62	10	99349971	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	22198	99349971	36184776	4778	27129											
C10orf28	27291	broad.mit.edu	37	chr10	99968748	99968748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagagtgtaggtggtataGccaatagtacaggtttcatc	11	13	12	5	0	1	1	1	1	0	1	2	2	1	1	1	3	2	4	1	3	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:99968748G>A	uc001kow.3	+	4	1172	c.877G>A	c.(877-879)GCC>ACC	p.A293T	C10orf28_uc001kox.3_Missense_Mutation_p.A293T|C10orf28_uc001koy.3_Missense_Mutation_p.A293T|C10orf28_uc009xvx.2_Missense_Mutation_p.A293T|C10orf28_uc009xvy.2_Intron|C10orf28_uc001koz.3_Intron	NM_014472	NP_055287	Q4KMY3	Q4KMY3_HUMAN	growth inhibition and differentiation related	293							nucleotide binding			large_intestine(1)|skin(1)	2		Colorectal(252;0.234)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)		AGGTGGTATAGCCAATAGTAC	0.433													8	93					0	0	1	0	0		A	99968748	A	A	99968748	3	1	27	1	0	0	0	0	1	0	0	0	1604	971	34	2	879	2	C10orf28	10	99968748	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	618777	99968748	35565999	4779	27130											
C10orf28	27291	broad.mit.edu	37	chr10	99968819	99968819	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaactatgggtcacatctcTctgtcagagagcacaaatga	13	9	9	10	0	4	2	2	1	2	1	5	3	4	2	0	1	2	2	0	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:99968819T>C	uc001kow.3	+	4	1243	c.948T>C	c.(946-948)TCT>TCC	p.S316S	C10orf28_uc001kox.3_Silent_p.S316S|C10orf28_uc001koy.3_Silent_p.S316S|C10orf28_uc009xvx.2_Silent_p.S316S|C10orf28_uc009xvy.2_Intron|C10orf28_uc001koz.3_Intron	NM_014472	NP_055287	Q4KMY3	Q4KMY3_HUMAN	growth inhibition and differentiation related	316							nucleotide binding			large_intestine(1)|skin(1)	2		Colorectal(252;0.234)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)		GTCACATCTCTCTGTCAGAGA	0.398													6	102					0	0	1	0	0		C	99968819	C	C	99968819	2	2	27	1	0	0	0	0	0	0	0	1	1604	1538	54	3		3	C10orf28	10	99968819	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	71	99968819	35565928	4780	27131											
PYROXD2	84795	broad.mit.edu	37	chr10	100157113	100157113	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacttacctgccttcagcAggggcttgagggtggagagc	7	9	16	9	0	1	2	1	1	0	1	1	4	1	3	2	5	4	2	2	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:100157113A>G	uc001kpc.2	-	6	700	c.614T>C	c.(613-615)CTG>CCG	p.L205P	PYROXD2_uc001kpb.2_RNA|PYROXD2_uc001kpd.2_RNA|PYROXD2_uc010qpe.1_Missense_Mutation_p.L205P|MIR1287_hsa-mir-1287|MI0006349_5'Flank	NM_032709	NP_116098	Q8N2H3	PYRD2_HUMAN	pyridine nucleotide-disulphide oxidoreductase	205							oxidoreductase activity			central_nervous_system(1)	1						TGCCTTCAGCAGGGGCTTGAG	0.597													14	80					0	0	1	0	0		G	100157113	G	G	100157113	3	3	27	1	0	0	0	0	1	0	0	0	12892	188	7	3	1175	3	PYROXD2	10	100157113	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	188294	100157113	35377634	4781	27132											
CNNM1	26507	broad.mit.edu	37	chr10	101122008	101122008	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagccctttaagtctctgtAcctttcggagaagatcctgc	8	12	10	11	1	1	2	0	0	1	2	4	4	2	3	3	2	3	1	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:101122008A>G	uc001kpp.3	+	4	2172	c.1883A>G	c.(1882-1884)TAC>TGC	p.Y628C	CNNM1_uc009xwe.2_Missense_Mutation_p.Y628C|CNNM1_uc010qpi.1_Missense_Mutation_p.Y628C|CNNM1_uc009xwf.2_Missense_Mutation_p.Y628C|CNNM1_uc009xwg.2_Missense_Mutation_p.Y28C	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	628					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		AAGTCTCTGTACCTTTCGGAG	0.542													3	28					0	0	1	0	0		G	101122008	G	G	101122008	3	3	27	1	0	0	0	0	1	0	0	0	3615	391	14	3	1897	3	CNNM1	10	101122008	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	964895	101122008	34412739	4782	27133											
SLC25A28	81894	broad.mit.edu	37	chr10	101370714	101370714	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctggtaaattactctggcCtgcacccctcggaaataggc	10	10	9	12	1	2	0	0	0	2	0	3	1	2	1	3	4	2	2	3	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:101370714C>A	uc001kpx.2	-	4	1116	c.987G>T	c.(985-987)CAG>CAT	p.Q329H	SLC25A28_uc001kpy.2_Missense_Mutation_p.Q142H	NM_031212	NP_112489	Q96A46	MFRN2_HUMAN	solute carrier family 25, member 28	329	Helical; Name=6; (Potential).|Solcar 3.				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Colorectal(252;0.234)		Epithelial(162;2.57e-10)|all cancers(201;2.01e-08)		TTACTCTGGCCTGCACCCCTC	0.493													10	77					0.0581538	0.0588749	1	1	0		A	101370714	A	A	101370714	3	1	27	1	0	0	0	0	1	0	0	0	14516	680	24	5	111	5	SLC25A28	10	101370714	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	248706	101370714	34164033	4783	27134											
ENTPD7	57089	broad.mit.edu	37	chr10	101445607	101445607	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccactggagtttgacttcCtcttttcacagtctcaagca	9	14	6	12	0	3	1	2	1	2	0	5	2	4	2	2	1	2	2	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:101445607C>A	uc001kqa.3	+	6	785	c.607C>A	c.(607-609)CTC>ATC	p.L203I	ENTPD7_uc009xwl.2_Missense_Mutation_p.L205I	NM_020354	NP_065087	Q9NQZ7	ENTP7_HUMAN	ectonucleoside triphosphate diphosphohydrolase	203	Vesicular (Potential).					cytoplasmic vesicle membrane|integral to membrane	hydrolase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)		GTTTGACTTCCTCTTTTCACA	0.463													5	90					0.00198382	0.00205548	1	1	0		A	101445607	A	A	101445607	3	1	27	1	0	0	0	0	1	0	0	0	5152	681	24	5	625	5	ENTPD7	10	101445607	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	74893	101445607	34089140	4784	27135											
ENTPD7	57089	broad.mit.edu	37	chr10	101462387	101462387	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaccgagaggttcagtggAcgctgggagccattctatat	10	10	13	8	2	2	2	1	1	1	1	2	5	2	4	2	3	1	2	2	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:101462387A>G	uc001kqa.3	+	12	1718	c.1540A>G	c.(1540-1542)ACG>GCG	p.T514A	ENTPD7_uc009xwl.2_Missense_Mutation_p.T516A	NM_020354	NP_065087	Q9NQZ7	ENTP7_HUMAN	ectonucleoside triphosphate diphosphohydrolase	514	Vesicular (Potential).					cytoplasmic vesicle membrane|integral to membrane	hydrolase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)		GGTTCAGTGGACGCTGGGAGC	0.473													7	33					0	0	1	0	0		G	101462387	G	G	101462387	3	3	27	1	0	0	0	0	1	0	0	0	5152	275	10	3	1582	3	ENTPD7	10	101462387	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	16780	101462387	34072360	4785	27136											
DNMBP	23268	broad.mit.edu	37	chr10	101728939	101728939	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcacacaaacagcctctcTccctcttttagactgggaat	11	11	6	13	0	2	1	0	0	2	1	4	2	3	2	2	1	3	1	2	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:101728939T>C	uc001kqj.2	-	3	293	c.201A>G	c.(199-201)GGA>GGG	p.G67G		NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	67	SH3 2.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		ACAGCCTCTCTCCCTCTTTTA	0.378													7	52					0	0	1	0	0		C	101728939	C	C	101728939	2	2	27	1	0	0	0	0	0	0	0	1	4680	1538	54	3		3	DNMBP	10	101728939	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	266552	101728939	33805808	4786	27137											
CPN1	1369	broad.mit.edu	37	chr10	101835695	101835695	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagccacctcgtagccgtcGgggttcatggatggcaggat	7	8	15	11	3	1	0	1	0	0	0	3	2	1	2	3	5	2	4	3	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:101835695G>T	uc001kql.2	-	2	653	c.393C>A	c.(391-393)CCC>CCA	p.P131P		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	131	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		CGTAGCCGTCGGGGTTCATGG	0.572													7	37					0.000274275	0.000288501	1	1	0		T	101835695	T	T	101835695	2	4	27	1	0	0	0	0	0	0	0	1	3812	1103	39	5		5	CPN1	10	101835695	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	106756	101835695	33699052	4787	27138											
KAZALD1	81621	broad.mit.edu	37	chr10	102824622	102824622	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcccccagctgcgatcacTaaacctggttcctgaggagg	9	8	10	14	1	1	1	1	1	0	0	3	3	3	2	4	3	3	2	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:102824622T>C	uc001ksr.2	+	5	1785	c.860T>C	c.(859-861)CTA>CCA	p.L287P	KAZALD1_uc001kss.3_RNA|uc001ksu.2_5'Flank	NM_030929	NP_112191	Q96I82	KAZD1_HUMAN	Kazal-type serine peptidase inhibitor domain 1	287					cell differentiation|multicellular organismal development|ossification|regulation of cell growth		insulin-like growth factor binding				0				Epithelial(162;6.21e-09)|all cancers(201;3.14e-07)		CTGCGATCACTAAACCTGGTT	0.547													3	71					0	0	1	0	0		C	102824622	C	C	102824622	3	2	27	1	0	0	0	0	1	0	0	0	8005	1522	53	3	874	3	KAZALD1	10	102824622	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	988927	102824622	32710125	4788	27139											
POLL	27343	broad.mit.edu	37	chr10	103344632	103344632	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttccagatcagctgcactAacctgggtttcttccccatc	7	12	7	15	0	2	1	1	0	1	1	5	1	4	1	4	1	3	4	4	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:103344632A>G	uc001ktg.1	-	4	1384	c.618T>C	c.(616-618)GTT>GTC	p.V206V	DPCD_uc010qpz.1_Intron|POLL_uc001ktd.1_5'Flank|POLL_uc001kte.1_5'Flank|POLL_uc001kth.1_Intron|POLL_uc001kti.1_Silent_p.V206V|POLL_uc001ktj.1_Silent_p.V206V|POLL_uc001ktf.2_Intron|POLL_uc001ktk.1_Intron|POLL_uc010qqa.1_Intron|POLL_uc010qqb.1_Intron|POLL_uc001ktm.2_Silent_p.V206V|POLL_uc001ktl.2_Silent_p.V118V|POLL_uc010qqc.1_Intron|POLL_uc010qqd.1_Missense_Mutation_p.L64S	NM_013274	NP_037406	Q9UGP5	DPOLL_HUMAN	DNA-directed DNA polymerase lambda	206					DNA replication|nucleotide-excision repair|somatic hypermutation of immunoglobulin genes	nucleus	DNA binding|DNA-directed DNA polymerase activity|lyase activity|metal ion binding				0		Colorectal(252;0.234)		Epithelial(162;1.55e-08)|all cancers(201;6.64e-07)		CAGCTGCACTAACCTGGGTTT	0.512								DNA_polymerases_(catalytic_subunits)					5	19					0	0	1	0	0		G	103344632	G	G	103344632	2	3	27	1	0	0	0	0	0	0	0	1	12224	349	13	3		3	POLL	10	103344632	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	520010	103344632	32190115	4789	27140											
MGEA5	10724	broad.mit.edu	37	chr10	103553732	103553732	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtctccaattaagaattGtgctgaagaatgactacgac	13	12	9	7	1	1	4	0	2	1	2	2	5	1	4	1	1	2	1	1	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:103553732G>A	uc001ktv.2	-	11	2451	c.2008C>T	c.(2008-2010)CAA>TAA	p.Q670*	MGEA5_uc001ktu.2_Intron|MGEA5_uc010qqe.1_Nonsense_Mutation_p.Q617*|MGEA5_uc009xws.2_Nonsense_Mutation_p.Q617*	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	670	Histone acetyltransferase activity (By similarity).				glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		ATTAAGAATTGTGCTGAAGAA	0.443													81	234					0	0	1	0	0		A	103553732	A	A	103553732	4	1	27	1	0	0	0	0	0	1	0	0	9573	1386	48	4	766	4	MGEA5	10	103553732	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	209100	103553732	31981015	4790	27141											
MGEA5	10724	broad.mit.edu	37	chr10	103559054	103559054	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttttcttcttccttggTcagagtagtaggctcaccac	6	17	7	11	0	5	1	2	0	3	1	6	1	6	1	2	2	0	3	2	2	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:103559054T>C	uc001ktv.2	-	9	1797	c.1354A>G	c.(1354-1356)ACC>GCC	p.T452A	MGEA5_uc001ktu.2_RNA|MGEA5_uc010qqe.1_Missense_Mutation_p.T399A|MGEA5_uc009xws.2_Missense_Mutation_p.T399A|MGEA5_uc001ktw.2_Missense_Mutation_p.T452A|MGEA5_uc009xwt.2_Missense_Mutation_p.T215A	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	452					glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		TCTTCCTTGGTCAGAGTAGTA	0.458													12	232					0	0	1	0	0		C	103559054	C	C	103559054	3	2	27	1	0	0	0	0	1	0	0	0	9573	1667	58	3	1428	3	MGEA5	10	103559054	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5322	103559054	31975693	4791	27142											
HPS6	79803	broad.mit.edu	37	chr10	103825824	103825824	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggctgctggcctcctgcaGacaactcttcctggtgccca	5	9	11	16	1	1	1	0	0	1	1	3	1	3	1	4	3	4	3	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:103825824G>T	uc001kuj.2	+	1	678	c.593G>T	c.(592-594)AGA>ATA	p.R198I		NM_024747	NP_079023	Q86YV9	HPS6_HUMAN	Hermansky-Pudlak syndrome-6	198						cytosol|early endosome membrane|endoplasmic reticulum|microsome					0		Colorectal(252;0.122)		Epithelial(162;5.93e-08)|all cancers(201;1.03e-06)		GCCTCCTGCAGACAACTCTTC	0.667									Hermansky-Pudlak_syndrome				4	44					0.00909568	0.0093211	1	1	0		T	103825824	T	T	103825824	3	4	27	1	0	0	0	0	1	0	0	0	7359	942	33	5	595	5	HPS6	10	103825824	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	266770	103825824	31708923	4792	27143											
PPRC1	23082	broad.mit.edu	37	chr10	103900766	103900766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctagtcctgagccacCtgtaagcaaacctgtggcct	8	11	8	14	0	1	1	0	1	1	0	3	1	2	1	6	1	3	2	6	1	3	3	rs17855877	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:103900766C>T	uc001kum.2	+	5	2540	c.2501C>T	c.(2500-2502)CCT>CTT	p.P834L	PPRC1_uc001kun.2_Missense_Mutation_p.P714L|PPRC1_uc010qqj.1_Missense_Mutation_p.P834L|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	834	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		CCTGAGCCACCTGTAAGCAAA	0.582													5	62					0	0	1	0	0		T	103900766	T	T	103900766	3	4	27	1	0	0	0	0	1	0	0	0	12432	681	24	4	2519	4	PPRC1	10	103900766	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	74942	103900766	31633981	4793	27144											
PPRC1	23082	broad.mit.edu	37	chr10	103908403	103908403	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtacagctcttatcgttcAcatgaccattaccaaaggca	13	10	7	11	1	2	1	1	1	1	0	3	1	2	1	2	2	3	4	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:103908403A>G	uc001kum.2	+	11	4608	c.4569A>G	c.(4567-4569)TCA>TCG	p.S1523S	PPRC1_uc001kun.2_Silent_p.S1401S|PPRC1_uc010qqj.1_Silent_p.S1259S|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	1523	Arg-rich.|Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		CTTATCGTTCACATGACCATT	0.488													17	163					0	0	1	0	0		G	103908403	G	G	103908403	2	3	27	1	0	0	0	0	0	0	0	1	12432	146	6	3		3	PPRC1	10	103908403	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7637	103908403	31626344	4794	27145											
PPRC1	23082	broad.mit.edu	37	chr10	103908641	103908641	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgatcagagctgaaacagaGgttctccgtttttggagaga	11	11	12	7	2	2	4	1	1	1	3	4	7	2	5	1	2	2	3	1	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:103908641G>T	uc001kum.2	+	12	4724	c.4685G>T	c.(4684-4686)AGG>ATG	p.R1562M	PPRC1_uc001kun.2_Missense_Mutation_p.R1440M|PPRC1_uc010qqj.1_Missense_Mutation_p.R1298M|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	1562	RRM.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		CTGAAACAGAGGTTCTCCGTT	0.468													19	56					4.35082e-09	4.79675e-09	1	1	0		T	103908641	T	T	103908641	3	4	27	1	0	0	0	0	1	0	0	0	12432	1000	35	5	4731	5	PPRC1	10	103908641	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	238	103908641	31626106	4795	27146											
NOLC1	9221	broad.mit.edu	37	chr10	103918966	103918966	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagctcgagcagcacctaaAatagccaatggtaaagcagc	15	5	9	12	1	0	0	0	0	0	0	1	1	0	0	3	1	6	5	3	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:103918966A>G	uc001kuo.2	+	6	859	c.624A>G	c.(622-624)AAA>AAG	p.K208K	NOLC1_uc001kup.2_Silent_p.K208K|NOLC1_uc001kuq.2_Silent_p.K209K|NOLC1_uc009xxb.1_5'UTR|NOLC1_uc001kur.2_5'UTR	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	208	11 X 12 AA approximate repeats of an acidic serine cluster.|Interacts with RPA194.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		CAGCACCTAAAATAGCCAATG	0.378													14	228					0	0	1	0	0		G	103918966	G	G	103918966	2	3	27	1	0	0	0	0	0	0	0	1	10548	11	1	3		3	NOLC1	10	103918966	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10325	103918966	31615781	4796	27147											
NOLC1	9221	broad.mit.edu	37	chr10	103920746	103920746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagaccacaagcccccaaggCcaatggcacctctgcactga	13	4	8	16	0	1	2	0	1	1	1	1	2	1	2	5	2	2	2	5	2	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:103920746C>T	uc001kuo.2	+	10	1872	c.1637C>T	c.(1636-1638)GCC>GTC	p.A546V	NOLC1_uc001kup.2_Missense_Mutation_p.A556V|NOLC1_uc001kuq.2_Missense_Mutation_p.A547V|NOLC1_uc009xxb.1_Missense_Mutation_p.A265V|NOLC1_uc001kur.2_Missense_Mutation_p.A265V	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	546	Nuclear localization signal (Potential).|11 X 12 AA approximate repeats of an acidic serine cluster.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		GCCCCCAAGGCCAATGGCACC	0.512													6	90					0	0	1	0	0		T	103920746	T	T	103920746	3	4	27	1	0	0	0	0	1	0	0	0	10548	739	26	2	1675	2	NOLC1	10	103920746	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1780	103920746	31614001	4797	27148											
GBF1	8729	broad.mit.edu	37	chr10	104118448	104118448	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacagctacagagcctggaAgcagtgagctaggtgttccc	10	7	13	11	0	0	2	0	1	0	1	1	3	1	3	2	2	5	5	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:104118448A>G	uc001kux.1	+	10	1213	c.973A>G	c.(973-975)AGC>GGC	p.S325G	GBF1_uc001kuw.2_Missense_Mutation_p.S325G|GBF1_uc001kuy.1_Missense_Mutation_p.S325G|GBF1_uc001kuz.1_Missense_Mutation_p.S325G	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	325					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		AGAGCCTGGAAGCAGTGAGCT	0.512													4	45					0	0	1	0	0		G	104118448	G	G	104118448	3	3	27	1	0	0	0	0	1	0	0	0	6286	72	3	3	1007	3	GBF1	10	104118448	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	197702	104118448	31416299	4798	27149											
ACTR1A	10121	broad.mit.edu	37	chr10	104247992	104247992	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaatccttgacgatgccaTgctccatgggatagcggatt	9	11	10	11	2	0	1	0	1	0	0	3	4	3	3	4	2	3	1	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:104247992T>C	uc001kvv.2	-	4	338	c.230A>G	c.(229-231)CAT>CGT	p.H77R	ACTR1A_uc010qqn.1_Missense_Mutation_p.H3R|ACTR1A_uc010qqo.1_Missense_Mutation_p.H30R	NM_005736	NP_005727	P61163	ACTZ_HUMAN	ARP1 actin-related protein 1 homolog A,	77					G2/M transition of mitotic cell cycle|vesicle-mediated transport	centrosome|cytosol|dynactin complex	ATP binding			central_nervous_system(1)	1		Colorectal(252;0.122)		Epithelial(162;5.34e-09)|all cancers(201;1.43e-07)|BRCA - Breast invasive adenocarcinoma(275;0.222)		GACGATGCCATGCTCCATGGG	0.527													5	90					0	0	1	0	0		C	104247992	C	C	104247992	3	2	27	1	0	0	0	0	1	0	0	0	209	1464	51	3	932	3	ACTR1A	10	104247992	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	129544	104247992	31286755	4799	27150											
ARL3	403	broad.mit.edu	37	chr10	104445597	104445597	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgccctctcctgtgagagcTgagcaagactggatctgcca	9	8	11	13	1	2	3	0	2	2	2	3	5	2	4	3	1	3	2	3	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:104445597T>C	uc001kwa.2	-	5	635	c.477A>G	c.(475-477)TCA>TCG	p.S159S		NM_004311	NP_004302	P36405	ARL3_HUMAN	ADP-ribosylation factor-like 3	159	GTP (By similarity).				cell cycle|cytokinesis|small GTPase mediated signal transduction	centrosome|cytoplasmic microtubule|Golgi membrane|midbody|nucleus|photoreceptor connecting cilium|spindle microtubule	GDP binding|GTP binding|metal ion binding|microtubule binding				0		Colorectal(252;0.122)		Epithelial(162;4.88e-09)|all cancers(201;1.29e-07)|BRCA - Breast invasive adenocarcinoma(275;0.22)		CTGTGAGAGCTGAGCAAGACT	0.547													11	72					0	0	1	0	0		C	104445597	C	C	104445597	2	2	27	1	0	0	0	0	0	0	0	1	936	1567	55	3		3	ARL3	10	104445597	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	197605	104445597	31089150	4800	27151											
C10orf26	54838	broad.mit.edu	37	chr10	104557771	104557771	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaggaagcctgtgtgggtAccaacaatcaaagctacatc	15	8	9	9	0	1	0	1	0	0	0	2	1	1	1	2	2	5	2	2	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:104557771A>G	uc001kwe.3	+	2	309	c.49A>G	c.(49-51)ACC>GCC	p.T17A	C10orf26_uc001kwf.3_Missense_Mutation_p.T38A|C10orf26_uc009xxg.1_RNA	NM_017787	NP_060257	Q9NX94	OPA1L_HUMAN	hypothetical protein LOC54838 isoform 2	17						integral to membrane				central_nervous_system(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;6.14e-09)|all cancers(201;1.66e-07)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CTGTGTGGGTACCAACAATCA	0.418													5	82					0	0	1	0	0		G	104557771	G	G	104557771	3	3	27	1	0	0	0	0	1	0	0	0	1602	391	14	3	149	3	C10orf26	10	104557771	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	112174	104557771	30976976	4801	27152											
AS3MT	57412	broad.mit.edu	37	chr10	104622686	104622686	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctgttgaaatagaatgAcatgtaagagtgctgtagga	14	12	11	4	0	2	4	1	2	1	2	2	5	2	5	0	1	1	4	0	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:104622686A>G	uc001kwj.2	+	5	403	c.4A>G	c.(4-6)ACA>GCA	p.T2A	C10orf32_uc001kwh.2_3'UTR|C10orf32_uc001kwi.2_3'UTR	NM_020682	NP_065733	Q9HBK9	AS3MT_HUMAN	arsenic (+3 oxidation state) methyltransferase	Error:Variant_position_missing_in_Q9HBK9_after_alignment					arsonoacetate metabolic process|toxin metabolic process	cytosol	arsenite methyltransferase activity|methylarsonite methyltransferase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;5.87e-09)|all cancers(201;1.58e-07)|BRCA - Breast invasive adenocarcinoma(275;0.223)		AAATAGAATGACATGTAAGAG	0.393													12	50					0	0	1	0	0		G	104622686	G	G	104622686	3	3	27	1	0	0	0	0	1	0	0	0	1006	290	10	3		3	AS3MT	10	104622686	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	64915	104622686	30912061	4802	27153											
CNNM2	54805	broad.mit.edu	37	chr10	104679501	104679501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagatgctccgggtcaccGatccctacaacgacctcgtt	8	9	10	14	4	1	1	1	0	0	1	4	4	3	1	4	2	3	2	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:104679501G>A	uc001kwm.2	+	1	1388	c.1264G>A	c.(1264-1266)GAT>AAT	p.D422N	CNNM2_uc001kwn.2_Missense_Mutation_p.D422N|CNNM2_uc001kwl.2_Missense_Mutation_p.D422N	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	422	DUF21.				ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CCGGGTCACCGATCCCTACAA	0.607													9	51					0	0	1	0	0		A	104679501	A	A	104679501	3	1	27	1	0	0	0	0	1	0	0	0	3616	1058	37	1	1266	1	CNNM2	10	104679501	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	56815	104679501	30855246	4803	27154											
CNNM2	54805	broad.mit.edu	37	chr10	104836918	104836918	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggccaaccacagcctgcAcaacgaaggcgccatctagg	13	4	10	14	2	1	0	0	0	1	0	1	1	1	0	4	3	4	1	4	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:104836918A>G	uc001kwm.2	+	8	2733	c.2609A>G	c.(2608-2610)CAC>CGC	p.H870R	CNNM2_uc001kwn.2_Missense_Mutation_p.H848R	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	870					ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CACAGCCTGCACAACGAAGGC	0.642													6	61					0	0	1	0	0		G	104836918	G	G	104836918	3	3	27	1	0	0	0	0	1	0	0	0	3616	159	6	3	2681	3	CNNM2	10	104836918	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	157417	104836918	30697829	4804	27155											
INA	9118	broad.mit.edu	37	chr10	105037837	105037837	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagaatggtacaagtccaAgtttgccaacctgaacgagc	14	7	11	9	1	0	2	0	1	0	1	1	4	1	3	3	2	5	2	3	2	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:105037837A>C	uc001kws.2	+	1	918	c.869A>C	c.(868-870)AAG>ACG	p.K290T	uc001kwr.2_5'Flank|INA_uc009xxj.2_Missense_Mutation_p.K290T	NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	290	Coil 2.|Rod.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		TACAAGTCCAAGTTTGCCAAC	0.647													5	32					0	0	1	0	0		C	105037837	C	C	105037837	3	2	27	1	0	0	0	0	1	0	0	0	7746	72	3	5	871	5	INA	10	105037837	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	200919	105037837	30496910	4805	27156											
PDCD11	22984	broad.mit.edu	37	chr10	105185263	105185263	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccgagtgattggcgggCgagacatgaagacattcaag	11	7	14	9	3	1	4	1	2	0	2	1	6	1	4	1	2	1	0	1	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:105185263C>T	uc001kwy.1	+	20	3373	c.3286C>T	c.(3286-3288)CGA>TGA	p.R1096*		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1096	S1 motif 9.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		GATTGGCGGGCGAGACATGAA	0.547													4	37					0	0	1	0	0		T	105185263	T	T	105185263	4	4	27	1	0	0	0	0	0	1	0	0	11636	760	27	1	3360	1	PDCD11	10	105185263	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	147426	105185263	30349484	4806	27157											
PDCD11	22984	broad.mit.edu	37	chr10	105203692	105203692	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaagctggtgaactctacaaCcggatgctgaagcgtttccg	10	9	12	10	3	1	2	0	2	1	0	2	4	2	3	2	2	6	3	2	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:105203692C>T	uc001kwy.1	+	34	5232	c.5145C>T	c.(5143-5145)AAC>AAT	p.N1715N		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1715	HAT 2.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		AACTCTACAACCGGATGCTGA	0.567													17	127					0	0	1	0	0		T	105203692	T	T	105203692	2	4	27	1	0	0	0	0	0	0	0	1	11636	506	18	4		4	PDCD11	10	105203692	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18429	105203692	30331055	4807	27158											
OBFC1	79991	broad.mit.edu	37	chr10	105677279	105677279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatgtagagttttgcaaagGctagaaacacaggatccaaa	16	9	10	6	0	0	3	0	1	0	2	1	4	1	4	1	2	2	4	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:105677279G>A	uc001kxl.2	-	1	149	c.74C>T	c.(73-75)GCC>GTC	p.A25V	OBFC1_uc001kxm.2_Missense_Mutation_p.A25V|OBFC1_uc001kxn.2_RNA	NM_024928	NP_079204	Q9H668	STN1_HUMAN	oligonucleotide/oligosaccharide-binding fold	25					positive regulation of DNA replication|telomere maintenance via telomere lengthening		protein binding|single-stranded telomeric DNA binding			ovary(1)	1		Colorectal(252;0.178)		Epithelial(162;3.39e-10)|all cancers(201;1.32e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0151)		TTTTGCAAAGGCTAGAAACAC	0.577													6	82					0	0	1	0	0		A	105677279	A	A	105677279	3	1	27	1	0	0	0	0	1	0	0	0	10826	1203	42	2	1068	2	OBFC1	10	105677279	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	473587	105677279	29857468	4808	27159											
SLK	9748	broad.mit.edu	37	chr10	105761204	105761204	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttaatgatcaacagcaTccctttgttactgttgattc	9	18	5	9	0	1	2	1	2	0	0	3	2	2	2	1	0	3	3	1	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:105761204T>C	uc001kxo.1	+	8	901	c.867T>C	c.(865-867)CAT>CAC	p.H289H	SLK_uc001kxp.1_Silent_p.H289H	NM_014720	NP_055535	Q9H2G2	SLK_HUMAN	serine/threonine kinase 2	289	Protein kinase.				apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		ATCAACAGCATCCCTTTGTTA	0.254													9	42					0	0	1	0	0		C	105761204	C	C	105761204	2	2	27	1	0	0	0	0	0	0	0	1	14773	1432	50	3		3	SLK	10	105761204	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	83925	105761204	29773543	4809	27160											
COL17A1	1308	broad.mit.edu	37	chr10	105799267	105799267	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgaaggttgagtccgaaAgaactggaccctggaagcca	12	6	12	11	1	0	3	0	2	0	1	1	6	1	5	4	3	2	1	4	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:105799267A>C	uc001kxr.2	-	43	3001	c.2832T>G	c.(2830-2832)TCT>TCG	p.S944S		NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	944	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TGAGTCCGAAAGAACTGGACC	0.597													7	77					0	0	1	0	0		C	105799267	C	C	105799267	2	2	27	1	0	0	0	0	0	0	0	1	3677	59	3	5		5	COL17A1	10	105799267	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	38063	105799267	29735480	4810	27161											
COL17A1	1308	broad.mit.edu	37	chr10	105815736	105815736	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccagctcatccacacgCgccttcagcttcctcacctc	6	10	4	21	2	4	0	3	0	1	0	8	0	6	0	5	0	2	2	5	0	0	2	rs143263539		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:105815736C>T	uc001kxr.2	-	18	1660	c.1491G>A	c.(1489-1491)GCG>GCA	p.A497A	COL17A1_uc010qqv.1_Silent_p.A481A	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	497	Extracellular (Potential).|Nonhelical region (NC16).				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		CATCCACACGCGCCTTCAGCT	0.592													10	102					0	0	1	0	0		T	105815736	T	T	105815736	2	4	27	1	0	0	0	0	0	0	0	1	3677	755	27	1		1	COL17A1	10	105815736	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16469	105815736	29719011	4811	27162											
COL17A1	1308	broad.mit.edu	37	chr10	105817937	105817937	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgccctttgtggacacagTcttcaggtctcctgaaagga	8	12	10	11	0	3	1	1	1	2	0	4	3	3	3	2	3	1	0	2	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:105817937T>A	uc001kxr.2	-	16	1403	c.1234A>T	c.(1234-1236)ACT>TCT	p.T412S	COL17A1_uc010qqv.1_Missense_Mutation_p.T396S	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	412	Cytoplasmic (Potential).|Nonhelical region (NC16).				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GTGGACACAGTCTTCAGGTCT	0.418													8	60					0	0	1	0	0		A	105817937	A	A	105817937	3	1	27	1	0	0	0	0	1	0	0	0	3677	1667	58	5	3423	5	COL17A1	10	105817937	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2201	105817937	29716810	4812	27163											
C10orf79	80217	broad.mit.edu	37	chr10	105920858	105920858	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcataatctttgaattgTtttctttcttcttcagtcca	7	22	3	9	0	6	1	2	1	5	0	8	1	7	1	1	0	0	1	1	0	2	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:105920858T>C	uc001kxw.2	-	27	3593	c.3477A>G	c.(3475-3477)AAA>AAG	p.K1159K	C10orf79_uc009xxq.2_Silent_p.K467K	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1159	Potential.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		CTTTGAATTGTTTTCTTTCTT	0.328													5	50					0	0	1	0	0		C	105920858	C	C	105920858	2	2	27	1	0	0	0	0	0	0	0	1	1621	1722	60	3		3	C10orf79	10	105920858	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	102921	105920858	29613889	4813	27164											
SORCS3	22986	broad.mit.edu	37	chr10	106602578	106602578	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcctgacgaagctgtatgActtcaacctgggcagcgtga	10	10	11	10	2	1	3	1	3	0	0	2	4	2	3	2	1	3	3	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:106602578A>G	uc001kyi.1	+	2	883	c.656A>G	c.(655-657)GAC>GGC	p.D219G		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	219	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		AAGCTGTATGACTTCAACCTG	0.483													12	80					0	0	1	0	0		G	106602578	G	G	106602578	3	3	27	1	0	0	0	0	1	0	0	0	14957	275	10	3	662	3	SORCS3	10	106602578	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	681720	106602578	28932169	4814	27165											
XPNPEP1	7511	broad.mit.edu	37	chr10	111642211	111642211	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggatggtctcgctcacAgcatagctggccttgtcact	6	12	12	11	1	3	0	2	0	1	0	4	1	3	1	1	4	2	3	1	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:111642211A>G	uc001kyp.1	-	10	1031	c.891T>C	c.(889-891)GCT>GCC	p.A297A	XPNPEP1_uc009xxt.1_Silent_p.A340A|XPNPEP1_uc001kyq.1_Silent_p.A226A|XPNPEP1_uc010qrb.1_Silent_p.A340A|XPNPEP1_uc010qra.1_Silent_p.A64A	NM_020383	NP_065116	Q9NQW7	XPP1_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 1,	297					bradykinin catabolic process|proteolysis		manganese ion binding|metalloaminopeptidase activity|protein homodimerization activity			ovary(3)|pancreas(1)	4		Breast(234;0.174)		Epithelial(162;1.64e-05)|all cancers(201;0.000564)|BRCA - Breast invasive adenocarcinoma(275;0.0721)		TCTCGCTCACAGCATAGCTGG	0.572													14	52					0	0	1	0	0		G	111642211	G	G	111642211	2	3	27	1	0	0	0	0	0	0	0	1	17468	175	7	3		3	XPNPEP1	10	111642211	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5039633	111642211	23892536	4815	27166											
ADD3	120	broad.mit.edu	37	chr10	111876060	111876060	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgaccttcctggtgcagaTacatcctcatatgtgaaggg	11	11	10	9	0	1	3	1	2	0	1	3	3	3	3	3	2	2	1	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:111876060T>A	uc001kyt.3	+	5	692	c.378T>A	c.(376-378)GAT>GAA	p.D126E	ADD3_uc001kys.3_Missense_Mutation_p.D126E|ADD3_uc001kyu.2_Missense_Mutation_p.D126E|ADD3_uc001kyv.2_Missense_Mutation_p.D126E|ADD3_uc001kyw.2_Missense_Mutation_p.D126E	NM_016824	NP_058432	Q9UEY8	ADDG_HUMAN	adducin 3 (gamma) isoform a	126						cytoskeleton	actin binding|calmodulin binding|metal ion binding|structural constituent of cytoskeleton			ovary(2)|skin(2)|large_intestine(1)	5		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;4.15e-05)|all cancers(201;0.000587)|BRCA - Breast invasive adenocarcinoma(275;0.0742)		CTGGTGCAGATACATCCTCAT	0.448													7	82					0	0	1	0	0		A	111876060	A	A	111876060	3	1	27	1	0	0	0	0	1	0	0	0	306	1403	49	5	388	5	ADD3	10	111876060	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	233849	111876060	23658687	4816	27167											
ADD3	120	broad.mit.edu	37	chr10	111879279	111879279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaaacattagaggaggCttttcattatatttttaatg	13	16	9	3	0	1	2	1	0	0	2	1	4	1	3	0	3	1	1	0	3	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:111879279C>T	uc001kyt.3	+	9	1231	c.917C>T	c.(916-918)GCT>GTT	p.A306V	ADD3_uc001kys.3_Missense_Mutation_p.A306V|ADD3_uc001kyu.2_Missense_Mutation_p.A306V|ADD3_uc001kyv.2_Missense_Mutation_p.A306V|ADD3_uc001kyw.2_Missense_Mutation_p.A306V	NM_016824	NP_058432	Q9UEY8	ADDG_HUMAN	adducin 3 (gamma) isoform a	306						cytoskeleton	actin binding|calmodulin binding|metal ion binding|structural constituent of cytoskeleton			ovary(2)|skin(2)|large_intestine(1)	5		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;4.15e-05)|all cancers(201;0.000587)|BRCA - Breast invasive adenocarcinoma(275;0.0742)		TTAGAGGAGGCTTTTCATTAT	0.378													21	198					0	0	1	0	0		T	111879279	T	T	111879279	3	4	27	1	0	0	0	0	1	0	0	0	306	797	28	2	943	2	ADD3	10	111879279	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3219	111879279	23655468	4817	27168											
SMNDC1	10285	broad.mit.edu	37	chr10	112053968	112053968	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttgatattgtgtcataggTttatcagcaattccacaggt	10	16	8	7	0	3	1	2	1	1	0	4	1	4	1	1	2	1	2	1	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:112053968T>G	uc001kzc.3	-	6	859	c.657A>C	c.(655-657)AAA>AAC	p.K219N	SMNDC1_uc001kzb.2_Missense_Mutation_p.K140N	NM_005871	NP_005862	O75940	SPF30_HUMAN	survival motor neuron domain containing 1	219					apoptosis|induction of apoptosis|mRNA processing|RNA splicing, via transesterification reactions	Cajal body|cytoplasm|nuclear speck|spliceosomal complex	protein binding|RNA binding			skin(1)	1		Breast(234;0.174)		Epithelial(162;6.86e-05)|all cancers(201;0.00149)|BRCA - Breast invasive adenocarcinoma(275;0.119)		GTGTCATAGGTTTATCAGCAA	0.383													8	133					0	0	1	0	0		G	112053968	G	G	112053968	3	3	27	1	0	0	0	0	1	0	0	0	14824	1722	60	5	63	5	SMNDC1	10	112053968	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	174689	112053968	23480779	4818	27169											
DUSP5	1847	broad.mit.edu	37	chr10	112266745	112266745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttggaagtgcctaccatgCatccaagtgcgagttcctcg	8	10	10	13	2	0	0	0	0	0	0	3	2	2	1	5	1	4	2	5	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:112266745C>T	uc001kzd.2	+	3	836	c.581C>T	c.(580-582)GCA>GTA	p.A194V		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	194	Tyrosine-protein phosphatase.				endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		GCCTACCATGCATCCAAGTGC	0.542													25	263					0	0	1	0	0		T	112266745	T	T	112266745	3	4	27	1	0	0	0	0	1	0	0	0	4834	710	25	2	591	2	DUSP5	10	112266745	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	212777	112266745	23268002	4819	27170											
SMC3	9126	broad.mit.edu	37	chr10	112349459	112349459	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagatgaactacaaagtGaaagaaagttagtatagact	21	8	9	3	0	0	6	0	2	0	4	0	6	0	6	0	0	2	2	0	0	9	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:112349459G>T	uc001kze.2	+	14	1528	c.1402G>T	c.(1402-1404)GAA>TAA	p.E468*		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	468	Potential.				cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		ACTACAAAGTGAAAGAAAGTT	0.333													11	27					3.86212e-05	4.11225e-05	1	1	0		T	112349459	T	T	112349459	4	4	27	1	0	0	0	0	0	1	0	0	14809	1291	45	5	1456	5	SMC3	10	112349459	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	82714	112349459	23185288	4820	27171											
SMC3	9126	broad.mit.edu	37	chr10	112357915	112357915	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggattaataatgaaattgAtcagttgatgaaccaaatgc	17	12	8	4	0	1	4	1	4	0	0	1	5	1	5	1	1	2	1	1	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:112357915A>G	uc001kze.2	+	20	2261	c.2135A>G	c.(2134-2136)GAT>GGT	p.D712G		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	712	Potential.				cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		AATGAAATTGATCAGTTGATG	0.318													22	147					0	0	1	0	0		G	112357915	G	G	112357915	3	3	27	1	0	0	0	0	1	0	0	0	14809	333	12	3	2213	3	SMC3	10	112357915	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8456	112357915	23176832	4821	27172											
SHOC2	8036	broad.mit.edu	37	chr10	112769025	112769025	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttcttatcttatcaaacaAtcttctaaagaagcttcccc	12	14	4	11	0	5	1	1	0	4	1	6	1	6	1	2	1	2	2	2	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:112769025A>T	uc001kzl.3	+	7	1653	c.1304A>T	c.(1303-1305)AAT>ATT	p.N435I	SHOC2_uc009xxx.2_Missense_Mutation_p.N435I|SHOC2_uc010qrg.1_Missense_Mutation_p.N74I|SHOC2_uc001kzn.2_Missense_Mutation_p.N389I	NM_007373	NP_031399	Q9UQ13	SHOC2_HUMAN	soc-2 suppressor of clear homolog	435	LRR 15.				fibroblast growth factor receptor signaling pathway|positive regulation of Ras protein signal transduction|Ras protein signal transduction	nucleus|protein phosphatase type 1 complex	protein phosphatase binding|protein phosphatase regulator activity			ovary(1)|skin(1)	2				Epithelial(162;0.000796)|all cancers(201;0.011)|BRCA - Breast invasive adenocarcinoma(275;0.126)		TTATCAAACAATCTTCTAAAG	0.313													5	42					0	0	1	0	0		T	112769025	T	T	112769025	3	4	27	1	0	0	0	0	1	0	0	0	14312	101	4	5	1326	5	SHOC2	10	112769025	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	411110	112769025	22765722	4822	27173											
NRAP	4892	broad.mit.edu	37	chr10	115375543	115375543	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtcggtgtgtaatgatgCtttatgttttctccttgttc	5	19	10	7	1	1	1	0	1	1	0	4	1	1	1	1	1	1	5	1	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:115375543C>A	uc001laj.2	-	27	3170	c.3006G>T	c.(3004-3006)AAG>AAT	p.K1002N	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Missense_Mutation_p.K967N|NRAP_uc001lal.3_Missense_Mutation_p.K1002N	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	1002	Nebulin 25.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		TGTAATGATGCTTTATGTTTT	0.502													3	33					1	1	1	1	0		A	115375543	A	A	115375543	3	1	27	1	0	0	0	0	1	0	0	0	10657	796	28	5	2250	5	NRAP	10	115375543	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2606518	115375543	20159204	4823	27174											
NRAP	4892	broad.mit.edu	37	chr10	115411615	115411615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagcagctcaggagtatccaCcaccgtggagaacctggaga	12	6	12	11	1	1	2	1	0	0	2	2	5	2	3	4	3	3	3	4	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:115411615C>T	uc001laj.2	-	7	786	c.622G>A	c.(622-624)GTG>ATG	p.V208M	NRAP_uc001lak.2_Missense_Mutation_p.V208M|NRAP_uc001lal.3_Missense_Mutation_p.V208M	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	208	Nebulin 4.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		GGAGTATCCACCACCGTGGAG	0.463													7	45					0	0	1	0	0		T	115411615	T	T	115411615	3	4	27	1	0	0	0	0	1	0	0	0	10657	507	18	4	4714	4	NRAP	10	115411615	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	36072	115411615	20123132	4824	27175											
NHLRC2	374354	broad.mit.edu	37	chr10	115639443	115639443	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagacactgaaaaccacCttataagaaaggtaattttc	16	10	7	8	0	0	3	0	1	0	2	1	3	0	3	2	2	1	2	2	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:115639443C>A	uc001lax.1	+	4	1110	c.898C>A	c.(898-900)CTT>ATT	p.L300I		NM_198514	NP_940916	Q8NBF2	NHLC2_HUMAN	NHL repeat containing 2	300	NHL 2.				cell redox homeostasis					ovary(1)	1				Epithelial(162;0.017)|all cancers(201;0.0187)		TGAAAACCACCTTATAAGAAA	0.279													7	60					2.0095e-06	2.17775e-06	1	1	0		A	115639443	A	A	115639443	3	1	27	1	0	0	0	0	1	0	0	0	10425	681	24	5	912	5	NHLRC2	10	115639443	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	227828	115639443	19895304	4825	27176											
ADRB1	153	broad.mit.edu	37	chr10	115804281	115804281	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagtacggctccttcttCtgcgagctgtggacctcagt	5	12	13	11	2	3	0	1	0	2	0	4	3	4	2	2	3	3	3	2	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:115804281C>A	uc001lba.2	+	1	476	c.390C>A	c.(388-390)TTC>TTA	p.F130L		NM_000684	NP_000675	P08588	ADRB1_HUMAN	beta-1-adrenergic receptor	130	Extracellular (By similarity).				positive regulation of cAMP biosynthetic process	integral to plasma membrane	alpha-2A adrenergic receptor binding|beta1-adrenergic receptor activity|protein heterodimerization activity				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0124)|all cancers(201;0.0298)	Acebutolol(DB01193)|Alprenolol(DB00866)|Amiodarone(DB01118)|Arbutamine(DB01102)|Atenolol(DB00335)|Betaxolol(DB00195)|Bevantolol(DB01295)|Bisoprolol(DB00612)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Desipramine(DB01151)|Dobutamine(DB00841)|Dopamine(DB00988)|Epinephrine(DB00668)|Esmolol(DB00187)|Isoetharine(DB00221)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Metoprolol(DB00264)|Nadolol(DB01203)|Norepinephrine(DB00368)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Practolol(DB01297)|Propranolol(DB00571)|Risperidone(DB00734)|Timolol(DB00373)|Ziprasidone(DB00246)	GCTCCTTCTTCTGCGAGCTGT	0.662													12	94					2.68362e-12	2.98486e-12	1	1	0		A	115804281	A	A	115804281	3	1	27	1	0	0	0	0	1	0	0	0	340	912	32	5	392	5	ADRB1	10	115804281	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	164838	115804281	19730466	4826	27177											
VWA2	340706	broad.mit.edu	37	chr10	116038533	116038533	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgctggagatggtccgggaGttcgctggcaatgccccatg	7	8	15	11	3	0	1	0	0	0	1	2	3	1	2	3	4	1	4	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:116038533G>A	uc001lbl.1	+	8	1077	c.756G>A	c.(754-756)GAG>GAA	p.E252E	VWA2_uc001lbk.1_Silent_p.E252E|VWA2_uc009xyf.1_5'UTR	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	252						extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		TGGTCCGGGAGTTCGCTGGCA	0.637													7	98					0	0	1	0	0		A	116038533	A	A	116038533	2	1	27	1	0	0	0	0	0	0	0	1	17265	1020	36	4		4	VWA2	10	116038533	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	234252	116038533	19496214	4827	27178											
VWA2	340706	broad.mit.edu	37	chr10	116046101	116046101	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcgggcccagcgcgtcaCgcaagggcgcgagagctgct	6	5	17	13	6	1	1	1	0	0	1	1	2	1	1	1	2	4	4	1	2	1	1	rs145894848		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:116046101C>T	uc001lbl.1	+	11	1722	c.1401C>T	c.(1399-1401)CAC>CAT	p.H467H	VWA2_uc001lbk.1_Silent_p.H467H|VWA2_uc009xyf.1_Silent_p.H163H	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	467	VWFA 2.					extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		CAGCGCGTCACGCAAGGGCGC	0.642													11	94					0	0	1	0	0		T	116046101	T	T	116046101	2	4	27	1	0	0	0	0	0	0	0	1	17265	535	19	1		1	VWA2	10	116046101	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7568	116046101	19488646	4828	27179											
VWA2	340706	broad.mit.edu	37	chr10	116049204	116049204	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtggcagcttacgccgAcctgcggtaccaccaggacg	8	5	12	16	5	0	0	0	0	0	0	0	2	0	1	5	3	4	3	5	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:116049204A>G	uc001lbl.1	+	12	2399	c.2078A>G	c.(2077-2079)GAC>GGC	p.D693G	VWA2_uc001lbk.1_Missense_Mutation_p.D693G|VWA2_uc009xyf.1_Missense_Mutation_p.D389G	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	693	VWFA 3.					extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		GCTTACGCCGACCTGCGGTAC	0.642													4	59					0	0	1	0	0		G	116049204	G	G	116049204	3	3	27	1	0	0	0	0	1	0	0	0	17265	275	10	3	2120	3	VWA2	10	116049204	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3103	116049204	19485543	4829	27180											
FAM160B1	57700	broad.mit.edu	37	chr10	116595304	116595304	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctatacccagtgtcctccGggaatgaaacagcaggtttt	10	11	9	11	1	0	1	0	1	0	0	3	2	3	2	4	2	3	2	4	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:116595304G>A	uc001lcb.2	+	4	638	c.303G>A	c.(301-303)CCG>CCA	p.P101P	FAM160B1_uc001lcc.2_Silent_p.P101P	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	101										lung(1)	1						AGTGTCCTCCGGGAATGAAAC	0.423													12	85					0	0	1	0	0		A	116595304	A	A	116595304	2	1	27	1	0	0	0	0	0	0	0	1	5481	1103	39	1		1	FAM160B1	10	116595304	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	546100	116595304	18939443	4830	27181											
FAM160B1	57700	broad.mit.edu	37	chr10	116608429	116608429	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgtctggtaccggatgAcgcaaaatcctcctaccatg	9	11	8	13	2	2	1	0	1	2	0	5	2	4	2	4	2	2	2	4	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:116608429A>G	uc001lcb.2	+	13	2071	c.1736A>G	c.(1735-1737)GAC>GGC	p.D579G	FAM160B1_uc001lcc.2_Missense_Mutation_p.D579G	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	579										lung(1)	1						GTACCGGATGACGCAAAATCC	0.403													5	59					0	0	1	0	0		G	116608429	G	G	116608429	3	3	27	1	0	0	0	0	1	0	0	0	5481	275	10	3	1786	3	FAM160B1	10	116608429	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	13125	116608429	18926318	4831	27182											
ATRNL1	26033	broad.mit.edu	37	chr10	117154195	117154195	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgcagtggccatgcaaatAtctgtcatctgcacacagga	12	9	9	11	0	3	0	1	0	2	0	3	1	3	1	1	2	3	3	1	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:117154195A>T	uc001lcg.2	+	20	3588	c.3202A>T	c.(3202-3204)ATC>TTC	p.I1068F	ATRNL1_uc010qsm.1_Missense_Mutation_p.I197F|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	1068	Laminin EGF-like 2.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		CCATGCAAATATCTGTCATCT	0.343													7	45					0	0	1	0	0		T	117154195	T	T	117154195	3	4	27	1	0	0	0	0	1	0	0	0	1208	449	16	5	3280	5	ATRNL1	10	117154195	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	545766	117154195	18380552	4832	27183											
PNLIPRP1	5407	broad.mit.edu	37	chr10	118368620	118368620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acacgctgctcaccctcacgCcctgctaagctcccggggcg	6	6	10	19	4	2	0	2	0	0	0	3	0	3	0	3	2	3	4	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:118368620C>T	uc001lco.1	+	13	1414	c.1396C>T	c.(1396-1398)CCC>TCC	p.P466S	PNLIPRP1_uc001lcp.2_Missense_Mutation_p.P466S	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	466	PLAT.				lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		CACCCTCACGCCCTGCTAAGC	0.562													4	44					0	0	1	0	0		T	118368620	T	T	118368620	3	4	27	1	0	0	0	0	1	0	0	0	12169	739	26	2	1442	2	PNLIPRP1	10	118368620	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1214425	118368620	17166127	4833	27184											
PNLIPRP2	5408	broad.mit.edu	37	chr10	118394418	118394418	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttactcaagcagcgtcctcaAccctgatggcttcctgggct	7	11	9	14	1	2	1	2	1	0	0	4	1	4	1	3	2	4	3	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:118394418A>G	uc001lcq.2	+	11	910	c.887A>G	c.(886-888)AAC>AGC	p.N296S	PNLIPRP2_uc009xyu.1_RNA|PNLIPRP2_uc009xyv.1_RNA	NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2	295					galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		AGCGTCCTCAACCCTGATGGC	0.517													4	45					0	0	1	0	0		G	118394418	G	G	118394418	3	3	27	1	0	0	0	0	1	0	0	0	12170	43	2	3	920	3	PNLIPRP2	10	118394418	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	25798	118394418	17140329	4834	27185											
HSPA12A	259217	broad.mit.edu	37	chr10	118439134	118439134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggggcagccgcccttttgCgagactcaaacgcaatcatt	9	9	10	13	3	2	1	2	0	0	1	2	2	2	1	2	2	3	2	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:118439134C>T	uc001lct.2	-	10	1271	c.1166G>A	c.(1165-1167)CGC>CAC	p.R389H	HSPA12A_uc001lcu.2_Missense_Mutation_p.R306H	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	389							ATP binding			ovary(1)	1				all cancers(201;0.0158)		CGCCCTTTTGCGAGACTCAAA	0.463													11	96					0	0	1	0	0		T	118439134	T	T	118439134	3	4	27	1	0	0	0	0	1	0	0	0	7420	768	27	1	873	1	HSPA12A	10	118439134	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	44716	118439134	17095613	4835	27186											
HSPA12A	259217	broad.mit.edu	37	chr10	118460506	118460506	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaggtacagccactgcttgGcctcattgggatccaggtca	8	9	11	13	0	2	0	2	0	0	0	3	1	3	1	4	4	3	2	4	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:118460506G>T	uc001lct.2	-	4	494	c.389C>A	c.(388-390)GCC>GAC	p.A130D	HSPA12A_uc001lcu.2_Missense_Mutation_p.A47D	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	130							ATP binding			ovary(1)	1				all cancers(201;0.0158)		CCACTGCTTGGCCTCATTGGG	0.582													5	108					0.184627	0.185716	1	1	0		T	118460506	T	T	118460506	3	4	27	1	0	0	0	0	1	0	0	0	7420	1203	42	5	1674	5	HSPA12A	10	118460506	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21372	118460506	17074241	4836	27187											
HSPA12A	259217	broad.mit.edu	37	chr10	118464750	118464750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcgacggccaccaccacgaGaaatgactgctgttctgaga	11	7	11	12	3	1	3	0	2	1	2	2	6	1	3	3	1	1	2	3	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:118464750G>A	uc001lct.2	-	3	271	c.166C>T	c.(166-168)CTC>TTC	p.L56F	HSPA12A_uc001lcu.2_5'UTR	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	56							ATP binding			ovary(1)	1				all cancers(201;0.0158)		ACCACCACGAGAAATGACTGC	0.557													5	127					0	0	1	0	0		A	118464750	A	A	118464750	3	1	27	1	0	0	0	0	1	0	0	0	7420	942	33	4	1901	4	HSPA12A	10	118464750	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4244	118464750	17069997	4837	27188											
KIAA1598	57698	broad.mit.edu	37	chr10	118719729	118719729	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaattaacttcctctatgAccatgtgagaaactaggaat	15	12	7	7	0	1	3	0	3	1	1	2	5	2	4	2	1	2	0	2	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:118719729A>G	uc009xyw.2	-	4	683	c.185T>C	c.(184-186)GTC>GCC	p.V62A	KIAA1598_uc001lcz.3_Missense_Mutation_p.V62A|KIAA1598_uc010qso.1_Missense_Mutation_p.V2A|KIAA1598_uc010qsp.1_Missense_Mutation_p.V62A|KIAA1598_uc010qsq.1_Missense_Mutation_p.V2A|KIAA1598_uc001lcy.3_Missense_Mutation_p.V32A	NM_001127211	NP_001120683	A0MZ66	SHOT1_HUMAN	shootin1 isoform a	62	Potential.				axon guidance	axon					0				all cancers(201;0.00494)		TTCCTCTATGACCATGTGAGA	0.408													4	36					0	0	1	0	0		G	118719729	G	G	118719729	3	3	27	1	0	0	0	0	1	0	0	0	8262	275	10	3	1766	3	KIAA1598	10	118719729	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	254979	118719729	16815018	4838	27189											
KCNK18	338567	broad.mit.edu	37	chr10	118969029	118969029	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatggctacatctaccccgTcaccaggcttggcaagtact	9	10	8	14	1	2	0	1	0	1	0	2	0	2	0	3	3	3	4	3	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:118969029T>G	uc010qsr.1	+	3	374	c.374T>G	c.(373-375)GTC>GGC	p.V125G		NM_181840	NP_862823	Q7Z418	KCNKI_HUMAN	potassium channel, subfamily K, member 18	125						integral to membrane|plasma membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;0.19)		all cancers(201;0.0211)		ATCTACCCCGTCACCAGGCTT	0.507													18	309					0	0	1	0	0		G	118969029	G	G	118969029	3	3	27	1	0	0	0	0	1	0	0	0	8081	1667	58	5	384	5	KCNK18	10	118969029	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	249300	118969029	16565718	4839	27190											
RAB11FIP2	22841	broad.mit.edu	37	chr10	119799972	119799972	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtccttcattgataagTcaaacatacttgcggtcata	11	16	6	8	1	3	1	3	1	0	0	4	1	4	1	1	1	3	0	1	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:119799972T>C	uc001ldj.1	-	2	898	c.458A>G	c.(457-459)GAC>GGC	p.D153G	RAB11FIP2_uc009xyz.1_Missense_Mutation_p.D153G	NM_014904	NP_055719	Q7L804	RFIP2_HUMAN	RAB11 family interacting protein 2	153					protein transport	plasma membrane|recycling endosome membrane	protein homodimerization activity				0		Colorectal(252;0.235)		all cancers(201;0.0238)		CATTGATAAGTCAAACATACT	0.338													4	57					0	0	1	0	0		C	119799972	C	C	119799972	3	2	27	1	0	0	0	0	1	0	0	0	12919	1667	58	3	1096	3	RAB11FIP2	10	119799972	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	830943	119799972	15734775	4840	27191											
EIF3A	8661	broad.mit.edu	37	chr10	120810101	120810101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctatagtatgttatcctgCgttcttctttacgctgcctt	5	19	6	11	2	3	0	0	0	3	0	4	0	4	0	2	0	3	4	2	0	5	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:120810101C>T	uc001ldu.2	-	16	2551	c.2405G>A	c.(2404-2406)CGC>CAC	p.R802H	EIF3A_uc010qsu.1_Missense_Mutation_p.R768H|EIF3A_uc009xzg.1_5'Flank	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	802	Interaction with EIF3B.|Glu-rich.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		TGTTATCCTGCGTTCTTCTTT	0.418													17	251					0	0	1	0	0		T	120810101	T	T	120810101	3	4	27	1	0	0	0	0	1	0	0	0	5018	768	27	1	1771	1	EIF3A	10	120810101	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1010129	120810101	14724646	4841	27192											
EIF3A	8661	broad.mit.edu	37	chr10	120818859	120818859	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatcttctcgagtagcataAttcaaatcagatccaaaact	15	11	5	10	1	4	1	2	0	2	1	6	2	5	1	1	0	2	3	1	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:120818859A>G	uc001ldu.2	-	11	1640	c.1494T>C	c.(1492-1494)AAT>AAC	p.N498N	EIF3A_uc010qsu.1_Silent_p.N464N	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	498					formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		GAGTAGCATAATTCAAATCAG	0.408													7	71					0	0	1	0	0		G	120818859	G	G	120818859	2	3	27	1	0	0	0	0	0	0	0	1	5018	98	4	3		3	EIF3A	10	120818859	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8758	120818859	14715888	4842	27193											
INPP5F	22876	broad.mit.edu	37	chr10	121582627	121582627	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccaaagttctcctgcatgCgactgcactacagatacaaa	14	8	7	12	1	1	1	0	0	1	1	2	2	1	1	2	0	6	3	2	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:121582627C>T	uc001leo.2	+	18	2243	c.2077C>T	c.(2077-2079)CGA>TGA	p.R693*	INPP5F_uc001lep.2_Nonsense_Mutation_p.R83*	NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	693							phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		CTCCTGCATGCGACTGCACTA	0.403													7	77					0	0	1	0	0		T	121582627	T	T	121582627	4	4	27	1	0	0	0	0	0	1	0	0	7774	760	27	1	2147	1	INPP5F	10	121582627	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	763768	121582627	13952120	4843	27194											
SEC23IP	11196	broad.mit.edu	37	chr10	121671606	121671606	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagatgaatggggcaccacGcaagatggacagacaaggcc	14	3	13	11	1	0	4	0	1	0	3	0	5	0	5	3	4	0	2	3	4	3	0	rs146017364		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:121671606G>A	uc001leu.1	+	6	1314	c.1242G>A	c.(1240-1242)ACG>ACA	p.T414T	SEC23IP_uc010qtc.1_Silent_p.T203T	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	414					Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		GGGGCACCACGCAAGATGGAC	0.438													5	108					0	0	1	0	0		A	121671606	A	A	121671606	2	1	27	1	0	0	0	0	0	0	0	1	14018	1074	38	1		1	SEC23IP	10	121671606	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	88979	121671606	13863141	4844	27195											
FGFR2	2263	broad.mit.edu	37	chr10	123247527	123247527	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggtctttttgtaatagTctatattgttgatatctctg	7	21	9	4	0	3	1	0	1	3	0	4	1	3	1	0	2	0	2	0	2	5	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:123247527T>C	uc010qtk.1	-	15	2611	c.1964A>G	c.(1963-1965)GAC>GGC	p.D655G	FGFR2_uc010qtg.1_Missense_Mutation_p.D543G|FGFR2_uc010qth.1_Missense_Mutation_p.D540G|FGFR2_uc010qti.1_Missense_Mutation_p.D566G|FGFR2_uc010qtj.1_Missense_Mutation_p.D656G|FGFR2_uc010qtl.1_Missense_Mutation_p.D539G|FGFR2_uc010qtm.1_Missense_Mutation_p.D538G|FGFR2_uc001lfl.3_Missense_Mutation_p.D656G|FGFR2_uc001lfm.2_Missense_Mutation_p.D567G|FGFR2_uc001lfg.3_Missense_Mutation_p.D263G	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	655	Cytoplasmic (Potential).|Protein kinase.				angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of mesenchymal cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding			endometrium(44)|skin(28)|lung(11)|ovary(4)|cervix(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|soft_tissue(1)|central_nervous_system(1)	96		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Palifermin(DB00039)	TTTGTAATAGTCTATATTGTT	0.433		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				17	147					0	0	1	0	0		C	123247527	C	C	123247527	3	2	27	1	0	0	0	0	1	0	0	0	5880	1667	58	3	625	3	FGFR2	10	123247527	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1575921	123247527	12287220	4845	27196											
TACC2	10579	broad.mit.edu	37	chr10	123810012	123810012	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgggaacagtcagaatatAaaaaggaagcagcaggacac	18	3	11	9	1	1	1	1	0	0	1	1	4	1	4	1	3	3	2	1	3	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:123810012A>G	uc001lfv.2	+	3	453	c.93A>G	c.(91-93)ATA>ATG	p.I31M	TACC2_uc001lfw.2_Missense_Mutation_p.I31M|TACC2_uc009xzx.2_Missense_Mutation_p.I31M|TACC2_uc010qtv.1_Missense_Mutation_p.I31M	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	31						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				GTCAGAATATAAAAAGGAAGC	0.557													6	41					0	0	1	0	0		G	123810012	G	G	123810012	3	3	27	1	0	0	0	0	1	0	0	0	15527	352	13	3	99	3	TACC2	10	123810012	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	562485	123810012	11724735	4846	27197											
HTRA1	5654	broad.mit.edu	37	chr10	124249068	124249068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagttgagctgaagaacGgtgccacttacgaagccaaa	15	7	10	9	2	1	3	1	2	0	1	1	4	1	3	2	1	5	2	2	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:124249068G>A	uc001lgj.2	+	3	831	c.703G>A	c.(703-705)GGT>AGT	p.G235S		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	235	Serine protease.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				GCTGAAGAACGGTGCCACTTA	0.507													12	65					0	0	1	0	0		A	124249068	A	A	124249068	3	1	27	1	0	0	0	0	1	0	0	0	7469	1116	39	1	713	1	HTRA1	10	124249068	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	439056	124249068	11285679	4847	27198											
DMBT1	1755	broad.mit.edu	37	chr10	124345846	124345846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtggagctgcccccacaatgGctggctctcccataactgtg	7	9	11	14	0	1	0	0	0	1	0	2	1	1	1	3	3	3	3	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:124345846G>A	uc001lgk.1	+	16	1836	c.1730G>A	c.(1729-1731)GGC>GAC	p.G577D	DMBT1_uc001lgl.1_Missense_Mutation_p.G567D|DMBT1_uc001lgm.1_Intron|DMBT1_uc009xzz.1_Missense_Mutation_p.G577D|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yaa.1_Intron	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	577	SRCR 4.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				CCCCACAATGGCTGGCTCTCC	0.557													14	48					0	0	1	0	0		A	124345846	A	A	124345846	3	1	27	1	0	0	0	0	1	0	0	0	4583	1203	42	2	1792	2	DMBT1	10	124345846	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	96778	124345846	11188901	4848	27199											
DMBT1	1755	broad.mit.edu	37	chr10	124358514	124358514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccattgtcctggatgatgtgCgctgctcaggacacgagtct	7	11	12	11	2	2	1	1	1	1	0	3	4	3	3	2	2	2	2	2	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:124358514C>T	uc001lgk.1	+	26	3287	c.3181C>T	c.(3181-3183)CGC>TGC	p.R1061C	DMBT1_uc001lgl.1_Missense_Mutation_p.R1051C|DMBT1_uc001lgm.1_Missense_Mutation_p.R562C|DMBT1_uc009xzz.1_Missense_Mutation_p.R1061C|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yab.1_Missense_Mutation_p.R22C	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1061	SRCR 8.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				GGATGATGTGCGCTGCTCAGG	0.597													18	140					0	0	1	0	0		T	124358514	T	T	124358514	3	4	27	1	0	0	0	0	1	0	0	0	4583	768	27	1	3283	1	DMBT1	10	124358514	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12668	124358514	11176233	4849	27200											
DMBT1	1755	broad.mit.edu	37	chr10	124396722	124396722	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggcttttctgccagtgAccttgtcatttccacctgga	5	15	9	12	0	2	1	1	1	1	0	3	2	3	2	4	2	1	1	4	2	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:124396722A>G	uc001lgk.1	+	51	6555	c.6449A>G	c.(6448-6450)GAC>GGC	p.D2150G	DMBT1_uc001lgl.1_Missense_Mutation_p.D2140G|DMBT1_uc001lgm.1_Missense_Mutation_p.D1522G|DMBT1_uc009xzz.1_Missense_Mutation_p.D2149G|DMBT1_uc010qtx.1_Missense_Mutation_p.D870G|DMBT1_uc009yab.1_Missense_Mutation_p.D853G|DMBT1_uc009yac.1_Missense_Mutation_p.D444G	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	2150	ZP.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TCTGCCAGTGACCTTGTCATT	0.512													13	66					0	0	1	0	0		G	124396722	G	G	124396722	3	3	27	1	0	0	0	0	1	0	0	0	4583	275	10	3	6651	3	DMBT1	10	124396722	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	38208	124396722	11138025	4850	27201											
C10orf88	80007	broad.mit.edu	37	chr10	124712522	124712522	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcatctttgttgttgtggTttctcttcaaaatcaccaga	8	19	6	8	0	5	1	3	0	2	1	6	1	5	1	1	1	0	3	1	1	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:124712522T>C	uc001lgw.2	-	2	416	c.191A>G	c.(190-192)AAC>AGC	p.N64S	C10orf88_uc001lgx.2_5'UTR	NM_024942	NP_079218	Q9H8K7	CJ088_HUMAN	hypothetical protein LOC80007	64											0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)		GTTGTTGTGGTTTCTCTTCAA	0.373													3	28					0	0	1	0	0		C	124712522	C	C	124712522	3	2	27	1	0	0	0	0	1	0	0	0	1625	1725	60	3	1166	3	C10orf88	10	124712522	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	315800	124712522	10822225	4851	27202											
PSTK	118672	broad.mit.edu	37	chr10	124742347	124742347	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagatgtctgtcccacccaaCaggactgaagccatgtggga	11	7	11	12	0	1	2	0	1	1	1	2	4	2	4	3	2	2	0	3	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:124742347C>T	uc001lgy.1	+	2	755	c.315C>T	c.(313-315)AAC>AAT	p.N105N		NM_153336	NP_699167	Q8IV42	PSTK_HUMAN	phosphoseryl-tRNA kinase	105							ATP binding|kinase activity			liver(1)	1		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0725)		TCCCACCCAACAGGACTGAAG	0.438													18	81					0	0	1	0	0		T	124742347	T	T	124742347	2	4	27	1	0	0	0	0	0	0	0	1	12742	477	17	4		4	PSTK	10	124742347	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	29825	124742347	10792400	4852	27203											
IKZF5	64376	broad.mit.edu	37	chr10	124753312	124753312	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatcaatgttggttatgtTgccctcttgcaaaatgacag	11	14	8	8	0	3	1	2	1	1	0	3	1	3	1	1	1	2	4	1	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:124753312T>C	uc001lha.2	-	5	1543	c.1244A>G	c.(1243-1245)CAA>CGA	p.Q415R	IKZF5_uc001lgz.2_Missense_Mutation_p.Q253R	NM_022466	NP_071911	Q9H5V7	IKZF5_HUMAN	zinc finger protein, subfamily 1A, 5	415	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_neural(114;0.169)|Colorectal(57;0.178)|Glioma(114;0.222)		Colorectal(40;0.0701)|COAD - Colon adenocarcinoma(40;0.0754)		TTGGTTATGTTGCCCTCTTGC	0.313													7	80					0	0	1	0	0		C	124753312	C	C	124753312	3	2	27	1	0	0	0	0	1	0	0	0	7634	1812	63	3	19	3	IKZF5	10	124753312	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10965	124753312	10781435	4853	27204											
IKZF5	64376	broad.mit.edu	37	chr10	124758027	124758027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctccctgaagagcctctgCttctttgtccccactaactg	7	12	6	16	0	2	2	0	1	2	1	4	2	4	2	5	0	3	1	5	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:124758027C>T	uc001lha.2	-	3	414	c.115G>A	c.(115-117)GCA>ACA	p.A39T		NM_022466	NP_071911	Q9H5V7	IKZF5_HUMAN	zinc finger protein, subfamily 1A, 5	39					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_neural(114;0.169)|Colorectal(57;0.178)|Glioma(114;0.222)		Colorectal(40;0.0701)|COAD - Colon adenocarcinoma(40;0.0754)		AGAGCCTCTGCTTCTTTGTCC	0.423													6	64					0	0	1	0	0		T	124758027	T	T	124758027	3	4	27	1	0	0	0	0	1	0	0	0	7634	797	28	2	1156	2	IKZF5	10	124758027	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4715	124758027	10776720	4854	27205											
HMX3	340784	broad.mit.edu	37	chr10	124897045	124897045	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctggcggcggagctggAggcggccaacctgagccatg	7	4	18	12	3	0	1	0	1	0	0	0	3	0	3	3	6	4	3	3	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:124897045A>T	uc010quc.1	+	2	872	c.872A>T	c.(871-873)GAG>GTG	p.E291V		NM_001105574	NP_001099044	A6NHT5	HMX3_HUMAN	H6 family homeobox 3	291					cell differentiation	nucleus	sequence-specific DNA binding transcription factor activity				0		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.122)|COAD - Colon adenocarcinoma(40;0.141)		GCGGAGCTGGAGGCGGCCAAC	0.577													4	33					0	0	1	0	0		T	124897045	T	T	124897045	3	4	27	1	0	0	0	0	1	0	0	0	7264	304	11	5	878	5	HMX3	10	124897045	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	139018	124897045	10637702	4855	27206											
ZRANB1	54764	broad.mit.edu	37	chr10	126662901	126662901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agttctacaagctacctgggGcatctatgacaaggactcag	12	9	10	10	0	3	1	1	1	2	0	3	2	3	2	1	3	3	3	1	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:126662901G>A	uc001lic.2	+	5	1732	c.1361G>A	c.(1360-1362)GGC>GAC	p.G454D	ZRANB1_uc010qug.1_Missense_Mutation_p.G480D	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	454	OTU.|TRAF-binding.				positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)		GCTACCTGGGGCATCTATGAC	0.512													5	93					0	0	1	0	0		A	126662901	A	A	126662901	3	1	27	1	0	0	0	0	1	0	0	0	18247	1203	42	2	1379	2	ZRANB1	10	126662901	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1765856	126662901	8871846	4856	27207											
CTBP2	1488	broad.mit.edu	37	chr10	126683094	126683094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgttcgttgagattgcagtGcaaggagacgcagtcgctct	9	11	13	8	3	1	2	0	1	1	2	3	4	1	2	0	1	2	6	0	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:126683094G>A	uc009yak.2	-	7	1011	c.724C>T	c.(724-726)CAC>TAC	p.H242Y	CTBP2_uc009yal.2_Missense_Mutation_p.H242Y|CTBP2_uc001lif.3_Missense_Mutation_p.H242Y|CTBP2_uc001lih.3_Missense_Mutation_p.H242Y|CTBP2_uc001lid.3_Missense_Mutation_p.H310Y|CTBP2_uc001lie.3_Missense_Mutation_p.H782Y	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1	242					negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)		AGATTGCAGTGCAAGGAGACG	0.498													14	41					0	0	1	0	0		A	126683094	A	A	126683094	3	1	27	1	0	0	0	0	1	0	0	0	4001	1319	46	2	633	2	CTBP2	10	126683094	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20193	126683094	8851653	4857	27208											
C10orf137	26098	broad.mit.edu	37	chr10	127422661	127422661	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgcttgcaacatgatgaTgaagaagaatcaaaataaga	18	9	10	4	0	1	6	1	3	0	3	1	6	1	6	0	1	3	3	0	1	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:127422661T>A	uc001liq.1	+	12	1699	c.1406T>A	c.(1405-1407)ATG>AAG	p.M469K	C10orf137_uc001lin.2_Missense_Mutation_p.M435K|C10orf137_uc001lio.1_Missense_Mutation_p.M435K|C10orf137_uc001lip.1_Missense_Mutation_p.M173K|C10orf137_uc001lir.2_5'Flank	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	469					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				AACATGATGATGAAGAAGAAT	0.348													12	70					0	0	1	0	0		A	127422661	A	A	127422661	3	1	27	1	0	0	0	0	1	0	0	0	1597	1464	51	5	1346	5	C10orf137	10	127422661	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	739567	127422661	8112086	4858	27209											
MMP21	118856	broad.mit.edu	37	chr10	127460903	127460903	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtgaggcaagcccaggAcatggccaatttcatggacg	11	7	14	9	1	1	1	1	1	0	0	1	3	1	3	2	5	1	1	2	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:127460903A>C	uc001liu.2	-	4	863	c.863T>G	c.(862-864)GTC>GGC	p.V288G		NM_147191	NP_671724	Q8N119	MMP21_HUMAN	matrix metalloproteinase 21 preproprotein	288					proteolysis	extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				CAAGCCCAGGACATGGCCAAT	0.557													7	64					0	0	1	0	0		C	127460903	C	C	127460903	3	2	27	1	0	0	0	0	1	0	0	0	9678	275	10	5	862	5	MMP21	10	127460903	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	38242	127460903	8073844	4859	27210											
FANK1	92565	broad.mit.edu	37	chr10	127685152	127685152	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttcccaataagtttggCtttaccgctctgatggttgc	7	15	10	9	1	1	1	0	1	1	0	2	2	2	1	2	2	2	5	2	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:127685152C>T	uc001ljh.3	+	5	536	c.432C>T	c.(430-432)GGC>GGT	p.G144G	FANK1_uc009yan.2_Silent_p.G170G|FANK1_uc001lji.2_Silent_p.G138G	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains	144	ANK 2.					cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)				ATAAGTTTGGCTTTACCGCTC	0.408													10	203					0	0	1	0	0		T	127685152	T	T	127685152	2	4	27	1	0	0	0	0	0	0	0	1	5686	784	28	2		2	FANK1	10	127685152	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	224249	127685152	7849595	4860	27211											
FANK1	92565	broad.mit.edu	37	chr10	127697837	127697837	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagtttttgacagacaggTtgggatgctctttctgccta	8	14	11	8	0	2	3	0	1	2	2	2	4	2	4	1	2	2	3	1	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:127697837T>C	uc001ljh.3	+	10	1076	c.972_splice	c.e10+2	p.Q324_splice	FANK1_uc009yan.2_Splice_Site_p.Q350_splice|FANK1_uc001lji.2_Missense_Mutation_p.V319A	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains							cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)				GACAGACAGGTTGGGATGCTC	0.398													5	111					0	0	1	0	0		C	127697837	C	C	127697837	5	2	27	1	0	0	0	0	0	0	1	0	5686	1739	60	3	1012	3	FANK1	10	127697837	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12685	127697837	7836910	4861	27212											
ADAM12	8038	broad.mit.edu	37	chr10	127789653	127789653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccctacctgacaagctgcGcattgtcatgggatttgcga	8	11	10	12	2	1	1	1	1	0	0	2	3	2	2	2	1	4	2	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:127789653G>A	uc001ljk.2	-	9	1321	c.908C>T	c.(907-909)GCG>GTG	p.A303V	ADAM12_uc010qul.1_Missense_Mutation_p.A254V|ADAM12_uc001ljm.2_Missense_Mutation_p.A303V|ADAM12_uc001ljn.2_Missense_Mutation_p.A300V|ADAM12_uc001ljl.3_Missense_Mutation_p.A300V	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	303	Extracellular (Potential).|Peptidase M12B.				cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		GACAAGCTGCGCATTGTCATG	0.507													9	63					0	0	1	0	0		A	127789653	A	A	127789653	3	1	27	1	0	0	0	0	1	0	0	0	236	1087	38	1	1989	1	ADAM12	10	127789653	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	91816	127789653	7745094	4862	27213											
DOCK1	1793	broad.mit.edu	37	chr10	128797654	128797654	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgctggtccagttcaggattAcctaaagacatagacagatt	13	10	9	9	1	1	3	1	0	0	3	2	4	2	4	2	2	1	2	2	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:128797654A>T	uc001ljt.2	+	9	868	c.804A>T	c.(802-804)TTA>TTT	p.L268F	DOCK1_uc010qun.1_Missense_Mutation_p.L268F	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	268					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		GTTCAGGATTACCTAAAGACA	0.383													10	53					0	0	1	0	0		T	128797654	T	T	128797654	3	4	27	1	0	0	0	0	1	0	0	0	4690	388	14	5	838	5	DOCK1	10	128797654	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1008001	128797654	6737093	4863	27214											
DOCK1	1793	broad.mit.edu	37	chr10	128908583	128908583	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaaactctactgcttgaTcgaaatcgtccacagtgacc	12	9	7	13	2	1	3	0	2	1	1	4	4	2	3	3	0	3	1	3	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:128908583T>C	uc001ljt.2	+	25	2589	c.2525T>C	c.(2524-2526)ATC>ACC	p.I842T	DOCK1_uc010qun.1_Missense_Mutation_p.I863T	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	842					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		TACTGCTTGATCGAAATCGTC	0.413													3	28					0	0	1	0	0		C	128908583	C	C	128908583	3	2	27	1	0	0	0	0	1	0	0	0	4690	1435	50	3	2623	3	DOCK1	10	128908583	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	110929	128908583	6626164	4864	27215											
FAM196A	642938	broad.mit.edu	37	chr10	128974382	128974382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacgttggggatggacctgCgtgcgggcactgtcatgtat	6	11	16	8	3	1	1	1	1	0	0	1	3	1	3	1	4	2	3	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:128974382C>T	uc001lju.1	-	1	319	c.278G>A	c.(277-279)CGC>CAC	p.R93H	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.R93H|FAM196A_uc001ljv.1_Missense_Mutation_p.R93H|FAM196A_uc009yap.1_Missense_Mutation_p.R93H	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	93								p.R93C(1)		ovary(2)	2						GATGGACCTGCGTGCGGGCAC	0.617													8	56					0	0	1	0	0		T	128974382	T	T	128974382	3	4	27	1	0	0	0	0	1	0	0	0	5539	768	27	1	1173	1	FAM196A	10	128974382	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	65799	128974382	6560365	4865	27216											
MKI67	4288	broad.mit.edu	37	chr10	129901497	129901497	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accggctctttgtcggtgtgCgtggtctcccctgaggtttg	2	14	14	11	3	2	1	0	1	2	0	4	1	2	1	3	4	1	2	3	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:129901497C>T	uc001lke.2	-	13	8802	c.8607G>A	c.(8605-8607)ACG>ACA	p.T2869T	MKI67_uc001lkf.2_Silent_p.T2509T|MKI67_uc009yav.1_Silent_p.T2444T|MKI67_uc009yaw.1_Silent_p.T2019T	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2869	16 X 122 AA approximate repeats.|16.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TGTCGGTGTGCGTGGTCTCCC	0.542													12	166					0	0	1	0	0		T	129901497	T	T	129901497	2	4	27	1	0	0	0	0	0	0	0	1	9616	755	27	1		1	MKI67	10	129901497	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	927115	129901497	5633250	4866	27217											
MKI67	4288	broad.mit.edu	37	chr10	129905845	129905845	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcctggtactttatctGtgtgtgtggtttcccctgat	4	17	9	11	0	1	1	0	1	1	0	3	1	3	1	4	2	1	2	4	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:129905845G>C	uc001lke.2	-	13	4454	c.4259C>G	c.(4258-4260)ACA>AGA	p.T1420R	MKI67_uc001lkf.2_Missense_Mutation_p.T1060R|MKI67_uc009yav.1_Missense_Mutation_p.T995R|MKI67_uc009yaw.1_Missense_Mutation_p.T570R	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1420	16 X 122 AA approximate repeats.|4.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TACTTTATCTGTGTGTGTGGT	0.493													64	265					0	0	1	0	0		C	129905845	C	C	129905845	3	2	27	1	0	0	0	0	1	0	0	0	9616	1377	48	5	5523	5	MKI67	10	129905845	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4348	129905845	5628902	4867	27218											
MKI67	4288	broad.mit.edu	37	chr10	129907158	129907158	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggtttggaggagattctgGccacgtgccgtgtctttcat	5	14	14	8	2	3	1	1	0	2	1	3	3	3	2	2	4	1	1	2	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:129907158G>A	uc001lke.2	-	13	3141	c.2946C>T	c.(2944-2946)GGC>GGT	p.G982G	MKI67_uc001lkf.2_Silent_p.G622G|MKI67_uc009yav.1_Silent_p.G557G|MKI67_uc009yaw.1_Silent_p.G132G	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	982					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GGAGATTCTGGCCACGTGCCG	0.473													27	315					0	0	1	0	0		A	129907158	A	A	129907158	2	1	27	1	0	0	0	0	0	0	0	1	9616	1190	42	2		2	MKI67	10	129907158	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1313	129907158	5627589	4868	27219											
EBF3	253738	broad.mit.edu	37	chr10	131761907	131761907	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccggtacgtacctctgggcGgccgtgttggcgtccaccac	4	8	14	15	5	1	0	0	0	1	0	2	0	2	0	5	4	2	3	5	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:131761907G>T	uc001lki.1	-	1	185	c.126C>A	c.(124-126)GCC>GCA	p.A42A	EBF3_uc010qur.1_Silent_p.A28A	NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	42					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		ACCTCTGGGCGGCCGTGTTGG	0.473													3	32					6.4e-05	6.80234e-05	1	1	0		T	131761907	T	T	131761907	2	4	27	1	0	0	0	0	0	0	0	1	4888	1103	39	5		5	EBF3	10	131761907	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1854749	131761907	3772840	4869	27220											
JAKMIP3	282973	broad.mit.edu	37	chr10	133955535	133955535	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggttggagggacgctggacGcagagcgagaagttaaggtc	11	6	18	6	3	0	2	0	0	0	2	1	6	0	5	0	5	1	4	0	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:133955535G>A	uc001lkx.3	+	10	1585	c.1585G>A	c.(1585-1587)GCA>ACA	p.A529T		NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		GACGCTGGACGCAGAGCGAGA	0.662													3	7					0	0	1	0	0		A	133955535	A	A	133955535	3	1	27	1	0	0	0	0	1	0	0	0	7958	1087	38	1	1623	1	JAKMIP3	10	133955535	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2193628	133955535	1579212	4870	27221											
DPYSL4	10570	broad.mit.edu	37	chr10	134017367	134017367	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgctccggcccgcgcgtcCtgcccaggcaagatctccgt	4	6	13	18	6	1	1	0	0	1	1	4	1	3	1	5	3	1	2	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:134017367C>T	uc009ybb.2	+	13	1717	c.1563C>T	c.(1561-1563)TCC>TCT	p.S521S		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	521					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		CCCGCGCGTCCTGCCCAGGCA	0.677													8	113					0	0	1	0	0		T	134017367	T	T	134017367	2	4	27	1	0	0	0	0	0	0	0	1	4755	668	24	4		4	DPYSL4	10	134017367	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61832	134017367	1517380	4871	27222											
C10orf93	255352	broad.mit.edu	37	chr10	134755109	134755109	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaccaggttttctgccgActtcggggcacacatctggg	6	11	11	13	2	3	0	1	0	3	0	5	1	3	0	2	4	1	2	2	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:134755109A>G	uc001llt.1	-	3	368	c.292T>C	c.(292-294)TCG>CCG	p.S98P	C10orf93_uc001llu.2_Missense_Mutation_p.S98P	NM_173572	NP_775843	Q5SR76	CJ093_HUMAN	hypothetical protein LOC255352	98	TPR 1.						binding			pancreas(1)	1		all_cancers(35;1.8e-07)|all_epithelial(44;6.22e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Colorectal(31;0.119)|Glioma(114;0.172)|Melanoma(40;0.175)		Epithelial(32;4.28e-05)|OV - Ovarian serous cystadenocarcinoma(35;4.31e-05)|all cancers(32;5.02e-05)		TTTTCTGCCGACTTCGGGGCA	0.567													4	53					0	0	1	0	0		G	134755109	G	G	134755109	3	3	27	1	0	0	0	0	1	0	0	0	1628	275	10	3	953	3	C10orf93	10	134755109	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	737742	134755109	779638	4872	27223											
GPR123	84435	broad.mit.edu	37	chr10	134898389	134898389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaggaaggaatcgcacctgGggcagcaacagcagctcctg	11	4	15	11	1	0	0	0	0	0	0	2	3	1	3	2	5	4	5	2	5	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:134898389G>A	uc001llw.2	+	8	1451	c.1451G>A	c.(1450-1452)GGG>GAG	p.G484E				Q86SQ6	GP123_HUMAN	RecName: Full=Probable G-protein coupled receptor 123;	233	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		ATCGCACCTGGGGCAGCAACA	0.607													12	39					0	0	1	0	0		A	134898389	A	A	134898389	3	1	27	1	0	0	0	0	1	0	0	0	6652	1247	43	4		4	GPR123	10	134898389	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	143280	134898389	636358	4873	27224											
ADAM8	101	broad.mit.edu	37	chr10	135086342	135086342	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagcacccgatgacgcAcggctgcttcgctccccagc	6	6	9	20	4	0	1	0	1	0	0	3	2	2	1	5	1	3	5	5	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:135086342A>G	uc010qva.1	-	7	599	c.548T>C	c.(547-549)GTG>GCG	p.V183A	ADAM8_uc010quz.1_Missense_Mutation_p.V222A|ADAM8_uc009ybi.2_Missense_Mutation_p.V222A|ADAM8_uc010qvb.1_Missense_Mutation_p.V197A|ADAM8_uc009ybj.1_RNA			P78325	ADAM8_HUMAN	SubName: Full=cDNA FLJ50704, highly similar to ADAM 8 (EC 3.4.24.-) (A disintegrinand metalloproteinase domain 8);	183					integrin-mediated signaling pathway|proteolysis		metalloendopeptidase activity			large_intestine(2)|central_nervous_system(1)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;7.72e-06)|OV - Ovarian serous cystadenocarcinoma(35;8.23e-06)|Epithelial(32;1.02e-05)		CCGATGACGCACGGCTGCTTC	0.697													3	21					0	0	1	0	0		G	135086342	G	G	135086342	3	3	27	1	0	0	0	0	1	0	0	0	252	159	6	3	1791	3	ADAM8	10	135086342	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	187953	135086342	448405	4874	27225											
PAOX	196743	broad.mit.edu	37	chr10	135195135	135195135	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatggagaccggttcccggcGcaccatgtcatcgtcaccgt	7	8	12	14	5	2	1	2	0	0	1	4	3	3	1	4	3	0	2	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr10:135195135G>A	uc001lmv.2	+	3	920	c.840G>A	c.(838-840)GCG>GCA	p.A280A	PAOX_uc001lmw.2_RNA|PAOX_uc001lmx.2_Silent_p.A280A|PAOX_uc001lmy.2_Silent_p.A280A|PAOX_uc001lmz.2_RNA|PAOX_uc001lna.2_RNA|PAOX_uc001lnb.2_RNA|PAOX_uc001lnc.2_RNA	NM_152911	NP_690875	Q6QHF9	PAOX_HUMAN	polyamine oxidase isoform 1	418					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		GGTTCCCGGCGCACCATGTCA	0.612													5	39					0	0	1	0	0		A	135195135	A	A	135195135	2	1	27	1	0	0	0	0	0	0	0	1	11442	1074	38	1		1	PAOX	10	135195135	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	108793	135195135	339612	4875	27226											
RIC8A	60626	broad.mit.edu	37	chr11	209303	209303	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcacgtttgatgatgcccaAcaggaggaccggaaggtggg	10	8	15	8	2	1	2	1	2	0	0	1	5	1	5	2	5	2	1	2	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:209303A>G	uc001log.2	+	2	442	c.117A>G	c.(115-117)CAA>CAG	p.Q39Q	BET1L_uc001loe.2_5'Flank|BET1L_uc001lod.2_5'Flank|RIC8A_uc001lof.2_Silent_p.Q39Q|RIC8A_uc001loh.2_Missense_Mutation_p.N3S	NM_021932	NP_068751	Q9NPQ8	RIC8A_HUMAN	resistance to inhibitors of cholinesterase 8	39						cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity				0		all_cancers(49;9.23e-07)|all_epithelial(84;0.000315)|Breast(177;0.00122)|Ovarian(85;0.0202)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.45e-27)|Epithelial(43;2.94e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.86e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		ATGATGCCCAACAGGAGGACC	0.627													7	159					0	0	1	0	0		G	209303	G	G	209303	2	3	27	1	0	0	0	0	0	0	0	1	13380	40	2	3		3	RIC8A	11	209303	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08		209303	134797213	4876	27227											
ATHL1	80162	broad.mit.edu	37	chr11	293611	293611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taggagaggtggtgaagcagGcagacgtcgtgctcctggga	9	7	18	7	2	0	3	0	1	0	2	2	5	1	4	1	5	2	3	1	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:293611G>A	uc010qvu.1	+	10	1613	c.1498G>A	c.(1498-1500)GCA>ACA	p.A500T	ATHL1_uc001lor.3_Intron|ATHL1_uc001lou.3_Missense_Mutation_p.A75T|ATHL1_uc001lov.3_5'Flank	NM_025092	NP_079368	Q32M88	ATHL1_HUMAN	ATH1, acid trehalase-like 1	500				EFDGYEPGEVVKQA -> KFQLRVPWEDFFRC (in Ref. 3; BAB15431).	carbohydrate metabolic process		hydrolase activity, acting on glycosyl bonds			liver(1)|central_nervous_system(1)|skin(1)	3		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.38e-28)|Epithelial(43;3.25e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0327)|LUSC - Lung squamous cell carcinoma(625;0.122)		GGTGAAGCAGGCAGACGTCGT	0.607													4	66					0	0	1	0	0		A	293611	A	A	293611	3	1	27	1	0	0	0	0	1	0	0	0	1105	1203	42	2	1532	2	ATHL1	11	293611	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	84308	293611	134712905	4877	27228											
IFITM1	8519	broad.mit.edu	37	chr11	314932	314932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcccccagtctagggacaGgaagatggttggcgacgtga	9	8	14	10	2	2	2	0	1	2	1	3	5	2	4	2	4	0	1	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:314932G>A	uc001loy.3	+	2	377	c.197G>A	c.(196-198)AGG>AAG	p.R66K		NM_003641	NP_003632	P13164	IFM1_HUMAN	interferon induced transmembrane protein 1	66	Cytoplasmic (Potential).				negative regulation of cell proliferation|regulation of immune response|response to virus|type I interferon-mediated signaling pathway	integral to membrane|plasma membrane	protein binding|receptor signaling protein activity				0		all_cancers(49;2e-09)|all_epithelial(84;3.36e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;8.85e-28)|Epithelial(43;5.52e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0327)|LUSC - Lung squamous cell carcinoma(625;0.122)		TCTAGGGACAGGAAGATGGTT	0.637													6	49					0	0	1	0	0		A	314932	A	A	314932	3	1	27	1	0	0	0	0	1	0	0	0	7542	1000	35	4	203	4	IFITM1	11	314932	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21321	314932	134691584	4878	27229											
PHRF1	57661	broad.mit.edu	37	chr11	582040	582040	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatggcacagacggagaagAcgagggggcgtctgaggagg	12	3	20	6	3	1	5	0	1	1	4	1	8	1	6	0	6	0	1	0	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:582040A>G	uc001lqe.2	+	3	304	c.173A>G	c.(172-174)GAC>GGC	p.D58G	PHRF1_uc010qwc.1_Missense_Mutation_p.D58G|PHRF1_uc010qwd.1_Missense_Mutation_p.D57G|PHRF1_uc010qwe.1_Missense_Mutation_p.D54G	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	58							RNA polymerase binding|zinc ion binding				0						GACGGAGAAGACGAGGGGGCG	0.592													5	15					0	0	1	0	0		G	582040	G	G	582040	3	3	27	1	0	0	0	0	1	0	0	0	11880	275	10	3	179	3	PHRF1	11	582040	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	267108	582040	134424476	4879	27230											
PHRF1	57661	broad.mit.edu	37	chr11	592628	592628	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgaggtgtgcggcaggAgcgaccgtgaggacaggctt	7	8	18	8	3	1	2	0	2	1	0	1	5	1	4	1	5	2	2	1	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:592628A>G	uc001lqe.2	+	6	705	c.574A>G	c.(574-576)AGC>GGC	p.S192G	PHRF1_uc010qwc.1_Missense_Mutation_p.S192G|PHRF1_uc010qwd.1_Missense_Mutation_p.S191G|PHRF1_uc010qwe.1_Missense_Mutation_p.S188G|PHRF1_uc009ybz.1_5'UTR	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	192	PHD-type.						RNA polymerase binding|zinc ion binding				0						GTGCGGCAGGAGCGACCGTGA	0.637													10	137					0	0	1	0	0		G	592628	G	G	592628	3	3	27	1	0	0	0	0	1	0	0	0	11880	304	11	3	592	3	PHRF1	11	592628	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10588	592628	134413888	4880	27231											
PHRF1	57661	broad.mit.edu	37	chr11	598394	598394	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaccagggcgcctcgggTcttccctgctggatgaagcc	7	7	12	15	2	1	1	0	1	1	0	3	2	2	2	4	3	2	1	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:598394T>A	uc001lqe.2	+	9	1047	c.916T>A	c.(916-918)TCT>ACT	p.S306T	PHRF1_uc010qwc.1_Missense_Mutation_p.S306T|PHRF1_uc010qwd.1_Missense_Mutation_p.S305T|PHRF1_uc010qwe.1_Missense_Mutation_p.S302T|PHRF1_uc009ybz.1_Missense_Mutation_p.S97T	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	306	Arg-rich.						RNA polymerase binding|zinc ion binding				0						GCGCCTCGGGTCTTCCCTGCT	0.667													3	30					0	0	1	0	0		A	598394	A	A	598394	3	1	27	1	0	0	0	0	1	0	0	0	11880	1667	58	5	946	5	PHRF1	11	598394	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5766	598394	134408122	4881	27232											
DEAF1	10522	broad.mit.edu	37	chr11	687961	687961	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgctgatgttccggcaccgtAcgggcagctcactgtcgtac	6	9	12	14	5	1	1	1	1	0	0	3	1	2	1	2	2	3	7	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:687961A>G	uc001lqq.1	-	4	1307	c.614T>C	c.(613-615)GTA>GCA	p.V205A	DEAF1_uc009ycf.1_RNA	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	205	SAND.				embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		CCGGCACCGTACGGGCAGCTC	0.552													5	48					0	0	1	0	0		G	687961	G	G	687961	3	3	27	1	0	0	0	0	1	0	0	0	4383	391	14	3	1119	3	DEAF1	11	687961	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	89567	687961	134318555	4882	27233											
EPS8L2	64787	broad.mit.edu	37	chr11	722548	722548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagagctggatgcggcccCggtagggcagggcagagcag	9	3	20	9	2	0	2	0	0	0	2	0	5	0	3	2	5	3	5	2	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:722548C>T	uc001lqt.2	+	13	1454	c.1207C>T	c.(1207-1209)CGT>TGT	p.R403C	EPS8L2_uc001lqu.2_Missense_Mutation_p.R403C|EPS8L2_uc010qwk.1_Missense_Mutation_p.R419C|EPS8L2_uc001lqv.2_Missense_Mutation_p.R358C|EPS8L2_uc001lqw.2_Missense_Mutation_p.R15C|EPS8L2_uc001lqx.2_Missense_Mutation_p.R15C|EPS8L2_uc001lqy.2_5'Flank	NM_022772	NP_073609	Q9H6S3	ES8L2_HUMAN	epidermal growth factor receptor pathway	403						cytoplasm				pancreas(1)	1		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.37e-27)|Epithelial(43;2.81e-26)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-20)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GATGCGGCCCCGGTAGGGCAG	0.692													15	27					0	0	1	0	0		T	722548	T	T	722548	3	4	27	1	0	0	0	0	1	0	0	0	5204	666	23	1	1253	1	EPS8L2	11	722548	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	34587	722548	134283968	4883	27234											
TALDO1	6888	broad.mit.edu	37	chr11	755935	755935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccgtccctgatcctggccGcagcacagatgcccgcttac	7	7	9	18	3	0	2	0	1	0	1	2	2	2	2	5	1	3	3	5	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:755935G>A	uc001lqz.2	+	2	204	c.154G>A	c.(154-156)GCA>ACA	p.A52T	TALDO1_uc010qwl.1_Missense_Mutation_p.A52T|TALDO1_uc001lra.2_Missense_Mutation_p.A52T	NM_006755	NP_006746	P37837	TALDO_HUMAN	transaldolase 1	52					energy reserve metabolic process|xylulose biosynthetic process	cytosol	protein binding|sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate glyceronetransferase activity				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;4.66e-26)|Epithelial(43;2.97e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.48e-19)|BRCA - Breast invasive adenocarcinoma(625;4.41e-05)|Lung(200;0.0595)|LUSC - Lung squamous cell carcinoma(625;0.0712)		GATCCTGGCCGCAGCACAGAT	0.592													6	40					0	0	1	0	0		A	755935	A	A	755935	3	1	27	1	0	0	0	0	1	0	0	0	15568	1087	38	1	160	1	TALDO1	11	755935	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	33387	755935	134250581	4884	27235											
TSPAN4	7106	broad.mit.edu	37	chr11	866596	866596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgccatgaccatgtactGccaagtggtcaaggcagaca	11	8	10	12	1	1	2	1	1	0	1	2	2	1	2	3	2	2	2	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:866596G>A	uc001lsd.1	+	9	892	c.683G>A	c.(682-684)TGC>TAC	p.C228Y	TSPAN4_uc001lse.1_Missense_Mutation_p.C164Y|TSPAN4_uc001lsf.1_Missense_Mutation_p.C228Y|TSPAN4_uc001lsg.1_Missense_Mutation_p.C228Y|TSPAN4_uc001lsh.1_Missense_Mutation_p.C228Y|TSPAN4_uc001lsi.1_Missense_Mutation_p.C228Y|TSPAN4_uc001lsj.1_Missense_Mutation_p.C228Y	NM_003271	NP_003262	O14817	TSN4_HUMAN	tetraspanin 4 isoform a	228	Cytoplasmic (Potential).				protein complex assembly	integral to plasma membrane				breast(1)	1		all_cancers(49;2.64e-08)|all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)|all_lung(207;0.24)		all cancers(45;4.32e-25)|Epithelial(43;3.29e-24)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		ACCATGTACTGCCAAGTGGTC	0.647													10	21					0	0	1	0	0		A	866596	A	A	866596	3	1	27	1	0	0	0	0	1	0	0	0	16675	1319	46	2	709	2	TSPAN4	11	866596	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	110661	866596	134139920	4885	27236											
AP2A2	161	broad.mit.edu	37	chr11	988613	988613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctacgccatgtgcgaccGcagcaacgccccacagatcg	9	5	9	18	5	1	1	0	0	1	1	2	2	1	1	5	0	4	2	5	0	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:988613G>A	uc001lss.2	+	10	1374	c.1193G>A	c.(1192-1194)CGC>CAC	p.R398H	AP2A2_uc001lst.1_Missense_Mutation_p.R399H|AP2A2_uc009yco.1_RNA	NM_012305	NP_036437	O94973	AP2A2_HUMAN	adaptor-related protein complex 2, alpha 2	398					axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	lipid binding|protein transporter activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.75e-24)|BRCA - Breast invasive adenocarcinoma(625;5.73e-05)|Lung(200;0.0696)|LUSC - Lung squamous cell carcinoma(625;0.082)		ATGTGCGACCGCAGCAACGCC	0.607													12	138					0	0	1	0	0		A	988613	A	A	988613	3	1	27	1	0	0	0	0	1	0	0	0	740	1087	38	1	1231	1	AP2A2	11	988613	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	122017	988613	134017903	4886	27237											
MUC6	4588	broad.mit.edu	37	chr11	1027755	1027755	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaggcgtgtacgtagtcGcccagggcggcacagatgtg	8	6	17	10	4	0	1	0	0	0	1	1	2	0	1	1	3	2	4	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:1027755G>A	uc001lsw.2	-	16	1962	c.1911C>T	c.(1909-1911)GGC>GGT	p.G637G		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	637					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GTACGTAGTCGCCCAGGGCGG	0.657													3	8					0	0	1	0	0		A	1027755	A	A	1027755	2	1	27	1	0	0	0	0	0	0	0	1	9998	1074	38	1		1	MUC6	11	1027755	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39142	1027755	133978761	4887	27238											
MUC2	4583	broad.mit.edu	37	chr11	1086052	1086052	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggtggagtccagcacGggcatcatcgtcatctggga	7	9	15	10	2	3	0	2	0	1	0	5	2	4	2	1	5	1	2	1	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:1086052G>A	uc001lsx.1	+	22	2919	c.2892G>A	c.(2890-2892)ACG>ACA	p.T964T		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	964	VWFD 3.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	AGTCCAGCACGGGCATCATCG	0.637													9	21					0	0	1	0	0		A	1086052	A	A	1086052	2	1	27	1	0	0	0	0	0	0	0	1	9993	1103	39	1		1	MUC2	11	1086052	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	58297	1086052	133920464	4888	27239											
MUC2	4583	broad.mit.edu	37	chr11	1093612	1093612	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacccaccggcacacagaccCcaaccatgatacccatcagc	13	3	5	20	1	1	2	1	1	0	1	1	2	1	2	6	1	3	1	6	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:1093612C>A	uc001lsx.1	+	31	12544	c.12517C>A	c.(12517-12519)CCA>ACA	p.P4173T		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4173						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	CACACAGACCCCAACCATGAT	0.438													6	48					0.00116845	0.00121513	1	1	0		A	1093612	A	A	1093612	3	1	27	1	0	0	0	0	1	0	0	0	9993	623	22	5	5549	5	MUC2	11	1093612	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7560	1093612	133912904	4889	27240											
MUC5B	727897	broad.mit.edu	37	chr11	1155730	1155730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagcagggtcctcatgaagGtggatggcgtggtcatccag	8	9	16	8	1	2	2	2	2	0	0	4	3	4	3	2	5	1	1	2	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:1155730G>A	uc009ycr.1	+	5	544	c.418G>A	c.(418-420)GTG>ATG	p.V140M		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCTCATGAAGGTGGATGGCGT	0.657													4	32					0	0	1	0	0		A	1155730	A	A	1155730	3	1	27	1	0	0	0	0	1	0	0	0	9997	1276	44	4		4	MUC5B	11	1155730	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	62118	1155730	133850786	4890	27241											
MUC5B	727897	broad.mit.edu	37	chr11	1264269	1264269	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacactaccaaagtgccaacTaccacaaccacgggcttcac	14	5	5	17	1	1	0	1	0	0	0	1	0	1	0	4	1	5	1	4	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:1264269T>C	uc009ycr.1	+	47	8364	c.8238T>C	c.(8236-8238)ACT>ACC	p.T2746T	MUC5B_uc001ltb.2_Silent_p.T2056T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2053	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		AAGTGCCAACTACCACAACCA	0.642													6	83					0	0	1	0	0		C	1264269	C	C	1264269	2	2	27	1	0	0	0	0	0	0	0	1	9997	1509	53	3		3	MUC5B	11	1264269	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	108539	1264269	133742247	4891	27242											
MUC5B	727897	broad.mit.edu	37	chr11	1265019	1265019	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccagcagccccacatcGgcccccataaccacggtggt	8	5	9	19	2	0	0	0	0	0	0	1	0	0	0	6	3	4	1	6	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:1265019G>A	uc009ycr.1	+	48	8949	c.8823G>A	c.(8821-8823)TCG>TCA	p.S2941S	MUC5B_uc001ltb.2_Silent_p.S2306S	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2303	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GCCCCACATCGGCCCCCATAA	0.701													19	58					0	0	1	0	0		A	1265019	A	A	1265019	2	1	27	1	0	0	0	0	0	0	0	1	9997	1103	39	1		1	MUC5B	11	1265019	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	750	1265019	133741497	4892	27243											
MUC5B	727897	broad.mit.edu	37	chr11	1270634	1270634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgggcctcgagtgccGtgcccaggcccagcctggtg	3	6	15	17	2	0	0	0	0	0	0	1	1	0	0	7	3	3	0	7	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:1270634G>A	uc009ycr.1	+	51	14069	c.13943G>A	c.(13942-13944)CGT>CAT	p.R4648H	MUC5B_uc001ltb.2_Missense_Mutation_p.R4178H	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4175	7 X Cys-rich subdomain repeats.|Thr-rich.|Cys-rich subdomain 7.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTCGAGTGCCGTGCCCAGGCC	0.692													7	72					0	0	1	0	0		A	1270634	A	A	1270634	3	1	27	1	0	0	0	0	1	0	0	0	9997	1145	40	1	12655	1	MUC5B	11	1270634	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5615	1270634	133735882	4893	27244											
MUC5B	727897	broad.mit.edu	37	chr11	1271306	1271306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacagagctgaccacagcagCcactacaactgcagccactg	13	4	8	16	0	0	2	0	1	0	1	0	2	0	2	3	0	7	3	3	0	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:1271306C>T	uc009ycr.1	+	51	14741	c.14615C>T	c.(14614-14616)GCC>GTC	p.A4872V	MUC5B_uc001ltb.2_Missense_Mutation_p.A4402V	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4399	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACCACAGCAGCCACTACAACT	0.652													5	92					0	0	1	0	0		T	1271306	T	T	1271306	3	4	27	1	0	0	0	0	1	0	0	0	9997	739	26	2	13327	2	MUC5B	11	1271306	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	672	1271306	133735210	4894	27245											
MUC5B	727897	broad.mit.edu	37	chr11	1273599	1273599	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctacaataagaccgacCgagccggctgccatttctac	11	9	7	14	3	3	1	1	0	2	1	3	3	3	1	4	1	4	1	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:1273599C>T	uc009ycr.1	+	53	15982	c.15856C>T	c.(15856-15858)CGA>TGA	p.R5286*	MUC5B_uc001ltb.2_Nonsense_Mutation_p.R4967*	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4964					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		TAAGACCGACCGAGCCGGCTG	0.567													4	80					0	0	1	0	0		T	1273599	T	T	1273599	4	4	27	1	0	0	0	0	0	1	0	0	9997	644	23	1	15025	1	MUC5B	11	1273599	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2293	1273599	133732917	4895	27246											
IGF2	3481	broad.mit.edu	37	chr11	2154747	2154747	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggggcccaggaccctcacCggaagcacggtcggaggggt	9	3	17	12	3	1	0	1	0	0	0	2	3	1	3	3	8	1	1	3	8	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:2154747C>T	uc009yde.2	-	3	409	c.306G>A	c.(304-306)CCG>CCA	p.P102P	IGF2_uc001lvf.2_RNA|IGF2_uc001lvg.2_Silent_p.P102P|IGF2_uc009ydf.2_Silent_p.P158P|IGF2_uc001lvh.2_Silent_p.P102P|INS-IGF2_uc001lvi.2_RNA	NM_001007139	NP_001007140	P01344	IGF2_HUMAN	insulin-like growth factor 2 isoform 1	102					glucose metabolic process|ossification|phosphatidylinositol 3-kinase cascade involved in insulin receptor signaling|positive regulation of activated T cell proliferation|positive regulation of cell division|positive regulation of glycogen (starch) synthase activity|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|skeletal system development	extracellular space	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|protein serine/threonine kinase activator activity|receptor activator activity			central_nervous_system(1)	1		all_epithelial(84;5.04e-06)|Breast(177;0.000777)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)|all_lung(207;0.24)	Colorectal(5;0.0179)|COAD - Colon adenocarcinoma(6;0.029)	BRCA - Breast invasive adenocarcinoma(625;1.09e-05)|LUSC - Lung squamous cell carcinoma(625;0.082)|Lung(200;0.153)		GGACCCTCACCGGAAGCACGG	0.642													6	27					0	0	1	0	0		T	2154747	T	T	2154747	2	4	27	1	0	0	0	0	0	0	0	1	7588	666	23	1		1	IGF2	11	2154747	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	881148	2154747	132851769	4896	27247											
TH	7054	broad.mit.edu	37	chr11	2186545	2186545	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggtagggctgcacggcCgcagcctcagggtcgaaggc	6	7	16	12	3	2	0	1	0	1	0	3	1	2	0	2	5	2	4	2	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:2186545C>A	uc001lvq.2	-	13	1363	c.1344G>T	c.(1342-1344)GCG>GCT	p.A448A	TH_uc001lvp.2_Silent_p.A444A|TH_uc001lvr.2_Silent_p.A417A|TH_uc010qxj.1_Silent_p.A421A|TH_uc001lvs.2_Silent_p.A323A|TH_uc001lvt.2_Silent_p.A327A	NM_199292	NP_954986	P07101	TY3H_HUMAN	tyrosine hydroxylase isoform a	448					dopamine biosynthetic process from tyrosine|embryonic camera-type eye morphogenesis|epinephrine biosynthetic process|eye photoreceptor cell development|heart morphogenesis|hormone biosynthetic process|learning|locomotory behavior|memory|neurotransmitter biosynthetic process|neurotransmitter secretion|norepinephrine biosynthetic process|pigmentation|regulation of heart contraction|response to ethanol|response to hypoxia|synaptic transmission, dopaminergic|visual perception	cytosol|internal side of plasma membrane|melanosome membrane|nucleus|perikaryon|smooth endoplasmic reticulum	protein binding|tyrosine 3-monooxygenase activity				0		all_epithelial(84;1.46e-23)|Lung NSC(207;4.44e-11)|all_lung(207;1.11e-09)|Ovarian(85;1.78e-06)|Breast(177;1.78e-05)|Medulloblastoma(188;0.0208)|all_neural(188;0.0416)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;8.45e-09)|Lung(200;0.000152)|LUSC - Lung squamous cell carcinoma(625;0.00154)	L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Metyrosine(DB00765)|Tetrahydrobiopterin(DB00360)	GCTGCACGGCCGCAGCCTCAG	0.612													8	102					0.0477658	0.0483837	1	1	0		A	2186545	A	A	2186545	2	1	27	1	0	0	0	0	0	0	0	1	15863	639	23	5		5	TH	11	2186545	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31798	2186545	132819971	4897	27248											
TH	7054	broad.mit.edu	37	chr11	2189370	2189370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggtgaccaggtgatgaCacttgtccagctctgacact	9	11	10	11	0	1	4	0	4	1	0	2	4	2	4	2	2	1	1	2	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:2189370C>T	uc001lvq.2	-	5	639	c.620G>A	c.(619-621)TGT>TAT	p.C207Y	TH_uc001lvp.2_Missense_Mutation_p.C203Y|TH_uc001lvr.2_Missense_Mutation_p.C176Y|TH_uc010qxj.1_Missense_Mutation_p.C180Y|TH_uc001lvs.2_Missense_Mutation_p.C176Y|TH_uc001lvt.2_Missense_Mutation_p.C180Y|TH_uc009ydh.1_RNA	NM_199292	NP_954986	P07101	TY3H_HUMAN	tyrosine hydroxylase isoform a	207					dopamine biosynthetic process from tyrosine|embryonic camera-type eye morphogenesis|epinephrine biosynthetic process|eye photoreceptor cell development|heart morphogenesis|hormone biosynthetic process|learning|locomotory behavior|memory|neurotransmitter biosynthetic process|neurotransmitter secretion|norepinephrine biosynthetic process|pigmentation|regulation of heart contraction|response to ethanol|response to hypoxia|synaptic transmission, dopaminergic|visual perception	cytosol|internal side of plasma membrane|melanosome membrane|nucleus|perikaryon|smooth endoplasmic reticulum	protein binding|tyrosine 3-monooxygenase activity				0		all_epithelial(84;1.46e-23)|Lung NSC(207;4.44e-11)|all_lung(207;1.11e-09)|Ovarian(85;1.78e-06)|Breast(177;1.78e-05)|Medulloblastoma(188;0.0208)|all_neural(188;0.0416)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;8.45e-09)|Lung(200;0.000152)|LUSC - Lung squamous cell carcinoma(625;0.00154)	L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Metyrosine(DB00765)|Tetrahydrobiopterin(DB00360)	CAGGTGATGACACTTGTCCAG	0.587													5	72					0	0	1	0	0		T	2189370	T	T	2189370	3	4	27	1	0	0	0	0	1	0	0	0	15863	478	17	4	1006	4	TH	11	2189370	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2825	2189370	132817146	4898	27249											
CARS	833	broad.mit.edu	37	chr11	3048007	3048007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcgctgtatcaaagtagAcagacccattggagacatag	14	9	9	9	1	1	3	1	0	0	3	2	4	1	3	1	1	0	3	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:3048007A>G	uc001lxh.2	-	9	877	c.803T>C	c.(802-804)GTC>GCC	p.V268A	CARS_uc001lxe.2_Missense_Mutation_p.V258A|CARS_uc001lxf.2_Missense_Mutation_p.V351A|CARS_uc001lxg.2_Missense_Mutation_p.V268A|CARS_uc010qxo.1_Missense_Mutation_p.V351A|CARS_uc010qxp.1_Missense_Mutation_p.V281A|uc001lxi.1_5'Flank	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	268					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding	p.V268L(1)	CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	ATCAAAGTAGACAGACCCATT	0.473			T	ALK	ALCL								11	112					0	0	1	0	0		G	3048007	G	G	3048007	3	3	27	1	0	0	0	0	1	0	0	0	2660	275	10	3	1507	3	CARS	11	3048007	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	858637	3048007	131958509	4899	27250											
MRGPRE	116534	broad.mit.edu	37	chr11	3249355	3249355	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcaggccgcagaagaggaaGaggaggacggtgaggaggat	13	2	21	5	2	0	4	0	1	0	3	0	9	0	9	1	8	0	2	1	8	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:3249355G>A	uc001lxq.3	-	2	982	c.672C>T	c.(670-672)CTC>CTT	p.L224L		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	224	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		Medulloblastoma(188;0.00106)|all_epithelial(84;0.00111)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00529)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGAAGAGGAAGAGGAGGACGG	0.657													3	8					0	0	1	0	0		A	3249355	A	A	3249355	2	1	27	1	0	0	0	0	0	0	0	1	9782	929	33	4		4	MRGPRE	11	3249355	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	201348	3249355	131757161	4900	27251											
NUP98	4928	broad.mit.edu	37	chr11	3700923	3700923	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaggtagtcatagttcTcattaatgatggcatctgaa	11	14	8	8	0	4	2	3	2	2	0	5	2	4	2	1	2	0	3	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:3700923T>C	uc001lyh.2	-	31	5225	c.4934A>G	c.(4933-4935)GAG>GGG	p.E1645G	NUP98_uc001lyi.2_Missense_Mutation_p.E1571G|NUP98_uc001lyg.2_Missense_Mutation_p.E610G	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1662					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		GTCATAGTTCTCATTAATGAT	0.458			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								7	39					0	0	1	0	0		C	3700923	C	C	3700923	3	2	27	1	0	0	0	0	1	0	0	0	10792	1551	54	3	480	3	NUP98	11	3700923	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	451568	3700923	131305593	4901	27252											
PGAP2	27315	broad.mit.edu	37	chr11	3838588	3838588	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgtgctgcttaggccacGccctgcaggatgttctctgc	4	11	11	15	2	1	0	0	0	1	0	3	1	1	1	3	2	4	4	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:3838588G>A	uc001lys.2	+	3	297	c.171G>A	c.(169-171)ACG>ACA	p.T57T	PGAP2_uc001lyl.2_Intron|PGAP2_uc010qxw.1_Silent_p.T114T|PGAP2_uc010qxx.1_Intron|PGAP2_uc001lyp.3_Intron|PGAP2_uc010qxy.1_Intron|PGAP2_uc010qxz.1_Intron|PGAP2_uc001lyn.3_Intron|PGAP2_uc010qya.1_Intron|PGAP2_uc001lyr.2_Intron|PGAP2_uc010qyb.1_Intron|PGAP2_uc001lyt.2_Intron	NM_014489	NP_055304	Q9UHJ9	PGAP2_HUMAN	FGF receptor activating protein 1 isoform 1	57					GPI anchor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein transporter activity				0						CTTAGGCCACGCCCTGCAGGA	0.592													8	102					0	0	1	0	0		A	3838588	A	A	3838588	2	1	27	1	0	0	0	0	0	0	0	1	11797	1074	38	1		1	PGAP2	11	3838588	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	137665	3838588	131167928	4902	27253											
PGAP2	27315	broad.mit.edu	37	chr11	3845574	3845574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcacctgcattctctggCggttgaccaagaagcacaca	10	9	8	14	1	2	2	1	1	1	1	4	2	3	2	3	2	2	3	3	2	2	2	rs144767060		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:3845574C>T	uc001lys.2	+	5	802	c.676C>T	c.(676-678)CGG>TGG	p.R226W	PGAP2_uc001lyl.2_Missense_Mutation_p.R183W|PGAP2_uc010qxw.1_Missense_Mutation_p.R283W|PGAP2_uc010qxx.1_Missense_Mutation_p.A206V|PGAP2_uc001lyp.3_Missense_Mutation_p.A92V|PGAP2_uc010qxy.1_Missense_Mutation_p.R222W|PGAP2_uc010qxz.1_Missense_Mutation_p.R222W|PGAP2_uc001lyn.3_Missense_Mutation_p.A118V|PGAP2_uc010qya.1_RNA|PGAP2_uc001lyr.2_Missense_Mutation_p.R165W|PGAP2_uc010qyb.1_Missense_Mutation_p.A168V|PGAP2_uc001lyt.2_Missense_Mutation_p.R9W	NM_014489	NP_055304	Q9UHJ9	PGAP2_HUMAN	FGF receptor activating protein 1 isoform 1	226					GPI anchor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein transporter activity				0						CATTCTCTGGCGGTTGACCAA	0.537											OREG0020703	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	120					0	0	1	0	0		T	3845574	T	T	3845574	3	4	27	1	0	0	0	0	1	0	0	0	11797	768	27	1	869	1	PGAP2	11	3845574	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6986	3845574	131160942	4903	27254											
STIM1	6786	broad.mit.edu	37	chr11	4112932	4112932	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcaagaaggctgtggcTgaggaggataatggctctat	10	9	16	6	0	1	2	0	1	1	1	1	4	1	4	0	6	0	5	0	6	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4112932T>A	uc001lyv.2	+	12	2530	c.1962T>A	c.(1960-1962)GCT>GCA	p.A654A	STIM1_uc009yef.2_3'UTR|STIM1_uc009yeg.2_Silent_p.A481A|RRM1_uc009yeh.1_5'Flank|RRM1_uc001lyw.3_5'Flank|RRM1_uc009yei.2_5'Flank|RRM1_uc010qyc.1_5'Flank	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	654	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		AGGCTGTGGCTGAGGAGGATA	0.562													7	59					0	0	1	0	0		A	4112932	A	A	4112932	2	1	27	1	0	0	0	0	0	0	0	1	15308	1567	55	5		5	STIM1	11	4112932	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	267358	4112932	130893584	4904	27255											
RRM1	6240	broad.mit.edu	37	chr11	4139675	4139675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagttgtattcgggctactgGcagctacattgctggggtag	7	12	15	7	1	0	0	0	0	0	0	1	1	0	0	0	4	4	7	0	4	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4139675G>A	uc001lyw.3	+	8	1095	c.776G>A	c.(775-777)GGC>GAC	p.G259D	RRM1_uc009yej.2_RNA|RRM1_uc009yeh.1_Missense_Mutation_p.G162D|RRM1_uc009yei.2_Missense_Mutation_p.G219D|RRM1_uc010qyc.1_Missense_Mutation_p.G162D|RRM1_uc010qyd.1_5'UTR	NM_001033	NP_001024	P23921	RIR1_HUMAN	ribonucleoside-diphosphate reductase M1 chain	259					deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion	cytosol|nucleoplasm|ribonucleoside-diphosphate reductase complex	ATP binding|ribonucleoside-diphosphate reductase activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00502)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0848)|LUSC - Lung squamous cell carcinoma(625;0.205)	Clofarabine(DB00631)|Fludarabine(DB01073)|Gemcitabine(DB00441)|Hydroxyurea(DB01005)	CGGGCTACTGGCAGCTACATT	0.383													17	126					0	0	1	0	0		A	4139675	A	A	4139675	3	1	27	1	0	0	0	0	1	0	0	0	13706	1203	42	2	806	2	RRM1	11	4139675	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26743	4139675	130866841	4905	27256											
TRIM21	6737	broad.mit.edu	37	chr11	4409705	4409705	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcttcttcaaccaggaagTttttttgctgcacaaactct	9	16	6	10	0	4	0	1	0	3	0	4	1	4	1	1	1	4	4	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4409705T>C	uc001lyy.1	-	4	673	c.560A>G	c.(559-561)AAC>AGC	p.N187S		NM_003141	NP_003132	P19474	RO52_HUMAN	tripartite motif protein 21	187	Potential.				cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein deubiquitination|positive regulation of cell cycle|protein autoubiquitination|protein destabilization|protein monoubiquitination|protein polyubiquitination|protein trimerization	cytoplasmic mRNA processing body|nucleus	DNA binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;2.08e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0851)|LUSC - Lung squamous cell carcinoma(625;0.194)		AACCAGGAAGTTTTTTTGCTG	0.483													27	326					0	0	1	0	0		C	4409705	C	C	4409705	3	2	27	1	0	0	0	0	1	0	0	0	16521	1725	60	3	883	3	TRIM21	11	4409705	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	270030	4409705	130596811	4906	27257											
TRIM21	6737	broad.mit.edu	37	chr11	4410964	4410964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcttctcagttcccctaatgCcacctggagcttctcctgca	6	13	6	16	0	3	0	1	0	3	0	6	1	4	1	5	1	3	3	5	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4410964C>T	uc001lyy.1	-	3	537	c.424G>A	c.(424-426)GCA>ACA	p.A142T		NM_003141	NP_003132	P19474	RO52_HUMAN	tripartite motif protein 21	142	Potential.				cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein deubiquitination|positive regulation of cell cycle|protein autoubiquitination|protein destabilization|protein monoubiquitination|protein polyubiquitination|protein trimerization	cytoplasmic mRNA processing body|nucleus	DNA binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;2.08e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0851)|LUSC - Lung squamous cell carcinoma(625;0.194)		TCCCCTAATGCCACCTGGAGC	0.463													36	134					0	0	1	0	0		T	4410964	T	T	4410964	3	4	27	1	0	0	0	0	1	0	0	0	16521	739	26	2	1023	2	TRIM21	11	4410964	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1259	4410964	130595552	4907	27258											
OR52K1	390036	broad.mit.edu	37	chr11	4511027	4511027	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatatggagtcaagaccaaGcagattcgtgagtatgtgct	13	11	11	6	1	1	3	1	1	0	2	2	4	1	4	1	1	2	3	1	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4511027G>A	uc001lza.1	+	1	897	c.897G>A	c.(895-897)AAG>AAA	p.K299K		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		TCAAGACCAAGCAGATTCGTG	0.438													9	139					0	0	1	0	0		A	4511027	A	A	4511027	2	1	27	1	0	0	0	0	0	0	0	1	11142	962	34	2		2	OR52K1	11	4511027	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	100063	4511027	130495489	4908	27259											
OR52I1	390037	broad.mit.edu	37	chr11	4615383	4615383	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatctcactgagtgccatgTacatcacagccctgttagga	10	11	8	12	0	2	1	2	1	1	0	3	2	2	2	2	1	3	2	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4615383T>C	uc010qyi.1	+	1	115	c.115T>C	c.(115-117)TAC>CAC	p.Y39H		NM_001005169	NP_001005169	Q8NGK6	O52I1_HUMAN	olfactory receptor, family 52, subfamily I,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;7.98e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GAGTGCCATGTACATCACAGC	0.507													7	112					0	0	1	0	0		C	4615383	C	C	4615383	3	2	27	1	0	0	0	0	1	0	0	0	11139	1638	57	3	117	3	OR52I1	11	4615383	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	104356	4615383	130391133	4909	27260											
OR52I1	390037	broad.mit.edu	37	chr11	4615865	4615865	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgctgaccccgtgcccagCagtctctacagtctgattgg	6	11	11	13	1	2	2	0	2	2	0	3	2	2	2	3	1	4	2	3	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4615865C>A	uc010qyi.1	+	1	597	c.597C>A	c.(595-597)AGC>AGA	p.S199R		NM_001005169	NP_001005169	Q8NGK6	O52I1_HUMAN	olfactory receptor, family 52, subfamily I,	199	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;7.98e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		CCGTGCCCAGCAGTCTCTACA	0.483													12	191					6.31663e-08	6.9209e-08	1	1	0		A	4615865	A	A	4615865	3	1	27	1	0	0	0	0	1	0	0	0	11139	709	25	5	599	5	OR52I1	11	4615865	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	482	4615865	130390651	4910	27261											
TRIM68	55128	broad.mit.edu	37	chr11	4621846	4621846	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctacattttgcttacatactCccaggccccactcagacctg	9	11	5	16	0	1	1	1	0	0	1	2	1	2	1	4	1	4	1	4	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4621846C>A	uc001lzf.1	-	7	1356	c.1118G>T	c.(1117-1119)GGA>GTA	p.G373V	TRIM68_uc001lzg.1_Missense_Mutation_p.G150V|TRIM68_uc010qyj.1_RNA	NM_018073	NP_060543	Q6AZZ1	TRI68_HUMAN	ring finger protein 137	373	B30.2/SPRY.				protein autoubiquitination|regulation of androgen receptor signaling pathway	Golgi apparatus|nucleolus|perinuclear region of cytoplasm	androgen receptor binding|histone acetyltransferase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;9.49e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		CTTACATACTCCCAGGCCCCA	0.532													10	23					0.00621372	0.00640274	1	1	0		A	4621846	A	A	4621846	3	1	27	1	0	0	0	0	1	0	0	0	16567	855	30	5	343	5	TRIM68	11	4621846	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5981	4621846	130384670	4911	27262											
OR52R1	119695	broad.mit.edu	37	chr11	4825366	4825366	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaatatggccaacatcttaGgttgagtggaggaggagagg	13	8	16	4	0	1	3	0	1	1	2	1	6	1	5	1	6	1	1	1	6	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4825366G>T	uc010qym.1	-	1	482	c.482C>A	c.(481-483)CCT>CAT	p.P161H		NM_001005177	NP_001005177	Q8NGF1	O52R1_HUMAN	olfactory receptor, family 52, subfamily R,	82	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0184)|all_neural(188;0.0227)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		CAACATCTTAGGTTGAGTGGA	0.498													20	58					0.000295444	0.000310733	1	1	0		T	4825366	T	T	4825366	3	4	27	1	0	0	0	0	1	0	0	0	11150	1000	35	5	705	5	OR52R1	11	4825366	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	203520	4825366	130181150	4912	27263											
OR51S1	119692	broad.mit.edu	37	chr11	4870066	4870066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccgatcaatggacatggCgagcaagacagaggactcca	13	5	12	11	2	1	2	1	0	0	2	2	6	2	4	2	3	2	1	2	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4870066C>T	uc010qyo.1	-	1	373	c.373G>A	c.(373-375)GCC>ACC	p.A125T		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	125	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATGGACATGGCGAGCAAGACA	0.527													27	92					0	0	1	0	0		T	4870066	T	T	4870066	3	4	27	1	0	0	0	0	1	0	0	0	11124	768	27	1	601	1	OR51S1	11	4870066	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	44700	4870066	130136450	4913	27264											
OR51T1	401665	broad.mit.edu	37	chr11	4903898	4903898	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactattttctatgtgccaCtgatcagcctctctttggca	7	16	6	12	0	4	1	2	1	2	0	5	1	4	1	2	1	2	1	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4903898C>A	uc010qyp.1	+	1	850	c.850C>A	c.(850-852)CTG>ATG	p.L284M		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	257	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTATGTGCCACTGATCAGCCT	0.502													7	74					8.12818e-05	8.61523e-05	1	1	0		A	4903898	A	A	4903898	3	1	27	1	0	0	0	0	1	0	0	0	11125	564	20	5	852	5	OR51T1	11	4903898	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	33832	4903898	130102618	4914	27265											
OR51G1	79324	broad.mit.edu	37	chr11	4945098	4945098	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaatggcaaggggaggaTgaggagagcacttctaagca	14	5	17	5	0	1	2	0	1	1	1	1	7	1	5	0	6	2	3	0	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4945098T>C	uc010qyr.1	-	1	472	c.472A>G	c.(472-474)ATC>GTC	p.I158V		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		AAGGGGAGGATGAGGAGAGCA	0.542													4	38					0	0	1	0	0		C	4945098	C	C	4945098	3	2	27	1	0	0	0	0	1	0	0	0	11117	1464	51	3	495	3	OR51G1	11	4945098	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	41200	4945098	130061418	4915	27266											
OR51A4	401666	broad.mit.edu	37	chr11	4967485	4967485	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcgtcagtggaggtacaagTaggagaacatttgccatgag	12	10	13	6	1	1	2	1	1	0	1	2	4	1	3	1	3	3	2	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4967485T>C	uc010qys.1	-	1	846	c.846A>G	c.(844-846)CTA>CTG	p.L282L		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	282	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GAGGTACAAGTAGGAGAACAT	0.433													7	173					0	0	1	0	0		C	4967485	C	C	4967485	2	2	27	1	0	0	0	0	0	0	0	1	11106	1625	57	3		3	OR51A4	11	4967485	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	22387	4967485	130039031	4916	27267											
OR51A2	401667	broad.mit.edu	37	chr11	4976522	4976522	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctatttgggcaactctgAcagttgtcaggattgaggtg	8	13	12	8	0	2	2	1	2	1	0	3	3	3	3	1	3	1	2	1	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:4976522A>T	uc010qyt.1	-	1	422	c.422T>A	c.(421-423)GTC>GAC	p.V141D		NM_001004748	NP_001004748	Q8NGJ7	O51A2_HUMAN	olfactory receptor, family 51, subfamily A,	141	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGCAACTCTGACAGTTGTCAG	0.433													30	137					0	0	1	0	0		T	4976522	T	T	4976522	3	4	27	1	0	0	0	0	1	0	0	0	11105	275	10	5	521	5	OR51A2	11	4976522	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	9037	4976522	130029994	4917	27268											
MMP26	56547	broad.mit.edu	37	chr11	5009533	5009533	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaccataaaggatgggactTtgttgaggtaggtgaacgac	13	9	14	5	1	0	3	0	2	0	1	0	6	0	5	1	4	1	2	1	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5009533T>C	uc001lzv.2	+	1	110	c.92T>C	c.(91-93)TTT>TCT	p.F31S		NM_021801	NP_068573	Q9NRE1	MMP26_HUMAN	matrix metalloproteinase 26 preproprotein	31					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Medulloblastoma(188;0.0025)|Breast(177;0.0204)|all_neural(188;0.0227)		Epithelial(150;1.33e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0287)|LUSC - Lung squamous cell carcinoma(625;0.191)		GGATGGGACTTTGTTGAGGTA	0.443													12	126					0	0	1	0	0		C	5009533	C	C	5009533	3	2	27	1	0	0	0	0	1	0	0	0	9681	1841	64	3	94	3	MMP26	11	5009533	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	33011	5009533	129996983	4918	27269											
MMP26	56547	broad.mit.edu	37	chr11	5013200	5013200	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctataatttttcaggatataAtctgttcctggttgcaactc	10	17	6	8	0	2	0	1	0	1	0	4	1	3	1	1	2	2	3	1	2	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5013200A>T	uc001lzv.2	+	5	620	c.602A>T	c.(601-603)AAT>ATT	p.N201I		NM_021801	NP_068573	Q9NRE1	MMP26_HUMAN	matrix metalloproteinase 26 preproprotein	201					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Medulloblastoma(188;0.0025)|Breast(177;0.0204)|all_neural(188;0.0227)		Epithelial(150;1.33e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0287)|LUSC - Lung squamous cell carcinoma(625;0.191)		TCAGGATATAATCTGTTCCTG	0.388													7	47					0	0	1	0	0		T	5013200	T	T	5013200	3	4	27	1	0	0	0	0	1	0	0	0	9681	101	4	5	620	5	MMP26	11	5013200	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3667	5013200	129993316	4919	27270											
OR51L1	119682	broad.mit.edu	37	chr11	5020602	5020602	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttttgttgctatctgccaTccactgcactaccccaccat	7	13	5	16	1	1	0	0	0	1	0	2	0	2	0	5	0	4	4	5	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5020602T>C	uc010qyu.1	+	1	390	c.390T>C	c.(388-390)CAT>CAC	p.H130H		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTATCTGCCATCCACTGCACT	0.498													12	181					0	0	1	0	0		C	5020602	C	C	5020602	2	2	27	1	0	0	0	0	0	0	0	1	11121	1432	50	3		3	OR51L1	11	5020602	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7402	5020602	129985914	4920	27271											
OR52A4	390053	broad.mit.edu	37	chr11	5142602	5142602	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaatgtctgtggctcctaaCgtggccaggaagatatacat	12	10	11	8	1	1	1	0	0	1	1	2	3	2	2	2	3	2	1	2	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5142602C>T	uc001lzz.1	-	1	207	c.207G>A	c.(205-207)ACG>ACA	p.T69T	OR52A4_uc001maa.2_RNA	NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		TGGCTCCTAACGTGGCCAGGA	0.423													14	44					0	0	1	0	0		T	5142602	T	T	5142602	2	4	27	1	0	0	0	0	0	0	0	1	11128	523	19	1		1	OR52A4	11	5142602	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	122000	5142602	129863914	4921	27272											
OR51V1	283111	broad.mit.edu	37	chr11	5221892	5221892	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaattcgtgctggtgctAgggcttactgaagtaatcat	11	12	12	6	1	1	2	1	1	0	1	2	3	1	2	0	2	3	4	0	2	6	4	rs145244038		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5221892A>G	uc010qyz.1	-	1	39	c.39T>C	c.(37-39)CCT>CCC	p.P13P		NM_001004760	NP_001004760	Q9H2C8	O51V1_HUMAN	olfactory receptor, family 51, subfamily V,	13	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.83e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGCTGGTGCTAGGGCTTACTG	0.408													8	70					0	0	1	0	0		G	5221892	G	G	5221892	2	3	27	1	0	0	0	0	0	0	0	1	11126	407	15	3		3	OR51V1	11	5221892	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	79290	5221892	129784624	4922	27273											
HBE1	3046	broad.mit.edu	37	chr11	5290838	5290838	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccttggggttgcccaggatgGcagagggagacgacaggttt	8	8	17	8	1	0	2	0	0	0	2	0	5	0	3	2	6	1	3	2	6	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5290838G>A	uc001mal.1	-	2	414	c.161C>T	c.(160-162)GCC>GTC	p.A54V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Missense_Mutation_p.A54V	NM_005330	NP_005321	P02100	HBE_HUMAN	epsilon globin	54					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.34e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCCCAGGATGGCAGAGGGAGA	0.478													5	92					0	0	1	0	0		A	5290838	A	A	5290838	3	1	27	1	0	0	0	0	1	0	0	0	6996	1203	42	2	290	2	HBE1	11	5290838	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	68946	5290838	129715678	4923	27274											
OR51Q1	390061	broad.mit.edu	37	chr11	5444364	5444364	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaaatttcctttccctcAaaaatatgcattcaagatga	14	15	4	8	0	2	2	2	1	0	1	4	2	4	2	2	0	1	2	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5444364A>G	uc010qzd.1	+	1	934	c.934A>G	c.(934-936)AAA>GAA	p.K312E	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCTTTCCCTCAAAAATATGCA	0.393													5	31					0	0	1	0	0		G	5444364	G	G	5444364	3	3	27	1	0	0	0	0	1	0	0	0	11123	131	5	3	936	3	OR51Q1	11	5444364	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	153526	5444364	129562152	4924	27275											
OR52D1	390066	broad.mit.edu	37	chr11	5510093	5510093	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccctcatcctggtcattGccatggacaatgctcttcat	7	13	7	14	0	4	0	3	0	1	0	5	1	5	1	3	2	3	1	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5510093G>T	uc010qzg.1	+	1	157	c.157G>T	c.(157-159)GCC>TCC	p.A53S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005163	NP_001005163	Q9H346	O52D1_HUMAN	olfactory receptor, family 52, subfamily D,	53	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.46e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCTGGTCATTGCCATGGACAA	0.537													24	97					1.32003e-05	1.41546e-05	1	1	0		T	5510093	T	T	5510093	3	4	27	1	0	0	0	0	1	0	0	0	11133	1319	46	5	159	5	OR52D1	11	5510093	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	65729	5510093	129496423	4925	27276											
UBQLN3	50613	broad.mit.edu	37	chr11	5530154	5530154	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccgcataatttccgggttgTtaagaatatgcccaatctca	11	12	8	10	2	1	1	1	0	1	1	3	1	2	1	3	1	1	3	3	1	5	5	rs141351264		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5530154T>C	uc001may.1	-	2	721	c.635A>G	c.(634-636)AAC>AGC	p.N212S	HBG2_uc001mak.1_Intron	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	212										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTCCGGGTTGTTAAGAATATG	0.522													9	111					0	0	1	0	0		C	5530154	C	C	5530154	3	2	27	1	0	0	0	0	1	0	0	0	16924	1725	60	3	1336	3	UBQLN3	11	5530154	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20061	5530154	129476362	4926	27277											
OR52B6	340980	broad.mit.edu	37	chr11	5602252	5602252	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacatatctggctgtccaTccccttctgcatcatgtaca	9	13	5	14	0	3	0	1	0	2	0	5	0	5	0	3	1	3	3	3	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5602252T>A	uc010qzi.1	+	1	146	c.146T>A	c.(145-147)ATC>AAC	p.I49N	HBG2_uc001mak.1_Intron	NM_001005162	NP_001005162	Q8NGF0	O52B6_HUMAN	olfactory receptor, family 52, subfamily B,	49	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;3.56e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGGCTGTCCATCCCCTTCTGC	0.512													7	80					0	0	1	0	0		A	5602252	A	A	5602252	3	1	27	1	0	0	0	0	1	0	0	0	11132	1435	50	5	148	5	OR52B6	11	5602252	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	72098	5602252	129404264	4927	27278											
OR52B6	340980	broad.mit.edu	37	chr11	5602389	5602389	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgctgatgtcttgctctctAccaccaccatgcctaaggcc	7	11	8	15	0	2	1	0	1	2	0	3	1	2	1	5	1	4	2	5	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5602389A>G	uc010qzi.1	+	1	283	c.283A>G	c.(283-285)ACC>GCC	p.T95A	HBG2_uc001mak.1_Intron	NM_001005162	NP_001005162	Q8NGF0	O52B6_HUMAN	olfactory receptor, family 52, subfamily B,	95	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;3.56e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTTGCTCTCTACCACCACCAT	0.478													15	146					0	0	1	0	0		G	5602389	G	G	5602389	3	3	27	1	0	0	0	0	1	0	0	0	11132	391	14	3	285	3	OR52B6	11	5602389	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	137	5602389	129404127	4928	27279											
OR52B6	340980	broad.mit.edu	37	chr11	5602413	5602413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaccatgcctaaggccctgGccaatttgtggctaggttat	8	11	10	12	0	0	0	0	0	0	0	0	0	0	0	5	4	1	2	5	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5602413G>A	uc010qzi.1	+	1	307	c.307G>A	c.(307-309)GCC>ACC	p.A103T	HBG2_uc001mak.1_Intron	NM_001005162	NP_001005162	Q8NGF0	O52B6_HUMAN	olfactory receptor, family 52, subfamily B,	103	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;3.56e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TAAGGCCCTGGCCAATTTGTG	0.502													13	126					0	0	1	0	0		A	5602413	A	A	5602413	3	1	27	1	0	0	0	0	1	0	0	0	11132	1203	42	2	309	2	OR52B6	11	5602413	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	24	5602413	129404103	4929	27280											
TRIM5	85363	broad.mit.edu	37	chr11	5700312	5700312	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcctcttgccttccaggAagctttctcttctctgatgt	6	16	6	13	0	3	1	0	1	3	0	7	2	5	2	3	1	2	1	3	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5700312A>G	uc001mbm.1	-	3	762	c.505T>C	c.(505-507)TCC>CCC	p.S169P	TRIM5_uc001mbq.1_Missense_Mutation_p.S169P|TRIM5_uc001mbl.1_RNA|TRIM5_uc001mbn.2_Missense_Mutation_p.S169P|TRIM5_uc001mbo.2_Missense_Mutation_p.S169P|TRIM5_uc001mbp.2_Missense_Mutation_p.S169P	NM_033034	NP_149023	Q9C035	TRIM5_HUMAN	tripartite motif protein TRIM5 isoform alpha	169	Potential.				interspecies interaction between organisms|protein trimerization|response to virus	cytoplasm|cytoplasmic mRNA processing body	ligase activity|protein binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)|Lung NSC(207;0.138)|all_lung(207;0.221)		Epithelial(150;7.21e-09)|BRCA - Breast invasive adenocarcinoma(625;0.139)		GCCTTCCAGGAAGCTTTCTCT	0.502													14	116					0	0	1	0	0		G	5700312	G	G	5700312	3	3	27	1	0	0	0	0	1	0	0	0	16551	246	9	3	1239	3	TRIM5	11	5700312	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	97899	5700312	129306204	4930	27281											
OR52E4	390081	broad.mit.edu	37	chr11	5905954	5905954	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaccaataaaaccatcagTatcctagcttctgtggttgt	11	13	6	11	0	3	0	2	0	1	0	4	0	4	0	3	1	2	3	3	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5905954T>C	uc010qzs.1	+	1	432	c.432T>C	c.(430-432)AGT>AGC	p.S144S	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	144	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAACCATCAGTATCCTAGCTT	0.458													9	132					0	0	1	0	0		C	5905954	C	C	5905954	2	2	27	1	0	0	0	0	0	0	0	1	11135	1635	57	3		3	OR52E4	11	5905954	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	205642	5905954	129100562	4931	27282											
OR56A3	390083	broad.mit.edu	37	chr11	5969268	5969268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cattctgcgagctgtgctgaGactcaaggcagagggtgccg	8	8	15	10	2	2	2	1	1	1	2	2	4	2	2	1	2	4	3	1	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:5969268G>A	uc010qzt.1	+	1	692	c.692G>A	c.(691-693)AGA>AAA	p.R231K		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCTGTGCTGAGACTCAAGGCA	0.512													7	209					0	0	1	0	0		A	5969268	A	A	5969268	3	1	27	1	0	0	0	0	1	0	0	0	11153	942	33	4	694	4	OR56A3	11	5969268	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	63314	5969268	129037248	4932	27283											
OR52L1	338751	broad.mit.edu	37	chr11	6007329	6007329	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaccaaagcggtgagtgaGgaaggagaaaattccaggga	16	5	15	5	1	0	4	0	3	0	1	1	7	1	6	2	4	1	0	2	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:6007329G>T	uc001mcd.2	-	1	887	c.832C>A	c.(832-834)CTC>ATC	p.L278I		NM_001005173	NP_001005173	Q8NGH7	O52L1_HUMAN	olfactory receptor, family 52, subfamily L,	278	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.98e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CGGTGAGTGAGGAAGGAGAAA	0.502													5	50					0.014758	0.0150623	1	1	0		T	6007329	T	T	6007329	3	4	27	1	0	0	0	0	1	0	0	0	11144	1000	35	5	161	5	OR52L1	11	6007329	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	38061	6007329	128999187	4933	27284											
OR56A1	120796	broad.mit.edu	37	chr11	6048082	6048082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaataaggtgatgaaggaCgttcagcaggatcaggatgt	14	8	15	4	1	2	2	2	2	0	0	2	6	2	6	0	5	1	2	0	5	3	2	rs139101039	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:6048082C>T	uc010qzw.1	-	1	853	c.853G>A	c.(853-855)GTC>ATC	p.V285I		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGATGAAGGACGTTCAGCAGG	0.473													15	120					0	0	1	0	0		T	6048082	T	T	6048082	3	4	27	1	0	0	0	0	1	0	0	0	11152	536	19	1	107	1	OR56A1	11	6048082	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	40753	6048082	128958434	4934	27285											
FAM160A2	84067	broad.mit.edu	37	chr11	6239971	6239971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcttctggctcagcataaCgtggttacatggaacaagat	11	10	11	9	2	2	1	1	0	1	1	2	2	2	2	0	4	4	4	0	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:6239971C>T	uc001mcl.3	-	8	1653	c.1294G>A	c.(1294-1296)GTT>ATT	p.V432I	FAM160A2_uc001mck.3_Missense_Mutation_p.V432I|FAM160A2_uc001mcm.2_Missense_Mutation_p.V432I	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	432					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						CTCAGCATAACGTGGTTACAT	0.522													27	101					0	0	1	0	0		T	6239971	T	T	6239971	3	4	27	1	0	0	0	0	1	0	0	0	5480	536	19	1	1686	1	FAM160A2	11	6239971	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	191889	6239971	128766545	4935	27286											
FAM160A2	84067	broad.mit.edu	37	chr11	6243821	6243821	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagataggcggtactggcgaTcatctcctccacagaggtct	9	9	11	12	2	3	2	1	0	2	2	5	3	4	2	2	4	1	1	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:6243821T>A	uc001mcl.3	-	6	1401	c.1042A>T	c.(1042-1044)ATC>TTC	p.I348F	FAM160A2_uc001mck.3_Missense_Mutation_p.I348F|FAM160A2_uc001mcm.2_Missense_Mutation_p.I348F	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	348					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						GTACTGGCGATCATCTCCTCC	0.502													4	44					0	0	1	0	0		A	6243821	A	A	6243821	3	1	27	1	0	0	0	0	1	0	0	0	5480	1435	50	5	1946	5	FAM160A2	11	6243821	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3850	6243821	128762695	4936	27287											
CCKBR	887	broad.mit.edu	37	chr11	6292256	6292256	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaggggctgttcaccagaAcgggcgttgccggcctgaga	7	7	15	12	3	2	2	2	1	0	2	2	3	2	2	3	4	2	3	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:6292256A>G	uc001mcp.2	+	5	1020	c.827A>G	c.(826-828)AAC>AGC	p.N276S	CCKBR_uc001mcq.2_Missense_Mutation_p.N204S|CCKBR_uc001mcr.2_Missense_Mutation_p.N276S|CCKBR_uc001mcs.2_Missense_Mutation_p.N345S|CCKBR_uc001mct.1_RNA	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	276	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	GTTCACCAGAACGGGCGTTGC	0.662													5	83					0	0	1	0	0		G	6292256	G	G	6292256	3	3	27	1	0	0	0	0	1	0	0	0	2884	43	2	3	845	3	CCKBR	11	6292256	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	48435	6292256	128714260	4937	27288											
TRIM3	10612	broad.mit.edu	37	chr11	6486843	6486843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccttggggcactggtacCgatccaggcagatgctgcat	9	8	13	11	1	0	1	0	0	0	1	1	3	1	1	3	4	4	5	3	4	2	2	rs146379181		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:6486843C>T	uc001mdh.2	-	3	470	c.83G>A	c.(82-84)CGG>CAG	p.R28Q	TRIM3_uc001mdi.2_Missense_Mutation_p.R28Q|TRIM3_uc010raj.1_Intron|TRIM3_uc009yfd.2_Missense_Mutation_p.R28Q|TRIM3_uc010rak.1_Missense_Mutation_p.R28Q|TRIM3_uc001mdj.2_5'UTR	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	28	RING-type.				nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding			central_nervous_system(2)|large_intestine(1)|ovary(1)|skin(1)	5		all_lung(207;9.97e-06)|Lung NSC(207;1.74e-05)|Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;9.34e-10)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.133)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCACTGGTACCGATCCAGGCA	0.602													5	94					0	0	1	0	0		T	6486843	T	T	6486843	3	4	27	1	0	0	0	0	1	0	0	0	16530	652	23	1	2195	1	TRIM3	11	6486843	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	194587	6486843	128519673	4938	27289											
TPP1	1200	broad.mit.edu	37	chr11	6638383	6638383	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaacggtgcagtcccccCactgtagggagaagtcaggc	11	5	14	11	1	1	1	1	0	0	1	2	3	2	2	3	4	2	2	3	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:6638383C>T	uc001mel.1	-	6	571	c.510G>A	c.(508-510)GTG>GTA	p.V170V	TPP1_uc001mek.1_5'UTR|TPP1_uc010rar.1_3'UTR	NM_000391	NP_000382	O14773	TPP1_HUMAN	tripeptidyl-peptidase I preproprotein	170					bone resorption|cell death|lipid metabolic process|lysosome organization|nervous system development|neuromuscular process controlling balance|peptide catabolic process|protein catabolic process|proteolysis	lysosome|melanosome|soluble fraction	metal ion binding|peptide binding|protein binding|serine-type endopeptidase activity|tripeptidyl-peptidase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;3.45e-09)|BRCA - Breast invasive adenocarcinoma(625;0.131)		GCAGTCCCCCCACTGTAGGGA	0.567													5	55					0	0	1	0	0		T	6638383	T	T	6638383	2	4	27	1	0	0	0	0	0	0	0	1	16437	608	21	4		4	TPP1	11	6638383	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	151540	6638383	128368133	4939	27290											
DCHS1	8642	broad.mit.edu	37	chr11	6661560	6661560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcctctcgatccagccGccgagccacacacaccagat	9	6	6	20	3	2	1	0	0	2	1	5	3	3	1	7	0	2	0	7	0	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:6661560G>A	uc001mem.1	-	2	1695	c.1285C>T	c.(1285-1287)CGG>TGG	p.R429W		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	429	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CGATCCAGCCGCCGAGCCACA	0.577													4	7					0	0	1	0	0		A	6661560	A	A	6661560	3	1	27	1	0	0	0	0	1	0	0	0	4290	1086	38	1	8691	1	DCHS1	11	6661560	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23177	6661560	128344956	4940	27291											
OR2AG1	144125	broad.mit.edu	37	chr11	6806618	6806618	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggacctcctactggcctTcatggcctatgacaggtatg	8	11	11	11	0	1	2	1	2	0	0	2	3	2	3	4	4	1	1	4	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:6806618T>C	uc001mer.1	+	1	350	c.350T>C	c.(349-351)TTC>TCC	p.F117S		NM_001004489	NP_001004489	Q9H205	O2AG1_HUMAN	olfactory receptor, family 2, subfamily AG,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.19e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CTACTGGCCTTCATGGCCTAT	0.542													10	75					0	0	1	0	0		C	6806618	C	C	6806618	3	2	27	1	0	0	0	0	1	0	0	0	11003	1783	62	3	352	3	OR2AG1	11	6806618	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	145058	6806618	128199898	4941	27292											
OR10A2	341276	broad.mit.edu	37	chr11	6891104	6891104	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctggttaccctagctgaccCcatgctacacagccccatgt	8	10	7	16	0	1	1	0	1	1	0	1	1	1	1	5	1	5	3	5	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:6891104C>A	uc001meu.1	+	1	119	c.119C>A	c.(118-120)CCC>CAC	p.P40H		NM_001004460	NP_001004460	Q9H208	O10A2_HUMAN	olfactory receptor, family 10, subfamily A,	40	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.89e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		CTAGCTGACCCCATGCTACAC	0.468													12	203					0.000219431	0.00023168	1	1	0		A	6891104	A	A	6891104	3	1	27	1	0	0	0	0	1	0	0	0	10909	623	22	5	121	5	OR10A2	11	6891104	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	84486	6891104	128115412	4942	27293											
ZNF214	7761	broad.mit.edu	37	chr11	7021635	7021635	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgaatttgaagatttgAgcgctgggtaaagcctttac	11	13	11	6	1	0	5	0	4	0	1	0	5	0	5	1	1	3	2	1	1	5	5	rs113759066		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:7021635A>T	uc001mfa.2	-	3	1582	c.1279T>A	c.(1279-1281)TCA>ACA	p.S427T	ZNF214_uc010ray.1_Missense_Mutation_p.S427T|ZNF214_uc009yfh.1_Missense_Mutation_p.S427T	NM_013249	NP_037381	Q9UL59	ZN214_HUMAN	zinc finger protein 214	427	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				Epithelial(150;3.87e-08)|BRCA - Breast invasive adenocarcinoma(625;0.081)		TGAAGATTTGAGCGCTGGGTA	0.413													14	106					0	0	1	0	0		T	7021635	T	T	7021635	3	4	27	1	0	0	0	0	1	0	0	0	17795	304	11	5	545	5	ZNF214	11	7021635	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	130531	7021635	127984881	4943	27294											
NLRP14	338323	broad.mit.edu	37	chr11	7081168	7081168	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttagcagtgaatatctgTcaacttctcttctacacaac	12	13	4	12	0	4	1	1	1	3	0	5	1	4	1	0	0	4	1	0	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:7081168T>A	uc001mfb.1	+	9	3000	c.2677T>A	c.(2677-2679)TCA>ACA	p.S893T		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	893	LRR 6.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		TGAATATCTGTCAACTTCTCT	0.443													4	65					0	0	1	0	0		A	7081168	A	A	7081168	3	1	27	1	0	0	0	0	1	0	0	0	10495	1667	58	5	2707	5	NLRP14	11	7081168	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	59533	7081168	127925348	4944	27295											
SYT9	143425	broad.mit.edu	37	chr11	7439228	7439228	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgtgtgatggcagacgActgaagaagaggaaaacatc	15	7	13	6	1	0	6	0	3	0	3	1	8	0	7	0	2	1	1	0	2	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:7439228A>T	uc001mfe.2	+	5	1443	c.1206A>T	c.(1204-1206)CGA>CGT	p.R402R	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_RNA	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	402	Cytoplasmic (Potential).|C2 2.					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		ATGGCAGACGACTGAAGAAGA	0.468													6	59					0	0	1	0	0		T	7439228	T	T	7439228	2	4	27	1	0	0	0	0	0	0	0	1	15506	262	10	5		5	SYT9	11	7439228	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	358060	7439228	127567288	4945	27296											
PPFIBP2	8495	broad.mit.edu	37	chr11	7631603	7631603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgaagctcaagctggttGgcatggagaaggagcagaga	13	6	16	6	0	1	3	1	1	0	2	1	6	1	4	0	4	4	6	0	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:7631603G>A	uc001mfj.3	+	6	956	c.568G>A	c.(568-570)GGC>AGC	p.G190S	PPFIBP2_uc010rbb.1_Missense_Mutation_p.G113S|PPFIBP2_uc001mfk.1_RNA|PPFIBP2_uc010rbc.1_Missense_Mutation_p.G113S|PPFIBP2_uc010rbd.1_Missense_Mutation_p.G32S|PPFIBP2_uc010rbe.1_Missense_Mutation_p.G78S|PPFIBP2_uc001mfl.3_Missense_Mutation_p.G47S	NM_003621	NP_003612	Q8ND30	LIPB2_HUMAN	PTPRF interacting protein, binding protein 2	190	Potential.				cell communication|DNA integration	intracellular	DNA binding|integrase activity|protein binding			ovary(2)|breast(2)	4				Epithelial(150;2.01e-07)|BRCA - Breast invasive adenocarcinoma(625;0.236)		CAAGCTGGTTGGCATGGAGAA	0.517													8	110					0	0	1	0	0		A	7631603	A	A	7631603	3	1	27	1	0	0	0	0	1	0	0	0	12333	1348	47	4	586	4	PPFIBP2	11	7631603	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	192375	7631603	127374913	4946	27297											
PPFIBP2	8495	broad.mit.edu	37	chr11	7672093	7672093	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taacctttctccttcagaagTtgtacagtggtccaaccaca	11	12	6	12	0	2	1	1	0	1	1	4	1	3	1	4	1	3	2	4	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:7672093T>C	uc001mfj.3	+	22	2532	c.2144T>C	c.(2143-2145)GTT>GCT	p.V715A	PPFIBP2_uc010rbb.1_Missense_Mutation_p.V638A|PPFIBP2_uc001mfk.1_Intron|PPFIBP2_uc010rbc.1_Missense_Mutation_p.V649A|PPFIBP2_uc010rbe.1_Missense_Mutation_p.V603A|PPFIBP2_uc001mfl.3_Missense_Mutation_p.V572A|PPFIBP2_uc009yfj.1_Missense_Mutation_p.V359A	NM_003621	NP_003612	Q8ND30	LIPB2_HUMAN	PTPRF interacting protein, binding protein 2	715					cell communication|DNA integration	intracellular	DNA binding|integrase activity|protein binding			ovary(2)|breast(2)	4				Epithelial(150;2.01e-07)|BRCA - Breast invasive adenocarcinoma(625;0.236)		CCTTCAGAAGTTGTACAGTGG	0.537													14	108					0	0	1	0	0		C	7672093	C	C	7672093	3	2	27	1	0	0	0	0	1	0	0	0	12333	1725	60	3	2226	3	PPFIBP2	11	7672093	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	40490	7672093	127334423	4947	27298											
CYB5R2	51700	broad.mit.edu	37	chr11	7693999	7693999	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttctcaatcaagggcaGcgggtacttggcttcagggt	7	12	12	10	1	4	0	3	0	2	0	5	0	4	0	0	4	2	3	0	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:7693999G>A	uc001mfm.2	-	2	296	c.58C>T	c.(58-60)CTG>TTG	p.L20L	CYB5R2_uc001mfn.2_RNA|CYB5R2_uc009yfk.2_Silent_p.L20L|CYB5R2_uc009yfl.1_Silent_p.L20L	NM_016229	NP_057313	Q6BCY4	NB5R2_HUMAN	cytochrome b5 reductase b5R.2	20	FAD-binding FR-type.				sterol biosynthetic process	membrane|soluble fraction	cytochrome-b5 reductase activity				0				Epithelial(150;5.48e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ATCAAGGGCAGCGGGTACTTG	0.557													8	66					0	0	1	0	0		A	7693999	A	A	7693999	2	1	27	1	0	0	0	0	0	0	0	1	4130	962	34	2		2	CYB5R2	11	7693999	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21906	7693999	127312517	4948	27299											
OR5P2	120065	broad.mit.edu	37	chr11	7817752	7817752	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggtaatggtcccatagaaCagggtaaccacagtgaggtg	14	7	13	7	0	0	2	0	1	0	1	1	2	1	2	2	4	2	2	2	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:7817752C>T	uc001mfp.1	-	1	738	c.738G>A	c.(736-738)CTG>CTA	p.L246L		NM_153444	NP_703145	Q8WZ92	OR5P2_HUMAN	olfactory receptor, family 5, subfamily P,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TCCCATAGAACAGGGTAACCA	0.493													21	85					0	0	1	0	0		T	7817752	T	T	7817752	2	4	27	1	0	0	0	0	0	0	0	1	11197	465	17	4		4	OR5P2	11	7817752	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	123753	7817752	127188764	4949	27300											
OR5P3	120066	broad.mit.edu	37	chr11	7846735	7846735	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagttgagtagctggacttgGgcatcacataaatgaaggta	13	10	12	6	0	1	2	1	2	0	0	1	3	1	3	0	3	1	5	0	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:7846735G>T	uc010rbg.1	-	1	785	c.785C>A	c.(784-786)CCC>CAC	p.P262H		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GCTGGACTTGGGCATCACATA	0.532													6	59					0.248553	0.249545	1	1	0		T	7846735	T	T	7846735	3	4	27	1	0	0	0	0	1	0	0	0	11198	1232	43	5	153	5	OR5P3	11	7846735	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	28983	7846735	127159781	4950	27301											
RIC3	79608	broad.mit.edu	37	chr11	8161632	8161632	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccacctgatcctttggccTttgcaaatgcctcggcaagg	7	11	9	14	1	0	1	0	1	0	0	3	1	2	1	5	3	2	2	5	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:8161632T>C	uc001mgd.2	-	2	287	c.233A>G	c.(232-234)AAG>AGG	p.K78R	RIC3_uc001mgb.2_5'Flank|RIC3_uc001mgc.2_Missense_Mutation_p.K78R|RIC3_uc001mge.2_Intron|RIC3_uc010rbl.1_Missense_Mutation_p.K28R|RIC3_uc010rbm.1_Missense_Mutation_p.K78R|RIC3_uc009yfm.2_Missense_Mutation_p.K78R|RIC3_uc009yfn.2_Intron|RIC3_uc001mgf.3_Missense_Mutation_p.K78R	NM_024557	NP_078833	Q7Z5B4	RIC3_HUMAN	resistance to inhibitors of cholinesterase 3	78	Lumenal (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				large_intestine(1)|ovary(1)|pancreas(1)	3				Epithelial(150;2.89e-07)|BRCA - Breast invasive adenocarcinoma(625;0.204)		TCCTTTGGCCTTTGCAAATGC	0.512													5	75					0	0	1	0	0		C	8161632	C	C	8161632	3	2	27	1	0	0	0	0	1	0	0	0	13379	1609	56	3	893	3	RIC3	11	8161632	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	314897	8161632	126844884	4951	27302											
LMO1	4004	broad.mit.edu	37	chr11	8251944	8251944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacttgaggcagtcttcgtGccagtacttgtccaatgcct	8	12	9	12	1	1	1	0	1	1	0	3	1	2	1	3	1	3	2	3	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:8251944G>A	uc001mgg.1	-	2	630	c.133C>T	c.(133-135)CAC>TAC	p.H45Y	LMO1_uc009yfo.1_RNA|LMO1_uc001mgh.1_Missense_Mutation_p.H44Y	NM_002315	NP_002306	P25800	RBTN1_HUMAN	LIM domain only 1	45	LIM zinc-binding 1.				cell proliferation|multicellular organismal development|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;1.59e-07)|BRCA - Breast invasive adenocarcinoma(625;0.203)		CAGTCTTCGTGCCAGTACTTG	0.602			T|A	TRD@	T-ALL|neuroblastoma	neuroblastoma							16	98					0	0	1	0	0		A	8251944	A	A	8251944	3	1	27	1	0	0	0	0	1	0	0	0	8868	1319	46	2	349	2	LMO1	11	8251944	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	90312	8251944	126754572	4952	27303											
C11orf17	56672	broad.mit.edu	37	chr11	8940962	8940962	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgggctcaaatgacttaAccaagaagactcatgtggta	13	10	10	8	0	2	3	2	1	0	2	2	3	2	3	1	2	1	2	1	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:8940962A>G	uc001mgx.2	+	6	644	c.568A>G	c.(568-570)ACC>GCC	p.T190A	C11orf17_uc001mgz.2_Missense_Mutation_p.T163A|C11orf17_uc001mgy.2_Missense_Mutation_p.T163A|C11orf17_uc001mha.2_Missense_Mutation_p.T190A	NM_020642	NP_065693	Q9NQ31	AKIP1_HUMAN	chromosome 11 open reading frame 17	190						nucleus	protein binding				0				Epithelial(150;5.08e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0243)		AAATGACTTAACCAAGAAGAC	0.438													29	104					0	0	1	0	0		G	8940962	G	G	8940962	3	3	27	1	0	0	0	0	1	0	0	0	1635	43	2	3	586	3	C11orf17	11	8940962	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	689018	8940962	126065554	4953	27304											
SCUBE2	57758	broad.mit.edu	37	chr11	9077338	9077338	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacaggggcagtctgctcAcctccacagtgggtgaagcc	8	8	13	12	0	2	2	1	2	1	0	3	2	3	2	3	3	2	2	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:9077338A>G	uc001mhh.1	-	10	1287	c.1207_splice	c.e10+1	p.D403_splice	SCUBE2_uc001mhi.1_Splice_Site_p.D403_splice|SCUBE2_uc001mhj.1_Splice_Site_p.D403_splice	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor							extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		CAGTCTGCTCACCTCCACAGT	0.572													14	113					0	0	1	0	0		G	9077338	G	G	9077338	5	3	27	1	0	0	0	0	0	0	1	0	13970	173	6	3	1933	3	SCUBE2	11	9077338	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	136376	9077338	125929178	4954	27305											
SBF2	81846	broad.mit.edu	37	chr11	9879811	9879811	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatgattgtcttccttggCtgagagataaagggagcgaa	11	10	14	6	1	1	3	0	2	1	1	2	6	2	4	1	3	1	2	1	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:9879811C>A	uc001mib.2	-	18	2200	c.2062G>T	c.(2062-2064)GCC>TCC	p.A688S	SBF2_uc001mif.3_Missense_Mutation_p.A444S|uc001mig.2_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	688					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		TCTTCCTTGGCTGAGAGATAA	0.448													13	161					0.000151284	0.000160261	1	1	0		A	9879811	A	A	9879811	3	1	27	1	0	0	0	0	1	0	0	0	13884	797	28	5	3579	5	SBF2	11	9879811	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	802473	9879811	125126705	4955	27306											
SBF2	81846	broad.mit.edu	37	chr11	9989942	9989942	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttctattcgtgtggcaggagGtgcattctggttcttagcaa	7	15	12	7	1	3	0	0	0	3	0	4	1	3	1	0	4	2	4	0	4	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:9989942G>C	uc001mib.2	-	14	1684	c.1546C>G	c.(1546-1548)CCT>GCT	p.P516A	SBF2_uc001mif.3_Missense_Mutation_p.P272A|SBF2_uc001mih.3_Missense_Mutation_p.P45A	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	516					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		GTGGCAGGAGGTGCATTCTGG	0.403													9	102					0	0	1	0	0		C	9989942	C	C	9989942	3	2	27	1	0	0	0	0	1	0	0	0	13884	1261	44	5	4111	5	SBF2	11	9989942	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	110131	9989942	125016574	4956	27307											
LYVE1	10894	broad.mit.edu	37	chr11	10585563	10585563	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggacacccaccccatttttCccacacttggggtttgggct	7	11	9	14	0	0	0	0	0	0	0	1	1	1	1	4	4	0	2	4	4	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:10585563C>T	uc001miv.2	-	3	607	c.321G>A	c.(319-321)GGG>GGA	p.G107G	uc001miu.2_Intron|LYVE1_uc010rca.1_Intron	NM_006691	NP_006682	Q9Y5Y7	LYVE1_HUMAN	lymphatic vessel endothelial hyaluronan receptor	107	Link.|Extracellular (Potential).				anatomical structure morphogenesis|cell-matrix adhesion|cellular component movement|response to wounding|transport	integral to plasma membrane|membrane fraction				central_nervous_system(1)|skin(1)	2				all cancers(16;7.22e-08)|Epithelial(150;1.03e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0609)		CCCCATTTTTCCCACACTTGG	0.463													4	48					0	0	1	0	0		T	10585563	T	T	10585563	2	4	27	1	0	0	0	0	0	0	0	1	9147	842	30	4		4	LYVE1	11	10585563	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	595621	10585563	124420953	4957	27308											
USP47	55031	broad.mit.edu	37	chr11	11944340	11944340	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagttgtcacagtgatcagAtgagcaacgatttctccaat	12	12	9	8	1	3	3	2	2	1	1	4	4	3	3	1	0	2	3	1	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:11944340A>T	uc001mjq.1	+	12	2111	c.1348A>T	c.(1348-1350)ATG>TTG	p.M450L	USP47_uc001mjr.2_Missense_Mutation_p.M362L|USP47_uc001mjs.2_Missense_Mutation_p.M430L	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	450					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		CAGTGATCAGATGAGCAACGA	0.363													3	41					0	0	1	0	0		T	11944340	T	T	11944340	3	4	27	1	0	0	0	0	1	0	0	0	17104	333	12	5	1122	5	USP47	11	11944340	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1358777	11944340	123062176	4958	27309											
MICALCL	84953	broad.mit.edu	37	chr11	12315220	12315220	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccagggaaattcccctgtAtctgcctcatcacccaaagc	11	8	6	16	0	3	0	2	0	1	0	4	1	4	1	5	1	2	1	5	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:12315220A>G	uc001mkg.1	+	3	533	c.242A>G	c.(241-243)TAT>TGT	p.Y81C		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	81	Interaction with MAPK1 (By similarity).				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		ATTCCCCTGTATCTGCCTCAT	0.587													9	158					0	0	1	0	0		G	12315220	G	G	12315220	3	3	27	1	0	0	0	0	1	0	0	0	9590	449	16	3	248	3	MICALCL	11	12315220	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	370880	12315220	122691296	4959	27310											
MICALCL	84953	broad.mit.edu	37	chr11	12316135	12316135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaagagaacttcccagatgCttctaagcctccaaagaaaa	16	7	7	11	0	1	3	0	0	1	3	3	4	3	3	3	0	3	2	3	0	6	3	rs112851920		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:12316135C>T	uc001mkg.1	+	3	1448	c.1157C>T	c.(1156-1158)GCT>GTT	p.A386V		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	386					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		TTCCCAGATGCTTCTAAGCCT	0.453													18	158					0	0	1	0	0		T	12316135	T	T	12316135	3	4	27	1	0	0	0	0	1	0	0	0	9590	797	28	2	1163	2	MICALCL	11	12316135	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	915	12316135	122690381	4960	27311											
ARNTL	406	broad.mit.edu	37	chr11	13388247	13388247	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagtttgtttgactacctGcatcctaaagatattgccaa	12	13	7	9	0	0	3	0	1	0	2	1	3	1	3	3	0	3	3	3	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:13388247G>A	uc001mkr.2	+	11	996	c.588G>A	c.(586-588)CTG>CTA	p.L196L	ARNTL_uc001mko.2_Silent_p.L153L|ARNTL_uc001mkp.2_Silent_p.L196L|ARNTL_uc001mkq.2_Silent_p.L196L|ARNTL_uc001mks.2_Silent_p.L153L|ARNTL_uc001mkt.2_Silent_p.L196L|ARNTL_uc001mku.2_RNA|ARNTL_uc009ygm.1_Silent_p.L153L|ARNTL_uc001mkv.1_Silent_p.L153L|ARNTL_uc001mkw.2_Silent_p.L153L|ARNTL_uc001mkx.2_Silent_p.L194L	NM_001178	NP_001169	O00327	BMAL1_HUMAN	aryl hydrocarbon receptor nuclear	196	PAS 1.				circadian rhythm|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	aryl hydrocarbon receptor binding|DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0				Epithelial(150;0.0243)		TTGACTACCTGCATCCTAAAG	0.453													41	122					0	0	1	0	0		A	13388247	A	A	13388247	2	1	27	1	0	0	0	0	0	0	0	1	968	1306	46	2		2	ARNTL	11	13388247	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1072112	13388247	121618269	4961	27312											
FAR1	84188	broad.mit.edu	37	chr11	13729544	13729544	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgcatgtatcaacagcaTatgcctactgtaatcgcaag	13	11	7	10	1	2	0	2	0	0	0	3	0	2	0	1	0	5	5	1	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:13729544T>C	uc001mld.2	+	4	618	c.463T>C	c.(463-465)TAT>CAT	p.Y155H	FAR1_uc009ygp.2_Missense_Mutation_p.Y155H	NM_032228	NP_115604	Q8WVX9	FACR1_HUMAN	fatty acyl CoA reductase 1	155					ether lipid biosynthetic process	integral to membrane|peroxisomal matrix|peroxisomal membrane	protein binding			ovary(1)|skin(1)	2						ATCAACAGCATATGCCTACTG	0.393													6	88					0	0	1	0	0		C	13729544	C	C	13729544	3	2	27	1	0	0	0	0	1	0	0	0	5688	1406	49	3	473	3	FAR1	11	13729544	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	341297	13729544	121276972	4962	27313											
COPB1	1315	broad.mit.edu	37	chr11	14502603	14502603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctttcgtacttctaagTctggtgtgctcaatactctt	6	20	6	9	1	5	0	1	0	4	0	6	0	5	0	0	1	3	2	0	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:14502603T>C	uc001mli.2	-	9	1305	c.998A>G	c.(997-999)GAC>GGC	p.D333G	COPB1_uc001mlg.2_Missense_Mutation_p.D333G|COPB1_uc001mlh.2_Missense_Mutation_p.D333G	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	333	HEAT 5.				COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						TACTTCTAAGTCTGGTGTGCT	0.363													13	138					0	0	1	0	0		C	14502603	C	C	14502603	3	2	27	1	0	0	0	0	1	0	0	0	3731	1667	58	3	1919	3	COPB1	11	14502603	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	773059	14502603	120503913	4963	27314											
COPB1	1315	broad.mit.edu	37	chr11	14508019	14508019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatagatgcagcgaataaaaCgagctctttctgatggatta	14	12	9	6	2	2	2	0	1	2	1	2	5	2	3	0	1	4	2	0	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:14508019C>T	uc001mli.2	-	7	1038	c.731G>A	c.(730-732)CGT>CAT	p.R244H	COPB1_uc001mlg.2_Missense_Mutation_p.R244H|COPB1_uc001mlh.2_Missense_Mutation_p.R244H	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	244	HEAT 3.				COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						GCGAATAAAACGAGCTCTTTC	0.403													8	95					0	0	1	0	0		T	14508019	T	T	14508019	3	4	27	1	0	0	0	0	1	0	0	0	3731	536	19	1	2194	1	COPB1	11	14508019	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5416	14508019	120498497	4964	27315											
PSMA1	5682	broad.mit.edu	37	chr11	14539484	14539484	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaactgtggctgaacctTgtttaacagcttccattgca	10	12	8	11	0	0	1	0	1	0	0	1	2	1	1	3	1	5	4	3	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:14539484T>C	uc001mlk.2	-	3	238	c.92A>G	c.(91-93)CAA>CGA	p.Q31R	PSMA1_uc001mll.2_Missense_Mutation_p.Q37R|PSMA1_uc010rcp.1_RNA|PSMA1_uc001mlj.2_Missense_Mutation_p.Q6R|PSMA1_uc010rcq.1_Missense_Mutation_p.Q31R	NM_002786	NP_002777	P25786	PSA1_HUMAN	proteasome alpha 1 subunit isoform 2	31					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|polysome|proteasome core complex, alpha-subunit complex	protein binding|RNA binding|threonine-type endopeptidase activity			upper_aerodigestive_tract(1)|skin(1)	2						GGCTGAACCTTGTTTAACAGC	0.303													3	51					0	0	1	0	0		C	14539484	C	C	14539484	3	2	27	1	0	0	0	0	1	0	0	0	12688	1812	63	3	781	3	PSMA1	11	14539484	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31465	14539484	120467032	4965	27316											
PDE3B	5140	broad.mit.edu	37	chr11	14808106	14808106	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctctctacggagtattagtAgcttaatgggtgctttctca	8	15	9	9	1	2	0	1	0	2	0	4	1	2	1	1	2	3	4	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:14808106A>G	uc001mln.2	+	3	1506	c.1153A>G	c.(1153-1155)AGC>GGC	p.S385G	PDE3B_uc010rcr.1_Intron	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	385					cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						GAGTATTAGTAGCTTAATGGG	0.448													20	218					0	0	1	0	0		G	14808106	G	G	14808106	3	3	27	1	0	0	0	0	1	0	0	0	11657	420	15	3	1163	3	PDE3B	11	14808106	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	268622	14808106	120198410	4966	27317											
PDE3B	5140	broad.mit.edu	37	chr11	14856574	14856574	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctacatgcagtttggtaTctgacaacacggccagttcc	9	11	10	11	1	1	1	0	1	1	0	2	1	2	1	2	2	4	5	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:14856574T>A	uc001mln.2	+	11	2606	c.2253T>A	c.(2251-2253)TAT>TAA	p.Y751*	PDE3B_uc010rcr.1_Nonsense_Mutation_p.Y700*	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	751	Catalytic (By similarity).				cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						CAGTTTGGTATCTGACAACAC	0.383													7	75					0	0	1	0	0		A	14856574	A	A	14856574	4	1	27	1	0	0	0	0	0	1	0	0	11657	1442	50	5	2295	5	PDE3B	11	14856574	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	48468	14856574	120149942	4967	27318											
SOX6	55553	broad.mit.edu	37	chr11	15994527	15994527	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctggatgaccgggaggCtgggctccgggctggccgag	4	7	19	11	3	1	1	0	1	1	0	2	4	2	3	3	6	1	4	3	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:15994527C>A	uc001mme.2	-	16	2387	c.2354G>T	c.(2353-2355)AGC>ATC	p.S785I	SOX6_uc001mmd.2_Missense_Mutation_p.S748I|SOX6_uc001mmf.2_Missense_Mutation_p.S745I|SOX6_uc001mmg.2_Missense_Mutation_p.S752I	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	772					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						GACCGGGAGGCTGGGCTCCGG	0.507													7	128					0.0293803	0.0298427	1	1	0		A	15994527	A	A	15994527	3	1	27	1	0	0	0	0	1	0	0	0	14980	797	28	5	175	5	SOX6	11	15994527	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1137953	15994527	119011989	4968	27319											
SOX6	55553	broad.mit.edu	37	chr11	16068172	16068172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctgctctcgcatcttcCgcgcctcctgaatggctttc	4	13	9	15	3	3	1	0	1	3	0	7	2	5	2	3	2	1	3	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:16068172C>T	uc001mme.2	-	12	1583	c.1550G>A	c.(1549-1551)CGG>CAG	p.R517Q	SOX6_uc001mmd.2_Missense_Mutation_p.R480Q|SOX6_uc001mmf.2_Missense_Mutation_p.R477Q|SOX6_uc001mmg.2_Missense_Mutation_p.R504Q	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	504					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						TCGCATCTTCCGCGCCTCCTG	0.502													6	101					0	0	1	0	0		T	16068172	T	T	16068172	3	4	27	1	0	0	0	0	1	0	0	0	14980	652	23	1	995	1	SOX6	11	16068172	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	73645	16068172	118938344	4969	27320											
PIK3C2A	5286	broad.mit.edu	37	chr11	17141478	17141478	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttgggtgtttgaagcaatAataacgtttctcccataaaa	14	14	7	6	1	1	1	0	1	1	0	2	1	1	1	1	1	2	3	1	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:17141478A>G	uc001mmq.3	-	15	2767	c.2701T>C	c.(2701-2703)TAT>CAT	p.Y901H	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Missense_Mutation_p.Y521H|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	901					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	TTGAAGCAATAATAACGTTTC	0.323													5	61					0	0	1	0	0		G	17141478	G	G	17141478	3	3	27	1	0	0	0	0	1	0	0	0	11928	362	13	3	2431	3	PIK3C2A	11	17141478	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1073306	17141478	117865038	4970	27321											
PIK3C2A	5286	broad.mit.edu	37	chr11	17156512	17156512	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcatggagtctgagaagAtcataaattgctgcagttaa	13	13	10	5	0	2	2	1	1	1	2	2	4	2	3	0	1	3	4	0	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:17156512A>C	uc001mmq.3	-	10	2028	c.1962T>G	c.(1960-1962)GAT>GAG	p.D654E	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Missense_Mutation_p.D274E|PIK3C2A_uc001mmr.3_Intron|PIK3C2A_uc010rcx.1_Missense_Mutation_p.D654E	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	654					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	GTCTGAGAAGATCATAAATTG	0.393													12	151					0	0	1	0	0		C	17156512	C	C	17156512	3	2	27	1	0	0	0	0	1	0	0	0	11928	330	12	5	3190	5	PIK3C2A	11	17156512	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	15034	17156512	117850004	4971	27322											
ABCC8	6833	broad.mit.edu	37	chr11	17452414	17452414	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacagcaggaacagcggTgtgaccaagatatggaagag	14	5	15	7	1	0	3	0	1	0	2	0	6	0	6	1	4	3	1	1	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:17452414T>C	uc001mnc.2	-	12	1890	c.1764A>G	c.(1762-1764)ACA>ACG	p.T588T	ABCC8_uc010rcy.1_Silent_p.T587T	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	588	Helical; Name=11; (By similarity).|ABC transmembrane type-1 1.				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	GGAACAGCGGTGTGACCAAGA	0.607													10	110					0	0	1	0	0		C	17452414	C	C	17452414	2	2	27	1	0	0	0	0	0	0	0	1	58	1683	59	3		3	ABCC8	11	17452414	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	295902	17452414	117554102	4972	27323											
USH1C	10083	broad.mit.edu	37	chr11	17548843	17548843	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatgggtacaggaggagatGgaatatccattgatccggac	12	9	13	7	1	1	2	1	1	0	1	3	6	3	5	2	5	1	1	2	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:17548843G>T	uc001mnf.2	-	5	532	c.423C>A	c.(421-423)TCC>TCA	p.S141S	USH1C_uc001mne.2_Silent_p.S141S|USH1C_uc009yhb.2_Silent_p.S141S|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_Silent_p.S105S	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	141	PDZ 1.				equilibrioception|G2/M transition of mitotic cell cycle|photoreceptor cell maintenance|sensory perception of sound	apical part of cell|cytoplasm|stereocilium	protein binding			ovary(1)	1						AGGAGGAGATGGAATATCCAT	0.552													10	75					0.00621372	0.00640274	1	1	0		T	17548843	T	T	17548843	2	4	27	1	0	0	0	0	0	0	0	1	17060	1335	47	5		5	USH1C	11	17548843	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	96429	17548843	117457673	4973	27324											
MYOD1	4654	broad.mit.edu	37	chr11	17741356	17741356	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactgtcgccaccgctccgCgacgtagacctgacggcccc	6	6	10	19	6	0	2	0	1	0	1	2	3	1	2	6	1	1	2	6	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:17741356C>T	uc001mni.2	+	1	247	c.27C>T	c.(25-27)CGC>CGT	p.R9R		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	9					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						CACCGCTCCGCGACGTAGACC	0.652													16	66					0	0	1	0	0		T	17741356	T	T	17741356	2	4	27	1	0	0	0	0	0	0	0	1	10106	755	27	1		1	MYOD1	11	17741356	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	192513	17741356	117265160	4974	27325											
KCNC1	3746	broad.mit.edu	37	chr11	17757940	17757940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctcctctggacaacagcGccgacgacgcggacgccgac	8	3	13	17	8	1	0	0	0	1	0	2	5	2	2	3	2	2	1	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:17757940G>A	uc001mnk.3	+	1	446	c.391G>A	c.(391-393)GCC>ACC	p.A131T	KCNC1_uc009yhc.1_Missense_Mutation_p.A131T	NM_004976	NP_004967	P48547	KCNC1_HUMAN	Shaw-related voltage-gated potassium channel	131	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)	1						GGACAACAGCGCCGACGACGC	0.716													6	9					0	0	1	0	0		A	17757940	A	A	17757940	3	1	27	1	0	0	0	0	1	0	0	0	8030	1087	38	1	393	1	KCNC1	11	17757940	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16584	17757940	117248576	4975	27326											
KCNC1	3746	broad.mit.edu	37	chr11	17793578	17793578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgggcttcctgcgcgtcGtccgcttcgtgcgcatcttg	1	13	13	14	6	1	0	0	0	1	0	5	0	3	0	2	1	3	4	2	1	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:17793578G>A	uc001mnk.3	+	2	992	c.937G>A	c.(937-939)GTC>ATC	p.V313I	KCNC1_uc009yhc.1_Missense_Mutation_p.V313I	NM_004976	NP_004967	P48547	KCNC1_HUMAN	Shaw-related voltage-gated potassium channel	313	Helical; Voltage-sensor; Name=Segment S4; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)	1						CCTGCGCGTCGTCCGCTTCGT	0.632													5	30					0	0	1	0	0		A	17793578	A	A	17793578	3	1	27	1	0	0	0	0	1	0	0	0	8030	1145	40	1	943	1	KCNC1	11	17793578	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	35638	17793578	117212938	4976	27327											
SPTY2D1	144108	broad.mit.edu	37	chr11	18633968	18633968	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagtcgtattcatcatcAtcgtcatcttcctcttcata	9	16	4	12	2	8	1	6	0	2	1	11	1	9	1	1	0	0	1	1	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:18633968A>G	uc001moy.2	-	4	1995	c.1779T>C	c.(1777-1779)GAT>GAC	p.D593D	SPTY2D1_uc010rdi.1_Silent_p.D593D	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	593	Poly-Asp.									breast(1)	1						ATTCATCATCATCGTCATCTT	0.373													4	86					0	0	1	0	0		G	18633968	G	G	18633968	2	3	27	1	0	0	0	0	0	0	0	1	15151	214	8	3		3	SPTY2D1	11	18633968	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	840390	18633968	116372548	4977	27328											
IGSF22	283284	broad.mit.edu	37	chr11	18743101	18743101	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttcagcacgtgttccttgTtaatgctgtcgtagaatatc	8	15	8	10	2	1	1	1	0	0	1	4	1	2	1	2	0	2	5	2	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:18743101T>C	uc009yht.2	-	4	549	c.359A>G	c.(358-360)AAC>AGC	p.N120S	IGSF22_uc001mpa.2_RNA	NM_173588	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	120	Ig-like 1.									ovary(4)|large_intestine(2)|kidney(1)	7						GTGTTCCTTGTTAATGCTGTC	0.627											OREG0020822	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	127					0	0	1	0	0		C	18743101	C	C	18743101	3	2	27	1	0	0	0	0	1	0	0	0	7616	1725	60	3	3701	3	IGSF22	11	18743101	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	109133	18743101	116263415	4978	27329											
E2F8	79733	broad.mit.edu	37	chr11	19259413	19259413	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacctacgtgtatacagtcTttggcctcaggtaatccact	11	12	7	11	1	2	0	1	0	1	0	3	0	3	0	3	2	3	2	3	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:19259413T>G	uc001mpm.2	-	3	804	c.282A>C	c.(280-282)AAA>AAC	p.K94N	E2F8_uc009yhv.2_RNA|E2F8_uc001mpn.3_Missense_Mutation_p.K94N|E2F8_uc001mpo.1_Missense_Mutation_p.K94N	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	94					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						GTATACAGTCTTTGGCCTCAG	0.488													21	198					0	0	1	0	0		G	19259413	G	G	19259413	3	3	27	1	0	0	0	0	1	0	0	0	4879	1606	56	5	2365	5	E2F8	11	19259413	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	516312	19259413	115747103	4979	27330											
E2F8	79733	broad.mit.edu	37	chr11	19261660	19261660	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagttataaagtaccttttcGttctccattctgtaaattcc	11	17	4	9	1	2	0	0	0	2	0	5	0	3	0	3	0	1	4	3	0	7	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:19261660G>A	uc001mpm.2	-	2	531	c.9C>T	c.(7-9)AAC>AAT	p.N3N	E2F8_uc009yhv.2_RNA|E2F8_uc001mpn.3_Silent_p.N3N|E2F8_uc001mpo.1_Silent_p.N3N	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	3					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						GTACCTTTTCGTTCTCCATTC	0.318													5	78					0	0	1	0	0		A	19261660	A	A	19261660	2	1	27	1	0	0	0	0	0	0	0	1	4879	1136	40	1		1	E2F8	11	19261660	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2247	19261660	115744856	4980	27331											
NAV2	89797	broad.mit.edu	37	chr11	20065572	20065572	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaggaattccctgtggTctggtgatgatgtcaagaaa	11	11	14	5	0	2	4	1	2	1	2	3	6	3	5	1	4	0	0	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:20065572T>C	uc010rdm.1	+	14	3383	c.3022T>C	c.(3022-3024)TCT>CCT	p.S1008P	NAV2_uc001mpp.2_Missense_Mutation_p.S921P|NAV2_uc001mpr.3_Missense_Mutation_p.S985P|NAV2_uc001mpt.2_Missense_Mutation_p.S71P|NAV2_uc009yhx.2_Missense_Mutation_p.S71P|NAV2_uc009yhy.1_5'UTR	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1008						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						TTCCCTGTGGTCTGGTGATGA	0.532													4	87					0	0	1	0	0		C	20065572	C	C	20065572	3	2	27	1	0	0	0	0	1	0	0	0	10202	1667	58	3	3112	3	NAV2	11	20065572	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	803912	20065572	114940944	4981	27332											
NAV2	89797	broad.mit.edu	37	chr11	20070671	20070671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcttccactggcctcatcGcctcctccaaggacgactcc	7	10	6	18	2	2	0	1	0	1	0	7	2	6	1	6	2	0	0	6	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:20070671G>A	uc010rdm.1	+	16	4730	c.4369G>A	c.(4369-4371)GCC>ACC	p.A1457T	NAV2_uc001mpp.2_Missense_Mutation_p.A1370T|NAV2_uc001mpr.3_Missense_Mutation_p.A1434T|NAV2_uc001mpt.2_Missense_Mutation_p.A520T|NAV2_uc009yhx.2_Missense_Mutation_p.A520T|NAV2_uc009yhy.1_Missense_Mutation_p.A433T|NAV2_uc009yhz.2_Missense_Mutation_p.A116T	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1457	Ser-rich.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						TGGCCTCATCGCCTCCTCCAA	0.557													6	121					0	0	1	0	0		A	20070671	A	A	20070671	3	1	27	1	0	0	0	0	1	0	0	0	10202	1087	38	1	4467	1	NAV2	11	20070671	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5099	20070671	114935845	4982	27333											
NAV2	89797	broad.mit.edu	37	chr11	20122624	20122624	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cactgggaaaacctacctggCcaaccggctgtctgagtata	11	8	10	12	1	1	1	0	1	1	0	1	2	1	2	4	3	3	2	4	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:20122624C>G	uc001mpr.3	+	32	6693	c.6332C>G	c.(6331-6333)GCC>GGC	p.A2111G	NAV2_uc001mpp.2_Missense_Mutation_p.A2044G|NAV2_uc009yhx.2_Missense_Mutation_p.A1172G|NAV2_uc009yhz.2_Missense_Mutation_p.A753G|NAV2_uc001mpu.2_Missense_Mutation_p.A546G	NM_182964	NP_892009	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 1	2167						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						ACCTACCTGGCCAACCGGCTG	0.567													14	109					0	0	1	0	0		G	20122624	G	G	20122624	3	3	27	1	0	0	0	0	1	0	0	0	10202	739	26	5	6567	5	NAV2	11	20122624	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	51953	20122624	114883892	4983	27334											
SLC6A5	9152	broad.mit.edu	37	chr11	20668428	20668428	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatgattggattccagcCtaacatcttctggaaagtct	11	13	9	8	0	3	2	0	2	3	0	4	5	4	4	2	2	2	0	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:20668428C>A	uc001mqd.2	+	14	2291	c.2018C>A	c.(2017-2019)CCT>CAT	p.P673H	SLC6A5_uc009yic.2_Missense_Mutation_p.P438H	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	673					synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	GGATTCCAGCCTAACATCTTC	0.428													5	73					1.23904e-05	1.32877e-05	1	1	0		A	20668428	A	A	20668428	3	1	27	1	0	0	0	0	1	0	0	0	14712	681	24	5	2072	5	SLC6A5	11	20668428	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	545804	20668428	114338088	4984	27335											
ANO5	203859	broad.mit.edu	37	chr11	22225353	22225353	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttatttaatttaggggAaaaagtcaataagcatatag	16	15	7	3	0	2	0	1	0	1	0	2	1	2	1	0	2	1	1	0	2	9	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:22225353A>G	uc001mqi.2	+	2	361	c.44A>G	c.(43-45)GAA>GGA	p.E15G	ANO5_uc001mqj.2_Missense_Mutation_p.E15G	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	15	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						AATTTAGGGGAAAAAGTCAAT	0.269													3	41					0	0	1	0	0		G	22225353	G	G	22225353	3	3	27	1	0	0	0	0	1	0	0	0	700	246	9	3	50	3	ANO5	11	22225353	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1556925	22225353	112781163	4985	27336											
SLC17A6	57084	broad.mit.edu	37	chr11	22363222	22363222	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatcgccatcatgagcggcCtgggcttctgcatctccttc	5	13	9	14	2	3	1	1	1	2	0	6	1	3	1	3	2	2	2	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:22363222C>A	uc001mqk.2	+	2	648	c.235C>A	c.(235-237)CTG>ATG	p.L79M		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	79	Helical; (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						CATGAGCGGCCTGGGCTTCTG	0.632													4	39					0.150653	0.151846	1	1	0		A	22363222	A	A	22363222	3	1	27	1	0	0	0	0	1	0	0	0	14446	680	24	5	241	5	SLC17A6	11	22363222	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	137869	22363222	112643294	4986	27337											
SLC5A12	159963	broad.mit.edu	37	chr11	26714070	26714070	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atccaggtgctcagcttgtcGgagagatgaggaaaacagct	12	8	13	8	1	1	2	1	1	0	1	3	5	2	4	1	3	4	3	1	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:26714070G>A	uc001mra.2	-	9	1432	c.1119C>T	c.(1117-1119)TCC>TCT	p.S373S	SLC5A12_uc001mrb.2_RNA|SLC5A12_uc001mrc.3_Silent_p.S373S	NM_178498	NP_848593	Q1EHB4	SC5AC_HUMAN	solute carrier family 5 (sodium/glucose	373	Cytoplasmic (Potential).				sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(1)|skin(1)	2						TCAGCTTGTCGGAGAGATGAG	0.438													10	58					0	0	1	0	0		A	26714070	A	A	26714070	2	1	27	1	0	0	0	0	0	0	0	1	14689	1103	39	1		1	SLC5A12	11	26714070	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4350848	26714070	108292446	4987	27338											
BBOX1	8424	broad.mit.edu	37	chr11	27148839	27148839	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaaaaaatcttttctttaGgtgatgtgattacttttgat	11	19	8	3	0	2	3	0	3	2	0	2	4	2	4	0	2	1	0	0	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:27148839G>T	uc001mre.1	+	9	1372	c.1004_splice	c.e9-1	p.G335_splice	BBOX1_uc009yih.1_Splice_Site_p.G335_splice|BBOX1_uc001mrg.1_Splice_Site_p.G335_splice	NM_003986	NP_003977	O75936	BODG_HUMAN	gamma-butyrobetaine dioxygenase						carnitine biosynthetic process	actin cytoskeleton|cytosol|intracellular membrane-bounded organelle	gamma-butyrobetaine dioxygenase activity|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1					Succinic acid(DB00139)|Vitamin C(DB00126)	CTTTTCTTTAGGTGATGTGAT	0.388													8	56					0.000274275	0.000288501	1	1	0		T	27148839	T	T	27148839	5	4	27	1	0	0	0	0	0	0	1	0	1335	1014	35	5	1029	5	BBOX1	11	27148839	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	434769	27148839	107857677	4988	27339											
LGR4	55366	broad.mit.edu	37	chr11	27395180	27395180	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagttgatttagcccattcaGgccttccgtaggaaaggaag	11	10	11	9	1	1	1	1	1	0	0	2	3	2	3	3	3	1	2	3	3	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:27395180G>T	uc001mrj.3	-	15	1782	c.1297C>A	c.(1297-1299)CTG>ATG	p.L433M	LGR4_uc001mrk.3_Missense_Mutation_p.L409M	NM_018490	NP_060960	Q9BXB1	LGR4_HUMAN	leucine-rich repeat-containing G protein-coupled	433	LRR 15.|Extracellular (Potential).			L -> P (in Ref. 1; AAF68989).		integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1						AGCCCATTCAGGCCTTCCGTA	0.348													11	86					3.86212e-05	4.11225e-05	1	1	0		T	27395180	T	T	27395180	3	4	27	1	0	0	0	0	1	0	0	0	8772	991	35	5	1574	5	LGR4	11	27395180	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	246341	27395180	107611336	4989	27340											
EIF3M	10480	broad.mit.edu	37	chr11	32610169	32610169	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgatgaacagtgtggtaTccctactcttgatcctggaa	9	13	11	8	0	1	3	0	3	1	0	3	4	3	4	2	2	2	1	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:32610169T>A	uc001mtu.2	+	3	248	c.205T>A	c.(205-207)TCC>ACC	p.S69T	EIF3M_uc010ref.1_Intron	NM_006360	NP_006351	Q7L2H7	EIF3M_HUMAN	eukaryotic translation initiation factor 3,	69						eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)|breast(1)|skin(1)	3	Breast(20;0.109)					CAGTGTGGTATCCCTACTCTT	0.408													11	112					0	0	1	0	0		A	32610169	A	A	32610169	3	1	27	1	0	0	0	0	1	0	0	0	5031	1435	50	5	215	5	EIF3M	11	32610169	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5214989	32610169	102396347	4990	27341											
QSER1	79832	broad.mit.edu	37	chr11	32954606	32954606	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaacattaacagccccttCtctttcttattcttctgcct	7	17	2	15	0	4	0	0	0	4	0	5	0	4	0	4	0	4	0	4	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:32954606C>A	uc001mty.2	+	4	1682	c.1415C>A	c.(1414-1416)TCT>TAT	p.S472Y	QSER1_uc001mtz.1_Intron|QSER1_uc001mua.2_5'Flank	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	472	Ser-rich.									ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					ACAGCCCCTTCTCTTTCTTAT	0.423													9	92					3.09899e-07	3.3784e-07	1	1	0		A	32954606	A	A	32954606	3	1	27	1	0	0	0	0	1	0	0	0	12907	913	32	5	1421	5	QSER1	11	32954606	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	344437	32954606	102051910	4991	27342											
HIPK3	10114	broad.mit.edu	37	chr11	33370762	33370762	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcggatgtgttcattaagTagtcctgatagtactctgag	10	14	11	6	1	2	2	1	2	1	0	4	4	3	3	1	1	1	3	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:33370762T>C	uc001mul.1	+	14	3006	c.2736T>C	c.(2734-2736)AGT>AGC	p.S912S	HIPK3_uc001mum.1_Silent_p.S891S|HIPK3_uc009yjv.1_Silent_p.S891S	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	912	SUMO interaction motifs (SIM); required for nuclear localization and kinase activity (By similarity).|Ser-rich.|Required for localization to nuclear speckles (By similarity).|Interaction with AR (By similarity).				anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						GTTCATTAAGTAGTCCTGATA	0.428													3	66					0	0	1	0	0		C	33370762	C	C	33370762	2	2	27	1	0	0	0	0	0	0	0	1	7134	1635	57	3		3	HIPK3	11	33370762	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	416156	33370762	101635754	4992	27343											
C11orf41	25758	broad.mit.edu	37	chr11	33566723	33566723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaacctggagatgcccAgagcatccacgccacgccca	11	3	8	19	2	0	2	0	0	0	2	1	3	1	2	7	1	3	1	7	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:33566723A>G	uc001mup.3	+	2	2435	c.2311A>G	c.(2311-2313)AGA>GGA	p.R771G	C11orf41_uc001mun.1_Missense_Mutation_p.R771G	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	765						integral to membrane				ovary(2)	2						GGAGATGCCCAGAGCATCCAC	0.597													7	101					0	0	1	0	0		G	33566723	G	G	33566723	3	3	27	1	0	0	0	0	1	0	0	0	1643	180	7	3	2317	3	C11orf41	11	33566723	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	195961	33566723	101439793	4993	27344											
C11orf41	25758	broad.mit.edu	37	chr11	33581342	33581342	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagtcaccttggtgtacgtCgtgggcaatcagagcacatt	9	10	12	10	2	2	1	2	0	0	1	3	1	2	1	1	2	2	4	1	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:33581342C>T	uc001mup.3	+	6	3154	c.3030C>T	c.(3028-3030)GTC>GTT	p.V1010V	C11orf41_uc001mun.1_Silent_p.V1010V	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	1004						integral to membrane				ovary(2)	2						TGGTGTACGTCGTGGGCAATC	0.582													6	83					0	0	1	0	0		T	33581342	T	T	33581342	2	4	27	1	0	0	0	0	0	0	0	1	1643	871	31	1		1	C11orf41	11	33581342	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14619	33581342	101425174	4994	27345											
C11orf41	25758	broad.mit.edu	37	chr11	33628237	33628237	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctatttgacaactccagcAaggtggccgctgaacccttt	9	12	8	12	1	1	2	0	2	1	0	2	2	2	2	3	2	3	2	3	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:33628237A>G	uc001mup.3	+	13	4181	c.4057A>G	c.(4057-4059)AAG>GAG	p.K1353E		NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	1347						integral to membrane				ovary(2)	2						CAACTCCAGCAAGGTGGCCGC	0.542													3	41					0	0	1	0	0		G	33628237	G	G	33628237	3	3	27	1	0	0	0	0	1	0	0	0	1643	131	5	3	4107	3	C11orf41	11	33628237	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	46895	33628237	101378279	4995	27346											
NAT10	55226	broad.mit.edu	37	chr11	34144031	34144031	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtcttgaaatttatcgAgggcatctctgaaaagaccc	12	11	9	9	1	2	3	0	2	2	1	4	4	2	3	1	1	1	2	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:34144031A>T	uc001mvk.2	+	9	1050	c.806A>T	c.(805-807)GAG>GTG	p.E269V	NAT10_uc010ren.1_Missense_Mutation_p.E197V	NM_024662	NP_078938	Q9H0A0	NAT10_HUMAN	N-acetyltransferase 10 isoform a	269						nucleolus	ATP binding|N-acetyltransferase activity|protein binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0119)|all_hematologic(20;0.0231)				AAATTTATCGAGGGCATCTCT	0.502													11	106					0	0	1	0	0		T	34144031	T	T	34144031	3	4	27	1	0	0	0	0	1	0	0	0	10192	304	11	5	836	5	NAT10	11	34144031	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	515794	34144031	100862485	4996	27347											
CAT	847	broad.mit.edu	37	chr11	34472556	34472556	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctttggctactttgaggTcacacatgacattaccaaat	11	12	8	10	0	1	2	1	2	0	0	1	2	1	2	2	3	2	1	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:34472556T>A	uc001mvm.2	+	3	343	c.260T>A	c.(259-261)GTC>GAC	p.V87D	CAT_uc009ykc.1_RNA	NM_001752	NP_001743	P04040	CATA_HUMAN	catalase	87					hydrogen peroxide catabolic process|negative regulation of apoptosis|positive regulation of cell division|protein tetramerization|purine base metabolic process|purine nucleotide catabolic process|UV protection	peroxisomal matrix|peroxisomal membrane	catalase activity|heme binding|NADP binding|protein homodimerization activity			ovary(2)|pancreas(1)	3		Lung NSC(402;2.76e-08)|Acute lymphoblastic leukemia(5;0.00143)|all_hematologic(20;0.0116)|Melanoma(852;0.027)		BRCA - Breast invasive adenocarcinoma(625;0.000995)	Fomepizole(DB01213)	TACTTTGAGGTCACACATGAC	0.458													17	232					0	0	1	0	0		A	34472556	A	A	34472556	3	1	27	1	0	0	0	0	1	0	0	0	2689	1667	58	5	270	5	CAT	11	34472556	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	328525	34472556	100533960	4997	27348											
APIP	51074	broad.mit.edu	37	chr11	34905014	34905014	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggtctttctcctcaggtgTattctcaataatgggtacca	9	14	9	9	0	4	0	2	0	3	0	6	1	4	0	2	3	1	2	2	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:34905014T>C	uc001mvs.2	-	6	607	c.499A>G	c.(499-501)ACA>GCA	p.T167A	APIP_uc010reo.1_Missense_Mutation_p.T184A	NM_015957	NP_057041	Q96GX9	MTNB_HUMAN	APAF1 interacting protein	167					apoptosis|L-methionine salvage	cytoplasm	identical protein binding|metal ion binding|methylthioribulose 1-phosphate dehydratase activity				0	all_epithelial(35;0.161)	all_hematologic(20;0.107)	STAD - Stomach adenocarcinoma(6;0.000425)			TCCTCAGGTGTATTCTCAATA	0.373													21	73					0	0	1	0	0		C	34905014	C	C	34905014	3	2	27	1	0	0	0	0	1	0	0	0	774	1638	57	3	237	3	APIP	11	34905014	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	432458	34905014	100101502	4998	27349											
CD44	960	broad.mit.edu	37	chr11	35198138	35198138	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atagatttgaatataacctgCcgctttgcaggtgtattcca	11	14	8	8	1	0	2	0	1	0	1	1	2	1	2	3	1	3	3	3	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:35198138C>T	uc001mvu.2	+	2	518	c.84C>T	c.(82-84)TGC>TGT	p.C28C	CD44_uc001mvv.2_Silent_p.C28C|CD44_uc001mvw.2_Silent_p.C28C|CD44_uc001mvx.2_Silent_p.C28C|CD44_uc001mvy.2_Silent_p.C28C|CD44_uc001mwc.3_Silent_p.C28C|CD44_uc010rer.1_Silent_p.C28C|CD44_uc009ykh.2_RNA	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	28	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	all_cancers(35;0.212)|all_lung(20;0.0874)|all_epithelial(35;0.112)	all_hematologic(20;0.107)	STAD - Stomach adenocarcinoma(6;0.00731)		Hyaluronidase(DB00070)	ATATAACCTGCCGCTTTGCAG	0.428													8	54					0	0	1	0	0		T	35198138	T	T	35198138	2	4	27	1	0	0	0	0	0	0	0	1	3020	747	26	2		2	CD44	11	35198138	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	293124	35198138	99808378	4999	27350											
PAMR1	25891	broad.mit.edu	37	chr11	35456166	35456166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtgaccttccccaggtcaGtaacacagtgggcagccacc	9	7	11	14	0	1	1	1	1	0	0	2	1	2	1	5	3	2	2	5	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:35456166G>A	uc001mwg.2	-	10	1563	c.1520C>T	c.(1519-1521)ACT>ATT	p.T507I	PAMR1_uc001mwf.2_Missense_Mutation_p.T524I|PAMR1_uc010rew.1_Missense_Mutation_p.T396I|PAMR1_uc010rex.1_Missense_Mutation_p.T467I	NM_001001991	NP_001001991	Q6UXH9	PAMR1_HUMAN	regeneration associated muscle protease isoform	507	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						CCCCAGGTCAGTAACACAGTG	0.567													6	73					0	0	1	0	0		A	35456166	A	A	35456166	3	1	27	1	0	0	0	0	1	0	0	0	11432	1029	36	4	650	4	PAMR1	11	35456166	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	258028	35456166	99550350	5000	27351											
PAMR1	25891	broad.mit.edu	37	chr11	35513631	35513631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accagcctgctcggcactctGcacagtagaaccccttcaca	10	7	7	17	1	2	1	1	0	1	1	3	1	2	1	4	1	4	4	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:35513631G>A	uc001mwg.2	-	3	384	c.341C>T	c.(340-342)GCA>GTA	p.A114V	PAMR1_uc001mwf.2_Missense_Mutation_p.A114V|PAMR1_uc010rew.1_Missense_Mutation_p.A114V|PAMR1_uc010rex.1_Missense_Mutation_p.A74V	NM_001001991	NP_001001991	Q6UXH9	PAMR1_HUMAN	regeneration associated muscle protease isoform	114					proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						TCGGCACTCTGCACAGTAGAA	0.493													22	172					0	0	1	0	0		A	35513631	A	A	35513631	3	1	27	1	0	0	0	0	1	0	0	0	11432	1319	46	2	1912	2	PAMR1	11	35513631	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	57465	35513631	99492885	5001	27352											
TRIM44	54765	broad.mit.edu	37	chr11	35747662	35747662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgactcagatggcccaagCcaaggaacaacttgatacct	14	7	9	11	0	1	3	1	2	0	1	1	5	1	4	3	2	4	0	3	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:35747662C>T	uc001mwi.2	+	3	1245	c.938C>T	c.(937-939)GCC>GTC	p.A313V		NM_017583	NP_060053	Q96DX7	TRI44_HUMAN	DIPB protein	313	Potential.					intracellular	protein binding|zinc ion binding			skin(1)	1	all_lung(20;0.0317)|Lung NSC(22;0.0661)|all_epithelial(35;0.115)	all_hematologic(20;0.107)				ATGGCCCAAGCCAAGGAACAA	0.458													6	51					0	0	1	0	0		T	35747662	T	T	35747662	3	4	27	1	0	0	0	0	1	0	0	0	16545	739	26	2	948	2	TRIM44	11	35747662	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	234031	35747662	99258854	5002	27353											
TRAF6	7189	broad.mit.edu	37	chr11	36516539	36516539	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatacctgttctctgatgAgtatagtattgcagtattca	12	16	7	6	0	2	2	1	2	1	0	3	2	2	2	1	0	2	5	1	0	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:36516539A>G	uc001mwr.1	-	6	1005	c.665T>C	c.(664-666)CTC>CCC	p.L222P	TRAF6_uc001mws.1_Missense_Mutation_p.L222P	NM_145803	NP_665802	Q9Y4K3	TRAF6_HUMAN	TNF receptor-associated factor 6	222	Interaction with TAX1BP1.|TRAF-type 2.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|ossification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell cytokine production|protein autoubiquitination|protein K63-linked ubiquitination|response to interleukin-1|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cell cortex|cytosol|endosome membrane|internal side of plasma membrane|nuclear membrane	histone deacetylase binding|mitogen-activated protein kinase kinase kinase binding|protein kinase B binding|protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				TTCTCTGATGAGTATAGTATT	0.264													6	81					0	0	1	0	0		G	36516539	G	G	36516539	3	3	27	1	0	0	0	0	1	0	0	0	16471	304	11	3	915	3	TRAF6	11	36516539	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	768877	36516539	98489977	5003	27354											
RAG1	5896	broad.mit.edu	37	chr11	36597940	36597940	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaagcttaggggacccatTaggcatagaggactctctgg	10	8	14	9	0	1	1	0	0	1	1	2	3	1	3	1	6	1	3	1	6	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:36597940T>C	uc001mwu.3	+	2	3210	c.3086T>C	c.(3085-3087)TTA>TCA	p.L1029S	RAG1_uc001mwt.2_Intron	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	1029					histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				GGGGACCCATTAGGCATAGAG	0.428									Familial_Hemophagocytic_Lymphohistiocytosis				5	66					0	0	1	0	0		C	36597940	C	C	36597940	3	2	27	1	0	0	0	0	1	0	0	0	13028	1764	61	3	3088	3	RAG1	11	36597940	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	81401	36597940	98408576	5004	27355											
TTC17	55761	broad.mit.edu	37	chr11	43413401	43413401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agagagttaatctttctgcaCctctgctacctaaagaagac	13	11	7	10	0	3	3	0	0	3	3	3	4	3	3	2	0	3	3	2	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:43413401C>T	uc001mxi.2	+	5	576	c.562C>T	c.(562-564)CCT>TCT	p.P188S	TTC17_uc001mxh.2_Missense_Mutation_p.P188S|TTC17_uc010rfj.1_Missense_Mutation_p.P131S	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	188							binding			ovary(5)	5						TCTTTCTGCACCTCTGCTACC	0.363													13	105					0	0	1	0	0		T	43413401	T	T	43413401	3	4	27	1	0	0	0	0	1	0	0	0	16710	507	18	4	580	4	TTC17	11	43413401	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6815461	43413401	91593115	5005	27356											
ACCS	84680	broad.mit.edu	37	chr11	44104792	44104792	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacacctatgtctcagaagaGcttagggcattggggatccc	10	9	11	11	0	1	2	1	0	1	2	3	3	2	3	2	3	1	2	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:44104792G>T	uc009yks.1	+	13	1329	c.1185G>T	c.(1183-1185)GAG>GAT	p.E395D	EXT2_uc010rfo.1_Intron|ACCS_uc001mxx.2_Missense_Mutation_p.E395D	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	395							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						TCTCAGAAGAGCTTAGGGCAT	0.557													12	105					6.40141e-05	6.80234e-05	1	1	0		T	44104792	T	T	44104792	3	4	27	1	0	0	0	0	1	0	0	0	133	962	34	5	1231	5	ACCS	11	44104792	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	691391	44104792	90901724	5006	27357											
EXT2	2132	broad.mit.edu	37	chr11	44129625	44129625	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggatgactttggcgtctcTgtcagcaacaccatctcccg	7	11	10	13	2	3	1	1	1	2	0	5	2	3	2	2	2	2	1	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:44129625T>C	uc001mxz.2	+	2	697	c.363T>C	c.(361-363)TCT>TCC	p.S121S	EXT2_uc010rfo.1_Silent_p.S149S|EXT2_uc001mxy.2_Silent_p.S134S|EXT2_uc009ykt.2_Silent_p.S121S|EXT2_uc001mya.2_Silent_p.S154S	NM_207122	NP_997005	Q93063	EXT2_HUMAN	exostosin 2 isoform 2	121	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity			lung(2)|breast(2)|skin(1)	5						TTGGCGTCTCTGTCAGCAACA	0.458			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses				4	73					0	0	1	0	0		C	44129625	C	C	44129625	2	2	27	1	0	0	0	0	0	0	0	1	5332	1567	55	3		3	EXT2	11	44129625	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	24833	44129625	90876891	5007	27358											
PRDM11	56981	broad.mit.edu	37	chr11	45246062	45246062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacgcctacagtcagtgtgCaacaacaatgacccatggtg	12	8	10	11	1	1	2	1	2	0	0	1	2	1	2	2	1	4	1	2	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:45246062C>T	uc001myo.2	+	8	1388	c.1139C>T	c.(1138-1140)GCA>GTA	p.A380V		NM_020229	NP_064614	Q9NQV5	PRD11_HUMAN	PR domain containing 11	380										upper_aerodigestive_tract(1)	1						AGTCAGTGTGCAACAACAATG	0.582													11	121					0	0	1	0	0		T	45246062	T	T	45246062	3	4	27	1	0	0	0	0	1	0	0	0	12474	710	25	2	1165	2	PRDM11	11	45246062	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1116437	45246062	89760454	5008	27359											
SYT13	57586	broad.mit.edu	37	chr11	45265608	45265608	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctgggcagctggttacaGgtgcagctggtgccacatgg	7	8	16	10	0	0	0	0	0	0	0	0	0	0	0	1	5	6	6	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:45265608G>T	uc001myq.2	-	6	1402	c.1276C>A	c.(1276-1278)CTG>ATG	p.L426M	SYT13_uc009yku.1_Missense_Mutation_p.L282M	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	426	Cytoplasmic (Potential).					transport vesicle				ovary(1)	1						GCTGGTTACAGGTGCAGCTGG	0.617													6	83					0.000157383	0.000166242	1	1	0		T	45265608	T	T	45265608	3	4	27	1	0	0	0	0	1	0	0	0	15494	991	35	5	8	5	SYT13	11	45265608	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19546	45265608	89740908	5009	27360											
CHST1	8534	broad.mit.edu	37	chr11	45671505	45671505	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgggccacgtggctgtccagCgggatgcccaggaacccgta	7	5	15	14	4	0	0	0	0	0	0	1	2	1	2	4	4	3	2	4	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:45671505C>T	uc001mys.1	-	4	1640	c.969G>A	c.(967-969)CCG>CCA	p.P323P		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	323	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		GGCTGTCCAGCGGGATGCCCA	0.642													5	89					0	0	1	0	0		T	45671505	T	T	45671505	2	4	27	1	0	0	0	0	0	0	0	1	3400	755	27	1		1	CHST1	11	45671505	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	405897	45671505	89335011	5010	27361											
PEX16	9409	broad.mit.edu	37	chr11	45935936	45935936	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccccaggggggtgggggTcgcactcagctcctcgtgat	5	7	16	13	2	1	1	1	1	0	0	4	1	2	1	3	5	2	2	3	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:45935936T>C	uc001nbu.2	-	7	937	c.625A>G	c.(625-627)ACC>GCC	p.T209A	PEX16_uc001nbt.2_Missense_Mutation_p.T209A	NM_004813	NP_004804	Q9Y5Y5	PEX16_HUMAN	peroxisomal biogenesis factor 16 isoform 1	209	Cytoplasmic (Potential).				ER-dependent peroxisome organization|peroxisome membrane biogenesis|protein import into peroxisome matrix|protein import into peroxisome membrane	endoplasmic reticulum membrane|integral to peroxisomal membrane	protein C-terminus binding			ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.223)		GGGGTGGGGGTCGCACTCAGC	0.667													6	53					0	0	1	0	0		C	45935936	C	C	45935936	3	2	27	1	0	0	0	0	1	0	0	0	11762	1667	58	3	498	3	PEX16	11	45935936	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	264431	45935936	89070580	5011	27362											
GYLTL1B	120071	broad.mit.edu	37	chr11	45948298	45948298	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacaactggacgaggaagacCcctgctttgagttccggcag	10	7	12	12	2	0	2	0	1	0	1	1	5	1	4	3	3	2	3	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:45948298C>A	uc001nbv.1	+	10	1312	c.1201C>A	c.(1201-1203)CCC>ACC	p.P401T	GYLTL1B_uc001nbw.1_Missense_Mutation_p.P370T|GYLTL1B_uc001nbx.1_Missense_Mutation_p.P401T|GYLTL1B_uc001nby.1_Missense_Mutation_p.P84T|GYLTL1B_uc001nbz.1_5'Flank	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	401	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		CGAGGAAGACCCCTGCTTTGA	0.627													5	63					0.0215528	0.0219246	1	1	0		A	45948298	A	A	45948298	3	1	27	1	0	0	0	0	1	0	0	0	6923	623	22	5	1235	5	GYLTL1B	11	45948298	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12362	45948298	89058218	5012	27363											
CKAP5	9793	broad.mit.edu	37	chr11	46780899	46780899	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcatttcacatcggactgtAccattgtcattctcaatctc	9	14	6	12	1	4	0	3	0	2	0	7	1	4	1	1	2	1	2	1	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:46780899A>G	uc001ndi.1	-	34	4598	c.4488T>C	c.(4486-4488)GGT>GGC	p.G1496G	CKAP5_uc009ylg.1_Silent_p.G1382G|CKAP5_uc001ndj.1_Silent_p.G1496G|CKAP5_uc001ndh.1_Silent_p.G425G	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	1496					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						ATCGGACTGTACCATTGTCAT	0.478													3	105					0	0	1	0	0		G	46780899	G	G	46780899	2	3	27	1	0	0	0	0	0	0	0	1	3448	378	14	3		3	CKAP5	11	46780899	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	832601	46780899	88225617	5013	27364											
CKAP5	9793	broad.mit.edu	37	chr11	46832565	46832565	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgtctcacctgaacagAgtttatattttgtaatgggg	9	18	9	5	0	1	2	1	1	1	1	2	2	1	2	1	2	1	2	1	2	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:46832565A>C	uc001ndi.1	-	5	732	c.622T>G	c.(622-624)TCT>GCT	p.S208A	CKAP5_uc009ylg.1_Missense_Mutation_p.S94A|CKAP5_uc001ndj.1_Missense_Mutation_p.S208A	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	208					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						ACCTGAACAGAGTTTATATTT	0.378													4	79					0	0	1	0	0		C	46832565	C	C	46832565	3	2	27	1	0	0	0	0	1	0	0	0	3448	304	11	5	5636	5	CKAP5	11	46832565	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	51666	46832565	88173951	5014	27365											
MADD	8567	broad.mit.edu	37	chr11	47296132	47296132	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcacccgagcagtgatagCgtggcccagactcctgaatt	10	7	12	12	2	0	3	0	2	0	1	1	4	1	3	3	2	2	2	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:47296132C>T	uc001ner.1	+	3	272	c.81C>T	c.(79-81)AGC>AGT	p.S27S	MADD_uc001neq.2_Silent_p.S27S|MADD_uc001nev.1_Silent_p.S27S|MADD_uc001nes.1_Silent_p.S27S|MADD_uc001net.1_Silent_p.S27S|MADD_uc009yln.1_Silent_p.S27S|MADD_uc001neu.1_Silent_p.S27S|MADD_uc001nex.2_Silent_p.S27S|MADD_uc001nez.2_Silent_p.S27S|MADD_uc001new.2_Silent_p.S27S	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	27	UDENN.				activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		GCAGTGATAGCGTGGCCCAGA	0.507													18	177					0	0	1	0	0		T	47296132	T	T	47296132	2	4	27	1	0	0	0	0	0	0	0	1	9170	767	27	1		1	MADD	11	47296132	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	463567	47296132	87710384	5015	27366											
MYBPC3	4607	broad.mit.edu	37	chr11	47371349	47371349	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgcggtcgtagctgtcGtgcagctgcaggtgctggcc	3	9	17	12	4	0	0	0	0	0	0	2	0	0	0	1	4	5	6	1	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:47371349G>A	uc001nfa.3	-	5	685	c.630C>T	c.(628-630)CAC>CAT	p.H210H		NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	210	Ig-like C2-type 1.	Zinc.			cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		CGTAGCTGTCGTGCAGCTGCA	0.657													5	19					0	0	1	0	0		A	47371349	A	A	47371349	2	1	27	1	0	0	0	0	0	0	0	1	10031	1136	40	1		1	MYBPC3	11	47371349	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	75217	47371349	87635167	5016	27367											
PSMC3	5702	broad.mit.edu	37	chr11	47444219	47444219	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccggactagcttggcacCatctccaatgaacatctgca	11	9	7	14	1	2	1	0	1	2	0	4	2	3	2	3	2	3	3	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:47444219C>A	uc001nfh.2	-	8	984	c.790G>T	c.(790-792)GGT>TGT	p.G264C	PSMC3_uc009ylr.1_Missense_Mutation_p.G222C	NM_002804	NP_002795	P17980	PRS6A_HUMAN	proteasome 26S ATPase subunit 3	264					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|nucleoside-triphosphatase activity|protein binding|transcription coactivator activity|transcription corepressor activity			ovary(4)	4				Lung(87;0.0932)|BRCA - Breast invasive adenocarcinoma(625;0.13)		AGCTTGGCACCATCTCCAATG	0.557													21	76					1.50039e-11	1.66358e-11	1	1	0		A	47444219	A	A	47444219	3	1	27	1	0	0	0	0	1	0	0	0	12709	594	21	5	549	5	PSMC3	11	47444219	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	72870	47444219	87562297	5017	27368											
RAPSN	5913	broad.mit.edu	37	chr11	47464237	47464237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccatggcactgcccaggcGgcccagcaggcgataggcca	8	4	13	16	2	0	0	0	0	0	0	1	1	1	0	4	5	2	2	4	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:47464237G>A	uc001nfi.1	-	3	875	c.661C>T	c.(661-663)CGC>TGC	p.R221C	RAPSN_uc001nfj.1_Missense_Mutation_p.R221C|RAPSN_uc009yls.1_Missense_Mutation_p.R221C	NM_005055	NP_005046	Q13702	RAPSN_HUMAN	43 kD receptor-associated protein of the synapse	221	TPR 5.				synaptic transmission, cholinergic	cell junction|cytoskeleton|postsynaptic membrane	acetylcholine receptor binding|zinc ion binding			ovary(1)	1						CTGCCCAGGCGGCCCAGCAGG	0.662													7	32					0	0	1	0	0		A	47464237	A	A	47464237	3	1	27	1	0	0	0	0	1	0	0	0	13076	1116	39	1	601	1	RAPSN	11	47464237	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20018	47464237	87542279	5018	27369											
CELF1	10658	broad.mit.edu	37	chr11	47504275	47504275	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggggtccaagagtatttAgaccagcaaggtttccccac	11	9	10	11	0	0	2	0	0	0	2	2	2	2	2	4	3	1	3	4	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:47504275A>C	uc001nfl.2	-	6	669	c.659T>G	c.(658-660)CTA>CGA	p.L220R	CELF1_uc001nfm.2_Missense_Mutation_p.L220R|CELF1_uc001nfn.2_Missense_Mutation_p.L220R|CELF1_uc001nfo.1_Missense_Mutation_p.L246R|CELF1_uc010rhm.1_Missense_Mutation_p.L219R|CELF1_uc001nfp.2_Missense_Mutation_p.L247R|CELF1_uc001nfq.1_Missense_Mutation_p.L220R|CELF1_uc001nfr.1_Missense_Mutation_p.L220R	NM_001025596	NP_001020767	Q92879	CELF1_HUMAN	CUG triplet repeat, RNA-binding protein 1	220					embryo development|mRNA splice site selection|regulation of RNA splicing|RNA interference	cytoplasm|nucleus|ribonucleoprotein complex	BRE binding|mRNA binding|nucleotide binding|translation repressor activity, nucleic acid binding			central_nervous_system(2)|ovary(1)	3						AAGAGTATTTAGACCAGCAAG	0.507													7	72					0	0	1	0	0		C	47504275	C	C	47504275	3	2	27	1	0	0	0	0	1	0	0	0	3218	420	15	5	832	5	CELF1	11	47504275	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	40038	47504275	87502241	5019	27370											
MTCH2	23788	broad.mit.edu	37	chr11	47648651	47648651	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcctgtgacagcttgagaaTaactcttcatttcattcatg	10	15	6	10	0	4	2	3	2	1	1	5	3	5	2	1	0	2	1	1	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:47648651T>C	uc010rho.1	-	10	851	c.662A>G	c.(661-663)TAT>TGT	p.Y221C	MTCH2_uc001nge.2_Missense_Mutation_p.Y94C|MTCH2_uc010rhp.1_Missense_Mutation_p.Y73C	NM_014342	NP_055157	Q9Y6C9	MTCH2_HUMAN	mitochondrial carrier 2	221					transport	integral to membrane|mitochondrial inner membrane					0						AGCTTGAGAATAACTCTTCAT	0.303													3	39					0	0	1	0	0		C	47648651	C	C	47648651	3	2	27	1	0	0	0	0	1	0	0	0	9932	1406	49	3	265	3	MTCH2	11	47648651	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	144376	47648651	87357865	5020	27371											
MTCH2	23788	broad.mit.edu	37	chr11	47650523	47650523	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accccactgtccagtgcataGgtattgacgaggtaggccag	10	8	12	11	1	0	1	0	1	0	0	1	2	1	1	4	3	1	3	4	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:47650523G>T	uc010rho.1	-	9	804	c.615C>A	c.(613-615)ACC>ACA	p.T205T	MTCH2_uc001nge.2_Silent_p.T78T|MTCH2_uc010rhp.1_Silent_p.T57T	NM_014342	NP_055157	Q9Y6C9	MTCH2_HUMAN	mitochondrial carrier 2	205	Solcar 2.				transport	integral to membrane|mitochondrial inner membrane					0						CCAGTGCATAGGTATTGACGA	0.428													3	24					0.004672	0.0048188	1	1	0		T	47650523	T	T	47650523	2	4	27	1	0	0	0	0	0	0	0	1	9932	987	35	5		5	MTCH2	11	47650523	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1872	47650523	87355993	5021	27372											
AGBL2	79841	broad.mit.edu	37	chr11	47736193	47736193	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttaggtgcgtttccaaagCtgggaacatgttacttctgg	8	14	11	8	1	1	0	0	0	1	0	2	1	2	1	1	3	4	3	1	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:47736193C>A	uc001ngg.2	-	1	110	c.10G>T	c.(10-12)GCT>TCT	p.A4S	AGBL2_uc010rhq.1_Missense_Mutation_p.A4S|AGBL2_uc001ngh.1_Missense_Mutation_p.A4S	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	4					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						GTTTCCAAAGCTGGGAACATG	0.468													15	214					7.93312e-07	8.61692e-07	1	1	0		A	47736193	A	A	47736193	3	1	27	1	0	0	0	0	1	0	0	0	376	797	28	5	2770	5	AGBL2	11	47736193	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	85670	47736193	87270323	5022	27373											
FNBP4	23360	broad.mit.edu	37	chr11	47744588	47744588	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttgggagctggtggtggTggaggaggaggaggaggagg	8	8	24	1	0	0	0	0	0	0	0	0	7	0	7	0	11	1	1	0	11	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:47744588T>A	uc009ylv.2	-	15	2898	c.2745A>T	c.(2743-2745)CCA>CCT	p.P915P	FNBP4_uc001ngi.2_Silent_p.P229P|FNBP4_uc001ngj.2_Silent_p.P822P	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	915	Pro-rich.									ovary(1)	1						Ctggtggtggtggaggaggag	0.318													3	6					0	0	1	0	0		A	47744588	A	A	47744588	2	1	27	1	0	0	0	0	0	0	0	1	5981	1683	59	5		5	FNBP4	11	47744588	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8395	47744588	87261928	5023	27374											
FNBP4	23360	broad.mit.edu	37	chr11	47754182	47754182	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagttttcgtttaaggtagTttccattaagagccccttcc	9	15	8	9	1	0	1	0	0	0	1	3	2	2	1	4	1	1	4	4	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:47754182T>C	uc009ylv.2	-	11	1880	c.1727A>G	c.(1726-1728)AAC>AGC	p.N576S	FNBP4_uc001ngj.2_Missense_Mutation_p.N483S|FNBP4_uc001ngl.2_RNA	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	576										ovary(1)	1						TTTAAGGTAGTTTCCATTAAG	0.428													5	48					0	0	1	0	0		C	47754182	C	C	47754182	3	2	27	1	0	0	0	0	1	0	0	0	5981	1725	60	3	1354	3	FNBP4	11	47754182	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9594	47754182	87252334	5024	27375											
FNBP4	23360	broad.mit.edu	37	chr11	47754208	47754208	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagagccccttcccgccaGtctgcaattcgagtctagaa	10	10	8	13	2	2	2	0	0	2	2	4	3	3	2	4	0	2	1	4	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:47754208G>A	uc009ylv.2	-	11	1854	c.1701C>T	c.(1699-1701)GAC>GAT	p.D567D	FNBP4_uc001ngj.2_Silent_p.D474D|FNBP4_uc001ngl.2_RNA	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	567										ovary(1)	1						CTTCCCGCCAGTCTGCAATTC	0.403													6	23					0	0	1	0	0		A	47754208	A	A	47754208	2	1	27	1	0	0	0	0	0	0	0	1	5981	1020	36	4		4	FNBP4	11	47754208	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26	47754208	87252308	5025	27376											
PTPRJ	5795	broad.mit.edu	37	chr11	48131619	48131619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgtttcagatcctgtgcGcaggtggcagtgagtaccct	6	13	12	10	1	2	2	1	1	1	1	3	2	3	2	2	2	2	4	2	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:48131619G>A	uc001ngp.3	+	2	461	c.106G>A	c.(106-108)GCA>ACA	p.A36T	PTPRJ_uc001ngo.3_Missense_Mutation_p.A36T	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	36	Extracellular (Potential).				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						GATCCTGTGCGCAGGTGGCAG	0.413											OREG0020960	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	43	121					0	0	1	0	0		A	48131619	A	A	48131619	3	1	27	1	0	0	0	0	1	0	0	0	12829	1087	38	1	112	1	PTPRJ	11	48131619	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	377411	48131619	86874897	5026	27377											
PTPRJ	5795	broad.mit.edu	37	chr11	48146565	48146565	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagggagccccaccgcccCtgtgcatgatgagtccctcg	6	6	13	16	2	0	2	0	2	0	0	2	3	1	3	6	2	2	2	6	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:48146565C>A	uc001ngp.3	+	6	1275	c.920C>A	c.(919-921)CCT>CAT	p.P307H	PTPRJ_uc001ngo.3_Missense_Mutation_p.P307H	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	307	Extracellular (Potential).|Fibronectin type-III 3.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						CCCACCGCCCCTGTGCATGAT	0.602													26	250					0.000117367	0.000124358	1	1	0		A	48146565	A	A	48146565	3	1	27	1	0	0	0	0	1	0	0	0	12829	681	24	5	942	5	PTPRJ	11	48146565	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14946	48146565	86859951	5027	27378											
PTPRJ	5795	broad.mit.edu	37	chr11	48166633	48166633	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggctgagagctatgtgtcCttcagtcgctactcagatgc	7	11	13	10	1	2	2	2	1	0	2	4	3	3	2	1	2	3	3	1	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:48166633C>T	uc001ngp.3	+	14	3223	c.2868C>T	c.(2866-2868)TCC>TCT	p.S956S		NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	956	Extracellular (Potential).				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						GCTATGTGTCCTTCAGTCGCT	0.532													12	130					0	0	1	0	0		T	48166633	T	T	48166633	2	4	27	1	0	0	0	0	0	0	0	1	12829	668	24	4		4	PTPRJ	11	48166633	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20068	48166633	86839883	5028	27379											
PTPRJ	5795	broad.mit.edu	37	chr11	48185166	48185166	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcgccgattctggtgcatTgcaggtacgcagatggcacg	9	9	13	10	4	1	1	0	0	1	1	2	2	1	1	1	3	3	5	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:48185166T>C	uc001ngp.3	+	23	4070	c.3715T>C	c.(3715-3717)TGC>CGC	p.C1239R		NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	1239	Tyrosine-protein phosphatase.|Substrate binding (By similarity).|Cytoplasmic (Potential).	Phosphocysteine intermediate (By similarity).		C->S: Catalytically inactive and substrate trapping with higher affinity for substrate.	contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						TCTGGTGCATTGCAGGTACGC	0.418													4	45					0	0	1	0	0		C	48185166	C	C	48185166	3	2	27	1	0	0	0	0	1	0	0	0	12829	1812	63	3	3814	3	PTPRJ	11	48185166	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18533	48185166	86821350	5029	27380											
OR4S1	256148	broad.mit.edu	37	chr11	48328111	48328111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcactgagatcttcctcCttacagccatggcctatgac	8	11	9	13	0	1	2	0	2	1	1	3	3	3	2	4	2	2	1	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:48328111C>T	uc010rhu.1	+	1	337	c.337C>T	c.(337-339)CTT>TTT	p.L113F		NM_001004725	NP_001004725	Q8NGB4	OR4S1_HUMAN	olfactory receptor, family 4, subfamily S,	113	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GATCTTCCTCCTTACAGCCAT	0.542													10	80					0	0	1	0	0		T	48328111	T	T	48328111	3	4	27	1	0	0	0	0	1	0	0	0	11101	681	24	4	339	4	OR4S1	11	48328111	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	142945	48328111	86678405	5030	27381											
OR4C3	256144	broad.mit.edu	37	chr11	48346544	48346544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtctttataggcaatactGcacctgcattctcagtgacc	9	14	7	11	0	2	1	1	1	2	0	3	1	2	1	2	1	3	3	2	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:48346544G>A	uc010rhv.1	+	1	52	c.52G>A	c.(52-54)GCA>ACA	p.A18T		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AGGCAATACTGCACCTGCATT	0.383													9	106					0	0	1	0	0		A	48346544	A	A	48346544	3	1	27	1	0	0	0	0	1	0	0	0	11069	1319	46	2	54	2	OR4C3	11	48346544	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	18433	48346544	86659972	5031	27382											
FOLH1	2346	broad.mit.edu	37	chr11	49168405	49168405	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggccttggaagggtccActttgctttcaatatcaaac	10	11	8	12	0	2	0	2	0	0	0	3	1	3	1	3	3	2	1	3	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:49168405A>G	uc001ngy.2	-	19	2417	c.2156T>C	c.(2155-2157)GTG>GCG	p.V719A	FOLH1_uc001ngx.2_Missense_Mutation_p.W119R|FOLH1_uc001ngz.2_Missense_Mutation_p.V688A|FOLH1_uc009yly.2_Missense_Mutation_p.V704A|FOLH1_uc009ylz.2_Missense_Mutation_p.V673A|FOLH1_uc009yma.2_Missense_Mutation_p.V411A	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	719	Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	GGAAGGGTCCACTTTGCTTTC	0.473													7	124					0	0	1	0	0		G	49168405	G	G	49168405	3	3	27	1	0	0	0	0	1	0	0	0	5993	159	6	3	100	3	FOLH1	11	49168405	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	821861	49168405	85838111	5032	27383											
OR4C13	283092	broad.mit.edu	37	chr11	49974337	49974337	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaatggcctatgaccactaTgtggccatctgcaagccctt	9	11	9	12	0	1	1	0	1	1	0	1	1	1	1	4	2	2	2	4	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:49974337T>C	uc010rhz.1	+	1	363	c.363T>C	c.(361-363)TAT>TAC	p.Y121Y		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						ATGACCACTATGTGGCCATCT	0.448													19	91					0	0	1	0	0		C	49974337	C	C	49974337	2	2	27	1	0	0	0	0	0	0	0	1	11066	1471	51	3		3	OR4C13	11	49974337	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	805932	49974337	85032179	5033	27384											
OR4A5	81318	broad.mit.edu	37	chr11	51412149	51412149	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtctttttatcacagaataAgcctacaattaacttgggag	14	13	7	7	0	2	1	1	0	1	1	2	2	2	2	1	1	3	0	1	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:51412149A>C	uc001nhi.1	-	1	247	c.247T>G	c.(247-249)TTA>GTA	p.L83V		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	83	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				TCACAGAATAAGCCTACAATT	0.438													6	43					0	0	1	0	0		C	51412149	C	C	51412149	3	2	27	1	0	0	0	0	1	0	0	0	11062	69	3	5	704	5	OR4A5	11	51412149	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1437812	51412149	83594367	5034	27385											
OR4A5	81318	broad.mit.edu	37	chr11	51412388	51412388	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctgtaatattgttattcTgtctcatttactcttcttta	8	23	3	7	0	5	0	1	0	5	0	6	0	5	0	0	0	1	2	0	0	5	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:51412388T>C	uc001nhi.1	-	1	8	c.8A>G	c.(7-9)CAG>CGG	p.Q3R		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	3	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				ATTGTTATTCTGTCTCATTTA	0.388													5	23					0	0	1	0	0		C	51412388	C	C	51412388	3	2	27	1	0	0	0	0	1	0	0	0	11062	1580	55	3	943	3	OR4A5	11	51412388	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	239	51412388	83594128	5035	27386											
OR4C16	219428	broad.mit.edu	37	chr11	55339641	55339641	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgactgagttcattctgcTtggattgacacaggatcctt	8	15	10	8	0	2	3	1	3	1	0	3	5	3	5	1	2	1	2	1	2	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55339641T>A	uc010rih.1	+	1	38	c.38T>A	c.(37-39)CTT>CAT	p.L13H		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	13	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				TTCATTCTGCTTGGATTGACA	0.368													4	67					0	0	1	0	0		A	55339641	A	A	55339641	3	1	27	1	0	0	0	0	1	0	0	0	11068	1609	56	5	40	5	OR4C16	11	55339641	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3927253	55339641	79666875	5036	27387											
OR4C6	219432	broad.mit.edu	37	chr11	55432731	55432731	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatattttctgctgtgtttcTtgtcatgtatgtagccacag	8	18	8	7	0	3	0	1	0	2	0	3	0	3	0	1	0	2	4	1	0	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55432731T>G	uc001nht.3	+	3	354	c.89T>G	c.(88-90)CTT>CGT	p.L30R	OR4C6_uc010rik.1_Missense_Mutation_p.L30R	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GCTGTGTTTCTTGTCATGTAT	0.378													10	143					0	0	1	0	0		G	55432731	G	G	55432731	3	3	27	1	0	0	0	0	1	0	0	0	11071	1609	56	5	91	5	OR4C6	11	55432731	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	93090	55432731	79573785	5037	27388											
OR5D14	219436	broad.mit.edu	37	chr11	55563075	55563075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagcatggagcccacctttgCccttttaggtttcacagatt	8	13	9	11	0	1	1	1	0	0	1	1	3	1	2	3	2	3	2	3	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55563075C>T	uc010rim.1	+	1	44	c.44C>T	c.(43-45)GCC>GTC	p.A15V		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	15	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				CCCACCTTTGCCCTTTTAGGT	0.418													12	123					0	0	1	0	0		T	55563075	T	T	55563075	3	4	27	1	0	0	0	0	1	0	0	0	11174	739	26	2	46	2	OR5D14	11	55563075	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	130344	55563075	79443441	5038	27389											
OR5D14	219436	broad.mit.edu	37	chr11	55563329	55563329	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcttctactttagctgcAtgatgcagtacttcctgtcc	7	15	7	12	0	2	1	0	1	2	0	4	1	4	1	2	0	5	5	2	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55563329A>G	uc010rim.1	+	1	298	c.298A>G	c.(298-300)ATG>GTG	p.M100V		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	100	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				CTTTAGCTGCATGATGCAGTA	0.463													4	66					0	0	1	0	0		G	55563329	G	G	55563329	3	3	27	1	0	0	0	0	1	0	0	0	11174	217	8	3	300	3	OR5D14	11	55563329	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	254	55563329	79443187	5039	27390											
OR5L1	219437	broad.mit.edu	37	chr11	55579700	55579700	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctatcactgtcttccatgGaacagtcctttccatttatt	9	16	5	11	0	2	0	1	0	1	0	5	1	5	1	3	1	2	1	3	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55579700G>T	uc001nhw.1	+	1	758	c.758G>T	c.(757-759)GGA>GTA	p.G253V		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				GTCTTCCATGGAACAGTCCTT	0.512													6	85					0.00198382	0.00205548	1	1	0		T	55579700	T	T	55579700	3	4	27	1	0	0	0	0	1	0	0	0	11189	1174	41	5	760	5	OR5L1	11	55579700	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16371	55579700	79426816	5040	27391											
OR5L1	219437	broad.mit.edu	37	chr11	55579727	55579727	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctttccatttattgcaggcCcagttcaggcaatagtggag	9	12	10	10	0	1	0	1	0	0	0	2	1	2	1	3	3	1	3	3	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55579727C>A	uc001nhw.1	+	1	785	c.785C>A	c.(784-786)CCC>CAC	p.P262H		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				TATTGCAGGCCCAGTTCAGGC	0.502													6	75					0.00116845	0.00121513	1	1	0		A	55579727	A	A	55579727	3	1	27	1	0	0	0	0	1	0	0	0	11189	623	22	5	787	5	OR5L1	11	55579727	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	27	55579727	79426789	5041	27392											
OR5L1	219437	broad.mit.edu	37	chr11	55579836	55579836	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgagaaataaagatgtgaaAgaagctctcagaaaagtgat	19	8	10	4	0	1	6	1	3	1	4	2	7	1	6	0	0	1	1	0	0	7	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55579836A>T	uc001nhw.1	+	1	894	c.894A>T	c.(892-894)AAA>AAT	p.K298N		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	298	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				AAGATGTGAAAGAAGCTCTCA	0.463													5	43					0	0	1	0	0		T	55579836	T	T	55579836	3	4	27	1	0	0	0	0	1	0	0	0	11189	69	3	5	896	5	OR5L1	11	55579836	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	109	55579836	79426680	5042	27393											
OR5D18	219438	broad.mit.edu	37	chr11	55587251	55587251	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatattgggttgattgtgaTcatcaaaatcaaccccaaac	15	11	7	8	0	3	2	3	2	0	0	3	3	3	2	2	1	2	1	2	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55587251T>A	uc010rin.1	+	1	146	c.146T>A	c.(145-147)ATC>AAC	p.I49N		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	49	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				TTGATTGTGATCATCAAAATC	0.453													19	138					0	0	1	0	0		A	55587251	A	A	55587251	3	1	27	1	0	0	0	0	1	0	0	0	11176	1435	50	5	148	5	OR5D18	11	55587251	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7415	55587251	79419265	5043	27394											
OR5I1	10798	broad.mit.edu	37	chr11	55703185	55703185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcctcccactgaaagagCggatctttaagactgagaga	12	10	9	10	1	2	5	0	2	2	3	4	7	4	6	2	1	1	0	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55703185C>T	uc010ris.1	-	1	692	c.692G>A	c.(691-693)CGC>CAC	p.R231H		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACTGAAAGAGCGGATCTTTAA	0.458													3	10					0	0	1	0	0		T	55703185	T	T	55703185	3	4	27	1	0	0	0	0	1	0	0	0	11183	768	27	1	255	1	OR5I1	11	55703185	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	115934	55703185	79303331	5044	27395											
OR5I1	10798	broad.mit.edu	37	chr11	55703617	55703617	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatttgttctccgagaggAaattgaccagcattttggga	11	13	11	6	1	1	3	0	1	1	2	2	6	1	5	2	2	1	2	2	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55703617A>G	uc010ris.1	-	1	260	c.260T>C	c.(259-261)TTC>TCC	p.F87S		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTCCGAGAGGAAATTGACCAG	0.408													5	31					0	0	1	0	0		G	55703617	G	G	55703617	3	3	27	1	0	0	0	0	1	0	0	0	11183	246	9	3	687	3	OR5I1	11	55703617	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	432	55703617	79302899	5045	27396											
OR5F1	338674	broad.mit.edu	37	chr11	55761391	55761391	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagaggcacacgtggagaaAgctctgtgcctcccctcccc	8	7	11	15	1	1	2	0	1	1	2	3	4	3	2	5	2	2	2	5	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55761391A>C	uc010riv.1	-	1	711	c.711T>G	c.(709-711)GCT>GCG	p.A237A		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	237	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					ACGTGGAGAAAGCTCTGTGCC	0.498													10	65					0	0	1	0	0		C	55761391	C	C	55761391	2	2	27	1	0	0	0	0	0	0	0	1	11177	59	3	5		5	OR5F1	11	55761391	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	57774	55761391	79245125	5046	27397											
OR5AS1	219447	broad.mit.edu	37	chr11	55798599	55798599	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtcctcaggtggcagaagCaaaacattctccacttgtgc	12	9	9	11	0	2	1	1	0	1	1	4	1	3	1	2	2	3	2	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55798599C>G	uc010riw.1	+	1	705	c.705C>G	c.(703-705)AGC>AGG	p.S235R		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					GTGGCAGAAGCAAAACATTCT	0.453													17	142					0	0	1	0	0		G	55798599	G	G	55798599	3	3	27	1	0	0	0	0	1	0	0	0	11165	709	25	5	707	5	OR5AS1	11	55798599	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37208	55798599	79207917	5047	27398											
OR8H3	390152	broad.mit.edu	37	chr11	55890557	55890557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacttcaggaaagcagaaaGctttctctacttgcgtctct	10	12	7	12	1	3	1	1	0	2	1	5	2	3	2	1	1	4	2	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:55890557G>A	uc001nii.1	+	1	709	c.709G>A	c.(709-711)GCT>ACT	p.A237T		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	237	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					AAAGCAGAAAGCTTTCTCTAC	0.408													8	89					0	0	1	0	0		A	55890557	A	A	55890557	3	1	27	1	0	0	0	0	1	0	0	0	11258	971	34	2	711	2	OR8H3	11	55890557	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	91958	55890557	79115959	5048	27399											
OR8H1	219469	broad.mit.edu	37	chr11	56057653	56057653	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctaatgagagcatttttaaCttctttgtttctaagactat	11	19	5	6	0	3	2	0	1	3	2	3	3	3	2	0	0	2	2	0	0	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:56057653C>T	uc010rje.1	-	1	886	c.886G>A	c.(886-888)GTT>ATT	p.V296I		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	296	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					GCATTTTTAACTTCTTTGTTT	0.343													16	137					0	0	1	0	0		T	56057653	T	T	56057653	3	4	27	1	0	0	0	0	1	0	0	0	11256	565	20	4	51	4	OR8H1	11	56057653	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	167096	56057653	78948863	5049	27400											
OR8K3	219473	broad.mit.edu	37	chr11	56085879	56085879	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattatttgcattgttcctcAtgatctatgtgatctcagtg	8	18	7	8	0	3	2	2	2	2	0	5	2	4	2	1	0	1	2	1	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:56085879A>G	uc010rjf.1	+	1	97	c.97A>G	c.(97-99)ATG>GTG	p.M33V		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	33	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					ATTGTTCCTCATGATCTATGT	0.433													16	134					0	0	1	0	0		G	56085879	G	G	56085879	3	3	27	1	0	0	0	0	1	0	0	0	11263	217	8	3	99	3	OR8K3	11	56085879	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	28226	56085879	78920637	5050	27401											
OR5AP2	338675	broad.mit.edu	37	chr11	56409175	56409175	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccatgaggtaagaggcAcaggtggagaaggctttgtg	12	7	16	6	0	0	3	0	1	0	2	0	4	0	3	1	5	1	3	1	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:56409175A>G	uc001njb.1	-	1	741	c.741T>C	c.(739-741)TGT>TGC	p.C247C		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	247	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						GGTAAGAGGCACAGGTGGAGA	0.468													25	93					0	0	1	0	0		G	56409175	G	G	56409175	2	3	27	1	0	0	0	0	0	0	0	1	11163	157	6	3		3	OR5AP2	11	56409175	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	323296	56409175	78597341	5051	27402											
OR9G9	504191	broad.mit.edu	37	chr11	56467959	56467959	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcgtggtgttcctgggCgtgtactctctcactgtggt	2	16	12	11	2	3	0	1	0	2	0	6	0	4	0	1	3	1	2	1	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:56467959C>T	uc010rjn.1	+	1	96	c.96C>T	c.(94-96)GGC>GGT	p.G32G		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGTTCCTGGGCGTGTACTCTC	0.502													7	93					0	0	1	0	0		T	56467959	T	T	56467959	2	4	27	1	0	0	0	0	0	0	0	1	11271	755	27	1		1	OR9G9	11	56467959	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	58784	56467959	78538557	5052	27403											
OR9G4	283189	broad.mit.edu	37	chr11	56510828	56510828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaagcccagtacagagggCggtggacatggtacctgaat	13	6	13	9	1	0	2	0	1	0	1	0	3	0	3	2	4	4	2	2	4	5	2	rs139616824		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:56510828C>T	uc010rjo.1	-	1	460	c.460G>A	c.(460-462)GCC>ACC	p.A154T		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GTACAGAGGGCGGTGGACATG	0.473													29	126					0	0	1	0	0		T	56510828	T	T	56510828	3	4	27	1	0	0	0	0	1	0	0	0	11270	768	27	1	526	1	OR9G4	11	56510828	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	42869	56510828	78495688	5053	27404											
LRRC55	219527	broad.mit.edu	37	chr11	56949930	56949930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctagtccacatcgacctgaGccacaacccctggctgcgga	9	6	10	16	2	0	1	0	1	0	0	2	3	1	2	5	2	3	2	5	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:56949930G>A	uc001njl.1	+	1	710	c.563G>A	c.(562-564)AGC>AAC	p.S188N		NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	158	LRR 4.					integral to membrane					0						ATCGACCTGAGCCACAACCCC	0.617													4	38					0	0	1	0	0		A	56949930	A	A	56949930	3	1	27	1	0	0	0	0	1	0	0	0	9029	971	34	2	565	2	LRRC55	11	56949930	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	439102	56949930	78056586	5054	27405											
LRRC55	219527	broad.mit.edu	37	chr11	56954725	56954725	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgtgttacagattctcAgctggctgagtgccggggcc	5	12	13	11	1	2	2	1	1	2	1	3	2	2	2	2	3	3	3	2	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:56954725A>G	uc001njl.1	+	2	944	c.797A>G	c.(796-798)CAG>CGG	p.Q266R	LRRC55_uc001njm.1_5'Flank	NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	236	LRRCT.					integral to membrane					0						ACAGATTCTCAGCTGGCTGAG	0.587													5	81					0	0	1	0	0		G	56954725	G	G	56954725	3	3	27	1	0	0	0	0	1	0	0	0	9029	188	7	3	803	3	LRRC55	11	56954725	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4795	56954725	78051791	5055	27406											
APLNR	187	broad.mit.edu	37	chr11	57003818	57003818	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtttgggcgatgaagaagtAacaggtcagcatgatggtga	12	9	16	4	1	1	4	1	3	0	1	1	5	1	4	0	4	2	3	0	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:57003818A>G	uc001njo.2	-	1	1110	c.661T>C	c.(661-663)TAC>CAC	p.Y221H	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	221	Helical; Name=5; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						ATGAAGAAGTAACAGGTCAGC	0.632													6	58					0	0	1	0	0		G	57003818	G	G	57003818	3	3	27	1	0	0	0	0	1	0	0	0	777	362	13	3	485	3	APLNR	11	57003818	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	49093	57003818	78002698	5056	27407											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57068388	57068388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctggcttgggaggtaacGtgaggggctttcccagtcct	5	12	14	10	1	1	1	0	1	1	0	4	2	3	2	2	5	1	3	2	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:57068388G>A	uc001njr.2	-	9	5411	c.5099C>T	c.(5098-5100)ACG>ATG	p.T1700M	TNKS1BP1_uc001njp.2_Missense_Mutation_p.T272M|TNKS1BP1_uc001njq.2_Missense_Mutation_p.T273M|TNKS1BP1_uc001njs.2_Missense_Mutation_p.T1700M	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	1700	Arg/Glu/Lys-rich (charged).				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GGGAGGTAACGTGAGGGGCTT	0.547													10	133					0	0	1	0	0		A	57068388	A	A	57068388	3	1	27	1	0	0	0	0	1	0	0	0	16345	1145	40	1	98	1	TNKS1BP1	11	57068388	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	64570	57068388	77938128	5057	27408											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57076651	57076651	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcctcgctcgagcccccAgaacccacacagctggacac	9	4	9	19	2	0	1	0	0	0	1	2	3	0	2	4	2	3	2	4	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:57076651A>G	uc001njr.2	-	5	3846	c.3534T>C	c.(3532-3534)TCT>TCC	p.S1178S	TNKS1BP1_uc001njs.2_Silent_p.S1178S|TNKS1BP1_uc009ymd.1_Silent_p.S629S	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	1178	Gly-rich.|Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				TCGAGCCCCCAGAACCCACAC	0.607													7	60					0	0	1	0	0		G	57076651	G	G	57076651	2	3	27	1	0	0	0	0	0	0	0	1	16345	175	7	3		3	TNKS1BP1	11	57076651	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8263	57076651	77929865	5058	27409											
ZDHHC5	25921	broad.mit.edu	37	chr11	57440666	57440666	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacactcttctttgcctttaCgtgagttttctcccagcagg	6	15	8	12	1	3	1	0	1	3	0	4	2	3	1	2	1	3	2	2	1	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:57440666C>T	uc001nkx.1	+	2	1360	c.104C>T	c.(103-105)ACG>ATG	p.T35M	ZDHHC5_uc001nky.1_Intron	NM_015457	NP_056272	Q9C0B5	ZDHC5_HUMAN	zinc finger, DHHC domain containing 5	35						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)	1						TTTGCCTTTACGTGAGTTTTC	0.517													16	40					0	0	1	0	0		T	57440666	T	T	57440666	3	4	27	1	0	0	0	0	1	0	0	0	17643	550	19	1	106	1	ZDHHC5	11	57440666	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	364015	57440666	77565850	5059	27410											
CTNND1	1500	broad.mit.edu	37	chr11	57575947	57575947	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactaatgaacatgaacgggTggtgaaagctgcatctggag	13	8	14	6	1	1	3	0	3	1	0	1	5	1	4	0	3	4	2	0	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:57575947T>C	uc001nmc.3	+	14	2748	c.2177T>C	c.(2176-2178)GTG>GCG	p.V726A	CTNND1_uc001nlh.1_Missense_Mutation_p.V726A|CTNND1_uc001nlu.3_Missense_Mutation_p.V619A|CTNND1_uc001nlt.3_Missense_Mutation_p.V619A|CTNND1_uc001nls.3_Missense_Mutation_p.V619A|CTNND1_uc001nlw.3_Missense_Mutation_p.V619A|CTNND1_uc001nmf.3_Missense_Mutation_p.V726A|CTNND1_uc001nmd.3_Missense_Mutation_p.V672A|CTNND1_uc001nlk.3_Missense_Mutation_p.V672A|CTNND1_uc001nme.3_Missense_Mutation_p.V720A|CTNND1_uc001nll.3_Missense_Mutation_p.V666A|CTNND1_uc001nmg.3_Missense_Mutation_p.V666A|CTNND1_uc001nlj.3_Missense_Mutation_p.V666A|CTNND1_uc001nlr.3_Missense_Mutation_p.V666A|CTNND1_uc001nlp.3_Missense_Mutation_p.V666A|CTNND1_uc001nlx.3_Missense_Mutation_p.V403A|CTNND1_uc001nlz.3_Missense_Mutation_p.V403A|CTNND1_uc009ymn.2_Missense_Mutation_p.V397A|CTNND1_uc001nlm.3_Missense_Mutation_p.V720A|CTNND1_uc001nly.3_Missense_Mutation_p.V397A|CTNND1_uc001nmb.3_Missense_Mutation_p.V397A|CTNND1_uc001nma.3_Missense_Mutation_p.V397A|CTNND1_uc001nmi.3_Missense_Mutation_p.V625A|CTNND1_uc001nmh.3_Missense_Mutation_p.V720A|CTNND1_uc001nlq.3_Missense_Mutation_p.V625A|CTNND1_uc001nln.3_Missense_Mutation_p.V720A|CTNND1_uc001nli.3_Missense_Mutation_p.V720A|CTNND1_uc001nlo.3_Missense_Mutation_p.V619A|CTNND1_uc001nlv.3_Missense_Mutation_p.V619A	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	726	ARM 8.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				CATGAACGGGTGGTGAAAGCT	0.453													6	98					0	0	1	0	0		C	57575947	C	C	57575947	3	2	27	1	0	0	0	0	1	0	0	0	4022	1696	59	3	2223	3	CTNND1	11	57575947	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	135281	57575947	77430569	5060	27411											
OR6Q1	219952	broad.mit.edu	37	chr11	57798608	57798608	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accgactacggagacccatgTatttcttcctgacacacttg	10	11	7	13	2	1	2	0	1	1	1	2	4	2	2	3	1	1	1	3	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:57798608T>C	uc010rjz.1	+	1	184	c.184T>C	c.(184-186)TAT>CAT	p.Y62H	OR9Q1_uc001nmj.2_Intron	NM_001005186	NP_001005186	Q8NGQ2	OR6Q1_HUMAN	olfactory receptor, family 6, subfamily Q,	62	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(1)	1		Breast(21;0.0707)|all_epithelial(135;0.142)				GAGACCCATGTATTTCTTCCT	0.478													6	201					0	0	1	0	0		C	57798608	C	C	57798608	3	2	27	1	0	0	0	0	1	0	0	0	11227	1638	57	3	186	3	OR6Q1	11	57798608	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	222661	57798608	77207908	5061	27412											
OR1S2	219958	broad.mit.edu	37	chr11	57971193	57971193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agatgactgtgagcaaagtgCcgaacctggcccgcatgaaa	13	6	12	10	2	0	4	0	3	0	1	0	5	0	4	3	1	3	2	3	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:57971193C>T	uc010rkb.1	-	1	461	c.461G>A	c.(460-462)GGC>GAC	p.G154D		NM_001004459	NP_001004459	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				GAGCAAAGTGCCGAACCTGGC	0.488													6	124					0	0	1	0	0		T	57971193	T	T	57971193	3	4	27	1	0	0	0	0	1	0	0	0	10992	739	26	2	519	2	OR1S2	11	57971193	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	172585	57971193	77035323	5062	27413											
OR1S1	219959	broad.mit.edu	37	chr11	57982629	57982629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctatgaccactttgtggCgatctgccaccctctgaatt	7	12	9	13	1	2	2	0	2	2	0	2	3	2	2	4	2	1	0	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:57982629C>T	uc010rkc.1	+	1	413	c.413C>T	c.(412-414)GCG>GTG	p.A138V		NM_001004458	NP_001004458	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Breast(21;0.0589)				CACTTTGTGGCGATCTGCCAC	0.443													7	158					0	0	1	0	0		T	57982629	T	T	57982629	3	4	27	1	0	0	0	0	1	0	0	0	10991	768	27	1	415	1	OR1S1	11	57982629	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11436	57982629	77023887	5063	27414											
OR10Q1	219960	broad.mit.edu	37	chr11	57996067	57996067	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccagccaacgaaatgggcTtctgggcccccaaaatgttg	11	8	10	12	1	1	0	0	0	1	0	2	1	2	0	4	2	2	2	4	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:57996067T>C	uc010rkd.1	-	1	281	c.281A>G	c.(280-282)AAG>AGG	p.K94R		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				CGAAATGGGCTTCTGGGCCCC	0.527													7	47					0	0	1	0	0		C	57996067	C	C	57996067	3	2	27	1	0	0	0	0	1	0	0	0	10935	1609	56	3	682	3	OR10Q1	11	57996067	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	13438	57996067	77010449	5064	27415											
OR5B2	390190	broad.mit.edu	37	chr11	58190409	58190409	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggccaacaagtaatttTccaccgtggccaaggctaca	12	9	9	11	1	0	1	0	1	0	0	1	1	1	1	4	3	2	2	4	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:58190409T>C	uc010rkg.1	-	1	326	c.326A>G	c.(325-327)GAA>GGA	p.E109G		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CAAGTAATTTTCCACCGTGGC	0.517													9	103					0	0	1	0	0		C	58190409	C	C	58190409	3	2	27	1	0	0	0	0	1	0	0	0	11169	1783	62	3	607	3	OR5B2	11	58190409	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	194342	58190409	76816107	5065	27416											
OR5B21	219968	broad.mit.edu	37	chr11	58275329	58275329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatggccttgtcccctgaccGcaatgcagccaccgttttgg	6	10	11	14	2	0	1	0	1	0	0	1	2	1	1	6	2	2	3	6	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:58275329G>A	uc010rki.1	-	1	250	c.250C>T	c.(250-252)CGG>TGG	p.R84W		NM_001005218	NP_001005218	A6NL26	OR5BL_HUMAN	olfactory receptor, family 5, subfamily B,	84	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TCCCCTGACCGCAATGCAGCC	0.532													7	34					0	0	1	0	0		A	58275329	A	A	58275329	3	1	27	1	0	0	0	0	1	0	0	0	11170	1086	38	1	681	1	OR5B21	11	58275329	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	84920	58275329	76731187	5066	27417											
GLYAT	10249	broad.mit.edu	37	chr11	58478068	58478068	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttatcaaactcacatggcCttgggtttgccaccattggg	8	14	9	10	0	2	0	2	0	0	0	2	0	2	0	3	3	2	1	3	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:58478068C>A	uc001nnb.2	-	5	638	c.483G>T	c.(481-483)AAG>AAT	p.K161N	GLYAT_uc001nnc.2_Missense_Mutation_p.K161N	NM_201648	NP_964011	Q6IB77	GLYAT_HUMAN	glycine-N-acyltransferase isoform a	161					acyl-CoA metabolic process|response to toxin|xenobiotic metabolic process	mitochondrial matrix	glycine N-acyltransferase activity|glycine N-benzoyltransferase activity				0		Breast(21;0.0044)|all_epithelial(135;0.0157)			Glycine(DB00145)	CTCACATGGCCTTGGGTTTGC	0.318													8	86					0.000442599	0.000464839	1	1	0		A	58478068	A	A	58478068	3	1	27	1	0	0	0	0	1	0	0	0	6494	680	24	5	419	5	GLYAT	11	58478068	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	202739	58478068	76528448	5067	27418											
DTX4	23220	broad.mit.edu	37	chr11	58949402	58949402	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccattggctttagctacgtAattgacttcaacaccatggg	10	13	8	10	1	1	1	1	1	0	0	2	1	2	1	2	2	3	3	2	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:58949402A>G	uc001nns.2	+	2	659	c.402A>G	c.(400-402)GTA>GTG	p.V134V	DTX4_uc001nnr.2_Silent_p.V28V	NM_015177	NP_055992	Q9Y2E6	DTX4_HUMAN	deltex 4 homolog	134	WWE 2.				Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)				TTAGCTACGTAATTGACTTCA	0.592													11	93					0	0	1	0	0		G	58949402	G	G	58949402	2	3	27	1	0	0	0	0	0	0	0	1	4803	349	13	3		3	DTX4	11	58949402	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	471334	58949402	76057114	5068	27419											
MPEG1	219972	broad.mit.edu	37	chr11	58978613	58978613	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcccggatttgacgcaatAggacacttggcatccatcgc	10	8	11	12	3	0	1	0	1	0	0	2	4	1	3	2	3	1	2	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:58978613A>G	uc001nnu.3	-	1	1882	c.1726T>C	c.(1726-1728)TAT>CAT	p.Y576H		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	576	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				TTGACGCAATAGGACACTTGG	0.602													8	115					0	0	1	0	0		G	58978613	G	G	58978613	3	3	27	1	0	0	0	0	1	0	0	0	9741	420	15	3	428	3	MPEG1	11	58978613	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	29211	58978613	76027903	5069	27420											
MPEG1	219972	broad.mit.edu	37	chr11	58979219	58979219	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaccgaaagagaagttggTcattttcccctcgcaggagc	10	8	10	13	2	1	1	1	0	0	1	3	4	2	2	4	2	1	2	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:58979219T>C	uc001nnu.3	-	1	1276	c.1120A>G	c.(1120-1122)ACC>GCC	p.T374A		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	374	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				GAGAAGTTGGTCATTTTCCCC	0.483													31	98					0	0	1	0	0		C	58979219	C	C	58979219	3	2	27	1	0	0	0	0	1	0	0	0	9741	1667	58	3	1034	3	MPEG1	11	58979219	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	606	58979219	76027297	5070	27421											
OR4D11	219986	broad.mit.edu	37	chr11	59271510	59271510	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcttggatggggggctttgtCcactccatcgtgcagatctc	5	13	12	11	1	2	1	0	0	2	1	6	2	4	2	2	4	1	2	2	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:59271510C>T	uc001noa.1	+	1	462	c.462C>T	c.(460-462)GTC>GTT	p.V154V		NM_001004706	NP_001004706	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GGGGCTTTGTCCACTCCATCG	0.542													22	152					0	0	1	0	0		T	59271510	T	T	59271510	2	4	27	1	0	0	0	0	0	0	0	1	11074	842	30	4		4	OR4D11	11	59271510	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	292291	59271510	75735006	5071	27422											
PLAC1L	219990	broad.mit.edu	37	chr11	59814517	59814517	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacagcagaagagttaggaTtattatcttctagtccaaac	15	11	7	8	0	2	2	0	0	2	2	3	3	3	3	1	1	3	2	1	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:59814517T>C	uc001nol.2	+	4	633	c.448T>C	c.(448-450)TTA>CTA	p.L150L		NM_173801	NP_776162	Q86WS3	PLACL_HUMAN	placenta-specific 1-like precursor	150						extracellular region				ovary(2)|skin(1)	3						AGAGTTAGGATTATTATCTTC	0.358													6	78					0	0	1	0	0		C	59814517	C	C	59814517	2	2	27	1	0	0	0	0	0	0	0	1	12032	1490	52	3		3	PLAC1L	11	59814517	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	543007	59814517	75191999	5072	27423											
MS4A14	84689	broad.mit.edu	37	chr11	60183917	60183917	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattccttaaaccagcaaacCaaagccttgcaatacttaag	16	9	4	12	0	0	0	0	0	0	0	1	0	1	0	4	0	6	2	4	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60183917C>A	uc001npj.2	+	5	2041	c.1476C>A	c.(1474-1476)ACC>ACA	p.T492T	MS4A14_uc001npi.2_Silent_p.T380T|MS4A14_uc001npn.2_Silent_p.T230T|MS4A14_uc001npk.2_Silent_p.T475T|MS4A14_uc001npl.2_Silent_p.T230T|MS4A14_uc001npm.2_Silent_p.T230T	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	492	Gln-rich.					integral to membrane	receptor activity			breast(1)	1						ACCAGCAAACCAAAGCCTTGC	0.423													10	109					0.0692343	0.0700854	1	1	0		A	60183917	A	A	60183917	2	1	27	1	0	0	0	0	0	0	0	1	9876	581	21	5		5	MS4A14	11	60183917	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	369400	60183917	74822599	5073	27424											
MS4A12	54860	broad.mit.edu	37	chr11	60264792	60264792	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtgatacttaggacataAtgatgtcatccaagccaaca	14	12	7	8	0	1	2	1	2	0	0	2	3	2	3	2	1	3	0	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60264792A>C	uc001npr.2	+	2	58	c.1A>C	c.(1-3)ATG>CTG	p.M1L	MS4A12_uc009ynb.2_Missense_Mutation_p.M1L	NM_017716	NP_060186	Q9NXJ0	M4A12_HUMAN	membrane-spanning 4-domains, subfamily A, member	1	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						TTAGGACATAATGATGTCATC	0.373													5	84					0	0	1	0	0		C	60264792	C	C	60264792	3	2	27	1	0	0	0	0	1	0	0	0	9874	101	4	5	3	5	MS4A12	11	60264792	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	80875	60264792	74741724	5074	27425											
MS4A13	503497	broad.mit.edu	37	chr11	60285576	60285576	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgattggcatctttcacaTtttcatgtggtactttctat	8	20	6	7	0	4	1	2	1	2	0	4	1	4	1	0	2	1	2	0	2	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60285576T>C	uc001nps.2	+	3	343	c.20T>C	c.(19-21)ATT>ACT	p.I7T	MS4A13_uc009ync.2_Missense_Mutation_p.I7T|MS4A13_uc009ynd.2_Missense_Mutation_p.I7T	NM_001012417	NP_001012417	Q5J8X5	M4A13_HUMAN	membrane-spanning 4-domains, subfamily A, member	7	Helical; (Potential).					integral to membrane					0						ATCTTTCACATTTTCATGTGG	0.323													4	59					0	0	1	0	0		C	60285576	C	C	60285576	3	2	27	1	0	0	0	0	1	0	0	0	9875	1493	52	3	22	3	MS4A13	11	60285576	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20784	60285576	74720940	5075	27426											
CCDC86	79080	broad.mit.edu	37	chr11	60615443	60615443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgcgcacatcgtggcagCggaagatgaaggaacgacag	12	4	14	11	4	0	2	0	1	0	1	1	5	0	4	1	3	3	2	1	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60615443C>T	uc001nqa.2	+	2	974	c.805C>T	c.(805-807)CGG>TGG	p.R269W	CCDC86_uc001nqb.2_Missense_Mutation_p.R13W	NM_024098	NP_077003	Q9H6F5	CCD86_HUMAN	coiled-coil domain containing 86	269					interspecies interaction between organisms	nucleus					0						ATCGTGGCAGCGGAAGATGAA	0.627													13	92					0	0	1	0	0		T	60615443	T	T	60615443	3	4	27	1	0	0	0	0	1	0	0	0	2864	759	27	1	811	1	CCDC86	11	60615443	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	329867	60615443	74391073	5076	27427											
CCDC86	79080	broad.mit.edu	37	chr11	60615518	60615518	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggaggagaaggagaggCgccgccaggtgaggggccag	10	2	22	7	2	0	3	0	1	0	2	0	7	0	5	3	8	0	0	3	8	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60615518C>A	uc001nqa.2	+	2	1049	c.880C>A	c.(880-882)CGC>AGC	p.R294S	CCDC86_uc001nqb.2_Missense_Mutation_p.R38S	NM_024098	NP_077003	Q9H6F5	CCD86_HUMAN	coiled-coil domain containing 86	294	Potential.				interspecies interaction between organisms	nucleus					0						GAAGGAGAGGCGCCGCCAGGT	0.642													4	49					1.024e-07	1.12055e-07	1	1	0		A	60615518	A	A	60615518	3	1	27	1	0	0	0	0	1	0	0	0	2864	768	27	5	886	5	CCDC86	11	60615518	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	75	60615518	74390998	5077	27428											
CCDC86	79080	broad.mit.edu	37	chr11	60617771	60617771	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgctgcagaagcagccGccccagcagccggcagccaa	9	2	12	18	2	0	1	0	0	0	1	0	1	0	1	6	1	7	5	6	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60617771G>A	uc001nqa.2	+	4	1225	c.1056G>A	c.(1054-1056)CCG>CCA	p.P352P	CCDC86_uc001nqb.2_Silent_p.P96P	NM_024098	NP_077003	Q9H6F5	CCD86_HUMAN	coiled-coil domain containing 86	352					interspecies interaction between organisms	nucleus					0						AGAAGCAGCCGCCCCAGCAGC	0.637													8	51					0	0	1	0	0		A	60617771	A	A	60617771	2	1	27	1	0	0	0	0	0	0	0	1	2864	1074	38	1		1	CCDC86	11	60617771	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2253	60617771	74388745	5078	27429											
ZP1	22917	broad.mit.edu	37	chr11	60637016	60637016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcacctgcaggatgggCgtttccacctgagggtgttc	5	11	12	13	1	1	1	1	1	1	0	4	2	2	2	4	3	1	3	4	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60637016C>T	uc001nqd.2	+	3	345	c.325C>T	c.(325-327)CGT>TGT	p.R109C	ZP1_uc001nqe.2_5'Flank	NM_207341	NP_997224	P60852	ZP1_HUMAN	zona pellucida glycoprotein 1 precursor	109	Extracellular (Potential).				single fertilization	integral to membrane|plasma membrane|proteinaceous extracellular matrix					0						GCAGGATGGGCGTTTCCACCT	0.607													8	37					0	0	1	0	0		T	60637016	T	T	60637016	3	4	27	1	0	0	0	0	1	0	0	0	18240	768	27	1	335	1	ZP1	11	60637016	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	19245	60637016	74369500	5079	27430											
ZP1	22917	broad.mit.edu	37	chr11	60637914	60637914	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggctgctgctatgacaaCaccagagaggttccctgtta	9	10	11	11	0	0	2	0	1	0	1	1	3	1	2	2	2	3	6	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60637914C>T	uc001nqd.2	+	4	812	c.792C>T	c.(790-792)AAC>AAT	p.N264N	ZP1_uc001nqe.2_5'Flank	NM_207341	NP_997224	P60852	ZP1_HUMAN	zona pellucida glycoprotein 1 precursor	264	Extracellular (Potential).|P-type.				single fertilization	integral to membrane|plasma membrane|proteinaceous extracellular matrix					0						GCTATGACAACACCAGAGAGG	0.567													6	71					0	0	1	0	0		T	60637914	T	T	60637914	2	4	27	1	0	0	0	0	0	0	0	1	18240	477	17	4		4	ZP1	11	60637914	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	898	60637914	74368602	5080	27431											
ZP1	22917	broad.mit.edu	37	chr11	60642608	60642608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcccctgggcaggacagcGacgatcctcaggtcaccgta	8	7	11	15	3	2	0	2	0	0	0	4	3	4	1	4	3	1	2	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60642608G>A	uc001nqd.2	+	11	1681	c.1661G>A	c.(1660-1662)CGA>CAA	p.R554Q	ZP1_uc001nqe.2_Missense_Mutation_p.R261Q	NM_207341	NP_997224	P60852	ZP1_HUMAN	zona pellucida glycoprotein 1 precursor	554	Extracellular (Potential).				single fertilization	integral to membrane|plasma membrane|proteinaceous extracellular matrix					0						GCAGGACAGCGACGATCCTCA	0.582													7	75					0	0	1	0	0		A	60642608	A	A	60642608	3	1	27	1	0	0	0	0	1	0	0	0	18240	1058	37	1	1703	1	ZP1	11	60642608	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4694	60642608	74363908	5081	27432											
TMEM109	79073	broad.mit.edu	37	chr11	60689443	60689443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggccctgatgaggtcggtgCctgacccttccacccgggcc	4	8	13	16	2	0	3	0	3	0	0	2	3	1	3	6	4	1	0	6	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60689443C>T	uc001nqg.2	+	4	916	c.538C>T	c.(538-540)CCT>TCT	p.P180S	TMEM109_uc001nqh.2_Missense_Mutation_p.P180S|TMEM132A_uc001nqi.2_5'Flank|TMEM132A_uc001nqj.2_5'Flank	NM_024092	NP_076997	Q9BVC6	TM109_HUMAN	transmembrane protein 109 precursor	180						integral to membrane|nuclear outer membrane|sarcoplasmic reticulum membrane					0						GAGGTCGGTGCCTGACCCTTC	0.662													9	73					0	0	1	0	0		T	60689443	T	T	60689443	3	4	27	1	0	0	0	0	1	0	0	0	16050	739	26	2	548	2	TMEM109	11	60689443	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	46835	60689443	74317073	5082	27433											
TMEM132A	54972	broad.mit.edu	37	chr11	60703735	60703735	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacacaggtgtgaggggcAagtttgagcgggcagaggag	11	5	19	6	1	0	3	0	2	0	1	0	4	0	4	0	5	2	4	0	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60703735A>G	uc001nqj.2	+	11	2621	c.2428A>G	c.(2428-2430)AAG>GAG	p.K810E	TMEM132A_uc001nqi.2_Missense_Mutation_p.K811E|TMEM132A_uc001nqm.2_Missense_Mutation_p.K20E	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	810	Binds to HSPA5/GRP78 (By similarity).|Confers cellular localization similar to full-length form (By similarity).|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						TGTGAGGGGCAAGTTTGAGCG	0.552													4	84					0	0	1	0	0		G	60703735	G	G	60703735	3	3	27	1	0	0	0	0	1	0	0	0	16070	131	5	3	2473	3	TMEM132A	11	60703735	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14292	60703735	74302781	5083	27434											
TMEM132A	54972	broad.mit.edu	37	chr11	60704348	60704348	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaccctgaggagcttcgcaActacatggagaggatccggg	10	6	15	10	2	0	2	0	1	0	1	2	6	1	5	2	5	3	2	2	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60704348A>G	uc001nqj.2	+	11	3234	c.3041A>G	c.(3040-3042)AAC>AGC	p.N1014S	TMEM132A_uc001nqi.2_Missense_Mutation_p.N1015S|TMEM132A_uc001nqm.2_Missense_Mutation_p.N224S	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	1014	Cytoplasmic (Potential).|Confers cellular localization similar to full-length form (By similarity).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						GAGCTTCGCAACTACATGGAG	0.652													3	41					0	0	1	0	0		G	60704348	G	G	60704348	3	3	27	1	0	0	0	0	1	0	0	0	16070	43	2	3	3086	3	TMEM132A	11	60704348	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	613	60704348	74302168	5084	27435											
CD6	923	broad.mit.edu	37	chr11	60783197	60783197	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccccagttttcatgctgcCcatccaggtccaggccccgc	5	9	8	19	1	1	0	1	0	0	0	4	0	4	0	7	2	2	2	7	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:60783197C>A	uc001nqq.2	+	9	1623	c.1400C>A	c.(1399-1401)CCC>CAC	p.P467H	CD6_uc001nqp.2_Missense_Mutation_p.P467H|CD6_uc001nqr.2_Missense_Mutation_p.P435H|CD6_uc001nqs.2_Intron|CD6_uc001nqt.2_Intron	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule precursor	467	Cytoplasmic (Potential).			VFMLPI -> GPGPAP (in Ref. 3; CAA43306).	cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1						TTCATGCTGCCCATCCAGGTC	0.602													13	86					7.93312e-07	8.61692e-07	1	1	0		A	60783197	A	A	60783197	3	1	27	1	0	0	0	0	1	0	0	0	3031	623	22	5	1434	5	CD6	11	60783197	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	78849	60783197	74223319	5085	27436											
DDB1	1642	broad.mit.edu	37	chr11	61079550	61079550	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggtgctattgttggccagCgccaggctggaaagaagggt	9	8	17	7	1	0	1	0	0	0	1	0	2	0	2	2	5	2	3	2	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:61079550C>T	uc001nrc.3	-	17	2302	c.2076G>A	c.(2074-2076)GCG>GCA	p.A692A	DDB1_uc010rle.1_Intron|DDB1_uc010rlf.1_Silent_p.A692A	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	692	Interaction with CDT1.|Interaction with CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						TGTTGGCCAGCGCCAGGCTGG	0.522								NER					10	91					0	0	1	0	0		T	61079550	T	T	61079550	2	4	27	1	0	0	0	0	0	0	0	1	4326	755	27	1		1	DDB1	11	61079550	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	296353	61079550	73926966	5086	27437											
DDB1	1642	broad.mit.edu	37	chr11	61081422	61081422	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctctcaaaggtggtcatcagGatggagcgaggaatgatctc	11	9	13	8	1	4	1	3	1	2	0	6	5	4	4	0	5	1	0	0	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:61081422G>A	uc001nrc.3	-	15	1999	c.1773C>T	c.(1771-1773)ATC>ATT	p.I591I	DDB1_uc010rle.1_Intron|DDB1_uc010rlf.1_Silent_p.I591I	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	591	Interaction with CDT1.|Interaction with CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						TGGTCATCAGGATGGAGCGAG	0.478								NER					4	54					0	0	1	0	0		A	61081422	A	A	61081422	2	1	27	1	0	0	0	0	0	0	0	1	4326	1164	41	4		4	DDB1	11	61081422	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1872	61081422	73925094	5087	27438											
DAK	26007	broad.mit.edu	37	chr11	61113377	61113377	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agctccaagcctggaagagcCcaggagctgatctgttacaa	12	7	11	11	0	1	2	0	1	1	1	2	4	2	4	3	2	5	3	3	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:61113377C>A	uc001nre.2	+	17	1791	c.1534C>A	c.(1534-1536)CCA>ACA	p.P512T	DAK_uc009ynm.1_Missense_Mutation_p.P442T	NM_015533	NP_056348	Q3LXA3	DHAK_HUMAN	dihydroxyacetone kinase 2	512	DhaL.				glycerol metabolic process	cytosol	ATP binding|FAD-AMP lyase (cyclizing) activity|glycerone kinase activity|metal ion binding				0						CTGGAAGAGCCCAGGAGCTGA	0.527													5	89					0.00116845	0.00121513	1	1	0		A	61113377	A	A	61113377	3	1	27	1	0	0	0	0	1	0	0	0	4231	623	22	5	1596	5	DAK	11	61113377	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31955	61113377	73893139	5088	27439											
C11orf66	220004	broad.mit.edu	37	chr11	61257286	61257286	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccccaagggtctagaccAggaaggctggactcgaggtg	10	6	14	11	1	1	1	0	0	1	1	3	4	2	3	3	5	0	1	3	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:61257286A>T	uc001nru.1	+	12	1201	c.1076A>T	c.(1075-1077)CAG>CTG	p.Q359L	C11orf66_uc009ynq.1_Missense_Mutation_p.Q339L	NM_145017	NP_659454	Q7Z5V6	CK066_HUMAN	IIIG9 protein	359										ovary(1)	1						GGTCTAGACCAGGAAGGCTGG	0.637													3	39					0	0	1	0	0		T	61257286	T	T	61257286	3	4	27	1	0	0	0	0	1	0	0	0	1659	188	7	5	1118	5	C11orf66	11	61257286	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	143909	61257286	73749230	5089	27440											
SYT7	9066	broad.mit.edu	37	chr11	61300478	61300478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatgagcatctcgctggTgagggagttgacgaggtctg	8	9	15	9	2	2	3	0	3	2	0	3	5	2	4	1	3	1	3	1	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:61300478T>C	uc001nrv.2	-	4	340	c.334A>G	c.(334-336)ACC>GCC	p.T112A	SYT7_uc009ynr.2_Missense_Mutation_p.T187A	NM_004200	NP_004191	O43581	SYT7_HUMAN	synaptotagmin VII	112	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|pancreas(1)	4						ATCTCGCTGGTGAGGGAGTTG	0.642													5	72					0	0	1	0	0		C	61300478	C	C	61300478	3	2	27	1	0	0	0	0	1	0	0	0	15504	1696	59	3	901	3	SYT7	11	61300478	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	43192	61300478	73706038	5090	27441											
FADS2	9415	broad.mit.edu	37	chr11	61615659	61615659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaactggtggaatcatcGccacttccagcaccacgcca	10	7	8	16	2	1	0	1	0	0	0	3	1	2	1	5	2	3	1	5	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:61615659G>A	uc001nsl.1	+	5	797	c.647G>A	c.(646-648)CGC>CAC	p.R216H	FADS2_uc001nsj.2_Missense_Mutation_p.R194H|FADS2_uc010rlo.1_Missense_Mutation_p.R185H|FADS2_uc001nsk.2_Missense_Mutation_p.R216H	NM_004265	NP_004256	O95864	FADS2_HUMAN	fatty acid desaturase 2	216	Cytoplasmic (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	heme binding			ovary(1)|pancreas(1)	2					Alpha-Linolenic Acid(DB00132)	TGGAATCATCGCCACTTCCAG	0.582													8	49					0	0	1	0	0		A	61615659	A	A	61615659	3	1	27	1	0	0	0	0	1	0	0	0	5377	1087	38	1	665	1	FADS2	11	61615659	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	315181	61615659	73390857	5091	27442											
FTH1	2495	broad.mit.edu	37	chr11	61732893	61732893	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggttctgcagcttcatcAgtttctcagcatgttccctc	5	16	8	12	0	4	0	3	0	2	0	7	0	5	0	1	1	3	7	1	1	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:61732893A>G	uc001nsu.2	-	2	444	c.209T>C	c.(208-210)CTG>CCG	p.L70P		NM_002032	NP_002023	P02794	FRIH_HUMAN	ferritin, heavy polypeptide 1	70	Ferritin-like diiron.				cell proliferation|cellular membrane organization|immune response|intracellular sequestering of iron ion|iron ion transport|negative regulation of cell proliferation|post-Golgi vesicle-mediated transport	cytosol|intracellular ferritin complex	ferric iron binding|ferroxidase activity|protein binding			ovary(1)	1					Iron Dextran(DB00893)	CAGCTTCATCAGTTTCTCAGC	0.443													23	210					0	0	1	0	0		G	61732893	G	G	61732893	3	3	27	1	0	0	0	0	1	0	0	0	6096	188	7	3	354	3	FTH1	11	61732893	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	117234	61732893	73273623	5092	27443											
SCGB1D1	10648	broad.mit.edu	37	chr11	61959627	61959627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgccaaatttaaggcacCtctggaagctgttgcagcca	11	10	9	11	0	1	0	0	0	1	0	1	1	1	1	3	2	4	4	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:61959627C>T	uc001nsz.1	+	2	202	c.155C>T	c.(154-156)CCT>CTT	p.P52L		NM_006552	NP_006543	O95968	SG1D1_HUMAN	lipophilin A precursor	52						extracellular space	binding			skin(1)	1						TTTAAGGCACCTCTGGAAGCT	0.428													8	71					0	0	1	0	0		T	61959627	T	T	61959627	3	4	27	1	0	0	0	0	1	0	0	0	13921	681	24	4	161	4	SCGB1D1	11	61959627	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	226734	61959627	73046889	5093	27444											
AHNAK	79026	broad.mit.edu	37	chr11	62298283	62298283	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actttggggcctttcaagtgTaagtccacatcaggcatgga	10	11	11	9	0	2	0	2	0	0	0	3	1	3	1	2	4	0	2	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:62298283T>C	uc001ntl.2	-	5	3906	c.3606A>G	c.(3604-3606)TTA>TTG	p.L1202L	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1202					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CTTTCAAGTGTAAGTCCACAT	0.483													21	441					0	0	1	0	0		C	62298283	C	C	62298283	2	2	27	1	0	0	0	0	0	0	0	1	414	1635	57	3		3	AHNAK	11	62298283	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	338656	62298283	72708233	5094	27445											
AHNAK	79026	broad.mit.edu	37	chr11	62301413	62301413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagtcacatccacagtgtagGccgtgacccttctggtcact	8	10	9	14	1	3	1	2	1	1	0	4	1	4	1	3	2	0	1	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:62301413G>A	uc001ntl.2	-	5	776	c.476C>T	c.(475-477)GCC>GTC	p.A159V	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	159					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CACAGTGTAGGCCGTGACCCT	0.532													13	108					0	0	1	0	0		A	62301413	A	A	62301413	3	1	27	1	0	0	0	0	1	0	0	0	414	1203	42	2	17316	2	AHNAK	11	62301413	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3130	62301413	72705103	5095	27446											
EEF1G	1937	broad.mit.edu	37	chr11	62338549	62338549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catccagcagccccagaattCgcctcacttcctcctttgca	8	10	5	18	1	1	1	1	0	0	1	5	1	4	1	6	0	3	2	6	0	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:62338549C>T	uc001ntm.1	-	5	556	c.410G>A	c.(409-411)CGA>CAA	p.R137Q	EEF1G_uc010rlw.1_Missense_Mutation_p.R187Q|EEF1G_uc001ntn.1_Missense_Mutation_p.R17Q	NM_001404	NP_001395	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1	137	GST C-terminal.				response to virus	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						CCCCAGAATTCGCCTCACTTC	0.498													11	99					0	0	1	0	0		T	62338549	T	T	62338549	3	4	27	1	0	0	0	0	1	0	0	0	4934	884	31	1	927	1	EEF1G	11	62338549	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37136	62338549	72667967	5096	27447											
GANAB	23193	broad.mit.edu	37	chr11	62394111	62394111	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgaagaccgccgcactcGcatccatcgaggcacgattg	9	8	10	14	5	1	2	0	1	1	1	4	4	2	2	3	1	0	3	3	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:62394111G>A	uc001nub.2	-	21	2476	c.2443C>T	c.(2443-2445)CGA>TGA	p.R815*	GANAB_uc001ntz.2_Nonsense_Mutation_p.R2*|GANAB_uc001nua.2_Nonsense_Mutation_p.R837*|GANAB_uc001nuc.2_Nonsense_Mutation_p.R718*|GANAB_uc010rma.1_Nonsense_Mutation_p.R723*|GANAB_uc010rmb.1_Nonsense_Mutation_p.R701*	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2	815					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5						CGCCGCACTCGCATCCATCGA	0.562													3	18					0	0	1	0	0		A	62394111	A	A	62394111	4	1	27	1	0	0	0	0	0	1	0	0	6248	1095	38	1	407	1	GANAB	11	62394111	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55562	62394111	72612405	5097	27448											
INTS5	80789	broad.mit.edu	37	chr11	62416356	62416356	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggtaggcacctgccccaGaggcctggctcaccaggtgc	7	5	14	15	1	1	1	1	0	0	1	1	1	1	1	5	5	3	3	5	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:62416356G>T	uc001nud.2	-	2	1249	c.1196C>A	c.(1195-1197)TCT>TAT	p.S399Y	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	399					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						ACCTGCCCCAGAGGCCTGGCT	0.617													4	44					0.150653	0.151846	1	1	0		T	62416356	T	T	62416356	3	4	27	1	0	0	0	0	1	0	0	0	7797	942	33	5	1867	5	INTS5	11	62416356	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	22245	62416356	72590160	5098	27449											
ZBTB3	79842	broad.mit.edu	37	chr11	62520498	62520498	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagagagacatcagccacTggtggatgaggtgcccgcag	11	5	15	10	1	1	3	1	1	0	2	1	5	1	4	2	3	2	2	2	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:62520498T>A	uc001nuz.2	-	2	911	c.789A>T	c.(787-789)CCA>CCT	p.P263P		NM_024784	NP_079060	Q9H5J0	ZBTB3_HUMAN	zinc finger and BTB domain containing 3	263	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3						CATCAGCCACTGGTGGATGAG	0.552													5	25					0	0	1	0	0		A	62520498	A	A	62520498	2	1	27	1	0	0	0	0	0	0	0	1	17559	1567	55	5		5	ZBTB3	11	62520498	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	104142	62520498	72486018	5099	27450											
NXF1	10482	broad.mit.edu	37	chr11	62569076	62569076	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcaagggcttgttgggAgccatcgtatcgtttgctca	7	12	14	8	2	2	0	2	0	0	0	4	2	2	1	1	3	2	5	1	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:62569076A>G	uc001nvf.1	-	7	803	c.667T>C	c.(667-669)TCC>CCC	p.S223P	NXF1_uc001nvg.1_Missense_Mutation_p.S223P|NXF1_uc009yog.1_Missense_Mutation_p.S266P|NXF1_uc010rmh.1_Missense_Mutation_p.S86P	NM_006362	NP_006353	Q9UBU9	NXF1_HUMAN	nuclear RNA export factor 1 isoform 1	223	Interaction with THOC4.				gene expression|interspecies interaction between organisms	cytosol|nuclear speck	nucleotide binding|protein binding			skin(3)	3						GCTTGTTGGGAGCCATCGTAT	0.512													15	139					0	0	1	0	0		G	62569076	G	G	62569076	3	3	27	1	0	0	0	0	1	0	0	0	10801	304	11	3	1307	3	NXF1	11	62569076	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	48578	62569076	72437440	5100	27451											
WDR74	54663	broad.mit.edu	37	chr11	62600597	62600597	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggttcttgaggctcttgggGctcatcctggtgagtgggaa	5	12	17	7	0	3	2	1	2	2	0	4	3	4	3	1	6	0	3	1	6	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:62600597G>T	uc001nvm.1	-	12	1153	c.985C>A	c.(985-987)CCC>ACC	p.P329T	STX5_uc001nvh.2_5'Flank|STX5_uc010rmi.1_5'Flank|STX5_uc009yoh.2_5'Flank|STX5_uc001nvi.2_5'Flank|STX5_uc010rmj.1_5'Flank|STX5_uc001nvj.2_5'Flank|WDR74_uc001nvk.1_Missense_Mutation_p.P272T|WDR74_uc001nvl.1_Missense_Mutation_p.P310T|WDR74_uc001nvn.1_Missense_Mutation_p.P381T|WDR74_uc009yoi.1_Missense_Mutation_p.P329T	NM_018093	NP_060563	Q6RFH5	WDR74_HUMAN	WD repeat domain 74	329						nucleolus				ovary(1)	1						GGCTCTTGGGGCTCATCCTGG	0.398													5	37					0.000602214	0.000630257	1	1	0		T	62600597	T	T	62600597	3	4	27	1	0	0	0	0	1	0	0	0	17350	1203	42	5	176	5	WDR74	11	62600597	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31521	62600597	72405919	5101	27452											
CHRM1	1128	broad.mit.edu	37	chr11	62677758	62677758	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcttcttccttccagctgTaggcctgcagcagcctgggg	4	11	11	15	0	2	0	0	0	2	0	4	0	4	0	5	3	4	4	5	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:62677758T>G	uc001nwi.2	-	2	1216	c.815A>C	c.(814-816)TAC>TCC	p.Y272S		NM_000738	NP_000729	P11229	ACM1_HUMAN	cholinergic receptor, muscarinic 1	272	Cytoplasmic (Potential).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell proliferation|nervous system development|positive regulation of cell proliferation|protein modification process	cell junction|integral to plasma membrane|membrane fraction|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity|protein binding				0					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Benztropine(DB00245)|Bethanechol(DB01019)|Biperiden(DB00810)|Buclizine(DB00354)|Carbachol(DB00411)|Carbinoxamine(DB00748)|Cevimeline(DB00185)|Clidinium(DB00771)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Cyclopentolate(DB00979)|Cycrimine(DB00942)|Desipramine(DB01151)|Dicyclomine(DB00804)|Diphenidol(DB01231)|Doxylamine(DB00366)|Ethopropazine(DB00392)|Flavoxate(DB01148)|Glycopyrrolate(DB00986)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methantheline(DB00940)|Methotrimeprazine(DB01403)|Methylscopolamine(DB00462)|Metixene(DB00340)|Metoclopramide(DB01233)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Oxyphenonium(DB00219)|Pilocarpine(DB01085)|Pirenzepine(DB00670)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propantheline(DB00782)|Propiomazine(DB00777)|Quinacrine(DB01103)|Scopolamine(DB00747)|Solifenacin(DB01591)|Succinylcholine(DB00202)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)|Trihexyphenidyl(DB00376)|Trospium(DB00209)	CTTCCAGCTGTAGGCCTGCAG	0.632													17	99					0	0	1	0	0		G	62677758	G	G	62677758	3	3	27	1	0	0	0	0	1	0	0	0	3379	1638	57	5	571	5	CHRM1	11	62677758	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	77161	62677758	72328758	5102	27453											
RTN3	10313	broad.mit.edu	37	chr11	63472327	63472327	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatattttctttcagattcCtttgtttcttcctcttcctc	4	23	3	11	0	4	1	1	0	3	1	8	1	7	1	3	0	0	2	3	0	2	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:63472327C>A	uc001nxq.2	+	2	334	c.147C>A	c.(145-147)TCC>TCA	p.S49S	RTN3_uc001nxo.2_Intron|RTN3_uc001nxm.2_Silent_p.S49S|RTN3_uc001nxn.2_Intron|RTN3_uc001nxp.2_Intron|RTN3_uc009yov.2_Intron|RTN3_uc010rmt.1_Intron|RTN3_uc010rmu.1_Intron	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	49					apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						TTTCAGATTCCTTTGTTTCTT	0.363													15	124					3.45872e-05	3.69714e-05	1	1	0		A	63472327	A	A	63472327	2	1	27	1	0	0	0	0	0	0	0	1	13752	668	24	5		5	RTN3	11	63472327	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	794569	63472327	71534189	5103	27454											
RTN3	10313	broad.mit.edu	37	chr11	63487827	63487827	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttcaacagtgtctccaaAtgtttttaatgagacagaat	13	14	6	8	0	2	2	1	1	1	2	4	3	3	2	2	0	1	1	2	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:63487827A>C	uc001nxq.2	+	3	2040	c.1853A>C	c.(1852-1854)AAT>ACT	p.N618T	RTN3_uc001nxo.2_Intron|RTN3_uc001nxm.2_Intron|RTN3_uc001nxn.2_Missense_Mutation_p.N599T|RTN3_uc001nxp.2_Intron|RTN3_uc009yov.2_Missense_Mutation_p.N506T|RTN3_uc010rmt.1_Intron|RTN3_uc010rmu.1_Intron	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	618					apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						GTGTCTCCAAATGTTTTTAAT	0.383													4	103					0	0	1	0	0		C	63487827	C	C	63487827	3	2	27	1	0	0	0	0	1	0	0	0	13752	101	4	5	1863	5	RTN3	11	63487827	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	15500	63487827	71518689	5104	27455											
RTN3	10313	broad.mit.edu	37	chr11	63488173	63488173	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctacccaaggtactccagtAgcatctcttgacttagaaca	12	10	6	13	0	1	2	0	1	1	1	3	2	2	2	3	1	4	3	3	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:63488173A>G	uc001nxq.2	+	3	2386	c.2199A>G	c.(2197-2199)GTA>GTG	p.V733V	RTN3_uc001nxo.2_Intron|RTN3_uc001nxm.2_Intron|RTN3_uc001nxn.2_Silent_p.V714V|RTN3_uc001nxp.2_Intron|RTN3_uc009yov.2_Silent_p.V621V|RTN3_uc010rmt.1_Intron|RTN3_uc010rmu.1_Intron	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	733					apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						GTACTCCAGTAGCATCTCTTG	0.413													4	43					0	0	1	0	0		G	63488173	G	G	63488173	2	3	27	1	0	0	0	0	0	0	0	1	13752	407	15	3		3	RTN3	11	63488173	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	346	63488173	71518343	5105	27456											
RCOR2	283248	broad.mit.edu	37	chr11	63681532	63681532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcagggctcaggtacatgCccttgggtgggcgacgccgg	5	8	16	12	3	2	0	2	0	0	0	2	1	2	0	2	5	2	2	2	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:63681532C>T	uc001nyc.2	-	8	1173	c.785G>A	c.(784-786)GGC>GAC	p.G262D		NM_173587	NP_775858	Q8IZ40	RCOR2_HUMAN	REST corepressor 2	262					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)|skin(1)	2						CAGGTACATGCCCTTGGGTGG	0.632													17	120					0	0	1	0	0		T	63681532	T	T	63681532	3	4	27	1	0	0	0	0	1	0	0	0	13208	739	26	2	806	2	RCOR2	11	63681532	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	193359	63681532	71324984	5106	27457											
STIP1	10963	broad.mit.edu	37	chr11	63970965	63970965	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtatgatggcgcagtacaAccggcacgacagccccgaag	11	5	12	13	4	0	1	0	1	0	0	0	3	0	1	3	2	3	4	3	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:63970965A>G	uc001nyk.1	+	13	1577	c.1430A>G	c.(1429-1431)AAC>AGC	p.N477S	STIP1_uc010rnb.1_Missense_Mutation_p.N453S	NM_006819	NP_006810	P31948	STIP1_HUMAN	stress-induced-phosphoprotein 1	477					axon guidance|response to stress	Golgi apparatus|nucleus				ovary(2)|liver(1)	3						GCGCAGTACAACCGGCACGAC	0.597													4	26					0	0	1	0	0		G	63970965	G	G	63970965	3	3	27	1	0	0	0	0	1	0	0	0	15310	43	2	3	1480	3	STIP1	11	63970965	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	289433	63970965	71035551	5107	27458											
FERMT3	83706	broad.mit.edu	37	chr11	63978085	63978085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcccccgtgccccacagatCgcaagcaggactggtcagac	9	5	11	16	2	1	2	1	0	0	2	2	3	1	3	4	2	3	2	4	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:63978085C>T	uc001nyl.2	+	3	312	c.163C>T	c.(163-165)CGC>TGC	p.R55C	FERMT3_uc001nym.2_Missense_Mutation_p.R55C	NM_178443	NP_848537	Q86UX7	URP2_HUMAN	fermitin family homolog 3 long form	55					integrin activation|leukocyte cell-cell adhesion|platelet aggregation|regulation of cell-cell adhesion mediated by integrin	cell junction|cell projection|podosome	integrin binding			ovary(1)	1						CCCCACAGATCGCAAGCAGGA	0.617													4	118					0	0	1	0	0		T	63978085	T	T	63978085	3	4	27	1	0	0	0	0	1	0	0	0	5833	884	31	1	169	1	FERMT3	11	63978085	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7120	63978085	71028431	5108	27459											
PLCB3	5331	broad.mit.edu	37	chr11	64023979	64023979	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcccggctgctcatcgAaaagtatgagcccaaccagc	11	5	10	15	2	1	1	1	1	0	0	2	2	1	1	4	2	4	3	4	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64023979A>G	uc001nzb.2	+	9	830	c.830A>G	c.(829-831)GAA>GGA	p.E277G	PLCB3_uc009ypg.1_Missense_Mutation_p.E277G|PLCB3_uc009yph.1_Missense_Mutation_p.E210G|PLCB3_uc009ypi.2_Missense_Mutation_p.E277G	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	277					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						CTGCTCATCGAAAAGTATGAG	0.632													6	140					0	0	1	0	0		G	64023979	G	G	64023979	3	3	27	1	0	0	0	0	1	0	0	0	12048	246	9	3	864	3	PLCB3	11	64023979	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	45894	64023979	70982537	5109	27460											
PLCB3	5331	broad.mit.edu	37	chr11	64026012	64026012	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctactatggggctgccgctgCgtggagctggacgtgtggaa	6	9	17	9	3	0	0	0	0	0	0	0	3	0	3	1	5	4	3	1	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64026012C>T	uc001nzb.2	+	11	1080	c.1080C>T	c.(1078-1080)TGC>TGT	p.C360C	PLCB3_uc009ypg.1_Silent_p.C360C|PLCB3_uc009yph.1_Silent_p.C293C|PLCB3_uc009ypi.2_Silent_p.C360C	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	360	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						GCTGCCGCTGCGTGGAGCTGG	0.682													8	69					0	0	1	0	0		T	64026012	T	T	64026012	2	4	27	1	0	0	0	0	0	0	0	1	12048	776	27	1		1	PLCB3	11	64026012	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2033	64026012	70980504	5110	27461											
PLCB3	5331	broad.mit.edu	37	chr11	64031258	64031258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcggactacattcctgacGaccaccagggtgagctgggg	8	7	13	13	2	0	2	0	2	0	0	2	4	1	3	4	4	2	1	4	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64031258G>A	uc001nzb.2	+	21	2551	c.2551G>A	c.(2551-2553)GAC>AAC	p.D851N	PLCB3_uc009ypg.1_Missense_Mutation_p.D851N|PLCB3_uc009yph.1_Missense_Mutation_p.D784N|PLCB3_uc009ypi.2_Missense_Mutation_p.D851N	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	851					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						CATTCCTGACGACCACCAGGG	0.682													18	67					0	0	1	0	0		A	64031258	A	A	64031258	3	1	27	1	0	0	0	0	1	0	0	0	12048	1058	37	1	2633	1	PLCB3	11	64031258	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5246	64031258	70975258	5111	27462											
PLCB3	5331	broad.mit.edu	37	chr11	64032685	64032685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagcgtgatgatctcatcgCcagcatcctctcaggtaggg	8	9	12	12	2	2	2	2	2	2	0	6	2	3	2	2	2	2	3	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64032685C>T	uc001nzb.2	+	24	2828	c.2828C>T	c.(2827-2829)GCC>GTC	p.A943V	PLCB3_uc009ypg.1_Missense_Mutation_p.A943V|PLCB3_uc009yph.1_Missense_Mutation_p.A876V|PLCB3_uc009ypi.2_Missense_Mutation_p.A943V	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	943					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						GATCTCATCGCCAGCATCCTC	0.701													3	11					0	0	1	0	0		T	64032685	T	T	64032685	3	4	27	1	0	0	0	0	1	0	0	0	12048	739	26	2	2922	2	PLCB3	11	64032685	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1427	64032685	70973831	5112	27463											
BAD	572	broad.mit.edu	37	chr11	64037796	64037796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcccgcgctcttcgggCgaggaagtcccttctggtgg	3	10	15	13	4	2	0	0	0	2	0	4	2	3	1	2	4	1	1	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64037796C>T	uc001nzd.2	-	4	474	c.392G>A	c.(391-393)CGC>CAC	p.R131H	BAD_uc001nzc.2_Missense_Mutation_p.R131H|GPR137_uc009ypj.1_5'UTR	NM_032989	NP_116784	Q92934	BAD_HUMAN	BCL2-associated agonist of cell death	131					activation of pro-apoptotic gene products|ADP metabolic process|ATP metabolic process|cellular response to hypoxia|cellular response to mechanical stimulus|cellular response to nicotine|glucose homeostasis|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|pore complex assembly|positive regulation of epithelial cell proliferation|positive regulation of glucokinase activity|positive regulation of insulin secretion|positive regulation of mitochondrial membrane potential|positive regulation of type B pancreatic cell development|regulation of mitochondrial membrane permeability|type B pancreatic cell proliferation	cytosol|mitochondrial outer membrane	caspase activator activity|phospholipid binding|protein kinase binding			central_nervous_system(1)	1						GCTCTTCGGGCGAGGAAGTCC	0.592													7	65					0	0	1	0	0		T	64037796	T	T	64037796	3	4	27	1	0	0	0	0	1	0	0	0	1286	768	27	1	118	1	BAD	11	64037796	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5111	64037796	70968720	5113	27464											
SLC22A12	116085	broad.mit.edu	37	chr11	64367342	64367342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcagggctctgcattctggCcaacacgctggtgccccacg	6	7	13	15	2	2	0	0	0	2	0	2	0	2	0	3	4	3	4	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64367342C>T	uc001oam.1	+	7	2012	c.1265C>T	c.(1264-1266)GCC>GTC	p.A422V	SLC22A12_uc001oal.1_Missense_Mutation_p.A201V|SLC22A12_uc009yps.1_Missense_Mutation_p.A388V|SLC22A12_uc001oan.1_Missense_Mutation_p.A314V|SLC22A12_uc009ypt.2_Missense_Mutation_p.A240V	NM_144585	NP_653186	Q96S37	S22AC_HUMAN	urate anion exchanger 1 isoform a	422	Helical; (Potential).				cellular homeostasis|response to drug|urate metabolic process	apical plasma membrane|brush border membrane|integral to membrane	PDZ domain binding|urate transmembrane transporter activity			ovary(1)	1						TGCATTCTGGCCAACACGCTG	0.677													10	28					0	0	1	0	0		T	64367342	T	T	64367342	3	4	27	1	0	0	0	0	1	0	0	0	14468	739	26	2	1291	2	SLC22A12	11	64367342	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	329546	64367342	70639174	5114	27465											
NRXN2	9379	broad.mit.edu	37	chr11	64453147	64453147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttcgggtgacccggacgtCgtgccaggcgttgtcgttga	4	11	16	10	6	0	2	0	2	0	0	3	3	0	3	2	3	1	3	2	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64453147C>T	uc001oar.2	-	7	1562	c.1123G>A	c.(1123-1125)GAC>AAC	p.D375N	NRXN2_uc001oas.2_Missense_Mutation_p.D351N|NRXN2_uc001oaq.2_Missense_Mutation_p.D49N	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						ACCCGGACGTCGTGCCAGGCG	0.602													18	68					0	0	1	0	0		T	64453147	T	T	64453147	3	4	27	1	0	0	0	0	1	0	0	0	10685	884	31	1	4356	1	NRXN2	11	64453147	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	85805	64453147	70553369	5115	27466											
RASGRP2	10235	broad.mit.edu	37	chr11	64508434	64508434	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcacacgctgtctatgtcGattaggctgctgtgccgtcg	6	11	12	12	5	1	0	0	0	1	0	3	1	1	0	1	1	2	4	1	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64508434G>A	uc009ypu.2	-	5	584	c.357C>T	c.(355-357)ATC>ATT	p.I119I	RASGRP2_uc001oat.2_5'Flank|RASGRP2_uc001oau.2_5'UTR|RASGRP2_uc009ypv.2_Silent_p.I119I|RASGRP2_uc009ypw.2_Silent_p.I119I	NM_001098671	NP_001092141	Q7LDG7	GRP2_HUMAN	RAS guanyl releasing protein 2	119	N-terminal Ras-GEF.				platelet activation|Ras protein signal transduction|regulation of cell growth|regulation of small GTPase mediated signal transduction	cell junction|cytosol|ruffle membrane|synapse|synaptosome	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity				0						TGTCTATGTCGATTAGGCTGC	0.532											OREG0004006	type=REGULATORY REGION|Gene=RASGRP2|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	8	38					0	0	1	0	0		A	64508434	A	A	64508434	2	1	27	1	0	0	0	0	0	0	0	1	13100	1048	37	1		1	RASGRP2	11	64508434	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55287	64508434	70498082	5116	27467											
SF1	7536	broad.mit.edu	37	chr11	64540944	64540944	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccaggtctcctgtgcgcAgtttacgagtcaggtcttct	5	13	11	12	2	4	0	1	0	3	0	5	1	4	0	2	2	3	2	2	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64540944A>G	uc001obb.1	-	3	571	c.194T>C	c.(193-195)CTG>CCG	p.L65P	SF1_uc010rnn.1_Missense_Mutation_p.L39P|SF1_uc001oaz.1_Missense_Mutation_p.L190P|SF1_uc001oba.1_Missense_Mutation_p.L65P|SF1_uc001obc.1_Missense_Mutation_p.L65P|SF1_uc001obd.1_Missense_Mutation_p.L65P|SF1_uc001obe.1_Intron|SF1_uc010rno.1_Intron	NM_004630	NP_004621	Q15637	SF01_HUMAN	splicing factor 1 isoform 1	65					nuclear mRNA 3'-splice site recognition|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ribosome|spliceosomal complex	protein binding|RNA binding|transcription corepressor activity|zinc ion binding			ovary(1)|breast(1)|skin(1)	3						TCCTGTGCGCAGTTTACGAGT	0.433													5	42					0	0	1	0	0		G	64540944	G	G	64540944	3	3	27	1	0	0	0	0	1	0	0	0	14170	188	7	3	1907	3	SF1	11	64540944	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	32510	64540944	70465572	5117	27468											
MAP4K2	5871	broad.mit.edu	37	chr11	64559444	64559444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggacatggaacaggacgcGgcagccgggcccctcaggcc	9	2	15	15	3	1	0	1	0	0	0	1	3	1	3	4	6	2	1	4	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64559444G>A	uc001obh.2	-	27	2121	c.2029C>T	c.(2029-2031)CGC>TGC	p.R677C	MAP4K2_uc001obg.2_RNA|MAP4K2_uc001obi.2_Missense_Mutation_p.R669C	NM_004579	NP_004570	Q12851	M4K2_HUMAN	mitogen-activated protein kinase kinase kinase	677	CNH.				activation of JUN kinase activity|immune response|positive regulation of JNK cascade|vesicle targeting	basolateral plasma membrane|Golgi membrane|soluble fraction	ATP binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(1)|pancreas(1)	2						AACAGGACGCGGCAGCCGGGC	0.697													3	8					0	0	1	0	0		A	64559444	A	A	64559444	3	1	27	1	0	0	0	0	1	0	0	0	9278	1116	39	1	457	1	MAP4K2	11	64559444	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	18500	64559444	70447072	5118	27469											
MAP4K2	5871	broad.mit.edu	37	chr11	64566297	64566297	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctttcccagtagtgtccActcttcctcccactggggga	5	13	8	15	0	1	0	0	0	1	0	6	1	6	1	5	2	0	1	5	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64566297A>G	uc001obh.2	-	15	1158	c.1066T>C	c.(1066-1068)TGG>CGG	p.W356R	MAP4K2_uc001obg.2_5'Flank|MAP4K2_uc001obi.2_Missense_Mutation_p.W356R	NM_004579	NP_004570	Q12851	M4K2_HUMAN	mitogen-activated protein kinase kinase kinase	356					activation of JUN kinase activity|immune response|positive regulation of JNK cascade|vesicle targeting	basolateral plasma membrane|Golgi membrane|soluble fraction	ATP binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(1)|pancreas(1)	2						AGTAGTGTCCACTCTTCCTCC	0.522													12	208					0	0	1	0	0		G	64566297	G	G	64566297	3	3	27	1	0	0	0	0	1	0	0	0	9278	159	6	3	1468	3	MAP4K2	11	64566297	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6853	64566297	70440219	5119	27470											
MAP4K2	5871	broad.mit.edu	37	chr11	64566894	64566894	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggcctgcccactcaccGgctcattcagtgggtcagtt	7	10	10	14	1	5	0	5	0	0	0	5	0	5	0	3	3	1	2	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64566894G>T	uc001obh.2	-	14	1144	c.1052C>A	c.(1051-1053)CCG>CAG	p.P351Q	MAP4K2_uc001obi.2_Missense_Mutation_p.P351Q	NM_004579	NP_004570	Q12851	M4K2_HUMAN	mitogen-activated protein kinase kinase kinase	351					activation of JUN kinase activity|immune response|positive regulation of JNK cascade|vesicle targeting	basolateral plasma membrane|Golgi membrane|soluble fraction	ATP binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(1)|pancreas(1)	2						CCCACTCACCGGCTCATTCAG	0.602													8	77					1.12685e-05	1.21022e-05	1	1	0		T	64566894	T	T	64566894	3	4	27	1	0	0	0	0	1	0	0	0	9278	1130	39	5	1486	5	MAP4K2	11	64566894	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	597	64566894	70439622	5120	27471											
SPDYC	387778	broad.mit.edu	37	chr11	64939752	64939752	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctggtctacttccagcgCgcccacctgaagctcagcga	7	8	11	15	3	2	1	1	1	1	0	3	2	3	1	3	1	5	2	3	1	2	2	rs138896599		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:64939752C>T	uc010rnz.1	+	4	294	c.294C>T	c.(292-294)CGC>CGT	p.R98R		NM_001008778	NP_001008778	Q5MJ68	SPDYC_HUMAN	speedy C	98	Speedy/Ringo box; Required for CDK- binding (By similarity).				cell cycle	nucleus	protein kinase binding				0						ACTTCCAGCGCGCCCACCTGA	0.597													24	78					0	0	1	0	0		T	64939752	T	T	64939752	2	4	27	1	0	0	0	0	0	0	0	1	15053	755	27	1		1	SPDYC	11	64939752	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	372858	64939752	70066764	5121	27472											
POLA2	23649	broad.mit.edu	37	chr11	65049201	65049201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgttgccaccaaactctacGaggtacacagcagtaccccc	11	8	7	15	1	1	0	0	0	1	0	1	1	1	0	4	1	6	4	4	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:65049201G>A	uc001odj.2	+	9	1303	c.961G>A	c.(961-963)GAG>AAG	p.E321K	POLA2_uc010rod.1_Missense_Mutation_p.E113K|POLA2_uc001odk.2_Missense_Mutation_p.E18K	NM_002689	NP_002680	Q14181	DPOA2_HUMAN	DNA-directed DNA polymerase alpha 2	321					DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	nucleoplasm	DNA binding				0					Dacarbazine(DB00851)	CAAACTCTACGAGGTACACAG	0.443													19	57					0	0	1	0	0		A	65049201	A	A	65049201	3	1	27	1	0	0	0	0	1	0	0	0	12207	1059	37	1	995	1	POLA2	11	65049201	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	109449	65049201	69957315	5122	27473											
FRMD8	83786	broad.mit.edu	37	chr11	65178714	65178714	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcccattccctcgcaggCaaggggatcaggcgagtgaa	9	6	12	14	2	1	1	1	1	0	0	4	3	3	2	3	4	0	2	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:65178714C>T	uc001odu.3	+	11	1470	c.1278C>T	c.(1276-1278)GGC>GGT	p.G426G	FRMD8_uc009yqj.2_Silent_p.G370G|FRMD8_uc010rof.1_Silent_p.G392G	NM_031904	NP_114110	Q9BZ67	FRMD8_HUMAN	FERM domain containing 8	426						cytoskeleton	binding			lung(1)|pancreas(1)	2						CCCTCGCAGGCAAGGGGATCA	0.672													5	38					0	0	1	0	0		T	65178714	T	T	65178714	2	4	27	1	0	0	0	0	0	0	0	1	6070	724	25	2		2	FRMD8	11	65178714	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	129513	65178714	69827802	5123	27474											
PCNXL3	399909	broad.mit.edu	37	chr11	65393441	65393441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcttcacacattacctgctgCcacaactccgcaaacagctg	11	9	5	16	1	2	0	1	0	1	0	3	0	3	0	3	0	6	3	3	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:65393441C>T	uc001oey.2	+	20	3295	c.3295C>T	c.(3295-3297)CCA>TCA	p.P1099S	PCNXL3_uc009yqn.2_Missense_Mutation_p.P59S|PCNXL3_uc001oez.2_5'Flank	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1099						integral to membrane					0						TTACCTGCTGCCACAACTCCG	0.612											OREG0021084	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	31					0	0	1	0	0		T	65393441	T	T	65393441	3	4	27	1	0	0	0	0	1	0	0	0	11612	739	26	2	3373	2	PCNXL3	11	65393441	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	214727	65393441	69613075	5124	27475											
PCNXL3	399909	broad.mit.edu	37	chr11	65403965	65403965	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctctgctgcagtggcctccCcctcggctccctggaccacc	3	8	9	21	1	1	0	0	0	1	0	4	1	3	1	7	3	2	3	7	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:65403965C>T	uc001oey.2	+	34	5697	c.5697C>T	c.(5695-5697)CCC>CCT	p.P1899P	PCNXL3_uc001oez.2_Silent_p.P786P	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1899	Gly-rich.					integral to membrane					0						AGTGGCCTCCCCCTCGGCTCC	0.721													11	29					0	0	1	0	0		T	65403965	T	T	65403965	2	4	27	1	0	0	0	0	0	0	0	1	11612	610	22	4		4	PCNXL3	11	65403965	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10524	65403965	69602551	5125	27476											
CTSW	1521	broad.mit.edu	37	chr11	65650817	65650817	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcagagacagtctcatcGcagtctcagcctcagcctcc	8	8	10	15	1	3	1	3	0	2	1	7	2	4	1	3	1	2	2	3	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:65650817G>A	uc001ogc.1	+	9	984	c.942G>A	c.(940-942)TCG>TCA	p.S314S	CTSW_uc001ogb.1_Silent_p.S314S	NM_001335	NP_001326	P56202	CATW_HUMAN	cathepsin W preproprotein	314					immune response|proteolysis		cysteine-type endopeptidase activity			central_nervous_system(1)	1				READ - Rectum adenocarcinoma(159;0.168)		CAGTCTCATCGCAGTCTCAGC	0.592													6	86					0	0	1	0	0		A	65650817	A	A	65650817	2	1	27	1	0	0	0	0	0	0	0	1	4045	1074	38	1		1	CTSW	11	65650817	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	246852	65650817	69355699	5126	27477											
DRAP1	10589	broad.mit.edu	37	chr11	65688892	65688892	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgaagaggacgaagaaGattacgactcctagcgcctt	13	8	11	9	3	0	5	0	2	0	3	1	8	1	6	2	1	2	0	2	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:65688892G>T	uc001ogj.1	+	7	849	c.604G>T	c.(604-606)GAT>TAT	p.D202Y	C11orf68_uc009yqv.2_5'Flank|C11orf68_uc001ogi.2_5'Flank	NM_006442	NP_006433	Q14919	NC2A_HUMAN	DR1-associated protein 1	202					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0				READ - Rectum adenocarcinoma(159;0.166)		GGACGAAGAAGATTACGACTC	0.592													6	90					0.00198382	0.00205548	1	1	0		T	65688892	T	T	65688892	3	4	27	1	0	0	0	0	1	0	0	0	4761	942	33	5	630	5	DRAP1	11	65688892	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	38075	65688892	69317624	5127	27478											
EIF1AD	84285	broad.mit.edu	37	chr11	65767122	65767122	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaccttttctccctcttcaAtggggtcaacaatgagaaag	11	12	7	11	0	5	1	3	1	2	1	6	2	5	1	2	2	1	0	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:65767122A>G	uc001ogm.1	-	4	506	c.221T>C	c.(220-222)ATT>ACT	p.I74T	EIF1AD_uc001ogn.1_Missense_Mutation_p.I74T|BANF1_uc001ogo.2_5'Flank|BANF1_uc001ogp.2_5'Flank	NM_032325	NP_115701	Q8N9N8	EIF1A_HUMAN	eukaryotic translation initiation factor 1A	74	S1-like.					nucleus	translation initiation factor activity				0						TCCCTCTTCAATGGGGTCAAC	0.498													6	58					0	0	1	0	0		G	65767122	G	G	65767122	3	3	27	1	0	0	0	0	1	0	0	0	4997	101	4	3	288	3	EIF1AD	11	65767122	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	78230	65767122	69239394	5128	27479											
BANF1	8815	broad.mit.edu	37	chr11	65771097	65771097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccttttccctgttttgcagGcctatgttgtccttggccag	3	17	9	12	0	0	0	0	0	0	0	3	0	3	0	5	2	1	3	5	2	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:65771097G>A	uc001ogo.2	+	3	632	c.124G>A	c.(124-126)GCC>ACC	p.A42T	EIF1AD_uc001ogm.1_5'Flank|EIF1AD_uc001ogn.1_5'Flank|BANF1_uc001ogp.2_Missense_Mutation_p.A42T	NM_003860	NP_003851	O75531	BAF_HUMAN	barrier to autointegration factor 1	42					initiation of viral infection|interspecies interaction between organisms|provirus integration|response to virus	chromosome|cytosol|nucleoplasm	DNA binding				0						TGTTTTGCAGGCCTATGTTGT	0.532													7	84					0	0	1	0	0		A	65771097	A	A	65771097	3	1	27	1	0	0	0	0	1	0	0	0	1308	1217	42	2	130	2	BANF1	11	65771097	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3975	65771097	69235419	5129	27480											
YIF1A	10897	broad.mit.edu	37	chr11	66052412	66052412	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcgctgccgaacagcaGccccgtgagcacactgagga	10	4	12	15	3	0	2	0	2	0	0	1	4	0	3	4	1	5	3	4	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66052412G>A	uc001ohk.3	-	7	849	c.667C>T	c.(667-669)CTG>TTG	p.L223L	YIF1A_uc001ohj.2_Silent_p.L80L	NM_020470	NP_065203	O95070	YIF1A_HUMAN	Yip1 interacting factor homolog	223	Helical; (Potential).				protein transport|vesicle-mediated transport	centrosome|endoplasmic reticulum membrane|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane					0						CCGAACAGCAGCCCCGTGAGC	0.632													4	45					0	0	1	0	0		A	66052412	A	A	66052412	2	1	27	1	0	0	0	0	0	0	0	1	17501	962	34	2		2	YIF1A	11	66052412	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	281315	66052412	68954104	5130	27481											
BRMS1	25855	broad.mit.edu	37	chr11	66106244	66106244	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatctcttgaagcatgtacAcgatgtatgggcctgtggtg	8	12	13	8	2	1	1	0	1	1	0	2	3	1	1	1	2	2	3	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66106244A>C	uc001ohp.1	-	8	788	c.641T>G	c.(640-642)GTG>GGG	p.V214G	RIN1_uc009yrd.1_5'Flank|RIN1_uc001ohn.1_5'Flank|RIN1_uc010roz.1_5'Flank|RIN1_uc010rpa.1_5'Flank|BRMS1_uc001oho.1_Missense_Mutation_p.V214G|BRMS1_uc009yre.2_Missense_Mutation_p.V46G	NM_015399	NP_056214	Q9HCU9	BRMS1_HUMAN	breast cancer metastasis suppressor 1 isoform 1	214					apoptosis|negative regulation of anti-apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of anoikis|positive regulation of protein deacetylation|transcription, DNA-dependent	cytoplasm|nucleus	NF-kappaB binding				0						AAGCATGTACACGATGTATGG	0.602													4	46					0	0	1	0	0		C	66106244	C	C	66106244	3	2	27	1	0	0	0	0	1	0	0	0	1519	159	6	5	255	5	BRMS1	11	66106244	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	53832	66106244	68900272	5131	27482											
NPAS4	266743	broad.mit.edu	37	chr11	66190621	66190621	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctacctgggctttgagcgCagtgaactgctttgtaaatc	9	13	10	9	1	1	2	0	2	1	0	2	2	1	2	1	1	4	4	1	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66190621C>T	uc001ohx.1	+	5	902	c.726C>T	c.(724-726)CGC>CGT	p.R242R	NPAS4_uc010rpc.1_Intron	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	242	PAS 2.				transcription, DNA-dependent		DNA binding|signal transducer activity				0						GCTTTGAGCGCAGTGAACTGC	0.542													3	21					0	0	1	0	0		T	66190621	T	T	66190621	2	4	27	1	0	0	0	0	0	0	0	1	10584	697	25	2		2	NPAS4	11	66190621	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	84377	66190621	68815895	5132	27483											
BBS1	582	broad.mit.edu	37	chr11	66288771	66288771	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgtccccgtcttcctaGaggtttctggccagtttgat	5	13	10	13	2	2	2	0	1	2	1	4	2	4	2	5	2	1	2	5	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66288771G>T	uc001oij.1	+	9	766	c.754G>T	c.(754-756)GAG>TAG	p.E252*	BBS1_uc001oii.1_Nonsense_Mutation_p.E289*|BBS1_uc010rpf.1_RNA|BBS1_uc010rpg.1_Nonsense_Mutation_p.E155*|BBS1_uc001oik.1_Nonsense_Mutation_p.E176*|BBS1_uc001oil.1_Intron|ZDHHC24_uc001oim.1_RNA|ZDHHC24_uc009yrg.1_3'UTR|BBS1_uc010rph.1_5'Flank	NM_024649	NP_078925	Q8NFJ9	BBS1_HUMAN	Bardet-Biedl syndrome 1	252					nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	BBSome|cilium membrane|cytoplasm	protein binding			ovary(1)	1						CGTCTTCCTAGAGGTTTCTGG	0.562									Bardet-Biedl_syndrome				7	92					0.00198382	0.00205548	1	1	0		T	66288771	T	T	66288771	4	4	27	1	0	0	0	0	0	1	0	0	1336	943	33	5	788	5	BBS1	11	66288771	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	98150	66288771	68717745	5133	27484											
CCDC87	55231	broad.mit.edu	37	chr11	66357969	66357969	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgagctcctgaacagggTtgactggtggggatccttca	7	11	14	9	0	1	3	1	3	0	0	3	4	3	4	2	4	3	3	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66357969T>A	uc001oiq.3	-	1	2586	c.2518A>T	c.(2518-2520)ACC>TCC	p.T840S	CCS_uc001oir.2_5'Flank	NM_018219	NP_060689	Q9NVE4	CCD87_HUMAN	coiled-coil domain containing 87	840										ovary(1)|skin(1)	2						CTGAACAGGGTTGACTGGTGG	0.577													15	127					0	0	1	0	0		A	66357969	A	A	66357969	3	1	27	1	0	0	0	0	1	0	0	0	2865	1725	60	5	35	5	CCDC87	11	66357969	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	69198	66357969	68648547	5134	27485											
RBM4	5936	broad.mit.edu	37	chr11	66411054	66411054	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatagatcgttcaggccgCgtggcagacttgaccgagca	9	7	13	12	5	1	3	1	1	0	2	2	5	1	3	3	2	1	3	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66411054C>A	uc009yrj.2	+	3	1034	c.546C>A	c.(544-546)CGC>CGA	p.R182R	RBM4_uc009yrk.2_Silent_p.R157R|RBM4_uc001oiw.1_Silent_p.R182R|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Silent_p.R182R|RBM4_uc001oiz.1_Silent_p.R182R	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	182					circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		GTTCAGGCCGCGTGGCAGACT	0.557													6	36					0.217242	0.218248	1	1	0		A	66411054	A	A	66411054	2	1	27	1	0	0	0	0	0	0	0	1	13159	755	27	5		5	RBM4	11	66411054	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	53085	66411054	68595462	5135	27486											
RBM4B	83759	broad.mit.edu	37	chr11	66436194	66436194	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgcggaagcctgagataaTtcactctctggcccataacc	10	9	9	13	1	2	1	1	1	1	1	3	3	2	2	3	2	3	1	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66436194T>C	uc001oja.2	-	2	1650	c.981A>G	c.(979-981)GAA>GAG	p.E327E	RBM4B_uc001ojb.2_Silent_p.E327E	NM_031492	NP_113680	Q9BQ04	RBM4B_HUMAN	RNA binding motif protein 4B	327	Interaction with TNPO3 (By similarity).				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|RNA splicing	nucleolus	nucleotide binding|RNA binding|zinc ion binding				0						CCTGAGATAATTCACTCTCTG	0.557													3	58					0	0	1	0	0		C	66436194	C	C	66436194	2	2	27	1	0	0	0	0	0	0	0	1	13167	1490	52	3		3	RBM4B	11	66436194	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25140	66436194	68570322	5136	27487											
RBM4B	83759	broad.mit.edu	37	chr11	66444271	66444271	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctcaaacttggctcgaaGctcttggttggtacaagtgg	8	12	11	10	1	2	0	1	0	1	0	4	1	3	0	1	4	3	4	1	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66444271G>T	uc001oja.2	-	1	949	c.280C>A	c.(280-282)CTT>ATT	p.L94I	RBM4B_uc001ojb.2_Missense_Mutation_p.L94I	NM_031492	NP_113680	Q9BQ04	RBM4B_HUMAN	RNA binding motif protein 4B	94	RRM 2.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|RNA splicing	nucleolus	nucleotide binding|RNA binding|zinc ion binding				0						TTGGCTCGAAGCTCTTGGTTG	0.502													17	243					2.94398e-08	3.23229e-08	1	1	0		T	66444271	T	T	66444271	3	4	27	1	0	0	0	0	1	0	0	0	13167	971	34	5	807	5	RBM4B	11	66444271	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8077	66444271	68562245	5137	27488											
SPTBN2	6712	broad.mit.edu	37	chr11	66453564	66453564	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaccacccgtagccacgaGctcatctctgcctgtggatg	7	10	9	15	2	3	0	2	0	1	0	4	2	3	1	4	1	3	2	4	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66453564G>A	uc001ojd.2	-	37	7023	c.6951C>T	c.(6949-6951)AGC>AGT	p.S2317S	SPTBN2_uc001ojc.1_3'UTR	NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	2317	PH.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GTAGCCACGAGCTCATCTCTG	0.602													6	18					0	0	1	0	0		A	66453564	A	A	66453564	2	1	27	1	0	0	0	0	0	0	0	1	15145	962	34	2		2	SPTBN2	11	66453564	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9293	66453564	68552952	5138	27489											
SPTBN2	6712	broad.mit.edu	37	chr11	66476409	66476409	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagccggccctcgcggggCgtgtagaccttctggttgtt	4	11	15	11	4	1	2	0	1	1	1	2	2	1	2	3	4	1	3	3	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66476409C>T	uc001ojd.2	-	10	1227	c.1155G>A	c.(1153-1155)ACG>ACA	p.T385T		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	385	Spectrin 1.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCTCGCGGGGCGTGTAGACCT	0.627													8	76					0	0	1	0	0		T	66476409	T	T	66476409	2	4	27	1	0	0	0	0	0	0	0	1	15145	755	27	1		1	SPTBN2	11	66476409	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	22845	66476409	68530107	5139	27490											
C11orf80	79703	broad.mit.edu	37	chr11	66555668	66555668	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccggaatctctgcaaagctGacttggacttcagaggaagg	11	8	12	10	1	2	2	1	1	1	1	3	5	2	5	1	4	2	2	1	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66555668G>A	uc001ojf.2	+	5	568	c.561G>A	c.(559-561)CTG>CTA	p.L187L	C11orf80_uc001ojg.2_5'UTR|C11orf80_uc001ojh.2_Intron|C11orf80_uc001oji.2_5'UTR|C11orf80_uc010rpk.1_Silent_p.L21L	NM_024650	NP_078926	Q8N6T0	CK080_HUMAN	hypothetical protein LOC79703	32											0						CTGCAAAGCTGACTTGGACTT	0.428													9	85					0	0	1	0	0		A	66555668	A	A	66555668	2	1	27	1	0	0	0	0	0	0	0	1	1667	1277	45	4		4	C11orf80	11	66555668	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	79259	66555668	68450848	5140	27491											
RCE1	9986	broad.mit.edu	37	chr11	66613379	66613379	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttccttctgcaattacatggGtttcccagctgtttgcgcgg	5	15	10	11	2	1	0	0	0	1	0	3	0	3	0	2	2	4	4	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66613379G>T	uc001ojk.1	+	8	847	c.803G>T	c.(802-804)GGT>GTT	p.G268V	RCE1_uc001ojl.1_Missense_Mutation_p.G164V	NM_005133	NP_005124	Q9Y256	FACE2_HUMAN	prenyl protein peptidase RCE1 isoform 1	268	Helical; (Potential).				proteolysis	endoplasmic reticulum membrane|integral to plasma membrane	metalloendopeptidase activity			ovary(1)|breast(1)	2						AATTACATGGGTTTCCCAGCT	0.622													8	104					0.00448238	0.00462772	1	1	0		T	66613379	T	T	66613379	3	4	27	1	0	0	0	0	1	0	0	0	13201	1261	44	5	833	5	RCE1	11	66613379	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	57711	66613379	68393137	5141	27492											
PC	5091	broad.mit.edu	37	chr11	66617874	66617874	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgtgcagtcgaaggccgcGtacagtccccgagccccctc	6	5	12	18	5	0	0	0	0	0	0	3	2	1	0	6	1	3	2	6	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:66617874G>A	uc001ojn.1	-	17	2584	c.2535C>T	c.(2533-2535)TAC>TAT	p.Y845Y	PC_uc001ojo.1_Silent_p.Y845Y|PC_uc001ojp.1_Silent_p.Y845Y|PC_uc001ojm.1_5'Flank	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	845					gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	CGAAGGCCGCGTACAGTCCCC	0.597													15	62					0	0	1	0	0		A	66617874	A	A	66617874	2	1	27	1	0	0	0	0	0	0	0	1	11516	1140	40	1		1	PC	11	66617874	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4495	66617874	68388642	5142	27493											
KDM2A	22992	broad.mit.edu	37	chr11	67017889	67017889	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaagccaagatccggggAtcgtacctcactgtcacgct	11	7	11	12	3	2	2	2	0	0	2	4	4	3	3	3	2	2	2	3	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:67017889A>T	uc001ojw.2	+	17	3252	c.2388A>T	c.(2386-2388)GGA>GGT	p.G796G	KDM2A_uc001ojx.2_Intron|KDM2A_uc001ojy.2_Silent_p.G490G|KDM2A_uc010rpn.1_Silent_p.G357G|KDM2A_uc001ojz.1_Silent_p.G254G|KDM2A_uc001oka.2_5'Flank	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	796					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						AGATCCGGGGATCGTACCTCA	0.582													6	57					0	0	1	0	0		T	67017889	T	T	67017889	2	4	27	1	0	0	0	0	0	0	0	1	8140	320	12	5		5	KDM2A	11	67017889	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	400015	67017889	67988627	5143	27494											
RPS6KB2	6199	broad.mit.edu	37	chr11	67201901	67201901	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcttcacacggcagacgccGgtggacagtcctgatgacac	9	6	12	14	4	1	3	1	2	0	1	2	4	2	4	2	3	0	2	2	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:67201901G>A	uc001old.2	+	13	1183	c.1101G>A	c.(1099-1101)CCG>CCA	p.P367P	RPS6KB2_uc001olf.2_Silent_p.P167P|RPS6KB2_uc001olg.2_Silent_p.P367P|RPS6KB2_uc009yrq.2_Silent_p.P167P|RPS6KB2_uc001ole.2_RNA|RPS6KB2_uc001olh.2_RNA|RPS6KB2_uc009yrr.2_Silent_p.P198P	NM_003952	NP_003943	Q9UBS0	KS6B2_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	367	AGC-kinase C-terminal.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of translational initiation|translation	nucleoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|stomach(1)|lung(1)|salivary_gland(1)	7			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			GGCAGACGCCGGTGGACAGTC	0.647													7	26					0	0	1	0	0		A	67201901	A	A	67201901	2	1	27	1	0	0	0	0	0	0	0	1	13682	1103	39	1		1	RPS6KB2	11	67201901	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	184012	67201901	67804615	5144	27495											
PITPNM1	9600	broad.mit.edu	37	chr11	67270088	67270088	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcccacgtggtacaccttGtgtgtgtattgcccgctgcc	5	11	12	13	2	0	0	0	0	0	0	0	1	0	0	4	1	4	3	4	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:67270088G>A	uc001olx.2	-	2	369	c.180C>T	c.(178-180)CAC>CAT	p.H60H	PITPNM1_uc001oly.2_Silent_p.H60H|PITPNM1_uc001olz.2_Silent_p.H60H	NM_004910	NP_004901	O00562	PITM1_HUMAN	phosphatidylinositol transfer protein,	60					brain development|lipid metabolic process|phototransduction|protein transport	cleavage furrow|endoplasmic reticulum membrane|Golgi cisterna membrane|lipid particle|membrane fraction|midbody	metal ion binding|phosphatidylinositol transporter activity			lung(2)|central_nervous_system(1)	3						GGTACACCTTGTGTGTGTATT	0.642													17	73					0	0	1	0	0		A	67270088	A	A	67270088	2	1	27	1	0	0	0	0	0	0	0	1	11969	1368	48	4		4	PITPNM1	11	67270088	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	68187	67270088	67736428	5145	27496											
ALDH3B2	222	broad.mit.edu	37	chr11	67432984	67432984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggccacgcaggtctggcCggcattgaagtagcagaacc	10	5	15	11	2	1	2	0	1	1	1	1	2	1	2	3	5	2	4	3	5	3	2	rs149584817	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:67432984C>T	uc001omr.2	-	7	917	c.478G>A	c.(478-480)GGC>AGC	p.G160S	ALDH3B2_uc001oms.2_Missense_Mutation_p.G160S|ALDH3B2_uc009ysa.1_Missense_Mutation_p.G160S	NM_000695	NP_000686	P48448	AL3B2_HUMAN	aldehyde dehydrogenase 3B2	160					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase			lung(1)|kidney(1)	2					NADH(DB00157)	CAGGTCTGGCCGGCATTGAAG	0.657													12	132					0	0	1	0	0		T	67432984	T	T	67432984	3	4	27	1	0	0	0	0	1	0	0	0	500	652	23	1	695	1	ALDH3B2	11	67432984	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	162896	67432984	67573532	5146	27497											
NDUFS8	4728	broad.mit.edu	37	chr11	67799623	67799623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttttatgccaccagatgcGctgcctgaccacgcctatgc	7	11	8	15	2	0	2	0	1	0	1	0	2	0	2	5	0	4	1	5	0	2	4	rs139334907	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:67799623G>A	uc001onc.2	+	2	112	c.5G>A	c.(4-6)CGC>CAC	p.R2H	NDUFS8_uc010rpz.1_Missense_Mutation_p.R2H|NDUFS8_uc009ysb.1_Intron|NDUFS8_uc009ysc.1_Missense_Mutation_p.R2H	NM_002496	NP_002487	O00217	NDUS8_HUMAN	NADH dehydrogenase ubiquinone Fe-S 8 precursor	2					mitochondrial electron transport, NADH to ubiquinone|mitochondrial respiratory chain complex I assembly|response to oxidative stress|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity			skin(1)	1					NADH(DB00157)	CACCAGATGCGCTGCCTGACC	0.602													35	82					0	0	1	0	0		A	67799623	A	A	67799623	3	1	27	1	0	0	0	0	1	0	0	0	10317	1087	38	1	7	1	NDUFS8	11	67799623	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	366639	67799623	67206893	5147	27498											
NDUFS8	4728	broad.mit.edu	37	chr11	67804031	67804031	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggccgagatcgccgccAacatccaggctgactacttg	9	6	13	13	3	0	2	0	1	0	1	2	4	1	3	4	3	2	1	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:67804031A>G	uc001onc.2	+	7	711	c.604A>G	c.(604-606)AAC>GAC	p.N202D	NDUFS8_uc009ysb.1_RNA|NDUFS8_uc009ysc.1_3'UTR|TCIRG1_uc001ond.1_5'Flank|TCIRG1_uc001one.2_5'Flank	NM_002496	NP_002487	O00217	NDUS8_HUMAN	NADH dehydrogenase ubiquinone Fe-S 8 precursor	202					mitochondrial electron transport, NADH to ubiquinone|mitochondrial respiratory chain complex I assembly|response to oxidative stress|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity			skin(1)	1					NADH(DB00157)	GATCGCCGCCAACATCCAGGC	0.592													3	27					0	0	1	0	0		G	67804031	G	G	67804031	3	3	27	1	0	0	0	0	1	0	0	0	10317	130	5	3	626	3	NDUFS8	11	67804031	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4408	67804031	67202485	5148	27499											
C11orf24	53838	broad.mit.edu	37	chr11	68031218	68031218	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggagaaaatccaaatgagCacaagagctgtccacatctt	17	7	8	9	0	1	3	0	1	1	2	3	4	3	3	2	1	2	2	2	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:68031218C>T	uc001onr.3	-	3	460	c.18G>A	c.(16-18)GTG>GTA	p.V6V	C11orf24_uc001ons.2_Silent_p.V6V	NM_022338	NP_071733	Q96F05	CK024_HUMAN	hypothetical protein LOC53838 precursor	6						integral to membrane					0						TCCAAATGAGCACAAGAGCTG	0.577													8	38					0	0	1	0	0		T	68031218	T	T	68031218	2	4	27	1	0	0	0	0	0	0	0	1	1638	697	25	2		2	C11orf24	11	68031218	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	227187	68031218	66975298	5149	27500											
IGHMBP2	3508	broad.mit.edu	37	chr11	68682445	68682445	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttttagcgcggagcgacaGtgcccagattgttgcagata	9	10	14	8	3	0	2	0	0	0	2	0	4	0	3	1	2	4	3	1	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:68682445G>C	uc001ook.1	+	6	968	c.866G>C	c.(865-867)AGT>ACT	p.S289T	IGHMBP2_uc001ooj.1_RNA	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	289	Leu-rich.				cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CGGAGCGACAGTGCCCAGATT	0.582													3	68					0	0	1	0	0		C	68682445	C	C	68682445	3	2	27	1	0	0	0	0	1	0	0	0	7607	1029	36	5	888	5	IGHMBP2	11	68682445	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	651227	68682445	66324071	5150	27501											
ANO1	55107	broad.mit.edu	37	chr11	70007370	70007370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccgtgcggtccaacatccGggtcacagtcacagccaccg	8	6	10	17	4	2	0	2	0	0	0	5	0	5	0	5	2	3	0	5	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:70007370G>A	uc001opj.2	+	17	1987	c.1682G>A	c.(1681-1683)CGG>CAG	p.R561Q	ANO1_uc001opk.1_Missense_Mutation_p.R503Q|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.R270Q	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	561	Extracellular (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						TCCAACATCCGGGTCACAGTC	0.587													19	67					0	0	1	0	0		A	70007370	A	A	70007370	3	1	27	1	0	0	0	0	1	0	0	0	695	1116	39	1	1748	1	ANO1	11	70007370	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1324925	70007370	64999146	5151	27502											
NADSYN1	55191	broad.mit.edu	37	chr11	71209571	71209571	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtttcggtgcatagaaaaTcaggtaaatccagcagaaat	16	9	9	7	1	1	2	1	0	0	2	3	2	2	2	1	2	2	4	1	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:71209571T>A	uc001oqn.2	+	20	2193	c.2067T>A	c.(2065-2067)AAT>AAA	p.N689K	NADSYN1_uc001oqo.2_Missense_Mutation_p.N429K|NADSYN1_uc001oqp.2_Missense_Mutation_p.N318K	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	689	Ligase (By similarity).				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GCATAGAAAATCAGGTAAATC	0.428													9	90					0	0	1	0	0		A	71209571	A	A	71209571	3	1	27	1	0	0	0	0	1	0	0	0	10156	1432	50	5	2145	5	NADSYN1	11	71209571	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1202201	71209571	63796945	5152	27503											
KRTAP5-10	387273	broad.mit.edu	37	chr11	71276712	71276712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgggggctgtggctccGgctgtgggggctatggctct	1	11	20	9	1	1	0	0	0	1	0	2	0	2	0	1	7	0	6	1	7	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:71276712G>A	uc001oqt.1	+	1	104	c.79G>A	c.(79-81)GGC>AGC	p.G27S		NM_001012710	NP_001012728	Q6L8G5	KR510_HUMAN	keratin associated protein 5-10	27						keratin filament				skin(1)	1						CTGTGGCTCCGGCTGTGGGGG	0.672													16	93					0	0	1	0	0		A	71276712	A	A	71276712	3	1	27	1	0	0	0	0	1	0	0	0	8575	1116	39	1	81	1	KRTAP5-10	11	71276712	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	67141	71276712	63729804	5153	27504											
FOLR2	2350	broad.mit.edu	37	chr11	71932594	71932594	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgccctttgtgaaggcCtctggagtcactcatacaag	9	10	10	12	0	3	1	2	1	1	0	3	2	3	2	2	2	3	1	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:71932594C>A	uc009ytd.2	+	5	725	c.556C>A	c.(556-558)CTC>ATC	p.L186I	FOLR2_uc009yte.2_Missense_Mutation_p.L186I|FOLR2_uc001ose.3_Missense_Mutation_p.L186I|FOLR2_uc009ytf.2_Missense_Mutation_p.L186I	NM_001113534	NP_001107006	P14207	FOLR2_HUMAN	folate receptor 2 precursor	186					folic acid transport	anchored to membrane|extracellular region|membrane fraction|plasma membrane	folic acid binding|receptor activity			breast(2)|ovary(1)	3					Folic Acid(DB00158)	TTGTGAAGGCCTCTGGAGTCA	0.587													20	141					4.96729e-08	5.44498e-08	1	1	0		A	71932594	A	A	71932594	3	1	27	1	0	0	0	0	1	0	0	0	5996	681	24	5	570	5	FOLR2	11	71932594	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	655882	71932594	63073922	5154	27505											
INPPL1	3636	broad.mit.edu	37	chr11	71942175	71942175	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactcagtgggcgaccgcgAgtggctggacctactgcgcg	7	6	16	12	5	1	0	1	0	0	0	1	4	1	1	2	3	3	1	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:71942175A>G	uc001osf.2	+	12	1586	c.1439A>G	c.(1438-1440)GAG>GGG	p.E480G	INPPL1_uc001osg.2_Missense_Mutation_p.E238G	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	480					actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						GGCGACCGCGAGTGGCTGGAC	0.607													22	236					0	0	1	0	0		G	71942175	G	G	71942175	3	3	27	1	0	0	0	0	1	0	0	0	7777	304	11	3	1485	3	INPPL1	11	71942175	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	9581	71942175	63064341	5155	27506											
INPPL1	3636	broad.mit.edu	37	chr11	71942618	71942618	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagaaccgtatcagccatgTcagtacgtccagtgtgaaga	12	8	11	10	3	2	3	2	1	0	2	3	4	3	3	3	0	3	2	3	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:71942618T>C	uc001osf.2	+	13	1721	c.1574T>C	c.(1573-1575)GTC>GCC	p.V525A	INPPL1_uc001osg.2_Missense_Mutation_p.V283A	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	525					actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						ATCAGCCATGTCAGTACGTCC	0.562													6	57					0	0	1	0	0		C	71942618	C	C	71942618	3	2	27	1	0	0	0	0	1	0	0	0	7777	1667	58	3	1624	3	INPPL1	11	71942618	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	443	71942618	63063898	5156	27507											
INPPL1	3636	broad.mit.edu	37	chr11	71946494	71946494	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacccgtgagcggctctaCggtggggactccactgggac	6	6	16	13	3	1	1	0	1	1	0	2	3	2	3	2	6	2	2	2	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:71946494C>T	uc001osf.2	+	23	2805	c.2658C>T	c.(2656-2658)TAC>TAT	p.Y886Y	INPPL1_uc001osg.2_Silent_p.Y644Y	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	886					actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						AGCGGCTCTACGGTGGGGACT	0.617													32	103					0	0	1	0	0		T	71946494	T	T	71946494	2	4	27	1	0	0	0	0	0	0	0	1	7777	550	19	1		1	INPPL1	11	71946494	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3876	71946494	63060022	5157	27508											
PDE2A	5138	broad.mit.edu	37	chr11	72295608	72295608	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgcgcaccctggttctcgttCttgatggggaagcagaggat	7	10	14	10	3	2	2	0	1	2	1	3	4	2	4	1	4	1	4	1	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:72295608C>T	uc010rrc.1	-	18	1767	c.1524G>A	c.(1522-1524)AAG>AAA	p.K508K	PDE2A_uc001oso.2_Silent_p.K487K|PDE2A_uc010rra.1_Silent_p.K501K|PDE2A_uc001osn.2_Silent_p.K252K|PDE2A_uc010rrb.1_Silent_p.K499K|PDE2A_uc010rrd.1_Silent_p.K393K	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	508	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	GGTTCTCGTTCTTGATGGGGA	0.493													4	14					0	0	1	0	0		T	72295608	T	T	72295608	2	4	27	1	0	0	0	0	0	0	0	1	11655	912	32	4		4	PDE2A	11	72295608	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	349114	72295608	62710908	5158	27509											
FCHSD2	9873	broad.mit.edu	37	chr11	72554356	72554356	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctggcacataacccacttgGccaactttatttcgagcctg	9	12	7	13	1	1	0	0	0	1	0	2	1	1	0	3	2	3	1	3	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:72554356G>A	uc009ytl.2	-	16	1766	c.1545C>T	c.(1543-1545)GGC>GGT	p.G515G	FCHSD2_uc010rrg.1_Silent_p.G379G|FCHSD2_uc001oth.3_Silent_p.G459G|FCHSD2_uc001oti.2_Silent_p.G474G|ATG16L2_uc009ytj.1_3'UTR	NM_014824	NP_055639	O94868	FCSD2_HUMAN	FCH and double SH3 domains 2	515	SH3 1.						protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(5;3.3e-05)			AACCCACTTGGCCAACTTTAT	0.463													4	95					0	0	1	0	0		A	72554356	A	A	72554356	2	1	27	1	0	0	0	0	0	0	0	1	5804	1190	42	2		2	FCHSD2	11	72554356	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	258748	72554356	62452160	5159	27510											
P4HA3	283208	broad.mit.edu	37	chr11	74009355	74009355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcctcggaagagactgacagCctcctccagccatggaatgg	10	7	11	13	1	0	2	0	1	0	1	4	5	3	4	5	3	2	0	5	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:74009355C>T	uc001ouz.2	-	4	662	c.619G>A	c.(619-621)GCT>ACT	p.A207T	P4HA3_uc001ouy.3_RNA|P4HA3_uc010rrj.1_Missense_Mutation_p.A207T	NM_182904	NP_878907	Q7Z4N8	P4HA3_HUMAN	prolyl 4-hydroxylase, alpha III subunit	207						endoplasmic reticulum lumen	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			skin(1)	1	Breast(11;2.31e-05)					AGACTGACAGCCTCCTCCAGC	0.498													13	141					0	0	1	0	0		T	74009355	T	T	74009355	3	4	27	1	0	0	0	0	1	0	0	0	11377	739	26	2	1055	2	P4HA3	11	74009355	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1454999	74009355	60997161	5160	27511											
POLD3	10714	broad.mit.edu	37	chr11	74315765	74315765	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgattatgttgaaaggaaaCgaaaagaaaattcaggagcc	19	8	10	4	1	1	3	1	2	0	1	1	6	1	5	1	2	2	1	1	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:74315765C>T	uc001ovf.1	+	3	220	c.145C>T	c.(145-147)CGA>TGA	p.R49*	POLD3_uc009yua.1_Intron	NM_006591	NP_006582	Q15054	DPOD3_HUMAN	DNA-directed DNA polymerase delta 3	49					base-excision repair|DNA strand elongation involved in DNA replication|DNA synthesis involved in DNA repair|mismatch repair|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm	DNA-directed DNA polymerase activity|protein binding			kidney(2)|ovary(1)	3	Breast(11;3.21e-06)					TGAAAGGAAACGAAAAGAAAA	0.378													12	53					0	0	1	0	0		T	74315765	T	T	74315765	4	4	27	1	0	0	0	0	0	1	0	0	12211	528	19	1	155	1	POLD3	11	74315765	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	306410	74315765	60690751	5161	27512											
POLD3	10714	broad.mit.edu	37	chr11	74347275	74347275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaacaaaagaaaacgaaaaCgcgtactaaaatctaaaact	25	5	4	7	3	1	1	0	0	1	1	1	2	1	1	0	0	5	1	0	0	13	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:74347275C>T	uc001ovf.1	+	11	1228	c.1153C>T	c.(1153-1155)CGC>TGC	p.R385C	POLD3_uc009yua.1_Missense_Mutation_p.R279C	NM_006591	NP_006582	Q15054	DPOD3_HUMAN	DNA-directed DNA polymerase delta 3	385					base-excision repair|DNA strand elongation involved in DNA replication|DNA synthesis involved in DNA repair|mismatch repair|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm	DNA-directed DNA polymerase activity|protein binding			kidney(2)|ovary(1)	3	Breast(11;3.21e-06)					AAAACGAAAACGCGTACTAAA	0.358													4	89					0	0	1	0	0		T	74347275	T	T	74347275	3	4	27	1	0	0	0	0	1	0	0	0	12211	536	19	1	1195	1	POLD3	11	74347275	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31510	74347275	60659241	5162	27513											
POLD3	10714	broad.mit.edu	37	chr11	74351624	74351624	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accagtgactgaaaaagtctAcgagagtgaatcctgcacag	15	7	10	9	1	1	4	0	3	1	1	2	5	2	4	2	0	2	1	2	0	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:74351624A>G	uc001ovf.1	+	12	1289	c.1214A>G	c.(1213-1215)TAC>TGC	p.Y405C	POLD3_uc009yua.1_Missense_Mutation_p.Y299C	NM_006591	NP_006582	Q15054	DPOD3_HUMAN	DNA-directed DNA polymerase delta 3	405					base-excision repair|DNA strand elongation involved in DNA replication|DNA synthesis involved in DNA repair|mismatch repair|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm	DNA-directed DNA polymerase activity|protein binding			kidney(2)|ovary(1)	3	Breast(11;3.21e-06)					GAAAAAGTCTACGAGAGTGAA	0.438													6	233					0	0	1	0	0		G	74351624	G	G	74351624	3	3	27	1	0	0	0	0	1	0	0	0	12211	391	14	3	1260	3	POLD3	11	74351624	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4349	74351624	60654892	5163	27514											
CHRDL2	25884	broad.mit.edu	37	chr11	74421942	74421942	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaggcgggaggggaacagCtcatgggcactgaagatctc	10	5	17	9	1	2	2	1	1	1	1	3	4	2	4	0	6	2	3	0	6	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:74421942C>T	uc001ovi.2	-	4	637	c.384G>A	c.(382-384)GAG>GAA	p.E128E	CHRDL2_uc001ovg.2_Silent_p.E12E|CHRDL2_uc001ovh.2_Silent_p.E128E|CHRDL2_uc001ovk.1_Silent_p.E128E			Q6WN34	CRDL2_HUMAN	RecName: Full=Chordin-like protein 2; AltName: Full=Chordin-related protein 2; AltName: Full=Breast tumor novel factor 1;          Short=BNF-1; Flags: Precursor;	128	VWFC 2.				cartilage development|cell differentiation|ossification	extracellular region|mitochondrion					0	Hepatocellular(1;0.098)					AGGGGAACAGCTCATGGGCAC	0.607													4	35					0	0	1	0	0		T	74421942	T	T	74421942	2	4	27	1	0	0	0	0	0	0	0	1	3377	796	28	2		2	CHRDL2	11	74421942	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	70318	74421942	60584574	5164	27515											
XRRA1	143570	broad.mit.edu	37	chr11	74570275	74570275	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggttcctggccttcagTgacttcacaggaaggatctc	7	12	11	11	0	4	1	2	1	2	0	6	3	5	3	2	4	0	1	2	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:74570275T>C	uc009yub.2	-	12	1406	c.1074A>G	c.(1072-1074)TCA>TCG	p.S358S	XRRA1_uc001ovm.2_Intron|XRRA1_uc001ovn.2_Intron|XRRA1_uc001ovo.2_Intron|XRRA1_uc001ovq.3_Intron|XRRA1_uc001ovp.3_Intron|XRRA1_uc001ovr.2_Intron|XRRA1_uc001ovt.2_Missense_Mutation_p.T112A|XRRA1_uc001ovs.1_Intron	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	358					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						TGGCCTTCAGTGACTTCACAG	0.463													3	33					0	0	1	0	0		C	74570275	C	C	74570275	2	2	27	1	0	0	0	0	0	0	0	1	17487	1683	59	3		3	XRRA1	11	74570275	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	148333	74570275	60436241	5165	27516											
ARRB1	408	broad.mit.edu	37	chr11	74993028	74993028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccccgtgtcttcgggccccGgctgcagtgtcacagaacat	6	9	11	15	3	2	1	1	0	1	1	4	1	3	1	4	2	2	2	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:74993028G>A	uc001owe.1	-	6	614	c.392C>T	c.(391-393)CCG>CTG	p.P131L	ARRB1_uc001owf.1_Missense_Mutation_p.P131L	NM_004041	NP_004032	P49407	ARRB1_HUMAN	arrestin beta 1 isoform A	131	Interaction with SRC (By similarity).				G-protein coupled receptor internalization|histone H4 acetylation|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|platelet activation|positive regulation of ERK1 and ERK2 cascade|positive regulation of histone acetylation|positive regulation of Rho protein signal transduction|positive regulation of transcription from RNA polymerase II promoter|post-Golgi vesicle-mediated transport|proteasomal ubiquitin-dependent protein catabolic process|protein transport|protein ubiquitination|signal transduction|stress fiber assembly|transcription from RNA polymerase II promoter	chromatin|coated pit|cytoplasmic vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|membrane fraction|nucleus|plasma membrane|pseudopodium|soluble fraction	angiotensin receptor binding|enzyme inhibitor activity|GTPase activator activity|insulin-like growth factor receptor binding|transcription factor binding|transcription regulatory region DNA binding|ubiquitin protein ligase binding			breast(2)	2						TTCGGGCCCCGGCTGCAGTGT	0.582													3	30					0	0	1	0	0		A	74993028	A	A	74993028	3	1	27	1	0	0	0	0	1	0	0	0	981	1116	39	1	908	1	ARRB1	11	74993028	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	422753	74993028	60013488	5166	27517											
RPS3	6188	broad.mit.edu	37	chr11	75115222	75115222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaactactacgttgacaCtgctgtgcgccacgtgttgc	7	13	10	11	3	0	1	0	1	0	0	0	1	0	1	1	0	6	4	1	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:75115222C>T	uc001owh.2	+	5	539	c.509C>T	c.(508-510)ACT>ATT	p.T170I	RPS3_uc001owi.2_Missense_Mutation_p.T170I|RPS3_uc001owk.1_Missense_Mutation_p.T44I|SNORD15B_uc001owl.1_5'Flank	NM_001005	NP_000996	P23396	RS3_HUMAN	ribosomal protein S3	170					activation of caspase activity|endocrine pancreas development|induction of apoptosis|negative regulation of DNA repair|negative regulation of NF-kappaB transcription factor activity|response to DNA damage stimulus|translational elongation|translational initiation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleus|ruffle membrane	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|endonuclease activity|iron-sulfur cluster binding|mRNA binding|NF-kappaB binding|protein kinase binding|structural constituent of ribosome				0						TACGTTGACACTGCTGTGCGC	0.507													9	45					0	0	1	0	0		T	75115222	T	T	75115222	3	4	27	1	0	0	0	0	1	0	0	0	13668	565	20	4	527	4	RPS3	11	75115222	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	122194	75115222	59891294	5167	27518											
UVRAG	7405	broad.mit.edu	37	chr11	75694518	75694518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagctttgggacgggaggtgGcattactgcataagcaacaa	13	8	13	7	1	0	0	0	0	0	0	0	2	0	2	0	4	5	4	0	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:75694518G>A	uc001oxc.2	+	8	1028	c.787G>A	c.(787-789)GCA>ACA	p.A263T	UVRAG_uc010rrw.1_Missense_Mutation_p.A162T|UVRAG_uc001oxd.2_5'UTR|UVRAG_uc010rrx.1_5'UTR|UVRAG_uc009yuh.1_RNA	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	263	Potential.				DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						ACGGGAGGTGGCATTACTGCA	0.378													4	56					0	0	1	0	0		A	75694518	A	A	75694518	3	1	27	1	0	0	0	0	1	0	0	0	17134	1203	42	2	817	2	UVRAG	11	75694518	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	579296	75694518	59311998	5168	27519											
TSKU	25987	broad.mit.edu	37	chr11	76507436	76507436	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaccgggcctgcaggtccTggacctgtcgggcaacccca	6	6	13	16	2	0	0	0	0	0	0	2	1	1	1	6	4	3	3	6	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:76507436T>A	uc001oxt.2	+	2	948	c.776T>A	c.(775-777)CTG>CAG	p.L259Q		NM_015516	NP_056331	Q8WUA8	TSK_HUMAN	tsukushin precursor	259	LRR 9.					extracellular region					0	Ovarian(111;0.112)					CTGCAGGTCCTGGACCTGTCG	0.657													10	85					0	0	1	0	0		A	76507436	A	A	76507436	3	1	27	1	0	0	0	0	1	0	0	0	16653	1580	55	5	778	5	TSKU	11	76507436	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	812918	76507436	58499080	5169	27520											
OMP	4975	broad.mit.edu	37	chr11	76814187	76814187	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgacacgccagctgctggAccccactgccatcttctggc	7	8	9	17	1	2	1	0	1	2	0	2	2	2	2	4	2	3	2	4	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:76814187A>G	uc010rsk.1	+	1	302	c.302A>G	c.(301-303)GAC>GGC	p.D101G	CAPN5_uc001oxx.2_Intron|CAPN5_uc009yup.2_Intron|CAPN5_uc009yuq.2_Intron|CAPN5_uc001oxy.2_Intron	NM_006189	NP_006180	P47874	OMP_HUMAN	olfactory marker protein	101					sensory perception of smell|synaptic transmission						0						CAGCTGCTGGACCCCACTGCC	0.617													3	22					0	0	1	0	0		G	76814187	G	G	76814187	3	3	27	1	0	0	0	0	1	0	0	0	10886	275	10	3	304	3	OMP	11	76814187	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	306751	76814187	58192329	5170	27521											
PAK1	5058	broad.mit.edu	37	chr11	77091002	77091002	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcaaaatctgaagggagAgaaatctctggccgctcttt	11	12	10	8	1	4	2	1	1	3	1	5	4	4	3	1	2	0	2	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:77091002A>C	uc001oyh.3	-	3	761	c.228T>G	c.(226-228)TCT>TCG	p.S76S	PAK1_uc010rso.1_5'UTR|PAK1_uc001oyg.3_Silent_p.S76S|PAK1_uc001oyi.1_Silent_p.S76S	NM_002576	NP_002567	Q13153	PAK1_HUMAN	p21-activated kinase 1 isoform 2	76	CRIB.|GTPase-binding (By similarity).|Autoregulatory region.				apoptosis|axon guidance|cytoskeleton organization|ER-nucleus signaling pathway|positive regulation of JUN kinase activity|positive regulation of peptidyl-serine phosphorylation|protein autophosphorylation|T cell costimulation|T cell receptor signaling pathway	cytosol|focal adhesion|Golgi apparatus	ATP binding|collagen binding|protein binding|protein serine/threonine kinase activity			skin(2)|stomach(1)|lung(1)	4	all_cancers(14;1.75e-18)					CTGAAGGGAGAGAAATCTCTG	0.378													6	76					0	0	1	0	0		C	77091002	C	C	77091002	2	2	27	1	0	0	0	0	0	0	0	1	11418	291	11	5		5	PAK1	11	77091002	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	276815	77091002	57915514	5171	27522											
RSF1	51773	broad.mit.edu	37	chr11	77409545	77409545	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacatactagctcaggatggTttggaaggccacattttttg	10	14	10	7	0	1	0	1	0	0	0	1	2	1	2	1	4	3	2	1	4	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:77409545T>G	uc001oyn.2	-	7	2822	c.2702A>C	c.(2701-2703)AAC>ACC	p.N901T	RSF1_uc001oym.2_Missense_Mutation_p.N649T	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	901	PHD-type.				CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			CTCAGGATGGTTTGGAAGGCC	0.418													10	114					0	0	1	0	0		G	77409545	G	G	77409545	3	3	27	1	0	0	0	0	1	0	0	0	13724	1725	60	5	1663	5	RSF1	11	77409545	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	318543	77409545	57596971	5172	27523											
INTS4	92105	broad.mit.edu	37	chr11	77639459	77639459	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttagagatttttctcatggTatgtatagactgcagacgta	11	15	10	5	1	1	3	1	0	1	3	2	4	1	3	0	1	1	5	0	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:77639459T>C	uc001oys.2	-	11	1328	c.1300A>G	c.(1300-1302)ACC>GCC	p.T434A	INTS4_uc001oyt.2_RNA|INTS4_uc001oyu.1_Missense_Mutation_p.T434A	NM_033547	NP_291025	Q96HW7	INT4_HUMAN	integrator complex subunit 4	434	HEAT 7.				snRNA processing	integrator complex	protein binding			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			TTTCTCATGGTATGTATAGAC	0.433													8	52					0	0	1	0	0		C	77639459	C	C	77639459	3	2	27	1	0	0	0	0	1	0	0	0	7796	1638	57	3	1643	3	INTS4	11	77639459	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	229914	77639459	57367057	5173	27524											
ALG8	79053	broad.mit.edu	37	chr11	77817965	77817965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaagcctctgggcccttgggGtttaaaccaaagacagaaaa	15	7	10	9	0	1	2	0	0	1	2	1	2	1	2	3	3	2	1	3	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:77817965G>A	uc001oza.1	-	10	1131	c.1066C>T	c.(1066-1068)CCC>TCC	p.P356S	ALG8_uc001oyz.1_Missense_Mutation_p.P356S|ALG8_uc009yux.1_Missense_Mutation_p.P254S	NM_024079	NP_076984	Q9BVK2	ALG8_HUMAN	dolichyl pyrophosphate Glc1Man9GlcNAc2	356					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	alpha-1,3-mannosyltransferase activity|dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			ovary(2)|pancreas(1)	3	all_cancers(14;3.62e-19)|all_epithelial(13;1.27e-21)|Breast(9;8.51e-17)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;9.66e-25)			GGCCCTTGGGGTTTAAACCAA	0.408													5	48					0	0	1	0	0		A	77817965	A	A	77817965	3	1	27	1	0	0	0	0	1	0	0	0	523	1261	44	4	589	4	ALG8	11	77817965	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	178506	77817965	57188551	5174	27525											
KCTD21	283219	broad.mit.edu	37	chr11	77885115	77885115	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccattggagcagtagaagagCttagagccaaggagcttgag	13	7	14	7	0	0	4	0	1	0	3	0	6	0	6	2	2	4	4	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:77885115C>A	uc001ozb.2	-	2	561	c.486G>T	c.(484-486)AAG>AAT	p.K162N		NM_001029859	NP_001025030	Q4G0X4	KCD21_HUMAN	potassium channel tetramerisation domain	162						voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.46e-24)			AGTAGAAGAGCTTAGAGCCAA	0.572													5	89					1.23904e-05	1.32877e-05	1	1	0		A	77885115	A	A	77885115	3	1	27	1	0	0	0	0	1	0	0	0	8125	796	28	5	300	5	KCTD21	11	77885115	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	67150	77885115	57121401	5175	27526											
KCTD21	283219	broad.mit.edu	37	chr11	77885584	77885584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttccccccgacgttcagcGtgatggggtcggacatggca	6	8	14	13	4	1	1	1	1	0	0	3	3	2	2	3	4	1	3	3	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:77885584G>A	uc001ozb.2	-	2	92	c.17C>T	c.(16-18)ACG>ATG	p.T6M		NM_001029859	NP_001025030	Q4G0X4	KCD21_HUMAN	potassium channel tetramerisation domain	6	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.46e-24)			GACGTTCAGCGTGATGGGGTC	0.552													5	25					0	0	1	0	0		A	77885584	A	A	77885584	3	1	27	1	0	0	0	0	1	0	0	0	8125	1145	40	1	769	1	KCTD21	11	77885584	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	469	77885584	57120932	5176	27527											
USP35	57558	broad.mit.edu	37	chr11	77907407	77907407	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggagcgtgagcagtgccTggcgctgctggcgctgggcg	3	7	20	11	4	0	1	0	1	0	0	0	2	0	2	1	4	4	5	1	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:77907407T>C	uc009yva.1	+	2	362	c.116T>C	c.(115-117)CTG>CCG	p.L39P	USP35_uc001oze.2_Intron|USP35_uc001ozc.2_Intron|USP35_uc010rsp.1_Intron|USP35_uc001ozd.2_5'UTR|USP35_uc001ozf.2_5'Flank	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	39					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			GAGCAGTGCCTGGCGCTGCTG	0.761													4	12					0	0	1	0	0		C	77907407	C	C	77907407	3	2	27	1	0	0	0	0	1	0	0	0	17092	1580	55	3	118	3	USP35	11	77907407	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	21823	77907407	57099109	5177	27528											
USP35	57558	broad.mit.edu	37	chr11	77921303	77921303	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggagctgagccaagggcCgtgctacctcatcctcacac	8	7	12	14	1	2	1	2	1	0	0	3	2	3	2	4	3	4	2	4	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:77921303C>A	uc009yva.1	+	10	2648	c.2402C>A	c.(2401-2403)CCG>CAG	p.P801Q	USP35_uc001oze.2_Missense_Mutation_p.P557Q|USP35_uc001ozc.2_Missense_Mutation_p.P369Q|USP35_uc010rsp.1_Missense_Mutation_p.P233Q|USP35_uc001ozd.2_Missense_Mutation_p.P412Q|USP35_uc001ozf.2_Missense_Mutation_p.P532Q	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	801					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			AGCCAAGGGCCGTGCTACCTC	0.622													5	69					1	1	1	1	0		A	77921303	A	A	77921303	3	1	27	1	0	0	0	0	1	0	0	0	17092	652	23	5	2436	5	USP35	11	77921303	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13896	77921303	57085213	5178	27529											
ODZ4	26011	broad.mit.edu	37	chr11	78369545	78369545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccaggtcaccttctgaaggtCctggtttcacaaagtaatgg	10	11	10	10	0	3	1	2	1	1	0	4	1	4	1	3	4	0	2	3	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:78369545C>T	uc001ozl.3	-	34	8331	c.7868G>A	c.(7867-7869)GGA>GAA	p.G2623E	ODZ4_uc001ozk.3_Missense_Mutation_p.G848E|ODZ4_uc009yvb.1_Intron	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2623	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						TTCTGAAGGTCCTGGTTTCAC	0.552													7	32					0	0	1	0	0		T	78369545	T	T	78369545	3	4	27	1	0	0	0	0	1	0	0	0	10856	855	30	4	445	4	ODZ4	11	78369545	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	448242	78369545	56636971	5179	27530											
PCF11	51585	broad.mit.edu	37	chr11	82877480	82877480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaagtatgtctccaacatCgacacctaaagctggaaaga	17	7	8	9	1	1	2	0	0	1	2	3	4	1	3	2	1	2	2	2	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:82877480C>T	uc001ozx.3	+	5	1886	c.1541C>T	c.(1540-1542)TCG>TTG	p.S514L	PCF11_uc010rsu.1_Missense_Mutation_p.S514L	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	514					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						TCTCCAACATCGACACCTAAA	0.448													5	104					0	0	1	0	0		T	82877480	T	T	82877480	3	4	27	1	0	0	0	0	1	0	0	0	11592	893	31	1	1559	1	PCF11	11	82877480	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4507935	82877480	52129036	5180	27531											
PCF11	51585	broad.mit.edu	37	chr11	82878291	82878291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatcgattaagtgtagatGccaatcttcagattcctaaa	14	12	7	8	1	2	2	1	0	1	2	4	3	3	2	2	0	2	2	2	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:82878291G>A	uc001ozx.3	+	6	2287	c.1942G>A	c.(1942-1944)GCC>ACC	p.A648T	PCF11_uc010rsu.1_Missense_Mutation_p.A648T	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	648					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						AAGTGTAGATGCCAATCTTCA	0.393													8	93					0	0	1	0	0		A	82878291	A	A	82878291	3	1	27	1	0	0	0	0	1	0	0	0	11592	1319	46	2	1964	2	PCF11	11	82878291	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	811	82878291	52128225	5181	27532											
PCF11	51585	broad.mit.edu	37	chr11	82880832	82880832	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcccaaggactacagtTccaaagacatgaacaaatat	17	7	5	12	0	0	2	0	1	0	1	2	3	2	3	3	1	2	1	3	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:82880832T>C	uc001ozx.3	+	8	3800	c.3455T>C	c.(3454-3456)TTC>TCC	p.F1152S	PCF11_uc010rsu.1_Missense_Mutation_p.F1283S	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	1152					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						GGACTACAGTTCCAAAGACAT	0.413													4	36					0	0	1	0	0		C	82880832	C	C	82880832	3	2	27	1	0	0	0	0	1	0	0	0	11592	1783	62	3	3485	3	PCF11	11	82880832	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2541	82880832	52125684	5182	27533											
CCDC90B	60492	broad.mit.edu	37	chr11	82989855	82989855	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctgatacaattgtttctgCttgtgttttgtcaaatcctg	7	18	8	8	1	2	1	1	1	1	0	3	1	3	1	1	0	2	4	1	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:82989855C>A	uc001pae.2	-	3	600	c.238G>T	c.(238-240)GCA>TCA	p.A80S	CCDC90B_uc001pac.2_5'UTR|CCDC90B_uc001pad.2_5'UTR|CCDC90B_uc001paf.2_Missense_Mutation_p.A71S	NM_021825	NP_068597	Q9GZT6	CC90B_HUMAN	coiled-coil domain containing 90B precursor	80						integral to membrane|mitochondrion|mitochondrion					0		Acute lymphoblastic leukemia(157;0.103)				ATTGTTTCTGCTTGTGTTTTG	0.338													4	71					0.150653	0.151846	1	1	0		A	82989855	A	A	82989855	3	1	27	1	0	0	0	0	1	0	0	0	2872	797	28	5	554	5	CCDC90B	11	82989855	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	109023	82989855	52016661	5183	27534											
CREBZF	58487	broad.mit.edu	37	chr11	85375106	85375106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagtccagtctcgttggCtaagactgcccgtaggtagc	8	9	12	12	2	1	1	0	0	1	1	3	1	2	1	3	2	3	4	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:85375106C>T	uc001pas.2	-	1	1077	c.814G>A	c.(814-816)GCC>ACC	p.A272T	CREBZF_uc010rtc.1_RNA|CREBZF_uc010rtd.1_RNA	NM_001039618	NP_001034707	Q9NS37	ZHANG_HUMAN	HCF-binding transcription factor Zhangfei	272					negative regulation of gene expression, epigenetic|negative regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|response to virus	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)				GTCTCGTTGGCTAAGACTGCC	0.657											OREG0021274	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	137					0	0	1	0	0		T	85375106	T	T	85375106	3	4	27	1	0	0	0	0	1	0	0	0	3866	797	28	2	254	2	CREBZF	11	85375106	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2385251	85375106	49631410	5184	27535											
CREBZF	58487	broad.mit.edu	37	chr11	85375145	85375145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgactctcctcctgcagtgCctgtacgcgtttgcccagct	4	11	10	16	3	1	0	0	0	1	0	3	1	2	0	4	0	5	4	4	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:85375145C>T	uc001pas.2	-	1	1038	c.775G>A	c.(775-777)GCA>ACA	p.A259T	CREBZF_uc010rtc.1_RNA|CREBZF_uc010rtd.1_RNA	NM_001039618	NP_001034707	Q9NS37	ZHANG_HUMAN	HCF-binding transcription factor Zhangfei	259	Leucine-zipper.				negative regulation of gene expression, epigenetic|negative regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|response to virus	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)				TCCTGCAGTGCCTGTACGCGT	0.652											OREG0021274	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	176					0	0	1	0	0		T	85375145	T	T	85375145	3	4	27	1	0	0	0	0	1	0	0	0	3866	739	26	2	293	2	CREBZF	11	85375145	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	39	85375145	49631371	5185	27536											
SYTL2	54843	broad.mit.edu	37	chr11	85445705	85445705	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggacccatttgaaaggcctgGcaaagtctgctttgatttct	9	13	10	9	0	2	2	0	2	2	0	2	3	2	3	2	3	1	2	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:85445705G>T	uc010rth.1	-	6	940	c.664C>A	c.(664-666)CCA>ACA	p.P222T	SYTL2_uc010rtg.1_Missense_Mutation_p.P223T|SYTL2_uc010rti.1_Missense_Mutation_p.P222T|SYTL2_uc010rtj.1_Missense_Mutation_p.P174T|SYTL2_uc001pbf.3_Missense_Mutation_p.P222T|SYTL2_uc010rtf.1_Missense_Mutation_p.P80T	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	222					intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		GAAAGGCCTGGCAAAGTCTGC	0.373													9	82					0.000442599	0.000464839	1	1	0		T	85445705	T	T	85445705	3	4	27	1	0	0	0	0	1	0	0	0	15508	1203	42	5	4673	5	SYTL2	11	85445705	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	70560	85445705	49560811	5186	27537											
C11orf73	51501	broad.mit.edu	37	chr11	86017344	86017344	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtttttgacttacctgatTatgaaagtatcaaccatgtt	11	18	6	6	0	1	3	1	3	0	0	1	3	1	3	2	0	2	3	2	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:86017344T>C	uc001pbu.2	+	2	326	c.88T>C	c.(88-90)TAT>CAT	p.Y30H	C11orf73_uc001pbt.2_Missense_Mutation_p.Y30H|C11orf73_uc010rto.1_Intron|C11orf73_uc010rtp.1_Intron|C11orf73_uc001pbv.2_RNA	NM_016401	NP_057485	Q53FT3	CK073_HUMAN	lethal, Chr 7, Rinchik 6	30						cytoplasm					0		Acute lymphoblastic leukemia(157;1.17e-07)|all_hematologic(158;0.000556)				CTTACCTGATTATGAAAGTAT	0.388													8	51					0	0	1	0	0		C	86017344	C	C	86017344	3	2	27	1	0	0	0	0	1	0	0	0	1664	1754	61	3	94	3	C11orf73	11	86017344	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	571639	86017344	48989172	5187	27538											
CCDC81	60494	broad.mit.edu	37	chr11	86106389	86106389	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctagaggcctggcactgTggactcggtgttgtctagca	6	11	13	11	1	2	1	0	0	2	1	3	2	2	2	2	4	1	3	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:86106389T>C	uc001pbx.1	+	5	997	c.569T>C	c.(568-570)GTG>GCG	p.V190A	CCDC81_uc001pbw.1_Missense_Mutation_p.V100A|CCDC81_uc010rtq.1_5'UTR|CCDC81_uc001pby.1_5'UTR	NM_001156474	NP_001149946	Q6ZN84	CCD81_HUMAN	coiled-coil domain containing 81 isoform 1	190										skin(1)	1		Acute lymphoblastic leukemia(157;5.51e-06)|all_hematologic(158;0.00535)				CCTGGCACTGTGGACTCGGTG	0.537													7	58					0	0	1	0	0		C	86106389	C	C	86106389	3	2	27	1	0	0	0	0	1	0	0	0	2858	1696	59	3	587	3	CCDC81	11	86106389	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	89045	86106389	48900127	5188	27539											
FZD4	8322	broad.mit.edu	37	chr11	86665896	86665896	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtgtgaaagttgtcagctGcagctcggcgtccgtctgca	6	10	14	11	4	2	1	1	1	1	0	4	1	3	1	1	2	4	5	1	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:86665896G>A	uc001pce.2	-	1	538	c.232C>T	c.(232-234)CAG>TAG	p.Q78*	uc001pcf.2_5'Flank	NM_012193	NP_036325	Q9ULV1	FZD4_HUMAN	frizzled 4 precursor	78	FZ.|Extracellular (Potential).				canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|negative regulation of cell-substrate adhesion|neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|progesterone secretion|regulation of vascular endothelial growth factor receptor signaling pathway|substrate adhesion-dependent cell spreading|vasculogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cell projection|cell surface|cytoplasm	cytokine binding|G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			large_intestine(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GTTGTCAGCTGCAGCTCGGCG	0.662													5	19					0	0	1	0	0		A	86665896	A	A	86665896	4	1	27	1	0	0	0	0	0	1	0	0	6146	1328	46	2	1389	2	FZD4	11	86665896	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	559507	86665896	48340620	5189	27540											
GRM5	2915	broad.mit.edu	37	chr11	88242507	88242507	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctcccgcctgcgccagcGccagcgcccaggccacggct	4	3	13	21	6	0	0	0	0	0	0	1	0	1	0	6	2	3	2	6	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:88242507G>A	uc001pcq.2	-	9	3092	c.2892C>T	c.(2890-2892)GGC>GGT	p.G964G	GRM5_uc009yvm.2_Silent_p.G932G	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	964	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CTGCGCCAGCGCCAGCGCCCA	0.726													6	32					0	0	1	0	0		A	88242507	A	A	88242507	2	1	27	1	0	0	0	0	0	0	0	1	6816	1074	38	1		1	GRM5	11	88242507	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1576611	88242507	46764009	5190	27541											
GRM5	2915	broad.mit.edu	37	chr11	88780887	88780887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccacacttcctctcatgaaCtttgtccacagtaggctggt	8	12	7	14	0	1	1	1	1	1	0	4	1	3	1	3	2	1	2	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:88780887C>T	uc001pcq.2	-	1	354	c.154G>A	c.(154-156)GTT>ATT	p.V52I	GRM5_uc009yvm.2_Missense_Mutation_p.V52I|GRM5_uc009yvn.1_Missense_Mutation_p.V52I	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	52	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CTCTCATGAACTTTGTCCACA	0.527													8	25					0	0	1	0	0		T	88780887	T	T	88780887	3	4	27	1	0	0	0	0	1	0	0	0	6816	565	20	4	3520	4	GRM5	11	88780887	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	538380	88780887	46225629	5191	27542											
FAT3	120114	broad.mit.edu	37	chr11	92087436	92087436	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgacttttattcaattaatAgacagggaccatattttgac	13	16	6	6	0	1	3	1	2	0	1	1	4	1	4	1	1	0	0	1	1	5	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:92087436A>G	uc001pdj.3	+	1	2175	c.2158A>G	c.(2158-2160)AGA>GGA	p.R720G		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	720	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TTCAATTAATAGACAGGGACC	0.398										TCGA Ovarian(4;0.039)			13	188					0	0	1	0	0		G	92087436	G	G	92087436	3	3	27	1	0	0	0	0	1	0	0	0	5705	412	15	3	2160	3	FAT3	11	92087436	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3306549	92087436	42919080	5192	27543											
FAT3	120114	broad.mit.edu	37	chr11	92087574	92087574	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagtgctatttacaataTcagatggaaatacggatagt	17	11	9	4	1	1	1	1	0	0	1	1	4	1	3	0	2	3	1	0	2	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:92087574T>A	uc001pdj.3	+	1	2313	c.2296T>A	c.(2296-2298)TCA>ACA	p.S766T		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	766	Extracellular (Potential).|Cadherin 7.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ATTTACAATATCAGATGGAAA	0.423										TCGA Ovarian(4;0.039)			17	157					0	0	1	0	0		A	92087574	A	A	92087574	3	1	27	1	0	0	0	0	1	0	0	0	5705	1435	50	5	2298	5	FAT3	11	92087574	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	138	92087574	42918942	5193	27544											
FAT3	120114	broad.mit.edu	37	chr11	92531257	92531257	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacatcagtcattctaaTctctgccatcagtcaatcta	12	13	5	11	0	7	0	4	0	3	0	8	1	7	1	1	1	2	0	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:92531257T>A	uc001pdj.3	+	9	5095	c.5078T>A	c.(5077-5079)ATC>AAC	p.I1693N		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1693	Cadherin 15.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GTCATTCTAATCTCTGCCATC	0.393										TCGA Ovarian(4;0.039)			6	107					0	0	1	0	0		A	92531257	A	A	92531257	3	1	27	1	0	0	0	0	1	0	0	0	5705	1435	50	5	5112	5	FAT3	11	92531257	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	443683	92531257	42475259	5194	27545											
FAT3	120114	broad.mit.edu	37	chr11	92534472	92534472	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagaacaggaaacaggcactAttaagcttgacaaacgcctt	16	8	8	9	1	0	2	0	1	0	1	0	3	0	3	1	2	4	2	1	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:92534472A>T	uc001pdj.3	+	9	8310	c.8293A>T	c.(8293-8295)ATT>TTT	p.I2765F		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2765	Extracellular (Potential).|Cadherin 25.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AACAGGCACTATTAAGCTTGA	0.453										TCGA Ovarian(4;0.039)			7	54					0	0	1	0	0		T	92534472	T	T	92534472	3	4	27	1	0	0	0	0	1	0	0	0	5705	449	16	5	8327	5	FAT3	11	92534472	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3215	92534472	42472044	5195	27546											
FAT3	120114	broad.mit.edu	37	chr11	92568120	92568120	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaaagatgggggcacccCagctctcagcgctgtggcca	9	5	13	14	1	1	1	1	0	1	1	2	1	1	1	4	3	3	3	4	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:92568120C>A	uc001pdj.3	+	14	9973	c.9956C>A	c.(9955-9957)CCA>CAA	p.P3319Q		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3319	Cadherin 30.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GGGGGCACCCCAGCTCTCAGC	0.478										TCGA Ovarian(4;0.039)			3	23					0.115264	0.116483	1	1	0		A	92568120	A	A	92568120	3	1	27	1	0	0	0	0	1	0	0	0	5705	594	21	5	10010	5	FAT3	11	92568120	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	33648	92568120	42438396	5196	27547											
FAT3	120114	broad.mit.edu	37	chr11	92616316	92616316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggcccccgcaggtccccGtgcgccccatggcctacaca	5	5	12	19	3	0	0	0	0	0	0	1	0	1	0	7	4	2	1	7	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:92616316G>A	uc001pdj.3	+	23	12711	c.12694G>A	c.(12694-12696)GTG>ATG	p.V4232M	FAT3_uc001pdi.3_Missense_Mutation_p.V672M	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4232	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GCAGGTCCCCGTGCGCCCCAT	0.652										TCGA Ovarian(4;0.039)			15	148					0	0	1	0	0		A	92616316	A	A	92616316	3	1	27	1	0	0	0	0	1	0	0	0	5705	1145	40	1	12784	1	FAT3	11	92616316	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	48196	92616316	42390200	5197	27548											
MED17	9440	broad.mit.edu	37	chr11	93545200	93545200	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttataaaatggagctgctTatgtctgcacttagcccttg	9	15	9	8	0	1	0	0	0	1	0	1	1	1	1	1	1	4	4	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:93545200T>C	uc001pem.3	+	12	2201	c.1926T>C	c.(1924-1926)CTT>CTC	p.L642L		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	642					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TGGAGCTGCTTATGTCTGCAC	0.348													7	93					0	0	1	0	0		C	93545200	C	C	93545200	2	2	27	1	0	0	0	0	0	0	0	1	9453	1741	61	3		3	MED17	11	93545200	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	928884	93545200	41461316	5198	27549											
FOLR4	390243	broad.mit.edu	37	chr11	94038882	94038882	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacgagctgctcaacatctGcatgaatgccaaacaccaca	14	6	8	13	1	2	1	1	1	1	0	2	3	2	2	2	1	6	3	2	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:94038882G>C	uc010rud.1	+	1	80	c.80G>C	c.(79-81)TGC>TCC	p.C27S		NM_001080486	NP_001073955	A6ND01	FOLR4_HUMAN	folate receptor 4 (delta) homolog	27						extracellular region	folic acid binding|receptor activity			ovary(1)	1						CTCAACATCTGCATGAATGCC	0.587													4	75					0	0	1	0	0		C	94038882	C	C	94038882	3	2	27	1	0	0	0	0	1	0	0	0	5998	1319	46	5	82	5	FOLR4	11	94038882	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	493682	94038882	40967634	5199	27550											
GPR83	10888	broad.mit.edu	37	chr11	94134373	94134373	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggggctcggtggctcgcAccaaggggaggagacagagc	8	4	19	10	3	0	2	0	0	0	2	2	4	0	3	1	7	1	3	1	7	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:94134373A>G	uc001pet.2	-	1	213	c.41T>C	c.(40-42)GTG>GCG	p.V14A		NM_016540	NP_057624	Q9NYM4	GPR83_HUMAN	G protein-coupled receptor 83 precursor	14						integral to membrane|plasma membrane	neuropeptide Y receptor activity			central_nervous_system(2)|ovary(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				GGTGGCTCGCACCAAGGGGAG	0.692													4	34					0	0	1	0	0		G	94134373	G	G	94134373	3	3	27	1	0	0	0	0	1	0	0	0	6728	159	6	3	1246	3	GPR83	11	94134373	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	95491	94134373	40872143	5200	27551											
MRE11A	4361	broad.mit.edu	37	chr11	94200987	94200987	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aataggacttactcgcagtcGtacaagaggcttctctggct	10	11	10	10	2	1	1	0	0	1	1	4	2	1	2	0	3	2	4	0	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:94200987G>A	uc001peu.2	-	10	1279	c.1090C>T	c.(1090-1092)CGA>TGA	p.R364*	MRE11A_uc001pev.2_Nonsense_Mutation_p.R364*|MRE11A_uc009ywj.2_Nonsense_Mutation_p.R367*|MIR548L_hsa-mir-548l|MI0006361_5'Flank	NM_005591	NP_005582	P49959	MRE11_HUMAN	meiotic recombination 11 homolog A isoform 1	364					DNA duplex unwinding|double-strand break repair via homologous recombination|double-strand break repair via nonhomologous end joining|negative regulation of DNA endoreduplication|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|sister chromatid cohesion|telomere maintenance via telomerase	Mre11 complex|nucleoplasm	3'-5' exonuclease activity|double-stranded DNA binding|manganese ion binding|protein C-terminus binding|single-stranded DNA specific endodeoxyribonuclease activity			breast(4)|lung(1)	5		Acute lymphoblastic leukemia(157;2.37e-05)|all_hematologic(158;0.00824)				ACTCGCAGTCGTACAAGAGGC	0.333								Homologous_recombination	Ataxia-Telangiectasia-Like_Disorder				24	67					0	0	1	0	0		A	94200987	A	A	94200987	4	1	27	1	0	0	0	0	0	1	0	0	9777	1153	40	1	1080	1	MRE11A	11	94200987	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	66614	94200987	40805529	5201	27552											
MTMR2	8898	broad.mit.edu	37	chr11	95578206	95578206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagtatccatccaacatgaGcatggcaagggaagtgagct	14	8	11	8	0	0	2	0	2	0	0	2	3	2	3	2	2	3	4	2	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:95578206G>A	uc001pfu.2	-	11	1550	c.1297C>T	c.(1297-1299)CTC>TTC	p.L433F	MTMR2_uc001pfv.2_Missense_Mutation_p.L361F|MTMR2_uc001pfs.2_Missense_Mutation_p.L361F|MTMR2_uc001pft.2_Missense_Mutation_p.L361F|MTMR2_uc010ruj.1_Missense_Mutation_p.L416F	NM_016156	NP_057240	Q13614	MTMR2_HUMAN	myotubularin-related protein 2 isoform 1	433	Myotubularin phosphatase.					nucleus	inositol or phosphatidylinositol phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TCCAACATGAGCATGGCAAGG	0.463													5	70					0	0	1	0	0		A	95578206	A	A	95578206	3	1	27	1	0	0	0	0	1	0	0	0	9962	971	34	2	654	2	MTMR2	11	95578206	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1377219	95578206	39428310	5202	27553											
MTMR2	8898	broad.mit.edu	37	chr11	95578262	95578262	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccatcactgcaatgcactAccacagacgtcttccctgac	12	8	5	16	1	2	2	1	1	1	1	3	2	3	2	3	0	4	2	3	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:95578262A>G	uc001pfu.2	-	11	1494	c.1241T>C	c.(1240-1242)GTA>GCA	p.V414A	MTMR2_uc001pfv.2_Missense_Mutation_p.V342A|MTMR2_uc001pfs.2_Missense_Mutation_p.V342A|MTMR2_uc001pft.2_Missense_Mutation_p.V342A|MTMR2_uc010ruj.1_Missense_Mutation_p.V397A	NM_016156	NP_057240	Q13614	MTMR2_HUMAN	myotubularin-related protein 2 isoform 1	414	Myotubularin phosphatase.					nucleus	inositol or phosphatidylinositol phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GCAATGCACTACCACAGACGT	0.448													7	75					0	0	1	0	0		G	95578262	G	G	95578262	3	3	27	1	0	0	0	0	1	0	0	0	9962	391	14	3	710	3	MTMR2	11	95578262	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	56	95578262	39428254	5203	27554											
MAML2	84441	broad.mit.edu	37	chr11	95724805	95724805	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgattgctgggagttcatgTaaccacttccagtgtttgga	8	14	12	7	0	1	1	1	1	0	0	2	3	2	3	2	2	2	4	2	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:95724805T>C	uc001pfw.1	-	3	3507	c.2222A>G	c.(2221-2223)TAC>TGC	p.Y741C		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	741					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				GGAGTTCATGTAACCACTTCC	0.483			T	MECT1|CRTC3	salivary gland mucoepidermoid								10	117					0	0	1	0	0		C	95724805	C	C	95724805	3	2	27	1	0	0	0	0	1	0	0	0	9224	1638	57	3	1260	3	MAML2	11	95724805	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	146543	95724805	39281711	5204	27555											
CNTN5	53942	broad.mit.edu	37	chr11	99931951	99931951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttccctatcgtagccccgttCcaacaatcacatggatgaag	11	10	7	13	2	1	1	1	1	0	0	4	2	3	2	4	1	2	2	4	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:99931951C>T	uc001pga.2	+	10	1327	c.988C>T	c.(988-990)CCA>TCA	p.P330S	CNTN5_uc009ywv.1_Missense_Mutation_p.P330S|CNTN5_uc001pfz.2_Missense_Mutation_p.P330S|CNTN5_uc001pgb.2_Missense_Mutation_p.P256S	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	330	Ig-like C2-type 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		TAGCCCCGTTCCAACAATCAC	0.418													6	165					0	0	1	0	0		T	99931951	T	T	99931951	3	4	27	1	0	0	0	0	1	0	0	0	3647	855	30	4	1018	4	CNTN5	11	99931951	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4207146	99931951	35074565	5205	27556											
TRPC6	7225	broad.mit.edu	37	chr11	101374854	101374854	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaatgacaggtaagccggActtgccaggcctttataggc	11	8	12	10	1	0	1	0	1	0	0	0	3	0	2	3	4	2	1	3	4	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:101374854A>G	uc001pgk.3	-	2	1271	c.846T>C	c.(844-846)AGT>AGC	p.S282S	TRPC6_uc009ywy.2_Silent_p.S282S|TRPC6_uc009ywz.1_Silent_p.S282S	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	282	Cytoplasmic (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		GGTAAGCCGGACTTGCCAGGC	0.438													17	187					0	0	1	0	0		G	101374854	G	G	101374854	2	3	27	1	0	0	0	0	0	0	0	1	16609	272	10	3		3	TRPC6	11	101374854	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1442903	101374854	33631662	5206	27557											
TRPC6	7225	broad.mit.edu	37	chr11	101375465	101375465	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctggtcctcgattagctaAccttctccccttctcacgga	6	13	7	15	2	2	0	1	0	2	0	6	2	3	1	4	2	3	2	4	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:101375465A>G	uc001pgk.3	-	2	660	c.235T>C	c.(235-237)TTA>CTA	p.L79L	TRPC6_uc009ywy.2_Silent_p.L79L|TRPC6_uc009ywz.1_Silent_p.L79L	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	79	Cytoplasmic (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		CGATTAGCTAACCTTCTCCCC	0.473													15	123					0	0	1	0	0		G	101375465	G	G	101375465	2	3	27	1	0	0	0	0	0	0	0	1	16609	40	2	3		3	TRPC6	11	101375465	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	611	101375465	33631051	5207	27558											
KIAA1377	57562	broad.mit.edu	37	chr11	101818760	101818760	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcggtctttattatctctttAgtttcccgaaaaccagttcc	8	17	5	11	2	2	0	0	0	2	0	6	1	4	0	3	1	1	2	3	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:101818760A>G	uc001pgm.2	+	4	665	c.395_splice	c.e4-2	p.V132_splice	KIAA1377_uc001pgn.2_Splice_Site_p.V88_splice|KIAA1377_uc009yxa.1_Splice_Site	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562								protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		TTATCTCTTTAGTTTCCCGAA	0.323													6	48					0	0	1	0	0		G	101818760	G	G	101818760	5	3	27	1	0	0	0	0	0	0	1	0	8243	434	15	3	407	3	KIAA1377	11	101818760	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	443295	101818760	33187756	5208	27559											
MMP20	9313	broad.mit.edu	37	chr11	102482514	102482514	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaagatatcataatatcCgcttctcctgagtttattct	12	16	4	9	1	4	2	2	1	2	1	6	2	5	2	2	0	0	2	2	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:102482514C>T	uc001phc.2	-	3	508	c.495G>A	c.(493-495)GCG>GCA	p.A165A		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein	165					proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		TCATAATATCCGCTTCTCCTG	0.448													6	54					0	0	1	0	0		T	102482514	T	T	102482514	2	4	27	1	0	0	0	0	0	0	0	1	9677	639	23	1		1	MMP20	11	102482514	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	663754	102482514	32524002	5209	27560											
MMP20	9313	broad.mit.edu	37	chr11	102487565	102487565	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgtcaaagtatttttttTccatttgggttcaccaggga	9	17	9	6	0	2	0	2	0	0	0	3	1	3	1	2	2	0	3	2	2	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:102487565T>C	uc001phc.2	-	2	365	c.352A>G	c.(352-354)AAA>GAA	p.K118E		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein	118					proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		GTATTTTTTTTCCATTTGGGT	0.408													4	39					0	0	1	0	0		C	102487565	C	C	102487565	3	2	27	1	0	0	0	0	1	0	0	0	9677	1792	62	3	1135	3	MMP20	11	102487565	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5051	102487565	32518951	5210	27561											
MMP27	64066	broad.mit.edu	37	chr11	102567160	102567160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatagcgtcaaaagtcaagtCagggtcacaggcatggggta	13	7	14	7	1	4	0	4	0	0	0	4	1	4	0	0	4	1	2	0	4	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:102567160C>T	uc001phd.1	-	6	867	c.844G>A	c.(844-846)GAC>AAC	p.D282N		NM_022122	NP_071405	Q9H306	MMP27_HUMAN	matrix metalloproteinase 27 precursor	282					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3	all_cancers(8;0.000843)|all_epithelial(12;0.00362)|Lung NSC(15;0.21)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0509)|Lung(13;0.0696)|LUSC - Lung squamous cell carcinoma(19;0.13)|all cancers(10;0.176)	BRCA - Breast invasive adenocarcinoma(274;0.0151)		AAAGTCAAGTCAGGGTCACAG	0.413													18	70					0	0	1	0	0		T	102567160	T	T	102567160	3	4	27	1	0	0	0	0	1	0	0	0	9682	826	29	4	717	4	MMP27	11	102567160	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	79595	102567160	32439356	5211	27562											
MMP3	4314	broad.mit.edu	37	chr11	102713491	102713491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactccacacctgggcttgcGcatcacctccagagtgtcgg	8	8	10	15	2	1	1	1	0	0	1	4	1	3	1	4	2	2	2	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:102713491G>A	uc001phj.1	-	2	327	c.262C>T	c.(262-264)CGC>TGC	p.R88C		NM_002422	NP_002413	P08254	MMP3_HUMAN	matrix metalloproteinase 3 preproprotein	88					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			lung(1)|kidney(1)	2		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.0142)	Marimastat(DB00786)|Simvastatin(DB00641)	CTGGGCTTGCGCATCACCTCC	0.502													5	38					0	0	1	0	0		A	102713491	A	A	102713491	3	1	27	1	0	0	0	0	1	0	0	0	9684	1087	38	1	1207	1	MMP3	11	102713491	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	146331	102713491	32293025	5212	27563											
DYNC2H1	79659	broad.mit.edu	37	chr11	102980475	102980475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagggtgcagcgatccgacGcaggaatctccttttccaac	9	9	10	13	3	2	0	1	0	1	0	5	3	4	1	3	2	3	2	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:102980475G>A	uc001pho.2	+	1	316	c.172G>A	c.(172-174)GCA>ACA	p.A58T	DYNC2H1_uc001phn.1_Missense_Mutation_p.A58T|DYNC2H1_uc009yxe.1_Missense_Mutation_p.A58T	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	58	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		GCGATCCGACGCAGGAATCTC	0.562													5	22					0	0	1	0	0		A	102980475	A	A	102980475	3	1	27	1	0	0	0	0	1	0	0	0	4852	1087	38	1	174	1	DYNC2H1	11	102980475	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	266984	102980475	32026041	5213	27564											
DYNC2H1	79659	broad.mit.edu	37	chr11	102988470	102988470	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtatttcaatttgtgaaCagtgggtgatagtctgtaat	10	16	11	4	0	2	2	1	2	1	0	2	2	2	2	0	2	1	2	0	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:102988470C>T	uc001pho.2	+	6	1021	c.877C>T	c.(877-879)CAG>TAG	p.Q293*	DYNC2H1_uc001phn.1_Nonsense_Mutation_p.Q293*|DYNC2H1_uc009yxe.1_Nonsense_Mutation_p.Q293*	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	293	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AATTTGTGAACAGTGGGTGAT	0.383													15	59					0	0	1	0	0		T	102988470	T	T	102988470	4	4	27	1	0	0	0	0	0	1	0	0	4852	479	17	4	899	4	DYNC2H1	11	102988470	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7995	102988470	32018046	5214	27565											
DYNC2H1	79659	broad.mit.edu	37	chr11	103004387	103004387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaatgctgctgaacggcttgCcactgaaaatagaaaactga	16	8	9	8	1	0	4	0	3	0	1	0	4	0	4	1	1	5	3	1	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:103004387C>T	uc001pho.2	+	14	2201	c.2057C>T	c.(2056-2058)GCC>GTC	p.A686V	DYNC2H1_uc001phn.1_Missense_Mutation_p.A686V|DYNC2H1_uc009yxe.1_Missense_Mutation_p.A686V	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	686	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		GAACGGCTTGCCACTGAAAAT	0.318													3	41					0	0	1	0	0		T	103004387	T	T	103004387	3	4	27	1	0	0	0	0	1	0	0	0	4852	739	26	2	2111	2	DYNC2H1	11	103004387	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15917	103004387	32002129	5215	27566											
DYNC2H1	79659	broad.mit.edu	37	chr11	103058132	103058132	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctacagttcactgtagTgcacaaaccacttctcgaca	12	11	6	12	1	2	0	1	0	1	0	3	1	2	0	1	0	4	4	1	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:103058132T>C	uc001pho.2	+	43	7101	c.6957T>C	c.(6955-6957)AGT>AGC	p.S2319S	DYNC2H1_uc001phn.1_Silent_p.S2319S|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2319	AAA 3 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TTCACTGTAGTGCACAAACCA	0.423													5	120					0	0	1	0	0		C	103058132	C	C	103058132	2	2	27	1	0	0	0	0	0	0	0	1	4852	1693	59	3		3	DYNC2H1	11	103058132	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53745	103058132	31948384	5216	27567											
DYNC2H1	79659	broad.mit.edu	37	chr11	103070066	103070066	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagtttccctggaggttCacttctattagcaggacgca	8	12	11	10	1	2	1	1	1	1	0	3	3	3	3	1	3	1	5	1	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:103070066C>A	uc001pho.2	+	49	8093	c.7949C>A	c.(7948-7950)TCA>TAA	p.S2650*	DYNC2H1_uc001phn.1_Nonsense_Mutation_p.S2650*|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2650	AAA 4 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CCTGGAGGTTCACTTCTATTA	0.438													8	40					3.09899e-07	3.3784e-07	1	1	0		A	103070066	A	A	103070066	4	1	27	1	0	0	0	0	0	1	0	0	4852	838	29	5	8143	5	DYNC2H1	11	103070066	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11934	103070066	31936450	5217	27568											
DYNC2H1	79659	broad.mit.edu	37	chr11	103102032	103102032	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaaaggaaactagaggagCttcttaattctgttggtcaa	15	11	10	5	0	3	1	1	0	2	1	3	4	3	3	0	3	2	2	0	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:103102032C>G	uc001pho.2	+	60	9541	c.9397C>G	c.(9397-9399)CTT>GTT	p.L3133V	DYNC2H1_uc001phn.1_Missense_Mutation_p.L3133V|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3133	Potential.|Stalk (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		ACTAGAGGAGCTTCTTAATTC	0.289													8	29					0	0	1	0	0		G	103102032	G	G	103102032	3	3	27	1	0	0	0	0	1	0	0	0	4852	797	28	5	9635	5	DYNC2H1	11	103102032	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31966	103102032	31904484	5218	27569											
DDI1	414301	broad.mit.edu	37	chr11	103907793	103907793	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagaaggacaatgtgggAcctcgggctccagggcgtgc	8	6	16	11	2	0	1	0	0	0	1	2	3	1	3	2	4	2	2	2	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:103907793A>T	uc001phr.2	+	1	486	c.243A>T	c.(241-243)GGA>GGT	p.G81G	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	81	Ubiquitin-like.				proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		ACAATGTGGGACCTCGGGCTC	0.612													8	158					0	0	1	0	0		T	103907793	T	T	103907793	2	4	27	1	0	0	0	0	0	0	0	1	4331	262	10	5		5	DDI1	11	103907793	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	805761	103907793	31098723	5219	27570											
DDI1	414301	broad.mit.edu	37	chr11	103908242	103908242	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaaacatgaatatagcgaTagaagaggcccccgagagtt	17	6	11	7	2	0	5	0	1	0	4	0	7	0	5	2	1	2	1	2	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:103908242T>C	uc001phr.2	+	1	935	c.692T>C	c.(691-693)ATA>ACA	p.I231T	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	231					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		AATATAGCGATAGAAGAGGCC	0.488													14	157					0	0	1	0	0		C	103908242	C	C	103908242	3	2	27	1	0	0	0	0	1	0	0	0	4331	1406	49	3	694	3	DDI1	11	103908242	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	449	103908242	31098274	5220	27571											
CASP4	837	broad.mit.edu	37	chr11	104821692	104821692	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacatctacactatagtccAgaccctcaagtagctccttc	11	11	4	15	0	2	1	1	0	1	1	5	1	4	1	3	0	3	2	3	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:104821692A>G	uc001pid.1	-	4	579	c.506T>C	c.(505-507)CTG>CCG	p.L169P	CASP4_uc001pib.1_Missense_Mutation_p.L113P|CASP4_uc009yxg.1_Missense_Mutation_p.L78P|CASP4_uc010rux.1_Missense_Mutation_p.L169P	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor	169					apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		ACTATAGTCCAGACCCTCAAG	0.463													9	47					0	0	1	0	0		G	104821692	G	G	104821692	3	3	27	1	0	0	0	0	1	0	0	0	2676	188	7	3	647	3	CASP4	11	104821692	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	913450	104821692	30184824	5221	27572											
CASP5	838	broad.mit.edu	37	chr11	104869751	104869751	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgacccagagttccccatgTttttctgtagagacatcaac	10	12	7	12	0	2	3	1	1	1	2	3	4	3	3	3	0	1	3	3	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:104869751T>G	uc010rva.1	-	7	989	c.957A>C	c.(955-957)AAA>AAC	p.K319N	CASP5_uc010ruz.1_Missense_Mutation_p.K332N|CASP5_uc010rvb.1_Missense_Mutation_p.K261N|CASP5_uc010rvc.1_Missense_Mutation_p.K177N|CASP5_uc009yxh.2_Missense_Mutation_p.K101N|CASP5_uc010rvd.1_Missense_Mutation_p.K101N	NM_004347	NP_004338	P51878	CASP5_HUMAN	caspase 5 isoform a precursor	319					apoptosis|cellular response to mechanical stimulus|proteolysis|regulation of apoptosis	intracellular	cysteine-type endopeptidase activity|protein binding			ovary(2)|lung(1)	3		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000943)|Epithelial(105;0.0104)|all cancers(92;0.042)		GTTCCCCATGTTTTTCTGTAG	0.294													7	92					0	0	1	0	0		G	104869751	G	G	104869751	3	3	27	1	0	0	0	0	1	0	0	0	2677	1722	60	5	359	5	CASP5	11	104869751	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	48059	104869751	30136765	5222	27573											
KBTBD3	143879	broad.mit.edu	37	chr11	105924271	105924271	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagttgataccaagaagaaaTcatttttcactggacagtag	15	12	8	6	0	2	3	2	1	0	2	2	4	2	4	1	1	1	2	1	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:105924271T>A	uc001pja.2	-	4	1785	c.1145A>T	c.(1144-1146)GAT>GTT	p.D382V	KBTBD3_uc001pjb.2_Missense_Mutation_p.D382V|KBTBD3_uc009yxm.2_Missense_Mutation_p.D303V	NM_198439	NP_940841	Q8NAB2	KBTB3_HUMAN	BTB and kelch domain containing 3	378	Kelch 2.									ovary(1)|central_nervous_system(1)	2		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.43e-05)|Epithelial(105;0.00418)|all cancers(92;0.0299)		CAAGAAGAAATCATTTTTCAC	0.413													5	52					0	0	1	0	0		A	105924271	A	A	105924271	3	1	27	1	0	0	0	0	1	0	0	0	8010	1435	50	5	697	5	KBTBD3	11	105924271	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1054520	105924271	29082245	5223	27574											
SLC35F2	54733	broad.mit.edu	37	chr11	107682454	107682454	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacataattagcttccacaTctgctagtcccagcaggatg	11	11	7	12	0	2	0	1	0	1	0	4	1	4	1	2	1	3	3	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:107682454T>A	uc001pjq.2	-	3	774	c.353A>T	c.(352-354)GAT>GTT	p.D118V	SLC35F2_uc010rvu.1_5'UTR|SLC35F2_uc001pjs.2_Missense_Mutation_p.D118V	NM_017515	NP_059985	Q8IXU6	S35F2_HUMAN	solute carrier family 35, member F2	118	Helical; (Potential).				transport	integral to membrane				central_nervous_system(1)	1		all_cancers(61;9.46e-06)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;0.000111)|all_hematologic(158;0.000315)|all_epithelial(67;0.00197)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)|Epithelial(105;0.000105)|all cancers(92;0.00217)		AGCTTCCACATCTGCTAGTCC	0.423													10	146					0	0	1	0	0		A	107682454	A	A	107682454	3	1	27	1	0	0	0	0	1	0	0	0	14614	1435	50	5	795	5	SLC35F2	11	107682454	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1758183	107682454	27324062	5224	27575											
CUL5	8065	broad.mit.edu	37	chr11	107917050	107917050	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccagcaaaaattcatcAggctttaaaagaagatattc	17	9	7	8	0	2	2	2	0	0	2	3	2	2	2	1	2	1	2	1	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:107917050A>G	uc001pjv.2	+	3	855	c.188A>G	c.(187-189)CAG>CGG	p.Q63R	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	63					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		AAAATTCATCAGGCTTTAAAA	0.328													8	57					0	0	1	0	0		G	107917050	G	G	107917050	3	3	27	1	0	0	0	0	1	0	0	0	4062	188	7	3	198	3	CUL5	11	107917050	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	234596	107917050	27089466	5225	27576											
ATM	472	broad.mit.edu	37	chr11	108155161	108155161	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagactgctaccaaggtCtatgatatgcttaaaagtga	15	10	10	6	0	1	4	0	2	1	2	1	5	1	4	1	1	3	2	1	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:108155161C>A	uc001pkb.1	+	26	4339	c.3954C>A	c.(3952-3954)GTC>GTA	p.V1318V	ATM_uc009yxr.1_Silent_p.V1318V|ATM_uc001pkd.3_5'Flank|ATM_uc001pke.1_5'Flank	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1318					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding	p.V1292_Q1331del(1)		haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		CTACCAAGGTCTATGATATGC	0.363			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			19	55					0.000229342	0.000242117	1	1	0		A	108155161	A	A	108155161	2	1	27	1	0	0	0	0	0	0	0	1	1110	900	32	5		5	ATM	11	108155161	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	238111	108155161	26851355	5226	27577											
ATM	472	broad.mit.edu	37	chr11	108199851	108199851	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggttttcagatactcaatAccaaagaattgaaaactaca	17	10	5	9	1	2	3	2	1	0	2	2	3	2	3	2	1	4	1	2	1	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:108199851A>G	uc001pkb.1	+	49	7578	c.7193A>G	c.(7192-7194)TAC>TGC	p.Y2398C	ATM_uc009yxr.1_Missense_Mutation_p.Y2398C|C11orf65_uc010rvx.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.Y1050C|ATM_uc001pkg.1_Missense_Mutation_p.Y755C	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2398	FAT.				cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		GATACTCAATACCAAAGAATT	0.373			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			5	37					0	0	1	0	0		G	108199851	G	G	108199851	3	3	27	1	0	0	0	0	1	0	0	0	1110	391	14	3	7383	3	ATM	11	108199851	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	44690	108199851	26806665	5227	27578											
EXPH5	23086	broad.mit.edu	37	chr11	108381885	108381885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatggaatggctctaccaCtccctgtacactcccaagaa	13	9	6	13	0	1	1	0	0	1	1	3	2	3	2	3	2	2	2	3	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:108381885C>T	uc001pkk.2	-	6	4460	c.4349G>A	c.(4348-4350)AGT>AAT	p.S1450N	EXPH5_uc010rvy.1_Missense_Mutation_p.S1262N|EXPH5_uc010rvz.1_Missense_Mutation_p.S1294N|EXPH5_uc010rwa.1_Missense_Mutation_p.S1374N	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1450					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		GGCTCTACCACTCCCTGTACA	0.453													4	52					0	0	1	0	0		T	108381885	T	T	108381885	3	4	27	1	0	0	0	0	1	0	0	0	5330	565	20	4	1624	4	EXPH5	11	108381885	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	182034	108381885	26624631	5228	27579											
DDX10	1662	broad.mit.edu	37	chr11	108547842	108547842	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttatatcgtctgcaatggActtcaacagatgggctgggg	9	11	12	9	1	2	1	1	0	1	1	3	2	2	2	1	4	2	2	1	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:108547842A>G	uc001pkm.2	+	4	474	c.409A>G	c.(409-411)ACT>GCT	p.T137A	DDX10_uc001pkl.1_Missense_Mutation_p.T137A	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	137	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		TCTGCAATGGACTTCAACAGA	0.433			T	NUP98	AML*								9	89					0	0	1	0	0		G	108547842	G	G	108547842	3	3	27	1	0	0	0	0	1	0	0	0	4345	275	10	3	423	3	DDX10	11	108547842	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	165957	108547842	26458674	5229	27580											
ZC3H12C	85463	broad.mit.edu	37	chr11	110035934	110035934	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcttccgcacctggctctGcacctgccgcactccgctgt	3	10	8	20	3	2	0	0	0	2	0	4	0	4	0	6	1	2	5	6	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:110035934G>A	uc009yxw.2	+	6	2175	c.2124G>A	c.(2122-2124)CTG>CTA	p.L708L	ZC3H12C_uc010rwc.1_Silent_p.L709L|ZC3H12C_uc010rwd.1_Silent_p.L709L|ZC3H12C_uc001pkr.3_Silent_p.L677L	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	708							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		ACCTGGCTCTGCACCTGCCGC	0.587													42	151					0	0	1	0	0		A	110035934	A	A	110035934	2	1	27	1	0	0	0	0	0	0	0	1	17588	1306	46	2		2	ZC3H12C	11	110035934	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1488092	110035934	24970582	5230	27581											
SIK2	23235	broad.mit.edu	37	chr11	111593434	111593434	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacacctgtcagctttatTgcaaagaaccaccgcggagc	13	7	9	12	2	1	2	1	0	0	2	1	3	1	3	3	1	5	2	3	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:111593434T>C	uc001plt.2	+	14	2219	c.2101T>C	c.(2101-2103)TGC>CGC	p.C701R		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	701					intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						TCAGCTTTATTGCAAAGAACC	0.507													7	110					0	0	1	0	0		C	111593434	C	C	111593434	3	2	27	1	0	0	0	0	1	0	0	0	14343	1812	63	3	2155	3	SIK2	11	111593434	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1557500	111593434	23413082	5231	27582											
FDXACB1	91893	broad.mit.edu	37	chr11	111745746	111745746	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggccttgtcacaggtctggTaggtcaatctatagcagaga	10	10	13	8	0	4	1	2	0	2	1	4	2	4	1	1	4	1	2	1	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:111745746T>C	uc001pmc.3	-	5	2072	c.1775A>G	c.(1774-1776)TAC>TGC	p.Y592C	ALG9_uc010rwo.1_Intron|FDXACB1_uc009yyi.2_Missense_Mutation_p.Y443C	NM_138378	NP_612387	Q9BRP7	FDXA1_HUMAN	ferredoxin-fold anticodon binding domain	592	FDX-ACB.				phenylalanyl-tRNA aminoacylation|tRNA processing		ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0						ACAGGTCTGGTAGGTCAATCT	0.473													6	40					0	0	1	0	0		C	111745746	C	C	111745746	3	2	27	1	0	0	0	0	1	0	0	0	5820	1638	57	3	103	3	FDXACB1	11	111745746	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	152312	111745746	23260770	5232	27583											
DIXDC1	85458	broad.mit.edu	37	chr11	111888543	111888543	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattttaaagcagctattgaTcgggaaggaaatcaccggta	14	10	11	6	2	1	1	1	1	0	0	2	4	1	3	1	3	2	3	1	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:111888543T>C	uc001pml.2	+	20	2202	c.1905T>C	c.(1903-1905)GAT>GAC	p.D635D	DIXDC1_uc001pmm.2_Silent_p.D424D|DIXDC1_uc001pmn.2_Silent_p.D341D|DIXDC1_uc010rwq.1_Silent_p.D300D	NM_001037954	NP_001033043	Q155Q3	DIXC1_HUMAN	DIX domain containing 1 isoform a	635	DIX.				multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytosol|focal adhesion	actin binding|gamma-tubulin binding|signal transducer activity			ovary(1)	1		all_cancers(61;7.58e-15)|all_epithelial(67;5.42e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;2.99e-07)|BRCA - Breast invasive adenocarcinoma(274;6.72e-07)|all cancers(92;6.25e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0548)		CAGCTATTGATCGGGAAGGAA	0.428													4	33					0	0	1	0	0		C	111888543	C	C	111888543	2	2	27	1	0	0	0	0	0	0	0	1	4547	1432	50	3		3	DIXDC1	11	111888543	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	142797	111888543	23117973	5233	27584											
BCO2	83875	broad.mit.edu	37	chr11	112071468	112071468	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accccagtgtaatacgcggtTtcatgtggtggaaaaacgca	12	9	11	9	3	1	0	1	0	0	0	1	1	1	1	2	3	2	3	2	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:112071468T>C	uc001pnf.2	+	7	1115	c.998T>C	c.(997-999)TTT>TCT	p.F333S	BCO2_uc001pne.1_Missense_Mutation_p.F160S|BCO2_uc001png.2_Missense_Mutation_p.F260S|BCO2_uc001pnh.2_Missense_Mutation_p.F299S|BCO2_uc010rwt.1_Missense_Mutation_p.F228S|BCO2_uc009yyn.2_Missense_Mutation_p.F299S|BCO2_uc001pni.2_Missense_Mutation_p.F299S	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	333					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						AATACGCGGTTTCATGTGGTG	0.393													6	107					0	0	1	0	0		C	112071468	C	C	112071468	3	2	27	1	0	0	0	0	1	0	0	0	1386	1841	64	3	1024	3	BCO2	11	112071468	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	182925	112071468	22935048	5234	27585											
BCO2	83875	broad.mit.edu	37	chr11	112072775	112072775	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggagatactacagcaaaccTtttgttacatttcatcaaat	14	13	6	8	0	2	1	2	0	0	1	2	2	2	1	1	1	5	2	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:112072775T>G	uc001pnf.2	+	8	1173	c.1056T>G	c.(1054-1056)CCT>CCG	p.P352P	BCO2_uc001pne.1_Silent_p.P179P|BCO2_uc001png.2_Silent_p.P279P|BCO2_uc001pnh.2_Silent_p.P318P|BCO2_uc010rwt.1_Silent_p.P247P|BCO2_uc009yyn.2_Silent_p.P318P|BCO2_uc001pni.2_Silent_p.P318P	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	352					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						ACAGCAAACCTTTTGTTACAT	0.363													19	57					0	0	1	0	0		G	112072775	G	G	112072775	2	3	27	1	0	0	0	0	0	0	0	1	1386	1596	56	5		5	BCO2	11	112072775	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1307	112072775	22933741	5235	27586											
NCAM1	4684	broad.mit.edu	37	chr11	113085138	113085138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accagactgccatggaattaGaggagcaggtcactcttacc	12	8	10	11	0	2	2	1	0	1	2	2	4	2	4	3	3	3	1	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:113085138G>A	uc009yyq.1	+	8	1304	c.610G>A	c.(610-612)GAG>AAG	p.E204K	NCAM1_uc001pno.2_Missense_Mutation_p.E204K	NM_001076682	NP_001070150	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1 isoform 3	322	Ig-like C2-type 4.|Extracellular (Potential).				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		CATGGAATTAGAGGAGCAGGT	0.453													4	48					0	0	1	0	0		A	113085138	A	A	113085138	3	1	27	1	0	0	0	0	1	0	0	0	10221	943	33	4	995	4	NCAM1	11	113085138	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1012363	113085138	21921378	5236	27587											
NCAM1	4684	broad.mit.edu	37	chr11	113103011	113103011	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catggtttcgggatggccagCtgctgccaagctccaattac	8	10	11	12	1	0	0	0	0	0	0	2	1	1	1	3	3	5	4	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:113103011C>T	uc009yyq.1	+	12	1778	c.1084C>T	c.(1084-1086)CTG>TTG	p.L362L		NM_001076682	NP_001070150	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1 isoform 3	454	Ig-like C2-type 5.|Extracellular (Potential).				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		GGATGGCCAGCTGCTGCCAAG	0.547													8	57					0	0	1	0	0		T	113103011	T	T	113103011	2	4	27	1	0	0	0	0	0	0	0	1	10221	796	28	2		2	NCAM1	11	113103011	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17873	113103011	21903505	5237	27588											
NCAM1	4684	broad.mit.edu	37	chr11	113105824	113105824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacgccgtaaggctggcggCgctcaatggcaaagggctgg	8	6	17	10	4	1	0	1	0	0	0	1	0	1	0	1	6	1	6	1	6	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:113105824C>T	uc009yyq.1	+	15	2181	c.1487C>T	c.(1486-1488)GCG>GTG	p.A496V		NM_001076682	NP_001070150	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1 isoform 3	588	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		AGGCTGGCGGCGCTCAATGGC	0.587													4	13					0	0	1	0	0		T	113105824	T	T	113105824	3	4	27	1	0	0	0	0	1	0	0	0	10221	768	27	1	1818	1	NCAM1	11	113105824	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2813	113105824	21900692	5238	27589											
TTC12	54970	broad.mit.edu	37	chr11	113210045	113210045	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatcttcaggaaaaagcagaCcttcaagaaaaggaagccca	18	5	9	9	0	3	2	2	0	1	2	3	5	3	4	2	2	2	1	2	2	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:113210045C>T	uc001pnu.2	+	10	780	c.675C>T	c.(673-675)GAC>GAT	p.D225D	TTC12_uc001pnv.2_Silent_p.D231D|TTC12_uc001pnw.2_RNA|TTC12_uc001pnx.2_Silent_p.D75D	NM_017868	NP_060338	Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12	225							binding			pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4		all_cancers(61;2.73e-16)|all_epithelial(67;8.64e-10)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.183)|Renal(330;0.187)		BRCA - Breast invasive adenocarcinoma(274;5.3e-06)|Epithelial(105;8.37e-05)|all cancers(92;0.000694)		AAAAAGCAGACCTTCAAGAAA	0.448													9	84					0	0	1	0	0		T	113210045	T	T	113210045	2	4	27	1	0	0	0	0	0	0	0	1	16705	506	18	4		4	TTC12	11	113210045	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	104221	113210045	21796471	5239	27590											
DRD2	1813	broad.mit.edu	37	chr11	113283413	113283413	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaagatcttggcaatcttggGgtggtctttggcatgcccat	8	13	12	8	0	3	1	0	0	3	1	3	1	3	1	1	5	1	2	1	5	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:113283413G>T	uc001pnz.2	-	6	1324	c.1003C>A	c.(1003-1005)CCC>ACC	p.P335T	DRD2_uc010rwv.1_Missense_Mutation_p.P334T|DRD2_uc001poa.3_Missense_Mutation_p.P335T|DRD2_uc001pob.3_Missense_Mutation_p.P306T	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	335	Cytoplasmic (By similarity).|Interaction with PPP1R9B (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		all_cancers(61;3.91e-16)|all_epithelial(67;2.95e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000977)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0494)		BRCA - Breast invasive adenocarcinoma(274;5.77e-06)|Epithelial(105;6.66e-05)|all cancers(92;0.000307)|OV - Ovarian serous cystadenocarcinoma(223;0.216)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	GCAATCTTGGGGTGGTCTTTG	0.587													8	68					0.0381472	0.0386818	1	1	0		T	113283413	T	T	113283413	3	4	27	1	0	0	0	0	1	0	0	0	4763	1232	43	5	336	5	DRD2	11	113283413	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	73368	113283413	21723103	5240	27591											
DRD2	1813	broad.mit.edu	37	chr11	113295153	113295153	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcggccactgcgaggctgAcgatcaggtagttggtggtg	6	9	18	8	3	1	1	1	1	0	0	2	3	1	1	1	6	1	3	1	6	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:113295153A>T	uc001pnz.2	-	1	542	c.221T>A	c.(220-222)GTC>GAC	p.V74D	DRD2_uc010rwv.1_Missense_Mutation_p.V74D|DRD2_uc001poa.3_Missense_Mutation_p.V74D|DRD2_uc001pob.3_Missense_Mutation_p.V74D|DRD2_uc009yyr.1_Missense_Mutation_p.V74D	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	74	Helical; Name=2; (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		all_cancers(61;3.91e-16)|all_epithelial(67;2.95e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000977)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0494)		BRCA - Breast invasive adenocarcinoma(274;5.77e-06)|Epithelial(105;6.66e-05)|all cancers(92;0.000307)|OV - Ovarian serous cystadenocarcinoma(223;0.216)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	TGCGAGGCTGACGATCAGGTA	0.627													6	52					0	0	1	0	0		T	113295153	T	T	113295153	3	4	27	1	0	0	0	0	1	0	0	0	4763	275	10	5	1138	5	DRD2	11	113295153	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11740	113295153	21711363	5241	27592											
USP28	57646	broad.mit.edu	37	chr11	113700038	113700038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgaagaggatactggcCgaaggtctcattgttacaaa	13	10	10	8	1	1	2	1	1	1	1	2	4	1	3	2	3	3	1	2	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:113700038C>T	uc001poh.2	-	10	973	c.940G>A	c.(940-942)GGC>AGC	p.G314S	USP28_uc001pog.2_Missense_Mutation_p.G22S|USP28_uc010rwy.1_Missense_Mutation_p.G189S|USP28_uc001poi.2_5'UTR|USP28_uc001poj.3_Missense_Mutation_p.G314S	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	314					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		GGATACTGGCCGAAGGTCTCA	0.453													5	66					0	0	1	0	0		T	113700038	T	T	113700038	3	4	27	1	0	0	0	0	1	0	0	0	17084	652	23	1	2357	1	USP28	11	113700038	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	404885	113700038	21306478	5242	27593											
USP28	57646	broad.mit.edu	37	chr11	113700069	113700069	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttacaaaagggttttccTaggcaaagagagagactttt	13	13	10	5	0	0	2	0	0	0	2	1	4	1	2	1	2	1	3	1	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:113700069T>C	uc001poh.2	-	10	944	c.911_splice	c.e10-1	p.G304_splice	USP28_uc001pog.2_Silent_p.L11L|USP28_uc010rwy.1_Splice_Site_p.G179_splice|USP28_uc001poi.2_Splice_Site|USP28_uc001poj.3_Splice_Site_p.G304_splice	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28						cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		AGGGTTTTCCTAGGCAAAGAG	0.428													6	54					0	0	1	0	0		C	113700069	C	C	113700069	5	2	27	1	0	0	0	0	0	0	1	0	17084	1536	53	3	2388	3	USP28	11	113700069	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31	113700069	21306447	5243	27594											
HTR3A	3359	broad.mit.edu	37	chr11	113857522	113857522	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacctcctgcatgtgtctCttgcctctgccctgggctgc	2	12	9	18	0	2	0	0	0	2	0	4	0	3	0	5	1	4	2	5	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:113857522C>A	uc010rxb.1	+	7	1239	c.1006C>A	c.(1006-1008)CTT>ATT	p.L336I	HTR3A_uc010rxa.1_Intron|HTR3A_uc009yyx.2_Intron|HTR3A_uc010rxc.1_Intron	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	GCATGTGTCTCTTGCCTCTGC	0.597													6	86					0.0215528	0.0219246	1	1	0		A	113857522	A	A	113857522	3	1	27	1	0	0	0	0	1	0	0	0	7460	913	32	5	1058	5	HTR3A	11	113857522	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	157453	113857522	21148994	5244	27595											
ZBTB16	7704	broad.mit.edu	37	chr11	114112918	114112918	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgtcttctgtctgctgTgtgggaagcgcttccaggcg	3	12	15	11	3	3	0	0	0	3	0	4	1	4	1	2	3	2	2	2	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:114112918T>G	uc001pop.2	+	5	1747	c.1483T>G	c.(1483-1485)TGT>GGT	p.C495G	ZBTB16_uc001poq.2_Missense_Mutation_p.C495G	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	495	C2H2-type 4.				apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		CTGTCTGCTGTGTGGGAAGCG	0.602													4	25					0	0	1	0	0		G	114112918	G	G	114112918	3	3	27	1	0	0	0	0	1	0	0	0	17551	1696	59	5	1497	5	ZBTB16	11	114112918	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	255396	114112918	20893598	5245	27596											
ZBTB16	7704	broad.mit.edu	37	chr11	114121116	114121116	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcggccatgatcaagcacCtgagaacgcacaacggcgcc	12	4	10	15	4	1	2	1	2	0	1	2	3	1	2	3	2	3	2	3	2	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:114121116C>A	uc001pop.2	+	7	2125	c.1861C>A	c.(1861-1863)CTG>ATG	p.L621M	ZBTB16_uc001poq.2_Missense_Mutation_p.L621M	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	621	C2H2-type 8.				apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		GATCAAGCACCTGAGAACGCA	0.612													6	56					0.0215528	0.0219246	1	1	0		A	114121116	A	A	114121116	3	1	27	1	0	0	0	0	1	0	0	0	17551	680	24	5	1883	5	ZBTB16	11	114121116	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8198	114121116	20885400	5246	27597											
ZBTB16	7704	broad.mit.edu	37	chr11	114121139	114121139	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacgcacaacggcgcctcGccctaccagtgcaccatctg	10	5	9	17	4	1	1	0	0	1	1	2	1	1	1	4	1	4	2	4	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:114121139G>T	uc001pop.2	+	7	2148	c.1884G>T	c.(1882-1884)TCG>TCT	p.S628S	ZBTB16_uc001poq.2_Silent_p.S628S	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	628					apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		ACGGCGCCTCGCCCTACCAGT	0.622													3	50					0.004672	0.0048188	1	1	0		T	114121139	T	T	114121139	2	4	27	1	0	0	0	0	0	0	0	1	17551	1074	38	5		5	ZBTB16	11	114121139	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23	114121139	20885377	5247	27598											
FAM55A	120400	broad.mit.edu	37	chr11	114392823	114392823	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttgaggtctttgaaaataTccttcatgataagatagtga	13	14	9	5	1	2	5	1	4	1	1	3	5	3	5	1	1	0	1	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:114392823T>A	uc001ppa.2	-	6	1502	c.1085A>T	c.(1084-1086)GAT>GTT	p.D362V	FAM55A_uc010rxd.1_Missense_Mutation_p.D211V	NM_152315	NP_689528	Q8N323	FA55A_HUMAN	hypothetical protein LOC120400	504						extracellular region					0		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;3.02e-06)|Epithelial(105;0.000144)|all cancers(92;0.00106)		TTTGAAAATATCCTTCATGAT	0.408													7	71					0	0	1	0	0		A	114392823	A	A	114392823	3	1	27	1	0	0	0	0	1	0	0	0	5598	1435	50	5	136	5	FAM55A	11	114392823	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	271684	114392823	20613693	5248	27599											
FAM55A	120400	broad.mit.edu	37	chr11	114401086	114401086	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacattcagtgaagacaTgagaggtgccattaacaaat	15	8	10	8	0	1	3	1	2	0	2	1	4	1	3	2	2	2	0	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:114401086T>C	uc001ppa.2	-	3	635	c.218A>G	c.(217-219)CAT>CGT	p.H73R	FAM55A_uc010rxd.1_5'UTR|FAM55A_uc001ppb.1_Missense_Mutation_p.H215R	NM_152315	NP_689528	Q8N323	FA55A_HUMAN	hypothetical protein LOC120400	215						extracellular region					0		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;3.02e-06)|Epithelial(105;0.000144)|all cancers(92;0.00106)		AGTGAAGACATGAGAGGTGCC	0.453													5	89					0	0	1	0	0		C	114401086	C	C	114401086	3	2	27	1	0	0	0	0	1	0	0	0	5598	1464	51	3	1015	3	FAM55A	11	114401086	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8263	114401086	20605430	5249	27600											
APOA5	116519	broad.mit.edu	37	chr11	116661462	116661462	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtccacgccccccagcaaCtgggccttggtgtcttcccc	4	9	9	19	2	1	0	0	0	1	0	4	0	3	0	7	2	2	1	7	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:116661462C>A	uc001ppr.2	-	3	491	c.483G>T	c.(481-483)CAG>CAT	p.Q161H	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Missense_Mutation_p.Q161H|APOA5_uc009yzf.2_Missense_Mutation_p.Q161H|APOA5_uc009yzg.2_Missense_Mutation_p.Q187H	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	161					acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		CCCCCAGCAACTGGGCCTTGG	0.642													8	64					0.000157383	0.000166242	1	1	0		A	116661462	A	A	116661462	3	1	27	1	0	0	0	0	1	0	0	0	784	564	20	5	621	5	APOA5	11	116661462	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2260376	116661462	18345054	5250	27601											
APOA5	116519	broad.mit.edu	37	chr11	116661593	116661593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccctccaaattccagcccaCcagctcgtgcgcctctgcca	7	7	7	20	2	1	0	0	0	1	0	4	0	3	0	7	0	4	1	7	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:116661593C>T	uc001ppr.2	-	3	360	c.352G>A	c.(352-354)GTG>ATG	p.V118M	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Missense_Mutation_p.V118M|APOA5_uc009yzf.2_Missense_Mutation_p.V118M|APOA5_uc009yzg.2_Missense_Mutation_p.V144M	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	118	Potential.				acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		TTCCAGCCCACCAGCTCGTGC	0.652													5	73					0	0	1	0	0		T	116661593	T	T	116661593	3	4	27	1	0	0	0	0	1	0	0	0	784	507	18	4	752	4	APOA5	11	116661593	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	131	116661593	18344923	5251	27602											
SIK3	23387	broad.mit.edu	37	chr11	116744247	116744247	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtgggcgcttcagcagctGctgggcatgcagttggatgt	5	10	16	10	2	1	0	1	0	0	0	1	1	1	1	1	3	4	7	1	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:116744247G>A	uc001ppy.2	-	13	1549	c.1513C>T	c.(1513-1515)CAG>TAG	p.Q505*	SIK3_uc001ppz.2_Nonsense_Mutation_p.Q404*|SIK3_uc001pqa.2_Nonsense_Mutation_p.Q457*	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	505						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						TTCAGCAGCTGCTGGGCATGC	0.582													4	55					0	0	1	0	0		A	116744247	A	A	116744247	4	1	27	1	0	0	0	0	0	1	0	0	14344	1328	46	2	2322	2	SIK3	11	116744247	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	82654	116744247	18262269	5252	27603											
SIK3	23387	broad.mit.edu	37	chr11	116767020	116767020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccactcagcacgcgggcccGcagattctgcagtgtgcttc	6	9	11	15	3	2	1	1	0	1	1	4	1	3	1	2	1	3	4	2	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:116767020G>A	uc001ppy.2	-	6	676	c.640C>T	c.(640-642)CGG>TGG	p.R214W	SIK3_uc001ppz.2_Missense_Mutation_p.R113W|SIK3_uc001pqa.2_Missense_Mutation_p.R214W	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	214	Protein kinase.					cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						ACGCGGGCCCGCAGATTCTGC	0.512													8	93					0	0	1	0	0		A	116767020	A	A	116767020	3	1	27	1	0	0	0	0	1	0	0	0	14344	1086	38	1	3223	1	SIK3	11	116767020	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	22773	116767020	18239496	5253	27604											
PAFAH1B2	5049	broad.mit.edu	37	chr11	117038342	117038342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggggctatgcaaagatctGcaaacccctgcatgaactga	13	7	11	10	0	1	3	0	2	1	1	1	3	1	3	2	2	5	4	2	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:117038342G>A	uc001pqe.1	+	6	719	c.617G>A	c.(616-618)TGC>TAC	p.C206Y	PAFAH1B2_uc009yzk.1_Intron|PAFAH1B2_uc009yzl.1_Intron|PAFAH1B2_uc009yzm.2_Intron|PAFAH1B2_uc009yzn.2_Intron|PAFAH1B2_uc009yzj.1_RNA|uc001pqf.2_5'Flank	NM_002572	NP_002563	P68402	PA1B2_HUMAN	platelet-activating factor acetylhydrolase,	206					lipid catabolic process	cytoplasm	1-alkyl-2-acetylglycerophosphocholine esterase activity			kidney(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;1.68e-05)|Epithelial(105;0.000162)|all cancers(92;0.00111)		GCAAAGATCTGCAAACCCCTG	0.502			T	IGH@	MLCLS								5	51					0	0	1	0	0		A	117038342	A	A	117038342	3	1	27	1	0	0	0	0	1	0	0	0	11404	1319	46	2	635	2	PAFAH1B2	11	117038342	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	271322	117038342	17968174	5254	27605											
SIDT2	51092	broad.mit.edu	37	chr11	117066583	117066583	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgacttctttgacgaccaCgacatctggcacttcctctc	7	12	6	16	3	3	1	0	1	3	0	6	4	4	1	2	1	0	1	2	1	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:117066583C>T	uc001pqh.1	+	25	2429	c.2388C>T	c.(2386-2388)CAC>CAT	p.H796H	SIDT2_uc010rxe.1_Silent_p.H796H|SIDT2_uc001pqg.2_Silent_p.H817H|SIDT2_uc001pqi.1_Silent_p.H793H|SIDT2_uc001pqj.1_Silent_p.H108H|uc001pqk.1_RNA	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	796	Cytoplasmic (Potential).					integral to membrane|lysosomal membrane					0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		TTGACGACCACGACATCTGGC	0.602													35	169					0	0	1	0	0		T	117066583	T	T	117066583	2	4	27	1	0	0	0	0	0	0	0	1	14328	535	19	1		1	SIDT2	11	117066583	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	28241	117066583	17939933	5255	27606											
TAGLN	6876	broad.mit.edu	37	chr11	117074585	117074585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggcactaccgtggagatcCcaactggtttatgaagtatg	10	11	12	8	1	0	2	0	1	0	1	1	3	1	2	2	3	2	3	2	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:117074585C>T	uc001pqm.2	+	4	567	c.446C>T	c.(445-447)CCC>CTC	p.P149L	uc001pqk.1_5'Flank|TAGLN_uc001pql.1_Intron|TAGLN_uc001pqn.2_Missense_Mutation_p.P149L|TAGLN_uc001pqo.2_Missense_Mutation_p.P149L|TAGLN_uc001pqp.2_Missense_Mutation_p.P149L|uc001pqq.1_5'Flank	NM_003186	NP_003177	Q01995	TAGL_HUMAN	transgelin	149					muscle organ development	cytoplasm	actin binding				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|Epithelial(105;5.49e-05)|all cancers(92;0.000435)		CGTGGAGATCCCAACTGGTTT	0.562													3	49					0	0	1	0	0		T	117074585	T	T	117074585	3	4	27	1	0	0	0	0	1	0	0	0	15563	623	22	4	456	4	TAGLN	11	117074585	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8002	117074585	17931931	5256	27607											
PCSK7	9159	broad.mit.edu	37	chr11	117089225	117089225	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggggactgcggaatcgcCttgttttcttttaacacggg	6	12	14	9	4	1	0	0	0	1	0	2	2	1	2	1	5	2	1	1	5	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:117089225C>A	uc001pqr.2	-	12	1692	c.1491G>T	c.(1489-1491)AAG>AAT	p.K497N		NM_004716	NP_004707	Q16549	PCSK7_HUMAN	proprotein convertase subtilisin/kexin type 7	497	Homo B/P.|Extracellular (Potential).				peptide hormone processing	integral to Golgi membrane	serine-type endopeptidase activity				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.72e-06)|Epithelial(105;6.71e-05)|all cancers(92;0.000537)		GCGGAATCGCCTTGTTTTCTT	0.502			T	IGH@	MLCLS								8	135					0.000673444	0.000703801	1	1	0		A	117089225	A	A	117089225	3	1	27	1	0	0	0	0	1	0	0	0	11624	680	24	5	890	5	PCSK7	11	117089225	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14640	117089225	17917291	5257	27608											
RNF214	257160	broad.mit.edu	37	chr11	117152804	117152804	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggctcccatggcagaaaTagccctggcttgggttccct	6	10	11	14	0	0	1	0	0	0	1	2	1	2	1	4	4	1	4	4	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:117152804T>C	uc001pqt.2	+	11	1575	c.1530T>C	c.(1528-1530)AAT>AAC	p.N510N	RNF214_uc001pqu.2_Silent_p.N510N|RNF214_uc010rxf.1_Silent_p.N355N	NM_207343	NP_997226	Q8ND24	RN214_HUMAN	ring finger protein 214	510	Pro-rich.						zinc ion binding				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.88e-05)|Epithelial(105;0.000397)|all cancers(92;0.00258)		ATGGCAGAAATAGCCCTGGCT	0.637													14	181					0	0	1	0	0		C	117152804	C	C	117152804	2	2	27	1	0	0	0	0	0	0	0	1	13503	1403	49	3		3	RNF214	11	117152804	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	63579	117152804	17853712	5258	27609											
RNF214	257160	broad.mit.edu	37	chr11	117155864	117155864	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccttttgtccaactcttaaAtgacggacctgactggggag	9	11	10	11	1	1	2	0	2	1	0	2	4	2	4	3	3	1	0	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:117155864A>T	uc001pqt.2	+	15	2154	c.2109A>T	c.(2107-2109)AAA>AAT	p.K703N	RNF214_uc001pqu.2_Missense_Mutation_p.K703N|RNF214_uc010rxf.1_Missense_Mutation_p.K548N	NM_207343	NP_997226	Q8ND24	RN214_HUMAN	ring finger protein 214	703							zinc ion binding				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.88e-05)|Epithelial(105;0.000397)|all cancers(92;0.00258)		CAACTCTTAAATGACGGACCT	0.418													11	83					0	0	1	0	0		T	117155864	T	T	117155864	3	4	27	1	0	0	0	0	1	0	0	0	13503	98	4	5	2163	5	RNF214	11	117155864	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3060	117155864	17850652	5259	27610											
DSCAML1	57453	broad.mit.edu	37	chr11	117310647	117310647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaaaggagatgatctttgCtggggctacagggaggagag	11	7	16	7	0	1	3	0	1	1	2	1	6	1	4	1	5	2	2	1	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:117310647C>T	uc001prh.1	-	22	4050	c.4048G>A	c.(4048-4050)GCA>ACA	p.A1350T		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1290	Extracellular (Potential).|Ig-like C2-type 10.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		ATGATCTTTGCTGGGGCTACA	0.547													7	100					0	0	1	0	0		T	117310647	T	T	117310647	3	4	27	1	0	0	0	0	1	0	0	0	4775	797	28	2	2341	2	DSCAML1	11	117310647	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	154783	117310647	17695869	5260	27611											
DSCAML1	57453	broad.mit.edu	37	chr11	117351946	117351946	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacgagttgatggcatggcAgctgaagaacacagagtccc	13	7	12	9	1	0	4	0	2	0	2	1	5	1	4	1	2	3	4	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:117351946A>G	uc001prh.1	-	13	2781	c.2779T>C	c.(2779-2781)TGC>CGC	p.C927R		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	867	Extracellular (Potential).|Ig-like C2-type 9.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		ATGGCATGGCAGCTGAAGAAC	0.602													6	71					0	0	1	0	0		G	117351946	G	G	117351946	3	3	27	1	0	0	0	0	1	0	0	0	4775	188	7	3	3646	3	DSCAML1	11	117351946	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	41299	117351946	17654570	5261	27612											
DSCAML1	57453	broad.mit.edu	37	chr11	117376239	117376239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgatgcatgtatagttgccGttgtgcttgagggagacgct	7	12	15	7	3	0	2	0	1	0	1	0	4	0	2	1	1	3	6	1	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:117376239G>A	uc001prh.1	-	9	2174	c.2172C>T	c.(2170-2172)AAC>AAT	p.N724N		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	664	Extracellular (Potential).|Ig-like C2-type 7.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TATAGTTGCCGTTGTGCTTGA	0.617													20	66					0	0	1	0	0		A	117376239	A	A	117376239	2	1	27	1	0	0	0	0	0	0	0	1	4775	1136	40	1		1	DSCAML1	11	117376239	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	24293	117376239	17630277	5262	27613											
MPZL3	196264	broad.mit.edu	37	chr11	118106262	118106262	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggctgagggcacaaagacaAggatggaaagaagggccaca	16	2	15	8	1	0	3	0	1	0	2	0	5	0	5	1	5	0	2	1	5	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:118106262A>G	uc001psm.2	-	4	496	c.494T>C	c.(493-495)CTT>CCT	p.L165P	MPZL3_uc010rxy.1_Missense_Mutation_p.L153P|MPZL3_uc010rxz.1_RNA|MPZL3_uc009yzy.2_Intron	NM_198275	NP_938016	Q6UWV2	MPZL3_HUMAN	myelin protein zero-like 3 precursor	165	Helical; (Potential).				cell adhesion	integral to membrane					0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		CACAAAGACAAGGATGGAAAG	0.537													5	87					0	0	1	0	0		G	118106262	G	G	118106262	3	3	27	1	0	0	0	0	1	0	0	0	9769	72	3	3	225	3	MPZL3	11	118106262	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	730023	118106262	16900254	5263	27614											
CD3D	915	broad.mit.edu	37	chr11	118211157	118211157	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccattacacctatatatTcctcgtgggtccaggatgcg	8	12	9	12	2	0	0	0	0	0	0	4	1	3	1	4	2	2	0	4	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:118211157T>A	uc001pss.1	-	2	344	c.207A>T	c.(205-207)GGA>GGT	p.G69G	CD3D_uc001pst.1_Silent_p.G69G	NM_000732	NP_000723	P04234	CD3D_HUMAN	CD3 antigen, delta subunit isoform A precursor	69	Extracellular (Potential).				positive thymic T cell selection|T cell costimulation|T cell receptor signaling pathway	cytoplasm|integral to membrane	protein heterodimerization activity			ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.04e-05)		ACCTATATATTCCTCGTGGGT	0.463													5	69					0	0	1	0	0		A	118211157	A	A	118211157	2	1	27	1	0	0	0	0	0	0	0	1	3013	1770	62	5		5	CD3D	11	118211157	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	104895	118211157	16795359	5264	27615											
MLL	4297	broad.mit.edu	37	chr11	118359369	118359369	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtgagcccttccacaagtTttgtttagaggagaacgagc	10	12	11	8	1	0	3	0	1	0	2	1	5	1	3	2	1	3	2	2	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:118359369T>C	uc001pta.2	+	11	4396	c.4373T>C	c.(4372-4374)TTT>TCT	p.F1458S	MLL_uc001ptb.2_Missense_Mutation_p.F1458S|MLL_uc001pte.1_RNA	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1458	PHD-type 1.				apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TTCCACAAGTTTTGTTTAGAG	0.418			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								7	58					0	0	1	0	0		C	118359369	C	C	118359369	3	2	27	1	0	0	0	0	1	0	0	0	9638	1841	64	3	4415	3	MLL	11	118359369	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	148212	118359369	16647147	5265	27616											
MLL	4297	broad.mit.edu	37	chr11	118376836	118376836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaagttcaggaatgtttcCacaactggggacatcacaga	13	8	10	10	0	2	1	2	0	0	1	3	3	3	3	2	3	1	2	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:118376836C>T	uc001pta.2	+	27	10243	c.10220C>T	c.(10219-10221)CCA>CTA	p.P3407L	MLL_uc001ptb.2_Missense_Mutation_p.P3410L	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3407					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GGAATGTTTCCACAACTGGGG	0.517			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								8	193					0	0	1	0	0		T	118376836	T	T	118376836	3	4	27	1	0	0	0	0	1	0	0	0	9638	594	21	4	10326	4	MLL	11	118376836	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17467	118376836	16629680	5266	27617											
TMEM25	84866	broad.mit.edu	37	chr11	118403848	118403848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacggtgcagctgcagctccGcagcctggcacacaacctct	8	6	10	17	2	1	0	0	0	1	0	2	0	2	0	3	2	6	6	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:118403848G>A	uc010rye.1	+	4	773	c.599G>A	c.(598-600)CGC>CAC	p.R200H	TMEM25_uc010ryd.1_Missense_Mutation_p.R200H|TMEM25_uc001ptk.3_Missense_Mutation_p.R200H|TMEM25_uc001pth.2_Missense_Mutation_p.R200H|TMEM25_uc009zad.2_Missense_Mutation_p.R200H|TMEM25_uc001pti.2_Missense_Mutation_p.R96H|TMEM25_uc010ryf.1_Intron|TMEM25_uc001ptl.2_Missense_Mutation_p.R200H|TMEM25_uc001ptm.2_Missense_Mutation_p.R200H|TMEM25_uc001ptn.2_Missense_Mutation_p.R200H	NM_032780	NP_116169	Q86YD3	TMM25_HUMAN	transmembrane protein 25 isoform 1	200	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane					0	all_hematologic(175;0.0349)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)		BRCA - Breast invasive adenocarcinoma(274;3.04e-05)		CTGCAGCTCCGCAGCCTGGCA	0.637													7	31					0	0	1	0	0		A	118403848	A	A	118403848	3	1	27	1	0	0	0	0	1	0	0	0	16175	1087	38	1	609	1	TMEM25	11	118403848	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27012	118403848	16602668	5267	27618											
PHLDB1	23187	broad.mit.edu	37	chr11	118498402	118498402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccccgctggtacctgcccGttcctccagctaccatctgg	4	9	9	19	2	1	0	0	0	1	0	3	0	3	0	7	2	4	4	7	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:118498402G>A	uc001ptr.1	+	7	1216	c.863G>A	c.(862-864)CGT>CAT	p.R288H	PHLDB1_uc010ryh.1_Missense_Mutation_p.R287H|PHLDB1_uc001pts.2_Missense_Mutation_p.R288H|PHLDB1_uc001ptt.2_Missense_Mutation_p.R288H|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Missense_Mutation_p.R88H|PHLDB1_uc001ptw.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	288											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		GTACCTGCCCGTTCCTCCAGC	0.637													7	77					0	0	1	0	0		A	118498402	A	A	118498402	3	1	27	1	0	0	0	0	1	0	0	0	11870	1145	40	1	881	1	PHLDB1	11	118498402	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	94554	118498402	16508114	5268	27619											
PHLDB1	23187	broad.mit.edu	37	chr11	118498590	118498590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagccactgagagccccCggctgggtgggcagctgcct	6	5	17	13	1	0	2	0	1	0	2	0	4	0	2	4	4	4	3	4	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:118498590C>T	uc001ptr.1	+	7	1404	c.1051C>T	c.(1051-1053)CGG>TGG	p.R351W	PHLDB1_uc010ryh.1_Missense_Mutation_p.R350W|PHLDB1_uc001pts.2_Missense_Mutation_p.R351W|PHLDB1_uc001ptt.2_Missense_Mutation_p.R351W|PHLDB1_uc001ptu.1_Intron|PHLDB1_uc001ptv.1_Missense_Mutation_p.R151W|PHLDB1_uc001ptw.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	351											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		TGAGAGCCCCCGGCTGGGTGG	0.657													5	29					0	0	1	0	0		T	118498590	T	T	118498590	3	4	27	1	0	0	0	0	1	0	0	0	11870	643	23	1	1069	1	PHLDB1	11	118498590	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	188	118498590	16507926	5269	27620											
HYOU1	10525	broad.mit.edu	37	chr11	118919507	118919507	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccccgatctcctctaccAttcgccgcttcctggcgggc	4	9	8	20	4	2	0	0	0	2	0	5	1	3	0	7	2	1	1	7	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:118919507A>G	uc001puu.2	-	18	2277	c.2084T>C	c.(2083-2085)ATG>ACG	p.M695T	HYOU1_uc001put.2_Missense_Mutation_p.M660T|HYOU1_uc010ryu.1_Missense_Mutation_p.M653T|HYOU1_uc010ryv.1_Missense_Mutation_p.M584T|HYOU1_uc001pux.3_Missense_Mutation_p.M695T|HYOU1_uc010ryw.1_RNA	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	695						endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)		CTCCTCTACCATTCGCCGCTT	0.607													7	62					0	0	1	0	0		G	118919507	G	G	118919507	3	3	27	1	0	0	0	0	1	0	0	0	7486	217	8	3	951	3	HYOU1	11	118919507	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	420917	118919507	16087009	5270	27621											
HYOU1	10525	broad.mit.edu	37	chr11	118922291	118922291	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacccgtttattgtgcttcAggctgtgaatcccaggctcc	6	13	10	12	1	1	1	1	1	0	0	3	1	3	1	3	2	2	5	3	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:118922291A>G	uc001puu.2	-	13	1578	c.1385T>C	c.(1384-1386)CTG>CCG	p.L462P	HYOU1_uc001put.2_Missense_Mutation_p.L427P|HYOU1_uc010ryu.1_Missense_Mutation_p.L482P|HYOU1_uc010ryv.1_Missense_Mutation_p.L351P|HYOU1_uc001pux.3_Missense_Mutation_p.L462P|HYOU1_uc010ryw.1_RNA|HYOU1_uc001puw.1_Missense_Mutation_p.L462P	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	462						endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)		ATTGTGCTTCAGGCTGTGAAT	0.537													7	74					0	0	1	0	0		G	118922291	G	G	118922291	3	3	27	1	0	0	0	0	1	0	0	0	7486	188	7	3	1670	3	HYOU1	11	118922291	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2784	118922291	16084225	5271	27622											
MCAM	4162	broad.mit.edu	37	chr11	119185585	119185585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtactcctgggaccgagggcGcttgccctggcacaagaaga	9	6	14	12	2	0	2	0	0	0	2	1	4	1	3	3	3	2	3	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:119185585G>A	uc001pwf.2	-	3	387	c.358C>T	c.(358-360)CGC>TGC	p.R120C		NM_006500	NP_006491	P43121	MUC18_HUMAN	melanoma cell adhesion molecule	120	Extracellular (Potential).|Ig-like V-type 1.				anatomical structure morphogenesis|cell adhesion	integral to membrane|plasma membrane				ovary(2)|breast(1)|central_nervous_system(1)	4		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.78e-05)		GACCGAGGGCGCTTGCCCTGG	0.642													11	53					0	0	1	0	0		A	119185585	A	A	119185585	3	1	27	1	0	0	0	0	1	0	0	0	9386	1087	38	1	1638	1	MCAM	11	119185585	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	263294	119185585	15820931	5272	27623											
RNF26	79102	broad.mit.edu	37	chr11	119205959	119205959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctggctcctggccttcGtctacaacctgccgcacacg	5	9	10	17	3	1	0	0	0	1	0	3	0	2	0	5	3	3	2	5	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:119205959G>A	uc001pwh.2	+	1	723	c.127G>A	c.(127-129)GTC>ATC	p.V43I		NM_032015	NP_114404	Q9BY78	RNF26_HUMAN	ring finger protein 26	43	Leu-rich.						zinc ion binding			ovary(1)	1		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.8e-05)		CCTGGCCTTCGTCTACAACCT	0.607													21	101					0	0	1	0	0		A	119205959	A	A	119205959	3	1	27	1	0	0	0	0	1	0	0	0	13511	1145	40	1	129	1	RNF26	11	119205959	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20374	119205959	15800557	5273	27624											
MFRP	83552	broad.mit.edu	37	chr11	119213688	119213688	+	Frame_Shift_Del	DEL	G	-	-																															atggtgcgaggagacgaggtGggggggtggctctgctccac																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:119213688delG	uc001pwj.2	-	10	1310	c.1150delC	c.(1150-1152)CACfs	p.H384fs	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Frame_Shift_Del_p.P308fs	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		GAGACGAGGTGGGGGGGTGGC	0.622													4	9	---	---	---	---						.	-	119213688	-	-	119213688	7	5	27	1	0	1	0	1	0	0	0	0	9544	1348	47	0	605	0	MFRP	11	119213688	Frame_Shift_Del	DEL	G	TCGA-BR-6452-01A-12D-1800-08	7729	119213688	15792828	5274	27625											
MFRP	83552	broad.mit.edu	37	chr11	119217211	119217211	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcagaggatgacatctgAgaagtccttcatggcacaag	13	8	11	9	0	2	3	1	2	1	2	3	5	3	4	1	2	1	2	1	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:119217211A>G	uc001pwj.2	-	1	173	c.13T>C	c.(13-15)TCA>CCA	p.S5P	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Missense_Mutation_p.S5P	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		ATGACATCTGAGAAGTCCTTC	0.562													7	77					0	0	1	0	0		G	119217211	G	G	119217211	3	3	27	1	0	0	0	0	1	0	0	0	9544	304	11	3	1778	3	MFRP	11	119217211	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3523	119217211	15789305	5275	27626											
USP2	9099	broad.mit.edu	37	chr11	119243939	119243939	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttaccacccccagtgatGtcgggtctcagcagggggcg	6	7	14	14	3	1	1	1	1	1	0	3	1	1	1	3	3	2	2	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:119243939G>A	uc001pwm.3	-	2	547	c.252C>T	c.(250-252)GAC>GAT	p.D84D	USP2_uc001pwn.3_Intron	NM_004205	NP_004196	O75604	UBP2_HUMAN	ubiquitin specific peptidase 2 isoform a	84	Necessary for interaction with MDM4.				cell cycle|muscle organ development|negative regulation of transcription from RNA polymerase II promoter|positive regulation of mitotic cell cycle|protein deubiquitination|protein stabilization|ubiquitin-dependent protein catabolic process	nucleus|perinuclear region of cytoplasm	cyclin binding|cysteine-type endopeptidase activity|metal ion binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity			ovary(2)|urinary_tract(1)|skin(1)	4		all_hematologic(192;4.65e-05)|Breast(348;0.0101)|all_neural(223;0.0218)|Medulloblastoma(222;0.0425)|Renal(330;0.157)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.000513)|Colorectal(284;0.0116)|Lung(307;0.0853)|LUSC - Lung squamous cell carcinoma(976;0.0889)		CCCCAGTGATGTCGGGTCTCA	0.667													31	89					0	0	1	0	0		A	119243939	A	A	119243939	2	1	27	1	0	0	0	0	0	0	0	1	17077	1368	48	4		4	USP2	11	119243939	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26728	119243939	15762577	5276	27627											
POU2F3	25833	broad.mit.edu	37	chr11	120169101	120169101	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatgccagcccatgtcaggTaacactgtgattttcacagt	12	11	8	10	0	2	1	2	1	0	0	2	1	2	1	2	1	3	1	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:120169101T>C	uc001pxc.2	+	4	360	c.258_splice	c.e4+2	p.Q86_splice	POU2F3_uc010rzk.1_Splice_Site_p.G25_splice|POU2F3_uc010rzl.1_Splice_Site_p.Q16_splice	NM_014352	NP_055167	Q9UKI9	PO2F3_HUMAN	POU transcription factor						negative regulation by host of viral transcription	cytoplasm	sequence-specific DNA binding			ovary(1)|skin(1)	2		Breast(109;0.0011)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;6.85e-06)		CCATGTCAGGTAACACTGTGA	0.532													9	116					0	0	1	0	0		C	120169101	C	C	120169101	5	2	27	1	0	0	0	0	0	0	1	0	12292	1652	57	3	274	3	POU2F3	11	120169101	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	925162	120169101	14837415	5277	27628											
ARHGEF12	23365	broad.mit.edu	37	chr11	120319906	120319906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccccacggagaccaagccGtcatgacaacagtgcaagta	14	4	9	14	2	1	2	1	1	0	1	1	3	1	2	4	1	3	2	4	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:120319906G>A	uc001pxl.1	+	21	1833	c.1826G>A	c.(1825-1827)CGT>CAT	p.R609H	ARHGEF12_uc009zat.2_Missense_Mutation_p.R590H|ARHGEF12_uc010rzn.1_Missense_Mutation_p.R506H|ARHGEF12_uc009zau.1_Missense_Mutation_p.R506H	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	609					apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		AGACCAAGCCGTCATGACAAC	0.463			T	MLL	AML								7	42					0	0	1	0	0		A	120319906	A	A	120319906	3	1	27	1	0	0	0	0	1	0	0	0	897	1145	40	1	1908	1	ARHGEF12	11	120319906	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	150805	120319906	14686610	5278	27629											
TECTA	7007	broad.mit.edu	37	chr11	120996433	120996433	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagtgtggcactgtcgtggaCcccactgcttttgtgcacag	6	11	13	11	1	0	0	0	0	0	0	1	2	0	1	2	2	2	3	2	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:120996433C>T	uc010rzo.1	+	7	1626	c.1626C>T	c.(1624-1626)GAC>GAT	p.D542D		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	542					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CTGTCGTGGACCCCACTGCTT	0.587													14	118					0	0	1	0	0		T	120996433	T	T	120996433	2	4	27	1	0	0	0	0	0	0	0	1	15772	506	18	4		4	TECTA	11	120996433	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	676527	120996433	14010083	5279	27630											
TECTA	7007	broad.mit.edu	37	chr11	120998788	120998788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtgtgcgccgtggaggacgGctaccagggctgcttcccca	5	7	16	13	3	0	0	0	0	0	0	1	2	1	2	4	5	3	3	4	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:120998788G>A	uc010rzo.1	+	8	2102	c.2102G>A	c.(2101-2103)GGC>GAC	p.G701D		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	701					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GTGGAGGACGGCTACCAGGGC	0.662													10	60					0	0	1	0	0		A	120998788	A	A	120998788	3	1	27	1	0	0	0	0	1	0	0	0	15772	1203	42	2	2132	2	TECTA	11	120998788	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2355	120998788	14007728	5280	27631											
SORL1	6653	broad.mit.edu	37	chr11	121429410	121429410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggatgtgaagtggcccaatgGcatctctgtggacgaccagt	9	9	14	9	1	1	1	0	1	1	0	2	4	1	3	2	4	0	1	2	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:121429410G>A	uc001pxx.2	+	20	2854	c.2774G>A	c.(2773-2775)GGC>GAC	p.G925D		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	925	Extracellular (Potential).|LDL-receptor class B 3.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		TGGCCCAATGGCATCTCTGTG	0.547													34	95					0	0	1	0	0		A	121429410	A	A	121429410	3	1	27	1	0	0	0	0	1	0	0	0	14959	1203	42	2	2852	2	SORL1	11	121429410	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	430622	121429410	13577106	5281	27632											
SORL1	6653	broad.mit.edu	37	chr11	121454212	121454212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caacttccagtgccgaaacgGgcactgcatcccccagcggt	9	6	10	16	3	0	0	0	0	0	0	2	1	2	0	4	2	5	2	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:121454212G>A	uc001pxx.2	+	26	3706	c.3626G>A	c.(3625-3627)GGG>GAG	p.G1209E	SORL1_uc010rzp.1_Missense_Mutation_p.G55E	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1209	Extracellular (Potential).|LDL-receptor class A 4.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		TGCCGAAACGGGCACTGCATC	0.572													6	39					0	0	1	0	0		A	121454212	A	A	121454212	3	1	27	1	0	0	0	0	1	0	0	0	14959	1232	43	4	3728	4	SORL1	11	121454212	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	24802	121454212	13552304	5282	27633											
C11orf63	79864	broad.mit.edu	37	chr11	122756903	122756903	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagggcgccaataacaggTaaggaattggcttgtgtaag	13	8	13	7	1	0	0	0	0	0	0	0	1	0	1	2	4	1	3	2	4	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:122756903T>C	uc001pym.2	+	2	641	c.344_splice	c.e2+2	p.R115_splice	C11orf63_uc001pyl.1_Splice_Site_p.R115_splice	NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1											ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		CAATAACAGGTAAGGAATTGG	0.463													8	45					0	0	1	0	0		C	122756903	C	C	122756903	5	2	27	1	0	0	0	0	0	0	1	0	1657	1652	57	3	348	3	C11orf63	11	122756903	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1302691	122756903	12249613	5283	27634											
C11orf63	79864	broad.mit.edu	37	chr11	122774952	122774952	+	Missense_Mutation	SNP	T	A	A																															acagtgacctggaggagaagTcgagcagcctttctccgtac																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:122774952T>A	uc001pym.2	+	3	961	c.664T>A	c.(664-666)TCG>ACG	p.S222T	C11orf63_uc001pyl.1_Missense_Mutation_p.S222T	NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	222										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		GGAGGAGAAGTCGAGCAGCCT	0.502													11	108					0	0	1	0	0		A	122774952	A	A	122774952	3	1	27	1	0	0	0	0	1	0	0	0	1657	1667	58	5	670	5	C11orf63	11	122774952	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18049	122774952	12231564	5284	27635	53	2									
C11orf63	79864	broad.mit.edu	37	chr11	122774956	122774956	+	Missense_Mutation	SNP	G	A	A																															tgacctggaggagaagtcgaGcagcctttctccgtacgtga																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:122774956G>A	uc001pym.2	+	3	965	c.668G>A	c.(667-669)AGC>AAC	p.S223N	C11orf63_uc001pyl.1_Missense_Mutation_p.S223N	NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	223										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		GAGAAGTCGAGCAGCCTTTCT	0.507													11	113					0	0	1	0	0		A	122774956	A	A	122774956	3	1	27	1	0	0	0	0	1	0	0	0	1657	971	34	2	674	2	C11orf63	11	122774956	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4	122774956	12231560	5285	27636	53	2									
C11orf63	79864	broad.mit.edu	37	chr11	122805178	122805178	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtacaaaatcaagcaatgtAccaagagggcaaccttctga	17	7	8	9	0	2	2	1	1	1	1	2	2	2	2	2	1	4	4	2	1	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:122805178A>G	uc001pym.2	+	5	1326	c.1029A>G	c.(1027-1029)GTA>GTG	p.V343V		NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	343										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		CAAGCAATGTACCAAGAGGGC	0.403													8	31					0	0	1	0	0		G	122805178	G	G	122805178	2	3	27	1	0	0	0	0	0	0	0	1	1657	378	14	3		3	C11orf63	11	122805178	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	30222	122805178	12201338	5286	27637											
HSPA8	3312	broad.mit.edu	37	chr11	122929501	122929501	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcaaacttgccaagcaggTtgttatcctttgtcatggca	9	14	9	9	0	2	0	2	0	0	0	3	0	3	0	2	2	3	5	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:122929501T>C	uc001pyo.2	-	7	1439	c.1361A>G	c.(1360-1362)AAC>AGC	p.N454S	HSPA8_uc009zbc.2_Missense_Mutation_p.N218S|HSPA8_uc001pyp.2_Missense_Mutation_p.N454S|HSPA8_uc010rzu.1_Missense_Mutation_p.N377S	NM_006597	NP_006588	P11142	HSP7C_HUMAN	heat shock 70kDa protein 8 isoform 1	454					cellular membrane organization|interspecies interaction between organisms|mRNA metabolic process|negative regulation of transcription, DNA-dependent|neurotransmitter secretion|post-Golgi vesicle-mediated transport|protein folding|response to unfolded protein|transcription, DNA-dependent	cell surface|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|melanosome|plasma membrane|ribonucleoprotein complex	ATP binding|ATPase activity, coupled|protein binding			central_nervous_system(7)|lung(1)	8		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		GCCAAGCAGGTTGTTATCCTT	0.453													6	67					0	0	1	0	0		C	122929501	C	C	122929501	3	2	27	1	0	0	0	0	1	0	0	0	7432	1725	60	3	591	3	HSPA8	11	122929501	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	124323	122929501	12077015	5287	27638											
OR8D4	338662	broad.mit.edu	37	chr11	123777391	123777391	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccctaaaatgctatcagggTttttatgcagagatagatcc	12	12	8	9	0	1	2	1	0	0	2	2	3	2	2	3	1	2	3	3	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:123777391T>G	uc010saa.1	+	1	253	c.253T>G	c.(253-255)TTT>GTT	p.F85V		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		GCTATCAGGGTTTTTATGCAG	0.378													20	235					0	0	1	0	0		G	123777391	G	G	123777391	3	3	27	1	0	0	0	0	1	0	0	0	11252	1725	60	5	255	5	OR8D4	11	123777391	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	847890	123777391	11229125	5288	27639											
OR10G8	219869	broad.mit.edu	37	chr11	123900356	123900356	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacgccagcctactgacagcGttcatcctcatgggccttcc	8	9	8	16	2	2	1	2	1	0	0	4	1	4	1	5	1	4	1	5	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:123900356G>A	uc001pzp.1	+	1	27	c.27G>A	c.(25-27)GCG>GCA	p.A9A		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	9	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		TACTGACAGCGTTCATCCTCA	0.542													14	150					0	0	1	0	0		A	123900356	A	A	123900356	2	1	27	1	0	0	0	0	0	0	0	1	10922	1132	40	1		1	OR10G8	11	123900356	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	122965	123900356	11106160	5289	27640											
VWA5A	4013	broad.mit.edu	37	chr11	124016061	124016061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccgtggcctggatgcgtGcccatgcaggtaggagcaca	8	6	16	11	2	0	0	0	0	0	0	0	2	0	2	3	5	4	3	3	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124016061G>A	uc001pzu.2	+	18	2481	c.2272G>A	c.(2272-2274)GCC>ACC	p.A758T	VWA5A_uc001pzt.2_Missense_Mutation_p.A758T	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	758										upper_aerodigestive_tract(1)|ovary(1)	2						CTGGATGCGTGCCCATGCAGG	0.592													6	58					0	0	1	0	0		A	124016061	A	A	124016061	3	1	27	1	0	0	0	0	1	0	0	0	17268	1319	46	2	2338	2	VWA5A	11	124016061	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	115705	124016061	10990455	5290	27641											
OR8G2	26492	broad.mit.edu	37	chr11	124095831	124095831	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctgcagccccttgctgtAcaatgtcatcatgtcctatc	8	13	6	14	0	3	0	2	0	1	0	5	0	4	0	3	0	4	3	3	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124095831A>G	uc010saf.1	+	1	434	c.434A>G	c.(433-435)TAC>TGC	p.Y145C		NM_001007249	NP_001007250	Q15614	OR8G2_HUMAN	olfactory receptor, family 8, subfamily G,	145						integral to membrane	olfactory receptor activity				0		Breast(109;0.0157)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.91e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		CCCTTGCTGTACAATGTCATC	0.453													16	265					0	0	1	0	0		G	124095831	G	G	124095831	3	3	27	1	0	0	0	0	1	0	0	0	11254	391	14	3	436	3	OR8G2	11	124095831	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	79770	124095831	10910685	5291	27642											
OR8G2	26492	broad.mit.edu	37	chr11	124095852	124095852	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtcatcatgtcctatcAccactgcttctggctcacag	9	12	6	14	0	5	0	4	0	1	0	6	0	6	0	2	1	1	2	2	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124095852A>G	uc010saf.1	+	1	455	c.455A>G	c.(454-456)CAC>CGC	p.H152R		NM_001007249	NP_001007250	Q15614	OR8G2_HUMAN	olfactory receptor, family 8, subfamily G,	152						integral to membrane	olfactory receptor activity				0		Breast(109;0.0157)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.91e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		ATGTCCTATCACCACTGCTTC	0.443													9	297					0	0	1	0	0		G	124095852	G	G	124095852	3	3	27	1	0	0	0	0	1	0	0	0	11254	159	6	3	457	3	OR8G2	11	124095852	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21	124095852	10910664	5292	27643											
OR8B2	26595	broad.mit.edu	37	chr11	124253182	124253182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggttgccggaactctggatGatctgttaatccagcaagaa	11	10	12	8	1	2	2	0	1	2	1	3	4	3	4	2	3	3	3	2	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124253182G>A	uc010sai.1	-	1	58	c.58C>T	c.(58-60)CAT>TAT	p.H20Y	OR8B2_uc001qab.3_RNA	NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		AACTCTGGATGATCTGTTAAT	0.388													19	88					0	0	1	0	0		A	124253182	A	A	124253182	3	1	27	1	0	0	0	0	1	0	0	0	11246	1290	45	4	886	4	OR8B2	11	124253182	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	157330	124253182	10753334	5293	27644											
OR8B3	390271	broad.mit.edu	37	chr11	124266612	124266612	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acataagaaatgaggatggtAcaactgggtaccatgatatt	16	10	10	5	0	0	3	0	2	0	1	0	4	0	4	1	3	3	2	1	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124266612A>G	uc010saj.1	-	1	636	c.636T>C	c.(634-636)TGT>TGC	p.C212C	OR8B2_uc001qab.3_Intron	NM_001005467	NP_001005467	Q8NGG8	OR8B3_HUMAN	olfactory receptor, family 8, subfamily B,	212	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		TGAGGATGGTACAACTGGGTA	0.428													10	195					0	0	1	0	0		G	124266612	G	G	124266612	2	3	27	1	0	0	0	0	0	0	0	1	11247	389	14	3		3	OR8B3	11	124266612	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	13430	124266612	10739904	5294	27645											
OR8B8	26493	broad.mit.edu	37	chr11	124310559	124310559	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacccaacaaaaggagaaaAcacacctggggagacatggt	18	3	10	10	0	0	2	0	0	0	2	0	4	0	2	2	4	2	0	2	4	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124310559A>G	uc010sal.1	-	1	423	c.423T>C	c.(421-423)TGT>TGC	p.C141C		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		AAAGGAGAAAACACACCTGGG	0.522													14	38					0	0	1	0	0		G	124310559	G	G	124310559	2	3	27	1	0	0	0	0	0	0	0	1	11249	41	2	3		3	OR8B8	11	124310559	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	43947	124310559	10695957	5295	27646											
OR8B8	26493	broad.mit.edu	37	chr11	124310909	124310909	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaggaagaagagggggaTctggactcccggttggtcag	12	6	16	7	1	2	2	1	0	1	2	3	5	3	5	1	6	1	1	1	6	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124310909T>A	uc010sal.1	-	1	73	c.73A>T	c.(73-75)ATC>TTC	p.I25F		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	25	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		AAGAGGGGGATCTGGACTCCC	0.517													6	58					0	0	1	0	0		A	124310909	A	A	124310909	3	1	27	1	0	0	0	0	1	0	0	0	11249	1435	50	5	865	5	OR8B8	11	124310909	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	350	124310909	10695607	5296	27647											
OR8B12	219858	broad.mit.edu	37	chr11	124413100	124413100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccatggccccagcaaaccCcatcccataggcacccaaca	12	3	7	19	0	0	0	0	0	0	0	1	0	1	0	7	3	3	2	7	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124413100C>T	uc010sam.1	-	1	451	c.451G>A	c.(451-453)GGG>AGG	p.G151R		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	151	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		CCAGCAAACCCCATCCCATAG	0.517													11	101					0	0	1	0	0		T	124413100	T	T	124413100	3	4	27	1	0	0	0	0	1	0	0	0	11245	623	22	4	483	4	OR8B12	11	124413100	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	102191	124413100	10593416	5297	27648											
OR8B12	219858	broad.mit.edu	37	chr11	124413431	124413431	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agggttatcaagcccaggttCcccaccacggtgaccgtgta	9	8	11	13	2	1	1	1	1	0	0	2	1	2	1	5	3	1	3	5	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124413431C>T	uc010sam.1	-	1	120	c.120G>A	c.(118-120)GGG>GGA	p.G40G		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		AGCCCAGGTTCCCCACCACGG	0.502													13	79					0	0	1	0	0		T	124413431	T	T	124413431	2	4	27	1	0	0	0	0	0	0	0	1	11245	842	30	4		4	OR8B12	11	124413431	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	331	124413431	10593085	5298	27649											
VSIG2	23584	broad.mit.edu	37	chr11	124618372	124618372	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaacgcagcaactgacagCaacagcacgcccaggagcac	15	1	10	15	2	0	2	0	1	0	1	0	3	0	3	1	1	7	5	1	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124618372C>T	uc001qas.2	-	6	841	c.765G>A	c.(763-765)TTG>TTA	p.L255L	VSIG2_uc001qat.2_Silent_p.L255L	NM_014312	NP_055127	Q96IQ7	VSIG2_HUMAN	V-set and immunoglobulin domain containing 2	255	Helical; (Potential).					integral to plasma membrane|membrane fraction				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.215)	Breast(109;0.00663)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0215)		CAACTGACAGCAACAGCACGC	0.587													9	53					0	0	1	0	0		T	124618372	T	T	124618372	2	4	27	1	0	0	0	0	0	0	0	1	17250	709	25	2		2	VSIG2	11	124618372	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	204941	124618372	10388144	5299	27650											
ESAM	90952	broad.mit.edu	37	chr11	124628331	124628331	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacacctccccgtgcaaggTgtaccacgctggaagcacca	11	5	10	15	2	0	1	0	0	0	1	1	2	1	2	5	2	3	4	5	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124628331T>C	uc001qav.3	-	2	336	c.163A>G	c.(163-165)ACC>GCC	p.T55A	ESAM_uc010sao.1_Intron|ESAM_uc001qau.3_5'Flank|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Missense_Mutation_p.T55A	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	55	Extracellular (Potential).|Ig-like V-type.				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		CCGTGCAAGGTGTACCACGCT	0.612											OREG0021463	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	35					0	0	1	0	0		C	124628331	C	C	124628331	3	2	27	1	0	0	0	0	1	0	0	0	5255	1696	59	3	1033	3	ESAM	11	124628331	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9959	124628331	10378185	5300	27651											
C11orf61	79684	broad.mit.edu	37	chr11	124637844	124637844	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagatggagccttgaaaagTctgtccagctctgaaaaagt	15	9	10	7	0	2	3	0	2	2	1	3	4	3	4	2	1	2	1	2	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124637844T>C	uc001qba.1	-	4	931	c.908A>G	c.(907-909)GAC>GGC	p.D303G	C11orf61_uc001qaz.1_Missense_Mutation_p.D251G|C11orf61_uc010sap.1_Missense_Mutation_p.D23G|C11orf61_uc001qay.1_Missense_Mutation_p.D73G	NM_024631	NP_078907	Q6P1R3	CK061_HUMAN	hypothetical protein LOC79684	303											0	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0079)		CCTTGAAAAGTCTGTCCAGCT	0.388													10	80					0	0	1	0	0		C	124637844	C	C	124637844	3	2	27	1	0	0	0	0	1	0	0	0	1656	1667	58	3	775	3	C11orf61	11	124637844	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9513	124637844	10368672	5301	27652											
ROBO4	54538	broad.mit.edu	37	chr11	124766208	124766208	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatcagcagggacccccCggacacctgtcagggccagg	8	4	13	16	1	2	0	2	0	0	0	2	2	2	2	6	4	2	1	6	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124766208C>A	uc001qbg.2	-	4	705	c.565G>T	c.(565-567)GGG>TGG	p.G189W	ROBO4_uc010sas.1_Missense_Mutation_p.G44W|ROBO4_uc001qbh.2_Missense_Mutation_p.G79W|ROBO4_uc001qbi.2_5'Flank|ROBO4_uc010sat.1_5'Flank	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	189	Ig-like C2-type 2.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		AGGGACCCCCCGGACACCTGT	0.622													8	101					1.33987e-11	1.48629e-11	1	1	0		A	124766208	A	A	124766208	3	1	27	1	0	0	0	0	1	0	0	0	13541	652	23	5	2518	5	ROBO4	11	124766208	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	128364	124766208	10240308	5302	27653											
HEPACAM	220296	broad.mit.edu	37	chr11	124794859	124794859	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agctgccacttcactacaggCctgtcgctgctggtactgct	6	11	10	14	1	1	0	1	0	0	0	2	0	1	0	2	2	6	5	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124794859C>T	uc001qbk.2	-	2	598	c.192G>A	c.(190-192)AGG>AGA	p.R64R	HEPACAM_uc009zbj.2_5'Flank|HEPACAM_uc001qbl.1_Silent_p.R64R	NM_152722	NP_689935	Q14CZ8	HECAM_HUMAN	hepatocyte cell adhesion molecule precursor	64	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell cycle arrest|regulation of growth	cytoplasm|integral to membrane				pancreas(1)	1	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.54e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		TCACTACAGGCCTGTCGCTGC	0.617													5	51					0	0	1	0	0		T	124794859	T	T	124794859	2	4	27	1	0	0	0	0	0	0	0	1	7068	738	26	2		2	HEPACAM	11	124794859	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	28651	124794859	10211657	5303	27654											
CCDC15	80071	broad.mit.edu	37	chr11	124857077	124857077	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaagaggaagaacaaaagCagttacattttgagggcctt	15	9	12	5	0	0	3	0	1	0	2	0	5	0	5	1	3	3	2	1	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124857077C>A	uc001qbm.3	+	8	1214	c.955C>A	c.(955-957)CAG>AAG	p.Q319K		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	319						centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		AGAACAAAAGCAGTTACATTT	0.383													6	71					3.59834e-05	3.83694e-05	1	1	0		A	124857077	A	A	124857077	3	1	27	1	0	0	0	0	1	0	0	0	2787	711	25	5	981	5	CCDC15	11	124857077	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	62218	124857077	10149439	5304	27655											
SLC37A2	219855	broad.mit.edu	37	chr11	124954765	124954765	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggacgggattgccagctcCataggtgaggaggaggttgc	9	7	17	8	1	0	1	0	1	0	0	1	5	1	5	2	6	3	2	2	6	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:124954765C>T	uc001qbn.2	+	13	1421	c.1170C>T	c.(1168-1170)TCC>TCT	p.S390S	SLC37A2_uc010sau.1_Silent_p.S390S|SLC37A2_uc010sav.1_Silent_p.S15S|SLC37A2_uc001qbp.2_Silent_p.S15S	NM_001145290	NP_001138762	Q8TED4	SPX2_HUMAN	solute carrier family 37 (glycerol-3-phosphate	390					carbohydrate transport|transmembrane transport	integral to membrane				ovary(2)	2	all_hematologic(175;0.215)	Breast(109;0.012)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.152)|all_lung(97;0.159)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0384)		TTGCCAGCTCCATAGGTGAGG	0.627													3	26					0	0	1	0	0		T	124954765	T	T	124954765	2	4	27	1	0	0	0	0	0	0	0	1	14623	581	21	4		4	SLC37A2	11	124954765	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	97688	124954765	10051751	5305	27656											
ACRV1	56	broad.mit.edu	37	chr11	125547886	125547886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccggagaggtgttcacctGaaggctgttctcctgaaggc	7	10	13	11	1	2	3	1	2	1	1	4	4	3	3	3	4	0	3	3	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:125547886G>A	uc001qcs.2	-	2	626	c.359C>T	c.(358-360)TCA>TTA	p.S120L	ACRV1_uc001qck.2_Missense_Mutation_p.S50L|ACRV1_uc001qcl.2_Missense_Mutation_p.S50L|ACRV1_uc001qcm.2_Intron|ACRV1_uc001qcn.2_Missense_Mutation_p.S65L|ACRV1_uc001qco.2_Intron|ACRV1_uc001qcp.2_Intron|ACRV1_uc001qcq.2_Missense_Mutation_p.S50L|ACRV1_uc001qcr.2_Missense_Mutation_p.S120L	NM_001612	NP_001603	P26436	ASPX_HUMAN	acrosomal vesicle protein 1 isoform a precursor	120	4 X 4 AA repeats of S-G-E-H.|2-2.|9 X 5 AA repeats of [SV]-G-E-Q-[PSA].				multicellular organismal development	acrosomal vesicle					0	all_hematologic(175;0.177)	Breast(109;0.0021)|all_lung(97;0.0179)|Lung NSC(97;0.0185)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0713)		GTGTTCACCTGAAGGCTGTTC	0.537													10	154					0	0	1	0	0		A	125547886	A	A	125547886	3	1	27	1	0	0	0	0	1	0	0	0	172	1294	45	4	450	4	ACRV1	11	125547886	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	593121	125547886	9458630	5306	27657											
PUS3	83480	broad.mit.edu	37	chr11	125765945	125765945	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgttttcctgactagcaaAgccctggtatccccagccca	8	11	8	14	0	0	1	0	1	0	0	2	1	2	1	5	1	3	3	5	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:125765945A>C	uc001qcy.2	-	2	333	c.235T>G	c.(235-237)TTT>GTT	p.F79V	HYLS1_uc009zbv.2_Intron|HYLS1_uc001qcx.3_Intron	NM_031307	NP_112597	Q9BZE2	PUS3_HUMAN	pseudouridylate synthase 3	79						nucleus	RNA binding			ovary(1)	1	all_hematologic(175;0.177)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.131)|all_lung(97;0.139)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.043)		TGACTAGCAAAGCCCTGGTAT	0.443													9	144					0	0	1	0	0		C	125765945	C	C	125765945	3	2	27	1	0	0	0	0	1	0	0	0	12857	72	3	5	1222	5	PUS3	11	125765945	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	218059	125765945	9240571	5307	27658											
HYLS1	219844	broad.mit.edu	37	chr11	125769525	125769525	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtctctgaggcctcccaaAgactccgaaagccagtgatg	11	7	10	13	1	1	3	0	2	1	1	4	4	3	3	4	1	1	0	4	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:125769525A>C	uc009zbv.2	+	4	796	c.262A>C	c.(262-264)AGA>CGA	p.R88R	HYLS1_uc001qcx.3_Silent_p.R88R|PUS3_uc001qcy.2_Intron	NM_145014	NP_659451	Q96M11	HYLS1_HUMAN	hydrolethalus syndrome 1	88						centrosome|nucleus				upper_aerodigestive_tract(1)	1	all_hematologic(175;0.177)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.131)|all_lung(97;0.139)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)		GGCCTCCCAAAGACTCCGAAA	0.483													4	58					0	0	1	0	0		C	125769525	C	C	125769525	2	2	27	1	0	0	0	0	0	0	0	1	7485	64	3	5		5	HYLS1	11	125769525	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3580	125769525	9236991	5308	27659											
FOXRED1	55572	broad.mit.edu	37	chr11	126146977	126146977	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcactccagcaggaagaaccGgacccggcgaacctggaagt	12	4	12	13	3	1	1	1	0	0	1	2	5	2	4	4	4	3	1	4	4	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:126146977G>A	uc001qdi.2	+	10	1160	c.1113G>A	c.(1111-1113)CCG>CCA	p.P371P	FOXRED1_uc010sbn.1_Silent_p.P201P|FOXRED1_uc010sbo.1_RNA|FOXRED1_uc010sbp.1_Silent_p.P184P|FOXRED1_uc010sbq.1_Silent_p.P238P|FOXRED1_uc001qdj.2_Silent_p.P160P|FOXRED1_uc010sbr.1_Silent_p.P357P|FOXRED1_uc001qdk.2_Silent_p.P160P	NM_017547	NP_060017	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing	371						integral to membrane|mitochondrion	oxidoreductase activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)		AGGAAGAACCGGACCCGGCGA	0.557													8	51					0	0	1	0	0		A	126146977	A	A	126146977	2	1	27	1	0	0	0	0	0	0	0	1	6047	1103	39	1		1	FOXRED1	11	126146977	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	377452	126146977	8859539	5309	27660											
KCNJ5	3762	broad.mit.edu	37	chr11	128786318	128786318	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaggcatgacctgccaaGcccggagctcctacatggat	9	6	10	16	1	0	1	0	1	0	0	1	3	1	3	6	3	4	2	6	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:128786318G>T	uc001qet.2	+	3	1266	c.952G>T	c.(952-954)GCC>TCC	p.A318S	KCNJ5_uc009zck.2_Missense_Mutation_p.A318S|KCNJ5_uc001qew.2_Missense_Mutation_p.A318S	NM_000890	NP_000881	P48544	IRK5_HUMAN	potassium inwardly-rectifying channel J5	318	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1	all_hematologic(175;0.0641)	Lung NSC(97;0.00038)|all_lung(97;0.000817)|Breast(109;0.00123)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0059)|LUSC - Lung squamous cell carcinoma(976;0.021)|Lung(977;0.0215)	Glibenclamide(DB01016)	GACCTGCCAAGCCCGGAGCTC	0.393													6	68					1	1	1	1	0		T	128786318	T	T	128786318	3	4	27	1	0	0	0	0	1	0	0	0	8070	971	34	5	958	5	KCNJ5	11	128786318	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2639341	128786318	6220198	5310	27661											
ARHGAP32	9743	broad.mit.edu	37	chr11	128840677	128840677	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgagaagcatgcttaggTtgtgggacaggaagtggtaa	11	11	15	4	0	1	1	0	1	1	1	1	4	1	3	0	4	2	4	0	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:128840677T>C	uc009zcp.2	-	22	4389	c.4389A>G	c.(4387-4389)CAA>CAG	p.Q1463Q	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Silent_p.Q422Q|ARHGAP32_uc001qez.2_Silent_p.Q1114Q	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1463	Interaction with GAB2.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						CATGCTTAGGTTGTGGGACAG	0.463													9	67					0	0	1	0	0		C	128840677	C	C	128840677	2	2	27	1	0	0	0	0	0	0	0	1	881	1722	60	3		3	ARHGAP32	11	128840677	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	54359	128840677	6165839	5311	27662											
NFRKB	4798	broad.mit.edu	37	chr11	129739947	129739947	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgtcccgaagaggtcctgGgtcaatttgactgtggtaac	8	11	12	10	1	1	2	1	1	0	1	3	3	3	2	3	3	1	1	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:129739947G>A	uc001qfi.2	-	24	3174	c.2973C>T	c.(2971-2973)ACC>ACT	p.T991T	NFRKB_uc001qfg.2_Silent_p.T1016T|NFRKB_uc001qfh.2_Silent_p.T1014T|NFRKB_uc010sbw.1_Silent_p.T1001T|NFRKB_uc009zcr.2_Silent_p.T277T	NM_001143835	NP_001137307	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein	991					DNA recombination|DNA repair|inflammatory response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Ino80 complex	DNA binding|protease binding			ovary(3)	3	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0167)|Lung(977;0.171)|LUSC - Lung squamous cell carcinoma(976;0.184)		AGAGGTCCTGGGTCAATTTGA	0.547													12	119					0	0	1	0	0		A	129739947	A	A	129739947	2	1	27	1	0	0	0	0	0	0	0	1	10403	1219	43	4		4	NFRKB	11	129739947	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	899270	129739947	5266569	5312	27663											
ADAMTS8	11095	broad.mit.edu	37	chr11	130275557	130275557	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggtccctgcactctacagTtcgcctctgccagccggccc	4	8	11	18	2	2	0	0	0	2	0	4	0	3	0	5	3	4	2	5	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:130275557T>A	uc001qgg.3	-	9	2924	c.2566A>T	c.(2566-2568)ACT>TCT	p.T856S	ADAMTS8_uc001qgf.2_Missense_Mutation_p.T337S	NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	856	TSP type-1 2.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		CACTCTACAGTTCGCCTCTGC	0.652													5	66					0	0	1	0	0		A	130275557	A	A	130275557	3	1	27	1	0	0	0	0	1	0	0	0	272	1725	60	5	107	5	ADAMTS8	11	130275557	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	535610	130275557	4730959	5313	27664											
ADAMTS15	170689	broad.mit.edu	37	chr11	130319172	130319172	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcagacctgcgacgctgcTtctattctggggacgtgaac	7	11	11	12	3	3	2	1	1	2	1	3	4	3	3	1	2	3	2	1	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:130319172T>C	uc010scd.1	+	1	304	c.304T>C	c.(304-306)TTC>CTC	p.F102L		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	102					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		GCGACGCTGCTTCTATTCTGG	0.667													5	96					0	0	1	0	0		C	130319172	C	C	130319172	3	2	27	1	0	0	0	0	1	0	0	0	260	1609	56	3	306	3	ADAMTS15	11	130319172	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	43615	130319172	4687344	5314	27665											
SNX19	399979	broad.mit.edu	37	chr11	130775969	130775969	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgttggctgcatttccagTaactttgtctgtttttcaat	6	21	7	7	0	2	0	1	0	1	0	3	0	3	0	1	1	2	5	1	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:130775969T>C	uc001qgk.3	-	7	2870	c.2322A>G	c.(2320-2322)TTA>TTG	p.L774L	SNX19_uc009zcw.2_Silent_p.L11L|SNX19_uc010sce.1_Silent_p.L154L|SNX19_uc010scf.1_Silent_p.L217L|SNX19_uc010scg.1_Silent_p.L11L|SNX19_uc001qgl.3_Silent_p.L757L|SNX19_uc009zcx.1_RNA	NM_014758	NP_055573	Q92543	SNX19_HUMAN	sorting nexin 19	774					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|lung(2)	4	all_hematologic(175;0.0597)	Lung NSC(97;0.000272)|all_lung(97;0.000608)|Breast(109;0.000962)|all_neural(223;0.0298)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;0.0195)|Lung(977;0.233)		GCATTTCCAGTAACTTTGTCT	0.458													4	78					0	0	1	0	0		C	130775969	C	C	130775969	2	2	27	1	0	0	0	0	0	0	0	1	14915	1635	57	3		3	SNX19	11	130775969	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	456797	130775969	4230547	5315	27666											
OPCML	4978	broad.mit.edu	37	chr11	132812874	132812874	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acgttgtccatagctttgggGaaggtggcatctccgctgcg	6	11	14	10	3	1	0	0	0	1	0	3	1	2	1	2	4	2	4	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:132812874G>A	uc001qgs.2	-	1	164	c.114C>T	c.(112-114)TTC>TTT	p.F38F	OPCML_uc001qgu.2_Silent_p.F31F|OPCML_uc010sck.1_Silent_p.F38F|OPCML_uc001qgt.2_Silent_p.F38F|OPCML_uc010scl.1_5'UTR	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	38					cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		TAGCTTTGGGGAAGGTGGCAT	0.662													8	69					0	0	1	0	0		A	132812874	A	A	132812874	2	1	27	1	0	0	0	0	0	0	0	1	10893	1165	41	4		4	OPCML	11	132812874	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2036905	132812874	2193642	5316	27667											
IGSF9B	22997	broad.mit.edu	37	chr11	133790109	133790109	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggccggggctggggctcatAccaccgggtgtccaggccaa	6	5	17	13	2	1	0	1	0	0	0	2	0	2	0	5	7	1	2	5	7	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr11:133790109A>G	uc001qgx.3	-	18	3742	c.3511T>C	c.(3511-3513)TAT>CAT	p.Y1171H		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	1171	Pro-rich.|Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		TGGGGCTCATACCACCGGGTG	0.692													4	52					0	0	1	0	0		G	133790109	G	G	133790109	3	3	27	1	0	0	0	0	1	0	0	0	7622	391	14	3	546	3	IGSF9B	11	133790109	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	977235	133790109	1216407	5317	27668											
IQSEC3	440073	broad.mit.edu	37	chr12	247988	247988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccctcatgatggctttccggGacgtcacggtgcagatcgcc	6	9	12	14	4	2	2	2	1	0	1	4	3	3	3	3	3	1	2	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:247988G>A	uc001qhw.1	+	1	556	c.550G>A	c.(550-552)GAC>AAC	p.D184N	IQSEC3_uc001qhu.1_Missense_Mutation_p.D184N|IQSEC3_uc001qht.1_Missense_Mutation_p.D269N|uc001qhv.1_Intron	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	487					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		GGCTTTCCGGGACGTCACGGT	0.572													5	25					0	0	1	0	0		A	247988	A	A	247988	3	1	27	1	0	0	0	0	1	0	0	0	7835	1174	41	4	1473	4	IQSEC3	12	247988	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08		247988	133603907	5318	27669											
KDM5A	5927	broad.mit.edu	37	chr12	442787	442787	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgctctgcagcatgagatgGcacaccataccatgtctttg	9	12	9	11	0	2	1	0	1	2	1	2	2	2	1	2	1	4	4	2	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:442787G>T	uc001qif.1	-	12	1882	c.1519C>A	c.(1519-1521)CCA>ACA	p.P507T	KDM5A_uc001qie.1_Missense_Mutation_p.P507T|KDM5A_uc010sdn.1_Missense_Mutation_p.P466T|KDM5A_uc010sdo.1_Missense_Mutation_p.P126T	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	507	JmjC.				chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						GCATGAGATGGCACACCATAC	0.353			T 	NUP98	AML								4	91					1.024e-07	1.12055e-07	1	1	0		T	442787	T	T	442787	3	4	27	1	0	0	0	0	1	0	0	0	8149	1203	42	5	3621	5	KDM5A	12	442787	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	194799	442787	133409108	5319	27670											
WNK1	65125	broad.mit.edu	37	chr12	968488	968488	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagaattagcagaagaagAtgatggagaaaaaatagcca	20	6	12	3	0	0	6	0	1	0	5	0	7	0	6	1	2	2	2	1	2	9	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:968488A>G	uc001qio.3	+	6	1985	c.1478A>G	c.(1477-1479)GAT>GGT	p.D493G	WNK1_uc001qip.3_Missense_Mutation_p.D493G|WNK1_uc001qir.3_5'Flank	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	493					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GCAGAAGAAGATGATGGAGAA	0.333													5	83					0	0	1	0	0		G	968488	G	G	968488	3	3	27	1	0	0	0	0	1	0	0	0	17403	333	12	3	1500	3	WNK1	12	968488	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	525701	968488	132883407	5320	27671											
WNK1	65125	broad.mit.edu	37	chr12	994674	994674	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagcctggtgggctgcaTcctttggtcattccatcagt	5	14	10	12	0	3	0	3	0	1	0	6	0	5	0	3	3	2	2	3	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:994674T>A	uc001qio.3	+	19	5211	c.4704T>A	c.(4702-4704)CAT>CAA	p.H1568Q	WNK1_uc001qip.3_Missense_Mutation_p.H1321Q|WNK1_uc001qir.3_Missense_Mutation_p.H741Q	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1568					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GTGGGCTGCATCCTTTGGTCA	0.488													38	376					0	0	1	0	0		A	994674	A	A	994674	3	1	27	1	0	0	0	0	1	0	0	0	17403	1432	50	5	6280	5	WNK1	12	994674	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	26186	994674	132857221	5321	27672											
WNK1	65125	broad.mit.edu	37	chr12	1003798	1003798	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttaagatgggacgattTcaggtaagacagtcactttg	11	14	11	5	1	2	2	2	0	0	2	2	4	2	3	0	2	0	2	0	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:1003798T>C	uc001qio.3	+	23	6087	c.5580T>C	c.(5578-5580)TTT>TTC	p.F1860F	WNK1_uc001qip.3_Silent_p.F1612F|WNK1_uc001qir.3_Silent_p.F1033F	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1860					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			TGGGACGATTTCAGGTAAGAC	0.403													21	71					0	0	1	0	0		C	1003798	C	C	1003798	2	2	27	1	0	0	0	0	0	0	0	1	17403	1780	62	3		3	WNK1	12	1003798	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9124	1003798	132848097	5322	27673											
WNK1	65125	broad.mit.edu	37	chr12	1006677	1006677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcaggacctgcagagtcGccagaagcatgaaattgaat	14	8	11	8	1	1	4	1	2	0	2	2	6	1	5	2	1	2	2	2	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:1006677G>A	uc001qio.3	+	25	6785	c.6278G>A	c.(6277-6279)CGC>CAC	p.R2093H	WNK1_uc001qip.3_Missense_Mutation_p.R1845H|WNK1_uc001qir.3_Missense_Mutation_p.R1266H|WNK1_uc009zdm.1_5'Flank|WNK1_uc009zdn.1_5'Flank	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	2093					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CTGCAGAGTCGCCAGAAGCAT	0.433													7	51					0	0	1	0	0		A	1006677	A	A	1006677	3	1	27	1	0	0	0	0	1	0	0	0	17403	1087	38	1	7878	1	WNK1	12	1006677	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2879	1006677	132845218	5323	27674											
RAD52	5893	broad.mit.edu	37	chr12	1038990	1038990	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actccatcccctcaccttcaGctggaccctcacaaatgcac	10	8	4	19	0	3	0	3	0	0	0	5	1	5	1	5	1	2	2	5	1	1	1	rs144619978	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:1038990G>A	uc001qis.1	-	5	457	c.343C>T	c.(343-345)CTG>TTG	p.L115L	RAD52_uc001qit.1_RNA|RAD52_uc010sdt.1_Silent_p.L38L|RAD52_uc001qiu.1_Silent_p.L115L|RAD52_uc001qiv.1_RNA|RAD52_uc001qiw.1_Intron|RAD52_uc010sdu.1_Silent_p.L115L|RAD52_uc001qix.1_Silent_p.L115L	NM_134424	NP_602296	P43351	RAD52_HUMAN	RAD52 homolog	115					DNA recombinase assembly|mitotic recombination|reciprocal meiotic recombination	nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1	all_cancers(10;0.0119)|all_epithelial(11;0.0171)|all_lung(10;0.0521)|Ovarian(42;0.0816)|Lung NSC(10;0.0987)		OV - Ovarian serous cystadenocarcinoma(31;0.00123)|BRCA - Breast invasive adenocarcinoma(9;0.0323)			CTCACCTTCAGCTGGACCCTC	0.542								Homologous_recombination					21	238					0	0	1	0	0		A	1038990	A	A	1038990	2	1	27	1	0	0	0	0	0	0	0	1	13016	962	34	2		2	RAD52	12	1038990	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	32313	1038990	132812905	5324	27675											
ADIPOR2	79602	broad.mit.edu	37	chr12	1882031	1882031	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaggaacatgaatacagTgatgaagctcctcaggaaga	15	8	11	7	0	2	5	1	4	1	1	3	7	3	7	1	2	3	1	1	2	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:1882031T>C	uc001qjm.2	+	3	392	c.195T>C	c.(193-195)AGT>AGC	p.S65S	ADIPOR2_uc001qjn.2_Silent_p.S65S	NM_024551	NP_078827	Q86V24	ADR2_HUMAN	adiponectin receptor 2	65	Cytoplasmic (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane	hormone binding|receptor activity				0	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000382)			ATGAATACAGTGATGAAGCTC	0.438													7	90					0	0	1	0	0		C	1882031	C	C	1882031	2	2	27	1	0	0	0	0	0	0	0	1	319	1693	59	3		3	ADIPOR2	12	1882031	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	843041	1882031	131969864	5325	27676											
CACNA2D4	93589	broad.mit.edu	37	chr12	1983839	1983839	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctattgatcatggctgttctCagcttcaggaggaaagacaa	12	11	10	8	0	3	2	3	1	1	1	4	4	3	4	0	3	1	3	0	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:1983839C>T	uc001qjp.2	-	18	2040	c.1809G>A	c.(1807-1809)CTG>CTA	p.L603L	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Intron	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	603	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		TGGCTGTTCTCAGCTTCAGGA	0.488													5	45					0	0	1	0	0		T	1983839	T	T	1983839	2	4	27	1	0	0	0	0	0	0	0	1	2554	813	29	4		4	CACNA2D4	12	1983839	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	101808	1983839	131868056	5326	27677											
DCP1B	196513	broad.mit.edu	37	chr12	2055377	2055377	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaaggccttgctgtcacaTagtctttttcatggctgctt	8	16	8	9	0	3	0	2	0	1	0	3	0	3	0	1	2	2	3	1	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:2055377T>C	uc001qjx.1	-	9	1929	c.1849A>G	c.(1849-1851)ATG>GTG	p.M617V	DCP1B_uc010sdy.1_Missense_Mutation_p.M515V	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	617					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			TGCTGTCACATAGTCTTTTTC	0.388													5	44					0	0	1	0	0		C	2055377	C	C	2055377	3	2	27	1	0	0	0	0	1	0	0	0	4302	1406	49	3	8	3	DCP1B	12	2055377	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	71538	2055377	131796518	5327	27678											
DCP1B	196513	broad.mit.edu	37	chr12	2102471	2102471	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagggtcctggagttggAaatccaagtctttagtaata	13	11	12	5	0	1	0	0	0	1	0	3	3	3	3	2	4	0	2	2	4	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:2102471A>T	uc001qjx.1	-	3	358	c.278T>A	c.(277-279)TTC>TAC	p.F93Y	DCP1B_uc010sdy.1_5'UTR|DCP1B_uc010sdz.1_Missense_Mutation_p.F93Y	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	93					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			CTGGAGTTGGAAATCCAAGTC	0.398													12	110					0	0	1	0	0		T	2102471	T	T	2102471	3	4	27	1	0	0	0	0	1	0	0	0	4302	246	9	5	1603	5	DCP1B	12	2102471	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	47094	2102471	131749424	5328	27679											
CACNA1C	775	broad.mit.edu	37	chr12	2719827	2719827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcgagtacctgatgttcGtcctcatcctgctcaacacc	8	12	6	15	2	2	1	2	1	0	0	6	2	4	1	4	0	3	3	4	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:2719827G>A	uc009zdu.1	+	29	4052	c.3739G>A	c.(3739-3741)GTC>ATC	p.V1247I	CACNA1C_uc009zdv.1_Missense_Mutation_p.V1224I|CACNA1C_uc001qkb.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qkc.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qke.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qkf.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qjz.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qkd.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qkg.2_Missense_Mutation_p.V1227I|CACNA1C_uc009zdw.1_Missense_Mutation_p.V1227I|CACNA1C_uc001qkh.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qkl.2_Missense_Mutation_p.V1247I|CACNA1C_uc001qkn.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qko.2_Missense_Mutation_p.V1247I|CACNA1C_uc001qkp.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qkr.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qku.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qkq.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qks.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qkt.2_Missense_Mutation_p.V1227I|CACNA1C_uc001qka.1_Missense_Mutation_p.V762I|CACNA1C_uc001qki.1_Missense_Mutation_p.V963I|CACNA1C_uc001qkj.1_Missense_Mutation_p.V963I|CACNA1C_uc001qkk.1_Missense_Mutation_p.V963I|CACNA1C_uc001qkm.1_Missense_Mutation_p.V963I	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1247	Helical; Name=S1 of repeat IV; (Potential).|IV.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CCTGATGTTCGTCCTCATCCT	0.582													6	50					0	0	1	0	0		A	2719827	A	A	2719827	3	1	27	1	0	0	0	0	1	0	0	0	2543	1145	40	1	3961	1	CACNA1C	12	2719827	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	617356	2719827	131132068	5329	27680											
CACNA1C	775	broad.mit.edu	37	chr12	2774756	2774756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccccacagatcatcaacCtctttgtagctgtcatcatg	9	13	6	13	0	5	1	4	0	1	1	6	1	6	1	3	0	2	3	3	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:2774756C>T	uc009zdu.1	+	38	4865	c.4552C>T	c.(4552-4554)CTC>TTC	p.L1518F	CACNA1C_uc009zdv.1_Missense_Mutation_p.L1467F|CACNA1C_uc001qkb.2_Missense_Mutation_p.L1470F|CACNA1C_uc001qkc.2_Missense_Mutation_p.L1470F|CACNA1C_uc001qke.2_Missense_Mutation_p.L1459F|CACNA1C_uc001qkf.2_Missense_Mutation_p.L1459F|CACNA1C_uc001qjz.2_Missense_Mutation_p.L1470F|CACNA1C_uc001qkd.2_Missense_Mutation_p.L1470F|CACNA1C_uc001qkg.2_Missense_Mutation_p.L1457F|CACNA1C_uc009zdw.1_Missense_Mutation_p.L1492F|CACNA1C_uc001qkh.2_Missense_Mutation_p.L1459F|CACNA1C_uc001qkl.2_Missense_Mutation_p.L1518F|CACNA1C_uc001qkn.2_Missense_Mutation_p.L1470F|CACNA1C_uc001qko.2_Missense_Mutation_p.L1490F|CACNA1C_uc001qkp.2_Missense_Mutation_p.L1470F|CACNA1C_uc001qkr.2_Missense_Mutation_p.L1487F|CACNA1C_uc001qku.2_Missense_Mutation_p.L1470F|CACNA1C_uc001qkq.2_Missense_Mutation_p.L1498F|CACNA1C_uc001qks.2_Missense_Mutation_p.L1470F|CACNA1C_uc001qkt.2_Missense_Mutation_p.L1470F|CACNA1C_uc001qki.1_Missense_Mutation_p.L1206F|CACNA1C_uc001qkj.1_Missense_Mutation_p.L1206F|CACNA1C_uc001qkk.1_Missense_Mutation_p.L1206F|CACNA1C_uc001qkm.1_Missense_Mutation_p.L1195F|CACNA1C_uc010sea.1_Missense_Mutation_p.L161F	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1518	Phenylalkylamine binding (By similarity).|Dihydropyridine binding (By similarity).|Helical; Name=S6 of repeat IV; (Potential).|IV.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GATCATCAACCTCTTTGTAGC	0.522													6	92					0	0	1	0	0		T	2774756	T	T	2774756	3	4	27	1	0	0	0	0	1	0	0	0	2543	681	24	4	4876	4	CACNA1C	12	2774756	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	54929	2774756	131077139	5330	27681											
TSPAN9	10867	broad.mit.edu	37	chr12	3388233	3388233	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctttgtctacatggacaagGtaagccttaccagatgggag	11	11	11	8	0	2	1	0	0	2	1	2	3	2	3	2	3	3	1	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:3388233G>A	uc001qlp.2	+	5	477	c.330_splice	c.e5+1	p.K110_splice		NM_006675	NP_006666	O75954	TSN9_HUMAN	tetraspanin 9							integral to plasma membrane|membrane fraction				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00153)|COAD - Colon adenocarcinoma(12;0.0831)			CATGGACAAGGTAAGCCTTAC	0.537													8	71					0	0	1	0	0		A	3388233	A	A	3388233	5	1	27	1	0	0	0	0	0	0	1	0	16680	1275	44	4	341	4	TSPAN9	12	3388233	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	613477	3388233	130463662	5331	27682											
EFCAB4B	84766	broad.mit.edu	37	chr12	3768745	3768745	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttaccttcaggagaaactgCtccttctcacttttgatttg	8	16	6	11	0	2	2	2	1	1	1	4	3	3	2	2	1	3	1	2	1	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:3768745C>T	uc001qmj.2	-	8	1319	c.747G>A	c.(745-747)GAG>GAA	p.E249E	EFCAB4B_uc010sen.1_Silent_p.E249E|EFCAB4B_uc010seo.1_Silent_p.E249E|EFCAB4B_uc001qmi.1_RNA	NM_032680	NP_116069	Q9BSW2	EFC4B_HUMAN	EF-hand calcium binding domain 4B isoform c	249	Potential.				activation of store-operated calcium channel activity|store-operated calcium entry	cytoplasm	calcium ion binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.00287)|COAD - Colon adenocarcinoma(12;0.0264)			GGAGAAACTGCTCCTTCTCAC	0.269													3	40					0	0	1	0	0		T	3768745	T	T	3768745	2	4	27	1	0	0	0	0	0	0	0	1	4943	796	28	2		2	EFCAB4B	12	3768745	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	380512	3768745	130083150	5332	27683											
C12orf4	57102	broad.mit.edu	37	chr12	4599042	4599042	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcatgttactaagttgAtaaaacatttcttcagaaat	16	13	7	5	0	2	2	1	1	1	1	2	3	2	3	0	1	3	3	0	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:4599042A>T	uc001qms.2	-	14	1678	c.1590T>A	c.(1588-1590)TAT>TAA	p.Y530*	C12orf4_uc001qmt.2_Nonsense_Mutation_p.Y530*	NM_020374	NP_065107	Q9NQ89	CL004_HUMAN	hypothetical protein LOC57102	530											0			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)	BRCA - Breast invasive adenocarcinoma(232;0.0281)		TACTAAGTTGATAAAACATTT	0.299													7	71					0	0	1	0	0		T	4599042	T	T	4599042	4	4	27	1	0	0	0	0	0	1	0	0	1688	340	12	5	72	5	C12orf4	12	4599042	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	830297	4599042	129252853	5333	27684											
RAD51AP1	10635	broad.mit.edu	37	chr12	4654960	4654960	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattgcagactccctgaaggTacttttagtattccagctag	11	13	8	9	0	0	2	0	1	0	1	2	2	2	2	2	1	3	4	2	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:4654960T>A	uc001qmw.2	+	4	378	c.222T>A	c.(220-222)GGT>GGA	p.G74G	RAD51AP1_uc001qmu.2_Intron|RAD51AP1_uc001qmv.2_Silent_p.G20G|RAD51AP1_uc010sep.1_Intron|RAD51AP1_uc010seq.1_Intron	NM_001130862	NP_001124334	Q96B01	R51A1_HUMAN	RAD51 associated protein 1 isoform a	74					double-strand break repair via homologous recombination		double-stranded DNA binding|protein binding|protein binding|RNA binding|single-stranded DNA binding				0			Colorectal(7;0.00306)|COAD - Colon adenocarcinoma(12;0.0389)			tccctgaaggtacttttagta	0.06													18	294					0	0	1	0	0		A	4654960	A	A	4654960	2	1	27	1	0	0	0	0	0	0	0	1	13011	1625	57	5		5	RAD51AP1	12	4654960	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	55918	4654960	129196935	5334	27685											
RAD51AP1	10635	broad.mit.edu	37	chr12	4657887	4657887	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtggaagatgatgttggTggtgttcaagggaaaagaaa	14	10	15	2	0	1	3	1	1	0	2	1	5	1	5	0	4	0	2	0	4	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:4657887T>C	uc001qmw.2	+	7	648	c.492T>C	c.(490-492)GGT>GGC	p.G164G	RAD51AP1_uc001qmu.2_Silent_p.G147G|RAD51AP1_uc001qmv.2_Silent_p.G110G|RAD51AP1_uc010sep.1_Silent_p.G29G|RAD51AP1_uc010seq.1_Silent_p.G29G|RAD51AP1_uc009zeg.2_5'Flank	NM_001130862	NP_001124334	Q96B01	R51A1_HUMAN	RAD51 associated protein 1 isoform a	164					double-strand break repair via homologous recombination		double-stranded DNA binding|protein binding|protein binding|RNA binding|single-stranded DNA binding				0			Colorectal(7;0.00306)|COAD - Colon adenocarcinoma(12;0.0389)			ATGATGTTGGTGGTGTTCAAG	0.408													6	97					0	0	1	0	0		C	4657887	C	C	4657887	2	2	27	1	0	0	0	0	0	0	0	1	13011	1683	59	3		3	RAD51AP1	12	4657887	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2927	4657887	129194008	5335	27686											
AKAP3	10566	broad.mit.edu	37	chr12	4735822	4735822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgctgcacacccttcaGggggctgtcctgatgtgcct	4	11	14	12	0	1	1	1	1	0	0	2	1	2	1	3	3	3	3	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:4735822G>A	uc001qnb.3	-	4	2475	c.2246C>T	c.(2245-2247)CCT>CTT	p.P749L		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	749					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						ACACCCTTCAGGGGGCTGTCC	0.532													10	114					0	0	1	0	0		A	4735822	A	A	4735822	3	1	27	1	0	0	0	0	1	0	0	0	452	1000	35	4	323	4	AKAP3	12	4735822	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	77935	4735822	129116073	5336	27687											
KCNA6	3742	broad.mit.edu	37	chr12	4919490	4919490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaccggcccagcttcgacGccatcctctactactaccag	9	7	7	18	3	1	0	0	0	1	0	3	1	2	0	5	1	5	2	5	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:4919490G>A	uc001qng.2	+	1	1149	c.283G>A	c.(283-285)GCC>ACC	p.A95T		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	95						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						CAGCTTCGACGCCATCCTCTA	0.642										HNSCC(72;0.22)			19	81					0	0	1	0	0		A	4919490	A	A	4919490	3	1	27	1	0	0	0	0	1	0	0	0	8023	1087	38	1	285	1	KCNA6	12	4919490	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	183668	4919490	128932405	5337	27688											
KCNA6	3742	broad.mit.edu	37	chr12	4920490	4920490	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggtaggttacggggacaTgtaccccatgactgtggggg	8	8	16	9	2	0	1	0	1	0	0	0	2	0	2	2	6	2	3	2	6	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:4920490T>C	uc001qng.2	+	1	2149	c.1283T>C	c.(1282-1284)ATG>ACG	p.M428T		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	428						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						TACGGGGACATGTACCCCATG	0.582										HNSCC(72;0.22)			4	85					0	0	1	0	0		C	4920490	C	C	4920490	3	2	27	1	0	0	0	0	1	0	0	0	8023	1464	51	3	1285	3	KCNA6	12	4920490	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1000	4920490	128931405	5338	27689											
KCNA1	3736	broad.mit.edu	37	chr12	5020846	5020846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactaccagtccggcggccGcctgcggaggccggtcaacg	6	5	14	16	6	1	0	1	0	0	0	2	1	2	1	5	5	4	0	5	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:5020846G>A	uc001qnh.2	+	2	1407	c.302G>A	c.(301-303)CGC>CAC	p.R101H		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	101					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TCCGGCGGCCGCCTGCGGAGG	0.612													7	59					0	0	1	0	0		A	5020846	A	A	5020846	3	1	27	1	0	0	0	0	1	0	0	0	8017	1087	38	1	304	1	KCNA1	12	5020846	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	100356	5020846	128831049	5339	27690											
KCNA1	3736	broad.mit.edu	37	chr12	5021176	5021176	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgacaacaccacggtcaTctacaattccaacatcttca	14	9	3	15	2	4	0	2	0	2	0	6	1	5	0	2	1	3	0	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:5021176T>C	uc001qnh.2	+	2	1737	c.632T>C	c.(631-633)ATC>ACC	p.I211T		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	211					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	ACCACGGTCATCTACAATTCC	0.552													10	40					0	0	1	0	0		C	5021176	C	C	5021176	3	2	27	1	0	0	0	0	1	0	0	0	8017	1435	50	3	634	3	KCNA1	12	5021176	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	330	5021176	128830719	5340	27691											
KCNA1	3736	broad.mit.edu	37	chr12	5021662	5021662	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggtgtccatgaccactgTaggatacggtgacatgtacc	9	10	13	9	1	0	2	0	2	0	0	1	3	1	3	3	4	2	2	3	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:5021662T>C	uc001qnh.2	+	2	2223	c.1118T>C	c.(1117-1119)GTA>GCA	p.V373A		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	373	Selectivity filter (By similarity).				synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	ATGACCACTGTAGGATACGGT	0.547													9	210					0	0	1	0	0		C	5021662	C	C	5021662	3	2	27	1	0	0	0	0	1	0	0	0	8017	1638	57	3	1120	3	KCNA1	12	5021662	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	486	5021662	128830233	5341	27692											
KCNA5	3741	broad.mit.edu	37	chr12	5153531	5153531	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcctccgctgccggaccCgggagtgcggcccttgcctc	2	8	13	18	4	0	0	0	0	0	0	2	2	1	2	6	3	4	1	6	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:5153531C>T	uc001qni.2	+	1	447	c.218C>T	c.(217-219)CCG>CTG	p.P73L		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	73	2 X 11 AA tandem repeat of D-[SP]-G-V-R- P-L-P-P-L-P.|2.					Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						CTGCCGGACCCGGGAGTGCGG	0.751													3	3					0	0	1	0	0		T	5153531	T	T	5153531	3	4	27	1	0	0	0	0	1	0	0	0	8022	652	23	1	220	1	KCNA5	12	5153531	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	131869	5153531	128698364	5342	27693											
KCNA5	3741	broad.mit.edu	37	chr12	5154130	5154130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttctgcttggagaccctgCctgagttcagggatgaacgt	7	11	12	11	1	2	3	1	2	1	1	2	5	2	4	3	2	3	2	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:5154130C>T	uc001qni.2	+	1	1046	c.817C>T	c.(817-819)CCT>TCT	p.P273S		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	273						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GGAGACCCTGCCTGAGTTCAG	0.672													19	99					0	0	1	0	0		T	5154130	T	T	5154130	3	4	27	1	0	0	0	0	1	0	0	0	8022	739	26	2	819	2	KCNA5	12	5154130	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	599	5154130	128697765	5343	27694											
KCNA5	3741	broad.mit.edu	37	chr12	5154984	5154984	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagtccagcggaaggtcagCgggagcaggggatccttctg	8	6	18	9	2	2	0	1	0	1	0	4	4	4	4	2	6	3	1	2	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:5154984C>T	uc001qni.2	+	1	1900	c.1671C>T	c.(1669-1671)AGC>AGT	p.S557S		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	557						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GGAAGGTCAGCGGGAGCAGGG	0.642													10	35					0	0	1	0	0		T	5154984	T	T	5154984	2	4	27	1	0	0	0	0	0	0	0	1	8022	767	27	1		1	KCNA5	12	5154984	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	854	5154984	128696911	5344	27695											
ANO2	57101	broad.mit.edu	37	chr12	5744509	5744509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agacgattgagaatgtcaggGcaatctgtttgggaaaacag	14	9	13	5	1	2	2	1	1	1	2	2	5	2	3	0	2	1	2	0	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:5744509G>A	uc001qnm.2	-	17	1697	c.1625C>T	c.(1624-1626)GCC>GTC	p.A542V		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	547	Helical; (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						GAATGTCAGGGCAATCTGTTT	0.463													8	35					0	0	1	0	0		A	5744509	A	A	5744509	3	1	27	1	0	0	0	0	1	0	0	0	697	1203	42	2	1411	2	ANO2	12	5744509	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	589525	5744509	128107386	5345	27696											
CD9	928	broad.mit.edu	37	chr12	6344710	6344710	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctgccccaagaaggacgtActcgaaaccttcaccgtgaa	13	7	8	13	3	2	2	1	1	1	1	3	4	2	3	4	1	3	1	4	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:6344710A>G	uc001qnp.1	+	7	960	c.516A>G	c.(514-516)GTA>GTG	p.V172V	CD9_uc010sev.1_Missense_Mutation_p.T222A|CD9_uc001qnq.1_Silent_p.V172V	NM_001769	NP_001760	P21926	CD9_HUMAN	CD9 antigen	172	Extracellular (Potential).				cell adhesion|cellular component movement|fusion of sperm to egg plasma membrane|paranodal junction assembly|platelet activation|platelet degranulation	integral to plasma membrane|platelet alpha granule membrane				ovary(1)	1						AGAAGGACGTACTCGAAACCT	0.547													3	52					0	0	1	0	0		G	6344710	G	G	6344710	2	3	27	1	0	0	0	0	0	0	0	1	3049	378	14	3		3	CD9	12	6344710	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	600201	6344710	127507185	5346	27697											
TNFRSF1A	7132	broad.mit.edu	37	chr12	6438737	6438737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgcacgaattccttccagCgcaacgggggcacgttctcc	7	7	11	16	5	1	0	0	0	1	0	4	1	3	0	4	2	2	4	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:6438737C>T	uc001qnu.2	-	10	1390	c.1109G>A	c.(1108-1110)CGC>CAC	p.R370H	TNFRSF1A_uc001qnt.2_Missense_Mutation_p.R262H|TNFRSF1A_uc010sey.1_Missense_Mutation_p.R138H|TNFRSF1A_uc010sez.1_Missense_Mutation_p.R262H|TNFRSF1A_uc009zek.2_Missense_Mutation_p.R327H	NM_001065	NP_001056	P19438	TNR1A_HUMAN	tumor necrosis factor receptor 1 precursor	370	Death.|Cytoplasmic (Potential).				apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|inflammatory response|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of inflammatory response|positive regulation of transcription from RNA polymerase II promoter|prostaglandin metabolic process	extracellular region|integral to plasma membrane|membrane raft	tumor necrosis factor receptor activity			lung(2)|skin(1)	3						TTCCTTCCAGCGCAACGGGGG	0.706													5	13					0	0	1	0	0		T	6438737	T	T	6438737	3	4	27	1	0	0	0	0	1	0	0	0	16318	768	27	1	262	1	TNFRSF1A	12	6438737	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	94027	6438737	127413158	5347	27698											
VAMP1	6843	broad.mit.edu	37	chr12	6574081	6574081	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataactaccacgatgatggcAcagatggctcccagcatgat	13	8	9	11	1	0	3	0	2	0	1	1	4	1	3	2	2	3	3	2	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:6574081A>G	uc001qok.2	-	4	461	c.315T>C	c.(313-315)TGT>TGC	p.C105C	TAPBPL_uc001qoi.1_Intron|VAMP1_uc001qoj.2_Silent_p.C105C|VAMP1_uc001qol.2_Silent_p.C105C	NM_014231	NP_055046	P23763	VAMP1_HUMAN	vesicle-associated membrane protein 1 isoform 1	105	Helical; Anchor for type IV membrane protein; (Potential).				neurotransmitter secretion|vesicle-mediated transport	cell junction|endocytic vesicle membrane|integral to plasma membrane|mitochondrial outer membrane|synaptic vesicle membrane|synaptosome	protein binding				0					Botulinum Toxin Type B(DB00042)	CGATGATGGCACAGATGGCTC	0.433													13	154					0	0	1	0	0		G	6574081	G	G	6574081	2	3	27	1	0	0	0	0	0	0	0	1	17138	157	6	3		3	VAMP1	12	6574081	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	135344	6574081	127277814	5348	27699											
NCAPD2	9918	broad.mit.edu	37	chr12	6639009	6639009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcacagagcgaggcctccGtaagatgcttgacaattttg	10	10	10	11	2	1	3	1	1	0	2	2	4	2	3	3	1	2	2	3	1	2	4	rs145700246	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:6639009G>A	uc001qoo.2	+	29	3768	c.3722G>A	c.(3721-3723)CGT>CAT	p.R1241H	NCAPD2_uc010sfd.1_Missense_Mutation_p.R1196H	NM_014865	NP_055680	Q15021	CND1_HUMAN	non-SMC condensin I complex, subunit D2	1241					cell division|mitotic chromosome condensation	condensin core heterodimer|cytoplasm	histone binding			ovary(2)|lung(1)|breast(1)|kidney(1)	5						CGAGGCCTCCGTAAGATGCTT	0.532													23	76					0	0	1	0	0		A	6639009	A	A	6639009	3	1	27	1	0	0	0	0	1	0	0	0	10224	1145	40	1	3832	1	NCAPD2	12	6639009	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	64928	6639009	127212886	5349	27700											
IFFO1	25900	broad.mit.edu	37	chr12	6664471	6664471	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactttggccagcacgttgTagagagcgcggatctcgggc	7	9	14	11	4	2	1	1	0	1	1	3	3	2	2	1	3	2	3	1	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:6664471T>C	uc001qpd.1	-	1	759	c.725A>G	c.(724-726)TAC>TGC	p.Y242C	IFFO1_uc001qpe.1_RNA|IFFO1_uc010sfe.1_Missense_Mutation_p.Y242C|IFFO1_uc001qpf.1_Missense_Mutation_p.Y242C|IFFO1_uc001qpc.1_Missense_Mutation_p.Y242C	NM_080730	NP_542768	Q0D2I5	IFFO1_HUMAN	intermediate filament family orphan isoform 2	242	Potential.					intermediate filament					0						CAGCACGTTGTAGAGAGCGCG	0.622													9	94					0	0	1	0	0		C	6664471	C	C	6664471	3	2	27	1	0	0	0	0	1	0	0	0	7526	1638	57	3	1006	3	IFFO1	12	6664471	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25462	6664471	127187424	5350	27701											
CHD4	1108	broad.mit.edu	37	chr12	6680085	6680085	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccaggcggctgagaatgtTacgctctgacatctgtaacc	9	10	11	11	2	2	2	0	2	2	1	2	3	2	2	2	2	3	4	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:6680085T>C	uc001qpo.2	-	39	5835	c.5671A>G	c.(5671-5673)AAC>GAC	p.N1891D	CHD4_uc001qpn.2_Missense_Mutation_p.N1884D|CHD4_uc001qpp.2_Missense_Mutation_p.N1916D|NOP2_uc001qph.1_5'Flank|NOP2_uc001qpi.1_5'Flank|NOP2_uc001qpj.1_5'Flank|NOP2_uc001qpk.1_5'Flank|NOP2_uc001qpl.1_5'Flank|NOP2_uc001qpm.1_5'Flank	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1891	Required for interaction with PCNT.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						CTGAGAATGTTACGCTCTGAC	0.537													6	235					0	0	1	0	0		C	6680085	C	C	6680085	3	2	27	1	0	0	0	0	1	0	0	0	3330	1754	61	3	75	3	CHD4	12	6680085	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	15614	6680085	127171810	5351	27702											
CHD4	1108	broad.mit.edu	37	chr12	6692213	6692213	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgaacgttcatcaaagTcttcatcaccttcctctgaa	10	14	4	13	1	7	2	4	2	3	0	8	2	8	2	2	0	1	1	2	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:6692213T>C	uc001qpo.2	-	27	4291	c.4127A>G	c.(4126-4128)GAC>GGC	p.D1376G	CHD4_uc001qpn.2_Missense_Mutation_p.D1369G|CHD4_uc001qpp.2_Missense_Mutation_p.D1401G|uc001qpq.1_3'UTR|SCARNA11_uc001qpr.1_5'Flank	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1376					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TTCATCAAAGTCTTCATCACC	0.473													11	81					0	0	1	0	0		C	6692213	C	C	6692213	3	2	27	1	0	0	0	0	1	0	0	0	3330	1667	58	3	1667	3	CHD4	12	6692213	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12128	6692213	127159682	5352	27703											
CHD4	1108	broad.mit.edu	37	chr12	6696652	6696652	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcagtctcatcctggttacgGtctagcagccgttcaatggc	7	12	10	12	2	4	0	3	0	2	0	6	0	5	0	2	3	3	3	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:6696652G>A	uc001qpo.2	-	25	3941	c.3777C>T	c.(3775-3777)GAC>GAT	p.D1259D	CHD4_uc001qpn.2_Silent_p.D1252D|CHD4_uc001qpp.2_Silent_p.D1256D	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1259					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						CCTGGTTACGGTCTAGCAGCC	0.458													12	158					0	0	1	0	0		A	6696652	A	A	6696652	2	1	27	1	0	0	0	0	0	0	0	1	3330	1252	44	4		4	CHD4	12	6696652	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4439	6696652	127155243	5353	27704											
CD4	920	broad.mit.edu	37	chr12	6928489	6928489	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagaagacatgtagcccCatttgaggcacgaggccagg	11	8	12	10	1	1	3	1	1	0	2	1	4	1	3	3	3	1	2	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:6928489C>A	uc001qqv.1	+	10	1616	c.1371C>A	c.(1369-1371)CCC>CCA	p.P457P	CD4_uc010sfj.1_Silent_p.P184P|CD4_uc009zfc.1_Silent_p.P278P|CD4_uc010sfk.1_Silent_p.P184P|CD4_uc010sfl.1_Silent_p.P184P|CD4_uc010sfm.1_Silent_p.P184P|GPR162_uc010sfn.1_5'Flank|GPR162_uc001qqw.1_5'Flank|GPR162_uc001qqx.1_5'Flank|GPR162_uc009zfd.1_5'Flank	NM_000616	NP_000607	P01730	CD4_HUMAN	CD4 antigen precursor	457	Cytoplasmic (Potential).			Missing: Abolished interaction with SPG21 and induced T-cell activation.	cell adhesion|entry into host cell|immune response|induction by virus of host cell-cell fusion|initiation of viral infection|maintenance of protein location in cell|positive regulation of interleukin-2 biosynthetic process|positive regulation of protein kinase activity|protein palmitoleylation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|T cell selection|transmembrane receptor protein tyrosine kinase signaling pathway	early endosome|endoplasmic reticulum membrane|integral to membrane|T cell receptor complex	coreceptor activity|extracellular matrix structural constituent|glycoprotein binding|MHC class II protein binding|protein homodimerization activity|protein kinase binding|transmembrane receptor activity|zinc ion binding				0		Myeloproliferative disorder(1001;0.0122)				CATGTAGCCCCATTTGAGGCA	0.592													11	141					0.000978159	0.00102136	1	1	0		A	6928489	A	A	6928489	2	1	27	1	0	0	0	0	0	0	0	1	3017	581	21	5		5	CD4	12	6928489	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	231837	6928489	126923406	5354	27705											
SPSB2	84727	broad.mit.edu	37	chr12	6981914	6981914	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgatgttctctgaacagtctTtggggttccaaccgtggcgc	6	12	12	11	3	2	1	0	1	2	0	4	2	3	1	2	3	2	2	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:6981914T>C	uc001qrl.2	-	2	308	c.152A>G	c.(151-153)AAA>AGA	p.K51R	SPSB2_uc001qrm.2_Missense_Mutation_p.K51R|SPSB2_uc010sfp.1_Missense_Mutation_p.K51R|LRRC23_uc001qrn.1_5'Flank	NM_001146316	NP_001139788	Q99619	SPSB2_HUMAN	splA/ryanodine receptor domain and SOCS box	51	B30.2/SPRY.				intracellular signal transduction	cytoplasm	protein binding			kidney(1)	1						TGAACAGTCTTTGGGGTTCCA	0.642											OREG0021639	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	127					0	0	1	0	0		C	6981914	C	C	6981914	3	2	27	1	0	0	0	0	1	0	0	0	15138	1841	64	3	647	3	SPSB2	12	6981914	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53425	6981914	126869981	5355	27706											
LRRC23	10233	broad.mit.edu	37	chr12	7015022	7015022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgcagtggctgcccacccCcctcacggaggacatgatga	8	6	11	16	1	1	2	1	2	0	0	1	4	1	4	5	3	2	2	5	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7015022C>T	uc001qrt.3	+	3	532	c.140C>T	c.(139-141)CCC>CTC	p.P47L	LRRC23_uc001qrn.1_Missense_Mutation_p.P47L|LRRC23_uc009zfg.2_Intron|LRRC23_uc001qrp.2_Missense_Mutation_p.P47L|LRRC23_uc001qrq.2_Missense_Mutation_p.P47L|LRRC23_uc001qrr.2_Intron|LRRC23_uc001qrs.2_Intron|LRRC23_uc009zfh.2_Missense_Mutation_p.P47L	NM_001135217	NP_001128689	Q53EV4	LRC23_HUMAN	leucine rich repeat containing 23 isoform a	47										ovary(1)	1						CTGCCCACCCCCCTCACGGAG	0.572													7	78					0	0	1	0	0		T	7015022	T	T	7015022	3	4	27	1	0	0	0	0	1	0	0	0	8996	623	22	4	146	4	LRRC23	12	7015022	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	33108	7015022	126836873	5356	27707											
ATN1	1822	broad.mit.edu	37	chr12	7043403	7043403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaagaactgagatcgagggGccgggcctcccctggagggg	8	4	19	10	2	0	2	0	1	0	2	2	6	1	4	4	7	1	0	4	7	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7043403G>A	uc001qrw.1	+	3	329	c.92G>A	c.(91-93)GGC>GAC	p.G31D	ATN1_uc001qrx.1_Missense_Mutation_p.G31D|ATN1_uc001qry.1_Missense_Mutation_p.G31D	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	31	Nuclear localization signal.				cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						AGATCGAGGGGCCGGGCCTCC	0.592													4	61					0	0	1	0	0		A	7043403	A	A	7043403	3	1	27	1	0	0	0	0	1	0	0	0	1112	1203	42	2	98	2	ATN1	12	7043403	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	28381	7043403	126808492	5357	27708											
ATN1	1822	broad.mit.edu	37	chr12	7046281	7046281	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcggctaccctttccacggtCattgccaccgtggcttcctc	4	12	8	17	3	1	0	1	0	0	0	5	0	3	0	5	3	2	2	5	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7046281C>T	uc001qrw.1	+	5	2088	c.1851C>T	c.(1849-1851)GTC>GTT	p.V617V	ATN1_uc001qrx.1_Silent_p.V617V	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	617					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						TTTCCACGGTCATTGCCACCG	0.662													5	86					0	0	1	0	0		T	7046281	T	T	7046281	2	4	27	1	0	0	0	0	0	0	0	1	1112	813	29	4		4	ATN1	12	7046281	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2878	7046281	126805614	5358	27709											
ATN1	1822	broad.mit.edu	37	chr12	7047957	7047957	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgaacgagacctccgtgAccgcctcaagcctggctttg	7	8	11	15	4	1	3	1	2	0	1	2	4	2	3	6	1	2	1	6	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7047957A>G	uc001qrw.1	+	7	3068	c.2831A>G	c.(2830-2832)GAC>GGC	p.D944G	ATN1_uc001qrx.1_Missense_Mutation_p.D944G	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	944					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						GACCTCCGTGACCGCCTCAAG	0.652													8	69					0	0	1	0	0		G	7047957	G	G	7047957	3	3	27	1	0	0	0	0	1	0	0	0	1112	275	10	3	2853	3	ATN1	12	7047957	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1676	7047957	126803938	5359	27710											
PHB2	11331	broad.mit.edu	37	chr12	7079581	7079581	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcggaggttgctcaccGgtgaacacagattcgcgcac	9	6	14	12	4	1	2	1	1	0	1	2	3	1	3	1	4	2	4	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7079581G>A	uc001qsd.2	-	1	336	c.126C>T	c.(124-126)ACC>ACT	p.T42T	PHB2_uc010sft.1_Silent_p.T42T|PHB2_uc010sfu.1_Silent_p.T42T|EMG1_uc009zfo.2_5'Flank|EMG1_uc001qsh.3_5'Flank|EMG1_uc010sfv.1_5'Flank	NM_001144831	NP_001138303	Q99623	PHB2_HUMAN	prohibitin 2 isoform 1	42	Necessary for transcriptional repression.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial inner membrane|nucleus	estrogen receptor binding|receptor activity			ovary(2)|pancreas(1)	3						GTTGCTCACCGGTGAACACAG	0.721													8	22					0	0	1	0	0		A	7079581	A	A	7079581	2	1	27	1	0	0	0	0	0	0	0	1	11834	1130	39	1		1	PHB2	12	7079581	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31624	7079581	126772314	5360	27711											
LPCAT3	10162	broad.mit.edu	37	chr12	7087608	7087608	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttggcacaggcatcccacTttgccttgcccttttcttca	5	15	7	14	0	2	0	1	0	1	0	3	0	3	0	3	2	2	3	3	2	0	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7087608T>G	uc001qsi.2	-	9	1049	c.935A>C	c.(934-936)AAG>ACG	p.K312T	EMG1_uc010sfv.1_Intron|LPCAT3_uc010sfw.1_Missense_Mutation_p.K206T|LPCAT3_uc009zfp.2_RNA|LPCAT3_uc010sfx.1_RNA|LPCAT3_uc009zfq.1_Missense_Mutation_p.K170T	NM_005768	NP_005759	Q6P1A2	MBOA5_HUMAN	lysophosphatidylcholine acyltransferase 3	312					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity			ovary(1)	1						GGCATCCCACTTTGCCTTGCC	0.527													9	130					0	0	1	0	0		G	7087608	G	G	7087608	3	3	27	1	0	0	0	0	1	0	0	0	8930	1609	56	5	544	5	LPCAT3	12	7087608	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8027	7087608	126764287	5361	27712											
CLSTN3	9746	broad.mit.edu	37	chr12	7289485	7289485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccaatgccaactggacagCaggactctcggtgcactaca	11	6	9	15	1	1	0	0	0	1	0	2	2	1	2	3	3	5	2	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7289485C>T	uc001qsr.2	+	7	1267	c.989C>T	c.(988-990)GCA>GTA	p.A330V	CLSTN3_uc001qss.2_Missense_Mutation_p.A342V	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	330	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						AACTGGACAGCAGGACTCTCG	0.637													48	162					0	0	1	0	0		T	7289485	T	T	7289485	3	4	27	1	0	0	0	0	1	0	0	0	3566	710	25	2	1015	2	CLSTN3	12	7289485	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	201877	7289485	126562410	5362	27713											
CLSTN3	9746	broad.mit.edu	37	chr12	7290632	7290632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgcttgagagtgcccGcccagtcaagttcctctgga	6	9	11	15	1	2	1	1	1	1	1	3	3	3	2	5	1	2	2	5	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7290632G>A	uc001qsr.2	+	8	1570	c.1292G>A	c.(1291-1293)CGC>CAC	p.R431H	CLSTN3_uc001qss.2_Missense_Mutation_p.R443H	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	431	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						GAGAGTGCCCGCCCAGTCAAG	0.582													5	59					0	0	1	0	0		A	7290632	A	A	7290632	3	1	27	1	0	0	0	0	1	0	0	0	3566	1087	38	1	1322	1	CLSTN3	12	7290632	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1147	7290632	126561263	5363	27714											
CLSTN3	9746	broad.mit.edu	37	chr12	7295559	7295559	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agccgcgaggtcatcgagtgCctctatgcatgtcgggaggg	7	8	16	10	4	2	0	1	0	1	0	4	3	2	1	2	3	3	1	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7295559C>T	uc001qsr.2	+	11	1913	c.1635C>T	c.(1633-1635)TGC>TGT	p.C545C	CLSTN3_uc001qss.2_Silent_p.C557C	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	545	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						TCATCGAGTGCCTCTATGCAT	0.582													6	47					0	0	1	0	0		T	7295559	T	T	7295559	2	4	27	1	0	0	0	0	0	0	0	1	3566	747	26	2		2	CLSTN3	12	7295559	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4927	7295559	126556336	5364	27715											
PEX5	5830	broad.mit.edu	37	chr12	7361760	7361760	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctgccctcagcgttcgTcccaatgtgagcccagggga	8	7	12	14	2	1	1	1	1	0	0	3	2	2	2	3	2	4	2	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7361760T>C	uc009zfu.1	+	15	2134	c.1554T>C	c.(1552-1554)CGT>CGC	p.R518R	PEX5_uc001qsw.2_Silent_p.R518R|PEX5_uc010sgc.1_Silent_p.R533R|PEX5_uc001qsu.2_Silent_p.R481R|PEX5_uc010sgd.1_Silent_p.R539R|PEX5_uc001qsv.2_Silent_p.R510R	NM_001131026	NP_001124498	P50542	PEX5_HUMAN	peroxisomal biogenesis factor 5 isoform d	518	TPR 5.				protein import into peroxisome matrix, translocation|protein targeting to peroxisome|protein tetramerization|protein transport	cytosol|peroxisomal matrix|peroxisomal membrane	peroxisome matrix targeting signal-1 binding|protein C-terminus binding|protein N-terminus binding			ovary(1)	1						TCAGCGTTCGTCCCAATGTGA	0.463													6	68					0	0	1	0	0		C	7361760	C	C	7361760	2	2	27	1	0	0	0	0	0	0	0	1	11767	1654	58	3		3	PEX5	12	7361760	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	66201	7361760	126490135	5365	27716											
CD163L1	283316	broad.mit.edu	37	chr12	7585081	7585081	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccacgatgtctgcaatTccagagtgccaactcattcc	10	10	6	15	1	2	1	1	0	1	1	5	2	5	1	5	0	3	1	5	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7585081T>A	uc001qsy.2	-	4	723	c.697A>T	c.(697-699)AAT>TAT	p.N233Y	CD163L1_uc010sge.1_Missense_Mutation_p.N243Y	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	233	SRCR 2.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						TGTCTGCAATTCCAGAGTGCC	0.428													4	66					0	0	1	0	0		A	7585081	A	A	7585081	3	1	27	1	0	0	0	0	1	0	0	0	2971	1783	62	5	3728	5	CD163L1	12	7585081	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	223321	7585081	126266814	5366	27717											
CD163	9332	broad.mit.edu	37	chr12	7651537	7651537	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgatgtttgcagttccaGagagctgactcatttccgtt	7	15	9	10	1	1	3	1	2	0	1	3	4	3	3	3	0	2	5	3	0	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7651537G>T	uc001qsz.3	-	4	833	c.705C>A	c.(703-705)CTC>CTA	p.L235L	CD163_uc001qta.3_Silent_p.L235L|CD163_uc009zfw.2_Silent_p.L235L	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	235	SRCR 2.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						TGCAGTTCCAGAGAGCTGACT	0.438													17	220					3.41278e-10	3.77652e-10	1	1	0		T	7651537	T	T	7651537	2	4	27	1	0	0	0	0	0	0	0	1	2970	929	33	5		5	CD163	12	7651537	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	66456	7651537	126200358	5367	27718											
CD163	9332	broad.mit.edu	37	chr12	7653746	7653746	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcttacctgagcaggtcActccagcatcttgttggtga	9	12	10	10	0	3	2	1	2	2	0	4	2	4	2	2	2	3	3	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7653746A>G	uc001qsz.3	-	3	574	c.446T>C	c.(445-447)GTG>GCG	p.V149A	CD163_uc001qta.3_Missense_Mutation_p.V149A|CD163_uc009zfw.2_Missense_Mutation_p.V149A	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	149	SRCR 1.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						TGAGCAGGTCACTCCAGCATC	0.418													23	238					0	0	1	0	0		G	7653746	G	G	7653746	3	3	27	1	0	0	0	0	1	0	0	0	2970	159	6	3	3080	3	CD163	12	7653746	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2209	7653746	126198149	5368	27719											
APOBEC1	339	broad.mit.edu	37	chr12	7805322	7805322	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtttttgcctgagcttcGccagatcttccggctcatgc	4	14	11	12	2	2	2	1	1	1	1	4	2	3	2	3	2	3	3	3	2	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:7805322G>A	uc001qtb.2	-	3	188	c.154C>T	c.(154-156)CGA>TGA	p.R52*	APOBEC1_uc001qtc.2_Nonsense_Mutation_p.R7*|APOBEC1_uc010sgf.1_Nonsense_Mutation_p.R52*	NM_001644	NP_001635	P41238	ABEC1_HUMAN	apolipoprotein B mRNA editing enzyme	52					cytidine to uridine editing|DNA demethylation|lipid metabolic process|mRNA modification|mRNA processing|negative regulation of methylation-dependent chromatin silencing	nucleoplasm	cytidine deaminase activity|RNA binding|zinc ion binding				0						CCTGAGCTTCGCCAGATCTTC	0.463													6	51					0	0	1	0	0		A	7805322	A	A	7805322	4	1	27	1	0	0	0	0	0	1	0	0	787	1095	38	1	568	1	APOBEC1	12	7805322	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	151576	7805322	126046573	5369	27720											
FOXJ2	55810	broad.mit.edu	37	chr12	8203211	8203211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactcagcaggatacaatcGcccaggtaagagctaagaag	15	5	12	9	1	1	2	1	0	0	2	2	4	1	4	1	3	3	3	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:8203211G>A	uc001qtu.2	+	10	2716	c.1631G>A	c.(1630-1632)CGC>CAC	p.R544H		NM_018416	NP_060886	Q9P0K8	FOXJ2_HUMAN	forkhead box J2	544					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	nucleolus|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				Kidney(36;0.0944)		GGATACAATCGCCCAGGTAAG	0.502													7	71					0	0	1	0	0		A	8203211	A	A	8203211	3	1	27	1	0	0	0	0	1	0	0	0	6026	1087	38	1	1665	1	FOXJ2	12	8203211	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	397889	8203211	125648684	5370	27721											
C3AR1	719	broad.mit.edu	37	chr12	8212130	8212130	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccaaggatgatcatttgTttggaaagaggaaggatcta	13	12	12	4	0	2	2	1	1	1	1	3	6	3	6	1	4	0	1	1	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:8212130T>C	uc001qtv.1	-	2	744	c.652A>G	c.(652-654)ACA>GCA	p.T218A		NM_004054	NP_004045	Q16581	C3AR_HUMAN	complement component 3a receptor 1	218	Extracellular (Potential).				blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)		TGATCATTTGTTTGGAAAGAG	0.433													11	95					0	0	1	0	0		C	8212130	C	C	8212130	3	2	27	1	0	0	0	0	1	0	0	0	2208	1725	60	3	800	3	C3AR1	12	8212130	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8919	8212130	125639765	5371	27722											
RIMKLB	57494	broad.mit.edu	37	chr12	8866566	8866566	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcattgaaggccaaatgttGtgaggaggaactggacttta	13	10	13	5	0	0	2	0	2	0	0	0	5	0	5	1	4	2	2	1	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:8866566G>T	uc001quu.2	+	2	355	c.104G>T	c.(103-105)TGT>TTT	p.C35F	RIMKLB_uc009zgf.1_RNA|RIMKLB_uc001qux.2_Missense_Mutation_p.C35F|RIMKLB_uc010sgl.1_Missense_Mutation_p.C35F|RIMKLB_uc001quw.2_Missense_Mutation_p.C35F	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	35					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						GCCAAATGTTGTGAGGAGGAA	0.458													4	61					0.150653	0.151846	1	1	0		T	8866566	T	T	8866566	3	4	27	1	0	0	0	0	1	0	0	0	13391	1377	48	5	106	5	RIMKLB	12	8866566	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	654436	8866566	124985329	5372	27723											
A2ML1	144568	broad.mit.edu	37	chr12	8990998	8990998	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgacctcattggatatgcgTacagccatcaaatcaatatt	13	13	6	9	1	3	1	3	1	0	0	3	2	3	2	2	1	3	1	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:8990998T>C	uc001quz.3	+	9	1020	c.922T>C	c.(922-924)TAC>CAC	p.Y308H		NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	152						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TGGATATGCGTACAGCCATCA	0.463													13	113					0	0	1	0	0		C	8990998	C	C	8990998	3	2	27	1	0	0	0	0	1	0	0	0	5	1638	57	3	956	3	A2ML1	12	8990998	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	124432	8990998	124860897	5373	27724											
A2ML1	144568	broad.mit.edu	37	chr12	9004515	9004515	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctaactgctttcaagccgttCtttgttgacctgactctccc	6	15	6	14	1	3	2	1	2	2	0	4	2	3	2	3	0	3	3	3	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:9004515C>T	uc001quz.3	+	19	2468	c.2370C>T	c.(2368-2370)TTC>TTT	p.F790F	A2ML1_uc001qva.1_Silent_p.F370F|A2ML1_uc010sgm.1_Silent_p.F290F	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	634						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TCAAGCCGTTCTTTGTTGACC	0.507													8	148					0	0	1	0	0		T	9004515	T	T	9004515	2	4	27	1	0	0	0	0	0	0	0	1	5	912	32	4		4	A2ML1	12	9004515	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13517	9004515	124847380	5374	27725											
PHC1	1911	broad.mit.edu	37	chr12	9089499	9089499	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgcgagtactgtgggaagTacgcccccgcagagcagttt	9	8	14	10	3	0	1	0	0	0	1	0	3	0	2	2	1	4	5	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:9089499T>A	uc001qvd.2	+	12	2572	c.2416T>A	c.(2416-2418)TAC>AAC	p.Y806N	PHC1_uc001qve.2_Missense_Mutation_p.Y806N	NM_004426	NP_004417	P78364	PHC1_HUMAN	polyhomeotic 1-like	806	FCS-type.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						CTGTGGGAAGTACGCCCCCGC	0.532													5	27					0	0	1	0	0		A	9089499	A	A	9089499	3	1	27	1	0	0	0	0	1	0	0	0	11835	1638	57	5	2458	5	PHC1	12	9089499	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	84984	9089499	124762396	5375	27726											
A2M	2	broad.mit.edu	37	chr12	9221379	9221379	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcactatggctggtttcagAtctcttactgggacatcttg	7	16	9	9	0	4	1	2	0	2	1	5	2	4	2	0	3	1	2	0	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:9221379A>T	uc001qvk.1	-	34	4436	c.4323T>A	c.(4321-4323)GAT>GAA	p.D1441E	A2M_uc001qvj.1_Missense_Mutation_p.D483E|A2M_uc009zgk.1_Missense_Mutation_p.D1291E	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1441					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	CTGGTTTCAGATCTCTTACTG	0.403													5	28					0	0	1	0	0		T	9221379	T	T	9221379	3	4	27	1	0	0	0	0	1	0	0	0	4	330	12	5	113	5	A2M	12	9221379	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	131880	9221379	124630516	5376	27727											
A2M	2	broad.mit.edu	37	chr12	9262545	9262545	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaggagccctggaagggCtctgatgagaggggaaaaga	12	7	17	5	0	1	3	0	2	1	2	1	7	1	6	1	5	1	2	1	5	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:9262545C>A	uc001qvk.1	-	6	704	c.591G>T	c.(589-591)GAG>GAT	p.E197D	A2M_uc009zgk.1_Missense_Mutation_p.E47D	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	197					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	CCTGGAAGGGCTCTGATGAGA	0.473													16	160					1.3612e-06	1.47786e-06	1	1	0		A	9262545	A	A	9262545	3	1	27	1	0	0	0	0	1	0	0	0	4	796	28	5	3957	5	A2M	12	9262545	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	41166	9262545	124589350	5377	27728											
PZP	5858	broad.mit.edu	37	chr12	9316284	9316284	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaccaacagggttttgaTgactgtgtcttttcttttaa	8	17	7	9	0	2	2	0	2	2	0	3	2	3	2	2	1	1	1	2	1	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:9316284T>C	uc001qvl.2	-	21	2745	c.2716A>G	c.(2716-2718)ATC>GTC	p.I906V	PZP_uc009zgl.2_Intron|PZP_uc010sgo.1_RNA|PZP_uc009zgm.1_Intron	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						AGGGTTTTGATGACTGTGTCT	0.438													7	73					0	0	1	0	0		C	9316284	C	C	9316284	3	2	27	1	0	0	0	0	1	0	0	0	12894	1464	51	3	1796	3	PZP	12	9316284	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53739	9316284	124535611	5378	27729											
CLEC12B	387837	broad.mit.edu	37	chr12	10163385	10163385	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaagtgacctacgcgacActcacatttcaggattctgc	12	9	9	11	2	3	2	2	1	1	1	3	5	3	3	1	1	2	0	1	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:10163385A>G	uc001qwz.2	+	1	155	c.27A>G	c.(25-27)ACA>ACG	p.T9T	CLEC12B_uc001qww.1_Silent_p.T9T|CLEC12B_uc001qwx.1_Silent_p.T9T|CLEC12B_uc001qwy.1_5'UTR|CLEC12B_uc009zhe.2_RNA	NM_001129998	NP_001123470	Q2HXU8	CL12B_HUMAN	C-type lectin domain family 12, member B isoform	9	Cytoplasmic (Potential).|ITIM motif.					integral to membrane|plasma membrane	receptor activity|sugar binding				0						CCTACGCGACACTCACATTTC	0.413													8	35					0	0	1	0	0		G	10163385	G	G	10163385	2	3	27	1	0	0	0	0	0	0	0	1	3501	146	6	3		3	CLEC12B	12	10163385	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	847101	10163385	123688510	5379	27730											
CLEC9A	283420	broad.mit.edu	37	chr12	10213735	10213735	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatgtgaagtgttgcaggTgtccaccattgcgatgcagc	9	11	12	9	1	1	1	1	1	0	0	2	2	2	1	2	1	4	3	2	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:10213735T>C	uc001qxa.2	+	6	795	c.182T>C	c.(181-183)GTG>GCG	p.V61A		NM_207345	NP_997228	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	61	Extracellular (Potential).				positive regulation of cytokine secretion|receptor-mediated endocytosis	cell surface|integral to membrane	receptor activity|sugar binding			ovary(1)	1						GTGTTGCAGGTGTCCACCATT	0.388													3	38					0	0	1	0	0		C	10213735	C	C	10213735	3	2	27	1	0	0	0	0	1	0	0	0	3525	1696	59	3	192	3	CLEC9A	12	10213735	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	50350	10213735	123638160	5380	27731											
CLEC7A	64581	broad.mit.edu	37	chr12	10278009	10278009	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagataacagctcttctcatAtataatccaattaggaggac	15	12	6	8	0	2	1	1	0	2	1	4	3	3	3	1	2	2	1	1	2	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:10278009A>G	uc001qxg.2	-	4	566	c.379T>C	c.(379-381)TAT>CAT	p.Y127H	CLEC7A_uc001qxe.3_RNA|CLEC7A_uc001qxf.2_Missense_Mutation_p.Y81H|CLEC7A_uc001qxh.2_Missense_Mutation_p.Y81H|CLEC7A_uc001qxi.2_Missense_Mutation_p.Y127H|CLEC7A_uc001qxj.2_Missense_Mutation_p.Y48H|CLEC7A_uc009zhg.1_Intron|CLEC7A_uc001qxk.1_RNA|CLEC7A_uc001qxl.1_Missense_Mutation_p.Y127H|CLEC7A_uc010sgy.1_Missense_Mutation_p.Y81H|CLEC7A_uc001qxm.1_Missense_Mutation_p.Y81H	NM_197947	NP_922938	Q9BXN2	CLC7A_HUMAN	dendritic cell-associated C-type lectin 1	127	C-type lectin.|Extracellular (Potential).				carbohydrate mediated signaling|defense response to protozoan|inflammatory response|innate immune response|phagocytosis, recognition|T cell activation	cytoplasm|integral to membrane	metal ion binding|MHC protein binding|sugar binding			central_nervous_system(1)	1						CTCTTCTCATATATAATCCAA	0.393													6	47					0	0	1	0	0		G	10278009	G	G	10278009	3	3	27	1	0	0	0	0	1	0	0	0	3524	449	16	3	376	3	CLEC7A	12	10278009	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	64274	10278009	123573886	5381	27732											
KLRC4	8302	broad.mit.edu	37	chr12	10561587	10561587	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctaggacctcagcagtgagCttctctggaggtggcagtaa	9	9	13	10	0	2	1	1	1	1	0	3	3	2	3	2	4	2	4	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:10561587C>T	uc001qye.2	-	2	392	c.210G>A	c.(208-210)AAG>AAA	p.K70K	KLRK1_uc001qyc.2_5'Flank|KLRK1_uc009zhk.2_5'UTR|KLRK1_uc001qyd.2_5'UTR	NM_013431	NP_038459	O43908	NKG2F_HUMAN	killer cell lectin-like receptor subfamily C,	70	Cytoplasmic (Potential).				cellular defense response	integral to membrane	binding|receptor activity				0						CAGCAGTGAGCTTCTCTGGAG	0.433													13	186					0	0	1	0	0		T	10561587	T	T	10561587	2	4	27	1	0	0	0	0	0	0	0	1	8434	796	28	2		2	KLRC4	12	10561587	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	283578	10561587	123290308	5382	27733											
STYK1	55359	broad.mit.edu	37	chr12	10777265	10777265	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtacacatctgctctgatgCtagcaggtctcaggagaagc	10	9	11	11	1	3	2	1	1	3	1	4	3	3	2	0	2	5	4	0	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:10777265C>T	uc001qys.2	-	8	1432	c.911G>A	c.(910-912)AGC>AAC	p.S304N		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	304	Protein kinase.			S -> R (in Ref. 1; AAK34949 and 2; AAT01226).		integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						TGCTCTGATGCTAGCAGGTCT	0.483										HNSCC(73;0.22)			8	121					0	0	1	0	0		T	10777265	T	T	10777265	3	4	27	1	0	0	0	0	1	0	0	0	15384	797	28	2	373	2	STYK1	12	10777265	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	215678	10777265	123074630	5383	27734											
TAS2R13	50838	broad.mit.edu	37	chr12	11061110	11061110	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatcgtctcacaaagcatgTagatcactgtgttctgatac	12	12	7	10	1	3	2	2	1	2	1	5	2	3	2	0	0	2	3	0	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:11061110T>C	uc001qzg.1	-	1	1052	c.788A>G	c.(787-789)TAC>TGC	p.Y263C	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron	NM_023920	NP_076409	Q9NYV9	T2R13_HUMAN	taste receptor, type 2, member 13	263	Helical; Name=7; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			breast(1)|skin(1)	2						ACAAAGCATGTAGATCACTGT	0.398													5	49					0	0	1	0	0		C	11061110	C	C	11061110	3	2	27	1	0	0	0	0	1	0	0	0	15592	1638	57	3	127	3	TAS2R13	12	11061110	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	283845	11061110	122790785	5384	27735											
ETV6	2120	broad.mit.edu	37	chr12	12022490	12022490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctgaccccgagcagcGgcccctccggtcccccctgg	3	7	10	21	3	1	1	0	1	1	0	4	2	3	1	9	3	2	1	9	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:12022490G>A	uc001qzz.2	+	5	870	c.596G>A	c.(595-597)CGG>CAG	p.R199Q	ETV6_uc001raa.1_5'UTR	NM_001987	NP_001978	P41212	ETV6_HUMAN	ets variant 6	199						cytoplasm|nucleolus	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		ETV6/NTRK3(234)|ETV6/JAK2(11)	soft_tissue(85)|kidney(66)|breast(55)|salivary_gland(26)|haematopoietic_and_lymphoid_tissue(13)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)|pancreas(1)	250		all_cancers(2;1.88e-12)|Acute lymphoblastic leukemia(2;6.91e-39)|all_hematologic(2;2.7e-36)				CCCGAGCAGCGGCCCCTCCGG	0.627			T	NTRK3|RUNX1|PDGFRB|ABL1|MN1|ABL2|FACL6|CHIC2|ARNT|JAK2|EVI1|CDX2|STL|HLXB9|MDS2|PER1|SYK|TTL|FGFR3|PAX5	congenital fibrosarcoma|multiple leukemia and lymphoma| secretory breast|MDS|ALL								14	145					0	0	1	0	0		A	12022490	A	A	12022490	3	1	27	1	0	0	0	0	1	0	0	0	5291	1116	39	1	614	1	ETV6	12	12022490	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	961380	12022490	121829405	5385	27736											
GPRC5D	55507	broad.mit.edu	37	chr12	13095228	13095228	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtaccatatgaagttaaTgctacatcctcctcagctcc	11	11	7	12	0	1	1	1	1	0	0	4	2	4	2	4	1	4	4	4	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:13095228T>C	uc010shp.1	-	2	930	c.930A>G	c.(928-930)GCA>GCG	p.A310A		NM_018654	NP_061124	Q9NZD1	GPC5D_HUMAN	G protein-coupled receptor, family C, group 5,	310	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		ATGAAGTTAATGCTACATCCT	0.507													12	139					0	0	1	0	0		C	13095228	C	C	13095228	2	2	27	1	0	0	0	0	0	0	0	1	6743	1451	51	3		3	GPRC5D	12	13095228	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1072738	13095228	120756667	5386	27737											
GRIN2B	2904	broad.mit.edu	37	chr12	13716607	13716607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggtaccccgctgaccaCgccgtgtttgtcgcccgtcc	4	9	11	17	5	0	1	0	1	0	0	2	1	1	1	6	1	2	4	6	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:13716607C>T	uc001rbt.2	-	13	3744	c.3565G>A	c.(3565-3567)GTG>ATG	p.V1189M		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1189	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CCGCTGACCACGCCGTGTTTG	0.627													16	92					0	0	1	0	0		T	13716607	T	T	13716607	3	4	27	1	0	0	0	0	1	0	0	0	6796	536	19	1	893	1	GRIN2B	12	13716607	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	621379	13716607	120135288	5387	27738											
GRIN2B	2904	broad.mit.edu	37	chr12	13768096	13768096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctgcgtgacaccatgaCactgatgcctgtctctatga	9	12	9	11	1	1	4	0	4	1	0	2	4	1	4	2	0	3	1	2	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:13768096C>T	uc001rbt.2	-	7	1785	c.1606G>A	c.(1606-1608)GTC>ATC	p.V536I		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	536	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GACACCATGACACTGATGCCT	0.522													14	87					0	0	1	0	0		T	13768096	T	T	13768096	3	4	27	1	0	0	0	0	1	0	0	0	6796	478	17	4	2876	4	GRIN2B	12	13768096	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	51489	13768096	120083799	5388	27739											
ATF7IP	55729	broad.mit.edu	37	chr12	14577340	14577340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatcccacctctagcgagcCctcctctagtgatgctgcct	6	11	8	16	1	2	2	0	2	2	0	4	3	4	2	5	0	4	1	5	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:14577340C>T	uc001rbw.2	+	2	649	c.491C>T	c.(490-492)CCC>CTC	p.P164L	ATF7IP_uc010shs.1_Missense_Mutation_p.P164L|ATF7IP_uc001rbu.2_Missense_Mutation_p.P164L|ATF7IP_uc001rbv.1_Missense_Mutation_p.P164L|ATF7IP_uc001rbx.2_Missense_Mutation_p.P164L|ATF7IP_uc010sht.1_Missense_Mutation_p.P164L|ATF7IP_uc001rby.3_Missense_Mutation_p.P164L|ATF7IP_uc001rbz.1_Missense_Mutation_p.P164L|ATF7IP_uc001rca.2_Missense_Mutation_p.P164L|ATF7IP_uc001rcb.2_5'Flank	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	164					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						TCTAGCGAGCCCTCCTCTAGT	0.592													6	91					0	0	1	0	0		T	14577340	T	T	14577340	3	4	27	1	0	0	0	0	1	0	0	0	1088	623	22	4	493	4	ATF7IP	12	14577340	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	809244	14577340	119274555	5389	27740											
ATF7IP	55729	broad.mit.edu	37	chr12	14649274	14649274	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccgaccaccacaagtgcaTactgtaagtgttgatgcttg	11	10	9	11	1	0	1	0	1	0	0	0	2	0	1	3	0	3	4	3	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:14649274T>C	uc001rbw.2	+	14	3548	c.3390T>C	c.(3388-3390)CAT>CAC	p.H1130H	ATF7IP_uc001rbx.2_Silent_p.H1129H|ATF7IP_uc001rby.3_Silent_p.H1130H|ATF7IP_uc001rca.2_Silent_p.H1130H	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1130					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						CACAAGTGCATACTGTAAGTG	0.393													4	26					0	0	1	0	0		C	14649274	C	C	14649274	2	2	27	1	0	0	0	0	0	0	0	1	1088	1403	49	3		3	ATF7IP	12	14649274	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	71934	14649274	119202621	5390	27741											
GUCY2C	2984	broad.mit.edu	37	chr12	14804958	14804958	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttgagatctttgagaaTcactcgctgcaaaaatcaat	13	12	8	8	1	3	2	2	2	1	2	4	4	3	2	0	0	2	3	0	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:14804958T>A	uc001rcd.2	-	14	1677	c.1540A>T	c.(1540-1542)ATT>TTT	p.I514F		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	514	Cytoplasmic (Potential).|Protein kinase.				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TCTTTGAGAATCACTCGCTGC	0.289													6	56					0	0	1	0	0		A	14804958	A	A	14804958	3	1	27	1	0	0	0	0	1	0	0	0	6912	1435	50	5	1737	5	GUCY2C	12	14804958	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	155684	14804958	119046937	5391	27742											
GUCY2C	2984	broad.mit.edu	37	chr12	14813967	14813967	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacagctccagtgagggTgaagactgcaatcatcagga	13	6	11	11	0	2	3	2	2	0	1	3	4	3	4	2	2	2	2	2	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:14813967T>C	uc001rcd.2	-	11	1449	c.1312A>G	c.(1312-1314)ACC>GCC	p.T438A		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	438	Helical; (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						CCAGTGAGGGTGAAGACTGCA	0.532													8	74					0	0	1	0	0		C	14813967	C	C	14813967	3	2	27	1	0	0	0	0	1	0	0	0	6912	1696	59	3	1977	3	GUCY2C	12	14813967	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9009	14813967	119037928	5392	27743											
GUCY2C	2984	broad.mit.edu	37	chr12	14822720	14822720	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtggggctcatatccacAggataggtcttatttacgtg	10	13	11	7	1	2	0	1	0	1	0	3	1	3	1	1	4	1	1	1	4	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:14822720A>G	uc001rcd.2	-	10	1355	c.1218T>C	c.(1216-1218)CCT>CCC	p.P406P		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	406	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TCATATCCACAGGATAGGTCT	0.393													10	109					0	0	1	0	0		G	14822720	G	G	14822720	2	3	27	1	0	0	0	0	0	0	0	1	6912	175	7	3		3	GUCY2C	12	14822720	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8753	14822720	119029175	5393	27744											
GUCY2C	2984	broad.mit.edu	37	chr12	14849242	14849242	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtttttcaggggctctgcAaaggctgagttgcccatcat	9	12	11	9	0	3	1	2	1	1	0	3	1	3	1	1	3	2	5	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:14849242A>G	uc001rcd.2	-	1	278	c.141T>C	c.(139-141)TTT>TTC	p.F47F	GUCY2C_uc009zhz.2_Silent_p.F47F	NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	47	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						GGGGCTCTGCAAAGGCTGAGT	0.488													7	42					0	0	1	0	0		G	14849242	G	G	14849242	2	3	27	1	0	0	0	0	0	0	0	1	6912	127	5	3		3	GUCY2C	12	14849242	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26522	14849242	119002653	5394	27745											
PTPRO	5800	broad.mit.edu	37	chr12	15652375	15652375	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattgattttctcttcacaGatttctttaagggaaaaaca	14	16	5	6	0	3	2	1	1	2	1	4	3	3	3	0	1	1	0	0	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:15652375G>T	uc001rcv.1	+	4	683	c.509_splice	c.e4-1	p.D170_splice	PTPRO_uc001rcw.1_Splice_Site_p.D170_splice|PTPRO_uc001rcu.1_Splice_Site_p.D170_splice	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)				TCTCTTCACAGATTTCTTTAA	0.313													8	79					0.00307968	0.00318367	1	1	0		T	15652375	T	T	15652375	5	4	27	1	0	0	0	0	0	0	1	0	12834	956	33	5	522	5	PTPRO	12	15652375	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	803133	15652375	118199520	5395	27746											
PTPRO	5800	broad.mit.edu	37	chr12	15679131	15679131	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctccaggcgacatctataAcctctcagtaactgcttgta	10	11	7	13	1	2	0	1	0	2	0	4	1	3	0	3	1	3	3	3	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:15679131A>C	uc001rcv.1	+	12	2273	c.2099A>C	c.(2098-2100)AAC>ACC	p.N700T	PTPRO_uc001rcw.1_Missense_Mutation_p.N700T	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	700	Fibronectin type-III 7.|Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)				GACATCTATAACCTCTCAGTA	0.423													9	103					0	0	1	0	0		C	15679131	C	C	15679131	3	2	27	1	0	0	0	0	1	0	0	0	12834	43	2	5	2145	5	PTPRO	12	15679131	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26756	15679131	118172764	5396	27747											
EPS8	2059	broad.mit.edu	37	chr12	15803899	15803899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagccattgcggaatcgtGgaacatatggtggaataaac	13	8	11	9	2	0	0	0	0	0	0	1	3	0	3	2	4	4	0	2	4	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:15803899G>A	uc009zif.2	-	14	1386	c.1292C>T	c.(1291-1293)CCA>CTA	p.P431L	EPS8_uc001rdb.2_Missense_Mutation_p.P431L|EPS8_uc009zig.2_Missense_Mutation_p.P171L|EPS8_uc010shv.1_Missense_Mutation_p.P171L	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	431	Pro-rich.				cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		GCGGAATCGTGGAACATATGG	0.443													9	130					0	0	1	0	0		A	15803899	A	A	15803899	3	1	27	1	0	0	0	0	1	0	0	0	5202	1348	47	4	1208	4	EPS8	12	15803899	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	124768	15803899	118047996	5397	27748											
EPS8	2059	broad.mit.edu	37	chr12	15811494	15811494	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattcatcaggaggtggaggTtttgcccgcagcgttaaaac	11	10	12	8	2	2	0	2	0	0	0	2	2	2	2	1	4	3	3	1	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:15811494T>C	uc009zif.2	-	11	1057	c.963A>G	c.(961-963)AAA>AAG	p.K321K	EPS8_uc001rdb.2_Silent_p.K321K|EPS8_uc009zig.2_Silent_p.K61K|EPS8_uc010shv.1_Silent_p.K61K	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	321					cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		GAGGTGGAGGTTTTGCCCGCA	0.348													14	181					0	0	1	0	0		C	15811494	C	C	15811494	2	2	27	1	0	0	0	0	0	0	0	1	5202	1722	60	3		3	EPS8	12	15811494	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7595	15811494	118040401	5398	27749											
STRAP	11171	broad.mit.edu	37	chr12	16035702	16035702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgcgacccgtggttgatttgGccttcagtggcatcacgcct	5	11	12	13	4	2	1	2	1	0	0	2	2	2	1	3	3	0	2	3	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:16035702G>A	uc001rdc.3	+	1	415	c.61G>A	c.(61-63)GCC>ACC	p.A21T	STRAP_uc010shw.1_Missense_Mutation_p.A21T|STRAP_uc001rdd.3_5'UTR	NM_007178	NP_009109	Q9Y3F4	STRAP_HUMAN	serine/threonine kinase receptor associated	21	WD 1.				mRNA processing|RNA splicing	cell junction|mitochondrion|spliceosomal complex	identical protein binding			skin(1)	1		Hepatocellular(102;0.121)				GGTTGATTTGGCCTTCAGTGG	0.612													5	31					0	0	1	0	0		A	16035702	A	A	16035702	3	1	27	1	0	0	0	0	1	0	0	0	15351	1203	42	2	63	2	STRAP	12	16035702	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	224208	16035702	117816193	5399	27750											
AEBP2	121536	broad.mit.edu	37	chr12	19593269	19593269	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttggagatgtcgtcggaTggggaacccctgagccgcat	8	8	15	10	3	0	2	0	1	0	1	2	5	0	4	3	4	3	2	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:19593269T>C	uc001ref.2	+	1	662	c.636T>C	c.(634-636)GAT>GAC	p.D212D	AEBP2_uc001ree.2_Silent_p.D212D|AEBP2_uc001reg.1_5'Flank	NM_001114176	NP_001107648	Q6ZN18	AEBP2_HUMAN	AE binding protein 2 isoform b	212	Ser-rich.|Interaction with RBBP4.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)|Esophageal squamous(101;0.143)					TGTCGTCGGATGGGGAACCCC	0.483													5	36					0	0	1	0	0		C	19593269	C	C	19593269	2	2	27	1	0	0	0	0	0	0	0	1	350	1461	51	3		3	AEBP2	12	19593269	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3557567	19593269	114258626	5400	27751											
AEBP2	121536	broad.mit.edu	37	chr12	19615467	19615467	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcagtactataatggatgTagacagcacaatttccagtg	15	10	9	7	0	0	1	0	0	0	1	1	2	1	2	1	1	3	4	1	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:19615467T>C	uc001ref.2	+	2	721	c.695T>C	c.(694-696)GTA>GCA	p.V232A	AEBP2_uc001ree.2_Missense_Mutation_p.V232A|AEBP2_uc001reg.1_Missense_Mutation_p.V3A	NM_001114176	NP_001107648	Q6ZN18	AEBP2_HUMAN	AE binding protein 2 isoform b	232	Ser-rich.|Interaction with RBBP4.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)|Esophageal squamous(101;0.143)					ATAATGGATGTAGACAGCACA	0.333													4	20					0	0	1	0	0		C	19615467	C	C	19615467	3	2	27	1	0	0	0	0	1	0	0	0	350	1638	57	3	701	3	AEBP2	12	19615467	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	22198	19615467	114236428	5401	27752											
AEBP2	121536	broad.mit.edu	37	chr12	19671029	19671029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttttctagaacaatgcCgcagaagaggttgaagaggt	12	11	11	7	1	2	5	0	1	2	4	2	5	2	5	1	2	2	2	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:19671029C>T	uc001ref.2	+	8	1516	c.1490C>T	c.(1489-1491)CCG>CTG	p.P497L	AEBP2_uc001ree.2_Missense_Mutation_p.P497L|AEBP2_uc001reg.1_Missense_Mutation_p.P268L	NM_001114176	NP_001107648	Q6ZN18	AEBP2_HUMAN	AE binding protein 2 isoform b	497	Interaction with SUZ12.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)|Esophageal squamous(101;0.143)					AGAACAATGCCGCAGAAGAGG	0.338													6	16					0	0	1	0	0		T	19671029	T	T	19671029	3	4	27	1	0	0	0	0	1	0	0	0	350	652	23	1	1520	1	AEBP2	12	19671029	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	55562	19671029	114180866	5402	27753											
PDE3A	5139	broad.mit.edu	37	chr12	20803459	20803459	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtgtataaagttggctgaTatcaatggtccagctaaatg	13	13	10	5	0	1	1	1	1	0	0	2	1	2	1	1	2	1	4	1	2	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:20803459T>C	uc001reh.1	+	14	2872	c.2850T>C	c.(2848-2850)GAT>GAC	p.D950D		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	950	Catalytic (By similarity).	Divalent metal cation 1 (By similarity).			lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	AGTTGGCTGATATCAATGGTC	0.348													8	66					0	0	1	0	0		C	20803459	C	C	20803459	2	2	27	1	0	0	0	0	0	0	0	1	11656	1403	49	3		3	PDE3A	12	20803459	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1132430	20803459	113048436	5403	27754											
SLCO1C1	53919	broad.mit.edu	37	chr12	20859017	20859017	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcagttcttcatggagcagTaagtctaaagcaatcatctt	12	13	7	9	0	6	0	3	0	3	0	6	1	6	1	0	1	2	4	0	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:20859017T>C	uc001rej.3	+	5	759	c.404_splice	c.e5+2	p.Q135_splice	SLCO1C1_uc010sii.1_Splice_Site_p.Q135_splice|SLCO1C1_uc010sij.1_Splice_Site_p.Q135_splice|SLCO1C1_uc009zip.2_Intron|SLCO1C1_uc001rei.2_Splice_Site_p.Q135_splice|SLCO1C1_uc010sik.1_Splice_Site_p.Q17_splice	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,						sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					CATGGAGCAGTAAGTCTAAAG	0.388													6	195					0	0	1	0	0		C	20859017	C	C	20859017	5	2	27	1	0	0	0	0	0	0	1	0	14750	1652	57	3	416	3	SLCO1C1	12	20859017	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	55558	20859017	112992878	5404	27755											
SLCO1B3	28234	broad.mit.edu	37	chr12	21033815	21033815	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagtggcatctcatgtagAtgtaccactttcttattgca	9	16	7	9	0	3	1	2	0	2	1	4	1	3	1	1	1	2	4	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:21033815A>T	uc001rek.2	+	11	1484	c.1358A>T	c.(1357-1359)GAT>GTT	p.D453V	SLCO1B3_uc001rel.2_Missense_Mutation_p.D453V|SLCO1B3_uc010sil.1_Missense_Mutation_p.D453V|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Missense_Mutation_p.D278V	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	453	Extracellular (Potential).|Kazal-like.				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TCTCATGTAGATGTACCACTT	0.279													7	84					0	0	1	0	0		T	21033815	T	T	21033815	3	4	27	1	0	0	0	0	1	0	0	0	14749	333	12	5	1396	5	SLCO1B3	12	21033815	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	174798	21033815	112818080	5405	27756											
LST-3TM12	338821	broad.mit.edu	37	chr12	21201738	21201738	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttagttggacttgccaaaTtggcattttgttctgcaaca	9	16	8	8	0	1	0	0	0	1	0	1	1	1	1	1	2	3	4	1	2	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:21201738T>A	uc010sin.1	+	8	1087	c.1087T>A	c.(1087-1089)TTG>ATG	p.L363M	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Missense_Mutation_p.L410M	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	363						membrane	transporter activity				0						ACTTGCCAAATTGGCATTTTG	0.378													3	25					0	0	1	0	0		A	21201738	A	A	21201738	3	1	27	1	0	0	0	0	1	0	0	0	9084	1490	52	5	1117	5	LST-3TM12	12	21201738	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	167923	21201738	112650157	5406	27757											
SLCO1B1	10599	broad.mit.edu	37	chr12	21327601	21327601	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggttgtttcattatgggaaTtggaggtgttttgactgctt	6	18	13	4	1	1	1	1	1	0	0	1	3	1	3	0	4	1	4	0	4	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:21327601T>A	uc001req.3	+	4	421	c.317T>A	c.(316-318)ATT>AAT	p.I106N		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	106	Helical; Name=3; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	ATTATGGGAATTGGAGGTGTT	0.353													5	53					0	0	1	0	0		A	21327601	A	A	21327601	3	1	27	1	0	0	0	0	1	0	0	0	14748	1493	52	5	327	5	SLCO1B1	12	21327601	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	125863	21327601	112524294	5407	27758											
SLCO1B1	10599	broad.mit.edu	37	chr12	21377697	21377697	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttggggctctgattgatAcaacgtgtataaagtggtcc	10	14	11	6	1	1	2	0	2	1	0	2	2	2	2	1	3	2	2	1	3	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:21377697A>G	uc001req.3	+	14	1893	c.1789A>G	c.(1789-1791)ACA>GCA	p.T597A		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	597	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	TCTGATTGATACAACGTGTAT	0.368													6	96					0	0	1	0	0		G	21377697	G	G	21377697	3	3	27	1	0	0	0	0	1	0	0	0	14748	391	14	3	1839	3	SLCO1B1	12	21377697	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	50096	21377697	112474198	5408	27759											
RECQL	5965	broad.mit.edu	37	chr12	21636379	21636379	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaattcgagtaaatctccTtgcttcataggctttctcta	10	15	6	10	1	3	0	1	0	2	0	6	1	3	0	1	1	2	4	1	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:21636379T>C	uc001rex.2	-	7	979	c.631A>G	c.(631-633)AGG>GGG	p.R211G	RECQL_uc001rey.2_Missense_Mutation_p.R211G	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	211	Helicase ATP-binding.				DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						GTAAATCTCCTTGCTTCATAG	0.363								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					7	59					0	0	1	0	0		C	21636379	C	C	21636379	3	2	27	1	0	0	0	0	1	0	0	0	13226	1608	56	3	1358	3	RECQL	12	21636379	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	258682	21636379	112215516	5409	27760											
ABCC9	10060	broad.mit.edu	37	chr12	21981972	21981972	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccgtcagttccagcatacGttgtttaaatctggtttcat	9	16	7	9	2	3	0	2	0	1	0	5	0	5	0	2	1	2	5	2	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:21981972G>A	uc001rfi.1	-	29	3609	c.3589C>T	c.(3589-3591)CGT>TGT	p.R1197C	ABCC9_uc001rfh.2_Missense_Mutation_p.R1197C|ABCC9_uc001rfj.1_Missense_Mutation_p.R1161C	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1197	Extracellular (Potential).|ABC transmembrane type-1 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TCCAGCATACGTTGTTTAAAT	0.403													7	82					0	0	1	0	0		A	21981972	A	A	21981972	3	1	27	1	0	0	0	0	1	0	0	0	59	1145	40	1	1242	1	ABCC9	12	21981972	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	345593	21981972	111869923	5410	27761											
ABCC9	10060	broad.mit.edu	37	chr12	22069897	22069897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaatgacattgatctccaCagccatcaagagcccattca	13	9	6	13	1	3	3	2	2	1	1	5	4	3	3	3	0	2	0	3	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:22069897C>T	uc001rfi.1	-	4	567	c.547G>A	c.(547-549)GTG>ATG	p.V183M	ABCC9_uc001rfh.2_Missense_Mutation_p.V183M|ABCC9_uc001rfj.1_Missense_Mutation_p.V183M	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	183	Helical; Name=5; (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TTGATCTCCACAGCCATCAAG	0.408													24	209					0	0	1	0	0		T	22069897	T	T	22069897	3	4	27	1	0	0	0	0	1	0	0	0	59	478	17	4	4384	4	ABCC9	12	22069897	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	87925	22069897	111781998	5411	27762											
ABCC9	10060	broad.mit.edu	37	chr12	22078945	22078945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcgatgttgtagtggcaaCgaatcccatcacggctggca	10	10	11	10	3	1	0	1	0	0	0	3	2	2	0	1	3	1	5	1	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:22078945C>T	uc001rfi.1	-	3	357	c.337G>A	c.(337-339)GTT>ATT	p.V113I	ABCC9_uc001rfh.2_Missense_Mutation_p.V113I|ABCC9_uc001rfj.1_Missense_Mutation_p.V113I|ABCC9_uc001rfk.2_Missense_Mutation_p.V113I|ABCC9_uc001rfl.1_Missense_Mutation_p.V113I	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	113	Helical; Name=3; (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GTAGTGGCAACGAATCCCATC	0.408													7	103					0	0	1	0	0		T	22078945	T	T	22078945	3	4	27	1	0	0	0	0	1	0	0	0	59	536	19	1	4598	1	ABCC9	12	22078945	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9048	22078945	111772950	5412	27763											
SOX5	6660	broad.mit.edu	37	chr12	23687268	23687268	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattgatgtcctcggcctgtAtctcttctttgatatgtggc	5	17	9	10	1	2	2	0	2	2	0	5	2	3	2	2	2	0	1	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:23687268A>T	uc001rfw.2	-	15	2279	c.2177T>A	c.(2176-2178)ATA>AAA	p.I726K	SOX5_uc001rfx.2_Missense_Mutation_p.I713K|SOX5_uc001rfy.2_Missense_Mutation_p.I605K|SOX5_uc001rfv.2_Missense_Mutation_p.I340K|SOX5_uc010siv.1_Missense_Mutation_p.I713K	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	726					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						CTCGGCCTGTATCTCTTCTTT	0.478													4	98					0	0	1	0	0		T	23687268	T	T	23687268	3	4	27	1	0	0	0	0	1	0	0	0	14979	449	16	5	118	5	SOX5	12	23687268	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1608323	23687268	110164627	5413	27764											
SOX5	6660	broad.mit.edu	37	chr12	23893932	23893932	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcagctggttgatcatacCcatgagttgcctttctttct	6	16	9	10	0	4	2	2	2	2	0	4	2	4	2	2	2	3	3	2	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:23893932C>A	uc001rfw.2	-	5	712	c.610G>T	c.(610-612)GGT>TGT	p.G204C	SOX5_uc001rfx.2_Missense_Mutation_p.G191C|SOX5_uc001rfy.2_Missense_Mutation_p.G191C|SOX5_uc010siv.1_Missense_Mutation_p.G191C|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.G156C	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	204	Potential.				transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TTGATCATACCCATGAGTTGC	0.433													11	59					2.80697e-09	3.09538e-09	1	1	0		A	23893932	A	A	23893932	3	1	27	1	0	0	0	0	1	0	0	0	14979	623	22	5	1735	5	SOX5	12	23893932	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	206664	23893932	109957963	5414	27765											
IFLTD1	160492	broad.mit.edu	37	chr12	25702341	25702341	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgatatagttactctacTaatctgaggactagacagat	13	14	8	6	0	2	4	0	2	2	2	2	5	2	5	0	1	2	2	0	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:25702341T>C	uc001rgs.2	-	2	316	c.166A>G	c.(166-168)AGT>GGT	p.S56G	IFLTD1_uc001rgt.1_5'UTR|IFLTD1_uc010sji.1_Missense_Mutation_p.S77G|IFLTD1_uc010sjj.1_Intron|IFLTD1_uc009zjc.2_Missense_Mutation_p.S77G	NM_152590	NP_689803	Q8N9Z9	ILFT1_HUMAN	intermediate filament tail domain containing 1	56						intermediate filament	structural molecule activity			ovary(2)|central_nervous_system(1)	3	all_lung(3;2.75e-22)|Lung NSC(3;1.77e-21)|all_hematologic(7;0.00656)|Colorectal(261;0.0847)					GTTACTCTACTAATCTGAGGA	0.418													8	63					0	0	1	0	0		C	25702341	C	C	25702341	3	2	27	1	0	0	0	0	1	0	0	0	7546	1522	53	3	1028	3	IFLTD1	12	25702341	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1808409	25702341	108149554	5415	27766											
ITPR2	3709	broad.mit.edu	37	chr12	26571996	26571996	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcaccaggaagctatagaAgaattcatggacaaaaaggc	18	6	9	8	0	2	2	2	0	0	2	2	4	2	4	1	3	1	1	1	3	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:26571996A>G	uc001rhg.2	-	50	7513	c.7096T>C	c.(7096-7098)TTC>CTC	p.F2366L	ITPR2_uc009zjg.1_Missense_Mutation_p.F517L	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	2366	Helical; (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					AAGCTATAGAAGAATTCATGG	0.448													16	52					0	0	1	0	0		G	26571996	G	G	26571996	3	3	27	1	0	0	0	0	1	0	0	0	7937	72	3	3	1041	3	ITPR2	12	26571996	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	869655	26571996	107279899	5416	27767											
ITPR2	3709	broad.mit.edu	37	chr12	26709200	26709200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccacatcttattcttgcatCgcttccctcagggaacagca	9	11	7	14	1	3	0	1	0	2	0	5	1	4	1	2	1	3	3	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:26709200C>T	uc001rhg.2	-	36	5347	c.4930G>A	c.(4930-4932)GAT>AAT	p.D1644N		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1644	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					ATTCTTGCATCGCTTCCCTCA	0.483													23	157					0	0	1	0	0		T	26709200	T	T	26709200	3	4	27	1	0	0	0	0	1	0	0	0	7937	884	31	1	3263	1	ITPR2	12	26709200	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	137204	26709200	107142695	5417	27768											
ITPR2	3709	broad.mit.edu	37	chr12	26774071	26774071	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaacctcaattggctcttcAccacctttcacttgactttc	8	14	4	15	1	4	1	3	1	1	0	5	2	4	1	3	1	1	1	3	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:26774071A>G	uc001rhg.2	-	26	3864	c.3447T>C	c.(3445-3447)GGT>GGC	p.G1149G		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1149	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					TTGGCTCTTCACCACCTTTCA	0.398													12	253					0	0	1	0	0		G	26774071	G	G	26774071	2	3	27	1	0	0	0	0	0	0	0	1	7937	146	6	3		3	ITPR2	12	26774071	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	64871	26774071	107077824	5418	27769											
ITPR2	3709	broad.mit.edu	37	chr12	26816642	26816642	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttccggtaatcctgctgCgagtgtctcaggacgcggta	6	13	12	10	4	1	0	1	0	1	0	4	2	3	1	2	3	2	3	2	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:26816642C>T	uc001rhg.2	-	15	2106	c.1689G>A	c.(1687-1689)TCG>TCA	p.S563S		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	563	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					AATCCTGCTGCGAGTGTCTCA	0.473													8	306					0	0	1	0	0		T	26816642	T	T	26816642	2	4	27	1	0	0	0	0	0	0	0	1	7937	755	27	1		1	ITPR2	12	26816642	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	42571	26816642	107035253	5419	27770											
ITPR2	3709	broad.mit.edu	37	chr12	26864129	26864129	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagctaaatagtttccagTtgcaagatgcttaaatctga	13	13	8	7	0	1	2	0	1	1	1	2	2	2	2	1	0	4	6	1	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:26864129T>A	uc001rhg.2	-	9	1345	c.928A>T	c.(928-930)ACT>TCT	p.T310S		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	310	Cytoplasmic (Potential).|MIR 4.				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					TAGTTTCCAGTTGCAAGATGC	0.448													3	34					0	0	1	0	0		A	26864129	A	A	26864129	3	1	27	1	0	0	0	0	1	0	0	0	7937	1725	60	5	7373	5	ITPR2	12	26864129	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47487	26864129	106987766	5420	27771											
C12orf11	55726	broad.mit.edu	37	chr12	27087529	27087529	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgagtccaagaatttaaaAcatgtgctccagagtcactc	13	11	7	10	0	1	3	1	1	0	2	4	3	3	3	2	0	2	1	2	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:27087529A>G	uc001rhk.3	-	3	797	c.260T>C	c.(259-261)GTT>GCT	p.V87A	C12orf11_uc010sjk.1_Intron	NM_018164	NP_060634	Q9NVM9	M89BB_HUMAN	hypothetical protein LOC55726	87					cell division|mitosis|regulation of mitotic cell cycle		protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	Colorectal(261;0.0847)					AGAATTTAAAACATGTGCTCC	0.313													14	162					0	0	1	0	0		G	27087529	G	G	27087529	3	3	27	1	0	0	0	0	1	0	0	0	1678	43	2	3	1920	3	C12orf11	12	27087529	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	223400	27087529	106764366	5421	27772											
TM7SF3	51768	broad.mit.edu	37	chr12	27143484	27143484	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacgggtcccaaacaatgAcattgtatatgacaccttgt	14	10	8	9	1	0	2	0	2	0	0	1	3	1	2	2	1	2	1	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:27143484A>G	uc010sjl.1	-	6	1005	c.767T>C	c.(766-768)GTC>GCC	p.V256A		NM_016551	NP_057635	Q9NS93	TM7S3_HUMAN	transmembrane 7 superfamily member 3 precursor	256						integral to membrane|plasma membrane				upper_aerodigestive_tract(2)	2	Colorectal(261;0.0847)					CCAAACAATGACATTGTATAT	0.458													7	90					0	0	1	0	0		G	27143484	G	G	27143484	3	3	27	1	0	0	0	0	1	0	0	0	16000	275	10	3	973	3	TM7SF3	12	27143484	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	55955	27143484	106708411	5422	27773											
MED21	9412	broad.mit.edu	37	chr12	27179427	27179427	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctttcaataatattcaGacagcaattaacaaagacca	17	10	4	10	0	3	2	2	0	1	2	3	2	3	2	2	0	2	1	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:27179427G>T	uc001rhp.1	+	2	147	c.117G>T	c.(115-117)CAG>CAT	p.Q39H	MED21_uc009zjh.1_Intron	NM_004264	NP_004255	Q13503	MED21_HUMAN	mediator complex subunit 21	39					positive regulation of transcription from RNA polymerase II promoter	mediator complex	DNA-directed RNA polymerase activity|transcription coactivator activity				0	Colorectal(261;0.0847)					ATAATATTCAGACAGCAATTA	0.383													7	52					1.12685e-05	1.21022e-05	1	1	0		T	27179427	T	T	27179427	3	4	27	1	0	0	0	0	1	0	0	0	9457	933	33	5	123	5	MED21	12	27179427	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	35943	27179427	106672468	5423	27774											
C12orf71	728858	broad.mit.edu	37	chr12	27235444	27235444	+	Translation_Start_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggcacaaatttctctcaActtgagaagcttcaaaaaag	18	9	6	8	0	3	1	2	1	1	1	4	2	3	1	0	1	2	2	0	1	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:27235444A>T	uc001rhq.2	-	1	12	c.-27T>A	c.(-29--25)AGTTG>AGATG			NM_001080406	NP_001073875	A8MTZ7	CL071_HUMAN	hypothetical protein LOC728858												0						ATTTCTCTCAACTTGAGAAGC	0.383													6	23					0	0	1	0	0		T	27235444	T	T	27235444	1	4	27	1	0	0	0	0	0	0	0	0	1715	58	2	5		5	C12orf71	12	27235444	Translation_Start_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	56017	27235444	106616451	5424	27775											
FAR2	55711	broad.mit.edu	37	chr12	29485537	29485537	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcttgcctctcaggtatTcaactttgacgtgcgccagt	6	14	8	13	2	3	1	2	1	2	0	5	1	3	1	2	1	3	1	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:29485537T>C	uc001ris.3	+	11	1409	c.1262T>C	c.(1261-1263)TTC>TCC	p.F421S	FAR2_uc001rit.2_Missense_Mutation_p.F421S|FAR2_uc009zjm.2_Missense_Mutation_p.F324S	NM_018099	NP_060569	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	421					ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0						TCTCAGGTATTCAACTTTGAC	0.408													4	55					0	0	1	0	0		C	29485537	C	C	29485537	3	2	27	1	0	0	0	0	1	0	0	0	5689	1783	62	3	1300	3	FAR2	12	29485537	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2250093	29485537	104366358	5425	27776											
OVCH1	341350	broad.mit.edu	37	chr12	29592296	29592296	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatatgcatgatatatgtgtTaataaaattcagtttttctc	13	19	5	4	0	2	1	1	1	1	0	3	1	2	1	0	0	1	3	0	0	7	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:29592296T>C	uc001rix.1	-	26	3229	c.3229A>G	c.(3229-3231)AAC>GAC	p.N1077D		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	1077					proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					atatatgtgttaataaaattc	0													3	21					0	0	1	0	0		C	29592296	C	C	29592296	3	2	27	1	0	0	0	0	1	0	0	0	11342	1754	61	3	187	3	OVCH1	12	29592296	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	106759	29592296	104259599	5426	27777											
OVCH1	341350	broad.mit.edu	37	chr12	29630380	29630380	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactggtctctgccagcaaTggtgaaggcaatatttttcc	9	13	9	10	0	2	1	1	1	1	0	4	1	3	1	2	3	2	2	2	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:29630380T>C	uc001rix.1	-	11	1140	c.1140A>G	c.(1138-1140)CCA>CCG	p.P380P		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	380	CUB 1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					CTGCCAGCAATGGTGAAGGCA	0.413													6	104					0	0	1	0	0		C	29630380	C	C	29630380	2	2	27	1	0	0	0	0	0	0	0	1	11342	1451	51	3		3	OVCH1	12	29630380	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	38084	29630380	104221515	5427	27778											
TMTC1	83857	broad.mit.edu	37	chr12	29665046	29665046	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggtttagttgcacagccactCtatagctctaaataaataag	14	12	7	8	0	2	0	0	0	2	0	2	0	2	0	1	1	3	4	1	1	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:29665046C>G	uc001rjb.2	-	17	2588	c.2114G>C	c.(2113-2115)AGA>ACA	p.R705T	TMTC1_uc001riz.2_Missense_Mutation_p.R462T|TMTC1_uc001rja.2_Missense_Mutation_p.R549T|TMTC1_uc001riy.2_Missense_Mutation_p.R158T	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	813	TPR 9.					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					CACAGCCACTCTATAGCTCTA	0.428													18	154					0	0	1	0	0		G	29665046	G	G	29665046	3	3	27	1	0	0	0	0	1	0	0	0	16285	913	32	5	218	5	TMTC1	12	29665046	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	34666	29665046	104186849	5428	27779											
IPO8	10526	broad.mit.edu	37	chr12	30805933	30805933	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagcaatcctgctgaaacActtcatatagtatacctaga	16	10	5	10	0	1	2	1	1	0	1	2	2	2	2	2	0	4	3	2	0	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:30805933A>G	uc001rjd.2	-	18	2212	c.2042T>C	c.(2041-2043)GTG>GCG	p.V681A	IPO8_uc001rje.1_Missense_Mutation_p.V170A|IPO8_uc010sjt.1_Missense_Mutation_p.V476A	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	681					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					CTGCTGAAACACTTCATATAG	0.373													10	77					0	0	1	0	0		G	30805933	G	G	30805933	3	3	27	1	0	0	0	0	1	0	0	0	7814	159	6	3	1103	3	IPO8	12	30805933	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1140887	30805933	103045962	5429	27780											
CAPRIN2	65981	broad.mit.edu	37	chr12	30882246	30882246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatctacttctgtcatatagCgtctgttaagaaactagata	14	14	6	7	1	4	2	1	0	3	2	4	2	4	2	0	0	3	1	0	0	8	7	rs146283389	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:30882246C>T	uc001rji.1	-	8	1869	c.1118G>A	c.(1117-1119)CGC>CAC	p.R373H	CAPRIN2_uc001rjf.1_Missense_Mutation_p.R170H|CAPRIN2_uc001rjg.1_Missense_Mutation_p.R40H|CAPRIN2_uc001rjh.1_Missense_Mutation_p.R373H|CAPRIN2_uc001rjj.1_Missense_Mutation_p.R40H|CAPRIN2_uc001rjk.3_Missense_Mutation_p.R373H|CAPRIN2_uc001rjl.3_Missense_Mutation_p.R373H|CAPRIN2_uc001rjm.1_Missense_Mutation_p.R40H|CAPRIN2_uc001rjn.1_Missense_Mutation_p.R40H	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	373					negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					TGTCATATAGCGTCTGTTAAG	0.368													12	47					0	0	1	0	0		T	30882246	T	T	30882246	3	4	27	1	0	0	0	0	1	0	0	0	2639	768	27	1	2309	1	CAPRIN2	12	30882246	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	76313	30882246	102969649	5430	27781											
CAPRIN2	65981	broad.mit.edu	37	chr12	30887988	30887988	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcaaatacactgcaccAttcaaaccccctttgaagtc	14	8	6	13	0	1	1	1	1	0	0	2	2	1	1	3	1	3	2	3	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:30887988A>G	uc001rji.1	-	4	1474	c.723T>C	c.(721-723)AAT>AAC	p.N241N	CAPRIN2_uc001rjf.1_Silent_p.N38N|CAPRIN2_uc001rjg.1_5'UTR|CAPRIN2_uc001rjh.1_Silent_p.N241N|CAPRIN2_uc001rjj.1_5'UTR|CAPRIN2_uc001rjk.3_Silent_p.N241N|CAPRIN2_uc001rjl.3_Silent_p.N241N	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	241					negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					ACACTGCACCATTCAAACCCC	0.388													14	170					0	0	1	0	0		G	30887988	G	G	30887988	2	3	27	1	0	0	0	0	0	0	0	1	2639	214	8	3		3	CAPRIN2	12	30887988	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5742	30887988	102963907	5431	27782											
C12orf35	55196	broad.mit.edu	37	chr12	32135177	32135177	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggttgtattaaaatgActaatacttcttatagtgaa	15	14	7	5	0	1	2	0	2	1	0	1	2	1	2	0	1	2	3	0	1	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:32135177A>T	uc001rks.2	+	4	1702	c.1288A>T	c.(1288-1290)ACT>TCT	p.T430S		NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	430										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			TATTAAAATGACTAATACTTC	0.328													7	137					0	0	1	0	0		T	32135177	T	T	32135177	3	4	27	1	0	0	0	0	1	0	0	0	1685	275	10	5	1290	5	C12orf35	12	32135177	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1247189	32135177	101716718	5432	27783											
SYT10	341359	broad.mit.edu	37	chr12	33592387	33592387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actccacctggccggcgaagCacagctcggtgacgatgtgc	8	6	13	14	4	0	1	0	1	0	0	2	3	1	1	3	3	3	2	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:33592387C>T	uc001rll.1	-	1	368	c.71G>A	c.(70-72)TGC>TAC	p.C24Y	SYT10_uc009zju.1_5'UTR	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	24	Vesicular (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					GCCGGCGAAGCACAGCTCGGT	0.587													31	119					0	0	1	0	0		T	33592387	T	T	33592387	3	4	27	1	0	0	0	0	1	0	0	0	15491	710	25	2	1528	2	SYT10	12	33592387	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1457210	33592387	100259508	5433	27784											
ALG10	84920	broad.mit.edu	37	chr12	34179748	34179748	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatccagactcatttgtgaActgagctgctatgcagttgt	10	13	9	9	0	1	3	1	2	0	1	2	3	2	3	1	0	4	4	1	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:34179748A>G	uc001rlm.2	+	3	1639	c.1320A>G	c.(1318-1320)GAA>GAG	p.E440E		NM_032834	NP_116223	Q5BKT4	AG10A_HUMAN	asparagine-linked glycosylation 10 homolog	440	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			skin(1)	1	Lung NSC(5;3.82e-05)|Acute lymphoblastic leukemia(23;0.0142)|all_hematologic(23;0.0429)	Lung NSC(34;0.204)|all_lung(34;0.235)				TCATTTGTGAACTGAGCTGCT	0.373													5	190					0	0	1	0	0		G	34179748	G	G	34179748	2	3	27	1	0	0	0	0	0	0	0	1	511	40	2	3		3	ALG10	12	34179748	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	587361	34179748	99672147	5434	27785											
ALG10	84920	broad.mit.edu	37	chr12	34179794	34179794	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcataacttttttcatctttCtgaacaagacttttcagtgg	10	18	5	8	0	5	2	3	1	2	1	5	2	5	2	0	1	2	0	0	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:34179794C>A	uc001rlm.2	+	3	1685	c.1366C>A	c.(1366-1368)CTG>ATG	p.L456M		NM_032834	NP_116223	Q5BKT4	AG10A_HUMAN	asparagine-linked glycosylation 10 homolog	456	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			skin(1)	1	Lung NSC(5;3.82e-05)|Acute lymphoblastic leukemia(23;0.0142)|all_hematologic(23;0.0429)	Lung NSC(34;0.204)|all_lung(34;0.235)				TTTCATCTTTCTGAACAAGAC	0.353													9	181					1.12685e-05	1.21022e-05	1	1	0		A	34179794	A	A	34179794	3	1	27	1	0	0	0	0	1	0	0	0	511	912	32	5	1376	5	ALG10	12	34179794	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	46	34179794	99672101	5435	27786											
KIF21A	55605	broad.mit.edu	37	chr12	39751199	39751199	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattctcatgaaacatgtcaTtgatgctttccacaccctct	10	14	4	13	0	3	2	2	2	2	0	5	2	4	2	2	0	2	1	2	0	1	3	rs145427361		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:39751199T>A	uc001rly.2	-	9	1402	c.1256A>T	c.(1255-1257)AAT>ATT	p.N419I	KIF21A_uc001rlx.2_Missense_Mutation_p.N419I|KIF21A_uc001rlz.2_Missense_Mutation_p.N419I|KIF21A_uc010skl.1_Missense_Mutation_p.N419I|KIF21A_uc001rma.1_Missense_Mutation_p.N427I	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	419	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				AAACATGTCATTGATGCTTTC	0.388													5	74					0	0	1	0	0		A	39751199	A	A	39751199	3	1	27	1	0	0	0	0	1	0	0	0	8304	1493	52	5	3888	5	KIF21A	12	39751199	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5571405	39751199	94100696	5436	27787											
LRRK2	120892	broad.mit.edu	37	chr12	40677882	40677882	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataggaaaagttgaaccttCttggcttggtcctttatttc	9	17	8	7	0	1	1	0	1	1	0	3	2	2	2	2	3	1	2	2	3	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:40677882C>A	uc001rmg.3	+	19	2568	c.2447C>A	c.(2446-2448)TCT>TAT	p.S816Y	LRRK2_uc001rmh.1_Missense_Mutation_p.S438Y	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	816					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				GTTGAACCTTCTTGGCTTGGT	0.368													9	82					7.48243e-07	8.13385e-07	1	1	0		A	40677882	A	A	40677882	3	1	27	1	0	0	0	0	1	0	0	0	9051	913	32	5	2521	5	LRRK2	12	40677882	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	926683	40677882	93174013	5437	27788											
CNTN1	1272	broad.mit.edu	37	chr12	41327636	41327636	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatgaatgtgaggctgagaAcattagaggaaaggataaac	17	8	12	4	0	0	4	0	3	0	2	0	7	0	6	0	3	2	1	0	3	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:41327636A>G	uc001rmm.1	+	9	1054	c.941A>G	c.(940-942)AAC>AGC	p.N314S	CNTN1_uc009zjy.1_Missense_Mutation_p.N314S|CNTN1_uc001rmn.1_Missense_Mutation_p.N303S|CNTN1_uc001rmo.2_Missense_Mutation_p.N314S	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	314	Ig-like C2-type 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				GAGGCTGAGAACATTAGAGGA	0.353													5	78					0	0	1	0	0		G	41327636	G	G	41327636	3	3	27	1	0	0	0	0	1	0	0	0	3643	43	2	3	971	3	CNTN1	12	41327636	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	649754	41327636	92524259	5438	27789											
CNTN1	1272	broad.mit.edu	37	chr12	41374737	41374737	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccctccaggtggtctgAgaatagaagacattagagcc	12	7	12	10	0	1	4	0	1	1	4	2	5	2	4	3	3	1	0	3	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:41374737A>G	uc001rmm.1	+	16	1944	c.1831A>G	c.(1831-1833)AGA>GGA	p.R611G	CNTN1_uc001rmn.1_Missense_Mutation_p.R600G	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	611	Fibronectin type-III 1.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				AGGTGGTCTGAGAATAGAAGA	0.413													11	152					0	0	1	0	0		G	41374737	G	G	41374737	3	3	27	1	0	0	0	0	1	0	0	0	3643	296	11	3	1889	3	CNTN1	12	41374737	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	47101	41374737	92477158	5439	27790											
PDZRN4	29951	broad.mit.edu	37	chr12	41961604	41961604	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggatgaaggctggctggAagatgaaaggaatgaattct	13	9	15	4	0	1	4	0	3	1	1	1	7	1	7	0	5	0	3	0	5	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:41961604A>G	uc010skn.1	+	9	958	c.890A>G	c.(889-891)GAA>GGA	p.E297G	PDZRN4_uc001rmq.3_Missense_Mutation_p.E238G|PDZRN4_uc009zjz.2_Missense_Mutation_p.E236G|PDZRN4_uc001rmr.2_Missense_Mutation_p.E123G	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	496							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				GGCTGGCTGGAAGATGAAAGG	0.403													4	39					0	0	1	0	0		G	41961604	G	G	41961604	3	3	27	1	0	0	0	0	1	0	0	0	11729	246	9	3	1594	3	PDZRN4	12	41961604	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	586867	41961604	91890291	5440	27791											
GXYLT1	283464	broad.mit.edu	37	chr12	42512919	42512919	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcttccagtctttcaccAcaggcaactacagctagatg	10	12	7	12	0	3	1	1	0	2	1	4	1	4	1	2	1	3	3	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:42512919A>G	uc001rms.3	-	3	594	c.369T>C	c.(367-369)TGT>TGC	p.C123C	GXYLT1_uc001rmt.3_Silent_p.C92C	NM_173601	NP_775872	Q4G148	GXLT1_HUMAN	glycosyltransferase 8 domain containing 3	123	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						GTCTTTCACCACAGGCAACTA	0.363													9	80					0	0	1	0	0		G	42512919	G	G	42512919	2	3	27	1	0	0	0	0	0	0	0	1	6919	157	6	3		3	GXYLT1	12	42512919	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	551315	42512919	91338976	5441	27792											
PPHLN1	51535	broad.mit.edu	37	chr12	42745851	42745851	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggtccacctcacagaggAgtatgtaaatttcccccatg	11	10	9	11	0	1	1	1	0	0	1	3	2	3	2	4	2	0	2	4	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:42745851A>G	uc001rng.1	+	3	342	c.237A>G	c.(235-237)GGA>GGG	p.G79G	PPHLN1_uc001rmy.2_Silent_p.G97G|PPHLN1_uc001rna.2_Intron|PPHLN1_uc001rne.2_Silent_p.G86G|PPHLN1_uc001rnb.2_Silent_p.G86G|PPHLN1_uc001rnd.2_Intron|PPHLN1_uc001rnc.2_Silent_p.G79G|PPHLN1_uc001rnf.2_Silent_p.G79G|PPHLN1_uc010skq.1_Intron|PPHLN1_uc010skr.1_Intron|PPHLN1_uc010sks.1_Intron|PPHLN1_uc010skt.1_Intron|PPHLN1_uc001rni.1_Intron|PPHLN1_uc001rnh.1_Intron|PPHLN1_uc010sku.1_Intron	NM_016488	NP_057572	Q8NEY8	PPHLN_HUMAN	periphilin 1 isoform 1	79					keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)		CTCACAGAGGAGTATGTAAAT	0.348													4	51					0	0	1	0	0		G	42745851	G	G	42745851	2	3	27	1	0	0	0	0	0	0	0	1	12334	318	11	3		3	PPHLN1	12	42745851	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	232932	42745851	91106044	5442	27793											
ADAMTS20	80070	broad.mit.edu	37	chr12	43846182	43846182	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattggttccagcaacctgAcaatagagtttacaacgatc	14	11	7	9	1	0	2	0	1	0	1	2	3	1	2	2	1	4	3	2	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:43846182A>G	uc010skx.1	-	14	1974	c.1974T>C	c.(1972-1974)TGT>TGC	p.C658C		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	658	Cys-rich.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CAGCAACCTGACAATAGAGTT	0.353													5	84					0	0	1	0	0		G	43846182	G	G	43846182	2	3	27	1	0	0	0	0	0	0	0	1	266	273	10	3		3	ADAMTS20	12	43846182	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1100331	43846182	90005713	5443	27794											
TMEM117	84216	broad.mit.edu	37	chr12	44338087	44338087	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttcttcagcacaattctcTttctcttcatattttctcac	7	20	2	12	0	6	0	3	0	4	0	9	0	6	0	0	0	1	2	0	0	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:44338087T>C	uc001rod.2	+	3	418	c.352T>C	c.(352-354)TTT>CTT	p.F118L	TMEM117_uc001roe.2_Missense_Mutation_p.L47P|TMEM117_uc009zkc.2_Missense_Mutation_p.F118L	NM_032256	NP_115632	Q9H0C3	TM117_HUMAN	transmembrane protein 117	118	Helical; (Potential).					endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		CACAATTCTCTTTCTCTTCAT	0.358													15	106					0	0	1	0	0		C	44338087	C	C	44338087	3	2	27	1	0	0	0	0	1	0	0	0	16056	1609	56	3	358	3	TMEM117	12	44338087	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	491905	44338087	89513808	5444	27795											
TMEM117	84216	broad.mit.edu	37	chr12	44782428	44782428	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgatcaagacccaacGacttctaaaagtacacctac	16	7	6	12	1	2	2	1	1	1	1	2	4	2	2	2	0	4	2	2	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:44782428G>T	uc001rod.2	+	8	1584	c.1518G>T	c.(1516-1518)ACG>ACT	p.T506T	TMEM117_uc001roe.2_Silent_p.T402T|TMEM117_uc009zkc.2_3'UTR	NM_032256	NP_115632	Q9H0C3	TM117_HUMAN	transmembrane protein 117	506						endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		AAGACCCAACGACTTCTAAAA	0.398													9	128					1.12685e-05	1.21022e-05	1	1	0		T	44782428	T	T	44782428	2	4	27	1	0	0	0	0	0	0	0	1	16056	1045	37	5		5	TMEM117	12	44782428	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	444341	44782428	89069467	5445	27796											
NELL2	4753	broad.mit.edu	37	chr12	45170844	45170844	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttggctgatgttttggctAaaatatcctgtagctccatg	8	15	9	9	0	0	1	0	1	0	0	2	1	2	1	3	2	1	5	3	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:45170844A>G	uc001rog.2	-	7	1338	c.743T>C	c.(742-744)TTA>TCA	p.L248S	NELL2_uc001rof.3_Missense_Mutation_p.L247S|NELL2_uc001roh.2_Missense_Mutation_p.L248S|NELL2_uc009zkd.2_Missense_Mutation_p.L247S|NELL2_uc010skz.1_Missense_Mutation_p.L298S|NELL2_uc010sla.1_Missense_Mutation_p.L271S|NELL2_uc001roi.1_Missense_Mutation_p.L248S|NELL2_uc010slb.1_Missense_Mutation_p.L247S|NELL2_uc001roj.2_Missense_Mutation_p.L248S	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	248	TSP N-terminal.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		TGTTTTGGCTAAAATATCCTG	0.373													3	71					0	0	1	0	0		G	45170844	G	G	45170844	3	3	27	1	0	0	0	0	1	0	0	0	10353	372	13	3	1763	3	NELL2	12	45170844	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	388416	45170844	88681051	5446	27797											
ARID2	196528	broad.mit.edu	37	chr12	46231180	46231180	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgtctaatgtcaagggAtagatttttaaagatgagag	17	12	10	2	0	2	3	1	1	1	3	2	5	2	4	0	1	0	0	0	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:46231180A>T	uc001ros.1	+	9	1100	c.1100A>T	c.(1099-1101)GAT>GTT	p.D367V	ARID2_uc001ror.2_Missense_Mutation_p.D367V|ARID2_uc009zkg.1_5'UTR|ARID2_uc009zkh.1_Missense_Mutation_p.D13V|ARID2_uc001rot.1_Missense_Mutation_p.D13V	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	367					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		ATGTCAAGGGATAGATTTTTA	0.294													25	80					0	0	1	0	0		T	46231180	T	T	46231180	3	4	27	1	0	0	0	0	1	0	0	0	915	333	12	5	1134	5	ARID2	12	46231180	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1060336	46231180	87620715	5447	27798											
ARID2	196528	broad.mit.edu	37	chr12	46245033	46245033	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacagatgcaagttcaacctCaacagtcgaatgcaggagtt	14	9	9	9	1	2	1	2	0	0	1	3	3	2	2	1	1	5	4	1	1	5	3	rs139789595		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:46245033C>T	uc001ros.1	+	15	3127	c.3127C>T	c.(3127-3129)CAA>TAA	p.Q1043*	ARID2_uc001ror.2_Nonsense_Mutation_p.Q1043*|ARID2_uc009zkg.1_Nonsense_Mutation_p.Q499*|ARID2_uc009zkh.1_Nonsense_Mutation_p.Q670*|ARID2_uc001rou.1_Nonsense_Mutation_p.Q377*	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1043	Gln-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding	p.Q1043*(1)		ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		AGTTCAACCTCAACAGTCGAA	0.512													8	94					0	0	1	0	0		T	46245033	T	T	46245033	4	4	27	1	0	0	0	0	0	1	0	0	915	827	29	4	3185	4	ARID2	12	46245033	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13853	46245033	87606862	5448	27799											
ARID2	196528	broad.mit.edu	37	chr12	46245055	46245055	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acagtcgaatgcaggagttgGtcagcctgcctctggtgagt	8	10	14	9	1	2	1	1	1	1	0	3	3	2	2	2	3	3	2	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:46245055G>C	uc001ros.1	+	15	3149	c.3149G>C	c.(3148-3150)GGT>GCT	p.G1050A	ARID2_uc001ror.2_Missense_Mutation_p.G1050A|ARID2_uc009zkg.1_Missense_Mutation_p.G506A|ARID2_uc009zkh.1_Missense_Mutation_p.G677A|ARID2_uc001rou.1_Missense_Mutation_p.G384A	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1050	Gln-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		GCAGGAGTTGGTCAGCCTGCC	0.517													7	101					0	0	1	0	0		C	46245055	C	C	46245055	3	2	27	1	0	0	0	0	1	0	0	0	915	1261	44	5	3207	5	ARID2	12	46245055	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	22	46245055	87606840	5449	27800											
ARID2	196528	broad.mit.edu	37	chr12	46246402	46246402	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtatcccattctcctgcccTatcatctgacgttcggtcta	7	14	6	14	2	4	1	1	1	3	0	7	1	5	1	3	1	1	2	3	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:46246402T>C	uc001ros.1	+	15	4496	c.4496T>C	c.(4495-4497)CTA>CCA	p.L1499P	ARID2_uc001ror.2_Missense_Mutation_p.L1499P|ARID2_uc009zkg.1_Missense_Mutation_p.L955P|ARID2_uc009zkh.1_Missense_Mutation_p.L1126P|ARID2_uc001rou.1_Missense_Mutation_p.L833P	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1499					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TCTCCTGCCCTATCATCTGAC	0.448													6	111					0	0	1	0	0		C	46246402	C	C	46246402	3	2	27	1	0	0	0	0	1	0	0	0	915	1522	53	3	4554	3	ARID2	12	46246402	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1347	46246402	87605493	5450	27801											
SFRS2IP	9169	broad.mit.edu	37	chr12	46316789	46316789	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctttctgccaattttacaGcagcattagaggctttgctg	8	15	9	9	0	1	1	0	0	1	1	1	1	1	1	1	1	6	5	1	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:46316789G>A	uc001rox.2	-	13	4342	c.4055C>T	c.(4054-4056)GCT>GTT	p.A1352V	SFRS2IP_uc001row.2_Missense_Mutation_p.A1037V	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	1352					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		CAATTTTACAGCAGCATTAGA	0.483													12	270					0	0	1	0	0		A	46316789	A	A	46316789	3	1	27	1	0	0	0	0	1	0	0	0	14202	971	34	2	348	2	SFRS2IP	12	46316789	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	70387	46316789	87535106	5451	27802											
SFRS2IP	9169	broad.mit.edu	37	chr12	46320326	46320326	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagaatttcctgaatttTcatttctattttcttcccaa	10	19	2	10	0	3	2	1	1	2	1	6	2	6	2	3	0	0	0	3	0	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:46320326T>C	uc001rox.2	-	11	3445	c.3158A>G	c.(3157-3159)GAA>GGA	p.E1053G	SFRS2IP_uc001row.2_Missense_Mutation_p.E738G|SFRS2IP_uc001roy.1_Missense_Mutation_p.E1127G	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	1053					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		TCCTGAATTTTCATTTCTATT	0.403													9	102					0	0	1	0	0		C	46320326	C	C	46320326	3	2	27	1	0	0	0	0	1	0	0	0	14202	1783	62	3	1253	3	SFRS2IP	12	46320326	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3537	46320326	87531569	5452	27803											
SFRS2IP	9169	broad.mit.edu	37	chr12	46321589	46321589	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacatgcccaagcaattgaAcctctgggctcttaacagat	13	9	7	12	0	2	2	0	1	2	1	2	2	2	2	2	1	5	2	2	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:46321589A>G	uc001rox.2	-	11	2182	c.1895T>C	c.(1894-1896)GTT>GCT	p.V632A	SFRS2IP_uc001row.2_Missense_Mutation_p.V317A|SFRS2IP_uc001roy.1_Missense_Mutation_p.V706A	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	632					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		AAGCAATTGAACCTCTGGGCT	0.368													8	81					0	0	1	0	0		G	46321589	G	G	46321589	3	3	27	1	0	0	0	0	1	0	0	0	14202	43	2	3	2516	3	SFRS2IP	12	46321589	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1263	46321589	87530306	5453	27804											
SLC38A2	54407	broad.mit.edu	37	chr12	46756850	46756850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcacagccattaacacaGccagacggacaatgagaaga	16	4	11	10	1	1	3	1	1	0	3	1	5	1	4	2	2	3	0	2	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:46756850G>A	uc001rpg.2	-	13	1573	c.1133C>T	c.(1132-1134)GCT>GTT	p.A378V	SLC38A2_uc010sli.1_Missense_Mutation_p.A216V|SLC38A2_uc001rph.2_Missense_Mutation_p.A278V	NM_018976	NP_061849	Q96QD8	S38A2_HUMAN	solute carrier family 38, member 2	378	Helical; (Potential).				cellular nitrogen compound metabolic process|glutamate secretion|neurotransmitter secretion|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			urinary_tract(1)|skin(1)	2	Lung SC(27;0.192)|Renal(347;0.236)		OV - Ovarian serous cystadenocarcinoma(5;0.0048)|Epithelial(2;0.0374)	GBM - Glioblastoma multiforme(48;0.226)		CATTAACACAGCCAGACGGAC	0.398													7	59					0	0	1	0	0		A	46756850	A	A	46756850	3	1	27	1	0	0	0	0	1	0	0	0	14629	971	34	2	403	2	SLC38A2	12	46756850	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	435261	46756850	87095045	5454	27805											
SLC38A2	54407	broad.mit.edu	37	chr12	46764393	46764393	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaaatactgacattccaaaGgaagtagtacctggatgcta	15	11	8	7	0	0	1	0	1	0	0	1	3	1	3	2	2	3	3	2	2	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:46764393G>T	uc001rpg.2	-	4	656	c.216C>A	c.(214-216)TCC>TCA	p.S72S	SLC38A2_uc001rph.2_Intron	NM_018976	NP_061849	Q96QD8	S38A2_HUMAN	solute carrier family 38, member 2	72	Cytoplasmic (Potential).|Regulates protein turnover upon amino acid deprivation (By similarity).				cellular nitrogen compound metabolic process|glutamate secretion|neurotransmitter secretion|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			urinary_tract(1)|skin(1)	2	Lung SC(27;0.192)|Renal(347;0.236)		OV - Ovarian serous cystadenocarcinoma(5;0.0048)|Epithelial(2;0.0374)	GBM - Glioblastoma multiforme(48;0.226)		ACATTCCAAAGGAAGTAGTAC	0.378													5	72					1	1	1	1	0		T	46764393	T	T	46764393	2	4	27	1	0	0	0	0	0	0	0	1	14629	987	35	5		5	SLC38A2	12	46764393	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7543	46764393	87087502	5455	27806											
SLC38A4	55089	broad.mit.edu	37	chr12	47172470	47172470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgggtaacattaccacatgCattggaagcgtgttgttgaa	11	13	11	6	1	0	1	0	1	0	0	0	2	0	2	1	2	4	4	1	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:47172470C>T	uc001rpi.2	-	11	1206	c.807G>A	c.(805-807)ATG>ATA	p.M269I	SLC38A4_uc001rpj.2_Missense_Mutation_p.M269I	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	269	Extracellular (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Lung SC(27;0.192)|Renal(347;0.236)					TTACCACATGCATTGGAAGCG	0.453													10	94					0	0	1	0	0		T	47172470	T	T	47172470	3	4	27	1	0	0	0	0	1	0	0	0	14631	710	25	2	864	2	SLC38A4	12	47172470	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	408077	47172470	86679425	5456	27807											
COL2A1	1280	broad.mit.edu	37	chr12	48367266	48367266	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccatgggtgcaatgtcaAtgatggggaggcgtgaggtc	8	10	17	6	1	1	2	1	2	0	0	3	3	2	3	1	5	1	1	1	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:48367266A>G	uc001rqu.2	-	54	4569	c.4388T>C	c.(4387-4389)ATT>ACT	p.I1463T	COL2A1_uc001rqt.2_Missense_Mutation_p.I244T|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.I1394T	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1463	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	TGCAATGTCAATGATGGGGAG	0.517													12	93					0	0	1	0	0		G	48367266	G	G	48367266	3	3	27	1	0	0	0	0	1	0	0	0	3690	101	4	3	79	3	COL2A1	12	48367266	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1194796	48367266	85484629	5457	27808											
COL2A1	1280	broad.mit.edu	37	chr12	48369119	48369119	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccactcttccactcagggtgGcagagtttcaggtctctgca	7	11	10	13	0	4	1	2	0	2	1	6	1	5	1	2	3	1	3	2	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:48369119G>A	uc001rqu.2	-	51	4048	c.3867C>T	c.(3865-3867)TGC>TGT	p.C1289C	COL2A1_uc001rqt.2_Silent_p.C70C|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Silent_p.C1220C	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1289	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	ACTCAGGGTGGCAGAGTTTCA	0.602													5	49					0	0	1	0	0		A	48369119	A	A	48369119	2	1	27	1	0	0	0	0	0	0	0	1	3690	1195	42	2		2	COL2A1	12	48369119	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1853	48369119	85482776	5458	27809											
SENP1	29843	broad.mit.edu	37	chr12	48442746	48442746	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactcccaggtgaatgggcAccaaaagaatgtcaacagaa	16	6	10	9	0	1	3	1	1	0	2	2	3	2	3	2	2	2	2	2	2	7	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:48442746A>G	uc001rqx.2	-	14	2023	c.1577T>C	c.(1576-1578)GTG>GCG	p.V526A	SENP1_uc001rqw.2_Missense_Mutation_p.V526A|SENP1_uc001rqy.2_Missense_Mutation_p.V327A|SENP1_uc001rqz.2_Missense_Mutation_p.V327A|SENP1_uc009zkx.2_Missense_Mutation_p.V526A	NM_014554	NP_055369	Q9P0U3	SENP1_HUMAN	sentrin/SUMO-specific protease 1	526	Protease.				activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)				GTGAATGGGCACCAAAAGAAT	0.338													4	43					0	0	1	0	0		G	48442746	G	G	48442746	3	3	27	1	0	0	0	0	1	0	0	0	14071	159	6	3	374	3	SENP1	12	48442746	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	73627	48442746	85409149	5459	27810											
SENP1	29843	broad.mit.edu	37	chr12	48457539	48457539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttagagtttgaatatctttgCgtgtaatggtcaggcgaaat	11	15	11	4	2	2	2	1	1	1	1	2	3	2	2	0	2	1	2	0	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:48457539C>T	uc001rqx.2	-	13	1807	c.1361G>A	c.(1360-1362)CGC>CAC	p.R454H	SENP1_uc001rqw.2_Missense_Mutation_p.R454H|SENP1_uc001rqy.2_Missense_Mutation_p.R255H|SENP1_uc001rqz.2_Missense_Mutation_p.R255H|SENP1_uc009zkx.2_Missense_Mutation_p.R454H	NM_014554	NP_055369	Q9P0U3	SENP1_HUMAN	sentrin/SUMO-specific protease 1	454	Protease.				activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)				AATATCTTTGCGTGTAATGGT	0.333													4	67					0	0	1	0	0		T	48457539	T	T	48457539	3	4	27	1	0	0	0	0	1	0	0	0	14071	768	27	1	594	1	SENP1	12	48457539	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14793	48457539	85394356	5460	27811											
PFKM	5213	broad.mit.edu	37	chr12	48535570	48535570	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcagtgccaatataactaAgtttaacattcagggccttg	13	12	8	8	0	2	0	2	0	0	0	2	1	2	0	2	1	3	1	2	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:48535570A>C	uc001rrc.2	+	16	1630	c.1460A>C	c.(1459-1461)AAG>ACG	p.K487T	PFKM_uc001rra.1_Missense_Mutation_p.K172T|PFKM_uc001rrb.1_Missense_Mutation_p.K558T|PFKM_uc001rrd.2_Missense_Mutation_p.K172T|PFKM_uc001rre.1_Missense_Mutation_p.K487T|PFKM_uc001rrg.1_Missense_Mutation_p.K456T	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	487					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						AATATAACTAAGTTTAACATT	0.383													29	120					0	0	1	0	0		C	48535570	C	C	48535570	3	2	27	1	0	0	0	0	1	0	0	0	11784	72	3	5	1739	5	PFKM	12	48535570	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	78031	48535570	85316325	5461	27812											
DDX23	9416	broad.mit.edu	37	chr12	49224275	49224275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaagatggtctcttcccGgcgcttcttggtgaggatgg	6	11	15	9	2	2	2	0	1	2	1	4	3	3	3	1	6	0	2	1	6	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:49224275G>A	uc001rsm.2	-	17	2531	c.2440C>T	c.(2440-2442)CGG>TGG	p.R814W		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	814						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6						GTCTCTTCCCGGCGCTTCTTG	0.567													16	48					0	0	1	0	0		A	49224275	A	A	49224275	3	1	27	1	0	0	0	0	1	0	0	0	4353	1115	39	1	26	1	DDX23	12	49224275	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	688705	49224275	84627620	5462	27813											
FKBP11	51303	broad.mit.edu	37	chr12	49315835	49315835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagactttgggtctattggCctttctgtataggtgatacc	7	15	12	7	0	2	2	0	1	2	1	2	3	2	2	2	4	1	1	2	4	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:49315835C>T	uc001rsp.2	-	6	657	c.538G>A	c.(538-540)GCC>ACC	p.A180T	FKBP11_uc010sma.1_Missense_Mutation_p.A78T|FKBP11_uc001rsq.3_3'UTR	NM_016594	NP_057678	Q9NYL4	FKB11_HUMAN	FK506 binding protein 11 isoform 1 precursor	180					protein folding	integral to membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0						GGTCTATTGGCCTTTCTGTAT	0.413													11	92					0	0	1	0	0		T	49315835	T	T	49315835	3	4	27	1	0	0	0	0	1	0	0	0	5917	739	26	2	71	2	FKBP11	12	49315835	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	91560	49315835	84536060	5463	27814											
MLL2	8085	broad.mit.edu	37	chr12	49420243	49420243	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagccgttctccccgctgaAtgatgctagcgatttgcttc	6	12	10	13	3	1	2	0	2	1	0	3	3	1	2	3	0	4	5	3	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:49420243A>G	uc001rta.3	-	48	15506	c.15506T>C	c.(15505-15507)ATT>ACT	p.I5169T		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5169					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TCCCCGCTGAATGATGCTAGC	0.572			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			5	46					0	0	1	0	0		G	49420243	G	G	49420243	3	3	27	1	0	0	0	0	1	0	0	0	9639	101	4	3	1135	3	MLL2	12	49420243	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	104408	49420243	84431652	5464	27815											
MLL2	8085	broad.mit.edu	37	chr12	49420661	49420661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgacagaaacagcagcgacGcatgtctcgcggtaccttgt	11	8	11	11	4	1	2	0	1	1	1	2	3	1	2	1	1	4	3	1	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:49420661G>A	uc001rta.3	-	48	15088	c.15088C>T	c.(15088-15090)CGT>TGT	p.R5030C		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5030					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CAGCAGCGACGCATGTCTCGC	0.622			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			11	54					0	0	1	0	0		A	49420661	A	A	49420661	3	1	27	1	0	0	0	0	1	0	0	0	9639	1087	38	1	1553	1	MLL2	12	49420661	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	418	49420661	84431234	5465	27816											
TUBA1B	10376	broad.mit.edu	37	chr12	49523058	49523058	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtccaacacaaggtcaatGatctccttgccaatggtgta	11	10	9	11	1	2	1	1	1	1	0	4	1	3	1	3	3	2	1	3	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:49523058G>T	uc001rtm.2	-	3	563	c.342C>A	c.(340-342)ATC>ATA	p.I114I	TUBA1B_uc001rto.2_Intron|TUBA1B_uc001rtk.2_Silent_p.I79I|TUBA1B_uc001rtl.2_Silent_p.I79I|TUBA1B_uc001rtn.2_Intron	NM_006082	NP_006073	P68363	TBA1B_HUMAN	tubulin, alpha, ubiquitous	114					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding				0						CAAGGTCAATGATCTCCTTGC	0.498													9	164					6.40141e-05	6.80234e-05	1	1	0		T	49523058	T	T	49523058	2	4	27	1	0	0	0	0	0	0	0	1	16770	1280	45	5		5	TUBA1B	12	49523058	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	102397	49523058	84328837	5466	27817											
TUBA1A	7846	broad.mit.edu	37	chr12	49579012	49579012	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagcaatggctgtggtgttGctcagcatgcacacagctct	8	11	11	11	0	3	0	2	0	1	0	3	0	3	0	0	2	5	7	0	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:49579012G>A	uc009zlf.2	-	4	1409	c.1137C>T	c.(1135-1137)AGC>AGT	p.S379S	TUBA1B_uc001rto.2_Intron|TUBA1A_uc001rtp.2_Silent_p.S379S|TUBA1A_uc001rtq.2_Silent_p.S226S|TUBA1A_uc001rtr.2_Silent_p.S226S|TUBA1A_uc009zlg.2_Silent_p.S226S	NM_006009	NP_006000	Q71U36	TBA1A_HUMAN	tubulin, alpha 1a	379					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|structural molecule activity				0						CTGTGGTGTTGCTCAGCATGC	0.582													6	60					0	0	1	0	0		A	49579012	A	A	49579012	2	1	27	1	0	0	0	0	0	0	0	1	16769	1310	46	2		2	TUBA1A	12	49579012	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55954	49579012	84272883	5467	27818											
C1QL4	338761	broad.mit.edu	37	chr12	49726989	49726989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtcgtagttctggtccgCgtcctgagcaatggcgctgg	5	11	15	10	4	1	1	0	1	1	0	4	1	3	1	2	3	1	5	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:49726989C>T	uc001rtz.1	-	2	1276	c.565G>A	c.(565-567)GCG>ACG	p.A189T		NM_001008223	NP_001008224	Q86Z23	C1QL4_HUMAN	complement component 1, q subcomponent-like 4	189	C1q.					collagen					0						TTCTGGTCCGCGTCCTGAGCA	0.647													3	30					0	0	1	0	0		T	49726989	T	T	49726989	3	4	27	1	0	0	0	0	1	0	0	0	1964	768	27	1	155	1	C1QL4	12	49726989	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	147977	49726989	84124906	5468	27819											
KCNH3	23416	broad.mit.edu	37	chr12	49937785	49937785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catttgcctccactacgtcaCcacctggttcctgctggatg	6	12	8	15	1	1	0	1	0	0	0	3	1	3	1	5	2	3	2	5	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:49937785C>T	uc001ruh.1	+	6	1171	c.911C>T	c.(910-912)ACC>ATC	p.T304I	KCNH3_uc010smj.1_Missense_Mutation_p.T244I	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	304	Helical; Name=Segment S3; (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						CACTACGTCACCACCTGGTTC	0.572													14	115					0	0	1	0	0		T	49937785	T	T	49937785	3	4	27	1	0	0	0	0	1	0	0	0	8049	507	18	4	933	4	KCNH3	12	49937785	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	210796	49937785	83914110	5469	27820											
KCNH3	23416	broad.mit.edu	37	chr12	49944111	49944111	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaccgtgctcgccatcctAggtttgtgagggtgggagag	6	9	17	9	2	0	2	0	1	0	1	2	3	1	2	3	4	1	3	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:49944111A>G	uc001ruh.1	+	10	2177	c.1917A>G	c.(1915-1917)CTA>CTG	p.L639L	KCNH3_uc010smj.1_Silent_p.L579L	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	639	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						TCGCCATCCTAGGTTTGTGAG	0.617													4	71					0	0	1	0	0		G	49944111	G	G	49944111	2	3	27	1	0	0	0	0	0	0	0	1	8049	434	15	3		3	KCNH3	12	49944111	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6326	49944111	83907784	5470	27821											
MCRS1	10445	broad.mit.edu	37	chr12	49953259	49953259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgcgagcgcatcaggtaccGcaccatgcggccccgcagca	9	3	12	17	6	1	0	1	0	0	0	1	1	1	0	4	2	4	5	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:49953259G>A	uc001ruk.1	-	12	1254	c.1063C>T	c.(1063-1065)CGG>TGG	p.R355W	MCRS1_uc001rui.1_Missense_Mutation_p.R368W|MCRS1_uc001ruj.1_Missense_Mutation_p.R342W|MCRS1_uc001rul.1_Missense_Mutation_p.R355W|MCRS1_uc009zlj.1_Missense_Mutation_p.R164W|MCRS1_uc001rum.1_Missense_Mutation_p.R342W	NM_006337	NP_006328	Q96EZ8	MCRS1_HUMAN	microspherule protein 1 isoform 1	355					DNA recombination|DNA repair|protein modification process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|MLL1 complex|nucleolus	protein binding			large_intestine(1)	1						ATCAGGTACCGCACCATGCGG	0.622													9	78					0	0	1	0	0		A	49953259	A	A	49953259	3	1	27	1	0	0	0	0	1	0	0	0	9417	1086	38	1	341	1	MCRS1	12	49953259	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9148	49953259	83898636	5471	27822											
FMNL3	91010	broad.mit.edu	37	chr12	50040738	50040738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttccttggcctggcgccGcctcaactctgctattaact	5	13	9	14	2	2	0	1	0	1	0	3	0	3	0	4	2	3	2	4	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:50040738G>A	uc001ruv.1	-	25	3160	c.2926C>T	c.(2926-2928)CGG>TGG	p.R976W	FMNL3_uc001ruw.1_Missense_Mutation_p.R925W|FMNL3_uc001rut.1_Missense_Mutation_p.R542W|FMNL3_uc001ruu.1_Missense_Mutation_p.R826W	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1	976					actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						GCCTGGCGCCGCCTCAACTCT	0.567													5	64					0	0	1	0	0		A	50040738	A	A	50040738	3	1	27	1	0	0	0	0	1	0	0	0	5967	1086	38	1	165	1	FMNL3	12	50040738	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	87479	50040738	83811157	5472	27823											
FMNL3	91010	broad.mit.edu	37	chr12	50041555	50041555	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtagtcttgggactctcGccaaagtagcgcacaactgc	9	9	12	11	2	2	0	0	0	2	0	3	1	2	1	1	2	3	3	1	2	4	3	rs148320034	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:50041555G>A	uc001ruv.1	-	23	2943	c.2709C>T	c.(2707-2709)GGC>GGT	p.G903G	FMNL3_uc001ruw.1_Silent_p.G852G|FMNL3_uc001rut.1_Silent_p.G469G|FMNL3_uc001ruu.1_Silent_p.G753G	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1	903	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						TGGGACTCTCGCCAAAGTAGC	0.517													4	47					0	0	1	0	0		A	50041555	A	A	50041555	2	1	27	1	0	0	0	0	0	0	0	1	5967	1074	38	1		1	FMNL3	12	50041555	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	817	50041555	83810340	5473	27824											
FMNL3	91010	broad.mit.edu	37	chr12	50044495	50044495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agatctcctcagccgagcggCcagccttgcgtagggtgatg	7	8	14	12	3	2	2	1	1	1	1	3	3	2	2	4	2	4	1	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:50044495C>T	uc001ruv.1	-	17	2198	c.1964G>A	c.(1963-1965)GGC>GAC	p.G655D	FMNL3_uc001ruw.1_Missense_Mutation_p.G604D|FMNL3_uc001rut.1_Missense_Mutation_p.G221D|FMNL3_uc001ruu.1_Missense_Mutation_p.G505D	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1	655	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						AGCCGAGCGGCCAGCCTTGCG	0.572													5	73					0	0	1	0	0		T	50044495	T	T	50044495	3	4	27	1	0	0	0	0	1	0	0	0	5967	739	26	2	1159	2	FMNL3	12	50044495	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2940	50044495	83807400	5474	27825											
NCKAP5L	57701	broad.mit.edu	37	chr12	50190678	50190678	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaggttcaactgtctgcggGccagggcaccgagcagggtg	7	6	16	12	2	2	0	1	0	1	0	2	1	2	0	3	4	3	3	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:50190678G>C	uc009zlk.2	-	8	1167	c.965C>G	c.(964-966)GCC>GGC	p.A322G	NCKAP5L_uc001rvc.3_5'Flank|NCKAP5L_uc001rvb.2_5'UTR	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	318	Pro-rich.									central_nervous_system(1)	1						CTGTCTGCGGGCCAGGGCACC	0.652													9	20					0	0	1	0	0		C	50190678	C	C	50190678	3	2	27	1	0	0	0	0	1	0	0	0	10243	1203	42	5	3063	5	NCKAP5L	12	50190678	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	146183	50190678	83661217	5475	27826											
FAIM2	23017	broad.mit.edu	37	chr12	50291301	50291301	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtccatgctgccaactcaCcagaaagtaaagagagccac	14	6	9	12	0	1	2	1	0	0	2	2	3	2	2	4	1	4	2	4	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:50291301C>T	uc001rvj.1	-	4	525	c.380_splice	c.e4+1	p.C127_splice	FAIM2_uc001rvi.1_Splice_Site_p.C81_splice|FAIM2_uc001rvk.1_Splice_Site	NM_012306	NP_036438	Q9BWQ8	FAIM2_HUMAN	Fas apoptotic inhibitory molecule 2						anti-apoptosis|apoptosis	cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|ovary(1)|skin(1)	3						TGCCAACTCACCAGAAAGTAA	0.592													6	28					0	0	1	0	0		T	50291301	T	T	50291301	5	4	27	1	0	0	0	0	0	0	1	0	5387	521	18	4	605	4	FAIM2	12	50291301	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	100623	50291301	83560594	5476	27827											
RACGAP1	29127	broad.mit.edu	37	chr12	50399142	50399142	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccagatgtgtcacacaTgagcatctctcgaatcagct	10	10	9	12	1	3	2	2	1	1	1	5	3	3	2	1	0	3	3	1	0	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:50399142T>C	uc001rvt.2	-	6	632	c.322A>G	c.(322-324)ATG>GTG	p.M108V	RACGAP1_uc009zlm.1_Missense_Mutation_p.M108V|RACGAP1_uc001rvs.2_Missense_Mutation_p.M108V|RACGAP1_uc001rvu.2_Missense_Mutation_p.M108V	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1	108	Potential.|Interaction with SLC26A8.				blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						GTGTCACACATGAGCATCTCT	0.463													6	58					0	0	1	0	0		C	50399142	C	C	50399142	3	2	27	1	0	0	0	0	1	0	0	0	13002	1464	51	3	1632	3	RACGAP1	12	50399142	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	107841	50399142	83452753	5477	27828											
ACCN2	41	broad.mit.edu	37	chr12	50475044	50475044	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccgtccccgtcctaggTcattaagcacaagctgtgcc	7	9	9	16	2	1	0	1	0	0	0	3	0	3	0	6	1	4	2	6	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:50475044T>C	uc001rvw.2	+	11	1608	c.1379T>C	c.(1378-1380)GTC>GCC	p.V460A	ACCN2_uc001rvv.2_Missense_Mutation_p.V506A|ACCN2_uc009zln.2_Missense_Mutation_p.V251A|ACCN2_uc009zlo.2_Missense_Mutation_p.V460A	NM_001095	NP_001086	P78348	ACCN2_HUMAN	amiloride-sensitive cation channel 2, neuronal	460	Cytoplasmic (By similarity).				calcium ion transport|response to pH|signal transduction	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(1)	1					Amiloride(DB00594)	CCGTCCTAGGTCATTAAGCAC	0.657													2	11					0	0	1	0	0		C	50475044	C	C	50475044	3	2	27	1	0	0	0	0	1	0	0	0	129	1681	58	3	1555	3	ACCN2	12	50475044	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	75902	50475044	83376851	5478	27829											
DIP2B	57609	broad.mit.edu	37	chr12	51086792	51086792	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggctgtggcacggcatgtTtgcggtaagctactcagatt	7	12	14	8	2	1	1	1	0	0	1	1	1	1	1	0	4	3	6	0	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:51086792T>C	uc001rwv.2	+	14	1871	c.1715T>C	c.(1714-1716)TTT>TCT	p.F572S	DIP2B_uc009zlt.2_Missense_Mutation_p.F2S	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	572						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						CACGGCATGTTTGCGGTAAGC	0.388													5	77					0	0	1	0	0		C	51086792	C	C	51086792	3	2	27	1	0	0	0	0	1	0	0	0	4534	1841	64	3	1769	3	DIP2B	12	51086792	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	611748	51086792	82765103	5479	27830											
METTL7A	25840	broad.mit.edu	37	chr12	51319022	51319022	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacctgcaggagtttgcgggCccctccgggaaactctccct	7	8	11	15	2	1	0	0	0	1	0	3	2	2	2	5	3	4	2	5	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:51319022C>T	uc001rxb.2	+	1	489	c.201C>T	c.(199-201)GGC>GGT	p.G67G	METTL7A_uc010smv.1_Silent_p.G67G	NM_014033	NP_054752	Q9H8H3	MET7A_HUMAN	methyltransferase like 7A precursor	67						endoplasmic reticulum|lipid particle|membrane	methyltransferase activity				0						AGTTTGCGGGCCCCTCCGGGA	0.562													6	51					0	0	1	0	0		T	51319022	T	T	51319022	2	4	27	1	0	0	0	0	0	0	0	1	9523	726	26	2		2	METTL7A	12	51319022	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	232230	51319022	82532873	5480	27831											
SCN8A	6334	broad.mit.edu	37	chr12	52078069	52078069	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatagctattaaaattttgAtacattcatatccttttcgg	13	17	5	6	1	1	1	1	1	0	0	3	2	2	1	1	1	2	1	1	1	7	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:52078069A>T	uc001ryw.2	+	3	566	c.388A>T	c.(388-390)ATA>TTA	p.I130L	SCN8A_uc010snl.1_5'Flank|SCN8A_uc001ryx.1_5'Flank|SCN8A_uc001ryz.1_5'Flank|SCN8A_uc001ryy.2_5'Flank	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	130	Helical; Name=S1 of repeat I; (Potential).|I.				axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	TAAAATTTTGATACATTCATA	0.353													4	47					0	0	1	0	0		T	52078069	T	T	52078069	3	4	27	1	0	0	0	0	1	0	0	0	13949	333	12	5	394	5	SCN8A	12	52078069	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	759047	52078069	81773826	5481	27832											
ACVRL1	94	broad.mit.edu	37	chr12	52308233	52308233	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccatcaggaaaaggccgCtatggcgaagtgtggcgggg	9	6	18	8	3	1	0	1	0	0	0	1	2	1	1	2	7	0	1	2	7	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:52308233C>T	uc001rzj.2	+	6	919	c.636C>T	c.(634-636)CGC>CGT	p.R212R	ACVRL1_uc001rzk.2_Silent_p.R212R|ACVRL1_uc010snm.1_Silent_p.R38R	NM_000020	NP_000011	P37023	ACVL1_HUMAN	activin A receptor type II-like 1 precursor	212	Cytoplasmic (Potential).|ATP (By similarity).|Protein kinase.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|blood vessel maturation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of endothelial cell migration|negative regulation of focal adhesion assembly|positive regulation of BMP signaling pathway|positive regulation of transcription, DNA-dependent|regulation of blood pressure|regulation of blood vessel endothelial cell migration|regulation of DNA replication|regulation of endothelial cell proliferation|transforming growth factor beta receptor signaling pathway|wound healing, spreading of epidermal cells	cell surface|integral to plasma membrane	activin binding|activin receptor activity, type I|ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0991)	Adenosine triphosphate(DB00171)	GAAAAGGCCGCTATGGCGAAG	0.607									Hereditary_Hemorrhagic_Telangiectasia				3	31					0	0	1	0	0		T	52308233	T	T	52308233	2	4	27	1	0	0	0	0	0	0	0	1	225	784	28	2		2	ACVRL1	12	52308233	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	230164	52308233	81543662	5482	27833											
GRASP	160622	broad.mit.edu	37	chr12	52407946	52407946	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtatgagaagtggggagagTacaggtccctaatggtgcag	11	9	16	5	0	0	2	0	1	0	2	1	4	1	2	1	4	2	3	1	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:52407946T>C	uc001rzo.1	+	7	699	c.643T>C	c.(643-645)TAC>CAC	p.Y215H	GRASP_uc001rzp.1_Missense_Mutation_p.Y72H	NM_181711	NP_859062	Q7Z6J2	GRASP_HUMAN	GRP1 (general receptor for phosphoinositides	215	Interaction with PSCD3 (By similarity).					cell junction|perinuclear region of cytoplasm|postsynaptic membrane				central_nervous_system(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.0967)		GTGGGGAGAGTACAGGTCCCT	0.577													4	14					0	0	1	0	0		C	52407946	C	C	52407946	3	2	27	1	0	0	0	0	1	0	0	0	6771	1638	57	3	669	3	GRASP	12	52407946	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	99713	52407946	81443949	5483	27834											
KRT6B	3854	broad.mit.edu	37	chr12	52841348	52841348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacttgtccaacgccttcGccattcagcctgtggagagg	7	11	11	12	2	1	2	1	1	0	1	3	3	2	2	4	2	2	0	4	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:52841348G>A	uc001sak.2	-	8	1482	c.1434C>T	c.(1432-1434)GGC>GGT	p.G478G		NM_005555	NP_005546	P04259	K2C6B_HUMAN	keratin 6B	478	Tail.				ectoderm development	keratin filament	structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.083)		CAACGCCTTCGCCATTCAGCC	0.552													17	39					0	0	1	0	0		A	52841348	A	A	52841348	2	1	27	1	0	0	0	0	0	0	0	1	8497	1074	38	1		1	KRT6B	12	52841348	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	433402	52841348	81010547	5484	27835											
KRT6C	286887	broad.mit.edu	37	chr12	52865209	52865209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggagatgcttactgcaTcatacaaggctctcaggaag	11	10	12	8	0	2	1	2	0	1	1	3	3	2	2	0	4	4	3	0	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:52865209T>C	uc001sal.3	-	4	956	c.908A>G	c.(907-909)GAT>GGT	p.D303G		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C	303	Coil 1B.|Rod.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)		GCTTACTGCATCATACAAGGC	0.468													13	103					0	0	1	0	0		C	52865209	C	C	52865209	3	2	27	1	0	0	0	0	1	0	0	0	8498	1435	50	3	810	3	KRT6C	12	52865209	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	23861	52865209	80986686	5485	27836											
KRT6C	286887	broad.mit.edu	37	chr12	52865984	52865984	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacaacggctccaggttctgCctcacagtcttggtgccctg	7	10	10	14	1	3	0	1	0	2	0	4	0	4	0	3	3	4	2	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:52865984C>T	uc001sal.3	-	2	669	c.621G>A	c.(619-621)AGG>AGA	p.R207R		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C	207	Rod.|Linker 1.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)		CCAGGTTCTGCCTCACAGTCT	0.597													10	62					0	0	1	0	0		T	52865984	T	T	52865984	2	4	27	1	0	0	0	0	0	0	0	1	8498	738	26	2		2	KRT6C	12	52865984	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	775	52865984	80985911	5486	27837											
KRT6A	3853	broad.mit.edu	37	chr12	52884922	52884922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagagtcacaaattcattctCtgctgctgtgcgcttgttga	8	14	9	10	1	3	2	2	1	1	1	4	2	3	2	0	0	3	4	0	0	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:52884922C>T	uc001sam.2	-	3	999	c.790G>A	c.(790-792)GAG>AAG	p.E264K		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	264	Coil 1B.|Rod.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		AATTCATTCTCTGCTGCTGTG	0.483													8	78					0	0	1	0	0		T	52884922	T	T	52884922	3	4	27	1	0	0	0	0	1	0	0	0	8496	922	32	4	932	4	KRT6A	12	52884922	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18938	52884922	80966973	5487	27838											
KRT5	3852	broad.mit.edu	37	chr12	52911395	52911395	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggtctgataccaggactcGgcttctgtccggctgcggtt	4	13	13	11	3	2	1	0	1	2	0	4	2	3	2	2	5	2	3	2	5	1	4	rs149467228	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:52911395G>A	uc001san.2	-	5	1234	c.1071C>T	c.(1069-1071)GCC>GCT	p.A357A	KRT5_uc009zmh.2_Silent_p.A357A	NM_000424	NP_000415	P13647	K2C5_HUMAN	keratin 5	357	Rod.|Coil 2.				epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		ACCAGGACTCGGCTTCTGTCC	0.547													11	120					0	0	1	0	0		A	52911395	A	A	52911395	2	1	27	1	0	0	0	0	0	0	0	1	8495	1103	39	1		1	KRT5	12	52911395	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26473	52911395	80940500	5488	27839											
KRT2	3849	broad.mit.edu	37	chr12	53040608	53040608	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttcatcagctcctggtagTcacgcagcagccgcgccaag	8	7	11	15	4	3	0	3	0	0	0	4	0	4	0	3	1	3	5	3	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:53040608T>C	uc001sat.2	-	7	1418	c.1385A>G	c.(1384-1386)GAC>GGC	p.D462G		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	462	Coil 2.|Rod.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		CTCCTGGTAGTCACGCAGCAG	0.617													8	107					0	0	1	0	0		C	53040608	C	C	53040608	3	2	27	1	0	0	0	0	1	0	0	0	8473	1667	58	3	546	3	KRT2	12	53040608	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	129213	53040608	80811287	5489	27840											
KRT77	374454	broad.mit.edu	37	chr12	53086570	53086570	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttgctgatctctgcctgcAgcctctggacggtgcggttg	3	12	14	12	3	2	1	0	1	2	0	3	2	2	2	2	3	5	4	2	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:53086570A>C	uc001saw.2	-	6	1204	c.1175T>G	c.(1174-1176)CTG>CGG	p.L392R	KRT77_uc009zmi.2_Missense_Mutation_p.L150R	NM_175078	NP_778253	Q7Z794	K2C1B_HUMAN	keratin 77	392	Rod.|Coil 2.					keratin filament	structural molecule activity			ovary(1)	1						CTCTGCCTGCAGCCTCTGGAC	0.597													8	51					0	0	1	0	0		C	53086570	C	C	53086570	3	2	27	1	0	0	0	0	1	0	0	0	8506	188	7	5	577	5	KRT77	12	53086570	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	45962	53086570	80765325	5490	27841											
KRT76	51350	broad.mit.edu	37	chr12	53165877	53165877	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacacagggagggttcccaCcttggtctggtacagggcct	7	8	15	11	0	1	0	0	0	1	0	2	2	2	2	3	6	1	2	3	6	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:53165877C>T	uc001sax.2	-	5	1191	c.1137_splice	c.e5+1	p.K379_splice		NM_015848	NP_056932	Q01546	K22O_HUMAN	keratin 76						cytoskeleton organization	keratin filament	structural molecule activity			breast(1)|skin(1)	2						AGGGTTCCCACCTTGGTCTGG	0.547													4	61					0	0	1	0	0		T	53165877	T	T	53165877	5	4	27	1	0	0	0	0	0	0	1	0	8505	521	18	4	798	4	KRT76	12	53165877	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	79307	53165877	80686018	5491	27842											
KRT79	338785	broad.mit.edu	37	chr12	53227765	53227765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agccccctgtcccataaatgCcctgctgccaaagccaaagc	11	6	7	17	0	0	0	0	0	0	0	1	0	1	0	6	0	6	1	6	0	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:53227765C>T	uc001sbb.2	-	1	313	c.280G>A	c.(280-282)GCA>ACA	p.A94T		NM_175834	NP_787028	Q5XKE5	K2C79_HUMAN	keratin 6L	94	Head.					keratin filament	structural molecule activity			ovary(2)|skin(2)	4						CCCATAAATGCCCTGCTGCCA	0.627													6	32					0	0	1	0	0		T	53227765	T	T	53227765	3	4	27	1	0	0	0	0	1	0	0	0	8508	739	26	2	1363	2	KRT79	12	53227765	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61888	53227765	80624130	5492	27843											
MFSD5	84975	broad.mit.edu	37	chr12	53647656	53647656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccggtggagtccttcatagCctttctacttattgagttgg	6	16	10	9	1	2	1	1	1	1	0	4	2	4	2	3	3	2	1	3	3	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:53647656C>T	uc001sci.1	+	2	1228	c.1037C>T	c.(1036-1038)GCC>GTC	p.A346V	MFSD5_uc001sch.1_Missense_Mutation_p.A453V	NM_032889	NP_116278	Q6N075	MFSD5_HUMAN	major facilitator superfamily domain containing	346	Helical; (Potential).				transport	integral to membrane				skin(2)|ovary(1)	3						TCCTTCATAGCCTTTCTACTT	0.512													9	116					0	0	1	0	0		T	53647656	T	T	53647656	3	4	27	1	0	0	0	0	1	0	0	0	9552	739	26	2	1364	2	MFSD5	12	53647656	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	419891	53647656	80204239	5493	27844											
MAP3K12	7786	broad.mit.edu	37	chr12	53879982	53879982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatacagctggccctgggCgcagaactccatgaggatgc	9	7	12	13	1	1	2	1	1	0	1	2	3	2	3	2	3	4	2	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:53879982C>T	uc001sdm.1	-	5	678	c.580G>A	c.(580-582)GCC>ACC	p.A194T	MAP3K12_uc001sdn.1_Missense_Mutation_p.A227T	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	194	Protein kinase.				histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						TGGCCCTGGGCGCAGAACTCC	0.607													6	38					0	0	1	0	0		T	53879982	T	T	53879982	3	4	27	1	0	0	0	0	1	0	0	0	9264	768	27	1	2043	1	MAP3K12	12	53879982	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	232326	53879982	79971913	5494	27845											
TARBP2	6895	broad.mit.edu	37	chr12	53899798	53899798	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgagcctgagtggactcTgccagtgcctggtggaactg	7	9	15	10	0	1	2	0	2	1	0	1	4	1	4	3	3	5	1	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:53899798T>C	uc001sdo.2	+	9	1455	c.967T>C	c.(967-969)TGC>CGC	p.C323R	TARBP2_uc001sdp.2_Missense_Mutation_p.C302R|TARBP2_uc001sdq.2_Missense_Mutation_p.C179R|TARBP2_uc001sdr.2_Missense_Mutation_p.C179R|TARBP2_uc001sds.2_3'UTR|TARBP2_uc001sdt.2_Missense_Mutation_p.C302R|TARBP2_uc001sdu.2_Missense_Mutation_p.C179R|TARBP2_uc001sdv.2_RNA	NM_134323	NP_599150	Q15633	TRBP2_HUMAN	TAR RNA binding protein 2 isoform a	323	Sufficient for interaction with DICER1.|DRBM 3.|Sufficient for interaction with PRKRA.				miRNA loading onto RISC involved in gene silencing by miRNA|negative regulation of defense response to virus by host|negative regulation of protein kinase activity|positive regulation of viral genome replication|pre-miRNA processing|production of siRNA involved in RNA interference|regulation of transcription from RNA polymerase II promoter|regulation of translation|regulation of viral transcription|targeting of mRNA for destruction involved in RNA interference	cytosol|nucleus|perinuclear region of cytoplasm|RNA-induced silencing complex	double-stranded RNA binding|protein homodimerization activity|siRNA binding			central_nervous_system(1)	1						GAGTGGACTCTGCCAGTGCCT	0.642													3	46					0	0	1	0	0		C	53899798	C	C	53899798	3	2	27	1	0	0	0	0	1	0	0	0	15581	1580	55	3	1001	3	TARBP2	12	53899798	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	19816	53899798	79952097	5495	27846											
TARBP2	6895	broad.mit.edu	37	chr12	53899914	53899914	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccctgcagtacctcaagatCatggcaggcagcaagtgaag	12	6	12	11	0	2	2	2	1	0	1	2	2	2	2	2	2	3	5	2	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:53899914C>T	uc001sdo.2	+	9	1571	c.1083C>T	c.(1081-1083)ATC>ATT	p.I361I	TARBP2_uc001sdp.2_Silent_p.I340I|TARBP2_uc001sdq.2_Silent_p.I217I|TARBP2_uc001sdr.2_Silent_p.I217I|TARBP2_uc001sds.2_3'UTR|TARBP2_uc001sdt.2_Silent_p.I340I|TARBP2_uc001sdu.2_Silent_p.I217I|TARBP2_uc001sdv.2_RNA	NM_134323	NP_599150	Q15633	TRBP2_HUMAN	TAR RNA binding protein 2 isoform a	361	Sufficient for interaction with DICER1.|DRBM 3.|Sufficient for interaction with PRKRA.				miRNA loading onto RISC involved in gene silencing by miRNA|negative regulation of defense response to virus by host|negative regulation of protein kinase activity|positive regulation of viral genome replication|pre-miRNA processing|production of siRNA involved in RNA interference|regulation of transcription from RNA polymerase II promoter|regulation of translation|regulation of viral transcription|targeting of mRNA for destruction involved in RNA interference	cytosol|nucleus|perinuclear region of cytoplasm|RNA-induced silencing complex	double-stranded RNA binding|protein homodimerization activity|siRNA binding			central_nervous_system(1)	1						ACCTCAAGATCATGGCAGGCA	0.617													10	22					0	0	1	0	0		T	53899914	T	T	53899914	2	4	27	1	0	0	0	0	0	0	0	1	15581	816	29	4		4	TARBP2	12	53899914	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	116	53899914	79951981	5496	27847											
NPFF	8620	broad.mit.edu	37	chr12	53901178	53901178	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggagagctggtcttcctgCtggcctcctggcccttcagc	3	10	13	15	1	2	1	1	0	1	1	4	2	4	1	4	4	3	2	4	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:53901178C>A	uc001sdw.1	-	1	245	c.81G>T	c.(79-81)CAG>CAT	p.Q27H		NM_003717	NP_003708	O15130	NPFF_HUMAN	neuropeptide FF-amide peptide preproprotein	27					neuropeptide signaling pathway|synaptic transmission	extracellular region|soluble fraction	neuropeptide hormone activity				0						GGTCTTCCTGCTGGCCTCCTG	0.567													8	57					0.00448238	0.00462772	1	1	0		A	53901178	A	A	53901178	3	1	27	1	0	0	0	0	1	0	0	0	10595	796	28	5	272	5	NPFF	12	53901178	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1264	53901178	79950717	5497	27848											
ATP5G2	517	broad.mit.edu	37	chr12	54063713	54063713	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatagcggacggctcagcAgctgtgaggtgctcttgacc	8	8	14	11	2	2	3	1	2	1	1	2	4	2	4	1	3	4	4	1	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:54063713A>G	uc009znc.2	-	4	760	c.59T>C	c.(58-60)CTG>CCG	p.L20P	ATP5G2_uc001sec.2_Missense_Mutation_p.L77P|ATP5G2_uc001sed.2_Missense_Mutation_p.L36P	NM_001002031	NP_001002031	Q06055	AT5G2_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	20					ATP hydrolysis coupled proton transport|ATP synthesis coupled proton transport	integral to membrane|mitochondrial proton-transporting ATP synthase complex|proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity|lipid binding			ovary(1)	1						ACGGCTCAGCAGCTGTGAGGT	0.522													5	77					0	0	1	0	0		G	54063713	G	G	54063713	3	3	27	1	0	0	0	0	1	0	0	0	1155	188	7	3	378	3	ATP5G2	12	54063713	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	162535	54063713	79788182	5498	27849											
HOXC12	3228	broad.mit.edu	37	chr12	54348796	54348796	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacaccttctacttccccaActtccgcgcgtccggggcgc	6	8	9	18	5	1	1	0	0	1	1	4	1	4	1	5	2	2	0	5	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:54348796A>G	uc010soq.1	+	1	83	c.83A>G	c.(82-84)AAC>AGC	p.N28S		NM_173860	NP_776272	P31275	HXC12_HUMAN	homeobox C12	28					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						TACTTCCCCAACTTCCGCGCG	0.672													3	27					0	0	1	0	0		G	54348796	G	G	54348796	3	3	27	1	0	0	0	0	1	0	0	0	7327	43	2	3	85	3	HOXC12	12	54348796	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	285083	54348796	79503099	5499	27850											
ITGA5	3678	broad.mit.edu	37	chr12	54797044	54797044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggctgtccactggggcttggGggtccaaggagaagttgaga	8	8	18	7	0	0	2	0	1	0	2	2	4	2	2	2	6	0	3	2	6	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:54797044G>A	uc001sga.2	-	18	1909	c.1841C>T	c.(1840-1842)CCC>CTC	p.P614L		NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	614	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						TGGGGCTTGGGGGTCCAAGGA	0.582													15	198					0	0	1	0	0		A	54797044	A	A	54797044	3	1	27	1	0	0	0	0	1	0	0	0	7895	1232	43	4	1360	4	ITGA5	12	54797044	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	448248	54797044	79054851	5500	27851											
NCKAP1L	3071	broad.mit.edu	37	chr12	54922129	54922129	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccagagaaggggagcagaActtcagtgcagaggagttct	12	6	15	8	0	2	3	1	0	1	3	2	6	2	5	1	3	3	3	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:54922129A>T	uc001sgc.3	+	22	2553	c.2474A>T	c.(2473-2475)AAC>ATC	p.N825I	NCKAP1L_uc010sox.1_Missense_Mutation_p.N367I|NCKAP1L_uc010soy.1_Missense_Mutation_p.N775I	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	825					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						GGGGAGCAGAACTTCAGTGCA	0.542													16	139					0	0	1	0	0		T	54922129	T	T	54922129	3	4	27	1	0	0	0	0	1	0	0	0	10241	43	2	5	2560	5	NCKAP1L	12	54922129	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	125085	54922129	78929766	5501	27852											
PDE1B	5153	broad.mit.edu	37	chr12	54968964	54968964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagtggttggtccacagcCgttggaccaaggccctcatg	8	8	13	12	1	1	0	1	0	0	0	2	1	2	1	4	4	2	3	4	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:54968964C>T	uc001sgd.1	+	11	1313	c.1147C>T	c.(1147-1149)CGT>TGT	p.R383C	PDE1B_uc010soz.1_Missense_Mutation_p.R246C|PDE1B_uc010spa.1_Missense_Mutation_p.R342C|PDE1B_uc001sgf.2_Missense_Mutation_p.R246C|PDE1B_uc001sge.2_Missense_Mutation_p.R363C|PDE1B_uc009znq.2_Missense_Mutation_p.R179C	NM_000924	NP_000915	Q01064	PDE1B_HUMAN	phosphodiesterase 1B isoform 1	383	Catalytic (By similarity).				activation of phospholipase C activity|apoptosis|nerve growth factor receptor signaling pathway|platelet activation	cytosol|nucleus	3',5'-cyclic-AMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GGTCCACAGCCGTTGGACCAA	0.587													21	90					0	0	1	0	0		T	54968964	T	T	54968964	3	4	27	1	0	0	0	0	1	0	0	0	11653	652	23	1	1242	1	PDE1B	12	54968964	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	46835	54968964	78882931	5502	27853											
PPP1R1A	5502	broad.mit.edu	37	chr12	54974788	54974788	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagggttcttttgtgctgggTtccttactgcctctctcgtg	2	17	12	10	1	2	0	0	0	2	0	5	1	3	0	2	2	3	3	2	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:54974788T>C	uc001sgg.2	-	6	621	c.450A>G	c.(448-450)GAA>GAG	p.E150E		NM_006741	NP_006732	Q13522	PPR1A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	150	Interaction with PPP1R15A.				glycogen metabolic process|signal transduction		protein binding|protein serine/threonine phosphatase inhibitor activity				0						TTGTGCTGGGTTCCTTACTGC	0.537													15	212					0	0	1	0	0		C	54974788	C	C	54974788	2	2	27	1	0	0	0	0	0	0	0	1	12389	1722	60	3		3	PPP1R1A	12	54974788	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5824	54974788	78877107	5503	27854											
OR6C74	254783	broad.mit.edu	37	chr12	55641717	55641717	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtattagtgattctctccTacacaaatattatcaggact	12	15	6	8	0	2	1	1	1	1	0	4	2	3	2	1	2	1	1	1	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:55641717T>C	uc010spg.1	+	1	646	c.646T>C	c.(646-648)TAC>CAC	p.Y216H		NM_001005490	NP_001005490	A6NCV1	O6C74_HUMAN	olfactory receptor, family 6, subfamily C,	216	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						GATTCTCTCCTACACAAATAT	0.393													6	74					0	0	1	0	0		C	55641717	C	C	55641717	3	2	27	1	0	0	0	0	1	0	0	0	11217	1522	53	3	648	3	OR6C74	12	55641717	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	666929	55641717	78210178	5504	27855											
OR6C1	390321	broad.mit.edu	37	chr12	55714599	55714599	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattagaaatttcgttcacAaccgtcagtatacccaagtt	14	13	5	9	2	2	1	2	0	0	1	3	1	2	1	2	0	2	3	2	0	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:55714599A>C	uc010spi.1	+	1	216	c.216A>C	c.(214-216)ACA>ACC	p.T72T		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	72	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						TTTCGTTCACAACCGTCAGTA	0.383													8	63					0	0	1	0	0		C	55714599	C	C	55714599	2	2	27	1	0	0	0	0	0	0	0	1	11209	117	5	5		5	OR6C1	12	55714599	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	72882	55714599	78137296	5505	27856											
OR6C1	390321	broad.mit.edu	37	chr12	55715169	55715169	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtacattaaaccctcagcAaaagatagagtgtccttgag	15	10	8	8	0	1	3	1	1	0	2	2	3	2	3	2	0	3	2	2	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:55715169A>G	uc010spi.1	+	1	786	c.786A>G	c.(784-786)GCA>GCG	p.A262A		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						AACCCTCAGCAAAAGATAGAG	0.438													9	115					0	0	1	0	0		G	55715169	G	G	55715169	2	3	27	1	0	0	0	0	0	0	0	1	11209	117	5	3		3	OR6C1	12	55715169	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	570	55715169	78136726	5506	27857											
OR6C1	390321	broad.mit.edu	37	chr12	55715233	55715233	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagtagcccccatgatgAacccctttatttacagccta	10	11	5	15	0	1	2	1	2	0	0	1	2	1	2	6	0	4	1	6	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:55715233A>G	uc010spi.1	+	1	850	c.850A>G	c.(850-852)AAC>GAC	p.N284D		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						CCCCATGATGAACCCCTTTAT	0.413													27	109					0	0	1	0	0		G	55715233	G	G	55715233	3	3	27	1	0	0	0	0	1	0	0	0	11209	246	9	3	852	3	OR6C1	12	55715233	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	64	55715233	78136662	5507	27858											
BLOC1S1	2647	broad.mit.edu	37	chr12	56112932	56112932	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgaggtgaagaccctacaGgtccaggctgcccaatttgc	10	8	11	12	0	0	3	0	2	0	1	1	3	1	3	3	3	3	1	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:56112932G>T	uc009zny.1	+	3	292	c.276G>T	c.(274-276)CAG>CAT	p.Q92H	BLOC1S1_uc001shi.2_Missense_Mutation_p.Q64H|BLOC1S1_uc001shj.3_Missense_Mutation_p.Q92H|RDH5_uc010spt.1_5'Flank|RDH5_uc010spu.1_5'Flank|RDH5_uc001shk.2_5'Flank|RDH5_uc001shl.2_5'Flank			P78537	BL1S1_HUMAN	RecName: Full=Biogenesis of lysosome-related organelles complex 1 subunit 1;          Short=BLOC-1 subunit 1; AltName: Full=GCN5-like protein 1; AltName: Full=Protein RT14;	92					cellular membrane organization|melanosome organization|platelet dense granule organization|post-Golgi vesicle-mediated transport	BLOC-1 complex|lysosomal membrane	protein binding				0						AGACCCTACAGGTCCAGGCTG	0.577													5	40					0.000602214	0.000630257	1	1	0		T	56112932	T	T	56112932	3	4	27	1	0	0	0	0	1	0	0	0	1449	991	35	5	202	5	BLOC1S1	12	56112932	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	397699	56112932	77738963	5508	27859											
RDH5	5959	broad.mit.edu	37	chr12	56115638	56115638	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagcccggggccgggtgaTcaacatcaccagcgtcctgg	8	5	14	14	3	2	1	2	1	0	0	3	1	3	1	4	4	3	1	4	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:56115638T>A	uc001shk.2	+	3	659	c.476T>A	c.(475-477)ATC>AAC	p.I159N	BLOC1S1_uc001shj.3_3'UTR|RDH5_uc010spt.1_Missense_Mutation_p.I159N|RDH5_uc010spu.1_Missense_Mutation_p.I62N|RDH5_uc001shl.2_Missense_Mutation_p.I159N	NM_002905	NP_002896	Q92781	RDH1_HUMAN	retinol dehydrogenase 5 (11-cis and 9-cis)	159					response to stimulus|visual perception	membrane	binding|retinol dehydrogenase activity			ovary(1)	1					NADH(DB00157)|Vitamin A(DB00162)	GGCCGGGTGATCAACATCACC	0.627													5	41					0	0	1	0	0		A	56115638	A	A	56115638	3	1	27	1	0	0	0	0	1	0	0	0	13220	1435	50	5	482	5	RDH5	12	56115638	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2706	56115638	77736257	5509	27860											
RAB5B	5869	broad.mit.edu	37	chr12	56384499	56384499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagcaaagacatgggtgaagGaactacagcgacaggccagt	15	4	14	8	1	0	2	0	1	0	1	0	5	0	3	1	3	4	1	1	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:56384499G>A	uc001siv.2	+	4	466	c.349G>A	c.(349-351)GAA>AAA	p.E117K	RAB5B_uc001siw.2_Missense_Mutation_p.E117K|RAB5B_uc009zog.2_Missense_Mutation_p.E57K|RAB5B_uc010spz.1_Intron	NM_002868	NP_002859	P61020	RAB5B_HUMAN	RAB5B, member RAS oncogene family	117					protein transport|small GTPase mediated signal transduction	early endosome membrane|melanosome|membrane fraction|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.235)			ATGGGTGAAGGAACTACAGCG	0.483													21	177					0	0	1	0	0		A	56384499	A	A	56384499	3	1	27	1	0	0	0	0	1	0	0	0	12974	1175	41	4	359	4	RAB5B	12	56384499	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	268861	56384499	77467396	5510	27861											
ERBB3	2065	broad.mit.edu	37	chr12	56478899	56478899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggaagtttgccatcttcGtcatgttgaactataacacc	11	13	8	9	1	2	1	1	1	1	0	3	2	2	2	2	1	3	2	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:56478899G>A	uc001sjh.2	+	3	548	c.355G>A	c.(355-357)GTC>ATC	p.V119I	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.V60I|ERBB3_uc001sjg.2_Missense_Mutation_p.V119I	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	119	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			TGCCATCTTCGTCATGTTGAA	0.562													27	110					0	0	1	0	0		A	56478899	A	A	56478899	3	1	27	1	0	0	0	0	1	0	0	0	5216	1145	40	1	365	1	ERBB3	12	56478899	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	94400	56478899	77372996	5511	27862											
ERBB3	2065	broad.mit.edu	37	chr12	56493660	56493660	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atagcccctgggccagagccCcatggtctgacaaacaagaa	13	5	10	13	0	1	3	0	1	1	2	1	3	1	3	5	2	3	0	5	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:56493660C>A	uc001sjh.2	+	25	3169	c.2976C>A	c.(2974-2976)CCC>CCA	p.P992P	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Silent_p.P349P|ERBB3_uc010sqc.1_Silent_p.P933P|ERBB3_uc009zok.2_Silent_p.P257P|ERBB3_uc001sjk.2_Silent_p.P233P|ERBB3_uc001sjl.2_Silent_p.P112P	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	992	Cytoplasmic (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			GGCCAGAGCCCCATGGTCTGA	0.517													13	65					5.50884e-06	5.93776e-06	1	1	0		A	56493660	A	A	56493660	2	1	27	1	0	0	0	0	0	0	0	1	5216	610	22	5		5	ERBB3	12	56493660	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14761	56493660	77358235	5512	27863											
ESYT1	23344	broad.mit.edu	37	chr12	56526307	56526307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagacccatatgcacttgtgCgtttgggtacccagacattc	9	11	9	12	1	0	2	0	0	0	2	1	2	0	2	2	1	3	3	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:56526307C>T	uc001sjq.2	+	9	1137	c.1087C>T	c.(1087-1089)CGT>TGT	p.R363C	ESYT1_uc001sjr.2_Missense_Mutation_p.R363C	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	363	C2 1.					integral to membrane				ovary(4)|skin(1)	5						TGCACTTGTGCGTTTGGGTAC	0.502													13	96					0	0	1	0	0		T	56526307	T	T	56526307	3	4	27	1	0	0	0	0	1	0	0	0	5272	768	27	1	1121	1	ESYT1	12	56526307	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	32647	56526307	77325588	5513	27864											
ESYT1	23344	broad.mit.edu	37	chr12	56530569	56530569	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgactttaggagcactgacGctgcctctggcccgcctgct	5	10	11	15	2	1	2	0	2	1	0	1	3	1	3	3	2	3	3	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:56530569G>A	uc001sjq.2	+	16	1724	c.1674G>A	c.(1672-1674)ACG>ACA	p.T558T	ESYT1_uc001sjr.2_Silent_p.T568T	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	558	C2 2.					integral to membrane				ovary(4)|skin(1)	5						GAGCACTGACGCTGCCTCTGG	0.552													5	53					0	0	1	0	0		A	56530569	A	A	56530569	2	1	27	1	0	0	0	0	0	0	0	1	5272	1074	38	1		1	ESYT1	12	56530569	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4262	56530569	77321326	5514	27865											
SLC39A5	283375	broad.mit.edu	37	chr12	56625260	56625260	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctccacagcctggggctaGgccgagttcaggggcttcgc	5	9	14	13	2	2	0	1	0	1	0	4	1	2	0	3	5	1	3	3	5	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:56625260G>T	uc010sqj.1	+	4	459	c.202G>T	c.(202-204)GGC>TGC	p.G68C	SLC39A5_uc010sqi.1_Translation_Start_Site|SLC39A5_uc010sqk.1_Missense_Mutation_p.G68C	NM_173596	NP_775867	Q6ZMH5	S39A5_HUMAN	solute carrier family 39 (metal ion	68	Extracellular (By similarity).				zinc ion transport	basolateral plasma membrane|integral to membrane	metal ion transmembrane transporter activity			ovary(1)|skin(1)	2						CCTGGGGCTAGGCCGAGTTCA	0.637													10	93					2.17888e-05	2.33116e-05	1	1	0		T	56625260	T	T	56625260	3	4	27	1	0	0	0	0	1	0	0	0	14646	1000	35	5	204	5	SLC39A5	12	56625260	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	94691	56625260	77226635	5515	27866											
SLC39A5	283375	broad.mit.edu	37	chr12	56630717	56630717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaccctgctggccccaggtGctgccttctctgatggcttc	3	11	11	16	1	1	1	0	1	1	0	3	2	1	1	4	3	3	3	4	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:56630717G>A	uc010sqj.1	+	11	1467	c.1210G>A	c.(1210-1212)GCT>ACT	p.A404T	SLC39A5_uc010sqk.1_Missense_Mutation_p.A404T	NM_173596	NP_775867	Q6ZMH5	S39A5_HUMAN	solute carrier family 39 (metal ion	404	Cytoplasmic (Potential).				zinc ion transport	basolateral plasma membrane|integral to membrane	metal ion transmembrane transporter activity			ovary(1)|skin(1)	2						GGCCCCAGGTGCTGCCTTCTC	0.592													15	290					0	0	1	0	0		A	56630717	A	A	56630717	3	1	27	1	0	0	0	0	1	0	0	0	14646	1319	46	2	1240	2	SLC39A5	12	56630717	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5457	56630717	77221178	5516	27867											
PAN2	9924	broad.mit.edu	37	chr12	56719213	56719213	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagctgtcaaattcactgTctgactccttgagtctgtag	9	14	9	9	0	4	3	2	3	2	0	5	3	5	3	1	0	1	2	1	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:56719213T>C	uc001skx.2	-	9	1758	c.1385A>G	c.(1384-1386)GAC>GGC	p.D462G	PAN2_uc001skw.2_5'Flank|PAN2_uc001skz.2_Missense_Mutation_p.D462G|PAN2_uc001sky.2_Missense_Mutation_p.D462G	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	462					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						AAATTCACTGTCTGACTCCTT	0.383													14	143					0	0	1	0	0		C	56719213	C	C	56719213	3	2	27	1	0	0	0	0	1	0	0	0	11433	1667	58	3	2295	3	PAN2	12	56719213	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	88496	56719213	77132682	5517	27868											
TIMELESS	8914	broad.mit.edu	37	chr12	56811707	56811707	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctctgttcctgccctcAtcttcttcctgttcctcgtc	2	17	4	18	1	4	0	1	0	3	0	9	0	7	0	5	0	2	2	5	0	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:56811707A>G	uc001slf.2	-	28	3708	c.3540T>C	c.(3538-3540)GAT>GAC	p.D1180D		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	1180					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						TCCTGCCCTCATCTTCTTCCT	0.468													21	172					0	0	1	0	0		G	56811707	G	G	56811707	2	3	27	1	0	0	0	0	0	0	0	1	15929	214	8	3		3	TIMELESS	12	56811707	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	92494	56811707	77040188	5518	27869											
TIMELESS	8914	broad.mit.edu	37	chr12	56822332	56822332	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaccaggccagggcctcaCtcttgatgatgcggctgctc	6	8	14	13	1	2	2	1	2	1	0	3	3	2	3	3	4	2	2	3	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:56822332C>T	uc001slf.2	-	12	1576	c.1408_splice	c.e12+1	p.N470_splice	TIMELESS_uc001slg.2_Splice_Site_p.N469_splice	NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog						cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						CAGGGCCTCACTCTTGATGAT	0.542													12	28					0	0	1	0	0		T	56822332	T	T	56822332	5	4	27	1	0	0	0	0	0	0	1	0	15929	579	20	4	2289	4	TIMELESS	12	56822332	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10625	56822332	77029563	5519	27870											
ZBTB39	9880	broad.mit.edu	37	chr12	57396732	57396732	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcagcggtacatgagggccCccgagtgtgtctttaggtgg	6	10	16	9	2	1	1	0	1	1	0	1	2	1	1	2	4	3	2	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57396732C>A	uc001sml.1	-	2	2056	c.1970G>T	c.(1969-1971)GGG>GTG	p.G657V	RDH16_uc010sqx.1_5'Flank	NM_014830	NP_055645	O15060	ZBT39_HUMAN	zinc finger and BTB domain containing 39	657					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						CATGAGGGCCCCCGAGTGTGT	0.572													9	66					1.12685e-05	1.21022e-05	1	1	0		A	57396732	A	A	57396732	3	1	27	1	0	0	0	0	1	0	0	0	17565	623	22	5	172	5	ZBTB39	12	57396732	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	574400	57396732	76455163	5520	27871											
TMEM194A	23306	broad.mit.edu	37	chr12	57466637	57466637	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtaacagaattgttggctGgcacgcttttcacaaacttg	10	13	10	8	1	1	1	1	0	0	1	1	1	1	1	0	2	2	5	0	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57466637G>A	uc001smy.2	-	2	232	c.186C>T	c.(184-186)GCC>GCT	p.A62A	TMEM194A_uc001smx.2_Silent_p.A62A|TMEM194A_uc010sra.1_5'UTR	NM_001130963	NP_001124435	O14524	T194A_HUMAN	transmembrane protein 194A isoform a	62						integral to membrane					0						ATTGTTGGCTGGCACGCTTTT	0.398													17	67					0	0	1	0	0		A	57466637	A	A	57466637	2	1	27	1	0	0	0	0	0	0	0	1	16141	1335	47	4		4	TMEM194A	12	57466637	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	69905	57466637	76385258	5521	27872											
LRP1	4035	broad.mit.edu	37	chr12	57550055	57550055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatctaccaccagaggcGtcagccccgaggtgagcagg	10	4	12	15	2	2	2	1	1	1	1	2	3	2	2	5	3	3	1	5	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57550055G>A	uc001snd.2	+	9	1872	c.1406G>A	c.(1405-1407)CGT>CAT	p.R469H		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	469	Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CACCAGAGGCGTCAGCCCCGA	0.617													8	31					0	0	1	0	0		A	57550055	A	A	57550055	3	1	27	1	0	0	0	0	1	0	0	0	8969	1145	40	1	1440	1	LRP1	12	57550055	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	83418	57550055	76301840	5522	27873											
LRP1	4035	broad.mit.edu	37	chr12	57553773	57553773	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccccagggctattgtggTggatccactcaatgggtgag	9	9	13	10	0	1	1	1	1	0	0	2	2	2	2	3	4	0	1	3	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57553773T>C	uc001snd.2	+	12	2430	c.1964T>C	c.(1963-1965)GTG>GCG	p.V655A		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	655	LDL-receptor class B 5.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GCTATTGTGGTGGATCCACTC	0.567													5	26					0	0	1	0	0		C	57553773	C	C	57553773	3	2	27	1	0	0	0	0	1	0	0	0	8969	1696	59	3	2010	3	LRP1	12	57553773	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3718	57553773	76298122	5523	27874											
LRP1	4035	broad.mit.edu	37	chr12	57561277	57561277	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctgcaacaatggcagaTgtatcaacatcaactggaga	15	9	8	9	0	2	2	2	0	0	2	2	3	2	2	1	2	5	3	1	2	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57561277T>C	uc001snd.2	+	19	3431	c.2965T>C	c.(2965-2967)TGT>CGT	p.C989R	LRP1_uc009zph.1_RNA|LRP1_uc009zpi.1_5'Flank	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	989	Extracellular (Potential).|LDL-receptor class A 6.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CAATGGCAGATGTATCAACAT	0.512													10	101					0	0	1	0	0		C	57561277	C	C	57561277	3	2	27	1	0	0	0	0	1	0	0	0	8969	1464	51	3	3039	3	LRP1	12	57561277	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7504	57561277	76290618	5524	27875											
LRP1	4035	broad.mit.edu	37	chr12	57573210	57573210	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatctccttcacggtgcccGacatcgacaacgtcacagtg	9	9	8	15	4	4	0	3	0	1	0	6	2	4	0	2	1	2	0	2	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57573210G>A	uc001snd.2	+	29	5303	c.4837G>A	c.(4837-4839)GAC>AAC	p.D1613N		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1613	Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CACGGTGCCCGACATCGACAA	0.557													6	41					0	0	1	0	0		A	57573210	A	A	57573210	3	1	27	1	0	0	0	0	1	0	0	0	8969	1058	37	1	4951	1	LRP1	12	57573210	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11933	57573210	76278685	5525	27876											
NXPH4	11247	broad.mit.edu	37	chr12	57619127	57619127	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgggcctgtcccccaccCtctgcagtctacgctcgccc	3	7	9	22	3	2	0	0	0	2	0	4	0	3	0	6	1	2	2	6	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57619127C>A	uc010srf.1	+	2	699	c.524C>A	c.(523-525)CCT>CAT	p.P175H	NXPH4_uc009zpj.2_5'UTR	NM_007224	NP_009155	O95158	NXPH4_HUMAN	neurexophilin 4 precursor	175	IV (linker domain).				neuropeptide signaling pathway	extracellular region					0						GTCCCCCACCCTCTGCAGTCT	0.716													18	76					8.00594e-06	8.62734e-06	1	1	0		A	57619127	A	A	57619127	3	1	27	1	0	0	0	0	1	0	0	0	10812	681	24	5	530	5	NXPH4	12	57619127	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	45917	57619127	76232768	5526	27877											
STAC3	246329	broad.mit.edu	37	chr12	57638384	57638384	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccacaaagtaatgagactGctggaagccaggctgcttgt	12	8	12	9	0	0	1	0	1	0	1	0	3	0	2	2	2	4	4	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57638384G>A	uc001snp.2	-	9	937	c.742C>T	c.(742-744)CAG>TAG	p.Q248*	STAC3_uc009zpl.2_5'UTR|STAC3_uc001snq.2_Nonsense_Mutation_p.Q209*|STAC3_uc010srm.1_Nonsense_Mutation_p.Q62*	NM_145064	NP_659501	Q96MF2	STAC3_HUMAN	SH3 and cysteine rich domain 3	248	SH3 1.				intracellular signal transduction		identical protein binding|metal ion binding			ovary(2)|skin(1)	3						TAATGAGACTGCTGGAAGCCA	0.577													12	139					0	0	1	0	0		A	57638384	A	A	57638384	4	1	27	1	0	0	0	0	0	1	0	0	15266	1328	46	2	368	2	STAC3	12	57638384	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19257	57638384	76213511	5527	27878											
STAC3	246329	broad.mit.edu	37	chr12	57638744	57638744	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccttcttatccccttcaggGtttcctgggataggaaacac	8	12	9	12	0	2	0	1	0	1	0	4	2	4	2	4	3	1	1	4	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57638744G>A	uc001snp.2	-	8	870	c.675C>T	c.(673-675)AAC>AAT	p.N225N	STAC3_uc009zpl.2_5'UTR|STAC3_uc001snq.2_Silent_p.N186N|STAC3_uc010srm.1_Silent_p.N39N	NM_145064	NP_659501	Q96MF2	STAC3_HUMAN	SH3 and cysteine rich domain 3	225					intracellular signal transduction		identical protein binding|metal ion binding			ovary(2)|skin(1)	3						CCCCTTCAGGGTTTCCTGGGA	0.498													9	144					0	0	1	0	0		A	57638744	A	A	57638744	2	1	27	1	0	0	0	0	0	0	0	1	15266	1252	44	4		4	STAC3	12	57638744	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	360	57638744	76213151	5528	27879											
STAC3	246329	broad.mit.edu	37	chr12	57638988	57638988	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctcctccatcatggctgCtacaggctggagggggcacc	6	8	12	15	0	1	0	1	0	0	0	4	1	4	1	4	5	2	4	4	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57638988C>A	uc001snp.2	-	7	805	c.610G>T	c.(610-612)GCA>TCA	p.A204S	STAC3_uc009zpl.2_Intron|STAC3_uc001snq.2_Missense_Mutation_p.A165S|STAC3_uc010srm.1_Missense_Mutation_p.A18S	NM_145064	NP_659501	Q96MF2	STAC3_HUMAN	SH3 and cysteine rich domain 3	204					intracellular signal transduction		identical protein binding|metal ion binding			ovary(2)|skin(1)	3						ATCATGGCTGCTACAGGCTGG	0.527													7	108					0.000157383	0.000166242	1	1	0		A	57638988	A	A	57638988	3	1	27	1	0	0	0	0	1	0	0	0	15266	797	28	5	508	5	STAC3	12	57638988	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	244	57638988	76212907	5529	27880											
GLI1	2735	broad.mit.edu	37	chr12	57865375	57865375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtgaacacatatggacctgGctttggacccaacttgccca	11	9	9	12	0	0	1	0	1	0	0	0	3	0	3	3	3	3	1	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57865375G>A	uc001snx.2	+	12	2930	c.2852G>A	c.(2851-2853)GGC>GAC	p.G951D	GLI1_uc009zpq.2_Missense_Mutation_p.G823D	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	951					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			TATGGACCTGGCTTTGGACCC	0.542													14	57					0	0	1	0	0		A	57865375	A	A	57865375	3	1	27	1	0	0	0	0	1	0	0	0	6452	1203	42	2	2894	2	GLI1	12	57865375	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	226387	57865375	75986520	5530	27881											
ARHGAP9	64333	broad.mit.edu	37	chr12	57873041	57873041	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttcgaagcagtaggaacCtatccccttcagccagagac	11	9	8	13	1	2	1	1	0	1	1	4	4	3	2	4	1	3	2	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57873041C>A	uc001sod.2	-	5	555	c.362G>T	c.(361-363)AGG>ATG	p.R121M	ARHGAP9_uc001snz.2_5'Flank|ARHGAP9_uc001soa.2_5'Flank|ARHGAP9_uc001sob.2_Missense_Mutation_p.R50M|ARHGAP9_uc001soc.2_Missense_Mutation_p.R50M|ARHGAP9_uc001soe.1_Missense_Mutation_p.R129M|ARHGAP9_uc010sro.1_Missense_Mutation_p.R50M	NM_032496	NP_115885	Q9BRR9	RHG09_HUMAN	Rho GTPase activating protein 9 isoform 1	50	SH3.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			lung(1)	1			GBM - Glioblastoma multiforme(3;3.37e-34)			CAGTAGGAACCTATCCCCTTC	0.587													4	85					0.00909568	0.0093211	1	1	0		A	57873041	A	A	57873041	3	1	27	1	0	0	0	0	1	0	0	0	889	681	24	5	2114	5	ARHGAP9	12	57873041	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7666	57873041	75978854	5531	27882											
MARS	4141	broad.mit.edu	37	chr12	57908808	57908808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atatattcaggtgaatgagcCctggaagcggattaaaggca	14	9	12	6	1	1	2	1	2	0	0	1	4	1	4	1	4	2	1	1	4	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57908808C>T	uc001sog.2	+	17	2194	c.2171C>T	c.(2170-2172)CCC>CTC	p.P724L	MARS_uc001sof.1_RNA|MARS_uc010srq.1_Missense_Mutation_p.P490L|MARS_uc001soh.1_Missense_Mutation_p.P119L	NM_004990	NP_004981	P56192	SYMC_HUMAN	methionyl-tRNA synthetase	724					methionyl-tRNA aminoacylation	cytosol	ATP binding|methionine-tRNA ligase activity|protein binding|tRNA binding			ovary(3)|central_nervous_system(1)|pancreas(1)	5			GBM - Glioblastoma multiforme(3;4.27e-41)		L-Methionine(DB00134)	GTGAATGAGCCCTGGAAGCGG	0.532													9	63					0	0	1	0	0		T	57908808	T	T	57908808	3	4	27	1	0	0	0	0	1	0	0	0	9334	623	22	4	2237	4	MARS	12	57908808	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	35767	57908808	75943087	5532	27883											
KIF5A	3798	broad.mit.edu	37	chr12	57963431	57963431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccagaaggagacgattgCgaagctggaggctgagctga	11	5	17	8	2	0	4	0	2	0	2	0	8	0	5	1	4	3	3	1	4	2	1	rs121434444		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57963431C>T	uc001sor.1	+	11	1290	c.1082C>T	c.(1081-1083)GCG>GTG	p.A361V	KIF5A_uc010srr.1_Missense_Mutation_p.A272V	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	361			A -> V (in SPG10; does not affect microtubule affinity; does not affect gliding velocity; does not affect microtubule-dependent ATP turnover).		blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						gagaCGATTGCGAAGCTGGAG	0.418													9	52					0	0	1	0	0		T	57963431	T	T	57963431	3	4	27	1	0	0	0	0	1	0	0	0	8321	768	27	1	1124	1	KIF5A	12	57963431	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	54623	57963431	75888464	5533	27884											
PIP4K2C	79837	broad.mit.edu	37	chr12	57994595	57994595	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttgtcagtgggtctcagtTtctagtgcagctgaagatca	9	14	11	7	0	4	2	3	1	2	1	5	2	4	2	0	1	2	3	0	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:57994595T>C	uc001sou.2	+	8	946	c.815T>C	c.(814-816)TTT>TCT	p.F272S	PIP4K2C_uc001sot.2_Missense_Mutation_p.F272S|PIP4K2C_uc010srs.1_Missense_Mutation_p.F254S|PIP4K2C_uc010srt.1_Missense_Mutation_p.F224S	NM_001146258	NP_001139730	Q8TBX8	PI42C_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	272	PIPK.					cytoplasm|membrane	1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|identical protein binding			central_nervous_system(2)|lung(1)	3	Melanoma(17;0.122)					GGGTCTCAGTTTCTAGTGCAG	0.537													31	338					0	0	1	0	0		C	57994595	C	C	57994595	3	2	27	1	0	0	0	0	1	0	0	0	11957	1855	64	3	845	3	PIP4K2C	12	57994595	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31164	57994595	75857300	5534	27885											
OS9	10956	broad.mit.edu	37	chr12	58109590	58109590	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggggactacatcgatcgCgtggacgagcccttgtcctg	6	10	13	12	4	1	0	0	0	1	0	4	4	2	2	2	3	2	0	2	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:58109590C>T	uc001spj.2	+	6	686	c.627C>T	c.(625-627)CGC>CGT	p.R209R	OS9_uc010srx.1_Intron|OS9_uc001spk.2_Silent_p.R209R|OS9_uc001spl.2_Silent_p.R209R|OS9_uc001spm.2_Silent_p.R209R|OS9_uc001spn.2_Silent_p.R209R|OS9_uc010sry.1_Silent_p.R176R|OS9_uc010srz.1_Silent_p.R150R	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	209					ER-associated protein catabolic process|protein retention in ER lumen|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to endoplasmic reticulum stress	endoplasmic reticulum lumen|Hrd1p ubiquitin ligase complex	glycoprotein binding|protein binding|sugar binding			ovary(1)	1	all_neural(12;0.00548)|Glioma(12;0.0126)|Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			ACATCGATCGCGTGGACGAGC	0.562													5	47					0	0	1	0	0		T	58109590	T	T	58109590	2	4	27	1	0	0	0	0	0	0	0	1	11291	755	27	1		1	OS9	12	58109590	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	114995	58109590	75742305	5535	27886											
FAM119B	25895	broad.mit.edu	37	chr12	58174222	58174222	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtgtacctggaacccacCttccctctgctgctggggac	6	10	10	15	1	1	0	0	0	1	0	3	2	2	2	4	3	4	3	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:58174222C>A	uc001sqg.2	+	3	599	c.474C>A	c.(472-474)ACC>ACA	p.T158T	FAM119B_uc001sqf.2_3'UTR|FAM119B_uc009zqd.2_RNA|TSFM_uc001sqi.2_5'Flank|TSFM_uc010sse.1_5'Flank|TSFM_uc001sqh.2_5'Flank|TSFM_uc010ssf.1_5'Flank	NM_015433	NP_056248	Q96AZ1	MT21B_HUMAN	hypothetical protein LOC25895 isoform a	158	Helical; (Potential).					integral to membrane|intracellular	methyltransferase activity				0	all_cancers(7;9.07e-82)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					TGGAACCCACCTTCCCTCTGC	0.582													6	60					0.217242	0.218248	1	1	0		A	58174222	A	A	58174222	2	1	27	1	0	0	0	0	0	0	0	1	5425	668	24	5		5	FAM119B	12	58174222	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	64632	58174222	75677673	5536	27887											
XRCC6BP1	91419	broad.mit.edu	37	chr12	58335598	58335598	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcccaggggaatccccaGcaagggttcttctccagctt	7	9	11	14	0	2	0	0	0	2	0	4	1	3	1	4	4	2	3	4	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:58335598G>A	uc001sqp.2	+	1	154	c.114G>A	c.(112-114)CAG>CAA	p.Q38Q		NM_033276	NP_150592	Q9Y6H3	ATP23_HUMAN	XRCC6 binding protein 1	38					double-strand break repair via nonhomologous end joining	DNA-dependent protein kinase-DNA ligase 4 complex	DNA-dependent protein kinase activity|metal ion binding|metalloendopeptidase activity			ovary(1)	1						GGAATCCCCAGCAAGGGTTCT	0.542													9	40					0	0	1	0	0		A	58335598	A	A	58335598	2	1	27	1	0	0	0	0	0	0	0	1	17484	962	34	2		2	XRCC6BP1	12	58335598	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	161376	58335598	75516297	5537	27888											
LRIG3	121227	broad.mit.edu	37	chr12	59282123	59282123	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caactcacagctcactgagcTtctggcagaactcccaggca	11	7	8	15	0	3	2	2	1	1	1	4	2	4	2	1	2	4	4	1	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:59282123T>G	uc001sqr.2	-	7	1181	c.935A>C	c.(934-936)AAG>ACG	p.K312T	LRIG3_uc009zqh.2_Missense_Mutation_p.K252T|LRIG3_uc010ssh.1_RNA	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like	312	LRR 11.					integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			CTCACTGAGCTTCTGGCAGAA	0.488													6	79					0	0	1	0	0		G	59282123	G	G	59282123	3	3	27	1	0	0	0	0	1	0	0	0	8964	1609	56	5	2476	5	LRIG3	12	59282123	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	946525	59282123	74569772	5538	27889											
MON2	23041	broad.mit.edu	37	chr12	62949898	62949898	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgccgagaagcaatgggCtgagacgtgggtattaacat	12	7	13	9	3	0	2	0	1	0	2	0	4	0	2	2	2	2	3	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:62949898C>T	uc001sre.2	+	25	3726	c.3335C>T	c.(3334-3336)GCT>GTT	p.A1112V	MON2_uc009zqj.2_Missense_Mutation_p.A1112V|MON2_uc010ssl.1_Missense_Mutation_p.A1040V|MON2_uc010ssm.1_Missense_Mutation_p.A1089V|MON2_uc010ssn.1_Missense_Mutation_p.A1112V|MON2_uc001srf.2_Missense_Mutation_p.A875V	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	1113					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		AAGCAATGGGCTGAGACGTGG	0.423													9	43					0	0	1	0	0		T	62949898	T	T	62949898	3	4	27	1	0	0	0	0	1	0	0	0	9718	797	28	2	3433	2	MON2	12	62949898	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3667775	62949898	70901997	5539	27890											
AVPR1A	552	broad.mit.edu	37	chr12	63543968	63543968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcccgtcatccaggtcaCgtaggcacgagaaccccagg	9	4	12	16	4	2	1	2	0	0	1	3	2	3	1	5	3	1	2	5	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:63543968C>T	uc001sro.1	-	1	2623	c.649G>A	c.(649-651)GTG>ATG	p.V217M		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	217	Extracellular (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	ATCCAGGTCACGTAGGCACGA	0.597													4	90					0	0	1	0	0		T	63543968	T	T	63543968	3	4	27	1	0	0	0	0	1	0	0	0	1232	536	19	1	615	1	AVPR1A	12	63543968	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	594070	63543968	70307927	5540	27891											
C12orf56	115749	broad.mit.edu	37	chr12	64746772	64746772	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaacggttgaagaatagAtgatacgaatgtgttggctg	14	11	12	4	2	1	4	1	2	0	2	1	5	1	4	0	2	2	3	0	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:64746772A>G	uc001ssa.3	-	2	317	c.317T>C	c.(316-318)ATC>ACC	p.I106T	uc001srx.2_Intron	NM_001099676	NP_001093146	Q8IXR9	CL056_HUMAN	hypothetical protein LOC115749	106											0			GBM - Glioblastoma multiforme(3;0.000582)	GBM - Glioblastoma multiforme(28;0.0259)		TGAAGAATAGATGATACGAAT	0.333													10	73					0	0	1	0	0		G	64746772	G	G	64746772	3	3	27	1	0	0	0	0	1	0	0	0	1703	333	12	3	1599	3	C12orf56	12	64746772	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1202804	64746772	69105123	5541	27892											
TBK1	29110	broad.mit.edu	37	chr12	64878159	64878159	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaacttatctacgaagggCgacgcttagtcttagaacct	13	10	9	9	3	2	2	0	0	2	2	2	4	2	2	1	1	3	1	1	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:64878159C>T	uc001ssc.1	+	9	1131	c.1069C>T	c.(1069-1071)CGA>TGA	p.R357*		NM_013254	NP_037386	Q9UHD2	TBK1_HUMAN	TANK-binding kinase 1	357	Ubiquitin-like.				I-kappaB kinase/NF-kappaB cascade|innate immune response|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription from RNA polymerase II promoter|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|large_intestine(1)|breast(1)	5				GBM - Glioblastoma multiforme(28;0.0386)		CTACGAAGGGCGACGCTTAGT	0.373													4	46					0	0	1	0	0		T	64878159	T	T	64878159	4	4	27	1	0	0	0	0	0	1	0	0	15662	760	27	1	1099	1	TBK1	12	64878159	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	131387	64878159	68973736	5542	27893											
TBK1	29110	broad.mit.edu	37	chr12	64891510	64891510	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaatttatccaagttctaAcacattagtagaaatgactc	15	12	4	10	0	1	2	0	1	1	1	3	2	2	2	2	0	1	2	2	0	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:64891510A>G	uc001ssc.1	+	19	2104	c.2042A>G	c.(2041-2043)AAC>AGC	p.N681S		NM_013254	NP_037386	Q9UHD2	TBK1_HUMAN	TANK-binding kinase 1	681	Potential.				I-kappaB kinase/NF-kappaB cascade|innate immune response|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription from RNA polymerase II promoter|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|large_intestine(1)|breast(1)	5				GBM - Glioblastoma multiforme(28;0.0386)		CCAAGTTCTAACACATTAGTA	0.348													3	51					0	0	1	0	0		G	64891510	G	G	64891510	3	3	27	1	0	0	0	0	1	0	0	0	15662	43	2	3	2112	3	TBK1	12	64891510	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	13351	64891510	68960385	5543	27894											
GNS	2799	broad.mit.edu	37	chr12	65110533	65110533	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggtcgctacagaagatgTttggaaaatcttcgagtcct	11	12	11	7	2	1	3	0	1	1	2	4	5	2	4	1	2	1	2	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:65110533T>G	uc001ssg.3	-	14	1817	c.1647A>C	c.(1645-1647)AAA>AAC	p.K549N	GNS_uc001ssf.2_Missense_Mutation_p.K493N|GNS_uc010ssq.1_Missense_Mutation_p.K581N|GNS_uc010ssr.1_Missense_Mutation_p.K529N	NM_002076	NP_002067	P15586	GNS_HUMAN	glucosamine (N-acetyl)-6-sulfatase precursor	549						lysosome	metal ion binding|N-acetylglucosamine-6-sulfatase activity|protein binding			central_nervous_system(1)	1	Lung NSC(1;7.25e-14)|all_lung(1;1.25e-12)		LUAD - Lung adenocarcinoma(6;0.115)	GBM - Glioblastoma multiforme(28;0.0435)		ACAGAAGATGTTTGGAAAATC	0.478													4	48					0	0	1	0	0		G	65110533	G	G	65110533	3	3	27	1	0	0	0	0	1	0	0	0	6565	1722	60	5	15	5	GNS	12	65110533	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	219023	65110533	68741362	5544	27895											
CAND1	55832	broad.mit.edu	37	chr12	67691383	67691383	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaaaatgattctatgtcaAcaacaagaacctacatacaa	20	8	3	10	0	2	2	1	1	1	1	2	2	2	2	2	0	5	0	2	0	10	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:67691383A>G	uc001stn.2	+	5	1125	c.688A>G	c.(688-690)ACA>GCA	p.T230A	CAND1_uc001sto.2_5'Flank	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	230	HEAT 6.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		TTCTATGTCAACAACAAGAAC	0.328													3	65					0	0	1	0	0		G	67691383	G	G	67691383	3	3	27	1	0	0	0	0	1	0	0	0	2618	43	2	3	706	3	CAND1	12	67691383	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2580850	67691383	66160512	5545	27896											
MDM2	4193	broad.mit.edu	37	chr12	69202995	69202995	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttccttgtaggcaaatgTgcaataccaacatgtctgta	11	15	7	8	0	1	0	0	0	1	0	2	0	2	0	2	1	3	4	2	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:69202995T>C	uc001sui.2	+	2	309	c.22T>C	c.(22-24)TGC>CGC	p.C8R	MDM2_uc009zri.2_Missense_Mutation_p.C8R|MDM2_uc009zqx.2_Missense_Mutation_p.C8R|MDM2_uc009zqw.2_Missense_Mutation_p.C8R|MDM2_uc001suk.2_Missense_Mutation_p.C8R|MDM2_uc009zqy.1_5'UTR|MDM2_uc001sun.3_5'UTR|MDM2_uc009zqz.2_Missense_Mutation_p.C2R|MDM2_uc009zra.2_Missense_Mutation_p.C2R|MDM2_uc009zrb.1_RNA|MDM2_uc001sum.1_5'UTR|MDM2_uc009zrd.2_5'UTR|MDM2_uc009zrc.2_5'UTR|MDM2_uc009zre.2_5'UTR|MDM2_uc009zrf.2_5'UTR|MDM2_uc001suo.2_5'UTR|MDM2_uc009zrg.2_5'UTR|MDM2_uc009zrh.2_5'UTR	NM_002392	NP_002383	Q00987	MDM2_HUMAN	mouse double minute 2 homolog isoform MDM2	2	Necessary for interaction with USP2.				cellular response to hypoxia|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|establishment of protein localization|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein complex assembly|protein destabilization|protein localization to nucleus|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to antibiotic|synaptic transmission	cytosol|endocytic vesicle membrane|insoluble fraction|nucleolus|nucleoplasm|plasma membrane|protein complex	enzyme binding|identical protein binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|central_nervous_system(1)	3	all_cancers(1;8.46e-121)|all_epithelial(5;3.21e-36)|Lung NSC(4;2.16e-33)|all_lung(4;3.03e-31)|Glioma(1;1.9e-09)|Breast(13;1.59e-06)|all_neural(1;1.03e-05)|Melanoma(1;0.0171)|Renal(347;0.0684)		all cancers(2;8.67e-65)|GBM - Glioblastoma multiforme(2;8.89e-62)|BRCA - Breast invasive adenocarcinoma(5;2.43e-08)|Lung(24;1.5e-05)|LUAD - Lung adenocarcinoma(15;8.5e-05)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			TAGGCAAATGTGCAATACCAA	0.368			A		sarcoma|glioma|colorectal|other								31	350					0	0	1	0	0		C	69202995	C	C	69202995	3	2	27	1	0	0	0	0	1	0	0	0	9431	1696	59	3	28	3	MDM2	12	69202995	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1511612	69202995	64648900	5546	27897											
LYZ	4069	broad.mit.edu	37	chr12	69742245	69742245	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgttacggtccagggcaaGgtctttgaaaggtgtgagtt	8	13	14	6	1	2	2	0	2	2	0	3	2	3	2	1	4	1	3	1	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:69742245G>T	uc001suw.2	+	1	112	c.57G>T	c.(55-57)AAG>AAT	p.K19N		NM_000239	NP_000230	P61626	LYSC_HUMAN	lysozyme precursor	19					cell wall macromolecule catabolic process|cytolysis|defense response to bacterium|inflammatory response	extracellular space	lysozyme activity|protein binding				0	all_epithelial(5;2.98e-35)|Lung NSC(4;9.93e-33)|all_lung(4;5.66e-31)|Breast(13;2.56e-06)|Esophageal squamous(21;0.187)		Epithelial(6;8.26e-19)|BRCA - Breast invasive adenocarcinoma(5;8.5e-10)|Lung(24;9.68e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00503)|OV - Ovarian serous cystadenocarcinoma(12;0.00691)|LUSC - Lung squamous cell carcinoma(43;0.24)|Kidney(9;0.241)			TCCAGGGCAAGGTCTTTGAAA	0.498													8	68					1.12685e-05	1.21022e-05	1	1	0		T	69742245	T	T	69742245	3	4	27	1	0	0	0	0	1	0	0	0	9148	991	35	5	59	5	LYZ	12	69742245	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	539250	69742245	64109650	5547	27898											
FRS2	10818	broad.mit.edu	37	chr12	69968696	69968696	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacgagatgatggtacatcTaggaaaactagacacaatag	17	7	9	8	1	1	3	0	1	1	2	1	5	1	4	1	2	2	1	1	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:69968696T>C	uc001suy.2	+	10	1998	c.1488T>C	c.(1486-1488)TCT>TCC	p.S496S	FRS2_uc001suz.2_Silent_p.S496S|FRS2_uc009zrj.2_Silent_p.S496S|FRS2_uc009zrk.2_Silent_p.S496S	NM_006654	NP_006645	Q8WU20	FRS2_HUMAN	fibroblast growth factor receptor substrate 2	496					activation of MAPKK activity|activation of phospholipase C activity|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|transmembrane receptor protein tyrosine phosphatase signaling pathway	endomembrane system|endosome|integral to plasma membrane|membrane fraction	fibroblast growth factor receptor binding|insulin receptor binding|phosphatase activator activity|transmembrane receptor protein tyrosine kinase adaptor activity			prostate(1)|kidney(1)	2	Breast(13;2.15e-06)|Esophageal squamous(21;0.187)		Epithelial(6;2.94e-18)|Lung(24;9.68e-05)|OV - Ovarian serous cystadenocarcinoma(12;0.000984)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			ATGGTACATCTAGGAAAACTA	0.448													7	81					0	0	1	0	0		C	69968696	C	C	69968696	2	2	27	1	0	0	0	0	0	0	0	1	6075	1509	53	3		3	FRS2	12	69968696	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	226451	69968696	63883199	5548	27899											
RAB3IP	117177	broad.mit.edu	37	chr12	70149411	70149411	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtattcatcccccagacgtTtaaattgtgcggaaatatct	11	14	7	9	2	2	1	1	0	1	1	3	2	3	2	2	1	1	2	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:70149411T>C	uc001svp.2	+	2	718	c.271T>C	c.(271-273)TTA>CTA	p.L91L	RAB3IP_uc001svl.1_Silent_p.L75L|RAB3IP_uc001svm.2_Silent_p.L75L|RAB3IP_uc001svn.2_Silent_p.L75L|RAB3IP_uc001svo.2_RNA|RAB3IP_uc001svq.2_Silent_p.L91L|RAB3IP_uc001svr.2_RNA|RAB3IP_uc001svs.2_RNA	NM_175623	NP_783322	Q96QF0	RAB3I_HUMAN	RAB3A interacting protein isoform alpha 2	91					cilium assembly|Golgi to plasma membrane transport|protein localization to organelle|protein transport	actin cortical patch|centrosome|cytosol|lamellipodium|microtubule basal body|nucleus	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Esophageal squamous(21;0.187)		Lung(24;0.000381)|OV - Ovarian serous cystadenocarcinoma(12;0.00168)|STAD - Stomach adenocarcinoma(21;0.00694)			CCCCAGACGTTTAAATTGTGC	0.368													4	73					0	0	1	0	0		C	70149411	C	C	70149411	2	2	27	1	0	0	0	0	0	0	0	1	12963	1838	64	3		3	RAB3IP	12	70149411	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	180715	70149411	63702484	5549	27900											
PTPRR	5801	broad.mit.edu	37	chr12	71050594	71050594	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctgttctacctattccTgcactgaaaagaaaagaaaa	16	9	5	11	0	1	3	0	1	1	2	2	3	2	3	3	0	2	2	3	0	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:71050594T>A	uc001swi.1	-	13	2186	c.1770A>T	c.(1768-1770)GCA>GCT	p.A590A	PTPRR_uc001swf.1_RNA|PTPRR_uc001swg.1_RNA|PTPRR_uc001swh.1_Silent_p.A345A|PTPRR_uc009zrs.2_Silent_p.A439A|PTPRR_uc010stq.1_Silent_p.A478A	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	590	Tyrosine-protein phosphatase.|Cytoplasmic (Potential).|Substrate binding (By similarity).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		TACCTATTCCTGCACTGAAAA	0.373													9	94					0	0	1	0	0		A	71050594	A	A	71050594	2	1	27	1	0	0	0	0	0	0	0	1	12835	1567	55	5		5	PTPRR	12	71050594	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	901183	71050594	62801301	5550	27901											
ZFC3H1	196441	broad.mit.edu	37	chr12	72024378	72024378	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaataggaagtctttaaaaAcctgctgaagcagtaatttc	16	11	8	6	0	1	2	0	1	1	1	2	3	1	3	1	1	3	3	1	1	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:72024378A>C	uc001swo.2	-	18	4083	c.3724_splice	c.e18+1	p.E1242_splice		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2						RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						GTCTTTAAAAACCTGCTGAAG	0.308													5	47					0	0	1	0	0		C	72024378	C	C	72024378	5	2	27	1	0	0	0	0	0	0	1	0	17658	57	2	5	2315	5	ZFC3H1	12	72024378	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	973784	72024378	61827517	5551	27902											
TBC1D15	64786	broad.mit.edu	37	chr12	72265950	72265950	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attacgtgttttagaaaaggTaagtttctagtaaatgattt	14	17	8	2	1	1	2	0	1	1	1	1	2	1	2	0	1	1	4	0	1	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:72265950T>C	uc001swu.2	+	2	204	c.195_splice	c.e2+2	p.K65_splice	TBC1D15_uc009zrv.2_Splice_Site|TBC1D15_uc010stt.1_Splice_Site_p.K51_splice|TBC1D15_uc001swv.2_Splice_Site_p.K65_splice|TBC1D15_uc001sww.2_Splice_Site	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1								protein binding|Rab GTPase activator activity				0						TTAGAAAAGGTAAGTTTCTAG	0.284													6	63					0	0	1	0	0		C	72265950	C	C	72265950	5	2	27	1	0	0	0	0	0	0	1	0	15629	1652	57	3	261	3	TBC1D15	12	72265950	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	241572	72265950	61585945	5552	27903											
TBC1D15	64786	broad.mit.edu	37	chr12	72316783	72316783	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattgccacaagcagtctgTgagatccttgggcttcaagg	10	10	12	9	0	2	1	1	1	1	1	3	3	3	1	2	2	2	2	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:72316783T>C	uc001swu.2	+	18	1950	c.1941T>C	c.(1939-1941)TGT>TGC	p.C647C	TBC1D15_uc010stt.1_Silent_p.C616C|TBC1D15_uc001swv.2_Silent_p.C630C|TBC1D15_uc001sww.2_Silent_p.C379C	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	625							protein binding|Rab GTPase activator activity				0						AAGCAGTCTGTGAGATCCTTG	0.398													5	74					0	0	1	0	0		C	72316783	C	C	72316783	2	2	27	1	0	0	0	0	0	0	0	1	15629	1702	59	3		3	TBC1D15	12	72316783	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	50833	72316783	61535112	5553	27904											
TRHDE	29953	broad.mit.edu	37	chr12	72667178	72667178	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggggctgtccctgtagccgGttttttcctctacccgcaaa	5	12	10	14	3	1	0	0	0	1	0	3	0	3	0	4	3	2	4	4	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:72667178G>T	uc001sxa.2	+	1	650	c.620G>T	c.(619-621)GGT>GTT	p.G207V	LOC283392_uc010stv.1_5'UTR	NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	207	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						CCTGTAGCCGGTTTTTTCCTC	0.587													8	73					0.000157383	0.000166242	1	1	0		T	72667178	T	T	72667178	3	4	27	1	0	0	0	0	1	0	0	0	16505	1261	44	5	622	5	TRHDE	12	72667178	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	350395	72667178	61184717	5554	27905											
KCNC2	3747	broad.mit.edu	37	chr12	75444651	75444651	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcagcaaaaattcattagtActagctcgaagagtatgtcc	15	10	8	8	1	1	1	1	0	0	1	3	2	2	1	1	0	4	5	1	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:75444651A>G	uc001sxg.1	-	3	1678	c.1134T>C	c.(1132-1134)AGT>AGC	p.S378S	KCNC2_uc009zry.2_Silent_p.S378S|KCNC2_uc001sxe.2_Silent_p.S378S|KCNC2_uc001sxf.2_Silent_p.S378S|KCNC2_uc010stw.1_Silent_p.S378S	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	378	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						ATTCATTAGTACTAGCTCGAA	0.453													3	49					0	0	1	0	0		G	75444651	G	G	75444651	2	3	27	1	0	0	0	0	0	0	0	1	8031	388	14	3		3	KCNC2	12	75444651	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2777473	75444651	58407244	5555	27906											
OSBPL8	114882	broad.mit.edu	37	chr12	76772266	76772266	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatggcattgtcattacataAtcttcacctctattcaagaa	13	15	4	9	0	5	1	3	0	2	1	5	1	5	1	1	1	1	1	1	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:76772266A>T	uc001sye.1	-	16	2175	c.1695T>A	c.(1693-1695)GAT>GAA	p.D565E	OSBPL8_uc001syf.1_Missense_Mutation_p.D523E|OSBPL8_uc001syg.1_Missense_Mutation_p.D523E|OSBPL8_uc001syh.1_Missense_Mutation_p.D540E	NM_020841	NP_065892	Q9BZF1	OSBL8_HUMAN	oxysterol-binding protein-like protein 8 isoform	565					lipid transport		lipid binding			ovary(1)	1						TCATTACATAATCTTCACCTC	0.294													10	176					0	0	1	0	0		T	76772266	T	T	76772266	3	4	27	1	0	0	0	0	1	0	0	0	11302	98	4	5	1010	5	OSBPL8	12	76772266	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1327615	76772266	57079629	5556	27907											
CSRP2	1466	broad.mit.edu	37	chr12	77259935	77259935	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggagagctacttactgcagaGaaagcagcagcggtggaagc	13	5	15	8	1	0	2	0	0	0	2	0	5	0	3	0	3	8	4	0	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:77259935G>C	uc001syl.1	-	2	189	c.106C>G	c.(106-108)CTC>GTC	p.L36V		NM_001321	NP_001312	Q16527	CSRP2_HUMAN	cysteine and glycine-rich protein 2	36	LIM zinc-binding 1.				multicellular organismal development	nucleus	zinc ion binding			ovary(1)	1						TTACTGCAGAGAAAGCAGCAG	0.493													4	45					0	0	1	0	0		C	77259935	C	C	77259935	3	2	27	1	0	0	0	0	1	0	0	0	3970	942	33	5	495	5	CSRP2	12	77259935	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	487669	77259935	56591960	5557	27908											
E2F7	144455	broad.mit.edu	37	chr12	77449736	77449736	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggctggcagcactaatgaGcatcttcaggttagctgtgg	8	11	14	8	0	2	1	1	1	1	0	2	1	2	1	0	4	3	6	0	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:77449736G>T	uc001sym.3	-	3	504	c.268C>A	c.(268-270)CTC>ATC	p.L90I	E2F7_uc001syn.2_Missense_Mutation_p.L90I	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	90					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						GCACTAATGAGCATCTTCAGG	0.438													16	161					8.60227e-14	9.59469e-14	1	1	0		T	77449736	T	T	77449736	3	4	27	1	0	0	0	0	1	0	0	0	4878	971	34	5	2511	5	E2F7	12	77449736	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	189801	77449736	56402159	5558	27909											
E2F7	144455	broad.mit.edu	37	chr12	77449893	77449893	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggggccatccttgatcgAtcaacaaatatattttccta	11	14	6	10	2	1	1	1	1	0	0	5	2	3	1	3	2	1	0	3	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:77449893A>T	uc001sym.3	-	3	347	c.111T>A	c.(109-111)GAT>GAA	p.D37E	E2F7_uc001syn.2_Missense_Mutation_p.D37E	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	37					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						TCCTTGATCGATCAACAAATA	0.333													6	62					0	0	1	0	0		T	77449893	T	T	77449893	3	4	27	1	0	0	0	0	1	0	0	0	4878	330	12	5	2668	5	E2F7	12	77449893	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	157	77449893	56402002	5559	27910											
NAV3	89795	broad.mit.edu	37	chr12	78400965	78400965	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggcagcacagcaagcaaAgagtctgagaaattcaggac	15	5	11	10	0	2	2	1	1	1	2	2	4	2	3	1	2	3	4	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:78400965A>G	uc001syp.2	+	8	1820	c.1647A>G	c.(1645-1647)AAA>AAG	p.K549K	NAV3_uc001syo.2_Silent_p.K549K	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	549						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CAGCAAGCAAAGAGTCTGAGA	0.463										HNSCC(70;0.22)			7	62					0	0	1	0	0		G	78400965	G	G	78400965	2	3	27	1	0	0	0	0	0	0	0	1	10203	69	3	3		3	NAV3	12	78400965	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	951072	78400965	55450930	5560	27911											
NAV3	89795	broad.mit.edu	37	chr12	78516145	78516145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttgtctggactgaccacagGcactcacgaggtccagagcc	9	7	11	14	1	2	2	1	1	1	1	3	4	3	3	3	3	1	1	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:78516145G>A	uc001syp.2	+	16	4348	c.4175G>A	c.(4174-4176)GGC>GAC	p.G1392D	NAV3_uc001syo.2_Missense_Mutation_p.G1392D|NAV3_uc010sub.1_Missense_Mutation_p.G892D|NAV3_uc009zsf.2_Intron	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1392	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CTGACCACAGGCACTCACGAG	0.547										HNSCC(70;0.22)			9	84					0	0	1	0	0		A	78516145	A	A	78516145	3	1	27	1	0	0	0	0	1	0	0	0	10203	1203	42	2	4237	2	NAV3	12	78516145	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	115180	78516145	55335750	5561	27912											
NAV3	89795	broad.mit.edu	37	chr12	78570943	78570943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagaagttctttcaaacaagCctttgggaagaaaaagtcca	16	9	9	7	0	2	2	1	0	1	2	3	4	3	3	2	1	2	1	2	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:78570943C>T	uc001syp.2	+	27	5320	c.5147C>T	c.(5146-5148)GCC>GTC	p.A1716V	NAV3_uc001syo.2_Missense_Mutation_p.A1716V|NAV3_uc010sub.1_Missense_Mutation_p.A1195V|NAV3_uc009zsf.2_Missense_Mutation_p.A547V	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1716						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TTCAAACAAGCCTTTGGGAAG	0.438										HNSCC(70;0.22)			8	90					0	0	1	0	0		T	78570943	T	T	78570943	3	4	27	1	0	0	0	0	1	0	0	0	10203	739	26	2	5253	2	NAV3	12	78570943	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	54798	78570943	55280952	5562	27913											
PPFIA2	8499	broad.mit.edu	37	chr12	81676792	81676792	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcatatgaatctcctacctgGgcccagcttccttcctcaga	8	11	7	15	0	2	2	1	1	1	1	5	2	4	2	5	1	2	2	5	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:81676792G>A	uc001szo.1	-	26	3176	c.3015C>T	c.(3013-3015)GCC>GCT	p.A1005A	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_Intron|PPFIA2_uc009zsh.2_Intron	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	910										ovary(3)|lung(2)|pancreas(1)	6						CTCCTACCTGGGCCCAGCTTC	0.308													3	51					0	0	1	0	0		A	81676792	A	A	81676792	2	1	27	1	0	0	0	0	0	0	0	1	12329	1219	43	4		4	PPFIA2	12	81676792	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3105849	81676792	52175103	5563	27914											
PPFIA2	8499	broad.mit.edu	37	chr12	81833805	81833805	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagagactctttctaaagaAaccctcagtcgctcccttac	11	10	6	14	1	3	2	1	0	2	2	5	3	4	2	2	0	2	2	2	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:81833805A>G	uc001szo.1	-	7	752	c.591T>C	c.(589-591)GTT>GTC	p.V197V	PPFIA2_uc010sue.1_Silent_p.V97V|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_Intron|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	123										ovary(3)|lung(2)|pancreas(1)	6						TTTCTAAAGAAACCCTCAGTC	0.408													5	68					0	0	1	0	0		G	81833805	G	G	81833805	2	3	27	1	0	0	0	0	0	0	0	1	12329	1	1	3		3	PPFIA2	12	81833805	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	157013	81833805	52018090	5564	27915											
TMTC2	160335	broad.mit.edu	37	chr12	83251004	83251004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttgcatgcagcagtcactgGtctcttcacaagcttctcca	8	12	8	13	0	4	0	2	0	2	0	6	0	4	0	1	1	4	5	1	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:83251004G>A	uc001szt.2	+	2	731	c.299G>A	c.(298-300)GGT>GAT	p.G100D	TMTC2_uc001szr.1_Missense_Mutation_p.G100D|TMTC2_uc001szs.1_Missense_Mutation_p.G100D|TMTC2_uc010suk.1_Intron	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	100	Helical; (Potential).					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						GCAGTCACTGGTCTCTTCACA	0.507													7	125					0	0	1	0	0		A	83251004	A	A	83251004	3	1	27	1	0	0	0	0	1	0	0	0	16286	1261	44	4	305	4	TMTC2	12	83251004	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1417199	83251004	50600891	5565	27916											
TMTC2	160335	broad.mit.edu	37	chr12	83526060	83526060	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccagaaggccgaggccaaCtacctgcgggccctgcagct	8	5	12	16	2	0	1	0	0	0	1	1	2	1	1	5	3	5	2	5	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:83526060C>T	uc001szt.2	+	12	2835	c.2403C>T	c.(2401-2403)AAC>AAT	p.N801N	TMTC2_uc010suk.1_Silent_p.N556N	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	801	TPR 10.					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						CCGAGGCCAACTACCTGCGGG	0.498													4	46					0	0	1	0	0		T	83526060	T	T	83526060	2	4	27	1	0	0	0	0	0	0	0	1	16286	564	20	4		4	TMTC2	12	83526060	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	275056	83526060	50325835	5566	27917											
LRRIQ1	84125	broad.mit.edu	37	chr12	85449486	85449486	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctatcaaaaatatggcccAattattaaagagcaaattga	18	10	6	7	0	1	2	1	1	0	1	1	2	1	2	2	1	1	1	2	1	9	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:85449486A>G	uc001tac.2	+	8	1026	c.915A>G	c.(913-915)CCA>CCG	p.P305P	LRRIQ1_uc001tab.1_Silent_p.P305P|LRRIQ1_uc001taa.1_Silent_p.P280P	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	305	IQ 1.|Glu-rich.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		AATATGGCCCAATTATTAAAG	0.164													5	51					0	0	1	0	0		G	85449486	G	G	85449486	2	3	27	1	0	0	0	0	0	0	0	1	9047	117	5	3		3	LRRIQ1	12	85449486	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1923426	85449486	48402409	5567	27918											
RASSF9	9182	broad.mit.edu	37	chr12	86198897	86198897	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttccgcatcttcatttatAtcaatgcaaacactttttac	11	16	2	12	1	3	0	2	0	1	0	4	0	4	0	2	0	3	2	2	0	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:86198897A>G	uc001taf.1	-	2	1230	c.891T>C	c.(889-891)GAT>GAC	p.D297D		NM_005447	NP_005438	O75901	RASF9_HUMAN	Ras association (RalGDS/AF-6) domain family	297					endosome transport|protein targeting|signal transduction	cytosol|endosome|trans-Golgi network transport vesicle membrane	protein binding|transporter activity			ovary(1)	1						CTTCATTTATATCAATGCAAA	0.373													6	226					0	0	1	0	0		G	86198897	G	G	86198897	2	3	27	1	0	0	0	0	0	0	0	1	13118	446	16	3		3	RASSF9	12	86198897	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	749411	86198897	47652998	5568	27919											
CEP290	80184	broad.mit.edu	37	chr12	88454773	88454773	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttccacttctaccagacTacgaaagaatatgttaaatc	14	13	4	10	1	2	2	0	0	2	2	4	3	3	2	2	0	2	1	2	0	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:88454773T>C	uc001tar.2	-	47	6702	c.6358_splice	c.e47-1	p.S2120_splice	CEP290_uc001taq.2_Splice_Site_p.S1180_splice	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa						cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						TCTACCAGACTACGAAAGAAT	0.289													2	8					0	0	1	0	0		C	88454773	C	C	88454773	5	2	27	1	0	0	0	0	0	0	1	0	3256	1536	53	3	1115	3	CEP290	12	88454773	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2255876	88454773	45397122	5569	27920											
CEP290	80184	broad.mit.edu	37	chr12	88478501	88478501	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttccatctcttttctgccTagctcagctatgagcttttc	5	17	7	12	0	3	1	1	1	2	0	6	1	4	1	2	1	4	4	2	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:88478501T>A	uc001tar.2	-	35	4910	c.4566A>T	c.(4564-4566)CTA>CTT	p.L1522L	CEP290_uc001taq.2_Silent_p.L582L	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1522					cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						CTTTTCTGCCTAGCTCAGCTA	0.388													5	131					0	0	1	0	0		A	88478501	A	A	88478501	2	1	27	1	0	0	0	0	0	0	0	1	3256	1509	53	5		5	CEP290	12	88478501	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	23728	88478501	45373394	5570	27921											
CEP290	80184	broad.mit.edu	37	chr12	88483134	88483134	+	Missense_Mutation	SNP	T	A	A																															gtttctgctctaagcgcaagTtgtaggcctccatcttctgc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:88483134T>A	uc001tar.2	-	31	4048	c.3704A>T	c.(3703-3705)AAC>ATC	p.N1235I	CEP290_uc001taq.2_Missense_Mutation_p.N295I	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1235	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						TAAGCGCAAGTTGTAGGCCTC	0.428													4	56					0	0	1	0	0		A	88483134	A	A	88483134	3	1	27	1	0	0	0	0	1	0	0	0	3256	1725	60	5	3831	5	CEP290	12	88483134	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4633	88483134	45368761	5571	27922	54	2									
CEP290	80184	broad.mit.edu	37	chr12	88483141	88483141	+	Missense_Mutation	SNP	C	T	T																															ctctaagcgcaagttgtaggCctccatcttctgcagtttag																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:88483141C>T	uc001tar.2	-	31	4041	c.3697G>A	c.(3697-3699)GCC>ACC	p.A1233T	CEP290_uc001taq.2_Missense_Mutation_p.A293T	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1233	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						AAGTTGTAGGCCTCCATCTTC	0.438													4	53					0	0	1	0	0		T	88483141	T	T	88483141	3	4	27	1	0	0	0	0	1	0	0	0	3256	739	26	2	3838	2	CEP290	12	88483141	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7	88483141	45368754	5572	27923	54	2									
TMTC3	160418	broad.mit.edu	37	chr12	88584371	88584371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcaagcaataagcatgaggCccgacttcaagcaggcttac	13	7	10	11	1	2	1	2	1	0	0	2	2	2	1	1	2	4	4	1	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:88584371C>T	uc001tau.2	+	12	1898	c.1678C>T	c.(1678-1680)CCC>TCC	p.P560S		NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat	560	TPR 4.					integral to membrane	binding			skin(1)	1						AAGCATGAGGCCCGACTTCAA	0.418													4	60					0	0	1	0	0		T	88584371	T	T	88584371	3	4	27	1	0	0	0	0	1	0	0	0	16287	739	26	2	1720	2	TMTC3	12	88584371	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	101230	88584371	45267524	5573	27924											
GALNT4	8693	broad.mit.edu	37	chr12	89917932	89917932	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggtggtaggaagtgtcCtatagttgaacttctgggac	10	11	14	6	0	1	2	0	1	1	1	2	4	2	4	1	4	1	2	1	4	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:89917932C>A	uc001tbd.2	-	1	604	c.395G>T	c.(394-396)AGG>ATG	p.R132M	POC1B_uc001tba.2_Intron|POC1B_uc001tbb.2_Intron|POC1B_uc001tbc.2_Intron|POC1B_uc010sun.1_Intron|GALNT4_uc001tbe.2_Missense_Mutation_p.R129M|GALNT4_uc010suo.1_Intron	NM_003774	NP_003765	Q8N4A0	GALT4_HUMAN	polypeptide N-acetylgalactosaminyltransferase 4	132	Lumenal (Potential).				carbohydrate metabolic process	Golgi membrane|integral to membrane|perinuclear region of cytoplasm	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0						AGGAAGTGTCCTATAGTTGAA	0.418											OREG0022018	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	74					4.68919e-08	5.14072e-08	1	1	0		A	89917932	A	A	89917932	3	1	27	1	0	0	0	0	1	0	0	0	6230	681	24	5	1345	5	GALNT4	12	89917932	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1333561	89917932	43933963	5574	27925											
ATP2B1	490	broad.mit.edu	37	chr12	89997947	89997947	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacttgagtaatgcaggcGcccgtaaaagcaacaatcac	14	7	8	12	2	1	1	1	1	0	0	1	1	1	1	2	1	4	4	2	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:89997947G>A	uc001tbh.2	-	15	2800	c.2619C>T	c.(2617-2619)GGC>GGT	p.G873G	ATP2B1_uc001tbg.2_Silent_p.G873G|ATP2B1_uc001tbf.2_Silent_p.G543G	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	873	Extracellular (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						TAATGCAGGCGCCCGTAAAAG	0.328													11	48					0	0	1	0	0		A	89997947	A	A	89997947	2	1	27	1	0	0	0	0	0	0	0	1	1140	1074	38	1		1	ATP2B1	12	89997947	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	80015	89997947	43853948	5575	27926											
DCN	1634	broad.mit.edu	37	chr12	91539849	91539849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaattacttatagtttcCgagttgaatggcagagcgca	12	12	11	6	2	0	3	0	2	0	2	1	5	1	3	1	1	2	4	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:91539849C>T	uc001tbs.2	-	7	1160	c.1066G>A	c.(1066-1068)GGA>AGA	p.G356R	DCN_uc001tbo.2_Missense_Mutation_p.G247R|DCN_uc001tbp.2_Missense_Mutation_p.G209R|DCN_uc001tbq.2_Missense_Mutation_p.G169R|DCN_uc001tbr.2_3'UTR|DCN_uc001tbt.2_Missense_Mutation_p.G356R|DCN_uc001tbu.2_Missense_Mutation_p.G356R	NM_133503	NP_598010	P07585	PGS2_HUMAN	decorin isoform a preproprotein	356	LRR 12.				organ morphogenesis	extracellular space				central_nervous_system(2)|ovary(1)|lung(1)	4						TTATAGTTTCCGAGTTGAATG	0.398													20	76					0	0	1	0	0		T	91539849	T	T	91539849	3	4	27	1	0	0	0	0	1	0	0	0	4300	661	23	1	17	1	DCN	12	91539849	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1541902	91539849	42312046	5576	27927											
TMCC3	57458	broad.mit.edu	37	chr12	94965290	94965290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atatagcaagaagagtcacgGcaaagaaggtgccaagaatg	18	5	12	6	1	1	4	1	0	0	4	1	4	1	4	1	2	2	2	1	2	8	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:94965290G>A	uc001tdj.2	-	4	1473	c.1355C>T	c.(1354-1356)GCC>GTC	p.A452V	TMCC3_uc001tdi.2_Missense_Mutation_p.A421V	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	452	Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2						AAGAGTCACGGCAAAGAAGGT	0.468													4	113					0	0	1	0	0		A	94965290	A	A	94965290	3	1	27	1	0	0	0	0	1	0	0	0	16019	1203	42	2	82	2	TMCC3	12	94965290	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3425441	94965290	38886605	5577	27928											
TMCC3	57458	broad.mit.edu	37	chr12	94975728	94975728	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctaaggaatttttcaagTgagcaatgttgtcggcgctg	9	13	11	8	2	2	1	1	1	1	0	3	2	2	2	1	2	1	3	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:94975728T>C	uc001tdj.2	-	2	783	c.665A>G	c.(664-666)CAC>CGC	p.H222R	TMCC3_uc001tdi.2_Missense_Mutation_p.H191R	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	222						integral to membrane				ovary(1)|skin(1)	2						ATTTTTCAAGTGAGCAATGTT	0.512													8	91					0	0	1	0	0		C	94975728	C	C	94975728	3	2	27	1	0	0	0	0	1	0	0	0	16019	1696	59	3	780	3	TMCC3	12	94975728	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10438	94975728	38876167	5578	27929											
VEZT	55591	broad.mit.edu	37	chr12	95656842	95656842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacactttgctccctggCaacccctaatatttggtact	9	13	5	14	0	0	0	0	0	0	0	2	0	2	0	4	2	4	3	4	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:95656842C>T	uc001tdz.2	+	4	524	c.419C>T	c.(418-420)GCA>GTA	p.A140V	VEZT_uc009zsy.1_Intron|VEZT_uc001tdr.2_Intron|VEZT_uc001tds.2_Missense_Mutation_p.A92V|VEZT_uc001tdt.2_Missense_Mutation_p.A92V|VEZT_uc009zsz.1_Missense_Mutation_p.A140V|VEZT_uc001tdv.2_Missense_Mutation_p.A109V|VEZT_uc001tdw.1_Missense_Mutation_p.A92V|VEZT_uc009zta.1_Missense_Mutation_p.A92V	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	140	Helical; (Potential).					acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						TGCTCCCTGGCAACCCCTAAT	0.448													47	195					0	0	1	0	0		T	95656842	T	T	95656842	3	4	27	1	0	0	0	0	1	0	0	0	17182	710	25	2	433	2	VEZT	12	95656842	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	681114	95656842	38195053	5579	27930											
VEZT	55591	broad.mit.edu	37	chr12	95668625	95668625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagatttcagaagaggaagCacataactttacagatggct	15	9	10	7	0	1	4	1	0	0	4	1	5	1	5	0	2	3	3	0	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:95668625C>T	uc001tdz.2	+	7	1061	c.956C>T	c.(955-957)GCA>GTA	p.A319V	VEZT_uc009ztb.1_RNA|VEZT_uc009ztc.1_5'UTR|VEZT_uc001tdy.2_RNA	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	319						acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						GAAGAGGAAGCACATAACTTT	0.433													7	127					0	0	1	0	0		T	95668625	T	T	95668625	3	4	27	1	0	0	0	0	1	0	0	0	17182	710	25	2	982	2	VEZT	12	95668625	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11783	95668625	38183270	5580	27931											
CCDC38	120935	broad.mit.edu	37	chr12	96288811	96288811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttgctttactttttgatGcctgtgctctttttagtgct	4	23	7	7	0	1	1	0	1	1	0	1	1	1	1	1	0	5	3	1	0	3	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:96288811G>A	uc001tek.1	-	8	962	c.728C>T	c.(727-729)GCA>GTA	p.A243V		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	243										skin(1)	1						ACTTTTTGATGCCTGTGCTCT	0.338													11	134					0	0	1	0	0		A	96288811	A	A	96288811	3	1	27	1	0	0	0	0	1	0	0	0	2813	1319	46	2	999	2	CCDC38	12	96288811	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	620186	96288811	37563084	5581	27932											
GOLGA2B	55592	broad.mit.edu	37	chr12	100551023	100551023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctggctctggtacagtgCgatgtactctcctgcaggag	6	11	12	12	1	3	0	0	0	3	0	4	2	3	1	2	3	4	4	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:100551023C>T	uc001tgs.2	-	5	746	c.302G>A	c.(301-303)CGC>CAC	p.R101H	GOLGA2B_uc001tgt.2_RNA|GOLGA2B_uc001tgu.2_Missense_Mutation_p.R101H|uc001tgv.1_5'Flank|uc001tgx.2_5'Flank	NM_017600	NP_060070			golgi autoantigen, golgin subfamily a, 2-like 1												0						TGGTACAGTGCGATGTACTCT	0.617													5	48					0	0	1	0	0		T	100551023	T	T	100551023	3	4	27	1	0	0	0	0	1	0	0	0	6568	768	27	1	140	1	GOLGA2B	12	100551023	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4262212	100551023	33300872	5582	27933											
SCYL2	55681	broad.mit.edu	37	chr12	100729611	100729611	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattgacaaagtttttaacaAcattggagcagaccttctga	15	12	7	7	0	1	3	0	2	1	1	1	4	1	4	1	1	3	2	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:100729611A>G	uc001thn.2	+	16	2002	c.1952A>G	c.(1951-1953)AAC>AGC	p.N651S	SCYL2_uc001thm.1_Missense_Mutation_p.N651S	NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein	651					endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						GTTTTTAACAACATTGGAGCA	0.338													11	126					0	0	1	0	0		G	100729611	G	G	100729611	3	3	27	1	0	0	0	0	1	0	0	0	13973	43	2	3	2010	3	SCYL2	12	100729611	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	178588	100729611	33122284	5583	27934											
SLC17A8	246213	broad.mit.edu	37	chr12	100813785	100813785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcaaccatgagagttttGcgagtcccaaaaagaagatg	16	8	9	8	1	1	3	1	1	0	3	2	5	2	3	2	0	3	1	2	0	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:100813785G>A	uc010svi.1	+	12	1931	c.1618G>A	c.(1618-1620)GCG>ACG	p.A540T	SLC17A8_uc009ztx.2_Missense_Mutation_p.A490T	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	540	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						TGAGAGTTTTGCGAGTCCCAA	0.478													6	35					0	0	1	0	0		A	100813785	A	A	100813785	3	1	27	1	0	0	0	0	1	0	0	0	14448	1319	46	2	1664	2	SLC17A8	12	100813785	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	84174	100813785	33038110	5584	27935											
ANO4	121601	broad.mit.edu	37	chr12	101336299	101336299	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acattagagcagaaggattgCaaatggagaaagaggtaaat	19	7	12	3	0	0	4	0	0	0	4	0	6	0	5	0	3	2	3	0	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:101336299C>A	uc010svm.1	+	5	1014	c.442C>A	c.(442-444)CAA>AAA	p.Q148K	ANO4_uc010svl.1_RNA|ANO4_uc001thw.2_Missense_Mutation_p.Q113K|ANO4_uc001thx.2_Missense_Mutation_p.Q148K	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	148	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						AGAAGGATTGCAAATGGAGAA	0.343										HNSCC(74;0.22)			24	110					1.9806e-07	2.16337e-07	1	1	0		A	101336299	A	A	101336299	3	1	27	1	0	0	0	0	1	0	0	0	699	711	25	5	347	5	ANO4	12	101336299	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	522514	101336299	32515596	5585	27936											
SLC5A8	160728	broad.mit.edu	37	chr12	101603516	101603516	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttggaggtctgctggccGcccccagcgaaggcgtagta	6	8	14	13	3	1	0	0	0	1	0	2	2	2	1	4	4	2	3	4	4	3	3	rs141426258	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:101603516G>A	uc001thz.3	-	1	501	c.111C>T	c.(109-111)GGC>GGT	p.G37G		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	37	Cytoplasmic (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						TCTGCTGGCCGCCCCCAGCGA	0.657													12	33					0	0	1	0	0		A	101603516	A	A	101603516	2	1	27	1	0	0	0	0	0	0	0	1	14696	1074	38	1		1	SLC5A8	12	101603516	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	267217	101603516	32248379	5586	27937											
UTP20	27340	broad.mit.edu	37	chr12	101693535	101693535	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtattggaccatcttttatcTataattaagttacccccaaa	13	15	4	9	0	2	0	0	0	2	0	2	1	2	1	3	1	1	2	3	1	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:101693535T>A	uc001tia.1	+	13	1662	c.1506T>A	c.(1504-1506)TCT>TCA	p.S502S		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	502					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						ATCTTTTATCTATAATTAAGT	0.338													7	83					0	0	1	0	0		A	101693535	A	A	101693535	2	1	27	1	0	0	0	0	0	0	0	1	17125	1509	53	5		5	UTP20	12	101693535	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	90019	101693535	32158360	5587	27938											
UTP20	27340	broad.mit.edu	37	chr12	101713323	101713323	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctgttttgtttttgtttagGcaattaattgctcatttgca	7	22	7	5	0	2	0	1	0	1	0	2	0	2	0	0	1	2	6	0	1	3	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:101713323G>T	uc001tia.1	+	23	2895	c.2739G>T	c.(2737-2739)AAG>AAT	p.K913N		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	913					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TTTTGTTTAGGCAATTAATTG	0.303													6	52					0.0215528	0.0219246	1	1	0		T	101713323	T	T	101713323	3	4	27	1	0	0	0	0	1	0	0	0	17125	1217	42	5	2829	5	UTP20	12	101713323	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19788	101713323	32138572	5588	27939											
UTP20	27340	broad.mit.edu	37	chr12	101773254	101773254	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccagaggagcttattcAaaaatggaataccaaaaaga	19	6	8	8	0	1	2	1	0	0	2	1	4	1	4	3	2	3	1	3	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:101773254A>G	uc001tia.1	+	57	7658	c.7502A>G	c.(7501-7503)CAA>CGA	p.Q2501R		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	2501					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						GAGCTTATTCAAAAATGGAAT	0.458													9	80					0	0	1	0	0		G	101773254	G	G	101773254	3	3	27	1	0	0	0	0	1	0	0	0	17125	130	5	3	7728	3	UTP20	12	101773254	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	59931	101773254	32078641	5589	27940											
CHPT1	56994	broad.mit.edu	37	chr12	102108316	102108316	+	Silent	SNP	C	A	A																															ggagcttcaattgccgctcgCttaggaacttatcctgactg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:102108316C>A	uc001tin.2	+	3	679	c.456C>A	c.(454-456)CGC>CGA	p.R152R	CHPT1_uc001tio.2_RNA|CHPT1_uc001tip.1_Silent_p.R152R	NM_020244	NP_064629	Q8WUD6	CHPT1_HUMAN	choline phosphotransferase 1	152					platelet activating factor biosynthetic process|regulation of cell growth	Golgi membrane|integral to membrane|microsome	diacylglycerol binding|diacylglycerol cholinephosphotransferase activity|metal ion binding				0						TTGCCGCTCGCTTAGGAACTT	0.348													19	47					8.00594e-06	8.62734e-06	1	1	0		A	102108316	A	A	102108316	2	1	27	1	0	0	0	0	0	0	0	1	3373	784	28	5		5	CHPT1	12	102108316	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	335062	102108316	31743579	5590	27941	55	2									
CHPT1	56994	broad.mit.edu	37	chr12	102108321	102108321	+	Missense_Mutation	SNP	G	A	A																															ttcaattgccgctcgcttagGaacttatcctgactggtttt																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:102108321G>A	uc001tin.2	+	3	684	c.461G>A	c.(460-462)GGA>GAA	p.G154E	CHPT1_uc001tio.2_RNA|CHPT1_uc001tip.1_Missense_Mutation_p.G154E	NM_020244	NP_064629	Q8WUD6	CHPT1_HUMAN	choline phosphotransferase 1	154	Helical; (Potential).				platelet activating factor biosynthetic process|regulation of cell growth	Golgi membrane|integral to membrane|microsome	diacylglycerol binding|diacylglycerol cholinephosphotransferase activity|metal ion binding				0						GCTCGCTTAGGAACTTATCCT	0.348													12	54					0	0	1	0	0		A	102108321	A	A	102108321	3	1	27	1	0	0	0	0	1	0	0	0	3373	1174	41	4	471	4	CHPT1	12	102108321	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5	102108321	31743574	5591	27942	55	2									
GNPTAB	79158	broad.mit.edu	37	chr12	102151087	102151087	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttctcccatgatttcaaAcctaattatcaaaacatatt	14	16	1	10	0	4	1	2	1	2	0	5	1	4	1	2	0	2	0	2	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:102151087A>C	uc001tit.2	-	18	3516	c.3337T>G	c.(3337-3339)TTT>GTT	p.F1113V		NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	1113					cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						ATGATTTCAAACCTAATTATC	0.299													6	47					0	0	1	0	0		C	102151087	C	C	102151087	3	2	27	1	0	0	0	0	1	0	0	0	6560	57	2	5	449	5	GNPTAB	12	102151087	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	42766	102151087	31700808	5592	27943											
CCDC53	51019	broad.mit.edu	37	chr12	102439888	102439888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggatacgaagtgaaaggtCtgccagtttctgtaaaagaa	14	11	11	5	1	2	2	0	1	2	1	2	4	2	3	1	2	2	2	1	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:102439888C>T	uc010svw.1	-	3	319	c.160G>A	c.(160-162)GAC>AAC	p.D54N	CCDC53_uc010svx.1_RNA|CCDC53_uc010svy.1_RNA|CCDC53_uc010svz.1_Missense_Mutation_p.D54N	NM_016053	NP_057137	Q9Y3C0	CCD53_HUMAN	coiled-coil domain containing 53	54	Potential.					WASH complex	protein binding				0						AGTGAAAGGTCTGCCAGTTTC	0.279													3	25					0	0	1	0	0		T	102439888	T	T	102439888	3	4	27	1	0	0	0	0	1	0	0	0	2826	913	32	4	375	4	CCDC53	12	102439888	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	288801	102439888	31412007	5593	27944											
NT5DC3	51559	broad.mit.edu	37	chr12	104179252	104179252	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatgctttagggtcaaaTcctgatcacaaagatcacga	14	9	8	10	1	3	2	3	1	0	1	4	3	4	2	2	1	2	1	2	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:104179252T>A	uc010swe.1	-	12	1231	c.1190A>T	c.(1189-1191)GAT>GTT	p.D397V		NM_001031701	NP_001026871	Q86UY8	NT5D3_HUMAN	5'-nucleotidase domain containing 3	397							hydrolase activity|metal ion binding			ovary(2)|skin(1)	3						TAGGGTCAAATCCTGATCACA	0.403													13	50					0	0	1	0	0		A	104179252	A	A	104179252	3	1	27	1	0	0	0	0	1	0	0	0	10711	1449	50	5	468	5	NT5DC3	12	104179252	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1739364	104179252	29672643	5594	27945											
TDG	6996	broad.mit.edu	37	chr12	104373771	104373771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtaaaaagaaaagtagaccGttttaatggtgtttcagaag	17	11	10	3	1	1	3	1	0	0	3	1	3	1	3	1	1	0	4	1	1	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:104373771G>A	uc001tkg.2	+	3	552	c.329G>A	c.(328-330)CGT>CAT	p.R110H	TDG_uc010swh.1_Missense_Mutation_p.R110H|TDG_uc009zuk.2_Missense_Mutation_p.R106H|TDG_uc010swi.1_5'UTR|TDG_uc010swj.1_5'UTR	NM_003211	NP_003202	Q13569	TDG_HUMAN	thymine-DNA glycosylase	110					depyrimidination|mismatch repair	nucleoplasm	damaged DNA binding|mismatched DNA binding|protein binding|pyrimidine-specific mismatch base pair DNA N-glycosylase activity			ovary(3)|lung(3)	6				BRCA - Breast invasive adenocarcinoma(302;0.00114)		AAAGTAGACCGTTTTAATGGT	0.343								BER_DNA_glycosylases					5	83					0	0	1	0	0		A	104373771	A	A	104373771	3	1	27	1	0	0	0	0	1	0	0	0	15750	1145	40	1	339	1	TDG	12	104373771	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	194519	104373771	29478124	5595	27946											
HCFC2	29915	broad.mit.edu	37	chr12	104473374	104473374	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attctggaagtcctaaaatgTatgtttttggtggaatgtgt	10	17	11	3	0	1	0	0	0	1	0	2	2	2	2	1	3	0	2	1	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:104473374T>C	uc001tkj.3	+	4	728	c.625T>C	c.(625-627)TAT>CAT	p.Y209H	HCFC2_uc009zul.2_RNA	NM_013320	NP_037452	Q9Y5Z7	HCFC2_HUMAN	host cell factor C2	209	Kelch 3.				regulation of transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus	transcription coactivator activity			ovary(2)|central_nervous_system(1)	3						TCCTAAAATGTATGTTTTTGG	0.428													3	95					0	0	1	0	0		C	104473374	C	C	104473374	3	2	27	1	0	0	0	0	1	0	0	0	7009	1638	57	3	639	3	HCFC2	12	104473374	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	99603	104473374	29378521	5596	27947											
TXNRD1	7296	broad.mit.edu	37	chr12	104682799	104682799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaacagagaaagataggcgGccatggtccaaccttgaagg	15	5	13	8	1	0	3	0	1	0	2	1	5	1	3	3	4	2	0	3	4	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:104682799G>A	uc010swk.1	+	4	417	c.395G>A	c.(394-396)GGC>GAC	p.G132D	TXNRD1_uc010swl.1_5'UTR|TXNRD1_uc010swm.1_Missense_Mutation_p.G34D|TXNRD1_uc010swn.1_Intron|TXNRD1_uc010swo.1_Intron|TXNRD1_uc010swp.1_5'UTR|TXNRD1_uc010swq.1_Missense_Mutation_p.G32D|TXNRD1_uc001tku.2_RNA|TXNRD1_uc001tko.1_RNA|TXNRD1_uc001tkp.1_Intron|TXNRD1_uc001tkv.1_5'Flank	NM_001093771	NP_001087240	Q16881	TRXR1_HUMAN	thioredoxin reductase 1 isoform 3	132	Glutaredoxin.				cell redox homeostasis|cellular lipid metabolic process|electron transport chain|nucleobase, nucleoside and nucleotide interconversion|signal transduction|transport	cytosol|nucleolus	electron carrier activity|flavin adenine dinucleotide binding|NADP binding|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity				0						AAGATAGGCGGCCATGGTCCA	0.542													29	112					0	0	1	0	0		A	104682799	A	A	104682799	3	1	27	1	0	0	0	0	1	0	0	0	16833	1203	42	2	423	2	TXNRD1	12	104682799	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	209425	104682799	29169096	5597	27948											
EID3	493861	broad.mit.edu	37	chr12	104697736	104697736	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagatggatgtgtcagtgagGgccgcgggctgctccgacga	8	7	17	9	4	1	2	1	1	0	1	2	5	2	3	2	3	1	2	2	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:104697736G>T	uc001tkw.2	+	1	188	c.24G>T	c.(22-24)AGG>AGT	p.R8S	TXNRD1_uc010swk.1_Intron|TXNRD1_uc010swl.1_Intron|TXNRD1_uc010swm.1_Intron|TXNRD1_uc010swn.1_Intron|TXNRD1_uc010swo.1_Intron|TXNRD1_uc010swp.1_Intron|TXNRD1_uc010swq.1_Intron|TXNRD1_uc001tku.2_Intron|TXNRD1_uc001tko.1_Intron|TXNRD1_uc001tkp.1_Intron|TXNRD1_uc001tkv.1_Intron	NM_001008394	NP_001008395	Q8N140	EID3_HUMAN	EP300 interacting inhibitor of differentiation	8					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus					0						TGTCAGTGAGGGCCGCGGGCT	0.647													3	15					1	1	1	1	0		T	104697736	T	T	104697736	3	4	27	1	0	0	0	0	1	0	0	0	4995	1223	43	5	26	5	EID3	12	104697736	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	14937	104697736	29154159	5598	27949											
CHST11	50515	broad.mit.edu	37	chr12	105151226	105151226	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgcaaaggggacgatgTcaaattcgaggagtttgtgg	10	9	15	7	3	1	0	1	0	0	0	2	4	1	2	1	4	1	2	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:105151226T>A	uc001tkx.1	+	4	995	c.704T>A	c.(703-705)GTC>GAC	p.V235D	CHST11_uc001tky.2_Missense_Mutation_p.V230D|uc001tkz.2_5'Flank	NM_018413	NP_060883	Q9NPF2	CHSTB_HUMAN	carbohydrate sulfotransferase 11	235	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 4-sulfotransferase activity|N-acetylgalactosamine 4-O-sulfotransferase activity				0						GGGGACGATGTCAAATTCGAG	0.562													7	63					0	0	1	0	0		A	105151226	A	A	105151226	3	1	27	1	0	0	0	0	1	0	0	0	3402	1667	58	5	714	5	CHST11	12	105151226	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	453490	105151226	28700669	5599	27950											
SLC41A2	84102	broad.mit.edu	37	chr12	105199107	105199107	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtcagcaatccacagcaaGgtaaatacctagaagagaac	18	5	8	10	0	1	2	1	0	0	2	2	3	2	2	2	1	4	3	2	1	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:105199107G>A	uc001tla.2	-	10	1712	c.1545C>T	c.(1543-1545)ACC>ACT	p.T515T		NM_032148	NP_115524	Q96JW4	S41A2_HUMAN	solute carrier family 41, member 2	515	Helical; (Potential).					integral to membrane|plasma membrane	magnesium ion transmembrane transporter activity			ovary(1)|skin(1)	2						TCCACAGCAAGGTAAATACCT	0.502													10	109					0	0	1	0	0		A	105199107	A	A	105199107	2	1	27	1	0	0	0	0	0	0	0	1	14655	987	35	4		4	SLC41A2	12	105199107	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	47881	105199107	28652788	5600	27951											
CKAP4	10970	broad.mit.edu	37	chr12	106632882	106632882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatctagtaaacccttggCtgattccagattgttctcgt	8	15	8	10	1	3	2	1	1	2	1	5	2	4	2	2	1	1	3	2	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:106632882C>T	uc001tlk.2	-	2	1813	c.1729G>A	c.(1729-1731)GCC>ACC	p.A577T		NM_006825	NP_006816	Q07065	CKAP4_HUMAN	cytoskeleton-associated protein 4	577	Potential.					ER-Golgi intermediate compartment membrane|integral to membrane|membrane fraction					0						AAACCCTTGGCTGATTCCAGA	0.458													18	194					0	0	1	0	0		T	106632882	T	T	106632882	3	4	27	1	0	0	0	0	1	0	0	0	3447	797	28	2	83	2	CKAP4	12	106632882	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1433775	106632882	27219013	5601	27952											
CKAP4	10970	broad.mit.edu	37	chr12	106632988	106632988	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctccacttggctgactgaGgctttcaggttgtctagaga	7	12	12	10	0	2	3	1	2	1	1	3	4	3	3	2	3	0	3	2	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:106632988G>T	uc001tlk.2	-	2	1707	c.1623C>A	c.(1621-1623)GCC>GCA	p.A541A		NM_006825	NP_006816	Q07065	CKAP4_HUMAN	cytoskeleton-associated protein 4	541	Potential.					ER-Golgi intermediate compartment membrane|integral to membrane|membrane fraction					0						GGCTGACTGAGGCTTTCAGGT	0.537													8	106					1.12685e-05	1.21022e-05	1	1	0		T	106632988	T	T	106632988	2	4	27	1	0	0	0	0	0	0	0	1	3447	987	35	5		5	CKAP4	12	106632988	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	106	106632988	27218907	5602	27953											
CKAP4	10970	broad.mit.edu	37	chr12	106633214	106633214	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccgtgctggccaggccaTcctggtctgcctctgaggac	5	9	12	15	1	3	1	1	1	2	0	4	2	4	2	5	4	2	1	5	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:106633214T>A	uc001tlk.2	-	2	1481	c.1397A>T	c.(1396-1398)GAT>GTT	p.D466V		NM_006825	NP_006816	Q07065	CKAP4_HUMAN	cytoskeleton-associated protein 4	466						ER-Golgi intermediate compartment membrane|integral to membrane|membrane fraction					0						GGCCAGGCCATCCTGGTCTGC	0.692													8	52					0	0	1	0	0		A	106633214	A	A	106633214	3	1	27	1	0	0	0	0	1	0	0	0	3447	1435	50	5	415	5	CKAP4	12	106633214	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	226	106633214	27218681	5603	27954											
TCP11L2	255394	broad.mit.edu	37	chr12	106729566	106729566	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaataatagttacttgaaaCtgttacagtgggattatcag	15	14	8	4	0	1	1	1	1	0	0	1	2	1	2	0	1	3	2	0	1	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:106729566C>G	uc001tln.2	+	7	1096	c.922C>G	c.(922-924)CTG>GTG	p.L308V		NM_152772	NP_689985	Q8N4U5	T11L2_HUMAN	t-complex 11 (mouse) like 2	308										ovary(3)	3						TTACTTGAAACTGTTACAGTG	0.373													21	54					0	0	1	0	0		G	106729566	G	G	106729566	3	3	27	1	0	0	0	0	1	0	0	0	15740	564	20	5	944	5	TCP11L2	12	106729566	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	96352	106729566	27122329	5604	27955											
POLR3B	55703	broad.mit.edu	37	chr12	106821127	106821127	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaatggcatggtgaatgcTatttctaccgtaagtcttca	11	13	8	9	1	3	1	1	1	2	0	3	1	3	1	2	2	2	3	2	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:106821127T>C	uc001tlp.2	+	13	1476	c.1254T>C	c.(1252-1254)GCT>GCC	p.A418A	POLR3B_uc001tlq.2_Silent_p.A360A	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	418					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						TGGTGAATGCTATTTCTACCG	0.393													10	90					0	0	1	0	0		C	106821127	C	C	106821127	2	2	27	1	0	0	0	0	0	0	0	1	12248	1509	53	3		3	POLR3B	12	106821127	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	91561	106821127	27030768	5605	27956											
RFX4	5992	broad.mit.edu	37	chr12	107103144	107103144	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaaagtttgccaagcaactGgatgagtggctaaaagtggc	13	8	13	7	1	0	1	0	1	0	0	0	3	0	2	1	3	3	3	1	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:107103144G>T	uc001tlr.2	+	9	936	c.870G>T	c.(868-870)CTG>CTT	p.L290L	RFX4_uc010swv.1_RNA|RFX4_uc001tls.2_Silent_p.L299L|RFX4_uc001tlt.2_Silent_p.L299L|RFX4_uc001tlv.2_Silent_p.L196L	NM_213594	NP_998759	Q33E94	RFX4_HUMAN	regulatory factor X4 isoform c	290					transcription, DNA-dependent	nucleus	DNA binding			upper_aerodigestive_tract(1)	1						CCAAGCAACTGGATGAGTGGC	0.463													10	40					0.000978159	0.00102136	1	1	0		T	107103144	T	T	107103144	2	4	27	1	0	0	0	0	0	0	0	1	13290	1335	47	5		5	RFX4	12	107103144	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	282017	107103144	26748751	5606	27957											
RFX4	5992	broad.mit.edu	37	chr12	107155091	107155091	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccctcagccaacacgtgCtacacaagcccgtctgtgca	9	7	9	16	2	2	0	1	0	1	0	2	0	2	0	3	0	7	2	3	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:107155091C>T	uc001tlr.2	+	18	2118	c.2052C>T	c.(2050-2052)TGC>TGT	p.C684C	RFX4_uc001tlt.2_Silent_p.C693C|RFX4_uc001tlv.2_Silent_p.C590C	NM_213594	NP_998759	Q33E94	RFX4_HUMAN	regulatory factor X4 isoform c	684					transcription, DNA-dependent	nucleus	DNA binding			upper_aerodigestive_tract(1)	1						CCAACACGTGCTACACAAGCC	0.542													7	119					0	0	1	0	0		T	107155091	T	T	107155091	2	4	27	1	0	0	0	0	0	0	0	1	13290	805	28	2		2	RFX4	12	107155091	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	51947	107155091	26696804	5607	27958											
CRY1	1407	broad.mit.edu	37	chr12	107415864	107415864	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatatttttcaaattacctTgaaaagcctgggaaacacat	17	12	5	7	0	1	1	1	1	0	0	1	2	1	2	2	1	3	0	2	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:107415864T>C	uc001tmi.3	-	2	1124	c.265A>G	c.(265-267)AAG>GAG	p.K89E		NM_004075	NP_004066	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	89	DNA photolyase.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			ovary(3)	3						CAAATTACCTTGAAAAGCCTG	0.328													13	146					0	0	1	0	0		C	107415864	C	C	107415864	3	2	27	1	0	0	0	0	1	0	0	0	3906	1821	63	3	1539	3	CRY1	12	107415864	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	260773	107415864	26436031	5608	27959											
BTBD11	121551	broad.mit.edu	37	chr12	108011113	108011113	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttagtttgctgttggagcgtGgtgccgatcccctgatagga	6	13	14	8	2	0	1	0	1	0	0	1	4	1	3	3	3	3	3	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:108011113G>A	uc001tmk.1	+	9	2652	c.2131G>A	c.(2131-2133)GGT>AGT	p.G711S	BTBD11_uc009zut.1_Intron|BTBD11_uc001tmj.2_Missense_Mutation_p.G711S|BTBD11_uc001tml.1_Missense_Mutation_p.G248S	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	711	ANK 3.					integral to membrane	DNA binding			skin(2)|ovary(1)	3						GTTGGAGCGTGGTGCCGATCC	0.478													22	133					0	0	1	0	0		A	108011113	A	A	108011113	3	1	27	1	0	0	0	0	1	0	0	0	1542	1348	47	4	2270	4	BTBD11	12	108011113	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	595249	108011113	25840782	5609	27960											
FICD	11153	broad.mit.edu	37	chr12	108912565	108912565	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccatcacatctaccacacAgtggccatcgagggcaacac	13	6	7	15	1	2	0	1	0	1	0	3	1	2	0	3	2	3	1	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:108912565A>G	uc001tmx.1	+	3	836	c.690A>G	c.(688-690)ACA>ACG	p.T230T		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	230					negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0						TCTACCACACAGTGGCCATCG	0.587													5	43					0	0	1	0	0		G	108912565	G	G	108912565	2	3	27	1	0	0	0	0	0	0	0	1	5901	175	7	3		3	FICD	12	108912565	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	901452	108912565	24939330	5610	27961											
CORO1C	23603	broad.mit.edu	37	chr12	109046095	109046095	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtcccctcttgggcatgtaAcccatccctctctgaggctc	6	11	8	16	0	2	1	0	1	2	0	6	1	4	1	4	2	1	3	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:109046095A>G	uc001tnj.2	-	8	1050	c.954T>C	c.(952-954)GGT>GGC	p.G318G	CORO1C_uc009zva.2_Silent_p.G371G|CORO1C_uc010sxf.1_Silent_p.G281G	NM_014325	NP_055140	Q9ULV4	COR1C_HUMAN	coronin, actin binding protein, 1C isoform 1	318					actin cytoskeleton organization|phagocytosis|signal transduction	actin cytoskeleton	actin filament binding			skin(3)	3						TGGGCATGTAACCCATCCCTC	0.458													9	157					0	0	1	0	0		G	109046095	G	G	109046095	2	3	27	1	0	0	0	0	0	0	0	1	3758	30	2	3		3	CORO1C	12	109046095	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	133530	109046095	24805800	5611	27962											
SSH1	54434	broad.mit.edu	37	chr12	109182581	109182581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttcatatctttcttgggtGacgattcttcctttattacc	6	19	6	10	1	4	1	1	1	3	0	5	2	5	1	2	1	1	1	2	1	3	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:109182581G>A	uc001tnm.2	-	15	2420	c.2333C>T	c.(2332-2334)TCA>TTA	p.S778L	SSH1_uc001tnl.2_Missense_Mutation_p.S466L	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	778					actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						TTTCTTGGGTGACGATTCTTC	0.478													11	134					0	0	1	0	0		A	109182581	A	A	109182581	3	1	27	1	0	0	0	0	1	0	0	0	15209	1294	45	4	820	4	SSH1	12	109182581	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	136486	109182581	24669314	5612	27963											
USP30	84749	broad.mit.edu	37	chr12	109519161	109519161	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgttcgatttgatacctTtgatagcctttcactaagta	9	17	6	9	1	1	2	1	2	0	0	3	3	2	2	3	0	2	2	3	0	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:109519161T>C	uc010sxi.1	+	8	847	c.743T>C	c.(742-744)TTT>TCT	p.F248S	USP30_uc001tnu.3_Missense_Mutation_p.F217S|USP30_uc001tnw.3_5'Flank	NM_032663	NP_116052	Q70CQ3	UBP30_HUMAN	ubiquitin specific peptidase 30	248	Cytoplasmic (Potential).				ubiquitin-dependent protein catabolic process	integral to membrane|mitochondrial outer membrane	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(1)	1						TTTGATACCTTTGATAGCCTT	0.358													13	133					0	0	1	0	0		C	109519161	C	C	109519161	3	2	27	1	0	0	0	0	1	0	0	0	17087	1841	64	3	773	3	USP30	12	109519161	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	336580	109519161	24332734	5613	27964											
ACACB	32	broad.mit.edu	37	chr12	109625968	109625968	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccgggaagaggccatttcGtcagtatctccttccttcct	8	12	8	13	2	2	1	1	0	1	1	6	2	4	2	5	2	1	1	5	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:109625968G>A	uc001tob.2	+	13	2263	c.2144_splice	c.e13+1	p.S715_splice	ACACB_uc001toc.2_Splice_Site_p.S715_splice	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta						acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	AGGCCATTTCGTCAGTATCtc	0.308													10	48					0	0	1	0	0		A	109625968	A	A	109625968	5	1	27	1	0	0	0	0	0	0	1	0	107	1159	40	1	2191	1	ACACB	12	109625968	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	106807	109625968	24225927	5614	27965											
MYO1H	283446	broad.mit.edu	37	chr12	109845668	109845668	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaaaggctgtttatggaCgaacgtttacttggctggtc	8	13	13	7	2	0	0	0	0	0	0	1	2	0	1	0	5	2	5	0	5	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:109845668C>T	uc010sxn.1	+	9	1057	c.1057C>T	c.(1057-1059)CGA>TGA	p.R353*		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						TGTTTATGGACGAACGTTTAC	0.438													17	52					0	0	1	0	0		T	109845668	T	T	109845668	4	4	27	1	0	0	0	0	0	1	0	0	10093	528	19	1	1091	1	MYO1H	12	109845668	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	219700	109845668	24006227	5615	27966											
UBE3B	89910	broad.mit.edu	37	chr12	109945425	109945425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcatttatctgtgagctcGggccccacggagggttaaag	8	9	15	9	2	1	1	0	1	1	0	2	2	1	2	2	4	1	3	2	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:109945425G>A	uc001top.2	+	15	2110	c.1507G>A	c.(1507-1509)GGG>AGG	p.G503R	UBE3B_uc001toq.2_Missense_Mutation_p.G503R|UBE3B_uc001tos.2_5'Flank|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.G503R	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	503					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						CTGTGAGCTCGGGCCCCACGG	0.498													35	98					0	0	1	0	0		A	109945425	A	A	109945425	3	1	27	1	0	0	0	0	1	0	0	0	16906	1116	39	1	1557	1	UBE3B	12	109945425	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	99757	109945425	23906470	5616	27967											
GIT2	9815	broad.mit.edu	37	chr12	110427530	110427530	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattagctttacgtcttccActcataatagacgcagggtc	10	12	9	10	2	2	1	1	0	1	1	4	2	3	2	1	2	2	2	1	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:110427530A>G	uc001tps.2	-	3	429	c.264T>C	c.(262-264)AGT>AGC	p.S88S	GIT2_uc001tpq.2_Silent_p.S88S|GIT2_uc001tpv.2_Silent_p.S88S|GIT2_uc001tpu.2_Silent_p.S88S|GIT2_uc001tpt.2_Silent_p.S88S|GIT2_uc010sxu.1_Silent_p.S26S|GIT2_uc001tpw.2_Silent_p.S88S|GIT2_uc010sxv.1_Silent_p.S88S	NM_057169	NP_476510	Q14161	GIT2_HUMAN	G protein-coupled receptor kinase interacting	88	Arf-GAP.				regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	nucleoplasm	ARF GTPase activator activity|protein binding|zinc ion binding			central_nervous_system(1)	1						TACGTCTTCCACTCATAATAG	0.398													8	83					0	0	1	0	0		G	110427530	G	G	110427530	2	3	27	1	0	0	0	0	0	0	0	1	6412	156	6	3		3	GIT2	12	110427530	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	482105	110427530	23424365	5617	27968											
ANKRD13A	88455	broad.mit.edu	37	chr12	110456152	110456152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacacttctctcctccagtgCccttggtttctagaatatgc	7	15	6	13	0	2	1	0	0	2	1	5	1	4	1	3	1	3	1	3	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:110456152C>T	uc001tpx.2	+	5	662	c.403C>T	c.(403-405)CCC>TCC	p.P135S	ANKRD13A_uc009zvl.1_RNA|ANKRD13A_uc009zvm.1_Missense_Mutation_p.P135S|ANKRD13A_uc010sxw.1_Missense_Mutation_p.P135S	NM_033121	NP_149112	Q8IZ07	AN13A_HUMAN	ankyrin repeat domain 13	135											0						TCCTCCAGTGCCCTTGGTTTC	0.448													10	42					0	0	1	0	0		T	110456152	T	T	110456152	3	4	27	1	0	0	0	0	1	0	0	0	641	739	26	2	421	2	ANKRD13A	12	110456152	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	28622	110456152	23395743	5618	27969											
IFT81	28981	broad.mit.edu	37	chr12	110566827	110566827	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgctccactggcttcttcaGaggactaatgaactgaagaa	12	10	10	9	0	2	4	1	2	1	2	3	5	3	5	1	2	2	2	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:110566827G>A	uc001tqi.2	+	4	451	c.321G>A	c.(319-321)CAG>CAA	p.Q107Q	IFT81_uc001tqh.2_Silent_p.Q107Q|IFT81_uc001tqj.2_RNA|IFT81_uc001tqg.2_Silent_p.Q107Q	NM_001143779	NP_001137251	Q8WYA0	IFT81_HUMAN	intraflagellar transport 81-like isoform 1	107					cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1						GGCTTCTTCAGAGGACTAATG	0.398													4	59					0	0	1	0	0		A	110566827	A	A	110566827	2	1	27	1	0	0	0	0	0	0	0	1	7581	933	33	4		4	IFT81	12	110566827	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	110675	110566827	23285068	5619	27970											
HVCN1	84329	broad.mit.edu	37	chr12	111089064	111089064	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacagccggagcagaatcaGcaggcccagagcctcaaact	13	3	10	15	1	2	2	2	0	0	2	2	3	2	3	4	2	5	2	4	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:111089064G>A	uc001trs.1	-	6	766	c.601C>T	c.(601-603)CTG>TTG	p.L201L	HVCN1_uc001trq.1_Silent_p.L201L|HVCN1_uc001trt.1_Silent_p.L201L|HVCN1_uc010syd.1_Silent_p.L181L	NM_032369	NP_115745	Q96D96	HVCN1_HUMAN	hydrogen voltage-gated channel 1	201	Helical; Name=Segment S4; (By similarity).				response to pH|response to zinc ion	integral to membrane	voltage-gated proton channel activity			skin(1)	1						AGCAGAATCAGCAGGCCCAGA	0.587													7	45					0	0	1	0	0		A	111089064	A	A	111089064	2	1	27	1	0	0	0	0	0	0	0	1	7478	962	34	2		2	HVCN1	12	111089064	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	522237	111089064	22762831	5620	27971											
CCDC63	160762	broad.mit.edu	37	chr12	111317857	111317857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaagaaaaccatgaacttgGccattgagcaatcttctcag	15	9	8	9	0	2	4	1	2	2	2	3	4	2	4	2	1	3	1	2	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:111317857G>A	uc001trv.1	+	6	832	c.637G>A	c.(637-639)GCC>ACC	p.A213T	CCDC63_uc009zvt.1_Intron|CCDC63_uc010sye.1_Missense_Mutation_p.A173T|CCDC63_uc001trw.1_Missense_Mutation_p.A128T	NM_152591	NP_689804	Q8NA47	CCD63_HUMAN	coiled-coil domain containing 63	213										skin(6)|ovary(1)|pancreas(1)	8						CATGAACTTGGCCATTGAGCA	0.517													21	124					0	0	1	0	0		A	111317857	A	A	111317857	3	1	27	1	0	0	0	0	1	0	0	0	2837	1203	42	2	655	2	CCDC63	12	111317857	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	228793	111317857	22534038	5621	27972											
ATXN2	6311	broad.mit.edu	37	chr12	111956197	111956197	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccccaggatatgacttctcTatttctttgtccaggaggaa	9	14	8	10	0	2	1	0	1	2	0	5	4	4	4	3	3	0	0	3	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:111956197T>C	uc001tsj.2	-	9	1663	c.1501A>G	c.(1501-1503)AGA>GGA	p.R501G	ATXN2_uc001tsh.2_Missense_Mutation_p.R236G|ATXN2_uc001tsi.2_Missense_Mutation_p.R212G|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsm.1_Missense_Mutation_p.R236G	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	501					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						ATGACTTCTCTATTTCTTTGT	0.418													4	110					0	0	1	0	0		C	111956197	C	C	111956197	3	2	27	1	0	0	0	0	1	0	0	0	1212	1530	53	3	2508	3	ATXN2	12	111956197	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	638340	111956197	21895698	5622	27973											
C12orf51	283450	broad.mit.edu	37	chr12	112707608	112707608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcccgaccgtcgaatgatgtCtcgattcctttcagtttgtg	6	15	9	11	4	2	1	1	1	1	0	6	4	4	1	3	0	0	1	3	0	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:112707608C>T	uc009zwc.2	-	6	943	c.925G>A	c.(925-927)GAC>AAC	p.D309N	C12orf51_uc010syk.1_Missense_Mutation_p.D132N|C12orf51_uc001tts.2_Missense_Mutation_p.D132N|C12orf51_uc001ttt.3_Missense_Mutation_p.D132N	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CGAATGATGTCTCGATTCCTT	0.403													4	46					0	0	1	0	0		T	112707608	T	T	112707608	3	4	27	1	0	0	0	0	1	0	0	0	1699	913	32	4	11321	4	C12orf51	12	112707608	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	751411	112707608	21144287	5623	27974											
C12orf51	283450	broad.mit.edu	37	chr12	112708191	112708191	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttggtggcaagaagattgAgttggtgtatgcacatcgca	10	11	15	5	1	0	3	0	1	0	2	1	3	0	3	0	4	1	6	0	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:112708191A>T	uc009zwc.2	-	5	737	c.719T>A	c.(718-720)CTC>CAC	p.L240H	C12orf51_uc010syk.1_Missense_Mutation_p.L63H|C12orf51_uc001tts.2_Missense_Mutation_p.L63H|C12orf51_uc001ttt.3_Missense_Mutation_p.L63H	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						AAGAAGATTGAGTTGGTGTAT	0.423													27	288					0	0	1	0	0		T	112708191	T	T	112708191	3	4	27	1	0	0	0	0	1	0	0	0	1699	304	11	5	11531	5	C12orf51	12	112708191	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	583	112708191	21143704	5624	27975											
PTPN11	5781	broad.mit.edu	37	chr12	112891074	112891074	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaacatggtagttttctTgtacgagagagccagagcca	13	9	12	7	1	1	2	0	0	1	2	1	5	1	3	2	2	4	3	2	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:112891074T>C	uc001ttx.2	+	4	788	c.408T>C	c.(406-408)CTT>CTC	p.L136L	PTPN11_uc001ttw.1_Silent_p.L136L	NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	136	SH2 2.				axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding			haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						GTAGTTTTCTTGTACGAGAGA	0.408			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				6	138					0	0	1	0	0		C	112891074	C	C	112891074	2	2	27	1	0	0	0	0	0	0	0	1	12803	1799	63	3		3	PTPN11	12	112891074	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	182883	112891074	20960821	5625	27976											
RPH3A	22895	broad.mit.edu	37	chr12	113307841	113307841	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagactccagccggagcccaGcaggtgagcaagatgggcaa	12	3	15	11	1	0	3	0	1	0	2	1	5	1	4	3	3	4	3	3	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:113307841G>T	uc010syl.1	+	10	1155	c.793G>T	c.(793-795)GCA>TCA	p.A265S	RPH3A_uc001ttz.2_Missense_Mutation_p.A265S|RPH3A_uc001tty.2_Missense_Mutation_p.A261S|RPH3A_uc009zwe.1_Missense_Mutation_p.A261S|RPH3A_uc010sym.1_Missense_Mutation_p.A216S|RPH3A_uc001tua.2_Missense_Mutation_p.A25S	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	265	Pro-rich.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		CCGGAGCCCAGCAGGTGAGCA	0.507													7	30					2.7689e-08	3.04041e-08	1	1	0		T	113307841	T	T	113307841	3	4	27	1	0	0	0	0	1	0	0	0	13576	971	34	5	823	5	RPH3A	12	113307841	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	416767	113307841	20544054	5626	27977											
OAS3	4940	broad.mit.edu	37	chr12	113379524	113379524	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcatcgctggaatcctggtgGcagaacccagtccctggtct	7	9	12	13	1	1	1	0	0	1	1	4	2	3	2	3	4	1	3	3	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:113379524G>A	uc001tug.2	+	2	414	c.327G>A	c.(325-327)TGG>TGA	p.W109*	OAS3_uc001tue.2_Nonsense_Mutation_p.W109*|OAS3_uc001tuf.2_Nonsense_Mutation_p.W109*	NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	109	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						AATCCTGGTGGCAGAACCCAG	0.587													12	89					0	0	1	0	0		A	113379524	A	A	113379524	4	1	27	1	0	0	0	0	0	1	0	0	10820	1212	42	2	333	2	OAS3	12	113379524	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	71683	113379524	20472371	5627	27978											
DTX1	1840	broad.mit.edu	37	chr12	113496081	113496081	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtggcccgggtggtggtgtgGgagtggctgaatgagcacag	6	8	21	6	1	0	2	0	2	0	0	0	3	0	3	1	6	1	2	1	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:113496081G>A	uc001tuk.1	+	1	420	c.84G>A	c.(82-84)TGG>TGA	p.W28*		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	28	WWE 1.				negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						TGGTGGTGTGGGAGTGGCTGA	0.667													6	45					0	0	1	0	0		A	113496081	A	A	113496081	4	1	27	1	0	0	0	0	0	1	0	0	4799	1241	43	4	86	4	DTX1	12	113496081	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	116557	113496081	20355814	5628	27979											
DDX54	79039	broad.mit.edu	37	chr12	113603808	113603808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccacactctgtggcacccGacccagcatgccatccacac	10	5	6	20	1	1	0	0	0	1	0	2	1	2	0	5	1	2	2	5	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:113603808G>A	uc001tup.2	-	13	1472	c.1444C>T	c.(1444-1446)CGG>TGG	p.R482W	DDX54_uc001tuq.3_Missense_Mutation_p.R482W	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	482					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						TGTGGCACCCGACCCAGCATG	0.657													4	23					0	0	1	0	0		A	113603808	A	A	113603808	3	1	27	1	0	0	0	0	1	0	0	0	4375	1057	37	1	1236	1	DDX54	12	113603808	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	107727	113603808	20248087	5629	27980											
C12orf52	84934	broad.mit.edu	37	chr12	113629143	113629143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccacaccccgtcttactgtGatgagtcgctgtttggctcc	5	12	10	14	2	1	2	0	2	1	0	3	2	2	2	4	1	1	3	4	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:113629143G>A	uc001tur.1	+	4	799	c.331G>A	c.(331-333)GAT>AAT	p.D111N	C12orf52_uc009zwg.1_Missense_Mutation_p.D108N|C12orf52_uc001tus.1_Missense_Mutation_p.D111N|C12orf52_uc001tut.1_Missense_Mutation_p.D135N	NM_032848	NP_116237	Q96K30	RITA_HUMAN	hypothetical protein LOC84934	111					negative regulation of Notch signaling pathway|negative regulation of transcription from RNA polymerase II promoter|neurogenesis|Notch signaling pathway|nuclear export	centrosome|nucleus	tubulin binding				0						GTCTTACTGTGATGAGTCGCT	0.592													7	57					0	0	1	0	0		A	113629143	A	A	113629143	3	1	27	1	0	0	0	0	1	0	0	0	1700	1290	45	4	337	4	C12orf52	12	113629143	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	25335	113629143	20222752	5630	27981											
IQCD	115811	broad.mit.edu	37	chr12	113633490	113633490	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcagggagcgcaccagatAgcccttccatagggcctgga	10	5	14	12	1	0	1	0	0	0	1	1	4	1	3	4	3	3	2	4	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:113633490A>G	uc001tuu.2	-	3	1106	c.934T>C	c.(934-936)TAT>CAT	p.Y312H		NM_138451	NP_612460	Q96DY2	IQCD_HUMAN	IQ motif containing D	Error:Variant_position_missing_in_Q96DY2_after_alignment										ovary(1)	1						CGCACCAGATAGCCCTTCCAT	0.383													11	94					0	0	1	0	0		G	113633490	G	G	113633490	3	3	27	1	0	0	0	0	1	0	0	0	7821	420	15	3	113	3	IQCD	12	113633490	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4347	113633490	20218405	5631	27982											
SDSL	113675	broad.mit.edu	37	chr12	113874657	113874657	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggaggacaccgaggctgTgagcgctgtgcagcagctcc	7	6	17	11	2	0	1	0	1	0	0	1	4	1	3	2	4	4	5	2	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:113874657T>C	uc001tvi.2	+	8	983	c.773T>C	c.(772-774)GTG>GCG	p.V258A	SDSL_uc009zwh.2_Missense_Mutation_p.V258A	NM_138432	NP_612441	Q96GA7	SDSL_HUMAN	serine dehydratase-like	258					cellular amino acid metabolic process		L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	ACCGAGGCTGTGAGCGCTGTG	0.602													3	47					0	0	1	0	0		C	113874657	C	C	113874657	3	2	27	1	0	0	0	0	1	0	0	0	14001	1696	59	3	795	3	SDSL	12	113874657	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	241167	113874657	19977238	5632	27983											
LHX5	64211	broad.mit.edu	37	chr12	113906051	113906051	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgcttggccttgatggTggtgcgggggccgcgccgct	2	9	18	12	4	0	1	0	1	0	0	0	1	0	1	3	5	3	3	3	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:113906051T>C	uc001tvj.1	-	3	1130	c.556A>G	c.(556-558)ACC>GCC	p.T186A		NM_022363	NP_071758	Q9H2C1	LHX5_HUMAN	LIM homeobox protein 5	186	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCCTTGATGGTGGTGCGGGGG	0.677													4	46					0	0	1	0	0		C	113906051	C	C	113906051	3	2	27	1	0	0	0	0	1	0	0	0	8790	1696	59	3	664	3	LHX5	12	113906051	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31394	113906051	19945844	5633	27984											
RBM19	9904	broad.mit.edu	37	chr12	114364873	114364873	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacttccttcagcttctCttctgttgtgtcaaaattga	8	17	5	11	0	5	1	3	1	2	0	7	1	6	1	1	0	1	2	1	0	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:114364873C>A	uc009zwi.2	-	17	2374	c.2230G>T	c.(2230-2232)GAG>TAG	p.E744*	RBM19_uc001tvn.3_Nonsense_Mutation_p.E744*|RBM19_uc001tvm.2_Nonsense_Mutation_p.E744*	NM_001146699	NP_001140171	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	744	RRM 5.				multicellular organismal development|positive regulation of embryonic development	chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|RNA binding			skin(3)|ovary(1)|liver(1)|central_nervous_system(1)	6	Medulloblastoma(191;0.163)|all_neural(191;0.178)					TTCAGCTTCTCTTCTGTTGTG	0.408													6	68					0.217242	0.218248	1	1	0		A	114364873	A	A	114364873	4	1	27	1	0	0	0	0	0	1	0	0	13146	922	32	5	684	5	RBM19	12	114364873	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	458822	114364873	19487022	5634	27985											
RBM19	9904	broad.mit.edu	37	chr12	114377843	114377843	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatggcagtgattccgccCtctggcagcagcacgcggcc	7	6	13	15	4	1	1	0	1	1	0	2	2	2	1	3	3	2	4	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:114377843C>A	uc009zwi.2	-	15	2004	c.1860G>T	c.(1858-1860)GAG>GAT	p.E620D	RBM19_uc001tvn.3_Missense_Mutation_p.E620D|RBM19_uc001tvm.2_Missense_Mutation_p.E620D	NM_001146699	NP_001140171	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	620	RRM 4.				multicellular organismal development|positive regulation of embryonic development	chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|RNA binding			skin(3)|ovary(1)|liver(1)|central_nervous_system(1)	6	Medulloblastoma(191;0.163)|all_neural(191;0.178)					TGATTCCGCCCTCTGGCAGCA	0.647													9	96					0.00448238	0.00462772	1	1	0		A	114377843	A	A	114377843	3	1	27	1	0	0	0	0	1	0	0	0	13146	680	24	5	1062	5	RBM19	12	114377843	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12970	114377843	19474052	5635	27986											
RBM19	9904	broad.mit.edu	37	chr12	114397977	114397977	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccccgaatgacttgcagaActccacctgtgtgggaaaga	11	8	11	11	1	0	3	0	1	0	2	2	5	2	4	4	1	2	1	4	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:114397977A>G	uc009zwi.2	-	3	370	c.226T>C	c.(226-228)TTC>CTC	p.F76L	RBM19_uc001tvn.3_Missense_Mutation_p.F76L|RBM19_uc001tvm.2_Missense_Mutation_p.F76L	NM_001146699	NP_001140171	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	76	RRM 1.				multicellular organismal development|positive regulation of embryonic development	chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|RNA binding			skin(3)|ovary(1)|liver(1)|central_nervous_system(1)	6	Medulloblastoma(191;0.163)|all_neural(191;0.178)					GACTTGCAGAACTCCACCTGT	0.577													5	45					0	0	1	0	0		G	114397977	G	G	114397977	3	3	27	1	0	0	0	0	1	0	0	0	13146	43	2	3	2744	3	RBM19	12	114397977	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20134	114397977	19453918	5636	27987											
TBX5	6910	broad.mit.edu	37	chr12	114837433	114837433	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttgtaactgggaaacaTccgcctaagagagagggacg	13	7	12	9	2	0	2	0	0	0	2	1	5	1	4	2	2	2	1	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:114837433T>A	uc001tvo.2	-	4	742	c.247A>T	c.(247-249)ATG>TTG	p.M83L	TBX5_uc001tvp.2_Missense_Mutation_p.M83L|TBX5_uc001tvq.2_Missense_Mutation_p.M33L|TBX5_uc010syv.1_Missense_Mutation_p.M83L	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	83	T-box.				cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		CTGGGAAACATCCGCCTAAGA	0.473													6	131					0	0	1	0	0		A	114837433	A	A	114837433	3	1	27	1	0	0	0	0	1	0	0	0	15686	1435	50	5	1400	5	TBX5	12	114837433	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	439456	114837433	19014462	5637	27988											
MED13L	23389	broad.mit.edu	37	chr12	116445236	116445236	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttattctttttcagggaatCtttctccgtcccttgtttgc	4	20	6	11	1	4	0	1	0	3	0	6	1	5	1	2	1	1	1	2	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:116445236C>A	uc001tvw.2	-	11	2273	c.2218G>T	c.(2218-2220)GAT>TAT	p.D740Y		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	740					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		TTCAGGGAATCTTTCTCCGTC	0.403													6	117					0.00198382	0.00205548	1	1	0		A	116445236	A	A	116445236	3	1	27	1	0	0	0	0	1	0	0	0	9449	913	32	5	4498	5	MED13L	12	116445236	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1607803	116445236	17406659	5638	27989											
MED13L	23389	broad.mit.edu	37	chr12	116446399	116446399	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgacctctgccatgagagGcagtctttggcctacgagga	8	9	13	11	1	2	2	0	2	2	1	2	5	2	3	3	3	2	2	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:116446399G>T	uc001tvw.2	-	10	1874	c.1819C>A	c.(1819-1821)CCT>ACT	p.P607T		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	607					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		GCCATGAGAGGCAGTCTTTGG	0.517													4	39					1	1	1	1	0		T	116446399	T	T	116446399	3	4	27	1	0	0	0	0	1	0	0	0	9449	1203	42	5	4901	5	MED13L	12	116446399	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1163	116446399	17405496	5639	27990											
C12orf49	79794	broad.mit.edu	37	chr12	117160913	117160913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcccttgaatggagttgCggcactgattgctcggacga	7	11	13	10	3	0	2	0	2	0	0	2	5	1	4	1	3	2	4	1	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:117160913C>T	uc001tvz.1	-	2	365	c.227G>A	c.(226-228)CGC>CAC	p.R76H	C12orf49_uc009zwm.1_Intron	NM_024738	NP_079014	Q9H741	CL049_HUMAN	hypothetical protein LOC79794 precursor	76						extracellular region				ovary(1)	1	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0281)		AATGGAGTTGCGGCACTGATT	0.547													6	30					0	0	1	0	0		T	117160913	T	T	117160913	3	4	27	1	0	0	0	0	1	0	0	0	1696	768	27	1	406	1	C12orf49	12	117160913	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	714514	117160913	16690982	5640	27991											
FBXW8	26259	broad.mit.edu	37	chr12	117365830	117365830	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttttttcccctcagaaTgaaatgaatgatgtgccttt	9	19	6	7	0	1	4	1	3	0	1	2	4	2	4	3	0	1	0	3	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:117365830T>C	uc001twg.1	+	2	403	c.321T>C	c.(319-321)AAT>AAC	p.N107N	FBXW8_uc001twf.1_Silent_p.N41N|FBXW8_uc009zwp.1_RNA	NM_153348	NP_699179	Q8N3Y1	FBXW8_HUMAN	F-box and WD repeat domain containing 8 isoform	107							protein binding			ovary(2)|pancreas(1)	3	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)		CCCCTCAGAATGAAATGAATG	0.333													4	52					0	0	1	0	0		C	117365830	C	C	117365830	2	2	27	1	0	0	0	0	0	0	0	1	5784	1461	51	3		3	FBXW8	12	117365830	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	204917	117365830	16486065	5641	27992											
FBXO21	23014	broad.mit.edu	37	chr12	117615411	117615411	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgccgcaggtagtaaagaAttttttttgcgtagtatttc	9	17	10	5	2	0	1	0	0	0	1	1	1	0	1	1	1	2	6	1	1	6	10	rs34443379		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:117615411A>T	uc001twk.2	-	4	545	c.506T>A	c.(505-507)ATT>AAT	p.I169N	FBXO21_uc001twj.2_Missense_Mutation_p.I169N|FBXO21_uc009zwq.2_Missense_Mutation_p.I169N	NM_033624	NP_296373	O94952	FBX21_HUMAN	F-box only protein 21 isoform 1	169					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			kidney(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		GTAGTAAAGAATTTTTTTTGC	0.353													8	83					0	0	1	0	0		T	117615411	T	T	117615411	3	4	27	1	0	0	0	0	1	0	0	0	5747	101	4	5	1416	5	FBXO21	12	117615411	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	249581	117615411	16236484	5642	27993											
KSR2	283455	broad.mit.edu	37	chr12	117962760	117962760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catcacctcccgcttgaaggCcttgagctggtcctcgttgt	5	12	10	14	2	1	2	1	2	0	0	4	2	3	2	4	2	1	3	4	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:117962760C>T	uc001two.2	-	14	2084	c.2029G>A	c.(2029-2031)GCC>ACC	p.A677T		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	706	Protein kinase.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CGCTTGAAGGCCTTGAGCTGG	0.607													4	26					0	0	1	0	0		T	117962760	T	T	117962760	3	4	27	1	0	0	0	0	1	0	0	0	8598	739	26	2	764	2	KSR2	12	117962760	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	347349	117962760	15889135	5643	27994											
WSB2	55884	broad.mit.edu	37	chr12	118473035	118473035	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctgtcatctgccaccgTggcaaggtacaagccttctg	8	11	9	13	1	3	0	1	0	2	0	3	0	3	0	4	2	4	2	4	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:118473035T>C	uc001twr.2	-	7	1026	c.928A>G	c.(928-930)ACG>GCG	p.T310A	WSB2_uc010sza.1_Missense_Mutation_p.T85A|WSB2_uc010szb.1_Missense_Mutation_p.T100A|WSB2_uc009zws.1_Missense_Mutation_p.T310A	NM_018639	NP_061109	Q9NYS7	WSB2_HUMAN	WD SOCS-box protein 2	310	WD 5.				intracellular signal transduction					ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCTGCCACCGTGGCAAGGTAC	0.547											OREG0022175	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	94					0	0	1	0	0		C	118473035	C	C	118473035	3	2	27	1	0	0	0	0	1	0	0	0	17431	1696	59	3	298	3	WSB2	12	118473035	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	510275	118473035	15378860	5644	27995											
TAOK3	51347	broad.mit.edu	37	chr12	118599655	118599655	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgcagttctctttctcGcctcttattgtactccagct	4	18	6	13	1	4	0	0	0	4	0	7	0	5	0	2	0	3	4	2	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:118599655G>A	uc001twx.2	-	18	2372	c.2077C>T	c.(2077-2079)CGA>TGA	p.R693*	TAOK3_uc001twv.2_Nonsense_Mutation_p.R233*|TAOK3_uc001tww.2_Nonsense_Mutation_p.R523*|TAOK3_uc001twy.3_Nonsense_Mutation_p.R693*	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	693					MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCTCTTTCTCGCCTCTTATTG	0.473													24	166					0	0	1	0	0		A	118599655	A	A	118599655	4	1	27	1	0	0	0	0	0	1	0	0	15574	1095	38	1	635	1	TAOK3	12	118599655	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	126620	118599655	15252240	5645	27996											
TAOK3	51347	broad.mit.edu	37	chr12	118619246	118619246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacgagttgttggcatgcGtctccacctccttctgtagc	5	13	11	12	2	2	0	0	0	2	0	4	2	3	1	3	2	2	4	3	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:118619246G>A	uc001twx.2	-	15	1791	c.1496C>T	c.(1495-1497)ACG>ATG	p.T499M	TAOK3_uc001twv.2_Missense_Mutation_p.T39M|TAOK3_uc001tww.2_Missense_Mutation_p.T329M|TAOK3_uc001twy.3_Missense_Mutation_p.T499M	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	499	Potential.				MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GTTGGCATGCGTCTCCACCTC	0.567											OREG0022177	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	94					0	0	1	0	0		A	118619246	A	A	118619246	3	1	27	1	0	0	0	0	1	0	0	0	15574	1145	40	1	1228	1	TAOK3	12	118619246	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19591	118619246	15232649	5646	27997											
TAOK3	51347	broad.mit.edu	37	chr12	118671500	118671500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caattcaatacaagtgatgcCaagtgaccaaatatcaactt	17	10	5	9	0	2	2	2	2	0	0	2	2	2	2	2	0	3	0	2	0	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:118671500C>T	uc001twx.2	-	9	917	c.622G>A	c.(622-624)GGC>AGC	p.G208S	TAOK3_uc001tww.2_Missense_Mutation_p.G38S|TAOK3_uc001twy.3_Missense_Mutation_p.G208S	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	208	Protein kinase.				MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CAAGTGATGCCAAGTGACCAA	0.323													3	75					0	0	1	0	0		T	118671500	T	T	118671500	3	4	27	1	0	0	0	0	1	0	0	0	15574	594	21	4	2126	4	TAOK3	12	118671500	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	52254	118671500	15180395	5647	27998											
SRRM4	84530	broad.mit.edu	37	chr12	119419782	119419782	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccccgtcccgagagcatcaTtgtcgccagtatcacggccc	7	7	9	18	4	2	1	2	0	0	1	4	2	3	1	5	1	1	2	5	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:119419782T>A	uc001txa.1	+	1	387	c.95T>A	c.(94-96)ATT>AAT	p.I32N		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	32					cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						GAGAGCATCATTGTCGCCAGT	0.587													3	13					0	0	1	0	0		A	119419782	A	A	119419782	3	1	27	1	0	0	0	0	1	0	0	0	15196	1493	52	5	97	5	SRRM4	12	119419782	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	748282	119419782	14432113	5648	27999											
SRRM4	84530	broad.mit.edu	37	chr12	119568536	119568536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgccgaaggcactcccGccgctgctccaagaccctct	6	6	9	20	4	1	1	0	0	1	1	4	2	4	1	6	1	1	3	6	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:119568536G>A	uc001txa.1	+	8	960	c.668G>A	c.(667-669)CGC>CAC	p.R223H		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	223	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						AGGCACTCCCGCCGCTGCTCC	0.667													6	19					0	0	1	0	0		A	119568536	A	A	119568536	3	1	27	1	0	0	0	0	1	0	0	0	15196	1087	38	1	698	1	SRRM4	12	119568536	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	148754	119568536	14283359	5649	28000											
HSPB8	26353	broad.mit.edu	37	chr12	119631646	119631646	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcttccccaggacagccagGaagtcacctgtacctgagat	11	7	10	13	0	1	1	1	1	0	1	2	4	2	3	5	2	3	2	5	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:119631646G>A	uc001txb.2	+	3	1097	c.574G>A	c.(574-576)GAA>AAA	p.E192K	HSPB8_uc001txc.2_3'UTR	NM_014365	NP_055180	Q9UJY1	HSPB8_HUMAN	heat shock 22kDa protein 8	192					cell death|response to heat	cytoplasm|nucleus	identical protein binding|protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GGACAGCCAGGAAGTCACCTG	0.517													8	70					0	0	1	0	0		A	119631646	A	A	119631646	3	1	27	1	0	0	0	0	1	0	0	0	7439	1175	41	4	584	4	HSPB8	12	119631646	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	63110	119631646	14220249	5650	28001											
CCDC60	160777	broad.mit.edu	37	chr12	119909923	119909923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggaaagaaataaattccagCcagccgaaaagatctcagaa	20	5	8	8	1	1	3	1	0	1	3	3	5	2	4	3	1	2	0	3	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:119909923C>T	uc001txe.2	+	3	760	c.295C>T	c.(295-297)CCA>TCA	p.P99S	uc001txf.2_Intron	NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60	99										ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		TAAATTCCAGCCAGCCGAAAA	0.433													19	236					0	0	1	0	0		T	119909923	T	T	119909923	3	4	27	1	0	0	0	0	1	0	0	0	2834	739	26	2	305	2	CCDC60	12	119909923	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	278277	119909923	13941972	5651	28002											
CIT	11113	broad.mit.edu	37	chr12	120295414	120295414	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttaccacctgcacttcAgcaaagtgaccacaacctac	12	9	4	16	0	2	1	1	1	1	0	3	1	2	1	4	0	5	2	4	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:120295414A>G	uc001txi.1	-	4	380	c.327T>C	c.(325-327)GCT>GCC	p.A109A	CIT_uc001txj.1_Silent_p.A109A	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	109	ATP (By similarity).|Protein kinase.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		CCTGCACTTCAGCAAAGTGAC	0.478													18	214					0	0	1	0	0		G	120295414	G	G	120295414	2	3	27	1	0	0	0	0	0	0	0	1	3441	175	7	3		3	CIT	12	120295414	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	385491	120295414	13556481	5652	28003											
GCN1L1	10985	broad.mit.edu	37	chr12	120591161	120591161	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagctggcatcattgggCgcgttcttcaggaactcctc	7	12	10	12	2	4	0	3	0	1	0	6	1	5	1	1	3	2	3	1	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:120591161C>T	uc001txo.2	-	33	3931	c.3918G>A	c.(3916-3918)GCG>GCA	p.A1306A		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	1306	HEAT 5.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CATCATTGGGCGCGTTCTTCA	0.562													10	41					0	0	1	0	0		T	120591161	T	T	120591161	2	4	27	1	0	0	0	0	0	0	0	1	6314	755	27	1		1	GCN1L1	12	120591161	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	295747	120591161	13260734	5653	28004											
RPLP0	6175	broad.mit.edu	37	chr12	120637168	120637168	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggccttgcgcatcatggTgttcttgcccatcagcacca	7	11	10	13	1	3	0	2	0	1	0	3	1	3	0	3	2	3	3	3	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:120637168T>C	uc001txp.2	-	3	412	c.175A>G	c.(175-177)ACC>GCC	p.T59A	RPLP0_uc001txq.2_Missense_Mutation_p.T59A|RPLP0_uc001txr.2_Missense_Mutation_p.T59A|uc001txs.1_5'Flank	NM_053275	NP_444505	P05388	RLA0_HUMAN	ribosomal protein P0	59					endocrine pancreas development|interspecies interaction between organisms|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleus	protein binding|RNA binding|structural constituent of ribosome			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CGCATCATGGTGTTCTTGCCC	0.562													8	91					0	0	1	0	0		C	120637168	C	C	120637168	3	2	27	1	0	0	0	0	1	0	0	0	13629	1696	59	3	802	3	RPLP0	12	120637168	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	46007	120637168	13214727	5654	28005											
MSI1	4440	broad.mit.edu	37	chr12	120783402	120783402	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtcccctgcttcagtggtAcccattggtgaaggctgtgg	5	11	13	12	1	1	1	1	1	0	0	2	1	2	1	4	4	2	3	4	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:120783402A>G	uc001tye.1	-	14	1145	c.1081T>C	c.(1081-1083)TAC>CAC	p.Y361H		NM_002442	NP_002433	O43347	MSI1H_HUMAN	musashi 1	361					nervous system development	cytoplasm|nucleus	nucleotide binding			central_nervous_system(2)|breast(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTTCAGTGGTACCCATTGGTG	0.572													9	119					0	0	1	0	0		G	120783402	G	G	120783402	3	3	27	1	0	0	0	0	1	0	0	0	9893	391	14	3	11	3	MSI1	12	120783402	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	146234	120783402	13068493	5655	28006											
SFRS9	8683	broad.mit.edu	37	chr12	120907233	120907233	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggggcctcaccgggggtcCtcgaagcgcacgaaggcgaa	8	3	17	13	6	1	0	1	0	0	0	3	3	2	0	3	5	1	1	3	5	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:120907233C>A	uc001tyi.2	-	1	326	c.180G>T	c.(178-180)GAG>GAT	p.E60D	SFRS9_uc009zwy.2_Missense_Mutation_p.E60D|DYNLL1_uc001tyj.2_5'Flank	NM_003769	NP_003760	Q13242	SRSF9_HUMAN	splicing factor, arginine/serine-rich 9	60	RRM 1.				mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|RNA binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ACCGGGGGTCCTCGAAGCGCA	0.363													5	58					0.000602214	0.000630257	1	1	0		A	120907233	A	A	120907233	3	1	27	1	0	0	0	0	1	0	0	0	14209	680	24	5	501	5	SFRS9	12	120907233	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	123831	120907233	12944662	5656	28007											
SPPL3	121665	broad.mit.edu	37	chr12	121206174	121206174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacaggcgaggaacatcacGcccaacattgggccccaggt	12	4	12	13	2	1	1	1	0	0	1	1	3	1	2	3	4	2	0	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:121206174G>A	uc001tzd.2	-	8	1208	c.727C>T	c.(727-729)CGT>TGT	p.R243C	SPPL3_uc009zwz.2_Missense_Mutation_p.R236C|SPPL3_uc001tzc.2_Missense_Mutation_p.R73C	NM_139015	NP_620584	Q8TCT6	PSL4_HUMAN	signal peptide peptidase 3	244						integral to membrane	aspartic-type endopeptidase activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GGAACATCACGCCCAACATTG	0.547													32	96					0	0	1	0	0		A	121206174	A	A	121206174	3	1	27	1	0	0	0	0	1	0	0	0	15115	1087	38	1	443	1	SPPL3	12	121206174	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	298941	121206174	12645721	5657	28008											
P2RX4	5025	broad.mit.edu	37	chr12	121660770	121660770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtctcaacaggcaggtgcGtagctttcaacgggtctgtc	8	10	13	10	2	3	0	2	0	2	0	5	1	3	0	0	3	4	3	0	3	3	2	rs145814749	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:121660770G>A	uc001tzr.2	+	5	752	c.448G>A	c.(448-450)GTA>ATA	p.V150I	P2RX4_uc010szr.1_Intron|P2RX4_uc010szs.1_Intron|P2RX4_uc009zxc.2_Intron|P2RX4_uc001tzs.2_Missense_Mutation_p.V166I|P2RX4_uc009zxb.2_RNA|P2RX4_uc010szt.1_Missense_Mutation_p.V49I	NM_002560	NP_002551	Q99571	P2RX4_HUMAN	purinergic receptor P2X4	150	Extracellular (Potential).				endothelial cell activation|negative regulation of cardiac muscle hypertrophy|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|regulation of apoptosis|regulation of blood pressure|regulation of sodium ion transport|relaxation of cardiac muscle|response to ATP|response to fluid shear stress|sensory perception of pain|tissue homeostasis	cell junction|perinuclear region of cytoplasm	cadherin binding|copper ion binding|extracellular ATP-gated cation channel activity|protein homodimerization activity|purinergic nucleotide receptor activity|receptor binding|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					AGGCAGGTGCGTAGCTTTCAA	0.577													5	21					0	0	1	0	0		A	121660770	A	A	121660770	3	1	27	1	0	0	0	0	1	0	0	0	11361	1145	40	1	466	1	P2RX4	12	121660770	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	454596	121660770	12191125	5658	28009											
KDM2B	84678	broad.mit.edu	37	chr12	122016814	122016814	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctccacgtccgacaagTcctcgttctcgtcgtatcgc	5	12	7	17	6	2	0	0	0	2	0	10	1	5	0	4	0	0	2	4	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:122016814T>C	uc001uat.2	-	2	268	c.164A>G	c.(163-165)GAC>GGC	p.D55G	KDM2B_uc001uas.2_Missense_Mutation_p.D24G|KDM2B_uc001uau.2_5'UTR|KDM2B_uc001uav.3_Missense_Mutation_p.D55G	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	55					embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						GTCCGACAAGTCCTCGTTCTC	0.632													11	81					0	0	1	0	0		C	122016814	C	C	122016814	3	2	27	1	0	0	0	0	1	0	0	0	8141	1667	58	3	3986	3	KDM2B	12	122016814	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	356044	122016814	11835081	5659	28010											
TMEM120B	144404	broad.mit.edu	37	chr12	122213555	122213555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttcctcatcctcttcctcgGcaacttcctgaccacgctca	6	12	4	19	2	3	1	2	1	1	0	8	1	7	1	5	1	1	2	5	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:122213555G>A	uc001ubc.3	+	12	1091	c.947G>A	c.(946-948)GGC>GAC	p.G316D	TMEM120B_uc009zxh.2_3'UTR|TMEM120B_uc001uba.1_5'Flank	NM_001080825	NP_001074294	A0PK00	T120B_HUMAN	transmembrane protein 120B	316	Helical; (Potential).					integral to membrane					0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;5.75e-05)|Epithelial(86;0.000128)|BRCA - Breast invasive adenocarcinoma(302;0.238)		CTCTTCCTCGGCAACTTCCTG	0.632											OREG0022207	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	98					0	0	1	0	0		A	122213555	A	A	122213555	3	1	27	1	0	0	0	0	1	0	0	0	16059	1203	42	2	993	2	TMEM120B	12	122213555	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	196741	122213555	11638340	5660	28011											
RHOF	54509	broad.mit.edu	37	chr12	122217484	122217484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccaccttggcggcctcccGgaagacgtcctccacattct	7	8	9	17	3	1	1	0	0	1	1	4	2	4	2	6	3	1	0	6	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:122217484G>A	uc001ubb.2	-	5	611	c.556C>T	c.(556-558)CGG>TGG	p.R186W	TMEM120B_uc001ubc.3_3'UTR|TMEM120B_uc009zxh.2_3'UTR|TMEM120B_uc001uba.1_RNA	NM_019034	NP_061907	Q9HBH0	RHOF_HUMAN	ras homolog gene family, member F precursor	186					actin filament organization|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity			ovary(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;4.38e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.223)		GCGGCCTCCCGGAAGACGTCC	0.637													17	69					0	0	1	0	0		A	122217484	A	A	122217484	3	1	27	1	0	0	0	0	1	0	0	0	13363	1115	39	1	83	1	RHOF	12	122217484	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3929	122217484	11634411	5661	28012											
MLXIP	22877	broad.mit.edu	37	chr12	122625562	122625562	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggtgtccaccagcagccTggaggagctgcaccggacgg	8	5	15	13	2	0	0	0	0	0	0	1	3	1	3	4	5	4	3	4	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:122625562T>C	uc001ubq.2	+	16	2570	c.2570T>C	c.(2569-2571)CTG>CCG	p.L857P	MLXIP_uc001ubt.2_Missense_Mutation_p.L464P	NM_014938	NP_055753	Q9HAP2	MLXIP_HUMAN	MLX interacting protein	857	Mediates heterotypic interactions between MLXIP and MLX and is required for cytoplasmic localization.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)		ACCAGCAGCCTGGAGGAGCTG	0.617													19	59					0	0	1	0	0		C	122625562	C	C	122625562	3	2	27	1	0	0	0	0	1	0	0	0	9654	1580	55	3	2632	3	MLXIP	12	122625562	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	408078	122625562	11226333	5662	28013											
IL31	386653	broad.mit.edu	37	chr12	122657248	122657248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggctgagacacggcagcGtgtaattctgggacacgagc	10	6	15	10	3	1	1	0	1	1	1	1	4	1	2	0	3	2	3	0	3	1	2	rs138591343	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:122657248G>A	uc001ubv.2	-	3	233	c.206C>T	c.(205-207)ACG>ATG	p.T69M	LRRC43_uc001ubw.3_Intron|LRRC43_uc009zxl.1_Intron	NM_001014336	NP_001014358	Q6EBC2	IL31_HUMAN	interleukin 31 precursor	69						extracellular space	cytokine activity			central_nervous_system(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;6.93e-05)|Breast(359;0.0544)		OV - Ovarian serous cystadenocarcinoma(86;3.27e-29)|Epithelial(86;4.86e-27)|BRCA - Breast invasive adenocarcinoma(302;0.223)		ACACGGCAGCGTGTAATTCTG	0.527													8	26					0	0	1	0	0		A	122657248	A	A	122657248	3	1	27	1	0	0	0	0	1	0	0	0	7706	1145	40	1	292	1	IL31	12	122657248	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31686	122657248	11194647	5663	28014											
VPS33A	65082	broad.mit.edu	37	chr12	122720408	122720408	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtttctgccccccgtctgCggtttcagcaggccggcctt	2	13	11	15	3	3	0	1	0	2	0	3	0	3	0	5	3	3	3	5	3	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:122720408C>T	uc001ucd.2	-	11	1478	c.1365G>A	c.(1363-1365)CCG>CCA	p.P455P	VPS33A_uc001ucc.2_RNA	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	455					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		CCCCCGTCTGCGGTTTCAGCA	0.498													29	209					0	0	1	0	0		T	122720408	T	T	122720408	2	4	27	1	0	0	0	0	0	0	0	1	17227	755	27	1		1	VPS33A	12	122720408	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	63160	122720408	11131487	5664	28015											
CLIP1	6249	broad.mit.edu	37	chr12	122825857	122825857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcgcctgctggtgggatgCgatggcagtctccagtttgg	5	11	15	10	2	1	0	0	0	1	0	3	2	1	1	2	4	2	3	2	4	0	1	rs151267608		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:122825857C>T	uc001ucg.1	-	10	2000	c.1894G>A	c.(1894-1896)GCA>ACA	p.A632T	CLIP1_uc001uch.1_Missense_Mutation_p.A621T|CLIP1_uc001uci.1_Missense_Mutation_p.A586T|CLIP1_uc001ucj.1_Missense_Mutation_p.A322T|CLIP1_uc009zxo.1_Missense_Mutation_p.A188T	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	632	Potential.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		TGGTGGGATGCGATGGCAGTC	0.453													6	160					0	0	1	0	0		T	122825857	T	T	122825857	3	4	27	1	0	0	0	0	1	0	0	0	3535	768	27	1	2486	1	CLIP1	12	122825857	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	105449	122825857	11026038	5665	28016											
GPR81	27198	broad.mit.edu	37	chr12	123214131	123214131	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccatggacagagggatcGcaggcactcgagggcaccgt	9	4	15	13	3	0	1	0	0	0	1	2	4	0	3	3	4	0	3	3	4	0	0	rs146760413		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:123214131G>A	uc001ucz.2	-	1	999	c.756C>T	c.(754-756)TGC>TGT	p.C252C	GPR81_uc001ucw.1_RNA	NM_032554	NP_115943	Q9BXC0	HCAR1_HUMAN	G protein-coupled receptor 81	252	Extracellular (Potential).				response to estradiol stimulus	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.14e-05)|Epithelial(86;3.25e-05)|BRCA - Breast invasive adenocarcinoma(302;0.197)		CAGAGGGATCGCAGGCACTCG	0.542													7	90					0	0	1	0	0		A	123214131	A	A	123214131	2	1	27	1	0	0	0	0	0	0	0	1	6726	1079	38	1		1	GPR81	12	123214131	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	388274	123214131	10637764	5666	28017											
CCDC62	84660	broad.mit.edu	37	chr12	123265820	123265820	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccaaaagacccaactacaGcttcaggaaatggctcaaaa	17	6	6	12	0	2	1	2	0	0	1	3	2	3	2	2	2	3	2	2	2	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:123265820G>T	uc001udc.2	+	3	484	c.339G>T	c.(337-339)CAG>CAT	p.Q113H	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Missense_Mutation_p.Q113H|CCDC62_uc001ude.2_Missense_Mutation_p.A12S	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	113	Potential.					cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		CCCAACTACAGCTTCAGGAAA	0.403													20	81					1.50039e-11	1.66358e-11	1	1	0		T	123265820	T	T	123265820	3	4	27	1	0	0	0	0	1	0	0	0	2836	962	34	5	349	5	CCDC62	12	123265820	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	51689	123265820	10586075	5667	28018											
CCDC62	84660	broad.mit.edu	37	chr12	123285971	123285971	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacccgaaaacaaaattacAttgtgcaagatccacacaaa	20	6	5	10	1	0	1	0	0	0	1	1	3	1	1	2	0	4	1	2	0	8	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:123285971A>G	uc001udc.2	+	9	1423	c.1278A>G	c.(1276-1278)ACA>ACG	p.T426T	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Silent_p.T426T|CCDC62_uc001ude.2_Silent_p.T187T	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	426						cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		ACAAAATTACATTGTGCAAGA	0.428													6	40					0	0	1	0	0		G	123285971	G	G	123285971	2	3	27	1	0	0	0	0	0	0	0	1	2836	204	8	3		3	CCDC62	12	123285971	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20151	123285971	10565924	5668	28019											
CCDC62	84660	broad.mit.edu	37	chr12	123297963	123297963	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctcactggcagtgccacAaatgtatgcgtttcattttc	10	14	7	10	1	2	0	2	0	1	0	4	0	2	0	1	1	2	3	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:123297963A>G	uc001udc.2	+	11	2143	c.1998A>G	c.(1996-1998)ACA>ACG	p.T666T	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Silent_p.T666T|CCDC62_uc001ude.2_Silent_p.T427T	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	666						cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		GCAGTGCCACAAATGTATGCG	0.507													3	51					0	0	1	0	0		G	123297963	G	G	123297963	2	3	27	1	0	0	0	0	0	0	0	1	2836	117	5	3		3	CCDC62	12	123297963	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11992	123297963	10553932	5669	28020											
SBNO1	55206	broad.mit.edu	37	chr12	123794355	123794355	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataacgcattctgctgatgcAcctccatgcctaaaattcta	12	12	5	12	1	2	1	0	1	2	0	3	1	3	1	3	0	4	3	3	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:123794355A>G	uc010tap.1	-	25	3344	c.3344T>C	c.(3343-3345)GTG>GCG	p.V1115A	SBNO1_uc009zxv.2_RNA|SBNO1_uc010tao.1_Missense_Mutation_p.V1114A|SBNO1_uc010taq.1_Missense_Mutation_p.V66A|SBNO1_uc001ues.1_Missense_Mutation_p.V66A	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	1115							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		CTGCTGATGCACCTCCATGCC	0.303													5	182					0	0	1	0	0		G	123794355	G	G	123794355	3	3	27	1	0	0	0	0	1	0	0	0	13887	159	6	3	865	3	SBNO1	12	123794355	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	496392	123794355	10057540	5670	28021											
RILPL2	196383	broad.mit.edu	37	chr12	123915133	123915133	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcctgcagcacatcccttAgctcctgcagagtgaagcgg	8	9	11	13	1	0	2	0	1	0	1	3	2	3	2	3	1	5	5	3	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:123915133A>G	uc001uey.1	-	2	710	c.413T>C	c.(412-414)CTA>CCA	p.L138P		NM_145058	NP_659495	Q969X0	RIPL2_HUMAN	Rab interacting lysosomal protein-like 2	138	Potential.|RILP-like.					cytosol|plasma membrane	identical protein binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000546)|Epithelial(86;0.00179)|all cancers(50;0.0168)		CACATCCCTTAGCTCCTGCAG	0.562													9	95					0	0	1	0	0		G	123915133	G	G	123915133	3	3	27	1	0	0	0	0	1	0	0	0	13387	420	15	3	234	3	RILPL2	12	123915133	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	120778	123915133	9936762	5671	28022											
TMED2	10959	broad.mit.edu	37	chr12	124069277	124069277	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacgcccatgctgaagagTgcttctttgagcgggtcacc	7	10	12	12	3	2	3	1	2	1	1	3	4	2	3	2	1	3	2	2	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:124069277T>C	uc001ufg.2	+	1	202	c.94T>C	c.(94-96)TGC>CGC	p.C32R		NM_006815	NP_006806	Q15363	TMED2_HUMAN	coated vesicle membrane protein precursor	32	Lumenal (Potential).|GOLD.				protein transport|vesicle-mediated transport	COPI coated vesicle membrane|ER-Golgi intermediate compartment|integral to membrane|microsome|zymogen granule membrane	protein binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000138)|Epithelial(86;0.000613)|all cancers(50;0.00745)		TGCTGAAGAGTGCTTCTTTGA	0.627													8	77					0	0	1	0	0		C	124069277	C	C	124069277	3	2	27	1	0	0	0	0	1	0	0	0	16029	1696	59	3	96	3	TMED2	12	124069277	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	154144	124069277	9782618	5672	28023											
ATP6V0A2	23545	broad.mit.edu	37	chr12	124228803	124228803	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgtgatgtttggagacttCggacatggctttgtgatgtt	6	16	14	5	1	0	3	0	2	0	1	1	5	0	4	0	3	0	4	0	3	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:124228803C>T	uc001ufr.2	+	11	1493	c.1245C>T	c.(1243-1245)TTC>TTT	p.F415F		NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	415	Helical; (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		TTGGAGACTTCGGACATGGCT	0.378													35	134					0	0	1	0	0		T	124228803	T	T	124228803	2	4	27	1	0	0	0	0	0	0	0	1	1170	883	31	1		1	ATP6V0A2	12	124228803	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	159526	124228803	9623092	5673	28024											
DNAH10	196385	broad.mit.edu	37	chr12	124268706	124268706	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgcgctttctctccacCgtggagcgttatttcaaggt	7	14	10	10	3	2	0	1	0	1	0	4	1	3	1	2	2	2	2	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:124268706C>T	uc001uft.3	+	8	1054	c.1029C>T	c.(1027-1029)ACC>ACT	p.T343T		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	343	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TTCTCTCCACCGTGGAGCGTT	0.458													6	70					0	0	1	0	0		T	124268706	T	T	124268706	2	4	27	1	0	0	0	0	0	0	0	1	4604	639	23	1		1	DNAH10	12	124268706	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	39903	124268706	9583189	5674	28025											
DNAH10	196385	broad.mit.edu	37	chr12	124330561	124330561	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgggaaagtcagttgcggTtttattgggaccgggagccg	8	10	16	7	3	1	0	1	0	0	0	1	3	1	3	2	4	2	2	2	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:124330561T>C	uc001uft.3	+	31	5345	c.5320T>C	c.(5320-5322)TTT>CTT	p.F1774L		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1774	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TCAGTTGCGGTTTTATTGGGA	0.572													8	116					0	0	1	0	0		C	124330561	C	C	124330561	3	2	27	1	0	0	0	0	1	0	0	0	4604	1725	60	3	5442	3	DNAH10	12	124330561	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	61855	124330561	9521334	5675	28026											
DNAH10	196385	broad.mit.edu	37	chr12	124393820	124393820	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgccaggtcgtttgctaaGcccccgaagcaggtgcagac	8	8	12	13	2	0	1	0	0	0	1	1	2	0	1	3	2	5	4	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:124393820G>A	uc001uft.3	+	57	9499	c.9474G>A	c.(9472-9474)AAG>AAA	p.K3158K		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	3158	Stalk (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		CGTTTGCTAAGCCCCCGAAGC	0.557													3	29					0	0	1	0	0		A	124393820	A	A	124393820	2	1	27	1	0	0	0	0	0	0	0	1	4604	962	34	2		2	DNAH10	12	124393820	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	63259	124393820	9458075	5676	28027											
NCOR2	9612	broad.mit.edu	37	chr12	124832728	124832728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgctatcaccttcgatgCtggctgaggagatggctctg	6	11	12	12	1	2	2	1	1	1	1	3	4	2	2	2	3	2	4	2	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:124832728C>T	uc010tba.1	-	29	4118	c.4001G>A	c.(4000-4002)AGC>AAC	p.S1334N	NCOR2_uc010tay.1_Missense_Mutation_p.S1333N|NCOR2_uc010taz.1_Missense_Mutation_p.S1317N|NCOR2_uc010tbb.1_Missense_Mutation_p.S1326N|NCOR2_uc010tbc.1_Missense_Mutation_p.S1316N|NCOR2_uc001ugj.1_Missense_Mutation_p.S1334N	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1334					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		ACCTTCGATGCTGGCTGAGGA	0.473											OREG0022238	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	37					0	0	1	0	0		T	124832728	T	T	124832728	3	4	27	1	0	0	0	0	1	0	0	0	10255	797	28	2	3643	2	NCOR2	12	124832728	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	438908	124832728	9019167	5677	28028											
NCOR2	9612	broad.mit.edu	37	chr12	124835152	124835152	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctcataggacaagacgtgGcccttcttgccttcgtagat	8	11	9	13	2	2	2	1	0	1	2	3	3	2	3	3	2	1	1	3	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:124835152G>T	uc010tba.1	-	28	3966	c.3849C>A	c.(3847-3849)GGC>GGA	p.G1283G	NCOR2_uc010tay.1_Silent_p.G1282G|NCOR2_uc010taz.1_Silent_p.G1266G|NCOR2_uc010tbb.1_Silent_p.G1275G|NCOR2_uc010tbc.1_Silent_p.G1265G|NCOR2_uc001ugj.1_Silent_p.G1283G	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1283					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		ACAAGACGTGGCCCTTCTTGC	0.647													7	93					5.18039e-06	5.59131e-06	1	1	0		T	124835152	T	T	124835152	2	4	27	1	0	0	0	0	0	0	0	1	10255	1190	42	5		5	NCOR2	12	124835152	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2424	124835152	9016743	5678	28029											
NCOR2	9612	broad.mit.edu	37	chr12	124882718	124882718	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgagaactctcattcagcTccatggaggctgaaaagaag	14	7	11	9	1	2	3	2	1	1	2	4	5	3	4	1	2	3	2	1	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:124882718T>G	uc010tba.1	-	16	1940	c.1823A>C	c.(1822-1824)GAG>GCG	p.E608A	NCOR2_uc010tay.1_Missense_Mutation_p.E608A|NCOR2_uc010taz.1_Missense_Mutation_p.E608A|NCOR2_uc010tbb.1_Missense_Mutation_p.E608A|NCOR2_uc010tbc.1_Missense_Mutation_p.E607A|NCOR2_uc001ugj.1_Missense_Mutation_p.E608A	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	608					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		CTCATTCAGCTCCATGGAGGC	0.532													8	107					0	0	1	0	0		G	124882718	G	G	124882718	3	3	27	1	0	0	0	0	1	0	0	0	10255	1551	54	5	5873	5	NCOR2	12	124882718	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47566	124882718	8969177	5679	28030											
NCOR2	9612	broad.mit.edu	37	chr12	124885063	124885063	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacccagctcggcgctctgCtggggggtgatggcctcctc	3	9	14	15	2	2	1	1	1	1	0	5	1	3	1	3	5	2	3	3	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:124885063C>A	uc010tba.1	-	15	1914	c.1797G>T	c.(1795-1797)CAG>CAT	p.Q599H	NCOR2_uc010tay.1_Missense_Mutation_p.Q599H|NCOR2_uc010taz.1_Missense_Mutation_p.Q599H|NCOR2_uc010tbb.1_Missense_Mutation_p.Q599H|NCOR2_uc010tbc.1_Missense_Mutation_p.Q598H|NCOR2_uc001ugj.1_Missense_Mutation_p.Q599H	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	599					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		CGGCGCTCTGCTGGGGGGTGA	0.622													13	130					5.50884e-06	5.93776e-06	1	1	0		A	124885063	A	A	124885063	3	1	27	1	0	0	0	0	1	0	0	0	10255	796	28	5	5903	5	NCOR2	12	124885063	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2345	124885063	8966832	5680	28031											
SCARB1	949	broad.mit.edu	37	chr12	125294824	125294824	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgttgcactgatcggaatgCcagaagtcaacctgggggga	11	8	14	8	1	1	2	1	1	0	1	2	4	1	4	2	4	3	2	2	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:125294824C>A	uc001ugo.3	-	6	991	c.738G>T	c.(736-738)TGG>TGT	p.W246C	SCARB1_uc001ugn.3_Missense_Mutation_p.W246C|SCARB1_uc001ugm.3_Missense_Mutation_p.W246C|SCARB1_uc010tbd.1_Missense_Mutation_p.W246C|SCARB1_uc010tbe.1_Missense_Mutation_p.W205C|SCARB1_uc001ugp.3_Missense_Mutation_p.W246C	NM_005505	NP_005496	Q8WTV0	SCRB1_HUMAN	scavenger receptor class B, member 1 isoform 1	246	Extracellular (Potential).				adhesion to symbiont|cell adhesion|cholesterol efflux|cholesterol homeostasis|cholesterol import|detection of lipopolysaccharide|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|lipopolysaccharide transport|lipoprotein metabolic process|positive regulation of cholesterol storage|positive regulation of endothelial cell migration|positive regulation of nitric-oxide synthase activity|recognition of apoptotic cell|reverse cholesterol transport|triglyceride homeostasis|wound healing	caveola	1-phosphatidylinositol binding|apolipoprotein A-I binding|high-density lipoprotein particle receptor activity|lipopolysaccharide receptor activity|low-density lipoprotein particle binding|phosphatidylserine binding|transporter activity			kidney(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000116)|Epithelial(86;0.000415)|all cancers(50;0.00395)	Phosphatidylserine(DB00144)	GATCGGAATGCCAGAAGTCAA	0.567													5	53					3.59834e-05	3.83694e-05	1	1	0		A	125294824	A	A	125294824	3	1	27	1	0	0	0	0	1	0	0	0	13906	740	26	5	943	5	SCARB1	12	125294824	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	409761	125294824	8557071	5681	28032											
DHX37	57647	broad.mit.edu	37	chr12	125444895	125444895	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcatttgaaggattaagTcttcaacaggcctccgggtg	9	12	10	10	1	3	1	2	1	1	0	4	2	4	2	3	3	1	0	3	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:125444895T>C	uc001ugy.2	-	16	2219	c.2120A>G	c.(2119-2121)GAC>GGC	p.D707G		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	707	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		AAGGATTAAGTCTTCAACAGG	0.547													7	125					0	0	1	0	0		C	125444895	C	C	125444895	3	2	27	1	0	0	0	0	1	0	0	0	4516	1667	58	3	1401	3	DHX37	12	125444895	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	150071	125444895	8407000	5682	28033											
AACS	65985	broad.mit.edu	37	chr12	125591759	125591759	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagccacccactgttcaTcatgttctcatcgggcacca	8	11	6	16	1	4	0	4	0	1	0	6	0	4	0	3	1	1	3	3	1	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:125591759T>C	uc001uhc.2	+	8	1066	c.860T>C	c.(859-861)ATC>ACC	p.I287T	AACS_uc009zyg.2_RNA|AACS_uc001uhd.2_Missense_Mutation_p.I287T|AACS_uc009zyh.2_RNA|AACS_uc009zyi.2_5'UTR	NM_023928	NP_076417	Q86V21	AACS_HUMAN	acetoacetyl-CoA synthetase	287					fatty acid metabolic process	cytosol	acetoacetate-CoA ligase activity|ATP binding			ovary(1)|liver(1)|central_nervous_system(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;9.82e-05)|Epithelial(86;0.000642)|all cancers(50;0.00843)		CCACTGTTCATCATGTTCTCA	0.607													4	63					0	0	1	0	0		C	125591759	C	C	125591759	3	2	27	1	0	0	0	0	1	0	0	0	9	1435	50	3	890	3	AACS	12	125591759	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	146864	125591759	8260136	5683	28034											
AACS	65985	broad.mit.edu	37	chr12	125621279	125621279	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacagggaggagagggtgAtcctcttcctgaagatggcc	10	8	15	8	0	1	4	0	2	1	2	3	6	3	5	3	4	1	1	3	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:125621279A>T	uc001uhc.2	+	17	1956	c.1750A>T	c.(1750-1752)ATC>TTC	p.I584F	AACS_uc001uhd.2_Intron|AACS_uc009zyh.2_RNA|AACS_uc009zyi.2_Missense_Mutation_p.I182F	NM_023928	NP_076417	Q86V21	AACS_HUMAN	acetoacetyl-CoA synthetase	584					fatty acid metabolic process	cytosol	acetoacetate-CoA ligase activity|ATP binding			ovary(1)|liver(1)|central_nervous_system(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;9.82e-05)|Epithelial(86;0.000642)|all cancers(50;0.00843)		GGAGAGGGTGATCCTCTTCCT	0.587													4	61					0	0	1	0	0		T	125621279	T	T	125621279	3	4	27	1	0	0	0	0	1	0	0	0	9	333	12	5	1816	5	AACS	12	125621279	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	29520	125621279	8230616	5684	28035											
TMEM132B	114795	broad.mit.edu	37	chr12	126004077	126004077	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagattacctggcaggTggagtacccgattgaggact	10	8	13	10	1	0	2	0	1	0	1	0	5	0	4	3	4	3	3	3	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:126004077T>C	uc001uhe.1	+	4	1192	c.1184T>C	c.(1183-1185)GTG>GCG	p.V395A		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	395	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		ACCTGGCAGGTGGAGTACCCG	0.527													11	89					0	0	1	0	0		C	126004077	C	C	126004077	3	2	27	1	0	0	0	0	1	0	0	0	16071	1696	59	3	1198	3	TMEM132B	12	126004077	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	382798	126004077	7847818	5685	28036											
TMEM132D	121256	broad.mit.edu	37	chr12	129558728	129558728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggagatatttactttcctCgaaatccatgcccctgtcaa	11	12	7	11	1	1	1	1	0	0	1	4	4	3	1	4	1	2	0	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:129558728C>T	uc009zyl.1	-	9	3320	c.2992G>A	c.(2992-2994)GAG>AAG	p.E998K	TMEM132D_uc001uia.2_Missense_Mutation_p.E536K	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	998	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TTACTTTCCTCGAAATCCATG	0.463													5	97					0	0	1	0	0		T	129558728	T	T	129558728	3	4	27	1	0	0	0	0	1	0	0	0	16072	893	31	1	311	1	TMEM132D	12	129558728	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3554651	129558728	4293167	5686	28037											
TMEM132D	121256	broad.mit.edu	37	chr12	130185180	130185180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgttgatgtggtaggtcacgGggaggtaggtgggcagcaag	8	9	20	4	1	1	1	1	1	0	0	1	2	1	2	0	7	1	5	0	7	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:130185180G>A	uc009zyl.1	-	2	471	c.143C>T	c.(142-144)CCC>CTC	p.P48L		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	48	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GTAGGTCACGGGGAGGTAGGT	0.572													5	45					0	0	1	0	0		A	130185180	A	A	130185180	3	1	27	1	0	0	0	0	1	0	0	0	16072	1232	43	4	3188	4	TMEM132D	12	130185180	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	626452	130185180	3666715	5687	28038											
FZD10	11211	broad.mit.edu	37	chr12	130648123	130648123	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgcgcgccgctctgcacGcccggcgtggacgtgtactg	3	8	15	15	8	1	0	0	0	1	0	2	1	1	1	2	2	3	3	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:130648123G>A	uc001uii.2	+	1	1092	c.636G>A	c.(634-636)ACG>ACA	p.T212T	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	212	Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		CGCTCTGCACGCCCGGCGTGG	0.597													4	25					0	0	1	0	0		A	130648123	A	A	130648123	2	1	27	1	0	0	0	0	0	0	0	1	6143	1074	38	1		1	FZD10	12	130648123	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	462943	130648123	3203772	5688	28039											
RIMBP2	23504	broad.mit.edu	37	chr12	130897259	130897259	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgtatctcagagaccatgTtacaaggaataaggccaagc	14	9	9	9	0	1	1	1	0	1	1	2	3	1	2	2	2	2	2	2	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:130897259T>A	uc001uil.2	-	15	2890	c.2726A>T	c.(2725-2727)AAC>ATC	p.N909I		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	909	SH3 2.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		AGAGACCATGTTACAAGGAAT	0.458													8	90					0	0	1	0	0		A	130897259	A	A	130897259	3	1	27	1	0	0	0	0	1	0	0	0	13388	1725	60	5	452	5	RIMBP2	12	130897259	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	249136	130897259	2954636	5689	28040											
GPR133	283383	broad.mit.edu	37	chr12	131569156	131569156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcacctactccgtctgccGctgcactcacctcaccaact	7	9	4	21	2	4	0	3	0	1	0	5	0	5	0	6	0	4	2	6	0	2	1	rs145630930	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:131569156G>A	uc001uit.3	+	15	2178	c.1619G>A	c.(1618-1620)CGC>CAC	p.R540H	GPR133_uc010tbm.1_Missense_Mutation_p.R572H|GPR133_uc009zyo.2_5'UTR|GPR133_uc001uiv.1_Missense_Mutation_p.R59H	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	540	GPS.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		TCCGTCTGCCGCTGCACTCAC	0.617													9	34					0	0	1	0	0		A	131569156	A	A	131569156	3	1	27	1	0	0	0	0	1	0	0	0	6658	1087	38	1	1677	1	GPR133	12	131569156	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	671897	131569156	2282739	5690	28041											
SFRS8	6433	broad.mit.edu	37	chr12	132241057	132241057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggctcccacagactctgctCccgagaagccaagtgatgct	10	7	10	14	1	1	3	0	1	1	2	3	4	3	3	3	1	3	3	3	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:132241057C>T	uc001uja.1	+	11	1728	c.1588C>T	c.(1588-1590)CCC>TCC	p.P530S	SFRS8_uc010tbn.1_Missense_Mutation_p.P530S|SFRS8_uc001ujb.1_Missense_Mutation_p.P323S	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	530					mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		AGACTCTGCTCCCGAGAAGCC	0.532													7	98					0	0	1	0	0		T	132241057	T	T	132241057	3	4	27	1	0	0	0	0	1	0	0	0	14208	855	30	4	1630	4	SFRS8	12	132241057	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	671901	132241057	1610838	5691	28042											
SFRS8	6433	broad.mit.edu	37	chr12	132249139	132249139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaagaaagttctagtagtgCtgcaaacactaacccagcag	15	7	8	11	0	1	1	0	0	1	1	1	1	1	1	2	0	5	5	2	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:132249139C>T	uc001uja.1	+	12	1999	c.1859C>T	c.(1858-1860)GCT>GTT	p.A620V	SFRS8_uc010tbn.1_Missense_Mutation_p.A620V|SFRS8_uc001ujb.1_Missense_Mutation_p.A413V	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	620					mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		TCTAGTAGTGCTGCAAACACT	0.448													5	47					0	0	1	0	0		T	132249139	T	T	132249139	3	4	27	1	0	0	0	0	1	0	0	0	14208	797	28	2	1905	2	SFRS8	12	132249139	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8082	132249139	1602756	5692	28043											
SFRS8	6433	broad.mit.edu	37	chr12	132281751	132281751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagaagaagaagaagaggCggtcccggtcgcggaccaag	14	2	16	9	5	0	5	0	0	0	5	2	7	1	6	2	4	0	0	2	4	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:132281751C>T	uc001uja.1	+	16	2703	c.2563C>T	c.(2563-2565)CGG>TGG	p.R855W	SFRS8_uc010tbn.1_Missense_Mutation_p.R907W	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	855	Arg/Ser-rich (RS domain).				mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		GAAGAAGAGGCGGTCCCGGTC	0.488													20	117					0	0	1	0	0		T	132281751	T	T	132281751	3	4	27	1	0	0	0	0	1	0	0	0	14208	759	27	1	2625	1	SFRS8	12	132281751	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	32612	132281751	1570144	5693	28044											
MMP17	4326	broad.mit.edu	37	chr12	132334582	132334582	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtccccagcacgctggaCgacgccatgcgctggtccga	6	6	14	15	5	0	0	0	0	0	0	2	3	2	1	4	3	2	3	4	3	0	0	rs149055160		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:132334582C>T	uc001ujc.1	+	9	1539	c.1440C>T	c.(1438-1440)GAC>GAT	p.D480D	MMP17_uc001ujd.1_Silent_p.D396D	NM_016155	NP_057239	Q9ULZ9	MMP17_HUMAN	matrix metalloproteinase 17 preproprotein	480	Hemopexin-like 4.				proteolysis	anchored to membrane|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.82e-07)|Epithelial(86;1.51e-06)|all cancers(50;2.35e-05)		GCACGCTGGACGACGCCATGC	0.682													4	27					0	0	1	0	0		T	132334582	T	T	132334582	2	4	27	1	0	0	0	0	0	0	0	1	9674	535	19	1		1	MMP17	12	132334582	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	52831	132334582	1517313	5694	28045											
EP400	57634	broad.mit.edu	37	chr12	132508396	132508396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgtggctcagccagagacgCcggtgacactgcagttccag	8	6	14	13	3	1	2	1	1	0	1	2	3	2	2	3	2	2	3	3	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:132508396C>T	uc001ujn.2	+	23	4800	c.4765C>T	c.(4765-4767)CCG>TCG	p.P1589S	EP400_uc001ujl.2_Missense_Mutation_p.P1588S|EP400_uc001ujm.2_Missense_Mutation_p.P1508S	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1625					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		GCCAGAGACGCCGGTGACACT	0.582													11	35					0	0	1	0	0		T	132508396	T	T	132508396	3	4	27	1	0	0	0	0	1	0	0	0	5157	739	26	2	4852	2	EP400	12	132508396	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	173814	132508396	1343499	5695	28046											
EP400	57634	broad.mit.edu	37	chr12	132534928	132534928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggatgagaatgccacaCacacccagctgtacacgagc	13	4	9	15	1	0	1	0	1	0	1	0	4	0	2	3	1	4	2	3	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:132534928C>T	uc001ujn.2	+	39	7296	c.7261C>T	c.(7261-7263)CAC>TAC	p.H2421Y	EP400_uc001ujl.2_Missense_Mutation_p.H2420Y|EP400_uc001ujm.2_Missense_Mutation_p.H2340Y	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2457					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		GAATGCCACACACACCCAGCT	0.473													15	52					0	0	1	0	0		T	132534928	T	T	132534928	3	4	27	1	0	0	0	0	1	0	0	0	5157	478	17	4	7412	4	EP400	12	132534928	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	26532	132534928	1316967	5696	28047											
P2RX2	22953	broad.mit.edu	37	chr12	133197925	133197925	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcattgacgtcattgtgcaTggacaggtgcctgcacctgc	7	10	12	12	2	1	1	1	1	0	0	1	2	1	2	2	2	4	3	2	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:133197925T>C	uc001ukj.1	+	9	990	c.990T>C	c.(988-990)CAT>CAC	p.H330H	P2RX2_uc001uki.1_Silent_p.H330H|P2RX2_uc001ukk.1_Silent_p.H330H|P2RX2_uc001ukl.1_Silent_p.H306H|P2RX2_uc001ukm.1_Silent_p.H258H|P2RX2_uc001ukn.1_Silent_p.H238H|P2RX2_uc009zyt.1_Silent_p.H330H|P2RX2_uc001uko.1_Silent_p.H296H	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	330	Pore-forming motif (Potential).|Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		TCATTGTGCATGGACAGGTGC	0.617													6	72					0	0	1	0	0		C	133197925	C	C	133197925	2	2	27	1	0	0	0	0	0	0	0	1	11359	1461	51	3		3	P2RX2	12	133197925	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	662997	133197925	653970	5697	28048											
POLE	5426	broad.mit.edu	37	chr12	133214612	133214612	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccgcacctgctggtgatgTactccacgtaagcgatggca	9	8	12	12	3	0	1	0	1	0	0	1	2	1	1	3	2	4	5	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:133214612T>C	uc001uks.1	-	41	5710	c.5666A>G	c.(5665-5667)TAC>TGC	p.Y1889C	POLE_uc001ukq.1_Missense_Mutation_p.Y99C|POLE_uc001ukr.1_Missense_Mutation_p.Y693C|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1889					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		GCTGGTGATGTACTCCACGTA	0.572								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					9	87					0	0	1	0	0		C	133214612	C	C	133214612	3	2	27	1	0	0	0	0	1	0	0	0	12215	1638	57	3	1230	3	POLE	12	133214612	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	16687	133214612	637283	5698	28049											
POLE	5426	broad.mit.edu	37	chr12	133234500	133234500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagctcttgagccatttcCggagaaagtgcttcctcacc	10	10	9	12	1	2	3	1	1	1	2	4	4	4	3	4	1	3	2	4	1	2	3	rs114315196	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:133234500C>T	uc001uks.1	-	27	3376	c.3332G>A	c.(3331-3333)CGG>CAG	p.R1111Q	POLE_uc001ukr.1_5'UTR|POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Missense_Mutation_p.R1084Q	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1111					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		GAGCCATTTCCGGAGAAAGTG	0.483								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					32	109					0	0	1	0	0		T	133234500	T	T	133234500	3	4	27	1	0	0	0	0	1	0	0	0	12215	652	23	1	3620	1	POLE	12	133234500	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	19888	133234500	617395	5699	28050											
POLE	5426	broad.mit.edu	37	chr12	133245074	133245074	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatccgatggtattcgcTgcgactggctggcactggga	6	10	15	10	3	0	0	0	0	0	0	2	4	1	2	1	5	1	4	1	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:133245074T>G	uc001uks.1	-	19	2085	c.2041A>C	c.(2041-2043)AGC>CGC	p.S681R	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Missense_Mutation_p.S654R	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	681					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		TGGTATTCGCTGCGACTGGCT	0.607								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					8	80					0	0	1	0	0		G	133245074	G	G	133245074	3	3	27	1	0	0	0	0	1	0	0	0	12215	1580	55	5	4943	5	POLE	12	133245074	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10574	133245074	606821	5700	28051											
POLE	5426	broad.mit.edu	37	chr12	133249803	133249803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaagatgaatgggtggaCgtacttcatgtacaggtagt	13	10	13	5	1	1	2	1	1	0	1	1	3	1	3	0	3	3	4	0	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:133249803C>T	uc001uks.1	-	14	1464	c.1420G>A	c.(1420-1422)GTC>ATC	p.V474I	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Missense_Mutation_p.V447I	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	474					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		AATGGGTGGACGTACTTCATG	0.537								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					17	68					0	0	1	0	0		T	133249803	T	T	133249803	3	4	27	1	0	0	0	0	1	0	0	0	12215	536	19	1	5584	1	POLE	12	133249803	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4729	133249803	602092	5701	28052											
PGAM5	192111	broad.mit.edu	37	chr12	133291482	133291482	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcaacgtgcggaagaggaAcgtggaatctggggaagaag	14	5	17	5	3	2	2	1	0	1	2	2	7	2	6	0	5	3	0	0	5	6	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:133291482A>G	uc009zyv.2	+	2	257	c.230A>G	c.(229-231)AAC>AGC	p.N77S	PGAM5_uc010tbr.1_RNA|PGAM5_uc001uku.2_Missense_Mutation_p.N77S	NM_138575	NP_612642	Q96HS1	PGAM5_HUMAN	phosphoglycerate mutase family member 5	77	Interaction with KEAP1.					integral to membrane|mitochondrial outer membrane	phosphoprotein phosphatase activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.89e-08)|Epithelial(86;1.14e-07)|all cancers(50;3.57e-06)		CGGAAGAGGAACGTGGAATCT	0.512													4	67					0	0	1	0	0		G	133291482	G	G	133291482	3	3	27	1	0	0	0	0	1	0	0	0	11795	43	2	3	236	3	PGAM5	12	133291482	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	41679	133291482	560413	5702	28053											
ANKLE2	23141	broad.mit.edu	37	chr12	133306795	133306795	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgcattttgccgatttttTatttcttccaagctcatgtc	6	19	6	10	1	2	0	1	0	1	0	4	1	3	0	2	0	3	3	2	0	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:133306795T>C	uc001ukx.2	-	11	2020	c.1953A>G	c.(1951-1953)ATA>ATG	p.I651M	ANKLE2_uc009zyw.1_Missense_Mutation_p.I6M	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	651						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		GCCGATTTTTTATTTCTTCCA	0.512													4	70					0	0	1	0	0		C	133306795	C	C	133306795	3	2	27	1	0	0	0	0	1	0	0	0	633	1744	61	3	875	3	ANKLE2	12	133306795	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	15313	133306795	545100	5703	28054											
ANKLE2	23141	broad.mit.edu	37	chr12	133324563	133324563	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggcagatggaagcctggTtctctttggcagcaacatgc	8	10	13	10	0	1	1	0	0	1	1	2	2	1	2	1	4	4	5	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:133324563T>C	uc001ukx.2	-	5	1152	c.1085A>G	c.(1084-1086)AAC>AGC	p.N362S	ANKLE2_uc001uky.3_Missense_Mutation_p.N300S	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	362						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		GGAAGCCTGGTTCTCTTTGGC	0.552													7	64					0	0	1	0	0		C	133324563	C	C	133324563	3	2	27	1	0	0	0	0	1	0	0	0	633	1725	60	3	1767	3	ANKLE2	12	133324563	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	17768	133324563	527332	5704	28055											
GOLGA3	2802	broad.mit.edu	37	chr12	133350896	133350896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagagctggcctcgcctttcGgctcctttctctgtttttaa	5	16	8	12	2	1	1	0	0	1	1	5	1	2	1	3	2	1	3	3	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:133350896G>A	uc001ukz.1	-	23	4713	c.4154C>T	c.(4153-4155)CCG>CTG	p.P1385L		NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1385	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CTCGCCTTTCGGCTCCTTTCT	0.612													15	48					0	0	1	0	0		A	133350896	A	A	133350896	3	1	27	1	0	0	0	0	1	0	0	0	6569	1116	39	1	350	1	GOLGA3	12	133350896	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26333	133350896	500999	5705	28056											
GOLGA3	2802	broad.mit.edu	37	chr12	133363022	133363022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgagggcctcctgcaggCggcggctgaggatgcccacg	5	4	17	15	5	0	1	0	1	0	0	1	3	1	2	4	5	2	2	4	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:133363022C>T	uc001ukz.1	-	15	3585	c.3026G>A	c.(3025-3027)CGC>CAC	p.R1009H	GOLGA3_uc001ula.1_Missense_Mutation_p.R1009H|GOLGA3_uc001ulb.2_Missense_Mutation_p.R1009H	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1009	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CTCCTGCAGGCGGCGGCTGAG	0.652													6	22					0	0	1	0	0		T	133363022	T	T	133363022	3	4	27	1	0	0	0	0	1	0	0	0	6569	768	27	1	1648	1	GOLGA3	12	133363022	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12126	133363022	488873	5706	28057											
CHFR	55743	broad.mit.edu	37	chr12	133433166	133433166	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcagcatgtcttgagtgaTtttatttctggcatccatac	8	16	8	9	0	2	2	0	2	2	0	3	2	3	2	1	1	3	3	1	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:133433166T>C	uc001ulf.2	-	10	1237	c.1153A>G	c.(1153-1155)ATC>GTC	p.I385V	CHFR_uc001ulc.1_RNA|CHFR_uc001ule.2_Missense_Mutation_p.I373V|CHFR_uc010tbs.1_Missense_Mutation_p.I385V|CHFR_uc001uld.2_Missense_Mutation_p.I344V|CHFR_uc010tbt.1_Missense_Mutation_p.I293V	NM_001161344	NP_001154816	Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains	385					cell division|mitosis|mitotic cell cycle checkpoint|modification-dependent protein catabolic process|protein polyubiquitination	PML body	nucleotide binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00552)|all_epithelial(31;0.226)		OV - Ovarian serous cystadenocarcinoma(86;2.59e-08)|Epithelial(86;6.38e-07)|all cancers(50;1.56e-05)		TCTTGAGTGATTTTATTTCTG	0.493													29	289					0	0	1	0	0		C	133433166	C	C	133433166	3	2	27	1	0	0	0	0	1	0	0	0	3340	1493	52	3	877	3	CHFR	12	133433166	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	70144	133433166	418729	5707	28058											
CHFR	55743	broad.mit.edu	37	chr12	133433184	133433184	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattttatttctggcatccaTactttgcacatcttcttcac	8	18	4	11	0	4	0	1	0	3	0	5	1	5	0	1	1	2	2	1	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr12:133433184T>C	uc001ulf.2	-	10	1219	c.1135A>G	c.(1135-1137)ATG>GTG	p.M379V	CHFR_uc001ulc.1_RNA|CHFR_uc001ule.2_Missense_Mutation_p.M367V|CHFR_uc010tbs.1_Missense_Mutation_p.M379V|CHFR_uc001uld.2_Missense_Mutation_p.M338V|CHFR_uc010tbt.1_Missense_Mutation_p.M287V	NM_001161344	NP_001154816	Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains	379					cell division|mitosis|mitotic cell cycle checkpoint|modification-dependent protein catabolic process|protein polyubiquitination	PML body	nucleotide binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00552)|all_epithelial(31;0.226)		OV - Ovarian serous cystadenocarcinoma(86;2.59e-08)|Epithelial(86;6.38e-07)|all cancers(50;1.56e-05)		CTGGCATCCATACTTTGCACA	0.498													30	260					0	0	1	0	0		C	133433184	C	C	133433184	3	2	27	1	0	0	0	0	1	0	0	0	3340	1406	49	3	895	3	CHFR	12	133433184	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18	133433184	418711	5708	28059											
ZMYM5	9205	broad.mit.edu	37	chr13	20412952	20412952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgttgataagctgtctgtcCcttctgtaaaggctttttgc	6	17	9	9	1	2	1	0	1	2	0	4	1	3	1	1	1	2	4	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:20412952C>T	uc010tcn.1	-	5	1025	c.760G>A	c.(760-762)GGA>AGA	p.G254R	ZMYM5_uc001umm.1_Missense_Mutation_p.G78R|ZMYM5_uc001umn.2_Missense_Mutation_p.G254R|ZMYM5_uc001umo.2_Intron	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	254						nucleus	zinc ion binding				0		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		GCTGTCTGTCCCTTCTGTAAA	0.428													20	172					0	0	1	0	0		T	20412952	T	T	20412952	3	4	27	1	0	0	0	0	1	0	0	0	17728	632	22	4	1376	4	ZMYM5	13	20412952	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08		20412952	94756926	5709	28060											
ZMYM2	7750	broad.mit.edu	37	chr13	20579332	20579332	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaacagaatcctactaaaGgagctctaaataaatcaaga	21	7	5	8	0	2	2	1	0	1	2	3	3	3	3	1	1	3	1	1	1	10	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:20579332G>T	uc001umr.2	+	6	1550	c.1252G>T	c.(1252-1254)GGA>TGA	p.G418*	ZMYM2_uc001umq.2_Nonsense_Mutation_p.G331*|ZMYM2_uc001ums.2_Nonsense_Mutation_p.G418*|ZMYM2_uc001umt.2_Nonsense_Mutation_p.G418*|ZMYM2_uc010tco.1_RNA	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	418	MYM-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		TCCTACTAAAGGAGCTCTAAA	0.313													5	48					0.000602214	0.000630257	1	1	0		T	20579332	T	T	20579332	4	4	27	1	0	0	0	0	0	1	0	0	17725	1001	35	5	1262	5	ZMYM2	13	20579332	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	166380	20579332	94590546	5710	28061											
IFT88	8100	broad.mit.edu	37	chr13	21166533	21166533	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccctttggaagccaagAaaaaagataggtatgtaagt	15	10	9	7	0	0	2	0	0	0	2	1	3	1	3	3	2	1	2	3	2	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:21166533A>G	uc001unh.2	+	9	811	c.415A>G	c.(415-417)AAA>GAA	p.K139E	IFT88_uc001uni.2_Missense_Mutation_p.K130E|IFT88_uc001unj.2_Missense_Mutation_p.K129E|IFT88_uc010tcq.1_Missense_Mutation_p.K110E	NM_175605	NP_783195	Q13099	IFT88_HUMAN	intraflagellar transport 88 homolog isoform 1	139					cilium morphogenesis	centriole|intraflagellar transport particle B|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(29;5.79e-25)|all_epithelial(30;2.57e-20)|all_lung(29;3.13e-16)|Lung SC(185;0.0262)|Ovarian(182;0.0825)|Hepatocellular(188;0.244)		all cancers(112;0.000667)|Epithelial(112;0.00119)|OV - Ovarian serous cystadenocarcinoma(117;0.0141)|Lung(94;0.0183)|LUSC - Lung squamous cell carcinoma(192;0.0528)		GGAAGCCAAGAAAAAAGATAG	0.333													3	68					0	0	1	0	0		G	21166533	G	G	21166533	3	3	27	1	0	0	0	0	1	0	0	0	7582	247	9	3	441	3	IFT88	13	21166533	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	587201	21166533	94003345	5711	28062											
XPO4	64328	broad.mit.edu	37	chr13	21373315	21373315	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactgttacctctgtccaatActgctgtttggtttctgtgt	5	18	8	10	0	2	0	0	0	2	0	3	0	3	0	2	1	3	4	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:21373315A>G	uc001unq.3	-	16	2347	c.2311T>C	c.(2311-2313)TAT>CAT	p.Y771H		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	771					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		TCTGTCCAATACTGCTGTTTG	0.433													26	288					0	0	1	0	0		G	21373315	G	G	21373315	3	3	27	1	0	0	0	0	1	0	0	0	17472	391	14	3	1176	3	XPO4	13	21373315	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	206782	21373315	93796563	5712	28063											
XPO4	64328	broad.mit.edu	37	chr13	21373449	21373449	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcttagctaaattccacCagttctcacattgaattact	12	14	4	11	0	1	1	1	1	1	0	3	1	2	1	2	0	3	3	2	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:21373449C>T	uc001unq.3	-	16	2213	c.2177G>A	c.(2176-2178)TGG>TAG	p.W726*		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	726					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		TAAATTCCACCAGTTCTCACA	0.338													10	160					0	0	1	0	0		T	21373449	T	T	21373449	4	4	27	1	0	0	0	0	0	1	0	0	17472	595	21	4	1310	4	XPO4	13	21373449	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	134	21373449	93796429	5713	28064											
LATS2	26524	broad.mit.edu	37	chr13	21562282	21562282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcgggctcgttggggcccGcacggaggctctgctccatg	3	8	15	15	4	1	0	0	0	1	0	4	1	2	1	3	5	1	5	3	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:21562282G>A	uc009zzs.2	-	4	2002	c.1637C>T	c.(1636-1638)GCG>GTG	p.A546V	LATS2_uc001unr.3_Missense_Mutation_p.A546V	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	546					cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		GTTGGGGCCCGCACGGAGGCT	0.652													4	78					0	0	1	0	0		A	21562282	A	A	21562282	3	1	27	1	0	0	0	0	1	0	0	0	8663	1087	38	1	1649	1	LATS2	13	21562282	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	188833	21562282	93607596	5714	28065											
LATS2	26524	broad.mit.edu	37	chr13	21562755	21562755	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgtgcgcgcgcggcggCgcctccaggcccggcttctg	2	5	16	18	8	1	0	0	0	1	0	2	0	2	0	4	4	1	1	4	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:21562755C>T	uc009zzs.2	-	4	1529	c.1164G>A	c.(1162-1164)GCG>GCA	p.A388A	LATS2_uc001unr.3_Silent_p.A388A	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	388					cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		CGCGCGGCGGCGCCTCCAGGC	0.716													5	10					0	0	1	0	0		T	21562755	T	T	21562755	2	4	27	1	0	0	0	0	0	0	0	1	8663	755	27	1		1	LATS2	13	21562755	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	473	21562755	93607123	5715	28066											
LATS2	26524	broad.mit.edu	37	chr13	21562993	21562993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtgcggcacgtagagcccgGcggcagggggtgggaaagcg	7	3	22	9	5	0	1	0	0	0	1	0	2	0	2	1	7	3	3	1	7	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:21562993G>A	uc009zzs.2	-	4	1291	c.926C>T	c.(925-927)GCC>GTC	p.A309V	LATS2_uc001unr.3_Missense_Mutation_p.A309V	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	309					cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		GTAGAGCCCGGCGGCAGGGGG	0.736													3	10					0	0	1	0	0		A	21562993	A	A	21562993	3	1	27	1	0	0	0	0	1	0	0	0	8663	1203	42	2	2360	2	LATS2	13	21562993	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	238	21562993	93606885	5716	28067											
SKA3	221150	broad.mit.edu	37	chr13	21736007	21736007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctggattctgtatctatggCctcctcactggtgtgattca	6	15	9	11	0	4	1	2	1	2	0	5	2	5	2	3	3	0	1	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:21736007C>T	uc001unt.2	-	5	845	c.751G>A	c.(751-753)GCC>ACC	p.A251T	SKA3_uc001unv.2_Missense_Mutation_p.A169T|SKA3_uc001unu.2_Missense_Mutation_p.A251T	NM_145061	NP_659498	Q8IX90	SKA3_HUMAN	SKA3	251					cell division|chromosome segregation|mitosis|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytoplasm|spindle microtubule	protein binding				0						GTATCTATGGCCTCCTCACTG	0.368													5	29					0	0	1	0	0		T	21736007	T	T	21736007	3	4	27	1	0	0	0	0	1	0	0	0	14379	739	26	2	554	2	SKA3	13	21736007	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	173014	21736007	93433871	5717	28068											
FGF9	2254	broad.mit.edu	37	chr13	22275428	22275428	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacgtggacactggaaggCgatactatgttgcattaaat	13	10	11	7	2	0	0	0	0	0	0	0	3	0	2	0	3	3	3	0	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:22275428C>A	uc001uog.2	+	3	1318	c.481C>A	c.(481-483)CGA>AGA	p.R161R		NM_002010	NP_002001	P31371	FGF9_HUMAN	fibroblast growth factor 9 precursor	161					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|male gonad development|positive regulation of cell division	extracellular space	growth factor activity|heparin binding				0		all_cancers(29;1.23e-20)|all_epithelial(30;9.83e-19)|all_lung(29;9.64e-17)|Lung SC(185;0.0262)|Breast(139;0.106)		all cancers(112;3.92e-05)|Epithelial(112;0.000166)|OV - Ovarian serous cystadenocarcinoma(117;0.00314)|Lung(94;0.163)		CACTGGAAGGCGATACTATGT	0.423													4	72					0.00909568	0.0093211	1	1	0		A	22275428	A	A	22275428	2	1	27	1	0	0	0	0	0	0	0	1	5873	760	27	5		5	FGF9	13	22275428	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	539421	22275428	92894450	5718	28069											
SACS	26278	broad.mit.edu	37	chr13	23904580	23904580	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaagctaacttggtagaaaGgtaacatttaaagcacaccc	17	8	7	9	0	0	1	0	0	0	1	0	1	0	1	1	2	4	4	1	2	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:23904580G>T	uc001uon.2	-	10	14024	c.13435C>A	c.(13435-13437)CTT>ATT	p.L4479I	SACS_uc001uoo.2_Missense_Mutation_p.L4332I|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	4479	HEPN.				cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TTGGTAGAAAGGTAACATTTA	0.428													13	148					5.50884e-06	5.93776e-06	1	1	0		T	23904580	T	T	23904580	3	4	27	1	0	0	0	0	1	0	0	0	13829	1000	35	5	308	5	SACS	13	23904580	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1629152	23904580	91265298	5719	28070											
TNFRSF19	55504	broad.mit.edu	37	chr13	24233272	24233272	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctgccgttatctgcagcGctctggccaccgtcctgctg	3	11	12	15	3	2	0	0	0	2	0	3	0	3	0	4	2	4	5	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:24233272G>A	uc001uov.1	+	6	593	c.529G>A	c.(529-531)GCT>ACT	p.A177T	TNFRSF19_uc001uot.2_Missense_Mutation_p.A177T|TNFRSF19_uc010tcu.1_Missense_Mutation_p.A45T|TNFRSF19_uc001uow.2_Missense_Mutation_p.A177T	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	177	Helical; (Potential).				apoptosis|induction of apoptosis|JNK cascade	integral to membrane|mitochondrion	tumor necrosis factor receptor activity			kidney(1)|skin(1)	2		all_cancers(29;3.4e-22)|all_epithelial(30;8.75e-19)|all_lung(29;5.09e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00193)|Epithelial(112;0.0137)|OV - Ovarian serous cystadenocarcinoma(117;0.0465)|GBM - Glioblastoma multiforme(144;0.184)|Lung(94;0.19)		TATCTGCAGCGCTCTGGCCAC	0.557													24	76					0	0	1	0	0		A	24233272	A	A	24233272	3	1	27	1	0	0	0	0	1	0	0	0	16317	1087	38	1	547	1	TNFRSF19	13	24233272	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	328692	24233272	90936606	5720	28071											
MIPEP	4285	broad.mit.edu	37	chr13	24453405	24453405	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcaaagaaatgagtgagtAccttgtttctggatcaaggg	13	10	13	5	0	2	3	1	2	1	1	2	4	2	4	1	3	1	3	1	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:24453405A>G	uc001uox.3	-	4	639	c.539_splice	c.e4+1	p.R180_splice		NM_005932	NP_005923	Q99797	MIPEP_HUMAN	mitochondrial intermediate peptidase precursor						protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)		ATGAGTGAGTACCTTGTTTCT	0.264													6	183					0	0	1	0	0		G	24453405	G	G	24453405	5	3	27	1	0	0	0	0	0	0	1	0	9610	405	14	3	1664	3	MIPEP	13	24453405	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	220133	24453405	90716473	5721	28072											
C1QTNF9	338872	broad.mit.edu	37	chr13	24890300	24890300	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcgaagggtgacaaaggCgatgcaggtactcacctgac	12	5	15	9	2	1	2	1	2	0	0	1	5	1	3	1	4	3	2	1	4	3	1	rs140529849		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:24890300C>T	uc001upj.2	+	2	220	c.159C>T	c.(157-159)GGC>GGT	p.G53G	C1QTNF9_uc001upe.2_RNA	NM_178540	NP_848635	P0C862	C1T9A_HUMAN	C1q and tumor necrosis factor related protein 9	53	Collagen-like 1.					collagen	hormone activity				0		all_cancers(29;3.55e-20)|all_epithelial(30;4.25e-17)|all_lung(29;1.04e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.00565)|Epithelial(112;0.027)|OV - Ovarian serous cystadenocarcinoma(117;0.115)|Lung(94;0.159)		GTGACAAAGGCGATGCAGGTA	0.507													11	24					0	0	1	0	0		T	24890300	T	T	24890300	2	4	27	1	0	0	0	0	0	0	0	1	1973	755	27	1		1	C1QTNF9	13	24890300	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	436895	24890300	90279578	5722	28073											
PARP4	143	broad.mit.edu	37	chr13	25072362	25072362	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcctggcctccctccatTcccacctggaaaacaggatg	8	9	8	16	0	0	0	0	0	0	0	4	2	4	2	6	3	1	1	6	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:25072362T>C	uc001upl.2	-	6	589	c.483A>G	c.(481-483)GGA>GGG	p.G161G	PARP4_uc010tdc.1_Silent_p.G161G	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	161					cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		CTCCCTCCATTCCCACCTGGA	0.453													4	36					0	0	1	0	0		C	25072362	C	C	25072362	2	2	27	1	0	0	0	0	0	0	0	1	11482	1770	62	3		3	PARP4	13	25072362	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	182062	25072362	90097516	5723	28074											
ATP12A	479	broad.mit.edu	37	chr13	25276190	25276190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatcgcctcaacattgctGtggagcaagttaacaaacgg	13	8	9	11	2	1	0	1	0	0	0	2	1	1	1	1	2	5	3	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:25276190G>A	uc001upp.2	+	14	2186	c.1999G>A	c.(1999-2001)GTG>ATG	p.V667M	ATP12A_uc010aaa.2_Missense_Mutation_p.V673M	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	667	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	CAACATTGCTGTGGAGCAAGT	0.473													18	83					0	0	1	0	0		A	25276190	A	A	25276190	3	1	27	1	0	0	0	0	1	0	0	0	1123	1377	48	4	2071	4	ATP12A	13	25276190	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	203828	25276190	89893688	5724	28075											
RNF17	56163	broad.mit.edu	37	chr13	25451230	25451230	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccttaagggatctaggggAgacaagaataccatattgtc	13	10	10	8	0	1	2	0	0	1	2	3	4	2	3	2	3	1	0	2	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:25451230A>G	uc001upr.2	+	34	4720	c.4679A>G	c.(4678-4680)GAG>GGG	p.E1560G	RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.E1556G|RNF17_uc001ups.2_Missense_Mutation_p.E1499G|RNF17_uc010aac.2_Missense_Mutation_p.E752G|RNF17_uc010aad.2_Missense_Mutation_p.E570G	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	1560					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		GATCTAGGGGAGACAAGAATA	0.463													5	85					0	0	1	0	0		G	25451230	G	G	25451230	3	3	27	1	0	0	0	0	1	0	0	0	13486	304	11	3	4813	3	RNF17	13	25451230	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	175040	25451230	89718648	5725	28076											
CENPJ	55835	broad.mit.edu	37	chr13	25457393	25457393	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctgtacttcgtttcttgAtgaccgtttgcatatacggt	7	17	9	8	3	2	2	0	2	2	0	3	3	2	2	1	1	3	4	1	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:25457393A>T	uc001upt.3	-	17	4192	c.3939T>A	c.(3937-3939)CAT>CAA	p.H1313Q	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	1313					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		TCGTTTCTTGATGACCGTTTG	0.443													9	171					0	0	1	0	0		T	25457393	T	T	25457393	3	4	27	1	0	0	0	0	1	0	0	0	3237	330	12	5	81	5	CENPJ	13	25457393	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6163	25457393	89712485	5726	28077											
FAM123A	219287	broad.mit.edu	37	chr13	25745239	25745239	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctcccttgccgttttcCgagcgcccgttcttcttcag	2	14	9	16	4	4	0	1	0	3	0	6	1	5	0	4	1	2	3	4	1	0	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:25745239C>T	uc001uqb.2	-	1	619	c.519G>A	c.(517-519)TCG>TCA	p.S173S	FAM123A_uc001uqa.2_Silent_p.S173S|FAM123A_uc001uqc.2_Silent_p.S173S	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	173										ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		TGCCGTTTTCCGAGCGCCCGT	0.692													4	30					0	0	1	0	0		T	25745239	T	T	25745239	2	4	27	1	0	0	0	0	0	0	0	1	5433	639	23	1		1	FAM123A	13	25745239	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	287846	25745239	89424639	5727	28078											
MTMR6	9107	broad.mit.edu	37	chr13	25841985	25841985	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctgggaacaatgaaaTgcacagttctgaagttcttg	11	14	9	7	0	3	2	0	2	3	0	4	3	3	3	0	1	2	3	0	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:25841985T>C	uc001uqf.3	-	3	555	c.236A>G	c.(235-237)CAT>CGT	p.H79R	MTMR6_uc001uqe.1_Missense_Mutation_p.H79R	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	79						cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		AACAATGAAATGCACAGTTCT	0.398													5	62					0	0	1	0	0		C	25841985	C	C	25841985	3	2	27	1	0	0	0	0	1	0	0	0	9965	1464	51	3	1677	3	MTMR6	13	25841985	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	96746	25841985	89327893	5728	28079											
ATP8A2	51761	broad.mit.edu	37	chr13	26163837	26163837	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaggaggactctttggaTgtaagtagtttttcaaagtt	11	16	11	3	0	2	1	1	1	1	0	2	4	2	4	0	3	0	4	0	3	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:26163837T>C	uc001uqk.2	+	24	2353	c.2211T>C	c.(2209-2211)GAT>GAC	p.D737D	ATP8A2_uc010tdi.1_Silent_p.D697D|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Silent_p.D247D	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	697	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		ACTCTTTGGATGTAAGTAGTT	0.363													7	100					0	0	1	0	0		C	26163837	C	C	26163837	2	2	27	1	0	0	0	0	0	0	0	1	1194	1478	51	3		3	ATP8A2	13	26163837	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	321852	26163837	89006041	5729	28080											
WASF3	10810	broad.mit.edu	37	chr13	27241724	27241724	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaccagcaagtggtttcAaagaacagcattcctaatcc	15	8	7	11	0	1	2	1	0	0	2	3	2	3	2	3	1	3	3	3	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:27241724A>G	uc001uqv.2	+	5	564	c.339A>G	c.(337-339)TCA>TCG	p.S113S	WASF3_uc001uqw.2_Silent_p.S113S	NM_006646	NP_006637	Q9UPY6	WASF3_HUMAN	WAS protein family, member 3	113					actin filament polymerization	cytoplasm|cytoskeleton	actin binding			pancreas(1)	1	Colorectal(5;0.000247)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0114)|Epithelial(112;0.046)|OV - Ovarian serous cystadenocarcinoma(117;0.0547)|Lung(94;0.105)|LUSC - Lung squamous cell carcinoma(192;0.155)		AAGTGGTTTCAAAGAACAGCA	0.413													4	113					0	0	1	0	0		G	27241724	G	G	27241724	2	3	27	1	0	0	0	0	0	0	0	1	17280	117	5	3		3	WASF3	13	27241724	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1077887	27241724	87928154	5730	28081											
WASF3	10810	broad.mit.edu	37	chr13	27250821	27250821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgtctcagagtgtgtacCatggagcgtcttccgaggga	7	11	15	8	2	2	1	1	0	2	1	4	4	3	3	2	3	2	2	2	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:27250821C>T	uc001uqv.2	+	7	901	c.676C>T	c.(676-678)CAT>TAT	p.H226Y	WASF3_uc001uqw.2_Intron	NM_006646	NP_006637	Q9UPY6	WASF3_HUMAN	WAS protein family, member 3	226					actin filament polymerization	cytoplasm|cytoskeleton	actin binding			pancreas(1)	1	Colorectal(5;0.000247)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0114)|Epithelial(112;0.046)|OV - Ovarian serous cystadenocarcinoma(117;0.0547)|Lung(94;0.105)|LUSC - Lung squamous cell carcinoma(192;0.155)		GAGTGTGTACCATGGAGCGTC	0.517													5	95					0	0	1	0	0		T	27250821	T	T	27250821	3	4	27	1	0	0	0	0	1	0	0	0	17280	594	21	4	694	4	WASF3	13	27250821	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9097	27250821	87919057	5731	28082											
GPR12	2835	broad.mit.edu	37	chr13	27333537	27333537	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatggtacgtcagagcgtagTacagtgagaggtagcggtca	12	8	15	6	3	2	2	2	1	0	2	2	3	2	2	0	3	4	4	0	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:27333537T>A	uc010aal.2	-	2	650	c.428A>T	c.(427-429)TAC>TTC	p.Y143F	GPR12_uc010tdl.1_5'UTR	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	143	Cytoplasmic (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		CAGAGCGTAGTACAGTGAGAG	0.577													8	66					0	0	1	0	0		A	27333537	A	A	27333537	3	1	27	1	0	0	0	0	1	0	0	0	6650	1638	57	5	580	5	GPR12	13	27333537	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	82716	27333537	87836341	5732	28083											
CDX2	1045	broad.mit.edu	37	chr13	28537373	28537373	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctctgggacacttctcagaGgacctggctgaggctgggga	7	8	16	10	0	2	2	1	1	2	1	3	5	2	5	1	6	0	3	1	6	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:28537373G>T	uc001urv.2	-	3	995	c.821C>A	c.(820-822)CCT>CAT	p.P274H		NM_001265	NP_001256	Q99626	CDX2_HUMAN	caudal type homeobox 2	274					organ morphogenesis|transcription from RNA polymerase II promoter		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(110;0.191)|all_hematologic(3;0.0447)|Acute lymphoblastic leukemia(6;0.155)	Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0407)|all cancers(112;0.0491)|OV - Ovarian serous cystadenocarcinoma(117;0.199)		ACTTCTCAGAGGACCTGGCTG	0.552			T	ETV6	AML								7	50					0.0381472	0.0386818	1	1	0		T	28537373	T	T	28537373	3	4	27	1	0	0	0	0	1	0	0	0	3186	1000	35	5	124	5	CDX2	13	28537373	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1203836	28537373	86632505	5733	28084											
PAN3	255967	broad.mit.edu	37	chr13	28866538	28866538	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctagatgctggtgtgccagAaaaaataagcctgatttcca	13	10	10	8	0	0	3	0	1	0	2	1	3	1	3	3	1	3	2	3	1	5	3	rs77051153		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:28866538A>G	uc001urz.2	+	18	2113	c.2105A>G	c.(2104-2106)GAA>GGA	p.E702G	PAN3_uc001ury.2_Missense_Mutation_p.E536G|PAN3_uc001urx.2_Missense_Mutation_p.E648G	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	848	Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		GGTGTGCCAGAAAAAATAAGC	0.338													8	64					0	0	1	0	0		G	28866538	G	G	28866538	3	3	27	1	0	0	0	0	1	0	0	0	11434	246	9	3	2617	3	PAN3	13	28866538	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	329165	28866538	86303340	5734	28085											
FLT1	2321	broad.mit.edu	37	chr13	28931709	28931709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accttgaacagtgaggtatgCtgaactttccacagagccct	11	10	9	11	0	0	4	0	3	0	1	1	4	1	4	3	1	4	2	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:28931709C>T	uc001usb.3	-	15	2515	c.2230G>A	c.(2230-2232)GCA>ACA	p.A744T		NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	744	Ig-like C2-type 7.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	GTGAGGTATGCTGAACTTTCC	0.448													6	139					0	0	1	0	0		T	28931709	T	T	28931709	3	4	27	1	0	0	0	0	1	0	0	0	5955	797	28	2	1850	2	FLT1	13	28931709	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	65171	28931709	86238169	5735	28086											
FLT1	2321	broad.mit.edu	37	chr13	28959109	28959109	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacagtctaaagtggtggAactgctgatggccactgtgt	10	11	13	7	0	1	2	0	2	1	0	1	3	1	3	1	3	2	1	1	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:28959109A>C	uc001usb.3	-	14	2314	c.2029T>G	c.(2029-2031)TCC>GCC	p.S677A	FLT1_uc010aar.1_Missense_Mutation_p.S677A	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	677	Ig-like C2-type 7.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	AAAGTGGTGGAACTGCTGATG	0.453													14	142					0	0	1	0	0		C	28959109	C	C	28959109	3	2	27	1	0	0	0	0	1	0	0	0	5955	246	9	5	2145	5	FLT1	13	28959109	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	27400	28959109	86210769	5736	28087											
MTUS2	23281	broad.mit.edu	37	chr13	29855913	29855913	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taaggacacacccaagggggCcggccgggtggcccctccag	8	3	15	15	2	0	0	0	0	0	0	1	1	1	1	6	6	0	0	6	6	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:29855913C>G	uc001usl.3	+	4	2805	c.2747C>G	c.(2746-2748)GCC>GGC	p.A916G		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	906	Localization to the growing distal tip of microtubules.|Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						CCCAAGGGGGCCGGCCGGGTG	0.562													5	41					0	0	1	0	0		G	29855913	G	G	29855913	3	3	27	1	0	0	0	0	1	0	0	0	9984	739	26	5	2761	5	MTUS2	13	29855913	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	896804	29855913	85313965	5737	28088											
ALOX5AP	241	broad.mit.edu	37	chr13	31338107	31338107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctacatatttgggaaacGcatcatactcttcctgttcc	9	14	7	11	1	2	0	1	0	1	0	4	1	4	1	2	2	3	3	2	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:31338107G>A	uc001utf.1	+	5	424	c.350G>A	c.(349-351)CGC>CAC	p.R117H	ALOX5AP_uc010tdr.1_Missense_Mutation_p.R174H	NM_001629	NP_001620	P20292	AL5AP_HUMAN	arachidonate 5-lipoxygenase-activating protein	117	Inhibitor binding.|Helical.				cellular response to calcium ion|leukotriene biosynthetic process|leukotriene production involved in inflammatory response|protein homotrimerization	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	arachidonic acid binding|protein N-terminus binding				0		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0187)|Epithelial(112;0.0803)|OV - Ovarian serous cystadenocarcinoma(117;0.0864)		TTTGGGAAACGCATCATACTC	0.408													8	197					0	0	1	0	0		A	31338107	A	A	31338107	3	1	27	1	0	0	0	0	1	0	0	0	541	1087	38	1	368	1	ALOX5AP	13	31338107	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1482194	31338107	83831771	5738	28089											
B3GALTL	145173	broad.mit.edu	37	chr13	31821211	31821211	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctaaacaagaaggtgcaTggaccatacttccgttgtta	12	11	10	8	1	0	1	0	0	0	1	1	2	1	2	2	3	3	4	2	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:31821211T>C	uc010aaz.2	+	5	432	c.322T>C	c.(322-324)TGG>CGG	p.W108R		NM_194318	NP_919299	Q6Y288	B3GLT_HUMAN	beta 1,3-galactosyltransferase-like	108	Lumenal (Potential).				fucose metabolic process	endoplasmic reticulum membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2		Lung SC(185;0.0257)		all cancers(112;0.00436)|Epithelial(112;0.0285)|OV - Ovarian serous cystadenocarcinoma(117;0.0512)|GBM - Glioblastoma multiforme(144;0.184)		AGAAGGTGCATGGACCATACT	0.418													5	58					0	0	1	0	0		C	31821211	C	C	31821211	3	2	27	1	0	0	0	0	1	0	0	0	1253	1464	51	3	340	3	B3GALTL	13	31821211	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	483104	31821211	83348667	5739	28090											
RXFP2	122042	broad.mit.edu	37	chr13	32332460	32332460	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatattttccctgtgggAatcttaccaagtgcttaccc	10	13	8	10	0	1	0	0	0	1	0	2	2	2	2	3	2	3	1	3	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:32332460A>G	uc001utt.2	+	2	231	c.160A>G	c.(160-162)AAT>GAT	p.N54D	RXFP2_uc010aba.2_Missense_Mutation_p.N37D	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	54	Extracellular (Potential).|LDL-receptor class A.					integral to membrane|plasma membrane					0		Lung SC(185;0.0262)		all cancers(112;0.000559)|Epithelial(112;0.0017)|OV - Ovarian serous cystadenocarcinoma(117;0.0145)|BRCA - Breast invasive adenocarcinoma(63;0.0535)		TCCCTGTGGGAATCTTACCAA	0.488													10	121					0	0	1	0	0		G	32332460	G	G	32332460	3	3	27	1	0	0	0	0	1	0	0	0	13785	246	9	3	166	3	RXFP2	13	32332460	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	511249	32332460	82837418	5740	28091											
FRY	10129	broad.mit.edu	37	chr13	32808832	32808832	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagcaacctctgtcagcAcatgccttatctgaccttct	9	12	5	15	0	5	1	2	1	3	0	5	1	5	1	3	0	4	2	3	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:32808832A>G	uc001utx.2	+	42	6145	c.5649A>G	c.(5647-5649)GCA>GCG	p.A1883A	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1883					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CTCTGTCAGCACATGCCTTAT	0.512													7	88					0	0	1	0	0		G	32808832	G	G	32808832	2	3	27	1	0	0	0	0	0	0	0	1	6077	146	6	3		3	FRY	13	32808832	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	476372	32808832	82361046	5741	28092											
FRY	10129	broad.mit.edu	37	chr13	32839709	32839709	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcctggacatgactgagggGgaagaaaaaggcaatcgggc	14	4	16	7	1	0	3	0	2	0	1	1	5	0	5	1	5	1	1	1	5	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:32839709G>T	uc001utx.2	+	54	8398	c.7902G>T	c.(7900-7902)GGG>GGT	p.G2634G	FRY_uc010tdw.1_RNA|FRY_uc001uty.2_Silent_p.G189G|FRY_uc001utz.2_Silent_p.G159G|FRY_uc010tdx.1_Silent_p.G4G	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2634					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		TGACTGAGGGGGAAGAAAAAG	0.502													4	39					0.00024832	0.000261516	1	1	0		T	32839709	T	T	32839709	2	4	27	1	0	0	0	0	0	0	0	1	6077	1219	43	5		5	FRY	13	32839709	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	30877	32839709	82330169	5742	28093											
FRY	10129	broad.mit.edu	37	chr13	32841346	32841346	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtctctccccctccctcGcccttcttctcagccatcct	3	12	5	21	1	3	0	1	0	3	0	9	1	6	1	6	1	1	0	6	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:32841346G>A	uc001utx.2	+	55	8482	c.7986G>A	c.(7984-7986)TCG>TCA	p.S2662S	FRY_uc010tdw.1_RNA|FRY_uc001uty.2_Silent_p.S217S|FRY_uc001utz.2_Silent_p.S187S|FRY_uc010tdx.1_Silent_p.S32S	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2662					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CCCCTCCCTCGCCCTTCTTCT	0.542													21	139					0	0	1	0	0		A	32841346	A	A	32841346	2	1	27	1	0	0	0	0	0	0	0	1	6077	1074	38	1		1	FRY	13	32841346	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1637	32841346	82328532	5743	28094											
FRY	10129	broad.mit.edu	37	chr13	32868689	32868689	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaactcggcaaagctttgcGgcagatcagggagtgcaggt	10	7	15	9	3	1	1	1	0	0	1	2	3	1	2	0	4	4	4	0	4	2	1	rs147607259	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:32868689G>T	uc001utx.2	+	60	9261	c.8765G>T	c.(8764-8766)CGG>CTG	p.R2922L	FRY_uc010tdw.1_RNA|FRY_uc001utz.2_Missense_Mutation_p.R453L|FRY_uc010tdx.1_Missense_Mutation_p.R292L	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2922					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		AAAGCTTTGCGGCAGATCAGG	0.547													4	41					0.00909568	0.0093211	1	1	0		T	32868689	T	T	32868689	3	4	27	1	0	0	0	0	1	0	0	0	6077	1116	39	5	9003	5	FRY	13	32868689	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27343	32868689	82301189	5744	28095											
BRCA2	675	broad.mit.edu	37	chr13	32906609	32906609	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagcaagactaggaaaaaaAttttccatgaagcaaacgct	18	8	7	8	1	0	2	0	1	0	1	1	3	1	3	1	1	3	3	1	1	8	4	rs80359778		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:32906609A>T	uc001uub.1	+	10	1221	c.994A>T	c.(994-996)ATT>TTT	p.I332F	BRCA2_uc001uua.1_Missense_Mutation_p.I209F	NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	332					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TAGGAAAAAAATTTTCCATGA	0.299			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			11	142					0	0	1	0	0		T	32906609	T	T	32906609	3	4	27	1	0	0	0	0	1	0	0	0	1502	101	4	5	1028	5	BRCA2	13	32906609	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37920	32906609	82263269	5745	28096											
KL	9365	broad.mit.edu	37	chr13	33635256	33635256	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaagagctcggccatcaCgtcaagctttggataacgat	11	11	9	10	3	3	1	3	0	0	1	4	3	3	2	1	2	3	2	1	2	3	3	rs138723796	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:33635256C>T	uc001uus.2	+	4	2048	c.2040C>T	c.(2038-2040)CAC>CAT	p.H680H	KL_uc001uur.1_3'UTR	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	680	Glycosyl hydrolase-1 2.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		TCGGCCATCACGTCAAGCTTT	0.572													5	46					0	0	1	0	0		T	33635256	T	T	33635256	2	4	27	1	0	0	0	0	0	0	0	1	8347	535	19	1		1	KL	13	33635256	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	728647	33635256	81534622	5746	28097											
STARD13	90627	broad.mit.edu	37	chr13	33692261	33692261	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaagaggctcagggaggTcccggaagaactgtttcacc	12	7	13	9	1	2	3	2	1	0	2	3	5	3	5	2	4	1	2	2	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:33692261T>A	uc001uuw.2	-	8	2348	c.2222A>T	c.(2221-2223)GAC>GTC	p.D741V	STARD13_uc001uuu.2_Missense_Mutation_p.D733V|STARD13_uc001uuv.2_Missense_Mutation_p.D623V|STARD13_uc001uux.2_Missense_Mutation_p.D706V|STARD13_uc010tec.1_RNA	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	741	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		CTCAGGGAGGTCCCGGAAGAA	0.463													9	83					0	0	1	0	0		A	33692261	A	A	33692261	3	1	27	1	0	0	0	0	1	0	0	0	15281	1667	58	5	1147	5	STARD13	13	33692261	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	57005	33692261	81477617	5747	28098											
STARD13	90627	broad.mit.edu	37	chr13	33703177	33703177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccacatcactgggtgtcGtccgaccttctgagacagag	8	11	10	12	2	2	2	1	1	1	2	5	4	4	2	3	1	0	0	3	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:33703177G>A	uc001uuw.2	-	5	1763	c.1637C>T	c.(1636-1638)ACG>ATG	p.T546M	STARD13_uc001uuu.2_Missense_Mutation_p.T538M|STARD13_uc001uuv.2_Missense_Mutation_p.T428M|STARD13_uc001uux.2_Missense_Mutation_p.T511M|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Missense_Mutation_p.T531M	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	546					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		ACTGGGTGTCGTCCGACCTTC	0.483													9	73					0	0	1	0	0		A	33703177	A	A	33703177	3	1	27	1	0	0	0	0	1	0	0	0	15281	1145	40	1	1744	1	STARD13	13	33703177	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10916	33703177	81466701	5748	28099											
STARD13	90627	broad.mit.edu	37	chr13	33703965	33703965	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgggcccactgatcaccagGccacctgtccgcccagaccc	8	5	9	19	1	1	2	1	1	0	1	2	2	2	2	7	2	0	0	7	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:33703965G>A	uc001uuw.2	-	5	975	c.849C>T	c.(847-849)GGC>GGT	p.G283G	STARD13_uc001uuu.2_Silent_p.G275G|STARD13_uc001uuv.2_Silent_p.G165G|STARD13_uc001uux.2_Silent_p.G248G|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Silent_p.G268G	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	283					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		TGATCACCAGGCCACCTGTCC	0.567													5	95					0	0	1	0	0		A	33703965	A	A	33703965	2	1	27	1	0	0	0	0	0	0	0	1	15281	1190	42	2		2	STARD13	13	33703965	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	788	33703965	81465913	5749	28100											
NBEA	26960	broad.mit.edu	37	chr13	36242655	36242655	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacttgtcccatgaccagAggtgagctgcgtcaaggaca	10	8	13	10	1	1	3	1	2	0	1	2	5	2	5	2	3	2	1	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:36242655A>C	uc001uvb.2	+	57	8955	c.8749A>C	c.(8749-8751)AGG>CGG	p.R2917R	NBEA_uc010abi.2_Silent_p.R1575R|NBEA_uc010tef.1_Silent_p.R710R|NBEA_uc001uvd.2_Silent_p.R495R	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2917	WD 5.					cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CCATGACCAGAGGTGAGCTGC	0.488													4	45					0	0	1	0	0		C	36242655	C	C	36242655	2	2	27	1	0	0	0	0	0	0	0	1	10205	318	11	5		5	NBEA	13	36242655	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2538690	36242655	78927223	5750	28101											
DCLK1	9201	broad.mit.edu	37	chr13	36348794	36348794	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctcacatcctggttgcGtcttcgtcggaaaacctgcc	6	11	9	15	3	2	0	1	0	1	0	6	1	4	1	4	2	3	2	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:36348794G>A	uc001uvf.2	-	18	2408	c.2175C>T	c.(2173-2175)GAC>GAT	p.D725D	DCLK1_uc001uve.3_Silent_p.D418D|DCLK1_uc010teh.1_Missense_Mutation_p.R394C|DCLK1_uc010abk.2_Silent_p.D245D	NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	Error:Variant_position_missing_in_O15075_after_alignment					cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		TCCTGGTTGCGTCTTCGTCGG	0.542													3	14					0	0	1	0	0		A	36348794	A	A	36348794	2	1	27	1	0	0	0	0	0	0	0	1	4294	1136	40	1		1	DCLK1	13	36348794	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	106139	36348794	78821084	5751	28102											
DCLK1	9201	broad.mit.edu	37	chr13	36699987	36699987	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggcaaattcacgttatcCgacagagttcgggtcaaatc	11	10	11	9	3	2	1	2	0	0	1	5	2	3	1	1	3	0	3	1	3	3	3	rs141898843		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:36699987C>T	uc001uvf.2	-	2	521	c.288G>A	c.(286-288)TCG>TCA	p.S96S		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	96	Doublecortin 1.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		TCACGTTATCCGACAGAGTTC	0.517													7	59					0	0	1	0	0		T	36699987	T	T	36699987	2	4	27	1	0	0	0	0	0	0	0	1	4294	639	23	1		1	DCLK1	13	36699987	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	351193	36699987	78469891	5752	28103											
SPG20	23111	broad.mit.edu	37	chr13	36909169	36909169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgcttacctgaagaaaccCgggaggacggtttagaaccg	11	8	12	10	4	0	3	0	1	0	2	1	5	0	5	3	3	3	2	3	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:36909169C>T	uc001uvn.2	-	3	1069	c.799G>A	c.(799-801)GGG>AGG	p.G267R	SPG20_uc010ten.1_Missense_Mutation_p.G267R|SPG20_uc001uvm.2_Missense_Mutation_p.G267R|SPG20_uc001uvo.2_Missense_Mutation_p.G267R|SPG20_uc001uvq.2_Missense_Mutation_p.G267R|SPG20_uc001uvp.2_Missense_Mutation_p.G267R	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	267					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		TGAAGAAACCCGGGAGGACGG	0.393													28	122					0	0	1	0	0		T	36909169	T	T	36909169	3	4	27	1	0	0	0	0	1	0	0	0	15067	652	23	1	1233	1	SPG20	13	36909169	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	209182	36909169	78260709	5753	28104											
FAM48A	55578	broad.mit.edu	37	chr13	37614783	37614783	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgttactggactgcctgTagtcacgtatttctgctatg	7	16	9	9	1	3	0	2	0	1	0	3	1	3	1	1	1	3	4	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:37614783T>C	uc001uwg.2	-	8	691	c.443A>G	c.(442-444)TAC>TGC	p.Y148C	FAM48A_uc010abt.2_Missense_Mutation_p.Y149C|FAM48A_uc001uwh.2_Missense_Mutation_p.Y149C|FAM48A_uc001uwi.2_Missense_Mutation_p.Y148C|FAM48A_uc001uwj.2_Missense_Mutation_p.Y149C|FAM48A_uc001uwk.2_Missense_Mutation_p.Y148C|FAM48A_uc010tes.1_Missense_Mutation_p.Y136C|FAM48A_uc001uwl.1_Missense_Mutation_p.Y148C	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A	148					autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		GGACTGCCTGTAGTCACGTAT	0.358													6	61					0	0	1	0	0		C	37614783	C	C	37614783	3	2	27	1	0	0	0	0	1	0	0	0	5586	1638	57	3	1972	3	FAM48A	13	37614783	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	705614	37614783	77555095	5754	28105											
POSTN	10631	broad.mit.edu	37	chr13	38153250	38153250	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattcattcaccagaagtgtAtcatttacctatcaaaatag	16	13	4	8	0	4	1	4	0	0	1	4	1	4	1	2	0	1	1	2	0	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:38153250A>G	uc001uwo.3	-	14	1918	c.1800T>C	c.(1798-1800)GAT>GAC	p.D600D	POSTN_uc010tet.1_Silent_p.D128D|POSTN_uc001uwp.3_Silent_p.D600D|POSTN_uc001uwr.2_Silent_p.D600D|POSTN_uc001uwq.2_Silent_p.D600D|POSTN_uc010teu.1_Silent_p.D600D|POSTN_uc010tev.1_Silent_p.D600D|POSTN_uc010tew.1_Silent_p.D600D	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	600	FAS1 4.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		CCAGAAGTGTATCATTTACCT	0.308													4	41					0	0	1	0	0		G	38153250	G	G	38153250	2	3	27	1	0	0	0	0	0	0	0	1	12278	446	16	3		3	POSTN	13	38153250	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	538467	38153250	77016628	5755	28106											
FREM2	341640	broad.mit.edu	37	chr13	39263259	39263259	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgacatggattcagatgAttctctgctgctttttgtgc	8	16	9	8	0	2	3	1	2	1	1	3	4	2	4	0	1	4	2	0	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:39263259A>T	uc001uwv.2	+	1	2087	c.1778A>T	c.(1777-1779)GAT>GTT	p.D593V		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	593	CSPG 3.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GATTCAGATGATTCTCTGCTG	0.537													7	68					0	0	1	0	0		T	39263259	T	T	39263259	3	4	27	1	0	0	0	0	1	0	0	0	6059	333	12	5	1780	5	FREM2	13	39263259	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1110009	39263259	75906619	5756	28107											
FREM2	341640	broad.mit.edu	37	chr13	39432107	39432107	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatccctgttgatgtatgaCgacacttccaaagctaagga	12	11	9	9	1	0	2	0	2	0	0	2	4	2	3	2	1	1	4	2	1	4	5	rs142939064		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:39432107C>T	uc001uwv.2	+	13	7461	c.7152C>T	c.(7150-7152)GAC>GAT	p.D2384D	FREM2_uc001uww.2_Silent_p.D470D	NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2384	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TGATGTATGACGACACTTCCA	0.418													25	58					0	0	1	0	0		T	39432107	T	T	39432107	2	4	27	1	0	0	0	0	0	0	0	1	6059	535	19	1		1	FREM2	13	39432107	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	168848	39432107	75737771	5757	28108											
FREM2	341640	broad.mit.edu	37	chr13	39450201	39450201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catgtcagctgatcatccagGcctgacattttccctccgcc	7	11	7	16	1	2	2	2	2	0	0	5	2	5	2	5	1	1	1	5	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:39450201G>A	uc001uwv.2	+	19	8633	c.8324G>A	c.(8323-8325)GGC>GAC	p.G2775D		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2775	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GATCATCCAGGCCTGACATTT	0.418													11	128					0	0	1	0	0		A	39450201	A	A	39450201	3	1	27	1	0	0	0	0	1	0	0	0	6059	1203	42	2	8398	2	FREM2	13	39450201	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	18094	39450201	75719677	5758	28109											
C13orf23	80209	broad.mit.edu	37	chr13	39587269	39587269	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgggttgccagttaaaggaAaattgttggtcaaagaagta	15	11	12	3	0	1	1	1	0	0	1	1	2	1	2	1	3	1	4	1	3	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:39587269A>T	uc001uwy.2	-	11	2993	c.2120T>A	c.(2119-2121)TTT>TAT	p.F707Y	C13orf23_uc001uwz.2_Missense_Mutation_p.F685Y	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	707	Ser-rich.									ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		AGTTAAAGGAAAATTGTTGGT	0.463													15	117					0	0	1	0	0		T	39587269	T	T	39587269	3	4	27	1	0	0	0	0	1	0	0	0	1724	14	1	5	726	5	C13orf23	13	39587269	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	137068	39587269	75582609	5759	28110											
C13orf23	80209	broad.mit.edu	37	chr13	39587655	39587655	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccacgcaaaagggaggcTgaggagccacagctaactgg	12	3	16	10	1	0	1	0	1	0	0	0	3	0	3	2	5	3	3	2	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:39587655T>C	uc001uwy.2	-	11	2607	c.1734A>G	c.(1732-1734)TCA>TCG	p.S578S	C13orf23_uc001uwz.2_Silent_p.S556S	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	578	Ser-rich.									ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		AAAGGGAGGCTGAGGAGCCAC	0.527													10	104					0	0	1	0	0		C	39587655	C	C	39587655	2	2	27	1	0	0	0	0	0	0	0	1	1724	1567	55	3		3	C13orf23	13	39587655	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	386	39587655	75582223	5760	28111											
COG6	57511	broad.mit.edu	37	chr13	40251660	40251660	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttcttatccaagttccaaCtgacttctgatgaaatgagt	11	14	6	10	0	2	4	0	4	2	0	4	4	4	4	3	0	1	1	3	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:40251660C>T	uc001uxh.2	+	5	584	c.484C>T	c.(484-486)CTG>TTG	p.L162L	COG6_uc001uxi.2_Silent_p.L110L|COG6_uc010acb.2_Silent_p.L162L	NM_020751	NP_065802	Q9Y2V7	COG6_HUMAN	component of oligomeric golgi complex 6 isoform	162					protein transport	Golgi membrane|Golgi transport complex				kidney(1)|skin(1)	2		Lung NSC(96;0.000124)|Breast(139;0.0199)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.03e-09)|Epithelial(112;7e-07)|OV - Ovarian serous cystadenocarcinoma(117;0.00015)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.0168)		CAAGTTCCAACTGACTTCTGA	0.363													9	44					0	0	1	0	0		T	40251660	T	T	40251660	2	4	27	1	0	0	0	0	0	0	0	1	3665	564	20	4		4	COG6	13	40251660	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	664005	40251660	74918218	5761	28112											
COG6	57511	broad.mit.edu	37	chr13	40261756	40261756	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaattgaaatgcattctcAtgaccctttgaggtatagta	13	13	7	8	0	1	3	1	3	1	0	2	3	1	3	2	1	1	3	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:40261756A>G	uc001uxh.2	+	9	1005	c.905A>G	c.(904-906)CAT>CGT	p.H302R	COG6_uc001uxi.2_Missense_Mutation_p.H250R|COG6_uc010acb.2_Missense_Mutation_p.H302R	NM_020751	NP_065802	Q9Y2V7	COG6_HUMAN	component of oligomeric golgi complex 6 isoform	302					protein transport	Golgi membrane|Golgi transport complex				kidney(1)|skin(1)	2		Lung NSC(96;0.000124)|Breast(139;0.0199)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.03e-09)|Epithelial(112;7e-07)|OV - Ovarian serous cystadenocarcinoma(117;0.00015)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.0168)		ATGCATTCTCATGACCCTTTG	0.413													6	97					0	0	1	0	0		G	40261756	G	G	40261756	3	3	27	1	0	0	0	0	1	0	0	0	3665	217	8	3	939	3	COG6	13	40261756	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10096	40261756	74908122	5762	28113											
ELF1	1997	broad.mit.edu	37	chr13	41508099	41508099	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggcactgtttggagtgttActgtatgcaactgctgattc	7	15	12	7	0	0	1	0	1	0	0	1	2	0	2	0	2	4	6	0	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:41508099A>G	uc001uxs.2	-	9	1695	c.1322T>C	c.(1321-1323)GTA>GCA	p.V441A	ELF1_uc010tfc.1_Missense_Mutation_p.V417A|ELF1_uc010acd.2_Missense_Mutation_p.V334A	NM_172373	NP_758961	P32519	ELF1_HUMAN	E74-like factor 1 (ets domain transcription	441					positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung NSC(96;8.3e-05)|Prostate(109;0.0233)|Breast(139;0.0296)|Lung SC(185;0.0367)		all cancers(112;1.87e-08)|Epithelial(112;8.45e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000202)|GBM - Glioblastoma multiforme(144;0.00266)|BRCA - Breast invasive adenocarcinoma(63;0.072)		TTGGAGTGTTACTGTATGCAA	0.423													5	200					0	0	1	0	0		G	41508099	G	G	41508099	3	3	27	1	0	0	0	0	1	0	0	0	5061	391	14	3	541	3	ELF1	13	41508099	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1246343	41508099	73661779	5763	28114											
KBTBD6	89890	broad.mit.edu	37	chr13	41706252	41706252	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcactgagagacacacgAcccgtgtagcagtagtcgac	11	6	11	13	3	1	2	1	1	0	1	2	5	1	2	2	0	1	3	2	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:41706252A>T	uc001uxu.1	-	1	685	c.396T>A	c.(394-396)GGT>GGA	p.G132G	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Silent_p.G66G|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	132	BTB.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		GAGACACACGACCCGTGTAGC	0.602													5	56					0	0	1	0	0		T	41706252	T	T	41706252	2	4	27	1	0	0	0	0	0	0	0	1	8013	262	10	5		5	KBTBD6	13	41706252	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	198153	41706252	73463626	5764	28115											
NAA16	79612	broad.mit.edu	37	chr13	41902913	41902913	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagccagtgaagtgttcaaaAacttgattgatcgaaatgca	16	10	9	6	1	1	3	1	3	0	0	2	4	1	3	1	0	3	2	1	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:41902913A>G	uc001uyf.2	+	7	1069	c.745A>G	c.(745-747)AAC>GAC	p.N249D	NAA16_uc010tfg.1_RNA|NAA16_uc001uye.3_Missense_Mutation_p.N249D|NAA16_uc001uyd.3_Missense_Mutation_p.N249D	NM_024561	NP_078837	Q6N069	NAA16_HUMAN	NMDA receptor regulated 1-like protein isoform	249	TPR 4.				N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent	cytoplasm|transcription factor complex	binding			central_nervous_system(1)	1						AGTGTTCAAAAACTTGATTGA	0.289													14	118					0	0	1	0	0		G	41902913	G	G	41902913	3	3	27	1	0	0	0	0	1	0	0	0	10137	14	1	3	771	3	NAA16	13	41902913	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	196661	41902913	73266965	5765	28116											
KIAA0564	23078	broad.mit.edu	37	chr13	42295544	42295544	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgacaacttctctggtagAataaggatagttaataatcc	14	13	8	6	0	1	2	0	1	1	1	3	3	2	3	1	2	1	3	1	2	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:42295544A>G	uc001uyj.2	-	25	2996	c.2926T>C	c.(2926-2928)TCT>CCT	p.S976P	KIAA0564_uc001uyk.2_Missense_Mutation_p.S976P	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	976						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		TCTCTGGTAGAATAAGGATAG	0.433													9	195					0	0	1	0	0		G	42295544	G	G	42295544	3	3	27	1	0	0	0	0	1	0	0	0	8201	246	9	3	2879	3	KIAA0564	13	42295544	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	392631	42295544	72874334	5766	28117											
KIAA0564	23078	broad.mit.edu	37	chr13	42303761	42303761	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacacgtgacatttgttggaGctttgtcagcctcatctact	8	15	8	10	1	3	1	2	1	1	0	3	2	3	2	1	1	4	2	1	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:42303761G>T	uc001uyj.2	-	23	2625	c.2555C>A	c.(2554-2556)GCT>GAT	p.A852D	KIAA0564_uc001uyk.2_Missense_Mutation_p.A852D	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	852						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		ATTTGTTGGAGCTTTGTCAGC	0.348													19	68					7.45023e-12	8.27399e-12	1	1	0		T	42303761	T	T	42303761	3	4	27	1	0	0	0	0	1	0	0	0	8201	971	34	5	3258	5	KIAA0564	13	42303761	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8217	42303761	72866117	5767	28118											
KIAA0564	23078	broad.mit.edu	37	chr13	42385394	42385394	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttagtaacagcactgtgaAgattttcattaggatactgt	12	15	8	6	0	1	2	1	1	0	1	1	3	1	3	0	1	3	2	0	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:42385394A>G	uc001uyj.2	-	17	2100	c.2030T>C	c.(2029-2031)CTT>CCT	p.L677P	KIAA0564_uc001uyk.2_Missense_Mutation_p.L677P	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	677						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		AGCACTGTGAAGATTTTCATT	0.383													10	142					0	0	1	0	0		G	42385394	G	G	42385394	3	3	27	1	0	0	0	0	1	0	0	0	8201	72	3	3	3807	3	KIAA0564	13	42385394	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	81633	42385394	72784484	5768	28119											
KIAA0564	23078	broad.mit.edu	37	chr13	42407516	42407516	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatacccacctttgcaatAcagcaagcgtgcccgcattc	10	9	6	16	2	1	0	1	0	0	0	2	0	1	0	3	0	6	3	3	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:42407516A>C	uc001uyj.2	-	13	1647	c.1577T>G	c.(1576-1578)GTA>GGA	p.V526G	KIAA0564_uc001uyk.2_Missense_Mutation_p.V526G	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	526						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		CCTTTGCAATACAGCAAGCGT	0.498													3	40					0	0	1	0	0		C	42407516	C	C	42407516	3	2	27	1	0	0	0	0	1	0	0	0	8201	391	14	5	4276	5	KIAA0564	13	42407516	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	22122	42407516	72762362	5769	28120											
KIAA0564	23078	broad.mit.edu	37	chr13	42457538	42457538	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacctttaaaacaccttcCacagccatcttcccttcatg	10	12	2	17	0	3	0	2	0	1	0	5	0	5	0	5	0	2	0	5	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:42457538C>T	uc001uyj.2	-	9	1135	c.1065G>A	c.(1063-1065)GTG>GTA	p.V355V	KIAA0564_uc001uyk.2_Silent_p.V355V	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	355						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		AAACACCTTCCACAGCCATCT	0.259													5	66					0	0	1	0	0		T	42457538	T	T	42457538	2	4	27	1	0	0	0	0	0	0	0	1	8201	581	21	4		4	KIAA0564	13	42457538	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	50022	42457538	72712340	5770	28121											
DGKH	160851	broad.mit.edu	37	chr13	42729868	42729868	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgcctgctcccacgcccgAcccaccttctgtaacgtgtg	6	9	8	18	4	1	0	0	0	1	0	2	1	2	0	5	0	3	2	5	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:42729868A>G	uc001uyl.1	+	5	576	c.555A>G	c.(553-555)CGA>CGG	p.R185R	DGKH_uc010tfh.1_Silent_p.R185R|DGKH_uc001uym.1_Silent_p.R185R|DGKH_uc010tfi.1_Missense_Mutation_p.D18G|DGKH_uc010tfj.1_Silent_p.R40R|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Silent_p.R40R|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	185	Phorbol-ester/DAG-type 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		CCCACGCCCGACCCACCTTCT	0.527													5	87					0	0	1	0	0		G	42729868	G	G	42729868	2	3	27	1	0	0	0	0	0	0	0	1	4476	262	10	3		3	DGKH	13	42729868	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	272330	42729868	72440010	5771	28122											
DGKH	160851	broad.mit.edu	37	chr13	42795459	42795459	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgctcaatttgggagagTacaaagatatcttcatccgt	12	13	8	8	1	4	2	2	0	2	2	5	3	5	2	1	1	2	2	1	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:42795459T>C	uc001uyl.1	+	29	3523	c.3502T>C	c.(3502-3504)TAC>CAC	p.Y1168H	DGKH_uc010tfh.1_Intron|DGKH_uc001uym.1_Intron|DGKH_uc010tfi.1_Intron|DGKH_uc010tfj.1_Missense_Mutation_p.Y1023H|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Missense_Mutation_p.Y1023H|DGKH_uc001uyp.2_Intron	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	1168	SAM.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		TTTGGGAGAGTACAAAGATAT	0.438													8	106					0	0	1	0	0		C	42795459	C	C	42795459	3	2	27	1	0	0	0	0	1	0	0	0	4476	1638	57	3	3616	3	DGKH	13	42795459	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	65591	42795459	72374419	5772	28123											
AKAP11	11215	broad.mit.edu	37	chr13	42872729	42872729	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacatcaccaagacttaggAttgattttatctttagtctc	11	16	5	9	0	3	2	1	1	2	1	4	3	3	3	1	1	1	0	1	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:42872729A>T	uc001uys.1	+	7	587	c.412A>T	c.(412-414)ATT>TTT	p.I138F		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	138					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		AAGACTTAGGATTGATTTTAT	0.363													11	113					0	0	1	0	0		T	42872729	T	T	42872729	3	4	27	1	0	0	0	0	1	0	0	0	447	333	12	5	430	5	AKAP11	13	42872729	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	77270	42872729	72297149	5773	28124											
AKAP11	11215	broad.mit.edu	37	chr13	42893313	42893313	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgatggaaaaagcttcCagtgaggagagatgcaagtc	15	7	14	5	0	0	3	0	2	0	1	2	7	1	5	1	2	2	2	1	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:42893313C>A	uc001uys.1	+	13	5830	c.5655C>A	c.(5653-5655)TCC>TCA	p.S1885S		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	1885					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		AAAAAGCTTCCAGTGAGGAGA	0.418													3	25					1	1	1	1	0		A	42893313	A	A	42893313	2	1	27	1	0	0	0	0	0	0	0	1	447	581	21	5		5	AKAP11	13	42893313	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20584	42893313	72276565	5774	28125											
ENOX1	55068	broad.mit.edu	37	chr13	43918714	43918714	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcatttttaaaattctcCttggcttcctccatctcttg	8	17	5	11	0	2	0	0	0	2	0	6	0	4	0	3	2	0	2	3	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:43918714C>A	uc001uza.3	-	9	1296	c.996G>T	c.(994-996)AAG>AAT	p.K332N	ENOX1_uc001uzb.3_Missense_Mutation_p.K332N|ENOX1_uc001uzc.3_Missense_Mutation_p.K332N|ENOX1_uc001uyz.3_Translation_Start_Site|ENOX1_uc010tfm.1_Missense_Mutation_p.K145N	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	332	Potential.				electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		TAAAATTCTCCTTGGCTTCCT	0.423													4	109					0.00024832	0.000261516	1	1	0		A	43918714	A	A	43918714	3	1	27	1	0	0	0	0	1	0	0	0	5134	680	24	5	971	5	ENOX1	13	43918714	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1025401	43918714	71251164	5775	28126											
C13orf31	144811	broad.mit.edu	37	chr13	44458051	44458051	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcagatccagtcaaaaaaGcatgtggggttgctcacgct	11	10	11	9	1	2	1	2	0	0	1	3	1	3	1	1	2	3	5	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:44458051G>T	uc010acg.2	+	4	1371	c.886G>T	c.(886-888)GCA>TCA	p.A296S	C13orf31_uc001uzf.3_Missense_Mutation_p.A296S	NM_001128303	NP_001121775	Q8IV20	CM031_HUMAN	hypothetical protein LOC144811	296											0		Lung NSC(96;0.000163)|all_hematologic(4;0.0127)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Breast(139;0.0364)|Lung SC(185;0.0367)|Acute lymphoblastic leukemia(4;0.138)		GBM - Glioblastoma multiforme(144;0.000573)|BRCA - Breast invasive adenocarcinoma(63;0.121)		AGTCAAAAAAGCATGTGGGGT	0.348													5	80					0.014758	0.0150623	1	1	0		T	44458051	T	T	44458051	3	4	27	1	0	0	0	0	1	0	0	0	1729	971	34	5	896	5	C13orf31	13	44458051	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	539337	44458051	70711827	5776	28127											
TSC22D1	8848	broad.mit.edu	37	chr13	45008970	45008970	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgatttgctctttgaggAcctccacttcttctctgacc	5	17	6	13	0	3	3	0	3	3	0	5	4	4	4	3	1	1	1	3	1	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:45008970A>G	uc001uzn.3	-	3	3505	c.3014T>C	c.(3013-3015)GTC>GCC	p.V1005A	TSC22D1_uc001uzo.1_Intron|TSC22D1_uc001uzm.3_Missense_Mutation_p.V76A	NM_183422	NP_904358	Q15714	T22D1_HUMAN	TSC22 domain family, member 1 isoform 1	1005					transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(4;8.74e-08)|Acute lymphoblastic leukemia(4;1.78e-07)|Lung NSC(96;2.21e-05)|Breast(139;0.000625)|Prostate(109;0.000947)|Hepatocellular(98;0.0202)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000522)|BRCA - Breast invasive adenocarcinoma(63;0.118)		CTCTTTGAGGACCTCCACTTC	0.433													4	132					0	0	1	0	0		G	45008970	G	G	45008970	3	3	27	1	0	0	0	0	1	0	0	0	16633	275	10	3	211	3	TSC22D1	13	45008970	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	550919	45008970	70160908	5777	28128											
NUFIP1	26747	broad.mit.edu	37	chr13	45553376	45553376	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctggagtgtctaacttgAtcttcttcatgccaggagca	8	13	9	11	0	5	1	1	1	4	0	5	3	5	3	2	2	3	1	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:45553376A>G	uc001uzp.2	-	5	725	c.683T>C	c.(682-684)ATC>ACC	p.I228T		NM_012345	NP_036477	Q9UHK0	NUFP1_HUMAN	nuclear fragile X mental retardation protein	228					box C/D snoRNP assembly|positive regulation of transcription from RNA polymerase II promoter|RNA processing	actin cytoskeleton|cytosolic ribosome|nuclear matrix|nucleolus|perichromatin fibrils|pre-snoRNP complex|presynaptic active zone|transcription elongation factor complex	DNA binding|identical protein binding|protein binding, bridging|RNA binding|zinc ion binding				0		Lung NSC(96;8.23e-05)|Breast(139;0.00378)|Prostate(109;0.0107)|all_hematologic(4;0.014)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)|Acute lymphoblastic leukemia(4;0.143)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000306)|BRCA - Breast invasive adenocarcinoma(63;0.125)		GTCTAACTTGATCTTCTTCAT	0.433													5	82					0	0	1	0	0		G	45553376	G	G	45553376	3	3	27	1	0	0	0	0	1	0	0	0	10767	333	12	3	828	3	NUFIP1	13	45553376	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	544406	45553376	69616502	5778	28129											
KCTD4	386618	broad.mit.edu	37	chr13	45768438	45768438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcgtaggaagtttaggaCatgcctgaagaggagaccat	13	10	12	6	1	0	3	0	1	0	2	1	6	0	5	2	3	1	2	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:45768438C>T	uc001uzx.3	-	2	669	c.265G>A	c.(265-267)GTC>ATC	p.V89I	GTF2F2_uc001uzv.2_Intron|GTF2F2_uc001uzw.2_Intron	NM_198404	NP_940686	Q8WVF5	KCTD4_HUMAN	potassium channel tetramerisation domain	89	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		Lung NSC(96;6.55e-05)|Breast(139;0.00378)|Prostate(109;0.00438)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000249)|BRCA - Breast invasive adenocarcinoma(63;0.207)		AAGTTTAGGACATGCCTGAAG	0.423													24	91					0	0	1	0	0		T	45768438	T	T	45768438	3	4	27	1	0	0	0	0	1	0	0	0	8127	478	17	4	518	4	KCTD4	13	45768438	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	215062	45768438	69401440	5779	28130											
GTF2F2	2963	broad.mit.edu	37	chr13	45841416	45841416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acggaaagcgagctcgagctGataaacaacatgttttagac	15	8	10	8	3	0	2	0	1	0	1	1	5	0	3	0	1	5	3	0	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:45841416G>A	uc001uzw.2	+	7	695	c.535G>A	c.(535-537)GAT>AAT	p.D179N	GTF2F2_uc001uzv.2_Missense_Mutation_p.D179N	NM_004128	NP_004119	P13984	T2FB_HUMAN	general transcription factor IIF, polypeptide 2,	179					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	microtubule cytoskeleton|transcription factor TFIIF complex	ATP binding|ATP-dependent helicase activity|DNA binding|protein binding				0		Lung NSC(96;0.00115)|Prostate(109;0.00578)|Breast(139;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.133)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000647)		AGCTCGAGCTGATAAACAACA	0.368													8	102					0	0	1	0	0		A	45841416	A	A	45841416	3	1	27	1	0	0	0	0	1	0	0	0	6875	1290	45	4	561	4	GTF2F2	13	45841416	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	72978	45841416	69328462	5780	28131											
COG3	83548	broad.mit.edu	37	chr13	46093104	46093104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctttttaagggtactcctGagataagagaacattatctt	12	16	7	6	0	2	2	0	1	2	2	3	4	3	2	1	1	2	1	1	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:46093104G>A	uc001vak.2	+	19	2130	c.2029G>A	c.(2029-2031)GAG>AAG	p.E677K	COG3_uc010tfv.1_Missense_Mutation_p.E514K|COG3_uc010aci.2_Missense_Mutation_p.E453K	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3	677					ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)		GGGTACTCCTGAGATAAGAGA	0.398													6	74					0	0	1	0	0		A	46093104	A	A	46093104	3	1	27	1	0	0	0	0	1	0	0	0	3662	1291	45	4	2103	4	COG3	13	46093104	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	251688	46093104	69076774	5781	28132											
SPERT	220082	broad.mit.edu	37	chr13	46287717	46287717	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggccctgcgcgaggagaAccggatgctcagcaaggaga	12	3	15	11	3	1	2	1	0	0	2	1	6	1	3	2	4	4	2	2	4	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:46287717A>G	uc001van.1	+	3	637	c.557A>G	c.(556-558)AAC>AGC	p.N186S	SPERT_uc001vao.2_Missense_Mutation_p.N150S	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	186	Potential.					cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		CGCGAGGAGAACCGGATGCTC	0.622													4	60					0	0	1	0	0		G	46287717	G	G	46287717	3	3	27	1	0	0	0	0	1	0	0	0	15064	43	2	3	567	3	SPERT	13	46287717	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	194613	46287717	68882161	5782	28133											
SPERT	220082	broad.mit.edu	37	chr13	46287807	46287807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggagagccgggccccctCgccactgctgcacaaagaca	11	3	12	15	2	0	3	0	0	0	3	1	4	0	3	4	2	3	2	4	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:46287807C>T	uc001van.1	+	3	727	c.647C>T	c.(646-648)TCG>TTG	p.S216L	SPERT_uc001vao.2_Missense_Mutation_p.S180L	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	216						cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		CGGGCCCCCTCGCCACTGCTG	0.652													4	39					0	0	1	0	0		T	46287807	T	T	46287807	3	4	27	1	0	0	0	0	1	0	0	0	15064	893	31	1	657	1	SPERT	13	46287807	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	90	46287807	68882071	5783	28134											
SIAH3	283514	broad.mit.edu	37	chr13	46357728	46357728	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgagctccaggcgataGgtgaagcagtcggcctgggt	7	9	16	9	2	0	2	0	2	0	0	2	3	1	2	2	4	2	3	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:46357728G>T	uc001vap.2	-	2	682	c.600C>A	c.(598-600)ACC>ACA	p.T200T		NM_198849	NP_942146	Q8IW03	SIAH3_HUMAN	seven in absentia homolog 3	200					multicellular organismal development|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding			ovary(1)|skin(1)	2						CCAGGCGATAGGTGAAGCAGT	0.597													6	38					0.0215528	0.0219246	1	1	0		T	46357728	T	T	46357728	2	4	27	1	0	0	0	0	0	0	0	1	14326	987	35	5		5	SIAH3	13	46357728	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	69921	46357728	68812150	5784	28135											
ZC3H13	23091	broad.mit.edu	37	chr13	46549903	46549903	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgtctactcttcgttcCtctcttctttcatcacgctc	4	18	3	16	2	7	0	2	0	5	0	11	0	8	0	1	0	1	2	1	0	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:46549903C>A	uc010tfw.1	-	11	1989	c.1983G>T	c.(1981-1983)GAG>GAT	p.E661D	ZC3H13_uc001vas.1_Missense_Mutation_p.E661D|ZC3H13_uc001vat.1_Missense_Mutation_p.E661D	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	661	Arg/Glu-rich.|Potential.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		CTCTTCGTTCCTCTCTTCTTT	0.313													10	63					0.00829132	0.0085371	1	1	0		A	46549903	A	A	46549903	3	1	27	1	0	0	0	0	1	0	0	0	17590	680	24	5	2735	5	ZC3H13	13	46549903	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	192175	46549903	68619975	5785	28136											
ZC3H13	23091	broad.mit.edu	37	chr13	46559477	46559477	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccctacttcggcccattcGgtcatttctaatttcacttc	6	15	4	16	2	3	0	2	0	1	0	6	0	3	0	3	2	1	0	3	2	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:46559477G>A	uc010tfw.1	-	9	1681	c.1675C>T	c.(1675-1677)CGA>TGA	p.R559*	ZC3H13_uc001vas.1_Nonsense_Mutation_p.R559*|ZC3H13_uc001vat.1_Nonsense_Mutation_p.R559*	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	559	Arg/Ser-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		CGGCCCATTCGGTCATTTCTA	0.403													12	99					0	0	1	0	0		A	46559477	A	A	46559477	4	1	27	1	0	0	0	0	0	1	0	0	17590	1124	39	1	3051	1	ZC3H13	13	46559477	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9574	46559477	68610401	5786	28137											
CPB2	1361	broad.mit.edu	37	chr13	46638817	46638817	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaagcaaagttcctattcagGtctgttccgatgcaatgatt	11	13	9	8	1	2	1	1	1	1	0	4	3	4	1	2	1	2	4	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:46638817G>A	uc001vaw.2	-	8	829	c.762C>T	c.(760-762)GAC>GAT	p.D254D	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Silent_p.D217D	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	254					blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		TCCTATTCAGGTCTGTTCCGA	0.428													6	70					0	0	1	0	0		A	46638817	A	A	46638817	2	1	27	1	0	0	0	0	0	0	0	1	3800	1252	44	4		4	CPB2	13	46638817	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	79340	46638817	68531061	5787	28138											
CPB2	1361	broad.mit.edu	37	chr13	46661956	46661956	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagctagaacttggccaCtggggaaaaaaataaaagag	18	5	12	6	0	0	2	0	0	0	2	0	4	0	3	1	3	3	2	1	3	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:46661956C>T	uc001vaw.2	-	2	142	c.75_splice	c.e2-1	p.S25_splice	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Splice_Site_p.S25_splice	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a						blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		AACTTGGCCACTGGGGAAAAA	0.333													12	112					0	0	1	0	0		T	46661956	T	T	46661956	5	4	27	1	0	0	0	0	0	0	1	0	3800	579	20	4	1237	4	CPB2	13	46661956	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23139	46661956	68507922	5788	28139											
C13orf18	80183	broad.mit.edu	37	chr13	46942256	46942256	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtcatttcagagtcaggCtgatcactcccaagtaaccc	13	9	7	12	0	4	2	4	1	0	1	5	2	5	2	2	1	1	2	2	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:46942256C>T	uc010acl.2	-	5	1352	c.747G>A	c.(745-747)CAG>CAA	p.Q249Q	C13orf18_uc001vbf.3_Silent_p.Q182Q|C13orf18_uc001vbg.3_5'UTR|C13orf18_uc010tfz.1_Silent_p.Q92Q|C13orf18_uc010acm.2_Silent_p.Q114Q|C13orf18_uc010acn.2_Silent_p.Q34Q|C13orf18_uc001vbe.3_Silent_p.Q249Q|C13orf18_uc001vbh.3_Silent_p.Q249Q|C13orf18_uc001vbi.3_Silent_p.Q92Q|C13orf18_uc010aco.1_Silent_p.Q249Q	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	249											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		CAGAGTCAGGCTGATCACTCC	0.413													8	155					0	0	1	0	0		T	46942256	T	T	46942256	2	4	27	1	0	0	0	0	0	0	0	1	1723	796	28	2		2	C13orf18	13	46942256	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	280300	46942256	68227622	5789	28140											
ESD	2098	broad.mit.edu	37	chr13	47351597	47351597	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctaatacttgcctcttgCaatcgaaaaacaacggggat	13	11	7	10	2	1	0	0	0	1	0	3	2	2	1	2	2	5	1	2	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:47351597C>T	uc001vbn.2	-	9	945	c.762G>A	c.(760-762)TTG>TTA	p.L254L	ESD_uc001vbo.2_Silent_p.L254L|ESD_uc001vbp.1_Silent_p.L112L	NM_001984	NP_001975	P10768	ESTD_HUMAN	esterase D/formylglutathione hydrolase	254						cytoplasmic membrane-bounded vesicle	carboxylesterase activity|S-formylglutathione hydrolase activity			ovary(1)	1		all_lung(13;3.54e-08)|Lung NSC(96;9.1e-06)|Breast(56;0.000148)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)		GBM - Glioblastoma multiforme(144;2.66e-05)	Glutathione(DB00143)	TTGCCTCTTGCAATCGAAAAA	0.323													21	68					0	0	1	0	0		T	47351597	T	T	47351597	2	4	27	1	0	0	0	0	0	0	0	1	5258	709	25	2		2	ESD	13	47351597	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	409341	47351597	67818281	5790	28141											
HTR2A	3356	broad.mit.edu	37	chr13	47409003	47409003	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccttttcattcactccgTcgctattgtctttagaagcc	7	16	5	13	2	4	1	3	0	1	1	6	1	5	1	3	0	1	1	3	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:47409003T>G	uc001vbq.2	-	3	1519	c.1385A>C	c.(1384-1386)GAC>GCC	p.D462A	HTR2A_uc001vbr.2_Missense_Mutation_p.D362A|HTR2A_uc010acr.2_Missense_Mutation_p.D462A	NM_000621	NP_000612	P28223	5HT2A_HUMAN	5-hydroxytryptamine receptor 2A isoform 1	462	Cytoplasmic (By similarity).				ERK1 and ERK2 cascade|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	integral to plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|serotonin binding|serotonin receptor activity			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		all_lung(13;7.2e-10)|Lung NSC(96;3.77e-07)|Breast(56;2.06e-05)|Prostate(109;0.00116)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Myeloproliferative disorder(33;0.0333)		GBM - Glioblastoma multiforme(144;4.67e-05)|COAD - Colon adenocarcinoma(199;0.224)	Aripiprazole(DB01238)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cisapride(DB00604)|Clomipramine(DB01242)|Clozapine(DB00363)|Cyclobenzaprine(DB00924)|Cyproheptadine(DB00434)|Dihydroergotamine(DB00320)|Donepezil(DB00843)|Epinastine(DB00751)|Ergotamine(DB00696)|Fluvoxamine(DB00176)|Mesoridazine(DB00933)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Olanzapine(DB00334)|Paliperidone(DB01267)|Paroxetine(DB00715)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	ATTCACTCCGTCGCTATTGTC	0.423													12	97					0	0	1	0	0		G	47409003	G	G	47409003	3	3	27	1	0	0	0	0	1	0	0	0	7457	1667	58	5	34	5	HTR2A	13	47409003	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	57406	47409003	67760875	5791	28142											
RB1	5925	broad.mit.edu	37	chr13	48921969	48921969	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttttcaggacatgtgAacttatatatttgacacaac	12	17	5	7	0	2	2	1	2	1	0	2	3	2	3	0	1	2	0	0	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:48921969A>G	uc001vcb.2	+	5	675	c.509A>G	c.(508-510)GAA>GGA	p.E170G	RB1_uc010acs.1_Intron	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	170					androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(5)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AGGACATGTGAACTTATATAT	0.259		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			4	43					0	0	1	0	0		G	48921969	G	G	48921969	3	3	27	1	0	0	0	0	1	0	0	0	13123	246	9	3	527	3	RB1	13	48921969	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1512966	48921969	66247909	5792	28143											
LPAR6	10161	broad.mit.edu	37	chr13	48986487	48986487	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagcacaaacaccatgcTgaacatgcacccatacaaag	17	4	5	15	0	0	1	0	1	0	0	0	1	0	1	3	0	6	3	3	0	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:48986487T>C	uc010acu.2	-	1	1167	c.73A>G	c.(73-75)AGC>GGC	p.S25G	RB1_uc001vcb.2_Intron|LPAR6_uc001vcc.1_Intron|LPAR6_uc001vce.2_Missense_Mutation_p.S25G|LPAR6_uc001vcf.2_Missense_Mutation_p.S25G	NM_001162498	NP_001155970	P43657	LPAR6_HUMAN	G-protein coupled purinergic receptor P2Y5	25	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled	p.?(4)		ovary(4)	4						AACACCATGCTGAACATGCAC	0.393													4	79					0	0	1	0	0		C	48986487	C	C	48986487	3	2	27	1	0	0	0	0	1	0	0	0	8927	1580	55	3	965	3	LPAR6	13	48986487	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	64518	48986487	66183391	5793	28144											
FNDC3A	22862	broad.mit.edu	37	chr13	49781431	49781431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagcacaaggacccgacGggcactgagtgacgagcagt	13	3	15	10	3	0	2	0	2	0	0	0	6	0	4	1	3	2	3	1	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:49781431G>A	uc001vcm.2	+	26	3802	c.3497G>A	c.(3496-3498)CGG>CAG	p.R1166Q	FNDC3A_uc001vcn.2_Missense_Mutation_p.R1166Q|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcq.2_Missense_Mutation_p.R1110Q	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	1166						Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		AGGACCCGACGGGCACTGAGT	0.498													12	28					0	0	1	0	0		A	49781431	A	A	49781431	3	1	27	1	0	0	0	0	1	0	0	0	5983	1116	39	1	3606	1	FNDC3A	13	49781431	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	794944	49781431	65388447	5794	28145											
CDADC1	81602	broad.mit.edu	37	chr13	49833617	49833617	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaactgtgatctttattttTccagaaaaccatgttctgct	12	16	5	8	0	2	2	0	1	2	1	3	2	3	2	2	0	3	2	2	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:49833617T>C	uc001vcu.2	+	4	464	c.388T>C	c.(388-390)TCC>CCC	p.S130P	CDADC1_uc001vcs.1_RNA|CDADC1_uc001vct.1_Intron|CDADC1_uc010tgk.1_Intron|CDADC1_uc001vcv.2_Intron	NM_030911	NP_112173	Q9BWV3	CDAC1_HUMAN	cytidine and dCMP deaminase domain containing 1	130							hydrolase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		Lung NSC(96;0.000705)|Breast(56;0.0011)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;1.06e-08)|COAD - Colon adenocarcinoma(199;0.216)		TCTTTATTTTTCCAGAAAACC	0.353													24	70					0	0	1	0	0		C	49833617	C	C	49833617	3	2	27	1	0	0	0	0	1	0	0	0	3056	1783	62	3	402	3	CDADC1	13	49833617	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	52186	49833617	65336261	5795	28146											
CAB39L	81617	broad.mit.edu	37	chr13	49885125	49885125	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgtgaggactggccacaAacacctgaaacaaaaagaaa	18	7	8	8	0	0	3	0	2	0	1	0	4	0	4	2	2	2	0	2	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:49885125A>G	uc001vcw.2	-	9	1337	c.839T>C	c.(838-840)TTT>TCT	p.F280S	CAB39L_uc001vcx.2_Missense_Mutation_p.F280S|CAB39L_uc010adf.2_Missense_Mutation_p.F277S	NM_030925	NP_112187	Q9H9S4	CB39L_HUMAN	calcium binding protein 39-like	280					cell cycle arrest|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol	protein binding				0		Lung NSC(96;2.11e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.66e-09)|COAD - Colon adenocarcinoma(199;0.226)		ACTGGCCACAAACACCTGAAA	0.488													11	169					0	0	1	0	0		G	49885125	G	G	49885125	3	3	27	1	0	0	0	0	1	0	0	0	2529	14	1	3	178	3	CAB39L	13	49885125	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	51508	49885125	65284753	5796	28147											
SETDB2	83852	broad.mit.edu	37	chr13	50050783	50050783	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagctgccaatcaaatgTcacttccaaagacgacatgc	13	8	7	13	1	2	1	2	0	0	1	3	2	3	1	2	0	4	2	2	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:50050783T>A	uc001vcz.2	+	7	1419	c.513T>A	c.(511-513)TGT>TGA	p.C171*	SETDB2_uc010adg.2_Nonsense_Mutation_p.C147*|SETDB2_uc001vcy.3_Nonsense_Mutation_p.C159*|SETDB2_uc010adh.2_Nonsense_Mutation_p.C159*|SETDB2_uc001vda.2_Nonsense_Mutation_p.C159*	NM_031915	NP_114121	Q96T68	SETB2_HUMAN	SET domain, bifurcated 2 isoform a	171	MBD.				cell division|chromosome segregation|heart looping|left/right axis specification|mitosis|negative regulation of transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone methyltransferase activity (H3-K9 specific)|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;0.000408)|Breast(56;0.00131)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.1e-09)		CAATCAAATGTCACTTCCAAA	0.448													20	88					0	0	1	0	0		A	50050783	A	A	50050783	4	1	27	1	0	0	0	0	0	1	0	0	14164	1673	58	5	535	5	SETDB2	13	50050783	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	165658	50050783	65119095	5797	28148											
SETDB2	83852	broad.mit.edu	37	chr13	50055082	50055082	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttgcatattttgttgacaGcatttatgaatgcagccttt	9	19	7	6	0	0	2	0	2	0	0	0	2	0	2	1	0	4	4	1	0	3	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:50055082G>A	uc001vcz.2	+	9	1929	c.1023_splice	c.e9-1	p.G341_splice	SETDB2_uc010adg.2_Splice_Site_p.G317_splice|SETDB2_uc001vcy.3_Splice_Site_p.G329_splice|SETDB2_uc010adh.2_Splice_Site_p.G329_splice|SETDB2_uc001vda.2_Splice_Site_p.G329_splice	NM_031915	NP_114121	Q96T68	SETB2_HUMAN	SET domain, bifurcated 2 isoform a						cell division|chromosome segregation|heart looping|left/right axis specification|mitosis|negative regulation of transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone methyltransferase activity (H3-K9 specific)|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;0.000408)|Breast(56;0.00131)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.1e-09)		TTTGTTGACAGCATTTATGAA	0.363													6	64					0	0	1	0	0		A	50055082	A	A	50055082	5	1	27	1	0	0	0	0	0	0	1	0	14164	985	34	2	1052	2	SETDB2	13	50055082	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4299	50055082	65114796	5798	28149											
KPNA3	3839	broad.mit.edu	37	chr13	50279883	50279883	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactgacagtaaattacagaAcggtggtattacattctgct	13	12	8	8	1	1	2	0	1	1	1	1	2	1	2	0	2	4	3	0	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:50279883A>G	uc001vdj.2	-	15	1661	c.1246T>C	c.(1246-1248)TTC>CTC	p.F416L		NM_002267	NP_002258	O00505	IMA3_HUMAN	karyopherin alpha 3	416	ARM 9.				interspecies interaction between organisms|NLS-bearing substrate import into nucleus|protein complex assembly	cytoplasm|nuclear pore	nuclear localization sequence binding|protein transporter activity				0		Lung NSC(96;2.46e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.42e-09)		AAATTACAGAACGGTGGTATT	0.363													5	65					0	0	1	0	0		G	50279883	G	G	50279883	3	3	27	1	0	0	0	0	1	0	0	0	8447	43	2	3	331	3	KPNA3	13	50279883	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	224801	50279883	64889995	5799	28150											
ATP7B	540	broad.mit.edu	37	chr13	52515217	52515217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcagaagcagaagatacCgtcaatagccaccaggatgg	16	4	12	9	1	1	3	1	0	0	3	1	4	1	4	3	3	3	2	3	3	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:52515217C>T	uc001vfw.2	-	16	3713	c.3556G>A	c.(3556-3558)GGT>AGT	p.G1186S	ATP7B_uc010adv.2_Missense_Mutation_p.G756S|ATP7B_uc001vfx.2_Missense_Mutation_p.G979S|ATP7B_uc001vfy.2_Missense_Mutation_p.G1075S|ATP7B_uc010tgt.1_Missense_Mutation_p.G1121S|ATP7B_uc010tgu.1_Missense_Mutation_p.G1138S|ATP7B_uc010tgv.1_Missense_Mutation_p.G1108S|ATP7B_uc001vfv.2_Missense_Mutation_p.G458S|ATP7B_uc010tgs.1_Missense_Mutation_p.G397S	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	1186	Cytoplasmic (Potential).		G -> S (in WD; possibly not disease- causing).|G -> C (in WD).		ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		CAGAAGATACCGTCAATAGCC	0.463									Wilson_disease				9	59					0	0	1	0	0		T	52515217	T	T	52515217	3	4	27	1	0	0	0	0	1	0	0	0	1192	666	23	1	865	1	ATP7B	13	52515217	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2235334	52515217	62654661	5800	28151											
ATP7B	540	broad.mit.edu	37	chr13	52523920	52523920	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actaaaccggtcagccagctGctgaatgggtgcctatgaaa	12	8	11	10	1	1	2	1	2	0	0	1	2	1	2	3	2	5	2	3	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:52523920G>A	uc001vfw.2	-	12	2900	c.2743C>T	c.(2743-2745)CAG>TAG	p.Q915*	ATP7B_uc010adv.2_Nonsense_Mutation_p.Q485*|ATP7B_uc001vfx.2_Intron|ATP7B_uc001vfy.2_Nonsense_Mutation_p.Q804*|ATP7B_uc010tgt.1_Nonsense_Mutation_p.Q915*|ATP7B_uc010tgu.1_Nonsense_Mutation_p.Q867*|ATP7B_uc010tgv.1_Nonsense_Mutation_p.Q837*|ATP7B_uc001vfv.2_Nonsense_Mutation_p.Q187*|ATP7B_uc010tgs.1_Nonsense_Mutation_p.Q187*	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	915	Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		TCAGCCAGCTGCTGAATGGGT	0.383									Wilson_disease				7	92					0	0	1	0	0		A	52523920	A	A	52523920	4	1	27	1	0	0	0	0	0	1	0	0	1192	1328	46	2	1694	2	ATP7B	13	52523920	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8703	52523920	62645958	5801	28152											
ATP7B	540	broad.mit.edu	37	chr13	52539088	52539088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgctggtggcaagggcaaCggaggcataagtgatgccat	10	9	15	7	1	0	1	0	1	0	0	0	2	0	2	1	5	3	4	1	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:52539088C>T	uc001vfw.2	-	5	1946	c.1789G>A	c.(1789-1791)GTT>ATT	p.V597I	ATP7B_uc010adv.2_Intron|ATP7B_uc001vfx.2_Missense_Mutation_p.V597I|ATP7B_uc001vfy.2_Missense_Mutation_p.V486I|ATP7B_uc010tgt.1_Missense_Mutation_p.V597I|ATP7B_uc010tgu.1_Missense_Mutation_p.V597I|ATP7B_uc010tgv.1_Missense_Mutation_p.V597I|ATP7B_uc010tgw.1_Intron	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	597	HMA 6.|Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		GCAAGGGCAACGGAGGCATAA	0.453									Wilson_disease				17	96					0	0	1	0	0		T	52539088	T	T	52539088	3	4	27	1	0	0	0	0	1	0	0	0	1192	536	19	1	2676	1	ATP7B	13	52539088	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15168	52539088	62630790	5802	28153											
NEK5	341676	broad.mit.edu	37	chr13	52663438	52663438	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcaaattttctctgaaggTactcagcaggccttagaaaa	13	12	7	9	0	3	2	2	1	1	1	4	2	3	2	1	2	2	2	1	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:52663438T>C	uc001vge.2	-	14	1360	c.1220A>G	c.(1219-1221)TAC>TGC	p.Y407C		NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	407							ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		TCTCTGAAGGTACTCAGCAGG	0.328													4	41					0	0	1	0	0		C	52663438	C	C	52663438	3	2	27	1	0	0	0	0	1	0	0	0	10346	1638	57	3	942	3	NEK5	13	52663438	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	124350	52663438	62506440	5803	28154											
THSD1	55901	broad.mit.edu	37	chr13	52952229	52952229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgccttgcctgtgacttgcGgatcagagtctggctggggc	4	11	16	10	1	2	2	1	1	1	1	2	3	2	3	2	4	3	1	2	4	0	2	rs144799411	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:52952229G>A	uc001vgo.2	-	5	2421	c.1876C>T	c.(1876-1878)CGC>TGC	p.R626C	THSD1_uc001vgp.2_Missense_Mutation_p.R573C|THSD1_uc010tgz.1_Missense_Mutation_p.R247C|THSD1_uc010aea.2_Missense_Mutation_p.R87C	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	626	Cytoplasmic (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		TGTGACTTGCGGATCAGAGTC	0.622													4	55					0	0	1	0	0		A	52952229	A	A	52952229	3	1	27	1	0	0	0	0	1	0	0	0	15902	1116	39	1	686	1	THSD1	13	52952229	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	288791	52952229	62217649	5804	28155											
THSD1	55901	broad.mit.edu	37	chr13	52952905	52952905	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggggctgaagaggagaTgggctggatggctggaaagc	9	6	19	7	0	0	3	0	1	0	2	0	6	0	5	1	7	1	3	1	7	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:52952905T>C	uc001vgo.2	-	5	1745	c.1200A>G	c.(1198-1200)CCA>CCG	p.P400P	THSD1_uc001vgp.2_Silent_p.P347P|THSD1_uc010tgz.1_Silent_p.P21P|THSD1_uc010aea.2_5'UTR	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	400	Extracellular (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		GAAGAGGAGATGGGCTGGATG	0.358													7	30					0	0	1	0	0		C	52952905	C	C	52952905	2	2	27	1	0	0	0	0	0	0	0	1	15902	1451	51	3		3	THSD1	13	52952905	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	676	52952905	62216973	5805	28156											
PCDH8	5100	broad.mit.edu	37	chr13	53419598	53419598	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagatcctttttcagagcgTccccgctgatgtcggaatcg	7	12	11	11	4	1	3	1	2	0	2	5	5	3	4	3	1	1	1	3	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:53419598T>C	uc001vhi.2	-	2	3004	c.2801A>G	c.(2800-2802)GAC>GGC	p.D934G	PCDH8_uc001vhj.2_Missense_Mutation_p.D837G	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	934	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		TTTCAGAGCGTCCCCGCTGAT	0.517													3	74					0	0	1	0	0		C	53419598	C	C	53419598	3	2	27	1	0	0	0	0	1	0	0	0	11536	1667	58	3	419	3	PCDH8	13	53419598	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	466693	53419598	61750280	5806	28157											
PCDH8	5100	broad.mit.edu	37	chr13	53420245	53420245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcacctccttcttgcggCggttgcaggtggtggcgatg	3	11	16	11	4	1	0	0	0	1	0	2	1	2	0	2	5	3	3	2	5	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:53420245C>T	uc001vhi.2	-	1	2530	c.2327G>A	c.(2326-2328)CGC>CAC	p.R776H	PCDH8_uc001vhj.2_Missense_Mutation_p.R776H	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	776	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		CTTCTTGCGGCGGTTGCAGGT	0.617													16	52					0	0	1	0	0		T	53420245	T	T	53420245	3	4	27	1	0	0	0	0	1	0	0	0	11536	768	27	1	897	1	PCDH8	13	53420245	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	647	53420245	61749633	5807	28158											
PCDH17	27253	broad.mit.edu	37	chr13	58208481	58208481	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgcaggtgccgcgcaacGctggcctgggctatctggtg	5	8	16	12	3	1	0	0	0	1	0	1	0	1	0	2	4	4	5	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:58208481G>A	uc001vhq.1	+	1	2693	c.1801G>A	c.(1801-1803)GCT>ACT	p.A601T	PCDH17_uc010aec.1_Missense_Mutation_p.A601T	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	601	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GCCGCGCAACGCTGGCCTGGG	0.647													4	34					0	0	1	0	0		A	58208481	A	A	58208481	3	1	27	1	0	0	0	0	1	0	0	0	11531	1087	38	1	1803	1	PCDH17	13	58208481	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4788236	58208481	56961397	5808	28159											
PCDH17	27253	broad.mit.edu	37	chr13	58208684	58208684	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgaaggtgaccgaccaCggcaagcctaccctgtccgc	8	6	13	14	3	0	2	0	2	0	0	1	3	1	2	5	3	2	1	5	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:58208684C>T	uc001vhq.1	+	1	2896	c.2004C>T	c.(2002-2004)CAC>CAT	p.H668H	PCDH17_uc010aec.1_Silent_p.H668H	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	668	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TGACCGACCACGGCAAGCCTA	0.647													21	82					0	0	1	0	0		T	58208684	T	T	58208684	2	4	27	1	0	0	0	0	0	0	0	1	11531	535	19	1		1	PCDH17	13	58208684	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	203	58208684	56961194	5809	28160											
PCDH17	27253	broad.mit.edu	37	chr13	58208869	58208869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcaccatcgccgtcaagtGcaagcgcgagaacaaggaga	14	4	12	11	4	2	2	2	0	0	2	3	5	2	2	2	1	3	1	2	1	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:58208869G>A	uc001vhq.1	+	1	3081	c.2189G>A	c.(2188-2190)TGC>TAC	p.C730Y	PCDH17_uc010aec.1_Missense_Mutation_p.C730Y	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	730	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GCCGTCAAGTGCAAGCGCGAG	0.592													16	41					0	0	1	0	0		A	58208869	A	A	58208869	3	1	27	1	0	0	0	0	1	0	0	0	11531	1319	46	2	2191	2	PCDH17	13	58208869	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	185	58208869	56961009	5810	28161											
DIAPH3	81624	broad.mit.edu	37	chr13	60240957	60240957	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtgtgaacgtgacccttCtgtcaactgcactttctgat	8	14	9	10	1	3	3	1	3	2	0	3	3	3	3	1	0	3	2	1	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:60240957C>A	uc001vht.2	-	28	3562	c.3343G>T	c.(3343-3345)GAA>TAA	p.E1115*	DIAPH3_uc001vhs.2_RNA	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	1115					actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		CGTGACCCTTCTGTCAACTGC	0.383													9	61					1.12685e-05	1.21022e-05	1	1	0		A	60240957	A	A	60240957	4	1	27	1	0	0	0	0	0	1	0	0	4526	922	32	5	242	5	DIAPH3	13	60240957	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2032088	60240957	54928921	5811	28162											
DIAPH3	81624	broad.mit.edu	37	chr13	60616864	60616864	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacactcggagagactccaGgcatgtgacaagtctctcat	12	8	10	11	1	2	3	1	1	1	2	5	5	3	4	1	2	0	1	1	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:60616864G>T	uc001vht.2	-	5	805	c.586C>A	c.(586-588)CTG>ATG	p.L196M	DIAPH3_uc001vhw.1_Missense_Mutation_p.L185M|DIAPH3_uc010aed.1_Missense_Mutation_p.L150M|DIAPH3_uc010aee.1_Missense_Mutation_p.L126M|uc001vhx.2_RNA	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	196	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		AGAGACTCCAGGCATGTGACA	0.418													4	45					2.56e-06	2.77152e-06	1	1	0		T	60616864	T	T	60616864	3	4	27	1	0	0	0	0	1	0	0	0	4526	991	35	5	3111	5	DIAPH3	13	60616864	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	375907	60616864	54553014	5812	28163											
PCDH20	64881	broad.mit.edu	37	chr13	61986186	61986186	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatctatgacaaaaatatcActctggttcaccacagagag	15	10	7	9	0	4	2	2	1	2	1	4	3	4	2	1	1	0	2	1	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:61986186A>G	uc001vid.3	-	2	2410	c.2046T>C	c.(2044-2046)AGT>AGC	p.S682S	PCDH20_uc010thj.1_Silent_p.S682S	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	655	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		CAAAAATATCACTCTGGTTCA	0.458													14	99					0	0	1	0	0		G	61986186	G	G	61986186	2	3	27	1	0	0	0	0	0	0	0	1	11534	156	6	3		3	PCDH20	13	61986186	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1369322	61986186	53183692	5813	28164											
DACH1	1602	broad.mit.edu	37	chr13	72049923	72049923	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttcgtctcaaactcaagTgcttcctgcaattttctctt	7	17	5	12	2	3	0	2	0	2	0	7	0	4	0	1	0	3	3	1	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:72049923T>C	uc010thn.1	-	10	2352	c.1929A>G	c.(1927-1929)GCA>GCG	p.A643A	DACH1_uc010tho.1_Silent_p.A495A|DACH1_uc010thp.1_Silent_p.A441A	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	695	DACHbox-C.|Potential.|Interaction with SIN3A (By similarity).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		CAAACTCAAGTGCTTCCTGCA	0.373													23	157					0	0	1	0	0		C	72049923	C	C	72049923	2	2	27	1	0	0	0	0	0	0	0	1	4223	1683	59	3		3	DACH1	13	72049923	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10063737	72049923	43119955	5814	28165											
DACH1	1602	broad.mit.edu	37	chr13	72146996	72146996	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataactgatgtctcaactctGgatgggggactctgaacttg	10	12	11	8	0	3	2	1	2	3	0	4	4	3	4	0	3	3	0	0	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:72146996G>T	uc010thn.1	-	5	1698	c.1275C>A	c.(1273-1275)TCC>TCA	p.S425S	DACH1_uc010tho.1_Intron|DACH1_uc010thp.1_Intron	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	477					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		TCTCAACTCTGGATGGGGGAC	0.423													5	69					3.59834e-05	3.83694e-05	1	1	0		T	72146996	T	T	72146996	2	4	27	1	0	0	0	0	0	0	0	1	4223	1335	47	5		5	DACH1	13	72146996	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	97073	72146996	43022882	5815	28166											
DIS3	22894	broad.mit.edu	37	chr13	73346867	73346867	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggcatctttggcagaaaActaagaacagcctgtgaaaa	16	7	10	8	0	1	3	0	1	1	2	1	3	1	3	1	2	3	2	1	2	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:73346867A>G	uc001vix.3	-	9	1724	c.1350T>C	c.(1348-1350)AGT>AGC	p.S450S	DIS3_uc001viy.3_Silent_p.S420S|DIS3_uc001viz.2_RNA	NM_014953	NP_055768	Q9Y2L1	RRP44_HUMAN	DIS3 mitotic control isoform a	450					CUT catabolic process|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA catabolic process|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|nucleoplasm	3'-5'-exoribonuclease activity|endonuclease activity|guanyl-nucleotide exchange factor activity|protein binding|RNA binding			central_nervous_system(1)	1		Breast(118;0.0074)|Acute lymphoblastic leukemia(28;0.0195)		GBM - Glioblastoma multiforme(99;0.000181)		TTGGCAGAAAACTAAGAACAG	0.353										Multiple Myeloma(4;0.011)			3	98					0	0	1	0	0		G	73346867	G	G	73346867	2	3	27	1	0	0	0	0	0	0	0	1	4541	40	2	3		3	DIS3	13	73346867	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1199871	73346867	41823011	5816	28167											
DIS3	22894	broad.mit.edu	37	chr13	73349461	73349461	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggagaagctccacagccAcaatatcttcgtgaacagct	12	8	10	11	1	1	2	0	1	1	1	3	3	2	2	2	2	4	2	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:73349461A>G	uc001vix.3	-	6	1249	c.875T>C	c.(874-876)GTG>GCG	p.V292A	DIS3_uc001viy.3_Missense_Mutation_p.V262A|DIS3_uc001viz.2_RNA	NM_014953	NP_055768	Q9Y2L1	RRP44_HUMAN	DIS3 mitotic control isoform a	292					CUT catabolic process|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA catabolic process|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|nucleoplasm	3'-5'-exoribonuclease activity|endonuclease activity|guanyl-nucleotide exchange factor activity|protein binding|RNA binding			central_nervous_system(1)	1		Breast(118;0.0074)|Acute lymphoblastic leukemia(28;0.0195)		GBM - Glioblastoma multiforme(99;0.000181)		CTCCACAGCCACAATATCTTC	0.403										Multiple Myeloma(4;0.011)			5	100					0	0	1	0	0		G	73349461	G	G	73349461	3	3	27	1	0	0	0	0	1	0	0	0	4541	159	6	3	2065	3	DIS3	13	73349461	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2594	73349461	41820417	5817	28168											
DIS3	22894	broad.mit.edu	37	chr13	73350153	73350153	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgttccttgaaggtatgtAccagattttatgccttgctg	9	16	9	7	0	0	2	0	1	0	1	1	2	1	2	3	1	3	4	3	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:73350153A>G	uc001vix.3	-	5	1106	c.732T>C	c.(730-732)GGT>GGC	p.G244G	DIS3_uc001viy.3_Silent_p.G214G|DIS3_uc001viz.2_RNA	NM_014953	NP_055768	Q9Y2L1	RRP44_HUMAN	DIS3 mitotic control isoform a	244					CUT catabolic process|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA catabolic process|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|nucleoplasm	3'-5'-exoribonuclease activity|endonuclease activity|guanyl-nucleotide exchange factor activity|protein binding|RNA binding			central_nervous_system(1)	1		Breast(118;0.0074)|Acute lymphoblastic leukemia(28;0.0195)		GBM - Glioblastoma multiforme(99;0.000181)		GAAGGTATGTACCAGATTTTA	0.348										Multiple Myeloma(4;0.011)			5	55					0	0	1	0	0		G	73350153	G	G	73350153	2	3	27	1	0	0	0	0	0	0	0	1	4541	378	14	3		3	DIS3	13	73350153	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	692	73350153	41819725	5818	28169											
TBC1D4	9882	broad.mit.edu	37	chr13	75860997	75860997	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctctcagcaacaggtcacaAttgactagagcatccgcggg	11	8	10	12	2	3	2	2	1	1	1	5	2	4	2	1	2	3	2	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:75860997A>G	uc001vjl.1	-	21	4175	c.3828T>C	c.(3826-3828)AAT>AAC	p.N1276N	TBC1D4_uc010tht.1_Silent_p.N486N|TBC1D4_uc010thu.1_Silent_p.N433N|TBC1D4_uc010aer.2_Silent_p.N1268N|TBC1D4_uc010aes.2_Silent_p.N1213N	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	1276						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		ACAGGTCACAATTGACTAGAG	0.463													3	65					0	0	1	0	0		G	75860997	G	G	75860997	2	3	27	1	0	0	0	0	0	0	0	1	15647	98	4	3		3	TBC1D4	13	75860997	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2510844	75860997	39308881	5819	28170											
TBC1D4	9882	broad.mit.edu	37	chr13	75861153	75861153	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaaggcctggattttagtAtgagctacctgtttgggggg	7	13	14	7	0	0	1	0	1	0	0	1	2	1	2	3	5	2	3	3	5	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:75861153A>G	uc001vjl.1	-	21	4019	c.3672T>C	c.(3670-3672)CAT>CAC	p.H1224H	TBC1D4_uc010tht.1_Silent_p.H434H|TBC1D4_uc010thu.1_Silent_p.H381H|TBC1D4_uc010aer.2_Silent_p.H1216H|TBC1D4_uc010aes.2_Silent_p.H1161H	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	1224						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		GGATTTTAGTATGAGCTACCT	0.373													4	74					0	0	1	0	0		G	75861153	G	G	75861153	2	3	27	1	0	0	0	0	0	0	0	1	15647	446	16	3		3	TBC1D4	13	75861153	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	156	75861153	39308725	5820	28171											
LMO7	4008	broad.mit.edu	37	chr13	76408473	76408473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaagccatggctaaggCtcaagaaactggacacctag	14	5	13	9	0	1	1	1	0	0	1	1	4	1	4	2	5	2	2	2	5	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:76408473C>T	uc001vjv.2	+	14	3237	c.2477C>T	c.(2476-2478)GCT>GTT	p.A826V	LMO7_uc010thv.1_Missense_Mutation_p.A777V|LMO7_uc001vjt.1_Missense_Mutation_p.A725V|LMO7_uc010thw.1_Missense_Mutation_p.A676V|LMO7_uc001vjw.1_Missense_Mutation_p.A732V	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	1111	PDZ.					cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		ATGGCTAAGGCTCAAGAAACT	0.438													8	95					0	0	1	0	0		T	76408473	T	T	76408473	3	4	27	1	0	0	0	0	1	0	0	0	8872	797	28	2	3402	2	LMO7	13	76408473	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	547320	76408473	38761405	5821	28172											
KCTD12	115207	broad.mit.edu	37	chr13	77459345	77459345	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tactcggtgtagctggtccaGatcttgtcctcgctctggtc	4	14	11	12	2	2	1	0	0	2	1	7	1	4	1	2	3	2	3	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:77459345G>C	uc010aeu.1	-	1	1196	c.939C>G	c.(937-939)ATC>ATG	p.I313M	KCTD12_uc001vka.1_Missense_Mutation_p.I313M	NM_138444	NP_612453	Q96CX2	KCD12_HUMAN	potassium channel tetramerisation domain	313						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(1)	1		Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.0499)		AGCTGGTCCAGATCTTGTCCT	0.632											OREG0022449	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	65					0	0	1	0	0		C	77459345	C	C	77459345	3	2	27	1	0	0	0	0	1	0	0	0	8115	932	33	5	42	5	KCTD12	13	77459345	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1050872	77459345	37710533	5822	28173											
MYCBP2	23077	broad.mit.edu	37	chr13	77671955	77671955	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttgttgatgctacccaTcttagatatatctggtccat	8	18	7	8	0	2	2	0	1	2	1	3	2	3	2	2	1	2	3	2	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:77671955T>A	uc001vkf.2	-	57	9311	c.9220A>T	c.(9220-9222)ATG>TTG	p.M3074L	MYCBP2_uc010aev.2_Missense_Mutation_p.M2478L|MYCBP2_uc001vkg.1_Missense_Mutation_p.M597L|MYCBP2_uc010aew.2_Missense_Mutation_p.M460L	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3074					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		ATGCTACCCATCTTAGATATA	0.358													14	115					0	0	1	0	0		A	77671955	A	A	77671955	3	1	27	1	0	0	0	0	1	0	0	0	10036	1435	50	5	4814	5	MYCBP2	13	77671955	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	212610	77671955	37497923	5823	28174											
MYCBP2	23077	broad.mit.edu	37	chr13	77847693	77847693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcctgtttctccccaagaagCcaccagactaaagaggcaag	13	7	8	13	0	1	3	0	0	1	3	3	3	2	3	5	1	1	2	5	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:77847693C>T	uc001vkf.2	-	6	836	c.745G>A	c.(745-747)GCT>ACT	p.A249T	MYCBP2_uc010aev.2_5'UTR	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	249					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CCCCAAGAAGCCACCAGACTA	0.463													6	105					0	0	1	0	0		T	77847693	T	T	77847693	3	4	27	1	0	0	0	0	1	0	0	0	10036	739	26	2	13493	2	MYCBP2	13	77847693	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	175738	77847693	37322185	5824	28175											
SCEL	8796	broad.mit.edu	37	chr13	78178549	78178549	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaaataaaaatattacgAggtaagacatttaaagctcc	21	9	5	6	1	0	1	0	0	0	1	1	2	1	1	1	1	3	2	1	1	10	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:78178549A>T	uc001vki.2	+	19	1326	c.1156A>T	c.(1156-1158)AGG>TGG	p.R386W	SCEL_uc001vkj.2_Missense_Mutation_p.R366W|SCEL_uc010thx.1_Intron	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	386	16 X approximate tandem repeats.|7.				embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		AAATATTACGAGGTAAGACAT	0.338													6	178					0	0	1	0	0		T	78178549	T	T	78178549	3	4	27	1	0	0	0	0	1	0	0	0	13913	318	11	5	1226	5	SCEL	13	78178549	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	330856	78178549	36991329	5825	28176											
EDNRB	1910	broad.mit.edu	37	chr13	78492418	78492418	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgtatttgaaagtctcCttgatctcgatgggtccttg	7	17	10	7	1	2	3	0	3	2	0	5	4	3	3	2	1	0	1	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:78492418C>A	uc001vko.2	-	1	549	c.291G>T	c.(289-291)AAG>AAT	p.K97N	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.K97N|EDNRB_uc010aez.1_Missense_Mutation_p.K97N|EDNRB_uc001vkp.1_Missense_Mutation_p.K180N|EDNRB_uc010afa.1_Missense_Mutation_p.K97N	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	97	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	TGAAAGTCTCCTTGATCTCGA	0.547													7	60					0.0381472	0.0386818	1	1	0		A	78492418	A	A	78492418	3	1	27	1	0	0	0	0	1	0	0	0	4926	680	24	5	1186	5	EDNRB	13	78492418	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	313869	78492418	36677460	5826	28177											
RNF219	79596	broad.mit.edu	37	chr13	79219069	79219069	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acactggctattattcttcaAccacaaatcaatacaaatcg	16	11	3	11	1	3	0	2	0	1	0	4	0	3	0	1	1	2	1	1	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:79219069A>G	uc001vkw.1	-	2	195	c.136T>C	c.(136-138)TTG>CTG	p.L46L	RNF219_uc010afb.1_5'UTR|RNF219_uc010afc.2_Silent_p.L46L	NM_024546	NP_078822	Q5W0B1	RN219_HUMAN	ring finger protein 219	46	RING-type; degenerate.						zinc ion binding			large_intestine(2)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.0414)		TTATTCTTCAACCACAAATCA	0.383													8	89					0	0	1	0	0		G	79219069	G	G	79219069	2	3	27	1	0	0	0	0	0	0	0	1	13507	40	2	3		3	RNF219	13	79219069	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	726651	79219069	35950809	5827	28178											
RNF219	79596	broad.mit.edu	37	chr13	79219087	79219087	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccacaaatcaatacaaaTcgaacaaaatacatggttgt	20	8	4	9	1	1	0	1	0	0	0	2	1	1	0	1	1	4	1	1	1	9	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:79219087T>A	uc001vkw.1	-	2	177	c.118A>T	c.(118-120)ATT>TTT	p.I40F	RNF219_uc010afb.1_5'UTR|RNF219_uc010afc.2_Missense_Mutation_p.I40F	NM_024546	NP_078822	Q5W0B1	RN219_HUMAN	ring finger protein 219	40	RING-type; degenerate.						zinc ion binding			large_intestine(2)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.0414)		TCAATACAAATCGAACAAAAT	0.383													6	72					0	0	1	0	0		A	79219087	A	A	79219087	3	1	27	1	0	0	0	0	1	0	0	0	13507	1435	50	5	2082	5	RNF219	13	79219087	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18	79219087	35950791	5828	28179											
RBM26	64062	broad.mit.edu	37	chr13	79939848	79939848	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgtagccatctgtgtcatAtgtatctggtaatacaaaaa	14	14	7	6	0	3	0	1	0	2	0	3	0	3	0	1	1	2	3	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:79939848A>G	uc001vkz.2	-	9	1311	c.1297T>C	c.(1297-1299)TAT>CAT	p.Y433H	RBM26_uc001vky.2_Missense_Mutation_p.Y428H|RBM26_uc001vla.2_Missense_Mutation_p.Y428H|RBM26_uc001vkx.2_Missense_Mutation_p.Y140H	NM_022118	NP_071401	Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26	428					mRNA processing		nucleotide binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)		GBM - Glioblastoma multiforme(99;0.0188)		TCTGTGTCATATGTATCTGGT	0.328													6	84					0	0	1	0	0		G	79939848	G	G	79939848	3	3	27	1	0	0	0	0	1	0	0	0	13151	449	16	3	1712	3	RBM26	13	79939848	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	720761	79939848	35230030	5829	28180											
RBM26	64062	broad.mit.edu	37	chr13	79942959	79942959	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattcagaccaactttcggtAgtgttgtttccatgatgagt	10	15	9	7	1	1	3	1	2	0	1	3	3	2	3	2	1	1	3	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:79942959A>G	uc001vkz.2	-	6	815	c.801T>C	c.(799-801)ACT>ACC	p.T267T	RBM26_uc001vky.2_Silent_p.T267T|RBM26_uc001vla.2_Silent_p.T267T|RBM26_uc001vkx.2_5'UTR|RBM26_uc001vlb.1_RNA	NM_022118	NP_071401	Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26	267					mRNA processing		nucleotide binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)		GBM - Glioblastoma multiforme(99;0.0188)		AACTTTCGGTAGTGTTGTTTC	0.433													4	92					0	0	1	0	0		G	79942959	G	G	79942959	2	3	27	1	0	0	0	0	0	0	0	1	13151	407	15	3		3	RBM26	13	79942959	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3111	79942959	35226919	5830	28181											
SLITRK5	26050	broad.mit.edu	37	chr13	88328005	88328005	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgttatccaggacattgAgaccggggctttccatgggc	9	10	12	10	1	0	1	0	1	0	1	2	3	2	2	3	4	0	2	3	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:88328005A>G	uc001vln.2	+	2	581	c.362A>G	c.(361-363)GAG>GGG	p.E121G	SLITRK5_uc010tic.1_Intron	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	121	LRR 2.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CAGGACATTGAGACCGGGGCT	0.448													6	147					0	0	1	0	0		G	88328005	G	G	88328005	3	3	27	1	0	0	0	0	1	0	0	0	14771	304	11	3	364	3	SLITRK5	13	88328005	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8385046	88328005	26841873	5831	28182											
SLITRK5	26050	broad.mit.edu	37	chr13	88328670	88328670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacccaacaagcccagggtgCgccccacctctcggcagccc	9	3	9	20	2	1	0	0	0	1	0	2	0	1	0	6	2	5	1	6	2	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:88328670C>T	uc001vln.2	+	2	1246	c.1027C>T	c.(1027-1029)CGC>TGC	p.R343C	SLITRK5_uc010tic.1_Missense_Mutation_p.R102C	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	343	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GCCCAGGGTGCGCCCCACCTC	0.597													23	79					0	0	1	0	0		T	88328670	T	T	88328670	3	4	27	1	0	0	0	0	1	0	0	0	14771	768	27	1	1029	1	SLITRK5	13	88328670	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	665	88328670	26841208	5832	28183											
SLITRK5	26050	broad.mit.edu	37	chr13	88328765	88328765	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccggtgcctttggagtgTcccaccgcgtgctcttgcaa	4	11	11	15	3	1	0	0	0	1	0	3	1	3	1	5	2	3	2	5	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:88328765T>C	uc001vln.2	+	2	1341	c.1122T>C	c.(1120-1122)TGT>TGC	p.C374C	SLITRK5_uc010tic.1_Silent_p.C133C	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	374	Extracellular (Potential).|LRRNT.					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CTTTGGAGTGTCCCACCGCGT	0.597													4	64					0	0	1	0	0		C	88328765	C	C	88328765	2	2	27	1	0	0	0	0	0	0	0	1	14771	1673	58	3		3	SLITRK5	13	88328765	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	95	88328765	26841113	5833	28184											
GPC6	10082	broad.mit.edu	37	chr13	93879729	93879729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccttcttggatcggggCtgtgattcttcccctcttgg	3	15	11	12	1	3	1	0	1	3	0	5	2	4	2	3	4	1	1	3	4	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:93879729C>T	uc001vlt.2	+	1	652	c.20C>T	c.(19-21)GCT>GTT	p.A7V	GPC6_uc010tig.1_Missense_Mutation_p.A7V	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	7						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				TGGATCGGGGCTGTGATTCTT	0.647											OREG0022460	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	69					0	0	1	0	0		T	93879729	T	T	93879729	3	4	27	1	0	0	0	0	1	0	0	0	6617	797	28	2	22	2	GPC6	13	93879729	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5550964	93879729	21290149	5834	28185											
DCT	1638	broad.mit.edu	37	chr13	95092303	95092303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgactactaagagagttgtgGgccaacctggagtttcttca	10	12	11	8	0	2	2	1	1	1	1	2	4	2	3	2	2	2	2	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:95092303G>A	uc001vlv.3	-	8	1836	c.1409C>T	c.(1408-1410)CCC>CTC	p.P470L	DCT_uc010afh.2_Missense_Mutation_p.P503L	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	470	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		GAGAGTTGTGGGCCAACCTGG	0.403													5	62					0	0	1	0	0		A	95092303	A	A	95092303	3	1	27	1	0	0	0	0	1	0	0	0	4307	1232	43	4	154	4	DCT	13	95092303	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1212574	95092303	20077575	5835	28186											
SOX21	11166	broad.mit.edu	37	chr13	95364135	95364135	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgcttggcctcgtcgatgaAcggccgcttctccgactctg	5	10	11	15	6	2	1	0	1	2	0	5	3	2	1	3	2	1	2	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:95364135A>G	uc001vma.2	-	1	255	c.169T>C	c.(169-171)TTC>CTC	p.F57L	uc001vmb.1_5'Flank	NM_007084	NP_009015	Q9Y651	SOX21_HUMAN	SRY-box 21	57	HMG box.				regulation of transcription from RNA polymerase II promoter|stem cell differentiation	nucleus	DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity				0	all_neural(89;0.0646)|Medulloblastoma(90;0.163)					TCGTCGATGAACGGCCGCTTC	0.617													6	84					0	0	1	0	0		G	95364135	G	G	95364135	3	3	27	1	0	0	0	0	1	0	0	0	14975	43	2	3	665	3	SOX21	13	95364135	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	271832	95364135	19805743	5836	28187											
HS6ST3	266722	broad.mit.edu	37	chr13	97484962	97484962	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaacctggctaacaatcGccaggtgcgcatgctggctg	9	8	11	13	2	0	0	0	0	0	0	1	0	0	0	2	3	5	4	2	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:97484962G>T	uc001vmw.2	+	2	950	c.926G>T	c.(925-927)CGC>CTC	p.R309L		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	309	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					GCTAACAATCGCCAGGTGCGC	0.547													4	61					1	1	1	1	0		T	97484962	T	T	97484962	3	4	27	1	0	0	0	0	1	0	0	0	7388	1087	38	5	932	5	HS6ST3	13	97484962	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2120827	97484962	17684916	5837	28188											
RAP2A	5911	broad.mit.edu	37	chr13	98116606	98116606	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagtaaaacaatggtggaCgaactctttgcagaaattgt	16	10	10	5	1	1	2	0	0	1	2	1	4	1	3	0	2	3	2	0	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:98116606C>T	uc001vnd.2	+	2	712	c.462C>T	c.(460-462)GAC>GAT	p.D154D		NM_021033	NP_066361	P10114	RAP2A_HUMAN	RAP2A, member of RAS oncogene family precursor	154					actin cytoskeleton reorganization|cellular protein localization|establishment of protein localization|positive regulation of protein autophosphorylation|Rap protein signal transduction|regulation of dendrite morphogenesis|regulation of JNK cascade	recycling endosome membrane	GTP binding|GTPase activity|protein binding			central_nervous_system(1)	1	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.166)			CAATGGTGGACGAACTCTTTG	0.463													26	88					0	0	1	0	0		T	98116606	T	T	98116606	2	4	27	1	0	0	0	0	0	0	0	1	13065	535	19	1		1	RAP2A	13	98116606	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	631644	98116606	17053272	5838	28189											
IPO5	3843	broad.mit.edu	37	chr13	98660323	98660323	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctctagttcatgcaggAtgcatcagatgtgatgcagc	9	13	10	9	0	3	2	2	1	1	1	4	3	4	3	1	1	4	4	1	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:98660323A>G	uc001vnf.1	+	15	1792	c.1727A>G	c.(1726-1728)GAT>GGT	p.D576G	IPO5_uc001vne.2_Missense_Mutation_p.D594G|IPO5_uc010tik.1_Missense_Mutation_p.D451G|IPO5_uc010til.1_Missense_Mutation_p.D516G|IPO5_uc001vng.1_Missense_Mutation_p.D197G	NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	576					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						TTCATGCAGGATGCATCAGAT	0.373													4	77					0	0	1	0	0		G	98660323	G	G	98660323	3	3	27	1	0	0	0	0	1	0	0	0	7812	333	12	3	1843	3	IPO5	13	98660323	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	543717	98660323	16509555	5839	28190											
IPO5	3843	broad.mit.edu	37	chr13	98662198	98662198	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggaaaagaatttcagcaaTaccttccagtggttatgggg	12	12	11	6	0	1	1	1	0	0	1	2	2	2	2	2	4	2	2	2	4	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:98662198T>A	uc001vnf.1	+	16	1929	c.1864T>A	c.(1864-1866)TAC>AAC	p.Y622N	IPO5_uc001vne.2_Missense_Mutation_p.Y640N|IPO5_uc010tik.1_Missense_Mutation_p.Y497N|IPO5_uc010til.1_Missense_Mutation_p.Y562N|IPO5_uc001vng.1_Missense_Mutation_p.Y243N	NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	622					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						ATTTCAGCAATACCTTCCAGT	0.368													4	45					0	0	1	0	0		A	98662198	A	A	98662198	3	1	27	1	0	0	0	0	1	0	0	0	7812	1406	49	5	1984	5	IPO5	13	98662198	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1875	98662198	16507680	5840	28191											
IPO5	3843	broad.mit.edu	37	chr13	98666423	98666423	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaaggccattggtacagaAccagattcagacgtcctctc	12	10	8	11	1	2	3	1	0	1	3	4	3	3	3	3	2	2	1	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:98666423A>T	uc001vne.2	+	22	2514	c.2334A>T	c.(2332-2334)GAA>GAT	p.E778D		NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	760					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						TTGGTACAGAACCAGATTCAG	0.383													5	114					0	0	1	0	0		T	98666423	T	T	98666423	3	4	27	1	0	0	0	0	1	0	0	0	7812	40	2	5	2412	5	IPO5	13	98666423	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4225	98666423	16503455	5841	28192											
IPO5	3843	broad.mit.edu	37	chr13	98671963	98671963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaagcctgactgtgtaaacGttgaagaggtccttccacac	11	10	9	11	1	1	3	1	2	0	1	3	3	3	3	3	1	2	2	3	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:98671963G>A	uc001vne.2	+	27	3199	c.3019G>A	c.(3019-3021)GTT>ATT	p.V1007I		NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	989					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						CTGTGTAAACGTTGAAGAGGT	0.418													24	70					0	0	1	0	0		A	98671963	A	A	98671963	3	1	27	1	0	0	0	0	1	0	0	0	7812	1145	40	1	3117	1	IPO5	13	98671963	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5540	98671963	16497915	5842	28193											
IPO5	3843	broad.mit.edu	37	chr13	98673356	98673356	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatgaagatccttgtgccaAacgtctggccaatgtcgttc	10	11	9	11	2	1	2	0	1	1	1	4	2	2	2	3	1	2	1	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:98673356A>G	uc001vne.2	+	28	3410	c.3230A>G	c.(3229-3231)AAA>AGA	p.K1077R		NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	1059					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						CCTTGTGCCAAACGTCTGGCC	0.413													17	164					0	0	1	0	0		G	98673356	G	G	98673356	3	3	27	1	0	0	0	0	1	0	0	0	7812	14	1	3	3332	3	IPO5	13	98673356	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1393	98673356	16496522	5843	28194											
RNF113B	140432	broad.mit.edu	37	chr13	98829068	98829068	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggtagatgtggtcgtgctcCcgaccccgcagtgcctcctg	4	9	13	15	4	0	1	0	0	0	1	3	2	2	1	5	2	2	3	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:98829068C>A	uc001vnk.2	-	1	454	c.423G>T	c.(421-423)CGG>CGT	p.R141R	FARP1_uc001vnh.2_Intron|FARP1_uc001vni.2_Intron|FARP1_uc001vnj.2_Intron	NM_178861	NP_849192	Q8IZP6	R113B_HUMAN	ring finger protein 113B	141							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.13)			GGTCGTGCTCCCGACCCCGCA	0.642													8	45					0.000157383	0.000166242	1	1	0		A	98829068	A	A	98829068	2	1	27	1	0	0	0	0	0	0	0	1	13453	610	22	5		5	RNF113B	13	98829068	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	155712	98829068	16340810	5844	28195											
DOCK9	23348	broad.mit.edu	37	chr13	99461670	99461670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcccgagtgcatgacctcgGtcactttgctgtaggcccgg	5	9	14	13	3	1	1	1	1	0	0	2	2	1	1	3	4	2	3	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:99461670G>A	uc001vnt.2	-	48	5361	c.5306C>T	c.(5305-5307)ACC>ATC	p.T1769I	DOCK9_uc001vnw.2_Missense_Mutation_p.T1768I|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.T1746I|DOCK9_uc001vnq.2_Missense_Mutation_p.T318I|DOCK9_uc001vnr.2_Missense_Mutation_p.T412I|DOCK9_uc010tin.1_Missense_Mutation_p.T389I|DOCK9_uc001vns.2_Missense_Mutation_p.T318I|DOCK9_uc010tio.1_Missense_Mutation_p.T438I|DOCK9_uc010tip.1_Missense_Mutation_p.T479I|DOCK9_uc001vnu.1_Missense_Mutation_p.T318I|DOCK9_uc010tiq.1_Missense_Mutation_p.T724I	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1769	DHR-2.				blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CATGACCTCGGTCACTTTGCT	0.572													11	88					0	0	1	0	0		A	99461670	A	A	99461670	3	1	27	1	0	0	0	0	1	0	0	0	4700	1261	44	4	935	4	DOCK9	13	99461670	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	632602	99461670	15708208	5845	28196											
DOCK9	23348	broad.mit.edu	37	chr13	99476757	99476757	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcatccttgtctaaacacGcctaggaagagaggaaggag	13	7	13	8	1	1	1	0	0	1	1	2	5	2	4	2	3	2	1	2	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:99476757G>A	uc001vnt.2	-	46	5083	c.5028C>T	c.(5026-5028)GGC>GGT	p.G1676G	DOCK9_uc001vnw.2_Silent_p.G1675G|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Silent_p.G1653G|DOCK9_uc001vnq.2_Silent_p.G225G|DOCK9_uc001vnr.2_Silent_p.G319G|DOCK9_uc010tin.1_Silent_p.G296G|DOCK9_uc001vns.2_Silent_p.G225G|DOCK9_uc010tio.1_Silent_p.G345G|DOCK9_uc010tip.1_Silent_p.G386G|DOCK9_uc001vnu.1_Silent_p.G225G|DOCK9_uc010tiq.1_Silent_p.G631G	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1676	DHR-2.				blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					GTCTAAACACGCCTAGGAAGA	0.517													29	65					0	0	1	0	0		A	99476757	A	A	99476757	2	1	27	1	0	0	0	0	0	0	0	1	4700	1101	38	1		1	DOCK9	13	99476757	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15087	99476757	15693121	5846	28197											
DOCK9	23348	broad.mit.edu	37	chr13	99538086	99538086	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgggcaactctattttaatCtgcaagggaagacaaaataa	16	10	9	6	0	2	1	0	0	2	1	2	2	2	2	0	2	2	2	0	2	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:99538086C>T	uc001vnt.2	-	20	2195	c.2140_splice	c.e20-1	p.I714_splice	DOCK9_uc001vnw.2_Splice_Site_p.I713_splice|DOCK9_uc001vnv.1_Splice_Site|DOCK9_uc010tir.1_Splice_Site_p.I714_splice|DOCK9_uc010tis.1_Splice_Site_p.I713_splice|DOCK9_uc010tit.1_Splice_Site_p.I714_splice|DOCK9_uc010afu.1_Splice_Site_p.I529_splice	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a						blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CTATTTTAATCTGCAAGGGAA	0.413													4	61					0	0	1	0	0		T	99538086	T	T	99538086	5	4	27	1	0	0	0	0	0	0	1	0	4700	927	32	4	4279	4	DOCK9	13	99538086	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61329	99538086	15631792	5847	28198											
ZIC5	85416	broad.mit.edu	37	chr13	100617835	100617835	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacaggggacaagggggcGcccactggagtccccactga	10	3	15	13	1	0	1	0	1	0	0	1	3	1	3	3	5	1	1	3	5	1	0	rs148340592	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:100617835G>A	uc001vom.1	-	2	2037	c.1788C>T	c.(1786-1788)GGC>GGT	p.G596G		NM_033132	NP_149123	Q96T25	ZIC5_HUMAN	zinc finger protein of the cerebellum 5	596					cell differentiation	nucleus	DNA binding|zinc ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					ACAAGGGGGCGCCCACTGGAG	0.602													6	103					0	0	1	0	0		A	100617835	A	A	100617835	2	1	27	1	0	0	0	0	0	0	0	1	17707	1074	38	1		1	ZIC5	13	100617835	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1079749	100617835	14552043	5848	28199											
PCCA	5095	broad.mit.edu	37	chr13	100959498	100959498	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatattagcatttattatgAtcctatgatttcaaaagtta	14	18	5	4	0	1	3	1	3	0	0	2	3	2	3	1	0	1	2	1	0	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:100959498A>T	uc001voo.2	+	15	1375	c.1337A>T	c.(1336-1338)GAT>GTT	p.D446V	PCCA_uc010aga.2_Missense_Mutation_p.D420V|PCCA_uc010tiz.1_Missense_Mutation_p.D446V|PCCA_uc001vop.2_RNA	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	446	Biotin carboxylation.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	ATTTATTATGATCCTATGATT	0.313													6	41					0	0	1	0	0		T	100959498	T	T	100959498	3	4	27	1	0	0	0	0	1	0	0	0	11523	333	12	5	1395	5	PCCA	13	100959498	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	341663	100959498	14210380	5849	28200											
TMTC4	84899	broad.mit.edu	37	chr13	101277794	101277794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccccgcgcttaccagacGcccgaggttgtagtaacagt	9	7	11	14	4	0	1	0	0	0	1	0	2	0	1	4	1	2	5	4	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:101277794G>A	uc001vou.2	-	14	1934	c.1774C>T	c.(1774-1776)CGT>TGT	p.R592C	TMTC4_uc001vot.2_Missense_Mutation_p.R611C|TMTC4_uc010tja.1_Missense_Mutation_p.R481C|TMTC4_uc001vov.1_Missense_Mutation_p.R337C|TMTC4_uc001vow.1_Missense_Mutation_p.R375C	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	592	TPR 5.					integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CTTACCAGACGCCCGAGGTTG	0.458													14	68					0	0	1	0	0		A	101277794	A	A	101277794	3	1	27	1	0	0	0	0	1	0	0	0	16288	1087	38	1	471	1	TMTC4	13	101277794	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	318296	101277794	13892084	5850	28201											
TMTC4	84899	broad.mit.edu	37	chr13	101287129	101287129	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactccgccactcgccgctgCgcagcacacatctcagcgtg	7	6	9	19	5	1	0	1	0	1	0	4	0	2	0	3	0	3	3	3	0	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:101287129C>A	uc001vou.2	-	11	1539	c.1379G>T	c.(1378-1380)CGC>CTC	p.R460L	TMTC4_uc001vot.2_Missense_Mutation_p.R479L|TMTC4_uc010tja.1_Missense_Mutation_p.R349L|TMTC4_uc001vov.1_Missense_Mutation_p.R205L|TMTC4_uc001vow.1_Missense_Mutation_p.R243L	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	460	TPR 1.|Helical; (Potential).					integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CTCGCCGCTGCGCAGCACACA	0.488													17	133					7.07596e-05	7.51747e-05	1	1	0		A	101287129	A	A	101287129	3	1	27	1	0	0	0	0	1	0	0	0	16288	768	27	5	878	5	TMTC4	13	101287129	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9335	101287129	13882749	5851	28202											
TMTC4	84899	broad.mit.edu	37	chr13	101290265	101290265	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaccaagatgtcaaatacCgcatttaaaccctaagaaag	18	8	5	10	1	2	2	2	0	0	2	2	2	2	2	3	0	2	1	3	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:101290265C>T	uc001vou.2	-	7	856	c.696G>A	c.(694-696)GCG>GCA	p.A232A	TMTC4_uc001vot.2_Silent_p.A251A|TMTC4_uc010tja.1_Silent_p.A121A|TMTC4_uc001vov.1_5'UTR|TMTC4_uc001vow.1_Silent_p.A15A	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	232	Helical; (Potential).					integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TGTCAAATACCGCATTTAAAC	0.398													4	42					0	0	1	0	0		T	101290265	T	T	101290265	2	4	27	1	0	0	0	0	0	0	0	1	16288	639	23	1		1	TMTC4	13	101290265	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3136	101290265	13879613	5852	28203											
NALCN	259232	broad.mit.edu	37	chr13	101707766	101707766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggggttcattttgcacaCgacagatttcatggttgtcc	8	14	10	9	1	2	1	2	0	0	1	3	2	3	1	1	3	1	3	1	3	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:101707766C>T	uc001vox.1	-	44	5287	c.5098G>A	c.(5098-5100)GTG>ATG	p.V1700M		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1700	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					ATTTTGCACACGACAGATTTC	0.507													31	130					0	0	1	0	0		T	101707766	T	T	101707766	3	4	27	1	0	0	0	0	1	0	0	0	10166	536	19	1	122	1	NALCN	13	101707766	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	417501	101707766	13462112	5853	28204											
NALCN	259232	broad.mit.edu	37	chr13	101733920	101733920	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccatacaacgccaagcgaCgtcaccaggagatcgtatcg	13	5	9	14	5	1	1	1	0	0	1	3	3	1	1	3	1	3	1	3	1	4	2	rs151200877	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:101733920C>T	uc001vox.1	-	34	4032	c.3843G>A	c.(3841-3843)ACG>ACA	p.T1281T		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1281	Helical; Name=S3 of repeat IV; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CGCCAAGCGACGTCACCAGGA	0.458													9	46					0	0	1	0	0		T	101733920	T	T	101733920	2	4	27	1	0	0	0	0	0	0	0	1	10166	523	19	1		1	NALCN	13	101733920	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	26154	101733920	13435958	5854	28205											
NALCN	259232	broad.mit.edu	37	chr13	101757279	101757279	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtatttttcacagctcCtgtgacagggtctgttttag	6	18	9	8	0	2	1	1	1	1	0	3	1	3	1	1	1	1	3	1	1	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:101757279C>A	uc001vox.1	-	23	2791	c.2602G>T	c.(2602-2604)GGA>TGA	p.G868*		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	868	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TTCACAGCTCCTGTGACAGGG	0.318													9	83					7.03913e-09	7.75164e-09	1	1	0		A	101757279	A	A	101757279	4	1	27	1	0	0	0	0	0	1	0	0	10166	690	24	5	2702	5	NALCN	13	101757279	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23359	101757279	13412599	5855	28206											
NALCN	259232	broad.mit.edu	37	chr13	101910797	101910797	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggagagctgcttacctcCgccaggtagaactcgtcgta	8	9	13	11	3	0	2	0	0	0	2	3	3	1	2	3	3	4	4	3	3	4	3	rs140469887		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:101910797C>T	uc001vox.1	-	11	1452	c.1263G>A	c.(1261-1263)GCG>GCA	p.A421A	NALCN_uc001voy.2_Silent_p.A136A|NALCN_uc001voz.2_Silent_p.A421A|NALCN_uc001vpa.2_Silent_p.A421A	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	421	Extracellular (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TGCTTACCTCCGCCAGGTAGA	0.542													4	33					0	0	1	0	0		T	101910797	T	T	101910797	2	4	27	1	0	0	0	0	0	0	0	1	10166	639	23	1		1	NALCN	13	101910797	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	153518	101910797	13259081	5856	28207											
C13orf27	93081	broad.mit.edu	37	chr13	103420632	103420632	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagaaaaacacctgcaagTttgtattctcctgatgtctt	12	13	6	10	0	2	2	0	1	2	1	3	2	2	2	3	0	2	3	3	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:103420632T>C	uc001vpo.2	-	4	454	c.276A>G	c.(274-276)AAA>AAG	p.K92K	C13orf27_uc001vpn.2_Silent_p.K51K|C13orf27_uc001vpp.2_Silent_p.K51K	NM_138779	NP_620134	Q5JUR7	CM027_HUMAN	hypothetical protein LOC93081	92											0	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					CACCTGCAAGTTTGTATTCTC	0.299													7	102					0	0	1	0	0		C	103420632	C	C	103420632	2	2	27	1	0	0	0	0	0	0	0	1	1726	1722	60	3		3	C13orf27	13	103420632	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1509835	103420632	11749246	5857	28208											
KDELC1	79070	broad.mit.edu	37	chr13	103449358	103449358	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcgcctggagaagatgtgaAtctgtgatgaaaaggcaatg	13	10	13	5	1	1	5	0	3	1	2	2	6	1	5	1	2	0	1	1	2	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:103449358A>T	uc001vpq.3	-	2	568	c.184T>A	c.(184-186)TTC>ATC	p.F62I	KDELC1_uc001vpr.3_5'UTR|BIVM_uc001vps.2_5'Flank|BIVM_uc010agc.2_5'Flank	NM_024089	NP_076994	Q6UW63	KDEL1_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 1 precursor	62	Filamin.					endoplasmic reticulum lumen				ovary(1)	1	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					GAAGATGTGAATCTGTGATGA	0.433													3	68					0	0	1	0	0		T	103449358	T	T	103449358	3	4	27	1	0	0	0	0	1	0	0	0	8133	115	4	5	1360	5	KDELC1	13	103449358	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	28726	103449358	11720520	5858	28209											
ERCC5	2073	broad.mit.edu	37	chr13	103459814	103459814	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactcatacacgggaaaaaaTttatgccatctgttcggact	13	11	8	9	2	2	0	1	0	1	0	3	3	2	2	1	2	2	1	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:103459814T>A	uc001vpu.1	+	1	319	c.197T>A	c.(196-198)ATT>AAT	p.I66N	BIVM_uc001vps.2_Missense_Mutation_p.I66N|BIVM_uc010agc.2_Intron|BIVM_uc001vpt.2_Missense_Mutation_p.I66N	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	Error:Variant_position_missing_in_P28715_after_alignment					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					CGGGAAAAAATTTATGCCATC	0.473			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				4	99					0	0	1	0	0		A	103459814	A	A	103459814	3	1	27	1	0	0	0	0	1	0	0	0	5224	1493	52	5		5	ERCC5	13	103459814	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10456	103459814	11710064	5859	28210											
EFNB2	1948	broad.mit.edu	37	chr13	107145577	107145577	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgcttgggtgtggccagTgtgctgagcgacagcgtggt	4	10	18	9	3	0	1	0	1	0	0	0	2	0	1	1	3	4	2	1	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:107145577T>C	uc001vqi.2	-	5	838	c.813A>G	c.(811-813)ACA>ACG	p.T271T		NM_004093	NP_004084	P52799	EFNB2_HUMAN	ephrin B2 precursor	271	Cytoplasmic (Potential).				cell differentiation|cell-cell signaling|interspecies interaction between organisms|nervous system development	integral to plasma membrane	ephrin receptor binding			ovary(1)	1	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					GTGTGGCCAGTGTGCTGAGCG	0.557													4	67					0	0	1	0	0		C	107145577	C	C	107145577	2	2	27	1	0	0	0	0	0	0	0	1	4962	1683	59	3		3	EFNB2	13	107145577	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3685763	107145577	8024301	5860	28211											
EFNB2	1948	broad.mit.edu	37	chr13	107148116	107148116	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtccaactttcatgaggAtcttcatggctcttgtctgg	6	16	9	10	0	5	1	2	1	3	0	6	2	6	2	1	3	1	1	1	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:107148116A>T	uc001vqi.2	-	3	504	c.479T>A	c.(478-480)ATC>AAC	p.I160N		NM_004093	NP_004084	P52799	EFNB2_HUMAN	ephrin B2 precursor	160	Extracellular (Potential).				cell differentiation|cell-cell signaling|interspecies interaction between organisms|nervous system development	integral to plasma membrane	ephrin receptor binding			ovary(1)	1	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					TTTCATGAGGATCTTCATGGC	0.483													38	169					0	0	1	0	0		T	107148116	T	T	107148116	3	4	27	1	0	0	0	0	1	0	0	0	4962	333	12	5	534	5	EFNB2	13	107148116	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2539	107148116	8021762	5861	28212											
FAM155A	728215	broad.mit.edu	37	chr13	108518877	108518877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaacggtttctcgttctctCggggtgctgccaaccagatt	6	13	11	11	3	2	2	0	1	2	1	5	2	2	2	2	3	4	3	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:108518877C>T	uc001vql.2	-	1	584	c.68G>A	c.(67-69)CGA>CAA	p.R23Q		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	23						integral to membrane	binding			skin(1)	1						CTCGTTCTCTCGGGGTGCTGC	0.532													33	173					0	0	1	0	0		T	108518877	T	T	108518877	3	4	27	1	0	0	0	0	1	0	0	0	5476	884	31	1	1320	1	FAM155A	13	108518877	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1370761	108518877	6651001	5862	28213											
LIG4	3981	broad.mit.edu	37	chr13	108861796	108861796	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttagatgcgagcttaccAgatgccttccccctaagttg	8	13	9	11	1	0	2	0	0	0	2	1	3	1	2	4	0	4	3	4	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:108861796A>G	uc001vqn.2	-	2	2094	c.1821T>C	c.(1819-1821)TCT>TCC	p.S607S	LIG4_uc001vqo.2_Silent_p.S607S|LIG4_uc010agg.1_Silent_p.S540S|LIG4_uc010agf.2_Silent_p.S607S|LIG4_uc001vqp.2_Silent_p.S607S	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	607					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					CGAGCTTACCAGATGCCTTCC	0.438								NHEJ					8	87					0	0	1	0	0		G	108861796	G	G	108861796	2	3	27	1	0	0	0	0	0	0	0	1	8799	175	7	3		3	LIG4	13	108861796	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	342919	108861796	6308082	5863	28214											
LIG4	3981	broad.mit.edu	37	chr13	108861807	108861807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcttaccagatgccttccCcctaagttgttctaggtcgt	7	13	9	12	1	1	1	0	0	1	1	3	2	2	1	4	1	3	3	4	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:108861807C>T	uc001vqn.2	-	2	2083	c.1810G>A	c.(1810-1812)GGG>AGG	p.G604R	LIG4_uc001vqo.2_Missense_Mutation_p.G604R|LIG4_uc010agg.1_Missense_Mutation_p.G537R|LIG4_uc010agf.2_Missense_Mutation_p.G604R|LIG4_uc001vqp.2_Missense_Mutation_p.G604R	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	604					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					GATGCCTTCCCCCTAAGTTGT	0.448								NHEJ					8	76					0	0	1	0	0		T	108861807	T	T	108861807	3	4	27	1	0	0	0	0	1	0	0	0	8799	623	22	4	929	4	LIG4	13	108861807	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11	108861807	6308071	5864	28215											
LIG4	3981	broad.mit.edu	37	chr13	108861847	108861847	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccagggtcatgcactcatgCcactccttgtcatctcttat	7	14	6	14	0	4	0	3	0	1	0	7	0	6	0	3	1	2	1	3	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:108861847C>T	uc001vqn.2	-	2	2043	c.1770G>A	c.(1768-1770)TGG>TGA	p.W590*	LIG4_uc001vqo.2_Nonsense_Mutation_p.W590*|LIG4_uc010agg.1_Nonsense_Mutation_p.W523*|LIG4_uc010agf.2_Nonsense_Mutation_p.W590*|LIG4_uc001vqp.2_Nonsense_Mutation_p.W590*	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	590					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					TGCACTCATGCCACTCCTTGT	0.448								NHEJ					6	64					0	0	1	0	0		T	108861847	T	T	108861847	4	4	27	1	0	0	0	0	0	1	0	0	8799	740	26	2	969	2	LIG4	13	108861847	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	40	108861847	6308031	5865	28216											
LIG4	3981	broad.mit.edu	37	chr13	108862965	108862965	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactttttccagatctgtagTgacattatgcaactcagcag	11	13	8	9	0	2	2	1	1	1	1	3	3	3	2	1	0	3	3	1	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:108862965T>C	uc001vqn.2	-	2	925	c.652A>G	c.(652-654)ACT>GCT	p.T218A	LIG4_uc001vqo.2_Missense_Mutation_p.T218A|LIG4_uc010agg.1_Missense_Mutation_p.T151A|LIG4_uc010agf.2_Missense_Mutation_p.T218A|LIG4_uc001vqp.2_Missense_Mutation_p.T218A	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	218					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					AGATCTGTAGTGACATTATGC	0.368								NHEJ					3	56					0	0	1	0	0		C	108862965	C	C	108862965	3	2	27	1	0	0	0	0	1	0	0	0	8799	1696	59	3	2087	3	LIG4	13	108862965	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1118	108862965	6306913	5866	28217											
MYO16	23026	broad.mit.edu	37	chr13	109438032	109438032	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatggaaatatcccattagAttatgctgtagaagggacag	15	10	11	5	0	0	2	0	0	0	2	1	5	1	4	1	2	1	2	1	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:109438032A>T	uc001vqt.1	+	5	617	c.491A>T	c.(490-492)GAT>GTT	p.D164V	MYO16_uc010agk.1_Missense_Mutation_p.D186V	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	164	ANK 4.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			ATCCCATTAGATTATGCTGTA	0.333													9	66					0	0	1	0	0		T	109438032	T	T	109438032	3	4	27	1	0	0	0	0	1	0	0	0	10082	333	12	5	505	5	MYO16	13	109438032	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	575067	109438032	5731846	5867	28218											
MYO16	23026	broad.mit.edu	37	chr13	109831918	109831918	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagaagatggatactcacgGttgtctataagtggcacagg	13	9	13	6	1	2	2	1	0	1	2	2	4	2	3	0	4	1	2	0	4	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:109831918G>A	uc001vqt.1	+	34	5412	c.5286G>A	c.(5284-5286)CGG>CGA	p.R1762R	MYO16_uc010agk.1_Silent_p.R1784R	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1762					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			GATACTCACGGTTGTCTATAA	0.433													4	66					0	0	1	0	0		A	109831918	A	A	109831918	2	1	27	1	0	0	0	0	0	0	0	1	10082	1248	44	4		4	MYO16	13	109831918	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	393886	109831918	5337960	5868	28219											
COL4A1	1282	broad.mit.edu	37	chr13	110822921	110822921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggctggccctgaggtcCgcggtctcctttgggcccct	2	9	14	16	2	1	1	0	1	1	0	3	1	2	1	6	5	0	1	6	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:110822921C>T	uc001vqw.3	-	42	3837	c.3715G>A	c.(3715-3717)GGA>AGA	p.G1239R	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1239	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CCCTGAGGTCCGCGGTCTCCT	0.627													3	8					0	0	1	0	0		T	110822921	T	T	110822921	3	4	27	1	0	0	0	0	1	0	0	0	3692	661	23	1	1338	1	COL4A1	13	110822921	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	991003	110822921	4346957	5869	28220											
COL4A1	1282	broad.mit.edu	37	chr13	110862346	110862346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggtccggtaaatcctGgaggcccaacaggaccttga	9	8	13	11	1	0	1	0	1	0	0	2	3	2	3	4	6	1	1	4	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:110862346G>A	uc001vqw.3	-	10	718	c.596C>T	c.(595-597)CCA>CTA	p.P199L	COL4A1_uc010agl.2_Missense_Mutation_p.P199L	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	199	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			GGTAAATCCTGGAGGCCCAAC	0.463													4	77					0	0	1	0	0		A	110862346	A	A	110862346	3	1	27	1	0	0	0	0	1	0	0	0	3692	1348	47	4	4585	4	COL4A1	13	110862346	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39425	110862346	4307532	5870	28221											
ING1	3621	broad.mit.edu	37	chr13	111372083	111372083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaacccacgtactgtctgtGcaaccaggtctcctatgggg	8	9	11	13	2	2	0	0	0	2	0	3	1	2	0	3	3	4	2	3	3	4	2	rs121909250		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:111372083G>A	uc001vri.2	+	2	1505	c.1073G>A	c.(1072-1074)TGC>TAC	p.C358Y	ING1_uc001vrf.2_Missense_Mutation_p.C171Y|ING1_uc001vrg.2_Missense_Mutation_p.C146Y|ING1_uc001vrh.2_Missense_Mutation_p.C215Y	NM_005537	NP_005528	Q9UK53	ING1_HUMAN	inhibitor of growth family, member 1 isoform D	358	PHD-type.		C -> S (in HNSCC).		cell cycle|negative regulation of cell growth|negative regulation of cell proliferation	nucleus	zinc ion binding			ovary(1)	1	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.188)			TACTGTCTGTGCAACCAGGTC	0.597													4	52					0	0	1	0	0		A	111372083	A	A	111372083	3	1	27	1	0	0	0	0	1	0	0	0	7751	1319	46	2	1227	2	ING1	13	111372083	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	509737	111372083	3797795	5871	28222											
ARHGEF7	8874	broad.mit.edu	37	chr13	111862257	111862257	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccgtgtgtgcccggcccTcgtctcaccgcataaagtct	6	10	9	16	4	2	0	1	0	2	0	5	0	3	0	4	1	1	1	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:111862257T>C	uc001vrs.2	+	5	689	c.439T>C	c.(439-441)TCG>CCG	p.S147P	ARHGEF7_uc001vrr.2_Missense_Mutation_p.S126P|ARHGEF7_uc001vrt.2_Missense_Mutation_p.S97P|ARHGEF7_uc010tjn.1_Intron|ARHGEF7_uc001vru.1_5'UTR|ARHGEF7_uc001vrv.3_Intron|ARHGEF7_uc001vrw.3_5'UTR|ARHGEF7_uc001vrx.3_5'UTR|ARHGEF7_uc010tjo.1_Missense_Mutation_p.S44P	NM_001113511	NP_001106983	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform c	147					apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			TGCCCGGCCCTCGTCTCACCG	0.532													13	193					0	0	1	0	0		C	111862257	C	C	111862257	3	2	27	1	0	0	0	0	1	0	0	0	911	1551	54	3	457	3	ARHGEF7	13	111862257	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	490174	111862257	3307621	5872	28223											
ARHGEF7	8874	broad.mit.edu	37	chr13	111927973	111927973	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgatgacattaaaactcTgggcaacgtcacttacatgt	12	10	10	9	2	2	1	1	1	1	0	2	2	2	1	0	2	3	1	0	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:111927973T>C	uc001vrs.2	+	13	1680	c.1430T>C	c.(1429-1431)CTG>CCG	p.L477P	ARHGEF7_uc001vrr.2_Missense_Mutation_p.L456P|ARHGEF7_uc001vrt.2_Missense_Mutation_p.L427P|ARHGEF7_uc010tjn.1_RNA|ARHGEF7_uc001vru.1_Missense_Mutation_p.L299P|ARHGEF7_uc001vrv.3_Missense_Mutation_p.L299P|ARHGEF7_uc001vrw.3_Missense_Mutation_p.L299P|ARHGEF7_uc001vrx.3_Missense_Mutation_p.L299P|ARHGEF7_uc010tjo.1_Missense_Mutation_p.L374P|ARHGEF7_uc010tjp.1_Missense_Mutation_p.L221P|ARHGEF7_uc010agn.1_Missense_Mutation_p.L221P	NM_001113511	NP_001106983	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform c	477	PH.				apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			ATTAAAACTCTGGGCAACGTC	0.547													11	113					0	0	1	0	0		C	111927973	C	C	111927973	3	2	27	1	0	0	0	0	1	0	0	0	911	1580	55	3	1480	3	ARHGEF7	13	111927973	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	65716	111927973	3241905	5873	28224											
C13orf28	122258	broad.mit.edu	37	chr13	113053461	113053461	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaatttacaattctctcctgGcattgaggtcaaaatttcca	12	14	6	9	0	2	1	1	1	1	0	5	2	4	1	2	2	1	1	2	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:113053461G>T	uc001vsd.1	+	4	354	c.323G>T	c.(322-324)GGC>GTC	p.G108V		NM_145248	NP_660291	Q96KW9	SPAC7_HUMAN	hypothetical protein LOC122258 precursor	108						extracellular region					0	all_lung(23;0.000633)|Lung NSC(43;0.0161)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0997)|Medulloblastoma(90;0.163)					TTCTCTCCTGGCATTGAGGTC	0.423													4	43					2.56e-06	2.77152e-06	1	1	0		T	113053461	T	T	113053461	3	4	27	1	0	0	0	0	1	0	0	0	1727	1203	42	5	337	5	C13orf28	13	113053461	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1125488	113053461	2116417	5874	28225											
ATP11A	23250	broad.mit.edu	37	chr13	113532535	113532535	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacctcgggactaagactaAgagccagtgcctttctgtcg	9	10	11	11	2	1	3	0	1	1	2	3	4	1	4	3	1	2	0	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:113532535A>G	uc001vsi.3	+	29	3420	c.3332A>G	c.(3331-3333)AAG>AGG	p.K1111R	ATP11A_uc001vsj.3_Intron|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	1111	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				ACTAAGACTAAGAGCCAGTGC	0.527													8	88					0	0	1	0	0		G	113532535	G	G	113532535	3	3	27	1	0	0	0	0	1	0	0	0	1120	72	3	3	3446	3	ATP11A	13	113532535	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	479074	113532535	1637343	5875	28226											
MCF2L	23263	broad.mit.edu	37	chr13	113669143	113669143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggaccagctaaagaagcGctttgcttacctgtccggtg	9	9	11	12	2	0	1	0	0	0	1	1	2	1	2	4	2	4	3	4	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:113669143G>A	uc001vsu.2	+	2	339	c.317G>A	c.(316-318)CGC>CAC	p.R106H	MCF2L_uc001vsq.2_Missense_Mutation_p.R106H|MCF2L_uc010tjr.1_Missense_Mutation_p.R49H|MCF2L_uc001vsr.2_Missense_Mutation_p.R53H|MCF2L_uc001vss.3_Missense_Mutation_p.R47H|MCF2L_uc010tjs.1_Missense_Mutation_p.R47H	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	79	CRAL-TRIO.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				CTAAAGAAGCGCTTTGCTTAC	0.632													8	90					0	0	1	0	0		A	113669143	A	A	113669143	3	1	27	1	0	0	0	0	1	0	0	0	9397	1087	38	1	418	1	MCF2L	13	113669143	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	136608	113669143	1500735	5876	28227											
F7	2155	broad.mit.edu	37	chr13	113773089	113773089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacggagtacatgttctgtGccggctactcggatggcagc	7	10	13	11	3	2	0	1	0	1	0	3	2	2	2	1	4	4	4	1	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:113773089G>A	uc001vsv.2	+	9	1219	c.1168G>A	c.(1168-1170)GCC>ACC	p.A390T	F7_uc001vsw.2_Missense_Mutation_p.A368T|F7_uc010tjt.1_Missense_Mutation_p.A321T	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	390	Peptidase S1.				anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	CATGTTCTGTGCCGGCTACTC	0.622													5	14					0	0	1	0	0		A	113773089	A	A	113773089	3	1	27	1	0	0	0	0	1	0	0	0	5357	1319	46	2	1202	2	F7	13	113773089	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	103946	113773089	1396789	5877	28228											
LAMP1	3916	broad.mit.edu	37	chr13	113975975	113975975	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgtccgtgtcacgaaggcGttttcagtcaatatattcaa	11	12	8	10	4	4	0	4	0	0	0	5	1	5	0	1	1	0	1	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:113975975G>A	uc001vtm.1	+	8	1328	c.1047G>A	c.(1045-1047)GCG>GCA	p.A349A	LAMP1_uc010tka.1_Silent_p.A296A	NM_005561	NP_005552	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	349	Lumenal (Potential).|Second lumenal domain.					endosome membrane|integral to plasma membrane|lysosomal membrane|membrane fraction				central_nervous_system(2)	2	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			TCACGAAGGCGTTTTCAGTCA	0.582													5	80					0	0	1	0	0		A	113975975	A	A	113975975	2	1	27	1	0	0	0	0	0	0	0	1	8633	1132	40	1		1	LAMP1	13	113975975	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	202886	113975975	1193903	5878	28229											
GRK1	6011	broad.mit.edu	37	chr13	114324068	114324068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcgtgtctctggcctatGcgtttgaaaccaaagccgac	9	11	9	12	3	2	1	1	1	1	0	4	2	2	1	3	1	3	1	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:114324068G>A	uc010tkf.1	+	2	874	c.766G>A	c.(766-768)GCG>ACG	p.A256T		NM_002929	NP_002920	Q15835	RK_HUMAN	rhodopsin kinase precursor	256	Protein kinase.				regulation of G-protein coupled receptor protein signaling pathway|rhodopsin mediated phototransduction|rhodopsin mediated signaling pathway	membrane	ATP binding|G-protein coupled receptor kinase activity|rhodopsin kinase activity|signal transducer activity			ovary(2)	2	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.00696)|all_epithelial(44;0.00347)|all_lung(25;0.0221)|Breast(118;0.0411)|Lung NSC(25;0.0839)	all cancers(43;0.234)			TCTGGCCTATGCGTTTGAAAC	0.542													36	137					0	0	1	0	0		A	114324068	A	A	114324068	3	1	27	1	0	0	0	0	1	0	0	0	6806	1319	46	2	772	2	GRK1	13	114324068	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	348093	114324068	845810	5879	28230											
GAS6	2621	broad.mit.edu	37	chr13	114537624	114537624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcagacctgctcacagcggCcctgcagacactcgtccaca	9	5	9	18	3	1	2	1	0	0	2	3	2	2	2	3	1	3	3	3	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:114537624C>T	uc001vud.2	-	8	887	c.734G>A	c.(733-735)GGC>GAC	p.G245D	GAS6_uc001vug.2_5'Flank|GAS6_uc001vuf.2_5'UTR	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	245	EGF-like 4; calcium-binding (Potential).				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				CTCACAGCGGCCCTGCAGACA	0.662													7	36					0	0	1	0	0		T	114537624	T	T	114537624	3	4	27	1	0	0	0	0	1	0	0	0	6264	739	26	2	1334	2	GAS6	13	114537624	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	213556	114537624	632254	5880	28231											
RASA3	22821	broad.mit.edu	37	chr13	114780792	114780792	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtggaagacgcggtccacaTactgccgtaggttctcctgc	7	9	12	13	4	1	1	0	0	1	1	3	2	2	2	3	3	3	2	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr13:114780792T>C	uc001vui.2	-	14	1429	c.1298A>G	c.(1297-1299)TAT>TGT	p.Y433C	RASA3_uc010tkk.1_Missense_Mutation_p.Y401C|RASA3_uc001vuj.2_Missense_Mutation_p.Y50C	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	433	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			GCGGTCCACATACTGCCGTAG	0.672													6	54					0	0	1	0	0		C	114780792	C	C	114780792	3	2	27	1	0	0	0	0	1	0	0	0	13087	1406	49	3	1250	3	RASA3	13	114780792	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	243168	114780792	389086	5881	28232											
POTEG	404785	broad.mit.edu	37	chr14	19553814	19553814	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgctttcatggagccgaggtAccacgtccgtcgagaagatc	9	8	12	12	5	1	2	1	0	0	2	4	5	2	3	3	2	2	2	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:19553814A>G	uc001vuz.1	+	1	450	c.398A>G	c.(397-399)TAC>TGC	p.Y133C	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	133										ovary(1)	1						GAGCCGAGGTACCACGTCCGT	0.587													5	238					0	0	1	0	0		G	19553814	G	G	19553814	3	3	27	1	0	0	0	0	1	0	0	0	12285	391	14	3	400	3	POTEG	14	19553814	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08		19553814	87795726	5882	28233											
OR4M1	441670	broad.mit.edu	37	chr14	20249085	20249085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggagttagtgatgatctgtAgtagtggtctgatctctgtg	8	15	14	4	0	3	3	0	3	3	0	4	4	3	4	0	2	0	3	0	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:20249085A>G	uc010tku.1	+	1	604	c.604A>G	c.(604-606)AGT>GGT	p.S202G		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	202	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GATGATCTGTAGTAGTGGTCT	0.478													13	189					0	0	1	0	0		G	20249085	G	G	20249085	3	3	27	1	0	0	0	0	1	0	0	0	11094	420	15	3	606	3	OR4M1	14	20249085	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	695271	20249085	87100455	5883	28234											
OR4N2	390429	broad.mit.edu	37	chr14	20296017	20296017	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcactatcctactgtcatgaAccctagaacctgctatgcaa	12	10	6	13	0	1	2	1	1	0	1	2	2	2	2	3	0	5	3	3	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:20296017A>T	uc010tkv.1	+	1	410	c.410A>T	c.(409-411)AAC>ATC	p.N137I		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ACTGTCATGAACCCTAGAACC	0.532													18	180					0	0	1	0	0		T	20296017	T	T	20296017	3	4	27	1	0	0	0	0	1	0	0	0	11096	43	2	5	412	5	OR4N2	14	20296017	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	46932	20296017	87053523	5884	28235											
OR4K5	79317	broad.mit.edu	37	chr14	20389618	20389618	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacccccgtcctaaaccccAttatttatacactaaggaat	13	11	3	14	1	1	0	1	0	0	0	2	1	2	1	5	1	2	0	5	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:20389618A>G	uc010tkw.1	+	1	853	c.853A>G	c.(853-855)ATT>GTT	p.I285V		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CCTAAACCCCATTATTTATAC	0.408													8	134					0	0	1	0	0		G	20389618	G	G	20389618	3	3	27	1	0	0	0	0	1	0	0	0	11092	217	8	3	855	3	OR4K5	14	20389618	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	93601	20389618	86959922	5885	28236											
OR4N5	390437	broad.mit.edu	37	chr14	20612317	20612317	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcatgaaccctagagcctgCtatgcattatcgttggttct	9	14	8	10	1	2	2	1	1	1	1	3	2	2	2	2	1	4	4	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:20612317C>T	uc010tla.1	+	1	423	c.423C>T	c.(421-423)TGC>TGT	p.C141C		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)		CTAGAGCCTGCTATGCATTAT	0.517													17	212					0	0	1	0	0		T	20612317	T	T	20612317	2	4	27	1	0	0	0	0	0	0	0	1	11098	805	28	2		2	OR4N5	14	20612317	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	222699	20612317	86737223	5886	28237											
OR11G2	390439	broad.mit.edu	37	chr14	20666363	20666363	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgtggtttcactgttctAcggctcagtactggtcatgt	5	15	12	9	1	4	0	3	0	1	0	4	0	4	0	0	4	2	5	0	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:20666363A>G	uc010tlb.1	+	1	869	c.869A>G	c.(868-870)TAC>TGC	p.Y290C		NM_001005503	NP_001005503	Q8NGC1	O11G2_HUMAN	olfactory receptor, family 11, subfamily G,	290	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.76e-07)|all cancers(55;5.61e-06)	GBM - Glioblastoma multiforme(265;0.0144)		TCACTGTTCTACGGCTCAGTA	0.353													13	203					0	0	1	0	0		G	20666363	G	G	20666363	3	3	27	1	0	0	0	0	1	0	0	0	10944	391	14	3	871	3	OR11G2	14	20666363	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	54046	20666363	86683177	5887	28238											
TEP1	7011	broad.mit.edu	37	chr14	20845495	20845495	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctagcacaggcttctggAatctggacaggagccagagg	10	7	14	10	0	2	1	0	0	2	1	3	4	3	4	2	5	2	2	2	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:20845495A>G	uc001vxe.2	-	41	6072	c.6032T>C	c.(6031-6033)TTC>TCC	p.F2011S	TEP1_uc010ahk.2_Missense_Mutation_p.F1354S|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.F1903S|TEP1_uc010tlh.1_Missense_Mutation_p.F349S	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	2011	WD 10.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		AGGCTTCTGGAATCTGGACAG	0.532													5	29					0	0	1	0	0		G	20845495	G	G	20845495	3	3	27	1	0	0	0	0	1	0	0	0	15784	246	9	3	1911	3	TEP1	14	20845495	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	179132	20845495	86504045	5888	28239											
TEP1	7011	broad.mit.edu	37	chr14	20846301	20846301	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccttctcgccaggcccacAgctccaccatactgtccagc	7	7	6	21	1	1	0	0	0	1	0	4	0	3	0	7	1	3	1	7	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:20846301A>C	uc001vxe.2	-	39	5643	c.5603T>G	c.(5602-5604)CTG>CGG	p.L1868R	TEP1_uc010ahk.2_Missense_Mutation_p.L1211R|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.L1760R|TEP1_uc010tlh.1_Missense_Mutation_p.L206R	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1868	WD 6.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		CCAGGCCCACAGCTCCACCAT	0.642													6	81					0	0	1	0	0		C	20846301	C	C	20846301	3	2	27	1	0	0	0	0	1	0	0	0	15784	188	7	5	2348	5	TEP1	14	20846301	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	806	20846301	86503239	5889	28240											
TEP1	7011	broad.mit.edu	37	chr14	20846985	20846985	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggcagcagccagtgatttgGtactggtgagccttagtctg	8	11	14	8	0	1	2	0	2	1	0	1	2	1	2	2	3	4	3	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:20846985G>A	uc001vxe.2	-	37	5320	c.5280C>T	c.(5278-5280)TAC>TAT	p.Y1760Y	TEP1_uc010ahk.2_Silent_p.Y1103Y|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Silent_p.Y1652Y|TEP1_uc010tlh.1_Silent_p.Y98Y	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1760	WD 4.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		CAGTGATTTGGTACTGGTGAG	0.582													8	70					0	0	1	0	0		A	20846985	A	A	20846985	2	1	27	1	0	0	0	0	0	0	0	1	15784	1256	44	4		4	TEP1	14	20846985	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	684	20846985	86502555	5890	28241											
TEP1	7011	broad.mit.edu	37	chr14	20850794	20850794	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactgacctgctcatacagCgtgaagagcctcaggtgatc	11	8	11	11	1	2	4	2	3	0	1	3	5	2	4	2	1	5	1	2	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:20850794C>T	uc001vxe.2	-	28	4168	c.4128G>A	c.(4126-4128)ACG>ACA	p.T1376T	TEP1_uc010ahk.2_Silent_p.T719T|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Silent_p.T1268T|TEP1_uc010tlh.1_5'Flank	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1376	NACHT.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		GCTCATACAGCGTGAAGAGCC	0.547													10	80					0	0	1	0	0		T	20850794	T	T	20850794	2	4	27	1	0	0	0	0	0	0	0	1	15784	755	27	1		1	TEP1	14	20850794	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3809	20850794	86498746	5891	28242											
TEP1	7011	broad.mit.edu	37	chr14	20859807	20859807	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgcattagcatctgtcAgatagaccaagacagtgcgg	11	10	11	9	1	3	3	1	0	2	3	3	3	3	3	1	1	3	2	1	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:20859807A>G	uc001vxe.2	-	13	2088	c.2048T>C	c.(2047-2049)CTG>CCG	p.L683P	TEP1_uc010ahk.2_Missense_Mutation_p.L33P|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.L575P	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	683					telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		AGCATCTGTCAGATAGACCAA	0.542													30	125					0	0	1	0	0		G	20859807	G	G	20859807	3	3	27	1	0	0	0	0	1	0	0	0	15784	188	7	3	6007	3	TEP1	14	20859807	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	9013	20859807	86489733	5892	28243											
APEX1	328	broad.mit.edu	37	chr14	20924885	20924885	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagaccaaatgttcagagaAcaaactaccagctgaacttc	17	7	7	10	0	1	3	1	1	0	2	2	5	1	3	2	0	5	2	2	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:20924885A>T	uc001vxg.2	+	4	637	c.305A>T	c.(304-306)AAC>ATC	p.N102I	OSGEP_uc001vxf.2_5'Flank|APEX1_uc001vxh.2_Missense_Mutation_p.N102I|APEX1_uc001vxi.2_Missense_Mutation_p.N102I|APEX1_uc001vxj.2_Missense_Mutation_p.N102I	NM_001641	NP_001632	P27695	APEX1_HUMAN	APEX nuclease 1	102					base-excision repair|DNA demethylation|DNA recombination|positive regulation of anti-apoptosis|positive regulation of DNA repair|regulation of mRNA stability|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|endoplasmic reticulum|mitochondrion|nuclear speck|nucleolus|perinuclear region of cytoplasm|ribosome	3'-5' exonuclease activity|chromatin DNA binding|damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|metal ion binding|oxidoreductase activity|phosphodiesterase I activity|protein binding|ribonuclease H activity|RNA binding|site-specific endodeoxyribonuclease activity, specific for altered base|transcription coactivator activity|transcription corepressor activity|uracil DNA N-glycosylase activity			ovary(2)|breast(2)	4	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;1.09e-07)|all cancers(55;1.19e-06)	GBM - Glioblastoma multiforme(265;0.0224)|READ - Rectum adenocarcinoma(17;0.193)	Lucanthone(DB04967)	TGTTCAGAGAACAAACTACCA	0.473								Direct_reversal_of_damage|Other_BER_factors					11	124					0	0	1	0	0		T	20924885	T	T	20924885	3	4	27	1	0	0	0	0	1	0	0	0	769	43	2	5	315	5	APEX1	14	20924885	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	65078	20924885	86424655	5893	28244											
RNASE3	6037	broad.mit.edu	37	chr14	21360111	21360111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtaaccaaagtatacgctGccctcataacagaactctca	14	9	6	12	1	2	1	2	0	1	1	3	1	2	1	2	1	5	3	2	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:21360111G>A	uc001vyj.2	+	2	320	c.266G>A	c.(265-267)TGC>TAC	p.C89Y		NM_002935	NP_002926	P12724	ECP_HUMAN	ribonuclease, RNase A family, 3 (eosinophil	89					defense response to bacterium|RNA catabolic process	extracellular region|soluble fraction	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00453)		OV - Ovarian serous cystadenocarcinoma(11;6.3e-09)|Epithelial(56;1.42e-07)|all cancers(55;5.48e-07)	GBM - Glioblastoma multiforme(265;0.0187)	Pranlukast(DB01411)	AGTATACGCTGCCCTCATAAC	0.388													22	89					0	0	1	0	0		A	21360111	A	A	21360111	3	1	27	1	0	0	0	0	1	0	0	0	13430	1319	46	2	268	2	RNASE3	14	21360111	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	435226	21360111	85989429	5894	28245											
FLJ10357	55701	broad.mit.edu	37	chr14	21553928	21553928	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcggcggcggcgtgcacgAgaggcatacactctgcaggc	7	7	15	12	5	1	1	0	0	1	1	2	2	1	1	0	5	3	3	0	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:21553928A>G	uc001vzp.2	+	19	4070	c.4041A>G	c.(4039-4041)CGA>CGG	p.R1347R	FLJ10357_uc001vzo.1_Silent_p.R426R|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_Silent_p.R633R	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	1347	PH.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		GGCGTGCACGAGAGGCATACA	0.557													3	64					0	0	1	0	0		G	21553928	G	G	21553928	2	3	27	1	0	0	0	0	0	0	0	1	5940	291	11	3		3	FLJ10357	14	21553928	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	193817	21553928	85795612	5895	28246											
HNRNPC	3183	broad.mit.edu	37	chr14	21679995	21679995	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttgctctgttccttttcaAttttttccaggttttccagg	4	21	7	9	0	2	0	1	0	1	0	5	0	5	0	3	2	1	4	3	2	1	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:21679995A>T	uc001vzy.2	-	7	894	c.650T>A	c.(649-651)ATT>AAT	p.I217N	HNRNPC_uc001vzw.2_Missense_Mutation_p.I204N|HNRNPC_uc001wad.2_Missense_Mutation_p.I137N|HNRNPC_uc001vzx.2_Intron|HNRNPC_uc001vzz.2_Missense_Mutation_p.I204N|HNRNPC_uc001waa.2_Missense_Mutation_p.I217N|HNRNPC_uc010ail.2_Missense_Mutation_p.I217N|HNRNPC_uc010tlq.1_RNA|HNRNPC_uc001wab.2_Missense_Mutation_p.I204N|HNRNPC_uc001wac.2_Missense_Mutation_p.I161N|HNRNPC_uc010tlr.1_Missense_Mutation_p.I82N|HNRNPC_uc001waf.2_Missense_Mutation_p.I204N|HNRNPC_uc001wae.2_Missense_Mutation_p.I204N	NM_031314	NP_112604	P07910	HNRPC_HUMAN	heterogeneous nuclear ribonucleoprotein C	217	Asp/Glu-rich (acidic).			I -> M (in Ref. 1 and 2).		catalytic step 2 spliceosome|nucleoplasm	identical protein binding|nucleotide binding|RNA binding				0	all_cancers(95;0.00176)		Epithelial(56;1.08e-06)|all cancers(55;8.95e-06)	GBM - Glioblastoma multiforme(265;0.00783)		TTCCTTTTCAATTTTTTCCAG	0.393													11	150					0	0	1	0	0		T	21679995	T	T	21679995	3	4	27	1	0	0	0	0	1	0	0	0	7278	101	4	5	282	5	HNRNPC	14	21679995	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	126067	21679995	85669545	5896	28247											
CHD8	57680	broad.mit.edu	37	chr14	21860770	21860770	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcctcctctgccatggAagctgcactactacttcgtg	6	13	8	14	1	1	0	0	0	1	0	4	1	3	1	3	1	6	3	3	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:21860770A>G	uc001was.1	-	34	5924	c.5830T>C	c.(5830-5832)TCC>CCC	p.S1944P	CHD8_uc001war.1_Missense_Mutation_p.S1840P|SNORD9_uc001wat.1_5'Flank	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	2223					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		TCTGCCATGGAAGCTGCACTA	0.517													12	148					0	0	1	0	0		G	21860770	G	G	21860770	3	3	27	1	0	0	0	0	1	0	0	0	3334	246	9	3	1098	3	CHD8	14	21860770	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	180775	21860770	85488770	5897	28248											
METTL3	56339	broad.mit.edu	37	chr14	21971372	21971372	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagaaggctctctatctccaGatcaacatctgaggcagcat	12	9	8	12	0	4	3	1	1	3	2	6	3	4	3	1	2	2	3	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:21971372G>A	uc001wbc.2	-	3	759	c.667C>T	c.(667-669)CTG>TTG	p.L223L	METTL3_uc001wbb.2_Silent_p.L68L|METTL3_uc010tlw.1_RNA|METTL3_uc010tlx.1_Silent_p.L223L|METTL3_uc001wbd.1_Silent_p.L223L	NM_019852	NP_062826	Q86U44	MTA70_HUMAN	methyltransferase like 3	223					gene expression	nuclear speck	mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity|RNA binding			pancreas(1)|skin(1)	2	all_cancers(95;0.000628)		Epithelial(56;6.61e-06)	GBM - Glioblastoma multiforme(265;0.0146)		TCTATCTCCAGATCAACATCT	0.448													9	155					0	0	1	0	0		A	21971372	A	A	21971372	2	1	27	1	0	0	0	0	0	0	0	1	9519	933	33	4		4	METTL3	14	21971372	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	110602	21971372	85378168	5898	28249											
OXA1L	5018	broad.mit.edu	37	chr14	23239726	23239726	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatggccaaccttcctgtGcccagcctgcagacaggtgg	8	7	13	13	0	0	2	0	0	0	2	1	3	1	2	5	3	4	1	5	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:23239726G>A	uc001wgn.2	+	6	906	c.906G>A	c.(904-906)GTG>GTA	p.V302V	OXA1L_uc001wgo.2_RNA|OXA1L_uc010akc.2_Silent_p.V302V|OXA1L_uc001wgp.2_Silent_p.V226V|OXA1L_uc001wgq.2_Silent_p.V6V	NM_005015	NP_005006	Q15070	OXA1L_HUMAN	oxidase (cytochrome c) assembly 1-like	242	Mitochondrial matrix (Potential).				aerobic respiration|mitochondrial proton-transporting ATP synthase complex assembly|mitochondrial respiratory chain complex I assembly|negative regulation of ATPase activity|negative regulation of oxidoreductase activity|protein insertion into membrane|protein tetramerization	integral to mitochondrial membrane|mitochondrial respiratory chain|protein complex	protein homodimerization activity|ribosome binding			central_nervous_system(1)	1	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.0096)		ACCTTCCTGTGCCCAGCCTGC	0.502													11	105					0	0	1	0	0		A	23239726	A	A	23239726	2	1	27	1	0	0	0	0	0	0	0	1	11347	1306	46	2		2	OXA1L	14	23239726	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1268354	23239726	84109814	5899	28250											
PRMT5	10419	broad.mit.edu	37	chr14	23394198	23394198	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtattggaggtaggagcagaActccttctctgagtggtggt	8	12	15	6	0	1	2	0	1	1	1	3	4	2	4	1	5	2	3	1	5	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:23394198A>G	uc001whm.1	-	8	920	c.829T>C	c.(829-831)TTC>CTC	p.F277L	PRMT5_uc001whl.1_Missense_Mutation_p.F260L|PRMT5_uc010akd.1_RNA|PRMT5_uc010tnf.1_Missense_Mutation_p.F171L|PRMT5_uc010tng.1_Missense_Mutation_p.F216L|PRMT5_uc010tnh.1_Missense_Mutation_p.F233L|PRMT5_uc001whn.1_Missense_Mutation_p.F106L	NM_006109	NP_006100	O14744	ANM5_HUMAN	protein arginine methyltransferase 5 isoform a	277					cell proliferation|histone H4-R3 methylation|ncRNA metabolic process|regulation of mitosis|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	histone-arginine N-methyltransferase activity|protein binding|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding			ovary(1)	1	all_cancers(95;2.76e-05)			GBM - Glioblastoma multiforme(265;0.0126)		TAGGAGCAGAACTCCTTCTCT	0.488													4	210					0	0	1	0	0		G	23394198	G	G	23394198	3	3	27	1	0	0	0	0	1	0	0	0	12561	43	2	3	1124	3	PRMT5	14	23394198	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	154472	23394198	83955342	5900	28251											
C14orf93	60686	broad.mit.edu	37	chr14	23467914	23467914	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccccatcttcatcagggaTggacactttcccttgcctca	7	13	6	15	0	4	0	3	0	1	0	6	2	6	2	4	2	1	0	4	2	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:23467914T>C	uc001wib.1	-	2	629	c.319A>G	c.(319-321)ATC>GTC	p.I107V	C14orf93_uc001wic.1_5'UTR|C14orf93_uc001wid.1_Missense_Mutation_p.I107V|C14orf93_uc001wig.2_Missense_Mutation_p.I107V|C14orf93_uc001wih.2_Missense_Mutation_p.I107V|C14orf93_uc001wie.2_Missense_Mutation_p.I107V|C14orf93_uc001wia.3_Missense_Mutation_p.I107V|C14orf93_uc001wif.2_5'UTR	NM_021944	NP_068763	Q9H972	CN093_HUMAN	hypothetical protein LOC60686 precursor	107						extracellular region				ovary(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.0127)		TCATCAGGGATGGACACTTTC	0.567													5	72					0	0	1	0	0		C	23467914	C	C	23467914	3	2	27	1	0	0	0	0	1	0	0	0	1785	1464	51	3	1321	3	C14orf93	14	23467914	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	73716	23467914	83881626	5901	28252											
ACIN1	22985	broad.mit.edu	37	chr14	23530297	23530297	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaagagcactcacctggCtgtcagtcagtgggagccaa	12	6	13	10	0	3	2	3	0	0	2	3	4	3	3	2	2	2	2	2	2	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:23530297C>A	uc001wit.3	-	18	4023	c.3695G>T	c.(3694-3696)AGC>ATC	p.S1232I	ACIN1_uc001wio.3_RNA|ACIN1_uc001wip.3_Missense_Mutation_p.S474I|ACIN1_uc001wiq.3_Missense_Mutation_p.S474I|ACIN1_uc001wir.3_Missense_Mutation_p.S505I|ACIN1_uc001wis.3_Missense_Mutation_p.S913I|ACIN1_uc010akg.2_Missense_Mutation_p.S1219I	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	1232	Arg/Asp/Glu/Lys-rich.				apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		ACTCACCTGGCTGTCAGTCAG	0.577													8	35					0.000274275	0.000288501	1	1	0		A	23530297	A	A	23530297	3	1	27	1	0	0	0	0	1	0	0	0	142	797	28	5	338	5	ACIN1	14	23530297	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	62383	23530297	83819243	5902	28253											
HOMEZ	57594	broad.mit.edu	37	chr14	23745847	23745847	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctttaatttctggtgaCtctgtggcagtggtggcatc	6	15	11	9	0	2	1	0	1	2	0	4	1	3	1	1	4	0	2	1	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:23745847C>G	uc001wja.2	-	2	738	c.590G>C	c.(589-591)AGT>ACT	p.S197T	HOMEZ_uc001wjb.2_Missense_Mutation_p.S199T	NM_020834	NP_065885	Q8IX15	HOMEZ_HUMAN	homeodomain leucine zipper protein	197						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		TTTCTGGTGACTCTGTGGCAG	0.502													27	133					0	0	1	0	0		G	23745847	G	G	23745847	3	3	27	1	0	0	0	0	1	0	0	0	7297	565	20	5	1066	5	HOMEZ	14	23745847	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	215550	23745847	83603693	5903	28254											
HOMEZ	57594	broad.mit.edu	37	chr14	23746167	23746167	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatctgcaacccataacgTaggcagagaagggcaatgtc	13	7	10	11	1	1	1	0	0	1	1	3	2	2	1	2	2	3	4	2	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:23746167T>C	uc001wja.2	-	2	418	c.270A>G	c.(268-270)CTA>CTG	p.L90L	HOMEZ_uc001wjb.2_Silent_p.L92L	NM_020834	NP_065885	Q8IX15	HOMEZ_HUMAN	homeodomain leucine zipper protein	90	Homeobox 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		ACCCATAACGTAGGCAGAGAA	0.502													19	173					0	0	1	0	0		C	23746167	C	C	23746167	2	2	27	1	0	0	0	0	0	0	0	1	7297	1625	57	3		3	HOMEZ	14	23746167	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	320	23746167	83603373	5904	28255											
MYH6	4624	broad.mit.edu	37	chr14	23855309	23855309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaggtcgtcgttggcaCggaccgcatcgtccagctgg	5	9	13	14	5	1	0	1	0	0	0	5	1	2	1	3	4	1	4	3	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:23855309C>T	uc001wjv.2	-	34	5058	c.4991G>A	c.(4990-4992)CGT>CAT	p.R1664H		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1664	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GTCGTTGGCACGGACCGCATC	0.627													3	34					0	0	1	0	0		T	23855309	T	T	23855309	3	4	27	1	0	0	0	0	1	0	0	0	10056	536	19	1	852	1	MYH6	14	23855309	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	109142	23855309	83494231	5905	28256											
MYH6	4624	broad.mit.edu	37	chr14	23858074	23858074	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctggagctcacttggccTcttcgagctcctcagtccgc	5	12	9	15	2	4	0	2	0	2	0	7	2	6	1	3	2	2	2	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:23858074T>C	uc001wjv.2	-	29	4236	c.4169A>G	c.(4168-4170)GAG>GGG	p.E1390G	uc010tnn.1_5'Flank|MIR208A_hsa-mir-208a|MI0000251_5'Flank	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1390	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TCACTTGGCCTCTTCGAGCTC	0.612													6	79					0	0	1	0	0		C	23858074	C	C	23858074	3	2	27	1	0	0	0	0	1	0	0	0	10056	1551	54	3	1694	3	MYH6	14	23858074	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2765	23858074	83491466	5906	28257											
MYH6	4624	broad.mit.edu	37	chr14	23868101	23868101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtggatcagggagaagtggGcttcctgcttccccttgatg	7	11	14	9	0	1	2	1	1	0	1	3	4	3	3	3	3	1	2	3	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:23868101G>A	uc001wjv.2	-	15	1794	c.1727C>T	c.(1726-1728)GCC>GTC	p.A576V		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	576	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GGAGAAGTGGGCTTCCTGCTT	0.542													22	62					0	0	1	0	0		A	23868101	A	A	23868101	3	1	27	1	0	0	0	0	1	0	0	0	10056	1203	42	2	4192	2	MYH6	14	23868101	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10027	23868101	83481439	5907	28258											
MYH7	4625	broad.mit.edu	37	chr14	23884255	23884255	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcctcatgcccttcacCgactctgcgttgcgcttctg	3	14	7	17	3	5	0	2	0	3	0	6	1	6	0	3	0	3	2	3	0	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:23884255C>T	uc001wjx.2	-	37	5614	c.5508G>A	c.(5506-5508)TCG>TCA	p.S1836S		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1836	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TGCCCTTCACCGACTCTGCGT	0.647													7	168					0	0	1	0	0		T	23884255	T	T	23884255	2	4	27	1	0	0	0	0	0	0	0	1	10057	639	23	1		1	MYH7	14	23884255	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16154	23884255	83465285	5908	28259											
PCK2	5106	broad.mit.edu	37	chr14	24569212	24569212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctaacaggtcgactcCgggccatcaaccctgagaac	10	8	8	15	2	2	1	1	1	1	1	5	3	3	1	4	2	3	0	4	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:24569212C>T	uc001wlt.2	+	7	1156	c.1024C>T	c.(1024-1026)CGG>TGG	p.R342W	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Missense_Mutation_p.R354W|PCK2_uc001wls.2_Missense_Mutation_p.R342W|PCK2_uc010tnw.1_Missense_Mutation_p.R208W|PCK2_uc010ald.2_Missense_Mutation_p.P285L|PCK2_uc010ale.2_3'UTR|PCK2_uc010tnx.1_Missense_Mutation_p.R208W|PCK2_uc001wlu.3_Missense_Mutation_p.R208W	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	342					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		AGGTCGACTCCGGGCCATCAA	0.517													13	187					0	0	1	0	0		T	24569212	T	T	24569212	3	4	27	1	0	0	0	0	1	0	0	0	11601	643	23	1	1050	1	PCK2	14	24569212	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	684957	24569212	82780328	5909	28260											
FITM1	161247	broad.mit.edu	37	chr14	24600921	24600921	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcccgccttctgggcagccCctgcttacggcgcctctacc	3	8	10	20	4	2	0	0	0	2	0	2	0	2	0	6	2	4	2	6	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:24600921C>A	uc001wmf.2	+	1	247	c.149C>A	c.(148-150)CCC>CAC	p.P50H		NM_203402	NP_981947	A5D6W6	FITM1_HUMAN	fat-inducing transcript 1	50	Extracellular (Potential).				lipid particle organization|positive regulation of sequestering of triglyceride	endoplasmic reticulum membrane|integral to membrane					0						CTGGGCAGCCCCTGCTTACGG	0.627													5	64					1.23904e-05	1.32877e-05	1	1	0		A	24600921	A	A	24600921	3	1	27	1	0	0	0	0	1	0	0	0	5912	623	22	5	151	5	FITM1	14	24600921	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31709	24600921	82748619	5910	28261											
IRF9	10379	broad.mit.edu	37	chr14	24632717	24632717	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggactccctcaataaTgtaagagatggagagggaac	14	7	11	9	0	1	2	1	0	0	2	3	6	3	4	2	3	1	1	2	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:24632717T>C	uc001wmq.2	+	4	622	c.495T>C	c.(493-495)AAT>AAC	p.N165N	RNF31_uc001wmp.2_RNA|IRF9_uc010alj.2_Silent_p.N63N	NM_006084	NP_006075	Q00978	IRF9_HUMAN	interferon-stimulated transcription factor 3,	165					interferon-gamma-mediated signaling pathway|response to virus|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|nucleoplasm	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00853)		CCCTCAATAATGTAAGAGATG	0.502													8	72					0	0	1	0	0		C	24632717	C	C	24632717	2	2	27	1	0	0	0	0	0	0	0	1	7853	1478	51	3		3	IRF9	14	24632717	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31796	24632717	82716823	5911	28262											
TM9SF1	10548	broad.mit.edu	37	chr14	24661917	24661917	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acagagcagaccacggtatgGggggaagcggaagacatctg	13	4	16	8	2	1	3	0	0	1	3	1	5	1	5	1	5	2	2	1	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:24661917G>T	uc001wnb.1	-	3	1252	c.904C>A	c.(904-906)CCA>ACA	p.P302T	IPO4_uc001wmx.1_5'Flank|IPO4_uc001wmy.1_5'Flank|IPO4_uc010tnz.1_5'Flank|IPO4_uc001wmw.1_5'Flank|IPO4_uc001wmz.1_5'Flank|TM9SF1_uc010toa.1_Missense_Mutation_p.P215T|TM9SF1_uc001wna.1_RNA|TM9SF1_uc010tob.1_Missense_Mutation_p.P537T|TM9SF1_uc001wnc.2_Missense_Mutation_p.P302T|TM9SF1_uc001wnd.2_Missense_Mutation_p.P158T	NM_006405	NP_006396	O15321	TM9S1_HUMAN	transmembrane 9 superfamily member 1 isoform a	302					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0183)		CCACGGTATGGGGGGAAGCGG	0.512													6	149					3.59834e-05	3.83694e-05	1	1	0		T	24661917	T	T	24661917	3	4	27	1	0	0	0	0	1	0	0	0	16002	1232	43	5	975	5	TM9SF1	14	24661917	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	29200	24661917	82687623	5912	28263											
TSSK4	283629	broad.mit.edu	37	chr14	24676590	24676590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacacctggagcatgggcGtcatcctttacactctagtg	8	11	10	12	1	2	1	1	1	1	0	3	2	3	2	2	2	2	1	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:24676590G>A	uc001wng.2	+	3	847	c.679G>A	c.(679-681)GTC>ATC	p.V227I	TM9SF1_uc010tob.1_Intron|TSSK4_uc001wne.2_Missense_Mutation_p.V151I|TSSK4_uc001wnf.2_Missense_Mutation_p.V157I|TSSK4_uc001wnh.2_Missense_Mutation_p.V237I	NM_174944	NP_777604	Q6SA08	TSSK4_HUMAN	testis-specific serine kinase 4	227	Protein kinase.				cell differentiation|multicellular organismal development|positive regulation of CREB transcription factor activity|spermatogenesis		ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity				0				GBM - Glioblastoma multiforme(265;0.018)		GAGCATGGGCGTCATCCTTTA	0.517													5	127					0	0	1	0	0		A	24676590	A	A	24676590	3	1	27	1	0	0	0	0	1	0	0	0	16697	1145	40	1	719	1	TSSK4	14	24676590	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	14673	24676590	82672950	5913	28264											
GMPR2	51292	broad.mit.edu	37	chr14	24705334	24705334	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacggaagcgcttcccccaGcacaccatcatggtatgttt	9	10	9	13	2	1	0	1	0	0	0	2	1	2	1	3	2	3	5	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:24705334G>A	uc001wnr.2	+	5	835	c.453G>A	c.(451-453)CAG>CAA	p.Q151Q	GMPR2_uc001wnv.2_5'UTR|GMPR2_uc001wns.2_Silent_p.Q151Q|GMPR2_uc001wnt.2_Intron|GMPR2_uc001wnu.2_Silent_p.Q115Q|GMPR2_uc001wnw.2_Silent_p.Q151Q|GMPR2_uc010all.2_Silent_p.Q123Q|GMPR2_uc001wnx.2_Silent_p.Q169Q|GMPR2_uc010tod.1_Intron|GMPR2_uc010alk.1_Silent_p.Q151Q|GMPR2_uc010toe.1_Silent_p.Q151Q	NM_001002001	NP_001002001	Q9P2T1	GMPR2_HUMAN	guanosine monophosphate reductase 2 isoform 2	151					nucleotide metabolic process|purine base metabolic process|purine-containing compound salvage	cytosol	GMP reductase activity|metal ion binding			ovary(3)	3				GBM - Glioblastoma multiforme(265;0.0181)		GCTTCCCCCAGCACACCATCA	0.443													12	105					0	0	1	0	0		A	24705334	A	A	24705334	2	1	27	1	0	0	0	0	0	0	0	1	6512	962	34	2		2	GMPR2	14	24705334	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	28744	24705334	82644206	5914	28265											
TINF2	26277	broad.mit.edu	37	chr14	24710024	24710024	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtgctagtctttgttgcTgaggaggattctgttccatg	6	15	14	6	0	2	1	0	1	2	0	3	4	3	4	1	3	2	4	1	3	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:24710024T>C	uc001woa.3	-	6	1004	c.662A>G	c.(661-663)CAG>CGG	p.Q221R	TINF2_uc010alm.2_Missense_Mutation_p.Q45R|TINF2_uc001wob.3_Missense_Mutation_p.Q221R|TINF2_uc010tof.1_Missense_Mutation_p.Q186R|TINF2_uc001woc.3_3'UTR	NM_001099274	NP_001092744	Q9BSI4	TINF2_HUMAN	TERF1 (TRF1)-interacting nuclear factor 2	221					negative regulation of epithelial cell proliferation|negative regulation of protein ADP-ribosylation|negative regulation of telomere maintenance via telomerase|positive regulation of telomere maintenance|protein localization to chromosome, telomeric region|telomere assembly|telomere maintenance via telomere lengthening	nuclear telomere cap complex|nucleoplasm|perinucleolar chromocenter	protein binding|protein binding|telomeric DNA binding				0				GBM - Glioblastoma multiforme(265;0.0185)		TCTTTGTTGCTGAGGAGGATT	0.493									Ataxia_Pancytopenia_syndrome|Congenital_Dyskeratosis				3	77					0	0	1	0	0		C	24710024	C	C	24710024	3	2	27	1	0	0	0	0	1	0	0	0	15948	1580	55	3	713	3	TINF2	14	24710024	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4690	24710024	82639516	5915	28266											
RIPK3	11035	broad.mit.edu	37	chr14	24808444	24808444	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgggatcttggtcccagTtcaccttctcgataacccct	6	13	8	14	1	3	0	1	0	2	0	5	2	4	1	4	2	1	2	4	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:24808444T>A	uc001wpb.2	-	3	458	c.248A>T	c.(247-249)AAC>ATC	p.N83I	RIPK3_uc001wpa.2_5'Flank|RIPK3_uc010alq.2_RNA|RIPK3_uc010toi.1_5'UTR|RIPK3_uc010toj.1_Missense_Mutation_p.N83I	NM_006871	NP_006862	Q9Y572	RIPK3_HUMAN	receptor-interacting serine-threonine kinase 3	83	Protein kinase.				apoptosis|induction of apoptosis by extracellular signals	cytoplasm	ATP binding|protein binding|transcription coactivator activity			central_nervous_system(2)|ovary(1)|lung(1)	4				GBM - Glioblastoma multiforme(265;0.0181)		TTGGTCCCAGTTCACCTTCTC	0.587													6	98					0	0	1	0	0		A	24808444	A	A	24808444	3	1	27	1	0	0	0	0	1	0	0	0	13407	1725	60	5	1340	5	RIPK3	14	24808444	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	98420	24808444	82541096	5916	28267											
NFATC4	4776	broad.mit.edu	37	chr14	24839280	24839280	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctcccctcggccatggAcccccgaagatccctggagc	6	5	12	18	2	0	1	0	0	0	1	3	4	2	3	7	4	1	0	7	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:24839280A>T	uc001wpc.2	+	2	997	c.676A>T	c.(676-678)ACC>TCC	p.T226S	NFATC4_uc010tok.1_Missense_Mutation_p.T289S|NFATC4_uc010tol.1_Missense_Mutation_p.T289S|NFATC4_uc010alr.2_Missense_Mutation_p.T289S|NFATC4_uc010als.2_Missense_Mutation_p.T239S|NFATC4_uc010tom.1_Missense_Mutation_p.T239S|NFATC4_uc010ton.1_Missense_Mutation_p.T239S|NFATC4_uc010too.1_Missense_Mutation_p.T239S|NFATC4_uc010alt.2_Missense_Mutation_p.T258S|NFATC4_uc010top.1_Missense_Mutation_p.T258S|NFATC4_uc010toq.1_Missense_Mutation_p.T258S|NFATC4_uc010alu.2_Intron|NFATC4_uc010tor.1_Missense_Mutation_p.T226S|NFATC4_uc010tos.1_Missense_Mutation_p.T156S|NFATC4_uc010tot.1_Missense_Mutation_p.T214S|NFATC4_uc010tou.1_Missense_Mutation_p.T156S|NFATC4_uc010tov.1_Missense_Mutation_p.T214S|NFATC4_uc010tow.1_Missense_Mutation_p.T156S|NFATC4_uc010alv.2_Missense_Mutation_p.T214S|NFATC4_uc010tox.1_Missense_Mutation_p.T156S|NFATC4_uc001wpd.2_5'Flank|NFATC4_uc010toy.1_5'Flank|NFATC4_uc010toz.1_5'Flank	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	226	SP 1.|Pro-rich.|2 approximate SP repeats.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		TCGGCCATGGACCCCCGAAGA	0.697													7	20					0	0	1	0	0		T	24839280	T	T	24839280	3	4	27	1	0	0	0	0	1	0	0	0	10384	275	10	5	875	5	NFATC4	14	24839280	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	30836	24839280	82510260	5917	28268											
CTSG	1511	broad.mit.edu	37	chr14	25043002	25043002	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acattgttacacagcaggggGcctccggaatccccctgtag	9	8	11	13	1	0	0	0	0	0	0	2	1	2	1	4	3	2	3	4	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:25043002G>A	uc001wpq.2	-	5	646	c.609C>T	c.(607-609)GGC>GGT	p.G203G		NM_001911	NP_001902	P08311	CATG_HUMAN	cathepsin G preproprotein	203	Peptidase S1.				immune response|proteolysis	cell surface|extracellular space|plasma membrane|stored secretory granule	heparin binding|serine-type endopeptidase activity			ovary(2)	2				GBM - Glioblastoma multiforme(265;0.0269)		ACAGCAGGGGGCCTCCGGAAT	0.602													4	117					0	0	1	0	0		A	25043002	A	A	25043002	2	1	27	1	0	0	0	0	0	0	0	1	4038	1190	42	2		2	CTSG	14	25043002	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	203722	25043002	82306538	5918	28269											
CTSG	1511	broad.mit.edu	37	chr14	25043577	25043577	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacctctcggagtgtatcTgttcccctcctcatgctgac	5	13	8	15	1	3	1	1	1	2	0	6	2	5	2	4	1	2	4	4	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:25043577T>C	uc001wpq.2	-	4	505	c.468A>G	c.(466-468)ACA>ACG	p.T156T		NM_001911	NP_001902	P08311	CATG_HUMAN	cathepsin G preproprotein	156	Peptidase S1.				immune response|proteolysis	cell surface|extracellular space|plasma membrane|stored secretory granule	heparin binding|serine-type endopeptidase activity			ovary(2)	2				GBM - Glioblastoma multiforme(265;0.0269)		GGAGTGTATCTGTTCCCCTCC	0.632													7	69					0	0	1	0	0		C	25043577	C	C	25043577	2	2	27	1	0	0	0	0	0	0	0	1	4038	1567	55	3		3	CTSG	14	25043577	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	575	25043577	82305963	5919	28270											
CTSG	1511	broad.mit.edu	37	chr14	25044505	25044505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctgctgtcagcacaaagtCttctcgcaccaggaaccctc	10	8	8	15	1	3	0	1	0	2	0	5	1	3	1	2	1	4	4	2	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:25044505C>T	uc001wpq.2	-	2	206	c.169G>A	c.(169-171)GAC>AAC	p.D57N		NM_001911	NP_001902	P08311	CATG_HUMAN	cathepsin G preproprotein	57	Peptidase S1.				immune response|proteolysis	cell surface|extracellular space|plasma membrane|stored secretory granule	heparin binding|serine-type endopeptidase activity			ovary(2)	2				GBM - Glioblastoma multiforme(265;0.0269)		AGCACAAAGTCTTCTCGCACC	0.602													5	77					0	0	1	0	0		T	25044505	T	T	25044505	3	4	27	1	0	0	0	0	1	0	0	0	4038	913	32	4	614	4	CTSG	14	25044505	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	928	25044505	82305035	5920	28271											
NOVA1	4857	broad.mit.edu	37	chr14	26918159	26918159	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctgtgctgttgggaactAtaatctttacctgtaattaa	10	16	8	7	0	1	0	0	0	1	0	1	1	1	1	1	1	4	4	1	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:26918159A>G	uc001wpy.2	-	5	848	c.530T>C	c.(529-531)ATA>ACA	p.I177T	NOVA1_uc001wpz.2_Missense_Mutation_p.I153T|NOVA1_uc001wqa.2_Missense_Mutation_p.I55T	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	180	KH 2.				locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		GTTGGGAACTATAATCTTTAC	0.363													8	140					0	0	1	0	0		G	26918159	G	G	26918159	3	3	27	1	0	0	0	0	1	0	0	0	10573	449	16	3	997	3	NOVA1	14	26918159	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1873654	26918159	80431381	5921	28272											
PRKD1	5587	broad.mit.edu	37	chr14	30068262	30068262	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggatcagctgaggctagcaAcacattttctggtttgaggt	10	12	12	7	0	2	2	1	2	1	0	2	3	2	3	0	4	3	4	0	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:30068262A>G	uc001wqh.2	-	15	2318	c.2137T>C	c.(2137-2139)TTG>CTG	p.L713L		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	713	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		GAGGCTAGCAACACATTTTCT	0.418													5	120					0	0	1	0	0		G	30068262	G	G	30068262	2	3	27	1	0	0	0	0	0	0	0	1	12540	40	2	3		3	PRKD1	14	30068262	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3150103	30068262	77281278	5922	28273											
G2E3	55632	broad.mit.edu	37	chr14	31050312	31050312	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtaaacctggtgactcAcagaaccttggtaagtaact	15	9	9	8	0	1	2	1	1	0	1	1	3	1	2	2	2	3	3	2	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:31050312A>G	uc001wqk.2	+	2	181	c.27A>G	c.(25-27)TCA>TCG	p.S9S	G2E3_uc010tpe.1_Intron|G2E3_uc010tpf.1_Intron	NM_017769	NP_060239	Q7L622	G2E3_HUMAN	G2/M-phase specific E3 ubiquitin ligase	9					apoptosis|multicellular organismal development|protein modification process	Golgi apparatus|nucleolus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						CTGGTGACTCACAGAACCTTG	0.274													10	75					0	0	1	0	0		G	31050312	G	G	31050312	2	3	27	1	0	0	0	0	0	0	0	1	6154	146	6	3		3	G2E3	14	31050312	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	982050	31050312	76299228	5923	28274											
G2E3	55632	broad.mit.edu	37	chr14	31071242	31071242	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaaacatgtattacccaaTtctaataatgtggggattac	17	12	6	6	0	1	0	0	0	1	0	1	1	1	1	1	2	3	1	1	2	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:31071242T>A	uc001wqk.2	+	10	1069	c.915T>A	c.(913-915)AAT>AAA	p.N305K	G2E3_uc010tpe.1_Missense_Mutation_p.N220K|G2E3_uc010tpf.1_Missense_Mutation_p.N259K	NM_017769	NP_060239	Q7L622	G2E3_HUMAN	G2/M-phase specific E3 ubiquitin ligase	305					apoptosis|multicellular organismal development|protein modification process	Golgi apparatus|nucleolus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						TATTACCCAATTCTAATAATG	0.338													4	71					0	0	1	0	0		A	31071242	A	A	31071242	3	1	27	1	0	0	0	0	1	0	0	0	6154	1490	52	5	949	5	G2E3	14	31071242	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20930	31071242	76278298	5924	28275											
SCFD1	23256	broad.mit.edu	37	chr14	31191743	31191743	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaactacattgaatatcAgaatcttgttgactacataa	16	12	6	7	0	2	3	1	2	1	1	2	3	2	3	0	1	3	2	0	1	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:31191743A>G	uc001wqm.1	+	23	1838	c.1814A>G	c.(1813-1815)CAG>CGG	p.Q605R	SCFD1_uc001wqn.1_Missense_Mutation_p.Q538R|SCFD1_uc010tpg.1_Missense_Mutation_p.Q546R|SCFD1_uc010tph.1_Missense_Mutation_p.Q420R|SCFD1_uc010amf.1_Missense_Mutation_p.Q420R|SCFD1_uc010tpi.1_Missense_Mutation_p.Q513R|SCFD1_uc010ame.1_Missense_Mutation_p.R527G	NM_016106	NP_057190	Q8WVM8	SCFD1_HUMAN	vesicle transport-related protein isoform a	605					post-Golgi vesicle-mediated transport|protein transport|regulation of ER to Golgi vesicle-mediated transport|response to toxin|retrograde vesicle-mediated transport, Golgi to ER|vesicle docking involved in exocytosis	cis-Golgi network|endoplasmic reticulum membrane|Golgi cisterna membrane|Golgi-associated vesicle|plasma membrane	syntaxin-5 binding				0	Hepatocellular(127;0.0877)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)	GBM - Glioblastoma multiforme(265;0.0181)		ATTGAATATCAGAATCTTGTT	0.338													9	84					0	0	1	0	0		G	31191743	G	G	31191743	3	3	27	1	0	0	0	0	1	0	0	0	13914	188	7	3	1904	3	SCFD1	14	31191743	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	120501	31191743	76157797	5925	28276											
HEATR5A	25938	broad.mit.edu	37	chr14	31856444	31856444	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaatgaaacacaacggcgAcagcagacggcatcgatctg	16	5	10	10	4	1	2	0	1	1	1	2	4	1	2	0	2	3	2	0	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:31856444A>T	uc001wrf.3	-	2	269	c.192T>A	c.(190-192)TGT>TGA	p.C64*	HEATR5A_uc010ami.2_5'UTR|HEATR5A_uc001wrg.1_5'UTR|HEATR5A_uc010tpk.1_Nonsense_Mutation_p.C357*	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	351							binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		CACAACGGCGACAGCAGACGG	0.463													29	99					0	0	1	0	0		T	31856444	T	T	31856444	4	4	27	1	0	0	0	0	0	1	0	0	7047	273	10	5	5185	5	HEATR5A	14	31856444	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	664701	31856444	75493096	5926	28277											
ARHGAP5	394	broad.mit.edu	37	chr14	32561822	32561822	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tactttttgagtcagttatgGactgccgcctttaaaccaca	10	14	7	10	1	1	1	1	1	0	0	1	2	1	2	3	1	3	1	3	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:32561822G>A	uc001wrl.2	+	2	2186	c.1947G>A	c.(1945-1947)TGG>TGA	p.W649*	ARHGAP5_uc001wrm.2_Nonsense_Mutation_p.W649*|ARHGAP5_uc001wrn.2_Nonsense_Mutation_p.W649*|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	649					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		GTCAGTTATGGACTGCCGCCT	0.388													8	135					0	0	1	0	0		A	32561822	A	A	32561822	4	1	27	1	0	0	0	0	0	1	0	0	886	1183	41	4	1949	4	ARHGAP5	14	32561822	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	705378	32561822	74787718	5927	28278											
ARHGAP5	394	broad.mit.edu	37	chr14	32562224	32562224	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacttgagaattgtcatgtgCgccatgtgtggagatccatt	9	13	12	7	1	1	2	1	1	0	2	2	5	2	2	2	1	1	0	2	1	1	3	rs61737878	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:32562224C>T	uc001wrl.2	+	2	2588	c.2349C>T	c.(2347-2349)TGC>TGT	p.C783C	ARHGAP5_uc001wrm.2_Silent_p.C783C|ARHGAP5_uc001wrn.2_Silent_p.C783C|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	783					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		TTGTCATGTGCGCCATGTGTG	0.423													27	75					0	0	1	0	0		T	32562224	T	T	32562224	2	4	27	1	0	0	0	0	0	0	0	1	886	776	27	1		1	ARHGAP5	14	32562224	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	402	32562224	74787316	5928	28279											
ARHGAP5	394	broad.mit.edu	37	chr14	32562668	32562668	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcggcaaactgaggtcttTactctgttttttagtgatgt	8	17	9	7	1	2	2	0	2	2	0	3	2	2	2	0	2	2	2	0	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:32562668T>C	uc001wrl.2	+	2	3032	c.2793T>C	c.(2791-2793)TTT>TTC	p.F931F	ARHGAP5_uc001wrm.2_Silent_p.F931F|ARHGAP5_uc001wrn.2_Silent_p.F931F|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	931					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		CTGAGGTCTTTACTCTGTTTT	0.328													5	67					0	0	1	0	0		C	32562668	C	C	32562668	2	2	27	1	0	0	0	0	0	0	0	1	886	1751	61	3		3	ARHGAP5	14	32562668	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	444	32562668	74786872	5929	28280											
AKAP6	9472	broad.mit.edu	37	chr14	33290606	33290606	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttttctttctctcacacAggagactttgaatgtgattg	8	18	7	8	0	4	3	1	2	3	1	5	4	4	3	0	1	0	0	0	1	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:33290606A>G	uc001wrq.2	+	13	3759	c.3589_splice	c.e13-2	p.E1197_splice		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6						protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TCTCTCACACAGGAGACTTTG	0.383													9	67					0	0	1	0	0		G	33290606	G	G	33290606	5	3	27	1	0	0	0	0	0	0	1	0	455	202	7	3	3633	3	AKAP6	14	33290606	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	727938	33290606	74058934	5930	28281											
BAZ1A	11177	broad.mit.edu	37	chr14	35264961	35264961	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcgcttttcttcacgtaacTtctctctttcctagaaattt	7	20	3	11	2	4	1	1	0	3	1	7	1	5	1	1	0	1	2	1	0	3	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:35264961T>C	uc001wsk.2	-	10	1707	c.1139A>G	c.(1138-1140)AAG>AGG	p.K380R	BAZ1A_uc001wsl.2_Missense_Mutation_p.K380R	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	380	Potential.				chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		TTCACGTAACTTCTCTCTTTC	0.229													4	57					0	0	1	0	0		C	35264961	C	C	35264961	3	2	27	1	0	0	0	0	1	0	0	0	1330	1609	56	3	3603	3	BAZ1A	14	35264961	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1974355	35264961	72084579	5931	28282											
SRP54	6729	broad.mit.edu	37	chr14	35487907	35487907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtatttcaggtcagtttaCgttgcgagacatgtatgagc	9	15	11	6	2	2	2	2	1	0	1	2	3	2	2	0	1	3	4	0	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:35487907C>T	uc001wso.2	+	12	1334	c.983C>T	c.(982-984)ACG>ATG	p.T328M	SRP54_uc010tpp.1_Missense_Mutation_p.T279M|SRP54_uc010tpq.1_Missense_Mutation_p.T264M	NM_003136	NP_003127	P61011	SRP54_HUMAN	signal recognition particle 54kDa isoform 1	328	M-domain.				GTP catabolic process|response to drug|SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition|SRP-dependent cotranslational protein targeting to membrane, translocation	cytosol|nuclear speck|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|drug binding|endoplasmic reticulum signal peptide binding|GDP binding|GTP binding|nucleoside-triphosphatase activity|ribonucleoprotein binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;2.48e-05)|Lung(238;3.13e-05)|Epithelial(34;0.0314)|all cancers(34;0.0797)|BRCA - Breast invasive adenocarcinoma(188;0.243)	GBM - Glioblastoma multiforme(112;0.0396)		GGTCAGTTTACGTTGCGAGAC	0.299													4	52					0	0	1	0	0		T	35487907	T	T	35487907	3	4	27	1	0	0	0	0	1	0	0	0	15180	536	19	1	1025	1	SRP54	14	35487907	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	222946	35487907	71861633	5932	28283											
PSMA6	5687	broad.mit.edu	37	chr14	35780027	35780027	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctatgagattcctgtggAcatgctgtgtaaaagaattg	11	13	12	5	0	0	2	0	1	0	2	1	4	1	3	1	2	1	3	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:35780027A>G	uc001wtd.2	+	4	444	c.335A>G	c.(334-336)GAC>GGC	p.D112G	KIAA0391_uc001wta.2_RNA|PSMA6_uc010tpt.1_Missense_Mutation_p.D33G|PSMA6_uc010tpu.1_Missense_Mutation_p.D33G	NM_002791	NP_002782	P60900	PSA6_HUMAN	proteasome alpha 6 subunit	112					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nuclear matrix|polysome|proteasome core complex, alpha-subunit complex|sarcomere	NF-kappaB binding|purine ribonucleoside triphosphate binding|RNA binding|threonine-type endopeptidase activity				0	Breast(36;0.0519)|Hepatocellular(127;0.158)		Lung(238;3.81e-05)|LUAD - Lung adenocarcinoma(48;5.59e-05)|Epithelial(34;0.00342)|all cancers(34;0.00973)	GBM - Glioblastoma multiforme(112;0.0234)		ATTCCTGTGGACATGCTGTGT	0.433													4	65					0	0	1	0	0		G	35780027	G	G	35780027	3	3	27	1	0	0	0	0	1	0	0	0	12693	275	10	3	349	3	PSMA6	14	35780027	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	292120	35780027	71569513	5933	28284											
PSMA6	5687	broad.mit.edu	37	chr14	35780041	35780041	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtggacatgctgtgtaaaAgaattgccgatatttctcag	11	13	10	7	1	1	1	1	0	1	1	2	3	1	2	1	1	2	2	1	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:35780041A>G	uc001wtd.2	+	4	458	c.349A>G	c.(349-351)AGA>GGA	p.R117G	KIAA0391_uc001wta.2_RNA|PSMA6_uc010tpt.1_Missense_Mutation_p.R38G|PSMA6_uc010tpu.1_Missense_Mutation_p.R38G	NM_002791	NP_002782	P60900	PSA6_HUMAN	proteasome alpha 6 subunit	117					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nuclear matrix|polysome|proteasome core complex, alpha-subunit complex|sarcomere	NF-kappaB binding|purine ribonucleoside triphosphate binding|RNA binding|threonine-type endopeptidase activity				0	Breast(36;0.0519)|Hepatocellular(127;0.158)		Lung(238;3.81e-05)|LUAD - Lung adenocarcinoma(48;5.59e-05)|Epithelial(34;0.00342)|all cancers(34;0.00973)	GBM - Glioblastoma multiforme(112;0.0234)		GCTGTGTAAAAGAATTGCCGA	0.433													4	69					0	0	1	0	0		G	35780041	G	G	35780041	3	3	27	1	0	0	0	0	1	0	0	0	12693	64	3	3	363	3	PSMA6	14	35780041	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14	35780041	71569499	5934	28285											
INSM2	84684	broad.mit.edu	37	chr14	36004685	36004685	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acggagggggtgttggggcgCcgggtacctgtgccgggcag	4	6	22	9	4	0	0	0	0	0	0	0	1	0	1	3	7	2	3	3	7	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:36004685C>T	uc001wth.1	+	1	1438	c.1227C>T	c.(1225-1227)CGC>CGT	p.R409R		NM_032594	NP_115983	Q96T92	INSM2_HUMAN	insulinoma-associated protein IA-6	409					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)|skin(1)	2	Breast(36;0.122)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(9;2.16e-07)|Lung(238;2.63e-07)|Epithelial(34;0.00145)|all cancers(34;0.00452)	GBM - Glioblastoma multiforme(112;0.0223)		TGTTGGGGCGCCGGGTACCTG	0.647													4	52					0	0	1	0	0		T	36004685	T	T	36004685	2	4	27	1	0	0	0	0	0	0	0	1	7788	726	26	2		2	INSM2	14	36004685	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	224644	36004685	71344855	5935	28286											
RALGAPA1	253959	broad.mit.edu	37	chr14	36143454	36143454	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagaaggggaggtcaggtTatcagttgaaatgccaaggt	12	9	16	4	0	2	2	2	1	0	1	2	4	2	3	1	6	1	2	1	6	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:36143454T>C	uc001wti.2	-	23	3722	c.3331A>G	c.(3331-3333)AAC>GAC	p.N1111D	RALGAPA1_uc010amp.2_5'Flank|RALGAPA1_uc001wtj.2_Missense_Mutation_p.N1111D|RALGAPA1_uc010tpv.1_Missense_Mutation_p.N1124D|RALGAPA1_uc010tpw.1_Missense_Mutation_p.N1158D	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1111					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						GAGGTCAGGTTATCAGTTGAA	0.318													5	26					0	0	1	0	0		C	36143454	C	C	36143454	3	2	27	1	0	0	0	0	1	0	0	0	13038	1754	61	3	3004	3	RALGAPA1	14	36143454	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	138769	36143454	71206086	5936	28287											
RALGAPA1	253959	broad.mit.edu	37	chr14	36221254	36221254	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tataggatgatataaactgtTttccttacagatgtttggaa	13	16	8	4	0	0	2	0	1	0	1	1	4	1	4	1	2	2	2	1	2	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:36221254T>C	uc001wti.2	-	8	1169	c.778A>G	c.(778-780)AAC>GAC	p.N260D	RALGAPA1_uc001wtj.2_Missense_Mutation_p.N260D|RALGAPA1_uc010tpv.1_Missense_Mutation_p.N260D|RALGAPA1_uc010tpw.1_Missense_Mutation_p.N260D|RALGAPA1_uc001wtk.1_Missense_Mutation_p.N111D	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	260					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						TATAAACTGTTTTCCTTACAG	0.284													7	41					0	0	1	0	0		C	36221254	C	C	36221254	3	2	27	1	0	0	0	0	1	0	0	0	13038	1841	64	3	5617	3	RALGAPA1	14	36221254	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	77800	36221254	71128286	5937	28288											
MBIP	51562	broad.mit.edu	37	chr14	36784000	36784000	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgcttttcttcctcttgtAggtcgccaatggaaaatttg	7	17	9	8	1	2	0	0	0	2	0	4	1	3	1	2	2	1	2	2	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:36784000A>G	uc001wtm.2	-	3	459	c.371T>C	c.(370-372)CTA>CCA	p.L124P	MBIP_uc001wto.2_Missense_Mutation_p.L124P|MBIP_uc010tpy.1_Missense_Mutation_p.Y9H|MBIP_uc001wtn.2_Missense_Mutation_p.L124P	NM_016586	NP_057670	Q9NS73	MBIP1_HUMAN	MAP3K12 binding inhibitory protein 1 isoform 1	124					histone H3 acetylation|inactivation of MAPK activity involved in osmosensory signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm|nucleolus	identical protein binding|protein kinase inhibitor activity				0	all_cancers(3;1.55e-52)|all_epithelial(1;2.69e-62)|Breast(36;0.0505)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)		Lung(8;1.28e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.0303)|all cancers(34;0.0781)	GBM - Glioblastoma multiforme(112;0.0191)		TTCCTCTTGTAGGTCGCCAAT	0.368													10	96					0	0	1	0	0		G	36784000	G	G	36784000	3	3	27	1	0	0	0	0	1	0	0	0	9367	420	15	3	691	3	MBIP	14	36784000	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	562746	36784000	70565540	5938	28289											
PAX9	5083	broad.mit.edu	37	chr14	37132275	37132275	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcaagatcctggcgcgaTacaacgagacgggctcgatc	11	6	12	12	5	1	2	1	0	0	2	4	5	2	2	1	2	3	2	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:37132275T>C	uc001wty.3	+	3	895	c.178T>C	c.(178-180)TAC>CAC	p.Y60H	PAX9_uc010amq.2_5'Flank	NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	60	Paired.				multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		CCTGGCGCGATACAACGAGAC	0.637													4	40					0	0	1	0	0		C	37132275	C	C	37132275	3	2	27	1	0	0	0	0	1	0	0	0	11505	1406	49	3	184	3	PAX9	14	37132275	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	348275	37132275	70217265	5939	28290											
PAX9	5083	broad.mit.edu	37	chr14	37132666	37132666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggttcggtggccatgccgcGcacctggccctcctcgcact	3	8	12	18	5	0	0	0	0	0	0	3	0	1	0	5	4	1	3	5	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:37132666G>A	uc001wty.3	+	3	1286	c.569G>A	c.(568-570)CGC>CAC	p.R190H	PAX9_uc010amq.2_5'Flank	NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	190					multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		GCCATGCCGCGCACCTGGCCC	0.687													5	31					0	0	1	0	0		A	37132666	A	A	37132666	3	1	27	1	0	0	0	0	1	0	0	0	11505	1087	38	1	575	1	PAX9	14	37132666	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	391	37132666	70216874	5940	28291											
SLC25A21	89874	broad.mit.edu	37	chr14	37180557	37180557	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgtttttgacattgtagTagaagccaaaataaaccatg	15	13	7	6	0	1	2	1	1	0	1	1	2	1	2	2	0	2	3	2	0	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:37180557T>C	uc001wtz.1	-	7	879	c.569A>G	c.(568-570)TAC>TGC	p.Y190C		NM_030631	NP_085134	Q9BQT8	ODC_HUMAN	solute carrier family 25 (mitochondrial	190	Solcar 2.				lysine catabolic process	integral to membrane|mitochondrial inner membrane	alpha-ketoglutarate transmembrane transporter activity|binding			skin(1)	1	Esophageal squamous(585;0.164)|Breast(36;0.179)|Hepatocellular(127;0.213)		Lung(8;2.16e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.0112)|all cancers(34;0.0274)|LUSC - Lung squamous cell carcinoma(13;0.149)	GBM - Glioblastoma multiforme(112;0.00204)		GACATTGTAGTAGAAGCCAAA	0.343													14	55					0	0	1	0	0		C	37180557	C	C	37180557	3	2	27	1	0	0	0	0	1	0	0	0	14509	1638	57	3	351	3	SLC25A21	14	37180557	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47891	37180557	70168983	5941	28292											
SLC25A21	89874	broad.mit.edu	37	chr14	37194876	37194876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcccaatccagcaatggCgaatgtctagaaaaattaaa	18	8	7	8	1	1	2	0	0	1	2	3	3	3	2	2	1	1	1	2	1	8	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:37194876C>T	uc001wtz.1	-	6	647	c.337G>A	c.(337-339)GCC>ACC	p.A113T		NM_030631	NP_085134	Q9BQT8	ODC_HUMAN	solute carrier family 25 (mitochondrial	113	Solcar 2.|Helical; Name=3; (Potential).				lysine catabolic process	integral to membrane|mitochondrial inner membrane	alpha-ketoglutarate transmembrane transporter activity|binding			skin(1)	1	Esophageal squamous(585;0.164)|Breast(36;0.179)|Hepatocellular(127;0.213)		Lung(8;2.16e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.0112)|all cancers(34;0.0274)|LUSC - Lung squamous cell carcinoma(13;0.149)	GBM - Glioblastoma multiforme(112;0.00204)		CCAGCAATGGCGAATGTCTAG	0.363													6	43					0	0	1	0	0		T	37194876	T	T	37194876	3	4	27	1	0	0	0	0	1	0	0	0	14509	768	27	1	587	1	SLC25A21	14	37194876	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14319	37194876	70154664	5942	28293											
MIPOL1	145282	broad.mit.edu	37	chr14	37892127	37892127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacaaaaaactggaagaggAaatccagacccttcgagttt	16	8	9	8	1	0	2	0	0	0	2	2	5	1	4	2	2	2	2	2	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:37892127A>G	uc001wuc.2	+	12	1507	c.1004A>G	c.(1003-1005)GAA>GGA	p.E335G	MIPOL1_uc010amr.2_RNA|MIPOL1_uc001wub.3_Missense_Mutation_p.E304G|MIPOL1_uc001wud.2_Missense_Mutation_p.E335G|MIPOL1_uc010ams.2_Missense_Mutation_p.E335G|MIPOL1_uc001wue.2_Missense_Mutation_p.E304G|MIPOL1_uc010amt.2_Missense_Mutation_p.E154G	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	335	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		CTGGAAGAGGAAATCCAGACC	0.323													3	19					0	0	1	0	0		G	37892127	G	G	37892127	3	3	27	1	0	0	0	0	1	0	0	0	9611	246	9	3	1038	3	MIPOL1	14	37892127	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	697251	37892127	69457413	5943	28294											
MIPOL1	145282	broad.mit.edu	37	chr14	37969207	37969207	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaaaaaacagagagaacAttgtttccatcactcaacaa	18	10	4	9	0	2	2	2	0	0	2	3	3	3	2	1	0	3	1	1	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:37969207A>G	uc001wuc.2	+	13	1629	c.1126A>G	c.(1126-1128)ATT>GTT	p.I376V	MIPOL1_uc010amr.2_RNA|MIPOL1_uc001wub.3_Missense_Mutation_p.I345V|MIPOL1_uc001wud.2_Missense_Mutation_p.I376V|MIPOL1_uc010ams.2_Missense_Mutation_p.I376V|MIPOL1_uc001wue.2_Missense_Mutation_p.I345V|MIPOL1_uc010amt.2_Missense_Mutation_p.I195V	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	376	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		CAGAGAGAACATTGTTTCCAT	0.363													13	92					0	0	1	0	0		G	37969207	G	G	37969207	3	3	27	1	0	0	0	0	1	0	0	0	9611	217	8	3	1164	3	MIPOL1	14	37969207	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	77080	37969207	69380333	5944	28295											
CLEC14A	161198	broad.mit.edu	37	chr14	38724773	38724773	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttccagcctgcgggctcgAccccaccggtggcctggagt	4	7	13	17	3	0	0	0	0	0	0	2	2	1	1	7	4	2	1	7	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:38724773A>T	uc001wum.1	-	1	802	c.455T>A	c.(454-456)GTC>GAC	p.V152D		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	152	Extracellular (Potential).|C-type lectin.					integral to membrane	sugar binding			ovary(3)|skin(1)	4	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00439)		TGCGGGCTCGACCCCACCGGT	0.617													5	40					0	0	1	0	0		T	38724773	T	T	38724773	3	4	27	1	0	0	0	0	1	0	0	0	3502	275	10	5	1021	5	CLEC14A	14	38724773	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	755566	38724773	68624767	5945	28296											
CTAGE5	4253	broad.mit.edu	37	chr14	39771359	39771359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgaacgcttgttaaagatGaaagattgggctgctatgct	12	12	11	6	1	0	4	0	2	0	2	0	4	0	4	0	1	3	5	0	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:39771359G>A	uc001wvg.3	+	10	1158	c.822G>A	c.(820-822)ATG>ATA	p.M274I	CTAGE5_uc010tqe.1_Missense_Mutation_p.M236I|CTAGE5_uc001wuz.3_Missense_Mutation_p.M262I|CTAGE5_uc001wuy.3_Missense_Mutation_p.M194I|CTAGE5_uc001wvb.3_Missense_Mutation_p.M245I|CTAGE5_uc001wvc.3_Missense_Mutation_p.M219I|CTAGE5_uc001wva.3_Missense_Mutation_p.M245I|CTAGE5_uc001wve.1_Missense_Mutation_p.M250I|CTAGE5_uc001wvh.3_Missense_Mutation_p.M274I|CTAGE5_uc001wvf.3_Missense_Mutation_p.M199I|CTAGE5_uc001wvi.3_Missense_Mutation_p.M279I|CTAGE5_uc010amz.2_5'UTR|CTAGE5_uc001wvj.3_Missense_Mutation_p.M245I	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	274							enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		TGTTAAAGATGAAAGATTGGG	0.378													9	127					0	0	1	0	0		A	39771359	A	A	39771359	3	1	27	1	0	0	0	0	1	0	0	0	3997	1290	45	4	891	4	CTAGE5	14	39771359	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1046586	39771359	67578181	5946	28297											
FBXO33	254170	broad.mit.edu	37	chr14	39871660	39871660	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggtatgtatttgacaaacTtccttgctgttgtagaacac	11	14	9	7	0	0	2	0	1	0	1	1	3	1	2	1	1	3	5	1	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:39871660T>G	uc001wvk.2	-	2	993	c.655A>C	c.(655-657)AGT>CGT	p.S219R		NM_203301	NP_976046	Q7Z6M2	FBX33_HUMAN	F-box protein 33	219											0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00121)|Epithelial(34;0.169)	GBM - Glioblastoma multiforme(112;0.0425)		TTTGACAAACTTCCTTGCTGT	0.308													3	47					0	0	1	0	0		G	39871660	G	G	39871660	3	3	27	1	0	0	0	0	1	0	0	0	5757	1609	56	5	1024	5	FBXO33	14	39871660	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	100301	39871660	67477880	5947	28298											
FSCB	84075	broad.mit.edu	37	chr14	44975832	44975832	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagttgaactgaaggtatgTttggtggaatttctacatcc	10	16	10	5	0	1	2	0	2	1	0	2	3	2	3	1	3	2	3	1	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:44975832T>C	uc001wvn.2	-	1	668	c.359A>G	c.(358-360)AAC>AGC	p.N120S		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	120						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		TGAAGGTATGTTTGGTGGAAT	0.438													13	197					0	0	1	0	0		C	44975832	C	C	44975832	3	2	27	1	0	0	0	0	1	0	0	0	6080	1725	60	3	2122	3	FSCB	14	44975832	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5104172	44975832	62373708	5948	28299											
FSCB	84075	broad.mit.edu	37	chr14	44976056	44976056	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatactctaatagactcataGgctttggcagagtagctgcc	11	11	10	9	0	2	2	1	0	1	2	2	3	2	2	1	2	3	4	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:44976056G>T	uc001wvn.2	-	1	444	c.135C>A	c.(133-135)GCC>GCA	p.A45A		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	45						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		TAGACTCATAGGCTTTGGCAG	0.428													11	134					0.000673444	0.000703801	1	1	0		T	44976056	T	T	44976056	2	4	27	1	0	0	0	0	0	0	0	1	6080	987	35	5		5	FSCB	14	44976056	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	224	44976056	62373484	5949	28300											
KLHL28	54813	broad.mit.edu	37	chr14	45398323	45398323	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggatcatatttctgcactgTattcagataggaagaccctg	12	12	9	8	0	3	2	2	0	1	2	3	4	3	4	1	2	1	2	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:45398323T>C	uc001wvq.2	-	5	1870	c.1624A>G	c.(1624-1626)ACA>GCA	p.T542A	KLHL28_uc001wvr.2_Missense_Mutation_p.T542A	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	542	Kelch 6.									ovary(1)	1						TTCTGCACTGTATTCAGATAG	0.438													11	102					0	0	1	0	0		C	45398323	C	C	45398323	3	2	27	1	0	0	0	0	1	0	0	0	8398	1638	57	3	95	3	KLHL28	14	45398323	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	422267	45398323	61951217	5950	28301											
FAM179B	23116	broad.mit.edu	37	chr14	45432481	45432481	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttcaacaaattggggagcGacttggccaagacaggtttc	12	9	11	9	1	1	1	1	0	0	1	2	3	1	2	1	4	2	1	1	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:45432481G>A	uc001wvv.2	+	1	1066	c.857G>A	c.(856-858)CGA>CAA	p.R286Q	FAM179B_uc001wvw.2_Missense_Mutation_p.R286Q|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvq.2_5'Flank|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Missense_Mutation_p.R286Q|FAM179B_uc001wvu.2_Missense_Mutation_p.R286Q	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	286							binding			skin(2)|upper_aerodigestive_tract(1)	3						ATTGGGGAGCGACTTGGCCAA	0.507													12	128					0	0	1	0	0		A	45432481	A	A	45432481	3	1	27	1	0	0	0	0	1	0	0	0	5517	1058	37	1	859	1	FAM179B	14	45432481	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	34158	45432481	61917059	5951	28302											
FAM179B	23116	broad.mit.edu	37	chr14	45433203	45433203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagatagcaaacgcagggtaCgccaagcagctttagaagct	14	7	11	9	2	0	2	0	0	0	2	0	2	0	2	1	1	6	6	1	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:45433203C>T	uc001wvv.2	+	1	1788	c.1579C>T	c.(1579-1581)CGC>TGC	p.R527C	FAM179B_uc001wvw.2_Missense_Mutation_p.R527C|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvq.2_5'Flank|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Missense_Mutation_p.R527C|FAM179B_uc001wvu.2_Missense_Mutation_p.R527C	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	527	HEAT 4.						binding			skin(2)|upper_aerodigestive_tract(1)	3						ACGCAGGGTACGCCAAGCAGC	0.468													10	135					0	0	1	0	0		T	45433203	T	T	45433203	3	4	27	1	0	0	0	0	1	0	0	0	5517	536	19	1	1581	1	FAM179B	14	45433203	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	722	45433203	61916337	5952	28303											
FANCM	57697	broad.mit.edu	37	chr14	45645393	45645393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgttaatacagagttcgacGatgtgagtctttcacccttg	10	14	9	8	2	2	2	1	1	1	1	3	4	2	2	1	0	1	2	1	0	2	5	rs142077813		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:45645393G>A	uc001wwd.3	+	14	3535	c.3436G>A	c.(3436-3438)GAT>AAT	p.D1146N	FANCM_uc010anf.2_Missense_Mutation_p.D1120N|FANCM_uc001wwe.3_Missense_Mutation_p.D682N|FANCM_uc010ang.2_Missense_Mutation_p.D360N	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1146					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						AGAGTTCGACGATGTGAGTCT	0.388								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				9	114					0	0	1	0	0		A	45645393	A	A	45645393	3	1	27	1	0	0	0	0	1	0	0	0	5685	1058	37	1	3490	1	FANCM	14	45645393	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	212190	45645393	61704147	5953	28304											
FANCM	57697	broad.mit.edu	37	chr14	45658140	45658140	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgattgctttgcaaatagtAaaaagtataaaactcgacgt	17	12	7	5	2	0	1	0	1	0	0	1	2	0	1	0	0	3	4	0	0	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:45658140A>G	uc001wwd.3	+	20	5014	c.4915A>G	c.(4915-4917)AAA>GAA	p.K1639E	FANCM_uc010anf.2_Missense_Mutation_p.K1613E|FANCM_uc001wwe.3_Missense_Mutation_p.K1175E|FANCM_uc010ang.2_Missense_Mutation_p.K853E	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1639					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						TGCAAATAGTAAAAAGTATAA	0.308								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				4	65					0	0	1	0	0		G	45658140	G	G	45658140	3	3	27	1	0	0	0	0	1	0	0	0	5685	363	13	3	4993	3	FANCM	14	45658140	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	12747	45658140	61691400	5954	28305											
FANCM	57697	broad.mit.edu	37	chr14	45665602	45665602	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaatggctgtgattacatCgtgagtaatcgcatggtggt	9	14	12	6	2	0	2	0	2	0	0	2	2	0	2	0	3	1	3	0	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:45665602C>A	uc001wwd.3	+	21	5667	c.5568C>A	c.(5566-5568)ATC>ATA	p.I1856I	FANCM_uc010anf.2_Silent_p.I1830I|FANCM_uc001wwe.3_Silent_p.I1392I|FANCM_uc010ang.2_Silent_p.I1105I	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1856	Interaction with FAAP24 and EME1.				DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						GTGATTACATCGTGAGTAATC	0.408								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				10	119					3.86212e-05	4.11225e-05	1	1	0		A	45665602	A	A	45665602	2	1	27	1	0	0	0	0	0	0	0	1	5685	874	31	5		5	FANCM	14	45665602	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7462	45665602	61683938	5955	28306											
FANCM	57697	broad.mit.edu	37	chr14	45665650	45665650	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtctcaatctgagatgttAaatagtgtcaataagaacaa	17	11	8	5	0	3	2	2	1	2	2	4	3	3	2	0	1	1	1	0	1	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:45665650A>G	uc001wwd.3	+	21	5715	c.5616A>G	c.(5614-5616)TTA>TTG	p.L1872L	FANCM_uc010anf.2_Silent_p.L1846L|FANCM_uc001wwe.3_Silent_p.L1408L|FANCM_uc010ang.2_Silent_p.L1121L	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1872	Interaction with FAAP24 and EME1.				DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						CTGAGATGTTAAATAGTGTCA	0.398								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				26	71					0	0	1	0	0		G	45665650	G	G	45665650	2	3	27	1	0	0	0	0	0	0	0	1	5685	359	13	3		3	FANCM	14	45665650	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	48	45665650	61683890	5956	28307											
C14orf106	55320	broad.mit.edu	37	chr14	45675336	45675336	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaccattacttttatgatAtttttgcatacgaaaaacat	15	15	3	8	1	0	1	0	1	0	0	0	2	0	1	2	0	4	1	2	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:45675336A>T	uc001wwf.2	-	15	3649	c.3190T>A	c.(3190-3192)TAT>AAT	p.Y1064N		NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	1064					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						CTTTTATGATATTTTTGCATA	0.249													4	44					0	0	1	0	0		T	45675336	T	T	45675336	3	4	27	1	0	0	0	0	1	0	0	0	1741	449	16	5	220	5	C14orf106	14	45675336	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	9686	45675336	61674204	5957	28308											
C14orf106	55320	broad.mit.edu	37	chr14	45711609	45711609	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggatttagtggttgcaacTatactctcctttgagtgaaa	10	16	9	6	0	1	2	0	2	1	0	2	3	1	3	1	2	3	2	1	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:45711609T>C	uc001wwf.2	-	4	1230	c.771A>G	c.(769-771)ATA>ATG	p.I257M	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	257					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						TGGTTGCAACTATACTCTCCT	0.363													4	137					0	0	1	0	0		C	45711609	C	C	45711609	3	2	27	1	0	0	0	0	1	0	0	0	1741	1512	53	3	2683	3	C14orf106	14	45711609	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	36273	45711609	61637931	5958	28309											
C14orf104	55172	broad.mit.edu	37	chr14	50101028	50101028	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atggtgatcaccagctcatgGggcacggggctcggggctga	7	7	17	10	2	2	2	2	2	0	0	3	2	2	2	1	7	1	4	1	7	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:50101028G>A	uc001wws.3	-	1	921	c.840C>T	c.(838-840)CCC>CCT	p.P280P	SDCCAG1_uc010anj.1_Intron|C14orf104_uc001wwt.3_Silent_p.P280P	NM_018139	NP_060609	Q9NVR5	KTU_HUMAN	kintoun isoform 1	280					axonemal dynein complex assembly|ciliary cell motility|flagellar cell motility	cytoplasm					0	all_epithelial(31;0.0021)|Breast(41;0.0124)					CCAGCTCATGGGGCACGGGGC	0.672									Kartagener_syndrome				3	34					0	0	1	0	0		A	50101028	A	A	50101028	2	1	27	1	0	0	0	0	0	0	0	1	1739	1219	43	4		4	C14orf104	14	50101028	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4389419	50101028	57248512	5959	28310											
SDCCAG1	9147	broad.mit.edu	37	chr14	50255864	50255864	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccacaaagtagccatacCttgtcatcatgtggatcatc	12	10	7	12	0	3	0	3	0	0	0	4	1	3	1	3	1	3	1	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:50255864C>T	uc001wxc.2	-	28	2963	c.2895G>A	c.(2893-2895)AAG>AAA	p.K965K	SDCCAG1_uc010anj.1_Silent_p.K965K|SDCCAG1_uc001wwz.2_Silent_p.K165K|SDCCAG1_uc001wxa.2_Silent_p.K245K|SDCCAG1_uc010tqi.1_Silent_p.K944K|SDCCAG1_uc001wxe.2_Silent_p.K923K	NM_004713	NP_004704	O60524	NEMF_HUMAN	serologically defined colon cancer antigen 1	965						cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)		GTAGCCATACCTTGTCATCAT	0.323													8	115					0	0	1	0	0		T	50255864	T	T	50255864	2	4	27	1	0	0	0	0	0	0	0	1	13982	695	24	4		4	SDCCAG1	14	50255864	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	154836	50255864	57093676	5960	28311											
C14orf183	196913	broad.mit.edu	37	chr14	50550523	50550523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggaagtacccggtgccGtgggcggcacccaccaggca	9	3	14	15	3	0	0	0	0	0	0	0	1	0	1	5	5	2	3	5	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:50550523G>A	uc010tqk.1	-	5	821	c.821C>T	c.(820-822)ACG>ATG	p.T274M		NM_001014830	NP_001014830	Q8WXQ3	CN183_HUMAN	hypothetical protein LOC196913	274											0						ACCCGGTGCCGTGGGCGGCAC	0.652													7	57					0	0	1	0	0		A	50550523	A	A	50550523	3	1	27	1	0	0	0	0	1	0	0	0	1769	1145	40	1	156	1	C14orf183	14	50550523	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	294659	50550523	56799017	5961	28312											
SOS2	6655	broad.mit.edu	37	chr14	50647365	50647365	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctggtgaaagaatgtcCtgtgataatgtttcataagg	13	13	10	5	0	2	3	1	2	1	1	3	3	3	3	1	2	1	1	1	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:50647365C>A	uc001wxs.3	-	7	992	c.894G>T	c.(892-894)CAG>CAT	p.Q298H	SOS2_uc010tql.1_Missense_Mutation_p.Q298H|SOS2_uc001wxt.2_Translation_Start_Site	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	298	DH.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					AAAGAATGTCCTGTGATAATG	0.308													3	30					0.115264	0.116483	1	1	0		A	50647365	A	A	50647365	3	1	27	1	0	0	0	0	1	0	0	0	14962	680	24	5	3172	5	SOS2	14	50647365	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	96842	50647365	56702175	5962	28313											
MAP4K5	11183	broad.mit.edu	37	chr14	50904618	50904618	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgatattttgtaccttggtAgtattcggtctggaaacctg	9	16	10	6	1	1	1	0	1	1	0	2	2	1	2	2	3	2	3	2	3	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:50904618A>G	uc001wya.2	-	24	2137	c.1817T>C	c.(1816-1818)CTA>CCA	p.L606P	MAP4K5_uc001wyb.2_Missense_Mutation_p.L606P	NM_006575	NP_006566	Q9Y4K4	M4K5_HUMAN	mitogen-activated protein kinase kinase kinase	606	CNH.				activation of JUN kinase activity	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(1)	1	all_epithelial(31;0.000415)|Breast(41;0.0102)					GTACCTTGGTAGTATTCGGTC	0.353													8	103					0	0	1	0	0		G	50904618	G	G	50904618	3	3	27	1	0	0	0	0	1	0	0	0	9281	420	15	3	759	3	MAP4K5	14	50904618	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	257253	50904618	56444922	5963	28314											
NIN	51199	broad.mit.edu	37	chr14	51208418	51208418	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggacatttgcaggtttacaTtctgcacggtgtcttctaaa	9	14	10	8	1	3	0	0	0	3	0	3	1	3	1	0	3	3	3	0	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:51208418T>G	uc001wym.2	-	25	5521	c.5330A>C	c.(5329-5331)AAT>ACT	p.N1777T	NIN_uc001wyi.2_Missense_Mutation_p.N1777T|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.N1064T|NIN_uc010tqp.1_Missense_Mutation_p.N1783T|NIN_uc001wyo.2_Missense_Mutation_p.N1777T|NIN_uc001wyn.2_5'Flank	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1777	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CAGGTTTACATTCTGCACGGT	0.408			T	PDGFRB	MPD								7	146					0	0	1	0	0		G	51208418	G	G	51208418	3	3	27	1	0	0	0	0	1	0	0	0	10436	1493	52	5	1247	5	NIN	14	51208418	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	303800	51208418	56141122	5964	28315											
NIN	51199	broad.mit.edu	37	chr14	51210974	51210974	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctactaccttatcgacacagCtatttaattcctcactcaga	12	13	3	13	1	2	1	2	0	0	1	4	2	3	1	2	0	3	1	2	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:51210974C>A	uc001wym.2	-	23	5365	c.5174G>T	c.(5173-5175)AGC>ATC	p.S1725I	NIN_uc001wyi.2_Missense_Mutation_p.S1725I|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.S1012I|NIN_uc010tqp.1_Missense_Mutation_p.S1731I|NIN_uc001wyo.2_Missense_Mutation_p.S1725I	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1725	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					ATCGACACAGCTATTTAATTC	0.413			T	PDGFRB	MPD								12	142					1.08611e-07	1.18661e-07	1	1	0		A	51210974	A	A	51210974	3	1	27	1	0	0	0	0	1	0	0	0	10436	797	28	5	1411	5	NIN	14	51210974	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2556	51210974	56138566	5965	28316											
NIN	51199	broad.mit.edu	37	chr14	51245521	51245521	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgcgttgcgtcttccagTgctagagaaggcaagagaag	11	8	13	9	2	1	2	0	0	1	2	2	4	2	2	1	1	3	3	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:51245521T>C	uc001wym.2	-	6	628	c.437A>G	c.(436-438)CAC>CGC	p.H146R	NIN_uc001wyi.2_Missense_Mutation_p.H146R|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.H146R|NIN_uc010tqp.1_Missense_Mutation_p.H152R|NIN_uc001wyo.2_Missense_Mutation_p.H146R|NIN_uc001wyp.1_Missense_Mutation_p.H108R	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	146					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CGTCTTCCAGTGCTAGAGAAG	0.507			T	PDGFRB	MPD								8	85					0	0	1	0	0		C	51245521	C	C	51245521	3	2	27	1	0	0	0	0	1	0	0	0	10436	1710	59	3	6216	3	NIN	14	51245521	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	34547	51245521	56104019	5966	28317											
ABHD12B	145447	broad.mit.edu	37	chr14	51352376	51352376	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgtctgttgactacagAggtatgtgttaagaacggtg	9	14	13	5	1	2	3	0	1	2	2	2	3	2	3	0	2	2	3	0	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:51352376A>G	uc001wys.2	+	6	546	c.531A>G	c.(529-531)AGA>AGG	p.R177R	ABHD12B_uc001wyq.2_Silent_p.R70R|ABHD12B_uc001wyr.2_Silent_p.R100R|ABHD12B_uc010any.2_Intron	NM_181533	NP_853511	Q7Z5M8	AB12B_HUMAN	abhydrolase domain containing 12B isoform b	177							hydrolase activity			breast(1)	1	all_epithelial(31;0.00481)|Breast(41;0.148)					TTGACTACAGAGGTATGTGTT	0.423													9	107					0	0	1	0	0		G	51352376	G	G	51352376	2	3	27	1	0	0	0	0	0	0	0	1	77	318	11	3		3	ABHD12B	14	51352376	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	106855	51352376	55997164	5967	28318											
FRMD6	122786	broad.mit.edu	37	chr14	52194524	52194524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgagcctcgatgacatcaGactttaccagaaagacttcc	12	10	7	12	1	1	5	1	2	0	3	3	6	2	5	3	0	2	0	3	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:52194524G>A	uc001wzd.2	+	14	1931	c.1646G>A	c.(1645-1647)AGA>AAA	p.R549K	FRMD6_uc001wzb.2_Missense_Mutation_p.R541K|FRMD6_uc001wzc.2_Missense_Mutation_p.R541K|FRMD6_uc001wze.2_Missense_Mutation_p.R472K|FRMD6_uc001wzf.2_Missense_Mutation_p.R242K|FRMD6_uc001wzg.2_Missense_Mutation_p.R191K	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	549						cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					GATGACATCAGACTTTACCAG	0.473													4	66					0	0	1	0	0		A	52194524	A	A	52194524	3	1	27	1	0	0	0	0	1	0	0	0	6068	942	33	4	1672	4	FRMD6	14	52194524	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	842148	52194524	55155016	5968	28319											
NID2	22795	broad.mit.edu	37	chr14	52495506	52495506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcacacctgtagcttccagGcaagttgatacatacagagt	12	10	8	11	0	1	2	1	1	0	1	2	2	2	2	2	1	3	4	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:52495506G>A	uc001wzo.2	-	11	2698	c.2464C>T	c.(2464-2466)CCT>TCT	p.P822S	NID2_uc010tqs.1_Missense_Mutation_p.P822S|NID2_uc010tqt.1_Missense_Mutation_p.P822S|NID2_uc001wzp.2_Missense_Mutation_p.P822S	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	822	EGF-like 3; calcium-binding (Potential).					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					TAGCTTCCAGGCAAGTTGATA	0.433													5	55					0	0	1	0	0		A	52495506	A	A	52495506	3	1	27	1	0	0	0	0	1	0	0	0	10434	1203	42	2	1711	2	NID2	14	52495506	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	300982	52495506	54854034	5969	28320											
NID2	22795	broad.mit.edu	37	chr14	52534616	52534616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcttgacctcctcgtaaGcgcctacctgctcccaggtg	5	9	10	17	4	0	1	0	1	0	0	3	1	2	1	5	1	3	3	5	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:52534616G>A	uc001wzo.2	-	2	728	c.494C>T	c.(493-495)GCT>GTT	p.A165V	NID2_uc010tqs.1_Missense_Mutation_p.A165V|NID2_uc010tqt.1_Missense_Mutation_p.A165V|NID2_uc001wzp.2_Missense_Mutation_p.A165V	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	165	NIDO.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CTCCTCGTAAGCGCCTACCTG	0.642													12	127					0	0	1	0	0		A	52534616	A	A	52534616	3	1	27	1	0	0	0	0	1	0	0	0	10434	971	34	2	3717	2	NID2	14	52534616	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39110	52534616	54814924	5970	28321											
TXNDC16	57544	broad.mit.edu	37	chr14	52949652	52949652	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctcttcctatctctgaaAacagtttctgccacttcatc	8	17	3	13	0	4	1	1	1	3	0	8	1	5	1	2	0	2	1	2	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:52949652A>G	uc001wzs.2	-	13	1589	c.1140T>C	c.(1138-1140)GTT>GTC	p.V380V	TXNDC16_uc010tqu.1_Silent_p.V375V|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	380					cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					TATCTCTGAAAACAGTTTCTG	0.318													5	54					0	0	1	0	0		G	52949652	G	G	52949652	2	3	27	1	0	0	0	0	0	0	0	1	16821	1	1	3		3	TXNDC16	14	52949652	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	415036	52949652	54399888	5971	28322											
TXNDC16	57544	broad.mit.edu	37	chr14	52981596	52981596	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacatatgctttttatacatAcccaatactttccaaaaggg	14	13	5	9	0	0	0	0	0	0	0	1	1	1	0	2	1	4	1	2	1	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:52981596A>G	uc001wzs.2	-	8	1054	c.605_splice	c.e8+1	p.G202_splice	TXNDC16_uc010tqu.1_Splice_Site_p.G197_splice|TXNDC16_uc010aoe.2_Splice_Site	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1						cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					TTTTATACATACCCAATACTT	0.373													14	159					0	0	1	0	0		G	52981596	G	G	52981596	5	3	27	1	0	0	0	0	0	0	1	0	16821	405	14	3	1926	3	TXNDC16	14	52981596	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	31944	52981596	54367944	5972	28323											
DDHD1	80821	broad.mit.edu	37	chr14	53570477	53570477	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccctaaaacaattgagAtgttcttgctcaattaaatt	13	14	6	8	0	2	1	1	1	1	1	2	2	2	1	2	1	2	2	2	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:53570477A>T	uc001xai.2	-	2	1166	c.936T>A	c.(934-936)CAT>CAA	p.H312Q	DDHD1_uc001xaj.2_Missense_Mutation_p.H312Q|DDHD1_uc001xah.2_Missense_Mutation_p.H312Q	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	312					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					AACAATTGAGATGTTCTTGCT	0.378													6	49					0	0	1	0	0		T	53570477	T	T	53570477	3	4	27	1	0	0	0	0	1	0	0	0	4329	330	12	5	1839	5	DDHD1	14	53570477	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	588881	53570477	53779063	5973	28324											
BMP4	652	broad.mit.edu	37	chr14	54417455	54417455	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatgtttatacggtggaaGcccctttcccaatcagggcc	10	11	9	11	1	1	0	1	0	0	0	2	1	2	1	4	3	2	1	4	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:54417455G>A	uc001xal.3	-	3	709	c.522C>T	c.(520-522)GGC>GGT	p.G174G	BMP4_uc010aoh.2_Silent_p.G174G|BMP4_uc001xao.3_Silent_p.G174G|BMP4_uc001xan.3_Silent_p.G174G	NM_130851	NP_570912	P12644	BMP4_HUMAN	bone morphogenetic protein 4 preproprotein	174					activation of MAPKK activity|blood vessel endothelial cell proliferation involved in sprouting angiogenesis|BMP signaling pathway involved in heart induction|BMP signaling pathway involved in nephric duct formation|branching involved in ureteric bud morphogenesis|bronchus development|bud dilation involved in lung branching|cardiac septum development|cartilage development|endocardial cushion development|epithelial cell proliferation involved in lung morphogenesis|intermediate mesodermal cell differentiation|lung alveolus development|lymphoid progenitor cell differentiation|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|negative regulation of branch elongation involved in ureteric bud branching by BMP signaling pathway|negative regulation of branching involved in ureteric bud morphogenesis|negative regulation of cell proliferation involved in heart morphogenesis|negative regulation of glomerular mesangial cell proliferation|negative regulation of glomerulus development|negative regulation of immature T cell proliferation in thymus|negative regulation of MAP kinase activity|negative regulation of metanephric comma-shaped body morphogenesis|negative regulation of metanephric S-shaped body morphogenesis|negative regulation of mitosis|negative regulation of myoblast differentiation|negative regulation of phosphorylation|negative regulation of striated muscle tissue development|negative regulation of thymocyte apoptosis|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cardiac muscle fiber development|positive regulation of cartilage development|positive regulation of collagen biosynthetic process|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of kidney development|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|protein localization to nucleus|pulmonary artery endothelial tube morphogenesis|secondary heart field specification|SMAD protein signal transduction|specification of ureteric bud anterior/posterior symmetry by BMP signaling pathway|steroid hormone mediated signaling pathway	extracellular space|proteinaceous extracellular matrix	BMP receptor binding|chemoattractant activity|cytokine activity|growth factor activity				0						TACGGTGGAAGCCCCTTTCCC	0.557													5	44					0	0	1	0	0		A	54417455	A	A	54417455	2	1	27	1	0	0	0	0	0	0	0	1	1463	958	34	2		2	BMP4	14	54417455	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	846978	54417455	52932085	5974	28325											
BMP4	652	broad.mit.edu	37	chr14	54418876	54418876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtatcaaactagcatggCtcgcgcctcctagcaggact	10	8	10	13	2	1	0	1	0	0	0	3	1	2	1	2	3	3	4	2	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:54418876C>T	uc001xal.3	-	2	252	c.65G>A	c.(64-66)AGC>AAC	p.S22N	BMP4_uc010aoh.2_Missense_Mutation_p.S22N|BMP4_uc001xao.3_Missense_Mutation_p.S22N|BMP4_uc001xan.3_Missense_Mutation_p.S22N	NM_130851	NP_570912	P12644	BMP4_HUMAN	bone morphogenetic protein 4 preproprotein	22					activation of MAPKK activity|blood vessel endothelial cell proliferation involved in sprouting angiogenesis|BMP signaling pathway involved in heart induction|BMP signaling pathway involved in nephric duct formation|branching involved in ureteric bud morphogenesis|bronchus development|bud dilation involved in lung branching|cardiac septum development|cartilage development|endocardial cushion development|epithelial cell proliferation involved in lung morphogenesis|intermediate mesodermal cell differentiation|lung alveolus development|lymphoid progenitor cell differentiation|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|negative regulation of branch elongation involved in ureteric bud branching by BMP signaling pathway|negative regulation of branching involved in ureteric bud morphogenesis|negative regulation of cell proliferation involved in heart morphogenesis|negative regulation of glomerular mesangial cell proliferation|negative regulation of glomerulus development|negative regulation of immature T cell proliferation in thymus|negative regulation of MAP kinase activity|negative regulation of metanephric comma-shaped body morphogenesis|negative regulation of metanephric S-shaped body morphogenesis|negative regulation of mitosis|negative regulation of myoblast differentiation|negative regulation of phosphorylation|negative regulation of striated muscle tissue development|negative regulation of thymocyte apoptosis|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cardiac muscle fiber development|positive regulation of cartilage development|positive regulation of collagen biosynthetic process|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of kidney development|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|protein localization to nucleus|pulmonary artery endothelial tube morphogenesis|secondary heart field specification|SMAD protein signal transduction|specification of ureteric bud anterior/posterior symmetry by BMP signaling pathway|steroid hormone mediated signaling pathway	extracellular space|proteinaceous extracellular matrix	BMP receptor binding|chemoattractant activity|cytokine activity|growth factor activity				0						ACTAGCATGGCTCGCGCCTCC	0.577													9	83					0	0	1	0	0		T	54418876	T	T	54418876	3	4	27	1	0	0	0	0	1	0	0	0	1463	797	28	2	1169	2	BMP4	14	54418876	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1421	54418876	52930664	5975	28326											
SOCS4	122809	broad.mit.edu	37	chr14	55510474	55510474	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaattctaacactttgcAcaagttccagaaaaagaaac	19	9	5	8	0	1	3	0	1	1	2	2	3	2	3	1	0	3	2	1	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:55510474A>G	uc001xbo.2	+	3	1280	c.715A>G	c.(715-717)ACA>GCA	p.T239A	SOCS4_uc001xbp.2_Missense_Mutation_p.T239A	NM_199421	NP_955453	Q8WXH5	SOCS4_HUMAN	suppressor of cytokine signaling 4	239					intracellular signal transduction|negative regulation of signal transduction|regulation of growth					ovary(1)|kidney(1)	2						AACACTTTGCACAAGTTCCAG	0.388													7	54					0	0	1	0	0		G	55510474	G	G	55510474	3	3	27	1	0	0	0	0	1	0	0	0	14941	159	6	3	717	3	SOCS4	14	55510474	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1091598	55510474	51839066	5976	28327											
SOCS4	122809	broad.mit.edu	37	chr14	55510709	55510709	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagactcagcacaggaagActatttattctctgttagtt	11	14	8	8	1	2	2	1	0	1	2	4	4	2	3	0	1	1	3	0	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:55510709A>G	uc001xbo.2	+	3	1515	c.950A>G	c.(949-951)GAC>GGC	p.D317G	SOCS4_uc001xbp.2_Missense_Mutation_p.D317G	NM_199421	NP_955453	Q8WXH5	SOCS4_HUMAN	suppressor of cytokine signaling 4	317	SH2.				intracellular signal transduction|negative regulation of signal transduction|regulation of growth					ovary(1)|kidney(1)	2						GCACAGGAAGACTATTTATTC	0.428													16	114					0	0	1	0	0		G	55510709	G	G	55510709	3	3	27	1	0	0	0	0	1	0	0	0	14941	275	10	3	952	3	SOCS4	14	55510709	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	235	55510709	51838831	5977	28328											
LGALS3	3958	broad.mit.edu	37	chr14	55609411	55609411	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacaaagctggataataacTggggaagggaagaaagacag	19	5	13	4	0	0	2	0	0	0	2	0	5	0	5	0	4	3	1	0	4	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:55609411T>C	uc001xbr.2	+	5	692	c.541T>C	c.(541-543)TGG>CGG	p.W181R		NM_002306	NP_002297	P17931	LEG3_HUMAN	galectin 3	181	Beta-galactoside binding (By similarity).|Galectin.				cell differentiation|innate immune response|mRNA processing|RNA splicing	mitochondrial inner membrane|plasma membrane|spliceosomal complex	IgE binding|sugar binding				0						GGATAATAACTGGGGAAGGGA	0.368													6	94					0	0	1	0	0		C	55609411	C	C	55609411	3	2	27	1	0	0	0	0	1	0	0	0	8759	1580	55	3	555	3	LGALS3	14	55609411	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	98702	55609411	51740129	5978	28329											
TBPL2	387332	broad.mit.edu	37	chr14	55907245	55907245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagcctcggaacccgctccgGccagggcgcagaggccattt	7	5	13	16	4	0	1	0	0	0	1	2	2	1	2	5	4	2	2	5	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:55907245G>A	uc001xby.2	-	1	19	c.19C>T	c.(19-21)CCG>TCG	p.P7S		NM_199047	NP_950248	Q6SJ96	TBPL2_HUMAN	TATA box binding protein like 2	7					multicellular organismal development|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding				0						ACCCGCTCCGGCCAGGGCGCA	0.692													5	40					0	0	1	0	0		A	55907245	A	A	55907245	3	1	27	1	0	0	0	0	1	0	0	0	15671	1203	42	2	1136	2	TBPL2	14	55907245	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	297834	55907245	51442295	5979	28330											
C14orf101	54916	broad.mit.edu	37	chr14	57070532	57070532	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatgttatctgtgtttgcaGgctttctggctcatctgctg	4	18	10	9	0	5	0	2	0	3	0	5	0	5	0	0	2	2	6	0	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:57070532G>A	uc001xcm.2	+	4	467	c.345_splice	c.e4-1	p.R115_splice	C14orf101_uc001xcj.2_Splice_Site|C14orf101_uc001xck.2_Splice_Site_p.R115_splice|C14orf101_uc010aot.1_Splice_Site_p.R115_splice|C14orf101_uc001xcl.1_Splice_Site|C14orf101_uc001xcn.2_Splice_Site|C14orf101_uc010trf.1_Intron	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916							integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		TGTGTTTGCAGGCTTTCTGGC	0.408													8	102					0	0	1	0	0		A	57070532	A	A	57070532	5	1	27	1	0	0	0	0	0	0	1	0	1737	1014	35	4	358	4	C14orf101	14	57070532	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1163287	57070532	50279008	5980	28331											
C14orf101	54916	broad.mit.edu	37	chr14	57088287	57088287	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactatgtgattgataagtTcgcaaagaaccttctcacct	13	12	6	10	1	1	3	1	2	1	1	3	3	1	3	2	0	2	2	2	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:57088287T>C	uc001xcm.2	+	11	1387	c.1265T>C	c.(1264-1266)TTC>TCC	p.F422S	C14orf101_uc001xcj.2_Intron|C14orf101_uc001xcl.1_Intron|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_Intron|C14orf101_uc001xco.2_Intron	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	422						integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		ATTGATAAGTTCGCAAAGAAC	0.368													7	83					0	0	1	0	0		C	57088287	C	C	57088287	3	2	27	1	0	0	0	0	1	0	0	0	1737	1783	62	3	1307	3	C14orf101	14	57088287	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	17755	57088287	50261253	5981	28332											
OTX2	5015	broad.mit.edu	37	chr14	57271037	57271037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgaacgtcgtcctctcccGgcgctgtttccggggggtgg	3	10	16	12	5	1	1	0	1	1	0	5	1	3	1	3	5	1	2	3	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:57271037G>A	uc001xcp.2	-	2	289	c.118C>T	c.(118-120)CGG>TGG	p.R40W	OTX2_uc010aou.2_Missense_Mutation_p.R40W|OTX2_uc001xcq.2_Missense_Mutation_p.R48W	NM_172337	NP_758840	P32243	OTX2_HUMAN	orthodenticle homeobox 2 isoform b	40	Homeobox.				axon guidance|forebrain development|midbrain development|positive regulation of embryonic development|positive regulation of gastrulation|primitive streak formation|protein complex assembly|regulation of fibroblast growth factor receptor signaling pathway|regulation of smoothened signaling pathway	growth cone|nucleus|protein complex	eukaryotic initiation factor 4E binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding			ovary(1)	1	Medulloblastoma(1;0.00184)|all_neural(1;0.00414)					GTCCTCTCCCGGCGCTGTTTC	0.622													17	42					0	0	1	0	0		A	57271037	A	A	57271037	3	1	27	1	0	0	0	0	1	0	0	0	11340	1115	39	1	759	1	OTX2	14	57271037	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	182750	57271037	50078503	5982	28333											
EXOC5	10640	broad.mit.edu	37	chr14	57675501	57675501	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagagtatcaaaaagatgTaataccattggaatctgaat	17	11	8	5	0	2	3	1	1	1	2	2	4	2	4	1	1	2	3	1	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:57675501T>C	uc001xct.2	-	18	2204	c.1953A>G	c.(1951-1953)TTA>TTG	p.L651L	EXOC5_uc001xcs.2_Silent_p.L330L|EXOC5_uc010trg.1_Silent_p.L596L|EXOC5_uc010trh.1_Silent_p.L586L	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	651					exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						CAAAAAGATGTAATACCATTG	0.343													3	53					0	0	1	0	0		C	57675501	C	C	57675501	2	2	27	1	0	0	0	0	0	0	0	1	5315	1635	57	3		3	EXOC5	14	57675501	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	404464	57675501	49674039	5983	28334											
EXOC5	10640	broad.mit.edu	37	chr14	57713439	57713439	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacgtttacctgattgcttTtctgcagctcttgtaccttc	7	17	6	11	1	2	1	0	1	2	0	3	1	2	1	2	0	6	5	2	0	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:57713439T>C	uc001xct.2	-	3	511	c.260A>G	c.(259-261)AAA>AGA	p.K87R	EXOC5_uc010trg.1_Missense_Mutation_p.K32R|EXOC5_uc010trh.1_Missense_Mutation_p.K87R	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	87	Potential.				exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						CTGATTGCTTTTCTGCAGCTC	0.343													9	161					0	0	1	0	0		C	57713439	C	C	57713439	3	2	27	1	0	0	0	0	1	0	0	0	5315	1841	64	3	1930	3	EXOC5	14	57713439	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37938	57713439	49636101	5984	28335											
MUDENG	55745	broad.mit.edu	37	chr14	57747009	57747009	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctagttcacccttgtgtaActtctcttgactctgcaatt	7	18	5	11	0	4	1	1	1	3	0	5	1	4	1	1	0	2	3	1	0	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:57747009A>G	uc001xcv.2	+	3	1244	c.817A>G	c.(817-819)ACT>GCT	p.T273A	MUDENG_uc010tri.1_Missense_Mutation_p.T27A|MUDENG_uc010trj.1_Missense_Mutation_p.T170A	NM_018229	NP_060699	Q9H0R1	MUDEN_HUMAN	Mu-2 related death-inducing protein	273	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex				ovary(1)	1						CCCTTGTGTAACTTCTCTTGA	0.418													5	201					0	0	1	0	0		G	57747009	G	G	57747009	3	3	27	1	0	0	0	0	1	0	0	0	10001	43	2	3	827	3	MUDENG	14	57747009	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	33570	57747009	49602531	5985	28336											
NAA30	122830	broad.mit.edu	37	chr14	57876098	57876098	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttctcatttctttgaaggTtgttttggaaaccgaaataa	11	18	7	5	1	2	1	1	1	2	0	3	3	2	2	1	2	1	2	1	2	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:57876098T>C	uc001xcx.3	+	5	1107	c.953T>C	c.(952-954)GTT>GCT	p.V318A	NAA30_uc010trk.1_Missense_Mutation_p.V60A|NAA30_uc010aow.2_RNA	NM_001011713	NP_001011713	Q147X3	NAA30_HUMAN	N-acetyltransferase 12	318	N-acetyltransferase.					cytoplasm	peptide alpha-N-acetyltransferase activity			skin(1)	1						TCTTTGAAGGTTGTTTTGGAA	0.229													3	28					0	0	1	0	0		C	57876098	C	C	57876098	3	2	27	1	0	0	0	0	1	0	0	0	10140	1739	60	3	967	3	NAA30	14	57876098	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	129089	57876098	49473442	5986	28337											
SLC35F4	341880	broad.mit.edu	37	chr14	58038710	58038710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgccatcatgacaatgcCggtaattgccattattgcag	12	12	8	9	1	1	1	1	1	0	0	1	1	1	1	3	1	4	2	3	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:58038710C>T	uc001xdb.1	-	5	943	c.943G>A	c.(943-945)GGC>AGC	p.G315S	SLC35F4_uc010aoz.1_RNA|SLC35F4_uc010apa.1_Missense_Mutation_p.G156S	NM_001080455	NP_001073924			solute carrier family 35, member F4											ovary(2)	2						ATGACAATGCCGGTAATTGCC	0.428													7	18					0	0	1	0	0		T	58038710	T	T	58038710	3	4	27	1	0	0	0	0	1	0	0	0	14616	652	23	1	638	1	SLC35F4	14	58038710	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	162612	58038710	49310830	5987	28338											
ACTR10	55860	broad.mit.edu	37	chr14	58701258	58701258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaagagagcattttccActgagaaatagaagtttgat	15	12	10	4	0	0	6	0	4	0	3	1	8	1	6	1	0	1	2	1	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:58701258A>G	uc001xdf.2	+	13	1346	c.1243A>G	c.(1243-1245)ACT>GCT	p.T415A	C14orf37_uc010tro.1_Intron|ACTR10_uc001xdg.2_Missense_Mutation_p.T217A|ACTR10_uc001xdh.2_Missense_Mutation_p.T217A|ACTR10_uc010trp.1_RNA|ACTR10_uc010apc.2_Missense_Mutation_p.T205A	NM_018477	NP_060947	Q9NZ32	ARP10_HUMAN	uncharacterized hypothalamus protein HARP11	415						cytoplasm				central_nervous_system(1)	1						AGCATTTTCCACTGAGAAATA	0.348													4	63					0	0	1	0	0		G	58701258	G	G	58701258	3	3	27	1	0	0	0	0	1	0	0	0	208	159	6	3	1293	3	ACTR10	14	58701258	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	662548	58701258	48648282	5988	28339											
KIAA0586	9786	broad.mit.edu	37	chr14	58917322	58917322	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaagaagttgaagatacGagttttgataaacagaaatc	19	11	8	3	1	0	5	0	2	0	3	1	6	0	5	0	0	2	2	0	0	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:58917322G>T	uc001xdv.3	+	8	1260	c.987G>T	c.(985-987)ACG>ACT	p.T329T	KIAA0586_uc010trr.1_Silent_p.T370T|KIAA0586_uc001xdt.3_Silent_p.T285T|KIAA0586_uc001xdu.3_Silent_p.T314T|KIAA0586_uc010trs.1_Silent_p.T244T|KIAA0586_uc010trt.1_Silent_p.T189T|KIAA0586_uc010tru.1_Silent_p.T189T	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	329										ovary(1)	1						TTGAAGATACGAGTTTTGATA	0.333													3	44					1	1	1	1	0		T	58917322	T	T	58917322	2	4	27	1	0	0	0	0	0	0	0	1	8202	1045	37	5		5	KIAA0586	14	58917322	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	216064	58917322	48432218	5989	28340											
DACT1	51339	broad.mit.edu	37	chr14	59112846	59112846	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccgccgcaggagaacaaagTtgtacagcccctgaaaaaga	15	4	10	12	2	0	3	0	1	0	2	0	4	0	3	4	1	3	3	4	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:59112846T>C	uc001xdw.2	+	4	1669	c.1505T>C	c.(1504-1506)GTT>GCT	p.V502A	DACT1_uc010trv.1_Missense_Mutation_p.V221A|DACT1_uc001xdx.2_Missense_Mutation_p.V465A|DACT1_uc010trw.1_Missense_Mutation_p.V221A	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	502					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						GAGAACAAAGTTGTACAGCCC	0.597													12	115					0	0	1	0	0		C	59112846	C	C	59112846	3	2	27	1	0	0	0	0	1	0	0	0	4225	1725	60	3	1519	3	DACT1	14	59112846	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	195524	59112846	48236694	5990	28341											
C14orf135	64430	broad.mit.edu	37	chr14	60581930	60581930	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtcttggctcttttagaaActagcttgcttcatcacttt	8	18	6	9	0	4	1	2	0	2	1	4	1	4	1	0	1	3	3	0	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:60581930A>G	uc001xer.3	+	3	928	c.406A>G	c.(406-408)ACT>GCT	p.T136A	C14orf135_uc001xeq.2_Missense_Mutation_p.T136A	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	370	Helical; (Potential).					integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		TCTTTTAGAAACTAGCTTGCT	0.373													5	109					0	0	1	0	0		G	60581930	G	G	60581930	3	3	27	1	0	0	0	0	1	0	0	0	1748	43	2	3	412	3	C14orf135	14	60581930	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1469084	60581930	46767610	5991	28342											
C14orf135	64430	broad.mit.edu	37	chr14	60585237	60585237	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacactactctcttctccctTactccctcttttcacccttc	5	17	0	19	0	4	0	1	0	3	0	8	0	5	0	3	0	3	0	3	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:60585237T>C	uc001xer.3	+	6	1589	c.1067T>C	c.(1066-1068)TTA>TCA	p.L356S	C14orf135_uc001xeq.2_Missense_Mutation_p.L356S|C14orf135_uc010apm.2_RNA	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	590						integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		TCTTCTCCCTTACTCCCTCTT	0.468													6	47					0	0	1	0	0		C	60585237	C	C	60585237	3	2	27	1	0	0	0	0	1	0	0	0	1748	1764	61	3	1085	3	C14orf135	14	60585237	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3307	60585237	46764303	5992	28343											
C14orf39	317761	broad.mit.edu	37	chr14	60903672	60903672	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaaatggaaaactaaaaTcatcttttccagctccaaat	18	11	4	8	0	2	1	1	1	1	0	4	2	4	2	2	1	2	1	2	1	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:60903672T>G	uc001xez.3	-	18	1765	c.1655A>C	c.(1654-1656)GAT>GCT	p.D552A	C14orf39_uc010apo.2_Missense_Mutation_p.D263A	NM_174978	NP_777638	Q08AQ4	Q08AQ4_HUMAN	hypothetical protein LOC317761	552										ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)		AAAACTAAAATCATCTTTTCC	0.343													60	205					0	0	1	0	0		G	60903672	G	G	60903672	3	3	27	1	0	0	0	0	1	0	0	0	1775	1435	50	5	112	5	C14orf39	14	60903672	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	318435	60903672	46445868	5993	28344											
SIX6	4990	broad.mit.edu	37	chr14	60976477	60976477	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtaaggaagaagttcccgCtgccgcgcaccatttgggac	10	7	13	11	3	0	1	0	0	0	1	1	4	1	3	3	2	1	4	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:60976477C>T	uc001xfa.3	+	1	540	c.361C>T	c.(361-363)CTG>TTG	p.L121L		NM_007374	NP_031400	O95475	SIX6_HUMAN	SIX homeobox 6	121					organ morphogenesis|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.088)		GAAGTTCCCGCTGCCGCGCAC	0.597													7	23					0	0	1	0	0		T	60976477	T	T	60976477	2	4	27	1	0	0	0	0	0	0	0	1	14376	796	28	2		2	SIX6	14	60976477	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	72805	60976477	46373063	5994	28345											
SIX1	6495	broad.mit.edu	37	chr14	61115821	61115821	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaccacaggaacctgcccagGcgctccaggtttccgccttg	7	7	11	16	2	0	0	0	0	0	0	2	2	2	1	6	3	2	2	6	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:61115821G>A	uc001xfb.3	-	1	335	c.87C>T	c.(85-87)CGC>CGT	p.R29R		NM_005982	NP_005973	Q15475	SIX1_HUMAN	SIX homeobox 1	29					branching involved in ureteric bud morphogenesis|embryonic cranial skeleton morphogenesis|epithelial cell differentiation|inner ear morphogenesis|mesonephric tubule formation|metanephric mesenchyme development|myoblast migration|negative regulation of neuron apoptosis|organ induction|pattern specification process|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|protein localization to nucleus|regulation of branch elongation involved in ureteric bud branching|regulation of neuron differentiation|skeletal muscle tissue development|thymus development|thyroid gland development	nucleolus|transcription factor complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.0201)		ACCTGCCCAGGCGCTCCAGGT	0.647													7	78					0	0	1	0	0		A	61115821	A	A	61115821	2	1	27	1	0	0	0	0	0	0	0	1	14371	1190	42	2		2	SIX1	14	61115821	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	139344	61115821	46233719	5995	28346											
MNAT1	4331	broad.mit.edu	37	chr14	61346478	61346478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaagcttgaagaagctcTgtatgaataccagccactgc	13	9	8	11	0	2	3	1	2	1	1	2	3	2	3	2	0	5	3	2	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:61346478T>C	uc001xfd.2	+	7	845	c.734T>C	c.(733-735)CTG>CCG	p.L245P	MNAT1_uc001xfe.2_Missense_Mutation_p.L203P	NM_002431	NP_002422	P51948	MAT1_HUMAN	menage a trois 1 (CAK assembly factor)	245					cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein complex assembly|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	cytoplasm|holo TFIIH complex	protein N-terminus binding|zinc ion binding			ovary(1)|lung(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.0174)		GAAGAAGCTCTGTATGAATAC	0.378								Direct_reversal_of_damage|NER					5	56					0	0	1	0	0		C	61346478	C	C	61346478	3	2	27	1	0	0	0	0	1	0	0	0	9692	1580	55	3	760	3	MNAT1	14	61346478	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	230657	61346478	46003062	5996	28347											
KCNH5	27133	broad.mit.edu	37	chr14	63174910	63174910	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acataggccagagacgtctgAatgggagtaatctgtgacac	13	8	12	8	1	2	3	0	2	2	1	2	5	2	4	1	2	0	1	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:63174910A>T	uc001xfx.2	-	11	2334	c.2283T>A	c.(2281-2283)ATT>ATA	p.I761I	KCNH5_uc001xfy.2_3'UTR	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	761	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		GAGACGTCTGAATGGGAGTAA	0.527													4	77					0	0	1	0	0		T	63174910	T	T	63174910	2	4	27	1	0	0	0	0	0	0	0	1	8051	242	9	5		5	KCNH5	14	63174910	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1828432	63174910	44174630	5997	28348											
PPP2R5E	5529	broad.mit.edu	37	chr14	63842769	63842769	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtctaagacctctctttaaCtccagatcctccaatttttt	9	16	3	13	1	2	2	0	0	2	2	6	2	5	2	4	0	1	0	4	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:63842769C>T	uc001xgd.1	-	14	1952	c.1362G>A	c.(1360-1362)GAG>GAA	p.E454E	PPP2R5E_uc010tsf.1_Silent_p.E378E|PPP2R5E_uc010tsg.1_Silent_p.E378E|PPP2R5E_uc001xge.2_Silent_p.E454E|PPP2R5E_uc010tsh.1_Silent_p.E449E	NM_006246	NP_006237	Q16537	2A5E_HUMAN	epsilon isoform of regulatory subunit B56,	454					signal transduction	cytoplasm|intracellular membrane-bounded organelle|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00197)|all cancers(60;0.0153)|BRCA - Breast invasive adenocarcinoma(234;0.128)		CTCTCTTTAACTCCAGATCCT	0.358													12	67					0	0	1	0	0		T	63842769	T	T	63842769	2	4	27	1	0	0	0	0	0	0	0	1	12418	564	20	4		4	PPP2R5E	14	63842769	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	667859	63842769	43506771	5998	28349											
SYNE2	23224	broad.mit.edu	37	chr14	64608200	64608200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgaacaaaaatggacaatgCtcataactcaacttccagat	17	10	5	9	0	2	2	2	1	0	1	3	3	3	3	1	1	4	1	1	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:64608200C>T	uc001xgm.2	+	81	15348	c.15118C>T	c.(15118-15120)CTC>TTC	p.L5040F	SYNE2_uc001xgl.2_Missense_Mutation_p.L5040F|SYNE2_uc010apy.2_Missense_Mutation_p.L1425F|SYNE2_uc001xgn.2_Missense_Mutation_p.L2F|SYNE2_uc001xgo.2_RNA	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5040	Spectrin 1.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		ATGGACAATGCTCATAACTCA	0.388													12	73					0	0	1	0	0		T	64608200	T	T	64608200	3	4	27	1	0	0	0	0	1	0	0	0	15471	797	28	2	15436	2	SYNE2	14	64608200	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	765431	64608200	42741340	5999	28350											
AKAP5	9495	broad.mit.edu	37	chr14	64936006	64936006	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagactatgaaagtacagaGattgtagctgaagaaactaa	20	8	9	4	0	0	5	0	2	0	3	0	6	0	5	0	0	3	3	0	0	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:64936006G>A	uc001xhd.3	+	2	1272	c.894G>A	c.(892-894)GAG>GAA	p.E298E	ZBTB25_uc001xhc.2_Intron	NM_004857	NP_004848	P24588	AKAP5_HUMAN	A-kinase anchor protein 5	298					energy reserve metabolic process|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting|regulation of insulin secretion|signal transduction|synaptic transmission	cytosol	adenylate cyclase binding|calmodulin binding				0				all cancers(60;0.00749)|OV - Ovarian serous cystadenocarcinoma(108;0.0095)|BRCA - Breast invasive adenocarcinoma(234;0.0449)		AAAGTACAGAGATTGTAGCTG	0.368													8	90					0	0	1	0	0		A	64936006	A	A	64936006	2	1	27	1	0	0	0	0	0	0	0	1	454	933	33	4		4	AKAP5	14	64936006	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	327806	64936006	42413534	6000	28351											
FNTB	2342	broad.mit.edu	37	chr14	65521297	65521297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctgtccttacaggtcgCgtgatttctaccacacctgc	6	12	8	15	2	1	1	0	1	1	0	3	1	2	1	4	1	4	0	4	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:65521297C>T	uc001xia.2	+	11	1237	c.1072C>T	c.(1072-1074)CGT>TGT	p.R358C	FNTB_uc010tsl.1_Missense_Mutation_p.R392C|FNTB_uc010tsm.1_Missense_Mutation_p.R312C|MAX_uc001xic.1_Intron|FNTB_uc001xid.2_Missense_Mutation_p.R114C|FNTB_uc010tso.1_Missense_Mutation_p.R273C	NM_002028	NP_002019	P49356	FNTB_HUMAN	farnesyltransferase, CAAX box, beta	358	PFTB 5.				protein farnesylation	microtubule associated complex	protein binding|protein farnesyltransferase activity			ovary(1)	1				all cancers(60;0.00115)|OV - Ovarian serous cystadenocarcinoma(108;0.00412)|BRCA - Breast invasive adenocarcinoma(234;0.011)		TTACAGGTCGCGTGATTTCTA	0.577													3	11					0	0	1	0	0		T	65521297	T	T	65521297	3	4	27	1	0	0	0	0	1	0	0	0	5992	768	27	1	1114	1	FNTB	14	65521297	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	585291	65521297	41828243	6001	28352											
GPHN	10243	broad.mit.edu	37	chr14	67589003	67589003	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagatgacctcttaccaGggaagattcgagacagcaat	14	8	10	9	1	1	5	0	2	1	3	2	7	1	6	2	1	2	1	2	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:67589003G>T	uc001xiy.2	+	16	2679	c.1558G>T	c.(1558-1560)GGG>TGG	p.G520W	GPHN_uc001xix.2_Missense_Mutation_p.G553W|GPHN_uc010tss.1_Missense_Mutation_p.G566W|GPHN_uc010tst.1_Missense_Mutation_p.G489W|GPHN_uc010tsu.1_Missense_Mutation_p.G443W	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	520	MPT adenylyltransferase.				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		CCTCTTACCAGGGAAGATTCG	0.368			T	MLL	AL								15	42					7.93312e-07	8.61692e-07	1	1	0		T	67589003	T	T	67589003	3	4	27	1	0	0	0	0	1	0	0	0	6625	1000	35	5	1723	5	GPHN	14	67589003	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2067706	67589003	39760537	6002	28353											
GPHN	10243	broad.mit.edu	37	chr14	67626205	67626205	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagggtttttatgaaaccagGgtatgaaaatcatcttgtta	13	14	9	5	0	2	2	1	2	1	0	2	2	2	2	1	2	1	3	1	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:67626205G>T	uc001xiy.2	+	18	2932	c.1811G>T	c.(1810-1812)GGC>GTC	p.G604V	GPHN_uc001xix.2_Missense_Mutation_p.G637V|GPHN_uc010tss.1_Missense_Mutation_p.G650V|GPHN_uc010tst.1_Missense_Mutation_p.G573V|GPHN_uc010tsu.1_Missense_Mutation_p.G527V	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	604	MPT adenylyltransferase.				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		ATGAAACCAGGGTATGAAAAT	0.333			T	MLL	AL								8	139					1.12685e-05	1.21022e-05	1	1	0		T	67626205	T	T	67626205	3	4	27	1	0	0	0	0	1	0	0	0	6625	1246	43	5	1984	5	GPHN	14	67626205	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	37202	67626205	39723335	6003	28354											
MPP5	64398	broad.mit.edu	37	chr14	67787971	67787971	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgtcttttaagtcttcgtAcacaggtaaagctagaactt	12	15	7	7	1	2	1	0	0	2	1	3	1	2	1	0	1	3	3	0	1	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:67787971A>G	uc001xjc.2	+	13	2201	c.1735A>G	c.(1735-1737)ACA>GCA	p.T579A	MPP5_uc001xjd.2_Missense_Mutation_p.T545A|ATP6V1D_uc001xje.2_Intron	NM_022474	NP_071919	Q8N3R9	MPP5_HUMAN	membrane protein, palmitoylated 5	579	Guanylate kinase-like.				tight junction assembly	cytoplasm|endomembrane system|tight junction	protein domain specific binding			ovary(1)	1				all cancers(60;0.000388)|OV - Ovarian serous cystadenocarcinoma(108;0.00762)|BRCA - Breast invasive adenocarcinoma(234;0.0106)		AAGTCTTCGTACACAGGTAAA	0.373													26	76					0	0	1	0	0		G	67787971	G	G	67787971	3	3	27	1	0	0	0	0	1	0	0	0	9755	391	14	3	1777	3	MPP5	14	67787971	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	161766	67787971	39561569	6004	28355											
PLEK2	26499	broad.mit.edu	37	chr14	67859098	67859098	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttaactccacagtgctcAggctaatttcttccttgggg	8	13	8	12	0	2	0	1	0	1	0	4	0	4	0	2	3	2	2	2	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:67859098A>G	uc001xjh.1	-	6	768	c.716T>C	c.(715-717)CTG>CCG	p.L239P		NM_016445	NP_057529	Q9NYT0	PLEK2_HUMAN	pleckstrin 2	239					actin cytoskeleton organization|intracellular signal transduction	cytoplasm|cytoskeleton|lamellipodium membrane				ovary(1)|pancreas(1)	2				all cancers(60;0.000728)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.00953)		CACAGTGCTCAGGCTAATTTC	0.532													24	88					0	0	1	0	0		G	67859098	G	G	67859098	3	3	27	1	0	0	0	0	1	0	0	0	12073	188	7	3	361	3	PLEK2	14	67859098	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	71127	67859098	39490442	6005	28356											
PLEKHH1	57475	broad.mit.edu	37	chr14	68044777	68044777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caacgtgccggtggaagctgCctcggtggactaccatgtgt	7	9	14	11	3	0	0	0	0	0	0	1	2	0	2	3	4	5	1	3	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:68044777C>T	uc001xjl.1	+	19	2754	c.2612C>T	c.(2611-2613)GCC>GTC	p.A871V	PLEKHH1_uc010tsw.1_Missense_Mutation_p.A439V|PLEKHH1_uc001xjn.1_Missense_Mutation_p.A386V|PLEKHH1_uc010tsx.1_5'Flank	NM_020715	NP_065766	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H	871	MyTH4.					cytoskeleton	binding				0				all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)		GTGGAAGCTGCCTCGGTGGAC	0.602													16	69					0	0	1	0	0		T	68044777	T	T	68044777	3	4	27	1	0	0	0	0	1	0	0	0	12095	739	26	2	2682	2	PLEKHH1	14	68044777	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	185679	68044777	39304763	6006	28357											
GALNTL1	57452	broad.mit.edu	37	chr14	69795187	69795187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgatccggtcccgagtgCgtggggcggacgtggctgca	4	7	19	11	5	0	1	0	1	0	0	2	3	2	2	2	6	2	3	2	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:69795187C>T	uc010aqu.1	+	6	682	c.589C>T	c.(589-591)CGT>TGT	p.R197C	GALNTL1_uc001xla.1_Missense_Mutation_p.R197C|GALNTL1_uc001xlb.1_Missense_Mutation_p.R197C	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	197	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		GTCCCGAGTGCGTGGGGCGGA	0.627													11	126					0	0	1	0	0		T	69795187	T	T	69795187	3	4	27	1	0	0	0	0	1	0	0	0	6236	768	27	1	611	1	GALNTL1	14	69795187	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1750410	69795187	37554353	6007	28358											
SLC10A1	6554	broad.mit.edu	37	chr14	70263858	70263858	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagttgaatggggcagacgcGttgtgggcctccatcctcct	7	10	13	11	2	0	2	0	1	0	1	3	2	3	2	4	3	0	3	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:70263858G>A	uc001xlr.2	-	1	149	c.15C>T	c.(13-15)AAC>AAT	p.N5N		NM_003049	NP_003040	Q14973	NTCP_HUMAN	solute carrier family 10, member 1	5					bile acid metabolic process|organic anion transport	integral to plasma membrane	bile acid:sodium symporter activity			ovary(1)	1				all cancers(60;0.00228)|BRCA - Breast invasive adenocarcinoma(234;0.0137)|OV - Ovarian serous cystadenocarcinoma(108;0.0226)		GGGCAGACGCGTTGTGGGCCT	0.547													9	29					0	0	1	0	0		A	70263858	A	A	70263858	2	1	27	1	0	0	0	0	0	0	0	1	14398	1136	40	1		1	SLC10A1	14	70263858	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	468671	70263858	37085682	6008	28359											
SLC8A3	6547	broad.mit.edu	37	chr14	70517823	70517823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcagtttgtccaccgtaGtctgttaagaagagaaaaac	14	11	9	7	1	2	3	1	1	1	2	3	4	3	3	2	0	1	3	2	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:70517823G>A	uc001xly.2	-	6	2787	c.2033C>T	c.(2032-2034)ACT>ATT	p.T678I	SLC8A3_uc001xlu.2_Missense_Mutation_p.T35I|SLC8A3_uc001xlv.2_Missense_Mutation_p.T49I|SLC8A3_uc001xlw.2_Missense_Mutation_p.T675I|SLC8A3_uc001xlx.2_Missense_Mutation_p.T676I|SLC8A3_uc001xlz.2_Missense_Mutation_p.T672I|SLC8A3_uc010ara.2_RNA|SLC8A3_uc001xma.2_Missense_Mutation_p.T35I	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	678	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		GTCCACCGTAGTCTGTTAAGA	0.488													9	54					0	0	1	0	0		A	70517823	A	A	70517823	3	1	27	1	0	0	0	0	1	0	0	0	14733	1043	36	4	762	4	SLC8A3	14	70517823	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	253965	70517823	36831717	6009	28360											
ADAM21	8747	broad.mit.edu	37	chr14	70924308	70924308	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttccggctactgtcaggCtgggccctcccagcatttca	6	12	9	14	1	2	0	2	0	0	0	4	0	4	0	3	3	2	3	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:70924308C>A	uc001xmd.2	+	1	92	c.92C>A	c.(91-93)GCT>GAT	p.A31D		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	31					proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		TACTGTCAGGCTGGGCCCTCC	0.537													10	116					5.50884e-06	5.93776e-06	1	1	0		A	70924308	A	A	70924308	3	1	27	1	0	0	0	0	1	0	0	0	243	797	28	5	94	5	ADAM21	14	70924308	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	406485	70924308	36425232	6010	28361											
ADAM20	8748	broad.mit.edu	37	chr14	70989594	70989594	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttgtgacagatgaaccatActggcacacttcttacggat	11	11	9	10	1	1	3	0	2	1	1	1	4	1	4	1	2	3	2	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:70989594A>G	uc001xme.2	-	2	2276	c.2031T>C	c.(2029-2031)AGT>AGC	p.S677S		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	627	Cys-rich.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		GATGAACCATACTGGCACACT	0.468													23	254					0	0	1	0	0		G	70989594	G	G	70989594	2	3	27	1	0	0	0	0	0	0	0	1	242	388	14	3		3	ADAM20	14	70989594	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	65286	70989594	36359946	6011	28362											
PCNX	22990	broad.mit.edu	37	chr14	71429014	71429014	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagttggttgcagttccaGaaattcttatgccggtctag	8	13	10	10	1	2	1	0	0	2	1	3	1	3	1	3	2	2	4	3	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:71429014G>T	uc001xmo.2	+	3	880	c.434G>T	c.(433-435)AGA>ATA	p.R145I	PCNX_uc001xmn.3_Missense_Mutation_p.R145I|PCNX_uc010are.1_Missense_Mutation_p.R145I	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	145						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		TGCAGTTCCAGAAATTCTTAT	0.473													12	162					0.00010058	0.000106583	1	1	0		T	71429014	T	T	71429014	3	4	27	1	0	0	0	0	1	0	0	0	11610	942	33	5	444	5	PCNX	14	71429014	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	439420	71429014	35920526	6012	28363											
PCNX	22990	broad.mit.edu	37	chr14	71435739	71435739	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctcttaactttgtaggAgatacagacactgctaagac	12	13	8	8	0	1	3	0	0	1	3	2	4	1	3	0	1	3	3	0	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:71435739A>G	uc001xmo.2	+	5	962	c.516A>G	c.(514-516)GGA>GGG	p.G172G	PCNX_uc001xmn.3_Silent_p.G172G|PCNX_uc010are.1_Silent_p.G172G	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	172						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		ACTTTGTAGGAGATACAGACA	0.383													13	164					0	0	1	0	0		G	71435739	G	G	71435739	2	3	27	1	0	0	0	0	0	0	0	1	11610	318	11	3		3	PCNX	14	71435739	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6725	71435739	35913801	6013	28364											
PCNX	22990	broad.mit.edu	37	chr14	71444774	71444774	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgggctagcagttttgatTcaagccggcatagggactat	11	10	12	8	2	1	1	1	1	0	0	1	2	1	2	1	3	3	4	1	3	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:71444774T>C	uc001xmo.2	+	6	2166	c.1720T>C	c.(1720-1722)TCA>CCA	p.S574P	PCNX_uc001xmn.3_Missense_Mutation_p.S574P|PCNX_uc010are.1_Missense_Mutation_p.S574P	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	574						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		CAGTTTTGATTCAAGCCGGCA	0.473													33	100					0	0	1	0	0		C	71444774	C	C	71444774	3	2	27	1	0	0	0	0	1	0	0	0	11610	1783	62	3	1742	3	PCNX	14	71444774	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9035	71444774	35904766	6014	28365											
PCNX	22990	broad.mit.edu	37	chr14	71478227	71478227	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgacacagattctcatgtAtccagttctacctcagttcg	10	13	7	11	1	3	2	2	1	2	1	6	2	4	2	2	0	1	3	2	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:71478227A>G	uc001xmo.2	+	10	3185	c.2739A>G	c.(2737-2739)GTA>GTG	p.V913V	PCNX_uc001xmn.3_3'UTR|PCNX_uc010are.1_Silent_p.V807V|PCNX_uc010arf.1_5'Flank	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	913						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		ATTCTCATGTATCCAGTTCTA	0.279													3	58					0	0	1	0	0		G	71478227	G	G	71478227	2	3	27	1	0	0	0	0	0	0	0	1	11610	436	16	3		3	PCNX	14	71478227	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	33453	71478227	35871313	6015	28366											
PCNX	22990	broad.mit.edu	37	chr14	71571997	71571997	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaacagtggtggcaatatTgaagattctgatactggagg	12	12	13	4	0	1	3	0	2	1	1	1	4	1	4	0	4	2	2	0	4	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:71571997T>C	uc001xmo.2	+	33	6587	c.6141T>C	c.(6139-6141)ATT>ATC	p.I2047I	PCNX_uc010are.1_Silent_p.I1936I|PCNX_uc010arf.1_Silent_p.I835I|PCNX_uc001xmp.2_Silent_p.I131I	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	2047						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		GTGGCAATATTGAAGATTCTG	0.463													8	40					0	0	1	0	0		C	71571997	C	C	71571997	2	2	27	1	0	0	0	0	0	0	0	1	11610	1800	63	3		3	PCNX	14	71571997	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	93770	71571997	35777543	6016	28367											
SIPA1L1	26037	broad.mit.edu	37	chr14	72055054	72055054	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggactccagatttctcatGcctgaagcctaccccagctc	9	10	7	15	0	1	2	1	1	1	1	4	3	2	3	5	1	4	1	5	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:72055054G>T	uc001xms.2	+	2	813	c.465G>T	c.(463-465)ATG>ATT	p.M155I	SIPA1L1_uc001xmt.2_Missense_Mutation_p.M155I|SIPA1L1_uc001xmu.2_Missense_Mutation_p.M155I|SIPA1L1_uc001xmv.2_Missense_Mutation_p.M155I	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	155					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		GATTTCTCATGCCTGAAGCCT	0.473													7	66					0.0293803	0.0298427	1	1	0		T	72055054	T	T	72055054	3	4	27	1	0	0	0	0	1	0	0	0	14354	1319	46	5	467	5	SIPA1L1	14	72055054	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	483057	72055054	35294486	6017	28368											
SIPA1L1	26037	broad.mit.edu	37	chr14	72152235	72152235	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgtcccaggtgcagagTcccatgacctcgcggctgaa	7	7	12	15	3	0	3	0	2	0	1	4	3	3	3	4	2	1	2	4	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:72152235T>A	uc001xms.2	+	10	3609	c.3261T>A	c.(3259-3261)AGT>AGA	p.S1087R	SIPA1L1_uc001xmt.2_Missense_Mutation_p.S1087R|SIPA1L1_uc001xmu.2_Missense_Mutation_p.S1087R|SIPA1L1_uc001xmv.2_Missense_Mutation_p.S1087R|SIPA1L1_uc010ttm.1_Missense_Mutation_p.S562R	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1087					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		AGGTGCAGAGTCCCATGACCT	0.547													5	40					0	0	1	0	0		A	72152235	A	A	72152235	3	1	27	1	0	0	0	0	1	0	0	0	14354	1664	58	5	3295	5	SIPA1L1	14	72152235	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	97181	72152235	35197305	6018	28369											
RGS6	9628	broad.mit.edu	37	chr14	72936781	72936781	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatctttatgcaagcagaaGcacaagtaaagtaggtgaac	16	9	9	7	0	2	2	1	1	1	1	2	2	2	2	0	1	4	5	0	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:72936781G>T	uc001xna.3	+	8	1049	c.526G>T	c.(526-528)GCA>TCA	p.A176S	RGS6_uc010ttn.1_Missense_Mutation_p.A176S|RGS6_uc001xmx.3_Missense_Mutation_p.A176S|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.A176S|RGS6_uc010ttp.1_Missense_Mutation_p.A107S|RGS6_uc001xmz.1_Missense_Mutation_p.A37S|RGS6_uc010arg.2_RNA	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	176					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		GCAAGCAGAAGCACAAGTAAA	0.413													5	62					0.00116845	0.00121513	1	1	0		T	72936781	T	T	72936781	3	4	27	1	0	0	0	0	1	0	0	0	13334	971	34	5	552	5	RGS6	14	72936781	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	784546	72936781	34412759	6019	28370											
DPF3	8110	broad.mit.edu	37	chr14	73181139	73181139	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccatacttactgtcacagAcgtaaggtttgtcgtggtct	8	13	10	10	2	2	1	1	0	1	1	3	1	2	1	1	2	2	2	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:73181139A>G	uc001xnc.2	-	6	609	c.596T>C	c.(595-597)GTC>GCC	p.V199A	DPF3_uc001xnd.1_RNA|DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Missense_Mutation_p.V199A|DPF3_uc010ttq.1_Missense_Mutation_p.V209A	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	199	C2H2-type.				chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		ACTGTCACAGACGTAAGGTTT	0.642													8	69					0	0	1	0	0		G	73181139	G	G	73181139	3	3	27	1	0	0	0	0	1	0	0	0	4724	275	10	3	493	3	DPF3	14	73181139	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	244358	73181139	34168401	6020	28371											
PAPLN	89932	broad.mit.edu	37	chr14	73721271	73721271	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagcggagcgttacttgccgGggtgaaaggggttctttgct	7	11	16	7	3	1	1	0	1	1	0	1	2	1	2	1	5	5	3	1	5	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:73721271G>T	uc010ttx.1	+	12	1516	c.1353G>T	c.(1351-1353)CGG>CGT	p.R451R	PAPLN_uc001xnw.3_Silent_p.R424R|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Silent_p.R451R	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	451	TSP type-1 4.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		TTACTTGCCGGGGTGAAAGGG	0.617													9	137					3.86212e-05	4.11225e-05	1	1	0		T	73721271	T	T	73721271	2	4	27	1	0	0	0	0	0	0	0	1	11447	1219	43	5		5	PAPLN	14	73721271	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	540132	73721271	33628269	6021	28372											
NUMB	8650	broad.mit.edu	37	chr14	73750839	73750839	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcatagtggaaggcaacTcattgatgcgtagggatagt	11	11	13	6	1	2	1	1	1	1	0	2	3	2	3	0	3	3	3	0	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:73750839T>C	uc001xny.1	-	10	1219	c.899A>G	c.(898-900)GAG>GGG	p.E300G	NUMB_uc010aro.1_Intron|NUMB_uc010arp.1_Intron|NUMB_uc010arq.1_Intron|NUMB_uc010arr.1_Intron|NUMB_uc001xoa.1_Missense_Mutation_p.E300G|NUMB_uc001xnz.1_Missense_Mutation_p.E289G|NUMB_uc001xob.1_Missense_Mutation_p.E289G|NUMB_uc001xod.1_Missense_Mutation_p.E300G|NUMB_uc001xoc.1_Missense_Mutation_p.E300G|NUMB_uc010ars.1_Missense_Mutation_p.E289G|NUMB_uc001xof.1_Missense_Mutation_p.E264G|NUMB_uc010ttz.1_Missense_Mutation_p.E46G	NM_001005743	NP_001005743	P49757	NUMB_HUMAN	numb homolog isoform 1	300					axon guidance|lateral ventricle development|neuroblast division in subventricular zone|positive regulation of neurogenesis	integral to plasma membrane				ovary(2)|central_nervous_system(1)|skin(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00471)|OV - Ovarian serous cystadenocarcinoma(108;0.161)		GGAAGGCAACTCATTGATGCG	0.473													9	116					0	0	1	0	0		C	73750839	C	C	73750839	3	2	27	1	0	0	0	0	1	0	0	0	10770	1551	54	3	1072	3	NUMB	14	73750839	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	29568	73750839	33598701	6022	28373											
HEATR4	399671	broad.mit.edu	37	chr14	73945354	73945354	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagagggagaagacatgatgGgagaaaaaaatgttctctct	16	8	12	5	0	2	5	0	1	2	4	3	7	2	5	0	2	0	1	0	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:73945354G>T	uc010tua.1	-	18	3307	c.2897C>A	c.(2896-2898)CCC>CAC	p.P966H	uc001xoi.1_RNA	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		AGACATGATGGGAGAAAAAAA	0.468													12	79					2.80697e-09	3.09538e-09	1	1	0		T	73945354	T	T	73945354	3	4	27	1	0	0	0	0	1	0	0	0	7046	1232	43	5	46	5	HEATR4	14	73945354	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	194515	73945354	33404186	6023	28374											
ACOT2	10965	broad.mit.edu	37	chr14	74040291	74040291	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactacttgctcagtcatccCgaggttagttcttctttcag	8	15	7	11	1	5	0	3	0	2	0	6	1	6	0	1	1	3	3	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:74040291C>T	uc001xon.3	+	2	1016	c.843C>T	c.(841-843)CCC>CCT	p.P281P	ACOT1_uc010tuc.1_Intron|ACOT2_uc001xom.2_Silent_p.P84P	NM_006821	NP_006812	P49753	ACOT2_HUMAN	acyl-CoA thioesterase 2	281					acyl-CoA metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process	mitochondrion	carboxylesterase activity|palmitoyl-CoA hydrolase activity|protein binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0033)|OV - Ovarian serous cystadenocarcinoma(108;0.0639)		TCAGTCATCCCGAGGTTAGTT	0.433													23	93					0	0	1	0	0		T	74040291	T	T	74040291	2	4	27	1	0	0	0	0	0	0	0	1	152	639	23	1		1	ACOT2	14	74040291	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	94937	74040291	33309249	6024	28375											
DNAL1	83544	broad.mit.edu	37	chr14	74128725	74128725	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacaaactgcattgaaaaaaTtgccaacctgaatggcttaa	17	10	6	8	0	0	2	0	2	0	0	0	2	0	2	2	1	5	2	2	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:74128725T>A	uc001xoq.3	+	4	353	c.188T>A	c.(187-189)ATT>AAT	p.I63N	DNAL1_uc010aru.2_Missense_Mutation_p.I24N|DNAL1_uc010arv.2_RNA	NM_031427	NP_113615	Q4LDG9	DNAL1_HUMAN	axonemal dynein light chain 1	63	LRR 1.										0				BRCA - Breast invasive adenocarcinoma(234;0.00384)|KIRC - Kidney renal clear cell carcinoma(182;0.095)		ATTGAAAAAATTGCCAACCTG	0.299													3	8					0	0	1	0	0		A	74128725	A	A	74128725	3	1	27	1	0	0	0	0	1	0	0	0	4663	1493	52	5	202	5	DNAL1	14	74128725	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	88434	74128725	33220815	6025	28376											
C14orf43	91748	broad.mit.edu	37	chr14	74205679	74205679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttagagaggcggcgggagcGgcgggggaaggggatctgga	8	4	23	6	4	1	1	0	0	1	1	1	6	1	5	0	9	1	0	0	9	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:74205679G>A	uc001xot.2	-	2	1816	c.1033C>T	c.(1033-1035)CGC>TGC	p.R345C	C14orf43_uc001xou.2_Missense_Mutation_p.R345C|C14orf43_uc010tud.1_Missense_Mutation_p.R345C|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	345	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		CGGCGGGAGCGGCGGGGGAAG	0.672													10	26					0	0	1	0	0		A	74205679	A	A	74205679	3	1	27	1	0	0	0	0	1	0	0	0	1777	1116	39	1	2148	1	C14orf43	14	74205679	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	76954	74205679	33143861	6026	28377											
C14orf43	91748	broad.mit.edu	37	chr14	74206622	74206623	+	Missense_Mutation	DNP	AG	GA	GA																															tgctgggggggctgcaggggAgggggctgctccttgggagc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:74206622_74206623AG>GA	uc001xot.2	-	2	872_873	c.89_90CT>TC	c.(88-90)CCT>CTC	p.P30L	C14orf43_uc001xou.2_Missense_Mutation_p.P30L|C14orf43_uc010tud.1_Missense_Mutation_p.P30L|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	30					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		GCTGCAGGGGAGGGGGCTGCTC	0.649													8	62					0	0	1	0	0		GA	74206623	GA	GA	74206622	3	3	27	1	0	0	0	0	1	0	0	0	1777	291	11	3	3091	3	C14orf43	14	74206622	Missense_Mutation	DNP	AG	TCGA-BR-6452-01A-12D-1800-08	943	74206622	33142918	6027	28378											
ALDH6A1	4329	broad.mit.edu	37	chr14	74534085	74534085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcaggtgattgattacctGcattgactctcaggtttttg	8	16	10	7	0	2	3	2	3	1	0	3	3	2	3	1	2	2	2	1	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:74534085G>A	uc001xpo.2	-	8	1139	c.1040C>T	c.(1039-1041)GCA>GTA	p.A347V	C14orf45_uc001xpm.1_Intron|ALDH6A1_uc010asa.2_Missense_Mutation_p.A192V|ALDH6A1_uc010tuq.1_Missense_Mutation_p.A334V	NM_005589	NP_005580	Q02252	MMSA_HUMAN	aldehyde dehydrogenase 6A1 precursor	347						mitochondrial matrix|nucleus	fatty-acyl-CoA binding|malonate-semialdehyde dehydrogenase (acetylating) activity|methylmalonate-semialdehyde dehydrogenase (acylating) activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00354)	NADH(DB00157)	TTGATTACCTGCATTGACTCT	0.517													12	92					0	0	1	0	0		A	74534085	A	A	74534085	3	1	27	1	0	0	0	0	1	0	0	0	503	1319	46	2	587	2	ALDH6A1	14	74534085	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	327463	74534085	32815455	6028	28379											
ABCD4	5826	broad.mit.edu	37	chr14	74758990	74758990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccagcccgctactcacGtgtccaagccccactcgctc	6	8	7	20	3	2	0	1	0	1	0	5	0	3	0	5	0	4	2	5	0	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:74758990G>A	uc001xpr.2	-	11	1270	c.1118C>T	c.(1117-1119)ACA>ATA	p.T373I	ABCD4_uc001xps.2_Missense_Mutation_p.T214I|ABCD4_uc001xpt.2_Missense_Mutation_p.T214I|ABCD4_uc010tur.1_Missense_Mutation_p.T269I|ABCD4_uc001xpu.2_Missense_Mutation_p.T110I|ABCD4_uc001xpv.2_RNA	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	373						ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)		CGCTACTCACGTGTCCAAGCC	0.602													8	68					0	0	1	0	0		A	74758990	A	A	74758990	3	1	27	1	0	0	0	0	1	0	0	0	63	1159	40	1	738	1	ABCD4	14	74758990	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	224905	74758990	32590550	6029	28380											
C14orf115	55237	broad.mit.edu	37	chr14	74824569	74824569	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggctctggcacctgcccGgccttgccccccagggaggt	3	7	14	17	1	1	0	0	0	1	0	1	1	1	1	6	5	2	2	6	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:74824569G>A	uc001xpw.3	+	2	1274	c.1083G>A	c.(1081-1083)CCG>CCA	p.P361P		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	361					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		GCACCTGCCCGGCCTTGCCCC	0.657													9	36					0	0	1	0	0		A	74824569	A	A	74824569	2	1	27	1	0	0	0	0	0	0	0	1	1743	1103	39	1		1	C14orf115	14	74824569	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	65579	74824569	32524971	6030	28381											
TMEM90A	646658	broad.mit.edu	37	chr14	74874616	74874616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagagcatggagaagagaGtaagtcccaggtggtccctg	12	6	15	8	0	0	3	0	0	0	3	2	5	2	3	2	3	2	3	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:74874616G>A	uc001xpx.2	-	3	742	c.494C>T	c.(493-495)ACT>ATT	p.T165I		NM_001105579	NP_001099049	A6NDD5	SYN1L_HUMAN	transmembrane protein 90A	165	Helical; (Potential).				response to biotic stimulus	Golgi apparatus|integral to membrane					0				BRCA - Breast invasive adenocarcinoma(234;0.00159)		GGAGAAGAGAGTAAGTCCCAG	0.572													4	42					0	0	1	0	0		A	74874616	A	A	74874616	3	1	27	1	0	0	0	0	1	0	0	0	16243	1029	36	4	230	4	TMEM90A	14	74874616	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	50047	74874616	32474924	6031	28382											
LTBP2	4053	broad.mit.edu	37	chr14	74975558	74975558	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacacggtgccattggccagCtggaagccctggggacagag	9	5	15	12	1	0	1	0	0	0	1	0	3	0	3	3	5	3	1	3	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:74975558C>T	uc001xqa.2	-	23	3888	c.3501G>A	c.(3499-3501)CAG>CAA	p.Q1167Q		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1167	EGF-like 11; calcium-binding (Potential).|Cys-rich.				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CATTGGCCAGCTGGAAGCCCT	0.627													5	51					0	0	1	0	0		T	74975558	T	T	74975558	2	4	27	1	0	0	0	0	0	0	0	1	9092	796	28	2		2	LTBP2	14	74975558	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	100942	74975558	32373982	6032	28383											
LTBP2	4053	broad.mit.edu	37	chr14	75019682	75019682	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcacagctgttggcacAgtgtccacgggcacaggtct	7	9	11	14	1	2	0	1	0	2	0	4	0	3	0	2	3	1	4	2	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:75019682A>G	uc001xqa.2	-	5	1492	c.1105T>C	c.(1105-1107)TGT>CGT	p.C369R		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	369					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CTGTTGGCACAGTGTCCACGG	0.582													3	27					0	0	1	0	0		G	75019682	G	G	75019682	3	3	27	1	0	0	0	0	1	0	0	0	9092	188	7	3	4488	3	LTBP2	14	75019682	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	44124	75019682	32329858	6033	28384											
LTBP2	4053	broad.mit.edu	37	chr14	75078162	75078162	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccatgctcaccccgtgagCcgccctcgcggcggggttgg	3	7	14	17	5	1	1	1	1	0	0	3	1	2	1	5	4	2	2	5	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:75078162C>T	uc001xqa.2	-	1	873	c.486G>A	c.(484-486)CGG>CGA	p.R162R		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	162					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		ACCCCGTGAGCCGCCCTCGCG	0.731													8	56					0	0	1	0	0		T	75078162	T	T	75078162	2	4	27	1	0	0	0	0	0	0	0	1	9092	726	26	2		2	LTBP2	14	75078162	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	58480	75078162	32271378	6034	28385											
YLPM1	56252	broad.mit.edu	37	chr14	75264547	75264547	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttttggacagcagcatcaGcagcaacctaagtcacaagc	13	7	9	12	0	2	0	2	0	0	0	2	1	2	1	1	1	6	5	1	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:75264547G>A	uc001xqj.3	+	5	2671	c.2547G>A	c.(2545-2547)CAG>CAA	p.Q849Q	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	654					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		AGCAGCATCAGCAGCAACCTA	0.453													6	88					0	0	1	0	0		A	75264547	A	A	75264547	2	1	27	1	0	0	0	0	0	0	0	1	17512	962	34	2		2	YLPM1	14	75264547	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	186385	75264547	32084993	6035	28386											
MLH3	27030	broad.mit.edu	37	chr14	75513923	75513923	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaactactatctgaatcActatgctccatagtagtgat	13	13	6	9	0	2	3	1	3	1	0	3	3	3	3	1	0	3	2	1	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:75513923A>G	uc001xrd.1	-	2	2652	c.2436T>C	c.(2434-2436)AGT>AGC	p.S812S	MLH3_uc001xre.1_Silent_p.S812S|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	812					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		TATCTGAATCACTATGCTCCA	0.403								MMR					5	82					0	0	1	0	0		G	75513923	G	G	75513923	2	3	27	1	0	0	0	0	0	0	0	1	9636	156	6	3		3	MLH3	14	75513923	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	249376	75513923	31835617	6036	28387											
MLH3	27030	broad.mit.edu	37	chr14	75515816	75515816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaaagaaatggaagggtgCatgagtgagagagcttctat	15	8	15	3	0	1	5	0	2	1	3	1	8	1	6	0	2	2	2	0	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:75515816C>T	uc001xrd.1	-	2	759	c.543G>A	c.(541-543)ATG>ATA	p.M181I	MLH3_uc001xre.1_Missense_Mutation_p.M181I|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	181					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		TGGAAGGGTGCATGAGTGAGA	0.413								MMR					4	54					0	0	1	0	0		T	75515816	T	T	75515816	3	4	27	1	0	0	0	0	1	0	0	0	9636	710	25	2	3866	2	MLH3	14	75515816	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1893	75515816	31833724	6037	28388											
FLVCR2	55640	broad.mit.edu	37	chr14	76107378	76107378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agaatcagaaggcatctcctCcggcctcctcaacatatctg	11	9	7	14	1	4	2	2	0	2	2	7	2	6	2	4	2	1	1	4	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:76107378C>T	uc001xrs.2	+	7	1692	c.1316C>T	c.(1315-1317)TCC>TTC	p.S439F	FLVCR2_uc010tvd.1_Missense_Mutation_p.S234F	NM_017791	NP_060261	Q9UPI3	FLVC2_HUMAN	feline leukemia virus subgroup C cellular	439	Helical; (Potential).			S -> F (in Ref. 3; BAA91126).	transmembrane transport	integral to membrane|plasma membrane	heme binding|heme transporter activity				0				BRCA - Breast invasive adenocarcinoma(234;0.029)		GGCATCTCCTCCGGCCTCCTC	0.502													25	102					0	0	1	0	0		T	76107378	T	T	76107378	3	4	27	1	0	0	0	0	1	0	0	0	5960	855	30	4	1342	4	FLVCR2	14	76107378	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	591562	76107378	31242162	6038	28389											
TGFB3	7043	broad.mit.edu	37	chr14	76429788	76429788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccttctgcttcttgaggCgccccagatctccacggcca	6	10	9	16	2	3	2	0	1	3	1	5	3	4	2	5	2	1	1	5	2	0	3	rs142069844		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:76429788C>T	uc001xsc.2	-	5	1653	c.797G>A	c.(796-798)CGC>CAC	p.R266H	TGFB3_uc001xsd.2_Missense_Mutation_p.R264H	NM_003239	NP_003230	P10600	TGFB3_HUMAN	transforming growth factor, beta 3 precursor	266					cell growth|cell-cell junction organization|detection of hypoxia|face morphogenesis|in utero embryonic development|induction of apoptosis|lung alveolus development|mammary gland development|menstrual cycle phase|negative regulation of cell proliferation|negative regulation of DNA replication|negative regulation of macrophage cytokine production|negative regulation of neuron apoptosis|odontogenesis|ossification involved in bone remodeling|palate development|platelet activation|platelet degranulation|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of collagen biosynthetic process|positive regulation of DNA replication|positive regulation of epithelial to mesenchymal transition|positive regulation of filopodium assembly|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|positive regulation of transcription from RNA polymerase II promoter|response to progesterone stimulus|salivary gland morphogenesis|transforming growth factor beta receptor signaling pathway	extracellular matrix|platelet alpha granule lumen	growth factor activity|identical protein binding|transforming growth factor beta binding|type I transforming growth factor beta receptor binding|type II transforming growth factor beta receptor binding			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0169)		CTTCTTGAGGCGCCCCAGATC	0.567													12	122					0	0	1	0	0		T	76429788	T	T	76429788	3	4	27	1	0	0	0	0	1	0	0	0	15844	768	27	1	453	1	TGFB3	14	76429788	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	322410	76429788	30919752	6039	28390											
TGFB3	7043	broad.mit.edu	37	chr14	76437504	76437504	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacgcacagtgtcagtgAcatcaaaggacagccactcg	13	6	9	13	2	3	1	3	1	0	0	4	2	3	2	1	1	1	1	1	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:76437504A>T	uc001xsc.2	-	3	1467	c.611T>A	c.(610-612)GTC>GAC	p.V204D	TGFB3_uc001xsd.2_Missense_Mutation_p.V202D	NM_003239	NP_003230	P10600	TGFB3_HUMAN	transforming growth factor, beta 3 precursor	204					cell growth|cell-cell junction organization|detection of hypoxia|face morphogenesis|in utero embryonic development|induction of apoptosis|lung alveolus development|mammary gland development|menstrual cycle phase|negative regulation of cell proliferation|negative regulation of DNA replication|negative regulation of macrophage cytokine production|negative regulation of neuron apoptosis|odontogenesis|ossification involved in bone remodeling|palate development|platelet activation|platelet degranulation|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of collagen biosynthetic process|positive regulation of DNA replication|positive regulation of epithelial to mesenchymal transition|positive regulation of filopodium assembly|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|positive regulation of transcription from RNA polymerase II promoter|response to progesterone stimulus|salivary gland morphogenesis|transforming growth factor beta receptor signaling pathway	extracellular matrix|platelet alpha granule lumen	growth factor activity|identical protein binding|transforming growth factor beta binding|type I transforming growth factor beta receptor binding|type II transforming growth factor beta receptor binding			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0169)		AGTGTCAGTGACATCAAAGGA	0.522													11	110					0	0	1	0	0		T	76437504	T	T	76437504	3	4	27	1	0	0	0	0	1	0	0	0	15844	275	10	5	647	5	TGFB3	14	76437504	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	7716	76437504	30912036	6040	28391											
ANGEL1	23357	broad.mit.edu	37	chr14	77273842	77273842	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggacttcctggagacacaGgatctgggaaattgacaaga	13	8	12	8	0	1	3	0	1	1	2	2	7	2	6	1	4	0	0	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:77273842G>T	uc001xsv.2	-	4	993	c.880C>A	c.(880-882)CTG>ATG	p.L294M	ANGEL1_uc010tvf.1_Intron	NM_015305	NP_056120	Q9UNK9	ANGE1_HUMAN	angel homolog 1	294										ovary(2)|central_nervous_system(1)|skin(1)	4			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0285)		TGGAGACACAGGATCTGGGAA	0.552													4	30					0.150653	0.151846	1	1	0		T	77273842	T	T	77273842	3	4	27	1	0	0	0	0	1	0	0	0	608	991	35	5	1160	5	ANGEL1	14	77273842	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	836338	77273842	30075698	6041	28392											
C14orf4	64207	broad.mit.edu	37	chr14	77492964	77492964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgagtggtccttcttgaagCgaacctcgtagggcgtgcag	7	9	15	10	4	1	1	0	1	1	0	3	3	2	1	2	2	3	2	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:77492964C>T	uc001xsy.2	-	1	2071	c.1172G>A	c.(1171-1173)CGC>CAC	p.R391H		NM_024496	NP_078772	Q9H1B7	I2BPL_HUMAN	chromosome 14 open reading frame 4	391						nucleus					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.00347)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)		CTTCTTGAAGCGAACCTCGTA	0.637													4	35					0	0	1	0	0		T	77492964	T	T	77492964	3	4	27	1	0	0	0	0	1	0	0	0	1776	768	27	1	1222	1	C14orf4	14	77492964	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	219122	77492964	29856576	6042	28393											
TMEM63C	57156	broad.mit.edu	37	chr14	77715740	77715740	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacatggctgccgtctcccaGgccatctttgcgccactctt	5	11	8	17	2	3	0	0	0	3	0	4	0	3	0	4	2	2	1	4	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:77715740G>T	uc001xtf.2	+	21	2189	c.1977G>T	c.(1975-1977)CAG>CAT	p.Q659H	TMEM63C_uc010asq.1_Missense_Mutation_p.Q659H	NM_020431	NP_065164	Q9P1W3	TM63C_HUMAN	transmembrane protein 63C	659	Helical; (Potential).					integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0342)		CCGTCTCCCAGGCCATCTTTG	0.552													8	71					0.00307968	0.00318367	1	1	0		T	77715740	T	T	77715740	3	4	27	1	0	0	0	0	1	0	0	0	16217	991	35	5	2051	5	TMEM63C	14	77715740	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	222776	77715740	29633800	6043	28394											
GSTZ1	2954	broad.mit.edu	37	chr14	77794333	77794333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaaagaagagggccagcGtgcgtatgatttctgacctc	11	8	11	11	2	1	4	0	2	1	2	2	4	1	4	3	1	2	1	3	1	3	2	rs140540096	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:77794333G>A	uc001xtj.2	+	5	577	c.295G>A	c.(295-297)GTG>ATG	p.V99M	GSTZ1_uc001xtk.2_Intron|GSTZ1_uc010ass.2_Missense_Mutation_p.V44M|GSTZ1_uc001xtm.2_Missense_Mutation_p.V44M	NM_145870	NP_665877	O43708	MAAI_HUMAN	glutathione transferase zeta 1 isoform 1	99	GST C-terminal.				glutathione metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol|mitochondrion	glutathione peroxidase activity|glutathione transferase activity|maleylacetoacetate isomerase activity|protein homodimerization activity				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)	Glutathione(DB00143)	GAGGGCCAGCGTGCGTATGAT	0.567													3	31					0	0	1	0	0		A	77794333	A	A	77794333	3	1	27	1	0	0	0	0	1	0	0	0	6864	1145	40	1	313	1	GSTZ1	14	77794333	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	78593	77794333	29555207	6044	28395											
GSTZ1	2954	broad.mit.edu	37	chr14	77797487	77797487	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcttggaggccttccaGgtgtctcacccctgccggca	4	10	12	15	1	2	0	1	0	2	0	4	1	3	1	5	5	1	1	5	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:77797487G>T	uc001xtj.2	+	9	882	c.600G>T	c.(598-600)CAG>CAT	p.Q200H	GSTZ1_uc001xtk.2_Missense_Mutation_p.Q158H|GSTZ1_uc010ass.2_Missense_Mutation_p.Q145H|GSTZ1_uc001xtm.2_Missense_Mutation_p.Q145H	NM_145870	NP_665877	O43708	MAAI_HUMAN	glutathione transferase zeta 1 isoform 1	200	GST C-terminal.				glutathione metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol|mitochondrion	glutathione peroxidase activity|glutathione transferase activity|maleylacetoacetate isomerase activity|protein homodimerization activity				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)	Glutathione(DB00143)	AGGCCTTCCAGGTGTCTCACC	0.587													6	71					1.12685e-05	1.21022e-05	1	1	0		T	77797487	T	T	77797487	3	4	27	1	0	0	0	0	1	0	0	0	6864	991	35	5	634	5	GSTZ1	14	77797487	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3154	77797487	29552053	6045	28396											
ISM2	145501	broad.mit.edu	37	chr14	77942198	77942198	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgctgggcggccagtgTgctgctctccccagacagca	6	7	14	14	1	1	1	0	0	1	1	2	1	1	1	3	2	4	5	3	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:77942198T>C	uc001xtz.2	-	7	1530	c.1456A>G	c.(1456-1458)ACA>GCA	p.T486A	ISM2_uc001xua.2_3'UTR|ISM2_uc001xty.2_Missense_Mutation_p.T398A|ISM2_uc010tvl.1_Missense_Mutation_p.T405A	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	486	AMOP.					extracellular region				skin(1)	1						GCGGCCAGTGTGCTGCTCTCC	0.672													5	31					0	0	1	0	0		C	77942198	C	C	77942198	3	2	27	1	0	0	0	0	1	0	0	0	7877	1696	59	3	263	3	ISM2	14	77942198	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	144711	77942198	29407342	6046	28397											
ADCK1	57143	broad.mit.edu	37	chr14	78285417	78285417	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaagtacttggaccctaaTgactttggcgctgtcagggt	10	11	11	9	1	1	1	1	1	0	0	1	2	1	2	1	3	2	2	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:78285417T>C	uc001xui.2	+	2	195	c.96T>C	c.(94-96)AAT>AAC	p.N32N	ADCK1_uc010tvo.1_RNA|ADCK1_uc001xuj.2_Silent_p.N32N	NM_020421	NP_065154	Q86TW2	ADCK1_HUMAN	aarF domain containing kinase 1 isoform a	32						extracellular region	ATP binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)	3			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0376)		TGGACCCTAATGACTTTGGCG	0.522													10	100					0	0	1	0	0		C	78285417	C	C	78285417	2	2	27	1	0	0	0	0	0	0	0	1	288	1461	51	3		3	ADCK1	14	78285417	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	343219	78285417	29064123	6047	28398											
DIO2	1734	broad.mit.edu	37	chr14	80677662	80677662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaggtcagcatgcgccGccactctccgcgagtggact	6	8	12	15	4	3	1	1	1	2	0	4	3	3	2	3	2	2	1	3	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:80677662G>A	uc010tvq.1	-	2	556	c.154C>T	c.(154-156)CGG>TGG	p.R52W	uc001xuw.1_5'Flank|DIO2_uc010tvp.1_Missense_Mutation_p.R52W|DIO2_uc001xut.2_RNA|DIO2_uc010asx.2_Missense_Mutation_p.R52W|DIO2_uc010tvr.1_Missense_Mutation_p.R52W|DIO2_uc010asy.2_Missense_Mutation_p.R52W	NM_000793	NP_000784	Q92813	IOD2_HUMAN	deiodinase, iodothyronine, type II isoform a	52					hormone biosynthetic process|selenocysteine incorporation|thyroid hormone generation	integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|ubiquitin protein ligase binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0281)		AGCATGCGCCGCCACTCTCCG	0.587													4	23					0	0	1	0	0		A	80677662	A	A	80677662	3	1	27	1	0	0	0	0	1	0	0	0	4531	1086	38	1	787	1	DIO2	14	80677662	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2392245	80677662	26671878	6048	28399											
C14orf145	145508	broad.mit.edu	37	chr14	81259148	81259148	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaacagtttcagattgttTctccaacgctcgttctaact	10	15	5	11	2	4	1	2	0	2	1	6	1	4	1	1	0	3	4	1	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:81259148T>A	uc001xux.2	-	13	1687	c.1516A>T	c.(1516-1518)AAA>TAA	p.K506*	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	506	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TCAGATTGTTTCTCCAACGCT	0.418													7	159					0	0	1	0	0		A	81259148	A	A	81259148	4	1	27	1	0	0	0	0	0	1	0	0	1752	1792	62	5	1816	5	C14orf145	14	81259148	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	581486	81259148	26090392	6049	28400											
TSHR	7253	broad.mit.edu	37	chr14	81574744	81574744	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacaagaataaatacctgAcagttattgacaaagatgca	20	9	6	6	0	0	4	0	2	0	2	0	4	0	4	1	0	3	2	1	0	9	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:81574744A>G	uc001xvd.1	+	8	796	c.640A>G	c.(640-642)ACA>GCA	p.T214A	TSHR_uc001xvb.1_Missense_Mutation_p.T214A|TSHR_uc001xvc.2_Missense_Mutation_p.T214A|TSHR_uc010tvs.1_Missense_Mutation_p.T214A	NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	214	Extracellular (Potential).|LRR 5.				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	TAAATACCTGACAGTTATTGA	0.244			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						21	83					0	0	1	0	0		G	81574744	G	G	81574744	3	3	27	1	0	0	0	0	1	0	0	0	16648	275	10	3	670	3	TSHR	14	81574744	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	315596	81574744	25774796	6050	28401											
GTF2A1	2957	broad.mit.edu	37	chr14	81662516	81662516	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtataacctgttgttgtagaAccactgactgctgaggctga	10	12	11	8	0	0	4	0	3	0	1	0	4	0	4	2	1	3	6	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:81662516A>G	uc001xvf.1	-	6	980	c.548T>C	c.(547-549)GTT>GCT	p.V183A	GTF2A1_uc010atb.1_Missense_Mutation_p.V133A|GTF2A1_uc001xvg.1_Missense_Mutation_p.V144A	NM_015859	NP_056943	P52655	TF2AA_HUMAN	TFIIA alpha, p55 isoform 1	183					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|transcription factor TFIIA complex	DNA binding|protein binding|protein heterodimerization activity|TBP-class protein binding|transcription coactivator activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0287)		TTGTTGTAGAACCACTGACTG	0.443													5	100					0	0	1	0	0		G	81662516	G	G	81662516	3	3	27	1	0	0	0	0	1	0	0	0	6868	43	2	3	598	3	GTF2A1	14	81662516	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	87772	81662516	25687024	6051	28402											
SEL1L	6400	broad.mit.edu	37	chr14	81943446	81943446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgactgttcccaacagcagcGcaatgatggtcatgaggtaa	12	9	11	9	1	1	3	1	3	0	0	2	3	2	3	1	2	3	4	1	2	3	2	rs141918133		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:81943446G>A	uc010tvv.1	-	21	2372	c.2255C>T	c.(2254-2256)GCG>GTG	p.A752V		NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	752	Mediates retention to the endoplasmic reticulum.|Helical; (Potential).				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		CAACAGCAGCGCAATGATGGT	0.512													10	40					0	0	1	0	0		A	81943446	A	A	81943446	3	1	27	1	0	0	0	0	1	0	0	0	14035	1087	38	1	133	1	SEL1L	14	81943446	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	280930	81943446	25406094	6052	28403											
SEL1L	6400	broad.mit.edu	37	chr14	81993276	81993276	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actctgcctgcagtagtatgGtcctttactgactcatctga	8	14	8	11	0	3	2	1	2	2	0	4	2	4	2	2	1	3	3	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:81993276G>A	uc010tvv.1	-	3	258	c.141C>T	c.(139-141)GAC>GAT	p.D47D	SEL1L_uc001xvo.3_Silent_p.D47D	NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	47	Lumenal (Potential).|Interaction with ERLEC1, OS9 and SYVN1.				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		CAGTAGTATGGTCCTTTACTG	0.373													6	81					0	0	1	0	0		A	81993276	A	A	81993276	2	1	27	1	0	0	0	0	0	0	0	1	14035	1252	44	4		4	SEL1L	14	81993276	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	49830	81993276	25356264	6053	28404											
FLRT2	23768	broad.mit.edu	37	chr14	86088684	86088684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacagccttctcaaatctgCgtaagctggaacggctggat	10	10	11	10	2	2	1	1	1	2	0	3	3	2	3	1	3	4	3	1	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:86088684C>T	uc001xvr.2	+	2	1593	c.826C>T	c.(826-828)CGT>TGT	p.R276C	FLRT2_uc010atd.2_Missense_Mutation_p.R276C	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	276	Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		CTCAAATCTGCGTAAGCTGGA	0.502													47	161					0	0	1	0	0		T	86088684	T	T	86088684	3	4	27	1	0	0	0	0	1	0	0	0	5953	768	27	1	828	1	FLRT2	14	86088684	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4095408	86088684	21260856	6054	28405											
FLRT2	23768	broad.mit.edu	37	chr14	86089822	86089822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacagcagcgtgccagaccTggagcactgccatacgtgac	11	5	11	14	2	0	2	0	1	0	1	0	3	0	3	3	1	7	2	3	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:86089822T>C	uc001xvr.2	+	2	2731	c.1964T>C	c.(1963-1965)CTG>CCG	p.L655P	FLRT2_uc010atd.2_Missense_Mutation_p.L655P	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	655	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GTGCCAGACCTGGAGCACTGC	0.512													20	170					0	0	1	0	0		C	86089822	C	C	86089822	3	2	27	1	0	0	0	0	1	0	0	0	5953	1580	55	3	1966	3	FLRT2	14	86089822	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1138	86089822	21259718	6055	28406											
GPR65	8477	broad.mit.edu	37	chr14	88477471	88477471	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagggagtgcttttctcAtgtacatgaatttttacagc	11	14	9	7	0	1	1	1	1	1	0	2	2	1	2	0	1	4	3	0	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:88477471A>G	uc001xvv.2	+	2	810	c.280A>G	c.(280-282)ATG>GTG	p.M94V		NM_003608	NP_003599	Q8IYL9	PSYR_HUMAN	G protein-coupled receptor 65	94	Helical; Name=3; (Potential).				actin cytoskeleton reorganization|activation of Rho GTPase activity|apoptosis|immune response|multicellular organismal development|positive regulation of cAMP biosynthetic process|positive regulation of stress fiber assembly|response to acidity	integral to plasma membrane	G-protein coupled receptor activity				0						TGCTTTTCTCATGTACATGAA	0.408													5	203					0	0	1	0	0		G	88477471	G	G	88477471	3	3	27	1	0	0	0	0	1	0	0	0	6721	217	8	3	282	3	GPR65	14	88477471	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2387649	88477471	18872069	6056	28407											
EML5	161436	broad.mit.edu	37	chr14	89123818	89123818	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggtgtaactgatttcAttctcccttgtaacatcact	9	16	6	10	0	3	2	2	2	1	0	4	2	3	2	1	1	2	2	1	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:89123818A>G	uc001xxg.2	-	28	4092	c.3906T>C	c.(3904-3906)AAT>AAC	p.N1302N	EML5_uc001xxf.2_Silent_p.N97N|EML5_uc001xxh.1_Silent_p.N441N	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	1302						cytoplasm|microtubule				ovary(3)	3						AACTGATTTCATTCTCCCTTG	0.313													3	34					0	0	1	0	0		G	89123818	G	G	89123818	2	3	27	1	0	0	0	0	0	0	0	1	5108	214	8	3		3	EML5	14	89123818	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	646347	89123818	18225722	6057	28408											
EML5	161436	broad.mit.edu	37	chr14	89171305	89171305	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgttctttaagctgaggTagatcttctttgtaaacctt	9	17	7	8	0	3	2	0	1	3	1	3	2	3	2	1	1	2	4	1	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:89171305T>C	uc001xxg.2	-	14	2136	c.1950A>G	c.(1948-1950)CTA>CTG	p.L650L	EML5_uc001xxh.1_5'UTR	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	650						cytoplasm|microtubule				ovary(3)	3						TAAGCTGAGGTAGATCTTCTT	0.328													4	77					0	0	1	0	0		C	89171305	C	C	89171305	2	2	27	1	0	0	0	0	0	0	0	1	5108	1625	57	3		3	EML5	14	89171305	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47487	89171305	18178235	6058	28409											
EML5	161436	broad.mit.edu	37	chr14	89206880	89206880	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtcttaccaaagacacctcGttttggggtcagagcatttc	9	12	9	11	2	2	2	1	0	1	2	4	2	2	2	2	2	2	2	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:89206880G>A	uc001xxg.2	-	6	748	c.562C>T	c.(562-564)CGA>TGA	p.R188*		NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	188						cytoplasm|microtubule				ovary(3)	3						AAGACACCTCGTTTTGGGGTC	0.373													19	140					0	0	1	0	0		A	89206880	A	A	89206880	4	1	27	1	0	0	0	0	0	1	0	0	5108	1153	40	1	5527	1	EML5	14	89206880	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	35575	89206880	18142660	6059	28410											
TTC8	123016	broad.mit.edu	37	chr14	89338740	89338740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcaacaacaacaaccacGccgaggcctacaacaacctg	15	4	7	15	2	1	0	1	0	0	0	1	1	1	0	4	2	7	0	4	2	7	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:89338740G>A	uc010ath.2	+	13	1473	c.1339G>A	c.(1339-1341)GCC>ACC	p.A447T	TTC8_uc001xxl.2_Missense_Mutation_p.A192T|TTC8_uc010ati.2_Missense_Mutation_p.A233T|TTC8_uc001xxm.2_Missense_Mutation_p.A391T|TTC8_uc010atj.2_Missense_Mutation_p.A166T|TTC8_uc001xxi.2_Missense_Mutation_p.A431T|TTC8_uc001xxj.2_Missense_Mutation_p.A421T|TTC8_uc001xxk.2_Missense_Mutation_p.A391T	NM_198309	NP_938051	Q8TAM2	TTC8_HUMAN	tetratricopeptide repeat domain 8 isoform B	457	TPR 8.				cilium assembly|establishment of anatomical structure orientation|sensory processing	BBSome|centrosome|cilium membrane|microtubule basal body	protein binding				0						CAACAACCACGCCGAGGCCTA	0.532									Bardet-Biedl_syndrome				21	66					0	0	1	0	0		A	89338740	A	A	89338740	3	1	27	1	0	0	0	0	1	0	0	0	16740	1087	38	1	1341	1	TTC8	14	89338740	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	131860	89338740	18010800	6060	28411											
TDP1	55775	broad.mit.edu	37	chr14	90442125	90442125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgacttctttttcatcctagGcaaagttggatattgcgttt	8	18	8	7	1	2	1	1	1	1	0	3	2	3	2	1	2	1	3	1	2	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:90442125G>A	uc001xxy.2	+	7	1056	c.757G>A	c.(757-759)GCA>ACA	p.A253T	TDP1_uc010atm.2_RNA|TDP1_uc001xxz.2_Missense_Mutation_p.A253T|TDP1_uc010atn.2_Missense_Mutation_p.A253T|TDP1_uc001xya.2_Intron|TDP1_uc001xyb.2_RNA|TDP1_uc010ato.2_Missense_Mutation_p.A253T	NM_018319	NP_060789	Q9NUW8	TYDP1_HUMAN	tyrosyl-DNA phosphodiesterase 1	253					cell death|double-strand break repair|single strand break repair	cytoplasm|nucleus	3'-tyrosyl-DNA phosphodiesterase activity|double-stranded DNA binding|exonuclease activity|protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(154;0.185)		COAD - Colon adenocarcinoma(157;0.23)		TTCATCCTAGGCAAAGTTGGA	0.343								Repair_of_DNA-protein_crosslinks					11	133					0	0	1	0	0		A	90442125	A	A	90442125	3	1	27	1	0	0	0	0	1	0	0	0	15753	1217	42	2	775	2	TDP1	14	90442125	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1103385	90442125	16907415	6061	28412											
PSMC1	5700	broad.mit.edu	37	chr14	90734649	90734649	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctctgaacttattcagaAgtacctaggtgatgggccca	10	11	11	9	0	2	3	1	2	1	1	2	3	2	3	2	3	2	2	2	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:90734649A>G	uc001xyf.2	+	8	821	c.773A>G	c.(772-774)AAG>AGG	p.K258R	PSMC1_uc001xyg.2_Missense_Mutation_p.K185R|PSMC1_uc001xyh.2_Missense_Mutation_p.K185R|PSMC1_uc010twh.1_Missense_Mutation_p.K185R	NM_002802	NP_002793	P62191	PRS4_HUMAN	proteasome 26S ATPase subunit 1	258					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0		all_cancers(154;0.142)		COAD - Colon adenocarcinoma(157;0.21)		CTTATTCAGAAGTACCTAGGT	0.443													5	42					0	0	1	0	0		G	90734649	G	G	90734649	3	3	27	1	0	0	0	0	1	0	0	0	12707	72	3	3	803	3	PSMC1	14	90734649	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	292524	90734649	16614891	6062	28413											
C14orf102	55051	broad.mit.edu	37	chr14	90754929	90754929	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactgttcagttttgcaaaCacctgttcgtatatctgcac	10	14	7	10	1	2	0	1	0	1	0	3	1	2	0	1	0	4	6	1	0	4	6	rs142936620	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:90754929C>T	uc001xyi.1	-	11	2821	c.2790G>A	c.(2788-2790)GTG>GTA	p.V930V	C14orf102_uc010atp.1_Silent_p.V435V|C14orf102_uc001xyj.1_Silent_p.V699V|C14orf102_uc001xyk.1_Silent_p.V122V	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	930							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		GTTTTGCAAACACCTGTTCGT	0.502													8	69					0	0	1	0	0		T	90754929	T	T	90754929	2	4	27	1	0	0	0	0	0	0	0	1	1738	465	17	4		4	C14orf102	14	90754929	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20280	90754929	16594611	6063	28414											
TTC7B	145567	broad.mit.edu	37	chr14	91211165	91211165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttggagatacaggagtgCgatgtcccctgctttctcat	7	13	10	11	1	2	1	1	0	2	1	4	4	3	2	2	2	3	1	2	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:91211165C>T	uc001xyp.2	-	4	669	c.547G>A	c.(547-549)GCA>ACA	p.A183T		NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	183							binding			ovary(2)	2		Melanoma(154;0.222)				TACAGGAGTGCGATGTCCCCT	0.438													19	105					0	0	1	0	0		T	91211165	T	T	91211165	3	4	27	1	0	0	0	0	1	0	0	0	16739	768	27	1	2052	1	TTC7B	14	91211165	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	456236	91211165	16138375	6064	28415											
TTC7B	145567	broad.mit.edu	37	chr14	91247091	91247091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgggcctcacctttggtagCgtaggcttctgcgatcaccc	6	10	11	14	3	3	0	2	0	1	0	3	1	3	0	3	3	2	3	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:91247091C>T	uc001xyp.2	-	3	558	c.436G>A	c.(436-438)GCT>ACT	p.A146T		NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	146							binding			ovary(2)	2		Melanoma(154;0.222)				CCTTTGGTAGCGTAGGCTTCT	0.597													18	79					0	0	1	0	0		T	91247091	T	T	91247091	3	4	27	1	0	0	0	0	1	0	0	0	16739	768	27	1	2167	1	TTC7B	14	91247091	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	35926	91247091	16102449	6065	28416											
C14orf159	80017	broad.mit.edu	37	chr14	91639673	91639673	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgctggcttctgctgccCtctggtggtcacgatgaggc	4	11	13	13	1	3	1	1	1	2	0	3	2	3	1	2	4	3	3	2	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:91639673C>A	uc001xzb.2	+	8	1250	c.482C>A	c.(481-483)CCT>CAT	p.P161H	C14orf159_uc010atv.1_RNA|C14orf159_uc001xyy.2_Missense_Mutation_p.P166H|C14orf159_uc001xyx.2_Missense_Mutation_p.P161H|C14orf159_uc001xyw.2_Missense_Mutation_p.P166H|C14orf159_uc001xzc.2_Missense_Mutation_p.P161H|C14orf159_uc001xza.2_Missense_Mutation_p.P166H|C14orf159_uc001xyv.2_Missense_Mutation_p.P166H|C14orf159_uc001xyz.2_Missense_Mutation_p.P37H|C14orf159_uc001xze.2_Missense_Mutation_p.P161H	NM_001102366	NP_001095836	Q7Z3D6	CN159_HUMAN	hypothetical protein LOC80017 isoform a	161						mitochondrion				central_nervous_system(2)|ovary(1)	3		all_cancers(154;0.0191)|all_epithelial(191;0.241)		Epithelial(152;0.141)|OV - Ovarian serous cystadenocarcinoma(161;0.207)		TTCTGCTGCCCTCTGGTGGTC	0.507											OREG0022869	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	94					0.0215528	0.0219246	1	1	0		A	91639673	A	A	91639673	3	1	27	1	0	0	0	0	1	0	0	0	1758	681	24	5	511	5	C14orf159	14	91639673	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	392582	91639673	15709867	6066	28417											
GPR68	8111	broad.mit.edu	37	chr14	91701388	91701388	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagttgtctgcagtgatgtTccccatctttgggcctgaag	6	13	13	9	0	2	2	0	2	2	0	3	3	3	3	3	2	1	3	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:91701388T>A	uc001xzg.2	-	2	348	c.7A>T	c.(7-9)AAC>TAC	p.N3Y	GPR68_uc001xzh.2_Missense_Mutation_p.N13Y	NM_003485	NP_003476	Q15743	OGR1_HUMAN	G protein-coupled receptor 68	3	Extracellular (Potential).				inflammatory response	integral to plasma membrane	G-protein coupled receptor activity			kidney(1)	1		all_cancers(154;0.0555)		COAD - Colon adenocarcinoma(157;0.21)		GCAGTGATGTTCCCCATCTTT	0.572													8	57					0	0	1	0	0		A	91701388	A	A	91701388	3	1	27	1	0	0	0	0	1	0	0	0	6722	1783	62	5	1094	5	GPR68	14	91701388	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	61715	91701388	15648152	6067	28418											
CCDC88C	440193	broad.mit.edu	37	chr14	91804375	91804375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggccttgtagaagtccaCgtcgtgcagcttctccttgc	5	11	12	13	3	1	1	0	0	1	1	4	1	2	1	3	1	3	3	3	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:91804375C>T	uc010aty.2	-	10	1123	c.1024G>A	c.(1024-1026)GTG>ATG	p.V342M		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	342	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				TAGAAGTCCACGTCGTGCAGC	0.607													8	39					0	0	1	0	0		T	91804375	T	T	91804375	3	4	27	1	0	0	0	0	1	0	0	0	2868	536	19	1	5146	1	CCDC88C	14	91804375	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	102987	91804375	15545165	6068	28419											
CATSPERB	79820	broad.mit.edu	37	chr14	92102891	92102891	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctaaggaggtgtgctgtggGgcaagcgcagtctcaaagcc	9	8	15	9	1	2	0	1	0	2	0	3	1	2	1	1	4	3	3	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:92102891G>T	uc001xzs.1	-	17	1760	c.1620C>A	c.(1618-1620)GCC>GCA	p.A540A	CATSPERB_uc010aub.1_Silent_p.A62A	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	540					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane		p.A540G(1)		breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				TGTGCTGTGGGGCAAGCGCAG	0.378													7	35					0.00198382	0.00205548	1	1	0		T	92102891	T	T	92102891	2	4	27	1	0	0	0	0	0	0	0	1	2694	1219	43	5		5	CATSPERB	14	92102891	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	298516	92102891	15246649	6069	28420											
TC2N	123036	broad.mit.edu	37	chr14	92258726	92258726	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacagaaatttttgaaggTggtgttatatccaaagagta	14	14	9	4	0	0	3	0	1	0	2	1	3	1	3	1	2	1	2	1	2	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:92258726T>C	uc001xzu.3	-	9	1223	c.1032A>G	c.(1030-1032)CCA>CCG	p.P344P	TC2N_uc001xzt.3_Silent_p.P344P|TC2N_uc010auc.2_Intron|TC2N_uc001xzv.3_Silent_p.P344P	NM_001128595	NP_001122067	Q8N9U0	TAC2N_HUMAN	tandem C2 domains, nuclear	344						nucleus				upper_aerodigestive_tract(1)	1				COAD - Colon adenocarcinoma(157;0.218)		TTTTTGAAGGTGGTGTTATAT	0.373													7	141					0	0	1	0	0		C	92258726	C	C	92258726	2	2	27	1	0	0	0	0	0	0	0	1	15690	1683	59	3		3	TC2N	14	92258726	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	155835	92258726	15090814	6070	28421											
FBLN5	10516	broad.mit.edu	37	chr14	92353637	92353637	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttgcacgcaggggttctcGgtggcacactcgttcacatc	6	11	12	12	3	2	0	1	0	1	0	5	0	2	0	0	4	1	6	0	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:92353637G>A	uc001xzx.3	-	7	1112	c.639C>T	c.(637-639)ACC>ACT	p.T213T	FBLN5_uc010aud.2_Silent_p.T218T|FBLN5_uc010aue.2_Silent_p.T254T	NM_006329	NP_006320	Q9UBX5	FBLN5_HUMAN	fibulin 5 precursor	213	EGF-like 4; calcium-binding (Potential).				cell-matrix adhesion|elastic fiber assembly|protein localization at cell surface|regulation of removal of superoxide radicals	extracellular space|proteinaceous extracellular matrix|soluble fraction	calcium ion binding|integrin binding|protein C-terminus binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		all_cancers(154;0.0722)				AGGGGTTCTCGGTGGCACACT	0.527													21	104					0	0	1	0	0		A	92353637	A	A	92353637	2	1	27	1	0	0	0	0	0	0	0	1	5714	1103	39	1		1	FBLN5	14	92353637	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	94911	92353637	14995903	6071	28422											
TRIP11	9321	broad.mit.edu	37	chr14	92471782	92471782	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggtctttttcctctatggtCtgtcttaaaatttcattttt	6	22	5	8	1	5	0	1	0	4	0	6	0	6	0	1	2	0	0	1	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:92471782C>T	uc001xzy.2	-	11	3326	c.2538G>A	c.(2536-2538)CAG>CAA	p.Q846Q	TRIP11_uc010auf.1_Silent_p.Q582Q	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	846	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		CCTCTATGGTCTGTCTTAAAA	0.363			T	PDGFRB	AML								5	77					0	0	1	0	0		T	92471782	T	T	92471782	2	4	27	1	0	0	0	0	0	0	0	1	16581	912	32	4		4	TRIP11	14	92471782	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	118145	92471782	14877758	6072	28423											
NDUFB1	4707	broad.mit.edu	37	chr14	92583937	92583937	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaatcccatagggacaagAacatgaacccagtggtcccg	15	5	9	12	1	0	2	0	1	0	1	2	3	2	3	3	2	2	0	3	2	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:92583937A>C	uc001yaf.2	-	2	218	c.186T>G	c.(184-186)GTT>GTG	p.V62V		NM_004545	NP_004536	O75438	NDUB1_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	15	Helical; (Potential).				mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0		all_cancers(154;0.0766)		COAD - Colon adenocarcinoma(157;0.205)	NADH(DB00157)	TAGGGACAAGAACATGAACCC	0.358													14	46					0	0	1	0	0		C	92583937	C	C	92583937	2	2	27	1	0	0	0	0	0	0	0	1	10297	233	9	5		5	NDUFB1	14	92583937	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	112155	92583937	14765603	6073	28424											
RIN3	79890	broad.mit.edu	37	chr14	93043784	93043784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctctgaacgaaagctcggCcgaggtgctcgaatacacca	11	8	10	12	4	1	1	0	1	1	0	4	4	1	1	2	2	4	2	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:93043784C>T	uc001yap.2	+	3	481	c.329C>T	c.(328-330)GCC>GTC	p.A110V	RIN3_uc010auk.2_5'UTR|RIN3_uc001yaq.2_Missense_Mutation_p.A35V	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	110	SH2.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				GAAAGCTCGGCCGAGGTGCTC	0.527													33	112					0	0	1	0	0		T	93043784	T	T	93043784	3	4	27	1	0	0	0	0	1	0	0	0	13398	739	26	2	339	2	RIN3	14	93043784	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	459847	93043784	14305756	6074	28425											
RIN3	79890	broad.mit.edu	37	chr14	93154499	93154499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgcgcagcgagcccaagCgcgacttccactttgtctac	7	9	10	15	4	1	0	0	0	1	0	2	2	2	0	2	0	6	2	2	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:93154499C>T	uc001yap.2	+	10	3012	c.2860C>T	c.(2860-2862)CGC>TGC	p.R954C	RIN3_uc010auk.2_Missense_Mutation_p.R616C|RIN3_uc001yaq.2_Missense_Mutation_p.R879C	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	954	Ras-associating.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				CGAGCCCAAGCGCGACTTCCA	0.716													5	22					0	0	1	0	0		T	93154499	T	T	93154499	3	4	27	1	0	0	0	0	1	0	0	0	13398	768	27	1	2898	1	RIN3	14	93154499	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	110715	93154499	14195041	6075	28426											
LGMN	5641	broad.mit.edu	37	chr14	93176081	93176081	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatcattggtgttcatcAgtttccttttcatgatggtg	7	17	9	8	0	4	2	4	1	0	1	5	2	5	2	2	2	0	2	2	2	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:93176081A>G	uc001yav.2	-	12	1282	c.956T>C	c.(955-957)CTG>CCG	p.L319P	LGMN_uc001yat.2_Missense_Mutation_p.L319P|LGMN_uc001yau.2_Missense_Mutation_p.L319P|LGMN_uc001yaw.2_Missense_Mutation_p.L319P|LGMN_uc010aul.2_Missense_Mutation_p.L200P|LGMN_uc001yax.2_Missense_Mutation_p.L319P|LGMN_uc001yay.2_Missense_Mutation_p.L319P	NM_001008530	NP_001008530	Q99538	LGMN_HUMAN	legumain preproprotein	319					hormone biosynthetic process|negative regulation of neuron apoptosis|vitamin D metabolic process	lysosome	cysteine-type endopeptidase activity|protein serine/threonine kinase activity			skin(1)	1		all_cancers(154;0.0706)		COAD - Colon adenocarcinoma(157;0.224)		GGTGTTCATCAGTTTCCTTTT	0.557													13	167					0	0	1	0	0		G	93176081	G	G	93176081	3	3	27	1	0	0	0	0	1	0	0	0	8771	188	7	3	361	3	LGMN	14	93176081	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21582	93176081	14173459	6076	28427											
LGMN	5641	broad.mit.edu	37	chr14	93180773	93180773	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccatggtcagtgaagtaaAtgaacacgtgatcctggggg	12	9	13	7	1	1	3	1	3	0	0	3	3	3	3	2	3	1	1	2	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:93180773A>C	uc001yav.2	-	7	754	c.428T>G	c.(427-429)ATT>AGT	p.I143S	LGMN_uc001yat.2_Missense_Mutation_p.I143S|LGMN_uc001yau.2_Missense_Mutation_p.I143S|LGMN_uc001yaw.2_Missense_Mutation_p.I143S|LGMN_uc010aul.2_Missense_Mutation_p.I24S|LGMN_uc001yax.2_Missense_Mutation_p.I143S|LGMN_uc001yay.2_Missense_Mutation_p.I143S	NM_001008530	NP_001008530	Q99538	LGMN_HUMAN	legumain preproprotein	143					hormone biosynthetic process|negative regulation of neuron apoptosis|vitamin D metabolic process	lysosome	cysteine-type endopeptidase activity|protein serine/threonine kinase activity			skin(1)	1		all_cancers(154;0.0706)		COAD - Colon adenocarcinoma(157;0.224)		AGTGAAGTAAATGAACACGTG	0.408											OREG0022880	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	72					0	0	1	0	0		C	93180773	C	C	93180773	3	2	27	1	0	0	0	0	1	0	0	0	8771	101	4	5	909	5	LGMN	14	93180773	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4692	93180773	14168767	6077	28428											
GOLGA5	9950	broad.mit.edu	37	chr14	93263793	93263793	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgccatcatgtcttggtTtgttgatcttgctggaaagg	6	16	12	7	0	3	1	1	1	2	0	3	2	3	2	1	3	3	4	1	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:93263793T>C	uc001yaz.1	+	2	193	c.11T>C	c.(10-12)TTT>TCT	p.F4S		NM_005113	NP_005104	Q8TBA6	GOGA5_HUMAN	Golgi autoantigen, golgin subfamily a, 5	4	Cytoplasmic (Potential).				Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		ATGTCTTGGTTTGTTGATCTT	0.393			T	RET	papillary thyroid								3	57					0	0	1	0	0		C	93263793	C	C	93263793	3	2	27	1	0	0	0	0	1	0	0	0	6571	1841	64	3	13	3	GOLGA5	14	93263793	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	83020	93263793	14085747	6078	28429											
MOAP1	64112	broad.mit.edu	37	chr14	93650419	93650419	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctgttctcatccctccTgaacatccttccaagcagtc	7	14	4	16	0	1	1	1	1	1	0	8	1	6	1	5	0	2	2	5	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:93650419T>C	uc001ybj.2	-	3	539	c.169A>G	c.(169-171)AGG>GGG	p.R57G	C14orf109_uc001ybk.3_5'Flank|C14orf109_uc010auo.2_5'Flank	NM_022151	NP_071434	Q96BY2	MOAP1_HUMAN	modulator of apoptosis 1	57					activation of caspase activity|apoptotic nuclear change	cytoplasm	protein homodimerization activity			skin(2)|ovary(1)	3		all_cancers(154;0.00528)|Acute lymphoblastic leukemia(33;0.0497)|all_epithelial(191;0.125)|all_neural(303;0.13)		Epithelial(152;0.178)|all cancers(159;0.2)|COAD - Colon adenocarcinoma(157;0.204)		tcatccctcctgaacatcctt	0													8	201					0	0	1	0	0		C	93650419	C	C	93650419	3	2	27	1	0	0	0	0	1	0	0	0	9698	1579	55	3	890	3	MOAP1	14	93650419	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	386626	93650419	13699121	6079	28430											
BTBD7	55727	broad.mit.edu	37	chr14	93760752	93760752	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcctccattccaaactctCctgtataaaggtagtgtaac	12	12	6	11	0	1	0	0	0	1	0	5	0	4	0	4	1	2	3	4	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:93760752C>A	uc001ybo.2	-	3	940	c.614G>T	c.(613-615)GGA>GTA	p.G205V	BTBD7_uc010aur.2_5'UTR|BTBD7_uc010two.1_Missense_Mutation_p.G120V|BTBD7_uc001ybp.2_Intron|BTBD7_uc001ybq.3_Missense_Mutation_p.G120V|BTBD7_uc001ybr.2_Missense_Mutation_p.G205V	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	205	BTB 1.									pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		TCCAAACTCTCCTGTATAAAG	0.398													4	56					0.00909568	0.0093211	1	1	0		A	93760752	A	A	93760752	3	1	27	1	0	0	0	0	1	0	0	0	1549	855	30	5	2895	5	BTBD7	14	93760752	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	110333	93760752	13588788	6080	28431											
BTBD7	55727	broad.mit.edu	37	chr14	93761249	93761249	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctatacaactttgattcGcaaccatagccttgctgaga	12	11	8	10	1	0	2	0	2	0	1	1	3	0	2	2	1	5	3	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:93761249G>A	uc001ybo.2	-	3	443	c.117C>T	c.(115-117)TGC>TGT	p.C39C	BTBD7_uc010aur.2_5'UTR|BTBD7_uc010two.1_5'UTR|BTBD7_uc001ybp.2_Intron|BTBD7_uc001ybq.3_5'UTR|BTBD7_uc001ybr.2_Silent_p.C39C	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	39										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		ACTTTGATTCGCAACCATAGC	0.343													30	75					0	0	1	0	0		A	93761249	A	A	93761249	2	1	27	1	0	0	0	0	0	0	0	1	1549	1079	38	1		1	BTBD7	14	93761249	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	497	93761249	13588291	6081	28432											
KIAA1409	57578	broad.mit.edu	37	chr14	94069685	94069685	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccgccagaagagtgtacgTtccctgagggacagcgtgaa	12	6	13	10	3	0	4	0	2	0	2	1	5	1	5	3	1	3	2	3	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:94069685T>C	uc001ybv.1	+	23	3227	c.3144T>C	c.(3142-3144)CGT>CGC	p.R1048R	KIAA1409_uc001ybs.1_Silent_p.R1048R	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1225						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		AGAGTGTACGTTCCCTGAGGG	0.527													8	71					0	0	1	0	0		C	94069685	C	C	94069685	2	2	27	1	0	0	0	0	0	0	0	1	8246	1712	60	3		3	KIAA1409	14	94069685	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	308436	94069685	13279855	6082	28433											
ASB2	51676	broad.mit.edu	37	chr14	94420793	94420793	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcaaggcctcttcatcGccatccttgatggcctttat	6	15	7	13	1	4	1	2	1	2	0	6	1	5	1	4	2	0	0	4	2	2	5	rs146382240	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:94420793G>A	uc001ycc.1	-	2	693	c.204C>T	c.(202-204)GGC>GGT	p.G68G	ASB2_uc001ycd.2_Silent_p.G116G|ASB2_uc001yce.1_Silent_p.G14G	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	68	ANK 1.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		CCTCTTCATCGCCATCCTTGA	0.602													32	70					0	0	1	0	0		A	94420793	A	A	94420793	2	1	27	1	0	0	0	0	0	0	0	1	1024	1074	38	1		1	ASB2	14	94420793	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	351108	94420793	12928747	6083	28434											
IFI27L1	122509	broad.mit.edu	37	chr14	94568278	94568278	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccattgccaacgggggCggagttgctgctggcagtct	6	8	16	11	2	1	0	0	0	1	0	1	1	1	1	2	4	5	5	2	4	1	2	rs150611249	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:94568278C>T	uc001ycl.2	+	4	388	c.180C>T	c.(178-180)GGC>GGT	p.G60G	IFI27L1_uc001yck.2_Silent_p.G60G	NM_206949	NP_996832	Q96BM0	I27L1_HUMAN	interferon, alpha-inducible protein 27-like 1	60	Helical; (Potential).					integral to membrane					0						CCAACGGGGGCGGAGTTGCTG	0.587													8	74					0	0	1	0	0		T	94568278	T	T	94568278	2	4	27	1	0	0	0	0	0	0	0	1	7529	755	27	1		1	IFI27L1	14	94568278	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	147485	94568278	12781262	6084	28435											
SERPINA6	866	broad.mit.edu	37	chr14	94780965	94780965	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcagccagagaagacaGgtgtacaggaggagtggcat	12	5	18	6	0	0	2	0	0	0	2	0	5	0	4	1	5	2	3	1	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:94780965G>T	uc001ycv.2	-	2	125	c.21C>A	c.(19-21)ACC>ACA	p.T7T	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	7					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	AGAGAAGACAGGTGTACAGGA	0.502													15	126					4.7546e-09	5.24131e-09	1	1	0		T	94780965	T	T	94780965	2	4	27	1	0	0	0	0	0	0	0	1	14118	987	35	5		5	SERPINA6	14	94780965	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	212687	94780965	12568575	6085	28436											
DICER1	23405	broad.mit.edu	37	chr14	95562437	95562437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggctgttgaaattctccCgagtagggcacagggccttt	7	12	13	9	1	1	1	0	1	1	0	2	2	1	1	2	3	0	5	2	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:95562437C>T	uc001ydw.2	-	24	5002	c.4820G>A	c.(4819-4821)CGG>CAG	p.R1607Q	DICER1_uc010avh.1_Missense_Mutation_p.R505Q|DICER1_uc001ydv.2_Missense_Mutation_p.R1597Q|DICER1_uc001ydx.2_Missense_Mutation_p.R1607Q|DICER1_uc001ydy.1_Missense_Mutation_p.R459Q	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1607					negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		GAAATTCTCCCGAGTAGGGCA	0.512			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				32	260					0	0	1	0	0		T	95562437	T	T	95562437	3	4	27	1	0	0	0	0	1	0	0	0	4527	652	23	1	968	1	DICER1	14	95562437	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	781472	95562437	11787103	6086	28437											
CLMN	79789	broad.mit.edu	37	chr14	95690184	95690184	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctttaacttctagaggTgggttgcactttgaaagaga	13	13	10	5	0	2	3	0	1	2	2	2	4	2	3	0	2	2	2	0	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:95690184T>C	uc001yef.2	-	3	269	c.153A>G	c.(151-153)CCA>CCG	p.P51P		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	51	Actin-binding.|CH 1.					integral to membrane	actin binding				0				Epithelial(152;0.193)		CTTCTAGAGGTGGGTTGCACT	0.348													4	43					0	0	1	0	0		C	95690184	C	C	95690184	2	2	27	1	0	0	0	0	0	0	0	1	3545	1683	59	3		3	CLMN	14	95690184	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	127747	95690184	11659356	6087	28438											
C14orf49	161176	broad.mit.edu	37	chr14	95923565	95923565	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcttgcagttccgccccagGcagccattcaccttctccac	7	9	7	18	1	2	0	1	0	1	0	4	0	3	0	6	1	3	4	6	1	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:95923565G>A	uc001yei.3	-	4	753	c.738C>T	c.(736-738)TGC>TGT	p.C246C	C14orf49_uc010avi.2_Silent_p.C246C|C14orf49_uc001yej.1_Silent_p.C246C	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	246	Spectrin 1.|Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		TCCGCCCCAGGCAGCCATTCA	0.617													13	123					0	0	1	0	0		A	95923565	A	A	95923565	2	1	27	1	0	0	0	0	0	0	0	1	1779	1195	42	2		2	C14orf49	14	95923565	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	233381	95923565	11425975	6088	28439											
TCL1B	9623	broad.mit.edu	37	chr14	96157234	96157234	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtttctgggaaatagcagaCcatggccaggcaagtgtgtg	11	9	14	7	0	1	1	0	0	1	1	1	2	1	2	2	3	1	3	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:96157234C>T	uc001yez.2	+	2	366	c.324C>T	c.(322-324)GAC>GAT	p.D108D	TCL1B_uc001yew.2_RNA|TCL1B_uc001yex.2_RNA|TCL1B_uc010avj.2_RNA|TCL1B_uc001yfa.2_Silent_p.D108D	NM_004918	NP_004909	O95988	TCL1B_HUMAN	T-cell leukemia/lymphoma 1B	108										ovary(1)	1		all_cancers(154;0.103)		COAD - Colon adenocarcinoma(157;0.205)|Epithelial(152;0.248)		AAATAGCAGACCATGGCCAGG	0.642													5	41					0	0	1	0	0		T	96157234	T	T	96157234	2	4	27	1	0	0	0	0	0	0	0	1	15730	506	18	4		4	TCL1B	14	96157234	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	233669	96157234	11192306	6089	28440											
BDKRB2	624	broad.mit.edu	37	chr14	96707571	96707571	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgcctcggcatcctctcCagctgccaggacgagcgcat	7	7	10	17	4	1	0	0	0	1	0	5	2	2	1	4	2	3	3	4	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:96707571C>A	uc010avm.1	+	3	1102	c.906C>A	c.(904-906)TCC>TCA	p.S302S	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Silent_p.S275S|BDKRB2_uc001yfg.2_Silent_p.S302S	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	302	Extracellular (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		GCATCCTCTCCAGCTGCCAGG	0.572													6	29					0.248553	0.249545	1	1	0		A	96707571	A	A	96707571	2	1	27	1	0	0	0	0	0	0	0	1	1394	581	21	5		5	BDKRB2	14	96707571	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	550337	96707571	10641969	6090	28441											
ATG2B	55102	broad.mit.edu	37	chr14	96761477	96761477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatgccttggcaaactgcagGtgacatcagctccaggagac	12	7	11	11	0	1	2	1	1	0	1	2	3	2	2	2	3	4	3	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:96761477G>A	uc001yfi.2	-	36	5611	c.5246C>T	c.(5245-5247)ACC>ATC	p.T1749I		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1749										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		CAAACTGCAGGTGACATCAGC	0.378													22	60					0	0	1	0	0		A	96761477	A	A	96761477	3	1	27	1	0	0	0	0	1	0	0	0	1095	1261	44	4	1018	4	ATG2B	14	96761477	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	53906	96761477	10588063	6091	28442											
PAPOLA	10914	broad.mit.edu	37	chr14	96998729	96998729	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgacaacttcaggttaacTctgagagctatcaaactatg	14	12	7	8	0	3	2	2	2	1	1	3	3	3	2	0	1	4	2	0	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:96998729T>C	uc001yfq.2	+	8	879	c.669T>C	c.(667-669)ACT>ACC	p.T223T	PAPOLA_uc001yfp.2_Silent_p.T223T|PAPOLA_uc001yfr.2_Silent_p.T223T|PAPOLA_uc010twv.1_Silent_p.T223T|PAPOLA_uc010avp.2_5'UTR	NM_032632	NP_116021	P51003	PAPOA_HUMAN	poly(A) polymerase alpha	223				CRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYS -> MR KPTSFCVLQFLSDISCFYTSFVLKLFIAILLTQ (in Ref. 2; CAD61935).	mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cytoplasm|nucleoplasm	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|RNA binding				0		all_cancers(154;0.0555)|all_epithelial(191;0.149)|Melanoma(154;0.155)		COAD - Colon adenocarcinoma(157;0.213)		TCAGGTTAACTCTGAGAGCTA	0.308													7	54					0	0	1	0	0		C	96998729	C	C	96998729	2	2	27	1	0	0	0	0	0	0	0	1	11448	1538	54	3		3	PAPOLA	14	96998729	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	237252	96998729	10350811	6092	28443											
BCL11B	64919	broad.mit.edu	37	chr14	99697807	99697807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggagagcgcccagggcaCgcagaggtgaagtgatcacg	10	3	18	10	4	1	4	1	2	0	2	1	5	1	4	1	3	1	2	1	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:99697807C>T	uc001yga.2	-	3	782	c.515G>A	c.(514-516)CGT>CAT	p.R172H	BCL11B_uc001ygb.2_Intron	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	172						nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		GCCCAGGGCACGCAGAGGTGA	0.701			T	TLX3	T-ALL								4	12					0	0	1	0	0		T	99697807	T	T	99697807	3	4	27	1	0	0	0	0	1	0	0	0	1365	536	19	1	2177	1	BCL11B	14	99697807	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2699078	99697807	7651733	6093	28444											
EML1	2009	broad.mit.edu	37	chr14	100317246	100317246	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagaccgcattgcttcactgGagcagagagtccagatgcaa	12	7	11	11	1	1	3	1	0	0	3	2	5	2	4	2	1	3	4	2	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:100317246G>T	uc001ygs.2	+	2	193	c.124G>T	c.(124-126)GAG>TAG	p.E42*	EML1_uc010avt.1_Nonsense_Mutation_p.E29*|EML1_uc010tww.1_Nonsense_Mutation_p.E11*|EML1_uc001ygq.2_Nonsense_Mutation_p.E42*|EML1_uc001ygr.2_Nonsense_Mutation_p.E42*	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	42						cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				TGCTTCACTGGAGCAGAGAGT	0.512													6	62					0.27861	0.279635	1	1	0		T	100317246	T	T	100317246	4	4	27	1	0	0	0	0	0	1	0	0	5104	1175	41	5	130	5	EML1	14	100317246	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	619439	100317246	7032294	6094	28445											
EML1	2009	broad.mit.edu	37	chr14	100363529	100363529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taacaacctgtacttgcttcCgacgggagagaccgtctact	10	10	9	12	3	1	1	0	0	1	1	2	4	2	2	3	1	5	2	3	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:100363529C>T	uc001ygs.2	+	7	794	c.725C>T	c.(724-726)CCG>CTG	p.P242L	EML1_uc010avt.1_Missense_Mutation_p.P229L|EML1_uc010tww.1_Missense_Mutation_p.P230L|EML1_uc001ygq.2_Missense_Mutation_p.P261L|EML1_uc001ygr.2_Missense_Mutation_p.P261L	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	242						cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				TACTTGCTTCCGACGGGAGAG	0.483													5	78					0	0	1	0	0		T	100363529	T	T	100363529	3	4	27	1	0	0	0	0	1	0	0	0	5104	652	23	1	812	1	EML1	14	100363529	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	46283	100363529	6986011	6095	28446											
EML1	2009	broad.mit.edu	37	chr14	100367326	100367326	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaatactctccacgtcattGgaataggtttttttgaccga	10	15	8	8	2	2	2	1	2	1	0	3	4	2	3	2	2	1	1	2	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:100367326G>T	uc001ygs.2	+	9	1027	c.958G>T	c.(958-960)GGA>TGA	p.G320*	EML1_uc010avt.1_Nonsense_Mutation_p.G307*|EML1_uc010tww.1_Nonsense_Mutation_p.G308*|EML1_uc001ygq.2_Nonsense_Mutation_p.G339*|EML1_uc001ygr.2_Nonsense_Mutation_p.G339*	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	320						cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				CCACGTCATTGGAATAGGTTT	0.438													4	91					0.00024832	0.000261516	1	1	0		T	100367326	T	T	100367326	4	4	27	1	0	0	0	0	0	1	0	0	5104	1349	47	5	1053	5	EML1	14	100367326	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3797	100367326	6982214	6096	28447											
EML1	2009	broad.mit.edu	37	chr14	100406438	100406438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaagcatcatgcagtggCgcgtcatttagtacccaccg	11	8	9	13	3	2	0	2	0	0	0	2	0	2	0	2	1	3	3	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:100406438C>T	uc001ygs.2	+	22	2506	c.2437C>T	c.(2437-2439)CGC>TGC	p.R813C	EML1_uc010tww.1_Missense_Mutation_p.R801C|EML1_uc001ygr.2_Missense_Mutation_p.R832C	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	813	WD 11.					cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				CATGCAGTGGCGCGTCATTTA	0.532													4	23					0	0	1	0	0		T	100406438	T	T	100406438	3	4	27	1	0	0	0	0	1	0	0	0	5104	768	27	1	2584	1	EML1	14	100406438	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	39112	100406438	6943102	6097	28448											
WDR25	79446	broad.mit.edu	37	chr14	100950346	100950346	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggaacccagctatttaGtggtcgaagtgactttagaa	12	12	11	6	1	0	2	0	1	0	1	1	4	0	3	1	2	2	2	1	2	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:100950346G>T	uc010avx.2	+	4	1079	c.986G>T	c.(985-987)AGT>ATT	p.S329I	WDR25_uc001yhm.2_Missense_Mutation_p.S321I|WDR25_uc001yhn.2_Missense_Mutation_p.S329I|WDR25_uc010avy.2_RNA|WDR25_uc001yho.2_Missense_Mutation_p.S72I	NM_001161476	NP_001154948	Q64LD2	WDR25_HUMAN	WD repeat domain 25	329	WD 2.										0		Melanoma(154;0.212)				CAGCTATTTAGTGGTCGAAGT	0.383													13	123					5.50884e-06	5.93776e-06	1	1	0		T	100950346	T	T	100950346	3	4	27	1	0	0	0	0	1	0	0	0	17308	1029	36	5	996	5	WDR25	14	100950346	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	543908	100950346	6399194	6098	28449											
DLK1	8788	broad.mit.edu	37	chr14	101198408	101198408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcctcggccccctgtGccaacaacaggacctgcgtg	6	7	10	18	2	0	0	0	0	0	0	2	1	1	1	6	2	5	1	6	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:101198408G>A	uc001yhs.3	+	4	445	c.292G>A	c.(292-294)GCC>ACC	p.A98T	DLK1_uc001yhu.3_Missense_Mutation_p.A98T	NM_003836	NP_003827	P80370	DLK1_HUMAN	delta-like 1 homolog precursor	98	Extracellular (Potential).|EGF-like 3.				multicellular organismal development	extracellular space|integral to membrane|soluble fraction				ovary(2)|breast(1)|skin(1)	4		Melanoma(154;0.155)				GGCCCCCTGTGCCAACAACAG	0.632													4	58					0	0	1	0	0		A	101198408	A	A	101198408	3	1	27	1	0	0	0	0	1	0	0	0	4570	1319	46	2	306	2	DLK1	14	101198408	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	248062	101198408	6151132	6099	28450											
DYNC1H1	1778	broad.mit.edu	37	chr14	102453856	102453856	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttccttggaaacttgtatgTatgaccataagacattctcg	11	14	8	8	1	1	2	0	1	1	1	3	3	2	3	2	1	1	3	2	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:102453856T>C	uc001yks.2	+	9	2769	c.2605T>C	c.(2605-2607)TAT>CAT	p.Y869H		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	869	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						AACTTGTATGTATGACCATAA	0.383													9	46					0	0	1	0	0		C	102453856	C	C	102453856	3	2	27	1	0	0	0	0	1	0	0	0	4847	1638	57	3	2639	3	DYNC1H1	14	102453856	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1255448	102453856	4895684	6100	28451											
DYNC1H1	1778	broad.mit.edu	37	chr14	102461592	102461592	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaccttcatcacctatgtGcagtctttgaaacggaagat	11	12	9	9	1	3	3	2	2	1	1	3	4	3	4	2	1	2	1	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:102461592G>A	uc001yks.2	+	15	3683	c.3519G>A	c.(3517-3519)GTG>GTA	p.V1173V		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1173	Potential.|Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						TCACCTATGTGCAGTCTTTGA	0.408													13	188					0	0	1	0	0		A	102461592	A	A	102461592	2	1	27	1	0	0	0	0	0	0	0	1	4847	1306	46	2		2	DYNC1H1	14	102461592	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7736	102461592	4887948	6101	28452											
DYNC1H1	1778	broad.mit.edu	37	chr14	102467600	102467600	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctaacccttggccaaatctGggatgttgacttgcagaaaa	12	10	10	9	0	1	2	0	1	1	1	1	3	1	3	2	2	2	3	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:102467600G>T	uc001yks.2	+	20	4468	c.4304G>T	c.(4303-4305)TGG>TTG	p.W1435L		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1435	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						GGCCAAATCTGGGATGTTGAC	0.443													30	330					9.17885e-22	1.0287e-21	1	1	0		T	102467600	T	T	102467600	3	4	27	1	0	0	0	0	1	0	0	0	4847	1357	47	5	4382	5	DYNC1H1	14	102467600	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6008	102467600	4881940	6102	28453											
DYNC1H1	1778	broad.mit.edu	37	chr14	102467905	102467905	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaatacttatgaactagacTtggttaattatcagaacaag	16	12	8	5	0	1	3	1	1	0	2	1	4	1	4	0	2	3	1	0	2	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:102467905T>C	uc001yks.2	+	21	4593	c.4429T>C	c.(4429-4431)TTG>CTG	p.L1477L		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1477	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						TGAACTAGACTTGGTTAATTA	0.443													3	70					0	0	1	0	0		C	102467905	C	C	102467905	2	2	27	1	0	0	0	0	0	0	0	1	4847	1606	56	3		3	DYNC1H1	14	102467905	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	305	102467905	4881635	6103	28454											
DYNC1H1	1778	broad.mit.edu	37	chr14	102474611	102474611	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggatgctctcggctgtgTcccagcaggtgcagtgcata	7	9	14	11	2	1	0	0	0	1	0	3	1	2	1	1	3	5	5	1	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:102474611T>C	uc001yks.2	+	29	6078	c.5914T>C	c.(5914-5916)TCC>CCC	p.S1972P		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1972	AAA 1 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CTCGGCTGTGTCCCAGCAGGT	0.547													5	50					0	0	1	0	0		C	102474611	C	C	102474611	3	2	27	1	0	0	0	0	1	0	0	0	4847	1667	58	3	6028	3	DYNC1H1	14	102474611	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6706	102474611	4874929	6104	28455											
DYNC1H1	1778	broad.mit.edu	37	chr14	102483497	102483497	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttgatcactactgcgagTacaggcgcacacctaatggg	10	10	10	11	2	1	1	1	1	0	0	1	2	1	1	1	2	3	2	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:102483497T>C	uc001yks.2	+	39	8085	c.7921T>C	c.(7921-7923)TAC>CAC	p.Y2641H	DYNC1H1_uc001ykt.1_Missense_Mutation_p.Y132H	NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2641	AAA 3 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CTACTGCGAGTACAGGCGCAC	0.468													7	122					0	0	1	0	0		C	102483497	C	C	102483497	3	2	27	1	0	0	0	0	1	0	0	0	4847	1638	57	3	8075	3	DYNC1H1	14	102483497	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8886	102483497	4866043	6105	28456											
TECPR2	9895	broad.mit.edu	37	chr14	102901049	102901049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatggggaagacatccaacCcattggcccccaaagcactt	12	7	9	13	0	0	2	0	1	0	1	1	3	1	3	4	3	2	1	4	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:102901049C>T	uc001ylw.1	+	9	2043	c.1895C>T	c.(1894-1896)CCC>CTC	p.P632L	TECPR2_uc010awl.2_Missense_Mutation_p.P632L|TECPR2_uc010txx.1_Intron	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	632							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						GACATCCAACCCATTGGCCCC	0.562													4	36					0	0	1	0	0		T	102901049	T	T	102901049	3	4	27	1	0	0	0	0	1	0	0	0	15769	623	22	4	1925	4	TECPR2	14	102901049	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	417552	102901049	4448491	6106	28457											
TECPR2	9895	broad.mit.edu	37	chr14	102918744	102918744	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctgcaggaagcttcctgtgGctgtgccagagcagcaagga	9	8	14	10	0	1	1	0	0	1	1	2	3	2	3	2	3	5	5	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:102918744G>A	uc001ylw.1	+	16	3568	c.3420G>A	c.(3418-3420)TGG>TGA	p.W1140*	TECPR2_uc010awl.2_Nonsense_Mutation_p.W1140*|TECPR2_uc010txx.1_Nonsense_Mutation_p.W303*	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1140							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						GCTTCCTGTGGCTGTGCCAGA	0.622													5	38					0	0	1	0	0		A	102918744	A	A	102918744	4	1	27	1	0	0	0	0	0	1	0	0	15769	1212	42	2	3478	2	TECPR2	14	102918744	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17695	102918744	4430796	6107	28458											
CDC42BPB	9578	broad.mit.edu	37	chr14	103452834	103452834	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatacctacagtgccatcaTcattcatcttcaaacatgat	15	12	3	11	0	5	1	4	1	1	0	5	1	5	1	2	0	4	0	2	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:103452834T>C	uc001ymi.1	-	6	912	c.680A>G	c.(679-681)GAT>GGT	p.D227G		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	227	Protein kinase.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		AGTGCCATCATCATTCATCTT	0.368													12	90					0	0	1	0	0		C	103452834	C	C	103452834	3	2	27	1	0	0	0	0	1	0	0	0	3076	1435	50	3	4583	3	CDC42BPB	14	103452834	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	534090	103452834	3896706	6108	28459											
XRCC3	7517	broad.mit.edu	37	chr14	104165201	104165201	+	Frame_Shift_Del	DEL	G	-	-																															atcgtgtaggaacaggaggaGgggggcaggtggggggcaga																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:104165201delG	uc001yny.3	-	10	1355	c.975delC	c.(973-975)CCCfs	p.P325fs	KLC1_uc010tyf.1_Intron|KLC1_uc001yno.2_Intron|KLC1_uc001yns.2_Intron|XRCC3_uc001ynx.3_Frame_Shift_Del_p.P325fs|XRCC3_uc001ynz.3_Frame_Shift_Del_p.P325fs|XRCC3_uc001yoa.3_Frame_Shift_Del_p.P325fs	NM_005432	NP_005423	O43542	XRCC3_HUMAN	X-ray repair cross complementing protein 3	325					DNA recombination|DNA repair	mitochondrion|nucleus|perinuclear region of cytoplasm	ATP binding|DNA binding|DNA-dependent ATPase activity				0		Melanoma(154;0.155)|all_epithelial(191;0.19)		Epithelial(152;0.239)		AACAGGAGGAGGGGGGCAGGT	0.692								Direct_reversal_of_damage|Homologous_recombination					5	7	---	---	---	---						.	-	104165201	-	-	104165201	7	5	27	1	0	1	0	1	0	0	0	0	17480	987	35	0	69	0	XRCC3	14	104165201	Frame_Shift_Del	DEL	G	TCGA-BR-6452-01A-12D-1800-08	712367	104165201	3184339	6109	28460											
TDRD9	122402	broad.mit.edu	37	chr14	104472992	104472992	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatggttagcggcagctcTttctttgaagaatttttttg	7	20	9	5	1	2	2	0	1	2	1	2	2	2	2	0	2	2	3	0	2	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:104472992T>C	uc001yom.3	+	17	1919	c.1889T>C	c.(1888-1890)CTT>CCT	p.L630P	TDRD9_uc001yon.3_Missense_Mutation_p.L368P	NM_153046	NP_694591	Q8NDG6	TDRD9_HUMAN	tudor domain containing 9	630					cell differentiation|DNA methylation involved in gamete generation|fertilization|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	nucleus|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0768)				GCGGCAGCTCTTTCTTTGAAG	0.333													4	40					0	0	1	0	0		C	104472992	C	C	104472992	3	2	27	1	0	0	0	0	1	0	0	0	15761	1609	56	3	1955	3	TDRD9	14	104472992	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	307791	104472992	2876548	6110	28461											
TDRD9	122402	broad.mit.edu	37	chr14	104492062	104492062	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttttgctgattttgataaAcaacgctactttagagctca	11	15	6	9	1	1	3	1	2	0	1	1	3	1	3	1	0	5	3	1	0	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:104492062A>G	uc001yom.3	+	26	2910	c.2880A>G	c.(2878-2880)AAA>AAG	p.K960K	TDRD9_uc001yon.3_Silent_p.K698K	NM_153046	NP_694591	Q8NDG6	TDRD9_HUMAN	tudor domain containing 9	960	Tudor.				cell differentiation|DNA methylation involved in gamete generation|fertilization|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	nucleus|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0768)				ATTTTGATAAACAACGCTACT	0.448													24	315					0	0	1	0	0		G	104492062	G	G	104492062	2	3	27	1	0	0	0	0	0	0	0	1	15761	40	2	3		3	TDRD9	14	104492062	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19070	104492062	2857478	6111	28462											
ADSSL1	122622	broad.mit.edu	37	chr14	105204736	105204736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acggggtggtcatccacttgCcaggcttgtttgaggaagca	8	10	14	9	1	1	1	1	1	0	0	2	2	2	2	2	5	2	3	2	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105204736C>T	uc001ypd.2	+	3	393	c.319C>T	c.(319-321)CCA>TCA	p.P107S	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Missense_Mutation_p.P150S|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	107					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding	p.P150S(1)		ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	CATCCACTTGCCAGGCTTGTT	0.517													7	53					0	0	1	0	0		T	105204736	T	T	105204736	3	4	27	1	0	0	0	0	1	0	0	0	348	739	26	2	654	2	ADSSL1	14	105204736	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	712674	105204736	2144804	6112	28463											
ADSSL1	122622	broad.mit.edu	37	chr14	105207003	105207003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgcccggacaggcctccGcatctgcgacctcctgtcag	6	7	11	17	3	2	0	1	0	1	0	4	2	4	1	5	2	3	2	5	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105207003G>A	uc001ypd.2	+	6	616	c.542G>A	c.(541-543)CGC>CAC	p.R181H	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Missense_Mutation_p.R224H|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	181					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	ACAGGCCTCCGCATCTGCGAC	0.572													17	62					0	0	1	0	0		A	105207003	A	A	105207003	3	1	27	1	0	0	0	0	1	0	0	0	348	1087	38	1	889	1	ADSSL1	14	105207003	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2267	105207003	2142537	6113	28464											
AKT1	207	broad.mit.edu	37	chr14	105238712	105238712	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagccgcaccttcttctcgTacacgtgctgccacacgata	8	9	8	16	4	2	0	0	0	2	0	3	1	2	0	3	0	4	4	3	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105238712T>C	uc001ypk.2	-	12	1804	c.1250A>G	c.(1249-1251)TAC>TGC	p.Y417C	INF2_uc010tyi.1_Intron|AKT1_uc001ypl.2_Missense_Mutation_p.Y417C|AKT1_uc010axa.2_Missense_Mutation_p.Y417C|AKT1_uc001ypm.2_Missense_Mutation_p.Y417C|AKT1_uc001ypn.2_Missense_Mutation_p.Y417C|AKT1_uc001ypj.2_5'Flank|AKT1_uc010tyk.1_Missense_Mutation_p.Y355C	NM_005163	NP_005154	P31749	AKT1_HUMAN	AKT1 kinase	417	AGC-kinase C-terminal.				activation of pro-apoptotic gene products|activation-induced cell death of T cells|endocrine pancreas development|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen biosynthetic process|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|mRNA metabolic process|negative regulation of fatty acid beta-oxidation|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|nitric oxide biosynthetic process|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of blood vessel endothelial cell migration|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of establishment of protein localization in plasma membrane|positive regulation of fat cell differentiation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|positive regulation of nitric oxide biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|protein autophosphorylation|protein import into nucleus, translocation|regulation of neuron projection development|regulation of translation|response to fluid shear stress|response to heat|response to UV-A|T cell costimulation	cytosol|nucleoplasm|plasma membrane	enzyme binding|identical protein binding|nitric-oxide synthase regulator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein serine/threonine kinase activity			breast(86)|urinary_tract(12)|thyroid(10)|lung(7)|endometrium(5)|large_intestine(4)|skin(4)|prostate(3)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|NS(1)	134		all_cancers(154;3.77e-06)|all_lung(585;3.24e-07)|all_epithelial(191;3.45e-05)|all_neural(303;0.0459)|Melanoma(154;0.155)	all cancers(16;0.000486)|OV - Ovarian serous cystadenocarcinoma(23;0.00647)|Epithelial(46;0.0153)|GBM - Glioblastoma multiforme(11;0.116)	all cancers(159;0.0107)|OV - Ovarian serous cystadenocarcinoma(161;0.0132)|Epithelial(152;0.243)	Adenosine triphosphate(DB00171)|Arsenic trioxide(DB01169)	CTTCTTCTCGTACACGTGCTG	0.612		1	Mis		breast|colorectal|ovarian|NSCLC								6	67					0	0	1	0	0		C	105238712	C	C	105238712	3	2	27	1	0	0	0	0	1	0	0	0	478	1638	57	3	204	3	AKT1	14	105238712	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31709	105238712	2110828	6114	28465											
PLD4	122618	broad.mit.edu	37	chr14	105397263	105397263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctctttgatggggtgcccaCcactgcctacttctcagtaa	7	12	8	14	0	2	1	1	1	2	0	3	1	2	1	4	2	3	1	4	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105397263C>T	uc001ypu.1	+	7	1043	c.902C>T	c.(901-903)ACC>ATC	p.T301I	PLD4_uc010tyl.1_Missense_Mutation_p.T308I	NM_138790	NP_620145	Q96BZ4	PLD4_HUMAN	phospholipase D4	301					lipid catabolic process	integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity			central_nervous_system(1)|skin(1)	2		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.00067)|OV - Ovarian serous cystadenocarcinoma(23;0.00976)|Epithelial(46;0.0201)|GBM - Glioblastoma multiforme(11;0.116)		Choline(DB00122)	GGGGTGCCCACCACTGCCTAC	0.617													13	81					0	0	1	0	0		T	105397263	T	T	105397263	3	4	27	1	0	0	0	0	1	0	0	0	12067	507	18	4	924	4	PLD4	14	105397263	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	158551	105397263	1952277	6115	28466											
AHNAK2	113146	broad.mit.edu	37	chr14	105405613	105405613	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcagggaaggagaaccttGgtaccattaatttggggaat	12	9	15	5	0	0	1	0	0	0	1	0	4	0	3	2	6	2	2	2	6	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105405613G>T	uc010axc.1	-	7	16295	c.16175C>A	c.(16174-16176)CCA>CAA	p.P5392Q	AHNAK2_uc001ypx.2_Missense_Mutation_p.P5292Q	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5392						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GGAGAACCTTGGTACCATTAA	0.473													6	60					0.0215528	0.0219246	1	1	0		T	105405613	T	T	105405613	3	4	27	1	0	0	0	0	1	0	0	0	415	1348	47	5	1216	5	AHNAK2	14	105405613	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8350	105405613	1943927	6116	28467											
AHNAK2	113146	broad.mit.edu	37	chr14	105408953	105408953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacaggtcaccctccagccGcacactgtccagcttggctc	7	7	10	17	1	1	0	1	0	0	0	4	1	3	1	4	3	2	3	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105408953G>A	uc010axc.1	-	7	12955	c.12835C>T	c.(12835-12837)CGG>TGG	p.R4279W	AHNAK2_uc001ypx.2_Missense_Mutation_p.R4179W	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4279						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCCTCCAGCCGCACACTGTCC	0.612													21	224					0	0	1	0	0		A	105408953	A	A	105408953	3	1	27	1	0	0	0	0	1	0	0	0	415	1086	38	1	4556	1	AHNAK2	14	105408953	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3340	105408953	1940587	6117	28468											
AHNAK2	113146	broad.mit.edu	37	chr14	105410623	105410623	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aactgggcatctccaccttgGgcaggtgctctttgaggccg	6	10	13	12	1	2	1	0	1	2	0	3	1	2	1	3	4	2	3	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105410623G>T	uc010axc.1	-	7	11285	c.11165C>A	c.(11164-11166)CCC>CAC	p.P3722H	AHNAK2_uc001ypx.2_Missense_Mutation_p.P3622H	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3722						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CTCCACCTTGGGCAGGTGCTC	0.632													14	250					9.31168e-06	1.00265e-05	1	1	0		T	105410623	T	T	105410623	3	4	27	1	0	0	0	0	1	0	0	0	415	1232	43	5	6226	5	AHNAK2	14	105410623	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1670	105410623	1938917	6118	28469											
AHNAK2	113146	broad.mit.edu	37	chr14	105411049	105411049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctttcaggtccagcttggggCccttaacatctatctggggg	6	12	12	11	0	3	0	1	0	2	0	4	0	4	0	2	5	2	1	2	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105411049C>T	uc010axc.1	-	7	10859	c.10739G>A	c.(10738-10740)GGC>GAC	p.G3580D	AHNAK2_uc001ypx.2_Missense_Mutation_p.G3480D	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3580						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CAGCTTGGGGCCCTTAACATC	0.622													15	182					0	0	1	0	0		T	105411049	T	T	105411049	3	4	27	1	0	0	0	0	1	0	0	0	415	739	26	2	6652	2	AHNAK2	14	105411049	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	426	105411049	1938491	6119	28470											
AHNAK2	113146	broad.mit.edu	37	chr14	105411899	105411899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcagtcacatccttgtcggCcagggacaggtccccctcca	7	7	11	16	1	1	0	1	0	0	0	5	1	4	1	5	4	0	1	5	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105411899C>T	uc010axc.1	-	7	10009	c.9889G>A	c.(9889-9891)GCC>ACC	p.A3297T	AHNAK2_uc001ypx.2_Missense_Mutation_p.A3197T	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3297						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			TCCTTGTCGGCCAGGGACAGG	0.622													16	170					0	0	1	0	0		T	105411899	T	T	105411899	3	4	27	1	0	0	0	0	1	0	0	0	415	739	26	2	7502	2	AHNAK2	14	105411899	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	850	105411899	1937641	6120	28471											
AHNAK2	113146	broad.mit.edu	37	chr14	105412394	105412394	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcagtcacatccttgtcggCcagggacaggtccccctcca	7	7	11	16	1	1	0	1	0	0	0	5	1	4	1	5	4	0	1	5	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105412394C>T	uc010axc.1	-	7	9514	c.9394G>A	c.(9394-9396)GCC>ACC	p.A3132T	AHNAK2_uc001ypx.2_Missense_Mutation_p.A3032T	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3132						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			TCCTTGTCGGCCAGGGACAGG	0.612													7	78					0	0	1	0	0		T	105412394	T	T	105412394	3	4	27	1	0	0	0	0	1	0	0	0	415	739	26	2	7997	2	AHNAK2	14	105412394	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	495	105412394	1937146	6121	28472											
AHNAK2	113146	broad.mit.edu	37	chr14	105413160	105413160	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggagtttcacgtccacCtggccagcctggacctccag	6	9	11	15	1	2	0	1	0	1	0	4	2	4	2	6	3	1	1	6	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105413160C>T	uc010axc.1	-	7	8748	c.8628G>A	c.(8626-8628)CAG>CAA	p.Q2876Q	AHNAK2_uc001ypx.2_Silent_p.Q2776Q	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2876						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			TCACGTCCACCTGGCCAGCCT	0.622													54	147					0	0	1	0	0		T	105413160	T	T	105413160	2	4	27	1	0	0	0	0	0	0	0	1	415	680	24	4		4	AHNAK2	14	105413160	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	766	105413160	1936380	6122	28473											
AHNAK2	113146	broad.mit.edu	37	chr14	105413926	105413926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccatccagctttgctctcGgggcctggacgtccacctcc	5	9	9	18	2	1	0	0	0	1	0	5	1	4	1	6	3	2	2	6	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105413926G>A	uc010axc.1	-	7	7982	c.7862C>T	c.(7861-7863)CCG>CTG	p.P2621L	AHNAK2_uc001ypx.2_Missense_Mutation_p.P2521L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2621						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CTTTGCTCTCGGGGCCTGGAC	0.607													19	224					0	0	1	0	0		A	105413926	A	A	105413926	3	1	27	1	0	0	0	0	1	0	0	0	415	1116	39	1	9529	1	AHNAK2	14	105413926	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	766	105413926	1935614	6123	28474											
AHNAK2	113146	broad.mit.edu	37	chr14	105416427	105416427	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgacgtccacctccacgctGggcagagacacctccacgtc	8	6	9	18	4	0	1	0	0	0	1	5	3	3	1	5	1	0	2	5	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105416427G>A	uc010axc.1	-	7	5481	c.5361C>T	c.(5359-5361)CCC>CCT	p.P1787P	AHNAK2_uc001ypx.2_Silent_p.P1687P	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1787						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCTCCACGCTGGGCAGAGACA	0.657													27	244					0	0	1	0	0		A	105416427	A	A	105416427	2	1	27	1	0	0	0	0	0	0	0	1	415	1335	47	4		4	AHNAK2	14	105416427	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2501	105416427	1933113	6124	28475											
AHNAK2	113146	broad.mit.edu	37	chr14	105419623	105419623	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggggtctggacgctgaggTcagtggtcttgaggtccccc	6	9	16	10	1	3	2	1	2	2	0	4	3	4	3	2	6	0	1	2	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105419623T>C	uc010axc.1	-	7	2285	c.2165A>G	c.(2164-2166)GAC>GGC	p.D722G	AHNAK2_uc001ypx.2_Missense_Mutation_p.D622G	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	722						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GACGCTGAGGTCAGTGGTCTT	0.652													20	162					0	0	1	0	0		C	105419623	C	C	105419623	3	2	27	1	0	0	0	0	1	0	0	0	415	1667	58	3	15226	3	AHNAK2	14	105419623	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3196	105419623	1929917	6125	28476											
GPR132	29933	broad.mit.edu	37	chr14	105517541	105517541	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttggcgggaatggtccgtGgccagcacgtagataatggg	8	9	16	8	3	1	1	0	0	1	1	2	2	2	2	2	5	1	2	2	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105517541G>T	uc001yqd.2	-	4	1832	c.933C>A	c.(931-933)GCC>GCA	p.A311A	GPR132_uc001yqc.2_Silent_p.A123A|GPR132_uc001yqe.2_Silent_p.A302A	NM_013345	NP_037477	Q9UNW8	GP132_HUMAN	G protein-coupled receptor 132	311	Helical; Name=7; (Potential).				response to stress	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.0953)|Melanoma(154;0.155)|all_epithelial(191;0.219)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.02)|all cancers(159;0.0419)|OV - Ovarian serous cystadenocarcinoma(161;0.0521)		AATGGTCCGTGGCCAGCACGT	0.582													7	38					0.00198382	0.00205548	1	1	0		T	105517541	T	T	105517541	2	4	27	1	0	0	0	0	0	0	0	1	6657	1335	47	5		5	GPR132	14	105517541	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	97918	105517541	1831999	6126	28477											
BTBD6	90135	broad.mit.edu	37	chr14	105716945	105716945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttccagttccagtgctcctCggacagcaccaacgggactg	8	8	10	15	2	0	0	0	0	0	0	4	2	3	2	4	2	3	3	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr14:105716945C>T	uc010tyq.1	+	5	1502	c.1394C>T	c.(1393-1395)TCG>TTG	p.S465L	BRF1_uc010tyo.1_Intron|BRF1_uc010typ.1_Intron|BRF1_uc001yql.2_5'Flank|BRF1_uc001yqo.2_5'Flank|BRF1_uc010axg.1_Intron|BRF1_uc001yqp.2_Intron|BRF1_uc001yqn.2_5'Flank|BRF1_uc010axh.1_5'Flank|BRF1_uc010axj.1_5'Flank	NM_033271	NP_150374	Q96KE9	BTBD6_HUMAN	BTB domain protein BDPL	465						cytoplasmic mRNA processing body					0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.0163)|Epithelial(46;0.0391)	Epithelial(152;0.18)		CAGTGCTCCTCGGACAGCACC	0.627													21	55					0	0	1	0	0		T	105716945	T	T	105716945	3	4	27	1	0	0	0	0	1	0	0	0	1548	893	31	1	1408	1	BTBD6	14	105716945	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	199404	105716945	1632595	6127	28478											
CYFIP1	23191	broad.mit.edu	37	chr15	22956546	22956546	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatattggacatagaaaaaTttcatcgagagtcattcttc	14	13	6	8	1	3	2	2	0	1	2	5	4	3	3	1	1	0	0	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:22956546T>A	uc001yus.2	+	16	1887	c.1783T>A	c.(1783-1785)TTT>ATT	p.F595I	CYFIP1_uc001yut.2_Missense_Mutation_p.F595I|CYFIP1_uc010aya.1_Missense_Mutation_p.F623I|CYFIP1_uc001yuu.2_Missense_Mutation_p.F164I	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	595					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		CATAGAAAAATTTCATCGAGA	0.453													5	73					0	0	1	0	0		A	22956546	A	A	22956546	3	1	27	1	0	0	0	0	1	0	0	0	4140	1493	52	5	2222	5	CYFIP1	15	22956546	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08		22956546	79574846	6128	28479											
CYFIP1	23191	broad.mit.edu	37	chr15	23000163	23000163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttcttgggcagcagcggCgttttgctgtgctggatttc	4	15	13	9	2	1	0	0	0	1	0	2	1	1	1	0	3	5	5	0	3	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:23000163C>T	uc001yus.2	+	30	3621	c.3517C>T	c.(3517-3519)CGT>TGT	p.R1173C	CYFIP1_uc001yut.2_Missense_Mutation_p.R1173C|CYFIP1_uc001yuu.2_Missense_Mutation_p.R742C|CYFIP1_uc001yuv.2_Missense_Mutation_p.R367C	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	1173					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding	p.R1173H(1)		ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		GCAGCAGCGGCGTTTTGCTGT	0.448													13	50					0	0	1	0	0		T	23000163	T	T	23000163	3	4	27	1	0	0	0	0	1	0	0	0	4140	768	27	1	4012	1	CYFIP1	15	23000163	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	43617	23000163	79531229	6129	28480											
NIPA2	81614	broad.mit.edu	37	chr15	23006481	23006481	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accaatgacatcgtcaacagGcatatcttgccactccttaa	13	10	5	13	1	2	1	1	1	1	0	4	1	3	1	3	1	2	1	3	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:23006481G>T	uc001yux.2	-	8	1436	c.823C>A	c.(823-825)CCT>ACT	p.P275T	NIPA2_uc001yuy.2_Missense_Mutation_p.P275T|NIPA2_uc001yuz.2_Missense_Mutation_p.P275T|NIPA2_uc001yva.2_Missense_Mutation_p.P256T|NIPA2_uc001yvb.2_Missense_Mutation_p.P275T|NIPA2_uc010ayb.2_Missense_Mutation_p.P256T	NM_030922	NP_112184	Q8N8Q9	NIPA2_HUMAN	non imprinted in Prader-Willi/Angelman syndrome	275	Extracellular (Potential).					early endosome|integral to membrane|plasma membrane				haematopoietic_and_lymphoid_tissue(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;1.48e-06)|Epithelial(43;1.44e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000353)		TCGTCAACAGGCATATCTTGC	0.358													11	113					0.000673444	0.000703801	1	1	0		T	23006481	T	T	23006481	3	4	27	1	0	0	0	0	1	0	0	0	10442	1203	42	5	263	5	NIPA2	15	23006481	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6318	23006481	79524911	6130	28481											
NIPA2	81614	broad.mit.edu	37	chr15	23006661	23006661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaatccaagccaggggatGccgcagcacaggcttccctg	10	5	12	14	1	0	1	0	0	0	1	2	2	2	2	4	3	3	3	4	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:23006661G>A	uc001yux.2	-	8	1256	c.643C>T	c.(643-645)CAT>TAT	p.H215Y	NIPA2_uc001yuy.2_Missense_Mutation_p.H215Y|NIPA2_uc001yuz.2_Missense_Mutation_p.H215Y|NIPA2_uc001yva.2_Missense_Mutation_p.H196Y|NIPA2_uc001yvb.2_Missense_Mutation_p.H215Y|NIPA2_uc010ayb.2_Missense_Mutation_p.H196Y	NM_030922	NP_112184	Q8N8Q9	NIPA2_HUMAN	non imprinted in Prader-Willi/Angelman syndrome	215	Extracellular (Potential).					early endosome|integral to membrane|plasma membrane				haematopoietic_and_lymphoid_tissue(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;1.48e-06)|Epithelial(43;1.44e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000353)		GCCAGGGGATGCCGCAGCACA	0.502													10	107					0	0	1	0	0		A	23006661	A	A	23006661	3	1	27	1	0	0	0	0	1	0	0	0	10442	1319	46	2	443	2	NIPA2	15	23006661	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	180	23006661	79524731	6131	28482											
NDN	4692	broad.mit.edu	37	chr15	23931990	23931990	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagctgccgatgacatctttCaccatgtctggaaaccagat	11	11	8	11	1	3	2	1	1	2	1	3	4	3	3	3	1	3	1	3	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:23931990C>T	uc001ywk.2	-	1	461	c.375G>A	c.(373-375)GTG>GTA	p.V125V		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	125	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		TGACATCTTTCACCATGTCTG	0.602									Prader-Willi_syndrome				7	89					0	0	1	0	0		T	23931990	T	T	23931990	2	4	27	1	0	0	0	0	0	0	0	1	10266	813	29	4		4	NDN	15	23931990	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	925329	23931990	78599402	6132	28483											
SNRPN	6638	broad.mit.edu	37	chr15	25223574	25223574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccacctcccccaggaatgCgtccaccaagaccttagcat	10	7	7	17	1	0	1	0	0	0	1	3	2	3	2	7	1	2	1	7	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:25223574C>T	uc001ywp.1	+	13	1596	c.706C>T	c.(706-708)CGT>TGT	p.R236C	SNRPN_uc001ywq.1_Missense_Mutation_p.R236C|SNRPN_uc001ywr.1_Missense_Mutation_p.R236C|SNRPN_uc001yws.1_Missense_Mutation_p.R236C|SNRPN_uc001ywt.1_Missense_Mutation_p.R236C|SNRPN_uc001ywv.1_Missense_Mutation_p.R239C|SNRPN_uc001yww.1_Missense_Mutation_p.R236C|SNRPN_uc001ywx.1_Missense_Mutation_p.R236C|SNRPN_uc001ywz.1_Intron|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	236	Repeat-rich region.|				RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		CCCAGGAATGCGTCCACCAAG	0.458									Prader-Willi_syndrome				15	197					0	0	1	0	0		T	25223574	T	T	25223574	3	4	27	1	0	0	0	0	1	0	0	0	14895	768	27	1	732	1	SNRPN	15	25223574	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1291584	25223574	77307818	6133	28484											
UBE3A	7337	broad.mit.edu	37	chr15	25616489	25616489	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaacaaattcagataattagGatctcgagagtatacattgt	16	12	8	5	1	2	2	1	0	1	2	3	5	2	3	0	1	2	1	0	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:25616489G>A	uc001zaq.2	-	4	841	c.841C>T	c.(841-843)CCT>TCT	p.P281S	uc001zae.2_Intron|UBE3A_uc001zar.2_Missense_Mutation_p.P258S|UBE3A_uc001zas.2_Missense_Mutation_p.P278S|UBE3A_uc001zat.2_Missense_Mutation_p.P258S	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	281					brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		AGATAATTAGGATCTCGAGAG	0.358													8	79					0	0	1	0	0		A	25616489	A	A	25616489	3	1	27	1	0	0	0	0	1	0	0	0	16905	1174	41	4	1818	4	UBE3A	15	25616489	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	392915	25616489	76914903	6134	28485											
UBE3A	7337	broad.mit.edu	37	chr15	25616842	25616842	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttccggaagctctgtaccAatgcctcagcactagaaaaa	13	9	7	12	1	2	1	1	0	1	1	3	2	3	2	3	1	4	3	3	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:25616842A>G	uc001zaq.2	-	4	488	c.488T>C	c.(487-489)TTG>TCG	p.L163S	uc001zae.2_Intron|UBE3A_uc001zar.2_Missense_Mutation_p.L140S|UBE3A_uc001zas.2_Missense_Mutation_p.L160S|UBE3A_uc001zat.2_Missense_Mutation_p.L140S	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	163					brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		GCTCTGTACCAATGCCTCAGC	0.363													9	90					0	0	1	0	0		G	25616842	G	G	25616842	3	3	27	1	0	0	0	0	1	0	0	0	16905	131	5	3	2171	3	UBE3A	15	25616842	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	353	25616842	76914550	6135	28486											
ATP10A	57194	broad.mit.edu	37	chr15	25926195	25926195	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggcggcgtcggccatgttAaaccagaacgttcgtggccg	9	7	14	11	6	0	1	0	0	0	1	2	1	0	1	3	4	2	2	3	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:25926195A>G	uc010ayu.2	-	18	3625	c.3519T>C	c.(3517-3519)TTT>TTC	p.F1173F		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1173	Helical; (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CGGCCATGTTAAACCAGAACG	0.458													5	41					0	0	1	0	0		G	25926195	G	G	25926195	2	3	27	1	0	0	0	0	0	0	0	1	1117	359	13	3		3	ATP10A	15	25926195	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	309353	25926195	76605197	6136	28487											
ATP10A	57194	broad.mit.edu	37	chr15	25966960	25966960	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcactgcagctgcgagtctgTttcttcgtcatacaactgca	8	12	9	12	2	3	0	1	0	2	0	4	1	3	0	0	0	6	5	0	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:25966960T>C	uc010ayu.2	-	7	1313	c.1207A>G	c.(1207-1209)ACA>GCA	p.T403A		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	403	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TGCGAGTCTGTTTCTTCGTCA	0.413													11	126					0	0	1	0	0		C	25966960	C	C	25966960	3	2	27	1	0	0	0	0	1	0	0	0	1117	1725	60	3	3352	3	ATP10A	15	25966960	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	40765	25966960	76564432	6137	28488											
ATP10A	57194	broad.mit.edu	37	chr15	25981215	25981215	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atactcacatgcagccgcgaAacctactcaggtcgttgttt	10	11	8	12	3	2	0	2	0	0	0	3	1	2	0	2	1	5	3	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:25981215A>C	uc010ayu.2	-	3	834	c.728T>G	c.(727-729)TTT>TGT	p.F243C		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	243	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GCAGCCGCGAAACCTACTCAG	0.453													5	35					0	0	1	0	0		C	25981215	C	C	25981215	3	2	27	1	0	0	0	0	1	0	0	0	1117	14	1	5	3847	5	ATP10A	15	25981215	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14255	25981215	76550177	6138	28489											
GABRA5	2558	broad.mit.edu	37	chr15	27182338	27182338	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctcctcatacagatgcgtAccctaattctgaagtcgttt	9	13	6	13	2	2	2	1	1	1	1	4	2	3	2	3	0	3	2	3	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:27182338A>G	uc001zbd.1	+	9	926	c.587A>G	c.(586-588)TAC>TGC	p.Y196C	GABRB3_uc001zbb.2_Intron	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	196	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ACAGATGCGTACCCTAATTCT	0.498													5	90					0	0	1	0	0		G	27182338	G	G	27182338	3	3	27	1	0	0	0	0	1	0	0	0	6178	391	14	3	609	3	GABRA5	15	27182338	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1201123	27182338	75349054	6139	28490											
HERC2	8924	broad.mit.edu	37	chr15	28380769	28380769	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaatggattcaagcaatgTtggggtggacaccgactctg	10	10	13	8	1	2	1	1	1	1	0	2	4	2	3	1	4	1	2	1	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:28380769T>C	uc001zbj.2	-	79	12191	c.12085A>G	c.(12085-12087)ACA>GCA	p.T4029A		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4029	RCC1 14.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TCAAGCAATGTTGGGGTGGAC	0.463													7	103					0	0	1	0	0		C	28380769	C	C	28380769	3	2	27	1	0	0	0	0	1	0	0	0	7074	1725	60	3	2479	3	HERC2	15	28380769	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1198431	28380769	74150623	6140	28491											
HERC2	8924	broad.mit.edu	37	chr15	28386919	28386919	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcgtcttgctctcttttaAaaatgtcatggctctcatgc	7	17	7	10	1	4	0	2	0	3	0	7	0	4	0	0	1	2	3	0	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:28386919A>G	uc001zbj.2	-	77	11880	c.11774T>C	c.(11773-11775)TTT>TCT	p.F3925S		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3925					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CTCTCTTTTAAAAATGTCATG	0.378													16	201					0	0	1	0	0		G	28386919	G	G	28386919	3	3	27	1	0	0	0	0	1	0	0	0	7074	14	1	3	2798	3	HERC2	15	28386919	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6150	28386919	74144473	6141	28492											
HERC2	8924	broad.mit.edu	37	chr15	28422651	28422651	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttaaagccgtcgcgtgccgGccacctgcaacattcacaga	10	7	10	14	4	1	1	1	0	0	1	2	1	1	1	4	1	4	2	4	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:28422651G>A	uc001zbj.2	-	60	9274	c.9168C>T	c.(9166-9168)GGC>GGT	p.G3056G		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3056	RCC1 7.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TCGCGTGCCGGCCACCTGCAA	0.453													8	40					0	0	1	0	0		A	28422651	A	A	28422651	2	1	27	1	0	0	0	0	0	0	0	1	7074	1190	42	2		2	HERC2	15	28422651	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	35732	28422651	74108741	6142	28493											
HERC2	8924	broad.mit.edu	37	chr15	28441714	28441714	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttttccattggcactgaaAgctaggacagaacagaaatc	14	10	8	9	0	1	3	0	1	1	2	3	4	2	4	1	2	2	2	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:28441714A>G	uc001zbj.2	-	51	8119	c.8013T>C	c.(8011-8013)GCT>GCC	p.A2671A	HERC2_uc001zbk.1_Silent_p.A206A	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2671					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TGGCACTGAAAGCTAGGACAG	0.413													7	57					0	0	1	0	0		G	28441714	G	G	28441714	2	3	27	1	0	0	0	0	0	0	0	1	7074	86	3	3		3	HERC2	15	28441714	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19063	28441714	74089678	6143	28494											
HERC2	8924	broad.mit.edu	37	chr15	28463797	28463797	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgcagtggggtgaatgtTcctttcagtttgttcggctt	5	17	12	7	1	1	1	1	1	0	0	3	1	2	1	1	3	1	5	1	3	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:28463797T>A	uc001zbj.2	-	38	5972	c.5866A>T	c.(5866-5868)AAC>TAC	p.N1956Y		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1956					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GGGTGAATGTTCCTTTCAGTT	0.373													6	68					0	0	1	0	0		A	28463797	A	A	28463797	3	1	27	1	0	0	0	0	1	0	0	0	7074	1783	62	5	8862	5	HERC2	15	28463797	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	22083	28463797	74067595	6144	28495											
HERC2	8924	broad.mit.edu	37	chr15	28525254	28525254	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaaataccgctgctttTccacttaactttgacattct	11	14	5	11	1	1	2	0	1	1	1	2	3	2	2	2	0	3	2	2	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:28525254T>C	uc001zbj.2	-	5	608	c.502A>G	c.(502-504)AAA>GAA	p.K168E	HERC2_uc001zbl.1_5'UTR	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	168					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CCGCTGCTTTTCCACTTAACT	0.418													13	92					0	0	1	0	0		C	28525254	C	C	28525254	3	2	27	1	0	0	0	0	1	0	0	0	7074	1792	62	3	14358	3	HERC2	15	28525254	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	61457	28525254	74006138	6145	28496											
NDNL2	56160	broad.mit.edu	37	chr15	29561679	29561679	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttctggctcctgggcccCacggcgggggcggcctgggc	1	7	18	15	3	1	0	0	0	1	0	2	0	2	0	4	7	1	2	4	7	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:29561679C>A	uc001zco.2	-	1	339	c.231G>T	c.(229-231)GTG>GTT	p.V77V	FAM189A1_uc010azk.1_Intron	NM_138704	NP_619649	Q96MG7	MAGG1_HUMAN	necdin-like 2	77					regulation of growth	cytoplasm|nucleus					0		all_lung(180;4.69e-11)|Breast(32;0.0013)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00736)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		TCCTgggccccacggcggggg	0.522											OREG0032044	type=REGULATORY REGION|TFbs=RELA|Dataset=RELA (p65) ChIP-PET Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with paired-end diTag sequencing (ChIP-PET)	14	40					3.27435e-08	3.59419e-08	1	1	0		A	29561679	A	A	29561679	2	1	27	1	0	0	0	0	0	0	0	1	10267	581	21	5		5	NDNL2	15	29561679	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1036425	29561679	72969713	6146	28497											
MTMR10	54893	broad.mit.edu	37	chr15	31234015	31234015	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgatctgggcctcgggaacCcagcggaagtagcacagttt	9	8	13	11	2	1	1	0	1	1	0	2	3	1	3	2	3	3	3	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:31234015C>G	uc001zfh.1	-	16	2090	c.1992G>C	c.(1990-1992)TGG>TGC	p.W664C	MTMR15_uc001zff.2_3'UTR|MTMR15_uc001zfe.2_3'UTR|MTMR10_uc010ubk.1_Missense_Mutation_p.W78C|MTMR10_uc001zfg.1_Missense_Mutation_p.W245C|MTMR10_uc010azx.1_Missense_Mutation_p.W416C|MTMR10_uc001zfi.1_3'UTR	NM_017762	NP_060232	Q9NXD2	MTMRA_HUMAN	myotubularin related protein 10	664							phosphatase activity			ovary(1)	1		all_lung(180;2.81e-11)		all cancers(64;7.26e-15)|Epithelial(43;7.2e-11)|GBM - Glioblastoma multiforme(186;0.000158)|BRCA - Breast invasive adenocarcinoma(123;0.00426)|Lung(196;0.174)		CCTCGGGAACCCAGCGGAAGT	0.547													16	43					0	0	1	0	0		G	31234015	G	G	31234015	3	3	27	1	0	0	0	0	1	0	0	0	9957	624	22	5	345	5	MTMR10	15	31234015	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1672336	31234015	71297377	6147	28498											
TRPM1	4308	broad.mit.edu	37	chr15	31354888	31354888	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactagaagctgctccctgAgggactcatttattattctg	10	14	8	9	0	2	2	1	1	1	1	3	3	3	3	1	1	3	2	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:31354888A>G	uc001zfm.2	-	8	1045	c.917T>C	c.(916-918)CTC>CCC	p.L306P	TRPM1_uc010azy.2_Missense_Mutation_p.L213P|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	306	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		CTGCTCCCTGAGGGACTCATT	0.328													4	73					0	0	1	0	0		G	31354888	G	G	31354888	3	3	27	1	0	0	0	0	1	0	0	0	16611	304	11	3	3974	3	TRPM1	15	31354888	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	120873	31354888	71176504	6148	28499											
TRPM1	4308	broad.mit.edu	37	chr15	31358307	31358307	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttctgcagggagatgtgCttttccagcagccttcgcag	7	12	11	11	1	2	1	0	0	2	1	4	2	3	1	2	1	4	4	2	1	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:31358307C>T	uc001zfm.2	-	6	824	c.696G>A	c.(694-696)AAG>AAA	p.K232K	TRPM1_uc010azy.2_Silent_p.K145K|TRPM1_uc001zfl.2_RNA|uc010ubm.1_5'Flank|MIR211_hsa-mir-211|MI0000287_5'Flank	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	232	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		GGGAGATGTGCTTTTCCAGCA	0.552													12	148					0	0	1	0	0		T	31358307	T	T	31358307	2	4	27	1	0	0	0	0	0	0	0	1	16611	796	28	2		2	TRPM1	15	31358307	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3419	31358307	71173085	6149	28500											
KLF13	51621	broad.mit.edu	37	chr15	31664305	31664305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actaccgcacacacacgggcGagaagaagttcagctgcccc	12	4	10	15	3	1	2	1	0	0	2	1	3	1	2	3	1	3	3	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:31664305G>A	uc001zfo.2	+	2	1003	c.670G>A	c.(670-672)GAG>AAG	p.E224K		NM_015995	NP_057079	Q9Y2Y9	KLF13_HUMAN	Kruppel-like factor 13	224					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|zinc ion binding				0		all_lung(180;3.71e-11)		all cancers(64;1.11e-18)|Epithelial(43;1.73e-14)|GBM - Glioblastoma multiforme(186;0.00016)|Colorectal(1;0.00158)|BRCA - Breast invasive adenocarcinoma(123;0.00255)|COAD - Colon adenocarcinoma(236;0.0446)|READ - Rectum adenocarcinoma(1;0.13)|Lung(196;0.171)		ACACACGGGCGAGAAGAAGTT	0.657													13	23					0	0	1	0	0		A	31664305	A	A	31664305	3	1	27	1	0	0	0	0	1	0	0	0	8357	1059	37	1	676	1	KLF13	15	31664305	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	305998	31664305	70867087	6150	28501											
SCG5	6447	broad.mit.edu	37	chr15	32936006	32936006	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccatgaatcttgtgggcccCcagagcattgaaggtattta	10	11	11	9	0	1	3	0	2	1	1	1	3	1	3	3	2	1	2	3	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:32936006C>T	uc001zha.2	+	2	330	c.213C>T	c.(211-213)CCC>CCT	p.P71P	SCG5_uc001zgz.2_Silent_p.P71P	NM_001144757	NP_001138229	P05408	7B2_HUMAN	secretogranin V isoform 1	71					intracellular protein transport|neuropeptide signaling pathway|peptide hormone processing|regulation of hormone secretion	extracellular region|stored secretory granule	enzyme inhibitor activity|GTP binding|unfolded protein binding				0		all_lung(180;7.32e-08)		all cancers(64;6.48e-17)|Epithelial(43;1.23e-11)|GBM - Glioblastoma multiforme(186;1.39e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0212)		TTGTGGGCCCCCAGAGCATTG	0.403													6	40					0	0	1	0	0		T	32936006	T	T	32936006	2	4	27	1	0	0	0	0	0	0	0	1	13918	610	22	4		4	SCG5	15	32936006	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1271701	32936006	69595386	6151	28502											
FMN1	342184	broad.mit.edu	37	chr15	33192193	33192193	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatacccgacttttgacaTccttgagtttgggcagaatt	11	14	8	8	1	0	3	0	2	0	1	1	4	1	3	2	1	1	2	2	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:33192193T>A	uc001zhf.3	-	10	2972	c.2972A>T	c.(2971-2973)GAT>GTT	p.D991V		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	1214	FH2.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		ACTTTTGACATCCTTGAGTTT	0.348													12	235					0	0	1	0	0		A	33192193	A	A	33192193	3	1	27	1	0	0	0	0	1	0	0	0	5963	1435	50	5	650	5	FMN1	15	33192193	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	256187	33192193	69339199	6152	28503											
FMN1	342184	broad.mit.edu	37	chr15	33357235	33357235	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccagacagcttgaagtctgCcaggagtcctgtcatcctgc	8	9	11	13	0	2	2	1	1	1	1	4	3	4	3	4	1	3	1	4	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:33357235C>A	uc001zhf.3	-	2	1415	c.1415G>T	c.(1414-1416)GGC>GTC	p.G472V	FMN1_uc001zhg.2_Missense_Mutation_p.G472V	NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	695	Mediates interaction with alpha-catenin (By similarity).				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		TTGAAGTCTGCCAGGAGTCCT	0.478													21	168					5.26018e-13	5.86087e-13	1	1	0		A	33357235	A	A	33357235	3	1	27	1	0	0	0	0	1	0	0	0	5963	739	26	5	2239	5	FMN1	15	33357235	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	165042	33357235	69174157	6153	28504											
FMN1	342184	broad.mit.edu	37	chr15	33358942	33358942	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttgtggtactccagggcCgctctggctctcttggtcag	3	13	14	11	1	3	0	1	0	2	0	5	0	4	0	2	5	1	4	2	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:33358942C>A	uc001zhf.3	-	1	1144	c.1144G>T	c.(1144-1146)GGC>TGC	p.G382C	FMN1_uc001zhg.2_Missense_Mutation_p.G382C	NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	479	Microtubule-binding (By similarity).|Mediates interaction with alpha-catenin (By similarity).				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		ACTCCAGGGCCGCTCTGGCTC	0.572													8	107					0.0477658	0.0483837	1	1	0		A	33358942	A	A	33358942	3	1	27	1	0	0	0	0	1	0	0	0	5963	652	23	5	2514	5	FMN1	15	33358942	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1707	33358942	69172450	6154	28505											
FMN1	342184	broad.mit.edu	37	chr15	33359555	33359555	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttttctttggactcctgAgatggctcagataaaacacc	10	12	10	9	0	2	2	1	1	1	2	3	4	3	3	2	3	1	2	2	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:33359555A>C	uc001zhf.3	-	1	531	c.531T>G	c.(529-531)TCT>TCG	p.S177S	FMN1_uc001zhg.2_Silent_p.S177S	NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		TGGACTCCTGAGATGGCTCAG	0.512													20	54					0	0	1	0	0		C	33359555	C	C	33359555	2	2	27	1	0	0	0	0	0	0	0	1	5963	291	11	5		5	FMN1	15	33359555	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	613	33359555	69171837	6155	28506											
RYR3	6263	broad.mit.edu	37	chr15	33895365	33895365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggagtcgcggagggctcagCccagtacaagaagtggtact	10	6	16	9	2	1	1	1	0	0	1	2	3	1	3	1	4	3	3	1	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:33895365C>T	uc001zhi.2	+	18	2034	c.1964C>T	c.(1963-1965)GCC>GTC	p.A655V	RYR3_uc010bar.2_Missense_Mutation_p.A655V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	655	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GAGGGCTCAGCCCAGTACAAG	0.532													14	132					0	0	1	0	0		T	33895365	T	T	33895365	3	4	27	1	0	0	0	0	1	0	0	0	13795	739	26	2	2034	2	RYR3	15	33895365	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	535810	33895365	68636027	6156	28507											
RYR3	6263	broad.mit.edu	37	chr15	34140608	34140608	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggggcagtgggaccgcttGgtgatcaacacaccgtgagt	10	7	15	9	2	1	2	1	2	0	0	1	3	1	3	2	4	1	2	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:34140608G>A	uc001zhi.2	+	94	13684	c.13614G>A	c.(13612-13614)TTG>TTA	p.L4538L	RYR3_uc010bar.2_Silent_p.L4533L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4538					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGGACCGCTTGGTGATCAACA	0.473													6	76					0	0	1	0	0		A	34140608	A	A	34140608	2	1	27	1	0	0	0	0	0	0	0	1	13795	1339	47	4		4	RYR3	15	34140608	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	245243	34140608	68390784	6157	28508											
CHRM5	1133	broad.mit.edu	37	chr15	34355236	34355236	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtctggcttgtgacctttgGcttgcactggactacgtggc	5	13	13	10	1	1	1	0	1	1	0	1	2	1	2	1	4	2	3	1	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:34355236G>A	uc001zhk.1	+	3	988	c.318G>A	c.(316-318)TGG>TGA	p.W106*	CHRM5_uc001zhl.1_Nonsense_Mutation_p.W106*	NM_012125	NP_036257	P08912	ACM5_HUMAN	cholinergic receptor, muscarinic 5	106	Helical; Name=3; (By similarity).				cell proliferation|inhibition of adenylate cyclase activity by muscarinic acetylcholine receptor signaling pathway	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;1.76e-08)		all cancers(64;4.82e-17)|GBM - Glioblastoma multiforme(113;2.58e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0262)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)	GTGACCTTTGGCTTGCACTGG	0.512													5	73					0	0	1	0	0		A	34355236	A	A	34355236	4	1	27	1	0	0	0	0	0	1	0	0	3383	1212	42	2	320	2	CHRM5	15	34355236	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	214628	34355236	68176156	6158	28509											
SLC12A6	9990	broad.mit.edu	37	chr15	34537953	34537953	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcagcctcggtgcacctgTgaggctctgaagtccagccc	7	8	12	14	1	1	2	0	2	1	0	3	2	2	2	4	2	4	3	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:34537953T>C	uc001zhw.2	-	13	1929	c.1765A>G	c.(1765-1767)ACA>GCA	p.T589A	SLC12A6_uc001zhv.2_Missense_Mutation_p.T538A|SLC12A6_uc001zhx.2_Missense_Mutation_p.T574A|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.T530A|SLC12A6_uc001zib.2_Missense_Mutation_p.T580A|SLC12A6_uc001zic.2_Missense_Mutation_p.T589A|SLC12A6_uc010bau.2_Missense_Mutation_p.T589A|SLC12A6_uc001zid.2_Missense_Mutation_p.T530A|SLC12A6_uc001zht.2_RNA|SLC12A6_uc001zhu.2_Missense_Mutation_p.T401A	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	589					angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	GGTGCACCTGTGAGGCTCTGA	0.478													5	81					0	0	1	0	0		C	34537953	C	C	34537953	3	2	27	1	0	0	0	0	1	0	0	0	14412	1696	59	3	1739	3	SLC12A6	15	34537953	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	182717	34537953	67993439	6159	28510											
C15orf55	256646	broad.mit.edu	37	chr15	34648162	34648162	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagaggctctgcccctttgTtggcagggaggcttccagcc	5	10	13	13	0	2	1	1	0	1	1	3	2	3	2	4	4	2	4	4	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:34648162T>C	uc001zif.2	+	7	2024	c.1869T>C	c.(1867-1869)TGT>TGC	p.C623C	C15orf55_uc010ucc.1_Silent_p.C651C|C15orf55_uc010ucd.1_Silent_p.C641C	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	623						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		TGCCCCTTTGTTGGCAGGGAG	0.572			T	BRD3|BRD4	lethal midline carcinoma								4	39					0	0	1	0	0		C	34648162	C	C	34648162	2	2	27	1	0	0	0	0	0	0	0	1	1806	1731	60	3		3	C15orf55	15	34648162	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	110209	34648162	67883230	6160	28511											
GJD2	57369	broad.mit.edu	37	chr15	35045359	35045359	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcggactggtgcacagagtAggtgatgaagcaaagactgg	12	6	17	6	1	0	4	0	2	0	2	0	5	0	5	0	5	2	3	0	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:35045359A>T	uc001zis.1	-	2	286	c.286T>A	c.(286-288)TAC>AAC	p.Y96N	uc001zit.1_5'Flank	NM_020660	NP_065711	Q9UKL4	CXD2_HUMAN	gap junction protein, delta 2, 36kDa	96	Helical; (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_lung(180;9.67e-07)		all cancers(64;2.75e-18)|GBM - Glioblastoma multiforme(113;1.9e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		TGCACAGAGTAGGTGATGAAG	0.567													10	108					0	0	1	0	0		T	35045359	T	T	35045359	3	4	27	1	0	0	0	0	1	0	0	0	6432	420	15	5	683	5	GJD2	15	35045359	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	397197	35045359	67486033	6161	28512											
AQR	9716	broad.mit.edu	37	chr15	35185907	35185907	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtcctctgttctgggaagTtgtggtagatgttggatatg	7	15	15	4	0	2	1	0	0	2	1	3	4	3	3	1	3	0	4	1	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:35185907T>C	uc001ziv.2	-	23	2709	c.2528A>G	c.(2527-2529)AAC>AGC	p.N843S		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	843						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		TTCTGGGAAGTTGTGGTAGAT	0.323													14	201					0	0	1	0	0		C	35185907	C	C	35185907	3	2	27	1	0	0	0	0	1	0	0	0	835	1725	60	3	1981	3	AQR	15	35185907	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	140548	35185907	67345485	6162	28513											
ZNF770	54989	broad.mit.edu	37	chr15	35273848	35273848	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaaagtacattaggaagAcagggttgcccggtgctacc	12	8	11	10	1	0	1	0	0	0	1	1	2	1	2	3	3	4	3	3	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:35273848A>G	uc001ziw.2	-	3	2099	c.1788T>C	c.(1786-1788)TGT>TGC	p.C596C		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	596					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		CATTAGGAAGACAGGGTTGCC	0.433													5	114					0	0	1	0	0		G	35273848	G	G	35273848	2	3	27	1	0	0	0	0	0	0	0	1	18168	273	10	3		3	ZNF770	15	35273848	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	87941	35273848	67257544	6163	28514											
C15orf54	400360	broad.mit.edu	37	chr15	39544627	39544627	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataagttggagcagaaccaActatatggagaagtcataaa	19	8	9	5	0	1	2	1	0	0	2	1	4	1	3	1	2	3	2	1	2	9	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:39544627A>G	uc001zkg.2	+	2	659	c.291A>G	c.(289-291)CAA>CAG	p.Q97Q		NM_207445	NP_997328	Q8N8G6	CO054_HUMAN	hypothetical protein LOC400360	97											0		all_cancers(109;5.39e-14)|all_epithelial(112;3.14e-12)|Lung NSC(122;9.74e-10)|all_lung(180;2.23e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;1.19e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0706)		AGCAGAACCAACTATATGGAG	0.428													7	97					0	0	1	0	0		G	39544627	G	G	39544627	2	3	27	1	0	0	0	0	0	0	0	1	1805	40	2	3		3	C15orf54	15	39544627	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4270779	39544627	62986765	6164	28515											
FSIP1	161835	broad.mit.edu	37	chr15	40005645	40005645	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attaaaacaaaaagacttacCacattttccttcatcatttt	16	15	1	9	0	2	1	2	0	0	1	3	1	3	1	2	0	2	0	2	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:40005645C>T	uc001zki.2	-	10	1406	c.1188G>A	c.(1186-1188)GTG>GTA	p.V396V		NM_152597	NP_689810	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1	396										ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		AAAGACTTACCACATTTTCCT	0.229													9	134					0	0	1	0	0		T	40005645	T	T	40005645	2	4	27	1	0	0	0	0	0	0	0	1	6088	608	21	4		4	FSIP1	15	40005645	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	461018	40005645	62525747	6165	28516											
FSIP1	161835	broad.mit.edu	37	chr15	40068628	40068628	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctggttctgttgagagcAcctccaaagaagcatttgaa	12	11	9	9	0	1	3	0	2	1	2	3	4	3	3	3	1	2	4	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:40068628A>G	uc001zki.2	-	2	316	c.98T>C	c.(97-99)GTG>GCG	p.V33A		NM_152597	NP_689810	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1	33										ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		TGTTGAGAGCACCTCCAAAGA	0.393													11	109					0	0	1	0	0		G	40068628	G	G	40068628	3	3	27	1	0	0	0	0	1	0	0	0	6088	159	6	3	1691	3	FSIP1	15	40068628	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	62983	40068628	62462764	6166	28517											
GPR176	11245	broad.mit.edu	37	chr15	40094113	40094113	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcctcccgctgggaggcAtagggaatagagatggtgtt	8	9	16	8	2	0	1	0	0	0	1	2	4	1	3	2	5	0	3	2	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:40094113A>G	uc001zkj.1	-	3	1634	c.768T>C	c.(766-768)TAT>TAC	p.Y256Y	GPR176_uc010uck.1_Silent_p.Y196Y	NM_007223	NP_009154	Q14439	GP176_HUMAN	G protein-coupled receptor 176	256	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		all_cancers(109;4.05e-15)|all_epithelial(112;2.96e-13)|Lung NSC(122;8.53e-11)|all_lung(180;2.71e-09)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;4.4e-06)|BRCA - Breast invasive adenocarcinoma(123;0.123)		GCTGGGAGGCATAGGGAATAG	0.582											OREG0023053	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	78					0	0	1	0	0		G	40094113	G	G	40094113	2	3	27	1	0	0	0	0	0	0	0	1	6688	224	8	3		3	GPR176	15	40094113	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	25485	40094113	62437279	6167	28518											
GPR176	11245	broad.mit.edu	37	chr15	40099369	40099369	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacagaccaggctggcacaaAtccccgagcaggccaggttt	11	5	11	14	1	0	1	0	0	0	1	1	2	1	1	4	4	1	4	4	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:40099369A>C	uc001zkj.1	-	2	1129	c.263T>G	c.(262-264)ATT>AGT	p.I88S	GPR176_uc010uck.1_Missense_Mutation_p.I28S	NM_007223	NP_009154	Q14439	GP176_HUMAN	G protein-coupled receptor 176	88	Helical; Name=2; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		all_cancers(109;4.05e-15)|all_epithelial(112;2.96e-13)|Lung NSC(122;8.53e-11)|all_lung(180;2.71e-09)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;4.4e-06)|BRCA - Breast invasive adenocarcinoma(123;0.123)		GCTGGCACAAATCCCCGAGCA	0.507													11	119					0	0	1	0	0		C	40099369	C	C	40099369	3	2	27	1	0	0	0	0	1	0	0	0	6688	101	4	5	1292	5	GPR176	15	40099369	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5256	40099369	62432023	6168	28519											
PAK6	56924	broad.mit.edu	37	chr15	40558052	40558052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccccctacagacagtggtgCggggcagcgcgatgcctgtg	6	7	15	13	3	0	1	0	0	0	1	1	2	1	1	3	3	4	1	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:40558052C>T	uc010bbl.2	+	5	654	c.214C>T	c.(214-216)CGG>TGG	p.R72W	PAK6_uc010bbm.2_Missense_Mutation_p.R72W|PAK6_uc001zky.3_Missense_Mutation_p.R72W|PAK6_uc010bbn.2_Missense_Mutation_p.R72W|PAK6_uc001zlb.2_Missense_Mutation_p.R72W	NM_001128628	NP_001122100	Q9NQU5	PAK6_HUMAN	p21-activated kinase 6	72	Linker.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(5)|large_intestine(1)|ovary(1)|skin(1)	8		all_cancers(109;1.13e-18)|all_epithelial(112;1.62e-15)|Lung NSC(122;5.67e-11)|all_lung(180;1.41e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0823)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.51e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0544)		GACAGTGGTGCGGGGCAGCGC	0.612													8	23					0	0	1	0	0		T	40558052	T	T	40558052	3	4	27	1	0	0	0	0	1	0	0	0	11423	759	27	1	220	1	PAK6	15	40558052	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	458683	40558052	61973340	6169	28520											
PLCB2	5330	broad.mit.edu	37	chr15	40594733	40594733	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtccaccatgtccgggccGgacaccaccgtgagtgtctt	7	8	12	14	3	1	1	0	1	1	0	3	2	3	2	6	3	0	0	6	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:40594733G>A	uc001zld.2	-	4	610	c.309C>T	c.(307-309)TCC>TCT	p.S103S	PLCB2_uc010bbo.2_Silent_p.S103S|PLCB2_uc010ucm.1_Silent_p.S103S|PLCB2_uc001zle.3_Silent_p.S103S	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	103					activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		TGTCCGGGCCGGACACCACCG	0.587													9	30					0	0	1	0	0		A	40594733	A	A	40594733	2	1	27	1	0	0	0	0	0	0	0	1	12047	1103	39	1		1	PLCB2	15	40594733	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	36681	40594733	61936659	6170	28521											
DISP2	85455	broad.mit.edu	37	chr15	40656101	40656101	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttctccagccccctcacAgcgcgatgggacctggaagc	7	6	10	18	2	2	0	1	0	1	0	3	3	2	2	5	2	3	0	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:40656101A>C	uc001zlk.1	+	2	484	c.395A>C	c.(394-396)CAG>CCG	p.Q132P		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	132					smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		GCCCCCTCACAGCGCGATGGG	0.657													3	54					0	0	1	0	0		C	40656101	C	C	40656101	3	2	27	1	0	0	0	0	1	0	0	0	4546	188	7	5	401	5	DISP2	15	40656101	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	61368	40656101	61875291	6171	28522											
CHST14	113189	broad.mit.edu	37	chr15	40764141	40764141	+	Missense_Mutation	SNP	G	C	C																															tatggggctgagatagtgagGcggtacagggctggagcggg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:40764141G>C	uc001zlw.2	+	1	929	c.729G>C	c.(727-729)AGG>AGC	p.R243S		NM_130468	NP_569735	Q8NCH0	CHSTE_HUMAN	dermatan 4 sulfotransferase 1	243	Lumenal (Potential).				carbohydrate biosynthetic process|dermatan sulfate proteoglycan metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity|phosphate binding				0		all_cancers(109;2.34e-14)|all_epithelial(112;1.08e-11)|Lung NSC(122;2.95e-09)|all_lung(180;6.03e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0781)		AGATAGTGAGGCGGTACAGGG	0.602													4	145					0	0	1	0	0		C	40764141	C	C	40764141	3	2	27	1	0	0	0	0	1	0	0	0	3405	1194	42	5	731	5	CHST14	15	40764141	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	108040	40764141	61767251	6172	28523	56	2									
CHST14	113189	broad.mit.edu	37	chr15	40764146	40764146	+	Missense_Mutation	SNP	A	G	G																															ggctgagatagtgaggcggtAcagggctggagcggggccca																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:40764146A>G	uc001zlw.2	+	1	934	c.734A>G	c.(733-735)TAC>TGC	p.Y245C		NM_130468	NP_569735	Q8NCH0	CHSTE_HUMAN	dermatan 4 sulfotransferase 1	245	Lumenal (Potential).				carbohydrate biosynthetic process|dermatan sulfate proteoglycan metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity|phosphate binding				0		all_cancers(109;2.34e-14)|all_epithelial(112;1.08e-11)|Lung NSC(122;2.95e-09)|all_lung(180;6.03e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0781)		GTGAGGCGGTACAGGGCTGGA	0.607													5	147					0	0	1	0	0		G	40764146	G	G	40764146	3	3	27	1	0	0	0	0	1	0	0	0	3405	391	14	3	736	3	CHST14	15	40764146	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5	40764146	61767246	6173	28524	56	2									
RPUSD2	27079	broad.mit.edu	37	chr15	40862035	40862035	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcttgctgcacgtcttcAgtaccgagttccgagctcag	8	10	10	13	3	3	0	2	0	1	0	4	2	4	0	2	0	5	6	2	0	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:40862035A>G	uc001zmd.1	+	1	499	c.499A>G	c.(499-501)AGT>GGT	p.S167G		NM_152260	NP_689473	Q8IZ73	RUSD2_HUMAN	RNA pseudouridylate synthase domain containing	167					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			skin(1)	1		all_cancers(109;2.74e-14)|all_epithelial(112;1.64e-11)|Lung NSC(122;6.69e-09)|all_lung(180;1.22e-07)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.1e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0786)		GCACGTCTTCAGTACCGAGTT	0.622													5	18					0	0	1	0	0		G	40862035	G	G	40862035	3	3	27	1	0	0	0	0	1	0	0	0	13692	188	7	3	501	3	RPUSD2	15	40862035	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	97889	40862035	61669357	6174	28525											
RPUSD2	27079	broad.mit.edu	37	chr15	40866263	40866263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agttggacacaatagccttgGcatcagagaaggcagttgaa	14	8	12	7	0	1	2	1	1	0	1	1	4	1	3	1	3	1	4	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:40866263G>A	uc001zmd.1	+	3	1441	c.1441G>A	c.(1441-1443)GCA>ACA	p.A481T		NM_152260	NP_689473	Q8IZ73	RUSD2_HUMAN	RNA pseudouridylate synthase domain containing	481					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			skin(1)	1		all_cancers(109;2.74e-14)|all_epithelial(112;1.64e-11)|Lung NSC(122;6.69e-09)|all_lung(180;1.22e-07)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.1e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0786)		AATAGCCTTGGCATCAGAGAA	0.557													4	55					0	0	1	0	0		A	40866263	A	A	40866263	3	1	27	1	0	0	0	0	1	0	0	0	13692	1203	42	2	1451	2	RPUSD2	15	40866263	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4228	40866263	61665129	6175	28526											
CASC5	57082	broad.mit.edu	37	chr15	40915370	40915370	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actaccaagaaaaggaaagaAcagacagacctaactttgaa	21	5	7	8	0	0	5	0	1	0	4	0	6	0	6	2	1	3	0	2	1	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:40915370A>T	uc010bbs.1	+	11	3147	c.2986A>T	c.(2986-2988)ACA>TCA	p.T996S	CASC5_uc010ucq.1_Missense_Mutation_p.T820S|CASC5_uc001zme.2_Missense_Mutation_p.T970S|CASC5_uc010bbt.1_Missense_Mutation_p.T970S	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	996	2 X 104 AA approximate repeats.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		AAAGGAAAGAACAGACAGACC	0.393													7	47					0	0	1	0	0		T	40915370	T	T	40915370	3	4	27	1	0	0	0	0	1	0	0	0	2666	43	2	5	3024	5	CASC5	15	40915370	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	49107	40915370	61616022	6176	28527											
VPS18	57617	broad.mit.edu	37	chr15	41191463	41191463	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagagtgtgggttggaacaaGgcactgggcacggagagcag	11	5	19	6	1	0	2	0	0	0	2	0	5	0	3	0	5	2	4	0	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:41191463G>T	uc001zne.2	+	4	786	c.447G>T	c.(445-447)AAG>AAT	p.K149N		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	149					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		GTTGGAACAAGGCACTGGGCA	0.607													5	50					0.014758	0.0150623	1	1	0		T	41191463	T	T	41191463	3	4	27	1	0	0	0	0	1	0	0	0	17220	991	35	5	461	5	VPS18	15	41191463	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	276093	41191463	61339929	6177	28528											
VPS18	57617	broad.mit.edu	37	chr15	41192724	41192724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcaggactatgagcgggtgGtggcttaccactgtcagcac	8	9	14	10	1	1	1	1	1	0	0	1	2	1	2	1	4	4	3	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:41192724G>A	uc001zne.2	+	4	2047	c.1708G>A	c.(1708-1710)GTG>ATG	p.V570M		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	570					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		TGAGCGGGTGGTGGCTTACCA	0.597													13	113					0	0	1	0	0		A	41192724	A	A	41192724	3	1	27	1	0	0	0	0	1	0	0	0	17220	1261	44	4	1722	4	VPS18	15	41192724	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1261	41192724	61338668	6178	28529											
INO80	54617	broad.mit.edu	37	chr15	41352087	41352087	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactccagaaccttctgatgActtttctatcatgaggattt	10	15	7	9	0	3	4	1	3	2	1	4	6	4	5	2	1	1	0	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:41352087A>C	uc001zni.2	-	15	2033	c.1820T>G	c.(1819-1821)GTC>GGC	p.V607G	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	607	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.|Helicase ATP-binding.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						CCTTCTGATGACTTTTCTATC	0.333													9	75					0	0	1	0	0		C	41352087	C	C	41352087	3	2	27	1	0	0	0	0	1	0	0	0	7762	275	10	5	2938	5	INO80	15	41352087	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	159363	41352087	61179305	6179	28530											
EXD1	161829	broad.mit.edu	37	chr15	41482161	41482161	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccaagccggtctgcagAcccttcgcgatacgtgttta	7	10	10	14	4	1	1	0	0	1	1	3	2	2	1	4	1	3	2	4	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:41482161A>T	uc001znk.2	-	9	1047	c.856T>A	c.(856-858)TCT>ACT	p.S286T	EXD1_uc001znj.2_Missense_Mutation_p.S84T|EXD1_uc010ucv.1_Missense_Mutation_p.S344T	NM_152596	NP_689809	Q8NHP7	EXD1_HUMAN	exonuclease 3'-5' domain containing 1	286					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding			ovary(1)	1						CGGTCTGCAGACCCTTCGCGA	0.532													10	95					0	0	1	0	0		T	41482161	T	T	41482161	3	4	27	1	0	0	0	0	1	0	0	0	5305	275	10	5	696	5	EXD1	15	41482161	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	130074	41482161	61049231	6180	28531											
EXD1	161829	broad.mit.edu	37	chr15	41509324	41509324	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcttttgctctcactgaGccttgttccacttcatctag	6	16	7	12	0	3	1	2	1	2	0	5	2	4	1	2	0	3	3	2	0	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:41509324G>A	uc001znk.2	-	2	248	c.57C>T	c.(55-57)GGC>GGT	p.G19G	EXD1_uc010ucv.1_Silent_p.G77G	NM_152596	NP_689809	Q8NHP7	EXD1_HUMAN	exonuclease 3'-5' domain containing 1	19					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding			ovary(1)	1						CTCTCACTGAGCCTTGTTCCA	0.363													6	42					0	0	1	0	0		A	41509324	A	A	41509324	2	1	27	1	0	0	0	0	0	0	0	1	5305	958	34	2		2	EXD1	15	41509324	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27163	41509324	61022068	6181	28532											
NUSAP1	51203	broad.mit.edu	37	chr15	41663789	41663789	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagactccagccagaaagTctgcacatgtgaccgtgtct	11	8	9	13	1	2	3	0	1	2	2	3	3	3	3	4	0	2	1	4	0	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:41663789T>A	uc001zns.3	+	8	1143	c.913T>A	c.(913-915)TCT>ACT	p.S305T	NUSAP1_uc001znq.3_Missense_Mutation_p.S110T|NUSAP1_uc001znr.3_Missense_Mutation_p.S304T|NUSAP1_uc010bce.2_Missense_Mutation_p.S305T|NUSAP1_uc001znt.3_Missense_Mutation_p.S290T|NUSAP1_uc001znv.3_Missense_Mutation_p.S303T|NUSAP1_uc001znu.3_Missense_Mutation_p.S304T|NUSAP1_uc010ucw.1_Missense_Mutation_p.S281T|NUSAP1_uc001znw.3_Missense_Mutation_p.S109T	NM_016359	NP_057443	Q9BXS6	NUSAP_HUMAN	nucleolar and spindle associated protein 1	305	Interaction with microtubules (By similarity).				cytokinesis after mitosis|establishment of mitotic spindle localization|mitotic chromosome condensation|positive regulation of mitosis	chromosome|cytoplasm|nucleolus	DNA binding				0		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;9.63e-17)|GBM - Glioblastoma multiforme(113;1.59e-06)|BRCA - Breast invasive adenocarcinoma(123;0.168)		AGCCAGAAAGTCTGCACATGT	0.478													4	56					0	0	1	0	0		A	41663789	A	A	41663789	3	1	27	1	0	0	0	0	1	0	0	0	10797	1667	58	5	943	5	NUSAP1	15	41663789	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	154465	41663789	60867603	6182	28533											
RPAP1	26015	broad.mit.edu	37	chr15	41815492	41815492	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctgactcagcagtggcaGcagcagctcctctgacaggc	8	6	14	13	0	2	2	1	2	1	0	3	2	3	2	1	3	4	6	1	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:41815492G>A	uc001zod.2	-	18	2621	c.2497C>T	c.(2497-2499)CTG>TTG	p.L833L	RPAP1_uc001zoc.2_5'UTR	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	833	Leu-rich.					nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		AGCAGTGGCAGCAGCAGCTCC	0.587													5	42					0	0	1	0	0		A	41815492	A	A	41815492	2	1	27	1	0	0	0	0	0	0	0	1	13566	962	34	2		2	RPAP1	15	41815492	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	151703	41815492	60715900	6183	28534											
MGA	23269	broad.mit.edu	37	chr15	42028759	42028759	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaggatatctctcctgtgCagacagatgccctggattca	9	11	11	10	0	2	2	1	0	1	2	4	5	3	5	2	3	2	1	2	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:42028759C>T	uc010ucy.1	+	13	4478	c.4297C>T	c.(4297-4299)CAG>TAG	p.Q1433*	MGA_uc010ucz.1_Nonsense_Mutation_p.Q1433*|MGA_uc010uda.1_Intron	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1433						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		CTCTCCTGTGCAGACAGATGC	0.493													7	57					0	0	1	0	0		T	42028759	T	T	42028759	4	4	27	1	0	0	0	0	0	1	0	0	9558	711	25	2	4343	2	MGA	15	42028759	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	213267	42028759	60502633	6184	28535											
MGA	23269	broad.mit.edu	37	chr15	42041713	42041713	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttcccttcagatgaagAgagaatctcagaatccagac	13	10	8	10	0	2	6	2	1	1	5	5	7	4	6	2	0	1	1	2	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:42041713A>G	uc010ucy.1	+	17	6089	c.5908A>G	c.(5908-5910)AGA>GGA	p.R1970G	MGA_uc010ucz.1_Missense_Mutation_p.R1761G|MGA_uc010uda.1_Missense_Mutation_p.R586G|MGA_uc001zoi.2_Missense_Mutation_p.R184G	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1931	Basic motif.					MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		TCAGATGAAGAGAGAATCTCA	0.443													5	58					0	0	1	0	0		G	42041713	G	G	42041713	3	3	27	1	0	0	0	0	1	0	0	0	9558	296	11	3	5970	3	MGA	15	42041713	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	12954	42041713	60489679	6185	28536											
SPTBN5	51332	broad.mit.edu	37	chr15	42147511	42147511	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcgaggagcagggtctctcGctccagctggtgtagctgca	6	9	15	11	2	1	0	0	0	1	0	5	2	2	1	1	3	4	6	1	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:42147511G>A	uc001zos.2	-	55	9562	c.9229C>T	c.(9229-9231)CGA>TGA	p.R3077*		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	3112	Spectrin 28.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		AGGGTCTCTCGCTCCAGCTGG	0.692													3	33					0	0	1	0	0		A	42147511	A	A	42147511	4	1	27	1	0	0	0	0	0	1	0	0	15147	1095	38	1	1746	1	SPTBN5	15	42147511	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	105798	42147511	60383881	6186	28537											
PLA2G4E	123745	broad.mit.edu	37	chr15	42298290	42298290	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatctggtgtcactgtgtcTtcatcacagacactcaactc	9	13	6	13	0	7	1	5	0	2	1	8	1	7	1	0	1	1	0	0	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:42298290T>C	uc001zow.1	-	3	336	c.336A>G	c.(334-336)GAA>GAG	p.E112E		NM_001080490	NP_001073959	Q3MJ16	PA24E_HUMAN	phospholipase A2, group 4E	123	C2.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity				0		all_cancers(109;8.09e-13)|all_epithelial(112;2.03e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.0273)		OV - Ovarian serous cystadenocarcinoma(18;7.61e-18)|GBM - Glioblastoma multiforme(94;3.07e-06)		TCACTGTGTCTTCATCACAGA	0.512													5	81					0	0	1	0	0		C	42298290	C	C	42298290	2	2	27	1	0	0	0	0	0	0	0	1	12024	1606	56	3		3	PLA2G4E	15	42298290	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	150779	42298290	60233102	6187	28538											
ZFP106	64397	broad.mit.edu	37	chr15	42731697	42731697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgatgtcaaagtggattctgCctgttgttcaggctggtcag	7	14	13	7	0	4	1	3	1	1	0	4	2	4	2	1	3	1	3	1	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:42731697C>T	uc001zpw.2	-	8	4344	c.4009G>A	c.(4009-4011)GCA>ACA	p.A1337T	ZFP106_uc001zpu.2_Missense_Mutation_p.A435T|ZFP106_uc001zpv.2_Missense_Mutation_p.A522T|ZFP106_uc001zpx.2_Missense_Mutation_p.A565T	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1337						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GTGGATTCTGCCTGTTGTTCA	0.473													13	138					0	0	1	0	0		T	42731697	T	T	42731697	3	4	27	1	0	0	0	0	1	0	0	0	17662	739	26	2	1690	2	ZFP106	15	42731697	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	433407	42731697	59799695	6188	28539											
ZFP106	64397	broad.mit.edu	37	chr15	42731731	42731731	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtcagctggagagtggggTtccttctccaaaggggtttc	6	12	15	8	0	2	1	1	0	1	1	5	2	3	1	2	6	1	3	2	6	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:42731731T>C	uc001zpw.2	-	8	4310	c.3975A>G	c.(3973-3975)GAA>GAG	p.E1325E	ZFP106_uc001zpu.2_Silent_p.E423E|ZFP106_uc001zpv.2_Silent_p.E510E|ZFP106_uc001zpx.2_Silent_p.E553E	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1325						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GAGAGTGGGGTTCCTTCTCCA	0.473													14	118					0	0	1	0	0		C	42731731	C	C	42731731	2	2	27	1	0	0	0	0	0	0	0	1	17662	1722	60	3		3	ZFP106	15	42731731	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	34	42731731	59799661	6189	28540											
CDAN1	146059	broad.mit.edu	37	chr15	43021290	43021290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtccggcgcaaggagggcGgctggttgtggaaaaaggcc	8	5	19	9	4	0	0	0	0	0	0	1	2	1	2	2	8	0	3	2	8	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:43021290G>A	uc001zql.2	-	19	2693	c.2576C>T	c.(2575-2577)CCG>CTG	p.P859L	CDAN1_uc001zqj.2_RNA|CDAN1_uc001zqk.2_Missense_Mutation_p.P185L	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	859						integral to membrane	protein binding			ovary(2)	2		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		CAAGGAGGGCGGCTGGTTGTG	0.597													16	75					0	0	1	0	0		A	43021290	A	A	43021290	3	1	27	1	0	0	0	0	1	0	0	0	3057	1116	39	1	1147	1	CDAN1	15	43021290	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	289559	43021290	59510102	6190	28541											
CDAN1	146059	broad.mit.edu	37	chr15	43026186	43026186	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactggagaagttggcacgAttgtcagtctctggctgaaa	10	11	12	8	1	3	2	2	1	1	1	4	4	3	2	0	3	0	3	0	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:43026186A>T	uc001zql.2	-	8	1434	c.1317T>A	c.(1315-1317)AAT>AAA	p.N439K	CDAN1_uc001zqk.2_5'UTR|CDAN1_uc010bcx.1_RNA	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	439						integral to membrane	protein binding			ovary(2)	2		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		AGTTGGCACGATTGTCAGTCT	0.463													9	63					0	0	1	0	0		T	43026186	T	T	43026186	3	4	27	1	0	0	0	0	1	0	0	0	3057	330	12	5	2450	5	CDAN1	15	43026186	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4896	43026186	59505206	6191	28542											
UBR1	197131	broad.mit.edu	37	chr15	43367236	43367236	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaaagggccagttttccAtgcctctgtgtctccacagt	10	11	8	12	0	2	0	0	0	2	0	4	0	3	0	4	1	1	1	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:43367236A>G	uc001zqq.2	-	4	535	c.469T>C	c.(469-471)TGG>CGG	p.W157R	UBR1_uc010udk.1_Missense_Mutation_p.W157R	NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	157	UBR-type.				cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			lung(1)	1		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		CCAGTTTTCCATGCCTCTGTG	0.358													63	238					0	0	1	0	0		G	43367236	G	G	43367236	3	3	27	1	0	0	0	0	1	0	0	0	16927	217	8	3	4956	3	UBR1	15	43367236	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	341050	43367236	59164156	6192	28543											
EPB42	2038	broad.mit.edu	37	chr15	43500968	43500968	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagggattcccaggcatcGcagcactgtgagaagagggg	10	5	17	9	1	0	2	0	1	0	2	2	4	1	3	1	5	1	4	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:43500968G>A	uc001zra.3	-	7	1138	c.838C>T	c.(838-840)CGA>TGA	p.R280*	EPB42_uc001zqz.3_5'UTR|EPB42_uc010bde.2_Nonsense_Mutation_p.R125*|EPB42_uc001zrb.3_Nonsense_Mutation_p.R310*|EPB42_uc010udm.1_Nonsense_Mutation_p.R202*	NM_001114134	NP_001107606	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2 isoform 2	280			R -> Q (in SPH5; Tozeur).		erythrocyte maturation|peptide cross-linking|regulation of cell shape	cytoplasm|cytoskeleton|plasma membrane	ATP binding|protein binding|protein-glutamine gamma-glutamyltransferase activity|structural constituent of cytoskeleton			ovary(2)	2		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		CCCAGGCATCGCAGCACTGTG	0.607													12	38					0	0	1	0	0		A	43500968	A	A	43500968	4	1	27	1	0	0	0	0	0	1	0	0	5166	1095	38	1	1265	1	EPB42	15	43500968	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	133732	43500968	59030424	6193	28544											
LCMT2	9836	broad.mit.edu	37	chr15	43622496	43622496	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaaaagcgcgcacgcagtgCctcacggcgcgtgcgcggac	10	3	14	14	8	1	0	1	0	0	0	1	1	1	1	1	2	3	2	1	2	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:43622496C>T	uc001zrg.2	-	1	396	c.192G>A	c.(190-192)AGG>AGA	p.R64R	LCMT2_uc010udn.1_Intron|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	64					tRNA processing		methyltransferase activity|protein binding				0		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.1e-07)	L-Leucine(DB00149)	GCACGCAGTGCCTCACGGCGC	0.677													8	41					0	0	1	0	0		T	43622496	T	T	43622496	2	4	27	1	0	0	0	0	0	0	0	1	8695	738	26	2		2	LCMT2	15	43622496	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	121528	43622496	58908896	6194	28545											
TP53BP1	7158	broad.mit.edu	37	chr15	43701152	43701152	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggcaacagataattacggTagttctggagctggttggca	10	11	13	7	1	1	1	0	0	1	1	1	2	1	2	0	5	3	6	0	5	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:43701152T>C	uc001zrs.2	-	26	5676	c.5528A>G	c.(5527-5529)TAC>TGC	p.Y1843C	TP53BP1_uc010udp.1_Missense_Mutation_p.Y1841C|TP53BP1_uc001zrq.3_Missense_Mutation_p.Y1846C|TP53BP1_uc001zrr.3_Missense_Mutation_p.Y1848C|TP53BP1_uc001zrp.2_Missense_Mutation_p.Y260C	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	1843	BRCT 1.				double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		ATAATTACGGTAGTTCTGGAG	0.498								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					14	82					0	0	1	0	0		C	43701152	C	C	43701152	3	2	27	1	0	0	0	0	1	0	0	0	16409	1638	57	3	402	3	TP53BP1	15	43701152	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	78656	43701152	58830240	6195	28546											
TP53BP1	7158	broad.mit.edu	37	chr15	43714210	43714210	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtgcggtgtaagctggAtgccttggaggagaaggagc	9	9	18	5	1	0	2	0	1	0	1	0	6	0	5	1	5	4	2	1	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:43714210A>G	uc001zrs.2	-	19	4076	c.3928T>C	c.(3928-3930)TCC>CCC	p.S1310P	TP53BP1_uc010udp.1_Missense_Mutation_p.S1310P|TP53BP1_uc001zrq.3_Missense_Mutation_p.S1315P|TP53BP1_uc001zrr.3_Missense_Mutation_p.S1315P|TP53BP1_uc010udq.1_Missense_Mutation_p.S1315P	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	1310					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		TGTAAGCTGGATGCCTTGGAG	0.547								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					8	93					0	0	1	0	0		G	43714210	G	G	43714210	3	3	27	1	0	0	0	0	1	0	0	0	16409	333	12	3	2030	3	TP53BP1	15	43714210	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	13058	43714210	58817182	6196	28547											
TP53BP1	7158	broad.mit.edu	37	chr15	43733752	43733752	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactcagcaacagcagtagAtccattttttctttcaccag	12	12	6	11	0	3	2	2	0	1	2	4	2	4	2	2	0	3	3	2	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:43733752A>T	uc001zrs.2	-	15	3203	c.3055T>A	c.(3055-3057)TCT>ACT	p.S1019T	TP53BP1_uc010udp.1_Missense_Mutation_p.S1019T|TP53BP1_uc001zrq.3_Missense_Mutation_p.S1024T|TP53BP1_uc001zrr.3_Missense_Mutation_p.S1024T|TP53BP1_uc010udq.1_Missense_Mutation_p.S1024T	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	1019					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		ACAGCAGTAGATCCATTTTTT	0.388								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					11	117					0	0	1	0	0		T	43733752	T	T	43733752	3	4	27	1	0	0	0	0	1	0	0	0	16409	333	12	5	2919	5	TP53BP1	15	43733752	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19542	43733752	58797640	6197	28548											
MAP1A	4130	broad.mit.edu	37	chr15	43817621	43817621	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccctgatgaacacattcTgacacctgatagctccttct	11	11	6	13	0	2	4	0	4	2	0	3	4	3	4	3	0	3	1	3	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:43817621T>C	uc001zrt.2	+	4	4417	c.3950T>C	c.(3949-3951)CTG>CCG	p.L1317P		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1317						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	GAACACATTCTGACACCTGAT	0.498													10	85					0	0	1	0	0		C	43817621	C	C	43817621	3	2	27	1	0	0	0	0	1	0	0	0	9245	1580	55	3	3952	3	MAP1A	15	43817621	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	83869	43817621	58713771	6198	28549											
STRC	161497	broad.mit.edu	37	chr15	43892737	43892737	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcccagctccccacctgctAtggtgccaatttcagtgaag	8	9	10	14	0	1	1	1	1	0	0	2	1	2	1	5	2	3	2	5	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:43892737A>G	uc001zsf.2	-	26	5066	c.4988T>C	c.(4987-4989)ATA>ACA	p.I1663T	STRC_uc010bdl.2_Missense_Mutation_p.I890T|STRC_uc001zse.2_Missense_Mutation_p.I181T	NM_153700	NP_714544	Q7RTU9	STRC_HUMAN	stereocilin precursor	1663					sensory perception of sound	cell surface					0		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		CCCACCTGCTATGGTGCCAAT	0.547													13	48					0	0	1	0	0		G	43892737	G	G	43892737	3	3	27	1	0	0	0	0	1	0	0	0	15353	449	16	3	355	3	STRC	15	43892737	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	75116	43892737	58638655	6199	28550											
CATSPER2	117155	broad.mit.edu	37	chr15	43924970	43924970	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaataggaagaggatgtggaGgagacacaggaggaagactg	16	4	18	3	0	0	3	0	0	0	3	0	10	0	8	0	6	0	0	0	6	4	1	rs140242525		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:43924970G>T	uc001zsh.2	-	11	1556	c.1341C>A	c.(1339-1341)TCC>TCA	p.S447S	STRC_uc010udz.1_5'Flank|CATSPER2_uc010bdm.2_Intron|CATSPER2_uc001zsi.2_Silent_p.S445S|CATSPER2_uc001zsj.2_Silent_p.S445S	NM_172095	NP_742093	Q96P56	CTSR2_HUMAN	sperm-associated cation channel 2 isoform 2	447	Cytoplasmic (Potential).|Ser-rich.				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|protein binding|voltage-gated ion channel activity			ovary(1)	1		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		aggatgtggaggagacacagg	0.264													11	143					3.07112e-06	3.32223e-06	1	1	0		T	43924970	T	T	43924970	2	4	27	1	0	0	0	0	0	0	0	1	2691	987	35	5		5	CATSPER2	15	43924970	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	32233	43924970	58606422	6200	28551											
CKMT1A	548596	broad.mit.edu	37	chr15	43991208	43991208	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcatcgatggagtaaactAtttgattgattgtgaacggc	11	13	12	5	2	1	3	1	3	0	0	2	5	1	4	0	3	2	1	0	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:43991208A>G	uc001zsn.2	+	10	1567	c.1175A>G	c.(1174-1176)TAT>TGT	p.Y392C	CKMT1A_uc010uea.1_Missense_Mutation_p.Y423C|CKMT1A_uc001zso.3_Missense_Mutation_p.Y392C	NM_001015001	NP_001015001	P12532	KCRU_HUMAN	creatine kinase, mitochondrial 1A precursor	392	Phosphagen kinase C-terminal.				creatine metabolic process	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)	Creatine(DB00148)	GGAGTAAACTATTTGATTGAT	0.483													16	121					0	0	1	0	0		G	43991208	G	G	43991208	3	3	27	1	0	0	0	0	1	0	0	0	3452	449	16	3	1209	3	CKMT1A	15	43991208	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	66238	43991208	58540184	6201	28552											
CTDSPL2	51496	broad.mit.edu	37	chr15	44751387	44751387	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaaaaatttattaaaggaAgcacacctaaggtaatgatt	19	12	6	4	0	0	1	0	1	0	0	0	2	0	2	1	2	1	2	1	2	9	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:44751387A>G	uc001ztr.2	+	2	591	c.175A>G	c.(175-177)AGC>GGC	p.S59G	CTDSPL2_uc001zts.2_Missense_Mutation_p.S59G|CTDSPL2_uc001ztt.2_Missense_Mutation_p.S59G|CTDSPL2_uc010bdv.2_Missense_Mutation_p.S59G	NM_016396	NP_057480	Q05D32	CTSL2_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	59							phosphoprotein phosphatase activity				0		all_cancers(109;4.36e-14)|all_epithelial(112;9.8e-12)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.0122)		all cancers(107;1.02e-20)|GBM - Glioblastoma multiforme(94;1.49e-06)|COAD - Colon adenocarcinoma(120;0.0857)|Colorectal(105;0.0905)		TATTAAAGGAAGCACACCTAA	0.254													3	75					0	0	1	0	0		G	44751387	G	G	44751387	3	3	27	1	0	0	0	0	1	0	0	0	4009	72	3	3	177	3	CTDSPL2	15	44751387	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	760179	44751387	57780005	6202	28553											
SPG11	80208	broad.mit.edu	37	chr15	44877948	44877948	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagatctacattcatgctgAagattctcaatgctgtagct	12	14	7	8	0	3	3	2	1	2	2	4	3	3	3	0	0	4	4	0	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:44877948A>G	uc001ztx.2	-	29	5038	c.5007T>C	c.(5005-5007)CTT>CTC	p.L1669L	SPG11_uc010bdw.2_5'Flank|SPG11_uc010ueh.1_Silent_p.L1669L|SPG11_uc010uei.1_Silent_p.L1669L|SPG11_uc001zty.1_Silent_p.L398L	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	1669	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		ATTCATGCTGAAGATTCTCAA	0.408													7	102					0	0	1	0	0		G	44877948	G	G	44877948	2	3	27	1	0	0	0	0	0	0	0	1	15066	233	9	3		3	SPG11	15	44877948	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	126561	44877948	57653444	6203	28554											
DUOX2	50506	broad.mit.edu	37	chr15	45398417	45398417	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagaggctgcagctggAccacacggagcacagtgaga	11	4	15	11	1	0	2	0	1	0	2	0	5	0	4	1	3	4	6	1	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:45398417A>G	uc010bea.2	-	17	2257	c.2054T>C	c.(2053-2055)GTC>GCC	p.V685A	DUOX2_uc001zun.2_Missense_Mutation_p.V685A	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	685	Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		CTGCAGCTGGACCACACGGAG	0.587													5	40					0	0	1	0	0		G	45398417	G	G	45398417	3	3	27	1	0	0	0	0	1	0	0	0	4807	275	10	3	2664	3	DUOX2	15	45398417	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	520469	45398417	57132975	6204	28555											
DUOXA1	90527	broad.mit.edu	37	chr15	45415136	45415136	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagaaagatcatgatgatgCtggccaaagtggtgtccatc	12	10	11	8	0	2	4	2	2	0	2	4	4	3	4	2	2	1	1	2	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:45415136C>A	uc001zuq.1	-	1	106	c.77G>T	c.(76-78)AGC>ATC	p.S26I	DUOXA1_uc010uem.1_Missense_Mutation_p.S26I|DUOXA1_uc001zup.2_Missense_Mutation_p.S26I|DUOXA1_uc010bec.2_Missense_Mutation_p.S26I|DUOXA1_uc001zur.1_Missense_Mutation_p.S26I|DUOXA1_uc010bed.1_Missense_Mutation_p.S26I	NM_144565	NP_653166	Q1HG43	DOXA1_HUMAN	Numb-interacting protein	26	Helical; (Potential).				protein transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1		all_cancers(109;6.02e-08)|all_epithelial(112;1.83e-06)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.82e-18)|GBM - Glioblastoma multiforme(94;4.39e-07)|COAD - Colon adenocarcinoma(120;0.0676)|Colorectal(133;0.0686)		CATGATGATGCTGGCCAAAGT	0.577													10	89					0.0809354	0.0819216	1	1	0		A	45415136	A	A	45415136	3	1	27	1	0	0	0	0	1	0	0	0	4808	797	28	5	1406	5	DUOXA1	15	45415136	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16719	45415136	57116256	6205	28556											
DUOX1	53905	broad.mit.edu	37	chr15	45445594	45445594	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttagtcttacacagtgtgggCcatgtggtgaatgtgtacct	8	14	12	7	0	1	1	0	1	1	0	1	1	1	1	2	2	2	1	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:45445594C>T	uc001zus.1	+	27	3787	c.3441C>T	c.(3439-3441)GGC>GGT	p.G1147G	DUOX1_uc001zut.1_Silent_p.G1147G|DUOX1_uc010bee.1_Silent_p.G527G	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	1147	Ferric oxidoreductase.|Interaction with TXNDC11 (By similarity).|Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		ACAGTGTGGGCCATGTGGTGA	0.557													36	161					0	0	1	0	0		T	45445594	T	T	45445594	2	4	27	1	0	0	0	0	0	0	0	1	4806	726	26	2		2	DUOX1	15	45445594	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	30458	45445594	57085798	6206	28557											
SEMA6D	80031	broad.mit.edu	37	chr15	48060784	48060784	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgccaccacagacatggAggtatcttcatcttctgtta	9	14	8	10	0	4	1	1	0	3	1	4	2	4	2	2	2	1	3	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48060784A>G	uc010bek.2	+	18	2132	c.1772A>G	c.(1771-1773)GAG>GGG	p.E591G	SEMA6D_uc001zvw.2_Intron|SEMA6D_uc001zvy.2_Missense_Mutation_p.E591G|SEMA6D_uc001zvz.2_Intron|SEMA6D_uc001zwa.2_Missense_Mutation_p.E572G|SEMA6D_uc001zwb.2_Intron|SEMA6D_uc001zwc.2_Intron	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	591	Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		ACAGACATGGAGGTATCTTCA	0.343													3	46					0	0	1	0	0		G	48060784	G	G	48060784	3	3	27	1	0	0	0	0	1	0	0	0	14067	304	11	3	1881	3	SEMA6D	15	48060784	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2615190	48060784	54470608	6207	28558											
SEMA6D	80031	broad.mit.edu	37	chr15	48063628	48063628	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcctggagtcccaatgacTtctctggaaagacaaagagg	13	8	10	10	0	1	3	0	1	1	2	4	5	3	5	2	3	0	0	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48063628T>G	uc010bek.2	+	19	3228	c.2868T>G	c.(2866-2868)ACT>ACG	p.T956T	SEMA6D_uc001zvw.2_Silent_p.T894T|SEMA6D_uc001zvy.2_Silent_p.T956T|SEMA6D_uc001zvz.2_Silent_p.T900T|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Silent_p.T894T|SEMA6D_uc001zwc.2_Silent_p.T881T	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	956	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		TCCCAATGACTTCTCTGGAAA	0.468													9	90					0	0	1	0	0		G	48063628	G	G	48063628	2	3	27	1	0	0	0	0	0	0	0	1	14067	1596	56	5		5	SEMA6D	15	48063628	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2844	48063628	54467764	6208	28559											
SEMA6D	80031	broad.mit.edu	37	chr15	48063661	48063661	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagaggttatcacaaaaaTtcctcccagaggcactctat	15	9	6	11	0	2	2	1	0	1	2	4	2	4	2	2	2	0	2	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48063661T>A	uc010bek.2	+	19	3261	c.2901T>A	c.(2899-2901)AAT>AAA	p.N967K	SEMA6D_uc001zvw.2_Missense_Mutation_p.N905K|SEMA6D_uc001zvy.2_Missense_Mutation_p.N967K|SEMA6D_uc001zvz.2_Missense_Mutation_p.N911K|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Missense_Mutation_p.N905K|SEMA6D_uc001zwc.2_Missense_Mutation_p.N892K	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	967	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		ATCACAAAAATTCCTCCCAGA	0.453													8	83					0	0	1	0	0		A	48063661	A	A	48063661	3	1	27	1	0	0	0	0	1	0	0	0	14067	1490	52	5	3014	5	SEMA6D	15	48063661	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	33	48063661	54467731	6209	28560											
SEMA6D	80031	broad.mit.edu	37	chr15	48063820	48063820	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacaccagtgagtgttcaTctgcagccttccctctccag	8	10	9	14	0	3	1	1	1	2	0	5	2	4	2	4	1	3	2	4	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48063820T>C	uc010bek.2	+	19	3420	c.3060T>C	c.(3058-3060)CAT>CAC	p.H1020H	SEMA6D_uc001zvw.2_Silent_p.H958H|SEMA6D_uc001zvy.2_Silent_p.H1020H|SEMA6D_uc001zvz.2_Silent_p.H964H|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Silent_p.H958H|SEMA6D_uc001zwc.2_Silent_p.H945H	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	1020	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		TGAGTGTTCATCTGCAGCCTT	0.527													9	149					0	0	1	0	0		C	48063820	C	C	48063820	2	2	27	1	0	0	0	0	0	0	0	1	14067	1432	50	3		3	SEMA6D	15	48063820	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	159	48063820	54467572	6210	28561											
MYEF2	50804	broad.mit.edu	37	chr15	48435261	48435261	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttttatttctgcaaacatTacatgacctgtaaaataaaa	17	15	3	6	0	1	1	0	1	1	0	1	1	1	1	1	0	3	2	1	0	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48435261T>G	uc001zwi.3	-	17	1771	c.1647A>C	c.(1645-1647)GTA>GTC	p.V549V	MYEF2_uc001zwg.3_Silent_p.V87V|MYEF2_uc001zwh.3_Silent_p.V137V|MYEF2_uc001zwj.3_Silent_p.V525V	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	549	RRM 3.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		CTGCAAACATTACATGACCTG	0.328													4	57					0	0	1	0	0		G	48435261	G	G	48435261	2	3	27	1	0	0	0	0	0	0	0	1	10042	1741	61	5		5	MYEF2	15	48435261	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	371441	48435261	54096131	6211	28562											
MYEF2	50804	broad.mit.edu	37	chr15	48451831	48451831	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggcaacaaaaattgtggaAccaagtctaccggcctgcaa	14	8	9	10	1	1	0	0	0	1	0	1	1	1	1	3	3	4	2	3	3	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48451831A>G	uc001zwi.3	-	6	820	c.696T>C	c.(694-696)GGT>GGC	p.G232G	MYEF2_uc001zwj.3_Silent_p.G232G|MYEF2_uc001zwl.2_Silent_p.G72G	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	232					transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		AAATTGTGGAACCAAGTCTAC	0.348													5	83					0	0	1	0	0		G	48451831	G	G	48451831	2	3	27	1	0	0	0	0	0	0	0	1	10042	30	2	3		3	MYEF2	15	48451831	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	16570	48451831	54079561	6212	28563											
DUT	1854	broad.mit.edu	37	chr15	48626625	48626625	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcttagtgcctatgattAcacaataccacctatggaga	12	14	6	9	0	1	2	0	1	1	1	1	3	1	2	3	1	3	0	3	1	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48626625A>G	uc001zws.2	+	3	523	c.431A>G	c.(430-432)TAC>TGC	p.Y144C	DUT_uc001zwt.2_Missense_Mutation_p.Y33C|DUT_uc001zwu.2_RNA|DUT_uc001zwv.2_Missense_Mutation_p.Y56C|DUT_uc001zww.2_Missense_Mutation_p.Y56C|uc010ben.1_5'Flank	NM_001025248	NP_001020419	P33316	DUT_HUMAN	deoxyuridine triphosphatase isoform 1 precursor	144					DNA replication|dUTP metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside biosynthetic process	mitochondrion|nucleoplasm	dUTP diphosphatase activity|protein binding				0		all_lung(180;0.00265)		all cancers(107;2.66e-09)|GBM - Glioblastoma multiforme(94;6.76e-07)		GCCTATGATTACACAATACCA	0.328								Modulation_of_nucleotide_pools					6	59					0	0	1	0	0		G	48626625	G	G	48626625	3	3	27	1	0	0	0	0	1	0	0	0	4839	391	14	3	457	3	DUT	15	48626625	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	174794	48626625	53904767	6213	28564											
FBN1	2200	broad.mit.edu	37	chr15	48717623	48717623	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcgggcatgaacactggtAactcccttctgtgtttttgc	6	16	9	10	1	1	1	0	1	1	0	3	1	2	1	1	2	3	3	1	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48717623A>G	uc001zwx.1	-	60	7724	c.7396T>C	c.(7396-7398)TAC>CAC	p.Y2466H	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2466	EGF-like 42; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GAACACTGGTAACTCCCTTCT	0.468													6	80					0	0	1	0	0		G	48717623	G	G	48717623	3	3	27	1	0	0	0	0	1	0	0	0	5716	362	13	3	1247	3	FBN1	15	48717623	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	90998	48717623	53813769	6214	28565											
FBN1	2200	broad.mit.edu	37	chr15	48791224	48791224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggcccactgctgcagagtgCctgatattccgctgcaataa	9	10	10	12	1	0	2	0	1	0	1	1	2	1	2	3	1	4	4	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48791224C>T	uc001zwx.1	-	18	2453	c.2125G>A	c.(2125-2127)GCA>ACA	p.A709T		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	709	TB 3.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CTGCAGAGTGCCTGATATTCC	0.453													4	92					0	0	1	0	0		T	48791224	T	T	48791224	3	4	27	1	0	0	0	0	1	0	0	0	5716	739	26	2	6686	2	FBN1	15	48791224	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	73601	48791224	53740168	6215	28566											
FBN1	2200	broad.mit.edu	37	chr15	48796050	48796050	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtgctggcgcaacagcAttcagatttagtgacagcac	11	9	10	11	1	2	2	2	1	0	1	2	2	2	2	0	1	4	4	0	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48796050A>G	uc001zwx.1	-	17	2375	c.2047T>C	c.(2047-2049)TGC>CGC	p.C683R		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	683	TB 3.		C -> R (in MFS).		heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GCGCAACAGCATTCAGATTTA	0.493													8	109					0	0	1	0	0		G	48796050	G	G	48796050	3	3	27	1	0	0	0	0	1	0	0	0	5716	217	8	3	6768	3	FBN1	15	48796050	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4826	48796050	53735342	6216	28567											
FBN1	2200	broad.mit.edu	37	chr15	48829959	48829959	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcccgctgagttgtccctgGcacatctggttgctgatcac	6	12	10	13	1	2	2	1	2	1	0	4	2	4	2	2	2	1	5	2	2	0	2	rs1803584		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48829959G>A	uc001zwx.1	-	7	913	c.585C>T	c.(583-585)TGC>TGT	p.C195C		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	195	TB 1.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GTTGTCCCTGGCACATCTGGT	0.502													12	123					0	0	1	0	0		A	48829959	A	A	48829959	2	1	27	1	0	0	0	0	0	0	0	1	5716	1195	42	2		2	FBN1	15	48829959	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	33909	48829959	53701433	6217	28568											
FBN1	2200	broad.mit.edu	37	chr15	48936859	48936859	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggcccgactggctctggtTtccttcacgttcccagcctc	3	13	9	16	2	2	0	1	0	1	0	5	1	4	0	4	3	1	3	4	3	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48936859T>C	uc001zwx.1	-	2	436	c.108A>G	c.(106-108)GAA>GAG	p.E36E		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	36					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		TGGCTCTGGTTTCCTTCACGT	0.587													22	166					0	0	1	0	0		C	48936859	C	C	48936859	2	2	27	1	0	0	0	0	0	0	0	1	5716	1838	64	3		3	FBN1	15	48936859	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	106900	48936859	53594533	6218	28569											
FBN1	2200	broad.mit.edu	37	chr15	48936889	48936889	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccagcctccaaattggcGtccgccccatggctcgtgta	6	10	9	16	3	0	0	0	0	0	0	4	0	3	0	6	2	1	2	6	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:48936889G>A	uc001zwx.1	-	2	406	c.78C>T	c.(76-78)GAC>GAT	p.D26D		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	26					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CCAAATTGGCGTCCGCCCCAT	0.617													12	129					0	0	1	0	0		A	48936889	A	A	48936889	2	1	27	1	0	0	0	0	0	0	0	1	5716	1136	40	1		1	FBN1	15	48936889	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	30	48936889	53594503	6219	28570											
CEP152	22995	broad.mit.edu	37	chr15	49081124	49081124	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagctcgttgaagtgattcAgaatgatgaaggtccaccag	12	10	11	8	1	1	5	1	4	0	1	3	5	2	5	2	1	1	2	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:49081124A>G	uc001zwy.2	-	9	1081	c.1047T>C	c.(1045-1047)TCT>TCC	p.S349S	CEP152_uc001zwz.2_Silent_p.S349S|CEP152_uc001zxa.1_Silent_p.S256S	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	349	Potential.				centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		GAAGTGATTCAGAATGATGAA	0.418													13	121					0	0	1	0	0		G	49081124	G	G	49081124	2	3	27	1	0	0	0	0	0	0	0	1	3251	175	7	3		3	CEP152	15	49081124	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	144235	49081124	53450268	6220	28571											
SHC4	399694	broad.mit.edu	37	chr15	49135610	49135610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgagtagctacttacttccGcagtgccatgggctccccag	7	10	11	13	1	0	1	0	1	0	0	2	1	2	1	4	1	4	4	4	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:49135610G>A	uc001zxb.1	-	10	1908	c.1479C>T	c.(1477-1479)TGC>TGT	p.C493C	SHC4_uc010uey.1_Silent_p.C250C|SHC4_uc010uez.1_Silent_p.C207C	NM_203349	NP_976224	Q6S5L8	SHC4_HUMAN	rai-like protein	493	CH1.				intracellular signal transduction	cell junction|postsynaptic membrane				ovary(3)|pancreas(2)	5		all_lung(180;0.00466)		all cancers(107;9.4e-08)|GBM - Glioblastoma multiforme(94;5.94e-07)		ACTTACTTCCGCAGTGCCATG	0.318													31	138					0	0	1	0	0		A	49135610	A	A	49135610	2	1	27	1	0	0	0	0	0	0	0	1	14298	1079	38	1		1	SHC4	15	49135610	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	54486	49135610	53395782	6221	28572											
SHC4	399694	broad.mit.edu	37	chr15	49176493	49176493	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agactgcatgttgagatggtCagttttatattcattcctga	10	16	9	6	0	2	3	2	2	0	2	3	4	3	3	1	1	1	3	1	1	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:49176493C>T	uc001zxb.1	-	4	1221	c.792G>A	c.(790-792)CTG>CTA	p.L264L		NM_203349	NP_976224	Q6S5L8	SHC4_HUMAN	rai-like protein	264	PID.				intracellular signal transduction	cell junction|postsynaptic membrane				ovary(3)|pancreas(2)	5		all_lung(180;0.00466)		all cancers(107;9.4e-08)|GBM - Glioblastoma multiforme(94;5.94e-07)		TTGAGATGGTCAGTTTTATAT	0.318													7	65					0	0	1	0	0		T	49176493	T	T	49176493	2	4	27	1	0	0	0	0	0	0	0	1	14298	813	29	4		4	SHC4	15	49176493	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	40883	49176493	53354899	6222	28573											
SECISBP2L	9728	broad.mit.edu	37	chr15	49292172	49292172	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctataacattatagagagccTcatccagaccacctgagaaa	16	8	6	11	0	1	3	1	1	0	3	2	5	2	3	4	0	2	0	4	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:49292172T>G	uc001zxe.1	-	16	2395	c.2261A>C	c.(2260-2262)GAG>GCG	p.E754A	SECISBP2L_uc001zxd.1_Missense_Mutation_p.E709A|SECISBP2L_uc010bep.1_Missense_Mutation_p.E516A	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	754										breast(1)|skin(1)	2						ATAGAGAGCCTCATCCAGACC	0.453													19	71					0	0	1	0	0		G	49292172	G	G	49292172	3	3	27	1	0	0	0	0	1	0	0	0	14032	1551	54	5	1056	5	SECISBP2L	15	49292172	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	115679	49292172	53239220	6223	28574											
SECISBP2L	9728	broad.mit.edu	37	chr15	49325281	49325281	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttttgctttttatgtgcTgttgtaaaagctgttgctga	6	19	10	6	0	0	1	0	1	0	0	0	1	0	1	1	0	4	7	1	0	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:49325281T>C	uc001zxe.1	-	4	679	c.545A>G	c.(544-546)CAG>CGG	p.Q182R	SECISBP2L_uc001zxd.1_Missense_Mutation_p.Q182R|SECISBP2L_uc010bep.1_5'UTR|SECISBP2L_uc010beq.1_Missense_Mutation_p.Q182R	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	182										breast(1)|skin(1)	2						TTTTATGTGCTGTTGTAAAAG	0.318													7	55					0	0	1	0	0		C	49325281	C	C	49325281	3	2	27	1	0	0	0	0	1	0	0	0	14032	1580	55	3	2681	3	SECISBP2L	15	49325281	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	33109	49325281	53206111	6224	28575											
GALK2	2585	broad.mit.edu	37	chr15	49509474	49509474	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtagaacctgtgaaaacgtAcgctctccaactggccaata	13	9	8	11	2	1	2	0	1	1	1	2	2	1	2	3	1	4	3	3	1	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:49509474A>T	uc001zxj.1	+	3	328	c.230A>T	c.(229-231)TAC>TTC	p.Y77F	GALK2_uc001zxi.1_Missense_Mutation_p.Y66F|GALK2_uc010ufb.1_Missense_Mutation_p.Y53F|GALK2_uc001zxk.2_RNA|GALK2_uc010ufc.1_Missense_Mutation_p.Y53F	NM_002044	NP_002035	Q01415	GALK2_HUMAN	galactokinase 2 isoform 1	77					galactose metabolic process	cytoplasm	ATP binding|galactokinase activity|N-acetylgalactosamine kinase activity			breast(1)	1		all_lung(180;0.000325)		all cancers(107;3.71e-08)|GBM - Glioblastoma multiforme(94;7e-05)		GTGAAAACGTACGCTCTCCAA	0.378													9	123					0	0	1	0	0		T	49509474	T	T	49509474	3	4	27	1	0	0	0	0	1	0	0	0	6219	391	14	5	264	5	GALK2	15	49509474	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	184193	49509474	53021918	6225	28576											
DTWD1	56986	broad.mit.edu	37	chr15	49926794	49926794	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatatttcttttcatctgcAaaaaaggattcaaaataatg	17	14	5	5	0	4	1	2	0	2	1	4	2	4	2	0	1	1	1	0	1	7	6	rs35574741		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:49926794A>G	uc001zxq.2	+	5	747	c.470A>G	c.(469-471)CAA>CGA	p.Q157R	DTWD1_uc001zxs.2_Missense_Mutation_p.Q157R|DTWD1_uc001zxr.2_Missense_Mutation_p.Q70R|DTWD1_uc001zxo.2_Missense_Mutation_p.Q157R	NM_020234	NP_064619	Q8N5C7	DTWD1_HUMAN	DTW domain containing 1	157											0		all_lung(180;0.0384)		all cancers(107;3.27e-08)|GBM - Glioblastoma multiforme(94;7.6e-05)		TTTCATCTGCAAAAAAGGATT	0.343													5	76					0	0	1	0	0		G	49926794	G	G	49926794	3	3	27	1	0	0	0	0	1	0	0	0	4797	130	5	3	480	3	DTWD1	15	49926794	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	417320	49926794	52604598	6226	28577											
ATP8B4	79895	broad.mit.edu	37	chr15	50264895	50264895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcctcattgagcgtggtcGttcgagccactgcaggtatt	6	13	12	10	3	1	1	1	1	0	0	4	2	2	1	2	2	3	4	2	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:50264895G>A	uc001zxu.2	-	13	1269	c.1127C>T	c.(1126-1128)ACG>ATG	p.T376M	ATP8B4_uc010ber.2_Missense_Mutation_p.T249M|ATP8B4_uc010ufd.1_Missense_Mutation_p.T249M|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	376	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		GAGCGTGGTCGTTCGAGCCAC	0.423													13	46					0	0	1	0	0		A	50264895	A	A	50264895	3	1	27	1	0	0	0	0	1	0	0	0	1198	1145	40	1	2515	1	ATP8B4	15	50264895	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	338101	50264895	52266497	6227	28578											
HDC	3067	broad.mit.edu	37	chr15	50535355	50535355	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attacctttagacgaaaaacCaccaggccaaggtgcctctt	13	9	7	12	1	1	1	0	0	1	1	1	2	1	1	5	2	3	0	5	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:50535355C>T	uc001zxz.2	-	11	1333	c.1227G>A	c.(1225-1227)GTG>GTA	p.V409V	HDC_uc001zxy.2_Silent_p.V152V|HDC_uc010uff.1_Silent_p.V376V	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	409					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	GACGAAAAACCACCAGGCCAA	0.478													6	59					0	0	1	0	0		T	50535355	T	T	50535355	2	4	27	1	0	0	0	0	0	0	0	1	7031	581	21	4		4	HDC	15	50535355	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	270460	50535355	51996037	6228	28579											
USP8	9101	broad.mit.edu	37	chr15	50769071	50769071	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtaaaactgtcctgcgcaAtgagcctttggttttagagg	11	12	11	7	1	0	2	0	1	0	1	1	2	1	2	2	2	3	3	2	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:50769071A>G	uc001zym.3	+	10	1375	c.875A>G	c.(874-876)AAT>AGT	p.N292S	USP8_uc001zyk.1_5'UTR|USP8_uc001zyl.3_Missense_Mutation_p.N292S|USP8_uc001zyn.3_Missense_Mutation_p.N292S|USP8_uc010ufh.1_Missense_Mutation_p.N215S|USP8_uc010bev.1_Intron	NM_001128611	NP_001122083	P40818	UBP8_HUMAN	ubiquitin specific peptidase 8	292	Rhodanese.				cell cycle|cell proliferation|endosome organization|protein K48-linked deubiquitination|protein K63-linked deubiquitination|ubiquitin-dependent protein catabolic process	cytosol|early endosome|extrinsic to plasma membrane|nucleus	cysteine-type endopeptidase activity|SH3 domain binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)|central_nervous_system(1)	2				all cancers(107;0.000225)|GBM - Glioblastoma multiforme(94;0.000771)		GTCCTGCGCAATGAGCCTTTG	0.393													12	83					0	0	1	0	0		G	50769071	G	G	50769071	3	3	27	1	0	0	0	0	1	0	0	0	17115	101	4	3	905	3	USP8	15	50769071	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	233716	50769071	51762321	6229	28580											
TRPM7	54822	broad.mit.edu	37	chr15	50886647	50886647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggtccatcggaagtcttatCtttctttcttctcttacata	7	19	5	10	1	5	0	0	0	5	0	8	1	6	1	1	2	1	0	1	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:50886647C>T	uc001zyt.3	-	24	3718	c.3454G>A	c.(3454-3456)GAT>AAT	p.D1152N	TRPM7_uc010bew.1_Missense_Mutation_p.D1152N	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	1152	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		GAAGTCTTATCTTTCTTTCTT	0.323													14	147					0	0	1	0	0		T	50886647	T	T	50886647	3	4	27	1	0	0	0	0	1	0	0	0	16617	913	32	4	2207	4	TRPM7	15	50886647	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	117576	50886647	51644745	6230	28581											
TRPM7	54822	broad.mit.edu	37	chr15	50902025	50902025	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggatctcttctgttatgTtctgaaagttgttttcgctg	5	19	11	6	1	3	1	0	1	3	0	5	2	3	2	0	2	0	5	0	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:50902025T>C	uc001zyt.3	-	18	2678	c.2414A>G	c.(2413-2415)AAC>AGC	p.N805S	TRPM7_uc010bew.1_Missense_Mutation_p.N805S|TRPM7_uc001zyu.2_Missense_Mutation_p.N363S	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	805	Extracellular (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		TTCTGTTATGTTCTGAAAGTT	0.313													3	107					0	0	1	0	0		C	50902025	C	C	50902025	3	2	27	1	0	0	0	0	1	0	0	0	16617	1725	60	3	3271	3	TRPM7	15	50902025	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	15378	50902025	51629367	6231	28582											
AP4E1	23431	broad.mit.edu	37	chr15	51285692	51285692	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcaagagagtataatggAgaatgtagatcaagctataa	17	10	9	5	0	2	3	2	0	0	3	3	5	3	3	1	1	1	3	1	1	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:51285692A>T	uc001zyx.1	+	17	2246	c.2216A>T	c.(2215-2217)GAG>GTG	p.E739V		NM_007347	NP_031373	Q9UPM8	AP4E1_HUMAN	adaptor-related protein complex 4, epsilon 1	739					intracellular protein transport|vesicle-mediated transport	COPI vesicle coat	binding|structural molecule activity				0				all cancers(107;0.000893)|GBM - Glioblastoma multiforme(94;0.00364)		AGTATAATGGAGAATGTAGAT	0.388													5	30					0	0	1	0	0		T	51285692	T	T	51285692	3	4	27	1	0	0	0	0	1	0	0	0	752	304	11	5	2282	5	AP4E1	15	51285692	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	383667	51285692	51245700	6232	28583											
TNFAIP8L3	388121	broad.mit.edu	37	chr15	51350349	51350349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctgacaatggtcatggcgGtctggttcagcttcttccgg	6	12	13	10	2	4	1	2	1	2	0	5	1	5	1	1	5	2	3	1	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:51350349G>A	uc001zyy.2	-	3	708	c.608C>T	c.(607-609)ACC>ATC	p.T203I		NM_207381	NP_997264	Q5GJ75	TP8L3_HUMAN	tumor necrosis factor, alpha-induced protein	203											0				all cancers(107;0.000389)|GBM - Glioblastoma multiforme(94;0.00338)		GGTCATGGCGGTCTGGTTCAG	0.502													16	97					0	0	1	0	0		A	51350349	A	A	51350349	3	1	27	1	0	0	0	0	1	0	0	0	16304	1261	44	4	274	4	TNFAIP8L3	15	51350349	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	64657	51350349	51181043	6233	28584											
GLDN	342035	broad.mit.edu	37	chr15	51634204	51634204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcatatccgcgccgagaGccatgacatgctgatgatga	10	7	12	12	4	0	5	0	4	0	1	1	6	1	5	4	0	2	2	4	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:51634204G>A	uc002aba.2	+	1	492	c.323G>A	c.(322-324)AGC>AAC	p.S108N	GLDN_uc010bez.1_Missense_Mutation_p.S108N	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	108	Extracellular (Potential).				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		CGCGCCGAGAGCCATGACATG	0.721													25	57					0	0	1	0	0		A	51634204	A	A	51634204	3	1	27	1	0	0	0	0	1	0	0	0	6449	971	34	2	325	2	GLDN	15	51634204	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	283855	51634204	50897188	6234	28585											
GLDN	342035	broad.mit.edu	37	chr15	51689758	51689758	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaagcagaagagccaaaggCcctcggcagccaagcatgtt	13	4	13	11	1	0	2	0	0	0	2	1	3	0	3	3	3	4	4	3	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:51689758C>T	uc002aba.2	+	6	949	c.780C>T	c.(778-780)GGC>GGT	p.G260G	GLDN_uc002abb.2_Silent_p.G136G	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	260	Extracellular (Potential).|Pro-rich.				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		GAGCCAAAGGCCCTCGGCAGC	0.612													7	52					0	0	1	0	0		T	51689758	T	T	51689758	2	4	27	1	0	0	0	0	0	0	0	1	6449	726	26	2		2	GLDN	15	51689758	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	55554	51689758	50841634	6235	28586											
DMXL2	23312	broad.mit.edu	37	chr15	51828742	51828742	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaatcgatgaccgcaataTctaaatttgtgagatacagt	15	12	8	6	2	1	3	0	3	1	1	2	5	1	3	1	0	1	1	1	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:51828742T>A	uc002abf.2	-	12	2160	c.1935A>T	c.(1933-1935)AGA>AGT	p.R645S	DMXL2_uc010ufy.1_Missense_Mutation_p.R645S|DMXL2_uc010bfa.2_Missense_Mutation_p.R645S	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	645						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		GACCGCAATATCTAAATTTGT	0.383													5	43					0	0	1	0	0		A	51828742	A	A	51828742	3	1	27	1	0	0	0	0	1	0	0	0	4601	1432	50	5	7306	5	DMXL2	15	51828742	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	138984	51828742	50702650	6236	28587											
MAPK6	5597	broad.mit.edu	37	chr15	52339143	52339143	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctaatcttttcattaatacGgaagacttggtgctgaagat	12	14	9	6	1	2	3	1	1	1	2	2	4	2	4	0	2	2	2	0	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:52339143G>A	uc002abp.2	+	2	1280	c.486G>A	c.(484-486)ACG>ACA	p.T162T		NM_002748	NP_002739	Q16659	MK06_HUMAN	mitogen-activated protein kinase 6	162	Protein kinase.				cell cycle		ATP binding|MAP kinase activity			lung(3)|ovary(1)	4				all cancers(107;0.0028)		TCATTAATACGGAAGACTTGG	0.433													21	85					0	0	1	0	0		A	52339143	A	A	52339143	2	1	27	1	0	0	0	0	0	0	0	1	9299	1103	39	1		1	MAPK6	15	52339143	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	510401	52339143	50192249	6237	28588											
MYO5C	55930	broad.mit.edu	37	chr15	52503982	52503982	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgagggacttcagcatgTtggcatcattcagagagtct	10	12	11	8	0	5	2	4	1	1	1	5	4	5	3	0	2	1	3	0	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:52503982T>C	uc010bff.2	-	35	4378	c.4241A>G	c.(4240-4242)AAC>AGC	p.N1414S	MYO5C_uc010uga.1_RNA	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	1414						myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		CTTCAGCATGTTGGCATCATT	0.527													14	180					0	0	1	0	0		C	52503982	C	C	52503982	3	2	27	1	0	0	0	0	1	0	0	0	10098	1725	60	3	1015	3	MYO5C	15	52503982	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	164839	52503982	50027410	6238	28589											
MYO5C	55930	broad.mit.edu	37	chr15	52564895	52564895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgactactattgtcattgCgggtggtcttggcatttcca	7	14	10	10	2	2	0	1	0	1	0	3	1	3	0	2	3	2	1	2	3	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:52564895C>T	uc010bff.2	-	6	769	c.632G>A	c.(631-633)CGC>CAC	p.R211H	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA|MYO5C_uc010ugc.1_Missense_Mutation_p.R174H	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	211	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		ATTGTCATTGCGGGTGGTCTT	0.358													14	51					0	0	1	0	0		T	52564895	T	T	52564895	3	4	27	1	0	0	0	0	1	0	0	0	10098	768	27	1	4740	1	MYO5C	15	52564895	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	60913	52564895	49966497	6239	28590											
MYO5A	4644	broad.mit.edu	37	chr15	52680091	52680091	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttattcttttcgagaaatcCttcacactggtattccacct	9	17	4	11	1	2	1	1	0	1	1	5	2	4	1	3	1	0	1	3	1	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:52680091C>A	uc002aby.2	-	14	1931	c.1687G>T	c.(1687-1689)GGA>TGA	p.G563*	MYO5A_uc002abx.3_Nonsense_Mutation_p.G563*|MYO5A_uc010uge.1_Nonsense_Mutation_p.G432*	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	563	Myosin head-like.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		TCGAGAAATCCTTCACACTGG	0.299													4	69					0.00909568	0.0093211	1	1	0		A	52680091	A	A	52680091	4	1	27	1	0	0	0	0	0	1	0	0	10096	690	24	5	3992	5	MYO5A	15	52680091	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	115196	52680091	49851301	6240	28591											
MYO5A	4644	broad.mit.edu	37	chr15	52689518	52689518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcttggccaaagcatcgCgggcatttgtggcctgcagc	6	10	14	11	2	0	0	0	0	0	0	1	0	0	0	2	3	4	4	2	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:52689518C>T	uc002aby.2	-	10	1443	c.1199G>A	c.(1198-1200)CGC>CAC	p.R400H	MYO5A_uc002abx.3_Missense_Mutation_p.R400H|MYO5A_uc010uge.1_Missense_Mutation_p.R269H	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	400	Myosin head-like.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		CAAAGCATCGCGGGCATTTGT	0.483													16	40					0	0	1	0	0		T	52689518	T	T	52689518	3	4	27	1	0	0	0	0	1	0	0	0	10096	768	27	1	4496	1	MYO5A	15	52689518	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9427	52689518	49841874	6241	28592											
ARPP19	10776	broad.mit.edu	37	chr15	52849361	52849361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgtcccagatgaggatatCttgcttttaattttgcttct	7	20	7	7	0	2	2	0	1	2	1	3	3	3	3	1	1	2	2	1	1	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:52849361C>T	uc002acd.1	-	2	228	c.104G>A	c.(103-105)AGA>AAA	p.R35K	ARPP19_uc002ace.1_Missense_Mutation_p.R35K	NM_006628	NP_006619	P56211	ARP19_HUMAN	cyclic AMP phosphoprotein, 19 kD	35					cell division|G2/M transition of mitotic cell cycle|mitosis|positive regulation of gluconeogenesis|positive regulation of glucose import	cytoplasm	potassium channel regulator activity|protein phosphatase 2A binding|protein phosphatase inhibitor activity|protein phosphatase type 2A regulator activity|receptor binding				0						ATGAGGATATCTTGCTTTTAA	0.358													11	90					0	0	1	0	0		T	52849361	T	T	52849361	3	4	27	1	0	0	0	0	1	0	0	0	978	913	32	4	242	4	ARPP19	15	52849361	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	159843	52849361	49682031	6242	28593											
KIAA1370	56204	broad.mit.edu	37	chr15	52902186	52902186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcttgagatgtcccatggtCagatttactgccagtgcctg	7	12	12	10	0	1	2	1	1	0	2	2	3	2	2	3	2	3	1	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:52902186C>T	uc002acg.3	-	6	1078	c.925G>A	c.(925-927)GAC>AAC	p.D309N	KIAA1370_uc002ach.3_RNA|KIAA1370_uc010bfg.1_Missense_Mutation_p.D221N|KIAA1370_uc010ugf.1_Missense_Mutation_p.D316N	NM_019600	NP_062546	Q32MH5	K1370_HUMAN	hypothetical protein LOC56204	309											0				all cancers(107;0.0803)		GTCCCATGGTCAGATTTACTG	0.383													4	27					0	0	1	0	0		T	52902186	T	T	52902186	3	4	27	1	0	0	0	0	1	0	0	0	8242	826	29	4	2337	4	KIAA1370	15	52902186	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	52825	52902186	49629206	6243	28594											
ONECUT1	3175	broad.mit.edu	37	chr15	53081207	53081207	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccacctctttggtattgAtctcttccatctgccctgaa	6	14	7	14	1	3	2	0	2	3	0	5	2	4	2	4	1	1	1	4	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:53081207A>G	uc002aci.1	-	1	1003	c.875T>C	c.(874-876)ATC>ACC	p.I292T		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	292	CUT.				endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		TTTGGTATTGATCTCTTCCAT	0.632													8	96					0	0	1	0	0		G	53081207	G	G	53081207	3	3	27	1	0	0	0	0	1	0	0	0	10887	333	12	3	530	3	ONECUT1	15	53081207	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	179021	53081207	49450185	6244	28595											
UNC13C	440279	broad.mit.edu	37	chr15	54307698	54307698	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagcagaggatgaggaagaTtatactgaaccagtggctga	16	7	13	5	0	0	5	0	3	0	2	0	7	0	7	1	3	3	2	1	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:54307698T>C	uc002ack.2	+	1	2598	c.2598T>C	c.(2596-2598)GAT>GAC	p.D866D		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	866					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ATGAGGAAGATTATACTGAAC	0.393													7	65					0	0	1	0	0		C	54307698	C	C	54307698	2	2	27	1	0	0	0	0	0	0	0	1	17012	1490	52	3		3	UNC13C	15	54307698	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1226491	54307698	48223694	6245	28596											
UNC13C	440279	broad.mit.edu	37	chr15	54307737	54307737	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaatgaaacagattatgtTgaagtcatggaacaagtcct	16	10	9	6	0	1	3	1	2	0	1	2	5	2	4	1	1	2	1	1	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:54307737T>C	uc002ack.2	+	1	2637	c.2637T>C	c.(2635-2637)GTT>GTC	p.V879V		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	879					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		CAGATTATGTTGAAGTCATGG	0.388													9	74					0	0	1	0	0		C	54307737	C	C	54307737	2	2	27	1	0	0	0	0	0	0	0	1	17012	1799	63	3		3	UNC13C	15	54307737	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	39	54307737	48223655	6246	28597											
RAB27A	5873	broad.mit.edu	37	chr15	55516108	55516108	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catatttctctgcgagtgctAtggcttcctcctctttcact	5	17	6	13	1	3	0	1	0	2	0	6	1	5	0	2	1	2	2	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:55516108A>G	uc002aco.2	-	6	679	c.446T>C	c.(445-447)ATA>ACA	p.I149T	RAB27A_uc002acr.2_Missense_Mutation_p.I149T|RAB27A_uc002acp.2_Missense_Mutation_p.I149T|RAB27A_uc002acq.2_Missense_Mutation_p.I149T	NM_183234	NP_899057	P51159	RB27A_HUMAN	Ras-related protein Rab-27A	149					small GTPase mediated signal transduction	dendrite|exocytic vesicle|late endosome|lysosome|melanosome	GTP binding|GTPase activity			ovary(1)	1				all cancers(107;0.0273)|GBM - Glioblastoma multiforme(80;0.0993)		TGCGAGTGCTATGGCTTCCTC	0.393													17	209					0	0	1	0	0		G	55516108	G	G	55516108	3	3	27	1	0	0	0	0	1	0	0	0	12939	449	16	3	227	3	RAB27A	15	55516108	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1208371	55516108	47015284	6247	28598											
RAB27A	5873	broad.mit.edu	37	chr15	55522617	55522617	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctctcctgccctgctgtgTcccataactgcaggtggatt	6	12	9	14	0	1	0	0	0	1	0	3	1	2	1	4	2	4	2	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:55522617T>A	uc002aco.2	-	4	454	c.221A>T	c.(220-222)GAC>GTC	p.D74V	RAB27A_uc002acr.2_Missense_Mutation_p.D74V|RAB27A_uc002acp.2_Missense_Mutation_p.D74V|RAB27A_uc002acq.2_Missense_Mutation_p.D74V	NM_183234	NP_899057	P51159	RB27A_HUMAN	Ras-related protein Rab-27A	74	GTP (By similarity).				small GTPase mediated signal transduction	dendrite|exocytic vesicle|late endosome|lysosome|melanosome	GTP binding|GTPase activity			ovary(1)	1				all cancers(107;0.0273)|GBM - Glioblastoma multiforme(80;0.0993)		CCCTGCTGTGTCCCATAACTG	0.473													12	126					0	0	1	0	0		A	55522617	A	A	55522617	3	1	27	1	0	0	0	0	1	0	0	0	12939	1667	58	5	460	5	RAB27A	15	55522617	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6509	55522617	47008775	6248	28599											
CCPG1	9236	broad.mit.edu	37	chr15	55652398	55652398	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatttaactgaatctgagaAttttttcagattttccttca	11	18	6	6	0	3	3	2	2	1	2	4	5	4	4	1	1	1	0	1	1	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:55652398A>T	uc002acv.1	-	8	1738	c.1573T>A	c.(1573-1575)TTC>ATC	p.F525I	CCPG1_uc002acy.2_Missense_Mutation_p.F525I|CCPG1_uc002acu.1_Missense_Mutation_p.F381I|CCPG1_uc002acw.1_Missense_Mutation_p.F250I|CCPG1_uc002acx.2_Intron|CCPG1_uc010bfk.1_Missense_Mutation_p.F525I|CCPG1_uc002acz.1_Missense_Mutation_p.F525I	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2	525	Lumenal (Potential).|Potential.				cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		GAATCTGAGAATTTTTTCAGA	0.333													17	141					0	0	1	0	0		T	55652398	T	T	55652398	3	4	27	1	0	0	0	0	1	0	0	0	2941	101	4	5	704	5	CCPG1	15	55652398	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	129781	55652398	46878994	6249	28600											
PYGO1	26108	broad.mit.edu	37	chr15	55838265	55838265	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaccaaaagtttctctagTacgcattaactggacatctt	12	13	7	9	1	2	0	0	0	2	0	3	2	2	2	1	2	2	3	1	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:55838265T>C	uc010bfl.1	-	3	1272	c.1216A>G	c.(1216-1218)ACT>GCT	p.T406A	PYGO1_uc002adf.1_Missense_Mutation_p.T406A	NM_015617	NP_056432	Q9Y3Y4	PYGO1_HUMAN	pygopus homolog 1	406					Wnt receptor signaling pathway	nucleus	zinc ion binding			ovary(1)|skin(1)	2				all cancers(107;0.0131)|GBM - Glioblastoma multiforme(80;0.18)		GTTTCTCTAGTACGCATTAAC	0.428													4	86					0	0	1	0	0		C	55838265	C	C	55838265	3	2	27	1	0	0	0	0	1	0	0	0	12888	1638	57	3	47	3	PYGO1	15	55838265	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	185867	55838265	46693127	6250	28601											
PYGO1	26108	broad.mit.edu	37	chr15	55838758	55838758	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttggttgctccttgagtAaagtcttgttttgggggtgg	4	19	14	4	0	1	1	0	1	1	0	2	1	2	1	1	4	1	4	1	4	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:55838758A>G	uc010bfl.1	-	3	779	c.723T>C	c.(721-723)TTT>TTC	p.F241F	PYGO1_uc002adf.1_Silent_p.F241F	NM_015617	NP_056432	Q9Y3Y4	PYGO1_HUMAN	pygopus homolog 1	241	Asn-rich.				Wnt receptor signaling pathway	nucleus	zinc ion binding			ovary(1)|skin(1)	2				all cancers(107;0.0131)|GBM - Glioblastoma multiforme(80;0.18)		CTCCTTGAGTAAAGTCTTGTT	0.353													5	150					0	0	1	0	0		G	55838758	G	G	55838758	2	3	27	1	0	0	0	0	0	0	0	1	12888	359	13	3		3	PYGO1	15	55838758	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	493	55838758	46692634	6251	28602											
PRTG	283659	broad.mit.edu	37	chr15	55971497	55971497	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcctacctgttgtacatttTaattctaccattcgaatgta	11	16	5	9	1	1	0	0	0	1	0	2	1	1	0	3	0	4	3	3	0	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:55971497T>G	uc002adg.2	-	7	1168	c.1120A>C	c.(1120-1122)AAA>CAA	p.K374Q		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	374	Ig-like 4.				multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		TTGTACATTTTAATTCTACCA	0.348													4	42					0	0	1	0	0		G	55971497	G	G	55971497	3	3	27	1	0	0	0	0	1	0	0	0	12660	1763	61	5	2388	5	PRTG	15	55971497	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	132739	55971497	46559895	6252	28603											
NEDD4	4734	broad.mit.edu	37	chr15	56140591	56140591	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtccagttattgctacattCtccaaccgaggatcttccca	9	12	7	13	1	2	0	0	0	2	0	5	2	4	1	4	2	3	2	4	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:56140591C>T	uc002adj.2	-	13	3078	c.2778G>A	c.(2776-2778)GAG>GAA	p.E926E	NEDD4_uc002adl.2_Silent_p.E507E|NEDD4_uc002adi.2_Silent_p.E854E|NEDD4_uc010ugj.1_Silent_p.E910E|NEDD4_uc010bfm.2_Silent_p.E909E|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	926	Mediates interaction with TNIK (By similarity).				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		TTGCTACATTCTCCAACCGAG	0.398													12	143					0	0	1	0	0		T	56140591	T	T	56140591	2	4	27	1	0	0	0	0	0	0	0	1	10329	912	32	4		4	NEDD4	15	56140591	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	169094	56140591	46390801	6253	28604											
RFX7	64864	broad.mit.edu	37	chr15	56388470	56388470	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaatgtttaagaggggtgtTactgttgctgggtgtgaggg	8	13	18	2	0	0	3	0	1	0	2	0	3	0	3	0	4	2	4	0	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:56388470T>C	uc010bfn.2	-	9	1456	c.1456A>G	c.(1456-1458)AAC>GAC	p.N486D	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Missense_Mutation_p.N300D	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	389					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						AGAGGGGTGTTACTGTTGCTG	0.448													4	61					0	0	1	0	0		C	56388470	C	C	56388470	3	2	27	1	0	0	0	0	1	0	0	0	13293	1754	61	3	2930	3	RFX7	15	56388470	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	247879	56388470	46142922	6254	28605											
TEX9	374618	broad.mit.edu	37	chr15	56719831	56719831	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatgaagaacacaaaaaaaTtgaagtgttaaaatcagaaa	25	7	6	3	0	1	4	1	2	0	2	1	4	1	4	0	0	1	1	0	0	10	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:56719831T>A	uc002adp.2	+	11	997	c.992T>A	c.(991-993)ATT>AAT	p.I331N	TEX9_uc010ugl.1_Missense_Mutation_p.I256N	NM_198524	NP_940926	Q8N6V9	TEX9_HUMAN	testis expressed 9	331	Potential.										0				all cancers(107;0.0394)|GBM - Glioblastoma multiforme(80;0.056)		CACAAAAAAATTGAAGTGTTA	0.274													9	85					0	0	1	0	0		A	56719831	A	A	56719831	3	1	27	1	0	0	0	0	1	0	0	0	15809	1493	52	5	1034	5	TEX9	15	56719831	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	331361	56719831	45811561	6255	28606											
GCOM1	145781	broad.mit.edu	37	chr15	57925827	57925827	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggaagaaaccaatagttTtctgaaagcgattgaagaag	17	8	11	5	1	1	4	0	2	1	2	1	6	1	5	1	1	2	2	1	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:57925827T>A	uc002aei.2	+	8	940	c.821T>A	c.(820-822)TTT>TAT	p.F274Y	GCOM1_uc002aej.2_Missense_Mutation_p.F274Y|GCOM1_uc002aek.2_RNA|GCOM1_uc002ael.2_RNA|GCOM1_uc002aem.2_Missense_Mutation_p.F274Y|GCOM1_uc002aeq.2_RNA|GCOM1_uc002aen.2_RNA|GCOM1_uc010bfy.2_RNA|GCOM1_uc002aeo.2_Missense_Mutation_p.F274Y|GCOM1_uc002aep.2_RNA|GCOM1_uc010bfx.2_RNA	NM_001018100	NP_001018110	P0CAP1	GCOM1_HUMAN	GRINL1A upstream protein isoform 7	274	Potential.				intracellular signal transduction	extrinsic to internal side of plasma membrane|I band				ovary(1)	1						ACCAATAGTTTTCTGAAAGCG	0.483													12	84					0	0	1	0	0		A	57925827	A	A	57925827	3	1	27	1	0	0	0	0	1	0	0	0	6319	1841	64	5	851	5	GCOM1	15	57925827	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1205996	57925827	44605565	6256	28607											
AQP9	366	broad.mit.edu	37	chr15	58467216	58467216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccgtatctatctctggCgaacgcatttgcagatcaag	10	11	9	11	3	3	1	1	0	2	1	5	2	4	1	1	1	3	4	1	1	4	3	rs146866709	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:58467216C>T	uc002aez.2	+	4	833	c.476C>T	c.(475-477)GCG>GTG	p.A159V	ALDH1A2_uc010ugw.1_Intron|AQP9_uc010ugx.1_Missense_Mutation_p.A94V	NM_020980	NP_066190	O43315	AQP9_HUMAN	aquaporin 9	159	Helical; (Potential).				cellular response to cAMP|excretion|immune response|metabolic process|response to mercury ion|response to osmotic stress|water homeostasis	integral to plasma membrane|intracellular membrane-bounded organelle	amine transmembrane transporter activity|carboxylic acid transmembrane transporter activity|glycerol channel activity|porin activity|purine base transmembrane transporter activity|pyrimidine base transmembrane transporter activity|water channel activity			ovary(1)	1				GBM - Glioblastoma multiforme(80;0.16)		CTATCTCTGGCGAACGCATTT	0.423													4	83					0	0	1	0	0		T	58467216	T	T	58467216	3	4	27	1	0	0	0	0	1	0	0	0	833	768	27	1	490	1	AQP9	15	58467216	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	541389	58467216	44064176	6257	28608											
LDHAL6B	92483	broad.mit.edu	37	chr15	59499212	59499212	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagcgaatttcctatgcctgGggatggccctgtgtccgcgt	5	11	14	11	3	0	0	0	0	0	0	2	3	2	1	4	3	2	0	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:59499212G>T	uc002agb.2	+	1	171	c.73G>T	c.(73-75)GGG>TGG	p.G25W	MYO1E_uc002aga.2_Intron	NM_033195	NP_149972	Q9BYZ2	LDH6B_HUMAN	lactate dehydrogenase A-like 6B	25					glycolysis	cytoplasm	L-lactate dehydrogenase activity|protein binding				0					NADH(DB00157)	CCTATGCCTGGGGATGGCCCT	0.592													7	33					2.0095e-06	2.17775e-06	1	1	0		T	59499212	T	T	59499212	3	4	27	1	0	0	0	0	1	0	0	0	8716	1232	43	5	75	5	LDHAL6B	15	59499212	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1031996	59499212	43032180	6258	28609											
MYO1E	4643	broad.mit.edu	37	chr15	59500995	59500995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatctgccccctcacccaccGcatgcatcgtggcgcacacg	7	6	9	19	4	2	0	1	0	1	0	3	1	2	0	4	1	2	3	4	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:59500995G>A	uc002aga.2	-	14	1787	c.1415C>T	c.(1414-1416)GCG>GTG	p.A472V		NM_004998	NP_004989	Q12965	MYO1E_HUMAN	myosin IE	472	Myosin head-like.				actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)		CTCACCCACCGCATGCATCGT	0.537													5	82					0	0	1	0	0		A	59500995	A	A	59500995	3	1	27	1	0	0	0	0	1	0	0	0	10090	1087	38	1	1971	1	MYO1E	15	59500995	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1783	59500995	43030397	6259	28610											
FAM81A	145773	broad.mit.edu	37	chr15	59752285	59752285	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcggattaaagatgacatTgtcaacagtttgcagaaaat	15	13	8	5	1	1	3	1	1	0	2	2	4	1	4	0	1	2	2	0	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:59752285T>C	uc002agc.2	+	3	361	c.174T>C	c.(172-174)ATT>ATC	p.I58I	FAM81A_uc010uha.1_Silent_p.I58I	NM_152450	NP_689663	Q8TBF8	FA81A_HUMAN	hypothetical protein LOC145773	58										ovary(1)	1						AAGATGACATTGTCAACAGTT	0.502													6	90					0	0	1	0	0		C	59752285	C	C	59752285	2	2	27	1	0	0	0	0	0	0	0	1	5642	1800	63	3		3	FAM81A	15	59752285	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	251290	59752285	42779107	6260	28611											
NARG2	79664	broad.mit.edu	37	chr15	60741267	60741267	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatatactcgtttgataggTttttttaaaacacatgactc	12	18	5	6	1	0	2	0	2	0	0	2	2	0	2	0	1	2	2	0	1	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:60741267T>G	uc002agp.2	-	10	2134	c.1899A>C	c.(1897-1899)AAA>AAC	p.K633N	NARG2_uc002ago.2_Missense_Mutation_p.K496N|NARG2_uc002agq.3_Missense_Mutation_p.K301N	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	633						nucleus				ovary(1)|lung(1)	2						GTTTGATAGGTTTTTTTAAAA	0.378													7	89					0	0	1	0	0		G	60741267	G	G	60741267	3	3	27	1	0	0	0	0	1	0	0	0	10187	1722	60	5	1077	5	NARG2	15	60741267	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	988982	60741267	41790125	6261	28612											
VPS13C	54832	broad.mit.edu	37	chr15	62155653	62155653	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtacctatttgtaaccatAaggattgtcttcttgcttcc	9	16	6	10	0	2	0	0	0	2	0	3	1	3	1	3	1	3	3	3	1	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:62155653A>G	uc002agz.2	-	82	11012	c.10938T>C	c.(10936-10938)CTT>CTC	p.L3646L	VPS13C_uc002aha.2_Silent_p.L3603L	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	3646					protein localization					ovary(2)	2						TTGTAACCATAAGGATTGTCT	0.378													6	63					0	0	1	0	0		G	62155653	G	G	62155653	2	3	27	1	0	0	0	0	0	0	0	1	17217	349	13	3		3	VPS13C	15	62155653	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1414386	62155653	40375739	6262	28613											
VPS13C	54832	broad.mit.edu	37	chr15	62208153	62208153	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggactaattccattatttcAccactgattctcgaatgcag	12	13	6	10	1	2	1	1	1	1	0	4	3	3	2	2	1	1	1	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:62208153A>G	uc002agz.2	-	61	8198	c.8124T>C	c.(8122-8124)GGT>GGC	p.G2708G	VPS13C_uc002aha.2_Silent_p.G2665G|VPS13C_uc002ahb.1_Silent_p.G2708G|VPS13C_uc002ahc.1_Silent_p.G2665G|VPS13C_uc002ahd.1_Silent_p.G85G	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2708					protein localization					ovary(2)	2						CCATTATTTCACCACTGATTC	0.408													7	64					0	0	1	0	0		G	62208153	G	G	62208153	2	3	27	1	0	0	0	0	0	0	0	1	17217	146	6	3		3	VPS13C	15	62208153	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	52500	62208153	40323239	6263	28614											
VPS13C	54832	broad.mit.edu	37	chr15	62210431	62210431	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacaaatttatagatgataAatgcaatggagaaatggttt	18	13	8	2	0	0	3	0	1	0	2	0	4	0	3	0	2	2	2	0	2	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:62210431A>G	uc002agz.2	-	59	7738	c.7664T>C	c.(7663-7665)TTT>TCT	p.F2555S	VPS13C_uc002aha.2_Missense_Mutation_p.F2512S|VPS13C_uc002ahb.1_Missense_Mutation_p.F2555S|VPS13C_uc002ahc.1_Missense_Mutation_p.F2512S|VPS13C_uc002ahd.1_5'Flank	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2555					protein localization					ovary(2)	2						ATAGATGATAAATGCAATGGA	0.323													8	84					0	0	1	0	0		G	62210431	G	G	62210431	3	3	27	1	0	0	0	0	1	0	0	0	17217	14	1	3	3733	3	VPS13C	15	62210431	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2278	62210431	40320961	6264	28615											
VPS13C	54832	broad.mit.edu	37	chr15	62251774	62251774	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaatatcaggatggtagAtgcctggctggatcactgtc	9	11	13	8	0	2	2	2	1	0	1	3	4	2	4	1	4	1	3	1	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:62251774A>G	uc002agz.2	-	36	4003	c.3929T>C	c.(3928-3930)ATC>ACC	p.I1310T	VPS13C_uc002aha.2_Missense_Mutation_p.I1267T|VPS13C_uc002ahb.1_Missense_Mutation_p.I1310T|VPS13C_uc002ahc.1_Missense_Mutation_p.I1267T	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	1310					protein localization					ovary(2)	2						AGGATGGTAGATGCCTGGCTG	0.393													12	44					0	0	1	0	0		G	62251774	G	G	62251774	3	3	27	1	0	0	0	0	1	0	0	0	17217	333	12	3	7560	3	VPS13C	15	62251774	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	41343	62251774	40279618	6265	28616											
VPS13C	54832	broad.mit.edu	37	chr15	62253854	62253854	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaggatttaagtagtctTcatcagacaccagactgaac	13	10	9	9	0	3	3	2	1	1	2	3	5	3	5	1	2	1	1	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:62253854T>C	uc002agz.2	-	35	3916	c.3842A>G	c.(3841-3843)GAA>GGA	p.E1281G	VPS13C_uc002aha.2_Missense_Mutation_p.E1238G|VPS13C_uc002ahb.1_Missense_Mutation_p.E1281G|VPS13C_uc002ahc.1_Missense_Mutation_p.E1238G	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	1281					protein localization					ovary(2)	2						TAAGTAGTCTTCATCAGACAC	0.363													7	77					0	0	1	0	0		C	62253854	C	C	62253854	3	2	27	1	0	0	0	0	1	0	0	0	17217	1783	62	3	7651	3	VPS13C	15	62253854	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2080	62253854	40277538	6266	28617											
TLN2	83660	broad.mit.edu	37	chr15	62945511	62945511	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctgcacacagatgatgAccgtaagtgtttgcagagga	13	8	12	8	1	0	4	0	2	0	2	0	5	0	5	1	1	3	5	1	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:62945511A>T	uc002alb.3	+	4	515	c.515A>T	c.(514-516)GAC>GTC	p.D172V		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	172	FERM.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						ACAGATGATGACCGTAAGTGT	0.473													4	28					0	0	1	0	0		T	62945511	T	T	62945511	3	4	27	1	0	0	0	0	1	0	0	0	15973	275	10	5	529	5	TLN2	15	62945511	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	691657	62945511	39585881	6267	28618											
TLN2	83660	broad.mit.edu	37	chr15	63031735	63031735	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggcattgagatggctggCcaagctcaggtgggtgtgga	7	9	18	7	0	1	1	1	1	0	1	1	3	1	2	1	6	1	4	1	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:63031735C>T	uc002alb.3	+	28	3876	c.3876C>T	c.(3874-3876)GGC>GGT	p.G1292G	TLN2_uc002alc.3_5'Flank	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1292					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						AGATGGCTGGCCAAGCTCAGG	0.517													5	50					0	0	1	0	0		T	63031735	T	T	63031735	2	4	27	1	0	0	0	0	0	0	0	1	15973	726	26	2		2	TLN2	15	63031735	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	86224	63031735	39499657	6268	28619											
USP3	9960	broad.mit.edu	37	chr15	63862713	63862713	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacttcagggcggtttcaaCggtgtttcccgctcagcaat	8	11	11	11	3	3	0	3	0	0	0	4	1	4	0	1	3	3	4	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:63862713C>T	uc002amf.2	+	9	972	c.843C>T	c.(841-843)AAC>AAT	p.N281N	USP3_uc010uii.1_RNA|USP3_uc002amg.2_Silent_p.N196N|USP3_uc002amh.2_Silent_p.N259N|USP3_uc010uij.1_Silent_p.N237N|USP3_uc010uik.1_Silent_p.N32N|USP3_uc010bgs.2_Silent_p.N264N|USP3_uc002ami.2_Silent_p.N112N	NM_006537	NP_006528	Q9Y6I4	UBP3_HUMAN	ubiquitin thiolesterase 3	281					DNA repair|histone deubiquitination|mitotic cell cycle|regulation of protein stability|ubiquitin-dependent protein catabolic process	nuclear chromatin	histone binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(80;0.0187)		GCGGTTTCAACGGTGTTTCCC	0.468													26	68					0	0	1	0	0		T	63862713	T	T	63862713	2	4	27	1	0	0	0	0	0	0	0	1	17086	535	19	1		1	USP3	15	63862713	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	830978	63862713	38668679	6269	28620											
HERC1	8925	broad.mit.edu	37	chr15	63904619	63904619	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgctcatccacctcacggTaccgcaccactttcttcaag	8	10	6	17	2	4	0	3	0	1	0	5	0	5	0	4	1	2	4	4	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:63904619T>C	uc002amp.2	-	77	14379	c.14231A>G	c.(14230-14232)TAC>TGC	p.Y4744C	HERC1_uc002amo.2_5'Flank	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	4744	HECT.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						CACCTCACGGTACCGCACCAC	0.552													10	68					0	0	1	0	0		C	63904619	C	C	63904619	3	2	27	1	0	0	0	0	1	0	0	0	7073	1638	57	3	362	3	HERC1	15	63904619	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	41906	63904619	38626773	6270	28621											
HERC1	8925	broad.mit.edu	37	chr15	63937702	63937702	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagccatcagtaactgcaaCttggatcctttccctggaag	10	11	9	11	0	1	0	1	0	0	0	3	2	3	2	3	2	4	3	3	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:63937702C>T	uc002amp.2	-	56	11206	c.11058G>A	c.(11056-11058)AAG>AAA	p.K3686K		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	3686	WD 9.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						GTAACTGCAACTTGGATCCTT	0.438													3	25					0	0	1	0	0		T	63937702	T	T	63937702	2	4	27	1	0	0	0	0	0	0	0	1	7073	564	20	4		4	HERC1	15	63937702	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	33083	63937702	38593690	6271	28622											
HERC1	8925	broad.mit.edu	37	chr15	63950833	63950833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccttaaagccaccacaCggtcatgagggtttgctagg	9	10	10	12	1	2	1	1	1	1	0	3	1	2	1	3	3	2	2	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:63950833C>T	uc002amp.2	-	48	9657	c.9509G>A	c.(9508-9510)CGT>CAT	p.R3170H		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	3170					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						AGCCACCACACGGTCATGAGG	0.507													6	45					0	0	1	0	0		T	63950833	T	T	63950833	3	4	27	1	0	0	0	0	1	0	0	0	7073	536	19	1	5200	1	HERC1	15	63950833	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13131	63950833	38580559	6272	28623											
HERC1	8925	broad.mit.edu	37	chr15	64011049	64011049	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcaagaacaaatctagAcacagtgtccaagagtgact	16	7	9	9	0	1	4	0	1	1	3	2	4	2	4	1	0	3	2	1	0	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:64011049A>G	uc002amp.2	-	20	3938	c.3790T>C	c.(3790-3792)TCT>CCT	p.S1264P	HERC1_uc010uil.1_Intron	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	1264					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						ACAAATCTAGACACAGTGTCC	0.368													4	76					0	0	1	0	0		G	64011049	G	G	64011049	3	3	27	1	0	0	0	0	1	0	0	0	7073	275	10	3	11031	3	HERC1	15	64011049	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	60216	64011049	38520343	6273	28624											
ZNF609	23060	broad.mit.edu	37	chr15	64915123	64915123	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccctgtgagcagatcatggTtcgtacccgatcagttgggg	7	11	13	10	2	2	2	2	1	0	1	4	3	3	2	2	3	2	4	2	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:64915123T>C	uc002ann.2	+	2	845	c.845T>C	c.(844-846)GTT>GCT	p.V282A		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	282						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CAGATCATGGTTCGTACCCGA	0.537													12	140					0	0	1	0	0		C	64915123	C	C	64915123	3	2	27	1	0	0	0	0	1	0	0	0	18060	1725	60	3	851	3	ZNF609	15	64915123	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	904074	64915123	37616269	6274	28625											
ZNF609	23060	broad.mit.edu	37	chr15	64973005	64973005	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtccacacaccaccaccAccaccacttggggtactcat	11	7	6	17	0	1	0	1	0	0	0	2	1	2	0	6	2	1	1	6	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:64973005A>G	uc002ann.2	+	7	4106	c.4106A>G	c.(4105-4107)CAC>CGC	p.H1369R		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	1369	Poly-His.					nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CACCACCACCACCACCACTTG	0.547													9	76					0	0	1	0	0		G	64973005	G	G	64973005	3	3	27	1	0	0	0	0	1	0	0	0	18060	159	6	3	4132	3	ZNF609	15	64973005	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	57882	64973005	37558387	6275	28626											
RBPMS2	348093	broad.mit.edu	37	chr15	65041207	65041207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgccactcacaggggtccCgtgcgatgaagtgtgctcct	7	9	13	12	2	1	1	1	1	0	0	3	2	3	1	3	2	3	1	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:65041207C>T	uc002anq.2	-	5	662	c.410G>A	c.(409-411)CGG>CAG	p.R137Q		NM_194272	NP_919248	Q6ZRY4	RBPS2_HUMAN	RNA binding protein with multiple splicing 2	137							nucleic acid binding|nucleotide binding				0						ACAGGGGTCCCGTGCGATGAA	0.582													5	63					0	0	1	0	0		T	65041207	T	T	65041207	3	4	27	1	0	0	0	0	1	0	0	0	13189	652	23	1	231	1	RBPMS2	15	65041207	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	68202	65041207	37490185	6276	28627											
PIF1	80119	broad.mit.edu	37	chr15	65111388	65111388	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggtactggccagctcaggGttgctgtccatagcctcaaa	9	9	12	11	0	2	0	2	0	0	0	3	0	3	0	3	3	4	4	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:65111388G>A	uc002ant.2	-	9	1434	c.1368C>T	c.(1366-1368)AAC>AAT	p.N456N	PIF1_uc002anr.2_Silent_p.N4N|PIF1_uc002ans.2_Silent_p.N147N|PIF1_uc010uiq.1_Silent_p.N456N	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	456	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0						CCAGCTCAGGGTTGCTGTCCA	0.527													6	29					0	0	1	0	0		A	65111388	A	A	65111388	2	1	27	1	0	0	0	0	0	0	0	1	11902	1252	44	4		4	PIF1	15	65111388	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	70181	65111388	37420004	6277	28628											
PIF1	80119	broad.mit.edu	37	chr15	65112130	65112130	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggccacaatcccatctcGccccaccttgtgggaagctg	7	8	10	16	2	1	0	0	0	1	0	3	1	2	1	5	2	1	1	5	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:65112130G>A	uc002ant.2	-	8	1315	c.1249C>T	c.(1249-1251)CGA>TGA	p.R417*	PIF1_uc002anr.2_5'UTR|PIF1_uc002ans.2_Nonsense_Mutation_p.R108*|PIF1_uc010uiq.1_Nonsense_Mutation_p.R417*	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	417	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0						ATCCCATCTCGCCCCACCTTG	0.647													8	83					0	0	1	0	0		A	65112130	A	A	65112130	4	1	27	1	0	0	0	0	0	1	0	0	11902	1095	38	1	700	1	PIF1	15	65112130	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	742	65112130	37419262	6278	28629											
MTFMT	123263	broad.mit.edu	37	chr15	65308852	65308852	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatacaactggtaccagcAgaaatcttaggggctacaag	14	10	9	8	0	1	1	0	0	1	1	1	1	1	1	1	3	5	3	1	3	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:65308852A>G	uc002aof.3	-	6	761	c.735T>C	c.(733-735)TCT>TCC	p.S245S		NM_139242	NP_640335	Q96DP5	FMT_HUMAN	mitochondrial methionyl-tRNA formyltransferase	245						mitochondrion	methionyl-tRNA formyltransferase activity|methyltransferase activity			ovary(2)	2					Tetrahydrofolic acid(DB00116)	TGGTACCAGCAGAAATCTTAG	0.308													14	136					0	0	1	0	0		G	65308852	G	G	65308852	2	3	27	1	0	0	0	0	0	0	0	1	9942	175	7	3		3	MTFMT	15	65308852	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	196722	65308852	37222540	6279	28630											
DPP8	54878	broad.mit.edu	37	chr15	65746615	65746615	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acataccctgaagatatctgAcctctgcattaatgccatca	13	11	5	12	0	3	3	1	2	2	1	3	3	3	3	3	0	3	1	3	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:65746615A>G	uc002aov.2	-	17	3883	c.2305T>C	c.(2305-2307)TCA>CCA	p.S769P	DPP8_uc002aow.2_Missense_Mutation_p.S769P|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.S753P|DPP8_uc002aoy.2_Intron|DPP8_uc002aoz.2_Intron|DPP8_uc010bhj.2_Missense_Mutation_p.S769P|DPP8_uc002apa.2_Intron|DPP8_uc010bhi.2_Missense_Mutation_p.S72P|DPP8_uc010bhk.1_Missense_Mutation_p.S338P	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	769					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						AAGATATCTGACCTCTGCATT	0.388													7	69					0	0	1	0	0		G	65746615	G	G	65746615	3	3	27	1	0	0	0	0	1	0	0	0	4738	275	10	3	407	3	DPP8	15	65746615	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	437763	65746615	36784777	6280	28631											
DENND4A	10260	broad.mit.edu	37	chr15	65956734	65956734	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttctctgtataaactccTagggagaaaaagtcatggag	14	12	9	6	0	2	1	1	0	1	1	4	3	3	2	1	2	1	1	1	2	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:65956734T>C	uc002aph.2	-	31	5769	c.5391_splice	c.e31-1	p.R1797_splice	DENND4A_uc002api.2_Splice_Site_p.R1840_splice	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						TATAAACTCCTAGGGAGAAAA	0.284													5	43					0	0	1	0	0		C	65956734	C	C	65956734	5	2	27	1	0	0	0	0	0	0	1	0	4439	1536	53	3	210	3	DENND4A	15	65956734	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	210119	65956734	36574658	6281	28632											
DENND4A	10260	broad.mit.edu	37	chr15	65983416	65983416	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttgatacatctgtttcActgtctaagtcttctaagtc	8	18	6	9	0	5	1	1	1	4	0	6	1	5	1	0	0	1	2	0	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:65983416A>G	uc002aph.2	-	22	3762	c.3384T>C	c.(3382-3384)AGT>AGC	p.S1128S	DENND4A_uc002api.2_Silent_p.S1171S|DENND4A_uc002apj.3_Silent_p.S1128S	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	1128					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CATCTGTTTCACTGTCTAAGT	0.353													6	43					0	0	1	0	0		G	65983416	G	G	65983416	2	3	27	1	0	0	0	0	0	0	0	1	4439	156	6	3		3	DENND4A	15	65983416	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26682	65983416	36547976	6282	28633											
RAB11A	8766	broad.mit.edu	37	chr15	66170134	66170134	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtaggtgccttattggttTatgacattgctaaacatctc	9	16	8	8	0	1	1	0	1	1	0	2	1	1	1	1	2	3	3	1	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:66170134T>C	uc002apk.2	+	3	399	c.271T>C	c.(271-273)TAT>CAT	p.Y91H	RAB11A_uc010ujk.1_Missense_Mutation_p.Y91H	NM_004663	NP_004654	P62491	RB11A_HUMAN	Ras-related protein Rab-11A	91					cell cycle|cytokinesis|neuron projection development|plasma membrane to endosome transport|protein localization in plasma membrane|small GTPase mediated signal transduction|vesicle-mediated transport	cleavage furrow|plasma membrane|recycling endosome membrane|trans-Golgi network	GTP binding|GTPase activity|syntaxin binding				0						CTTATTGGTTTATGACATTGC	0.378													8	96					0	0	1	0	0		C	66170134	C	C	66170134	3	2	27	1	0	0	0	0	1	0	0	0	12916	1754	61	3	281	3	RAB11A	15	66170134	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	186718	66170134	36361258	6283	28634											
SMAD6	4091	broad.mit.edu	37	chr15	67004051	67004051	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtctcctcgcgacgagtAcaagccactgggtaagtgtg	8	9	13	11	3	1	0	0	0	1	0	3	2	1	0	2	1	2	3	2	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:67004051A>G	uc002aqf.2	+	2	1786	c.863A>G	c.(862-864)TAC>TGC	p.Y288C	SMAD6_uc010bhx.2_RNA|SMAD6_uc002aqg.2_Missense_Mutation_p.Y27C	NM_005585	NP_005576	O43541	SMAD6_HUMAN	SMAD family member 6 isoform 1	288					BMP signaling pathway|immune response|negative regulation of apoptosis|negative regulation of BMP signaling pathway|negative regulation of caspase activity|negative regulation of pathway-restricted SMAD protein phosphorylation|negative regulation of SMAD protein complex assembly|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of S phase of mitotic cell cycle|response to laminar fluid shear stress|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	cytosol|transcription factor complex	co-SMAD binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, inhibitory cytoplasmic mediator activity|type I activin receptor binding|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			skin(1)	1						CGCGACGAGTACAAGCCACTG	0.572													7	59					0	0	1	0	0		G	67004051	G	G	67004051	3	3	27	1	0	0	0	0	1	0	0	0	14787	391	14	3	907	3	SMAD6	15	67004051	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	833917	67004051	35527341	6284	28635											
SMAD6	4091	broad.mit.edu	37	chr15	67008838	67008838	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccgggtgaattctcaggTcagcattttttcttgtgcat	6	16	10	9	1	3	1	2	1	2	0	5	1	4	1	1	2	2	3	1	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:67008838T>C	uc002aqf.2	+	3	1875	c.952_splice	c.e3+2	p.D318_splice	SMAD6_uc010bhx.2_Splice_Site|SMAD6_uc002aqg.2_Splice_Site_p.D57_splice	NM_005585	NP_005576	O43541	SMAD6_HUMAN	SMAD family member 6 isoform 1						BMP signaling pathway|immune response|negative regulation of apoptosis|negative regulation of BMP signaling pathway|negative regulation of caspase activity|negative regulation of pathway-restricted SMAD protein phosphorylation|negative regulation of SMAD protein complex assembly|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of S phase of mitotic cell cycle|response to laminar fluid shear stress|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	cytosol|transcription factor complex	co-SMAD binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, inhibitory cytoplasmic mediator activity|type I activin receptor binding|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			skin(1)	1						AATTCTCAGGTCAGCATTTTT	0.473													5	119					0	0	1	0	0		C	67008838	C	C	67008838	5	2	27	1	0	0	0	0	0	0	1	0	14787	1681	58	3	1002	3	SMAD6	15	67008838	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4787	67008838	35522554	6285	28636											
SMAD3	4088	broad.mit.edu	37	chr15	67482849	67482849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacccagatgggctccccaaGcatccgctgttccagtgtgt	7	9	10	15	1	0	1	0	0	0	1	3	1	3	1	5	1	1	4	5	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:67482849G>A	uc002aqj.2	+	9	1551	c.1253G>A	c.(1252-1254)AGC>AAC	p.S418N	SMAD3_uc010ujr.1_Missense_Mutation_p.S313N|SMAD3_uc010ujs.1_Missense_Mutation_p.S374N|SMAD3_uc010ujt.1_Missense_Mutation_p.S223N	NM_005902	NP_005893	P84022	SMAD3_HUMAN	mothers against decapentaplegic homolog 3	418	MH2.				activation of caspase activity|cell cycle arrest|cell-cell junction organization|evasion of host defenses by virus|immune response|induction of apoptosis|negative regulation of cell growth|negative regulation of mitotic cell cycle|negative regulation of protein catabolic process|negative regulation of protein phosphorylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|protein stabilization|regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|transport|wound healing	cytosol|nuclear inner membrane|receptor complex	beta-catenin binding|co-SMAD binding|metal ion binding|protein homodimerization activity|protein kinase binding|R-SMAD binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor binding|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|ubiquitin protein ligase binding			large_intestine(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5				Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(7;0.125)		GGCTCCCCAAGCATCCGCTGT	0.547													5	31					0	0	1	0	0		A	67482849	A	A	67482849	3	1	27	1	0	0	0	0	1	0	0	0	14784	971	34	2	1365	2	SMAD3	15	67482849	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	474011	67482849	35048543	6286	28637											
IQCH	64799	broad.mit.edu	37	chr15	67692609	67692609	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctaaaggagagtagcagatAtggccttgaagactggagaa	15	7	14	5	0	0	5	0	1	0	4	0	7	0	5	1	3	1	3	1	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:67692609A>G	uc002aqo.1	+	14	2110	c.2063A>G	c.(2062-2064)TAT>TGT	p.Y688C	IQCH_uc002aqq.1_Missense_Mutation_p.Y345C|IQCH_uc002aqp.1_Missense_Mutation_p.Y349C	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	688										skin(3)|ovary(1)	4				Colorectal(3;0.0856)		AGTAGCAGATATGGCCTTGAA	0.433													6	41					0	0	1	0	0		G	67692609	G	G	67692609	3	3	27	1	0	0	0	0	1	0	0	0	7827	449	16	3	2245	3	IQCH	15	67692609	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	209760	67692609	34838783	6287	28638											
LBXCOR1	390598	broad.mit.edu	37	chr15	68118726	68118726	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgatgtggtgcacgagtGcgcgtggggctcgcgtggta	4	10	18	9	6	0	0	0	0	0	0	2	2	0	0	0	4	2	3	0	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:68118726G>T	uc002aqy.1	+	2	533	c.533G>T	c.(532-534)TGC>TTC	p.C178F		NM_001031807	NP_001026977	P84550	SKOR1_HUMAN	transcriptional corepressor Corl1	187					negative regulation of BMP signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|dendrite|neuronal cell body|nucleus	nucleotide binding|SMAD binding|transcription repressor activity				0						GTGCACGAGTGCGCGTGGGGC	0.597													10	69					6.40141e-05	6.80234e-05	1	1	0		T	68118726	T	T	68118726	3	4	27	1	0	0	0	0	1	0	0	0	8671	1319	46	5	539	5	LBXCOR1	15	68118726	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	426117	68118726	34412666	6288	28639											
PIAS1	8554	broad.mit.edu	37	chr15	68378875	68378875	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acgtacattcaagtcctatgCcagcaactttgtctccatct	10	13	5	13	1	3	0	1	0	2	0	5	0	4	0	3	0	4	2	3	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:68378875C>A	uc002aqz.2	+	2	352	c.256C>A	c.(256-258)CCA>ACA	p.P86T	PIAS1_uc010ujx.1_Missense_Mutation_p.P86T	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	86					androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						AAGTCCTATGCCAGCAACTTT	0.468													5	204					1.23904e-05	1.32877e-05	1	1	0		A	68378875	A	A	68378875	3	1	27	1	0	0	0	0	1	0	0	0	11894	739	26	5	262	5	PIAS1	15	68378875	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	260149	68378875	34152517	6289	28640											
PIAS1	8554	broad.mit.edu	37	chr15	68438930	68438930	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccacctacaaaaaatggCgtggaaccaaagcgacccag	15	5	8	13	2	0	0	0	0	0	0	1	2	1	1	4	2	3	0	4	2	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:68438930C>T	uc002aqz.2	+	6	816	c.720C>T	c.(718-720)GGC>GGT	p.G240G	PIAS1_uc010ujx.1_Silent_p.G240G	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	240	PINIT.				androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						CAAAAAATGGCGTGGAACCAA	0.373													8	83					0	0	1	0	0		T	68438930	T	T	68438930	2	4	27	1	0	0	0	0	0	0	0	1	11894	755	27	1		1	PIAS1	15	68438930	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	60055	68438930	34092462	6290	28641											
ITGA11	22801	broad.mit.edu	37	chr15	68608055	68608055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgaactcaaaatcaagaCggaaagccacctgcaaggaa	17	5	9	10	1	2	2	2	1	0	1	2	4	2	4	2	2	4	2	2	2	7	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:68608055C>T	uc002ari.2	-	22	2813	c.2726G>A	c.(2725-2727)CGT>CAT	p.R909H	ITGA11_uc010bib.2_Missense_Mutation_p.R909H	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	909	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	AAAATCAAGACGGAAAGCCAC	0.612													6	10					0	0	1	0	0		T	68608055	T	T	68608055	3	4	27	1	0	0	0	0	1	0	0	0	7890	536	19	1	876	1	ITGA11	15	68608055	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	169125	68608055	33923337	6291	28642											
GLCE	26035	broad.mit.edu	37	chr15	69548299	69548299	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggcttcagagtggatgggTttgaaaaaagagcagcagca	13	8	15	5	0	1	3	1	1	0	2	1	4	1	4	0	3	3	5	0	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:69548299T>C	uc002ary.1	+	3	382	c.154T>C	c.(154-156)TTT>CTT	p.F52L		NM_015554	NP_056369	O94923	GLCE_HUMAN	D-glucuronyl C5-epimerase	52	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|heparin biosynthetic process	Golgi membrane|integral to membrane	UDP-glucuronate 5'-epimerase activity			ovary(2)	2						AGTGGATGGGTTTGAAAAAAG	0.463													10	55					0	0	1	0	0		C	69548299	C	C	69548299	3	2	27	1	0	0	0	0	1	0	0	0	6447	1725	60	3	156	3	GLCE	15	69548299	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	940244	69548299	32983093	6292	28643											
KIF23	9493	broad.mit.edu	37	chr15	69737152	69737152	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctttcaacctgatcagaaCgcaccaccaattcgtctccg	10	10	5	16	3	4	2	2	1	2	1	6	2	4	2	4	0	2	1	4	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:69737152C>T	uc002asb.2	+	19	2520	c.2403C>T	c.(2401-2403)AAC>AAT	p.N801N	KIF23_uc002asc.2_Silent_p.N697N|KIF23_uc010bii.2_Intron|KIF23_uc010ukc.1_Silent_p.N514N	NM_138555	NP_612565	Q02241	KIF23_HUMAN	kinesin family member 23 isoform 1	801					blood coagulation|cytokinesis|microtubule-based movement|mitosis|mitotic spindle elongation	cytosol|kinesin complex|microtubule|midbody|nucleoplasm|spindle	ATP binding|microtubule motor activity|protein binding				0						CTGATCAGAACGCACCACCAA	0.443													6	62					0	0	1	0	0		T	69737152	T	T	69737152	2	4	27	1	0	0	0	0	0	0	0	1	8307	535	19	1		1	KIF23	15	69737152	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	188853	69737152	32794240	6293	28644											
RPLP1	6176	broad.mit.edu	37	chr15	69747800	69747800	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggaagcaaagaaagaagAatccgaggagtctgatgatg	17	6	14	4	1	1	5	0	2	1	3	2	8	2	7	1	2	1	1	1	2	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:69747800A>G	uc002asd.1	+	4	428	c.299A>G	c.(298-300)GAA>GGA	p.E100G	RPLP1_uc002ase.1_Missense_Mutation_p.E75G	NM_001003	NP_000994	P05386	RLA1_HUMAN	ribosomal protein P1 isoform 1	100					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0						AAGAAAGAAGAATCCGAGGAG	0.358													4	34					0	0	1	0	0		G	69747800	G	G	69747800	3	3	27	1	0	0	0	0	1	0	0	0	13630	246	9	3	313	3	RPLP1	15	69747800	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10648	69747800	32783592	6294	28645											
THAP10	56906	broad.mit.edu	37	chr15	71184328	71184328	+	Frame_Shift_Del	DEL	G	-	-																															cctctcccctcttaggtgccGgggcgggcacccggtgcagg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:71184328delG	uc002asv.2	-	1	426	c.284delC	c.(283-285)CCGfs	p.P95fs	LRRC49_uc002asu.2_Intron|LRRC49_uc002asw.2_5'Flank|LRRC49_uc002asx.2_5'Flank|LRRC49_uc010ukf.1_5'Flank	NM_020147	NP_064532	Q9P2Z0	THA10_HUMAN	THAP domain containing 10	95							DNA binding|metal ion binding			ovary(1)|skin(1)	2						CTTAGGTGCCGGGGCGGGCAC	0.667													9	10	---	---	---	---						.	-	71184328	-	-	71184328	7	5	27	1	0	1	0	1	0	0	0	0	15867	1116	39	0	501	0	THAP10	15	71184328	Frame_Shift_Del	DEL	G	TCGA-BR-6452-01A-12D-1800-08	1436528	71184328	31347064	6295	28646											
LRRC49	54839	broad.mit.edu	37	chr15	71196973	71196973	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacaattttataactcggAtacaaaatatttctaatcta	18	14	2	7	1	2	0	0	0	2	0	3	1	2	1	0	1	3	0	0	1	10	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:71196973A>T	uc002asw.2	+	5	626	c.379A>T	c.(379-381)ATA>TTA	p.I127L	LRRC49_uc002asu.2_Missense_Mutation_p.I117L|LRRC49_uc002asx.2_Missense_Mutation_p.I83L|LRRC49_uc010ukf.1_Missense_Mutation_p.I132L|LRRC49_uc002asy.2_5'UTR|LRRC49_uc002asz.2_Missense_Mutation_p.I99L	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	127	LRR 1.					cytoplasm|microtubule				ovary(1)	1						TATAACTCGGATACAAAATAT	0.338													9	80					0	0	1	0	0		T	71196973	T	T	71196973	3	4	27	1	0	0	0	0	1	0	0	0	9024	333	12	5	397	5	LRRC49	15	71196973	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	12645	71196973	31334419	6296	28647											
THSD4	79875	broad.mit.edu	37	chr15	72050275	72050275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggccggagtgcggacacGctcggtggtgtgcatgacca	6	7	18	10	4	0	1	0	1	0	0	1	3	0	3	2	6	2	2	2	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:72050275G>A	uc002atb.1	+	14	2529	c.2450G>A	c.(2449-2451)CGC>CAC	p.R817H	THSD4_uc002ate.2_Missense_Mutation_p.R457H|THSD4_uc002atg.1_Missense_Mutation_p.R20H	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	817	TSP type-1 4.					proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						GTGCGGACACGCTCGGTGGTG	0.637													11	47					0	0	1	0	0		A	72050275	A	A	72050275	3	1	27	1	0	0	0	0	1	0	0	0	15903	1087	38	1	2504	1	THSD4	15	72050275	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	853302	72050275	30481117	6297	28648											
MYO9A	4649	broad.mit.edu	37	chr15	72286859	72286859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagaagtgcatgattaattCgaaaaactatccagtcaaac	17	10	6	8	1	2	2	2	1	0	1	4	3	3	2	1	0	3	1	1	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:72286859C>T	uc002atl.3	-	10	2011	c.1538G>A	c.(1537-1539)CGA>CAA	p.R513Q	MYO9A_uc010biq.2_Missense_Mutation_p.R108Q|MYO9A_uc002ato.2_Missense_Mutation_p.R513Q|MYO9A_uc002atn.1_Missense_Mutation_p.R494Q	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	513	Myosin head-like 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						ATGATTAATTCGAAAAACTAT	0.338													6	115					0	0	1	0	0		T	72286859	T	T	72286859	3	4	27	1	0	0	0	0	1	0	0	0	10102	884	31	1	6240	1	MYO9A	15	72286859	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	236584	72286859	30244533	6298	28649											
GRAMD2	196996	broad.mit.edu	37	chr15	72455965	72455965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaacttaccagacattggaGgcttcctggaggggaagaaa	13	7	13	8	1	0	2	0	0	0	2	1	6	1	5	2	5	2	1	2	5	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:72455965G>A	uc002atq.2	-	9	758	c.734C>T	c.(733-735)CCT>CTT	p.P245L	GRAMD2_uc010bis.2_Missense_Mutation_p.P245L|GRAMD2_uc010ukh.1_Missense_Mutation_p.P39L	NM_001012642	NP_001012660	Q8IUY3	GRAM2_HUMAN	GRAM domain containing 2	245						integral to membrane					0						AGACATTGGAGGCTTCCTGGA	0.537													5	39					0	0	1	0	0		A	72455965	A	A	72455965	3	1	27	1	0	0	0	0	1	0	0	0	6766	1000	35	4	346	4	GRAMD2	15	72455965	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	169106	72455965	30075427	6299	28650											
PKM2	5315	broad.mit.edu	37	chr15	72501124	72501124	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacttcagatcctggatgTccttctccgacacagcaggc	10	9	8	14	1	2	1	1	0	1	1	5	3	4	2	3	2	2	1	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:72501124T>C	uc002atx.1	-	6	915	c.674A>G	c.(673-675)GAC>GGC	p.D225G	PKM2_uc002ats.1_5'Flank|PKM2_uc002att.1_5'UTR|PKM2_uc002atu.1_5'UTR|PKM2_uc010bit.1_Missense_Mutation_p.D230G|PKM2_uc010uki.1_Missense_Mutation_p.D299G|PKM2_uc002atv.1_Missense_Mutation_p.D260G|PKM2_uc002atw.1_Missense_Mutation_p.D225G|PKM2_uc002aty.1_Missense_Mutation_p.D225G|PKM2_uc010ukj.1_Missense_Mutation_p.D210G|PKM2_uc010ukk.1_Missense_Mutation_p.D151G|PKM2_uc010biu.1_Missense_Mutation_p.D246G|PKM2_uc002atz.1_RNA	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	225					glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	ATCCTGGATGTCCTTCTCCGA	0.537													3	102					0	0	1	0	0		C	72501124	C	C	72501124	3	2	27	1	0	0	0	0	1	0	0	0	11996	1667	58	3	1116	3	PKM2	15	72501124	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	45159	72501124	30030268	6300	28651											
PARP6	56965	broad.mit.edu	37	chr15	72552962	72552962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acggttcatgaggcgcccaaCccgaagctctggtacaccta	10	7	10	14	3	2	1	1	1	1	0	2	2	2	1	3	3	3	3	3	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:72552962C>T	uc002auc.2	-	9	1072	c.613G>A	c.(613-615)GTT>ATT	p.V205I	PARP6_uc002aua.2_Missense_Mutation_p.V70I|PARP6_uc002aub.2_RNA|PARP6_uc002aud.3_RNA|PARP6_uc002auf.1_Missense_Mutation_p.V205I	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	205							NAD+ ADP-ribosyltransferase activity				0						AGGCGCCCAACCCGAAGCTCT	0.537													37	445					0	0	1	0	0		T	72552962	T	T	72552962	3	4	27	1	0	0	0	0	1	0	0	0	11483	507	18	4	1339	4	PARP6	15	72552962	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	51838	72552962	29978430	6301	28652											
CELF6	60677	broad.mit.edu	37	chr15	72580706	72580706	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactttagcagagacaacggCtccaaagggcaggaatgtct	13	7	12	9	1	1	1	0	0	1	1	2	4	2	2	1	3	2	3	1	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:72580706C>A	uc002auh.2	-	11	1571	c.1261G>T	c.(1261-1263)GCC>TCC	p.A421S	uc002aug.2_Intron|CELF6_uc002auk.3_RNA|CELF6_uc010biv.1_RNA|CELF6_uc010biw.2_Missense_Mutation_p.A308S|CELF6_uc010ukl.1_Missense_Mutation_p.A284S|CELF6_uc010ukm.1_Missense_Mutation_p.A394S|CELF6_uc002aui.2_Missense_Mutation_p.A527S|CELF6_uc002auj.2_Missense_Mutation_p.A308S	NM_052840	NP_443072	Q96J87	CELF6_HUMAN	bruno-like 6, RNA binding protein	421	RRM 3.				mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3						GAGACAACGGCTCCAAAGGGC	0.527													12	163					0.00136819	0.0014224	1	1	0		A	72580706	A	A	72580706	3	1	27	1	0	0	0	0	1	0	0	0	3223	797	28	5	192	5	CELF6	15	72580706	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	27744	72580706	29950686	6302	28653											
NEO1	4756	broad.mit.edu	37	chr15	73542047	73542047	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacaccagatgttgctgttCgaacattgtcagatggtgag	10	11	11	9	1	1	3	1	1	0	2	2	4	1	3	2	1	2	3	2	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:73542047C>T	uc002avm.3	+	11	2021	c.1879C>T	c.(1879-1881)CGA>TGA	p.R627*	NEO1_uc010ukx.1_Nonsense_Mutation_p.R627*|NEO1_uc010uky.1_Nonsense_Mutation_p.R627*|NEO1_uc010ukz.1_Nonsense_Mutation_p.R51*|NEO1_uc002avn.3_Nonsense_Mutation_p.R292*	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	627	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						TGTTGCTGTTCGAACATTGTC	0.348													12	131					0	0	1	0	0		T	73542047	T	T	73542047	4	4	27	1	0	0	0	0	0	1	0	0	10355	876	31	1	1921	1	NEO1	15	73542047	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	961341	73542047	28989345	6303	28654											
NEO1	4756	broad.mit.edu	37	chr15	73547093	73547093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattactggctacaagattcGctaccgaaaggcctcccgaa	12	8	9	12	3	0	1	0	0	0	1	2	4	1	1	3	2	3	2	3	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:73547093G>A	uc002avm.3	+	13	2157	c.2015G>A	c.(2014-2016)CGC>CAC	p.R672H	NEO1_uc010ukx.1_Missense_Mutation_p.R672H|NEO1_uc010uky.1_Missense_Mutation_p.R672H|NEO1_uc010ukz.1_Missense_Mutation_p.R96H|NEO1_uc002avn.3_Missense_Mutation_p.R337H	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	672	Extracellular (Potential).|Fibronectin type-III 3.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						TACAAGATTCGCTACCGAAAG	0.488													49	119					0	0	1	0	0		A	73547093	A	A	73547093	3	1	27	1	0	0	0	0	1	0	0	0	10355	1087	38	1	2065	1	NEO1	15	73547093	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5046	73547093	28984299	6304	28655											
NEO1	4756	broad.mit.edu	37	chr15	73575319	73575319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcaggcagtaacagccctCatgggagccccacctctcct	8	7	9	17	0	2	0	1	0	1	0	3	1	2	1	5	2	4	3	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:73575319C>T	uc002avm.3	+	23	3419	c.3277C>T	c.(3277-3279)CAT>TAT	p.H1093Y	NEO1_uc010ukx.1_Missense_Mutation_p.H1082Y|NEO1_uc010uky.1_Missense_Mutation_p.H1093Y|NEO1_uc010ukz.1_Missense_Mutation_p.H506Y|NEO1_uc002avn.3_Missense_Mutation_p.H731Y	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	1093	Extracellular (Potential).				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						TAACAGCCCTCATGGGAGCCC	0.443													24	339					0	0	1	0	0		T	73575319	T	T	73575319	3	4	27	1	0	0	0	0	1	0	0	0	10355	826	29	4	3367	4	NEO1	15	73575319	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	28226	73575319	28956073	6305	28656											
HCN4	10021	broad.mit.edu	37	chr15	73615063	73615063	+	Frame_Shift_Del	DEL	C	-	-																															tcccactgcccccgctgccaCccccagccctggggaagagc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:73615063delC	uc002avp.2	-	8	4365	c.3371delG	c.(3370-3372)GGTfs	p.G1124fs		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	1124	Cytoplasmic (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		CCCGCTGCCACCCCCAGCCCT	0.721													3	6	---	---	---	---						.	-	73615063	-	-	73615063	7	5	27	1	0	1	0	1	0	0	0	0	7015	507	18	0	244	0	HCN4	15	73615063	Frame_Shift_Del	DEL	C	TCGA-BR-6452-01A-12D-1800-08	39744	73615063	28916329	6306	28657											
HCN4	10021	broad.mit.edu	37	chr15	73635998	73635998	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgatccctgtgcggaagtTgaggaccaagtcgatgagga	11	7	14	9	3	0	2	0	2	0	0	2	7	1	5	2	3	1	1	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:73635998T>C	uc002avp.2	-	2	1931	c.937A>G	c.(937-939)AAC>GAC	p.N313D		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	313	Helical; Name=Segment S2; (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		GTGCGGAAGTTGAGGACCAAG	0.488													5	53					0	0	1	0	0		C	73635998	C	C	73635998	3	2	27	1	0	0	0	0	1	0	0	0	7015	1812	63	3	2702	3	HCN4	15	73635998	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20935	73635998	28895394	6307	28658											
CD276	80381	broad.mit.edu	37	chr15	73994658	73994658	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgggcaccgatgccaccCtgtgctgctccttctcccct	3	11	10	17	1	1	0	0	0	1	0	3	1	2	0	6	2	3	3	6	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:73994658C>A	uc002avv.1	+	3	376	c.142C>A	c.(142-144)CTG>ATG	p.L48M	CD276_uc010bjd.1_Translation_Start_Site|CD276_uc002avu.1_Missense_Mutation_p.L48M|CD276_uc002avw.1_Missense_Mutation_p.L48M|CD276_uc010ulb.1_Intron|CD276_uc002avx.2_5'Flank	NM_001024736	NP_001019907	Q5ZPR3	CD276_HUMAN	CD276 antigen isoform a	48	Ig-like V-type 1.|Extracellular (Potential).				cell proliferation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of T cell proliferation|regulation of immune response|T cell activation	external side of plasma membrane|integral to membrane	receptor binding			skin(1)	1						CGATGCCACCCTGTGCTGCTC	0.607													8	25					3.09899e-07	3.3784e-07	1	1	0		A	73994658	A	A	73994658	3	1	27	1	0	0	0	0	1	0	0	0	2995	680	24	5	148	5	CD276	15	73994658	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	358660	73994658	28536734	6308	28659											
ISLR2	57611	broad.mit.edu	37	chr15	74427037	74427037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccgcagacttcgacccgCgtgcttcgtacctcgagtcc	5	9	10	17	7	0	1	0	0	0	1	5	3	1	1	4	0	2	3	4	0	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:74427037C>T	uc002axd.2	+	4	2711	c.1942C>T	c.(1942-1944)CGT>TGT	p.R648C	ISLR2_uc002axe.2_Missense_Mutation_p.R648C|ISLR2_uc010bjg.2_Missense_Mutation_p.R648C|ISLR2_uc010bjf.2_Missense_Mutation_p.R648C	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	648	Cytoplasmic (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CTTCGACCCGCGTGCTTCGTA	0.667											OREG0023277	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	64					0	0	1	0	0		T	74427037	T	T	74427037	3	4	27	1	0	0	0	0	1	0	0	0	7875	768	27	1	1944	1	ISLR2	15	74427037	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	432379	74427037	28104355	6309	28660											
ISLR2	57611	broad.mit.edu	37	chr15	74427273	74427273	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgatcggctgcccctgggCgccgaggcggtcaacatcgc	6	5	15	15	6	1	0	1	0	0	0	3	2	1	0	3	4	3	1	3	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:74427273C>T	uc002axd.2	+	4	2947	c.2178C>T	c.(2176-2178)GGC>GGT	p.G726G	ISLR2_uc002axe.2_Silent_p.G726G|ISLR2_uc010bjg.2_Silent_p.G726G|ISLR2_uc010bjf.2_Silent_p.G726G	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	726	Cytoplasmic (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						TGCCCCTGGGCGCCGAGGCGG	0.662											OREG0023277	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	62					0	0	1	0	0		T	74427273	T	T	74427273	2	4	27	1	0	0	0	0	0	0	0	1	7875	755	27	1		1	ISLR2	15	74427273	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	236	74427273	28104119	6310	28661											
CCDC33	80125	broad.mit.edu	37	chr15	74565210	74565210	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactttgacgtgcctcgcgTcagccagaacggatgccctc	8	8	11	14	4	1	2	1	1	0	1	3	4	1	3	3	1	5	0	3	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:74565210T>C	uc002axo.2	+	7	1131	c.737T>C	c.(736-738)GTC>GCC	p.V246A	CCDC33_uc002axp.2_Missense_Mutation_p.V68A	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	449							protein binding			ovary(3)|skin(2)	5						GTGCCTCGCGTCAGCCAGAAC	0.577													11	99					0	0	1	0	0		C	74565210	C	C	74565210	3	2	27	1	0	0	0	0	1	0	0	0	2809	1667	58	3	763	3	CCDC33	15	74565210	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	137937	74565210	27966182	6311	28662											
SEMA7A	8482	broad.mit.edu	37	chr15	74708178	74708178	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatagaccctggtgtccCtccactggccgctggggtca	6	8	11	16	1	1	1	1	0	0	1	3	1	3	1	5	4	0	1	5	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:74708178C>A	uc002axv.2	-	8	990	c.950G>T	c.(949-951)AGG>ATG	p.R317M	SEMA7A_uc010ulk.1_Missense_Mutation_p.R152M|SEMA7A_uc010ull.1_Missense_Mutation_p.R303M	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	317	Sema.				axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						CCTGGTGTCCCTCCACTGGCC	0.587													4	52					0.00909568	0.0093211	1	1	0		A	74708178	A	A	74708178	3	1	27	1	0	0	0	0	1	0	0	0	14068	681	24	5	1078	5	SEMA7A	15	74708178	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	142968	74708178	27823214	6312	28663											
UBL7	84993	broad.mit.edu	37	chr15	74741564	74741564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtgagagctgctctccGgagtgctggccagggccaag	6	8	17	10	1	1	1	0	1	1	1	2	3	1	2	3	3	3	3	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:74741564G>A	uc002axw.1	-	9	1007	c.845C>T	c.(844-846)CCG>CTG	p.P282L	UBL7_uc002axx.1_Missense_Mutation_p.P322L|UBL7_uc010bjr.1_Missense_Mutation_p.P173L|UBL7_uc002axy.1_Missense_Mutation_p.P282L|UBL7_uc002axz.1_Missense_Mutation_p.P282L	NM_032907	NP_116296	Q96S82	UBL7_HUMAN	ubiquitin-like 7	282							protein binding			ovary(1)	1						GCTGCTCTCCGGAGTGCTGGC	0.682													6	52					0	0	1	0	0		A	74741564	A	A	74741564	3	1	27	1	0	0	0	0	1	0	0	0	16916	1116	39	1	309	1	UBL7	15	74741564	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	33386	74741564	27789828	6313	28664											
ARID3B	10620	broad.mit.edu	37	chr15	74888103	74888103	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgcagagccctccaccagCtggtccctctgatgggcagg	7	6	13	15	1	1	2	0	1	1	1	3	2	3	2	4	3	3	3	4	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:74888103C>A	uc002aye.2	+	9	1875	c.1674C>A	c.(1672-1674)AGC>AGA	p.S558R	ARID3B_uc002ayd.2_Missense_Mutation_p.S557R|CLK3_uc002ayf.1_5'Flank	NM_006465	NP_006456	Q8IVW6	ARI3B_HUMAN	AT rich interactive domain 3B	558	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0						CCTCCACCAGCTGGTCCCTCT	0.517													4	45					0.00116845	0.00121513	1	1	0		A	74888103	A	A	74888103	3	1	27	1	0	0	0	0	1	0	0	0	917	796	28	5	1701	5	ARID3B	15	74888103	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	146539	74888103	27643289	6314	28665											
LMAN1L	79748	broad.mit.edu	37	chr15	75117871	75117871	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccacaggcagccttcctctGggtcctgcaccacacacccc	7	7	7	20	0	1	0	0	0	1	0	4	0	4	0	7	2	2	2	7	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:75117871G>A	uc002ayt.1	+	14	1508	c.1506G>A	c.(1504-1506)CTG>CTA	p.L502L	LMAN1L_uc010bke.1_Silent_p.L490L|CPLX3_uc002ayu.1_5'Flank	NM_021819	NP_068591	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like precursor	502	Cytoplasmic (Potential).					ER-Golgi intermediate compartment membrane|integral to membrane	sugar binding				0						GCCTTCCTCTGGGTCCTGCAC	0.597													39	127					0	0	1	0	0		A	75117871	A	A	75117871	2	1	27	1	0	0	0	0	0	0	0	1	8854	1335	47	4		4	LMAN1L	15	75117871	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	229768	75117871	27413521	6315	28666											
NEIL1	79661	broad.mit.edu	37	chr15	75646609	75646609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggggatcctggaccgttgGcacccaaaggtaagctactc	10	7	13	11	1	0	0	0	0	0	0	2	2	1	2	3	5	2	4	3	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:75646609G>A	uc002bad.2	+	7	1371	c.865G>A	c.(865-867)GCA>ACA	p.A289T	NEIL1_uc002bae.2_Missense_Mutation_p.A375T|MIR631_hsa-mir-631|MI0003645_5'Flank	NM_024608	NP_078884	Q96FI4	NEIL1_HUMAN	nei endonuclease VIII-like 1	289					base-excision repair|negative regulation of nuclease activity|nucleotide-excision repair|response to oxidative stress	cytoplasm|nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|protein C-terminus binding|zinc ion binding			ovary(1)	1						TGGACCGTTGGCACCCAAAGG	0.547								BER_DNA_glycosylases					10	90					0	0	1	0	0		A	75646609	A	A	75646609	3	1	27	1	0	0	0	0	1	0	0	0	10337	1203	42	2	887	2	NEIL1	15	75646609	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	528738	75646609	26884783	6316	28667											
MAN2C1	4123	broad.mit.edu	37	chr15	75648486	75648486	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accggcagcgacaagtgcagCcagcagtccacgtggctgcc	9	4	13	15	3	0	0	0	0	0	0	1	1	1	0	4	2	5	4	4	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:75648486C>T	uc002baf.2	-	25	2978	c.2961G>A	c.(2959-2961)TGG>TGA	p.W987*	MIR631_hsa-mir-631|MI0003645_5'Flank|MAN2C1_uc002bag.2_Nonsense_Mutation_p.W964*|MAN2C1_uc002bah.2_Nonsense_Mutation_p.W1004*|MAN2C1_uc010bkk.2_Nonsense_Mutation_p.W888*	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	987					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						ACAAGTGCAGCCAGCAGTCCA	0.682													3	29					0	0	1	0	0		T	75648486	T	T	75648486	4	4	27	1	0	0	0	0	0	1	0	0	9236	740	26	2	169	2	MAN2C1	15	75648486	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1877	75648486	26882906	6317	28668											
CSPG4	1464	broad.mit.edu	37	chr15	75969124	75969124	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctggaagatgcctgccacGctgctcccgttggccacgaa	8	7	12	14	3	0	1	0	0	0	1	1	3	1	2	4	2	4	4	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:75969124G>A	uc002baw.2	-	10	5829	c.5736C>T	c.(5734-5736)AGC>AGT	p.S1912S		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1912	CSPG 13.|Extracellular (Potential).|Cysteine-containing.|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						TGCCTGCCACGCTGCTCCCGT	0.667													5	55					0	0	1	0	0		A	75969124	A	A	75969124	2	1	27	1	0	0	0	0	0	0	0	1	3963	1078	38	1		1	CSPG4	15	75969124	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	320638	75969124	26562268	6318	28669											
TSPAN3	10099	broad.mit.edu	37	chr15	77348527	77348527	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagcgtgtacacatcttcaAagaagtggtcatagtcatca	13	11	9	8	1	5	2	4	1	1	1	5	2	5	2	0	1	2	1	0	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:77348527A>G	uc002bcj.2	-	2	351	c.134T>C	c.(133-135)TTT>TCT	p.F45S	TSPAN3_uc002bck.2_Missense_Mutation_p.F45S|TSPAN3_uc010ump.1_Intron|TSPAN3_uc010bkx.2_Intron	NM_005724	NP_005715	O60637	TSN3_HUMAN	transmembrane 4 superfamily member 8 isoform 1	45	Extracellular (Potential).					integral to membrane					0				all cancers(203;1.14e-19)		CACATCTTCAAAGAAGTGGTC	0.468													32	129					0	0	1	0	0		G	77348527	G	G	77348527	3	3	27	1	0	0	0	0	1	0	0	0	16671	14	1	3	651	3	TSPAN3	15	77348527	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1379403	77348527	25182865	6319	28670											
CIB2	10518	broad.mit.edu	37	chr15	78398176	78398176	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctcctcaatgaccttgtcGcacacaagcaccacctcctc	9	8	5	19	1	1	1	1	1	0	0	5	1	3	1	6	0	1	2	6	0	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:78398176G>A	uc002bdb.1	-	5	768	c.447C>T	c.(445-447)TGC>TGT	p.C149C	CIB2_uc002bdc.1_Silent_p.C106C|CIB2_uc010ums.1_Silent_p.C149C	NM_006383	NP_006374	O75838	CIB2_HUMAN	DNA-dependent protein kinase catalytic	149	EF-hand 3.						calcium ion binding				0						TGACCTTGTCGCACACAAGCA	0.567													5	69					0	0	1	0	0		A	78398176	A	A	78398176	2	1	27	1	0	0	0	0	0	0	0	1	3424	1079	38	1		1	CIB2	15	78398176	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1049649	78398176	24133216	6320	28671											
WDR61	80349	broad.mit.edu	37	chr15	78582013	78582013	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcaaaaatattgatgatTccatctatggctccactggc	13	13	6	9	0	2	2	1	2	1	0	4	2	4	2	2	2	0	1	2	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:78582013T>C	uc002bdn.2	-	7	586	c.510A>G	c.(508-510)GGA>GGG	p.G170G	WDR61_uc002bdo.2_Silent_p.G170G	NM_025234	NP_079510	Q9GZS3	WDR61_HUMAN	WD repeat domain 61	170	WD 4.						protein binding			ovary(1)|skin(1)	2						TATTGATGATTCCATCTATGG	0.383													7	74					0	0	1	0	0		C	78582013	C	C	78582013	2	2	27	1	0	0	0	0	0	0	0	1	17338	1770	62	3		3	WDR61	15	78582013	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	183837	78582013	23949379	6321	28672											
IREB2	3658	broad.mit.edu	37	chr15	78732142	78732142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatttttttttcaggatacGcctttgagtaccttattgaa	10	18	6	7	1	1	2	1	2	0	0	1	3	1	3	2	1	2	1	2	1	5	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:78732142G>A	uc002bdr.2	+	2	187	c.25G>A	c.(25-27)GCC>ACC	p.A9T	IREB2_uc010unb.1_5'UTR|IREB2_uc002bdq.2_Missense_Mutation_p.A9T	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	9							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		TTCAGGATACGCCTTTGAGTA	0.269													5	30					0	0	1	0	0		A	78732142	A	A	78732142	3	1	27	1	0	0	0	0	1	0	0	0	7842	1087	38	1	31	1	IREB2	15	78732142	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	150129	78732142	23799250	6322	28673											
PSMA4	5685	broad.mit.edu	37	chr15	78834954	78834954	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaagcttcttgatgaagTctttttttctgaaaaaattt	12	17	5	7	0	3	3	0	3	3	0	3	3	3	3	1	0	1	1	1	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:78834954T>C	uc002bdu.3	+	4	334	c.176T>C	c.(175-177)GTC>GCC	p.V59A	PSMA4_uc010blf.2_Missense_Mutation_p.V59A|PSMA4_uc002bdv.3_Intron|PSMA4_uc002bdw.3_Missense_Mutation_p.V35A|PSMA4_uc002bdx.3_Intron	NM_002789	NP_002780	P25789	PSA4_HUMAN	proteasome alpha 4 subunit isoform 1	59					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0						CTTGATGAAGTCTTTTTTTCT	0.353													20	144					0	0	1	0	0		C	78834954	C	C	78834954	3	2	27	1	0	0	0	0	1	0	0	0	12691	1667	58	3	186	3	PSMA4	15	78834954	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	102812	78834954	23696438	6323	28674											
PSMA4	5685	broad.mit.edu	37	chr15	78837210	78837210	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcccatctctttatcctaGgtatttattacagtatcagg	9	16	7	9	0	2	0	1	0	1	0	4	0	3	0	2	2	2	2	2	2	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:78837210G>T	uc002bdu.3	+	6	446	c.288_splice	c.e6-1	p.R96_splice	PSMA4_uc010blf.2_Splice_Site_p.R96_splice|PSMA4_uc002bdv.3_Splice_Site_p.R25_splice|PSMA4_uc002bdw.3_Splice_Site_p.R72_splice|PSMA4_uc002bdx.3_Splice_Site_p.R25_splice	NM_002789	NP_002780	P25789	PSA4_HUMAN	proteasome alpha 4 subunit isoform 1						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0						CTTTATCCTAGGTATTTATTA	0.373													8	62					5.18039e-06	5.59131e-06	1	1	0		T	78837210	T	T	78837210	5	4	27	1	0	0	0	0	0	0	1	0	12691	1014	35	5	305	5	PSMA4	15	78837210	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2256	78837210	23694182	6324	28675											
PSMA4	5685	broad.mit.edu	37	chr15	78841185	78841185	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagtaatcagagttctcAaacaaaaagaagtggagcag	19	6	10	6	0	2	3	2	0	1	3	3	4	2	4	0	1	2	3	0	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:78841185A>G	uc002bdu.3	+	9	843	c.685A>G	c.(685-687)AAA>GAA	p.K229E	PSMA4_uc010blf.2_Missense_Mutation_p.K229E|PSMA4_uc002bdv.3_Missense_Mutation_p.K158E|PSMA4_uc002bdw.3_Missense_Mutation_p.K205E|PSMA4_uc002bdx.3_Missense_Mutation_p.K158E	NM_002789	NP_002780	P25789	PSA4_HUMAN	proteasome alpha 4 subunit isoform 1	229					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0						CAGAGTTCTCAAACAAAAAGA	0.358													20	54					0	0	1	0	0		G	78841185	G	G	78841185	3	3	27	1	0	0	0	0	1	0	0	0	12691	131	5	3	715	3	PSMA4	15	78841185	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3975	78841185	23690207	6325	28676											
CHRNB4	1143	broad.mit.edu	37	chr15	78922159	78922159	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggtgcagttctgctggTcgaagggaaagtacttcacc	9	10	14	8	1	2	1	1	1	1	0	3	3	2	2	1	3	3	4	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:78922159T>C	uc002bed.1	-	5	600	c.488A>G	c.(487-489)GAC>GGC	p.D163G	CHRNB4_uc002bee.1_Intron|CHRNB4_uc010blh.1_5'UTR	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	163	Extracellular (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						GTTCTGCTGGTCGAAGGGAAA	0.552													18	50					0	0	1	0	0		C	78922159	C	C	78922159	3	2	27	1	0	0	0	0	1	0	0	0	3396	1667	58	3	1016	3	CHRNB4	15	78922159	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	80974	78922159	23609233	6326	28677											
RASGRF1	5923	broad.mit.edu	37	chr15	79288103	79288103	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctgcgtgatctcctccagCgtgatctggttgtcacctgg	5	13	11	12	2	4	2	1	2	3	0	6	2	5	2	3	2	2	1	3	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:79288103C>T	uc002beq.2	-	21	3429	c.3054G>A	c.(3052-3054)ACG>ACA	p.T1018T	RASGRF1_uc002bep.2_Silent_p.T1002T|RASGRF1_uc010blm.1_Silent_p.T927T|RASGRF1_uc002ber.3_Silent_p.T1002T|RASGRF1_uc010unh.1_Silent_p.T413T|RASGRF1_uc002beo.2_Silent_p.T234T	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	1020					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						TCTCCTCCAGCGTGATCTGGT	0.632													5	84					0	0	1	0	0		T	79288103	T	T	79288103	2	4	27	1	0	0	0	0	0	0	0	1	13097	755	27	1		1	RASGRF1	15	79288103	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	365944	79288103	23243289	6327	28678											
KIAA1024	23251	broad.mit.edu	37	chr15	79748674	79748674	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctcgatcccaattttccagCcacgctattcaaagacaaga	13	10	5	13	2	2	2	1	0	1	2	5	3	4	2	3	0	1	1	3	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:79748674C>T	uc002bew.1	+	2	260	c.185C>T	c.(184-186)GCC>GTC	p.A62V	KIAA1024_uc010unk.1_Missense_Mutation_p.A62V	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	62						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						AATTTTCCAGCCACGCTATTC	0.458													9	93					0	0	1	0	0		T	79748674	T	T	79748674	3	4	27	1	0	0	0	0	1	0	0	0	8221	739	26	2	187	2	KIAA1024	15	79748674	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	460571	79748674	22782718	6328	28679											
MTHFS	10588	broad.mit.edu	37	chr15	80137564	80137564	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccagatttaagctgttgaCgagtcttcgtaaaggacttc	11	13	9	8	2	1	2	0	1	1	1	4	4	2	3	1	1	1	3	1	1	3	6	rs150067777	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:80137564C>T	uc002bex.3	-	3	640	c.600G>A	c.(598-600)TCG>TCA	p.S200S	MTHFS_uc002bey.2_RNA	NM_006441	NP_006432	P49914	MTHFS_HUMAN	5,10-methenyltetrahydrofolate synthetase	200					folic acid-containing compound biosynthetic process|formate metabolic process|tetrahydrofolate metabolic process	cytosol|Golgi apparatus|plasma membrane	5-formyltetrahydrofolate cyclo-ligase activity|ATP binding|folic acid binding				0				all cancers(203;0.00467)		AAGCTGTTGACGAGTCTTCGT	0.393													16	86					0	0	1	0	0		T	80137564	T	T	80137564	2	4	27	1	0	0	0	0	0	0	0	1	9950	523	19	1		1	MTHFS	15	80137564	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	388890	80137564	22393828	6329	28680											
BCL2A1	597	broad.mit.edu	37	chr15	80263396	80263396	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctgatccaggttgtggtatCtgtaggacgcactgcagata	9	11	12	9	1	1	2	0	1	1	1	2	3	2	3	2	3	1	5	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:80263396C>T	uc002bfc.3	-	1	248	c.66G>A	c.(64-66)CAG>CAA	p.Q22Q	BCL2A1_uc002bfd.3_Silent_p.Q22Q	NM_004049	NP_004040	Q16548	B2LA1_HUMAN	BCL2-related protein A1 isoform 1	22					anti-apoptosis|apoptosis	cytoplasm	protein binding			pancreas(1)	1						GTTGTGGTATCTGTAGGACGC	0.463													6	91					0	0	1	0	0		T	80263396	T	T	80263396	2	4	27	1	0	0	0	0	0	0	0	1	1367	912	32	4		4	BCL2A1	15	80263396	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	125832	80263396	22267996	6330	28681											
KIAA1199	57214	broad.mit.edu	37	chr15	81241186	81241186	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttccggcccatctgggTgacactggacactgaggatc	8	8	12	13	1	1	2	0	2	1	0	3	4	2	4	2	4	1	1	2	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:81241186T>C	uc002bfw.1	+	29	4267	c.4007T>C	c.(4006-4008)GTG>GCG	p.V1336A	KIAA1199_uc010unn.1_Missense_Mutation_p.V1336A|MESDC2_uc002bfx.2_RNA|MESDC2_uc010uno.1_RNA	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	1336										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CCCATCTGGGTGACACTGGAC	0.532													7	153					0	0	1	0	0		C	81241186	C	C	81241186	3	2	27	1	0	0	0	0	1	0	0	0	8229	1696	59	3	4117	3	KIAA1199	15	81241186	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	977790	81241186	21290206	6331	28682											
MESDC2	23184	broad.mit.edu	37	chr15	81274436	81274436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cattttcaatatgctttcagGcttgcttgggtctatctttg	6	19	8	8	0	4	0	2	0	2	0	4	0	4	0	0	2	2	3	0	2	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:81274436G>A	uc002bfy.1	-	2	374	c.301C>T	c.(301-303)CCT>TCT	p.P101S	MESDC2_uc002bfx.2_RNA|MESDC2_uc010uno.1_Intron	NM_015154	NP_055969	Q14696	MESD_HUMAN	mesoderm development candidate 2	101	Chaperone domain (By similarity).				mesoderm development|protein folding|Wnt receptor signaling pathway	endoplasmic reticulum					0						ATGCTTTCAGGCTTGCTTGGG	0.428													5	113					0	0	1	0	0		A	81274436	A	A	81274436	3	1	27	1	0	0	0	0	1	0	0	0	9499	1203	42	2	411	2	MESDC2	15	81274436	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	33250	81274436	21256956	6332	28683											
IL16	3603	broad.mit.edu	37	chr15	81598350	81598350	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtctctcaaggggaccacGcaccatgatgccttggccat	10	8	10	13	1	2	1	1	1	1	0	3	2	2	2	4	3	1	1	4	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:81598350G>A	uc002bgh.3	+	17	3898	c.3522G>A	c.(3520-3522)ACG>ACA	p.T1174T	IL16_uc010blq.1_Silent_p.T1128T|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Silent_p.T1216T|IL16_uc002bgg.2_Silent_p.T1174T|IL16_uc002bgi.1_Silent_p.T564T|IL16_uc002bgj.2_Silent_p.T668T|IL16_uc002bgk.2_Silent_p.T473T|IL16_uc002bgl.1_Silent_p.T473T|IL16_uc010unq.1_Silent_p.T473T	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	1174	PDZ 3.|Interaction with PPP1R12A, PPP1R12B and PPP1R12C.				immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						AGGGGACCACGCACCATGATG	0.557													9	195					0	0	1	0	0		A	81598350	A	A	81598350	2	1	27	1	0	0	0	0	0	0	0	1	7649	1074	38	1		1	IL16	15	81598350	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	323914	81598350	20933042	6333	28684											
TMC3	342125	broad.mit.edu	37	chr15	81650613	81650613	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaatatccgtagaagaggAcagagtactggaggtagccc	13	7	13	8	2	0	3	0	0	0	3	1	5	1	5	2	3	2	4	2	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:81650613A>G	uc002bgo.1	-	7	620	c.620T>C	c.(619-621)GTC>GCC	p.V207A	TMC3_uc010blr.1_RNA|TMC3_uc002bgp.2_Missense_Mutation_p.V207A	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	207	Helical; (Potential).					integral to membrane				ovary(1)|liver(1)	2						GTAGAAGAGGACAGAGTACTG	0.542													10	121					0	0	1	0	0		G	81650613	G	G	81650613	3	3	27	1	0	0	0	0	1	0	0	0	16011	275	10	3	2746	3	TMC3	15	81650613	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	52263	81650613	20880779	6334	28685											
MEX3B	84206	broad.mit.edu	37	chr15	82336468	82336468	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgatgcagatcgaagcccAcatcggtgccgttggcgtgg	8	8	14	11	4	0	2	0	1	0	1	2	3	0	2	2	3	3	2	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:82336468A>G	uc002bgq.1	-	2	1058	c.743T>C	c.(742-744)GTG>GCG	p.V248A		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	248					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						ATCGAAGCCCACATCGGTGCC	0.652													11	90					0	0	1	0	0		G	82336468	G	G	82336468	3	3	27	1	0	0	0	0	1	0	0	0	9528	159	6	3	970	3	MEX3B	15	82336468	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	685855	82336468	20194924	6335	28686											
EFTUD1	79631	broad.mit.edu	37	chr15	82422800	82422800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccttccgctttcgtactgCgttcatgtacttccgggctt	3	15	8	15	4	1	0	1	0	0	0	4	0	3	0	4	1	3	5	4	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:82422800C>T	uc002bgt.1	-	20	3446	c.3277G>A	c.(3277-3279)GCA>ACA	p.A1093T	EFTUD1_uc002bgs.1_Missense_Mutation_p.A464T|EFTUD1_uc002bgu.1_Missense_Mutation_p.A1042T	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	1093					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						TTTCGTACTGCGTTCATGTAC	0.493													4	108					0	0	1	0	0		T	82422800	T	T	82422800	3	4	27	1	0	0	0	0	1	0	0	0	4966	768	27	1	89	1	EFTUD1	15	82422800	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	86332	82422800	20108592	6336	28687											
FAM154B	283726	broad.mit.edu	37	chr15	82575356	82575356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgacaatacaaattcccaaGgtcataaattcttccgcaag	15	10	5	11	2	2	0	1	0	1	0	5	1	4	0	2	1	1	1	2	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:82575356G>A	uc002bgv.2	+	3	1219	c.1150G>A	c.(1150-1152)GGT>AGT	p.G384S	FAM154B_uc010unr.1_Missense_Mutation_p.G369S|FAM154B_uc010uns.1_RNA	NM_001008226	NP_001008227	Q658L1	F154B_HUMAN	hypothetical protein LOC283726	384										skin(2)	2						AAATTCCCAAGGTCATAAATT	0.403													8	45					0	0	1	0	0		A	82575356	A	A	82575356	3	1	27	1	0	0	0	0	1	0	0	0	5475	1000	35	4	1160	4	FAM154B	15	82575356	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	152556	82575356	19956036	6337	28688											
CPEB1	64506	broad.mit.edu	37	chr15	83240228	83240228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccacgggaagattcttgcGcagaggttgggaaaagcatc	11	7	15	8	2	1	2	0	0	1	2	2	4	1	4	1	4	2	3	1	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:83240228G>A	uc002bit.2	-	3	562	c.425C>T	c.(424-426)GCG>GTG	p.A142V	CPEB1_uc002biq.2_Missense_Mutation_p.A7V|CPEB1_uc002bir.2_Missense_Mutation_p.A7V|CPEB1_uc002bis.2_Missense_Mutation_p.A7V|CPEB1_uc010uod.1_5'UTR|CPEB1_uc010uoe.1_Missense_Mutation_p.A85V|CPEB1_uc002biu.2_Missense_Mutation_p.A109V|CPEB1_uc010uof.1_Missense_Mutation_p.A7V|CPEB1_uc002biv.2_Missense_Mutation_p.A82V	NM_001079533	NP_001073001	Q9BZB8	CPEB1_HUMAN	cytoplasmic polyadenylation element binding	82					mRNA processing|regulation of translation	cell junction|cytoplasmic mRNA processing body|dendrite|postsynaptic density|postsynaptic membrane	nucleotide binding|RNA binding			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(143;0.229)			AGATTCTTGCGCAGAGGTTGG	0.542													10	139					0	0	1	0	0		A	83240228	A	A	83240228	3	1	27	1	0	0	0	0	1	0	0	0	3803	1087	38	1	1495	1	CPEB1	15	83240228	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	664872	83240228	19291164	6338	28689											
WHAMM	123720	broad.mit.edu	37	chr15	83481966	83481966	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcaaccatgttcttccagTacttattgcagccatttagg	9	14	8	10	0	1	0	0	0	1	0	2	0	2	0	3	2	4	4	3	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:83481966T>C	uc002bje.2	+	2	1227	c.721T>C	c.(721-723)TAC>CAC	p.Y241H		NM_001080435	NP_001073904	Q8TF30	WHAMM_HUMAN	WAS protein homolog associated with actin, golgi	241						cytoplasmic vesicle membrane|ER-Golgi intermediate compartment|Golgi apparatus	actin binding				0						GTTCTTCCAGTACTTATTGCA	0.368													3	27					0	0	1	0	0		C	83481966	C	C	83481966	3	2	27	1	0	0	0	0	1	0	0	0	17387	1638	57	3	727	3	WHAMM	15	83481966	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	241738	83481966	19049426	6339	28690											
C15orf40	123207	broad.mit.edu	37	chr15	83677350	83677350	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctaggaccttggaaagatAccgacagagctcagcattag	13	9	10	9	1	2	2	1	0	1	2	2	5	2	4	2	2	3	2	2	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:83677350A>T	uc010uoo.1	-	3	350	c.316T>A	c.(316-318)TAT>AAT	p.Y106N	C15orf40_uc010uon.1_Missense_Mutation_p.Y106N|C15orf40_uc002bjm.2_Missense_Mutation_p.Y106N|C15orf40_uc010uop.1_Missense_Mutation_p.Y106N|C15orf40_uc010uoq.1_RNA|C15orf40_uc010uor.1_Missense_Mutation_p.Y106N	NM_001160115	NP_001153587	Q8WUR7	CO040_HUMAN	hypothetical protein LOC123207 isoform d	79										skin(1)	1						TTGGAAAGATACCGACAGAGC	0.388													9	94					0	0	1	0	0		T	83677350	T	T	83677350	3	4	27	1	0	0	0	0	1	0	0	0	1797	391	14	5	625	5	C15orf40	15	83677350	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	195384	83677350	18854042	6340	28691											
TM6SF1	53346	broad.mit.edu	37	chr15	83805252	83805252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggctcagttttctcacattgGtgcatctcttcatgctagaa	8	15	8	10	0	4	1	3	0	2	1	6	1	4	1	0	2	2	4	0	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:83805252G>A	uc002bjp.2	+	10	1050	c.941G>A	c.(940-942)GGT>GAT	p.G314D	TM6SF1_uc010bmq.2_Missense_Mutation_p.G283D|TM6SF1_uc002bjq.2_3'UTR|TM6SF1_uc010bmr.2_RNA|TM6SF1_uc002bjr.2_Missense_Mutation_p.G166D	NM_023003	NP_075379	Q9BZW5	TM6S1_HUMAN	transmembrane 6 superfamily member 1 isoform 1	314						integral to membrane				ovary(1)	1						TCTCACATTGGTGCATCTCTT	0.368													8	96					0	0	1	0	0		A	83805252	A	A	83805252	3	1	27	1	0	0	0	0	1	0	0	0	15997	1261	44	4	979	4	TM6SF1	15	83805252	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	127902	83805252	18726140	6341	28692											
BNC1	646	broad.mit.edu	37	chr15	83931934	83931934	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaggaaaagccattcccCtgttggacaaagcactgaag	15	6	10	10	0	0	1	0	1	0	0	1	4	1	3	3	2	2	2	3	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:83931934C>A	uc002bjt.1	-	4	2157	c.2069G>T	c.(2068-2070)AGG>ATG	p.R690M	BNC1_uc010uos.1_Missense_Mutation_p.R678M	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	690					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						AGCCATTCCCCTGTTGGACAA	0.498													10	77					1.33987e-11	1.48629e-11	1	1	0		A	83931934	A	A	83931934	3	1	27	1	0	0	0	0	1	0	0	0	1475	681	24	5	923	5	BNC1	15	83931934	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	126682	83931934	18599458	6342	28693											
BNC1	646	broad.mit.edu	37	chr15	83932495	83932495	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagggagtatcccaggcgtgTttgctacctcggcaggcgtg	7	9	15	10	3	0	0	0	0	0	0	2	1	1	1	2	4	2	4	2	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:83932495T>G	uc002bjt.1	-	4	1596	c.1508A>C	c.(1507-1509)AAC>ACC	p.N503T	BNC1_uc010uos.1_Missense_Mutation_p.N491T	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	503					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CCCAGGCGTGTTTGCTACCTC	0.512													5	66					0	0	1	0	0		G	83932495	G	G	83932495	3	3	27	1	0	0	0	0	1	0	0	0	1475	1725	60	5	1484	5	BNC1	15	83932495	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	561	83932495	18598897	6343	28694											
ZSCAN2	54993	broad.mit.edu	37	chr15	85164124	85164124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgggaagaccttcagccGgaaatcccacctcatcacac	11	7	9	14	1	3	1	3	0	0	1	4	3	4	3	4	2	1	0	4	2	2	1	rs147069559		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:85164124G>A	uc002bkr.2	+	3	924	c.698G>A	c.(697-699)CGG>CAG	p.R233Q	ZSCAN2_uc010bmz.1_Missense_Mutation_p.R231Q|ZSCAN2_uc010bna.2_Missense_Mutation_p.R83Q|ZSCAN2_uc010uox.1_Intron|ZSCAN2_uc010uoy.1_Intron|ZSCAN2_uc010uoz.1_Intron	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	233	C2H2-type 1.				cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		ACCTTCAGCCGGAAATCCCAC	0.498													8	98					0	0	1	0	0		A	85164124	A	A	85164124	3	1	27	1	0	0	0	0	1	0	0	0	18256	1116	39	1	794	1	ZSCAN2	15	85164124	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1231629	85164124	17367268	6344	28695											
ZNF592	9640	broad.mit.edu	37	chr15	85327807	85327807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacaagtgcagcctgctccGgcacgcccgtgaccacaaga	11	4	10	16	3	0	2	0	1	0	1	1	2	1	2	4	1	4	3	4	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:85327807G>A	uc002bld.2	+	4	2237	c.1901G>A	c.(1900-1902)CGG>CAG	p.R634Q	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	634	C2H2-type 2; atypical.				cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			AGCCTGCTCCGGCACGCCCGT	0.602													5	61					0	0	1	0	0		A	85327807	A	A	85327807	3	1	27	1	0	0	0	0	1	0	0	0	18047	1116	39	1	1903	1	ZNF592	15	85327807	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	163683	85327807	17203585	6345	28696											
ALPK3	57538	broad.mit.edu	37	chr15	85383526	85383526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaaggcagcccaaagccGccgttcttcagaaaactgca	14	5	10	12	2	2	2	1	0	1	2	2	3	2	2	3	1	4	3	3	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:85383526G>A	uc002ble.2	+	5	1789	c.1622G>A	c.(1621-1623)CGC>CAC	p.R541H		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	541					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GCCCAAAGCCGCCGTTCTTCA	0.587													10	34					0	0	1	0	0		A	85383526	A	A	85383526	3	1	27	1	0	0	0	0	1	0	0	0	546	1087	38	1	1640	1	ALPK3	15	85383526	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55719	85383526	17147866	6346	28697											
ALPK3	57538	broad.mit.edu	37	chr15	85383680	85383680	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatagtaccaggaagccagcCtctgctgtgggcactccaga	10	7	12	12	0	1	1	0	0	1	1	2	3	2	2	4	2	4	3	4	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:85383680C>A	uc002ble.2	+	5	1943	c.1776C>A	c.(1774-1776)GCC>GCA	p.A592A		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	592					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GGAAGCCAGCCTCTGCTGTGG	0.647													11	19					1.08611e-07	1.18661e-07	1	1	0		A	85383680	A	A	85383680	2	1	27	1	0	0	0	0	0	0	0	1	546	668	24	5		5	ALPK3	15	85383680	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	154	85383680	17147712	6347	28698											
ALPK3	57538	broad.mit.edu	37	chr15	85399886	85399886	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacgtgcagataggaagacGcaggtggatgctgggacaca	13	5	15	8	2	0	2	0	0	0	2	0	5	0	5	0	4	2	3	0	4	2	1	rs141003674		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:85399886G>A	uc002ble.2	+	6	2690	c.2523G>A	c.(2521-2523)ACG>ACA	p.T841T		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	841					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			ATAGGAAGACGCAGGTGGATG	0.537													13	33					0	0	1	0	0		A	85399886	A	A	85399886	2	1	27	1	0	0	0	0	0	0	0	1	546	1074	38	1		1	ALPK3	15	85399886	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16206	85399886	17131506	6348	28699											
PDE8A	5151	broad.mit.edu	37	chr15	85659309	85659309	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atggaaaatgaggaatactgGgactttgatatttttgaact	14	14	10	3	0	0	3	0	3	0	0	0	6	0	6	0	3	2	0	0	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:85659309G>A	uc002blh.2	+	16	1683	c.1494G>A	c.(1492-1494)TGG>TGA	p.W498*	PDE8A_uc002bli.2_Nonsense_Mutation_p.W452*|PDE8A_uc010bnc.2_Nonsense_Mutation_p.W251*|PDE8A_uc010bnd.2_Nonsense_Mutation_p.W251*|PDE8A_uc002blj.2_Nonsense_Mutation_p.W118*|PDE8A_uc002blk.2_Nonsense_Mutation_p.W118*	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	498					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			AGGAATACTGGGACTTTGATA	0.488													9	81					0	0	1	0	0		A	85659309	A	A	85659309	4	1	27	1	0	0	0	0	0	1	0	0	11672	1241	43	4	1556	4	PDE8A	15	85659309	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	259423	85659309	16872083	6349	28700											
AKAP13	11214	broad.mit.edu	37	chr15	86122596	86122596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaacaaaatcttctggaatgCccacagaccaggagtccctg	13	7	9	12	0	2	1	0	0	2	1	3	4	3	3	3	2	2	0	3	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:86122596C>T	uc002blv.1	+	7	1467	c.1297C>T	c.(1297-1299)CCC>TCC	p.P433S	AKAP13_uc002blt.1_Missense_Mutation_p.P433S|AKAP13_uc002blu.1_Missense_Mutation_p.P433S	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	433					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TTCTGGAATGCCCACAGACCA	0.527													8	75					0	0	1	0	0		T	86122596	T	T	86122596	3	4	27	1	0	0	0	0	1	0	0	0	449	739	26	2	1319	2	AKAP13	15	86122596	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	463287	86122596	16408796	6350	28701											
AGBL1	123624	broad.mit.edu	37	chr15	86697774	86697774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccactgtctctgggctctgCgtgtgtttgcctccagtggt	2	15	12	12	1	2	0	0	0	2	0	5	0	4	0	3	2	2	2	3	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:86697774C>T	uc002blz.1	+	3	318	c.238C>T	c.(238-240)CGT>TGT	p.R80C		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	80					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						CTGGGCTCTGCGTGTGTTTGC	0.537													4	31					0	0	1	0	0		T	86697774	T	T	86697774	3	4	27	1	0	0	0	0	1	0	0	0	375	768	27	1	244	1	AGBL1	15	86697774	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	575178	86697774	15833618	6351	28702											
AGBL1	123624	broad.mit.edu	37	chr15	86790986	86790986	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggcacagccatgacacagCcaacgcctacgtgcagatcc	11	5	9	16	2	0	2	0	1	0	1	1	2	1	2	4	1	5	2	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:86790986C>A	uc002blz.1	+	6	553	c.473C>A	c.(472-474)GCC>GAC	p.A158D		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	158					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						CATGACACAGCCAACGCCTAC	0.637													12	37					0.000978159	0.00102136	1	1	0		A	86790986	A	A	86790986	3	1	27	1	0	0	0	0	1	0	0	0	375	739	26	5	491	5	AGBL1	15	86790986	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	93212	86790986	15740406	6352	28703											
AGBL1	123624	broad.mit.edu	37	chr15	86807811	86807811	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagcagatgcctgggacgTagatgcaattttctgcccaa	12	9	11	9	1	1	2	0	0	1	2	1	4	1	3	2	1	4	3	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:86807811T>C	uc002blz.1	+	10	1351	c.1271T>C	c.(1270-1272)GTA>GCA	p.V424A	AGBL1_uc002bma.1_Missense_Mutation_p.V155A|AGBL1_uc002bmb.1_Missense_Mutation_p.V118A	NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	424					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						GCCTGGGACGTAGATGCAATT	0.438													5	144					0	0	1	0	0		C	86807811	C	C	86807811	3	2	27	1	0	0	0	0	1	0	0	0	375	1638	57	3	1305	3	AGBL1	15	86807811	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	16825	86807811	15723581	6353	28704											
NTRK3	4916	broad.mit.edu	37	chr15	88678533	88678533	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgcccattgtgcagccAgtgcagcgttggtggggggt	5	9	18	9	1	0	0	0	0	0	0	0	0	0	0	2	5	5	4	2	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:88678533A>G	uc002bme.1	-	9	1165	c.1003T>C	c.(1003-1005)TGG>CGG	p.W335R	NTRK3_uc002bmh.2_Missense_Mutation_p.W335R|NTRK3_uc002bmf.1_Missense_Mutation_p.W335R|NTRK3_uc010upl.1_Missense_Mutation_p.W237R|NTRK3_uc010bnh.1_Missense_Mutation_p.W335R|NTRK3_uc002bmg.2_Missense_Mutation_p.W335R	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	335	Ig-like C2-type 2.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			TTGTGCAGCCAGTGCAGCGTT	0.602			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			10	76					0	0	1	0	0		G	88678533	G	G	88678533	3	3	27	1	0	0	0	0	1	0	0	0	10727	188	7	3	1822	3	NTRK3	15	88678533	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1870722	88678533	13852859	6354	28705											
NTRK3	4916	broad.mit.edu	37	chr15	88726694	88726694	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaaggctctgggctgaatgCtccgaagtcctgagttcttg	8	11	12	10	1	2	2	0	2	2	0	4	3	4	2	2	2	1	4	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:88726694C>G	uc002bme.1	-	4	512	c.350G>C	c.(349-351)AGC>ACC	p.S117T	NTRK3_uc002bmh.2_Missense_Mutation_p.S117T|NTRK3_uc002bmf.1_Missense_Mutation_p.S117T|NTRK3_uc010upl.1_Missense_Mutation_p.S19T|NTRK3_uc010bnh.1_Missense_Mutation_p.S117T|NTRK3_uc002bmg.2_Missense_Mutation_p.S117T	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	117	LRR 1.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			GGGCTGAATGCTCCGAAGTCC	0.527			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			10	158					0	0	1	0	0		G	88726694	G	G	88726694	3	3	27	1	0	0	0	0	1	0	0	0	10727	797	28	5	2495	5	NTRK3	15	88726694	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	48161	88726694	13804698	6355	28706											
AEN	64782	broad.mit.edu	37	chr15	89169940	89169940	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtggcatcactcggcagcAcatgcgcaaggctgtcccct	8	7	12	14	2	1	0	1	0	0	0	3	1	2	0	2	3	2	5	2	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:89169940A>G	uc002bmt.2	+	2	651	c.500A>G	c.(499-501)CAC>CGC	p.H167R	AEN_uc010bnl.2_Missense_Mutation_p.H167R|AEN_uc010bnm.1_Missense_Mutation_p.H167R	NM_022767	NP_073604	Q8WTP8	AEN_HUMAN	interferon stimulated exonuclease gene	167	Exonuclease.|Nuclear localization signal.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|response to ionizing radiation	nucleolus|nucleoplasm	exonuclease activity|nucleic acid binding				0						ACTCGGCAGCACATGCGCAAG	0.522													4	59					0	0	1	0	0		G	89169940	G	G	89169940	3	3	27	1	0	0	0	0	1	0	0	0	351	159	6	3	502	3	AEN	15	89169940	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	443246	89169940	13361452	6356	28707											
FANCI	55215	broad.mit.edu	37	chr15	89811723	89811723	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgccatcaaattggactaTgaactaggcagagaactcgt	13	11	9	8	1	1	2	1	1	0	1	2	4	1	3	1	2	3	1	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:89811723T>C	uc010bnp.1	+	10	939	c.849T>C	c.(847-849)TAT>TAC	p.Y283Y	FANCI_uc002bnm.1_Silent_p.Y283Y|FANCI_uc002bnn.1_RNA|FANCI_uc002bnp.1_Silent_p.Y104Y	NM_001113378	NP_001106849	Q9NVI1	FANCI_HUMAN	Fanconi anemia, complementation group I isoform	283					cell cycle|DNA repair	nucleoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					AATTGGACTATGAACTAGGCA	0.408								Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				7	136					0	0	1	0	0		C	89811723	C	C	89811723	2	2	27	1	0	0	0	0	0	0	0	1	5683	1471	51	3		3	FANCI	15	89811723	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	641783	89811723	12719669	6357	28708											
FANCI	55215	broad.mit.edu	37	chr15	89844640	89844640	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctagtcacggttcttaccagTttgtccaagttactggagcc	8	13	9	11	1	2	0	1	0	1	0	3	1	3	1	3	2	3	3	3	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:89844640T>C	uc010bnp.1	+	27	3063	c.2973T>C	c.(2971-2973)AGT>AGC	p.S991S	FANCI_uc002bnm.1_Silent_p.S931S|FANCI_uc002bnn.1_RNA|FANCI_uc002bnp.1_Silent_p.S752S|FANCI_uc002bnq.1_Silent_p.S404S	NM_001113378	NP_001106849	Q9NVI1	FANCI_HUMAN	Fanconi anemia, complementation group I isoform	991					cell cycle|DNA repair	nucleoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					TTCTTACCAGTTTGTCCAAGT	0.433								Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				16	114					0	0	1	0	0		C	89844640	C	C	89844640	2	2	27	1	0	0	0	0	0	0	0	1	5683	1722	60	3		3	FANCI	15	89844640	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	32917	89844640	12686752	6358	28709											
POLG	5428	broad.mit.edu	37	chr15	89864450	89864450	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acaagggtgtagccaggtggGgcctgcaccatggctttcaa	9	8	14	10	0	1	0	1	0	0	0	1	0	1	0	3	5	2	3	3	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:89864450G>A	uc002bns.3	-	17	2922	c.2640C>T	c.(2638-2640)GCC>GCT	p.A880A	POLG_uc002bnr.3_Silent_p.A880A	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	880					base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			AGCCAGGTGGGGCCTGCACCA	0.577								DNA_polymerases_(catalytic_subunits)					17	54					0	0	1	0	0		A	89864450	A	A	89864450	2	1	27	1	0	0	0	0	0	0	0	1	12219	1219	43	4		4	POLG	15	89864450	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19810	89864450	12666942	6359	28710											
POLG	5428	broad.mit.edu	37	chr15	89871936	89871936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctggaagttctcacgaatgtCcttcatggtgcccttcacaa	9	12	8	12	1	3	0	3	0	1	0	5	2	4	1	2	2	1	1	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:89871936C>T	uc002bns.3	-	5	1432	c.1150G>A	c.(1150-1152)GAC>AAC	p.D384N	POLG_uc002bnr.3_Missense_Mutation_p.D384N	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	384					base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			TCACGAATGTCCTTCATGGTG	0.582								DNA_polymerases_(catalytic_subunits)					11	155					0	0	1	0	0		T	89871936	T	T	89871936	3	4	27	1	0	0	0	0	1	0	0	0	12219	855	30	4	2645	4	POLG	15	89871936	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7486	89871936	12659456	6360	28711											
WDR93	56964	broad.mit.edu	37	chr15	90274739	90274739	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctcagctgctcctcctccTacctggtgctggcctgcgag	4	10	11	16	1	1	0	1	0	0	0	4	1	4	0	5	2	6	4	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:90274739T>C	uc002boj.2	+	12	1377	c.1276T>C	c.(1276-1278)TAC>CAC	p.Y426H	WDR93_uc010bnr.2_Missense_Mutation_p.Y426H|WDR93_uc010upz.1_Missense_Mutation_p.Y143H	NM_020212	NP_064597	Q6P2C0	WDR93_HUMAN	WD repeat domain 93	426	WD.				electron transport chain	mitochondrial inner membrane	oxidoreductase activity, acting on NADH or NADPH			ovary(2)	2	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			CTCCTCCTCCTACCTGGTGCT	0.622													5	189					0	0	1	0	0		C	90274739	C	C	90274739	3	2	27	1	0	0	0	0	1	0	0	0	17366	1522	53	3	1318	3	WDR93	15	90274739	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	402803	90274739	12256653	6361	28712											
WDR93	56964	broad.mit.edu	37	chr15	90276280	90276280	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcctcagggatgtttctgCcaaagcattcacttcctaaa	10	13	6	12	0	3	0	2	0	1	0	5	1	5	1	3	1	2	2	3	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:90276280C>T	uc002boj.2	+	13	1475	c.1374C>T	c.(1372-1374)TGC>TGT	p.C458C	WDR93_uc010bnr.2_Intron|WDR93_uc010upz.1_Silent_p.C175C	NM_020212	NP_064597	Q6P2C0	WDR93_HUMAN	WD repeat domain 93	458					electron transport chain	mitochondrial inner membrane	oxidoreductase activity, acting on NADH or NADPH			ovary(2)	2	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			GATGTTTCTGCCAAAGCATTC	0.478													15	171					0	0	1	0	0		T	90276280	T	T	90276280	2	4	27	1	0	0	0	0	0	0	0	1	17366	747	26	2		2	WDR93	15	90276280	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1541	90276280	12255112	6362	28713											
ANPEP	290	broad.mit.edu	37	chr15	90344794	90344794	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtccagcggttcatgatGtcccgcacggtggtggggag	6	8	18	9	3	1	1	1	1	0	0	3	2	3	2	2	6	1	2	2	6	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:90344794G>A	uc002bop.3	-	11	1906	c.1614C>T	c.(1612-1614)GAC>GAT	p.D538D		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	538	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	GGTTCATGATGTCCCGCACGG	0.632													12	44					0	0	1	0	0		A	90344794	A	A	90344794	2	1	27	1	0	0	0	0	0	0	0	1	710	1368	48	4		4	ANPEP	15	90344794	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	68514	90344794	12186598	6363	28714											
ANPEP	290	broad.mit.edu	37	chr15	90349552	90349552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgaggtacggtctcagcGtcacccggtaggaatcgggt	7	8	17	9	4	2	1	2	1	1	0	4	2	2	2	1	6	2	2	1	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:90349552G>A	uc002bop.3	-	2	555	c.263C>T	c.(262-264)ACG>ATG	p.T88M		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	88	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	CGGTCTCAGCGTCACCCGGTA	0.597													10	58					0	0	1	0	0		A	90349552	A	A	90349552	3	1	27	1	0	0	0	0	1	0	0	0	710	1145	40	1	2720	1	ANPEP	15	90349552	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4758	90349552	12181840	6364	28715											
TTLL13	440307	broad.mit.edu	37	chr15	90802126	90802126	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggcgagtcaaggaacggcTtttccagtgctaccgacagc	9	7	13	12	4	1	0	1	0	0	0	2	3	2	1	2	3	4	2	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:90802126T>C	uc002bpd.1	+	10	1607	c.1319T>C	c.(1318-1320)CTT>CCT	p.L440P	TTLL13_uc002bpe.1_RNA	NM_001029964	NP_001025135	A6NNM8	TTL13_HUMAN	tubulin tyrosine ligase-like family, member 13	440					protein modification process		ATP binding|tubulin-tyrosine ligase activity				0	Melanoma(11;0.00551)|Lung NSC(78;0.0178)|all_lung(78;0.0378)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|BRCA - Breast invasive adenocarcinoma(143;0.0323)|Kidney(142;0.0514)			AAGGAACGGCTTTTCCAGTGC	0.488													13	84					0	0	1	0	0		C	90802126	C	C	90802126	3	2	27	1	0	0	0	0	1	0	0	0	16752	1609	56	3	1353	3	TTLL13	15	90802126	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	452574	90802126	11729266	6365	28716											
ZNF774	342132	broad.mit.edu	37	chr15	90902116	90902116	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgtaatctcccagccggaGcagaaagaagagccatgggt	13	6	13	9	1	1	3	0	0	1	3	2	4	1	4	3	2	3	2	3	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:90902116G>A	uc002bpk.3	+	3	324	c.138G>A	c.(136-138)GAG>GAA	p.E46E		NM_001004309	NP_001004309	Q6NX45	ZN774_HUMAN	zinc finger protein 774	46	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(11;0.00551)|Lung NSC(78;0.0158)|all_lung(78;0.0331)		BRCA - Breast invasive adenocarcinoma(143;0.0224)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			CCCAGCCGGAGCAGAAAGAAG	0.507													6	38					0	0	1	0	0		A	90902116	A	A	90902116	2	1	27	1	0	0	0	0	0	0	0	1	18172	962	34	2		2	ZNF774	15	90902116	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	99990	90902116	11629276	6366	28717											
BLM	641	broad.mit.edu	37	chr15	91292795	91292795	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccagcaggacaggaaacAcagagaggtggatcaaaatc	16	4	12	9	0	1	1	1	0	0	1	3	5	2	4	1	4	2	2	1	4	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:91292795A>G	uc002bpr.2	+	3	394	c.297A>G	c.(295-297)ACA>ACG	p.T99T	BLM_uc010uqh.1_Silent_p.T99T|BLM_uc010uqi.1_5'UTR|BLM_uc010bnx.2_Silent_p.T99T	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	99					double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			GACAGGAAACACAGAGAGGTG	0.438			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				6	68					0	0	1	0	0		G	91292795	G	G	91292795	2	3	27	1	0	0	0	0	0	0	0	1	1446	146	6	3		3	BLM	15	91292795	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	390679	91292795	11238597	6367	28718											
BLM	641	broad.mit.edu	37	chr15	91293254	91293254	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcatataaatgaagatgcTcaggaaagtgactctctgaa	15	10	10	6	0	2	4	1	3	1	1	3	5	2	5	0	1	2	2	0	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:91293254T>G	uc002bpr.2	+	3	853	c.756T>G	c.(754-756)GCT>GCG	p.A252A	BLM_uc010uqh.1_Silent_p.A252A|BLM_uc010uqi.1_5'UTR|BLM_uc010bnx.2_Silent_p.A252A	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	252					double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			ATGAAGATGCTCAGGAAAGTG	0.358			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				4	61					0	0	1	0	0		G	91293254	G	G	91293254	2	3	27	1	0	0	0	0	0	0	0	1	1446	1538	54	5		5	BLM	15	91293254	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	459	91293254	11238138	6368	28719											
FES	2242	broad.mit.edu	37	chr15	91430451	91430451	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctaaggacaagtatgtGcgcagcctgtggaagctctt	11	9	13	8	1	1	0	0	0	1	0	1	2	1	2	1	3	3	4	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:91430451G>A	uc002bpv.2	+	5	615	c.519G>A	c.(517-519)GTG>GTA	p.V173V	FES_uc010uqj.1_Silent_p.V115V|FES_uc010uqk.1_Silent_p.V155V|FES_uc002bpw.2_RNA|FES_uc010bny.2_Silent_p.V115V|FES_uc002bpx.2_Silent_p.V173V|FES_uc002bpy.2_Silent_p.V115V	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	173	Important for interaction with membranes containing phosphoinositides.				axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			ACAAGTATGTGCGCAGCCTGT	0.627													21	75					0	0	1	0	0		A	91430451	A	A	91430451	2	1	27	1	0	0	0	0	0	0	0	1	5834	1306	46	2		2	FES	15	91430451	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	137197	91430451	11100941	6369	28720											
FES	2242	broad.mit.edu	37	chr15	91436381	91436381	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgcgtctcattggtgtctgCacccagaagcagcccatcta	8	10	10	13	1	3	1	1	0	3	1	4	1	3	1	2	1	4	2	2	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:91436381C>T	uc002bpv.2	+	15	1974	c.1878C>T	c.(1876-1878)TGC>TGT	p.C626C	FES_uc010uqj.1_Silent_p.C498C|FES_uc010uqk.1_Silent_p.C608C|FES_uc002bpw.2_RNA|FES_uc010bny.2_Intron|FES_uc002bpx.2_Silent_p.C556C|FES_uc002bpy.2_Silent_p.C568C	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	626	Protein kinase.				axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			TTGGTGTCTGCACCCAGAAGC	0.642													4	15					0	0	1	0	0		T	91436381	T	T	91436381	2	4	27	1	0	0	0	0	0	0	0	1	5834	718	25	2		2	FES	15	91436381	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5930	91436381	11095011	6370	28721											
FES	2242	broad.mit.edu	37	chr15	91436956	91436956	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgactttgggatgtcccgAgaggaagccgatggggtcta	9	9	16	7	2	1	2	0	1	1	1	2	6	2	4	2	4	1	0	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:91436956A>T	uc002bpv.2	+	17	2214	c.2118A>T	c.(2116-2118)CGA>CGT	p.R706R	FES_uc010uqj.1_Silent_p.R578R|FES_uc010uqk.1_Silent_p.R688R|FES_uc002bpw.2_RNA|FES_uc010bny.2_Silent_p.R565R|FES_uc002bpx.2_Silent_p.R636R|FES_uc002bpy.2_Silent_p.R648R	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	706	Protein kinase.			R->Q: Negligible effect on autophosphorylation and kinase activity.	axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			GGATGTCCCGAGAGGAAGCCG	0.587													9	83					0	0	1	0	0		T	91436956	T	T	91436956	2	4	27	1	0	0	0	0	0	0	0	1	5834	291	11	5		5	FES	15	91436956	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	575	91436956	11094436	6371	28722											
MAN2A2	4122	broad.mit.edu	37	chr15	91456571	91456571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actacgtcaacaaggagctgGccctgcacatccatacagac	13	6	8	14	1	1	1	1	0	0	1	2	2	2	2	2	2	5	2	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:91456571G>A	uc010bnz.2	+	18	2768	c.2653G>A	c.(2653-2655)GCC>ACC	p.A885T	MAN2A2_uc002bqc.2_Missense_Mutation_p.A885T|MAN2A2_uc010uql.1_Missense_Mutation_p.A547T|MAN2A2_uc010uqm.1_Missense_Mutation_p.A464T|MAN2A2_uc010uqn.1_RNA	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	885					mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			CAAGGAGCTGGCCCTGCACAT	0.577													9	60					0	0	1	0	0		A	91456571	A	A	91456571	3	1	27	1	0	0	0	0	1	0	0	0	9233	1203	42	2	2719	2	MAN2A2	15	91456571	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19615	91456571	11074821	6372	28723											
UNC45A	55898	broad.mit.edu	37	chr15	91491946	91491946	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaactgcaccaacagctaTgactacgaggagcccgaccc	12	5	10	14	2	0	2	0	2	0	0	0	5	0	3	3	1	6	2	3	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:91491946T>A	uc002bqg.2	+	13	2140	c.1800T>A	c.(1798-1800)TAT>TAA	p.Y600*	UNC45A_uc002bqd.2_Nonsense_Mutation_p.Y585*|UNC45A_uc010uqr.1_5'UTR|UNC45A_uc002bqi.2_5'Flank	NM_018671	NP_061141	Q9H3U1	UN45A_HUMAN	smooth muscle cell associated protein-1 isoform	600					cell differentiation|muscle organ development	nucleus|perinuclear region of cytoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			CCAACAGCTATGACTACGAGG	0.622													3	47					0	0	1	0	0		A	91491946	A	A	91491946	4	1	27	1	0	0	0	0	0	1	0	0	17014	1471	51	5	1850	5	UNC45A	15	91491946	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	35375	91491946	11039446	6373	28724											
UNC45A	55898	broad.mit.edu	37	chr15	91496278	91496278	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggccatgagcaaggaggTgagggttggtctgggtgctc	6	10	18	7	0	1	2	0	2	1	0	2	3	1	3	1	6	2	3	1	6	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:91496278T>C	uc002bqg.2	+	18	2761	c.2421_splice	c.e18+2	p.E807_splice	UNC45A_uc002bqd.2_Splice_Site_p.E792_splice|UNC45A_uc010uqr.1_Splice_Site_p.E199_splice|UNC45A_uc002bqi.2_Splice_Site_p.E85_splice|RCCD1_uc002bqj.2_5'Flank|RCCD1_uc002bqk.2_5'Flank|RCCD1_uc002bql.2_5'Flank	NM_018671	NP_061141	Q9H3U1	UN45A_HUMAN	smooth muscle cell associated protein-1 isoform						cell differentiation|muscle organ development	nucleus|perinuclear region of cytoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			AGCAAGGAGGTGAGGGTTGGT	0.572													5	56					0	0	1	0	0		C	91496278	C	C	91496278	5	2	27	1	0	0	0	0	0	0	1	0	17014	1710	59	3	2493	3	UNC45A	15	91496278	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4332	91496278	11035114	6374	28725											
RCCD1	91433	broad.mit.edu	37	chr15	91500920	91500920	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctagtcatggctgaggTggccgcggggggctggcatt	4	8	20	9	2	1	1	1	1	0	0	1	1	1	1	2	8	0	3	2	8	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:91500920T>C	uc002bqj.2	+	5	924	c.644T>C	c.(643-645)GTG>GCG	p.V215A	RCCD1_uc002bqk.2_Missense_Mutation_p.V215A|RCCD1_uc002bql.2_Missense_Mutation_p.V215A|RCCD1_uc010bob.2_Missense_Mutation_p.V4A	NM_033544	NP_291022	A6NED2	RCCD1_HUMAN	RCC1 domain containing 1	215	RCC1 2.										0	Lung NSC(78;0.0987)|all_lung(78;0.175)		Lung(145;0.189)			ATGGCTGAGGTGGCCGCGGGG	0.602													4	107					0	0	1	0	0		C	91500920	C	C	91500920	3	2	27	1	0	0	0	0	1	0	0	0	13200	1696	59	3	654	3	RCCD1	15	91500920	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4642	91500920	11030472	6375	28726											
RCCD1	91433	broad.mit.edu	37	chr15	91504966	91504966	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtgggccgtggaacacCtacgtgtatgctgtggagaa	9	9	14	9	2	0	1	0	0	0	1	0	3	0	2	3	3	3	2	3	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:91504966C>A	uc002bqj.2	+	9	1378	c.1098C>A	c.(1096-1098)ACC>ACA	p.T366T	RCCD1_uc002bqk.2_Silent_p.T366T|RCCD1_uc002bql.2_Silent_p.T364T|RCCD1_uc010bob.2_Silent_p.T155T	NM_033544	NP_291022	A6NED2	RCCD1_HUMAN	RCC1 domain containing 1	366	RCC1 4.										0	Lung NSC(78;0.0987)|all_lung(78;0.175)		Lung(145;0.189)			CGTGGAACACCTACGTGTATG	0.403													19	85					6.33239e-15	7.07036e-15	1	1	0		A	91504966	A	A	91504966	2	1	27	1	0	0	0	0	0	0	0	1	13200	668	24	5		5	RCCD1	15	91504966	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4046	91504966	11026426	6376	28727											
SV2B	9899	broad.mit.edu	37	chr15	91769874	91769874	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgatggggtggaagtgttCgtggtgagttttgccctgcc	4	12	17	8	2	0	1	0	1	0	0	1	3	0	2	3	4	2	2	3	4	1	3	rs148654261		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:91769874C>T	uc002bqv.2	+	1	772	c.381C>T	c.(379-381)TTC>TTT	p.F127F	SV2B_uc002bqt.2_Silent_p.F127F|SV2B_uc010uqv.1_Intron|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	127	Helical; (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			TGGAAGTGTTCGTGGTGAGTT	0.512													4	64					0	0	1	0	0		T	91769874	T	T	91769874	2	4	27	1	0	0	0	0	0	0	0	1	15443	883	31	1		1	SV2B	15	91769874	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	264908	91769874	10761518	6377	28728											
ST8SIA2	8128	broad.mit.edu	37	chr15	92981597	92981597	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacaggaagcagattttaaAgttcttggatgctgaaaagg	14	11	11	5	0	2	2	1	1	1	1	2	4	2	4	0	3	2	3	0	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:92981597A>G	uc002bra.2	+	4	460	c.305A>G	c.(304-306)AAG>AGG	p.K102R	ST8SIA2_uc002brb.2_Missense_Mutation_p.K81R	NM_006011	NP_006002	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide	102	Lumenal (Potential).				axon guidance|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity				0	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			CAGATTTTAAAGTTCTTGGAT	0.473													16	225					0	0	1	0	0		G	92981597	G	G	92981597	3	3	27	1	0	0	0	0	1	0	0	0	15257	72	3	3	319	3	ST8SIA2	15	92981597	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1211723	92981597	9549795	6378	28729											
C15orf32	145858	broad.mit.edu	37	chr15	93015547	93015547	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtctggaccctgtgtgagAtgctttctatactagccctt	6	15	10	10	0	2	1	0	1	2	1	2	3	2	2	2	1	3	1	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:93015547A>T	uc002brc.1	+	1	641	c.169A>T	c.(169-171)ATG>TTG	p.M57L	C15orf32_uc010bod.1_RNA	NM_153040	NP_694585	Q32M92	CO032_HUMAN	hypothetical protein LOC145858	57										ovary(1)	1	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0493)|OV - Ovarian serous cystadenocarcinoma(32;0.125)			CCTGTGTGAGATGCTTTCTAT	0.368													11	123					0	0	1	0	0		T	93015547	T	T	93015547	3	4	27	1	0	0	0	0	1	0	0	0	1793	333	12	5	171	5	C15orf32	15	93015547	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	33950	93015547	9515845	6379	28730											
C15orf32	145858	broad.mit.edu	37	chr15	93015736	93015736	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttaattctaccaaccttcAaccatcttgtcataaggtga	13	13	4	11	0	4	1	2	1	2	0	4	1	4	1	3	1	3	0	3	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:93015736A>G	uc002brc.1	+	1	830	c.358A>G	c.(358-360)AAC>GAC	p.N120D	C15orf32_uc010bod.1_RNA	NM_153040	NP_694585	Q32M92	CO032_HUMAN	hypothetical protein LOC145858	120										ovary(1)	1	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0493)|OV - Ovarian serous cystadenocarcinoma(32;0.125)			ACCAACCTTCAACCATCTTGT	0.443													7	96					0	0	1	0	0		G	93015736	G	G	93015736	3	3	27	1	0	0	0	0	1	0	0	0	1793	130	5	3	360	3	C15orf32	15	93015736	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	189	93015736	9515656	6380	28731											
FAM174B	400451	broad.mit.edu	37	chr15	93277269	93277269	+	RNA	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaatcgcagccctgtgcaCggcagcagtggcacccaccc	8	4	12	17	3	0	0	0	0	0	0	1	1	0	1	3	3	3	5	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:93277269C>T	uc002bsl.3	-	1		c.36G>A						Q3ZCQ3	F174B_HUMAN	Homo sapiens cDNA PSEC0264 fis, clone NT2RP3002337.							integral to membrane					0						GCCCTGTGCACGGCAGCAGTG	0.587													7	46					0	0	1	0	0		T	93277269	T	T	93277269	1	4	27	0	1	0	0	0	0	0	0	0	5507	551	19	1		1	FAM174B	15	93277269	RNA	SNP	C	TCGA-BR-6452-01A-12D-1800-08	261533	93277269	9254123	6381	28732											
CHD2	1106	broad.mit.edu	37	chr15	93482927	93482927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccaaaaggcagactcgtcGaagagcggctaaaaacgtta	15	6	10	10	4	0	2	0	0	0	2	3	3	1	2	1	2	2	3	1	2	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:93482927G>A	uc002bsp.2	+	7	1246	c.671G>A	c.(670-672)CGA>CAA	p.R224Q	CHD2_uc002bsm.1_Missense_Mutation_p.R224Q|CHD2_uc002bsn.2_Missense_Mutation_p.R224Q|CHD2_uc002bso.1_Missense_Mutation_p.R224Q|CHD2_uc010urb.1_Missense_Mutation_p.R237Q	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	224					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			CAGACTCGTCGAAGAGCGGCT	0.438													13	102					0	0	1	0	0		A	93482927	A	A	93482927	3	1	27	1	0	0	0	0	1	0	0	0	3328	1058	37	1	693	1	CHD2	15	93482927	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	205658	93482927	9048465	6382	28733											
CHD2	1106	broad.mit.edu	37	chr15	93489068	93489068	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctgtgaagacaagtaaaTctacattgggtcaaacagat	16	10	9	6	0	2	3	1	1	1	2	2	3	2	3	0	1	3	2	0	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:93489068T>C	uc002bsp.2	+	11	1746	c.1171T>C	c.(1171-1173)TCT>CCT	p.S391P	CHD2_uc002bsn.2_Missense_Mutation_p.S391P|CHD2_uc002bso.1_Missense_Mutation_p.S391P|CHD2_uc010urb.1_Missense_Mutation_p.S404P|CHD2_uc010bof.1_Intron	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	391	Chromo 2.				regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			GACAAGTAAATCTACATTGGG	0.264													3	40					0	0	1	0	0		C	93489068	C	C	93489068	3	2	27	1	0	0	0	0	1	0	0	0	3328	1435	50	3	1209	3	CHD2	15	93489068	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6141	93489068	9042324	6383	28734											
CHD2	1106	broad.mit.edu	37	chr15	93492207	93492207	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagcagagaccacgatttgTagctttaaagaaacaacctg	16	8	9	8	1	0	2	0	0	0	2	0	5	0	2	2	0	4	3	2	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:93492207T>C	uc002bsp.2	+	13	1978	c.1403T>C	c.(1402-1404)GTA>GCA	p.V468A	CHD2_uc002bsn.2_Missense_Mutation_p.V468A|CHD2_uc002bso.1_Missense_Mutation_p.V468A|CHD2_uc010urb.1_Missense_Mutation_p.V481A	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	468					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			CCACGATTTGTAGCTTTAAAG	0.418													4	100					0	0	1	0	0		C	93492207	C	C	93492207	3	2	27	1	0	0	0	0	1	0	0	0	3328	1638	57	3	1449	3	CHD2	15	93492207	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3139	93492207	9039185	6384	28735											
CHD2	1106	broad.mit.edu	37	chr15	93528799	93528799	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcctctgcttctgagagTgaaacggaagactctgatga	12	10	11	8	1	3	6	0	4	3	3	4	8	4	7	1	1	2	1	1	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:93528799T>C	uc002bsp.2	+	26	3884	c.3309T>C	c.(3307-3309)AGT>AGC	p.S1103S	CHD2_uc002bso.1_Silent_p.S1103S	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1103					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			CTTCTGAGAGTGAAACGGAAG	0.527													7	90					0	0	1	0	0		C	93528799	C	C	93528799	2	2	27	1	0	0	0	0	0	0	0	1	3328	1693	59	3		3	CHD2	15	93528799	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	36592	93528799	9002593	6385	28736											
IGF1R	3480	broad.mit.edu	37	chr15	99251247	99251247	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgtggggacctgtgtccagGgaccatggaggagaagccga	10	6	17	8	1	0	1	0	0	0	1	1	6	1	4	4	5	1	0	4	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:99251247G>T	uc002bul.2	+	2	601	c.551G>T	c.(550-552)GGG>GTG	p.G184V	IGF1R_uc010urq.1_Missense_Mutation_p.G184V|IGF1R_uc010bon.2_Missense_Mutation_p.G184V	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	184					anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	CTGTGTCCAGGGACCATGGAG	0.517													7	97					8.12818e-05	8.61523e-05	1	1	0		T	99251247	T	T	99251247	3	4	27	1	0	0	0	0	1	0	0	0	7587	1232	43	5	557	5	IGF1R	15	99251247	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5722448	99251247	3280145	6386	28737											
SYNM	23336	broad.mit.edu	37	chr15	99669820	99669820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaactcatacggaaaagccGtcagcagtcaaaccaacgtc	17	5	7	12	3	3	0	3	0	0	0	4	1	3	1	2	1	6	1	2	1	7	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:99669820G>A	uc002bup.2	+	6	1375	c.1255G>A	c.(1255-1257)GTC>ATC	p.V419I	SYNM_uc002buo.2_Missense_Mutation_p.V419I|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	419	Tail.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						CGGAAAAGCCGTCAGCAGTCA	0.498													32	103					0	0	1	0	0		A	99669820	A	A	99669820	3	1	27	1	0	0	0	0	1	0	0	0	15480	1145	40	1	1268	1	SYNM	15	99669820	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	418573	99669820	2861572	6387	28738											
LASS3	204219	broad.mit.edu	37	chr15	101016374	101016374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtagtaccagtactgggatgGcagcaggggctgaggaaaag	12	6	17	6	0	0	1	0	1	0	0	0	3	0	3	1	5	3	6	1	5	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:101016374G>A	uc002bvz.2	-	9	1028	c.526C>T	c.(526-528)CCA>TCA	p.P176S	LASS3_uc002bwa.2_Missense_Mutation_p.P187S|LASS3_uc002bwb.2_Missense_Mutation_p.P176S	NM_178842	NP_849164	Q8IU89	CERS3_HUMAN	LAG1 longevity assurance homolog 3	176	Helical; (Potential).|TLC.					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4	Lung NSC(78;0.0018)|all_lung(78;0.00278)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000867)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)			TACTGGGATGGCAGCAGGGGC	0.343													4	76					0	0	1	0	0		A	101016374	A	A	101016374	3	1	27	1	0	0	0	0	1	0	0	0	8656	1203	42	2	645	2	LASS3	15	101016374	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1346554	101016374	1515018	6388	28739											
LINS1	55180	broad.mit.edu	37	chr15	101109963	101109963	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagtgccgagcacacacaTctctgtgactatgaggagca	12	7	12	10	1	1	2	0	2	1	0	2	5	1	4	1	2	3	2	1	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:101109963T>A	uc002bwe.2	-	8	2045	c.1754A>T	c.(1753-1755)GAT>GTT	p.D585V	LINS1_uc002bwd.2_Missense_Mutation_p.D172V|LINS1_uc002bwf.2_Missense_Mutation_p.D585V|LINS1_uc002bwg.2_Missense_Mutation_p.D585V|LINS1_uc002bwh.2_Missense_Mutation_p.D585V	NM_001040614	NP_001035704	Q8NG48	LINES_HUMAN	lines homolog 1	585											0	Lung NSC(78;0.0018)|all_lung(78;0.00223)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00095)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			AGCACACACATCTCTGTGACT	0.507													5	56					0	0	1	0	0		A	101109963	A	A	101109963	3	1	27	1	0	0	0	0	1	0	0	0	8835	1435	50	5	523	5	LINS1	15	101109963	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	93589	101109963	1421429	6389	28740											
ALDH1A3	220	broad.mit.edu	37	chr15	101434180	101434180	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaacttccccctgctgatgCtggtgtggaagctggcaccc	6	9	13	13	0	0	1	0	1	0	0	1	3	1	3	3	4	4	4	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:101434180C>A	uc002bwn.3	+	6	663	c.559C>A	c.(559-561)CTG>ATG	p.L187M	ALDH1A3_uc010bpb.2_Intron|uc002bwo.1_RNA	NM_000693	NP_000684	P47895	AL1A3_HUMAN	aldehyde dehydrogenase 1A3	187					retinal metabolic process	cytoplasm	aldehyde dehydrogenase|protein homodimerization activity			central_nervous_system(2)|lung(1)|pancreas(1)	4	Lung NSC(78;0.00144)|all_lung(78;0.0018)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)		NADH(DB00157)|Vitamin A(DB00162)	CCTGCTGATGCTGGTGTGGAA	0.602													11	102					3.86212e-05	4.11225e-05	1	1	0		A	101434180	A	A	101434180	3	1	27	1	0	0	0	0	1	0	0	0	492	796	28	5	581	5	ALDH1A3	15	101434180	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	324217	101434180	1097212	6390	28741											
ALDH1A3	220	broad.mit.edu	37	chr15	101438337	101438337	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggagcaatctgaagcgggTgacgctggagctggggggga	8	5	20	8	3	1	2	0	2	1	0	1	5	1	5	1	6	3	3	1	6	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:101438337T>A	uc002bwn.3	+	8	934	c.830T>A	c.(829-831)GTG>GAG	p.V277E	ALDH1A3_uc010bpb.2_Missense_Mutation_p.V170E|uc002bwo.1_Intron	NM_000693	NP_000684	P47895	AL1A3_HUMAN	aldehyde dehydrogenase 1A3	277					retinal metabolic process	cytoplasm	aldehyde dehydrogenase|protein homodimerization activity			central_nervous_system(2)|lung(1)|pancreas(1)	4	Lung NSC(78;0.00144)|all_lung(78;0.0018)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)		NADH(DB00157)|Vitamin A(DB00162)	CTGAAGCGGGTGACGCTGGAG	0.562													4	63					0	0	1	0	0		A	101438337	A	A	101438337	3	1	27	1	0	0	0	0	1	0	0	0	492	1696	59	5	860	5	ALDH1A3	15	101438337	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4157	101438337	1093055	6391	28742											
LRRK1	79705	broad.mit.edu	37	chr15	101562588	101562588	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccttaatgattttgcacagGccccaaagcaatgctgtctt	10	12	7	12	0	1	1	0	1	1	0	1	1	1	1	3	1	3	3	3	1	3	4	rs80186667		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:101562588G>T	uc002bwr.2	+	15	2172	c.1853G>T	c.(1852-1854)GGC>GTC	p.G618V	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	618					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TTTTGCACAGGCCCCAAAGCA	0.517													5	134					0.000602214	0.000630257	1	1	0		T	101562588	T	T	101562588	3	4	27	1	0	0	0	0	1	0	0	0	9050	1217	42	5	1907	5	LRRK1	15	101562588	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	124251	101562588	968804	6392	28743											
CHSY1	22856	broad.mit.edu	37	chr15	101719007	101719007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatttcgcggtgcagctgtAttgtgcgatggcggagctcg	6	11	15	9	5	0	0	0	0	0	0	2	2	0	1	0	3	4	4	0	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:101719007A>G	uc002bwt.1	-	4	1478	c.995T>C	c.(994-996)ATA>ACA	p.I332T	CHSY1_uc010usd.1_Missense_Mutation_p.I60T	NM_014918	NP_055733	Q86X52	CHSS1_HUMAN	chondroitin sulfate synthase 1	332	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity				0	Lung NSC(78;0.00217)|all_lung(78;0.00271)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GTGCAGCTGTATTGTGCGATG	0.502													6	80					0	0	1	0	0		G	101719007	G	G	101719007	3	3	27	1	0	0	0	0	1	0	0	0	3415	449	16	3	1417	3	CHSY1	15	101719007	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	156419	101719007	812385	6393	28744											
TARSL2	123283	broad.mit.edu	37	chr15	102211755	102211755	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaattgtagcacattgatggTatctgccaatagcatccttg	11	13	9	8	0	1	1	0	1	1	0	2	2	2	1	2	1	3	4	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:102211755T>C	uc002bxm.2	-	15	1956	c.1901A>G	c.(1900-1902)TAC>TGC	p.Y634C	TARSL2_uc002bxl.2_Missense_Mutation_p.Y179C|TARSL2_uc010usi.1_RNA	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2	634					threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			ACATTGATGGTATCTGCCAAT	0.299													8	147					0	0	1	0	0		C	102211755	C	C	102211755	3	2	27	1	0	0	0	0	1	0	0	0	15586	1638	57	3	527	3	TARSL2	15	102211755	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	492748	102211755	319637	6394	28745											
OR4F15	390649	broad.mit.edu	37	chr15	102358739	102358739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagatggtgctgctcatagCcatggcctttgacagataca	10	11	11	9	0	1	3	1	2	0	2	1	4	1	3	2	2	4	2	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr15:102358739C>T	uc010uts.1	+	1	350	c.350C>T	c.(349-351)GCC>GTC	p.A117V		NM_001001674	NP_001001674	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			CTGCTCATAGCCATGGCCTTT	0.458													21	162					0	0	1	0	0		T	102358739	T	T	102358739	3	4	27	1	0	0	0	0	1	0	0	0	11080	739	26	2	352	2	OR4F15	15	102358739	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	146984	102358739	172653	6395	28746											
NPRL3	8131	broad.mit.edu	37	chr16	142647	142647	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctgacaaggagaccggcaAggagaacttggcaagaacgg	14	5	14	8	2	1	4	0	1	1	3	1	6	1	4	1	5	2	2	1	5	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:142647A>G	uc002cfr.2	-	11	1207	c.1108T>C	c.(1108-1110)TTG>CTG	p.L370L	NPRL3_uc010uua.1_RNA|NPRL3_uc002cfp.1_RNA|NPRL3_uc002cfq.2_Silent_p.L191L|NPRL3_uc010uub.1_Silent_p.L345L|NPRL3_uc010uuc.1_Silent_p.L292L|NPRL3_uc002cfs.1_Silent_p.L345L	NM_001077350	NP_001070818	Q12980	NPRL3_HUMAN	conserved gene telomeric to alpha globin cluster	370							protein binding			ovary(1)	1						GAGACCGGCAAGGAGAACTTG	0.597													3	34					0	0	1	0	0		G	142647	G	G	142647	2	3	27	1	0	0	0	0	0	0	0	1	10617	69	3	3		3	NPRL3	16	142647	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08		142647	90212106	6396	28747											
PDIA2	64714	broad.mit.edu	37	chr16	334558	334558	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctacgctcaagttcttccGcaatgggaaccgcacgcacc	9	7	8	17	4	2	0	1	0	1	0	3	1	3	1	4	1	2	5	4	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:334558G>T	uc002cgn.1	+	7	1479	c.371G>T	c.(370-372)CGC>CTC	p.R124L	PDIA2_uc010bqt.1_5'UTR|PDIA2_uc002cgo.1_Missense_Mutation_p.R124L	NM_006849	NP_006840	Q13087	PDIA2_HUMAN	protein disulfide isomerase A2 precursor	124	Thioredoxin 1.				apoptosis|cell redox homeostasis|glycerol ether metabolic process|protein folding|protein retention in ER lumen|response to hypoxia	endoplasmic reticulum lumen	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity|steroid binding			central_nervous_system(1)|skin(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				AAGTTCTTCCGCAATGGGAAC	0.667													7	26					0.0477658	0.0483837	1	1	0		T	334558	T	T	334558	3	4	27	1	0	0	0	0	1	0	0	0	11687	1087	38	5	377	5	PDIA2	16	334558	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	191911	334558	90020195	6397	28748											
PDIA2	64714	broad.mit.edu	37	chr16	336467	336467	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccaagaatgtgtttgtcAagttctgtgagtgttgaggg	11	13	13	4	0	2	3	1	2	1	1	2	3	2	3	1	1	1	3	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:336467A>G	uc002cgn.1	+	13	2342	c.1234A>G	c.(1234-1236)AAG>GAG	p.K412E	PDIA2_uc010bqt.1_Missense_Mutation_p.K257E|PDIA2_uc002cgo.1_Missense_Mutation_p.K412E	NM_006849	NP_006840	Q13087	PDIA2_HUMAN	protein disulfide isomerase A2 precursor	412	Thioredoxin 2.				apoptosis|cell redox homeostasis|glycerol ether metabolic process|protein folding|protein retention in ER lumen|response to hypoxia	endoplasmic reticulum lumen	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity|steroid binding			central_nervous_system(1)|skin(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				TGTGTTTGTCAAGTTCTGTGA	0.577													8	57					0	0	1	0	0		G	336467	G	G	336467	3	3	27	1	0	0	0	0	1	0	0	0	11687	131	5	3	1264	3	PDIA2	16	336467	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1909	336467	90018286	6398	28749											
TMEM8A	58986	broad.mit.edu	37	chr16	425133	425133	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccctaggtttacttacTcagcattctcagggcacatg	8	13	8	12	0	3	0	2	0	2	0	4	0	3	0	1	2	4	3	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:425133T>A	uc002cgu.3	-	8	1568	c.1439A>T	c.(1438-1440)GAG>GTG	p.E480V	TMEM8A_uc002cgv.3_Missense_Mutation_p.E287V	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	480	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						GTTTACTTACTCAGCATTCTC	0.602													22	76					0	0	1	0	0		A	425133	A	A	425133	3	1	27	1	0	0	0	0	1	0	0	0	16239	1565	54	5	900	5	TMEM8A	16	425133	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	88666	425133	89929620	6399	28750											
SOLH	6650	broad.mit.edu	37	chr16	597774	597774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccagccgcgtagaggcCggcagctccacctcgggcag	7	3	15	16	4	0	1	0	0	0	1	2	1	1	1	5	4	2	5	5	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:597774C>T	uc002chi.2	+	4	1299	c.936C>T	c.(934-936)GCC>GCT	p.A312A	SOLH_uc002chh.1_Silent_p.A312A	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	312					proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				GCGTAGAGGCCGGCAGCTCCA	0.677													5	12					0	0	1	0	0		T	597774	T	T	597774	2	4	27	1	0	0	0	0	0	0	0	1	14950	639	23	1		1	SOLH	16	597774	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	172641	597774	89756979	6400	28751											
C16orf11	146325	broad.mit.edu	37	chr16	614329	614329	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccctgggaagcaggctggaGcttccgaaggcatcccccag	8	6	13	14	1	0	0	0	0	0	0	3	3	3	2	4	4	2	4	4	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:614329G>A	uc002chk.2	+	2	1314	c.1035G>A	c.(1033-1035)GAG>GAA	p.E345E	NHLRC4_uc002chl.2_5'Flank|PIGQ_uc010bqw.2_5'Flank	NM_145270	NP_660313	P0CG20	CP011_HUMAN	hypothetical protein LOC146325	345	Pro-rich.									central_nervous_system(1)	1						GCAGGCTGGAGCTTCCGAAGG	0.711													3	13					0	0	1	0	0		A	614329	A	A	614329	2	1	27	1	0	0	0	0	0	0	0	1	1813	962	34	2		2	C16orf11	16	614329	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16555	614329	89740424	6401	28752											
PIGQ	9091	broad.mit.edu	37	chr16	624233	624233	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagctcctggcccaggtgcgGcaggccagccaggtgggcgt	5	5	17	14	2	0	0	0	0	0	0	1	0	1	0	4	6	3	2	4	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:624233G>A	uc002cho.2	+	2	261	c.159G>A	c.(157-159)CGG>CGA	p.R53R	PIGQ_uc010bqw.2_Silent_p.R53R|PIGQ_uc002chm.2_Silent_p.R53R|PIGQ_uc002chn.2_Silent_p.R53R|PIGQ_uc010uui.1_Silent_p.R67R	NM_148920	NP_683721	Q9BRB3	PIGQ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	53					C-terminal protein lipidation|carbohydrate metabolic process|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity			central_nervous_system(1)	1		Hepatocellular(780;0.00335)				CCCAGGTGCGGCAGGCCAGCC	0.711													4	15					0	0	1	0	0		A	624233	A	A	624233	2	1	27	1	0	0	0	0	0	0	0	1	11915	1190	42	2		2	PIGQ	16	624233	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9904	624233	89730520	6402	28753											
RAB40C	57799	broad.mit.edu	37	chr16	675985	675985	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgacggagcaggcccgcgcGtacgcagagaagaactgcat	11	3	14	13	6	0	2	0	0	0	2	0	5	0	3	2	2	4	4	2	2	3	1	rs149195145	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:675985G>A	uc002chr.2	+	5	545	c.429G>A	c.(427-429)GCG>GCA	p.A143A	RAB40C_uc002chq.2_Silent_p.A124A	NM_021168	NP_066991	Q96S21	RB40C_HUMAN	RAB40C, member RAS oncogene family	143					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0		Hepatocellular(780;0.0218)				AGGCCCGCGCGTACGCAGAGA	0.617													7	32					0	0	1	0	0		A	675985	A	A	675985	2	1	27	1	0	0	0	0	0	0	0	1	12967	1132	40	1		1	RAB40C	16	675985	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	51752	675985	89678768	6403	28754											
WDR90	197335	broad.mit.edu	37	chr16	701681	701681	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacagcctctcccttgcccGgtggcctccagcaaacctgt	6	8	8	19	1	1	0	0	0	1	0	3	0	2	0	7	2	4	1	7	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:701681G>T	uc002cii.1	+	8	828	c.774G>T	c.(772-774)CCG>CCT	p.P258P	WDR90_uc002cig.1_Silent_p.P258P|WDR90_uc002cih.1_Silent_p.P258P|WDR90_uc002cij.1_RNA	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	258										ovary(1)	1		Hepatocellular(780;0.0218)				TCCCTTGCCCGGTGGCCTCCA	0.647													28	127					2.24059e-21	2.51081e-21	1	1	0		T	701681	T	T	701681	2	4	27	1	0	0	0	0	0	0	0	1	17363	1103	39	5		5	WDR90	16	701681	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	25696	701681	89653072	6404	28755											
MSLNL	401827	broad.mit.edu	37	chr16	822937	822937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggccagcagagccatgaCcgtgtcctgggaggtgatgc	8	6	17	10	1	0	3	0	2	0	1	1	5	1	5	4	4	3	1	4	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:822937C>T	uc002cjz.1	-	11	2248	c.2248G>A	c.(2248-2250)GTC>ATC	p.V750I		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	399	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						AGAGCCATGACCGTGTCCTGG	0.682													11	48					0	0	1	0	0		T	822937	T	T	822937	3	4	27	1	0	0	0	0	1	0	0	0	9900	507	18	4	937	4	MSLNL	16	822937	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	121256	822937	89531816	6405	28756											
MSLNL	401827	broad.mit.edu	37	chr16	823198	823198	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgctgcaacagggtgtccagGttggttctgaggatgcagcc	7	10	15	9	0	1	1	0	1	1	0	2	2	2	2	2	4	5	5	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:823198G>A	uc002cjz.1	-	10	2070	c.2070C>T	c.(2068-2070)AAC>AAT	p.N690N		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	339	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						GGGTGTCCAGGTTGGTTCTGA	0.637													8	68					0	0	1	0	0		A	823198	A	A	823198	2	1	27	1	0	0	0	0	0	0	0	1	9900	1252	44	4		4	MSLNL	16	823198	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	261	823198	89531555	6406	28757											
SSTR5	6755	broad.mit.edu	37	chr16	1129571	1129571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggcggcgggcgtgcgcGtgggctgcgtgcggcggcgc	1	5	24	11	9	0	1	0	1	0	0	0	1	0	1	0	6	3	1	0	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:1129571G>A	uc002ckq.2	+	1	791	c.703G>A	c.(703-705)GTG>ATG	p.V235M	LOC146336_uc002cko.2_5'Flank|LOC146336_uc002ckp.1_5'Flank	NM_001053	NP_001044	P35346	SSR5_HUMAN	somatostatin receptor 5	235	Cytoplasmic (Potential).				negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			lung(1)	1		Hepatocellular(780;0.00369)			Octreotide(DB00104)	GGGCGTGCGCGTGGGCTGCGT	0.657													7	23					0	0	1	0	0		A	1129571	A	A	1129571	3	1	27	1	0	0	0	0	1	0	0	0	15226	1145	40	1	705	1	SSTR5	16	1129571	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	306373	1129571	89225182	6407	28758											
CACNA1H	8912	broad.mit.edu	37	chr16	1250495	1250495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtactacaacgtgtgccGctcgggtgactccaaccccc	8	7	9	17	3	0	1	0	1	0	0	2	1	1	1	5	1	5	2	5	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:1250495G>A	uc002cks.2	+	7	1291	c.1043G>A	c.(1042-1044)CGC>CAC	p.R348H	CACNA1H_uc002ckt.2_Missense_Mutation_p.R348H	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	348	Extracellular (Potential).|I.				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	AACGTGTGCCGCTCGGGTGAC	0.642													4	37					0	0	1	0	0		A	1250495	A	A	1250495	3	1	27	1	0	0	0	0	1	0	0	0	2548	1087	38	1	1065	1	CACNA1H	16	1250495	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	120924	1250495	89104258	6408	28759											
CACNA1H	8912	broad.mit.edu	37	chr16	1260939	1260939	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcctgggtgttctgcgcgtGctgcgtctgctgcggaccct	2	12	14	13	4	2	0	0	0	2	0	3	1	3	1	2	2	5	3	2	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:1260939G>A	uc002cks.2	+	21	4439	c.4191G>A	c.(4189-4191)GTG>GTA	p.V1397V	CACNA1H_uc002ckt.2_Silent_p.V1397V|CACNA1H_uc002cku.2_Silent_p.V103V|CACNA1H_uc010brj.2_Silent_p.V103V|CACNA1H_uc002ckv.2_Silent_p.V103V	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1397	III.|Helical; Name=S4 of repeat III; (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	TTCTGCGCGTGCTGCGTCTGC	0.682													12	123					0	0	1	0	0		A	1260939	A	A	1260939	2	1	27	1	0	0	0	0	0	0	0	1	2548	1306	46	2		2	CACNA1H	16	1260939	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10444	1260939	89093814	6409	28760											
TPSG1	25823	broad.mit.edu	37	chr16	1274629	1274629	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtcctgagggacacacCtgtgggaaagacgaagggcc	13	4	14	10	1	0	2	0	1	0	1	1	5	1	4	3	3	0	0	3	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:1274629C>A	uc002ckw.2	-	2	49	c.47_splice	c.e2-1	p.G16_splice		NM_012467	NP_036599	Q9NRR2	TRYG1_HUMAN	transmembrane tryptase preproprotein						proteolysis	integral to plasma membrane	serine-type endopeptidase activity				0		Hepatocellular(780;0.00369)				AGGGACACACCTGTGGGAAAG	0.687													4	55					1	1	1	1	0		A	1274629	A	A	1274629	5	1	27	1	0	0	0	0	0	0	1	0	16452	695	24	5	939	5	TPSG1	16	1274629	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13690	1274629	89080124	6410	28761											
GNPTG	84572	broad.mit.edu	37	chr16	1412121	1412121	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcctgccgttcccggagcCggcagagcaaggtggggcct	6	5	16	14	4	0	1	0	0	0	1	1	2	1	2	5	5	3	3	5	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:1412121C>A	uc002clm.2	+	6	435	c.400C>A	c.(400-402)CGG>AGG	p.R134R		NM_032520	NP_115909	Q9UJJ9	GNPTG_HUMAN	N-acetylglucosamine-1-phosphotransferase, gamma	134						extracellular region|Golgi apparatus	protein binding			central_nervous_system(1)	1		Hepatocellular(780;0.0893)				TTCCCGGAGCCGGCAGAGCAA	0.677													4	10					0.184627	0.185716	1	1	0		A	1412121	A	A	1412121	2	1	27	1	0	0	0	0	0	0	0	1	6561	643	23	5		5	GNPTG	16	1412121	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	137492	1412121	88942632	6411	28762											
IGFALS	3483	broad.mit.edu	37	chr16	1840991	1840991	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcagggggcccagggcGtccgccggcagctctgccag	4	4	17	16	4	1	0	0	0	1	0	2	0	2	0	4	4	3	4	4	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:1840991G>A	uc002cmy.2	-	2	1509	c.1428C>T	c.(1426-1428)GAC>GAT	p.D476D	IGFALS_uc010uvn.1_Silent_p.D514D|IGFALS_uc010uvo.1_Silent_p.D110D	NM_004970	NP_004961	P35858	ALS_HUMAN	insulin-like growth factor binding protein, acid	476	LRR 17.				cell adhesion|signal transduction	soluble fraction	insulin-like growth factor binding				0						GGCCCAGGGCGTCCGCCGGCA	0.706													8	24					0	0	1	0	0		A	1840991	A	A	1840991	2	1	27	1	0	0	0	0	0	0	0	1	7593	1136	40	1		1	IGFALS	16	1840991	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	428870	1840991	88513762	6412	28763											
PKD1	5310	broad.mit.edu	37	chr16	2140480	2140480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagccccacacacagcagggGtgacaggtgccaggactcgg	10	3	15	13	1	0	1	0	1	0	0	1	3	0	2	3	5	3	1	3	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:2140480G>A	uc002cos.1	-	45	12459	c.12250C>T	c.(12250-12252)CCC>TCC	p.P4084S	PKD1_uc002cot.1_Missense_Mutation_p.P4083S|MIR1225_hsa-mir-1225|MI0006311_5'Flank	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	4084	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CACAGCAGGGGTGACAGGTGC	0.677													3	26					0	0	1	0	0		A	2140480	A	A	2140480	3	1	27	1	0	0	0	0	1	0	0	0	11982	1261	44	4	669	4	PKD1	16	2140480	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	299489	2140480	88214273	6413	28764											
PKD1	5310	broad.mit.edu	37	chr16	2147934	2147934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacgagtccaggcagctgtCgatgtccagcacctgctgcc	7	7	13	14	2	0	0	0	0	0	0	3	3	2	1	4	2	4	4	4	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:2147934C>T	uc002cos.1	-	31	10311	c.10102G>A	c.(10102-10104)GAC>AAC	p.D3368N	PKD1_uc002cot.1_Missense_Mutation_p.D3368N|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	3368	Cytoplasmic (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AGGCAGCTGTCGATGTCCAGC	0.682													4	13					0	0	1	0	0		T	2147934	T	T	2147934	3	4	27	1	0	0	0	0	1	0	0	0	11982	884	31	1	2873	1	PKD1	16	2147934	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7454	2147934	88206819	6414	28765											
PKD1	5310	broad.mit.edu	37	chr16	2160411	2160411	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggatgggcgtgcagcggTcacagagcacccaggaatag	11	4	16	10	2	1	1	1	0	0	1	1	3	1	3	1	4	3	2	1	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:2160411T>A	uc002cos.1	-	15	4966	c.4757A>T	c.(4756-4758)GAC>GTC	p.D1586V	PKD1_uc002cot.1_Missense_Mutation_p.D1586V	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1586	PKD 11.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CGTGCAGCGGTCACAGAGCAC	0.622													5	46					0	0	1	0	0		A	2160411	A	A	2160411	3	1	27	1	0	0	0	0	1	0	0	0	11982	1667	58	5	8282	5	PKD1	16	2160411	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12477	2160411	88194342	6415	28766											
PKD1	5310	broad.mit.edu	37	chr16	2164608	2164608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaggttgtgcctggacaCgccattgcccacctctgccc	6	8	12	15	1	1	1	0	0	1	1	1	3	1	2	5	3	3	1	5	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:2164608C>T	uc002cos.1	-	11	2625	c.2416G>A	c.(2416-2418)GTG>ATG	p.V806M	PKD1_uc002cot.1_Missense_Mutation_p.V806M	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	806	PKD 2.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						TGCCTGGACACGCCATTGCCC	0.682													4	6					0	0	1	0	0		T	2164608	T	T	2164608	3	4	27	1	0	0	0	0	1	0	0	0	11982	536	19	1	10639	1	PKD1	16	2164608	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4197	2164608	88190145	6416	28767											
ABCA3	21	broad.mit.edu	37	chr16	2333349	2333349	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggcatagaagttctcctgGtactggatgtctgtggggcg	7	11	15	8	1	2	1	0	0	2	1	3	2	2	2	1	5	1	3	1	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:2333349G>C	uc002cpy.1	-	26	4585	c.3873C>G	c.(3871-3873)TAC>TAG	p.Y1291*	ABCA3_uc010bsk.1_Nonsense_Mutation_p.Y1233*	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1291					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				AGTTCTCCTGGTACTGGATGT	0.687													8	40					0	0	1	0	0		C	2333349	C	C	2333349	4	2	27	1	0	0	0	0	0	1	0	0	33	1256	44	5	1273	5	ABCA3	16	2333349	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	168741	2333349	88021404	6417	28768											
ABCA3	21	broad.mit.edu	37	chr16	2334324	2334324	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgacctcggaggaggtgcagTacctccgcgtctcgtagttc	6	9	13	13	5	1	0	0	0	1	0	5	3	2	2	3	3	2	4	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:2334324T>C	uc002cpy.1	-	25	4530	c.3818A>G	c.(3817-3819)TAC>TGC	p.Y1273C	ABCA3_uc010bsk.1_Missense_Mutation_p.Y1215C	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1273					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				GGAGGTGCAGTACCTCCGCGT	0.597													3	61					0	0	1	0	0		C	2334324	C	C	2334324	3	2	27	1	0	0	0	0	1	0	0	0	33	1638	57	3	1332	3	ABCA3	16	2334324	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	975	2334324	88020429	6418	28769											
TBC1D24	57465	broad.mit.edu	37	chr16	2546590	2546590	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcactacagcatcgaCgaggccgagtgcttcgagaa	10	7	12	12	4	0	1	0	0	0	1	2	5	0	1	1	1	5	4	1	1	2	2	rs149371169	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:2546590C>T	uc002cql.2	+	2	581	c.441C>T	c.(439-441)GAC>GAT	p.D147D	TBC1D24_uc002cqk.2_Silent_p.D147D|TBC1D24_uc002cqm.2_Silent_p.D147D|TBC1D24_uc010bsm.2_5'Flank	NM_020705	NP_065756	Q9ULP9	TBC24_HUMAN	TBC1 domain family, member 24	147	Rab-GAP TBC.		D -> H (in FIME; signicantly impairs the interaction with ARF6; partially induces neurite overgrowth when overexpressed in primary cortical neurons).		neuron projection development	cytoplasm	protein binding|Rab GTPase activator activity				0						ACAGCATCGACGAGGCCGAGT	0.652													5	43					0	0	1	0	0		T	2546590	T	T	2546590	2	4	27	1	0	0	0	0	0	0	0	1	15639	535	19	1		1	TBC1D24	16	2546590	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	212266	2546590	87808163	6419	28770											
KCTD5	54442	broad.mit.edu	37	chr16	2752389	2752389	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctcttacaactatgggaaCgaagaccaagccgagttcct	12	9	8	12	2	1	1	0	0	1	1	3	4	3	2	4	1	4	1	4	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:2752389C>T	uc002crd.2	+	5	640	c.585C>T	c.(583-585)AAC>AAT	p.N195N		NM_018992	NP_061865	Q9NXV2	KCTD5_HUMAN	potassium channel tetramerisation domain	195					interspecies interaction between organisms	cytosol|nucleus|voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity				0						ACTATGGGAACGAAGACCAAG	0.592													17	73					0	0	1	0	0		T	2752389	T	T	2752389	2	4	27	1	0	0	0	0	0	0	0	1	8128	535	19	1		1	KCTD5	16	2752389	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	205799	2752389	87602364	6420	28771											
SRRM2	23524	broad.mit.edu	37	chr16	2812491	2812491	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctctagaaccccagctagAcgtggccgctcacgctccag	8	6	10	17	4	2	2	1	0	1	2	3	2	3	2	4	1	2	4	4	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:2812491A>G	uc002crk.2	+	11	2511	c.1962A>G	c.(1960-1962)AGA>AGG	p.R654R	SRRM2_uc002crj.1_Silent_p.R558R|SRRM2_uc002crl.1_Silent_p.R654R|SRRM2_uc010bsu.1_Silent_p.R558R	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	654	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCCCAGCTAGACGTGGCCGCT	0.617													8	98					0	0	1	0	0		G	2812491	G	G	2812491	2	3	27	1	0	0	0	0	0	0	0	1	15194	272	10	3		3	SRRM2	16	2812491	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	60102	2812491	87542262	6421	28772											
SRRM2	23524	broad.mit.edu	37	chr16	2813516	2813516	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcagggtctatttcaccatAccccaaagtaaaggcccaaa	14	8	6	13	0	3	0	2	0	1	0	3	0	3	0	4	2	1	1	4	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:2813516A>G	uc002crk.2	+	11	3536	c.2987A>G	c.(2986-2988)TAC>TGC	p.Y996C	SRRM2_uc002crj.1_Missense_Mutation_p.Y900C|SRRM2_uc002crl.1_Missense_Mutation_p.Y996C|SRRM2_uc010bsu.1_Missense_Mutation_p.Y900C	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	996	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						ATTTCACCATACCCCAAAGTA	0.473													8	152					0	0	1	0	0		G	2813516	G	G	2813516	3	3	27	1	0	0	0	0	1	0	0	0	15194	391	14	3	3025	3	SRRM2	16	2813516	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1025	2813516	87541237	6422	28773											
SRRM2	23524	broad.mit.edu	37	chr16	2814127	2814127	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggataggcctgagtcttcaCtggtattcaaagacacactt	12	11	9	9	0	3	2	2	1	1	1	3	3	3	3	1	3	0	1	1	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:2814127C>T	uc002crk.2	+	11	4147	c.3598C>T	c.(3598-3600)CTG>TTG	p.L1200L	SRRM2_uc002crj.1_Silent_p.L1104L|SRRM2_uc002crl.1_Silent_p.L1200L|SRRM2_uc010bsu.1_Silent_p.L1104L	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1200	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						TGAGTCTTCACTGGTATTCAA	0.473													32	121					0	0	1	0	0		T	2814127	T	T	2814127	2	4	27	1	0	0	0	0	0	0	0	1	15194	564	20	4		4	SRRM2	16	2814127	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	611	2814127	87540626	6423	28774											
ZNF205	7755	broad.mit.edu	37	chr16	3169666	3169666	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcacacgggcgagaagccCtacgcctgcactgactgcgg	9	4	13	15	5	0	2	0	1	0	1	0	3	0	2	2	2	4	2	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:3169666C>A	uc002cub.2	+	7	1140	c.1005C>A	c.(1003-1005)CCC>CCA	p.P335P	ZNF205_uc002cua.2_Silent_p.P335P	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	335					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GCGAGAAGCCCTACGCCTGCA	0.677													22	51					3.5997e-14	4.01733e-14	1	1	0		A	3169666	A	A	3169666	2	1	27	1	0	0	0	0	0	0	0	1	17789	668	24	5		5	ZNF205	16	3169666	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	355539	3169666	87185087	6424	28775											
ZNF205	7755	broad.mit.edu	37	chr16	3170039	3170039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggcaagtgcttcagccagCgttccaacctcatcgcgcac	8	7	10	16	4	2	0	2	0	0	0	4	0	3	0	3	1	4	4	3	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:3170039C>T	uc002cub.2	+	7	1513	c.1378C>T	c.(1378-1380)CGT>TGT	p.R460C	ZNF205_uc002cua.2_Missense_Mutation_p.R460C	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	460	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						CTTCAGCCAGCGTTCCAACCT	0.642													7	67					0	0	1	0	0		T	3170039	T	T	3170039	3	4	27	1	0	0	0	0	1	0	0	0	17789	768	27	1	1400	1	ZNF205	16	3170039	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	373	3170039	87184714	6425	28776											
OR1F1	4992	broad.mit.edu	37	chr16	3254364	3254364	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtacctggccactgtcCtggggaacctgctcatcatc	7	10	10	14	0	2	0	2	0	0	0	4	1	3	1	4	3	3	3	4	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:3254364C>A	uc010uwu.1	+	1	118	c.118C>A	c.(118-120)CTG>ATG	p.L40M		NM_012360	NP_036492	O43749	OR1F1_HUMAN	olfactory receptor, family 1, subfamily F,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGCCACTGTCCTGGGGAACCT	0.557													8	83					0.00448238	0.00462772	1	1	0		A	3254364	A	A	3254364	3	1	27	1	0	0	0	0	1	0	0	0	10975	680	24	5	120	5	OR1F1	16	3254364	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	84325	3254364	87100389	6426	28777											
MEFV	4210	broad.mit.edu	37	chr16	3293638	3293638	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagtctaacactcttcaGatcatcagagaagatgaggt	14	10	8	9	0	5	4	3	1	2	3	6	5	6	4	1	1	1	0	1	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:3293638G>T	uc002cun.1	-	10	1889	c.1849C>A	c.(1849-1851)CTG>ATG	p.L617M		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	617	B30.2/SPRY.				inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	ACACTCTTCAGATCATCAGAG	0.473													27	267					1.77063e-15	1.97744e-15	1	1	0		T	3293638	T	T	3293638	3	4	27	1	0	0	0	0	1	0	0	0	9477	933	33	5	500	5	MEFV	16	3293638	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39274	3293638	87061115	6427	28778											
TIGD7	91151	broad.mit.edu	37	chr16	3350404	3350404	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatttggctcccgttgtccTctttctcttctcagccccta	4	17	5	15	1	3	0	1	0	3	0	7	0	5	0	4	1	1	2	4	1	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:3350404T>C	uc002cus.2	-	1	997	c.211A>G	c.(211-213)AGG>GGG	p.R71G	ZNF263_uc002cur.2_3'UTR|TIGD7_uc010btj.1_RNA	NM_033208	NP_149985	Q6NT04	TIGD7_HUMAN	tigger transposable element derived 7	71	HTH CENPB-type.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						CCCGTTGTCCTCTTTCTCTTC	0.438													4	143					0	0	1	0	0		C	3350404	C	C	3350404	3	2	27	1	0	0	0	0	1	0	0	0	15926	1550	54	3	1442	3	TIGD7	16	3350404	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	56766	3350404	87004349	6428	28779											
BTBD12	84464	broad.mit.edu	37	chr16	3632367	3632367	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgctccaccttcttcttGccccgaggctgccgcctcct	2	12	7	20	3	2	0	0	0	2	0	5	1	5	0	8	1	2	2	8	1	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:3632367G>A	uc002cvp.2	-	15	6108	c.5481C>T	c.(5479-5481)GGC>GGT	p.G1827G		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1827	Interaction with PLK1 and TERF2-TERF2IP.|Interaction with SLX1.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						CCTTCTTCTTGCCCCGAGGCT	0.667								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				6	82					0	0	1	0	0		A	3632367	A	A	3632367	2	1	27	1	0	0	0	0	0	0	0	1	1543	1306	46	2		2	BTBD12	16	3632367	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	281963	3632367	86722386	6429	28780											
BTBD12	84464	broad.mit.edu	37	chr16	3656564	3656564	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcttctgaagcgtgtctcAaacgctcggggtctgctctc	6	12	10	13	3	5	1	1	1	5	0	8	1	5	1	0	2	3	2	0	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:3656564A>G	uc002cvp.2	-	3	1298	c.671T>C	c.(670-672)TTG>TCG	p.L224S	BTBD12_uc002cvq.1_Missense_Mutation_p.L224S	NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	224	Interaction with C20orf94, ERCC4 and MSH2.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						AGCGTGTCTCAAACGCTCGGG	0.542								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				22	205					0	0	1	0	0		G	3656564	G	G	3656564	3	3	27	1	0	0	0	0	1	0	0	0	1543	131	5	3	4885	3	BTBD12	16	3656564	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	24197	3656564	86698189	6430	28781											
BTBD12	84464	broad.mit.edu	37	chr16	3658827	3658827	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttaaagtcctcatcagActcatccatcatctgaccag	11	13	4	13	0	6	2	4	1	2	1	8	2	8	2	3	0	0	0	3	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:3658827A>G	uc002cvp.2	-	2	766	c.139T>C	c.(139-141)TCT>CCT	p.S47P	BTBD12_uc002cvq.1_Missense_Mutation_p.S47P	NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	47	Interaction with C20orf94, ERCC4 and MSH2.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TCCTCATCAGACTCATCCATC	0.468								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				9	89					0	0	1	0	0		G	3658827	G	G	3658827	3	3	27	1	0	0	0	0	1	0	0	0	1543	275	10	3	5421	3	BTBD12	16	3658827	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2263	3658827	86695926	6431	28782											
TRAP1	10131	broad.mit.edu	37	chr16	3740920	3740920	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagtcgtcctgcctgcaagCtccaggctgggtttcgcctg	5	10	12	14	2	0	0	0	0	0	0	4	0	2	0	4	2	3	4	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:3740920C>A	uc002cvt.3	-	2	244	c.155G>T	c.(154-156)AGC>ATC	p.S52I	TRAP1_uc010uxf.1_Intron	NM_016292	NP_057376	Q12931	TRAP1_HUMAN	TNF receptor-associated protein 1 precursor	52					cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)				TGCCTGCAAGCTCCAGGCTGG	0.552											OREG0023572	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	52					1.23904e-05	1.32877e-05	1	1	0		A	3740920	A	A	3740920	3	1	27	1	0	0	0	0	1	0	0	0	16481	797	28	5	2027	5	TRAP1	16	3740920	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	82093	3740920	86613833	6432	28783											
CREBBP	1387	broad.mit.edu	37	chr16	3778617	3778617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcggcacgccagcctgcatgGcattcaggttctgcaggctg	6	8	14	13	2	2	0	1	0	1	0	2	0	2	0	2	4	3	6	2	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:3778617G>A	uc002cvv.2	-	31	6635	c.6431C>T	c.(6430-6432)GCC>GTC	p.A2144V	CREBBP_uc002cvw.2_Missense_Mutation_p.A2106V	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2144					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		AGCCTGCATGGCATTCAGGTT	0.677			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				10	85					0	0	1	0	0		A	3778617	A	A	3778617	3	1	27	1	0	0	0	0	1	0	0	0	3864	1203	42	2	901	2	CREBBP	16	3778617	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	37697	3778617	86576136	6433	28784											
CREBBP	1387	broad.mit.edu	37	chr16	3843433	3843433	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgtcatgtgattcaaaacGtttttcatggttcgacaatg	10	15	9	7	3	3	1	3	1	0	0	4	2	3	1	0	1	2	2	0	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:3843433G>A	uc002cvv.2	-	4	1374	c.1170C>T	c.(1168-1170)AAC>AAT	p.N390N	CREBBP_uc002cvw.2_Silent_p.N390N	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	390	TAZ-type 1.|Interaction with SRCAP.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GATTCAAAACGTTTTTCATGG	0.493			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				11	141					0	0	1	0	0		A	3843433	A	A	3843433	2	1	27	1	0	0	0	0	0	0	0	1	3864	1136	40	1		1	CREBBP	16	3843433	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	64816	3843433	86511320	6434	28785											
ADCY9	115	broad.mit.edu	37	chr16	4029168	4029168	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggagtagacggccagtgcGggaagcgacaccaggatggc	10	4	18	9	3	0	1	0	0	0	1	0	5	0	4	2	5	2	1	2	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4029168G>A	uc002cvx.2	-	8	3167	c.2628C>T	c.(2626-2628)CCC>CCT	p.P876P		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	876	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						CGGCCAGTGCGGGAAGCGACA	0.582													18	83					0	0	1	0	0		A	4029168	A	A	4029168	2	1	27	1	0	0	0	0	0	0	0	1	301	1103	39	1		1	ADCY9	16	4029168	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	185735	4029168	86325585	6435	28786											
ADCY9	115	broad.mit.edu	37	chr16	4164493	4164493	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaggtccttcccgtgcatAatggattgccccaccttgag	7	11	9	14	1	0	1	0	1	0	0	3	2	3	2	6	2	2	1	6	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4164493A>G	uc002cvx.2	-	2	1490	c.951T>C	c.(949-951)ATT>ATC	p.I317I		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	317	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						TCCCGTGCATAATGGATTGCC	0.557													13	112					0	0	1	0	0		G	4164493	G	G	4164493	2	3	27	1	0	0	0	0	0	0	0	1	301	358	13	3		3	ADCY9	16	4164493	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	135325	4164493	86190260	6436	28787											
ADCY9	115	broad.mit.edu	37	chr16	4164997	4164997	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaccaggaggaagcacagCgcgggggcgaccatgacgat	12	2	15	12	4	0	1	0	1	0	0	0	5	0	3	2	4	2	1	2	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4164997C>T	uc002cvx.2	-	2	986	c.447G>A	c.(445-447)GCG>GCA	p.A149A		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	149	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						GGAAGCACAGCGCGGGGGCGA	0.582													5	46					0	0	1	0	0		T	4164997	T	T	4164997	2	4	27	1	0	0	0	0	0	0	0	1	301	755	27	1		1	ADCY9	16	4164997	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	504	4164997	86189756	6437	28788											
SRL	6345	broad.mit.edu	37	chr16	4242609	4242609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgttctccagtctgttctCgatcacctgattcaggtctt	5	17	7	12	1	6	1	2	1	4	0	8	2	6	1	2	1	0	2	2	1	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4242609C>T	uc002cvz.3	-	6	980	c.967G>A	c.(967-969)GAG>AAG	p.E323K	SRL_uc002cvy.3_RNA	NM_001098814	NP_001092284	Q86TD4	SRCA_HUMAN	sarcalumenin	782						sarcoplasmic reticulum lumen	GTP binding|GTPase activity			ovary(3)|skin(2)	5						AGTCTGTTCTCGATCACCTGA	0.552													16	145					0	0	1	0	0		T	4242609	T	T	4242609	3	4	27	1	0	0	0	0	1	0	0	0	15175	893	31	1	458	1	SRL	16	4242609	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	77612	4242609	86112144	6438	28789											
TFAP4	7023	broad.mit.edu	37	chr16	4308190	4308190	+	Missense_Mutation	SNP	C	A	A																															gacaggcttcacgatgacagCtcgccgctgctcctcctcca																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4308190C>A	uc010uxg.1	-	7	1137	c.883G>T	c.(883-885)GCT>TCT	p.A295S		NM_003223	NP_003214	Q01664	TFAP4_HUMAN	transcription factor AP-4 (activating enhancer	295					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation by host of viral transcription|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|regulation of S phase of mitotic cell cycle	transcriptional repressor complex	E-box binding|histone deacetylase binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						ACGATGACAGCTCGCCGCTGC	0.662													14	41					4.3838e-07	4.77687e-07	1	1	0		A	4308190	A	A	4308190	3	1	27	1	0	0	0	0	1	0	0	0	15817	797	28	5	137	5	TFAP4	16	4308190	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	65581	4308190	86046563	6439	28790	57	2									
TFAP4	7023	broad.mit.edu	37	chr16	4308199	4308199	+	Missense_Mutation	SNP	G	C	C																															cacgatgacagctcgccgctGctcctcctccagctcctgct																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4308199G>C	uc010uxg.1	-	7	1128	c.874C>G	c.(874-876)CAG>GAG	p.Q292E		NM_003223	NP_003214	Q01664	TFAP4_HUMAN	transcription factor AP-4 (activating enhancer	292					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation by host of viral transcription|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|regulation of S phase of mitotic cell cycle	transcriptional repressor complex	E-box binding|histone deacetylase binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GCTCGCCGCTGCTCCTCCTCC	0.652													7	42					0	0	1	0	0		C	4308199	C	C	4308199	3	2	27	1	0	0	0	0	1	0	0	0	15817	1328	46	5	146	5	TFAP4	16	4308199	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9	4308199	86046554	6440	28791	57	2									
CORO7	79585	broad.mit.edu	37	chr16	4409546	4409546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagggttgagggagccaCgtccaggcccaacactgcca	10	4	13	14	1	0	1	0	1	0	0	1	2	1	2	4	3	4	2	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4409546C>T	uc002cwh.3	-	22	2305	c.2185G>A	c.(2185-2187)GTG>ATG	p.V729M	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Missense_Mutation_p.V729M|CORO7_uc002cwg.3_Missense_Mutation_p.V509M|CORO7_uc010uxh.1_Missense_Mutation_p.V711M|CORO7_uc010uxi.1_Missense_Mutation_p.V644M|CORO7_uc002cwi.1_Missense_Mutation_p.V509M	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	729	WD 8.					cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						GAGGGAGCCACGTCCAGGCCC	0.662											OREG0023580	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	33					0	0	1	0	0		T	4409546	T	T	4409546	3	4	27	1	0	0	0	0	1	0	0	0	3762	536	19	1	620	1	CORO7	16	4409546	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	101347	4409546	85945207	6441	28792											
CORO7	79585	broad.mit.edu	37	chr16	4438557	4438557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accccctacctggttgaatcCagtagacacaaggtgctccc	10	8	8	15	0	0	2	0	1	0	1	2	2	2	2	5	2	2	3	5	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4438557C>T	uc002cwh.3	-	8	811	c.691G>A	c.(691-693)GGA>AGA	p.G231R	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Missense_Mutation_p.G231R|CORO7_uc002cwg.3_Missense_Mutation_p.G11R|CORO7_uc010uxh.1_Missense_Mutation_p.G213R|CORO7_uc010uxi.1_Missense_Mutation_p.G146R|CORO7_uc002cwi.1_Missense_Mutation_p.G11R|CORO7_uc010uxj.1_RNA|CORO7_uc010btp.1_Missense_Mutation_p.G11R	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	231	WD 4.					cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						TGGTTGAATCCAGTAGACACA	0.642													7	30					0	0	1	0	0		T	4438557	T	T	4438557	3	4	27	1	0	0	0	0	1	0	0	0	3762	603	21	4	2170	4	CORO7	16	4438557	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	29011	4438557	85916196	6442	28793											
ANKS3	124401	broad.mit.edu	37	chr16	4780145	4780145	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcttcatcgctgagctcGgacatcactgaggaggaagg	9	8	14	10	2	2	2	2	2	0	0	4	5	2	5	0	5	1	3	0	5	1	1	rs145030609	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4780145G>A	uc002cxj.1	-	3	301	c.6C>T	c.(4-6)TCC>TCT	p.S2S	ANKS3_uc002cxi.1_5'Flank|ANKS3_uc002cxk.2_5'UTR|ANKS3_uc002cxl.2_5'UTR|ANKS3_uc010uxs.1_Intron|ANKS3_uc002cxm.2_5'UTR	NM_133450	NP_597707	Q6ZW76	ANKS3_HUMAN	ankyrin repeat and sterile alpha motif domain	2											0						CGCTGAGCTCGGACATCACTG	0.607													4	34					0	0	1	0	0		A	4780145	A	A	4780145	2	1	27	1	0	0	0	0	0	0	0	1	690	1103	39	1		1	ANKS3	16	4780145	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	341588	4780145	85574608	6443	28794											
ROGDI	79641	broad.mit.edu	37	chr16	4847966	4847966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagggctatgcagcaccGcgcccccagctgggcggaag	7	3	14	17	3	0	0	0	0	0	0	0	1	0	1	5	3	3	4	5	3	2	1	rs147170560		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4847966G>A	uc002cxv.2	-	9	770	c.668C>T	c.(667-669)GCG>GTG	p.A223V	ROGDI_uc002cxu.2_Missense_Mutation_p.A133V|ROGDI_uc010bua.2_RNA|ROGDI_uc002cxw.2_Missense_Mutation_p.A133V	NM_024589	NP_078865	Q9GZN7	ROGDI_HUMAN	leucine zipper domain protein	223						intracellular				ovary(1)|skin(1)	2						ATGCAGCACCGCGCCCCCAGC	0.706													5	24					0	0	1	0	0		A	4847966	A	A	4847966	3	1	27	1	0	0	0	0	1	0	0	0	13545	1087	38	1	207	1	ROGDI	16	4847966	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	67821	4847966	85506787	6444	28795											
ROGDI	79641	broad.mit.edu	37	chr16	4851560	4851560	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccctcagtgccggagccCggcagagtgaagcgcagaga	9	3	16	13	3	1	3	1	1	0	2	1	5	1	4	4	3	3	2	4	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4851560C>A	uc002cxv.2	-	3	246	c.144G>T	c.(142-144)CCG>CCT	p.P48P	ROGDI_uc002cxu.2_5'UTR|ROGDI_uc010bua.2_RNA|ROGDI_uc002cxw.2_5'UTR|ROGDI_uc010bub.1_RNA	NM_024589	NP_078865	Q9GZN7	ROGDI_HUMAN	leucine zipper domain protein	48						intracellular				ovary(1)|skin(1)	2						TGCCGGAGCCCGGCAGAGTGA	0.657													3	8					0.00909568	0.0093211	1	1	0		A	4851560	A	A	4851560	2	1	27	1	0	0	0	0	0	0	0	1	13545	639	23	5		5	ROGDI	16	4851560	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3594	4851560	85503193	6445	28796											
UBN1	29855	broad.mit.edu	37	chr16	4908571	4908571	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctttcacattttagggTggaaagaaacgtagaaaaga	16	11	10	4	1	1	3	1	0	0	3	1	4	1	4	0	2	2	2	0	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4908571T>C	uc002cyb.2	+	4	678	c.339T>C	c.(337-339)GGT>GGC	p.G113G	UBN1_uc010uxw.1_Silent_p.G113G|UBN1_uc002cyc.2_Silent_p.G113G	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	113	Sufficient for interaction with HIRA.				chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						CATTTTAGGGTGGAAAGAAAC	0.393													7	38					0	0	1	0	0		C	4908571	C	C	4908571	2	2	27	1	0	0	0	0	0	0	0	1	16918	1683	59	3		3	UBN1	16	4908571	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	57011	4908571	85446182	6446	28797											
UBN1	29855	broad.mit.edu	37	chr16	4920857	4920857	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtaggatgctggaagaGgagaaagacaaggagcagag	15	3	16	7	1	0	4	0	0	0	4	0	8	0	7	2	4	2	3	2	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4920857G>A	uc002cyb.2	+	11	1782	c.1443G>A	c.(1441-1443)GAG>GAA	p.E481E	UBN1_uc010uxw.1_Silent_p.E481E|UBN1_uc002cyc.2_Silent_p.E481E	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	481	Potential.				chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						TGCTGGAAGAGGAGAAAGACA	0.537													3	33					0	0	1	0	0		A	4920857	A	A	4920857	2	1	27	1	0	0	0	0	0	0	0	1	16918	991	35	4		4	UBN1	16	4920857	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	12286	4920857	85433896	6447	28798											
PPL	5493	broad.mit.edu	37	chr16	4934012	4934012	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgacttggagttatggaaTtccagctccgaaagcctggc	10	10	12	9	1	0	1	0	1	0	0	2	5	2	3	3	3	2	2	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:4934012T>C	uc002cyd.1	-	22	4734	c.4644A>G	c.(4642-4644)GAA>GAG	p.E1548E		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1548	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						AGTTATGGAATTCCAGCTCCG	0.567													4	108					0	0	1	0	0		C	4934012	C	C	4934012	2	2	27	1	0	0	0	0	0	0	0	1	12356	1490	52	3		3	PPL	16	4934012	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	13155	4934012	85420741	6448	28799											
SEC14L5	9717	broad.mit.edu	37	chr16	5056027	5056027	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatagagaagtgatccctgActtccttgggggagagagtg	10	9	16	6	0	0	4	0	2	0	2	2	8	2	6	2	3	0	0	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:5056027A>T	uc002cye.2	+	12	1595	c.1415A>T	c.(1414-1416)GAC>GTC	p.D472V		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	472	CRAL-TRIO.					integral to membrane|intracellular	transporter activity				0						GTGATCCCTGACTTCCTTGGG	0.572													4	37					0	0	1	0	0		T	5056027	T	T	5056027	3	4	27	1	0	0	0	0	1	0	0	0	14010	275	10	5	1457	5	SEC14L5	16	5056027	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	122015	5056027	85298726	6449	28800											
C16orf68	79091	broad.mit.edu	37	chr16	8735041	8735041	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggacgacctctgcacaGgtgtgtgtttctctcggacg	7	11	13	10	3	2	1	0	1	2	0	4	4	2	3	1	3	1	2	1	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:8735041G>T	uc002cyz.2	+	7	1102	c.826G>T	c.(826-828)GAT>TAT	p.D276Y	C16orf68_uc002cza.2_Missense_Mutation_p.D220Y	NM_024109	NP_077014	Q9BUU2	MET22_HUMAN	hypothetical protein LOC79091	276							methyltransferase activity				0						CCTCTGCACAGGTGTGTGTTT	0.463													5	35					0.014758	0.0150623	1	1	0		T	8735041	T	T	8735041	3	4	27	1	0	0	0	0	1	0	0	0	1830	1014	35	5	848	5	C16orf68	16	8735041	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3679014	8735041	81619712	6450	28801											
PMM2	5373	broad.mit.edu	37	chr16	8900242	8900242	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtctgagctacattgcgAaaattaaactcccgaagaag	15	9	8	9	2	1	2	0	1	1	1	2	4	2	2	1	0	4	1	1	0	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:8900242A>G	uc002czf.3	+	4	395	c.325A>G	c.(325-327)AAA>GAA	p.K109E	PMM2_uc010uyf.1_RNA|PMM2_uc010uyg.1_Missense_Mutation_p.K26E|PMM2_uc010uyh.1_Intron|PMM2_uc010buj.2_RNA|PMM2_uc010uyi.1_Intron|PMM2_uc010uye.1_Missense_Mutation_p.K109E	NM_000303	NP_000294	O15305	PMM2_HUMAN	phosphomannomutase 2	109					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	phosphomannomutase activity			ovary(1)	1						CTACATTGCGAAAATTAAACT	0.413													11	69					0	0	1	0	0		G	8900242	G	G	8900242	3	3	27	1	0	0	0	0	1	0	0	0	12156	247	9	3	339	3	PMM2	16	8900242	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	165201	8900242	81454511	6451	28802											
CARHSP1	23589	broad.mit.edu	37	chr16	8952326	8952326	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccctgtgaagcccgcacCgtcctgacagagagggggaa	9	4	16	12	2	0	3	0	2	0	1	1	5	1	4	4	3	1	1	4	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:8952326C>T	uc002czh.1	-	3	512	c.162G>A	c.(160-162)ACG>ACA	p.T54T	PMM2_uc002czg.1_Intron|CARHSP1_uc002czi.1_Silent_p.T54T	NM_001042476	NP_001035941	Q9Y2V2	CHSP1_HUMAN	calcium-regulated heat-stable protein 1	54					intracellular signal transduction|regulation of mRNA stability|regulation of transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|P granule	DNA binding|mRNA 3'-UTR binding|phosphatase binding				0						AAGCCCGCACCGTCCTGACAG	0.622													4	42					0	0	1	0	0		T	8952326	T	T	8952326	2	4	27	1	0	0	0	0	0	0	0	1	2656	639	23	1		1	CARHSP1	16	8952326	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	52084	8952326	81402427	6452	28803											
USP7	7874	broad.mit.edu	37	chr16	8988948	8988948	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagacctctttgtggaaatgCgccactgtgacaagcatctc	11	10	9	11	1	2	2	0	1	2	1	3	3	2	3	2	1	2	1	2	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:8988948C>T	uc002czl.2	-	28	3178	c.2979G>A	c.(2977-2979)GCG>GCA	p.A993A	USP7_uc010uyk.1_Silent_p.A894A|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Silent_p.A894A|USP7_uc002czk.2_Silent_p.A977A	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	993					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TGTGGAAATGCGCCACTGTGA	0.502													22	241					0	0	1	0	0		T	8988948	T	T	8988948	2	4	27	1	0	0	0	0	0	0	0	1	17114	755	27	1		1	USP7	16	8988948	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	36622	8988948	81365805	6453	28804											
NUBP1	4682	broad.mit.edu	37	chr16	10846529	10846529	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagataatgggattggaaggAgagcaggtaatagccggtta	15	8	15	3	1	0	2	0	0	0	2	0	5	0	4	1	5	2	3	1	5	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:10846529A>G	uc002daa.1	+	4	344	c.321A>G	c.(319-321)GGA>GGG	p.G107G	NUBP1_uc010bum.1_Missense_Mutation_p.R14G|NUBP1_uc002dab.1_Silent_p.G107G	NM_002484	NP_002475	P53384	NUBP1_HUMAN	nucleotide binding protein 1	107					cell growth|cellular iron ion homeostasis|iron-sulfur cluster assembly	cytosol	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding|nucleoside-triphosphatase activity|protein binding			ovary(1)|skin(1)	2						GATTGGAAGGAGAGCAGGTAA	0.448													10	111					0	0	1	0	0		G	10846529	G	G	10846529	2	3	27	1	0	0	0	0	0	0	0	1	10734	291	11	3		3	NUBP1	16	10846529	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1857581	10846529	79508224	6454	28805											
CIITA	4261	broad.mit.edu	37	chr16	11001075	11001075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctccatggagcaggcccagGcatacgtgatgcgctacttt	8	10	11	12	2	1	1	0	1	1	0	2	2	1	2	2	3	4	3	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:11001075G>A	uc002dai.3	+	11	1859	c.1726G>A	c.(1726-1728)GCA>ACA	p.A576T	CIITA_uc002daj.3_Missense_Mutation_p.A577T|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Missense_Mutation_p.A576T|CIITA_uc002dah.2_Missense_Mutation_p.A528T|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	576	NACHT.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						GCAGGCCCAGGCATACGTGAT	0.642			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								14	35					0	0	1	0	0		A	11001075	A	A	11001075	3	1	27	1	0	0	0	0	1	0	0	0	3431	1203	42	2	1768	2	CIITA	16	11001075	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	154546	11001075	79353678	6455	28806											
CLEC16A	23274	broad.mit.edu	37	chr16	11217761	11217761	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaagcagcgcctggccaaaGgccgcatccaggcaaggcgc	10	2	13	16	3	0	0	0	0	0	0	1	0	1	0	5	4	2	3	5	4	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:11217761G>T	uc002dao.2	+	21	2661	c.2431G>T	c.(2431-2433)GGC>TGC	p.G811C	CLEC16A_uc002dan.3_Missense_Mutation_p.G793C|CLEC16A_uc002dap.2_5'Flank	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	811										ovary(1)|central_nervous_system(1)	2						CCTGGCCAAAGGCCGCATCCA	0.607													4	20					0.00909568	0.0093211	1	1	0		T	11217761	T	T	11217761	3	4	27	1	0	0	0	0	1	0	0	0	3503	1000	35	5	2509	5	CLEC16A	16	11217761	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	216686	11217761	79136992	6456	28807											
RSL1D1	26156	broad.mit.edu	37	chr16	11941581	11941581	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctataaaactgttctgTcttttcaggagttgaattgg	9	18	8	6	0	4	1	1	1	3	0	4	2	4	2	0	2	1	2	0	2	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:11941581T>C	uc002dbp.1	-	3	401	c.328A>G	c.(328-330)ACA>GCA	p.T110A	RSL1D1_uc010buv.1_Missense_Mutation_p.T110A|RSL1D1_uc010uyw.1_5'UTR|RSL1D1_uc010buw.2_RNA	NM_015659	NP_056474	O76021	RL1D1_HUMAN	ribosomal L1 domain containing 1	110					regulation of protein localization|translation	large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						AACTGTTCTGTCTTTTCAGGA	0.333													5	78					0	0	1	0	0		C	11941581	C	C	11941581	3	2	27	1	0	0	0	0	1	0	0	0	13725	1667	58	3	1172	3	RSL1D1	16	11941581	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	723820	11941581	78413172	6457	28808											
SNX29	92017	broad.mit.edu	37	chr16	12450122	12450122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatgaggcaggagctcatcGatctccggggaccggtgagt	9	7	16	9	3	2	3	1	2	1	1	4	6	2	5	2	5	1	2	2	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:12450122G>A	uc002dby.3	+	9	786	c.730G>A	c.(730-732)GAT>AAT	p.D244N		NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	244					cell communication		phosphatidylinositol binding			ovary(1)	1						GGAGCTCATCGATCTCCGGGG	0.592													9	17					0	0	1	0	0		A	12450122	A	A	12450122	3	1	27	1	0	0	0	0	1	0	0	0	14923	1058	37	1	760	1	SNX29	16	12450122	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	508541	12450122	77904631	6458	28809											
ERCC4	2072	broad.mit.edu	37	chr16	14020418	14020418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attatgtttctccccctcagGcatcttggtgtatagagccc	7	14	8	12	0	3	1	1	0	2	1	4	1	3	1	3	2	1	3	3	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:14020418G>A	uc002dce.2	+	3	398	c.389G>A	c.(388-390)GGC>GAC	p.G130D	ERCC4_uc010bva.2_Missense_Mutation_p.G130D	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	130					double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						TCCCCCTCAGGCATCTTGGTG	0.303			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				10	110					0	0	1	0	0		A	14020418	A	A	14020418	3	1	27	1	0	0	0	0	1	0	0	0	5223	1217	42	2	399	2	ERCC4	16	14020418	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1570296	14020418	76334335	6459	28810											
ERCC4	2072	broad.mit.edu	37	chr16	14041574	14041574	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtcggggcattgacattgaAcccgtgactttagaggttgg	8	11	14	8	3	0	4	0	3	0	1	1	4	0	4	1	4	1	2	1	4	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:14041574A>G	uc002dce.2	+	11	2130	c.2121A>G	c.(2119-2121)GAA>GAG	p.E707E	ERCC4_uc010uyz.1_Silent_p.E257E	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	707	ERCC4.|Interaction with EME1 and ERCC1.				double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						TTGACATTGAACCCGTGACTT	0.473			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				4	92					0	0	1	0	0		G	14041574	G	G	14041574	2	3	27	1	0	0	0	0	0	0	0	1	5223	40	2	3		3	ERCC4	16	14041574	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21156	14041574	76313179	6460	28811											
NOMO1	23420	broad.mit.edu	37	chr16	14951484	14951484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaaattgcaccgaacacaCctcagctggctgacattatt	13	10	6	12	1	2	1	2	1	0	0	2	2	2	1	2	1	3	3	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:14951484C>T	uc002dcv.2	+	11	1258	c.1192C>T	c.(1192-1194)CCT>TCT	p.P398S		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor	398	Extracellular (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						ACCGAACACACCTCAGCTGGC	0.478													22	145					0	0	1	0	0		T	14951484	T	T	14951484	3	4	27	1	0	0	0	0	1	0	0	0	10550	507	18	4	1234	4	NOMO1	16	14951484	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	909910	14951484	75403269	6461	28812											
NTAN1	123803	broad.mit.edu	37	chr16	15131997	15131997	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggagatgggtgtttttttAaaaacatcaaggtagatcta	13	14	10	4	0	2	2	1	0	1	2	2	3	2	2	0	3	1	2	0	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:15131997A>T	uc002ddd.2	-	10	829	c.824T>A	c.(823-825)TTA>TAA	p.L275*	PDXDC1_uc002ddc.2_Intron|NTAN1_uc010uzo.1_Nonsense_Mutation_p.L170*	NM_173474	NP_775745	Q96AB6	NTAN1_HUMAN	N-terminal Asn amidase	275						cytoplasm					0						GTGTTTTTTTAAAAACATCAA	0.408													23	50					0	0	1	0	0		T	15131997	T	T	15131997	4	4	27	1	0	0	0	0	0	1	0	0	10714	372	13	5	112	5	NTAN1	16	15131997	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	180513	15131997	75222756	6462	28813											
RRN3	54700	broad.mit.edu	37	chr16	15180276	15180276	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaagtacatgatagaagaAcggaattctagcagccagtt	15	9	10	7	1	2	3	1	1	1	2	2	4	2	4	1	1	4	3	1	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:15180276A>G	uc002dde.2	-	4	356	c.288T>C	c.(286-288)CGT>CGC	p.R96R	PDXDC1_uc002ddc.2_Intron|RRN3_uc010uzp.1_5'UTR|RRN3_uc010uzq.1_Intron|RRN3_uc002ddf.1_Silent_p.R96R	NM_018427	NP_060897	Q9NYV6	RRN3_HUMAN	RRN3 RNA polymerase I transcription factor	96					regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm				ovary(1)	1						TGATAGAAGAACGGAATTCTA	0.308													13	108					0	0	1	0	0		G	15180276	G	G	15180276	2	3	27	1	0	0	0	0	0	0	0	1	13709	30	2	3		3	RRN3	16	15180276	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	48279	15180276	75174477	6463	28814											
KIAA0430	9665	broad.mit.edu	37	chr16	15719361	15719361	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaattttggattcttaagTtttttgggagacttcacttt	9	19	7	6	0	2	1	1	0	1	1	2	3	2	2	0	2	0	1	0	2	2	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:15719361T>C	uc002ddr.2	-	8	2014	c.1821A>G	c.(1819-1821)AAA>AAG	p.K607K	KIAA0430_uc002ddq.2_Intron|KIAA0430_uc010uzv.1_Silent_p.K603K|KIAA0430_uc010uzw.1_Silent_p.K605K	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	606						peroxisome	nucleotide binding|RNA binding				0						GATTCTTAAGTTTTTTGGGAG	0.388													5	119					0	0	1	0	0		C	15719361	C	C	15719361	2	2	27	1	0	0	0	0	0	0	0	1	8193	1722	60	3		3	KIAA0430	16	15719361	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	539085	15719361	74635392	6464	28815											
MYH11	4629	broad.mit.edu	37	chr16	15815483	15815483	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagagatgtttttctcctcGgctaacaactacaacacaag	14	10	7	10	1	1	1	0	0	1	1	3	3	1	1	1	1	4	2	1	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:15815483G>T	uc002ddy.2	-	32	4481	c.4374C>A	c.(4372-4374)GCC>GCA	p.A1458A	MYH11_uc002ddv.2_Silent_p.A1465A|MYH11_uc002ddw.2_Silent_p.A1458A|MYH11_uc002ddx.2_Silent_p.A1465A|MYH11_uc010bvg.2_Silent_p.A1290A|NDE1_uc010uzy.1_Intron|NDE1_uc002dds.2_Intron|MYH11_uc010bvh.2_Silent_p.A164A|NDE1_uc002ddz.1_5'Flank	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1458	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						TTTTCTCCTCGGCTAACAACT	0.552			T	CBFB	AML								5	78					0.00116845	0.00121513	1	1	0		T	15815483	T	T	15815483	2	4	27	1	0	0	0	0	0	0	0	1	10049	1103	39	5		5	MYH11	16	15815483	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	96122	15815483	74539270	6465	28816											
MYH11	4629	broad.mit.edu	37	chr16	15841470	15841470	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgcctggaaggccatgaTgacatcggtgatcttcaaat	11	10	10	10	2	2	3	1	3	1	0	4	4	2	4	2	3	0	0	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:15841470T>C	uc002ddy.2	-	19	2475	c.2368A>G	c.(2368-2370)ATC>GTC	p.I790V	MYH11_uc002ddv.2_Missense_Mutation_p.I797V|MYH11_uc002ddw.2_Missense_Mutation_p.I790V|MYH11_uc002ddx.2_Missense_Mutation_p.I797V|MYH11_uc010bvg.2_Missense_Mutation_p.I622V	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	790	IQ.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						AAGGCCATGATGACATCGGTG	0.507			T	CBFB	AML								3	107					0	0	1	0	0		C	15841470	C	C	15841470	3	2	27	1	0	0	0	0	1	0	0	0	10049	1464	51	3	3677	3	MYH11	16	15841470	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25987	15841470	74513283	6466	28817											
ABCC1	4363	broad.mit.edu	37	chr16	16139870	16139870	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attggggctgtctatcggaaGgtaggggacgctgtgccatt	7	11	16	7	2	1	0	0	0	1	0	2	2	1	2	1	6	1	3	1	6	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:16139870G>A	uc010bvi.2	+	9	1393	c.1218G>A	c.(1216-1218)AAG>AAA	p.K406K	ABCC1_uc010bvj.2_Silent_p.K406K|ABCC1_uc010bvk.2_Silent_p.K406K|ABCC1_uc010bvl.2_Silent_p.K406K|ABCC1_uc010bvm.2_Silent_p.K406K|ABCC1_uc002del.3_Silent_p.K290K|ABCC1_uc010bvn.2_Silent_p.K269K	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	406	Cytoplasmic.|ABC transmembrane type-1 1.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TCTATCGGAAGGTAGGGGACG	0.607											OREG0023639	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	24					0	0	1	0	0		A	16139870	A	A	16139870	2	1	27	1	0	0	0	0	0	0	0	1	49	1014	35	4		4	ABCC1	16	16139870	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	298400	16139870	74214883	6467	28818											
ABCC1	4363	broad.mit.edu	37	chr16	16208879	16208879	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgttatcctgctggccacGcccatcgccgccatcatcat	7	10	7	17	4	2	0	2	0	0	0	5	0	3	0	5	1	1	2	5	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:16208879G>A	uc010bvi.2	+	23	3511	c.3336G>A	c.(3334-3336)ACG>ACA	p.T1112T	ABCC1_uc010bvj.2_Silent_p.T1053T|ABCC1_uc010bvk.2_Silent_p.T1056T|ABCC1_uc010bvl.2_Silent_p.T1112T|ABCC1_uc010bvm.2_Silent_p.T997T|ABCC1_uc002del.3_Silent_p.T1006T	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1112	Helical; Name=15.|ABC transmembrane type-1 2.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TGCTGGCCACGCCCATCGCCG	0.562													7	67					0	0	1	0	0		A	16208879	A	A	16208879	2	1	27	1	0	0	0	0	0	0	0	1	49	1074	38	1		1	ABCC1	16	16208879	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	69009	16208879	74145874	6468	28819											
ABCC6	368	broad.mit.edu	37	chr16	16257015	16257015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtagctggctgactccaagCgtctcagctggcatgagcta	9	9	12	11	1	1	2	1	2	1	0	3	2	2	2	1	2	4	6	1	2	3	2	rs63750427		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:16257015C>T	uc002den.3	-	24	3378	c.3341G>A	c.(3340-3342)CGC>CAC	p.R1114H	ABCC6_uc010bvo.2_Intron	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	1114	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).		R -> P (in PXE; autosomal recessive).		response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		TGACTCCAAGCGTCTCAGCTG	0.562													9	42					0	0	1	0	0		T	16257015	T	T	16257015	3	4	27	1	0	0	0	0	1	0	0	0	57	768	27	1	1202	1	ABCC6	16	16257015	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	48136	16257015	74097738	6469	28820											
ABCC6	368	broad.mit.edu	37	chr16	16302603	16302603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctccgggctgcactgcggTtcctcatccactccttttca	5	12	7	17	2	2	0	2	0	0	0	6	0	6	0	5	2	2	3	5	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:16302603T>C	uc002den.3	-	7	813	c.776A>G	c.(775-777)AAC>AGC	p.N259S	ABCC6_uc010bvo.2_RNA|ABCC6_uc010uzz.1_Missense_Mutation_p.N271S	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	259	Cytoplasmic (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		TGCACTGCGGTTCCTCATCCA	0.448													6	60					0	0	1	0	0		C	16302603	C	C	16302603	3	2	27	1	0	0	0	0	1	0	0	0	57	1725	60	3	3835	3	ABCC6	16	16302603	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	45588	16302603	74052150	6470	28821											
XYLT1	64131	broad.mit.edu	37	chr16	17228514	17228514	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggtagttcccgtacaggtAatagtccagctgcccaatga	11	9	11	10	1	0	1	0	1	0	0	2	1	2	1	3	2	3	5	3	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:17228514A>G	uc002dfa.2	-	9	1928	c.1843T>C	c.(1843-1845)TAC>CAC	p.Y615H		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	615	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						CCGTACAGGTAATAGTCCAGC	0.552													14	120					0	0	1	0	0		G	17228514	G	G	17228514	3	3	27	1	0	0	0	0	1	0	0	0	17489	362	13	3	1052	3	XYLT1	16	17228514	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	925911	17228514	73126239	6471	28822											
NOMO2	283820	broad.mit.edu	37	chr16	18542829	18542829	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactgatgccaagaactgtAcaaaggccacatccatcacg	16	6	7	12	1	1	2	1	1	0	1	2	2	2	2	3	1	4	1	3	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:18542829A>G	uc002dfe.2	-	13	1568	c.1496T>C	c.(1495-1497)GTA>GCA	p.V499A	NOMO2_uc002dff.2_Missense_Mutation_p.V499A|NOMO2_uc010bvx.2_Missense_Mutation_p.V332A	NM_001004060	NP_001004060	Q5JPE7	NOMO2_HUMAN	nodal modulator 2 isoform 1	499	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			skin(1)	1						CAAGAACTGTACAAAGGCCAC	0.478													22	209					0	0	1	0	0		G	18542829	G	G	18542829	3	3	27	1	0	0	0	0	1	0	0	0	10551	391	14	3	2391	3	NOMO2	16	18542829	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1314315	18542829	71811924	6472	28823											
ARL6IP1	23204	broad.mit.edu	37	chr16	18806808	18806808	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttaggtttttcttcctttAgtgtgaagaggcgtttccac	6	18	9	8	1	2	2	0	1	2	1	4	2	4	2	2	2	0	2	2	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:18806808A>C	uc002dfl.1	-	4	455	c.386T>G	c.(385-387)CTA>CGA	p.L129R	ARL6IP1_uc010van.1_Missense_Mutation_p.L100R|ARL6IP1_uc010bvz.1_Intron	NM_015161	NP_055976	Q15041	AR6P1_HUMAN	ADP-ribosylation factor-like 6 interacting	129						integral to membrane	protein binding				0						TTCTTCCTTTAGTGTGAAGAG	0.368													8	56					0	0	1	0	0		C	18806808	C	C	18806808	3	2	27	1	0	0	0	0	1	0	0	0	943	420	15	5	237	5	ARL6IP1	16	18806808	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	263979	18806808	71547945	6473	28824											
SMG1	23049	broad.mit.edu	37	chr16	18847478	18847478	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctcgcactggctaatcaAgtgggcctgaccagcattct	8	10	10	13	1	2	1	1	1	1	0	3	1	2	1	2	2	2	4	2	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:18847478A>G	uc002dfm.2	-	48	8197	c.7834T>C	c.(7834-7836)TTG>CTG	p.L2612L	SMG1_uc010bwb.2_Silent_p.L2472L|SMG1_uc010bwa.2_Silent_p.L1343L	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2612					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TGGCTAATCAAGTGGGCCTGA	0.537													5	15					0	0	1	0	0		G	18847478	G	G	18847478	2	3	27	1	0	0	0	0	0	0	0	1	14820	69	3	3		3	SMG1	16	18847478	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	40670	18847478	71507275	6474	28825											
SMG1	23049	broad.mit.edu	37	chr16	18896923	18896923	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaaagaatgcacttaacAcatttacaaagcaattctgg	18	9	5	9	0	1	1	0	0	1	1	1	1	1	1	1	1	4	2	1	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:18896923A>G	uc002dfm.2	-	7	1251	c.888T>C	c.(886-888)TGT>TGC	p.C296C	SMG1_uc010bwb.2_Silent_p.C156C	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	296	Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TGCACTTAACACATTTACAAA	0.388													13	75					0	0	1	0	0		G	18896923	G	G	18896923	2	3	27	1	0	0	0	0	0	0	0	1	14820	157	6	3		3	SMG1	16	18896923	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	49445	18896923	71457830	6475	28826											
ITPRIPL2	162073	broad.mit.edu	37	chr16	19126792	19126792	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcgcgcccctgttggagCtccctgagggcctgcgtgcg	3	7	15	16	4	0	1	0	1	0	0	1	2	1	2	5	2	4	2	5	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:19126792C>A	uc002dfu.3	+	1	1539	c.1009C>A	c.(1009-1011)CTC>ATC	p.L337I	ITPRIPL2_uc002dft.2_Missense_Mutation_p.L33I	NM_001034841	NP_001030013	Q3MIP1	IPIL2_HUMAN	inositol 1,4,5-triphosphate receptor interacting	337	Cytoplasmic (Potential).					integral to membrane				skin(2)	2						CCTGTTGGAGCTCCCTGAGGG	0.657													7	46					0.0293803	0.0298427	1	1	0		A	19126792	A	A	19126792	3	1	27	1	0	0	0	0	1	0	0	0	7941	797	28	5	1011	5	ITPRIPL2	16	19126792	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	229869	19126792	71227961	6476	28827											
ITPRIPL2	162073	broad.mit.edu	37	chr16	19126815	19126815	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgagggcctgcgtgcggaGgcactgtggggtgtgaacac	6	7	18	10	2	0	2	0	2	0	0	0	3	0	3	2	5	3	1	2	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:19126815G>T	uc002dfu.3	+	1	1562	c.1032G>T	c.(1030-1032)GAG>GAT	p.E344D	ITPRIPL2_uc002dft.2_Missense_Mutation_p.E40D	NM_001034841	NP_001030013	Q3MIP1	IPIL2_HUMAN	inositol 1,4,5-triphosphate receptor interacting	344	Cytoplasmic (Potential).					integral to membrane				skin(2)	2						TGCGTGCGGAGGCACTGTGGG	0.662													8	59					0.000157383	0.000166242	1	1	0		T	19126815	T	T	19126815	3	4	27	1	0	0	0	0	1	0	0	0	7941	991	35	5	1034	5	ITPRIPL2	16	19126815	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23	19126815	71227938	6477	28828											
SYT17	51760	broad.mit.edu	37	chr16	19195180	19195180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctcccacgatggctcgcGccaggacatggcgcactcca	8	6	10	17	4	1	0	0	0	1	0	4	2	2	1	3	3	0	2	3	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:19195180G>A	uc002dfw.2	+	5	993	c.662G>A	c.(661-663)CGC>CAC	p.R221H	SYT17_uc002dfx.2_Missense_Mutation_p.R160H|SYT17_uc002dfy.2_Missense_Mutation_p.R217H|SYT17_uc002dfv.1_Missense_Mutation_p.R160H	NM_016524	NP_057608	Q9BSW7	SYT17_HUMAN	B/K protein	221	C2 1.					membrane|synaptic vesicle	transporter activity			ovary(1)	1						GATGGCTCGCGCCAGGACATG	0.612													30	98					0	0	1	0	0		A	19195180	A	A	19195180	3	1	27	1	0	0	0	0	1	0	0	0	15498	1087	38	1	680	1	SYT17	16	19195180	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	68365	19195180	71159573	6478	28829											
CP110	9738	broad.mit.edu	37	chr16	19548587	19548587	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagccagccagtatgttagaGaaaaactgcagtttgcaaac	16	8	9	8	0	0	1	0	0	0	1	0	2	0	1	2	0	6	5	2	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:19548587G>A	uc002dgl.3	+	4	1843	c.1596G>A	c.(1594-1596)GAG>GAA	p.E532E	CP110_uc002dgk.3_Silent_p.E532E			O43303	CP110_HUMAN	RecName: Full=Centrosomal protein of 110 kDa;          Short=Cep110;	532	Interaction with CEP76.				centriole replication|G2/M transition of mitotic cell cycle|regulation of cytokinesis	centriole|cytosol	protein binding				0						GTATGTTAGAGAAAAACTGCA	0.423													6	71					0	0	1	0	0		A	19548587	A	A	19548587	2	1	27	1	0	0	0	0	0	0	0	1	3791	933	33	4		4	CP110	16	19548587	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	353407	19548587	70806166	6479	28830											
C16orf62	57020	broad.mit.edu	37	chr16	19627476	19627476	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatctcaaagaaaccctaaAtaagaacttttttgacttcc	16	12	3	10	0	1	3	1	1	1	2	3	3	2	3	2	0	2	0	2	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:19627476A>G	uc002dgn.1	+	13	1076	c.1064A>G	c.(1063-1065)AAT>AGT	p.N355S	C16orf62_uc002dgo.1_Intron|C16orf62_uc002dgp.1_Missense_Mutation_p.N104S|C16orf62_uc002dgm.1_Missense_Mutation_p.N355S	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	355						integral to membrane				ovary(1)	1						GAAACCCTAAATAAGAACTTT	0.358													8	78					0	0	1	0	0		G	19627476	G	G	19627476	3	3	27	1	0	0	0	0	1	0	0	0	1828	101	4	3	1114	3	C16orf62	16	19627476	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	78889	19627476	70727277	6480	28831											
C16orf62	57020	broad.mit.edu	37	chr16	19628112	19628112	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggatcttccagtgcatCtcctaccatgcccccgaggt	7	10	9	15	1	2	0	0	0	2	0	4	3	3	1	5	2	3	1	5	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:19628112C>A	uc002dgn.1	+	14	1218	c.1206C>A	c.(1204-1206)ATC>ATA	p.I402I	C16orf62_uc002dgo.1_Intron|C16orf62_uc002dgp.1_Silent_p.I151I|C16orf62_uc002dgm.1_Silent_p.I402I	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	402						integral to membrane				ovary(1)	1						TCCAGTGCATCTCCTACCATG	0.582													4	44					1	1	1	1	0		A	19628112	A	A	19628112	2	1	27	1	0	0	0	0	0	0	0	1	1828	903	32	5		5	C16orf62	16	19628112	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	636	19628112	70726641	6481	28832											
C16orf62	57020	broad.mit.edu	37	chr16	19680566	19680566	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaagatgcggccatcggAatcgttccttctggaattcc	8	11	12	10	3	1	1	0	0	1	1	5	4	3	4	3	4	1	1	3	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:19680566A>T	uc002dgn.1	+	27	2318	c.2306A>T	c.(2305-2307)GAA>GTA	p.E769V	C16orf62_uc002dgo.1_Missense_Mutation_p.E676V|C16orf62_uc002dgp.1_Missense_Mutation_p.E518V	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	769						integral to membrane				ovary(1)	1						CGGCCATCGGAATCGTTCCTT	0.428													11	66					0	0	1	0	0		T	19680566	T	T	19680566	3	4	27	1	0	0	0	0	1	0	0	0	1828	246	9	5	2412	5	C16orf62	16	19680566	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	52454	19680566	70674187	6482	28833											
C16orf62	57020	broad.mit.edu	37	chr16	19710844	19710844	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctgaagcgccagagctcGttgggcctttccttctttaa	6	12	10	13	2	1	2	0	1	1	1	3	2	2	2	4	1	2	2	4	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:19710844G>A	uc002dgn.1	+	30	2679	c.2667G>A	c.(2665-2667)TCG>TCA	p.S889S	C16orf62_uc002dgo.1_Silent_p.S796S|C16orf62_uc002dgp.1_Silent_p.S638S	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	889						integral to membrane				ovary(1)	1						GCCAGAGCTCGTTGGGCCTTT	0.527													8	48					0	0	1	0	0		A	19710844	A	A	19710844	2	1	27	1	0	0	0	0	0	0	0	1	1828	1132	40	1		1	C16orf62	16	19710844	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	30278	19710844	70643909	6483	28834											
PDILT	204474	broad.mit.edu	37	chr16	20386160	20386160	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctttttgaacaccaggAcgctgtcaagggtgacgtgg	9	10	12	10	2	1	2	1	2	0	0	1	3	1	3	2	3	2	1	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:20386160A>G	uc002dhc.1	-	5	888	c.665T>C	c.(664-666)GTC>GCC	p.V222A		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	222					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						GAACACCAGGACGCTGTCAAG	0.363													9	102					0	0	1	0	0		G	20386160	G	G	20386160	3	3	27	1	0	0	0	0	1	0	0	0	11693	275	10	3	1121	3	PDILT	16	20386160	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	675316	20386160	69968593	6484	28835											
ERI2	112479	broad.mit.edu	37	chr16	20791987	20791987	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatttttcagtggtaacagTctgtgatgctgtgtttaaca	11	16	9	5	0	2	1	1	1	1	0	2	1	2	1	0	1	3	3	0	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:20791987T>C	uc002dhs.2	-	11	1007	c.964A>G	c.(964-966)ACT>GCT	p.T322A	ACSM3_uc002dhq.2_Intron|ACSM3_uc002dhr.2_Intron|ACSM3_uc010vba.1_Intron	NM_080663	NP_542394	A8K979	ERI2_HUMAN	exoribonuclease 2 isoform 2	Error:Variant_position_missing_in_A8K979_after_alignment						intracellular	exonuclease activity|nucleic acid binding|zinc ion binding			large_intestine(1)	1						GTGGTAACAGTCTGTGATGCT	0.423													3	80					0	0	1	0	0		C	20791987	C	C	20791987	3	2	27	1	0	0	0	0	1	0	0	0	5236	1667	58	3	26	3	ERI2	16	20791987	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	405827	20791987	69562766	6485	28836											
LOC81691	81691	broad.mit.edu	37	chr16	20851156	20851156	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaaggccttttcacctgTcctcactgaggagatgaaca	10	13	8	10	0	2	3	2	2	0	1	3	4	3	3	3	2	1	0	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:20851156T>A	uc002dhv.2	+	14	1726	c.1463T>A	c.(1462-1464)GTC>GAC	p.V488D	ERI2_uc002dht.3_Intron|LOC81691_uc002dhx.2_Missense_Mutation_p.V488D|LOC81691_uc002dhw.2_Missense_Mutation_p.V231D|LOC81691_uc002dhy.3_Missense_Mutation_p.V488D	NM_030941	NP_112203	Q96IC2	REXON_HUMAN	exonuclease NEF-sp isoform 1	488						nucleolus	exonuclease activity|nucleotide binding|RNA binding			ovary(1)|kidney(1)	2						TTTTCACCTGTCCTCACTGAG	0.418													23	198					0	0	1	0	0		A	20851156	A	A	20851156	3	1	27	1	0	0	0	0	1	0	0	0	8908	1667	58	5	1513	5	LOC81691	16	20851156	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	59169	20851156	69503597	6486	28837											
DNAH3	55567	broad.mit.edu	37	chr16	20975196	20975196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcagttcctcgctcttcGtgctgtgggtcaaggaatgc	6	13	12	10	2	3	0	2	0	1	0	6	2	4	1	1	2	2	3	1	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:20975196G>A	uc010vbe.1	-	53	10010	c.10010C>T	c.(10009-10011)ACG>ATG	p.T3337M	DNAH3_uc010vbd.1_Missense_Mutation_p.T772M	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3337					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CTCGCTCTTCGTGCTGTGGGT	0.473													32	99					0	0	1	0	0		A	20975196	A	A	20975196	3	1	27	1	0	0	0	0	1	0	0	0	4609	1145	40	1	2379	1	DNAH3	16	20975196	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	124040	20975196	69379557	6487	28838											
DNAH3	55567	broad.mit.edu	37	chr16	21031117	21031117	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagaaacagtccttggaGccagagaaagatctgttgac	16	7	11	7	0	1	4	0	1	1	3	2	7	2	5	2	1	2	1	2	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:21031117G>A	uc010vbe.1	-	41	5851	c.5851C>T	c.(5851-5853)CTC>TTC	p.L1951F		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1951					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		AGTCCTTGGAGCCAGAGAAAG	0.453													8	70					0	0	1	0	0		A	21031117	A	A	21031117	3	1	27	1	0	0	0	0	1	0	0	0	4609	971	34	2	6586	2	DNAH3	16	21031117	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55921	21031117	69323636	6488	28839											
DNAH3	55567	broad.mit.edu	37	chr16	21061243	21061243	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttacctgcttagccaaGgctttggccaaatctttggt	7	15	9	10	0	1	0	0	0	1	0	1	0	1	0	3	3	4	3	3	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:21061243G>T	uc010vbe.1	-	30	4335	c.4335C>A	c.(4333-4335)GCC>GCA	p.A1445A		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1445	AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GCTTAGCCAAGGCTTTGGCCA	0.532													7	115					2.0095e-06	2.17775e-06	1	1	0		T	21061243	T	T	21061243	2	4	27	1	0	0	0	0	0	0	0	1	4609	987	35	5		5	DNAH3	16	21061243	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	30126	21061243	69293510	6489	28840											
DNAH3	55567	broad.mit.edu	37	chr16	21086796	21086796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatttcacgaagctgaacGtcacgttaacccaatccaac	13	10	6	12	3	2	1	2	1	0	0	3	2	3	1	2	0	4	3	2	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:21086796G>A	uc010vbe.1	-	21	3056	c.3056C>T	c.(3055-3057)ACG>ATG	p.T1019M		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1019	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GAAGCTGAACGTCACGTTAAC	0.448													23	80					0	0	1	0	0		A	21086796	A	A	21086796	3	1	27	1	0	0	0	0	1	0	0	0	4609	1145	40	1	9461	1	DNAH3	16	21086796	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	25553	21086796	69267957	6490	28841											
CRYM	1428	broad.mit.edu	37	chr16	21273385	21273385	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggacatctccagactcCttcagggcagcctcctggga	9	7	11	14	0	2	1	1	0	1	1	5	3	4	3	4	3	2	2	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:21273385C>A	uc002dik.2	-	6	853	c.768G>T	c.(766-768)AAG>AAT	p.K256N	CRYM_uc010bwq.1_RNA|CRYM_uc002dil.2_Missense_Mutation_p.K214N|CRYM_uc002dim.2_Missense_Mutation_p.K256N	NM_001888	NP_001879	Q14894	CRYM_HUMAN	crystallin, mu isoform 1	256					negative regulation of transcription from RNA polymerase II promoter|sensory perception of sound|thyroid hormone transport	cytoplasm|nucleus|plasma membrane	NADP binding|protein homodimerization activity|thyroid hormone binding|transcription corepressor activity				0				GBM - Glioblastoma multiforme(48;0.0573)	Levothyroxine(DB00451)	CTCCAGACTCCTTCAGGGCAG	0.567													6	69					0.217242	0.218248	1	1	0		A	21273385	A	A	21273385	3	1	27	1	0	0	0	0	1	0	0	0	3924	680	24	5	188	5	CRYM	16	21273385	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	186589	21273385	69081368	6491	28842											
METTL9	51108	broad.mit.edu	37	chr16	21624098	21624098	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggctatttatccaattaTatcattcttttgtgtcatct	8	20	5	8	0	4	0	2	0	2	0	5	0	5	0	1	1	0	2	1	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:21624098T>C	uc002dje.2	+	2	497	c.298T>C	c.(298-300)TAT>CAT	p.Y100H	uc002diq.3_Intron|METTL9_uc002djf.2_Missense_Mutation_p.Y100H	NM_016025	NP_057109	Q9H1A3	METL9_HUMAN	methyltransferase like 9 isoform 1	100										ovary(1)	1				GBM - Glioblastoma multiforme(48;0.0759)		TATCCAATTATATCATTCTTT	0.353													4	53					0	0	1	0	0		C	21624098	C	C	21624098	3	2	27	1	0	0	0	0	1	0	0	0	9526	1406	49	3	304	3	METTL9	16	21624098	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	350713	21624098	68730655	6492	28843											
POLR3E	55718	broad.mit.edu	37	chr16	22335840	22335840	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctctgcgccgaggatgTgaaggacttcctggagcaca	9	7	13	12	2	1	1	0	1	1	0	2	5	2	4	3	3	3	2	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:22335840T>C	uc002dkk.2	+	16	1301	c.1145T>C	c.(1144-1146)GTG>GCG	p.V382A	POLR3E_uc002dkj.1_Missense_Mutation_p.V382A|POLR3E_uc002dkm.2_Missense_Mutation_p.V346A|POLR3E_uc010vbr.1_Missense_Mutation_p.V382A|POLR3E_uc002dkl.2_Missense_Mutation_p.V382A|POLR3E_uc010vbs.1_Missense_Mutation_p.V346A|POLR3E_uc010vbt.1_Missense_Mutation_p.V326A	NM_018119	NP_060589	Q9NVU0	RPC5_HUMAN	RNA polymerase III polypeptide E	382					innate immune response|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA-directed RNA polymerase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.012)		GCCGAGGATGTGAAGGACTTC	0.612													12	121					0	0	1	0	0		C	22335840	C	C	22335840	3	2	27	1	0	0	0	0	1	0	0	0	12251	1696	59	3	1203	3	POLR3E	16	22335840	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	711742	22335840	68018913	6493	28844											
HS3ST2	9956	broad.mit.edu	37	chr16	22826303	22826303	+	Frame_Shift_Del	DEL	G	-	-																															ctcattgtgggcgtgaagaaGgggggcacccgggccgtgct																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:22826303delG	uc002dli.2	+	1	444	c.372delG	c.(370-372)AAGfs	p.K124fs	HS3ST2_uc002dlj.2_RNA	NM_006043	NP_006034	Q9Y278	HS3S2_HUMAN	heparan sulfate D-glucosaminyl	124	PAPS and substrate (By similarity).|Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 2 activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(48;0.0299)		GCGTGAAGAAGGGGGGCACCC	0.602													13	16	---	---	---	---						.	-	22826303	-	-	22826303	7	5	27	1	0	1	0	1	0	0	0	0	7380	991	35	0	374	0	HS3ST2	16	22826303	Frame_Shift_Del	DEL	G	TCGA-BR-6452-01A-12D-1800-08	490463	22826303	67528450	6494	28845											
HS3ST2	9956	broad.mit.edu	37	chr16	22926539	22926539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccgcatcggcatgtacGtgctgcacctggagagctgg	7	8	13	13	3	0	1	0	0	0	1	2	2	1	1	3	3	4	6	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:22926539G>A	uc002dli.2	+	2	832	c.760G>A	c.(760-762)GTG>ATG	p.V254M	HS3ST2_uc002dlj.2_RNA	NM_006043	NP_006034	Q9Y278	HS3S2_HUMAN	heparan sulfate D-glucosaminyl	254	Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 2 activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(48;0.0299)		CGGCATGTACGTGCTGCACCT	0.632													34	89					0	0	1	0	0		A	22926539	A	A	22926539	3	1	27	1	0	0	0	0	1	0	0	0	7380	1145	40	1	766	1	HS3ST2	16	22926539	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	100236	22926539	67428214	6495	28846											
USP31	57478	broad.mit.edu	37	chr16	23079803	23079803	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccagacttgatgcttgtgCtgggggagcgcaggctggcc	7	8	16	10	1	0	2	0	1	0	1	0	3	0	3	2	4	4	4	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:23079803C>A	uc002dll.2	-	16	3623	c.3623G>T	c.(3622-3624)AGC>ATC	p.S1208I	USP31_uc002dlk.2_Missense_Mutation_p.S480I|USP31_uc010vca.1_Missense_Mutation_p.S511I|USP31_uc010bxm.2_Missense_Mutation_p.S496I	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	1208	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		GATGCTTGTGCTGGGGGAGCG	0.627													16	136					1.02788e-11	1.141e-11	1	1	0		A	23079803	A	A	23079803	3	1	27	1	0	0	0	0	1	0	0	0	17088	797	28	5	439	5	USP31	16	23079803	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	153264	23079803	67274950	6496	28847											
USP31	57478	broad.mit.edu	37	chr16	23079919	23079919	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtttggaggtggaggtggcGctggctctgtcagaacccaa	7	9	17	8	1	2	1	1	0	1	1	2	3	2	3	1	7	1	3	1	7	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:23079919G>A	uc002dll.2	-	16	3507	c.3507C>T	c.(3505-3507)AGC>AGT	p.S1169S	USP31_uc002dlk.2_Silent_p.S441S|USP31_uc010vca.1_Silent_p.S472S|USP31_uc010bxm.2_Silent_p.S457S	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	1169	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		TGGAGGTGGCGCTGGCTCTGT	0.642													10	69					0	0	1	0	0		A	23079919	A	A	23079919	2	1	27	1	0	0	0	0	0	0	0	1	17088	1078	38	1		1	USP31	16	23079919	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	116	23079919	67274834	6497	28848											
USP31	57478	broad.mit.edu	37	chr16	23080308	23080308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaggctggtctccccttccGcaagcttttctctggctcag	5	12	9	15	1	3	0	1	0	2	0	6	0	4	0	3	3	1	4	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:23080308G>A	uc002dll.2	-	16	3118	c.3118C>T	c.(3118-3120)CGG>TGG	p.R1040W	USP31_uc002dlk.2_Missense_Mutation_p.R312W|USP31_uc010vca.1_Missense_Mutation_p.R343W|USP31_uc010bxm.2_Missense_Mutation_p.R328W	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	1040	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		CTCCCCTTCCGCAAGCTTTTC	0.542													6	126					0	0	1	0	0		A	23080308	A	A	23080308	3	1	27	1	0	0	0	0	1	0	0	0	17088	1086	38	1	944	1	USP31	16	23080308	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	389	23080308	67274445	6498	28849											
SCNN1G	6340	broad.mit.edu	37	chr16	23208672	23208672	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggtgatcatccatcggcAggatgagtatcccttcgtcg	9	11	11	10	3	1	2	1	2	0	0	6	3	3	3	2	3	0	2	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:23208672A>G	uc002dlm.1	+	6	1140	c.1001A>G	c.(1000-1002)CAG>CGG	p.Q334R		NM_001039	NP_001030	P51170	SCNNG_HUMAN	sodium channel, nonvoltage-gated 1, gamma	334	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane|integral to plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(48;0.0366)	Amiloride(DB00594)|Triamterene(DB00384)	ATCCATCGGCAGGATGAGTAT	0.463													6	67					0	0	1	0	0		G	23208672	G	G	23208672	3	3	27	1	0	0	0	0	1	0	0	0	13955	188	7	3	1019	3	SCNN1G	16	23208672	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	128364	23208672	67146081	6499	28850											
SCNN1G	6340	broad.mit.edu	37	chr16	23223385	23223385	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcatgcttccagacaaagAtggtggagaaatgtgggtgt	12	11	13	5	0	1	3	1	0	0	3	2	4	2	3	1	3	1	1	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:23223385A>G	uc002dlm.1	+	8	1346	c.1207A>G	c.(1207-1209)ATG>GTG	p.M403V		NM_001039	NP_001030	P51170	SCNNG_HUMAN	sodium channel, nonvoltage-gated 1, gamma	403	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane|integral to plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(48;0.0366)	Amiloride(DB00594)|Triamterene(DB00384)	CCAGACAAAGATGGTGGAGAA	0.532													8	85					0	0	1	0	0		G	23223385	G	G	23223385	3	3	27	1	0	0	0	0	1	0	0	0	13955	333	12	3	1233	3	SCNN1G	16	23223385	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14713	23223385	67131368	6500	28851											
SCNN1B	6338	broad.mit.edu	37	chr16	23366710	23366710	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcctgcaggccaccaacAtctttgcacaggtgccacag	11	7	8	15	0	1	0	0	0	1	0	2	0	2	0	4	2	4	2	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:23366710A>G	uc002dln.2	+	4	852	c.676A>G	c.(676-678)ATC>GTC	p.I226V		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	226	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	GGCCACCAACATCTTTGCACA	0.577													7	64					0	0	1	0	0		G	23366710	G	G	23366710	3	3	27	1	0	0	0	0	1	0	0	0	13953	217	8	3	686	3	SCNN1B	16	23366710	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	143325	23366710	66988043	6501	28852											
SCNN1B	6338	broad.mit.edu	37	chr16	23383173	23383173	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtccccgtccaaaacttctAcagtgactacaacacgacct	12	8	6	15	2	1	1	0	1	1	0	3	2	3	1	4	1	4	0	4	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:23383173A>G	uc002dln.2	+	7	1297	c.1121A>G	c.(1120-1122)TAC>TGC	p.Y374C		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	374	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	CAAAACTTCTACAGTGACTAC	0.597													6	72					0	0	1	0	0		G	23383173	G	G	23383173	3	3	27	1	0	0	0	0	1	0	0	0	13953	391	14	3	1143	3	SCNN1B	16	23383173	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	16463	23383173	66971580	6502	28853											
COG7	91949	broad.mit.edu	37	chr16	23453914	23453914	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctggtgtatcaacaagcAtcattaagctgttctgcata	12	13	8	8	0	4	0	2	0	2	0	4	0	4	0	0	1	4	5	0	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:23453914A>G	uc002dlo.2	-	4	676	c.488T>C	c.(487-489)ATG>ACG	p.M163T		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	163					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		ATCAACAAGCATCATTAAGCT	0.438													6	149					0	0	1	0	0		G	23453914	G	G	23453914	3	3	27	1	0	0	0	0	1	0	0	0	3666	217	8	3	1880	3	COG7	16	23453914	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	70741	23453914	66900839	6503	28854											
NDUFAB1	4706	broad.mit.edu	37	chr16	23607444	23607444	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagtcaccacgagtcacCtgcgcgagcactaaggccgg	11	4	12	14	4	2	0	2	0	0	0	2	2	2	0	3	2	2	2	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:23607444C>A	uc002dlw.2	-	1	196	c.168G>T	c.(166-168)CAG>CAT	p.Q56H		NM_005003	NP_004994	O14561	ACPM_HUMAN	NADH dehydrogenase (ubiquinone) 1, alpha/beta	56					fatty acid biosynthetic process|mitochondrial electron transport, NADH to ubiquinone	mitochondrial matrix|mitochondrial respiratory chain complex I	acyl carrier activity|calcium ion binding|cofactor binding|fatty acid binding|NADH dehydrogenase (ubiquinone) activity|phosphopantetheine binding				0				GBM - Glioblastoma multiforme(48;0.0339)	NADH(DB00157)	CACGAGTCACCTGCGCGAGCA	0.721													7	29					0.00448238	0.00462772	1	1	0		A	23607444	A	A	23607444	3	1	27	1	0	0	0	0	1	0	0	0	10292	695	24	5	318	5	NDUFAB1	16	23607444	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	153530	23607444	66747309	6504	28855											
PRKCB	5579	broad.mit.edu	37	chr16	24192144	24192144	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaacgtgatgctcgattcTgagggacacatcaagattgc	12	9	11	9	2	2	3	1	2	1	1	3	6	2	4	0	1	3	1	0	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:24192144T>C	uc002dmd.2	+	13	1625	c.1428T>C	c.(1426-1428)TCT>TCC	p.S476S	PRKCB_uc002dme.2_Silent_p.S476S	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	476	Protein kinase.				apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	TGCTCGATTCTGAGGGACACA	0.438													25	73					0	0	1	0	0		C	24192144	C	C	24192144	2	2	27	1	0	0	0	0	0	0	0	1	12530	1567	55	3		3	PRKCB	16	24192144	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	584700	24192144	66162609	6505	28856											
RBBP6	5930	broad.mit.edu	37	chr16	24578545	24578545	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagcaactccagtctttgtAcctgttccaccacctccttt	7	13	4	17	0	1	0	0	0	1	0	4	0	4	0	7	0	3	3	7	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:24578545A>T	uc002dmh.2	+	15	2711	c.1671A>T	c.(1669-1671)GTA>GTT	p.V557V	RBBP6_uc010vcb.1_Silent_p.V424V|RBBP6_uc002dmi.2_Silent_p.V557V|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Silent_p.V424V	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	557					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		CAGTCTTTGTAcctgttccac	0.254													6	82					0	0	1	0	0		T	24578545	T	T	24578545	2	4	27	1	0	0	0	0	0	0	0	1	13128	378	14	5		5	RBBP6	16	24578545	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	386401	24578545	65776208	6506	28857											
RBBP6	5930	broad.mit.edu	37	chr16	24581095	24581095	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatgatggatctgctgtGtccaaaaaagaaaatattgt	17	11	9	4	0	1	3	0	1	1	2	2	4	2	4	1	1	1	1	1	1	8	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:24581095G>A	uc002dmh.2	+	17	4124	c.3084G>A	c.(3082-3084)GTG>GTA	p.V1028V	RBBP6_uc010vcb.1_Silent_p.V895V|RBBP6_uc002dmi.2_Silent_p.V994V|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Silent_p.V861V	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1028	Interaction with RB1 (By similarity).				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		GATCTGCTGTGTCCAAAAAAG	0.373													25	80					0	0	1	0	0		A	24581095	A	A	24581095	2	1	27	1	0	0	0	0	0	0	0	1	13128	1364	48	4		4	RBBP6	16	24581095	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2550	24581095	65773658	6507	28858											
TNRC6A	27327	broad.mit.edu	37	chr16	24802947	24802947	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaccatccccagaatctaTacgtcgcaaaatggagattg	14	8	9	10	2	1	2	0	0	1	2	3	4	2	3	3	2	2	1	3	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:24802947T>C	uc002dmm.2	+	6	3098	c.2984T>C	c.(2983-2985)ATA>ACA	p.I995T	TNRC6A_uc010bxs.2_Missense_Mutation_p.I742T|TNRC6A_uc010vcc.1_Missense_Mutation_p.I742T|TNRC6A_uc002dmn.2_Missense_Mutation_p.I742T|TNRC6A_uc002dmo.2_Missense_Mutation_p.I742T	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	995	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		CCAGAATCTATACGTCGCAAA	0.483													4	54					0	0	1	0	0		C	24802947	C	C	24802947	3	2	27	1	0	0	0	0	1	0	0	0	16365	1406	49	3	3006	3	TNRC6A	16	24802947	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	221852	24802947	65551806	6508	28859											
SLC5A11	115584	broad.mit.edu	37	chr16	24919375	24919375	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcttcatctatatccagTccatcagctcctacctgcag	9	12	5	15	0	4	0	2	0	2	0	7	0	7	0	4	0	4	3	4	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:24919375T>G	uc002dmu.2	+	13	1589	c.1357T>G	c.(1357-1359)TCC>GCC	p.S453A	SLC5A11_uc002dms.2_Missense_Mutation_p.S389A|SLC5A11_uc010vcd.1_Missense_Mutation_p.S418A|SLC5A11_uc002dmt.2_Missense_Mutation_p.S297A|SLC5A11_uc010vce.1_Missense_Mutation_p.S383A|SLC5A11_uc010bxt.2_Missense_Mutation_p.S389A|SLC5A11_uc002dmv.2_Missense_Mutation_p.S76A	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	453	Helical; (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		CTATATCCAGTCCATCAGCTC	0.582													26	150					0	0	1	0	0		G	24919375	G	G	24919375	3	3	27	1	0	0	0	0	1	0	0	0	14688	1667	58	5	1403	5	SLC5A11	16	24919375	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	116428	24919375	65435378	6509	28860											
SLC5A11	115584	broad.mit.edu	37	chr16	24922695	24922695	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtggtgaaggccatcctgtgGctctgtggaatacaggagaa	10	9	15	7	0	1	2	0	1	1	1	2	4	2	3	2	5	1	1	2	5	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:24922695G>A	uc002dmu.2	+	16	2101	c.1869G>A	c.(1867-1869)TGG>TGA	p.W623*	SLC5A11_uc002dms.2_Nonsense_Mutation_p.W559*|SLC5A11_uc010vcd.1_Nonsense_Mutation_p.W588*|SLC5A11_uc002dmt.2_Nonsense_Mutation_p.W467*|SLC5A11_uc010vce.1_Nonsense_Mutation_p.W553*|SLC5A11_uc010bxt.2_Nonsense_Mutation_p.W559*|SLC5A11_uc002dmv.2_Nonsense_Mutation_p.W246*	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	623	Cytoplasmic (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		CCATCCTGTGGCTCTGTGGAA	0.537													15	171					0	0	1	0	0		A	24922695	A	A	24922695	4	1	27	1	0	0	0	0	0	1	0	0	14688	1212	42	2	1927	2	SLC5A11	16	24922695	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3320	24922695	65432058	6510	28861											
ARHGAP17	55114	broad.mit.edu	37	chr16	24950789	24950789	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctctggggagggggctcTgggccagcgggcaccacggt	5	5	20	11	2	2	0	0	0	2	0	2	2	2	1	2	7	2	3	2	7	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:24950789T>C	uc002dnb.2	-	17	1713	c.1620A>G	c.(1618-1620)CCA>CCG	p.P540P	ARHGAP17_uc002dmy.2_5'Flank|ARHGAP17_uc002dmz.2_Silent_p.P64P|ARHGAP17_uc002dna.2_Silent_p.P267P|ARHGAP17_uc002dnc.2_Intron|ARHGAP17_uc010vcf.1_Intron	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	540	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		GAGGGGGCTCTGGGCCAGCGG	0.677													3	33					0	0	1	0	0		C	24950789	C	C	24950789	2	2	27	1	0	0	0	0	0	0	0	1	867	1567	55	3		3	ARHGAP17	16	24950789	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	28094	24950789	65403964	6511	28862											
ARHGAP17	55114	broad.mit.edu	37	chr16	24955129	24955129	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcggcatgctgaatgatgggTtcaatcactgcaaccacatg	11	10	10	10	1	2	2	2	2	0	0	3	2	2	2	1	2	3	4	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:24955129T>C	uc002dnb.2	-	15	1389	c.1296A>G	c.(1294-1296)GAA>GAG	p.E432E	ARHGAP17_uc002dna.2_Silent_p.E159E|ARHGAP17_uc002dnc.2_Silent_p.E432E|ARHGAP17_uc010vcf.1_Silent_p.E253E	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	432	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		GAATGATGGGTTCAATCACTG	0.433													10	86					0	0	1	0	0		C	24955129	C	C	24955129	2	2	27	1	0	0	0	0	0	0	0	1	867	1722	60	3		3	ARHGAP17	16	24955129	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4340	24955129	65399624	6512	28863											
IL4R	3566	broad.mit.edu	37	chr16	27374122	27374122	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagtccagacaacctgacTtgcacagagacgcccctcgt	11	6	9	15	2	0	4	0	1	0	3	2	5	1	4	4	0	2	1	4	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:27374122T>G	uc002don.2	+	11	1691	c.1449T>G	c.(1447-1449)ACT>ACG	p.T483T	IL4R_uc002dop.3_Silent_p.T468T|IL4R_uc010bxy.2_Silent_p.T483T|IL4R_uc002doo.2_Silent_p.T323T	NM_000418	NP_000409	P24394	IL4RA_HUMAN	interleukin 4 receptor alpha chain isoform a	483	Cytoplasmic (Potential).|Required for IRS1 activation and IL4- induced cell growth.				immune response|production of molecular mediator involved in inflammatory response	integral to plasma membrane	identical protein binding|interleukin-4 receptor activity|receptor signaling protein activity			ovary(1)|skin(1)	2						ACAACCTGACTTGCACAGAGA	0.647													26	60					0	0	1	0	0		G	27374122	G	G	27374122	2	3	27	1	0	0	0	0	0	0	0	1	7714	1596	56	5		5	IL4R	16	27374122	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2418993	27374122	62980631	6513	28864											
IL21R	50615	broad.mit.edu	37	chr16	27454346	27454346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagtataatatctcctggcGctcagattacgaagaccctg	12	10	8	11	2	2	2	1	0	1	2	3	3	2	2	2	1	1	2	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:27454346G>A	uc002doq.1	+	5	649	c.416G>A	c.(415-417)CGC>CAC	p.R139H	IL21R_uc002dor.1_Missense_Mutation_p.R139H|IL21R_uc002dos.1_Missense_Mutation_p.R139H	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	139	Extracellular (Potential).|Fibronectin type-III.				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						ATCTCCTGGCGCTCAGATTAC	0.527			T	BCL6	NHL								20	99					0	0	1	0	0		A	27454346	A	A	27454346	3	1	27	1	0	0	0	0	1	0	0	0	7687	1087	38	1	430	1	IL21R	16	27454346	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	80224	27454346	62900407	6514	28865											
GTF3C1	2975	broad.mit.edu	37	chr16	27499693	27499693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccagccagcacagagctcGgagcctactcttgcttcccc	7	8	8	18	1	1	1	0	0	1	1	4	2	3	2	5	1	6	3	5	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:27499693G>A	uc002dov.1	-	23	3595	c.3555C>T	c.(3553-3555)TCC>TCT	p.S1185S	GTF3C1_uc002dou.2_Silent_p.S1185S	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1185						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CACAGAGCTCGGAGCCTACTC	0.562													9	140					0	0	1	0	0		A	27499693	A	A	27499693	2	1	27	1	0	0	0	0	0	0	0	1	6888	1103	39	1		1	GTF3C1	16	27499693	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	45347	27499693	62855060	6515	28866											
KIAA0556	23247	broad.mit.edu	37	chr16	27689178	27689178	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagaggacccggcactggtGggccatcccagacatgaccg	9	4	13	15	2	0	3	0	1	0	2	1	4	1	4	5	4	0	1	5	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:27689178G>A	uc002dow.2	+	7	693	c.669G>A	c.(667-669)GTG>GTA	p.V223V	KIAA0556_uc002dox.1_Silent_p.V131V	NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	223										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						CGGCACTGGTGGGCCATCCCA	0.532													8	60					0	0	1	0	0		A	27689178	A	A	27689178	2	1	27	1	0	0	0	0	0	0	0	1	8199	1335	47	4		4	KIAA0556	16	27689178	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	189485	27689178	62665575	6516	28867											
KIAA0556	23247	broad.mit.edu	37	chr16	27761012	27761012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccttcgaccgctcccacCggggacgcatctccaacacg	7	6	10	18	5	1	0	0	0	1	0	4	2	2	1	5	2	2	2	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:27761012C>T	uc002dow.2	+	16	2755	c.2731C>T	c.(2731-2733)CGG>TGG	p.R911W		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	911										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						CCGCTCCCACCGGGGACGCAT	0.642													8	57					0	0	1	0	0		T	27761012	T	T	27761012	3	4	27	1	0	0	0	0	1	0	0	0	8199	643	23	1	2793	1	KIAA0556	16	27761012	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	71834	27761012	62593741	6517	28868											
SULT1A2	6799	broad.mit.edu	37	chr16	28604874	28604874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccacatcctttgcgttgcGggcaacatagaccacctgca	9	8	9	15	3	0	1	0	0	0	1	1	1	1	1	4	1	4	3	4	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:28604874G>A	uc002dqg.1	-	5	739	c.388C>T	c.(388-390)CGC>TGC	p.R130C	uc010vct.1_Intron|SULT1A2_uc002dqh.1_Missense_Mutation_p.R130C	NM_177528	NP_803564	P50226	ST1A2_HUMAN	sulfotransferase family, cytosolic, 1A,	130	PAPS (By similarity).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine biosynthetic process|catecholamine metabolic process|steroid metabolic process|sulfation|xenobiotic metabolic process	cytosol	aryl sulfotransferase activity|flavonol 3-sulfotransferase activity				0						TTTGCGTTGCGGGCAACATAG	0.527													16	66					0	0	1	0	0		A	28604874	A	A	28604874	3	1	27	1	0	0	0	0	1	0	0	0	15398	1116	39	1	515	1	SULT1A2	16	28604874	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	843862	28604874	61749879	6518	28869											
ATXN2L	11273	broad.mit.edu	37	chr16	28844210	28844210	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttggggcccagtttaaggTgagagaagagtgagctggga	10	9	18	4	0	0	4	0	2	0	2	0	6	0	5	1	4	1	3	1	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:28844210T>C	uc002drc.2	+	13	1827	c.1659_splice	c.e13+2	p.K553_splice	uc010vct.1_Intron|ATXN2L_uc010byl.1_Splice_Site_p.K529_splice|ATXN2L_uc002drb.2_Splice_Site_p.K553_splice|ATXN2L_uc002dqy.2_Splice_Site_p.K553_splice|ATXN2L_uc002dra.2_Splice_Site_p.K553_splice|ATXN2L_uc002dqz.2_Splice_Site_p.K553_splice|ATXN2L_uc010vdb.1_Splice_Site_p.K559_splice|ATXN2L_uc002dre.2_Splice_Site_p.K553_splice|ATXN2L_uc002drf.2_Intron|ATXN2L_uc002drg.2_5'Flank	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A							membrane				upper_aerodigestive_tract(1)|ovary(1)	2						CAGTTTAAGGTGAGAGAAGAG	0.433													4	44					0	0	1	0	0		C	28844210	C	C	28844210	5	2	27	1	0	0	0	0	0	0	1	0	1213	1710	59	3	1711	3	ATXN2L	16	28844210	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	239336	28844210	61510543	6519	28870											
ATXN2L	11273	broad.mit.edu	37	chr16	28844557	28844557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggaggacaaaccacccctgGcaccatcaggaggcactgag	13	3	12	13	0	1	1	1	1	0	0	1	4	1	4	4	5	1	2	4	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:28844557G>A	uc002drc.2	+	14	2005	c.1837G>A	c.(1837-1839)GCA>ACA	p.A613T	uc010vct.1_Intron|ATXN2L_uc010byl.1_Missense_Mutation_p.A589T|ATXN2L_uc002drb.2_Missense_Mutation_p.A613T|ATXN2L_uc002dqy.2_Missense_Mutation_p.A613T|ATXN2L_uc002dra.2_Missense_Mutation_p.A613T|ATXN2L_uc002dqz.2_Missense_Mutation_p.A613T|ATXN2L_uc010vdb.1_Missense_Mutation_p.A619T|ATXN2L_uc002dre.2_Missense_Mutation_p.A613T|ATXN2L_uc002drf.2_Missense_Mutation_p.A22T|ATXN2L_uc002drg.2_5'Flank	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	613						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						ACCACCCCTGGCACCATCAGG	0.592													17	74					0	0	1	0	0		A	28844557	A	A	28844557	3	1	27	1	0	0	0	0	1	0	0	0	1213	1203	42	2	1891	2	ATXN2L	16	28844557	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	347	28844557	61510196	6520	28871											
ATXN2L	11273	broad.mit.edu	37	chr16	28845679	28845679	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccaggcacctcagatgtatCcatatcctgtatccaattca	11	11	5	14	0	2	1	2	0	0	1	5	1	5	1	5	1	0	3	5	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:28845679C>A	uc002drc.2	+	17	2356	c.2188C>A	c.(2188-2190)CCA>ACA	p.P730T	uc010vct.1_Intron|ATXN2L_uc002drb.2_Missense_Mutation_p.P730T|ATXN2L_uc002dqy.2_Missense_Mutation_p.P730T|ATXN2L_uc002dra.2_Missense_Mutation_p.P730T|ATXN2L_uc002dqz.2_Missense_Mutation_p.P730T|ATXN2L_uc010vdb.1_Missense_Mutation_p.P736T|ATXN2L_uc002dre.2_Missense_Mutation_p.P730T|ATXN2L_uc002drf.2_Missense_Mutation_p.P139T|ATXN2L_uc002drg.2_Missense_Mutation_p.P12T	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	730						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						TCAGATGTATCCATATCCTGT	0.612													8	100					1.12685e-05	1.21022e-05	1	1	0		A	28845679	A	A	28845679	3	1	27	1	0	0	0	0	1	0	0	0	1213	855	30	5	2254	5	ATXN2L	16	28845679	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1122	28845679	61509074	6521	28872											
SH2B1	25970	broad.mit.edu	37	chr16	28883270	28883270	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcatcccctctcagccccCtaccctcccttggacactcc	5	10	4	22	0	2	0	2	0	1	0	6	1	5	1	7	1	2	1	7	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:28883270C>T	uc002dri.2	+	8	1918	c.1479C>T	c.(1477-1479)CCC>CCT	p.P493P	uc010vct.1_Intron|SH2B1_uc010vdc.1_Silent_p.P183P|SH2B1_uc002drj.2_Silent_p.P493P|SH2B1_uc002drk.2_Silent_p.P493P|SH2B1_uc002drl.2_Silent_p.P493P|SH2B1_uc010vdd.1_Silent_p.P157P|SH2B1_uc010vde.1_Silent_p.P493P|SH2B1_uc002drm.2_Silent_p.P493P	NM_001145795	NP_001139267	Q9NRF2	SH2B1_HUMAN	SH2B adaptor protein 1 isoform 1	493	Interaction with JAK2 (low-affinity binding; independent of JAK2 phosphorylation) (By similarity).				blood coagulation|intracellular signal transduction	cytosol|membrane|nucleus	signal transducer activity			ovary(2)	2						TCTCAGCCCCCTACCCTCCCT	0.612													3	39					0	0	1	0	0		T	28883270	T	T	28883270	2	4	27	1	0	0	0	0	0	0	0	1	14252	668	24	4		4	SH2B1	16	28883270	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37591	28883270	61471483	6522	28873											
RABEP2	79874	broad.mit.edu	37	chr16	28916347	28916347	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccagggtctcagcctggcGgatccgctctaggcgcacct	5	8	12	16	3	2	0	1	0	2	0	5	1	4	1	4	4	1	2	4	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:28916347G>A	uc002drq.2	-	13	1675	c.1627C>T	c.(1627-1629)CGC>TGC	p.R543C	uc010vct.1_Intron|RABEP2_uc010vdf.1_Missense_Mutation_p.R472C|RABEP2_uc010byn.2_Missense_Mutation_p.R507C	NM_024816	NP_079092	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	543					endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3						TCAGCCTGGCGGATCCGCTCT	0.662													8	30					0	0	1	0	0		A	28916347	A	A	28916347	3	1	27	1	0	0	0	0	1	0	0	0	12987	1116	39	1	86	1	RABEP2	16	28916347	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	33077	28916347	61438406	6523	28874											
RABEP2	79874	broad.mit.edu	37	chr16	28931258	28931258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggcttcatagctgctgAtggagtctggtgggggagag	6	11	18	6	0	3	2	1	1	2	1	3	4	3	3	0	5	2	3	0	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:28931258A>G	uc002drq.2	-	3	329	c.281T>C	c.(280-282)ATC>ACC	p.I94T	uc010vct.1_Intron|RABEP2_uc010vdf.1_Missense_Mutation_p.I23T|RABEP2_uc010byn.2_Missense_Mutation_p.I94T|RABEP2_uc002drr.2_Missense_Mutation_p.I94T	NM_024816	NP_079092	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	94	Potential.				endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3						ATAGCTGCTGATGGAGTCTGG	0.517													6	25					0	0	1	0	0		G	28931258	G	G	28931258	3	3	27	1	0	0	0	0	1	0	0	0	12987	333	12	3	1472	3	RABEP2	16	28931258	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14911	28931258	61423495	6524	28875											
SPNS1	83985	broad.mit.edu	37	chr16	28995608	28995608	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgcgtgcccgtggccagTgtgctcatctgagaggctgc	5	8	14	14	3	2	1	1	1	1	1	2	2	2	1	3	2	3	2	3	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:28995608T>C	uc010vdi.1	+	13	1715	c.1575T>C	c.(1573-1575)AGT>AGC	p.S525S	uc010vct.1_Intron|SPNS1_uc002drx.2_Silent_p.S452S|SPNS1_uc002dsa.2_Silent_p.S525S|SPNS1_uc002drz.2_Silent_p.S473S|SPNS1_uc010byp.2_Silent_p.S451S|SPNS1_uc010byq.1_Missense_Mutation_p.V400A|LAT_uc010vdj.1_5'Flank|LAT_uc002dsb.2_5'Flank|LAT_uc002dsd.2_5'Flank|LAT_uc002dsc.2_5'Flank|LAT_uc010vdk.1_5'Flank|LAT_uc010vdl.1_5'Flank	NM_001142448	NP_001135920	Q9H2V7	SPNS1_HUMAN	spinster homolog 1 isoform 1	525					lipid transport|transmembrane transport	integral to membrane|mitochondrial inner membrane	protein binding				0						CCGTGGCCAGTGTGCTCATCT	0.701													6	27					0	0	1	0	0		C	28995608	C	C	28995608	2	2	27	1	0	0	0	0	0	0	0	1	15099	1693	59	3		3	SPNS1	16	28995608	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	64350	28995608	61359145	6525	28876											
PRRT2	112476	broad.mit.edu	37	chr16	29825671	29825671	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtcccggaacagcctgcaGcagggggacgtggacggggc	8	3	18	12	3	0	0	0	0	0	0	1	3	1	3	2	6	4	2	2	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:29825671G>A	uc002due.3	+	3	1198	c.897G>A	c.(895-897)CAG>CAA	p.Q299Q	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|uc002duc.1_5'Flank|PRRT2_uc002dud.2_Silent_p.Q299Q|PRRT2_uc002duf.1_3'UTR|C16orf53_uc002dug.3_5'Flank	NM_145239	NP_660282	Q7Z6L0	PRRT2_HUMAN	proline-rich transmembrane protein 2	299	Cytoplasmic (Potential).				response to biotic stimulus	integral to membrane					0						ACAGCCTGCAGCAGGGGGACG	0.652													12	127					0	0	1	0	0		A	29825671	A	A	29825671	2	1	27	1	0	0	0	0	0	0	0	1	12632	962	34	2		2	PRRT2	16	29825671	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	830063	29825671	60529082	6526	28877											
SEZ6L2	26470	broad.mit.edu	37	chr16	29891331	29891331	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcgatactcagggtccgtgGtagtgacatttccatgtgcc	7	11	13	10	2	1	1	1	1	0	0	3	2	3	1	3	3	2	1	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:29891331G>T	uc002duq.3	-	9	1667	c.1427C>A	c.(1426-1428)ACC>AAC	p.T476N	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.T406N|SEZ6L2_uc002dur.3_Missense_Mutation_p.T406N|SEZ6L2_uc002dus.3_Missense_Mutation_p.T362N|SEZ6L2_uc010vec.1_Missense_Mutation_p.T476N|SEZ6L2_uc010ved.1_Missense_Mutation_p.T432N	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	476	Sushi 2.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						AGGGTCCGTGGTAGTGACATT	0.582													15	55					1.05317e-09	1.16272e-09	1	1	0		T	29891331	T	T	29891331	3	4	27	1	0	0	0	0	1	0	0	0	14169	1261	44	5	1384	5	SEZ6L2	16	29891331	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	65660	29891331	60463422	6527	28878											
TAOK2	9344	broad.mit.edu	37	chr16	29990778	29990778	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccatggatgaggggcagTacgatggcaaagtggacgtc	10	7	17	7	2	0	1	0	1	0	0	1	4	0	3	1	6	1	3	1	6	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:29990778T>C	uc002dva.1	+	8	1387	c.604T>C	c.(604-606)TAC>CAC	p.Y202H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Missense_Mutation_p.Y202H|TAOK2_uc002dvc.1_Missense_Mutation_p.Y202H|TAOK2_uc010bzm.1_Missense_Mutation_p.Y202H|TAOK2_uc002dvd.1_5'Flank	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	202	Protein kinase.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						TGAGGGGCAGTACGATGGCAA	0.547													4	29					0	0	1	0	0		C	29990778	C	C	29990778	3	2	27	1	0	0	0	0	1	0	0	0	15573	1638	57	3	630	3	TAOK2	16	29990778	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	99447	29990778	60363975	6528	28879											
DOC2A	8448	broad.mit.edu	37	chr16	30017638	30017638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgcctcgggcacctggccCcagggacacgccacctgggg	5	4	14	18	3	0	0	0	0	0	0	2	1	0	1	6	5	0	1	6	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:30017638C>T	uc002dvm.2	-	11	1172	c.1072G>A	c.(1072-1074)GGG>AGG	p.G358R	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|DOC2A_uc002dvl.2_Missense_Mutation_p.G356R|DOC2A_uc002dvn.2_Missense_Mutation_p.G358R|DOC2A_uc010vef.1_RNA|DOC2A_uc002dvo.2_Missense_Mutation_p.G358R|DOC2A_uc002dvp.2_Missense_Mutation_p.G358R|DOC2A_uc002dvq.2_Missense_Mutation_p.G358R	NM_003586	NP_003577	Q14183	DOC2A_HUMAN	double C2-like domains, alpha	358	Interaction with UNC13D.				nervous system development|regulation of calcium ion-dependent exocytosis	cell junction|lysosome|synaptic vesicle membrane|synaptosome	calcium-dependent phospholipid binding|protein binding|transporter activity			ovary(2)	2						GCACCTGGCCCCAGGGACACG	0.706													7	28					0	0	1	0	0		T	30017638	T	T	30017638	3	4	27	1	0	0	0	0	1	0	0	0	4689	623	22	4	134	4	DOC2A	16	30017638	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	26860	30017638	60337115	6529	28880											
CD2BP2	10421	broad.mit.edu	37	chr16	30364758	30364758	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcgaacatgtccagggAgggtgggggtgtgggattgt	7	9	19	6	1	1	0	1	0	0	0	2	3	2	2	1	5	2	0	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:30364758A>G	uc002dxr.2	-	4	992	c.739T>C	c.(739-741)TCC>CCC	p.S247P	CD2BP2_uc002dxs.2_Missense_Mutation_p.S247P	NM_006110	NP_006101	O95400	CD2B2_HUMAN	CD2 antigen (cytoplasmic tail) binding protein	247					assembly of spliceosomal tri-snRNP	cytoplasm|nucleoplasm|U5 snRNP	protein binding|ribonucleoprotein binding			ovary(1)	1						ATGTCCAGGGAGGGTGGGGGT	0.602													7	79					0	0	1	0	0		G	30364758	G	G	30364758	3	3	27	1	0	0	0	0	1	0	0	0	2998	304	11	3	298	3	CD2BP2	16	30364758	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	347120	30364758	59989995	6530	28881											
ZNF48	197407	broad.mit.edu	37	chr16	30409310	30409310	+	Frame_Shift_Del	DEL	C	-	-																															ggacacaccggggggagcagCccccccgaccagtggtgccc																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:30409310delC	uc002dya.1	+	2	798	c.739delC	c.(739-741)CCCfs	p.P247fs	ZNF48_uc002dxz.1_Frame_Shift_Del_p.P124fs	NM_152652	NP_689865	Q96MX3	ZNF48_HUMAN	zinc finger protein 48	247					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGGGGAGCAGCCCCCCCGACC	0.637													16	33	---	---	---	---						.	-	30409310	-	-	30409310	7	5	27	1	0	1	0	1	0	0	0	0	17959	739	26	0	745	0	ZNF48	16	30409310	Frame_Shift_Del	DEL	C	TCGA-BR-6452-01A-12D-1800-08	44552	30409310	59945443	6531	28882											
ITGAL	3683	broad.mit.edu	37	chr16	30507514	30507514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctgacagacatcaacggcGatgggctggtagacgtggct	9	8	14	10	3	2	3	1	1	1	2	2	4	2	3	0	4	1	3	0	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:30507514G>A	uc002dyi.3	+	14	1776	c.1600G>A	c.(1600-1602)GAT>AAT	p.D534N	ITGAL_uc002dyj.3_Missense_Mutation_p.D451N|ITGAL_uc010vev.1_Intron	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	534	Potential.|FG-GAP 6.|Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	CATCAACGGCGATGGGCTGGT	0.617													14	152					0	0	1	0	0		A	30507514	A	A	30507514	3	1	27	1	0	0	0	0	1	0	0	0	7902	1058	37	1	1654	1	ITGAL	16	30507514	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	98204	30507514	59847239	6532	28883											
ZNF768	79724	broad.mit.edu	37	chr16	30536163	30536163	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaaagcgcttgccgcacTcagggcacttgaagggcttc	8	7	13	13	2	1	1	1	1	0	0	2	1	1	1	2	3	2	4	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:30536163T>C	uc002dyk.3	-	2	1474	c.1298A>G	c.(1297-1299)GAG>GGG	p.E433G	ZNF768_uc010vex.1_Missense_Mutation_p.E402G|uc002dyl.1_5'Flank|ZNF768_uc010vew.1_Missense_Mutation_p.E402G	NM_024671	NP_078947	Q9H5H4	ZN768_HUMAN	zinc finger protein 768	433	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	DNA binding|zinc ion binding				0						CTTGCCGCACTCAGGGCACTT	0.682													5	36					0	0	1	0	0		C	30536163	C	C	30536163	3	2	27	1	0	0	0	0	1	0	0	0	18166	1551	54	3	328	3	ZNF768	16	30536163	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	28649	30536163	59818590	6533	28884											
ZNF689	115509	broad.mit.edu	37	chr16	30620959	30620959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggtttgggacctgcgcacCctggggaaagagaacaaatc	11	7	13	10	1	0	1	0	0	0	1	1	4	0	3	2	4	2	2	2	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:30620959C>T	uc002dyx.2	-	2	526	c.206G>A	c.(205-207)GGG>GAG	p.G69E	ZNF689_uc010bzy.2_5'UTR	NM_138447	NP_612456	Q96CS4	ZN689_HUMAN	zinc finger protein HIT-39	69	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			ACCTGCGCACCCTGGGGAAAG	0.602													6	54					0	0	1	0	0		T	30620959	T	T	30620959	3	4	27	1	0	0	0	0	1	0	0	0	18119	637	22	4	1304	4	ZNF689	16	30620959	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	84796	30620959	59733794	6534	28885											
SRCAP	10847	broad.mit.edu	37	chr16	30724848	30724848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctttgcagccagagacGcctgctcctgacaggaactc	8	9	10	14	1	1	2	0	1	1	1	4	4	2	3	3	1	4	2	3	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:30724848G>A	uc002dze.1	+	16	2694	c.2309G>A	c.(2308-2310)CGC>CAC	p.R770H	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.R627H|SRCAP_uc010bzz.1_Missense_Mutation_p.R340H	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	770	Helicase ATP-binding.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			AGCCAGAGACGCCTGCTCCTG	0.527													4	98					0	0	1	0	0		A	30724848	A	A	30724848	3	1	27	1	0	0	0	0	1	0	0	0	15160	1087	38	1	2363	1	SRCAP	16	30724848	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	103889	30724848	59629905	6535	28886											
SRCAP	10847	broad.mit.edu	37	chr16	30727712	30727712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaaatctgttcgaccctcGaccggttacctcccctttca	7	12	5	17	3	2	0	1	0	1	0	6	2	4	0	6	1	1	2	6	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:30727712G>A	uc002dze.1	+	18	3114	c.2729G>A	c.(2728-2730)CGA>CAA	p.R910Q	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.R767Q|SRCAP_uc010bzz.1_Missense_Mutation_p.R480Q	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	910					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			TTCGACCCTCGACCGGTTACC	0.507													8	350					0	0	1	0	0		A	30727712	A	A	30727712	3	1	27	1	0	0	0	0	1	0	0	0	15160	1058	37	1	2791	1	SRCAP	16	30727712	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2864	30727712	59627041	6536	28887											
SRCAP	10847	broad.mit.edu	37	chr16	30734045	30734045	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctgcccctactggcctcAgccttccgcttgctgctaac	4	10	7	20	1	1	0	1	0	0	0	2	0	2	0	7	1	6	3	7	1	2	4	rs150246733	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:30734045A>C	uc002dze.1	+	23	4253	c.3868A>C	c.(3868-3870)AGC>CGC	p.S1290R	SRCAP_uc002dzf.2_Intron|SRCAP_uc002dzg.1_Intron|SRCAP_uc010bzz.1_Missense_Mutation_p.S860R	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1290	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			TACTGGCCTCAGCCTTCCGCT	0.657													30	137					0	0	1	0	0		C	30734045	C	C	30734045	3	2	27	1	0	0	0	0	1	0	0	0	15160	188	7	5	3950	5	SRCAP	16	30734045	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6333	30734045	59620708	6537	28888											
SRCAP	10847	broad.mit.edu	37	chr16	30750183	30750183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagaaaagaaggcgaggacGaccccctaaagcacgagatt	16	3	13	9	3	0	3	0	0	0	3	0	8	0	4	2	3	1	1	2	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:30750183G>A	uc002dze.1	+	34	9207	c.8822G>A	c.(8821-8823)CGA>CAA	p.R2941Q	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.R2736Q	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2941	Pro-rich.|A.T hook 2.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			AGGCGAGGACGACCCCCTAAA	0.597													18	53					0	0	1	0	0		A	30750183	A	A	30750183	3	1	27	1	0	0	0	0	1	0	0	0	15160	1058	37	1	8948	1	SRCAP	16	30750183	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16138	30750183	59604570	6538	28889											
SRCAP	10847	broad.mit.edu	37	chr16	30750685	30750685	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggttggaattgacaccAcctgtggtctcactaacccc	8	9	11	13	1	1	1	1	1	1	0	2	2	1	2	4	4	1	1	4	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:30750685A>G	uc002dze.1	+	34	9709	c.9324A>G	c.(9322-9324)CCA>CCG	p.P3108P	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Silent_p.P2903P	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	3108					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			AATTGACACCACCTGTGGTCT	0.582													3	52					0	0	1	0	0		G	30750685	G	G	30750685	2	3	27	1	0	0	0	0	0	0	0	1	15160	146	6	3		3	SRCAP	16	30750685	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	502	30750685	59604068	6539	28890											
SETD1A	9739	broad.mit.edu	37	chr16	30990644	30990644	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgaggtggtgccagccccGgagccccctccagccacacc	7	4	11	19	2	0	0	0	0	0	0	2	2	1	1	8	3	4	0	8	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:30990644G>A	uc002ead.1	+	14	4223	c.3537G>A	c.(3535-3537)CCG>CCA	p.P1179P		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1179	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						TGCCAGCCCCGGAGCCCCCTC	0.701													10	32					0	0	1	0	0		A	30990644	A	A	30990644	2	1	27	1	0	0	0	0	0	0	0	1	14155	1103	39	1		1	SETD1A	16	30990644	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	239959	30990644	59364109	6540	28891											
ZNF668	79759	broad.mit.edu	37	chr16	31072650	31072650	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccgggtgtgagcgctcgtgCcgacgcagcagcgtcattgt	5	9	15	12	6	1	1	1	1	0	0	3	2	2	1	2	1	4	3	2	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31072650C>T	uc010caf.2	-	3	1956	c.1599G>A	c.(1597-1599)CGG>CGA	p.R533R	ZNF668_uc002eao.2_Silent_p.R533R	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	533	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						AGCGCTCGTGCCGACGCAGCA	0.672													7	73					0	0	1	0	0		T	31072650	T	T	31072650	2	4	27	1	0	0	0	0	0	0	0	1	18100	726	26	2		2	ZNF668	16	31072650	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	82006	31072650	59282103	6541	28892											
ZNF668	79759	broad.mit.edu	37	chr16	31072971	31072971	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaccccaccaccagctcCtgtgcagggggcacacccgc	8	3	10	20	1	0	0	0	0	0	0	1	0	1	0	7	2	3	3	7	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31072971C>T	uc010caf.2	-	3	1635	c.1278G>A	c.(1276-1278)CAG>CAA	p.Q426Q	ZNF668_uc002eao.2_Silent_p.Q426Q	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	426					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						CCACCAGCTCCTGTGCAGGGG	0.682													9	90					0	0	1	0	0		T	31072971	T	T	31072971	2	4	27	1	0	0	0	0	0	0	0	1	18100	680	24	4		4	ZNF668	16	31072971	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	321	31072971	59281782	6542	28893											
ZNF646	9726	broad.mit.edu	37	chr16	31092587	31092587	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaggaggccccatcagaaAcccccagaggcccaggagag	12	1	12	16	0	1	3	1	0	0	3	1	5	1	4	6	4	1	0	6	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31092587A>C	uc002eap.2	+	2	5231	c.4942A>C	c.(4942-4944)ACC>CCC	p.T1648P		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	1648					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						CCCATCAGAAACCCCCAGAGG	0.657													3	42					0	0	1	0	0		C	31092587	C	C	31092587	3	2	27	1	0	0	0	0	1	0	0	0	18087	43	2	5	4944	5	ZNF646	16	31092587	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19616	31092587	59262166	6543	28894											
PRSS53	339105	broad.mit.edu	37	chr16	31095491	31095491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgggctctggttcctcggCgaagtagacctgccagtcca	6	9	12	14	3	1	1	0	0	1	1	5	2	3	1	4	3	1	3	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31095491C>T	uc002eaq.2	-	10	1591	c.1591G>A	c.(1591-1593)GCC>ACC	p.A531T	PRSS53_uc002ear.2_Missense_Mutation_p.A325T	NM_001039503	NP_001034592	Q2L4Q9	PRS53_HUMAN	polyserase 3 precursor	531					proteolysis	extracellular region	serine-type endopeptidase activity				0						GGTTCCTCGGCGAAGTAGACC	0.647													3	12					0	0	1	0	0		T	31095491	T	T	31095491	3	4	27	1	0	0	0	0	1	0	0	0	12654	768	27	1	78	1	PRSS53	16	31095491	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2904	31095491	59259262	6544	28895											
MYST1	84148	broad.mit.edu	37	chr16	31142181	31142181	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacccaagctggtggaggaGcacctcaaaagtgcccagta	13	5	11	12	0	1	0	1	0	0	0	1	2	1	2	3	3	3	3	3	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31142181G>A	uc002eay.2	+	10	1290	c.1272G>A	c.(1270-1272)GAG>GAA	p.E424E	MYST1_uc002eax.2_Silent_p.E424E|MYST1_uc002eaz.2_Silent_p.E266E|MYST1_uc002eba.2_3'UTR|MYST1_uc002ebb.2_RNA	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	424					histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						TGGTGGAGGAGCACCTCAAAA	0.547													18	33					0	0	1	0	0		A	31142181	A	A	31142181	2	1	27	1	0	0	0	0	0	0	0	1	10120	962	34	2		2	MYST1	16	31142181	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46690	31142181	59212572	6545	28896											
PRSS8	5652	broad.mit.edu	37	chr16	31143846	31143846	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttggcgtcgatgttgtacagGcagttacacgtctcacgact	8	12	11	10	4	1	0	1	0	1	0	3	2	1	0	0	2	2	4	0	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31143846G>A	uc002ebc.3	-	5	941	c.609C>T	c.(607-609)TGC>TGT	p.C203C	PRSS8_uc010vfe.1_Silent_p.C149C	NM_002773	NP_002764	Q16651	PRSS8_HUMAN	prostasin preproprotein	203	Peptidase S1.				proteolysis	extracellular space|integral to membrane|plasma membrane	serine-type endopeptidase activity				0						TGTTGTACAGGCAGTTACACG	0.592													7	65					0	0	1	0	0		A	31143846	A	A	31143846	2	1	27	1	0	0	0	0	0	0	0	1	12657	1195	42	2		2	PRSS8	16	31143846	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1665	31143846	59210907	6546	28897											
ITGAX	3687	broad.mit.edu	37	chr16	31383731	31383731	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactctgtgacccccattacCttgcgtctgaacttcacgct	7	12	7	15	2	3	2	1	2	2	0	3	3	3	2	3	0	3	1	3	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31383731C>T	uc002ebu.1	+	18	2260	c.2193C>T	c.(2191-2193)ACC>ACT	p.T731T	ITGAX_uc002ebt.2_Silent_p.T731T	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	731	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CCCCCATTACCTTGCGTCTGA	0.652													8	70					0	0	1	0	0		T	31383731	T	T	31383731	2	4	27	1	0	0	0	0	0	0	0	1	7905	668	24	4		4	ITGAX	16	31383731	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	239885	31383731	58971022	6547	28898											
ITGAX	3687	broad.mit.edu	37	chr16	31384582	31384582	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacccagcttgaagtccctGctggtggggagtaacctgga	9	9	13	10	0	0	1	0	1	0	0	1	3	1	3	3	4	4	3	3	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31384582G>A	uc002ebu.1	+	20	2446	c.2379G>A	c.(2377-2379)CTG>CTA	p.L793L	ITGAX_uc002ebt.2_Silent_p.L793L	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	793	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGAAGTCCCTGCTGGTGGGGA	0.542													5	72					0	0	1	0	0		A	31384582	A	A	31384582	2	1	27	1	0	0	0	0	0	0	0	1	7905	1306	46	2		2	ITGAX	16	31384582	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	851	31384582	58970171	6548	28899											
ITGAD	3681	broad.mit.edu	37	chr16	31424522	31424522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccctggaagctggggacGccaccgtctgtctcaccatc	6	8	12	15	2	2	0	1	0	2	0	4	2	2	2	4	3	2	1	4	3	1	0	rs143512956		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31424522G>A	uc002ebv.1	+	16	2000	c.1951G>A	c.(1951-1953)GCC>ACC	p.A651T	ITGAD_uc010cap.1_Missense_Mutation_p.A652T	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	651	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						AGCTGGGGACGCCACCGTCTG	0.607													7	99					0	0	1	0	0		A	31424522	A	A	31424522	3	1	27	1	0	0	0	0	1	0	0	0	7900	1087	38	1	2013	1	ITGAD	16	31424522	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39940	31424522	58930231	6549	28900											
TGFB1I1	7041	broad.mit.edu	37	chr16	31485969	31485969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accagagccgactggcaaggGcagcctagacaccatgctgg	11	4	13	13	1	0	2	0	0	0	2	0	3	0	2	4	3	3	3	4	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31485969G>A	uc002ecd.1	+	7	631	c.605G>A	c.(604-606)GGC>GAC	p.G202D	TGFB1I1_uc002ece.1_Missense_Mutation_p.G185D|TGFB1I1_uc010caq.1_Missense_Mutation_p.G41D	NM_001042454	NP_001035919	O43294	TGFI1_HUMAN	transforming growth factor beta 1 induced	202	Interaction with PTK2B.				androgen receptor signaling pathway|cell adhesion|negative regulation of cell proliferation|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|transcription from RNA polymerase II promoter|ubiquitin-dependent SMAD protein catabolic process|Wnt receptor signaling pathway	cytoplasm|cytoskeleton|focal adhesion|nuclear matrix	androgen receptor binding|I-SMAD binding|Roundabout binding|transcription coactivator activity|zinc ion binding				0						ACTGGCAAGGGCAGCCTAGAC	0.642													4	27					0	0	1	0	0		A	31485969	A	A	31485969	3	1	27	1	0	0	0	0	1	0	0	0	15842	1203	42	2	631	2	TGFB1I1	16	31485969	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	61447	31485969	58868784	6550	28901											
TGFB1I1	7041	broad.mit.edu	37	chr16	31487398	31487398	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcggaggctgttccaccgcCctgggaggcagcagcttctt	5	9	14	13	2	1	0	0	0	1	0	2	2	2	2	3	4	3	5	3	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31487398C>A	uc002ecd.1	+	8	806	c.780C>A	c.(778-780)GCC>GCA	p.A260A	TGFB1I1_uc002ece.1_Silent_p.A243A|TGFB1I1_uc010caq.1_Silent_p.A99A	NM_001042454	NP_001035919	O43294	TGFI1_HUMAN	transforming growth factor beta 1 induced	260	LIM zinc-binding 1.				androgen receptor signaling pathway|cell adhesion|negative regulation of cell proliferation|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|transcription from RNA polymerase II promoter|ubiquitin-dependent SMAD protein catabolic process|Wnt receptor signaling pathway	cytoplasm|cytoskeleton|focal adhesion|nuclear matrix	androgen receptor binding|I-SMAD binding|Roundabout binding|transcription coactivator activity|zinc ion binding				0						GTTCCACCGCCCTGGGAGGCA	0.657													5	66					0.000602214	0.000630257	1	1	0		A	31487398	A	A	31487398	2	1	27	1	0	0	0	0	0	0	0	1	15842	610	22	5		5	TGFB1I1	16	31487398	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1429	31487398	58867355	6551	28902											
ZNF267	10308	broad.mit.edu	37	chr16	31926568	31926568	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtggggatagcttaaaccAtagtttgcaccttactcaac	12	12	8	9	0	1	0	1	0	0	0	1	1	1	1	2	2	5	3	2	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31926568A>G	uc002ecs.3	+	4	1207	c.998A>G	c.(997-999)CAT>CGT	p.H333R		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	333	C2H2-type 2; atypical.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						AGCTTAAACCATAGTTTGCAC	0.348													7	109					0	0	1	0	0		G	31926568	G	G	31926568	3	3	27	1	0	0	0	0	1	0	0	0	17831	217	8	3	1012	3	ZNF267	16	31926568	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	439170	31926568	58428185	6552	28903											
ZNF267	10308	broad.mit.edu	37	chr16	31927166	31927166	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctaaaccttttacttgtttCtcaaatcttattgtgcatga	10	18	5	8	0	2	1	1	1	2	0	3	1	2	1	1	0	3	3	1	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31927166C>T	uc002ecs.3	+	4	1805	c.1596C>T	c.(1594-1596)TTC>TTT	p.F532F		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	532	C2H2-type 8.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						TTACTTGTTTCTCAAATCTTA	0.353													5	32					0	0	1	0	0		T	31927166	T	T	31927166	2	4	27	1	0	0	0	0	0	0	0	1	17831	912	32	4		4	ZNF267	16	31927166	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	598	31927166	58427587	6553	28904											
ZNF267	10308	broad.mit.edu	37	chr16	31927343	31927343	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttagtgactcctcaggtctTactgtgcatcggcgaactca	8	13	9	11	2	3	1	2	1	1	0	5	2	4	1	1	2	3	1	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31927343T>C	uc002ecs.3	+	4	1982	c.1773T>C	c.(1771-1773)CTT>CTC	p.L591L		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	591	C2H2-type 10.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						CCTCAGGTCTTACTGTGCATC	0.383													8	47					0	0	1	0	0		C	31927343	C	C	31927343	2	2	27	1	0	0	0	0	0	0	0	1	17831	1741	61	3		3	ZNF267	16	31927343	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	177	31927343	58427410	6554	28905											
ZNF267	10308	broad.mit.edu	37	chr16	31927722	31927722	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagagagaccctacaaaTgtgaagaatgtggcaaagcc	15	6	13	7	0	0	4	0	1	0	3	0	6	0	4	2	2	2	1	2	2	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:31927722T>G	uc002ecs.3	+	4	2361	c.2152T>G	c.(2152-2154)TGT>GGT	p.C718G		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	718	C2H2-type 15.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						ACCCTACAAATGTGAAGAATG	0.403													4	56					0	0	1	0	0		G	31927722	G	G	31927722	3	3	27	1	0	0	0	0	1	0	0	0	17831	1464	51	5	2166	5	ZNF267	16	31927722	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	379	31927722	58427031	6555	28906											
ORC6L	23594	broad.mit.edu	37	chr16	46731415	46731415	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acataaaccacagaaagatgAagatctgacacaggattatg	19	7	8	7	0	1	5	0	2	1	3	1	6	1	6	1	1	1	0	1	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:46731415A>C	uc002eeh.2	+	7	737	c.677A>C	c.(676-678)GAA>GCA	p.E226A		NM_014321	NP_055136	Q9Y5N6	ORC6_HUMAN	origin recognition complex subunit 6	226					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA binding|protein binding				0		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				CAGAAAGATGAAGATCTGACA	0.358													3	32					0	0	1	0	0		C	46731415	C	C	46731415	3	2	27	1	0	0	0	0	1	0	0	0	11285	246	9	5	703	5	ORC6L	16	46731415	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14803693	46731415	43623338	6556	28907											
ABCC12	94160	broad.mit.edu	37	chr16	48173122	48173122	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatatcccgatgagagctgtGggccccagaatgaaaaaggc	13	6	13	9	1	0	3	0	2	0	2	1	6	1	3	3	2	1	1	3	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:48173122G>T	uc002efc.1	-	5	1129	c.783C>A	c.(781-783)CCC>CCA	p.P261P	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Silent_p.P261P|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	261	ABC transmembrane type-1 1.|Helical; (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TGAGAGCTGTGGGCCCCAGAA	0.478													5	114					0.184627	0.185716	1	1	0		T	48173122	T	T	48173122	2	4	27	1	0	0	0	0	0	0	0	1	52	1335	47	5		5	ABCC12	16	48173122	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1441707	48173122	42181631	6557	28908											
ABCC11	85320	broad.mit.edu	37	chr16	48261759	48261759	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcatggactgacagtggaGggatggtgttctcatctaag	10	11	13	7	0	3	1	2	1	2	0	4	4	3	4	0	4	0	1	0	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:48261759G>T	uc002eff.1	-	3	703	c.353C>A	c.(352-354)CCT>CAT	p.P118H	ABCC11_uc002efg.1_Missense_Mutation_p.P118H|ABCC11_uc002efh.1_Missense_Mutation_p.P118H|ABCC11_uc010vgl.1_Missense_Mutation_p.P118H	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	118	Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				TGACAGTGGAGGGATGGTGTT	0.517									Cerumen_Type				16	145					1.67942e-08	1.84707e-08	1	1	0		T	48261759	T	T	48261759	3	4	27	1	0	0	0	0	1	0	0	0	51	1000	35	5	3903	5	ABCC11	16	48261759	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	88637	48261759	42092994	6558	28909											
LONP2	83752	broad.mit.edu	37	chr16	48304092	48304092	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggagttggtaaaacaaGtgtgggaagatcagtggcca	12	9	14	6	0	1	1	1	0	0	1	2	3	2	3	2	4	1	2	2	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:48304092G>T	uc002efi.1	+	7	1237	c.1148G>T	c.(1147-1149)AGT>ATT	p.S383I	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Missense_Mutation_p.S339I	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	383					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						GGTAAAACAAGTGTGGGAAGA	0.473													4	81					0.00024832	0.000261516	1	1	0		T	48304092	T	T	48304092	3	4	27	1	0	0	0	0	1	0	0	0	8911	1029	36	5	1174	5	LONP2	16	48304092	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	42333	48304092	42050661	6559	28910											
LONP2	83752	broad.mit.edu	37	chr16	48381563	48381563	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcggggacgtgatgaaggAgtccgcccacctcgctatca	8	7	13	13	4	1	2	1	2	0	0	4	4	2	4	3	3	0	2	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:48381563A>T	uc002efi.1	+	13	2173	c.2084A>T	c.(2083-2085)GAG>GTG	p.E695V	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Missense_Mutation_p.E651V	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	695					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						GTGATGAAGGAGTCCGCCCAC	0.612													5	40					0	0	1	0	0		T	48381563	T	T	48381563	3	4	27	1	0	0	0	0	1	0	0	0	8911	304	11	5	2134	5	LONP2	16	48381563	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	77471	48381563	41973190	6560	28911											
CBLN1	869	broad.mit.edu	37	chr16	49313459	49313459	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcctcccgggtcacgtcCtggtcaccagcgaaggctga	6	6	14	15	4	2	1	2	1	0	0	4	2	4	1	4	4	1	1	4	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:49313459C>A	uc002efq.2	-	3	777	c.438G>T	c.(436-438)CAG>CAT	p.Q146H		NM_004352	NP_004343	P23435	CBLN1_HUMAN	cerebellin 1 precursor	146	C1q.|Necessary for interaction with CBLN3, and homotrimerization (By similarity).				nervous system development|synaptic transmission	cell junction|extracellular region|synapse					0		all_cancers(37;0.0766)|all_lung(18;0.24)				GGGTCACGTCCTGGTCACCAG	0.602													6	53					0.00116845	0.00121513	1	1	0		A	49313459	A	A	49313459	3	1	27	1	0	0	0	0	1	0	0	0	2707	680	24	5	147	5	CBLN1	16	49313459	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	931896	49313459	41041294	6561	28912											
C16orf78	123970	broad.mit.edu	37	chr16	49407988	49407988	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggaggcaggggaagaagaaAcaagctcccgaggtgggtac	13	3	17	8	2	0	2	0	0	0	2	1	5	1	4	1	6	3	3	1	6	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:49407988A>G	uc002efr.2	+	1	181	c.138A>G	c.(136-138)AAA>AAG	p.K46K		NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970	46										central_nervous_system(1)	1						GGAAGAAGAAACAAGCTCCCG	0.358													5	67					0	0	1	0	0		G	49407988	G	G	49407988	2	3	27	1	0	0	0	0	0	0	0	1	1838	40	2	3		3	C16orf78	16	49407988	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	94529	49407988	40946765	6562	28913											
ZNF423	23090	broad.mit.edu	37	chr16	49670423	49670423	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtacatgggctccgacgcGtccacgtcatcctcgctggc	5	8	11	17	6	1	0	1	0	0	0	5	1	4	0	4	2	1	3	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:49670423G>A	uc002efs.2	-	5	2938	c.2640C>T	c.(2638-2640)GAC>GAT	p.D880D	ZNF423_uc010vgn.1_Silent_p.D763D	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	880					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GCTCCGACGCGTCCACGTCAT	0.617													9	69					0	0	1	0	0		A	49670423	A	A	49670423	2	1	27	1	0	0	0	0	0	0	0	1	17923	1136	40	1		1	ZNF423	16	49670423	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	262435	49670423	40684330	6563	28914											
ZNF423	23090	broad.mit.edu	37	chr16	49671085	49671085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggggcacgcttgcttccGcagcagcagctccaggtgca	6	7	14	14	2	0	0	0	0	0	0	2	0	2	0	2	3	5	8	2	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:49671085G>A	uc002efs.2	-	5	2276	c.1978C>T	c.(1978-1980)CGG>TGG	p.R660W	ZNF423_uc010vgn.1_Missense_Mutation_p.R543W	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	660					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GCTTGCTTCCGCAGCAGCAGC	0.552													12	41					0	0	1	0	0		A	49671085	A	A	49671085	3	1	27	1	0	0	0	0	1	0	0	0	17923	1086	38	1	1896	1	ZNF423	16	49671085	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	662	49671085	40683668	6564	28915											
ADCY7	113	broad.mit.edu	37	chr16	50326626	50326626	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctgtgtgggaacctgAcaggcgccttccacaagcac	8	9	10	14	1	1	1	0	1	1	0	3	2	3	2	4	2	2	1	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:50326626A>G	uc002egd.1	+	4	845	c.577A>G	c.(577-579)ACA>GCA	p.T193A	ADCY7_uc002egb.1_Missense_Mutation_p.T193A|ADCY7_uc002egc.1_Missense_Mutation_p.T193A	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	193	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	TGGGAACCTGACAGGCGCCTT	0.597													8	59					0	0	1	0	0		G	50326626	G	G	50326626	3	3	27	1	0	0	0	0	1	0	0	0	299	275	10	3	591	3	ADCY7	16	50326626	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	655541	50326626	40028127	6565	28916											
NKD1	85407	broad.mit.edu	37	chr16	50583381	50583381	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcggaagggcatcgaggAgtggatcgggagacagcgct	9	5	19	8	4	0	1	0	0	0	1	3	6	0	4	0	6	1	3	0	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:50583381A>T	uc002egg.1	+	3	331	c.107A>T	c.(106-108)GAG>GTG	p.E36V		NM_033119	NP_149110	Q969G9	NKD1_HUMAN	naked cuticle homolog 1	36					Wnt receptor signaling pathway	cytoplasm|plasma membrane	calcium ion binding|protein binding				0		all_cancers(37;0.229)		GBM - Glioblastoma multiforme(240;0.243)		GGCATCGAGGAGTGGATCGGG	0.672													5	28					0	0	1	0	0		T	50583381	T	T	50583381	3	4	27	1	0	0	0	0	1	0	0	0	10460	304	11	5	117	5	NKD1	16	50583381	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	256755	50583381	39771372	6566	28917											
NKD1	85407	broad.mit.edu	37	chr16	50667258	50667258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgacaccccaatcgccAaggtctcagagctccagcaa	11	7	7	16	1	1	2	1	1	1	1	5	2	3	2	5	1	2	2	5	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:50667258A>G	uc002egg.1	+	10	1203	c.979A>G	c.(979-981)AAG>GAG	p.K327E		NM_033119	NP_149110	Q969G9	NKD1_HUMAN	naked cuticle homolog 1	327					Wnt receptor signaling pathway	cytoplasm|plasma membrane	calcium ion binding|protein binding				0		all_cancers(37;0.229)		GBM - Glioblastoma multiforme(240;0.243)		CCCAATCGCCAAGGTCTCAGA	0.642													23	93					0	0	1	0	0		G	50667258	G	G	50667258	3	3	27	1	0	0	0	0	1	0	0	0	10460	131	5	3	1017	3	NKD1	16	50667258	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	83877	50667258	39687495	6567	28918											
SNX20	124460	broad.mit.edu	37	chr16	50707797	50707797	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcctgcagggcgcgccgAcgctcacagatcatctcctc	7	8	9	17	4	3	1	2	0	1	1	6	2	4	1	3	1	2	2	3	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:50707797A>G	uc002egk.2	-	4	644	c.471T>C	c.(469-471)CGT>CGC	p.R157R	SNX20_uc010vgp.1_Intron|SNX20_uc002egi.3_Intron	NM_182854	NP_878274	Q7Z614	SNX20_HUMAN	sorting nexin 20 isoform 1	157	PX.	Phosphatidylinositol 3-phosphate (By similarity).			cell communication|protein transport	endosome membrane|nucleus|plasma membrane	phosphatidylinositol binding|protein binding			ovary(1)	1						GGGCGCGCCGACGCTCACAGA	0.642													4	41					0	0	1	0	0		G	50707797	G	G	50707797	2	3	27	1	0	0	0	0	0	0	0	1	14917	262	10	3		3	SNX20	16	50707797	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	40539	50707797	39646956	6568	28919											
SALL1	6299	broad.mit.edu	37	chr16	51175895	51175895	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaggtttcgggtggggAggctggattttcatttacga	8	12	17	4	2	1	1	1	0	0	1	2	5	1	3	0	7	1	2	0	7	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:51175895A>G	uc010vgs.1	-	2	269	c.238T>C	c.(238-240)TCC>CCC	p.S80P	SALL1_uc010vgr.1_5'UTR|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	80					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TCGGGTGGGGAGGCTGGATTT	0.443													5	105					0	0	1	0	0		G	51175895	G	G	51175895	3	3	27	1	0	0	0	0	1	0	0	0	13835	304	11	3	3744	3	SALL1	16	51175895	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	468098	51175895	39178858	6569	28920											
RBL2	5934	broad.mit.edu	37	chr16	53504299	53504299	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctctgtcactaggtatTgccaatgaaaatggagggat	11	14	10	6	0	2	1	1	1	1	0	3	3	2	3	1	3	1	1	1	3	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:53504299T>C	uc002ehi.3	+	16	2368	c.2250T>C	c.(2248-2250)ATT>ATC	p.I750I	RBL2_uc002ehj.2_Silent_p.I460I|RBL2_uc010vgw.1_Intron	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	750	Spacer.|Pocket; binds E1A.				cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						CACTAGGTATTGCCAATGAAA	0.483													5	48					0	0	1	0	0		C	53504299	C	C	53504299	2	2	27	1	0	0	0	0	0	0	0	1	13135	1800	63	3		3	RBL2	16	53504299	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2328404	53504299	36850454	6570	28921											
RPGRIP1L	23322	broad.mit.edu	37	chr16	53675335	53675335	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaatttccatttcaatatAacatggatggtgccagcagg	13	11	9	8	0	1	0	1	0	0	0	2	1	2	1	2	3	3	2	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:53675335A>G	uc002ehp.2	-	18	2800	c.2736T>C	c.(2734-2736)GTT>GTC	p.V912V	RPGRIP1L_uc002eho.3_Silent_p.V912V|RPGRIP1L_uc010vgy.1_Silent_p.V912V|RPGRIP1L_uc010cbx.2_Silent_p.V912V|RPGRIP1L_uc010vgz.1_Silent_p.V912V	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	912					negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				ATTTCAATATAACATGGATGG	0.343													8	57					0	0	1	0	0		G	53675335	G	G	53675335	2	3	27	1	0	0	0	0	0	0	0	1	13575	349	13	3		3	RPGRIP1L	16	53675335	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	171036	53675335	36679418	6571	28922											
FTO	79068	broad.mit.edu	37	chr16	54145700	54145700	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcacgaattgcccgaacatTacctgctgatcagaagccag	12	8	9	12	2	2	2	2	1	0	1	2	4	2	2	3	0	5	1	3	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:54145700T>A	uc002ehr.2	+	9	1613	c.1391T>A	c.(1390-1392)TTA>TAA	p.L464*	FTO_uc010vha.1_Nonsense_Mutation_p.L168*|FTO_uc010cbz.2_Nonsense_Mutation_p.L65*|FTO_uc002ehs.2_RNA	NM_001080432	NP_001073901	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	464					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GCCCGAACATTACCTGCTGAT	0.498													19	217					0	0	1	0	0		A	54145700	A	A	54145700	4	1	27	1	0	0	0	0	0	1	0	0	6100	1764	61	5	1425	5	FTO	16	54145700	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	470365	54145700	36209053	6572	28923											
IRX6	79190	broad.mit.edu	37	chr16	55362679	55362679	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagacctggaggaagaggaGgaggaggaggaggaagctga	15	2	21	3	0	0	3	0	1	0	2	0	12	0	11	1	8	1	1	1	8	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:55362679G>T	uc002ehy.2	+	5	1322	c.789G>T	c.(787-789)GAG>GAT	p.E263D	IRX6_uc002ehx.2_Missense_Mutation_p.E263D	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	263						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						aggaagaggaggaggaggagg	0.493													7	78					0.0477658	0.0483837	1	1	0		T	55362679	T	T	55362679	3	4	27	1	0	0	0	0	1	0	0	0	7864	991	35	5	807	5	IRX6	16	55362679	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1216979	55362679	34992074	6573	28924											
MMP2	4313	broad.mit.edu	37	chr16	55518028	55518028	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaccccactgcggttttctCgaatccatgatggagaggca	9	10	11	11	2	1	3	0	2	1	1	3	5	2	3	3	3	1	2	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:55518028C>T	uc002ehz.3	+	3	792	c.481C>T	c.(481-483)CGA>TGA	p.R161*	MMP2_uc010vhd.1_Nonsense_Mutation_p.R85*|MMP2_uc010ccc.2_Nonsense_Mutation_p.R111*	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	161	Collagenase-like 1.				angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	GCGGTTTTCTCGAATCCATGA	0.552													20	68					0	0	1	0	0		T	55518028	T	T	55518028	4	4	27	1	0	0	0	0	0	1	0	0	9676	876	31	1	498	1	MMP2	16	55518028	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	155349	55518028	34836725	6574	28925											
MMP2	4313	broad.mit.edu	37	chr16	55532275	55532275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cactgaccagcctgggactgCcccctgatgtccagcgagtg	7	7	12	15	1	0	2	0	2	0	0	1	4	1	3	5	1	3	0	5	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:55532275C>T	uc002ehz.3	+	11	1995	c.1684C>T	c.(1684-1686)CCC>TCC	p.P562S	MMP2_uc010vhd.1_Missense_Mutation_p.P486S|MMP2_uc010ccc.2_Missense_Mutation_p.P512S|MMP2_uc002eia.3_Missense_Mutation_p.P59S	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	562	Required for inhibitor TIMP2 binding.|Hemopexin-like 2.				angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	CCTGGGACTGCCCCCTGATGT	0.552													14	58					0	0	1	0	0		T	55532275	T	T	55532275	3	4	27	1	0	0	0	0	1	0	0	0	9676	739	26	2	1733	2	MMP2	16	55532275	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14247	55532275	34822478	6575	28926											
LPCAT2	54947	broad.mit.edu	37	chr16	55583280	55583280	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgcctatggaagctgggCtggtggaatttactaaaatt	11	13	11	6	0	0	0	0	0	0	0	0	2	0	2	1	4	3	2	1	4	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:55583280C>A	uc002eie.3	+	10	1208	c.1027C>A	c.(1027-1029)CTG>ATG	p.L343M	LPCAT2_uc002eic.2_Missense_Mutation_p.L73M	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	343	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						GGAAGCTGGGCTGGTGGAATT	0.368													7	109					5.18039e-06	5.59131e-06	1	1	0		A	55583280	A	A	55583280	3	1	27	1	0	0	0	0	1	0	0	0	8929	796	28	5	1065	5	LPCAT2	16	55583280	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	51005	55583280	34771473	6576	28927											
SLC6A2	6530	broad.mit.edu	37	chr16	55719159	55719159	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtcgtcatcgtcttgtattTtagcctctggaaaggggtga	7	14	12	8	3	3	1	1	1	2	0	5	2	3	2	1	3	1	1	1	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:55719159T>G	uc002eif.2	+	5	860	c.749T>G	c.(748-750)TTT>TGT	p.F250C	SLC6A2_uc010ccd.2_Missense_Mutation_p.F250C|SLC6A2_uc002eig.2_Missense_Mutation_p.F250C|SLC6A2_uc002eih.2_Missense_Mutation_p.F250C|SLC6A2_uc002eii.2_Missense_Mutation_p.F145C|SLC6A2_uc002eij.2_Missense_Mutation_p.F9C	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	250	Helical; Name=4; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	GTCTTGTATTTTAGCCTCTGG	0.498													8	85					0	0	1	0	0		G	55719159	G	G	55719159	3	3	27	1	0	0	0	0	1	0	0	0	14708	1841	64	5	854	5	SLC6A2	16	55719159	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	135879	55719159	34635594	6577	28928											
CES7	221223	broad.mit.edu	37	chr16	55899902	55899902	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaacacttatggctcccgcGgactcgccaaagatggtcac	11	7	10	13	3	1	1	1	0	0	1	3	3	2	2	2	3	1	1	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:55899902G>A	uc002eip.2	-	5	827	c.678C>T	c.(676-678)TCC>TCT	p.S226S	CES7_uc002eio.2_Silent_p.S226S|CES7_uc002eiq.2_5'UTR|CES7_uc002eir.2_Silent_p.S120S	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	226		Acyl-ester intermediate (By similarity).				extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		TGGCTCCCGCGGACTCGCCAA	0.483													6	45					0	0	1	0	0		A	55899902	A	A	55899902	2	1	27	1	0	0	0	0	0	0	0	1	3275	1103	39	1		1	CES7	16	55899902	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	180743	55899902	34454851	6578	28929											
CES7	221223	broad.mit.edu	37	chr16	55903587	55903587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagcacgtcctcataggcagCcagggcggacccatcaaaga	12	4	11	14	2	2	1	2	0	0	1	3	2	3	2	3	3	2	2	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:55903587C>T	uc002eip.2	-	4	636	c.487G>A	c.(487-489)GCT>ACT	p.A163T	CES7_uc002eio.2_Missense_Mutation_p.A163T|CES7_uc002eiq.2_5'UTR|CES7_uc002eir.2_Missense_Mutation_p.A57T	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	163						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		TCATAGGCAGCCAGGGCGGAC	0.562													5	20					0	0	1	0	0		T	55903587	T	T	55903587	3	4	27	1	0	0	0	0	1	0	0	0	3275	739	26	2	1280	2	CES7	16	55903587	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3685	55903587	34451166	6579	28930											
OGFOD1	55239	broad.mit.edu	37	chr16	56501107	56501107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtctgaagaaaagtcaCgtttgtctataagtggctgg	10	13	12	6	1	3	2	1	1	2	1	3	2	3	2	0	2	1	3	0	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:56501107C>T	uc002ejb.2	+	7	789	c.688C>T	c.(688-690)CGT>TGT	p.R230C	OGFOD1_uc002ejc.2_Missense_Mutation_p.R90C	NM_018233	NP_060703	Q8N543	OGFD1_HUMAN	2-oxoglutarate and iron-dependent oxygenase	230	Fe2OG dioxygenase.						iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)	1					Vitamin C(DB00126)	AGAAAAGTCACGTTTGTCTAT	0.483													38	135					0	0	1	0	0		T	56501107	T	T	56501107	3	4	27	1	0	0	0	0	1	0	0	0	10860	536	19	1	714	1	OGFOD1	16	56501107	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	597520	56501107	33853646	6580	28931											
NUP93	9688	broad.mit.edu	37	chr16	56782236	56782236	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactgagggcatctcagagcTtccccatgtggaacggaact	10	8	12	11	1	1	2	1	1	1	1	3	5	2	4	2	3	3	2	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:56782236T>C	uc002eka.2	+	2	198	c.77T>C	c.(76-78)CTT>CCT	p.L26P		NM_014669	NP_055484	Q8N1F7	NUP93_HUMAN	nucleoporin 93kDa	26					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(1)|lung(1)	2						ATCTCAGAGCTTCCCCATGTG	0.567													6	70					0	0	1	0	0		C	56782236	C	C	56782236	3	2	27	1	0	0	0	0	1	0	0	0	10791	1609	56	3	79	3	NUP93	16	56782236	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	281129	56782236	33572517	6581	28932											
HERPUD1	9709	broad.mit.edu	37	chr16	56974002	56974002	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcggatgaatgcacaaggTggccctattgtggaagaaga	12	9	14	6	1	0	3	0	1	0	2	0	5	0	5	1	4	2	1	1	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:56974002T>C	uc002eke.1	+	6	1159	c.750T>C	c.(748-750)GGT>GGC	p.G250G	HERPUD1_uc002ekf.1_Silent_p.G249G|HERPUD1_uc002ekg.1_Silent_p.G225G|HERPUD1_uc010cco.1_Splice_Site_p.G311_splice|HERPUD1_uc010ccp.1_Intron|HERPUD1_uc002ekh.1_Silent_p.G68G	NM_014685	NP_055500	Q15011	HERP1_HUMAN	homocysteine-inducible, endoplasmic reticulum	250	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	protein binding				0						ATGCACAAGGTGGCCCTATTG	0.428			T	ERG	prostate								9	88					0	0	1	0	0		C	56974002	C	C	56974002	2	2	27	1	0	0	0	0	0	0	0	1	7079	1683	59	3		3	HERPUD1	16	56974002	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	191766	56974002	33380751	6582	28933											
CETP	1071	broad.mit.edu	37	chr16	56995923	56995923	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtcctgaccctggcccTgctgggcaatgcccatgcct	6	8	10	17	0	0	1	0	1	0	0	1	1	1	1	5	2	3	2	5	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:56995923T>C	uc002eki.2	+	1	89	c.32T>C	c.(31-33)CTG>CCG	p.L11P	CETP_uc002ekj.2_Missense_Mutation_p.L11P	NM_000078	NP_000069	P11597	CETP_HUMAN	cholesteryl ester transfer protein, plasma	11					cholesterol homeostasis|cholesterol metabolic process|high-density lipoprotein particle remodeling|lipoprotein metabolic process|low-density lipoprotein particle remodeling|phosphatidylcholine metabolic process|phospholipid homeostasis|receptor-mediated endocytosis|regulation of cholesterol efflux|triglyceride homeostasis|triglyceride metabolic process|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle|vesicle	cholesterol binding|cholesterol transporter activity|phosphatidylcholine binding|phospholipid transporter activity|triglyceride binding			central_nervous_system(1)|skin(1)	2						ACCCTGGCCCTGCTGGGCAAT	0.617													7	48					0	0	1	0	0		C	56995923	C	C	56995923	3	2	27	1	0	0	0	0	1	0	0	0	3280	1580	55	3	34	3	CETP	16	56995923	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	21921	56995923	33358830	6583	28934											
GPR114	221188	broad.mit.edu	37	chr16	57601918	57601918	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgctgccctgcactacgcGctgctcagctgcctcacctg	4	8	10	19	3	2	0	2	0	0	0	2	0	2	0	4	0	6	5	4	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:57601918G>A	uc002elx.3	+	9	1057	c.972G>A	c.(970-972)GCG>GCA	p.A324A	GPR114_uc010vhr.1_Silent_p.A324A|GPR114_uc002ely.2_Silent_p.A324A	NM_153837	NP_722579	Q8IZF4	GP114_HUMAN	G protein-coupled receptor 114 precursor	324	Helical; Name=3; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)	1						TGCACTACGCGCTGCTCAGCT	0.607													13	47					0	0	1	0	0		A	57601918	A	A	57601918	2	1	27	1	0	0	0	0	0	0	0	1	6646	1074	38	1		1	GPR114	16	57601918	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	605995	57601918	32752835	6584	28935											
CCDC135	84229	broad.mit.edu	37	chr16	57732783	57732783	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttaccaaggacactatTgacatctccaagctgcccat	11	10	6	14	0	1	1	0	1	1	0	2	2	1	2	4	1	3	1	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:57732783T>C	uc002emi.2	+	3	314	c.225T>C	c.(223-225)ATT>ATC	p.I75I	CCDC135_uc002emj.2_Silent_p.I75I|CCDC135_uc002emk.2_Silent_p.I75I	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	75						cytoplasm				central_nervous_system(1)	1						AGGACACTATTGACATCTCCA	0.547													5	155					0	0	1	0	0		C	57732783	C	C	57732783	2	2	27	1	0	0	0	0	0	0	0	1	2772	1800	63	3		3	CCDC135	16	57732783	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	130865	57732783	32621970	6585	28936											
KATNB1	10300	broad.mit.edu	37	chr16	57790289	57790289	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtccagacgggctgcacCtccctgaagctgatcctgca	8	8	10	15	2	0	3	0	2	0	1	3	3	3	3	4	1	4	4	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:57790289C>A	uc002eml.1	+	19	2114	c.1740C>A	c.(1738-1740)ACC>ACA	p.T580T		NM_005886	NP_005877	Q9BVA0	KTNB1_HUMAN	katanin p80 subunit B 1	580	Interaction with KATNA1 and NDEL1 (By similarity).				cell division|mitosis|negative regulation of microtubule depolymerization|positive regulation of microtubule depolymerization|protein targeting	katanin complex|microtubule|spindle pole	microtubule binding|protein heterodimerization activity				0		all_neural(199;0.223)				CGGGCTGCACCTCCCTGAAGC	0.572													12	145					7.03913e-09	7.75164e-09	1	1	0		A	57790289	A	A	57790289	2	1	27	1	0	0	0	0	0	0	0	1	8003	668	24	5		5	KATNB1	16	57790289	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	57506	57790289	32564464	6586	28937											
TEPP	374739	broad.mit.edu	37	chr16	58011825	58011825	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcagcgcaaccagctggcGggcgtgaagcagcagctcta	9	4	15	13	4	1	1	0	1	1	0	1	1	1	1	1	3	6	6	1	3	3	1	rs34782585	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:58011825G>A	uc002emw.3	+	2	307	c.270G>A	c.(268-270)GCG>GCA	p.A90A	TEPP_uc002emv.3_Silent_p.A90A	NM_199456	NP_955535	Q6URK8	TEPP_HUMAN	testis/prostate/placenta-expressed protein	90						extracellular region				kidney(1)|central_nervous_system(1)|skin(1)	3						ACCAGCTGGCGGGCGTGAAGC	0.652													20	41					0	0	1	0	0		A	58011825	A	A	58011825	2	1	27	1	0	0	0	0	0	0	0	1	15785	1103	39	1		1	TEPP	16	58011825	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	221536	58011825	32342928	6587	28938											
ZNF319	57567	broad.mit.edu	37	chr16	58031417	58031417	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagggccgctcggagctgtgCgtgcgcttgtggtgcaccag	4	9	17	11	4	0	0	0	0	0	0	1	1	0	1	2	3	4	4	2	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:58031417C>T	uc002emx.1	-	2	1376	c.753G>A	c.(751-753)ACG>ACA	p.T251T		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	251	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGGAGCTGTGCGTGCGCTTGT	0.627													14	77					0	0	1	0	0		T	58031417	T	T	58031417	2	4	27	1	0	0	0	0	0	0	0	1	17862	755	27	1		1	ZNF319	16	58031417	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	19592	58031417	32323336	6588	28939											
CSNK2A2	1459	broad.mit.edu	37	chr16	58200527	58200527	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtggatctaggtctatgTgatacttcttcagataccca	10	14	9	8	0	4	2	1	1	3	1	4	3	4	3	1	2	2	0	1	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:58200527T>C	uc002enc.2	-	9	930	c.788A>G	c.(787-789)CAC>CGC	p.H263R		NM_001896	NP_001887	P19784	CSK22_HUMAN	casein kinase 2, alpha prime polypeptide	263	Protein kinase.				axon guidance|Wnt receptor signaling pathway	cytosol|nucleus	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						TAGGTCTATGTGATACTTCTT	0.438													4	77					0	0	1	0	0		C	58200527	C	C	58200527	3	2	27	1	0	0	0	0	1	0	0	0	3961	1696	59	3	276	3	CSNK2A2	16	58200527	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	169110	58200527	32154226	6589	28940											
GINS3	64785	broad.mit.edu	37	chr16	58438412	58438412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttcccagacttttatcGgacgttttcgccgcatcatg	6	16	8	11	4	1	1	1	0	0	1	4	2	2	2	2	1	0	3	2	1	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:58438412G>A	uc002enh.3	+	3	638	c.430G>A	c.(430-432)GGA>AGA	p.G144R	GINS3_uc010cdj.2_Missense_Mutation_p.G183R|GINS3_uc002enj.3_Missense_Mutation_p.G66R|GINS3_uc002eni.3_Missense_Mutation_p.R145Q	NM_022770	NP_073607	Q9BRX5	PSF3_HUMAN	GINS complex subunit 3 isoform b	144					DNA replication	nucleus					0						GACTTTTATCGGACGTTTTCG	0.463													4	55					0	0	1	0	0		A	58438412	A	A	58438412	3	1	27	1	0	0	0	0	1	0	0	0	6404	1117	39	1	561	1	GINS3	16	58438412	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	237885	58438412	31916341	6590	28941											
SETD6	79918	broad.mit.edu	37	chr16	58550154	58550154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtgccactgctgctggCgctgctccacgagctgcagg	4	8	15	14	2	0	0	0	0	0	0	1	1	1	0	2	3	6	6	2	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:58550154C>T	uc002ens.2	+	3	442	c.383C>T	c.(382-384)GCG>GTG	p.A128V	SETD6_uc010cdl.2_Missense_Mutation_p.A128V|SETD6_uc002enr.2_Missense_Mutation_p.A104V|SETD6_uc010cdm.2_RNA|SETD6_uc010vij.1_Missense_Mutation_p.A52V	NM_001160305	NP_001153777	Q8TBK2	SETD6_HUMAN	SET domain containing 6 isoform a	128	SET.				negative regulation of NF-kappaB transcription factor activity|peptidyl-lysine monomethylation|regulation of inflammatory response	nucleus	NF-kappaB binding|protein-lysine N-methyltransferase activity			ovary(1)	1						CTGCTGCTGGCGCTGCTCCAC	0.567													4	37					0	0	1	0	0		T	58550154	T	T	58550154	3	4	27	1	0	0	0	0	1	0	0	0	14160	768	27	1	393	1	SETD6	16	58550154	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	111742	58550154	31804599	6591	28942											
CNOT1	23019	broad.mit.edu	37	chr16	58589714	58589714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacagacatggttggatgtgGtggatgattatatattcgct	11	14	12	4	1	0	2	0	1	0	1	1	4	0	4	0	4	1	2	0	4	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:58589714G>A	uc002env.2	-	20	2871	c.2578C>T	c.(2578-2580)CCA>TCA	p.P860S	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.P855S|CNOT1_uc002enx.2_Missense_Mutation_p.P860S|CNOT1_uc002enz.1_Missense_Mutation_p.P289S	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	860					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		GTTGGATGTGGTGGATGATTA	0.393													4	59					0	0	1	0	0		A	58589714	A	A	58589714	3	1	27	1	0	0	0	0	1	0	0	0	3620	1261	44	4	4894	4	CNOT1	16	58589714	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39560	58589714	31765039	6592	28943											
SLC38A7	55238	broad.mit.edu	37	chr16	58712265	58712265	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctggaaaccaatctcccTggggatggagaggggcagga	10	8	15	8	0	2	1	0	0	2	1	3	5	2	4	2	7	1	1	2	7	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:58712265T>C	uc002eod.1	-	5	976	c.583A>G	c.(583-585)AGG>GGG	p.R195G	SLC38A7_uc002eob.1_RNA|SLC38A7_uc002eoc.1_Missense_Mutation_p.R195G|SLC38A7_uc010vil.1_Missense_Mutation_p.R106G|SLC38A7_uc002eoe.1_Missense_Mutation_p.R195G	NM_018231	NP_060701	Q9NVC3	S38A7_HUMAN	solute carrier family 38, member 7	195	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane				ovary(1)	1						CCAATCTCCCTGGGGATGGAG	0.607													9	66					0	0	1	0	0		C	58712265	C	C	58712265	3	2	27	1	0	0	0	0	1	0	0	0	14634	1579	55	3	837	3	SLC38A7	16	58712265	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	122551	58712265	31642488	6593	28944											
CDH11	1009	broad.mit.edu	37	chr16	65032464	65032464	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcctcccacaccgtacgcaCccacattggacctctcaggc	8	6	8	19	2	1	0	1	0	1	0	3	1	2	1	5	3	1	2	5	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:65032464C>G	uc002eoi.2	-	4	957	c.523_splice	c.e4+1	p.G175_splice	CDH11_uc010cdn.2_Splice_Site|CDH11_uc002eoj.2_Splice_Site_p.G175_splice|CDH11_uc010vin.1_Splice_Site_p.G49_splice	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		ACCGTACGCACCCACATTGGA	0.562			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			5	101					0	0	1	0	0		G	65032464	G	G	65032464	5	3	27	1	0	0	0	0	0	0	1	0	3100	521	18	5	1906	5	CDH11	16	65032464	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6320199	65032464	25322289	6594	28945											
CDH5	1003	broad.mit.edu	37	chr16	66424419	66424419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaccaagtacagcatcttgCggggcgactaccaggacgct	10	7	12	12	3	1	1	0	1	1	0	1	3	1	2	2	3	4	3	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:66424419C>T	uc002eom.3	+	6	1051	c.895C>T	c.(895-897)CGG>TGG	p.R299W	CDH5_uc002eon.1_Missense_Mutation_p.R299W	NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	299	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		CAGCATCTTGCGGGGCGACTA	0.562													13	55					0	0	1	0	0		T	66424419	T	T	66424419	3	4	27	1	0	0	0	0	1	0	0	0	3116	759	27	1	913	1	CDH5	16	66424419	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1391955	66424419	23930334	6595	28946											
TK2	7084	broad.mit.edu	37	chr16	66575795	66575795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtacctcgacgtctgtcGcgttggagaagaattccagg	8	10	13	10	4	1	2	0	0	1	2	4	4	2	2	2	2	1	3	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:66575795G>A	uc002eos.2	-	3	569	c.344C>T	c.(343-345)GCG>GTG	p.A115V	TK2_uc010vip.1_5'UTR|TK2_uc002eor.2_Missense_Mutation_p.A42V|TK2_uc010cdq.2_Missense_Mutation_p.A42V|TK2_uc010cdr.2_Missense_Mutation_p.A24V|TK2_uc010viq.1_Missense_Mutation_p.A115V|TK2_uc010vir.1_Intron	NM_004614	NP_004605	O00142	KITM_HUMAN	thymidine kinase 2, mitochondrial	73					pyrimidine base metabolic process|pyrimidine nucleoside salvage	mitochondrial matrix	ATP binding|phosphotransferase activity, alcohol group as acceptor|thymidine kinase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0736)|Epithelial(162;0.237)		GACGTCTGTCGCGTTGGAGAA	0.448													13	106					0	0	1	0	0		A	66575795	A	A	66575795	3	1	27	1	0	0	0	0	1	0	0	0	15958	1087	38	1	611	1	TK2	16	66575795	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	151376	66575795	23778958	6596	28947											
CKLF	51192	broad.mit.edu	37	chr16	66586642	66586642	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gataacgtgcagccgaaaatAaaacatcgccccttctgctt	13	9	7	12	3	1	0	0	0	1	0	2	2	1	0	3	0	5	2	3	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:66586642A>G	uc002eow.2	+	1	171	c.24A>G	c.(22-24)ATA>ATG	p.I8M	CKLF_uc002eox.1_Missense_Mutation_p.I8M|CKLF_uc002eot.2_Missense_Mutation_p.I8M|CKLF_uc002eou.2_Missense_Mutation_p.I8M|CKLF_uc002eov.2_Missense_Mutation_p.I8M	NM_016951	NP_058647	Q9UBR5	CKLF_HUMAN	chemokine-like factor isoform a	8					cell proliferation|lymphocyte chemotaxis|macrophage chemotaxis|neutrophil chemotaxis|secretion by cell	extracellular space|integral to membrane	chemokine activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0689)|Epithelial(162;0.217)		AGCCGAAAATAAAACATCGCC	0.597													3	76					0	0	1	0	0		G	66586642	G	G	66586642	3	3	27	1	0	0	0	0	1	0	0	0	3450	352	13	3	26	3	CKLF	16	66586642	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10847	66586642	23768111	6597	28948											
CMTM2	146225	broad.mit.edu	37	chr16	66613716	66613716	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacgaggagggggtgtcGccgctaccggtgggaattaa	8	6	19	8	4	0	0	0	0	0	0	1	3	0	2	2	6	1	2	2	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:66613716G>T	uc002ept.2	+	1	366	c.206G>T	c.(205-207)CGC>CTC	p.R69L	CMTM2_uc010cdu.2_Missense_Mutation_p.R69L	NM_144673	NP_653274	Q8TAZ6	CKLF2_HUMAN	chemokine-like factor superfamily 2	69					chemotaxis	extracellular space|integral to membrane	cytokine activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.068)|Epithelial(162;0.212)		AGGGGGTGTCGCCGCTACCGG	0.542													5	70					1.23904e-05	1.32877e-05	1	1	0		T	66613716	T	T	66613716	3	4	27	1	0	0	0	0	1	0	0	0	3586	1087	38	5	208	5	CMTM2	16	66613716	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27074	66613716	23741037	6598	28949											
DYNC1LI2	1783	broad.mit.edu	37	chr16	66764088	66764088	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggttgtaaaattttcatgtAaaatagctattttcttttca	12	19	5	5	1	3	0	2	0	1	0	3	0	3	0	0	1	1	4	0	1	6	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:66764088A>G	uc002eqb.1	-	8	999	c.968T>C	c.(967-969)TTA>TCA	p.L323S	DYNC1LI2_uc010vis.1_Missense_Mutation_p.L246S	NM_006141	NP_006132	O43237	DC1L2_HUMAN	dynein, cytoplasmic, light intermediate	323					transport	centrosome|cytoplasmic dynein complex|microtubule	ATP binding|motor activity			central_nervous_system(3)|skin(1)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0907)|Epithelial(162;0.212)		ATTTTCATGTAAAATAGCTAT	0.418													5	55					0	0	1	0	0		G	66764088	G	G	66764088	3	3	27	1	0	0	0	0	1	0	0	0	4851	372	13	3	534	3	DYNC1LI2	16	66764088	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	150372	66764088	23590665	6599	28950											
C16orf70	80262	broad.mit.edu	37	chr16	67180991	67180991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcggtgaccctgtatggccCccccaggcctggtagccacc	5	7	11	18	1	0	1	0	1	0	0	1	1	0	1	7	4	1	2	7	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67180991C>T	uc002erc.2	+	17	1310	c.1226C>T	c.(1225-1227)CCC>CTC	p.P409L	C16orf70_uc002erd.2_Missense_Mutation_p.P409L|uc002erg.1_5'Flank	NM_025187	NP_079463	Q9BSU1	CP070_HUMAN	lin-10	409										ovary(2)	2		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0017)|Epithelial(162;0.00655)|all cancers(182;0.0579)		CTGTATGGCCCCCCCAGGCCT	0.592													20	97					0	0	1	0	0		T	67180991	T	T	67180991	3	4	27	1	0	0	0	0	1	0	0	0	1832	623	22	4	1288	4	C16orf70	16	67180991	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	416903	67180991	23173762	6600	28951											
NOL3	8996	broad.mit.edu	37	chr16	67208597	67208597	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacccggctcggggaccacAtgccccgggttgcccagagc	6	4	14	17	3	0	1	0	0	0	1	1	2	0	2	5	4	3	3	5	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67208597A>G	uc010vjd.1	+	3	552	c.545A>G	c.(544-546)CAT>CGT	p.H182R	NOL3_uc010vjc.1_Silent_p.T185T|NOL3_uc002erp.2_Silent_p.T123T			O60936	NOL3_HUMAN	RecName: Full=Nucleolar protein 3; AltName: Full=Apoptosis repressor with CARD; AltName: Full=Muscle-enriched cytoplasmic protein;          Short=Myp; AltName: Full=Nucleolar protein of 30 kDa;          Short=Nop30;	120					anti-apoptosis|apoptosis|mRNA processing|RNA splicing	cytosol|nucleolus	identical protein binding|RNA binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		CGGGGACCACATGCCCCGGGT	0.716													3	27					0	0	1	0	0		G	67208597	G	G	67208597	3	3	27	1	0	0	0	0	1	0	0	0	10542	217	8	3	375	3	NOL3	16	67208597	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	27606	67208597	23146156	6601	28952											
LRRC36	55282	broad.mit.edu	37	chr16	67381447	67381447	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagctgccaagctgcatttTagtcagttgggcaacagtga	12	10	11	8	0	1	1	1	1	0	0	1	1	1	1	1	1	5	5	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67381447T>C	uc002esv.2	+	4	460	c.441T>C	c.(439-441)TTT>TTC	p.F147F	LRRC36_uc002esw.2_RNA|LRRC36_uc010ceh.2_Silent_p.F26F|LRRC36_uc002esx.2_Silent_p.F26F|LRRC36_uc010vjk.1_Silent_p.F26F|LRRC36_uc010vjl.1_5'UTR|LRRC36_uc002esy.2_5'UTR	NM_018296	NP_060766	Q1X8D7	LRC36_HUMAN	leucine rich repeat containing 36 isoform 1	147											0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0669)|Epithelial(162;0.161)		AGCTGCATTTTAGTCAGTTGG	0.378													4	77					0	0	1	0	0		C	67381447	C	C	67381447	2	2	27	1	0	0	0	0	0	0	0	1	9008	1751	61	3		3	LRRC36	16	67381447	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	172850	67381447	22973306	6602	28953											
FAM65A	79567	broad.mit.edu	37	chr16	67575559	67575559	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcttcccttcccagcccCttcgacaaggatgaccagcc	7	8	7	19	1	1	1	0	1	1	0	4	3	3	2	7	1	2	0	7	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67575559C>A	uc010vjp.1	+	12	1110	c.1014C>A	c.(1012-1014)CCC>CCA	p.P338P	FAM65A_uc010cei.1_Silent_p.P160P|FAM65A_uc002eth.2_Silent_p.P318P|FAM65A_uc010cej.2_Silent_p.P321P|FAM65A_uc002eti.1_Silent_p.P281P|FAM65A_uc010vjq.1_Silent_p.P332P|FAM65A_uc002etj.1_Silent_p.P317P|FAM65A_uc002etk.2_Silent_p.P317P	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	322						cytoplasm	binding	p.T338S(1)		ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		TTCCCAGCCCCTTCGACAAGG	0.612													7	47					0.0293803	0.0298427	1	1	0		A	67575559	A	A	67575559	2	1	27	1	0	0	0	0	0	0	0	1	5613	668	24	5		5	FAM65A	16	67575559	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	194112	67575559	22779194	6603	28954											
FAM65A	79567	broad.mit.edu	37	chr16	67575891	67575891	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgccactcaccagcccctaGgcccctggtgcagcagcccg	6	4	10	21	2	1	0	1	0	0	0	1	0	1	0	8	2	4	2	8	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67575891G>T	uc010vjp.1	+	13	1358	c.1262G>T	c.(1261-1263)AGG>ATG	p.R421M	FAM65A_uc010cei.1_Missense_Mutation_p.R243M|FAM65A_uc002eth.2_Missense_Mutation_p.R401M|FAM65A_uc010cej.2_Missense_Mutation_p.R404M|FAM65A_uc002eti.1_Missense_Mutation_p.R364M|FAM65A_uc010vjq.1_Missense_Mutation_p.R415M|FAM65A_uc002etj.1_Missense_Mutation_p.R400M|FAM65A_uc002etk.2_Missense_Mutation_p.R400M	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	405						cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		CCAGCCCCTAGGCCCCTGGTG	0.652													7	52					2.17888e-05	2.33116e-05	1	1	0		T	67575891	T	T	67575891	3	4	27	1	0	0	0	0	1	0	0	0	5613	1000	35	5	1248	5	FAM65A	16	67575891	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	332	67575891	22778862	6604	28955											
ACD	65057	broad.mit.edu	37	chr16	67693469	67693469	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgtagccggggctgctcCgtgggcagcaggctgaagcg	6	5	17	13	4	0	1	0	1	0	0	1	1	1	1	3	4	4	6	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67693469C>A	uc002etq.3	-	4	979	c.642G>T	c.(640-642)ACG>ACT	p.T214T	ACD_uc002etp.3_Silent_p.T211T|ACD_uc002etr.3_Silent_p.T211T|ACD_uc010vjt.1_Nonsense_Mutation_p.G234*|PARD6A_uc002ets.2_5'Flank|PARD6A_uc002ett.2_5'Flank|PARD6A_uc002etu.2_5'Flank	NM_001082486	NP_001075955	Q96AP0	ACD_HUMAN	adrenocortical dysplasia homolog isoform 1	214					intracellular protein transport|negative regulation of telomere maintenance via telomerase|positive regulation of single-stranded telomeric DNA binding|positive regulation of telomerase activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|telomere assembly	nuclear telomere cap complex|nucleoplasm	DNA binding|DNA polymerase binding			pancreas(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		GGGGCTGCTCCGTGGGCAGCA	0.667													4	46					0.150653	0.151846	1	1	0		A	67693469	A	A	67693469	2	1	27	1	0	0	0	0	0	0	0	1	135	639	23	5		5	ACD	16	67693469	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	117578	67693469	22661284	6605	28956											
C16orf48	84080	broad.mit.edu	37	chr16	67697179	67697179	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggctctcagtgagtctGccccagcaggcagcagtacc	7	8	12	14	0	3	1	1	1	3	0	4	1	3	1	3	2	4	5	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67697179G>A	uc002etw.1	-	7	1209	c.926C>T	c.(925-927)GCA>GTA	p.A309V	ACD_uc002etp.3_5'Flank|ACD_uc002etq.3_5'Flank|ACD_uc002etr.3_5'Flank|ACD_uc010vjt.1_5'Flank|C16orf48_uc002etv.1_Missense_Mutation_p.A191V|C16orf48_uc010cem.1_3'UTR	NM_032140	NP_115516	Q9H0I2	CP048_HUMAN	hypothetical protein LOC84080	309						microtubule cytoskeleton	protein binding				0		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		CAGTGAGTCTGCCCCAGCAGG	0.627													5	98					0	0	1	0	0		A	67697179	A	A	67697179	3	1	27	1	0	0	0	0	1	0	0	0	1819	1319	46	2	118	2	C16orf48	16	67697179	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3710	67697179	22657574	6606	28957											
RANBP10	57610	broad.mit.edu	37	chr16	67763897	67763897	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agccctgggtagaagcgctgGgtggtctcgatggcctcgcc	5	8	16	12	3	1	1	0	0	1	1	3	2	1	1	3	4	2	2	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67763897G>A	uc002eud.2	-	8	1058	c.942C>T	c.(940-942)ACC>ACT	p.T314T	RANBP10_uc010ceo.2_Silent_p.T85T|RANBP10_uc010vju.1_Silent_p.T258T|RANBP10_uc010vjv.1_Silent_p.T197T|RANBP10_uc010vjw.1_5'UTR	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	314	CTLH.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		AGAAGCGCTGGGTGGTCTCGA	0.632													7	69					0	0	1	0	0		A	67763897	A	A	67763897	2	1	27	1	0	0	0	0	0	0	0	1	13051	1219	43	4		4	RANBP10	16	67763897	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	66718	67763897	22590856	6607	28958											
EDC4	23644	broad.mit.edu	37	chr16	67911221	67911221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggctgatctggctttcGcgcacctcaactctccacag	6	11	10	14	2	3	1	1	1	2	0	5	1	3	1	2	2	1	3	2	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67911221G>A	uc002eur.2	+	5	719	c.553G>A	c.(553-555)GCG>ACG	p.A185T	EDC4_uc010cer.2_5'UTR|EDC4_uc010vkg.1_Missense_Mutation_p.A117T|EDC4_uc010ces.1_Missense_Mutation_p.A28T|EDC4_uc002eus.2_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	185	WD 1.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		TCTGGCTTTCGCGCACCTCAA	0.572													7	41					0	0	1	0	0		A	67911221	A	A	67911221	3	1	27	1	0	0	0	0	1	0	0	0	4914	1087	38	1	571	1	EDC4	16	67911221	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	147324	67911221	22443532	6608	28959											
EDC4	23644	broad.mit.edu	37	chr16	67915267	67915267	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaaggactggaagaccaaGggatcccctcgaacctcacc	12	4	10	15	1	1	1	1	0	0	1	3	5	2	4	6	3	1	0	6	3	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67915267G>T	uc002eur.2	+	20	2902	c.2736G>T	c.(2734-2736)AAG>AAT	p.K912N	EDC4_uc010cer.2_Missense_Mutation_p.K531N|EDC4_uc002eus.2_Missense_Mutation_p.K642N|EDC4_uc002eut.1_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	912					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		GGAAGACCAAGGGATCCCCTC	0.572													7	111					0.0381472	0.0386818	1	1	0		T	67915267	T	T	67915267	3	4	27	1	0	0	0	0	1	0	0	0	4914	991	35	5	2814	5	EDC4	16	67915267	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4046	67915267	22439486	6609	28960											
NRN1L	123904	broad.mit.edu	37	chr16	67919655	67919655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccctggcagcagctgcagCgggcccaaaccgatgtgaca	9	5	12	15	2	0	1	0	1	0	0	1	2	1	1	4	2	5	4	4	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67919655C>T	uc002euu.2	+	2	136	c.110C>T	c.(109-111)GCG>GTG	p.A37V	EDC4_uc002eut.1_3'UTR	NM_198443	NP_940845	Q496H8	NRN1L_HUMAN	neuritin 1-like precursor	37						anchored to membrane|plasma membrane				central_nervous_system(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00415)|Epithelial(162;0.0182)|all cancers(182;0.119)		GCAGCTGCAGCGGGCCCAAAC	0.637													12	38					0	0	1	0	0		T	67919655	T	T	67919655	3	4	27	1	0	0	0	0	1	0	0	0	10678	768	27	1	116	1	NRN1L	16	67919655	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4388	67919655	22435098	6610	28961											
CTRL	1506	broad.mit.edu	37	chr16	67964403	67964403	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggcaaactggcgagatgCgtgttgtgtactgggctggc	7	9	16	9	2	0	1	0	0	0	1	0	2	0	1	1	4	3	4	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67964403C>A	uc002euw.2	-	5	417	c.407G>T	c.(406-408)CGC>CTC	p.R136L		NM_001907	NP_001898	P40313	CTRL_HUMAN	chymotrypsin-like precursor	136	Peptidase S1.				digestion|proteolysis	extracellular space	serine-type endopeptidase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)		TGGCGAGATGCGTGTTGTGTA	0.602													12	154					9.31168e-06	1.00265e-05	1	1	0		A	67964403	A	A	67964403	3	1	27	1	0	0	0	0	1	0	0	0	4031	768	27	5	399	5	CTRL	16	67964403	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	44748	67964403	22390350	6611	28962											
SLC12A4	6560	broad.mit.edu	37	chr16	67979673	67979673	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagggcactgacttctcgCtcccgctcagtcttggtcag	7	10	10	14	2	4	1	2	1	2	0	6	1	5	1	1	2	0	3	1	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:67979673C>T	uc002euz.2	-	21	2982	c.2841G>A	c.(2839-2841)GAG>GAA	p.E947E	LCAT_uc002euy.1_5'Flank|SLC12A4_uc010ceu.2_Silent_p.E941E|SLC12A4_uc010vkh.1_Silent_p.E916E|SLC12A4_uc010vki.1_Silent_p.E941E|SLC12A4_uc010vkj.1_Silent_p.E949E|SLC12A4_uc002eva.2_Silent_p.E947E|SLC12A4_uc010cev.1_RNA	NM_005072	NP_005063	Q9UP95	S12A4_HUMAN	solute carrier family 12, member 4 isoform a	947	Cytoplasmic (Potential).				cell volume homeostasis|potassium ion transport|sodium ion transport	integral to plasma membrane|membrane fraction	potassium:chloride symporter activity			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	TGACTTCTCGCTCCCGCTCAG	0.592													5	40					0	0	1	0	0		T	67979673	T	T	67979673	2	4	27	1	0	0	0	0	0	0	0	1	14410	796	28	2		2	SLC12A4	16	67979673	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15270	67979673	22375080	6612	28963											
DPEP3	64180	broad.mit.edu	37	chr16	68014116	68014116	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgctggggacacccggcgtGgtgaagaggctgggggagcc	6	4	21	10	3	0	2	0	1	0	1	0	4	0	4	2	7	1	2	2	7	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:68014116G>T	uc002evc.3	-	1	337	c.243C>A	c.(241-243)ACC>ACA	p.T81T	DPEP3_uc010cex.2_Silent_p.T81T	NM_022357	NP_071752	Q9H4B8	DPEP3_HUMAN	dipeptidase 3 isoform a	56					meiosis	anchored to membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			breast(3)	3		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0117)|Epithelial(162;0.0481)|all cancers(182;0.236)		CACCCGGCGTGGTGAAGAGGC	0.657													4	35					5.9392e-07	6.46363e-07	1	1	0		T	68014116	T	T	68014116	2	4	27	1	0	0	0	0	0	0	0	1	4721	1335	47	5		5	DPEP3	16	68014116	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	34443	68014116	22340637	6613	28964											
NFATC3	4775	broad.mit.edu	37	chr16	68156746	68156746	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgtccatggtgggtcaggCcttggccctgcagtttttcc	3	14	12	12	0	2	0	1	0	1	0	4	0	4	0	4	4	1	2	4	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:68156746C>T	uc002evo.1	+	2	1170	c.960C>T	c.(958-960)GGC>GGT	p.G320G	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Silent_p.G320G|NFATC3_uc002evm.1_Silent_p.G320G|NFATC3_uc002evn.1_Silent_p.G320G|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	320					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		GTGGGTCAGGCCTTGGCCCTG	0.498													5	100					0	0	1	0	0		T	68156746	T	T	68156746	2	4	27	1	0	0	0	0	0	0	0	1	10383	726	26	2		2	NFATC3	16	68156746	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	142630	68156746	22198007	6614	28965											
ESRP2	80004	broad.mit.edu	37	chr16	68264194	68264194	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgggtcaccaacaggcatcaGactggtgtagtcatcagcgg	10	8	13	10	1	4	1	4	0	0	1	4	1	4	1	1	4	2	2	1	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:68264194G>C	uc010cfa.1	-	15	2307	c.2119C>G	c.(2119-2121)CTG>GTG	p.L707V	ESRP2_uc002evp.1_RNA|ESRP2_uc002evq.1_Missense_Mutation_p.L697V	NM_024939	NP_079215	Q9H6T0	ESRP2_HUMAN	RNA binding motif protein 35B	707					mRNA processing|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding|nucleotide binding			ovary(1)	1						ACAGGCATCAGACTGGTGTAG	0.562											OREG0023896	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	117					0	0	1	0	0		C	68264194	C	C	68264194	3	2	27	1	0	0	0	0	1	0	0	0	5267	933	33	5	68	5	ESRP2	16	68264194	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	107448	68264194	22090559	6615	28966											
SLC7A6OS	84138	broad.mit.edu	37	chr16	68338046	68338046	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgtgtttttgttcttcctgGcgcctgactcctggtccatc	2	17	9	13	2	1	1	0	1	1	0	6	1	4	1	4	2	0	2	4	2	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:68338046G>A	uc002evw.1	-	3	580	c.561C>T	c.(559-561)CGC>CGT	p.R187R		NM_032178	NP_115554	Q96CW6	S7A6O_HUMAN	solute carrier family 7, member 6 opposite	187					protein transport	cytoplasm|nucleus				ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.106)		GTTCTTCCTGGCGCCTGACTC	0.488													17	131					0	0	1	0	0		A	68338046	A	A	68338046	2	1	27	1	0	0	0	0	0	0	0	1	14727	1190	42	2		2	SLC7A6OS	16	68338046	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	73852	68338046	22016707	6616	28967											
PRMT7	54496	broad.mit.edu	37	chr16	68373745	68373745	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgccatagcaggcggttTgaacctctgacatctggccg	7	9	12	13	2	2	2	0	2	2	0	2	2	2	2	4	3	3	2	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:68373745T>C	uc002evy.1	+	9	1077	c.801T>C	c.(799-801)TTT>TTC	p.F267F	PRMT7_uc002evx.1_Silent_p.F267F|PRMT7_uc010vlg.1_Silent_p.F217F|PRMT7_uc002evz.1_Silent_p.F113F	NM_019023	NP_061896	Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	267					cell differentiation|DNA methylation involved in gamete generation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	[myelin basic protein]-arginine N-methyltransferase activity|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N monomethyltransferase activity|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		GCAGGCGGTTTGAACCTCTGA	0.512													7	97					0	0	1	0	0		C	68373745	C	C	68373745	2	2	27	1	0	0	0	0	0	0	0	1	12563	1809	63	3		3	PRMT7	16	68373745	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	35699	68373745	21981008	6617	28968											
SMPD3	55512	broad.mit.edu	37	chr16	68397447	68397447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatcgtacaggccgttcGtgtccagcagagtacctggg	7	9	12	13	3	1	1	1	0	0	1	4	1	2	1	4	2	3	4	4	2	2	3	rs75117374	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:68397447G>A	uc002ewa.2	-	7	2083	c.1661C>T	c.(1660-1662)ACG>ATG	p.T554M	SMPD3_uc010cfe.2_Missense_Mutation_p.T554M|SMPD3_uc010vlh.1_Missense_Mutation_p.T546M	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	554	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	CAGGCCGTTCGTGTCCAGCAG	0.657													5	61					0	0	1	0	0		A	68397447	A	A	68397447	3	1	27	1	0	0	0	0	1	0	0	0	14831	1145	40	1	318	1	SMPD3	16	68397447	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23702	68397447	21957306	6618	28969											
CDH3	1001	broad.mit.edu	37	chr16	68712677	68712677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccacagctctttggccacGctgtgtcagagaatggtgcc	7	9	11	14	1	2	1	1	0	1	1	2	2	2	1	4	2	2	2	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:68712677G>A	uc002ewf.2	+	6	1691	c.559G>A	c.(559-561)GCT>ACT	p.A187T	CDH3_uc010vli.1_Missense_Mutation_p.A132T	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	187	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		CTTTGGCCACGCTGTGTCAGA	0.567													4	33					0	0	1	0	0		A	68712677	A	A	68712677	3	1	27	1	0	0	0	0	1	0	0	0	3114	1087	38	1	581	1	CDH3	16	68712677	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	315230	68712677	21642076	6619	28970											
CDH3	1001	broad.mit.edu	37	chr16	68716321	68716321	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctaccttatcatgggcggTgacgacggggaccattttac	9	10	11	11	3	1	1	1	1	0	0	1	3	1	2	3	4	2	0	3	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:68716321T>C	uc002ewf.2	+	9	2245	c.1113T>C	c.(1111-1113)GGT>GGC	p.G371G	CDH3_uc010vli.1_Silent_p.G316G	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	371	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		TCATGGGCGGTGACGACGGGG	0.592													3	44					0	0	1	0	0		C	68716321	C	C	68716321	2	2	27	1	0	0	0	0	0	0	0	1	3114	1683	59	3		3	CDH3	16	68716321	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3644	68716321	21638432	6620	28971											
CDH1	999	broad.mit.edu	37	chr16	68857436	68857436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgtgtgtgactgtgaagggGccgctggcgtctgtaggaag	6	9	19	7	3	1	2	0	2	1	0	1	3	1	3	1	4	0	2	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:68857436G>A	uc002ewg.1	+	13	2195	c.2071G>A	c.(2071-2073)GCC>ACC	p.A691T	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.A630T	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	691	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding			breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		CTGTGAAGGGGCCGCTGGCGT	0.488			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				11	108					0	0	1	0	0		A	68857436	A	A	68857436	3	1	27	1	0	0	0	0	1	0	0	0	3098	1203	42	2	2121	2	CDH1	16	68857436	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	141115	68857436	21497317	6621	28972											
SNTB2	6645	broad.mit.edu	37	chr16	69279604	69279604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagtcaccaagctttagtgGcagtgaggactctggttcgc	8	10	12	11	1	2	1	1	1	1	0	3	2	2	2	2	3	1	3	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:69279604G>A	uc002ewu.2	+	2	700	c.680G>A	c.(679-681)GGC>GAC	p.G227D		NM_006750	NP_006741	Q13425	SNTB2_HUMAN	basic beta 2 syntrophin	227	PH 1.					cell junction|dystrophin-associated glycoprotein complex|membrane fraction|microtubule|transport vesicle membrane	actin binding|calmodulin binding|protein binding				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.208)		AGCTTTAGTGGCAGTGAGGAC	0.493													18	189					0	0	1	0	0		A	69279604	A	A	69279604	3	1	27	1	0	0	0	0	1	0	0	0	14898	1203	42	2	686	2	SNTB2	16	69279604	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	422168	69279604	21075149	6622	28973											
SNTB2	6645	broad.mit.edu	37	chr16	69334808	69334808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttatcggccaaagtcactcGtatgggactgcttgtatgag	9	13	11	8	2	1	1	1	1	0	0	3	2	1	2	1	2	1	3	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:69334808G>A	uc002ewu.2	+	7	1624	c.1604G>A	c.(1603-1605)CGT>CAT	p.R535H	SNTB2_uc010cfk.2_5'Flank	NM_006750	NP_006741	Q13425	SNTB2_HUMAN	basic beta 2 syntrophin	535	Calmodulin-binding (By similarity).|SU.					cell junction|dystrophin-associated glycoprotein complex|membrane fraction|microtubule|transport vesicle membrane	actin binding|calmodulin binding|protein binding				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.208)		AAAGTCACTCGTATGGGACTG	0.413													6	64					0	0	1	0	0		A	69334808	A	A	69334808	3	1	27	1	0	0	0	0	1	0	0	0	14898	1145	40	1	1630	1	SNTB2	16	69334808	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55204	69334808	21019945	6623	28974											
TERF2	7014	broad.mit.edu	37	chr16	69401102	69401102	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttggaggattccgtagctgCctgcaaatcaagcataggca	11	9	12	9	1	1	0	1	0	0	0	2	2	2	2	2	3	4	6	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:69401102C>T	uc002exd.2	-	7	947	c.822G>A	c.(820-822)AGG>AGA	p.R274R		NM_005652	NP_005643	Q15554	TERF2_HUMAN	telomeric repeat binding factor 2	274					age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)				TCCGTAGCTGCCTGCAAATCA	0.443													5	62					0	0	1	0	0		T	69401102	T	T	69401102	2	4	27	1	0	0	0	0	0	0	0	1	15787	753	26	2		2	TERF2	16	69401102	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	66294	69401102	20953651	6624	28975											
NFAT5	10725	broad.mit.edu	37	chr16	69727557	69727557	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagcagcaacagcagcagCaacagcagcagcaacaacaa	19	0	9	13	0	0	0	0	0	0	0	0	0	0	0	0	0	13	9	0	0	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:69727557C>T	uc002exm.1	+	12	4983	c.3775C>T	c.(3775-3777)CAA>TAA	p.Q1259*	NFAT5_uc002exi.2_Nonsense_Mutation_p.Q1183*|NFAT5_uc002exj.1_Nonsense_Mutation_p.Q1183*|NFAT5_uc002exk.1_Nonsense_Mutation_p.Q1183*|NFAT5_uc002exl.1_Nonsense_Mutation_p.Q1277*|NFAT5_uc002exn.1_Nonsense_Mutation_p.Q1276*|NFAT5_uc002exo.1_RNA	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	1259	Poly-Gln.				excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						acagcagcagcaacagcagca	0.323													6	47					0	0	1	0	0		T	69727557	T	T	69727557	4	4	27	1	0	0	0	0	0	1	0	0	10379	711	25	2	3879	2	NFAT5	16	69727557	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	326455	69727557	20627196	6625	28976											
PDPR	55066	broad.mit.edu	37	chr16	70154527	70154527	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctgcccacccaggcacaGgtggtcatctgtggaggtgg	6	7	15	13	0	2	0	1	0	1	0	2	1	2	1	3	6	1	1	3	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:70154527G>T	uc002eyf.1	+	3	1089	c.132G>T	c.(130-132)CAG>CAT	p.Q44H	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Intron	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	44					glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		CCCAGGCACAGGTGGTCATCT	0.577													7	65					5.18039e-06	5.59131e-06	1	1	0		T	70154527	T	T	70154527	3	4	27	1	0	0	0	0	1	0	0	0	11708	991	35	5	134	5	PDPR	16	70154527	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	426970	70154527	20200226	6626	28977											
AARS	16	broad.mit.edu	37	chr16	70286780	70286780	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacacctgctgcacccactcGctggcttttaagccccgatt	7	10	8	16	2	0	0	0	0	0	0	1	2	0	0	4	1	3	4	4	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:70286780G>A	uc002eyn.1	-	21	2861	c.2751C>T	c.(2749-2751)AGC>AGT	p.S917S	EXOSC6_uc002eym.1_5'Flank|AARS_uc010vlu.1_Silent_p.S763S	NM_001605	NP_001596	P49588	SYAC_HUMAN	alanyl-tRNA synthetase	917					alanyl-tRNA aminoacylation|tRNA processing	cytosol|soluble fraction	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			pancreas(1)	1		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)	L-Alanine(DB00160)	GCACCCACTCGCTGGCTTTTA	0.562											OREG0023912	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	83					0	0	1	0	0		A	70286780	A	A	70286780	2	1	27	1	0	0	0	0	0	0	0	1	19	1078	38	1		1	AARS	16	70286780	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	132253	70286780	20067973	6627	28978											
AARS	16	broad.mit.edu	37	chr16	70302259	70302259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgtatcggacagctcggCggagaatccgtctcaacaca	10	6	13	12	5	1	1	1	0	1	1	5	3	2	2	1	4	2	2	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:70302259C>T	uc002eyn.1	-	8	1096	c.986G>A	c.(985-987)CGC>CAC	p.R329H	AARS_uc010vlu.1_Missense_Mutation_p.R159H	NM_001605	NP_001596	P49588	SYAC_HUMAN	alanyl-tRNA synthetase	329			R -> H (in CMT2N).		alanyl-tRNA aminoacylation|tRNA processing	cytosol|soluble fraction	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			pancreas(1)	1		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)	L-Alanine(DB00160)	GACAGCTCGGCGGAGAATCCG	0.502													7	62					0	0	1	0	0		T	70302259	T	T	70302259	3	4	27	1	0	0	0	0	1	0	0	0	19	768	27	1	1976	1	AARS	16	70302259	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15479	70302259	20052494	6628	28979											
AARS	16	broad.mit.edu	37	chr16	70304204	70304204	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcccatccctgtgtcaatGcttttcttgggaagaggttt	7	14	11	9	0	2	1	1	0	1	1	3	2	3	2	2	3	1	2	2	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:70304204G>A	uc002eyn.1	-	6	821	c.711C>T	c.(709-711)AGC>AGT	p.S237S	AARS_uc010vlu.1_Silent_p.S67S	NM_001605	NP_001596	P49588	SYAC_HUMAN	alanyl-tRNA synthetase	237					alanyl-tRNA aminoacylation|tRNA processing	cytosol|soluble fraction	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			pancreas(1)	1		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)	L-Alanine(DB00160)	CTGTGTCAATGCTTTTCTTGG	0.483													6	81					0	0	1	0	0		A	70304204	A	A	70304204	2	1	27	1	0	0	0	0	0	0	0	1	19	1310	46	2		2	AARS	16	70304204	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1945	70304204	20050549	6629	28980											
DDX19A	55308	broad.mit.edu	37	chr16	70350004	70350004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagtcttttgaagagcttcGgctgtgagtatttattcacc	9	15	10	7	1	2	3	1	2	1	1	3	4	2	3	1	1	1	3	1	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:70350004G>A	uc002eys.2	+	4	422	c.293G>A	c.(292-294)CGG>CAG	p.R98Q	DDX19B_uc010vly.1_Missense_Mutation_p.R98Q|DDX19B_uc010vlv.1_Missense_Mutation_p.R103Q|DDX19B_uc010vlw.1_5'UTR|DDX19B_uc002eyo.2_Missense_Mutation_p.R98Q|DDX19B_uc002eyp.2_Missense_Mutation_p.R98Q|DDX19B_uc002eyq.2_5'UTR|DDX19B_uc002eyr.2_5'UTR|DDX19B_uc010vlx.1_5'UTR|uc002eyt.2_RNA	NM_007242	NP_009173	Q9NUU7	DD19A_HUMAN	DEAD (Asp-Glu-Ala-As) box polypeptide 19 isoform	97	Q motif.				mRNA transport|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|RNA binding				0		Ovarian(137;0.221)				GAAGAGCTTCGGCTGTGAGTA	0.438													13	172					0	0	1	0	0		A	70350004	A	A	70350004	3	1	27	1	0	0	0	0	1	0	0	0	4349	1116	39	1		1	DDX19A	16	70350004	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	45800	70350004	20004749	6630	28981											
ST3GAL2	6483	broad.mit.edu	37	chr16	70429011	70429011	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcggtaggggttctcgccaGgcactatctggaacagcttc	8	9	13	11	2	2	0	0	0	2	0	4	1	2	1	1	5	3	4	1	5	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:70429011G>T	uc002eyw.2	-	2	2515	c.407C>A	c.(406-408)CCT>CAT	p.P136H	ST3GAL2_uc002eyx.2_Missense_Mutation_p.P136H	NM_006927	NP_008858	Q16842	SIA4B_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	136	Lumenal (Potential).				amino sugar metabolic process	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity			ovary(1)	1		Ovarian(137;0.0694)				GTTCTCGCCAGGCACTATCTG	0.627													12	154					9.31168e-06	1.00265e-05	1	1	0		T	70429011	T	T	70429011	3	4	27	1	0	0	0	0	1	0	0	0	15240	1000	35	5	665	5	ST3GAL2	16	70429011	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	79007	70429011	19925742	6631	28982											
FUK	197258	broad.mit.edu	37	chr16	70503129	70503129	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacttcctggtggggaggccCccagagttggggcaaggcga	7	6	18	10	1	0	1	0	0	0	1	1	4	1	2	3	7	0	2	3	7	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:70503129C>G	uc002eyy.2	+	10	916	c.858C>G	c.(856-858)CCC>CCG	p.P286P	FUK_uc010cft.2_Silent_p.P318P|FUK_uc002eyz.2_Intron	NM_145059	NP_659496	Q8N0W3	FUK_HUMAN	fucokinase	286						cytoplasm	ATP binding|fucokinase activity			ovary(1)	1		Ovarian(137;0.0694)				TGGGGAGGCCCCCAGAGTTGG	0.602													7	113					0	0	1	0	0		G	70503129	G	G	70503129	2	3	27	1	0	0	0	0	0	0	0	1	6110	610	22	5		5	FUK	16	70503129	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	74118	70503129	19851624	6632	28983											
SF3B3	23450	broad.mit.edu	37	chr16	70588357	70588357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttctttttcagatgagtttGatgcctacatcattgtgtct	7	20	7	7	0	4	3	2	2	2	1	4	3	4	3	1	0	2	1	1	0	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:70588357G>A	uc002ezf.2	+	12	1622	c.1411G>A	c.(1411-1413)GAT>AAT	p.D471N		NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3	471					protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				AGATGAGTTTGATGCCTACAT	0.423													10	107					0	0	1	0	0		A	70588357	A	A	70588357	3	1	27	1	0	0	0	0	1	0	0	0	14177	1290	45	4	1453	4	SF3B3	16	70588357	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	85228	70588357	19766396	6633	28984											
SF3B3	23450	broad.mit.edu	37	chr16	70590845	70590845	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccagcctgagtccttgtgTatcgtggaaatgggtgggac	7	10	15	9	1	0	1	0	1	0	0	2	3	1	3	3	3	1	1	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:70590845T>C	uc002ezf.2	+	15	2134	c.1923T>C	c.(1921-1923)TGT>TGC	p.C641C		NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3	641					protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				AGTCCTTGTGTATCGTGGAAA	0.488													4	75					0	0	1	0	0		C	70590845	C	C	70590845	2	2	27	1	0	0	0	0	0	0	0	1	14177	1644	57	3		3	SF3B3	16	70590845	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2488	70590845	19763908	6634	28985											
HYDIN	54768	broad.mit.edu	37	chr16	70871608	70871608	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaccttcattttggtaccCttccctttgatttcgactgt	5	19	6	11	1	1	1	1	1	0	0	3	2	2	1	3	1	2	2	3	1	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:70871608C>A	uc002ezr.2	-	77	13352	c.13224G>T	c.(13222-13224)AAG>AAT	p.K4408N	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4409										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TTTTGGTACCCTTCCCTTTGA	0.463													6	59					8.12818e-05	8.61523e-05	1	1	0		A	70871608	A	A	70871608	3	1	27	1	0	0	0	0	1	0	0	0	7483	680	24	5	2178	5	HYDIN	16	70871608	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	280763	70871608	19483145	6635	28986											
HYDIN	54768	broad.mit.edu	37	chr16	70917850	70917850	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggcttcagctagcaaagTgtaaagaatgccggcagggt	13	7	13	8	1	1	1	1	0	0	1	1	1	1	1	1	3	3	5	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:70917850T>C	uc002ezr.2	-	59	10077	c.9949A>G	c.(9949-9951)ACT>GCT	p.T3317A		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3318										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GCTAGCAAAGTGTAAAGAATG	0.458													3	57					0	0	1	0	0		C	70917850	C	C	70917850	3	2	27	1	0	0	0	0	1	0	0	0	7483	1696	59	3	5525	3	HYDIN	16	70917850	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	46242	70917850	19436903	6636	28987											
HYDIN	54768	broad.mit.edu	37	chr16	70986455	70986455	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttctggggccaccagagTcatctcggaggctaacttgc	9	10	11	11	1	3	1	1	0	2	1	4	2	3	2	2	4	2	1	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:70986455T>A	uc002ezr.2	-	41	6525	c.6397A>T	c.(6397-6399)ACT>TCT	p.T2133S		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	2134										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GCCACCAGAGTCATCTCGGAG	0.552													4	48					0	0	1	0	0		A	70986455	A	A	70986455	3	1	27	1	0	0	0	0	1	0	0	0	7483	1667	58	5	9149	5	HYDIN	16	70986455	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	68605	70986455	19368298	6637	28988											
HYDIN	54768	broad.mit.edu	37	chr16	71218785	71218785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	taccttctgatgtgttgtttCccccatatctaagagttcga	8	16	7	10	1	2	2	0	1	2	1	4	3	3	2	3	0	1	3	3	0	3	7	rs148583032		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:71218785C>T	uc002ezr.2	-	3	372	c.244G>A	c.(244-246)GAA>AAA	p.E82K	HYDIN_uc010cfz.1_5'UTR|HYDIN_uc002ezv.2_Missense_Mutation_p.E82K|HYDIN_uc010vmc.1_Missense_Mutation_p.E99K|HYDIN_uc010vmd.1_Missense_Mutation_p.E109K|HYDIN_uc002ezw.3_Missense_Mutation_p.E99K	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	82								p.E82K(2)		ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TGTGTTGTTTCCCCCATATCT	0.448													11	136					0	0	1	0	0		T	71218785	T	T	71218785	3	4	27	1	0	0	0	0	1	0	0	0	7483	864	30	4	15466	4	HYDIN	16	71218785	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	232330	71218785	19135968	6638	28989											
ZNF19	7567	broad.mit.edu	37	chr16	71512907	71512907	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctcgaaggtcaccatcTcctaaaacaacaggttcctg	12	9	6	14	1	2	0	1	0	1	0	6	1	4	0	4	2	2	1	4	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:71512907T>G	uc010cgc.1	-	4	541	c.35A>C	c.(34-36)GAG>GCG	p.E12A	ZNF23_uc002fai.2_5'UTR|ZNF19_uc002fak.1_5'UTR|ZNF19_uc002fal.1_5'UTR|ZNF19_uc002fam.1_Missense_Mutation_p.E12A	NM_006961	NP_008892	P17023	ZNF19_HUMAN	zinc finger protein 19	12						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(137;0.00965)		BRCA - Breast invasive adenocarcinoma(221;0.0161)|Kidney(780;0.0598)		GGTCACCATCTCCTAAAACAA	0.572													3	82					0	0	1	0	0		G	71512907	G	G	71512907	3	3	27	1	0	0	0	0	1	0	0	0	17780	1565	54	5	1353	5	ZNF19	16	71512907	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	294122	71512907	18841846	6639	28990											
TAT	6898	broad.mit.edu	37	chr16	71605530	71605530	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtctccatagatctcatcAgctaagatggggacacactg	12	10	9	10	0	3	2	2	0	2	2	5	3	3	3	1	2	1	1	1	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:71605530A>G	uc002fap.2	-	7	837	c.738T>C	c.(736-738)GCT>GCC	p.A246A		NM_000353	NP_000344	P17735	ATTY_HUMAN	tyrosine aminotransferase	246					2-oxoglutarate metabolic process|glutamate metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	1-aminocyclopropane-1-carboxylate synthase activity|L-tyrosine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(2)	2		Ovarian(137;0.125)		Kidney(780;0.0157)	L-Glutamic Acid(DB00142)|L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Pyridoxal Phosphate(DB00114)	AGATCTCATCAGCTAAGATGG	0.353													5	90					0	0	1	0	0		G	71605530	G	G	71605530	2	3	27	1	0	0	0	0	0	0	0	1	15615	175	7	3		3	TAT	16	71605530	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	92623	71605530	18749223	6640	28991											
MARVELD3	91862	broad.mit.edu	37	chr16	71663380	71663380	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaatgccacaaatgcaaatActtgtgcactgggagaggtg	13	8	13	7	0	0	1	0	0	0	1	0	3	0	2	1	3	4	2	1	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:71663380A>G	uc002fat.2	+	2	641	c.578A>G	c.(577-579)TAC>TGC	p.Y193C	MARVELD3_uc002fas.1_Missense_Mutation_p.Y193C|MARVELD3_uc002fau.2_Missense_Mutation_p.Y193C|MARVELD3_uc010cge.2_Missense_Mutation_p.T139A	NM_052858	NP_443090	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 2	193	MARVEL.|Cytoplasmic (Potential).					integral to membrane				skin(1)	1		Ovarian(137;0.125)				AAATGCAAATACTTGTGCACT	0.517													9	120					0	0	1	0	0		G	71663380	G	G	71663380	3	3	27	1	0	0	0	0	1	0	0	0	9337	391	14	3	584	3	MARVELD3	16	71663380	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	57850	71663380	18691373	6641	28992											
PHLPP2	23035	broad.mit.edu	37	chr16	71683225	71683225	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctatgagagggggtgagttCtccagatccctccccctgca	7	10	11	13	0	2	3	0	2	2	2	5	4	4	3	4	2	1	2	4	2	1	2	rs148712567	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:71683225C>T	uc002fax.2	-	18	3546	c.3540G>A	c.(3538-3540)GAG>GAA	p.E1180E	PHLPP2_uc002fav.2_Intron|PHLPP2_uc010cgf.2_Silent_p.E1113E	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	1180						cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						GGGGTGAGTTCTCCAGATCCC	0.527													6	68					0	0	1	0	0		T	71683225	T	T	71683225	2	4	27	1	0	0	0	0	0	0	0	1	11874	912	32	4		4	PHLPP2	16	71683225	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	19845	71683225	18671528	6642	28993											
HPR	3250	broad.mit.edu	37	chr16	72110871	72110871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaggacacctggtacgCggctgggatcctaagctttg	8	8	16	9	2	0	0	0	0	0	0	1	4	1	4	2	6	2	3	2	6	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:72110871C>T	uc002fby.2	+	5	968	c.938C>T	c.(937-939)GCG>GTG	p.A313V	TXNL4B_uc010cgl.2_Intron	NM_020995	NP_066275	P00739	HPTR_HUMAN	haptoglobin-related protein precursor	313	Peptidase S1.				proteolysis	spherical high-density lipoprotein particle	hemoglobin binding|serine-type endopeptidase activity			central_nervous_system(1)	1		Ovarian(137;0.125)				ACCTGGTACGCGGCTGGGATC	0.542													21	97					0	0	1	0	0		T	72110871	T	T	72110871	3	4	27	1	0	0	0	0	1	0	0	0	7353	768	27	1	956	1	HPR	16	72110871	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	427646	72110871	18243882	6643	28994											
DHX38	9785	broad.mit.edu	37	chr16	72131586	72131586	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttcatagatgagcgggaTagaagtaggcacagcagcag	13	7	13	8	1	2	3	1	1	1	2	2	4	2	4	0	2	3	4	0	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:72131586T>C	uc002fcb.2	+	4	877	c.522T>C	c.(520-522)GAT>GAC	p.D174D	DHX38_uc010vmp.1_Intron|DHX38_uc010cgn.1_Intron	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	174					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				ATGAGCGGGATAGAAGTAGGC	0.502													3	18					0	0	1	0	0		C	72131586	C	C	72131586	2	2	27	1	0	0	0	0	0	0	0	1	4517	1403	49	3		3	DHX38	16	72131586	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20715	72131586	18223167	6644	28995											
PMFBP1	83449	broad.mit.edu	37	chr16	72153953	72153953	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcttcagcttcttgtttTcctgctgcaagtggaccatt	5	17	7	12	0	3	0	1	0	2	0	4	1	4	1	3	1	3	4	3	1	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:72153953T>C	uc002fcc.3	-	20	2991	c.2819A>G	c.(2818-2820)GAA>GGA	p.E940G	PMFBP1_uc002fcd.2_Missense_Mutation_p.E935G|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.E810G	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	940	Potential.									ovary(2)	2		Ovarian(137;0.179)				CTTCTTGTTTTCCTGCTGCAA	0.537													11	167					0	0	1	0	0		C	72153953	C	C	72153953	3	2	27	1	0	0	0	0	1	0	0	0	12153	1783	62	3	227	3	PMFBP1	16	72153953	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	22367	72153953	18200800	6645	28996											
ZFHX3	463	broad.mit.edu	37	chr16	72821778	72821778	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctggcacttgcggcagAccaacttgtactgcaccttt	7	10	9	15	2	0	1	0	0	0	1	0	1	0	1	4	2	4	4	4	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:72821778A>G	uc002fck.2	-	10	11070	c.10397T>C	c.(10396-10398)GTC>GCC	p.V3466A	ZFHX3_uc002fcl.2_Missense_Mutation_p.V2552A	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3466					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CTTGCGGCAGACCAACTTGTA	0.587													11	81					0	0	1	0	0		G	72821778	G	G	72821778	3	3	27	1	0	0	0	0	1	0	0	0	17659	275	10	3	718	3	ZFHX3	16	72821778	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	667825	72821778	17532975	6646	28997											
ZFHX3	463	broad.mit.edu	37	chr16	72828653	72828653	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtgatggttgttctcaaaCgcttgtctctctgaggctct	5	16	11	9	1	4	2	1	2	4	0	6	2	4	2	0	2	1	4	0	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:72828653C>T	uc002fck.2	-	9	8601	c.7928G>A	c.(7927-7929)CGT>CAT	p.R2643H	ZFHX3_uc002fcl.2_Missense_Mutation_p.R1729H	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2643	Homeobox 3.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TGTTCTCAAACGCTTGTCTCT	0.483													74	352					0	0	1	0	0		T	72828653	T	T	72828653	3	4	27	1	0	0	0	0	1	0	0	0	17659	536	19	1	3191	1	ZFHX3	16	72828653	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6875	72828653	17526100	6647	28998											
ZFHX3	463	broad.mit.edu	37	chr16	72830751	72830751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagcagggccttggtggCgttccctctggcatctgaag	5	10	13	13	1	2	1	0	1	2	0	4	1	4	1	3	4	1	3	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:72830751C>T	uc002fck.2	-	9	6503	c.5830G>A	c.(5830-5832)GCC>ACC	p.A1944T	ZFHX3_uc002fcl.2_Missense_Mutation_p.A1030T	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1944					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GCCTTGGTGGCGTTCCCTCTG	0.522													6	107					0	0	1	0	0		T	72830751	T	T	72830751	3	4	27	1	0	0	0	0	1	0	0	0	17659	768	27	1	5289	1	ZFHX3	16	72830751	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2098	72830751	17524002	6648	28999											
ZFHX3	463	broad.mit.edu	37	chr16	72831787	72831787	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggccacattacaagtgttAcacttaaaaggtttgttgtc	12	14	8	7	0	0	0	0	0	0	0	1	0	0	0	1	2	2	3	1	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:72831787A>G	uc002fck.2	-	9	5467	c.4794T>C	c.(4792-4794)TGT>TGC	p.C1598C	ZFHX3_uc002fcl.2_Silent_p.C684C	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1598	C2H2-type 16.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TACAAGTGTTACACTTAAAAG	0.507													7	95					0	0	1	0	0		G	72831787	G	G	72831787	2	3	27	1	0	0	0	0	0	0	0	1	17659	389	14	3		3	ZFHX3	16	72831787	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1036	72831787	17522966	6649	29000											
ZFHX3	463	broad.mit.edu	37	chr16	72832395	72832395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggtacttgtacacatggcGatctgacaccggcagctgag	9	8	13	11	3	1	2	0	2	1	0	1	3	1	2	1	3	3	4	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:72832395G>A	uc002fck.2	-	9	4859	c.4186C>T	c.(4186-4188)CGC>TGC	p.R1396C	ZFHX3_uc002fcl.2_Missense_Mutation_p.R482C	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1396					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TACACATGGCGATCTGACACC	0.502													9	72					0	0	1	0	0		A	72832395	A	A	72832395	3	1	27	1	0	0	0	0	1	0	0	0	17659	1058	37	1	6933	1	ZFHX3	16	72832395	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	608	72832395	17522358	6650	29001											
ZFHX3	463	broad.mit.edu	37	chr16	72993166	72993166	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggtcacaaacgaacggacGtacccaaaggagagtttgca	14	6	12	9	3	1	1	1	0	0	1	1	4	1	2	1	3	4	3	1	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:72993166G>T	uc002fck.2	-	2	1552	c.879C>A	c.(877-879)TAC>TAA	p.Y293*	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	293	C2H2-type 1.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ACGAACGGACGTACCCAAAGG	0.493													6	89					8.12818e-05	8.61523e-05	1	1	0		T	72993166	T	T	72993166	4	4	27	1	0	0	0	0	0	1	0	0	17659	1140	40	5	10268	5	ZFHX3	16	72993166	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	160771	72993166	17361587	6651	29002											
PSMD7	5713	broad.mit.edu	37	chr16	74334090	74334090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagaaagtacttgatgtatCgaacagttttgcaggtaaaa	17	11	9	4	1	0	2	0	1	0	1	1	3	0	2	0	1	3	5	0	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:74334090C>T	uc002fcq.2	+	2	284	c.152C>T	c.(151-153)TCG>TTG	p.S51L	PSMD7_uc010vmr.1_5'UTR	NM_002811	NP_002802	P51665	PSD7_HUMAN	proteasome 26S non-ATPase subunit 7	51	MPN.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding				0						CTTGATGTATCGAACAGTTTT	0.368													7	37					0	0	1	0	0		T	74334090	T	T	74334090	3	4	27	1	0	0	0	0	1	0	0	0	12725	893	31	1	158	1	PSMD7	16	74334090	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1340924	74334090	16020663	6652	29003											
GLG1	2734	broad.mit.edu	37	chr16	74503938	74503938	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccttgcaggccattttaaActtgtaagaaaaccgaaaat	15	11	6	9	1	0	1	0	0	0	1	1	2	1	1	3	1	3	2	3	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:74503938A>G	uc002fcy.3	-	16	2313	c.2263T>C	c.(2263-2265)TTT>CTT	p.F755L	GLG1_uc002fcx.2_Missense_Mutation_p.F755L|GLG1_uc002fcw.3_Missense_Mutation_p.F744L|GLG1_uc002fcz.3_Missense_Mutation_p.F172L	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	755	Cys-rich GLG1 11.|Extracellular (Potential).					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						GCCATTTTAAACTTGTAAGAA	0.418													6	95					0	0	1	0	0		G	74503938	G	G	74503938	3	3	27	1	0	0	0	0	1	0	0	0	6451	43	2	3	1400	3	GLG1	16	74503938	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	169848	74503938	15850815	6653	29004											
MLKL	197259	broad.mit.edu	37	chr16	74729205	74729205	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccagcttgcctcttcttaGcatctggaaagctcgcctgt	7	12	8	14	1	3	0	0	0	3	0	4	1	3	1	3	1	4	3	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:74729205G>A	uc002fdb.2	-	2	892	c.451C>T	c.(451-453)CTA>TTA	p.L151L	MLKL_uc002fdc.2_Silent_p.L151L	NM_152649	NP_689862	Q8NB16	MLKL_HUMAN	mixed lineage kinase domain-like isoform 1	151							ATP binding|protein binding|protein kinase activity			stomach(2)	2						CCTCTTCTTAGCATCTGGAAA	0.498													6	87					0	0	1	0	0		A	74729205	A	A	74729205	2	1	27	1	0	0	0	0	0	0	0	1	9637	962	34	2		2	MLKL	16	74729205	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	225267	74729205	15625548	6654	29005											
CHST5	23563	broad.mit.edu	37	chr16	75563832	75563832	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcgggcggcgagcacaGcgcgcggctcgttgcccagt	5	4	18	14	7	0	0	0	0	0	0	1	1	0	0	1	4	3	4	1	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:75563832G>A	uc002fei.2	-	3	1846	c.451C>T	c.(451-453)CTG>TTG	p.L151L	CHST5_uc002fej.1_Silent_p.L157L	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	151	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						GGCGAGCACAGCGCGCGGCTC	0.612													6	87					0	0	1	0	0		A	75563832	A	A	75563832	2	1	27	1	0	0	0	0	0	0	0	1	3410	962	34	2		2	CHST5	16	75563832	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	834627	75563832	14790921	6655	29006											
KARS	3735	broad.mit.edu	37	chr16	75675553	75675553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggcttagctgtttctcaCtgagctctttctgtttggcc	3	18	9	11	0	3	1	1	1	3	0	4	1	3	1	1	2	2	5	1	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:75675553C>T	uc002feq.2	-	2	179	c.131G>A	c.(130-132)AGT>AAT	p.S44N	KARS_uc002fer.2_Missense_Mutation_p.S72N|KARS_uc002fes.2_Translation_Start_Site|KARS_uc010cgz.2_5'Flank|KARS_uc010cha.1_Missense_Mutation_p.S81N	NM_005548	NP_005539	Q15046	SYK_HUMAN	lysyl-tRNA synthetase isoform 2	44				Missing: Loss of nuclear localization, but no effect on packaging into HIV-1.	interspecies interaction between organisms|lysyl-tRNA aminoacylation|tRNA processing	cytosol|extracellular region|mitochondrial matrix|nucleus|plasma membrane|soluble fraction	ATP binding|lysine-tRNA ligase activity|metal ion binding|tRNA binding			ovary(2)	2					L-Lysine(DB00123)	CTGTTTCTCACTGAGCTCTTT	0.498													8	97					0	0	1	0	0		T	75675553	T	T	75675553	3	4	27	1	0	0	0	0	1	0	0	0	7996	565	20	4	1714	4	KARS	16	75675553	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	111721	75675553	14679200	6656	29007											
TERF2IP	54386	broad.mit.edu	37	chr16	75690259	75690259	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggagctgccattaagaTcattcggcagttaatggaga	11	10	14	6	1	1	2	1	0	0	2	2	4	1	3	1	4	2	3	1	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:75690259T>C	uc002fet.1	+	3	1047	c.950T>C	c.(949-951)ATC>ACC	p.I317T		NM_018975	NP_061848	Q9NYB0	TE2IP_HUMAN	telomeric repeat binding factor 2, interacting	317					negative regulation of DNA recombination at telomere|negative regulation of telomere maintenance|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of double-strand break repair via homologous recombination|telomere maintenance via telomerase|transcription, DNA-dependent	cytoplasm|nuclear telomere cap complex|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1						GCCATTAAGATCATTCGGCAG	0.398													6	160					0	0	1	0	0		C	75690259	C	C	75690259	3	2	27	1	0	0	0	0	1	0	0	0	15788	1435	50	3	960	3	TERF2IP	16	75690259	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	14706	75690259	14664494	6657	29008											
MON1B	22879	broad.mit.edu	37	chr16	77227572	77227572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcaagcccatctactcgCggtatggtagtgtggaggcg	7	9	15	10	3	1	0	0	0	1	0	2	1	1	1	1	5	2	3	1	5	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:77227572C>T	uc002fez.2	+	3	703	c.373C>T	c.(373-375)CGG>TGG	p.R125W	MON1B_uc010vnf.1_Intron|MON1B_uc010vng.1_Intron|MON1B_uc002ffa.2_5'Flank	NM_014940	NP_055755	Q7L1V2	MON1B_HUMAN	MON1 homolog B	125							protein binding				0						CATCTACTCGCGGTATGGTAG	0.617													18	59					0	0	1	0	0		T	77227572	T	T	77227572	3	4	27	1	0	0	0	0	1	0	0	0	9717	759	27	1	379	1	MON1B	16	77227572	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1537313	77227572	13127181	6658	29009											
MON1B	22879	broad.mit.edu	37	chr16	77228320	77228320	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcagcagcccagctgcggggGgagctgctagctgtgcacgc	6	6	16	13	2	1	0	1	0	0	0	1	1	1	1	1	3	8	6	1	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:77228320G>A	uc002fez.2	+	4	894	c.564G>A	c.(562-564)GGG>GGA	p.G188G	MON1B_uc010vnf.1_Silent_p.G79G|MON1B_uc010vng.1_Silent_p.G42G|MON1B_uc002ffa.2_Silent_p.G68G	NM_014940	NP_055755	Q7L1V2	MON1B_HUMAN	MON1 homolog B	188							protein binding				0						AGCTGCGGGGGGAGCTGCTAG	0.597													6	108					0	0	1	0	0		A	77228320	A	A	77228320	2	1	27	1	0	0	0	0	0	0	0	1	9717	1219	43	4		4	MON1B	16	77228320	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	748	77228320	13126433	6659	29010											
MON1B	22879	broad.mit.edu	37	chr16	77228534	77228534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcccgcccgctgcgagacGcactaggtgcgctcctccga	5	7	12	17	6	0	1	0	0	0	1	2	3	2	1	4	1	3	3	4	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:77228534G>A	uc002fez.2	+	4	1108	c.778G>A	c.(778-780)GCA>ACA	p.A260T	MON1B_uc010vnf.1_Missense_Mutation_p.A151T|MON1B_uc010vng.1_Missense_Mutation_p.A114T|MON1B_uc002ffa.2_Missense_Mutation_p.A140T	NM_014940	NP_055755	Q7L1V2	MON1B_HUMAN	MON1 homolog B	260							protein binding				0						GCTGCGAGACGCACTAGGTGC	0.657													6	52					0	0	1	0	0		A	77228534	A	A	77228534	3	1	27	1	0	0	0	0	1	0	0	0	9717	1087	38	1	788	1	MON1B	16	77228534	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	214	77228534	13126219	6660	29011											
ADAMTS18	170692	broad.mit.edu	37	chr16	77369677	77369677	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttattgcagtgtctctccTggaacttgactcctccacca	7	13	8	13	0	1	1	0	1	1	0	5	2	4	2	4	2	2	2	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:77369677T>C	uc002ffc.3	-	12	2254	c.1835A>G	c.(1834-1836)CAG>CGG	p.Q612R	ADAMTS18_uc010chc.1_Missense_Mutation_p.Q200R|ADAMTS18_uc002ffe.1_Missense_Mutation_p.Q308R	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	612	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						GTGTCTCTCCTGGAACTTGAC	0.542													15	223					0	0	1	0	0		C	77369677	C	C	77369677	3	2	27	1	0	0	0	0	1	0	0	0	263	1580	55	3	1878	3	ADAMTS18	16	77369677	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	141143	77369677	12985076	6661	29012											
ADAMTS18	170692	broad.mit.edu	37	chr16	77401590	77401590	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtaatggcgagatgaggaAttcattttttcgtgtcctta	10	15	11	5	2	1	2	1	1	0	1	3	4	2	3	1	3	0	1	1	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:77401590A>T	uc002ffc.3	-	4	945	c.526T>A	c.(526-528)TTC>ATC	p.F176I	ADAMTS18_uc002ffe.1_5'UTR|ADAMTS18_uc010vni.1_RNA	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	176					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						GAGATGAGGAATTCATTTTTT	0.468													6	60					0	0	1	0	0		T	77401590	T	T	77401590	3	4	27	1	0	0	0	0	1	0	0	0	263	101	4	5	3219	5	ADAMTS18	16	77401590	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	31913	77401590	12953163	6662	29013											
WWOX	51741	broad.mit.edu	37	chr16	78466602	78466602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acattcatcgcagctggtggGtgtacacactgctgtttacc	8	12	10	11	1	1	0	1	0	0	0	2	0	1	0	1	2	4	5	1	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:78466602G>A	uc002ffk.2	+	8	1134	c.1009G>A	c.(1009-1011)GTG>ATG	p.V337M	WWOX_uc010vnk.1_Missense_Mutation_p.V224M|WWOX_uc002ffl.2_Intron|WWOX_uc010che.2_Intron	NM_016373	NP_057457	Q9NZC7	WWOX_HUMAN	WW domain-containing oxidoreductase isoform 1	337	Interaction with MAPT (By similarity).				apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)		CAGCTGGTGGGTGTACACACT	0.562													11	219					0	0	1	0	0		A	78466602	A	A	78466602	3	1	27	1	0	0	0	0	1	0	0	0	17440	1261	44	4	1101	4	WWOX	16	78466602	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1065012	78466602	11888151	6663	29014											
CDYL2	124359	broad.mit.edu	37	chr16	80718775	80718775	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttccaggatctgaaggTctgtgggacagtttctcaac	8	13	10	10	0	4	1	1	1	4	0	6	3	5	3	1	3	1	1	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:80718775T>C	uc002ffs.2	-	2	381	c.276A>G	c.(274-276)AGA>AGG	p.R92R		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	92						nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						GATCTGAAGGTCTGTGGGACA	0.537													4	71					0	0	1	0	0		C	80718775	C	C	80718775	2	2	27	1	0	0	0	0	0	0	0	1	3189	1664	58	3		3	CDYL2	16	80718775	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2252173	80718775	9635978	6664	29015											
ATMIN	23300	broad.mit.edu	37	chr16	81077197	81077197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttgctctcttaaggagaGcctacctcttttcaaaattg	9	14	8	10	0	3	1	1	0	2	1	4	2	3	1	2	2	3	2	2	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:81077197G>A	uc002ffz.1	+	4	1112	c.1094G>A	c.(1093-1095)AGC>AAC	p.S365N	ATMIN_uc002fga.2_Missense_Mutation_p.S207N|ATMIN_uc010vnn.1_Missense_Mutation_p.S136N|ATMIN_uc002fgb.1_Missense_Mutation_p.S207N	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	365	Required for formation of RAD51 foci.				response to DNA damage stimulus	nucleus	zinc ion binding				0						CTTAAGGAGAGCCTACCTCTT	0.458													8	59					0	0	1	0	0		A	81077197	A	A	81077197	3	1	27	1	0	0	0	0	1	0	0	0	1111	971	34	2	1108	2	ATMIN	16	81077197	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	358422	81077197	9277556	6665	29016											
C16orf46	123775	broad.mit.edu	37	chr16	81097360	81097360	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagatactcactgcctcttcCcatccagttccaataataaa	14	11	3	13	0	2	1	1	0	1	1	5	1	5	1	4	0	2	1	4	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:81097360C>T	uc002fgc.3	-	3	460	c.201G>A	c.(199-201)TGG>TGA	p.W67*	C16orf46_uc010chf.2_Nonsense_Mutation_p.W67*|C16orf46_uc010vno.1_Intron	NM_152337	NP_689550	Q6P387	CP046_HUMAN	chromosome 16 open reading frame 46 isoform 2	67											0						CTGCCTCTTCCCATCCAGTTC	0.373													4	84					0	0	1	0	0		T	81097360	T	T	81097360	4	4	27	1	0	0	0	0	0	1	0	0	1818	624	22	4	1022	4	C16orf46	16	81097360	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20163	81097360	9257393	6666	29017											
PKD1L2	114780	broad.mit.edu	37	chr16	81211477	81211477	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcgttgcagaagatggcaAagctcgtcagaacggtgccc	11	6	14	10	3	1	3	1	0	0	3	2	3	1	3	1	3	4	4	1	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:81211477A>G	uc002fgh.1	-	14	2372	c.2372T>C	c.(2371-2373)TTT>TCT	p.F791S	PKD1L2_uc002fgg.1_RNA|PKD1L2_uc002fgi.2_Missense_Mutation_p.F106S|PKD1L2_uc002fgj.2_Missense_Mutation_p.F791S|PKD1L2_uc002fgk.1_5'UTR|PKD1L2_uc002fgl.1_Intron	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	791	REJ.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GAAGATGGCAAAGCTCGTCAG	0.597													7	80					0	0	1	0	0		G	81211477	G	G	81211477	3	3	27	1	0	0	0	0	1	0	0	0	11984	14	1	3	5196	3	PKD1L2	16	81211477	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	114117	81211477	9143276	6667	29018											
CMIP	80790	broad.mit.edu	37	chr16	81733378	81733378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtccctgcatgctcctggCactgagggggaaccagacca	8	6	14	13	0	0	2	0	1	0	1	2	3	2	3	4	4	3	3	4	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:81733378C>T	uc002fgp.2	+	15	1799	c.1727C>T	c.(1726-1728)GCA>GTA	p.A576V	CMIP_uc002fgq.1_Missense_Mutation_p.A482V|CMIP_uc010vnq.1_Missense_Mutation_p.A389V|CMIP_uc002fgr.1_Missense_Mutation_p.A423V	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	542						cytoplasm|nucleus					0						ATGCTCCTGGCACTGAGGGGG	0.597													6	19					0	0	1	0	0		T	81733378	T	T	81733378	3	4	27	1	0	0	0	0	1	0	0	0	3581	710	25	2	1807	2	CMIP	16	81733378	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	521901	81733378	8621375	6668	29019											
PLCG2	5336	broad.mit.edu	37	chr16	81891910	81891910	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taactggctctctggcttgaAaatcttacaccaggaagcga	12	10	9	10	1	2	1	0	1	2	0	3	3	2	2	1	3	3	2	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:81891910A>G	uc002fgt.2	+	4	532	c.380A>G	c.(379-381)AAA>AGA	p.K127R	PLCG2_uc010chg.1_Missense_Mutation_p.K127R	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	127	PH.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						TCTGGCTTGAAAATCTTACAC	0.463													13	154					0	0	1	0	0		G	81891910	G	G	81891910	3	3	27	1	0	0	0	0	1	0	0	0	12055	14	1	3	390	3	PLCG2	16	81891910	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	158532	81891910	8462843	6669	29020											
CDH13	1012	broad.mit.edu	37	chr16	83704437	83704437	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgtgggagttattgtcAatttgacagttgaagataag	12	13	13	3	0	1	3	1	2	0	1	1	5	1	4	0	1	1	3	0	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:83704437A>G	uc002fgx.2	+	9	1264	c.1144A>G	c.(1144-1146)AAT>GAT	p.N382D	CDH13_uc010vns.1_Missense_Mutation_p.N429D|CDH13_uc010vnt.1_Missense_Mutation_p.N128D|CDH13_uc010vnu.1_Missense_Mutation_p.N343D	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	382	Cadherin 3.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		AGTTATTGTCAATTTGACAGT	0.463													19	64					0	0	1	0	0		G	83704437	G	G	83704437	3	3	27	1	0	0	0	0	1	0	0	0	3102	130	5	3	1178	3	CDH13	16	83704437	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1812527	83704437	6650316	6670	29021											
MLYCD	23417	broad.mit.edu	37	chr16	83948723	83948723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagatcacaggtggccccAttaacgagaccctcaagctc	11	6	10	14	2	2	2	2	0	0	2	3	4	2	2	3	3	2	1	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:83948723A>G	uc002fgz.2	+	5	1131	c.1111A>G	c.(1111-1113)ATT>GTT	p.I371V		NM_012213	NP_036345	O95822	DCMC_HUMAN	malonyl-CoA decarboxylase precursor	371					acyl-CoA metabolic process|fatty acid biosynthetic process	mitochondrion|peroxisome	malonyl-CoA decarboxylase activity|methylmalonyl-CoA decarboxylase activity				0						AGGTGGCCCCATTAACGAGAC	0.572													6	122					0	0	1	0	0		G	83948723	G	G	83948723	3	3	27	1	0	0	0	0	1	0	0	0	9656	217	8	3	1129	3	MLYCD	16	83948723	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	244286	83948723	6406030	6671	29022											
OSGIN1	29948	broad.mit.edu	37	chr16	83998695	83998695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaacagccgggccactgccGgggacatcgcccactactac	9	4	11	17	3	0	0	0	0	0	0	1	1	0	1	4	3	5	1	4	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:83998695G>A	uc002fha.2	+	7	1149	c.766G>A	c.(766-768)GGG>AGG	p.G256R	OSGIN1_uc002fhb.2_Missense_Mutation_p.G173R|OSGIN1_uc002fhc.2_Missense_Mutation_p.G173R	NM_013370	NP_037502	Q9UJX0	OSGI1_HUMAN	oxidative stress induced growth inhibitor 1	256					cell differentiation|multicellular organismal development|negative regulation of cell growth		growth factor activity				0						GGCCACTGCCGGGGACATCGC	0.627													21	94					0	0	1	0	0		A	83998695	A	A	83998695	3	1	27	1	0	0	0	0	1	0	0	0	11308	1116	39	1	792	1	OSGIN1	16	83998695	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	49972	83998695	6356058	6672	29023											
SLC38A8	146167	broad.mit.edu	37	chr16	84050247	84050247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggatggtcagcggcatccGgacccacagccctgaggggt	8	5	15	13	2	1	1	1	1	0	0	2	3	2	3	3	6	2	1	3	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:84050247G>A	uc002fhg.1	-	8	1039	c.1039C>T	c.(1039-1041)CGG>TGG	p.R347W		NM_001080442	NP_001073911	A6NNN8	S38A8_HUMAN	solute carrier family 38, member 8	347					amino acid transport|sodium ion transport	integral to membrane					0						AGCGGCATCCGGACCCACAGC	0.652													13	43					0	0	1	0	0		A	84050247	A	A	84050247	3	1	27	1	0	0	0	0	1	0	0	0	14635	1115	39	1	280	1	SLC38A8	16	84050247	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	51552	84050247	6304506	6673	29024											
MBTPS1	8720	broad.mit.edu	37	chr16	84101321	84101321	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcataacagaagtgttgtAccagtcactgaagatgacga	14	10	9	8	1	2	4	2	2	1	2	3	5	2	4	1	0	2	2	1	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:84101321A>G	uc002fhi.2	-	16	2681	c.2179T>C	c.(2179-2181)TAC>CAC	p.Y727H	MBTPS1_uc002fhh.2_Missense_Mutation_p.Y231H	NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	727	Lumenal (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						GAAGTGTTGTACCAGTCACTG	0.458													5	43					0	0	1	0	0		G	84101321	G	G	84101321	3	3	27	1	0	0	0	0	1	0	0	0	9379	391	14	3	1011	3	MBTPS1	16	84101321	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	51074	84101321	6253432	6674	29025											
MBTPS1	8720	broad.mit.edu	37	chr16	84103626	84103626	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctttactgttgaagtctgTtctgcaccattttttgacta	8	18	7	8	0	2	2	0	2	2	0	2	2	2	2	1	0	3	4	1	0	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:84103626T>C	uc002fhi.2	-	14	2302	c.1800A>G	c.(1798-1800)GAA>GAG	p.E600E	MBTPS1_uc002fhh.2_Silent_p.E104E	NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	600	Lumenal (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						TTGAAGTCTGTTCTGCACCAT	0.398													14	156					0	0	1	0	0		C	84103626	C	C	84103626	2	2	27	1	0	0	0	0	0	0	0	1	9379	1722	60	3		3	MBTPS1	16	84103626	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2305	84103626	6251127	6675	29026											
TAF1C	9013	broad.mit.edu	37	chr16	84214743	84214743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacgttcccctttctggcacGaagcctctgcccccaaacga	8	8	7	18	3	2	0	0	0	2	0	3	2	3	0	5	1	3	2	5	1	2	2	rs78476640	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:84214743G>A	uc002fhn.2	-	11	1520	c.1292C>T	c.(1291-1293)TCG>TTG	p.S431L	TAF1C_uc002fhm.2_Missense_Mutation_p.S338L|TAF1C_uc010vnx.1_Missense_Mutation_p.S405L|TAF1C_uc010vny.1_Missense_Mutation_p.S22L|TAF1C_uc010vnz.1_Missense_Mutation_p.S99L|TAF1C_uc002fho.2_Intron|TAF1C_uc010voa.1_Missense_Mutation_p.S99L|TAF1C_uc002fhp.1_Intron	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	431					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						TTTCTGGCACGAAGCCTCTGC	0.612													10	51					0	0	1	0	0		A	84214743	A	A	84214743	3	1	27	1	0	0	0	0	1	0	0	0	15546	1059	37	1	1333	1	TAF1C	16	84214743	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	111117	84214743	6140010	6676	29027											
WFDC1	58189	broad.mit.edu	37	chr16	84351925	84351925	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgatggcttggtggcaatGgctggctcctggatggccct	4	11	15	11	1	0	0	0	0	0	0	2	2	1	1	2	7	0	4	2	7	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:84351925G>T	uc002fhw.2	+	3	562	c.385G>T	c.(385-387)GGC>TGC	p.G129C	WFDC1_uc002fhv.2_Missense_Mutation_p.G129C	NM_021197	NP_067020	Q9HC57	WFDC1_HUMAN	WAP four-disulfide core domain 1 precursor	129					negative regulation of cell growth	extracellular space	serine-type endopeptidase inhibitor activity			breast(1)	1						TGGTGGCAATGGCTGGCTCCT	0.582													8	41					1.06961e-07	1.16939e-07	1	1	0		T	84351925	T	T	84351925	3	4	27	1	0	0	0	0	1	0	0	0	17372	1348	47	5	395	5	WFDC1	16	84351925	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	137182	84351925	6002828	6677	29028											
ATP2C2	9914	broad.mit.edu	37	chr16	84474490	84474490	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagttgggtatgacggtcaaGggactgtgtgtcttctacca	8	12	14	7	1	3	1	1	1	2	0	3	3	3	2	1	3	1	2	1	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:84474490G>T	uc002fhx.2	+	14	1326	c.1237G>T	c.(1237-1239)GGG>TGG	p.G413W	ATP2C2_uc010chj.2_Missense_Mutation_p.G413W|ATP2C2_uc002fhy.2_Missense_Mutation_p.G430W|ATP2C2_uc002fhz.2_Missense_Mutation_p.G262W	NM_014861	NP_055676	O75185	AT2C2_HUMAN	ATPase, Ca++ transporting, type 2C, member 2	413	Extracellular (Potential).				ATP biosynthetic process	Golgi membrane|integral to membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			breast(1)|central_nervous_system(1)	2						TGACGGTCAAGGGACTGTGTG	0.403													10	59					7.48243e-07	8.13385e-07	1	1	0		T	84474490	T	T	84474490	3	4	27	1	0	0	0	0	1	0	0	0	1145	1000	35	5	1291	5	ATP2C2	16	84474490	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	122565	84474490	5880263	6678	29029											
ATP2C2	9914	broad.mit.edu	37	chr16	84492794	84492794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccgattccagctgagcaCgtaagtagaggccagcattc	10	9	11	11	2	0	2	0	1	0	1	3	3	2	2	3	1	3	5	3	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:84492794C>T	uc002fhx.2	+	22	2305	c.2216C>T	c.(2215-2217)ACG>ATG	p.T739M	ATP2C2_uc010chj.2_Missense_Mutation_p.T739M|ATP2C2_uc002fhy.2_Missense_Mutation_p.T756M|ATP2C2_uc002fhz.2_Missense_Mutation_p.T588M|ATP2C2_uc002fia.2_5'Flank	NM_014861	NP_055676	O75185	AT2C2_HUMAN	ATPase, Ca++ transporting, type 2C, member 2	739	Extracellular (Potential).				ATP biosynthetic process	Golgi membrane|integral to membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			breast(1)|central_nervous_system(1)	2						CAGCTGAGCACGTAAGTAGAG	0.552													5	128					0	0	1	0	0		T	84492794	T	T	84492794	3	4	27	1	0	0	0	0	1	0	0	0	1145	550	19	1	2302	1	ATP2C2	16	84492794	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18304	84492794	5861959	6679	29030											
ZDHHC7	55625	broad.mit.edu	37	chr16	85024046	85024046	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtcaccacgaagtctgcaTaggcgaccagaagccacgtc	13	5	10	13	3	2	1	1	0	1	1	3	3	2	1	3	1	2	1	3	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:85024046T>C	uc002fiq.2	-	3	532	c.179A>G	c.(178-180)TAT>TGT	p.Y60C	ZDHHC7_uc010voi.1_Missense_Mutation_p.Y60C|ZDHHC7_uc002fir.1_RNA	NM_017740	NP_060210	Q9NXF8	ZDHC7_HUMAN	zinc finger, DHHC-type containing 7 isoform 2	60	Helical; (Potential).					integral to membrane	acyltransferase activity|protein binding|zinc ion binding			large_intestine(1)	1						GAAGTCTGCATAGGCGACCAG	0.577													3	29					0	0	1	0	0		C	85024046	C	C	85024046	3	2	27	1	0	0	0	0	1	0	0	0	17645	1406	49	3	886	3	ZDHHC7	16	85024046	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	531252	85024046	5330707	6680	29031											
FOXF1	2294	broad.mit.edu	37	chr16	86545019	86545019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcggcgctcaacagcggcGcctcttatatcaagcagcag	9	6	11	15	5	3	0	2	0	1	0	3	0	3	0	2	2	4	3	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:86545019G>A	uc002fjl.2	+	1	887	c.844G>A	c.(844-846)GCC>ACC	p.A282T	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	282					branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						CAACAGCGGCGCCTCTTATAT	0.726													4	7					0	0	1	0	0		A	86545019	A	A	86545019	3	1	27	1	0	0	0	0	1	0	0	0	6019	1087	38	1	846	1	FOXF1	16	86545019	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1520973	86545019	3809734	6681	29032											
FOXF1	2294	broad.mit.edu	37	chr16	86546570	86546570	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtcgcccagcatgtgtgAccgaaaggagtttgtcttct	8	11	12	10	2	2	1	0	1	2	0	3	3	2	2	2	1	1	3	2	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:86546570A>C	uc002fjl.2	+	2	1062	c.1019A>C	c.(1018-1020)GAC>GCC	p.D340A		NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	340					branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						AGCATGTGTGACCGAAAGGAG	0.612													3	41					0	0	1	0	0		C	86546570	C	C	86546570	3	2	27	1	0	0	0	0	1	0	0	0	6019	275	10	5	1025	5	FOXF1	16	86546570	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1551	86546570	3808183	6682	29033											
FOXC2	2303	broad.mit.edu	37	chr16	86601011	86601011	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctacctgagcgagcagaatTactaccgggctgcgggcagc	9	6	13	13	3	0	2	0	1	0	1	0	3	0	2	3	2	7	3	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:86601011T>C	uc002fjq.2	+	1	155	c.70T>C	c.(70-72)TAC>CAC	p.Y24H		NM_005251	NP_005242	Q99958	FOXC2_HUMAN	forkhead box C2	24					anti-apoptosis|artery morphogenesis|blood vessel remodeling|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|embryonic viscerocranium morphogenesis|insulin receptor signaling pathway|lymphangiogenesis|metanephros development|negative regulation of transcription from RNA polymerase II promoter|neural crest cell fate commitment|Notch signaling pathway|ossification|paraxial mesodermal cell fate commitment|patterning of blood vessels|positive regulation of cell adhesion mediated by integrin|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of vascular wound healing|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding|transcription regulatory region DNA binding				0						CGAGCAGAATTACTACCGGGC	0.701									Late-onset_Hereditary_Lymphedema				7	37					0	0	1	0	0		C	86601011	C	C	86601011	3	2	27	1	0	0	0	0	1	0	0	0	6009	1754	61	3	72	3	FOXC2	16	86601011	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	54441	86601011	3753742	6683	29034											
FOXL1	2300	broad.mit.edu	37	chr16	86612547	86612547	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagcagagggtcacgctcaAcggcatctaccagttcatca	11	7	10	13	3	5	1	4	0	1	1	5	2	5	1	1	2	3	4	1	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:86612547A>G	uc002fjr.2	+	1	433	c.218A>G	c.(217-219)AAC>AGC	p.N73S		NM_005250	NP_005241	Q12952	FOXL1_HUMAN	forkhead box L1	73	Fork-head.				brain development|camera-type eye development|cartilage development|embryo development|forelimb morphogenesis|heart development|organ morphogenesis|pattern specification process|proteoglycan biosynthetic process|regulation of sequence-specific DNA binding transcription factor activity|regulation of Wnt receptor signaling pathway|visceral mesoderm-endoderm interaction involved in midgut development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1						GTCACGCTCAACGGCATCTAC	0.647													9	107					0	0	1	0	0		G	86612547	G	G	86612547	3	3	27	1	0	0	0	0	1	0	0	0	6030	43	2	3	220	3	FOXL1	16	86612547	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11536	86612547	3742206	6684	29035											
FBXO31	79791	broad.mit.edu	37	chr16	87380856	87380856	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtctatatcggtgaagcActacaggaggagagaaagag	14	8	14	5	1	1	3	0	1	1	2	2	6	1	5	0	3	2	1	0	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:87380856A>G	uc002fjw.2	-	3	457	c.413T>C	c.(412-414)CTG>CCG	p.L138P	FBXO31_uc010vot.1_5'UTR|FBXO31_uc002fjv.2_Missense_Mutation_p.L30P	NM_024735	NP_079011	Q5XUX0	FBX31_HUMAN	F-box protein 31	138				L -> V (in Ref. 1; AAU50679).	cell cycle|cyclin catabolic process|mitotic cell cycle G1/S transition DNA damage checkpoint|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	SCF ubiquitin ligase complex	cyclin binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0272)		TCGGTGAAGCACTACAGGAGG	0.567													4	107					0	0	1	0	0		G	87380856	G	G	87380856	3	3	27	1	0	0	0	0	1	0	0	0	5755	173	6	3	1234	3	FBXO31	16	87380856	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	768309	87380856	2973897	6685	29036											
ZC3H18	124245	broad.mit.edu	37	chr16	88697554	88697554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagagctccagcaaggtcacGagcgtgcccggcaaagcctc	11	4	12	14	3	1	1	1	0	0	1	3	2	2	1	3	2	5	3	3	2	3	0	rs142280171	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:88697554G>A	uc002fky.2	+	18	2909	c.2709G>A	c.(2707-2709)ACG>ACA	p.T903T	ZC3H18_uc010voz.1_Silent_p.T927T|ZC3H18_uc010chw.2_RNA|ZC3H18_uc002fkz.2_Silent_p.T173T	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	903						nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		GCAAGGTCACGAGCGTGCCCG	0.647													14	36					0	0	1	0	0		A	88697554	A	A	88697554	2	1	27	1	0	0	0	0	0	0	0	1	17593	1045	37	1		1	ZC3H18	16	88697554	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1316698	88697554	1657199	6686	29037											
TRAPPC2L	51693	broad.mit.edu	37	chr16	88923569	88923569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctcccaagatggcggtgtGcatcgcggtgattgccaagg	7	8	15	11	3	0	2	0	1	0	1	2	2	1	2	3	4	2	1	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:88923569G>A	uc002fmc.2	+	1	64	c.11G>A	c.(10-12)TGC>TAC	p.C4Y	GALNS_uc002fly.3_5'Flank|GALNS_uc010cid.2_5'Flank|GALNS_uc002flz.3_5'Flank|GALNS_uc002fma.2_5'Flank|TRAPPC2L_uc010cie.2_Intron|TRAPPC2L_uc002fmd.3_Missense_Mutation_p.C4Y|TRAPPC2L_uc002fme.3_Missense_Mutation_p.C4Y|TRAPPC2L_uc002fmf.2_5'Flank	NM_016209	NP_057293	Q9UL33	TPC2L_HUMAN	trafficking protein particle complex 2-like	4					ER to Golgi vesicle-mediated transport	endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm					0				BRCA - Breast invasive adenocarcinoma(80;0.0477)		ATGGCGGTGTGCATCGCGGTG	0.692													3	17					0	0	1	0	0		A	88923569	A	A	88923569	3	1	27	1	0	0	0	0	1	0	0	0	16485	1319	46	2	13	2	TRAPPC2L	16	88923569	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	226015	88923569	1431184	6687	29038											
ZNF778	197320	broad.mit.edu	37	chr16	89294580	89294580	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggaaaggccttcaccacAtcctcacaccttatcgtgca	10	9	7	15	2	2	0	2	0	0	0	4	1	3	1	4	2	2	1	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:89294580A>G	uc002fmv.2	+	6	2139	c.1800A>G	c.(1798-1800)ACA>ACG	p.T600T	ZNF778_uc010vpf.1_Intron|ZNF778_uc002fmw.1_Silent_p.T558T|ZNF778_uc010vpg.1_Silent_p.T363T	NM_182531	NP_872337	Q96MU6	ZN778_HUMAN	zinc finger protein 778	600	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0269)		CCTTCACCACATCCTCACACC	0.468													8	114					0	0	1	0	0		G	89294580	G	G	89294580	2	3	27	1	0	0	0	0	0	0	0	1	18176	204	8	3		3	ZNF778	16	89294580	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	371011	89294580	1060173	6688	29039											
CDK10	8558	broad.mit.edu	37	chr16	89756986	89756986	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgggacacccagacagaTgagattgtcgcactgaagaa	13	5	12	11	2	0	5	0	2	0	4	1	7	0	6	2	1	0	1	2	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:89756986T>C	uc010cio.2	+	3	229	c.186T>C	c.(184-186)GAT>GAC	p.D62D	CDK10_uc002foa.2_Silent_p.D56D|CDK10_uc010cip.2_5'UTR|CDK10_uc010vpl.1_Silent_p.D56D|CDK10_uc002fob.2_5'UTR|CDK10_uc002fod.2_5'UTR|CDK10_uc002foe.2_5'UTR|CDK10_uc002fof.2_5'UTR|CDK10_uc002fog.3_5'UTR|CDK10_uc002foh.3_5'UTR	NM_052988	NP_443714	Q15131	CDK10_HUMAN	cyclin-dependent kinase 10 isoform a	62	Protein kinase.				negative regulation of cell proliferation|traversing start control point of mitotic cell cycle		ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(1)	1		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0276)		CCCAGACAGATGAGATTGTCG	0.577													3	59					0	0	1	0	0		C	89756986	C	C	89756986	2	2	27	1	0	0	0	0	0	0	0	1	3128	1461	51	3		3	CDK10	16	89756986	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	462406	89756986	597767	6689	29040											
SPATA2L	124044	broad.mit.edu	37	chr16	89764596	89764596	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcaggcggggggcagggCggtcaccatgagccgatggc	6	4	20	11	3	1	1	1	1	0	0	1	2	1	1	2	8	1	2	2	8	0	0	rs35826409	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:89764596C>A	uc002foj.2	-	3	486	c.421G>T	c.(421-423)GCC>TCC	p.A141S	SPATA2L_uc002fok.2_Intron	NM_152339	NP_689552	Q8IUW3	SPA2L_HUMAN	spermatogenesis associated 2-like	141											0		Lung NSC(15;0.00043)|all_lung(18;0.000665)|all_hematologic(23;0.0355)		BRCA - Breast invasive adenocarcinoma(80;0.0272)		GGGGGCAGGGCGGTCACCATG	0.662													15	101					0.000219431	0.00023168	1	1	0		A	89764596	A	A	89764596	3	1	27	1	0	0	0	0	1	0	0	0	15034	768	27	5	857	5	SPATA2L	16	89764596	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7610	89764596	590157	6690	29041											
C16orf7	9605	broad.mit.edu	37	chr16	89776229	89776229	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagcggggagaaaaagggTtcctcaatgcaggccaggca	13	4	14	10	1	1	1	1	0	0	1	2	2	2	1	2	5	2	3	2	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:89776229T>C	uc002fom.1	-	11	1469	c.1344A>G	c.(1342-1344)GAA>GAG	p.E448E	C16orf7_uc002fol.1_Silent_p.E378E|uc002fon.1_5'Flank	NM_004913	NP_004904	Q9Y2B5	CP007_HUMAN	chromosome 16 open reading frame 7	448					ATP synthesis coupled proton transport		GTPase activator activity|transporter activity				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		AGAAAAAGGGTTCCTCAATGC	0.607													11	101					0	0	1	0	0		C	89776229	C	C	89776229	2	2	27	1	0	0	0	0	0	0	0	1	1831	1722	60	3		3	C16orf7	16	89776229	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	11633	89776229	578524	6691	29042											
C16orf7	9605	broad.mit.edu	37	chr16	89783004	89783004	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggaatgggagcagctgcAggcatggttggcttcaggcg	7	8	19	7	1	1	0	1	0	0	0	1	2	1	2	0	7	3	6	0	7	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:89783004A>G	uc002fom.1	-	4	422	c.297T>C	c.(295-297)CCT>CCC	p.P99P	C16orf7_uc002fol.1_Silent_p.P29P|uc002fon.1_RNA|uc002foo.1_5'UTR	NM_004913	NP_004904	Q9Y2B5	CP007_HUMAN	chromosome 16 open reading frame 7	99					ATP synthesis coupled proton transport		GTPase activator activity|transporter activity				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GAGCAGCTGCAGGCATGGTTG	0.607													11	184					0	0	1	0	0		G	89783004	G	G	89783004	2	3	27	1	0	0	0	0	0	0	0	1	1831	175	7	3		3	C16orf7	16	89783004	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6775	89783004	571749	6692	29043											
FANCA	2175	broad.mit.edu	37	chr16	89836392	89836392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacccaggtgcacggccaggGcagccaaccccagcacatgt	10	3	11	17	1	0	0	0	0	0	0	0	0	0	0	5	3	4	3	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:89836392G>A	uc002fou.1	-	26	2399	c.2357C>T	c.(2356-2358)GCC>GTC	p.A786V	FANCA_uc010vpn.1_Missense_Mutation_p.A786V	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	786					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		CACGGCCAGGGCAGCCAACCC	0.637			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				8	27					0	0	1	0	0		A	89836392	A	A	89836392	3	1	27	1	0	0	0	0	1	0	0	0	5676	1203	42	2	2082	2	FANCA	16	89836392	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	53388	89836392	518361	6693	29044											
TCF25	22980	broad.mit.edu	37	chr16	89977618	89977618	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcgccgcacgaggacgAcgctgagggggagggggagt	8	2	23	8	5	0	1	0	1	0	0	0	7	0	5	1	7	0	2	1	7	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:89977618A>G	uc002fpb.2	+	18	2085	c.2003A>G	c.(2002-2004)GAC>GGC	p.D668G	TCF25_uc002fpc.2_Silent_p.R472R|uc010ciy.1_5'Flank	NM_014972	NP_055787	Q9BQ70	TCF25_HUMAN	NULP1	668					heart development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(9;4.71e-08)|Lung NSC(15;0.000192)|all_lung(18;0.000319)|all_neural(9;0.0122)|all_hematologic(23;0.027)		BRCA - Breast invasive adenocarcinoma(80;0.0288)		CACGAGGACGACGCTGAGGGG	0.617													11	56					0	0	1	0	0		G	89977618	G	G	89977618	3	3	27	1	0	0	0	0	1	0	0	0	15718	275	10	3	2073	3	TCF25	16	89977618	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	141226	89977618	377135	6694	29045											
DEF8	54849	broad.mit.edu	37	chr16	90029779	90029779	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttgtttgcagaagctgcgCcaggacatcctgctcatgaa	9	10	10	12	1	1	2	1	1	0	1	2	3	2	3	3	1	4	4	3	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:90029779C>A	uc002fpn.1	+	10	1202	c.1113C>A	c.(1111-1113)CGC>CGA	p.R371R	DEF8_uc002fpo.1_Silent_p.R310R|DEF8_uc002fpp.1_Silent_p.R300R|DEF8_uc010vpq.1_Silent_p.R250R|DEF8_uc010vpr.1_Silent_p.R310R|DEF8_uc002fpq.1_5'Flank	NM_207514	NP_997397	Q6ZN54	DEFI8_HUMAN	differentially expressed in FDCP 8 isoform 1	371					intracellular signal transduction		zinc ion binding			central_nervous_system(1)	1		all_cancers(9;7.59e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.0019)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0274)		AGAAGCTGCGCCAGGACATCC	0.682													14	40					0.000151284	0.000160261	1	1	0		A	90029779	A	A	90029779	2	1	27	1	0	0	0	0	0	0	0	1	4390	726	26	5		5	DEF8	16	90029779	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	52161	90029779	324974	6695	29046											
GAS8	2622	broad.mit.edu	37	chr16	90099232	90099232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggcacagaaagagcaccGcatacaggagagtgtgctgc	12	5	14	10	1	0	3	0	0	0	3	0	4	0	3	1	2	4	5	1	2	2	1	rs145845004		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr16:90099232G>A	uc002fqi.1	+	4	517	c.395G>A	c.(394-396)CGC>CAC	p.R132H	GAS8_uc010vps.1_Missense_Mutation_p.R107H|GAS8_uc002fqh.2_Missense_Mutation_p.R49H|GAS8_uc010vpt.1_Missense_Mutation_p.R132H|GAS8_uc010vpu.1_Missense_Mutation_p.R49H|GAS8_uc010vpv.1_Missense_Mutation_p.R103H|GAS8_uc010cjc.1_Missense_Mutation_p.R49H|GAS8_uc010vpw.1_Missense_Mutation_p.R49H|GAS8_uc002fqj.1_5'UTR|C16orf3_uc002fqk.1_5'Flank	NM_001481	NP_001472	O95995	GAS8_HUMAN	growth arrest-specific 8	132	Microtubule-binding.				negative regulation of cell proliferation|sperm motility	cilium|Golgi apparatus|microtubule|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.029)		AAAGAGCACCGCATACAGGAG	0.557													10	36					0	0	1	0	0		A	90099232	A	A	90099232	3	1	27	1	0	0	0	0	1	0	0	0	6266	1087	38	1	409	1	GAS8	16	90099232	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	69453	90099232	255521	6696	29047											
RPH3AL	9501	broad.mit.edu	37	chr17	177323	177323	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcattcccgctgccgaagatGgtgtcggccatggctcggag	6	9	14	12	4	1	1	1	0	0	1	4	3	2	2	3	4	1	2	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:177323G>A	uc002frd.1	-	1	56	c.12C>T	c.(10-12)ACC>ACT	p.T4T	RPH3AL_uc010vpy.1_Silent_p.T4T|RPH3AL_uc002fre.1_Silent_p.T4T|RPH3AL_uc002frf.1_Silent_p.T4T|RPH3AL_uc010cjl.1_Silent_p.T4T	NM_006987	NP_008918	Q9UNE2	RPH3L_HUMAN	rabphilin 3A-like (without C2 domains)	4					exocytosis|intracellular protein transport	transport vesicle membrane	cytoskeletal protein binding|Rab GTPase binding|zinc ion binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.023)|all cancers(1;4.96e-06)|Epithelial(1;2.86e-05)|BRCA - Breast invasive adenocarcinoma(1;0.00453)|OV - Ovarian serous cystadenocarcinoma(1;0.0716)|LUAD - Lung adenocarcinoma(1115;0.102)|COAD - Colon adenocarcinoma(4;0.107)		TGCCGAAGATGGTGTCGGCCA	0.617													3	43					0	0	1	0	0		A	177323	A	A	177323	2	1	27	1	0	0	0	0	0	0	0	1	13577	1335	47	4		4	RPH3AL	17	177323	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08		177323	81017887	6697	29048											
VPS53	55275	broad.mit.edu	37	chr17	534801	534801	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcagtaccttggtgccctGggaaggaaacgcttcttcaa	11	9	11	10	1	2	0	1	0	1	0	2	2	2	2	2	3	4	3	2	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:534801G>A	uc002frn.2	-	8	823	c.676C>T	c.(676-678)CAG>TAG	p.Q226*	VPS53_uc002frk.2_5'UTR|VPS53_uc010cjo.1_Nonsense_Mutation_p.Q226*|VPS53_uc002frl.2_RNA|VPS53_uc002frm.2_Nonsense_Mutation_p.Q197*|VPS53_uc002fro.2_Nonsense_Mutation_p.Q28*|VPS53_uc010cjp.1_Intron	NM_018289	NP_060759	Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 isoform 2	226					protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)		TTGGTGCCCTGGGAAGGAAAC	0.507													4	57					0	0	1	0	0		A	534801	A	A	534801	4	1	27	1	0	0	0	0	0	1	0	0	17241	1357	47	4	1897	4	VPS53	17	534801	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	357478	534801	80660409	6698	29049											
NXN	64359	broad.mit.edu	37	chr17	704358	704358	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtaatctcgcagggagTcagtcatgtcatcctgaagc	9	11	12	9	1	4	1	3	1	1	0	6	2	5	2	1	2	1	2	1	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:704358T>A	uc002fsa.2	-	8	1231	c.1139A>T	c.(1138-1140)GAC>GTC	p.D380V	NXN_uc010vqd.1_Missense_Mutation_p.D71V|NXN_uc002frz.2_Missense_Mutation_p.D131V|NXN_uc010vqe.1_Missense_Mutation_p.D272V	NM_022463	NP_071908	Q6DKJ4	NXN_HUMAN	nucleoredoxin	380					cell differentiation|cell redox homeostasis|multicellular organismal development|Wnt receptor signaling pathway	cytosol|nucleus	protein-disulfide reductase activity			ovary(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (25;0.0237)		TCGCAGGGAGTCAGTCATGTC	0.572													6	39					0	0	1	0	0		A	704358	A	A	704358	3	1	27	1	0	0	0	0	1	0	0	0	10806	1667	58	5	172	5	NXN	17	704358	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	169557	704358	80490852	6699	29050											
TIMM22	29928	broad.mit.edu	37	chr17	902817	902817	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcacgggaggagctattggTttcagaggttagtaaacggc	11	10	14	6	2	2	1	2	0	0	1	2	3	2	3	0	5	2	4	0	5	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:902817T>G	uc002fsc.2	+	3	527	c.501T>G	c.(499-501)GGT>GGG	p.G167G		NM_013337	NP_037469	Q9Y584	TIM22_HUMAN	translocase of inner mitochondrial membrane 22	167				IG -> YW (in Ref. 1; AAD40106).	transmembrane transport	integral to membrane|mitochondrial inner membrane	protein transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		GAGCTATTGGTTTCAGAGGTT	0.498													10	105					0	0	1	0	0		G	902817	G	G	902817	2	3	27	1	0	0	0	0	0	0	0	1	15935	1712	60	5		5	TIMM22	17	902817	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	198459	902817	80292393	6700	29051											
ABR	29	broad.mit.edu	37	chr17	914003	914003	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctgggtagagtcggtcCgtgaggagcggctcgggcag	7	6	20	8	4	0	2	0	1	0	1	3	3	1	3	1	6	1	4	1	6	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:914003C>T	uc002fsd.2	-	20	2312	c.2202G>A	c.(2200-2202)ACG>ACA	p.T734T	ABR_uc002fse.2_Silent_p.T688T|ABR_uc010vqf.1_Silent_p.T185T|ABR_uc010vqg.1_Silent_p.T516T|ABR_uc002fsg.2_Silent_p.T697T|ABR_uc002fsh.1_Silent_p.T342T|ABR_uc002fsf.2_Silent_p.T271T	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	734	Rho-GAP.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		AGAGTCGGTCCGTGAGGAGCG	0.622													6	47					0	0	1	0	0		T	914003	T	T	914003	2	4	27	1	0	0	0	0	0	0	0	1	99	639	23	1		1	ABR	17	914003	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11186	914003	80281207	6701	29052											
ABR	29	broad.mit.edu	37	chr17	914062	914062	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgtcccggcgatggcgtTgatgtccatgtcactcagca	7	9	13	12	4	2	1	2	1	0	0	4	3	4	1	2	2	2	2	2	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:914062T>C	uc002fsd.2	-	20	2253	c.2143A>G	c.(2143-2145)AAC>GAC	p.N715D	ABR_uc002fse.2_Missense_Mutation_p.N669D|ABR_uc010vqf.1_Missense_Mutation_p.N166D|ABR_uc010vqg.1_Missense_Mutation_p.N497D|ABR_uc002fsg.2_Missense_Mutation_p.N678D|ABR_uc002fsh.1_Missense_Mutation_p.N323D|ABR_uc002fsf.2_Missense_Mutation_p.N252D	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	715	Rho-GAP.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		GCGATGGCGTTGATGTCCATG	0.637													5	97					0	0	1	0	0		C	914062	C	C	914062	3	2	27	1	0	0	0	0	1	0	0	0	99	1812	63	3	452	3	ABR	17	914062	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	59	914062	80281148	6702	29053											
ABR	29	broad.mit.edu	37	chr17	953410	953410	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactgggagccctccagctcGatctcaaactcctggggaaa	10	7	11	13	1	1	0	1	0	1	0	5	4	3	2	3	3	3	1	3	3	2	0	rs141242979	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:953410G>A	uc002fsd.2	-	16	1781	c.1671C>T	c.(1669-1671)ATC>ATT	p.I557I	ABR_uc002fse.2_Silent_p.I511I|ABR_uc010vqg.1_Silent_p.I339I|ABR_uc002fsg.2_Silent_p.I520I|ABR_uc002fsh.1_Intron	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	557	C2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		CCTCCAGCTCGATCTCAAACT	0.557													14	56					0	0	1	0	0		A	953410	A	A	953410	2	1	27	1	0	0	0	0	0	0	0	1	99	1048	37	1		1	ABR	17	953410	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39348	953410	80241800	6703	29054											
PRPF8	10594	broad.mit.edu	37	chr17	1576438	1576438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgcggttgtggaagcgctgCattgactcatcgtccacacg	8	9	12	12	5	1	1	1	1	0	0	3	2	2	2	1	2	2	3	1	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:1576438C>T	uc002fte.2	-	24	3825	c.3711G>A	c.(3709-3711)ATG>ATA	p.M1237I		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	1237						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		GGAAGCGCTGCATTGACTCAT	0.547													5	59					0	0	1	0	0		T	1576438	T	T	1576438	3	4	27	1	0	0	0	0	1	0	0	0	12597	710	25	2	3376	2	PRPF8	17	1576438	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	623028	1576438	79618772	6704	29055											
PRPF8	10594	broad.mit.edu	37	chr17	1579343	1579343	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagactggttcaaccgagacTtcacactgacaaaagcaatg	15	7	9	10	1	2	3	2	1	0	2	2	5	2	3	1	1	2	2	1	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:1579343T>C	uc002fte.2	-	18	2672	c.2558A>G	c.(2557-2559)AAG>AGG	p.K853R		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	853						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		CAACCGAGACTTCACACTGAC	0.532													6	69					0	0	1	0	0		C	1579343	C	C	1579343	3	2	27	1	0	0	0	0	1	0	0	0	12597	1609	56	3	4553	3	PRPF8	17	1579343	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2905	1579343	79615867	6705	29056											
WDR81	124997	broad.mit.edu	37	chr17	1640894	1640894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagctctgagaacttccgcgGcacgctcaccagcctggcct	7	7	10	17	3	2	1	1	1	1	1	3	2	3	1	4	2	3	3	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:1640894G>A	uc002fti.2	+	10	2321	c.2060G>A	c.(2059-2061)GGC>GAC	p.G687D	WDR81_uc002fth.2_Missense_Mutation_p.G863D|WDR81_uc010vqp.1_Missense_Mutation_p.G711D|WDR81_uc002ftj.2_Missense_Mutation_p.G1914D|WDR81_uc010vqq.1_Missense_Mutation_p.G545D	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	687										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		AACTTCCGCGGCACGCTCACC	0.627													4	45					0	0	1	0	0		A	1640894	A	A	1640894	3	1	27	1	0	0	0	0	1	0	0	0	17356	1203	42	2	5841	2	WDR81	17	1640894	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	61551	1640894	79554316	6706	29057											
SMYD4	114826	broad.mit.edu	37	chr17	1686415	1686415	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaacctccaccacgtagagActcctctgtagatgggtggc	9	8	11	13	2	1	2	0	0	1	2	3	4	3	2	4	2	1	2	4	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:1686415A>G	uc002ftm.3	-	10	2343	c.2175T>C	c.(2173-2175)AGT>AGC	p.S725S	SMYD4_uc002ftn.1_Silent_p.S580S	NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	725							zinc ion binding			skin(3)|kidney(2)	5						CCACGTAGAGACTCCTCTGTA	0.493													7	89					0	0	1	0	0		G	1686415	G	G	1686415	2	3	27	1	0	0	0	0	0	0	0	1	14849	272	10	3		3	SMYD4	17	1686415	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	45521	1686415	79508795	6707	29058											
SGSM2	9905	broad.mit.edu	37	chr17	2266328	2266328	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagctcaagacagccgatcActactggactgacccctctg	11	8	8	14	1	3	2	2	1	1	1	3	4	3	3	3	1	3	1	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:2266328A>G	uc002fun.3	+	6	747	c.572A>G	c.(571-573)CAC>CGC	p.H191R	SGSM2_uc002fum.3_Missense_Mutation_p.H191R|SGSM2_uc010vqw.1_Missense_Mutation_p.H191R	NM_001098509	NP_001091979	O43147	SGSM2_HUMAN	RUN and TBC1 domain containing 1 isoform 2	191	RUN.					intracellular	Rab GTPase activator activity				0				Colorectal(2;5.15e-05)|READ - Rectum adenocarcinoma(2;0.000115)		ACAGCCGATCACTACTGGACT	0.632													3	54					0	0	1	0	0		G	2266328	G	G	2266328	3	3	27	1	0	0	0	0	1	0	0	0	14248	159	6	3	594	3	SGSM2	17	2266328	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	579913	2266328	78928882	6708	29059											
METT10D	79066	broad.mit.edu	37	chr17	2323876	2323876	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcttttccacagggaacTcgtttatgctggacctgttt	6	16	8	11	1	1	0	0	0	1	0	4	2	3	2	3	2	2	3	3	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:2323876T>C	uc002fut.2	-	10	1225	c.1077A>G	c.(1075-1077)CGA>CGG	p.R359R	METT10D_uc002fuu.3_RNA|METT10D_uc010cka.2_RNA|METT10D_uc002fuv.2_Intron|METT10D_uc010vqx.1_RNA|METT10D_uc010vqy.1_Silent_p.R141R	NM_024086	NP_076991	Q86W50	MET16_HUMAN	methyltransferase 10 domain containing	359							methyltransferase activity				0						CACAGGGAACTCGTTTATGCT	0.388													7	105					0	0	1	0	0		C	2323876	C	C	2323876	2	2	27	1	0	0	0	0	0	0	0	1	9508	1538	54	3		3	METT10D	17	2323876	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	57548	2323876	78871334	6709	29060											
KIAA0664	23277	broad.mit.edu	37	chr17	2604436	2604436	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggggacaaaggcactacctTttcttctgcagcacagcgaa	12	8	10	11	1	2	0	0	0	2	0	2	2	2	1	1	3	4	3	1	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:2604436T>C	uc002fuy.1	-	7	995	c.909A>G	c.(907-909)AAA>AAG	p.K303K	KIAA0664_uc002fux.1_Silent_p.K235K	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	303							binding			breast(2)	2						GGCACTACCTTTTCTTCTGCA	0.602													9	30					0	0	1	0	0		C	2604436	C	C	2604436	2	2	27	1	0	0	0	0	0	0	0	1	8205	1838	64	3		3	KIAA0664	17	2604436	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	280560	2604436	78590774	6710	29061											
KIAA0664	23277	broad.mit.edu	37	chr17	2604780	2604780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccccgggggcgggttccatCcgctcatggtgagtactttc	4	11	13	13	3	1	1	1	1	0	0	5	1	4	1	4	4	1	3	4	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:2604780C>T	uc002fuy.1	-	6	751	c.665G>A	c.(664-666)GGA>GAA	p.G222E	KIAA0664_uc002fux.1_Missense_Mutation_p.G154E	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	222							binding			breast(2)	2						CGGGTTCCATCCGCTCATGGT	0.657													4	30					0	0	1	0	0		T	2604780	T	T	2604780	3	4	27	1	0	0	0	0	1	0	0	0	8205	855	30	4	3348	4	KIAA0664	17	2604780	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	344	2604780	78590430	6711	29062											
KIAA0664	23277	broad.mit.edu	37	chr17	2605316	2605316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcaggtctcggacatggcGcacgtggatgcgggcctcac	7	6	16	12	4	2	0	1	0	1	0	3	3	2	2	1	5	2	2	1	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:2605316G>A	uc002fuy.1	-	4	483	c.397C>T	c.(397-399)CGC>TGC	p.R133C	KIAA0664_uc002fux.1_Missense_Mutation_p.R65C	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	133							binding			breast(2)	2						CGGACATGGCGCACGTGGATG	0.622													6	23					0	0	1	0	0		A	2605316	A	A	2605316	3	1	27	1	0	0	0	0	1	0	0	0	8205	1087	38	1	3624	1	KIAA0664	17	2605316	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	536	2605316	78589894	6712	29063											
RAP1GAP2	23108	broad.mit.edu	37	chr17	2867364	2867364	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcacttcctggggaaggTgaggctgggggagaggagct	8	6	21	6	0	0	2	0	1	0	1	1	6	1	4	1	8	1	3	1	8	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:2867364T>C	uc010ckd.2	+	7	582	c.492_splice	c.e7+2	p.K164_splice	RAP1GAP2_uc010cke.2_Splice_Site_p.K149_splice	NM_015085	NP_055900	Q684P5	RPGP2_HUMAN	RAP1 GTPase activating protein 2 isoform 1						regulation of small GTPase mediated signal transduction	centrosome|cytosol|perinuclear region of cytoplasm	GTPase activator activity			ovary(1)	1						CTGGGGAAGGTGAGGCTGGGG	0.627													9	58					0	0	1	0	0		C	2867364	C	C	2867364	5	2	27	1	0	0	0	0	0	0	1	0	13063	1710	59	3	520	3	RAP1GAP2	17	2867364	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	262048	2867364	78327846	6713	29064											
OR1A2	26189	broad.mit.edu	37	chr17	3101287	3101287	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacaccagtgctctccccCacactctgctcacagctagt	10	8	6	17	0	3	0	1	0	2	0	4	1	3	0	3	0	4	3	3	0	2	1	rs146269888	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:3101287C>A	uc002fvd.1	+	1	475	c.475C>A	c.(475-477)CAC>AAC	p.H159N		NM_012352	NP_036484	Q9Y585	OR1A2_HUMAN	olfactory receptor, family 1, subfamily A,	159	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TGCTCTCCCCCACACTCTGCT	0.478													25	93					9.57634e-11	1.06068e-10	1	1	0		A	3101287	A	A	3101287	3	1	27	1	0	0	0	0	1	0	0	0	10969	594	21	5	477	5	OR1A2	17	3101287	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	233923	3101287	78093923	6714	29065											
OR3A1	4994	broad.mit.edu	37	chr17	3195465	3195465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggactgtctgactcatgcGggtgctgtaggtgaggggcc	5	10	17	9	1	2	2	1	2	1	0	2	3	2	3	1	5	2	2	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:3195465G>A	uc002fvh.1	-	1	412	c.412C>T	c.(412-414)CGC>TGC	p.R138C		NM_002550	NP_002541	P47881	OR3A1_HUMAN	olfactory receptor, family 3, subfamily A,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(2)|central_nervous_system(1)	3						TGACTCATGCGGGTGCTGTAG	0.582													19	92					0	0	1	0	0		A	3195465	A	A	3195465	3	1	27	1	0	0	0	0	1	0	0	0	11056	1116	39	1	539	1	OR3A1	17	3195465	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	94178	3195465	77999745	6715	29066											
ASPA	443	broad.mit.edu	37	chr17	3386793	3386793	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtttttgatttttttcagActtctctggctccactaccc	6	18	5	12	1	2	2	1	1	1	1	4	2	3	2	2	1	1	2	2	1	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:3386793A>G	uc010ckg.2	+	4	524	c.433A>G	c.(433-435)ACT>GCT	p.T145A	SPATA22_uc010vrg.1_Intron|ASPA_uc002fvq.2_Missense_Mutation_p.T145A	NM_001128085	NP_001121557	P45381	ACY2_HUMAN	aspartoacylase	145					aspartate catabolic process	cytoplasm|nucleus	aminoacylase activity|aspartoacylase activity|hydrolase activity, acting on ester bonds|metal ion binding				0					L-Aspartic Acid(DB00128)	TTTTTTTCAGACTTCTCTGGC	0.398													4	149					0	0	1	0	0		G	3386793	G	G	3386793	3	3	27	1	0	0	0	0	1	0	0	0	1051	289	10	3	443	3	ASPA	17	3386793	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	191328	3386793	77808417	6716	29067											
TRPV3	162514	broad.mit.edu	37	chr17	3433413	3433413	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtagagggaggatgacacggGtccgtacgcccagtcggtga	9	6	17	9	4	0	3	0	2	0	1	2	5	1	5	2	4	1	2	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:3433413G>C	uc002fvt.1	-	9	1472	c.1150C>G	c.(1150-1152)CCC>GCC	p.P384A	TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Missense_Mutation_p.P368A|TRPV3_uc010vri.1_Missense_Mutation_p.P339A|TRPV3_uc010vrj.1_Missense_Mutation_p.P368A|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Missense_Mutation_p.P368A|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Missense_Mutation_p.P384A|TRPV3_uc002fvu.2_Missense_Mutation_p.P384A|TRPV3_uc010vrn.1_5'UTR	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	384	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	GATGACACGGGTCCGTACGCC	0.572													3	52					0	0	1	0	0		C	3433413	C	C	3433413	3	2	27	1	0	0	0	0	1	0	0	0	16623	1261	44	5	1262	5	TRPV3	17	3433413	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46620	3433413	77761797	6717	29068											
TRPV1	7442	broad.mit.edu	37	chr17	3483809	3483809	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcgacggccgcctctgcaGgaaatactgaatctgcaggt	10	8	11	12	3	2	1	0	1	2	0	3	3	2	2	2	3	3	2	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:3483809G>T	uc010vrr.1	-	9	2016	c.1489C>A	c.(1489-1491)CTG>ATG	p.L497M	TRPV1_uc010vro.1_Missense_Mutation_p.L508M|TRPV1_uc010vrp.1_Missense_Mutation_p.L437M|TRPV1_uc010vrq.1_Missense_Mutation_p.L495M|TRPV1_uc010vrs.1_Missense_Mutation_p.L497M|TRPV1_uc010vrt.1_Missense_Mutation_p.L497M|TRPV1_uc010vru.1_Missense_Mutation_p.L497M	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	497	Helical; (Potential).				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	CGCCTCTGCAGGAAATACTGA	0.498													6	84					0.000157383	0.000166242	1	1	0		T	3483809	T	T	3483809	3	4	27	1	0	0	0	0	1	0	0	0	16621	991	35	5	731	5	TRPV1	17	3483809	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	50396	3483809	77711401	6718	29069											
TRPV1	7442	broad.mit.edu	37	chr17	3494585	3494585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacggcttcaaagatactcCtgcgatcatagagcctgagg	12	8	10	11	2	2	3	2	1	0	2	3	4	3	3	2	2	4	1	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:3494585C>T	uc010vrr.1	-	2	874	c.347G>A	c.(346-348)AGG>AAG	p.R116K	TRPV1_uc010vro.1_Missense_Mutation_p.R116K|TRPV1_uc010vrp.1_Missense_Mutation_p.R116K|TRPV1_uc010vrq.1_Missense_Mutation_p.G91R|TRPV1_uc010vrs.1_Missense_Mutation_p.R116K|TRPV1_uc010vrt.1_Missense_Mutation_p.R116K|TRPV1_uc010vru.1_Missense_Mutation_p.R116K	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	116	Cytoplasmic (Potential).|ANK 1.				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	AAAGATACTCCTGCGATCATA	0.567													4	43					0	0	1	0	0		T	3494585	T	T	3494585	3	4	27	1	0	0	0	0	1	0	0	0	16621	681	24	4	1901	4	TRPV1	17	3494585	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10776	3494585	77700625	6719	29070											
P2RX5	5026	broad.mit.edu	37	chr17	3599262	3599262	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcggtcttgtagtcgaacAgcgacaggcagagccccttg	8	9	12	12	3	2	1	0	0	2	1	4	3	2	1	2	2	3	2	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:3599262A>C	uc002fwi.2	-	1	322	c.38T>G	c.(37-39)CTG>CGG	p.L13R	P2RX5_uc002fwd.2_RNA|P2RX5_uc002fwh.1_Missense_Mutation_p.L13R|P2RX5_uc002fwj.2_Missense_Mutation_p.L13R|P2RX5_uc002fwk.2_Missense_Mutation_p.L13R|P2RX5_uc002fwl.2_Missense_Mutation_p.L13R|P2RX5_uc002fwm.1_Missense_Mutation_p.L13R	NM_002561	NP_002552	Q93086	P2RX5_HUMAN	purinergic receptor P2X5 isoform A	13	Cytoplasmic (Potential).				nervous system development|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						GTAGTCGAACAGCGACAGGCA	0.662													4	56					0	0	1	0	0		C	3599262	C	C	3599262	3	2	27	1	0	0	0	0	1	0	0	0	11362	188	7	5	1282	5	P2RX5	17	3599262	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	104677	3599262	77595948	6720	29071											
ITGAE	3682	broad.mit.edu	37	chr17	3656663	3656663	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagccaccagcaagaagTccgtgcttccatccatgtca	11	7	9	14	1	1	1	1	0	0	1	4	2	4	1	5	0	4	3	5	0	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:3656663T>A	uc002fwo.3	-	14	1688	c.1589A>T	c.(1588-1590)GAC>GTC	p.D530V		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	530	Potential.|FG-GAP 5.|Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		CAGCAAGAAGTCCGTGCTTCC	0.562													4	46					0	0	1	0	0		A	3656663	A	A	3656663	3	1	27	1	0	0	0	0	1	0	0	0	7901	1667	58	5	2022	5	ITGAE	17	3656663	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	57401	3656663	77538547	6721	29072											
ITGAE	3682	broad.mit.edu	37	chr17	3660314	3660314	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgtaccgcagtttgctcaGcagcccatccagcgccatgt	7	10	10	14	2	1	0	1	0	0	0	2	0	2	0	4	0	5	6	4	0	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:3660314G>A	uc002fwo.3	-	10	1234	c.1135C>T	c.(1135-1137)CTG>TTG	p.L379L		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	379	VWFA.|Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		AGTTTGCTCAGCAGCCCATCC	0.473													19	136					0	0	1	0	0		A	3660314	A	A	3660314	2	1	27	1	0	0	0	0	0	0	0	1	7901	962	34	2		2	ITGAE	17	3660314	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3651	3660314	77534896	6722	29073											
CAMKK1	84254	broad.mit.edu	37	chr17	3779601	3779601	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtgctggacagctgagcGtcgttcccctcaaactggtt	6	10	12	13	3	1	1	1	1	0	0	3	2	2	2	3	2	4	4	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:3779601G>A	uc002fwt.2	-	10	1006	c.912C>T	c.(910-912)GAC>GAT	p.D304D	CAMKK1_uc002fwu.2_Silent_p.D304D|CAMKK1_uc002fwv.2_Silent_p.D342D	NM_172206	NP_757343	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase 1	304	Protein kinase.				synaptic transmission	cytosol|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1				LUAD - Lung adenocarcinoma(2;2.11e-05)|Lung(3;0.0176)		ACAGCTGAGCGTCGTTCCCCT	0.612													5	70					0	0	1	0	0		A	3779601	A	A	3779601	2	1	27	1	0	0	0	0	0	0	0	1	2609	1136	40	1		1	CAMKK1	17	3779601	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	119287	3779601	77415609	6723	29074											
ZZEF1	23140	broad.mit.edu	37	chr17	3989830	3989830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctctactcctttagggCtttggattggagccttttcc	5	15	9	12	0	1	0	0	0	1	0	3	2	3	2	4	3	3	1	4	3	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:3989830C>T	uc002fxe.2	-	15	2526	c.2462G>A	c.(2461-2463)AGC>AAC	p.S821N	ZZEF1_uc002fxk.1_Missense_Mutation_p.S821N	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	821							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TCCTTTAGGGCTTTGGATTGG	0.507													8	115					0	0	1	0	0		T	3989830	T	T	3989830	3	4	27	1	0	0	0	0	1	0	0	0	18280	797	28	2	6587	2	ZZEF1	17	3989830	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	210229	3989830	77205380	6724	29075											
ZZEF1	23140	broad.mit.edu	37	chr17	4020355	4020355	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagtgctccagcatcgggTagggcatcaccgcgctggag	7	7	15	12	3	1	0	1	0	0	0	3	1	2	1	2	3	3	6	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4020355T>C	uc002fxe.2	-	3	669	c.605A>G	c.(604-606)TAC>TGC	p.Y202C	ZZEF1_uc002fxk.1_Missense_Mutation_p.Y202C	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	202							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CAGCATCGGGTAGGGCATCAC	0.522													39	115					0	0	1	0	0		C	4020355	C	C	4020355	3	2	27	1	0	0	0	0	1	0	0	0	18280	1638	57	3	8492	3	ZZEF1	17	4020355	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	30525	4020355	77174855	6725	29076											
SPNS2	124976	broad.mit.edu	37	chr17	4436605	4436605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgggggcaggagccacgCgctggtgccgcctgaagacc	7	4	16	14	4	1	2	1	1	0	1	1	3	1	3	4	4	2	2	4	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4436605C>T	uc002fxx.2	+	8	1370	c.1156C>T	c.(1156-1158)CGC>TGC	p.R386C		NM_001124758	NP_001118230	Q8IVW8	SPNS2_HUMAN	spinster homolog 2	386					lipid transport|transmembrane transport	integral to membrane					0						AGGAGCCACGCGCTGGTGCCG	0.642													9	22					0	0	1	0	0		T	4436605	T	T	4436605	3	4	27	1	0	0	0	0	1	0	0	0	15100	768	27	1	1186	1	SPNS2	17	4436605	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	416250	4436605	76758605	6726	29077											
GGT6	124975	broad.mit.edu	37	chr17	4463748	4463748	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctcctccacttcctcCtccgactccaagcttggctc	4	12	4	21	1	0	0	0	0	0	0	9	1	8	0	8	1	1	2	8	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4463748C>A	uc002fyd.3	-	1	129	c.69G>T	c.(67-69)GAG>GAT	p.E23D	GGT6_uc010vsb.1_5'Flank|GGT6_uc002fyc.3_Missense_Mutation_p.E23D|GGT6_uc010vsc.1_Missense_Mutation_p.E23D	NM_001122890	NP_001116362	Q6P531	GGT6_HUMAN	gamma-glutamyltransferase 6 isoform a	23	Cytoplasmic (Potential).|Poly-Glu.				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			skin(1)	1						CCACTTCCTCCTCCGACTCCA	0.647													5	56					0.014758	0.0150623	1	1	0		A	4463748	A	A	4463748	3	1	27	1	0	0	0	0	1	0	0	0	6378	680	24	5	1428	5	GGT6	17	4463748	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	27143	4463748	76731462	6727	29078											
CXCL16	58191	broad.mit.edu	37	chr17	4641712	4641712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaagtctcacctttgagatCaagacagctcatcaattcct	14	11	5	11	0	4	2	4	1	1	2	6	3	5	2	2	0	1	1	2	0	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4641712C>T	uc002fyr.3	-	3	881	c.349G>A	c.(349-351)GAT>AAT	p.D117N	CXCL16_uc002fyq.3_5'Flank|CXCL16_uc002fys.3_Missense_Mutation_p.D117N|ZMYND15_uc002fyv.2_5'Flank|ZMYND15_uc002fyt.2_5'Flank|ZMYND15_uc002fyu.2_5'Flank	NM_022059	NP_071342	Q9H2A7	CXL16_HUMAN	chemokine (C-X-C motif) ligand 16	98	Extracellular (Potential).|Chemokine.				lymphocyte chemotaxis|positive regulation of cell growth|positive regulation of cell migration|receptor-mediated endocytosis|response to interferon-gamma|response to tumor necrosis factor	extracellular space|integral to membrane|plasma membrane	chemokine activity|low-density lipoprotein receptor activity|scavenger receptor activity				0						CCTTTGAGATCAAGACAGCTC	0.547													6	31					0	0	1	0	0		T	4641712	T	T	4641712	3	4	27	1	0	0	0	0	1	0	0	0	4086	826	29	4	484	4	CXCL16	17	4641712	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	177964	4641712	76553498	6728	29079											
ZMYND15	84225	broad.mit.edu	37	chr17	4647966	4647966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggttccggcatatcagcacGgcccagctctggcactaagg	8	8	12	13	2	2	0	1	0	1	0	3	0	3	0	2	5	2	5	2	5	2	3	rs138988876		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4647966G>A	uc002fyt.2	+	10	1652	c.1613G>A	c.(1612-1614)CGG>CAG	p.R538Q	ZMYND15_uc002fyv.2_Missense_Mutation_p.R577Q|ZMYND15_uc002fyu.2_Missense_Mutation_p.R577Q	NM_032265	NP_115641	Q9H091	ZMY15_HUMAN	zinc finger, MYND-type containing 15 isoform 2	538							zinc ion binding				0						ATATCAGCACGGCCCAGCTCT	0.637													22	63					0	0	1	0	0		A	4647966	A	A	4647966	3	1	27	1	0	0	0	0	1	0	0	0	17733	1116	39	1	1768	1	ZMYND15	17	4647966	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6254	4647966	76547244	6729	29080											
PLD2	5338	broad.mit.edu	37	chr17	4711687	4711687	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgagacacaaagtctTgatgagtctgctccctctgg	8	11	9	13	0	3	3	0	3	3	1	5	4	5	3	3	1	1	1	3	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4711687T>C	uc002fzc.2	+	4	460	c.359T>C	c.(358-360)TTG>TCG	p.L120S	PLD2_uc010vsj.1_5'UTR|PLD2_uc002fzd.2_Missense_Mutation_p.L120S	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	120	PX.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	CACAAAGTCTTGATGAGTCTG	0.572													13	150					0	0	1	0	0		C	4711687	C	C	4711687	3	2	27	1	0	0	0	0	1	0	0	0	12065	1821	63	3	369	3	PLD2	17	4711687	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	63721	4711687	76483523	6730	29081											
PLD2	5338	broad.mit.edu	37	chr17	4714224	4714224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacagctacgccccacccCggcctgggaccttggcccgg	6	5	12	18	3	0	1	0	1	0	0	0	2	0	2	7	4	2	1	7	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4714224C>T	uc002fzc.2	+	10	1089	c.988C>T	c.(988-990)CGG>TGG	p.R330W	PLD2_uc010vsj.1_Missense_Mutation_p.R187W|PLD2_uc002fzd.2_Missense_Mutation_p.R330W	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	330					cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	CGCCCCACCCCGGCCTGGGAC	0.617													4	66					0	0	1	0	0		T	4714224	T	T	4714224	3	4	27	1	0	0	0	0	1	0	0	0	12065	643	23	1	1022	1	PLD2	17	4714224	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2537	4714224	76480986	6731	29082											
PLD2	5338	broad.mit.edu	37	chr17	4721823	4721823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accgagtctacgtgcttttgCccttactccctggcttcgag	5	13	9	14	3	1	0	0	0	1	0	3	2	2	0	3	1	4	2	3	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4721823C>T	uc002fzc.2	+	20	2145	c.2044C>T	c.(2044-2046)CCC>TCC	p.P682S	PLD2_uc002fzd.2_Missense_Mutation_p.P682S	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	682	Catalytic.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	CGTGCTTTTGCCCTTACTCCC	0.617													7	74					0	0	1	0	0		T	4721823	T	T	4721823	3	4	27	1	0	0	0	0	1	0	0	0	12065	739	26	2	2118	2	PLD2	17	4721823	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7599	4721823	76473387	6732	29083											
PLD2	5338	broad.mit.edu	37	chr17	4722429	4722429	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgcgggcttcgtacacacGgagagctgggcgggcacccc	6	6	15	14	4	1	1	0	0	1	1	2	2	1	1	2	4	3	4	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4722429G>T	uc002fzc.2	+	22	2325	c.2224G>T	c.(2224-2226)GGA>TGA	p.G742*	PLD2_uc002fzd.2_Nonsense_Mutation_p.G742*	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	742	Catalytic.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	TCGTACACACGGAGAGCTGGG	0.592													8	60					0.00307968	0.00318367	1	1	0		T	4722429	T	T	4722429	4	4	27	1	0	0	0	0	0	1	0	0	12065	1117	39	5	2306	5	PLD2	17	4722429	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	606	4722429	76472781	6733	29084											
MINK1	50488	broad.mit.edu	37	chr17	4796870	4796870	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcgggccagcagaggggAgcagagatacccctgggggc	10	2	19	10	1	0	2	0	0	0	2	0	4	0	3	3	6	3	2	3	6	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4796870A>C	uc010vsl.1	+	21	2738	c.2542A>C	c.(2542-2544)AGC>CGC	p.S848R	MINK1_uc010vsk.1_Missense_Mutation_p.S819R|MINK1_uc010vsm.1_Missense_Mutation_p.S828R|MINK1_uc010vsn.1_Missense_Mutation_p.S811R|MINK1_uc010vso.1_Missense_Mutation_p.S756R|MINK1_uc010vsp.1_Missense_Mutation_p.S309R	NM_153827	NP_722549	Q8N4C8	MINK1_HUMAN	misshapen-like kinase 1 isoform 3	848					JNK cascade	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)|skin(1)	6						AGCAGAGGGGAGCAGAGATAC	0.672													7	29					0	0	1	0	0		C	4796870	C	C	4796870	3	2	27	1	0	0	0	0	1	0	0	0	9605	304	11	5	2391	5	MINK1	17	4796870	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	74441	4796870	76398340	6734	29085											
RNF167	26001	broad.mit.edu	37	chr17	4848061	4848061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcagacccggaagacctGccccatttgcaagcagcctg	10	6	9	16	1	1	2	1	0	0	2	1	3	1	3	5	1	4	2	5	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4848061G>A	uc002fzq.2	+	11	1219	c.803G>A	c.(802-804)TGC>TAC	p.C268Y	RNF167_uc002fzr.2_Missense_Mutation_p.C268Y|RNF167_uc002fzs.2_Missense_Mutation_p.C268Y|RNF167_uc002fzt.2_Missense_Mutation_p.C268Y|RNF167_uc002fzu.2_Missense_Mutation_p.C267Y|RNF167_uc002fzv.2_Missense_Mutation_p.C233Y|RNF167_uc002fzx.2_Missense_Mutation_p.C232Y|RNF167_uc002fzy.2_Missense_Mutation_p.C67Y	NM_015528	NP_056343	Q9H6Y7	RN167_HUMAN	ring finger protein 167 precursor	268	RING-type; atypical.				negative regulation of cell cycle|protein polyubiquitination	cytoplasm|endomembrane system|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						CGGAAGACCTGCCCCATTTGC	0.612													9	97					0	0	1	0	0		A	4848061	A	A	4848061	3	1	27	1	0	0	0	0	1	0	0	0	13483	1319	46	2	837	2	RNF167	17	4848061	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	51191	4848061	76347149	6735	29086											
KIF1C	10749	broad.mit.edu	37	chr17	4905895	4905895	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaattggctgtgacctcctAcgcagacattgctgacctca	10	10	8	13	1	1	3	1	2	0	1	2	3	2	3	3	1	2	3	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4905895A>G	uc002gan.1	+	7	892	c.566A>G	c.(565-567)TAC>TGC	p.Y189C		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	189	Kinesin-motor.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						GTGACCTCCTACGCAGACATT	0.607													15	133					0	0	1	0	0		G	4905895	G	G	4905895	3	3	27	1	0	0	0	0	1	0	0	0	8301	391	14	3	584	3	KIF1C	17	4905895	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	57834	4905895	76289315	6736	29087											
GPR172B	55065	broad.mit.edu	37	chr17	4937093	4937093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggatcccagttgaagttcagGccctgagccccctgtggtta	7	10	12	12	0	1	2	1	2	0	0	2	3	2	3	4	3	1	3	4	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:4937093G>A	uc002gap.3	-	3	1404	c.691C>T	c.(691-693)CCT>TCT	p.P231S	GPR172B_uc002gao.3_Missense_Mutation_p.P231S|GPR172B_uc010ckw.2_Missense_Mutation_p.P109S|GPR172B_uc010ckx.2_Missense_Mutation_p.P231S	NM_001104577	NP_001098047	Q9NWF4	RFT_HUMAN	G protein-coupled receptor 172B precursor	231						integral to plasma membrane	receptor activity|riboflavin transporter activity				0						TGAAGTTCAGGCCCTGAGCCC	0.602													8	68					0	0	1	0	0		A	4937093	A	A	4937093	3	1	27	1	0	0	0	0	1	0	0	0	6685	1203	42	2	667	2	GPR172B	17	4937093	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31198	4937093	76258117	6737	29088											
USP6	9098	broad.mit.edu	37	chr17	5039162	5039162	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttcctcctttatctgccTgaggaggacgcattctgggc	5	14	11	11	1	2	1	0	1	2	0	4	3	4	3	3	3	1	2	3	3	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:5039162T>C	uc002gau.1	+	17	2833	c.603T>C	c.(601-603)CCT>CCC	p.P201P	USP6_uc002gav.1_Silent_p.P201P|USP6_uc010ckz.1_5'UTR|uc002gba.2_5'Flank|uc002gbb.2_5'Flank	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	201	Rab-GAP TBC.				protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						TTTATCTGCCTGAGGAGGACG	0.617			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								7	97					0	0	1	0	0		C	5039162	C	C	5039162	2	2	27	1	0	0	0	0	0	0	0	1	17112	1567	55	3		3	USP6	17	5039162	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	102069	5039162	76156048	6738	29089											
USP6	9098	broad.mit.edu	37	chr17	5041418	5041418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatccaccctgtccctagagCgcctcatgaagacatccagg	10	8	8	15	1	1	3	1	1	0	2	4	3	4	3	5	1	1	0	5	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:5041418C>T	uc002gau.1	+	21	3158	c.928C>T	c.(928-930)CGC>TGC	p.R310C	USP6_uc002gav.1_Missense_Mutation_p.R310C|USP6_uc010ckz.1_5'UTR|uc002gbd.2_5'Flank	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	310					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						GTCCCTAGAGCGCCTCATGAA	0.572			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								16	73					0	0	1	0	0		T	5041418	T	T	5041418	3	4	27	1	0	0	0	0	1	0	0	0	17112	768	27	1	974	1	USP6	17	5041418	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2256	5041418	76153792	6739	29090											
ZNF594	84622	broad.mit.edu	37	chr17	5085839	5085839	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaagccctaccacactgAttacaccaataagctttcgc	13	9	6	13	1	0	1	0	1	0	0	1	2	0	2	3	1	4	1	3	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:5085839A>G	uc010cla.1	-	2	1869	c.1713T>C	c.(1711-1713)AAT>AAC	p.N571N		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	571	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						TACCACACTGATTACACCAAT	0.443													7	168					0	0	1	0	0		G	5085839	G	G	5085839	2	3	27	1	0	0	0	0	0	0	0	1	18049	330	12	3		3	ZNF594	17	5085839	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	44421	5085839	76109371	6740	29091											
RABEP1	9135	broad.mit.edu	37	chr17	5276735	5276735	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcagaagacttcatcctcCcagacactacagaggtaact	15	7	7	12	0	1	4	1	0	0	4	3	4	3	4	2	1	3	2	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:5276735C>A	uc002gbm.3	+	13	2235	c.2011C>A	c.(2011-2013)CCA>ACA	p.P671T	RABEP1_uc010clc.1_Missense_Mutation_p.P664T|RABEP1_uc010cld.1_Missense_Mutation_p.P628T|RABEP1_uc010vsw.1_Missense_Mutation_p.P628T|RABEP1_uc002gbl.3_Missense_Mutation_p.P671T|NUP88_uc002gbn.2_Intron	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	671	Potential.				apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						CTTCATCCTCCCAGACACTAC	0.393													5	46					0.00198382	0.00205548	1	1	0		A	5276735	A	A	5276735	3	1	27	1	0	0	0	0	1	0	0	0	12986	623	22	5	2061	5	RABEP1	17	5276735	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	190896	5276735	75918475	6741	29092											
C1QBP	708	broad.mit.edu	37	chr17	5338255	5338255	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatcaaatgttggtgggaTgctgttgttaatgttgaaag	11	14	12	4	0	1	1	1	1	0	0	1	2	1	2	1	2	1	5	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:5338255T>C	uc002gby.1	-	3	493	c.415A>G	c.(415-417)ATC>GTC	p.I139V		NM_001212	NP_001203	Q07021	C1QBP_HUMAN	complement component 1, q subcomponent binding	139					blood coagulation, intrinsic pathway|immune response|interspecies interaction between organisms	mitochondrial matrix|nucleus|plasma membrane				ovary(1)	1						GTTGGTGGGATGCTGTTGTTA	0.443													8	102					0	0	1	0	0		C	5338255	C	C	5338255	3	2	27	1	0	0	0	0	1	0	0	0	1959	1464	51	3	449	3	C1QBP	17	5338255	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	61520	5338255	75856955	6742	29093											
NLRP1	22861	broad.mit.edu	37	chr17	5436169	5436169	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttcttttctttgtcaactAcctcagtagccacaggcccc	8	13	6	14	0	4	0	2	0	2	0	4	0	4	0	4	1	3	2	4	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:5436169A>G	uc002gci.2	-	11	3824	c.3269T>C	c.(3268-3270)GTA>GCA	p.V1090A	NLRP1_uc002gcg.1_Missense_Mutation_p.V1094A|NLRP1_uc002gck.2_Missense_Mutation_p.V1090A|NLRP1_uc002gcj.2_Missense_Mutation_p.V1060A|NLRP1_uc002gcl.2_Missense_Mutation_p.V1060A|NLRP1_uc002gch.3_Missense_Mutation_p.V1090A|NLRP1_uc010clh.2_Missense_Mutation_p.V1090A	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1090					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				TTTGTCAACTACCTCAGTAGC	0.612													3	42					0	0	1	0	0		G	5436169	G	G	5436169	3	3	27	1	0	0	0	0	1	0	0	0	10490	391	14	3	1243	3	NLRP1	17	5436169	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	97914	5436169	75759041	6743	29094											
NLRP1	22861	broad.mit.edu	37	chr17	5462008	5462008	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccaataggaaacgtgtggTtgatgccccaaacaggccat	12	7	11	11	1	0	1	0	1	0	0	0	2	0	2	4	3	3	1	4	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:5462008T>C	uc002gci.2	-	4	2563	c.2008A>G	c.(2008-2010)ACC>GCC	p.T670A	NLRP1_uc002gcg.1_Missense_Mutation_p.T670A|NLRP1_uc002gck.2_Missense_Mutation_p.T670A|NLRP1_uc002gcj.2_Missense_Mutation_p.T670A|NLRP1_uc002gcl.2_Missense_Mutation_p.T670A|NLRP1_uc002gch.3_Missense_Mutation_p.T670A|NLRP1_uc010clh.2_Missense_Mutation_p.T670A	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	670					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				AAACGTGTGGTTGATGCCCCA	0.483													4	148					0	0	1	0	0		C	5462008	C	C	5462008	3	2	27	1	0	0	0	0	1	0	0	0	10490	1725	60	3	2544	3	NLRP1	17	5462008	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	25839	5462008	75733202	6744	29095											
WSCD1	23302	broad.mit.edu	37	chr17	5984004	5984004	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacctttcttccgactccAgaagtttctccgccgaacac	10	10	5	16	3	2	1	0	0	2	1	5	3	4	1	5	0	2	1	5	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:5984004A>G	uc010cli.2	+	2	405	c.26A>G	c.(25-27)CAG>CGG	p.Q9R	WSCD1_uc002gcn.2_Missense_Mutation_p.Q9R|WSCD1_uc002gco.2_Missense_Mutation_p.Q9R|WSCD1_uc010clj.2_5'UTR	NM_015253	NP_056068	Q658N2	WSCD1_HUMAN	WSC domain containing 1	9						integral to membrane	sulfotransferase activity				0						TTCCGACTCCAGAAGTTTCTC	0.662													3	47					0	0	1	0	0		G	5984004	G	G	5984004	3	3	27	1	0	0	0	0	1	0	0	0	17432	188	7	3	28	3	WSCD1	17	5984004	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	521996	5984004	75211206	6745	29096											
WSCD1	23302	broad.mit.edu	37	chr17	6021338	6021338	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaaaggaccactggcggaGccgacgcaccatctgtgtca	11	5	12	13	4	2	0	1	0	1	0	2	4	2	2	3	3	1	1	3	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:6021338G>A	uc010cli.2	+	8	1584	c.1205G>A	c.(1204-1206)AGC>AAC	p.S402N	WSCD1_uc002gcn.2_Missense_Mutation_p.S402N|WSCD1_uc002gco.2_Missense_Mutation_p.S402N|WSCD1_uc010clj.2_Missense_Mutation_p.S93N	NM_015253	NP_056068	Q658N2	WSCD1_HUMAN	WSC domain containing 1	402						integral to membrane	sulfotransferase activity				0						CACTGGCGGAGCCGACGCACC	0.552													8	89					0	0	1	0	0		A	6021338	A	A	6021338	3	1	27	1	0	0	0	0	1	0	0	0	17432	971	34	2	1231	2	WSCD1	17	6021338	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	37334	6021338	75173872	6746	29097											
AIPL1	23746	broad.mit.edu	37	chr17	6329092	6329092	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaggtccgccttggcctcGgcctcattccacacctctgc	4	10	10	17	2	2	0	1	0	1	0	5	1	4	1	6	4	1	0	6	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:6329092G>A	uc002gcp.2	-	6	938	c.843C>T	c.(841-843)GCC>GCT	p.A281A	AIPL1_uc002gcq.2_Silent_p.A221A|AIPL1_uc002gcr.2_Silent_p.A218A|AIPL1_uc010clk.2_Silent_p.A259A|AIPL1_uc010cll.2_Silent_p.A257A|AIPL1_uc002gcs.2_3'UTR	NM_014336	NP_055151	Q9NZN9	AIPL1_HUMAN	aryl hydrocarbon receptor interacting	281	TPR 3.				protein farnesylation|protein folding|visual perception	cytoplasm|nucleus	farnesylated protein binding|unfolded protein binding				0				COAD - Colon adenocarcinoma(228;0.141)		CCTTGGCCTCGGCCTCATTCC	0.652													7	36					0	0	1	0	0		A	6329092	A	A	6329092	2	1	27	1	0	0	0	0	0	0	0	1	436	1103	39	1		1	AIPL1	17	6329092	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	307754	6329092	74866118	6747	29098											
PITPNM3	83394	broad.mit.edu	37	chr17	6377778	6377778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggcagcaccgtcctcCgcatggccaggaccaggccc	7	3	12	19	2	0	0	0	0	0	0	2	1	2	1	7	4	1	3	7	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:6377778C>T	uc002gdd.3	-	10	1383	c.1232G>A	c.(1231-1233)CGG>CAG	p.R411Q	PITPNM3_uc010cln.2_Missense_Mutation_p.R375Q|PITPNM3_uc010clm.2_5'Flank|PITPNM3_uc002gdc.3_Missense_Mutation_p.R2Q	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	411	DDHD.				phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		CACCGTCCTCCGCATGGCCAG	0.672													4	30					0	0	1	0	0		T	6377778	T	T	6377778	3	4	27	1	0	0	0	0	1	0	0	0	11971	652	23	1	1736	1	PITPNM3	17	6377778	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	48686	6377778	74817432	6748	29099											
FBXO39	162517	broad.mit.edu	37	chr17	6683582	6683582	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaaatctctttccatccAatacctggagctggaccgcc	9	11	7	14	1	2	1	0	1	2	0	5	3	4	3	5	2	2	1	5	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:6683582A>G	uc010vtg.1	+	2	515	c.395A>G	c.(394-396)CAA>CGA	p.Q132R		NM_153230	NP_694962	Q8N4B4	FBX39_HUMAN	F-box protein 39	132										ovary(1)|skin(1)	2						CTTTCCATCCAATACCTGGAG	0.502													8	70					0	0	1	0	0		G	6683582	G	G	6683582	3	3	27	1	0	0	0	0	1	0	0	0	5761	130	5	3	397	3	FBXO39	17	6683582	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	305804	6683582	74511628	6749	29100											
ALOX12	239	broad.mit.edu	37	chr17	6909216	6909216	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccatgtacagttgctcCgtcgggcggcagctcagctg	5	8	16	12	3	1	0	1	0	0	0	3	0	2	0	2	4	4	6	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:6909216C>A	uc002gdx.3	+	10	1341	c.1288C>A	c.(1288-1290)CGT>AGT	p.R430S	uc002gdy.1_Intron	NM_000697	NP_000688	P18054	LOX12_HUMAN	arachidonate 12-lipoxygenase	430	Lipoxygenase.				anti-apoptosis|cellular component movement|fatty acid oxidation|leukotriene biosynthetic process|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of cell proliferation|superoxide anion generation	cytosol|sarcolemma	arachidonate 12-lipoxygenase activity|hepoxilin-epoxide hydrolase activity|iron ion binding|lipoxygenase activity|protein binding			central_nervous_system(1)	1						ACAGTTGCTCCGTCGGGCGGC	0.617													6	50					0.0215528	0.0219246	1	1	0		A	6909216	A	A	6909216	3	1	27	1	0	0	0	0	1	0	0	0	536	652	23	5	1326	5	ALOX12	17	6909216	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	225634	6909216	74285994	6750	29101											
RNASEK	440400	broad.mit.edu	37	chr17	6916011	6916011	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcccttctttatggcgtcGctcctgtgctgtgggccgaa	4	13	11	13	3	1	0	0	0	1	0	4	1	3	0	3	2	1	2	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:6916011G>T	uc002gea.2	+	1	214	c.9G>T	c.(7-9)TCG>TCT	p.S3S	uc002gdy.1_5'Flank|C17orf49_uc002geb.3_5'UTR|C17orf49_uc002gec.2_5'UTR|C17orf49_uc002ged.2_5'Flank|C17orf49_uc002gee.2_5'Flank|C17orf49_uc010vti.1_5'Flank	NM_001004333	NP_001004333	Q6P5S7	RNK_HUMAN	ribonuclease kappa	3					rRNA transcription	integral to membrane	endoribonuclease activity				0						TTATGGCGTCGCTCCTGTGCT	0.677													4	49					0.00024832	0.000261516	1	1	0		T	6916011	T	T	6916011	2	4	27	1	0	0	0	0	0	0	0	1	13440	1074	38	5		5	RNASEK	17	6916011	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6795	6916011	74279199	6751	29102											
NEURL4	84461	broad.mit.edu	37	chr17	7229645	7229645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attggtcaggattccacagcCgctcatcatgatggtgcctg	8	11	11	11	1	3	1	3	1	0	0	4	2	4	2	3	3	2	1	3	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7229645C>T	uc002gga.1	-	6	1229	c.1222G>A	c.(1222-1224)GGC>AGC	p.G408S	NEURL4_uc002ggb.1_Missense_Mutation_p.G408S|NEURL4_uc002ggc.1_5'UTR	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	408	NHR 2.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						ATTCCACAGCCGCTCATCATG	0.637													6	23					0	0	1	0	0		T	7229645	T	T	7229645	3	4	27	1	0	0	0	0	1	0	0	0	10366	652	23	1	3562	1	NEURL4	17	7229645	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	313634	7229645	73965565	6752	29103											
TNK1	8711	broad.mit.edu	37	chr17	7286169	7286169	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaggtggagctggagacCtggtctctctagggcctacc	6	10	14	11	0	2	1	0	0	2	1	3	3	2	2	3	5	3	2	3	5	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7286169C>A	uc002ggi.3	+	2	84	c.-76C>A	c.(-78--74)ACCTG>ACATG		TNK1_uc002ggj.3_Translation_Start_Site|TNK1_uc010cmf.2_RNA	NM_003985	NP_003976	Q13470	TNK1_HUMAN	tyrosine kinase, non-receptor, 1						protein autophosphorylation	membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(122;0.157)				AGCTGGAGACCTGGTCTCTCT	0.562													3	16					0.115264	0.116483	1	1	0		A	7286169	A	A	7286169	1	1	27	1	0	0	0	0	0	0	0	0	16342	696	24	5		5	TNK1	17	7286169	Translation_Start_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	56524	7286169	73909041	6753	29104											
CHRNB1	1140	broad.mit.edu	37	chr17	7351977	7351977	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaggggagggagggaaggAcagcgccaggaagtcatctt	11	5	17	8	1	2	0	1	0	1	0	2	5	2	5	2	6	1	0	2	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7351977A>T	uc002ghb.2	+	7	731	c.690A>T	c.(688-690)GGA>GGT	p.G230G	CHRNB1_uc010vty.1_Silent_p.G158G|CHRNB1_uc010vtz.1_Silent_p.G64G	NM_000747	NP_000738	P11230	ACHB_HUMAN	nicotinic acetylcholine receptor beta 1 subunit	230	Extracellular (Potential).				behavioral response to nicotine|muscle contraction|muscle fiber development|neuromuscular synaptic transmission|postsynaptic membrane organization|regulation of membrane potential|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine binding|receptor activity			ovary(2)	2		Prostate(122;0.157)				GGAGGGAAGGACAGCGCCAGG	0.572													6	53					0	0	1	0	0		T	7351977	T	T	7351977	2	4	27	1	0	0	0	0	0	0	0	1	3393	262	10	5		5	CHRNB1	17	7351977	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	65808	7351977	73843233	6754	29105											
EIF4A1	1973	broad.mit.edu	37	chr17	7468286	7468286	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccaccaggcatcttggaCgaattccttcaaacgtatgg	10	12	8	11	2	2	0	1	0	1	0	4	2	4	1	3	3	1	2	3	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7468286C>T	uc002gho.1	+	1	11	c.-1314C>T	c.(-1316--1312)GACGA>GATGA		SENP3_uc002ghm.2_Silent_p.D322D|SENP3_uc002ghn.1_Silent_p.D157D	NM_001416	NP_001407	P60842	IF4A1_HUMAN	eukaryotic translation initiation factor 4A						nuclear-transcribed mRNA poly(A) tail shortening	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA cap binding|translation initiation factor activity			ovary(1)	1						GCATCTTGGACGAATTCCTTC	0.547													11	35					0	0	1	0	0		T	7468286	T	T	7468286	1	4	27	1	0	0	0	0	0	0	0	0	5032	535	19	1		1	EIF4A1	17	7468286	Translation_Start_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	116309	7468286	73726924	6755	29106											
WRAP53	55135	broad.mit.edu	37	chr17	7604986	7604986	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcccccaggatgagctgacGgcagcccattcgctctgctt	6	10	10	15	2	1	2	0	2	1	0	3	3	2	3	3	2	3	4	3	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7604986G>A	uc010vuh.1	+	7	989	c.834G>A	c.(832-834)ACG>ACA	p.T278T	WRAP53_uc010vui.1_Silent_p.T278T|WRAP53_uc002gip.2_Silent_p.T278T|WRAP53_uc002gir.2_Silent_p.T278T|WRAP53_uc002giq.2_RNA|WRAP53_uc010cnl.2_Silent_p.T245T|WRAP53_uc010vuj.1_Silent_p.T59T	NM_001143990	NP_001137462	Q9BUR4	WAP53_HUMAN	WD repeat domain 79 isoform 2	278	WD 3.				positive regulation of telomerase activity|telomere formation via telomerase	Cajal body|cytoplasm|telomerase holoenzyme complex	protein binding|RNA binding				0						ATGAGCTGACGGCAGCCCATT	0.617													9	91					0	0	1	0	0		A	7604986	A	A	7604986	2	1	27	1	0	0	0	0	0	0	0	1	17426	1103	39	1		1	WRAP53	17	7604986	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	136700	7604986	73590224	6756	29107											
DNAH2	146754	broad.mit.edu	37	chr17	7710589	7710589	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctgatatcatcggccgCgtctccctggctgccaagtc	6	9	10	16	3	2	1	1	1	1	0	5	1	2	1	4	2	2	1	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7710589C>T	uc002giu.1	+	61	9578	c.9564C>T	c.(9562-9564)CGC>CGT	p.R3188R	DNAH2_uc010cnm.1_Silent_p.R126R	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3188	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TCATCGGCCGCGTCTCCCTGG	0.597													10	112					0	0	1	0	0		T	7710589	T	T	7710589	2	4	27	1	0	0	0	0	0	0	0	1	4608	755	27	1		1	DNAH2	17	7710589	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	105603	7710589	73484621	6757	29108											
DNAH2	146754	broad.mit.edu	37	chr17	7727218	7727218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctccctgcgccaggaccGcgtggccttctgcgtgacct	3	9	12	17	5	1	1	0	1	1	0	3	2	2	2	5	2	2	1	5	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7727218G>A	uc002giu.1	+	74	11410	c.11396G>A	c.(11395-11397)CGC>CAC	p.R3799H	DNAH2_uc010cnm.1_Missense_Mutation_p.R737H	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3799					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CGCCAGGACCGCGTGGCCTTC	0.587													11	54					0	0	1	0	0		A	7727218	A	A	7727218	3	1	27	1	0	0	0	0	1	0	0	0	4608	1087	38	1	11690	1	DNAH2	17	7727218	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	16629	7727218	73467992	6758	29109											
DNAH2	146754	broad.mit.edu	37	chr17	7727556	7727556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatggcccagcgcttccacGccctgtccctgggccagggc	4	6	13	18	2	0	0	0	0	0	0	2	0	2	0	5	3	1	2	5	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7727556G>A	uc002giu.1	+	75	11610	c.11596G>A	c.(11596-11598)GCC>ACC	p.A3866T	DNAH2_uc010cnm.1_Missense_Mutation_p.A804T	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3866	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GCGCTTCCACGCCCTGTCCCT	0.662													7	36					0	0	1	0	0		A	7727556	A	A	7727556	3	1	27	1	0	0	0	0	1	0	0	0	4608	1087	38	1	11894	1	DNAH2	17	7727556	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	338	7727556	73467654	6759	29110											
LSMD1	84316	broad.mit.edu	37	chr17	7760449	7760449	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcgaatgcgcatagtcttgTtgagcagcgcctctagctgc	7	11	12	11	3	2	1	0	1	2	0	2	2	2	1	1	0	6	4	1	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7760449T>C	uc002giz.2	-	2	248	c.149A>G	c.(148-150)AAC>AGC	p.N50S	LSMD1_uc002gja.2_Missense_Mutation_p.N98S|CYB5D1_uc010cnn.1_5'Flank|CYB5D1_uc002gjb.3_5'Flank			Q9BRA0	LSMD1_HUMAN	RecName: Full=LSM domain-containing protein 1; AltName: Full=Phosphonoformate immuno-associated protein 2;	50	Potential.					cytoplasm|nucleus				ovary(1)	1		all_cancers(10;0.11)|Prostate(122;0.219)				CATAGTCTTGTTGAGCAGCGC	0.642											OREG0024146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	104					0	0	1	0	0		C	7760449	C	C	7760449	3	2	27	1	0	0	0	0	1	0	0	0	9080	1725	60	3	236	3	LSMD1	17	7760449	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	32893	7760449	73434761	6760	29111											
CHD3	1107	broad.mit.edu	37	chr17	7814196	7814196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtccctacgctacacctcCggggtacggggcggccttca	5	7	14	15	4	1	0	1	0	0	0	3	0	3	0	4	6	3	2	4	6	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7814196C>T	uc002gje.2	+	39	5936	c.5786C>T	c.(5785-5787)CCG>CTG	p.P1929L	CHD3_uc002gjd.2_Missense_Mutation_p.P1988L|CHD3_uc002gjf.2_Missense_Mutation_p.P1895L|CHD3_uc002gjh.2_Missense_Mutation_p.P506L|CHD3_uc002gjj.2_Missense_Mutation_p.P92L	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1929	Required for interaction with PCNT.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GCTACACCTCCGGGGTACGGG	0.622													34	148					0	0	1	0	0		T	7814196	T	T	7814196	3	4	27	1	0	0	0	0	1	0	0	0	3329	652	23	1	6221	1	CHD3	17	7814196	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	53747	7814196	73381014	6761	29112											
CNTROB	116840	broad.mit.edu	37	chr17	7842846	7842846	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtaggaggaggaaaggcaaGctctgactctgaggttggag	11	8	17	5	0	2	2	0	2	2	0	2	6	2	6	0	6	1	4	0	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7842846G>T	uc002gjq.2	+	9	1862	c.943G>T	c.(943-945)GCT>TCT	p.A315S	CNTROB_uc002gjp.2_Missense_Mutation_p.A315S|CNTROB_uc002gjr.2_Missense_Mutation_p.A217S|CNTROB_uc010vum.1_Missense_Mutation_p.A27S	NM_053051	NP_444279	Q8N137	CNTRB_HUMAN	centrobin, centrosomal BRCA2 interacting protein	315	Potential.				centriole replication|centrosome separation|cytokinesis	centriole	protein domain specific binding			breast(1)|central_nervous_system(1)	2		Prostate(122;0.173)				GGAAAGGCAAGCTCTGACTCT	0.572													13	146					0.000219431	0.00023168	1	1	0		T	7842846	T	T	7842846	3	4	27	1	0	0	0	0	1	0	0	0	3654	971	34	5	973	5	CNTROB	17	7842846	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	28650	7842846	73352364	6762	29113											
GUCY2D	3000	broad.mit.edu	37	chr17	7906918	7906918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cattcggctgggcgcgcgtgGccctggtcaccgccccccag	3	6	14	18	5	1	0	1	0	0	0	2	0	1	0	5	4	0	1	5	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7906918G>A	uc002gjt.2	+	2	627	c.553G>A	c.(553-555)GCC>ACC	p.A185T		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	185	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				GGCGCGCGTGGCCCTGGTCAC	0.746													3	14					0	0	1	0	0		A	7906918	A	A	7906918	3	1	27	1	0	0	0	0	1	0	0	0	6913	1203	42	2	555	2	GUCY2D	17	7906918	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	64072	7906918	73288292	6763	29114											
GUCY2D	3000	broad.mit.edu	37	chr17	7907379	7907379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacgatgccgtgctcaccCtcacgcgccactgtccctct	5	8	7	21	4	3	0	2	0	1	0	4	1	4	0	5	0	2	1	5	0	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7907379C>T	uc002gjt.2	+	3	1005	c.931C>T	c.(931-933)CTC>TTC	p.L311F		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	311	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				CGTGCTCACCCTCACGCGCCA	0.667													4	86					0	0	1	0	0		T	7907379	T	T	7907379	3	4	27	1	0	0	0	0	1	0	0	0	6913	681	24	4	937	4	GUCY2D	17	7907379	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	461	7907379	73287831	6764	29115											
ALOX15B	247	broad.mit.edu	37	chr17	7951813	7951813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgaggggcatccaggagcGgaaccagggcctggtgctgc	7	5	17	12	2	0	0	0	0	0	0	2	3	1	2	3	6	4	2	3	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:7951813G>A	uc002gju.2	+	14	2077	c.1961G>A	c.(1960-1962)CGG>CAG	p.R654Q	ALOX15B_uc002gjv.2_Missense_Mutation_p.R625Q|ALOX15B_uc002gjw.2_Missense_Mutation_p.R580Q|ALOX15B_uc010vun.1_Missense_Mutation_p.R642Q|ALOX15B_uc010cnp.2_Missense_Mutation_p.R460Q	NM_001141	NP_001132	O15296	LX15B_HUMAN	arachidonate 15-lipoxygenase, second type	654	Lipoxygenase.				induction of apoptosis|leukotriene biosynthetic process|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of growth|prostate gland development|regulation of epithelial cell differentiation	cytoplasm	arachidonate 15-lipoxygenase activity|iron ion binding|lipoxygenase activity			ovary(1)	1						ATCCAGGAGCGGAACCAGGGC	0.627													14	44					0	0	1	0	0		A	7951813	A	A	7951813	3	1	27	1	0	0	0	0	1	0	0	0	539	1116	39	1	2015	1	ALOX15B	17	7951813	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	44434	7951813	73243397	6765	29116											
PFAS	5198	broad.mit.edu	37	chr17	8167098	8167098	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccgtggctgtgcagcttggGgacccaaccctgaatgccct	6	8	13	14	1	0	1	0	1	0	0	0	2	0	2	4	3	4	3	4	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:8167098G>A	uc002gkr.2	+	15	1776	c.1635G>A	c.(1633-1635)GGG>GGA	p.G545G	PFAS_uc010vuv.1_Silent_p.G121G|PFAS_uc010cnw.1_Intron|PFAS_uc002gks.2_5'Flank	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	545					'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TGCAGCTTGGGGACCCAACCC	0.597													7	64					0	0	1	0	0		A	8167098	A	A	8167098	2	1	27	1	0	0	0	0	0	0	0	1	11773	1219	43	4		4	PFAS	17	8167098	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	215285	8167098	73028112	6766	29117											
PFAS	5198	broad.mit.edu	37	chr17	8168393	8168393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcgccgcccggctggccGtggccgaagccctcaccaac	7	4	12	18	5	1	0	1	0	0	0	2	1	1	0	6	3	2	1	6	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:8168393G>A	uc002gkr.2	+	18	2371	c.2230G>A	c.(2230-2232)GTG>ATG	p.V744M	PFAS_uc010vuv.1_Missense_Mutation_p.V320M|PFAS_uc002gks.2_5'Flank	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	744					'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CCGGCTGGCCGTGGCCGAAGC	0.632													3	27					0	0	1	0	0		A	8168393	A	A	8168393	3	1	27	1	0	0	0	0	1	0	0	0	11773	1145	40	1	2296	1	PFAS	17	8168393	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1295	8168393	73026817	6767	29118											
ARHGEF15	22899	broad.mit.edu	37	chr17	8215626	8215626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagcctcgactcccagacttCcccagactcaccttccagca	9	7	5	20	1	1	2	1	0	0	2	5	3	4	2	6	0	2	1	6	0	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:8215626C>T	uc002glc.2	+	2	390	c.269C>T	c.(268-270)TCC>TTC	p.S90F	ARHGEF15_uc002glb.1_Missense_Mutation_p.S90F|ARHGEF15_uc002gld.2_Missense_Mutation_p.S90F|ARHGEF15_uc010vuw.1_Missense_Mutation_p.S90F	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	90	Pro-rich.				negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						TCCCAGACTTCCCCAGACTCA	0.662													14	124					0	0	1	0	0		T	8215626	T	T	8215626	3	4	27	1	0	0	0	0	1	0	0	0	898	855	30	4	271	4	ARHGEF15	17	8215626	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	47233	8215626	72979584	6768	29119											
KRBA2	124751	broad.mit.edu	37	chr17	8273427	8273427	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatcagtttctctgtgccCtgtacagagatcacatcata	10	14	6	11	0	5	1	3	0	2	1	6	2	5	1	1	0	2	2	1	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:8273427C>A	uc002glf.1	-	2	510	c.504G>T	c.(502-504)CAG>CAT	p.Q168H	KRBA2_uc002glg.1_Missense_Mutation_p.Q85H	NM_213597	NP_998762	Q6ZNG9	KRBA2_HUMAN	KRAB-A domain containing 2	168					DNA integration|regulation of transcription, DNA-dependent	intracellular	DNA binding				0						TCTCTGTGCCCTGTACAGAGA	0.378													46	168					3.21987e-24	3.60946e-24	1	1	0		A	8273427	A	A	8273427	3	1	27	1	0	0	0	0	1	0	0	0	8456	680	24	5	978	5	KRBA2	17	8273427	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	57801	8273427	72921783	6769	29120											
MYH10	4628	broad.mit.edu	37	chr17	8422252	8422252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acctttaggaatagcatttgGagttaggatctcatatctgt	11	15	9	6	0	2	0	1	0	2	0	3	3	2	3	1	3	1	2	1	3	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:8422252G>A	uc002gll.2	-	18	2293	c.2197C>T	c.(2197-2199)CCA>TCA	p.P733S	MYH10_uc002glm.2_Missense_Mutation_p.P764S|MYH10_uc010cnx.2_Missense_Mutation_p.P742S	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	733	Myosin head-like.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						ATAGCATTTGGAGTTAGGATC	0.348													4	50					0	0	1	0	0		A	8422252	A	A	8422252	3	1	27	1	0	0	0	0	1	0	0	0	10048	1174	41	4	3829	4	MYH10	17	8422252	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	148825	8422252	72772958	6770	29121											
USP43	124739	broad.mit.edu	37	chr17	9586272	9586272	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggtcagggcagcaggctaGcaggtatgtttcactttatt	8	12	14	7	0	2	0	2	0	0	0	2	0	2	0	0	5	2	6	0	5	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:9586272G>A	uc010cod.2	+	7	1238	c.1238G>A	c.(1237-1239)AGC>AAC	p.S413N	USP43_uc002gma.3_Missense_Mutation_p.S102N|USP43_uc010vva.1_Missense_Mutation_p.S413N|USP43_uc010coe.2_Missense_Mutation_p.S210N	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	ubiquitin specific protease 43	413					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CAGCAGGCTAGCAGGTATGTT	0.483													7	89					0	0	1	0	0		A	9586272	A	A	9586272	3	1	27	1	0	0	0	0	1	0	0	0	17100	971	34	2	1264	2	USP43	17	9586272	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1164020	9586272	71608938	6771	29122											
MYH13	8735	broad.mit.edu	37	chr17	10227392	10227392	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcgtcaaggtcagctccaGgtcatcaatgtctctcttga	8	14	8	11	1	6	1	4	1	2	0	9	1	7	1	1	2	1	1	1	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10227392G>T	uc002gmk.1	-	23	2971	c.2881C>A	c.(2881-2883)CTG>ATG	p.L961M	MYH13_uc010vve.1_Missense_Mutation_p.L59M	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	961	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GTCAGCTCCAGGTCATCAATG	0.468													6	69					3.59834e-05	3.83694e-05	1	1	0		T	10227392	T	T	10227392	3	4	27	1	0	0	0	0	1	0	0	0	10050	991	35	5	3011	5	MYH13	17	10227392	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	641120	10227392	70967818	6772	29123											
MYH13	8735	broad.mit.edu	37	chr17	10261071	10261071	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatcttgaggagttgtcaTtcctcacagtcttggcattt	9	15	8	9	0	4	1	2	1	2	0	5	2	5	2	1	2	0	2	1	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10261071T>C	uc002gmk.1	-	8	809	c.719A>G	c.(718-720)AAT>AGT	p.N240S		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	240	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GGAGTTGTCATTCCTCACAGT	0.448													7	81					0	0	1	0	0		C	10261071	C	C	10261071	3	2	27	1	0	0	0	0	1	0	0	0	10050	1493	52	3	5233	3	MYH13	17	10261071	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	33679	10261071	70934139	6773	29124											
MYH8	4626	broad.mit.edu	37	chr17	10322295	10322295	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccatgtcctcaattttgTcatatttcggagggttcata	8	16	9	8	1	3	0	3	0	0	0	5	1	4	1	2	3	0	1	2	3	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10322295T>C	uc002gmm.2	-	4	358	c.263A>G	c.(262-264)GAC>GGC	p.D88G	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	88	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						CTCAATTTTGTCATATTTCGG	0.433									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				14	93					0	0	1	0	0		C	10322295	C	C	10322295	3	2	27	1	0	0	0	0	1	0	0	0	10059	1667	58	3	5698	3	MYH8	17	10322295	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	61224	10322295	70872915	6774	29125											
MYH8	4626	broad.mit.edu	37	chr17	10323492	10323492	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttttctgattttcgaaggTagggagcagcttcgccaaaa	10	12	10	9	2	1	1	0	1	1	0	3	3	1	2	2	2	2	3	2	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10323492T>C	uc002gmm.2	-	3	148	c.53A>G	c.(52-54)TAC>TGC	p.Y18C	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	18	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TTTTCGAAGGTAGGGAGCAGC	0.493									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				10	106					0	0	1	0	0		C	10323492	C	C	10323492	3	2	27	1	0	0	0	0	1	0	0	0	10059	1638	57	3	5912	3	MYH8	17	10323492	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1197	10323492	70871718	6775	29126											
MYH4	4622	broad.mit.edu	37	chr17	10348381	10348381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagctgcagatccttcacgGtctgctccatgttcttcttc	5	14	9	13	1	4	1	1	0	3	1	7	2	6	2	2	2	3	4	2	2	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10348381G>A	uc002gmn.2	-	37	5489	c.5378C>T	c.(5377-5379)ACC>ATC	p.T1793I	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1793	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						ATCCTTCACGGTCTGCTCCAT	0.557													5	144					0	0	1	0	0		A	10348381	A	A	10348381	3	1	27	1	0	0	0	0	1	0	0	0	10055	1261	44	4	457	4	MYH4	17	10348381	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	24889	10348381	70846829	6776	29127											
MYH4	4622	broad.mit.edu	37	chr17	10358102	10358102	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcatgaaagcacggatgtTgtactgaatgcagaagatgg	14	10	12	5	1	1	4	1	2	0	2	1	5	1	5	0	2	3	4	0	2	4	3	rs112990048		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10358102T>A	uc002gmn.2	-	22	2572	c.2461A>T	c.(2461-2463)AAC>TAC	p.N821Y	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	821					muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						GCACGGATGTTGTACTGAATG	0.428													12	95					0	0	1	0	0		A	10358102	A	A	10358102	3	1	27	1	0	0	0	0	1	0	0	0	10055	1812	63	5	3434	5	MYH4	17	10358102	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9721	10358102	70837108	6777	29128											
MYH1	4619	broad.mit.edu	37	chr17	10398373	10398373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatccgctccagatgggCgctggtgtcctgttccttct	3	14	10	14	2	2	1	1	0	1	1	6	1	6	1	4	2	0	3	4	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10398373C>T	uc002gmo.2	-	37	5435	c.5341G>A	c.(5341-5343)GCC>ACC	p.A1781T	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1781	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TCCAGATGGGCGCTGGTGTCC	0.517													15	191					0	0	1	0	0		T	10398373	T	T	10398373	3	4	27	1	0	0	0	0	1	0	0	0	10047	768	27	1	494	1	MYH1	17	10398373	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	40271	10398373	70796837	6778	29129											
MYH1	4619	broad.mit.edu	37	chr17	10402051	10402051	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgctctctgtagctcggccTtggcttcctgctcctcctca	2	15	8	16	1	2	0	1	0	1	0	7	0	5	0	4	2	3	5	4	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10402051T>C	uc002gmo.2	-	30	4167	c.4073A>G	c.(4072-4074)AAG>AGG	p.K1358R	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1358	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TAGCTCGGCCTTGGCTTCCTG	0.582													11	120					0	0	1	0	0		C	10402051	C	C	10402051	3	2	27	1	0	0	0	0	1	0	0	0	10047	1609	56	3	1790	3	MYH1	17	10402051	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3678	10402051	70793159	6779	29130											
MYH1	4619	broad.mit.edu	37	chr17	10404716	10404716	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttccagcctctcgctgAtctcctccagctcccgggag	4	11	8	18	2	3	1	0	1	3	0	8	2	6	2	5	1	2	2	5	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10404716A>T	uc002gmo.2	-	27	3543	c.3449T>A	c.(3448-3450)ATC>AAC	p.I1150N	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1150	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CCTCTCGCTGATCTCCTCCAG	0.622													5	138					0	0	1	0	0		T	10404716	T	T	10404716	3	4	27	1	0	0	0	0	1	0	0	0	10047	333	12	5	2426	5	MYH1	17	10404716	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2665	10404716	70790494	6780	29131											
MYH2	4620	broad.mit.edu	37	chr17	10448771	10448771	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacctcgggcttatacacagGcagccacttgtaggggttga	9	9	12	11	1	0	1	0	1	0	0	1	1	0	1	2	4	2	4	2	4	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10448771G>T	uc010coi.2	-	5	525	c.397C>A	c.(397-399)CCT>ACT	p.P133T	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.P133T|MYH2_uc010coj.2_Missense_Mutation_p.P133T	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	133	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TTATACACAGGCAGCCACTTG	0.498													8	123					5.18039e-06	5.59131e-06	1	1	0		T	10448771	T	T	10448771	3	4	27	1	0	0	0	0	1	0	0	0	10053	1203	42	5	5572	5	MYH2	17	10448771	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	44055	10448771	70746439	6781	29132											
MYH3	4621	broad.mit.edu	37	chr17	10535851	10535851	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctccgccgcctggcggttgGcgtggctcagctggatctcg	2	10	15	14	5	3	0	1	0	2	0	5	1	3	1	3	5	1	3	3	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10535851G>T	uc002gmq.1	-	33	4975	c.4898C>A	c.(4897-4899)GCC>GAC	p.A1633D		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1633	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CTGGCGGTTGGCGTGGCTCAG	0.597													10	197					0.00829132	0.0085371	1	1	0		T	10535851	T	T	10535851	3	4	27	1	0	0	0	0	1	0	0	0	10054	1203	42	5	956	5	MYH3	17	10535851	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	87080	10535851	70659359	6782	29133											
MYH3	4621	broad.mit.edu	37	chr17	10539158	10539158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctttttcttccagctgaCgactcagctcacctgtgtcc	5	16	6	14	1	4	1	2	1	2	0	6	2	6	1	3	0	2	2	3	0	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10539158C>T	uc002gmq.1	-	28	3946	c.3869G>A	c.(3868-3870)CGT>CAT	p.R1290H		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1290	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TTCCAGCTGACGACTCAGCTC	0.328													7	121					0	0	1	0	0		T	10539158	T	T	10539158	3	4	27	1	0	0	0	0	1	0	0	0	10054	536	19	1	2005	1	MYH3	17	10539158	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3307	10539158	70656052	6783	29134											
PIRT	644139	broad.mit.edu	37	chr17	10728777	10728777	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaaaagcaggatggcaccGcccactgacatgataacgat	14	5	10	12	3	0	2	0	2	0	0	0	5	0	3	3	2	2	2	3	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:10728777G>A	uc010col.2	-	2	481	c.186C>T	c.(184-186)GGC>GGT	p.G62G		NM_001101387	NP_001094857	P0C851	PIRT_HUMAN	phosphoinositide-interacting regulator of	62	Helical; (Potential).					integral to membrane				ovary(1)	1						GGATGGCACCGCCCACTGACA	0.567													11	36					0	0	1	0	0		A	10728777	A	A	10728777	2	1	27	1	0	0	0	0	0	0	0	1	11964	1074	38	1		1	PIRT	17	10728777	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	189619	10728777	70466433	6784	29135											
DNAH9	1770	broad.mit.edu	37	chr17	11554567	11554567	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggaggtggaatttccatTagtggaggaagagctgcaaa	12	9	15	5	0	0	1	0	0	0	1	1	5	1	5	1	5	2	3	1	5	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:11554567T>C	uc002gne.2	+	13	2347	c.2279T>C	c.(2278-2280)TTA>TCA	p.L760S	DNAH9_uc010coo.2_Missense_Mutation_p.L54S	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	760	Stem (By similarity).|Potential.				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GAATTTCCATTAGTGGAGGAA	0.453													11	99					0	0	1	0	0		C	11554567	C	C	11554567	3	2	27	1	0	0	0	0	1	0	0	0	4614	1764	61	3	2329	3	DNAH9	17	11554567	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	825790	11554567	69640643	6785	29136											
DNAH9	1770	broad.mit.edu	37	chr17	11572398	11572398	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagtgtaaggcaggacttAccccaatatttgaagcacaa	15	8	9	9	0	0	2	0	1	0	1	0	3	0	3	2	2	2	3	2	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:11572398A>G	uc002gne.2	+	16	2817	c.2749A>G	c.(2749-2751)ACC>GCC	p.T917A	DNAH9_uc010coo.2_Missense_Mutation_p.T211A	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	917	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GGCAGGACTTACCCCAATATT	0.428													36	126					0	0	1	0	0		G	11572398	G	G	11572398	3	3	27	1	0	0	0	0	1	0	0	0	4614	391	14	3	2811	3	DNAH9	17	11572398	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17831	11572398	69622812	6786	29137											
MYOCD	93649	broad.mit.edu	37	chr17	12626252	12626252	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaatgaaaaaattgctctAcgaccagggccactggagct	13	8	9	11	1	2	1	1	1	1	0	2	3	2	2	2	2	3	2	2	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:12626252A>G	uc002gnn.2	+	5	641	c.342A>G	c.(340-342)CTA>CTG	p.L114L	MYOCD_uc002gno.2_Silent_p.L114L|MYOCD_uc002gnp.1_Silent_p.L18L	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	114	RPEL 3.				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		AAATTGCTCTACGACCAGGGC	0.468													5	166					0	0	1	0	0		G	12626252	G	G	12626252	2	3	27	1	0	0	0	0	0	0	0	1	10105	378	14	3		3	MYOCD	17	12626252	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1053854	12626252	68568958	6787	29138											
HS3ST3B1	9953	broad.mit.edu	37	chr17	14204913	14204913	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcagccgccgccgcccccGccgccggtgaggaggaagct	5	2	15	19	7	0	1	0	1	0	0	0	3	0	3	8	3	2	2	8	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:14204913G>A	uc002goh.1	+	1	408	c.78G>A	c.(76-78)CCG>CCA	p.P26P	MGC12916_uc010vvv.1_5'Flank	NM_006041	NP_006032	Q9Y662	HS3SB_HUMAN	heparan sulfate D-glucosaminyl	26	Cytoplasmic (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	Golgi membrane|integral to plasma membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|[heparan sulfate]-glucosamine 3-sulfotransferase 3 activity				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0887)		cgccgcccccgccgccggTGA	0.627													7	31					0	0	1	0	0		A	14204913	A	A	14204913	2	1	27	1	0	0	0	0	0	0	0	1	7382	1074	38	1		1	HS3ST3B1	17	14204913	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1578661	14204913	66990297	6788	29139											
TRIM16	10626	broad.mit.edu	37	chr17	15539514	15539514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcatcacattggcctgggCcttcctcacagcagcaagga	10	7	11	13	0	2	0	2	0	0	0	3	2	3	1	3	3	3	3	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:15539514C>T	uc002gox.2	-	6	1242	c.685G>A	c.(685-687)GCC>ACC	p.A229T	TRIM16_uc002gor.1_Missense_Mutation_p.A229T|TRIM16_uc002gow.2_Missense_Mutation_p.A13T|TRIM16_uc002goy.2_Missense_Mutation_p.A99T	NM_006470	NP_006461	O95361	TRI16_HUMAN	tripartite motif-containing 16	229					histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		TTGGCCTGGGCCTTCCTCACA	0.592													6	72					0	0	1	0	0		T	15539514	T	T	15539514	3	4	27	1	0	0	0	0	1	0	0	0	16517	739	26	2	1025	2	TRIM16	17	15539514	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1334601	15539514	65655696	6789	29140											
TTC19	54902	broad.mit.edu	37	chr17	15906111	15906111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtaatttgctttcagatggCcaacttagcatttatacggg	10	15	9	7	1	1	1	1	0	0	1	1	1	1	1	1	2	4	3	1	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:15906111C>T	uc002gph.1	+	4	809	c.791C>T	c.(790-792)GCC>GTC	p.A264V	TTC19_uc010cox.1_RNA	NM_017775	NP_060245	Q6DKK2	TTC19_HUMAN	tetratricopeptide repeat domain 19	143	TPR 1.				cell cycle|cytokinesis|mitochondrial respiratory chain complex III assembly	centrosome|midbody|mitochondrial inner membrane	protein binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		TTTCAGATGGCCAACTTAGCA	0.303													9	71					0	0	1	0	0		T	15906111	T	T	15906111	3	4	27	1	0	0	0	0	1	0	0	0	16712	739	26	2	805	2	TTC19	17	15906111	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	366597	15906111	65289099	6790	29141											
NCOR1	9611	broad.mit.edu	37	chr17	15968182	15968182	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtaactgtacaatctcAcctggagacatggaagcaga	13	9	11	8	0	1	2	1	0	1	2	2	4	1	3	1	2	3	3	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:15968182A>G	uc002gpo.2	-	34	5341	c.5101_splice	c.e34+1	p.G1701_splice	NCOR1_uc002gpn.2_Splice_Site_p.G1717_splice|NCOR1_uc002gpm.2_Splice_Site_p.G221_splice|NCOR1_uc010vwb.1_Splice_Site_p.G285_splice|NCOR1_uc010coy.2_Splice_Site_p.G609_splice|NCOR1_uc010vwc.1_Splice_Site_p.G511_splice	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1						cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GTACAATCTCACCTGGAGACA	0.423													4	70					0	0	1	0	0		G	15968182	G	G	15968182	5	3	27	1	0	0	0	0	0	0	1	0	10254	173	6	3	2271	3	NCOR1	17	15968182	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	62071	15968182	65227028	6791	29142											
NCOR1	9611	broad.mit.edu	37	chr17	15971261	15971261	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccaagtgcgtgggcaggTggctccgataaacctcgcct	8	8	13	12	3	0	0	0	0	0	0	3	2	2	0	4	3	2	2	4	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:15971261T>C	uc002gpo.2	-	32	4928	c.4688A>G	c.(4687-4689)CAC>CGC	p.H1563R	NCOR1_uc002gpn.2_Missense_Mutation_p.H1579R|NCOR1_uc002gpm.2_Missense_Mutation_p.H84R|NCOR1_uc010vwb.1_Missense_Mutation_p.H147R|NCOR1_uc010coy.2_Missense_Mutation_p.H471R|NCOR1_uc010vwc.1_Missense_Mutation_p.H374R	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1563	Interaction with ETO.|Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CGTGGGCAGGTGGCTCCGATA	0.527													3	51					0	0	1	0	0		C	15971261	C	C	15971261	3	2	27	1	0	0	0	0	1	0	0	0	10254	1696	59	3	2694	3	NCOR1	17	15971261	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3079	15971261	65223949	6792	29143											
NCOR1	9611	broad.mit.edu	37	chr17	15973523	15973523	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgagcctctggacatggtgTtttgataactcacaggggtc	8	12	13	8	0	2	2	1	2	1	0	3	3	2	3	1	4	2	1	1	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:15973523T>C	uc002gpo.2	-	31	4709	c.4469A>G	c.(4468-4470)AAC>AGC	p.N1490S	NCOR1_uc002gpn.2_Missense_Mutation_p.N1506S|NCOR1_uc002gpp.1_Missense_Mutation_p.N1397S|NCOR1_uc002gpm.2_5'Flank|NCOR1_uc010vwb.1_Missense_Mutation_p.N74S|NCOR1_uc010coy.2_Missense_Mutation_p.N398S|NCOR1_uc010vwc.1_Missense_Mutation_p.N301S	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1490	Interaction with ETO.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GGACATGGTGTTTTGATAACT	0.428													6	250					0	0	1	0	0		C	15973523	C	C	15973523	3	2	27	1	0	0	0	0	1	0	0	0	10254	1725	60	3	2917	3	NCOR1	17	15973523	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2262	15973523	65221687	6793	29144											
NCOR1	9611	broad.mit.edu	37	chr17	16022749	16022749	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatttaccttttttagcaaCttccatttcttcttctgtcc	7	20	2	12	0	3	0	0	0	3	0	5	0	5	0	3	0	3	1	3	0	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:16022749C>T	uc002gpo.2	-	17	2143	c.1903G>A	c.(1903-1905)GTT>ATT	p.V635I	NCOR1_uc002gpn.2_Missense_Mutation_p.V635I|NCOR1_uc002gpp.1_Missense_Mutation_p.V526I|NCOR1_uc002gpr.2_Missense_Mutation_p.V526I	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	635	SANT 2.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		TTTTTAGCAACTTCCATTTCT	0.343													11	133					0	0	1	0	0		T	16022749	T	T	16022749	3	4	27	1	0	0	0	0	1	0	0	0	10254	565	20	4	5539	4	NCOR1	17	16022749	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	49226	16022749	65172461	6794	29145											
NCOR1	9611	broad.mit.edu	37	chr17	16024445	16024445	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcactggcagctgcagcttcGtttgtcatggacctggtgat	6	12	13	10	1	1	1	1	1	0	0	2	2	1	2	1	3	3	6	1	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:16024445G>A	uc002gpo.2	-	16	2013	c.1773C>T	c.(1771-1773)AAC>AAT	p.N591N	NCOR1_uc002gpn.2_Silent_p.N591N|NCOR1_uc002gpp.1_Silent_p.N482N|NCOR1_uc002gpr.2_Silent_p.N482N	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	591					cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CTGCAGCTTCGTTTGTCATGG	0.607													9	108					0	0	1	0	0		A	16024445	A	A	16024445	2	1	27	1	0	0	0	0	0	0	0	1	10254	1136	40	1		1	NCOR1	17	16024445	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1696	16024445	65170765	6795	29146											
NCOR1	9611	broad.mit.edu	37	chr17	16075115	16075115	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtaagagaacaaatatttAccttcttagcatctgcagaa	15	11	8	7	0	2	2	0	0	2	2	2	3	2	2	1	1	4	3	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:16075115A>G	uc002gpo.2	-	4	675	c.435_splice	c.e4+1	p.K145_splice	NCOR1_uc002gpn.2_Splice_Site_p.K145_splice|NCOR1_uc002gpp.1_Intron|NCOR1_uc002gpr.2_Intron|NCOR1_uc002gps.1_Splice_Site_p.K145_splice|NCOR1_uc010coz.1_Splice_Site|NCOR1_uc010cpb.1_Splice_Site_p.K145_splice|NCOR1_uc010cpa.1_Splice_Site_p.K145_splice|NCOR1_uc002gpu.2_Splice_Site_p.K145_splice	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1						cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		ACAAATATTTACCTTCTTAGC	0.438													4	16					0	0	1	0	0		G	16075115	G	G	16075115	5	3	27	1	0	0	0	0	0	0	1	0	10254	405	14	3	7057	3	NCOR1	17	16075115	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	50670	16075115	65120095	6796	29147											
CENPV	201161	broad.mit.edu	37	chr17	16246220	16246220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctcagtgaccatactccGcacagtgccctcatccaggc	8	9	7	17	1	2	1	2	1	0	0	5	1	5	1	5	1	2	1	5	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:16246220G>A	uc002gpw.2	-	5	792	c.730C>T	c.(730-732)CGG>TGG	p.R244W		NM_181716	NP_859067	Q7Z7K6	CENPV_HUMAN	proline rich 6	247					cell division|centromeric heterochromatin formation|mitosis|positive regulation of cytokinesis|regulation of chromosome organization	condensed chromosome kinetochore|cytoplasm|nucleus|spindle midzone	carbon-sulfur lyase activity				0						ACCATACTCCGCACAGTGCCC	0.532													8	54					0	0	1	0	0		A	16246220	A	A	16246220	3	1	27	1	0	0	0	0	1	0	0	0	3246	1086	38	1	92	1	CENPV	17	16246220	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	171105	16246220	64948990	6797	29148											
TRPV2	51393	broad.mit.edu	37	chr17	16335120	16335120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcctgcgggacctgctgcGcttccttctgatctacttag	5	13	9	14	2	2	1	0	1	2	0	4	2	4	2	3	1	4	2	3	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:16335120G>A	uc002gpy.2	+	11	1977	c.1610G>A	c.(1609-1611)CGC>CAC	p.R537H	TRPV2_uc002gpz.2_Missense_Mutation_p.R107H	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	537	Cytoplasmic (Potential).				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		GACCTGCTGCGCTTCCTTCTG	0.622													21	50					0	0	1	0	0		A	16335120	A	A	16335120	3	1	27	1	0	0	0	0	1	0	0	0	16622	1087	38	1	1648	1	TRPV2	17	16335120	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	88900	16335120	64860090	6798	29149											
ZNF624	57547	broad.mit.edu	37	chr17	16527781	16527781	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataaatcttcagaaatagccTttgttcgtgtagccttcttg	10	16	7	8	1	3	1	1	0	2	1	4	1	3	1	2	0	2	2	2	0	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:16527781T>G	uc010cpi.1	-	6	502	c.419A>C	c.(418-420)AAG>ACG	p.K140T		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	140					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		AGAAATAGCCTTTGTTCGTGT	0.428													5	72					0	0	1	0	0		G	16527781	G	G	16527781	3	3	27	1	0	0	0	0	1	0	0	0	18073	1609	56	5	2182	5	ZNF624	17	16527781	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	192661	16527781	64667429	6799	29150											
CCDC144A	9720	broad.mit.edu	37	chr17	16612506	16612506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcatccatccatactatcatCcatactctgggtcccaggaa	11	11	5	14	0	3	0	2	0	1	0	7	1	7	1	4	2	2	0	4	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:16612506C>T	uc002gqk.1	+	5	1211	c.1135C>T	c.(1135-1137)CCA>TCA	p.P379S	CCDC144A_uc002gql.1_Intron|LOC162632_uc010cpj.1_5'Flank	NM_014695	NP_055510	A2RUR9	C144A_HUMAN	coiled-coil domain containing 144A	379											0						ATACTATCATCCATACTCTGG	0.383													19	140					0	0	1	0	0		T	16612506	T	T	16612506	3	4	27	1	0	0	0	0	1	0	0	0	2780	855	30	4	1153	4	CCDC144A	17	16612506	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	84725	16612506	64582704	6800	29151											
COPS3	8533	broad.mit.edu	37	chr17	17179427	17179427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagatgggataagttcttcGcaaggagttccccactcttg	9	11	10	11	1	2	1	0	0	2	1	4	3	3	3	3	2	0	3	3	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:17179427G>A	uc002grd.2	-	2	198	c.107C>T	c.(106-108)GCG>GTG	p.A36V	COPS3_uc010vwv.1_Missense_Mutation_p.A16V|COPS3_uc010vww.1_5'UTR	NM_003653	NP_003644	Q9UNS2	CSN3_HUMAN	COP9 constitutive photomorphogenic homolog	36					cullin deneddylation|response to light stimulus|signal transduction	cytoplasm|signalosome	protein binding			skin(1)	1						TAAGTTCTTCGCAAGGAGTTC	0.458													23	48					0	0	1	0	0		A	17179427	A	A	17179427	3	1	27	1	0	0	0	0	1	0	0	0	3737	1087	38	1	1208	1	COPS3	17	17179427	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	566921	17179427	64015783	6801	29152											
PEMT	10400	broad.mit.edu	37	chr17	17412796	17412796	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttccccagtacatggggTtgtccaggatgttgaagggg	7	11	15	8	0	0	1	0	1	0	0	2	2	2	2	3	5	2	4	3	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:17412796T>C	uc002grj.2	-	5	486	c.419A>G	c.(418-420)AAC>AGC	p.N140S	PEMT_uc002grk.2_Missense_Mutation_p.N140S|PEMT_uc002grl.2_Missense_Mutation_p.N177S|PEMT_uc010vwx.1_Missense_Mutation_p.N177S	NM_148173	NP_680478	Q9UBM1	PEMT_HUMAN	phosphatidylethanolamine N-methyltransferase	140					cell proliferation|phosphatidylcholine biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrial membrane	phosphatidylethanolamine N-methyltransferase activity				0				Colorectal(2;0.0157)|READ - Rectum adenocarcinoma(2;0.0891)		GTACATGGGGTTGTCCAGGAT	0.602													8	86					0	0	1	0	0		C	17412796	C	C	17412796	3	2	27	1	0	0	0	0	1	0	0	0	11745	1725	60	3	192	3	PEMT	17	17412796	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	233369	17412796	63782414	6802	29153											
RAI1	10743	broad.mit.edu	37	chr17	17697393	17697393	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccctacagccagcagccgctCagcaccggggccttccccgc	6	4	10	21	3	1	0	1	0	0	0	2	0	2	0	7	2	5	3	7	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:17697393C>T	uc002grm.2	+	3	1600	c.1131C>T	c.(1129-1131)CTC>CTT	p.L377L	RAI1_uc002grn.1_Silent_p.L377L	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	377						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		AGCAGCCGCTCAGCACCGGGG	0.647													4	113					0	0	1	0	0		T	17697393	T	T	17697393	2	4	27	1	0	0	0	0	0	0	0	1	13032	813	29	4		4	RAI1	17	17697393	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	284597	17697393	63497817	6803	29154											
SREBF1	6720	broad.mit.edu	37	chr17	17721053	17721053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtcaggctccgagtcactgCcactgccaccgctgccactg	6	8	10	17	2	2	0	2	0	0	0	3	1	3	0	5	1	3	2	5	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:17721053C>T	uc002gru.1	-	7	1555	c.1361G>A	c.(1360-1362)GGC>GAC	p.G454D	SREBF1_uc002grp.1_Missense_Mutation_p.A24T|SREBF1_uc002grq.1_5'UTR|SREBF1_uc002grr.1_Missense_Mutation_p.G200D|SREBF1_uc002grs.1_Missense_Mutation_p.G430D|SREBF1_uc002grt.1_Missense_Mutation_p.G484D|SREBF1_uc010cpp.1_Missense_Mutation_p.G430D|SREBF1_uc010cpq.1_Missense_Mutation_p.G454D	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	454	Gly/Pro/Ser-rich.|Cytoplasmic (Potential).|Interaction with LMNA (By similarity).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						CGAGTCACTGCCACTGCCACC	0.652													9	34					0	0	1	0	0		T	17721053	T	T	17721053	3	4	27	1	0	0	0	0	1	0	0	0	15166	739	26	2	2134	2	SREBF1	17	17721053	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23660	17721053	63474157	6804	29155											
LRRC48	83450	broad.mit.edu	37	chr17	17887240	17887240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgagggcctggagaacctcGcacacctggtctggctgggt	6	8	15	12	2	1	1	0	0	1	1	3	3	1	1	3	5	1	2	3	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:17887240G>A	uc010vxd.1	+	5	638	c.259G>A	c.(259-261)GCA>ACA	p.A87T	LRRC48_uc002gsa.2_Missense_Mutation_p.A87T|LRRC48_uc010vxc.1_Missense_Mutation_p.A87T|LRRC48_uc002gsb.2_Missense_Mutation_p.A87T	NM_001130090	NP_001123562	Q9H069	LRC48_HUMAN	leucine rich repeat containing 48 isoform a	87	LRR 2.					cytoplasm				pancreas(1)	1	all_neural(463;0.228)					GGAGAACCTCGCACACCTGGT	0.512													10	70					0	0	1	0	0		A	17887240	A	A	17887240	3	1	27	1	0	0	0	0	1	0	0	0	9023	1087	38	1	265	1	LRRC48	17	17887240	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	166187	17887240	63307970	6805	29156											
DRG2	1819	broad.mit.edu	37	chr17	17997252	17997252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgaagtcgggtgatgccCgtgtggcgctgattggattt	6	13	15	7	3	1	3	1	3	0	0	2	4	1	4	1	3	1	1	1	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:17997252C>T	uc002gsh.1	+	2	245	c.190C>T	c.(190-192)CGT>TGT	p.R64C	DRG2_uc010vxg.1_Missense_Mutation_p.R64C|DRG2_uc002gsi.1_RNA|DRG2_uc002gsj.1_Missense_Mutation_p.R64C	NM_001388	NP_001379	P55039	DRG2_HUMAN	developmentally regulated GTP binding protein 2	64					signal transduction		GTP binding			ovary(1)	1	all_neural(463;0.228)					GGGTGATGCCCGTGTGGCGCT	0.552													7	62					0	0	1	0	0		T	17997252	T	T	17997252	3	4	27	1	0	0	0	0	1	0	0	0	4768	652	23	1	196	1	DRG2	17	17997252	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	110012	17997252	63197958	6806	29157											
MYO15A	51168	broad.mit.edu	37	chr17	18023044	18023044	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctacggctacggctacgaCgattacgaacccccatatgc	11	7	8	15	5	0	0	0	0	0	0	0	3	0	0	3	2	6	2	3	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:18023044C>T	uc010vxh.1	+	2	1268	c.930C>T	c.(928-930)GAC>GAT	p.D310D		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	310	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					ACGGCTACGACGATTACGAAC	0.607													4	75					0	0	1	0	0		T	18023044	T	T	18023044	2	4	27	1	0	0	0	0	0	0	0	1	10081	535	19	1		1	MYO15A	17	18023044	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25792	18023044	63172166	6807	29158											
MYO15A	51168	broad.mit.edu	37	chr17	18023508	18023508	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagcagcaaggcatggataAgcccgccaggtccaagctgt	11	5	13	12	2	0	0	0	0	0	0	1	2	1	1	3	3	4	4	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:18023508A>G	uc010vxh.1	+	2	1732	c.1394A>G	c.(1393-1395)AAG>AGG	p.K465R		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	465	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GGCATGGATAAGCCCGCCAGG	0.652													3	34					0	0	1	0	0		G	18023508	G	G	18023508	3	3	27	1	0	0	0	0	1	0	0	0	10081	72	3	3	1396	3	MYO15A	17	18023508	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	464	18023508	63171702	6808	29159											
MYO15A	51168	broad.mit.edu	37	chr17	18039118	18039118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccctgagggcctgcagaagGccatcaccttcaaagtgacc	10	6	10	15	0	2	3	2	2	0	1	2	3	2	3	6	2	1	1	6	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:18039118G>A	uc010vxh.1	+	12	4914	c.4576G>A	c.(4576-4578)GCC>ACC	p.A1526T		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1526	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCTGCAGAAGGCCATCACCTT	0.592													7	29					0	0	1	0	0		A	18039118	A	A	18039118	3	1	27	1	0	0	0	0	1	0	0	0	10081	1203	42	2	4618	2	MYO15A	17	18039118	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15610	18039118	63156092	6809	29160											
MYO15A	51168	broad.mit.edu	37	chr17	18082167	18082167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctcacattgccccccagcGagatcaccctgctctgaccc	7	7	8	19	1	3	2	2	1	1	1	3	3	3	2	5	1	3	2	5	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:18082167G>A	uc010vxh.1	+	65	10914	c.10576G>A	c.(10576-10578)GAG>AAG	p.E3526K	uc002gsn.2_Intron|MYO15A_uc010vxi.1_3'UTR|MYO15A_uc002gsl.2_3'UTR|MYO15A_uc010vxm.1_3'UTR|MYO15A_uc010cpv.2_RNA	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	3526	Tail.|FERM.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GCCCCCCAGCGAGATCACCCT	0.423													6	35					0	0	1	0	0		A	18082167	A	A	18082167	3	1	27	1	0	0	0	0	1	0	0	0	10081	1059	37	1	10830	1	MYO15A	17	18082167	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	43049	18082167	63113043	6810	29161											
LLGL1	3996	broad.mit.edu	37	chr17	18143909	18143909	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggggcccaccacgggcccAccatgtgggctggcaccaac	8	3	13	17	1	0	0	0	0	0	0	0	0	0	0	5	5	1	2	5	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:18143909A>G	uc002gsp.2	+	17	2285	c.2224A>G	c.(2224-2226)ACC>GCC	p.T742A		NM_004140	NP_004131	Q15334	L2GL1_HUMAN	lethal giant larvae homolog 1	742	WD 11.				cortical actin cytoskeleton organization|exocytosis|protein complex assembly	cortical actin cytoskeleton	protein kinase binding|structural molecule activity			breast(2)|skin(2)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)	6	all_neural(463;0.228)					CCACGGGCCCACCATGTGGGC	0.617													11	147					0	0	1	0	0		G	18143909	G	G	18143909	3	3	27	1	0	0	0	0	1	0	0	0	8850	159	6	3	2290	3	LLGL1	17	18143909	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	61742	18143909	63051301	6811	29162											
TOP3A	7156	broad.mit.edu	37	chr17	18205934	18205934	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcctcacatccacagcatcGctcaccctctgatcaggctc	8	9	6	18	1	4	1	3	1	1	0	7	1	5	1	3	1	2	3	3	1	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:18205934G>A	uc002gsx.1	-	6	832	c.603C>T	c.(601-603)AGC>AGT	p.S201S	TOP3A_uc010vxr.1_5'Flank|TOP3A_uc002gsw.1_5'UTR|TOP3A_uc010vxs.1_Silent_p.S99S|TOP3A_uc010cqa.1_RNA	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	201					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						CCACAGCATCGCTCACCCTCT	0.547													10	53					0	0	1	0	0		A	18205934	A	A	18205934	2	1	27	1	0	0	0	0	0	0	0	1	16393	1078	38	1		1	TOP3A	17	18205934	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	62025	18205934	62989276	6812	29163											
SHMT1	6470	broad.mit.edu	37	chr17	18233876	18233876	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgattctcacctggacaGgtgttcttgttgcaggcaat	8	13	12	8	0	2	1	1	1	2	0	3	3	2	3	1	4	1	4	1	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:18233876G>A	uc002gta.2	-	10	1354	c.1164C>T	c.(1162-1164)ACC>ACT	p.T388T	SHMT1_uc002gsz.2_Silent_p.T163T|SHMT1_uc002gtb.2_Silent_p.T349T|SHMT1_uc010cqb.2_Silent_p.T388T|SHMT1_uc010vxt.1_Silent_p.T250T	NM_004169	NP_004160	P34896	GLYC_HUMAN	serine hydroxymethyltransferase 1 (soluble)	388					carnitine biosynthetic process|folic acid metabolic process|L-serine catabolic process|one-carbon metabolic process|purine base biosynthetic process	cytosol|nucleus	glycine hydroxymethyltransferase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)	1					Glycine(DB00145)|Mimosine(DB01055)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CACCTGGACAGGTGTTCTTGT	0.493													5	74					0	0	1	0	0		A	18233876	A	A	18233876	2	1	27	1	0	0	0	0	0	0	0	1	14310	987	35	4		4	SHMT1	17	18233876	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27942	18233876	62961334	6813	29164											
ZNF286B	729288	broad.mit.edu	37	chr17	18566378	18566378	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagttagagtcatagacActattccgtgtcagtctgtc	10	13	8	10	1	3	2	2	0	1	2	6	2	5	2	2	0	0	1	2	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:18566378A>G	uc010vyd.1	-	5	692	c.441T>C	c.(439-441)AGT>AGC	p.S147S		NM_001145045	NP_001138517	P0CG31	Z286B_HUMAN	zinc finger protein 286B	147					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGTCATAGACACTATTCCGTG	0.408													7	48					0	0	1	0	0		G	18566378	G	G	18566378	2	3	27	1	0	0	0	0	0	0	0	1	17849	156	6	3		3	ZNF286B	17	18566378	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	332502	18566378	62628832	6814	29165											
TRIM16L	147166	broad.mit.edu	37	chr17	18638407	18638407	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggcaggcacctatgttggCctgacctgcaaaggcatcga	9	7	14	11	1	0	1	0	1	0	0	1	2	0	1	3	5	1	5	3	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:18638407C>T	uc002gug.1	+	10	1368	c.681C>T	c.(679-681)GGC>GGT	p.G227G	TRIM16L_uc010vyf.1_Silent_p.G281G|TRIM16L_uc002guh.1_Silent_p.G227G|TRIM16L_uc010cqg.1_Silent_p.G329G|TRIM16L_uc002gui.1_Silent_p.G227G|TRIM16L_uc010vyg.1_Silent_p.G227G|TRIM16L_uc010vyh.1_Missense_Mutation_p.A140V	NM_001037330	NP_001032407	Q309B1	TR16L_HUMAN	tripartite motif-containing 16-like	227	B30.2/SPRY.					cytoplasm					0						CCTATGTTGGCCTGACCTGCA	0.567													8	72					0	0	1	0	0		T	18638407	T	T	18638407	2	4	27	1	0	0	0	0	0	0	0	1	16518	726	26	2		2	TRIM16L	17	18638407	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	72029	18638407	62556803	6815	29166											
FAM83G	644815	broad.mit.edu	37	chr17	18874741	18874742	+	Missense_Mutation	DNP	GC	AT	AT																															gatgaggcccactggctaccGcccgtcctggcctttaggtg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:18874741_18874742GC>AT	uc002guw.2	-	6	2569_2570	c.2402_2403GC>AT	c.(2401-2403)GGC>GAT	p.G801D	SLC5A10_uc002gur.1_Intron|SLC5A10_uc002guu.1_Intron|SLC5A10_uc002gut.1_Intron|SLC5A10_uc002guv.1_Intron|SLC5A10_uc010vyl.1_Intron	NM_001039999	NP_001035088	A6ND36	FA83G_HUMAN	hypothetical protein LOC644815	801										ovary(1)|central_nervous_system(1)	2						ACTGGCTACCGCCCGTCCTGGC	0.624													15	125					0	0	1	0	0		AT	18874742	AT	AT	18874741	3	1	27	1	0	0	0	0	1	0	0	0	5653	1074	38	1	72	1	FAM83G	17	18874741	Missense_Mutation	DNP	GC	TCGA-BR-6452-01A-12D-1800-08	236334	18874741	62320469	6816	29167											
FAM83G	644815	broad.mit.edu	37	chr17	18881506	18881506	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtccccctgggggaggccGttctcagctgggacaccgtc	4	7	16	14	2	1	0	1	0	1	0	4	2	2	2	4	5	1	2	4	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:18881506G>A	uc002guw.2	-	5	1640	c.1473C>T	c.(1471-1473)AAC>AAT	p.N491N	SLC5A10_uc002gur.1_Intron|SLC5A10_uc002guu.1_Intron|SLC5A10_uc002gut.1_Intron|SLC5A10_uc002guv.1_Intron|SLC5A10_uc010vyl.1_Intron	NM_001039999	NP_001035088	A6ND36	FA83G_HUMAN	hypothetical protein LOC644815	491	Pro-rich.									ovary(1)|central_nervous_system(1)	2						GGGGGAGGCCGTTCTCAGCTG	0.677													6	34					0	0	1	0	0		A	18881506	A	A	18881506	2	1	27	1	0	0	0	0	0	0	0	1	5653	1136	40	1		1	FAM83G	17	18881506	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6765	18881506	62313704	6817	29168											
EPN2	22905	broad.mit.edu	37	chr17	19237382	19237382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaccagcacatcctttgggCctggcccaggagtggagtcc	7	7	14	13	0	0	0	0	0	0	0	2	3	2	3	5	5	1	1	5	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:19237382C>T	uc002gvd.3	+	11	2189	c.1741C>T	c.(1741-1743)CCT>TCT	p.P581S	EPN2_uc002gve.3_Missense_Mutation_p.P524S|EPN2_uc002gvf.3_Missense_Mutation_p.P296S|EPN2_uc010vyo.1_Missense_Mutation_p.P289S|EPN2_uc010vyp.1_Missense_Mutation_p.P517S|EPN2_uc010vyq.1_Missense_Mutation_p.P518S|EPN2_uc002gvh.1_Intron|EPN2_uc002gvj.3_Intron	NM_014964	NP_055779	O95208	EPN2_HUMAN	epsin 2 isoform b	581	6 X 3 AA repeats of [DE]-P-W.|3 X 3 AA repeats of N-P-F.				endocytosis		lipid binding			skin(1)	1	all_cancers(12;3.11e-05)|all_epithelial(12;0.00121)|Hepatocellular(7;0.00345)|Breast(13;0.143)					ATCCTTTGGGCCTGGCCCAGG	0.667													3	13					0	0	1	0	0		T	19237382	T	T	19237382	3	4	27	1	0	0	0	0	1	0	0	0	5194	739	26	2	1775	2	EPN2	17	19237382	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	355876	19237382	61957828	6818	29169											
MAPK7	5598	broad.mit.edu	37	chr17	19284296	19284296	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttggtgagatgctggcccgGcgccagctcttcccaggcaa	6	9	13	13	2	1	1	0	1	1	1	2	2	2	1	3	4	2	3	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:19284296G>A	uc002gvn.2	+	4	1160	c.774G>A	c.(772-774)CGG>CGA	p.R258R	B9D1_uc010cqm.1_5'Flank|B9D1_uc002gvl.3_5'Flank|MAPK7_uc002gvo.2_Silent_p.R119R|MAPK7_uc002gvq.2_Silent_p.R258R|MAPK7_uc002gvp.2_Silent_p.R258R	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	258	Necessary for oligomerization (By similarity).|Protein kinase.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					TGCTGGCCCGGCGCCAGCTCT	0.572													4	30					0	0	1	0	0		A	19284296	A	A	19284296	2	1	27	1	0	0	0	0	0	0	0	1	9300	1190	42	2		2	MAPK7	17	19284296	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46914	19284296	61910914	6819	29170											
RNF112	7732	broad.mit.edu	37	chr17	19319055	19319055	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catattctctgcgctgcgggTcctgccagacaccatgcgga	7	9	11	14	3	1	1	0	0	1	1	3	2	2	2	3	2	4	1	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:19319055T>A	uc010vyw.1	+	14	1662	c.1463T>A	c.(1462-1464)GTC>GAC	p.V488D	RNF112_uc010vyv.1_Missense_Mutation_p.V489D	NM_007148	NP_009079	Q7Z5V9	Q7Z5V9_HUMAN	ring finger protein 112	488							GTP binding|GTPase activity|zinc ion binding			ovary(2)	2						GCGCTGCGGGTCCTGCCAGAC	0.592													7	37					0	0	1	0	0		A	19319055	A	A	19319055	3	1	27	1	0	0	0	0	1	0	0	0	13451	1667	58	5	1227	5	RNF112	17	19319055	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	34759	19319055	61876155	6820	29171											
SLC47A1	55244	broad.mit.edu	37	chr17	19470491	19470491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cattgggtactatgtggttgGcctccccatcgggatcgcgc	5	11	13	12	3	0	0	0	0	0	0	3	1	1	1	3	4	1	2	3	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:19470491G>A	uc002gvy.1	+	14	1345	c.1259G>A	c.(1258-1260)GGC>GAC	p.G420D	SLC47A1_uc002gvx.2_Missense_Mutation_p.G420D|SLC47A1_uc010vyz.1_Missense_Mutation_p.G397D|SLC47A1_uc010cqp.1_Intron|SLC47A1_uc010cqq.1_Missense_Mutation_p.G225D|SLC47A1_uc010vza.1_Missense_Mutation_p.G132D|SLC47A1_uc010vzb.1_Missense_Mutation_p.G154D|SLC47A1_uc010vzc.1_Missense_Mutation_p.G92D	NM_018242	NP_060712	Q96FL8	S47A1_HUMAN	solute carrier family 47, member 1	420	Helical; (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.49e-05)|all_epithelial(12;0.00263)|Hepatocellular(7;0.00345)					TATGTGGTTGGCCTCCCCATC	0.547													17	192					0	0	1	0	0		A	19470491	A	A	19470491	3	1	27	1	0	0	0	0	1	0	0	0	14672	1203	42	2	1313	2	SLC47A1	17	19470491	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	151436	19470491	61724719	6821	29172											
ULK2	9706	broad.mit.edu	37	chr17	19679710	19679710	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgacagtcttctctcaatActacatttatctagaaataa	14	13	4	10	1	4	1	1	0	3	1	5	2	4	1	1	0	2	0	1	0	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:19679710A>G	uc002gwm.3	-	27	3572	c.3063T>C	c.(3061-3063)AGT>AGC	p.S1021S	ULK2_uc002gwn.2_Silent_p.S1021S	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	1021					signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					TTCTCTCAATACTACATTTAT	0.428													5	26					0	0	1	0	0		G	19679710	G	G	19679710	2	3	27	1	0	0	0	0	0	0	0	1	17002	388	14	3		3	ULK2	17	19679710	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	209219	19679710	61515500	6822	29173											
ULK2	9706	broad.mit.edu	37	chr17	19685218	19685218	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacccccagtctttgctcaGctgactgatctggtccacca	7	10	7	17	0	3	2	1	2	2	0	4	2	4	2	5	1	2	2	5	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:19685218G>A	uc002gwm.3	-	23	3132	c.2623C>T	c.(2623-2625)CTG>TTG	p.L875L	ULK2_uc002gwn.2_Silent_p.L875L	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	875					signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					TCTTTGCTCAGCTGACTGATC	0.512													4	63					0	0	1	0	0		A	19685218	A	A	19685218	2	1	27	1	0	0	0	0	0	0	0	1	17002	962	34	2		2	ULK2	17	19685218	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5508	19685218	61509992	6823	29174											
ULK2	9706	broad.mit.edu	37	chr17	19705207	19705207	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggaggaagcccatggggcTggtgttggaccttcgtacca	7	8	15	11	2	0	0	0	0	0	0	1	3	0	3	4	6	2	3	4	6	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:19705207T>C	uc002gwm.3	-	16	1833	c.1324A>G	c.(1324-1326)AGC>GGC	p.S442G	ULK2_uc002gwn.2_Missense_Mutation_p.S442G	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	442					signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					CCCATGGGGCTGGTGTTGGAC	0.483													12	178					0	0	1	0	0		C	19705207	C	C	19705207	3	2	27	1	0	0	0	0	1	0	0	0	17002	1580	55	3	1834	3	ULK2	17	19705207	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	19989	19705207	61490003	6824	29175											
AKAP10	11216	broad.mit.edu	37	chr17	19827780	19827780	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cttgccgcatccacaattatCgcttcatcaaaatttttcag	11	14	4	12	2	3	0	3	0	0	0	5	0	4	0	2	0	1	2	2	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:19827780C>G	uc002gwo.2	-	11	1829	c.1692G>C	c.(1690-1692)GCG>GCC	p.A564A	AKAP10_uc002gwp.1_Silent_p.A564A|AKAP10_uc010cqw.1_Silent_p.A506A	NM_007202	NP_009133	O43572	AKA10_HUMAN	A-kinase anchor protein 10 precursor	564					blood coagulation|protein localization	cytosol|mitochondrion|plasma membrane	signal transducer activity			skin(1)	1	all_cancers(12;2.08e-05)|all_epithelial(12;0.00158)|Breast(13;0.165)					CCACAATTATCGCTTCATCAA	0.348													5	32					0	0	1	0	0		G	19827780	G	G	19827780	2	3	27	1	0	0	0	0	0	0	0	1	446	871	31	5		5	AKAP10	17	19827780	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	122573	19827780	61367430	6825	29176											
CYTSB	92521	broad.mit.edu	37	chr17	20135555	20135555	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttccaggcggatctgcagAccgcagtggtggtggccaat	7	8	16	10	2	1	1	0	0	1	1	2	2	2	2	3	6	1	3	3	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:20135555A>T	uc002gwq.2	+	7	2333	c.2188A>T	c.(2188-2190)ACC>TCC	p.T730S	CYTSB_uc010cqx.2_Missense_Mutation_p.T730S|CYTSB_uc002gwr.2_Missense_Mutation_p.T730S|CYTSB_uc002gws.2_Missense_Mutation_p.T730S|CYTSB_uc002gwv.2_Missense_Mutation_p.T649S|CYTSB_uc010vzf.1_Missense_Mutation_p.T70S|CYTSB_uc002gww.2_Missense_Mutation_p.T506S|CYTSB_uc002gwt.2_Missense_Mutation_p.T649S|CYTSB_uc002gwu.2_Missense_Mutation_p.T649S	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	730	Potential.					nucleus					0						GGATCTGCAGACCGCAGTGGT	0.602													8	126					0	0	1	0	0		T	20135555	T	T	20135555	3	4	27	1	0	0	0	0	1	0	0	0	4213	275	10	5	2254	5	CYTSB	17	20135555	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	307775	20135555	61059655	6826	29177											
CCDC144NL	339184	broad.mit.edu	37	chr17	20799218	20799218	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accactggtcccccgggtagTccaagtaccactggtcctcc	7	8	9	17	1	0	0	0	0	0	0	4	0	4	0	7	3	1	2	7	3	3	2	rs139153464	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:20799218T>C	uc002gyf.2	-	1	236	c.116A>G	c.(115-117)GAC>GGC	p.D39G	uc002gyg.1_Intron|uc002gyh.1_Intron	NM_001004306	NP_001004306	Q6NUI1	C144L_HUMAN	coiled-coil domain containing 144 family,	39											0						CCCCGGGTAGTCCAAGTACCA	0.642													8	63					0	0	1	0	0		C	20799218	C	C	20799218	3	2	27	1	0	0	0	0	1	0	0	0	2782	1667	58	3	565	3	CCDC144NL	17	20799218	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	663663	20799218	60395992	6827	29178											
MAP2K3	5606	broad.mit.edu	37	chr17	21204191	21204191	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agtccttccctgcagcggatCcgggccaccgtgaactcaca	8	7	10	16	3	1	1	1	1	0	0	4	2	4	2	5	2	3	1	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:21204191C>T	uc002gys.2	+	5	550	c.285C>T	c.(283-285)ATC>ATT	p.I95I	MAP2K3_uc002gyt.2_Silent_p.I66I|MAP2K3_uc002gyu.2_Silent_p.I66I	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	95	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		TGCAGCGGATCCGGGCCACCG	0.617													4	51					0	0	1	0	0		T	21204191	T	T	21204191	2	4	27	1	0	0	0	0	0	0	0	1	9256	845	30	4		4	MAP2K3	17	21204191	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	404973	21204191	59991019	6828	29179											
NLK	51701	broad.mit.edu	37	chr17	26449711	26449711	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatctggtctcttgcaaaAgggtcttccgggaattgaag	11	11	12	7	1	3	2	0	1	3	1	5	3	4	3	1	3	1	1	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:26449711A>G	uc010crj.2	+	2	753	c.541A>G	c.(541-543)AGG>GGG	p.R181G	NLK_uc010cri.1_RNA	NM_016231	NP_057315	Q9UBE8	NLK_HUMAN	nemo like kinase	181	Protein kinase.				intracellular protein kinase cascade|negative regulation of Wnt receptor signaling pathway|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|serine phosphorylation of STAT3 protein|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|MAP kinase activity|SH2 domain binding|transcription factor binding|ubiquitin protein ligase binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_lung(13;0.000343)|Lung NSC(42;0.00184)			UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		CTCTTGCAAAAGGGTCTTCCG	0.398													11	104					0	0	1	0	0		G	26449711	G	G	26449711	3	3	27	1	0	0	0	0	1	0	0	0	10485	63	3	3	547	3	NLK	17	26449711	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5245520	26449711	54745499	6829	29180											
NLK	51701	broad.mit.edu	37	chr17	26449740	26449740	+	Frame_Shift_Del	DEL	T	-	-																															cgggaattgaagatgttgtgTttttttaagcatgataatgt																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:26449740delT	uc010crj.2	+	2	782	c.570delT	c.(568-570)TGTfs	p.C190fs	NLK_uc010cri.1_RNA	NM_016231	NP_057315	Q9UBE8	NLK_HUMAN	nemo like kinase	190	Protein kinase.				intracellular protein kinase cascade|negative regulation of Wnt receptor signaling pathway|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|serine phosphorylation of STAT3 protein|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|MAP kinase activity|SH2 domain binding|transcription factor binding|ubiquitin protein ligase binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_lung(13;0.000343)|Lung NSC(42;0.00184)			UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		AGATGTTGTGTTTTTTTAAGC	0.388													44	97	---	---	---	---						.	-	26449740	-	-	26449740	7	5	27	1	0	1	0	1	0	0	0	0	10485	1731	60	0	576	0	NLK	17	26449740	Frame_Shift_Del	DEL	T	TCGA-BR-6452-01A-12D-1800-08	29	26449740	54745470	6830	29181											
KIAA0100	9703	broad.mit.edu	37	chr17	26966990	26966990	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttcgaaggggcagctgaTcctcatcacggtggtacagg	9	8	14	10	2	2	1	2	1	0	0	4	2	3	1	1	5	3	4	1	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:26966990T>C	uc002hbu.2	-	9	1043	c.944A>G	c.(943-945)GAT>GGT	p.D315G	KIAA0100_uc002hbv.2_Missense_Mutation_p.D315G|KIAA0100_uc010crr.1_Missense_Mutation_p.D172G	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	315						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					GGGCAGCTGATCCTCATCACG	0.542													9	100					0	0	1	0	0		C	26966990	C	C	26966990	3	2	27	1	0	0	0	0	1	0	0	0	8170	1435	50	3	5887	3	KIAA0100	17	26966990	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	517250	26966990	54228220	6831	29182											
KIAA0100	9703	broad.mit.edu	37	chr17	26970214	26970214	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcaataaggatgggctgaAggacagttccttttgatcca	11	12	10	8	0	1	2	1	2	0	0	3	4	3	4	2	3	0	2	2	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:26970214A>C	uc002hbu.2	-	4	463	c.364T>G	c.(364-366)TTC>GTC	p.F122V	KIAA0100_uc002hbv.2_Missense_Mutation_p.F122V|KIAA0100_uc010crr.1_5'UTR	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	122						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					GATGGGCTGAAGGACAGTTCC	0.493													15	82					0	0	1	0	0		C	26970214	C	C	26970214	3	2	27	1	0	0	0	0	1	0	0	0	8170	72	3	5	6487	5	KIAA0100	17	26970214	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3224	26970214	54224996	6832	29183											
SUPT6H	6830	broad.mit.edu	37	chr17	27014479	27014479	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacctcggaaagggacccAcctcctgaaggtaggattgg	10	6	15	10	1	0	1	0	1	0	0	2	5	1	5	4	6	0	1	4	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27014479A>G	uc002hby.2	+	23	3086	c.2996A>G	c.(2995-2997)CAC>CGC	p.H999R	SUPT6H_uc010crt.2_Missense_Mutation_p.H999R|SUPT6H_uc002hbz.1_5'Flank	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	999					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					AAAGGGACCCACCTCCTGAAG	0.398													3	40					0	0	1	0	0		G	27014479	G	G	27014479	3	3	27	1	0	0	0	0	1	0	0	0	15425	159	6	3	3082	3	SUPT6H	17	27014479	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	44265	27014479	54180731	6833	29184											
NEK8	284086	broad.mit.edu	37	chr17	27061177	27061177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaacttcctggaagacaaagCccttatgatcgccatggaat	13	9	9	10	1	0	2	0	1	0	1	2	5	1	4	3	2	2	0	3	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27061177C>T	uc002hcp.2	+	2	224	c.224C>T	c.(223-225)GCC>GTC	p.A75V		NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	75	Protein kinase.					cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					GAAGACAAAGCCCTTATGATC	0.562													7	98					0	0	1	0	0		T	27061177	T	T	27061177	3	4	27	1	0	0	0	0	1	0	0	0	10349	739	26	2	230	2	NEK8	17	27061177	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	46698	27061177	54134033	6834	29185											
TRAF4	9618	broad.mit.edu	37	chr17	27076177	27076177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccaagcccaaccttgagtGcttcagcccagccttctaca	9	8	8	16	0	2	1	1	1	1	0	2	1	2	1	5	1	6	1	5	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27076177G>A	uc002hcs.2	+	7	1103	c.995G>A	c.(994-996)TGC>TAC	p.C332Y	TRAF4_uc002hcq.1_Intron	NM_004295	NP_004286	Q9BUZ4	TRAF4_HUMAN	TNF receptor-associated factor 4	332	MATH.				apoptosis|positive regulation of JNK cascade|positive regulation of protein homodimerization activity|positive regulation of protein kinase activity|regulation of apoptosis|signal transduction	cytoskeleton|nucleus|perinuclear region of cytoplasm|tight junction	DNA binding|ubiquitin-protein ligase activity|WW domain binding|zinc ion binding			upper_aerodigestive_tract(1)|lung(1)	2	Lung NSC(42;0.01)		Epithelial(11;3.26e-05)|all cancers(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.235)			AACCTTGAGTGCTTCAGCCCA	0.557													13	57					0	0	1	0	0		A	27076177	A	A	27076177	3	1	27	1	0	0	0	0	1	0	0	0	16469	1319	46	2	1021	2	TRAF4	17	27076177	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15000	27076177	54119033	6835	29186											
TIAF1	9220	broad.mit.edu	37	chr17	27400906	27400906	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctctcaagttgagtttatgGtccagaccacctggacagag	10	10	10	11	0	1	3	1	1	1	2	3	4	2	4	4	2	0	2	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27400906G>A	uc002hdv.1	-	1	1722	c.312C>T	c.(310-312)GAC>GAT	p.D104D	MYO18A_uc010wbc.1_3'UTR|MYO18A_uc002hds.2_3'UTR|MYO18A_uc010csa.1_3'UTR|MYO18A_uc002hdt.1_3'UTR|MYO18A_uc002hdu.1_3'UTR	NM_004740	NP_004731	O95411	TIAF1_HUMAN	TGFB1-induced anti-apoptotic factor 1	104					anti-apoptosis|apoptosis|I-kappaB kinase/NF-kappaB cascade	nucleus					0	Lung NSC(42;0.015)		Epithelial(11;1.19e-05)|all cancers(11;6.57e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000153)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			TGAGTTTATGGTCCAGACCAC	0.483													12	159					0	0	1	0	0		A	27400906	A	A	27400906	2	1	27	1	0	0	0	0	0	0	0	1	15913	1252	44	4		4	TIAF1	17	27400906	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	324729	27400906	53794304	6836	29187											
MYO18A	399687	broad.mit.edu	37	chr17	27437573	27437573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcgagccgccctccaggcCcgcgatggagccagagagca	8	3	14	16	4	0	1	0	0	0	1	1	5	1	2	5	2	4	1	5	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27437573C>T	uc002hdt.1	-	18	3126	c.2968G>A	c.(2968-2970)GGC>AGC	p.G990S	MYO18A_uc010wbc.1_Missense_Mutation_p.G532S|MYO18A_uc002hds.2_Missense_Mutation_p.G532S|MYO18A_uc010csa.1_Missense_Mutation_p.G990S|MYO18A_uc002hdu.1_Missense_Mutation_p.G990S|MYO18A_uc010wbd.1_Missense_Mutation_p.G659S	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	990	Myosin head-like.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CCCTCCAGGCCCGCGATGGAG	0.607													3	27					0	0	1	0	0		T	27437573	T	T	27437573	3	4	27	1	0	0	0	0	1	0	0	0	10083	623	22	4	3296	4	MYO18A	17	27437573	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	36667	27437573	53757637	6837	29188											
MYO18A	399687	broad.mit.edu	37	chr17	27442812	27442812	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggctgcagcccagtaggtaCgcagccttctgggcccactc	7	7	12	15	1	1	0	0	0	1	0	2	0	1	0	3	3	4	5	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27442812C>A	uc002hdt.1	-	12	2255	c.2097G>T	c.(2095-2097)GCG>GCT	p.A699A	MYO18A_uc010wbc.1_Silent_p.A241A|MYO18A_uc002hds.2_Silent_p.A241A|MYO18A_uc010csa.1_Silent_p.A699A|MYO18A_uc002hdu.1_Silent_p.A699A|MYO18A_uc010wbd.1_Silent_p.A368A	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	699	Myosin head-like.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CCAGTAGGTACGCAGCCTTCT	0.622													3	4					2.56e-06	2.77152e-06	1	1	0		A	27442812	A	A	27442812	2	1	27	1	0	0	0	0	0	0	0	1	10083	523	19	5		5	MYO18A	17	27442812	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5239	27442812	53752398	6838	29189											
TAOK1	57551	broad.mit.edu	37	chr17	27794194	27794194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgtaccaatgaagtggtggCcatcaagaaaatgtcttata	14	10	10	7	1	2	2	1	1	1	1	2	2	2	2	2	2	1	1	2	2	8	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27794194C>T	uc002hdz.1	+	3	358	c.164C>T	c.(163-165)GCC>GTC	p.A55V	TAOK1_uc010wbe.1_Missense_Mutation_p.A55V|TAOK1_uc010wbf.1_Missense_Mutation_p.A55V	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	55	Protein kinase.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			GAAGTGGTGGCCATCAAGAAA	0.333													6	54					0	0	1	0	0		T	27794194	T	T	27794194	3	4	27	1	0	0	0	0	1	0	0	0	15572	739	26	2	170	2	TAOK1	17	27794194	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	351382	27794194	53401016	6839	29190											
TAOK1	57551	broad.mit.edu	37	chr17	27818822	27818822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctgattattttcgcaactTtgtagattcttgcctccaga	8	17	7	9	1	2	3	0	1	2	2	4	3	3	3	2	0	2	2	2	0	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27818822T>C	uc002hdz.1	+	10	964	c.770T>C	c.(769-771)TTT>TCT	p.F257S	TAOK1_uc010wbe.1_Missense_Mutation_p.F257S|TAOK1_uc010wbf.1_Missense_Mutation_p.F257S|TAOK1_uc002heb.1_Missense_Mutation_p.F83S	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	257	Protein kinase.			F -> S (in Ref. 1; AAG38502).	mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			TTTCGCAACTTTGTAGATTCT	0.308													8	120					0	0	1	0	0		C	27818822	C	C	27818822	3	2	27	1	0	0	0	0	1	0	0	0	15572	1841	64	3	804	3	TAOK1	17	27818822	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	24628	27818822	53376388	6840	29191											
TAOK1	57551	broad.mit.edu	37	chr17	27818871	27818871	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagatcgacctacatcagaGgaacttttaaaggtcagttc	14	10	8	9	1	2	2	2	0	0	2	4	4	2	3	1	2	2	1	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27818871G>T	uc002hdz.1	+	10	1013	c.819G>T	c.(817-819)GAG>GAT	p.E273D	TAOK1_uc010wbe.1_Missense_Mutation_p.E273D|TAOK1_uc010wbf.1_Missense_Mutation_p.E273D|TAOK1_uc002heb.1_Missense_Mutation_p.E99D	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	273	Protein kinase.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			CTACATCAGAGGAACTTTTAA	0.234													11	128					4.68919e-08	5.14072e-08	1	1	0		T	27818871	T	T	27818871	3	4	27	1	0	0	0	0	1	0	0	0	15572	991	35	5	853	5	TAOK1	17	27818871	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	49	27818871	53376339	6841	29192											
GIT1	28964	broad.mit.edu	37	chr17	27901720	27901720	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggtgtggggagagaggTcactgcttcttctctcgggt	5	12	17	7	1	3	2	1	1	2	1	5	4	3	3	0	5	1	1	0	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27901720T>C	uc002hef.2	-	20	2500	c.2286A>G	c.(2284-2286)TGA>TGG	p.*762W	GIT1_uc002heg.2_Nonstop_Mutation_p.*771W|GIT1_uc010wbg.1_Nonstop_Mutation_p.*748W|GIT1_uc010csb.1_3'UTR	NM_014030	NP_054749	Q9Y2X7	GIT1_HUMAN	G protein-coupled receptor kinase interactor 1	762					regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|focal adhesion	ARF GTPase activator activity|protein binding|zinc ion binding				0				READ - Rectum adenocarcinoma(3;0.0419)|Colorectal(3;0.069)		GGGAGAGAGGTCACTGCTTCT	0.597													4	87					0	0	1	0	0		C	27901720	C	C	27901720	4	2	27	1	0	0	0	0	0	0	0	0	6411	1680	58	3	3	3	GIT1	17	27901720	Nonstop_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	82849	27901720	53293490	6842	29193											
ANKRD13B	124930	broad.mit.edu	37	chr17	27939735	27939735	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgcgcggctacagcatgatgGgcggccagcgggaggcggcg	6	3	20	12	7	0	1	0	1	0	0	0	2	0	2	1	6	3	2	1	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27939735G>A	uc002hei.2	+	13	1590	c.1477G>A	c.(1477-1479)GGC>AGC	p.G493S	ANKRD13B_uc002heh.2_Missense_Mutation_p.G361S|ANKRD13B_uc002hej.2_RNA|ANKRD13B_uc002hek.2_Missense_Mutation_p.G3S	NM_152345	NP_689558	Q86YJ7	AN13B_HUMAN	ankyrin repeat domain 13B	493											0						CAGCATGATGGGCGGCCAGCG	0.716													3	25					0	0	1	0	0		A	27939735	A	A	27939735	3	1	27	1	0	0	0	0	1	0	0	0	642	1232	43	4	1527	4	ANKRD13B	17	27939735	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	38015	27939735	53255475	6843	29194											
CORO6	84940	broad.mit.edu	37	chr17	27948258	27948258	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccttggccagaggcaggAcgatgaaggcacccccgcct	9	5	12	15	2	1	2	1	1	0	1	1	4	1	3	5	4	0	2	5	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27948258A>T	uc002hel.2	-	1	184	c.182T>A	c.(181-183)GTC>GAC	p.V61D		NM_032854	NP_116243	Q6QEF8	CORO6_HUMAN	coronin 6	61					actin cytoskeleton organization	actin cytoskeleton	actin filament binding				0						CAGAGGCAGGACGATGAAGGC	0.582													6	56					0	0	1	0	0		T	27948258	T	T	27948258	3	4	27	1	0	0	0	0	1	0	0	0	3761	275	10	5	1276	5	CORO6	17	27948258	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8523	27948258	53246952	6844	29195											
SSH2	85464	broad.mit.edu	37	chr17	27959499	27959499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgatgctcttgctcctgccGtaagcgctcttcgaactcca	7	12	8	14	3	2	1	0	1	2	0	5	2	4	1	3	0	5	4	3	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27959499G>A	uc002heo.1	-	15	2632	c.2632C>T	c.(2632-2634)CGG>TGG	p.R878W	SSH2_uc010wbh.1_Missense_Mutation_p.R905W	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	878					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TGCTCCTGCCGTAAGCGCTCT	0.547													42	134					0	0	1	0	0		A	27959499	A	A	27959499	3	1	27	1	0	0	0	0	1	0	0	0	15210	1144	40	1	1643	1	SSH2	17	27959499	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11241	27959499	53235711	6845	29196											
SSH2	85464	broad.mit.edu	37	chr17	27977756	27977756	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catatacccgaatgttatgaTactcaaagactcctgggaag	14	10	8	9	1	1	2	1	1	0	1	2	4	2	3	2	1	2	1	2	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27977756T>C	uc002heo.1	-	12	1061	c.1061A>G	c.(1060-1062)TAT>TGT	p.Y354C	SSH2_uc010wbh.1_Missense_Mutation_p.Y381C|SSH2_uc002hep.1_Missense_Mutation_p.Y354C	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	354	Tyrosine-protein phosphatase.				actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						AATGTTATGATACTCAAAGAC	0.418													6	121					0	0	1	0	0		C	27977756	C	C	27977756	3	2	27	1	0	0	0	0	1	0	0	0	15210	1406	49	3	3226	3	SSH2	17	27977756	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18257	27977756	53217454	6846	29197											
SSH2	85464	broad.mit.edu	37	chr17	27999065	27999065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atggctctcataataactcaCccaagtgagaaataggctgc	14	9	8	10	0	2	1	2	1	1	1	3	2	2	1	1	2	2	2	1	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:27999065C>T	uc002heo.1	-	8	616	c.616G>A	c.(616-618)GTG>ATG	p.V206M	SSH2_uc010wbh.1_Missense_Mutation_p.V233M|SSH2_uc002hep.1_Missense_Mutation_p.V206M	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	206					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TAATAACTCACCCAAGTGAGA	0.488													7	112					0	0	1	0	0		T	27999065	T	T	27999065	3	4	27	1	0	0	0	0	1	0	0	0	15210	507	18	4	3687	4	SSH2	17	27999065	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21309	27999065	53196145	6847	29198											
EFCAB5	374786	broad.mit.edu	37	chr17	28320295	28320295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggctctgcaggagcaattcGatgaatggattctagaccct	11	10	11	9	1	2	2	0	1	2	1	3	5	2	4	1	3	2	3	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:28320295G>A	uc002het.2	+	5	1072	c.880G>A	c.(880-882)GAT>AAT	p.D294N	EFCAB5_uc010wbi.1_Missense_Mutation_p.D35N|EFCAB5_uc010wbj.1_Missense_Mutation_p.D238N|EFCAB5_uc010wbk.1_Intron|EFCAB5_uc010csd.2_RNA|EFCAB5_uc010cse.2_Missense_Mutation_p.D173N|EFCAB5_uc010csf.2_Missense_Mutation_p.D173N	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	294							calcium ion binding			ovary(1)|skin(1)	2						GGAGCAATTCGATGAATGGAT	0.413													3	49					0	0	1	0	0		A	28320295	A	A	28320295	3	1	27	1	0	0	0	0	1	0	0	0	4944	1058	37	1	898	1	EFCAB5	17	28320295	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	321230	28320295	52874915	6848	29199											
SLC6A4	6532	broad.mit.edu	37	chr17	28538348	28538348	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgtgctgtccaagcccagCgtgattaacatcagaaagaa	14	7	9	11	2	1	3	1	1	0	2	2	3	2	3	3	0	4	1	3	0	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:28538348C>T	uc002hey.3	-	10	1843	c.1299G>A	c.(1297-1299)ACG>ACA	p.T433T	SLC6A4_uc010csg.2_RNA	NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	433	Helical; Name=8; (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	CCAAGCCCAGCGTGATTAACA	0.527													21	60					0	0	1	0	0		T	28538348	T	T	28538348	2	4	27	1	0	0	0	0	0	0	0	1	14711	755	27	1		1	SLC6A4	17	28538348	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	218053	28538348	52656862	6849	29200											
CPD	1362	broad.mit.edu	37	chr17	28712243	28712243	+	Missense_Mutation	SNP	A	G	G																															cacaaacggcgcacattggtAtgatgtggaaggtatgcaaa																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:28712243A>G	uc002hfb.1	+	2	998	c.983A>G	c.(982-984)TAT>TGT	p.Y328C	CPD_uc010wbo.1_Missense_Mutation_p.Y81C|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	328	Extracellular (Potential).|Carboxypeptidase-like 1.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						GCACATTGGTATGATGTGGAA	0.403													14	155					0	0	1	0	0		G	28712243	G	G	28712243	3	3	27	1	0	0	0	0	1	0	0	0	3801	449	16	3	989	3	CPD	17	28712243	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	173895	28712243	52482967	6850	29201	58	2									
CPD	1362	broad.mit.edu	37	chr17	28712247	28712247	+	Silent	SNP	T	C	C																															aacggcgcacattggtatgaTgtggaaggtatgcaaagcat																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:28712247T>C	uc002hfb.1	+	2	1002	c.987T>C	c.(985-987)GAT>GAC	p.D329D	CPD_uc010wbo.1_Silent_p.D82D|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	329	Extracellular (Potential).|Carboxypeptidase-like 1.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						ATTGGTATGATGTGGAAGGTA	0.403													15	155					0	0	1	0	0		C	28712247	C	C	28712247	2	2	27	1	0	0	0	0	0	0	0	1	3801	1461	51	3		3	CPD	17	28712247	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4	28712247	52482963	6851	29202	58	2									
CPD	1362	broad.mit.edu	37	chr17	28791791	28791791	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccatgagttccaggatgaaAcagacactgaagaggaaaca	17	5	11	8	0	0	5	0	3	0	2	1	7	1	7	2	2	2	1	2	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:28791791A>G	uc002hfb.1	+	21	4117	c.4102A>G	c.(4102-4104)ACA>GCA	p.T1368A	CPD_uc010wbo.1_Missense_Mutation_p.T1121A|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	1368	Cytoplasmic (Potential).				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						CCAGGATGAAACAGACACTGA	0.418													12	146					0	0	1	0	0		G	28791791	G	G	28791791	3	3	27	1	0	0	0	0	1	0	0	0	3801	43	2	3	4184	3	CPD	17	28791791	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	79544	28791791	52403419	6852	29203											
GOSR1	9527	broad.mit.edu	37	chr17	28808272	28808272	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccgagatggaagacgcgAcaggtataggtactaccaga	14	6	12	9	3	0	3	0	0	0	3	0	6	0	4	2	3	3	2	2	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:28808272A>G	uc002hfe.2	+	2	169	c.143A>G	c.(142-144)GAC>GGC	p.D48G	GOSR1_uc002hfd.2_Missense_Mutation_p.D48G|GOSR1_uc002hff.2_5'UTR|GOSR1_uc002hfc.1_Missense_Mutation_p.D48G	NM_004871	NP_004862	O95249	GOSR1_HUMAN	golgi SNAP receptor complex member 1 isoform 1	48	Cytoplasmic (Potential).				intra-Golgi vesicle-mediated transport|protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|SNARE complex	SNAP receptor activity				0						GGAAGACGCGACAGGTATAGG	0.378													6	96					0	0	1	0	0		G	28808272	G	G	28808272	3	3	27	1	0	0	0	0	1	0	0	0	6592	275	10	3	149	3	GOSR1	17	28808272	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	16481	28808272	52386938	6853	29204											
ATAD5	79915	broad.mit.edu	37	chr17	29161368	29161368	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gataaagtcacctgaatcagTacctgttgacagcaacaaag	16	8	8	9	0	2	2	2	2	0	0	2	3	2	2	2	0	3	3	2	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:29161368T>C	uc002hfs.1	+	2	615	c.269T>C	c.(268-270)GTA>GCA	p.V90A	ATAD5_uc002hft.1_5'UTR	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	90					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				CCTGAATCAGTACCTGTTGAC	0.353													6	90					0	0	1	0	0		C	29161368	C	C	29161368	3	2	27	1	0	0	0	0	1	0	0	0	1077	1638	57	3	275	3	ATAD5	17	29161368	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	353096	29161368	52033842	6854	29205											
C17orf42	79736	broad.mit.edu	37	chr17	29231212	29231212	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacttgaactgtacttttatActtaaacaagggcacattca	15	13	5	8	0	1	1	1	1	0	0	1	1	1	1	0	1	5	2	0	1	8	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:29231212A>G	uc002hfu.2	-	2	437	c.367T>C	c.(367-369)TAT>CAT	p.Y123H	C17orf42_uc002hfv.2_RNA|C17orf42_uc002hfw.2_Missense_Mutation_p.Y123H|C17orf42_uc010wbs.1_Missense_Mutation_p.Y123H	NM_024683	NP_078959	Q96QE5	TEFM_HUMAN	hypothetical protein LOC79736	123					oxidative phosphorylation|regulation of transcription, DNA-dependent|transcription from mitochondrial promoter	mitochondrial nucleoid|ribonucleoprotein complex	DNA polymerase processivity factor activity|nucleic acid binding|protein binding			ovary(1)	1		all_cancers(10;4.64e-07)|all_hematologic(16;0.014)|Acute lymphoblastic leukemia(14;0.0236)|Myeloproliferative disorder(56;0.0255)				GTACTTTTATACTTAAACAAG	0.398													3	44					0	0	1	0	0		G	29231212	G	G	29231212	3	3	27	1	0	0	0	0	1	0	0	0	1859	391	14	3	727	3	C17orf42	17	29231212	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	69844	29231212	51963998	6855	29206											
ADAP2	55803	broad.mit.edu	37	chr17	29283258	29283258	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtactctccattttcaGgatgccttcgagcagggcca	7	11	9	14	1	2	0	1	0	1	0	4	2	2	1	4	2	3	2	4	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:29283258G>T	uc002hfx.2	+	10	1162	c.883_splice	c.e10-1	p.D295_splice	ADAP2_uc010csk.2_Splice_Site_p.D301_splice|ADAP2_uc002hfy.2_Splice_Site_p.D294_splice|ADAP2_uc010csl.2_Splice_Site	NM_018404	NP_060874	Q9NPF8	ADAP2_HUMAN	centaurin-alpha 2 protein						heart development|regulation of ARF GTPase activity	mitochondrial envelope|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding, bridging|zinc ion binding	p.?(1)		ovary(1)	1						TCCATTTTCAGGATGCCTTCG	0.562													6	43					0.00116845	0.00121513	1	1	0		T	29283258	T	T	29283258	5	4	27	1	0	0	0	0	0	0	1	0	280	1014	35	5	920	5	ADAP2	17	29283258	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	52046	29283258	51911952	6856	29207											
NF1	4763	broad.mit.edu	37	chr17	29653192	29653192	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaactacctgctgccacCttggctttagaagaggacct	11	9	9	12	0	0	3	0	0	0	3	0	4	0	4	4	2	4	2	4	2	4	4	rs143230984		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:29653192C>A	uc002hgg.2	+	37	5523	c.5190C>A	c.(5188-5190)ACC>ACA	p.T1730T	NF1_uc002hgh.2_Silent_p.T1709T|NF1_uc002hgi.1_Silent_p.T742T|NF1_uc010cso.2_5'UTR	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	1730	CRAL-TRIO.				actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		CTGCTGCCACCTTGGCTTTAG	0.443			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			5	73					0.000602214	0.000630257	1	1	0		A	29653192	A	A	29653192	2	1	27	1	0	0	0	0	0	0	0	1	10375	668	24	5		5	NF1	17	29653192	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	369934	29653192	51542018	6857	29208											
UTP6	55813	broad.mit.edu	37	chr17	30205757	30205757	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccactatttgacttcttagtAaatctttccaagcaaaaggt	13	14	5	9	0	2	1	0	1	2	0	3	1	3	1	2	1	1	2	2	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:30205757A>G	uc002hgr.2	-	12	1094	c.1011T>C	c.(1009-1011)TTT>TTC	p.F337F	UTP6_uc002hgq.2_Silent_p.F153F|UTP6_uc010cst.2_Silent_p.F186F	NM_018428	NP_060898	Q9NYH9	UTP6_HUMAN	hepatocellular carcinoma-associated antigen 66	337					rRNA processing	nucleolus	binding			ovary(1)	1		all_hematologic(16;0.0149)|Ovarian(249;0.021)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|Breast(31;0.231)				ACTTCTTAGTAAATCTTTCCA	0.403													4	101					0	0	1	0	0		G	30205757	G	G	30205757	2	3	27	1	0	0	0	0	0	0	0	1	17128	359	13	3		3	UTP6	17	30205757	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	552565	30205757	50989453	6858	29209											
LRRC37B	114659	broad.mit.edu	37	chr17	30348561	30348561	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccagaagaaaggctcccAgaggtggttccgcttctcaa	11	8	10	12	1	1	3	1	0	1	3	5	3	4	3	3	3	0	3	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:30348561A>G	uc002hgu.2	+	1	407	c.396A>G	c.(394-396)CCA>CCG	p.P132P	LRRC37B_uc010wbx.1_Silent_p.P50P|LRRC37B_uc010csu.2_Silent_p.P132P	NM_052888	NP_443120	Q96QE4	LR37B_HUMAN	leucine rich repeat containing 37B precursor	132	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)				AAAGGCTCCCAGAGGTGGTTC	0.557													17	70					0	0	1	0	0		G	30348561	G	G	30348561	2	3	27	1	0	0	0	0	0	0	0	1	9012	175	7	3		3	LRRC37B	17	30348561	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	142804	30348561	50846649	6859	29210											
LRRC37B	114659	broad.mit.edu	37	chr17	30348993	30348993	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacccttgaagacatccaGtcctcttcactccaggaaga	12	8	8	13	0	2	4	1	1	1	3	5	6	5	5	4	1	0	0	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:30348993G>A	uc002hgu.2	+	1	839	c.828G>A	c.(826-828)CAG>CAA	p.Q276Q	LRRC37B_uc010wbx.1_Silent_p.Q194Q|LRRC37B_uc010csu.2_Silent_p.Q276Q	NM_052888	NP_443120	Q96QE4	LR37B_HUMAN	leucine rich repeat containing 37B precursor	276	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)				AAGACATCCAGTCCTCTTCAC	0.547													24	147					0	0	1	0	0		A	30348993	A	A	30348993	2	1	27	1	0	0	0	0	0	0	0	1	9012	1020	36	4		4	LRRC37B	17	30348993	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	432	30348993	50846217	6860	29211											
LRRC37B	114659	broad.mit.edu	37	chr17	30349701	30349701	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaactgcaccagaggaacaGaaggcctccacaagcaccaa	17	2	9	13	0	0	2	0	0	0	2	1	4	1	3	4	2	4	2	4	2	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:30349701G>C	uc002hgu.2	+	1	1547	c.1536G>C	c.(1534-1536)CAG>CAC	p.Q512H	LRRC37B_uc010wbx.1_Missense_Mutation_p.Q430H|LRRC37B_uc010csu.2_Missense_Mutation_p.Q512H	NM_052888	NP_443120	Q96QE4	LR37B_HUMAN	leucine rich repeat containing 37B precursor	512	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)				CAGAGGAACAGAAGGCCTCCA	0.522													46	127					0	0	1	0	0		C	30349701	C	C	30349701	3	2	27	1	0	0	0	0	1	0	0	0	9012	933	33	5	1538	5	LRRC37B	17	30349701	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	708	30349701	50845509	6861	29212											
C17orf75	64149	broad.mit.edu	37	chr17	30662406	30662406	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctttggattgggcatacaAcatcctcaaaccagctgctc	10	10	7	14	0	1	0	1	0	0	0	3	1	2	1	3	2	5	3	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:30662406A>G	uc002hhg.2	-	6	636	c.605T>C	c.(604-606)GTT>GCT	p.V202A		NM_022344	NP_071739	Q9HAS0	NJMU_HUMAN	hypothetical protein LOC64149	202					spermatogenesis					ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			TGGGCATACAACATCCTCAAA	0.408													25	162					0	0	1	0	0		G	30662406	G	G	30662406	3	3	27	1	0	0	0	0	1	0	0	0	1883	43	2	3	605	3	C17orf75	17	30662406	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	312705	30662406	50532804	6862	29213											
MYO1D	4642	broad.mit.edu	37	chr17	30986316	30986316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttattgtcagagctgccttgGttcttttgtaccgcatgcgg	5	16	11	9	2	2	1	1	0	1	1	2	1	2	1	2	2	4	4	2	2	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:30986316G>A	uc002hho.1	-	17	2174	c.2162C>T	c.(2161-2163)ACC>ATC	p.T721I	MYO1D_uc002hhp.1_Missense_Mutation_p.T721I	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	721	IQ 2.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			AGCTGCCTTGGTTCTTTTGTA	0.522											OREG0024311	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	91					0	0	1	0	0		A	30986316	A	A	30986316	3	1	27	1	0	0	0	0	1	0	0	0	10089	1261	44	4	882	4	MYO1D	17	30986316	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	323910	30986316	50208894	6863	29214											
MYO1D	4642	broad.mit.edu	37	chr17	31039080	31039080	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaaacaatgttcggggtgTtcgaatgaaaattttggtct	11	14	12	4	2	1	1	0	1	1	0	3	2	1	1	0	4	1	3	0	4	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:31039080T>C	uc002hho.1	-	16	2059	c.2047A>G	c.(2047-2049)ACA>GCA	p.T683A	MYO1D_uc002hhp.1_Missense_Mutation_p.T683A	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	683						myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			GTTCGGGGTGTTCGAATGAAA	0.388													6	170					0	0	1	0	0		C	31039080	C	C	31039080	3	2	27	1	0	0	0	0	1	0	0	0	10089	1725	60	3	1001	3	MYO1D	17	31039080	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	52764	31039080	50156130	6864	29215											
CCL8	6355	broad.mit.edu	37	chr17	32646550	32646550	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcagcgcttctgtgcctGctgctcatggcagccacttt	4	13	10	14	1	3	0	1	0	2	0	3	0	3	0	2	1	6	5	2	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:32646550G>A	uc002hib.2	+	1	485	c.30G>A	c.(28-30)CTG>CTA	p.L10L		NM_005623	NP_005614	P80075	CCL8_HUMAN	small inducible cytokine A8 precursor	10					calcium ion transport|cell-cell signaling|chemotaxis|exocytosis|immune response|inflammatory response|response to virus	extracellular space	chemokine activity|heparin binding|signal transducer activity				0		Ovarian(249;0.0443)|Breast(31;0.151)				TTCTGTGCCTGCTGCTCATGG	0.522													8	56					0	0	1	0	0		A	32646550	A	A	32646550	2	1	27	1	0	0	0	0	0	0	0	1	2910	1306	46	2		2	CCL8	17	32646550	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1607470	32646550	48548660	6865	29216											
TMEM132E	124842	broad.mit.edu	37	chr17	32959781	32959781	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagtctcgagggtccatgaAcgccagggtcaccttccgct	8	8	12	13	3	2	2	1	1	1	1	5	3	4	2	4	2	1	1	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:32959781A>G	uc002hif.2	+	7	1599	c.1271A>G	c.(1270-1272)AAC>AGC	p.N424S		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	424	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		GGGTCCATGAACGCCAGGGTC	0.567													8	104					0	0	1	0	0		G	32959781	G	G	32959781	3	3	27	1	0	0	0	0	1	0	0	0	16073	43	2	3	1297	3	TMEM132E	17	32959781	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	313231	32959781	48235429	6866	29217											
CCT6B	10693	broad.mit.edu	37	chr17	33266714	33266714	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaattcacggccattccAccacaagcaagagagagtct	16	6	8	11	1	2	3	1	0	1	3	3	4	3	3	3	1	1	1	3	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:33266714A>G	uc002hig.2	-	9	1081	c.987T>C	c.(985-987)GGT>GGC	p.G329G	CCT6B_uc010ctg.2_Silent_p.G292G|CCT6B_uc010wcc.1_Silent_p.G284G	NM_006584	NP_006575	Q92526	TCPW_HUMAN	chaperonin containing TCP1, subunit 6B	329					chaperone-mediated protein complex assembly|protein folding|spermatogenesis	cytoplasm	ATP binding|protein transporter activity|unfolded protein binding			pancreas(1)	1		Ovarian(249;0.17)				CGGCCATTCCACCACAAGCAA	0.368													3	29					0	0	1	0	0		G	33266714	G	G	33266714	2	3	27	1	0	0	0	0	0	0	0	1	2961	146	6	3		3	CCT6B	17	33266714	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	306933	33266714	47928496	6867	29218											
SLFN5	162394	broad.mit.edu	37	chr17	33585998	33585998	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggaaaaccactttttgAtttttgtgaaatcatggaac	15	13	8	5	0	1	3	1	2	0	1	1	5	1	5	1	2	2	0	1	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:33585998A>T	uc002hjf.3	+	2	406	c.289A>T	c.(289-291)ATT>TTT	p.I97F	SLFN5_uc002hje.2_Missense_Mutation_p.I97F|SLFN5_uc010wcg.1_Missense_Mutation_p.I97F	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	97					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		CCACTTTTTGATTTTTGTGAA	0.418													8	142					0	0	1	0	0		T	33585998	T	T	33585998	3	4	27	1	0	0	0	0	1	0	0	0	14762	333	12	5	291	5	SLFN5	17	33585998	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	319284	33585998	47609212	6868	29219											
SLFN11	91607	broad.mit.edu	37	chr17	33680045	33680045	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgccttcccataccagTccccatcttcagtacggaaa	9	13	5	14	1	2	0	1	0	1	0	4	1	4	1	5	1	3	1	5	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:33680045T>C	uc010ctp.2	-	7	2478	c.2036A>G	c.(2035-2037)GAC>GGC	p.D679G	SLFN11_uc010ctq.2_Missense_Mutation_p.D679G|SLFN11_uc002hjh.3_Missense_Mutation_p.D679G|SLFN11_uc002hjg.3_Missense_Mutation_p.D679G|SLFN11_uc010ctr.2_Missense_Mutation_p.D679G	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	679						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCCATACCAGTCCCCATCTTC	0.473													10	154					0	0	1	0	0		C	33680045	C	C	33680045	3	2	27	1	0	0	0	0	1	0	0	0	14758	1667	58	3	673	3	SLFN11	17	33680045	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	94047	33680045	47515165	6869	29220											
SLFN11	91607	broad.mit.edu	37	chr17	33680106	33680106	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgtgttgaatgtgttcaaAgttttctcttaggaaagttt	10	18	10	3	0	2	1	1	1	1	0	3	3	2	2	0	1	0	4	0	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:33680106A>G	uc010ctp.2	-	7	2417	c.1975T>C	c.(1975-1977)TTT>CTT	p.F659L	SLFN11_uc010ctq.2_Missense_Mutation_p.F659L|SLFN11_uc002hjh.3_Missense_Mutation_p.F659L|SLFN11_uc002hjg.3_Missense_Mutation_p.F659L|SLFN11_uc010ctr.2_Missense_Mutation_p.F659L	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	659						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		ATGTGTTCAAAGTTTTCTCTT	0.403													15	132					0	0	1	0	0		G	33680106	G	G	33680106	3	3	27	1	0	0	0	0	1	0	0	0	14758	72	3	3	734	3	SLFN11	17	33680106	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	61	33680106	47515104	6870	29221											
SLFN13	146857	broad.mit.edu	37	chr17	33772396	33772396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatataaaaacaccttcCgtgttgcttagtctcaaaga	17	11	5	8	1	1	1	1	0	1	1	3	1	2	1	2	0	2	2	2	0	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:33772396C>T	uc002hjk.1	-	1	634	c.304G>A	c.(304-306)GGA>AGA	p.G102R	SLFN13_uc010wch.1_Missense_Mutation_p.G102R|SLFN13_uc002hjl.2_Missense_Mutation_p.G102R|SLFN13_uc010ctt.2_Intron|SLFN13_uc002hjm.2_5'UTR	NM_144682	NP_653283	Q68D06	SLN13_HUMAN	schlafen family member 13	102						intracellular	ATP binding			ovary(1)|breast(1)	2				UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		AAACACCTTCCGTGTTGCTTA	0.388													5	59					0	0	1	0	0		T	33772396	T	T	33772396	3	4	27	1	0	0	0	0	1	0	0	0	14761	661	23	1	2405	1	SLFN13	17	33772396	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	92290	33772396	47422814	6871	29222											
GAS2L2	246176	broad.mit.edu	37	chr17	34073121	34073121	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctgaggcccaggcactcGgctgggccaaaggaacgagg	10	3	16	12	2	0	1	0	1	0	0	1	3	0	2	3	6	2	2	3	6	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:34073121G>A	uc002hjv.1	-	6	1423	c.1395C>T	c.(1393-1395)GCC>GCT	p.A465A		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	465					cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCAGGCACTCGGCTGGGCCAA	0.622													14	116					0	0	1	0	0		A	34073121	A	A	34073121	2	1	27	1	0	0	0	0	0	0	0	1	6262	1103	39	1		1	GAS2L2	17	34073121	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	300725	34073121	47122089	6872	29223											
C17orf66	256957	broad.mit.edu	37	chr17	34183196	34183196	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagagatgactgcttccTggcgtgcagtggcatctggg	8	9	14	10	1	1	2	0	1	1	1	2	3	2	2	2	3	2	3	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:34183196T>C	uc002hke.1	-	13	1408	c.1259A>G	c.(1258-1260)CAG>CGG	p.Q420R	C17orf66_uc010wck.1_RNA|C17orf66_uc010wcl.1_Missense_Mutation_p.Q380R|C17orf66_uc010wcm.1_3'UTR	NM_152781	NP_689994	A2RTY3	CQ066_HUMAN	hypothetical protein LOC256957	420							binding			breast(2)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		GACTGCTTCCTGGCGTGCAGT	0.517													7	92					0	0	1	0	0		C	34183196	C	C	34183196	3	2	27	1	0	0	0	0	1	0	0	0	1877	1580	55	3	465	3	C17orf66	17	34183196	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	110075	34183196	47012014	6873	29224											
ACACA	31	broad.mit.edu	37	chr17	35601597	35601597	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacactcgatggagtttctcGcctctgagtgccgtgctctg	6	12	11	12	3	3	1	0	1	3	0	5	3	3	2	2	1	3	2	2	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:35601597G>A	uc002hnm.2	-	21	2729	c.2538C>T	c.(2536-2538)GGC>GGT	p.G846G	ACACA_uc002hnk.2_Silent_p.G768G|ACACA_uc002hnl.2_Silent_p.G788G|ACACA_uc002hnn.2_Silent_p.G846G|ACACA_uc002hno.2_Silent_p.G883G|ACACA_uc010cuz.2_Silent_p.G846G	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	846					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	GGAGTTTCTCGCCTCTGAGTG	0.453													13	77					0	0	1	0	0		A	35601597	A	A	35601597	2	1	27	1	0	0	0	0	0	0	0	1	106	1074	38	1		1	ACACA	17	35601597	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1418401	35601597	45593613	6874	29225											
ACACA	31	broad.mit.edu	37	chr17	35766383	35766383	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgacatcagagtagaccAccacatcctctcatcattgc	12	10	6	13	0	3	3	3	1	1	2	5	4	4	3	3	0	1	1	3	0	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:35766383A>G	uc002hno.2	-	1	520	c.7T>C	c.(7-9)TGG>CGG	p.W3R	ACACA_uc002hnn.2_5'UTR|ACACA_uc002hnq.2_5'UTR|TADA2A_uc002hnt.2_5'Flank|TADA2A_uc002hnu.1_5'Flank|TADA2A_uc002hnv.2_5'Flank	NM_198834	NP_942131	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 1	Error:Variant_position_missing_in_Q13085_after_alignment					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	agagtagacCACCACATCCTC	0.284													22	201					0	0	1	0	0		G	35766383	G	G	35766383	3	3	27	1	0	0	0	0	1	0	0	0	106	159	6	3	7425	3	ACACA	17	35766383	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	164786	35766383	45428827	6875	29226											
DUSP14	11072	broad.mit.edu	37	chr17	35872915	35872915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacagacaccttatggcataGttcccgacgtctatgagaag	12	10	9	10	2	1	2	0	1	1	2	2	4	2	2	2	1	1	2	2	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:35872915G>A	uc002hnx.2	+	3	835	c.541G>A	c.(541-543)GTT>ATT	p.V181I	DUSP14_uc002hny.2_Missense_Mutation_p.V168I|DUSP14_uc002hnz.2_Missense_Mutation_p.V168I	NM_007026	NP_008957	O95147	DUS14_HUMAN	dual specificity phosphatase 14	181							MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Breast(25;0.00637)|Ovarian(249;0.15)				TTATGGCATAGTTCCCGACGT	0.557													5	63					0	0	1	0	0		A	35872915	A	A	35872915	3	1	27	1	0	0	0	0	1	0	0	0	4820	1029	36	4	543	4	DUSP14	17	35872915	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	106532	35872915	45322295	6876	29227											
SYNRG	11276	broad.mit.edu	37	chr17	35914085	35914085	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgttggtggctctagtggTgatacactatcggctgtttt	5	18	12	6	1	1	1	0	1	1	0	2	1	1	1	0	4	1	4	0	4	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:35914085T>C	uc002hoa.2	-	14	1823	c.1740A>G	c.(1738-1740)TCA>TCG	p.S580S	SYNRG_uc010wde.1_Silent_p.S502S|SYNRG_uc010wdf.1_Silent_p.S502S|SYNRG_uc002hoc.2_Silent_p.S501S|SYNRG_uc002hoe.2_Silent_p.S502S|SYNRG_uc002hod.2_Silent_p.S502S|SYNRG_uc010wdg.1_Silent_p.S419S|SYNRG_uc002hob.2_Silent_p.S580S|SYNRG_uc002hof.2_Silent_p.S292S|SYNRG_uc010cvd.1_Silent_p.S380S	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	580	Interaction with A1P1G1 and A1P1G2.				endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						GCTCTAGTGGTGATACACTAT	0.403													10	134					0	0	1	0	0		C	35914085	C	C	35914085	2	2	27	1	0	0	0	0	0	0	0	1	15485	1683	59	3		3	SYNRG	17	35914085	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	41170	35914085	45281125	6877	29228											
SYNRG	11276	broad.mit.edu	37	chr17	35931915	35931915	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaccgctatcatggctagaAcggtataaagttcttctttt	10	16	7	8	2	3	1	1	0	2	1	3	1	3	1	1	2	2	4	1	2	7	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:35931915A>G	uc002hoa.2	-	9	1156	c.1073T>C	c.(1072-1074)GTT>GCT	p.V358A	SYNRG_uc010wde.1_Missense_Mutation_p.V280A|SYNRG_uc010wdf.1_Missense_Mutation_p.V280A|SYNRG_uc002hoc.2_Missense_Mutation_p.V279A|SYNRG_uc002hoe.2_Missense_Mutation_p.V280A|SYNRG_uc002hod.2_Missense_Mutation_p.V280A|SYNRG_uc010wdg.1_Missense_Mutation_p.V280A|SYNRG_uc002hob.2_Missense_Mutation_p.V358A|SYNRG_uc002hof.2_Missense_Mutation_p.V70A|SYNRG_uc010cvd.1_Missense_Mutation_p.V158A|SYNRG_uc002hog.1_Missense_Mutation_p.V492A|SYNRG_uc010wdh.1_3'UTR	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	358	EH.				endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						CATGGCTAGAACGGTATAAAG	0.358													5	86					0	0	1	0	0		G	35931915	G	G	35931915	3	3	27	1	0	0	0	0	1	0	0	0	15485	43	2	3	3000	3	SYNRG	17	35931915	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17830	35931915	45263295	6878	29229											
DDX52	11056	broad.mit.edu	37	chr17	35986896	35986896	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attagtcgatttggagtagtCacaagaatatctataggaaa	16	12	9	4	1	2	1	1	0	1	1	3	4	2	3	0	2	0	1	0	2	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:35986896C>T	uc002hoi.1	-	7	908	c.870G>A	c.(868-870)GTG>GTA	p.V290V	DDX52_uc002hoh.1_Silent_p.V182V	NM_007010	NP_008941	Q9Y2R4	DDX52_HUMAN	ATP-dependent RNA helicase ROK1 isoform a	290	Helicase ATP-binding.					nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|skin(1)	2		Breast(25;0.00637)|Ovarian(249;0.15)				TTGGAGTAGTCACAAGAATAT	0.348													9	72					0	0	1	0	0		T	35986896	T	T	35986896	2	4	27	1	0	0	0	0	0	0	0	1	4373	813	29	4		4	DDX52	17	35986896	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	54981	35986896	45208314	6879	29230											
MLLT6	4302	broad.mit.edu	37	chr17	36865786	36865786	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagtgctggaggtggacaaCgtcaagtactgcggctactg	10	8	15	8	2	1	0	1	0	0	0	1	3	1	2	0	4	5	3	0	4	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:36865786C>T	uc002hqi.3	+	6	523	c.510C>T	c.(508-510)AAC>AAT	p.N170N	MLLT6_uc010wdr.1_Silent_p.N170N|MLLT6_uc010cvm.1_Silent_p.N170N	NM_005937	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	170	PHD-type 2.				regulation of transcription, DNA-dependent	nucleus	protein binding|zinc ion binding			breast(3)|prostate(1)|lung(1)|skin(1)	6	Breast(7;4.43e-21)					AGGTGGACAACGTCAAGTACT	0.542			T	MLL	AL								5	43					0	0	1	0	0		T	36865786	T	T	36865786	2	4	27	1	0	0	0	0	0	0	0	1	9648	535	19	1		1	MLLT6	17	36865786	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	878890	36865786	44329424	6880	29231											
PCGF2	7703	broad.mit.edu	37	chr17	36895090	36895090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctccaagacctcgccgCggtcctcattggagccgttg	5	9	11	16	4	1	1	1	0	0	1	4	2	3	2	6	2	2	2	6	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:36895090C>T	uc002hqp.1	-	7	584	c.341G>A	c.(340-342)CGC>CAC	p.R114H	PCGF2_uc002hqn.1_Missense_Mutation_p.R114H|PCGF2_uc002hqo.1_Missense_Mutation_p.R114H|PCGF2_uc010cvo.1_5'UTR|PCGF2_uc002hqq.1_Missense_Mutation_p.R114H	NM_007144	NP_009075	P35227	PCGF2_HUMAN	ring finger protein 110	114					negative regulation of transcription from RNA polymerase II promoter	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2	Breast(7;9.07e-22)					GACCTCGCCGCGGTCCTCATT	0.587													9	66					0	0	1	0	0		T	36895090	T	T	36895090	3	4	27	1	0	0	0	0	1	0	0	0	11594	768	27	1	713	1	PCGF2	17	36895090	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	29304	36895090	44300120	6881	29232											
PIP4K2B	8396	broad.mit.edu	37	chr17	36934024	36934024	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccttcattgaggaagtcAttgtctttgaatgttggcaa	9	15	10	7	0	3	2	2	2	1	0	3	3	3	3	1	2	1	2	1	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:36934024A>G	uc002hqs.2	-	7	1204	c.723T>C	c.(721-723)AAT>AAC	p.N241N	PIP4K2B_uc010wdt.1_Silent_p.N241N|PIP4K2B_uc010wdu.1_Silent_p.N177N	NM_003559	NP_003550	P78356	PI42B_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	241	PIPK.				cell surface receptor linked signaling pathway	endoplasmic reticulum membrane|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|receptor signaling protein activity			ovary(1)	1						TGAGGAAGTCATTGTCTTTGA	0.493													4	100					0	0	1	0	0		G	36934024	G	G	36934024	2	3	27	1	0	0	0	0	0	0	0	1	11956	214	8	3		3	PIP4K2B	17	36934024	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	38934	36934024	44261186	6882	29233											
PLXDC1	57125	broad.mit.edu	37	chr17	37243861	37243861	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggaatgacccctactcactCggcaatggggtgaactccac	10	7	10	14	2	1	2	1	2	0	0	3	3	2	3	3	4	2	1	3	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:37243861C>T	uc002hrg.2	-	8	1118	c.906G>A	c.(904-906)CCG>CCA	p.P302P	uc002hrf.1_Intron|PLXDC1_uc010cvr.1_Silent_p.P10P|PLXDC1_uc002hrh.2_RNA|PLXDC1_uc002hri.2_RNA|PLXDC1_uc002hrj.1_RNA|PLXDC1_uc002hrk.1_RNA	NM_020405	NP_065138	Q8IUK5	PXDC1_HUMAN	plexin domain containing 1 precursor	302	Extracellular (Potential).				angiogenesis	cytoplasm|extracellular region|integral to membrane|tight junction				ovary(1)|kidney(1)|skin(1)	3						CCTACTCACTCGGCAATGGGG	0.358													7	22					0	0	1	0	0		T	37243861	T	T	37243861	2	4	27	1	0	0	0	0	0	0	0	1	12136	898	31	1		1	PLXDC1	17	37243861	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	309837	37243861	43951349	6883	29234											
RPL19	6143	broad.mit.edu	37	chr17	37359273	37359273	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacagccaatgcccgaatGccagagaaggtcacatggat	13	6	12	10	1	1	1	1	0	0	1	1	4	1	2	3	3	4	1	3	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:37359273G>T	uc002hrq.1	+	4	329	c.267G>T	c.(265-267)ATG>ATT	p.M89I	RPL19_uc002hrr.1_Missense_Mutation_p.M87I	NM_000981	NP_000972	P84098	RL19_HUMAN	ribosomal protein L19	89					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	RNA binding|structural constituent of ribosome				0						ATGCCCGAATGCCAGAGAAGG	0.507													4	78					0.150653	0.151846	1	1	0		T	37359273	T	T	37359273	3	4	27	1	0	0	0	0	1	0	0	0	13591	1319	46	5	281	5	RPL19	17	37359273	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	115412	37359273	43835937	6884	29235											
FBXL20	84961	broad.mit.edu	37	chr17	37420566	37420566	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagctcaatcacctccagCtggtcatgggcgcaggcccc	7	7	10	17	1	3	0	3	0	0	0	5	0	5	0	5	3	2	3	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:37420566C>T	uc010wed.1	-	14	1286	c.1065G>A	c.(1063-1065)CAG>CAA	p.Q355Q	FBXL20_uc002hrt.2_Silent_p.Q355Q|FBXL20_uc010cvu.2_Silent_p.Q323Q	NM_032875	NP_116264	Q96IG2	FXL20_HUMAN	F-box and leucine-rich repeat protein 20	355	LRR 11.					cytoplasm				ovary(1)	1			LUAD - Lung adenocarcinoma(14;0.146)			TCACCTCCAGCTGGTCATGGG	0.522													6	83					0	0	1	0	0		T	37420566	T	T	37420566	2	4	27	1	0	0	0	0	0	0	0	1	5731	796	28	2		2	FBXL20	17	37420566	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61293	37420566	43774644	6885	29236											
FBXL20	84961	broad.mit.edu	37	chr17	37455285	37455285	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagacatccacgaagacttAactttcgtaaaaagccccca	16	7	5	13	2	0	2	0	0	0	2	2	3	1	2	3	0	2	1	3	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:37455285A>T	uc010wed.1	-	5	508	c.287T>A	c.(286-288)TTA>TAA	p.L96*	FBXL20_uc002hrt.2_Nonsense_Mutation_p.L96*|FBXL20_uc010cvu.2_Nonsense_Mutation_p.L96*	NM_032875	NP_116264	Q96IG2	FXL20_HUMAN	F-box and leucine-rich repeat protein 20	96	LRR 1.					cytoplasm				ovary(1)	1			LUAD - Lung adenocarcinoma(14;0.146)			ACGAAGACTTAACTTTCGTAA	0.393													9	64					0	0	1	0	0		T	37455285	T	T	37455285	4	4	27	1	0	0	0	0	0	1	0	0	5731	372	13	5	1067	5	FBXL20	17	37455285	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	34719	37455285	43739925	6886	29237											
MED1	5469	broad.mit.edu	37	chr17	37565253	37565253	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgagaggaaggcttgcccAccatcactgttcccttagga	9	10	11	11	0	1	1	1	1	0	1	2	4	2	3	3	3	1	2	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:37565253A>G	uc002hrv.3	-	17	3433	c.3221T>C	c.(3220-3222)GTG>GCG	p.V1074A	MED1_uc010wee.1_Missense_Mutation_p.V902A|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1074					androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		AGGCTTGCCCACCATCACTGT	0.512										HNSCC(31;0.082)			16	110					0	0	1	0	0		G	37565253	G	G	37565253	3	3	27	1	0	0	0	0	1	0	0	0	9443	159	6	3	1528	3	MED1	17	37565253	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	109968	37565253	43629957	6887	29238											
MED1	5469	broad.mit.edu	37	chr17	37566692	37566692	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgagacaccttgctgaaGtcctccccatggcccaccga	8	9	8	16	1	1	2	0	2	1	1	3	4	3	2	6	1	1	1	6	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:37566692G>A	uc002hrv.3	-	17	1994	c.1782C>T	c.(1780-1782)GAC>GAT	p.D594D	MED1_uc010wee.1_Silent_p.D422D|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	594	Interaction with THRA.|Interaction with VDR.|Interaction with the Mediator complex and THRA.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		CCTTGCTGAAGTCCTCCCCAT	0.527										HNSCC(31;0.082)			15	116					0	0	1	0	0		A	37566692	A	A	37566692	2	1	27	1	0	0	0	0	0	0	0	1	9443	1020	36	4		4	MED1	17	37566692	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1439	37566692	43628518	6888	29239											
PSMD3	5709	broad.mit.edu	37	chr17	38142913	38142913	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcctgaagtggaagcctAtctccaactcctcgtggtca	8	10	9	14	1	2	1	1	1	1	0	5	2	3	2	5	2	3	0	5	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:38142913A>G	uc002htn.1	+	3	661	c.497A>G	c.(496-498)TAT>TGT	p.Y166C	PSMD3_uc010wen.1_RNA|PSMD3_uc010weo.1_Missense_Mutation_p.Y67C	NM_002809	NP_002800	O43242	PSMD3_HUMAN	proteasome 26S non-ATPase subunit 3	166					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	enzyme regulator activity|protein binding			ovary(1)|pancreas(1)	2	Colorectal(19;0.000442)					GTGGAAGCCTATCTCCAACTC	0.537													21	173					0	0	1	0	0		G	38142913	G	G	38142913	3	3	27	1	0	0	0	0	1	0	0	0	12721	449	16	3	507	3	PSMD3	17	38142913	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	576221	38142913	43052297	6889	29240											
IGFBP4	3487	broad.mit.edu	37	chr17	38612755	38612755	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtgtgtggaccggaagAcgggggtgaagcttccgggg	6	7	21	7	3	0	2	0	1	0	1	1	4	1	4	2	7	1	2	2	7	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:38612755A>T	uc002hus.2	+	4	1009	c.697A>T	c.(697-699)ACG>TCG	p.T233S		NM_001552	NP_001543	P22692	IBP4_HUMAN	insulin-like growth factor binding protein 4	233	Thyroglobulin type-1.				DNA metabolic process|signal transduction|skeletal system development						0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(5;5.91e-05)			GGACCGGAAGACGGGGGTGAA	0.637													4	66					0	0	1	0	0		T	38612755	T	T	38612755	3	4	27	1	0	0	0	0	1	0	0	0	7597	275	10	5	711	5	IGFBP4	17	38612755	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	469842	38612755	42582455	6890	29241											
TNS4	84951	broad.mit.edu	37	chr17	38643669	38643669	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttccaaggatctggaagAtgactgatggctggagttgc	10	11	13	7	0	1	3	0	2	1	1	2	6	2	6	1	4	1	2	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:38643669A>T	uc010cxb.2	-	4	1071	c.907T>A	c.(907-909)TCT>ACT	p.S303T		NM_032865	NP_116254	Q8IZW8	TENS4_HUMAN	tensin 4 precursor	303	Ser-rich.				apoptosis|protein localization	cytoplasm|cytoskeleton|focal adhesion	actin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(5;5.91e-05)			GATCTGGAAGATGACTGATGG	0.587													7	40					0	0	1	0	0		T	38643669	T	T	38643669	3	4	27	1	0	0	0	0	1	0	0	0	16370	333	12	5	1280	5	TNS4	17	38643669	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	30914	38643669	42551541	6891	29242											
KRT24	192666	broad.mit.edu	37	chr17	38859802	38859802	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccactcaggctgcagctGctggctcctcctcggaagcc	5	7	10	19	1	1	0	1	0	0	0	4	1	3	1	5	3	4	5	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:38859802G>A	uc002hvd.2	-	1	201	c.144C>T	c.(142-144)AGC>AGT	p.S48S		NM_019016	NP_061889	Q2M2I5	K1C24_HUMAN	keratin 24	48	Head.|Gly-rich.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.00526)				GGCTGCAGCTGCTGGCTCCTC	0.642													12	56					0	0	1	0	0		A	38859802	A	A	38859802	2	1	27	1	0	0	0	0	0	0	0	1	8477	1310	46	2		2	KRT24	17	38859802	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	216133	38859802	42335408	6892	29243											
KRT25	147183	broad.mit.edu	37	chr17	38907439	38907439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgttgaaccaggcctccGcgtccctgcggttctgctct	3	12	10	16	4	3	1	0	1	3	0	6	1	5	1	4	2	3	3	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:38907439G>A	uc002hve.2	-	4	870	c.809C>T	c.(808-810)GCG>GTG	p.A270V		NM_181534	NP_853512	Q7Z3Z0	K1C25_HUMAN	keratin 25	270	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity			ovary(2)	2		Breast(137;0.00526)				CCAGGCCTCCGCGTCCCTGCG	0.532													20	52					0	0	1	0	0		A	38907439	A	A	38907439	3	1	27	1	0	0	0	0	1	0	0	0	8478	1087	38	1	563	1	KRT25	17	38907439	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	47637	38907439	42287771	6893	29244											
KRT28	162605	broad.mit.edu	37	chr17	38953225	38953225	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagggtgcgcctcatctcGgtgagctggctccgggcgaa	5	8	16	12	4	2	1	1	1	1	0	4	2	3	1	2	4	3	3	2	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:38953225G>A	uc002hvh.1	-	5	987	c.921C>T	c.(919-921)ACC>ACT	p.T307T		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	307	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				GCCTCATCTCGGTGAGCTGGC	0.617													11	63					0	0	1	0	0		A	38953225	A	A	38953225	2	1	27	1	0	0	0	0	0	0	0	1	8481	1103	39	1		1	KRT28	17	38953225	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	45786	38953225	42241985	6894	29245											
KRT20	54474	broad.mit.edu	37	chr17	39036904	39036904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagagctaggtctttatTcagttcttcaatttgaatct	10	16	9	6	0	5	2	2	1	3	1	5	4	5	2	0	2	1	2	0	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:39036904T>C	uc002hvl.2	-	3	634	c.592A>G	c.(592-594)AAT>GAT	p.N198D		NM_019010	NP_061883	P35900	K1C20_HUMAN	keratin 20	198	Coil 1B.|Rod.				apoptosis|intermediate filament organization	Golgi apparatus|intermediate filament	protein binding|structural constituent of cytoskeleton			large_intestine(1)|kidney(1)|skin(1)	3		Breast(137;0.000301)|Ovarian(249;0.15)				AGGTCTTTATTCAGTTCTTCA	0.363													14	113					0	0	1	0	0		C	39036904	C	C	39036904	3	2	27	1	0	0	0	0	1	0	0	0	8474	1783	62	3	706	3	KRT20	17	39036904	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	83679	39036904	42158306	6895	29246											
KRT39	390792	broad.mit.edu	37	chr17	39114896	39114896	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaacaaggctgcacatgcTcgtaagaagaaatgaccttc	15	8	9	9	1	0	4	0	2	0	2	2	4	0	4	1	1	3	4	1	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:39114896T>A	uc002hvo.1	-	7	1469	c.1433A>T	c.(1432-1434)GAG>GTG	p.E478V	KRT39_uc010wfm.1_Missense_Mutation_p.E211V	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	478	Tail.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				CTGCACATGCTCGTAAGAAGA	0.473													16	155					0	0	1	0	0		A	39114896	A	A	39114896	3	1	27	1	0	0	0	0	1	0	0	0	8492	1551	54	5	46	5	KRT39	17	39114896	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	77992	39114896	42080314	6896	29247											
KRT39	390792	broad.mit.edu	37	chr17	39122754	39122754	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccagttcagcattctctcGttctagcattcgcacctttt	6	17	5	13	2	3	0	1	0	2	0	7	0	4	0	2	0	2	5	2	0	1	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:39122754G>A	uc002hvo.1	-	1	391	c.355C>T	c.(355-357)CGA>TGA	p.R119*	KRT39_uc010wfm.1_Translation_Start_Site	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	119	Coil 1A.|Rod.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				GCATTCTCTCGTTCTAGCATT	0.443													14	223					0	0	1	0	0		A	39122754	A	A	39122754	4	1	27	1	0	0	0	0	0	1	0	0	8492	1153	40	1	1148	1	KRT39	17	39122754	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7858	39122754	42072456	6897	29248											
KRT40	125115	broad.mit.edu	37	chr17	39137109	39137109	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agttccaagatctccatctgGcagccctgcagctgctccgc	7	9	9	16	1	2	1	0	0	2	1	5	1	4	1	4	1	4	5	4	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:39137109G>A	uc010cxh.1	-	7	1064	c.903C>T	c.(901-903)TGC>TGT	p.C301C	KRT40_uc002hvq.1_RNA	NM_182497	NP_872303	Q6A162	K1C40_HUMAN	type I hair keratin KA36	301	Rod.|Coil 2.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)				TCTCCATCTGGCAGCCCTGCA	0.522													29	129					0	0	1	0	0		A	39137109	A	A	39137109	2	1	27	1	0	0	0	0	0	0	0	1	8494	1195	42	2		2	KRT40	17	39137109	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	14355	39137109	42058101	6898	29249											
KRT33A	3883	broad.mit.edu	37	chr17	39503440	39503440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccacctccacgttgaggCggtctccaagctggcagcgc	6	7	12	16	4	1	1	0	1	1	0	4	1	3	1	4	3	2	3	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:39503440C>T	uc002hwk.1	-	4	660	c.623G>A	c.(622-624)CGC>CAC	p.R208H		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	208	Linker 12.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				CACGTTGAGGCGGTCTCCAAG	0.532													10	40					0	0	1	0	0		T	39503440	T	T	39503440	3	4	27	1	0	0	0	0	1	0	0	0	8485	768	27	1	607	1	KRT33A	17	39503440	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	366331	39503440	41691770	6899	29250											
KRT34	3885	broad.mit.edu	37	chr17	39535677	39535677	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agctcgatgatctccgcctgGcaggactgcagctgctctga	7	9	12	13	2	2	2	0	2	2	0	4	4	2	3	2	2	4	5	2	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:39535677G>A	uc002hwm.2	-	5	942	c.930C>T	c.(928-930)TGC>TGT	p.C310C		NM_021013	NP_066293	O76011	KRT34_HUMAN	keratin 34	310	Rod.|Coil 2.				epidermis development	intermediate filament	protein binding|structural molecule activity			central_nervous_system(1)	1		Breast(137;0.000496)				TCTCCGCCTGGCAGGACTGCA	0.592													13	88					0	0	1	0	0		A	39535677	A	A	39535677	2	1	27	1	0	0	0	0	0	0	0	1	8487	1195	42	2		2	KRT34	17	39535677	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	32237	39535677	41659533	6900	29251											
KRT38	8687	broad.mit.edu	37	chr17	39596974	39596974	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggtaggcggcagacagAggctggggcggcccagggga	8	2	22	9	2	0	2	0	0	0	2	0	3	0	3	1	10	0	4	1	10	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:39596974A>G	uc002hwq.1	-	1	623	c.200T>C	c.(199-201)CTC>CCC	p.L67P		NM_006771	NP_006762	O76015	KRT38_HUMAN	keratin 38	67	Head.					intermediate filament	structural molecule activity			skin(2)	2		Breast(137;0.000496)				CGGCAGACAGAGGCTGGGGCG	0.627													3	67					0	0	1	0	0		G	39596974	G	G	39596974	3	3	27	1	0	0	0	0	1	0	0	0	8491	304	11	3	1198	3	KRT38	17	39596974	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	61297	39596974	41598236	6901	29252											
KRT32	3882	broad.mit.edu	37	chr17	39623459	39623459	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatgccatgggctggcagAcatagcccaggcacagctca	10	5	13	13	0	1	1	1	0	0	1	1	1	1	1	2	4	3	5	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:39623459A>G	uc002hwr.2	-	1	180	c.119T>C	c.(118-120)GTC>GCC	p.V40A		NM_002278	NP_002269	Q14532	K1H2_HUMAN	keratin 32	40	Head.				epidermis development	intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000812)				GGGCTGGCAGACATAGCCCAG	0.632													12	63					0	0	1	0	0		G	39623459	G	G	39623459	3	3	27	1	0	0	0	0	1	0	0	0	8484	275	10	3	1255	3	KRT32	17	39623459	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26485	39623459	41571751	6902	29253											
KRT14	3861	broad.mit.edu	37	chr17	39740076	39740076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcttctcatactggtcaCgcatctcgttcagaatgcgg	8	12	8	13	3	5	1	3	0	3	1	7	1	5	1	1	2	2	2	1	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:39740076C>T	uc002hxf.1	-	4	924	c.863G>A	c.(862-864)CGT>CAT	p.R288H	JUP_uc010wfs.1_Intron|KRT14_uc010cxp.1_Missense_Mutation_p.R288H	NM_000526	NP_000517	P02533	K1C14_HUMAN	keratin 14	288	Rod.|Coil 2.				epidermis development|hemidesmosome assembly|intermediate filament bundle assembly	cytosol|keratin filament|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(1)	1		Breast(137;0.000307)				ATACTGGTCACGCATCTCGTT	0.557													36	116					0	0	1	0	0		T	39740076	T	T	39740076	3	4	27	1	0	0	0	0	1	0	0	0	8467	536	19	1	575	1	KRT14	17	39740076	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	116617	39740076	41455134	6903	29254											
JUP	3728	broad.mit.edu	37	chr17	39921283	39921283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagttacgcatgatctgcaCgagggcctggggcccaccat	8	8	13	12	2	1	1	0	1	1	0	1	2	1	1	3	3	2	4	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:39921283C>T	uc002hxq.2	-	6	1223	c.946G>A	c.(946-948)GTG>ATG	p.V316M	JUP_uc010wfs.1_Intron|JUP_uc002hxr.2_Missense_Mutation_p.V316M|JUP_uc002hxs.2_Missense_Mutation_p.V316M	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	316					adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		ATGATCTGCACGAGGGCCTGG	0.537													6	60					0	0	1	0	0		T	39921283	T	T	39921283	3	4	27	1	0	0	0	0	1	0	0	0	7988	536	19	1	1327	1	JUP	17	39921283	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	181207	39921283	41273927	6904	29255											
FKBP10	60681	broad.mit.edu	37	chr17	39974715	39974715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaggggctgctgggcatGtgtcctggagagagaaggaa	10	6	18	7	0	0	2	0	0	0	2	1	6	1	3	2	5	1	3	2	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:39974715G>A	uc002hxv.2	+	4	988	c.663G>A	c.(661-663)ATG>ATA	p.M221I	FKBP10_uc002hxw.1_5'Flank	NM_021939	NP_068758	Q96AY3	FKB10_HUMAN	FK506 binding protein 10 precursor	221	PPIase FKBP-type 2.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Breast(137;0.00122)		BRCA - Breast invasive adenocarcinoma(366;0.148)		TGCTGGGCATGTGTCCTGGAG	0.552													16	34					0	0	1	0	0		A	39974715	A	A	39974715	3	1	27	1	0	0	0	0	1	0	0	0	5916	1377	48	4	677	4	FKBP10	17	39974715	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	53432	39974715	41220495	6905	29256											
FKBP10	60681	broad.mit.edu	37	chr17	39977960	39977960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtggagctggtgtcccGggaggatgggctgcccacag	6	7	19	9	1	0	1	0	1	0	0	1	4	1	4	2	6	2	2	2	6	0	0	rs144314381	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:39977960G>A	uc002hxv.2	+	9	1779	c.1454G>A	c.(1453-1455)CGG>CAG	p.R485Q	FKBP10_uc002hxw.1_Missense_Mutation_p.R249Q	NM_021939	NP_068758	Q96AY3	FKB10_HUMAN	FK506 binding protein 10 precursor	485	PPIase FKBP-type 4.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Breast(137;0.00122)		BRCA - Breast invasive adenocarcinoma(366;0.148)		CTGGTGTCCCGGGAGGATGGG	0.632													12	72					0	0	1	0	0		A	39977960	A	A	39977960	3	1	27	1	0	0	0	0	1	0	0	0	5916	1116	39	1	1488	1	FKBP10	17	39977960	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3245	39977960	41217250	6906	29257											
KLHL10	317719	broad.mit.edu	37	chr17	40001942	40001942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatcaatggacactcatcGcccccatgcacgaacagagg	13	5	8	15	2	2	1	2	0	0	1	3	3	2	2	3	2	2	1	3	2	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:40001942G>A	uc010cxr.2	+	3	1391	c.1249G>A	c.(1249-1251)GCC>ACC	p.A417T	KLHL10_uc010wfv.1_Missense_Mutation_p.A411T|KLHL10_uc010wfw.1_Missense_Mutation_p.A329T	NM_152467	NP_689680	Q6JEL2	KLH10_HUMAN	kelch-like 10	417	Kelch 3.					cytoplasm				ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		Breast(137;0.000162)				GACACTCATCGCCCCCATGCA	0.498													8	51					0	0	1	0	0		A	40001942	A	A	40001942	3	1	27	1	0	0	0	0	1	0	0	0	8382	1087	38	1	1259	1	KLHL10	17	40001942	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23982	40001942	41193268	6907	29258											
DNAJC7	7266	broad.mit.edu	37	chr17	40141535	40141535	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggcaaagacctcgtacatAcagagcatctgcattggtgg	13	8	11	9	1	1	2	0	0	1	2	2	2	1	2	1	3	4	4	1	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:40141535A>G	uc002hyo.2	-	7	877	c.640T>C	c.(640-642)TAT>CAT	p.Y214H	DNAJC7_uc010cxu.2_Missense_Mutation_p.Y158H|DNAJC7_uc010cxv.2_Missense_Mutation_p.Y158H|DNAJC7_uc010wgb.1_Missense_Mutation_p.Y158H|DNAJC7_uc010wgc.1_Missense_Mutation_p.Y72H|DNAJC7_uc002hyp.2_Missense_Mutation_p.Y158H|DNAJC7_uc010cxw.2_RNA	NM_003315	NP_003306	Q99615	DNJC7_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 7	214	TPR 6.				chaperone cofactor-dependent protein refolding	cytoplasm|cytoskeleton|nucleus	heat shock protein binding|unfolded protein binding			ovary(1)	1		all_cancers(22;0.00273)|Breast(137;0.00104)|all_epithelial(22;0.0305)				CCTCGTACATACAGAGCATCT	0.458													12	218					0	0	1	0	0		G	40141535	G	G	40141535	3	3	27	1	0	0	0	0	1	0	0	0	4660	391	14	3	876	3	DNAJC7	17	40141535	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	139593	40141535	41053675	6908	29259											
KCNH4	23415	broad.mit.edu	37	chr17	40330388	40330388	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccttgggggccaagtcCtgggcttccactctgagtga	5	10	13	13	0	1	2	0	2	1	0	4	2	4	2	5	3	0	1	5	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:40330388C>A	uc002hzb.2	-	3	751	c.418G>T	c.(418-420)GGA>TGA	p.G140*		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	140	PAC.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	two-component sensor activity|voltage-gated potassium channel activity			large_intestine(1)	1		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		GGGCCAAGTCCTGGGCTTCCA	0.562													5	33					0.014758	0.0150623	1	1	0		A	40330388	A	A	40330388	4	1	27	1	0	0	0	0	0	1	0	0	8050	690	24	5	2691	5	KCNH4	17	40330388	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	188853	40330388	40864822	6909	29260											
GHDC	84514	broad.mit.edu	37	chr17	40344600	40344600	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgtccagcagcagggccCtagggtccttggttccaggg	5	8	16	12	1	0	0	0	0	0	0	3	0	3	0	4	4	3	3	4	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:40344600C>A	uc002hzd.2	-	4	1032	c.548G>T	c.(547-549)AGG>ATG	p.R183M	GHDC_uc002hzg.1_Missense_Mutation_p.R183M|GHDC_uc010wgg.1_Missense_Mutation_p.R144M|GHDC_uc002hze.3_Missense_Mutation_p.R183M|GHDC_uc002hzf.3_Missense_Mutation_p.R183M|GHDC_uc010cxz.2_RNA	NM_032484	NP_115873	Q8N2G8	GHDC_HUMAN	LGP1 homolog isoform 1	183						endoplasmic reticulum|nuclear envelope					0		all_cancers(22;0.000229)|Breast(137;0.00104)|all_epithelial(22;0.00304)		BRCA - Breast invasive adenocarcinoma(366;0.124)		CAGCAGGGCCCTAGGGTCCTT	0.652													8	53					1.12685e-05	1.21022e-05	1	1	0		A	40344600	A	A	40344600	3	1	27	1	0	0	0	0	1	0	0	0	6384	681	24	5	1157	5	GHDC	17	40344600	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14212	40344600	40850610	6910	29261											
STAT5A	6776	broad.mit.edu	37	chr17	40458336	40458336	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaacatgaaattcaaggcCgaagtgcagagcaaccgggg	14	5	12	10	2	2	2	2	1	0	1	2	3	2	2	2	3	4	2	2	3	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:40458336C>T	uc002hzj.1	+	14	2193	c.1551C>T	c.(1549-1551)GCC>GCT	p.A517A	STAT5A_uc010cya.1_Silent_p.A517A|STAT5A_uc010cyb.1_Silent_p.A486A|STAT5A_uc010cyc.1_Silent_p.A487A|STAT5A_uc010cyd.1_Silent_p.A5A|STAT5A_uc010cye.1_Silent_p.A5A	NM_003152	NP_003143	P42229	STA5A_HUMAN	signal transducer and activator of transcription	517					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|oxaloacetate metabolic process|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_cancers(22;1.56e-06)|all_epithelial(22;3.17e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)		AATTCAAGGCCGAAGTGCAGA	0.592													13	43					0	0	1	0	0		T	40458336	T	T	40458336	2	4	27	1	0	0	0	0	0	0	0	1	15293	639	23	1		1	STAT5A	17	40458336	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	113736	40458336	40736874	6911	29262											
ATP6V0A1	535	broad.mit.edu	37	chr17	40666464	40666464	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcggcctttctccacgcActgcgcttacactggtgagg	5	11	10	15	3	2	1	0	1	2	0	4	1	2	1	2	3	2	2	2	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:40666464A>G	uc002hzr.2	+	21	2573	c.2406A>G	c.(2404-2406)GCA>GCG	p.A802A	ATP6V0A1_uc002hzq.2_Silent_p.A796A|ATP6V0A1_uc002hzs.2_Silent_p.A803A|ATP6V0A1_uc010wgj.1_Silent_p.A759A|ATP6V0A1_uc010wgk.1_Silent_p.A753A|ATP6V0A1_uc010cyg.2_Silent_p.A448A|ATP6V0A1_uc010wgl.1_Silent_p.A661A|ATP6V0A1_uc002hzt.2_Silent_p.A86A	NM_001130021	NP_001123493	Q93050	VPP1_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a1	802	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytoplasmic vesicle membrane|endosome membrane|Golgi apparatus|integral to membrane|melanosome|nucleus|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1		all_cancers(22;1.18e-05)|Breast(137;0.000105)|all_epithelial(22;0.000254)		BRCA - Breast invasive adenocarcinoma(366;0.137)		TTCTCCACGCACTGCGCTTAC	0.622													4	117					0	0	1	0	0		G	40666464	G	G	40666464	2	3	27	1	0	0	0	0	0	0	0	1	1169	146	6	3		3	ATP6V0A1	17	40666464	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	208128	40666464	40528746	6912	29263											
CNTNAP1	8506	broad.mit.edu	37	chr17	40839038	40839038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatcgcagacctggccgtgCggcgccattcccggatcacc	7	6	11	17	5	1	1	1	0	0	1	3	2	2	2	5	3	1	1	5	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:40839038C>T	uc002iay.2	+	7	1234	c.1018C>T	c.(1018-1020)CGG>TGG	p.R340W	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	340	Laminin G-like 1.|Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		CCTGGCCGTGCGGCGCCATTC	0.612													16	48					0	0	1	0	0		T	40839038	T	T	40839038	3	4	27	1	0	0	0	0	1	0	0	0	3649	759	27	1	1044	1	CNTNAP1	17	40839038	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	172574	40839038	40356172	6913	29264											
CNTNAP1	8506	broad.mit.edu	37	chr17	40840482	40840482	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatccattcttgtccagggTaccgactgaatgacggcttt	8	13	9	11	2	2	2	1	2	1	0	4	3	4	2	3	2	1	2	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:40840482T>C	uc002iay.2	+	9	1525	c.1309T>C	c.(1309-1311)TAC>CAC	p.Y437H	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	437	Laminin G-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		TTGTCCAGGGTACCGACTGAA	0.522													6	133					0	0	1	0	0		C	40840482	C	C	40840482	3	2	27	1	0	0	0	0	1	0	0	0	3649	1638	57	3	1343	3	CNTNAP1	17	40840482	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1444	40840482	40354728	6914	29265											
WNK4	65266	broad.mit.edu	37	chr17	40937321	40937321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggcccacgccttcttcCgcgaggagcgcggtgtgcac	4	8	13	16	5	1	0	0	0	1	0	3	2	3	1	4	3	2	1	4	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:40937321C>T	uc002ibj.2	+	6	1318	c.1297C>T	c.(1297-1299)CGC>TGC	p.R433C	WNK4_uc010wgx.1_Missense_Mutation_p.R97C|WNK4_uc002ibk.1_Missense_Mutation_p.R205C|WNK4_uc010wgy.1_5'UTR	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	433					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		CGCCTTCTTCCGCGAGGAGCG	0.537													5	11					0	0	1	0	0		T	40937321	T	T	40937321	3	4	27	1	0	0	0	0	1	0	0	0	17406	652	23	1	1319	1	WNK4	17	40937321	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	96839	40937321	40257889	6915	29266											
PSME3	10197	broad.mit.edu	37	chr17	40990148	40990148	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcccaatgggatgctgaaaAgcaaccagcagctggtggac	12	6	13	10	0	0	1	0	1	0	0	0	3	0	3	2	3	6	4	2	3	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:40990148A>G	uc002ibr.2	+	6	557	c.331A>G	c.(331-333)AGC>GGC	p.S111G	PSME3_uc002ibp.2_Missense_Mutation_p.S50G|PSME3_uc002ibq.2_Missense_Mutation_p.S111G|PSME3_uc002ibs.2_Missense_Mutation_p.S122G|PSME3_uc010whd.1_Intron	NM_005789	NP_005780	P61289	PSME3_HUMAN	proteasome activator subunit 3 isoform 1	111					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of proteasomal protein catabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome activator complex	endopeptidase activator activity|identical protein binding|MDM2 binding|p53 binding				0		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		GATGCTGAAAAGCAACCAGCA	0.507													12	103					0	0	1	0	0		G	40990148	G	G	40990148	3	3	27	1	0	0	0	0	1	0	0	0	12730	72	3	3	353	3	PSME3	17	40990148	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	52827	40990148	40205062	6916	29267											
AOC3	8639	broad.mit.edu	37	chr17	41004027	41004027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtctgcaatcaggggacCgggccacctggtttggcctc	5	9	15	12	1	2	0	1	0	1	0	3	1	2	1	4	6	1	2	4	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:41004027C>T	uc002ibv.2	+	1	827	c.667C>T	c.(667-669)CGG>TGG	p.R223W		NM_003734	NP_003725	Q16853	AOC3_HUMAN	amine oxidase, copper containing 3 precursor	223	Extracellular (Potential).				amine metabolic process|cell adhesion|inflammatory response	cell surface|integral to membrane|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|protein homodimerization activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)	Hydralazine(DB01275)|Phenelzine(DB00780)	ATCAGGGGACCGGGCCACCTG	0.612													4	38					0	0	1	0	0		T	41004027	T	T	41004027	3	4	27	1	0	0	0	0	1	0	0	0	728	643	23	1	669	1	AOC3	17	41004027	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13879	41004027	40191183	6917	29268											
AARSD1	80755	broad.mit.edu	37	chr17	41108275	41108275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacatgttggaatcaacGccctcgatgttaacaacccg	12	8	8	13	3	1	0	1	0	0	0	2	2	1	1	2	1	4	3	2	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:41108275G>A	uc002icc.2	-	6	612	c.609C>T	c.(607-609)GGC>GGT	p.G203G	AARSD1_uc002icd.2_Silent_p.G316G|AARSD1_uc002ice.2_Silent_p.G286G|AARSD1_uc002icf.2_Silent_p.G377G|AARSD1_uc010whg.1_Silent_p.G377G|AARSD1_uc010cyu.1_Silent_p.G203G	NM_025267	NP_079543	Q9BTE6	AASD1_HUMAN	alanyl-tRNA synthetase domain containing 1	203					alanyl-tRNA aminoacylation	cytoplasm	alanine-tRNA ligase activity|ATP binding|metal ion binding|nucleic acid binding				0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		TGGAATCAACGCCCTCGATGT	0.557													12	86					0	0	1	0	0		A	41108275	A	A	41108275	2	1	27	1	0	0	0	0	0	0	0	1	21	1074	38	1		1	AARSD1	17	41108275	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	104248	41108275	40086935	6918	29269											
VAT1	10493	broad.mit.edu	37	chr17	41170164	41170164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctggccgaggccgttcCgaacactgtcacattctcca	7	10	9	15	3	2	0	1	0	1	0	4	2	3	0	4	2	2	2	4	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:41170164C>T	uc002icm.1	-	3	775	c.655G>A	c.(655-657)GGA>AGA	p.G219R	VAT1_uc010cyw.1_Missense_Mutation_p.G85R|VAT1_uc010whk.1_Missense_Mutation_p.G151R	NM_006373	NP_006364	Q99536	VAT1_HUMAN	vesicle amine transport protein 1	219						cytoplasm|integral to membrane	oxidoreductase activity|zinc ion binding				0		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.156)		GAGGCCGTTCCGAACACTGTC	0.562													12	78					0	0	1	0	0		T	41170164	T	T	41170164	3	4	27	1	0	0	0	0	1	0	0	0	17155	661	23	1	542	1	VAT1	17	41170164	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61889	41170164	40025046	6919	29270											
BRCA1	672	broad.mit.edu	37	chr17	41246804	41246804	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagctgcacgcttctcagtGgtgttcaaatcattattact	9	15	7	10	1	4	0	4	0	1	0	5	0	4	0	0	1	3	4	0	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:41246804G>T	uc002icq.2	-	10	976	c.744C>A	c.(742-744)ACC>ACA	p.T248T	BRCA1_uc010whp.1_Silent_p.T201T|BRCA1_uc010whl.1_Silent_p.T248T|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Silent_p.T177T|BRCA1_uc002icu.2_Silent_p.T248T|BRCA1_uc010cyx.2_Silent_p.T201T|BRCA1_uc002ict.2_Silent_p.T248T|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Silent_p.T80T|BRCA1_uc002idc.1_Silent_p.T247T|BRCA1_uc010whr.1_Silent_p.T201T|BRCA1_uc002idd.2_Silent_p.T248T|BRCA1_uc002ide.1_Silent_p.T79T|BRCA1_uc010cyy.1_Silent_p.T248T|BRCA1_uc010whs.1_Silent_p.T248T|BRCA1_uc010cyz.2_Silent_p.T201T|BRCA1_uc010cza.2_Silent_p.T222T|BRCA1_uc010wht.1_5'UTR	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	248					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		GCTTCTCAGTGGTGTTCAAAT	0.403			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			4	39					0.00909568	0.0093211	1	1	0		T	41246804	T	T	41246804	2	4	27	1	0	0	0	0	0	0	0	1	1501	1335	47	5		5	BRCA1	17	41246804	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	76640	41246804	39948406	6920	29271											
DHX8	1659	broad.mit.edu	37	chr17	41597504	41597504	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctttctgttctaggccatgGgtatcaatgatctgctgtcc	6	15	9	11	0	4	1	1	1	3	0	5	1	5	1	3	2	1	3	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:41597504G>T	uc002idu.1	+	19	2879	c.2806G>T	c.(2806-2808)GGT>TGT	p.G936C	DHX8_uc010wig.1_Missense_Mutation_p.G936C	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	936	Helicase C-terminal.					catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		CTAGGCCATGGGTATCAATGA	0.478													9	140					2.17888e-05	2.33116e-05	1	1	0		T	41597504	T	T	41597504	3	4	27	1	0	0	0	0	1	0	0	0	4521	1232	43	5	2880	5	DHX8	17	41597504	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	350700	41597504	39597706	6921	29272											
ETV4	2118	broad.mit.edu	37	chr17	41610241	41610241	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgttggtagggggctgggagGggttcccggccccctccctg	2	9	18	12	1	0	0	0	0	0	0	2	1	2	1	4	7	0	4	4	7	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:41610241G>T	uc002idw.2	-	8	740	c.612C>A	c.(610-612)CCC>CCA	p.P204P	ETV4_uc002idv.2_5'Flank|ETV4_uc010wih.1_Silent_p.P150P|ETV4_uc010czh.2_Silent_p.P203P|ETV4_uc010wii.1_Silent_p.P165P|ETV4_uc002idx.2_Silent_p.P204P|ETV4_uc010wij.1_Silent_p.P165P	NM_001986	NP_001977	P43268	ETV4_HUMAN	ets variant gene 4 (E1A enhancer binding	204	Gln-rich.				positive regulation of transcription, DNA-dependent	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/ETV4(6)	bone(4)|soft_tissue(2)|ovary(1)	7		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.0798)		GGGCTGGGAGGGGTTCCCGGC	0.592			T	EWSR1|TMPRSS2|DDX5|KLK2|CANT1	Ewing sarcoma|Prostate carcinoma								19	70					8.34094e-07	9.05885e-07	1	1	0		T	41610241	T	T	41610241	2	4	27	1	0	0	0	0	0	0	0	1	5289	1219	43	5		5	ETV4	17	41610241	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	12737	41610241	39584969	6922	29273											
MPP3	4356	broad.mit.edu	37	chr17	41891392	41891392	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttacgtggaacagcgacGccaaagtgctgtgggttctc	8	10	12	11	3	2	0	0	0	2	0	3	2	2	1	1	2	4	2	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:41891392G>A	uc002iei.3	-	16	1408	c.1242C>T	c.(1240-1242)GGC>GGT	p.G414G	MPP3_uc002ieh.2_Silent_p.G439G|MPP3_uc002iej.2_RNA	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	414	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		GAACAGCGACGCCAAAGTGCT	0.547													20	64					0	0	1	0	0		A	41891392	A	A	41891392	2	1	27	1	0	0	0	0	0	0	0	1	9753	1074	38	1		1	MPP3	17	41891392	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	281151	41891392	39303818	6923	29274											
MPP3	4356	broad.mit.edu	37	chr17	41903165	41903165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggccgcttgtgcaggactgCgatcccgttcacttctcgga	5	10	13	13	4	2	0	1	0	1	0	4	3	3	2	2	3	2	3	2	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:41903165C>T	uc002iei.3	-	9	734	c.568G>A	c.(568-570)GCA>ACA	p.A190T	MPP3_uc002ieh.2_Missense_Mutation_p.A215T|MPP3_uc002iej.2_RNA|MPP3_uc010czi.1_Missense_Mutation_p.A190T|MPP3_uc010wik.1_Missense_Mutation_p.A215T	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	190	PDZ.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		TGCAGGACTGCGATCCCGTTC	0.607													3	41					0	0	1	0	0		T	41903165	T	T	41903165	3	4	27	1	0	0	0	0	1	0	0	0	9753	768	27	1	1237	1	MPP3	17	41903165	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11773	41903165	39292045	6924	29275											
PPY	5539	broad.mit.edu	37	chr17	42018862	42018862	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagcatgttgatgtatctaCggagatcagctgcatactgg	10	12	11	8	1	3	2	2	1	1	1	3	3	3	2	0	2	5	5	0	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:42018862C>T	uc002iep.2	-	2	206	c.161G>A	c.(160-162)CGT>CAT	p.R54H		NM_002722	NP_002713	P01298	PAHO_HUMAN	pancreatic polypeptide preproprotein	54					digestion|protein secretion	extracellular region	hormone activity				0		Breast(137;0.00314)|Prostate(33;0.0724)		BRCA - Breast invasive adenocarcinoma(366;0.113)		GATGTATCTACGGAGATCAGC	0.617													11	120					0	0	1	0	0		T	42018862	T	T	42018862	3	4	27	1	0	0	0	0	1	0	0	0	12437	536	19	1	138	1	PPY	17	42018862	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	115697	42018862	39176348	6925	29276											
NAGS	162417	broad.mit.edu	37	chr17	42082072	42082072	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggttctgcgggcagctgCtgtagccccgaggctgagag	5	9	17	10	2	1	1	0	1	1	1	1	3	1	1	2	3	4	6	2	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:42082072C>A	uc002ies.2	+	1	41	c.41C>A	c.(40-42)GCT>GAT	p.A14D	PYY_uc002ieq.2_5'Flank|NAGS_uc010czn.2_Missense_Mutation_p.A14D|NAGS_uc002iet.2_5'Flank	NM_153006	NP_694551	Q8N159	NAGS_HUMAN	N-acetylglutamate synthase	14					arginine biosynthetic process|urea cycle	mitochondrial matrix	acetyl-CoA:L-glutamate N-acetyltransferase activity				0		Breast(137;0.00536)|Prostate(33;0.0724)		BRCA - Breast invasive adenocarcinoma(366;0.113)	L-Glutamic Acid(DB00142)	CGGGCAGCTGCTGTAGCCCCG	0.532													4	32					3.59834e-05	3.83694e-05	1	1	0		A	42082072	A	A	42082072	3	1	27	1	0	0	0	0	1	0	0	0	10163	797	28	5	43	5	NAGS	17	42082072	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	63210	42082072	39113138	6926	29277											
HDAC5	10014	broad.mit.edu	37	chr17	42162039	42162039	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtggctttgcgacctcggAtccgctgccaggaggatcag	6	8	15	12	4	1	0	1	0	0	0	3	4	2	3	3	4	2	2	3	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:42162039A>T	uc002ifd.1	-	16	2400	c.2189T>A	c.(2188-2190)ATC>AAC	p.I730N	HDAC5_uc002ife.1_Missense_Mutation_p.I730N|HDAC5_uc002iff.1_Missense_Mutation_p.I731N|HDAC5_uc010czp.1_Intron|HDAC5_uc002ifg.1_Missense_Mutation_p.I40N|HDAC5_uc002ifh.2_Missense_Mutation_p.I730N	NM_005474	NP_005465	Q9UQL6	HDAC5_HUMAN	histone deacetylase 5 isoform 1	730	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|chromatin remodeling|chromatin silencing|inflammatory response|negative regulation of cell migration involved in sprouting angiogenesis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			ovary(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.118)		GCGACCTCGGATCCGCTGCCA	0.587											OREG0024450	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	81					0	0	1	0	0		T	42162039	T	T	42162039	3	4	27	1	0	0	0	0	1	0	0	0	7026	333	12	5	1227	5	HDAC5	17	42162039	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	79967	42162039	39033171	6927	29278											
C17orf53	78995	broad.mit.edu	37	chr17	42225348	42225348	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgcaggcacagtcctccagGctgctgctgttacaccccac	7	8	10	16	0	0	0	0	0	0	0	2	0	2	0	4	2	4	6	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:42225348G>A	uc002ifi.1	+	3	362	c.177G>A	c.(175-177)AGG>AGA	p.R59R	C17orf53_uc010czq.1_Silent_p.R59R|C17orf53_uc002ifj.1_Silent_p.R59R|C17orf53_uc002ifk.1_RNA	NM_024032	NP_076937	Q8N3J3	CQ053_HUMAN	hypothetical protein LOC78995	59											0		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		AGTCCTCCAGGCTGCTGCTGT	0.617													16	76					0	0	1	0	0		A	42225348	A	A	42225348	2	1	27	1	0	0	0	0	0	0	0	1	1865	1194	42	2		2	C17orf53	17	42225348	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	63309	42225348	38969862	6928	29279											
C17orf53	78995	broad.mit.edu	37	chr17	42230037	42230037	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggcatctgtggaggaGgattttgggcgagggccctg	6	9	17	9	1	1	0	0	0	1	0	2	4	2	3	2	6	0	1	2	6	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:42230037G>T	uc002ifi.1	+	5	1526	c.1341G>T	c.(1339-1341)GAG>GAT	p.E447D	C17orf53_uc010czq.1_Missense_Mutation_p.E447D|C17orf53_uc002ifj.1_Intron|C17orf53_uc002ifk.1_Intron	NM_024032	NP_076937	Q8N3J3	CQ053_HUMAN	hypothetical protein LOC78995	447											0		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		CTGTGGAGGAGGATTTTGGGC	0.527													6	109					0.0215528	0.0219246	1	1	0		T	42230037	T	T	42230037	3	4	27	1	0	0	0	0	1	0	0	0	1865	991	35	5	1359	5	C17orf53	17	42230037	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4689	42230037	38965173	6929	29280											
UBTF	7343	broad.mit.edu	37	chr17	42286718	42286718	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagggtcccttgccctctcAccttaacccagaggtccagg	8	8	9	16	0	1	1	1	0	1	1	4	1	3	1	5	3	2	0	5	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:42286718A>G	uc002igb.2	-	16	1972	c.1905_splice	c.e16+1	p.K635_splice	UBTF_uc002igc.2_Splice_Site_p.K598_splice|UBTF_uc010czs.2_Splice_Site_p.K635_splice|UBTF_uc002igd.2_Splice_Site_p.K598_splice|UBTF_uc010czt.2_Splice_Site_p.K635_splice	NM_014233	NP_055048	P17480	UBF1_HUMAN	upstream binding transcription factor, RNA						positive regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm	DNA binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		TTGCCCTCTCACCTTAACCCA	0.527													5	36					0	0	1	0	0		G	42286718	G	G	42286718	5	3	27	1	0	0	0	0	0	0	1	0	16935	173	6	3	407	3	UBTF	17	42286718	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	56681	42286718	38908492	6930	29281											
ITGA2B	3674	broad.mit.edu	37	chr17	42463260	42463260	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccttgaaggtttgtaaagTttgggagcctacatttcggg	8	13	14	6	1	0	1	0	1	0	0	1	2	0	2	2	4	2	3	2	4	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:42463260T>G	uc002igt.1	-	3	372	c.340A>C	c.(340-342)ACT>CCT	p.T114P		NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	114	Extracellular (Potential).|FG-GAP 2.				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	GTTTGTAAAGTTTGGGAGCCT	0.617													5	18					0	0	1	0	0		G	42463260	G	G	42463260	3	3	27	1	0	0	0	0	1	0	0	0	7892	1725	60	5	2891	5	ITGA2B	17	42463260	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	176542	42463260	38731950	6931	29282											
GPATCH8	23131	broad.mit.edu	37	chr17	42477141	42477141	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacccccaccttcatccttTttgccactgctcccctcttc	4	13	2	22	0	2	0	1	0	1	0	5	0	4	0	8	0	2	1	8	0	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:42477141T>C	uc002igw.1	-	8	2368	c.2304A>G	c.(2302-2304)AAA>AAG	p.K768K	GPATCH8_uc002igv.1_Silent_p.K690K|GPATCH8_uc010wiz.1_Silent_p.K690K	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	768						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		CTTCATCCTTTTTGCCACTGC	0.592													3	68					0	0	1	0	0		C	42477141	C	C	42477141	2	2	27	1	0	0	0	0	0	0	0	1	6609	1838	64	3		3	GPATCH8	17	42477141	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	13881	42477141	38718069	6932	29283											
GPATCH8	23131	broad.mit.edu	37	chr17	42478681	42478681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaagggcctcctttatctGtggagaattcagatcccagg	10	11	11	9	0	2	3	1	1	1	2	4	4	4	3	3	3	0	0	3	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:42478681G>A	uc002igw.1	-	8	828	c.764C>T	c.(763-765)ACA>ATA	p.T255I	GPATCH8_uc002igv.1_Missense_Mutation_p.T177I|GPATCH8_uc010wiz.1_Missense_Mutation_p.T177I	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	255						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		TCCTTTATCTGTGGAGAATTC	0.488													12	119					0	0	1	0	0		A	42478681	A	A	42478681	3	1	27	1	0	0	0	0	1	0	0	0	6609	1377	48	4	3748	4	GPATCH8	17	42478681	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1540	42478681	38716529	6933	29284											
FZD2	2535	broad.mit.edu	37	chr17	42636396	42636396	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccgcaccatcatgaagcAcgacggcaccaagaccgaaa	15	3	8	15	4	1	2	1	1	0	1	2	4	2	2	4	1	1	3	4	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:42636396A>G	uc002igx.1	+	1	1472	c.1340A>G	c.(1339-1341)CAC>CGC	p.H447R		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	447	Cytoplasmic (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		ATCATGAAGCACGACGGCACC	0.617													3	86					0	0	1	0	0		G	42636396	G	G	42636396	3	3	27	1	0	0	0	0	1	0	0	0	6144	159	6	3	1342	3	FZD2	17	42636396	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	157715	42636396	38558814	6934	29285											
EFTUD2	9343	broad.mit.edu	37	chr17	42937909	42937909	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacggttcacctcgatgtggTacctgaagcaatgtccaata	11	10	9	11	2	1	1	1	1	0	0	3	2	2	1	3	2	2	3	3	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:42937909T>C	uc002ihn.2	-	17	1871	c.1610A>G	c.(1609-1611)TAC>TGC	p.Y537C	EFTUD2_uc010wje.1_Missense_Mutation_p.Y502C|EFTUD2_uc010wjf.1_Missense_Mutation_p.Y527C	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	537						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				CTCGATGTGGTACCTGAAGCA	0.378													7	61					0	0	1	0	0		C	42937909	C	C	42937909	3	2	27	1	0	0	0	0	1	0	0	0	4967	1638	57	3	1356	3	EFTUD2	17	42937909	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	301513	42937909	38257301	6935	29286											
C1QL1	10882	broad.mit.edu	37	chr17	43044935	43044935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtaaacttgccgctggccGcgtcgtagttgttgcctagg	6	11	13	11	5	0	0	0	0	0	0	1	0	0	0	3	2	3	5	3	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:43044935G>A	uc002ihv.2	-	1	710	c.482C>T	c.(481-483)GCG>GTG	p.A161V		NM_006688	NP_006679	O75973	C1QRF_HUMAN	complement component 1, q subcomponent-like 1	161	C1q.				locomotory behavior	collagen					0		Prostate(33;0.155)				GCCGCTGGCCGCGTCGTAGTT	0.602													7	75					0	0	1	0	0		A	43044935	A	A	43044935	3	1	27	1	0	0	0	0	1	0	0	0	1961	1087	38	1	302	1	C1QL1	17	43044935	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	107026	43044935	38150275	6936	29287											
PLCD3	113026	broad.mit.edu	37	chr17	43190323	43190323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccacaaaccggaccagtGccagctccggagcccgcagc	10	2	10	19	3	0	0	0	0	0	0	1	2	1	2	7	2	5	2	7	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:43190323G>A	uc002iib.2	-	15	2303	c.2189C>T	c.(2188-2190)GCA>GTA	p.A730V		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	730	C2.				intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	CCGGACCAGTGCCAGCTCCGG	0.622													3	17					0	0	1	0	0		A	43190323	A	A	43190323	3	1	27	1	0	0	0	0	1	0	0	0	12051	1319	46	2	188	2	PLCD3	17	43190323	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	145388	43190323	38004887	6937	29288											
C17orf46	124783	broad.mit.edu	37	chr17	43333338	43333338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagctctgactccagtaaagCcggcacctgtccgatctcca	9	9	8	15	2	2	1	0	1	2	0	5	2	4	1	5	1	2	3	5	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:43333338C>T	uc002iis.1	-	4	307	c.211G>A	c.(211-213)GCT>ACT	p.A71T	LOC100133991_uc010dah.2_Intron|C17orf46_uc010wjk.1_Missense_Mutation_p.A50T	NM_152343	NP_689556	Q96LK8	CQ046_HUMAN	hypothetical protein LOC124783	71										large_intestine(1)|ovary(1)	2						TCCAGTAAAGCCGGCACCTGT	0.488													4	61					0	0	1	0	0		T	43333338	T	T	43333338	3	4	27	1	0	0	0	0	1	0	0	0	1860	739	26	2	951	2	C17orf46	17	43333338	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	143015	43333338	37861872	6938	29289											
IMP5	162540	broad.mit.edu	37	chr17	43923692	43923692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcccgtcagatctacttcGtggcctgcaccgtggcctat	5	11	10	15	3	2	1	1	0	1	1	4	1	3	1	4	2	2	2	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:43923692G>A	uc010wka.1	+	1	1420	c.1420G>A	c.(1420-1422)GTG>ATG	p.V474M	LOC100128977_uc010wjz.1_Intron	NM_175882	NP_787078	Q8IUH8	IMP5_HUMAN	intramembrane protease 5 precursor	474	Helical; (Potential).					integral to membrane	aspartic-type endopeptidase activity			pancreas(2)	2	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.148)		GATCTACTTCGTGGCCTGCAC	0.572													7	46					0	0	1	0	0		A	43923692	A	A	43923692	3	1	27	1	0	0	0	0	1	0	0	0	7737	1145	40	1	1422	1	IMP5	17	43923692	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	590354	43923692	37271518	6939	29290											
MAPT	4137	broad.mit.edu	37	chr17	44061147	44061147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagcatttgggaagggctgCatttccaggggcccctggag	7	8	17	9	0	0	0	0	0	0	0	1	3	1	3	3	6	2	3	3	6	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:44061147C>T	uc002ijr.3	+	6	1297	c.977C>T	c.(976-978)GCA>GTA	p.A326V	MAPT_uc010dau.2_Missense_Mutation_p.A326V|MAPT_uc002ijs.3_Intron|MAPT_uc002ijx.3_Intron|MAPT_uc002ijt.3_Intron|MAPT_uc002iju.3_Intron|MAPT_uc002ijv.3_Intron	NM_016835	NP_058519	P10636	TAU_HUMAN	microtubule-associated protein tau isoform 1	326					cellular component disassembly involved in apoptosis|microtubule cytoskeleton organization|negative regulation of microtubule depolymerization|positive regulation of axon extension|positive regulation of microtubule polymerization|regulation of autophagy	axon|cytosol|growth cone|microtubule|microtubule associated complex|nuclear periphery|plasma membrane|tubulin complex	apolipoprotein E binding|enzyme binding|identical protein binding|lipoprotein particle binding|microtubule binding|protein binding|SH3 domain binding|structural constituent of cytoskeleton			pancreas(1)	1		Melanoma(429;0.216)				GGAAGGGCTGCATTTCCAGGG	0.612													10	39					0	0	1	0	0		T	44061147	T	T	44061147	3	4	27	1	0	0	0	0	1	0	0	0	9315	710	25	2	995	2	MAPT	17	44061147	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	137455	44061147	37134063	6940	29291											
KIAA1267	284058	broad.mit.edu	37	chr17	44116579	44116579	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgggtttggtgatgggacaGctctgaagaggggaacagaa	11	7	17	6	1	1	4	0	2	1	2	1	6	1	6	1	5	2	2	1	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:44116579G>A	uc002ikb.2	-	8	2291	c.2206C>T	c.(2206-2208)CTG>TTG	p.L736L	KIAA1267_uc002ikc.2_Silent_p.L736L|KIAA1267_uc002ikd.2_Silent_p.L736L|KIAA1267_uc010dav.2_Silent_p.L736L|KIAA1267_uc010wkb.1_Silent_p.L67L|KIAA1267_uc010wkc.1_Intron	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	736						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				TGATGGGACAGCTCTGAAGAG	0.532													5	56					0	0	1	0	0		A	44116579	A	A	44116579	2	1	27	1	0	0	0	0	0	0	0	1	8235	962	34	2		2	KIAA1267	17	44116579	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55432	44116579	37078631	6941	29292											
KIAA1267	284058	broad.mit.edu	37	chr17	44248979	44248979	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagagcccgttttcccccAttgagggaagtggaattgtc	8	11	13	9	1	0	2	0	2	0	1	2	5	1	4	3	2	1	1	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:44248979A>G	uc002ikb.2	-	1	616	c.531T>C	c.(529-531)AAT>AAC	p.N177N	KIAA1267_uc002ikc.2_Silent_p.N177N|KIAA1267_uc002ikd.2_Silent_p.N177N|KIAA1267_uc010dav.2_Silent_p.N177N	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	177						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				GTTTTCCCCCATTGAGGGAAG	0.478													10	211					0	0	1	0	0		G	44248979	G	G	44248979	2	3	27	1	0	0	0	0	0	0	0	1	8235	214	8	3		3	KIAA1267	17	44248979	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	132400	44248979	36946231	6942	29293											
LRRC37A2	474170	broad.mit.edu	37	chr17	44626418	44626418	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgtacatgccagaaaaaaaTaccgctttcacaaaactcgc	16	8	5	12	3	1	1	1	0	0	1	3	1	1	1	2	0	4	2	2	0	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:44626418T>A	uc002ikn.1	+	9	3916	c.3913T>A	c.(3913-3915)TAC>AAC	p.Y1305N	ARL17A_uc002iko.3_Intron|LRRC37A2_uc002ikq.1_Missense_Mutation_p.Y266N|LRRC37A2_uc010dax.1_Missense_Mutation_p.Y235N	NM_001006607	NP_001006608	A6NM11	L37A2_HUMAN	c114 SLIT-like testicular protein precursor	1305	Extracellular (Potential).					integral to membrane					0		Melanoma(429;0.211)		BRCA - Breast invasive adenocarcinoma(366;0.232)		CAGAAAAAAATACCGCTTTCA	0.408													13	305					0	0	1	0	0		A	44626418	A	A	44626418	3	1	27	1	0	0	0	0	1	0	0	0	9010	1406	49	5	3947	5	LRRC37A2	17	44626418	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	377439	44626418	36568792	6943	29294											
MRPL10	124995	broad.mit.edu	37	chr17	45904545	45904545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactgctgctatctcccggCggagaagcctgatgaggcct	9	8	12	12	2	1	3	0	2	1	1	2	4	1	3	3	3	4	2	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:45904545C>T	uc002ilz.2	-	3	274	c.248G>A	c.(247-249)CGC>CAC	p.R83H	MRPL10_uc010wky.1_Missense_Mutation_p.R44H|MRPL10_uc002ily.2_Missense_Mutation_p.R93H	NM_145255	NP_660298	Q7Z7H8	RM10_HUMAN	mitochondrial ribosomal protein L10 precursor	83					ribosome biogenesis|translation	mitochondrial large ribosomal subunit	structural constituent of ribosome			ovary(1)	1						TATCTCCCGGCGGAGAAGCCT	0.542													8	67					0	0	1	0	0		T	45904545	T	T	45904545	3	4	27	1	0	0	0	0	1	0	0	0	9793	768	27	1	549	1	MRPL10	17	45904545	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1278127	45904545	35290665	6944	29295											
LRRC46	90506	broad.mit.edu	37	chr17	45909496	45909496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagggtccagaggaaggggGcgtctgcatcactgaagccc	9	5	15	12	1	2	2	1	1	1	1	3	3	3	3	3	4	2	1	3	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:45909496G>A	uc002ima.2	+	2	297	c.41G>A	c.(40-42)GGC>GAC	p.G14D	MRPL10_uc010wky.1_5'Flank|MRPL10_uc002ilz.2_5'Flank|MRPL10_uc002ily.2_5'Flank|LRRC46_uc002imb.2_5'UTR	NM_033413	NP_219481	Q96FV0	LRC46_HUMAN	leucine rich repeat containing 46	14										ovary(1)	1						GAGGAAGGGGGCGTCTGCATC	0.532													11	135					0	0	1	0	0		A	45909496	A	A	45909496	3	1	27	1	0	0	0	0	1	0	0	0	9021	1203	42	2	47	2	LRRC46	17	45909496	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4951	45909496	35285714	6945	29296											
CDK5RAP3	80279	broad.mit.edu	37	chr17	46057957	46057957	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatctttcttctgtcctcAgcttgagatcttcttagccc	6	16	5	14	0	6	1	1	1	5	1	7	2	7	1	3	0	2	1	3	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:46057957A>T	uc002imr.2	+	12	1162	c.1078_splice	c.e12-2	p.L360_splice	CDK5RAP3_uc010wlc.1_Splice_Site_p.L380_splice|CDK5RAP3_uc002imq.1_Splice_Site_p.L135_splice|CDK5RAP3_uc002imu.2_Splice_Site_p.L204_splice|CDK5RAP3_uc002ims.2_Splice_Site_p.L273_splice|CDK5RAP3_uc002imv.2_Splice_Site_p.L204_splice|CDK5RAP3_uc002imw.2_Splice_Site_p.L202_splice|CDK5RAP3_uc002imx.2_Splice_Site_p.L135_splice	NM_176096	NP_788276	Q96JB5	CK5P3_HUMAN	CDK5 regulatory subunit associated protein 3						brain development|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation		neuronal Cdc2-like kinase binding				0						TTCTGTCCTCAGCTTGAGATC	0.338													9	220					0	0	1	0	0		T	46057957	T	T	46057957	5	4	27	1	0	0	0	0	0	0	1	0	3150	202	7	5	1122	5	CDK5RAP3	17	46057957	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	148461	46057957	35137253	6946	29297											
CBX1	10951	broad.mit.edu	37	chr17	46153532	46153532	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcttctggctcccatgtgTtgtcctcactgaaaccagag	7	13	8	13	0	3	2	1	1	2	1	6	2	5	2	3	1	1	2	3	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:46153532T>C	uc002ind.3	-	3	630	c.149A>G	c.(148-150)AAC>AGC	p.N50S	CBX1_uc002ine.3_Missense_Mutation_p.N50S	NM_006807	NP_006798	P83916	CBX1_HUMAN	heterochromatin protein 1-beta	50	Chromo 1.					nuclear heterochromatin|nucleoplasm|spindle	chromatin binding|enzyme binding				0						CTCCCATGTGTTGTCCTCACT	0.463													7	71					0	0	1	0	0		C	46153532	C	C	46153532	3	2	27	1	0	0	0	0	1	0	0	0	2720	1725	60	3	420	3	CBX1	17	46153532	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	95575	46153532	35041678	6947	29298											
HOXB1	3211	broad.mit.edu	37	chr17	46608232	46608232	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtccccggttacagagtgggTactctaagaaggagttcatc	10	10	12	9	1	2	2	1	0	1	2	4	3	3	3	2	3	2	3	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:46608232T>C	uc002ink.1	-	1	41	c.35A>G	c.(34-36)TAC>TGC	p.Y12C		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	12						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ACAGAGTGGGTACTCTAAGAA	0.607													9	89					0	0	1	0	0		C	46608232	C	C	46608232	3	2	27	1	0	0	0	0	1	0	0	0	7315	1638	57	3	878	3	HOXB1	17	46608232	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	454700	46608232	34586978	6948	29299											
HOXB5	3215	broad.mit.edu	37	chr17	46669628	46669628	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacttttcaatttgttgtcCttcttccacttcatgcgccg	6	18	5	12	2	3	0	2	0	1	0	5	0	5	0	3	0	2	1	3	0	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:46669628C>A	uc002inr.2	-	2	812	c.753G>T	c.(751-753)AAG>AAT	p.K251N	HOXB3_uc010wlm.1_5'Flank|HOXB3_uc010dbf.2_5'Flank|HOXB3_uc010dbg.2_5'Flank	NM_002147	NP_002138	P09067	HXB5_HUMAN	homeobox B5	251	Homeobox.					nucleus	sequence-specific DNA binding				0						ATTTGTTGTCCTTCTTCCACT	0.632													11	122					0.00010058	0.000106583	1	1	0		A	46669628	A	A	46669628	3	1	27	1	0	0	0	0	1	0	0	0	7320	680	24	5	60	5	HOXB5	17	46669628	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61396	46669628	34525582	6949	29300											
HOXB8	3218	broad.mit.edu	37	chr17	46691747	46691747	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggcaagcttgcagtctgcgTactgcaccaggtctggatcc	7	9	12	13	2	2	0	0	0	2	0	3	1	3	1	2	3	5	5	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:46691747T>C	uc002inw.2	-	1	555	c.320A>G	c.(319-321)TAC>TGC	p.Y107C		NM_024016	NP_076921	P17481	HXB8_HUMAN	homeobox B8	107						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GCAGTCTGCGTACTGCACCAG	0.697													5	30					0	0	1	0	0		C	46691747	C	C	46691747	3	2	27	1	0	0	0	0	1	0	0	0	7323	1638	57	3	419	3	HOXB8	17	46691747	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	22119	46691747	34503463	6950	29301											
HOXB8	3218	broad.mit.edu	37	chr17	46691765	46691765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtactgcaccaggtctggaTcctgcgcaccgaataggctc	8	8	11	14	3	1	0	0	0	1	0	3	2	2	1	3	3	3	4	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:46691765T>C	uc002inw.2	-	1	537	c.302A>G	c.(301-303)GAT>GGT	p.D101G		NM_024016	NP_076921	P17481	HXB8_HUMAN	homeobox B8	101						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CAGGTCTGGATCCTGCGCACC	0.692													6	40					0	0	1	0	0		C	46691765	C	C	46691765	3	2	27	1	0	0	0	0	1	0	0	0	7323	1435	50	3	437	3	HOXB8	17	46691765	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18	46691765	34503445	6951	29302											
HOXB13	10481	broad.mit.edu	37	chr17	46804235	46804235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaccagatggtaatctggcGctccgagaggctggtggctg	9	8	15	9	2	1	2	0	0	1	2	2	3	2	2	2	5	1	4	2	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:46804235G>A	uc002ioa.2	-	2	928	c.772C>T	c.(772-774)CGC>TGC	p.R258C	hsa-mir-3185|MI0014227_5'Flank	NM_006361	NP_006352	Q92826	HXB13_HUMAN	homeobox B13	258	Homeobox.				angiogenesis|epidermis development|response to wounding		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GTAATCTGGCGCTCCGAGAGG	0.572													21	75					0	0	1	0	0		A	46804235	A	A	46804235	3	1	27	1	0	0	0	0	1	0	0	0	7316	1087	38	1	86	1	HOXB13	17	46804235	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	112470	46804235	34390975	6952	29303											
TTLL6	284076	broad.mit.edu	37	chr17	46847394	46847394	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtcacagccagggttggCggagactttggggagattga	8	8	18	7	2	1	3	1	1	0	2	1	5	1	3	1	6	1	1	1	6	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:46847394C>T	uc010wlo.1	-	15	2141	c.2106G>A	c.(2104-2106)CCG>CCA	p.P702P	TTLL6_uc002iob.2_Silent_p.P395P|TTLL6_uc010dbi.2_Intron|TTLL6_uc002ioc.2_Silent_p.P455P|TTLL6_uc002iod.2_Intron	NM_001130918	NP_001124390	Q8N841	TTLL6_HUMAN	tubulin tyrosine ligase-like family, member 6	654						cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity				0						CCAGGGTTGGCGGAGACTTTG	0.522													9	94					0	0	1	0	0		T	46847394	T	T	46847394	2	4	27	1	0	0	0	0	0	0	0	1	16757	755	27	1		1	TTLL6	17	46847394	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	43159	46847394	34347816	6953	29304											
GIP	2695	broad.mit.edu	37	chr17	47039154	47039154	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagctccagcgcccgagcCtccctctgggtgatgttgtg	4	9	13	15	2	1	1	0	1	1	0	3	2	3	1	5	1	3	2	5	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:47039154C>T	uc002iol.1	-	4	383	c.285G>A	c.(283-285)GAG>GAA	p.E95E		NM_004123	NP_004114	P09681	GIP_HUMAN	gastric inhibitory polypeptide preproprotein	95					energy reserve metabolic process|signal transduction	extracellular region|soluble fraction	hormone activity			skin(1)	1						GCGCCCGAGCCTCCCTCTGGG	0.552													9	32					0	0	1	0	0		T	47039154	T	T	47039154	2	4	27	1	0	0	0	0	0	0	0	1	6406	680	24	4		4	GIP	17	47039154	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	191760	47039154	34156056	6954	29305											
IGF2BP1	10642	broad.mit.edu	37	chr17	47121413	47121413	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagaaggggcagcacatcAaacagctctcccggtttgcc	11	6	11	13	1	2	1	1	0	1	1	3	1	2	1	2	3	4	5	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:47121413A>G	uc002iom.2	+	11	1619	c.1285A>G	c.(1285-1287)AAA>GAA	p.K429E	IGF2BP1_uc010dbj.2_Missense_Mutation_p.K290E	NM_006546	NP_006537	Q9NZI8	IF2B1_HUMAN	insulin-like growth factor 2 mRNA binding	429	KH 3.|Necessary for interaction with ELAVL4 and binding to TAU mRNA (By similarity).				CRD-mediated mRNA stabilization|negative regulation of translation|regulation of mRNA stability involved in response to stress	CRD-mediated mRNA stability complex|cytosol|dendritic spine|lamellipodium|nucleus|plasma membrane|stress granule	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			kidney(1)	1						GCAGCACATCAAACAGCTCTC	0.587													27	91					0	0	1	0	0		G	47121413	G	G	47121413	3	3	27	1	0	0	0	0	1	0	0	0	7589	131	5	3	1327	3	IGF2BP1	17	47121413	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	82259	47121413	34073797	6955	29306											
GNGT2	2793	broad.mit.edu	37	chr17	47284707	47284707	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaggaggctcaccggaatTcttgtgtttttcacttcttt	6	16	10	9	2	4	0	2	0	2	0	4	3	4	2	1	3	0	2	1	3	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:47284707T>C	uc002ioo.1	-	3	385	c.78A>G	c.(76-78)AGA>AGG	p.R26R	ABI3_uc002ioq.1_5'Flank|ABI3_uc002iop.1_5'Flank	NM_031498	NP_113686	O14610	GBGT2_HUMAN	guanine nucleotide binding protein-gamma	26					G-protein coupled receptor protein signaling pathway|phototransduction|synaptic transmission	extracellular region|heterotrimeric G-protein complex	GTPase activity|signal transducer activity				0			Epithelial(5;6.37e-06)|all cancers(6;6.36e-05)			TCACCGGAATTCTTGTGTTTT	0.567													27	307					0	0	1	0	0		C	47284707	C	C	47284707	2	2	27	1	0	0	0	0	0	0	0	1	6549	1780	62	3		3	GNGT2	17	47284707	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	163294	47284707	33910503	6956	29307											
NGFR	4804	broad.mit.edu	37	chr17	47583768	47583768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtggaggccgacgacgccGtgtgccgctgcgcctacggc	4	5	17	15	8	0	0	0	0	0	0	0	3	0	1	4	3	3	1	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:47583768G>A	uc002ioz.3	+	3	441	c.316G>A	c.(316-318)GTG>ATG	p.V106M		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	106	Extracellular (Potential).|TNFR-Cys 2.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					CGACGACGCCGTGTGCCGCTG	0.711													8	16					0	0	1	0	0		A	47583768	A	A	47583768	3	1	27	1	0	0	0	0	1	0	0	0	10415	1145	40	1	326	1	NGFR	17	47583768	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	299061	47583768	33611442	6957	29308											
DLX3	1747	broad.mit.edu	37	chr17	48072105	48072105	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggtaggaggctccgtaggtAtattccgacttgggcgagta	8	10	15	8	4	0	0	0	0	0	0	2	3	2	1	2	5	0	5	2	5	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48072105A>G	uc002ipy.2	-	1	484	c.258T>C	c.(256-258)TAT>TAC	p.Y86Y		NM_005220	NP_005211	O60479	DLX3_HUMAN	distal-less homeobox 3	86						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CTCCGTAGGTATATTCCGACT	0.637													6	72					0	0	1	0	0		G	48072105	G	G	48072105	2	3	27	1	0	0	0	0	0	0	0	1	4578	456	16	3		3	DLX3	17	48072105	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	488337	48072105	33123105	6958	29309											
ITGA3	3675	broad.mit.edu	37	chr17	48154746	48154746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgccttctttcctcagcccGgggcctgccaagctaatgag	6	10	10	15	2	2	1	1	1	1	0	4	1	3	1	5	2	3	1	5	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48154746G>A	uc010dbl.2	+	16	2538	c.2074G>A	c.(2074-2076)GGG>AGG	p.G692R	ITGA3_uc010dbm.2_Missense_Mutation_p.G692R	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	692	Extracellular (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						TCCTCAGCCCGGGGCCTGCCA	0.592													5	106					0	0	1	0	0		A	48154746	A	A	48154746	3	1	27	1	0	0	0	0	1	0	0	0	7893	1116	39	1	2136	1	ITGA3	17	48154746	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	82641	48154746	33040464	6959	29310											
COL1A1	1277	broad.mit.edu	37	chr17	48263363	48263363	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacatcggcagggtcggagcCctggccgccatactcgaact	8	6	12	15	4	0	0	0	0	0	0	3	2	0	1	3	4	3	1	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48263363C>A	uc002iqm.2	-	50	4150	c.4024G>T	c.(4024-4026)GGC>TGC	p.G1342C		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	1342	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	GGGTCGGAGCCCTGGCCGCCA	0.642			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						7	36					8.12818e-05	8.61523e-05	1	1	0		A	48263363	A	A	48263363	3	1	27	1	0	0	0	0	1	0	0	0	3680	623	22	5	378	5	COL1A1	17	48263363	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	108617	48263363	32931847	6960	29311											
COL1A1	1277	broad.mit.edu	37	chr17	48267694	48267694	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcttggtactcacagggggGccagcaaagccagcagggcc	9	5	15	12	0	2	0	1	0	1	0	2	0	2	0	3	5	4	3	3	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48267694G>A	uc002iqm.2	-	35	2571	c.2445C>T	c.(2443-2445)GGC>GGT	p.G815G		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	815	Triple-helical region.		G -> V (in OI2A).		axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	TCACAGGGGGGCCAGCAAAGC	0.612			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						7	65					0	0	1	0	0		A	48267694	A	A	48267694	2	1	27	1	0	0	0	0	0	0	0	1	3680	1190	42	2		2	COL1A1	17	48267694	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4331	48267694	32927516	6961	29312											
EME1	146956	broad.mit.edu	37	chr17	48458187	48458187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcagacatacaggtgcgcCgtggggaaggtgtgacatcc	9	7	15	10	3	0	2	0	1	0	1	2	3	1	3	2	4	2	1	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48458187C>T	uc002iqs.1	+	9	1673	c.1600C>T	c.(1600-1602)CGT>TGT	p.R534C	EME1_uc010dbp.1_Missense_Mutation_p.R547C|EME1_uc010dbq.1_RNA|uc010wmk.1_5'Flank	NM_152463	NP_689676	Q96AY2	EME1_HUMAN	essential meiotic endonuclease 1 homolog 1	534					DNA recombination|DNA repair	nucleolus	DNA binding|endonuclease activity|metal ion binding|protein binding				0	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			ACAGGTGCGCCGTGGGGAAGG	0.483								Direct_reversal_of_damage|Homologous_recombination					14	136					0	0	1	0	0		T	48458187	T	T	48458187	3	4	27	1	0	0	0	0	1	0	0	0	5096	652	23	1	1669	1	EME1	17	48458187	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	190493	48458187	32737023	6962	29313											
ACSF2	80221	broad.mit.edu	37	chr17	48539648	48539648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagaatgcccagccaggggCcttgaagagtcagaggtggg	10	5	18	8	0	1	4	1	1	0	3	1	5	1	4	3	5	2	0	3	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48539648C>T	uc002iqu.2	+	5	715	c.611C>T	c.(610-612)GCC>GTC	p.A204V	ACSF2_uc010wml.1_Missense_Mutation_p.A161V|ACSF2_uc010wmm.1_Missense_Mutation_p.A229V|ACSF2_uc010wmn.1_Missense_Mutation_p.A191V|ACSF2_uc010wmo.1_Missense_Mutation_p.A44V	NM_025149	NP_079425	Q96CM8	ACSF2_HUMAN	acyl-CoA synthetase family member 2 precursor	204					fatty acid metabolic process	mitochondrion	ATP binding|ligase activity				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			CAGCCAGGGGCCTTGAAGAGT	0.562													7	54					0	0	1	0	0		T	48539648	T	T	48539648	3	4	27	1	0	0	0	0	1	0	0	0	175	739	26	2	629	2	ACSF2	17	48539648	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	81461	48539648	32655562	6963	29314											
CHAD	1101	broad.mit.edu	37	chr17	48542719	48542719	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagctgcggaaggcgtcCgtgtcacggatgtgctggcc	5	9	16	11	4	1	0	1	0	0	0	2	2	2	2	2	4	4	3	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48542719C>A	uc010dbr.2	-	3	1073	c.1020G>T	c.(1018-1020)ACG>ACT	p.T340T	ACSF2_uc002iqu.2_Intron|ACSF2_uc010wml.1_Intron|ACSF2_uc010wmm.1_Intron|ACSF2_uc010wmn.1_Intron|ACSF2_uc010wmo.1_Intron|CHAD_uc010dbs.2_Silent_p.T340T|ACSF2_uc010dbt.1_5'Flank	NM_001267	NP_001258	O15335	CHAD_HUMAN	chondroadherin precursor	340	LRRCT.				regulation of cell growth	proteinaceous extracellular matrix	extracellular matrix structural constituent			ovary(2)|central_nervous_system(1)	3	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			GGAAGGCGTCCGTGTCACGGA	0.602													4	51					0.00909568	0.0093211	1	1	0		A	48542719	A	A	48542719	2	1	27	1	0	0	0	0	0	0	0	1	3313	639	23	5		5	CHAD	17	48542719	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3071	48542719	32652491	6964	29315											
CHAD	1101	broad.mit.edu	37	chr17	48545855	48545855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcacgcggatgtcgttatggGacaggtacaagtagataagt	12	9	14	6	3	0	1	0	0	0	1	1	3	0	3	0	3	1	4	0	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48545855G>A	uc010dbr.2	-	1	373	c.320C>T	c.(319-321)TCC>TTC	p.S107F	ACSF2_uc002iqu.2_Intron|ACSF2_uc010wml.1_Intron|ACSF2_uc010wmm.1_Intron|ACSF2_uc010wmn.1_Intron|ACSF2_uc010wmo.1_Intron|CHAD_uc010dbs.2_Missense_Mutation_p.S107F|ACSF2_uc010dbt.1_Intron	NM_001267	NP_001258	O15335	CHAD_HUMAN	chondroadherin precursor	107	LRR 2.				regulation of cell growth	proteinaceous extracellular matrix	extracellular matrix structural constituent			ovary(2)|central_nervous_system(1)	3	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			GTCGTTATGGGACAGGTACAA	0.617													8	84					0	0	1	0	0		A	48545855	A	A	48545855	3	1	27	1	0	0	0	0	1	0	0	0	3313	1174	41	4	771	4	CHAD	17	48545855	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3136	48545855	32649355	6965	29316											
MYCBPAP	84073	broad.mit.edu	37	chr17	48603399	48603399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatgctgagctgttaccacGctttaggagccccatctccg	8	10	10	13	2	1	1	0	1	1	0	2	3	1	2	4	1	4	4	4	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48603399G>A	uc010wmr.1	+	14	2231	c.2069G>A	c.(2068-2070)CGC>CAC	p.R690H	MYCBPAP_uc002iqz.2_RNA	NM_032133	NP_115509	Q8TBZ2	MYBPP_HUMAN	Myc-binding protein-associated protein	653					cell differentiation|multicellular organismal development|spermatogenesis|synaptic transmission	cytoplasm|membrane	protein binding			urinary_tract(2)|skin(2)|ovary(1)|pancreas(1)	6	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;1.23e-09)			CTGTTACCACGCTTTAGGAGC	0.627													10	60					0	0	1	0	0		A	48603399	A	A	48603399	3	1	27	1	0	0	0	0	1	0	0	0	10037	1087	38	1	2123	1	MYCBPAP	17	48603399	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	57544	48603399	32591811	6966	29317											
SPATA20	64847	broad.mit.edu	37	chr17	48626681	48626681	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaccctgctagaaaataGccagcgtgtcaccactgccc	12	6	8	15	1	1	1	1	0	0	1	1	2	1	1	4	0	5	1	4	0	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48626681G>T	uc002irf.2	+	6	788	c.647G>T	c.(646-648)AGC>ATC	p.S216I	SPATA20_uc002irc.2_5'UTR|SPATA20_uc002ire.2_Missense_Mutation_p.S172I|SPATA20_uc002ird.2_Missense_Mutation_p.S232I|SPATA20_uc010wmv.1_Missense_Mutation_p.S242I|SPATA20_uc002irg.2_RNA	NM_022827	NP_073738	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	216					cell differentiation|mannose metabolic process|multicellular organismal development|spermatogenesis	extracellular region	mannose-6-phosphate isomerase activity|protein binding				0	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			CTAGAAAATAGCCAGCGTGTC	0.622													4	67					0.00024832	0.000261516	1	1	0		T	48626681	T	T	48626681	3	4	27	1	0	0	0	0	1	0	0	0	15031	971	34	5	721	5	SPATA20	17	48626681	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23282	48626681	32568529	6967	29318											
CACNA1G	8913	broad.mit.edu	37	chr17	48678434	48678434	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcctcctgtgtcaccggAtcatcacccacaagatgttc	8	10	7	16	2	3	1	3	0	0	1	6	2	5	2	5	1	0	1	5	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48678434A>G	uc002irk.1	+	19	4186	c.3814A>G	c.(3814-3816)ATC>GTC	p.I1272V	CACNA1G_uc002iri.1_Missense_Mutation_p.I1272V|CACNA1G_uc002irj.1_Missense_Mutation_p.I1249V|CACNA1G_uc002irl.1_Missense_Mutation_p.I1249V|CACNA1G_uc002irm.1_Missense_Mutation_p.I1249V|CACNA1G_uc002irn.1_Missense_Mutation_p.I1249V|CACNA1G_uc002iro.1_Missense_Mutation_p.I1249V|CACNA1G_uc002irp.1_Missense_Mutation_p.I1272V|CACNA1G_uc002irq.1_Missense_Mutation_p.I1249V|CACNA1G_uc002irr.1_Missense_Mutation_p.I1272V|CACNA1G_uc002irs.1_Missense_Mutation_p.I1272V|CACNA1G_uc002irt.1_Missense_Mutation_p.I1272V|CACNA1G_uc002irv.1_Missense_Mutation_p.I1272V|CACNA1G_uc002irw.1_Missense_Mutation_p.I1249V|CACNA1G_uc002iru.1_Missense_Mutation_p.I1249V|CACNA1G_uc002irx.1_Missense_Mutation_p.I1185V|CACNA1G_uc002iry.1_Missense_Mutation_p.I1185V|CACNA1G_uc002irz.1_Missense_Mutation_p.I1185V|CACNA1G_uc002isa.1_Missense_Mutation_p.I1185V|CACNA1G_uc002isb.1_Missense_Mutation_p.I1185V|CACNA1G_uc002isc.1_Missense_Mutation_p.I1185V|CACNA1G_uc002isd.1_Missense_Mutation_p.I1185V|CACNA1G_uc002ise.1_Missense_Mutation_p.I1185V|CACNA1G_uc002isf.1_Missense_Mutation_p.I1185V|CACNA1G_uc002isg.1_Missense_Mutation_p.I1185V|CACNA1G_uc002ish.1_Missense_Mutation_p.I1185V|CACNA1G_uc002isi.1_Missense_Mutation_p.I1162V|CACNA1G_uc002isj.2_5'UTR	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1272	Cytoplasmic (Potential).|III.				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GTGTCACCGGATCATCACCCA	0.627													9	105					0	0	1	0	0		G	48678434	G	G	48678434	3	3	27	1	0	0	0	0	1	0	0	0	2547	333	12	3	3888	3	CACNA1G	17	48678434	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	51753	48678434	32516776	6968	29319											
CACNA1G	8913	broad.mit.edu	37	chr17	48678461	48678461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacaagatgttcgaccacGtggtccttgtcatcatcttc	8	12	7	14	2	3	1	2	0	1	1	6	2	4	1	3	1	0	1	3	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48678461G>A	uc002irk.1	+	19	4213	c.3841G>A	c.(3841-3843)GTG>ATG	p.V1281M	CACNA1G_uc002iri.1_Missense_Mutation_p.V1281M|CACNA1G_uc002irj.1_Missense_Mutation_p.V1258M|CACNA1G_uc002irl.1_Missense_Mutation_p.V1258M|CACNA1G_uc002irm.1_Missense_Mutation_p.V1258M|CACNA1G_uc002irn.1_Missense_Mutation_p.V1258M|CACNA1G_uc002iro.1_Missense_Mutation_p.V1258M|CACNA1G_uc002irp.1_Missense_Mutation_p.V1281M|CACNA1G_uc002irq.1_Missense_Mutation_p.V1258M|CACNA1G_uc002irr.1_Missense_Mutation_p.V1281M|CACNA1G_uc002irs.1_Missense_Mutation_p.V1281M|CACNA1G_uc002irt.1_Missense_Mutation_p.V1281M|CACNA1G_uc002irv.1_Missense_Mutation_p.V1281M|CACNA1G_uc002irw.1_Missense_Mutation_p.V1258M|CACNA1G_uc002iru.1_Missense_Mutation_p.V1258M|CACNA1G_uc002irx.1_Missense_Mutation_p.V1194M|CACNA1G_uc002iry.1_Missense_Mutation_p.V1194M|CACNA1G_uc002irz.1_Missense_Mutation_p.V1194M|CACNA1G_uc002isa.1_Missense_Mutation_p.V1194M|CACNA1G_uc002isb.1_Missense_Mutation_p.V1194M|CACNA1G_uc002isc.1_Missense_Mutation_p.V1194M|CACNA1G_uc002isd.1_Missense_Mutation_p.V1194M|CACNA1G_uc002ise.1_Missense_Mutation_p.V1194M|CACNA1G_uc002isf.1_Missense_Mutation_p.V1194M|CACNA1G_uc002isg.1_Missense_Mutation_p.V1194M|CACNA1G_uc002ish.1_Missense_Mutation_p.V1194M|CACNA1G_uc002isi.1_Missense_Mutation_p.V1171M|CACNA1G_uc002isj.2_Missense_Mutation_p.V5M	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1281	III.|Helical; Name=S1 of repeat III; (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GTTCGACCACGTGGTCCTTGT	0.612													12	91					0	0	1	0	0		A	48678461	A	A	48678461	3	1	27	1	0	0	0	0	1	0	0	0	2547	1145	40	1	3915	1	CACNA1G	17	48678461	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27	48678461	32516749	6969	29320											
CACNA1G	8913	broad.mit.edu	37	chr17	48680184	48680184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcccctctcttgcaggaaCgcatcttcctgaccctctcc	5	11	5	20	1	3	1	0	1	3	0	7	2	5	2	6	1	2	2	6	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48680184C>T	uc002irk.1	+	20	4291	c.3919C>T	c.(3919-3921)CGC>TGC	p.R1307C	CACNA1G_uc002iri.1_Missense_Mutation_p.R1307C|CACNA1G_uc002irj.1_Missense_Mutation_p.R1284C|CACNA1G_uc002irl.1_Missense_Mutation_p.R1284C|CACNA1G_uc002irm.1_Missense_Mutation_p.R1284C|CACNA1G_uc002irn.1_Missense_Mutation_p.R1284C|CACNA1G_uc002iro.1_Missense_Mutation_p.R1284C|CACNA1G_uc002irp.1_Missense_Mutation_p.R1307C|CACNA1G_uc002irq.1_Missense_Mutation_p.R1284C|CACNA1G_uc002irr.1_Missense_Mutation_p.R1307C|CACNA1G_uc002irs.1_Missense_Mutation_p.R1307C|CACNA1G_uc002irt.1_Missense_Mutation_p.R1307C|CACNA1G_uc002irv.1_Missense_Mutation_p.R1307C|CACNA1G_uc002irw.1_Missense_Mutation_p.R1284C|CACNA1G_uc002iru.1_Missense_Mutation_p.R1284C|CACNA1G_uc002irx.1_Missense_Mutation_p.R1220C|CACNA1G_uc002iry.1_Missense_Mutation_p.R1220C|CACNA1G_uc002irz.1_Missense_Mutation_p.R1220C|CACNA1G_uc002isa.1_Missense_Mutation_p.R1220C|CACNA1G_uc002isb.1_Missense_Mutation_p.R1220C|CACNA1G_uc002isc.1_Missense_Mutation_p.R1220C|CACNA1G_uc002isd.1_Missense_Mutation_p.R1220C|CACNA1G_uc002ise.1_Missense_Mutation_p.R1220C|CACNA1G_uc002isf.1_Missense_Mutation_p.R1220C|CACNA1G_uc002isg.1_Missense_Mutation_p.R1220C|CACNA1G_uc002ish.1_Missense_Mutation_p.R1220C|CACNA1G_uc002isi.1_Missense_Mutation_p.R1197C|CACNA1G_uc002isj.2_Missense_Mutation_p.R31C	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1307	Extracellular (Potential).|III.				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	CTTGCAGGAACGCATCTTCCT	0.557													6	34					0	0	1	0	0		T	48680184	T	T	48680184	3	4	27	1	0	0	0	0	1	0	0	0	2547	536	19	1	3997	1	CACNA1G	17	48680184	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1723	48680184	32515026	6970	29321											
TOB1	10140	broad.mit.edu	37	chr17	48940379	48940379	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggaattgctggttagaatActgcatgttatttaagctaa	12	15	9	5	0	0	1	0	0	0	1	0	2	0	2	0	2	4	5	0	2	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:48940379A>G	uc002isw.2	-	1	1035	c.1000T>C	c.(1000-1002)TAT>CAT	p.Y334H	TOB1_uc010wmy.1_Missense_Mutation_p.Y334H|TOB1_uc010wmz.1_Missense_Mutation_p.Y334H	NM_005749	NP_005740	P50616	TOB1_HUMAN	transducer of ERBB2, 1	334					negative regulation of cell proliferation		SH3/SH2 adaptor activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			TGGTTAGAATACTGCATGTTA	0.378													11	82					0	0	1	0	0		G	48940379	G	G	48940379	3	3	27	1	0	0	0	0	1	0	0	0	16372	391	14	3	41	3	TOB1	17	48940379	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	260195	48940379	32254831	6971	29322											
SPAG9	9043	broad.mit.edu	37	chr17	49048098	49048098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgatgtagccctctcctcCactgatgacaagcatagact	10	10	8	13	1	1	3	0	2	1	1	4	4	2	3	3	0	2	2	3	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:49048098C>T	uc002itc.2	-	29	4029	c.3820G>A	c.(3820-3822)GGA>AGA	p.G1274R	SPAG9_uc002itb.2_Missense_Mutation_p.G1260R|SPAG9_uc002itd.2_Missense_Mutation_p.G1264R|SPAG9_uc002ita.2_Missense_Mutation_p.G1130R	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	1274					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			CCCTCTCCTCCACTGATGACA	0.507													13	55					0	0	1	0	0		T	49048098	T	T	49048098	3	4	27	1	0	0	0	0	1	0	0	0	15010	603	21	4	153	4	SPAG9	17	49048098	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	107719	49048098	32147112	6972	29323											
SPAG9	9043	broad.mit.edu	37	chr17	49048162	49048162	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgtgcagatggccctgcTttgtcacccgtcagatccgt	5	12	10	14	2	2	2	2	0	0	2	4	2	4	2	4	1	2	2	4	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:49048162T>C	uc002itc.2	-	29	3965	c.3756A>G	c.(3754-3756)AAA>AAG	p.K1252K	SPAG9_uc002itb.2_Silent_p.K1238K|SPAG9_uc002itd.2_Silent_p.K1242K|SPAG9_uc002ita.2_Silent_p.K1108K	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	1252					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			ATGGCCCTGCTTTGTCACCCG	0.483													3	75					0	0	1	0	0		C	49048162	C	C	49048162	2	2	27	1	0	0	0	0	0	0	0	1	15010	1606	56	3		3	SPAG9	17	49048162	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	64	49048162	32147048	6973	29324											
STXBP4	252983	broad.mit.edu	37	chr17	53108540	53108540	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttccaggctctaaattaTcttggtattcagcccacaaa	12	13	5	11	0	4	0	1	0	3	0	5	0	5	0	2	2	1	2	2	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:53108540T>A	uc002iuf.1	+	9	885	c.678T>A	c.(676-678)TAT>TAA	p.Y226*	STXBP4_uc010dcc.1_Nonsense_Mutation_p.Y151*|STXBP4_uc010dcd.1_Nonsense_Mutation_p.Y226*	NM_178509	NP_848604	Q6ZWJ1	STXB4_HUMAN	syntaxin binding protein 4	226						cytoplasm	calcium ion binding			ovary(1)	1						CTCTAAATTATCTTGGTATTC	0.368													3	35					0	0	1	0	0		A	53108540	A	A	53108540	4	1	27	1	0	0	0	0	0	1	0	0	15380	1442	50	5	704	5	STXBP4	17	53108540	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4060378	53108540	28086670	6974	29325											
HLF	3131	broad.mit.edu	37	chr17	53392616	53392616	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccagcaaaccgcaatacAccaagtcccattgatcctga	13	8	6	14	1	0	2	0	2	0	0	2	2	2	2	5	0	4	2	5	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:53392616A>G	uc002iug.1	+	3	1005	c.480A>G	c.(478-480)ACA>ACG	p.T160T	HLF_uc010dce.1_Silent_p.T75T|HLF_uc002iuh.2_Silent_p.T75T|HLF_uc010wni.1_Silent_p.T107T	NM_002126	NP_002117	Q16534	HLF_HUMAN	hepatic leukemia factor	160	Pro-rich (proline/acidic region (PAR)).				multicellular organismal development|rhythmic process|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						ACCGCAATACACCAAGTCCCA	0.512			T	TCF3	ALL								14	124					0	0	1	0	0		G	53392616	G	G	53392616	2	3	27	1	0	0	0	0	0	0	0	1	7230	146	6	3		3	HLF	17	53392616	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	284076	53392616	27802594	6975	29326											
MMD	23531	broad.mit.edu	37	chr17	53478860	53478860	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaccaaggctggagagaaTcccattgtgagatagaaaaa	17	6	10	8	0	0	3	0	1	0	3	1	6	1	4	3	2	0	1	3	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:53478860T>A	uc002iui.2	-	6	771	c.486A>T	c.(484-486)GGA>GGT	p.G162G		NM_012329	NP_036461	Q15546	PAQRB_HUMAN	monocyte to macrophage	162	Helical; (Potential).				cytolysis	integral to plasma membrane|late endosome membrane|lysosomal membrane|membrane fraction	receptor activity				0						CTGGAGAGAATCCCATTGTGA	0.333													12	53					0	0	1	0	0		A	53478860	A	A	53478860	2	1	27	1	0	0	0	0	0	0	0	1	9661	1422	50	5		5	MMD	17	53478860	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	86244	53478860	27716350	6976	29327											
ANKFN1	162282	broad.mit.edu	37	chr17	54450156	54450156	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaaagcttgggagtggAggtatcggctctacagacgc	10	8	15	8	2	1	2	0	1	1	1	2	4	1	4	0	4	3	4	0	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:54450156A>G	uc002iun.1	+	6	795	c.760A>G	c.(760-762)AGG>GGG	p.R254G		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	254										large_intestine(1)|ovary(1)	2						TTGGGAGTGGAGGTATCGGCT	0.488													11	121					0	0	1	0	0		G	54450156	G	G	54450156	3	3	27	1	0	0	0	0	1	0	0	0	625	295	11	3	782	3	ANKFN1	17	54450156	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	971296	54450156	26745054	6977	29328											
TRIM25	7706	broad.mit.edu	37	chr17	54981649	54981649	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aactcatccctcttggtcagGctctgttcaatctcctcctt	6	15	5	15	0	6	0	3	0	3	0	9	0	8	0	3	2	1	2	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:54981649G>T	uc002iut.2	-	3	954	c.894C>A	c.(892-894)AGC>AGA	p.S298R	TRIM25_uc010dcj.2_Missense_Mutation_p.S90R	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25	298	Interaction with influenza A virus NS1.|Potential.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)					TCTTGGTCAGGCTCTGTTCAA	0.433													9	190					1.12685e-05	1.21022e-05	1	1	0		T	54981649	T	T	54981649	3	4	27	1	0	0	0	0	1	0	0	0	16525	1194	42	5	1026	5	TRIM25	17	54981649	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	531493	54981649	26213561	6978	29329											
EPX	8288	broad.mit.edu	37	chr17	56276948	56276948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggttctgggcaaggcccggGccaggagaaccctggggcac	7	5	17	12	1	1	1	0	0	1	1	1	2	1	1	3	7	1	3	3	7	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:56276948G>A	uc002ivq.2	+	9	1416	c.1330G>A	c.(1330-1332)GCC>ACC	p.A444T		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	444					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						CAAGGCCCGGGCCAGGAGAAC	0.597													6	63					0	0	1	0	0		A	56276948	A	A	56276948	3	1	27	1	0	0	0	0	1	0	0	0	5208	1203	42	2	1364	2	EPX	17	56276948	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1295299	56276948	24918262	6979	29330											
MKS1	54903	broad.mit.edu	37	chr17	56284448	56284448	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaagacaaaagtcacctTgaaggatcctggtatccgta	14	9	8	10	1	1	2	1	1	0	1	4	3	4	3	4	2	0	2	4	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:56284448T>C	uc002ivr.1	-	15	1480	c.1405A>G	c.(1405-1407)AAG>GAG	p.K469E	MKS1_uc010wnq.1_Missense_Mutation_p.K266E|MKS1_uc002ivs.1_Intron	NM_017777	NP_060247	Q9NXB0	MKS1_HUMAN	Meckel syndrome type 1 protein isoform 1	469					cilium assembly	centrosome|cilium|microtubule basal body	protein binding			ovary(1)	1						AAAGTCACCTTGAAGGATCCT	0.517													5	68					0	0	1	0	0		C	56284448	C	C	56284448	3	2	27	1	0	0	0	0	1	0	0	0	9627	1821	63	3	290	3	MKS1	17	56284448	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7500	56284448	24910762	6980	29331											
RNF43	54894	broad.mit.edu	37	chr17	56439908	56439908	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccccacactgctcaccggCctgctgtggcgggggcggca	5	5	15	16	3	1	0	1	0	0	0	1	1	1	0	4	5	2	3	4	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:56439908C>T	uc002iwf.2	-	5	2640	c.684G>A	c.(682-684)AGG>AGA	p.R228R	RNF43_uc010wnv.1_Silent_p.R187R|RNF43_uc002iwh.3_Silent_p.R228R|RNF43_uc002iwg.3_Silent_p.R228R|RNF43_uc010dcw.2_Silent_p.R101R	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	228	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGCTCACCGGCCTGCTGTGGC	0.582													5	64					0	0	1	0	0		T	56439908	T	T	56439908	2	4	27	1	0	0	0	0	0	0	0	1	13520	738	26	2		2	RNF43	17	56439908	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	155460	56439908	24755302	6981	29332											
HSF5	124535	broad.mit.edu	37	chr17	56540625	56540625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actgcagggccaattggaagGcaaaaattcaactggatagg	15	7	12	7	0	1	0	1	0	0	0	1	2	1	2	1	5	2	2	1	5	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:56540625G>A	uc002iwi.1	-	4	1184	c.1060C>T	c.(1060-1062)CCT>TCT	p.P354S		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	354						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CAATTGGAAGGCAAAAATTCA	0.368													14	111					0	0	1	0	0		A	56540625	A	A	56540625	3	1	27	1	0	0	0	0	1	0	0	0	7415	1203	42	2	742	2	HSF5	17	56540625	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	100717	56540625	24654585	6982	29333											
HSF5	124535	broad.mit.edu	37	chr17	56565215	56565215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcagggcacctccaggcCggccgccagcttggccttgt	4	6	15	16	3	0	0	0	0	0	0	1	0	1	0	6	5	1	3	6	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:56565215C>T	uc002iwi.1	-	1	545	c.421G>A	c.(421-423)GGC>AGC	p.G141S		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	141	By similarity.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					ACCTCCAGGCCGGCCGCCAGC	0.677													6	26					0	0	1	0	0		T	56565215	T	T	56565215	3	4	27	1	0	0	0	0	1	0	0	0	7415	652	23	1	1393	1	HSF5	17	56565215	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	24590	56565215	24629995	6983	29334											
HSF5	124535	broad.mit.edu	37	chr17	56565535	56565535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taagcagcccctcgccgcggCcgtcccagcggatggagcgg	6	4	15	16	6	0	0	0	0	0	0	2	2	1	2	5	4	4	1	5	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:56565535C>T	uc002iwi.1	-	1	225	c.101G>A	c.(100-102)GGC>GAC	p.G34D		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	34	By similarity.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CTCGCCGCGGCCGTCCCAGCG	0.517													3	24					0	0	1	0	0		T	56565535	T	T	56565535	3	4	27	1	0	0	0	0	1	0	0	0	7415	739	26	2	1713	2	HSF5	17	56565535	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	320	56565535	24629675	6984	29335											
MTMR4	9110	broad.mit.edu	37	chr17	56582887	56582887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtactgaaagctgttcCggatggcatggatgttggcc	8	10	16	7	1	0	1	0	1	0	0	1	4	1	4	2	6	2	5	2	6	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:56582887C>T	uc002iwj.2	-	11	1159	c.1049G>A	c.(1048-1050)CGG>CAG	p.R350Q		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	350	Myotubularin phosphatase.					cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AAAGCTGTTCCGGATGGCATG	0.507													14	86					0	0	1	0	0		T	56582887	T	T	56582887	3	4	27	1	0	0	0	0	1	0	0	0	9964	652	23	1	2574	1	MTMR4	17	56582887	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17352	56582887	24612323	6985	29336											
SEPT4	5414	broad.mit.edu	37	chr17	56598409	56598409	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgctctggatgcactgTgcccggtagttctcataatg	7	13	11	10	1	3	0	2	0	2	0	4	1	3	1	1	2	3	4	1	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:56598409T>C	uc002iwm.1	-	10	1355	c.1227A>G	c.(1225-1227)GCA>GCG	p.A409A	SEPT4_uc002iwk.1_Silent_p.A262A|SEPT4_uc010wnw.1_Silent_p.A262A|SEPT4_uc002iwl.1_Silent_p.A262A|SEPT4_uc002iwn.1_Silent_p.A310A|SEPT4_uc002iwo.1_Silent_p.A390A|SEPT4_uc002iwp.1_3'UTR|SEPT4_uc010wnx.1_Silent_p.A424A|SEPT4_uc010wny.1_Silent_p.A401A|SEPT4_uc010dcy.1_3'UTR	NM_004574	NP_004565	O43236	SEPT4_HUMAN	septin 4 isoform 1	409					apoptosis|cell cycle|cytokinesis|regulation of apoptosis	cytoskeleton|mitochondrion|nucleus	GTP binding|GTPase activity|protein binding|structural molecule activity				0	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GGATGCACTGTGCCCGGTAGT	0.557											OREG0024614	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	118					0	0	1	0	0		C	56598409	C	C	56598409	2	2	27	1	0	0	0	0	0	0	0	1	14091	1683	59	3		3	SEPT4	17	56598409	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	15522	56598409	24596801	6986	29337											
SEPT4	5414	broad.mit.edu	37	chr17	56604289	56604289	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcctgagaaatccttcacGaacttgctcagttctccatc	9	14	5	13	1	3	1	2	1	1	1	7	3	5	1	3	0	2	2	3	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:56604289G>A	uc002iwm.1	-	2	239	c.111C>T	c.(109-111)TTC>TTT	p.F37F	SEPT4_uc002iwk.1_5'UTR|SEPT4_uc010wnw.1_5'UTR|SEPT4_uc002iwl.1_5'UTR|SEPT4_uc002iwn.1_Intron|SEPT4_uc002iwo.1_Silent_p.F18F|SEPT4_uc002iwp.1_Silent_p.F18F|SEPT4_uc010wnx.1_Silent_p.F52F|SEPT4_uc010wny.1_Silent_p.F29F|SEPT4_uc010dcy.1_Intron	NM_004574	NP_004565	O43236	SEPT4_HUMAN	septin 4 isoform 1	37					apoptosis|cell cycle|cytokinesis|regulation of apoptosis	cytoskeleton|mitochondrion|nucleus	GTP binding|GTPase activity|protein binding|structural molecule activity				0	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AATCCTTCACGAACTTGCTCA	0.577													35	118					0	0	1	0	0		A	56604289	A	A	56604289	2	1	27	1	0	0	0	0	0	0	0	1	14091	1049	37	1		1	SEPT4	17	56604289	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5880	56604289	24590921	6987	29338											
TEX14	56155	broad.mit.edu	37	chr17	56692669	56692669	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggtgggtggggagattcaGctctttcactgtgaccctgc	5	12	15	9	0	3	2	2	1	1	1	3	3	3	2	1	4	2	1	1	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:56692669G>T	uc010dcz.1	-	8	941	c.823C>A	c.(823-825)CTG>ATG	p.L275M	TEX14_uc002iwr.1_Missense_Mutation_p.L269M|TEX14_uc002iws.1_Missense_Mutation_p.L269M|TEX14_uc010dda.1_Missense_Mutation_p.L49M	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	275	Protein kinase.					cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GGGAGATTCAGCTCTTTCACT	0.547													5	84					0.00116845	0.00121513	1	1	0		T	56692669	T	T	56692669	3	4	27	1	0	0	0	0	1	0	0	0	15803	962	34	5	3774	5	TEX14	17	56692669	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	88380	56692669	24502541	6988	29339											
TRIM37	4591	broad.mit.edu	37	chr17	57125059	57125059	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcacatagtttcttcatcaAtatcattttcttctgtatta	10	20	2	9	0	7	0	4	0	3	0	7	0	7	0	0	0	0	2	0	0	5	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:57125059A>G	uc002iwy.3	-	16	2096	c.1652T>C	c.(1651-1653)ATT>ACT	p.I551T	TRIM37_uc002iwz.3_Missense_Mutation_p.I551T|TRIM37_uc002ixa.3_Missense_Mutation_p.I429T|TRIM37_uc010woc.1_Missense_Mutation_p.I517T	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	551						perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TTCTTCATCAATATCATTTTC	0.358									Mulibrey_Nanism				5	19					0	0	1	0	0		G	57125059	G	G	57125059	3	3	27	1	0	0	0	0	1	0	0	0	16537	101	4	3	1286	3	TRIM37	17	57125059	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	432390	57125059	24070151	6989	29340											
SKA2	348235	broad.mit.edu	37	chr17	57196750	57196750	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagtagcacaaatgcggCtcttactctctttctgctca	9	13	6	13	1	5	0	2	0	3	0	6	0	5	0	0	1	4	4	0	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:57196750C>G	uc002ixd.2	-	3	503	c.227G>C	c.(226-228)AGC>ACC	p.S76T	SKA2_uc002ixc.2_RNA|SKA2_uc010dde.1_Intron|SKA2_uc002ixe.2_Intron	NM_182620	NP_872426	Q8WVK7	SKA2_HUMAN	spindle and KT associated 2 isoform 1	76					cell division|chromosome segregation|mitotic anaphase|mitotic prometaphase|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytosol|spindle microtubule	microtubule binding				0						ACAAATGCGGCTCTTACTCTC	0.388													14	109					0	0	1	0	0		G	57196750	G	G	57196750	3	3	27	1	0	0	0	0	1	0	0	0	14378	797	28	5	146	5	SKA2	17	57196750	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	71691	57196750	23998460	6990	29341											
C17orf71	55181	broad.mit.edu	37	chr17	57288871	57288871	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagtattaaagtcttggaaGgatttttggatattgacaca	13	14	10	4	0	1	1	0	1	1	0	1	4	1	4	0	3	0	2	0	3	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:57288871G>T	uc002ixi.2	+	1	1501	c.1459G>T	c.(1459-1461)GGA>TGA	p.G487*		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	487					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					AGTCTTGGAAGGATTTTTGGA	0.408													8	62					0.000274275	0.000288501	1	1	0		T	57288871	T	T	57288871	4	4	27	1	0	0	0	0	0	1	0	0	1881	1001	35	5	1461	5	C17orf71	17	57288871	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	92121	57288871	23906339	6991	29342											
DHX40	79665	broad.mit.edu	37	chr17	57684404	57684404	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgttttcagatggaatatcGaaagacgtcttaaagaaaat	17	12	8	4	2	2	3	1	0	1	3	3	5	2	4	0	1	0	1	0	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:57684404G>A	uc002ixn.1	+	18	2358	c.2211G>A	c.(2209-2211)TCG>TCA	p.S737S	DHX40_uc010woe.1_Silent_p.S660S|DHX40_uc010wof.1_Silent_p.S252S	NM_024612	NP_078888	Q8IX18	DHX40_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 40	737							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					ATGGAATATCGAAAGACGTCT	0.373													3	55					0	0	1	0	0		A	57684404	A	A	57684404	2	1	27	1	0	0	0	0	0	0	0	1	4518	1045	37	1		1	DHX40	17	57684404	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	395533	57684404	23510806	6992	29343											
CLTC	1213	broad.mit.edu	37	chr17	57762469	57762469	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgacaatatctcgcttgCtcagcgtttggaaaaacatg	11	13	8	9	2	2	1	1	1	1	0	3	2	2	2	0	1	3	3	0	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:57762469C>A	uc002ixq.1	+	29	4930	c.4487C>A	c.(4486-4488)GCT>GAT	p.A1496D	CLTC_uc002ixp.2_Missense_Mutation_p.A1496D|CLTC_uc002ixr.1_Missense_Mutation_p.A1500D	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	1496	Heavy chain arm.|Proximal segment.|Involved in binding clathrin light chain (By similarity).				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					ATCTCGCTTGCTCAGCGTTTG	0.393			T	ALK|TFE3	ALCL|renal 								8	136					0.000157383	0.000166242	1	1	0		A	57762469	A	A	57762469	3	1	27	1	0	0	0	0	1	0	0	0	3569	797	28	5	4601	5	CLTC	17	57762469	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	78065	57762469	23432741	6993	29344											
TUBD1	51174	broad.mit.edu	37	chr17	57955509	57955509	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagctttctgcagaataagTaggctggaacacacttccca	12	10	9	10	0	1	2	0	1	1	1	2	3	2	3	1	2	3	4	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:57955509T>A	uc002ixw.1	-	5	1002	c.724A>T	c.(724-726)ACT>TCT	p.T242S	TUBD1_uc010ddf.1_Missense_Mutation_p.T242S|TUBD1_uc010ddg.1_Missense_Mutation_p.T207S|TUBD1_uc010ddh.1_Missense_Mutation_p.T123S|TUBD1_uc010wok.1_Missense_Mutation_p.T242S|TUBD1_uc002ixx.1_Missense_Mutation_p.T242S|TUBD1_uc010wol.1_Missense_Mutation_p.T26S|TUBD1_uc010ddi.1_Intron	NM_016261	NP_057345	Q9UJT1	TBD_HUMAN	delta-tubulin	242					cell differentiation|microtubule-based movement|multicellular organismal development|protein polymerization|spermatogenesis	centriole|microtubule|nucleus	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1	all_cancers(5;3.18e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;9.34e-13)|all cancers(12;1.91e-11)			GCAGAATAAGTAGGCTGGAAC	0.398													4	56					0	0	1	0	0		A	57955509	A	A	57955509	3	1	27	1	0	0	0	0	1	0	0	0	16788	1638	57	5	657	5	TUBD1	17	57955509	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	193040	57955509	23239701	6994	29345											
CA4	762	broad.mit.edu	37	chr17	58233921	58233921	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttctctccctgctcagTgccagtcaagtggggtggaa	7	10	11	13	0	3	0	2	0	1	0	5	1	4	1	3	3	2	1	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:58233921T>C	uc002iym.3	+	3	207	c.113T>C	c.(112-114)GTG>GCG	p.V38A	CA4_uc010wou.1_RNA	NM_000717	NP_000708	P22748	CAH4_HUMAN	carbonic anhydrase IV precursor	38					bicarbonate transport|one-carbon metabolic process	anchored to external side of plasma membrane|apical plasma membrane|brush border membrane|ER-Golgi intermediate compartment|membrane fraction|perinuclear region of cytoplasm|rough endoplasmic reticulum|secretory granule membrane|trans-Golgi network|transport vesicle membrane	carbonate dehydratase activity|protein binding|zinc ion binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.83e-12)|all cancers(12;6.83e-11)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Topiramate(DB00273)|Trichlormethiazide(DB01021)	CCCTGCTCAGTGCCAGTCAAG	0.597													10	63					0	0	1	0	0		C	58233921	C	C	58233921	3	2	27	1	0	0	0	0	1	0	0	0	2521	1710	59	3	123	3	CA4	17	58233921	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	278412	58233921	22961289	6995	29346											
PPM1D	8493	broad.mit.edu	37	chr17	58740868	58740868	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggccagaagaaaattggAaatcctttacttcatcaaca	16	9	8	8	0	2	2	2	0	0	2	3	3	3	3	2	3	2	0	2	3	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:58740868A>G	uc002iyt.1	+	6	1995	c.1773A>G	c.(1771-1773)GGA>GGG	p.G591G	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	591					negative regulation of cell proliferation|protein dephosphorylation|response to radiation	nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein binding|protein serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)			AGAAAATTGGAAATCCTTTAC	0.433											OREG0031485	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	3	51					0	0	1	0	0		G	58740868	G	G	58740868	2	3	27	1	0	0	0	0	0	0	0	1	12359	233	9	3		3	PPM1D	17	58740868	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	506947	58740868	22454342	6996	29347											
BCAS3	54828	broad.mit.edu	37	chr17	58952026	58952026	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctctctctaattttaggatCcttgtcgtagtcttgcagga	7	17	8	9	1	3	0	0	0	3	0	7	2	4	2	1	2	1	2	1	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:58952026C>T	uc002iyv.3	+	9	697	c.588C>T	c.(586-588)ATC>ATT	p.I196I	BCAS3_uc010wow.1_Intron|BCAS3_uc002iyu.3_Silent_p.I196I|BCAS3_uc002iyw.3_Silent_p.I192I	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	196						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			ATTTTAGGATCCTTGTCGTAG	0.318													14	45					0	0	1	0	0		T	58952026	T	T	58952026	2	4	27	1	0	0	0	0	0	0	0	1	1353	845	30	4		4	BCAS3	17	58952026	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	211158	58952026	22243184	6997	29348											
BCAS3	54828	broad.mit.edu	37	chr17	58967097	58967097	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacatgaatcctattgctCttgggagccgctggcttgct	8	12	10	11	1	1	1	0	1	1	0	2	2	2	2	2	2	4	4	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:58967097C>A	uc002iyv.3	+	10	812	c.703C>A	c.(703-705)CTT>ATT	p.L235I	BCAS3_uc010wow.1_Intron|BCAS3_uc002iyu.3_Missense_Mutation_p.L235I|BCAS3_uc002iyw.3_Missense_Mutation_p.L231I|BCAS3_uc002iyx.1_Missense_Mutation_p.L50I|BCAS3_uc002iyy.3_Missense_Mutation_p.L6I	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	235						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			TCCTATTGCTCTTGGGAGCCG	0.398													9	124					1.76689e-08	1.94149e-08	1	1	0		A	58967097	A	A	58967097	3	1	27	1	0	0	0	0	1	0	0	0	1353	913	32	5	737	5	BCAS3	17	58967097	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15071	58967097	22228113	6998	29349											
TBX2	6909	broad.mit.edu	37	chr17	59480452	59480452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actccatgcacaagtaccagCcgcgcttccacatagtgcga	11	7	8	15	3	0	0	0	0	0	0	2	1	2	0	4	0	4	3	4	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:59480452C>T	uc010wox.1	+	3	975	c.694C>T	c.(694-696)CCG>TCG	p.P232S	TBX2_uc002ize.2_Missense_Mutation_p.P222S|TBX2_uc002izg.2_Missense_Mutation_p.P78S	NM_005994	NP_005985	Q13207	TBX2_HUMAN	T-box 2	232	T-box.				cell aging|positive regulation of cell proliferation		sequence-specific DNA binding				0						CAAGTACCAGCCGCGCTTCCA	0.607													20	73					0	0	1	0	0		T	59480452	T	T	59480452	3	4	27	1	0	0	0	0	1	0	0	0	15680	739	26	2	704	2	TBX2	17	59480452	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	513355	59480452	21714758	6999	29350											
TBX4	9496	broad.mit.edu	37	chr17	59560379	59560379	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagcaaatgctgagcccCtcctactgcagtgaggtgac	10	7	11	13	0	0	3	0	3	0	0	1	4	1	3	4	1	5	3	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:59560379C>T	uc002izi.2	+	8	1185	c.1140C>T	c.(1138-1140)CCC>CCT	p.P380P	TBX4_uc010ddo.2_Silent_p.P381P|TBX4_uc010woy.1_Silent_p.P381P	NM_018488	NP_060958	P57082	TBX4_HUMAN	T-box 4	380					leg morphogenesis|skeletal system morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						TGCTGAGCCCCTCCTACTGCA	0.602													6	36					0	0	1	0	0		T	59560379	T	T	59560379	2	4	27	1	0	0	0	0	0	0	0	1	15685	668	24	4		4	TBX4	17	59560379	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	79927	59560379	21634831	7000	29351											
NACA2	342538	broad.mit.edu	37	chr17	59668358	59668358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttgctttaccgactggttCttcatcaatttcagctgctg	6	18	7	10	1	4	0	3	0	1	0	4	1	4	0	1	1	4	4	1	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:59668358C>T	uc002izj.2	-	1	210	c.184G>A	c.(184-186)GAA>AAA	p.E62K		NM_199290	NP_954984	Q9H009	NACA2_HUMAN	nascent-polypeptide-associated complex alpha	62					protein transport	cytoplasm|nucleus				ovary(1)	1	all_epithelial(1;3.12e-14)					CCGACTGGTTCTTCATCAATT	0.483													5	171					0	0	1	0	0		T	59668358	T	T	59668358	3	4	27	1	0	0	0	0	1	0	0	0	10152	922	32	4	467	4	NACA2	17	59668358	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	107979	59668358	21526852	7001	29352											
TLK2	11011	broad.mit.edu	37	chr17	60678155	60678155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttaaatgaaataaaacctcCcatcatacactatgacctca	17	10	2	12	0	2	2	2	2	0	0	3	2	3	2	3	0	2	0	3	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:60678155C>T	uc010ddp.2	+	19	2028	c.1760C>T	c.(1759-1761)CCC>CTC	p.P587L	TLK2_uc002izx.3_Missense_Mutation_p.P413L|TLK2_uc002izz.3_Missense_Mutation_p.P565L|TLK2_uc002jaa.3_Missense_Mutation_p.P533L|TLK2_uc010wpd.1_Missense_Mutation_p.P533L	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	587	Protein kinase.				cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						ATAAAACCTCCCATCATACAC	0.353													5	56					0	0	1	0	0		T	60678155	T	T	60678155	3	4	27	1	0	0	0	0	1	0	0	0	15969	623	22	4	1760	4	TLK2	17	60678155	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1009797	60678155	20517055	7002	29353											
MRC2	9902	broad.mit.edu	37	chr17	60757577	60757577	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcacgacgacgacgacaTccgaggctgtgcggtgctgg	7	5	16	13	7	0	0	0	0	0	0	1	5	1	0	2	4	2	3	2	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:60757577T>A	uc002jad.2	+	15	2747	c.2345T>A	c.(2344-2346)ATC>AAC	p.I782N	MRC2_uc010ddq.1_RNA|MRC2_uc002jae.2_5'Flank|MRC2_uc002jaf.2_5'Flank	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	782	Extracellular (Potential).|C-type lectin 4.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GACGACGACATCCGAGGCTGT	0.647													4	33					0	0	1	0	0		A	60757577	A	A	60757577	3	1	27	1	0	0	0	0	1	0	0	0	9776	1435	50	5	2403	5	MRC2	17	60757577	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	79422	60757577	20437633	7003	29354											
MARCH10	162333	broad.mit.edu	37	chr17	60802447	60802447	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaagtctccctcctcctcGgagtcctcctccaggagact	7	9	7	18	1	1	1	0	0	1	1	8	3	6	2	6	2	0	0	6	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:60802447G>A	uc010ddr.2	-	7	2194	c.1956C>T	c.(1954-1956)TCC>TCT	p.S652S	MARCH10_uc002jag.3_Silent_p.S652S|MARCH10_uc010dds.2_Silent_p.S690S|MARCH10_uc002jah.2_Silent_p.S651S|uc002jaj.1_Intron|uc002jak.2_Intron	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	652	RING-CH-type.						ligase activity|zinc ion binding				0						CCTCCTCCTCGGAGTCCTCCT	0.557													9	64					0	0	1	0	0		A	60802447	A	A	60802447	2	1	27	1	0	0	0	0	0	0	0	1	9317	1103	39	1		1	MARCH10	17	60802447	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	44870	60802447	20392763	7004	29355											
TANC2	26115	broad.mit.edu	37	chr17	61473221	61473221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatggccggccagcagcaaGgagtatttaagaagagccat	13	6	13	9	2	0	2	0	0	0	2	0	4	0	3	3	3	3	3	3	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:61473221G>A	uc002jal.3	+	16	2970	c.2947G>A	c.(2947-2949)GGA>AGA	p.G983R	TANC2_uc010wpe.1_Missense_Mutation_p.G893R|TANC2_uc002jan.1_Missense_Mutation_p.G134R|TANC2_uc002jao.3_Missense_Mutation_p.G84R	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	983							binding			ovary(2)	2						CCAGCAGCAAGGAGTATTTAA	0.493													3	18					0	0	1	0	0		A	61473221	A	A	61473221	3	1	27	1	0	0	0	0	1	0	0	0	15570	1001	35	4	3009	4	TANC2	17	61473221	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	670774	61473221	19721989	7005	29356											
ACE	1636	broad.mit.edu	37	chr17	61561282	61561282	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcaggctatgagggcccActgcaccagtgtgacatcta	10	7	13	11	0	1	2	0	2	1	0	1	3	1	2	2	3	1	3	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:61561282A>G	uc002jau.1	+	11	1681	c.1659A>G	c.(1657-1659)CCA>CCG	p.P553P	ACE_uc010ddu.1_Silent_p.P370P|ACE_uc002jav.1_5'Flank|ACE_uc010ddv.1_5'Flank|ACE_uc010wpj.1_5'Flank|ACE_uc002jaw.1_5'Flank|ACE_uc010wpk.1_5'Flank	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	553	Extracellular (Potential).|Peptidase M2 1.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	ATGAGGGCCCACTGCACCAGT	0.617													7	44					0	0	1	0	0		G	61561282	G	G	61561282	2	3	27	1	0	0	0	0	0	0	0	1	136	146	6	3		3	ACE	17	61561282	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	88061	61561282	19633928	7006	29357											
KCNH6	81033	broad.mit.edu	37	chr17	61611428	61611428	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctgctcagcgatcaggAcgaatcacggcgtggggcct	7	8	13	13	4	3	0	3	0	0	0	4	3	4	1	2	4	2	1	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:61611428A>G	uc002jay.2	+	5	937	c.857A>G	c.(856-858)GAC>GGC	p.D286G	KCNH6_uc002jax.1_Missense_Mutation_p.D286G|KCNH6_uc010wpl.1_Missense_Mutation_p.D163G|KCNH6_uc010wpm.1_Missense_Mutation_p.D286G|KCNH6_uc002jaz.1_Missense_Mutation_p.D286G	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	286	Extracellular (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	AGCGATCAGGACGAATCACGG	0.587													8	88					0	0	1	0	0		G	61611428	G	G	61611428	3	3	27	1	0	0	0	0	1	0	0	0	8052	275	10	3	875	3	KCNH6	17	61611428	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	50146	61611428	19583782	7007	29358											
DCAF7	10238	broad.mit.edu	37	chr17	61628105	61628105	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggacagtctacgcgatgAactggagtgtgcggcccgat	8	8	14	11	4	1	1	0	1	1	0	1	5	1	3	2	3	3	0	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:61628105A>T	uc002jbc.2	+	1	284	c.67A>T	c.(67-69)AAC>TAC	p.N23Y	DCAF7_uc002jbb.2_RNA|DCAF7_uc010wpn.1_Missense_Mutation_p.N23Y	NM_005828	NP_005819	P61962	DCAF7_HUMAN	WD-repeat protein	23					multicellular organismal development	CUL4 RING ubiquitin ligase complex|cytoplasm|nucleus	protein binding			ovary(1)	1						CTACGCGATGAACTGGAGTGT	0.632													6	69					0	0	1	0	0		T	61628105	T	T	61628105	3	4	27	1	0	0	0	0	1	0	0	0	4278	246	9	5	69	5	DCAF7	17	61628105	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	16677	61628105	19567105	7008	29359											
FTSJ3	117246	broad.mit.edu	37	chr17	61902762	61902762	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccacgggccaaaaagtcAcaagccaaacgtagagccat	16	3	8	14	2	1	1	1	0	0	1	1	1	1	1	5	1	3	1	5	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:61902762A>G	uc002jbz.2	-	6	513	c.435T>C	c.(433-435)TGT>TGC	p.C145C	FTSJ3_uc002jca.2_Silent_p.C145C|PSMC5_uc002jcb.2_5'Flank|PSMC5_uc010ddy.2_5'Flank|PSMC5_uc010ddz.2_5'Flank|PSMC5_uc002jcc.2_5'Flank|PSMC5_uc002jcd.2_5'Flank	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	145					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						CCAAAAAGTCACAAGCCAAAC	0.537													5	67					0	0	1	0	0		G	61902762	G	G	61902762	2	3	27	1	0	0	0	0	0	0	0	1	6103	157	6	3		3	FTSJ3	17	61902762	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	274657	61902762	19292448	7009	29360											
SMARCD2	6603	broad.mit.edu	37	chr17	61914568	61914568	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacttactcgctgaggtagaAccttatctgccatcttcctc	8	13	6	14	1	2	2	0	1	2	1	5	2	3	2	3	1	3	2	3	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:61914568A>G	uc010deb.1	-	3	748	c.431T>C	c.(430-432)GTT>GCT	p.V144A	SMARCD2_uc010wpt.1_Missense_Mutation_p.V96A|SMARCD2_uc010dea.1_Missense_Mutation_p.V69A|SMARCD2_uc010dec.1_Missense_Mutation_p.V123A	NM_001098426	NP_001091896	Q92925	SMRD2_HUMAN	SWI/SNF-related matrix-associated	144					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	SWI/SNF complex	protein binding|transcription coactivator activity				0						CTGAGGTAGAACCTTATCTGC	0.547													6	45					0	0	1	0	0		G	61914568	G	G	61914568	3	3	27	1	0	0	0	0	1	0	0	0	14803	43	2	3	1208	3	SMARCD2	17	61914568	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11806	61914568	19280642	7010	29361											
ERN1	2081	broad.mit.edu	37	chr17	62135346	62135346	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaagtctggtcaaccaggTtgataaccttgcatgggaga	11	10	12	8	0	2	3	1	2	1	1	2	4	2	3	2	3	3	2	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:62135346T>C	uc002jdz.2	-	12	1327	c.1214A>G	c.(1213-1215)AAC>AGC	p.N405S		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	405	Lumenal (Potential).				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						GTCAACCAGGTTGATAACCTT	0.532													4	8					0	0	1	0	0		C	62135346	C	C	62135346	3	2	27	1	0	0	0	0	1	0	0	0	5245	1725	60	3	1763	3	ERN1	17	62135346	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	220778	62135346	19059864	7011	29362											
TEX2	55852	broad.mit.edu	37	chr17	62290313	62290313	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaatcgaagtcctcagtgTacagttcacaaaactcttca	14	10	5	12	1	4	0	3	0	1	0	6	1	5	0	2	0	2	2	2	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:62290313T>C	uc002jec.2	-	2	1438	c.1265A>G	c.(1264-1266)TAC>TGC	p.Y422C	TEX2_uc002jed.2_Missense_Mutation_p.Y422C|TEX2_uc002jee.2_Missense_Mutation_p.Y422C	NM_018469	NP_060939	Q8IWB9	TEX2_HUMAN	testis expressed sequence 2	422					signal transduction|sphingolipid metabolic process	integral to membrane				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		GTCCTCAGTGTACAGTTCACA	0.453													9	157					0	0	1	0	0		C	62290313	C	C	62290313	3	2	27	1	0	0	0	0	1	0	0	0	15806	1638	57	3	2183	3	TEX2	17	62290313	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	154967	62290313	18904897	7012	29363											
POLG2	11232	broad.mit.edu	37	chr17	62492909	62492909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcttccctctccagacccggGggcttctgggtgctcgccgt	2	10	13	16	3	2	1	0	0	2	1	5	1	3	1	4	3	1	3	4	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:62492909G>A	uc002jei.2	-	1	261	c.178C>T	c.(178-180)CCC>TCC	p.P60S	POLG2_uc010deg.1_Missense_Mutation_p.P60S	NM_007215	NP_009146	Q9UHN1	DPOG2_HUMAN	DNA polymerase subunit gamma-2, mitochondrial	60					DNA repair|DNA-dependent DNA replication|glycyl-tRNA aminoacylation	mitochondrial chromosome	ATP binding|DNA-directed DNA polymerase activity|glycine-tRNA ligase activity|identical protein binding|single-stranded DNA binding			central_nervous_system(1)	1	Breast(5;2.15e-14)		BRCA - Breast invasive adenocarcinoma(8;4.97e-11)			CCAGACCCGGGGGCTTCTGGG	0.607													27	112					0	0	1	0	0		A	62492909	A	A	62492909	3	1	27	1	0	0	0	0	1	0	0	0	12220	1232	43	4	1311	4	POLG2	17	62492909	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	202596	62492909	18702301	7013	29364											
DDX5	1655	broad.mit.edu	37	chr17	62496396	62496396	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccccttttgcccgcagagTatctgtcccgacggtcatcc	6	10	8	17	3	2	1	1	0	1	1	4	2	4	1	5	1	1	2	5	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:62496396T>C	uc002jek.2	-	13	1737	c.1490A>G	c.(1489-1491)TAC>TGC	p.Y497C	DDX5_uc010deh.2_Missense_Mutation_p.Y497C|DDX5_uc002jej.2_Missense_Mutation_p.Y392C|DDX5_uc010wqa.1_Missense_Mutation_p.Y418C	NM_004396	NP_004387	P17844	DDX5_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 5	497					cell growth|regulation of alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA helicase activity|transcription cofactor activity			ovary(2)|lung(1)	3	Breast(5;2.15e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			GCCCGCAGAGTATCTGTCCCG	0.423			T	ETV4	prostate								25	100					0	0	1	0	0		C	62496396	C	C	62496396	3	2	27	1	0	0	0	0	1	0	0	0	4370	1638	57	3	358	3	DDX5	17	62496396	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3487	62496396	18698814	7014	29365											
CCDC45	90799	broad.mit.edu	37	chr17	62523239	62523239	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcaatagatgttaaaaaGtgctctgggtgatcggatta	12	14	10	5	1	2	2	1	1	2	1	4	3	2	3	0	2	1	2	0	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:62523239G>T	uc002jem.2	+	11	1221	c.1163G>T	c.(1162-1164)AGT>ATT	p.S388I	CCDC45_uc002jen.2_RNA|CCDC45_uc010wqb.1_Missense_Mutation_p.S224I	NM_138363	NP_612372	Q96GE4	CEP95_HUMAN	coiled-coil domain containing 45	388						centrosome|spindle pole	protein binding				0	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			ATGTTAAAAAGTGCTCTGGGT	0.378													4	68					0.00909568	0.0093211	1	1	0		T	62523239	T	T	62523239	3	4	27	1	0	0	0	0	1	0	0	0	2819	1029	36	5	1205	5	CCDC45	17	62523239	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26843	62523239	18671971	7015	29366											
LRRC37A3	374819	broad.mit.edu	37	chr17	62855980	62855980	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaagttgaatgcagtcccAgcggaatctgcctcaggagg	10	8	12	11	1	2	1	1	1	1	0	3	3	3	3	3	3	3	2	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:62855980A>G	uc002jey.2	-	11	4815	c.4284T>C	c.(4282-4284)GCT>GCC	p.A1428A	LRRC37A3_uc010wqg.1_Silent_p.A546A|LRRC37A3_uc002jex.1_Silent_p.A405A|LRRC37A3_uc010wqf.1_Silent_p.A466A|LRRC37A3_uc010dek.1_Silent_p.A434A	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1428	Extracellular (Potential).					integral to membrane					0						ATGCAGTCCCAGCGGAATCTG	0.443													5	53					0	0	1	0	0		G	62855980	G	G	62855980	2	3	27	1	0	0	0	0	0	0	0	1	9011	175	7	3		3	LRRC37A3	17	62855980	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	332741	62855980	18339230	7016	29367											
LRRC37A3	374819	broad.mit.edu	37	chr17	62856650	62856650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggctggacttccgagcCttttttcttcggcagtgttc	3	16	12	10	2	1	0	0	0	1	0	4	2	2	1	2	4	1	3	2	4	0	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:62856650C>T	uc002jey.2	-	11	4145	c.3614G>A	c.(3613-3615)AGG>AAG	p.R1205K	LRRC37A3_uc010wqg.1_Missense_Mutation_p.R323K|LRRC37A3_uc002jex.1_Missense_Mutation_p.R182K|LRRC37A3_uc010wqf.1_Missense_Mutation_p.R243K|LRRC37A3_uc010dek.1_Missense_Mutation_p.R211K	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1205	Extracellular (Potential).					integral to membrane					0						ACTTCCGAGCCTTTTTTCTTC	0.562													12	140					0	0	1	0	0		T	62856650	T	T	62856650	3	4	27	1	0	0	0	0	1	0	0	0	9011	681	24	4	1306	4	LRRC37A3	17	62856650	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	670	62856650	18338560	7017	29368											
RGS9	8787	broad.mit.edu	37	chr17	63221501	63221501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggcctcacctgtctttGccaggctctcacccaagtgc	5	11	9	16	0	4	0	2	0	3	0	5	0	4	0	4	2	2	1	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:63221501G>A	uc002jfe.2	+	18	1899	c.1789G>A	c.(1789-1791)GCC>ACC	p.A597T	RGS9_uc010dem.2_Missense_Mutation_p.A594T|RGS9_uc002jfd.2_Missense_Mutation_p.A594T|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Missense_Mutation_p.A368T	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	597					intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						ACCTGTCTTTGCCAGGCTCTC	0.652													12	113					0	0	1	0	0		A	63221501	A	A	63221501	3	1	27	1	0	0	0	0	1	0	0	0	13338	1319	46	2	1914	2	RGS9	17	63221501	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	364851	63221501	17973709	7018	29369											
AXIN2	8313	broad.mit.edu	37	chr17	63533080	63533080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcccggggaagctgcaggGccccagctccgccgggggcc	4	3	16	18	3	0	0	0	0	0	0	2	1	2	1	7	5	3	3	7	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:63533080G>A	uc002jfi.2	-	7	2103	c.1814C>T	c.(1813-1815)GCC>GTC	p.A605V	AXIN2_uc002jfh.2_Intron	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	605				Missing (in Ref. 2; AAF22799).	cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						AAGCTGCAGGGCCCCAGCTCC	0.672									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				6	67					0	0	1	0	0		A	63533080	A	A	63533080	3	1	27	1	0	0	0	0	1	0	0	0	1238	1203	42	2	737	2	AXIN2	17	63533080	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	311579	63533080	17662130	7019	29370											
CACNG1	786	broad.mit.edu	37	chr17	65040890	65040890	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctgtgctgagcccccaCatggagcaccacaacactac	10	6	10	15	0	0	1	0	1	0	0	0	2	0	2	3	2	5	3	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:65040890C>T	uc002jfu.2	+	1	185	c.114C>T	c.(112-114)CAC>CAT	p.H38H		NM_000727	NP_000718	Q06432	CCG1_HUMAN	voltage-dependent calcium channel gamma-1	38					muscle contraction	voltage-gated calcium channel complex	voltage-gated calcium channel activity				0	all_cancers(12;1.04e-10)|Breast(2;1.45e-16)|all_epithelial(3;4.81e-12)				Amlodipine(DB00381)|Diltiazem(DB00343)|Ibutilide(DB00308)|Lercanidipine(DB00528)|Magnesium Sulfate(DB00653)|Nimodipine(DB00393)|Nitrendipine(DB01054)|Verapamil(DB00661)	TGAGCCCCCACATGGAGCACC	0.627													9	51					0	0	1	0	0		T	65040890	T	T	65040890	2	4	27	1	0	0	0	0	0	0	0	1	2559	477	17	4		4	CACNG1	17	65040890	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1507810	65040890	16154320	7020	29371											
KPNA2	3838	broad.mit.edu	37	chr17	66040035	66040035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattgatgcaggagcactcGccgtctttcccagcctgctc	6	11	10	14	2	1	2	0	2	1	0	4	3	2	3	3	1	4	3	3	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:66040035G>A	uc002jgk.2	+	8	1144	c.1012G>A	c.(1012-1014)GCC>ACC	p.A338T	KPNA2_uc002jgl.2_Missense_Mutation_p.A338T	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	338	ARM 7.|NLS binding site (minor) (By similarity).				DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			AGGAGCACTCGCCGTCTTTCC	0.478													24	213					0	0	1	0	0		A	66040035	A	A	66040035	3	1	27	1	0	0	0	0	1	0	0	0	8446	1087	38	1	1038	1	KPNA2	17	66040035	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	999145	66040035	15155175	7021	29372											
ARSG	22901	broad.mit.edu	37	chr17	66416413	66416413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaacctggaagacgataccGcagaagctgtgcccctagaa	13	6	10	12	2	1	3	1	0	0	3	1	5	1	4	4	1	4	2	4	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:66416413G>A	uc002jhc.2	+	12	2183	c.1387G>A	c.(1387-1389)GCA>ACA	p.A463T	ARSG_uc002jhb.1_Missense_Mutation_p.A299T|ARSG_uc010dex.1_RNA	NM_014960	NP_055775	Q96EG1	ARSG_HUMAN	Arylsulfatase G precursor	463					sulfur compound metabolic process	endoplasmic reticulum|extracellular space|lysosome	arylsulfatase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;5.34e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			AGACGATACCGCAGAAGCTGT	0.562													27	68					0	0	1	0	0		A	66416413	A	A	66416413	3	1	27	1	0	0	0	0	1	0	0	0	993	1087	38	1	1429	1	ARSG	17	66416413	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	376378	66416413	14778797	7022	29373											
FAM20A	54757	broad.mit.edu	37	chr17	66551755	66551755	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaagtttgctgacaacaggGctggaccgggagtagagccc	11	6	15	9	1	0	3	0	1	0	2	0	5	0	5	2	3	3	4	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:66551755G>A	uc002jho.2	-	2	822	c.534C>T	c.(532-534)AGC>AGT	p.S178S	FAM20A_uc010wqp.1_Silent_p.S40S|FAM20A_uc002jhn.2_5'UTR	NM_017565	NP_060035	Q96MK3	FA20A_HUMAN	family with sequence similarity 20, member A	178						extracellular region					0	Breast(10;1.64e-13)					TGACAACAGGGCTGGACCGGG	0.582													5	85					0	0	1	0	0		A	66551755	A	A	66551755	2	1	27	1	0	0	0	0	0	0	0	1	5548	1194	42	2		2	FAM20A	17	66551755	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	135342	66551755	14643455	7023	29374											
ABCA9	10350	broad.mit.edu	37	chr17	67041327	67041327	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttacctgaatggtctctgTgctctttcatcatggggatt	7	16	10	8	0	4	1	2	1	2	0	5	2	4	2	1	3	2	2	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:67041327T>C	uc002jhu.2	-	4	598	c.455A>G	c.(454-456)CAC>CGC	p.H152R	ABCA9_uc010dez.2_Missense_Mutation_p.H152R|ABCA9_uc002jhv.2_Missense_Mutation_p.H152R	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	152					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					ATGGTCTCTGTGCTCTTTCAT	0.388													4	50					0	0	1	0	0		C	67041327	C	C	67041327	3	2	27	1	0	0	0	0	1	0	0	0	39	1696	59	3	4563	3	ABCA9	17	67041327	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	489572	67041327	14153883	7024	29375											
ABCA9	10350	broad.mit.edu	37	chr17	67047255	67047255	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgacccacgctcatgcGtctcttgctcattttgacct	5	15	7	14	2	3	2	2	2	1	0	4	2	3	2	2	0	3	3	2	0	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:67047255G>A	uc002jhu.2	-	2	156	c.13C>T	c.(13-15)CGC>TGC	p.R5C	ABCA9_uc010dez.2_Missense_Mutation_p.R5C|ABCA9_uc002jhv.2_Missense_Mutation_p.R5C	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	5					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					ACGCTCATGCGTCTCTTGCTC	0.378													19	51					0	0	1	0	0		A	67047255	A	A	67047255	3	1	27	1	0	0	0	0	1	0	0	0	39	1145	40	1	5013	1	ABCA9	17	67047255	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5928	67047255	14147955	7025	29376											
ABCA5	23461	broad.mit.edu	37	chr17	67250502	67250502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcactcattcctttgacagCtccataaatttcaaaatgtt	12	15	4	10	0	2	1	2	1	0	0	4	1	4	1	2	0	2	3	2	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:67250502C>T	uc002jif.2	-	31	5416	c.4198G>A	c.(4198-4200)GCT>ACT	p.A1400T	ABCA5_uc002jib.2_Missense_Mutation_p.A366T|ABCA5_uc002jic.2_Missense_Mutation_p.A623T|ABCA5_uc002jid.2_Missense_Mutation_p.A317T|ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.A1400T	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	1400	ABC transporter 2.				cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					CCTTTGACAGCTCCATAAATT	0.363													8	99					0	0	1	0	0		T	67250502	T	T	67250502	3	4	27	1	0	0	0	0	1	0	0	0	35	797	28	2	762	2	ABCA5	17	67250502	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	203247	67250502	13944708	7026	29377											
ABCA5	23461	broad.mit.edu	37	chr17	67293435	67293435	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgataactcctcataatttcTtttgctctttgaccaatatg	10	18	4	9	0	3	2	1	2	2	0	4	2	4	2	2	0	2	1	2	0	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:67293435T>G	uc002jif.2	-	9	2551	c.1333A>C	c.(1333-1335)AGA>CGA	p.R445R	ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Silent_p.R445R|ABCA5_uc002jih.2_Silent_p.R445R|ABCA5_uc010dfe.2_Silent_p.R445R	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	445					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					TCATAATTTCTTTTGCTCTTT	0.318													14	88					0	0	1	0	0		G	67293435	G	G	67293435	2	3	27	1	0	0	0	0	0	0	0	1	35	1617	56	5		5	ABCA5	17	67293435	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	42933	67293435	13901775	7027	29378											
SSTR2	6752	broad.mit.edu	37	chr17	71166456	71166456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgcttggtcaaggtgaGcggcacagatgatggggagc	8	8	16	9	1	2	3	1	2	1	1	2	4	2	4	1	5	3	2	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:71166456G>A	uc002jje.2	+	2	1358	c.998G>A	c.(997-999)AGC>AAC	p.S333N		NM_001050	NP_001041	P30874	SSR2_HUMAN	somatostatin receptor 2	333	Cytoplasmic (Potential).				digestion|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	PDZ domain binding|somatostatin receptor activity				0			LUSC - Lung squamous cell carcinoma(166;0.197)			GTCAAGGTGAGCGGCACAGAT	0.527													6	75					0	0	1	0	0		A	71166456	A	A	71166456	3	1	27	1	0	0	0	0	1	0	0	0	15223	971	34	2	1000	2	SSTR2	17	71166456	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3873021	71166456	10028754	7028	29379											
COG1	9382	broad.mit.edu	37	chr17	71193082	71193082	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatgttgctcaaatgccaaGgtgtgtctgaccaagctgtg	10	11	12	8	0	2	2	1	1	1	1	2	2	2	2	2	1	3	3	2	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:71193082G>T	uc002jjg.2	+	3	640	c.604G>T	c.(604-606)GGT>TGT	p.G202C	COG1_uc002jjh.2_Missense_Mutation_p.G202C|COG1_uc002jjf.1_Missense_Mutation_p.G202C	NM_018714	NP_061184	Q8WTW3	COG1_HUMAN	component of oligomeric golgi complex 1	202					Golgi organization|intra-Golgi vesicle-mediated transport|protein transport	Golgi membrane|Golgi transport complex	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			CAAATGCCAAGGTGTGTCTGA	0.483													9	59					0.00448238	0.00462772	1	1	0		T	71193082	T	T	71193082	3	4	27	1	0	0	0	0	1	0	0	0	3660	1000	35	5	614	5	COG1	17	71193082	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26626	71193082	10002128	7029	29380											
COG1	9382	broad.mit.edu	37	chr17	71199167	71199167	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatggattcacccagtcatTacttctagatgatgctggct	9	14	8	10	0	4	2	3	1	1	1	4	3	4	3	1	2	2	2	1	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:71199167T>C	uc002jjg.2	+	8	2138	c.2102T>C	c.(2101-2103)TTA>TCA	p.L701S	COG1_uc002jjh.2_Missense_Mutation_p.L701S|COG1_uc002jjf.1_Missense_Mutation_p.L701S	NM_018714	NP_061184	Q8WTW3	COG1_HUMAN	component of oligomeric golgi complex 1	701					Golgi organization|intra-Golgi vesicle-mediated transport|protein transport	Golgi membrane|Golgi transport complex	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			ACCCAGTCATTACTTCTAGAT	0.458													6	77					0	0	1	0	0		C	71199167	C	C	71199167	3	2	27	1	0	0	0	0	1	0	0	0	3660	1764	61	3	2132	3	COG1	17	71199167	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6085	71199167	9996043	7030	29381											
C17orf80	55028	broad.mit.edu	37	chr17	71239049	71239049	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaggctggatcaggtgcAacaccaccataaggaagagt	15	5	12	9	0	1	1	1	0	0	1	1	4	1	3	2	4	3	2	2	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:71239049A>G	uc002jjm.3	+	5	1830	c.1636A>G	c.(1636-1638)AAC>GAC	p.N546D	C17orf80_uc010wqu.1_Missense_Mutation_p.N510D|C17orf80_uc010dfj.2_Missense_Mutation_p.N510D|C17orf80_uc002jjk.1_Missense_Mutation_p.N546D|C17orf80_uc002jjl.3_Missense_Mutation_p.N510D	NM_017941	NP_060411	Q9BSJ5	CQ080_HUMAN	lung cancer-related protein 8 isoform a	546	Extracellular (Potential).					integral to membrane				skin(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			GATCAGGTGCAACACCACCAT	0.488													6	40					0	0	1	0	0		G	71239049	G	G	71239049	3	3	27	1	0	0	0	0	1	0	0	0	1888	130	5	3	1646	3	C17orf80	17	71239049	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	39882	71239049	9956161	7031	29382											
CDC42EP4	23580	broad.mit.edu	37	chr17	71282494	71282494	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctattgaggaaggaggtgTccccaaaggcgtctccggcc	8	8	14	11	2	1	1	0	1	1	0	3	3	2	3	4	5	1	1	4	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:71282494T>A	uc002jjn.2	-	2	293	c.146A>T	c.(145-147)GAC>GTC	p.D49V	CDC42EP4_uc002jjo.2_Missense_Mutation_p.D49V|CDC42EP4_uc002jjp.1_Missense_Mutation_p.D49V	NM_012121	NP_036253	Q9H3Q1	BORG4_HUMAN	Cdc42 effector protein 4	49					positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|cytoplasm|endomembrane system|membrane|microtubule cytoskeleton	GTP-Rho binding				0			LUSC - Lung squamous cell carcinoma(166;0.0352)|Lung(188;0.0711)			GAAGGAGGTGTCCCCAAAGGC	0.647													4	61					0	0	1	0	0		A	71282494	A	A	71282494	3	1	27	1	0	0	0	0	1	0	0	0	3081	1667	58	5	928	5	CDC42EP4	17	71282494	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	43445	71282494	9912716	7032	29383											
TTYH2	94015	broad.mit.edu	37	chr17	72227099	72227099	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccagctgatgtactccttGgacgatgccaaccacacctt	10	10	7	14	1	0	1	0	1	0	0	1	3	1	2	5	1	5	2	5	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:72227099G>T	uc002jkc.2	+	3	406	c.375G>T	c.(373-375)TTG>TTT	p.L125F	TTYH2_uc010wqw.1_Missense_Mutation_p.L104F	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	125	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						TGTACTCCTTGGACGATGCCA	0.572													8	87					0.00448238	0.00462772	1	1	0		T	72227099	T	T	72227099	3	4	27	1	0	0	0	0	1	0	0	0	16766	1339	47	5	385	5	TTYH2	17	72227099	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	944605	72227099	8968111	7033	29384											
TTYH2	94015	broad.mit.edu	37	chr17	72249893	72249893	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctctcctctcatccccgcaGgaaccaagccatgctctttg	7	10	7	17	1	3	0	1	0	3	0	6	1	4	1	5	1	3	3	5	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:72249893G>A	uc002jkc.2	+	13	1477	c.1446_splice	c.e13-1	p.M482_splice	TTYH2_uc010wqw.1_Splice_Site_p.M461_splice|TTYH2_uc002jkd.2_Splice_Site_p.M161_splice	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1							chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						CATCCCCGCAGGAACCAAGCC	0.602													7	70					0	0	1	0	0		A	72249893	A	A	72249893	5	1	27	1	0	0	0	0	0	0	1	0	16766	1014	35	4	1495	4	TTYH2	17	72249893	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	22794	72249893	8945317	7034	29385											
KIF19	124602	broad.mit.edu	37	chr17	72340925	72340925	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagctgctgatgaaggggaAccggcagaggacccaggagc	11	3	17	10	1	0	3	0	2	0	1	0	6	0	6	2	5	4	4	2	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:72340925A>G	uc002jkm.3	+	7	746	c.608A>G	c.(607-609)AAC>AGC	p.N203S	KIF19_uc002jkj.2_Missense_Mutation_p.N203S|KIF19_uc002jkk.2_Missense_Mutation_p.N161S|KIF19_uc002jkl.2_Missense_Mutation_p.N161S	NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	203	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						ATGAAGGGGAACCGGCAGAGG	0.682													16	44					0	0	1	0	0		G	72340925	G	G	72340925	3	3	27	1	0	0	0	0	1	0	0	0	8298	43	2	3	634	3	KIF19	17	72340925	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	91032	72340925	8854285	7035	29386											
KIF19	124602	broad.mit.edu	37	chr17	72351389	72351389	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttctcgacgggctacccgtGggccccgcctgccccacggc	3	6	13	19	5	1	0	0	0	1	0	2	1	1	0	6	3	2	2	6	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:72351389G>T	uc002jkm.3	+	20	3073	c.2935G>T	c.(2935-2937)GGG>TGG	p.G979W		NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	979					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						GGCTACCCGTGGGCCCCGCCT	0.657													5	35					5.9392e-07	6.46363e-07	1	1	0		T	72351389	T	T	72351389	3	4	27	1	0	0	0	0	1	0	0	0	8298	1348	47	5	3013	5	KIF19	17	72351389	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10464	72351389	8843821	7036	29387											
GPR142	350383	broad.mit.edu	37	chr17	72368331	72368331	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctatttcatcccttgtggCgtgttcctggtcaccaactc	5	15	8	13	1	3	0	2	0	1	0	6	0	5	0	3	2	1	1	3	2	2	4	rs146060702		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:72368331C>T	uc010wqy.1	+	4	981	c.981C>T	c.(979-981)GGC>GGT	p.G327G	GPR142_uc010wqx.1_Silent_p.G239G	NM_181790	NP_861455	Q7Z601	GP142_HUMAN	G protein-coupled receptor 142	327	Helical; Name=5; (Potential).					cell junction|cytoplasm|integral to membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						TCCCTTGTGGCGTGTTCCTGG	0.617													5	32					0	0	1	0	0		T	72368331	T	T	72368331	2	4	27	1	0	0	0	0	0	0	0	1	6665	755	27	1		1	GPR142	17	72368331	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16942	72368331	8826879	7037	29388											
CD300LB	124599	broad.mit.edu	37	chr17	72521943	72521943	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggtcctcttctttcaatcCcacaccagtaaacatctgcg	10	11	5	15	1	4	0	1	0	3	0	6	0	6	0	3	1	2	1	3	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:72521943C>A	uc002jkx.2	-	2	438	c.425G>T	c.(424-426)GGG>GTG	p.G142V	CD300LB_uc010wqz.1_Missense_Mutation_p.G142V	NM_174892	NP_777552	A8K4G0	CLM7_HUMAN	CD300 molecule-like family member b	105	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)	1						TCTTTCAATCCCACACCAGTA	0.517													48	163					1.00221e-16	1.12137e-16	1	1	0		A	72521943	A	A	72521943	3	1	27	1	0	0	0	0	1	0	0	0	3002	623	22	5	303	5	CD300LB	17	72521943	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	153612	72521943	8673267	7038	29389											
NAT9	26151	broad.mit.edu	37	chr17	72768367	72768367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actttcttaccgtaagacagCatcgcgagaacggcctcagt	11	9	9	12	4	2	2	1	0	1	2	3	3	2	2	2	1	3	2	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:72768367C>T	uc002jlq.2	-	5	458	c.384G>A	c.(382-384)ATG>ATA	p.M128I	NAT9_uc002jlr.2_Missense_Mutation_p.M127I	NM_015654	NP_056469	Q9BTE0	NAT9_HUMAN	N-acetyltransferase 9	128	N-acetyltransferase.					protein complex	N-acetyltransferase activity				0						CGTAAGACAGCATCGCGAGAA	0.502													4	26					0	0	1	0	0		T	72768367	T	T	72768367	3	4	27	1	0	0	0	0	1	0	0	0	10200	710	25	2	251	2	NAT9	17	72768367	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	246424	72768367	8426843	7039	29390											
FDXR	2232	broad.mit.edu	37	chr17	72861880	72861880	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagtaggatgcgggccacGtccagagccacgttcccctg	7	7	13	14	3	1	1	1	0	0	1	3	2	3	2	5	2	2	2	5	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:72861880G>A	uc002jly.2	-	6	657	c.570C>T	c.(568-570)GAC>GAT	p.D190D	FDXR_uc010wri.1_Silent_p.D138D|FDXR_uc010wrj.1_Silent_p.D188D|FDXR_uc002jlw.2_Translation_Start_Site|FDXR_uc002jlx.2_Silent_p.D190D|FDXR_uc002jmc.2_Silent_p.D191D|FDXR_uc010wrk.1_Silent_p.D221D|FDXR_uc010wrl.1_Silent_p.D233D|FDXR_uc002jma.2_Silent_p.D191D|FDXR_uc010wrm.1_Silent_p.D150D|FDXR_uc002jlz.2_Silent_p.D182D|FDXR_uc002jmb.2_RNA	NM_024417	NP_077728	P22570	ADRO_HUMAN	ferredoxin reductase isoform 1 precursor	190					cholesterol metabolic process|electron transport chain|steroid biosynthetic process|transport	mitochondrial matrix	ferredoxin-NADP+ reductase activity|protein binding				0	all_lung(278;0.172)|Lung NSC(278;0.207)					TGCGGGCCACGTCCAGAGCCA	0.657													9	27					0	0	1	0	0		A	72861880	A	A	72861880	2	1	27	1	0	0	0	0	0	0	0	1	5821	1136	40	1		1	FDXR	17	72861880	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	93513	72861880	8333330	7040	29391											
FDXR	2232	broad.mit.edu	37	chr17	72862566	72862566	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggcctagctgcactcAccagcaccacagcgtggtag	9	5	12	15	1	1	0	1	0	0	0	1	0	1	0	4	2	4	4	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:72862566A>G	uc002jly.2	-	4	480	c.393_splice	c.e4+1	p.L131_splice	FDXR_uc010wri.1_Splice_Site_p.L79_splice|FDXR_uc010wrj.1_Splice_Site_p.L129_splice|FDXR_uc002jlw.2_Splice_Site|FDXR_uc002jlx.2_Splice_Site_p.L131_splice|FDXR_uc002jmc.2_Splice_Site_p.L132_splice|FDXR_uc010wrk.1_Splice_Site_p.L162_splice|FDXR_uc010wrl.1_Splice_Site_p.L174_splice|FDXR_uc002jma.2_Splice_Site_p.L132_splice|FDXR_uc010wrm.1_Intron|FDXR_uc002jlz.2_Splice_Site_p.L123_splice|FDXR_uc002jmb.2_Splice_Site	NM_024417	NP_077728	P22570	ADRO_HUMAN	ferredoxin reductase isoform 1 precursor						cholesterol metabolic process|electron transport chain|steroid biosynthetic process|transport	mitochondrial matrix	ferredoxin-NADP+ reductase activity|protein binding				0	all_lung(278;0.172)|Lung NSC(278;0.207)					AGCTGCACTCACCAGCACCAC	0.692													3	10					0	0	1	0	0		G	72862566	G	G	72862566	5	3	27	1	0	0	0	0	0	0	1	0	5821	173	6	3	1134	3	FDXR	17	72862566	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	686	72862566	8332644	7041	29392											
OTOP3	347741	broad.mit.edu	37	chr17	72943337	72943337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctcatcctgcagcacatcGctcagaacctcttcatcatc	9	11	5	16	1	5	1	4	0	1	1	8	1	6	1	2	0	4	4	2	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:72943337G>A	uc010wrr.1	+	6	1387	c.1387G>A	c.(1387-1389)GCT>ACT	p.A463T	OTOP3_uc010wrq.1_Missense_Mutation_p.A445T	NM_178233	NP_839947	Q7RTS5	OTOP3_HUMAN	otopetrin 3	463	Helical; (Potential).					integral to membrane|intracellular	zinc ion binding			ovary(1)	1	all_lung(278;0.151)|Lung NSC(278;0.185)					GCAGCACATCGCTCAGAACCT	0.637													6	21					0	0	1	0	0		A	72943337	A	A	72943337	3	1	27	1	0	0	0	0	1	0	0	0	11326	1087	38	1	1409	1	OTOP3	17	72943337	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	80771	72943337	8251873	7042	29393											
SLC16A5	9121	broad.mit.edu	37	chr17	73089824	73089824	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcaccctgggcttcccCacgtgtatcggcatcttctt	4	12	9	16	2	3	0	1	0	2	0	5	0	4	0	4	3	0	3	4	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:73089824C>T	uc002jmr.2	+	3	465	c.93C>T	c.(91-93)CCC>CCT	p.P31P	SLC16A5_uc002jms.1_Silent_p.P31P|SLC16A5_uc002jmt.2_Silent_p.P31P|SLC16A5_uc002jmu.2_Silent_p.P31P|SLC16A5_uc010wrt.1_Silent_p.P71P	NM_004695	NP_004686	O15375	MOT6_HUMAN	solute carrier family 16, member 5	31	Helical; (Potential).				organic anion transport	integral to plasma membrane|membrane fraction	secondary active monocarboxylate transmembrane transporter activity|symporter activity			central_nervous_system(1)	1	all_lung(278;0.226)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)		Pyruvic acid(DB00119)	TGGGCTTCCCCACGTGTATCG	0.627													22	78					0	0	1	0	0		T	73089824	T	T	73089824	2	4	27	1	0	0	0	0	0	0	0	1	14436	581	21	4		4	SLC16A5	17	73089824	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	146487	73089824	8105386	7043	29394											
GGA3	23163	broad.mit.edu	37	chr17	73240709	73240709	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgctgactgacctttggagaGacgactttgattaactcatt	10	13	9	9	2	1	4	1	3	0	1	1	7	1	5	1	1	1	1	1	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:73240709G>A	uc002jni.1	-	4	300	c.291C>T	c.(289-291)GTC>GTT	p.V97V	GGA3_uc002jnj.1_Intron|GGA3_uc010wrw.1_Intron|GGA3_uc002jnk.1_Silent_p.V25V|GGA3_uc010wrx.1_Intron|GGA3_uc010wry.1_Silent_p.V25V|GGA3_uc010wrz.1_Intron	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	97	VHS.|Binds to ARF1 (in long isoform).				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			CCTTTGGAGAGACGACTTTGA	0.478													18	168					0	0	1	0	0		A	73240709	A	A	73240709	2	1	27	1	0	0	0	0	0	0	0	1	6369	929	33	4		4	GGA3	17	73240709	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	150885	73240709	7954501	7044	29395											
SAP30BP	29115	broad.mit.edu	37	chr17	73664707	73664707	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagaacagtagacagtcggTaggtaaatctcccagatcca	14	8	10	9	1	1	3	0	1	1	3	4	4	2	3	2	2	1	3	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:73664707T>C	uc002jpe.2	+	2	270	c.216_splice	c.e2+2	p.S72_splice	RECQL5_uc010dgk.2_5'Flank|RECQL5_uc010dgl.2_5'Flank|RECQL5_uc002jpb.1_5'Flank|RECQL5_uc002joz.3_5'Flank|RECQL5_uc002jpa.3_5'Flank|SAP30BP_uc010dgm.1_Splice_Site_p.S72_splice|SAP30BP_uc002jpc.1_Splice_Site|SAP30BP_uc010wsf.1_Splice_Site|SAP30BP_uc010wsg.1_Splice_Site|SAP30BP_uc002jpf.2_Splice_Site_p.S72_splice	NM_013260	NP_037392	Q9UHR5	S30BP_HUMAN	transcriptional regulator protein						apoptosis|induction of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1	all_cancers(13;6.42e-08)		all cancers(21;4.25e-07)|Epithelial(20;9.57e-07)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			AGACAGTCGGTAGGTAAATCT	0.443													6	45					0	0	1	0	0		C	73664707	C	C	73664707	5	2	27	1	0	0	0	0	0	0	1	0	13859	1652	57	3	224	3	SAP30BP	17	73664707	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	423998	73664707	7530503	7045	29396											
UNC13D	201294	broad.mit.edu	37	chr17	73831532	73831532	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcacccgcgccagggcctcGttgtacgtcttctgcagcca	5	9	11	16	4	2	0	0	0	2	0	3	0	2	0	4	1	4	4	4	1	1	3	rs143190205		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:73831532G>A	uc002jpp.2	-	20	2186	c.1806C>T	c.(1804-1806)AAC>AAT	p.N602N	UNC13D_uc010wsk.1_Silent_p.N602N|UNC13D_uc002jpq.1_Silent_p.N252N	NM_199242	NP_954712	Q70J99	UN13D_HUMAN	unc-13 homolog D	602	MHD1.				positive regulation of exocytosis|regulation of mast cell degranulation	exocytic vesicle|late endosome|lysosome|membrane|recycling endosome	protein binding			upper_aerodigestive_tract(1)|skin(1)	2			all cancers(21;2.11e-06)|Epithelial(20;2.32e-06)|BRCA - Breast invasive adenocarcinoma(9;0.000618)|LUSC - Lung squamous cell carcinoma(166;0.154)			CCAGGGCCTCGTTGTACGTCT	0.692									Familial_Hemophagocytic_Lymphohistiocytosis				3	16					0	0	1	0	0		A	73831532	A	A	73831532	2	1	27	1	0	0	0	0	0	0	0	1	17013	1136	40	1		1	UNC13D	17	73831532	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	166825	73831532	7363678	7046	29397											
CDK3	1018	broad.mit.edu	37	chr17	73998612	73998612	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgacactgtggtatcgCgcccccgagattctcttggg	5	11	14	11	3	1	2	0	1	1	1	3	3	1	2	2	3	0	1	2	3	1	3	rs61747000	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:73998612C>T	uc010dgt.2	+	6	583	c.507C>T	c.(505-507)CGC>CGT	p.R169R	CDK3_uc002jqg.3_Silent_p.R197R	NM_001258	NP_001249	Q00526	CDK3_HUMAN	cyclin-dependent kinase 3	169	Protein kinase.				cell division|cell proliferation|mitosis		ATP binding|cyclin-dependent protein kinase activity			central_nervous_system(1)	1						TGTGGTATCGCGCCCCCGAGA	0.542													7	66					0	0	1	0	0		T	73998612	T	T	73998612	2	4	27	1	0	0	0	0	0	0	0	1	3143	755	27	1		1	CDK3	17	73998612	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	167080	73998612	7196598	7047	29398											
EVPL	2125	broad.mit.edu	37	chr17	74003870	74003870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagaaactggtgctctgggGggccggggaggcgagcgggg	7	4	23	7	3	1	1	0	0	1	1	1	4	1	2	1	9	3	1	1	9	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:74003870G>A	uc002jqi.2	-	22	5644	c.5416C>T	c.(5416-5418)CCC>TCC	p.P1806S	EVPL_uc010wss.1_Missense_Mutation_p.P1828S|EVPL_uc010wst.1_Missense_Mutation_p.P1276S	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1806	Globular 2.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						GTGCTCTGGGGGGCCGGGGAG	0.587													10	101					0	0	1	0	0		A	74003870	A	A	74003870	3	1	27	1	0	0	0	0	1	0	0	0	5300	1232	43	4	689	4	EVPL	17	74003870	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	5258	74003870	7191340	7048	29399											
EVPL	2125	broad.mit.edu	37	chr17	74013872	74013872	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagggtgtggggcggctcAgcggggcccgcgcccaggcc	4	3	19	15	4	1	0	1	0	0	0	1	0	1	0	4	7	1	1	4	7	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:74013872A>T	uc002jqi.2	-	14	1886	c.1658T>A	c.(1657-1659)CTG>CAG	p.L553Q	EVPL_uc010wss.1_Missense_Mutation_p.L575Q|EVPL_uc010wst.1_Missense_Mutation_p.L23Q	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	553	Globular 1.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						GGGGCGGCTCAGCGGGGCCCG	0.692													4	49					0	0	1	0	0		T	74013872	T	T	74013872	3	4	27	1	0	0	0	0	1	0	0	0	5300	188	7	5	4479	5	EVPL	17	74013872	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10002	74013872	7181338	7049	29400											
RNF157	114804	broad.mit.edu	37	chr17	74163130	74163130	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agggatccacggtgtgggagGgcaggcagaactgctgacac	10	5	17	9	1	0	2	0	1	0	1	1	4	1	4	1	5	2	3	1	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:74163130G>T	uc002jqz.2	-	5	590	c.521C>A	c.(520-522)CCC>CAC	p.P174H	RNF157_uc002jra.2_Missense_Mutation_p.P174H	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	174							zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			GGTGTGGGAGGGCAGGCAGAA	0.577													18	92					6.49762e-13	7.23709e-13	1	1	0		T	74163130	T	T	74163130	3	4	27	1	0	0	0	0	1	0	0	0	13479	1232	43	5	1578	5	RNF157	17	74163130	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	149258	74163130	7032080	7050	29401											
PRPSAP1	5635	broad.mit.edu	37	chr17	74307730	74307730	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatccacagtctttatctTgggacattgcagcttctgaa	10	14	8	9	0	3	1	0	1	3	0	4	3	4	2	1	1	2	2	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:74307730T>C	uc010wta.1	-	10	1497	c.1051A>G	c.(1051-1053)AAG>GAG	p.K351E	PRPSAP1_uc010wtb.1_Missense_Mutation_p.K248E	NM_002766	NP_002757	Q14558	KPRA_HUMAN	phosphoribosyl pyrophosphate	322					nucleotide biosynthetic process		enzyme inhibitor activity|identical protein binding|magnesium ion binding|ribose phosphate diphosphokinase activity			ovary(1)	1						GTCTTTATCTTGGGACATTGC	0.453													9	82					0	0	1	0	0		C	74307730	C	C	74307730	3	2	27	1	0	0	0	0	1	0	0	0	12603	1821	63	3	110	3	PRPSAP1	17	74307730	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	144600	74307730	6887480	7051	29402											
SPHK1	8877	broad.mit.edu	37	chr17	74383020	74383020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttctctgtgctcagcctgGcctggggcttcattgctgat	3	15	11	12	0	4	1	2	1	2	0	5	1	4	1	2	3	3	3	2	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:74383020G>A	uc002jrf.1	+	8	1317	c.508G>A	c.(508-510)GCC>ACC	p.A170T	SPHK1_uc002jrg.1_Missense_Mutation_p.A119T|SPHK1_uc002jrh.2_Missense_Mutation_p.A184T|SPHK1_uc002jrj.2_Missense_Mutation_p.A256T|SPHK1_uc002jri.2_Missense_Mutation_p.A170T|SPHK1_uc002jrk.3_Missense_Mutation_p.A170T|uc010wtd.1_RNA	NM_001142602	NP_001136074	Q9NYA1	SPHK1_HUMAN	sphingosine kinase 1 isoform 3	170					'de novo' posttranslational protein folding|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|calcium-mediated signaling|positive regulation of angiogenesis|positive regulation of cell growth|positive regulation of cell migration|positive regulation of fibroblast proliferation|positive regulation of mitotic cell cycle|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|positive regulation of smooth muscle contraction|regulation of tumor necrosis factor-mediated signaling pathway|sphingoid catabolic process|sphingosine metabolic process	cytosol|membrane fraction|nucleus|plasma membrane|soluble fraction	ATP binding|calmodulin binding|D-erythro-sphingosine kinase activity|diacylglycerol kinase activity|DNA binding|magnesium ion binding|protein phosphatase 2A binding|sphinganine kinase activity			kidney(1)	1						GCTCAGCCTGGCCTGGGGCTT	0.617													13	73					0	0	1	0	0		A	74383020	A	A	74383020	3	1	27	1	0	0	0	0	1	0	0	0	15071	1203	42	2	830	2	SPHK1	17	74383020	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	75290	74383020	6812190	7052	29403											
UBE2O	63893	broad.mit.edu	37	chr17	74387043	74387043	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacttgtcctctgtgcacTccggcatgcctgcctctagc	4	12	9	16	1	2	0	0	0	2	0	4	0	4	0	4	1	5	3	4	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:74387043T>C	uc002jrm.3	-	18	3925	c.3860A>G	c.(3859-3861)GAG>GGG	p.E1287G	UBE2O_uc002jrl.3_Missense_Mutation_p.E891G	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	1287							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						CTCTGTGCACTCCGGCATGCC	0.627													10	119					0	0	1	0	0		C	74387043	C	C	74387043	3	2	27	1	0	0	0	0	1	0	0	0	16894	1551	54	3	22	3	UBE2O	17	74387043	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4023	74387043	6808167	7053	29404											
UBE2O	63893	broad.mit.edu	37	chr17	74394418	74394418	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacggaacctaaagtcagggTggtcagcaatgtcgtaaaca	14	8	11	8	2	2	0	2	0	0	0	3	1	2	1	1	3	4	2	1	3	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:74394418T>C	uc002jrm.3	-	12	2008	c.1943A>G	c.(1942-1944)CAC>CGC	p.H648R	UBE2O_uc002jrn.3_Missense_Mutation_p.H648R|UBE2O_uc002jrl.3_Missense_Mutation_p.H251R	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	648							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						AAAGTCAGGGTGGTCAGCAAT	0.517											OREG0024751	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	288					0	0	1	0	0		C	74394418	C	C	74394418	3	2	27	1	0	0	0	0	1	0	0	0	16894	1696	59	3	1963	3	UBE2O	17	74394418	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7375	74394418	6800792	7054	29405											
UBE2O	63893	broad.mit.edu	37	chr17	74395720	74395720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcagcagcctcatcatctgCgtcctgctctgccgagtgca	7	10	9	15	2	5	0	3	0	2	0	6	1	6	0	3	0	6	3	3	0	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:74395720C>T	uc002jrm.3	-	9	1503	c.1438G>A	c.(1438-1440)GCA>ACA	p.A480T	UBE2O_uc002jrn.3_Missense_Mutation_p.A480T|UBE2O_uc002jrl.3_Missense_Mutation_p.A83T	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	480							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						TCATCATCTGCGTCCTGCTCT	0.627													19	77					0	0	1	0	0		T	74395720	T	T	74395720	3	4	27	1	0	0	0	0	1	0	0	0	16894	768	27	1	2480	1	UBE2O	17	74395720	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1302	74395720	6799490	7055	29406											
SEC14L1	6397	broad.mit.edu	37	chr17	75209491	75209491	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagccttccccgggtggaCgacgtgcttgcgtccctgca	5	8	13	15	4	0	0	0	0	0	0	2	2	2	1	4	2	5	3	4	2	0	2	rs143199360		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:75209491C>T	uc002jto.2	+	16	2226	c.1959C>T	c.(1957-1959)GAC>GAT	p.D653D	SEC14L1_uc010dhc.2_Silent_p.D653D|SEC14L1_uc010wth.1_Silent_p.D653D|SEC14L1_uc002jtm.2_Silent_p.D653D|SEC14L1_uc010wti.1_Silent_p.D619D|SEC14L1_uc010wtj.1_Nonsense_Mutation_p.R142*|SEC14L1_uc002jtr.2_Silent_p.D47D	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	653	GOLD.				transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						CCCGGGTGGACGACGTGCTTG	0.612													4	43					0	0	1	0	0		T	75209491	T	T	75209491	2	4	27	1	0	0	0	0	0	0	0	1	14006	535	19	1		1	SEC14L1	17	75209491	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	813771	75209491	5985719	7056	29407											
SEC14L1	6397	broad.mit.edu	37	chr17	75210055	75210055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctcccagctgagtgccGccaccacctcctccagccag	6	7	8	20	1	1	1	0	1	1	0	4	1	3	1	8	0	3	2	8	0	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:75210055G>A	uc002jto.2	+	17	2365	c.2098G>A	c.(2098-2100)GCC>ACC	p.A700T	SEC14L1_uc010dhc.2_Missense_Mutation_p.A700T|SEC14L1_uc010wth.1_Missense_Mutation_p.A700T|SEC14L1_uc002jtm.2_Missense_Mutation_p.A700T|SEC14L1_uc010wti.1_Missense_Mutation_p.A666T|SEC14L1_uc010wtj.1_3'UTR|SEC14L1_uc002jtr.2_3'UTR	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	700					transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						GCTGAGTGCCGCCACCACCTC	0.667													8	48					0	0	1	0	0		A	75210055	A	A	75210055	3	1	27	1	0	0	0	0	1	0	0	0	14006	1087	38	1	2156	1	SEC14L1	17	75210055	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	564	75210055	5985155	7057	29408											
SEPT9	10801	broad.mit.edu	37	chr17	75478396	75478396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggccatgaagcagggcttcGagttcaacatcatggtggtc	10	9	13	9	1	2	1	2	1	0	0	4	2	2	1	1	4	2	3	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:75478396G>A	uc002jts.3	+	4	1018	c.892G>A	c.(892-894)GAG>AAG	p.E298K	SEPT9_uc010wtk.1_Missense_Mutation_p.E279K|SEPT9_uc002jtt.3_Missense_Mutation_p.E134K|SEPT9_uc002jtu.3_Missense_Mutation_p.E280K|SEPT9_uc002jtv.2_Missense_Mutation_p.E291K|SEPT9_uc002jtw.2_Missense_Mutation_p.E134K|SEPT9_uc002jtx.1_Missense_Mutation_p.E134K|SEPT9_uc010wtl.1_Missense_Mutation_p.E74K|SEPT9_uc002jty.3_Missense_Mutation_p.E47K|SEPT9_uc010wtm.1_Missense_Mutation_p.E47K|SEPT9_uc010wtn.1_Missense_Mutation_p.E47K|SEPT9_uc010dhd.2_Missense_Mutation_p.E186K	NM_001113491	NP_001106963	Q9UHD8	SEPT9_HUMAN	septin 9 isoform a	298					cell cycle|cell division|protein heterooligomerization	microtubule|perinuclear region of cytoplasm|stress fiber	GTP binding|GTPase activity|protein binding|protein binding			breast(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(99;0.153)			GCAGGGCTTCGAGTTCAACAT	0.617													6	29					0	0	1	0	0		A	75478396	A	A	75478396	3	1	27	1	0	0	0	0	1	0	0	0	14096	1059	37	1	1380	1	SEPT9	17	75478396	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	268341	75478396	5716814	7058	29409											
TNRC6C	57690	broad.mit.edu	37	chr17	76046762	76046762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgggggtttggggggactCgataagctctactgctgtta	6	11	15	9	2	1	0	0	0	1	0	2	2	1	1	1	5	3	4	1	5	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:76046762C>T	uc002jud.2	+	4	2219	c.1619C>T	c.(1618-1620)TCG>TTG	p.S540L	TNRC6C_uc002juf.2_Missense_Mutation_p.S540L|TNRC6C_uc002jue.2_Missense_Mutation_p.S540L	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	540	Sufficient for interaction with argonaute family proteins.				gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			TGGGGGGACTCGATAAGCTCT	0.607													23	87					0	0	1	0	0		T	76046762	T	T	76046762	3	4	27	1	0	0	0	0	1	0	0	0	16367	893	31	1	1621	1	TNRC6C	17	76046762	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	568366	76046762	5148448	7059	29410											
TMC8	147138	broad.mit.edu	37	chr17	76128901	76128901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggtagccgccagtccccgCctggcgttttgaggttccac	4	10	12	15	3	0	1	0	1	0	0	2	1	2	1	6	3	1	3	6	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:76128901C>T	uc002jup.2	+	5	863	c.481C>T	c.(481-483)CCT>TCT	p.P161S	TMC6_uc002jul.1_5'Flank|TMC8_uc002juq.2_5'UTR|TMC8_uc010wtr.1_5'Flank	NM_152468	NP_689681	Q8IU68	TMC8_HUMAN	transmembrane channel-like 8	161	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.192)			CCAGTCCCCGCCTGGCGTTTT	0.597									Epidermodysplasia_Verruciformis_Familial_Clustering_of				6	113					0	0	1	0	0		T	76128901	T	T	76128901	3	4	27	1	0	0	0	0	1	0	0	0	16016	739	26	2	495	2	TMC8	17	76128901	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	82139	76128901	5066309	7060	29411											
CYTH1	9267	broad.mit.edu	37	chr17	76698297	76698297	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaagtgttcttcaggaggTcgttctctattaagaactgg	10	13	10	8	1	3	1	1	0	2	1	5	2	3	2	0	3	1	2	0	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:76698297T>C	uc002jvw.2	-	5	334	c.263A>G	c.(262-264)GAC>GGC	p.D88G	CYTH1_uc010wtw.1_Missense_Mutation_p.D29G|CYTH1_uc010wtx.1_Missense_Mutation_p.D29G	NM_017456	NP_059430	Q15438	CYH1_HUMAN	cytohesin 1 isoform 2	88	SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						CTTCAGGAGGTCGTTCTCTAT	0.473													3	60					0	0	1	0	0		C	76698297	C	C	76698297	3	2	27	1	0	0	0	0	1	0	0	0	4206	1667	58	3	969	3	CYTH1	17	76698297	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	569396	76698297	4496913	7061	29412											
LGALS3BP	3959	broad.mit.edu	37	chr17	76968044	76968044	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggagtctggaaggactggtAggggtagtatctgtagtcag	9	11	17	4	0	3	0	1	0	2	0	3	3	3	3	0	6	0	4	0	6	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:76968044A>G	uc002jwh.2	-	6	1551	c.1372T>C	c.(1372-1374)TAC>CAC	p.Y458H	LGALS3BP_uc002jwi.2_Missense_Mutation_p.Y264H|LGALS3BP_uc010dhr.2_Missense_Mutation_p.Y264H	NM_005567	NP_005558	Q08380	LG3BP_HUMAN	galectin 3 binding protein	458					cell adhesion|cellular defense response	extracellular space|membrane|proteinaceous extracellular matrix	protein binding|scavenger receptor activity			central_nervous_system(3)|ovary(1)	4			BRCA - Breast invasive adenocarcinoma(99;0.0677)|OV - Ovarian serous cystadenocarcinoma(97;0.139)			AAGGACTGGTAGGGGTAGTAT	0.542											OREG0024787	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	46					0	0	1	0	0		G	76968044	G	G	76968044	3	3	27	1	0	0	0	0	1	0	0	0	8760	420	15	3	389	3	LGALS3BP	17	76968044	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	269747	76968044	4227166	7062	29413											
CBX8	57332	broad.mit.edu	37	chr17	77770303	77770303	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataacctacttacttctgcgAccatcccttccatttcacga	10	13	3	15	2	2	0	1	0	1	0	4	2	4	0	4	0	4	0	4	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:77770303A>G	uc002jxd.1	-	2	199	c.106T>C	c.(106-108)TCG>CCG	p.S36P		NM_020649	NP_065700	Q9HC52	CBX8_HUMAN	chromobox homolog 8	36	Chromo.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear chromatin|PcG protein complex	methylated histone residue binding				0			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			TACTTCTGCGACCATCCCTTC	0.438													19	82					0	0	1	0	0		G	77770303	G	G	77770303	3	3	27	1	0	0	0	0	1	0	0	0	2727	275	10	3	1054	3	CBX8	17	77770303	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	802259	77770303	3424907	7063	29414											
CBX4	8535	broad.mit.edu	37	chr17	77807929	77807929	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgccgctgccgccgccacCgccaccgccgccgacgccgg	3	2	14	22	9	0	0	0	0	0	0	0	1	0	0	10	2	2	1	10	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:77807929C>T	uc002jxe.2	-	5	1675	c.1512G>A	c.(1510-1512)GCG>GCA	p.A504A		NM_003655	NP_003646	O00257	CBX4_HUMAN	chromobox homolog 4	504	Interaction with BMI1.|Poly-Ala.				anti-apoptosis|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|PcG protein complex	enzyme binding|transcription corepressor activity			skin(2)	2			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			ccgccgccaccgccaccgccg	0.537													6	44					0	0	1	0	0		T	77807929	T	T	77807929	2	4	27	1	0	0	0	0	0	0	0	1	2723	639	23	1		1	CBX4	17	77807929	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37626	77807929	3387281	7064	29415											
CCDC40	55036	broad.mit.edu	37	chr17	78069165	78069165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacccaggccgaggggcagcGcaagatggacaggaaggcgc	11	1	17	12	3	0	1	0	0	0	1	0	4	0	3	2	6	1	2	2	6	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:78069165G>A	uc010dht.2	+	18	2963	c.2936G>A	c.(2935-2937)CGC>CAC	p.R979H	CCDC40_uc002jxm.3_Missense_Mutation_p.R762H|CCDC40_uc002jxn.3_Missense_Mutation_p.R375H	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	979					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GAGGGGCAGCGCAAGATGGAC	0.637													5	62					0	0	1	0	0		A	78069165	A	A	78069165	3	1	27	1	0	0	0	0	1	0	0	0	2815	1087	38	1	3006	1	CCDC40	17	78069165	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	261236	78069165	3126045	7065	29416											
SLC26A11	284129	broad.mit.edu	37	chr17	78195462	78195462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggccctgcagaggaggctgCccatcctggcgtggctgccc	4	6	15	16	2	0	1	0	0	0	1	1	2	1	2	4	5	3	3	4	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:78195462C>T	uc002jyb.1	+	3	372	c.103C>T	c.(103-105)CCC>TCC	p.P35S	SGSH_uc002jxz.3_5'Flank|SGSH_uc002jya.3_5'Flank|SGSH_uc002jxy.2_5'Flank|SGSH_uc010wue.1_5'Flank|SLC26A11_uc002jyc.1_Missense_Mutation_p.P35S|SLC26A11_uc002jyd.1_Missense_Mutation_p.P35S|SLC26A11_uc010dhv.1_Missense_Mutation_p.P35S	NM_173626	NP_775897	Q86WA9	S2611_HUMAN	solute carrier family 26, member 11	35	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|plasma membrane	anion:anion antiporter activity|secondary active sulfate transmembrane transporter activity				0	all_neural(118;0.0538)		OV - Ovarian serous cystadenocarcinoma(97;0.0344)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			GAGGAGGCTGCCCATCCTGGC	0.697													3	37					0	0	1	0	0		T	78195462	T	T	78195462	3	4	27	1	0	0	0	0	1	0	0	0	14541	739	26	2	105	2	SLC26A11	17	78195462	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	126297	78195462	2999748	7066	29417											
RNF213	57674	broad.mit.edu	37	chr17	78314040	78314040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccccaggcacccctcgaggCcatccaagcctacctggcag	8	4	9	20	1	0	0	0	0	0	0	2	1	1	0	8	3	2	2	8	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:78314040C>T	uc002jyh.1	+	1	315	c.92C>T	c.(91-93)GCC>GTC	p.A31V		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			CCCCTCGAGGCCATCCAAGCC	0.642													4	33					0	0	1	0	0		T	78314040	T	T	78314040	3	4	27	1	0	0	0	0	1	0	0	0	13502	739	26	2	6290	2	RNF213	17	78314040	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	118578	78314040	2881170	7067	29418											
RNF213	57674	broad.mit.edu	37	chr17	78318781	78318781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccatcctggtcagagcttCggaactttgctcggttcctg	6	12	10	13	2	1	1	1	0	0	1	5	2	3	2	3	3	3	3	3	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:78318781C>T	uc002jyh.1	+	4	1088	c.865C>T	c.(865-867)CGG>TGG	p.R289W		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GTCAGAGCTTCGGAACTTTGC	0.502													37	97					0	0	1	0	0		T	78318781	T	T	78318781	3	4	27	1	0	0	0	0	1	0	0	0	13502	875	31	1	7075	1	RNF213	17	78318781	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4741	78318781	2876429	7068	29419											
RNF213	57674	broad.mit.edu	37	chr17	78321547	78321547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtctggggacccaccgcGtcaaatgtcgggttcacccc	6	8	12	15	4	3	0	2	0	1	0	5	1	3	1	4	4	0	1	4	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:78321547G>A	uc002jyh.1	+	4	3854	c.3631G>A	c.(3631-3633)GTC>ATC	p.V1211I		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GACCCACCGCGTCAAATGTCG	0.562													19	48					0	0	1	0	0		A	78321547	A	A	78321547	3	1	27	1	0	0	0	0	1	0	0	0	13502	1145	40	1	9841	1	RNF213	17	78321547	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2766	78321547	2873663	7069	29420											
RNF213	57674	broad.mit.edu	37	chr17	78321938	78321938	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctacgcccgatgccgtggTccggctgagcgcctactcgc	4	7	13	17	7	0	1	0	1	0	0	2	2	1	1	4	2	4	2	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:78321938T>C	uc002jyh.1	+	4	4245	c.4022T>C	c.(4021-4023)GTC>GCC	p.V1341A		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GATGCCGTGGTCCGGCTGAGC	0.612													8	66					0	0	1	0	0		C	78321938	C	C	78321938	3	2	27	1	0	0	0	0	1	0	0	0	13502	1667	58	3	10232	3	RNF213	17	78321938	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	391	78321938	2873272	7070	29421											
RNF213	57674	broad.mit.edu	37	chr17	78343340	78343340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcccgcttccggcagatgtGcaacagtttcttcgtagacc	7	11	10	13	3	1	2	0	0	1	2	3	2	2	2	3	1	3	5	3	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:78343340G>A	uc002jyh.1	+	20	6636	c.6413G>A	c.(6412-6414)TGC>TAC	p.C2138Y	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.C520Y	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			CGGCAGATGTGCAACAGTTTC	0.507													8	127					0	0	1	0	0		A	78343340	A	A	78343340	3	1	27	1	0	0	0	0	1	0	0	0	13502	1319	46	2	12687	2	RNF213	17	78343340	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21402	78343340	2851870	7071	29422											
RNF213	57674	broad.mit.edu	37	chr17	78360533	78360533	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgaactgcatgtcatcAgttatgaagtggagcgggac	11	10	12	8	1	3	2	3	2	0	0	3	4	3	4	0	2	3	2	0	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:78360533A>C	uc002jyh.1	+	38	9206	c.8983A>C	c.(8983-8985)AGT>CGT	p.S2995R	uc002jyi.1_Intron|RNF213_uc010dhx.1_5'UTR	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GCATGTCATCAGTTATGAAGT	0.592													7	99					0	0	1	0	0		C	78360533	C	C	78360533	3	2	27	1	0	0	0	0	1	0	0	0	13502	188	7	5	15329	5	RNF213	17	78360533	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17193	78360533	2834677	7072	29423											
AZI1	22994	broad.mit.edu	37	chr17	79177336	79177336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagctcttgagcggaggcGccctctccgagggggtgtag	5	8	18	10	3	2	1	0	1	2	0	3	4	2	3	2	5	2	2	2	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:79177336G>A	uc002jzp.1	-	6	787	c.587C>T	c.(586-588)GCG>GTG	p.A196V	AZI1_uc002jzn.1_Missense_Mutation_p.A196V|AZI1_uc002jzo.1_Missense_Mutation_p.A196V|AZI1_uc010wum.1_Missense_Mutation_p.A196V	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	196					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			GAGCGGAGGCGCCCTCTCCGA	0.642													3	14					0	0	1	0	0		A	79177336	A	A	79177336	3	1	27	1	0	0	0	0	1	0	0	0	1241	1087	38	1	2739	1	AZI1	17	79177336	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	816803	79177336	2017874	7073	29424											
SLC38A10	124565	broad.mit.edu	37	chr17	79226324	79226324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtcgggcagaggcggcGccatctggccctggacccct	5	6	15	15	3	1	2	0	1	1	1	2	3	1	3	4	5	0	1	4	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:79226324G>A	uc002jzz.1	-	13	1991	c.1616C>T	c.(1615-1617)GCG>GTG	p.A539V	SLC38A10_uc002jzy.1_Missense_Mutation_p.A457V|SLC38A10_uc002kab.2_Missense_Mutation_p.A539V	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	539					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CAGAGGCGGCGCCATCTGGCC	0.627													20	60					0	0	1	0	0		A	79226324	A	A	79226324	3	1	27	1	0	0	0	0	1	0	0	0	14627	1087	38	1	2037	1	SLC38A10	17	79226324	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	48988	79226324	1968886	7074	29425											
SLC38A10	124565	broad.mit.edu	37	chr17	79254484	79254484	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggacgtagctgacccgcCgcagccactgcccactgaag	9	4	12	16	4	0	2	0	2	0	0	0	3	0	3	4	1	4	3	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:79254484C>A	uc002jzz.1	-	6	926	c.551G>T	c.(550-552)CGG>CTG	p.R184L	SLC38A10_uc002jzy.1_Missense_Mutation_p.R102L|SLC38A10_uc002kab.2_Missense_Mutation_p.R184L	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	184					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			GCTGACCCGCCGCAGCCACTG	0.652													3	21					1	1	1	1	0		A	79254484	A	A	79254484	3	1	27	1	0	0	0	0	1	0	0	0	14627	652	23	5	3130	5	SLC38A10	17	79254484	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	28160	79254484	1940726	7075	29426											
SLC25A10	1468	broad.mit.edu	37	chr17	79687071	79687071	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttttgtgtttctggaacaGctacgcaaaaactttggcat	11	14	8	8	1	1	0	0	0	1	0	1	1	1	1	0	2	4	4	0	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:79687071G>T	uc002kbi.2	+	11	914	c.828G>T	c.(826-828)CAG>CAT	p.Q276H	SLC25A10_uc010wut.1_Missense_Mutation_p.Q431H|SLC25A10_uc010dif.2_Missense_Mutation_p.Q285H|SLC25A10_uc010wuu.1_Missense_Mutation_p.Q230H	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	276	Solcar 3.				gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)	TTCTGGAACAGCTACGCAAAA	0.572													6	70					0.0293803	0.0298427	1	1	0		T	79687071	T	T	79687071	3	4	27	1	0	0	0	0	1	0	0	0	14497	962	34	5	870	5	SLC25A10	17	79687071	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	432587	79687071	1508139	7076	29427											
P4HB	5034	broad.mit.edu	37	chr17	79803083	79803083	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttaaaaccatccagcgtGcgttccccgttgtaatcaat	10	13	6	12	3	2	0	1	0	1	0	4	0	4	0	4	0	3	3	4	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:79803083G>A	uc002kbn.1	-	10	1580	c.1383C>T	c.(1381-1383)CGC>CGT	p.R461R	P4HB_uc002kbl.1_Silent_p.R138R|P4HB_uc002kbm.1_Silent_p.R138R	NM_000918	NP_000909	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta subunit precursor	461	Thioredoxin 2.	Lowers pKa of C-terminal Cys of second active site (By similarity).			cell redox homeostasis|glycerol ether metabolic process|lipid metabolic process|lipoprotein metabolic process|peptidyl-proline hydroxylation to 4-hydroxy-L-proline	cell surface|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|extracellular region|melanosome|plasma membrane	electron carrier activity|procollagen-proline 4-dioxygenase activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			CATCCAGCGTGCGTTCCCCGT	0.597													10	33					0	0	1	0	0		A	79803083	A	A	79803083	2	1	27	1	0	0	0	0	0	0	0	1	11378	1306	46	2		2	P4HB	17	79803083	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	116012	79803083	1392127	7077	29428											
P4HB	5034	broad.mit.edu	37	chr17	79804462	79804462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccaaagaactcgaggatgCgctggttgtcggtgtggtcg	7	9	17	8	4	0	1	0	0	0	1	3	3	0	2	1	5	2	2	1	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:79804462C>T	uc002kbn.1	-	7	1096	c.899G>A	c.(898-900)CGC>CAC	p.R300H	P4HB_uc002kbl.1_5'UTR|P4HB_uc002kbm.1_5'UTR	NM_000918	NP_000909	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta subunit precursor	300					cell redox homeostasis|glycerol ether metabolic process|lipid metabolic process|lipoprotein metabolic process|peptidyl-proline hydroxylation to 4-hydroxy-L-proline	cell surface|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|extracellular region|melanosome|plasma membrane	electron carrier activity|procollagen-proline 4-dioxygenase activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			CTCGAGGATGCGCTGGTTGTC	0.602													7	45					0	0	1	0	0		T	79804462	T	T	79804462	3	4	27	1	0	0	0	0	1	0	0	0	11378	768	27	1	647	1	P4HB	17	79804462	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1379	79804462	1390748	7078	29429											
ARHGDIA	396	broad.mit.edu	37	chr17	79826767	79826767	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctcagtccttccagtcCttcttgatggtgagattcca	6	14	10	11	0	2	2	1	2	1	1	6	3	6	2	4	2	0	1	4	2	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:79826767C>A	uc002kbp.2	-	5	639	c.600G>T	c.(598-600)AAG>AAT	p.K200N	ARHGDIA_uc002kjk.1_Missense_Mutation_p.K75N|ARHGDIA_uc002kbq.2_Missense_Mutation_p.K200N|ARHGDIA_uc002kbr.2_Missense_Mutation_p.R173M|ARHGDIA_uc002kbs.1_Intron|ARHGDIA_uc002kbt.1_Intron	NM_004309	NP_004300	P52565	GDIR1_HUMAN	Rho GDP dissociation inhibitor (GDI) alpha	200					anti-apoptosis|cellular component movement|negative regulation of axonogenesis|negative regulation of cell adhesion|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytoskeleton|cytosol	GTPase activator activity|identical protein binding|Rho GDP-dissociation inhibitor activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CCTTCCAGTCCTTCTTGATGG	0.642													8	62					0.000274275	0.000288501	1	1	0		A	79826767	A	A	79826767	3	1	27	1	0	0	0	0	1	0	0	0	890	680	24	5	18	5	ARHGDIA	17	79826767	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	22305	79826767	1368443	7079	29430											
SIRT7	51547	broad.mit.edu	37	chr17	79873553	79873553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccggtagtctgggatagacGctgcctgcatgtcgagaaaa	10	8	13	10	3	1	2	0	0	1	2	2	4	1	3	2	2	2	3	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:79873553G>A	uc002kcj.1	-	4	374	c.341C>T	c.(340-342)GCG>GTG	p.A114V	SIRT7_uc002kck.1_5'UTR|SIRT7_uc002kcl.1_Missense_Mutation_p.A32V	NM_016538	NP_057622	Q9NRC8	SIRT7_HUMAN	sirtuin 7	114	Deacetylase sirtuin-type.|NAD (By similarity).				chromatin silencing|positive regulation of transcription on exit from mitosis|protein deacetylation|rRNA transcription	cytoplasm|nucleolus organizer region	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ binding|protein binding|zinc ion binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0165)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			TGGGATAGACGCTGCCTGCAT	0.552													3	17					0	0	1	0	0		A	79873553	A	A	79873553	3	1	27	1	0	0	0	0	1	0	0	0	14368	1087	38	1	889	1	SIRT7	17	79873553	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46786	79873553	1321657	7080	29431											
RAC3	5881	broad.mit.edu	37	chr17	79990609	79990609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacaactactctgccaacGtgatggtggacgggaaacca	12	8	11	10	2	1	2	0	2	1	0	1	4	1	4	2	3	5	0	2	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:79990609G>A	uc002kdf.2	+	3	236	c.130G>A	c.(130-132)GTG>ATG	p.V44M		NM_005052	NP_005043	P60763	RAC3_HUMAN	ras-related C3 botulinum toxin substrate 3 (rho	44					actin cytoskeleton organization|cell projection assembly|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endomembrane system|filamentous actin|growth cone|lamellipodium|neuronal cell body|plasma membrane	GTP binding|GTPase activity|protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			CTCTGCCAACGTGATGGTGGA	0.617													25	56					0	0	1	0	0		A	79990609	A	A	79990609	3	1	27	1	0	0	0	0	1	0	0	0	13001	1145	40	1	140	1	RAC3	17	79990609	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	117056	79990609	1204601	7081	29432											
GPS1	2873	broad.mit.edu	37	chr17	80011878	80011878	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgtgcagagaacctttaaCgtggacatgtacgaggagat	12	10	12	7	3	0	2	0	0	0	2	1	6	0	3	1	2	4	2	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:80011878C>T	uc002kdl.1	+	3	306	c.261C>T	c.(259-261)AAC>AAT	p.N87N	RFNG_uc002kdj.2_5'Flank|GPS1_uc002kdk.1_Silent_p.N127N|GPS1_uc010dij.1_Silent_p.N127N|GPS1_uc002kdm.1_Silent_p.N71N|GPS1_uc002kdn.1_Silent_p.N87N|GPS1_uc002kdo.1_Silent_p.N87N|GPS1_uc010wvh.1_Silent_p.N79N	NM_004127	NP_004118	Q13098	CSN1_HUMAN	G protein pathway suppressor 1 isoform 2	87					cell cycle|cullin deneddylation|inactivation of MAPK activity|JNK cascade	cytoplasm|signalosome	GTPase inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			GAACCTTTAACGTGGACATGT	0.617													9	20					0	0	1	0	0		T	80011878	T	T	80011878	2	4	27	1	0	0	0	0	0	0	0	1	6748	535	19	1		1	GPS1	17	80011878	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	21269	80011878	1183332	7082	29433											
GPS1	2873	broad.mit.edu	37	chr17	80014394	80014394	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccccatgtcaggaccctgTacacccagattcgcaaccgt	9	7	7	18	2	1	1	1	0	0	1	2	2	1	2	6	1	2	2	6	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:80014394T>C	uc002kdl.1	+	10	1141	c.1096T>C	c.(1096-1098)TAC>CAC	p.Y366H	GPS1_uc002kdk.1_Missense_Mutation_p.Y402H|GPS1_uc010dij.1_Missense_Mutation_p.Y401H|GPS1_uc002kdm.1_Missense_Mutation_p.Y346H|GPS1_uc002kdn.1_Missense_Mutation_p.Y362H|GPS1_uc002kdo.1_Missense_Mutation_p.Y365H|GPS1_uc010wvh.1_Missense_Mutation_p.Y358H	NM_004127	NP_004118	Q13098	CSN1_HUMAN	G protein pathway suppressor 1 isoform 2	366	PCI.				cell cycle|cullin deneddylation|inactivation of MAPK activity|JNK cascade	cytoplasm|signalosome	GTPase inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			CAGGACCCTGTACACCCAGAT	0.662													3	28					0	0	1	0	0		C	80014394	C	C	80014394	3	2	27	1	0	0	0	0	1	0	0	0	6748	1638	57	3	1291	3	GPS1	17	80014394	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2516	80014394	1180816	7083	29434											
CCDC57	284001	broad.mit.edu	37	chr17	80136446	80136446	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaccacctcctgctcctgTagcgcctgctctgtctcctg	4	11	8	18	1	2	0	0	0	2	0	5	0	4	0	6	0	4	4	6	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:80136446T>C	uc002kdz.1	-	11	1765	c.1410A>G	c.(1408-1410)CTA>CTG	p.L470L	CCDC57_uc002kdx.1_Silent_p.L470L|CCDC57_uc010dik.1_5'UTR	NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	470	Potential.									ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			CCTGCTCCTGTAGCGCCTGCT	0.647													8	29					0	0	1	0	0		C	80136446	C	C	80136446	2	2	27	1	0	0	0	0	0	0	0	1	2830	1625	57	3		3	CCDC57	17	80136446	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	122052	80136446	1058764	7084	29435											
CCDC57	284001	broad.mit.edu	37	chr17	80159603	80159603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcgaaggcggcgtcatagCgctccagctcgaggtcccgc	6	5	16	14	6	1	0	1	0	0	0	4	2	3	0	2	4	2	2	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:80159603C>T	uc002kdz.1	-	3	573	c.218G>A	c.(217-219)CGC>CAC	p.R73H	CCDC57_uc002kdx.1_Missense_Mutation_p.R73H	NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	73	Potential.									ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			GGCGTCATAGCGCTCCAGCTC	0.652													21	57					0	0	1	0	0		T	80159603	T	T	80159603	3	4	27	1	0	0	0	0	1	0	0	0	2830	768	27	1	2593	1	CCDC57	17	80159603	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23157	80159603	1035607	7085	29436											
C17orf62	79415	broad.mit.edu	37	chr17	80402405	80402405	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaccatgtagcctttccCgaagtaccggaccttctcct	8	10	6	17	2	1	0	0	0	1	0	3	2	2	1	7	1	2	2	7	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:80402405C>T	uc002kez.2	-	5	409	c.361G>A	c.(361-363)GGG>AGG	p.G121R	C17orf62_uc002kex.2_5'UTR|C17orf62_uc002key.2_5'UTR|C17orf62_uc002kfa.2_Missense_Mutation_p.G121R|C17orf62_uc010dir.2_Missense_Mutation_p.G121R|C17orf62_uc002kfb.3_Missense_Mutation_p.G121R|C17orf62_uc002kfc.3_Missense_Mutation_p.G107R|C17orf62_uc002kfd.3_5'UTR|C17orf62_uc002kfe.3_5'UTR	NM_001100407	NP_001093877	Q9BQA9	CQ062_HUMAN	hypothetical protein LOC79415 isoform a	121						integral to membrane	protein binding				0	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			TAGCCTTTCCCGAAGTACCGG	0.642													6	76					0	0	1	0	0		T	80402405	T	T	80402405	3	4	27	1	0	0	0	0	1	0	0	0	1873	652	23	1	210	1	C17orf62	17	80402405	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	242802	80402405	792805	7086	29437											
NARF	26502	broad.mit.edu	37	chr17	80441653	80441653	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagatgctgccgtcgacacTctgtaagtggcttctctggg	7	11	13	10	2	2	1	0	0	2	1	4	3	2	1	1	2	2	3	1	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:80441653T>G	uc002kfg.3	+	8	971	c.831T>G	c.(829-831)ACT>ACG	p.T277T	NARF_uc002kff.3_Silent_p.T218T|NARF_uc010wvp.1_Silent_p.T149T|NARF_uc010dit.2_Silent_p.T323T|NARF_uc002kfj.3_Silent_p.T229T|NARF_uc002kfi.3_RNA|NARF_uc002kfh.3_Silent_p.T323T|NARF_uc002kfk.2_RNA	NM_012336	NP_036468	Q9UHQ1	NARF_HUMAN	nuclear prelamin A recognition factor isoform a	277						lamin filament	lamin binding			skin(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			CCGTCGACACTCTGTAAGTGG	0.557													11	63					0	0	1	0	0		G	80441653	G	G	80441653	2	3	27	1	0	0	0	0	0	0	0	1	10185	1538	54	5		5	NARF	17	80441653	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	39248	80441653	753557	7087	29438											
NARF	26502	broad.mit.edu	37	chr17	80443439	80443439	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttacgctttgctgcagcCtatggctttcgaaacatcca	8	13	9	11	2	0	0	0	0	0	0	2	1	1	0	2	1	5	5	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:80443439C>A	uc002kfg.3	+	10	1178	c.1038C>A	c.(1036-1038)GCC>GCA	p.A346A	NARF_uc002kff.3_Silent_p.A287A|NARF_uc010dit.2_Silent_p.A392A|NARF_uc002kfj.3_Silent_p.A298A|NARF_uc002kfi.3_RNA|NARF_uc002kfh.3_Silent_p.A392A|NARF_uc002kfk.2_RNA	NM_012336	NP_036468	Q9UHQ1	NARF_HUMAN	nuclear prelamin A recognition factor isoform a	346						lamin filament	lamin binding			skin(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			TTGCTGCAGCCTATGGCTTTC	0.483													9	137					5.4927e-09	6.05217e-09	1	1	0		A	80443439	A	A	80443439	2	1	27	1	0	0	0	0	0	0	0	1	10185	668	24	5		5	NARF	17	80443439	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1786	80443439	751771	7088	29439											
TBCD	6904	broad.mit.edu	37	chr17	80861301	80861301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcatccgagagttggctgCgagggcgctgcacaacctgg	7	7	16	11	3	1	1	1	0	0	1	2	3	2	1	2	4	3	4	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr17:80861301C>T	uc002kfz.2	+	19	1881	c.1751C>T	c.(1750-1752)GCG>GTG	p.A584V	TBCD_uc002kfx.1_Missense_Mutation_p.A567V|TBCD_uc002kfy.1_Missense_Mutation_p.A584V|TBCD_uc002kgb.1_5'UTR	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	584	HEAT 2.				'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			GAGTTGGCTGCGAGGGCGCTG	0.557													4	20					0	0	1	0	0		T	80861301	T	T	80861301	3	4	27	1	0	0	0	0	1	0	0	0	15658	768	27	1	1825	1	TBCD	17	80861301	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	417862	80861301	333909	7089	29440											
THOC1	9984	broad.mit.edu	37	chr18	214854	214854	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagaatcttccattgttcAcccagcttgttggcaaatac	10	12	7	12	0	2	1	1	0	1	1	3	1	3	1	3	1	2	4	3	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:214854A>C	uc002kkj.3	-	21	1786	c.1746T>G	c.(1744-1746)GGT>GGG	p.G582G	THOC1_uc002kkk.3_RNA|THOC1_uc002kkh.3_Silent_p.G206G	NM_005131	NP_005122	Q96FV9	THOC1_HUMAN	THO complex 1	582	Death.				apoptosis|intronless viral mRNA export from host nucleus|mRNA processing|regulation of transcription elongation, DNA-dependent|RNA splicing|signal transduction|transcription, DNA-dependent	cytoplasm|nuclear matrix|nuclear speck|THO complex part of transcription export complex	DNA binding|protein binding|RNA binding			ovary(1)	1		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				TCCATTGTTCACCCAGCTTGT	0.418													13	131					0	0	1	0	0		C	214854	C	C	214854	2	2	27	1	0	0	0	0	0	0	0	1	15889	146	6	5		5	THOC1	18	214854	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08		214854	77862394	7090	29441											
COLEC12	81035	broad.mit.edu	37	chr18	346621	346621	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaaagagctggaagcgtTcctccagttggttgaacttg	9	12	11	9	1	1	2	1	1	1	1	4	3	3	3	2	2	3	4	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:346621T>C	uc002kkm.2	-	5	1216	c.1001A>G	c.(1000-1002)GAA>GGA	p.E334G		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	334	Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				CTGGAAGCGTTCCTCCAGTTG	0.468													3	78					0	0	1	0	0		C	346621	C	C	346621	3	2	27	1	0	0	0	0	1	0	0	0	3715	1783	62	3	1251	3	COLEC12	18	346621	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	131767	346621	77730627	7091	29442											
COLEC12	81035	broad.mit.edu	37	chr18	480755	480755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctcctcctctgcgaagtCgtctgtgagagaagaagaga	10	9	11	11	2	2	4	0	1	2	3	6	7	5	4	3	0	1	0	3	0	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:480755C>T	uc002kkm.2	-	2	225	c.10G>A	c.(10-12)GAC>AAC	p.D4N		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	4	Cytoplasmic (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				TCTGCGAAGTCGTCTGTGAGA	0.512													8	82					0	0	1	0	0		T	480755	T	T	480755	3	4	27	1	0	0	0	0	1	0	0	0	3715	884	31	1	2254	1	COLEC12	18	480755	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	134134	480755	77596493	7092	29443											
CETN1	1068	broad.mit.edu	37	chr18	580531	580531	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcatttgacctcttcgaCgtggacggaagtgggaccat	10	9	13	9	3	1	1	0	1	1	0	2	6	1	4	2	3	1	1	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:580531C>T	uc002kko.1	+	1	165	c.123C>T	c.(121-123)GAC>GAT	p.D41D		NM_004066	NP_004057	Q12798	CETN1_HUMAN	centrin 1	41	1 (Probable).|EF-hand 1.				cell division|mitosis	spindle pole	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding			upper_aerodigestive_tract(1)|ovary(1)	2						ACCTCTTCGACGTGGACGGAA	0.567													4	28					0	0	1	0	0		T	580531	T	T	580531	2	4	27	1	0	0	0	0	0	0	0	1	3277	535	19	1		1	CETN1	18	580531	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	99776	580531	77496717	7093	29444											
TYMS	7298	broad.mit.edu	37	chr18	659673	659673	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgacaaccaaacgtgtgTtctggaagggtgttttggag	9	12	14	6	1	1	1	0	1	1	0	1	3	1	3	1	3	3	3	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:659673T>C	uc010dka.1	+	2	377	c.238T>C	c.(238-240)TTC>CTC	p.F80L	C18orf56_uc002kkr.2_5'Flank|TYMS_uc010dkb.1_Missense_Mutation_p.F80L|TYMS_uc010dkc.1_Intron	NM_001071	NP_001062	P04818	TYSY_HUMAN	thymidylate synthase	80					DNA repair|DNA replication|phosphatidylinositol-mediated signaling|pyrimidine base metabolic process|pyrimidine nucleoside biosynthetic process|regulation of transcription involved in G1/S phase of mitotic cell cycle|response to organophosphorus	cytosol	thymidylate synthase activity				0					Capecitabine(DB01101)|Floxuridine(DB00322)|Fluorouracil(DB00544)|Gemcitabine(DB00441)|Leucovorin(DB00650)|Pemetrexed(DB00642)|Raltitrexed(DB00293)|Trifluridine(DB00432)	CAAACGTGTGTTCTGGAAGGG	0.373													12	133					0	0	1	0	0		C	659673	C	C	659673	3	2	27	1	0	0	0	0	1	0	0	0	16838	1725	60	3	244	3	TYMS	18	659673	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	79142	659673	77417575	7094	29445											
EMILIN2	84034	broad.mit.edu	37	chr18	2885039	2885039	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaatggaggtgctgtcctgGctttagagggggagattgcc	7	10	18	6	0	0	2	0	0	0	2	1	5	1	4	2	6	2	2	2	6	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:2885039G>T	uc002kln.2	+	3	494	c.335G>T	c.(334-336)GGC>GTC	p.G112V		NM_032048	NP_114437	Q9BXX0	EMIL2_HUMAN	elastin microfibril interfacer 2 precursor	112	EMI.				cell adhesion	collagen	extracellular matrix constituent conferring elasticity|protein binding			skin(2)|ovary(1)	3				READ - Rectum adenocarcinoma(2;0.1)		TGCTGTCCTGGCTTTAGAGGG	0.542													10	92					6.40141e-05	6.80234e-05	1	1	0		T	2885039	T	T	2885039	3	4	27	1	0	0	0	0	1	0	0	0	5102	1203	42	5	345	5	EMILIN2	18	2885039	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2225366	2885039	75192209	7095	29446											
MYOM1	8736	broad.mit.edu	37	chr18	3142042	3142042	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgacagagaggtctgtcggGgggccaggcacaataccctc	9	6	15	11	1	1	2	0	1	1	1	3	3	1	2	2	5	1	1	2	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:3142042G>A	uc002klp.2	-	14	2254	c.1920C>T	c.(1918-1920)CCC>CCT	p.P640P	MYOM1_uc002klq.2_Silent_p.P640P	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	640	Fibronectin type-III 2.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GGTCTGTCGGGGGGCCAGGCA	0.552													10	91					0	0	1	0	0		A	3142042	A	A	3142042	2	1	27	1	0	0	0	0	0	0	0	1	10109	1219	43	4		4	MYOM1	18	3142042	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	257003	3142042	74935206	7096	29447											
DLGAP1	9229	broad.mit.edu	37	chr18	3879483	3879483	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagcccggggaggtgcTgggccgggccttgggctccg	3	5	18	15	3	0	0	0	0	0	0	1	1	1	1	6	6	2	2	6	6	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:3879483T>C	uc002kmf.2	-	1	653	c.586A>G	c.(586-588)AGC>GGC	p.S196G	DLGAP1_uc010wyz.1_Missense_Mutation_p.S196G|DLGAP1_uc002kmk.2_Missense_Mutation_p.S196G|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	196					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				GGGGAGGTGCTGGGCCGGGCC	0.701													9	120					0	0	1	0	0		C	3879483	C	C	3879483	3	2	27	1	0	0	0	0	1	0	0	0	4565	1580	55	3	2442	3	DLGAP1	18	3879483	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	737441	3879483	74197765	7097	29448											
ZFP161	7541	broad.mit.edu	37	chr18	5291330	5291330	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagtttctcatgcttccTcaatctgccttcatcagaaa	9	14	7	11	0	5	1	4	0	2	1	7	2	6	2	2	1	2	2	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:5291330T>C	uc002kmq.2	-	4	1038	c.877A>G	c.(877-879)AGG>GGG	p.R293G	ZFP161_uc002kmr.2_Missense_Mutation_p.R293G|ZFP161_uc010dkp.2_Missense_Mutation_p.R293G	NM_003409	NP_003400	O43829	ZF161_HUMAN	zinc finger protein 161 homolog	293	C2H2-type 1.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCATGCTTCCTCAATCTGCCT	0.483													7	40					0	0	1	0	0		C	5291330	C	C	5291330	3	2	27	1	0	0	0	0	1	0	0	0	17665	1550	54	3	476	3	ZFP161	18	5291330	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1411847	5291330	72785918	7098	29449											
EPB41L3	23136	broad.mit.edu	37	chr18	5395110	5395110	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtgatgactattcgctTctcaattcttgtctctgaaa	8	15	6	12	2	3	3	1	3	3	0	6	3	3	3	2	0	0	1	2	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:5395110T>C	uc002kmt.1	-	21	3195	c.3109A>G	c.(3109-3111)AAG>GAG	p.K1037E	EPB41L3_uc010wzh.1_Missense_Mutation_p.K868E|EPB41L3_uc002kmu.1_Missense_Mutation_p.K815E|EPB41L3_uc010dkq.1_Missense_Mutation_p.K706E|EPB41L3_uc002kms.1_Missense_Mutation_p.K272E|EPB41L3_uc010wze.1_Missense_Mutation_p.K342E|EPB41L3_uc010wzf.1_Missense_Mutation_p.K334E|EPB41L3_uc010wzg.1_Missense_Mutation_p.K309E|EPB41L3_uc010dkr.2_Missense_Mutation_p.K429E	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	1037	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						ACTATTCGCTTCTCAATTCTT	0.453													6	91					0	0	1	0	0		C	5395110	C	C	5395110	3	2	27	1	0	0	0	0	1	0	0	0	5162	1792	62	3	162	3	EPB41L3	18	5395110	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	103780	5395110	72682138	7099	29450											
L3MBTL4	91133	broad.mit.edu	37	chr18	5969507	5969507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagggtgggctgacaccGtggacatggacactgactgg	11	6	16	8	1	0	2	0	2	0	0	0	5	0	4	1	5	0	1	1	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:5969507G>A	uc002kmz.3	-	18	1686	c.1526C>T	c.(1525-1527)ACG>ATG	p.T509M	L3MBTL4_uc010dkt.2_Missense_Mutation_p.T509M|L3MBTL4_uc002kmy.3_Missense_Mutation_p.T338M	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	509					chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				GGCTGACACCGTGGACATGGA	0.622													4	62					0	0	1	0	0		A	5969507	A	A	5969507	3	1	27	1	0	0	0	0	1	0	0	0	8610	1145	40	1	357	1	L3MBTL4	18	5969507	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	574397	5969507	72107741	7100	29451											
L3MBTL4	91133	broad.mit.edu	37	chr18	6239717	6239717	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacacattcatatctcacCagtaatcgtaactatcatcc	15	11	2	13	1	3	0	3	0	1	0	6	0	4	0	2	0	2	2	2	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:6239717C>A	uc002kmz.3	-	9	867	c.707G>T	c.(706-708)TGG>TTG	p.W236L	L3MBTL4_uc010dkt.2_Missense_Mutation_p.W236L|L3MBTL4_uc002kmy.3_Missense_Mutation_p.W74L	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	236	MBT 2.				chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				CATATCTCACCAGTAATCGTA	0.363													6	63					0.00198382	0.00205548	1	1	0		A	6239717	A	A	6239717	3	1	27	1	0	0	0	0	1	0	0	0	8610	608	21	5	1212	5	L3MBTL4	18	6239717	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	270210	6239717	71837531	7101	29452											
LAMA1	284217	broad.mit.edu	37	chr18	6943249	6943249	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgtgtggactttcagcGccaactgcgttcccgtcaac	6	11	12	12	3	2	0	2	0	0	0	3	1	3	1	2	2	4	1	2	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:6943249G>A	uc002knm.2	-	62	9091	c.8997C>T	c.(8995-8997)GGC>GGT	p.G2999G	LAMA1_uc002knk.2_Silent_p.G329G|LAMA1_uc002knl.2_Silent_p.G452G|LAMA1_uc010wzj.1_Silent_p.G2475G	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2999	Laminin G-like 5.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GACTTTCAGCGCCAACTGCGT	0.493													14	133					0	0	1	0	0		A	6943249	A	A	6943249	2	1	27	1	0	0	0	0	0	0	0	1	8621	1074	38	1		1	LAMA1	18	6943249	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	703532	6943249	71133999	7102	29453											
LAMA1	284217	broad.mit.edu	37	chr18	6949194	6949194	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatctcccaccacagtcAccatgggagactctcggccg	8	8	8	17	2	3	1	1	0	2	1	6	2	4	1	5	2	0	0	5	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:6949194A>G	uc002knm.2	-	59	8556	c.8462T>C	c.(8461-8463)GTG>GCG	p.V2821A	LAMA1_uc002knk.2_Missense_Mutation_p.V151A|LAMA1_uc002knl.2_Missense_Mutation_p.V274A|LAMA1_uc010wzj.1_Missense_Mutation_p.V2297A	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2821	Laminin G-like 4.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CACCACAGTCACCATGGGAGA	0.478													4	38					0	0	1	0	0		G	6949194	G	G	6949194	3	3	27	1	0	0	0	0	1	0	0	0	8621	159	6	3	785	3	LAMA1	18	6949194	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5945	6949194	71128054	7103	29454											
LAMA1	284217	broad.mit.edu	37	chr18	7049169	7049169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctaatgcgttgcaagcgaaGgcgaatatatcgtgcagaag	13	9	12	7	4	1	1	0	0	1	1	2	3	1	1	0	1	4	3	0	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:7049169G>A	uc002knm.2	-	5	770	c.676C>T	c.(676-678)CTT>TTT	p.L226F	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	226	Laminin N-terminal.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGCAAGCGAAGGCGAATATAT	0.463													9	118					0	0	1	0	0		A	7049169	A	A	7049169	3	1	27	1	0	0	0	0	1	0	0	0	8621	1000	35	4	8787	4	LAMA1	18	7049169	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	99975	7049169	71028079	7104	29455											
PTPRM	5797	broad.mit.edu	37	chr18	8069784	8069784	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataatgtaactcgttgccaCagttataatctcactgtcca	12	14	5	10	1	1	0	1	0	1	0	4	0	2	0	2	0	2	3	2	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:8069784C>T	uc002knn.3	+	8	1736	c.1233C>T	c.(1231-1233)CAC>CAT	p.H411H	PTPRM_uc010dkv.2_Silent_p.H411H|PTPRM_uc010wzl.1_Silent_p.H198H	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	411	Fibronectin type-III 2.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				CTCGTTGCCACAGTTATAATC	0.453													4	23					0	0	1	0	0		T	8069784	T	T	8069784	2	4	27	1	0	0	0	0	0	0	0	1	12831	477	17	4		4	PTPRM	18	8069784	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1020615	8069784	70007464	7105	29456											
PTPRM	5797	broad.mit.edu	37	chr18	8370924	8370924	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggccagatgacacagagAtatataaagacattaaagtt	18	9	8	6	0	0	4	0	1	0	3	0	5	0	4	1	1	0	1	1	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:8370924A>T	uc002knn.3	+	22	3555	c.3052A>T	c.(3052-3054)ATA>TTA	p.I1018L	PTPRM_uc010dkv.2_Missense_Mutation_p.I1031L|PTPRM_uc010wzl.1_Missense_Mutation_p.I805L	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1018	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				TGACACAGAGATATATAAAGA	0.333													5	73					0	0	1	0	0		T	8370924	T	T	8370924	3	4	27	1	0	0	0	0	1	0	0	0	12831	333	12	5	3185	5	PTPRM	18	8370924	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	301140	8370924	69706324	7106	29457											
PTPRM	5797	broad.mit.edu	37	chr18	8376167	8376167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagtcaagtccaagagcccgCccagtgcaggcccactggtg	10	5	12	14	1	1	1	1	0	0	1	2	1	2	1	4	2	2	1	4	2	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:8376167C>T	uc002knn.3	+	23	3759	c.3256C>T	c.(3256-3258)CCC>TCC	p.P1086S	PTPRM_uc010dkv.2_Missense_Mutation_p.P1099S|PTPRM_uc010wzl.1_Missense_Mutation_p.P873S	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1086	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				CAAGAGCCCGCCCAGTGCAGG	0.527													9	36					0	0	1	0	0		T	8376167	T	T	8376167	3	4	27	1	0	0	0	0	1	0	0	0	12831	739	26	2	3393	2	PTPRM	18	8376167	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5243	8376167	69701081	7107	29458											
ANKRD12	23253	broad.mit.edu	37	chr18	9211676	9211676	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataaagttaataaaagaaaTgaacgtggtgaaactccttt	18	11	8	4	1	0	3	0	2	0	1	1	4	1	3	1	1	2	1	1	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:9211676T>C	uc002knv.2	+	6	803	c.546T>C	c.(544-546)AAT>AAC	p.N182N	ANKRD12_uc010wzn.1_Silent_p.N182N|ANKRD12_uc002knw.2_Silent_p.N159N|ANKRD12_uc002knx.2_Silent_p.N159N	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	182						nucleus				ovary(2)|central_nervous_system(1)	3						ATAAAAGAAATGAACGTGGTG	0.368													4	50					0	0	1	0	0		C	9211676	C	C	9211676	2	2	27	1	0	0	0	0	0	0	0	1	640	1461	51	3		3	ANKRD12	18	9211676	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	835509	9211676	68865572	7108	29459											
RALBP1	10928	broad.mit.edu	37	chr18	9522203	9522203	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagcagcctatgaccgggAggagtctacaaacttggaag	15	6	12	8	1	1	1	0	1	1	0	1	4	1	4	2	3	4	1	2	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:9522203A>G	uc002kob.2	+	4	972	c.749A>G	c.(748-750)GAG>GGG	p.E250G	RALBP1_uc002koc.2_Missense_Mutation_p.E250G	NM_006788	NP_006779	Q15311	RBP1_HUMAN	ralA binding protein 1	250	Rho-GAP.				chemotaxis|positive regulation of Cdc42 GTPase activity|small GTPase mediated signal transduction|transport	cytosol|membrane	ATPase activity, coupled to movement of substances|Rac GTPase activator activity|Rac GTPase binding|Ral GTPase binding			central_nervous_system(1)	1						TATGACCGGGAGGAGTCTACA	0.398													7	59					0	0	1	0	0		G	9522203	G	G	9522203	3	3	27	1	0	0	0	0	1	0	0	0	13037	304	11	3	759	3	RALBP1	18	9522203	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	310527	9522203	68555045	7109	29460											
RALBP1	10928	broad.mit.edu	37	chr18	9535901	9535901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaggagccggcaaagccatCgcccagcagggataggaagg	13	2	15	11	2	0	0	0	0	0	0	1	3	0	3	3	5	3	2	3	5	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:9535901C>T	uc002kob.2	+	10	2157	c.1934C>T	c.(1933-1935)TCG>TTG	p.S645L	RALBP1_uc002koc.2_Missense_Mutation_p.S645L	NM_006788	NP_006779	Q15311	RBP1_HUMAN	ralA binding protein 1	645					chemotaxis|positive regulation of Cdc42 GTPase activity|small GTPase mediated signal transduction|transport	cytosol|membrane	ATPase activity, coupled to movement of substances|Rac GTPase activator activity|Rac GTPase binding|Ral GTPase binding			central_nervous_system(1)	1						GCAAAGCCATCGCCCAGCAGG	0.632													8	19					0	0	1	0	0		T	9535901	T	T	9535901	3	4	27	1	0	0	0	0	1	0	0	0	13037	893	31	1	1968	1	RALBP1	18	9535901	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13698	9535901	68541347	7110	29461											
FAM38B	63895	broad.mit.edu	37	chr18	10671647	10671647	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgaactaaaaaaatatcTgtgcacaacttcaaaattcg	17	11	4	9	2	3	0	1	0	2	0	5	1	3	0	0	0	3	1	0	0	9	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:10671647T>G	uc002kor.3	-	14	2147	c.2007A>C	c.(2005-2007)ACA>ACC	p.T669T	FAM38B_uc002koq.2_Silent_p.T504T	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2712						integral to membrane	ion channel activity			ovary(1)	1						AAAAAATATCTGTGCACAACT	0.378													7	55					0	0	1	0	0		G	10671647	G	G	10671647	2	3	27	1	0	0	0	0	0	0	0	1	5569	1567	55	5		5	FAM38B	18	10671647	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1135746	10671647	67405601	7111	29462											
FAM38B	63895	broad.mit.edu	37	chr18	10696277	10696277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggtgatgtctgcagctgCtgagtgtttctggggaagag	8	11	17	5	0	2	4	0	2	2	2	2	5	2	5	0	3	3	4	0	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:10696277C>T	uc002kor.3	-	5	657	c.517G>A	c.(517-519)GCA>ACA	p.A173T	FAM38B_uc002koq.2_Missense_Mutation_p.A71T	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2216						integral to membrane	ion channel activity			ovary(1)	1						TCTGCAGCTGCTGAGTGTTTC	0.562													13	47					0	0	1	0	0		T	10696277	T	T	10696277	3	4	27	1	0	0	0	0	1	0	0	0	5569	797	28	2	1652	2	FAM38B	18	10696277	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	24630	10696277	67380971	7112	29463											
AFG3L2	10939	broad.mit.edu	37	chr18	12367305	12367305	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaccaccagtgagaatcAtctttcttgccacctcgttt	8	13	7	13	1	3	1	1	1	2	1	4	3	3	2	4	1	1	1	4	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:12367305A>G	uc002kqz.1	-	4	482	c.369T>C	c.(367-369)GAT>GAC	p.D123D		NM_006796	NP_006787	Q9Y4W6	AFG32_HUMAN	AFG3 ATPase family gene 3-like 2	123					cell death|protein catabolic process|proteolysis	integral to membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0					Adenosine triphosphate(DB00171)	AGTGAGAATCATCTTTCTTGC	0.478													11	154					0	0	1	0	0		G	12367305	G	G	12367305	2	3	27	1	0	0	0	0	0	0	0	1	360	214	8	3		3	AFG3L2	18	12367305	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1671028	12367305	65709943	7113	29464											
CEP76	79959	broad.mit.edu	37	chr18	12678171	12678171	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattacttgttactgacgcGtcaattgtggatgcacacag	10	13	9	9	2	2	1	2	1	0	0	2	2	2	2	0	1	3	2	0	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:12678171G>A	uc002kri.2	-	10	1716	c.1560C>T	c.(1558-1560)GAC>GAT	p.D520D	PSMG2_uc002krg.2_Intron|CEP76_uc002krh.3_Silent_p.D342D|CEP76_uc010wzz.1_Silent_p.D445D	NM_024899	NP_079175	Q8TAP6	CEP76_HUMAN	centrosomal protein 76kDa	520					G2/M transition of mitotic cell cycle|regulation of centriole replication	centriole|cytosol	protein binding				0						TTACTGACGCGTCAATTGTGG	0.438													9	92					0	0	1	0	0		A	12678171	A	A	12678171	2	1	27	1	0	0	0	0	0	0	0	1	3264	1136	40	1		1	CEP76	18	12678171	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	310866	12678171	65399077	7114	29465											
CEP76	79959	broad.mit.edu	37	chr18	12699092	12699092	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataatgtaaacataaagtaaAcgttgaacaaacttgtccag	19	10	6	6	1	0	1	0	1	0	0	1	1	1	1	1	0	4	3	1	0	9	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:12699092A>T	uc002kri.2	-	4	562	c.406T>A	c.(406-408)TTT>ATT	p.F136I	PSMG2_uc002krg.2_Intron|CEP76_uc002krh.3_5'UTR|CEP76_uc010wzz.1_Intron|CEP76_uc010xaa.1_5'UTR|CEP76_uc010xab.1_3'UTR	NM_024899	NP_079175	Q8TAP6	CEP76_HUMAN	centrosomal protein 76kDa	136					G2/M transition of mitotic cell cycle|regulation of centriole replication	centriole|cytosol	protein binding				0						CATAAAGTAAACGTTGAACAA	0.398													10	84					0	0	1	0	0		T	12699092	T	T	12699092	3	4	27	1	0	0	0	0	1	0	0	0	3264	43	2	5	1609	5	CEP76	18	12699092	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20921	12699092	65378156	7115	29466											
PSMG2	56984	broad.mit.edu	37	chr18	12724555	12724555	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgtttcagaaggggacaaCatcccagatgcattaggtct	11	12	10	8	0	2	2	1	0	1	2	3	3	3	3	1	3	2	2	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:12724555C>T	uc002krk.2	+	6	682	c.639C>T	c.(637-639)AAC>AAT	p.N213N	PSMG2_uc002krg.2_Silent_p.N182N|PSMG2_uc002krj.1_Silent_p.N213N	NM_020232	NP_064617	Q969U7	PSMG2_HUMAN	proteasome (prosome, macropain) assembly	213					proteasome assembly	nucleus	protein binding				0						AAGGGGACAACATCCCAGATG	0.358													6	45					0	0	1	0	0		T	12724555	T	T	12724555	2	4	27	1	0	0	0	0	0	0	0	1	12734	477	17	4		4	PSMG2	18	12724555	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25463	12724555	65352693	7116	29467											
CEP192	55125	broad.mit.edu	37	chr18	13087145	13087145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaaattgttttttctgtcCgcaacactggctcccgagca	9	13	8	11	2	1	0	0	0	1	0	3	1	3	0	2	1	2	5	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:13087145C>T	uc010xac.1	+	31	5826	c.5746C>T	c.(5746-5748)CGC>TGC	p.R1916C	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.R1441C|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Missense_Mutation_p.R338C|CEP192_uc002krw.2_Missense_Mutation_p.R65C|CEP192_uc002krx.2_5'UTR|CEP192_uc002kry.2_5'Flank	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1916										ovary(4)|pancreas(1)	5						TTTTTCTGTCCGCAACACTGG	0.368													24	74					0	0	1	0	0		T	13087145	T	T	13087145	3	4	27	1	0	0	0	0	1	0	0	0	3254	652	23	1	5864	1	CEP192	18	13087145	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	362590	13087145	64990103	7117	29468											
CEP192	55125	broad.mit.edu	37	chr18	13099478	13099478	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attaattttttttaaaggagTaaactacaaattcttgtgag	15	17	6	3	0	1	1	0	1	1	0	1	2	1	2	0	1	2	1	0	1	7	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:13099478T>C	uc010xac.1	+	37	6641	c.6561T>C	c.(6559-6561)AGT>AGC	p.S2187S	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Silent_p.S1712S|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Silent_p.S609S|CEP192_uc002krw.2_Silent_p.S336S|CEP192_uc002krx.2_Silent_p.S191S|CEP192_uc002kry.2_RNA	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	2187										ovary(4)|pancreas(1)	5						tttaaaGGAGTAAACTACAAA	0.348													7	50					0	0	1	0	0		C	13099478	C	C	13099478	2	2	27	1	0	0	0	0	0	0	0	1	3254	1635	57	3		3	CEP192	18	13099478	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12333	13099478	64977770	7118	29469											
C18orf1	753	broad.mit.edu	37	chr18	13438344	13438344	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acagtgacgaagagaactgtCtcctggtgaccgagcacccg	11	6	12	12	3	1	3	0	2	1	1	2	6	1	3	3	1	2	1	3	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:13438344C>G	uc002ksa.2	+	4	810	c.142C>G	c.(142-144)CTC>GTC	p.L48V	C18orf1_uc002ksb.2_Missense_Mutation_p.L48V	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	48	Extracellular (Potential).|LDL-receptor class A.					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		AGAGAACTGTCTCCTGGTGAC	0.532													19	59					0	0	1	0	0		G	13438344	G	G	13438344	3	3	27	1	0	0	0	0	1	0	0	0	1897	913	32	5	148	5	C18orf1	18	13438344	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	338866	13438344	64638904	7119	29470											
C18orf1	753	broad.mit.edu	37	chr18	13645246	13645246	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagattgatcttcctcccAccatctccctgtccgacggt	7	11	7	16	3	2	2	0	1	2	1	6	4	5	2	5	1	0	0	5	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:13645246A>G	uc002ksa.2	+	7	1179	c.511A>G	c.(511-513)ACC>GCC	p.T171A	C18orf1_uc002ksb.2_Missense_Mutation_p.T153A|C18orf1_uc002kse.2_Missense_Mutation_p.T134A|C18orf1_uc002ksf.2_Missense_Mutation_p.T116A|C18orf1_uc002ksg.1_Missense_Mutation_p.T94A|C18orf1_uc002ksh.1_Missense_Mutation_p.T113A|C18orf1_uc002ksi.1_Missense_Mutation_p.T95A	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	171	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		TCTTCCTCCCACCATCTCCCT	0.612													6	76					0	0	1	0	0		G	13645246	G	G	13645246	3	3	27	1	0	0	0	0	1	0	0	0	1897	159	6	3	610	3	C18orf1	18	13645246	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	206902	13645246	64432002	7120	29471											
C18orf19	125228	broad.mit.edu	37	chr18	13681828	13681828	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatgttgcttcccttgcttAtggcgaaggactcctggttg	6	14	11	10	1	0	0	0	0	0	0	2	2	2	1	2	3	2	4	2	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:13681828A>T	uc010dlh.2	-	3	681	c.249T>A	c.(247-249)CAT>CAA	p.H83Q	C18orf19_uc010dlg.2_Missense_Mutation_p.H83Q|C18orf19_uc010dli.2_Missense_Mutation_p.H83Q|C18orf19_uc002ksj.3_Missense_Mutation_p.H83Q|C18orf19_uc010dlj.2_Intron	NM_001098801	NP_001092271	Q96ND0	CR019_HUMAN	hypothetical protein LOC125228	83						integral to membrane				breast(2)	2						TCCCTTGCTTATGGCGAAGGA	0.493													13	190					0	0	1	0	0		T	13681828	T	T	13681828	3	4	27	1	0	0	0	0	1	0	0	0	1899	446	16	5	581	5	C18orf19	18	13681828	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	36582	13681828	64395420	7121	29472											
RNMT	8731	broad.mit.edu	37	chr18	13734595	13734595	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggatgaaaagtgttctcAttggtatgatccaacaccaa	14	12	8	7	0	1	2	1	2	1	0	3	3	2	3	2	2	1	2	2	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:13734595A>G	uc002ksk.1	+	3	617	c.550A>G	c.(550-552)ATT>GTT	p.I184V	RNMT_uc002ksl.1_Missense_Mutation_p.I184V|RNMT_uc002ksm.1_Missense_Mutation_p.I184V|RNMT_uc010dlk.2_Missense_Mutation_p.I184V|RNMT_uc010xae.1_RNA	NM_003799	NP_003790	O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	184					mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	mRNA (guanine-N7-)-methyltransferase activity|RNA binding				0						AAGTGTTCTCATTGGTATGAT	0.348													6	78					0	0	1	0	0		G	13734595	G	G	13734595	3	3	27	1	0	0	0	0	1	0	0	0	13531	217	8	3	556	3	RNMT	18	13734595	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	52767	13734595	64342653	7122	29473											
RNMT	8731	broad.mit.edu	37	chr18	13742637	13742637	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaattcttggtctatttTccattgctaaatgagtaaga	11	16	7	7	0	2	3	0	2	2	1	3	3	3	3	2	1	1	2	2	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:13742637T>C	uc002ksk.1	+	7	1192	c.1125T>C	c.(1123-1125)TTT>TTC	p.F375F	RNMT_uc002ksl.1_Silent_p.F375F|RNMT_uc002ksm.1_Silent_p.F375F|RNMT_uc010dlk.2_Silent_p.F375F|RNMT_uc010xae.1_RNA	NM_003799	NP_003790	O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	375					mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	mRNA (guanine-N7-)-methyltransferase activity|RNA binding				0						TGGTCTATTTTCCATTGCTAA	0.333													8	73					0	0	1	0	0		C	13742637	C	C	13742637	2	2	27	1	0	0	0	0	0	0	0	1	13531	1780	62	3		3	RNMT	18	13742637	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8042	13742637	64334611	7123	29474											
SNRPD1	6632	broad.mit.edu	37	chr18	19203854	19203854	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtttacctctggatacactActtgtggatgttgaacctaa	11	14	8	8	0	1	1	0	1	1	0	1	3	1	3	2	2	4	2	2	2	5	7	rs141663553		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:19203854A>G	uc002ktj.1	+	3	368	c.237A>G	c.(235-237)CTA>CTG	p.L79L		NM_006938	NP_008869	P62314	SMD1_HUMAN	small nuclear ribonucleoprotein D1 polypeptide	79					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding|RNA binding				0						TGGATACACTACTTGTGGATG	0.383													5	54					0	0	1	0	0		G	19203854	G	G	19203854	2	3	27	1	0	0	0	0	0	0	0	1	14889	378	14	3		3	SNRPD1	18	19203854	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5461217	19203854	58873394	7124	29475											
GATA6	2627	broad.mit.edu	37	chr18	19762796	19762796	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacataaataaatcaaagActtgctctggtaaatatact	19	11	5	6	0	2	2	1	0	1	2	2	2	2	2	0	1	3	2	0	1	10	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:19762796A>T	uc002ktt.1	+	5	1772	c.1507A>T	c.(1507-1509)ACT>TCT	p.T503S	GATA6_uc002ktu.1_Missense_Mutation_p.T503S	NM_005257	NP_005248	Q92908	GATA6_HUMAN	GATA binding protein 6	503					blood coagulation|cardiac vascular smooth muscle cell differentiation|cellular response to hypoxia|intestinal epithelial cell differentiation|male gonad development|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor-beta1 production|negative regulation of transforming growth factor-beta2 production|outflow tract septum morphogenesis|positive regulation of angiogenesis|positive regulation of cell cycle arrest|positive regulation of transcription from RNA polymerase II promoter|response to drug|response to growth factor stimulus		protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(3)	3	all_cancers(21;0.00271)|all_epithelial(16;7.31e-05)|Ovarian(2;0.116)|Lung NSC(20;0.123)|all_lung(20;0.246)		STAD - Stomach adenocarcinoma(5;0.106)			TAAATCAAAGACTTGCTCTGG	0.328													9	49					0	0	1	0	0		T	19762796	T	T	19762796	3	4	27	1	0	0	0	0	1	0	0	0	6273	275	10	5	1521	5	GATA6	18	19762796	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	558942	19762796	58314452	7125	29476											
CABLES1	91768	broad.mit.edu	37	chr18	20814617	20814617	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatcaactggtgcagtgagTttgaaagagatcattggtct	12	12	11	6	0	3	3	2	2	1	1	3	4	3	3	0	2	2	2	0	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:20814617T>C	uc002kuc.2	+	5	1134	c.1134T>C	c.(1132-1134)AGT>AGC	p.S378S	C18orf45_uc010xaq.1_Intron|CABLES1_uc002kub.2_Intron|CABLES1_uc002kud.2_Silent_p.S113S	NM_001100619	NP_001094089	Q8TDN4	CABL1_HUMAN	Cdk5 and Abl enzyme substrate 1 isoform 2	378	Interacts with CDK3 (By similarity).				blood coagulation|cell cycle|cell division|regulation of cell cycle|regulation of cell division	cytosol|nucleus	cyclin-dependent protein kinase regulator activity|protein binding			breast(1)	1	all_cancers(21;0.000102)|all_epithelial(16;2.48e-06)|Lung NSC(20;0.00696)|all_lung(20;0.0197)|Colorectal(14;0.0202)|Ovarian(20;0.127)					GTGCAGTGAGTTTGAAAGAGA	0.512													5	40					0	0	1	0	0		C	20814617	C	C	20814617	2	2	27	1	0	0	0	0	0	0	0	1	2532	1722	60	3		3	CABLES1	18	20814617	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1051821	20814617	57262631	7126	29477											
C18orf8	29919	broad.mit.edu	37	chr18	21109232	21109232	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccagtcagatgtgtacacCcatgtcctgtcagcctttgt	8	12	9	12	0	2	1	2	0	0	1	3	2	3	1	4	0	2	1	4	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:21109232C>T	uc010xax.1	+	16	1507	c.1386C>T	c.(1384-1386)ACC>ACT	p.T462T	C18orf8_uc002kul.2_RNA|C18orf8_uc010xay.1_Silent_p.T86T|NPC1_uc010dlu.1_RNA	NM_013326	NP_037458	Q96DM3	MIC1_HUMAN	colon cancer-associated protein Mic1	462										ovary(1)	1	all_cancers(21;0.000122)|all_epithelial(16;8.08e-07)|Lung NSC(20;0.00206)|all_lung(20;0.00659)|Colorectal(14;0.0202)|Ovarian(20;0.127)					ATGTGTACACCCATGTCCTGT	0.567													5	61					0	0	1	0	0		T	21109232	T	T	21109232	2	4	27	1	0	0	0	0	0	0	0	1	1910	610	22	4		4	C18orf8	18	21109232	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	294615	21109232	56968016	7127	29478											
LAMA3	3909	broad.mit.edu	37	chr18	21413846	21413846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttggccactacgtggttgtgGtcgagtattccacggaggca	7	11	14	9	3	0	0	0	0	0	0	2	2	1	1	2	5	1	3	2	5	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:21413846G>A	uc002kuq.2	+	24	2964	c.2878G>A	c.(2878-2880)GTC>ATC	p.V960I	LAMA3_uc002kur.2_Missense_Mutation_p.V960I	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	960	Domain IV 1 (domain IV B).				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CGTGGTTGTGGTCGAGTATTC	0.547													60	168					0	0	1	0	0		A	21413846	A	A	21413846	3	1	27	1	0	0	0	0	1	0	0	0	8623	1261	44	4	2972	4	LAMA3	18	21413846	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	304614	21413846	56663402	7128	29479											
LAMA3	3909	broad.mit.edu	37	chr18	21413908	21413908	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgaatgtgaagagctccggGtctgttctggcaggccaggt	7	10	16	8	1	2	3	0	2	2	1	3	3	3	3	2	4	1	3	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:21413908G>A	uc002kuq.2	+	24	3026	c.2940G>A	c.(2938-2940)GGG>GGA	p.G980G	LAMA3_uc002kur.2_Silent_p.G980G	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	980	Domain IV 1 (domain IV B).				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGAGCTCCGGGTCTGTTCTGG	0.527													25	229					0	0	1	0	0		A	21413908	A	A	21413908	2	1	27	1	0	0	0	0	0	0	0	1	8623	1248	44	4		4	LAMA3	18	21413908	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	62	21413908	56663340	7129	29480											
LAMA3	3909	broad.mit.edu	37	chr18	21496586	21496586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttccaactcaaccacatgCtcccatcccaacctttggac	11	9	4	17	0	1	0	1	0	0	0	4	1	4	1	5	1	4	2	5	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:21496586C>T	uc002kuq.2	+	60	7936	c.7850C>T	c.(7849-7851)GCT>GTT	p.A2617V	LAMA3_uc002kur.2_Missense_Mutation_p.A2561V|LAMA3_uc002kus.3_Missense_Mutation_p.A1008V|LAMA3_uc002kut.3_Missense_Mutation_p.A952V	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	2617	Laminin G-like 2.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAACCACATGCTCCCATCCCA	0.423													8	99					0	0	1	0	0		T	21496586	T	T	21496586	3	4	27	1	0	0	0	0	1	0	0	0	8623	797	28	2	8263	2	LAMA3	18	21496586	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	82678	21496586	56580662	7130	29481											
LAMA3	3909	broad.mit.edu	37	chr18	21501490	21501490	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaacactataattgatggTgaagtatttgatttcagcac	15	13	7	6	0	1	3	1	3	0	0	1	3	1	3	0	1	2	2	0	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:21501490T>C	uc002kuq.2	+	62	8204	c.8118T>C	c.(8116-8118)GGT>GGC	p.G2706G	LAMA3_uc002kur.2_Silent_p.G2650G|LAMA3_uc002kus.3_Silent_p.G1097G|LAMA3_uc002kut.3_Silent_p.G1041G	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	2706	Laminin G-like 2.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TAATTGATGGTGAAGTATTTG	0.328													7	108					0	0	1	0	0		C	21501490	C	C	21501490	2	2	27	1	0	0	0	0	0	0	0	1	8623	1683	59	3		3	LAMA3	18	21501490	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4904	21501490	56575758	7131	29482											
LAMA3	3909	broad.mit.edu	37	chr18	21508129	21508129	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccgaggctgcatgaaaaaTttgaagaaaaccagtggtgt	14	10	11	6	1	0	3	0	2	0	1	1	4	1	3	2	2	2	2	2	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:21508129T>A	uc002kuq.2	+	63	8306	c.8220T>A	c.(8218-8220)AAT>AAA	p.N2740K	LAMA3_uc002kur.2_Missense_Mutation_p.N2684K|LAMA3_uc002kus.3_Missense_Mutation_p.N1131K|LAMA3_uc002kut.3_Missense_Mutation_p.N1075K	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	2740	Laminin G-like 2.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCATGAAAAATTTGAAGAAAA	0.418													5	90					0	0	1	0	0		A	21508129	A	A	21508129	3	1	27	1	0	0	0	0	1	0	0	0	8623	1490	52	5	8645	5	LAMA3	18	21508129	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6639	21508129	56569119	7132	29483											
OSBPL1A	114876	broad.mit.edu	37	chr18	21819305	21819305	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagtgcttctgacaagatTttgtttttttcttgctcttg	5	21	7	8	0	3	2	0	1	3	1	4	2	4	2	1	0	2	3	1	0	1	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:21819305T>C	uc002kve.2	-	16	1497	c.1323A>G	c.(1321-1323)AAA>AAG	p.K441K	OSBPL1A_uc002kvd.2_5'UTR|OSBPL1A_uc010xbc.1_Silent_p.K59K|OSBPL1A_uc002kvf.3_Silent_p.K221K	NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	441	Potential.				cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					CTGACAAGATTTTGTTTTTTT	0.448													3	43					0	0	1	0	0		C	21819305	C	C	21819305	2	2	27	1	0	0	0	0	0	0	0	1	11296	1838	64	3		3	OSBPL1A	18	21819305	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	311176	21819305	56257943	7133	29484											
HRH4	59340	broad.mit.edu	37	chr18	22057338	22057338	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacaattgtcctttcatttTattcctcagcaacaggtcct	9	16	4	12	0	3	0	3	0	0	0	6	0	6	0	3	1	2	1	3	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:22057338T>C	uc002kvi.2	+	3	1085	c.985T>C	c.(985-987)TAT>CAT	p.Y329H	HRH4_uc010xbd.1_3'UTR|HRH4_uc010dlx.2_Missense_Mutation_p.Y241H	NM_021624	NP_067637	Q9H3N8	HRH4_HUMAN	histamine H4 receptor isoform 1	329	Extracellular (Potential).					integral to membrane|plasma membrane	histamine receptor activity			ovary(2)	2	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Clozapine(DB00363)	CCTTTCATTTTATTCCTCAGC	0.413													23	250					0	0	1	0	0		C	22057338	C	C	22057338	3	2	27	1	0	0	0	0	1	0	0	0	7374	1754	61	3	995	3	HRH4	18	22057338	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	238033	22057338	56019910	7134	29485											
ZNF521	25925	broad.mit.edu	37	chr18	22807425	22807425	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgcttgtgtttgaacagccTactgcagtaggtgcatttga	8	13	12	8	1	0	2	0	2	0	0	0	2	0	2	1	1	5	5	1	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:22807425T>C	uc002kvk.2	-	4	704	c.457A>G	c.(457-459)AGG>GGG	p.R153G	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.R153G|ZNF521_uc002kvl.2_5'UTR	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	153	C2H2-type 3.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TTGAACAGCCTACTGCAGTAG	0.498			T	PAX5	ALL								4	155					0	0	1	0	0		C	22807425	C	C	22807425	3	2	27	1	0	0	0	0	1	0	0	0	17990	1521	53	3	3498	3	ZNF521	18	22807425	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	750087	22807425	55269823	7135	29486											
SS18	6760	broad.mit.edu	37	chr18	23632767	23632767	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaactgtttgtcatattgAgttgattgggtccaggtccc	7	15	12	7	0	1	2	1	2	0	0	3	3	3	3	2	3	1	2	2	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:23632767A>T	uc002kvm.2	-	5	506	c.428T>A	c.(427-429)CTC>CAC	p.L143H	SS18_uc002kvn.2_Missense_Mutation_p.L143H|SS18_uc010xbf.1_Missense_Mutation_p.L61H|SS18_uc010xbg.1_Missense_Mutation_p.L91H|SS18_uc010xbh.1_Missense_Mutation_p.L91H|SS18_uc010xbi.1_Missense_Mutation_p.L120H|SS18_uc010dlz.1_Missense_Mutation_p.L91H	NM_001007559	NP_001007560	Q15532	SSXT_HUMAN	synovial sarcoma translocation, chromosome 18	143	Transcriptional activation.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	ligand-dependent nuclear receptor transcription coactivator activity|protein binding		SS18/SSX1(1169)|SS18/SSX2(702)|SS18/SSX4(12)	soft_tissue(1883)|ovary(1)	1884	all_cancers(21;0.000194)|Lung NSC(5;0.000413)|all_lung(6;0.00118)|Ovarian(20;0.124)					TGTCATATTGAGTTGATTGGG	0.423			T	SSX1| SSX2	synovial sarcoma								14	152					0	0	1	0	0		T	23632767	T	T	23632767	3	4	27	1	0	0	0	0	1	0	0	0	15200	304	11	5	856	5	SS18	18	23632767	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	825342	23632767	54444481	7136	29487											
PSMA8	143471	broad.mit.edu	37	chr18	23713955	23713955	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcgatatgacagggcgaTcactgtcttctccccagacg	8	10	10	13	3	4	2	1	1	3	1	6	4	4	2	2	1	0	0	2	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:23713955T>A	uc002kvq.2	+	1	140	c.26T>A	c.(25-27)ATC>AAC	p.I9N	PSMA8_uc002kvo.2_Missense_Mutation_p.I9N|PSMA8_uc002kvp.2_Missense_Mutation_p.I9N|PSMA8_uc002kvr.2_5'UTR	NM_144662	NP_653263	Q8TAA3	PSA7L_HUMAN	proteasome alpha 8 subunit isoform 1	9					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	threonine-type endopeptidase activity			skin(1)	1	all_cancers(21;0.000585)|Lung NSC(5;0.00148)|all_lung(6;0.0038)|Ovarian(20;0.124)		OV - Ovarian serous cystadenocarcinoma(3;0.000324)|all cancers(3;0.000954)|LUSC - Lung squamous cell carcinoma(2;0.181)			GACAGGGCGATCACTGTCTTC	0.582													5	81					0	0	1	0	0		A	23713955	A	A	23713955	3	1	27	1	0	0	0	0	1	0	0	0	12695	1435	50	5	28	5	PSMA8	18	23713955	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	81188	23713955	54363293	7137	29488											
PSMA8	143471	broad.mit.edu	37	chr18	23738101	23738101	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctagaaatatacccaaagcAatggacgaagaccttttggt	15	10	8	8	1	1	2	0	0	1	2	1	4	1	3	2	2	2	1	2	2	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:23738101A>G	uc002kvq.2	+	4	502	c.388A>G	c.(388-390)AAT>GAT	p.N130D	PSMA8_uc002kvo.2_Missense_Mutation_p.N86D|PSMA8_uc002kvp.2_Missense_Mutation_p.N124D|PSMA8_uc002kvr.2_Missense_Mutation_p.N98D	NM_144662	NP_653263	Q8TAA3	PSA7L_HUMAN	proteasome alpha 8 subunit isoform 1	130					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	threonine-type endopeptidase activity			skin(1)	1	all_cancers(21;0.000585)|Lung NSC(5;0.00148)|all_lung(6;0.0038)|Ovarian(20;0.124)		OV - Ovarian serous cystadenocarcinoma(3;0.000324)|all cancers(3;0.000954)|LUSC - Lung squamous cell carcinoma(2;0.181)			TACCCAAAGCAATGGACGAAG	0.303													15	116					0	0	1	0	0		G	23738101	G	G	23738101	3	3	27	1	0	0	0	0	1	0	0	0	12695	130	5	3	402	3	PSMA8	18	23738101	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	24146	23738101	54339147	7138	29489											
KCTD1	284252	broad.mit.edu	37	chr18	24035751	24035751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggatgacggagggtacacGgggcgtccgcctcagttccc	6	6	15	14	5	1	1	1	1	0	0	3	3	3	3	4	5	1	2	4	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:24035751G>A	uc002kvw.2	-	5	1290	c.730C>T	c.(730-732)CGT>TGT	p.R244C	KCTD1_uc010xbj.1_Missense_Mutation_p.R852C|KCTD1_uc010xbk.1_Missense_Mutation_p.R244C|KCTD1_uc002kvy.2_3'UTR	NM_001136205	NP_001129677	Q719H9	KCTD1_HUMAN	potassium channel tetramerisation domain	244					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)			GAGGGTACACGGGGCGTCCGC	0.502													22	73					0	0	1	0	0		A	24035751	A	A	24035751	3	1	27	1	0	0	0	0	1	0	0	0	8112	1116	39	1	47	1	KCTD1	18	24035751	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	297650	24035751	54041497	7139	29490											
CDH2	1000	broad.mit.edu	37	chr18	25543415	25543415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggtctttcatccattcgtCggattcccacaggcttgatg	6	14	10	11	2	2	1	1	1	1	0	6	2	4	2	2	3	0	1	2	3	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:25543415C>T	uc002kwg.2	-	15	2879	c.2420G>A	c.(2419-2421)CGA>CAA	p.R807Q	CDH2_uc010xbn.1_Missense_Mutation_p.R776Q	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	807	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						ATCCATTCGTCGGATTCCCAC	0.537													6	48					0	0	1	0	0		T	25543415	T	T	25543415	3	4	27	1	0	0	0	0	1	0	0	0	3108	884	31	1	308	1	CDH2	18	25543415	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1507664	25543415	52533833	7140	29491											
CDH2	1000	broad.mit.edu	37	chr18	25572675	25572675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggtctggatggcgaaccGtccagtaggatctccgccac	7	8	13	13	4	2	0	0	0	2	0	5	3	3	2	4	4	1	1	4	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:25572675G>A	uc002kwg.2	-	9	1747	c.1288C>T	c.(1288-1290)CGG>TGG	p.R430W	CDH2_uc010xbn.1_Missense_Mutation_p.R399W	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	430	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						ATGGCGAACCGTCCAGTAGGA	0.527													4	113					0	0	1	0	0		A	25572675	A	A	25572675	3	1	27	1	0	0	0	0	1	0	0	0	3108	1144	40	1	1464	1	CDH2	18	25572675	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	29260	25572675	52504573	7141	29492											
DSC2	1824	broad.mit.edu	37	chr18	28659862	28659862	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatgccatttttgatggtCtctgcctctctatccaggct	6	17	7	11	0	2	1	0	1	2	0	5	1	3	1	3	2	2	1	3	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:28659862C>A	uc002kwl.3	-	11	2068	c.1614G>T	c.(1612-1614)GAG>GAT	p.E538D	DSC2_uc002kwk.3_Missense_Mutation_p.E538D	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	538	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			TTTTGATGGTCTCTGCCTCTC	0.388													17	155					2.5808e-16	2.88561e-16	1	1	0		A	28659862	A	A	28659862	3	1	27	1	0	0	0	0	1	0	0	0	4772	912	32	5	1155	5	DSC2	18	28659862	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3087187	28659862	49417386	7142	29493											
DSG4	147409	broad.mit.edu	37	chr18	28986263	28986263	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcctgtcactgaagaccaAgctggagtttcaaatgttgg	10	10	13	8	0	2	2	2	1	0	1	2	3	2	3	2	3	1	3	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:28986263A>G	uc002kwq.2	+	12	1995	c.1860A>G	c.(1858-1860)CAA>CAG	p.Q620Q	DSG4_uc002kwr.2_Silent_p.Q620Q	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	620	Extracellular (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			CTGAAGACCAAGCTGGAGTTT	0.488													6	113					0	0	1	0	0		G	28986263	G	G	28986263	2	3	27	1	0	0	0	0	0	0	0	1	4785	69	3	3		3	DSG4	18	28986263	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	326401	28986263	49090985	7143	29494											
DSG2	1829	broad.mit.edu	37	chr18	29116236	29116236	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacgacaactgtcccacaCtgatagagcctgtgcagaca	13	7	8	13	1	1	3	1	1	0	2	2	4	2	3	2	0	4	1	2	0	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:29116236C>A	uc002kwu.3	+	11	1683	c.1495C>A	c.(1495-1497)CTG>ATG	p.L499M		NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	499	Extracellular (Potential).|Cadherin 4.				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			CTGTCCCACACTGATAGAGCC	0.428													8	70					1.12685e-05	1.21022e-05	1	1	0		A	29116236	A	A	29116236	3	1	27	1	0	0	0	0	1	0	0	0	4783	564	20	5	1537	5	DSG2	18	29116236	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	129973	29116236	48961012	7144	29495											
KIAA1012	22878	broad.mit.edu	37	chr18	29410886	29410886	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgaatctcctggcttttAagttgaagtttatactgtgt	8	18	9	6	0	1	2	0	2	1	0	2	2	1	2	1	1	1	3	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:29410886A>G	uc002kxc.3	-	29	4504	c.4140T>C	c.(4138-4140)CTT>CTC	p.L1380L	KIAA1012_uc002kxb.3_Silent_p.L1326L|KIAA1012_uc002kxd.3_RNA	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	1380					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						CCTGGCTTTTAAGTTGAAGTT	0.423													20	61					0	0	1	0	0		G	29410886	G	G	29410886	2	3	27	1	0	0	0	0	0	0	0	1	8220	349	13	3		3	KIAA1012	18	29410886	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	294650	29410886	48666362	7145	29496											
KIAA1012	22878	broad.mit.edu	37	chr18	29432581	29432581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctttctcacatcttattGccttaaagcaaaactttccc	10	16	2	13	0	3	0	1	0	3	0	5	0	4	0	2	0	3	1	2	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:29432581G>A	uc002kxc.3	-	23	3843	c.3479C>T	c.(3478-3480)GCA>GTA	p.A1160V	KIAA1012_uc002kxb.3_Missense_Mutation_p.A1106V|KIAA1012_uc002kxd.3_RNA	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	1160					ER to Golgi vesicle-mediated transport	cis-Golgi network		p.A1160G(1)			0						ACATCTTATTGCCTTAAAGCA	0.308													19	231					0	0	1	0	0		A	29432581	A	A	29432581	3	1	27	1	0	0	0	0	1	0	0	0	8220	1319	46	2	856	2	KIAA1012	18	29432581	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21695	29432581	48644667	7146	29497											
RNF125	54941	broad.mit.edu	37	chr18	29617122	29617122	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtctaaagaacaacaagTggacctgtccttattgccgg	12	9	9	11	1	1	1	0	0	1	1	2	2	2	2	4	2	3	0	4	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:29617122T>C	uc002kxf.1	+	2	590	c.208T>C	c.(208-210)TGG>CGG	p.W70R		NM_017831	NP_060301	Q96EQ8	RN125_HUMAN	ring finger protein 125	70	RING-type.				negative regulation of type I interferon production	intracellular	ligase activity|zinc ion binding				0						GAACAACAAGTGGACCTGTCC	0.438													25	220					0	0	1	0	0		C	29617122	C	C	29617122	3	2	27	1	0	0	0	0	1	0	0	0	13459	1696	59	3	214	3	RNF125	18	29617122	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	184541	29617122	48460126	7147	29498											
RNF125	54941	broad.mit.edu	37	chr18	29645945	29645945	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagacatctgcaagttagTcacactttgttttatgatga	13	15	7	6	0	2	3	1	2	1	1	2	3	2	3	0	0	1	3	0	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:29645945T>C	uc002kxf.1	+	5	967	c.585T>C	c.(583-585)AGT>AGC	p.S195S		NM_017831	NP_060301	Q96EQ8	RN125_HUMAN	ring finger protein 125	195					negative regulation of type I interferon production	intracellular	ligase activity|zinc ion binding				0						TGCAAGTTAGTCACACTTTGT	0.358													9	86					0	0	1	0	0		C	29645945	C	C	29645945	2	2	27	1	0	0	0	0	0	0	0	1	13459	1664	58	3		3	RNF125	18	29645945	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	28823	29645945	48431303	7148	29499											
KLHL14	57565	broad.mit.edu	37	chr18	30349949	30349949	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtacttgttggccagcttCttggtctcctccaggccgtg	4	13	12	12	1	2	0	0	0	2	0	4	0	3	0	4	4	2	3	4	4	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:30349949C>A	uc002kxm.1	-	2	994	c.606G>T	c.(604-606)AAG>AAT	p.K202N		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	202						cytosol|endoplasmic reticulum membrane				ovary(1)	1						TGGCCAGCTTCTTGGTCTCCT	0.622													5	72					0.0215528	0.0219246	1	1	0		A	30349949	A	A	30349949	3	1	27	1	0	0	0	0	1	0	0	0	8386	912	32	5	1312	5	KLHL14	18	30349949	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	704004	30349949	47727299	7149	29500											
KLHL14	57565	broad.mit.edu	37	chr18	30350377	30350377	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtggctggagaagagcgAtcggaagtactgcgagcagg	10	5	20	6	3	0	2	0	0	0	2	1	6	0	3	0	6	4	3	0	6	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:30350377A>T	uc002kxm.1	-	2	566	c.178T>A	c.(178-180)TCG>ACG	p.S60T		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	60	BTB.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						GAGAAGAGCGATCGGAAGTAC	0.587													6	29					0	0	1	0	0		T	30350377	T	T	30350377	3	4	27	1	0	0	0	0	1	0	0	0	8386	333	12	5	1740	5	KLHL14	18	30350377	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	428	30350377	47726871	7150	29501											
ASXL3	80816	broad.mit.edu	37	chr18	31319679	31319679	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcacatcagcaaagaaagTcaccttctgtatctgaagag	14	9	9	9	0	4	3	2	1	2	2	4	3	4	3	1	1	1	3	1	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:31319679T>A	uc010dmg.1	+	11	2366	c.2311T>A	c.(2311-2313)TCA>ACA	p.S771T	ASXL3_uc002kxq.2_Missense_Mutation_p.S478T	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	771	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						GCAAAGAAAGTCACCTTCTGT	0.468													12	87					0	0	1	0	0		A	31319679	A	A	31319679	3	1	27	1	0	0	0	0	1	0	0	0	1069	1667	58	5	2353	5	ASXL3	18	31319679	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	969302	31319679	46757569	7151	29502											
ASXL3	80816	broad.mit.edu	37	chr18	31323514	31323514	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccatgctttttaataaaaaTtctgtccctgtatctgtttg	9	18	5	9	0	2	0	0	0	2	0	3	0	3	0	2	0	1	3	2	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:31323514T>A	uc010dmg.1	+	12	3757	c.3702T>A	c.(3700-3702)AAT>AAA	p.N1234K	ASXL3_uc002kxq.2_Missense_Mutation_p.N941K	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1234	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TTAATAAAAATTCTGTCCCTG	0.368													6	60					0	0	1	0	0		A	31323514	A	A	31323514	3	1	27	1	0	0	0	0	1	0	0	0	1069	1490	52	5	3748	5	ASXL3	18	31323514	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3835	31323514	46753734	7152	29503											
NOL4	8715	broad.mit.edu	37	chr18	31599387	31599387	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcatctattctgtattcCgaagttagctgcgcagagag	10	13	10	8	2	3	2	1	1	2	1	4	4	4	2	1	0	2	4	1	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:31599387C>T	uc010dmi.2	-	6	1180	c.951G>A	c.(949-951)TCG>TCA	p.S317S	NOL4_uc010xbs.1_Silent_p.S32S|NOL4_uc002kxr.3_Silent_p.S153S|NOL4_uc010xbt.1_Silent_p.S243S|NOL4_uc010dmh.2_Silent_p.S243S|NOL4_uc010xbu.1_Silent_p.S317S|NOL4_uc002kxt.3_Silent_p.S317S|NOL4_uc010xbv.1_Silent_p.S66S|NOL4_uc010xbw.1_Silent_p.S203S	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	317						nucleolus	RNA binding			ovary(3)	3						TTCTGTATTCCGAAGTTAGCT	0.458													7	79					0	0	1	0	0		T	31599387	T	T	31599387	2	4	27	1	0	0	0	0	0	0	0	1	10543	639	23	1		1	NOL4	18	31599387	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	275873	31599387	46477861	7153	29504											
ZNF397OS	100101467	broad.mit.edu	37	chr18	32844000	32844000	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgatgctctcgcagccaaGcttgcagctcctcaggaagg	8	7	12	14	2	2	0	1	0	1	0	4	2	3	1	3	2	5	5	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:32844000G>A	uc002kym.2	-	2	545	c.317C>T	c.(316-318)GCT>GTT	p.A106V	ZNF397_uc010dmr.2_Intron|ZNF397OS_uc010xce.1_Missense_Mutation_p.A106V|ZNF397OS_uc002kyn.1_Missense_Mutation_p.A106V	NM_001112734	NP_001106205	Q86W11	ZSC30_HUMAN	zinc finger protein 397 opposite strand	106	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TCGCAGCCAAGCTTGCAGCTC	0.562													4	54					0	0	1	0	0		A	32844000	A	A	32844000	3	1	27	1	0	0	0	0	1	0	0	0	17909	971	34	2	1179	2	ZNF397OS	18	32844000	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1244613	32844000	45233248	7154	29505											
ZNF396	252884	broad.mit.edu	37	chr18	32948335	32948335	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatctgcctcctgaaagtgAcctggggcacttcagcctag	8	11	10	12	0	2	2	1	2	1	0	3	2	3	2	4	2	2	1	4	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:32948335A>T	uc010xcf.1	-	5	1114	c.982T>A	c.(982-984)TCA>ACA	p.S328T		NM_145756	NP_665699	Q96N95	ZN396_HUMAN	zinc finger protein 396	Error:Variant_position_missing_in_Q96N95_after_alignment					viral reproduction	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCTGAAAGTGACCTGGGGCAC	0.373													7	76					0	0	1	0	0		T	32948335	T	T	32948335	3	4	27	1	0	0	0	0	1	0	0	0	17907	275	10	5	23	5	ZNF396	18	32948335	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	104335	32948335	45128913	7155	29506											
RPRD1A	55197	broad.mit.edu	37	chr18	33607161	33607161	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttacctgttattttatctAatagagatacttcttggact	10	19	5	7	0	3	1	0	0	3	1	3	3	3	2	1	1	2	1	1	1	6	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:33607161A>G	uc002kzf.1	-	5	605	c.599T>C	c.(598-600)TTA>TCA	p.L200S	RPRD1A_uc002kze.1_Missense_Mutation_p.L164S|RPRD1A_uc002kzg.2_Missense_Mutation_p.L200S|RPRD1A_uc010dmw.2_Missense_Mutation_p.L164S|RPRD1A_uc010dmx.2_Missense_Mutation_p.L200S	NM_018170	NP_060640	Q96P16	RPR1A_HUMAN	regulation of nuclear pre-mRNA domain containing	200										ovary(1)|breast(1)	2						TATTTTATCTAATAGAGATAC	0.358													11	116					0	0	1	0	0		G	33607161	G	G	33607161	3	3	27	1	0	0	0	0	1	0	0	0	13640	372	13	3	351	3	RPRD1A	18	33607161	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	658826	33607161	44470087	7156	29507											
SLC39A6	25800	broad.mit.edu	37	chr18	33689669	33689669	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatacccccagcggctacAtccatggtcactagcatcat	12	8	7	14	1	2	0	2	0	0	0	3	1	3	0	3	2	4	2	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:33689669A>G	uc010dmy.2	-	10	2445	c.2155T>C	c.(2155-2157)TGT>CGT	p.C719R		NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	719	Cytoplasmic (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						CAGCGGCTACATCCATGGTCA	0.348													15	132					0	0	1	0	0		G	33689669	G	G	33689669	3	3	27	1	0	0	0	0	1	0	0	0	14647	217	8	3	116	3	SLC39A6	18	33689669	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	82508	33689669	44387579	7157	29508											
SLC39A6	25800	broad.mit.edu	37	chr18	33702206	33702206	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattgctggttcttcatggcTatgactatggtggtgacttg	6	16	12	7	0	2	2	1	2	1	0	2	2	2	2	0	4	1	3	0	4	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:33702206T>C	uc010dmy.2	-	5	1458	c.1168A>G	c.(1168-1170)AGC>GGC	p.S390G	SLC39A6_uc002kzj.2_Missense_Mutation_p.S115G	NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	390	His-rich.|Extracellular (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						TCTTCATGGCTATGACTATGG	0.383													14	149					0	0	1	0	0		C	33702206	C	C	33702206	3	2	27	1	0	0	0	0	1	0	0	0	14647	1522	53	3	1135	3	SLC39A6	18	33702206	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12537	33702206	44375042	7158	29509											
SLC39A6	25800	broad.mit.edu	37	chr18	33706233	33706233	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacataaagccttttcggggCtcactcacagattcatttgt	10	14	7	10	1	3	1	3	0	0	1	4	1	3	1	1	2	2	1	1	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:33706233C>T	uc010dmy.2	-	2	1028	c.738G>A	c.(736-738)GAG>GAA	p.E246E	SLC39A6_uc002kzj.2_Intron	NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	246	Extracellular (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						CTTTTCGGGGCTCACTCACAG	0.458													5	163					0	0	1	0	0		T	33706233	T	T	33706233	2	4	27	1	0	0	0	0	0	0	0	1	14647	796	28	2		2	SLC39A6	18	33706233	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4027	33706233	44371015	7159	29510											
ELP2	55250	broad.mit.edu	37	chr18	33726313	33726313	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgctttccacggagcgtTgcacctttggaaacagaata	11	11	9	10	2	1	1	1	0	0	1	2	3	2	3	2	2	4	3	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:33726313T>C	uc002kzk.1	+	11	1104	c.1094T>C	c.(1093-1095)TTG>TCG	p.L365S	ELP2_uc010xcg.1_Missense_Mutation_p.L430S|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Missense_Mutation_p.L339S|ELP2_uc010xch.1_Intron|ELP2_uc002kzn.1_Intron|ELP2_uc002kzo.1_Missense_Mutation_p.L295S	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	365	WD 7.				regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						CACGGAGCGTTGCACCTTTGG	0.373													7	107					0	0	1	0	0		C	33726313	C	C	33726313	3	2	27	1	0	0	0	0	1	0	0	0	5088	1821	63	3	1136	3	ELP2	18	33726313	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20080	33726313	44350935	7160	29511											
MOCOS	55034	broad.mit.edu	37	chr18	33795548	33795548	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggatctgtgaggatttcaTttggatacatgtcgacgctg	9	13	12	7	2	2	1	1	1	1	0	3	5	2	4	0	3	1	1	0	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:33795548T>G	uc002kzq.3	+	8	1428	c.1405T>G	c.(1405-1407)TTT>GTT	p.F469V		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	469					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GAGGATTTCATTTGGATACAT	0.532													3	52					0	0	1	0	0		G	33795548	G	G	33795548	3	3	27	1	0	0	0	0	1	0	0	0	9707	1493	52	5	1435	5	MOCOS	18	33795548	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	69235	33795548	44281700	7161	29512											
MOCOS	55034	broad.mit.edu	37	chr18	33795876	33795876	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcaggagtcctggagggggCccttgggccacatgttgtca	6	9	16	10	0	1	0	1	0	0	0	2	2	2	2	3	5	1	2	3	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:33795876C>G	uc002kzq.3	+	8	1756	c.1733C>G	c.(1732-1734)GCC>GGC	p.A578G		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	578					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	CTGGAGGGGGCCCTTGGGCCA	0.517													7	62					0	0	1	0	0		G	33795876	G	G	33795876	3	3	27	1	0	0	0	0	1	0	0	0	9707	739	26	5	1763	5	MOCOS	18	33795876	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	328	33795876	44281372	7162	29513											
FHOD3	80206	broad.mit.edu	37	chr18	34205603	34205603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggaccgcagaaggagcCgcaggcactcggtgcagagc	9	3	16	13	3	0	2	0	0	0	2	1	4	0	4	3	4	3	4	3	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:34205603C>T	uc002kzt.1	+	10	1184	c.1087C>T	c.(1087-1089)CGC>TGC	p.R363C	FHOD3_uc002kzr.1_Missense_Mutation_p.R363C|FHOD3_uc002kzs.1_Missense_Mutation_p.R363C|FHOD3_uc002kzu.1_Missense_Mutation_p.R188C|FHOD3_uc010dmz.1_Missense_Mutation_p.R116C	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	363	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CAGAAGGAGCCGCAGGCACTC	0.687													25	50					0	0	1	0	0		T	34205603	T	T	34205603	3	4	27	1	0	0	0	0	1	0	0	0	5897	652	23	1	1125	1	FHOD3	18	34205603	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	409727	34205603	43871645	7163	29514											
C18orf10	25941	broad.mit.edu	37	chr18	34398915	34398915	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttctatgatggtcaccTcagtcacacctggggaagat	9	12	10	10	0	4	2	3	1	1	1	4	3	4	3	2	3	0	1	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:34398915T>C	uc002kzw.1	-	2	535	c.107A>G	c.(106-108)GAA>GGA	p.E36G	C18orf10_uc002kzv.1_Missense_Mutation_p.E36G|C18orf10_uc010xci.1_Missense_Mutation_p.E36G|C18orf10_uc002kzx.1_Missense_Mutation_p.E36G|C18orf10_uc002kzy.3_Missense_Mutation_p.E36G	NM_015476	NP_056291	Q68CL5	TPGS2_HUMAN	tubulin polyglutamylase complex subunit 2	36						cytoplasm|microtubule				skin(1)	1						GATGGTCACCTCAGTCACACC	0.443													8	102					0	0	1	0	0		C	34398915	C	C	34398915	3	2	27	1	0	0	0	0	1	0	0	0	1898	1551	54	3	819	3	C18orf10	18	34398915	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	193312	34398915	43678333	7164	29515											
SETBP1	26040	broad.mit.edu	37	chr18	42530292	42530292	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggagcccccagaaccaccTacggtgggcagcaagaaaaa	16	2	11	12	1	0	2	0	0	0	2	0	3	0	3	4	3	4	2	4	3	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:42530292T>C	uc010dni.2	+	4	1283	c.987T>C	c.(985-987)CCT>CCC	p.P329P		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	329						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		CAGAACCACCTACGGTGGGCA	0.527									Schinzel-Giedion_syndrome				7	78					0	0	1	0	0		C	42530292	C	C	42530292	2	2	27	1	0	0	0	0	0	0	0	1	14154	1509	53	3		3	SETBP1	18	42530292	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8131377	42530292	35546956	7165	29516											
SETBP1	26040	broad.mit.edu	37	chr18	42533228	42533228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctatgaaggctttggaaCgtacagggaaaaggacatcc	14	7	13	7	1	0	1	0	1	0	0	1	5	1	4	1	4	3	3	1	4	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:42533228C>T	uc010dni.2	+	4	4219	c.3923C>T	c.(3922-3924)ACG>ATG	p.T1308M		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1308						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GGCTTTGGAACGTACAGGGAA	0.468									Schinzel-Giedion_syndrome				16	52					0	0	1	0	0		T	42533228	T	T	42533228	3	4	27	1	0	0	0	0	1	0	0	0	14154	536	19	1	4126	1	SETBP1	18	42533228	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2936	42533228	35544020	7166	29517											
SLC14A2	8170	broad.mit.edu	37	chr18	43219786	43219786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggacaggcggcgtgttcctgGtggctctgttcatctcctcg	3	12	14	12	3	3	0	1	0	2	0	6	1	4	1	2	5	0	3	2	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:43219786G>A	uc010dnj.2	+	8	1240	c.919G>A	c.(919-921)GTG>ATG	p.V307M	SLC14A2_uc002lbb.2_Missense_Mutation_p.V307M|SLC14A2_uc002lbe.2_Missense_Mutation_p.V307M	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	307	Helical; (Potential).					apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						CGTGTTCCTGGTGGCTCTGTT	0.562													9	85					0	0	1	0	0		A	43219786	A	A	43219786	3	1	27	1	0	0	0	0	1	0	0	0	14422	1261	44	4	941	4	SLC14A2	18	43219786	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	686558	43219786	34857462	7167	29518											
KIAA1632	57724	broad.mit.edu	37	chr18	43450705	43450705	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatcacctggcaacagctTatctagaatgtgaaaagaaa	16	9	8	8	0	2	3	1	1	1	2	2	3	2	3	1	1	3	3	1	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:43450705T>C	uc002lbm.2	-	36	6152	c.6052A>G	c.(6052-6054)AAG>GAG	p.K2018E	KIAA1632_uc010xcq.1_Missense_Mutation_p.K572E|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_Intron|KIAA1632_uc002lbn.2_Missense_Mutation_p.K893E	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	2018					autophagy						0						GGCAACAGCTTATCTAGAATG	0.368													4	70					0	0	1	0	0		C	43450705	C	C	43450705	3	2	27	1	0	0	0	0	1	0	0	0	8265	1763	61	3	1723	3	KIAA1632	18	43450705	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	230919	43450705	34626543	7168	29519											
KIAA1632	57724	broad.mit.edu	37	chr18	43467835	43467835	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgccaactttctgaatccCaggtgtaggctgcaacttgt	10	12	9	10	0	1	1	0	1	1	0	2	1	2	1	2	2	4	3	2	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:43467835C>A	uc002lbm.2	-	29	5090	c.4990G>T	c.(4990-4992)GGG>TGG	p.G1664W	KIAA1632_uc010xcq.1_Missense_Mutation_p.G218W|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.G539W	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1664					autophagy						0						TTCTGAATCCCAGGTGTAGGC	0.463													8	128					9.70103e-10	1.07188e-09	1	1	0		A	43467835	A	A	43467835	3	1	27	1	0	0	0	0	1	0	0	0	8265	594	21	5	2813	5	KIAA1632	18	43467835	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17130	43467835	34609413	7169	29520											
KIAA1632	57724	broad.mit.edu	37	chr18	43510722	43510722	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgagccatctgagcaaaggTagtcagaaggcaaatctctt	13	9	10	9	0	3	3	1	2	2	1	4	3	3	3	1	2	2	3	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:43510722T>C	uc002lbm.2	-	12	2432	c.2332A>G	c.(2332-2334)ACC>GCC	p.T778A	KIAA1632_uc002lbo.1_Missense_Mutation_p.T778A	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	778					autophagy						0						TGAGCAAAGGTAGTCAGAAGG	0.363													7	51					0	0	1	0	0		C	43510722	C	C	43510722	3	2	27	1	0	0	0	0	1	0	0	0	8265	1638	57	3	5539	3	KIAA1632	18	43510722	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	42887	43510722	34566526	7170	29521											
KIAA1632	57724	broad.mit.edu	37	chr18	43532382	43532382	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacctcggccttgctggtgAattgctgaagatctcagaac	10	11	10	10	1	1	4	1	2	1	2	3	4	1	4	2	2	4	2	2	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:43532382A>G	uc002lbm.2	-	3	1336	c.1236T>C	c.(1234-1236)ATT>ATC	p.I412I	KIAA1632_uc002lbo.1_Silent_p.I412I	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	412					autophagy						0						CTTGCTGGTGAATTGCTGAAG	0.403													8	64					0	0	1	0	0		G	43532382	G	G	43532382	2	3	27	1	0	0	0	0	0	0	0	1	8265	242	9	3		3	KIAA1632	18	43532382	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	21660	43532382	34544866	7171	29522											
PSTPIP2	9050	broad.mit.edu	37	chr18	43577772	43577772	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggaccttatccagggtgccGatgtgcagcatgtatgcttt	7	12	12	10	2	0	0	0	0	0	0	1	2	1	1	3	2	4	4	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:43577772G>A	uc002lbp.3	-	9	681	c.585C>T	c.(583-585)ATC>ATT	p.I195I	PSTPIP2_uc002lbq.3_Silent_p.I195I	NM_024430	NP_077748	Q9H939	PPIP2_HUMAN	proline-serine-threonine phosphatase interacting	195						membrane				ovary(1)	1						CCAGGGTGCCGATGTGCAGCA	0.577													35	108					0	0	1	0	0		A	43577772	A	A	43577772	2	1	27	1	0	0	0	0	0	0	0	1	12744	1048	37	1		1	PSTPIP2	18	43577772	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	45390	43577772	34499476	7172	29523											
PSTPIP2	9050	broad.mit.edu	37	chr18	43578806	43578806	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgccagtttcacaaaaagCtgtgaaaacaaacaaacaaa	20	7	6	8	0	1	1	1	1	0	0	1	1	1	1	1	0	5	3	1	0	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:43578806C>T	uc002lbp.3	-	8	613	c.517_splice	c.e8-1	p.L173_splice	PSTPIP2_uc002lbq.3_Splice_Site_p.L173_splice	NM_024430	NP_077748	Q9H939	PPIP2_HUMAN	proline-serine-threonine phosphatase interacting							membrane				ovary(1)	1						TCACAAAAAGCTGTGAAAACA	0.463													5	81					0	0	1	0	0		T	43578806	T	T	43578806	5	4	27	1	0	0	0	0	0	0	1	0	12744	811	28	2	516	2	PSTPIP2	18	43578806	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1034	43578806	34498442	7173	29524											
ATP5A1	498	broad.mit.edu	37	chr18	43664567	43664567	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggctccagtttatcaagatAtccccttacacccgcataga	11	10	7	13	1	1	2	1	0	0	2	3	2	3	2	4	1	1	3	4	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:43664567A>G	uc002lbr.1	-	11	1573	c.1483T>C	c.(1483-1485)TAT>CAT	p.Y495H	ATP5A1_uc010dnl.1_Missense_Mutation_p.Y445H|ATP5A1_uc002lbs.1_Missense_Mutation_p.Y445H|ATP5A1_uc002lbt.1_Missense_Mutation_p.Y495H	NM_004046	NP_004037	P25705	ATPA_HUMAN	ATP synthase, H+ transporting, mitochondrial F1	495					ATP hydrolysis coupled proton transport|embryo development|lipid metabolic process|negative regulation of endothelial cell proliferation|respiratory electron transport chain	mitochondrial matrix|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism				0						TTATCAAGATATCCCCTTACA	0.438													6	38					0	0	1	0	0		G	43664567	G	G	43664567	3	3	27	1	0	0	0	0	1	0	0	0	1148	449	16	3	186	3	ATP5A1	18	43664567	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	85761	43664567	34412681	7174	29525											
HAUS1	115106	broad.mit.edu	37	chr18	43705714	43705714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttttttttaaagaatcCgtctcttgctcaagtgaaaa	12	18	5	6	1	2	2	1	1	1	1	4	2	3	2	1	0	1	1	1	0	7	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:43705714C>T	uc002lbu.2	+	8	823	c.743C>T	c.(742-744)CCG>CTG	p.P248L	HAUS1_uc002lbv.2_Missense_Mutation_p.P172L	NM_138443	NP_612452	Q96CS2	HAUS1_HUMAN	coiled-coil domain containing 5	248					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle pole				ovary(1)	1						TTAAAGAATCCGTCTCTTGCT	0.279													5	25					0	0	1	0	0		T	43705714	T	T	43705714	3	4	27	1	0	0	0	0	1	0	0	0	6981	652	23	1	773	1	HAUS1	18	43705714	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	41147	43705714	34371534	7175	29526											
PIAS2	9063	broad.mit.edu	37	chr18	44392485	44392485	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggatgaactaacatgagTactgctttcatgggagctgg	10	11	13	7	0	1	2	1	2	0	0	1	4	1	4	0	3	5	4	0	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:44392485T>C	uc002lck.2	-	14	1935	c.1777A>G	c.(1777-1779)ACT>GCT	p.T593A	PIAS2_uc010dnp.2_Missense_Mutation_p.T291A	NM_004671	NP_004662	O75928	PIAS2_HUMAN	protein inhibitor of activated STAT X isoform	593	Ser-rich.				androgen receptor signaling pathway|negative regulation of androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|PML body	androgen receptor binding|DNA binding|protein binding|SUMO ligase activity|transcription coactivator activity|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						CTAACATGAGTACTGCTTTCA	0.473													3	56					0	0	1	0	0		C	44392485	C	C	44392485	3	2	27	1	0	0	0	0	1	0	0	0	11895	1638	57	3	92	3	PIAS2	18	44392485	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	686771	44392485	33684763	7176	29527											
PIAS2	9063	broad.mit.edu	37	chr18	44470945	44470945	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaggaggtcatgcttgcGtccacttttattccgtccag	7	13	9	12	2	2	0	2	0	0	0	5	1	5	1	3	2	2	1	3	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:44470945G>A	uc002lck.2	-	2	255	c.97C>T	c.(97-99)CGC>TGC	p.R33C	PIAS2_uc010dnp.2_Translation_Start_Site|PIAS2_uc002lcl.2_Missense_Mutation_p.R33C|PIAS2_uc010xda.1_Intron|PIAS2_uc002lcm.2_Missense_Mutation_p.R33C|PIAS2_uc002lcn.1_Missense_Mutation_p.R37C	NM_004671	NP_004662	O75928	PIAS2_HUMAN	protein inhibitor of activated STAT X isoform	33	SAP.				androgen receptor signaling pathway|negative regulation of androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|PML body	androgen receptor binding|DNA binding|protein binding|SUMO ligase activity|transcription coactivator activity|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						TCATGCTTGCGTCCACTTTTA	0.423													22	75					0	0	1	0	0		A	44470945	A	A	44470945	3	1	27	1	0	0	0	0	1	0	0	0	11895	1145	40	1	1895	1	PIAS2	18	44470945	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	78460	44470945	33606303	7177	29528											
TCEB3B	51224	broad.mit.edu	37	chr18	44559507	44559507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgctgctcaggcaggggttgGcccgcttctcagggagccag	5	8	16	12	1	2	0	2	0	1	0	3	1	2	1	2	5	3	5	2	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:44559507G>A	uc002lcr.1	-	1	2482	c.2129C>T	c.(2128-2130)GCC>GTC	p.A710V	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	710					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GCAGGGGTTGGCCCGCTTCTC	0.537													20	61					0	0	1	0	0		A	44559507	A	A	44559507	3	1	27	1	0	0	0	0	1	0	0	0	15707	1203	42	2	136	2	TCEB3B	18	44559507	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	88562	44559507	33517741	7178	29529											
TCEB3B	51224	broad.mit.edu	37	chr18	44560674	44560674	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttcctgggtcccggccgTctagactgggcctcttcttg	3	13	11	14	2	3	1	0	0	3	1	5	1	5	1	4	3	0	0	4	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:44560674T>C	uc002lcr.1	-	1	1315	c.962A>G	c.(961-963)GAC>GGC	p.D321G	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	321					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GTCCCGGCCGTCTAGACTGGG	0.622													15	126					0	0	1	0	0		C	44560674	C	C	44560674	3	2	27	1	0	0	0	0	1	0	0	0	15707	1667	58	3	1303	3	TCEB3B	18	44560674	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1167	44560674	33516574	7179	29530											
TCEB3B	51224	broad.mit.edu	37	chr18	44560714	44560714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttcgagtgactgtgctgagGcctcttctggtgactgtctg	4	14	14	9	1	3	3	0	3	3	0	4	4	3	3	1	2	1	2	1	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:44560714G>A	uc002lcr.1	-	1	1275	c.922C>T	c.(922-924)CCT>TCT	p.P308S	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	308					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						CTGTGCTGAGGCCTCTTCTGG	0.617													17	165					0	0	1	0	0		A	44560714	A	A	44560714	3	1	27	1	0	0	0	0	1	0	0	0	15707	1203	42	2	1343	2	TCEB3B	18	44560714	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	40	44560714	33516534	7180	29531											
TCEB3B	51224	broad.mit.edu	37	chr18	44561192	44561192	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcagctctgggctcgcgActgtgagacctcgggtgagg	5	9	15	12	3	2	2	1	2	2	1	5	4	2	2	1	3	1	2	1	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:44561192A>G	uc002lcr.1	-	1	797	c.444T>C	c.(442-444)AGT>AGC	p.S148S	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	148					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TGGGCTCGCGACTGTGAGACC	0.662													13	100					0	0	1	0	0		G	44561192	G	G	44561192	2	3	27	1	0	0	0	0	0	0	0	1	15707	272	10	3		3	TCEB3B	18	44561192	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	478	44561192	33516056	7181	29532											
TCEB3B	51224	broad.mit.edu	37	chr18	44561608	44561608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacctgcagcttctccactgCgtgcagcgtagtggaccctg	6	9	11	15	2	1	0	0	0	1	0	2	1	1	1	3	1	5	4	3	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:44561608C>T	uc002lcr.1	-	1	381	c.28G>A	c.(28-30)GCA>ACA	p.A10T	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	10	TFIIS N-terminal.				regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TTCTCCACTGCGTGCAGCGTA	0.602													13	55					0	0	1	0	0		T	44561608	T	T	44561608	3	4	27	1	0	0	0	0	1	0	0	0	15707	768	27	1	2237	1	TCEB3B	18	44561608	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	416	44561608	33515640	7182	29533											
SMAD2	4087	broad.mit.edu	37	chr18	45374882	45374882	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catttctaccgtggcatttcGgttaacattggagagtaaac	11	13	9	8	2	1	1	0	0	1	1	2	2	1	1	1	3	3	3	1	3	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:45374882G>A	uc002lcy.2	-	8	1209	c.961C>T	c.(961-963)CGA>TGA	p.R321*	SMAD2_uc002lcz.2_Nonsense_Mutation_p.R321*|SMAD2_uc010xdc.1_Nonsense_Mutation_p.R291*|SMAD2_uc010xdd.1_Nonsense_Mutation_p.R291*	NM_005901	NP_005892	Q15796	SMAD2_HUMAN	Sma- and Mad-related protein 2 isoform 1	321	MH2.				anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			large_intestine(3)|lung(1)|central_nervous_system(1)	5						GTGGCATTTCGGTTAACATTG	0.393													6	91					0	0	1	0	0		A	45374882	A	A	45374882	4	1	27	1	0	0	0	0	0	1	0	0	14783	1124	39	1	458	1	SMAD2	18	45374882	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	813274	45374882	32702366	7183	29534											
ZBTB7C	201501	broad.mit.edu	37	chr18	45567392	45567392	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcacacagcaggccatcGtgccgttgctcattgaggct	8	9	11	13	3	2	1	2	1	0	0	3	1	2	1	2	2	3	4	2	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:45567392G>A	uc002lda.2	-	1	103	c.87C>T	c.(85-87)CAC>CAT	p.H29H	ZBTB7C_uc002ldb.2_Silent_p.H29H|ZBTB7C_uc010dnu.2_Silent_p.H38H|ZBTB7C_uc010dnv.2_Silent_p.H51H|ZBTB7C_uc010dnw.2_Silent_p.H29H|ZBTB7C_uc010dnx.1_Silent_p.H29H|ZBTB7C_uc010dny.1_Silent_p.H29H|ZBTB7C_uc010dnz.1_Silent_p.H51H|ZBTB7C_uc010dob.1_Silent_p.H29H|ZBTB7C_uc010doc.1_Silent_p.H38H|ZBTB7C_uc010dod.1_Silent_p.H51H|ZBTB7C_uc010doe.1_Silent_p.H29H|ZBTB7C_uc010dof.1_Silent_p.H29H|ZBTB7C_uc010dog.1_Silent_p.H29H|ZBTB7C_uc010doh.1_Silent_p.H38H|ZBTB7C_uc010doi.1_Silent_p.H29H|ZBTB7C_uc010doj.1_Silent_p.H38H|ZBTB7C_uc010dok.1_Silent_p.H78H|ZBTB7C_uc010dol.1_Silent_p.H38H|ZBTB7C_uc010doa.1_Silent_p.H51H|ZBTB7C_uc010don.1_Silent_p.H37H|ZBTB7C_uc010doo.1_Silent_p.H29H|ZBTB7C_uc010dop.1_Silent_p.H29H|ZBTB7C_uc010doq.1_Silent_p.H38H|ZBTB7C_uc010dor.1_Silent_p.H51H|ZBTB7C_uc010dos.1_Silent_p.H29H|ZBTB7C_uc010dot.1_Silent_p.H29H|ZBTB7C_uc010dou.1_Silent_p.H38H|ZBTB7C_uc010dom.1_Silent_p.H38H	NM_001039360	NP_001034449	A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	29						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GCAGGCCATCGTGCCGTTGCT	0.572													13	48					0	0	1	0	0		A	45567392	A	A	45567392	2	1	27	1	0	0	0	0	0	0	0	1	17580	1136	40	1		1	ZBTB7C	18	45567392	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	192510	45567392	32509856	7184	29535											
DYM	54808	broad.mit.edu	37	chr18	46645179	46645179	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaattgttcaaagagatcgcGtttgtaaagcagggcgtata	14	11	11	5	3	1	1	1	0	0	1	2	2	1	1	0	1	1	5	0	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:46645179G>A	uc002ldi.1	-	15	2046	c.1681C>T	c.(1681-1683)CGC>TGC	p.R561C	DYM_uc010xdf.1_Missense_Mutation_p.R371C|DYM_uc002ldj.3_Missense_Mutation_p.R383C	NM_017653	NP_060123	Q7RTS9	DYM_HUMAN	dymeclin	561						Golgi apparatus					0						AAGAGATCGCGTTTGTAAAGC	0.368													8	55					0	0	1	0	0		A	46645179	A	A	46645179	3	1	27	1	0	0	0	0	1	0	0	0	4846	1145	40	1	340	1	DYM	18	46645179	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1077787	46645179	31432069	7185	29536											
ACAA2	10449	broad.mit.edu	37	chr18	47320717	47320717	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctgcttattttgtgtttTacagcaagattctctgcagt	7	19	7	8	0	2	1	0	0	2	1	4	1	2	1	0	0	4	4	0	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:47320717T>C	uc002ldw.3	-	5	907	c.510A>G	c.(508-510)GTA>GTG	p.V170V	ACAA2_uc002ldx.3_Silent_p.V167V	NM_006111	NP_006102	P42765	THIM_HUMAN	acetyl-coenzyme A acyltransferase 2	170					anti-apoptosis|cholesterol biosynthetic process		acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1						TTTTGTGTTTTACAGCAAGAT	0.393													5	56					0	0	1	0	0		C	47320717	C	C	47320717	2	2	27	1	0	0	0	0	0	0	0	1	105	1741	61	3		3	ACAA2	18	47320717	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	675538	47320717	30756531	7186	29537											
MYO5B	4645	broad.mit.edu	37	chr18	47363953	47363953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggttgttaagagtcactGcgttgatcatgtagaagagc	11	11	13	6	1	2	4	2	1	0	3	2	4	2	4	0	1	2	5	0	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:47363953G>A	uc002leb.2	-	37	5360	c.5072C>T	c.(5071-5073)GCA>GTA	p.A1691V	MYO5B_uc002ldz.2_Missense_Mutation_p.A261V|MYO5B_uc002lea.2_Missense_Mutation_p.A806V	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	1691	Dilute.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		AAGAGTCACTGCGTTGATCAT	0.512													15	48					0	0	1	0	0		A	47363953	A	A	47363953	3	1	27	1	0	0	0	0	1	0	0	0	10097	1319	46	2	490	2	MYO5B	18	47363953	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	43236	47363953	30713295	7187	29538											
MYO5B	4645	broad.mit.edu	37	chr18	47406824	47406824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgctccaggtctgcaactCgctggaagagagcaataggg	10	8	13	10	1	1	1	0	0	1	1	3	3	2	2	1	3	4	4	1	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:47406824C>T	uc002leb.2	-	23	3335	c.3047G>A	c.(3046-3048)CGA>CAA	p.R1016Q	MYO5B_uc002lea.2_Missense_Mutation_p.R157Q	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	1016	Potential.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity	p.R1016*(1)		ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		GTCTGCAACTCGCTGGAAGAG	0.438													20	234					0	0	1	0	0		T	47406824	T	T	47406824	3	4	27	1	0	0	0	0	1	0	0	0	10097	898	31	1	2571	1	MYO5B	18	47406824	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	42871	47406824	30670424	7188	29539											
CXXC1	30827	broad.mit.edu	37	chr18	47810331	47810331	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaagctcatggaatcggCgttccatttcctgaaggcga	9	10	10	12	3	2	1	2	1	0	0	5	3	4	2	3	3	1	2	3	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:47810331C>A	uc002leq.3	-	10	2079	c.1346G>T	c.(1345-1347)CGC>CTC	p.R449L	MBD1_uc002leg.2_5'Flank|MBD1_uc010dow.1_5'Flank|MBD1_uc010xdi.1_5'Flank|MBD1_uc002leh.3_5'Flank|MBD1_uc002len.2_5'Flank|MBD1_uc002lei.3_5'Flank|MBD1_uc002lej.3_5'Flank|MBD1_uc002lek.3_5'Flank|MBD1_uc002lel.3_5'Flank|MBD1_uc002lem.3_5'Flank|MBD1_uc010xdj.1_5'Flank|MBD1_uc010xdk.1_5'Flank|MBD1_uc002leo.2_5'Flank|CXXC1_uc002lep.3_Missense_Mutation_p.R306L|CXXC1_uc002ler.3_Missense_Mutation_p.R453L|CXXC1_uc010doy.2_Missense_Mutation_p.R449L|CXXC1_uc002les.2_Missense_Mutation_p.R449L	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	449	Potential.				histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						ATGGAATCGGCGTTCCATTTC	0.607													7	134					0.0381472	0.0386818	1	1	0		A	47810331	A	A	47810331	3	1	27	1	0	0	0	0	1	0	0	0	4100	768	27	5	648	5	CXXC1	18	47810331	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	403507	47810331	30266917	7189	29540											
SKA1	220134	broad.mit.edu	37	chr18	47917530	47917530	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaacctataatcaaattaaTgatgttattaaagaaatcaa	20	14	3	4	0	2	2	2	1	0	1	2	2	2	2	1	0	1	1	1	0	10	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:47917530T>C	uc002let.2	+	6	670	c.486T>C	c.(484-486)AAT>AAC	p.N162N	SKA1_uc002leu.2_Silent_p.N162N|SKA1_uc010xdl.1_Silent_p.N116N	NM_145060	NP_659497	Q96BD8	SKA1_HUMAN	spindle and KT associated 1	162					cell division|chromosome segregation|mitotic anaphase|mitotic prometaphase|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytosol|spindle microtubule	microtubule binding				0						ATCAAATTAATGATGTTATTA	0.279													9	38					0	0	1	0	0		C	47917530	C	C	47917530	2	2	27	1	0	0	0	0	0	0	0	1	14377	1461	51	3		3	SKA1	18	47917530	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	107199	47917530	30159718	7190	29541											
MAPK4	5596	broad.mit.edu	37	chr18	48255702	48255702	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctagagcagtcgcactcGtccatggagcgcgccttcga	7	9	11	14	5	0	1	0	0	0	1	5	3	2	2	3	1	2	2	3	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:48255702G>A	uc002lev.2	+	6	2242	c.1242G>A	c.(1240-1242)TCG>TCA	p.S414S	MAPK4_uc010xdm.1_Silent_p.S203S|MAPK4_uc010doz.2_3'UTR	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	414					cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		AGTCGCACTCGTCCATGGAGC	0.682													7	9					0	0	1	0	0		A	48255702	A	A	48255702	2	1	27	1	0	0	0	0	0	0	0	1	9298	1132	40	1		1	MAPK4	18	48255702	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	338172	48255702	29821546	7191	29542											
SMAD4	4089	broad.mit.edu	37	chr18	48603091	48603091	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgcccaggcagcagcCgtggcaggaaacatccctgg	9	4	14	14	1	0	0	0	0	0	0	1	1	1	1	3	4	5	5	3	4	1	0	rs140487104	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:48603091C>T	uc010xdp.1	+	11	1930	c.1392C>T	c.(1390-1392)GCC>GCT	p.A464A	SMAD4_uc002lfb.3_Silent_p.A309A	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	464	Poly-Ala.|MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		AGGCAGCAGCCGTGGCAGGAA	0.463									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				9	32					0	0	1	0	0		T	48603091	T	T	48603091	2	4	27	1	0	0	0	0	0	0	0	1	14785	639	23	1		1	SMAD4	18	48603091	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	347389	48603091	29474157	7192	29543											
DCC	1630	broad.mit.edu	37	chr18	50683828	50683828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggcgcccacctgcagaagCgaaagggaacattcaaactt	13	6	10	12	2	1	1	1	0	0	1	1	3	1	2	2	2	4	1	2	2	4	2	rs145985306	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:50683828C>T	uc002lfe.1	+	8	1951	c.1364C>T	c.(1363-1365)GCG>GTG	p.A455V	DCC_uc010xdr.1_Missense_Mutation_p.A303V|DCC_uc010dpf.1_Missense_Mutation_p.A110V	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	455	Extracellular (Potential).|Fibronectin type-III 1.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		CCTGCAGAAGCGAAAGGGAAC	0.502													13	100					0	0	1	0	0		T	50683828	T	T	50683828	3	4	27	1	0	0	0	0	1	0	0	0	4285	768	27	1	1394	1	DCC	18	50683828	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2080737	50683828	27393420	7193	29544											
DCC	1630	broad.mit.edu	37	chr18	51025679	51025679	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccactgcagcagtgagtgaaGgaccaactacccaacaacca	15	4	8	14	0	0	2	0	2	0	0	0	3	0	3	4	1	6	2	4	1	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:51025679G>T	uc002lfe.1	+	27	4497	c.3910G>T	c.(3910-3912)GGA>TGA	p.G1304*	DCC_uc010dpf.1_Nonsense_Mutation_p.G937*	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1304	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AGTGAGTGAAGGACCAACTAC	0.502													4	62					0.00024832	0.000261516	1	1	0		T	51025679	T	T	51025679	4	4	27	1	0	0	0	0	0	1	0	0	4285	1001	35	5	4016	5	DCC	18	51025679	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	341851	51025679	27051569	7194	29545											
MBD2	8932	broad.mit.edu	37	chr18	51731394	51731394	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgattgagaggatcgtttcGcagtctctgtttgttcttct	5	19	10	7	2	3	2	0	2	3	1	6	4	3	3	0	1	0	4	0	1	0	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:51731394G>A	uc002lfg.1	-	2	905	c.676C>T	c.(676-678)CGA>TGA	p.R226*	MBD2_uc002lfh.1_Nonsense_Mutation_p.R226*	NM_003927	NP_003918	Q9UBB5	MBD2_HUMAN	methyl-CpG binding domain protein 2 isoform 1	226					transcription, DNA-dependent		C2H2 zinc finger domain binding|methyl-CpG binding|satellite DNA binding				0				Colorectal(16;0.0212)|READ - Rectum adenocarcinoma(32;0.188)	Hexobarbital(DB01355)	GGATCGTTTCGCAGTCTCTGT	0.368													11	132					0	0	1	0	0		A	51731394	A	A	51731394	4	1	27	1	0	0	0	0	0	1	0	0	9361	1095	38	1	790	1	MBD2	18	51731394	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	705715	51731394	26345854	7195	29546											
POLI	11201	broad.mit.edu	37	chr18	51807191	51807191	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaattagtttctggtgtcttTaaaccaaatcaacaaacagt	16	13	5	7	0	3	0	1	0	2	0	3	0	3	0	1	1	3	1	1	1	7	4	rs150177922		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:51807191T>C	uc002lfj.3	+	5	782	c.714T>C	c.(712-714)TTT>TTC	p.F238F	POLI_uc010xds.1_Intron|POLI_uc002lfk.3_Silent_p.F135F|POLI_uc002lfl.1_Silent_p.F170F|POLI_uc010dpg.2_5'Flank	NM_007195	NP_009126	Q9UNA4	POLI_HUMAN	DNA polymerase iota	238	UmuC.				DNA repair|DNA replication	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding|protein binding			ovary(2)|kidney(1)	3				Colorectal(16;0.0234)|READ - Rectum adenocarcinoma(59;0.197)		CTGGTGTCTTTAAACCAAATC	0.378								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					8	98					0	0	1	0	0		C	51807191	C	C	51807191	2	2	27	1	0	0	0	0	0	0	0	1	12222	1751	61	3		3	POLI	18	51807191	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	75797	51807191	26270057	7196	29547											
POLI	11201	broad.mit.edu	37	chr18	51820609	51820609	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttccaaacttgcagagtgaGcaacttttctccagaaacca	13	11	6	11	0	1	3	0	1	1	2	3	3	2	3	3	0	5	2	3	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:51820609G>A	uc002lfj.3	+	10	2063	c.1995G>A	c.(1993-1995)GAG>GAA	p.E665E	POLI_uc010xds.1_Silent_p.E586E|POLI_uc002lfk.3_Silent_p.E562E|POLI_uc010dpg.2_Silent_p.E261E	NM_007195	NP_009126	Q9UNA4	POLI_HUMAN	DNA polymerase iota	665					DNA repair|DNA replication	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding|protein binding			ovary(2)|kidney(1)	3				Colorectal(16;0.0234)|READ - Rectum adenocarcinoma(59;0.197)		TGCAGAGTGAGCAACTTTTCT	0.403								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					8	64					0	0	1	0	0		A	51820609	A	A	51820609	2	1	27	1	0	0	0	0	0	0	0	1	12222	962	34	2		2	POLI	18	51820609	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13418	51820609	26256639	7197	29548											
C18orf54	162681	broad.mit.edu	37	chr18	51887090	51887090	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctgtacagatctgcttctCaagctctacaggcttatatt	10	14	7	10	0	3	1	1	0	3	1	4	1	3	1	0	1	5	5	0	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:51887090C>T	uc002lfn.3	+	2	264	c.148C>T	c.(148-150)CAA>TAA	p.Q50*	C18orf54_uc002lfo.3_Nonsense_Mutation_p.Q50*	NM_173529	NP_775800	Q8IYD9	CR054_HUMAN	hypothetical protein LOC162681 precursor	50						extracellular region				ovary(1)|skin(1)	2				Colorectal(16;0.0206)|READ - Rectum adenocarcinoma(59;0.186)		ATCTGCTTCTCAAGCTCTACA	0.398													7	93					0	0	1	0	0		T	51887090	T	T	51887090	4	4	27	1	0	0	0	0	0	1	0	0	1907	827	29	4	150	4	C18orf54	18	51887090	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	66481	51887090	26190158	7198	29549											
TXNL1	9352	broad.mit.edu	37	chr18	54281794	54281794	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccatagatcggggtaggTtgataaaaatttttacatat	15	14	8	4	1	0	2	0	1	0	1	2	2	1	2	1	3	1	2	1	3	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:54281794T>C	uc002lgg.2	-	6	845	c.596A>G	c.(595-597)AAC>AGC	p.N199S	TXNL1_uc010xdz.1_RNA|TXNL1_uc002lgh.2_RNA|TXNL1_uc002lgi.2_Missense_Mutation_p.N199S|TXNL1_uc002lgj.1_Missense_Mutation_p.N199S	NM_004786	NP_004777	O43396	TXNL1_HUMAN	thioredoxin-like 1	199	PITH.				cell redox homeostasis|electron transport chain|glycerol ether metabolic process|transport	cytoplasm	electron carrier activity|protein disulfide oxidoreductase activity				0				READ - Rectum adenocarcinoma(59;0.193)|Colorectal(16;0.211)		TCGGGGTAGGTTGATAAAAAT	0.348													3	33					0	0	1	0	0		C	54281794	C	C	54281794	3	2	27	1	0	0	0	0	1	0	0	0	16830	1725	60	3	285	3	TXNL1	18	54281794	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2394704	54281794	23795454	7199	29550											
WDR7	23335	broad.mit.edu	37	chr18	54353252	54353252	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggattgttacctcggaaataAgtgacatgcaggtgagaaaa	15	9	12	5	1	0	2	0	2	0	1	1	5	0	4	1	3	2	2	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:54353252A>G	uc002lgk.1	+	6	797	c.586A>G	c.(586-588)AGT>GGT	p.S196G	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.S196G	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	196	WD 3.									ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		CTCGGAAATAAGTGACATGCA	0.413													10	103					0	0	1	0	0		G	54353252	G	G	54353252	3	3	27	1	0	0	0	0	1	0	0	0	17346	72	3	3	604	3	WDR7	18	54353252	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	71458	54353252	23723996	7200	29551											
NARS	4677	broad.mit.edu	37	chr18	55287875	55287875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccctctcggtcagagacgtAcagctctgctgtttgacaaa	9	11	9	12	2	3	2	1	1	2	1	5	3	4	2	1	1	3	4	1	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:55287875A>G	uc002lgs.2	-	2	247	c.19T>C	c.(19-21)TAC>CAC	p.Y7H	NARS_uc002lgt.2_Missense_Mutation_p.Y6H|NARS_uc010xea.1_5'UTR|NARS_uc010xeb.1_RNA|NARS_uc010xec.1_Missense_Mutation_p.Y7H|NARS_uc010xed.1_Intron	NM_004539	NP_004530	O43776	SYNC_HUMAN	asparaginyl-tRNA synthetase	7					asparaginyl-tRNA aminoacylation	cytosol|soluble fraction	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding				0		Colorectal(73;0.227)			L-Asparagine(DB00174)	TCAGAGACGTACAGCTCTGCT	0.408													10	103					0	0	1	0	0		G	55287875	G	G	55287875	3	3	27	1	0	0	0	0	1	0	0	0	10188	391	14	3	1679	3	NARS	18	55287875	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	934623	55287875	22789373	7201	29552											
ATP8B1	5205	broad.mit.edu	37	chr18	55335735	55335735	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatggtttctggaactccaTcctgtagcttgtcttcaata	10	15	7	9	0	3	0	1	0	2	0	5	1	5	1	2	2	2	3	2	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:55335735T>C	uc002lgw.2	-	18	2135	c.2135A>G	c.(2134-2136)GAT>GGT	p.D712G	uc002lgu.1_RNA|uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	712	Cytoplasmic (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				TGGAACTCCATCCTGTAGCTT	0.358									Byler_disease				3	81					0	0	1	0	0		C	55335735	C	C	55335735	3	2	27	1	0	0	0	0	1	0	0	0	1195	1435	50	3	1660	3	ATP8B1	18	55335735	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47860	55335735	22741513	7202	29553											
NEDD4L	23327	broad.mit.edu	37	chr18	55919283	55919283	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtatttgacgaaaatagActggtaagtggatgcctgta	14	11	12	4	1	0	2	0	1	0	1	0	5	0	3	1	2	1	3	1	2	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:55919283A>G	uc002lgy.2	+	5	568	c.294A>G	c.(292-294)AGA>AGG	p.R98R	NEDD4L_uc002lgz.2_Silent_p.R98R|NEDD4L_uc002lgx.2_Silent_p.R98R|NEDD4L_uc010xee.1_5'UTR|NEDD4L_uc002lhc.2_Silent_p.R90R|NEDD4L_uc002lhd.2_5'UTR|NEDD4L_uc002lhb.2_5'UTR|NEDD4L_uc002lhe.2_Silent_p.R90R|NEDD4L_uc002lhf.2_5'UTR|NEDD4L_uc010dpl.1_RNA|NEDD4L_uc002lhg.2_5'UTR|NEDD4L_uc002lhh.2_5'UTR	NM_001144967	NP_001138439	Q96PU5	NED4L_HUMAN	neural precursor cell expressed, developmentally	98	C2.				cellular sodium ion homeostasis|excretion|interspecies interaction between organisms|positive regulation of endocytosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of protein catabolic process|response to metal ion|sodium ion transport|water homeostasis	cytoplasm	protein binding|sodium channel regulator activity|ubiquitin-protein ligase activity			lung(4)	4						ACGAAAATAGACTGGTAAGTG	0.323													7	71					0	0	1	0	0		G	55919283	G	G	55919283	2	3	27	1	0	0	0	0	0	0	0	1	10330	272	10	3		3	NEDD4L	18	55919283	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	583548	55919283	22157965	7203	29554											
ALPK2	115701	broad.mit.edu	37	chr18	56202770	56202770	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaaccccaagagaagcgTgagtcattattggaagacaa	15	8	10	8	1	2	3	2	1	0	2	2	5	2	4	2	1	2	0	2	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:56202770T>C	uc002lhj.3	-	5	4863	c.4649A>G	c.(4648-4650)CAC>CGC	p.H1550R	ALPK2_uc002lhk.1_Missense_Mutation_p.H881R	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1550							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						AAGAGAAGCGTGAGTCATTAT	0.468													8	90					0	0	1	0	0		C	56202770	C	C	56202770	3	2	27	1	0	0	0	0	1	0	0	0	545	1696	59	3	1899	3	ALPK2	18	56202770	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	283487	56202770	21874478	7204	29555											
ZNF532	55205	broad.mit.edu	37	chr18	56587141	56587141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggccacctctgaactccGccaagtgctaaccaaacctc	11	6	6	18	1	1	1	0	1	1	0	3	1	2	1	7	1	4	1	7	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:56587141G>A	uc002lho.2	+	4	2169	c.1622G>A	c.(1621-1623)CGC>CAC	p.R541H	ZNF532_uc002lhp.2_Missense_Mutation_p.R539H|ZNF532_uc010xeg.1_Missense_Mutation_p.R539H|ZNF532_uc002lhr.2_Missense_Mutation_p.R539H|ZNF532_uc002lhs.2_Missense_Mutation_p.R539H	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	541					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						TCTGAACTCCGCCAAGTGCTA	0.552													4	52					0	0	1	0	0		A	56587141	A	A	56587141	3	1	27	1	0	0	0	0	1	0	0	0	17997	1087	38	1	1624	1	ZNF532	18	56587141	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	384371	56587141	21490107	7205	29556											
ZNF532	55205	broad.mit.edu	37	chr18	56587856	56587856	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccagcaggctgcagatacGagtggacaagtagagtatca	13	8	12	8	1	1	2	1	0	0	2	2	4	2	3	1	2	3	5	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:56587856G>A	uc002lho.2	+	4	2884	c.2337G>A	c.(2335-2337)ACG>ACA	p.T779T	ZNF532_uc002lhp.2_Silent_p.T777T|ZNF532_uc010xeg.1_Silent_p.T777T|ZNF532_uc002lhr.2_Silent_p.T777T|ZNF532_uc002lhs.2_Silent_p.T777T	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	779	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						CTGCAGATACGAGTGGACAAG	0.423													5	58					0	0	1	0	0		A	56587856	A	A	56587856	2	1	27	1	0	0	0	0	0	0	0	1	17997	1045	37	1		1	ZNF532	18	56587856	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	715	56587856	21489392	7206	29557											
ZNF532	55205	broad.mit.edu	37	chr18	56606804	56606804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagtctgccccaagcacaCattcccacgcctacacacag	12	7	5	17	1	1	0	0	0	1	0	2	0	2	0	4	0	3	1	4	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:56606804C>T	uc002lho.2	+	6	3203	c.2656C>T	c.(2656-2658)CAT>TAT	p.H886Y	ZNF532_uc002lhp.2_Missense_Mutation_p.H884Y|ZNF532_uc010xeg.1_Missense_Mutation_p.H884Y|ZNF532_uc002lhr.2_Missense_Mutation_p.H884Y|ZNF532_uc002lhs.2_Missense_Mutation_p.H884Y	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	886	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						CCCAAGCACACATTCCCACGC	0.438													14	96					0	0	1	0	0		T	56606804	T	T	56606804	3	4	27	1	0	0	0	0	1	0	0	0	17997	478	17	4	2666	4	ZNF532	18	56606804	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18948	56606804	21470444	7207	29558											
ZNF532	55205	broad.mit.edu	37	chr18	56620892	56620892	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgggaaagagaaattggAaaagaaatctccatctcctg	17	8	10	6	0	2	2	0	0	2	2	4	6	2	4	2	2	0	0	2	2	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:56620892A>G	uc002lho.2	+	8	3558	c.3011A>G	c.(3010-3012)GAA>GGA	p.E1004G	ZNF532_uc002lhp.2_Missense_Mutation_p.E1002G|ZNF532_uc010xeg.1_Missense_Mutation_p.E1002G|ZNF532_uc002lhr.2_Missense_Mutation_p.E1002G|ZNF532_uc002lhs.2_Missense_Mutation_p.E1002G|ZNF532_uc010xeh.1_Missense_Mutation_p.E96G	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	1004					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						GAGAAATTGGAAAAGAAATCT	0.428													10	72					0	0	1	0	0		G	56620892	G	G	56620892	3	3	27	1	0	0	0	0	1	0	0	0	17997	246	9	3	3029	3	ZNF532	18	56620892	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14088	56620892	21456356	7208	29559											
GRP	2922	broad.mit.edu	37	chr18	56892961	56892961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaagatgtaggttcaaaagGcaaaggtaaaagaaacatac	21	6	9	5	0	1	2	1	0	0	2	1	2	1	2	0	3	2	4	0	3	9	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:56892961G>A	uc002lhv.2	+	2	475	c.377G>A	c.(376-378)GGC>GAC	p.G126D	GRP_uc002lhu.2_Intron|GRP_uc002lhw.2_Missense_Mutation_p.G126D	NM_002091	NP_002082	P07492	GRP_HUMAN	gastrin-releasing peptide isoform 1	126					neuropeptide signaling pathway	extracellular space	neuropeptide hormone activity				0		Colorectal(73;0.0946)				GGTTCAAAAGGCAAAGGTAAA	0.478													7	114					0	0	1	0	0		A	56892961	A	A	56892961	3	1	27	1	0	0	0	0	1	0	0	0	6821	1203	42	2	383	2	GRP	18	56892961	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	272069	56892961	21184287	7209	29560											
LMAN1	3998	broad.mit.edu	37	chr18	57006142	57006142	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgattctgtccttcaaagacTtgtcttagctctcgatctcc	7	15	6	13	2	5	1	1	0	4	1	8	3	6	1	2	0	1	1	2	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:57006142T>C	uc002lhz.2	-	9	1031	c.999A>G	c.(997-999)CAA>CAG	p.Q333Q		NM_005570	NP_005561	P49257	LMAN1_HUMAN	lectin, mannose-binding, 1 precursor	333	Lumenal (Potential).				blood coagulation|ER to Golgi vesicle-mediated transport|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	mannose binding|metal ion binding|unfolded protein binding			skin(1)	1		Colorectal(73;0.0946)			Antihemophilic Factor(DB00025)	CTTCAAAGACTTGTCTTAGCT	0.363													8	98					0	0	1	0	0		C	57006142	C	C	57006142	2	2	27	1	0	0	0	0	0	0	0	1	8853	1606	56	3		3	LMAN1	18	57006142	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	113181	57006142	21071106	7210	29561											
MC4R	4160	broad.mit.edu	37	chr18	58038610	58038610	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgctagacaagtcacaaaGgcctcccaggggatagcaac	13	6	10	12	0	2	1	1	0	1	1	3	2	3	2	2	3	3	2	2	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:58038610G>T	uc002lie.1	-	1	1392	c.973C>A	c.(973-975)CTT>ATT	p.L325I		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	325	Cytoplasmic (Potential).		L -> F (in obesity; does not bind alpha- MSH).		feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)				AAGTCACAAAGGCCTCCCAGG	0.418													9	116					3.86212e-05	4.11225e-05	1	1	0		T	58038610	T	T	58038610	3	4	27	1	0	0	0	0	1	0	0	0	9384	1000	35	5	29	5	MC4R	18	58038610	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1032468	58038610	20038638	7211	29562											
CDH20	28316	broad.mit.edu	37	chr18	59157790	59157790	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaacctggcaatcccatgTggacttctggtagaatgagc	12	9	11	9	0	1	2	0	1	1	1	2	4	2	3	2	3	2	2	2	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:59157790T>C	uc010dps.1	+	1	16	c.4T>C	c.(4-6)TGG>CGG	p.W2R	CDH20_uc002lif.2_5'UTR	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	2					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				CAATCCCATGTGGACTTCTGG	0.423													11	111					0	0	1	0	0		C	59157790	C	C	59157790	3	2	27	1	0	0	0	0	1	0	0	0	3109	1696	59	3	6	3	CDH20	18	59157790	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1119180	59157790	18919458	7212	29563											
CDH20	28316	broad.mit.edu	37	chr18	59195450	59195450	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgtgaccaacaactcaaTcaggtttttccacagatttc	13	12	6	10	0	2	3	2	1	0	2	4	3	3	3	2	1	2	1	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:59195450T>A	uc010dps.1	+	6	1280	c.1268T>A	c.(1267-1269)ATC>AAC	p.I423N	CDH20_uc002lif.2_Missense_Mutation_p.I417N	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	423	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				AACAACTCAATCAGGTTTTTC	0.423													37	165					0	0	1	0	0		A	59195450	A	A	59195450	3	1	27	1	0	0	0	0	1	0	0	0	3109	1435	50	5	1290	5	CDH20	18	59195450	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37660	59195450	18881798	7213	29564											
RNF152	220441	broad.mit.edu	37	chr18	59483549	59483549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accgcggcaccaggggcaccGcacatccttctggctggtcc	6	6	12	17	3	1	0	0	0	1	0	3	0	3	0	5	5	0	4	5	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:59483549G>A	uc002lih.1	-	2	560	c.148C>T	c.(148-150)CGG>TGG	p.R50W		NM_173557	NP_775828	Q8N8N0	RN152_HUMAN	ring finger protein 152	50	RING-type.				apoptosis|protein K48-linked ubiquitination	integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			breast(1)	1		Colorectal(73;0.186)				CAGGGGCACCGCACATCCTTC	0.642													8	41					0	0	1	0	0		A	59483549	A	A	59483549	3	1	27	1	0	0	0	0	1	0	0	0	13478	1086	38	1	467	1	RNF152	18	59483549	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	288099	59483549	18593699	7214	29565											
ZCCHC2	54877	broad.mit.edu	37	chr18	60242140	60242140	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcacagcagcaacttcTccccagccagcgagcgcagg	10	4	10	17	2	2	0	1	0	1	0	3	1	2	0	3	1	7	4	3	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:60242140T>C	uc002lip.3	+	13	2826	c.2826T>C	c.(2824-2826)TCT>TCC	p.S942S	ZCCHC2_uc002lio.2_RNA|ZCCHC2_uc002liq.2_Silent_p.S412S	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	942					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding			lung(1)|prostate(1)	2						CAGCAACTTCTCCCCAGCCAG	0.647													6	64					0	0	1	0	0		C	60242140	C	C	60242140	2	2	27	1	0	0	0	0	0	0	0	1	17612	1538	54	3		3	ZCCHC2	18	60242140	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	758591	60242140	17835108	7215	29566											
ZCCHC2	54877	broad.mit.edu	37	chr18	60242648	60242648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggagattctatcctgtatatCcagcacctaacgtagttgcc	10	12	8	11	1	1	1	0	0	1	1	3	2	3	1	4	1	3	4	4	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:60242648C>T	uc002lip.3	+	13	3334	c.3334C>T	c.(3334-3336)CCA>TCA	p.P1112S	ZCCHC2_uc002lio.2_RNA|ZCCHC2_uc002liq.2_Missense_Mutation_p.P582S	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	1112					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding			lung(1)|prostate(1)	2						TCCTGTATATCCAGCACCTAA	0.493													7	49					0	0	1	0	0		T	60242648	T	T	60242648	3	4	27	1	0	0	0	0	1	0	0	0	17612	855	30	4	3384	4	ZCCHC2	18	60242648	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	508	60242648	17834600	7216	29567											
PHLPP1	23239	broad.mit.edu	37	chr18	60562361	60562361	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcaatgccctgcgatcAgtcccggcagccgttggagt	6	9	12	14	3	1	0	1	0	0	0	3	2	3	1	4	2	4	3	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:60562361A>G	uc002lis.2	+	6	826	c.648A>G	c.(646-648)TCA>TCG	p.S216S		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	728	LRR 4.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						CCCTGCGATCAGTCCCGGCAG	0.547													4	46					0	0	1	0	0		G	60562361	G	G	60562361	2	3	27	1	0	0	0	0	0	0	0	1	11873	175	7	3		3	PHLPP1	18	60562361	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	319713	60562361	17514887	7217	29568											
PHLPP1	23239	broad.mit.edu	37	chr18	60609078	60609078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcctcacagacaaatgtgtgCccttgttaacgggacacccc	10	8	9	14	1	1	1	1	0	0	1	1	2	1	2	4	1	2	1	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:60609078C>T	uc002lis.2	+	12	1730	c.1552C>T	c.(1552-1554)CCC>TCC	p.P518S		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	1030	LRR 16.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						CAAATGTGTGCCCTTGTTAAC	0.453													4	76					0	0	1	0	0		T	60609078	T	T	60609078	3	4	27	1	0	0	0	0	1	0	0	0	11873	739	26	2	3130	2	PHLPP1	18	60609078	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	46717	60609078	17468170	7218	29569											
KDSR	2531	broad.mit.edu	37	chr18	61022445	61022445	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttttacttacttcaaaggTactaacttcaagatcttcaa	14	16	3	8	0	4	1	3	0	1	1	4	1	4	1	0	1	4	1	0	1	7	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:61022445T>A	uc010dpw.2	-	5	564	c.409A>T	c.(409-411)ACC>TCC	p.T137S	KDSR_uc010xem.1_Missense_Mutation_p.T137S	NM_002035	NP_002026	Q06136	KDSR_HUMAN	3-ketodihydrosphingosine reductase precursor	137	Cytoplasmic (Potential).				3-keto-sphinganine metabolic process	endoplasmic reticulum membrane|extracellular space|integral to membrane	3-dehydrosphinganine reductase activity|binding			skin(1)	1						ACTTCAAAGGTACTAACTTCA	0.393													10	82					0	0	1	0	0		A	61022445	A	A	61022445	3	1	27	1	0	0	0	0	1	0	0	0	8156	1638	57	5	613	5	KDSR	18	61022445	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	413367	61022445	17054803	7219	29570											
SERPINB13	5275	broad.mit.edu	37	chr18	61261619	61261619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggacttgttcccagatggctCtattagtagctctaccaagc	9	12	9	11	0	2	1	0	0	2	1	3	2	3	2	2	2	3	4	2	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:61261619C>T	uc002ljc.2	+	6	671	c.503C>T	c.(502-504)TCT>TTT	p.S168F	SERPINB13_uc002ljd.2_Missense_Mutation_p.S32F|SERPINB13_uc010xep.1_Missense_Mutation_p.S177F|SERPINB13_uc010xeq.1_5'UTR|SERPINB13_uc010xer.1_5'UTR	NM_012397	NP_036529	Q9UIV8	SPB13_HUMAN	serine (or cysteine) proteinase inhibitor, clade	168					regulation of proteolysis|response to UV	cytoplasm|extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)	1						CCAGATGGCTCTATTAGTAGC	0.358													6	55					0	0	1	0	0		T	61261619	T	T	61261619	3	4	27	1	0	0	0	0	1	0	0	0	14125	913	32	4	521	4	SERPINB13	18	61261619	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	239174	61261619	16815629	7220	29571											
SERPINB11	89778	broad.mit.edu	37	chr18	61378571	61378571	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttttttttcttttctaggtGcttcattttagtcatactgt	5	24	5	7	0	4	0	2	0	2	0	4	0	4	0	0	1	2	1	0	1	3	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:61378571G>A	uc002ljk.3	+	3	233	c.171G>A	c.(169-171)GTG>GTA	p.V57V	SERPINB11_uc010xes.1_5'UTR|SERPINB11_uc010dqd.2_5'UTR|SERPINB11_uc002ljj.3_5'UTR|SERPINB11_uc010dqe.2_5'UTR|SERPINB11_uc010dqf.2_Intron	NM_080475	NP_536723	Q96P15	SPB11_HUMAN	serpin peptidase inhibitor, clade B, member 11	57					regulation of proteolysis	cytoplasm	serine-type endopeptidase inhibitor activity			breast(1)	1		Esophageal squamous(42;0.129)				TTTTCTAGGTGCTTCATTTTA	0.333													32	89					0	0	1	0	0		A	61378571	A	A	61378571	2	1	27	1	0	0	0	0	0	0	0	1	14123	1306	46	2		2	SERPINB11	18	61378571	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	116952	61378571	16698677	7221	29572											
SERPINB7	8710	broad.mit.edu	37	chr18	61449733	61449733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgccctggccctggtcCgcttgggcgctcaagatgac	4	9	13	15	3	1	2	1	1	0	1	3	2	2	2	3	3	1	3	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:61449733C>T	uc002ljl.2	+	2	223	c.127C>T	c.(127-129)CGC>TGC	p.R43C	SERPINB7_uc002ljm.2_Missense_Mutation_p.R43C|SERPINB7_uc010xet.1_Missense_Mutation_p.R43C|SERPINB7_uc010dqg.2_Missense_Mutation_p.R43C	NM_001040147	NP_001035237	O75635	SPB7_HUMAN	serine (or cysteine) proteinase inhibitor, clade	43					regulation of proteolysis	cytoplasm	serine-type endopeptidase inhibitor activity			lung(2)|central_nervous_system(1)	3		Esophageal squamous(42;0.129)				GGCCCTGGTCCGCTTGGGCGC	0.468													13	83					0	0	1	0	0		T	61449733	T	T	61449733	3	4	27	1	0	0	0	0	1	0	0	0	14131	652	23	1	129	1	SERPINB7	18	61449733	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	71162	61449733	16627515	7222	29573											
SERPINB2	5055	broad.mit.edu	37	chr18	61562597	61562597	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagatccagaagggtagtTatcctgatgcgattttgcag	11	11	12	7	1	0	3	0	1	0	2	2	4	2	3	2	1	3	4	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:61562597T>C	uc010xeu.1	+	4	601	c.268T>C	c.(268-270)TAT>CAT	p.Y90H	SERPINB2_uc002ljo.2_Missense_Mutation_p.Y90H|SERPINB2_uc010dqh.2_Missense_Mutation_p.Y20H|SERPINB2_uc002ljp.1_5'Flank|SERPINB2_uc002ljq.1_5'Flank	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	90					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	GAAGGGTAGTTATCCTGATGC	0.388													14	158					0	0	1	0	0		C	61562597	C	C	61562597	3	2	27	1	0	0	0	0	1	0	0	0	14126	1754	61	3	274	3	SERPINB2	18	61562597	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	112864	61562597	16514651	7223	29574											
CDH7	1005	broad.mit.edu	37	chr18	63547677	63547677	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actatgagaagacggaaaaaAgagccccttatttttgacga	16	9	9	7	2	0	4	0	2	0	3	0	7	0	5	2	1	1	0	2	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:63547677A>G	uc002ljz.2	+	12	2230	c.1905A>G	c.(1903-1905)AAA>AAG	p.K635K	CDH7_uc002lkb.2_Silent_p.K635K	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	635	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GACGGAAAAAAGAGCCCCTTA	0.453													4	55					0	0	1	0	0		G	63547677	G	G	63547677	2	3	27	1	0	0	0	0	0	0	0	1	3118	69	3	3		3	CDH7	18	63547677	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1985080	63547677	14529571	7224	29575											
CDH19	28513	broad.mit.edu	37	chr18	64212087	64212087	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attatcatatgccatgattgTtcctatagaagtcccagtgg	11	14	8	8	0	1	2	1	1	0	1	3	2	3	2	3	1	1	1	3	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:64212087T>C	uc002lkc.1	-	6	967	c.829A>G	c.(829-831)ACA>GCA	p.T277A	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Missense_Mutation_p.T277A|CDH19_uc002lkd.2_Missense_Mutation_p.T277A	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	277	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				GCCATGATTGTTCCTATAGAA	0.343													4	35					0	0	1	0	0		C	64212087	C	C	64212087	3	2	27	1	0	0	0	0	1	0	0	0	3107	1725	60	3	1517	3	CDH19	18	64212087	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	664410	64212087	13865161	7225	29576											
DSEL	92126	broad.mit.edu	37	chr18	65178576	65178576	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacactgcatttgatttggaTtttgataattctttcctcaa	10	18	6	7	0	2	2	1	2	1	0	3	4	3	3	1	1	1	1	1	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:65178576T>C	uc002lke.1	-	2	4524	c.3300A>G	c.(3298-3300)AAA>AAG	p.K1100K		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	1090			K -> E (in a colorectal cancer sample; somatic mutation).			integral to membrane	isomerase activity|sulfotransferase activity	p.K1100E(1)		ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				TTGATTTGGATTTTGATAATT	0.378													3	57					0	0	1	0	0		C	65178576	C	C	65178576	2	2	27	1	0	0	0	0	0	0	0	1	4781	1490	52	3		3	DSEL	18	65178576	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	966489	65178576	12898672	7226	29577											
DSEL	92126	broad.mit.edu	37	chr18	65180565	65180565	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacaaaggtgttggtctgTgtgtttggcaacccagcccc	8	10	12	11	0	1	0	0	0	1	0	1	1	1	0	3	3	2	3	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:65180565T>C	uc002lke.1	-	2	2535	c.1311A>G	c.(1309-1311)ACA>ACG	p.T437T		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	427						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				TGTTGGTCTGTGTGTTTGGCA	0.483													5	52					0	0	1	0	0		C	65180565	C	C	65180565	2	2	27	1	0	0	0	0	0	0	0	1	4781	1683	59	3		3	DSEL	18	65180565	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1989	65180565	12896683	7227	29578											
TMX3	54495	broad.mit.edu	37	chr18	66346763	66346763	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaaaatgctatcacctccTtgggccttcaaaaaaggaaa	15	9	7	10	0	2	0	2	0	0	0	3	1	3	1	3	2	2	2	3	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:66346763T>C	uc002lkf.2	-	15	1176	c.1041A>G	c.(1039-1041)CAA>CAG	p.Q347Q	TMX3_uc010xez.1_Silent_p.Q206Q	NM_019022	NP_061895	Q96JJ7	TMX3_HUMAN	thioredoxin domain containing 10 precursor	347	Lumenal (Potential).				cell redox homeostasis|glycerol ether metabolic process	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			skin(1)	1						TATCACCTCCTTGGGCCTTCA	0.328													4	45					0	0	1	0	0		C	66346763	C	C	66346763	2	2	27	1	0	0	0	0	0	0	0	1	16293	1606	56	3		3	TMX3	18	66346763	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1166198	66346763	11730485	7228	29579											
RTTN	25914	broad.mit.edu	37	chr18	67688033	67688033	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgttgtccacaacttgAccaacaaagagaactgcaac	15	7	9	10	0	0	2	0	1	0	1	1	3	1	2	2	1	5	2	2	1	5	2	rs142159336	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:67688033A>G	uc002lkp.2	-	45	6039	c.5971T>C	c.(5971-5973)TCA>CCA	p.S1991P	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.S1079P|RTTN_uc002lkn.2_5'UTR|RTTN_uc010dqp.2_Missense_Mutation_p.S243P	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1991							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				CCACAACTTGACCAACAAAGA	0.438													8	118					0	0	1	0	0		G	67688033	G	G	67688033	3	3	27	1	0	0	0	0	1	0	0	0	13762	275	10	3	729	3	RTTN	18	67688033	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1341270	67688033	10389215	7229	29580											
RTTN	25914	broad.mit.edu	37	chr18	67692051	67692051	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaggccagagagagtgcaAgacagggacaaggtgagctt	14	4	15	8	0	0	4	0	1	0	3	0	6	0	5	2	3	2	2	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:67692051A>C	uc002lkp.2	-	44	5925	c.5857T>G	c.(5857-5859)TTG>GTG	p.L1953V	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.L1041V|RTTN_uc010dqp.2_Missense_Mutation_p.L205V	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1953							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				AGAGAGTGCAAGACAGGGACA	0.378													5	54					0	0	1	0	0		C	67692051	C	C	67692051	3	2	27	1	0	0	0	0	1	0	0	0	13762	69	3	5	847	5	RTTN	18	67692051	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4018	67692051	10385197	7230	29581											
RTTN	25914	broad.mit.edu	37	chr18	67695984	67695984	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcctcattttgataaagAcagtttcttaggagctgcat	11	15	7	8	0	2	2	1	1	1	1	3	3	3	3	1	1	2	3	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:67695984A>G	uc002lkp.2	-	43	5867	c.5799T>C	c.(5797-5799)TGT>TGC	p.C1933C	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Silent_p.C1021C|RTTN_uc010dqp.2_Silent_p.C185C	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1933							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TTTGATAAAGACAGTTTCTTA	0.308													6	58					0	0	1	0	0		G	67695984	G	G	67695984	2	3	27	1	0	0	0	0	0	0	0	1	13762	273	10	3		3	RTTN	18	67695984	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3933	67695984	10381264	7231	29582											
RTTN	25914	broad.mit.edu	37	chr18	67802453	67802453	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgatacttcatcaaataatAgaagacaaaatagtgctcca	18	10	5	8	1	2	2	2	0	0	2	4	3	3	2	1	0	2	1	1	0	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:67802453A>C	uc002lkp.2	-	22	2920	c.2852T>G	c.(2851-2853)CTA>CGA	p.L951R	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.L39R	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	951							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				ATCAAATAATAGAAGACAAAA	0.284													7	79					0	0	1	0	0		C	67802453	C	C	67802453	3	2	27	1	0	0	0	0	1	0	0	0	13762	420	15	5	3940	5	RTTN	18	67802453	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	106469	67802453	10274795	7232	29583											
RTTN	25914	broad.mit.edu	37	chr18	67813010	67813010	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctaaaagctttaatgctagCgaacggaccctgagaacaca	15	7	9	10	2	0	1	0	1	0	1	0	4	0	2	1	1	5	3	1	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:67813010C>T	uc002lkp.2	-	18	2387	c.2319G>A	c.(2317-2319)TCG>TCA	p.S773S	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	773							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TTAATGCTAGCGAACGGACCC	0.383													9	119					0	0	1	0	0		T	67813010	T	T	67813010	2	4	27	1	0	0	0	0	0	0	0	1	13762	755	27	1		1	RTTN	18	67813010	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10557	67813010	10264238	7233	29584											
RTTN	25914	broad.mit.edu	37	chr18	67816137	67816137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagattacgttgtactcacGatggctttttcactagcaaa	12	13	7	9	2	2	1	2	0	0	1	2	2	2	1	0	1	3	4	0	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:67816137G>A	uc002lkp.2	-	17	2377	c.2309C>T	c.(2308-2310)TCG>TTG	p.S770L	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	770							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TTGTACTCACGATGGCTTTTT	0.353													22	82					0	0	1	0	0		A	67816137	A	A	67816137	3	1	27	1	0	0	0	0	1	0	0	0	13762	1072	37	1	4503	1	RTTN	18	67816137	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3127	67816137	10261111	7234	29585											
RTTN	25914	broad.mit.edu	37	chr18	67860532	67860532	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctagcagtcacctagaggaCgctgcatcccagtcctggcc	8	7	11	15	1	1	1	1	0	0	1	3	2	3	2	4	2	2	4	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:67860532C>T	uc002lkp.2	-	8	1067	c.999G>A	c.(997-999)GCG>GCA	p.A333A	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR|RTTN_uc002lkq.1_Silent_p.A333A	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	333							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				ACCTAGAGGACGCTGCATCCC	0.507													13	38					0	0	1	0	0		T	67860532	T	T	67860532	2	4	27	1	0	0	0	0	0	0	0	1	13762	523	19	1		1	RTTN	18	67860532	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	44395	67860532	10216716	7235	29586											
SOCS6	9306	broad.mit.edu	37	chr18	67993122	67993122	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtgccagatggttctttTcttgttcgggacagttctga	7	15	11	8	2	3	2	0	1	3	1	4	3	3	3	1	2	2	3	1	2	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:67993122T>C	uc002lkr.1	+	2	1534	c.1218T>C	c.(1216-1218)TTT>TTC	p.F406F	SOCS6_uc010dqq.2_Silent_p.F406F	NM_004232	NP_004223	O14544	SOCS6_HUMAN	suppressor of cytokine signaling 6	406	SH2.				defense response|JAK-STAT cascade|negative regulation of signal transduction|regulation of growth	cytoplasm				large_intestine(1)|lung(1)	2		Esophageal squamous(42;0.129)|Colorectal(73;0.152)				ATGGTTCTTTTCTTGTTCGGG	0.473													8	88					0	0	1	0	0		C	67993122	C	C	67993122	2	2	27	1	0	0	0	0	0	0	0	1	14943	1780	62	3		3	SOCS6	18	67993122	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	132590	67993122	10084126	7236	29587											
SOCS6	9306	broad.mit.edu	37	chr18	67993331	67993331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttttgttattcaaggtctcGgctgcctggatctgcaactt	6	17	9	9	1	3	0	1	0	2	0	4	1	3	1	1	3	3	3	1	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:67993331G>A	uc002lkr.1	+	2	1743	c.1427G>A	c.(1426-1428)CGG>CAG	p.R476Q	SOCS6_uc010dqq.2_Missense_Mutation_p.R476Q	NM_004232	NP_004223	O14544	SOCS6_HUMAN	suppressor of cytokine signaling 6	476	SH2.				defense response|JAK-STAT cascade|negative regulation of signal transduction|regulation of growth	cytoplasm				large_intestine(1)|lung(1)	2		Esophageal squamous(42;0.129)|Colorectal(73;0.152)				TCAAGGTCTCGGCTGCCTGGA	0.478													9	85					0	0	1	0	0		A	67993331	A	A	67993331	3	1	27	1	0	0	0	0	1	0	0	0	14943	1116	39	1	1429	1	SOCS6	18	67993331	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	209	67993331	10083917	7237	29588											
C18orf55	29090	broad.mit.edu	37	chr18	71822396	71822396	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgaaagaagccggaagAgattttacctatttaatagt	16	11	9	5	1	0	3	0	1	0	2	0	5	0	4	2	1	2	0	2	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:71822396A>C	uc010dqr.1	+	2	616	c.318A>C	c.(316-318)AGA>AGC	p.R106S		NM_014177	NP_054896	Q9BVV7	TI21L_HUMAN	hypothetical protein LOC29090 precursor	106					protein transport|transmembrane transport	integral to membrane|mitochondrial membrane					0		Esophageal squamous(42;0.0746)|Prostate(75;0.157)|Melanoma(33;0.211)				AAGCCGGAAGAGATTTTACCT	0.423													7	89					0	0	1	0	0		C	71822396	C	C	71822396	3	2	27	1	0	0	0	0	1	0	0	0	1908	301	11	5	324	5	C18orf55	18	71822396	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3829065	71822396	6254852	7238	29589											
C18orf55	29090	broad.mit.edu	37	chr18	71822623	71822623	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagagccttagaaaaatgCagatcacatcctgaggttag	14	8	12	7	0	1	4	1	1	0	3	2	5	2	4	2	2	2	2	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:71822623C>T	uc010dqr.1	+	3	745	c.447C>T	c.(445-447)TGC>TGT	p.C149C		NM_014177	NP_054896	Q9BVV7	TI21L_HUMAN	hypothetical protein LOC29090 precursor	149					protein transport|transmembrane transport	integral to membrane|mitochondrial membrane					0		Esophageal squamous(42;0.0746)|Prostate(75;0.157)|Melanoma(33;0.211)				TAGAAAAATGCAGATCACATC	0.408													4	52					0	0	1	0	0		T	71822623	T	T	71822623	2	4	27	1	0	0	0	0	0	0	0	1	1908	718	25	2		2	C18orf55	18	71822623	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	227	71822623	6254625	7239	29590											
FAM69C	125704	broad.mit.edu	37	chr18	72109298	72109298	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctgtgcagttttgctcaagGatttccctcattttaggttc	6	17	8	10	0	2	0	2	0	0	0	4	1	3	1	2	2	2	4	2	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:72109298G>A	uc002llk.2	-	3	939	c.930C>T	c.(928-930)ATC>ATT	p.I310I		NM_001044369	NP_001037834	Q0P6D2	FA69C_HUMAN	hypothetical protein LOC125704	310	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0						TTTGCTCAAGGATTTCCCTCA	0.453													4	79					0	0	1	0	0		A	72109298	A	A	72109298	2	1	27	1	0	0	0	0	0	0	0	1	5618	1164	41	4		4	FAM69C	18	72109298	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	286675	72109298	5967950	7240	29591											
CNDP2	55748	broad.mit.edu	37	chr18	72186224	72186224	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaccagggaaggcggcagTattcccgtgaccttgacctt	8	10	12	11	2	0	3	0	3	0	0	1	4	1	4	4	3	0	2	4	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:72186224T>C	uc002llm.1	+	11	1413	c.1251T>C	c.(1249-1251)AGT>AGC	p.S417S	CNDP2_uc002lln.1_Silent_p.S333S|CNDP2_uc010dqs.2_Intron	NM_018235	NP_060705	Q96KP4	CNDP2_HUMAN	CNDP dipeptidase 2	417		Substrate; via amide nitrogen and carbonyl oxygen (By similarity).				cytoplasm	carboxypeptidase activity|metal ion binding|metallopeptidase activity|protein binding|tripeptidase activity			ovary(2)|skin(1)	3		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.22)		AAGGCGGCAGTATTCCCGTGA	0.552													14	91					0	0	1	0	0		C	72186224	C	C	72186224	2	2	27	1	0	0	0	0	0	0	0	1	3597	1635	57	3		3	CNDP2	18	72186224	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	76926	72186224	5891024	7241	29592											
ZNF407	55628	broad.mit.edu	37	chr18	72353051	72353051	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaaaaggcaccttgggaTgagggaatacaagtgtcatg	13	9	14	5	0	1	2	1	2	0	0	1	4	1	4	1	3	1	1	1	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:72353051T>C	uc002llw.2	+	2	4832	c.4775T>C	c.(4774-4776)ATG>ACG	p.M1592T	ZNF407_uc010xfc.1_Missense_Mutation_p.M1592T|ZNF407_uc010dqu.1_Missense_Mutation_p.M1592T	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1592					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		CACCTTGGGATGAGGGAATAC	0.443													14	147					0	0	1	0	0		C	72353051	C	C	72353051	3	2	27	1	0	0	0	0	1	0	0	0	17912	1464	51	3	4781	3	ZNF407	18	72353051	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	166827	72353051	5724197	7242	29593											
ZNF407	55628	broad.mit.edu	37	chr18	72632493	72632493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaactgtgctgaaaatatccGcaaacacattctgcatactg	15	10	6	10	1	1	1	0	1	1	0	2	1	2	1	1	0	5	3	1	0	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:72632493G>A	uc002llw.2	+	7	5330	c.5273G>A	c.(5272-5274)CGC>CAC	p.R1758H	ZNF407_uc010dqu.1_Missense_Mutation_p.R1758H	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1758	C2H2-type 21.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		GAAAATATCCGCAAACACATT	0.398													12	48					0	0	1	0	0		A	72632493	A	A	72632493	3	1	27	1	0	0	0	0	1	0	0	0	17912	1087	38	1	5409	1	ZNF407	18	72632493	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	279442	72632493	5444755	7243	29594											
TSHZ1	10194	broad.mit.edu	37	chr18	72998127	72998127	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagactgcagtgccgcgtaCgacacgctggtggaactgac	11	6	13	11	4	0	2	0	1	0	1	0	4	0	3	1	2	4	3	1	2	3	1	rs146373782		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:72998127C>T	uc002lly.2	+	2	1193	c.630C>T	c.(628-630)TAC>TAT	p.Y210Y		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	255	C2H2-type 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GTGCCGCGTACGACACGCTGG	0.592													3	19					0	0	1	0	0		T	72998127	T	T	72998127	2	4	27	1	0	0	0	0	0	0	0	1	16649	547	19	1		1	TSHZ1	18	72998127	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	365634	72998127	5079121	7244	29595											
TSHZ1	10194	broad.mit.edu	37	chr18	72999306	72999306	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggagaaggtcacgggCaaggtcaacatcaagaagga	14	5	15	7	1	3	2	3	0	0	2	3	4	3	3	0	6	1	1	0	6	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:72999306C>T	uc002lly.2	+	2	2372	c.1809C>T	c.(1807-1809)GGC>GGT	p.G603G		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	648						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		AGGTCACGGGCAAGGTCAACA	0.597													5	46					0	0	1	0	0		T	72999306	T	T	72999306	2	4	27	1	0	0	0	0	0	0	0	1	16649	697	25	2		2	TSHZ1	18	72999306	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1179	72999306	5077942	7245	29596											
ZNF516	9658	broad.mit.edu	37	chr18	74091371	74091371	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggccaggggcccctgtgtgGccgcgccatgtggctcctgg	2	8	17	14	2	0	0	0	0	0	0	1	0	1	0	6	6	0	1	6	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:74091371G>T	uc010dqx.1	-	3	2934	c.2699C>A	c.(2698-2700)GCC>GAC	p.A900D	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	900					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CCCCTGTGTGGCCGCGCCATG	0.706													4	70					0.00024832	0.000261516	1	1	0		T	74091371	T	T	74091371	3	4	27	1	0	0	0	0	1	0	0	0	17985	1203	42	5	809	5	ZNF516	18	74091371	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1092065	74091371	3985877	7246	29597											
ZNF516	9658	broad.mit.edu	37	chr18	74154214	74154214	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccggtgcttcttcatgTgcgccttcaggaaccaggtc	6	10	11	14	2	3	0	2	0	1	0	4	1	3	1	4	3	4	1	4	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:74154214T>A	uc010dqx.1	-	2	1032	c.797A>T	c.(796-798)CAC>CTC	p.H266L	ZNF516_uc002lme.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	266	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CTTCTTCATGTGCGCCTTCAG	0.652													6	45					0	0	1	0	0		A	74154214	A	A	74154214	3	1	27	1	0	0	0	0	1	0	0	0	17985	1696	59	5	2715	5	ZNF516	18	74154214	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	62843	74154214	3923034	7247	29598											
ZNF236	7776	broad.mit.edu	37	chr18	74583682	74583682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtacaaggtcttataacCggaatatcgacagaagtgga	16	8	10	7	2	1	1	0	0	1	1	2	4	1	3	1	3	2	1	1	3	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:74583682C>T	uc002lmi.2	+	5	760	c.562C>T	c.(562-564)CGG>TGG	p.R188W	ZNF236_uc002lmj.2_RNA|ZNF236_uc002lmk.1_Missense_Mutation_p.R188W	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	188					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GTCTTATAACCGGAATATCGA	0.418													6	95					0	0	1	0	0		T	74583682	T	T	74583682	3	4	27	1	0	0	0	0	1	0	0	0	17814	643	23	1	580	1	ZNF236	18	74583682	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	429468	74583682	3493566	7248	29599											
ZNF236	7776	broad.mit.edu	37	chr18	74635026	74635026	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taattaatgctttttggataGgcatgttcgaatccatactg	11	16	8	6	1	0	0	0	0	0	0	2	2	1	1	1	2	2	3	1	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:74635026G>T	uc002lmi.2	+	21	3750	c.3552_splice	c.e21-1	p.R1184_splice	ZNF236_uc002lmj.2_Splice_Site	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236						cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TTTTTGGATAGGCATGTTCGA	0.318													4	33					0.00024832	0.000261516	1	1	0		T	74635026	T	T	74635026	5	4	27	1	0	0	0	0	0	0	1	0	17814	1014	35	5	3633	5	ZNF236	18	74635026	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	51344	74635026	3442222	7249	29600											
MBP	4155	broad.mit.edu	37	chr18	74729219	74729219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attgttctggttcgcatctgCctctcctgcaaacaacaatg	9	13	7	12	1	3	0	0	0	3	0	5	0	3	0	2	1	4	4	2	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:74729219C>T	uc010xfd.1	-	4	409	c.145G>A	c.(145-147)GCA>ACA	p.A49T	MBP_uc002lml.2_5'Flank|MBP_uc002lmn.2_5'Flank|MBP_uc002lmp.2_5'Flank|MBP_uc010xfe.1_5'UTR|MBP_uc002lmr.2_Missense_Mutation_p.A49T	NM_001025101	NP_001020272	P02686	MBP_HUMAN	Golli-mbp isoform 1	49					central nervous system development|immune response|synaptic transmission	plasma membrane	structural constituent of myelin sheath			haematopoietic_and_lymphoid_tissue(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.79e-06)|BRCA - Breast invasive adenocarcinoma(31;0.113)|READ - Rectum adenocarcinoma(1;0.188)		TTCGCATCTGCCTCTCCTGCA	0.562													5	46					0	0	1	0	0		T	74729219	T	T	74729219	3	4	27	1	0	0	0	0	1	0	0	0	9377	739	26	2	893	2	MBP	18	74729219	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	94193	74729219	3348029	7250	29601											
ATP9B	374868	broad.mit.edu	37	chr18	77067105	77067105	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgaagccgtgaaagccatCgtgctgtgtcacaacgtgac	11	8	11	11	3	1	3	1	3	0	0	2	3	1	3	2	0	4	1	2	0	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:77067105C>T	uc002lmx.2	+	15	1658	c.1644C>T	c.(1642-1644)ATC>ATT	p.I548I	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Silent_p.I548I|ATP9B_uc002lmz.1_Silent_p.I242I	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	548	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		TGAAAGCCATCGTGCTGTGTC	0.498													19	52					0	0	1	0	0		T	77067105	T	T	77067105	2	4	27	1	0	0	0	0	0	0	0	1	1200	874	31	1		1	ATP9B	18	77067105	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2337886	77067105	1010143	7251	29602											
ATP9B	374868	broad.mit.edu	37	chr18	77089273	77089273	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtttcccttcacctccGagagcaagcggatgggcgtc	7	9	12	13	3	1	1	1	0	0	1	4	3	3	2	3	2	3	3	3	2	1	2	rs35782512	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:77089273G>T	uc002lmx.2	+	16	1920	c.1906G>T	c.(1906-1908)GAG>TAG	p.E636*	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Nonsense_Mutation_p.E636*|ATP9B_uc002lmz.1_Nonsense_Mutation_p.E330*	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	636	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		CTTCACCTCCGAGAGCAAGCG	0.572													9	89					2.17888e-05	2.33116e-05	1	1	0		T	77089273	T	T	77089273	4	4	27	1	0	0	0	0	0	1	0	0	1200	1059	37	5	1968	5	ATP9B	18	77089273	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	22168	77089273	987975	7252	29603											
NFATC1	4772	broad.mit.edu	37	chr18	77170667	77170667	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcttgggcctgtaccacaAcaataaccagtttttccacg	10	11	8	12	1	0	0	0	0	0	0	1	0	1	0	4	1	4	3	4	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:77170667A>G	uc010xfg.1	+	2	845	c.392A>G	c.(391-393)AAC>AGC	p.N131S	NFATC1_uc002lnc.1_Missense_Mutation_p.N131S|NFATC1_uc010xff.1_Missense_Mutation_p.N131S|NFATC1_uc002lnd.2_Missense_Mutation_p.N131S|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Missense_Mutation_p.N131S|NFATC1_uc010xfi.1_Missense_Mutation_p.N118S|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Missense_Mutation_p.N118S|NFATC1_uc002lng.2_Missense_Mutation_p.N118S|NFATC1_uc010xfk.1_Missense_Mutation_p.N118S	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	131	Trans-activation domain A (TAD-A).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CTGTACCACAACAATAACCAG	0.627													4	44					0	0	1	0	0		G	77170667	G	G	77170667	3	3	27	1	0	0	0	0	1	0	0	0	10380	43	2	3	490	3	NFATC1	18	77170667	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	81394	77170667	906581	7253	29604											
NFATC1	4772	broad.mit.edu	37	chr18	77208854	77208854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcggacgaccgcctgctgCgcccgcacgccttctaccag	5	5	12	19	7	1	0	0	0	1	0	1	2	1	1	5	2	3	2	5	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:77208854C>T	uc010xfg.1	+	4	1912	c.1459C>T	c.(1459-1461)CGC>TGC	p.R487C	NFATC1_uc002lnc.1_Missense_Mutation_p.R487C|NFATC1_uc010xff.1_Missense_Mutation_p.R487C|NFATC1_uc002lnd.2_Missense_Mutation_p.R487C|NFATC1_uc002lne.2_Missense_Mutation_p.R15C|NFATC1_uc010xfh.1_Missense_Mutation_p.R487C|NFATC1_uc010xfi.1_Missense_Mutation_p.R474C|NFATC1_uc010xfj.1_Missense_Mutation_p.R15C|NFATC1_uc002lnf.2_Missense_Mutation_p.R474C|NFATC1_uc002lng.2_Missense_Mutation_p.R474C|NFATC1_uc010xfk.1_Missense_Mutation_p.R474C	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	487	RHD.				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CCGCCTGCTGCGCCCGCACGC	0.607													9	56					0	0	1	0	0		T	77208854	T	T	77208854	3	4	27	1	0	0	0	0	1	0	0	0	10380	768	27	1	1565	1	NFATC1	18	77208854	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	38187	77208854	868394	7254	29605											
KCNG2	26251	broad.mit.edu	37	chr18	77659249	77659249	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggcccgggcgggaccaaGctcctggagcgcgcggggct	5	3	19	14	5	0	0	0	0	0	0	1	2	1	2	3	6	2	3	3	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:77659249G>T	uc010xfl.1	+	2	834	c.834G>T	c.(832-834)AAG>AAT	p.K278N		NM_012283	NP_036415	Q9UJ96	KCNG2_HUMAN	potassium voltage-gated channel, subfamily G,	278					energy reserve metabolic process|regulation of heart contraction|regulation of insulin secretion	voltage-gated potassium channel complex	delayed rectifier potassium channel activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;6.92e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0244)		GCGGGACCAAGCTCCTGGAGC	0.716													3	23					0.115264	0.116483	1	1	0		T	77659249	T	T	77659249	3	4	27	1	0	0	0	0	1	0	0	0	8044	962	34	5	840	5	KCNG2	18	77659249	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	450395	77659249	417999	7255	29606											
ADNP2	22850	broad.mit.edu	37	chr18	77894427	77894427	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttgcccttgagtcagccAgtcggacctgtcaataagtc	8	11	11	11	1	2	1	2	1	0	0	4	2	2	2	3	1	2	1	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:77894427A>G	uc002lnw.2	+	4	1586	c.1131A>G	c.(1129-1131)CCA>CCG	p.P377P		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	377	Pro-rich.				cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		TGAGTCAGCCAGTCGGACCTG	0.557													32	86					0	0	1	0	0		G	77894427	G	G	77894427	2	3	27	1	0	0	0	0	0	0	0	1	324	175	7	3		3	ADNP2	18	77894427	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	235178	77894427	182821	7256	29607											
ADNP2	22850	broad.mit.edu	37	chr18	77894960	77894960	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtgtcgggagttcttcCtgtgggccagccagtgaggc	4	12	16	9	1	1	1	0	1	1	0	3	2	2	2	3	3	1	2	3	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:77894960C>A	uc002lnw.2	+	4	2119	c.1664C>A	c.(1663-1665)CCT>CAT	p.P555H		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	555					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		GGAGTTCTTCCTGTGGGCCAG	0.562													4	92					0.014758	0.0150623	1	1	0		A	77894960	A	A	77894960	3	1	27	1	0	0	0	0	1	0	0	0	324	681	24	5	1674	5	ADNP2	18	77894960	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	533	77894960	182288	7257	29608											
ADNP2	22850	broad.mit.edu	37	chr18	77895701	77895701	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaagaagttgcctatggAttatagcaacagaggttttc	14	11	11	5	0	0	3	0	0	0	3	1	5	0	4	1	2	3	3	1	2	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr18:77895701A>T	uc002lnw.2	+	4	2860	c.2405A>T	c.(2404-2406)GAT>GTT	p.D802V		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	802					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		TTGCCTATGGATTATAGCAAC	0.473													14	125					0	0	1	0	0		T	77895701	T	T	77895701	3	4	27	1	0	0	0	0	1	0	0	0	324	333	12	5	2415	5	ADNP2	18	77895701	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	741	77895701	181547	7258	29609											
POLRMT	5442	broad.mit.edu	37	chr19	624774	624774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaccgggggcggcagctgcGgcgggaggctgaaggtgggc	5	4	23	9	4	0	2	0	2	0	0	0	3	0	3	1	8	2	3	1	8	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:624774G>A	uc002lpf.1	-	5	1141	c.1085C>T	c.(1084-1086)CCG>CTG	p.P362L		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	362					transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGCAGCTGCGGCGGGAGGCT	0.637													6	55					0	0	1	0	0		A	624774	A	A	624774	3	1	27	1	0	0	0	0	1	0	0	0	12257	1116	39	1	2675	1	POLRMT	19	624774	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08		624774	58504209	7259	29610											
PALM	5064	broad.mit.edu	37	chr19	746583	746583	+	Missense_Mutation	SNP	G	T	T																															taccagaacgtggaggatgaGgccgagaccaagaaggtgct																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:746583G>T	uc002lpm.1	+	9	1127	c.933G>T	c.(931-933)GAG>GAT	p.E311D	PALM_uc002lpn.1_Missense_Mutation_p.E267D|PALM_uc010xfu.1_Missense_Mutation_p.E176D	NM_002579	NP_002570	O75781	PALM_HUMAN	paralemmin isoform 1	311					cellular component movement|negative regulation of adenylate cyclase activity|negative regulation of dopamine receptor signaling pathway|positive regulation of filopodium assembly|regulation of cell shape	cytoplasmic membrane-bounded vesicle|filopodium membrane|integral to plasma membrane					0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)|Lung(535;0.201)		TGGAGGATGAGGCCGAGACCA	0.652													3	30					6.4e-05	6.80234e-05	1	1	0		T	746583	T	T	746583	3	4	27	1	0	0	0	0	1	0	0	0	11427	991	35	5	967	5	PALM	19	746583	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	121809	746583	58382400	7260	29611	59	2									
PALM	5064	broad.mit.edu	37	chr19	746586	746586	+	Silent	SNP	C	A	A																															cagaacgtggaggatgaggcCgagaccaagaaggtgctggg																								rs142619819		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:746586C>A	uc002lpm.1	+	9	1130	c.936C>A	c.(934-936)GCC>GCA	p.A312A	PALM_uc002lpn.1_Silent_p.A268A|PALM_uc010xfu.1_Silent_p.A177A	NM_002579	NP_002570	O75781	PALM_HUMAN	paralemmin isoform 1	312					cellular component movement|negative regulation of adenylate cyclase activity|negative regulation of dopamine receptor signaling pathway|positive regulation of filopodium assembly|regulation of cell shape	cytoplasmic membrane-bounded vesicle|filopodium membrane|integral to plasma membrane					0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)|Lung(535;0.201)		AGGATGAGGCCGAGACCAAGA	0.652													8	26					0.00307968	0.00318367	1	1	0		A	746586	A	A	746586	2	1	27	1	0	0	0	0	0	0	0	1	11427	639	23	5		5	PALM	19	746586	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3	746586	58382397	7261	29612	59	2									
C19orf21	126353	broad.mit.edu	37	chr19	758560	758560	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcccctgcactgaggctGcagaagtcccagtcatctga	8	7	13	13	0	2	3	1	2	1	1	3	3	3	3	3	3	2	3	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:758560G>A	uc002lpo.2	+	2	1697	c.1614G>A	c.(1612-1614)CTG>CTA	p.L538L		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	538										upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACTGAGGCTGCAGAAGTCCC	0.657													16	47					0	0	1	0	0		A	758560	A	A	758560	2	1	27	1	0	0	0	0	0	0	0	1	1916	1306	46	2		2	C19orf21	19	758560	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11974	758560	58370423	7262	29613											
ARID3A	1820	broad.mit.edu	37	chr19	971952	971952	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcggcggcggcggcggcAgcagcagcaacgcaggcggc	7	0	21	13	7	0	0	0	0	0	0	0	1	0	0	0	8	4	5	0	8	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:971952A>G	uc002lql.2	+	9	1959	c.1669A>G	c.(1669-1671)AGC>GGC	p.S557G		NM_005224	NP_005215	Q99856	ARI3A_HUMAN	AT rich interactive domain 3A (BRIGHT- like)	557	Gly-rich.|Important for cytoplasmic localization (By similarity).					cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		cggcggcggcagcagcagcAA	0.532													6	47					0	0	1	0	0		G	971952	G	G	971952	3	3	27	1	0	0	0	0	1	0	0	0	916	188	7	3	1699	3	ARID3A	19	971952	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	213392	971952	58157031	7263	29614											
POLR2E	5434	broad.mit.edu	37	chr19	1094045	1094045	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtctggtcaagctcgtcCtgggtcaccagatagccacg	8	8	13	12	2	3	1	2	0	1	1	5	1	4	1	3	3	2	1	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:1094045C>T	uc002lre.3	-	2	167	c.90G>A	c.(88-90)CAG>CAA	p.Q30Q	POLR2E_uc010xgf.1_Intron	NM_002695	NP_002686	P19388	RPAB1_HUMAN	DNA directed RNA polymerase II polypeptide E	30					interspecies interaction between organisms|mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase II promoter|transcription elongation from RNA polymerase III promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAAGCTCGTCCTGGGTCACCA	0.652													4	28					0	0	1	0	0		T	1094045	T	T	1094045	2	4	27	1	0	0	0	0	0	0	0	1	12237	680	24	4		4	POLR2E	19	1094045	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	122093	1094045	58034938	7264	29615											
C19orf26	255057	broad.mit.edu	37	chr19	1231118	1231118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgccgagagcagggggcGggctggccagaaaggggcgg	8	2	21	10	3	0	2	0	0	0	2	0	3	0	2	3	7	2	2	3	7	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:1231118G>A	uc002lrm.2	-	9	1393	c.1118C>T	c.(1117-1119)CCG>CTG	p.P373L		NM_152769	NP_689982	Q8N350	DOS_HUMAN	downstream of Stk11	399						integral to membrane					0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCAGGGGGCGGGCTGGCCAG	0.701										HNSCC(14;0.022)			7	30					0	0	1	0	0		A	1231118	A	A	1231118	3	1	27	1	0	0	0	0	1	0	0	0	1919	1116	39	1	229	1	C19orf26	19	1231118	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	137073	1231118	57897865	7265	29616											
APC2	10297	broad.mit.edu	37	chr19	1462161	1462161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgtccagcctcgtcgccaCccgtgaggactacaggtcgg	6	8	13	14	4	0	1	0	1	0	0	4	2	1	2	4	3	2	0	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:1462161C>T	uc002lsr.1	+	14	2046	c.1838C>T	c.(1837-1839)ACC>ATC	p.T613I	APC2_uc002lss.1_Missense_Mutation_p.T195I|APC2_uc002lst.1_Missense_Mutation_p.T613I|APC2_uc002lsu.1_Missense_Mutation_p.T612I|C19orf25_uc010xgn.1_Intron	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	613					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCGTCGCCACCCGTGAGGAC	0.677													4	7					0	0	1	0	0		T	1462161	T	T	1462161	3	4	27	1	0	0	0	0	1	0	0	0	764	507	18	4	1888	4	APC2	19	1462161	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	231043	1462161	57666822	7266	29617											
MBD3	53615	broad.mit.edu	37	chr19	1578436	1578436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaggccttgtccagcggcGcctccccgtcacgggccagc	4	5	13	19	5	1	0	1	0	0	0	3	0	3	0	6	3	2	1	6	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:1578436G>A	uc002ltl.1	-	6	801	c.779C>T	c.(778-780)GCG>GTG	p.A260V	uc002lti.1_5'Flank|MBD3_uc002ltj.2_Missense_Mutation_p.A260V|MBD3_uc002ltk.2_Missense_Mutation_p.A228V	NM_003926	NP_003917	O95983	MBD3_HUMAN	methyl-CpG binding domain protein 3	260					transcription, DNA-dependent	NuRD complex	DNA binding|protein binding			ovary(1)|pancreas(1)|skin(1)	3		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.179)|STAD - Stomach adenocarcinoma(1328;0.18)		GTCCAGCGGCGCCTCCCCGTC	0.557													3	48					0	0	1	0	0		A	1578436	A	A	1578436	3	1	27	1	0	0	0	0	1	0	0	0	9362	1087	38	1	100	1	MBD3	19	1578436	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	116275	1578436	57550547	7267	29618											
MBD3	53615	broad.mit.edu	37	chr19	1585094	1585094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtagcgcacgcgctggcggCtcttgttcatcttgctcatc	4	12	11	14	5	4	0	2	0	2	0	5	0	4	0	0	2	2	6	0	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:1585094C>T	uc002ltl.1	-	2	252	c.230G>A	c.(229-231)AGC>AAC	p.S77N	MBD3_uc002ltj.2_Missense_Mutation_p.S77N|MBD3_uc002ltk.2_Missense_Mutation_p.S45N	NM_003926	NP_003917	O95983	MBD3_HUMAN	methyl-CpG binding domain protein 3	77					transcription, DNA-dependent	NuRD complex	DNA binding|protein binding			ovary(1)|pancreas(1)|skin(1)	3		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.179)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGCTGGCGGCTCTTGTTCAT	0.672													5	28					0	0	1	0	0		T	1585094	T	T	1585094	3	4	27	1	0	0	0	0	1	0	0	0	9362	797	28	2	665	2	MBD3	19	1585094	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6658	1585094	57543889	7268	29619											
ATP8B3	148229	broad.mit.edu	37	chr19	1795914	1795914	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaattccattgcccccctcCtgtgcaagcgttcgaagatg	9	10	8	14	2	0	1	0	0	0	1	3	2	2	1	5	0	3	2	5	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:1795914C>A	uc002ltw.2	-	18	2249	c.2015G>T	c.(2014-2016)AGG>ATG	p.R672M	ATP8B3_uc002ltv.2_Missense_Mutation_p.R625M|ATP8B3_uc002ltx.2_RNA	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	672	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGCCCCCCTCCTGTGCAAGCG	0.512											OREG0025127	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	86					3.07112e-06	3.32223e-06	1	1	0		A	1795914	A	A	1795914	3	1	27	1	0	0	0	0	1	0	0	0	1197	681	24	5	1965	5	ATP8B3	19	1795914	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	210820	1795914	57333069	7269	29620											
REXO1	57455	broad.mit.edu	37	chr19	1827534	1827534	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccgggggctgctggcctgCgggcccttcttgtccgcacg	1	8	16	16	5	1	0	0	0	1	0	2	0	2	0	4	4	2	3	4	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:1827534C>T	uc002lua.3	-	2	1349	c.1254G>A	c.(1252-1254)CCG>CCA	p.P418P	REXO1_uc010dsr.1_Silent_p.P372P	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3	418						nucleus	exonuclease activity|nucleic acid binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGCTGGCCTGCGGGCCCTTCT	0.687													6	36					0	0	1	0	0		T	1827534	T	T	1827534	2	4	27	1	0	0	0	0	0	0	0	1	13266	755	27	1		1	REXO1	19	1827534	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31620	1827534	57301449	7270	29621											
CSNK1G2	1455	broad.mit.edu	37	chr19	1979366	1979366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcggggacaccaaacgcGccacgcccatcgaggtgctc	10	4	12	15	5	0	1	0	0	0	1	3	3	0	2	3	3	2	1	3	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:1979366G>A	uc002lul.3	+	9	1340	c.817G>A	c.(817-819)GCC>ACC	p.A273T	CSNK1G2_uc010dsu.2_Missense_Mutation_p.A225T	NM_001319	NP_001310	P78368	KC1G2_HUMAN	casein kinase 1, gamma 2	273	Protein kinase.				sphingolipid metabolic process|Wnt receptor signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity			stomach(1)	1		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACCAAACGCGCCACGCCCAT	0.577													3	12					0	0	1	0	0		A	1979366	A	A	1979366	3	1	27	1	0	0	0	0	1	0	0	0	3958	1087	38	1	843	1	CSNK1G2	19	1979366	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	151832	1979366	57149617	7271	29622											
AP3D1	8943	broad.mit.edu	37	chr19	2102260	2102260	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccgtcgactgagacagagTtctcaccctgtgtaaggaaa	11	9	10	11	2	1	2	1	1	1	2	4	5	2	3	2	1	0	2	2	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:2102260T>C	uc002luz.2	-	30	3597	c.3374A>G	c.(3373-3375)AAC>AGC	p.N1125S	AP3D1_uc010dsv.2_Missense_Mutation_p.N215S|AP3D1_uc002luy.2_Missense_Mutation_p.N1084S|AP3D1_uc002lva.2_Missense_Mutation_p.N1187S	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	1125					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGAGACAGAGTTCTCACCCTG	0.373													8	125					0	0	1	0	0		C	2102260	C	C	2102260	3	2	27	1	0	0	0	0	1	0	0	0	746	1725	60	3	91	3	AP3D1	19	2102260	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	122894	2102260	57026723	7272	29623											
AP3D1	8943	broad.mit.edu	37	chr19	2129320	2129320	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccgggcagtacttgccagCttgatgatcttgatgaggac	8	11	12	10	1	1	4	0	4	1	0	2	5	2	5	2	2	3	3	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:2129320C>T	uc002luz.2	-	7	952	c.729G>A	c.(727-729)AAG>AAA	p.K243K	AP3D1_uc002luy.2_Intron|AP3D1_uc002lva.2_Silent_p.K243K	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	243					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TACTTGCCAGCTTGATGATCT	0.602													4	38					0	0	1	0	0		T	2129320	T	T	2129320	2	4	27	1	0	0	0	0	0	0	0	1	746	796	28	2		2	AP3D1	19	2129320	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	27060	2129320	56999663	7273	29624											
AP3D1	8943	broad.mit.edu	37	chr19	2129360	2129360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagttgttggtggaggacGtcatcagcttgaaaaagagc	11	9	13	8	1	2	2	2	1	0	1	2	4	2	4	1	3	2	3	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:2129360G>A	uc002luz.2	-	7	912	c.689C>T	c.(688-690)ACG>ATG	p.T230M	AP3D1_uc002luy.2_Intron|AP3D1_uc002lva.2_Missense_Mutation_p.T230M	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	230					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGTGGAGGACGTCATCAGCTT	0.582													5	51					0	0	1	0	0		A	2129360	A	A	2129360	3	1	27	1	0	0	0	0	1	0	0	0	746	1145	40	1	3026	1	AP3D1	19	2129360	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	40	2129360	56999623	7274	29625											
DOT1L	84444	broad.mit.edu	37	chr19	2202760	2202760	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaccagctgaaggagcggTttgcaaacatgaaggaaggt	14	7	13	7	1	1	2	1	2	0	0	1	4	1	4	1	4	4	3	1	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:2202760T>C	uc002lvb.3	+	9	805	c.769T>C	c.(769-771)TTT>CTT	p.F257L		NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	257						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAAGGAGCGGTTTGCAAACAT	0.532													7	85					0	0	1	0	0		C	2202760	C	C	2202760	3	2	27	1	0	0	0	0	1	0	0	0	4715	1725	60	3	803	3	DOT1L	19	2202760	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	73400	2202760	56926223	7275	29626											
LMNB2	84823	broad.mit.edu	37	chr19	2435063	2435063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctcgtcgtgctggctcCgcagctcctccagcgcctgt	2	11	11	17	4	0	0	0	0	0	0	5	0	3	0	4	1	4	5	4	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:2435063C>T	uc002lvy.2	-	5	818	c.731G>A	c.(730-732)CGG>CAG	p.R244Q	LMNB2_uc002lwa.1_Missense_Mutation_p.R264Q	NM_032737	NP_116126	Q03252	LMNB2_HUMAN	lamin B2	244	Rod.|Coil 2.					nuclear inner membrane	structural molecule activity			large_intestine(1)|ovary(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTGCTGGCTCCGCAGCTCCTC	0.567													8	52					0	0	1	0	0		T	2435063	T	T	2435063	3	4	27	1	0	0	0	0	1	0	0	0	8867	652	23	1	1103	1	LMNB2	19	2435063	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	232303	2435063	56693920	7276	29627											
GNG7	2788	broad.mit.edu	37	chr19	2515092	2515092	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actccgaccagcagggggtcGttccgggcatgttgctcaca	7	8	13	13	3	1	0	1	0	0	0	4	1	3	0	3	3	2	5	3	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:2515092G>T	uc002lwd.2	-	5	372	c.135C>A	c.(133-135)AAC>AAA	p.N45K	GNG7_uc010dte.1_Intron	NM_052847	NP_443079	O60262	GBG7_HUMAN	guanine nucleotide binding protein (G protein),	45					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	signal transducer activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGGGGGTCGTTCCGGGCAT	0.408													7	93					0.00621372	0.00640274	1	1	0		T	2515092	T	T	2515092	3	4	27	1	0	0	0	0	1	0	0	0	6546	1136	40	5	75	5	GNG7	19	2515092	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	80029	2515092	56613891	7277	29628											
THOP1	7064	broad.mit.edu	37	chr19	2807650	2807650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccccgtgcaggtggtcaCgcacgggctgctgggcatct	4	9	14	14	3	2	0	1	0	1	0	3	0	3	0	2	4	2	5	2	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:2807650C>T	uc002lwj.2	+	8	1252	c.1097C>T	c.(1096-1098)ACG>ATG	p.T366M	THOP1_uc010xgz.1_Missense_Mutation_p.T245M|THOP1_uc002lwk.2_5'Flank	NM_003249	NP_003240	P52888	THOP1_HUMAN	thimet oligopeptidase 1	366					proteolysis	cytoplasm	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGGTGGTCACGCACGGGCTG	0.652													5	23					0	0	1	0	0		T	2807650	T	T	2807650	3	4	27	1	0	0	0	0	1	0	0	0	15896	536	19	1	1127	1	THOP1	19	2807650	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	292558	2807650	56321333	7278	29629											
THOP1	7064	broad.mit.edu	37	chr19	2807711	2807711	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttccaccacgaggagggCgccagtgcctggcatgagga	8	5	15	13	2	0	1	0	1	0	0	1	4	1	3	5	4	1	1	5	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:2807711C>T	uc002lwj.2	+	8	1313	c.1158C>T	c.(1156-1158)GGC>GGT	p.G386G	THOP1_uc010xgz.1_Silent_p.G265G|THOP1_uc002lwk.2_5'Flank	NM_003249	NP_003240	P52888	THOP1_HUMAN	thimet oligopeptidase 1	386					proteolysis	cytoplasm	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGAGGAGGGCGCCAGTGCCT	0.677													5	22					0	0	1	0	0		T	2807711	T	T	2807711	2	4	27	1	0	0	0	0	0	0	0	1	15896	755	27	1		1	THOP1	19	2807711	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61	2807711	56321272	7279	29630											
THOP1	7064	broad.mit.edu	37	chr19	2807736	2807736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgcctggcatgaggacgtgCggctctacaccgcgagggac	7	6	16	12	4	1	1	0	1	1	0	1	4	1	3	2	4	3	2	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:2807736C>T	uc002lwj.2	+	8	1338	c.1183C>T	c.(1183-1185)CGG>TGG	p.R395W	THOP1_uc010xgz.1_Missense_Mutation_p.R274W|THOP1_uc002lwk.2_5'Flank	NM_003249	NP_003240	P52888	THOP1_HUMAN	thimet oligopeptidase 1	395					proteolysis	cytoplasm	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGAGGACGTGCGGCTCTACAC	0.721													5	21					0	0	1	0	0		T	2807736	T	T	2807736	3	4	27	1	0	0	0	0	1	0	0	0	15896	759	27	1	1213	1	THOP1	19	2807736	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25	2807736	56321247	7280	29631											
TLE2	7089	broad.mit.edu	37	chr19	3005923	3005923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcccacgatcagactccggCcatccggcagcaacttgcag	9	5	10	17	4	1	1	1	0	0	1	3	2	3	1	4	2	3	3	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:3005923C>T	uc002lww.2	-	16	1807	c.1544G>A	c.(1543-1545)GGC>GAC	p.G515D	TLE2_uc010xhb.1_Missense_Mutation_p.G182D|TLE2_uc010dth.2_Missense_Mutation_p.G516D|TLE2_uc010xhc.1_Missense_Mutation_p.G393D|TLE2_uc010dti.2_Missense_Mutation_p.G529D	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1	515	WD 2.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGACTCCGGCCATCCGGCAG	0.637													7	69					0	0	1	0	0		T	3005923	T	T	3005923	3	4	27	1	0	0	0	0	1	0	0	0	15964	739	26	2	707	2	TLE2	19	3005923	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	198187	3005923	56123060	7281	29632											
GNA11	2767	broad.mit.edu	37	chr19	3121099	3121099	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgtgtgccaccgacacGgagaacatccgcttcgtgtt	8	10	10	13	5	1	1	1	0	0	1	3	3	2	1	3	1	2	2	3	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:3121099G>A	uc002lxd.2	+	7	1244	c.1002G>A	c.(1000-1002)ACG>ACA	p.T334T	uc010xhe.1_5'Flank	NM_002067	NP_002058	P29992	GNA11_HUMAN	guanine nucleotide binding protein (G protein),	334					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation|regulation of action potential	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			eye(70)|skin(16)	86		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.79e-05)|OV - Ovarian serous cystadenocarcinoma(105;2.68e-113)|Epithelial(107;1.22e-111)|all cancers(105;5.78e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00141)|STAD - Stomach adenocarcinoma(1328;0.181)		CCACCGACACGGAGAACATCC	0.607			Mis		uveal melanoma								13	42					0	0	1	0	0		A	3121099	A	A	3121099	2	1	27	1	0	0	0	0	0	0	0	1	6514	1103	39	1		1	GNA11	19	3121099	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	115176	3121099	56007884	7282	29633											
GNA15	2769	broad.mit.edu	37	chr19	3150136	3150136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccctccccagcaccacgCtagcctggtcatgagccagg	7	6	9	19	1	1	1	1	1	0	0	3	1	3	1	7	2	3	2	7	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:3150136C>T	uc002lxf.2	+	3	596	c.338C>T	c.(337-339)GCT>GTT	p.A113V	GNA15_uc010xhf.1_Missense_Mutation_p.A113V	NM_002068	NP_002059	P30679	GNA15_HUMAN	guanine nucleotide binding protein (G protein),	113					activation of phospholipase C activity by dopamine receptor signaling pathway|activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			skin(2)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.04e-05)|OV - Ovarian serous cystadenocarcinoma(105;5.08e-113)|Epithelial(107;6.19e-111)|all cancers(105;6.19e-103)|BRCA - Breast invasive adenocarcinoma(158;0.00145)|STAD - Stomach adenocarcinoma(1328;0.184)		CAGCACCACGCTAGCCTGGTC	0.647													7	47					0	0	1	0	0		T	3150136	T	T	3150136	3	4	27	1	0	0	0	0	1	0	0	0	6518	797	28	2	348	2	GNA15	19	3150136	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	29037	3150136	55978847	7283	29634											
GNA15	2769	broad.mit.edu	37	chr19	3155864	3155864	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagagcgtaagaaatggAtccattgtttcgagaacgtg	13	10	12	6	3	1	3	1	0	0	3	3	5	2	4	1	1	2	2	1	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:3155864A>T	uc002lxf.2	+	5	916	c.658A>T	c.(658-660)ATC>TTC	p.I220F		NM_002068	NP_002059	P30679	GNA15_HUMAN	guanine nucleotide binding protein (G protein),	220					activation of phospholipase C activity by dopamine receptor signaling pathway|activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			skin(2)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.04e-05)|OV - Ovarian serous cystadenocarcinoma(105;5.08e-113)|Epithelial(107;6.19e-111)|all cancers(105;6.19e-103)|BRCA - Breast invasive adenocarcinoma(158;0.00145)|STAD - Stomach adenocarcinoma(1328;0.184)		TAAGAAATGGATCCATTGTTT	0.592													4	29					0	0	1	0	0		T	3155864	T	T	3155864	3	4	27	1	0	0	0	0	1	0	0	0	6518	333	12	5	676	5	GNA15	19	3155864	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5728	3155864	55973119	7284	29635											
S1PR4	8698	broad.mit.edu	37	chr19	3179649	3179649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgggcccaggagtacctgCggggcatggactggatcctg	6	8	16	11	1	1	0	0	0	1	0	2	3	2	3	3	6	2	2	3	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:3179649C>T	uc002lxg.2	+	1	884	c.859C>T	c.(859-861)CGG>TGG	p.R287W		NM_003775	NP_003766	O95977	S1PR4_HUMAN	sphingosine-1-phosphate receptor 4 precursor	287	Extracellular (By similarity).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|immune response	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			lung(1)|skin(1)	2						GGAGTACCTGCGGGGCATGGA	0.652													21	91					0	0	1	0	0		T	3179649	T	T	3179649	3	4	27	1	0	0	0	0	1	0	0	0	13821	759	27	1	861	1	S1PR4	19	3179649	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23785	3179649	55949334	7285	29636											
CELF5	60680	broad.mit.edu	37	chr19	3281228	3281228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcctggtggtcaagttcgCcgacacggacaaggagcgga	10	5	15	11	4	1	0	1	0	0	0	2	4	1	3	2	5	2	1	2	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:3281228C>T	uc002lxm.2	+	6	672	c.635C>T	c.(634-636)GCC>GTC	p.A212V	CELF5_uc002lxl.1_Missense_Mutation_p.A212V|CELF5_uc010dtj.1_Missense_Mutation_p.A212V|CELF5_uc010xhg.1_Missense_Mutation_p.A98V|CELF5_uc002lxn.2_RNA	NM_021938	NP_068757	Q8N6W0	CELF5_HUMAN	bruno-like 5, RNA binding protein	212	RRM 2.				mRNA processing	cytoplasm|nucleus	nucleotide binding|RNA binding			ovary(2)	2						GTCAAGTTCGCCGACACGGAC	0.672													6	98					0	0	1	0	0		T	3281228	T	T	3281228	3	4	27	1	0	0	0	0	1	0	0	0	3222	739	26	2	657	2	CELF5	19	3281228	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	101579	3281228	55847755	7286	29637											
C19orf28	126321	broad.mit.edu	37	chr19	3551131	3551131	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcccactcgggcgtggcCgccccacagcccaggcaggg	6	2	15	18	3	0	0	0	0	0	0	1	0	0	0	5	4	2	2	5	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:3551131C>T	uc002lxz.2	-	2	530	c.360G>A	c.(358-360)GCG>GCA	p.A120A	C19orf28_uc002lxw.2_Silent_p.A120A|C19orf28_uc002lxx.2_Silent_p.A120A|C19orf28_uc002lxy.2_Silent_p.A111A	NM_174983	NP_778148	Q6NUT3	CS028_HUMAN	hypothetical protein LOC126321 isoform c	120					transmembrane transport	integral to membrane				breast(1)|pancreas(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00251)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGGCGTGGCCGCCCCACAGC	0.657													3	16					0	0	1	0	0		T	3551131	T	T	3551131	2	4	27	1	0	0	0	0	0	0	0	1	1920	639	23	1		1	C19orf28	19	3551131	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	269903	3551131	55577852	7287	29638											
C19orf29	58509	broad.mit.edu	37	chr19	3620185	3620185	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccatgtcttgaagtgcTctgcctccttctcgcgctgc	3	13	8	17	2	3	1	0	1	3	0	6	1	5	1	4	0	3	2	4	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:3620185T>C	uc002lyh.2	-	4	877	c.824A>G	c.(823-825)GAG>GGG	p.E275G	C19orf29_uc010xho.1_5'Flank|C19orf29_uc010dtn.2_Missense_Mutation_p.E123G|C19orf29_uc002lyi.3_Missense_Mutation_p.E275G|C19orf29_uc010dto.2_RNA|C19orf29_uc010xhp.1_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	275	Potential.					catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTGAAGTGCTCTGCCTCCTT	0.662													9	16					0	0	1	0	0		C	3620185	C	C	3620185	3	2	27	1	0	0	0	0	1	0	0	0	1921	1551	54	3	1480	3	C19orf29	19	3620185	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	69054	3620185	55508798	7288	29639											
PIP5K1C	23396	broad.mit.edu	37	chr19	3656486	3656486	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaactcgtcgtcgctggTgacgtagaagagggagccac	10	7	15	9	4	0	4	0	2	0	2	3	6	0	5	1	2	2	2	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:3656486T>C	uc002lyj.1	-	6	595	c.538A>G	c.(538-540)ACC>GCC	p.T180A	PIP5K1C_uc010xhq.1_Missense_Mutation_p.T180A|PIP5K1C_uc010xhr.1_Missense_Mutation_p.T180A	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	180	PIPK.				axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		TCGTCGCTGGTGACGTAGAAG	0.632													5	99					0	0	1	0	0		C	3656486	C	C	3656486	3	2	27	1	0	0	0	0	1	0	0	0	11960	1696	59	3	1520	3	PIP5K1C	19	3656486	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	36301	3656486	55472497	7289	29640											
TJP3	27134	broad.mit.edu	37	chr19	3733891	3733891	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgcctgctgtcagtgacagCgacagctcgccattggaggg	7	7	14	13	3	1	1	1	1	0	0	2	3	1	2	3	2	3	2	3	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:3733891C>T	uc010xhv.1	+	6	915	c.915C>T	c.(913-915)AGC>AGT	p.S305S	TJP3_uc010xhs.1_Silent_p.S286S|TJP3_uc010xht.1_Silent_p.S250S|TJP3_uc010xhu.1_Silent_p.S295S|TJP3_uc010xhw.1_Silent_p.S305S	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	286						tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		TCAGTGACAGCGACAGCTCGC	0.597													6	54					0	0	1	0	0		T	3733891	T	T	3733891	2	4	27	1	0	0	0	0	0	0	0	1	15956	767	27	1		1	TJP3	19	3733891	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	77405	3733891	55395092	7290	29641											
ZFR2	23217	broad.mit.edu	37	chr19	3834970	3834970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtgggcaggggaagggtcGgaggctgggcgctagaacca	9	4	20	8	2	0	1	0	0	0	1	1	3	0	3	1	7	1	3	1	7	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:3834970G>A	uc002lyw.2	-	2	77	c.65C>T	c.(64-66)CCG>CTG	p.P22L	ZFR2_uc010xhx.1_RNA	NM_015174	NP_055989	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2 isoform 1	22						intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		GGGAAGGGTCGGAGGCTGGGC	0.622													7	18					0	0	1	0	0		A	3834970	A	A	3834970	3	1	27	1	0	0	0	0	1	0	0	0	17685	1116	39	1	2826	1	ZFR2	19	3834970	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	101079	3834970	55294013	7291	29642											
PIAS4	51588	broad.mit.edu	37	chr19	4013158	4013158	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccctgaccatgcactccAcctacgaccgggccggcgct	7	5	9	20	4	0	1	0	1	0	0	1	2	1	1	7	2	2	2	7	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:4013158A>G	uc002lzg.2	+	2	275	c.265A>G	c.(265-267)ACC>GCC	p.T89A		NM_015897	NP_056981	Q8N2W9	PIAS4_HUMAN	protein inhibitor of activated STAT, 4	89					positive regulation of protein sumoylation|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|PML body	DNA binding|SUMO ligase activity|ubiquitin protein ligase binding|zinc ion binding			pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CATGCACTCCACCTACGACCG	0.627													9	74					0	0	1	0	0		G	4013158	G	G	4013158	3	3	27	1	0	0	0	0	1	0	0	0	11897	159	6	3	271	3	PIAS4	19	4013158	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	178188	4013158	55115825	7292	29643											
MAP2K2	5605	broad.mit.edu	37	chr19	4099374	4099374	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccatgctccagatgtcCgactgcaccgagtaatgtgt	9	9	11	12	2	0	1	0	0	0	1	2	3	2	1	4	1	2	3	4	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:4099374C>A	uc002lzk.2	-	7	998	c.744G>T	c.(742-744)TCG>TCT	p.S248S	MAP2K2_uc002lzj.2_Silent_p.S58S	NM_030662	NP_109587	P36507	MP2K2_HUMAN	mitogen-activated protein kinase kinase 2	248	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|extracellular region	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCAGATGTCCGACTGCACCG	0.672									Cardiofaciocutaneous_syndrome				4	11					0.00116845	0.00121513	1	1	0		A	4099374	A	A	4099374	2	1	27	1	0	0	0	0	0	0	0	1	9255	639	23	5		5	MAP2K2	19	4099374	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	86216	4099374	55029609	7293	29644											
ANKRD24	170961	broad.mit.edu	37	chr19	4216957	4216957	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaaggtcacagaaacaaaAcccacaggggctgaggtcag	15	3	12	11	0	2	2	2	1	0	1	2	2	2	2	2	4	2	1	2	4	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:4216957A>G	uc010dtt.1	+	18	2076	c.1800A>G	c.(1798-1800)AAA>AAG	p.K600K	ANKRD24_uc002lzs.2_Silent_p.K571K|ANKRD24_uc002lzt.2_Silent_p.K572K	NM_133475	NP_597732	Q8TF21	ANR24_HUMAN	ankyrin repeat domain 24	600											0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)		CAGAAACAAAACCCACAGGGG	0.567													3	23					0	0	1	0	0		G	4216957	G	G	4216957	2	3	27	1	0	0	0	0	0	0	0	1	653	40	2	3		3	ANKRD24	19	4216957	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	117583	4216957	54912026	7294	29645											
EBI3	10148	broad.mit.edu	37	chr19	4234673	4234673	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtccgtcagtcaagcccgAccctccagaaggcgtgcgcc	7	7	11	16	4	2	1	2	0	0	1	4	2	4	1	5	1	2	0	5	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:4234673A>G	uc002lzu.2	+	4	397	c.389A>G	c.(388-390)GAC>GGC	p.D130G		NM_005755	NP_005746	Q14213	IL27B_HUMAN	Epstein-Barr virus induced 3 precursor	130	Fibronectin type-III 2.				humoral immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of interferon-gamma biosynthetic process|T-helper 1 type immune response	extracellular space|plasma membrane	cytokine activity|cytokine receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0336)|STAD - Stomach adenocarcinoma(1328;0.18)		GTCAAGCCCGACCCTCCAGAA	0.512													10	123					0	0	1	0	0		G	4234673	G	G	4234673	3	3	27	1	0	0	0	0	1	0	0	0	4889	275	10	3	403	3	EBI3	19	4234673	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17716	4234673	54894310	7295	29646											
SH3GL1	6455	broad.mit.edu	37	chr19	4365591	4365591	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccccggatcttggacacCgtgttgagcatggtcagctt	6	11	13	11	2	2	1	1	1	1	0	2	3	2	3	3	4	2	3	3	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:4365591C>A	uc002maj.2	-	4	325	c.219G>T	c.(217-219)ACG>ACT	p.T73T	SH3GL1_uc002mak.2_Silent_p.T73T|SH3GL1_uc010xig.1_Intron	NM_003025	NP_003016	Q99961	SH3G1_HUMAN	SH3-domain GRB2-like 1	73	Required for dimerization upon membrane association (By similarity).|BAR.				central nervous system development|endocytosis|signal transduction	early endosome membrane	lipid binding|protein binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0152)|STAD - Stomach adenocarcinoma(1328;0.182)		TCTTGGACACCGTGTTGAGCA	0.672			T	MLL	AL								7	89					5.18039e-06	5.59131e-06	1	1	0		A	4365591	A	A	4365591	2	1	27	1	0	0	0	0	0	0	0	1	14275	639	23	5		5	SH3GL1	19	4365591	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	130918	4365591	54763392	7296	29647											
HDGFRP2	84717	broad.mit.edu	37	chr19	4491791	4491791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagaagaaagcagcggtcCgggcgccacggaggggccct	9	3	17	12	4	0	2	0	1	0	2	1	4	1	3	3	5	2	1	3	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:4491791C>T	uc002mao.2	+	6	730	c.637C>T	c.(637-639)CGG>TGG	p.R213W	HDGFRP2_uc002map.2_Missense_Mutation_p.R213W|HDGFRP2_uc010dtz.1_RNA	NM_001001520	NP_001001520	Q7Z4V5	HDGR2_HUMAN	hepatoma-derived growth factor-related protein 2	213	Ser-rich.				transcription, DNA-dependent	nucleus	DNA binding|protein binding				0						AGCAGCGGTCCGGGCGCCACG	0.627													22	77					0	0	1	0	0		T	4491791	T	T	4491791	3	4	27	1	0	0	0	0	1	0	0	0	7036	643	23	1	659	1	HDGFRP2	19	4491791	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	126200	4491791	54637192	7297	29648											
PLIN4	729359	broad.mit.edu	37	chr19	4504480	4504480	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcctacagctactgcccGccagcgggcaaggcgaaggg	8	4	15	14	3	0	0	0	0	0	0	1	1	1	0	3	4	5	3	3	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:4504480G>A	uc002mar.1	-	6	4065	c.4065C>T	c.(4063-4065)GGC>GGT	p.G1355G	PLIN4_uc010dub.1_Silent_p.G379G	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	1355						lipid particle|plasma membrane					0						GCTACTGCCCGCCAGCGGGCA	0.677													11	8					0	0	1	0	0		A	4504480	A	A	4504480	2	1	27	1	0	0	0	0	0	0	0	1	12111	1074	38	1		1	PLIN4	19	4504480	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	12689	4504480	54624503	7298	29649											
PLIN4	729359	broad.mit.edu	37	chr19	4511907	4511907	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccggtcagcacggtcttggCcgtgtctacacctgtctggg	4	10	14	13	3	4	0	1	0	3	0	4	0	4	0	3	4	2	1	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:4511907C>A	uc002mar.1	-	3	2023	c.2023G>T	c.(2023-2025)GCC>TCC	p.A675S	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	675	18.|27 X 33 AA approximate tandem repeat.					lipid particle|plasma membrane					0						ACGGTCTTGGCCGTGTCTACA	0.577													13	167					2.21704e-12	2.46676e-12	1	1	0		A	4511907	A	A	4511907	3	1	27	1	0	0	0	0	1	0	0	0	12111	739	26	5	2066	5	PLIN4	19	4511907	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7427	4511907	54617076	7299	29650											
SEMA6B	10501	broad.mit.edu	37	chr19	4548328	4548328	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagacactgagcccagacgtCcctgaggtgctggcattggg	9	7	14	11	1	0	4	0	2	0	2	1	4	1	4	2	3	2	2	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:4548328C>T	uc010duc.1	-	12	1439	c.1401G>A	c.(1399-1401)GGG>GGA	p.G467G	SEMA6B_uc010dud.2_Silent_p.G467G|SEMA6B_uc010xih.1_Silent_p.G467G	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	467	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCCAGACGTCCCTGAGGTGC	0.642													6	43					0	0	1	0	0		T	4548328	T	T	4548328	2	4	27	1	0	0	0	0	0	0	0	1	14065	842	30	4		4	SEMA6B	19	4548328	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	36421	4548328	54580655	7300	29651											
DPP9	91039	broad.mit.edu	37	chr19	4705902	4705902	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcatctgcttccaggacaGgagcagcagagcctctttcc	9	8	10	14	0	2	1	0	0	2	1	4	3	4	3	3	2	5	4	3	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:4705902G>T	uc002mba.2	-	5	652	c.394C>A	c.(394-396)CTG>ATG	p.L132M	DPP9_uc002mbb.2_Missense_Mutation_p.L132M|DPP9_uc002mbc.2_Missense_Mutation_p.L132M	NM_139159	NP_631898	Q86TI2	DPP9_HUMAN	dipeptidylpeptidase 9	103					proteolysis	cytosol|membrane	aminopeptidase activity|serine-type peptidase activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00884)		TTCCAGGACAGGAGCAGCAGA	0.567													7	62					0.0477658	0.0483837	1	1	0		T	4705902	T	T	4705902	3	4	27	1	0	0	0	0	1	0	0	0	4739	991	35	5	2356	5	DPP9	19	4705902	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	157574	4705902	54423081	7301	29652											
KDM4B	23030	broad.mit.edu	37	chr19	5040024	5040024	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctggccaacagcgagaagTacgcggggcgggcagggcgg	8	2	20	11	5	0	1	0	0	0	1	0	2	0	1	2	6	3	2	2	6	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:5040024T>C	uc002mbq.3	+	4	543	c.317_splice	c.e4+2	p.K106_splice	KDM4B_uc010xil.1_Splice_Site_p.K106_splice|KDM4B_uc010xim.1_Splice_Site_p.K106_splice	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						CAGCGAGAAGTACGCGGGGCG	0.692													5	23					0	0	1	0	0		C	5040024	C	C	5040024	5	2	27	1	0	0	0	0	0	0	1	0	8145	1652	57	3	325	3	KDM4B	19	5040024	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	334122	5040024	54088959	7302	29653											
PTPRS	5802	broad.mit.edu	37	chr19	5221144	5221144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaccgtctgctggaggcCgcccaggctgctgccgcgat	4	7	16	14	4	1	1	0	1	1	0	1	3	1	2	4	4	3	3	4	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:5221144C>T	uc002mbv.2	-	20	3556	c.3322G>A	c.(3322-3324)GGC>AGC	p.G1108S	PTPRS_uc002mbu.1_Missense_Mutation_p.G677S|PTPRS_uc010xin.1_Missense_Mutation_p.G677S|PTPRS_uc002mbw.2_Missense_Mutation_p.G1086S|PTPRS_uc002mbx.2_Missense_Mutation_p.G681S|PTPRS_uc002mby.2_Missense_Mutation_p.G677S	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1108	Extracellular (Potential).|Fibronectin type-III 8.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		TGCTGGAGGCCGCCCAGGCTG	0.607													6	83					0	0	1	0	0		T	5221144	T	T	5221144	3	4	27	1	0	0	0	0	1	0	0	0	12836	652	23	1	2600	1	PTPRS	19	5221144	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	181120	5221144	53907839	7303	29654											
PTPRS	5802	broad.mit.edu	37	chr19	5225736	5225736	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggaggagggcgggttgcatAcctgctcccttggtcacaac	7	8	15	11	1	1	0	1	0	0	0	2	2	2	2	2	5	4	3	2	5	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:5225736A>G	uc002mbv.2	-	17	2728	c.2494_splice	c.e17+1	p.V832_splice	PTPRS_uc002mbu.1_Intron|PTPRS_uc010xin.1_Intron|PTPRS_uc002mbw.2_Splice_Site_p.V810_splice|PTPRS_uc002mbx.2_Intron|PTPRS_uc002mby.2_Intron	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,						cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		CGGGTTGCATACCTGCTCCCT	0.632													4	38					0	0	1	0	0		G	5225736	G	G	5225736	5	3	27	1	0	0	0	0	0	0	1	0	12836	405	14	3	3438	3	PTPRS	19	5225736	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4592	5225736	53903247	7304	29655											
ZNRF4	148066	broad.mit.edu	37	chr19	5455652	5455652	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaccccggagatgcccaaaGgcctcatgcctgccgcctcc	8	5	10	18	2	1	2	1	0	0	2	2	3	2	2	8	2	3	0	8	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:5455652G>T	uc002mca.3	+	1	227	c.150G>T	c.(148-150)AAG>AAT	p.K50N		NM_181710	NP_859061	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4 precursor	50	Extracellular (Potential).					integral to membrane	zinc ion binding			large_intestine(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		GATGCCCAAAGGCCTCATGCC	0.687													6	45					1.6384e-10	1.81386e-10	1	1	0		T	5455652	T	T	5455652	3	4	27	1	0	0	0	0	1	0	0	0	18239	991	35	5	152	5	ZNRF4	19	5455652	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	229916	5455652	53673331	7305	29656											
SAFB2	9667	broad.mit.edu	37	chr19	5592843	5592843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggccggggaaagtctgcacGatatcggtcctccattgcca	8	9	12	12	3	1	0	0	0	1	0	4	2	3	1	4	4	2	1	4	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:5592843G>A	uc002mcd.2	-	16	2475	c.2263C>T	c.(2263-2265)CGT>TGT	p.R755C		NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	755	Arg-rich.|Interacts with SAFB1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		AAGTCTGCACGATATCGGTCC	0.502													5	35					0	0	1	0	0		A	5592843	A	A	5592843	3	1	27	1	0	0	0	0	1	0	0	0	13832	1058	37	1	622	1	SAFB2	19	5592843	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	137191	5592843	53536140	7306	29657											
RPL36	25873	broad.mit.edu	37	chr19	5691598	5691598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagctgagcaacgtactggCcgccatgaggaaagctgctg	10	6	15	10	2	0	2	0	2	0	0	0	4	0	4	2	3	6	5	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:5691598C>T	uc002mcv.2	+	4	353	c.284C>T	c.(283-285)GCC>GTC	p.A95V	RPL36_uc002mcw.2_Missense_Mutation_p.A95V	NM_033643	NP_378669	Q9Y3U8	RL36_HUMAN	ribosomal protein L36	95					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	protein binding|structural constituent of ribosome				0						AACGTACTGGCCGCCATGAGG	0.637											OREG0025183	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	21					0	0	1	0	0		T	5691598	T	T	5691598	3	4	27	1	0	0	0	0	1	0	0	0	13611	739	26	2	294	2	RPL36	19	5691598	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	98755	5691598	53437385	7307	29658											
LONP1	9361	broad.mit.edu	37	chr19	5714193	5714193	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaaggaaaaatcacacttaCctgtcatctctctttagaaa	15	12	5	9	0	4	2	2	1	2	1	5	3	4	3	1	1	1	0	1	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:5714193C>G	uc002mcx.2	-	2	551	c.518_splice	c.e2+1	p.S173_splice	LONP1_uc002mcy.2_Splice_Site_p.S109_splice|LONP1_uc010duh.2_Splice_Site|LONP1_uc010dui.2_Splice_Site_p.S173_splice|LONP1_uc002mcz.2_Splice_Site	NM_004793	NP_004784	P36776	LONM_HUMAN	mitochondrial lon peptidase 1 precursor						cellular chaperone-mediated protein complex assembly|cellular response to oxidative stress|misfolded or incompletely synthesized protein catabolic process|mitochondrial DNA metabolic process|oxidation-dependent protein catabolic process|protein homooligomerization|response to hypoxia	mitochondrial nucleoid	ADP binding|ATP binding|ATP-dependent peptidase activity|DNA polymerase binding|G-quadruplex DNA binding|mitochondrial heavy strand promoter anti-sense binding|mitochondrial light strand promoter anti-sense binding|sequence-specific DNA binding|serine-type endopeptidase activity|single-stranded DNA binding|single-stranded RNA binding				0						ATCACACTTACCTGTCATCTC	0.478													15	41					0	0	1	0	0		G	5714193	G	G	5714193	5	3	27	1	0	0	0	0	0	0	1	0	8910	521	18	5	2428	5	LONP1	19	5714193	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	22595	5714193	53414790	7308	29659											
TMEM146	257062	broad.mit.edu	37	chr19	5744496	5744496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttctttgtcacaggttgCgatgcttgtagtgaatcaag	8	17	10	6	1	3	1	2	1	1	0	3	2	3	1	0	1	2	3	0	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:5744496C>T	uc002mda.2	+	8	693	c.632C>T	c.(631-633)GCG>GTG	p.A211V	TMEM146_uc010duj.1_5'UTR	NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	211	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						TCACAGGTTGCGATGCTTGTA	0.408													4	89					0	0	1	0	0		T	5744496	T	T	5744496	3	4	27	1	0	0	0	0	1	0	0	0	16085	768	27	1	662	1	TMEM146	19	5744496	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	30303	5744496	53384487	7309	29660											
ACSBG2	81616	broad.mit.edu	37	chr19	6187702	6187702	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcagccaggcatccacCgtgactgagattgtgaagca	10	7	13	11	1	0	3	0	3	0	1	1	4	1	3	3	2	2	3	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:6187702C>T	uc002mef.1	+	13	2000	c.1773C>T	c.(1771-1773)ACC>ACT	p.T591T	ACSBG2_uc002mee.1_Silent_p.T404T|ACSBG2_uc002meg.1_Silent_p.T591T|ACSBG2_uc002meh.1_Silent_p.T591T|ACSBG2_uc002mei.1_Silent_p.T541T|ACSBG2_uc010xiz.1_Silent_p.T563T	NM_030924	NP_112186	Q5FVE4	ACBG2_HUMAN	bubblegum-related acyl-CoA synthetase 2	591					cell differentiation|fatty acid metabolic process|multicellular organismal development|spermatogenesis	membrane|microsome|mitochondrion	acyl-CoA thioesterase activity|ATP binding|long-chain fatty acid-CoA ligase activity			ovary(1)	1						AGGCATCCACCGTGACTGAGA	0.552													4	66					0	0	1	0	0		T	6187702	T	T	6187702	2	4	27	1	0	0	0	0	0	0	0	1	174	639	23	1		1	ACSBG2	19	6187702	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	443206	6187702	52941281	7310	29661											
KHSRP	8570	broad.mit.edu	37	chr19	6418522	6418522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtaaggatccccaatgatgCggagaggtttgtccacattc	10	11	11	9	1	0	2	0	1	0	1	3	4	2	3	3	3	1	2	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:6418522C>T	uc002mer.3	-	9	961	c.851G>A	c.(850-852)CGC>CAC	p.R284H		NM_003685	NP_003676	Q92945	FUBP2_HUMAN	KH-type splicing regulatory protein	284	Gly-rich.|KH 2.				mRNA processing|mRNA transport|regulation of transcription, DNA-dependent|RNA splicing, via transesterification reactions|transcription, DNA-dependent	cytosol|nucleus	DNA binding|protein binding|RNA binding			skin(1)	1						CCCAATGATGCGGAGAGGTTT	0.562													4	27					0	0	1	0	0		T	6418522	T	T	6418522	3	4	27	1	0	0	0	0	1	0	0	0	8167	768	27	1	1332	1	KHSRP	19	6418522	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	230820	6418522	52710461	7311	29662											
DENND1C	79958	broad.mit.edu	37	chr19	6476977	6476977	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagctccgttaggttcCtctgaggatcagagagtcgc	8	9	11	13	2	2	2	1	1	1	1	5	4	4	3	4	2	1	3	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:6476977C>A	uc002mfe.2	-	10	661	c.569G>T	c.(568-570)AGG>ATG	p.R190M	DENND1C_uc002mfb.2_5'Flank|DENND1C_uc002mfc.2_5'Flank|DENND1C_uc002mfd.2_Translation_Start_Site|DENND1C_uc010xje.1_Missense_Mutation_p.R146M	NM_024898	NP_079174	Q8IV53	DEN1C_HUMAN	DENN/MADD domain containing 1C	190	DENN.					clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity			large_intestine(1)	1						CGTTAGGTTCCTCTGAGGATC	0.647													7	51					1.06961e-07	1.16939e-07	1	1	0		A	6476977	A	A	6476977	3	1	27	1	0	0	0	0	1	0	0	0	4434	695	24	5	1892	5	DENND1C	19	6476977	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	58455	6476977	52652006	7312	29663											
C3	718	broad.mit.edu	37	chr19	6697697	6697697	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgccggtaattgtagagaAcggctcggatttccacctgc	8	11	11	11	3	1	1	0	0	1	1	3	3	2	2	3	3	3	3	3	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:6697697A>C	uc002mfm.2	-	20	2611	c.2549T>G	c.(2548-2550)GTT>GGT	p.V850G		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	850					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		ATTGTAGAGAACGGCTCGGAT	0.572													3	41					0	0	1	0	0		C	6697697	C	C	6697697	3	2	27	1	0	0	0	0	1	0	0	0	2207	43	2	5	2530	5	C3	19	6697697	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	220720	6697697	52431286	7313	29664											
C3	718	broad.mit.edu	37	chr19	6710735	6710735	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcaccgatcagcgtgtagTacgccaccaggcggaaggaa	11	5	14	11	4	1	0	1	0	0	0	1	3	1	2	3	4	2	3	3	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:6710735T>C	uc002mfm.2	-	13	1663	c.1601A>G	c.(1600-1602)TAC>TGC	p.Y534C		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	534					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		CAGCGTGTAGTACGCCACCAG	0.667													7	68					0	0	1	0	0		C	6710735	C	C	6710735	3	2	27	1	0	0	0	0	1	0	0	0	2207	1638	57	3	3506	3	C3	19	6710735	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	13038	6710735	52418248	7314	29665											
TRIP10	9322	broad.mit.edu	37	chr19	6750304	6750304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtcccctcctcccaggCgtggctggcagaagctgaaa	7	8	11	15	1	0	2	0	1	0	1	4	2	4	2	5	3	1	3	5	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:6750304C>T	uc002mfs.2	+	13	1463	c.1397C>T	c.(1396-1398)GCG>GTG	p.A466V	TRIP10_uc010dux.1_Missense_Mutation_p.A410V|TRIP10_uc002mfr.2_Missense_Mutation_p.A410V|TRIP10_uc010duy.2_RNA|TRIP10_uc010duz.2_Missense_Mutation_p.A229V	NM_004240	NP_004231	Q15642	CIP4_HUMAN	thyroid hormone receptor interactor 10	466	Interaction with CDC42.|Interaction with PDE6G (By similarity).|REM.				actin cytoskeleton organization|cell communication|endocytosis|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell projection|cytoskeleton|cytosol|Golgi apparatus|lysosome|perinuclear region of cytoplasm|phagocytic cup	GTPase activator activity|identical protein binding|lipid binding			ovary(1)	1						TCCTCCCAGGCGTGGCTGGCA	0.672													4	71					0	0	1	0	0		T	6750304	T	T	6750304	3	4	27	1	0	0	0	0	1	0	0	0	16580	782	27	1	1275	1	TRIP10	19	6750304	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	39569	6750304	52378679	7315	29666											
VAV1	7409	broad.mit.edu	37	chr19	6853059	6853059	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagttccccttcaaggaGcctgaaaagagaaccatcag	13	8	9	11	0	2	2	2	1	0	1	3	4	3	3	4	1	3	2	4	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:6853059G>A	uc002mfu.1	+	25	2398	c.2301G>A	c.(2299-2301)GAG>GAA	p.E767E	VAV1_uc010xjh.1_Silent_p.E735E|VAV1_uc010dva.1_Silent_p.E745E|VAV1_uc002mfv.1_Silent_p.E712E	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	767					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						CCTTCAAGGAGCCTGAAAAGA	0.542													5	53					0	0	1	0	0		A	6853059	A	A	6853059	2	1	27	1	0	0	0	0	0	0	0	1	17157	962	34	2		2	VAV1	19	6853059	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	102755	6853059	52275924	7316	29667											
EMR1	2015	broad.mit.edu	37	chr19	6921803	6921803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatggacatcctttggctGtgtgatcctggaagcttctg	8	13	12	8	0	1	2	0	1	1	1	3	4	3	4	2	3	1	2	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:6921803G>A	uc002mfw.2	+	14	1738	c.1700G>A	c.(1699-1701)TGT>TAT	p.C567Y	EMR1_uc010dvc.2_Missense_Mutation_p.C567Y|EMR1_uc010dvb.2_Missense_Mutation_p.C515Y|EMR1_uc010xji.1_Missense_Mutation_p.C426Y|EMR1_uc010xjj.1_Missense_Mutation_p.C390Y	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	567	GPS.|Extracellular (Potential).|Ser/Thr-rich.				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					TCCTTTGGCTGTGTGATCCTG	0.453													14	97					0	0	1	0	0		A	6921803	A	A	6921803	3	1	27	1	0	0	0	0	1	0	0	0	5112	1377	48	4	1754	4	EMR1	19	6921803	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	68744	6921803	52207180	7317	29668											
EMR1	2015	broad.mit.edu	37	chr19	6937571	6937571	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggtacgagaagaatacaAgaggtggatcactgggaaga	16	5	14	6	1	1	4	1	0	0	4	1	7	1	6	1	4	2	1	1	4	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:6937571A>G	uc002mfw.2	+	20	2605	c.2567A>G	c.(2566-2568)AAG>AGG	p.K856R	EMR1_uc010dvc.2_Missense_Mutation_p.K791R|EMR1_uc010dvb.2_Missense_Mutation_p.K837R|EMR1_uc010xji.1_Missense_Mutation_p.K715R|EMR1_uc010xjj.1_Missense_Mutation_p.K679R	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	856	Cytoplasmic (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					GAAGAATACAAGAGGTGGATC	0.468													10	76					0	0	1	0	0		G	6937571	G	G	6937571	3	3	27	1	0	0	0	0	1	0	0	0	5112	72	3	3	2645	3	EMR1	19	6937571	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	15768	6937571	52191412	7318	29669											
EMR1	2015	broad.mit.edu	37	chr19	6937586	6937586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atacaagaggtggatcactgGgaagacgaagcccagctccc	13	5	12	11	1	1	2	1	0	0	2	2	5	2	4	2	3	3	1	2	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:6937586G>A	uc002mfw.2	+	20	2620	c.2582G>A	c.(2581-2583)GGG>GAG	p.G861E	EMR1_uc010dvc.2_Missense_Mutation_p.G796E|EMR1_uc010dvb.2_Missense_Mutation_p.G842E|EMR1_uc010xji.1_Missense_Mutation_p.G720E|EMR1_uc010xjj.1_Missense_Mutation_p.G684E	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	861	Cytoplasmic (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					TGGATCACTGGGAAGACGAAG	0.512													8	84					0	0	1	0	0		A	6937586	A	A	6937586	3	1	27	1	0	0	0	0	1	0	0	0	5112	1232	43	4	2660	4	EMR1	19	6937586	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15	6937586	52191397	7319	29670											
ZNF557	79230	broad.mit.edu	37	chr19	7082971	7082971	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatcttcccttacacggcAcaggaagattcatactggag	14	9	8	10	1	2	1	1	0	1	1	3	3	3	3	1	3	2	1	1	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7082971A>T	uc002mgb.2	+	8	973	c.488A>T	c.(487-489)CAC>CTC	p.H163L	ZNF557_uc002mga.2_Missense_Mutation_p.H170L|ZNF557_uc002mgc.2_Missense_Mutation_p.H170L	NM_001044388	NP_001037853	Q8N988	ZN557_HUMAN	zinc finger protein 557 isoform b	163	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2				Lung(535;0.179)		CTTACACGGCACAGGAAGATT	0.408													8	64					0	0	1	0	0		T	7082971	T	T	7082971	3	4	27	1	0	0	0	0	1	0	0	0	18013	159	6	5	531	5	ZNF557	19	7082971	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	145385	7082971	52046012	7320	29671											
INSR	3643	broad.mit.edu	37	chr19	7125510	7125510	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgagacacctcccactcGtccggcacgtacacagagca	10	6	8	17	4	1	2	0	0	1	2	5	3	3	2	3	1	2	3	3	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7125510G>A	uc002mgd.1	-	17	3151	c.3042C>T	c.(3040-3042)GAC>GAT	p.D1014D	INSR_uc002mge.1_Silent_p.D1002D	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	1014	Cytoplasmic (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CCTCCCACTCGTCCGGCACGT	0.567													6	58					0	0	1	0	0		A	7125510	A	A	7125510	2	1	27	1	0	0	0	0	0	0	0	1	7789	1136	40	1		1	INSR	19	7125510	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	42539	7125510	52003473	7321	29672											
INSR	3643	broad.mit.edu	37	chr19	7125522	7125522	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccactcgtccggcacgtaCacagagcatggaaacactac	12	6	8	15	3	0	1	0	0	0	1	3	2	2	2	2	2	4	3	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7125522C>T	uc002mgd.1	-	17	3139	c.3030G>A	c.(3028-3030)GTG>GTA	p.V1010V	INSR_uc002mge.1_Silent_p.V998V	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	1010	Cytoplasmic (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CCGGCACGTACACAGAGCATG	0.577													11	46					0	0	1	0	0		T	7125522	T	T	7125522	2	4	27	1	0	0	0	0	0	0	0	1	7789	465	17	4		4	INSR	19	7125522	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12	7125522	52003461	7322	29673											
INSR	3643	broad.mit.edu	37	chr19	7166350	7166350	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggggtgggtcaatgtctAccaccgtccaactgttggaa	9	10	12	10	1	3	0	2	0	1	0	4	1	4	1	3	4	2	1	3	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7166350A>G	uc002mgd.1	-	8	1785	c.1676T>C	c.(1675-1677)GTA>GCA	p.V559A	INSR_uc002mge.1_Missense_Mutation_p.V559A|INSR_uc002mgf.2_Missense_Mutation_p.V559A	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	559					activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GTCAATGTCTACCACCGTCCA	0.547													9	40					0	0	1	0	0		G	7166350	G	G	7166350	3	3	27	1	0	0	0	0	1	0	0	0	7789	391	14	3	2532	3	INSR	19	7166350	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	40828	7166350	51962633	7323	29674											
ARHGEF18	23370	broad.mit.edu	37	chr19	7509264	7509264	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgctcggctcaaggagcGccgccaggagtccctggagg	6	5	15	15	4	1	0	1	0	0	0	4	3	2	3	4	5	1	2	4	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7509264G>A	uc002mgi.2	+	4	1224	c.971G>A	c.(970-972)CGC>CAC	p.R324H	ARHGEF18_uc010xjm.1_Missense_Mutation_p.R166H|ARHGEF18_uc002mgh.2_Missense_Mutation_p.R166H|ARHGEF18_uc002mgj.1_5'Flank	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	324	DH.				actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				CTCAAGGAGCGCCGCCAGGAG	0.617													5	63					0	0	1	0	0		A	7509264	A	A	7509264	3	1	27	1	0	0	0	0	1	0	0	0	901	1087	38	1	985	1	ARHGEF18	19	7509264	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	342914	7509264	51619719	7324	29675											
C19orf45	374877	broad.mit.edu	37	chr19	7569089	7569089	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaggccctgccaggcccAcctgccttgaggtgtaagag	7	8	12	14	0	0	2	0	1	0	1	1	2	1	2	6	3	2	1	6	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7569089A>G	uc002mgm.2	+	3	801	c.660A>G	c.(658-660)CCA>CCG	p.P220P	C19orf45_uc010xjo.1_5'Flank	NM_198534	NP_940936	Q8NA69	CS045_HUMAN	hypothetical protein LOC374877	220											0						TGCCAGGCCCACCTGCCTTGA	0.597													5	48					0	0	1	0	0		G	7569089	G	G	7569089	2	3	27	1	0	0	0	0	0	0	0	1	1931	146	6	3		3	C19orf45	19	7569089	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	59825	7569089	51559894	7325	29676											
MCOLN1	57192	broad.mit.edu	37	chr19	7593720	7593720	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaggagtttgtggggtTcatgtggcggcagcggggac	5	10	19	7	2	2	0	1	0	1	0	2	2	2	2	0	7	2	4	0	7	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7593720T>C	uc002mgo.2	+	9	1123	c.998T>C	c.(997-999)TTC>TCC	p.F333S	MCOLN1_uc002mgp.2_Missense_Mutation_p.F298S	NM_020533	NP_065394	Q9GZU1	MCLN1_HUMAN	mucolipin 1	333					calcium ion transport|cellular iron ion homeostasis|transferrin transport	integral to plasma membrane|late endosome membrane|lysosomal membrane	cation channel activity|iron ion transmembrane transporter activity			breast(1)	1						TTTGTGGGGTTCATGTGGCGG	0.637													3	30					0	0	1	0	0		C	7593720	C	C	7593720	3	2	27	1	0	0	0	0	1	0	0	0	9413	1783	62	3	1032	3	MCOLN1	19	7593720	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	24631	7593720	51535263	7326	29677											
XAB2	56949	broad.mit.edu	37	chr19	7692152	7692152	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggaagcgccgatagcctcGcacagctgtctcaggcagtg	9	6	14	12	3	1	0	1	0	1	0	3	3	1	1	2	2	3	3	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7692152G>A	uc002mgx.2	-	4	525	c.499C>T	c.(499-501)CGA>TGA	p.R167*	uc010dvi.1_5'Flank	NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	167	HAT 5.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						CGATAGCCTCGCACAGCTGTC	0.617								Direct_reversal_of_damage|NER					10	27					0	0	1	0	0		A	7692152	A	A	7692152	4	1	27	1	0	0	0	0	0	1	0	0	17444	1095	38	1	2132	1	XAB2	19	7692152	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	98432	7692152	51436831	7327	29678											
PCP2	126006	broad.mit.edu	37	chr19	7696662	7696662	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtgagcaggggttggggActgagggtcccagctcgttt	5	9	20	7	1	0	2	0	2	0	0	2	3	1	3	1	7	2	4	1	7	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7696662A>G	uc002mgz.2	-	4	551	c.324T>C	c.(322-324)AGT>AGC	p.S108S	XAB2_uc002mgx.2_5'Flank	NM_174895	NP_777555	Q8IVA1	PCP2_HUMAN	Purkinje cell protein 2	108					signal transduction		GTPase activator activity				0						GGGGTTGGGGACTGAGGGTCC	0.672													5	45					0	0	1	0	0		G	7696662	G	G	7696662	2	3	27	1	0	0	0	0	0	0	0	1	11616	272	10	3		3	PCP2	19	7696662	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4510	7696662	51432321	7328	29679											
CLEC4G	339390	broad.mit.edu	37	chr19	7794289	7794289	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcacagatccagccgtccTtctcgctgtcacacggtgcg	6	10	9	16	4	3	1	2	0	2	1	7	1	5	1	3	1	2	1	3	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7794289T>G	uc002mhp.3	-	9	914	c.845A>C	c.(844-846)AAG>ACG	p.K282T		NM_198492	NP_940894	Q6UXB4	CLC4G_HUMAN	C-type lectin domain family 4, member G	282	Extracellular (Potential).|C-type lectin.					integral to membrane	protein binding|sugar binding				0						CCAGCCGTCCTTCTCGCTGTC	0.627													4	44					0	0	1	0	0		G	7794289	G	G	7794289	3	3	27	1	0	0	0	0	1	0	0	0	3520	1609	56	5	40	5	CLEC4G	19	7794289	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	97627	7794289	51334694	7329	29680											
EVI5L	115704	broad.mit.edu	37	chr19	7914150	7914150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcccttctaggcatactcGctggtagaccgggaggtggg	6	10	15	10	2	1	1	0	0	1	1	3	2	2	2	2	5	1	4	2	5	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7914150G>A	uc002min.2	+	5	715	c.561G>A	c.(559-561)TCG>TCA	p.S187S	EVI5L_uc010xjz.1_Silent_p.S187S|EVI5L_uc002mio.1_5'Flank	NM_145245	NP_660288	Q96CN4	EVI5L_HUMAN	ecotropic viral integration site 5-like isoform	187	Rab-GAP TBC.					intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						AGGCATACTCGCTGGTAGACC	0.647													6	62					0	0	1	0	0		A	7914150	A	A	7914150	2	1	27	1	0	0	0	0	0	0	0	1	5298	1074	38	1		1	EVI5L	19	7914150	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	119861	7914150	51214833	7330	29681											
MAP2K7	5609	broad.mit.edu	37	chr19	7976042	7976042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccggctgtgccgcctacatgGcagtgagtgggggcccccca	5	6	15	15	2	0	1	0	1	0	0	0	1	0	1	6	4	2	2	6	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7976042G>A	uc002mit.2	+	7	918	c.853G>A	c.(853-855)GCA>ACA	p.A285T	MAP2K7_uc002miv.2_Missense_Mutation_p.A285T|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.A285T|MAP2K7_uc010dvv.2_Missense_Mutation_p.A160T	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	285	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	CGCCTACATGGCAGTGAGTGG	0.721													4	25					0	0	1	0	0		A	7976042	A	A	7976042	3	1	27	1	0	0	0	0	1	0	0	0	9260	1203	42	2	879	2	MAP2K7	19	7976042	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	61892	7976042	51152941	7331	29682											
MAP2K7	5609	broad.mit.edu	37	chr19	7977189	7977189	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgggcccacaggaacacaGcttcatcaagcgctacgaga	12	5	10	14	3	2	1	2	0	0	1	3	3	2	2	1	2	4	2	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7977189G>T	uc002mit.2	+	11	1198	c.1133G>T	c.(1132-1134)AGC>ATC	p.S378I	MAP2K7_uc002miv.2_Missense_Mutation_p.S385I|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.S385I|MAP2K7_uc010dvv.2_Missense_Mutation_p.S253I	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	378	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	CAGGAACACAGCTTCATCAAG	0.657													3	43					6.4e-05	6.80234e-05	1	1	0		T	7977189	T	T	7977189	3	4	27	1	0	0	0	0	1	0	0	0	9260	971	34	5	1175	5	MAP2K7	19	7977189	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1147	7977189	51151794	7332	29683											
SNAPC2	6618	broad.mit.edu	37	chr19	7987422	7987422	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgagcatatgacggagacgTacctacgcctgacagccccc	10	7	10	14	3	0	4	0	3	0	1	0	5	0	4	4	1	4	2	4	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:7987422T>C	uc002miw.1	+	5	801	c.778T>C	c.(778-780)TAC>CAC	p.Y260H	SNAPC2_uc002mix.1_RNA	NM_003083	NP_003074	Q13487	SNPC2_HUMAN	small nuclear RNA activating complex,	260					snRNA transcription|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	sequence-specific DNA binding transcription factor activity				0						GACGGAGACGTACCTACGCCT	0.642													14	53					0	0	1	0	0		C	7987422	C	C	7987422	3	2	27	1	0	0	0	0	1	0	0	0	14860	1638	57	3	796	3	SNAPC2	19	7987422	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10233	7987422	51141561	7333	29684											
CCL25	6370	broad.mit.edu	37	chr19	8121288	8121288	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacaggaaggtgtgtgggaAccccaaaagcagggaggtgc	13	4	16	8	0	0	0	0	0	0	0	0	3	0	3	2	5	3	1	2	5	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:8121288A>T	uc002mjd.2	+	3	230	c.230A>T	c.(229-231)AAC>ATC	p.N77I	CCL25_uc002mjc.3_Missense_Mutation_p.N77I|CCL25_uc010dvy.1_Intron	NM_005624	NP_005615	O15444	CCL25_HUMAN	small inducible cytokine A25 precursor	77					chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|inflammatory response	extracellular space|soluble fraction	CCR10 chemokine receptor binding|chemokine activity|hormone activity				0						GTGTGTGGGAACCCCAAAAGC	0.567													3	27					0	0	1	0	0		T	8121288	T	T	8121288	3	4	27	1	0	0	0	0	1	0	0	0	2900	43	2	5	240	5	CCL25	19	8121288	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	133866	8121288	51007695	7334	29685											
FBN3	84467	broad.mit.edu	37	chr19	8148196	8148196	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtggcagcggaaggagccaAggctgttgatgcactcccca	10	6	14	11	1	0	1	0	1	0	0	1	3	1	3	3	4	3	4	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:8148196A>C	uc002mjf.2	-	56	7169	c.7148T>G	c.(7147-7149)CTT>CGT	p.L2383R	FBN3_uc002mje.2_Missense_Mutation_p.L222R	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2383	EGF-like 38; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GAAGGAGCCAAGGCTGTTGAT	0.597													4	83					0	0	1	0	0		C	8148196	C	C	8148196	3	2	27	1	0	0	0	0	1	0	0	0	5718	72	3	5	1313	5	FBN3	19	8148196	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26908	8148196	50980787	7335	29686											
FBN3	84467	broad.mit.edu	37	chr19	8175763	8175763	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctcggtccagttcgtaGccaccattgcagatgcagcg	7	8	10	16	3	0	1	0	0	0	1	3	1	1	1	5	1	4	4	5	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:8175763G>A	uc002mjf.2	-	33	4320	c.4299C>T	c.(4297-4299)GGC>GGT	p.G1433G		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1433	EGF-like 22; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CCAGTTCGTAGCCACCATTGC	0.582													17	89					0	0	1	0	0		A	8175763	A	A	8175763	2	1	27	1	0	0	0	0	0	0	0	1	5718	958	34	2		2	FBN3	19	8175763	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27567	8175763	50953220	7336	29687											
HNRNPM	4670	broad.mit.edu	37	chr19	8550638	8550638	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcatgggcctggtcatggaCcgcatgggctccgtggagcg	5	7	17	12	4	1	0	1	0	0	0	2	2	2	2	3	5	1	3	3	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:8550638C>T	uc010dwe.2	+	14	1406	c.1326C>T	c.(1324-1326)GAC>GAT	p.D442D	HNRNPM_uc010xke.1_Silent_p.D388D|HNRNPM_uc010dwd.2_Silent_p.D403D|HNRNPM_uc002mka.2_Silent_p.D307D|HNRNPM_uc002mkb.1_5'Flank	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	442	27 X 6 AA repeats of [GEVSTPAN]-[ILMV]- [DE]-[RH]-[MLVI]-[GAV].|6.				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						TGGTCATGGACCGCATGGGCT	0.711													11	121					0	0	1	0	0		T	8550638	T	T	8550638	2	4	27	1	0	0	0	0	0	0	0	1	7287	506	18	4		4	HNRNPM	19	8550638	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	374875	8550638	50578345	7337	29688											
PRAM1	84106	broad.mit.edu	37	chr19	8563997	8563997	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttagggaggccaccgaccTgaggctgcggaggctttttg	6	10	15	10	2	1	1	0	1	1	0	1	4	1	3	3	5	1	2	3	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:8563997T>C	uc002mkd.2	-	2	715	c.695A>G	c.(694-696)CAG>CGG	p.Q232R	PRAM1_uc002mkc.2_Missense_Mutation_p.Q232R	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	280	Pro-rich.						lipid binding|protein binding				0						GCCACCGACCTGAGGCTGCGG	0.637													8	42					0	0	1	0	0		C	8563997	C	C	8563997	3	2	27	1	0	0	0	0	1	0	0	0	12445	1580	55	3	1350	3	PRAM1	19	8563997	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	13359	8563997	50564986	7338	29689											
MYO1F	4542	broad.mit.edu	37	chr19	8595214	8595214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccgattgatgctgttgcGcctccgctccttcttgttca	3	16	9	13	3	2	1	1	1	1	0	5	2	5	1	4	0	2	5	4	0	0	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:8595214G>A	uc002mkg.2	-	21	2308	c.2194C>T	c.(2194-2196)CGC>TGC	p.R732C		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	732						unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						ATGCTGTTGCGCCTCCGCTCC	0.637													15	176					0	0	1	0	0		A	8595214	A	A	8595214	3	1	27	1	0	0	0	0	1	0	0	0	10091	1087	38	1	1134	1	MYO1F	19	8595214	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31217	8595214	50533769	7339	29690											
ADAMTS10	81794	broad.mit.edu	37	chr19	8661991	8661991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agctgtccagggacttcccgGcatggtgggtgatctccaga	7	9	14	11	1	1	2	0	1	1	1	4	3	3	3	3	4	1	2	3	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:8661991G>A	uc002mkj.1	-	8	1194	c.920C>T	c.(919-921)GCC>GTC	p.A307V	ADAMTS10_uc002mkk.1_5'UTR	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	307	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						GGACTTCCCGGCATGGTGGGT	0.582													6	83					0	0	1	0	0		A	8661991	A	A	8661991	3	1	27	1	0	0	0	0	1	0	0	0	256	1203	42	2	2467	2	ADAMTS10	19	8661991	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	66777	8661991	50466992	7340	29691											
MBD3L1	85509	broad.mit.edu	37	chr19	8953661	8953661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtccctagttacacaggtGgatctctgctggaggatctt	7	14	11	9	0	2	0	0	0	2	0	4	3	3	3	1	4	2	2	1	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:8953661G>A	uc002mko.2	+	1	393	c.307G>A	c.(307-309)GGA>AGA	p.G103R		NM_145208	NP_660209	Q8WWY6	MB3L1_HUMAN	methyl-CpG binding domain protein 3-like	103	Transcription repressor.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						TTACACAGGTGGATCTCTGCT	0.537													10	81					0	0	1	0	0		A	8953661	A	A	8953661	3	1	27	1	0	0	0	0	1	0	0	0	9363	1349	47	4	309	4	MBD3L1	19	8953661	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	291670	8953661	50175322	7341	29692											
MUC16	94025	broad.mit.edu	37	chr19	8973596	8973596	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgtcatgtagttgactGcctttgtagagtgtggtgac	8	15	13	5	0	1	3	1	2	0	1	1	3	1	3	1	1	1	3	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:8973596G>A	uc002mkp.2	-	77	42924	c.42720C>T	c.(42718-42720)GGC>GGT	p.G14240G	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.G1040G|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTAGTTGACTGCCTTTGTAGA	0.443													3	17					0	0	1	0	0		A	8973596	A	A	8973596	2	1	27	1	0	0	0	0	0	0	0	1	9991	1306	46	2		2	MUC16	19	8973596	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19935	8973596	50155387	7342	29693											
MUC16	94025	broad.mit.edu	37	chr19	9003630	9003630	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcgacgcatgtcctccTcatactgcaggttagtgatg	8	10	12	11	2	1	1	1	1	0	0	3	2	3	1	2	2	2	3	2	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9003630T>G	uc002mkp.2	-	49	40214	c.40010A>C	c.(40009-40011)GAG>GCG	p.E13337A	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.E154A|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13339	Extracellular (Potential).|SEA 9.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CATGTCCTCCTCATACTGCAG	0.532													14	172					0	0	1	0	0		G	9003630	G	G	9003630	3	3	27	1	0	0	0	0	1	0	0	0	9991	1551	54	5	3657	5	MUC16	19	9003630	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	30034	9003630	50125353	7343	29694											
MUC16	94025	broad.mit.edu	37	chr19	9008180	9008180	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagccactcaccattgacGtagagactgttccggtccag	10	8	9	14	2	1	2	1	1	0	1	3	3	3	2	4	1	1	2	4	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9008180G>A	uc002mkp.2	-	41	39576	c.39372C>T	c.(39370-39372)TAC>TAT	p.Y13124Y	MUC16_uc010dwi.2_5'Flank|MUC16_uc010dwj.2_5'Flank|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13126	Extracellular (Potential).|SEA 7.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CACCATTGACGTAGAGACTGT	0.547													54	181					0	0	1	0	0		A	9008180	A	A	9008180	2	1	27	1	0	0	0	0	0	0	0	1	9991	1140	40	1		1	MUC16	19	9008180	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4550	9008180	50120803	7344	29695											
MUC16	94025	broad.mit.edu	37	chr19	9014204	9014204	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagaggtctgatgggtgaaaCctgcgtagagaaggagggag	12	6	18	5	1	1	4	0	2	1	2	1	7	1	6	1	4	2	1	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9014204C>A	uc002mkp.2	-	32	38648	c.38444G>T	c.(38443-38445)GGT>GTT	p.G12815V	MUC16_uc010xki.1_5'Flank	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12817	Extracellular (Potential).			Missing (in Ref. 3; AAK74120).	cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATGGGTGAAACCTGCGTAGAG	0.517													5	49					0.00116845	0.00121513	1	1	0		A	9014204	A	A	9014204	3	1	27	1	0	0	0	0	1	0	0	0	9991	521	18	5	5291	5	MUC16	19	9014204	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6024	9014204	50114779	7345	29696											
MUC16	94025	broad.mit.edu	37	chr19	9019996	9019996	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctcaccattgacatagAgactgttcctgtccagggtg	8	11	11	11	0	1	2	1	1	0	1	3	3	3	2	3	1	1	3	3	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9019996A>T	uc002mkp.2	-	21	37703	c.37499T>A	c.(37498-37500)CTC>CAC	p.L12500H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12502	Extracellular (Potential).|SEA 3.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATTGACATAGAGACTGTTCCT	0.522													12	217					0	0	1	0	0		T	9019996	T	T	9019996	3	4	27	1	0	0	0	0	1	0	0	0	9991	304	11	5	6280	5	MUC16	19	9019996	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	5792	9019996	50108987	7346	29697											
MUC16	94025	broad.mit.edu	37	chr19	9024831	9024831	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacagccactcaccattgAcatagagactgttcctgtcc	11	10	6	14	0	2	2	2	1	0	1	4	3	4	2	4	0	1	1	4	0	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9024831A>T	uc002mkp.2	-	16	37235	c.37031T>A	c.(37030-37032)GTC>GAC	p.V12344D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12346	Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTCACCATTGACATAGAGACT	0.517													10	160					0	0	1	0	0		T	9024831	T	T	9024831	3	4	27	1	0	0	0	0	1	0	0	0	9991	275	10	5	6768	5	MUC16	19	9024831	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4835	9024831	50104152	7347	29698											
MUC16	94025	broad.mit.edu	37	chr19	9046516	9046516	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctactatgggaaaaactggaGgttgttctggaaacaggtgt	12	11	13	5	0	1	0	0	0	1	0	1	3	1	3	0	5	3	2	0	5	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9046516G>A	uc002mkp.2	-	5	35319	c.35115C>T	c.(35113-35115)ACC>ACT	p.T11705T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11707	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AAAAACTGGAGGTTGTTCTGG	0.507													14	130					0	0	1	0	0		A	9046516	A	A	9046516	2	1	27	1	0	0	0	0	0	0	0	1	9991	987	35	4		4	MUC16	19	9046516	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	21685	9046516	50082467	7348	29699											
MUC16	94025	broad.mit.edu	37	chr19	9047431	9047431	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgaggttaccatatctggTacatcaggtgagacagttat	11	13	11	6	0	2	2	1	2	1	1	2	3	2	2	1	3	2	3	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9047431T>A	uc002mkp.2	-	5	34404	c.34200A>T	c.(34198-34200)GTA>GTT	p.V11400V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11402	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCATATCTGGTACATCAGGTG	0.458													10	136					0	0	1	0	0		A	9047431	A	A	9047431	2	1	27	1	0	0	0	0	0	0	0	1	9991	1625	57	5		5	MUC16	19	9047431	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	915	9047431	50081552	7349	29700											
MUC16	94025	broad.mit.edu	37	chr19	9068197	9068197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtgtccggtgacattgtggGcttttcagtgccttggatgg	4	14	16	7	1	1	1	1	1	0	0	2	2	2	2	2	5	1	1	2	5	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9068197G>A	uc002mkp.2	-	3	19453	c.19249C>T	c.(19249-19251)CCC>TCC	p.P6417S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6419	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GACATTGTGGGCTTTTCAGTG	0.493													9	131					0	0	1	0	0		A	9068197	A	A	9068197	3	1	27	1	0	0	0	0	1	0	0	0	9991	1203	42	2	24602	2	MUC16	19	9068197	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20766	9068197	50060786	7350	29701											
MUC16	94025	broad.mit.edu	37	chr19	9072001	9072001	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccatttgagttgtggcttTgggtgtctctgagtcagcca	7	14	12	8	0	2	2	1	2	1	0	3	2	2	2	2	2	2	2	2	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9072001T>C	uc002mkp.2	-	3	15649	c.15445A>G	c.(15445-15447)AAA>GAA	p.K5149E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5151	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTTGTGGCTTTGGGTGTCTCT	0.463													13	162					0	0	1	0	0		C	9072001	C	C	9072001	3	2	27	1	0	0	0	0	1	0	0	0	9991	1821	63	3	28406	3	MUC16	19	9072001	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3804	9072001	50056982	7351	29702											
MUC16	94025	broad.mit.edu	37	chr19	9076686	9076686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtccaggaatctgatgcaGctgtggaagaccaggtggaa	12	7	14	8	0	1	2	0	1	1	1	2	5	2	5	2	4	2	2	2	4	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9076686G>A	uc002mkp.2	-	3	10964	c.10760C>T	c.(10759-10761)GCT>GTT	p.A3587V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3588	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATCTGATGCAGCTGTGGAAGA	0.493													6	113					0	0	1	0	0		A	9076686	A	A	9076686	3	1	27	1	0	0	0	0	1	0	0	0	9991	971	34	2	33091	2	MUC16	19	9076686	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4685	9076686	50052297	7352	29703											
MUC16	94025	broad.mit.edu	37	chr19	9091505	9091505	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgacctggggactcagcgAtgggctggttctttgctcgg	5	12	15	9	2	2	1	1	1	1	0	3	3	2	2	1	5	2	3	1	5	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9091505A>G	uc002mkp.2	-	1	514	c.310T>C	c.(310-312)TCG>CCG	p.S104P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	104	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGACTCAGCGATGGGCTGGTT	0.542													10	142					0	0	1	0	0		G	9091505	G	G	9091505	3	3	27	1	0	0	0	0	1	0	0	0	9991	333	12	3	43549	3	MUC16	19	9091505	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14819	9091505	50037478	7353	29704											
MUC16	94025	broad.mit.edu	37	chr19	9091600	9091600	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagactgggtggttcttcccAcaaccgaagatgtaggactg	11	9	12	9	1	1	2	0	0	1	2	2	4	2	3	2	3	1	2	2	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9091600A>G	uc002mkp.2	-	1	419	c.215T>C	c.(214-216)GTG>GCG	p.V72A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	72	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTTCTTCCCACAACCGAAGA	0.517													22	88					0	0	1	0	0		G	9091600	G	G	9091600	3	3	27	1	0	0	0	0	1	0	0	0	9991	159	6	3	43644	3	MUC16	19	9091600	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	95	9091600	50037383	7354	29705											
OR1M1	125963	broad.mit.edu	37	chr19	9204164	9204164	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaacaccatccctaagatgCtggtgagccttcaaaccggg	11	7	9	14	1	1	2	1	1	0	1	2	2	2	2	5	2	4	1	5	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9204164C>A	uc010xkj.1	+	1	244	c.244C>A	c.(244-246)CTG>ATG	p.L82M		NM_001004456	NP_001004456	Q8NGA1	OR1M1_HUMAN	olfactory receptor, family 1, subfamily M,	82	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3						CCCTAAGATGCTGGTGAGCCT	0.522													5	47					5.9392e-07	6.46363e-07	1	1	0		A	9204164	A	A	9204164	3	1	27	1	0	0	0	0	1	0	0	0	10987	796	28	5	246	5	OR1M1	19	9204164	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	112564	9204164	49924819	7355	29706											
OR7D4	125958	broad.mit.edu	37	chr19	9325015	9325015	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtgcctgtggagaaggTcaacctcttcatcagtagaa	11	10	10	10	0	5	2	4	0	1	2	5	3	5	2	2	2	2	1	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9325015T>C	uc002mla.1	-	1	499	c.499A>G	c.(499-501)ACC>GCC	p.T167A		NM_001005191	NP_001005191	Q8NG98	OR7D4_HUMAN	olfactory receptor, family 7, subfamily D,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GTGGAGAAGGTCAACCTCTTC	0.498													6	74					0	0	1	0	0		C	9325015	C	C	9325015	3	2	27	1	0	0	0	0	1	0	0	0	11239	1667	58	3	443	3	OR7D4	19	9325015	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	120851	9325015	49803968	7356	29707											
ZNF560	147741	broad.mit.edu	37	chr19	9578698	9578698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actctgagttttcctgtgtgCttcaaggtatgactgataaa	10	15	9	7	0	2	3	1	3	1	0	3	3	3	3	1	1	1	3	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9578698C>T	uc002mlp.1	-	10	1135	c.925G>A	c.(925-927)GCA>ACA	p.A309T	ZNF560_uc010dwr.1_Missense_Mutation_p.A203T	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	309	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						TTCCTGTGTGCTTCAAGGTAT	0.403													12	109					0	0	1	0	0		T	9578698	T	T	9578698	3	4	27	1	0	0	0	0	1	0	0	0	18016	797	28	2	1451	2	ZNF560	19	9578698	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	253683	9578698	49550285	7357	29708											
ZNF121	7675	broad.mit.edu	37	chr19	9676744	9676744	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagatgtgaagaagcacggaAggttttcccacattccttac	12	11	9	9	1	0	3	0	1	0	2	2	4	2	4	2	2	2	2	2	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9676744A>C	uc010xkp.1	-	4	1277	c.1045T>G	c.(1045-1047)TTC>GTC	p.F349V	ZNF121_uc010dwt.2_Missense_Mutation_p.F349V|ZNF121_uc010xkq.1_Missense_Mutation_p.F349V	NM_001008727	NP_001008727	P58317	ZN121_HUMAN	zinc finger protein 121	349	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GAAGCACGGAAGGTTTTCCCA	0.383													10	44					0	0	1	0	0		C	9676744	C	C	9676744	3	2	27	1	0	0	0	0	1	0	0	0	17744	72	3	5	131	5	ZNF121	19	9676744	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	98046	9676744	49452239	7358	29709											
ZNF121	7675	broad.mit.edu	37	chr19	9677546	9677546	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatttgtctcctatccaCgttctctggtgaacatttgg	8	15	9	9	1	2	1	0	1	2	0	5	2	3	2	2	3	1	1	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9677546C>T	uc010xkp.1	-	4	475	c.243G>A	c.(241-243)ACG>ACA	p.T81T	ZNF121_uc010dwt.2_Silent_p.T81T|ZNF121_uc010xkq.1_Silent_p.T81T	NM_001008727	NP_001008727	P58317	ZN121_HUMAN	zinc finger protein 121	81					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTCCTATCCACGTTCTCTGGT	0.453													4	79					0	0	1	0	0		T	9677546	T	T	9677546	2	4	27	1	0	0	0	0	0	0	0	1	17744	523	19	1		1	ZNF121	19	9677546	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	802	9677546	49451437	7359	29710											
ZNF562	54811	broad.mit.edu	37	chr19	9764064	9764064	+	Missense_Mutation	SNP	G	A	A																															aggacttctctcctttatgaGtttttgcatgtgcagaaagt																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9764064G>A	uc010xks.1	-	6	1005	c.842C>T	c.(841-843)ACT>ATT	p.T281I	ZNF562_uc002mly.2_Missense_Mutation_p.T281I|ZNF562_uc002mlx.2_Missense_Mutation_p.T209I|ZNF562_uc010xkt.1_Missense_Mutation_p.T244I|ZNF562_uc010xku.1_Missense_Mutation_p.T212I|ZNF562_uc010xkv.1_Missense_Mutation_p.T280I|ZNF562_uc010xkw.1_Missense_Mutation_p.T165I	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	281	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCCTTTATGAGTTTTTGCATG	0.348													4	68					0	0	1	0	0		A	9764064	A	A	9764064	3	1	27	1	0	0	0	0	1	0	0	0	18018	1029	36	4	442	4	ZNF562	19	9764064	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	86518	9764064	49364919	7360	29711	60	2									
ZNF562	54811	broad.mit.edu	37	chr19	9764069	9764069	+	Silent	SNP	T	C	C																															ttctctcctttatgagttttTgcatgtgcagaaagttgaga																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9764069T>C	uc010xks.1	-	6	1000	c.837A>G	c.(835-837)GCA>GCG	p.A279A	ZNF562_uc002mly.2_Silent_p.A279A|ZNF562_uc002mlx.2_Silent_p.A207A|ZNF562_uc010xkt.1_Silent_p.A242A|ZNF562_uc010xku.1_Silent_p.A210A|ZNF562_uc010xkv.1_Silent_p.A278A|ZNF562_uc010xkw.1_Silent_p.A163A	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	279	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TATGAGTTTTTGCATGTGCAG	0.353													6	71					0	0	1	0	0		C	9764069	C	C	9764069	2	2	27	1	0	0	0	0	0	0	0	1	18018	1799	63	3		3	ZNF562	19	9764069	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	5	9764069	49364914	7361	29712	60	2									
ZNF846	162993	broad.mit.edu	37	chr19	9868340	9868340	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaggcttttctcctgtgtgCgttcgcatgtgcatattaag	7	16	10	8	2	1	0	0	0	1	0	3	0	1	0	1	1	2	4	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9868340C>T	uc002mmb.1	-	6	1944	c.1413G>A	c.(1411-1413)ACG>ACA	p.T471T	ZNF846_uc010xky.1_Intron|ZNF846_uc010xkz.1_Intron|ZNF846_uc010dww.2_Intron|ZNF846_uc002mmc.1_Silent_p.T342T	NM_001077624	NP_001071092	Q147U1	ZN846_HUMAN	zinc finger protein 846	471	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTCCTGTGTGCGTTCGCATGT	0.433													14	65					0	0	1	0	0		T	9868340	T	T	9868340	2	4	27	1	0	0	0	0	0	0	0	1	18217	755	27	1		1	ZNF846	19	9868340	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	104271	9868340	49260643	7362	29713											
FBXL12	54850	broad.mit.edu	37	chr19	9922090	9922090	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgcggtccagcacgatgcAttcaagcaggggcagcacgg	10	4	15	12	4	1	0	1	0	0	0	2	2	2	0	1	4	4	5	1	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:9922090A>G	uc002mme.2	-	3	705	c.463T>C	c.(463-465)TGC>CGC	p.C155R	FBXL12_uc002mmd.2_Missense_Mutation_p.C102R|FBXL12_uc002mmf.2_Missense_Mutation_p.C102R|FBXL12_uc002mmg.2_Missense_Mutation_p.C102R|FBXL12_uc002mmh.2_Missense_Mutation_p.C102R	NM_017703	NP_060173	Q9NXK8	FXL12_HUMAN	F-box and leucine-rich repeat protein 12	155							protein binding			lung(1)|kidney(1)	2						AGCACGATGCATTCAAGCAGG	0.677													4	71					0	0	1	0	0		G	9922090	G	G	9922090	3	3	27	1	0	0	0	0	1	0	0	0	5722	217	8	3	521	3	FBXL12	19	9922090	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	53750	9922090	49206893	7363	29714											
COL5A3	50509	broad.mit.edu	37	chr19	10108053	10108053	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagtctcttaccggtggAccagggtcgccagggaatcc	7	8	15	11	2	1	0	0	0	1	0	4	3	2	3	4	5	1	0	4	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:10108053A>C	uc002mmq.1	-	11	1343	c.1257T>G	c.(1255-1257)GGT>GGG	p.G419G		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	419	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			TTACCGGTGGACCAGGGTCGC	0.597													4	18					0	0	1	0	0		C	10108053	C	C	10108053	2	2	27	1	0	0	0	0	0	0	0	1	3701	262	10	5		5	COL5A3	19	10108053	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	185963	10108053	49020930	7364	29715											
DNMT1	1786	broad.mit.edu	37	chr19	10250789	10250789	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaattgaagcggttcatgcCgctgaagccctggcagggcg	8	7	15	11	4	1	2	1	2	0	0	1	3	1	2	2	3	3	3	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:10250789C>A	uc002mng.2	-	32	3871	c.3691G>T	c.(3691-3693)GGC>TGC	p.G1231C	DNMT1_uc002mne.2_RNA|DNMT1_uc002mnf.2_Missense_Mutation_p.G155C|DNMT1_uc010xlc.1_Missense_Mutation_p.G1247C|DNMT1_uc002mnh.2_Missense_Mutation_p.G1126C|DNMT1_uc010xld.1_Missense_Mutation_p.G1231C	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	1231	Catalytic.|Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	CGGTTCATGCCGCTGAAGCCC	0.622													5	63					5.9392e-07	6.46363e-07	1	1	0		A	10250789	A	A	10250789	3	1	27	1	0	0	0	0	1	0	0	0	4681	652	23	5	1195	5	DNMT1	19	10250789	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	142736	10250789	48878194	7365	29716											
RAVER1	125950	broad.mit.edu	37	chr19	10428998	10428998	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgagacagggggcccccGccactcccaccgctgctccg	7	4	12	18	3	0	1	0	1	0	1	2	2	2	1	6	2	1	2	6	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:10428998G>A	uc002moa.2	-	11	2027	c.1947C>T	c.(1945-1947)GGC>GGT	p.G649G	FDX1L_uc002mnx.1_5'Flank|FDX1L_uc002mny.1_5'Flank|RAVER1_uc002mnz.2_Silent_p.G17G	NM_133452	NP_597709	Q8IY67	RAVR1_HUMAN	RAVER1	478						cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.81e-09)|Epithelial(33;3.65e-06)|all cancers(31;8.35e-06)			GGGGGCCCCCGCCACTCCCAC	0.627													7	8					0	0	1	0	0		A	10428998	A	A	10428998	2	1	27	1	0	0	0	0	0	0	0	1	13119	1074	38	1		1	RAVER1	19	10428998	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	178209	10428998	48699985	7366	29717											
KEAP1	9817	broad.mit.edu	37	chr19	10610576	10610576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggtgcggttgccatgctggGagggcgtcacctccgccttg	4	9	16	12	3	1	0	1	0	0	0	2	1	2	1	4	4	3	2	4	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:10610576G>A	uc002moq.1	-	2	290	c.134C>T	c.(133-135)TCC>TTC	p.S45F	KEAP1_uc002mor.1_Missense_Mutation_p.S45F	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	45					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding	p.S45S(1)		lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			GCCATGCTGGGAGGGCGTCAC	0.637													12	101					0	0	1	0	0		A	10610576	A	A	10610576	3	1	27	1	0	0	0	0	1	0	0	0	8157	1174	41	4	1760	4	KEAP1	19	10610576	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	181578	10610576	48518407	7367	29718											
ATG4D	84971	broad.mit.edu	37	chr19	10662732	10662732	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccctgcagatgacttcctgCtgtacctggaccctcactac	7	10	7	17	0	1	2	1	1	0	1	2	3	2	3	5	1	4	3	5	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:10662732C>T	uc002mov.2	+	8	1177	c.1057C>T	c.(1057-1059)CTG>TTG	p.L353L	ATG4D_uc010xlh.1_Silent_p.L290L|ATG4D_uc010dxh.2_RNA|ATG4D_uc010dxi.2_RNA|ATG4D_uc010dxj.2_Silent_p.L20L|MIR1238_hsa-mir-1238|MI0006328_5'Flank	NM_032885	NP_116274	Q86TL0	ATG4D_HUMAN	APG4 autophagy 4 homolog D	353					autophagy|protein transport	cytoplasm	cysteine-type endopeptidase activity				0			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			TGACTTCCTGCTGTACCTGGA	0.423													6	59					0	0	1	0	0		T	10662732	T	T	10662732	2	4	27	1	0	0	0	0	0	0	0	1	1100	796	28	2		2	ATG4D	19	10662732	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	52156	10662732	48466251	7368	29719											
CARM1	10498	broad.mit.edu	37	chr19	11032313	11032313	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccggcgcccagggcagTggtggtggcagcacgagtgc	5	6	17	13	3	0	0	0	0	0	0	2	1	2	0	3	5	2	3	3	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:11032313T>C	uc002mpz.2	+	16	1833	c.1707T>C	c.(1705-1707)AGT>AGC	p.S569S	CARM1_uc010dxn.2_RNA|CARM1_uc002mqa.2_Silent_p.S329S	NM_199141	NP_954592	Q86X55	CARM1_HUMAN	coactivator-associated arginine	569	Transactivation domain (By similarity).				cellular lipid metabolic process|histone H3-R2 methylation|interspecies interaction between organisms|pathogenesis|positive regulation of fat cell differentiation|regulation of estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleoplasm	beta-catenin binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-R17 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein-arginine omega-N asymmetric methyltransferase activity|transcription regulatory region DNA binding				0						CCCAGGGCAGTGGTGGTGGCA	0.667													3	68					0	0	1	0	0		C	11032313	C	C	11032313	2	2	27	1	0	0	0	0	0	0	0	1	2658	1693	59	3		3	CARM1	19	11032313	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	369581	11032313	48096670	7369	29720											
SMARCA4	6597	broad.mit.edu	37	chr19	11106911	11106911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaagatgaggaggggtaccGcaagctcatcgaccagaaga	14	5	14	8	2	1	5	1	2	0	3	2	7	1	6	2	3	2	3	2	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:11106911G>A	uc002mqf.3	+	10	1900	c.1616G>A	c.(1615-1617)CGC>CAC	p.R539H	SMARCA4_uc010dxp.2_Missense_Mutation_p.R539H|SMARCA4_uc010dxo.2_Missense_Mutation_p.R539H|SMARCA4_uc002mqg.1_Missense_Mutation_p.R539H|SMARCA4_uc010dxq.2_Missense_Mutation_p.R539H|SMARCA4_uc010dxr.2_Missense_Mutation_p.R539H|SMARCA4_uc002mqj.3_Missense_Mutation_p.R539H|SMARCA4_uc010dxs.2_Missense_Mutation_p.R539H|SMARCA4_uc002mqe.2_Missense_Mutation_p.R539H	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	539					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GAGGGGTACCGCAAGCTCATC	0.562			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				5	131					0	0	1	0	0		A	11106911	A	A	11106911	3	1	27	1	0	0	0	0	1	0	0	0	14795	1087	38	1	1650	1	SMARCA4	19	11106911	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	74598	11106911	48022072	7370	29721											
SMARCA4	6597	broad.mit.edu	37	chr19	11113781	11113781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagtgggaagatcctcacagGcacagatgcccccaaagccg	12	4	12	13	1	1	2	1	0	0	2	2	4	2	3	4	2	2	1	4	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:11113781G>A	uc002mqf.3	+	12	2173	c.1889G>A	c.(1888-1890)GGC>GAC	p.G630D	SMARCA4_uc010dxp.2_Missense_Mutation_p.G630D|SMARCA4_uc010dxo.2_Missense_Mutation_p.G630D|SMARCA4_uc002mqg.1_Missense_Mutation_p.G630D|SMARCA4_uc010dxq.2_Missense_Mutation_p.G630D|SMARCA4_uc010dxr.2_Missense_Mutation_p.G630D|SMARCA4_uc002mqj.3_Missense_Mutation_p.G630D|SMARCA4_uc010dxs.2_Missense_Mutation_p.G630D	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	630					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				ATCCTCACAGGCACAGATGCC	0.597			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				9	79					0	0	1	0	0		A	11113781	A	A	11113781	3	1	27	1	0	0	0	0	1	0	0	0	14795	1203	42	2	1931	2	SMARCA4	19	11113781	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6870	11113781	48015202	7371	29722											
SMARCA4	6597	broad.mit.edu	37	chr19	11121158	11121158	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgctgtcactgagagagTggacaagcagtcagcgctta	11	8	12	10	1	2	2	2	1	0	1	2	4	2	3	1	1	3	3	1	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:11121158T>C	uc002mqf.3	+	15	2509	c.2225T>C	c.(2224-2226)GTG>GCG	p.V742A	SMARCA4_uc010dxp.2_Missense_Mutation_p.V742A|SMARCA4_uc010dxo.2_Missense_Mutation_p.V742A|SMARCA4_uc002mqg.1_Missense_Mutation_p.V742A|SMARCA4_uc010dxq.2_Missense_Mutation_p.V742A|SMARCA4_uc010dxr.2_Missense_Mutation_p.V742A|SMARCA4_uc002mqj.3_Missense_Mutation_p.V742A|SMARCA4_uc010dxs.2_Missense_Mutation_p.V742A|SMARCA4_uc010dxt.1_5'Flank	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	742					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				ACTGAGAGAGTGGACAAGCAG	0.582			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				10	98					0	0	1	0	0		C	11121158	C	C	11121158	3	2	27	1	0	0	0	0	1	0	0	0	14795	1696	59	3	2279	3	SMARCA4	19	11121158	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7377	11121158	48007825	7372	29723											
SMARCA4	6597	broad.mit.edu	37	chr19	11135038	11135038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcaagtgcgacatgtctgCgctgcagcgagtgctctacc	8	9	11	13	3	3	0	1	0	2	0	3	2	3	0	1	0	6	3	1	0	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:11135038C>T	uc002mqf.3	+	21	3289	c.3005C>T	c.(3004-3006)GCG>GTG	p.A1002V	SMARCA4_uc010dxp.2_Missense_Mutation_p.A1002V|SMARCA4_uc010dxo.2_Missense_Mutation_p.A1002V|SMARCA4_uc002mqg.1_Missense_Mutation_p.A1002V|SMARCA4_uc010dxq.2_Missense_Mutation_p.A1002V|SMARCA4_uc010dxr.2_Missense_Mutation_p.A1002V|SMARCA4_uc002mqj.3_Missense_Mutation_p.A1002V|SMARCA4_uc010dxs.2_Missense_Mutation_p.A1002V|SMARCA4_uc010dxt.1_Missense_Mutation_p.A222V|SMARCA4_uc002mqh.3_Missense_Mutation_p.A125V|SMARCA4_uc002mqi.1_Missense_Mutation_p.A205V	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	1002					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GACATGTCTGCGCTGCAGCGA	0.622			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				8	40					0	0	1	0	0		T	11135038	T	T	11135038	3	4	27	1	0	0	0	0	1	0	0	0	14795	768	27	1	3083	1	SMARCA4	19	11135038	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13880	11135038	47993945	7373	29724											
DOCK6	57572	broad.mit.edu	37	chr19	11311643	11311643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgtagcatcttagcatctGgtgggtcctgctcggtggca	5	13	13	10	1	3	0	0	0	3	0	5	0	4	0	1	4	3	5	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:11311643G>A	uc002mqs.3	-	45	5815	c.5774C>T	c.(5773-5775)CCA>CTA	p.P1925L	DOCK6_uc002mqr.3_Missense_Mutation_p.P325L|DOCK6_uc010xlq.1_Missense_Mutation_p.P1264L	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1925	DHR-2.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CTTAGCATCTGGTGGGTCCTG	0.632													7	50					0	0	1	0	0		A	11311643	A	A	11311643	3	1	27	1	0	0	0	0	1	0	0	0	4697	1348	47	4	385	4	DOCK6	19	11311643	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	176605	11311643	47817340	7374	29725											
LPPR2	64748	broad.mit.edu	37	chr19	11473321	11473321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgaaaccactggtcggacGtgctggctggcttcctgaca	8	8	12	13	3	0	1	0	1	0	0	2	3	1	2	3	4	2	3	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:11473321G>A	uc002mre.1	+	7	1133	c.796G>A	c.(796-798)GTG>ATG	p.V266M	LPPR2_uc002mrf.1_Missense_Mutation_p.V241M|LPPR2_uc010dxy.1_Missense_Mutation_p.V73M	NM_022737	NP_073574	Q96GM1	LPPR2_HUMAN	lipid phosphate phosphatase-related protein type	266	Helical; (Potential).					integral to membrane	phosphatidate phosphatase activity			large_intestine(1)	1						CTGGTCGGACGTGCTGGCTGG	0.652													8	43					0	0	1	0	0		A	11473321	A	A	11473321	3	1	27	1	0	0	0	0	1	0	0	0	8943	1145	40	1	814	1	LPPR2	19	11473321	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	161678	11473321	47655662	7375	29726											
ZNF823	55552	broad.mit.edu	37	chr19	11832634	11832634	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtgtgagttttttcatgtCctcgaaggaaacgggaacga	11	11	12	7	3	1	1	1	1	0	0	3	5	2	3	1	2	2	1	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:11832634C>A	uc002msm.2	-	4	1841	c.1715G>T	c.(1714-1716)GGA>GTA	p.G572V	ZNF823_uc010xmd.1_Missense_Mutation_p.G390V|ZNF823_uc010dyi.1_Missense_Mutation_p.G528V	NM_001080493	NP_001073962	P16415	ZN823_HUMAN	ZFP-36 for a zinc finger protein	572	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TTTTTCATGTCCTCGAAGGAA	0.433										HNSCC(68;0.2)			7	72					0.00307968	0.00318367	1	1	0		A	11832634	A	A	11832634	3	1	27	1	0	0	0	0	1	0	0	0	18204	855	30	5	121	5	ZNF823	19	11832634	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	359313	11832634	47296349	7376	29727											
ZNF441	126068	broad.mit.edu	37	chr19	11891793	11891793	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtcgaaggcatgaaacaaCtcatactggggagaaaccct	15	7	10	9	1	1	2	1	1	0	1	2	4	1	2	1	3	4	1	1	3	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:11891793C>G	uc010dyj.2	+	4	1348	c.1154C>G	c.(1153-1155)ACT>AGT	p.T385S	ZNF441_uc002msn.3_Missense_Mutation_p.T341S	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	385	C2H2-type 8.			T -> A (in Ref. 1; BAC04661).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CATGAAACAACTCATACTGGG	0.418													7	78					0	0	1	0	0		G	11891793	G	G	11891793	3	3	27	1	0	0	0	0	1	0	0	0	17939	565	20	5	1168	5	ZNF441	19	11891793	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	59159	11891793	47237190	7377	29728											
ZNF700	90592	broad.mit.edu	37	chr19	12059503	12059503	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcacagtggggatggaactTataaatgtaaattttgtggg	12	13	13	3	0	0	0	0	0	0	0	0	2	0	2	0	4	2	2	0	4	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12059503T>C	uc002msu.2	+	4	790	c.664T>C	c.(664-666)TAT>CAT	p.Y222H	ZNF700_uc010xme.1_Missense_Mutation_p.Y240H|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	222	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGATGGAACTTATAAATGTAA	0.368													7	76					0	0	1	0	0		C	12059503	C	C	12059503	3	2	27	1	0	0	0	0	1	0	0	0	18129	1754	61	3	678	3	ZNF700	19	12059503	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	167710	12059503	47069480	7378	29729											
ZNF700	90592	broad.mit.edu	37	chr19	12060238	12060238	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcgagtgcatggtaggActcatactggagagaaaccc	12	8	11	10	1	1	1	1	0	0	1	2	5	1	3	2	3	3	2	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12060238A>G	uc002msu.2	+	4	1525	c.1399A>G	c.(1399-1401)ACT>GCT	p.T467A	ZNF700_uc010xme.1_Missense_Mutation_p.T485A|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	467	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCATGGTAGGACTCATACTGG	0.448													6	47					0	0	1	0	0		G	12060238	G	G	12060238	3	3	27	1	0	0	0	0	1	0	0	0	18129	275	10	3	1413	3	ZNF700	19	12060238	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	735	12060238	47068745	7379	29730											
ZNF700	90592	broad.mit.edu	37	chr19	12060550	12060550	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagtgtaagcaatgtgggAaagccttcagatctgcctca	12	10	11	8	0	3	2	2	1	1	1	3	3	3	3	2	1	3	2	2	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12060550A>G	uc002msu.2	+	4	1837	c.1711A>G	c.(1711-1713)AAA>GAA	p.K571E	ZNF700_uc010xme.1_Missense_Mutation_p.K589E|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	571	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCAATGTGGGAAAGCCTTCAG	0.458													6	74					0	0	1	0	0		G	12060550	G	G	12060550	3	3	27	1	0	0	0	0	1	0	0	0	18129	247	9	3	1725	3	ZNF700	19	12060550	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	312	12060550	47068433	7380	29731											
ZNF700	90592	broad.mit.edu	37	chr19	12060661	12060661	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagttgtgcctcaaaccttCgaaagcatggtaggactcac	11	10	9	11	1	3	0	3	0	0	0	4	2	3	1	2	2	3	3	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12060661C>T	uc002msu.2	+	4	1948	c.1822C>T	c.(1822-1824)CGA>TGA	p.R608*	ZNF700_uc010xme.1_Nonsense_Mutation_p.R626*|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	608	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTCAAACCTTCGAAAGCATGG	0.473													6	70					0	0	1	0	0		T	12060661	T	T	12060661	4	4	27	1	0	0	0	0	0	1	0	0	18129	876	31	1	1836	1	ZNF700	19	12060661	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	111	12060661	47068322	7381	29732											
ZNF763	284390	broad.mit.edu	37	chr19	12087930	12087930	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggatatttcgcagaggaaActctacagggaagtgatgct	12	10	12	7	1	1	2	0	1	1	1	2	5	1	5	0	3	3	2	0	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12087930A>C	uc002msw.2	+	2	236	c.81A>C	c.(79-81)AAA>AAC	p.K27N	ZNF763_uc010xmf.1_Missense_Mutation_p.K47N|ZNF763_uc002msv.2_Missense_Mutation_p.K30N|ZNF763_uc010xmg.1_Intron	NM_001012753	NP_001012771	Q0D2J5	ZN763_HUMAN	zinc finger protein 763	27	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						CGCAGAGGAAACTCTACAGGG	0.473													16	157					0	0	1	0	0		C	12087930	C	C	12087930	3	2	27	1	0	0	0	0	1	0	0	0	18162	40	2	5	96	5	ZNF763	19	12087930	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	27269	12087930	47041053	7382	29733											
ZNF433	163059	broad.mit.edu	37	chr19	12126679	12126679	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacattcatagggtttttTcctagagtgggttctttcat	7	20	8	6	0	3	1	2	0	1	1	4	1	4	1	1	2	1	2	1	2	3	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12126679T>C	uc002msy.1	-	4	1174	c.1003A>G	c.(1003-1005)AAA>GAA	p.K335E	uc002msx.1_Intron|ZNF433_uc002msz.1_Missense_Mutation_p.K300E	NM_001080411	NP_001073880	Q8N7K0	ZN433_HUMAN	zinc finger protein 433	335					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TAGGGTTTTTTCCTAGAGTGG	0.403													8	47					0	0	1	0	0		C	12126679	C	C	12126679	3	2	27	1	0	0	0	0	1	0	0	0	17932	1792	62	3	1022	3	ZNF433	19	12126679	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	38749	12126679	47002304	7383	29734											
ZNF433	163059	broad.mit.edu	37	chr19	12129088	12129088	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgaaggtcacagccacaTcctcaaaggccactgaatcc	12	6	10	13	0	2	2	2	2	0	0	4	2	4	2	4	3	1	0	4	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12129088T>C	uc002msy.1	-	2	203	c.32A>G	c.(31-33)GAT>GGT	p.D11G	uc002msx.1_Intron|ZNF433_uc002msz.1_5'UTR	NM_001080411	NP_001073880	Q8N7K0	ZN433_HUMAN	zinc finger protein 433	11	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACAGCCACATCCTCAAAGGC	0.473													9	68					0	0	1	0	0		C	12129088	C	C	12129088	3	2	27	1	0	0	0	0	1	0	0	0	17932	1435	50	3	2001	3	ZNF433	19	12129088	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2409	12129088	46999895	7384	29735											
ZNF20	7568	broad.mit.edu	37	chr19	12244607	12244607	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattcctgatactcagatgActtgtgtccagtgtcagctc	9	14	8	10	0	2	3	2	2	0	1	5	3	4	3	2	0	2	1	2	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12244607A>T	uc002mtf.1	-	4	537	c.394T>A	c.(394-396)TCA>ACA	p.S132T	ZNF20_uc002mte.1_Missense_Mutation_p.S97T|ZNF20_uc002mtg.1_Missense_Mutation_p.S132T	NM_021143	NP_066966	P17024	ZNF20_HUMAN	zinc finger protein 20	132					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TACTCAGATGACTTGTGTCCA	0.403													22	289					0	0	1	0	0		T	12244607	T	T	12244607	3	4	27	1	0	0	0	0	1	0	0	0	17786	275	10	5	1208	5	ZNF20	19	12244607	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	115519	12244607	46884376	7385	29736											
ZNF563	147837	broad.mit.edu	37	chr19	12430623	12430623	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactactgtctttactttcActgaatctctctaccatatg	9	17	4	11	0	4	2	1	2	3	0	5	2	4	2	1	0	3	0	1	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12430623A>G	uc002mtp.2	-	4	454	c.216T>C	c.(214-216)AGT>AGC	p.S72S	ZNF563_uc002mtq.2_Silent_p.S72S	NM_145276	NP_660319	Q8TA94	ZN563_HUMAN	zinc finger protein 563	72	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTTACTTTCACTGAATCTCT	0.333													7	102					0	0	1	0	0		G	12430623	G	G	12430623	2	3	27	1	0	0	0	0	0	0	0	1	18019	156	6	3		3	ZNF563	19	12430623	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	186016	12430623	46698360	7386	29737											
ZNF442	79973	broad.mit.edu	37	chr19	12461945	12461945	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acattgtttatgtgtatgtgGcttctctccatattcctgac	7	18	7	9	0	1	1	0	1	1	0	4	1	3	1	2	1	0	3	2	1	3	7	rs10414971	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12461945G>A	uc002mtr.1	-	6	1065	c.454C>T	c.(454-456)CCA>TCA	p.P152S	ZNF442_uc010xmk.1_Missense_Mutation_p.P83S	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	152					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	p.P152S(1)		large_intestine(2)|breast(1)|kidney(1)	4						TGTGTATGTGGCTTCTCTCCA	0.413													15	116					0	0	1	0	0		A	12461945	A	A	12461945	3	1	27	1	0	0	0	0	1	0	0	0	17940	1203	42	2	1433	2	ZNF442	19	12461945	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31322	12461945	46667038	7387	29738											
ZNF799	90576	broad.mit.edu	37	chr19	12491527	12491527	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggaagtggaagcactgaaGgctttcccacattgtttaca	12	10	11	8	0	0	1	0	1	0	0	1	3	1	3	1	3	2	3	1	3	4	4	rs113611242		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12491527G>T	uc002mts.3	-	4	1015	c.549C>A	c.(547-549)GCC>GCA	p.A183A				Q96GE5	ZN799_HUMAN	Homo sapiens cDNA clone IMAGE:30340957, **** WARNING: chimeric clone ****.	289	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						AAGCACTGAAGGCTTTCCCAC	0.428													7	53					0.00198382	0.00205548	1	1	0		T	12491527	T	T	12491527	2	4	27	1	0	0	0	0	0	0	0	1	18191	1015	35	5		5	ZNF799	19	12491527	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	29582	12491527	46637456	7388	29739											
ZNF799	90576	broad.mit.edu	37	chr19	12502889	12502889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccatgatgacttctccaCtcatacggctttcatatgga	10	12	7	12	1	3	2	2	2	1	0	4	4	3	3	2	2	1	1	2	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12502889C>T	uc010dyt.2	-	4	473	c.323G>A	c.(322-324)AGT>AAT	p.S108N	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						GACTTCTCCACTCATACGGCT	0.423													8	102					0	0	1	0	0		T	12502889	T	T	12502889	3	4	27	1	0	0	0	0	1	0	0	0	18191	565	20	4	1612	4	ZNF799	19	12502889	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11362	12502889	46626094	7389	29740											
ZNF490	57474	broad.mit.edu	37	chr19	12692186	12692186	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatatggtttcgaaaggaaaAgagaaatgcgaaggctttgc	15	10	12	4	2	0	1	0	0	0	1	1	5	0	2	0	3	2	2	0	3	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12692186A>C	uc002mtz.2	-	5	832	c.703T>G	c.(703-705)TTT>GTT	p.F235V		NM_020714	NP_065765	Q9ULM2	ZN490_HUMAN	zinc finger protein 490	235	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGAAAGGAAAAGAGAAATGCG	0.438													4	70					0	0	1	0	0		C	12692186	C	C	12692186	3	2	27	1	0	0	0	0	1	0	0	0	17966	72	3	5	890	5	ZNF490	19	12692186	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	189297	12692186	46436797	7390	29741											
ASNA1	439	broad.mit.edu	37	chr19	12856292	12856292	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgatgcaggaggccatgagCgcatttcccggcatcgatga	10	8	13	10	3	0	3	0	3	0	0	2	5	1	4	2	3	2	3	2	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12856292C>T	uc002muv.2	+	3	425	c.411C>T	c.(409-411)AGC>AGT	p.S137S	ASNA1_uc002muw.2_Silent_p.S136S	NM_004317	NP_004308	O43681	ASNA_HUMAN	arsA arsenite transporter, ATP-binding, homolog	137					response to arsenic-containing substance	endoplasmic reticulum|nucleolus|soluble fraction	arsenite-transporting ATPase activity|ATP binding|metal ion binding			ovary(2)	2					Adenosine triphosphate(DB00171)	AGGCCATGAGCGCATTTCCCG	0.627													6	68					0	0	1	0	0		T	12856292	T	T	12856292	2	4	27	1	0	0	0	0	0	0	0	1	1048	767	27	1		1	ASNA1	19	12856292	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	164106	12856292	46272691	7391	29742											
RNASEH2A	10535	broad.mit.edu	37	chr19	12918104	12918104	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcggctgggcgctggatgTgctgtctccaaacctcatct	5	12	12	12	2	3	0	1	0	2	0	5	1	3	1	2	3	2	3	2	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12918104T>C	uc002mvg.1	+	3	344	c.284T>C	c.(283-285)GTG>GCG	p.V95A	RNASEH2A_uc002mvf.1_Missense_Mutation_p.V13A	NM_006397	NP_006388	O75792	RNH2A_HUMAN	ribonuclease H2, large subunit	95					DNA replication|RNA catabolic process	nucleus|ribonuclease H2 complex	metal ion binding|ribonuclease H activity|RNA binding			breast(2)|central_nervous_system(1)	3						GCGCTGGATGTGCTGTCTCCA	0.582													16	176					0	0	1	0	0		C	12918104	C	C	12918104	3	2	27	1	0	0	0	0	1	0	0	0	13437	1696	59	3	294	3	RNASEH2A	19	12918104	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	61812	12918104	46210879	7392	29743											
MAST1	22983	broad.mit.edu	37	chr19	12984255	12984255	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgatagtctcccgggctcGcctacgcacgggctgccggc	5	6	14	16	6	1	0	0	0	1	0	3	1	1	0	3	3	3	3	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:12984255G>A	uc002mvm.2	+	25	3509	c.3381G>A	c.(3379-3381)TCG>TCA	p.S1127S		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1127					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						TCCCGGGCTCGCCTACGCACG	0.657													16	35					0	0	1	0	0		A	12984255	A	A	12984255	2	1	27	1	0	0	0	0	0	0	0	1	9342	1074	38	1		1	MAST1	19	12984255	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	66151	12984255	46144728	7393	29744											
GCDH	2639	broad.mit.edu	37	chr19	13006890	13006890	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggagaccagagcccactAcaactcatccaacaagagct	15	5	7	14	0	1	3	1	0	0	3	2	4	2	3	3	1	5	1	3	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:13006890A>G	uc002mvq.2	+	7	667	c.590A>G	c.(589-591)TAC>TGC	p.Y197C	GCDH_uc010xms.1_Missense_Mutation_p.Y164C|GCDH_uc002mvp.2_Missense_Mutation_p.Y197C|GCDH_uc010xmt.1_Missense_Mutation_p.T43A|GCDH_uc010xmu.1_Missense_Mutation_p.Y153C	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a	197					lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						AGAGCCCACTACAACTCATCC	0.602													7	95					0	0	1	0	0		G	13006890	G	G	13006890	3	3	27	1	0	0	0	0	1	0	0	0	6302	391	14	3	612	3	GCDH	19	13006890	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	22635	13006890	46122093	7394	29745											
CALR	811	broad.mit.edu	37	chr19	13050442	13050442	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcagaatacaacatcatgTttggtgagggcctgcttcct	10	12	9	10	0	2	2	2	1	0	1	3	2	3	2	2	2	3	2	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:13050442T>C	uc002mvu.2	+	3	474	c.394T>C	c.(394-396)TTT>CTT	p.F132L		NM_004343	NP_004334	P27797	CALR_HUMAN	calreticulin precursor	132	N-domain.				cell cycle arrest|cellular senescence|glucocorticoid receptor signaling pathway|negative regulation of neuron differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of steroid hormone receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of translation|peptide antigen assembly with MHC class I protein complex|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of phagocytosis|post-translational protein modification|protein export from nucleus|protein maturation by protein folding|protein N-linked glycosylation via asparagine|protein stabilization|regulation of apoptosis|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|extracellular space|MHC class I peptide loading complex|nucleus|perinuclear region of cytoplasm|polysome|proteinaceous extracellular matrix	androgen receptor binding|calcium ion binding|chaperone binding|complement component C1q binding|DNA binding|integrin binding|mRNA binding|protein binding involved in protein folding|sugar binding|ubiquitin protein ligase binding|unfolded protein binding|zinc ion binding			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAACATCATGTTTGGTGAGGG	0.473													6	155					0	0	1	0	0		C	13050442	C	C	13050442	3	2	27	1	0	0	0	0	1	0	0	0	2595	1725	60	3	404	3	CALR	19	13050442	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	43552	13050442	46078541	7395	29746											
TRMT1	55621	broad.mit.edu	37	chr19	13226211	13226211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaccacagatctgagcccagGcacctctagggcaaatcgaa	14	5	9	13	1	2	2	0	1	2	1	3	3	2	2	3	2	2	2	3	2	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:13226211G>A	uc002mwj.2	-	4	773	c.523C>T	c.(523-525)CCT>TCT	p.P175S	NACC1_uc002mwm.2_5'Flank|TRMT1_uc002mwk.2_Missense_Mutation_p.P175S|TRMT1_uc002mwl.3_Missense_Mutation_p.P175S|TRMT1_uc010xmz.1_5'UTR	NM_017722	NP_060192	Q9NXH9	TRM1_HUMAN	tRNA methyltransferase 1 isoform 1	175							RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.08e-22)	GBM - Glioblastoma multiforme(1328;0.0356)		CTGAGCCCAGGCACCTCTAGG	0.577													5	43					0	0	1	0	0		A	13226211	A	A	13226211	3	1	27	1	0	0	0	0	1	0	0	0	16587	1203	42	2	1508	2	TRMT1	19	13226211	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	175769	13226211	45902772	7396	29747											
STX10	8677	broad.mit.edu	37	chr19	13255675	13255675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagctgttgatcctgttcatCcatgatcagctgcagagcga	9	11	10	11	1	2	3	2	2	0	1	4	4	4	3	2	0	4	5	2	0	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:13255675C>T	uc010xnb.1	-	6	481	c.481G>A	c.(481-483)GAT>AAT	p.D161N	STX10_uc002mwn.2_Missense_Mutation_p.D60N|STX10_uc002mwo.2_Missense_Mutation_p.D60N|STX10_uc010xna.1_RNA|STX10_uc010xnc.1_Missense_Mutation_p.D62N	NM_003765	NP_003756	O60499	STX10_HUMAN	syntaxin 10	161	t-SNARE coiled-coil homology.|Cytoplasmic (Potential).				Golgi vesicle transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane	SNAP receptor activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.41e-21)			TCCTGTTCATCCATGATCAGC	0.438													3	15					0	0	1	0	0		T	13255675	T	T	13255675	3	4	27	1	0	0	0	0	1	0	0	0	15361	855	30	4	279	4	STX10	19	13255675	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	29464	13255675	45873308	7397	29748											
STX10	8677	broad.mit.edu	37	chr19	13256151	13256151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgagatgtggccgagactGcgctggcatccagcaggtcg	8	6	16	11	4	0	2	0	0	0	2	2	4	1	2	2	3	3	3	2	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:13256151G>A	uc010xnb.1	-	5	422	c.422C>T	c.(421-423)GCA>GTA	p.A141V	STX10_uc002mwn.2_Missense_Mutation_p.A40V|STX10_uc002mwo.2_Missense_Mutation_p.A40V|STX10_uc010xna.1_RNA|STX10_uc010xnc.1_Missense_Mutation_p.A42V	NM_003765	NP_003756	O60499	STX10_HUMAN	syntaxin 10	141	Cytoplasmic (Potential).				Golgi vesicle transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane	SNAP receptor activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.41e-21)			GGCCGAGACTGCGCTGGCATC	0.622													5	38					0	0	1	0	0		A	13256151	A	A	13256151	3	1	27	1	0	0	0	0	1	0	0	0	15361	1319	46	2	342	2	STX10	19	13256151	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	476	13256151	45872832	7398	29749											
CACNA1A	773	broad.mit.edu	37	chr19	13386759	13386759	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgatgcaggacgagcccCaggtcaatcatctgtggggg	8	7	14	12	1	3	1	2	1	1	0	3	3	3	2	3	4	2	1	3	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:13386759C>A	uc010dze.2	-	24	4133	c.3897G>T	c.(3895-3897)CTG>CTT	p.L1299L	CACNA1A_uc010xnd.1_Silent_p.L4L|CACNA1A_uc002mwx.3_Silent_p.L4L|CACNA1A_uc010dzc.2_Silent_p.L824L|CACNA1A_uc002mwy.3_Silent_p.L1298L|CACNA1A_uc010xne.1_Silent_p.L827L	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1299	III.|Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	GGACGAGCCCCAGGTCAATCA	0.597													6	24					0.00116845	0.00121513	1	1	0		A	13386759	A	A	13386759	2	1	27	1	0	0	0	0	0	0	0	1	2541	581	21	5		5	CACNA1A	19	13386759	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	130608	13386759	45742224	7399	29750											
CC2D1A	54862	broad.mit.edu	37	chr19	14031712	14031712	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctggaggcctcgcgcaatGggctgcctgtggacatcacc	6	8	14	13	2	1	0	1	0	0	0	2	2	1	2	3	4	2	3	3	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:14031712G>T	uc002mxo.2	+	14	1917	c.1618G>T	c.(1618-1620)GGG>TGG	p.G540W	CC2D1A_uc002mxp.2_Missense_Mutation_p.G540W|CC2D1A_uc010dzh.2_Missense_Mutation_p.G109W|CC2D1A_uc002mxq.1_Missense_Mutation_p.G185W	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	540					positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			CTCGCGCAATGGGCTGCCTGT	0.617													4	65					3.59834e-05	3.83694e-05	1	1	0		T	14031712	T	T	14031712	3	4	27	1	0	0	0	0	1	0	0	0	2729	1348	47	5	1672	5	CC2D1A	19	14031712	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	644953	14031712	45097271	7400	29751											
CC2D1A	54862	broad.mit.edu	37	chr19	14040966	14040966	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcaacgatggcagcaGggtgagctggtcgcgggccg	6	5	19	11	4	0	1	0	1	0	0	1	2	0	1	2	5	3	4	2	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:14040966G>T	uc002mxo.2	+	27	3085	c.2786G>T	c.(2785-2787)AGG>ATG	p.R929M	CC2D1A_uc002mxp.2_Missense_Mutation_p.R928M|CC2D1A_uc010dzh.2_Missense_Mutation_p.R498M	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	929					positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			GATGGCAGCAGGGTGAGCTGG	0.677													6	62					0.00198382	0.00205548	1	1	0		T	14040966	T	T	14040966	3	4	27	1	0	0	0	0	1	0	0	0	2729	1014	35	5	2892	5	CC2D1A	19	14040966	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9254	14040966	45088017	7401	29752											
DCAF15	90379	broad.mit.edu	37	chr19	14067214	14067214	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcatgctgcacaccaagTaccaggtggtctaccccttc	8	10	8	15	0	2	0	1	0	1	0	3	0	2	0	4	2	4	4	4	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:14067214T>C	uc002mxt.2	+	6	670	c.664T>C	c.(664-666)TAC>CAC	p.Y222H		NM_138353	NP_612362	Q66K64	DCA15_HUMAN	DDB1 and CUL4 associated factor 15	222										central_nervous_system(1)	1						GCACACCAAGTACCAGGTGGT	0.627													6	115					0	0	1	0	0		C	14067214	C	C	14067214	3	2	27	1	0	0	0	0	1	0	0	0	4270	1638	57	3	686	3	DCAF15	19	14067214	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	26248	14067214	45061769	7402	29753											
RFX1	5989	broad.mit.edu	37	chr19	14104630	14104630	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggtggcggggctgcctgtAgctcagtatacgcctgtgtt	5	12	15	9	2	1	0	1	0	0	0	1	0	1	0	2	4	3	5	2	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:14104630A>G	uc002mxv.2	-	2	298	c.26T>C	c.(25-27)CTA>CCA	p.L9P	RFX1_uc010dzi.2_Missense_Mutation_p.L9P	NM_002918	NP_002909	P22670	RFX1_HUMAN	regulatory factor X1	9					immune response	nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			lung(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			ggctgCCTGTAGCTCAGTATA	0.219													3	56					0	0	1	0	0		G	14104630	G	G	14104630	3	3	27	1	0	0	0	0	1	0	0	0	13287	420	15	3	2993	3	RFX1	19	14104630	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37416	14104630	45024353	7403	29754											
PRKACA	5566	broad.mit.edu	37	chr19	14208462	14208462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagtgcggcccttcacgcGcttggcgaaaccgaagtctg	8	7	12	14	5	2	0	1	0	1	0	2	2	2	0	3	2	2	1	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:14208462G>A	uc002myc.2	-	7	771	c.571C>T	c.(571-573)CGC>TGC	p.R191C	PRKACA_uc002myb.2_Missense_Mutation_p.R183C|PRKACA_uc010xnm.1_Missense_Mutation_p.R133C|PRKACA_uc002myd.2_Missense_Mutation_p.R133C	NM_002730	NP_002721	P17612	KAPCA_HUMAN	cAMP-dependent protein kinase catalytic subunit	191	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|regulation of insulin secretion|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|cAMP-dependent protein kinase inhibitor activity|protein kinase binding			lung(1)	1						CCCTTCACGCGCTTGGCGAAA	0.652													12	57					0	0	1	0	0		A	14208462	A	A	14208462	3	1	27	1	0	0	0	0	1	0	0	0	12519	1087	38	1	500	1	PRKACA	19	14208462	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	103832	14208462	44920521	7404	29755											
LPHN1	22859	broad.mit.edu	37	chr19	14266222	14266222	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaagaccccctggaaggcGttgaaggtggtgaagagata	13	7	15	6	1	0	5	0	3	0	2	0	7	0	6	2	4	0	1	2	4	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:14266222G>A	uc010xnn.1	-	19	3554	c.3258C>T	c.(3256-3258)AAC>AAT	p.N1086N	LPHN1_uc010xno.1_Silent_p.N1081N|uc002myf.2_RNA	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	1086	Helical; Name=7; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						CCTGGAAGGCGTTGAAGGTGG	0.587													5	106					0	0	1	0	0		A	14266222	A	A	14266222	2	1	27	1	0	0	0	0	0	0	0	1	8933	1136	40	1		1	LPHN1	19	14266222	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	57760	14266222	44862761	7405	29756											
LPHN1	22859	broad.mit.edu	37	chr19	14266323	14266323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggaacagcagcgcgatggCccccagcgcccaggatctgg	9	3	14	15	3	1	0	0	0	1	0	1	3	1	2	3	4	4	1	3	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:14266323C>T	uc010xnn.1	-	19	3453	c.3157G>A	c.(3157-3159)GCC>ACC	p.A1053T	LPHN1_uc010xno.1_Missense_Mutation_p.A1048T|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	1053	Helical; Name=6; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						AGCGCGATGGCCCCCAGCGCC	0.652													6	54					0	0	1	0	0		T	14266323	T	T	14266323	3	4	27	1	0	0	0	0	1	0	0	0	8933	739	26	2	1291	2	LPHN1	19	14266323	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	101	14266323	44862660	7406	29757											
LPHN1	22859	broad.mit.edu	37	chr19	14273431	14273431	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcaccagcactggggtcGggcggcccgaactccaggct	6	6	13	16	3	1	0	1	0	0	0	4	1	3	0	4	5	2	2	4	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:14273431G>A	uc010xnn.1	-	6	1493	c.1197C>T	c.(1195-1197)CCC>CCT	p.P399P	LPHN1_uc010xno.1_Silent_p.P394P|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	399	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						CACTGGGGTCGGGCGGCCCGA	0.622													23	81					0	0	1	0	0		A	14273431	A	A	14273431	2	1	27	1	0	0	0	0	0	0	0	1	8933	1103	39	1		1	LPHN1	19	14273431	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7108	14273431	44855552	7407	29758											
LPHN1	22859	broad.mit.edu	37	chr19	14288424	14288424	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagcatcgcaaatcttgTcgtccgtgcgcccgtagttg	6	11	12	12	5	2	0	1	0	1	0	5	0	3	0	2	1	2	4	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:14288424T>A	uc010xnn.1	-	3	499	c.203A>T	c.(202-204)GAC>GTC	p.D68V	LPHN1_uc010xno.1_Missense_Mutation_p.D68V	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	68	SUEL-type lectin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						GCAAATCTTGTCGTCCGTGCG	0.607													9	104					0	0	1	0	0		A	14288424	A	A	14288424	3	1	27	1	0	0	0	0	1	0	0	0	8933	1667	58	5	4309	5	LPHN1	19	14288424	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	14993	14288424	44840559	7408	29759											
CD97	976	broad.mit.edu	37	chr19	14517536	14517536	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttggactttgagcagggCttcctctggagcttcttggg	4	14	15	8	0	2	1	0	1	2	0	3	3	3	3	1	5	2	4	1	5	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:14517536C>T	uc002myl.2	+	16	2196	c.2073C>T	c.(2071-2073)GGC>GGT	p.G691G	CD97_uc002mym.2_Silent_p.G642G|CD97_uc002myn.2_Silent_p.G598G	NM_078481	NP_510966	P48960	CD97_HUMAN	CD97 antigen isoform 1 precursor	691	Extracellular (Potential).				cell adhesion|cell-cell signaling|cellular component movement|immune response|inflammatory response|neuropeptide signaling pathway	extracellular space|integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(3)|breast(1)	4						TTGAGCAGGGCTTCCTCTGGA	0.632											OREG0025312	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	194					0	0	1	0	0		T	14517536	T	T	14517536	2	4	27	1	0	0	0	0	0	0	0	1	3052	784	28	2		2	CD97	19	14517536	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	229112	14517536	44611447	7409	29760											
PKN1	5585	broad.mit.edu	37	chr19	14554388	14554388	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgagctgaaggtgaagcaGggggcggagaacatgatcca	13	6	16	6	1	0	5	0	4	0	1	1	6	1	5	1	4	3	2	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:14554388G>A	uc002myp.2	+	3	597	c.429G>A	c.(427-429)CAG>CAA	p.Q143Q	PKN1_uc002myq.2_Silent_p.Q149Q	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	143	REM 2.				activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						AGGTGAAGCAGGGGGCGGAGA	0.627													4	46					0	0	1	0	0		A	14554388	A	A	14554388	2	1	27	1	0	0	0	0	0	0	0	1	11998	991	35	4		4	PKN1	19	14554388	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	36852	14554388	44574595	7410	29761											
EMR2	30817	broad.mit.edu	37	chr19	14877148	14877148	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccacgttgttgaggcagtggGtggagctgtggcatgggttt	5	12	18	6	1	0	1	0	1	0	0	0	2	0	2	1	5	1	6	1	5	0	3	rs61732009	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:14877148G>T	uc002mzp.1	-	7	989	c.533C>A	c.(532-534)ACC>AAC	p.T178N	EMR2_uc010dzs.1_5'Flank|EMR2_uc010xnw.1_Missense_Mutation_p.T178N|EMR2_uc002mzo.1_Missense_Mutation_p.T178N|EMR2_uc002mzq.1_Intron|EMR2_uc002mzr.1_Intron|EMR2_uc002mzs.1_Intron|EMR2_uc002mzt.1_Intron|EMR2_uc002mzu.1_Intron|EMR2_uc010xnx.1_Intron|EMR2_uc010xny.1_Intron	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	178	EGF-like 4; calcium-binding (Potential).|Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						GAGGCAGTGGGTGGAGCTGTG	0.607													28	113					1.04121e-07	1.13925e-07	1	1	0		T	14877148	T	T	14877148	3	4	27	1	0	0	0	0	1	0	0	0	5113	1261	44	5	1998	5	EMR2	19	14877148	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	322760	14877148	44251835	7411	29762											
SYDE1	85360	broad.mit.edu	37	chr19	15224405	15224405	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacaatctccagatgtcgcGccttacttgcgacccaaacg	10	8	8	15	5	1	1	0	0	1	1	3	3	1	1	3	0	3	0	3	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:15224405G>A	uc002nah.1	+	8	1870	c.1839G>A	c.(1837-1839)GCG>GCA	p.A613A	SYDE1_uc002nai.1_Silent_p.A546A|SYDE1_uc002naj.1_Silent_p.A270A	NM_033025	NP_149014	Q6ZW31	SYDE1_HUMAN	synapse defective 1, Rho GTPase, homolog 1	613					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|pancreas(1)	2						CAGATGTCGCGCCTTACTTGC	0.637													20	123					0	0	1	0	0		A	15224405	A	A	15224405	2	1	27	1	0	0	0	0	0	0	0	1	15460	1074	38	1		1	SYDE1	19	15224405	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	347257	15224405	43904578	7412	29763											
NOTCH3	4854	broad.mit.edu	37	chr19	15281259	15281259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtgctcgcgcttgcgcCgggccaccatgacacccagg	5	7	13	16	4	0	1	0	1	0	0	1	1	0	1	4	2	3	3	4	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:15281259C>T	uc002nan.2	-	27	5073	c.4997G>A	c.(4996-4998)CGG>CAG	p.R1666Q		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1666	Cytoplasmic (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			GCGCTTGCGCCGGGCCACCAT	0.677													3	38					0	0	1	0	0		T	15281259	T	T	15281259	3	4	27	1	0	0	0	0	1	0	0	0	10569	652	23	1	1996	1	NOTCH3	19	15281259	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	56854	15281259	43847724	7413	29764											
NOTCH3	4854	broad.mit.edu	37	chr19	15298066	15298066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggcacatgagaagctggCgatgccatccacgcagcgac	12	4	12	13	3	0	1	0	1	0	1	1	4	1	1	2	2	3	3	2	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:15298066C>T	uc002nan.2	-	11	1766	c.1690G>A	c.(1690-1692)GCC>ACC	p.A564T	NOTCH3_uc002nao.1_Missense_Mutation_p.A564T	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	564	Extracellular (Potential).|EGF-like 14; calcium-binding (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			GAGAAGCTGGCGATGCCATCC	0.652													12	39					0	0	1	0	0		T	15298066	T	T	15298066	3	4	27	1	0	0	0	0	1	0	0	0	10569	768	27	1	5367	1	NOTCH3	19	15298066	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16807	15298066	43830917	7414	29765											
EPHX3	79852	broad.mit.edu	37	chr19	15342831	15342831	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggggtcgctcaggcaggcGggggacgcgctccgacggcg	5	3	21	12	7	1	0	1	0	0	0	3	3	2	1	1	7	0	3	1	7	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:15342831G>A	uc002nap.2	-	1	401	c.192C>T	c.(190-192)CCC>CCT	p.P64P	EPHX3_uc002naq.2_Silent_p.P64P	NM_024794	NP_079070	Q9H6B9	EPHX3_HUMAN	abhydrolase domain containing 9 precursor	64						extracellular region	hydrolase activity				0						TCAGGCAGGCGGGGGACGCGC	0.746													7	11					0	0	1	0	0		A	15342831	A	A	15342831	2	1	27	1	0	0	0	0	0	0	0	1	5189	1103	39	1		1	EPHX3	19	15342831	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	44765	15342831	43786152	7415	29766											
BRD4	23476	broad.mit.edu	37	chr19	15366170	15366170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctccagctcacgcagtgtgGacggcttcagggtctcaaag	8	8	13	12	2	3	0	3	0	1	0	5	1	4	1	1	3	1	4	1	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:15366170G>A	uc002nar.2	-	10	2207	c.1985C>T	c.(1984-1986)TCC>TTC	p.S662F	BRD4_uc002nas.2_Missense_Mutation_p.S662F|BRD4_uc002nat.3_Missense_Mutation_p.S662F	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	662					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			ACGCAGTGTGGACGGCTTCAG	0.577			T	NUT|C15orf55	lethal midline carcinoma of young people								5	55					0	0	1	0	0		A	15366170	A	A	15366170	3	1	27	1	0	0	0	0	1	0	0	0	1507	1174	41	4	2162	4	BRD4	19	15366170	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23339	15366170	43762813	7416	29767											
BRD4	23476	broad.mit.edu	37	chr19	15376396	15376396	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgaggggtctgggtctgCggaggagtcgatgcttgagt	5	10	20	6	2	2	2	0	2	2	0	3	5	2	4	0	6	2	2	0	6	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:15376396C>A	uc002nar.2	-	5	840	c.618G>T	c.(616-618)CCG>CCT	p.P206P	BRD4_uc002nas.2_Silent_p.P206P|BRD4_uc002nat.3_Silent_p.P206P|BRD4_uc002nau.3_Silent_p.P206P	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	206					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			TCTGGGTCTGCGGAGGAGTCG	0.577			T	NUT|C15orf55	lethal midline carcinoma of young people								8	248					0.0477658	0.0483837	1	1	0		A	15376396	A	A	15376396	2	1	27	1	0	0	0	0	0	0	0	1	1507	755	27	5		5	BRD4	19	15376396	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	10226	15376396	43752587	7417	29768											
AKAP8L	26993	broad.mit.edu	37	chr19	15512058	15512058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggagccgcccgggaaggcgCccccacctcgcatgccctgg	5	3	15	18	4	0	0	0	0	0	0	1	2	0	2	6	4	2	1	6	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:15512058C>T	uc002naw.1	-	5	818	c.719G>A	c.(718-720)GGC>GAC	p.G240D	AKAP8L_uc002nax.1_RNA|AKAP8L_uc010xoh.1_Missense_Mutation_p.G179D|AKAP8L_uc002nay.1_Missense_Mutation_p.G240D|AKAP8L_uc002naz.2_Missense_Mutation_p.G88D	NM_014371	NP_055186	Q9ULX6	AKP8L_HUMAN	A kinase (PRKA) anchor protein 8-like	240						cytoplasm|nuclear matrix	DEAD/H-box RNA helicase binding|DNA binding|zinc ion binding			ovary(1)	1						CGGGAAGGCGCCCCCACCTCG	0.647													16	211					0	0	1	0	0		T	15512058	T	T	15512058	3	4	27	1	0	0	0	0	1	0	0	0	458	739	26	2	1261	2	AKAP8L	19	15512058	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	135662	15512058	43616925	7418	29769											
WIZ	58525	broad.mit.edu	37	chr19	15535436	15535436	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactcactgttgatgttctGccgctggtgctcctcagcct	4	13	10	14	1	3	1	2	1	1	0	4	1	4	1	3	1	3	5	3	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:15535436G>C	uc002nbc.2	-	6	2562	c.2539C>G	c.(2539-2541)CAG>GAG	p.Q847E	WIZ_uc002nba.3_Missense_Mutation_p.Q714E|WIZ_uc002nbb.3_Missense_Mutation_p.Q673E	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	1530						nucleus	zinc ion binding				0						TTGATGTTCTGCCGCTGGTGC	0.711													3	15					0	0	1	0	0		C	15535436	C	C	15535436	3	2	27	1	0	0	0	0	1	0	0	0	17401	1328	46	5	379	5	WIZ	19	15535436	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23378	15535436	43593547	7419	29770											
RASAL3	64926	broad.mit.edu	37	chr19	15562668	15562668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttgactccaagacccccGcgtccttggagaaagctgca	9	7	12	13	2	0	3	0	1	0	2	2	4	2	3	4	2	2	3	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:15562668G>A	uc002nbe.2	-	18	3060	c.2974C>T	c.(2974-2976)CGG>TGG	p.R992W	WIZ_uc002nbb.3_5'Flank|RASAL3_uc002nbd.2_3'UTR|RASAL3_uc010eaa.1_Missense_Mutation_p.R406W	NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	992					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0						CAAGACCCCCGCGTCCTTGGA	0.602													12	57					0	0	1	0	0		A	15562668	A	A	15562668	3	1	27	1	0	0	0	0	1	0	0	0	13090	1086	38	1	65	1	RASAL3	19	15562668	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	27232	15562668	43566315	7420	29771											
RASAL3	64926	broad.mit.edu	37	chr19	15562916	15562916	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctctgaatcaaactctgaGctcctgtgggggtcggggga	7	10	15	9	1	3	2	1	2	2	0	5	3	4	3	1	4	3	2	1	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:15562916G>T	uc002nbe.2	-	17	2918	c.2832C>A	c.(2830-2832)AGC>AGA	p.S944R	WIZ_uc002nbb.3_5'Flank|RASAL3_uc002nbd.2_3'UTR|RASAL3_uc010eaa.1_Intron	NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	944	Potential.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0						CAAACTCTGAGCTCCTGTGGG	0.602													21	85					9.95505e-16	1.1123e-15	1	1	0		T	15562916	T	T	15562916	3	4	27	1	0	0	0	0	1	0	0	0	13090	962	34	5	211	5	RASAL3	19	15562916	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	248	15562916	43566067	7421	29772											
RASAL3	64926	broad.mit.edu	37	chr19	15566970	15566970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagctgttccgaagtctggCctggtgctctggcagctccg	4	10	14	13	2	2	0	0	0	2	0	4	1	4	0	3	3	3	6	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:15566970C>T	uc002nbe.2	-	11	1752	c.1666G>A	c.(1666-1668)GCC>ACC	p.A556T	RASAL3_uc002nbd.2_5'Flank|RASAL3_uc010eaa.1_Missense_Mutation_p.A44T	NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	556	Ras-GAP.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0						CGAAGTCTGGCCTGGTGCTCT	0.582													17	43					0	0	1	0	0		T	15566970	T	T	15566970	3	4	27	1	0	0	0	0	1	0	0	0	13090	739	26	2	1401	2	RASAL3	19	15566970	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4054	15566970	43562013	7422	29773											
PGLYRP2	114770	broad.mit.edu	37	chr19	15587373	15587373	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggcactttctgctccagCtcagccagggcctggatgac	6	9	12	14	0	2	1	1	1	1	0	3	2	3	2	3	3	3	4	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:15587373C>T	uc002nbf.3	-	2	241	c.108G>A	c.(106-108)GAG>GAA	p.E36E	PGLYRP2_uc002nbg.3_Silent_p.E36E	NM_052890	NP_443122	Q96PD5	PGRP2_HUMAN	peptidoglycan recognition protein 2 precursor	36					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptide amidation|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(3)	3						TCTGCTCCAGCTCAGCCAGGG	0.597													4	23					0	0	1	0	0		T	15587373	T	T	15587373	2	4	27	1	0	0	0	0	0	0	0	1	11813	796	28	2		2	PGLYRP2	19	15587373	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20403	15587373	43541610	7423	29774											
CYP4F2	8529	broad.mit.edu	37	chr19	16000299	16000299	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttggcttggaggaagtcAtcaacaccctggctagggag	9	8	14	10	0	2	0	2	0	0	0	2	3	2	3	2	5	1	2	2	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:16000299A>G	uc002nbs.1	-	7	902	c.852T>C	c.(850-852)GAT>GAC	p.D284D	CYP4F2_uc010xot.1_Silent_p.D135D|CYP4F2_uc010xou.1_Silent_p.D135D	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	284					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						GGAGGAAGTCATCAACACCCT	0.572													4	94					0	0	1	0	0		G	16000299	G	G	16000299	2	3	27	1	0	0	0	0	0	0	0	1	4191	214	8	3		3	CYP4F2	19	16000299	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	412926	16000299	43128684	7424	29775											
CYP4F2	8529	broad.mit.edu	37	chr19	16000460	16000460	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggtgtctttttgatacaaGggcactgagctccaagatgg	10	12	12	7	0	1	3	0	2	1	1	2	3	2	3	1	3	2	2	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:16000460G>T	uc002nbs.1	-	7	741	c.691C>A	c.(691-693)CTT>ATT	p.L231I	CYP4F2_uc010xot.1_Missense_Mutation_p.L82I|CYP4F2_uc010xou.1_Missense_Mutation_p.L82I	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	231					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						TTTGATACAAGGGCACTGAGC	0.507													22	161					2.89027e-11	3.20388e-11	1	1	0		T	16000460	T	T	16000460	3	4	27	1	0	0	0	0	1	0	0	0	4191	1000	35	5	899	5	CYP4F2	19	16000460	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	161	16000460	43128523	7425	29776											
MED26	9441	broad.mit.edu	37	chr19	16686957	16686957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcctgacacccgttcacccCcggccactggctggcctgga	5	7	11	18	2	1	1	1	1	0	0	2	2	2	2	6	4	0	2	6	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:16686957C>T	uc002nen.1	-	3	1945	c.1684G>A	c.(1684-1686)GGG>AGG	p.G562R	MED26_uc002nee.2_Intron	NM_004831	NP_004822	O95402	MED26_HUMAN	mediator complex subunit 26	562					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|RNA polymerase II transcription cofactor activity|transcription coactivator activity			ovary(2)	2						CCGTTCACCCCCGGCCACTGG	0.632													5	65					0	0	1	0	0		T	16686957	T	T	16686957	3	4	27	1	0	0	0	0	1	0	0	0	9462	623	22	4	122	4	MED26	19	16686957	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	686497	16686957	42442026	7426	29777											
TMEM38A	79041	broad.mit.edu	37	chr19	16790815	16790815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagtcgaactgtcccggCgccaccccatcgcgtcctgg	6	6	12	17	5	0	0	0	0	0	0	4	2	2	0	5	2	2	1	5	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:16790815C>T	uc002nes.2	+	2	236	c.145C>T	c.(145-147)CGC>TGC	p.R49C		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	49	Lumenal (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3						ACTGTCCCGGCGCCACCCCAT	0.602													9	23					0	0	1	0	0		T	16790815	T	T	16790815	3	4	27	1	0	0	0	0	1	0	0	0	16184	768	27	1	151	1	TMEM38A	19	16790815	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	103858	16790815	42338168	7427	29778											
NWD1	284434	broad.mit.edu	37	chr19	16910714	16910714	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtgtggagtctgtcagaAcaggggacccttctggacat	9	9	14	9	0	3	1	1	0	2	1	3	4	3	4	1	5	1	0	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:16910714A>T	uc002neu.3	+	17	3899	c.3477A>T	c.(3475-3477)GAA>GAT	p.E1159D	NWD1_uc002net.3_Missense_Mutation_p.E1024D|NWD1_uc002nev.3_Missense_Mutation_p.E953D			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1159	WD 8.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						GTCTGTCAGAACAGGGGACCC	0.572													6	79					0	0	1	0	0		T	16910714	T	T	16910714	3	4	27	1	0	0	0	0	1	0	0	0	10800	40	2	5	3122	5	NWD1	19	16910714	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	119899	16910714	42218269	7428	29779											
NWD1	284434	broad.mit.edu	37	chr19	16910875	16910875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcctgcaccatttctggAccgcaccggcctcaccgcag	6	7	11	17	3	2	0	1	0	1	0	2	1	2	1	6	3	2	3	6	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:16910875A>G	uc002neu.3	+	17	4060	c.3638A>G	c.(3637-3639)GAC>GGC	p.D1213G	NWD1_uc002net.3_Missense_Mutation_p.D1078G|NWD1_uc002nev.3_Missense_Mutation_p.D1007G			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1213	WD 10.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						CCATTTCTGGACCGCACCGGC	0.552													5	58					0	0	1	0	0		G	16910875	G	G	16910875	3	3	27	1	0	0	0	0	1	0	0	0	10800	275	10	3	3283	3	NWD1	19	16910875	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	161	16910875	42218108	7429	29780											
SIN3B	23309	broad.mit.edu	37	chr19	16942396	16942396	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaacgcttttcttcccctcGgatatagaatagacattccc	10	13	5	13	2	2	2	1	0	1	2	5	3	4	3	3	1	1	1	3	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:16942396G>T	uc002ney.1	+	3	333	c.319G>T	c.(319-321)GGA>TGA	p.G107*	SIN3B_uc002new.2_Nonsense_Mutation_p.G107*|SIN3B_uc002nex.2_Nonsense_Mutation_p.G39*|SIN3B_uc002nez.1_Nonsense_Mutation_p.G107*	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	107	PAH 1.				cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						TCTTCCCCTCGGATATAGAAT	0.488													6	185					0.00198382	0.00205548	1	1	0		T	16942396	T	T	16942396	4	4	27	1	0	0	0	0	0	1	0	0	14351	1117	39	5	329	5	SIN3B	19	16942396	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31521	16942396	42186587	7430	29781											
SIN3B	23309	broad.mit.edu	37	chr19	16982177	16982177	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcctacgtgggcttcaccAtggacaagctggtgcagaac	10	8	12	11	1	1	1	1	0	0	1	1	2	1	2	2	3	5	3	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:16982177A>G	uc002ney.1	+	15	2670	c.2656A>G	c.(2656-2658)ATG>GTG	p.M886V	SIN3B_uc002nez.1_Missense_Mutation_p.M854V|SIN3B_uc010xpi.1_Missense_Mutation_p.M444V	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	886					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						GGGCTTCACCATGGACAAGCT	0.642													3	46					0	0	1	0	0		G	16982177	G	G	16982177	3	3	27	1	0	0	0	0	1	0	0	0	14351	217	8	3	2714	3	SIN3B	19	16982177	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	39781	16982177	42146806	7431	29782											
SIN3B	23309	broad.mit.edu	37	chr19	16989146	16989146	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcacaagatggtgttcaTcgtgaactccgaggactaca	12	9	9	11	2	2	2	2	1	0	1	4	4	3	3	1	2	2	1	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:16989146T>C	uc002ney.1	+	19	3217	c.3203T>C	c.(3202-3204)ATC>ACC	p.I1068T	SIN3B_uc002nez.1_Missense_Mutation_p.I1036T|SIN3B_uc010xpi.1_Missense_Mutation_p.I626T|SIN3B_uc010eaj.1_Missense_Mutation_p.I4T	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	1068					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						ATGGTGTTCATCGTGAACTCC	0.672													3	23					0	0	1	0	0		C	16989146	C	C	16989146	3	2	27	1	0	0	0	0	1	0	0	0	14351	1435	50	3	3277	3	SIN3B	19	16989146	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6969	16989146	42139837	7432	29783											
CPAMD8	27151	broad.mit.edu	37	chr19	17007077	17007077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcctgctgtaaaggccccGgggccacagaagccaggtca	9	5	13	14	2	1	1	1	0	0	1	2	1	2	1	5	4	2	2	5	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17007077G>A	uc002nfb.2	-	41	5509	c.5477C>T	c.(5476-5478)CCG>CTG	p.P1826L	CPAMD8_uc010xpj.1_5'UTR|CPAMD8_uc002nfd.1_Missense_Mutation_p.P291L	NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1779						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						TAAAGGCCCCGGGGCCACAGA	0.677													7	32					0	0	1	0	0		A	17007077	A	A	17007077	3	1	27	1	0	0	0	0	1	0	0	0	3798	1116	39	1	329	1	CPAMD8	19	17007077	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17931	17007077	42121906	7433	29784											
CPAMD8	27151	broad.mit.edu	37	chr19	17088263	17088263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgtagaagaccagcaggCgaccaagggggaccatgctg	12	4	15	10	2	0	3	0	1	0	2	0	5	0	4	3	3	2	3	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17088263C>T	uc002nfb.2	-	15	1846	c.1814G>A	c.(1813-1815)CGC>CAC	p.R605H		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	558						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity	p.R605H(1)		ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						GACCAGCAGGCGACCAAGGGG	0.592													8	71					0	0	1	0	0		T	17088263	T	T	17088263	3	4	27	1	0	0	0	0	1	0	0	0	3798	768	27	1	4096	1	CPAMD8	19	17088263	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	81186	17088263	42040720	7434	29785											
OCEL1	79629	broad.mit.edu	37	chr19	17337542	17337542	+	Frame_Shift_Del	DEL	C	-	-																															gccgcgcgcgggacacgacgCcccccgcaggacccgcccat																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17337542delC	uc002nfp.2	+	2	112	c.110delC	c.(109-111)GCCfs	p.A37fs		NM_024578	NP_078854	Q9H607	OCEL1_HUMAN	occludin/ELL domain containing 1	37	Pro-rich.									central_nervous_system(1)	1						GGACACGACGCCCCCCGCAGG	0.756													4	9	---	---	---	---						.	-	17337542	-	-	17337542	7	5	27	1	0	1	0	1	0	0	0	0	10835	739	26	0	116	0	OCEL1	19	17337542	Frame_Shift_Del	DEL	C	TCGA-BR-6452-01A-12D-1800-08	249279	17337542	41791441	7435	29786											
GTPBP3	84705	broad.mit.edu	37	chr19	17449437	17449437	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaacctgaccgaagtggagGggctggcggaccttatccac	9	7	14	11	2	0	2	0	2	0	0	1	5	1	4	4	5	1	1	4	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17449437G>T	uc010eas.2	+	4	543	c.478G>T	c.(478-480)GGG>TGG	p.G160W	GTPBP3_uc010xpo.1_Missense_Mutation_p.G182W|GTPBP3_uc010ear.1_RNA|GTPBP3_uc002ngh.3_Missense_Mutation_p.G160W|GTPBP3_uc002ngg.3_Missense_Mutation_p.G160W|GTPBP3_uc002ngi.3_5'UTR	NM_032620	NP_116009	Q969Y2	GTPB3_HUMAN	GTP binding protein 3 (mitochondrial) isoform V	160					tRNA modification	mitochondrion	GTP binding|GTPase activity			skin(1)	1						CGAAGTGGAGGGGCTGGCGGA	0.692													4	54					0.00909568	0.0093211	1	1	0		T	17449437	T	T	17449437	3	4	27	1	0	0	0	0	1	0	0	0	6897	1232	43	5	492	5	GTPBP3	19	17449437	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	111895	17449437	41679546	7436	29787											
PLVAP	83483	broad.mit.edu	37	chr19	17487970	17487970	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagaccatgaagagcacgAgccccaggatgatgaggaat	15	5	12	9	1	0	5	0	3	0	2	0	8	0	7	3	2	2	1	3	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17487970A>G	uc002ngk.1	-	1	178	c.128T>C	c.(127-129)CTC>CCC	p.L43P		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	43	Helical; Signal-anchor for type II membrane protein; (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						GAAGAGCACGAGCCCCAGGAT	0.612													6	59					0	0	1	0	0		G	17487970	G	G	17487970	3	3	27	1	0	0	0	0	1	0	0	0	12135	304	11	3	1224	3	PLVAP	19	17487970	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	38533	17487970	41641013	7437	29788											
GLT25D1	79709	broad.mit.edu	37	chr19	17679355	17679355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgcctacatccctatccGcaagcgagaccgccggggct	8	6	10	17	4	0	1	0	0	0	1	2	2	2	1	6	2	3	2	6	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17679355G>A	uc002nhc.1	+	5	674	c.662G>A	c.(661-663)CGC>CAC	p.R221H	GLT25D1_uc010eax.1_5'UTR	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	221					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0						ATCCCTATCCGCAAGCGAGAC	0.612													4	53					0	0	1	0	0		A	17679355	A	A	17679355	3	1	27	1	0	0	0	0	1	0	0	0	6481	1087	38	1	680	1	GLT25D1	19	17679355	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	191385	17679355	41449628	7438	29789											
UNC13A	23025	broad.mit.edu	37	chr19	17743650	17743650	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtcacatactcattgtaGagccatttcaccttgaagtg	10	13	7	11	1	3	2	3	1	0	1	4	2	4	2	3	0	2	1	3	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17743650G>T	uc002nhd.2	-	28	3633	c.3633C>A	c.(3631-3633)CTC>CTA	p.L1211L		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1123	MHD1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						ACTCATTGTAGAGCCATTTCA	0.557													5	80					0.014758	0.0150623	1	1	0		T	17743650	T	T	17743650	2	4	27	1	0	0	0	0	0	0	0	1	17010	929	33	5		5	UNC13A	19	17743650	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	64295	17743650	41385333	7439	29790											
UNC13A	23025	broad.mit.edu	37	chr19	17759367	17759367	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcgtagcagtaggtgggCgtggtggccgtccacacttc	6	9	14	12	3	0	0	0	0	0	0	3	0	1	0	2	4	1	3	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17759367C>T	uc002nhd.2	-	16	1953	c.1953G>A	c.(1951-1953)ACG>ACA	p.T651T		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	563	Phorbol-ester/DAG-type.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						AGTAGGTGGGCGTGGTGGCCG	0.607													6	48					0	0	1	0	0		T	17759367	T	T	17759367	2	4	27	1	0	0	0	0	0	0	0	1	17010	755	27	1		1	UNC13A	19	17759367	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15717	17759367	41369616	7440	29791											
UNC13A	23025	broad.mit.edu	37	chr19	17774358	17774358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tactgtgctgctcaccccagCcaaaataattccagttgcct	10	11	6	14	0	1	0	1	0	0	0	2	0	2	0	5	0	5	3	5	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17774358C>T	uc002nhd.2	-	9	806	c.806G>A	c.(805-807)GGC>GAC	p.G269D		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	181					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						CTCACCCCAGCCAAAATAATT	0.542													4	18					0	0	1	0	0		T	17774358	T	T	17774358	3	4	27	1	0	0	0	0	1	0	0	0	17010	739	26	2	4709	2	UNC13A	19	17774358	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	14991	17774358	41354625	7441	29792											
UNC13A	23025	broad.mit.edu	37	chr19	17780379	17780379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacctaagggtagctcaaagCgcgtgtccaggaggatgcgg	10	6	15	10	3	1	0	1	0	0	0	2	2	2	2	2	4	3	2	2	4	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17780379C>T	uc002nhd.2	-	6	641	c.641G>A	c.(640-642)CGC>CAC	p.R214H		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	126					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						TAGCTCAAAGCGCGTGTCCAG	0.612													15	22					0	0	1	0	0		T	17780379	T	T	17780379	3	4	27	1	0	0	0	0	1	0	0	0	17010	768	27	1	4886	1	UNC13A	19	17780379	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6021	17780379	41348604	7442	29793											
MAP1S	55201	broad.mit.edu	37	chr19	17845130	17845130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggccatgcatacgtggtacGcagagacgcacgcccggcac	9	5	13	14	5	0	1	0	0	0	1	0	2	0	1	2	3	3	5	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17845130G>A	uc002nhe.1	+	7	3082	c.3073G>A	c.(3073-3075)GCA>ACA	p.A1025T	MAP1S_uc010eba.1_Intron|MAP1S_uc002nhf.1_Missense_Mutation_p.A273T|MAP1S_uc010xpv.1_Missense_Mutation_p.A999T	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	1025	Necessary for association with actin (By similarity).|Necessary for interaction with RASSF1 isoform A and isoform C.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						TACGTGGTACGCAGAGACGCA	0.652													13	21					0	0	1	0	0		A	17845130	A	A	17845130	3	1	27	1	0	0	0	0	1	0	0	0	9252	1087	38	1	3099	1	MAP1S	19	17845130	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	64751	17845130	41283853	7443	29794											
JAK3	3718	broad.mit.edu	37	chr19	17943652	17943652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcctcgaagatcgtggggtCttggcaggcatagagctggg	7	9	16	9	2	1	2	0	0	1	2	4	3	2	2	1	5	1	3	1	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17943652C>T	uc002nhn.3	-	18	2537	c.2437G>A	c.(2437-2439)GAC>AAC	p.D813N	JAK3_uc010ebh.2_Intron|JAK3_uc002nho.2_Missense_Mutation_p.D813N	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	813					B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						ATCGTGGGGTCTTGGCAGGCA	0.622		2	Mis		acute megakaryocytic leukemia|								20	85					0	0	1	0	0		T	17943652	T	T	17943652	3	4	27	1	0	0	0	0	1	0	0	0	7955	913	32	4	965	4	JAK3	19	17943652	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	98522	17943652	41185331	7444	29795											
SLC5A5	6528	broad.mit.edu	37	chr19	17988883	17988883	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaccctctcctcctggggcGcatctctgccccagaccagg	5	7	10	19	2	2	1	0	0	2	1	5	2	3	1	6	3	1	1	6	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:17988883G>T	uc002nhr.3	+	7	1297	c.950G>T	c.(949-951)CGC>CTC	p.R317L		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	317	Extracellular (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						CTCCTGGGGCGCATCTCTGCC	0.498													5	42					3.59834e-05	3.83694e-05	1	1	0		T	17988883	T	T	17988883	3	4	27	1	0	0	0	0	1	0	0	0	14693	1087	38	5	976	5	SLC5A5	19	17988883	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	45231	17988883	41140100	7445	29796											
PDE4C	5143	broad.mit.edu	37	chr19	18329232	18329232	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaggccacattggcgtggTagtgaccttccagcatcagc	8	9	13	11	1	1	1	1	1	0	0	2	1	2	1	3	4	2	3	3	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:18329232T>C	uc010xqc.1	-	10	1622	c.1142A>G	c.(1141-1143)TAC>TGC	p.Y381C	PDE4C_uc002nik.3_Missense_Mutation_p.Y381C|PDE4C_uc002nil.3_Missense_Mutation_p.Y381C|PDE4C_uc002nif.3_Missense_Mutation_p.Y150C|PDE4C_uc002nig.3_Intron|PDE4C_uc002nih.3_Missense_Mutation_p.Y151C|PDE4C_uc010ebk.2_Missense_Mutation_p.Y275C|PDE4C_uc002nii.3_Missense_Mutation_p.Y349C|PDE4C_uc010ebl.2_Missense_Mutation_p.Y95C|PDE4C_uc010xqd.1_Missense_Mutation_p.Y150C	NM_001098819	NP_001092289	Q08493	PDE4C_HUMAN	phosphodiesterase 4C isoform PDE4C-2	381					signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|skin(2)|central_nervous_system(1)	5					Dyphylline(DB00651)	ATTGGCGTGGTAGTGACCTTC	0.622													12	138					0	0	1	0	0		C	18329232	C	C	18329232	3	2	27	1	0	0	0	0	1	0	0	0	11660	1638	57	3	1020	3	PDE4C	19	18329232	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	340349	18329232	40799751	7446	29797											
ISYNA1	51477	broad.mit.edu	37	chr19	18546591	18546591	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcaggctcttcgccgggCgtatagagcactgggttgct	5	11	15	10	3	2	1	1	0	1	1	3	1	2	1	1	4	2	5	1	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:18546591C>T	uc002njd.1	-	8	1166	c.1116G>A	c.(1114-1116)ACG>ACA	p.T372T	ISYNA1_uc002nja.1_Silent_p.T244T|ISYNA1_uc002njb.1_Silent_p.T290T|ISYNA1_uc002njc.1_Silent_p.T222T|ISYNA1_uc010xqh.1_Silent_p.T170T|ISYNA1_uc002nje.1_Silent_p.T318T|ISYNA1_uc002njf.1_Silent_p.T222T	NM_016368	NP_057452	Q9NPH2	INO1_HUMAN	inositol-3-phosphate synthase 1	372					inositol biosynthetic process|phospholipid biosynthetic process	cytoplasm	binding|inositol-3-phosphate synthase activity			ovary(1)|pancreas(1)	2						CTTCGCCGGGCGTATAGAGCA	0.552													18	68					0	0	1	0	0		T	18546591	T	T	18546591	2	4	27	1	0	0	0	0	0	0	0	1	7883	755	27	1		1	ISYNA1	19	18546591	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	217359	18546591	40582392	7447	29798											
ISYNA1	51477	broad.mit.edu	37	chr19	18547813	18547813	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcgttgggcgccaccaTgggcagcaccgcgctgaagg	7	5	17	12	4	0	1	0	1	0	0	1	2	0	1	3	4	1	4	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:18547813T>G	uc002njd.1	-	4	435	c.385A>C	c.(385-387)ATG>CTG	p.M129L	ISYNA1_uc002nja.1_Missense_Mutation_p.M1L|ISYNA1_uc002njb.1_5'UTR|ISYNA1_uc002njc.1_Intron|ISYNA1_uc010xqh.1_5'UTR|ISYNA1_uc002nje.1_Missense_Mutation_p.M75L|ISYNA1_uc002njf.1_Intron	NM_016368	NP_057452	Q9NPH2	INO1_HUMAN	inositol-3-phosphate synthase 1	129					inositol biosynthetic process|phospholipid biosynthetic process	cytoplasm	binding|inositol-3-phosphate synthase activity			ovary(1)|pancreas(1)	2						GGCGCCACCATGGGCAGCACC	0.711													3	34					0	0	1	0	0		G	18547813	G	G	18547813	3	3	27	1	0	0	0	0	1	0	0	0	7883	1464	51	5	1323	5	ISYNA1	19	18547813	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1222	18547813	40581170	7448	29799											
CRLF1	9244	broad.mit.edu	37	chr19	18707568	18707568	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtttcaggccggccaggcgGcaggaggtctggttgctcac	5	8	17	11	2	3	0	2	0	1	0	3	1	3	1	2	8	1	4	2	8	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:18707568G>T	uc010ebt.1	-	6	1082	c.888C>A	c.(886-888)TGC>TGA	p.C296*		NM_004750	NP_004741	O75462	CRLF1_HUMAN	cytokine receptor-like factor 1 precursor	296	Fibronectin type-III 2.				negative regulation of neuron apoptosis|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of Stat3 protein	extracellular space	cytokine binding|protein heterodimerization activity|receptor activity			central_nervous_system(1)	1						CGGCCAGGCGGCAGGAGGTCT	0.423													5	35					0.00116845	0.00121513	1	1	0		T	18707568	T	T	18707568	4	4	27	1	0	0	0	0	0	1	0	0	3889	1195	42	5	396	5	CRLF1	19	18707568	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	159755	18707568	40421415	7449	29800											
CRTC1	23373	broad.mit.edu	37	chr19	18876229	18876229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctaggaatgagcacacctgGctcctctccacagcaccgcc	9	7	8	17	1	2	1	0	1	2	0	4	2	3	2	5	2	2	3	5	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:18876229G>A	uc002nkb.3	+	9	990	c.902G>A	c.(901-903)GGC>GAC	p.G301D	CRTC1_uc010ebv.2_Missense_Mutation_p.G317D|CRTC1_uc010ebw.2_Missense_Mutation_p.G166D|CRTC1_uc002nkc.3_Missense_Mutation_p.G166D	NM_015321	NP_056136	Q6UUV9	CRTC1_HUMAN	mucoepidermoid carcinoma translocated 1 isoform	301	Ser-rich.				interspecies interaction between organisms|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	cAMP response element binding protein binding|protein binding		CRTC1/MAML2(516)	salivary_gland(474)|lung(35)|thyroid(4)|breast(3)|skin(2)|ovary(1)	519						AGCACACCTGGCTCCTCTCCA	0.622													20	162					0	0	1	0	0		A	18876229	A	A	18876229	3	1	27	1	0	0	0	0	1	0	0	0	3902	1203	42	2	988	2	CRTC1	19	18876229	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	168661	18876229	40252754	7450	29801											
UPF1	5976	broad.mit.edu	37	chr19	18965708	18965708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgcagagcgcattgaaaaCgtttgccgtggatgagacct	11	9	13	8	3	0	3	0	2	0	2	0	6	0	4	2	1	4	3	2	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:18965708C>T	uc002nkg.2	+	10	1594	c.1319C>T	c.(1318-1320)ACG>ATG	p.T440M	UPF1_uc002nkf.2_Missense_Mutation_p.T429M	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	440					cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding	p.T429M(1)		ovary(1)|central_nervous_system(1)	2						GCATTGAAAACGTTTGCCGTG	0.592													7	32					0	0	1	0	0		T	18965708	T	T	18965708	3	4	27	1	0	0	0	0	1	0	0	0	17029	536	19	1	1324	1	UPF1	19	18965708	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	89479	18965708	40163275	7451	29802											
SFRS14	10147	broad.mit.edu	37	chr19	19120711	19120711	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaggtgcttcagagatgTccactcctgctggcttgggg	5	12	14	10	0	2	2	1	1	1	1	4	3	4	2	2	4	2	3	2	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:19120711T>C	uc002nkx.2	-	5	2437	c.2291A>G	c.(2290-2292)GAC>GGC	p.D764G	SFRS14_uc002nkz.1_Missense_Mutation_p.D778G|SFRS14_uc002nla.1_Missense_Mutation_p.D764G|SFRS14_uc002nlb.2_Missense_Mutation_p.D764G|SFRS14_uc010xqk.1_Missense_Mutation_p.D533G	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	764	Pro/Ser-rich.				mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			TTCAGAGATGTCCACTCCTGC	0.612													8	124					0	0	1	0	0		C	19120711	C	C	19120711	3	2	27	1	0	0	0	0	1	0	0	0	14195	1667	58	3	981	3	SFRS14	19	19120711	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	155003	19120711	40008272	7452	29803											
RFXANK	8625	broad.mit.edu	37	chr19	19308333	19308333	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctcctcctgccaggtgAcaacctcgtcaacaagccag	9	6	8	18	2	1	1	1	1	0	0	4	1	3	1	7	1	4	0	7	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:19308333A>G	uc002nls.2	+	6	846	c.341A>G	c.(340-342)GAC>GGC	p.D114G	RFXANK_uc002nlt.2_Missense_Mutation_p.D91G|RFXANK_uc002nlu.2_Missense_Mutation_p.D92G|RFXANK_uc002nlv.2_Missense_Mutation_p.D114G|RFXANK_uc002nlw.2_Missense_Mutation_p.D113G	NM_003721	NP_003712	O14593	RFXK_HUMAN	regulatory factor X-associated	114	ANK 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(2)	2			Epithelial(12;0.00228)			CTGCCAGGTGACAACCTCGTC	0.642													4	33					0	0	1	0	0		G	19308333	G	G	19308333	3	3	27	1	0	0	0	0	1	0	0	0	13294	275	10	3	355	3	RFXANK	19	19308333	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	187622	19308333	39820650	7453	29804											
HAPLN4	404037	broad.mit.edu	37	chr19	19371751	19371751	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccccaggcccgtcgccctGcagctcagcccgcccacggt	5	5	10	21	4	1	0	1	0	0	0	3	0	2	0	6	2	3	2	6	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:19371751G>A	uc002nmb.2	-	3	410	c.355C>T	c.(355-357)CAG>TAG	p.Q119*	HAPLN4_uc002nmc.2_Nonsense_Mutation_p.Q119*	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	119	Ig-like C2-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			CCGTCGCCCTGCAGCTCAGCC	0.652													15	44					0	0	1	0	0		A	19371751	A	A	19371751	4	1	27	1	0	0	0	0	0	1	0	0	6973	1328	46	2	865	2	HAPLN4	19	19371751	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	63418	19371751	39757232	7454	29805											
HAPLN4	404037	broad.mit.edu	37	chr19	19371882	19371882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgccgtcgtgaccgtgggcgGctgcctcatagtggtagcgg	4	8	17	12	6	1	1	1	1	0	0	2	1	1	1	3	4	2	2	3	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:19371882G>A	uc002nmb.2	-	3	279	c.224C>T	c.(223-225)GCC>GTC	p.A75V	HAPLN4_uc002nmc.2_Missense_Mutation_p.A75V	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	75	Ig-like C2-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			ACCGTGGGCGGCTGCCTCATA	0.667													4	25					0	0	1	0	0		A	19371882	A	A	19371882	3	1	27	1	0	0	0	0	1	0	0	0	6973	1203	42	2	996	2	HAPLN4	19	19371882	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	131	19371882	39757101	7455	29806											
TSSK6	83983	broad.mit.edu	37	chr19	19626044	19626044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcgggtgtcgcacgccccGcaggatggacagctctcgcg	5	6	16	14	6	1	0	0	0	1	0	3	2	1	2	2	3	2	3	2	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:19626044G>A	uc002nmr.2	-	1	426	c.193C>T	c.(193-195)CGG>TGG	p.R65W	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	65	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.R65W(1)		stomach(1)	1						CGCACGCCCCGCAGGATGGAC	0.627													13	40					0	0	1	0	0		A	19626044	A	A	19626044	3	1	27	1	0	0	0	0	1	0	0	0	16698	1086	38	1	632	1	TSSK6	19	19626044	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	254162	19626044	39502939	7456	29807											
CILP2	148113	broad.mit.edu	37	chr19	19655293	19655293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcatgttctccgtggacCtccgtgcgcccggctccgcg	3	8	13	17	7	1	0	0	0	1	0	4	1	3	1	5	3	1	3	5	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:19655293C>T	uc002nmv.3	+	8	2024	c.1939C>T	c.(1939-1941)CTC>TTC	p.L647F	CILP2_uc002nmw.3_Missense_Mutation_p.L653F	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	647						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						CTCCGTGGACCTCCGTGCGCC	0.716													4	53					0	0	1	0	0		T	19655293	T	T	19655293	3	4	27	1	0	0	0	0	1	0	0	0	3433	681	24	4	1969	4	CILP2	19	19655293	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	29249	19655293	39473690	7457	29808											
GMIP	51291	broad.mit.edu	37	chr19	19745618	19745618	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctcctgaagaaatcgctTgaggacactcgagacgtcat	13	8	9	11	3	1	4	1	2	0	2	4	6	2	5	2	1	1	1	2	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:19745618T>C	uc002nnd.2	-	17	1987	c.1870A>G	c.(1870-1872)AAG>GAG	p.K624E	GMIP_uc010xrb.1_Missense_Mutation_p.K598E|GMIP_uc010xrc.1_Missense_Mutation_p.K595E	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	624	Rho-GAP.				negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						AGAAATCGCTTGAGGACACTC	0.647													18	64					0	0	1	0	0		C	19745618	C	C	19745618	3	2	27	1	0	0	0	0	1	0	0	0	6506	1821	63	3	1062	3	GMIP	19	19745618	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	90325	19745618	39383365	7458	29809											
ATP13A1	57130	broad.mit.edu	37	chr19	19758026	19758026	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaacttgactccctccaggTagaggacgctctggctgtag	8	10	12	11	1	1	3	0	2	1	1	3	4	3	4	2	3	1	4	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:19758026T>C	uc002nnh.3	-	22	3045	c.3017A>G	c.(3016-3018)TAC>TGC	p.Y1006C	ATP13A1_uc002nne.2_Missense_Mutation_p.Y146C|ATP13A1_uc002nnf.3_Missense_Mutation_p.Y374C|ATP13A1_uc002nng.2_Missense_Mutation_p.Y888C	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	1006	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						TCCCTCCAGGTAGAGGACGCT	0.612													11	91					0	0	1	0	0		C	19758026	C	C	19758026	3	2	27	1	0	0	0	0	1	0	0	0	1124	1638	57	3	617	3	ATP13A1	19	19758026	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	12408	19758026	39370957	7459	29810											
ATP13A1	57130	broad.mit.edu	37	chr19	19766929	19766929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtgcccccgaagatgaCgtgcagccgggaatcagcct	8	7	13	13	3	1	2	1	1	0	1	1	4	1	3	4	2	4	1	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:19766929C>T	uc002nnh.3	-	8	1175	c.1147G>A	c.(1147-1149)GTC>ATC	p.V383I	ATP13A1_uc002nnf.3_5'Flank|ATP13A1_uc002nng.2_Missense_Mutation_p.V265I	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	383	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						CCGAAGATGACGTGCAGCCGG	0.642													22	39					0	0	1	0	0		T	19766929	T	T	19766929	3	4	27	1	0	0	0	0	1	0	0	0	1124	536	19	1	2543	1	ATP13A1	19	19766929	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8903	19766929	39362054	7460	29811											
ZNF101	94039	broad.mit.edu	37	chr19	19790305	19790305	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactcgaaagagaccttaTgaatgcaaggtgtgcgggaa	14	7	12	8	2	0	2	0	1	0	1	1	5	0	3	2	2	3	1	2	2	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:19790305T>C	uc002nni.1	+	4	617	c.507T>C	c.(505-507)TAT>TAC	p.Y169Y	ZNF101_uc010ecg.1_Silent_p.Y49Y|ZNF101_uc002nnj.1_Silent_p.Y49Y	NM_033204	NP_149981	Q8IZC7	ZN101_HUMAN	zinc finger protein 101	169	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						AGAGACCTTATGAATGCAAGG	0.458													4	119					0	0	1	0	0		C	19790305	C	C	19790305	2	2	27	1	0	0	0	0	0	0	0	1	17739	1471	51	3		3	ZNF101	19	19790305	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	23376	19790305	39338678	7461	29812											
ZNF506	440515	broad.mit.edu	37	chr19	19905511	19905511	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattcttcacatttgtacggTttctctccagtatgaattat	9	18	5	9	1	3	1	1	1	2	0	5	1	4	1	1	1	1	3	1	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:19905511T>C	uc010eci.2	-	4	1333	c.1185A>G	c.(1183-1185)AAA>AAG	p.K395K	ZNF506_uc002nog.2_Intron|ZNF506_uc002noh.3_Silent_p.K363K	NM_001099269	NP_001092739	Q5JVG8	ZN506_HUMAN	zinc finger protein 506 isoform 1	395					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding				0						ATTTGTACGGTTTCTCTCCAG	0.378													5	51					0	0	1	0	0		C	19905511	C	C	19905511	2	2	27	1	0	0	0	0	0	0	0	1	17977	1722	60	3		3	ZNF506	19	19905511	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	115206	19905511	39223472	7462	29813											
ZNF253	56242	broad.mit.edu	37	chr19	20003500	20003500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaacgaaaaccctacataGtgaagaatgtgacagatctt	16	10	8	7	1	1	5	0	3	1	2	1	6	1	5	1	0	3	0	1	0	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:20003500G>A	uc002noj.2	+	4	1536	c.1444G>A	c.(1444-1446)GTG>ATG	p.V482M	ZNF253_uc002nok.2_Missense_Mutation_p.V406M|ZNF253_uc002nol.2_RNA	NM_021047	NP_066385	O75346	ZN253_HUMAN	zinc finger protein 253	482					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACCCTACATAGTGAAGAATGT	0.333													6	59					0	0	1	0	0		A	20003500	A	A	20003500	3	1	27	1	0	0	0	0	1	0	0	0	17822	1029	36	4	1458	4	ZNF253	19	20003500	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	97989	20003500	39125483	7463	29814											
ZNF682	91120	broad.mit.edu	37	chr19	20117228	20117228	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtttctctccgctatgaatTaccttatgttcagtaagaat	10	16	7	8	1	2	2	1	1	1	1	4	2	3	2	2	1	1	4	2	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:20117228T>C	uc002noq.2	-	4	1206	c.1083A>G	c.(1081-1083)GTA>GTG	p.V361V	ZNF682_uc002noo.2_Silent_p.V329V|ZNF682_uc002nop.2_Silent_p.V329V|ZNF682_uc010eck.2_Silent_p.V285V	NM_033196	NP_149973	O95780	ZN682_HUMAN	zinc finger protein 682 isoform 1	361	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						CGCTATGAATTACCTTATGTT	0.363													6	55					0	0	1	0	0		C	20117228	C	C	20117228	2	2	27	1	0	0	0	0	0	0	0	1	18114	1741	61	3		3	ZNF682	19	20117228	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	113728	20117228	39011755	7464	29815											
ZNF682	91120	broad.mit.edu	37	chr19	20117462	20117462	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtcttcacatgtatagggTttttctcctgtatgaatttt	8	19	7	7	0	3	1	1	1	2	0	4	1	3	1	1	1	0	3	1	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:20117462T>G	uc002noq.2	-	4	972	c.849A>C	c.(847-849)AAA>AAC	p.K283N	ZNF682_uc002noo.2_Missense_Mutation_p.K251N|ZNF682_uc002nop.2_Missense_Mutation_p.K251N|ZNF682_uc010eck.2_Missense_Mutation_p.K207N	NM_033196	NP_149973	O95780	ZN682_HUMAN	zinc finger protein 682 isoform 1	283					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						ATGTATAGGGTTTTTCTCCTG	0.403													4	89					0	0	1	0	0		G	20117462	G	G	20117462	3	3	27	1	0	0	0	0	1	0	0	0	18114	1722	60	5	651	5	ZNF682	19	20117462	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	234	20117462	39011521	7465	29816											
ZNF682	91120	broad.mit.edu	37	chr19	20117540	20117540	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttccacattcttcacatttGtagggtttctcaccagtatg	8	17	6	10	0	3	0	2	0	2	0	5	0	4	0	2	1	0	3	2	1	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:20117540G>A	uc002noq.2	-	4	894	c.771C>T	c.(769-771)TAC>TAT	p.Y257Y	ZNF682_uc002noo.2_Silent_p.Y225Y|ZNF682_uc002nop.2_Silent_p.Y225Y|ZNF682_uc010eck.2_Silent_p.Y181Y	NM_033196	NP_149973	O95780	ZN682_HUMAN	zinc finger protein 682 isoform 1	257	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						CTTCACATTTGTAGGGTTTCT	0.388													6	63					0	0	1	0	0		A	20117540	A	A	20117540	2	1	27	1	0	0	0	0	0	0	0	1	18114	1372	48	4		4	ZNF682	19	20117540	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	78	20117540	39011443	7466	29817											
ZNF85	7639	broad.mit.edu	37	chr19	21131805	21131805	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcataaattttcaaattcaaAcagacatgagataagacata	20	11	4	6	0	3	3	3	1	0	3	3	4	3	3	0	0	1	0	0	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:21131805A>G	uc002npg.3	+	4	612	c.485A>G	c.(484-486)AAC>AGC	p.N162S	ZNF85_uc010ecn.2_Missense_Mutation_p.N97S|ZNF85_uc010eco.2_Missense_Mutation_p.N110S|ZNF85_uc002npi.2_Missense_Mutation_p.N103S	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	162	C2H2-type 1; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						TCAAATTCAAACAGACATGAG	0.328													8	76					0	0	1	0	0		G	21131805	G	G	21131805	3	3	27	1	0	0	0	0	1	0	0	0	18218	43	2	3	499	3	ZNF85	19	21131805	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1014265	21131805	37997178	7467	29818											
ZNF430	80264	broad.mit.edu	37	chr19	21240721	21240721	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaacataaggtaattcataCtggagagaaaccctacaact	18	9	6	8	0	1	1	1	0	0	1	1	3	1	2	1	2	5	1	1	2	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:21240721C>G	uc002npj.2	+	5	1717	c.1607C>G	c.(1606-1608)ACT>AGT	p.T536S	ZNF430_uc002npk.2_Missense_Mutation_p.T535S	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	536					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						GTAATTCATACTGGAGAGAAA	0.358													3	34					0	0	1	0	0		G	21240721	G	G	21240721	3	3	27	1	0	0	0	0	1	0	0	0	17929	565	20	5	1625	5	ZNF430	19	21240721	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	108916	21240721	37888262	7468	29819											
ZNF708	7562	broad.mit.edu	37	chr19	21477270	21477270	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctttacatttgaaaggAttttttccagtatgtcttat	10	20	5	6	0	2	1	0	1	2	0	3	2	3	2	1	1	1	1	1	1	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:21477270A>T	uc002npq.1	-	4	696	c.498T>A	c.(496-498)AAT>AAA	p.N166K	ZNF708_uc002npr.1_Missense_Mutation_p.N102K|ZNF708_uc010ecs.1_Missense_Mutation_p.N102K	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	166					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						ATTTGAAAGGATTTTTTCCAG	0.328													6	52					0	0	1	0	0		T	21477270	T	T	21477270	3	4	27	1	0	0	0	0	1	0	0	0	18137	330	12	5	1197	5	ZNF708	19	21477270	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	236549	21477270	37651713	7469	29820											
ZNF493	284443	broad.mit.edu	37	chr19	21607090	21607090	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgattcacactggagaaaaAccctacaaatgtgaagaatg	18	8	8	7	0	1	4	1	2	0	2	1	5	1	4	1	1	2	0	1	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:21607090A>C	uc002npx.2	+	2	1525	c.1245A>C	c.(1243-1245)AAA>AAC	p.K415N	ZNF493_uc002npw.2_Missense_Mutation_p.K543N|ZNF493_uc002npy.2_Missense_Mutation_p.K415N	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	415					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTGGAGAAAAACCCTACAAAT	0.363													4	28					0	0	1	0	0		C	21607090	C	C	21607090	3	2	27	1	0	0	0	0	1	0	0	0	17969	40	2	5	1706	5	ZNF493	19	21607090	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	129820	21607090	37521893	7470	29821											
ZNF429	353088	broad.mit.edu	37	chr19	21720176	21720176	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacctattcctctacacttActagacataagagaattcat	14	14	3	10	0	2	2	1	0	1	2	3	3	3	2	2	0	3	0	2	0	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:21720176A>G	uc002nqd.1	+	4	1458	c.1321A>G	c.(1321-1323)ACT>GCT	p.T441A	ZNF429_uc010ecu.1_Intron	NM_001001415	NP_001001415	Q86V71	ZN429_HUMAN	zinc finger protein 429	441	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTCTACACTTACTAGACATAA	0.378													5	26					0	0	1	0	0		G	21720176	G	G	21720176	3	3	27	1	0	0	0	0	1	0	0	0	17927	391	14	3	1335	3	ZNF429	19	21720176	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	113086	21720176	37408807	7471	29822											
ZNF100	163227	broad.mit.edu	37	chr19	21909534	21909534	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttattttgtttaataaggCttagggactggttaaagtct	11	17	10	3	0	1	0	0	0	1	0	1	1	1	1	0	3	0	4	0	3	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:21909534C>A	uc002nqi.2	-	5	1779	c.1580G>T	c.(1579-1581)AGC>ATC	p.S527I	ZNF100_uc002nqh.2_Missense_Mutation_p.S463I	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	527					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTAATAAGGCTTAGGGACTG	0.348													6	55					3.59834e-05	3.83694e-05	1	1	0		A	21909534	A	A	21909534	3	1	27	1	0	0	0	0	1	0	0	0	17738	797	28	5	52	5	ZNF100	19	21909534	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	189358	21909534	37219449	7472	29823											
ZNF100	163227	broad.mit.edu	37	chr19	21910359	21910359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccagtatgaattctcCtgtgtgtagtaagggttgag	8	15	11	7	0	2	2	0	2	2	0	5	2	3	2	2	1	0	4	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:21910359C>T	uc002nqi.2	-	5	954	c.755G>A	c.(754-756)AGG>AAG	p.R252K	ZNF100_uc002nqh.2_Missense_Mutation_p.R188K	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	252	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGAATTCTCCTGTGTGTAGT	0.383													7	43					0	0	1	0	0		T	21910359	T	T	21910359	3	4	27	1	0	0	0	0	1	0	0	0	17738	681	24	4	877	4	ZNF100	19	21910359	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	825	21910359	37218624	7473	29824											
ZNF43	7594	broad.mit.edu	37	chr19	21991813	21991813	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgccacattcttcacatgtGtagggtttctctccagtatg	7	16	8	10	0	3	0	1	0	2	0	5	0	4	0	2	1	1	3	2	1	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:21991813G>A	uc002nqj.2	-	4	1156	c.1026C>T	c.(1024-1026)TAC>TAT	p.Y342Y	ZNF43_uc010ecv.2_Silent_p.Y336Y|ZNF43_uc002nql.2_Silent_p.Y336Y|ZNF43_uc002nqm.2_Silent_p.Y336Y|ZNF43_uc002nqk.2_Silent_p.Y272Y	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	342	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		CTTCACATGTGTAGGGTTTCT	0.383													4	56					0	0	1	0	0		A	21991813	A	A	21991813	2	1	27	1	0	0	0	0	0	0	0	1	17928	1372	48	4		4	ZNF43	19	21991813	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	81454	21991813	37137170	7474	29825											
ZNF257	113835	broad.mit.edu	37	chr19	22255727	22255727	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttagagaactacagaaacctGgtcttcctgggtgaggataa	13	10	11	7	0	1	3	0	1	1	2	2	5	2	4	2	3	3	0	2	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:22255727G>A	uc010ecx.2	+	2	289	c.120G>A	c.(118-120)CTG>CTA	p.L40L	ZNF257_uc010ecy.2_Silent_p.L8L	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	40	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				ACAGAAACCTGGTCTTCCTGG	0.368													5	111					0	0	1	0	0		A	22255727	A	A	22255727	2	1	27	1	0	0	0	0	0	0	0	1	17825	1335	47	4		4	ZNF257	19	22255727	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	263914	22255727	36873256	7475	29826											
ZNF676	163223	broad.mit.edu	37	chr19	22364184	22364184	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catatttgccacattgaaatActttgctctgtgtagttgtt	9	18	7	7	0	1	1	0	1	1	0	1	1	1	1	1	0	3	4	1	0	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:22364184A>G	uc002nqs.1	-	3	653	c.335T>C	c.(334-336)GTA>GCA	p.V112A		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	112					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				ACATTGAAATACTTTGCTCTG	0.318													13	115					0	0	1	0	0		G	22364184	G	G	22364184	3	3	27	1	0	0	0	0	1	0	0	0	18108	391	14	3	1435	3	ZNF676	19	22364184	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	108457	22364184	36764799	7476	29827											
ZNF99	7652	broad.mit.edu	37	chr19	22941684	22941684	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctttgccacattcttcacAtttgtagggtttctttccag	7	17	7	10	0	3	0	1	0	2	0	4	0	4	0	2	1	2	3	2	1	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:22941684A>G	uc010xrh.1	-	5	754	c.754T>C	c.(754-756)TGT>CGT	p.C252R		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				CATTCTTCACATTTGTAGGGT	0.378													6	51					0	0	1	0	0		G	22941684	G	G	22941684	3	3	27	1	0	0	0	0	1	0	0	0	18229	217	8	3	2370	3	ZNF99	19	22941684	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	577500	22941684	36187299	7477	29828											
CCNE1	898	broad.mit.edu	37	chr19	30308410	30308410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcaacaccctcttctgcagCcaaaaatgcgagcaattctt	13	9	6	13	1	3	0	0	0	3	0	3	1	3	0	2	0	6	3	2	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:30308410C>T	uc002nsn.2	+	6	607	c.424C>T	c.(424-426)CCA>TCA	p.P142S	CCNE1_uc002nso.2_Missense_Mutation_p.P127S	NM_001238	NP_001229	P24864	CCNE1_HUMAN	cyclin E1 isoform 1	142					androgen receptor signaling pathway|cell division|positive regulation of transcription, DNA-dependent|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm	androgen receptor binding|protein kinase binding|transcription coactivator activity			lung(2)	2	all_cancers(1;2.19e-31)|all_epithelial(1;1.49e-30)|all_lung(1;1.37e-11)|Lung NSC(1;2.35e-11)|Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|Epithelial(1;6.85e-98)|all cancers(1;1.38e-94)|OV - Ovarian serous cystadenocarcinoma(1;1.38e-90)|STAD - Stomach adenocarcinoma(5;5.8e-07)|GBM - Glioblastoma multiforme(4;0.0394)|Lung(7;0.092)|LUAD - Lung adenocarcinoma(5;0.115)|BRCA - Breast invasive adenocarcinoma(6;0.183)|COAD - Colon adenocarcinoma(1;0.188)|Colorectal(1;0.202)			TCTTCTGCAGCCAAAAATGCG	0.423													16	167					0	0	1	0	0		T	30308410	T	T	30308410	3	4	27	1	0	0	0	0	1	0	0	0	2923	739	26	2	442	2	CCNE1	19	30308410	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7366726	30308410	28820573	7478	29829											
C19orf2	8725	broad.mit.edu	37	chr19	30503413	30503413	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaagaaaatcaaaagaaacTtttgcccttatcagtaacac	19	9	4	9	0	2	2	2	0	0	2	2	2	2	2	1	0	3	1	1	0	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:30503413T>G	uc002nsr.2	+	10	1430	c.1400T>G	c.(1399-1401)CTT>CGT	p.L467R	C19orf2_uc002nsq.2_Missense_Mutation_p.L449R|C19orf2_uc002nss.2_Missense_Mutation_p.L427R|C19orf2_uc002nst.2_Missense_Mutation_p.L391R	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	467					protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		CAAAAGAAACTTTTGCCCTTA	0.388													5	86					0	0	1	0	0		G	30503413	G	G	30503413	3	3	27	1	0	0	0	0	1	0	0	0	1914	1609	56	5	1438	5	C19orf2	19	30503413	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	195003	30503413	28625570	7479	29830											
ZNF536	9745	broad.mit.edu	37	chr19	31039501	31039501	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccctcccgggctcctcggTaactgtgcaggacagcattg	6	9	11	15	2	0	0	0	0	0	0	4	1	3	1	3	3	3	4	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:31039501T>C	uc002nsu.1	+	4	3113	c.2975T>C	c.(2974-2976)GTA>GCA	p.V992A	ZNF536_uc010edd.1_Missense_Mutation_p.V992A	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	992					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GGCTCCTCGGTAACTGTGCAG	0.587													16	70					0	0	1	0	0		C	31039501	C	C	31039501	3	2	27	1	0	0	0	0	1	0	0	0	17999	1638	57	3	2985	3	ZNF536	19	31039501	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	536088	31039501	28089482	7480	29831											
TSHZ3	57616	broad.mit.edu	37	chr19	31769837	31769837	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catatggacactcaaatcctGcagggactcaaaggagtggc	13	7	11	10	0	2	0	2	0	0	0	3	3	3	3	1	4	1	1	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:31769837G>A	uc002nsy.3	-	2	927	c.862C>T	c.(862-864)CAG>TAG	p.Q288*		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	288	C2H2-type 2.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CTCAAATCCTGCAGGGACTCA	0.522													8	123					0	0	1	0	0		A	31769837	A	A	31769837	4	1	27	1	0	0	0	0	0	1	0	0	16651	1328	46	2	2387	2	TSHZ3	19	31769837	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	730336	31769837	27359146	7481	29832											
TSHZ3	57616	broad.mit.edu	37	chr19	31769888	31769888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacttcagcaccttctgggCgtcttccttcccttccattt	4	15	6	16	1	3	0	1	0	2	0	6	0	6	0	4	1	1	2	4	1	0	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:31769888C>T	uc002nsy.3	-	2	876	c.811G>A	c.(811-813)GCC>ACC	p.A271T		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	271					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					ACCTTCTGGGCGTCTTCCTTC	0.512													23	151					0	0	1	0	0		T	31769888	T	T	31769888	3	4	27	1	0	0	0	0	1	0	0	0	16651	768	27	1	2438	1	TSHZ3	19	31769888	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	51	31769888	27359095	7482	29833											
ZNF507	22847	broad.mit.edu	37	chr19	32844939	32844939	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaacgtgatagtggagcgAttgccaagtgctgaagaaac	13	9	13	6	2	0	3	0	2	0	1	0	5	0	4	1	1	5	2	1	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:32844939A>G	uc002nte.2	+	3	1475	c.1203A>G	c.(1201-1203)CGA>CGG	p.R401R	ZNF507_uc002ntc.2_Silent_p.R401R|ZNF507_uc010xrn.1_Silent_p.R401R|ZNF507_uc002ntd.2_Silent_p.R401R	NM_001136156	NP_001129628	Q8TCN5	ZN507_HUMAN	zinc finger protein 507	401					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|kidney(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(110;0.162)					TAGTGGAGCGATTGCCAAGTG	0.478													3	55					0	0	1	0	0		G	32844939	G	G	32844939	2	3	27	1	0	0	0	0	0	0	0	1	17978	320	12	3		3	ZNF507	19	32844939	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1075051	32844939	26284044	7483	29834											
ANKRD27	84079	broad.mit.edu	37	chr19	33117683	33117683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccatggtagtctgtggCatttaccatggcgcccttgg	5	12	13	11	1	1	0	0	0	1	0	2	0	2	0	3	5	1	3	3	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:33117683C>T	uc002ntn.1	-	16	1627	c.1471G>A	c.(1471-1473)GCC>ACC	p.A491T		NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	491	ANK 2.				early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					TAGTCTGTGGCATTTACCATG	0.612													3	18					0	0	1	0	0		T	33117683	T	T	33117683	3	4	27	1	0	0	0	0	1	0	0	0	655	710	25	2	1737	2	ANKRD27	19	33117683	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	272744	33117683	26011300	7484	29835											
GPATCH1	55094	broad.mit.edu	37	chr19	33585162	33585162	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgagtaaagagacggccacgCcgacagaaacctggtgtgta	13	5	13	10	4	0	2	0	0	0	2	0	5	0	2	3	2	1	2	3	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:33585162C>T	uc002nug.1	+	5	854	c.540C>T	c.(538-540)CGC>CGT	p.R180R		NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	180	G-patch.					catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					GACGGCCACGCCGACAGAAAC	0.348													8	85					0	0	1	0	0		T	33585162	T	T	33585162	2	4	27	1	0	0	0	0	0	0	0	1	6605	726	26	2		2	GPATCH1	19	33585162	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	467479	33585162	25543821	7485	29836											
WDR88	126248	broad.mit.edu	37	chr19	33623191	33623191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcctgggggaccatggCgagggccttaggccgcttca	5	8	16	12	2	1	0	1	0	0	0	2	2	2	1	4	5	0	2	4	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:33623191C>T	uc002nui.2	+	1	194	c.116C>T	c.(115-117)GCG>GTG	p.A39V		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	39										ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					GGGACCATGGCGAGGGCCTTA	0.672													19	61					0	0	1	0	0		T	33623191	T	T	33623191	3	4	27	1	0	0	0	0	1	0	0	0	17361	768	27	1	118	1	WDR88	19	33623191	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	38029	33623191	25505792	7486	29837											
WDR88	126248	broad.mit.edu	37	chr19	33666372	33666372	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaatgttcacccaatgcgTgttctgccggatagatacaa	12	11	9	9	2	2	2	1	1	1	1	2	3	2	3	2	1	3	2	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:33666372T>C	uc002nui.2	+	11	1391	c.1313T>C	c.(1312-1314)GTG>GCG	p.V438A		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	438										ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					ACCCAATGCGTGTTCTGCCGG	0.478													14	174					0	0	1	0	0		C	33666372	C	C	33666372	3	2	27	1	0	0	0	0	1	0	0	0	17361	1696	59	3	1355	3	WDR88	19	33666372	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	43181	33666372	25462611	7487	29838											
KCTD15	79047	broad.mit.edu	37	chr19	34292139	34292139	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctggctgcccagggcaTccccctgccagcccagctca	5	6	9	21	0	1	0	1	0	0	0	3	0	3	0	7	2	4	3	7	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:34292139T>C	uc002nuy.3	+	4	402	c.134T>C	c.(133-135)ATC>ACC	p.I45T	KCTD15_uc002nuv.2_Missense_Mutation_p.I45T|KCTD15_uc002nuw.3_Missense_Mutation_p.I45T|KCTD15_uc010xrt.1_Missense_Mutation_p.I45T|KCTD15_uc002nux.3_Missense_Mutation_p.I45T	NM_001129994	NP_001123466	Q96SI1	KCD15_HUMAN	potassium channel tetramerisation domain	45						voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	Esophageal squamous(110;0.162)					GCCCAGGGCATCCCCCTGCCA	0.607													7	68					0	0	1	0	0		C	34292139	C	C	34292139	3	2	27	1	0	0	0	0	1	0	0	0	8118	1435	50	3	140	3	KCTD15	19	34292139	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	625767	34292139	24836844	7488	29839											
KCTD15	79047	broad.mit.edu	37	chr19	34302406	34302406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctggaaccaggaccccacGcacgtcatccgcttcccgct	7	6	10	18	4	1	0	1	0	0	0	3	2	3	2	5	3	1	4	5	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:34302406G>A	uc002nuy.3	+	6	910	c.642G>A	c.(640-642)ACG>ACA	p.T214T	KCTD15_uc002nuv.2_Silent_p.T214T|KCTD15_uc002nuw.3_Silent_p.T214T|KCTD15_uc010xrt.1_Silent_p.T214T|KCTD15_uc002nux.3_Silent_p.T214T	NM_001129994	NP_001123466	Q96SI1	KCD15_HUMAN	potassium channel tetramerisation domain	214						voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	Esophageal squamous(110;0.162)					AGGACCCCACGCACGTCATCC	0.687													4	21					0	0	1	0	0		A	34302406	A	A	34302406	2	1	27	1	0	0	0	0	0	0	0	1	8118	1074	38	1		1	KCTD15	19	34302406	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10267	34302406	24826577	7489	29840											
KIAA0355	9710	broad.mit.edu	37	chr19	34839981	34839981	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctgccagctcgagtgatgaGacatcctcagccaacgggga	10	7	12	12	2	2	2	1	2	1	1	4	5	3	3	3	2	4	1	3	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:34839981G>C	uc002nvd.3	+	12	3607	c.2748G>C	c.(2746-2748)GAG>GAC	p.E916D		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	916										ovary(1)	1	Esophageal squamous(110;0.162)					CGAGTGATGAGACATCCTCAG	0.572													6	53					0	0	1	0	0		C	34839981	C	C	34839981	3	2	27	1	0	0	0	0	1	0	0	0	8186	933	33	5	2790	5	KIAA0355	19	34839981	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	537575	34839981	24289002	7490	29841											
GPI	2821	broad.mit.edu	37	chr19	34887230	34887230	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatggagtccaatgggaaaTacatcaccaaatctggaacc	16	7	8	10	0	2	0	1	0	1	0	3	3	3	3	3	3	2	0	3	3	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:34887230T>C	uc002nvg.1	+	13	1190	c.1087T>C	c.(1087-1089)TAC>CAC	p.Y363H	GPI_uc002nvf.2_Missense_Mutation_p.Y402H|GPI_uc010xrv.1_Missense_Mutation_p.Y374H|GPI_uc010xrw.1_Missense_Mutation_p.Y335H|GPI_uc010edl.1_Missense_Mutation_p.Y363H|GPI_uc002nvi.1_Missense_Mutation_p.Y26H	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	363					angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					CAATGGGAAATACATCACCAA	0.438													10	94					0	0	1	0	0		C	34887230	C	C	34887230	3	2	27	1	0	0	0	0	1	0	0	0	6626	1406	49	3	1258	3	GPI	19	34887230	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47249	34887230	24241753	7491	29842											
UBA2	10054	broad.mit.edu	37	chr19	34929585	34929585	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatgagtgtcatcctaagccGacccagagaacctttcctgg	10	10	9	12	1	1	2	1	1	0	1	3	4	3	2	5	1	2	0	5	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:34929585G>A	uc002nvk.2	+	6	565	c.495G>A	c.(493-495)CCG>CCA	p.P165P	UBA2_uc010xrx.1_Silent_p.P38P|UBA2_uc002nvl.2_Silent_p.P69P	NM_005499	NP_005490	Q9UBT2	SAE2_HUMAN	SUMO-1 activating enzyme subunit 2	165					protein sumoylation	nucleus	ATP binding|enzyme activator activity|ligase activity|metal ion binding|protein heterodimerization activity|SUMO activating enzyme activity			ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			ATCCTAAGCCGACCCAGAGAA	0.403													28	104					0	0	1	0	0		A	34929585	A	A	34929585	2	1	27	1	0	0	0	0	0	0	0	1	16854	1045	37	1		1	UBA2	19	34929585	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	42355	34929585	24199398	7492	29843											
UBA2	10054	broad.mit.edu	37	chr19	34935965	34935965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaagatggtgacattaaacGtatttctactaaggaatggg	14	12	11	4	1	1	3	0	2	1	1	1	4	1	4	0	3	2	1	0	3	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:34935965G>A	uc002nvk.2	+	8	780	c.710G>A	c.(709-711)CGT>CAT	p.R237H	UBA2_uc010xrx.1_Missense_Mutation_p.R110H|UBA2_uc002nvl.2_Missense_Mutation_p.R141H	NM_005499	NP_005490	Q9UBT2	SAE2_HUMAN	SUMO-1 activating enzyme subunit 2	237					protein sumoylation	nucleus	ATP binding|enzyme activator activity|ligase activity|metal ion binding|protein heterodimerization activity|SUMO activating enzyme activity			ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			GACATTAAACGTATTTCTACT	0.328													23	52					0	0	1	0	0		A	34935965	A	A	34935965	3	1	27	1	0	0	0	0	1	0	0	0	16854	1145	40	1	740	1	UBA2	19	34935965	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6380	34935965	24193018	7493	29844											
GRAMD1A	57655	broad.mit.edu	37	chr19	35512908	35512908	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaccagggccccggggcaGgcatccccagtgccctggtt	5	6	15	15	1	0	0	0	0	0	0	1	1	1	1	6	6	1	3	6	6	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:35512908G>T	uc010xse.1	+	16	1944	c.1807G>T	c.(1807-1809)GGC>TGC	p.G603C	GRAMD1A_uc002nxk.2_Missense_Mutation_p.G596C|GRAMD1A_uc002nxl.2_Missense_Mutation_p.G369C|GRAMD1A_uc010xsf.1_Missense_Mutation_p.G608C|GRAMD1A_uc002nxm.1_RNA|GRAMD1A_uc002nxn.1_Missense_Mutation_p.G218C	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	603						integral to membrane					0	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			CCCCGGGGCAGGCATCCCCAG	0.443													10	51					0.000442599	0.000464839	1	1	0		T	35512908	T	T	35512908	3	4	27	1	0	0	0	0	1	0	0	0	6763	1000	35	5	1869	5	GRAMD1A	19	35512908	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	576943	35512908	23616075	7494	29845											
HPN	3249	broad.mit.edu	37	chr19	35556188	35556188	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtgcctcccagctgccggCcaggccctggtggatggcaa	5	7	15	14	1	0	0	0	0	0	0	1	1	1	1	5	5	3	2	5	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:35556188C>T	uc002nxq.1	+	11	1091	c.846C>T	c.(844-846)GGC>GGT	p.G282G	HPN_uc002nxr.1_Silent_p.G282G|HPN_uc002nxs.1_Silent_p.G124G|HPN_uc010xsh.1_Silent_p.G251G|HPN_uc002nxt.1_Silent_p.G166G|LOC100128675_uc010xsi.1_Intron	NM_002151	NP_002142	P05981	HEPS_HUMAN	hepsin	282	Extracellular (Potential).|Peptidase S1.				cell growth|proteolysis	cytoplasm|integral to plasma membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2	all_lung(56;5.38e-08)|Lung NSC(56;8.61e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)		Coagulation factor VIIa(DB00036)	CAGCTGCCGGCCAGGCCCTGG	0.612													4	55					0	0	1	0	0		T	35556188	T	T	35556188	2	4	27	1	0	0	0	0	0	0	0	1	7352	726	26	2		2	HPN	19	35556188	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	43280	35556188	23572795	7495	29846											
FAM187B	148109	broad.mit.edu	37	chr19	35719391	35719391	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggaaatattggtgaggcTggtgagcctgcccttcttgc	7	13	13	8	0	1	2	0	2	1	0	1	3	1	3	2	4	3	1	2	4	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:35719391T>C	uc002nyk.1	-	1	238	c.193A>G	c.(193-195)AGC>GGC	p.S65G		NM_152481	NP_689694	Q17R55	F187B_HUMAN	family with sequence similarity 187, member B	65	Extracellular (Potential).					integral to membrane				ovary(2)	2						TTGGTGAGGCTGGTGAGCCTG	0.507													18	63					0	0	1	0	0		C	35719391	C	C	35719391	3	2	27	1	0	0	0	0	1	0	0	0	5524	1580	55	3	924	3	FAM187B	19	35719391	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	163203	35719391	23409592	7496	29847											
ATP4A	495	broad.mit.edu	37	chr19	36045887	36045887	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggggcaggggcacgctgacGgtgatgtagatgaggtaggg	9	6	21	5	2	0	4	0	3	0	1	0	4	0	4	0	7	0	5	0	7	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36045887G>A	uc002oal.1	-	16	2447	c.2418C>T	c.(2416-2418)ACC>ACT	p.T806T	ATP4A_uc010eee.1_5'UTR	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	806	Lumenal (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	GCACGCTGACGGTGATGTAGA	0.547													11	59					0	0	1	0	0		A	36045887	A	A	36045887	2	1	27	1	0	0	0	0	0	0	0	1	1146	1103	39	1		1	ATP4A	19	36045887	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	326496	36045887	23083096	7497	29848											
ATP4A	495	broad.mit.edu	37	chr19	36046363	36046363	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgctggcagctctccacGatcaccagcttctgctgggg	6	8	12	15	2	3	0	1	0	2	0	4	1	3	0	3	3	4	5	3	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36046363G>T	uc002oal.1	-	14	2165	c.2136C>A	c.(2134-2136)ATC>ATA	p.I712I	ATP4A_uc010eee.1_5'UTR	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	712	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	AGCTCTCCACGATCACCAGCT	0.672													4	31					0.0215528	0.0219246	1	1	0		T	36046363	T	T	36046363	2	4	27	1	0	0	0	0	0	0	0	1	1146	1048	37	5		5	ATP4A	19	36046363	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	476	36046363	23082620	7498	29849											
HAUS5	23354	broad.mit.edu	37	chr19	36109909	36109909	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctcctgctgagggagctAcaggccaaacagcagcggat	11	5	13	12	1	0	1	0	1	0	0	1	3	1	3	2	3	7	4	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36109909A>G	uc002oam.1	+	13	1188	c.1137A>G	c.(1135-1137)CTA>CTG	p.L379L		NM_015302	NP_056117	O94927	HAUS5_HUMAN	HAUS augmin-like complex, subunit 5	379	Potential.				cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle					0						TGAGGGAGCTACAGGCCAAAC	0.642													6	36					0	0	1	0	0		G	36109909	G	G	36109909	2	3	27	1	0	0	0	0	0	0	0	1	6985	378	14	3		3	HAUS5	19	36109909	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	63546	36109909	23019074	7499	29850											
RBM42	79171	broad.mit.edu	37	chr19	36128350	36128350	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgtctccacagggaagtAtgtgggctcgcgccccatca	7	9	11	14	2	3	0	1	0	2	0	5	1	3	1	3	2	0	2	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36128350A>T	uc002oan.2	+	10	1413	c.1337A>T	c.(1336-1338)TAT>TTT	p.Y446F	RBM42_uc010eef.2_Missense_Mutation_p.Y392F|RBM42_uc002oao.2_Missense_Mutation_p.Y424F|RBM42_uc002oap.2_Missense_Mutation_p.Y416F|RBM42_uc002oaq.2_Missense_Mutation_p.Y417F|RBM42_uc010eeg.2_Missense_Mutation_p.Y352F	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	446	Necessary for interaction with HNRNPK (By similarity).|RRM.					cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			ACAGGGAAGTATGTGGGCTCG	0.622													5	49					0	0	1	0	0		T	36128350	T	T	36128350	3	4	27	1	0	0	0	0	1	0	0	0	13161	449	16	5	1375	5	RBM42	19	36128350	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	18441	36128350	23000633	7500	29851											
UPK1A	11045	broad.mit.edu	37	chr19	36157788	36157788	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctagttgtgggcaataTcattattctggtgagactcg	8	14	11	8	1	2	1	1	1	1	1	3	2	2	1	1	2	1	3	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36157788T>A	uc002oaw.2	+	1	74	c.74T>A	c.(73-75)ATC>AAC	p.I25N	UPK1A_uc010eeh.2_Missense_Mutation_p.I25N	NM_007000	NP_008931	O00322	UPK1A_HUMAN	uroplakin 1A	25	Helical; (Potential).				epithelial cell differentiation|protein oligomerization	endoplasmic reticulum|integral to membrane	monosaccharide binding|protein homodimerization activity				0	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GTGGGCAATATCATTATTCTG	0.612													8	77					0	0	1	0	0		A	36157788	A	A	36157788	3	1	27	1	0	0	0	0	1	0	0	0	17033	1435	50	5	76	5	UPK1A	19	36157788	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	29438	36157788	22971195	7501	29852											
UPK1A	11045	broad.mit.edu	37	chr19	36159405	36159405	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatgggtgacagccgaccAgtaccgtgtatacccactga	11	8	10	12	2	0	2	0	2	0	0	0	3	0	2	4	1	3	2	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36159405A>G	uc002oaw.2	+	2	134	c.134A>G	c.(133-135)CAG>CGG	p.Q45R	UPK1A_uc010eeh.2_Missense_Mutation_p.Q45R|uc002oax.1_Missense_Mutation_p.W48R	NM_007000	NP_008931	O00322	UPK1A_HUMAN	uroplakin 1A	45	Extracellular (Potential).				epithelial cell differentiation|protein oligomerization	endoplasmic reticulum|integral to membrane	monosaccharide binding|protein homodimerization activity				0	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			ACAGCCGACCAGTACCGTGTA	0.592													3	53					0	0	1	0	0		G	36159405	G	G	36159405	3	3	27	1	0	0	0	0	1	0	0	0	17033	188	7	3	140	3	UPK1A	19	36159405	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1617	36159405	22969578	7502	29853											
MLL4	9757	broad.mit.edu	37	chr19	36224532	36224532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgaaaacccccacagtgCgtggggtccttgacctggat	9	8	13	11	1	0	2	0	2	0	0	1	4	1	4	4	4	2	0	4	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36224532C>T	uc010eei.2	+	30	6994	c.6994C>T	c.(6994-6996)CGT>TGT	p.R2332C		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2332					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.R2334C(1)		central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCCCACAGTGCGTGGGGTCCT	0.662													3	6					0	0	1	0	0		T	36224532	T	T	36224532	3	4	27	1	0	0	0	0	1	0	0	0	9641	768	27	1	7108	1	MLL4	19	36224532	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	65127	36224532	22904451	7503	29854											
MLL4	9757	broad.mit.edu	37	chr19	36229256	36229256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgcatggcaatgccgcccGcttcatcaaccactcctgtg	8	9	9	15	2	2	0	2	0	0	0	3	1	3	0	4	1	3	3	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36229256G>A	uc010eei.2	+	38	7946	c.7946G>A	c.(7945-7947)CGC>CAC	p.R2649H		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2649	SET.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AATGCCGCCCGCTTCATCAAC	0.577													3	20					0	0	1	0	0		A	36229256	A	A	36229256	3	1	27	1	0	0	0	0	1	0	0	0	9641	1087	38	1	8092	1	MLL4	19	36229256	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4724	36229256	22899727	7504	29855											
TMEM149	79713	broad.mit.edu	37	chr19	36230664	36230664	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgtgtcccctgtctccAgggcgcctggggaggacaga	6	8	14	13	1	1	1	0	0	1	1	4	3	3	3	5	4	0	0	5	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36230664A>G	uc002obc.2	-	4	769	c.668T>C	c.(667-669)CTG>CCG	p.L223P	TMEM149_uc002obb.2_Intron|TMEM149_uc002obd.3_Missense_Mutation_p.L223P|TMEM149_uc010xsy.1_RNA|TMEM149_uc010eej.2_Missense_Mutation_p.L303P	NM_024660	NP_078936	Q9H665	IGFR1_HUMAN	transmembrane protein 149 precursor	223	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding|receptor activity				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCCTGTCTCCAGGGCGCCTGG	0.647													13	132					0	0	1	0	0		G	36230664	G	G	36230664	3	3	27	1	0	0	0	0	1	0	0	0	16087	188	7	3	407	3	TMEM149	19	36230664	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1408	36230664	22898319	7505	29856											
NFKBID	84807	broad.mit.edu	37	chr19	36387924	36387924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacagcggggaactgtggggGtcctgaagggggtgcagaaa	10	5	19	7	1	0	2	0	1	0	1	1	3	1	3	1	6	3	1	1	6	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36387924G>A	uc002oci.1	-	5	617	c.43C>T	c.(43-45)CCC>TCC	p.P15S	NFKBID_uc002och.1_5'Flank|NFKBID_uc002ocj.1_Missense_Mutation_p.P30S	NM_139239	NP_640332	Q8NI38	IKBD_HUMAN	nuclear factor of kappa light polypeptide gene	15					inflammatory response	nucleus					0						AACTGTGGGGGTCCTGAAGGG	0.637													4	70					0	0	1	0	0		A	36387924	A	A	36387924	3	1	27	1	0	0	0	0	1	0	0	0	10398	1261	44	4	930	4	NFKBID	19	36387924	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	157260	36387924	22741059	7506	29857											
WDR62	284403	broad.mit.edu	37	chr19	36575648	36575648	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactccaagccagagacgggTgagcccgcagcaggggtgga	10	4	16	11	2	0	2	0	1	0	1	1	4	1	3	3	4	4	2	3	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36575648T>C	uc002odc.2	+	12	1733	c.1642_splice	c.e12+2	p.G548_splice	WDR62_uc002odd.2_Splice_Site_p.G548_splice	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2						cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CAGAGACGGGTGAGCCCGCAG	0.637													12	63					0	0	1	0	0		C	36575648	C	C	36575648	5	2	27	1	0	0	0	0	0	0	1	0	17339	1710	59	3	1690	3	WDR62	19	36575648	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	187724	36575648	22553335	7507	29858											
WDR62	284403	broad.mit.edu	37	chr19	36593712	36593712	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttcaacccacgcctgagTatctccacgcagttcctctc	7	12	5	17	2	4	1	1	1	3	0	7	1	5	1	4	0	1	3	4	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36593712T>C	uc002odc.2	+	27	3370	c.3279T>C	c.(3277-3279)AGT>AGC	p.S1093S	WDR62_uc002odd.2_Silent_p.S1098S	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	1093					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CACGCCTGAGTATCTCCACGC	0.617													3	40					0	0	1	0	0		C	36593712	C	C	36593712	2	2	27	1	0	0	0	0	0	0	0	1	17339	1635	57	3		3	WDR62	19	36593712	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18064	36593712	22535271	7508	29859											
POLR2I	5438	broad.mit.edu	37	chr19	36604659	36604659	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgggggagagaggaggtcActcggtccagcggtggccgc	6	5	19	11	4	1	1	1	0	0	1	4	4	2	3	2	7	1	0	2	7	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36604659A>G	uc002ode.2	-	6	824	c.376T>C	c.(376-378)TGA>CGA	p.*126R	POLR2I_uc002odf.2_RNA|TBCB_uc002odg.1_5'Flank|TBCB_uc002odh.1_5'Flank	NM_006233	NP_006224	P36954	RPB9_HUMAN	DNA directed RNA polymerase II polypeptide I	126					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|zinc ion binding				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			AGAGGAGGTCACTCGGTCCAG	0.557													5	23					0	0	1	0	0		G	36604659	G	G	36604659	4	3	27	1	0	0	0	0	0	0	0	0	12241	172	6	3	5	3	POLR2I	19	36604659	Nonstop_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	10947	36604659	22524324	7509	29860											
COX7A1	1346	broad.mit.edu	37	chr19	36642422	36642422	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtcaacgatgccgcccttCaggtacaacgggatgtcatt	9	11	10	11	3	3	0	3	0	0	0	3	2	3	1	2	2	4	1	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36642422C>T	uc002odm.1	-	3	591	c.129G>A	c.(127-129)CTG>CTA	p.L43L		NM_001864	NP_001855	P24310	CX7A1_HUMAN	cytochrome c oxidase subunit VIIa polypeptide 1	43	Mitochondrial matrix (By similarity).				generation of precursor metabolites and energy	integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity|electron carrier activity				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TGCCGCCCTTCAGGTACAACG	0.657													6	83					0	0	1	0	0		T	36642422	T	T	36642422	2	4	27	1	0	0	0	0	0	0	0	1	3782	813	29	4		4	COX7A1	19	36642422	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37763	36642422	22486561	7510	29861											
ZFP82	284406	broad.mit.edu	37	chr19	36883908	36883908	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttataaggtttctcaccaAtatgaatactctgatgctgt	12	16	6	7	0	2	2	1	2	2	0	3	2	2	2	1	1	2	2	1	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36883908A>T	uc002ody.1	-	5	1569	c.1334T>A	c.(1333-1335)ATT>AAT	p.I445N		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	445					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						TTTCTCACCAATATGAATACT	0.408													4	73					0	0	1	0	0		T	36883908	T	T	36883908	3	4	27	1	0	0	0	0	1	0	0	0	17678	101	4	5	268	5	ZFP82	19	36883908	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	241486	36883908	22245075	7511	29862											
ZFP82	284406	broad.mit.edu	37	chr19	36884782	36884782	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtggagtaacagatgtgcGtttctggtaagaggacacct	11	11	13	6	1	1	2	0	0	1	2	1	4	1	4	1	3	2	3	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36884782G>T	uc002ody.1	-	5	695	c.460C>A	c.(460-462)CGC>AGC	p.R154S		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	154					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						ACAGATGTGCGTTTCTGGTAA	0.428													6	94					0.00198382	0.00205548	1	1	0		T	36884782	T	T	36884782	3	4	27	1	0	0	0	0	1	0	0	0	17678	1145	40	5	1142	5	ZFP82	19	36884782	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	874	36884782	22244201	7512	29863											
ZNF566	84924	broad.mit.edu	37	chr19	36939920	36939920	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaataagttgtgggtcatAattaaagttctttccacatt	12	16	7	6	0	2	1	1	1	1	0	3	1	3	1	1	1	0	2	1	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:36939920A>G	uc002oea.3	-	5	1298	c.1216T>C	c.(1216-1218)TAT>CAT	p.Y406H	ZNF566_uc010xte.1_Missense_Mutation_p.Y406H|ZNF566_uc010xtf.1_Missense_Mutation_p.Y407H|ZNF566_uc002oeb.3_Missense_Mutation_p.Y406H|ZNF566_uc002oec.3_Missense_Mutation_p.Y302H|ZNF566_uc010xtg.1_Missense_Mutation_p.Y302H	NM_032838	NP_116227	Q969W8	ZN566_HUMAN	zinc finger protein 566 isoform 1	406					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					TGTGGGTCATAATTAAAGTTC	0.338													3	46					0	0	1	0	0		G	36939920	G	G	36939920	3	3	27	1	0	0	0	0	1	0	0	0	18022	362	13	3	44	3	ZNF566	19	36939920	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	55138	36939920	22189063	7513	29864											
ZNF529	57711	broad.mit.edu	37	chr19	37037873	37037873	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcatagggtttatcatcAgtatgaatgcgctgatgttt	10	16	9	6	1	3	2	3	2	0	0	3	2	3	2	0	1	1	4	0	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:37037873A>G	uc002oeh.3	-	5	1789	c.1587T>C	c.(1585-1587)ACT>ACC	p.T529T	ZNF529_uc010xth.1_Silent_p.T529T|ZNF529_uc010xti.1_Silent_p.T511T|ZNF529_uc002oeg.3_Silent_p.T424T	NM_020951	NP_066002	Q6P280	ZN529_HUMAN	zinc finger protein 529 isoform a	496					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	Esophageal squamous(110;0.198)					GTTTATCATCAGTATGAATGC	0.398													13	57					0	0	1	0	0		G	37037873	G	G	37037873	2	3	27	1	0	0	0	0	0	0	0	1	17995	175	7	3		3	ZNF529	19	37037873	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	97953	37037873	22091110	7514	29865											
ZNF529	57711	broad.mit.edu	37	chr19	37038467	37038467	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggtttctcaccagtatgAattctctgatgttcggtaag	9	15	10	7	1	2	2	1	2	2	0	5	2	2	2	1	2	0	4	1	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:37038467A>G	uc002oeh.3	-	5	1195	c.993T>C	c.(991-993)ATT>ATC	p.I331I	ZNF529_uc010xth.1_Silent_p.I331I|ZNF529_uc010xti.1_Silent_p.I313I|ZNF529_uc002oeg.3_Silent_p.I226I	NM_020951	NP_066002	Q6P280	ZN529_HUMAN	zinc finger protein 529 isoform a	298	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	Esophageal squamous(110;0.198)					CACCAGTATGAATTCTCTGAT	0.383													10	64					0	0	1	0	0		G	37038467	G	G	37038467	2	3	27	1	0	0	0	0	0	0	0	1	17995	242	9	3		3	ZNF529	19	37038467	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	594	37038467	22090516	7515	29866											
ZNF382	84911	broad.mit.edu	37	chr19	37100894	37100894	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtggcagcaactagacccTgctcagaaggcgctttacag	11	7	12	11	1	1	2	1	0	0	2	1	3	1	2	1	2	4	4	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:37100894T>G	uc002oek.2	+	3	191	c.78T>G	c.(76-78)CCT>CCG	p.P26P	ZNF382_uc010efa.2_Intron|ZNF382_uc010efb.2_Silent_p.P25P|ZNF382_uc002oel.2_Silent_p.P26P	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	26	Mediates interaction with TRIM28 (By similarity).|KRAB.|Represses transcription (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AACTAGACCCTGCTCAGAAGG	0.473													6	92					0	0	1	0	0		G	37100894	G	G	37100894	2	3	27	1	0	0	0	0	0	0	0	1	17898	1567	55	5		5	ZNF382	19	37100894	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	62427	37100894	22028089	7516	29867											
ZNF382	84911	broad.mit.edu	37	chr19	37117166	37117166	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatggtaaaacatttactCtaggcaagaaccgtatttca	14	14	6	7	1	2	1	1	0	1	1	2	1	2	1	1	2	3	3	1	2	8	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:37117166C>A	uc002oek.2	+	5	480	c.367C>A	c.(367-369)CTA>ATA	p.L123I	ZNF382_uc010efa.2_Missense_Mutation_p.L74I|ZNF382_uc010efb.2_Missense_Mutation_p.L122I|ZNF382_uc002oel.2_Missense_Mutation_p.L122I	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	123	Represses transcription (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AACATTTACTCTAGGCAAGAA	0.308													10	69					2.17888e-05	2.33116e-05	1	1	0		A	37117166	A	A	37117166	3	1	27	1	0	0	0	0	1	0	0	0	17898	912	32	5	377	5	ZNF382	19	37117166	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16272	37117166	22011817	7517	29868											
ZNF568	374900	broad.mit.edu	37	chr19	37441575	37441575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctatgcatgtacagtatGtggaaaagcctttagtcaga	13	11	9	8	0	1	1	1	0	0	1	1	2	1	2	2	1	3	3	2	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:37441575G>A	uc002ofc.2	+	7	2035	c.1520G>A	c.(1519-1521)TGT>TAT	p.C507Y	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Missense_Mutation_p.C431Y|ZNF568_uc010efe.2_Missense_Mutation_p.C431Y|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	507	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TGTACAGTATGTGGAAAAGCC	0.383													6	95					0	0	1	0	0		A	37441575	A	A	37441575	3	1	27	1	0	0	0	0	1	0	0	0	18024	1377	48	4	1538	4	ZNF568	19	37441575	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	324409	37441575	21687408	7518	29869											
ZNF569	148266	broad.mit.edu	37	chr19	37903927	37903927	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcataaggcttttcccctgTatgacttctcaaatgaaggg	10	14	8	9	0	2	2	2	2	1	0	4	2	3	2	2	2	0	2	2	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:37903927T>C	uc002ogi.2	-	6	2191	c.1633A>G	c.(1633-1635)ACA>GCA	p.T545A	ZNF569_uc002ogh.2_Missense_Mutation_p.T386A|ZNF569_uc002ogj.2_Missense_Mutation_p.T569A	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	545					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTTTCCCCTGTATGACTTCTC	0.388													10	73					0	0	1	0	0		C	37903927	C	C	37903927	3	2	27	1	0	0	0	0	1	0	0	0	18025	1638	57	3	431	3	ZNF569	19	37903927	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	462352	37903927	21225056	7519	29870											
ZFP30	22835	broad.mit.edu	37	chr19	38127031	38127031	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgtgagttttctgtaagtAggcattttttcagaggtggt	8	17	13	3	0	2	2	1	1	1	1	2	3	2	2	0	3	0	4	0	3	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:38127031A>G	uc002ogv.1	-	6	927	c.411T>C	c.(409-411)CCT>CCC	p.P137P	ZFP30_uc002ogw.1_Silent_p.P137P|ZFP30_uc002ogx.1_Silent_p.P137P|ZFP30_uc010xtt.1_Silent_p.P136P	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog	137					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTCTGTAAGTAGGCATTTTTT	0.408													7	101					0	0	1	0	0		G	38127031	G	G	38127031	2	3	27	1	0	0	0	0	0	0	0	1	17669	407	15	3		3	ZFP30	19	38127031	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	223104	38127031	21001952	7520	29871											
ZFP30	22835	broad.mit.edu	37	chr19	38127206	38127206	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatatctggattccaaaTctgaaagaaaacaagaccaa	18	9	6	8	0	3	3	1	1	2	2	4	4	4	4	2	1	1	0	2	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:38127206T>A	uc002ogv.1	-	6	752	c.236A>T	c.(235-237)GAT>GTT	p.D79V	ZFP30_uc002ogw.1_Missense_Mutation_p.D79V|ZFP30_uc002ogx.1_Missense_Mutation_p.D79V|ZFP30_uc010xtt.1_Missense_Mutation_p.D78V	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog	79					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GGATTCCAAATCTGAAAGAAA	0.274													6	50					0	0	1	0	0		A	38127206	A	A	38127206	3	1	27	1	0	0	0	0	1	0	0	0	17669	1449	50	5	1327	5	ZFP30	19	38127206	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	175	38127206	21001777	7521	29872											
ZNF607	84775	broad.mit.edu	37	chr19	38190323	38190323	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtcgactaagtcgtccatAcacactaaaggccttgccac	12	9	7	13	2	0	0	0	0	0	0	3	1	1	0	3	1	2	0	3	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:38190323A>G	uc002ohc.1	-	5	1305	c.709T>C	c.(709-711)TAT>CAT	p.Y237H	ZNF607_uc002ohb.1_Missense_Mutation_p.Y236H	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	237	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			AGTCGTCCATACACACTAAAG	0.428													4	57					0	0	1	0	0		G	38190323	G	G	38190323	3	3	27	1	0	0	0	0	1	0	0	0	18058	391	14	3	1385	3	ZNF607	19	38190323	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	63117	38190323	20938660	7522	29873											
ZNF607	84775	broad.mit.edu	37	chr19	38190374	38190374	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcgtagggtttctcaccatAatgaaatctatgatgtacag	12	14	8	7	1	2	2	1	2	2	0	4	2	2	2	1	1	1	3	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:38190374A>G	uc002ohc.1	-	5	1254	c.658T>C	c.(658-660)TAT>CAT	p.Y220H	ZNF607_uc002ohb.1_Missense_Mutation_p.Y219H	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	220					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			TTCTCACCATAATGAAATCTA	0.423													6	85					0	0	1	0	0		G	38190374	G	G	38190374	3	3	27	1	0	0	0	0	1	0	0	0	18058	362	13	3	1436	3	ZNF607	19	38190374	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	51	38190374	20938609	7523	29874											
ZNF607	84775	broad.mit.edu	37	chr19	38190740	38190740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggagagtaacacatgagtGtttcctataaagctgcattt	13	13	9	6	0	0	2	0	1	0	1	1	3	1	2	1	1	3	4	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:38190740G>A	uc002ohc.1	-	5	888	c.292C>T	c.(292-294)CAC>TAC	p.H98Y	ZNF607_uc002ohb.1_Missense_Mutation_p.H97Y	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	98					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			ACACATGAGTGTTTCCTATAA	0.338													6	85					0	0	1	0	0		A	38190740	A	A	38190740	3	1	27	1	0	0	0	0	1	0	0	0	18058	1377	48	4	1802	4	ZNF607	19	38190740	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	366	38190740	20938243	7524	29875											
GGN	199720	broad.mit.edu	37	chr19	38877100	38877100	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcctccgccgccccccaGcgaagctttggctgctaagg	5	6	12	18	4	0	0	0	0	0	0	1	1	1	0	7	2	3	3	7	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:38877100G>A	uc002oij.1	-	3	937	c.802C>T	c.(802-804)CTG>TTG	p.L268L	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Silent_p.L185L	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	268	Interaction with GGNBP1 (By similarity).|Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCGCCCCCCAGCGAAGCTTTG	0.652													8	47					0	0	1	0	0		A	38877100	A	A	38877100	2	1	27	1	0	0	0	0	0	0	0	1	6373	962	34	2		2	GGN	19	38877100	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	686360	38877100	20251883	7525	29876											
RASGRP4	115727	broad.mit.edu	37	chr19	38910772	38910772	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcacagggctgactcacaGgtcagaagagtctcccagtc	11	6	12	12	0	3	3	2	1	1	2	5	4	3	3	1	2	1	2	1	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:38910772G>T	uc002oir.2	-	5	722	c.508C>A	c.(508-510)CTC>ATC	p.L170I	RASGRP4_uc010efz.1_RNA|RASGRP4_uc010ega.1_RNA|RASGRP4_uc010xua.1_Missense_Mutation_p.L170I|RASGRP4_uc010xub.1_Missense_Mutation_p.L170I|RASGRP4_uc010xuc.1_Missense_Mutation_p.L170I|RASGRP4_uc010xud.1_Missense_Mutation_p.L170I|RASGRP4_uc010xue.1_Missense_Mutation_p.L170I|RASGRP4_uc010egb.2_Missense_Mutation_p.L170I	NM_170604	NP_733749	Q8TDF6	GRP4_HUMAN	RAS guanyl releasing protein 4 isoform a	170	N-terminal Ras-GEF.				activation of phospholipase C activity|cell growth|cell proliferation|myeloid cell differentiation|positive regulation of Ras protein signal transduction|regulation of G-protein coupled receptor protein signaling pathway|response to extracellular stimulus|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|membrane fraction|plasma membrane|soluble fraction	diacylglycerol binding|GTP-dependent protein binding|metal ion binding|Ras guanyl-nucleotide exchange factor activity			pancreas(1)|lung(1)|skin(1)	3	all_cancers(60;4.21e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CTGACTCACAGGTCAGAAGAG	0.592													6	39					0.0215528	0.0219246	1	1	0		T	38910772	T	T	38910772	3	4	27	1	0	0	0	0	1	0	0	0	13102	1014	35	5	1565	5	RASGRP4	19	38910772	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	33672	38910772	20218211	7526	29877											
RASGRP4	115727	broad.mit.edu	37	chr19	38912707	38912707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgaccttgctgatttccCgagggctggggcatgtcttg	5	12	13	11	1	1	2	0	2	1	0	2	3	2	2	3	3	1	3	3	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:38912707C>T	uc002oir.2	-	2	324	c.110G>A	c.(109-111)CGG>CAG	p.R37Q	RASGRP4_uc010efz.1_5'Flank|RASGRP4_uc010ega.1_5'Flank|RASGRP4_uc010xua.1_Missense_Mutation_p.R37Q|RASGRP4_uc010xub.1_Missense_Mutation_p.R37Q|RASGRP4_uc010xuc.1_Missense_Mutation_p.R37Q|RASGRP4_uc010xud.1_Missense_Mutation_p.R37Q|RASGRP4_uc010xue.1_Missense_Mutation_p.R37Q|RASGRP4_uc010egb.2_Missense_Mutation_p.R37Q	NM_170604	NP_733749	Q8TDF6	GRP4_HUMAN	RAS guanyl releasing protein 4 isoform a	37					activation of phospholipase C activity|cell growth|cell proliferation|myeloid cell differentiation|positive regulation of Ras protein signal transduction|regulation of G-protein coupled receptor protein signaling pathway|response to extracellular stimulus|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|membrane fraction|plasma membrane|soluble fraction	diacylglycerol binding|GTP-dependent protein binding|metal ion binding|Ras guanyl-nucleotide exchange factor activity			pancreas(1)|lung(1)|skin(1)	3	all_cancers(60;4.21e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GCTGATTTCCCGAGGGCTGGG	0.622													4	26					0	0	1	0	0		T	38912707	T	T	38912707	3	4	27	1	0	0	0	0	1	0	0	0	13102	652	23	1	1975	1	RASGRP4	19	38912707	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1935	38912707	20216276	7527	29878											
RYR1	6261	broad.mit.edu	37	chr19	38990633	38990633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgccttgatcgacctgctcGgacgctgtgcaccagagatg	7	8	12	14	4	0	2	0	1	0	1	2	5	0	3	4	1	2	3	4	1	0	1	rs121918593		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:38990633G>A	uc002oit.2	+	45	7430	c.7300G>A	c.(7300-7302)GGA>AGA	p.G2434R	RYR1_uc002oiu.2_Missense_Mutation_p.G2434R|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2434	Cytoplasmic.|6 X approximate repeats.		G -> R (in MHS1).		muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CGACCTGCTCGGACGCTGTGC	0.612													4	34					0	0	1	0	0		A	38990633	A	A	38990633	3	1	27	1	0	0	0	0	1	0	0	0	13793	1117	39	1	7478	1	RYR1	19	38990633	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	77926	38990633	20138350	7528	29879											
RYR1	6261	broad.mit.edu	37	chr19	39028590	39028590	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctacaattgctctgtgagggGcacaataatggtgaggagga	12	9	14	6	0	1	2	0	2	1	0	1	4	1	4	0	5	2	2	0	5	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:39028590G>A	uc002oit.2	+	84	11809	c.11679G>A	c.(11677-11679)GGG>GGA	p.G3893G	RYR1_uc002oiu.2_Silent_p.G3888G|RYR1_uc002oiv.1_Silent_p.G802G	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3893					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TCTGTGAGGGGCACAATAATG	0.572													8	66					0	0	1	0	0		A	39028590	A	A	39028590	2	1	27	1	0	0	0	0	0	0	0	1	13793	1190	42	2		2	RYR1	19	39028590	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	37957	39028590	20100393	7529	29880											
ACTN4	81	broad.mit.edu	37	chr19	39207920	39207920	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagctgcgcctcagcaaccgGcccgccttcatgccctccga	7	6	9	19	4	2	0	2	0	0	0	3	1	3	0	6	1	5	2	6	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:39207920G>A	uc002oja.1	+	10	1166	c.1107G>A	c.(1105-1107)CGG>CGA	p.R369R	ACTN4_uc010egc.1_Silent_p.R369R	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	369	Spectrin 1.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TCAGCAACCGGCCCGCCTTCA	0.627													5	33					0	0	1	0	0		A	39207920	A	A	39207920	2	1	27	1	0	0	0	0	0	0	0	1	207	1190	42	2		2	ACTN4	19	39207920	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	179330	39207920	19921063	7530	29881											
HNRNPL	3191	broad.mit.edu	37	chr19	39334720	39334720	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagagaggccttggcccgCtgggcactttgaactgagtc	7	10	14	10	1	0	4	0	3	0	1	1	5	0	4	2	3	1	2	2	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:39334720C>T	uc010xul.1	-	5	746	c.735G>A	c.(733-735)CAG>CAA	p.Q245Q	HNRNPL_uc002ojk.2_5'Flank|HNRNPL_uc002ojl.2_5'Flank|HNRNPL_uc010xum.1_Silent_p.Q112Q|HNRNPL_uc010xun.1_5'UTR	NM_001533	NP_001524	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	245	RRM 2.				nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			CCTTGGCCCGCTGGGCACTTT	0.498													11	57					0	0	1	0	0		T	39334720	T	T	39334720	2	4	27	1	0	0	0	0	0	0	0	1	7286	796	28	2		2	HNRNPL	19	39334720	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	126800	39334720	19794263	7531	29882											
PAPL	390928	broad.mit.edu	37	chr19	39597717	39597717	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatccagcaggtgtcggAcgaccaggtcagtgaggggc	9	5	15	12	2	1	1	1	1	0	0	3	3	2	2	3	5	1	1	3	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:39597717A>T	uc002oki.2	+	12	1518	c.1244A>T	c.(1243-1245)GAC>GTC	p.D415V	PAPL_uc010egl.2_Intron	NM_001004318	NP_001004318	Q6ZNF0	PAPL_HUMAN	iron/zinc purple acid phosphatase-like protein	415						extracellular region	acid phosphatase activity|metal ion binding				0						CAGGTGTCGGACGACCAGGTC	0.527													4	36					0	0	1	0	0		T	39597717	T	T	39597717	3	4	27	1	0	0	0	0	1	0	0	0	11446	275	10	5	1286	5	PAPL	19	39597717	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	262997	39597717	19531266	7532	29883											
PAK4	10298	broad.mit.edu	37	chr19	39669173	39669173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctggccaaggcagggcCgcctgccagcatcgtgcccc	6	6	12	17	2	0	0	0	0	0	0	2	0	1	0	7	3	3	2	7	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:39669173C>T	uc002okj.1	+	11	2191	c.1730C>T	c.(1729-1731)CCG>CTG	p.P577L	PAK4_uc002okl.1_Missense_Mutation_p.P577L|PAK4_uc002okn.1_Missense_Mutation_p.P577L|PAK4_uc002okm.1_Missense_Mutation_p.P424L|PAK4_uc002oko.1_Missense_Mutation_p.P424L|PAK4_uc002okp.1_Missense_Mutation_p.P487L	NM_001014831	NP_001014831	O96013	PAK4_HUMAN	p21-activated kinase 4 isoform 1	577					cellular component movement|signal transduction	Golgi apparatus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	all_cancers(60;1.03e-07)|all_epithelial(25;9.66e-08)|all_lung(34;1.58e-07)|Lung NSC(34;1.88e-07)|Ovarian(47;0.0454)		Epithelial(26;4.82e-25)|all cancers(26;2.94e-22)|Lung(45;0.000797)|LUSC - Lung squamous cell carcinoma(53;0.00113)			AAGGCAGGGCCGCCTGCCAGC	0.706													8	26					0	0	1	0	0		T	39669173	T	T	39669173	3	4	27	1	0	0	0	0	1	0	0	0	11422	652	23	1	1760	1	PAK4	19	39669173	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	71456	39669173	19459810	7533	29884											
IL28B	282617	broad.mit.edu	37	chr19	39734787	39734787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctccaaagccacggggCgctccctcacctgaggagag	9	4	12	16	2	1	2	1	1	0	1	3	3	3	2	5	3	2	1	5	3	1	0	rs144570763		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:39734787C>T	uc010xut.1	-	3	273	c.269G>A	c.(268-270)CGC>CAC	p.R90H	IL28B_uc010xuu.1_Missense_Mutation_p.R90H	NM_172139	NP_742151	Q8IZI9	IL28B_HUMAN	interleukin 28B	90					response to virus	extracellular space	cytokine activity				0	all_cancers(60;2.81e-07)|all_lung(34;7.81e-08)|Lung NSC(34;9.29e-08)|all_epithelial(25;3.9e-07)|Ovarian(47;0.0315)		Epithelial(26;1.55e-27)|all cancers(26;1.41e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			AGCCACGGGGCGCTCCCTCAC	0.378													7	44					0	0	1	0	0		T	39734787	T	T	39734787	3	4	27	1	0	0	0	0	1	0	0	0	7699	768	27	1	332	1	IL28B	19	39734787	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	65614	39734787	19394196	7534	29885											
IL28A	282616	broad.mit.edu	37	chr19	39760407	39760407	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagcccacggcagggcccagGacccggggccgcctccacca	7	1	13	20	3	0	0	0	0	0	0	1	1	1	1	7	5	1	1	7	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:39760407G>A	uc002oku.1	+	5	502	c.450G>A	c.(448-450)AGG>AGA	p.R150R		NM_172138	NP_742150	Q8IZJ0	IL28A_HUMAN	interleukin 28A precursor	150					response to virus	extracellular space	cytokine activity			ovary(1)|skin(1)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;5.39e-26)|all cancers(26;4.1e-23)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			CAGGGCCCAGGACCCGGGGCC	0.677													4	54					0	0	1	0	0		A	39760407	A	A	39760407	2	1	27	1	0	0	0	0	0	0	0	1	7698	1165	41	4		4	IL28A	19	39760407	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	25620	39760407	19368576	7535	29886											
LRFN1	57622	broad.mit.edu	37	chr19	39804819	39804819	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcagaggcagaggtaccacGcacacctccacgggcgccgt	10	4	12	15	4	1	2	1	0	0	2	2	2	2	2	4	3	1	3	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:39804819G>A	uc002okw.2	-	1	1158	c.1158C>T	c.(1156-1158)TGC>TGT	p.C386C		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	386	Ig-like.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane				ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			GAGGTACCACGCACACCTCCA	0.677													4	29					0	0	1	0	0		A	39804819	A	A	39804819	2	1	27	1	0	0	0	0	0	0	0	1	8955	1079	38	1		1	LRFN1	19	39804819	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	44412	39804819	19324164	7536	29887											
MED29	55588	broad.mit.edu	37	chr19	39888188	39888188	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaagcccgacgcagtgcAgcctgacagcctcccctacc	9	4	8	20	2	0	1	0	1	0	0	1	2	1	1	7	0	5	2	7	0	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:39888188A>C	uc002olf.2	+	4	552	c.515A>C	c.(514-516)CAG>CCG	p.Q172P	MED29_uc010xuw.1_Missense_Mutation_p.S149R|MED29_uc010xux.1_RNA	NM_017592	NP_060062	Q9NX70	MED29_HUMAN	mediator complex subunit 29	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mediator complex	protein binding			ovary(1)|pancreas(1)	2	all_cancers(60;7.82e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.88e-06)|Ovarian(47;0.0512)		Epithelial(26;1.04e-26)|all cancers(26;7.68e-24)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			GACGCAGTGCAGCCTGACAGC	0.602											OREG0025460	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	36					0	0	1	0	0		C	39888188	C	C	39888188	3	2	27	1	0	0	0	0	1	0	0	0	9465	188	7	5	529	5	MED29	19	39888188	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	83369	39888188	19240795	7537	29888											
PLEKHG2	64857	broad.mit.edu	37	chr19	39906037	39906037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgagcgtggagcaggtggGcacgctgtttgccaacattg	7	9	16	9	2	0	1	0	1	0	0	0	2	0	2	1	3	4	5	1	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:39906037G>A	uc010xuz.1	+	4	762	c.437G>A	c.(436-438)GGC>GAC	p.G146D	PLEKHG2_uc010xuy.1_Missense_Mutation_p.G87D|PLEKHG2_uc002olj.2_Missense_Mutation_p.G146D|PLEKHG2_uc010xva.1_5'UTR	NM_022835	NP_073746	Q9H7P9	PKHG2_HUMAN	common-site lymphoma/leukemia guanine nucleotide	146	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			skin(2)|pancreas(1)|breast(1)	4	all_cancers(60;3.08e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;6.57e-07)|Ovarian(47;0.0569)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GAGCAGGTGGGCACGCTGTTT	0.622													7	49					0	0	1	0	0		A	39906037	A	A	39906037	3	1	27	1	0	0	0	0	1	0	0	0	12088	1203	42	2	447	2	PLEKHG2	19	39906037	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17849	39906037	19222946	7538	29889											
DLL3	10683	broad.mit.edu	37	chr19	39995888	39995888	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagacacccaggtcctttgAatgcacctgcccgcgtgggt	7	8	13	13	2	0	2	0	1	0	1	1	3	1	2	4	3	2	1	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:39995888A>T	uc002olx.2	+	6	948	c.890A>T	c.(889-891)GAA>GTA	p.E297V	DLL3_uc010egq.2_Missense_Mutation_p.E297V|DLL3_uc002olw.2_Missense_Mutation_p.E297V	NM_016941	NP_058637	Q9NYJ7	DLL3_HUMAN	delta-like 3 protein isoform 1 precursor	297	EGF-like 2.|Extracellular (Potential).				Notch signaling pathway|skeletal system development	integral to membrane	Notch binding			central_nervous_system(2)|breast(1)	3	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			AGGTCCTTTGAATGCACCTGC	0.597													6	44					0	0	1	0	0		T	39995888	T	T	39995888	3	4	27	1	0	0	0	0	1	0	0	0	4573	246	9	5	912	5	DLL3	19	39995888	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	89851	39995888	19133095	7539	29890											
LGALS14	56891	broad.mit.edu	37	chr19	40197239	40197239	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctccataccctggcaggtAccatacacactgcctgtttc	8	11	6	16	0	1	0	0	0	1	0	3	0	1	0	4	2	4	3	4	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:40197239A>G	uc002omg.2	+	2	241	c.18A>G	c.(16-18)GTA>GTG	p.V6V	LGALS14_uc002omf.2_Silent_p.V35V	NM_020129	NP_064514	Q8TCE9	PPL13_HUMAN	lectin, galactoside-binding, soluble, 14 isoform	6	Galectin.			SLPV -> ITPG (in Ref. 1; AAP97241).		nucleus	sugar binding			ovary(1)|skin(1)	2	all_cancers(60;4.39e-06)|all_lung(34;6.76e-08)|Lung NSC(34;7.98e-08)|Ovarian(47;0.06)	Myeloproliferative disorder(2;0.0741)	Epithelial(26;1.08e-24)|OV - Ovarian serous cystadenocarcinoma(5;1.92e-24)|all cancers(26;4.12e-22)			CCTGGCAGGTACCATACACAC	0.502													20	207					0	0	1	0	0		G	40197239	G	G	40197239	2	3	27	1	0	0	0	0	0	0	0	1	8757	378	14	3		3	LGALS14	19	40197239	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	201351	40197239	18931744	7540	29891											
DYRK1B	9149	broad.mit.edu	37	chr19	40321416	40321416	+	Missense_Mutation	SNP	G	C	C																															gaggcagtagccgcacatcaGgcaatacctgcagggcaggg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:40321416G>C	uc002omj.2	-	3	351	c.71C>G	c.(70-72)CCT>CGT	p.P24R	DYRK1B_uc002omi.2_Missense_Mutation_p.P24R|DYRK1B_uc002omk.2_Missense_Mutation_p.P24R|DYRK1B_uc002oml.2_Missense_Mutation_p.P24R	NM_004714	NP_004705	Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	24					positive regulation of transcription, DNA-dependent	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|transcription coactivator activity			ovary(4)|stomach(1)|central_nervous_system(1)|skin(1)	7	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)		Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)			CCGCACATCAGGCAATACCTG	0.592													3	40					0	0	1	0	0		C	40321416	C	C	40321416	3	2	27	1	0	0	0	0	1	0	0	0	4861	1000	35	5	1854	5	DYRK1B	19	40321416	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	124177	40321416	18807567	7541	29892	61	2									
DYRK1B	9149	broad.mit.edu	37	chr19	40321423	40321423	+	Missense_Mutation	SNP	C	T	T																															tagccgcacatcaggcaataCctgcagggcagggtgagggg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:40321423C>T	uc002omj.2	-	3	344	c.64G>A	c.(64-66)GTA>ATA	p.V22I	DYRK1B_uc002omi.2_Missense_Mutation_p.V22I|DYRK1B_uc002omk.2_Missense_Mutation_p.V22I|DYRK1B_uc002oml.2_Missense_Mutation_p.V22I	NM_004714	NP_004705	Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	22					positive regulation of transcription, DNA-dependent	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|transcription coactivator activity			ovary(4)|stomach(1)|central_nervous_system(1)|skin(1)	7	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)		Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)			TCAGGCAATACCTGCAGGGCA	0.577													4	37					0	0	1	0	0		T	40321423	T	T	40321423	3	4	27	1	0	0	0	0	1	0	0	0	4861	521	18	4	1861	4	DYRK1B	19	40321423	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7	40321423	18807560	7542	29893	61	2									
FCGBP	8857	broad.mit.edu	37	chr19	40362933	40362933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcccgcaggcctcgttgCtctcatagggtgcagtctcc	4	10	12	15	2	2	0	1	0	2	0	5	0	2	0	3	2	3	5	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:40362933C>T	uc002omp.3	-	32	15145	c.15137G>A	c.(15136-15138)AGC>AAC	p.S5046N		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	5046	VWFD 12.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GGCCTCGTTGCTCTCATAGGG	0.687													8	79					0	0	1	0	0		T	40362933	T	T	40362933	3	4	27	1	0	0	0	0	1	0	0	0	5792	797	28	2	1100	2	FCGBP	19	40362933	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	41510	40362933	18766050	7543	29894											
FCGBP	8857	broad.mit.edu	37	chr19	40364395	40364395	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcacagggcaggagtcAccgcagagctcatagtggct	10	6	13	12	1	3	1	3	0	0	1	3	2	3	2	1	3	2	5	1	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:40364395A>G	uc002omp.3	-	31	14255	c.14247T>C	c.(14245-14247)GGT>GGC	p.G4749G		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4749	TIL 11.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GGCAGGAGTCACCGCAGAGCT	0.647													11	20					0	0	1	0	0		G	40364395	G	G	40364395	2	3	27	1	0	0	0	0	0	0	0	1	5792	146	6	3		3	FCGBP	19	40364395	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1462	40364395	18764588	7544	29895											
PSMC4	5704	broad.mit.edu	37	chr19	40485987	40485987	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcactctcagccgacagggaGgttcagaggatcctgctgga	9	7	14	11	1	2	1	2	0	1	1	4	5	3	4	2	4	2	3	2	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:40485987G>A	uc002omq.2	+	8	889	c.852G>A	c.(850-852)GAG>GAA	p.E284E	PSMC4_uc002omr.2_Silent_p.E253E	NM_006503	NP_006494	P43686	PRS6B_HUMAN	proteasome 26S ATPase subunit 4 isoform 1	284					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding			ovary(1)	1	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					CCGACAGGGAGGTTCAGAGGA	0.552													8	46					0	0	1	0	0		A	40485987	A	A	40485987	2	1	27	1	0	0	0	0	0	0	0	1	12711	991	35	4		4	PSMC4	19	40485987	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	121592	40485987	18642996	7545	29896											
ZNF546	339327	broad.mit.edu	37	chr19	40521505	40521505	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcacacgggtgagaaaccCtataaatgtaaagaatgtgg	15	9	11	6	1	1	2	1	1	0	2	1	3	1	2	1	2	1	2	1	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:40521505C>A	uc002oms.2	+	7	2584	c.2328C>A	c.(2326-2328)CCC>CCA	p.P776P	ZNF546_uc002omt.2_Silent_p.P750P	NM_178544	NP_848639	Q86UE3	ZN546_HUMAN	zinc finger protein 546	776					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					GTGAGAAACCCTATAAATGTA	0.383													4	44					0.150653	0.151846	1	1	0		A	40521505	A	A	40521505	2	1	27	1	0	0	0	0	0	0	0	1	18003	668	24	5		5	ZNF546	19	40521505	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	35518	40521505	18607478	7546	29897											
ZNF780B	163131	broad.mit.edu	37	chr19	40541784	40541784	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaaagggtttctcgccagTatgaattcggcaatgttcaa	11	13	9	8	2	3	1	2	1	1	0	5	1	3	1	1	2	0	4	1	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:40541784T>C	uc002omu.2	-	5	1047	c.982A>G	c.(982-984)ACT>GCT	p.T328A	ZNF780B_uc002omv.2_Missense_Mutation_p.T180A	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	328					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TTCTCGCCAGTATGAATTCGG	0.398													3	88					0	0	1	0	0		C	40541784	C	C	40541784	3	2	27	1	0	0	0	0	1	0	0	0	18178	1638	57	3	1523	3	ZNF780B	19	40541784	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20279	40541784	18587199	7547	29898											
ZNF780A	284323	broad.mit.edu	37	chr19	40581085	40581085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgattaaagcctttcccacActccttacattcatatggtt	11	14	4	12	1	1	0	1	0	0	0	3	1	3	0	3	1	2	1	3	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:40581085A>G	uc002omy.2	-	6	1489	c.1264T>C	c.(1264-1266)TGT>CGT	p.C422R	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.C422R|ZNF780A_uc010xvh.1_Missense_Mutation_p.C423R	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	422	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					CCTTTCCCACACTCCTTACAT	0.388													17	202					0	0	1	0	0		G	40581085	G	G	40581085	3	3	27	1	0	0	0	0	1	0	0	0	18177	159	6	3	792	3	ZNF780A	19	40581085	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	39301	40581085	18547898	7548	29899											
PLD3	23646	broad.mit.edu	37	chr19	40882661	40882661	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgccctgcgtgacaaccatAcccactctgacatccaggtg	9	8	8	16	1	1	2	0	2	1	0	2	2	2	2	4	1	4	0	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:40882661A>G	uc002onm.3	+	11	1563	c.1165A>G	c.(1165-1167)ACC>GCC	p.T389A	PLD3_uc002onj.3_Missense_Mutation_p.T389A|PLD3_uc002onk.3_Missense_Mutation_p.T389A|PLD3_uc002onl.3_Missense_Mutation_p.T389A|PLD3_uc002onn.2_Missense_Mutation_p.T389A	NM_001031696	NP_001026866	Q8IV08	PLD3_HUMAN	phospholipase D3	389	Lumenal (Potential).				lipid catabolic process	endoplasmic reticulum membrane|integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity|protein binding			skin(2)|ovary(1)	3			Lung(22;0.000636)|LUSC - Lung squamous cell carcinoma(20;0.00248)			TGACAACCATACCCACTCTGA	0.632													4	33					0	0	1	0	0		G	40882661	G	G	40882661	3	3	27	1	0	0	0	0	1	0	0	0	12066	391	14	3	1199	3	PLD3	19	40882661	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	301576	40882661	18246322	7549	29900											
NUMBL	9253	broad.mit.edu	37	chr19	41183257	41183257	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgtgaccccacattcctTctcccgtcgctgttttcgct	3	13	8	17	4	1	1	0	1	1	0	5	1	2	1	5	1	0	3	5	1	0	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:41183257T>C	uc002oon.2	-	7	778	c.610A>G	c.(610-612)AAG>GAG	p.K204E	NUMBL_uc010xvq.1_Missense_Mutation_p.K163E|NUMBL_uc002ooo.2_Missense_Mutation_p.K204E|NUMBL_uc010xvr.1_Missense_Mutation_p.K163E	NM_004756	NP_004747	Q9Y6R0	NUMBL_HUMAN	numb homolog (Drosophila)-like	204	PID.				cytokine-mediated signaling pathway|lateral ventricle development|neuroblast division in subventricular zone|protein metabolic process	cytoplasm	protein binding			lung(3)|ovary(1)|breast(1)	5			Lung(22;0.000393)|LUSC - Lung squamous cell carcinoma(20;0.00105)			CCACATTCCTTCTCCCGTCGC	0.677													5	37					0	0	1	0	0		C	41183257	C	C	41183257	3	2	27	1	0	0	0	0	1	0	0	0	10771	1792	62	3	1235	3	NUMBL	19	41183257	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	300596	41183257	17945726	7550	29901											
CYP2A6	1548	broad.mit.edu	37	chr19	41355868	41355868	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagtgaatggtgaacacgggGccatagcgctcactgatctg	11	8	13	9	2	2	3	1	3	1	0	2	3	2	3	1	3	2	1	1	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:41355868G>A	uc002opl.3	-	2	219	c.198C>T	c.(196-198)GGC>GGT	p.G66G	CYP2A6_uc010ehe.1_Intron|CYP2A6_uc010ehf.1_RNA	NM_000762	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A,	66					coumarin catabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|enzyme binding|heme binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Chlorzoxazone(DB00356)|Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Formoterol(DB00983)|Halothane(DB01159)|Letrozole(DB01006)|Methoxsalen(DB00553)|Metyrapone(DB01011)|Nicotine(DB00184)|Pilocarpine(DB01085)|Tolbutamide(DB01124)|Tranylcypromine(DB00752)	TGAACACGGGGCCATAGCGCT	0.617													4	55					0	0	1	0	0		A	41355868	A	A	41355868	2	1	27	1	0	0	0	0	0	0	0	1	4165	1190	42	2		2	CYP2A6	19	41355868	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	172611	41355868	17773115	7551	29902											
CYP2B6	1555	broad.mit.edu	37	chr19	41518216	41518216	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtacagagagagtctacagGgagattgaacaggtgattgg	13	9	15	4	0	1	5	0	2	1	3	1	7	1	5	0	3	3	1	0	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:41518216G>A	uc002opr.1	+	7	985	c.978G>A	c.(976-978)AGG>AGA	p.R326R	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Silent_p.R126R	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	326					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	GAGTCTACAGGGAGATTGAAC	0.353													4	45					0	0	1	0	0		A	41518216	A	A	41518216	2	1	27	1	0	0	0	0	0	0	0	1	4167	1223	43	4		4	CYP2B6	19	41518216	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	162348	41518216	17610767	7552	29903											
CYP2A13	1553	broad.mit.edu	37	chr19	41594537	41594537	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgaacacagagcagaTgtacaactccctcatgaagg	14	6	10	11	0	1	4	1	2	0	2	2	4	2	4	1	1	5	4	1	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:41594537T>A	uc002opt.2	+	1	170	c.161T>A	c.(160-162)ATG>AAG	p.M54K		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	54					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	ACAGAGCAGATGTACAACTCC	0.602													13	97					0	0	1	0	0		A	41594537	A	A	41594537	3	1	27	1	0	0	0	0	1	0	0	0	4164	1464	51	5	163	5	CYP2A13	19	41594537	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	76321	41594537	17534446	7553	29904											
CYP2S1	29785	broad.mit.edu	37	chr19	41704403	41704403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccctgctgctggcccaggCcacctccaacgtagtctgct	5	9	9	18	1	1	0	0	0	1	0	3	0	3	0	5	2	4	4	5	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:41704403C>T	uc002opw.2	+	4	585	c.530C>T	c.(529-531)GCC>GTC	p.A177V	CYP2F1_uc010xvw.1_Intron|CYP2S1_uc010xvx.1_Intron	NM_030622	NP_085125	Q96SQ9	CP2S1_HUMAN	cytochrome P450, family 2, subfamily S,	177					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity			skin(1)	1						CTGGCCCAGGCCACCTCCAAC	0.647													10	103					0	0	1	0	0		T	41704403	T	T	41704403	3	4	27	1	0	0	0	0	1	0	0	0	4177	739	26	2	544	2	CYP2S1	19	41704403	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	109866	41704403	17424580	7554	29905											
CCDC97	90324	broad.mit.edu	37	chr19	41825542	41825542	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctatatgagcagtacaTcgggcagtatctcacccagg	10	9	10	12	1	1	1	1	1	1	0	3	1	1	1	2	2	3	5	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:41825542T>A	uc002oqg.2	+	3	688	c.566T>A	c.(565-567)ATC>AAC	p.I189N	CYP2F1_uc010xvw.1_Intron	NM_052848	NP_443080	Q96F63	CCD97_HUMAN	coiled-coil domain containing 97	189											0						GAGCAGTACATCGGGCAGTAT	0.657													6	95					0	0	1	0	0		A	41825542	A	A	41825542	3	1	27	1	0	0	0	0	1	0	0	0	2878	1435	50	5	576	5	CCDC97	19	41825542	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	121139	41825542	17303441	7555	29906											
TMEM91	641649	broad.mit.edu	37	chr19	41889623	41889623	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccactgcctctacagaccAacaaggcttgggccaagggg	10	5	12	14	0	1	1	0	0	1	1	1	1	1	1	4	4	3	1	4	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:41889623A>G	uc002oqk.3	+	4	715	c.364A>G	c.(364-366)AAC>GAC	p.N122D	CYP2F1_uc010xvw.1_Intron|TMEM91_uc002oqi.2_3'UTR|TMEM91_uc010ehq.2_Intron|TMEM91_uc002oql.2_3'UTR|TMEM91_uc010ehr.2_Intron|TMEM91_uc010ehs.2_Intron|TMEM91_uc010eht.2_Intron|BCKDHA_uc002oqm.3_Intron|TMEM91_uc002oqn.2_3'UTR	NM_001098821	NP_001092291	Q6ZNR0	TMM91_HUMAN	transmembrane protein 91 isoform a	122					response to biotic stimulus	integral to membrane					0						TCTACAGACCAACAAGGCTTG	0.662													8	71					0	0	1	0	0		G	41889623	G	G	41889623	3	3	27	1	0	0	0	0	1	0	0	0	16245	130	5	3	438	3	TMEM91	19	41889623	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	64081	41889623	17239360	7556	29907											
B3GNT8	374907	broad.mit.edu	37	chr19	41931597	41931597	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagcacagtggtccgcagTgcggtctgctggccaggctg	7	7	16	11	2	1	0	0	0	1	0	2	1	2	0	2	4	3	4	2	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:41931597T>C	uc002oqs.2	-	3	1541	c.1087A>G	c.(1087-1089)ACT>GCT	p.T363A	CYP2F1_uc010xvw.1_Intron|B3GNT8_uc002oqt.1_Intron	NM_198540	NP_940942	Q7Z7M8	B3GN8_HUMAN	UDP-GlcNAc:betaGal	363	Lumenal (Potential).				poly-N-acetyllactosamine biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity|protein N-acetylglucosaminyltransferase activity				0						TGGTCCGCAGTGCGGTCTGCT	0.652													8	71					0	0	1	0	0		C	41931597	C	C	41931597	3	2	27	1	0	0	0	0	1	0	0	0	1264	1696	59	3	110	3	B3GNT8	19	41931597	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	41974	41931597	17197386	7557	29908											
CEACAM6	4680	broad.mit.edu	37	chr19	42265942	42265942	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaggggaaaatctgaacCtctcctgccacgcagcctct	9	8	9	15	1	3	1	0	1	3	0	5	2	4	2	5	2	3	1	5	2	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42265942C>A	uc002orm.2	+	4	918	c.769C>A	c.(769-771)CTC>ATC	p.L257I		NM_002483	NP_002474	P40199	CEAM6_HUMAN	carcinoembryonic antigen-related cell adhesion	257	Ig-like C2-type 2.				cell-cell signaling|signal transduction	anchored to membrane|integral to plasma membrane				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(3;0.00575)|all cancers(3;0.0352)|Epithelial(262;0.0797)		AAATCTGAACCTCTCCTGCCA	0.517													17	72					0.0332995	0.03382	1	1	0		A	42265942	A	A	42265942	3	1	27	1	0	0	0	0	1	0	0	0	3199	681	24	5	783	5	CEACAM6	19	42265942	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	334345	42265942	16863041	7558	29909											
CEACAM3	1084	broad.mit.edu	37	chr19	42301727	42301727	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	taggaactcaacaagctaccCcaggggccgcatacagcggt	12	5	11	13	2	1	0	1	0	0	0	1	1	1	1	3	4	6	2	3	4	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42301727C>A	uc002orn.1	+	2	347	c.271C>A	c.(271-273)CCA>ACA	p.P91T	CEACAM3_uc010eia.1_Missense_Mutation_p.P91T|CEACAM3_uc002oro.1_RNA	NM_001815	NP_001806	P40198	CEAM3_HUMAN	carcinoembryonic antigen-related cell adhesion	91	Ig-like V-type.|Extracellular (Potential).					integral to membrane				skin(1)	1						ACAAGCTACCCCAGGGGCCGC	0.478													12	186					1.61879e-10	1.79257e-10	1	1	0		A	42301727	A	A	42301727	3	1	27	1	0	0	0	0	1	0	0	0	3196	623	22	5	277	5	CEACAM3	19	42301727	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	35785	42301727	16827256	7559	29910											
CD79A	973	broad.mit.edu	37	chr19	42383300	42383300	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggggcatatacgtgtgccGggtccaggagggcaacgagt	8	7	18	8	3	0	0	0	0	0	0	1	2	1	1	2	5	3	2	2	5	3	2	rs143511203		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42383300G>A	uc002orv.2	+	2	505	c.320G>A	c.(319-321)CGG>CAG	p.R107Q	CD79A_uc002oru.2_Intron	NM_001783	NP_001774	P11912	CD79A_HUMAN	CD79A antigen isoform 1 precursor	107	Ig-like C2-type.|Extracellular (Potential).				B cell differentiation|B cell proliferation|B cell receptor signaling pathway	B cell receptor complex|external side of plasma membrane|integral to membrane|membrane raft|multivesicular body	transmembrane receptor activity			ovary(2)|pancreas(1)	3						TACGTGTGCCGGGTCCAGGAG	0.642			O|S		DLBCL								5	61					0	0	1	0	0		A	42383300	A	A	42383300	3	1	27	1	0	0	0	0	1	0	0	0	3039	1116	39	1	326	1	CD79A	19	42383300	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	81573	42383300	16745683	7560	29911											
CD79A	973	broad.mit.edu	37	chr19	42383344	42383344	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagcagtcctgcggcaccTacctccgcgtgcgccgtgag	6	6	12	17	5	0	1	0	1	0	0	2	1	2	1	6	1	4	2	6	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42383344T>C	uc002orv.2	+	2	549	c.364T>C	c.(364-366)TAC>CAC	p.Y122H	CD79A_uc002oru.2_Intron	NM_001783	NP_001774	P11912	CD79A_HUMAN	CD79A antigen isoform 1 precursor	122	Extracellular (Potential).				B cell differentiation|B cell proliferation|B cell receptor signaling pathway	B cell receptor complex|external side of plasma membrane|integral to membrane|membrane raft|multivesicular body	transmembrane receptor activity			ovary(2)|pancreas(1)	3						CTGCGGCACCTACCTCCGCGT	0.607			O|S		DLBCL								6	33					0	0	1	0	0		C	42383344	C	C	42383344	3	2	27	1	0	0	0	0	1	0	0	0	3039	1522	53	3	370	3	CD79A	19	42383344	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	44	42383344	16745639	7561	29912											
ARHGEF1	9138	broad.mit.edu	37	chr19	42396773	42396773	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggccggcagctggaggActtccgttccaagcggctca	6	7	15	13	4	1	0	1	0	0	0	3	2	3	2	3	5	2	4	3	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42396773A>G	uc002orx.2	+	7	576	c.467A>G	c.(466-468)GAC>GGC	p.D156G	ARHGEF1_uc002orw.1_Missense_Mutation_p.D156G|ARHGEF1_uc002ory.2_Missense_Mutation_p.D123G|ARHGEF1_uc002orz.2_5'UTR|ARHGEF1_uc002osa.2_Missense_Mutation_p.D171G|ARHGEF1_uc002osb.2_Missense_Mutation_p.D138G|ARHGEF1_uc002osc.2_5'Flank	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	156	RGSL.				cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		CAGCTGGAGGACTTCCGTTCC	0.682													3	52					0	0	1	0	0		G	42396773	G	G	42396773	3	3	27	1	0	0	0	0	1	0	0	0	893	275	10	3	538	3	ARHGEF1	19	42396773	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	13429	42396773	16732210	7562	29913											
GRIK5	2901	broad.mit.edu	37	chr19	42557982	42557982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgggtctgctcacctcacGgtggccctgccgggactttt	3	11	12	15	2	3	0	2	0	1	0	3	1	3	1	4	4	2	1	4	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42557982G>A	uc002osj.1	-	9	1191	c.1156C>T	c.(1156-1158)CGT>TGT	p.R386C	GRIK5_uc010eib.1_Missense_Mutation_p.R305C	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	386	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	CTCACCTCACGGTGGCCCTGC	0.647													3	40					0	0	1	0	0		A	42557982	A	A	42557982	3	1	27	1	0	0	0	0	1	0	0	0	6793	1116	39	1	1830	1	GRIK5	19	42557982	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	161209	42557982	16571001	7563	29914											
ZNF574	64763	broad.mit.edu	37	chr19	42584439	42584439	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactgtggcaaggctttcAcgcaaagctccacactgagg	10	7	13	11	1	1	1	1	1	0	0	2	2	2	2	1	4	1	4	1	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42584439A>G	uc002osm.3	+	2	1850	c.1681A>G	c.(1681-1683)ACG>GCG	p.T561A	ZNF574_uc002osk.3_Missense_Mutation_p.T651A	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	561	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				CAAGGCTTTCACGCAAAGCTC	0.632													6	83					0	0	1	0	0		G	42584439	G	G	42584439	3	3	27	1	0	0	0	0	1	0	0	0	18031	159	6	3	1683	3	ZNF574	19	42584439	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26457	42584439	16544544	7564	29915											
ZNF574	64763	broad.mit.edu	37	chr19	42584644	42584644	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtgcaccagctcgtggTccatgccgggcgccagcccc	5	5	15	16	3	0	0	0	0	0	0	2	1	1	1	6	4	4	2	6	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42584644T>A	uc002osm.3	+	2	2055	c.1886T>A	c.(1885-1887)GTC>GAC	p.V629D	ZNF574_uc002osk.3_Missense_Mutation_p.V719D	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	629	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				CAGCTCGTGGTCCATGCCGGG	0.682													10	68					0	0	1	0	0		A	42584644	A	A	42584644	3	1	27	1	0	0	0	0	1	0	0	0	18031	1667	58	5	1888	5	ZNF574	19	42584644	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	205	42584644	16544339	7565	29916											
ERF	2077	broad.mit.edu	37	chr19	42753689	42753689	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttcctccagctctgacgtgCcatcactacagtcactgact	8	11	7	15	1	3	2	2	2	1	0	5	2	5	2	3	0	3	2	3	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42753689C>T	uc002ote.3	-	4	733	c.575G>A	c.(574-576)GGC>GAC	p.G192D	ERF_uc002otd.3_5'UTR	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	192					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				CTCTGACGTGCCATCACTACA	0.692													18	48					0	0	1	0	0		T	42753689	T	T	42753689	3	4	27	1	0	0	0	0	1	0	0	0	5229	739	26	2	1075	2	ERF	19	42753689	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	169045	42753689	16375294	7566	29917											
CIC	23152	broad.mit.edu	37	chr19	42796488	42796488	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcgggcgggcacgcgctGcccctgggtaccagccctgc	4	5	15	17	4	1	0	1	0	0	0	1	0	1	0	4	3	5	3	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42796488G>A	uc002otf.1	+	13	3085	c.3045G>A	c.(3043-3045)CTG>CTA	p.L1015L		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1015	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				GGCACGCGCTGCCCCTGGGTA	0.682			T	DUX4	soft tissue sarcoma								4	85					0	0	1	0	0		A	42796488	A	A	42796488	2	1	27	1	0	0	0	0	0	0	0	1	3427	1306	46	2		2	CIC	19	42796488	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	42799	42796488	16332495	7567	29918											
CIC	23152	broad.mit.edu	37	chr19	42796740	42796740	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaagccccactgctggcTcccggtcaggtgggcgtgtc	4	7	15	15	2	1	0	1	0	0	0	3	0	2	0	4	5	2	2	4	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42796740T>C	uc002otf.1	+	14	3238	c.3198T>C	c.(3196-3198)GCT>GCC	p.A1066A		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1066	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				CACTGCTGGCTCCCGGTCAGG	0.642			T	DUX4	soft tissue sarcoma								3	78					0	0	1	0	0		C	42796740	C	C	42796740	2	2	27	1	0	0	0	0	0	0	0	1	3427	1538	54	3		3	CIC	19	42796740	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	252	42796740	16332243	7568	29919											
TMEM145	284339	broad.mit.edu	37	chr19	42827839	42827839	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggagggagccaatccgcTgacaaggccttcccgcagca	9	4	12	16	3	0	1	0	1	0	0	2	3	2	3	5	3	2	3	5	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42827839T>C	uc002otk.1	+	14	1351	c.1299T>C	c.(1297-1299)GCT>GCC	p.A433A	MEGF8_uc002otl.3_5'Flank	NM_173633	NP_775904	Q8NBT3	TM145_HUMAN	transmembrane protein 145	433						integral to membrane					0		Prostate(69;0.00682)				GCCAATCCGCTGACAAGGCCT	0.637													5	62					0	0	1	0	0		C	42827839	C	C	42827839	2	2	27	1	0	0	0	0	0	0	0	1	16084	1567	55	3		3	TMEM145	19	42827839	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31099	42827839	16301144	7569	29920											
MEGF8	1954	broad.mit.edu	37	chr19	42861608	42861608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcacacccttactgcccGccgaggcctgtctctgctcc	4	10	9	18	2	2	0	1	0	1	0	4	1	3	0	5	2	3	1	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42861608G>A	uc002otl.3	+	27	5317	c.4682G>A	c.(4681-4683)CGC>CAC	p.R1561H	MEGF8_uc002otm.3_Missense_Mutation_p.R1169H	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	1628	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				CTTACTGCCCGCCGAGGCCTG	0.652													20	65					0	0	1	0	0		A	42861608	A	A	42861608	3	1	27	1	0	0	0	0	1	0	0	0	9481	1087	38	1	4788	1	MEGF8	19	42861608	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	33769	42861608	16267375	7570	29921											
LIPE	3991	broad.mit.edu	37	chr19	42911548	42911548	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaccgcgagcggggtgcctGctgggggcgcggccacagct	4	4	20	13	5	0	0	0	0	0	0	0	2	0	1	3	6	4	2	3	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:42911548G>A	uc002otr.2	-	6	2192	c.1915C>T	c.(1915-1917)CAG>TAG	p.Q639*	uc010eif.1_Intron	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	639					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				CGGGGTGCCTGCTGGGGGCGC	0.662													10	43					0	0	1	0	0		A	42911548	A	A	42911548	4	1	27	1	0	0	0	0	0	1	0	0	8838	1328	46	2	1335	2	LIPE	19	42911548	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	49940	42911548	16217435	7571	29922											
CEACAM1	634	broad.mit.edu	37	chr19	43015763	43015763	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtttgtgctctgtgagaTcacgctggtcgcttgcccta	5	13	13	10	2	2	1	1	1	1	1	3	2	2	1	1	2	2	4	1	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:43015763T>C	uc002otv.2	-	7	1507	c.1394A>G	c.(1393-1395)GAT>GGT	p.D465G	uc010eif.1_Intron|uc002ott.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron|CEACAM1_uc010eii.2_Intron|CEACAM1_uc002otw.2_Intron|CEACAM1_uc010eij.2_Intron|CEACAM1_uc002otx.2_Missense_Mutation_p.D400G|CEACAM1_uc002oty.2_Missense_Mutation_p.D369G|CEACAM1_uc002otz.2_Intron|CEACAM1_uc010eik.2_Missense_Mutation_p.D191G	NM_001712	NP_001703	P13688	CEAM1_HUMAN	carcinoembryonic antigen-related cell adhesion	465	Cytoplasmic (Potential).				angiogenesis|cell migration|homophilic cell adhesion|integrin-mediated signaling pathway	extracellular region|integral to plasma membrane|membrane fraction				ovary(1)|central_nervous_system(1)	2		Prostate(69;0.00682)		GBM - Glioblastoma multiforme(486;0.00148)	Arcitumomab(DB00113)	CTCTGTGAGATCACGCTGGTC	0.507													12	114					0	0	1	0	0		C	43015763	C	C	43015763	3	2	27	1	0	0	0	0	1	0	0	0	3190	1435	50	3	198	3	CEACAM1	19	43015763	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	104215	43015763	16113220	7572	29923											
PSG1	5669	broad.mit.edu	37	chr19	43382146	43382146	+	Missense_Mutation	SNP	C	T	T																															gtgtaaggtgtaggatcctgCgtcctcccgggtgacattct																								rs145276203	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:43382146C>T	uc002ovb.2	-	2	487	c.349G>A	c.(349-351)GCA>ACA	p.A117T	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Missense_Mutation_p.A117T|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_RNA|PSG1_uc002our.1_Missense_Mutation_p.A117T|PSG1_uc010eio.1_Missense_Mutation_p.A117T|PSG1_uc002oux.1_Missense_Mutation_p.A46T|PSG1_uc002ouy.1_Missense_Mutation_p.A117T|PSG1_uc002ouz.1_Missense_Mutation_p.A117T|PSG1_uc002ova.1_Missense_Mutation_p.A117T|PSG1_uc002ovc.2_Missense_Mutation_p.A117T|PSG1_uc002ovd.1_Missense_Mutation_p.A117T	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	117	Ig-like V-type.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				TAGGATCCTGCGTCCTCCCGG	0.458													10	358					0	0	1	0	0		T	43382146	T	T	43382146	3	4	27	1	0	0	0	0	1	0	0	0	12675	768	27	1	983	1	PSG1	19	43382146	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	366383	43382146	15746837	7573	29924	62	2									
PSG1	5669	broad.mit.edu	37	chr19	43382150	43382150	+	Silent	SNP	C	T	T																															aaggtgtaggatcctgcgtcCtcccgggtgacattctggat																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:43382150C>T	uc002ovb.2	-	2	483	c.345G>A	c.(343-345)GAG>GAA	p.E115E	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Silent_p.E115E|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_RNA|PSG1_uc002our.1_Silent_p.E115E|PSG1_uc010eio.1_Silent_p.E115E|PSG1_uc002oux.1_Silent_p.E44E|PSG1_uc002ouy.1_Silent_p.E115E|PSG1_uc002ouz.1_Silent_p.E115E|PSG1_uc002ova.1_Silent_p.E115E|PSG1_uc002ovc.2_Silent_p.E115E|PSG1_uc002ovd.1_Silent_p.E115E	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	115	Ig-like V-type.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				ATCCTGCGTCCTCCCGGGTGA	0.458													7	375					0	0	1	0	0		T	43382150	T	T	43382150	2	4	27	1	0	0	0	0	0	0	0	1	12675	680	24	4		4	PSG1	19	43382150	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4	43382150	15746833	7574	29925	62	2									
PSG6	5675	broad.mit.edu	37	chr19	43420352	43420352	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgatgtgtaaggtgtaggAtcctgcatcctcctgtgtga	8	14	12	7	0	0	2	0	2	0	0	3	3	3	3	3	2	1	3	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:43420352A>T	uc002ovj.1	-	2	404	c.352T>A	c.(352-354)TCC>ACC	p.S118T	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG6_uc002ovf.1_Missense_Mutation_p.S118T|PSG6_uc002ovg.1_Missense_Mutation_p.S118T	NM_002782	NP_002773	Q00889	PSG6_HUMAN	pregnancy specific beta-1-glycoprotein 6 isoform	118	Ig-like V-type.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				AAGGTGTAGGATCCTGCATCC	0.473													36	331					0	0	1	0	0		T	43420352	T	T	43420352	3	4	27	1	0	0	0	0	1	0	0	0	12681	333	12	5	1014	5	PSG6	19	43420352	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	38202	43420352	15708631	7575	29926											
PSG7	5676	broad.mit.edu	37	chr19	43439559	43439559	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgtggaatcactcacggtAtaaggtgaaggtgaaacgtc	13	9	12	7	2	2	2	2	2	0	0	3	3	2	3	0	4	1	1	0	4	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:43439559A>G	uc002ovl.3	-	3	529	c.427T>C	c.(427-429)TAC>CAC	p.Y143H	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Intron	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	143	Ig-like V-type.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				CACTCACGGTATAAGGTGAAG	0.517													7	212					0	0	1	0	0		G	43439559	G	G	43439559	3	3	27	1	0	0	0	0	1	0	0	0	12682	449	16	3	852	3	PSG7	19	43439559	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19207	43439559	15689424	7576	29927											
PSG7	5676	broad.mit.edu	37	chr19	43439623	43439623	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcgctttatgatgtgtaaAgtgtaggatcctgtgtcttc	7	16	10	8	1	1	1	0	1	1	0	4	2	2	2	2	1	0	3	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:43439623A>G	uc002ovl.3	-	3	465	c.363T>C	c.(361-363)ACT>ACC	p.T121T	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Intron	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	121	Ig-like V-type.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				TGATGTGTAAAGTGTAGGATC	0.468													25	292					0	0	1	0	0		G	43439623	G	G	43439623	2	3	27	1	0	0	0	0	0	0	0	1	12682	59	3	3		3	PSG7	19	43439623	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	64	43439623	15689360	7577	29928											
PSG2	5670	broad.mit.edu	37	chr19	43576074	43576074	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgaacggtaattggtgtAtgaagggtgaattctgggga	10	12	15	4	1	1	3	0	3	1	0	2	4	2	4	1	5	1	2	1	5	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:43576074A>G	uc002ovr.2	-	4	835	c.742T>C	c.(742-744)TAC>CAC	p.Y248H	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.Y248H|PSG2_uc010eiq.1_Missense_Mutation_p.Y248H|PSG2_uc002ovs.3_Missense_Mutation_p.Y248H|PSG2_uc002ovt.3_Missense_Mutation_p.Y248H	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	248	Ig-like C2-type 2.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				TAATTGGTGTATGAAGGGTGA	0.478													4	214					0	0	1	0	0		G	43576074	G	G	43576074	3	3	27	1	0	0	0	0	1	0	0	0	12677	449	16	3	273	3	PSG2	19	43576074	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	136451	43576074	15552909	7578	29929											
LYPD3	27076	broad.mit.edu	37	chr19	43968517	43968517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcggtgcagacgtccacGcccggcgcgcacttcactgt	5	7	12	17	6	1	1	1	0	0	1	3	1	2	1	3	2	1	2	3	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:43968517G>A	uc002owl.1	-	2	279	c.171C>T	c.(169-171)GGC>GGT	p.G57G	LYPD3_uc002owm.2_Silent_p.G57G	NM_014400	NP_055215	O95274	LYPD3_HUMAN	GPI-anchored metastasis-associated protein	57	UPAR/Ly6 1.					anchored to plasma membrane				pancreas(1)	1		Prostate(69;0.0153)				AGACGTCCACGCCCGGCGCGC	0.692													9	23					0	0	1	0	0		A	43968517	A	A	43968517	2	1	27	1	0	0	0	0	0	0	0	1	9129	1074	38	1		1	LYPD3	19	43968517	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	392443	43968517	15160466	7579	29930											
IRGQ	126298	broad.mit.edu	37	chr19	44096782	44096782	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcggcgcctcctccagcAcctcccacgtctcgtcctcc	3	7	9	22	5	1	0	0	0	1	0	7	0	6	0	7	2	1	1	7	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:44096782A>G	uc002oww.2	-	2	1386	c.1268T>C	c.(1267-1269)GTG>GCG	p.V423A	IRGQ_uc010eiv.2_Missense_Mutation_p.V423A	NM_001007561	NP_001007562	Q8WZA9	IRGQ_HUMAN	immunity-related GTPase family, Q	423							protein binding			ovary(1)|pancreas(1)	2		Prostate(69;0.0199)				CTCCTCCAGCACCTCCCACGT	0.692													5	57					0	0	1	0	0		G	44096782	G	G	44096782	3	3	27	1	0	0	0	0	1	0	0	0	7855	159	6	3	607	3	IRGQ	19	44096782	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	128265	44096782	15032201	7580	29931											
KCNN4	3783	broad.mit.edu	37	chr19	44278390	44278390	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtcagccagaggccaaGcgtgaggccgagcagcaggc	9	3	18	11	2	1	2	1	1	0	1	1	3	1	2	3	5	4	2	3	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:44278390G>T	uc002oxl.2	-	3	1033	c.637C>A	c.(637-639)CTT>ATT	p.L213I	KCNN4_uc010eiz.2_Missense_Mutation_p.L126I|KCNN4_uc010eja.1_RNA	NM_002250	NP_002241	O15554	KCNN4_HUMAN	intermediate conductance calcium-activated	213	Helical; Name=Segment S5; (Potential).				defense response	voltage-gated potassium channel complex	calcium-activated potassium channel activity|calmodulin binding			ovary(2)	2		Prostate(69;0.0352)			Clotrimazole(DB00257)|Halothane(DB01159)|Quinine(DB00468)	CAGAGGCCAAGCGTGAGGCCG	0.662											OREG0025535	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	23					3.59834e-05	3.83694e-05	1	1	0		T	44278390	T	T	44278390	3	4	27	1	0	0	0	0	1	0	0	0	8097	971	34	5	670	5	KCNN4	19	44278390	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	181608	44278390	14850593	7581	29932											
ZNF283	284349	broad.mit.edu	37	chr19	44339699	44339699	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttcaccaatagaggaatcCcatggagcattaattagttc	13	11	8	9	0	1	1	1	0	0	1	3	3	2	3	2	2	1	3	2	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:44339699C>A	uc002oxr.3	+	5	433	c.165C>A	c.(163-165)TCC>TCA	p.S55S	ZNF283_uc002oxp.3_5'UTR	NM_181845	NP_862828	Q8N7M2	ZN283_HUMAN	zinc finger protein 283	55					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				TAGAGGAATCCCATGGAGCAT	0.433													7	22					5.18039e-06	5.59131e-06	1	1	0		A	44339699	A	A	44339699	2	1	27	1	0	0	0	0	0	0	0	1	17845	610	22	5		5	ZNF283	19	44339699	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61309	44339699	14789284	7582	29933											
ZNF45	7596	broad.mit.edu	37	chr19	44418273	44418273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatagggtttttcccctgTatggactctaaaatgaatgt	10	17	8	6	0	1	1	0	1	1	0	2	2	2	2	2	2	0	2	2	2	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:44418273T>C	uc002oxu.1	-	4	1414	c.1315A>G	c.(1315-1317)ACA>GCA	p.T439A	ZNF45_uc002oxw.1_Missense_Mutation_p.T439A|ZNF45_uc002oxv.1_Missense_Mutation_p.T439A	NM_003425	NP_003416	Q02386	ZNF45_HUMAN	zinc finger protein 45	439					multicellular organismal development	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						TTTTCCCCTGTATGGACTCTA	0.473													9	90					0	0	1	0	0		C	44418273	C	C	44418273	3	2	27	1	0	0	0	0	1	0	0	0	17946	1638	57	3	737	3	ZNF45	19	44418273	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	78574	44418273	14710710	7583	29934											
ZNF223	7766	broad.mit.edu	37	chr19	44564934	44564934	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaccgagatactttccacTttctaagggaggaaaagttt	12	12	8	9	1	1	1	0	0	1	1	3	4	3	3	3	2	1	1	3	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:44564934T>C	uc002oyf.1	+	4	428	c.175T>C	c.(175-177)TTT>CTT	p.F59L	ZNF284_uc010ejd.2_RNA	NM_013361	NP_037493	Q9UK11	ZN223_HUMAN	zinc finger protein 223	59	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0352)				TACTTTCCACTTTCTAAGGGA	0.413													29	233					0	0	1	0	0		C	44564934	C	C	44564934	3	2	27	1	0	0	0	0	1	0	0	0	17802	1609	56	3	185	3	ZNF223	19	44564934	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	146661	44564934	14564049	7584	29935											
ZNF227	7770	broad.mit.edu	37	chr19	44738911	44738911	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttgcattaaaataccttTcaaatcaagagctgtcctgc	14	13	5	9	0	2	1	2	0	0	1	3	1	3	1	2	0	4	2	2	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:44738911T>A	uc002oyu.2	+	6	533	c.328T>A	c.(328-330)TCA>ACA	p.S110T	ZNF227_uc010xwu.1_Missense_Mutation_p.S59T|ZNF227_uc002oyv.2_Missense_Mutation_p.S110T|ZNF227_uc010xwv.1_Missense_Mutation_p.S59T|ZNF227_uc010xww.1_Missense_Mutation_p.S31T|ZNF227_uc002oyw.2_Missense_Mutation_p.S82T|ZNF227_uc010ejh.2_Missense_Mutation_p.S103T|ZNF235_uc002oyx.1_RNA	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	110					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)				AAAATACCTTTCAAATCAAGA	0.383													10	73					0	0	1	0	0		A	44738911	A	A	44738911	3	1	27	1	0	0	0	0	1	0	0	0	17806	1783	62	5	342	5	ZNF227	19	44738911	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	173977	44738911	14390072	7585	29936											
ZNF227	7770	broad.mit.edu	37	chr19	44740625	44740625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtttatataccatcagagagGccacactggagaaaaacctt	15	9	8	9	0	1	2	1	0	0	2	1	4	1	2	3	2	2	1	3	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:44740625G>A	uc002oyu.2	+	6	2247	c.2042G>A	c.(2041-2043)GGC>GAC	p.G681D	ZNF227_uc010xwu.1_Missense_Mutation_p.G630D|ZNF227_uc002oyv.2_Missense_Mutation_p.G681D|ZNF227_uc010xwv.1_Missense_Mutation_p.G630D|ZNF227_uc010xww.1_Missense_Mutation_p.G602D|ZNF227_uc002oyw.2_Missense_Mutation_p.G653D|ZNF227_uc010ejh.2_Missense_Mutation_p.G674D|ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_3'UTR	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	681	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)				CATCAGAGAGGCCACACTGGA	0.468													9	73					0	0	1	0	0		A	44740625	A	A	44740625	3	1	27	1	0	0	0	0	1	0	0	0	17806	1203	42	2	2056	2	ZNF227	19	44740625	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1714	44740625	14388358	7586	29937											
ZNF233	353355	broad.mit.edu	37	chr19	44777661	44777661	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaactacacttaagagAcaagcctcatgtaaatgttg	15	9	7	10	0	1	1	1	0	0	1	1	2	1	1	2	0	4	3	2	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:44777661A>C	uc002oyz.1	+	5	975	c.848A>C	c.(847-849)GAC>GCC	p.D283A	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF233_uc002oyy.1_Missense_Mutation_p.D98A	NM_181756	NP_861421	A6NK53	ZN233_HUMAN	zinc finger protein 233	283					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2		Prostate(69;0.0435)|all_neural(266;0.226)				CACTTAAGAGACAAGCCTCAT	0.433													4	62					0	0	1	0	0		C	44777661	C	C	44777661	3	2	27	1	0	0	0	0	1	0	0	0	17811	275	10	5	862	5	ZNF233	19	44777661	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37036	44777661	14351322	7587	29938											
ZNF233	353355	broad.mit.edu	37	chr19	44778453	44778453	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgggaagggctttagtcAgagttcgcatctccaagacc	10	10	12	9	1	2	2	1	0	1	2	4	3	2	3	2	2	0	3	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:44778453A>G	uc002oyz.1	+	5	1767	c.1640A>G	c.(1639-1641)CAG>CGG	p.Q547R	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF233_uc002oyy.1_Missense_Mutation_p.Q362R	NM_181756	NP_861421	A6NK53	ZN233_HUMAN	zinc finger protein 233	547	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2		Prostate(69;0.0435)|all_neural(266;0.226)				GGCTTTAGTCAGAGTTCGCAT	0.468													5	88					0	0	1	0	0		G	44778453	G	G	44778453	3	3	27	1	0	0	0	0	1	0	0	0	17811	188	7	3	1654	3	ZNF233	19	44778453	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	792	44778453	14350530	7588	29939											
ZNF285	26974	broad.mit.edu	37	chr19	44890966	44890966	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacatttatatggtttttCtccagtgtgaactctctgat	8	19	6	8	0	3	2	1	2	2	0	5	2	3	2	1	1	1	1	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:44890966C>A	uc002ozd.3	-	4	1528	c.1441G>T	c.(1441-1443)GAA>TAA	p.E481*	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Nonsense_Mutation_p.E488*	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	481					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						TATGGTTTTTCTCCAGTGTGA	0.388													25	74					3.08376e-08	3.38537e-08	1	1	0		A	44890966	A	A	44890966	4	1	27	1	0	0	0	0	0	1	0	0	17847	922	32	5	335	5	ZNF285	19	44890966	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	112513	44890966	14238017	7589	29940											
ZNF285	26974	broad.mit.edu	37	chr19	44892260	44892260	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgttgtttttaatcccGtctcctaggagaagaaagag	14	12	9	6	1	1	3	0	0	1	3	3	4	2	3	2	1	0	2	2	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:44892260G>A	uc002ozd.3	-	4	234	c.147C>T	c.(145-147)GAC>GAT	p.D49D	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Silent_p.D56D	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	49	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						TTTTAATCCCGTCTCCTAGGA	0.418													9	65					0	0	1	0	0		A	44892260	A	A	44892260	2	1	27	1	0	0	0	0	0	0	0	1	17847	1136	40	1		1	ZNF285	19	44892260	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1294	44892260	14236723	7590	29941											
ZNF229	7772	broad.mit.edu	37	chr19	44933132	44933132	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtcggagctgtagatgaaAcccttcccacacacgtcaca	12	7	9	13	2	1	2	1	1	0	1	3	3	2	3	2	2	2	2	2	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:44933132A>G	uc002oze.1	-	6	2258	c.1824T>C	c.(1822-1824)GGT>GGC	p.G608G	ZNF229_uc010ejk.1_Silent_p.G262G|ZNF229_uc010ejl.1_Silent_p.G602G	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	608	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				TGTAGATGAAACCCTTCCCAC	0.552													4	86					0	0	1	0	0		G	44933132	G	G	44933132	2	3	27	1	0	0	0	0	0	0	0	1	17807	30	2	3		3	ZNF229	19	44933132	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	40872	44933132	14195851	7591	29942											
CEACAM16	388551	broad.mit.edu	37	chr19	45209070	45209070	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccgcccaggaggggacgtAcacatgtattgcgaagaaca	13	5	13	10	3	0	1	0	0	0	1	0	4	0	3	2	3	4	2	2	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:45209070A>G	uc010xxd.1	+	5	1078	c.872A>G	c.(871-873)TAC>TGC	p.Y291C	CEACAM16_uc002ozq.2_Missense_Mutation_p.Y350C	NM_001039213	NP_001034302	A7LI12	A7LI12_HUMAN	carcinoembryonic antigen-related cell adhesion	291										ovary(1)	1	Lung NSC(12;0.000698)|all_lung(12;0.002)	Prostate(69;0.0376)|Ovarian(192;0.231)				GAGGGGACGTACACATGTATT	0.587													14	67					0	0	1	0	0		G	45209070	G	G	45209070	3	3	27	1	0	0	0	0	1	0	0	0	3191	391	14	3	886	3	CEACAM16	19	45209070	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	275938	45209070	13919913	7592	29943											
PVRL2	5819	broad.mit.edu	37	chr19	45391415	45391415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttggaagaacggtcaggaCccttgcaccctggagccaca	10	6	11	14	1	1	1	1	0	0	1	1	4	1	4	4	4	3	1	4	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:45391415C>T	uc002ozw.1	+	9	1786	c.1396C>T	c.(1396-1398)CCC>TCC	p.P466S		NM_001042724	NP_001036189	Q92692	PVRL2_HUMAN	poliovirus receptor related 2 isoform delta	466	Cytoplasmic (Potential).				adherens junction organization|adhesion to symbiont|cell junction assembly|homophilic cell adhesion|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|susceptibility to natural killer cell mediated cytotoxicity|susceptibility to T cell mediated cytotoxicity|viral envelope fusion with host membrane|virion attachment, binding of host cell surface coreceptor	cell surface|integral to membrane|zonula adherens	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0	Lung NSC(12;0.00195)|all_lung(12;0.00522)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0143)		ACGGTCAGGACCCTTGCACCC	0.547													8	66					0	0	1	0	0		T	45391415	T	T	45391415	3	4	27	1	0	0	0	0	1	0	0	0	12865	507	18	4	1832	4	PVRL2	19	45391415	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	182345	45391415	13737568	7593	29944											
APOC2	344	broad.mit.edu	37	chr19	45452442	45452442	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtacagcaaaagcacagcagCcatgagcacttacacaggca	16	4	9	12	0	0	1	0	1	0	0	0	1	0	1	1	1	7	6	1	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:45452442C>A	uc002pah.2	+	4	345	c.242C>A	c.(241-243)GCC>GAC	p.A81D		NM_000483	NP_000474	P02655	APOC2_HUMAN	apolipoprotein C-II precursor	81					cholesterol efflux|chylomicron remnant clearance|high-density lipoprotein particle clearance|lipid catabolic process|lipoprotein metabolic process|negative regulation of cholesterol transport|negative regulation of lipid metabolic process|negative regulation of receptor-mediated endocytosis|negative regulation of very-low-density lipoprotein particle clearance|phospholipid efflux|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of phospholipase activity|positive regulation of phospholipid catabolic process|positive regulation of triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	chylomicron|intermediate-density lipoprotein particle|low-density lipoprotein particle|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	lipase inhibitor activity|lipid binding|lipoprotein lipase activator activity|phospholipase activator activity|phospholipase binding|protein homodimerization activity			kidney(1)	1	Lung NSC(12;0.00858)|all_lung(12;0.0197)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00327)|Epithelial(262;0.174)		AGCACAGCAGCCATGAGCACT	0.373													3	40					0.150653	0.151846	1	1	0		A	45452442	A	A	45452442	3	1	27	1	0	0	0	0	1	0	0	0	798	739	26	5	252	5	APOC2	19	45452442	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61027	45452442	13676541	7594	29945											
CLPTM1	1209	broad.mit.edu	37	chr19	45477800	45477800	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtatggcgactggactagCggcgagaactcagacggctg	9	7	16	9	4	1	2	1	0	0	2	1	5	1	3	0	4	2	2	0	4	3	2	rs150833300	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:45477800C>T	uc002pai.2	+	4	429	c.414C>T	c.(412-414)AGC>AGT	p.S138S	CLPTM1_uc010ejv.1_Silent_p.S36S|CLPTM1_uc010xxf.1_Silent_p.S36S|CLPTM1_uc010xxg.1_Silent_p.S124S	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane	138	Extracellular (Potential).				cell differentiation|multicellular organismal development|regulation of T cell differentiation in thymus	external side of plasma membrane|integral to plasma membrane				ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00354)|Epithelial(262;0.187)		ACTGGACTAGCGGCGAGAACT	0.567													13	60					0	0	1	0	0		T	45477800	T	T	45477800	2	4	27	1	0	0	0	0	0	0	0	1	3557	767	27	1		1	CLPTM1	19	45477800	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25358	45477800	13651183	7595	29946											
RELB	5971	broad.mit.edu	37	chr19	45540714	45540714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaccctgacttcttctctgGcaccgtgtccctgcccggcc	4	10	9	18	2	2	2	0	1	2	1	4	2	3	2	5	2	1	1	5	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:45540714G>A	uc002paj.1	+	13	1532	c.1406G>A	c.(1405-1407)GGC>GAC	p.G469D	SFRS16_uc002pak.2_5'Flank|SFRS16_uc002pal.2_5'Flank|SFRS16_uc010xxh.1_5'Flank|SFRS16_uc002pam.2_5'Flank|SFRS16_uc002pan.1_5'Flank	NM_006509	NP_006500	Q01201	RELB_HUMAN	reticuloendotheliosis viral oncogene homolog B	469						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00986)		TTCTTCTCTGGCACCGTGTCC	0.627													17	121					0	0	1	0	0		A	45540714	A	A	45540714	3	1	27	1	0	0	0	0	1	0	0	0	13242	1203	42	2	1444	2	RELB	19	45540714	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	62914	45540714	13588269	7596	29947											
SFRS16	11129	broad.mit.edu	37	chr19	45573341	45573341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtacagccggcagagcCgctcaccctccccccgatac	8	4	9	20	3	1	1	1	0	0	1	2	2	2	1	7	1	4	3	7	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:45573341C>T	uc002pak.2	+	19	2034	c.1936C>T	c.(1936-1938)CGC>TGC	p.R646C	SFRS16_uc002pal.2_RNA|SFRS16_uc010xxh.1_Missense_Mutation_p.R584C|SFRS16_uc002pam.2_Missense_Mutation_p.R627C	NM_007056	NP_008987	Q8N2M8	CLASR_HUMAN	splicing factor, arginine/serine-rich 16	646	Potential.|Arg-rich.				mRNA processing|RNA splicing	nucleus					0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CCGGCAGAGCCGCTCACCCTC	0.582													8	62					0	0	1	0	0		T	45573341	T	T	45573341	3	4	27	1	0	0	0	0	1	0	0	0	14197	652	23	1	2006	1	SFRS16	19	45573341	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	32627	45573341	13555642	7597	29948											
NKPD1	284353	broad.mit.edu	37	chr19	45656571	45656571	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaaacaccttgagcaggCtgccgctcgggctgccgtgg	6	6	14	15	4	0	1	0	1	0	0	1	1	0	1	4	3	4	4	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:45656571C>T	uc010xxi.1	-	4	1124	c.1124G>A	c.(1123-1125)AGC>AAC	p.S375N		NM_198478	NP_940880			NTPase, KAP family P-loop domain containing 1												0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00863)|GBM - Glioblastoma multiforme(486;0.231)		CTTGAGCAGGCTGCCGCTCGG	0.716													3	5					0	0	1	0	0		T	45656571	T	T	45656571	3	4	27	1	0	0	0	0	1	0	0	0	10465	797	28	2	1378	2	NKPD1	19	45656571	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	83230	45656571	13472412	7598	29949											
ERCC2	2068	broad.mit.edu	37	chr19	45860791	45860791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtttgatggccagcgaggCgtccatgcagctggagagag	8	7	18	8	2	0	2	0	1	0	1	1	5	1	3	2	4	3	3	2	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:45860791C>T	uc002pbj.2	-	14	1365	c.1318G>A	c.(1318-1320)GCC>ACC	p.A440T	ERCC2_uc002pbh.2_Missense_Mutation_p.A3T|ERCC2_uc002pbi.2_Missense_Mutation_p.A133T|ERCC2_uc010ejz.2_Missense_Mutation_p.A362T|ERCC2_uc002pbk.2_Missense_Mutation_p.A416T	NM_000400	NP_000391	P18074	ERCC2_HUMAN	excision repair cross-complementing rodent	440	Mediates interaction with MMS19.				cell cycle checkpoint|chromosome segregation|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|UV protection|viral reproduction	cytoplasm|holo TFIIH complex|MMXD complex	5'-3' DNA helicase activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding|protein C-terminus binding|protein N-terminus binding			lung(2)|pancreas(1)	3		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		GCCAGCGAGGCGTCCATGCAG	0.637			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				9	42					0	0	1	0	0		T	45860791	T	T	45860791	3	4	27	1	0	0	0	0	1	0	0	0	5221	768	27	1	1004	1	ERCC2	19	45860791	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	204220	45860791	13268192	7599	29950											
ERCC2	2068	broad.mit.edu	37	chr19	45873415	45873415	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtccagcgtgcgtttgagCtcccgcatgtaggagaactg	7	9	14	11	4	0	2	0	1	0	1	2	3	2	2	2	1	4	4	2	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:45873415C>T	uc002pbj.2	-	2	128	c.81G>A	c.(79-81)GAG>GAA	p.E27E	ERCC2_uc010ejz.2_Silent_p.E27E|ERCC2_uc002pbk.2_Silent_p.E3E|ERCC2_uc002pbl.3_Silent_p.E3E|ERCC2_uc010xxj.1_RNA	NM_000400	NP_000391	P18074	ERCC2_HUMAN	excision repair cross-complementing rodent	27	Helicase ATP-binding.				cell cycle checkpoint|chromosome segregation|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|UV protection|viral reproduction	cytoplasm|holo TFIIH complex|MMXD complex	5'-3' DNA helicase activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding|protein C-terminus binding|protein N-terminus binding			lung(2)|pancreas(1)	3		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		TGCGTTTGAGCTCCCGCATGT	0.667			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				3	35					0	0	1	0	0		T	45873415	T	T	45873415	2	4	27	1	0	0	0	0	0	0	0	1	5221	796	28	2		2	ERCC2	19	45873415	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12624	45873415	13255568	7600	29951											
CD3EAP	10849	broad.mit.edu	37	chr19	45912637	45912637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcagagtcaggaaagcCggatgccagagacagtgccc	14	3	14	10	1	1	3	1	0	0	3	1	6	1	5	3	2	4	1	3	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:45912637C>T	uc002pbq.1	+	3	1899	c.1411C>T	c.(1411-1413)CGG>TGG	p.R471W	CD3EAP_uc002pbr.1_Missense_Mutation_p.R473W	NM_012099	NP_036231	O15446	RPA34_HUMAN	CD3E antigen, epsilon polypeptide associated	471					rRNA transcription|transmembrane receptor protein tyrosine kinase signaling pathway	chromosome|RNA polymerase I transcription factor complex	DNA-directed RNA polymerase activity			large_intestine(2)|ovary(2)	4		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0251)		TCAGGAAAGCCGGATGCCAGA	0.602													12	44					0	0	1	0	0		T	45912637	T	T	45912637	3	4	27	1	0	0	0	0	1	0	0	0	3015	643	23	1	1421	1	CD3EAP	19	45912637	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	39222	45912637	13216346	7601	29952											
RTN2	6253	broad.mit.edu	37	chr19	45998181	45998181	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccggggggtgccccagtcCtgcgacgtggtctcctcctc	2	9	13	17	3	1	0	0	0	1	0	6	1	4	0	6	4	2	0	6	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:45998181C>A	uc002pcb.2	-	3	390	c.162G>T	c.(160-162)CAG>CAT	p.Q54H	RTN2_uc002pcc.2_Missense_Mutation_p.Q54H|RTN2_uc002pcd.2_RNA	NM_005619	NP_005610	O75298	RTN2_HUMAN	reticulon 2 isoform A	54						integral to endoplasmic reticulum membrane	signal transducer activity			ovary(3)	3		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00829)|Epithelial(262;0.184)|GBM - Glioblastoma multiforme(486;0.246)		TGCCCCAGTCCTGCGACGTGG	0.647													6	45					0.0215528	0.0219246	1	1	0		A	45998181	A	A	45998181	3	1	27	1	0	0	0	0	1	0	0	0	13751	680	24	5	1511	5	RTN2	19	45998181	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	85544	45998181	13130802	7602	29953											
OPA3	80207	broad.mit.edu	37	chr19	46032333	46032333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctatttctcggacgccggcGcaactgggggtgcaggcggc	5	7	16	13	5	1	0	0	0	1	0	2	1	1	1	2	6	2	2	2	6	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46032333G>A	uc002pcj.3	-	2	624	c.524C>T	c.(523-525)GCG>GTG	p.A175V		NM_001017989	NP_001017989	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)		GGACGCCGGCGCAACTGGGGG	0.672													4	78					0	0	1	0	0		A	46032333	A	A	46032333	3	1	27	1	0	0	0	0	1	0	0	0	10891	1087	38	1	22	1	OPA3	19	46032333	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	34152	46032333	13096650	7603	29954											
GPR4	2828	broad.mit.edu	37	chr19	46094232	46094232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaggttgtgcagggccttgGccacatcgctgcgggcgccc	4	7	16	14	3	0	0	0	0	0	0	1	0	0	0	3	4	2	4	3	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46094232G>A	uc002pcm.2	-	2	1838	c.893C>T	c.(892-894)GCC>GTC	p.A298V	OPA3_uc010xxk.1_Intron	NM_005282	NP_005273	P46093	GPR4_HUMAN	G protein-coupled receptor 4	298	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(262;0.0071)|GBM - Glioblastoma multiforme(486;0.128)|Epithelial(262;0.223)		CAGGGCCTTGGCCACATCGCT	0.622													6	66					0	0	1	0	0		A	46094232	A	A	46094232	3	1	27	1	0	0	0	0	1	0	0	0	6709	1203	42	2	199	2	GPR4	19	46094232	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	61899	46094232	13034751	7604	29955											
EML2	24139	broad.mit.edu	37	chr19	46136131	46136131	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacttacagatttggagaaGcccacacagcacacggctct	12	7	10	12	1	1	2	0	0	1	2	1	4	1	3	1	3	3	2	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46136131G>A	uc002pcn.2	-	6	533	c.498C>T	c.(496-498)GGC>GGT	p.G166G	EML2_uc002pco.2_RNA|EML2_uc002pcp.2_Silent_p.G50G|EML2_uc010xxl.1_Silent_p.G313G|EML2_uc010xxm.1_Silent_p.G367G|EML2_uc010xxn.1_RNA|EML2_uc010xxo.1_Silent_p.G166G|EML2_uc010ekj.2_Silent_p.G166G|EML2_uc010ekk.1_5'Flank	NM_012155	NP_036287	O95834	EMAL2_HUMAN	echinoderm microtubule associated protein like	166	WD 2.				sensory perception of sound|visual perception	cytoplasm|intracellular membrane-bounded organelle|microtubule|microtubule associated complex	catalytic activity|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00553)|GBM - Glioblastoma multiforme(486;0.131)|Epithelial(262;0.197)		ATTTGGAGAAGCCCACACAGC	0.627													9	54					0	0	1	0	0		A	46136131	A	A	46136131	2	1	27	1	0	0	0	0	0	0	0	1	5105	958	34	2		2	EML2	19	46136131	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	41899	46136131	12992852	7605	29956											
SNRPD2	6633	broad.mit.edu	37	chr19	46191820	46191820	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcttgggcttgttgaggaGgctcctgcatggacaaacat	9	11	12	9	0	1	1	0	1	1	0	2	3	2	3	1	4	2	4	1	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46191820G>T	uc002pcw.2	-	2	304	c.7C>A	c.(7-9)CTC>ATC	p.L3I	SNRPD2_uc002pcv.2_5'UTR	NM_004597	NP_004588	P62316	SMD2_HUMAN	small nuclear ribonucleoprotein D2 isoform 1	3					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00546)|GBM - Glioblastoma multiforme(486;0.0807)|Epithelial(262;0.194)		TTGTTGAGGAGGCTCCTGCAT	0.542													12	118					5.50884e-06	5.93776e-06	1	1	0		T	46191820	T	T	46191820	3	4	27	1	0	0	0	0	1	0	0	0	14890	1000	35	5	357	5	SNRPD2	19	46191820	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	55689	46191820	12937163	7606	29957											
FBXO46	23403	broad.mit.edu	37	chr19	46216103	46216103	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtccccaccaccggaccgCcgttcagatcccaccccctt	7	6	6	22	3	1	1	1	0	0	1	3	2	3	2	9	1	0	1	9	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46216103C>T	uc002pcy.2	-	2	776	c.651G>A	c.(649-651)CGG>CGA	p.R217R	FBXO46_uc002pcz.2_Silent_p.R217R	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	217							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		CACCGGACCGCCGTTCAGATC	0.682													5	41					0	0	1	0	0		T	46216103	T	T	46216103	2	4	27	1	0	0	0	0	0	0	0	1	5769	726	26	2		2	FBXO46	19	46216103	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	24283	46216103	12912880	7607	29958											
DMWD	1762	broad.mit.edu	37	chr19	46289095	46289095	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgccactgccgccactGccaccccggctgatgttgcc	5	7	9	20	2	0	1	0	1	0	0	0	1	0	1	8	1	4	2	8	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46289095G>A	uc002pdj.1	-	3	1705	c.1659C>T	c.(1657-1659)GGC>GGT	p.G553G	DMWD_uc002pdk.1_Silent_p.G553G|DMWD_uc010eko.1_Silent_p.G238G	NM_004943	NP_004934	Q09019	DMWD_HUMAN	dystrophia myotonica-containing WD repeat motif	553					meiosis						0		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00604)|GBM - Glioblastoma multiforme(486;0.0807)|Epithelial(262;0.236)		TGCCGCCACTGCCACCCCGGC	0.716													4	49					0	0	1	0	0		A	46289095	A	A	46289095	2	1	27	1	0	0	0	0	0	0	0	1	4599	1306	46	2		2	DMWD	19	46289095	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	72992	46289095	12839888	7608	29959											
DMWD	1762	broad.mit.edu	37	chr19	46290090	46290090	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctctccgactcaggcaGccacttcagatatgtcacct	9	9	8	15	1	4	1	3	0	1	1	5	2	4	1	3	2	1	2	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46290090G>A	uc002pdj.1	-	3	710	c.664C>T	c.(664-666)CTG>TTG	p.L222L	DMWD_uc002pdk.1_Silent_p.L222L|DMWD_uc010eko.1_5'UTR	NM_004943	NP_004934	Q09019	DMWD_HUMAN	dystrophia myotonica-containing WD repeat motif	222	WD 1.				meiosis						0		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00604)|GBM - Glioblastoma multiforme(486;0.0807)|Epithelial(262;0.236)		GACTCAGGCAGCCACTTCAGA	0.607													3	34					0	0	1	0	0		A	46290090	A	A	46290090	2	1	27	1	0	0	0	0	0	0	0	1	4599	962	34	2		2	DMWD	19	46290090	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	995	46290090	12838893	7609	29960											
SYMPK	8189	broad.mit.edu	37	chr19	46331121	46331121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgcagtacttgcggaccaCctccagggcactctctgtga	7	9	10	15	2	1	1	0	1	1	0	4	2	2	2	3	2	2	3	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46331121C>T	uc002pdn.2	-	15	2286	c.2041G>A	c.(2041-2043)GTG>ATG	p.V681M	SYMPK_uc002pdo.1_Missense_Mutation_p.V681M|SYMPK_uc002pdp.1_Missense_Mutation_p.V681M	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	681					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		TTGCGGACCACCTCCAGGGCA	0.652													6	128					0	0	1	0	0		T	46331121	T	T	46331121	3	4	27	1	0	0	0	0	1	0	0	0	15464	507	18	4	1835	4	SYMPK	19	46331121	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	41031	46331121	12797862	7610	29961											
SYMPK	8189	broad.mit.edu	37	chr19	46351021	46351021	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtactcactgtactggatgTaggggtggtcacgagggatg	9	10	16	6	1	2	0	2	0	0	0	2	3	2	2	0	5	2	3	0	5	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46351021T>C	uc002pdn.2	-	7	910	c.665A>G	c.(664-666)TAC>TGC	p.Y222C	SYMPK_uc002pdo.1_Missense_Mutation_p.Y222C|SYMPK_uc002pdp.1_Missense_Mutation_p.Y222C|SYMPK_uc002pdq.1_Missense_Mutation_p.Y222C	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	222					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		GTACTGGATGTAGGGGTGGTC	0.592													4	49					0	0	1	0	0		C	46351021	C	C	46351021	3	2	27	1	0	0	0	0	1	0	0	0	15464	1638	57	3	3243	3	SYMPK	19	46351021	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	19900	46351021	12777962	7611	29962											
FOXA3	3171	broad.mit.edu	37	chr19	46375928	46375928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaggagaaggtgaaaaaagGgggcagcggggctgccacca	13	2	19	7	1	0	2	0	1	0	1	0	4	0	3	2	7	2	2	2	7	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46375928G>A	uc002pdr.2	+	2	862	c.665G>A	c.(664-666)GGG>GAG	p.G222E		NM_004497	NP_004488	P55318	FOXA3_HUMAN	forkhead box A3	222					brain development|cellular glucose homeostasis|cellular response to starvation|chromatin modification|embryo development|endocrine pancreas development|negative regulation of cell proliferation|neural plate anterior/posterior regionalization|neuron fate specification|positive regulation of hepatocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|spermatogenesis	transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(1)	1		Ovarian(192;0.0308)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00453)|GBM - Glioblastoma multiforme(486;0.0518)|Epithelial(262;0.236)		GTGAAAAAAGGGGGCAGCGGG	0.657													3	20					0	0	1	0	0		A	46375928	A	A	46375928	3	1	27	1	0	0	0	0	1	0	0	0	6005	1232	43	4	671	4	FOXA3	19	46375928	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	24907	46375928	12753055	7612	29963											
NANOS2	339345	broad.mit.edu	37	chr19	46417579	46417579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagttgcgcccgctgcggcGgtagagggactgctggccac	5	6	17	13	5	0	1	0	0	0	1	0	3	0	2	2	4	3	4	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46417579G>A	uc002pdu.2	-	1	458	c.373C>T	c.(373-375)CGC>TGC	p.R125C		NM_001029861	NP_001025032	P60321	NANO2_HUMAN	nanos homolog 2	125					germ-line stem cell maintenance|mRNA catabolic process|multicellular organismal development|negative regulation of meiosis|regulation of translation|spermatogenesis	cytoplasmic mRNA processing body|perinuclear region of cytoplasm	RNA binding|zinc ion binding				0		Ovarian(192;0.0308)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00442)|GBM - Glioblastoma multiforme(486;0.0668)|Epithelial(262;0.231)		CCGCTGCGGCGGTAGAGGGAC	0.667													4	23					0	0	1	0	0		A	46417579	A	A	46417579	3	1	27	1	0	0	0	0	1	0	0	0	10170	1116	39	1	47	1	NANOS2	19	46417579	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	41651	46417579	12711404	7613	29964											
HIF3A	64344	broad.mit.edu	37	chr19	46807198	46807198	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagtcccgggatgcggccCgcagccggcgcagccaggag	9	2	16	14	5	0	0	0	0	0	0	1	2	1	2	4	4	3	2	4	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46807198C>A	uc002peh.2	+	2	99	c.70C>A	c.(70-72)CGC>AGC	p.R24S	HIF3A_uc002pef.1_Missense_Mutation_p.R24S|HIF3A_uc002peg.3_Missense_Mutation_p.R24S|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_5'UTR|HIF3A_uc002pej.1_Silent_p.P3P|HIF3A_uc002pek.2_5'UTR|HIF3A_uc010xxy.1_Silent_p.P3P|HIF3A_uc002pel.2_Missense_Mutation_p.R22S|HIF3A_uc010xxz.1_Silent_p.P21P	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	24	Basic motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		GGATGCGGCCCGCAGCCGGCG	0.657													4	13					1	1	1	1	0		A	46807198	A	A	46807198	3	1	27	1	0	0	0	0	1	0	0	0	7121	652	23	5	100	5	HIF3A	19	46807198	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	389619	46807198	12321785	7614	29965											
HIF3A	64344	broad.mit.edu	37	chr19	46832527	46832527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatggatgatgacttccagCtcaacgccagcgagcagcta	11	7	10	13	2	1	2	1	2	0	0	2	4	2	3	3	1	5	3	3	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46832527C>T	uc002peh.2	+	12	1533	c.1504C>T	c.(1504-1506)CTC>TTC	p.L502F	HIF3A_uc002peg.3_Missense_Mutation_p.L502F|HIF3A_uc002pei.3_Missense_Mutation_p.L446F|HIF3A_uc002pej.1_Intron|HIF3A_uc002pek.2_Missense_Mutation_p.L446F|HIF3A_uc010xxy.1_Missense_Mutation_p.L433F|HIF3A_uc002pel.2_Missense_Mutation_p.L500F|HIF3A_uc010xxz.1_Missense_Mutation_p.L451F	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	502	NTAD.|ODD.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		TGACTTCCAGCTCAACGCCAG	0.582													15	95					0	0	1	0	0		T	46832527	T	T	46832527	3	4	27	1	0	0	0	0	1	0	0	0	7121	797	28	2	1574	2	HIF3A	19	46832527	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25329	46832527	12296456	7615	29966											
CCDC8	83987	broad.mit.edu	37	chr19	46914494	46914494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctgctcagcttctgctctgGcctcggccctcagcaccctg	3	10	9	19	1	4	0	2	0	2	0	5	0	4	0	4	2	4	4	4	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:46914494G>A	uc002pep.2	-	1	2426	c.1574C>T	c.(1573-1575)GCC>GTC	p.A525V		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	525	Potential.					plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		TTCTGCTCTGGCCTCGGCCCT	0.657													5	64					0	0	1	0	0		A	46914494	A	A	46914494	3	1	27	1	0	0	0	0	1	0	0	0	2856	1203	42	2	46	2	CCDC8	19	46914494	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	81967	46914494	12214489	7616	29967											
STRN4	29888	broad.mit.edu	37	chr19	47226079	47226079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccttaccgctgctgccccGggactccagcgtgaggaggg	5	6	14	16	3	0	1	0	1	0	0	1	3	1	3	6	3	4	2	6	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:47226079G>A	uc002pfl.2	-	14	1927	c.1894C>T	c.(1894-1896)CGG>TGG	p.R632W	STRN4_uc002pfm.2_Missense_Mutation_p.R639W|STRN4_uc010xyf.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	632						cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)		CTGCTGCCCCGGGACTCCAGC	0.627													5	99					0	0	1	0	0		A	47226079	A	A	47226079	3	1	27	1	0	0	0	0	1	0	0	0	15356	1115	39	1	383	1	STRN4	19	47226079	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	311585	47226079	11902904	7617	29968											
SLC1A5	6510	broad.mit.edu	37	chr19	47280550	47280550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgcactggaagagcgCggcaccgtccatgttgacgg	8	5	15	13	5	0	2	0	1	0	1	1	3	1	3	3	4	1	3	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:47280550C>T	uc002pfs.2	-	6	1791	c.1171G>A	c.(1171-1173)GCG>ACG	p.A391T	SLC1A5_uc010xyh.1_Missense_Mutation_p.A189T|SLC1A5_uc002pfq.2_Missense_Mutation_p.A215T|SLC1A5_uc002pfr.2_Missense_Mutation_p.A163T	NM_005628	NP_005619	Q15758	AAAT_HUMAN	solute carrier family 1 member 5 isoform 1	391	Helical; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane|melanosome|membrane fraction	neutral amino acid transmembrane transporter activity|protein binding|receptor activity|sodium:dicarboxylate symporter activity				0		all_epithelial(76;0.00314)|Ovarian(192;0.0798)|all_neural(266;0.107)		OV - Ovarian serous cystadenocarcinoma(262;0.000338)|all cancers(93;0.000882)|Epithelial(262;0.0211)|GBM - Glioblastoma multiforme(486;0.0341)	L-Asparagine(DB00174)|L-Glutamine(DB00130)	TGGAAGAGCGCGGCACCGTCC	0.587													5	31					0	0	1	0	0		T	47280550	T	T	47280550	3	4	27	1	0	0	0	0	1	0	0	0	14460	768	27	1	466	1	SLC1A5	19	47280550	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	54471	47280550	11848433	7618	29969											
AP2S1	1175	broad.mit.edu	37	chr19	47341797	47341797	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaacatctcgtccacgacCgtgtaaacctgtgtgagggg	10	8	13	10	3	1	1	0	1	1	0	3	3	2	2	3	3	2	1	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:47341797C>T	uc002pft.1	-	5	516	c.336G>A	c.(334-336)ACG>ACA	p.T112T	AP2S1_uc002pfu.1_Silent_p.T74T	NM_004069	NP_004060	P53680	AP2S1_HUMAN	adaptor-related protein complex 2, sigma 1	112					axon guidance|clathrin coat assembly|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|regulation of endocytosis|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	protein transporter activity				0		all_cancers(25;1.24e-06)|all_epithelial(76;1.09e-05)|all_lung(116;0.00019)|Lung NSC(112;0.000601)|Ovarian(192;0.0221)|all_neural(266;0.0459)|Breast(70;0.128)		OV - Ovarian serous cystadenocarcinoma(262;3.86e-05)|all cancers(93;0.000107)|Epithelial(262;0.00325)|GBM - Glioblastoma multiforme(486;0.0336)		CGTCCACGACCGTGTAAACCT	0.637													6	38					0	0	1	0	0		T	47341797	T	T	47341797	2	4	27	1	0	0	0	0	0	0	0	1	743	639	23	1		1	AP2S1	19	47341797	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61247	47341797	11787186	7619	29970											
BBC3	27113	broad.mit.edu	37	chr19	47725161	47725161	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgaggggcggtgccgctgCtgctcctcttgtctctgggg	1	11	18	11	2	2	1	0	1	2	0	4	1	3	1	2	6	3	3	2	6	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:47725161C>T	uc002pgf.3	-	4	761	c.480G>A	c.(478-480)CAG>CAA	p.Q160Q	BBC3_uc010xyl.1_Missense_Mutation_p.A195T|BBC3_uc010eky.2_Silent_p.Q98Q|BBC3_uc010ekz.2_Missense_Mutation_p.A35T	NM_014417	NP_055232	Q9BXH1	BBC3_HUMAN	BCL2 binding component 3 isoform 4	160					activation of caspase activity|activation of pro-apoptotic gene products|cellular response to hypoxia|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of growth|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria|positive regulation of thymocyte apoptosis|protein insertion into mitochondrial membrane involved in induction of apoptosis|reduction of endoplasmic reticulum calcium ion concentration|release of cytochrome c from mitochondria|release of sequestered calcium ion into cytosol	cytosol|mitochondrial outer membrane	protein binding|protein binding				0		all_cancers(25;1.13e-05)|all_lung(116;0.000192)|all_epithelial(76;0.000274)|Lung NSC(112;0.000446)|all_neural(266;0.0652)|Ovarian(192;0.15)		all cancers(93;0.000179)|OV - Ovarian serous cystadenocarcinoma(262;0.00029)|Epithelial(262;0.0103)|GBM - Glioblastoma multiforme(486;0.0234)		GGTGCCGCTGCTGCTCCTCTT	0.617													5	42					0	0	1	0	0		T	47725161	T	T	47725161	2	4	27	1	0	0	0	0	0	0	0	1	1334	797	28	2		2	BBC3	19	47725161	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	383364	47725161	11403822	7620	29971											
NAPA	8775	broad.mit.edu	37	chr19	48006736	48006736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctggcgtagatttcgcatGcttcctctattttggatgag	6	16	10	9	2	2	2	0	1	2	1	4	3	3	3	1	2	1	3	1	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:48006736G>A	uc002pha.1	-	2	422	c.122C>T	c.(121-123)GCA>GTA	p.A41V	NAPA_uc002phb.1_Missense_Mutation_p.A41V|NAPA_uc002phc.1_Intron|NAPA_uc002phd.1_Missense_Mutation_p.A41V|NAPA_uc010elf.1_Intron|NAPA_uc010elg.1_Intron|NAPA_uc002phe.2_Missense_Mutation_p.A41V	NM_003827	NP_003818	P54920	SNAA_HUMAN	N-ethylmaleimide-sensitive factor attachment	41					cellular membrane fusion|intra-Golgi vesicle-mediated transport|post-Golgi vesicle-mediated transport	cytosol					0		all_cancers(25;1.55e-10)|all_epithelial(76;3.4e-08)|all_lung(116;1.73e-07)|Lung NSC(112;3.95e-07)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		OV - Ovarian serous cystadenocarcinoma(262;0.000466)|all cancers(93;0.000739)|Epithelial(262;0.0168)|GBM - Glioblastoma multiforme(486;0.049)		GATTTCGCATGCTTCCTCTAT	0.483													14	87					0	0	1	0	0		A	48006736	A	A	48006736	3	1	27	1	0	0	0	0	1	0	0	0	10179	1319	46	2	805	2	NAPA	19	48006736	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	281575	48006736	11122247	7621	29972											
GLTSCR1	29998	broad.mit.edu	37	chr19	48197715	48197715	+	Frame_Shift_Del	DEL	C	-	-																															tgagggaccgctgcccccagCcccccacctccctccatcct																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:48197715delC	uc002phh.3	+	8	2821	c.2627delC	c.(2626-2628)GCCfs	p.A876fs	GLTSCR1_uc002phi.3_Frame_Shift_Del_p.A634fs	NM_015711	NP_056526	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	876							protein binding			pancreas(3)	3		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		CTGCCCCCAGCCCCCCACCTC	0.726													3	5	---	---	---	---						.	-	48197715	-	-	48197715	7	5	27	1	0	1	0	1	0	0	0	0	6489	739	26	0	2649	0	GLTSCR1	19	48197715	Frame_Shift_Del	DEL	C	TCGA-BR-6452-01A-12D-1800-08	190979	48197715	10931268	7622	29973											
EHD2	30846	broad.mit.edu	37	chr19	48239750	48239750	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagattcagctggaacatcAcatctcccctggggactttc	10	10	9	12	0	3	1	2	0	1	1	5	4	3	3	2	3	2	1	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:48239750A>G	uc002phj.3	+	5	1290	c.1040A>G	c.(1039-1041)CAC>CGC	p.H347R	EHD2_uc010xyu.1_Missense_Mutation_p.H211R|EHD2_uc010xyv.1_Missense_Mutation_p.H30R	NM_014601	NP_055416	Q9NZN4	EHD2_HUMAN	EH-domain containing 2	347					blood coagulation|endocytic recycling	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding			ovary(1)|skin(1)	2		all_cancers(25;6.74e-07)|all_lung(116;2.02e-05)|Lung NSC(112;3.77e-05)|all_epithelial(76;4.89e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		OV - Ovarian serous cystadenocarcinoma(262;0.000336)|all cancers(93;0.000415)|Epithelial(262;0.0132)|GBM - Glioblastoma multiforme(486;0.0537)		CTGGAACATCACATCTCCCCT	0.522													22	71					0	0	1	0	0		G	48239750	G	G	48239750	3	3	27	1	0	0	0	0	1	0	0	0	4984	159	6	3	1054	3	EHD2	19	48239750	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	42035	48239750	10889233	7623	29974											
EHD2	30846	broad.mit.edu	37	chr19	48244520	48244520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccaactcagtgctggggcGcatctggaagctcagcgatg	8	7	13	13	2	3	0	2	0	1	0	3	2	3	1	2	3	4	3	2	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:48244520G>A	uc002phj.3	+	6	1713	c.1463G>A	c.(1462-1464)CGC>CAC	p.R488H	EHD2_uc010xyu.1_Missense_Mutation_p.R352H|EHD2_uc010xyv.1_Missense_Mutation_p.R171H	NM_014601	NP_055416	Q9NZN4	EHD2_HUMAN	EH-domain containing 2	488	EF-hand.|EH.				blood coagulation|endocytic recycling	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding			ovary(1)|skin(1)	2		all_cancers(25;6.74e-07)|all_lung(116;2.02e-05)|Lung NSC(112;3.77e-05)|all_epithelial(76;4.89e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		OV - Ovarian serous cystadenocarcinoma(262;0.000336)|all cancers(93;0.000415)|Epithelial(262;0.0132)|GBM - Glioblastoma multiforme(486;0.0537)		GTGCTGGGGCGCATCTGGAAG	0.642													12	39					0	0	1	0	0		A	48244520	A	A	48244520	3	1	27	1	0	0	0	0	1	0	0	0	4984	1087	38	1	1481	1	EHD2	19	48244520	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4770	48244520	10884463	7624	29975											
ELSPBP1	64100	broad.mit.edu	37	chr19	48525436	48525436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttcctaggaatttccgCgttggtccctggctttcctt	3	16	9	13	2	0	0	0	0	0	0	4	1	4	1	4	3	1	3	4	3	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:48525436C>T	uc002pht.2	+	6	679	c.524C>T	c.(523-525)GCG>GTG	p.A175V		NM_022142	NP_071425	Q96BH3	ESPB1_HUMAN	epididymal sperm binding protein 1 precursor	175					single fertilization	extracellular region					0		all_cancers(25;8.7e-09)|all_lung(116;1.15e-06)|all_epithelial(76;1.17e-06)|Lung NSC(112;2.56e-06)|all_neural(266;0.0138)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000253)|all cancers(93;0.00129)|Epithelial(262;0.0314)|GBM - Glioblastoma multiforme(486;0.0606)		GGAATTTCCGCGTTGGTCCCT	0.453													9	106					0	0	1	0	0		T	48525436	T	T	48525436	3	4	27	1	0	0	0	0	1	0	0	0	5091	768	27	1	542	1	ELSPBP1	19	48525436	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	280916	48525436	10603547	7625	29976											
LIG1	3978	broad.mit.edu	37	chr19	48624533	48624533	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtaggcgccgatcaccAccaggtccagggtgtcaccc	8	5	12	16	2	2	0	2	0	0	0	3	1	3	0	6	4	0	1	6	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:48624533A>G	uc002pia.1	-	24	2399	c.2279T>C	c.(2278-2280)GTG>GCG	p.V760A	LIG1_uc010xze.1_Missense_Mutation_p.V453A|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.V692A|LIG1_uc010xzg.1_Missense_Mutation_p.V729A	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	760					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	GCCGATCACCACCAGGTCCAG	0.672								NER					9	47					0	0	1	0	0		G	48624533	G	G	48624533	3	3	27	1	0	0	0	0	1	0	0	0	8797	159	6	3	500	3	LIG1	19	48624533	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	99097	48624533	10504450	7626	29977											
LIG1	3978	broad.mit.edu	37	chr19	48626233	48626233	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcgatctcgtaggtggcAtcaacatccagggtcttcac	8	11	11	11	2	4	0	2	0	2	0	6	1	5	0	1	4	1	2	1	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:48626233A>G	uc002pia.1	-	23	2310	c.2190T>C	c.(2188-2190)GAT>GAC	p.D730D	LIG1_uc010xze.1_Silent_p.D423D|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Silent_p.D662D|LIG1_uc010xzg.1_Silent_p.D699D	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	730					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	CGTAGGTGGCATCAACATCCA	0.617								NER					5	119					0	0	1	0	0		G	48626233	G	G	48626233	2	3	27	1	0	0	0	0	0	0	0	1	8797	214	8	3		3	LIG1	19	48626233	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1700	48626233	10502750	7627	29978											
IZUMO1	284359	broad.mit.edu	37	chr19	49247440	49247440	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccagactcaccacatttgTtgggacaataagctgtgtca	12	11	8	10	0	2	1	2	0	0	1	3	2	3	2	2	1	1	2	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:49247440T>C	uc002pkj.2	-	5	958	c.410A>G	c.(409-411)AAC>AGC	p.N137S	IZUMO1_uc010eme.2_RNA|IZUMO1_uc010emf.2_RNA	NM_182575	NP_872381	Q8IYV9	IZUM1_HUMAN	izumo sperm-egg fusion 1 precursor	137	Extracellular (Potential).				fusion of sperm to egg plasma membrane	integral to membrane				ovary(1)	1		all_lung(116;0.000156)|Lung NSC(112;0.000251)|all_epithelial(76;0.000761)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000348)|Epithelial(262;0.019)|GBM - Glioblastoma multiforme(486;0.022)		ACCACATTTGTTGGGACAATA	0.443													22	202					0	0	1	0	0		C	49247440	C	C	49247440	3	2	27	1	0	0	0	0	1	0	0	0	7949	1725	60	3	666	3	IZUMO1	19	49247440	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	621207	49247440	9881543	7628	29979											
BCAT2	587	broad.mit.edu	37	chr19	49310321	49310321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagggacagagagaagctttCgtgcccagatctgggtggag	11	7	16	7	1	1	3	0	0	1	3	2	6	1	5	1	3	2	1	1	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:49310321C>T	uc002pkr.2	-	2	72	c.35G>A	c.(34-36)CGA>CAA	p.R12Q	BCAT2_uc002pkp.2_5'UTR|BCAT2_uc002pkq.3_5'UTR|BCAT2_uc002pks.2_5'UTR|BCAT2_uc002pkt.2_Intron|BCAT2_uc010emh.1_Missense_Mutation_p.R12Q|BCAT2_uc010emi.1_Intron|BCAT2_uc002pku.1_5'UTR|BCAT2_uc010emj.1_RNA	NM_001190	NP_001181	O15382	BCAT2_HUMAN	branched chain aminotransferase 2, mitochondrial	12						mitochondrial matrix	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			ovary(1)	1		all_epithelial(76;7e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000138)|all cancers(93;0.000366)|Epithelial(262;0.0195)|GBM - Glioblastoma multiforme(486;0.0224)	L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|Pyridoxal Phosphate(DB00114)	GAGAAGCTTTCGTGCCCAGAT	0.587													4	41					0	0	1	0	0		T	49310321	T	T	49310321	3	4	27	1	0	0	0	0	1	0	0	0	1356	884	31	1	1183	1	BCAT2	19	49310321	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	62881	49310321	9818662	7629	29980											
TULP2	7288	broad.mit.edu	37	chr19	49398379	49398379	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcatcggaattgtctgggagCcaggataagaaaggggactg	12	7	16	6	1	1	1	0	0	1	1	2	5	1	5	1	5	1	1	1	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:49398379C>T	uc002pkz.2	-	6	541	c.390G>A	c.(388-390)TGG>TGA	p.W130*		NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	130					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		TGTCTGGGAGCCAGGATAAGA	0.547													16	59					0	0	1	0	0		T	49398379	T	T	49398379	4	4	27	1	0	0	0	0	0	1	0	0	16800	740	26	2	1204	2	TULP2	19	49398379	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	88058	49398379	9730604	7630	29981											
KCNA7	3743	broad.mit.edu	37	chr19	49573589	49573589	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactatcttgccacccacagTgacgggtgccatgtctccat	8	10	8	15	1	2	1	0	1	2	0	3	1	2	1	4	1	2	0	4	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:49573589T>C	uc002pmg.2	-	2	1458	c.1102A>G	c.(1102-1104)ACT>GCT	p.T368A		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	368						voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)		CCACCCACAGTGACGGGTGCC	0.542													4	53					0	0	1	0	0		C	49573589	C	C	49573589	3	2	27	1	0	0	0	0	1	0	0	0	8024	1696	59	3	272	3	KCNA7	19	49573589	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	175210	49573589	9555394	7631	29982											
CD37	951	broad.mit.edu	37	chr19	49842077	49842077	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgtcggcgaccaacgacTccacaatcctagataaggtg	12	8	9	12	3	0	1	0	0	0	1	3	3	2	1	3	2	1	0	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:49842077T>A	uc002pnd.2	+	6	689	c.568T>A	c.(568-570)TCC>ACC	p.S190T	uc002pnb.1_Intron|CD37_uc002pnc.2_RNA|CD37_uc010yam.1_Missense_Mutation_p.S190T|CD37_uc010yan.1_Missense_Mutation_p.S122T|CD37_uc002pnf.3_Missense_Mutation_p.S162T|CD37_uc002pne.2_Missense_Mutation_p.S122T	NM_001774	NP_001765	P11049	CD37_HUMAN	CD37 antigen isoform A	190	Extracellular (Potential).					integral to membrane					0		all_lung(116;2.81e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00088)|GBM - Glioblastoma multiforme(486;0.0443)		GACCAACGACTCCACAATCCT	0.607													6	80					0	0	1	0	0		A	49842077	A	A	49842077	3	1	27	1	0	0	0	0	1	0	0	0	3011	1551	54	5	590	5	CD37	19	49842077	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	268488	49842077	9286906	7632	29983											
TEAD2	8463	broad.mit.edu	37	chr19	49862738	49862738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttctcagcttgatgtagcggGcgatcagttcattccgacct	7	13	10	11	3	3	1	3	1	1	0	5	3	4	1	2	1	2	3	2	1	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:49862738G>A	uc002pnj.2	-	3	342	c.251C>T	c.(250-252)GCC>GTC	p.A84V	TEAD2_uc002png.2_Missense_Mutation_p.A84V|TEAD2_uc002pnh.2_Missense_Mutation_p.A84V|TEAD2_uc002pni.2_Missense_Mutation_p.A84V|TEAD2_uc010yao.1_5'UTR|TEAD2_uc010emw.2_Missense_Mutation_p.A84V	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	84	TEA.				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		GATGTAGCGGGCGATCAGTTC	0.512													14	184					0	0	1	0	0		A	49862738	A	A	49862738	3	1	27	1	0	0	0	0	1	0	0	0	15764	1203	42	2	1132	2	TEAD2	19	49862738	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20661	49862738	9266245	7633	29984											
RCN3	57333	broad.mit.edu	37	chr19	50042431	50042431	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatgtccaggtggaggagtAcatcggtgagtgggccccaa	9	8	15	9	1	0	1	0	1	0	0	2	3	1	3	3	5	1	1	3	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:50042431A>T	uc002poj.2	+	5	1121	c.674A>T	c.(673-675)TAC>TTC	p.Y225F		NM_020650	NP_065701	Q96D15	RCN3_HUMAN	reticulocalbin 3, EF-hand calcium binding domain	225	EF-hand 4.					endoplasmic reticulum lumen	calcium ion binding|protein binding			ovary(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00295)|GBM - Glioblastoma multiforme(134;0.0159)		GTGGAGGAGTACATCGGTGAG	0.587													5	56					0	0	1	0	0		T	50042431	T	T	50042431	3	4	27	1	0	0	0	0	1	0	0	0	13206	391	14	5	688	5	RCN3	19	50042431	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	179693	50042431	9086552	7634	29985											
PRR12	57479	broad.mit.edu	37	chr19	50098300	50098300	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccccagacccaccaccAcctcctcgccacctcccaac	8	3	4	26	1	0	1	0	0	0	1	3	1	2	1	11	1	1	0	11	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:50098300A>G	uc002poo.3	+	4	708	c.708A>G	c.(706-708)CCA>CCG	p.P236P		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	22	Pro-rich.						DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		ACCCACCACCACCTCCTCGCC	0.687													6	13					0	0	1	0	0		G	50098300	G	G	50098300	2	3	27	1	0	0	0	0	0	0	0	1	12606	146	6	3		3	PRR12	19	50098300	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	55869	50098300	9030683	7635	29986											
SCAF1	58506	broad.mit.edu	37	chr19	50154406	50154406	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacgacccttttgagcccAccggctccaaccccagctca	9	7	7	18	2	1	1	1	1	0	0	2	2	2	1	6	1	4	3	6	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:50154406A>G	uc002poq.2	+	7	884	c.760A>G	c.(760-762)ACC>GCC	p.T254A		NM_021228	NP_067051	Q9H7N4	SFR19_HUMAN	SR-related CTD-associated factor 1	254	Pro-rich.				mRNA processing|RNA splicing	nucleus	RNA binding				0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00113)|GBM - Glioblastoma multiforme(134;0.0204)		TTTTGAGCCCACCGGCTCCAA	0.448													4	55					0	0	1	0	0		G	50154406	G	G	50154406	3	3	27	1	0	0	0	0	1	0	0	0	13893	159	6	3	782	3	SCAF1	19	50154406	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	56106	50154406	8974577	7636	29987											
CPT1C	126129	broad.mit.edu	37	chr19	50213650	50213650	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcgactgccatgtcgttcCattctccctatttggcaaga	7	14	8	12	2	1	1	0	0	1	1	5	2	2	1	3	1	1	2	3	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:50213650C>A	uc002ppj.2	+	14	1845	c.1640C>A	c.(1639-1641)CCA>CAA	p.P547Q	CPT1C_uc002ppl.3_Missense_Mutation_p.P513Q|CPT1C_uc002ppi.2_Missense_Mutation_p.P464Q|CPT1C_uc002ppk.2_Missense_Mutation_p.P536Q|CPT1C_uc010eng.2_Missense_Mutation_p.P547Q|CPT1C_uc010enh.2_Missense_Mutation_p.P547Q|CPT1C_uc010ybc.1_Missense_Mutation_p.P418Q|CPT1C_uc010eni.1_Missense_Mutation_p.P204Q	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	547	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		CATGTCGTTCCATTCTCCCTA	0.547													6	94					8.12818e-05	8.61523e-05	1	1	0		A	50213650	A	A	50213650	3	1	27	1	0	0	0	0	1	0	0	0	3836	594	21	5	1690	5	CPT1C	19	50213650	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	59244	50213650	8915333	7637	29988											
PNKP	11284	broad.mit.edu	37	chr19	50364536	50364536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaactggcagtacagccgcCccagcctcggctccacccat	9	5	9	18	2	0	1	0	0	0	1	2	1	1	1	6	2	4	3	6	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:50364536C>T	uc002pqh.2	-	16	1587	c.1535G>A	c.(1534-1536)GGG>GAG	p.G512E	PNKP_uc002pqg.2_Missense_Mutation_p.G293E|PNKP_uc002pqi.2_Missense_Mutation_p.G473E|PNKP_uc002pqj.2_Missense_Mutation_p.G512E|PNKP_uc010enm.2_Missense_Mutation_p.G481E|PNKP_uc002pqk.2_3'UTR	NM_007254	NP_009185	Q96T60	PNKP_HUMAN	polynucleotide kinase 3' phosphatase	512					DNA damage response, detection of DNA damage|DNA-dependent DNA replication|nucleotide-excision repair, DNA damage removal|response to oxidative stress|response to radiation	nucleolus	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|damaged DNA binding|double-stranded DNA binding|endonuclease activity|nucleotide kinase activity|polynucleotide 3'-phosphatase activity|protein binding			ovary(1)|kidney(1)	2		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0118)|OV - Ovarian serous cystadenocarcinoma(262;0.0134)		GTACAGCCGCCCCAGCCTCGG	0.632								Other_BER_factors					4	74					0	0	1	0	0		T	50364536	T	T	50364536	3	4	27	1	0	0	0	0	1	0	0	0	12166	623	22	4	34	4	PNKP	19	50364536	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	150886	50364536	8764447	7638	29989											
NUP62	23636	broad.mit.edu	37	chr19	50412522	50412522	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtggcaggtgccgtgggCtgggctgaattccctgctga	6	9	16	10	2	0	2	0	2	0	0	1	2	1	2	2	4	3	4	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:50412522C>T	uc002pqx.2	-	2	647	c.543G>A	c.(541-543)CAG>CAA	p.Q181Q	IL4I1_uc002pqv.1_Intron|IL4I1_uc010eno.1_Intron|IL4I1_uc002pqw.1_Intron|IL4I1_uc002pqu.1_Intron|NUP62_uc002pqy.2_Silent_p.Q181Q|NUP62_uc002pqz.2_Silent_p.Q181Q|NUP62_uc002pra.2_Silent_p.Q181Q|NUP62_uc002prb.2_Silent_p.Q181Q|NUP62_uc002prc.2_Silent_p.Q181Q	NM_153719	NP_714941	P37198	NUP62_HUMAN	nucleoporin 62kDa	181	15 X 9 AA approximate repeats.|Ala-rich.|Thr-rich.				carbohydrate metabolic process|cell death|cell surface receptor linked signaling pathway|glucose transport|hormone-mediated signaling pathway|mRNA transport|negative regulation of apoptosis|negative regulation of cell proliferation|nucleocytoplasmic transport|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|protein transport|regulation of glucose transport|transcription, DNA-dependent|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleocytoplasmic shuttling complex|ribonucleoprotein complex|spindle pole	chromatin binding|protein serine/threonine kinase activity|receptor signaling complex scaffold activity|SH2 domain binding|structural constituent of nuclear pore|thyroid hormone receptor binding|ubiquitin binding				0		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00242)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		GTGCCGTGGGCTGGGCTGAAT	0.627													4	96					0	0	1	0	0		T	50412522	T	T	50412522	2	4	27	1	0	0	0	0	0	0	0	1	10787	796	28	2		2	NUP62	19	50412522	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	47986	50412522	8716461	7639	29990											
MYH14	79784	broad.mit.edu	37	chr19	50747562	50747562	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccttgaagagagaacggaAcaccgatcaagccaccatgc	14	5	10	12	2	1	3	1	1	0	2	1	6	1	4	4	1	5	0	4	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:50747562A>G	uc002prr.1	+	10	1201	c.1154A>G	c.(1153-1155)AAC>AGC	p.N385S	MYH14_uc010enu.1_Missense_Mutation_p.N393S|MYH14_uc002prq.1_Missense_Mutation_p.N393S	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	385	Myosin head-like.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		AGAGAACGGAACACCGATCAA	0.632													3	38					0	0	1	0	0		G	50747562	G	G	50747562	3	3	27	1	0	0	0	0	1	0	0	0	10051	43	2	3	1216	3	MYH14	19	50747562	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	335040	50747562	8381421	7640	29991											
NAPSA	9476	broad.mit.edu	37	chr19	50861982	50861982	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagggccctgcaggcggaGggacatccagggcctggaaa	11	3	17	10	1	0	1	0	0	0	1	1	4	1	4	3	6	1	1	3	6	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:50861982G>T	uc002prx.2	-	9	1144	c.1091C>A	c.(1090-1092)CCT>CAT	p.P364H	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	364					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		TGCAGGCGGAGGGACATCCAG	0.637													4	37					0.184627	0.185716	1	1	0		T	50861982	T	T	50861982	3	4	27	1	0	0	0	0	1	0	0	0	10184	1000	35	5	175	5	NAPSA	19	50861982	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	114420	50861982	8267001	7641	29992											
NAPSA	9476	broad.mit.edu	37	chr19	50862307	50862307	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccgtgaggttaaaccagacCcccccaagaaggaaggagac	14	3	12	12	1	0	4	0	1	0	3	0	6	0	5	5	3	1	1	5	3	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:50862307C>T	uc002prx.2	-	8	1049	c.996G>A	c.(994-996)GGG>GGA	p.G332G	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	332					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		TAAACCAGACCCCCCCAAGAA	0.532													6	88					0	0	1	0	0		T	50862307	T	T	50862307	2	4	27	1	0	0	0	0	0	0	0	1	10184	610	22	4		4	NAPSA	19	50862307	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	325	50862307	8266676	7642	29993											
NR1H2	7376	broad.mit.edu	37	chr19	50881803	50881803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctttctgaagaacagatccGgaagaagaagattcggaaac	16	7	10	8	2	1	6	0	1	1	5	3	8	2	8	2	2	2	0	2	2	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:50881803G>A	uc010enw.2	+	6	773	c.497G>A	c.(496-498)CGG>CAG	p.R166Q	NR1H2_uc002prv.3_RNA|NR1H2_uc002prz.3_Missense_Mutation_p.R166Q|NR1H2_uc002psa.3_Missense_Mutation_p.R69Q	NM_007121	NP_009052	P55055	NR1H2_HUMAN	nuclear receptor subfamily 1, group H, member 2	166					negative regulation of cholesterol storage|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of pinocytosis|negative regulation of transcription, DNA-dependent|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		GAACAGATCCGGAAGAAGAAG	0.662													16	62					0	0	1	0	0		A	50881803	A	A	50881803	3	1	27	1	0	0	0	0	1	0	0	0	10636	1116	39	1	511	1	NR1H2	19	50881803	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19496	50881803	8247180	7643	29994											
POLD1	5424	broad.mit.edu	37	chr19	50905974	50905974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttgcgcgtgctcagcttcGatatcgagtgcgccggccgc	4	9	13	15	7	1	0	1	0	0	0	3	2	1	0	3	1	4	2	3	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:50905974G>A	uc002psb.3	+	8	1002	c.946G>A	c.(946-948)GAT>AAT	p.D316N	POLD1_uc002psc.3_Missense_Mutation_p.D316N|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Missense_Mutation_p.D316N	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	316					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		GCTCAGCTTCGATATCGAGTG	0.677								DNA_polymerases_(catalytic_subunits)					4	28					0	0	1	0	0		A	50905974	A	A	50905974	3	1	27	1	0	0	0	0	1	0	0	0	12209	1058	37	1	972	1	POLD1	19	50905974	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	24171	50905974	8223009	7644	29995											
LRRC4B	94030	broad.mit.edu	37	chr19	51022237	51022237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accctggaaggagcccgggcGgatcaggtccagccggttgc	7	5	16	13	3	1	0	1	0	0	0	2	3	2	3	4	6	3	1	4	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:51022237G>A	uc002pss.2	-	3	870	c.733C>T	c.(733-735)CGC>TGC	p.R245C		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	245	Extracellular (Potential).|LRR 7.					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		GAGCCCGGGCGGATCAGGTCC	0.657													5	23					0	0	1	0	0		A	51022237	A	A	51022237	3	1	27	1	0	0	0	0	1	0	0	0	9025	1116	39	1	1412	1	LRRC4B	19	51022237	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	116263	51022237	8106746	7645	29996											
SHANK1	50944	broad.mit.edu	37	chr19	51189547	51189547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagggacgcgaggccacCgggaccagggctttcgcttg	6	5	16	14	4	0	0	0	0	0	0	1	3	0	2	4	4	0	2	4	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:51189547C>T	uc002psx.1	-	20	2543	c.2524G>A	c.(2524-2526)GGT>AGT	p.G842S	SHANK1_uc002psw.1_Missense_Mutation_p.G226S	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	842					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GCGAGGCCACCGGGACCAGGG	0.597													11	65					0	0	1	0	0		T	51189547	T	T	51189547	3	4	27	1	0	0	0	0	1	0	0	0	14289	652	23	1	3977	1	SHANK1	19	51189547	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	167310	51189547	7939436	7646	29997											
SHANK1	50944	broad.mit.edu	37	chr19	51219729	51219729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcggggttgaagcgaaGgcatttctggttggggaaga	9	9	18	5	2	1	2	0	1	1	1	2	4	1	3	0	7	1	4	0	7	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:51219729G>A	uc002psx.1	-	2	281	c.262C>T	c.(262-264)CTT>TTT	p.L88F		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	88					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		TTGAAGCGAAGGCATTTCTGG	0.617													6	39					0	0	1	0	0		A	51219729	A	A	51219729	3	1	27	1	0	0	0	0	1	0	0	0	14289	1000	35	4	6311	4	SHANK1	19	51219729	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	30182	51219729	7909254	7647	29998											
ACPT	93650	broad.mit.edu	37	chr19	51297733	51297733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcatgacagcaccctgctggCcctccagggggccctgggcc	5	5	14	17	0	0	1	0	1	0	0	1	1	1	1	5	4	2	3	5	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:51297733C>T	uc002pta.1	+	9	881	c.881C>T	c.(880-882)GCC>GTC	p.A294V		NM_033068	NP_149059	Q9BZG2	PPAT_HUMAN	testicular acid phosphatase precursor	294	Extracellular (Potential).					integral to membrane	acid phosphatase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		ACCCTGCTGGCCCTCCAGGGG	0.617													16	47					0	0	1	0	0		T	51297733	T	T	51297733	3	4	27	1	0	0	0	0	1	0	0	0	168	739	26	2	915	2	ACPT	19	51297733	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	78004	51297733	7831250	7648	29999											
KLK15	55554	broad.mit.edu	37	chr19	51329891	51329891	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgacctcacaggattctgCgcctctgccctccgcgcctg	4	10	9	18	3	4	1	1	1	3	0	5	2	5	2	5	1	2	0	5	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:51329891C>T	uc002ptl.2	-	4	635	c.604G>A	c.(604-606)GCA>ACA	p.A202T	KLK1_uc002ptk.1_5'Flank|KLK1_uc010ycg.1_5'Flank|KLK15_uc002ptm.2_Intron|KLK15_uc002ptn.2_Intron|KLK15_uc002pto.2_Missense_Mutation_p.A201T|KLK15_uc010ych.1_RNA|KLK15_uc010yci.1_Intron|KLK15_uc010eod.2_Intron	NM_017509	NP_059979	Q9H2R5	KLK15_HUMAN	kallikrein-related peptidase 15 isoform 4	202	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)|breast(1)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00758)|GBM - Glioblastoma multiforme(134;0.0143)		CAGGATTCTGCGCCTCTGCCC	0.567													7	74					0	0	1	0	0		T	51329891	T	T	51329891	3	4	27	1	0	0	0	0	1	0	0	0	8419	768	27	1	174	1	KLK15	19	51329891	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	32158	51329891	7799092	7649	30000											
KLK5	25818	broad.mit.edu	37	chr19	51452276	51452276	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtggccagggtgggagtagCcagggtgggggatggatttg	7	8	22	4	0	0	0	0	0	0	0	0	3	0	3	2	7	1	1	2	7	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:51452276C>A	uc002pue.2	-	5	649	c.431G>T	c.(430-432)GGC>GTC	p.G144V	KLK5_uc002puf.2_Missense_Mutation_p.G144V|KLK5_uc002pug.2_Missense_Mutation_p.G144V	NM_001077491	NP_001070959	Q9Y337	KLK5_HUMAN	kallikrein-related peptidase 5 preproprotein	144	Peptidase S1.				epidermis development|positive regulation of G-protein coupled receptor protein signaling pathway|proteolysis	extracellular space	protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00379)|GBM - Glioblastoma multiforme(134;0.00888)		GTGGGAGTAGCCAGGGTGGGG	0.517													5	73					0.014758	0.0150623	1	1	0		A	51452276	A	A	51452276	3	1	27	1	0	0	0	0	1	0	0	0	8423	739	26	5	462	5	KLK5	19	51452276	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	122385	51452276	7676707	7650	30001											
KLK6	5653	broad.mit.edu	37	chr19	51465041	51465041	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctcatccccagcacacaAcatgttctgggtgatctggc	8	11	8	14	0	3	1	1	1	3	0	5	1	4	1	2	2	2	2	2	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:51465041A>C	uc002pui.2	-	6	801	c.541T>G	c.(541-543)TTG>GTG	p.L181V	KLK6_uc010eoj.2_Intron|KLK6_uc002puh.2_Missense_Mutation_p.L190V|KLK6_uc002puj.2_Missense_Mutation_p.L74V|KLK6_uc010ycn.1_Missense_Mutation_p.L74V|KLK6_uc002pul.2_Missense_Mutation_p.L181V|KLK6_uc002pum.2_Missense_Mutation_p.L74V	NM_001012964	NP_001012982	Q92876	KLK6_HUMAN	kallikrein-related peptidase 6 isoform A	181	Peptidase S1.				amyloid precursor protein metabolic process|central nervous system development|collagen catabolic process|hormone metabolic process|myelination|positive regulation of G-protein coupled receptor protein signaling pathway|protein autoprocessing|proteolysis|regulation of cell differentiation|tissue regeneration	endoplasmic reticulum|extracellular region|microsome|mitochondrion|nucleolus	protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00372)|GBM - Glioblastoma multiforme(134;0.00871)		CCAGCACACAACATGTTCTGG	0.463													8	55					0	0	1	0	0		C	51465041	C	C	51465041	3	2	27	1	0	0	0	0	1	0	0	0	8424	40	2	5	201	5	KLK6	19	51465041	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	12765	51465041	7663942	7651	30002											
KLK10	5655	broad.mit.edu	37	chr19	51518083	51518083	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagcgtatgactttattgatCcaggacatgtatttgcagat	11	14	10	6	1	0	3	0	2	0	1	1	5	1	4	1	1	2	3	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:51518083C>T	uc002puy.2	-	6	885	c.804G>A	c.(802-804)TGG>TGA	p.W268*	KLK10_uc002puz.2_Nonsense_Mutation_p.W268*|KLK10_uc002pva.2_Nonsense_Mutation_p.W268*	NM_145888	NP_665895	O43240	KLK10_HUMAN	kallikrein-related peptidase 10 preproprotein	268	Peptidase S1.				cell cycle|proteolysis	extracellular region	serine-type endopeptidase activity	p.W268C(1)		lung(2)	2		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00885)		CTTTATTGATCCAGGACATGT	0.542													8	97					0	0	1	0	0		T	51518083	T	T	51518083	4	4	27	1	0	0	0	0	0	1	0	0	8414	856	30	4	30	4	KLK10	19	51518083	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	53042	51518083	7610900	7652	30003											
CD33	945	broad.mit.edu	37	chr19	51728581	51728581	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcttccatcccatacccTactacgacaagaactcccca	11	10	2	18	1	1	1	0	0	1	1	4	2	4	1	5	0	4	0	5	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:51728581T>C	uc002pwa.2	+	2	185	c.145T>C	c.(145-147)TAC>CAC	p.Y49H	CD33_uc010eos.1_Missense_Mutation_p.Y49H|CD33_uc010eot.1_Intron|CD33_uc010eou.1_5'Flank	NM_001772	NP_001763	P20138	CD33_HUMAN	CD33 antigen isoform 1 precursor	49	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell-cell signaling|negative regulation of cell proliferation	external side of plasma membrane|integral to plasma membrane	receptor activity|sugar binding				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	TCCCATACCCTACTACGACAA	0.517													8	147					0	0	1	0	0		C	51728581	C	C	51728581	3	2	27	1	0	0	0	0	1	0	0	0	3008	1522	53	3	151	3	CD33	19	51728581	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	210498	51728581	7400402	7653	30004											
NKG7	4818	broad.mit.edu	37	chr19	51875747	51875747	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aatcaggcagaacatcaggcCcagggagccccccagcaggg	12	2	13	14	0	2	1	2	0	0	1	2	2	2	2	4	4	3	2	4	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:51875747C>A	uc002pwj.2	-	1	214	c.43G>T	c.(43-45)GGC>TGC	p.G15C	NKG7_uc002pwk.2_Missense_Mutation_p.G15C	NM_005601	NP_005592	Q16617	NKG7_HUMAN	natural killer cell group 7 sequence	15	Helical; (Potential).					integral to plasma membrane				central_nervous_system(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000211)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		AACATCAGGCCCAGGGAGCCC	0.507													4	55					1.024e-07	1.12055e-07	1	1	0		A	51875747	A	A	51875747	3	1	27	1	0	0	0	0	1	0	0	0	10462	623	22	5	470	5	NKG7	19	51875747	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	147166	51875747	7253236	7654	30005											
SIGLEC5	8778	broad.mit.edu	37	chr19	52132322	52132322	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagatggtgatggtctgTggagcatctgggataaaaag	12	10	15	4	0	2	3	0	2	2	1	2	5	2	5	0	4	1	1	0	4	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52132322T>C	uc002pxe.2	-	4	847	c.708A>G	c.(706-708)CCA>CCG	p.P236P		NM_003830	NP_003821	O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5 precursor	236	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to membrane	sugar binding			skin(2)|breast(1)|central_nervous_system(1)	4		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		TGATGGTCTGTGGAGCATCTG	0.527													7	141					0	0	1	0	0		C	52132322	C	C	52132322	2	2	27	1	0	0	0	0	0	0	0	1	14336	1683	59	3		3	SIGLEC5	19	52132322	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	256575	52132322	6996661	7655	30006											
HAS1	3036	broad.mit.edu	37	chr19	52216730	52216730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccggcaaagcctccgcaCgcccacccagtacagcgtca	9	3	9	20	5	1	0	1	0	0	0	2	0	2	0	6	1	3	3	6	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52216730C>T	uc002pxo.1	-	5	1722	c.1687G>A	c.(1687-1689)GTG>ATG	p.V563M	HAS1_uc010epc.1_Missense_Mutation_p.V163M|HAS1_uc010epd.1_3'UTR|HAS1_uc002pxn.1_Missense_Mutation_p.V570M|HAS1_uc002pxp.1_Missense_Mutation_p.V562M	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1	563	Extracellular (Potential).				cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding			ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		AGCCTCCGCACGCCCACCCAG	0.721													3	15					0	0	1	0	0		T	52216730	T	T	52216730	3	4	27	1	0	0	0	0	1	0	0	0	6977	536	19	1	53	1	HAS1	19	52216730	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	84408	52216730	6912253	7656	30007											
HAS1	3036	broad.mit.edu	37	chr19	52219570	52219570	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtcatccccaaaagtacAgtgggtacccaggaacttct	11	8	9	13	1	2	0	1	0	1	0	3	1	3	1	4	3	3	2	4	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52219570A>C	uc002pxo.1	-	4	1035	c.1000T>G	c.(1000-1002)TGT>GGT	p.C334G	HAS1_uc010epc.1_Intron|HAS1_uc010epd.1_Missense_Mutation_p.C299G|HAS1_uc002pxn.1_Missense_Mutation_p.C341G|HAS1_uc002pxp.1_Missense_Mutation_p.C333G	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1	334	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding	p.C334Y(1)		ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		CCAAAAGTACAGTGGGTACCC	0.542													6	79					0	0	1	0	0		C	52219570	C	C	52219570	3	2	27	1	0	0	0	0	1	0	0	0	6977	188	7	5	744	5	HAS1	19	52219570	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2840	52219570	6909413	7657	30008											
ZNF649	65251	broad.mit.edu	37	chr19	52399760	52399760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggatttcatcttctagtGtccatagtggttctccttgt	5	19	9	8	0	4	0	1	0	3	0	6	1	5	1	2	2	0	1	2	2	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52399760G>A	uc002pxy.2	-	4	471	c.203C>T	c.(202-204)ACA>ATA	p.T68I		NM_023074	NP_075562	Q9BS31	ZN649_HUMAN	zinc finger protein 649	68	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00152)|OV - Ovarian serous cystadenocarcinoma(262;0.0185)		ATCTTCTAGTGTCCATAGTGG	0.498													8	97					0	0	1	0	0		A	52399760	A	A	52399760	3	1	27	1	0	0	0	0	1	0	0	0	18089	1377	48	4	1322	4	ZNF649	19	52399760	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	180190	52399760	6729223	7658	30009											
ZNF613	79898	broad.mit.edu	37	chr19	52448122	52448122	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaaggccttctccaaaaggtCcaggctcactgaacaccaga	13	6	9	13	0	2	2	1	1	1	1	4	3	3	2	4	3	1	1	4	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52448122C>G	uc002pxz.1	+	6	1409	c.986C>G	c.(985-987)TCC>TGC	p.S329C	ZNF613_uc002pya.1_Missense_Mutation_p.S293C	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	329	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		TCCAAAAGGTCCAGGCTCACT	0.473													6	59					0	0	1	0	0		G	52448122	G	G	52448122	3	3	27	1	0	0	0	0	1	0	0	0	18063	855	30	5	1000	5	ZNF613	19	52448122	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	48362	52448122	6680861	7659	30010											
ZNF613	79898	broad.mit.edu	37	chr19	52448840	52448840	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatacaggataaagactcTgttaacatggtgactctgca	13	11	8	9	0	3	2	1	1	2	1	3	3	3	3	0	2	3	2	0	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52448840T>C	uc002pxz.1	+	6	2127	c.1704T>C	c.(1702-1704)TCT>TCC	p.S568S	ZNF613_uc002pya.1_Silent_p.S532S	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	568					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		ATAAAGACTCTGTTAACATGG	0.443													6	55					0	0	1	0	0		C	52448840	C	C	52448840	2	2	27	1	0	0	0	0	0	0	0	1	18063	1567	55	3		3	ZNF613	19	52448840	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	718	52448840	6680143	7660	30011											
ZNF350	59348	broad.mit.edu	37	chr19	52469030	52469030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttctctcctgtatgcattaCctggtgatcagttagccaag	8	15	8	10	0	2	1	1	1	1	0	4	1	3	1	3	1	3	3	3	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52469030C>T	uc002pyd.2	-	5	904	c.676G>A	c.(676-678)GTA>ATA	p.V226I	uc002pyb.2_Intron|uc002pyc.2_Intron	NM_021632	NP_067645	Q9GZX5	ZN350_HUMAN	zinc finger protein 350	226	C2H2-type 1.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix|transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			breast(1)	1		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0179)		GTATGCATTACCTGGTGATCA	0.438													6	132					0	0	1	0	0		T	52469030	T	T	52469030	3	4	27	1	0	0	0	0	1	0	0	0	17888	507	18	4	926	4	ZNF350	19	52469030	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	20190	52469030	6659953	7661	30012											
ZNF615	284370	broad.mit.edu	37	chr19	52496490	52496490	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagtatgagtttgctgatgTatactgagagtactcttcat	10	15	9	7	0	2	3	1	3	1	1	2	4	2	3	1	0	3	5	1	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52496490T>C	uc002pye.1	-	6	2131	c.1839A>G	c.(1837-1839)ATA>ATG	p.I613M	ZNF615_uc002pyf.1_Missense_Mutation_p.I624M|ZNF615_uc002pyg.1_Missense_Mutation_p.I505M|ZNF615_uc002pyh.1_Missense_Mutation_p.I624M|ZNF615_uc010epi.1_Missense_Mutation_p.I620M|ZNF615_uc010ydg.1_Missense_Mutation_p.I618M	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	613	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TTTGCTGATGTATACTGAGAG	0.408													7	112					0	0	1	0	0		C	52496490	C	C	52496490	3	2	27	1	0	0	0	0	1	0	0	0	18065	1628	57	3	360	3	ZNF615	19	52496490	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	27460	52496490	6632493	7662	30013											
ZNF614	80110	broad.mit.edu	37	chr19	52520093	52520093	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacagattttgtctgttgtaTtagttttcagatgcttagtg	8	20	9	4	0	2	2	1	0	1	2	2	2	2	2	0	0	2	4	0	0	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52520093T>C	uc002pyj.2	-	5	1160	c.758A>G	c.(757-759)AAT>AGT	p.N253S	ZNF614_uc002pyi.3_Intron|ZNF614_uc010epj.2_5'UTR	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	253					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		GTCTGTTGTATTAGTTTTCAG	0.363													10	93					0	0	1	0	0		C	52520093	C	C	52520093	3	2	27	1	0	0	0	0	1	0	0	0	18064	1493	52	3	1003	3	ZNF614	19	52520093	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	23603	52520093	6608890	7663	30014											
ZNF614	80110	broad.mit.edu	37	chr19	52521298	52521298	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgaattttagcatctgttgtCcatggttcttgtccatgtgc	6	18	9	8	0	2	1	0	1	2	0	4	1	4	1	2	1	2	3	2	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52521298C>T	uc002pyj.2	-	4	603	c.201G>A	c.(199-201)TGG>TGA	p.W67*	ZNF614_uc002pyi.3_Nonsense_Mutation_p.W67*|ZNF614_uc010epj.2_5'UTR	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	67	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		CATCTGTTGTCCATGGTTCTT	0.408													11	57					0	0	1	0	0		T	52521298	T	T	52521298	4	4	27	1	0	0	0	0	0	1	0	0	18064	856	30	4	1564	4	ZNF614	19	52521298	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1205	52521298	6607685	7664	30015											
ZNF432	9668	broad.mit.edu	37	chr19	52537719	52537719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggaaagccttttccacattCactgcatatgtagggtttct	9	14	9	9	0	2	0	1	0	1	0	3	1	3	1	2	2	2	3	2	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52537719C>T	uc002pyk.2	-	5	1531	c.1213G>A	c.(1213-1215)GAA>AAA	p.E405K		NM_014650	NP_055465	O94892	ZN432_HUMAN	zinc finger protein 432	405	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|pancreas(1)	3		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.0054)|OV - Ovarian serous cystadenocarcinoma(262;0.0182)		TTTCCACATTCACTGCATATG	0.388													5	101					0	0	1	0	0		T	52537719	T	T	52537719	3	4	27	1	0	0	0	0	1	0	0	0	17931	835	29	4	749	4	ZNF432	19	52537719	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16421	52537719	6591264	7665	30016											
ZNF616	90317	broad.mit.edu	37	chr19	52619658	52619658	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtgtcttacaaaatatgaAttttttctgaagatcttgcc	11	17	7	6	0	3	3	0	2	3	1	3	3	3	3	1	1	2	0	1	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52619658A>T	uc002pym.2	-	4	1042	c.759T>A	c.(757-759)AAT>AAA	p.N253K	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	253	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		CAAAATATGAATTTTTTCTGA	0.398													10	95					0	0	1	0	0		T	52619658	T	T	52619658	3	4	27	1	0	0	0	0	1	0	0	0	18066	98	4	5	1590	5	ZNF616	19	52619658	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	81939	52619658	6509325	7666	30017											
ZNF836	162962	broad.mit.edu	37	chr19	52658789	52658789	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtggtttctccccagtaGgatttctgtgatatcttgca	6	17	10	8	0	3	1	0	1	3	0	4	2	3	2	2	2	1	3	2	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52658789G>T	uc010ydi.1	-	5	2521	c.2147C>A	c.(2146-2148)CCT>CAT	p.P716H	ZNF836_uc010ydj.1_Missense_Mutation_p.P716H	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	716	C2H2-type 18; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTCCCCAGTAGGATTTCTGTG	0.398													7	62					0.00307968	0.00318367	1	1	0		T	52658789	T	T	52658789	3	4	27	1	0	0	0	0	1	0	0	0	18212	1000	35	5	665	5	ZNF836	19	52658789	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39131	52658789	6470194	7667	30018											
ZNF836	162962	broad.mit.edu	37	chr19	52659094	52659094	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattgaagaccttgccacaCacattacatttgtaaggttt	12	14	6	9	0	1	2	1	1	0	1	1	2	1	2	2	1	2	2	2	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52659094C>T	uc010ydi.1	-	5	2216	c.1842G>A	c.(1840-1842)GTG>GTA	p.V614V	ZNF836_uc010ydj.1_Silent_p.V614V	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	614	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCTTGCCACACACATTACATT	0.408													17	202					0	0	1	0	0		T	52659094	T	T	52659094	2	4	27	1	0	0	0	0	0	0	0	1	18212	465	17	4		4	ZNF836	19	52659094	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	305	52659094	6469889	7668	30019											
ZNF836	162962	broad.mit.edu	37	chr19	52659268	52659268	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaccttgccacacacattAcatttgtaaggttgctcccc	11	11	6	13	0	0	1	0	0	0	1	1	1	1	1	4	1	3	3	4	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52659268A>G	uc010ydi.1	-	5	2042	c.1668T>C	c.(1666-1668)TGT>TGC	p.C556C	ZNF836_uc010ydj.1_Silent_p.C556C	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	556	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACACACATTACATTTGTAAG	0.383													26	238					0	0	1	0	0		G	52659268	G	G	52659268	2	3	27	1	0	0	0	0	0	0	0	1	18212	389	14	3		3	ZNF836	19	52659268	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	174	52659268	6469715	7669	30020											
ZNF766	90321	broad.mit.edu	37	chr19	52785388	52785388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acttgacattcagggacgtgGccatagaattctctcaggag	11	10	11	9	1	3	2	2	1	1	1	4	4	3	4	1	3	0	0	1	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:52785388G>A	uc002pyr.1	+	2	86	c.43G>A	c.(43-45)GCC>ACC	p.A15T	ZNF766_uc002pys.1_Missense_Mutation_p.A15T|ZNF766_uc002pyt.1_Missense_Mutation_p.A30T	NM_001010851	NP_001010851	Q5HY98	ZN766_HUMAN	zinc finger protein 766	15	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00236)|OV - Ovarian serous cystadenocarcinoma(262;0.00871)		CAGGGACGTGGCCATAGAATT	0.453													55	178					0	0	1	0	0		A	52785388	A	A	52785388	3	1	27	1	0	0	0	0	1	0	0	0	18165	1203	42	2	49	2	ZNF766	19	52785388	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	126120	52785388	6343595	7670	30021											
ZNF808	388558	broad.mit.edu	37	chr19	53056557	53056557	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggccatgaagcacccacgAcaaaaataaaaaagttgact	19	6	7	9	1	0	2	0	2	0	0	0	3	0	2	2	1	1	2	2	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53056557A>G	uc010epq.1	+	5	565	c.388A>G	c.(388-390)ACA>GCA	p.T130A	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	130					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		AGCACCCACGACAAAAATAAA	0.383													4	226					0	0	1	0	0		G	53056557	G	G	53056557	3	3	27	1	0	0	0	0	1	0	0	0	18198	275	10	3	398	3	ZNF808	19	53056557	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	271169	53056557	6072426	7671	30022											
ZNF808	388558	broad.mit.edu	37	chr19	53057596	53057596	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggcacgacatagaagaaTtcacactggagagaaaactt	16	7	10	8	1	1	3	1	0	0	3	1	6	1	4	0	2	1	2	0	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53057596T>C	uc010epq.1	+	5	1604	c.1427T>C	c.(1426-1428)ATT>ACT	p.I476T	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	476	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		CATAGAAGAATTCACACTGGA	0.418													6	85					0	0	1	0	0		C	53057596	C	C	53057596	3	2	27	1	0	0	0	0	1	0	0	0	18198	1493	52	3	1437	3	ZNF808	19	53057596	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1039	53057596	6071387	7672	30023											
ZNF701	55762	broad.mit.edu	37	chr19	53085914	53085914	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatttcctccagtcttcatTactcacacaaaaacgggaag	14	11	5	11	1	3	0	2	0	1	0	5	1	5	1	2	1	2	0	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53085914T>C	uc002pzs.1	+	4	729	c.602T>C	c.(601-603)TTA>TCA	p.L201S	ZNF701_uc010ydn.1_Missense_Mutation_p.L267S	NM_018260	NP_060730	Q9NV72	ZN701_HUMAN	zinc finger protein 701	201					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0105)|GBM - Glioblastoma multiforme(134;0.0402)		CAGTCTTCATTACTCACACAA	0.373													3	79					0	0	1	0	0		C	53085914	C	C	53085914	3	2	27	1	0	0	0	0	1	0	0	0	18130	1764	61	3	814	3	ZNF701	19	53085914	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	28318	53085914	6043069	7673	30024											
ZNF83	55769	broad.mit.edu	37	chr19	53116566	53116566	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtatgaattctccaatgatAtgcaaggtatgaattttgac	14	14	8	5	0	1	4	0	4	1	0	2	4	1	4	1	1	1	3	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53116566A>G	uc002pzu.3	-	2	2496	c.1252T>C	c.(1252-1254)TAT>CAT	p.Y418H	ZNF83_uc002pzv.3_Missense_Mutation_p.Y418H|ZNF83_uc010eps.2_Missense_Mutation_p.Y390H|ZNF83_uc010ept.2_Missense_Mutation_p.Y418H|ZNF83_uc010epu.2_Missense_Mutation_p.Y418H|ZNF83_uc010epv.2_Missense_Mutation_p.Y418H|ZNF83_uc010epw.2_Missense_Mutation_p.Y418H|ZNF83_uc010epx.2_Missense_Mutation_p.Y390H|ZNF83_uc010epy.2_Missense_Mutation_p.Y418H|ZNF83_uc010epz.2_Missense_Mutation_p.Y390H	NM_018300	NP_060770	P51522	ZNF83_HUMAN	zinc finger protein 83 isoform a	418	C2H2-type 12.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00841)|GBM - Glioblastoma multiforme(134;0.0244)		CTCCAATGATATGCAAGGTAT	0.363													3	84					0	0	1	0	0		G	53116566	G	G	53116566	3	3	27	1	0	0	0	0	1	0	0	0	18208	449	16	3	302	3	ZNF83	19	53116566	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	30652	53116566	6012417	7674	30025											
ZNF83	55769	broad.mit.edu	37	chr19	53117122	53117122	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacatttgttacattcgtaAggtttttctccagtatgaat	10	17	6	8	1	1	1	0	1	1	0	3	1	1	1	2	1	1	4	2	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53117122A>C	uc002pzu.3	-	2	1940	c.696T>G	c.(694-696)CCT>CCG	p.P232P	ZNF83_uc002pzv.3_Silent_p.P232P|ZNF83_uc010eps.2_Silent_p.P232P|ZNF83_uc010ept.2_Silent_p.P232P|ZNF83_uc010epu.2_Silent_p.P232P|ZNF83_uc010epv.2_Silent_p.P232P|ZNF83_uc010epw.2_Silent_p.P232P|ZNF83_uc010epx.2_Silent_p.P232P|ZNF83_uc010epy.2_Silent_p.P232P|ZNF83_uc010epz.2_Silent_p.P232P|ZNF83_uc010eqb.1_Silent_p.P232P	NM_018300	NP_060770	P51522	ZNF83_HUMAN	zinc finger protein 83 isoform a	232						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00841)|GBM - Glioblastoma multiforme(134;0.0244)		TACATTCGTAAGGTTTTTCTC	0.378													7	71					0	0	1	0	0		C	53117122	C	C	53117122	2	2	27	1	0	0	0	0	0	0	0	1	18208	59	3	5		5	ZNF83	19	53117122	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	556	53117122	6011861	7675	30026											
ZNF611	81856	broad.mit.edu	37	chr19	53209608	53209608	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaggctttgccactcttatTacattggaaagatttttctc	11	16	6	8	0	2	1	0	0	2	1	3	2	2	2	1	2	2	1	1	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53209608T>G	uc002pzz.2	-	7	1017	c.700A>C	c.(700-702)AAT>CAT	p.N234H	ZNF611_uc010eqc.2_Missense_Mutation_p.N164H|ZNF611_uc010ydo.1_Missense_Mutation_p.N164H|ZNF611_uc010ydr.1_Missense_Mutation_p.N165H|ZNF611_uc010ydp.1_Missense_Mutation_p.N234H|ZNF611_uc010ydq.1_Missense_Mutation_p.N234H|ZNF611_uc002qaa.3_Missense_Mutation_p.N164H	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	234	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		CCACTCTTATTACATTGGAAA	0.368													7	166					0	0	1	0	0		G	53209608	G	G	53209608	3	3	27	1	0	0	0	0	1	0	0	0	18062	1754	61	5	1421	5	ZNF611	19	53209608	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	92486	53209608	5919375	7676	30027											
ZNF611	81856	broad.mit.edu	37	chr19	53210049	53210049	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtctttgcaatgtccctgTgtggatcacttctgtattgc	6	17	9	9	0	3	0	1	0	2	0	4	1	4	1	1	1	2	2	1	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53210049T>C	uc002pzz.2	-	7	576	c.259A>G	c.(259-261)ACA>GCA	p.T87A	ZNF611_uc010eqc.2_Missense_Mutation_p.T17A|ZNF611_uc010ydo.1_Missense_Mutation_p.T17A|ZNF611_uc010ydr.1_Missense_Mutation_p.T18A|ZNF611_uc010ydp.1_Missense_Mutation_p.T87A|ZNF611_uc010ydq.1_Missense_Mutation_p.T87A|ZNF611_uc002qaa.3_Missense_Mutation_p.T17A	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	87	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		AATGTCCCTGTGTGGATCACT	0.373													8	227					0	0	1	0	0		C	53210049	C	C	53210049	3	2	27	1	0	0	0	0	1	0	0	0	18062	1696	59	3	1862	3	ZNF611	19	53210049	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	441	53210049	5918934	7677	30028											
ZNF600	162966	broad.mit.edu	37	chr19	53270810	53270810	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttggtctgtgctaccagTcaacttttttatttttgtca	7	20	7	7	0	3	0	2	0	1	0	3	0	3	0	1	1	3	2	1	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53270810T>A	uc002qab.3	-	3	485	c.199A>T	c.(199-201)ACT>TCT	p.T67S		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	67					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		GTGCTACCAGTCAACTTTTTT	0.388													23	207					0	0	1	0	0		A	53270810	A	A	53270810	3	1	27	1	0	0	0	0	1	0	0	0	18055	1667	58	5	1973	5	ZNF600	19	53270810	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	60761	53270810	5858173	7678	30029											
ZNF28	7576	broad.mit.edu	37	chr19	53303561	53303561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagtatgaactctctgatGttctgtaaggcatgaatcac	11	13	8	9	0	3	3	1	3	2	0	5	3	4	3	1	1	1	4	1	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53303561G>A	uc002qad.2	-	4	1657	c.1537C>T	c.(1537-1539)CAT>TAT	p.H513Y	ZNF28_uc002qac.2_Missense_Mutation_p.H460Y|ZNF28_uc010eqe.2_Missense_Mutation_p.H459Y	NM_006969	NP_008900	P17035	ZNF28_HUMAN	zinc finger protein 28	513	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)		ACTCTCTGATGTTCTGTAAGG	0.388													9	117					0	0	1	0	0		A	53303561	A	A	53303561	3	1	27	1	0	0	0	0	1	0	0	0	17838	1377	48	4	623	4	ZNF28	19	53303561	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	32751	53303561	5825422	7679	30030											
ZNF320	162967	broad.mit.edu	37	chr19	53384506	53384506	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgcagtatgaactgccttAtgaattacgaggactgaatt	12	13	9	7	1	1	3	0	3	1	0	1	5	1	4	1	1	4	2	1	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53384506A>T	uc002qag.2	-	4	1064	c.873T>A	c.(871-873)CAT>CAA	p.H291Q	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.H237Q|ZNF320_uc002qai.2_Missense_Mutation_p.H291Q	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	291	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		GAACTGCCTTATGAATTACGA	0.428													12	106					0	0	1	0	0		T	53384506	T	T	53384506	3	4	27	1	0	0	0	0	1	0	0	0	17864	446	16	5	660	5	ZNF320	19	53384506	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	80945	53384506	5744477	7680	30031											
ZNF160	90338	broad.mit.edu	37	chr19	53572543	53572543	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagtgtggattgtctgaTggattgctaggcttgaacga	8	13	13	7	1	1	2	0	2	1	0	2	5	2	4	1	3	2	2	1	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53572543T>C	uc010eqk.2	-	7	1660	c.1244A>G	c.(1243-1245)CAT>CGT	p.H415R	ZNF160_uc002qaq.3_Missense_Mutation_p.H415R|ZNF160_uc002qar.3_Missense_Mutation_p.H415R	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	415	C2H2-type 6.				hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		GATTGTCTGATGGATTGCTAG	0.418													12	134					0	0	1	0	0		C	53572543	C	C	53572543	3	2	27	1	0	0	0	0	1	0	0	0	17764	1464	51	3	1216	3	ZNF160	19	53572543	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	188037	53572543	5556440	7681	30032											
ZNF415	55786	broad.mit.edu	37	chr19	53612488	53612488	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattcattacatttgtatggTttctctccagtatgaactct	9	18	5	9	0	3	1	1	1	2	0	5	1	4	1	1	1	2	3	1	1	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53612488T>C	uc002qax.2	-	7	1303	c.954A>G	c.(952-954)AAA>AAG	p.K318K	ZNF415_uc002qat.2_Silent_p.K282K|ZNF415_uc002qaw.2_Silent_p.K270K|ZNF415_uc010yds.1_Silent_p.K270K|ZNF415_uc010ydt.1_Silent_p.K270K|ZNF415_uc002qau.2_Silent_p.K257K|ZNF415_uc002qav.2_Silent_p.K282K|ZNF415_uc002qba.2_Silent_p.K40K|ZNF415_uc002qay.2_Silent_p.K257K|ZNF415_uc002qaz.2_Silent_p.K318K	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	318					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		ATTTGTATGGTTTCTCTCCAG	0.408													9	45					0	0	1	0	0		C	53612488	C	C	53612488	2	2	27	1	0	0	0	0	0	0	0	1	17917	1722	60	3		3	ZNF415	19	53612488	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	39945	53612488	5516495	7682	30033											
ZNF415	55786	broad.mit.edu	37	chr19	53612818	53612818	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcaacatggttacattcAtaaattttcccttcagcttg	10	17	4	10	0	3	0	3	0	1	0	5	0	4	0	1	1	3	2	1	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53612818A>G	uc002qax.2	-	7	973	c.624T>C	c.(622-624)TAT>TAC	p.Y208Y	ZNF415_uc002qat.2_Silent_p.Y172Y|ZNF415_uc002qaw.2_Silent_p.Y160Y|ZNF415_uc010yds.1_Silent_p.Y160Y|ZNF415_uc010ydt.1_Silent_p.Y160Y|ZNF415_uc002qau.2_Silent_p.Y147Y|ZNF415_uc002qav.2_Silent_p.Y172Y|ZNF415_uc002qba.2_5'UTR|ZNF415_uc002qay.2_Silent_p.Y147Y|ZNF415_uc002qaz.2_Silent_p.Y208Y	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	208					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		GGTTACATTCATAAATTTTCC	0.378													4	85					0	0	1	0	0		G	53612818	G	G	53612818	2	3	27	1	0	0	0	0	0	0	0	1	17917	224	8	3		3	ZNF415	19	53612818	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	330	53612818	5516165	7683	30034											
ZNF347	84671	broad.mit.edu	37	chr19	53645574	53645574	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgcatctcttttatcatgTtcatctcttccatgagtgag	7	18	6	10	0	4	2	2	2	2	0	7	2	5	2	1	0	1	2	1	0	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53645574T>G	uc002qbb.1	-	5	576	c.507A>C	c.(505-507)GAA>GAC	p.E169D	ZNF347_uc010eql.1_Missense_Mutation_p.E170D|ZNF347_uc002qbc.1_Missense_Mutation_p.E170D	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	169					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		TTTTATCATGTTCATCTCTTC	0.388													3	108					0	0	1	0	0		G	53645574	G	G	53645574	3	3	27	1	0	0	0	0	1	0	0	0	17886	1722	60	5	2016	5	ZNF347	19	53645574	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	32756	53645574	5483409	7684	30035											
ZNF665	79788	broad.mit.edu	37	chr19	53669504	53669504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaagcctacagtgtcacagCtttcaagtctctccaacttc	11	11	5	14	0	3	0	2	0	1	0	6	0	4	0	2	0	4	1	2	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53669504C>T	uc010eqm.1	-	4	339	c.239G>A	c.(238-240)AGC>AAC	p.S80N		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	15					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		AGTGTCACAGCTTTCAAGTCT	0.403													23	304					0	0	1	0	0		T	53669504	T	T	53669504	3	4	27	1	0	0	0	0	1	0	0	0	18098	797	28	2	1801	2	ZNF665	19	53669504	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23930	53669504	5459479	7685	30036											
ZNF845	91664	broad.mit.edu	37	chr19	53855495	53855495	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatactggagagaaacttTacaagtgtaatgaatgtggc	14	12	10	5	0	1	2	1	1	0	1	1	4	1	3	0	2	3	1	0	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53855495T>C	uc010ydv.1	+	4	1684	c.1567T>C	c.(1567-1569)TAC>CAC	p.Y523H	ZNF845_uc010ydw.1_Missense_Mutation_p.Y523H	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	523	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGAGAAACTTTACAAGTGTAA	0.383													7	52					0	0	1	0	0		C	53855495	C	C	53855495	3	2	27	1	0	0	0	0	1	0	0	0	18216	1754	61	3	1577	3	ZNF845	19	53855495	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	185991	53855495	5273488	7686	30037											
ZNF765	91661	broad.mit.edu	37	chr19	53911171	53911171	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatcaaaaagttgacaggTagtacagagcgatatgatca	19	8	9	5	1	2	3	2	2	0	1	2	4	2	3	0	1	2	3	0	1	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53911171T>C	uc010ydx.1	+	6	690	c.363T>C	c.(361-363)GGT>GGC	p.G121G	ZNF765_uc002qbm.2_Silent_p.G121G|ZNF765_uc002qbn.2_Intron	NM_001040185	NP_001035275	Q7L2R6	ZN765_HUMAN	zinc finger protein 765	121					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00379)		AGTTGACAGGTAGTACAGAGC	0.368													3	82					0	0	1	0	0		C	53911171	C	C	53911171	2	2	27	1	0	0	0	0	0	0	0	1	18164	1625	57	3		3	ZNF765	19	53911171	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	55676	53911171	5217812	7687	30038											
ZNF813	126017	broad.mit.edu	37	chr19	53994137	53994137	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagaaaagtctttccaatgTaatgagagtggcaaagcctt	15	10	10	6	0	1	2	0	1	1	2	2	4	2	2	2	1	1	2	2	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:53994137T>C	uc002qbu.2	+	4	779	c.651T>C	c.(649-651)TGT>TGC	p.C217C	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	217	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		CTTTCCAATGTAATGAGAGTG	0.348													3	106					0	0	1	0	0		C	53994137	C	C	53994137	2	2	27	1	0	0	0	0	0	0	0	1	18200	1644	57	3		3	ZNF813	19	53994137	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	82966	53994137	5134846	7688	30039											
DPRX	503834	broad.mit.edu	37	chr19	54139969	54139969	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtctccaccagtgtcggcctGagaaatgcagacacactacc	11	7	9	14	1	1	2	0	1	1	2	3	3	1	2	4	1	2	1	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:54139969G>A	uc002qcf.1	+	3	354	c.303G>A	c.(301-303)CTG>CTA	p.L101L		NM_001012728	NP_001012746	A6NFQ7	DPRX_HUMAN	divergent-paired related homeobox	101						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.013)		GTGTCGGCCTGAGAAATGCAG	0.527													8	97					0	0	1	0	0		A	54139969	A	A	54139969	2	1	27	1	0	0	0	0	0	0	0	1	4744	1277	45	4		4	DPRX	19	54139969	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	145832	54139969	4989014	7689	30040											
PRKCG	5582	broad.mit.edu	37	chr19	54401279	54401279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagtcccaccgaccccaagCgctgcttcttcggggcgagt	6	8	11	16	4	1	0	0	0	1	0	3	2	2	0	4	2	2	2	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:54401279C>T	uc002qcq.1	+	10	1288	c.1006C>T	c.(1006-1008)CGC>TGC	p.R336C	PRKCG_uc010yef.1_Silent_p.S306S|PRKCG_uc010yeg.1_Missense_Mutation_p.R336C|PRKCG_uc010yeh.1_Missense_Mutation_p.R223C	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	336					activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		CGACCCCAAGCGCTGCTTCTT	0.483													6	72					0	0	1	0	0		T	54401279	T	T	54401279	3	4	27	1	0	0	0	0	1	0	0	0	12534	768	27	1	1044	1	PRKCG	19	54401279	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	261310	54401279	4727704	7690	30041											
CACNG7	59284	broad.mit.edu	37	chr19	54444820	54444820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagcagtattttcattatcGctacgggtggtcttttgcct	6	17	10	8	2	2	1	1	1	1	0	3	1	2	1	1	2	3	3	1	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:54444820G>A	uc002qcr.1	+	4	536	c.521G>A	c.(520-522)CGC>CAC	p.R174H	CACNG7_uc010era.1_Missense_Mutation_p.R174H	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	174					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0711)		TTTCATTATCGCTACGGGTGG	0.527													28	116					0	0	1	0	0		A	54444820	A	A	54444820	3	1	27	1	0	0	0	0	1	0	0	0	2565	1087	38	1	535	1	CACNG7	19	54444820	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	43541	54444820	4684163	7691	30042											
PRPF31	26121	broad.mit.edu	37	chr19	54627208	54627208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgaacgcctccaagcaccGcatctacgagtatgtggagt	10	8	11	12	3	1	1	0	1	1	0	2	3	2	2	3	1	3	4	3	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:54627208G>A	uc002qdh.2	+	7	1004	c.608G>A	c.(607-609)CGC>CAC	p.R203H	PRPF31_uc010yek.1_Missense_Mutation_p.R203H	NM_015629	NP_056444	Q8WWY3	PRP31_HUMAN	pre-mRNA processing factor 31 homolog	203	Nop.|				assembly of spliceosomal tri-snRNP	Cajal body|MLL1 complex|nuclear speck|U4 snRNP|U4/U6 x U5 tri-snRNP complex|U4atac snRNP	RNA binding|snRNP binding			ovary(1)	1	all_cancers(19;0.00681)|all_epithelial(19;0.00362)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					TCCAAGCACCGCATCTACGAG	0.652													4	53					0	0	1	0	0		A	54627208	A	A	54627208	3	1	27	1	0	0	0	0	1	0	0	0	12588	1087	38	1	630	1	PRPF31	19	54627208	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	182388	54627208	4501775	7692	30043											
RPS9	6203	broad.mit.edu	37	chr19	54710226	54710226	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gattacatcctgggcctgaaGatagaggatttcttagagag	12	11	12	6	0	1	4	0	1	1	3	2	7	2	5	2	2	1	0	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:54710226G>A	uc002qdx.2	+	4	359	c.303G>A	c.(301-303)AAG>AAA	p.K101K	RPS9_uc002qdy.2_Intron|RPS9_uc002qdz.2_Silent_p.K101K|RPS9_uc002qea.2_Silent_p.K101K|RPS9_uc002qeb.2_Silent_p.K101K|RPS9_uc002qec.2_RNA|RPS9_uc002qed.1_Silent_p.K101K	NM_001013	NP_001004	P46781	RS9_HUMAN	ribosomal protein S9	101					endocrine pancreas development|positive regulation of cell proliferation|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding|rRNA binding|structural constituent of ribosome|translation regulator activity			breast(1)	1	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.18)		TGGGCCTGAAGATAGAGGATT	0.602													6	36					0	0	1	0	0		A	54710226	A	A	54710226	2	1	27	1	0	0	0	0	0	0	0	1	13687	933	33	4		4	RPS9	19	54710226	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	83018	54710226	4418757	7693	30044											
LILRB2	10288	broad.mit.edu	37	chr19	54780709	54780709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtcggaggatgaggaagaGgaggaggaggaggaggagca	14	3	22	2	1	0	2	0	1	0	1	1	11	0	11	0	9	1	1	0	9	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:54780709G>A	uc002qfb.2	-	10	1701	c.1435C>T	c.(1435-1437)CTC>TTC	p.L479F	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Missense_Mutation_p.L479F|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Missense_Mutation_p.L478F|LILRB2_uc010yet.1_Missense_Mutation_p.L363F	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	479	Helical; (Potential).				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		atgaggaagaggaggaggagg	0.488													6	105					0	0	1	0	0		A	54780709	A	A	54780709	3	1	27	1	0	0	0	0	1	0	0	0	8807	1000	35	4	381	4	LILRB2	19	54780709	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	70483	54780709	4348274	7694	30045											
LENG8	114823	broad.mit.edu	37	chr19	54966185	54966185	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaagcgaccctttgctgtTaccacccagagctttggctc	8	10	9	14	1	0	2	0	0	0	2	1	3	0	2	3	1	4	4	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:54966185T>C	uc002qfv.1	+	6	768	c.624T>C	c.(622-624)GTT>GTC	p.V208V	LENG8_uc002qfw.2_Silent_p.V245V			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	208							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		CCTTTGCTGTTACCACCCAGA	0.597													3	39					0	0	1	0	0		C	54966185	C	C	54966185	2	2	27	1	0	0	0	0	0	0	0	1	8740	1741	61	3		3	LENG8	19	54966185	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	185476	54966185	4162798	7695	30046											
LENG8	114823	broad.mit.edu	37	chr19	54969365	54969365	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggcaatgtgggcgagttTactgcctaccgaatcctcta	8	11	10	12	2	1	0	0	0	1	0	2	2	2	0	4	2	3	2	4	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:54969365T>C	uc002qfv.1	+	13	2019	c.1875T>C	c.(1873-1875)TTT>TTC	p.F625F	LENG8_uc002qfw.2_Silent_p.F662F			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	625							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		TGGGCGAGTTTACTGCCTACC	0.577													8	59					0	0	1	0	0		C	54969365	C	C	54969365	2	2	27	1	0	0	0	0	0	0	0	1	8740	1751	61	3		3	LENG8	19	54969365	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3180	54969365	4159618	7696	30047											
LENG8	114823	broad.mit.edu	37	chr19	54969555	54969555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatccttgcgtggcccacGccttggcattaaggacagcc	8	8	11	14	2	0	1	0	0	0	1	1	2	1	2	4	3	2	1	4	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:54969555G>A	uc002qfv.1	+	14	2128	c.1984G>A	c.(1984-1986)GCC>ACC	p.A662T	LENG8_uc002qfw.2_Missense_Mutation_p.A699T			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	662							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		CGTGGCCCACGCCTTGGCATT	0.577													11	76					0	0	1	0	0		A	54969555	A	A	54969555	3	1	27	1	0	0	0	0	1	0	0	0	8740	1087	38	1	2149	1	LENG8	19	54969555	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	190	54969555	4159428	7697	30048											
LILRA1	11024	broad.mit.edu	37	chr19	55106363	55106363	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtatcgctgtttctacggtAgccacactgcaggctggtca	7	11	12	11	2	2	0	1	0	1	0	3	0	2	0	1	4	3	6	1	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:55106363A>G	uc002qgh.1	+	4	486	c.304A>G	c.(304-306)AGC>GGC	p.S102G	LILRA2_uc010yfg.1_Intron|LILRA1_uc010yfh.1_Missense_Mutation_p.S102G	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	102	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		TTTCTACGGTAGCCACACTGC	0.607													8	90					0	0	1	0	0		G	55106363	G	G	55106363	3	3	27	1	0	0	0	0	1	0	0	0	8800	420	15	3	314	3	LILRA1	19	55106363	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	136808	55106363	4022620	7698	30049											
LILRA1	11024	broad.mit.edu	37	chr19	55107772	55107772	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacactttccttctgaccaaGgcgggagcagctgatgcccc	8	8	10	15	1	1	2	0	2	1	0	2	3	2	3	4	2	3	2	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:55107772G>A	uc002qgh.1	+	7	1259	c.1077G>A	c.(1075-1077)AAG>AAA	p.K359K	LILRA2_uc010yfg.1_Silent_p.K357K|LILRA1_uc010yfh.1_Silent_p.K359K	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	359	Ig-like C2-type 4.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		TTCTGACCAAGGCGGGAGCAG	0.587													7	94					0	0	1	0	0		A	55107772	A	A	55107772	2	1	27	1	0	0	0	0	0	0	0	1	8800	991	35	4		4	LILRA1	19	55107772	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1409	55107772	4021211	7699	30050											
KIR2DL1	3802	broad.mit.edu	37	chr19	55282338	55282338	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcctggccacatgagggTgagtccttctcccaaccttc	6	9	12	14	0	1	2	0	2	1	0	4	2	2	2	5	4	1	0	5	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:55282338T>C	uc002qhb.1	+	2	108	c.70_splice	c.e2+2	p.G24_splice	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_Intron|KIR3DP1_uc010yfi.1_Intron|KIR2DL1_uc010erz.1_Splice_Site_p.G24_splice	NM_014218	NP_055033	P43626	KI2L1_HUMAN	killer cell immunoglobulin-like receptor, two						immune response|natural killer cell inhibitory signaling pathway	integral to plasma membrane	protein binding|receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		CACATGAGGGTGAGTCCTTCT	0.542													68	228					0	0	1	0	0		C	55282338	C	C	55282338	5	2	27	1	0	0	0	0	0	0	1	0	8332	1710	59	3	78	3	KIR2DL1	19	55282338	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	174566	55282338	3846645	7700	30051											
NLRP7	199713	broad.mit.edu	37	chr19	55445028	55445028	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggttcttggccaagcacaGgtgtgtcagcttcttgctga	6	12	14	9	0	3	1	1	1	2	0	3	1	3	1	1	4	3	4	1	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:55445028G>T	uc002qih.3	-	8	2627	c.2551C>A	c.(2551-2553)CTG>ATG	p.L851M	NLRP7_uc002qig.3_Missense_Mutation_p.L823M|NLRP7_uc002qii.3_Missense_Mutation_p.L851M|NLRP7_uc010esk.2_Missense_Mutation_p.L851M|NLRP7_uc010esl.2_Missense_Mutation_p.L879M	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	851	LRR 6.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		GCCAAGCACAGGTGTGTCAGC	0.478													10	61					0.00829132	0.0085371	1	1	0		T	55445028	T	T	55445028	3	4	27	1	0	0	0	0	1	0	0	0	10501	991	35	5	578	5	NLRP7	19	55445028	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	162690	55445028	3683955	7701	30052											
GP6	51206	broad.mit.edu	37	chr19	55539169	55539169	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgacactgtagggttacGtcccctcctgacgacaccgc	7	9	10	15	3	1	2	0	2	1	0	3	3	3	2	4	1	1	2	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:55539169G>A	uc002qik.2	-	4	415	c.387C>T	c.(385-387)GAC>GAT	p.D129D	GP6_uc002qil.2_Silent_p.D129D|GP6_uc010esq.2_Silent_p.D129D|RDH13_uc010esr.1_RNA	NM_016363	NP_057447	Q9HCN6	GPVI_HUMAN	glycoprotein VI (platelet) isoform 2	129	Ig-like C2-type 2.|Extracellular (Potential).				enzyme linked receptor protein signaling pathway|leukocyte migration|platelet activation	integral to plasma membrane	collagen binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.156)	GBM - Glioblastoma multiforme(193;0.0515)		GTAGGGTTACGTCCCCTCCTG	0.567													18	201					0	0	1	0	0		A	55539169	A	A	55539169	2	1	27	1	0	0	0	0	0	0	0	1	6599	1136	40	1		1	GP6	19	55539169	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	94141	55539169	3589814	7702	30053											
EPS8L1	54869	broad.mit.edu	37	chr19	55597335	55597335	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcggtcaagcagcgggacgtActggaggttagaggagcggg	9	6	19	7	4	1	1	1	0	0	1	2	4	1	4	0	6	4	3	0	6	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:55597335A>G	uc002qis.3	+	15	1616	c.1512A>G	c.(1510-1512)GTA>GTG	p.V504V	EPS8L1_uc010ess.1_Silent_p.V518V|EPS8L1_uc010yfr.1_Silent_p.V440V|EPS8L1_uc010esu.1_RNA|EPS8L1_uc002qiu.2_Silent_p.V377V|EPS8L1_uc002qiv.2_Silent_p.V182V|EPS8L1_uc002qiw.2_Silent_p.V283V	NM_133180	NP_573441	Q8TE68	ES8L1_HUMAN	epidermal growth factor receptor pathway	504	SH3.					cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		AGCGGGACGTACTGGAGGTTA	0.577													4	47					0	0	1	0	0		G	55597335	G	G	55597335	2	3	27	1	0	0	0	0	0	0	0	1	5203	378	14	3		3	EPS8L1	19	55597335	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	58166	55597335	3531648	7703	30054											
TNNT1	7138	broad.mit.edu	37	chr19	55644293	55644293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcggcatcctcacttccagCggcctccaacgcggcccttc	5	7	10	19	4	1	0	1	0	0	0	5	0	4	0	5	4	2	1	5	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:55644293C>T	uc002qjb.3	-	14	916	c.827G>A	c.(826-828)CGC>CAC	p.R276H	TNNT1_uc002qiz.3_Missense_Mutation_p.R190H|TNNT1_uc002qja.3_Missense_Mutation_p.R190H|TNNT1_uc002qjc.3_Missense_Mutation_p.R260H|TNNT1_uc002qje.3_Missense_Mutation_p.R249H|TNNT1_uc002qjd.3_Missense_Mutation_p.R249H	NM_003283	NP_003274	P13805	TNNT1_HUMAN	troponin T1, skeletal, slow isoform a	276					muscle filament sliding|negative regulation of muscle contraction	cytosol|troponin complex	tropomyosin binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.047)		TCACTTCCAGCGGCCTCCAAC	0.612													5	10					0	0	1	0	0		T	55644293	T	T	55644293	3	4	27	1	0	0	0	0	1	0	0	0	16355	768	27	1	13	1	TNNT1	19	55644293	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	46958	55644293	3484690	7704	30055											
ZNF579	163033	broad.mit.edu	37	chr19	56089958	56089958	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctccgccccctcgcccccctCcggccccttggctgagttcc	1	8	8	24	3	0	1	0	1	0	0	4	1	3	1	10	2	0	2	10	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56089958C>T	uc002qlh.2	-	2	1101	c.1048G>A	c.(1048-1050)GAG>AAG	p.E350K		NM_152600	NP_689813	Q8NAF0	ZN579_HUMAN	zinc finger protein 579	350	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.106)		TCGCCCCCCTCCGGCCCCTTG	0.622													5	9					0	0	1	0	0		T	56089958	T	T	56089958	3	4	27	1	0	0	0	0	1	0	0	0	18036	864	30	4	644	4	ZNF579	19	56089958	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	445665	56089958	3039025	7705	30056											
EPN1	29924	broad.mit.edu	37	chr19	56203213	56203213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacccatggctgctgccGtccccacggctgcccccacc	5	5	9	22	2	0	0	0	0	0	0	1	0	1	0	7	2	4	4	7	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56203213G>A	uc002qlw.2	+	7	1198	c.856G>A	c.(856-858)GTC>ATC	p.V286I	EPN1_uc002qlv.2_Missense_Mutation_p.V261I|EPN1_uc010etd.2_Missense_Mutation_p.V286I|EPN1_uc002qlx.2_Missense_Mutation_p.V372I	NM_001130072	NP_001123544	Q9Y6I3	EPN1_HUMAN	epsin 1 isoform b	286	Ala/Gly/Pro-rich.|8 X 3 AA repeats of [ED]-P-W.				endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|cytoplasm|nucleus|plasma membrane	lipid binding				0		Colorectal(82;0.00244)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.112)		GGCTGCTGCCGTCCCCACGGC	0.736													6	58					0	0	1	0	0		A	56203213	A	A	56203213	3	1	27	1	0	0	0	0	1	0	0	0	5193	1145	40	1	1219	1	EPN1	19	56203213	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	113255	56203213	2925770	7706	30057											
NLRP9	338321	broad.mit.edu	37	chr19	56220340	56220340	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggtccatgtgaaatggtcaGatggggaattttttcttcca	10	14	11	6	0	2	2	1	1	1	1	4	3	4	3	2	4	0	0	2	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56220340G>A	uc002qly.2	-	9	2942	c.2914C>T	c.(2914-2916)CTG>TTG	p.L972L		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	972						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		GAAATGGTCAGATGGGGAATT	0.423													4	80					0	0	1	0	0		A	56220340	A	A	56220340	2	1	27	1	0	0	0	0	0	0	0	1	10503	933	33	4		4	NLRP9	19	56220340	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17127	56220340	2908643	7707	30058											
NLRP9	338321	broad.mit.edu	37	chr19	56243849	56243849	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatggcggcacaaaactCttggatacacagatgcatga	16	7	9	9	1	1	2	0	1	1	1	1	3	1	3	0	3	4	2	0	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56243849C>A	uc002qly.2	-	2	1376	c.1348G>T	c.(1348-1350)GAG>TAG	p.E450*		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	450	NACHT.					cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		GCACAAAACTCTTGGATACAC	0.493													11	174					4.93089e-13	5.49462e-13	1	1	0		A	56243849	A	A	56243849	4	1	27	1	0	0	0	0	0	1	0	0	10503	922	32	5	1659	5	NLRP9	19	56243849	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23509	56243849	2885134	7708	30059											
NLRP4	147945	broad.mit.edu	37	chr19	56369592	56369592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcctccctgctcatcgCtatcaaacccgtgtgcccga	7	8	10	16	3	2	0	2	0	0	0	4	2	3	1	4	2	3	2	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56369592C>T	uc002qmd.3	+	3	1255	c.833C>T	c.(832-834)GCT>GTT	p.A278V	NLRP4_uc002qmf.2_Missense_Mutation_p.A203V|NLRP4_uc010etf.2_Missense_Mutation_p.A109V	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	278	NACHT.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		CTGCTCATCGCTATCAAACCC	0.552													20	81					0	0	1	0	0		T	56369592	T	T	56369592	3	4	27	1	0	0	0	0	1	0	0	0	10498	797	28	2	839	2	NLRP4	19	56369592	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	125743	56369592	2759391	7709	30060											
NLRP4	147945	broad.mit.edu	37	chr19	56369735	56369735	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagccatggaagccttcAatcttgtaagagaaagtgaa	17	8	10	6	0	2	3	1	1	1	2	2	5	2	4	2	1	2	1	2	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56369735A>G	uc002qmd.3	+	3	1398	c.976A>G	c.(976-978)AAT>GAT	p.N326D	NLRP4_uc002qmf.2_Missense_Mutation_p.N251D|NLRP4_uc010etf.2_Missense_Mutation_p.N157D	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	326	NACHT.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		GGAAGCCTTCAATCTTGTAAG	0.458													11	91					0	0	1	0	0		G	56369735	G	G	56369735	3	3	27	1	0	0	0	0	1	0	0	0	10498	130	5	3	982	3	NLRP4	19	56369735	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	143	56369735	2759248	7710	30061											
NLRP4	147945	broad.mit.edu	37	chr19	56370579	56370579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaactctgtttttccgttcAaaatgtctttaagaaagagg	13	14	8	6	1	3	2	1	0	2	2	4	3	4	2	1	1	1	2	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56370579A>G	uc002qmd.3	+	3	2242	c.1820A>G	c.(1819-1821)CAA>CGA	p.Q607R	NLRP4_uc002qmf.2_Missense_Mutation_p.Q532R|NLRP4_uc010etf.2_Missense_Mutation_p.Q438R	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	607							ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		TTTTCCGTTCAAAATGTCTTT	0.403													23	78					0	0	1	0	0		G	56370579	G	G	56370579	3	3	27	1	0	0	0	0	1	0	0	0	10498	130	5	3	1826	3	NLRP4	19	56370579	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	844	56370579	2758404	7711	30062											
NLRP13	126204	broad.mit.edu	37	chr19	56423337	56423337	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcttctccccactttaataAttcctccattaccctgggag	8	14	4	15	0	2	0	0	0	2	0	5	1	4	1	5	1	1	0	5	1	3	6	rs143168899		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56423337A>C	uc010ygg.1	-	5	1871	c.1846T>G	c.(1846-1848)TTA>GTA	p.L616V		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	616							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		CACTTTAATAATTCCTCCATT	0.403													4	65					0	0	1	0	0		C	56423337	C	C	56423337	3	2	27	1	0	0	0	0	1	0	0	0	10494	98	4	5	1311	5	NLRP13	19	56423337	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	52758	56423337	2705646	7712	30063											
NLRP13	126204	broad.mit.edu	37	chr19	56424639	56424639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagttcagccttcatgttctCtctgtattttcttctgtggt	4	21	7	9	0	6	0	2	0	4	0	7	0	6	0	1	1	1	3	1	1	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56424639C>T	uc010ygg.1	-	5	569	c.544G>A	c.(544-546)GAG>AAG	p.E182K		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	182							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		TTCATGTTCTCTCTGTATTTT	0.423													10	195					0	0	1	0	0		T	56424639	T	T	56424639	3	4	27	1	0	0	0	0	1	0	0	0	10494	922	32	4	2613	4	NLRP13	19	56424639	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1302	56424639	2704344	7713	30064											
NLRP13	126204	broad.mit.edu	37	chr19	56424657	56424657	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctctgtattttcttctgtGgtctagagagggcggagtgg	5	15	14	7	1	4	1	0	0	4	1	5	3	4	2	0	4	0	1	0	4	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56424657G>T	uc010ygg.1	-	5	551	c.526C>A	c.(526-528)CAC>AAC	p.H176N		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	176							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		TTTCTTCTGTGGTCTAGAGAG	0.408													9	184					0.00621372	0.00640274	1	1	0		T	56424657	T	T	56424657	3	4	27	1	0	0	0	0	1	0	0	0	10494	1348	47	5	2631	5	NLRP13	19	56424657	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	18	56424657	2704326	7714	30065											
NLRP13	126204	broad.mit.edu	37	chr19	56443673	56443673	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaggtgattacagaaaagTtcatcttgcccaacacatgc	13	9	9	10	0	2	2	1	1	1	1	2	2	2	2	1	2	4	2	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56443673T>C	uc010ygg.1	-	1	30	c.5A>G	c.(4-6)AAC>AGC	p.N2S		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	2	DAPIN.						ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		TACAGAAAAGTTCATCTTGCC	0.478													4	63					0	0	1	0	0		C	56443673	C	C	56443673	3	2	27	1	0	0	0	0	1	0	0	0	10494	1725	60	3	3168	3	NLRP13	19	56443673	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	19016	56443673	2685310	7715	30066											
NLRP8	126205	broad.mit.edu	37	chr19	56467067	56467067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatagcgagtcccagaggaaGcaaaagctatctctctcaca	14	7	9	11	1	2	1	1	0	2	1	5	4	3	2	1	1	3	2	1	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56467067G>A	uc002qmh.2	+	3	1714	c.1643G>A	c.(1642-1644)AGC>AAC	p.S548N	NLRP8_uc010etg.2_Missense_Mutation_p.S548N	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	548						cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		CCCAGAGGAAGCAAAAGCTAT	0.473													4	96					0	0	1	0	0		A	56467067	A	A	56467067	3	1	27	1	0	0	0	0	1	0	0	0	10502	971	34	2	1653	2	NLRP8	19	56467067	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	23394	56467067	2661916	7716	30067											
NLRP5	126206	broad.mit.edu	37	chr19	56515301	56515301	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcagaatcgaccacatgCtctattccacagtttgaaat	12	13	5	11	1	3	2	1	1	2	1	5	3	4	2	2	0	1	2	2	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56515301C>T	uc002qmj.2	+	2	282	c.282C>T	c.(280-282)TGC>TGT	p.C94C	NLRP5_uc002qmi.2_Silent_p.C94C	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	94	DAPIN.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		CGACCACATGCTCTATTCCAC	0.453													5	66					0	0	1	0	0		T	56515301	T	T	56515301	2	4	27	1	0	0	0	0	0	0	0	1	10499	805	28	2		2	NLRP5	19	56515301	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	48234	56515301	2613682	7717	30068											
NLRP5	126206	broad.mit.edu	37	chr19	56539246	56539246	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcagtgtttgacggtgaCgacctcatggttcaaggact	10	11	12	8	2	3	2	3	2	0	0	3	4	3	3	1	3	0	2	1	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56539246C>T	uc002qmj.2	+	7	1647	c.1647C>T	c.(1645-1647)GAC>GAT	p.D549D	NLRP5_uc002qmi.2_Silent_p.D530D	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	549	NACHT.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		TTGACGGTGACGACCTCATGG	0.537													9	26					0	0	1	0	0		T	56539246	T	T	56539246	2	4	27	1	0	0	0	0	0	0	0	1	10499	535	19	1		1	NLRP5	19	56539246	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23945	56539246	2589737	7718	30069											
NLRP5	126206	broad.mit.edu	37	chr19	56565026	56565026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtaaagtgtcatctcaccGccgcgtgctgtgagagtctg	7	11	13	10	3	3	1	2	1	2	1	4	2	3	1	2	1	1	2	2	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56565026G>A	uc002qmj.2	+	13	3151	c.3151G>A	c.(3151-3153)GCC>ACC	p.A1051T	NLRP5_uc002qmi.2_Missense_Mutation_p.A1032T	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	1051	LRR 11.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		TCATCTCACCGCCGCGTGCTG	0.567													4	39					0	0	1	0	0		A	56565026	A	A	56565026	3	1	27	1	0	0	0	0	1	0	0	0	10499	1087	38	1	3201	1	NLRP5	19	56565026	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	25780	56565026	2563957	7719	30070											
ZSCAN5B	342933	broad.mit.edu	37	chr19	56701494	56701494	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgctggtgaactcggaggTctgagggctgcaagaagcgc	8	7	16	10	3	1	3	0	2	1	1	3	4	1	4	0	4	3	3	0	4	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56701494T>G	uc010ygh.1	-	4	1190	c.1190A>C	c.(1189-1191)GAC>GCC	p.D397A		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	397	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						AACTCGGAGGTCTGAGGGCTG	0.547													5	57					0	0	1	0	0		G	56701494	G	G	56701494	3	3	27	1	0	0	0	0	1	0	0	0	18264	1667	58	5	301	5	ZSCAN5B	19	56701494	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	136468	56701494	2427489	7720	30071											
ZSCAN5B	342933	broad.mit.edu	37	chr19	56702324	56702324	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtttgggtcacctgttacGtcaatactcttgtgtagcag	8	14	11	8	1	3	0	2	0	1	0	3	1	3	0	1	1	3	4	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56702324G>A	uc010ygh.1	-	3	621	c.621C>T	c.(619-621)GAC>GAT	p.D207D		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	207					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CACCTGTTACGTCAATACTCT	0.507													33	104					0	0	1	0	0		A	56702324	A	A	56702324	2	1	27	1	0	0	0	0	0	0	0	1	18264	1136	40	1		1	ZSCAN5B	19	56702324	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	830	56702324	2426659	7721	30072											
ZNF667	63934	broad.mit.edu	37	chr19	56952773	56952773	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actaaaggccttaccacatgTtttgcatgtatatggcttct	10	15	7	9	0	1	0	0	0	1	0	1	0	1	0	2	2	2	4	2	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:56952773T>C	uc002qnd.2	-	5	1753	c.1591A>G	c.(1591-1593)ACA>GCA	p.T531A	ZNF667_uc010etl.2_Missense_Mutation_p.T313A|ZNF667_uc002qne.2_Missense_Mutation_p.T531A|ZNF667_uc010etm.2_Missense_Mutation_p.T474A	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	531	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		TTACCACATGTTTTGCATGTA	0.443													6	59					0	0	1	0	0		C	56952773	C	C	56952773	3	2	27	1	0	0	0	0	1	0	0	0	18099	1725	60	3	245	3	ZNF667	19	56952773	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	250449	56952773	2176210	7722	30073											
ZNF471	57573	broad.mit.edu	37	chr19	57036632	57036632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcataggagaattcatacagGagagaaaccttacaaatgtg	17	8	10	6	0	1	2	1	0	0	2	1	5	1	3	1	2	3	1	1	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57036632G>A	uc002qnh.2	+	5	1329	c.1196G>A	c.(1195-1197)GGA>GAA	p.G399E		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	399					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		ATTCATACAGGAGAGAAACCT	0.408													5	75					0	0	1	0	0		A	57036632	A	A	57036632	3	1	27	1	0	0	0	0	1	0	0	0	17955	1174	41	4	1210	4	ZNF471	19	57036632	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	83859	57036632	2092351	7723	30074											
ZNF470	388566	broad.mit.edu	37	chr19	57089759	57089759	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttatgagtgtaaggaatgTagcaaagccttcagccaggt	12	10	11	8	0	1	1	1	1	0	0	1	2	1	2	3	2	3	3	3	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57089759T>C	uc002qnl.3	+	6	2638	c.1962T>C	c.(1960-1962)TGT>TGC	p.C654C	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	654	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		GTAAGGAATGTAGCAAAGCCT	0.418													5	48					0	0	1	0	0		C	57089759	C	C	57089759	2	2	27	1	0	0	0	0	0	0	0	1	17954	1644	57	3		3	ZNF470	19	57089759	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53127	57089759	2039224	7724	30075											
ZNF71	58491	broad.mit.edu	37	chr19	57133693	57133693	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctcatccagcaccagcgCttccacatcggcgtgaagcc	9	7	8	17	3	1	1	1	1	0	0	4	1	3	1	5	1	4	2	5	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57133693C>T	uc002qnm.3	+	3	1276	c.1038C>T	c.(1036-1038)CGC>CGT	p.R346R		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	346	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		AGCACCAGCGCTTCCACATCG	0.642													4	65					0	0	1	0	0		T	57133693	T	T	57133693	2	4	27	1	0	0	0	0	0	0	0	1	18139	784	28	2		2	ZNF71	19	57133693	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	43934	57133693	1995290	7725	30076											
ZNF835	90485	broad.mit.edu	37	chr19	57175250	57175250	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagggccgctcgcccgtgtgCgtgcgctggtgcagggcgag	3	7	19	12	6	0	0	0	0	0	0	1	1	0	0	2	3	3	3	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57175250C>T	uc010ygo.1	-	2	1383	c.1383G>A	c.(1381-1383)ACG>ACA	p.T461T	ZNF835_uc010ygn.1_Silent_p.T439T	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						CGCCCGTGTGCGTGCGCTGGT	0.662													10	54					0	0	1	0	0		T	57175250	T	T	57175250	2	4	27	1	0	0	0	0	0	0	0	1	18211	755	27	1		1	ZNF835	19	57175250	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	41557	57175250	1953733	7726	30077											
PEG3	5178	broad.mit.edu	37	chr19	57327048	57327048	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagctgggaacagagaatTcgccatccttcttaaactca	12	11	8	10	1	2	2	1	1	1	1	4	4	3	3	2	1	3	1	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57327048T>G	uc002qnu.2	-	7	3113	c.2762A>C	c.(2761-2763)GAA>GCA	p.E921A	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.E892A|PEG3_uc002qnv.2_Missense_Mutation_p.E921A|PEG3_uc002qnw.2_Missense_Mutation_p.E797A|PEG3_uc002qnx.2_Missense_Mutation_p.E795A|PEG3_uc010etr.2_Missense_Mutation_p.E921A	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	921					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		AACAGAGAATTCGCCATCCTT	0.438													15	160					0	0	1	0	0		G	57327048	G	G	57327048	3	3	27	1	0	0	0	0	1	0	0	0	11739	1783	62	5	2008	5	PEG3	19	57327048	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	151798	57327048	1801935	7727	30078											
PEG3	5178	broad.mit.edu	37	chr19	57328459	57328459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acactcatcacatacatatgGcattgccccaaaatcaattg	15	10	4	12	0	3	0	3	0	0	0	3	0	3	0	2	1	2	1	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57328459G>A	uc002qnu.2	-	7	1702	c.1351C>T	c.(1351-1353)CCA>TCA	p.P451S	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.P422S|PEG3_uc002qnv.2_Missense_Mutation_p.P451S|PEG3_uc002qnw.2_Missense_Mutation_p.P327S|PEG3_uc002qnx.2_Missense_Mutation_p.P325S|PEG3_uc010etr.2_Missense_Mutation_p.P451S	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	451					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CATACATATGGCATTGCCCCA	0.483													12	141					0	0	1	0	0		A	57328459	A	A	57328459	3	1	27	1	0	0	0	0	1	0	0	0	11739	1203	42	2	3419	2	PEG3	19	57328459	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1411	57328459	1800524	7728	30079											
USP29	57663	broad.mit.edu	37	chr19	57641113	57641113	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgggaatgttaaaaaagTcatttcagcagttgcagaaa	16	11	9	5	0	2	1	2	0	0	1	2	2	2	2	0	1	2	4	0	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57641113T>C	uc002qny.2	+	4	1426	c.1070T>C	c.(1069-1071)GTC>GCC	p.V357A		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	357					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GTTAAAAAAGTCATTTCAGCA	0.378													8	101					0	0	1	0	0		C	57641113	C	C	57641113	3	2	27	1	0	0	0	0	1	0	0	0	17085	1667	58	3	1072	3	USP29	19	57641113	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	312654	57641113	1487870	7729	30080											
ZIM3	114026	broad.mit.edu	37	chr19	57647393	57647393	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtttccttattgattgatggGacttctcttgcgagactctc	6	17	9	9	1	2	3	0	2	2	1	5	5	3	4	1	1	1	1	1	1	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57647393G>A	uc002qnz.1	-	5	698	c.312C>T	c.(310-312)GTC>GTT	p.V104V		NM_052882	NP_443114	Q96PE6	ZIM3_HUMAN	zinc finger, imprinted 3	104					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.243)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGATTGATGGGACTTCTCTTG	0.413													14	175					0	0	1	0	0		A	57647393	A	A	57647393	2	1	27	1	0	0	0	0	0	0	0	1	17710	1161	41	4		4	ZIM3	19	57647393	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6280	57647393	1481590	7730	30081											
ZNF264	9422	broad.mit.edu	37	chr19	57724326	57724326	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcaaccataccaaagagaaAccccacaagtgtcttcactg	16	7	5	13	0	3	1	2	0	1	1	3	2	3	1	4	0	3	0	4	0	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57724326A>G	uc002qob.2	+	4	2274	c.1861A>G	c.(1861-1863)ACC>GCC	p.T621A		NM_003417	NP_003408	O43296	ZN264_HUMAN	zinc finger protein 264	621					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0135)		CCAAAGAGAAACCCCACAAGT	0.388													8	69					0	0	1	0	0		G	57724326	G	G	57724326	3	3	27	1	0	0	0	0	1	0	0	0	17829	43	2	3	1875	3	ZNF264	19	57724326	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	76933	57724326	1404657	7731	30082											
ZNF543	125919	broad.mit.edu	37	chr19	57839292	57839292	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaaatgagttctgaacgTgatggtttggggtcagatga	12	11	15	3	1	2	6	1	4	1	2	2	7	2	6	0	3	1	2	0	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57839292T>C	uc002qoi.1	+	4	807	c.462T>C	c.(460-462)CGT>CGC	p.R154R		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	154					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GTTCTGAACGTGATGGTTTGG	0.453													12	93					0	0	1	0	0		C	57839292	C	C	57839292	2	2	27	1	0	0	0	0	0	0	0	1	18001	1683	59	3		3	ZNF543	19	57839292	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	114966	57839292	1289691	7732	30083											
ZNF547	284306	broad.mit.edu	37	chr19	57883175	57883175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtggtttttgaagacgtggCcatatatttctcccaggagg	8	14	12	7	1	1	2	0	1	1	1	2	3	1	3	2	4	0	1	2	4	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57883175C>T	uc002qol.2	+	3	243	c.50C>T	c.(49-51)GCC>GTC	p.A17V	ZNF547_uc010ygx.1_Missense_Mutation_p.A17V	NM_173631	NP_775902	Q8IVP9	ZN547_HUMAN	zinc finger protein 547	17	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GAAGACGTGGCCATATATTTC	0.428													8	256					0	0	1	0	0		T	57883175	T	T	57883175	3	4	27	1	0	0	0	0	1	0	0	0	18004	739	26	2	56	2	ZNF547	19	57883175	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	43883	57883175	1245808	7733	30084											
VN1R1	57191	broad.mit.edu	37	chr19	57967256	57967256	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccataattgttttttgcaCtactgtttttgctattcagt	8	21	5	7	0	1	0	1	0	0	0	2	0	2	0	1	0	3	4	1	0	3	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57967256C>A	uc002qos.1	-	1	599	c.599G>T	c.(598-600)AGT>ATT	p.S200I	ZNF547_uc002qpm.3_Intron	NM_020633	NP_065684	Q9GZP7	VN1R1_HUMAN	vomeronasal 1 receptor 1	200	Extracellular (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)|Breast(46;0.222)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)|Lung(386;0.171)		GTTTTTTGCACTACTGTTTTT	0.383													14	53					1.49906e-05	1.60671e-05	1	1	0		A	57967256	A	A	57967256	3	1	27	1	0	0	0	0	1	0	0	0	17204	565	20	5	466	5	VN1R1	19	57967256	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	84081	57967256	1161727	7734	30085											
ZNF772	400720	broad.mit.edu	37	chr19	57984675	57984675	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagtgtgaattttccagtgGcggatgagggaagccctctg	8	10	14	9	1	1	2	0	2	1	0	2	4	2	4	3	3	1	0	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:57984675G>A	uc002qot.2	-	5	1698	c.1437C>T	c.(1435-1437)CGC>CGT	p.R479R	ZNF547_uc002qpm.3_Intron|ZNF772_uc010ygy.1_Silent_p.R438R|ZNF772_uc010ygz.1_Silent_p.R367R|ZNF772_uc010yha.1_Silent_p.R425R|ZNF772_uc002qou.2_Silent_p.R367R	NM_001024596	NP_001019767	Q68DY9	ZN772_HUMAN	zinc finger protein 772 isoform 1	479	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)|Lung(386;0.174)		TTTTCCAGTGGCGGATGAGGG	0.453													4	41					0	0	1	0	0		A	57984675	A	A	57984675	2	1	27	1	0	0	0	0	0	0	0	1	18170	1190	42	2		2	ZNF772	19	57984675	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17419	57984675	1144308	7735	30086											
ZNF549	256051	broad.mit.edu	37	chr19	58049755	58049755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccgctcgtctgactacatGcgacaccagagaattcacac	12	8	7	14	3	2	2	1	1	1	1	4	4	3	2	2	0	2	1	2	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58049755G>A	uc002qpb.1	+	4	1632	c.1383G>A	c.(1381-1383)ATG>ATA	p.M461I	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF549_uc002qpa.1_Missense_Mutation_p.M448I	NM_153263	NP_694995	Q6P9A3	ZN549_HUMAN	zinc finger protein 549	461	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CTGACTACATGCGACACCAGA	0.418													9	41					0	0	1	0	0		A	58049755	A	A	58049755	3	1	27	1	0	0	0	0	1	0	0	0	18006	1319	46	2	1354	2	ZNF549	19	58049755	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	65080	58049755	1079228	7736	30087											
ZNF551	90233	broad.mit.edu	37	chr19	58196633	58196633	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattcctgctgtgacagggtAtgacctttgaggatgtggcc	7	13	13	8	0	0	3	0	3	0	0	1	4	1	4	3	3	1	2	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58196633A>G	uc002qpw.3	+	2	260	c.37A>G	c.(37-39)ATG>GTG	p.M13V	ZNF551_uc002qpv.3_Intron|ZNF776_uc002qpx.2_Intron	NM_138347	NP_612356	Q7Z340	ZN551_HUMAN	zinc finger protein 551	29	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GTGACAGGGTATGACCTTTGA	0.507													25	100					0	0	1	0	0		G	58196633	G	G	58196633	3	3	27	1	0	0	0	0	1	0	0	0	18008	449	16	3	43	3	ZNF551	19	58196633	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	146878	58196633	932350	7737	30088											
ZNF776	284309	broad.mit.edu	37	chr19	58264668	58264668	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcttttaggttgttggtAtggagcaaaagacgagacac	12	13	11	5	1	1	2	0	0	1	2	1	4	1	3	0	3	1	4	0	3	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58264668A>C	uc002qpx.2	+	3	393	c.170A>C	c.(169-171)TAT>TCT	p.Y57S	ZNF587_uc002qqb.2_Intron|ZNF776_uc002qqa.2_Missense_Mutation_p.Y57S	NM_173632	NP_775903	Q68DI1	ZN776_HUMAN	zinc finger protein 776	57	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0256)		GGTTGTTGGTATGGAGCAAAA	0.433													15	149					0	0	1	0	0		C	58264668	C	C	58264668	3	2	27	1	0	0	0	0	1	0	0	0	18174	449	16	5	180	5	ZNF776	19	58264668	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	68035	58264668	864315	7738	30089											
ZNF586	54807	broad.mit.edu	37	chr19	58290443	58290443	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatcatttcaccaaagctCttcactcttgcagcgtcaga	13	11	5	12	1	6	1	4	0	2	1	6	1	6	1	1	0	3	2	1	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58290443C>A	uc002qqd.2	+	3	674	c.488C>A	c.(487-489)TCT>TAT	p.S163Y	ZNF587_uc002qqb.2_Intron|ZNF586_uc002qqe.2_Missense_Mutation_p.L121I|ZNF586_uc010euh.2_Missense_Mutation_p.S120Y|ZNF586_uc002qqf.1_Intron	NM_017652	NP_060122	Q9NXT0	ZN586_HUMAN	zinc finger protein 586	163	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CACCAAAGCTCTTCACTCTTG	0.418													5	89					1.024e-07	1.12055e-07	1	1	0		A	58290443	A	A	58290443	3	1	27	1	0	0	0	0	1	0	0	0	18044	913	32	5	498	5	ZNF586	19	58290443	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25775	58290443	838540	7739	30090											
ZNF586	54807	broad.mit.edu	37	chr19	58291120	58291120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgccacagttcttcgttcCgtcgccatcagagagttcat	7	13	8	13	4	3	1	2	0	1	1	7	2	4	1	3	0	0	3	3	0	0	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58291120C>T	uc002qqd.2	+	3	1351	c.1165C>T	c.(1165-1167)CGT>TGT	p.R389C	ZNF587_uc002qqb.2_Intron|ZNF586_uc002qqe.2_3'UTR|ZNF586_uc010euh.2_Missense_Mutation_p.R346C|ZNF586_uc002qqf.1_Intron	NM_017652	NP_060122	Q9NXT0	ZN586_HUMAN	zinc finger protein 586	389	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TTCTTCGTTCCGTCGCCATCA	0.428													4	87					0	0	1	0	0		T	58291120	T	T	58291120	3	4	27	1	0	0	0	0	1	0	0	0	18044	652	23	1	1175	1	ZNF586	19	58291120	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	677	58291120	837863	7740	30091											
ZNF552	79818	broad.mit.edu	37	chr19	58319610	58319610	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtgtgaactctcttatgaAcacggaatgtagagctgtgg	11	11	12	7	1	1	3	0	2	1	1	2	4	1	4	0	2	3	2	0	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58319610A>T	uc002qqg.2	-	3	1192	c.1022T>A	c.(1021-1023)GTT>GAT	p.V341D	ZNF587_uc002qqb.2_Intron|ZNF552_uc010yhg.1_Missense_Mutation_p.V337D	NM_024762	NP_079038	Q9H707	ZN552_HUMAN	zinc finger protein 552	341	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		TCTCTTATGAACACGGAATGT	0.458													9	88					0	0	1	0	0		T	58319610	T	T	58319610	3	4	27	1	0	0	0	0	1	0	0	0	18009	43	2	5	205	5	ZNF552	19	58319610	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	28490	58319610	809373	7741	30092											
ZNF417	147687	broad.mit.edu	37	chr19	58420088	58420088	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccacattcactgcacttatAaggcttttgtccagaatgaa	12	13	6	10	0	1	2	1	1	0	1	3	2	3	2	2	1	1	2	2	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58420088A>G	uc002qqq.2	-	3	1757	c.1558T>C	c.(1558-1560)TAT>CAT	p.Y520H	ZNF417_uc010yhm.1_Missense_Mutation_p.Y477H|ZNF417_uc002qqr.2_Missense_Mutation_p.Y519H	NM_152475	NP_689688	Q8TAU3	ZN417_HUMAN	zinc finger protein 417	520	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0151)		CTGCACTTATAAGGCTTTTGT	0.403													12	106					0	0	1	0	0		G	58420088	G	G	58420088	3	3	27	1	0	0	0	0	1	0	0	0	17919	362	13	3	173	3	ZNF417	19	58420088	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	100478	58420088	708895	7742	30093											
ZNF418	147686	broad.mit.edu	37	chr19	58437734	58437734	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtctctgatgtttaaaatgCgcagaccttcgagtaaatgt	12	13	9	7	2	1	2	0	1	1	1	3	3	1	2	1	0	1	3	1	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58437734C>T	uc002qqs.1	-	4	2107	c.1815G>A	c.(1813-1815)GCG>GCA	p.A605A	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Silent_p.A520A	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	605	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0158)		GTTTAAAATGCGCAGACCTTC	0.443													8	88					0	0	1	0	0		T	58437734	T	T	58437734	2	4	27	1	0	0	0	0	0	0	0	1	17920	755	27	1		1	ZNF418	19	58437734	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17646	58437734	691249	7743	30094											
ZNF418	147686	broad.mit.edu	37	chr19	58438155	58438155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttcaatgaggtgggacttgCccctaaataatttcctacac	11	12	8	10	0	1	1	1	1	0	0	2	2	2	2	3	2	2	1	3	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58438155C>T	uc002qqs.1	-	4	1686	c.1394G>A	c.(1393-1395)GGC>GAC	p.G465D	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Missense_Mutation_p.G380D	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	465	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0158)		GTGGGACTTGCCCCTAAATAA	0.448													12	166					0	0	1	0	0		T	58438155	T	T	58438155	3	4	27	1	0	0	0	0	1	0	0	0	17920	739	26	2	640	2	ZNF418	19	58438155	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	421	58438155	690828	7744	30095											
ZNF418	147686	broad.mit.edu	37	chr19	58439319	58439319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagagtgggccttcttgggaGacacacctgccccaggagtg	9	7	14	11	0	1	2	0	0	1	2	1	4	1	3	4	3	1	0	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58439319G>A	uc002qqs.1	-	4	522	c.230C>T	c.(229-231)TCT>TTT	p.S77F	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_5'UTR	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	77	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0158)		CTTCTTGGGAGACACACCTGC	0.502													4	83					0	0	1	0	0		A	58439319	A	A	58439319	3	1	27	1	0	0	0	0	1	0	0	0	17920	942	33	4	1804	4	ZNF418	19	58439319	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1164	58439319	689664	7745	30096											
ZNF256	10172	broad.mit.edu	37	chr19	58453338	58453338	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtgcgtaataaggctagAgctttgcctataggatttcc	9	13	11	8	2	0	1	0	0	0	1	2	2	1	2	2	3	3	3	2	3	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58453338A>T	uc002qqu.2	-	3	1073	c.838T>A	c.(838-840)TCT>ACT	p.S280T	ZNF256_uc010euj.2_Missense_Mutation_p.S127T	NM_005773	NP_005764	Q9Y2P7	ZN256_HUMAN	zinc finger protein 256	280	C2H2-type 3.				multicellular organismal development|negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0155)		ATAAGGCTAGAGCTTTGCCTA	0.388													14	112					0	0	1	0	0		T	58453338	T	T	58453338	3	4	27	1	0	0	0	0	1	0	0	0	17824	304	11	5	1049	5	ZNF256	19	58453338	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14019	58453338	675645	7746	30097											
ZNF606	80095	broad.mit.edu	37	chr19	58490577	58490577	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttccagttgaaagattTcccacactcattacaaacat	15	11	5	10	0	1	3	1	1	0	2	3	3	3	3	2	0	2	2	2	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58490577T>C	uc002qqw.2	-	7	2089	c.1471A>G	c.(1471-1473)AAA>GAA	p.K491E	ZNF606_uc010yhp.1_Missense_Mutation_p.K401E	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	491	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		TTGAAAGATTTCCCACACTCA	0.368													5	46					0	0	1	0	0		C	58490577	C	C	58490577	3	2	27	1	0	0	0	0	1	0	0	0	18057	1792	62	3	911	3	ZNF606	19	58490577	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37239	58490577	638406	7747	30098											
ZNF135	7694	broad.mit.edu	37	chr19	58578557	58578557	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttatcgaacaccaccggacGcacacaggagagagacctta	14	5	9	13	3	0	2	0	0	0	2	1	6	0	3	3	2	1	1	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58578557G>A	uc010yhq.1	+	5	837	c.741G>A	c.(739-741)ACG>ACA	p.T247T	ZNF135_uc002qre.2_Silent_p.T235T|ZNF135_uc002qrd.1_Silent_p.T193T|ZNF135_uc002qrf.2_Silent_p.T193T|ZNF135_uc002qrg.2_Silent_p.T205T|ZNF135_uc010yhr.1_Silent_p.T56T	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	247					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		ACCACCGGACGCACACAGGAG	0.468													8	102					0	0	1	0	0		A	58578557	A	A	58578557	2	1	27	1	0	0	0	0	0	0	0	1	17750	1074	38	1		1	ZNF135	19	58578557	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	87980	58578557	550426	7748	30099											
ZNF135	7694	broad.mit.edu	37	chr19	58579384	58579384	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacagctcgtccctcaccaAacatcagcgaatccacactg	12	7	5	17	2	3	0	3	0	0	0	6	1	5	0	3	0	3	1	3	0	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58579384A>G	uc010yhq.1	+	5	1664	c.1568A>G	c.(1567-1569)AAA>AGA	p.K523R	ZNF135_uc002qre.2_Missense_Mutation_p.K511R|ZNF135_uc002qrd.1_Intron|ZNF135_uc002qrf.2_Missense_Mutation_p.K469R|ZNF135_uc002qrg.2_Missense_Mutation_p.K481R|ZNF135_uc010yhr.1_Missense_Mutation_p.K332R	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	523					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		TCCCTCACCAAACATCAGCGA	0.557													4	45					0	0	1	0	0		G	58579384	G	G	58579384	3	3	27	1	0	0	0	0	1	0	0	0	17750	14	1	3	1735	3	ZNF135	19	58579384	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	827	58579384	549599	7749	30100											
ZSCAN18	65982	broad.mit.edu	37	chr19	58601478	58601478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggtagacaaattcccGgaaacgcaggcgggagaact	12	6	12	11	3	0	2	0	0	0	2	2	4	2	3	2	4	2	2	2	4	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58601478G>A	uc002qri.2	-	2	466	c.157C>T	c.(157-159)CGG>TGG	p.R53W	ZSCAN18_uc002qrj.3_Missense_Mutation_p.R53W|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Missense_Mutation_p.R53W|ZSCAN18_uc010yht.1_Missense_Mutation_p.R109W|ZSCAN18_uc002qrk.1_Missense_Mutation_p.R53W|ZSCAN18_uc002qrl.2_Missense_Mutation_p.R53W	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	53	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		ACAAATTCCCGGAAACGCAGG	0.672													9	46					0	0	1	0	0		A	58601478	A	A	58601478	3	1	27	1	0	0	0	0	1	0	0	0	18255	1115	39	1	1399	1	ZSCAN18	19	58601478	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	22094	58601478	527505	7750	30101											
ZNF329	79673	broad.mit.edu	37	chr19	58640601	58640601	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgagtcaggtgcatggaaAccatttgttgccagaactct	10	13	10	8	0	2	2	1	1	1	1	2	3	2	3	2	2	4	2	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58640601A>C	uc002qrn.2	-	4	507	c.270T>G	c.(268-270)GGT>GGG	p.G90G	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	90					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		GTGCATGGAAACCATTTGTTG	0.468													11	129					0	0	1	0	0		C	58640601	C	C	58640601	2	2	27	1	0	0	0	0	0	0	0	1	17872	30	2	5		5	ZNF329	19	58640601	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	39123	58640601	488382	7751	30102											
ZNF544	27300	broad.mit.edu	37	chr19	58773443	58773443	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaacgcacactggagaaaaaCccttcaaatgtactcagtgt	15	8	8	10	1	2	1	2	0	0	1	2	3	2	1	1	1	3	2	1	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58773443C>A	uc010euo.2	+	7	1945	c.1471C>A	c.(1471-1473)CCC>ACC	p.P491T	ZNF544_uc010yhw.1_Intron|ZNF544_uc010yhx.1_Missense_Mutation_p.P463T|ZNF544_uc010yhy.1_Missense_Mutation_p.P463T|ZNF544_uc002qrt.3_Missense_Mutation_p.P349T|ZNF544_uc002qru.3_Missense_Mutation_p.P349T|uc002qrx.1_Intron	NM_014480	NP_055295	Q6NX49	ZN544_HUMAN	zinc finger protein 544	491					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		all_cancers(17;4.17e-12)|all_epithelial(17;1.25e-08)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.17)|GBM - Glioblastoma multiforme(193;0.018)		TGGAGAAAAACCCTTCAAATG	0.443													12	87					1.08611e-07	1.18661e-07	1	1	0		A	58773443	A	A	58773443	3	1	27	1	0	0	0	0	1	0	0	0	18002	507	18	5	1485	5	ZNF544	19	58773443	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	132842	58773443	355540	7752	30103											
ZNF8	7554	broad.mit.edu	37	chr19	58805954	58805954	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaaccctacaaatgtacTgactgtgggaagtcgtttaa	14	10	9	8	1	0	1	0	1	0	0	1	3	0	2	1	1	3	2	1	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58805954T>C	uc002qry.1	+	4	910	c.780T>C	c.(778-780)ACT>ACC	p.T260T	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	260	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		ACAAATGTACTGACTGTGGGA	0.483													8	48					0	0	1	0	0		C	58805954	C	C	58805954	2	2	27	1	0	0	0	0	0	0	0	1	18192	1567	55	3		3	ZNF8	19	58805954	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	32511	58805954	323029	7753	30104											
ZNF8	7554	broad.mit.edu	37	chr19	58806852	58806852	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacgttattggggtggaaGagccttctgtgggtgcttcc	5	13	15	8	1	1	1	0	0	1	1	2	2	2	2	2	4	3	3	2	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58806852G>T	uc002qry.1	+	4	1808	c.1678G>T	c.(1678-1680)GAG>TAG	p.E560*	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	560					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		TGGGGTGGAAGAGCCTTCTGT	0.453													5	68					0.00116845	0.00121513	1	1	0		T	58806852	T	T	58806852	4	4	27	1	0	0	0	0	0	1	0	0	18192	943	33	5	1692	5	ZNF8	19	58806852	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	898	58806852	322131	7754	30105											
RPS5	6193	broad.mit.edu	37	chr19	58906110	58906110	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagcgtgtggccaagtccaAccgctgattttcccagctgc	7	9	12	13	2	0	1	0	1	0	0	2	2	2	2	4	2	4	2	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58906110A>G	uc002qsn.2	+	6	680	c.608A>G	c.(607-609)AAC>AGC	p.N203S	RPS5_uc002qso.2_Missense_Mutation_p.N203S	NM_001009	NP_001000	P46782	RS5_HUMAN	ribosomal protein S5	203					endocrine pancreas development|regulation of translational fidelity|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	mRNA binding|structural constituent of ribosome				0		all_cancers(17;1.71e-22)|all_epithelial(17;1.69e-16)|Lung NSC(17;2.25e-06)|all_lung(17;9.97e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Breast(46;0.0194)|Ovarian(87;0.0443)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.171)|GBM - Glioblastoma multiforme(193;0.0323)|Lung(386;0.0543)|LUSC - Lung squamous cell carcinoma(496;0.176)		GCCAAGTCCAACCGCTGATTT	0.572													8	84					0	0	1	0	0		G	58906110	G	G	58906110	3	3	27	1	0	0	0	0	1	0	0	0	13673	43	2	3	626	3	RPS5	19	58906110	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	99258	58906110	222873	7755	30106											
ZNF584	201514	broad.mit.edu	37	chr19	58921357	58921357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatgtttgaggatgtgaCggtatatttctccagggagg	8	13	16	4	1	1	3	0	3	1	0	2	5	1	5	1	5	0	2	1	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58921357C>T	uc002qsp.2	+	2	520	c.68C>T	c.(67-69)ACG>ATG	p.T23M	ZNF584_uc010yia.1_Intron|ZNF584_uc002qsr.2_Intron|ZNF584_uc010yib.1_Missense_Mutation_p.T15M	NM_173548	NP_775819	Q8IVC4	ZN584_HUMAN	zinc finger protein 584	23	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;5.3e-17)|all_epithelial(17;3.71e-12)|Lung NSC(17;8.3e-05)|Colorectal(82;0.000147)|all_lung(17;0.000386)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0271)		GAGGATGTGACGGTATATTTC	0.498													5	106					0	0	1	0	0		T	58921357	T	T	58921357	3	4	27	1	0	0	0	0	1	0	0	0	18041	536	19	1	74	1	ZNF584	19	58921357	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15247	58921357	207626	7756	30107											
ZNF584	201514	broad.mit.edu	37	chr19	58928251	58928251	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacagagtcatccagcaccaGgacactcatagtgaggggaa	14	6	11	10	0	2	2	2	1	0	1	3	4	3	4	2	3	2	1	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58928251G>T	uc002qsp.2	+	4	818	c.366G>T	c.(364-366)CAG>CAT	p.Q122H	ZNF584_uc010yia.1_RNA|ZNF584_uc002qsr.2_Missense_Mutation_p.Q77H|ZNF584_uc010yib.1_3'UTR	NM_173548	NP_775819	Q8IVC4	ZN584_HUMAN	zinc finger protein 584	122					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;5.3e-17)|all_epithelial(17;3.71e-12)|Lung NSC(17;8.3e-05)|Colorectal(82;0.000147)|all_lung(17;0.000386)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0271)		TCCAGCACCAGGACACTCATA	0.502													8	34					0.000673444	0.000703801	1	1	0		T	58928251	T	T	58928251	3	4	27	1	0	0	0	0	1	0	0	0	18041	991	35	5	380	5	ZNF584	19	58928251	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6894	58928251	200732	7757	30108											
ZNF132	7691	broad.mit.edu	37	chr19	58946066	58946066	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatggttggggagagtggAgctcttcaggaaggcttttc	8	11	16	6	0	2	2	1	0	1	2	3	5	2	4	0	6	1	3	0	6	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58946066A>G	uc002qst.3	-	3	1146	c.745T>C	c.(745-747)TCC>CCC	p.S249P		NM_003433	NP_003424	P52740	ZN132_HUMAN	zinc finger protein 132	249	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0171)|Lung(386;0.182)		GGGAGAGTGGAGCTCTTCAGG	0.458													11	119					0	0	1	0	0		G	58946066	G	G	58946066	3	3	27	1	0	0	0	0	1	0	0	0	17747	304	11	3	1379	3	ZNF132	19	58946066	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17815	58946066	182917	7758	30109											
ZNF324	25799	broad.mit.edu	37	chr19	58982486	58982486	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgggagaacctttgggagCgcccaggacctggaggctgc	7	6	16	12	1	0	1	0	0	0	1	0	5	0	4	4	5	3	1	4	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58982486C>T	uc002qsw.1	+	4	721	c.627C>T	c.(625-627)AGC>AGT	p.S209S	ZNF324_uc002qsx.1_5'UTR	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	209					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		CCTTTGGGAGCGCCCAGGACC	0.637													35	81					0	0	1	0	0		T	58982486	T	T	58982486	2	4	27	1	0	0	0	0	0	0	0	1	17869	767	27	1		1	ZNF324	19	58982486	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	36420	58982486	146497	7759	30110											
ZNF446	55663	broad.mit.edu	37	chr19	58988647	58988647	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagagaccacccttgaggAgcctgagactgcccgcctcc	8	5	10	18	1	0	3	0	2	0	2	1	6	1	4	7	1	2	0	7	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58988647A>G	uc002qsz.2	+	2	179	c.62A>G	c.(61-63)GAG>GGG	p.E21G	ZNF446_uc002qta.2_Missense_Mutation_p.E21G|ZNF446_uc010eur.2_Missense_Mutation_p.E21G	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	21					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		ACCCTTGAGGAGCCTGAGACT	0.647													4	116					0	0	1	0	0		G	58988647	G	G	58988647	3	3	27	1	0	0	0	0	1	0	0	0	17944	304	11	3	64	3	ZNF446	19	58988647	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6161	58988647	140336	7760	30111											
ZNF446	55663	broad.mit.edu	37	chr19	58988885	58988885	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgaggaggccgctgccctAgtcgaaggactgcagcatga	9	6	14	12	2	0	2	0	2	0	0	1	5	0	4	3	3	3	3	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:58988885A>G	uc002qsz.2	+	2	417	c.300A>G	c.(298-300)CTA>CTG	p.L100L	ZNF446_uc002qta.2_Silent_p.L100L|ZNF446_uc010eur.2_Silent_p.L100L	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	100	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		CCGCTGCCCTAGTCGAAGGAC	0.632													10	45					0	0	1	0	0		G	58988885	G	G	58988885	2	3	27	1	0	0	0	0	0	0	0	1	17944	407	15	3		3	ZNF446	19	58988885	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	238	58988885	140098	7761	30112											
TRIM28	10155	broad.mit.edu	37	chr19	59061206	59061206	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcactggcgtggtggccaaGctctcaccagccaaccagcg	9	5	12	15	2	1	0	1	0	1	0	2	0	1	0	4	3	5	2	4	3	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr19:59061206G>T	uc002qtg.1	+	14	2374	c.2085G>T	c.(2083-2085)AAG>AAT	p.K695N	TRIM28_uc010eut.1_Missense_Mutation_p.K613N|TRIM28_uc002qth.1_Missense_Mutation_p.K310N	NM_005762	NP_005753	Q13263	TIF1B_HUMAN	tripartite motif-containing 28 protein	695					epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	nucleoplasm	chromo shadow domain binding|ligase activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0434)|all cancers(4;1.39e-13)|Epithelial(4;1.01e-10)|OV - Ovarian serous cystadenocarcinoma(4;2.34e-09)|GBM - Glioblastoma multiforme(193;0.0102)|Lung(386;0.179)		TGGTGGCCAAGCTCTCACCAG	0.602													5	66					0.000602214	0.000630257	1	1	0		T	59061206	T	T	59061206	3	4	27	1	0	0	0	0	1	0	0	0	16528	962	34	5	2139	5	TRIM28	19	59061206	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	72321	59061206	67777	7762	30113											
ZCCHC3	85364	broad.mit.edu	37	chr20	279301	279301	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gacaggtgcttcaggtgcggGgaggaggggcacctgagccc	7	5	19	10	1	1	1	1	1	0	0	1	4	1	3	2	7	3	2	2	7	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:279301G>T	uc002wdf.2	+	2	1095	c.1071G>T	c.(1069-1071)GGG>GGT	p.G357G	ZCCHC3_uc002wdg.2_RNA	NM_033089	NP_149080	Q9NUD5	ZCHC3_HUMAN	zinc finger, CCHC domain containing 3	358	CCHC-type 2.						nucleic acid binding|zinc ion binding				0		all_cancers(10;0.000209)|Lung NSC(37;0.0417)|all_lung(30;0.0713)|all_epithelial(17;0.0748)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.149)			TCAGGTGCGGGGAGGAGGGGC	0.612													4	83					0.00024832	0.000261516	1	1	0		T	279301	T	T	279301	2	4	27	1	0	0	0	0	0	0	0	1	17614	1219	43	5		5	ZCCHC3	20	279301	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08		279301	62746219	7763	30114											
TRIB3	57761	broad.mit.edu	37	chr20	372148	372148	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccagatggccaccgcccTggcgcactgtcaccagcacg	7	4	11	19	4	1	1	1	0	0	1	1	1	1	1	6	2	1	2	6	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:372148T>C	uc002wdm.2	+	3	1015	c.509T>C	c.(508-510)CTG>CCG	p.L170P	TRIB3_uc002wdn.2_Missense_Mutation_p.L197P	NM_021158	NP_066981	Q96RU7	TRIB3_HUMAN	tribbles 3	170	Protein kinase.				apoptosis|cellular lipid metabolic process|insulin receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fatty acid biosynthetic process|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein binding|positive regulation of ubiquitin-protein ligase activity|regulation of glucose transport|regulation of MAP kinase activity|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	ATP binding|protein kinase activity|protein kinase binding|protein kinase inhibitor activity|transcription corepressor activity|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			central_nervous_system(2)	2		all_epithelial(17;0.165)|Lung NSC(37;0.191)|Breast(17;0.231)		Colorectal(46;0.101)|COAD - Colon adenocarcinoma(99;0.112)		GCCACCGCCCTGGCGCACTGT	0.632													3	35					0	0	1	0	0		C	372148	C	C	372148	3	2	27	1	0	0	0	0	1	0	0	0	16510	1580	55	3	515	3	TRIB3	20	372148	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	92847	372148	62653372	7764	30115											
CSNK2A1	1457	broad.mit.edu	37	chr20	472932	472932	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagctcaggacctttgaagTatcgggaagcaactcggaca	12	8	12	9	2	1	1	1	1	0	0	3	4	1	4	1	3	3	4	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:472932T>C	uc002wdw.1	-	9	980	c.587A>G	c.(586-588)TAC>TGC	p.Y196C	CSNK2A1_uc002wdx.1_Missense_Mutation_p.Y196C|CSNK2A1_uc002wdy.1_Missense_Mutation_p.Y60C	NM_177559	NP_808227	P68400	CSK21_HUMAN	casein kinase II alpha 1 subunit isoform a	196	Protein kinase.				axon guidance|Wnt receptor signaling pathway	cytosol|NuRD complex|plasma membrane|Sin3 complex	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			ovary(1)	1		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)			ACCTTTGAAGTATCGGGAAGC	0.403													4	51					0	0	1	0	0		C	472932	C	C	472932	3	2	27	1	0	0	0	0	1	0	0	0	3960	1638	57	3	612	3	CSNK2A1	20	472932	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	100784	472932	62552588	7765	30116											
C20orf46	55321	broad.mit.edu	37	chr20	1161600	1161600	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatgcgcaggttaatggaGccgtaggtcttcctggagcc	7	10	13	11	2	2	0	1	0	1	0	3	2	3	2	3	4	3	3	3	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:1161600G>A	uc010gaa.1	-	3	882	c.663C>T	c.(661-663)GGC>GGT	p.G221G	C20orf46_uc002weq.1_Silent_p.G221G	NM_018354	NP_060824	Q9NUR3	CT046_HUMAN	hypothetical protein LOC55321	221						integral to membrane	protein binding			ovary(1)	1						GGTTAATGGAGCCGTAGGTCT	0.612													6	76					0	0	1	0	0		A	1161600	A	A	1161600	2	1	27	1	0	0	0	0	0	0	0	1	2116	958	34	2		2	C20orf46	20	1161600	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	688668	1161600	61863920	7766	30117											
SNPH	9751	broad.mit.edu	37	chr20	1281356	1281356	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggaccggctccaggaccgGtgagcgggtggccacgagca	8	3	17	13	4	0	1	0	1	0	0	1	4	1	3	4	6	2	2	4	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:1281356G>A	uc002wes.2	+	5	544	c.308_splice	c.e5+1	p.R103_splice	SNPH_uc002wet.2_Splice_Site_p.R147_splice	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin						synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						TCCAGGACCGGTGAGCGGGTG	0.682													3	16					0	0	1	0	0		A	1281356	A	A	1281356	5	1	27	1	0	0	0	0	0	0	1	0	14875	1275	44	4	319	4	SNPH	20	1281356	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	119756	1281356	61744164	7767	30118											
SIRPA	140885	broad.mit.edu	37	chr20	1902223	1902223	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtaggagagagcgtgtccTacagcatccacagcacagcc	11	5	11	14	2	0	1	0	0	0	1	2	3	2	2	4	1	5	3	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:1902223T>A	uc002wfq.2	+	4	979	c.619T>A	c.(619-621)TAC>AAC	p.Y207N	SIRPA_uc010zps.1_Missense_Mutation_p.Y187N|SIRPA_uc002wfr.2_Missense_Mutation_p.Y207N|SIRPA_uc002wfs.2_Missense_Mutation_p.Y207N|SIRPA_uc002wft.2_Missense_Mutation_p.Y207N	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	207	Ig-like C1-type 1.|Extracellular (Potential).				blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		GAGCGTGTCCTACAGCATCCA	0.577													9	109					0	0	1	0	0		A	1902223	A	A	1902223	3	1	27	1	0	0	0	0	1	0	0	0	14357	1522	53	5	629	5	SIRPA	20	1902223	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	620867	1902223	61123297	7768	30119											
SIRPA	140885	broad.mit.edu	37	chr20	1918072	1918072	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagtatgccagcattcagaCcagcccgcagcccgcgtcgg	8	5	13	15	4	1	1	1	0	0	1	2	2	1	2	4	2	4	3	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:1918072C>G	uc002wfq.2	+	9	1733	c.1373C>G	c.(1372-1374)ACC>AGC	p.T458S	SIRPA_uc010zps.1_Missense_Mutation_p.T438S|SIRPA_uc002wfr.2_Missense_Mutation_p.T458S|SIRPA_uc002wfs.2_Missense_Mutation_p.T458S|SIRPA_uc002wft.2_Missense_Mutation_p.T462S	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	458	Cytoplasmic (Potential).				blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		AGCATTCAGACCAGCCCGCAG	0.627													6	84					0	0	1	0	0		G	1918072	G	G	1918072	3	3	27	1	0	0	0	0	1	0	0	0	14357	507	18	5	1403	5	SIRPA	20	1918072	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15849	1918072	61107448	7769	30120											
SIRPA	140885	broad.mit.edu	37	chr20	1918165	1918165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcagccggcccccaagcCtgagccgtccttctcagagt	8	6	10	17	2	1	2	1	1	1	1	3	2	2	2	6	1	4	1	6	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:1918165C>T	uc002wfq.2	+	9	1826	c.1466C>T	c.(1465-1467)CCT>CTT	p.P489L	SIRPA_uc010zps.1_Missense_Mutation_p.P469L|SIRPA_uc002wfr.2_Missense_Mutation_p.P489L|SIRPA_uc002wfs.2_Missense_Mutation_p.P489L|SIRPA_uc002wft.2_Missense_Mutation_p.P493L	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	489	Cytoplasmic (Potential).				blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		GCCCCCAAGCCTGAGCCGTCC	0.627													12	69					0	0	1	0	0		T	1918165	T	T	1918165	3	4	27	1	0	0	0	0	1	0	0	0	14357	681	24	4	1496	4	SIRPA	20	1918165	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	93	1918165	61107355	7770	30121											
STK35	140901	broad.mit.edu	37	chr20	2097903	2097903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacatcccccaaaaacgcaGgacttccatgtctgagggga	12	6	10	13	1	1	1	0	1	1	0	3	3	3	3	3	3	1	2	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:2097903G>A	uc010gak.2	+	3	1484	c.1484G>A	c.(1483-1485)AGG>AAG	p.R495K	STK35_uc010zpu.1_Intron|STK35_uc002wfw.3_Missense_Mutation_p.R362K	NM_080836	NP_543026	Q8TDR2	STK35_HUMAN	serine/threonine kinase 35	495	Protein kinase.					cytoplasm|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CAAAAACGCAGGACTTCCATG	0.512													4	95					0	0	1	0	0		A	2097903	A	A	2097903	3	1	27	1	0	0	0	0	1	0	0	0	15326	1000	35	4	1494	4	STK35	20	2097903	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	179738	2097903	60927617	7771	30122											
TGM3	7053	broad.mit.edu	37	chr20	2291695	2291695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaaccacgctgagagagaaGagtatgttcaggaagatgcc	14	7	13	7	1	1	4	1	1	0	4	1	7	1	5	2	1	2	4	2	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:2291695G>A	uc002wfx.3	+	4	557	c.460G>A	c.(460-462)GAG>AAG	p.E154K		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	154					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	TGAGAGAGAAGAGTATGTTCA	0.468													12	128					0	0	1	0	0		A	2291695	A	A	2291695	3	1	27	1	0	0	0	0	1	0	0	0	15856	943	33	4	474	4	TGM3	20	2291695	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	193792	2291695	60733825	7772	30123											
TGM6	343641	broad.mit.edu	37	chr20	2411625	2411625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagagagtgaaggactgtgCgctgatggtggagggcagcg	10	6	20	5	2	0	4	0	2	0	2	0	7	0	6	0	4	2	2	0	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:2411625C>T	uc002wfy.1	+	12	1980	c.1919C>T	c.(1918-1920)GCG>GTG	p.A640V	TGM6_uc010gal.1_Intron	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	640					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	AAGGACTGTGCGCTGATGGTG	0.592													23	80					0	0	1	0	0		T	2411625	T	T	2411625	3	4	27	1	0	0	0	0	1	0	0	0	15859	768	27	1	1965	1	TGM6	20	2411625	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	119930	2411625	60613895	7773	30124											
CPXM1	56265	broad.mit.edu	37	chr20	2774916	2774916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagctgccagcagctcgcGcagcctctgtttgggagtct	5	9	12	15	2	2	0	0	0	2	0	3	1	2	1	3	1	5	5	3	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:2774916G>A	uc002wgu.2	-	14	2189	c.2125C>T	c.(2125-2127)CGC>TGC	p.R709C	CPXM1_uc010gas.2_Missense_Mutation_p.R635C	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	709					cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						AGCAGCTCGCGCAGCCTCTGT	0.617													13	54					0	0	1	0	0		A	2774916	A	A	2774916	3	1	27	1	0	0	0	0	1	0	0	0	3840	1087	38	1	83	1	CPXM1	20	2774916	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	363291	2774916	60250604	7774	30125											
FAM113A	64773	broad.mit.edu	37	chr20	2819100	2819100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccttcaaccacatcccgccGcagggagcctgccaggggct	7	5	11	18	2	1	0	1	0	0	0	2	1	2	1	6	3	3	2	6	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:2819100G>A	uc002wgz.1	-	6	1116	c.619C>T	c.(619-621)CGG>TGG	p.R207W	FAM113A_uc002whb.1_Missense_Mutation_p.R58W|FAM113A_uc002wha.1_Missense_Mutation_p.R58W|FAM113A_uc010zqa.1_Missense_Mutation_p.R54W|FAM113A_uc002whc.1_Missense_Mutation_p.R156W|VPS16_uc002whe.2_5'Flank|VPS16_uc002whf.2_5'Flank|VPS16_uc002whd.2_5'Flank	NM_022760	NP_073597	Q9H1Q7	F113A_HUMAN	hypothetical protein LOC64773	207							hydrolase activity|protein binding			ovary(2)	2						ACATCCCGCCGCAGGGAGCCT	0.572													5	73					0	0	1	0	0		A	2819100	A	A	2819100	3	1	27	1	0	0	0	0	1	0	0	0	5412	1086	38	1	757	1	FAM113A	20	2819100	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	44184	2819100	60206420	7775	30126											
FASTKD5	60493	broad.mit.edu	37	chr20	3127942	3127942	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggttaacatcaagctggAcctctaagtcagaagatcgg	13	9	10	9	1	4	2	3	0	1	2	5	3	4	3	1	3	2	2	1	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:3127942A>G	uc002whz.2	-	2	2086	c.1775T>C	c.(1774-1776)GTC>GCC	p.V592A	uc002whv.1_Intron|UBOX5_uc002whw.2_Intron|UBOX5_uc002whx.2_Intron|UBOX5_uc002why.1_Intron	NM_021826	NP_068598	Q7L8L6	FAKD5_HUMAN	FAST kinase domains 5	592					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity				0						ATCAAGCTGGACCTCTAAGTC	0.468													6	137					0	0	1	0	0		G	3127942	G	G	3127942	3	3	27	1	0	0	0	0	1	0	0	0	5702	275	10	3	523	3	FASTKD5	20	3127942	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	308842	3127942	59897578	7776	30127											
C20orf194	25943	broad.mit.edu	37	chr20	3262381	3262381	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagtctgggtgggtctgcaGggcctggacaacatcaataa	10	9	14	8	0	3	1	1	1	2	0	3	2	3	2	1	4	2	1	1	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:3262381G>A	uc002wii.2	-	28	2569	c.2518C>T	c.(2518-2520)CTG>TTG	p.L840L	C20orf194_uc002wij.3_Silent_p.L579L|C20orf194_uc002wik.2_Silent_p.L514L	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	840											0						TGGGTCTGCAGGGCCTGGACA	0.502													5	90					0	0	1	0	0		A	3262381	A	A	3262381	2	1	27	1	0	0	0	0	0	0	0	1	2102	991	35	4		4	C20orf194	20	3262381	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	134439	3262381	59763139	7777	30128											
SIGLEC1	6614	broad.mit.edu	37	chr20	3672089	3672089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagccacgtgggtgaaggCgagagtgggcacaggctccg	9	4	18	10	4	0	2	0	1	0	1	1	4	1	2	2	4	1	2	2	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:3672089C>T	uc002wja.2	-	17	4489	c.4489G>A	c.(4489-4491)GCC>ACC	p.A1497T	SIGLEC1_uc002wjb.1_Missense_Mutation_p.A136T|SIGLEC1_uc002wiz.3_Missense_Mutation_p.A1497T	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1497	Ig-like C2-type 15.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						TGGGTGAAGGCGAGAGTGGGC	0.662													6	123					0	0	1	0	0		T	3672089	T	T	3672089	3	4	27	1	0	0	0	0	1	0	0	0	14330	768	27	1	660	1	SIGLEC1	20	3672089	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	409708	3672089	59353431	7778	30129											
MAVS	57506	broad.mit.edu	37	chr20	3845392	3845392	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcatggtgctcaccaaggTgtctgccagcacagtcccca	9	8	10	14	0	2	0	1	0	1	0	3	0	3	0	4	2	4	3	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:3845392T>C	uc002wjw.3	+	6	1284	c.1115T>C	c.(1114-1116)GTG>GCG	p.V372A	MAVS_uc002wjx.3_Missense_Mutation_p.V231A|MAVS_uc002wjy.3_Missense_Mutation_p.V70A	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	372	Cytoplasmic (Probable).				activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0						CTCACCAAGGTGTCTGCCAGC	0.597													10	86					0	0	1	0	0		C	3845392	C	C	3845392	3	2	27	1	0	0	0	0	1	0	0	0	9356	1696	59	3	1133	3	MAVS	20	3845392	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	173303	3845392	59180128	7779	30130											
PANK2	80025	broad.mit.edu	37	chr20	3888740	3888740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctacaggcattcgggacGtgcacctcgagctgaaggac	9	7	14	11	3	1	1	0	1	1	0	3	4	1	3	1	4	3	3	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:3888740G>A	uc002wkc.2	+	2	802	c.796G>A	c.(796-798)GTG>ATG	p.V266M	PANK2_uc002wkb.2_Translation_Start_Site|PANK2_uc010gbd.1_RNA|PANK2_uc002wkd.2_RNA|PANK2_uc002wke.2_Translation_Start_Site|PANK2_uc002wkf.2_Translation_Start_Site	NM_153638	NP_705902	Q9BZ23	PANK2_HUMAN	pantothenate kinase 2 isoform 1 preproprotein	266					cell death|coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial intermembrane space|nucleus	ATP binding|pantothenate kinase activity|protein binding				0						CATTCGGGACGTGCACCTCGA	0.483													24	104					0	0	1	0	0		A	3888740	A	A	3888740	3	1	27	1	0	0	0	0	1	0	0	0	11436	1145	40	1	802	1	PANK2	20	3888740	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	43348	3888740	59136780	7780	30131											
PANK2	80025	broad.mit.edu	37	chr20	3899434	3899434	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagttgaaagcacttttttcGgaacacgaggtaagctgact	12	11	10	8	2	0	2	0	2	0	0	1	4	0	3	0	2	3	4	0	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:3899434G>A	uc002wkc.2	+	6	1659	c.1653G>A	c.(1651-1653)TCG>TCA	p.S551S	PANK2_uc002wkb.2_Silent_p.S260S|PANK2_uc002wkd.2_RNA|PANK2_uc002wke.2_Silent_p.S260S|PANK2_uc002wkf.2_Silent_p.S115S|MIR103-2AS_hsa-mir-103-2-as|MI0007262_5'Flank	NM_153638	NP_705902	Q9BZ23	PANK2_HUMAN	pantothenate kinase 2 isoform 1 preproprotein	551					cell death|coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial intermembrane space|nucleus	ATP binding|pantothenate kinase activity|protein binding				0						CACTTTTTTCGGAACACGAGG	0.438													75	213					0	0	1	0	0		A	3899434	A	A	3899434	2	1	27	1	0	0	0	0	0	0	0	1	11436	1103	39	1		1	PANK2	20	3899434	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	10694	3899434	59126086	7781	30132											
PRNP	5621	broad.mit.edu	37	chr20	4680403	4680403	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaactttgtgcacgactgCgtcaatatcacaatcaagca	15	9	6	11	2	3	0	3	0	0	0	3	1	3	0	0	0	5	2	0	0	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:4680403C>T	uc002wku.2	+	2	900	c.537C>T	c.(535-537)TGC>TGT	p.C179C	PRNP_uc002wkv.2_Silent_p.C179C|PRNP_uc002wkw.2_Silent_p.C179C|PRNP_uc002wkx.2_Silent_p.C179C|PRNP_uc002wkt.1_Silent_p.C149C|PRNP_uc002wky.2_Silent_p.C179C|PRNP_uc010gbe.1_Silent_p.C179C	NM_001080122	NP_001073591	P04156	PRIO_HUMAN	prion protein preproprotein	179	Interaction with GRB2, ERI3 and SYN1 (By similarity).				axon guidance|cell cycle arrest|cellular copper ion homeostasis|metabolic process|negative regulation of activated T cell proliferation|negative regulation of calcineurin-NFAT signaling pathway|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-2 production|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell receptor signaling pathway|protein homooligomerization|response to oxidative stress	anchored to membrane|endoplasmic reticulum|extrinsic to membrane|Golgi apparatus|membrane raft|nucleus|plasma membrane	copper ion binding|identical protein binding|microtubule binding			central_nervous_system(1)	1					Tetracycline(DB00759)	TGCACGACTGCGTCAATATCA	0.512													8	60					0	0	1	0	0		T	4680403	T	T	4680403	2	4	27	1	0	0	0	0	0	0	0	1	12566	776	27	1		1	PRNP	20	4680403	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	780969	4680403	58345117	7782	30133											
PRNP	5621	broad.mit.edu	37	chr20	4680596	4680596	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccacctgtgatcctcctgAtctctttcctcatcttcctg	4	16	4	17	0	3	2	1	2	2	0	9	2	8	2	6	0	0	0	6	0	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:4680596A>T	uc002wku.2	+	2	1093	c.730A>T	c.(730-732)ATC>TTC	p.I244F	PRNP_uc002wkv.2_Missense_Mutation_p.I244F|PRNP_uc002wkw.2_Missense_Mutation_p.I244F|PRNP_uc002wkx.2_Missense_Mutation_p.I244F|PRNP_uc002wkt.1_Missense_Mutation_p.I214F|PRNP_uc002wky.2_Missense_Mutation_p.I244F|PRNP_uc010gbe.1_Intron	NM_001080122	NP_001073591	P04156	PRIO_HUMAN	prion protein preproprotein	244					axon guidance|cell cycle arrest|cellular copper ion homeostasis|metabolic process|negative regulation of activated T cell proliferation|negative regulation of calcineurin-NFAT signaling pathway|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-2 production|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell receptor signaling pathway|protein homooligomerization|response to oxidative stress	anchored to membrane|endoplasmic reticulum|extrinsic to membrane|Golgi apparatus|membrane raft|nucleus|plasma membrane	copper ion binding|identical protein binding|microtubule binding			central_nervous_system(1)	1					Tetracycline(DB00759)	GATCCTCCTGATCTCTTTCCT	0.498													3	12					0	0	1	0	0		T	4680596	T	T	4680596	3	4	27	1	0	0	0	0	1	0	0	0	12566	333	12	5	732	5	PRNP	20	4680596	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	193	4680596	58344924	7783	30134											
PRND	23627	broad.mit.edu	37	chr20	4705292	4705292	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgaggggcatcaagcacaGaatcaagtggaaccggaagg	15	3	15	8	2	2	1	2	0	0	1	2	5	2	3	1	5	2	2	1	5	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:4705292G>T	uc002wkz.2	+	2	166	c.95G>T	c.(94-96)AGA>ATA	p.R32I		NM_012409	NP_036541	Q9UKY0	PRND_HUMAN	prion-like protein doppel preproprotein	32	Flexible tail.				protein homooligomerization	anchored to membrane|plasma membrane					0						ATCAAGCACAGAATCAAGTGG	0.627													6	62					0.248553	0.249545	1	1	0		T	4705292	T	T	4705292	3	4	27	1	0	0	0	0	1	0	0	0	12565	942	33	5	97	5	PRND	20	4705292	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	24696	4705292	58320228	7784	30135											
SLC23A2	9962	broad.mit.edu	37	chr20	4854619	4854619	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccacggggctaccagaagCacgccttgcctggcatctgt	9	7	11	14	2	1	1	0	0	1	1	1	1	1	1	4	3	4	3	4	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:4854619C>T	uc002wlg.1	-	11	1440	c.1065G>A	c.(1063-1065)GTG>GTA	p.V355V	SLC23A2_uc010zqr.1_Silent_p.V240V|SLC23A2_uc002wlh.1_Silent_p.V355V|SLC23A2_uc002wli.2_Silent_p.V354V	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	355					L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						CTACCAGAAGCACGCCTTGCC	0.547													5	79					0	0	1	0	0		T	4854619	T	T	4854619	2	4	27	1	0	0	0	0	0	0	0	1	14488	697	25	2		2	SLC23A2	20	4854619	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	149327	4854619	58170901	7785	30136											
MCM8	84515	broad.mit.edu	37	chr20	5933145	5933145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attggatcgattcataccatAtaaaggctggaagctttatt	13	14	8	6	1	1	0	1	0	0	0	2	3	1	2	1	3	2	2	1	3	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:5933145A>G	uc002wmi.2	+	3	601	c.224A>G	c.(223-225)TAT>TGT	p.Y75C	TRMT6_uc002wmh.1_5'Flank|TRMT6_uc010zra.1_5'Flank|TRMT6_uc010gbn.1_5'Flank|TRMT6_uc010gbo.1_5'Flank|MCM8_uc002wmj.2_Missense_Mutation_p.Y75C|MCM8_uc002wmk.2_Missense_Mutation_p.Y75C|MCM8_uc002wml.2_Missense_Mutation_p.Y75C|MCM8_uc010gbp.2_Missense_Mutation_p.Y75C	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	75					cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						TTCATACCATATAAAGGCTGG	0.338													7	112					0	0	1	0	0		G	5933145	G	G	5933145	3	3	27	1	0	0	0	0	1	0	0	0	9411	449	16	3	230	3	MCM8	20	5933145	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1078526	5933145	57092375	7786	30137											
MCM8	84515	broad.mit.edu	37	chr20	5948575	5948575	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aacaaagagttctgaggatgGgtgtaagcatggaatgttga	14	10	14	3	0	1	3	0	2	1	1	1	5	1	5	0	3	2	4	0	3	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:5948575G>T	uc002wmi.2	+	10	1504	c.1127G>T	c.(1126-1128)GGG>GTG	p.G376V	MCM8_uc002wmj.2_Missense_Mutation_p.G360V|MCM8_uc002wmk.2_Missense_Mutation_p.G376V|MCM8_uc002wml.2_Missense_Mutation_p.G376V|MCM8_uc010gbp.2_Missense_Mutation_p.G376V|MCM8_uc002wmm.2_5'Flank	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	376					cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						TCTGAGGATGGGTGTAAGCAT	0.353													33	72					8.16721e-17	9.13931e-17	1	1	0		T	5948575	T	T	5948575	3	4	27	1	0	0	0	0	1	0	0	0	9411	1232	43	5	1161	5	MCM8	20	5948575	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15430	5948575	57076945	7787	30138											
HAO1	54363	broad.mit.edu	37	chr20	7866431	7866431	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagagctttcagaacatcAgtgcctttccgcacaccccc	9	8	7	17	1	2	2	2	0	0	2	3	2	3	2	5	0	3	2	5	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:7866431A>G	uc002wmw.1	-	6	918	c.894T>C	c.(892-894)ACT>ACC	p.T298T	HAO1_uc010gbu.2_Silent_p.T298T	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	298	FMN hydroxy acid dehydrogenase.|FMN (By similarity).				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						TCAGAACATCAGTGCCTTTCC	0.502													7	126					0	0	1	0	0		G	7866431	G	G	7866431	2	3	27	1	0	0	0	0	0	0	0	1	6967	175	7	3		3	HAO1	20	7866431	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1917856	7866431	55159089	7788	30139											
PLCB1	23236	broad.mit.edu	37	chr20	8703028	8703028	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatacggaaagtgacgacgAcgatgatgatgatgactgta	14	9	13	5	4	0	6	0	6	0	0	0	10	0	7	0	1	1	1	0	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:8703028A>G	uc002wnb.2	+	15	1544	c.1541A>G	c.(1540-1542)GAC>GGC	p.D514G	PLCB1_uc010zrb.1_Missense_Mutation_p.D413G|PLCB1_uc002wna.2_Missense_Mutation_p.D514G|PLCB1_uc002wnc.1_Missense_Mutation_p.D413G|PLCB1_uc002wnd.1_Missense_Mutation_p.D91G	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	514					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						AGTGACGACGACGATGATGAT	0.413													6	61					0	0	1	0	0		G	8703028	G	G	8703028	3	3	27	1	0	0	0	0	1	0	0	0	12046	275	10	3	1599	3	PLCB1	20	8703028	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	836597	8703028	54322492	7789	30140											
PAK7	57144	broad.mit.edu	37	chr20	9546626	9546626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtgtgtttctcggtggCgatgcatacgatgccggttg	4	13	14	10	4	1	0	0	0	1	0	2	2	1	0	2	3	3	3	2	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:9546626C>T	uc002wnl.2	-	6	1941	c.1396G>A	c.(1396-1398)GCC>ACC	p.A466T	PAK7_uc002wnk.2_Missense_Mutation_p.A466T|PAK7_uc002wnj.2_Missense_Mutation_p.A466T|PAK7_uc010gby.1_Missense_Mutation_p.A466T	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	466	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			TTCTCGGTGGCGATGCATACG	0.527													10	130					0	0	1	0	0		T	9546626	T	T	9546626	3	4	27	1	0	0	0	0	1	0	0	0	11424	768	27	1	787	1	PAK7	20	9546626	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	843598	9546626	53478894	7790	30141											
ANKRD5	63926	broad.mit.edu	37	chr20	10019012	10019012	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaagttcttcaatgtgtgcgGaacaaagacaagaagcagat	17	8	10	6	1	2	3	1	0	1	3	2	4	2	4	0	1	3	2	0	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:10019012G>A	uc002wno.2	+	3	456	c.63G>A	c.(61-63)CGG>CGA	p.R21R	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Silent_p.R21R|ANKRD5_uc010gbz.2_5'UTR	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	21							calcium ion binding			ovary(1)|breast(1)	2						AATGTGTGCGGAACAAAGACA	0.403													5	48					0	0	1	0	0		A	10019012	A	A	10019012	2	1	27	1	0	0	0	0	0	0	0	1	676	1161	41	4		4	ANKRD5	20	10019012	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	472386	10019012	53006508	7791	30142											
MKKS	8195	broad.mit.edu	37	chr20	10393240	10393240	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctatggcaataatacgaTgcatattgagaaactgcttc	13	13	8	7	1	1	1	0	1	1	1	2	3	1	1	0	1	4	3	0	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:10393240T>C	uc002wnt.1	-	3	1810	c.923A>G	c.(922-924)CAT>CGT	p.H308R	MKKS_uc002wnu.1_Missense_Mutation_p.H308R|MKKS_uc010zrd.1_Intron	NM_018848	NP_061336	Q9NPJ1	MKKS_HUMAN	McKusick-Kaufman syndrome protein	308	Substrate-binding apical domain.				brain morphogenesis|cerebral cortex development|convergent extension involved in gastrulation|detection of mechanical stimulus involved in sensory perception of sound|fat cell differentiation|flagellum assembly|gonad development|heart looping|hippocampus development|intracellular transport|melanosome transport|photoreceptor cell maintenance|pigment granule aggregation in cell center|protein folding|regulation of cilium beat frequency involved in ciliary motility|sensory perception of smell|social behavior|spermatid development|striatum development	cytosol|microtubule organizing center|motile cilium	ATP binding|unfolded protein binding				0						AATAATACGATGCATATTGAG	0.403									Bardet-Biedl_syndrome				8	94					0	0	1	0	0		C	10393240	C	C	10393240	3	2	27	1	0	0	0	0	1	0	0	0	9618	1464	51	3	805	3	MKKS	20	10393240	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	374228	10393240	52632280	7792	30143											
MKKS	8195	broad.mit.edu	37	chr20	10393443	10393443	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtacaaaagagtgccacCttgagggcagttgatttttt	10	14	11	6	0	0	3	0	2	0	1	0	3	0	3	2	1	2	4	2	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:10393443C>A	uc002wnt.1	-	3	1607	c.720G>T	c.(718-720)AAG>AAT	p.K240N	MKKS_uc002wnu.1_Missense_Mutation_p.K240N|MKKS_uc010zrd.1_Intron	NM_018848	NP_061336	Q9NPJ1	MKKS_HUMAN	McKusick-Kaufman syndrome protein	240	Substrate-binding apical domain.				brain morphogenesis|cerebral cortex development|convergent extension involved in gastrulation|detection of mechanical stimulus involved in sensory perception of sound|fat cell differentiation|flagellum assembly|gonad development|heart looping|hippocampus development|intracellular transport|melanosome transport|photoreceptor cell maintenance|pigment granule aggregation in cell center|protein folding|regulation of cilium beat frequency involved in ciliary motility|sensory perception of smell|social behavior|spermatid development|striatum development	cytosol|microtubule organizing center|motile cilium	ATP binding|unfolded protein binding				0						AGAGTGCCACCTTGAGGGCAG	0.403									Bardet-Biedl_syndrome				6	82					3.59834e-05	3.83694e-05	1	1	0		A	10393443	A	A	10393443	3	1	27	1	0	0	0	0	1	0	0	0	9618	680	24	5	1008	5	MKKS	20	10393443	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	203	10393443	52632077	7793	30144											
C20orf94	128710	broad.mit.edu	37	chr20	10541418	10541418	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggaagttcgcaaacagcAcaggccatcaaatgcagaat	15	7	9	10	1	1	1	1	0	0	1	2	2	1	2	1	2	3	4	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:10541418A>G	uc010zre.1	+	4	368	c.188A>G	c.(187-189)CAC>CGC	p.H63R		NM_001009608	NP_001009608	Q5VYV7	CT094_HUMAN	hypothetical protein LOC128710	63							protein binding				0						CGCAAACAGCACAGGCCATCA	0.353													7	52					0	0	1	0	0		G	10541418	G	G	10541418	3	3	27	1	0	0	0	0	1	0	0	0	2124	159	6	3	198	3	C20orf94	20	10541418	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	147975	10541418	52484102	7794	30145											
JAG1	182	broad.mit.edu	37	chr20	10621534	10621534	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagatcgattattttgtcAgtgatttccttgatcgggtt	9	17	9	6	2	1	3	1	2	0	1	4	4	2	3	1	1	0	1	1	1	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:10621534A>G	uc002wnw.2	-	25	3612	c.3096T>C	c.(3094-3096)ACT>ACC	p.T1032T		NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	1032	Extracellular (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						TTATTTTGTCAGTGATTTCCT	0.443									Alagille_Syndrome				4	70					0	0	1	0	0		G	10621534	G	G	10621534	2	3	27	1	0	0	0	0	0	0	0	1	7950	175	7	3		3	JAG1	20	10621534	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	80116	10621534	52403986	7795	30146											
JAG1	182	broad.mit.edu	37	chr20	10625789	10625789	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccacgtggggcataaagttAcctatgttacaggttgttcc	9	12	10	10	1	0	0	0	0	0	0	1	0	1	0	3	3	2	5	3	3	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:10625789A>G	uc002wnw.2	-	17	2743	c.2227_splice	c.e17+1	p.A743_splice	JAG1_uc010gcd.1_Splice_Site_p.A301_splice	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor						angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						GCATAAAGTTACCTATGTTAC	0.552									Alagille_Syndrome				3	47					0	0	1	0	0		G	10625789	G	G	10625789	5	3	27	1	0	0	0	0	0	0	1	0	7950	405	14	3	1467	3	JAG1	20	10625789	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4255	10625789	52399731	7796	30147											
BTBD3	22903	broad.mit.edu	37	chr20	11904244	11904244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgactgtccagtttcagtGctcctcagatagcaccaatg	10	11	9	11	0	2	2	2	1	0	1	4	2	4	2	3	0	2	3	3	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:11904244G>A	uc002wnz.2	+	4	1858	c.1499G>A	c.(1498-1500)TGC>TAC	p.C500Y	BTBD3_uc002wny.2_Missense_Mutation_p.C439Y|BTBD3_uc002woa.2_Missense_Mutation_p.C439Y|BTBD3_uc010zrf.1_Missense_Mutation_p.C349Y|BTBD3_uc010zrg.1_Missense_Mutation_p.C349Y|BTBD3_uc010zrh.1_Missense_Mutation_p.C349Y	NM_014962	NP_055777	Q9Y2F9	BTBD3_HUMAN	BTB/POZ domain containing protein 3 isoform a	500										ovary(2)|central_nervous_system(1)	3						CAGTTTCAGTGCTCCTCAGAT	0.483													4	84					0	0	1	0	0		A	11904244	A	A	11904244	3	1	27	1	0	0	0	0	1	0	0	0	1547	1319	46	2	1513	2	BTBD3	20	11904244	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1278455	11904244	51121276	7797	30148											
SPTLC3	55304	broad.mit.edu	37	chr20	13098372	13098372	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttacatagctggaaggaaGgtaagagagggcctgcttgt	11	9	16	5	0	0	1	0	0	0	1	0	4	0	3	1	5	3	4	1	5	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:13098372G>A	uc002wod.1	+	8	1441	c.1152G>A	c.(1150-1152)AAG>AAA	p.K384K		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	384					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	CTGGAAGGAAGGTAAGAGAGG	0.478													5	71					0	0	1	0	0		A	13098372	A	A	13098372	2	1	27	1	0	0	0	0	0	0	0	1	15150	1014	35	4		4	SPTLC3	20	13098372	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1194128	13098372	49927148	7798	30149											
ISM1	140862	broad.mit.edu	37	chr20	13260305	13260305	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatagaggtggtcgacggtCctgactctgaagcagataaa	12	8	12	9	2	1	4	0	2	1	2	3	5	2	4	2	3	1	1	2	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:13260305C>A	uc010gce.1	+	3	409	c.403C>A	c.(403-405)CCT>ACT	p.P135T	TASP1_uc010zri.1_Intron	NM_080826	NP_543016	B1AKI9	ISM1_HUMAN	isthmin 1 homolog precursor	135						extracellular region					0						GGTCGACGGTCCTGACTCTGA	0.557													3	29					6.4e-05	6.80234e-05	1	1	0		A	13260305	A	A	13260305	3	1	27	1	0	0	0	0	1	0	0	0	7876	855	30	5	413	5	ISM1	20	13260305	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	161933	13260305	49765215	7799	30150											
KIF16B	55614	broad.mit.edu	37	chr20	16496226	16496226	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtgtatgactttccagaTccagtttgcccatatgcaaa	12	13	7	9	0	0	2	0	1	0	1	2	2	2	2	3	0	2	3	3	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:16496226T>C	uc002wpg.1	-	4	473	c.315A>G	c.(313-315)GGA>GGG	p.G105G	KIF16B_uc010gch.1_Silent_p.G105G|KIF16B_uc010gci.1_Silent_p.G105G|KIF16B_uc010gcj.1_Silent_p.G105G	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	105	ATP (Potential).|Kinesin-motor.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						ACTTTCCAGATCCAGTTTGCC	0.393													3	55					0	0	1	0	0		C	16496226	C	C	16496226	2	2	27	1	0	0	0	0	0	0	0	1	8294	1422	50	3		3	KIF16B	20	16496226	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3235921	16496226	46529294	7800	30151											
OTOR	56914	broad.mit.edu	37	chr20	16729574	16729574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggactgtagattcattaacGttaaaaaagggcagcagatc	15	9	10	7	2	1	2	1	0	0	2	2	3	1	3	0	2	2	4	0	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:16729574G>A	uc002wpj.2	+	2	222	c.178G>A	c.(178-180)GTT>ATT	p.V60I	OTOR_uc002wpk.2_5'Flank	NM_020157	NP_064542	Q9NRC9	OTOR_HUMAN	otoraplin precursor	60	SH3.				sensory perception of sound	extracellular region				ovary(1)|central_nervous_system(1)	2						ATTCATTAACGTTAAAAAAGG	0.353													13	44					0	0	1	0	0		A	16729574	A	A	16729574	3	1	27	1	0	0	0	0	1	0	0	0	11327	1145	40	1	184	1	OTOR	20	16729574	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	233348	16729574	46295946	7801	30152											
SNX5	27131	broad.mit.edu	37	chr20	17930823	17930823	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggctatgtaagcaggcTgcggtgtggatatagtcatc	9	10	14	8	1	1	0	1	0	0	0	2	1	1	1	1	4	2	4	1	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:17930823T>C	uc002wqc.2	-	8	830	c.744A>G	c.(742-744)GCA>GCG	p.A248A	SNX5_uc002wqb.2_RNA|SNX5_uc002wqd.2_Silent_p.A248A|SNX5_uc002wqe.2_Silent_p.A143A|SNX5_uc010zrt.1_Silent_p.A248A	NM_014426	NP_055241	Q9Y5X3	SNX5_HUMAN	sorting nexin 5	248	BAR.				cell communication|pinocytosis|protein transport	cytoplasmic vesicle membrane|early endosome membrane|extrinsic to endosome membrane|extrinsic to internal side of plasma membrane|macropinocytic cup|phagocytic cup|ruffle	phosphatidylinositol binding			large_intestine(1)	1						GTAAGCAGGCTGCGGTGTGGA	0.453													7	76					0	0	1	0	0		C	17930823	C	C	17930823	2	2	27	1	0	0	0	0	0	0	0	1	14930	1567	55	3		3	SNX5	20	17930823	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1201249	17930823	45094697	7802	30153											
C20orf72	92667	broad.mit.edu	37	chr20	17970645	17970645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgcccacccacatttcatgGatgcagagctctgttcccag	8	10	8	15	0	2	1	1	0	1	1	3	2	3	2	3	1	3	3	3	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:17970645G>A	uc002wqh.2	+	5	1010	c.928G>A	c.(928-930)GAT>AAT	p.D310N	C20orf72_uc010gco.2_RNA|C20orf72_uc010gcp.2_RNA	NM_052865	NP_443097	Q9BQP7	CT072_HUMAN	hypothetical protein LOC92667	310											0						ACATTTCATGGATGCAGAGCT	0.433													10	109					0	0	1	0	0		A	17970645	A	A	17970645	3	1	27	1	0	0	0	0	1	0	0	0	2121	1174	41	4	942	4	C20orf72	20	17970645	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39822	17970645	45054875	7803	30154											
OVOL2	58495	broad.mit.edu	37	chr20	18005394	18005394	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgagaaacgagctgccCggatgggcactgttcacgtg	8	11	13	9	3	1	1	1	1	0	1	1	4	1	2	1	2	3	3	1	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:18005394C>T	uc002wqi.1	-	4	957	c.714G>A	c.(712-714)CCG>CCA	p.P238P		NM_021220	NP_067043	Q9BRP0	OVOL2_HUMAN	zinc finger protein 339	238					negative regulation of keratinocyte differentiation|negative regulation of Notch signaling pathway|negative regulation of transcription by competitive promoter binding|regulation of cell cycle|regulation of keratinocyte proliferation|transcription, DNA-dependent	nucleus	DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1						ACGAGCTGCCCGGATGGGCAC	0.557													7	39					0	0	1	0	0		T	18005394	T	T	18005394	2	4	27	1	0	0	0	0	0	0	0	1	11346	639	23	1		1	OVOL2	20	18005394	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	34749	18005394	45020126	7804	30155											
CSRP2BP	57325	broad.mit.edu	37	chr20	18163876	18163876	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcccgacgcacctctcgatTactgttatgtgcggccaaat	9	10	9	13	4	1	0	0	0	1	0	2	2	1	0	3	1	3	2	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:18163876T>C	uc002wqj.2	+	9	2540	c.1918T>C	c.(1918-1920)TAC>CAC	p.Y640H	CSRP2BP_uc002wqk.2_Missense_Mutation_p.Y512H|CSRP2BP_uc010zru.1_Missense_Mutation_p.Y511H	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	640	N-acetyltransferase.				histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						ACCTCTCGATTACTGTTATGT	0.542													11	136					0	0	1	0	0		C	18163876	C	C	18163876	3	2	27	1	0	0	0	0	1	0	0	0	3971	1754	61	3	1948	3	CSRP2BP	20	18163876	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	158482	18163876	44861644	7805	30156											
SEC23B	10483	broad.mit.edu	37	chr20	18523773	18523773	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccgagcggagtcagaggaggGgcccgatgtgctccggtggc	6	5	19	11	4	1	1	1	0	0	1	2	5	2	3	3	6	2	1	3	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:18523773G>T	uc002wqz.1	+	14	2065	c.1622G>T	c.(1621-1623)GGG>GTG	p.G541V	SEC23B_uc002wra.1_Missense_Mutation_p.G541V|SEC23B_uc002wrb.1_Missense_Mutation_p.G541V|SEC23B_uc010zsb.1_Missense_Mutation_p.G523V|SEC23B_uc002wrc.1_Missense_Mutation_p.G541V	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	541					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						TCAGAGGAGGGGCCCGATGTG	0.557													22	109					1.10513e-12	1.23076e-12	1	1	0		T	18523773	T	T	18523773	3	4	27	1	0	0	0	0	1	0	0	0	14017	1232	43	5	1672	5	SEC23B	20	18523773	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	359897	18523773	44501747	7806	30157											
RIN2	54453	broad.mit.edu	37	chr20	19956264	19956264	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcacctacttcgggtgctTagtgcaggactacgtgagct	8	11	12	10	2	0	1	0	1	0	0	1	2	0	2	1	2	6	4	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:19956264T>C	uc002wro.1	+	7	1631	c.1595T>C	c.(1594-1596)TTA>TCA	p.L532S	RIN2_uc010gcu.1_Intron|RIN2_uc010gcv.1_Missense_Mutation_p.L326S	NM_018993	NP_061866	Q8WYP3	RIN2_HUMAN	Ras and Rab interactor 2	532					endocytosis|small GTPase mediated signal transduction	cytoplasm	GTPase activator activity|Rab guanyl-nucleotide exchange factor activity			lung(4)|ovary(1)	5						TTCGGGTGCTTAGTGCAGGAC	0.592													4	77					0	0	1	0	0		C	19956264	C	C	19956264	3	2	27	1	0	0	0	0	1	0	0	0	13397	1764	61	3	1621	3	RIN2	20	19956264	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1432491	19956264	43069256	7807	30158											
RIN2	54453	broad.mit.edu	37	chr20	19981261	19981261	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcttccacctgcagaattAcctccgagttgcatttcagg	8	12	7	14	1	2	1	1	0	1	1	4	2	4	1	5	1	3	3	5	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:19981261A>G	uc002wro.1	+	11	2405	c.2369A>G	c.(2368-2370)TAC>TGC	p.Y790C	RIN2_uc010gcu.1_Missense_Mutation_p.Y357C|RIN2_uc010gcv.1_Missense_Mutation_p.Y584C	NM_018993	NP_061866	Q8WYP3	RIN2_HUMAN	Ras and Rab interactor 2	790	Ras-associating.				endocytosis|small GTPase mediated signal transduction	cytoplasm	GTPase activator activity|Rab guanyl-nucleotide exchange factor activity			lung(4)|ovary(1)	5						CTGCAGAATTACCTCCGAGTT	0.498													5	123					0	0	1	0	0		G	19981261	G	G	19981261	3	3	27	1	0	0	0	0	1	0	0	0	13397	391	14	3	2411	3	RIN2	20	19981261	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	24997	19981261	43044259	7808	30159											
RIN2	54453	broad.mit.edu	37	chr20	19981487	19981487	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgcacagccgaccacaGccccacatcttccactttgt	9	8	7	17	1	1	0	0	0	1	0	2	2	2	0	5	0	4	2	5	0	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:19981487G>A	uc002wro.1	+	11	2631	c.2595G>A	c.(2593-2595)CAG>CAA	p.Q865Q	RIN2_uc010gcu.1_Silent_p.Q432Q|RIN2_uc010gcv.1_Silent_p.Q659Q	NM_018993	NP_061866	Q8WYP3	RIN2_HUMAN	Ras and Rab interactor 2	865	Ras-associating.				endocytosis|small GTPase mediated signal transduction	cytoplasm	GTPase activator activity|Rab guanyl-nucleotide exchange factor activity			lung(4)|ovary(1)	5						GCCGACCACAGCCCCACATCT	0.512													15	43					0	0	1	0	0		A	19981487	A	A	19981487	2	1	27	1	0	0	0	0	0	0	0	1	13397	962	34	2		2	RIN2	20	19981487	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	226	19981487	43044033	7809	30160											
CRNKL1	51340	broad.mit.edu	37	chr20	20020360	20020360	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcgaatttaatccatgaggTacaattttcaggtccaaatt	14	13	7	7	1	1	1	1	1	0	0	3	2	3	1	2	2	2	1	2	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:20020360T>C	uc002wrs.2	-	12	1953	c.1921A>G	c.(1921-1923)ACC>GCC	p.T641A		NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	641	HAT 12.				spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						ATCCATGAGGTACAATTTTCA	0.383													13	113					0	0	1	0	0		C	20020360	C	C	20020360	3	2	27	1	0	0	0	0	1	0	0	0	3894	1638	57	3	641	3	CRNKL1	20	20020360	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	38873	20020360	43005160	7810	30161											
CRNKL1	51340	broad.mit.edu	37	chr20	20029028	20029028	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcgttgttatggcccggtcCcagatatttcgagcatggtt	7	13	12	9	3	0	1	0	0	0	1	2	2	1	1	2	3	2	4	2	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:20029028C>T	uc002wrs.2	-	5	929	c.897G>A	c.(895-897)TGG>TGA	p.W299*	CRNKL1_uc002wrt.1_Nonsense_Mutation_p.W287*	NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	299	HAT 3.				spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						TGGCCCGGTCCCAGATATTTC	0.423													15	71					0	0	1	0	0		T	20029028	T	T	20029028	4	4	27	1	0	0	0	0	0	1	0	0	3894	624	22	4	1693	4	CRNKL1	20	20029028	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	8668	20029028	42996492	7811	30162											
C20orf26	26074	broad.mit.edu	37	chr20	20258096	20258096	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagcctttcagactccaGtgctctgtaagtgggtccct	8	11	9	13	0	2	1	1	0	1	1	4	1	4	1	4	1	2	2	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:20258096G>T	uc002wru.2	+	22	2866	c.2790G>T	c.(2788-2790)CAG>CAT	p.Q930H	C20orf26_uc010zse.1_Missense_Mutation_p.Q910H|C20orf26_uc002wrw.2_RNA	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	930										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TCAGACTCCAGTGCTCTGTAA	0.582													8	84					0.0381472	0.0386818	1	1	0		T	20258096	T	T	20258096	3	4	27	1	0	0	0	0	1	0	0	0	2109	1020	36	5	2904	5	C20orf26	20	20258096	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	229068	20258096	42767424	7812	30163											
RALGAPA2	57186	broad.mit.edu	37	chr20	20392719	20392719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagaaaagacttgggctgCgaaatcctcgaatgtcatta	13	9	12	7	2	1	2	1	0	0	2	3	5	2	2	1	2	1	1	1	2	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:20392719C>T	uc002wrz.2	-	38	5712	c.5569G>A	c.(5569-5571)GCA>ACA	p.A1857T	RALGAPA2_uc010gcx.2_Missense_Mutation_p.A1561T|RALGAPA2_uc010zsg.1_Missense_Mutation_p.A1305T	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1857					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						ACTTGGGCTGCGAAATCCTCG	0.493													10	109					0	0	1	0	0		T	20392719	T	T	20392719	3	4	27	1	0	0	0	0	1	0	0	0	13039	768	27	1	60	1	RALGAPA2	20	20392719	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	134623	20392719	42632801	7813	30164											
RALGAPA2	57186	broad.mit.edu	37	chr20	20493484	20493484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccccctcctcaacttgagaaGagtctttctgaggtccaaat	10	11	7	13	0	3	3	1	2	2	2	5	4	5	3	4	1	1	0	4	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:20493484G>A	uc002wrz.2	-	32	4672	c.4529C>T	c.(4528-4530)TCT>TTT	p.S1510F	RALGAPA2_uc010gcx.2_Missense_Mutation_p.S1214F|RALGAPA2_uc010zsg.1_Missense_Mutation_p.S958F|RALGAPA2_uc002wsa.1_Missense_Mutation_p.S282F	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1510					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						AACTTGAGAAGAGTCTTTCTG	0.418													10	83					0	0	1	0	0		A	20493484	A	A	20493484	3	1	27	1	0	0	0	0	1	0	0	0	13039	942	33	4	1124	4	RALGAPA2	20	20493484	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	100765	20493484	42532036	7814	30165											
RALGAPA2	57186	broad.mit.edu	37	chr20	20501735	20501735	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgagccacacacacagcAgtgcaaaacctgtgaaaaca	16	5	8	12	0	0	2	0	2	0	0	0	2	0	2	2	0	5	3	2	0	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:20501735A>G	uc002wrz.2	-	31	4053	c.3910T>C	c.(3910-3912)TGC>CGC	p.C1304R	RALGAPA2_uc010gcx.2_Missense_Mutation_p.C1008R|RALGAPA2_uc010zsg.1_Missense_Mutation_p.C752R|RALGAPA2_uc002wsa.1_Missense_Mutation_p.C76R	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1304					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CACACACAGCAGTGCAAAACC	0.542													4	95					0	0	1	0	0		G	20501735	G	G	20501735	3	3	27	1	0	0	0	0	1	0	0	0	13039	188	7	3	1747	3	RALGAPA2	20	20501735	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8251	20501735	42523785	7815	30166											
XRN2	22803	broad.mit.edu	37	chr20	21314803	21314803	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagttgaggatagcatttttAaaaagagaaaggatgatgag	18	10	12	1	0	0	4	0	3	0	1	0	7	0	6	0	2	1	2	0	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:21314803A>T	uc002wsf.1	+	13	1308	c.1213A>T	c.(1213-1215)AAA>TAA	p.K405*	XRN2_uc002wsg.1_Nonsense_Mutation_p.K329*|XRN2_uc010zsk.1_Nonsense_Mutation_p.K351*	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	405					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						TAGCATTTTTAAAAAGAGAAA	0.358													4	44					0	0	1	0	0		T	21314803	T	T	21314803	4	4	27	1	0	0	0	0	0	1	0	0	17486	363	13	5	1263	5	XRN2	20	21314803	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	813068	21314803	41710717	7816	30167											
XRN2	22803	broad.mit.edu	37	chr20	21367535	21367535	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgaacctctgctcccatGgaaccggatgctgcaaaccc	9	7	10	15	1	1	1	0	1	1	0	2	3	2	3	4	3	6	4	4	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:21367535G>T	uc002wsf.1	+	29	2773	c.2678G>T	c.(2677-2679)TGG>TTG	p.W893L	XRN2_uc002wsg.1_Missense_Mutation_p.W817L|XRN2_uc010zsk.1_Missense_Mutation_p.W839L|XRN2_uc002wsh.1_Missense_Mutation_p.W31L	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	893					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						CTGCTCCCATGGAACCGGATG	0.527													14	131					4.93089e-13	5.49462e-13	1	1	0		T	21367535	T	T	21367535	3	4	27	1	0	0	0	0	1	0	0	0	17486	1357	47	5	2792	5	XRN2	20	21367535	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	52732	21367535	41657985	7817	30168											
NKX2-2	4821	broad.mit.edu	37	chr20	21494135	21494135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggttcttcaggggcaggCtctgcaccgcgtccagggcg	5	7	17	12	3	3	0	1	0	2	0	4	0	4	0	2	6	1	4	2	6	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:21494135C>T	uc002wsi.2	-	1	530	c.173G>A	c.(172-174)AGC>AAC	p.S58N		NM_002509	NP_002500	O95096	NKX22_HUMAN	NK2 transcription factor related, locus 2	58					brain development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	chromatin binding|core promoter proximal region DNA binding|transcription coactivator activity			pancreas(1)|skin(1)	2						CAGGGGCAGGCTCTGCACCGC	0.677													3	30					0	0	1	0	0		T	21494135	T	T	21494135	3	4	27	1	0	0	0	0	1	0	0	0	10469	797	28	2	656	2	NKX2-2	20	21494135	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	126600	21494135	41531385	7818	30169											
PAX1	5075	broad.mit.edu	37	chr20	21687524	21687524	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccgccgtcgcagcctacGctgccctacaaccacatcta	9	6	7	19	4	1	0	0	0	1	0	2	0	1	0	5	0	6	2	5	0	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:21687524G>A	uc002wsj.2	+	2	789	c.735G>A	c.(733-735)ACG>ACA	p.T245T	PAX1_uc010zsl.1_Silent_p.T245T|PAX1_uc010zsm.1_Silent_p.T221T	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	245					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						CGCAGCCTACGCTGCCCTACA	0.692													13	38					0	0	1	0	0		A	21687524	A	A	21687524	2	1	27	1	0	0	0	0	0	0	0	1	11497	1074	38	1		1	PAX1	20	21687524	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	193389	21687524	41337996	7819	30170											
FOXA2	3170	broad.mit.edu	37	chr20	22563705	22563705	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcatgttgcccgagccgcTgcccatggcggccgccgaca	5	6	13	17	5	1	0	1	0	0	0	1	2	1	0	5	2	3	3	5	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:22563705T>C	uc002wsn.2	-	3	347	c.157A>G	c.(157-159)AGC>GGC	p.S53G	FOXA2_uc002wsm.2_Missense_Mutation_p.S59G	NM_153675	NP_710141	Q9Y261	FOXA2_HUMAN	forkhead box A2 isoform 2	53	Transactivation domain 1 (By similarity).				cell differentiation in hindbrain|central nervous system myelin formation|chromatin modification|dorsal/ventral neural tube patterning|ectoderm formation|endocrine pancreas development|endoderm development|epithelial tube branching involved in lung morphogenesis|in utero embryonic development|lung epithelial cell differentiation|negative regulation of neuron differentiation|neuron fate specification|oligodendrocyte cell fate commitment|positive regulation of embryonic development|positive regulation of gastrulation|positive regulation of neuron differentiation|primitive streak formation|regulation of blood coagulation|regulation of sequence-specific DNA binding transcription factor activity|response to interleukin-6	cytoplasm|transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|kidney(1)|central_nervous_system(1)	4	Lung NSC(19;0.188)					CCCGAGCCGCTGCCCATGGCG	0.682													12	86					0	0	1	0	0		C	22563705	C	C	22563705	3	2	27	1	0	0	0	0	1	0	0	0	6004	1580	55	3	1220	3	FOXA2	20	22563705	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	876181	22563705	40461815	7820	30171											
SSTR4	6754	broad.mit.edu	37	chr20	23016554	23016554	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgctcagcgtggaccgctAcgtggccgtggtgcaccctc	4	8	14	15	5	1	0	1	0	0	0	2	1	1	1	3	3	4	3	3	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:23016554A>G	uc002wsr.2	+	1	498	c.434A>G	c.(433-435)TAC>TGC	p.Y145C		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	145	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GTGGACCGCTACGTGGCCGTG	0.677													5	79					0	0	1	0	0		G	23016554	G	G	23016554	3	3	27	1	0	0	0	0	1	0	0	0	15225	391	14	3	436	3	SSTR4	20	23016554	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	452849	23016554	40008966	7821	30172											
THBD	7056	broad.mit.edu	37	chr20	23028480	23028480	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctccttggaaggggccgcGcacttgtactccatcttggc	6	10	11	14	2	1	0	0	0	1	0	3	1	3	1	4	4	1	2	4	4	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:23028480G>A	uc002wss.2	-	1	1822	c.1662C>T	c.(1660-1662)TGC>TGT	p.C554C	THBD_uc002wst.1_RNA	NM_000361	NP_000352	P07204	TRBM_HUMAN	thrombomodulin precursor	554	Cytoplasmic (Potential).				blood coagulation|leukocyte migration|negative regulation of fibrinolysis|negative regulation of platelet activation	cell surface|integral to plasma membrane	calcium ion binding|protein binding|transmembrane receptor activity				0	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)				Drotrecogin alfa(DB00055)	AAGGGGCCGCGCACTTGTACT	0.682													3	11					0	0	1	0	0		A	23028480	A	A	23028480	2	1	27	1	0	0	0	0	0	0	0	1	15877	1079	38	1		1	THBD	20	23028480	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	11926	23028480	39997040	7822	30173											
GZF1	64412	broad.mit.edu	37	chr20	23346229	23346229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaggtgcatgagggcggCggcgagcggcaccgctgcgg	5	4	20	12	6	0	1	0	1	0	0	0	2	0	1	1	6	4	4	1	6	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:23346229C>T	uc010gdb.2	+	3	1383	c.1209C>T	c.(1207-1209)GGC>GGT	p.G403G	GZF1_uc002wsy.2_Silent_p.G403G|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Silent_p.G403G	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	403					transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					ATGAGGGCGGCGGCGAGCGGC	0.672													6	85					0	0	1	0	0		T	23346229	T	T	23346229	2	4	27	1	0	0	0	0	0	0	0	1	6930	755	27	1		1	GZF1	20	23346229	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	317749	23346229	39679291	7823	30174											
CST8	10047	broad.mit.edu	37	chr20	23473618	23473618	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaatcttctggaatacctTattgatgtagaaattgcccg	13	13	7	8	1	2	2	0	1	2	1	2	3	2	3	2	1	2	1	2	1	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:23473618T>C	uc002wth.1	+	3	612	c.255T>C	c.(253-255)CTT>CTC	p.L85L		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	85						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					TGGAATACCTTATTGATGTAG	0.343													20	187					0	0	1	0	0		C	23473618	C	C	23473618	2	2	27	1	0	0	0	0	0	0	0	1	3981	1741	61	3		3	CST8	20	23473618	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	127389	23473618	39551902	7824	30175											
CST7	8530	broad.mit.edu	37	chr20	24930101	24930101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctgagaaggcactgcacgGccacccccaactgccccgca	9	3	10	19	2	0	1	0	1	0	1	0	2	0	1	6	2	3	3	6	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:24930101G>A	uc002wtx.1	+	1	236	c.26G>A	c.(25-27)GGC>GAC	p.G9D		NM_003650	NP_003641	O76096	CYTF_HUMAN	cystatin F	Error:Variant_position_missing_in_O76096_after_alignment					immune response	cytoplasm|extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1						GCACTGCACGGCCACCCCCAA	0.677													13	61					0	0	1	0	0		A	24930101	A	A	24930101	3	1	27	1	0	0	0	0	1	0	0	0	3980	1218	42	2		2	CST7	20	24930101	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1456483	24930101	38095419	7825	30176											
PYGB	5834	broad.mit.edu	37	chr20	25252028	25252028	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattttttcagcgtgtttccTtgactcaatggctaccttgg	6	17	9	9	1	2	1	2	1	0	0	3	2	3	1	2	2	2	2	2	2	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:25252028T>A	uc002wup.2	+	4	543	c.434T>A	c.(433-435)CTT>CAT	p.L145H		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	145					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	GCGTGTTTCCTTGACTCAATG	0.502													5	177					0	0	1	0	0		A	25252028	A	A	25252028	3	1	27	1	0	0	0	0	1	0	0	0	12885	1609	56	5	448	5	PYGB	20	25252028	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	321927	25252028	37773492	7826	30177											
PYGB	5834	broad.mit.edu	37	chr20	25259027	25259027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgctccaggacatcatcCgccgcttcaagtcgtccaag	9	7	8	17	4	2	0	2	0	0	0	6	1	5	1	5	1	0	2	5	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:25259027C>T	uc002wup.2	+	8	1037	c.928C>T	c.(928-930)CGC>TGC	p.R310C		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	310					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	GGACATCATCCGCCGCTTCAA	0.607													9	51					0	0	1	0	0		T	25259027	T	T	25259027	3	4	27	1	0	0	0	0	1	0	0	0	12885	652	23	1	958	1	PYGB	20	25259027	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6999	25259027	37766493	7827	30178											
ABHD12	26090	broad.mit.edu	37	chr20	25319884	25319884	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaattcaagaaaatcagttTggcctgtattccaggacata	15	11	8	7	0	2	1	2	0	0	1	3	3	3	2	2	2	0	2	2	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:25319884T>C	uc002wus.1	-	2	433	c.295A>G	c.(295-297)AAA>GAA	p.K99E	ABHD12_uc002wuq.2_Missense_Mutation_p.K99E|ABHD12_uc002wur.2_Missense_Mutation_p.K99E|ABHD12_uc002wut.1_Missense_Mutation_p.K99E|ABHD12_uc002wuu.1_5'UTR	NM_001042472	NP_001035937	Q8N2K0	ABD12_HUMAN	abhydrolase domain containing 12 isoform a	99	Extracellular (Potential).					integral to membrane	acylglycerol lipase activity			skin(1)	1						AAAATCAGTTTGGCCTGTATT	0.398													10	52					0	0	1	0	0		C	25319884	C	C	25319884	3	2	27	1	0	0	0	0	1	0	0	0	76	1821	63	3	1011	3	ABHD12	20	25319884	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	60857	25319884	37705636	7828	30179											
GINS1	9837	broad.mit.edu	37	chr20	25405924	25405924	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagatgaaggtttggacatTacacaggatatgaaaccacc	15	8	11	7	0	0	3	0	2	0	1	0	6	0	5	2	4	2	1	2	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:25405924T>C	uc002wuv.1	+	5	542	c.408T>C	c.(406-408)ATT>ATC	p.I136I	GINS1_uc010zte.1_RNA	NM_021067	NP_066545	Q14691	PSF1_HUMAN	GINS complex subunit 1	136					DNA strand elongation involved in DNA replication|S phase of mitotic cell cycle	cytoplasm|nucleoplasm				ovary(1)|central_nervous_system(1)	2						GTTTGGACATTACACAGGATA	0.313													9	61					0	0	1	0	0		C	25405924	C	C	25405924	2	2	27	1	0	0	0	0	0	0	0	1	6402	1742	61	3		3	GINS1	20	25405924	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	86040	25405924	37619596	7829	30180											
NINL	22981	broad.mit.edu	37	chr20	25456724	25456724	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctccagagcccggacgAcgtcttccagatgtagaagt	9	10	11	11	3	2	3	0	0	2	3	4	5	3	4	3	1	1	2	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:25456724A>G	uc002wux.1	-	17	3277	c.3203T>C	c.(3202-3204)GTC>GCC	p.V1068A	NINL_uc010gdn.1_Intron	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1068	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						AGCCCGGACGACGTCTTCCAG	0.463													13	103					0	0	1	0	0		G	25456724	G	G	25456724	3	3	27	1	0	0	0	0	1	0	0	0	10439	275	10	3	977	3	NINL	20	25456724	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	50800	25456724	37568796	7830	30181											
NINL	22981	broad.mit.edu	37	chr20	25459717	25459717	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctgagacttctcgtggagCtcctccaggtcggccttctg	4	12	11	14	2	2	1	0	1	2	1	7	3	5	2	4	3	1	1	4	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:25459717C>A	uc002wux.1	-	16	2117	c.2043G>T	c.(2041-2043)GAG>GAT	p.E681D	NINL_uc010gdn.1_Missense_Mutation_p.E681D|NINL_uc010gdo.1_Missense_Mutation_p.E464D	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	681	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						TCTCGTGGAGCTCCTCCAGGT	0.647													5	94					0.014758	0.0150623	1	1	0		A	25459717	A	A	25459717	3	1	27	1	0	0	0	0	1	0	0	0	10439	796	28	5	2141	5	NINL	20	25459717	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2993	25459717	37565803	7831	30182											
ZNF337	26152	broad.mit.edu	37	chr20	25656610	25656610	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gacttctgaataaatccttgCccacattctctacaaacaaa	15	11	3	12	0	2	1	0	1	2	0	4	2	3	1	2	0	3	0	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:25656610C>A	uc002wva.2	-	4	1836	c.1314G>T	c.(1312-1314)GGG>GGT	p.G438G	uc002wuz.2_RNA|ZNF337_uc010ztg.1_Silent_p.G406G|ZNF337_uc002wvb.2_Silent_p.G438G|ZNF337_uc002wvc.2_Silent_p.G438G	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	438	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TAAATCCTTGCCCACATTCTC	0.448													4	85					0.00909568	0.0093211	1	1	0		A	25656610	A	A	25656610	2	1	27	1	0	0	0	0	0	0	0	1	17878	726	26	5		5	ZNF337	20	25656610	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	196893	25656610	37368910	7832	30183											
HM13	81502	broad.mit.edu	37	chr20	30115329	30115329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcaccagccgggatgccGcccgcttccccatcatcgcc	7	6	8	20	4	2	0	2	0	0	0	4	1	3	1	7	1	2	1	7	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:30115329G>A	uc002wwe.2	+	2	340	c.226G>A	c.(226-228)GCC>ACC	p.A76T	HM13_uc002wwc.2_Missense_Mutation_p.A76T|HM13_uc002wwd.2_Missense_Mutation_p.A76T|HM13_uc002wwb.1_Missense_Mutation_p.A76T	NM_030789	NP_110416	Q8TCT9	HM13_HUMAN	minor histocompatibility antigen 13 isoform 1	76	Cytoplasmic (Potential).				membrane protein proteolysis	cell surface|endoplasmic reticulum membrane|integral to membrane|plasma membrane	aspartic-type endopeptidase activity|protein binding			breast(1)	1	all_cancers(5;3.44e-05)|Lung NSC(7;4.38e-06)|all_lung(7;7.65e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		all cancers(5;0.000479)|Colorectal(19;0.00202)|COAD - Colon adenocarcinoma(19;0.0264)			CCGGGATGCCGCCCGCTTCCC	0.493													15	126					0	0	1	0	0		A	30115329	A	A	30115329	3	1	27	1	0	0	0	0	1	0	0	0	7233	1087	38	1	232	1	HM13	20	30115329	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4458719	30115329	32910191	7833	30184											
COX4I2	84701	broad.mit.edu	37	chr20	30231252	30231252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttgcggagatgaaccgtcGctccaatgagtggaagacag	11	8	13	9	3	0	4	0	2	0	2	2	6	1	5	2	2	2	1	2	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:30231252G>A	uc002wwj.1	+	4	368	c.293G>A	c.(292-294)CGC>CAC	p.R98H	COX4I2_uc002wwi.2_Missense_Mutation_p.R98H	NM_032609	NP_115998	Q96KJ9	COX42_HUMAN	cytochrome c oxidase subunit IV isoform 2	98					cellular respiration		cytochrome-c oxidase activity			ovary(1)	1	all_cancers(5;7.12e-06)|Lung NSC(7;3.95e-06)|all_epithelial(3;4.36e-06)|all_lung(7;6.68e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Epithelial(4;1.01e-05)|all cancers(5;9.46e-05)|OV - Ovarian serous cystadenocarcinoma(3;0.00121)|Colorectal(19;0.0055)|COAD - Colon adenocarcinoma(19;0.0264)			ATGAACCGTCGCTCCAATGAG	0.552													33	61					0	0	1	0	0		A	30231252	A	A	30231252	3	1	27	1	0	0	0	0	1	0	0	0	3773	1087	38	1	303	1	COX4I2	20	30231252	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	115923	30231252	32794268	7834	30185											
COX4I2	84701	broad.mit.edu	37	chr20	30231301	30231301	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtcttcttcttcattggAttcgcagctctggtgatttg	4	19	10	8	1	5	1	1	1	4	0	6	2	5	2	0	2	1	2	0	2	0	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:30231301A>T	uc002wwj.1	+	4	417	c.342A>T	c.(340-342)GGA>GGT	p.G114G	COX4I2_uc002wwi.2_Silent_p.G114G	NM_032609	NP_115998	Q96KJ9	COX42_HUMAN	cytochrome c oxidase subunit IV isoform 2	114					cellular respiration		cytochrome-c oxidase activity			ovary(1)	1	all_cancers(5;7.12e-06)|Lung NSC(7;3.95e-06)|all_epithelial(3;4.36e-06)|all_lung(7;6.68e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Epithelial(4;1.01e-05)|all cancers(5;9.46e-05)|OV - Ovarian serous cystadenocarcinoma(3;0.00121)|Colorectal(19;0.0055)|COAD - Colon adenocarcinoma(19;0.0264)			TCTTCATTGGATTCGCAGCTC	0.562													4	57					0	0	1	0	0		T	30231301	T	T	30231301	2	4	27	1	0	0	0	0	0	0	0	1	3773	320	12	5		5	COX4I2	20	30231301	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	49	30231301	32794219	7835	30186											
TTLL9	164395	broad.mit.edu	37	chr20	30486365	30486365	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaggatgggtggaagtgaAggagtaagaccctcccccca	11	5	14	11	0	0	2	0	1	0	1	1	5	1	5	5	4	0	1	5	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:30486365A>C	uc010gdx.1	+	4	456	c.203A>C	c.(202-204)AAG>ACG	p.K68T	TTLL9_uc002wwy.1_RNA|TTLL9_uc002wwz.1_RNA|TTLL9_uc002wxa.1_RNA|TTLL9_uc002wxb.1_RNA|TTLL9_uc010zto.1_RNA|TTLL9_uc002wxc.2_Missense_Mutation_p.E77D|TTLL9_uc010ztp.1_RNA	NM_001008409	NP_001008409	Q3SXZ7	TTLL9_HUMAN	tubulin tyrosine ligase-like family, member 9	68	TTL.				protein modification process	cilium|microtubule|microtubule basal body	ATP binding|tubulin-tyrosine ligase activity			ovary(2)	2			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			GTGGAAGTGAAGGAGTAAGAC	0.562													7	45					0	0	1	0	0		C	30486365	C	C	30486365	3	2	27	1	0	0	0	0	1	0	0	0	16760	72	3	5	213	5	TTLL9	20	30486365	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	255064	30486365	32539155	7836	30187											
XKR7	343702	broad.mit.edu	37	chr20	30556122	30556122	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtcggggcgggcggcccGgggccgcgctacgagctgcg	2	4	21	14	9	0	0	0	0	0	0	2	1	0	0	2	6	3	2	2	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:30556122G>A	uc002wxe.2	+	1	318	c.144G>A	c.(142-144)CCG>CCA	p.P48P		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	48						integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			cgggcggcccggggccgcgcT	0.443													6	9					0	0	1	0	0		A	30556122	A	A	30556122	2	1	27	1	0	0	0	0	0	0	0	1	17462	1103	39	1		1	XKR7	20	30556122	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	69757	30556122	32469398	7837	30188											
XKR7	343702	broad.mit.edu	37	chr20	30584555	30584555	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaccttctgggtcatccaAggggagacggacttctgcat	9	10	12	10	1	3	2	1	1	2	1	4	4	4	3	2	4	1	1	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:30584555A>G	uc002wxe.2	+	3	1209	c.1035A>G	c.(1033-1035)CAA>CAG	p.Q345Q		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	345						integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			GGGTCATCCAAGGGGAGACGG	0.567													8	45					0	0	1	0	0		G	30584555	G	G	30584555	2	3	27	1	0	0	0	0	0	0	0	1	17462	69	3	3		3	XKR7	20	30584555	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	28433	30584555	32440965	7838	30189											
XKR7	343702	broad.mit.edu	37	chr20	30585102	30585102	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgtcatccggattgacttgCctcgcaagaagtacccggcc	8	9	10	14	3	1	2	1	1	0	1	3	3	2	3	4	2	2	2	4	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:30585102C>T	uc002wxe.2	+	3	1756	c.1582C>T	c.(1582-1584)CCT>TCT	p.P528S		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	528						integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			GATTGACTTGCCTCGCAAGAA	0.642													8	91					0	0	1	0	0		T	30585102	T	T	30585102	3	4	27	1	0	0	0	0	1	0	0	0	17462	739	26	2	1592	2	XKR7	20	30585102	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	547	30585102	32440418	7839	30190											
C20orf160	140706	broad.mit.edu	37	chr20	30610484	30610484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgctgcagaggagtcctgcGcactcatctgtcaggtcttc	7	10	11	13	2	4	1	2	0	2	1	6	2	5	2	1	2	2	3	1	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:30610484G>A	uc002wxf.2	+	6	968	c.955G>A	c.(955-957)GCA>ACA	p.A319T	C20orf160_uc002wxg.2_5'UTR	NM_080625	NP_542192	Q9NUG4	CT160_HUMAN	hypothetical protein LOC140706	319										central_nervous_system(3)|ovary(1)	4						GGAGTCCTGCGCACTCATCTG	0.562													21	102					0	0	1	0	0		A	30610484	A	A	30610484	3	1	27	1	0	0	0	0	1	0	0	0	2096	1087	38	1	977	1	C20orf160	20	30610484	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	25382	30610484	32415036	7840	30191											
ASXL1	171023	broad.mit.edu	37	chr20	31024914	31024914	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccacctttcccaaaggcCttgctggaagtgtggtgcag	7	10	11	13	0	0	0	0	0	0	0	2	1	2	1	4	3	2	2	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:31024914C>A	uc002wxs.2	+	12	4825	c.4399C>A	c.(4399-4401)CTT>ATT	p.L1467I	ASXL1_uc010geb.2_Missense_Mutation_p.L1358I	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	1467					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						TCCCAAAGGCCTTGCTGGAAG	0.488			F|N|Mis		MDS|CMML								5	57					0.000602214	0.000630257	1	1	0		A	31024914	A	A	31024914	3	1	27	1	0	0	0	0	1	0	0	0	1067	681	24	5	4455	5	ASXL1	20	31024914	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	414430	31024914	32000606	7841	30192											
C20orf112	140688	broad.mit.edu	37	chr20	31041214	31041214	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccggctgcaggactcgaTgatggcctggatcttctcct	5	11	12	13	2	2	1	0	1	2	0	4	4	2	3	3	4	2	2	3	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:31041214T>C	uc002wxu.3	-	5	815	c.658A>G	c.(658-660)ATC>GTC	p.I220V	C20orf112_uc010gec.2_Missense_Mutation_p.I45V	NM_080616	NP_542183	Q96MY1	CT112_HUMAN	hypothetical protein LOC140688	220											0						CAGGACTCGATGATGGCCTGG	0.602													5	66					0	0	1	0	0		C	31041214	C	C	31041214	3	2	27	1	0	0	0	0	1	0	0	0	2084	1464	51	3	668	3	C20orf112	20	31041214	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	16300	31041214	31984306	7842	30193											
C20orf186	149954	broad.mit.edu	37	chr20	31676772	31676772	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcctgctcctgtctccttagGcttctccccaatctcgtgga	4	14	7	16	1	3	0	0	0	3	0	8	1	5	1	5	2	1	2	5	2	2	2	rs149304342		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:31676772G>A	uc010zue.1	+	6	942	c.927G>A	c.(925-927)GGG>GGA	p.G309G		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	309						cytoplasm|extracellular region	lipid binding				0						GTCTCCTTAGGCTTCTCCCCA	0.577													15	160					0	0	1	0	0		A	31676772	A	A	31676772	2	1	27	1	0	0	0	0	0	0	0	1	2101	1217	42	2		2	C20orf186	20	31676772	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	635558	31676772	31348748	7843	30194											
PLUNC	51297	broad.mit.edu	37	chr20	31825664	31825664	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcccacaggtcttgcaggAagcttgacaaatggtgagtt	11	10	12	8	0	1	2	0	2	1	0	2	3	2	3	1	3	2	3	1	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:31825664A>G	uc002wyv.2	+	2	217	c.147A>G	c.(145-147)GGA>GGG	p.G49G	PLUNC_uc002wyt.3_Silent_p.G49G|PLUNC_uc002wyu.3_Silent_p.G49G	NM_130852	NP_570913	Q9NP55	PLUNC_HUMAN	palate, lung and nasal epithelium associated	49					innate immune response	extracellular region	lipid binding				0						GTCTTGCAGGAAGCTTGACAA	0.398													5	77					0	0	1	0	0		G	31825664	G	G	31825664	2	3	27	1	0	0	0	0	0	0	0	1	12134	233	9	3		3	PLUNC	20	31825664	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	148892	31825664	31199856	7844	30195											
PLUNC	51297	broad.mit.edu	37	chr20	31825986	31825986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggactgcttggaaaagtgAcgtcagtgattcctggcctg	8	10	15	8	1	1	2	1	2	0	0	2	4	2	4	2	4	1	1	2	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:31825986A>G	uc002wyv.2	+	3	356	c.286A>G	c.(286-288)ACG>GCG	p.T96A	PLUNC_uc002wyt.3_Missense_Mutation_p.T96A|PLUNC_uc002wyu.3_Missense_Mutation_p.T96A	NM_130852	NP_570913	Q9NP55	PLUNC_HUMAN	palate, lung and nasal epithelium associated	96					innate immune response	extracellular region	lipid binding				0						TGGAAAAGTGACGTCAGTGAT	0.542													9	92					0	0	1	0	0		G	31825986	G	G	31825986	3	3	27	1	0	0	0	0	1	0	0	0	12134	275	10	3	292	3	PLUNC	20	31825986	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	322	31825986	31199534	7845	30196											
CDK5RAP1	51654	broad.mit.edu	37	chr20	31982904	31982904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cattcacattcatctggcagCcataggtctcgaggtagact	10	11	9	11	1	4	1	2	0	2	1	5	2	4	1	1	3	1	2	1	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:31982904C>T	uc010gek.2	-	3	447	c.323G>A	c.(322-324)GGC>GAC	p.G108D	CDK5RAP1_uc002wyy.2_Missense_Mutation_p.G18D|CDK5RAP1_uc002wyz.2_Missense_Mutation_p.G108D|CDK5RAP1_uc002wza.2_Missense_Mutation_p.G108D|CDK5RAP1_uc010gel.2_Missense_Mutation_p.G17D|CDK5RAP1_uc010gem.2_Missense_Mutation_p.G108D|CDK5RAP1_uc002wzc.1_Missense_Mutation_p.G108D|CDK5RAP1_uc010gen.2_Missense_Mutation_p.G108D	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	108	MTTase N-terminal.|CDK5 activation inhibition.				brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5						CATCTGGCAGCCATAGGTCTC	0.507													38	85					0	0	1	0	0		T	31982904	T	T	31982904	3	4	27	1	0	0	0	0	1	0	0	0	3148	739	26	2	1488	2	CDK5RAP1	20	31982904	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	156918	31982904	31042616	7846	30197											
NECAB3	63941	broad.mit.edu	37	chr20	32258498	32258498	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatactcactcggtgagAtgcccatcaatgccgctgaa	10	10	8	13	2	3	2	3	2	1	1	5	3	3	2	2	1	3	1	2	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:32258498A>G	uc002wzn.3	-	3	361	c.255T>C	c.(253-255)CAT>CAC	p.H85H	NECAB3_uc002wzm.3_Silent_p.H85H|NECAB3_uc002wzo.3_RNA|NECAB3_uc002wzp.3_Silent_p.H36H|NECAB3_uc002wzq.3_Silent_p.H85H|NECAB3_uc002wzr.3_RNA|NECAB3_uc010geo.2_Silent_p.H85H	NM_031232	NP_112509	Q96P71	NECA3_HUMAN	N-terminal EF-hand calcium binding protein 3	85					antibiotic biosynthetic process|protein metabolic process|protein secretion|regulation of amyloid precursor protein biosynthetic process	endoplasmic reticulum membrane|Golgi cis cisterna|nucleus	calcium ion binding|oxidoreductase activity|protein binding			lung(1)	1						ACTCGGTGAGATGCCCATCAA	0.542													5	43					0	0	1	0	0		G	32258498	G	G	32258498	2	3	27	1	0	0	0	0	0	0	0	1	10325	330	12	3		3	NECAB3	20	32258498	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	275594	32258498	30767022	7847	30198											
RALY	22913	broad.mit.edu	37	chr20	32660018	32660018	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accatcttctctaagtatggCcgtgtggccggctgttctgt	5	14	11	11	2	3	0	0	0	3	0	4	0	3	0	3	3	0	3	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:32660018C>A	uc002xab.2	+	3	436	c.138C>A	c.(136-138)GGC>GGA	p.G46G	RALY_uc010zui.1_Silent_p.G46G|RALY_uc002xac.2_Silent_p.G46G|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Silent_p.G46G	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	46	RRM.					catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1						CTAAGTATGGCCGTGTGGCCG	0.537													9	108					1.12685e-05	1.21022e-05	1	1	0		A	32660018	A	A	32660018	2	1	27	1	0	0	0	0	0	0	0	1	13044	726	26	5		5	RALY	20	32660018	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	401520	32660018	30365502	7848	30199											
ASIP	434	broad.mit.edu	37	chr20	32848253	32848253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcactgccaacagccacctgCcacctgaggagaagctccga	11	5	9	16	1	1	2	1	1	0	1	2	4	2	2	6	1	5	1	6	1	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:32848253C>T	uc002xah.1	+	1	83	c.73C>T	c.(73-75)CCA>TCA	p.P25S		NM_001672	NP_001663	P42127	ASIP_HUMAN	agouti signaling protein precursor	25					cell-cell signaling|generation of precursor metabolites and energy|hormone-mediated signaling pathway	extracellular space				central_nervous_system(1)	1						CAGCCACCTGCCACCTGAGGA	0.562													14	127					0	0	1	0	0		T	32848253	T	T	32848253	3	4	27	1	0	0	0	0	1	0	0	0	1044	739	26	2	75	2	ASIP	20	32848253	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	188235	32848253	30177267	7849	30200											
ITCH	83737	broad.mit.edu	37	chr20	33026406	33026406	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagacctccaagaccttcaCgaccaccaccacccacccca	12	4	3	22	1	1	2	1	0	0	2	2	3	2	2	9	0	0	0	9	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:33026406C>T	uc010geu.1	+	9	964	c.772C>T	c.(772-774)CGA>TGA	p.R258*	ITCH_uc002xak.2_Nonsense_Mutation_p.R217*|ITCH_uc010zuj.1_Nonsense_Mutation_p.R107*	NM_031483	NP_113671	Q96J02	ITCH_HUMAN	itchy homolog E3 ubiquitin protein ligase	258	Arg/Pro-rich (PRR domain).				apoptosis|entry of virus into host cell|inflammatory response|innate immune response|negative regulation of apoptosis|negative regulation of defense response to virus|negative regulation of JNK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cell growth|regulation of protein deubiquitination|response to virus	cytosol|nucleus|plasma membrane	CXCR chemokine receptor binding|ribonucleoprotein binding|ubiquitin-protein ligase activity			breast(4)|lung(1)|central_nervous_system(1)	6						AAGACCTTCACGACCACCACC	0.458													8	84					0	0	1	0	0		T	33026406	T	T	33026406	4	4	27	1	0	0	0	0	0	1	0	0	7884	528	19	1	671	1	ITCH	20	33026406	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	178153	33026406	29999114	7850	30201											
ITCH	83737	broad.mit.edu	37	chr20	33077191	33077191	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgatgcaaaggaattagaGgtaatgaattttccttcatt	13	16	8	4	0	1	3	1	2	0	1	2	4	2	4	1	2	1	2	1	2	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:33077191G>C	uc010geu.1	+	22	2529	c.2337G>C	c.(2335-2337)GAG>GAC	p.E779D	ITCH_uc002xak.2_Missense_Mutation_p.E738D|ITCH_uc010zuj.1_Missense_Mutation_p.E628D	NM_031483	NP_113671	Q96J02	ITCH_HUMAN	itchy homolog E3 ubiquitin protein ligase	779	HECT.				apoptosis|entry of virus into host cell|inflammatory response|innate immune response|negative regulation of apoptosis|negative regulation of defense response to virus|negative regulation of JNK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cell growth|regulation of protein deubiquitination|response to virus	cytosol|nucleus|plasma membrane	CXCR chemokine receptor binding|ribonucleoprotein binding|ubiquitin-protein ligase activity			breast(4)|lung(1)|central_nervous_system(1)	6						AGGAATTAGAGGTAATGAATT	0.363													11	85					0	0	1	0	0		C	33077191	C	C	33077191	3	2	27	1	0	0	0	0	1	0	0	0	7884	1014	35	5	2288	5	ITCH	20	33077191	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	50785	33077191	29948329	7851	30202											
PIGU	128869	broad.mit.edu	37	chr20	33222471	33222471	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggtgttgttgatggcacaGgtagacttggcaacacaaga	12	9	14	6	0	0	3	0	1	0	2	0	3	0	3	0	4	1	5	0	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:33222471G>T	uc002xas.2	-	6	677	c.477C>A	c.(475-477)ACC>ACA	p.T159T	PIGU_uc010zul.1_Silent_p.T159T|PIGU_uc002xat.2_Silent_p.T139T|PIGU_uc010gev.1_RNA	NM_080476	NP_536724	Q9H490	PIGU_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	159					attachment of GPI anchor to protein|C-terminal protein lipidation|regulation of JAK-STAT cascade	GPI-anchor transamidase complex|plasma membrane					0						TGATGGCACAGGTAGACTTGG	0.423													4	49					0.150653	0.151846	1	1	0		T	33222471	T	T	33222471	2	4	27	1	0	0	0	0	0	0	0	1	11919	987	35	5		5	PIGU	20	33222471	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	145280	33222471	29803049	7852	30203											
NCOA6	23054	broad.mit.edu	37	chr20	33328893	33328893	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgtctggatgtttggagCaggactactggagagggcat	9	10	15	7	0	1	1	0	0	1	1	1	5	1	4	1	5	2	3	1	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:33328893C>G	uc002xav.2	-	12	7738	c.5167G>C	c.(5167-5169)GCT>CCT	p.A1723P	NCOA6_uc002xaw.2_Missense_Mutation_p.A1723P	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1723	EP300/CRSP3-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						ATGTTTGGAGCAGGACTACTG	0.517													9	141					0	0	1	0	0		G	33328893	G	G	33328893	3	3	27	1	0	0	0	0	1	0	0	0	10252	710	25	5	1044	5	NCOA6	20	33328893	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	106422	33328893	29696627	7853	30204											
ACSS2	55902	broad.mit.edu	37	chr20	33509131	33509131	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcccattcccctgccccAggcatagccgggcatccttg	5	9	8	19	1	1	0	0	0	1	0	4	0	3	0	7	2	2	2	7	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:33509131A>G	uc002xbd.2	+	11	1399	c.1278_splice	c.e11-2	p.K426_splice	ACSS2_uc002xbc.2_Splice_Site_p.K331_splice|ACSS2_uc010zum.1_Intron|ACSS2_uc010gey.2_Splice_Site_p.K439_splice|ACSS2_uc002xbe.2_Splice_Site_p.K134_splice|ACSS2_uc002xbf.2_Intron	NM_018677	NP_061147	Q9NR19	ACSA_HUMAN	acyl-CoA synthetase short-chain family member 2						ethanol oxidation|lipid biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	acetate-CoA ligase activity|ATP binding|protein binding				0					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CCCCTGCCCCAGGCATAGCCG	0.582													10	91					0	0	1	0	0		G	33509131	G	G	33509131	5	3	27	1	0	0	0	0	0	0	1	0	189	202	7	3	1361	3	ACSS2	20	33509131	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	180238	33509131	29516389	7854	30205											
ACSS2	55902	broad.mit.edu	37	chr20	33514025	33514025	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatgcctctactgctttgTcaccttgtgtgatggccaca	7	14	9	11	0	2	2	1	2	1	0	2	2	2	2	3	1	3	1	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:33514025T>A	uc002xbd.2	+	16	1965	c.1844T>A	c.(1843-1845)GTC>GAC	p.V615D	ACSS2_uc002xbc.2_Missense_Mutation_p.V520D|ACSS2_uc010zum.1_RNA|ACSS2_uc010gey.2_Missense_Mutation_p.V628D|ACSS2_uc002xbe.2_Missense_Mutation_p.V323D|ACSS2_uc002xbf.2_Intron	NM_018677	NP_061147	Q9NR19	ACSA_HUMAN	acyl-CoA synthetase short-chain family member 2	615				V -> F (in Ref. 3; AAH12172).	ethanol oxidation|lipid biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	acetate-CoA ligase activity|ATP binding|protein binding				0					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TACTGCTTTGTCACCTTGTGT	0.572													8	68					0	0	1	0	0		A	33514025	A	A	33514025	3	1	27	1	0	0	0	0	1	0	0	0	189	1667	58	5	1949	5	ACSS2	20	33514025	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4894	33514025	29511495	7855	30206											
GSS	2937	broad.mit.edu	37	chr20	33517328	33517328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccatgaggatgtaggaggCcctctcctcactgtccttca	7	11	9	14	0	3	1	2	1	1	0	6	3	5	3	4	3	0	1	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:33517328C>T	uc002xbg.2	-	12	1257	c.1177G>A	c.(1177-1179)GCC>ACC	p.A393T	GSS_uc010zun.1_Missense_Mutation_p.A265T|GSS_uc010zuo.1_Missense_Mutation_p.A282T|GSS_uc010zup.1_Missense_Mutation_p.A324T|GSS_uc002xbh.2_RNA|GSS_uc010gez.1_Missense_Mutation_p.A123T	NM_000178	NP_000169	P48637	GSHB_HUMAN	glutathione synthetase	393					nervous system development|response to oxidative stress|xenobiotic metabolic process	cytosol	ATP binding|glutathione binding|glutathione synthase activity|magnesium ion binding|protein homodimerization activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(18;0.035)		Glutathione(DB00143)|Glycine(DB00145)|L-Cysteine(DB00151)	ATGTAGGAGGCCCTCTCCTCA	0.547													13	262					0	0	1	0	0		T	33517328	T	T	33517328	3	4	27	1	0	0	0	0	1	0	0	0	6845	739	26	2	255	2	GSS	20	33517328	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3303	33517328	29508192	7856	30207											
MYH7B	57644	broad.mit.edu	37	chr20	33581008	33581008	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggacttggatcacacccagTaccagtttggccacaccaag	11	8	9	13	0	1	0	1	0	0	0	1	2	1	2	4	3	1	2	4	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:33581008T>C	uc002xbi.1	+	23	2505	c.2413T>C	c.(2413-2415)TAC>CAC	p.Y805H		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	763	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			TCACACCCAGTACCAGTTTGG	0.607													4	50					0	0	1	0	0		C	33581008	C	C	33581008	3	2	27	1	0	0	0	0	1	0	0	0	10058	1638	57	3	2503	3	MYH7B	20	33581008	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	63680	33581008	29444512	7857	30208											
MYH7B	57644	broad.mit.edu	37	chr20	33582006	33582006	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcaatgccgtcaagaactgGtcatggatgaagctcttttt	10	14	9	8	1	4	2	3	1	1	1	4	3	4	3	1	2	3	1	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:33582006G>A	uc002xbi.1	+	25	2720	c.2628G>A	c.(2626-2628)TGG>TGA	p.W876*		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	834						membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			TCAAGAACTGGTCATGGATGA	0.622													12	135					0	0	1	0	0		A	33582006	A	A	33582006	4	1	27	1	0	0	0	0	0	1	0	0	10058	1270	44	4	2726	4	MYH7B	20	33582006	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	998	33582006	29443514	7858	30209											
EDEM2	55741	broad.mit.edu	37	chr20	33706412	33706412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacttactgttgcaaatcCgcactccaccttgctgattt	10	13	5	13	1	0	1	0	1	0	0	2	1	2	1	3	0	4	4	3	0	3	4	rs142171544		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:33706412C>T	uc002xbo.2	-	10	1325	c.1225G>A	c.(1225-1227)GGA>AGA	p.G409R	EDEM2_uc010zuv.1_Missense_Mutation_p.G368R|EDEM2_uc010zus.1_Missense_Mutation_p.G188R|EDEM2_uc002xbq.2_Missense_Mutation_p.G372R|EDEM2_uc010zut.1_Missense_Mutation_p.G368R|EDEM2_uc002xbp.2_Missense_Mutation_p.G257R|EDEM2_uc002xbn.2_Missense_Mutation_p.G257R|EDEM2_uc002xbr.2_RNA|EDEM2_uc010zuu.1_Missense_Mutation_p.G133R	NM_018217	NP_060687	Q9BV94	EDEM2_HUMAN	ER degradation enhancer, mannosidase alpha-like	409					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00936)			GTTGCAAATCCGCACTCCACC	0.507													8	50					0	0	1	0	0		T	33706412	T	T	33706412	3	4	27	1	0	0	0	0	1	0	0	0	4918	661	23	1	519	1	EDEM2	20	33706412	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	124406	33706412	29319108	7859	30210											
FAM83C	128876	broad.mit.edu	37	chr20	33879869	33879869	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcgcacatggctggtcatgTagtccacatccagggcgctc	7	8	12	14	3	1	0	1	0	0	0	4	0	3	0	2	3	0	4	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:33879869T>C	uc010zux.1	-	1	357	c.239A>G	c.(238-240)TAC>TGC	p.Y80C	FAM83C_uc002xcb.1_5'UTR	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	80										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			GCTGGTCATGTAGTCCACATC	0.697													5	39					0	0	1	0	0		C	33879869	C	C	33879869	3	2	27	1	0	0	0	0	1	0	0	0	5649	1638	57	3	2020	3	FAM83C	20	33879869	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	173457	33879869	29145651	7860	30211											
UQCC	55245	broad.mit.edu	37	chr20	33981905	33981905	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaatcttacctgggaagtgCgagacagagccctgtccccc	10	7	10	14	1	1	2	0	0	1	2	2	4	2	3	4	1	3	0	4	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:33981905C>T	uc002xcd.2	-	2	186	c.119G>A	c.(118-120)CGC>CAC	p.R40H	UQCC_uc010zuy.1_5'UTR|UQCC_uc010zuz.1_Intron|UQCC_uc010zva.1_Missense_Mutation_p.R40H|UQCC_uc002xce.2_Missense_Mutation_p.R40H|UQCC_uc002xcg.2_5'UTR|UQCC_uc010gfb.2_Missense_Mutation_p.R40H|UQCC_uc010zvb.1_Missense_Mutation_p.R40H|UQCC_uc002xcf.2_Silent_p.S20S|GDF5_uc010gfc.1_Intron|UQCC_uc002xci.1_5'UTR|UQCC_uc010gfd.1_Silent_p.S20S	NM_018244	NP_060714	Q9NVA1	UQCC_HUMAN	basic FGF-repressed Zic binding protein isoform	40						cytoplasmic membrane-bounded vesicle				breast(1)	1			BRCA - Breast invasive adenocarcinoma(18;0.00252)			CTGGGAAGTGCGAGACAGAGC	0.433													13	94					0	0	1	0	0		T	33981905	T	T	33981905	3	4	27	1	0	0	0	0	1	0	0	0	17041	768	27	1	816	1	UQCC	20	33981905	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	102036	33981905	29043615	7861	30212											
GDF5	8200	broad.mit.edu	37	chr20	34022040	34022040	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttaaggttcttgctgggTcgcttgccctggcgagtggc	3	12	15	11	2	1	0	0	0	1	0	2	1	1	0	2	4	2	3	2	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:34022040T>C	uc010gfc.1	-	2	1414	c.1173A>G	c.(1171-1173)CGA>CGG	p.R391R	uc002xcj.2_Missense_Mutation_p.S151P|GDF5_uc002xck.1_Silent_p.R391R|GDF5_uc010zvc.1_Silent_p.R391R	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	391					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			TCTTGCTGGGTCGCTTGCCCT	0.602													12	143					0	0	1	0	0		C	34022040	C	C	34022040	2	2	27	1	0	0	0	0	0	0	0	1	6331	1654	58	3		3	GDF5	20	34022040	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	40135	34022040	29003480	7862	30213											
ERGIC3	51614	broad.mit.edu	37	chr20	34143804	34143804	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatggtgttgtttacagAtcaacatgacccactacatc	11	12	8	10	0	1	2	1	1	0	1	2	3	1	3	1	2	3	2	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:34143804A>T	uc002xct.2	+	9	787	c.718A>T	c.(718-720)ATC>TTC	p.I240F	ERGIC3_uc010zvg.1_Missense_Mutation_p.I240F|ERGIC3_uc002xcs.2_Missense_Mutation_p.I245F|ERGIC3_uc002xcu.2_Missense_Mutation_p.I255F|ERGIC3_uc002xcv.2_Missense_Mutation_p.I203F	NM_015966	NP_057050	Q9Y282	ERGI3_HUMAN	serologically defined breast cancer antigen 84	240	Lumenal (Potential).				vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane	protein binding			large_intestine(2)|ovary(1)	3	Lung NSC(9;0.00489)|all_lung(11;0.00729)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			TTGTTTACAGATCAACATGAC	0.552													11	170					0	0	1	0	0		T	34143804	T	T	34143804	3	4	27	1	0	0	0	0	1	0	0	0	5233	347	12	5	771	5	ERGIC3	20	34143804	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	121764	34143804	28881716	7863	30214											
CPNE1	8904	broad.mit.edu	37	chr20	34220721	34220721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccataatccgcctcacctcaGcccagctgccccctcccaca	8	6	4	23	1	2	0	2	0	0	0	4	0	4	0	8	0	3	1	8	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:34220721G>A	uc002xdf.2	-	4	488	c.125C>T	c.(124-126)GCT>GTT	p.A42V	CPNE1_uc002xdc.2_5'Flank|CPNE1_uc010zvj.1_Missense_Mutation_p.A47V|CPNE1_uc002xde.2_Missense_Mutation_p.A42V|CPNE1_uc002xdg.2_Missense_Mutation_p.A42V|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Missense_Mutation_p.A42V|CPNE1_uc002xdi.2_Missense_Mutation_p.A42V|CPNE1_uc002xdj.2_Missense_Mutation_p.A42V|CPNE1_uc002xdk.2_Missense_Mutation_p.A42V|CPNE1_uc002xdl.2_Missense_Mutation_p.A42V|CPNE1_uc002xdm.2_Missense_Mutation_p.A42V|CPNE1_uc010gfk.1_Missense_Mutation_p.A42V|CPNE1_uc002xdn.1_Intron|CPNE1_uc002xdo.1_Intron|CPNE1_uc002xdp.1_RNA	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	42	C2 1.				lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			CCTCACCTCAGCCCAGCTGCC	0.557													6	91					0	0	1	0	0		A	34220721	A	A	34220721	3	1	27	1	0	0	0	0	1	0	0	0	3814	971	34	2	1548	2	CPNE1	20	34220721	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	76917	34220721	28804799	7864	30215											
RBM12	10137	broad.mit.edu	37	chr20	34241387	34241387	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctctcatatcttctagggTaactacatgaacaaaagctt	13	13	5	10	0	4	1	1	1	3	0	5	1	4	1	0	1	4	2	0	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:34241387T>C	uc002xdq.2	-	3	2090	c.1858A>G	c.(1858-1860)ACC>GCC	p.T620A	CPNE1_uc010zvj.1_Intron|CPNE1_uc002xde.2_Intron|CPNE1_uc002xdf.2_Intron|CPNE1_uc002xdg.2_Intron|CPNE1_uc010gfi.2_Intron|CPNE1_uc010gfj.2_Intron|CPNE1_uc002xdh.2_Intron|CPNE1_uc002xdi.2_Intron|CPNE1_uc002xdj.2_Intron|CPNE1_uc002xdk.2_Intron|CPNE1_uc002xdl.2_Intron|CPNE1_uc002xdm.2_Intron|CPNE1_uc010gfk.1_Intron|CPNE1_uc002xdn.1_Intron|CPNE1_uc002xdo.1_Intron|CPNE1_uc002xdp.1_Intron|RBM12_uc002xdr.2_Missense_Mutation_p.T620A|RBM12_uc002xds.2_Missense_Mutation_p.T620A	NM_152838	NP_690051	Q9NTZ6	RBM12_HUMAN	RNA binding motif protein 12	620						nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			TCTTCTAGGGTAACTACATGA	0.418													23	177					0	0	1	0	0		C	34241387	C	C	34241387	3	2	27	1	0	0	0	0	1	0	0	0	13138	1638	57	3	944	3	RBM12	20	34241387	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20666	34241387	28784133	7865	30216											
RBM12	10137	broad.mit.edu	37	chr20	34242789	34242789	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgttcctacgctggcTgtggaaaatgtctgtatgtt	7	14	13	7	1	1	0	0	0	1	0	2	2	2	2	1	3	2	6	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:34242789T>C	uc002xdq.2	-	3	688	c.456A>G	c.(454-456)ACA>ACG	p.T152T	CPNE1_uc010zvj.1_5'Flank|CPNE1_uc002xde.2_Intron|CPNE1_uc002xdf.2_Intron|CPNE1_uc002xdg.2_Intron|CPNE1_uc010gfi.2_Intron|CPNE1_uc010gfj.2_Intron|CPNE1_uc002xdh.2_Intron|CPNE1_uc002xdi.2_Intron|CPNE1_uc002xdj.2_Intron|CPNE1_uc002xdk.2_Intron|CPNE1_uc002xdl.2_Intron|CPNE1_uc002xdm.2_Intron|CPNE1_uc010gfk.1_Intron|CPNE1_uc002xdn.1_Intron|CPNE1_uc002xdo.1_Intron|CPNE1_uc002xdp.1_Intron|RBM12_uc002xdr.2_Silent_p.T152T|RBM12_uc002xds.2_Silent_p.T152T	NM_152838	NP_690051	Q9NTZ6	RBM12_HUMAN	RNA binding motif protein 12	152						nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			CTACGCTGGCTGTGGAAAATG	0.468													14	103					0	0	1	0	0		C	34242789	C	C	34242789	2	2	27	1	0	0	0	0	0	0	0	1	13138	1567	55	3		3	RBM12	20	34242789	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1402	34242789	28782731	7866	30217											
EPB41L1	2036	broad.mit.edu	37	chr20	34770226	34770226	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attttgccttcacagtcaagTtctacccgcctgatcctgcc	7	13	6	15	1	3	1	2	1	1	0	4	1	4	1	5	0	3	1	5	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:34770226T>G	uc002xfb.2	+	6	694	c.523T>G	c.(523-525)TTC>GTC	p.F175V	EPB41L1_uc002xeu.2_Missense_Mutation_p.F113V|EPB41L1_uc010zvo.1_Missense_Mutation_p.F175V|EPB41L1_uc002xev.2_Missense_Mutation_p.F175V|EPB41L1_uc002xew.2_Missense_Mutation_p.F78V|EPB41L1_uc002xex.2_Missense_Mutation_p.F144V|EPB41L1_uc002xey.2_Missense_Mutation_p.F175V|EPB41L1_uc002xez.2_Missense_Mutation_p.F113V	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	175	FERM.				cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					CACAGTCAAGTTCTACCCGCC	0.577													5	65					0	0	1	0	0		G	34770226	G	G	34770226	3	3	27	1	0	0	0	0	1	0	0	0	5160	1725	60	5	541	5	EPB41L1	20	34770226	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	527437	34770226	28255294	7867	30218											
DLGAP4	22839	broad.mit.edu	37	chr20	35071143	35071143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgcagatttttggacaggCctccctgatcccccagttgt	6	12	9	14	0	0	2	0	1	0	1	2	3	2	3	5	2	1	2	5	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:35071143C>T	uc002xff.2	+	6	1805	c.1370C>T	c.(1369-1371)GCC>GTC	p.A457V	DLGAP4_uc010zvp.1_Missense_Mutation_p.A457V	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	457					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				TTTGGACAGGCCTCCCTGATC	0.532													67	740					0	0	1	0	0		T	35071143	T	T	35071143	3	4	27	1	0	0	0	0	1	0	0	0	4568	739	26	2	1384	2	DLGAP4	20	35071143	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	300917	35071143	27954377	7868	30219											
DLGAP4	22839	broad.mit.edu	37	chr20	35125394	35125394	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgcagctctgaaaagtgaAcaagggacgctgaccagctc	13	6	11	11	1	1	3	0	3	1	0	2	4	1	4	1	1	4	4	1	1	4	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:35125394A>G	uc002xff.2	+	8	2370	c.1935A>G	c.(1933-1935)GAA>GAG	p.E645E	DLGAP4_uc010zvp.1_Silent_p.E645E|DLGAP4_uc002xfg.2_5'UTR|DLGAP4_uc002xfh.2_Silent_p.E106E|DLGAP4_uc002xfi.2_5'UTR|DLGAP4_uc002xfj.2_5'Flank	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	645					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				TGAAAAGTGAACAAGGGACGC	0.607													6	49					0	0	1	0	0		G	35125394	G	G	35125394	2	3	27	1	0	0	0	0	0	0	0	1	4568	40	2	3		3	DLGAP4	20	35125394	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	54251	35125394	27900126	7869	30220											
VSTM2L	128434	broad.mit.edu	37	chr20	36572479	36572479	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgagtgccgcgtcatcgacTtcagcgacggcaaggcccgg	8	5	14	14	7	2	0	2	0	0	0	3	3	2	0	2	3	2	1	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:36572479T>C	uc002xhk.3	+	4	693	c.439T>C	c.(439-441)TTC>CTC	p.F147L		NM_080607	NP_542174	Q96N03	VTM2L_HUMAN	V-set and transmembrane domain containing 2 like	147	Ig-like.									ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.00878)				CGTCATCGACTTCAGCGACGG	0.632													4	24					0	0	1	0	0		C	36572479	C	C	36572479	3	2	27	1	0	0	0	0	1	0	0	0	17256	1609	56	3	453	3	VSTM2L	20	36572479	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1447085	36572479	26453041	7870	30221											
KIAA0406	9675	broad.mit.edu	37	chr20	36641206	36641206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gactctcatcatttactagtCccactaaggccttcagaagg	11	11	7	12	0	3	1	3	0	1	1	5	2	4	1	2	2	1	0	2	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:36641206C>T	uc002xhl.2	-	3	1222	c.1013G>A	c.(1012-1014)GGA>GAA	p.G338E	KIAA0406_uc002xhm.2_Missense_Mutation_p.G338E	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	338							binding				0		Myeloproliferative disorder(115;0.00874)				ATTTACTAGTCCCACTAAGGC	0.463													9	150					0	0	1	0	0		T	36641206	T	T	36641206	3	4	27	1	0	0	0	0	1	0	0	0	8189	855	30	4	2284	4	KIAA0406	20	36641206	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	68727	36641206	26384314	7871	30222											
TGM2	7052	broad.mit.edu	37	chr20	36767989	36767989	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcaaagacaaagggcgcAtcgtacttggtgctcaggtc	10	8	12	11	3	1	1	1	0	0	1	4	1	2	1	1	3	2	4	1	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:36767989A>G	uc002xhr.2	-	9	1267	c.1167T>C	c.(1165-1167)GAT>GAC	p.D389D	TGM2_uc010zvx.1_Silent_p.D308D|TGM2_uc010zvy.1_Silent_p.D329D|TGM2_uc002xhs.1_Silent_p.D365D|TGM2_uc002xht.2_Silent_p.D389D	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	389					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)	CAAAGGGCGCATCGTACTTGG	0.577													11	45					0	0	1	0	0		G	36767989	G	G	36767989	2	3	27	1	0	0	0	0	0	0	0	1	15855	214	8	3		3	TGM2	20	36767989	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	126783	36767989	26257531	7872	30223											
KIAA1755	85449	broad.mit.edu	37	chr20	36869061	36869061	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagggcccattgtgctggAgtgaggctttctccggggtc	4	11	15	11	1	1	1	0	1	1	0	4	2	2	2	3	5	1	2	3	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:36869061A>T	uc002xhy.1	-	3	1744	c.1472T>A	c.(1471-1473)CTC>CAC	p.L491H	KIAA1755_uc002xhz.1_Missense_Mutation_p.L491H	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	491										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				ATTGTGCTGGAGTGAGGCTTT	0.557													9	66					0	0	1	0	0		T	36869061	T	T	36869061	3	4	27	1	0	0	0	0	1	0	0	0	8273	304	11	5	2178	5	KIAA1755	20	36869061	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	101072	36869061	26156459	7873	30224											
SLC32A1	140679	broad.mit.edu	37	chr20	37356555	37356555	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatatcctggtcatagcctActgtctatcgcgggcgcgcg	7	10	11	13	5	2	0	1	0	1	0	4	0	3	0	2	2	2	0	2	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:37356555A>G	uc002xjc.2	+	2	1114	c.851A>G	c.(850-852)TAC>TGC	p.Y284C		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	284	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	GTCATAGCCTACTGTCTATCG	0.547													4	40					0	0	1	0	0		G	37356555	G	G	37356555	3	3	27	1	0	0	0	0	1	0	0	0	14590	391	14	3	857	3	SLC32A1	20	37356555	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	487494	37356555	25668965	7874	30225											
SLC32A1	140679	broad.mit.edu	37	chr20	37356738	37356738	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgatgaactggacgcacaTcgcagcctgcgtgctcaagg	10	7	12	12	3	1	2	1	2	0	0	2	3	1	3	1	2	4	3	1	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:37356738T>C	uc002xjc.2	+	2	1297	c.1034T>C	c.(1033-1035)ATC>ACC	p.I345T		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	345	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	TGGACGCACATCGCAGCCTGC	0.597													3	47					0	0	1	0	0		C	37356738	C	C	37356738	3	2	27	1	0	0	0	0	1	0	0	0	14590	1435	50	3	1040	3	SLC32A1	20	37356738	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	183	37356738	25668782	7875	30226											
SLC32A1	140679	broad.mit.edu	37	chr20	37356973	37356973	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttcccggcctgctacagCggcgacgggcgcctgaagtc	5	9	13	14	5	0	1	0	1	0	0	2	2	1	1	3	3	3	1	3	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:37356973C>T	uc002xjc.2	+	2	1532	c.1269C>T	c.(1267-1269)AGC>AGT	p.S423S		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	423	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CCTGCTACAGCGGCGACGGGC	0.637													4	40					0	0	1	0	0		T	37356973	T	T	37356973	2	4	27	1	0	0	0	0	0	0	0	1	14590	767	27	1		1	SLC32A1	20	37356973	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	235	37356973	25668547	7876	30227											
TOP1	7150	broad.mit.edu	37	chr20	39690105	39690105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacaagaaggagaaggacCgggaaaagtccaagcatagc	19	2	12	8	1	0	2	0	0	0	2	1	5	1	4	2	3	3	1	2	3	8	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:39690105C>T	uc002xjl.2	+	3	376	c.130C>T	c.(130-132)CGG>TGG	p.R44W	TOP1_uc010gge.1_Intron	NM_003286	NP_003277	P11387	TOP1_HUMAN	DNA topoisomerase I	44	Lys-rich.				DNA topological change|interspecies interaction between organisms|phosphorylation|programmed cell death|response to drug	chromosome|nucleolus|nucleoplasm	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity|protein binding			breast(3)|ovary(2)|central_nervous_system(1)|kidney(1)	7		Myeloproliferative disorder(115;0.00878)			Irinotecan(DB00762)|Lucanthone(DB04967)|Topotecan(DB01030)	GGAGAAGGACCGGGAAAAGTC	0.423			T	NUP98	AML*								6	16					0	0	1	0	0		T	39690105	T	T	39690105	3	4	27	1	0	0	0	0	1	0	0	0	16389	643	23	1	140	1	TOP1	20	39690105	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2333132	39690105	23335415	7877	30228											
PLCG1	5335	broad.mit.edu	37	chr20	39792036	39792036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagctgtgggctgttgatCgcctccaggtgcaggagttc	6	10	16	9	1	0	1	0	1	0	0	3	3	1	3	2	4	2	5	2	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:39792036C>T	uc002xjp.1	+	9	929	c.808C>T	c.(808-810)CGC>TGC	p.R270C	PLCG1_uc002xjo.1_Missense_Mutation_p.R270C|PLCG1_uc010zwe.1_5'Flank|PLCG1_uc010ggf.2_5'Flank	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	270					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				GGCTGTTGATCGCCTCCAGGT	0.602													11	53					0	0	1	0	0		T	39792036	T	T	39792036	3	4	27	1	0	0	0	0	1	0	0	0	12054	884	31	1	842	1	PLCG1	20	39792036	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	101931	39792036	23233484	7878	30229											
PLCG1	5335	broad.mit.edu	37	chr20	39798806	39798806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcttctccatcagcatggCgtcggtggcccactggtccc	4	10	11	16	3	3	0	1	0	2	0	6	0	4	0	3	4	1	1	3	4	0	1	rs140033921		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:39798806C>T	uc002xjp.1	+	24	2826	c.2705C>T	c.(2704-2706)GCG>GTG	p.A902V	PLCG1_uc002xjo.1_Missense_Mutation_p.A902V|PLCG1_uc010zwe.1_Missense_Mutation_p.A528V|PLCG1_uc010ggf.2_Missense_Mutation_p.A226V	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	902	PH 2; second part.				activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				ATCAGCATGGCGTCGGTGGCC	0.597													12	106					0	0	1	0	0		T	39798806	T	T	39798806	3	4	27	1	0	0	0	0	1	0	0	0	12054	768	27	1	2799	1	PLCG1	20	39798806	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6770	39798806	23226714	7879	30230											
ZHX3	23051	broad.mit.edu	37	chr20	39831411	39831411	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactttgcgctctgccaagaTatggctgctgggcatttcca	7	12	11	11	1	1	1	0	0	1	1	2	2	2	1	2	2	3	4	2	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:39831411T>A	uc002xjs.1	-	3	2524	c.2146A>T	c.(2146-2148)ATC>TTC	p.I716F	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Missense_Mutation_p.I716F|ZHX3_uc002xjt.1_Missense_Mutation_p.I716F|ZHX3_uc002xju.1_Missense_Mutation_p.I716F|ZHX3_uc002xjv.1_Missense_Mutation_p.I716F|ZHX3_uc002xjw.1_Missense_Mutation_p.I716F|ZHX3_uc010ggg.1_Missense_Mutation_p.I716F	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	716					negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				TCTGCCAAGATATGGCTGCTG	0.542													12	107					0	0	1	0	0		A	39831411	A	A	39831411	3	1	27	1	0	0	0	0	1	0	0	0	17702	1406	49	5	732	5	ZHX3	20	39831411	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	32605	39831411	23194109	7880	30231											
ZHX3	23051	broad.mit.edu	37	chr20	39832356	39832356	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatgagatgctggacatTgccagcactggcgacgagtg	9	8	15	9	2	0	1	0	1	0	1	0	6	0	3	1	3	3	2	1	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:39832356T>C	uc002xjs.1	-	3	1579	c.1201A>G	c.(1201-1203)AAT>GAT	p.N401D	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Missense_Mutation_p.N401D|ZHX3_uc002xjt.1_Missense_Mutation_p.N401D|ZHX3_uc002xju.1_Missense_Mutation_p.N401D|ZHX3_uc002xjv.1_Missense_Mutation_p.N401D|ZHX3_uc002xjw.1_Missense_Mutation_p.N401D|ZHX3_uc010ggg.1_Missense_Mutation_p.N401D	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	401	Required for homodimerization and interaction with NFYA.|Required for repressor activity.				negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				TGCTGGACATTGCCAGCACTG	0.547													8	85					0	0	1	0	0		C	39832356	C	C	39832356	3	2	27	1	0	0	0	0	1	0	0	0	17702	1812	63	3	1677	3	ZHX3	20	39832356	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	945	39832356	23193164	7881	30232											
LPIN3	64900	broad.mit.edu	37	chr20	39987087	39987087	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctcccacaggatgtcttTgcctaccggcaggtgggcct	5	11	12	13	1	2	0	0	0	2	0	3	1	2	1	4	4	2	1	4	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:39987087T>C	uc002xjx.2	+	19	2407	c.2316T>C	c.(2314-2316)TTT>TTC	p.F772F	LPIN3_uc010ggh.2_Silent_p.F773F|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	772	C-LIP.				fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				AGGATGTCTTTGCCTACCGGC	0.602													5	32					0	0	1	0	0		C	39987087	C	C	39987087	2	2	27	1	0	0	0	0	0	0	0	1	8938	1809	63	3		3	LPIN3	20	39987087	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	154731	39987087	23038433	7882	30233											
CHD6	84181	broad.mit.edu	37	chr20	40033839	40033839	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atcatgggcagcatgctcagGgtacttttgacctcttcacc	8	12	9	12	0	4	1	3	1	1	0	4	1	4	1	2	2	3	4	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:40033839G>A	uc002xka.1	-	37	7720	c.7542C>T	c.(7540-7542)ACC>ACT	p.T2514T	CHD6_uc002xjz.1_Silent_p.T51T	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2514					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				GCATGCTCAGGGTACTTTTGA	0.572													3	70					0	0	1	0	0		A	40033839	A	A	40033839	2	1	27	1	0	0	0	0	0	0	0	1	3332	1219	43	4		4	CHD6	20	40033839	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46752	40033839	22991681	7883	30234											
CHD6	84181	broad.mit.edu	37	chr20	40049561	40049561	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcatcttggaagccttggTtcttttcccttgagatgtta	6	19	8	8	0	3	1	1	1	2	1	4	3	4	2	2	2	1	2	2	2	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:40049561T>C	uc002xka.1	-	31	5892	c.5714A>G	c.(5713-5715)AAC>AGC	p.N1905S		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1905					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				GAAGCCTTGGTTCTTTTCCCT	0.488													11	123					0	0	1	0	0		C	40049561	C	C	40049561	3	2	27	1	0	0	0	0	1	0	0	0	3332	1725	60	3	2461	3	CHD6	20	40049561	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	15722	40049561	22975959	7884	30235											
CHD6	84181	broad.mit.edu	37	chr20	40085990	40085990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccttgtcaaacatctcgcGctcgtaggaatttcgagtga	9	11	11	10	4	2	1	1	1	1	0	5	3	2	2	1	2	1	2	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:40085990G>A	uc002xka.1	-	18	2921	c.2743C>T	c.(2743-2745)CGC>TGC	p.R915C	CHD6_uc002xkd.2_Missense_Mutation_p.R893C	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	915	Helicase C-terminal.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				AACATCTCGCGCTCGTAGGAA	0.547													16	44					0	0	1	0	0		A	40085990	A	A	40085990	3	1	27	1	0	0	0	0	1	0	0	0	3332	1087	38	1	5484	1	CHD6	20	40085990	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	36429	40085990	22939530	7885	30236											
PTPRT	11122	broad.mit.edu	37	chr20	40713431	40713431	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggggggcgtgtcccggtAggcaggccagccaatgtact	7	6	18	10	2	0	0	0	0	0	0	1	1	1	1	3	7	2	3	3	7	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:40713431A>T	uc002xkg.2	-	29	4211	c.4027T>A	c.(4027-4029)TAC>AAC	p.Y1343N	PTPRT_uc010ggj.2_Missense_Mutation_p.Y1362N|PTPRT_uc010ggi.2_Missense_Mutation_p.Y546N	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1343	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GTGTCCCGGTAGGCAGGCCAG	0.592													4	27					0	0	1	0	0		T	40713431	T	T	40713431	3	4	27	1	0	0	0	0	1	0	0	0	12837	420	15	5	310	5	PTPRT	20	40713431	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	627441	40713431	22312089	7886	30237											
PTPRT	11122	broad.mit.edu	37	chr20	40864873	40864873	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagctcgatacttacaagtAataggagtaggaataagcat	16	9	9	7	1	0	0	0	0	0	0	1	3	0	2	1	2	4	4	1	2	8	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:40864873A>G	uc002xkg.2	-	15	2522	c.2338T>C	c.(2338-2340)TAC>CAC	p.Y780H	PTPRT_uc010ggj.2_Missense_Mutation_p.Y799H	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	780	Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				ACTTACAAGTAATAGGAGTAG	0.393													8	109					0	0	1	0	0		G	40864873	G	G	40864873	3	3	27	1	0	0	0	0	1	0	0	0	12837	362	13	3	2055	3	PTPRT	20	40864873	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	151442	40864873	22160647	7887	30238											
L3MBTL	26013	broad.mit.edu	37	chr20	42162001	42162001	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgtgatcccagcagccccTacatccacccagtgggctgg	7	7	12	15	0	0	1	0	1	0	0	2	1	2	1	5	3	3	2	5	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:42162001T>C	uc010zwh.1	+	13	1436	c.1390T>C	c.(1390-1392)TAC>CAC	p.Y464H	L3MBTL_uc002xkl.2_Missense_Mutation_p.Y396H|L3MBTL_uc002xkm.2_Missense_Mutation_p.Y396H|L3MBTL_uc010ggl.2_Missense_Mutation_p.Y396H|L3MBTL_uc002xkn.1_Missense_Mutation_p.Y155H|L3MBTL_uc002xko.2_Missense_Mutation_p.Y48H	NM_015478	NP_056293	Q9Y468	LMBL1_HUMAN	l(3)mbt-like isoform I	396	MBT 2.				chromatin modification|hemopoiesis|negative regulation of transcription, DNA-dependent|regulation of megakaryocyte differentiation|regulation of mitosis	chromatin|condensed chromosome|nucleoplasm	identical protein binding|methylated histone residue binding|nucleosomal histone binding|SAM domain binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			CAGCAGCCCCTACATCCACCC	0.587													3	54					0	0	1	0	0		C	42162001	C	C	42162001	3	2	27	1	0	0	0	0	1	0	0	0	8607	1522	53	3	1224	3	L3MBTL	20	42162001	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1297128	42162001	20863519	7888	30239											
IFT52	51098	broad.mit.edu	37	chr20	42232531	42232531	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaatcatggttaataatggTaattagtattattattttca	14	18	7	2	0	2	0	2	0	0	0	2	1	2	1	0	3	0	3	0	3	8	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:42232531T>C	uc002xkw.2	+	4	459	c.337_splice	c.e4+2	p.D113_splice	IFT52_uc010zwi.1_Intron|IFT52_uc002xky.2_Splice_Site_p.D113_splice|IFT52_uc002xkx.2_Splice_Site|IFT52_uc010ggn.2_Splice_Site_p.D113_splice|IFT52_uc002xkz.2_Splice_Site_p.D113_splice	NM_016004	NP_057088	Q9Y366	IFT52_HUMAN	intraflagellar transport 52 homolog							intraflagellar transport particle B|microtubule-based flagellum	protein C-terminus binding			ovary(2)	2		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TTAATAATGGTAATTAGTATT	0.358													3	36					0	0	1	0	0		C	42232531	C	C	42232531	5	2	27	1	0	0	0	0	0	0	1	0	7577	1652	57	3	349	3	IFT52	20	42232531	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	70530	42232531	20792989	7889	30240											
IFT52	51098	broad.mit.edu	37	chr20	42265849	42265849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctatttgatttagatgaaaCgttctcctctgagaaggcac	11	13	9	8	1	2	4	0	3	2	2	3	5	2	4	1	1	1	3	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:42265849C>T	uc002xkw.2	+	12	1198	c.1076C>T	c.(1075-1077)ACG>ATG	p.T359M	IFT52_uc002xky.2_Missense_Mutation_p.T359M|IFT52_uc002xkx.2_RNA|IFT52_uc010ggn.2_Missense_Mutation_p.T335M|IFT52_uc002xkz.2_Missense_Mutation_p.T359M	NM_016004	NP_057088	Q9Y366	IFT52_HUMAN	intraflagellar transport 52 homolog	359						intraflagellar transport particle B|microtubule-based flagellum	protein C-terminus binding			ovary(2)	2		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TTAGATGAAACGTTCTCCTCT	0.343													9	124					0	0	1	0	0		T	42265849	T	T	42265849	3	4	27	1	0	0	0	0	1	0	0	0	7577	536	19	1	1118	1	IFT52	20	42265849	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	33318	42265849	20759671	7890	30241											
JPH2	57158	broad.mit.edu	37	chr20	42744457	42744457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcttgggctccagcttggCgggggtctcgcgtgcaggct	2	9	19	11	3	1	0	0	0	1	0	3	0	2	0	1	6	2	5	1	6	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:42744457C>T	uc002xli.1	-	4	2731	c.1858G>A	c.(1858-1860)GCC>ACC	p.A620T		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	620	Pro-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			TCCAGCTTGGCGGGGGTCTCG	0.736													5	14					0	0	1	0	0		T	42744457	T	T	42744457	3	4	27	1	0	0	0	0	1	0	0	0	7977	768	27	1	240	1	JPH2	20	42744457	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	478608	42744457	20281063	7891	30242											
YWHAB	7529	broad.mit.edu	37	chr20	43530375	43530375	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgtgtcatctccagcatTgagcagaaaacagagaggaa	14	7	12	8	1	2	3	1	1	1	2	3	5	2	4	1	2	3	2	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:43530375T>C	uc002xmt.2	+	3	483	c.201T>C	c.(199-201)ATT>ATC	p.I67I	YWHAB_uc002xmu.2_Silent_p.I67I	NM_003404	NP_003395	P31946	1433B_HUMAN	tyrosine 3-monooxygenase/tryptophan	67					activation of MAPKK activity|activation of pro-apoptotic gene products|axon guidance|cytoplasmic sequestering of protein|epidermal growth factor receptor signaling pathway|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|mRNA metabolic process|negative regulation of protein dephosphorylation|nerve growth factor receptor signaling pathway|Ras protein signal transduction	centrosome|cytosol|melanosome|perinuclear region of cytoplasm	histone deacetylase binding|phosphoserine binding|protein domain specific binding			kidney(2)|ovary(1)|breast(1)	4		Myeloproliferative disorder(115;0.0122)				TCTCCAGCATTGAGCAGAAAA	0.512													4	61					0	0	1	0	0		C	43530375	C	C	43530375	2	2	27	1	0	0	0	0	0	0	0	1	17527	1800	63	3		3	YWHAB	20	43530375	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	785918	43530375	19495145	7892	30243											
TOMM34	10953	broad.mit.edu	37	chr20	43583713	43583713	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaatggagctcacctgtTgatgccttctacggctgacg	7	11	13	10	2	2	2	1	2	1	0	2	4	2	4	2	3	3	3	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:43583713T>C	uc002xmy.2	-	3	516	c.376A>G	c.(376-378)AAC>GAC	p.N126D	PABPC1L_uc002xmx.2_Intron|TOMM34_uc002xmz.2_RNA	NM_006809	NP_006800	Q15785	TOM34_HUMAN	translocase of outer mitochondrial membrane 34	126				N -> S (in Ref. 5; BAD96672).	protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane	heat shock protein binding|signal sequence binding				0		Myeloproliferative disorder(115;0.0122)				GCTCACCTGTTGATGCCTTCT	0.522													12	95					0	0	1	0	0		C	43583713	C	C	43583713	3	2	27	1	0	0	0	0	1	0	0	0	16382	1812	63	3	573	3	TOMM34	20	43583713	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53338	43583713	19441807	7893	30244											
WFDC5	149708	broad.mit.edu	37	chr20	43739138	43739138	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgacacaggtggttcatgggGctgaggcagcgcagttggtc	7	9	17	8	1	1	2	1	2	0	0	2	2	1	2	0	6	1	5	0	6	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:43739138G>A	uc002xne.1	-	3	349	c.270C>T	c.(268-270)AGC>AGT	p.S90S		NM_145652	NP_663627	Q8TCV5	WFDC5_HUMAN	WAP four-disulfide core domain 5 precursor	90	WAP 2.					extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GGTTCATGGGGCTGAGGCAGC	0.632													5	49					0	0	1	0	0		A	43739138	A	A	43739138	2	1	27	1	0	0	0	0	0	0	0	1	17380	1194	42	2		2	WFDC5	20	43739138	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	155425	43739138	19286382	7894	30245											
SEMG2	6407	broad.mit.edu	37	chr20	43850767	43850767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgttcaaacacagaaaaaaGgctatgggttcatggactaa	17	9	9	6	0	2	1	2	0	0	1	2	2	2	2	0	3	1	3	0	3	6	4	rs138521593		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:43850767G>A	uc010ggz.2	+	2	551	c.494G>A	c.(493-495)AGG>AAG	p.R165K	SEMG2_uc002xnk.2_Missense_Mutation_p.R165K|SEMG2_uc002xnl.2_Missense_Mutation_p.R165K	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	165	Repeat-rich region.|2-1.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity	p.R165K(1)		skin(1)	1		Myeloproliferative disorder(115;0.0122)				ACAGAAAAAAGGCTATGGGTT	0.443													3	52					0	0	1	0	0		A	43850767	A	A	43850767	3	1	27	1	0	0	0	0	1	0	0	0	14070	1000	35	4	500	4	SEMG2	20	43850767	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	111629	43850767	19174753	7895	30246											
SPINLW1	57119	broad.mit.edu	37	chr20	44166681	44166681	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcaatctctgggtttggtAcactggtctatttcttccac	6	15	10	10	0	3	0	0	0	3	0	5	0	4	0	1	4	1	3	1	4	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44166681A>G	uc010zxc.1	-	4	476	c.444T>C	c.(442-444)TGT>TGC	p.C148C	WFDC6_uc002xos.1_Silent_p.C48C	NM_020398	NP_065131	O95925	EPPI_HUMAN	serine peptidase inhibitor-like, with Kunitz and	48	WAP.					extracellular region	serine-type endopeptidase inhibitor activity			pancreas(1)	1		Myeloproliferative disorder(115;0.0122)				TGGGTTTGGTACACTGGTCTA	0.453													17	138					0	0	1	0	0		G	44166681	G	G	44166681	2	3	27	1	0	0	0	0	0	0	0	1	15092	389	14	3		3	SPINLW1	20	44166681	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	315914	44166681	18858839	7896	30247											
DNTTIP1	116092	broad.mit.edu	37	chr20	44430046	44430046	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccttttcttttagcgtggCcgtcaggcagaagaagaatg	9	12	11	9	2	2	3	1	0	1	3	3	3	3	3	2	2	1	1	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44430046C>T	uc002xpk.2	+	6	515	c.447C>T	c.(445-447)GGC>GGT	p.G149G		NM_052951	NP_443183	Q9H147	TDIF1_HUMAN	terminal deoxynucleotidyltransferase interacting	149						nucleus				ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.0122)				TTTAGCGTGGCCGTCAGGCAG	0.507													4	100					0	0	1	0	0		T	44430046	T	T	44430046	2	4	27	1	0	0	0	0	0	0	0	1	4687	726	26	2		2	DNTTIP1	20	44430046	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	263365	44430046	18595474	7897	30248											
SNX21	90203	broad.mit.edu	37	chr20	44469372	44469372	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgagcggctgcaccgaaAcctgcagcggcaattccggg	8	7	13	13	4	0	1	0	1	0	0	1	2	1	1	3	3	5	4	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44469372A>C	uc002xpv.1	+	4	631	c.542A>C	c.(541-543)AAC>ACC	p.N181T	SNX21_uc002xps.1_Missense_Mutation_p.N181T|SNX21_uc002xpt.1_3'UTR|SNX21_uc002xpu.1_3'UTR|SNX21_uc002xpw.1_5'UTR|SNX21_uc002xpx.2_Missense_Mutation_p.N171T|SNX21_uc010zxd.1_3'UTR|SNX21_uc002xpy.1_5'UTR|SNX21_uc002xpz.1_5'UTR	NM_033421	NP_219489	Q969T3	SNX21_HUMAN	sorting nexin 21 isoform a	181	PX.				cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding			breast(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				CTGCACCGAAACCTGCAGCGG	0.642													14	108					0	0	1	0	0		C	44469372	C	C	44469372	3	2	27	1	0	0	0	0	1	0	0	0	14918	43	2	5	571	5	SNX21	20	44469372	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	39326	44469372	18556148	7898	30249											
ZSWIM3	140831	broad.mit.edu	37	chr20	44505771	44505771	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagggttccatggcttccTtcagtgtgggtgacagccag	7	11	14	9	0	1	2	1	2	0	0	3	2	3	2	3	3	1	2	3	3	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44505771T>C	uc002xqd.2	+	2	777	c.574T>C	c.(574-576)TTC>CTC	p.F192L	ZSWIM3_uc010zxg.1_Missense_Mutation_p.F186L	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	192							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				CATGGCTTCCTTCAGTGTGGG	0.522													10	92					0	0	1	0	0		C	44505771	C	C	44505771	3	2	27	1	0	0	0	0	1	0	0	0	18267	1609	56	3	580	3	ZSWIM3	20	44505771	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	36399	44505771	18519749	7899	30250											
ZSWIM3	140831	broad.mit.edu	37	chr20	44506225	44506225	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccgtgtttgtcacttCtgaagccagcctgaaaaatc	10	10	11	10	1	2	2	1	2	1	0	3	3	2	3	3	2	2	1	3	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44506225C>A	uc002xqd.2	+	2	1231	c.1028C>A	c.(1027-1029)TCT>TAT	p.S343Y	ZSWIM3_uc010zxg.1_Missense_Mutation_p.S337Y	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	343							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				TTTGTCACTTCTGAAGCCAGC	0.517													7	90					0.248553	0.249545	1	1	0		A	44506225	A	A	44506225	3	1	27	1	0	0	0	0	1	0	0	0	18267	913	32	5	1034	5	ZSWIM3	20	44506225	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	454	44506225	18519295	7900	30251											
PLTP	5360	broad.mit.edu	37	chr20	44538650	44538650	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgatttgaagcatcagcTcctgctgtggctggaaatcg	8	12	13	8	1	1	2	1	2	0	0	3	3	2	3	1	3	3	4	1	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44538650T>C	uc002xqn.1	-	4	340	c.260A>G	c.(259-261)GAG>GGG	p.E87G	PLTP_uc002xql.1_5'UTR|PLTP_uc002xqm.1_Missense_Mutation_p.E107G|PLTP_uc002xqo.1_Missense_Mutation_p.E87G|PLTP_uc002xqp.1_Missense_Mutation_p.E87G|PLTP_uc002xqq.1_Missense_Mutation_p.E56G|PLTP_uc010zxj.1_Intron|PLTP_uc010ghj.1_Missense_Mutation_p.E87G	NM_006227	NP_006218	P55058	PLTP_HUMAN	phospholipid transfer protein isoform a	87					cellular lipid metabolic process|lipid transport	extracellular region	lipid binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				AAGCATCAGCTCCTGCTGTGG	0.577													4	52					0	0	1	0	0		C	44538650	C	C	44538650	3	2	27	1	0	0	0	0	1	0	0	0	12133	1551	54	3	1273	3	PLTP	20	44538650	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	32425	44538650	18486870	7901	30252											
ZNF335	63925	broad.mit.edu	37	chr20	44596981	44596981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcggccccgccatcctcagCactggtcacagtgatgcagt	7	8	10	16	2	2	1	2	1	0	0	4	1	3	1	4	2	2	2	4	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44596981C>T	uc002xqw.2	-	4	586	c.463G>A	c.(463-465)GCT>ACT	p.A155T	ZNF335_uc010zxk.1_Intron|ZNF335_uc002xqx.1_Missense_Mutation_p.A123T|ZNF335_uc002xqy.2_5'UTR	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				CCATCCTCAGCACTGGTCACA	0.647													12	98					0	0	1	0	0		T	44596981	T	T	44596981	3	4	27	1	0	0	0	0	1	0	0	0	17877	710	25	2	3665	2	ZNF335	20	44596981	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	58331	44596981	18428539	7902	30253											
MMP9	4318	broad.mit.edu	37	chr20	44640886	44640886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagggccgcggagatgggCgcctctggtgcgctaccacc	5	5	17	14	5	1	1	0	0	1	1	1	3	1	1	4	4	2	1	4	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44640886C>T	uc002xqz.2	+	7	1127	c.1108C>T	c.(1108-1110)CGC>TGC	p.R370C		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	370	Fibronectin type-II 3.				collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	CGGAGATGGGCGCCTCTGGTG	0.657													15	122					0	0	1	0	0		T	44640886	T	T	44640886	3	4	27	1	0	0	0	0	1	0	0	0	9687	768	27	1	1134	1	MMP9	20	44640886	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	43905	44640886	18384634	7903	30254											
NCOA5	57727	broad.mit.edu	37	chr20	44691317	44691317	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtgtttccggcagcaacCgagggggatgcagagctgct	7	7	18	9	2	0	1	0	0	0	1	1	3	1	2	2	5	5	6	2	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44691317C>T	uc002xrd.2	-	7	1890	c.1362G>A	c.(1360-1362)TCG>TCA	p.S454S	NCOA5_uc002xrc.2_3'UTR|NCOA5_uc002xre.2_Silent_p.S454S	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	454					regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				CGGCAGCAACCGAGGGGGATG	0.542													15	149					0	0	1	0	0		T	44691317	T	T	44691317	2	4	27	1	0	0	0	0	0	0	0	1	10251	639	23	1		1	NCOA5	20	44691317	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	50431	44691317	18334203	7904	30255											
CDH22	64405	broad.mit.edu	37	chr20	44869870	44869870	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgtacttgatggccccGtcaccctcgtctgagtcgga	6	11	12	12	3	2	2	1	2	1	0	4	3	2	3	3	3	1	1	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44869870G>A	uc002xrm.2	-	2	683	c.282C>T	c.(280-282)GAC>GAT	p.D94D	CDH22_uc010ghk.1_Silent_p.D94D	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	94	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				TGATGGCCCCGTCACCCTCGT	0.592													4	16					0	0	1	0	0		A	44869870	A	A	44869870	2	1	27	1	0	0	0	0	0	0	0	1	3110	1136	40	1		1	CDH22	20	44869870	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	178553	44869870	18155650	7905	30256											
SLC35C2	51006	broad.mit.edu	37	chr20	44983738	44983738	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccttctgcaggagcatcTgggtgagggtccagcgaatg	8	8	15	10	1	2	1	0	1	2	0	3	3	3	2	2	3	4	2	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44983738T>C	uc002xro.2	-	6	1092	c.551A>G	c.(550-552)CAG>CGG	p.Q184R	SLC35C2_uc002xrp.2_Missense_Mutation_p.Q163R|SLC35C2_uc002xrq.2_Missense_Mutation_p.Q184R|SLC35C2_uc002xrr.2_Missense_Mutation_p.Q184R|SLC35C2_uc010zxn.1_Missense_Mutation_p.Q49R|SLC35C2_uc010zxo.1_Missense_Mutation_p.Q70R|SLC35C2_uc010zxp.1_Missense_Mutation_p.Q213R	NM_173179	NP_775271	Q9NQQ7	S35C2_HUMAN	solute carrier family 35, member C2 isoform a	184					transport	integral to membrane				ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CAGGAGCATCTGGGTGAGGGT	0.627													17	78					0	0	1	0	0		C	44983738	C	C	44983738	3	2	27	1	0	0	0	0	1	0	0	0	14605	1580	55	3	566	3	SLC35C2	20	44983738	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	113868	44983738	18041782	7906	30257											
ELMO2	63916	broad.mit.edu	37	chr20	44996115	44996115	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcttcatctccatgctcaGcagggtgtccaggtcactct	7	11	9	14	0	5	0	3	0	2	0	7	0	6	0	2	2	3	3	2	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44996115G>A	uc002xrt.1	-	22	2257	c.2047C>T	c.(2047-2049)CTG>TTG	p.L683L	ELMO2_uc010zxq.1_Silent_p.L415L|ELMO2_uc002xrs.1_Silent_p.L430L|ELMO2_uc002xru.1_Silent_p.L683L|ELMO2_uc010zxr.1_Silent_p.L695L|ELMO2_uc010zxs.1_Silent_p.L500L	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2	683					apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				TCCATGCTCAGCAGGGTGTCC	0.577													7	42					0	0	1	0	0		A	44996115	A	A	44996115	2	1	27	1	0	0	0	0	0	0	0	1	5074	962	34	2		2	ELMO2	20	44996115	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	12377	44996115	18029405	7907	30258											
ELMO2	63916	broad.mit.edu	37	chr20	44999996	44999996	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaatgaacctacttttcTcctgcagggattcaaatgtc	12	12	8	9	0	2	2	1	1	1	1	4	4	2	3	2	1	3	1	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:44999996T>A	uc002xrt.1	-	19	2006	c.1796A>T	c.(1795-1797)GAG>GTG	p.E599V	ELMO2_uc010zxq.1_Missense_Mutation_p.E331V|ELMO2_uc002xrs.1_Missense_Mutation_p.E346V|ELMO2_uc002xru.1_Missense_Mutation_p.E599V|ELMO2_uc010zxr.1_Missense_Mutation_p.E611V|ELMO2_uc010zxs.1_Missense_Mutation_p.E416V|ELMO2_uc002xrv.1_Missense_Mutation_p.E318V	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2	599	PH.				apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CCTACTTTTCTCCTGCAGGGA	0.343													7	82					0	0	1	0	0		A	44999996	A	A	44999996	3	1	27	1	0	0	0	0	1	0	0	0	5074	1551	54	5	382	5	ELMO2	20	44999996	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3881	44999996	18025524	7908	30259											
ZNF334	55713	broad.mit.edu	37	chr20	45129985	45129985	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtttgatttgtggcgaaAtgttttctcacatttgttac	10	18	8	5	1	1	1	1	1	1	0	2	2	1	1	0	1	1	3	0	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:45129985A>G	uc002xsc.2	-	5	2177	c.1993T>C	c.(1993-1995)TTT>CTT	p.F665L	ZNF334_uc002xsa.2_Missense_Mutation_p.F688L|ZNF334_uc002xsb.2_Missense_Mutation_p.F627L|ZNF334_uc002xsd.2_Missense_Mutation_p.F627L|ZNF334_uc010ghl.2_Missense_Mutation_p.F664L	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	665	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				TTGTGGCGAAATGTTTTCTCA	0.358													5	111					0	0	1	0	0		G	45129985	G	G	45129985	3	3	27	1	0	0	0	0	1	0	0	0	17876	101	4	3	53	3	ZNF334	20	45129985	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	129989	45129985	17895535	7909	30260											
ZNF334	55713	broad.mit.edu	37	chr20	45130828	45130828	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactgacagaagaaggtttTcccacattccttacattcat	12	13	6	10	0	1	4	1	2	0	2	3	4	3	4	2	1	1	1	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:45130828T>C	uc002xsc.2	-	5	1334	c.1150A>G	c.(1150-1152)AAA>GAA	p.K384E	ZNF334_uc002xsa.2_Missense_Mutation_p.K407E|ZNF334_uc002xsb.2_Missense_Mutation_p.K346E|ZNF334_uc002xsd.2_Missense_Mutation_p.K346E|ZNF334_uc010ghl.2_Missense_Mutation_p.K383E	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	384	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				AAGAAGGTTTTCCCACATTCC	0.413													10	125					0	0	1	0	0		C	45130828	C	C	45130828	3	2	27	1	0	0	0	0	1	0	0	0	17876	1792	62	3	896	3	ZNF334	20	45130828	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	843	45130828	17894692	7910	30261											
SLC13A3	64849	broad.mit.edu	37	chr20	45239247	45239247	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatcatccccaggatgaGcctgcagagcagatggcatt	11	7	10	13	0	1	3	1	1	0	2	2	4	2	4	4	2	3	3	4	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:45239247G>T	uc002xsf.1	-	3	417	c.379C>A	c.(379-381)CTC>ATC	p.L127I	SLC13A3_uc010ghn.1_Missense_Mutation_p.L96I|SLC13A3_uc010zxw.1_Missense_Mutation_p.L127I|SLC13A3_uc002xsg.1_Missense_Mutation_p.L80I|SLC13A3_uc010gho.1_Missense_Mutation_p.L80I|SLC13A3_uc010zxx.1_Missense_Mutation_p.L29I|SLC13A3_uc002xsi.3_Missense_Mutation_p.L80I	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	127	Extracellular (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	CCCAGGATGAGCCTGCAGAGC	0.517													4	75					0.00909568	0.0093211	1	1	0		T	45239247	T	T	45239247	3	4	27	1	0	0	0	0	1	0	0	0	14418	985	34	5	1473	5	SLC13A3	20	45239247	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	108419	45239247	17786273	7911	30262											
SLC2A10	81031	broad.mit.edu	37	chr20	45354435	45354435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccaacgtgctgtgctatGcctccaccatcttcagctcc	7	10	7	17	1	2	0	1	0	1	0	4	0	4	0	5	0	6	3	5	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:45354435G>A	uc002xsl.2	+	2	857	c.760G>A	c.(760-762)GCC>ACC	p.A254T		NM_030777	NP_110404	O95528	GTR10_HUMAN	solute carrier family 2 member 10	254	Helical; Name=7; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GCTGTGCTATGCCTCCACCAT	0.632													20	113					0	0	1	0	0		A	45354435	A	A	45354435	3	1	27	1	0	0	0	0	1	0	0	0	14564	1319	46	2	766	2	SLC2A10	20	45354435	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	115188	45354435	17671085	7912	30263											
NCOA3	8202	broad.mit.edu	37	chr20	46281156	46281156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttatttttgtaaggaatggGacaacaaccagatccagcct	13	12	8	8	0	0	1	0	0	0	1	1	3	1	3	3	2	3	1	3	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:46281156G>A	uc002xtk.2	+	21	4158	c.3953G>A	c.(3952-3954)GGA>GAA	p.G1318E	NCOA3_uc002xtl.2_Missense_Mutation_p.G1314E|NCOA3_uc002xtm.2_Missense_Mutation_p.G1313E|NCOA3_uc002xtn.2_Missense_Mutation_p.G1317E|NCOA3_uc010zyc.1_Missense_Mutation_p.G1113E	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	1318					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						TAAGGAATGGGACAACAACCA	0.398													9	62					0	0	1	0	0		A	46281156	A	A	46281156	3	1	27	1	0	0	0	0	1	0	0	0	10249	1174	41	4	4057	4	NCOA3	20	46281156	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	926721	46281156	16744364	7913	30264											
PREX1	57580	broad.mit.edu	37	chr20	47266665	47266665	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaattggtggggcagaagTccaggccacacagcgggtgg	9	5	18	9	1	0	1	0	0	0	1	1	1	1	1	2	7	1	2	2	7	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:47266665T>C	uc002xtw.1	-	24	2920	c.2897A>G	c.(2896-2898)GAC>GGC	p.D966G	PREX1_uc002xtv.1_Missense_Mutation_p.D263G	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	966					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GGGGCAGAAGTCCAGGCCACA	0.592													9	145					0	0	1	0	0		C	47266665	C	C	47266665	3	2	27	1	0	0	0	0	1	0	0	0	12498	1667	58	3	2150	3	PREX1	20	47266665	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	985509	47266665	15758855	7914	30265											
ARFGEF2	10564	broad.mit.edu	37	chr20	47585715	47585715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acaaggacatcaagtggctgCcaggttctcccacgttctgc	9	9	10	13	1	3	0	1	0	2	0	4	1	3	1	2	3	2	3	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:47585715C>T	uc002xtx.3	+	9	1243	c.1091C>T	c.(1090-1092)GCC>GTC	p.A364V		NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	364					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			CAAGTGGCTGCCAGGTTCTCC	0.393													9	42					0	0	1	0	0		T	47585715	T	T	47585715	3	4	27	1	0	0	0	0	1	0	0	0	853	739	26	2	1125	2	ARFGEF2	20	47585715	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	319050	47585715	15439805	7915	30266											
ARFGEF2	10564	broad.mit.edu	37	chr20	47601974	47601974	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgattttctgggagatagCgcaaggttcaacaaggaggt	11	9	15	6	2	2	1	1	0	1	1	2	4	2	2	0	5	2	2	0	5	4	4	rs145085689		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:47601974C>T	uc002xtx.3	+	16	2252	c.2100C>T	c.(2098-2100)AGC>AGT	p.S700S	ARFGEF2_uc010zyf.1_5'UTR	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	700	SEC7.				exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			TGGGAGATAGCGCAAGGTTCA	0.453													12	85					0	0	1	0	0		T	47601974	T	T	47601974	2	4	27	1	0	0	0	0	0	0	0	1	853	767	27	1		1	ARFGEF2	20	47601974	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16259	47601974	15423546	7916	30267											
ARFGEF2	10564	broad.mit.edu	37	chr20	47621755	47621755	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagcatattatgaagaaaaAcaggtatgtgttttgctctg	13	14	10	4	0	1	3	0	2	1	1	1	3	1	3	0	1	3	4	0	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:47621755A>G	uc002xtx.3	+	26	3733	c.3581A>G	c.(3580-3582)AAC>AGC	p.N1194S	ARFGEF2_uc010zyf.1_Missense_Mutation_p.N487S	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1194					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			ATGAAGAAAAACAGGTATGTG	0.219													5	83					0	0	1	0	0		G	47621755	G	G	47621755	3	3	27	1	0	0	0	0	1	0	0	0	853	43	2	3	3683	3	ARFGEF2	20	47621755	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19781	47621755	15403765	7917	30268											
ARFGEF2	10564	broad.mit.edu	37	chr20	47630429	47630429	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacctttgaaaagcactggTggcaggacctgttcagaatc	12	9	10	10	0	1	2	1	1	0	1	2	3	1	3	2	3	1	3	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:47630429T>C	uc002xtx.3	+	30	4263	c.4111T>C	c.(4111-4113)TGG>CGG	p.W1371R	ARFGEF2_uc010zyf.1_Missense_Mutation_p.W664R	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1371					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			AAAGCACTGGTGGCAGGACCT	0.468													9	99					0	0	1	0	0		C	47630429	C	C	47630429	3	2	27	1	0	0	0	0	1	0	0	0	853	1696	59	3	4229	3	ARFGEF2	20	47630429	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8674	47630429	15395091	7918	30269											
DDX27	55661	broad.mit.edu	37	chr20	47852753	47852753	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcccgtggacttgacatTgagggggtcaaaacggtgag	10	7	16	8	2	1	3	1	3	0	0	1	4	1	4	1	4	2	1	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:47852753T>C	uc002xuh.2	+	13	1648	c.1587T>C	c.(1585-1587)ATT>ATC	p.I529I		NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	529	Helicase C-terminal.					nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GACTTGACATTGAGGGGGTCA	0.517													6	120					0	0	1	0	0		C	47852753	C	C	47852753	2	2	27	1	0	0	0	0	0	0	0	1	4357	1800	63	3		3	DDX27	20	47852753	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	222324	47852753	15172767	7919	30270											
ZNFX1	57169	broad.mit.edu	37	chr20	47863988	47863988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatggctcccccacaatcgCcaatcacatagatatggcca	12	7	6	16	1	1	1	1	0	0	1	3	1	2	1	5	2	0	1	5	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:47863988C>T	uc002xui.2	-	14	5820	c.5573G>A	c.(5572-5574)GGC>GAC	p.G1858D		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	1858							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CCCACAATCGCCAATCACATA	0.517													6	71					0	0	1	0	0		T	47863988	T	T	47863988	3	4	27	1	0	0	0	0	1	0	0	0	18230	739	26	2	187	2	ZNFX1	20	47863988	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11235	47863988	15161532	7920	30271											
ZNFX1	57169	broad.mit.edu	37	chr20	47864700	47864700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggatgggcacctggcagaTagggcagactttcaatctga	10	8	14	9	1	2	3	1	1	1	2	2	4	2	4	1	4	0	3	1	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:47864700T>C	uc002xui.2	-	14	5108	c.4861A>G	c.(4861-4863)ATC>GTC	p.I1621V		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	1621							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			ACCTGGCAGATAGGGCAGACT	0.488													4	72					0	0	1	0	0		C	47864700	C	C	47864700	3	2	27	1	0	0	0	0	1	0	0	0	18230	1406	49	3	899	3	ZNFX1	20	47864700	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	712	47864700	15160820	7921	30272											
ZNFX1	57169	broad.mit.edu	37	chr20	47874037	47874037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catggccagaagcattttagCcaactcctggtctgctccac	9	10	8	14	0	1	1	0	0	1	1	3	1	3	1	4	2	4	2	4	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:47874037C>T	uc002xui.2	-	8	2828	c.2581G>A	c.(2581-2583)GCT>ACT	p.A861T		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	861							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			AGCATTTTAGCCAACTCCTGG	0.567													7	76					0	0	1	0	0		T	47874037	T	T	47874037	3	4	27	1	0	0	0	0	1	0	0	0	18230	739	26	2	3203	2	ZNFX1	20	47874037	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	9337	47874037	15151483	7922	30273											
KCNB1	3745	broad.mit.edu	37	chr20	47990019	47990019	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccccggttcctgagagggTcatggtacatccctagaacg	8	9	11	13	2	1	2	1	1	0	2	4	3	4	2	4	3	2	2	4	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:47990019T>A	uc002xur.1	-	2	2242	c.2078A>T	c.(2077-2079)GAC>GTC	p.D693V	KCNB1_uc002xus.1_Missense_Mutation_p.D693V	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	693	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CCTGAGAGGGTCATGGTACAT	0.562													7	47					0	0	1	0	0		A	47990019	A	A	47990019	3	1	27	1	0	0	0	0	1	0	0	0	8028	1667	58	5	502	5	KCNB1	20	47990019	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	115982	47990019	15035501	7923	30274											
SLC9A8	23315	broad.mit.edu	37	chr20	48431651	48431651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcaagcccatcctccccGtgcagacaggggagcaggcc	8	4	13	16	1	0	1	0	0	0	1	2	2	2	2	5	4	3	3	5	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:48431651G>A	uc002xuv.1	+	2	343	c.133G>A	c.(133-135)GTG>ATG	p.V45M	SLC9A8_uc010zym.1_Translation_Start_Site|SLC9A8_uc010zyj.1_Missense_Mutation_p.V45M|SLC9A8_uc010zyk.1_Missense_Mutation_p.V45M|SLC9A8_uc010zyl.1_Missense_Mutation_p.V45M|SLC9A8_uc010gib.1_Missense_Mutation_p.V45M	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	45						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			CATCCTCCCCGTGCAGACAGG	0.577													7	97					0	0	1	0	0		A	48431651	A	A	48431651	3	1	27	1	0	0	0	0	1	0	0	0	14745	1145	40	1	139	1	SLC9A8	20	48431651	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	441632	48431651	14593869	7924	30275											
FAM65C	140876	broad.mit.edu	37	chr20	49218812	49218812	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccgctgtggaacagggagcCctgtggcaggctggggctct	5	7	18	11	1	1	0	0	0	1	0	1	2	1	2	2	6	2	4	2	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:49218812C>A	uc002xvm.2	-	13	1762	c.1444G>T	c.(1444-1446)GGC>TGC	p.G482C	FAM65C_uc010zyt.1_Missense_Mutation_p.G486C|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Missense_Mutation_p.G482C	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	482										ovary(2)	2						AACAGGGAGCCCTGTGGCAGG	0.682													9	22					0.000274275	0.000288501	1	1	0		A	49218812	A	A	49218812	3	1	27	1	0	0	0	0	1	0	0	0	5615	623	22	5	1436	5	FAM65C	20	49218812	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	787161	49218812	13806708	7925	30276											
FAM65C	140876	broad.mit.edu	37	chr20	49224977	49224977	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccaactccgtgatgtccAccacgatgacctgcggccgc	8	7	9	17	4	0	2	0	2	0	0	2	3	2	2	6	1	3	0	6	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:49224977A>G	uc002xvm.2	-	11	1211	c.893T>C	c.(892-894)GTG>GCG	p.V298A	FAM65C_uc010zyt.1_Missense_Mutation_p.V302A|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Missense_Mutation_p.V298A	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	298										ovary(2)	2						CGTGATGTCCACCACGATGAC	0.662													5	77					0	0	1	0	0		G	49224977	G	G	49224977	3	3	27	1	0	0	0	0	1	0	0	0	5615	159	6	3	1995	3	FAM65C	20	49224977	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	6165	49224977	13800543	7926	30277											
FAM65C	140876	broad.mit.edu	37	chr20	49225053	49225053	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccacagccagcgagcccaGgccccgcaactccgtcacct	9	3	8	21	3	1	0	1	0	0	0	2	1	2	0	7	1	4	1	7	1	1	0	rs139011816		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:49225053G>T	uc002xvm.2	-	11	1135	c.817C>A	c.(817-819)CTG>ATG	p.L273M	FAM65C_uc010zyt.1_Missense_Mutation_p.L277M|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Missense_Mutation_p.L273M	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	273										ovary(2)	2						AGCGAGCCCAGGCCCCGCAAC	0.682													10	112					5.50884e-06	5.93776e-06	1	1	0		T	49225053	T	T	49225053	3	4	27	1	0	0	0	0	1	0	0	0	5615	991	35	5	2071	5	FAM65C	20	49225053	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	76	49225053	13800467	7927	30278											
DPM1	8813	broad.mit.edu	37	chr20	49575045	49575045	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgaggactacgactgaCttccaaggaggccatggcgg	9	6	14	12	3	0	1	0	1	0	0	1	5	1	3	3	5	2	0	3	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:49575045C>G	uc002xvw.1	-	1	16	c.16G>C	c.(16-18)GTC>CTC	p.V6L	DPM1_uc002xvx.1_RNA|MOCS3_uc002xvy.1_5'Flank	NM_003859	NP_003850	O60762	DPM1_HUMAN	dolichyl-phosphate mannosyltransferase 1	6					C-terminal protein lipidation|dolichol metabolic process|dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|protein N-linked glycosylation via asparagine|protein O-linked mannosylation	dolichol-phosphate-mannose synthase complex|endoplasmic reticulum membrane|membrane fraction	dolichyl-phosphate beta-D-mannosyltransferase activity|dolichyl-phosphate-mannose-protein mannosyltransferase activity|protein binding			ovary(1)	1						CTACGACTGACTTCCAAGGAG	0.567													8	49					0	0	1	0	0		G	49575045	G	G	49575045	3	3	27	1	0	0	0	0	1	0	0	0	4730	565	20	5	802	5	DPM1	20	49575045	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	349992	49575045	13450475	7928	30279											
NFATC2	4773	broad.mit.edu	37	chr20	50139780	50139780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggccttggatggggcggCagacaccggcgaggggtcag	6	4	20	11	4	1	1	1	0	0	1	1	3	1	2	3	8	0	1	3	8	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:50139780C>T	uc002xwd.2	-	2	1220	c.1000G>A	c.(1000-1002)GCC>ACC	p.A334T	NFATC2_uc002xwc.2_Missense_Mutation_p.A334T|NFATC2_uc010zyv.1_Missense_Mutation_p.A115T|NFATC2_uc010zyw.1_Missense_Mutation_p.A115T|NFATC2_uc010zyx.1_Missense_Mutation_p.A314T|NFATC2_uc010zyy.1_Missense_Mutation_p.A115T|NFATC2_uc010zyz.1_Missense_Mutation_p.A115T|NFATC2_uc002xwe.2_Missense_Mutation_p.A314T	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	334					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					GATGGGGCGGCAGACACCGGC	0.667													7	54					0	0	1	0	0		T	50139780	T	T	50139780	3	4	27	1	0	0	0	0	1	0	0	0	10381	710	25	2	1861	2	NFATC2	20	50139780	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	564735	50139780	12885740	7929	30280											
ATP9A	10079	broad.mit.edu	37	chr20	50235532	50235532	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaccagggcacaatcatgCttcctgcggaaggcgttcag	10	8	12	11	2	2	1	2	1	0	0	3	2	3	2	2	3	2	3	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:50235532C>T	uc002xwg.1	-	20	2166	c.2166G>A	c.(2164-2166)AAG>AAA	p.K722K	ATP9A_uc010gih.1_Silent_p.K586K|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	722	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						CACAATCATGCTTCCTGCGGA	0.622													6	53					0	0	1	0	0		T	50235532	T	T	50235532	2	4	27	1	0	0	0	0	0	0	0	1	1199	796	28	2		2	ATP9A	20	50235532	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	95752	50235532	12789988	7930	30281											
SALL4	57167	broad.mit.edu	37	chr20	50406794	50406794	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgctgccctggcgctgcAggttaaaaggggcaggaccc	7	7	14	13	1	1	0	0	0	1	0	1	1	1	1	2	5	3	5	2	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:50406794A>G	uc002xwh.3	-	2	2329	c.2228T>C	c.(2227-2229)CTG>CCG	p.L743P	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	743					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTGGCGCTGCAGGTTAAAAGG	0.587													4	41					0	0	1	0	0		G	50406794	G	G	50406794	3	3	27	1	0	0	0	0	1	0	0	0	13838	188	7	3	945	3	SALL4	20	50406794	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	171262	50406794	12618726	7931	30282											
ZFP64	55734	broad.mit.edu	37	chr20	50715059	50715059	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagtgatgacaggggcCttcggagtgtcagtgctttc	8	10	16	7	1	1	3	1	2	0	1	3	5	1	5	1	4	1	1	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:50715059C>A	uc002xwk.2	-	6	1180	c.831G>T	c.(829-831)AAG>AAT	p.K277N	ZFP64_uc002xwj.2_Missense_Mutation_p.K58N	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						TGACAGGGGCCTTCGGAGTGT	0.483													6	72					0.217242	0.218248	1	1	0		A	50715059	A	A	50715059	3	1	27	1	0	0	0	0	1	0	0	0	17677	680	24	5	1122	5	ZFP64	20	50715059	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	308265	50715059	12310461	7932	30283											
ZNF217	7764	broad.mit.edu	37	chr20	52198090	52198090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccattttcatccagaggggCggcgaggtcaggagaacacg	10	7	14	10	3	2	2	2	0	0	2	4	4	4	2	2	5	1	0	2	5	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:52198090C>T	uc002xwq.3	-	1	1547	c.1276G>A	c.(1276-1278)GCC>ACC	p.A426T	ZNF217_uc010gij.1_Missense_Mutation_p.A418T	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	426					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			TCCAGAGGGGCGGCGAGGTCA	0.637													14	67					0	0	1	0	0		T	52198090	T	T	52198090	3	4	27	1	0	0	0	0	1	0	0	0	17797	768	27	1	1886	1	ZNF217	20	52198090	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1483031	52198090	10827430	7933	30284											
BCAS1	8537	broad.mit.edu	37	chr20	52573988	52573988	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttggcagctggagtcttTcccatttatttcttctgagt	6	18	8	9	0	3	1	0	1	3	0	4	2	4	2	1	2	2	2	1	2	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:52573988T>C	uc002xws.2	-	10	1737	c.1399A>G	c.(1399-1401)AAA>GAA	p.K467E	BCAS1_uc010zza.1_Intron|BCAS1_uc010zzb.1_Intron|BCAS1_uc010gim.2_Intron|BCAS1_uc002xwt.2_Missense_Mutation_p.K453E|BCAS1_uc010gil.1_Intron	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	467						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			CTGGAGTCTTTCCCATTTATT	0.433													11	90					0	0	1	0	0		C	52573988	C	C	52573988	3	2	27	1	0	0	0	0	1	0	0	0	1351	1792	62	3	367	3	BCAS1	20	52573988	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	375898	52573988	10451532	7934	30285											
CYP24A1	1591	broad.mit.edu	37	chr20	52779357	52779357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaaaggaaatctgcactagGctgctgagaatacttctcta	14	10	8	9	0	2	1	0	1	2	1	3	3	2	2	0	2	3	3	0	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:52779357G>A	uc002xwv.2	-	7	1287	c.889C>T	c.(889-891)CCT>TCT	p.P297S	CYP24A1_uc002xwu.1_Missense_Mutation_p.P155S|CYP24A1_uc002xww.2_Missense_Mutation_p.P297S	NM_000782	NP_000773	Q07973	CP24A_HUMAN	cytochrome P450 family 24 subfamily A	297					hormone biosynthetic process|osteoblast differentiation|vitamin D catabolic process|vitamin D receptor signaling pathway|xenobiotic metabolic process	mitochondrial inner membrane	1-alpha,25-dihydroxyvitamin D3 24-hydroxylase activity|electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		STAD - Stomach adenocarcinoma(23;0.206)		Calcidiol(DB00146)|Calcitriol(DB00136)|Cholecalciferol(DB00169)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	TCTGCACTAGGCTGCTGAGAA	0.438													5	66					0	0	1	0	0		A	52779357	A	A	52779357	3	1	27	1	0	0	0	0	1	0	0	0	4157	1203	42	2	675	2	CYP24A1	20	52779357	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	205369	52779357	10246163	7935	30286											
AURKA	6790	broad.mit.edu	37	chr20	54956577	54956577	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catattccagaattaggtagActctggtagcatcatggaaa	14	11	9	7	0	2	2	1	0	1	2	3	3	3	3	1	3	1	3	1	3	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:54956577A>G	uc002xxd.1	-	8	1183	c.617T>C	c.(616-618)GTC>GCC	p.V206A	AURKA_uc002xxe.1_Missense_Mutation_p.V206A|AURKA_uc002xxf.1_Missense_Mutation_p.V206A|AURKA_uc002xxg.1_Missense_Mutation_p.V206A|AURKA_uc002xxh.1_Missense_Mutation_p.V206A|AURKA_uc002xxi.1_Missense_Mutation_p.V206A|AURKA_uc002xxj.1_Missense_Mutation_p.V206A|AURKA_uc002xxk.1_Missense_Mutation_p.V206A|AURKA_uc010zzd.1_RNA	NM_198433	NP_940835	O14965	AURKA_HUMAN	serine/threonine protein kinase 6	206	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|phosphatidylinositol-mediated signaling|regulation of protein stability|spindle organization	cytosol|nucleus|perinuclear region of cytoplasm|spindle microtubule|spindle pole centrosome	ATP binding|protein kinase binding|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(1)|large_intestine(1)|skin(1)	8			Colorectal(105;0.202)			AATTAGGTAGACTCTGGTAGC	0.378													5	66					0	0	1	0	0		G	54956577	G	G	54956577	3	3	27	1	0	0	0	0	1	0	0	0	1222	275	10	3	610	3	AURKA	20	54956577	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2177220	54956577	8068943	7936	30287											
C20orf85	128602	broad.mit.edu	37	chr20	56735739	56735739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttccatcccccccagtccCacagaccacccagggcttca	8	7	5	21	0	1	1	1	0	0	1	4	1	4	1	7	1	0	1	7	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:56735739C>T	uc002xyv.2	+	4	313	c.275C>T	c.(274-276)CCA>CTA	p.P92L		NM_178456	NP_848551	Q9H1P6	CT085_HUMAN	hypothetical protein LOC128602	92										ovary(1)	1	all_epithelial(3;5.99e-14)|Lung NSC(12;0.000152)|all_lung(29;0.000518)|Melanoma(10;0.118)		BRCA - Breast invasive adenocarcinoma(13;5.53e-12)|Epithelial(14;7.42e-08)|all cancers(14;7.19e-07)			CCCCCAGTCCCACAGACCACC	0.572													3	28					0	0	1	0	0		T	56735739	T	T	56735739	3	4	27	1	0	0	0	0	1	0	0	0	2123	594	21	4	289	4	C20orf85	20	56735739	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1779162	56735739	6289781	7937	30288											
STX16	8675	broad.mit.edu	37	chr20	57244488	57244488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccaccagcttccggcacGcacagtcaggctacctcaaa	10	7	7	17	2	3	0	2	0	1	0	5	0	4	0	4	2	2	4	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:57244488G>A	uc002xzi.2	+	5	1270	c.535G>A	c.(535-537)GCA>ACA	p.A179T	STX16_uc010zzq.1_Intron|STX16_uc002xzk.2_Missense_Mutation_p.A162T|STX16_uc002xzm.2_Missense_Mutation_p.A175T|STX16_uc002xzj.2_Missense_Mutation_p.A158T|STX16_uc002xzl.2_Intron	NM_001001433	NP_001001433	O14662	STX16_HUMAN	syntaxin 16 isoform a	179	Cytoplasmic (Potential).				intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|microsome|SNARE complex	SNAP receptor activity			ovary(1)	1	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;3.73e-09)|Epithelial(14;8.54e-06)|all cancers(14;6.89e-05)			CTTCCGGCACGCACAGTCAGG	0.587													4	39					0	0	1	0	0		A	57244488	A	A	57244488	3	1	27	1	0	0	0	0	1	0	0	0	15364	1087	38	1	553	1	STX16	20	57244488	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	508749	57244488	5781032	7938	30289											
GNAS	2778	broad.mit.edu	37	chr20	57429108	57429108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagtcgcggcctcgagtgCggtccgcctcactcccgccg	3	6	14	18	7	1	0	1	0	0	0	5	1	3	0	5	3	1	1	5	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:57429108C>T	uc002xzw.2	+	1	1073	c.788C>T	c.(787-789)GCG>GTG	p.A263V	GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			GCCTCGAGTGCGGTCCGCCTC	0.672			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			5	9					0	0	1	0	0		T	57429108	T	T	57429108	3	4	27	1	0	0	0	0	1	0	0	0	6525	768	27	1	1532	1	GNAS	20	57429108	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	184620	57429108	5596412	7939	30290											
TH1L	51497	broad.mit.edu	37	chr20	57566480	57566480	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttggcgtacgcagcaagCgtggttgagacctggaagaa	11	8	14	8	3	1	2	0	1	1	2	1	4	1	3	1	3	3	4	1	3	4	3	rs143108259	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:57566480C>T	uc002yag.2	+	9	1122	c.1095C>T	c.(1093-1095)AGC>AGT	p.S365S	TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Silent_p.S365S	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	365					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			ACGCAGCAAGCGTGGTTGAGA	0.458													8	68					0	0	1	0	0		T	57566480	T	T	57566480	2	4	27	1	0	0	0	0	0	0	0	1	15864	767	27	1		1	TH1L	20	57566480	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	137372	57566480	5459040	7940	30291											
TH1L	51497	broad.mit.edu	37	chr20	57568788	57568788	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggagaagctggacactgAcatttcactcattcgctatt	10	13	8	10	1	3	2	2	1	1	1	4	4	3	3	0	2	1	2	0	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:57568788A>G	uc002yag.2	+	13	1604	c.1577A>G	c.(1576-1578)GAC>GGC	p.D526G	TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Intron	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	526					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			CTGGACACTGACATTTCACTC	0.443													6	127					0	0	1	0	0		G	57568788	G	G	57568788	3	3	27	1	0	0	0	0	1	0	0	0	15864	275	10	3	1627	3	TH1L	20	57568788	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2308	57568788	5456732	7941	30292											
TUBB1	81027	broad.mit.edu	37	chr20	57599377	57599377	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgttcgatgcccgcaatAccatggctgcctgtgacctc	8	10	10	13	2	0	2	0	1	0	1	2	3	0	2	4	1	3	3	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:57599377A>G	uc002yak.2	+	4	1164	c.895A>G	c.(895-897)ACC>GCC	p.T299A		NM_030773	NP_110400	Q9H4B7	TBB1_HUMAN	beta tubulin 1, class VI	299					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity			ovary(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)		Colchicine(DB01394)|Docetaxel(DB01248)|Paclitaxel(DB01229)|Vindesine(DB00309)	TGCCCGCAATACCATGGCTGC	0.632													3	35					0	0	1	0	0		G	57599377	G	G	57599377	3	3	27	1	0	0	0	0	1	0	0	0	16779	391	14	3	909	3	TUBB1	20	57599377	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	30589	57599377	5426143	7942	30293											
ZNF831	128611	broad.mit.edu	37	chr20	57766438	57766438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaacatcgtgggcactctgCctgtcctgtcgccgggcctg	4	10	13	14	3	1	1	0	1	1	0	4	1	2	1	4	2	2	1	4	2	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:57766438C>T	uc002yan.2	+	1	364	c.364C>T	c.(364-366)CCT>TCT	p.P122S		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	122						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGGCACTCTGCCTGTCCTGTC	0.682													4	29					0	0	1	0	0		T	57766438	T	T	57766438	3	4	27	1	0	0	0	0	1	0	0	0	18210	739	26	2	366	2	ZNF831	20	57766438	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	167061	57766438	5259082	7943	30294											
ZNF831	128611	broad.mit.edu	37	chr20	57766652	57766652	+	Missense_Mutation	SNP	C	T	T																															tctctacaagcacaggcggaCgcagacgcacctcaacaact																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:57766652C>T	uc002yan.2	+	1	578	c.578C>T	c.(577-579)ACG>ATG	p.T193M		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	193	C2H2-type 2.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CACAGGCGGACGCAGACGCAC	0.662													17	71					0	0	1	0	0		T	57766652	T	T	57766652	3	4	27	1	0	0	0	0	1	0	0	0	18210	536	19	1	580	1	ZNF831	20	57766652	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	214	57766652	5258868	7944	30295	63	2									
ZNF831	128611	broad.mit.edu	37	chr20	57766659	57766659	+	Silent	SNP	G	A	A																															aagcacaggcggacgcagacGcacctcaacaactcccggct																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:57766659G>A	uc002yan.2	+	1	585	c.585G>A	c.(583-585)ACG>ACA	p.T195T		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	195	C2H2-type 2.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGACGCAGACGCACCTCAACA	0.667													8	78					0	0	1	0	0		A	57766659	A	A	57766659	2	1	27	1	0	0	0	0	0	0	0	1	18210	1074	38	1		1	ZNF831	20	57766659	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7	57766659	5258861	7945	30296	63	2									
C20orf177	63939	broad.mit.edu	37	chr20	58519370	58519370	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctgaagaaattgatccAgtttactttgatcttcaccc	11	13	7	10	1	2	4	1	3	1	1	3	5	3	4	2	0	2	2	2	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:58519370A>G	uc002yba.2	+	5	787	c.372A>G	c.(370-372)CCA>CCG	p.P124P	C20orf177_uc010zzx.1_Intron|C20orf177_uc002ybc.2_Silent_p.P124P	NM_022106	NP_071389	Q9NTX9	CT177_HUMAN	hypothetical protein LOC63939	124										ovary(2)|breast(1)	3	all_lung(29;0.00693)		BRCA - Breast invasive adenocarcinoma(7;1.22e-08)			AAATTGATCCAGTTTACTTTG	0.453													5	74					0	0	1	0	0		G	58519370	G	G	58519370	2	3	27	1	0	0	0	0	0	0	0	1	2099	175	7	3		3	C20orf177	20	58519370	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	752711	58519370	4506150	7946	30297											
NTSR1	4923	broad.mit.edu	37	chr20	61391524	61391524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctgcccggtgtggcggCgcaggaggaagaggccagcc	6	4	18	13	3	1	1	0	0	1	1	1	3	1	3	4	6	2	1	4	6	1	0	rs73918681	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:61391524C>T	uc002ydf.2	+	4	1533	c.1162C>T	c.(1162-1164)CGC>TGC	p.R388C		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1	388	Cytoplasmic (Potential).					endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			GGTGTGGCGGCGCAGGAGGAA	0.632													20	84					0	0	1	0	0		T	61391524	T	T	61391524	3	4	27	1	0	0	0	0	1	0	0	0	10729	768	27	1	1176	1	NTSR1	20	61391524	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2872154	61391524	1633996	7947	30298											
COL20A1	57642	broad.mit.edu	37	chr20	61941211	61941211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggactccagccccccggCaccccctcaagtatctgatc	7	7	7	20	1	2	1	1	1	1	0	4	2	3	2	7	2	1	2	7	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:61941211C>T	uc011aau.1	+	10	1307	c.1207C>T	c.(1207-1209)CAC>TAC	p.H403Y	COL20A1_uc011aav.1_Missense_Mutation_p.H224Y	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	403	Fibronectin type-III 2.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					AGCCCCCCGGCACCCCCTCAA	0.692											OREG0026127	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	12					0	0	1	0	0		T	61941211	T	T	61941211	3	4	27	1	0	0	0	0	1	0	0	0	3682	710	25	2	1241	2	COL20A1	20	61941211	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	549687	61941211	1084309	7948	30299											
CHRNA4	1137	broad.mit.edu	37	chr20	61981776	61981776	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtggcgagcggtggtgcacGttgagcacgaagaccgtgat	8	7	17	9	6	0	3	0	2	0	1	0	5	0	3	1	3	3	3	1	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:61981776G>A	uc002yes.2	-	5	1165	c.987C>T	c.(985-987)AAC>AAT	p.N329N	CHRNA4_uc002yet.1_Silent_p.N153N|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Silent_p.N258N|CHRNA4_uc002yev.1_Silent_p.N153N|CHRNA4_uc010gkf.1_Silent_p.N153N	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	329	Helical; (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	GGTGGTGCACGTTGAGCACGA	0.622													5	67					0	0	1	0	0		A	61981776	A	A	61981776	2	1	27	1	0	0	0	0	0	0	0	1	3388	1136	40	1		1	CHRNA4	20	61981776	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	40565	61981776	1043744	7949	30300											
KCNQ2	3785	broad.mit.edu	37	chr20	62038197	62038197	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctccttggactgggagaTgctgaagccgctgaaggaac	9	9	14	9	1	1	3	0	2	1	1	2	6	1	5	2	3	3	3	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:62038197T>C	uc002yey.1	-	17	2596	c.2419A>G	c.(2419-2421)ATC>GTC	p.I807V	KCNQ2_uc002yez.1_Missense_Mutation_p.I776V|KCNQ2_uc002yfa.1_Missense_Mutation_p.I789V|KCNQ2_uc002yfb.1_Missense_Mutation_p.I779V	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	807	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	GACTGGGAGATGCTGAAGCCG	0.637													5	21					0	0	1	0	0		C	62038197	C	C	62038197	3	2	27	1	0	0	0	0	1	0	0	0	8099	1464	51	3	203	3	KCNQ2	20	62038197	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	56421	62038197	987323	7950	30301											
EEF1A2	1917	broad.mit.edu	37	chr20	62121899	62121899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacacacgttgccccgcCggatgtccttcaccgacacg	7	6	8	20	5	1	0	1	0	0	0	2	2	2	1	7	1	1	1	7	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:62121899C>T	uc002yfd.1	-	5	1063	c.962G>A	c.(961-963)CGG>CAG	p.R321Q	EEF1A2_uc002yfe.1_Missense_Mutation_p.R321Q|EEF1A2_uc010gkg.1_Missense_Mutation_p.R321Q	NM_001958	NP_001949	Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha	321						nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			GTTGCCCCGCCGGATGTCCTT	0.652													19	60					0	0	1	0	0		T	62121899	T	T	62121899	3	4	27	1	0	0	0	0	1	0	0	0	4930	652	23	1	441	1	EEF1A2	20	62121899	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	83702	62121899	903621	7951	30302											
PRIC285	85441	broad.mit.edu	37	chr20	62192702	62192702	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccctggcccctgccacttaCcagaccaggtcctccctgga	6	7	8	20	0	0	1	0	0	0	1	2	2	2	2	9	3	2	0	9	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:62192702C>T	uc002yfm.2	-	14	7845	c.6953_splice	c.e14+1	p.W2318_splice	PRIC285_uc002yfl.1_Splice_Site_p.W1749_splice	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285						cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CTGCCACTTACCAGACCAGGT	0.647													10	92					0	0	1	0	0		T	62192702	T	T	62192702	5	4	27	1	0	0	0	0	0	0	1	0	12507	521	18	4	1023	4	PRIC285	20	62192702	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	70803	62192702	832818	7952	30303											
PRIC285	85441	broad.mit.edu	37	chr20	62196064	62196064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggccacatcagtgatgtGcacagccacctcgcacctgg	8	7	11	15	1	1	1	1	1	0	0	2	1	1	1	4	2	2	3	4	2	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:62196064G>A	uc002yfm.2	-	9	5003	c.4111C>T	c.(4111-4113)CAC>TAC	p.H1371Y	PRIC285_uc002yfl.1_Missense_Mutation_p.H802Y	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1371					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			TCAGTGATGTGCACAGCCACC	0.672													3	14					0	0	1	0	0		A	62196064	A	A	62196064	3	1	27	1	0	0	0	0	1	0	0	0	12507	1319	46	2	3886	2	PRIC285	20	62196064	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3362	62196064	829456	7953	30304											
ZBTB46	140685	broad.mit.edu	37	chr20	62378537	62378537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccggccatgccgcggcCagcacagtcggtgcacacac	7	3	14	17	4	0	0	0	0	0	0	1	0	0	0	4	4	3	2	4	4	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:62378537C>T	uc002ygv.1	-	5	1717	c.1516G>A	c.(1516-1518)GGC>AGC	p.G506S	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	506					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					ATGCCGCGGCCAGCACAGTCG	0.697													4	10					0	0	1	0	0		T	62378537	T	T	62378537	3	4	27	1	0	0	0	0	1	0	0	0	17572	594	21	4	257	4	ZBTB46	20	62378537	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	182473	62378537	646983	7954	30305											
ZBTB46	140685	broad.mit.edu	37	chr20	62407049	62407049	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggacagcgagtgggcccCtctgggcaggtactcgaaca	9	5	15	12	3	1	0	0	0	1	0	2	3	1	1	2	4	3	2	2	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:62407049C>A	uc002ygv.1	-	3	1405	c.1204G>T	c.(1204-1206)GGG>TGG	p.G402W	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	402					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					GAGTGGGCCCCTCTGGGCAGG	0.642											OREG0026130	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	70					0.000602214	0.000630257	1	1	0		A	62407049	A	A	62407049	3	1	27	1	0	0	0	0	1	0	0	0	17572	681	24	5	577	5	ZBTB46	20	62407049	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	28512	62407049	618471	7955	30306											
ZNF512B	57473	broad.mit.edu	37	chr20	62597536	62597536	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtggcacgaggtgctttgTtctccgacctggtcagcagc	5	11	13	12	2	2	0	1	0	1	0	3	2	2	0	2	3	3	4	2	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:62597536T>A	uc002yhl.1	-	5	1046	c.992A>T	c.(991-993)AAC>ATC	p.N331I		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	331					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					AGGTGCTTTGTTCTCCGACCT	0.577													5	65					0	0	1	0	0		A	62597536	A	A	62597536	3	1	27	1	0	0	0	0	1	0	0	0	17982	1725	60	5	1738	5	ZNF512B	20	62597536	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	190487	62597536	427984	7956	30307											
PRPF6	24148	broad.mit.edu	37	chr20	62626810	62626810	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattggccaagcgaggaacaCtctgatggacatgaggctga	12	7	14	8	1	1	3	0	3	1	0	1	7	1	5	1	4	2	1	1	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:62626810C>A	uc002yho.2	+	6	914	c.746C>A	c.(745-747)ACT>AAT	p.T249N	PRPF6_uc002yhp.2_Missense_Mutation_p.T249N	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	249					assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					GCGAGGAACACTCTGATGGAC	0.458													4	73					0.150653	0.151846	1	1	0		A	62626810	A	A	62626810	3	1	27	1	0	0	0	0	1	0	0	0	12596	565	20	5	768	5	PRPF6	20	62626810	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	29274	62626810	398710	7957	30308											
RGS19	10287	broad.mit.edu	37	chr20	62705223	62705223	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctaggcctcggaggaggActgtgatggcccctgcagca	7	6	16	12	1	0	1	0	1	0	0	1	4	0	4	4	6	2	2	4	6	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:62705223A>T	uc002yhy.2	-	6	904	c.637T>A	c.(637-639)TCC>ACC	p.S213T	RGS19_uc002yhz.2_Missense_Mutation_p.S191T|RGS19_uc002yia.2_Missense_Mutation_p.S213T|RGS19_uc002yib.2_Missense_Mutation_p.S213T	NM_005873	NP_005864	P49795	RGS19_HUMAN	G protein signalling regulator 19	213	Interaction with GIPC.				autophagy|G-protein coupled receptor protein signaling pathway|negative regulation of signal transduction|small GTPase mediated signal transduction	Golgi apparatus|membrane fraction|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			skin(1)	1	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					TCGGAGGAGGACTGTGATGGC	0.672													8	50					0	0	1	0	0		T	62705223	T	T	62705223	3	4	27	1	0	0	0	0	1	0	0	0	13326	275	10	5	20	5	RGS19	20	62705223	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	78413	62705223	320297	7958	30309											
NPBWR2	2832	broad.mit.edu	37	chr20	62737989	62737989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttaggattacaaggatgaCggccgtgttgccagtcagcc	9	9	12	11	2	1	1	1	1	0	0	1	3	1	3	4	3	3	1	4	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:62737989C>T	uc011abt.1	-	1	196	c.196G>A	c.(196-198)GTC>ATC	p.V66I		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	66	Helical; Name=1; (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					ACAAGGATGACGGCCGTGTTG	0.612													7	19					0	0	1	0	0		T	62737989	T	T	62737989	3	4	27	1	0	0	0	0	1	0	0	0	10588	536	19	1	808	1	NPBWR2	20	62737989	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	32766	62737989	287531	7959	30310											
PCMTD2	55251	broad.mit.edu	37	chr20	62896678	62896678	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctccggattgttctcagTatgatcgtgtatactgtggg	6	17	11	7	2	2	1	1	1	2	0	5	2	2	2	1	2	1	3	1	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr20:62896678T>C	uc002yil.3	+	4	678	c.478T>C	c.(478-480)TAT>CAT	p.Y160H	PCMTD2_uc002yim.3_Missense_Mutation_p.Y160H	NM_018257	NP_060727	Q9NV79	PCMD2_HUMAN	protein-L-isoaspartate (D-aspartate)	160						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					TTGTTCTCAGTATGATCGTGT	0.448													9	161					0	0	1	0	0		C	62896678	C	C	62896678	3	2	27	1	0	0	0	0	1	0	0	0	11606	1638	57	3	488	3	PCMTD2	20	62896678	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	158689	62896678	128842	7960	30311											
RBM11	54033	broad.mit.edu	37	chr21	15599525	15599525	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacgaaagagacaaaagcaaAcaagtgatagtgatagtagc	21	5	10	5	1	0	3	0	2	0	1	0	5	0	3	0	0	4	2	0	0	9	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:15599525A>G	uc002yjo.3	+	5	799	c.757A>G	c.(757-759)ACA>GCA	p.T253A	RBM11_uc002yjn.3_Missense_Mutation_p.T139A|RBM11_uc002yjp.3_Missense_Mutation_p.T139A	NM_144770	NP_658983	P57052	RBM11_HUMAN	RNA binding motif protein 11	253							nucleotide binding|RNA binding				0				Epithelial(23;0.000314)|COAD - Colon adenocarcinoma(22;0.00242)|Colorectal(24;0.0129)|Lung(58;0.141)		ACAAAAGCAAACAAGTGATAG	0.398													8	182					0	0	1	0	0		G	15599525	G	G	15599525	3	3	27	1	0	0	0	0	1	0	0	0	13137	43	2	3	775	3	RBM11	21	15599525	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08		15599525	32530370	7961	30312											
USP25	29761	broad.mit.edu	37	chr21	17172081	17172081	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgttctttttcagtcattAtttaatcttttggaatttag	8	23	6	4	0	4	0	2	0	2	0	4	1	4	1	0	1	0	2	0	1	4	11			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:17172081A>T	uc002yjy.1	+	6	778	c.561A>T	c.(559-561)TTA>TTT	p.L187F	USP25_uc011aby.1_Missense_Mutation_p.L187F|USP25_uc002yjz.1_Missense_Mutation_p.L187F|USP25_uc010gla.1_Missense_Mutation_p.L187F	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	187					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		TTCAGTCATTATTTAATCTTT	0.299													4	51					0	0	1	0	0		T	17172081	T	T	17172081	3	4	27	1	0	0	0	0	1	0	0	0	17082	446	16	5	583	5	USP25	21	17172081	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1572556	17172081	30957814	7962	30313											
USP25	29761	broad.mit.edu	37	chr21	17203831	17203831	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatggatgaagtacaatgatAttgctgtgacaaaatcatca	16	11	9	5	0	2	3	2	3	0	0	2	5	2	4	0	1	2	2	0	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:17203831A>T	uc002yjy.1	+	16	2093	c.1876A>T	c.(1876-1878)ATT>TTT	p.I626F	USP25_uc011aby.1_Missense_Mutation_p.I626F|USP25_uc002yjz.1_Missense_Mutation_p.I626F|USP25_uc010gla.1_Intron	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	626					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		GTACAATGATATTGCTGTGAC	0.398													9	97					0	0	1	0	0		T	17203831	T	T	17203831	3	4	27	1	0	0	0	0	1	0	0	0	17082	449	16	5	1938	5	USP25	21	17203831	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	31750	17203831	30926064	7963	30314											
USP25	29761	broad.mit.edu	37	chr21	17246734	17246734	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcaagttatatagattcCttgctgttcctcatctgtgc	7	19	6	9	0	3	1	2	0	1	1	5	1	5	1	2	0	2	3	2	0	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:17246734C>A	uc002yjy.1	+	22	2905	c.2688C>A	c.(2686-2688)TCC>TCA	p.S896S	USP25_uc011aby.1_Silent_p.S966S|USP25_uc002yjz.1_Silent_p.S928S|USP25_uc010gla.1_Silent_p.S291S	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	896					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		ATATAGATTCCTTGCTGTTCC	0.284													4	65					0.000602214	0.000630257	1	1	0		A	17246734	A	A	17246734	2	1	27	1	0	0	0	0	0	0	0	1	17082	668	24	5		5	USP25	21	17246734	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	42903	17246734	30883161	7964	30315											
TMPRSS15	5651	broad.mit.edu	37	chr21	19642347	19642347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggcatacactccggggCgattaggcagggcacacttg	8	7	13	13	2	0	0	0	0	0	0	1	1	1	0	2	5	1	3	2	5	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:19642347C>T	uc002ykw.2	-	25	3030	c.2999G>A	c.(2998-3000)CGC>CAC	p.R1000H		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	1000	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						CACTCCGGGGCGATTAGGCAG	0.448													5	85					0	0	1	0	0		T	19642347	T	T	19642347	3	4	27	1	0	0	0	0	1	0	0	0	16271	768	27	1	64	1	TMPRSS15	21	19642347	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2395613	19642347	28487548	7965	30316											
NCAM2	4685	broad.mit.edu	37	chr21	22746311	22746311	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaattggagggcatcaaaaGagcatgtaccttgatattga	15	10	11	5	0	1	4	1	2	0	2	1	5	1	5	1	2	2	3	1	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:22746311G>A	uc002yld.1	+	9	1422	c.1173G>A	c.(1171-1173)AAG>AAA	p.K391K	NCAM2_uc011acb.1_Silent_p.K249K|NCAM2_uc011acc.1_Silent_p.K416K	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	391	Ig-like C2-type 4.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		GGCATCAAAAGAGCATGTACC	0.353													8	51					0	0	1	0	0		A	22746311	A	A	22746311	2	1	27	1	0	0	0	0	0	0	0	1	10222	933	33	4		4	NCAM2	21	22746311	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3103964	22746311	25383584	7966	30317											
ATP5J	522	broad.mit.edu	37	chr21	27102015	27102015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcaagttccttattaaatgCcactgctgtaacaccaatgt	13	13	5	10	0	1	0	1	0	0	0	2	0	2	0	3	0	3	3	3	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:27102015C>T	uc002yls.2	-	2	764	c.91G>A	c.(91-93)GCA>ACA	p.A31T	ATP5J_uc002ylt.2_Missense_Mutation_p.A31T|ATP5J_uc002ylu.2_Missense_Mutation_p.A31T|ATP5J_uc002ylv.2_Missense_Mutation_p.A39T|ATP5J_uc002ylw.2_Missense_Mutation_p.A31T	NM_001685	NP_001676	P18859	ATP5J_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	31					ATP catabolic process|respiratory electron transport chain		hydrogen ion transmembrane transporter activity				0						TTATTAAATGCCACTGCTGTA	0.408													11	38					0	0	1	0	0		T	27102015	T	T	27102015	3	4	27	1	0	0	0	0	1	0	0	0	1159	739	26	2	247	2	ATP5J	21	27102015	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4355704	27102015	21027880	7967	30318											
APP	351	broad.mit.edu	37	chr21	27372463	27372463	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagcgggagatcattgctcgGcacggccccgtctcggcttg	5	8	14	14	5	2	1	1	0	1	1	4	2	2	1	2	4	2	3	2	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:27372463G>A	uc002ylz.2	-	7	1100	c.900C>T	c.(898-900)TGC>TGT	p.C300C	APP_uc010glk.2_Silent_p.C295C|APP_uc002yma.2_Silent_p.C300C|APP_uc011ach.1_Silent_p.C244C|APP_uc002ymb.2_Intron|APP_uc010glj.2_Intron|APP_uc011aci.1_Intron	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	300	Extracellular (Potential).|BPTI/Kunitz inhibitor.				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				TCATTGCTCGGCACGGCCCCG	0.517													6	61					0	0	1	0	0		A	27372463	A	A	27372463	2	1	27	1	0	0	0	0	0	0	0	1	815	1195	42	2		2	APP	21	27372463	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	270448	27372463	20757432	7968	30319											
CYYR1	116159	broad.mit.edu	37	chr21	27852713	27852713	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgacccccatgataaatActattccaaaaacaatgccc	17	8	3	13	0	0	2	0	2	0	0	1	2	1	2	4	0	3	0	4	0	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:27852713A>C	uc002ymd.2	-	3	534	c.212T>G	c.(211-213)GTA>GGA	p.V71G	CYYR1_uc011ack.1_RNA|CYYR1_uc002yme.2_Missense_Mutation_p.V71G	NM_052954	NP_443186	Q96J86	CYYR1_HUMAN	cysteine and tyrosine-rich 1 protein precursor	71	Helical; (Potential).					integral to membrane					0						CATGATAAATACTATTCCAAA	0.448													11	95					0	0	1	0	0		C	27852713	C	C	27852713	3	2	27	1	0	0	0	0	1	0	0	0	4214	391	14	5	260	5	CYYR1	21	27852713	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	480250	27852713	20277182	7969	30320											
ADAMTS1	9510	broad.mit.edu	37	chr21	28212379	28212379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcttccatgaaaaggcGtctaaatggagacataaatc	15	8	8	10	1	1	2	0	1	1	1	3	3	2	2	2	2	1	1	2	2	6	3	rs142639689	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:28212379G>A	uc002ymf.2	-	6	2122	c.1667C>T	c.(1666-1668)ACG>ATG	p.T556M		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	556	Disintegrin.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		ATGAAAAGGCGTCTAAATGGA	0.443													4	36					0	0	1	0	0		A	28212379	A	A	28212379	3	1	27	1	0	0	0	0	1	0	0	0	255	1159	40	1	1252	1	ADAMTS1	21	28212379	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	359666	28212379	19917516	7970	30321											
ADAMTS5	11096	broad.mit.edu	37	chr21	28302342	28302342	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacttcccccggacgcagacGgaattactgtacagcctaca	11	7	8	15	3	0	1	0	0	0	1	1	3	1	3	3	2	4	2	3	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:28302342G>A	uc002ymg.2	-	7	2817	c.2088C>T	c.(2086-2088)TCC>TCT	p.S696S		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	696	Cys-rich.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						GGACGCAGACGGAATTACTGT	0.498													35	135					0	0	1	0	0		A	28302342	A	A	28302342	2	1	27	1	0	0	0	0	0	0	0	1	269	1103	39	1		1	ADAMTS5	21	28302342	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	89963	28302342	19827553	7971	30322											
RWDD2B	10069	broad.mit.edu	37	chr21	30380219	30380219	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttgcatttgttatagatAtgatggctgtagatccagag	10	16	10	5	0	0	4	0	1	0	3	1	4	1	4	1	1	1	4	1	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:30380219A>T	uc002yms.2	-	4	675	c.588T>A	c.(586-588)CAT>CAA	p.H196Q	RWDD2B_uc002ymt.2_Missense_Mutation_p.H167Q|RWDD2B_uc002ymu.2_RNA|RWDD2B_uc002ymv.2_Missense_Mutation_p.H116Q	NM_016940	NP_058636	P57060	RWD2B_HUMAN	RWD domain containing 2B	196											0						TGTTATAGATATGATGGCTGT	0.458													13	97					0	0	1	0	0		T	30380219	T	T	30380219	3	4	27	1	0	0	0	0	1	0	0	0	13781	446	16	5	379	5	RWDD2B	21	30380219	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2077877	30380219	17749676	7972	30323											
USP16	10600	broad.mit.edu	37	chr21	30409640	30409640	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacttgaaaataaaaaattAgaaaaagagagtaagaatga	25	7	8	1	0	0	5	0	2	0	3	0	7	0	5	0	0	1	1	0	0	11	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:30409640A>G	uc002ymy.2	+	6	694	c.492A>G	c.(490-492)TTA>TTG	p.L164L	USP16_uc002ymx.2_Silent_p.L163L|USP16_uc002ymw.2_Silent_p.L164L|USP16_uc011acm.1_Silent_p.L149L|USP16_uc011acn.1_Intron|USP16_uc011aco.1_5'Flank	NM_006447	NP_006438	Q9Y5T5	UBP16_HUMAN	ubiquitin specific protease 16 isoform a	164					cell division|histone deubiquitination|mitosis|positive regulation of transcription, DNA-dependent|protein homotetramerization|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|histone binding|transcription coactivator activity|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(2)|breast(1)|pancreas(1)	4						ATAAAAAATTAGAAAAAGAGA	0.313													8	45					0	0	1	0	0		G	30409640	G	G	30409640	2	3	27	1	0	0	0	0	0	0	0	1	17073	417	15	3		3	USP16	21	30409640	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	29421	30409640	17720255	7973	30324											
CLDN8	9073	broad.mit.edu	37	chr21	31587620	31587620	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacttctttccggtgtgataActtttttgggttgtgcgatg	5	18	12	6	2	1	1	0	1	1	0	2	3	2	1	1	2	2	1	1	2	1	7	rs146073584	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:31587620A>G	uc002ynu.1	-	1	699	c.624T>C	c.(622-624)AGT>AGC	p.S208S		NM_199328	NP_955360	P56748	CLD8_HUMAN	claudin 8	208	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	endoplasmic reticulum|integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CGGTGTGATAACTTTTTTGGG	0.413													5	100					0	0	1	0	0		G	31587620	G	G	31587620	2	3	27	1	0	0	0	0	0	0	0	1	3494	40	2	3		3	CLDN8	21	31587620	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1177980	31587620	16542275	7974	30325											
KRTAP23-1	337963	broad.mit.edu	37	chr21	31720870	31720870	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagtagcctgagtagcacaGgtagccctcacaggaatggg	11	6	15	9	0	1	1	1	1	0	0	1	3	1	3	2	4	3	4	2	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:31720870G>T	uc002yny.1	-	1	55	c.55C>A	c.(55-57)CTG>ATG	p.L19M		NM_181624	NP_853655	A1A580	KR231_HUMAN	keratin associated protein 23-1	19						intermediate filament					0						GAGTAGCACAGGTAGCCCTCA	0.552													7	66					0.000157383	0.000166242	1	1	0		T	31720870	T	T	31720870	3	4	27	1	0	0	0	0	1	0	0	0	8557	991	35	5	146	5	KRTAP23-1	21	31720870	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	133250	31720870	16409025	7975	30326											
KRTAP13-4	284827	broad.mit.edu	37	chr21	31802878	31802878	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagcagctgtcgctcccaGggctatggatctaggtgctg	6	10	13	12	1	1	0	0	0	1	0	4	1	3	1	2	3	3	5	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:31802878G>T	uc011acw.1	+	1	285	c.285G>T	c.(283-285)CAG>CAT	p.Q95H		NM_181600	NP_853631	Q3LI77	KR134_HUMAN	keratin associated protein 13-4	95						intermediate filament					0						GTCGCTCCCAGGGCTATGGAT	0.547													8	47					0.00307968	0.00318367	1	1	0		T	31802878	T	T	31802878	3	4	27	1	0	0	0	0	1	0	0	0	8541	991	35	5	287	5	KRTAP13-4	21	31802878	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	82008	31802878	16327017	7976	30327											
HUNK	30811	broad.mit.edu	37	chr21	33297038	33297038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgacagctcatctctgccGtagagcacctgcaccgggcc	7	7	10	17	3	2	1	1	0	1	1	4	2	3	1	5	1	4	4	5	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:33297038G>A	uc002yph.2	+	2	880	c.520G>A	c.(520-522)GTA>ATA	p.V174I		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	174	Protein kinase.				multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						CATCTCTGCCGTAGAGCACCT	0.637													4	80					0	0	1	0	0		A	33297038	A	A	33297038	3	1	27	1	0	0	0	0	1	0	0	0	7474	1145	40	1	526	1	HUNK	21	33297038	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1494160	33297038	14832857	7977	30328											
C21orf45	54069	broad.mit.edu	37	chr21	33647200	33647200	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatccacagaaacattacaGgaaacacctagaaacagaga	20	6	6	9	0	0	3	0	0	0	3	1	5	1	4	2	1	4	0	2	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:33647200G>T	uc002ypi.2	-	2	393	c.342C>A	c.(340-342)TCC>TCA	p.S114S	C21orf45_uc011adn.1_Silent_p.S114S	NM_018944	NP_061817	Q9NYP9	MS18A_HUMAN	chromosome 21 open reading frame 45	114					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm					0						AAACATTACAGGAAACACCTA	0.318													9	41					1.58986e-06	1.72494e-06	1	1	0		T	33647200	T	T	33647200	2	4	27	1	0	0	0	0	0	0	0	1	2129	987	35	5		5	C21orf45	21	33647200	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	350162	33647200	14482695	7978	30329											
GCFC1	94104	broad.mit.edu	37	chr21	34117160	34117160	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatccattgattaattttagTgtaattcccaccattcttga	11	18	4	8	0	1	2	0	2	1	0	3	2	3	2	3	0	0	1	3	0	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:34117160T>C	uc002yqn.2	-	13	2323	c.2133A>G	c.(2131-2133)ACA>ACG	p.T711T	GCFC1_uc002yql.2_Silent_p.T220T|GCFC1_uc002yqm.2_Silent_p.T205T|GCFC1_uc002yqo.2_RNA|GCFC1_uc002yqp.2_Silent_p.T711T	NM_016631	NP_057715	Q9Y5B6	GCFC1_HUMAN	GC-rich sequence DNA-binding factor candidate	711				Missing (in Ref. 5; AAD34617).		cytosol|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						TTAATTTTAGTGTAATTCCCA	0.323													18	125					0	0	1	0	0		C	34117160	C	C	34117160	2	2	27	1	0	0	0	0	0	0	0	1	6304	1683	59	3		3	GCFC1	21	34117160	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	469960	34117160	14012735	7979	30330											
GCFC1	94104	broad.mit.edu	37	chr21	34136657	34136657	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatacttttgagtacacAcctggacgaagaacattcaa	17	9	7	8	1	1	3	1	1	0	2	1	5	1	4	1	1	3	1	1	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:34136657A>G	uc002yqn.2	-	3	839	c.649_splice	c.e3+1	p.G217_splice	GCFC1_uc002yqo.2_Splice_Site|GCFC1_uc002yqp.2_Splice_Site_p.G217_splice|GCFC1_uc002yqr.2_Splice_Site_p.G217_splice	NM_016631	NP_057715	Q9Y5B6	GCFC1_HUMAN	GC-rich sequence DNA-binding factor candidate							cytosol|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						TTGAGTACACACCTGGACGAA	0.353													7	53					0	0	1	0	0		G	34136657	G	G	34136657	5	3	27	1	0	0	0	0	0	0	1	0	6304	173	6	3	2284	3	GCFC1	21	34136657	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19497	34136657	13993238	7980	30331											
IFNAR2	3455	broad.mit.edu	37	chr21	34617301	34617301	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagatatcattgcgaaattTccggtccatcttatcatggg	11	13	8	9	2	3	1	2	0	1	1	5	2	5	1	2	2	1	0	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:34617301T>A	uc002yrd.2	+	4	471	c.143T>A	c.(142-144)TTC>TAC	p.F48Y	IFNAR2_uc002yrb.2_Missense_Mutation_p.F48Y|IFNAR2_uc002yrc.2_Missense_Mutation_p.F48Y|IFNAR2_uc002yre.2_Missense_Mutation_p.F48Y|IFNAR2_uc002yrf.2_Missense_Mutation_p.F48Y|IFNAR2_uc002yrg.2_5'Flank	NM_207585	NP_997468	P48551	INAR2_HUMAN	interferon alpha/beta receptor 2 isoform a	48	Extracellular (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to interferon-alpha|response to virus|type I interferon-mediated signaling pathway	extracellular region|extracellular space|integral to plasma membrane	protein kinase binding|type I interferon binding|type I interferon receptor activity				0					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	TTGCGAAATTTCCGGTCCATC	0.353													7	109					0	0	1	0	0		A	34617301	A	A	34617301	3	1	27	1	0	0	0	0	1	0	0	0	7561	1783	62	5	153	5	IFNAR2	21	34617301	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	480644	34617301	13512594	7981	30332											
IFNAR2	3455	broad.mit.edu	37	chr21	34619086	34619086	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaagatcattttgtgacctCacagatgagtggagaagcac	14	9	10	8	0	2	5	2	2	0	3	2	6	2	5	1	1	1	1	1	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:34619086C>T	uc002yrd.2	+	5	613	c.285C>T	c.(283-285)CTC>CTT	p.L95L	IFNAR2_uc002yrb.2_Silent_p.L95L|IFNAR2_uc002yrc.2_Silent_p.L95L|IFNAR2_uc002yre.2_Silent_p.L95L|IFNAR2_uc002yrf.2_Silent_p.L95L|IFNAR2_uc002yrg.2_5'UTR|IL10RB_uc002yrh.1_5'Flank|IL10RB_uc002yri.1_5'Flank	NM_207585	NP_997468	P48551	INAR2_HUMAN	interferon alpha/beta receptor 2 isoform a	95	Extracellular (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to interferon-alpha|response to virus|type I interferon-mediated signaling pathway	extracellular region|extracellular space|integral to plasma membrane	protein kinase binding|type I interferon binding|type I interferon receptor activity				0					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	TTTGTGACCTCACAGATGAGT	0.423													6	43					0	0	1	0	0		T	34619086	T	T	34619086	2	4	27	1	0	0	0	0	0	0	0	1	7561	813	29	4		4	IFNAR2	21	34619086	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1785	34619086	13510809	7982	30333											
IFNAR2	3455	broad.mit.edu	37	chr21	34619165	34619165	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacacaacgttgttcagtTgctcacacaatttctggctg	10	12	9	10	1	3	0	2	0	1	0	3	1	3	1	0	2	3	5	0	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:34619165T>C	uc002yrd.2	+	5	692	c.364T>C	c.(364-366)TGC>CGC	p.C122R	IFNAR2_uc002yrb.2_Missense_Mutation_p.C122R|IFNAR2_uc002yrc.2_Missense_Mutation_p.C122R|IFNAR2_uc002yre.2_Missense_Mutation_p.C122R|IFNAR2_uc002yrf.2_Missense_Mutation_p.C122R|IFNAR2_uc002yrg.2_5'UTR|IL10RB_uc002yrh.1_5'Flank|IL10RB_uc002yri.1_5'Flank	NM_207585	NP_997468	P48551	INAR2_HUMAN	interferon alpha/beta receptor 2 isoform a	122	Extracellular (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to interferon-alpha|response to virus|type I interferon-mediated signaling pathway	extracellular region|extracellular space|integral to plasma membrane	protein kinase binding|type I interferon binding|type I interferon receptor activity				0					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	GTTGTTCAGTTGCTCACACAA	0.443													5	34					0	0	1	0	0		C	34619165	C	C	34619165	3	2	27	1	0	0	0	0	1	0	0	0	7561	1812	63	3	378	3	IFNAR2	21	34619165	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	79	34619165	13510730	7983	30334											
IL10RB	3588	broad.mit.edu	37	chr21	34660535	34660535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaagtacgccttctcccCtaggaattctcttccacagc	10	10	6	15	1	2	0	0	0	2	0	5	2	3	1	4	1	2	1	4	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:34660535C>T	uc002yrk.1	+	6	872	c.773C>T	c.(772-774)CCT>CTT	p.P258L	IL10RB_uc002yrl.1_Missense_Mutation_p.P260L	NM_000628	NP_000619	Q08334	I10R2_HUMAN	interleukin 10 receptor, beta precursor	258	Cytoplasmic (Potential).				immune response|inflammatory response	interleukin-28 receptor complex	protein binding|receptor activity				0						GCCTTCTCCCCTAGGAATTCT	0.507													22	67					0	0	1	0	0		T	34660535	T	T	34660535	3	4	27	1	0	0	0	0	1	0	0	0	7637	681	24	4	795	4	IL10RB	21	34660535	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	41370	34660535	13469360	7984	30335											
TMEM50B	757	broad.mit.edu	37	chr21	34837700	34837700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacctctcacctgagcatTggatacagcatttatcctag	11	12	6	12	0	2	1	2	1	1	0	4	2	3	2	3	1	3	2	3	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:34837700T>C	uc002yrt.1	-	4	407	c.229A>G	c.(229-231)AAT>GAT	p.N77D	TMEM50B_uc002yrs.1_RNA|TMEM50B_uc010gmb.1_RNA	NM_006134	NP_006125	P56557	TM50B_HUMAN	transmembrane protein 50B	77						endoplasmic reticulum|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						ACCTGAGCATTGGATACAGCA	0.353													7	75					0	0	1	0	0		C	34837700	C	C	34837700	3	2	27	1	0	0	0	0	1	0	0	0	16201	1812	63	3	263	3	TMEM50B	21	34837700	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	177165	34837700	13292195	7985	30336											
GART	2618	broad.mit.edu	37	chr21	34897169	34897169	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctagtcctttcttggctTcctcaagggctgatatgaga	8	13	10	10	0	2	2	1	2	1	1	4	3	4	2	2	2	1	3	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:34897169T>G	uc002yrx.2	-	11	1340	c.1205A>C	c.(1204-1206)GAA>GCA	p.E402A	GART_uc002yrz.2_Missense_Mutation_p.E402A|GART_uc010gmd.2_Missense_Mutation_p.E64A|GART_uc002yry.2_Missense_Mutation_p.E402A|GART_uc002ysa.2_Missense_Mutation_p.E402A	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	402					'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	TTTCTTGGCTTCCTCAAGGGC	0.483													12	136					0	0	1	0	0		G	34897169	G	G	34897169	3	3	27	1	0	0	0	0	1	0	0	0	6258	1783	62	5	1879	5	GART	21	34897169	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	59469	34897169	13232726	7986	30337											
SON	6651	broad.mit.edu	37	chr21	34923142	34923142	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggtgacaacggcaacaggGttgctggggcagcctgaggc	9	5	18	9	1	0	2	0	2	0	0	0	3	0	2	1	6	4	4	1	6	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:34923142G>A	uc002yse.1	+	3	1654	c.1605G>A	c.(1603-1605)GGG>GGA	p.G535G	SON_uc002ysb.1_Silent_p.G535G|SON_uc002ysc.2_Silent_p.G535G|SON_uc002ysd.2_5'UTR|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	535					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						CGGCAACAGGGTTGCTGGGGC	0.617													34	106					0	0	1	0	0		A	34923142	A	A	34923142	2	1	27	1	0	0	0	0	0	0	0	1	14951	1248	44	4		4	SON	21	34923142	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	25973	34923142	13206753	7987	30338											
DONSON	29980	broad.mit.edu	37	chr21	34954363	34954363	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcactgatggcttgctcccTaggaaattgctacagttaga	11	12	9	9	0	1	2	1	1	0	1	2	3	2	3	1	2	3	4	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:34954363T>C	uc002ysk.2	-	7	1114	c.1047_splice	c.e7-1	p.E349_splice	DONSON_uc002ysi.1_Splice_Site_p.E109_splice|DONSON_uc002ysj.2_Splice_Site|DONSON_uc002ysl.2_Splice_Site|DONSON_uc010gme.2_Splice_Site_p.E322_splice|DONSON_uc002ysm.2_Splice_Site_p.E349_splice	NM_017613	NP_060083	Q9NYP3	DONS_HUMAN	downstream neighbor of SON						multicellular organismal development	nucleus				ovary(1)|central_nervous_system(1)	2						GCTTGCTCCCTAGGAAATTGC	0.378													3	84					0	0	1	0	0		C	34954363	C	C	34954363	5	2	27	1	0	0	0	0	0	0	1	0	4712	1536	53	3	671	3	DONSON	21	34954363	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	31221	34954363	13175532	7988	30339											
ITSN1	6453	broad.mit.edu	37	chr21	35247781	35247781	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggagaactctgaccggCtggagtggatccaggcccac	11	5	14	11	1	1	3	0	1	1	2	2	6	2	5	3	5	1	1	3	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:35247781C>A	uc002yta.1	+	34	4565	c.4297C>A	c.(4297-4299)CTG>ATG	p.L1433M	DONSON_uc002ysn.1_Intron|ITSN1_uc002ytb.1_Missense_Mutation_p.L1428M|ITSN1_uc002ytj.2_Intron|ITSN1_uc010gmm.1_RNA|ITSN1_uc010gmn.1_RNA|ITSN1_uc002ytk.1_RNA	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	1433					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						CTCTGACCGGCTGGAGTGGAT	0.657													4	68					0.014758	0.0150623	1	1	0		A	35247781	A	A	35247781	3	1	27	1	0	0	0	0	1	0	0	0	7942	796	28	5	4433	5	ITSN1	21	35247781	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	293418	35247781	12882114	7989	30340											
SLC5A3	6526	broad.mit.edu	37	chr21	35468693	35468693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgatgtgtacaaacttatccGcaagagcgcaagctcccggg	11	7	11	12	4	0	1	0	0	0	1	2	2	2	1	2	1	4	4	2	1	5	2	rs143365196		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:35468693G>A	uc002yto.2	+	2	1708	c.1196G>A	c.(1195-1197)CGC>CAC	p.R399H	MRPS6_uc002ytp.2_Intron	NM_006933	NP_008864	P53794	SC5A3_HUMAN	solute carrier family 5 (inositol transporters),	399	Cytoplasmic (Potential).					integral to plasma membrane	myo-inositol:sodium symporter activity			ovary(2)	2						AAACTTATCCGCAAGAGCGCA	0.458													6	92					0	0	1	0	0		A	35468693	A	A	35468693	3	1	27	1	0	0	0	0	1	0	0	0	14691	1087	38	1	1198	1	SLC5A3	21	35468693	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	220912	35468693	12661202	7990	30341											
RUNX1	861	broad.mit.edu	37	chr21	36206799	36206799	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgggtggtgtgggctgAccctcatggctgtgcgccgc	2	9	19	11	2	1	1	1	1	0	0	1	1	1	1	2	5	1	3	2	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:36206799A>G	uc002yuh.2	-	4	2210	c.632T>C	c.(631-633)GTC>GCC	p.V211A	RUNX1_uc002yui.2_Intron|RUNX1_uc010gmu.2_Missense_Mutation_p.V238A|RUNX1_uc010gmv.2_Missense_Mutation_p.V238A|RUNX1_uc002yuj.3_Missense_Mutation_p.V106A|RUNX1_uc002yuk.3_Missense_Mutation_p.V238A|RUNX1_uc002yul.1_Missense_Mutation_p.V3A|RUNX1_uc002yum.1_Intron|RUNX1_uc010gmw.1_Missense_Mutation_p.V238A|RUNX1_uc002yuo.1_Missense_Mutation_p.V211A	NM_001001890	NP_001001890	Q01196	RUNX1_HUMAN	runt-related transcription factor 1 isoform	211	Pro/Ser/Thr-rich.			Missing: No DNA-binding.	myeloid cell differentiation|negative regulation of granulocyte differentiation|positive regulation of angiogenesis|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus|nucleus	ATP binding|calcium ion binding|DNA binding|DNA binding|protein binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			haematopoietic_and_lymphoid_tissue(383)|lung(2)|ovary(1)|central_nervous_system(1)	387						GTGTGGGCTGACCCTCATGGC	0.607			T	RPL22|MDS1|EVI1|CBFA2T3|CBFA2T1|ETV6|LAF4	AML|preB- ALL|T-ALL				Platelet_disorder_associated_with_Myeloid_Malignancies				13	119					0	0	1	0	0		G	36206799	G	G	36206799	3	3	27	1	0	0	0	0	1	0	0	0	13771	275	10	3	774	3	RUNX1	21	36206799	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	738106	36206799	11923096	7991	30342											
SETD4	54093	broad.mit.edu	37	chr21	37408417	37408417	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgcgcttcggtgaaatcAggtaaaagctgtttgcaaac	14	10	10	7	2	1	1	1	1	0	0	2	1	1	1	0	2	4	5	0	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:37408417A>G	uc002yuw.1	-	10	2694	c.1321T>C	c.(1321-1323)TGA>CGA	p.*441R	SETD4_uc002yux.1_Nonstop_Mutation_p.*417R|SETD4_uc002yuu.2_RNA|SETD4_uc002yuv.2_Nonstop_Mutation_p.*441R	NM_017438	NP_059134	Q9NVD3	SETD4_HUMAN	SET domain containing 4 isoform a	441										large_intestine(1)|ovary(1)	2						CGGTGAAATCAGGTAAAAGCT	0.433													35	127					0	0	1	0	0		G	37408417	G	G	37408417	4	3	27	1	0	0	0	0	0	0	0	0	14158	201	7	3	5	3	SETD4	21	37408417	Nonstop_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1201618	37408417	10721478	7992	30343											
CBR3	874	broad.mit.edu	37	chr21	37507593	37507593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttctctggggatgtggtgCtcaccgcgcgggacgtggcg	4	9	18	10	5	2	0	1	0	1	0	3	2	2	2	1	5	1	2	1	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:37507593C>T	uc002yve.2	+	1	331	c.103C>T	c.(103-105)CTC>TTC	p.L35F	uc002yvc.1_Intron|uc002yvd.1_Intron	NM_001236	NP_001227	O75828	CBR3_HUMAN	carbonyl reductase 3	35						cytosol|nucleus	carbonyl reductase (NADPH) activity|NADPH binding				0						GGATGTGGTGCTCACCGCGCG	0.711													4	26					0	0	1	0	0		T	37507593	T	T	37507593	3	4	27	1	0	0	0	0	1	0	0	0	2712	797	28	2	105	2	CBR3	21	37507593	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	99176	37507593	10622302	7993	30344											
MORC3	23515	broad.mit.edu	37	chr21	37717320	37717320	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttatgaaaaagttggatgTcagttaagggtaagctttat	13	14	11	3	0	1	1	1	1	0	0	1	2	1	2	0	2	1	5	0	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:37717320T>C	uc002yvi.2	+	8	1072	c.996T>C	c.(994-996)TGT>TGC	p.C332C		NM_015358	NP_056173	Q14149	MORC3_HUMAN	MORC family CW-type zinc finger 3	332					cell aging|maintenance of protein location in nucleus|negative regulation of fibroblast proliferation|peptidyl-serine phosphorylation|protein stabilization	aggresome|intermediate filament cytoskeleton|PML body	ATP binding|zinc ion binding			ovary(2)	2						AAGTTGGATGTCAGTTAAGGG	0.279													4	52					0	0	1	0	0		C	37717320	C	C	37717320	2	2	27	1	0	0	0	0	0	0	0	1	9721	1673	58	3		3	MORC3	21	37717320	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	209727	37717320	10412575	7994	30345											
CHAF1B	8208	broad.mit.edu	37	chr21	37781130	37781130	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggaagaatcttaaaaggTatgcagtcaaggaaatgttt	16	10	10	5	0	2	1	1	0	1	1	2	3	2	3	1	3	1	3	1	3	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:37781130T>C	uc002yvj.2	+	9	965	c.827_splice	c.e9+2	p.R276_splice		NM_005441	NP_005432	Q13112	CAF1B_HUMAN	chromatin assembly factor 1 subunit B						cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|cytoplasm	chromatin binding|histone binding|unfolded protein binding			ovary(1)|skin(1)	2						TCTTAAAAGGTATGCAGTCAA	0.269													10	34					0	0	1	0	0		C	37781130	C	C	37781130	5	2	27	1	0	0	0	0	0	0	1	0	3315	1652	57	3	859	3	CHAF1B	21	37781130	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	63810	37781130	10348765	7995	30346											
HLCS	3141	broad.mit.edu	37	chr21	38309119	38309119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagacagttgtccgtccacGggtctctgagagcactgtcc	7	9	12	13	2	1	2	0	1	1	2	5	3	4	2	3	1	1	3	3	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:38309119G>A	uc010gnb.2	-	4	1827	c.626C>T	c.(625-627)CCG>CTG	p.P209L	HLCS_uc002yvs.2_Missense_Mutation_p.P209L|HLCS_uc010gnc.1_Missense_Mutation_p.P356L	NM_000411	NP_000402	P50747	BPL1_HUMAN	holocarboxylase synthetase	209					cell proliferation|histone biotinylation|response to biotin	chromatin|cytosol|mitochondrion|nuclear lamina|nuclear matrix	ATP binding|biotin binding|biotin-[acetyl-CoA-carboxylase] ligase activity|biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity|biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity|biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity|enzyme binding			ovary(2)|breast(1)|kidney(1)|liver(1)	5		Myeloproliferative disorder(46;0.0422)			Biotin(DB00121)	GTCCGTCCACGGGTCTCTGAG	0.557													4	63					0	0	1	0	0		A	38309119	A	A	38309119	3	1	27	1	0	0	0	0	1	0	0	0	7229	1116	39	1	1586	1	HLCS	21	38309119	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	527989	38309119	9820776	7996	30347											
TTC3	7267	broad.mit.edu	37	chr21	38460521	38460521	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacatctgcagtatatggtgTagtaaaccaatttctgtcct	11	14	8	8	0	2	0	0	0	2	0	3	1	3	0	2	1	2	4	2	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:38460521T>C	uc002yvz.2	+	4	318	c.213T>C	c.(211-213)TGT>TGC	p.C71C	TTC3_uc011aee.1_Intron|TTC3_uc002ywa.2_Silent_p.C71C|TTC3_uc002ywb.2_Silent_p.C71C|TTC3_uc010gnf.2_5'UTR|TTC3_uc011aed.1_Intron|TTC3_uc010gne.1_Silent_p.C71C	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	71					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				GTATATGGTGTAGTAAACCAA	0.289													7	40					0	0	1	0	0		C	38460521	C	C	38460521	2	2	27	1	0	0	0	0	0	0	0	1	16723	1644	57	3		3	TTC3	21	38460521	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	151402	38460521	9669374	7997	30348											
TTC3	7267	broad.mit.edu	37	chr21	38538826	38538826	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctaacagaaatgatgagcActgtggaaattctaacaaca	17	9	8	7	0	2	3	0	2	2	1	2	4	2	4	0	1	4	1	0	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:38538826A>G	uc002yvz.2	+	33	4415	c.4310A>G	c.(4309-4311)CAC>CGC	p.H1437R	TTC3_uc011aee.1_Missense_Mutation_p.H1127R|TTC3_uc002ywa.2_Missense_Mutation_p.H1437R|TTC3_uc002ywb.2_Missense_Mutation_p.H1437R|TTC3_uc010gnf.2_Missense_Mutation_p.H1202R|TTC3_uc002ywc.2_Missense_Mutation_p.H1127R|TTC3_uc002ywd.1_Missense_Mutation_p.H501R	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1437					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				AATGATGAGCACTGTGGAAAT	0.433													10	63					0	0	1	0	0		G	38538826	G	G	38538826	3	3	27	1	0	0	0	0	1	0	0	0	16723	159	6	3	4436	3	TTC3	21	38538826	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	78305	38538826	9591069	7998	30349											
TTC3	7267	broad.mit.edu	37	chr21	38570308	38570308	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaaggggcagaaagcagaAgatgtccctgtgaggattgt	13	7	14	7	0	0	4	0	1	0	3	1	5	1	5	2	3	1	2	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:38570308A>T	uc002yvz.2	+	44	5937	c.5832A>T	c.(5830-5832)GAA>GAT	p.E1944D	TTC3_uc002ywa.2_Missense_Mutation_p.E1944D|TTC3_uc002ywb.2_Missense_Mutation_p.E1944D|TTC3_uc010gnf.2_Missense_Mutation_p.E1709D|TTC3_uc002ywc.2_Missense_Mutation_p.E1634D	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1944					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				AGAAAGCAGAAGATGTCCCTG	0.453													6	80					0	0	1	0	0		T	38570308	T	T	38570308	3	4	27	1	0	0	0	0	1	0	0	0	16723	69	3	5	6002	5	TTC3	21	38570308	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	31482	38570308	9559587	7999	30350											
DSCR4	10281	broad.mit.edu	37	chr21	39427037	39427037	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtaaagttggtatttccaaAtcagacattttgcccaaaat	14	13	7	7	0	1	1	1	0	0	1	2	1	2	1	2	2	1	3	2	2	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:39427037A>C	uc002ywp.2	-	3	374	c.269T>G	c.(268-270)ATT>AGT	p.I90S		NM_005867	NP_005858	P56555	DSCR4_HUMAN	Down syndrome critical region protein 4	90										ovary(1)	1						GTATTTCCAAATCAGACATTT	0.423													5	100					0	0	1	0	0		C	39427037	C	C	39427037	3	2	27	1	0	0	0	0	1	0	0	0	4778	101	4	5	91	5	DSCR4	21	39427037	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	856729	39427037	8702858	8000	30351											
KCNJ15	3772	broad.mit.edu	37	chr21	39671242	39671242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagcacactgctggggCtgggctcaaggccaacagac	10	5	15	11	0	1	2	1	1	0	1	1	2	1	2	1	5	3	4	1	5	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:39671242C>T	uc002ywv.2	+	4	361	c.59C>T	c.(58-60)GCT>GTT	p.A20V	KCNJ15_uc002yww.2_Missense_Mutation_p.A20V|KCNJ15_uc002ywx.2_Missense_Mutation_p.A20V	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	20	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						ACTGCTGGGGCTGGGCTCAAG	0.527													17	36					0	0	1	0	0		T	39671242	T	T	39671242	3	4	27	1	0	0	0	0	1	0	0	0	8065	797	28	2	61	2	KCNJ15	21	39671242	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	244205	39671242	8458653	8001	30352											
KCNJ15	3772	broad.mit.edu	37	chr21	39671343	39671343	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctactctacctgcaagacCtgtggaccacagttatcgac	11	9	7	14	1	1	1	0	0	1	1	2	3	1	2	4	1	3	2	4	1	4	3	rs117438400	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:39671343C>A	uc002ywv.2	+	4	462	c.160C>A	c.(160-162)CTG>ATG	p.L54M	KCNJ15_uc002yww.2_Missense_Mutation_p.L54M|KCNJ15_uc002ywx.2_Missense_Mutation_p.L54M	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	54	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						CCTGCAAGACCTGTGGACCAC	0.498													12	81					0.000978159	0.00102136	1	1	0		A	39671343	A	A	39671343	3	1	27	1	0	0	0	0	1	0	0	0	8065	680	24	5	162	5	KCNJ15	21	39671343	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	101	39671343	8458552	8002	30353											
BRWD1	54014	broad.mit.edu	37	chr21	40642230	40642230	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaagttatgaagcagttgTccagtgtaagaattccacac	14	12	8	7	0	0	2	0	1	0	1	2	2	2	2	2	0	1	4	2	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:40642230T>A	uc002yxk.1	-	14	1513	c.1374A>T	c.(1372-1374)GGA>GGT	p.G458G	BRWD1_uc002yxl.2_Silent_p.G458G|BRWD1_uc010goe.1_RNA|BRWD1_uc010gof.1_5'UTR|BRWD1_uc010gog.1_RNA|BRWD1_uc010goh.1_RNA|BRWD1_uc010goi.1_Silent_p.G178G	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	458	WD 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				GAAGCAGTTGTCCAGTGTAAG	0.308													8	40					0	0	1	0	0		A	40642230	A	A	40642230	2	1	27	1	0	0	0	0	0	0	0	1	1528	1654	58	5		5	BRWD1	21	40642230	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	970887	40642230	7487665	8003	30354											
BRWD1	54014	broad.mit.edu	37	chr21	40670420	40670420	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaagtgactcttgaaataCtgggtggaatttctttatcc	12	14	9	6	0	2	3	0	2	2	1	3	4	3	4	1	2	1	0	1	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:40670420C>G	uc002yxk.1	-	5	426	c.287G>C	c.(286-288)AGT>ACT	p.S96T	BRWD1_uc002yxl.2_Missense_Mutation_p.S96T|BRWD1_uc002yxm.2_Missense_Mutation_p.S96T	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	96					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				TCTTGAAATACTGGGTGGAAT	0.393													26	175					0	0	1	0	0		G	40670420	G	G	40670420	3	3	27	1	0	0	0	0	1	0	0	0	1528	565	20	5	7080	5	BRWD1	21	40670420	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	28190	40670420	7459475	8004	30355											
IGSF5	150084	broad.mit.edu	37	chr21	41137591	41137591	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggctctcagtgacatggTggtgctaagcgtcaggccca	7	9	15	10	1	2	1	2	1	1	0	3	1	2	1	1	4	2	2	1	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:41137591T>C	uc002yyo.2	+	3	333	c.230T>C	c.(229-231)GTG>GCG	p.V77A		NM_001080444	NP_001073913	Q9NSI5	IGSF5_HUMAN	immunoglobulin superfamily 5 like	77	Ig-like V-type 1.|Extracellular (Potential).					integral to membrane|tight junction					0		Prostate(19;5.35e-06)				AGTGACATGGTGGTGCTAAGC	0.587													3	37					0	0	1	0	0		C	41137591	C	C	41137591	3	2	27	1	0	0	0	0	1	0	0	0	7618	1696	59	3	240	3	IGSF5	21	41137591	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	467171	41137591	6992304	8005	30356											
DSCAM	1826	broad.mit.edu	37	chr21	41452117	41452117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctatgatttcacttatgCgccctgggcccactccattt	6	15	6	14	1	2	1	1	1	1	0	3	1	3	1	3	1	1	0	3	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:41452117C>T	uc002yyq.1	-	25	4834	c.4382G>A	c.(4381-4383)CGC>CAC	p.R1461H	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1461	Fibronectin type-III 5.|Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TTCACTTATGCGCCCTGGGCC	0.468													8	118					0	0	1	0	0		T	41452117	T	T	41452117	3	4	27	1	0	0	0	0	1	0	0	0	4774	768	27	1	1692	1	DSCAM	21	41452117	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	314526	41452117	6677778	8006	30357											
DSCAM	1826	broad.mit.edu	37	chr21	41465654	41465654	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagccactgcctaccttttgCtagtggctcgactgtgatga	7	13	10	11	1	0	2	0	2	0	0	1	3	0	2	3	1	4	2	3	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:41465654C>A	uc002yyq.1	-	21	4296	c.3844G>T	c.(3844-3846)GCA>TCA	p.A1282S	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1282	Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CTACCTTTTGCTAGTGGCTCG	0.438													3	41					0.00024832	0.000261516	1	1	0		A	41465654	A	A	41465654	3	1	27	1	0	0	0	0	1	0	0	0	4774	797	28	5	2246	5	DSCAM	21	41465654	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	13537	41465654	6664241	8007	30358											
DSCAM	1826	broad.mit.edu	37	chr21	41648131	41648131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgacatgcttgatcagcaacGacccattgctgagaacttgg	11	9	10	11	2	1	2	1	2	0	1	1	5	1	2	1	1	5	3	1	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:41648131G>A	uc002yyq.1	-	11	2701	c.2249C>T	c.(2248-2250)TCG>TTG	p.S750L	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	750	Extracellular (Potential).|Ig-like C2-type 8.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				GATCAGCAACGACCCATTGCT	0.527													15	56					0	0	1	0	0		A	41648131	A	A	41648131	3	1	27	1	0	0	0	0	1	0	0	0	4774	1059	37	1	3881	1	DSCAM	21	41648131	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	182477	41648131	6481764	8008	30359											
MX1	4599	broad.mit.edu	37	chr21	42804080	42804080	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaatggagatgctactgTggcccagaaaaatccaggct	13	8	11	9	0	0	3	0	1	0	2	1	4	1	3	2	3	2	2	2	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:42804080T>C	uc002yzh.2	+	7	1030	c.83T>C	c.(82-84)GTG>GCG	p.V28A	MX1_uc002yzi.2_Missense_Mutation_p.V28A|MX1_uc010goq.2_Missense_Mutation_p.V28A	NM_001144925	NP_001138397	P20591	MX1_HUMAN	myxovirus resistance protein 1	28					induction of apoptosis|response to virus|type I interferon-mediated signaling pathway	cytosol	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(19;3.18e-07)|all_epithelial(19;0.0277)				GATGCTACTGTGGCCCAGAAA	0.502													6	95					0	0	1	0	0		C	42804080	C	C	42804080	3	2	27	1	0	0	0	0	1	0	0	0	10015	1696	59	3	85	3	MX1	21	42804080	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1155949	42804080	5325815	8009	30360											
ZNF295	49854	broad.mit.edu	37	chr21	43412166	43412166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttaaattgagagagaaagCggtacgcttttccgcagtaa	13	10	11	7	3	0	2	0	1	0	2	1	4	1	2	1	1	2	5	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:43412166C>T	uc002zab.3	-	3	2253	c.2039G>A	c.(2038-2040)CGC>CAC	p.R680H	ZNF295_uc002yzz.3_Intron|ZNF295_uc002yzy.3_Missense_Mutation_p.R680H|ZNF295_uc002zaa.3_Missense_Mutation_p.R680H	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	680	C2H2-type 3.				negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						AGAGAGAAAGCGGTACGCTTT	0.438													18	143					0	0	1	0	0		T	43412166	T	T	43412166	3	4	27	1	0	0	0	0	1	0	0	0	17852	768	27	1	1165	1	ZNF295	21	43412166	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	608086	43412166	4717729	8010	30361											
ZNF295	49854	broad.mit.edu	37	chr21	43413493	43413493	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttgaaggcaacactgcatTtcttttcaccaaactgattc	11	14	5	11	0	2	2	1	2	1	0	3	2	2	2	1	1	3	2	1	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:43413493T>C	uc002zab.3	-	3	926	c.712A>G	c.(712-714)AAT>GAT	p.N238D	ZNF295_uc002yzz.3_Missense_Mutation_p.N238D|ZNF295_uc002yzy.3_Missense_Mutation_p.N238D|ZNF295_uc002zaa.3_Missense_Mutation_p.N238D|ZNF295_uc010gov.1_Missense_Mutation_p.N238D|ZNF295_uc002zac.2_Missense_Mutation_p.N238D	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	238					negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						AACACTGCATTTCTTTTCACC	0.428													6	57					0	0	1	0	0		C	43413493	C	C	43413493	3	2	27	1	0	0	0	0	1	0	0	0	17852	1841	64	3	2492	3	ZNF295	21	43413493	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1327	43413493	4716402	8011	30362											
UMODL1	89766	broad.mit.edu	37	chr21	43496156	43496156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccagctatgcagccaccGtgtgacccacactgtacaga	11	7	8	15	1	0	2	0	1	0	1	0	2	0	2	4	0	5	3	4	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:43496156G>A	uc002zaf.1	+	2	119	c.119G>A	c.(118-120)CGT>CAT	p.R40H	UMODL1_uc002zad.1_Translation_Start_Site|UMODL1_uc002zae.1_Translation_Start_Site|UMODL1_uc002zag.1_Missense_Mutation_p.R40H|uc002zah.1_RNA	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	40	Extracellular (Potential).|EMI.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						TGCAGCCACCGTGTGACCCAC	0.597													12	122					0	0	1	0	0		A	43496156	A	A	43496156	3	1	27	1	0	0	0	0	1	0	0	0	17006	1145	40	1	125	1	UMODL1	21	43496156	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	82663	43496156	4633739	8012	30363											
ABCG1	9619	broad.mit.edu	37	chr21	43704740	43704740	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctcaagggggtcgctccAtcatttgcaccatccaccag	8	9	9	15	2	2	0	2	0	0	0	6	0	4	0	4	2	1	3	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:43704740A>G	uc002zaq.2	+	7	911	c.805A>G	c.(805-807)ATC>GTC	p.I269V	ABCG1_uc002zan.2_Missense_Mutation_p.I271V|ABCG1_uc002zam.2_Missense_Mutation_p.I247V|ABCG1_uc002zao.2_Missense_Mutation_p.I266V|ABCG1_uc002zap.2_Missense_Mutation_p.I269V|ABCG1_uc002zar.2_Missense_Mutation_p.I280V|ABCG1_uc011aev.1_Missense_Mutation_p.I280V|ABCG1_uc010gpb.1_5'Flank	NM_004915	NP_004906	P45844	ABCG1_HUMAN	ATP-binding cassette sub-family G member 1	269	Cytoplasmic (Potential).|ABC transporter.				amyloid precursor protein catabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|detection of hormone stimulus|high-density lipoprotein particle remodeling|intracellular cholesterol transport|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|positive regulation of cholesterol biosynthetic process|regulation of cholesterol esterification|regulation of transcription, DNA-dependent|response to lipid|reverse cholesterol transport	endoplasmic reticulum membrane|external side of plasma membrane|Golgi membrane|recycling endosome	ADP binding|ATP binding|cholesterol transporter activity|glycoprotein transporter activity|phospholipid transporter activity|protein heterodimerization activity|protein homodimerization activity|sterol-transporting ATPase activity|toxin transporter activity			ovary(2)|central_nervous_system(1)	3					Adenosine triphosphate(DB00171)	GGGTCGCTCCATCATTTGCAC	0.642													7	72					0	0	1	0	0		G	43704740	G	G	43704740	3	3	27	1	0	0	0	0	1	0	0	0	68	217	8	3	999	3	ABCG1	21	43704740	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	208584	43704740	4425155	8013	30364											
SLC37A1	54020	broad.mit.edu	37	chr21	43979141	43979141	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaccacgtcgtcattctccCcggggacggtgggagtggca	7	7	15	12	4	2	0	1	0	1	0	4	3	2	2	3	5	1	1	3	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:43979141C>A	uc002zbi.2	+	12	1335	c.923C>A	c.(922-924)CCC>CAC	p.P308H	SLC37A1_uc002zbj.2_Missense_Mutation_p.P308H	NM_018964	NP_061837	P57057	GLPT_HUMAN	solute carrier family 37 member 1	308	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane					0						GTCATTCTCCCCGGGGACGGT	0.577													7	44					0.0381472	0.0386818	1	1	0		A	43979141	A	A	43979141	3	1	27	1	0	0	0	0	1	0	0	0	14622	623	22	5	961	5	SLC37A1	21	43979141	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	274401	43979141	4150754	8014	30365											
WDR4	10785	broad.mit.edu	37	chr21	44270183	44270183	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacttagcgtcgcctccccCggtctcatcttcttggcatg	5	12	8	16	3	3	0	1	0	3	0	6	0	4	0	3	2	2	1	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:44270183C>T	uc002zci.2	-	11	1288	c.1215G>A	c.(1213-1215)CCG>CCA	p.P405P	WDR4_uc002zck.1_Silent_p.P405P|WDR4_uc002zcl.1_Silent_p.P259P|WDR4_uc010gpg.1_Silent_p.P404P|WDR4_uc011aew.1_Silent_p.P259P|WDR4_uc010gph.1_Silent_p.P259P	NM_033661	NP_387510	P57081	WDR4_HUMAN	WD repeat domain 4 protein	405					tRNA modification	cytoplasm|nucleoplasm	protein binding			ovary(1)	1				Colorectal(79;0.0165)|Lung(125;0.0484)|STAD - Stomach adenocarcinoma(101;0.0624)|COAD - Colon adenocarcinoma(84;0.128)|LUSC - Lung squamous cell carcinoma(216;0.244)		TCGCCTCCCCCGGTCTCATCT	0.572													39	151					0	0	1	0	0		T	44270183	T	T	44270183	2	4	27	1	0	0	0	0	0	0	0	1	17319	639	23	1		1	WDR4	21	44270183	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	291042	44270183	3859712	8015	30366											
WDR4	10785	broad.mit.edu	37	chr21	44273682	44273682	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggtgccgagtctcacctgCcactggtcgcccacaggcct	7	7	11	16	2	1	0	1	0	1	0	3	1	1	0	5	3	2	0	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:44273682C>T	uc002zci.2	-	9	1045	c.972G>A	c.(970-972)TGG>TGA	p.W324*	WDR4_uc002zck.1_Nonsense_Mutation_p.W324*|WDR4_uc002zcl.1_Nonsense_Mutation_p.W178*|WDR4_uc010gpg.1_Nonsense_Mutation_p.W323*|WDR4_uc011aew.1_Nonsense_Mutation_p.W178*|WDR4_uc010gph.1_Nonsense_Mutation_p.W178*	NM_033661	NP_387510	P57081	WDR4_HUMAN	WD repeat domain 4 protein	324	WD 4.				tRNA modification	cytoplasm|nucleoplasm	protein binding			ovary(1)	1				Colorectal(79;0.0165)|Lung(125;0.0484)|STAD - Stomach adenocarcinoma(101;0.0624)|COAD - Colon adenocarcinoma(84;0.128)|LUSC - Lung squamous cell carcinoma(216;0.244)		GTCTCACCTGCCACTGGTCGC	0.622													3	25					0	0	1	0	0		T	44273682	T	T	44273682	4	4	27	1	0	0	0	0	0	1	0	0	17319	740	26	2	278	2	WDR4	21	44273682	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3499	44273682	3856213	8016	30367											
CBS	875	broad.mit.edu	37	chr21	44482463	44482463	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcagcatgcgggcaaaggTgaacgcctcctcatcgttgc	9	8	12	12	3	2	1	2	1	0	0	4	2	3	1	2	2	4	3	2	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:44482463T>C	uc002zcu.2	-	11	1242	c.997A>G	c.(997-999)ACC>GCC	p.T333A	CBS_uc002zcs.1_Missense_Mutation_p.T228A|CBS_uc002zct.2_Missense_Mutation_p.T333A|CBS_uc002zcw.3_Missense_Mutation_p.T333A|CBS_uc002zcv.2_Missense_Mutation_p.T333A|CBS_uc002zcx.2_5'Flank	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	333					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	CGGGCAAAGGTGAACGCCTCC	0.652													3	16					0	0	1	0	0		C	44482463	C	C	44482463	3	2	27	1	0	0	0	0	1	0	0	0	2714	1696	59	3	686	3	CBS	21	44482463	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	208781	44482463	3647432	8017	30368											
U2AF1	7307	broad.mit.edu	37	chr21	44515553	44515553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccctggctcctaccttgaCgtacacgttccccaccaggt	6	9	8	18	3	0	1	0	1	0	0	2	1	2	1	6	2	2	3	6	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:44515553C>T	uc002zda.1	-	5	427	c.343G>A	c.(343-345)GTC>ATC	p.V115I	U2AF1_uc002zcy.1_Missense_Mutation_p.V42I|U2AF1_uc002zcz.1_Missense_Mutation_p.V42I|U2AF1_uc002zdb.1_Missense_Mutation_p.V115I|U2AF1_uc010gpi.1_Missense_Mutation_p.V115I	NM_001025203	NP_001020374	Q01081	U2AF1_HUMAN	U2 small nuclear RNA auxillary factor 1 isoform	115	RRM.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	Cajal body|catalytic step 2 spliceosome|nuclear speck	nucleotide binding|RNA binding|zinc ion binding				0						CCTACCTTGACGTACACGTTC	0.582													23	86					0	0	1	0	0		T	44515553	T	T	44515553	3	4	27	1	0	0	0	0	1	0	0	0	16847	536	19	1	395	1	U2AF1	21	44515553	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	33090	44515553	3614342	8018	30369											
TRAPPC10	7109	broad.mit.edu	37	chr21	45502855	45502855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcagcattgagaaaaacaGctaccggaagactgcggagt	14	7	11	9	2	1	2	1	1	0	2	1	5	1	4	1	2	5	2	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:45502855G>A	uc002zea.2	+	14	2079	c.1910G>A	c.(1909-1911)AGC>AAC	p.S637N	TRAPPC10_uc010gpo.2_Missense_Mutation_p.S348N|TRAPPC10_uc011afa.1_Missense_Mutation_p.S56N	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	637					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						GAGAAAAACAGCTACCGGAAG	0.502													36	128					0	0	1	0	0		A	45502855	A	A	45502855	3	1	27	1	0	0	0	0	1	0	0	0	16483	971	34	2	1964	2	TRAPPC10	21	45502855	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	987302	45502855	2627040	8019	30370											
DNMT3L	29947	broad.mit.edu	37	chr21	45668961	45668961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcattctgcaaggatcCgccgtggacatctgggatgg	9	8	14	10	2	2	0	0	0	2	0	3	4	3	3	2	4	2	2	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:45668961C>T	uc002zeg.1	-	11	1427	c.943G>A	c.(943-945)GGA>AGA	p.G315R	DNMT3L_uc002zeh.1_Missense_Mutation_p.G315R	NM_175867	NP_787063	Q9UJW3	DNM3L_HUMAN	cytosine-5-methyltransferase 3-like protein	315					DNA methylation|negative regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|spermatogenesis	cytosol	enzyme activator activity|enzyme binding|metal ion binding			skin(2)	2				Colorectal(79;0.0165)|READ - Rectum adenocarcinoma(84;0.0781)		TGCAAGGATCCGCCGTGGACA	0.632													10	25					0	0	1	0	0		T	45668961	T	T	45668961	3	4	27	1	0	0	0	0	1	0	0	0	4684	661	23	1	228	1	DNMT3L	21	45668961	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	166106	45668961	2460934	8020	30371											
C21orf29	54084	broad.mit.edu	37	chr21	45941774	45941774	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggccttaccgggaaggActggaagagctggaaggagc	10	4	20	7	1	0	1	0	0	0	1	0	6	0	6	2	8	3	1	2	8	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:45941774A>T	uc002zfe.1	-	9	1624	c.1558T>A	c.(1558-1560)TCC>ACC	p.S520T	C21orf29_uc010gpv.1_Missense_Mutation_p.S452T	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	520	EAR 5.				cell adhesion	extracellular region	structural molecule activity				0						ACCGGGAAGGACTGGAAGAGC	0.637													5	44					0	0	1	0	0		T	45941774	T	T	45941774	3	4	27	1	0	0	0	0	1	0	0	0	2127	275	10	5	467	5	C21orf29	21	45941774	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	272813	45941774	2188121	8021	30372											
KRTAP10-1	386677	broad.mit.edu	37	chr21	45959687	45959687	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcagcatgaagaggaatccTtagagcaggtgggcaggcag	12	5	17	7	0	0	3	0	1	0	2	1	4	1	4	1	5	2	5	1	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:45959687T>G	uc002zfh.1	-	1	392	c.347A>C	c.(346-348)AAG>ACG	p.K116T	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198691	NP_941964	P60331	KR101_HUMAN	keratin associated protein 10-1	116	24 X 5 AA repeats of C-C-X(3).					keratin filament				skin(1)	1						AGAGGAATCCTTAGAgcaggt	0.294													6	78					0	0	1	0	0		G	45959687	G	G	45959687	3	3	27	1	0	0	0	0	1	0	0	0	8521	1609	56	5	505	5	KRTAP10-1	21	45959687	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	17913	45959687	2170208	8022	30373											
PTTG1IP	754	broad.mit.edu	37	chr21	46276138	46276138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtatccgcctctcctccCgctcacgcatggccttctcc	3	10	7	21	4	3	0	1	0	2	0	7	0	5	0	7	1	0	3	7	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:46276138C>T	uc002zgb.1	-	4	629	c.419G>A	c.(418-420)CGG>CAG	p.R140Q	PTTG1IP_uc011afj.1_RNA|PTTG1IP_uc011afk.1_Intron	NM_004339	NP_004330	P53801	PTTG_HUMAN	pituitary tumor-transforming gene 1	140	Potential.|Cytoplasmic (Potential).				protein import into nucleus	cytoplasm|integral to membrane|nucleus				ovary(1)	1				Colorectal(79;0.0659)		CCTCTCCTCCCGCTCACGCAT	0.617													17	50					0	0	1	0	0		T	46276138	T	T	46276138	3	4	27	1	0	0	0	0	1	0	0	0	12845	652	23	1	135	1	PTTG1IP	21	46276138	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	316451	46276138	1853757	8023	30374											
COL18A1	80781	broad.mit.edu	37	chr21	46888239	46888239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagacggatgaccccgacGtcgggctggcctacgtcttt	6	8	12	15	5	1	2	0	1	1	1	2	4	1	3	4	3	1	1	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:46888239G>A	uc011afs.1	+	2	1456	c.1435G>A	c.(1435-1437)GTC>ATC	p.V479I	COL18A1_uc002zhg.2_Missense_Mutation_p.V64I|COL18A1_uc002zhi.2_Missense_Mutation_p.V244I	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	479	TSP N-terminal.				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		TGACCCCGACGTCGGGCTGGC	0.627													27	43					0	0	1	0	0		A	46888239	A	A	46888239	3	1	27	1	0	0	0	0	1	0	0	0	3678	1145	40	1	1555	1	COL18A1	21	46888239	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	612101	46888239	1241656	8024	30375											
COL18A1	80781	broad.mit.edu	37	chr21	46925753	46925753	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatttggtcccagcaggTgaggctctgggctacacgcc	6	9	13	13	1	1	1	0	1	1	0	2	1	2	1	2	4	3	4	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:46925753T>G	uc011afs.1	+	37	4346	c.4325T>G	c.(4324-4326)GTG>GGG	p.V1442G	COL18A1_uc002zhg.2_Missense_Mutation_p.V1027G|COL18A1_uc002zhi.2_Missense_Mutation_p.V1207G|SLC19A1_uc010gpy.1_Intron|COL18A1_uc002zhj.2_Missense_Mutation_p.V8G|COL18A1_uc002zhk.2_5'Flank	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	1445	Nonhelical region 11 (NC11).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		TCCCAGCAGGTGAGGCTCTGG	0.692													3	30					0	0	1	0	0		G	46925753	G	G	46925753	3	3	27	1	0	0	0	0	1	0	0	0	3678	1710	59	5	4585	5	COL18A1	21	46925753	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37514	46925753	1204142	8025	30376											
PCBP3	54039	broad.mit.edu	37	chr21	47360012	47360012	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgacagatgtctggagctcaGatcaaaatcgccaacgccac	13	6	9	13	3	3	2	2	0	1	2	4	4	3	3	2	1	2	1	2	1	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:47360012G>A	uc002zhq.1	+	13	1103	c.978G>A	c.(976-978)CAG>CAA	p.Q326Q	PCBP3_uc002zhp.1_Silent_p.Q306Q|PCBP3_uc002zhs.1_Silent_p.Q300Q|PCBP3_uc002zhr.1_Silent_p.Q325Q|PCBP3_uc002zht.1_Silent_p.Q316Q	NM_020528	NP_065389	P57721	PCBP3_HUMAN	poly(rC) binding protein 3 isoform 1	326	KH 3.				mRNA metabolic process	cytosol|mitochondrion|nucleus|ribonucleoprotein complex	DNA binding|RNA binding			skin(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0411)|READ - Rectum adenocarcinoma(84;0.0649)		CTGGAGCTCAGATCAAAATCG	0.517													6	80					0	0	1	0	0		A	47360012	A	A	47360012	2	1	27	1	0	0	0	0	0	0	0	1	11521	933	33	4		4	PCBP3	21	47360012	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	434259	47360012	769883	8026	30377											
PCBP3	54039	broad.mit.edu	37	chr21	47360061	47360061	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagagcgtcagatcaccAtcacggggaccccggccaac	10	4	10	17	3	4	2	4	0	0	2	4	3	4	3	5	3	2	0	5	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:47360061A>G	uc002zhq.1	+	13	1152	c.1027A>G	c.(1027-1029)ATC>GTC	p.I343V	PCBP3_uc002zhp.1_Missense_Mutation_p.I323V|PCBP3_uc002zhs.1_Missense_Mutation_p.I317V|PCBP3_uc002zhr.1_Missense_Mutation_p.I342V|PCBP3_uc002zht.1_Missense_Mutation_p.I333V	NM_020528	NP_065389	P57721	PCBP3_HUMAN	poly(rC) binding protein 3 isoform 1	343	KH 3.				mRNA metabolic process	cytosol|mitochondrion|nucleus|ribonucleoprotein complex	DNA binding|RNA binding			skin(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0411)|READ - Rectum adenocarcinoma(84;0.0649)		TCAGATCACCATCACGGGGAC	0.572													6	51					0	0	1	0	0		G	47360061	G	G	47360061	3	3	27	1	0	0	0	0	1	0	0	0	11521	217	8	3	1077	3	PCBP3	21	47360061	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	49	47360061	769834	8027	30378											
COL6A1	1291	broad.mit.edu	37	chr21	47423316	47423316	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccgcagtcacgttctccTccccggctgacatcaccatc	6	8	7	20	3	3	1	2	1	1	0	6	1	4	1	6	1	0	3	6	1	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:47423316T>C	uc002zhu.1	+	35	2578	c.2476T>C	c.(2476-2478)TCC>CCC	p.S826P	COL6A1_uc010gqd.1_Missense_Mutation_p.S157P|COL6A1_uc002zhv.1_Missense_Mutation_p.S157P|COL6A1_uc002zhw.1_5'UTR	NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	826	C-terminal globular domain.				axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	CACGTTCTCCTCCCCGGCTGA	0.672													3	30					0	0	1	0	0		C	47423316	C	C	47423316	3	2	27	1	0	0	0	0	1	0	0	0	3702	1551	54	3	2614	3	COL6A1	21	47423316	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	63255	47423316	706579	8028	30379											
COL6A1	1291	broad.mit.edu	37	chr21	47423435	47423435	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcacagcgggcaggacGgaccccgcccacgacgtgcg	7	4	13	17	6	1	0	1	0	0	0	2	3	2	2	4	3	2	1	4	3	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:47423435G>A	uc002zhu.1	+	35	2697	c.2595G>A	c.(2593-2595)ACG>ACA	p.T865T	COL6A1_uc010gqd.1_Silent_p.T196T|COL6A1_uc002zhv.1_Silent_p.T196T|COL6A1_uc002zhw.1_5'UTR	NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	865	C-terminal globular domain.|VWFA 3.				axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	CGGGCAGGACGGACCCCGCCC	0.701													5	34					0	0	1	0	0		A	47423435	A	A	47423435	2	1	27	1	0	0	0	0	0	0	0	1	3702	1103	39	1		1	COL6A1	21	47423435	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	119	47423435	706460	8029	30380											
COL6A2	1292	broad.mit.edu	37	chr21	47545929	47545929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtggtcatcacggacgggCgccacgaccctcgggacgat	7	5	15	14	7	2	0	2	0	0	0	3	4	2	2	2	5	0	0	2	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:47545929C>T	uc002zia.1	+	26	2282	c.2200C>T	c.(2200-2202)CGC>TGC	p.R734C	COL6A2_uc002zhy.1_Missense_Mutation_p.R734C|COL6A2_uc002zhz.1_Missense_Mutation_p.R734C|COL6A2_uc002zib.1_Missense_Mutation_p.R140C|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	734	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		CACGGACGGGCGCCACGACCC	0.637													17	52					0	0	1	0	0		T	47545929	T	T	47545929	3	4	27	1	0	0	0	0	1	0	0	0	3703	768	27	1	2298	1	COL6A2	21	47545929	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	122494	47545929	583966	8030	30381											
LSS	4047	broad.mit.edu	37	chr21	47611134	47611134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcacaggacttgttgaagaCcccagcaatgttttcctaaa	12	10	9	10	0	0	2	0	1	0	1	1	3	1	3	3	2	1	4	3	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:47611134C>T	uc002zij.2	-	22	2162	c.2083G>A	c.(2083-2085)GTC>ATC	p.V695I	LSS_uc011afv.1_Missense_Mutation_p.V684I|LSS_uc002zil.2_Missense_Mutation_p.V695I|LSS_uc002zik.2_Missense_Mutation_p.V615I	NM_001001438	NP_001001438	P48449	ERG7_HUMAN	lanosterol synthase isoform 1	695					cholesterol biosynthetic process	endoplasmic reticulum membrane	lanosterol synthase activity				0	Breast(49;0.214)					TTGTTGAAGACCCCAGCAATG	0.537													22	73					0	0	1	0	0		T	47611134	T	T	47611134	3	4	27	1	0	0	0	0	1	0	0	0	9083	507	18	4	119	4	LSS	21	47611134	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	65205	47611134	518761	8031	30382											
DIP2A	23181	broad.mit.edu	37	chr21	47975893	47975893	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtgtctcctgtttaacAgatgacatcccaaaaaagaa	14	10	8	9	0	1	3	0	1	1	2	3	3	2	3	2	1	1	2	2	1	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr21:47975893A>G	uc002zjo.2	+	29	3572	c.3389_splice	c.e29-2	p.D1130_splice	DIP2A_uc011afy.1_Splice_Site_p.D1066_splice|DIP2A_uc011afz.1_Splice_Site_p.D1126_splice|DIP2A_uc002zjr.2_Splice_Site_p.D97_splice	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a						multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		CCTGTTTAACAGATGACATCC	0.493													10	94					0	0	1	0	0		G	47975893	G	G	47975893	5	3	27	1	0	0	0	0	0	0	1	0	4533	202	7	3	3583	3	DIP2A	21	47975893	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	364759	47975893	154002	8032	30383											
GAB4	128954	broad.mit.edu	37	chr22	17449187	17449187	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctggttaagccatactcaCcaggaaagaacagactccct	13	7	7	14	0	1	2	1	0	0	2	2	3	2	3	4	2	3	1	4	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:17449187C>T	uc002zlw.2	-	5	1131	c.1023_splice	c.e5+1	p.L341_splice	GAB4_uc010gqs.1_Splice_Site	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member											large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				GCCATACTCACCAGGAAAGAA	0.562													12	28					0	0	1	0	0		T	17449187	T	T	17449187	5	4	27	1	0	0	0	0	0	0	1	0	6165	521	18	4	724	4	GAB4	22	17449187	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08		17449187	33855379	8033	30384											
IL17RA	23765	broad.mit.edu	37	chr22	17581299	17581299	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccaggaatatgaggtgAccgttcaccacctgcccaag	11	7	10	13	1	1	3	1	3	0	0	1	4	1	4	5	2	1	1	5	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:17581299A>G	uc002zly.2	+	5	611	c.478A>G	c.(478-480)ACC>GCC	p.T160A	IL17RA_uc010gqt.2_Missense_Mutation_p.T160A	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	160	Extracellular (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		ATATGAGGTGACCGTTCACCA	0.532													5	142					0	0	1	0	0		G	17581299	G	G	17581299	3	3	27	1	0	0	0	0	1	0	0	0	7655	275	10	3	496	3	IL17RA	22	17581299	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	132112	17581299	33723267	8034	30385											
IL17RA	23765	broad.mit.edu	37	chr22	17589268	17589268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctggatcatctactcagccGaccaccccctctacgtggac	8	9	7	17	2	5	0	2	0	3	0	5	3	5	2	4	2	3	0	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:17589268G>A	uc002zly.2	+	13	1292	c.1159G>A	c.(1159-1161)GAC>AAC	p.D387N	IL17RA_uc010gqt.2_Missense_Mutation_p.D335N	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	387	Cytoplasmic (Potential).|SEFIR.				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		CTACTCAGCCGACCACCCCCT	0.617													14	31					0	0	1	0	0		A	17589268	A	A	17589268	3	1	27	1	0	0	0	0	1	0	0	0	7655	1058	37	1	1209	1	IL17RA	22	17589268	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7969	17589268	33715298	8035	30386											
CECR5	27440	broad.mit.edu	37	chr22	17621952	17621952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagctttgtgtcctcacctgGgcatcttggcttcagccatc	5	13	10	13	0	3	0	2	0	1	0	5	1	4	0	3	2	2	3	3	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:17621952G>A	uc002zmf.2	-	6	771	c.743C>T	c.(742-744)CCC>CTC	p.P248L	CECR5_uc002zmd.2_Missense_Mutation_p.P59L|CECR5_uc002zme.2_Missense_Mutation_p.P40L|CECR5_uc002zmg.2_Missense_Mutation_p.P111L|CECR5_uc002zmh.2_Missense_Mutation_p.P218L	NM_033070	NP_149061	Q9BXW7	CECR5_HUMAN	cat eye syndrome chromosome region, candidate 5	248							hydrolase activity				0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)				TCCTCACCTGGGCATCTTGGC	0.637													4	60					0	0	1	0	0		A	17621952	A	A	17621952	3	1	27	1	0	0	0	0	1	0	0	0	3210	1232	43	4	540	4	CECR5	22	17621952	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	32684	17621952	33682614	8036	30387											
BCL2L13	23786	broad.mit.edu	37	chr22	18171803	18171803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctccagtgttcagccctgCcaatccagaaagctcaatgg	10	10	8	13	0	3	1	2	0	1	1	5	1	4	1	4	1	3	2	4	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:18171803C>T	uc002zmw.2	+	4	499	c.281C>T	c.(280-282)GCC>GTC	p.A94V	BCL2L13_uc002zmu.2_Missense_Mutation_p.A94V|BCL2L13_uc002zmv.2_Missense_Mutation_p.A94V|BCL2L13_uc002zmx.2_Intron|BCL2L13_uc002zmy.2_Missense_Mutation_p.A94V|BCL2L13_uc010gqy.2_Intron|BCL2L13_uc011agk.1_Intron|BCL2L13_uc010gqz.2_5'UTR|BCL2L13_uc002zmz.2_5'UTR	NM_015367	NP_056182	Q9BXK5	B2L13_HUMAN	BCL2-like 13 (apoptosis facilitator)	94					induction of apoptosis	integral to membrane|mitochondrial membrane|nucleus	caspase activator activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4		all_epithelial(15;0.123)		Lung(27;0.199)		TTCAGCCCTGCCAATCCAGAA	0.438													8	84					0	0	1	0	0		T	18171803	T	T	18171803	3	4	27	1	0	0	0	0	1	0	0	0	1372	739	26	2	291	2	BCL2L13	22	18171803	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	549851	18171803	33132763	8037	30388											
MICAL3	57553	broad.mit.edu	37	chr22	18304816	18304816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctctcttggtgcttcggtGaggcgggcagcttctcctca	3	13	12	13	2	4	1	1	1	3	0	7	1	4	1	1	4	2	3	1	4	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:18304816G>A	uc002zng.3	-	24	3781	c.3428C>T	c.(3427-3429)TCA>TTA	p.S1143L	MICAL3_uc011agl.1_Missense_Mutation_p.S1059L	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	1143	Pro-rich.					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		GTGCTTCGGTGAGGCGGGCAG	0.582													7	115					0	0	1	0	0		A	18304816	A	A	18304816	3	1	27	1	0	0	0	0	1	0	0	0	9589	1294	45	4	2616	4	MICAL3	22	18304816	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	133013	18304816	32999750	8038	30389											
MICAL3	57553	broad.mit.edu	37	chr22	18387532	18387532	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctcgtttctcaataacaAccaccttggcccccagtaag	11	10	5	15	1	2	0	1	0	2	0	4	0	2	0	4	1	2	2	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:18387532A>C	uc002zng.3	-	3	691	c.338T>G	c.(337-339)GTT>GGT	p.V113G	MICAL3_uc011agl.1_Missense_Mutation_p.V113G|MICAL3_uc002znh.2_Missense_Mutation_p.V113G|MICAL3_uc002znj.1_5'Flank|MICAL3_uc002znk.1_Missense_Mutation_p.V113G|MICAL3_uc002znl.1_5'UTR|MICAL3_uc010grf.2_Missense_Mutation_p.V113G|MICAL3_uc011agm.1_Missense_Mutation_p.V113G	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	113	FAD (Potential).					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		CTCAATAACAACCACCTTGGC	0.512													10	114					0	0	1	0	0		C	18387532	C	C	18387532	3	2	27	1	0	0	0	0	1	0	0	0	9589	43	2	5	6527	5	MICAL3	22	18387532	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	82716	18387532	32917034	8039	30390											
DGCR2	9993	broad.mit.edu	37	chr22	19076920	19076920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctctcatcctcgcaagtcgCccagccgtcacactgccagg	7	7	9	18	3	2	0	2	0	1	0	6	0	3	0	4	1	2	2	4	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:19076920C>T	uc002zoq.1	-	2	411	c.163G>A	c.(163-165)GCG>ACG	p.A55T	DGCR2_uc002zor.1_5'UTR|DGCR2_uc011agr.1_Intron	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	55	Extracellular (Potential).|LDL-receptor class A.				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					TCGCAAGTCGCCCAGCCGTCA	0.607													4	68					0	0	1	0	0		T	19076920	T	T	19076920	3	4	27	1	0	0	0	0	1	0	0	0	4467	739	26	2	1525	2	DGCR2	22	19076920	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	689388	19076920	32227646	8040	30391											
HIRA	7290	broad.mit.edu	37	chr22	19341549	19341549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccctggattatggctaacGgtcctgagcacagcatggcg	8	8	14	11	2	0	1	0	1	0	0	1	2	1	2	2	5	3	3	2	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:19341549G>A	uc002zpf.1	-	22	2874	c.2654C>T	c.(2653-2655)CCG>CTG	p.P885L	HIRA_uc011agx.1_Missense_Mutation_p.P751L|HIRA_uc010grn.1_Missense_Mutation_p.P678L|HIRA_uc010gro.1_Missense_Mutation_p.P841L|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	885	Interaction with histone H4.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					TATGGCTAACGGTCCTGAGCA	0.597													6	24					0	0	1	0	0		A	19341549	A	A	19341549	3	1	27	1	0	0	0	0	1	0	0	0	7136	1116	39	1	415	1	HIRA	22	19341549	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	264629	19341549	31963017	8041	30392											
TXNRD2	10587	broad.mit.edu	37	chr22	19898959	19898959	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgtgattccatattccaaGgcaccttcgatctgtcaaga	10	13	7	11	1	2	2	1	1	1	1	5	3	4	2	3	1	0	1	3	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:19898959G>T	uc011ahc.1	-	8	636	c.603C>A	c.(601-603)GCC>GCA	p.A201A	TXNRD2_uc002zql.1_5'UTR|TXNRD2_uc002zqm.1_RNA|TXNRD2_uc002zqn.1_RNA|TXNRD2_uc002zqo.1_RNA|TXNRD2_uc002zqp.1_RNA|TXNRD2_uc002zqr.1_Silent_p.A200A|TXNRD2_uc010grv.1_Silent_p.A201A|TXNRD2_uc002zqj.1_RNA|TXNRD2_uc002zqs.2_Silent_p.A169A	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor	201					cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					CATATTCCAAGGCACCTTCGA	0.493													4	49					0.150653	0.151846	1	1	0		T	19898959	T	T	19898959	2	4	27	1	0	0	0	0	0	0	0	1	16834	987	35	5		5	TXNRD2	22	19898959	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	557410	19898959	31405607	8042	30393											
ARVCF	421	broad.mit.edu	37	chr22	19960547	19960547	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgacgccgccttcgcttcGcgtaccgattggctgtgggg	3	11	15	12	6	0	1	0	1	0	0	2	2	0	1	3	3	1	3	3	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:19960547G>A	uc002zqz.2	-	15	2722	c.2451C>T	c.(2449-2451)CGC>CGT	p.R817R	ARVCF_uc002zqy.2_Silent_p.R333R	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	817	ARM 10.				cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					CCTTCGCTTCGCGTACCGATT	0.682													24	47					0	0	1	0	0		A	19960547	A	A	19960547	2	1	27	1	0	0	0	0	0	0	0	1	1004	1074	38	1		1	ARVCF	22	19960547	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	61588	19960547	31344019	8043	30394											
ZNF74	7625	broad.mit.edu	37	chr22	20760242	20760242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgagaagcccttcttctgcGgcgagtgcgggaaggccttc	6	8	15	12	4	2	1	0	0	2	1	3	4	2	2	2	3	3	0	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:20760242G>A	uc010gsm.2	+	6	1131	c.919G>A	c.(919-921)GGC>AGC	p.G307S	ZNF74_uc002zsg.2_Missense_Mutation_p.G236S|ZNF74_uc002zsh.2_Missense_Mutation_p.G307S|ZNF74_uc002zsi.2_Missense_Mutation_p.G236S|ZNF74_uc010gsn.2_Missense_Mutation_p.G236S	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	307	C2H2-type 3.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CTTCTTCTGCGGCGAGTGCGG	0.642													13	30					0	0	1	0	0		A	20760242	A	A	20760242	3	1	27	1	0	0	0	0	1	0	0	0	18152	1116	39	1	937	1	ZNF74	22	20760242	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	799695	20760242	30544324	8044	30395											
KLHL22	84861	broad.mit.edu	37	chr22	20800921	20800921	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctctgcggccgcaggtgaTatacatcttcccctccagcg	6	9	9	17	3	2	1	0	1	2	0	4	1	4	1	5	2	3	1	5	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:20800921T>C	uc002zsl.1	-	6	1457	c.1348A>G	c.(1348-1350)ATC>GTC	p.I450V	KLHL22_uc011ahr.1_Missense_Mutation_p.I307V	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	450	Kelch 4.				cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CCGCAGGTGATATACATCTTC	0.612													8	95					0	0	1	0	0		C	20800921	C	C	20800921	3	2	27	1	0	0	0	0	1	0	0	0	8393	1406	49	3	564	3	KLHL22	22	20800921	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	40679	20800921	30503645	8045	30396											
KLHL22	84861	broad.mit.edu	37	chr22	20800941	20800941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatacatcttcccctccagcGtcgcgcctgcgtgggcatac	6	10	9	16	4	1	0	0	0	1	0	4	0	3	0	4	1	4	1	4	1	3	4	rs147687020	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:20800941G>A	uc002zsl.1	-	6	1437	c.1328C>T	c.(1327-1329)ACG>ATG	p.T443M	KLHL22_uc011ahr.1_Missense_Mutation_p.T300M	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	443	Kelch 3.				cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CCCCTCCAGCGTCGCGCCTGC	0.587													20	67					0	0	1	0	0		A	20800941	A	A	20800941	3	1	27	1	0	0	0	0	1	0	0	0	8393	1145	40	1	584	1	KLHL22	22	20800941	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	20	20800941	30503625	8046	30397											
PI4KA	5297	broad.mit.edu	37	chr22	21156280	21156280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgcagatgttgtcaatagCgatgtctcggagctgctcgt	7	12	12	10	3	2	1	1	0	1	1	4	3	2	2	1	1	4	4	1	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:21156280C>T	uc002zsz.3	-	14	1762	c.1531G>A	c.(1531-1533)GCT>ACT	p.A511T	PI4KA_uc010gsq.1_Missense_Mutation_p.A569T	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	511					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			TTGTCAATAGCGATGTCTCGG	0.478													16	64					0	0	1	0	0		T	21156280	T	T	21156280	3	4	27	1	0	0	0	0	1	0	0	0	11892	768	27	1	4771	1	PI4KA	22	21156280	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	355339	21156280	30148286	8047	30398											
CRKL	1399	broad.mit.edu	37	chr22	21288079	21288079	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttaaggtatccaagcccAccaatgggatctgtctcagc	10	10	8	13	0	3	0	1	0	3	0	5	1	4	1	3	2	2	1	3	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:21288079A>T	uc002ztf.2	+	2	833	c.324A>T	c.(322-324)CCA>CCT	p.P108P	CRKL_uc002ztg.1_RNA	NM_005207	NP_005198	P46109	CRKL_HUMAN	v-crk sarcoma virus CT10 oncogene homolog	108					JNK cascade|Ras protein signal transduction	cytosol	protein tyrosine kinase activity|SH3/SH2 adaptor activity|signal transducer activity				0	all_cancers(11;1.16e-25)|all_epithelial(7;3.37e-24)|Lung NSC(8;7.25e-16)|all_lung(8;1.37e-14)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.176)			ATCCAAGCCCACCAATGGGAT	0.428													9	114					0	0	1	0	0		T	21288079	T	T	21288079	2	4	27	1	0	0	0	0	0	0	0	1	3888	146	6	5		5	CRKL	22	21288079	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	131799	21288079	30016487	8048	30399											
SLC7A4	6545	broad.mit.edu	37	chr22	21384141	21384141	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagttcccaaagacaagcacGcagcctatggtgatggctga	12	7	12	10	1	0	3	0	2	0	1	1	4	1	3	2	2	2	4	2	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:21384141G>A	uc002zud.2	-	3	1550	c.1482C>T	c.(1480-1482)TGC>TGT	p.C494C	SLC7A4_uc002zue.2_Silent_p.C494C	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	494	Helical; (Potential).				cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AGACAAGCACGCAGCCTATGG	0.592													5	31					0	0	1	0	0		A	21384141	A	A	21384141	2	1	27	1	0	0	0	0	0	0	0	1	14724	1079	38	1		1	SLC7A4	22	21384141	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	96062	21384141	29920425	8049	30400											
HIC2	23119	broad.mit.edu	37	chr22	21800343	21800343	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggggctggccctagcgggCcctatggggagcccccctac	4	6	16	15	1	0	0	0	0	0	0	0	1	0	1	5	6	3	1	5	6	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:21800343C>G	uc002zur.3	+	3	1389	c.1159C>G	c.(1159-1161)CCC>GCC	p.P387A	HIC2_uc002zus.3_Missense_Mutation_p.P387A	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	387					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CCCTAGCGGGCCCTATGGGGA	0.687													3	18					0	0	1	0	0		G	21800343	G	G	21800343	3	3	27	1	0	0	0	0	1	0	0	0	7118	739	26	5	1165	5	HIC2	22	21800343	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	416202	21800343	29504223	8050	30401											
CCDC116	164592	broad.mit.edu	37	chr22	21991211	21991211	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggagcccaagctctacaTgtctgcctgcaccggcatgg	7	10	11	13	1	2	0	0	0	2	0	2	1	2	1	3	3	5	3	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:21991211T>C	uc002zve.2	+	5	1787	c.1694T>C	c.(1693-1695)ATG>ACG	p.M565T		NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(1)|skin(1)	2	Colorectal(54;0.105)					AAGCTCTACATGTCTGCCTGC	0.577													7	85					0	0	1	0	0		C	21991211	C	C	21991211	3	2	27	1	0	0	0	0	1	0	0	0	2756	1464	51	3	1708	3	CCDC116	22	21991211	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	190868	21991211	29313355	8051	30402											
TOP3B	8940	broad.mit.edu	37	chr22	22316889	22316889	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccagcatcttcacctcGcccacagggaaggcatcacc	9	8	7	17	1	4	0	2	0	2	0	6	1	4	1	4	2	1	2	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:22316889G>A	uc002zvs.2	-	13	1872	c.1437C>T	c.(1435-1437)GGC>GGT	p.G479G	TOP3B_uc010gtm.1_Silent_p.G24G|TOP3B_uc002zvr.2_Silent_p.G204G|TOP3B_uc010gtl.2_Silent_p.G479G|TOP3B_uc002zvt.3_Silent_p.G479G	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	479					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		TCTTCACCTCGCCCACAGGGA	0.637													7	51					0	0	1	0	0		A	22316889	A	A	22316889	2	1	27	1	0	0	0	0	0	0	0	1	16394	1074	38	1		1	TOP3B	22	22316889	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	325678	22316889	28987677	8052	30403											
GNAZ	2781	broad.mit.edu	37	chr22	23438549	23438549	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagggcgtcacagccatcAtcttctgtgtggagctcagc	7	10	12	12	2	5	0	3	0	2	0	6	2	5	1	1	2	3	1	1	2	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:23438549A>G	uc002zwu.1	+	2	1204	c.667A>G	c.(667-669)ATC>GTC	p.I223V	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	223						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		CACAGCCATCATCTTCTGTGT	0.562													16	221					0	0	1	0	0		G	23438549	G	G	23438549	3	3	27	1	0	0	0	0	1	0	0	0	6529	217	8	3	669	3	GNAZ	22	23438549	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1121660	23438549	27866017	8053	30404											
GNAZ	2781	broad.mit.edu	37	chr22	23465488	23465488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagtttgaagacctgaaccGcaacaaggagaccaaggaga	16	4	12	9	1	0	5	0	2	0	3	0	7	0	5	3	2	2	3	3	2	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:23465488G>A	uc002zwu.1	+	3	1475	c.938G>A	c.(937-939)CGC>CAC	p.R313H	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	313						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		GACCTGAACCGCAACAAGGAG	0.567													9	36					0	0	1	0	0		A	23465488	A	A	23465488	3	1	27	1	0	0	0	0	1	0	0	0	6529	1087	38	1	944	1	GNAZ	22	23465488	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	26939	23465488	27839078	8054	30405											
BCR	613	broad.mit.edu	37	chr22	23632550	23632550	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgagtctccggggctctatgGgtttctgaatgtcatcgtcc	5	14	12	10	2	4	2	1	2	3	0	7	2	5	2	2	3	0	2	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:23632550G>T	uc002zww.2	+	14	3328	c.2732G>T	c.(2731-2733)GGG>GTG	p.G911V	BCR_uc002zwx.2_Missense_Mutation_p.G911V|BCR_uc011aiy.1_Missense_Mutation_p.G500V|BCR_uc002zwy.1_3'UTR	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	911	C2.				regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						GGGCTCTATGGGTTTCTGAAT	0.537			T	ABL1| FGFR1|JAK2 	CML|ALL|AML						OREG0026390	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	277					2.70662e-09	2.98644e-09	1	1	0		T	23632550	T	T	23632550	3	4	27	1	0	0	0	0	1	0	0	0	1389	1232	43	5	2786	5	BCR	22	23632550	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	167062	23632550	27672016	8055	30406											
SMARCB1	6598	broad.mit.edu	37	chr22	24143232	24143232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaaccatcaacaggaaccGcatgggccgagacaagaaga	17	2	10	12	2	1	3	1	0	0	3	1	5	1	4	3	2	3	1	3	2	5	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:24143232G>A	uc002zyb.2	+	4	671	c.464G>A	c.(463-465)CGC>CAC	p.R155H	SMARCB1_uc002zyg.2_Missense_Mutation_p.R155H|SMARCB1_uc011ajb.1_Missense_Mutation_p.R146H|SMARCB1_uc002zya.2_Missense_Mutation_p.R155H|SMARCB1_uc002zyc.2_Missense_Mutation_p.R146H|SMARCB1_uc002zyd.2_Missense_Mutation_p.R146H|SMARCB1_uc002zye.1_Intron|SMARCB1_uc002zyf.1_Intron|SMARCB1_uc010gue.1_Intron	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	155	DNA-binding (Potential).				cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.?(5)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				AACAGGAACCGCATGGGCCGA	0.572			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				8	60					0	0	1	0	0		A	24143232	A	A	24143232	3	1	27	1	0	0	0	0	1	0	0	0	14799	1087	38	1	478	1	SMARCB1	22	24143232	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	510682	24143232	27161334	8056	30407											
CABIN1	23523	broad.mit.edu	37	chr22	24459471	24459471	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaatggcagatttggaccTgacttcccagggacccactg	9	9	12	11	0	0	3	0	2	0	1	1	5	1	5	3	3	0	1	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:24459471T>C	uc002zzi.1	+	14	1873	c.1746T>C	c.(1744-1746)CCT>CCC	p.P582P	CABIN1_uc002zzj.1_Silent_p.P532P|CABIN1_uc002zzl.1_Silent_p.P582P	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	582					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GATTTGGACCTGACTTCCCAG	0.542													12	164					0	0	1	0	0		C	24459471	C	C	24459471	2	2	27	1	0	0	0	0	0	0	0	1	2531	1567	55	3		3	CABIN1	22	24459471	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	316239	24459471	26845095	8057	30408											
SUSD2	56241	broad.mit.edu	37	chr22	24580778	24580778	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcaaagtggtcgtacctgTaccccctggccacacacatc	9	8	8	16	1	0	0	0	0	0	0	2	0	0	0	4	2	3	3	4	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:24580778T>C	uc002zzn.1	+	5	696	c.652T>C	c.(652-654)TAC>CAC	p.Y218H		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	218	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GTCGTACCTGTACCCCCTGGC	0.602													4	43					0	0	1	0	0		C	24580778	C	C	24580778	3	2	27	1	0	0	0	0	1	0	0	0	15433	1638	57	3	670	3	SUSD2	22	24580778	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	121307	24580778	26723788	8058	30409											
SUSD2	56241	broad.mit.edu	37	chr22	24580867	24580867	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccagagatggcgagtgggTgcacttcggatcatcgacag	10	8	14	9	3	1	1	1	0	0	1	3	5	1	2	1	3	2	1	1	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:24580867T>C	uc002zzn.1	+	5	785	c.741T>C	c.(739-741)GGT>GGC	p.G247G		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	247	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GGCGAGTGGGTGCACTTCGGA	0.587													4	68					0	0	1	0	0		C	24580867	C	C	24580867	2	2	27	1	0	0	0	0	0	0	0	1	15433	1683	59	3		3	SUSD2	22	24580867	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	89	24580867	26723699	8059	30410											
CYTSA	23384	broad.mit.edu	37	chr22	24717913	24717913	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctctgcccctggctcagTggaggatctcttgagtcagg	6	10	14	11	0	4	1	2	1	2	0	5	3	4	3	2	5	1	2	2	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:24717913T>C	uc002zzw.2	+	5	1272	c.965T>C	c.(964-966)GTG>GCG	p.V322A	CYTSA_uc002zzv.3_Missense_Mutation_p.V322A|CYTSA_uc011ajq.1_Missense_Mutation_p.V322A	NM_015330	NP_056145	Q69YQ0	CYTSA_HUMAN	cytospin A	322					cell cycle|cell division						0						CCTGGCTCAGTGGAGGATCTC	0.507													12	93					0	0	1	0	0		C	24717913	C	C	24717913	3	2	27	1	0	0	0	0	1	0	0	0	4212	1696	59	3	975	3	CYTSA	22	24717913	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	137046	24717913	26586653	8060	30411											
ADRBK2	157	broad.mit.edu	37	chr22	26070497	26070497	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcagacactggaaaaatgTaagctttcaatgctcttatg	15	11	8	7	0	2	1	1	0	1	1	2	2	2	2	0	1	3	4	0	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:26070497T>C	uc003abx.3	+	8	794	c.647_splice	c.e8+2	p.M216_splice	ADRBK2_uc010gux.2_Splice_Site_p.M216_splice|ADRBK2_uc003abw.2_Splice_Site_p.M103_splice|ADRBK2_uc003aby.3_Splice_Site	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2								ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	TGGAAAAATGTAAGCTTTCAA	0.358													3	40					0	0	1	0	0		C	26070497	C	C	26070497	5	2	27	1	0	0	0	0	0	0	1	0	344	1652	57	3	679	3	ADRBK2	22	26070497	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1352584	26070497	25234069	8061	30412											
MYO18B	84700	broad.mit.edu	37	chr22	26219495	26219495	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcggaagcagttcatgaggTttgagtgggcaaactacgca	11	9	14	7	2	1	2	1	2	0	0	2	3	1	3	0	3	3	5	0	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:26219495T>A	uc003abz.1	+	13	2795	c.2545T>A	c.(2545-2547)TTT>ATT	p.F849I	MYO18B_uc003aca.1_Missense_Mutation_p.F730I|MYO18B_uc010guy.1_Missense_Mutation_p.F730I|MYO18B_uc010guz.1_Missense_Mutation_p.F730I|MYO18B_uc011aka.1_Missense_Mutation_p.F3I|MYO18B_uc011akb.1_Missense_Mutation_p.F362I	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	849	Myosin head-like.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GTTCATGAGGTTTGAGTGGGC	0.572													6	75					0	0	1	0	0		A	26219495	A	A	26219495	3	1	27	1	0	0	0	0	1	0	0	0	10084	1725	60	5	2591	5	MYO18B	22	26219495	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	148998	26219495	25085071	8062	30413											
SEZ6L	23544	broad.mit.edu	37	chr22	26707780	26707780	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctacatccagaatgggaaCttcactacatccgacccgac	12	7	6	16	2	1	1	1	0	0	1	3	4	3	2	4	1	3	0	4	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:26707780C>A	uc003acb.2	+	8	1884	c.1728C>A	c.(1726-1728)AAC>AAA	p.N576K	SEZ6L_uc003acc.2_Missense_Mutation_p.N576K|SEZ6L_uc011akc.1_Missense_Mutation_p.N576K|SEZ6L_uc003acd.2_Missense_Mutation_p.N576K|SEZ6L_uc011akd.1_Missense_Mutation_p.N576K|SEZ6L_uc003ace.2_Missense_Mutation_p.N576K|SEZ6L_uc003acf.1_Missense_Mutation_p.N349K|SEZ6L_uc010gvc.1_Missense_Mutation_p.N349K	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	576	Sushi 2.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						AGAATGGGAACTTCACTACAT	0.562													21	263					1.96292e-10	2.17289e-10	1	1	0		A	26707780	A	A	26707780	3	1	27	1	0	0	0	0	1	0	0	0	14168	564	20	5	1758	5	SEZ6L	22	26707780	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	488285	26707780	24596786	8063	30414											
HPS4	89781	broad.mit.edu	37	chr22	26860374	26860374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttccaggctgctggaggCgctgagagatgccttgcagt	6	9	17	9	1	0	2	0	1	0	1	1	4	1	3	2	4	3	5	2	4	0	2	rs143711674	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:26860374C>T	uc003acl.2	-	11	1881	c.1222G>A	c.(1222-1224)GCC>ACC	p.A408T	HPS4_uc003aci.2_Missense_Mutation_p.A403T|HPS4_uc003acj.2_Missense_Mutation_p.A272T|HPS4_uc003ack.2_Missense_Mutation_p.A199T|HPS4_uc003acn.2_Missense_Mutation_p.A254T|HPS4_uc010gvd.1_Missense_Mutation_p.A426T|HPS4_uc003ach.2_Missense_Mutation_p.A143T	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	408					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						CTGCTGGAGGCGCTGAGAGAT	0.592									Hermansky-Pudlak_syndrome				14	65					0	0	1	0	0		T	26860374	T	T	26860374	3	4	27	1	0	0	0	0	1	0	0	0	7357	768	27	1	920	1	HPS4	22	26860374	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	152594	26860374	24444192	8064	30415											
PITPNB	23760	broad.mit.edu	37	chr22	28256181	28256181	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgaatttgatggtcaccaGcttataggcacacatctggg	10	12	10	9	0	2	2	1	2	1	0	2	2	2	2	1	3	1	2	1	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:28256181G>T	uc003adk.2	-	9	659	c.583C>A	c.(583-585)CTG>ATG	p.L195M	PITPNB_uc011akh.1_Missense_Mutation_p.L197M|PITPNB_uc003adl.2_Missense_Mutation_p.L195M|PITPNB_uc011akg.1_5'Flank	NM_012399	NP_036531	P48739	PIPNB_HUMAN	phosphatidylinositol transfer protein, beta	195					lipid metabolic process|transport	Golgi apparatus	lipid binding			skin(1)	1						ATGGTCACCAGCTTATAGGCA	0.378													8	90					0.000157383	0.000166242	1	1	0		T	28256181	T	T	28256181	3	4	27	1	0	0	0	0	1	0	0	0	11967	962	34	5	244	5	PITPNB	22	28256181	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1395807	28256181	23048385	8065	30416											
PITPNB	23760	broad.mit.edu	37	chr22	28293787	28293787	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgctgggggccaagcttActtgttctacagtaggggta	7	11	15	8	0	1	0	0	0	1	0	1	0	1	0	1	5	4	6	1	5	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:28293787A>G	uc003adk.2	-	4	365	c.289_splice	c.e4+1	p.I97_splice	PITPNB_uc011akh.1_Splice_Site_p.I99_splice|PITPNB_uc003adl.2_Splice_Site_p.I97_splice	NM_012399	NP_036531	P48739	PIPNB_HUMAN	phosphatidylinositol transfer protein, beta						lipid metabolic process|transport	Golgi apparatus	lipid binding			skin(1)	1						GGCCAAGCTTACTTGTTCTAC	0.532													11	97					0	0	1	0	0		G	28293787	G	G	28293787	5	3	27	1	0	0	0	0	0	0	1	0	11967	405	14	3	556	3	PITPNB	22	28293787	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	37606	28293787	23010779	8066	30417											
HSCB	150274	broad.mit.edu	37	chr22	29141962	29141962	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcgcagaagctgaaagtgaAgctgccatgaaagagattga	15	7	12	7	1	0	6	0	4	0	2	1	7	0	6	1	0	3	3	1	0	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:29141962A>G	uc003aea.2	+	4	575	c.534A>G	c.(532-534)GAA>GAG	p.E178E		NM_172002	NP_741999	Q8IWL3	HSC20_HUMAN	J-type co-chaperone HSC20 precursor	178					iron-sulfur cluster assembly|protein folding	mitochondrion	chaperone binding|heat shock protein binding|metal ion binding			kidney(1)	1						CTGAAAGTGAAGCTGCCATGA	0.358													4	47					0	0	1	0	0		G	29141962	G	G	29141962	2	3	27	1	0	0	0	0	0	0	0	1	7390	69	3	3		3	HSCB	22	29141962	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	848175	29141962	22162604	8067	30418											
XBP1	7494	broad.mit.edu	37	chr22	29193152	29193152	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaactacaaggccatgagtTttctctcgtaaaagctgatt	12	13	7	9	1	2	2	1	2	1	0	4	2	2	2	1	1	3	3	1	1	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:29193152T>C	uc011akl.1	-	3	414	c.366A>G	c.(364-366)AAA>AAG	p.K122K	XBP1_uc003aec.2_5'Flank|XBP1_uc003aed.2_Silent_p.K72K|XBP1_uc003aef.2_5'UTR	NM_001079539	NP_001073007	P17861	XBP1_HUMAN	X-box binding protein 1 isoform XBP1(S)	122	Leucine-zipper.				immune response	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						GGCCATGAGTTTTCTCTCGTA	0.413													4	51					0	0	1	0	0		C	29193152	C	C	29193152	2	2	27	1	0	0	0	0	0	0	0	1	17448	1838	64	3		3	XBP1	22	29193152	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	51190	29193152	22111414	8068	30419											
ZNRF3	84133	broad.mit.edu	37	chr22	29445922	29445922	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgtacgggagctgctccAccttccgcagctccctcagc	5	8	11	17	3	1	0	1	0	0	0	4	1	4	1	4	1	5	5	4	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:29445922A>G	uc003aeg.2	+	8	1618	c.1453A>G	c.(1453-1455)ACC>GCC	p.T485A	ZNRF3_uc003aeh.1_Missense_Mutation_p.T485A	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	585	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						GAGCTGCTCCACCTTCCGCAG	0.612													5	83					0	0	1	0	0		G	29445922	G	G	29445922	3	3	27	1	0	0	0	0	1	0	0	0	18238	159	6	3	1479	3	ZNRF3	22	29445922	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	252770	29445922	21858644	8069	30420											
KREMEN1	83999	broad.mit.edu	37	chr22	29534823	29534823	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagccacagagttgaaggTagcgctcttgacagttataa	13	9	12	7	1	1	3	0	2	1	1	1	4	1	4	1	2	2	4	1	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:29534823T>C	uc011akm.1	+	7	1187	c.1174_splice	c.e7+2	p.G392_splice	KREMEN1_uc003ael.2_Intron|KREMEN1_uc011akn.1_Splice_Site_p.G275_splice	NM_032045	NP_114434	Q96MU8	KREM1_HUMAN	kringle-containing transmembrane protein 1						cell communication|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane|membrane fraction	protein binding			ovary(3)|lung(2)	5						GAGTTGAAGGTAGCGCTCTTG	0.527													12	33					0	0	1	0	0		C	29534823	C	C	29534823	5	2	27	1	0	0	0	0	0	0	1	0	8458	1652	57	3	1202	3	KREMEN1	22	29534823	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	88901	29534823	21769743	8070	30421											
KREMEN1	83999	broad.mit.edu	37	chr22	29538055	29538055	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctttaagaagaaactcaaGggtcagagtcaacaagatga	18	8	9	6	0	4	5	3	1	1	4	4	5	4	5	0	1	2	0	0	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:29538055G>T	uc011akm.1	+	9	1396	c.1383G>T	c.(1381-1383)AAG>AAT	p.K461N	KREMEN1_uc003ael.2_Missense_Mutation_p.K444N|KREMEN1_uc011akn.1_Missense_Mutation_p.K344N	NM_032045	NP_114434	Q96MU8	KREM1_HUMAN	kringle-containing transmembrane protein 1	459	Cytoplasmic (Potential).				cell communication|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane|membrane fraction	protein binding			ovary(3)|lung(2)	5						AGAAACTCAAGGGTCAGAGTC	0.488													4	66					0.150653	0.151846	1	1	0		T	29538055	T	T	29538055	3	4	27	1	0	0	0	0	1	0	0	0	8458	991	35	5	1417	5	KREMEN1	22	29538055	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3232	29538055	21766511	8071	30422											
EWSR1	2130	broad.mit.edu	37	chr22	29683072	29683072	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccccaaactggatcctacAgccaagctccaagtcaatat	14	7	5	15	0	1	0	1	0	0	0	3	1	3	1	5	1	4	1	5	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:29683072A>G	uc003aet.2	+	7	1070	c.742A>G	c.(742-744)AGC>GGC	p.S248G	EWSR1_uc003aes.3_Missense_Mutation_p.S248G|EWSR1_uc003aev.2_Missense_Mutation_p.S254G|EWSR1_uc003aew.2_Missense_Mutation_p.S192G|EWSR1_uc003aex.2_Missense_Mutation_p.S248G|EWSR1_uc003aey.2_Missense_Mutation_p.S43G|EWSR1_uc003aez.2_5'Flank	NM_005243	NP_005234	Q01844	EWS_HUMAN	Ewing sarcoma breakpoint region 1 isoform 2	248	28.|EAD (Gln/Pro/Thr-rich).|31 X approximate tandem repeats.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	calmodulin binding|nucleotide binding|RNA binding|zinc ion binding		EWSR1/FLI1(2266)|EWSR1/ATF1(323)|EWSR1/WT1(231)|EWSR1/ERG(162)|EWSR1/NR4A3(140)|EWSR1/DDIT3(43)|EWSR1/CREB1(42)|EWSR1/FEV(10)|EWSR1/POU5F1(10)|EWSR1/ETV1(7)|EWSR1/ETV4(6)|EWSR1/ZNF384(4)|EWSR1/PBX1(3)|EWSR1/SP3(3)|EWSR1/PATZ1(2)	bone(2526)|soft_tissue(702)|skin(8)|autonomic_ganglia(4)|haematopoietic_and_lymphoid_tissue(4)|salivary_gland(2)|central_nervous_system(2)|NS(2)|pancreas(2)|lung(1)|ovary(1)	3254						TGGATCCTACAGCCAAGCTCC	0.493			T	FLI1|ERG|ZNF278|NR4A3|FEV|ATF1|ETV1|ETV4|WT1|ZNF384|CREB1|POU5F1| PBX1	Ewing sarcoma| desmoplastic small round cell tumor |ALL|clear cell sarcoma|sarcoma|myoepithelioma								7	34					0	0	1	0	0		G	29683072	G	G	29683072	3	3	27	1	0	0	0	0	1	0	0	0	5304	188	7	3	790	3	EWSR1	22	29683072	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	145017	29683072	21621494	8072	30423											
AP1B1	162	broad.mit.edu	37	chr22	29735105	29735105	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgctgttggaggtgccacGaagttggtgcccccaatctg	6	10	14	11	1	1	0	0	0	1	0	1	2	1	1	3	3	3	4	3	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:29735105G>A	uc003afj.2	-	16	2221	c.2037C>T	c.(2035-2037)TTC>TTT	p.F679F	AP1B1_uc003afi.2_Silent_p.F672F|AP1B1_uc003afk.2_Silent_p.F672F|AP1B1_uc003afl.2_Silent_p.F672F|AP1B1_uc011ako.1_Silent_p.F232F	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	679	Pro-rich (stalk region).				endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						GAGGTGCCACGAAGTTGGTGC	0.587													7	86					0	0	1	0	0		A	29735105	A	A	29735105	2	1	27	1	0	0	0	0	0	0	0	1	731	1049	37	1		1	AP1B1	22	29735105	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	52033	29735105	21569461	8073	30424											
THOC5	8563	broad.mit.edu	37	chr22	29921862	29921862	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatcagctccatggcagtTgtcactttggcttttactgt	6	16	10	9	0	2	1	2	1	0	0	3	1	3	1	1	2	2	4	1	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:29921862T>C	uc003afr.2	-	13	1475	c.1140A>G	c.(1138-1140)ACA>ACG	p.T380T	THOC5_uc003afq.2_Silent_p.T41T|THOC5_uc003afs.2_Silent_p.T380T|THOC5_uc003aft.2_Silent_p.T380T|THOC5_uc003afu.2_Silent_p.T380T|THOC5_uc010gvo.2_Silent_p.T124T	NM_001002878	NP_001002878	Q13769	THOC5_HUMAN	THO complex 5	380			T -> K (in a breast cancer sample; somatic mutation).		intronless viral mRNA export from host nucleus|monocyte differentiation|mRNA processing|primitive hemopoiesis|RNA splicing	cytoplasm|intermediate filament cytoskeleton|THO complex part of transcription export complex	protein binding|RNA binding	p.T380K(1)		breast(3)	3						CCATGGCAGTTGTCACTTTGG	0.517													5	101					0	0	1	0	0		C	29921862	C	C	29921862	2	2	27	1	0	0	0	0	0	0	0	1	15893	1799	63	3		3	THOC5	22	29921862	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	186757	29921862	21382704	8074	30425											
NIPSNAP1	8508	broad.mit.edu	37	chr22	29957621	29957621	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atctggctccgctcccttcgGaactccaggtactcctgtgg	5	11	10	15	2	1	0	0	0	1	0	6	1	5	1	4	4	2	3	4	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:29957621G>C	uc003afx.3	-	6	526	c.453C>G	c.(451-453)TTC>TTG	p.F151L	NIPSNAP1_uc011akp.1_Missense_Mutation_p.F131L	NM_003634	NP_003625	Q9BPW8	NIPS1_HUMAN	nipsnap homolog 1	151								p.?(1)		skin(1)	1						GCTCCCTTCGGAACTCCAGGT	0.577													8	78					0	0	1	0	0		C	29957621	C	C	29957621	3	2	27	1	0	0	0	0	1	0	0	0	10448	1165	41	5	421	5	NIPSNAP1	22	29957621	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	35759	29957621	21346945	8075	30426											
NF2	4771	broad.mit.edu	37	chr22	30038225	30038225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagatgaaaagatctactGccctcctgaggcttctgtgc	9	13	9	10	0	2	4	0	2	2	2	3	4	3	4	2	1	3	1	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:30038225G>A	uc003age.3	+	4	841	c.398G>A	c.(397-399)TGC>TAC	p.C133Y	NF2_uc003afy.3_Missense_Mutation_p.C133Y|NF2_uc003afz.3_Missense_Mutation_p.C50Y|NF2_uc003agf.3_Missense_Mutation_p.C133Y|NF2_uc003agb.3_Missense_Mutation_p.C56Y|NF2_uc003agc.3_Missense_Mutation_p.C95Y|NF2_uc003agd.3_RNA|NF2_uc003agg.3_Missense_Mutation_p.C133Y|NF2_uc003aga.3_Missense_Mutation_p.C91Y|NF2_uc003agh.3_Missense_Mutation_p.C92Y|NF2_uc003agi.3_Missense_Mutation_p.C50Y|NF2_uc003agj.3_Missense_Mutation_p.C133Y|NF2_uc003agk.3_Missense_Mutation_p.C95Y	NM_000268	NP_000259	P35240	MERL_HUMAN	neurofibromin 2 isoform 1	133	FERM.		C -> R (in NF2).		actin cytoskeleton organization|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of cell-matrix adhesion|negative regulation of DNA replication|negative regulation of tyrosine phosphorylation of Stat3 protein|negative regulation of tyrosine phosphorylation of Stat5 protein|positive regulation of stress fiber assembly|regulation of hippo signaling cascade|Schwann cell proliferation	cytoskeleton|early endosome|extrinsic to membrane|filopodium membrane|nucleolus|perinuclear region of cytoplasm|ruffle membrane	cytoskeletal protein binding|protein binding	p.V122_K149del(5)|p.L127_D382del(1)|p.L127_P134del(1)|p.K123fs*2(1)|p.V110_L141del(1)		meninges(372)|soft_tissue(284)|central_nervous_system(20)|kidney(10)|pleura(9)|skin(7)|large_intestine(5)|breast(5)|urinary_tract(3)|thyroid(2)|endometrium(2)|ovary(2)|lung(2)|stomach(2)|bone(2)|pituitary(1)	728						AAGATCTACTGCCCTCCTGAG	0.463			D|Mis|N|F|S|O		meningioma|acoustic neuroma|renal 	meningioma|acoustic neuroma			Neurofibromatosis_type_2				10	81					0	0	1	0	0		A	30038225	A	A	30038225	3	1	27	1	0	0	0	0	1	0	0	0	10376	1319	46	2	412	2	NF2	22	30038225	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	80604	30038225	21266341	8076	30427											
ASCC2	84164	broad.mit.edu	37	chr22	30185132	30185132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcggctctgcccatggcctCgggggctgccggccactgct	2	7	15	17	4	1	0	0	0	1	0	2	0	1	0	4	5	3	3	4	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:30185132C>T	uc003agr.2	-	20	2249	c.2144G>A	c.(2143-2145)CGA>CAA	p.R715Q	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Missense_Mutation_p.R715Q|ASCC2_uc011akr.1_Missense_Mutation_p.R639Q	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	715					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			CCCATGGCCTCGGGGGCTGCC	0.642													21	274					0	0	1	0	0		T	30185132	T	T	30185132	3	4	27	1	0	0	0	0	1	0	0	0	1033	884	31	1	133	1	ASCC2	22	30185132	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	146907	30185132	21119434	8077	30428											
SF3A1	10291	broad.mit.edu	37	chr22	30730630	30730630	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagggccaggtggatgactgCgccattggccatgttgtagt	7	10	16	8	1	0	1	0	1	0	0	0	3	0	2	3	4	1	2	3	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:30730630C>T	uc003ahl.2	-	16	2467	c.2335G>A	c.(2335-2337)GCA>ACA	p.A779T		NM_005877	NP_005868	Q15459	SF3A1_HUMAN	splicing factor 3a, subunit 1, 120kDa isoform 1	779	Ubiquitin-like.				nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|U2-type spliceosomal complex	protein binding|RNA binding			ovary(3)|large_intestine(1)|pancreas(1)	5						TGGATGACTGCGCCATTGGCC	0.542													39	115					0	0	1	0	0		T	30730630	T	T	30730630	3	4	27	1	0	0	0	0	1	0	0	0	14171	768	27	1	50	1	SF3A1	22	30730630	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	545498	30730630	20573936	8078	30429											
SF3A1	10291	broad.mit.edu	37	chr22	30738209	30738209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctcattgggttggaagTccactgtttccaccaccaca	8	12	8	13	0	1	0	1	0	0	0	3	1	3	1	4	2	1	3	4	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:30738209T>C	uc003ahl.2	-	6	989	c.857A>G	c.(856-858)GAC>GGC	p.D286G		NM_005877	NP_005868	Q15459	SF3A1_HUMAN	splicing factor 3a, subunit 1, 120kDa isoform 1	286					nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|U2-type spliceosomal complex	protein binding|RNA binding			ovary(3)|large_intestine(1)|pancreas(1)	5						GGGTTGGAAGTCCACTGTTTC	0.463													9	95					0	0	1	0	0		C	30738209	C	C	30738209	3	2	27	1	0	0	0	0	1	0	0	0	14171	1667	58	3	1568	3	SF3A1	22	30738209	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	7579	30738209	20566357	8079	30430											
RNF215	200312	broad.mit.edu	37	chr22	30781958	30781958	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggacgatcactggcctgagCagaagctgggatatgtccag	11	7	14	9	1	1	2	1	1	0	1	2	5	2	4	2	3	2	2	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:30781958C>T	uc003ahp.2	-	4	522	c.522G>A	c.(520-522)CTG>CTA	p.L174L	RNF215_uc011akw.1_Silent_p.L79L	NM_001017981	NP_001017981	Q9Y6U7	RN215_HUMAN	ring finger protein 215	174	Extracellular (Potential).					integral to membrane	zinc ion binding			central_nervous_system(1)	1						CTGGCCTGAGCAGAAGCTGGG	0.542													6	88					0	0	1	0	0		T	30781958	T	T	30781958	2	4	27	1	0	0	0	0	0	0	0	1	13504	697	25	2		2	RNF215	22	30781958	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	43749	30781958	20522608	8080	30431											
GAL3ST1	9514	broad.mit.edu	37	chr22	30951749	30951749	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgatgaagatggcgttggTcggcaccaggccgcgcacct	7	7	15	12	5	0	3	0	2	0	1	1	3	0	3	3	4	0	3	3	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:30951749T>C	uc003aig.1	-	4	603	c.463A>G	c.(463-465)ACC>GCC	p.T155A	GAL3ST1_uc003aih.1_Missense_Mutation_p.T155A|GAL3ST1_uc003aii.1_Missense_Mutation_p.T155A|GAL3ST1_uc010gvz.1_Missense_Mutation_p.T155A	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	155	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						ATGGCGTTGGTCGGCACCAGG	0.657													4	99					0	0	1	0	0		C	30951749	C	C	30951749	3	2	27	1	0	0	0	0	1	0	0	0	6212	1667	58	3	812	3	GAL3ST1	22	30951749	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	169791	30951749	20352817	8081	30432											
OSBP2	23762	broad.mit.edu	37	chr22	31091460	31091460	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggacagcttcgagggctgGcttctcaagtggaccaacta	9	9	12	11	1	1	0	1	0	1	0	3	3	1	2	1	4	2	3	1	4	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:31091460G>A	uc003aiy.1	+	1	668	c.564G>A	c.(562-564)TGG>TGA	p.W188*	OSBP2_uc011ala.1_Intron|OSBP2_uc010gwc.1_Intron|OSBP2_uc003aix.1_Nonsense_Mutation_p.W188*|OSBP2_uc011alb.1_Nonsense_Mutation_p.W188*|OSBP2_uc003aiz.1_Nonsense_Mutation_p.W188*	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	188	PH.				lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						TCGAGGGCTGGCTTCTCAAGT	0.597													12	103					0	0	1	0	0		A	31091460	A	A	31091460	4	1	27	1	0	0	0	0	0	1	0	0	11293	1212	42	2	566	2	OSBP2	22	31091460	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	139711	31091460	20213106	8082	30433											
MORC2	22880	broad.mit.edu	37	chr22	31328629	31328629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcggaagtggagggctctgCgacagctatggcctgctggg	6	9	17	9	2	1	0	0	0	1	0	2	3	1	2	1	5	3	3	1	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:31328629C>T	uc003aje.1	-	24	3828	c.2464G>A	c.(2464-2466)GCA>ACA	p.A822T		NM_014941	NP_055756	Q9Y6X9	MORC2_HUMAN	MORC family CW-type zinc finger 2	884							ATP binding|zinc ion binding			ovary(1)|pancreas(1)	2						GAGGGCTCTGCGACAGCTATG	0.607													4	48					0	0	1	0	0		T	31328629	T	T	31328629	3	4	27	1	0	0	0	0	1	0	0	0	9720	768	27	1	464	1	MORC2	22	31328629	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	237169	31328629	19975937	8083	30434											
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31859800	31859800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cactgccaatcctacgtccaCcaagcagacgaagcccatca	13	5	6	17	2	1	1	1	0	0	1	3	2	3	1	5	0	4	1	5	0	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:31859800C>T	uc003akz.1	-	5	616	c.452G>A	c.(451-453)GGT>GAT	p.G151D	EIF4ENIF1_uc003ala.1_Missense_Mutation_p.G151D|EIF4ENIF1_uc003alb.1_Intron	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	151	Arg-rich.					nucleus	protein binding|protein transporter activity			ovary(1)	1						CCTACGTCCACCAAGCAGACG	0.562													5	106					0	0	1	0	0		T	31859800	T	T	31859800	3	4	27	1	0	0	0	0	1	0	0	0	5043	507	18	4	2568	4	EIF4ENIF1	22	31859800	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	531171	31859800	19444766	8084	30435											
YWHAH	7533	broad.mit.edu	37	chr22	32352260	32352260	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaaaccatggctgatggAaacgaaaagaaattggagaa	20	5	11	5	1	0	4	0	1	0	3	0	7	0	5	1	3	2	1	1	3	7	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:32352260A>G	uc003alz.2	+	2	463	c.222A>G	c.(220-222)GGA>GGG	p.G74G	YWHAH_uc010gwl.2_Silent_p.G4G|YWHAH_uc003ama.2_Silent_p.G4G|YWHAH_uc010gwm.2_Silent_p.G61G	NM_003405	NP_003396	Q04917	1433F_HUMAN	tyrosine 3-monooxygenase/tryptophan	74					glucocorticoid catabolic process|glucocorticoid receptor signaling pathway|intracellular protein transport|negative regulation of dendrite morphogenesis|positive regulation of transcription, DNA-dependent|regulation of synaptic plasticity	cytoplasm	enzyme binding|glucocorticoid receptor binding|insulin-like growth factor receptor binding|protein domain specific binding			central_nervous_system(1)	1						TGGCTGATGGAAACGAAAAGA	0.468													6	81					0	0	1	0	0		G	32352260	G	G	32352260	2	3	27	1	0	0	0	0	0	0	0	1	17530	233	9	3		3	YWHAH	22	32352260	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	492460	32352260	18952306	8085	30436											
LARGE	9215	broad.mit.edu	37	chr22	33733731	33733731	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaggtagaggttgcgaaaAaactccacatgcttgttctt	11	12	10	8	1	2	1	1	0	1	1	3	2	3	1	1	2	3	4	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:33733731A>G	uc003and.3	-	11	1767	c.1188T>C	c.(1186-1188)TTT>TTC	p.F396F	LARGE_uc011amd.1_Silent_p.F195F|LARGE_uc003ane.3_Silent_p.F396F|LARGE_uc010gwp.2_Intron|LARGE_uc011ame.1_Silent_p.F328F|LARGE_uc011amf.1_Silent_p.F396F|LARGE_uc010gwq.1_RNA	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	396	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				GGTTGCGAAAAAACTCCACAT	0.542													5	48					0	0	1	0	0		G	33733731	G	G	33733731	2	3	27	1	0	0	0	0	0	0	0	1	8643	11	1	3		3	LARGE	22	33733731	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1381471	33733731	17570835	8086	30437											
LARGE	9215	broad.mit.edu	37	chr22	34000453	34000453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcattgtagaagtccacacGcacagcgggcaccatccagg	11	6	11	13	2	0	1	0	0	0	1	2	1	2	1	3	2	2	4	3	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:34000453G>A	uc003and.3	-	6	1162	c.583C>T	c.(583-585)CGT>TGT	p.R195C	LARGE_uc003ane.3_Missense_Mutation_p.R195C|LARGE_uc010gwp.2_Missense_Mutation_p.R195C|LARGE_uc011ame.1_Missense_Mutation_p.R127C|LARGE_uc011amf.1_Missense_Mutation_p.R195C	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	195	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				AAGTCCACACGCACAGCGGGC	0.567													4	71					0	0	1	0	0		A	34000453	A	A	34000453	3	1	27	1	0	0	0	0	1	0	0	0	8643	1087	38	1	1731	1	LARGE	22	34000453	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	266722	34000453	17304113	8087	30438											
MCM5	4174	broad.mit.edu	37	chr22	35804510	35804510	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggagctgcctgatgcaGtcccccacggggagatgccc	7	6	14	14	1	0	2	0	1	0	1	1	4	1	3	4	3	5	3	4	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:35804510G>A	uc003anu.3	+	6	800	c.706G>A	c.(706-708)GTC>ATC	p.V236I	MCM5_uc010gwr.2_Missense_Mutation_p.V45I|MCM5_uc003anv.3_Missense_Mutation_p.V193I|MCM5_uc010gws.1_RNA|MCM5_uc003anw.1_5'Flank	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	236					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						GCCTGATGCAGTCCCCCACGG	0.607													6	44					0	0	1	0	0		A	35804510	A	A	35804510	3	1	27	1	0	0	0	0	1	0	0	0	9408	1029	36	4	724	4	MCM5	22	35804510	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1804057	35804510	15500056	8088	30439											
RASD2	23551	broad.mit.edu	37	chr22	35947862	35947862	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggccaagctgccacacgAgatgagccccgccctgcatc	9	5	10	17	2	0	2	0	1	0	1	1	3	0	2	5	1	4	2	5	1	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:35947862A>G	uc003anx.2	+	3	789	c.584A>G	c.(583-585)GAG>GGG	p.E195G	RASD2_uc003any.2_Missense_Mutation_p.E195G	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	195	Interaction with GNB1, GNB2 and GNB3.				locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3						CTGCCACACGAGATGAGCCCC	0.607													3	41					0	0	1	0	0		G	35947862	G	G	35947862	3	3	27	1	0	0	0	0	1	0	0	0	13092	304	11	3	590	3	RASD2	22	35947862	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	143352	35947862	15356704	8089	30440											
APOL6	80830	broad.mit.edu	37	chr22	36054697	36054697	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctgtgtgaagacgtggAgctacaagacggagatctgt	10	10	13	8	2	2	4	0	1	2	3	3	6	3	5	1	2	2	1	1	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:36054697A>T	uc003aoe.2	+	3	380	c.86A>T	c.(85-87)GAG>GTG	p.E29V	APOL6_uc003aod.2_RNA	NM_030641	NP_085144	Q9BWW8	APOL6_HUMAN	apolipoprotein L6	29					lipoprotein metabolic process	cytoplasm|extracellular region	lipid binding|lipid transporter activity				0						GAAGACGTGGAGCTACAAGAC	0.453													6	67					0	0	1	0	0		T	36054697	T	T	36054697	3	4	27	1	0	0	0	0	1	0	0	0	810	304	11	5	92	5	APOL6	22	36054697	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	106835	36054697	15249869	8090	30441											
APOL6	80830	broad.mit.edu	37	chr22	36055239	36055239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttctgaccactggccaaGtctcctcccggagccgcgtg	5	9	11	16	3	3	1	0	1	3	0	5	2	4	2	5	2	1	0	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:36055239G>A	uc003aoe.2	+	3	922	c.628G>A	c.(628-630)GTC>ATC	p.V210I	APOL6_uc003aod.2_RNA	NM_030641	NP_085144	Q9BWW8	APOL6_HUMAN	apolipoprotein L6	210					lipoprotein metabolic process	cytoplasm|extracellular region	lipid binding|lipid transporter activity				0						CACTGGCCAAGTCTCCTCCCG	0.557													16	81					0	0	1	0	0		A	36055239	A	A	36055239	3	1	27	1	0	0	0	0	1	0	0	0	810	1029	36	4	634	4	APOL6	22	36055239	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	542	36055239	15249327	8091	30442											
RBM9	23543	broad.mit.edu	37	chr22	36140273	36140273	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtagggggcaaatcggctGtagccacctcggtataaact	11	8	12	10	2	0	0	0	0	0	0	2	0	0	0	2	4	2	5	2	4	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:36140273G>A	uc003aon.3	-	14	1447	c.1335C>T	c.(1333-1335)TAC>TAT	p.Y445Y	RBM9_uc003aog.3_Silent_p.Y351Y|RBM9_uc003aol.3_Silent_p.Y370Y|RBM9_uc003aoj.3_Silent_p.Y374Y|RBM9_uc003aok.3_Missense_Mutation_p.T358I|RBM9_uc003aoh.3_Missense_Mutation_p.T361I|RBM9_uc003aom.3_Silent_p.Y352Y|RBM9_uc010gwu.2_Missense_Mutation_p.T361I|RBM9_uc003aoo.3_Silent_p.Y444Y	NM_001082578	NP_001076047	O43251	RFOX2_HUMAN	RNA binding motif protein 9 isoform 5	384					estrogen receptor signaling pathway|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of cell proliferation|RNA splicing	cytoplasm|nucleus	nucleotide binding|RNA binding|transcription corepressor activity|transcription factor binding				0						CAAATCGGCTGTAGCCACCTC	0.438													6	37					0	0	1	0	0		A	36140273	A	A	36140273	2	1	27	1	0	0	0	0	0	0	0	1	13172	1381	48	4		4	RBM9	22	36140273	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	85034	36140273	15164293	8092	30443											
APOL2	23780	broad.mit.edu	37	chr22	36624003	36624003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcagctgctgctcccagaCccatgccagtgtccaagagc	9	6	10	16	0	0	2	0	0	0	2	2	2	2	2	4	0	6	4	4	0	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:36624003C>T	uc003aoz.2	-	5	797	c.461G>A	c.(460-462)GGT>GAT	p.G154D	APOL2_uc011amm.1_Missense_Mutation_p.G266D|APOL2_uc003apa.2_Missense_Mutation_p.G154D	NM_030882	NP_112092	Q9BQE5	APOL2_HUMAN	apolipoprotein L2	154					acute-phase response|cholesterol metabolic process|lipid transport|lipoprotein metabolic process|maternal process involved in female pregnancy|multicellular organismal development	endoplasmic reticulum membrane|extracellular region	high-density lipoprotein particle binding|lipid binding|receptor binding				0						TGCTCCCAGACCCATGCCAGT	0.562													9	49					0	0	1	0	0		T	36624003	T	T	36624003	3	4	27	1	0	0	0	0	1	0	0	0	806	507	18	4	556	4	APOL2	22	36624003	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	483730	36624003	14680563	8093	30444											
MYH9	4627	broad.mit.edu	37	chr22	36692912	36692912	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggcggcctggagctcCtcctctttcttggccagctg	3	10	13	15	1	2	0	0	0	2	0	4	1	4	1	5	4	2	2	5	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:36692912C>T	uc003apg.2	-	25	3480	c.3249G>A	c.(3247-3249)GAG>GAA	p.E1083E		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1083	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CCTGGAGCTCCTCCTCTTTCT	0.682			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				4	34					0	0	1	0	0		T	36692912	T	T	36692912	2	4	27	1	0	0	0	0	0	0	0	1	10060	680	24	4		4	MYH9	22	36692912	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	68909	36692912	14611654	8094	30445											
FOXRED2	80020	broad.mit.edu	37	chr22	36902087	36902087	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccgcgaagtcacccaggTagcgcaccatgtcgcgggcg	7	6	14	14	6	1	0	1	0	0	0	3	1	2	0	3	2	1	2	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:36902087T>C	uc003apn.3	-	1	491	c.383A>G	c.(382-384)TAC>TGC	p.Y128C	FOXRED2_uc003apo.3_Missense_Mutation_p.Y128C|FOXRED2_uc003app.3_Missense_Mutation_p.Y128C	NM_024955	NP_079231	Q8IWF2	FXRD2_HUMAN	FAD-dependent oxidoreductase domain containing 2	128					ER-associated protein catabolic process	endoplasmic reticulum lumen	flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			lung(1)|kidney(1)	2						GTCACCCAGGTAGCGCACCAT	0.647													7	57					0	0	1	0	0		C	36902087	C	C	36902087	3	2	27	1	0	0	0	0	1	0	0	0	6048	1638	57	3	1703	3	FOXRED2	22	36902087	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	209175	36902087	14402479	8095	30446											
C22orf33	339669	broad.mit.edu	37	chr22	37387573	37387573	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaagtccctcactgattTctcaatgacctctggtgtgt	7	16	7	11	0	4	2	2	2	3	0	6	2	5	2	2	1	0	0	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:37387573T>C	uc003aqf.2	-	5	840	c.694A>G	c.(694-696)AAA>GAA	p.K232E	C22orf33_uc003aqe.2_Missense_Mutation_p.K147E	NM_001163857	NP_001157329	O43247	EAN57_HUMAN	hypothetical protein LOC339669 isoform 1	232											0						CTCACTGATTTCTCAATGACC	0.527													5	165					0	0	1	0	0		C	37387573	C	C	37387573	3	2	27	1	0	0	0	0	1	0	0	0	2148	1792	62	3	156	3	C22orf33	22	37387573	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	485486	37387573	13916993	8096	30447											
SSTR3	6753	broad.mit.edu	37	chr22	37603822	37603822	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaggtcgtggacaccgaTgatggatgaagcatgtccat	10	10	13	8	2	1	3	0	3	1	0	3	6	2	5	2	3	1	1	2	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:37603822T>C	uc003ara.2	-	2	83	c.21A>G	c.(19-21)TCA>TCG	p.S7S	SSTR3_uc003arb.2_Silent_p.S7S	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	7	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						TGGACACCGATGATGGATGAA	0.617													5	34					0	0	1	0	0		C	37603822	C	C	37603822	2	2	27	1	0	0	0	0	0	0	0	1	15224	1451	51	3		3	SSTR3	22	37603822	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	216249	37603822	13700744	8097	30448											
CYTH4	27128	broad.mit.edu	37	chr22	37695345	37695345	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcaacctcgtccaggccctCaggtgagtagtcctggggca	7	8	12	14	1	2	1	2	1	0	0	5	1	4	1	4	4	1	2	4	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:37695345C>T	uc003arf.2	+	6	548	c.432C>T	c.(430-432)CTC>CTT	p.L144L	CYTH4_uc003are.2_Silent_p.L144L|CYTH4_uc011amw.1_Silent_p.L87L|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	144	SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						TCCAGGCCCTCAGGTGAGTAG	0.647													5	48					0	0	1	0	0		T	37695345	T	T	37695345	2	4	27	1	0	0	0	0	0	0	0	1	4209	813	29	4		4	CYTH4	22	37695345	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	91523	37695345	13609221	8098	30449											
CYTH4	27128	broad.mit.edu	37	chr22	37707044	37707044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagggggccgcgtgaagaCgtggaaacggcgctggttca	8	5	18	10	6	1	2	1	1	0	1	1	3	1	3	1	5	1	3	1	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:37707044C>T	uc003arf.2	+	10	940	c.824C>T	c.(823-825)ACG>ATG	p.T275M	CYTH4_uc011amw.1_Missense_Mutation_p.T218M|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	275	PH.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						CGCGTGAAGACGTGGAAACGG	0.632													15	90					0	0	1	0	0		T	37707044	T	T	37707044	3	4	27	1	0	0	0	0	1	0	0	0	4209	536	19	1	862	1	CYTH4	22	37707044	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11699	37707044	13597522	8099	30450											
ELFN2	114794	broad.mit.edu	37	chr22	37770240	37770240	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagccggcatccacatcAgccccgtagcgcatctccag	9	6	10	16	3	2	0	1	0	1	0	4	1	3	1	5	2	3	3	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:37770240A>G	uc003asq.3	-	3	2121	c.1335T>C	c.(1333-1335)GCT>GCC	p.A445A		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	445	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					CATCCACATCAGCCCCGTAGC	0.632													30	116					0	0	1	0	0		G	37770240	G	G	37770240	2	3	27	1	0	0	0	0	0	0	0	1	5066	175	7	3		3	ELFN2	22	37770240	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	63196	37770240	13534326	8100	30451											
ELFN2	114794	broad.mit.edu	37	chr22	37771126	37771126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgctgatgaggctcgggCactcggagaaggcggtgggc	7	6	19	9	4	0	3	0	2	0	1	2	5	0	3	0	6	1	3	0	6	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:37771126C>T	uc003asq.3	-	3	1235	c.449G>A	c.(448-450)TGC>TAC	p.C150Y		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	150	Extracellular (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					GAGGCTCGGGCACTCGGAGAA	0.647													16	59					0	0	1	0	0		T	37771126	T	T	37771126	3	4	27	1	0	0	0	0	1	0	0	0	5066	710	25	2	2017	2	ELFN2	22	37771126	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	886	37771126	13533440	8101	30452											
SH3BP1	23616	broad.mit.edu	37	chr22	38046210	38046210	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccatccaggtggtgggCgtcgtcgaggcgctgatcca	5	10	14	12	4	1	1	0	1	1	0	6	2	4	1	3	4	0	1	3	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:38046210C>T	uc003ati.2	+	15	1479	c.1368C>T	c.(1366-1368)GGC>GGT	p.G456G	SH3BP1_uc003atg.1_RNA|SH3BP1_uc011anl.1_Missense_Mutation_p.A489V|SH3BP1_uc003ath.1_Silent_p.G456G|SH3BP1_uc003atj.1_Silent_p.G392G|SH3BP1_uc003atk.1_Silent_p.G370G|uc003atl.1_Intron	NM_018957	NP_061830	Q9Y3L3	3BP1_HUMAN	SH3-domain binding protein 1	456	Rho-GAP.				signal transduction	cytoplasm	GTPase activator activity|SH3 domain binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					AGGTGGTGGGCGTCGTCGAGG	0.537													5	21					0	0	1	0	0		T	38046210	T	T	38046210	2	4	27	1	0	0	0	0	0	0	0	1	14269	755	27	1		1	SH3BP1	22	38046210	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	275084	38046210	13258356	8102	30453											
TRIOBP	11078	broad.mit.edu	37	chr22	38130983	38130983	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcagagggagcgtgtccatAcccgcgtggctctgagaggc	7	6	17	11	3	1	2	0	1	1	2	2	4	2	3	2	4	2	2	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:38130983A>G	uc003atr.2	+	9	4911	c.4640A>G	c.(4639-4641)TAC>TGC	p.Y1547C	TRIOBP_uc003atu.2_Missense_Mutation_p.Y1375C	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1547					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GCGTGTCCATACCCGCGTGGC	0.682											OREG0026548	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	81					0	0	1	0	0		G	38130983	G	G	38130983	3	3	27	1	0	0	0	0	1	0	0	0	16579	391	14	3	4666	3	TRIOBP	22	38130983	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	84773	38130983	13173583	8103	30454											
TRIOBP	11078	broad.mit.edu	37	chr22	38165151	38165151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcgcgagcacacgctgcGccgctgccagcaggagggcc	7	2	17	15	5	0	0	0	0	0	0	0	3	0	2	3	3	5	4	3	3	0	0	rs61729062		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:38165151G>A	uc003atr.2	+	20	6963	c.6692G>A	c.(6691-6693)CGC>CAC	p.R2231H	TRIOBP_uc003atu.2_Missense_Mutation_p.R2059H|TRIOBP_uc003atw.2_Missense_Mutation_p.R518H|TRIOBP_uc003atx.1_Missense_Mutation_p.R114H|TRIOBP_uc010gxh.2_Missense_Mutation_p.R114H	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	2231	Potential.				actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CACACGCTGCGCCGCTGCCAG	0.692													5	18					0	0	1	0	0		A	38165151	A	A	38165151	3	1	27	1	0	0	0	0	1	0	0	0	16579	1087	38	1	7064	1	TRIOBP	22	38165151	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	34168	38165151	13139415	8104	30455											
BAIAP2L2	80115	broad.mit.edu	37	chr22	38484913	38484913	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgcccccgccgccgccCgggcgctcgccaaaggagtt	4	4	14	19	7	0	0	0	0	0	0	1	1	0	1	6	3	0	2	6	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:38484913C>T	uc003auw.2	-	10	1104	c.960G>A	c.(958-960)CCG>CCA	p.P320P	BAIAP2L2_uc003auv.2_5'Flank	NM_025045	NP_079321	Q6UXY1	BI2L2_HUMAN	BAI1-associated protein 2-like 2	320					filopodium assembly|signal transduction		cytoskeletal adaptor activity|SH3 domain binding			pancreas(1)	1	Melanoma(58;0.045)					cgccgccgcccgggcgcTCGC	0.607													3	5					0	0	1	0	0		T	38484913	T	T	38484913	2	4	27	1	0	0	0	0	0	0	0	1	1304	639	23	1		1	BAIAP2L2	22	38484913	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	319762	38484913	12819653	8105	30456											
BAIAP2L2	80115	broad.mit.edu	37	chr22	38493074	38493074	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggaaggtgttggaaagtaGcaggtgcttctctgctagga	10	10	15	6	0	1	0	0	0	1	0	2	3	1	3	0	5	3	5	0	5	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:38493074G>A	uc003auw.2	-	7	721	c.577C>T	c.(577-579)CTA>TTA	p.L193L		NM_025045	NP_079321	Q6UXY1	BI2L2_HUMAN	BAI1-associated protein 2-like 2	193	IMD.				filopodium assembly|signal transduction		cytoskeletal adaptor activity|SH3 domain binding			pancreas(1)	1	Melanoma(58;0.045)					TTGGAAAGTAGCAGGTGCTTC	0.622													3	32					0	0	1	0	0		A	38493074	A	A	38493074	2	1	27	1	0	0	0	0	0	0	0	1	1304	962	34	2		2	BAIAP2L2	22	38493074	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	8161	38493074	12811492	8106	30457											
PLA2G6	8398	broad.mit.edu	37	chr22	38524328	38524328	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctttccagggagaagggAtgatgtggcgctgcagagcc	8	8	16	9	1	1	3	0	1	1	2	2	5	2	4	2	3	2	3	2	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:38524328A>T	uc003auy.1	-	9	1432	c.1296T>A	c.(1294-1296)CAT>CAA	p.H432Q	PLA2G6_uc003auz.1_Intron|PLA2G6_uc003ava.1_Missense_Mutation_p.H432Q|PLA2G6_uc003avb.2_Intron|PLA2G6_uc010gxk.1_RNA|PLA2G6_uc011ano.1_Missense_Mutation_p.H397Q	NM_003560	NP_003551	O60733	PA2G6_HUMAN	phospholipase A2, group VI isoform a	432					cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)	GGGAGAAGGGATGATGTGGCG	0.637													7	57					0	0	1	0	0		T	38524328	T	T	38524328	3	4	27	1	0	0	0	0	1	0	0	0	12027	330	12	5	1160	5	PLA2G6	22	38524328	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	31254	38524328	12780238	8107	30458											
CSNK1E	1454	broad.mit.edu	37	chr22	38689315	38689315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttcccgagatggtcaaatGgcacacttgtcttttgaggg	9	12	11	9	1	2	2	1	1	1	1	3	3	3	2	1	3	0	1	1	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:38689315G>A	uc003avj.2	-	10	1490	c.1229C>T	c.(1228-1230)CCA>CTA	p.P410L	CSNK1E_uc003avk.2_Missense_Mutation_p.P410L|CSNK1E_uc003avl.1_RNA|CSNK1E_uc003avm.1_Missense_Mutation_p.P410L|CSNK1E_uc003avn.1_Missense_Mutation_p.P94L|CSNK1E_uc003avo.2_Missense_Mutation_p.P410L	NM_152221	NP_689407	P49674	KC1E_HUMAN	casein kinase 1 epsilon	410					DNA repair|G2/M transition of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|signal transduction	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Melanoma(58;0.045)					ATGGTCAAATGGCACACTTGT	0.443													8	145					0	0	1	0	0		A	38689315	A	A	38689315	3	1	27	1	0	0	0	0	1	0	0	0	3956	1348	47	4	25	4	CSNK1E	22	38689315	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	164987	38689315	12615251	8108	30459											
KCNJ4	3761	broad.mit.edu	37	chr22	38824086	38824086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcttgacgaagcggttgcGgcgcttccgccggggcacgt	4	9	15	13	7	1	1	0	1	1	0	2	2	2	1	2	4	2	3	2	4	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:38824086G>A	uc003avs.1	-	2	149	c.52C>T	c.(52-54)CGC>TGC	p.R18C	KCNJ4_uc003avt.1_Missense_Mutation_p.R18C	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	18	Cytoplasmic (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					AAGCGGTTGCGGCGCTTCCGC	0.642													24	268					0	0	1	0	0		A	38824086	A	A	38824086	3	1	27	1	0	0	0	0	1	0	0	0	8069	1116	39	1	1289	1	KCNJ4	22	38824086	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	134771	38824086	12480480	8109	30460											
APOBEC3B	9582	broad.mit.edu	37	chr22	39382383	39382383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaattcgatgaaaattatGcattcctgcaccgcacgcta	14	10	6	11	3	0	1	0	1	0	0	2	2	1	1	2	0	2	4	2	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:39382383G>A	uc003awo.1	+	4	589	c.535G>A	c.(535-537)GCA>ACA	p.A179T	APOBEC3A_uc011aoc.1_Intron|APOBEC3B_uc003awp.1_Missense_Mutation_p.A179T|APOBEC3B_uc003awq.1_RNA|APOBEC3D_uc011aod.1_Intron|APOBEC3D_uc011aoe.1_Intron|APOBEC3D_uc011aof.1_Intron	NM_004900	NP_004891	Q9UH17	ABC3B_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	179					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(58;0.04)					TGAAAATTATGCATTCCTGCA	0.483													45	123					0	0	1	0	0		A	39382383	A	A	39382383	3	1	27	1	0	0	0	0	1	0	0	0	790	1319	46	2	549	2	APOBEC3B	22	39382383	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	558297	39382383	11922183	8110	30461											
APOBEC3G	60489	broad.mit.edu	37	chr22	39482481	39482481	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagcctgtgcatcttcacTgcccgcatctatgatgatca	8	12	9	12	1	4	3	2	3	2	0	4	3	4	3	2	0	3	2	2	0	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:39482481T>C	uc003awx.2	+	6	1275	c.933T>C	c.(931-933)ACT>ACC	p.T311T	APOBEC3G_uc003awy.2_Silent_p.T244T	NM_021822	NP_068594	Q9HC16	ABC3G_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	311					base conversion or substitution editing|DNA cytosine deamination|innate immune response|interspecies interaction between organisms|negative regulation of retroviral genome replication|negative regulation of transposition|positive regulation of defense response to virus by host|response to virus|viral reproduction	apolipoprotein B mRNA editing enzyme complex|cytosol|mitochondrion	cytidine deaminase activity|dCTP deaminase activity|protein homodimerization activity|RNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2	Melanoma(58;0.04)					GCATCTTCACTGCCCGCATCT	0.512													10	167					0	0	1	0	0		C	39482481	C	C	39482481	2	2	27	1	0	0	0	0	0	0	0	1	794	1567	55	3		3	APOBEC3G	22	39482481	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	100098	39482481	11822085	8111	30462											
SMCR7L	54471	broad.mit.edu	37	chr22	39907986	39907986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgaagacgggcctgagcCggtccttgcagacccttccc	8	7	11	15	2	0	4	0	2	0	2	2	4	2	4	5	2	2	1	5	2	1	2	rs144526373		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:39907986C>T	uc003axx.2	+	4	775	c.277C>T	c.(277-279)CGG>TGG	p.R93W	SMCR7L_uc003axw.2_Missense_Mutation_p.R93W|SMCR7L_uc010gxz.1_5'UTR|SMCR7L_uc003axy.2_5'UTR	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	93						integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					GGGCCTGAGCCGGTCCTTGCA	0.602													22	92					0	0	1	0	0		T	39907986	T	T	39907986	3	4	27	1	0	0	0	0	1	0	0	0	14816	643	23	1	283	1	SMCR7L	22	39907986	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	425505	39907986	11396580	8112	30463											
SMCR7L	54471	broad.mit.edu	37	chr22	39910325	39910325	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagaggtgctgctgcagacGtagggcaggtgaaggccaaa	11	5	16	9	1	0	3	0	1	0	2	0	3	0	3	2	4	3	5	2	4	3	1	rs142355530		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:39910325G>A	uc003axx.2	+	6	1887	c.1389G>A	c.(1387-1389)ACG>ACA	p.T463T	SMCR7L_uc003axw.2_Intron|SMCR7L_uc003axy.2_Silent_p.T285T	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	463						integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					TGCTGCAGACGTAGGGCAGGT	0.522											OREG0026577	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	67					0	0	1	0	0		A	39910325	A	A	39910325	2	1	27	1	0	0	0	0	0	0	0	1	14816	1132	40	1		1	SMCR7L	22	39910325	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2339	39910325	11394241	8113	30464											
CACNA1I	8911	broad.mit.edu	37	chr22	40055777	40055777	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccctgggcctccctctacTttgtcgccctcatgaccttc	3	13	6	19	1	2	1	1	1	1	0	6	1	4	1	5	1	1	0	5	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:40055777T>C	uc003ayc.2	+	14	2524	c.2524T>C	c.(2524-2526)TTT>CTT	p.F842L	CACNA1I_uc003ayd.2_Missense_Mutation_p.F807L|CACNA1I_uc003aye.2_Missense_Mutation_p.F757L|CACNA1I_uc003ayf.2_Missense_Mutation_p.F722L	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	842	Helical; Name=S6 of repeat II; (Potential).|II.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CTCCCTCTACTTTGTCGCCCT	0.582													8	110					0	0	1	0	0		C	40055777	C	C	40055777	3	2	27	1	0	0	0	0	1	0	0	0	2549	1609	56	3	2578	3	CACNA1I	22	40055777	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	145452	40055777	11248789	8114	30465											
CACNA1I	8911	broad.mit.edu	37	chr22	40061520	40061520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtcatcagccgggcgcCgggcctgaagctggtggtgg	5	7	18	11	3	2	1	2	1	0	0	2	1	2	1	3	5	2	1	3	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:40061520C>T	uc003ayc.2	+	22	3869	c.3869C>T	c.(3868-3870)CCG>CTG	p.P1290L	CACNA1I_uc003ayd.2_Missense_Mutation_p.P1255L|CACNA1I_uc003aye.2_Missense_Mutation_p.P1205L|CACNA1I_uc003ayf.2_Missense_Mutation_p.P1170L	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1290	III.|Helical; Name=S4 of repeat III; (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	AGCCGGGCGCCGGGCCTGAAG	0.617													9	40					0	0	1	0	0		T	40061520	T	T	40061520	3	4	27	1	0	0	0	0	1	0	0	0	2549	652	23	1	3955	1	CACNA1I	22	40061520	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5743	40061520	11243046	8115	30466											
TNRC6B	23112	broad.mit.edu	37	chr22	40661413	40661413	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccccatggagaataagggAatgccctttggaatgggctt	12	9	12	8	0	0	1	0	0	0	1	0	4	0	3	3	4	2	1	3	4	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:40661413A>T	uc011aor.1	+	5	1390	c.1179A>T	c.(1177-1179)GGA>GGT	p.G393G	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Silent_p.G393G|TNRC6B_uc003ayo.2_Silent_p.G197G	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	393					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						AGAATAAGGGAATGCCCTTTG	0.483													8	56					0	0	1	0	0		T	40661413	T	T	40661413	2	4	27	1	0	0	0	0	0	0	0	1	16366	233	9	5		5	TNRC6B	22	40661413	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	599893	40661413	10643153	8116	30467											
TNRC6B	23112	broad.mit.edu	37	chr22	40711435	40711435	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggtctgaccaaccccaaAccatcatctccctggagcag	10	7	7	17	0	3	1	1	1	2	0	4	2	3	2	6	2	3	1	6	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:40711435A>G	uc011aor.1	+	20	5038	c.4827A>G	c.(4825-4827)AAA>AAG	p.K1609K	TNRC6B_uc003aym.2_Silent_p.K805K|TNRC6B_uc003ayn.3_Silent_p.K1499K|TNRC6B_uc003ayo.2_Silent_p.K1356K	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1609					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						CCAACCCCAAACCATCATCTC	0.582													4	53					0	0	1	0	0		G	40711435	G	G	40711435	2	3	27	1	0	0	0	0	0	0	0	1	16366	40	2	3		3	TNRC6B	22	40711435	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	50022	40711435	10593131	8117	30468											
ADSL	158	broad.mit.edu	37	chr22	40746002	40746002	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagctgcaggcattattcAccttggtgctacttcttgct	9	14	8	10	0	2	0	1	0	1	0	2	0	2	0	1	2	5	5	1	2	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:40746002A>G	uc003ayp.3	+	2	379	c.320A>G	c.(319-321)CAC>CGC	p.H107R	ADSL_uc003ays.3_Missense_Mutation_p.H107R|ADSL_uc003ayq.3_Missense_Mutation_p.H107R|ADSL_uc003ayr.3_5'UTR|ADSL_uc003ayt.3_Missense_Mutation_p.H107R	NM_000026	NP_000017	P30566	PUR8_HUMAN	adenylosuccinate lyase isoform a	107					AMP biosynthetic process|protein tetramerization|purine base metabolic process	cytosol	(S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate AMP-lyase (fumarate-forming) activity|N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity			ovary(1)	1						GGCATTATTCACCTTGGTGCT	0.418													7	83					0	0	1	0	0		G	40746002	G	G	40746002	3	3	27	1	0	0	0	0	1	0	0	0	346	159	6	3	326	3	ADSL	22	40746002	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	34567	40746002	10558564	8118	30469											
MCHR1	2847	broad.mit.edu	37	chr22	41077411	41077411	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatcacccctgtgtggctgTatgccagactcatccccttc	6	11	8	16	0	2	1	2	0	0	1	4	1	3	1	5	1	1	3	5	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:41077411T>C	uc003ayz.2	+	2	1016	c.748T>C	c.(748-750)TAT>CAT	p.Y250H	MCHR1_uc003aza.2_Missense_Mutation_p.Y139H	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	250	Helical; Name=4; (Potential).		Y -> H.		elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						TGTGTGGCTGTATGCCAGACT	0.597													6	72					0	0	1	0	0		C	41077411	C	C	41077411	3	2	27	1	0	0	0	0	1	0	0	0	9400	1638	57	3	754	3	MCHR1	22	41077411	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	331409	41077411	10227155	8119	30470											
ST13	6767	broad.mit.edu	37	chr22	41226881	41226881	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcttctcgagccttcttaActcgttctattctttctttg	4	20	5	12	2	6	0	0	0	6	0	8	1	6	0	1	0	2	2	1	0	2	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:41226881A>T	uc003aze.2	-	9	904	c.761T>A	c.(760-762)GTT>GAT	p.V254D	ST13_uc011aow.1_Missense_Mutation_p.V244D	NM_003932	NP_003923	P50502	F10A1_HUMAN	heat shock 70kD protein binding protein	254							protein binding, bridging				0						AGCCTTCTTAACTCGTTCTAT	0.418													6	81					0	0	1	0	0		T	41226881	T	T	41226881	3	4	27	1	0	0	0	0	1	0	0	0	15235	43	2	5	364	5	ST13	22	41226881	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	149470	41226881	10077685	8120	30471											
RANGAP1	5905	broad.mit.edu	37	chr22	41645453	41645453	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggccttgaccttgtcttcActctgagaggaacacagcga	10	10	10	11	1	3	2	1	2	2	1	3	5	3	3	2	2	2	0	2	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:41645453A>G	uc003azs.2	-	14	3045	c.1575T>C	c.(1573-1575)AGT>AGC	p.S525S	RANGAP1_uc003azt.2_Silent_p.S525S|RANGAP1_uc003azu.2_Silent_p.S525S|RANGAP1_uc003azr.2_Silent_p.S38S|RANGAP1_uc010gyk.2_Silent_p.S28S|RANGAP1_uc011aoz.1_Silent_p.S470S	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	525	SUMO conjugation.				mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						CCTTGTCTTCACTCTGAGAGG	0.592													5	28					0	0	1	0	0		G	41645453	G	G	41645453	2	3	27	1	0	0	0	0	0	0	0	1	13058	156	6	3		3	RANGAP1	22	41645453	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	418572	41645453	9659113	8121	30472											
ZC3H7B	23264	broad.mit.edu	37	chr22	41745258	41745258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggacagctgccacttcgCccacagcttcatcgagctca	9	7	10	15	2	2	0	2	0	0	0	4	3	2	2	2	2	4	3	2	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:41745258C>T	uc003azw.2	+	16	2117	c.1901C>T	c.(1900-1902)GCC>GTC	p.A634V	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	650	C3H1-type 2.				interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						TGCCACTTCGCCCACAGCTTC	0.632													5	73					0	0	1	0	0		T	41745258	T	T	41745258	3	4	27	1	0	0	0	0	1	0	0	0	17598	739	26	2	1959	2	ZC3H7B	22	41745258	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	99805	41745258	9559308	8122	30473											
TOB2	10766	broad.mit.edu	37	chr22	41833079	41833079	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagggatcaatccagacacTcagctcctcaggcacattgg	13	7	9	12	0	3	1	3	0	0	1	5	2	5	2	2	3	1	2	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:41833079T>C	uc003azz.1	-	2	978	c.271A>G	c.(271-273)AGT>GGT	p.S91G		NM_016272	NP_057356	Q14106	TOB2_HUMAN	transducer of ERBB2, 2	91					female gamete generation|negative regulation of cell proliferation	cytoplasm|nucleus				ovary(1)	1						ATCCAGACACTCAGCTCCTCA	0.592													8	70					0	0	1	0	0		C	41833079	C	C	41833079	3	2	27	1	0	0	0	0	1	0	0	0	16373	1551	54	3	767	3	TOB2	22	41833079	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	87821	41833079	9471487	8123	30474											
MEI1	150365	broad.mit.edu	37	chr22	42180408	42180408	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagctttccaaagaaaaaGgctgcactactctcaggtat	13	10	7	11	0	2	1	2	0	1	1	4	1	3	1	1	2	3	4	1	2	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:42180408G>A	uc003baz.1	+	25	3178	c.3153G>A	c.(3151-3153)AAG>AAA	p.K1051K	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc011apd.1_RNA|MEI1_uc003bbb.1_Silent_p.K437K|MEI1_uc003bbc.1_Silent_p.K419K|MEI1_uc010gym.1_Silent_p.K384K|MEI1_uc003bbd.1_Silent_p.K294K|MEI1_uc010gyn.1_RNA|MEI1_uc003bbe.1_RNA|MEI1_uc011apf.1_Silent_p.K65K|MEI1_uc010gyo.1_Silent_p.K65K|MEI1_uc003bbf.2_Silent_p.K65K|MEI1_uc003bbg.2_Silent_p.K65K	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	1051							binding			central_nervous_system(1)|skin(1)	2						CAAAGAAAAAGGCTGCACTAC	0.502													3	61					0	0	1	0	0		A	42180408	A	A	42180408	2	1	27	1	0	0	0	0	0	0	0	1	9483	991	35	4		4	MEI1	22	42180408	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	347329	42180408	9124158	8124	30475											
SREBF2	6721	broad.mit.edu	37	chr22	42262990	42262990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggcaggggcagcagcagcGgagctgtggacccttcagtg	8	6	17	10	1	1	0	1	0	0	0	1	2	1	2	1	5	4	5	1	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:42262990G>A	uc003bbi.2	+	2	413	c.244G>A	c.(244-246)GGA>AGA	p.G82R	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron	NM_004599	NP_004590	Q12772	SRBP2_HUMAN	sterol regulatory element-binding transcription	82	Gly/Pro/Ser-rich.|Cytoplasmic (Potential).				cholesterol metabolic process	ER to Golgi transport vesicle membrane|Golgi membrane|nucleus|SREBP-SCAP-Insig complex	protein C-terminus binding			breast(2)|ovary(1)|central_nervous_system(1)	4						cagcagcagcGGAGCTGTGGA	0.403													10	74					0	0	1	0	0		A	42262990	A	A	42262990	3	1	27	1	0	0	0	0	1	0	0	0	15167	1117	39	1	250	1	SREBF2	22	42262990	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	82582	42262990	9041576	8125	30476											
SREBF2	6721	broad.mit.edu	37	chr22	42269866	42269866	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgatggggcaagagaaagTgcccattaagcaggtacctg	14	7	13	7	0	0	2	0	1	0	1	0	3	0	2	2	3	3	3	2	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:42269866T>C	uc003bbi.2	+	5	1101	c.932T>C	c.(931-933)GTG>GCG	p.V311A	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|SREBF2_uc003bbj.2_RNA	NM_004599	NP_004590	Q12772	SRBP2_HUMAN	sterol regulatory element-binding transcription	311	Interaction with LMNA (By similarity).|Cytoplasmic (Potential).				cholesterol metabolic process	ER to Golgi transport vesicle membrane|Golgi membrane|nucleus|SREBP-SCAP-Insig complex	protein C-terminus binding			breast(2)|ovary(1)|central_nervous_system(1)	4						CAAGAGAAAGTGCCCATTAAG	0.517													3	21					0	0	1	0	0		C	42269866	C	C	42269866	3	2	27	1	0	0	0	0	1	0	0	0	15167	1696	59	3	950	3	SREBF2	22	42269866	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6876	42269866	9034700	8126	30477											
TCF20	6942	broad.mit.edu	37	chr22	42609857	42609857	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgagggcctcttggaGgtcttcttctgaggagtcag	8	11	15	7	0	5	3	1	2	4	1	5	6	5	5	1	4	0	0	1	4	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:42609857G>T	uc003bcj.1	-	1	1589	c.1455C>A	c.(1453-1455)ACC>ACA	p.T485T	TCF20_uc003bck.1_Silent_p.T485T|TCF20_uc003bnt.2_Silent_p.T485T	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	485					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						GCCTCTTGGAGGTCTTCTTCT	0.483													14	204					1.99824e-07	2.18239e-07	1	1	0		T	42609857	T	T	42609857	2	4	27	1	0	0	0	0	0	0	0	1	15715	987	35	5		5	TCF20	22	42609857	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	339991	42609857	8694709	8127	30478											
NFAM1	150372	broad.mit.edu	37	chr22	42807623	42807623	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcttcatgaaagtagcTgactgtgaaaaccttgaatt	14	12	9	6	0	2	5	1	4	1	1	2	6	2	5	1	0	2	2	1	0	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:42807623T>C	uc003bcn.3	-	2	279	c.241A>G	c.(241-243)AGC>GGC	p.S81G		NM_145912	NP_666017	Q8NET5	NFAM1_HUMAN	NFAT activation molecule 1 precursor	81	Extracellular (Potential).|Ig-like V-type.				B cell differentiation|inflammatory response|intracellular signal transduction|positive regulation of B cell receptor signaling pathway|positive regulation of cytokine production|positive regulation of sequence-specific DNA binding transcription factor activity	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity				0						TGAAAGTAGCTGACTGTGAAA	0.552													7	82					0	0	1	0	0		C	42807623	C	C	42807623	3	2	27	1	0	0	0	0	1	0	0	0	10377	1580	55	3	591	3	NFAM1	22	42807623	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	197766	42807623	8496943	8128	30479											
SERHL2	253190	broad.mit.edu	37	chr22	42969952	42969952	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctctccagcagttccagtTtgtggaagtcccaggcaatc	8	10	9	14	0	1	0	0	0	1	0	5	1	3	1	4	2	1	4	4	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:42969952T>C	uc003bcr.2	+	12	938	c.836T>C	c.(835-837)TTT>TCT	p.F279S	SERHL2_uc010gyz.2_Missense_Mutation_p.F215S|SERHL2_uc010gyy.2_RNA|SERHL2_uc011apo.1_RNA|RRP7B_uc003bcs.2_Intron|RRP7B_uc003bct.2_RNA	NM_014509	NP_055324	Q9H4I8	SEHL2_HUMAN	serine hydrolase-like 2	279						perinuclear region of cytoplasm|peroxisome	hydrolase activity				0						CAGTTCCAGTTTGTGGAAGTC	0.617													9	85					0	0	1	0	0		C	42969952	C	C	42969952	3	2	27	1	0	0	0	0	1	0	0	0	14103	1841	64	3	882	3	SERHL2	22	42969952	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	162329	42969952	8334614	8129	30480											
CYB5R3	1727	broad.mit.edu	37	chr22	43023656	43023656	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacttcactgtcctgatgaTagggttggactttttgtcag	8	15	11	7	0	2	3	2	2	0	1	3	4	3	4	1	2	0	1	1	2	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:43023656T>A	uc003bcz.2	-	6	586	c.502A>T	c.(502-504)ATC>TTC	p.I168F	CYB5R3_uc010gzc.1_Missense_Mutation_p.I42F|CYB5R3_uc003bcw.2_Missense_Mutation_p.I158F|CYB5R3_uc011aps.1_Missense_Mutation_p.I201F|CYB5R3_uc003bcy.2_Missense_Mutation_p.I145F|CYB5R3_uc003bcx.2_Missense_Mutation_p.I145F	NM_000398	NP_000389	P00387	NB5R3_HUMAN	cytochrome b5 reductase 3 isoform m	168					blood circulation|cholesterol biosynthetic process|water-soluble vitamin metabolic process	endoplasmic reticulum membrane|hemoglobin complex|mitochondrial outer membrane	cytochrome-b5 reductase activity			skin(1)	1					NADH(DB00157)	GTCCTGATGATAGGGTTGGAC	0.602													6	81					0	0	1	0	0		A	43023656	A	A	43023656	3	1	27	1	0	0	0	0	1	0	0	0	4131	1406	49	5	419	5	CYB5R3	22	43023656	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	53704	43023656	8280910	8130	30481											
A4GALT	53947	broad.mit.edu	37	chr22	43089576	43089576	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcagaagtgagatgcccaGgtgccggggcagagaggcgt	9	5	18	9	2	1	3	1	1	0	3	1	5	1	3	2	4	2	2	2	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:43089576G>T	uc003bdb.2	-	3	643	c.382C>A	c.(382-384)CTG>ATG	p.L128M	A4GALT_uc010gzd.2_Missense_Mutation_p.L128M	NM_017436	NP_059132	Q9NPC4	A4GAT_HUMAN	alpha 1,4-galactosyltransferase	128	Lumenal (Potential).				glycosphingolipid biosynthetic process|plasma membrane organization	Golgi stack|integral to Golgi membrane|membrane fraction	lactosylceramide 4-alpha-galactosyltransferase activity			central_nervous_system(2)	2						GAGATGCCCAGGTGCCGGGGC	0.657													10	100					0.000978159	0.00102136	1	1	0		T	43089576	T	T	43089576	3	4	27	1	0	0	0	0	1	0	0	0	6	991	35	5	683	5	A4GALT	22	43089576	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	65920	43089576	8214990	8131	30482											
PACSIN2	11252	broad.mit.edu	37	chr22	43286998	43286998	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtgccttccgaaagccGtcctcagcttccttggtctc	4	14	8	15	2	3	0	1	0	2	0	7	1	6	0	5	1	3	1	5	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:43286998G>A	uc010gzg.2	-	4	630	c.408C>T	c.(406-408)GAC>GAT	p.D136D	PACSIN2_uc003bdg.3_Silent_p.D136D|PACSIN2_uc003bde.3_Silent_p.D136D|PACSIN2_uc003bdf.3_Silent_p.D136D	NM_007229	NP_009160	Q9UNF0	PACN2_HUMAN	protein kinase C and casein kinase substrate in	136					actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)				TCCGAAAGCCGTCCTCAGCTT	0.562													13	44					0	0	1	0	0		A	43286998	A	A	43286998	2	1	27	1	0	0	0	0	0	0	0	1	11394	1136	40	1		1	PACSIN2	22	43286998	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	197422	43286998	8017568	8132	30483											
MCAT	27349	broad.mit.edu	37	chr22	43533210	43533210	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacaggcgaagttgaacttGgactgaggctggccgaggac	12	6	15	8	2	0	2	0	2	0	0	0	6	0	4	1	5	2	2	1	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:43533210G>A	uc003bdl.1	-	3	655	c.606C>T	c.(604-606)TCC>TCT	p.S202S	MCAT_uc003bdm.1_Intron	NM_173467	NP_775738	Q8IVS2	FABD_HUMAN	mitochondrial malonyltransferase isoform a	202					fatty acid biosynthetic process	mitochondrion	[acyl-carrier-protein] S-malonyltransferase activity|binding			ovary(1)	1		Ovarian(80;0.0694)				AGTTGAACTTGGACTGAGGCT	0.532											OREG0026613	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	94					0	0	1	0	0		A	43533210	A	A	43533210	2	1	27	1	0	0	0	0	0	0	0	1	9390	1335	47	4		4	MCAT	22	43533210	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	246212	43533210	7771356	8133	30484											
EFCAB6	64800	broad.mit.edu	37	chr22	43950910	43950910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgagccaggatgtctctgtCggctgtggccttgggagagg	5	9	18	9	2	1	1	0	0	1	1	3	4	1	2	2	5	1	1	2	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:43950910C>T	uc003bdy.1	-	27	3702	c.3487G>A	c.(3487-3489)GAC>AAC	p.D1163N	EFCAB6_uc003bdz.1_Missense_Mutation_p.D1011N|EFCAB6_uc010gzi.1_Missense_Mutation_p.D1011N|EFCAB6_uc010gzj.1_Missense_Mutation_p.D389N	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1163					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				ATGTCTCTGTCGGCTGTGGCC	0.507													21	78					0	0	1	0	0		T	43950910	T	T	43950910	3	4	27	1	0	0	0	0	1	0	0	0	4945	884	31	1	1042	1	EFCAB6	22	43950910	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	417700	43950910	7353656	8134	30485											
EFCAB6	64800	broad.mit.edu	37	chr22	43950972	43950972	+	Missense_Mutation	SNP	G	A	A																															ttttctcagcccactcatcaGctgtctggacaaaatagaat																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:43950972G>A	uc003bdy.1	-	27	3640	c.3425C>T	c.(3424-3426)GCT>GTT	p.A1142V	EFCAB6_uc003bdz.1_Missense_Mutation_p.A990V|EFCAB6_uc010gzi.1_Missense_Mutation_p.A990V|EFCAB6_uc010gzj.1_Missense_Mutation_p.A368V	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CCACTCATCAGCTGTCTGGAC	0.552													8	46					0	0	1	0	0		A	43950972	A	A	43950972	3	1	27	1	0	0	0	0	1	0	0	0	4945	971	34	2	1104	2	EFCAB6	22	43950972	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	62	43950972	7353594	8135	30486	64	2									
EFCAB6	64800	broad.mit.edu	37	chr22	43950974	43950974	+	Silent	SNP	T	G	G																															ttctcagcccactcatcagcTgtctggacaaaatagaatgg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:43950974T>G	uc003bdy.1	-	27	3638	c.3423A>C	c.(3421-3423)ACA>ACC	p.T1141T	EFCAB6_uc003bdz.1_Silent_p.T989T|EFCAB6_uc010gzi.1_Silent_p.T989T|EFCAB6_uc010gzj.1_Silent_p.T367T	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1141					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				ACTCATCAGCTGTCTGGACAA	0.557													10	42					0	0	1	0	0		G	43950974	G	G	43950974	2	3	27	1	0	0	0	0	0	0	0	1	4945	1567	55	5		5	EFCAB6	22	43950974	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2	43950974	7353592	8136	30487	64	2									
SAMM50	25813	broad.mit.edu	37	chr22	44373776	44373776	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggcaggctacactggcgggGatgtgagcttcatcaaagaa	11	8	14	8	1	2	2	2	1	0	1	2	3	2	3	0	5	2	3	0	5	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:44373776G>T	uc003bej.2	+	10	1071	c.874G>T	c.(874-876)GAT>TAT	p.D292Y	SAMM50_uc011aqd.1_Missense_Mutation_p.D82Y|SAMM50_uc003bek.2_Missense_Mutation_p.D97Y	NM_015380	NP_056195	Q9Y512	SAM50_HUMAN	sorting and assembly machinery component 50	292					protein import into mitochondrial outer membrane	integral to membrane|integral to membrane of membrane fraction|mitochondrial sorting and assembly machinery complex	protein binding			skin(1)	1		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				CACTGGCGGGGATGTGAGCTT	0.468													4	20					0.184627	0.185716	1	1	0		T	44373776	T	T	44373776	3	4	27	1	0	0	0	0	1	0	0	0	13854	1174	41	5	912	5	SAMM50	22	44373776	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	422802	44373776	6930790	8137	30488											
C22orf9	23313	broad.mit.edu	37	chr22	45598993	45598993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctgggggcccttcatgcGcacaaactccatgttgctgt	6	10	11	14	1	1	0	1	0	0	0	2	0	2	0	3	2	3	3	3	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:45598993G>A	uc003bfx.1	-	7	796	c.730C>T	c.(730-732)CGC>TGC	p.R244C	C22orf9_uc010gzw.1_Missense_Mutation_p.R96C|C22orf9_uc003bfv.1_Missense_Mutation_p.R253C|C22orf9_uc003bfw.1_Missense_Mutation_p.R249C|C22orf9_uc010gzx.2_Missense_Mutation_p.R226C|MIR1249_hsa-mir-1249|MI0006384_5'Flank	NM_001009880	NP_001009880	Q6ICG6	K0930_HUMAN	hypothetical protein LOC23313 isoform b	244							protein binding				0		Ovarian(80;0.00965)|all_neural(38;0.0244)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|READ - Rectum adenocarcinoma(1;0.000617)|Colorectal(1;0.0024)		CCCTTCATGCGCACAAACTCC	0.642													36	137					0	0	1	0	0		A	45598993	A	A	45598993	3	1	27	1	0	0	0	0	1	0	0	0	2154	1087	38	1	500	1	C22orf9	22	45598993	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1225217	45598993	5705573	8138	30489											
FAM118A	55007	broad.mit.edu	37	chr22	45728581	45728581	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccactcagatctgcaaacaGcaaagcccaggtatgggatc	13	6	10	12	0	2	1	1	0	1	1	3	2	2	2	2	2	4	3	2	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:45728581G>A	uc003bfz.3	+	7	1543	c.927G>A	c.(925-927)CAG>CAA	p.Q309Q	FAM118A_uc003bga.3_Silent_p.Q309Q|FAM118A_uc011aqr.1_Silent_p.Q127Q	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	309						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		TCTGCAAACAGCAAAGCCCAG	0.323													20	146					0	0	1	0	0		A	45728581	A	A	45728581	2	1	27	1	0	0	0	0	0	0	0	1	5422	962	34	2		2	FAM118A	22	45728581	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	129588	45728581	5575985	8139	30490											
PKDREJ	10343	broad.mit.edu	37	chr22	46655545	46655545	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcataaattatcataaggAtcattatctggtagaactat	16	14	6	5	0	3	1	2	0	1	1	3	2	3	2	0	2	2	2	0	2	9	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:46655545A>T	uc003bhh.2	-	1	3675	c.3675T>A	c.(3673-3675)GAT>GAA	p.D1225E		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1225	Cytoplasmic (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TATCATAAGGATCATTATCTG	0.433													10	107					0	0	1	0	0		T	46655545	T	T	46655545	3	4	27	1	0	0	0	0	1	0	0	0	11989	330	12	5	3090	5	PKDREJ	22	46655545	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	926964	46655545	4649021	8140	30491											
PKDREJ	10343	broad.mit.edu	37	chr22	46655740	46655740	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatcacaatcaccttggcCatcacatagtgggtatgcag	11	9	11	10	0	3	0	3	0	0	0	3	1	3	1	2	3	1	2	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:46655740C>A	uc003bhh.2	-	1	3480	c.3480G>T	c.(3478-3480)ATG>ATT	p.M1160I		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1160	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TCACCTTGGCCATCACATAGT	0.502													40	123					4.0492e-12	4.50215e-12	1	1	0		A	46655740	A	A	46655740	3	1	27	1	0	0	0	0	1	0	0	0	11989	594	21	5	3285	5	PKDREJ	22	46655740	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	195	46655740	4648826	8141	30492											
PKDREJ	10343	broad.mit.edu	37	chr22	46655797	46655797	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgattgtgcccagctgccgCctagcccttactacattctt	6	12	7	16	2	1	0	0	0	1	0	1	1	1	0	5	0	6	1	5	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:46655797C>T	uc003bhh.2	-	1	3423	c.3423G>A	c.(3421-3423)AGG>AGA	p.R1141R		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1141	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		CCAGCTGCCGCCTAGCCCTTA	0.507													5	151					0	0	1	0	0		T	46655797	T	T	46655797	2	4	27	1	0	0	0	0	0	0	0	1	11989	738	26	2		2	PKDREJ	22	46655797	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	57	46655797	4648769	8142	30493											
GTSE1	51512	broad.mit.edu	37	chr22	46712215	46712215	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttctcaattgaataagacTagaagtatcagacggcgaga	15	10	9	7	2	3	5	2	1	2	4	4	6	3	5	0	1	0	1	0	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:46712215T>C	uc011aqy.1	+	7	1550	c.1338T>C	c.(1336-1338)ACT>ACC	p.T446T	GTSE1_uc011aqz.1_Silent_p.T293T|GTSE1_uc003bhl.1_Silent_p.T71T|GTSE1_uc003bhm.1_Silent_p.T71T	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	427					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		TGAATAAGACTAGAAGTATCA	0.468													12	138					0	0	1	0	0		C	46712215	C	C	46712215	2	2	27	1	0	0	0	0	0	0	0	1	6901	1509	53	3		3	GTSE1	22	46712215	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	56418	46712215	4592351	8143	30494											
GTSE1	51512	broad.mit.edu	37	chr22	46719117	46719117	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacagctcaacaccaaagcTttcgcgggcacagcggccgc	10	4	12	15	4	1	0	1	0	0	0	2	1	1	1	2	3	4	3	2	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:46719117T>G	uc011aqy.1	+	8	1675	c.1463T>G	c.(1462-1464)CTT>CGT	p.L488R	GTSE1_uc011aqz.1_Missense_Mutation_p.L335R|GTSE1_uc003bhl.1_Missense_Mutation_p.L113R|GTSE1_uc003bhm.1_Missense_Mutation_p.L113R	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	469					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		ACACCAAAGCTTTCGCGGGCA	0.562													9	84					0	0	1	0	0		G	46719117	G	G	46719117	3	3	27	1	0	0	0	0	1	0	0	0	6901	1609	56	5	1489	5	GTSE1	22	46719117	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	6902	46719117	4585449	8144	30495											
CELSR1	9620	broad.mit.edu	37	chr22	46929687	46929687	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgtcggggtcatgggccggGatgcagccgatcacgccggt	6	6	17	12	6	2	0	2	0	0	0	3	2	2	1	3	5	2	1	3	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:46929687G>T	uc003bhw.1	-	1	3381	c.3381C>A	c.(3379-3381)ATC>ATA	p.I1127I		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1127	Extracellular (Potential).|Cadherin 9.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CATGGGCCGGGATGCAGCCGA	0.607													15	111					0.000308642	0.000324579	1	1	0		T	46929687	T	T	46929687	2	4	27	1	0	0	0	0	0	0	0	1	3224	1164	41	5		5	CELSR1	22	46929687	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	210570	46929687	4374879	8145	30496											
GRAMD4	23151	broad.mit.edu	37	chr22	47071445	47071445	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggacatcacggacatccAgaaggttggtgcacctaccc	11	7	11	12	1	1	1	1	0	0	1	2	3	2	3	3	4	2	2	3	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:47071445A>G	uc003bhx.2	+	16	1598	c.1559A>G	c.(1558-1560)CAG>CGG	p.Q520R	GRAMD4_uc010had.2_Missense_Mutation_p.Q459R|GRAMD4_uc003bhy.2_Missense_Mutation_p.Q43R	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	520	GRAM.				apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		ACGGACATCCAGAAGGTTGGT	0.532													6	69					0	0	1	0	0		G	47071445	G	G	47071445	3	3	27	1	0	0	0	0	1	0	0	0	6768	188	7	3	1621	3	GRAMD4	22	47071445	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	141758	47071445	4233121	8146	30497											
CERK	64781	broad.mit.edu	37	chr22	47086002	47086002	+	Frame_Shift_Del	DEL	C	-	-																															atgtgcccaaagcgcttcttCcccccctccttgaggtcgct																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:47086002delC	uc003bia.2	-	12	1535	c.1428delG	c.(1426-1428)GGGfs	p.G476fs	CERK_uc010hae.2_Frame_Shift_Del_p.G278fs	NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	476					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		AGCGCTTCTTCCCCCCCTCCT	0.557													30	66	---	---	---	---						.	-	47086002	-	-	47086002	7	5	27	1	0	1	0	1	0	0	0	0	3270	842	30	0	193	0	CERK	22	47086002	Frame_Shift_Del	DEL	C	TCGA-BR-6452-01A-12D-1800-08	14557	47086002	4218564	8147	30498											
CERK	64781	broad.mit.edu	37	chr22	47086049	47086049	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcctccatgtgcttcgacgTaaactggaatttcttgacgc	9	13	8	11	3	1	1	0	1	1	0	4	3	3	2	2	1	2	2	2	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:47086049T>C	uc003bia.2	-	12	1488	c.1381A>G	c.(1381-1383)ACG>GCG	p.T461A	CERK_uc010hae.2_Missense_Mutation_p.T263A	NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	461					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TGCTTCGACGTAAACTGGAAT	0.517													15	78					0	0	1	0	0		C	47086049	C	C	47086049	3	2	27	1	0	0	0	0	1	0	0	0	3270	1638	57	3	240	3	CERK	22	47086049	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47	47086049	4218517	8148	30499											
CERK	64781	broad.mit.edu	37	chr22	47089353	47089353	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaaccatacagtgctttcTtctgctcctcctccagctgc	7	12	5	17	0	2	0	0	0	2	0	5	0	5	0	5	0	6	3	5	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:47089353T>C	uc003bia.2	-	10	1204	c.1097A>G	c.(1096-1098)AAG>AGG	p.K366R	CERK_uc010hae.2_Missense_Mutation_p.K168R	NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	366					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CAGTGCTTTCTTCTGCTCCTC	0.488													3	73					0	0	1	0	0		C	47089353	C	C	47089353	3	2	27	1	0	0	0	0	1	0	0	0	3270	1609	56	3	532	3	CERK	22	47089353	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3304	47089353	4215213	8149	30500											
TBC1D22A	25771	broad.mit.edu	37	chr22	47189568	47189568	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgaggtggtcatggagaCggccaaccgtgtgctgcgta	7	8	15	11	4	1	1	1	0	0	1	2	3	2	1	3	4	3	2	3	4	2	1	rs141580250	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:47189568C>T	uc003bib.2	+	3	425	c.290C>T	c.(289-291)ACG>ATG	p.T97M	TBC1D22A_uc010haf.2_Missense_Mutation_p.T67M|TBC1D22A_uc003bic.2_Missense_Mutation_p.T97M|TBC1D22A_uc003bie.2_Missense_Mutation_p.T78M|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.T50M	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	97						intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		GTCATGGAGACGGCCAACCGT	0.677													8	32					0	0	1	0	0		T	47189568	T	T	47189568	3	4	27	1	0	0	0	0	1	0	0	0	15636	536	19	1	300	1	TBC1D22A	22	47189568	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	100215	47189568	4114998	8150	30501											
TBC1D22A	25771	broad.mit.edu	37	chr22	47507445	47507445	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catttccacttgtacgtgtgCgctgcttttctcgtgagatg	5	16	10	10	3	1	1	0	1	1	1	3	2	2	1	1	0	3	3	1	0	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:47507445C>T	uc003bib.2	+	12	1506	c.1371C>T	c.(1369-1371)TGC>TGT	p.C457C	TBC1D22A_uc010haf.2_Silent_p.C427C|TBC1D22A_uc003bic.2_Silent_p.C398C|TBC1D22A_uc003bie.2_Silent_p.C379C|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Silent_p.C410C	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	457						intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		TGTACGTGTGCGCTGCTTTTC	0.373													26	80					0	0	1	0	0		T	47507445	T	T	47507445	2	4	27	1	0	0	0	0	0	0	0	1	15636	776	27	1		1	TBC1D22A	22	47507445	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	317877	47507445	3797121	8151	30502											
ZBED4	9889	broad.mit.edu	37	chr22	50280486	50280486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccccgtcgaaagactctgCcgcagaggagaacctgtggt	9	7	12	13	3	1	3	0	0	1	3	3	5	2	3	4	2	2	1	4	2	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:50280486C>T	uc003bix.2	+	2	3646	c.3176C>T	c.(3175-3177)GCC>GTC	p.A1059V		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	1059						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		AAAGACTCTGCCGCAGAGGAG	0.532													6	66					0	0	1	0	0		T	50280486	T	T	50280486	3	4	27	1	0	0	0	0	1	0	0	0	17545	739	26	2	3178	2	ZBED4	22	50280486	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2773041	50280486	1024080	8152	30503											
ALG12	79087	broad.mit.edu	37	chr22	50298028	50298028	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcctctgcattgcgacGccacctgggtagttgaaatg	8	10	12	11	2	1	1	0	1	1	0	1	2	1	1	3	1	4	4	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:50298028G>A	uc003biy.2	-	8	1393	c.1119C>T	c.(1117-1119)GGC>GGT	p.G373G		NM_024105	NP_077010	Q9BV10	ALG12_HUMAN	alpha-1,6-mannosyltransferase ALG12	373					dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	integral to membrane|intrinsic to endoplasmic reticulum membrane					0		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		BRCA - Breast invasive adenocarcinoma(115;0.199)|LUAD - Lung adenocarcinoma(64;0.247)		GCATTGCGACGCCACCTGGGT	0.637													11	43					0	0	1	0	0		A	50298028	A	A	50298028	2	1	27	1	0	0	0	0	0	0	0	1	514	1074	38	1		1	ALG12	22	50298028	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	17542	50298028	1006538	8153	30504											
CRELD2	79174	broad.mit.edu	37	chr22	50313888	50313888	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaacctacggtcccgaCtgtctcggtgcgtttctcct	5	11	10	15	4	2	0	0	0	2	0	5	2	3	1	4	3	3	1	4	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:50313888C>T	uc003bja.2	+	4	543	c.408C>T	c.(406-408)GAC>GAT	p.D136D	ALG12_uc003biy.2_5'Flank|CRELD2_uc003biz.3_Silent_p.D136D|CRELD2_uc010haj.2_Silent_p.D136D|CRELD2_uc010hal.2_Silent_p.D136D|CRELD2_uc010hak.2_Silent_p.D136D|CRELD2_uc010ham.2_Silent_p.D136D	NM_024324	NP_077300	Q6UXH1	CREL2_HUMAN	cysteine-rich with EGF-like domains 2 isoform b	136	EGF-like 1.					endoplasmic reticulum|extracellular region	calcium ion binding				0		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.198)|LUAD - Lung adenocarcinoma(64;0.247)		ACGGTCCCGACTGTCTCGGTG	0.512													8	47					0	0	1	0	0		T	50313888	T	T	50313888	2	4	27	1	0	0	0	0	0	0	0	1	3870	564	20	4		4	CRELD2	22	50313888	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15860	50313888	990678	8154	30505											
MOV10L1	54456	broad.mit.edu	37	chr22	50599130	50599130	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttaggtacggtcaaatgAagatagatttgaagatgatc	14	13	10	4	1	1	6	1	3	0	3	2	6	1	6	0	2	1	1	0	2	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:50599130A>G	uc003bjj.2	+	25	3421	c.3338A>G	c.(3337-3339)GAA>GGA	p.E1113G	MOV10L1_uc003bjk.3_Intron|MOV10L1_uc011arp.1_Missense_Mutation_p.E1093G|MOV10L1_uc003bjl.2_Missense_Mutation_p.E240G	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	1113					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		CGGTCAAATGAAGATAGATTT	0.348													9	68					0	0	1	0	0		G	50599130	G	G	50599130	3	3	27	1	0	0	0	0	1	0	0	0	9737	246	9	3	3489	3	MOV10L1	22	50599130	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	285242	50599130	705436	8155	30506											
MAPK12	6300	broad.mit.edu	37	chr22	50693732	50693732	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcgaagtagggatgggcCagcgcctcgcctgccgtcac	7	6	14	14	4	1	0	1	0	0	0	3	3	1	1	4	2	2	1	4	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:50693732C>T	uc003bkm.1	-	11	1069	c.918G>A	c.(916-918)CTG>CTA	p.L306L	MAPK12_uc003bkn.2_Silent_p.L125L|MAPK12_uc003bko.2_Silent_p.L216L|MAPK12_uc003bkl.1_Silent_p.L296L|MAPK12_uc003bkp.2_Silent_p.L91L|MAPK12_uc003bkq.2_Silent_p.L125L	NM_002969	NP_002960	P53778	MK12_HUMAN	mitogen-activated protein kinase 12	306	Protein kinase.				cell cycle arrest|DNA damage induced protein phosphorylation|muscle organ development|myoblast differentiation|nerve growth factor receptor signaling pathway|positive regulation of muscle cell differentiation|Ras protein signal transduction	mitochondrion|nucleoplasm	ATP binding|magnesium ion binding|MAP kinase activity|protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		AGGGATGGGCCAGCGCCTCGC	0.617													6	104					0	0	1	0	0		T	50693732	T	T	50693732	2	4	27	1	0	0	0	0	0	0	0	1	9292	581	21	4		4	MAPK12	22	50693732	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	94602	50693732	610834	8156	30507											
PLXNB2	23654	broad.mit.edu	37	chr22	50722592	50722592	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcgatattcttgccgtaAgacttgacgtagaggtgcag	9	12	12	8	3	1	3	0	1	1	2	2	4	1	3	1	1	2	3	1	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:50722592A>G	uc003bkv.3	-	13	2338	c.2232T>C	c.(2230-2232)TCT>TCC	p.S744S	PLXNB2_uc003bkt.1_5'Flank|PLXNB2_uc003bku.1_5'Flank	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	744	Extracellular (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TCTTGCCGTAAGACTTGACGT	0.448													4	75					0	0	1	0	0		G	50722592	G	G	50722592	2	3	27	1	0	0	0	0	0	0	0	1	12143	59	3	3		3	PLXNB2	22	50722592	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	28860	50722592	581974	8157	30508											
SAPS2	9701	broad.mit.edu	37	chr22	50878428	50878428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagctctccggtggacaCagaatgcagccatgctgagg	9	7	14	11	1	1	2	0	1	1	1	2	3	1	3	2	3	5	4	2	3	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:50878428C>T	uc003blb.1	+	22	2746	c.2324C>T	c.(2323-2325)ACA>ATA	p.T775I	SAPS2_uc003bky.1_Missense_Mutation_p.T749I|SAPS2_uc003bkz.1_Missense_Mutation_p.T748I|SAPS2_uc003blc.2_Missense_Mutation_p.T775I|SAPS2_uc003bla.1_Missense_Mutation_p.T749I|SAPS2_uc003bld.1_Missense_Mutation_p.T308I	NM_014678	NP_055493	O75170	PP6R2_HUMAN	SAPS domain family, member 2	775						cytoplasm|intracellular membrane-bounded organelle	protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.222)		CCGGTGGACACAGAATGCAGC	0.637													5	43					0	0	1	0	0		T	50878428	T	T	50878428	3	4	27	1	0	0	0	0	1	0	0	0	13862	478	17	4	2313	4	SAPS2	22	50878428	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	155836	50878428	426138	8158	30509											
NCAPH2	29781	broad.mit.edu	37	chr22	50956441	50956441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctgcccatggccctggtgGcccctgatgaaatggagaag	8	8	13	12	0	0	3	0	2	0	1	1	4	1	3	5	4	1	0	5	4	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:50956441G>A	uc003blr.3	+	6	582	c.460G>A	c.(460-462)GCC>ACC	p.A154T	NCAPH2_uc003blq.3_Missense_Mutation_p.A154T|NCAPH2_uc003blv.2_Missense_Mutation_p.A154T|NCAPH2_uc010hbb.2_Missense_Mutation_p.A5T|NCAPH2_uc003blu.3_RNA|NCAPH2_uc003bls.3_RNA|NCAPH2_uc003blt.3_RNA|NCAPH2_uc003blw.3_RNA|NCAPH2_uc003blx.3_Missense_Mutation_p.A154T|NCAPH2_uc003bly.3_RNA	NM_152299	NP_689512	Q6IBW4	CNDH2_HUMAN	kleisin beta isoform 2	154					chromosome condensation	chromosome|nucleus				ovary(1)|skin(1)	2		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.212)		GGCCCTGGTGGCCCCTGATGA	0.622													4	50					0	0	1	0	0		A	50956441	A	A	50956441	3	1	27	1	0	0	0	0	1	0	0	0	10229	1203	42	2	482	2	NCAPH2	22	50956441	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	78013	50956441	348125	8159	30510											
ARSA	410	broad.mit.edu	37	chr22	51063611	51063611	+	Frame_Shift_Del	DEL	G	-	-																															gcaatggcagcaagctgggcGgggggtgcagccaggatgac																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chr22:51063611delG	uc003bnb.3	-	9	1739	c.1486delC	c.(1486-1488)CGCfs	p.R496fs	ARSA_uc003bna.3_Frame_Shift_Del_p.R412fs|ARSA_uc003bnc.3_Frame_Shift_Del_p.R496fs|ARSA_uc003bnd.3_Frame_Shift_Del_p.R496fs|ARSA_uc003bmz.3_Frame_Shift_Del_p.R496fs	NM_001085426	NP_001078895	P15289	ARSA_HUMAN	arylsulfatase A isoform a precursor	496						lysosome	arylsulfatase activity|calcium ion binding|cerebroside-sulfatase activity			pancreas(1)|skin(1)	2		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)	Micafungin(DB01141)	CAAGCTGGGCGGGGGGTGCAG	0.692													7	11	---	---	---	---						.	-	51063611	-	-	51063611	7	5	27	1	0	1	0	1	0	0	0	0	988	1116	39	0	41	0	ARSA	22	51063611	Frame_Shift_Del	DEL	G	TCGA-BR-6452-01A-12D-1800-08	107170	51063611	240955	8160	30511											
PLCXD1	55344	broad.mit.edu	37	chrX	209792	209792	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgcgccggcaccacgagCtgtggccaggagtcccctac	6	6	12	17	3	0	0	0	0	0	0	1	2	1	1	6	3	3	2	6	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:209792C>T	uc004cpc.2	+	6	952	c.640C>T	c.(640-642)CTG>TTG	p.L214L	PLCXD1_uc011mgx.1_RNA	NM_018390	NP_060860	Q9NUJ7	PLCX1_HUMAN	phosphatidylinositol-specific phospholipase C, X	214					intracellular signal transduction|lipid metabolic process		phospholipase C activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCACCACGAGCTGTGGCCAGG	0.637													11	56					0	0	1	0	0		T	209792	T	T	209792	2	4	27	1	0	0	0	0	0	0	0	1	12060	796	28	2		2	PLCXD1	23	209792	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08		209792	155060768	8161	30512											
PPP2R3B	28227	broad.mit.edu	37	chrX	302119	302119	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgatcttcccttccttctgCacttttctgcctctagatcg	4	17	5	15	1	4	2	0	1	4	1	7	2	6	2	3	0	2	1	3	0	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:302119C>G	uc004cpg.2	-	9	1299	c.1098G>C	c.(1096-1098)GTG>GTC	p.V366V	PPP2R3B_uc004cpf.2_5'UTR	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	366					cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CTTCCTTCTGCACTTTTCTGC	0.542													16	232					0	0	1	0	0		G	302119	G	G	302119	2	3	27	1	0	0	0	0	0	0	0	1	12411	697	25	5		5	PPP2R3B	23	302119	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	92327	302119	154968441	8162	30513											
PPP2R3B	28227	broad.mit.edu	37	chrX	306303	306303	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgatgagcaggtcgtggtcCgtgtccagctcccagaactt	7	10	12	12	3	0	2	0	1	0	1	5	3	3	2	3	2	3	2	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:306303C>T	uc004cpg.2	-	7	1185	c.984G>A	c.(982-984)ACG>ACA	p.T328T	PPP2R3B_uc011mha.1_Silent_p.T167T	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	328					cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GGTCGTGGTCCGTGTCCAGCT	0.647													27	87					0	0	1	0	0		T	306303	T	T	306303	2	4	27	1	0	0	0	0	0	0	0	1	12411	639	23	1		1	PPP2R3B	23	306303	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4184	306303	154964257	8163	30514											
IL3RA	3563	broad.mit.edu	37	chrX	1471268	1471268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacggatgctcagggaacacGtatcgggtgtcgtttcgatg	9	10	14	8	5	1	0	1	0	0	0	4	3	1	2	0	3	3	3	0	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:1471268G>A	uc004cps.2	+	6	834	c.485G>A	c.(484-486)CGT>CAT	p.R162H	IL3RA_uc011mhd.1_Missense_Mutation_p.R84H	NM_002183	NP_002174	P26951	IL3RA_HUMAN	interleukin 3 receptor, alpha precursor	162	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-3 receptor activity			skin(2)|lung(1)	3		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CAGGGAACACGTATCGGGTGT	0.592													30	234					0	0	1	0	0		A	1471268	A	A	1471268	3	1	27	1	0	0	0	0	1	0	0	0	7711	1145	40	1	503	1	IL3RA	23	1471268	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1164965	1471268	153799292	8164	30515											
SLC25A6	293	broad.mit.edu	37	chrX	1505571	1505571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgcaggacgttggaccacGcacccttgaagaaggccttg	9	6	12	14	3	0	2	0	1	0	1	0	4	0	4	4	3	0	3	4	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:1505571G>A	uc004cpt.2	-	4	917	c.821C>T	c.(820-822)GCG>GTG	p.A274V	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	274	Helical; Name=6; (By similarity).|Solcar 3.				active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	GTTGGACCACGCACCCTTGAA	0.607													22	192					0	0	1	0	0		A	1505571	A	A	1505571	3	1	27	1	0	0	0	0	1	0	0	0	14538	1087	38	1	79	1	SLC25A6	23	1505571	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	34303	1505571	153764989	8165	30516											
SLC25A6	293	broad.mit.edu	37	chrX	1506206	1506206	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gactgcatcatcatgcgccgCcgcaccgtgtcgaaggggta	8	7	13	13	5	2	0	2	0	0	0	3	2	2	0	3	2	2	3	3	2	2	1	rs141436047		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:1506206C>T	uc004cpt.2	-	3	801	c.705G>A	c.(703-705)CGG>CGA	p.R235R	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	235	Helical; Name=5; (By similarity).|Substrate recognition (By similarity).|Solcar 3.				active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	TCATGCGCCGCCGCACCGTGT	0.682													5	108					0	0	1	0	0		T	1506206	T	T	1506206	2	4	27	1	0	0	0	0	0	0	0	1	14538	726	26	2		2	SLC25A6	23	1506206	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	635	1506206	153764354	8166	30517											
SLC25A6	293	broad.mit.edu	37	chrX	1508486	1508486	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagttgagggcttgagtgggGaagtagcgaatgacgttggc	10	9	18	4	2	0	3	0	3	0	0	0	5	0	4	0	4	1	4	0	4	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:1508486G>T	uc004cpt.2	-	2	342	c.246C>A	c.(244-246)TTC>TTA	p.F82L	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	82	Solcar 1.|Helical; Name=2; (By similarity).				active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	CTTGAGTGGGGAAGTAGCGAA	0.572													22	207					1.55469e-16	1.73893e-16	1	1	0		T	1508486	T	T	1508486	3	4	27	1	0	0	0	0	1	0	0	0	14538	1165	41	5	662	5	SLC25A6	23	1508486	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2280	1508486	153762074	8167	30518											
ASMTL	8623	broad.mit.edu	37	chrX	1522303	1522303	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcagtctgcaccagcatGttcagtgactgcatcagggc	8	10	10	13	0	4	1	3	1	1	0	4	1	4	1	2	1	3	4	2	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:1522303G>A	uc004cpx.1	-	13	1836	c.1725C>T	c.(1723-1725)AAC>AAT	p.N575N	NCRNA00105_uc004cpv.2_Intron|NCRNA00105_uc004cpw.2_Intron|ASMTL_uc011mhe.1_Silent_p.N499N|ASMTL_uc004cpy.1_Silent_p.N559N|ASMTL_uc011mhf.1_Silent_p.N517N	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	575	ASMT-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCACCAGCATGTTCAGTGACT	0.647													17	101					0	0	1	0	0		A	1522303	A	A	1522303	2	1	27	1	0	0	0	0	0	0	0	1	1047	1368	48	4		4	ASMTL	23	1522303	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	13817	1522303	153748257	8168	30519											
ASMTL	8623	broad.mit.edu	37	chrX	1540734	1540734	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtctctgtgttactgtaAcctggagaaatggggacagt	9	12	13	7	0	1	1	0	0	1	1	2	3	1	2	1	3	2	3	1	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:1540734A>G	uc004cpx.1	-	9	1173	c.1062T>C	c.(1060-1062)GGT>GGC	p.G354G	ASMTL_uc011mhe.1_Silent_p.G278G|ASMTL_uc004cpy.1_Silent_p.G338G|ASMTL_uc011mhf.1_Silent_p.G296G	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	354	ASMT-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TGTTACTGTAACCTGGAGAAA	0.473													33	294					0	0	1	0	0		G	1540734	G	G	1540734	2	3	27	1	0	0	0	0	0	0	0	1	1047	57	2	3		3	ASMTL	23	1540734	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	18431	1540734	153729826	8169	30520											
P2RY8	286530	broad.mit.edu	37	chrX	1584391	1584391	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaacacactctcctgcCtctggaggccgggcctggtg	6	8	12	15	1	3	1	1	0	2	1	4	2	3	2	4	4	2	0	4	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:1584391C>A	uc004cpz.2	-	2	1309	c.1061G>T	c.(1060-1062)AGG>ATG	p.R354M		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	354	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ACTCTCCTGCCTCTGGAGGCC	0.706			T	CRLF2	B-ALL|Downs associated ALL								6	89					0.000157383	0.000166242	1	1	0		A	1584391	A	A	1584391	3	1	27	1	0	0	0	0	1	0	0	0	11374	681	24	5	22	5	P2RY8	23	1584391	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	43657	1584391	153686169	8170	30521											
P2RY8	286530	broad.mit.edu	37	chrX	1585104	1585104	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaagcgctccacgctgatAcaggtcatggtgaggatgct	10	8	14	9	2	1	2	1	2	0	0	2	4	2	4	1	4	3	3	1	4	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:1585104A>G	uc004cpz.2	-	2	596	c.348T>C	c.(346-348)TGT>TGC	p.C116C		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	116	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCACGCTGATACAGGTCATGG	0.622			T	CRLF2	B-ALL|Downs associated ALL								4	26					0	0	1	0	0		G	1585104	G	G	1585104	2	3	27	1	0	0	0	0	0	0	0	1	11374	389	14	3		3	P2RY8	23	1585104	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	713	1585104	153685456	8171	30522											
SFRS17A	8227	broad.mit.edu	37	chrX	1712482	1712482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcccgcagctgaagcagccgGggaagtccatctccaactgg	9	6	12	14	2	1	1	0	1	1	0	4	2	3	2	4	3	4	3	4	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:1712482G>A	uc004cqa.2	+	2	323	c.127G>A	c.(127-129)GGG>AGG	p.G43R	SFRS17A_uc010ncx.1_Missense_Mutation_p.G43R|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'Flank	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	43					B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GAAGCAGCCGGGGAAGTCCAT	0.587													17	130					0	0	1	0	0		A	1712482	A	A	1712482	3	1	27	1	0	0	0	0	1	0	0	0	14198	1232	43	4	129	4	SFRS17A	23	1712482	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	127378	1712482	153558078	8172	30523											
DHRSX	207063	broad.mit.edu	37	chrX	2161159	2161159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaccccggggtccaccaCgttggcggtcacgtggcttc	5	7	13	16	4	1	0	1	0	0	0	3	1	2	0	5	5	0	2	5	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:2161159C>T	uc004cqf.3	-	6	758	c.709G>A	c.(709-711)GTG>ATG	p.V237M		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	237							binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				GGGTCCACCACGTTGGCGGTC	0.632													16	62					0	0	1	0	0		T	2161159	T	T	2161159	3	4	27	1	0	0	0	0	1	0	0	0	4505	536	19	1	291	1	DHRSX	23	2161159	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	448677	2161159	153109401	8173	30524											
ZBED1	9189	broad.mit.edu	37	chrX	2408217	2408217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagctccttcaggatcacctCccggacggccccgtacttct	6	9	8	18	3	3	0	2	0	1	0	5	2	5	2	5	3	2	2	5	3	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:2408217C>T	uc004cqg.2	-	2	745	c.544G>A	c.(544-546)GAG>AAG	p.E182K	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Missense_Mutation_p.E182K	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	182						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AGGATCACCTCCCGGACGGCC	0.632													16	188					0	0	1	0	0		T	2408217	T	T	2408217	3	4	27	1	0	0	0	0	1	0	0	0	17543	864	30	4	1544	4	ZBED1	23	2408217	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	247058	2408217	152862343	8174	30525											
ZBED1	9189	broad.mit.edu	37	chrX	2408366	2408366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acagcccctcgcagatgaggCccagcacggcggccgtcagc	8	3	13	17	4	1	2	1	1	0	1	2	2	1	2	4	3	3	2	4	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:2408366C>T	uc004cqg.2	-	2	596	c.395G>A	c.(394-396)GGC>GAC	p.G132D	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Missense_Mutation_p.G132D	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	132						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCAGATGAGGCCCAGCACGGC	0.701													7	57					0	0	1	0	0		T	2408366	T	T	2408366	3	4	27	1	0	0	0	0	1	0	0	0	17543	739	26	2	1693	2	ZBED1	23	2408366	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	149	2408366	152862194	8175	30526											
ARSE	415	broad.mit.edu	37	chrX	2856150	2856150	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtacctgtcctggggcacCtcgccgcccgccagccggac	4	6	12	19	4	0	0	0	0	0	0	2	1	1	1	7	3	2	2	7	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:2856150C>T	uc004crc.3	-	9	1525	c.1275G>A	c.(1273-1275)GAG>GAA	p.E425E	ARSE_uc011mhi.1_Silent_p.E371E|ARSE_uc011mhh.1_Silent_p.E450E	NM_000047	NP_000038	P51690	ARSE_HUMAN	arylsulfatase E precursor	425					skeletal system development	Golgi stack	arylsulfatase activity|metal ion binding			ovary(1)|central_nervous_system(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCTGGGGCACCTCGCCGCCCG	0.597													12	127					0	0	1	0	0		T	2856150	T	T	2856150	2	4	27	1	0	0	0	0	0	0	0	1	991	680	24	4		4	ARSE	23	2856150	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	447784	2856150	152414410	8176	30527											
ARSE	415	broad.mit.edu	37	chrX	2861128	2861128	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttataaattccattccagccAccatactgggtgtttccaag	11	13	6	11	0	0	0	0	0	0	0	3	0	3	0	5	1	2	1	5	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:2861128A>T	uc004crc.3	-	8	1354	c.1104T>A	c.(1102-1104)GGT>GGA	p.G368G	ARSE_uc011mhi.1_Silent_p.G314G|ARSE_uc011mhh.1_Silent_p.G393G	NM_000047	NP_000038	P51690	ARSE_HUMAN	arylsulfatase E precursor	368					skeletal system development	Golgi stack	arylsulfatase activity|metal ion binding			ovary(1)|central_nervous_system(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CATTCCAGCCACCATACTGGG	0.463													11	137					0	0	1	0	0		T	2861128	T	T	2861128	2	4	27	1	0	0	0	0	0	0	0	1	991	146	6	5		5	ARSE	23	2861128	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	4978	2861128	152409432	8177	30528											
MXRA5	25878	broad.mit.edu	37	chrX	3229042	3229042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttctgaataaggagagtgCcatcttggtatatctgatac	11	14	9	7	0	3	3	0	2	3	1	3	4	3	3	1	2	2	1	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:3229042C>T	uc004crg.3	-	7	7359	c.7202G>A	c.(7201-7203)GGC>GAC	p.G2401D		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2401	Ig-like C2-type 8.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				AAGGAGAGTGCCATCTTGGTA	0.532													13	97					0	0	1	0	0		T	3229042	T	T	3229042	3	4	27	1	0	0	0	0	1	0	0	0	10021	739	26	2	1288	2	MXRA5	23	3229042	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	367914	3229042	152041518	8178	30529											
MXRA5	25878	broad.mit.edu	37	chrX	3239357	3239357	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttgatcaagggtggtggTttctgcctgacttgaagcca	8	13	12	8	0	3	3	1	3	2	0	3	3	3	3	2	3	2	1	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:3239357T>C	uc004crg.3	-	5	4526	c.4369A>G	c.(4369-4371)ACC>GCC	p.T1457A		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1457						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				AGGGTGGTGGTTTCTGCCTGA	0.483													5	90					0	0	1	0	0		C	3239357	C	C	3239357	3	2	27	1	0	0	0	0	1	0	0	0	10021	1725	60	3	4129	3	MXRA5	23	3239357	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	10315	3239357	152031203	8179	30530											
MXRA5	25878	broad.mit.edu	37	chrX	3239946	3239946	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctatgtttattttctggAgaagggctgggcttggatcc	6	17	12	6	0	2	1	0	0	2	1	3	3	3	2	1	4	0	3	1	4	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:3239946A>T	uc004crg.3	-	5	3937	c.3780T>A	c.(3778-3780)TCT>TCA	p.S1260S		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1260						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TATTTTCTGGAGAAGGGCTGG	0.453													45	150					0	0	1	0	0		T	3239946	T	T	3239946	2	4	27	1	0	0	0	0	0	0	0	1	10021	291	11	5		5	MXRA5	23	3239946	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	589	3239946	152030614	8180	30531											
MXRA5	25878	broad.mit.edu	37	chrX	3240584	3240584	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggtgtcttgagtgcttaGactacttttcacaaggtgga	10	14	11	6	0	2	2	1	1	1	1	2	3	2	3	0	3	2	1	0	3	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:3240584G>T	uc004crg.3	-	5	3299	c.3142C>A	c.(3142-3144)CTA>ATA	p.L1048I		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1048						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TGAGTGCTTAGACTACTTTTC	0.448													19	147					3.51602e-12	3.91023e-12	1	1	0		T	3240584	T	T	3240584	3	4	27	1	0	0	0	0	1	0	0	0	10021	933	33	5	5356	5	MXRA5	23	3240584	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	638	3240584	152029976	8181	30532											
NLGN4X	57502	broad.mit.edu	37	chrX	5811353	5811353	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaggccctgttttgtgaggGtccttagagtgtttgggatt	5	16	14	6	0	1	2	1	1	0	1	2	3	2	3	2	3	0	2	2	3	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:5811353G>T	uc010ndh.2	-	6	2457	c.1956C>A	c.(1954-1956)GAC>GAA	p.D652E	NLGN4X_uc004crp.2_Missense_Mutation_p.D672E|NLGN4X_uc004crq.2_Missense_Mutation_p.D652E|NLGN4X_uc010ndi.2_Missense_Mutation_p.D689E|NLGN4X_uc004crr.2_Missense_Mutation_p.D652E|NLGN4X_uc010ndj.2_Missense_Mutation_p.D652E	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	652	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TTTTGTGAGGGTCCTTAGAGT	0.532													10	210					1.58986e-06	1.72494e-06	1	1	0		T	5811353	T	T	5811353	3	4	27	1	0	0	0	0	1	0	0	0	10483	1252	44	5	498	5	NLGN4X	23	5811353	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2570769	5811353	149459207	8182	30533											
NLGN4X	57502	broad.mit.edu	37	chrX	5827247	5827247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatccaggagcccatagttgCcttttgctgcctggtcaccg	6	11	11	13	1	1	0	1	0	0	0	2	2	2	1	5	2	4	2	5	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:5827247C>T	uc010ndh.2	-	4	1160	c.659G>A	c.(658-660)GGC>GAC	p.G220D	NLGN4X_uc004crp.2_Missense_Mutation_p.G240D|NLGN4X_uc004crq.2_Missense_Mutation_p.G220D|NLGN4X_uc010ndi.2_Missense_Mutation_p.G257D|NLGN4X_uc004crr.2_Missense_Mutation_p.G220D|NLGN4X_uc010ndj.2_Missense_Mutation_p.G220D	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	220	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						CCCATAGTTGCCTTTTGCTGC	0.483													8	81					0	0	1	0	0		T	5827247	T	T	5827247	3	4	27	1	0	0	0	0	1	0	0	0	10483	739	26	2	1803	2	NLGN4X	23	5827247	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15894	5827247	149443313	8183	30534											
NLGN4X	57502	broad.mit.edu	37	chrX	6069309	6069309	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtactgctccactggacccaAgatctcattgggtaacggtg	9	10	11	11	1	1	1	1	0	1	1	3	2	2	2	2	3	3	3	2	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:6069309A>G	uc010ndh.2	-	2	700	c.199T>C	c.(199-201)TTG>CTG	p.L67L	NLGN4X_uc004crp.2_Silent_p.L67L|NLGN4X_uc004crq.2_Silent_p.L67L|NLGN4X_uc010ndi.2_Silent_p.L67L|NLGN4X_uc004crr.2_Silent_p.L67L|NLGN4X_uc010ndj.2_Silent_p.L67L	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	67	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						ACTGGACCCAAGATCTCATTG	0.547													3	107					0	0	1	0	0		G	6069309	G	G	6069309	2	3	27	1	0	0	0	0	0	0	0	1	10483	69	3	3		3	NLGN4X	23	6069309	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	242062	6069309	149201251	8184	30535											
WWC3	55841	broad.mit.edu	37	chrX	10058909	10058909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaagaaggccatttgcaCaggcgagaaggagaggcggg	13	4	16	8	2	1	3	1	0	0	3	1	5	1	3	1	5	1	1	1	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:10058909C>T	uc004csx.3	+	6	674	c.476C>T	c.(475-477)ACA>ATA	p.T159I	WWC3_uc010nds.2_5'UTR|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	159										ovary(4)	4						GCCATTTGCACAGGCGAGAAG	0.448													14	55					0	0	1	0	0		T	10058909	T	T	10058909	3	4	27	1	0	0	0	0	1	0	0	0	17439	478	17	4	494	4	WWC3	23	10058909	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3989600	10058909	145211651	8185	30536											
WWC3	55841	broad.mit.edu	37	chrX	10077876	10077876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgagtcctggccaagcacgGccgaggctgacagggaccgg	9	4	16	12	3	0	2	0	2	0	0	1	4	1	3	4	5	1	2	4	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:10077876G>A	uc004csx.3	+	9	988	c.790G>A	c.(790-792)GCC>ACC	p.A264T	WWC3_uc010nds.2_5'UTR|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	264	Potential.									ovary(4)	4						GCCAAGCACGGCCGAGGCTGA	0.617													21	94					0	0	1	0	0		A	10077876	A	A	10077876	3	1	27	1	0	0	0	0	1	0	0	0	17439	1203	42	2	820	2	WWC3	23	10077876	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	18967	10077876	145192684	8186	30537											
WWC3	55841	broad.mit.edu	37	chrX	10096688	10096688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggccaagctggagtacaCggaggaggaggtcctggaga	10	4	19	8	2	0	1	0	0	0	1	1	6	1	5	2	7	2	2	2	7	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:10096688C>T	uc004csx.3	+	17	2570	c.2372C>T	c.(2371-2373)ACG>ATG	p.T791M	WWC3_uc010nds.2_Missense_Mutation_p.T455M|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	791	Potential.									ovary(4)	4						CTGGAGTACACGGAGGAGGAG	0.667													4	63					0	0	1	0	0		T	10096688	T	T	10096688	3	4	27	1	0	0	0	0	1	0	0	0	17439	536	19	1	2434	1	WWC3	23	10096688	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18812	10096688	145173872	8187	30538											
MID1	4281	broad.mit.edu	37	chrX	10437780	10437780	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatatggtgtactggagctcGtaggagaccacgctgaactc	11	9	12	9	2	0	2	0	1	0	1	2	4	0	3	1	3	3	4	1	3	5	3	rs142718564	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:10437780G>A	uc004cte.3	-	7	1433	c.1242C>T	c.(1240-1242)TAC>TAT	p.Y414Y	MID1_uc004ctd.3_Silent_p.Y125Y|MID1_uc004ctg.3_Silent_p.Y414Y|MID1_uc004cth.3_Silent_p.Y376Y|MID1_uc004ctk.3_Silent_p.Y414Y|MID1_uc004cti.3_Silent_p.Y414Y|MID1_uc004ctj.3_Silent_p.Y414Y|MID1_uc011mie.1_RNA|MID1_uc004ctm.1_Silent_p.Y465Y|MID1_uc004ctn.1_Silent_p.Y414Y|MID1_uc004cto.1_Silent_p.Y376Y|MID1_uc004csz.3_Silent_p.Y86Y|MID1_uc004cta.3_Silent_p.Y170Y|MID1_uc004ctb.3_Silent_p.Y74Y|MID1_uc004ctc.3_Silent_p.Y181Y|MID1_uc004ctl.1_Silent_p.Y170Y	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1	414	Fibronectin type-III.				microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3						ACTGGAGCTCGTAGGAGACCA	0.478													19	105					0	0	1	0	0		A	10437780	A	A	10437780	2	1	27	1	0	0	0	0	0	0	0	1	9594	1140	40	1		1	MID1	23	10437780	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	341092	10437780	144832780	8188	30539											
ARHGAP6	395	broad.mit.edu	37	chrX	11157336	11157336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcccggctctgcagccCggccacatccagctcactct	5	8	10	18	2	3	0	1	0	2	0	4	0	4	0	4	3	3	3	4	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:11157336C>T	uc004cup.1	-	13	3445	c.2572G>A	c.(2572-2574)GGG>AGG	p.G858R	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cum.1_Missense_Mutation_p.G655R|ARHGAP6_uc004cun.1_Missense_Mutation_p.G678R	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	858					actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						CTCTGCAGCCCGGCCACATCC	0.701													5	14					0	0	1	0	0		T	11157336	T	T	11157336	3	4	27	1	0	0	0	0	1	0	0	0	887	652	23	1	356	1	ARHGAP6	23	11157336	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	719556	11157336	144113224	8189	30540											
FRMPD4	9758	broad.mit.edu	37	chrX	12734369	12734369	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcaccggcacttgtacatAgacaatgcctatagttcaga	13	9	9	10	1	1	2	1	0	0	2	1	3	1	2	2	1	3	4	2	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:12734369A>G	uc004cuz.1	+	15	2297	c.1791A>G	c.(1789-1791)ATA>ATG	p.I597M	FRMPD4_uc011mij.1_Missense_Mutation_p.I589M	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	597					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						ACTTGTACATAGACAATGCCT	0.517													8	108					0	0	1	0	0		G	12734369	G	G	12734369	3	3	27	1	0	0	0	0	1	0	0	0	6073	410	15	3	1849	3	FRMPD4	23	12734369	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1577033	12734369	142536191	8190	30541											
FRMPD4	9758	broad.mit.edu	37	chrX	12736059	12736059	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgatggtgaggggaaggcAccccctaatgggaacacaac	12	4	14	11	1	0	1	0	1	0	0	0	4	0	3	3	5	2	1	3	5	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:12736059A>G	uc004cuz.1	+	16	3620	c.3114A>G	c.(3112-3114)GCA>GCG	p.A1038A	FRMPD4_uc011mij.1_Silent_p.A1030A	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	1038					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						AGGGGAAGGCACCCCCTAATG	0.517													8	91					0	0	1	0	0		G	12736059	G	G	12736059	2	3	27	1	0	0	0	0	0	0	0	1	6073	146	6	3		3	FRMPD4	23	12736059	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1690	12736059	142534501	8191	30542											
TLR7	51284	broad.mit.edu	37	chrX	12903718	12903718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccttggggctagatggtttCctaaaactctgccctgtgat	7	14	10	10	0	1	2	0	1	1	1	3	2	3	2	3	3	2	2	3	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:12903718C>T	uc004cvc.2	+	3	230	c.91C>T	c.(91-93)CCT>TCT	p.P31S		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	31	Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	TAGATGGTTTCCTAAAACTCT	0.413													21	163					0	0	1	0	0		T	12903718	T	T	12903718	3	4	27	1	0	0	0	0	1	0	0	0	15981	855	30	4	97	4	TLR7	23	12903718	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	167659	12903718	142366842	8192	30543											
TLR7	51284	broad.mit.edu	37	chrX	12904491	12904491	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtaaatgcttttgatgcGctgacagaattaaaagtttt	12	15	8	6	1	0	3	0	2	0	1	0	3	0	3	1	0	2	4	1	0	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:12904491G>A	uc004cvc.2	+	3	1003	c.864G>A	c.(862-864)GCG>GCA	p.A288A		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	288	Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	CTTTTGATGCGCTGACAGAAT	0.423													24	133					0	0	1	0	0		A	12904491	A	A	12904491	2	1	27	1	0	0	0	0	0	0	0	1	15981	1074	38	1		1	TLR7	23	12904491	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	773	12904491	142366069	8193	30544											
TLR8	51311	broad.mit.edu	37	chrX	12937960	12937960	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaatgccccatttccatgCgtgccttgtgatggtggtgc	5	14	11	11	1	1	1	1	1	0	0	2	1	2	1	4	2	4	0	4	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:12937960C>T	uc004cve.2	+	2	869	c.801C>T	c.(799-801)TGC>TGT	p.C267C	TLR8_uc004cvd.2_Silent_p.C285C	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	267	Extracellular (Potential).|LRR 6.				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						CATTTCCATGCGTGCCTTGTG	0.398													8	98					0	0	1	0	0		T	12937960	T	T	12937960	2	4	27	1	0	0	0	0	0	0	0	1	15982	776	27	1		1	TLR8	23	12937960	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	33469	12937960	142332600	8194	30545											
TLR8	51311	broad.mit.edu	37	chrX	12938031	12938031	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacttgacccaacttcgatAcctaaacctctctagcactt	13	11	3	14	1	1	1	0	1	1	0	3	2	1	1	3	0	5	1	3	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:12938031A>G	uc004cve.2	+	2	940	c.872A>G	c.(871-873)TAC>TGC	p.Y291C	TLR8_uc004cvd.2_Missense_Mutation_p.Y309C	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	291	LRR 7.|Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						CAACTTCGATACCTAAACCTC	0.423													4	103					0	0	1	0	0		G	12938031	G	G	12938031	3	3	27	1	0	0	0	0	1	0	0	0	15982	391	14	3	878	3	TLR8	23	12938031	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	71	12938031	142332529	8195	30546											
TLR8	51311	broad.mit.edu	37	chrX	12939437	12939437	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccgcacttgaaactaagAccaccaccaaattatctatg	16	9	4	12	1	1	2	0	1	1	1	2	2	2	2	4	0	1	1	4	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:12939437A>G	uc004cve.2	+	2	2346	c.2278A>G	c.(2278-2280)ACC>GCC	p.T760A	TLR8_uc004cvd.2_Missense_Mutation_p.T778A	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	760	Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						TGAAACTAAGACCACCACCAA	0.418													4	122					0	0	1	0	0		G	12939437	G	G	12939437	3	3	27	1	0	0	0	0	1	0	0	0	15982	275	10	3	2284	3	TLR8	23	12939437	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1406	12939437	142331123	8196	30547											
ATXN3L	92552	broad.mit.edu	37	chrX	13337200	13337200	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgatgcttttcaaaatagTcttcttttattttcttcggc	7	20	6	8	1	4	1	1	1	3	0	5	1	4	1	0	1	1	2	0	1	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:13337200T>A	uc010ned.2	-	1	1319	c.854A>T	c.(853-855)GAC>GTC	p.D285V		NM_001135995	NP_001129467	Q9H3M9	ATX3L_HUMAN	ataxin 3-like	285					protein deubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ubiquitin-specific protease activity			lung(2)|ovary(2)|large_intestine(1)|skin(1)	6						TTCAAAATAGTCTTCTTTTAT	0.448													23	255					0	0	1	0	0		A	13337200	A	A	13337200	3	1	27	1	0	0	0	0	1	0	0	0	1215	1667	58	5	217	5	ATXN3L	23	13337200	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	397763	13337200	141933360	8197	30548											
ATXN3L	92552	broad.mit.edu	37	chrX	13337424	13337424	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactttcttctgatactttTtcaaggactgttttatagac	9	19	5	8	0	4	2	2	1	2	1	4	3	4	3	0	1	1	1	0	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:13337424T>C	uc010ned.2	-	1	1095	c.630A>G	c.(628-630)GAA>GAG	p.E210E		NM_001135995	NP_001129467	Q9H3M9	ATX3L_HUMAN	ataxin 3-like	210					protein deubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ubiquitin-specific protease activity			lung(2)|ovary(2)|large_intestine(1)|skin(1)	6						CTGATACTTTTTCAAGGACTG	0.388													27	322					0	0	1	0	0		C	13337424	C	C	13337424	2	2	27	1	0	0	0	0	0	0	0	1	1215	1838	64	3		3	ATXN3L	23	13337424	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	224	13337424	141933136	8198	30549											
EGFL6	25975	broad.mit.edu	37	chrX	13624572	13624572	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaacacatttggaagctacTactgcaaatgtcacattggt	13	12	8	8	0	1	1	1	1	0	0	1	2	1	2	0	2	5	2	0	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:13624572T>C	uc004cvi.2	+	6	835	c.595T>C	c.(595-597)TAC>CAC	p.Y199H	EGFL6_uc004cvj.2_Missense_Mutation_p.Y199H|EGFL6_uc011mik.1_Missense_Mutation_p.Y100H	NM_015507	NP_056322	Q8IUX8	EGFL6_HUMAN	epidermal growth factor-like protein 6	199	EGF-like 4; calcium-binding (Potential).				cell adhesion|cell cycle|cell differentiation|multicellular organismal development	basement membrane|extracellular space|membrane	calcium ion binding|integrin binding			breast(2)	2						TGGAAGCTACTACTGCAAATG	0.413													17	133					0	0	1	0	0		C	13624572	C	C	13624572	3	2	27	1	0	0	0	0	1	0	0	0	4969	1522	53	3	617	3	EGFL6	23	13624572	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	287148	13624572	141645988	8199	30550											
EGFL6	25975	broad.mit.edu	37	chrX	13645222	13645222	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacctgacctgcaaccccaaAgcaacttctgtttgctcttt	9	13	5	14	0	2	1	0	1	2	0	2	1	2	1	4	0	6	4	4	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:13645222A>C	uc004cvi.2	+	11	1618	c.1378A>C	c.(1378-1380)AGC>CGC	p.S460R	EGFL6_uc004cvj.2_Missense_Mutation_p.S461R	NM_015507	NP_056322	Q8IUX8	EGFL6_HUMAN	epidermal growth factor-like protein 6	460	MAM.				cell adhesion|cell cycle|cell differentiation|multicellular organismal development	basement membrane|extracellular space|membrane	calcium ion binding|integrin binding			breast(2)	2						GCAACCCCAAAGCAACTTCTG	0.478													28	94					0	0	1	0	0		C	13645222	C	C	13645222	3	2	27	1	0	0	0	0	1	0	0	0	4969	72	3	5	1423	5	EGFL6	23	13645222	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	20650	13645222	141625338	8200	30551											
OFD1	8481	broad.mit.edu	37	chrX	13753379	13753379	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttttagtccaacatgtttAccgtggctgatgtgttgagt	7	17	10	7	1	1	2	0	2	1	0	2	2	2	2	2	1	2	3	2	1	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:13753379A>G	uc004cvp.3	+	2	384	c.25A>G	c.(25-27)ACC>GCC	p.T9A	OFD1_uc004cvr.3_5'UTR|OFD1_uc011mil.1_5'UTR|OFD1_uc004cvq.3_5'UTR|OFD1_uc010nen.2_Missense_Mutation_p.T8A|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Missense_Mutation_p.T8A|OFD1_uc004cvv.3_Missense_Mutation_p.T8A|TRAPPC2_uc010nek.1_5'Flank|TRAPPC2_uc010nel.1_5'Flank|TRAPPC2_uc010nem.1_5'Flank	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	9					cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0						CAACATGTTTACCGTGGCTGA	0.473													6	63					0	0	1	0	0		G	13753379	G	G	13753379	3	3	27	1	0	0	0	0	1	0	0	0	10857	391	14	3	31	3	OFD1	23	13753379	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	108157	13753379	141517181	8201	30552											
FANCB	2187	broad.mit.edu	37	chrX	14871245	14871245	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgaaataattttttccttAagcaacagatgctgccgtaa	13	15	6	7	1	0	2	0	1	0	1	1	2	1	2	2	0	4	3	2	0	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:14871245A>C	uc004cwg.1	-	6	1510	c.1242T>G	c.(1240-1242)CTT>CTG	p.L414L	FANCB_uc004cwh.1_Silent_p.L414L	NM_001018113	NP_001018123	Q8NB91	FANCB_HUMAN	Fanconi anemia complementation group B	414					DNA repair	nucleoplasm				lung(1)	1	Hepatocellular(33;0.183)					TTTTTTCCTTAAGCAACAGAT	0.323								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				6	86					0	0	1	0	0		C	14871245	C	C	14871245	2	2	27	1	0	0	0	0	0	0	0	1	5677	349	13	5		5	FANCB	23	14871245	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1117866	14871245	140399315	8202	30553											
ASB11	140456	broad.mit.edu	37	chrX	15306011	15306011	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccttggttaccttcacggAgcaagagtgcctgctccacg	7	9	11	14	2	1	1	1	0	0	1	2	2	2	2	4	2	4	3	4	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:15306011A>G	uc004cwp.1	-	6	839	c.839T>C	c.(838-840)CTC>CCC	p.L280P	ASB11_uc004cwo.1_Missense_Mutation_p.L259P|ASB11_uc010nes.1_RNA|ASB11_uc010net.1_Missense_Mutation_p.L263P	NM_080873	NP_543149	Q8WXH4	ASB11_HUMAN	ankyrin repeat and SOCS box-containing protein	280	SOCS box.				intracellular signal transduction					breast(2)|skin(1)	3	Hepatocellular(33;0.183)					ACCTTCACGGAGCAAGAGTGC	0.493													4	47					0	0	1	0	0		G	15306011	G	G	15306011	3	3	27	1	0	0	0	0	1	0	0	0	1016	304	11	3	140	3	ASB11	23	15306011	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	434766	15306011	139964549	8203	30554											
BMX	660	broad.mit.edu	37	chrX	15540632	15540632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caactcaaagaaaatctatgGctcccagccaaacttcaaca	17	7	4	13	0	3	1	2	0	1	1	4	1	4	1	2	1	4	1	2	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:15540632G>A	uc004cww.2	+	7	862	c.674G>A	c.(673-675)GGC>GAC	p.G225D	BMX_uc004cwx.3_Missense_Mutation_p.G225D|BMX_uc004cwy.3_Missense_Mutation_p.G225D	NM_203281	NP_975010	P51813	BMX_HUMAN	BMX non-receptor tyrosine kinase	225					cellular component disassembly involved in apoptosis|intracellular signal transduction|mesoderm development	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(3)|ovary(2)	5	Hepatocellular(33;0.183)					AAAATCTATGGCTCCCAGCCA	0.448													13	97					0	0	1	0	0		A	15540632	A	A	15540632	3	1	27	1	0	0	0	0	1	0	0	0	1474	1203	42	2	696	2	BMX	23	15540632	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	234621	15540632	139729928	8204	30555											
BMX	660	broad.mit.edu	37	chrX	15560311	15560311	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagtcaccaattcatacAccgggacttggtaagcaaag	14	7	11	9	1	2	1	2	0	0	1	2	3	2	2	2	3	2	2	2	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:15560311A>G	uc004cww.2	+	15	1789	c.1601A>G	c.(1600-1602)CAC>CGC	p.H534R	BMX_uc004cwx.3_Missense_Mutation_p.H534R|BMX_uc004cwy.3_Missense_Mutation_p.H534R	NM_203281	NP_975010	P51813	BMX_HUMAN	BMX non-receptor tyrosine kinase	534	Protein kinase.				cellular component disassembly involved in apoptosis|intracellular signal transduction|mesoderm development	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(3)|ovary(2)	5	Hepatocellular(33;0.183)					CAATTCATACACCGGGACTTG	0.493													11	154					0	0	1	0	0		G	15560311	G	G	15560311	3	3	27	1	0	0	0	0	1	0	0	0	1474	159	6	3	1655	3	BMX	23	15560311	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	19679	15560311	139710249	8205	30556											
GRPR	2925	broad.mit.edu	37	chrX	16168543	16168543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggccattccagaggccGtgttttctgacctccatccc	5	12	9	15	1	1	2	0	1	1	1	4	2	4	2	6	2	1	2	6	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:16168543G>A	uc004cxj.2	+	2	1182	c.529G>A	c.(529-531)GTG>ATG	p.V177M		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	177	Extracellular (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					TCCAGAGGCCGTGTTTTCTGA	0.527													36	105					0	0	1	0	0		A	16168543	A	A	16168543	3	1	27	1	0	0	0	0	1	0	0	0	6824	1145	40	1	535	1	GRPR	23	16168543	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	608232	16168543	139102017	8206	30557											
TXLNG	55787	broad.mit.edu	37	chrX	16846369	16846369	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcagagaacttcagcgTcacaataagacgttaaaggt	14	10	9	8	2	2	2	2	0	0	2	2	3	2	2	0	1	3	2	0	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:16846369T>C	uc004cxq.1	+	4	702	c.651T>C	c.(649-651)CGT>CGC	p.R217R	TXLNG_uc010ney.1_Silent_p.R85R	NM_018360	NP_060830	Q9NUQ3	TXLNG_HUMAN	gamma-taxilin	217	Potential.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1						AACTTCAGCGTCACAATAAGA	0.393													5	52					0	0	1	0	0		C	16846369	C	C	16846369	2	2	27	1	0	0	0	0	0	0	0	1	16815	1654	58	3		3	TXLNG	23	16846369	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	677826	16846369	138424191	8207	30558											
TXLNG	55787	broad.mit.edu	37	chrX	16857989	16857989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagaaacaataatttggCgtaccaaatgggaaaacaat	22	7	7	5	1	0	1	0	0	0	1	0	2	0	2	1	2	3	1	1	2	10	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:16857989C>T	uc004cxq.1	+	9	1249	c.1198C>T	c.(1198-1200)CGT>TGT	p.R400C	TXLNG_uc010ney.1_Missense_Mutation_p.R268C	NM_018360	NP_060830	Q9NUQ3	TXLNG_HUMAN	gamma-taxilin	400	Potential.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1						AATAATTTGGCGTACCAAATG	0.373													21	89					0	0	1	0	0		T	16857989	T	T	16857989	3	4	27	1	0	0	0	0	1	0	0	0	16815	768	27	1	1232	1	TXLNG	23	16857989	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	11620	16857989	138412571	8208	30559											
REPS2	9185	broad.mit.edu	37	chrX	17040368	17040368	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagaaaaaaattccttcAaaagaatggacgatgaggat	19	8	8	6	1	1	3	1	1	0	2	2	6	2	5	1	2	1	0	1	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:17040368A>G	uc004cxv.1	+	3	691	c.520A>G	c.(520-522)AAA>GAA	p.K174E	REPS2_uc004cxw.1_Missense_Mutation_p.K174E|REPS2_uc011miw.1_Missense_Mutation_p.K34E	NM_004726	NP_004717	Q8NFH8	REPS2_HUMAN	RALBP1 associated Eps domain containing 2	174					epidermal growth factor receptor signaling pathway|protein complex assembly	cytoplasm	calcium ion binding|protein binding			skin(2)|central_nervous_system(1)	3	Hepatocellular(33;0.183)					AAATTCCTTCAAAAGAATGGA	0.403													4	108					0	0	1	0	0		G	17040368	G	G	17040368	3	3	27	1	0	0	0	0	1	0	0	0	13254	131	5	3	530	3	REPS2	23	17040368	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	182379	17040368	138230192	8209	30560											
REPS2	9185	broad.mit.edu	37	chrX	17156996	17156996	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggcagtcttccaaacagaAgaaggccattcaaactgcta	15	8	8	10	0	2	2	1	0	1	2	3	2	3	2	2	2	3	2	2	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:17156996A>G	uc004cxv.1	+	17	1997	c.1826A>G	c.(1825-1827)AAG>AGG	p.K609R	REPS2_uc004cxw.1_Missense_Mutation_p.K608R|REPS2_uc011miw.1_Missense_Mutation_p.K407R	NM_004726	NP_004717	Q8NFH8	REPS2_HUMAN	RALBP1 associated Eps domain containing 2	609	Interaction with ASAP1 (By similarity).|Interaction with RALBP1.|Potential.				epidermal growth factor receptor signaling pathway|protein complex assembly	cytoplasm	calcium ion binding|protein binding			skin(2)|central_nervous_system(1)	3	Hepatocellular(33;0.183)					TCCAAACAGAAGAAGGCCATT	0.473													9	39					0	0	1	0	0		G	17156996	G	G	17156996	3	3	27	1	0	0	0	0	1	0	0	0	13254	72	3	3	1892	3	REPS2	23	17156996	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	116628	17156996	138113564	8210	30561											
NHS	4810	broad.mit.edu	37	chrX	17742447	17742447	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgacagagaggctagtatAcgctgctctctggttcattc	8	14	10	9	1	2	2	1	1	1	1	4	3	2	2	0	2	2	5	0	2	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:17742447A>G	uc004cxx.2	+	5	1412	c.1074A>G	c.(1072-1074)ATA>ATG	p.I358M	NHS_uc011mix.1_Missense_Mutation_p.I379M|NHS_uc004cxy.2_Missense_Mutation_p.I202M|NHS_uc004cxz.2_Missense_Mutation_p.I181M|NHS_uc004cya.2_Missense_Mutation_p.I81M	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	358						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					AGGCTAGTATACGCTGCTCTC	0.433													6	101					0	0	1	0	0		G	17742447	G	G	17742447	3	3	27	1	0	0	0	0	1	0	0	0	10430	381	14	3	1197	3	NHS	23	17742447	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	585451	17742447	137528113	8211	30562											
SCML1	6322	broad.mit.edu	37	chrX	17768146	17768146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactttaccagtgtcaaggCgtgagaataattccccgagc	11	9	9	12	2	1	1	1	1	0	1	2	3	2	1	4	1	2	0	4	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:17768146C>T	uc004cyb.2	+	6	761	c.436C>T	c.(436-438)CGT>TGT	p.R146C	SCML1_uc004cyc.2_Missense_Mutation_p.R119C|SCML1_uc004cyd.2_Missense_Mutation_p.R25C|SCML1_uc004cye.2_Missense_Mutation_p.R25C	NM_001037540	NP_001032629	Q9UN30	SCML1_HUMAN	sex comb on midleg-like 1 isoform a	146					anatomical structure morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)	3	Hepatocellular(33;0.183)					AGTGTCAAGGCGTGAGAATAA	0.483													15	153					0	0	1	0	0		T	17768146	T	T	17768146	3	4	27	1	0	0	0	0	1	0	0	0	13934	768	27	1	457	1	SCML1	23	17768146	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	25699	17768146	137502414	8212	30563											
BEND2	139105	broad.mit.edu	37	chrX	18213471	18213471	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatatggggcactcgtattTcccgataaagctgggtaata	11	11	12	7	2	0	0	0	0	0	0	2	2	1	1	1	4	1	4	1	4	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:18213471T>C	uc004cyj.3	-	7	1279	c.1125A>G	c.(1123-1125)GGA>GGG	p.G375G	BEND2_uc010nfb.2_Intron	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	375										ovary(3)|kidney(1)|central_nervous_system(1)	5						CACTCGTATTTCCCGATAAAG	0.403													8	98					0	0	1	0	0		C	18213471	C	C	18213471	2	2	27	1	0	0	0	0	0	0	0	1	1399	1770	62	3		3	BEND2	23	18213471	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	445325	18213471	137057089	8213	30564											
BEND2	139105	broad.mit.edu	37	chrX	18230770	18230770	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaatgtactgggtggtttAtctgtgaaactatttggtca	10	17	10	4	0	2	1	1	1	1	0	2	1	2	1	0	3	2	2	0	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:18230770A>G	uc004cyj.3	-	4	561	c.407T>C	c.(406-408)ATA>ACA	p.I136T	BEND2_uc010nfb.2_Missense_Mutation_p.I136T	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	136										ovary(3)|kidney(1)|central_nervous_system(1)	5						TGGGTGGTTTATCTGTGAAAC	0.353													3	101					0	0	1	0	0		G	18230770	G	G	18230770	3	3	27	1	0	0	0	0	1	0	0	0	1399	449	16	3	2062	3	BEND2	23	18230770	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	17299	18230770	137039790	8214	30565											
SCML2	10389	broad.mit.edu	37	chrX	18260691	18260691	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaggacactgggatcaggTacagctatataacttggagc	12	10	11	8	0	2	0	2	0	0	0	2	3	2	3	0	4	4	2	0	4	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:18260691T>C	uc004cyl.2	-	14	1999	c.1842A>G	c.(1840-1842)GTA>GTG	p.V614V	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_Intron|SCML2_uc011miz.1_Intron|SCML2_uc010nfc.2_Intron	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	614					anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					TGGGATCAGGTACAGCTATAT	0.408													19	79					0	0	1	0	0		C	18260691	C	C	18260691	2	2	27	1	0	0	0	0	0	0	0	1	13935	1625	57	3		3	SCML2	23	18260691	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	29921	18260691	137009869	8215	30566											
SCML2	10389	broad.mit.edu	37	chrX	18264788	18264789	+	Missense_Mutation	DNP	CA	GG	GG																															ggtgaacttgtggtgcctggCacacttcgagaaaaatcctg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:18264788_18264789CA>GG	uc004cyl.2	-	13	1887_1888	c.1730_1731TG>CC	c.(1729-1731)GTG>GCC	p.V577A	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_Missense_Mutation_p.V577A|SCML2_uc011miz.1_Missense_Mutation_p.V511A|SCML2_uc010nfc.2_Missense_Mutation_p.V313A	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	577					anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					TGGTGCCTGGCACACTTCGAGA	0.416													7	111					0	0	1	0	0		GG	18264789	GG	GG	18264788	3	3	27	1	0	0	0	0	1	0	0	0	13935	697	25	5	383	5	SCML2	23	18264788	Missense_Mutation	DNP	CA	TCGA-BR-6452-01A-12D-1800-08	4097	18264788	137005772	8216	30567											
CDKL5	6792	broad.mit.edu	37	chrX	18622481	18622481	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccccagtcctctaggagTccctcctacaggaccaaggc	9	8	8	16	0	1	0	0	0	1	0	5	2	5	2	6	3	1	0	6	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:18622481T>A	uc004cym.2	+	12	1690	c.1437T>A	c.(1435-1437)AGT>AGA	p.S479R	CDKL5_uc004cyn.2_Missense_Mutation_p.S479R	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	479					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					CCTCTAGGAGTCCCTCCTACA	0.522													4	114					0	0	1	0	0		A	18622481	A	A	18622481	3	1	27	1	0	0	0	0	1	0	0	0	3160	1664	58	5	1479	5	CDKL5	23	18622481	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	357693	18622481	136648079	8217	30568											
CDKL5	6792	broad.mit.edu	37	chrX	18646626	18646626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctcagaaattcggattcacCccctgagccaggcctctggc	8	9	9	15	1	3	2	2	1	2	1	5	3	3	3	4	3	1	0	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:18646626C>T	uc004cym.2	+	18	2885	c.2632C>T	c.(2632-2634)CCC>TCC	p.P878S	CDKL5_uc004cyn.2_Missense_Mutation_p.P878S	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	878					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					TCGGATTCACCCCCTGAGCCA	0.587													18	195					0	0	1	0	0		T	18646626	T	T	18646626	3	4	27	1	0	0	0	0	1	0	0	0	3160	623	22	4	2698	4	CDKL5	23	18646626	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	24145	18646626	136623934	8218	30569											
PPEF1	5475	broad.mit.edu	37	chrX	18836180	18836180	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggatactatggaaaacagcgCcatcaagatattaagagaga	18	7	10	6	1	1	3	1	0	0	3	1	6	1	5	1	2	3	0	1	2	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:18836180C>A	uc004cyq.2	+	16	1899	c.1418C>A	c.(1417-1419)GCC>GAC	p.A473D	PPEF1_uc004cyp.2_Missense_Mutation_p.A445D|PPEF1_uc004cyr.2_Missense_Mutation_p.A411D|PPEF1_uc004cys.2_Missense_Mutation_p.A473D|PPEF1_uc011mja.1_Missense_Mutation_p.A408D|PPEF1_uc011mjb.1_Missense_Mutation_p.A417D	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding	473					detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)					GAAAACAGCGCCATCAAGATA	0.333													6	90					5.18039e-06	5.59131e-06	1	1	0		A	18836180	A	A	18836180	3	1	27	1	0	0	0	0	1	0	0	0	12326	739	26	5	1468	5	PPEF1	23	18836180	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	189554	18836180	136434380	8219	30570											
PHKA2	5256	broad.mit.edu	37	chrX	18912463	18912463	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgccggtactcgggctgCggcacgcggttcagcaccga	6	6	15	14	6	1	0	1	0	0	0	2	1	1	0	2	4	5	6	2	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:18912463C>T	uc004cyv.3	-	32	3826	c.3396G>A	c.(3394-3396)CCG>CCA	p.P1132P	uc004cyt.2_RNA|PHKA2_uc004cyu.3_Silent_p.P438P|PHKA2_uc010nfe.1_Silent_p.P164P|PHKA2_uc010nff.1_RNA	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	1132					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					ACTCGGGCTGCGGCACGCGGT	0.607													6	59					0	0	1	0	0		T	18912463	T	T	18912463	2	4	27	1	0	0	0	0	0	0	0	1	11863	755	27	1		1	PHKA2	23	18912463	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	76283	18912463	136358097	8220	30571											
PHKA2	5256	broad.mit.edu	37	chrX	18961916	18961916	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccagttcatcaattgccTcaagagctgcctacaaacac	12	9	7	13	0	3	1	3	0	0	1	4	1	4	1	3	1	5	2	3	1	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:18961916T>C	uc004cyv.3	-	7	1059	c.629A>G	c.(628-630)GAG>GGG	p.E210G	PHKA2_uc010nfh.1_RNA|PHKA2_uc010nfi.1_Intron	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	210					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					ATCAATTGCCTCAAGAGCTGC	0.423													9	137					0	0	1	0	0		C	18961916	C	C	18961916	3	2	27	1	0	0	0	0	1	0	0	0	11863	1551	54	3	3186	3	PHKA2	23	18961916	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	49453	18961916	136308644	8221	30572											
MAP3K15	389840	broad.mit.edu	37	chrX	19413307	19413307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgtgcagggctatctcctCgtgcagaggctgagaatacc	8	10	12	11	1	1	2	0	1	1	2	3	3	1	2	2	2	3	4	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:19413307C>T	uc004czk.1	-	17	2148	c.511G>A	c.(511-513)GAG>AAG	p.E171K	MAP3K15_uc004czj.1_Missense_Mutation_p.E131K	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	696	Protein kinase.						ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					GCTATCTCCTCGTGCAGAGGC	0.358													14	151					0	0	1	0	0		T	19413307	T	T	19413307	3	4	27	1	0	0	0	0	1	0	0	0	9267	893	31	1	1911	1	MAP3K15	23	19413307	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	451391	19413307	135857253	8222	30573											
CXorf23	256643	broad.mit.edu	37	chrX	19983635	19983635	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgaactggtctctgggtgTtccctctcagcatgtcgata	6	13	11	11	1	2	1	1	1	2	0	6	2	3	1	1	2	2	3	1	2	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:19983635T>C	uc004czp.2	-	3	801	c.801A>G	c.(799-801)GAA>GAG	p.E267E	CXorf23_uc010nfn.2_RNA|CXorf23_uc011mjg.1_5'UTR|CXorf23_uc004czo.2_Silent_p.E217E	NM_198279	NP_938020	A2AJT9	CX023_HUMAN	hypothetical protein LOC256643	267						mitochondrion				lung(1)|skin(1)	2						TCTCTGGGTGTTCCCTCTCAG	0.517													4	111					0	0	1	0	0		C	19983635	C	C	19983635	2	2	27	1	0	0	0	0	0	0	0	1	4106	1722	60	3		3	CXorf23	23	19983635	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	570328	19983635	135286925	8223	30574											
KLHL34	257240	broad.mit.edu	37	chrX	21675116	21675116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccctgcatgagcggctggCgggagggcgtcgtgtggtag	4	7	20	10	5	0	1	0	1	0	0	1	2	0	2	1	5	2	3	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:21675116C>T	uc004czz.1	-	1	1333	c.791G>A	c.(790-792)CGC>CAC	p.R264H		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	264										ovary(1)	1						GAGCGGCTGGCGGGAGGGCGT	0.692													12	25					0	0	1	0	0		T	21675116	T	T	21675116	3	4	27	1	0	0	0	0	1	0	0	0	8403	768	27	1	1147	1	KLHL34	23	21675116	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1691481	21675116	133595444	8224	30575											
KLHL34	257240	broad.mit.edu	37	chrX	21675792	21675792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgacctgtgcgccgggaattCgctgccctcggtctccagtg	4	9	13	15	5	1	0	0	0	1	0	4	2	1	1	4	2	2	1	4	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:21675792C>T	uc004czz.1	-	1	657	c.115G>A	c.(115-117)GAA>AAA	p.E39K		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	39	BTB.									ovary(1)	1						GCCGGGAATTCGCTGCCCTCG	0.662													13	35					0	0	1	0	0		T	21675792	T	T	21675792	3	4	27	1	0	0	0	0	1	0	0	0	8403	893	31	1	1823	1	KLHL34	23	21675792	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	676	21675792	133594768	8225	30576											
YY2	404281	broad.mit.edu	37	chrX	21863457	21863457	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcttcctcttcttcatcTtcttcctcttcctcgcttca	2	20	1	18	1	8	0	2	0	6	0	13	0	12	0	4	0	0	1	4	0	0	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:21863457T>A	uc010nfq.2	+	3	590	c.393T>A	c.(391-393)TCT>TCA	p.S131S	MBTPS2_uc004dae.2_Silent_p.S131S|MBTPS2_uc004dab.2_Silent_p.S131S	NM_206923	NP_996806	O15391	TYY2_HUMAN	YY2 transcription factor	162					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|plasma membrane	DNA binding|zinc ion binding			breast(1)|skin(1)	2						cttcttcatcttcttcctctt	0.229													4	45					0	0	1	0	0		A	21863457	A	A	21863457	2	1	27	1	0	0	0	0	0	0	0	1	17535	1596	56	5		5	YY2	23	21863457	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	187665	21863457	133407103	8226	30577											
SMS	6611	broad.mit.edu	37	chrX	21985316	21985316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttccccttgttctccagctGatggtgagaccattctaaaa	9	13	7	12	0	2	2	0	2	2	1	4	3	3	2	4	1	1	2	4	1	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:21985316G>A	uc004dag.2	+	2	153	c.52G>A	c.(52-54)GAT>AAT	p.D18N	SMS_uc011mjq.1_5'UTR|SMS_uc004daf.1_Missense_Mutation_p.D18N	NM_004595	NP_004586	P52788	SPSY_HUMAN	spermine synthase	18					methionine metabolic process|spermine biosynthetic process	cytosol	spermidine synthase activity|spermine synthase activity			ovary(1)	1					Spermine(DB00127)	TTCTCCAGCTGATGGTGAGAC	0.488													8	50					0	0	1	0	0		A	21985316	A	A	21985316	3	1	27	1	0	0	0	0	1	0	0	0	14838	1290	45	4	58	4	SMS	23	21985316	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	121859	21985316	133285244	8227	30578											
SMS	6611	broad.mit.edu	37	chrX	22012435	22012435	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactccctgtccaggtgggTattttacactgtttggaaga	8	14	11	8	0	0	2	0	1	0	1	2	3	2	3	2	3	1	2	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:22012435T>C	uc004dag.2	+	11	1168	c.1067T>C	c.(1066-1068)GTA>GCA	p.V356A	SMS_uc010nfs.2_RNA|SMS_uc010nft.2_Missense_Mutation_p.Y68H	NM_004595	NP_004586	P52788	SPSY_HUMAN	spermine synthase	356					methionine metabolic process|spermine biosynthetic process	cytosol	spermidine synthase activity|spermine synthase activity			ovary(1)	1					Spermine(DB00127)	TCCAGGTGGGTATTTTACACT	0.423													8	84					0	0	1	0	0		C	22012435	C	C	22012435	3	2	27	1	0	0	0	0	1	0	0	0	14838	1638	57	3	1109	3	SMS	23	22012435	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	27119	22012435	133258125	8228	30579											
ZNF645	158506	broad.mit.edu	37	chrX	22291585	22291585	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcgtcctcatattgctccGccacaaactgaaatctctga	10	12	6	13	2	2	2	1	2	1	0	6	2	4	2	3	0	2	2	3	0	3	3	rs144357703		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:22291585G>A	uc004dai.1	+	1	526	c.477G>A	c.(475-477)CCG>CCA	p.P159P		NM_152577	NP_689790	Q8N7E2	ZN645_HUMAN	zinc finger protein 645	159						intracellular	zinc ion binding			lung(1)|pancreas(1)	2						ATATTGCTCCGCCACAAACTG	0.468													36	97					0	0	1	0	0		A	22291585	A	A	22291585	2	1	27	1	0	0	0	0	0	0	0	1	18086	1074	38	1		1	ZNF645	23	22291585	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	279150	22291585	132978975	8229	30580											
DDX53	168400	broad.mit.edu	37	chrX	23018527	23018527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttattagaaaacaagaaaGctacaactcagaatccagtg	19	8	6	8	0	1	3	1	0	0	3	2	3	2	3	1	0	4	1	1	0	9	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:23018527G>A	uc004daj.2	+	1	441	c.353G>A	c.(352-354)AGC>AAC	p.S118N		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	118						nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						AAACAAGAAAGCTACAACTCA	0.403													10	105					0	0	1	0	0		A	23018527	A	A	23018527	3	1	27	1	0	0	0	0	1	0	0	0	4374	971	34	2	355	2	DDX53	23	23018527	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	726942	23018527	132252033	8230	30581											
APOO	79135	broad.mit.edu	37	chrX	23876803	23876803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggataatagagggaggcagCtaatcccatgaaaccaggcg	14	6	13	8	1	0	2	0	1	0	1	1	4	1	4	2	4	2	2	2	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:23876803C>T	uc004dax.2	-	6	667	c.436G>A	c.(436-438)GCT>ACT	p.A146T	APOO_uc004daw.2_RNA|APOO_uc004day.3_RNA	NM_024122	NP_077027	Q9BUR5	APOO_HUMAN	apolipoprotein O precursor	146					lipid transport	high-density lipoprotein particle|integral to membrane|low-density lipoprotein particle|very-low-density lipoprotein particle					0						AGGGAGGCAGCTAATCCCATG	0.413													7	87					0	0	1	0	0		T	23876803	T	T	23876803	3	4	27	1	0	0	0	0	1	0	0	0	813	797	28	2	172	2	APOO	23	23876803	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	858276	23876803	131393757	8231	30582											
CXorf58	254158	broad.mit.edu	37	chrX	23933870	23933870	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggcccccttagaggctaaGcttattaaggatcctactat	10	12	9	10	0	0	1	0	0	0	1	1	2	1	2	3	3	2	2	3	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:23933870G>T	uc004daz.1	+	4	614	c.270G>T	c.(268-270)AAG>AAT	p.K90N	CXorf58_uc011mju.1_Missense_Mutation_p.K90N	NM_152761	NP_689974	Q96LI9	CX058_HUMAN	hypothetical protein LOC254158	90											0						TAGAGGCTAAGCTTATTAAGG	0.358													4	61					0.150653	0.151846	1	1	0		T	23933870	T	T	23933870	3	4	27	1	0	0	0	0	1	0	0	0	4117	962	34	5	280	5	CXorf58	23	23933870	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	57067	23933870	131336690	8232	30583											
KLHL15	80311	broad.mit.edu	37	chrX	24006408	24006408	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccattgtaagaaatcatcTtgtgaaagcatctcgcgtaa	13	12	8	8	2	3	2	1	1	2	1	4	2	3	2	1	0	2	3	1	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:24006408T>G	uc004dba.3	-	4	1701	c.1445A>C	c.(1444-1446)AAG>ACG	p.K482T		NM_030624	NP_085127	Q96M94	KLH15_HUMAN	kelch-like 15	482										ovary(1)|breast(1)	2						AGAAATCATCTTGTGAAAGCA	0.448													20	124					0	0	1	0	0		G	24006408	G	G	24006408	3	3	27	1	0	0	0	0	1	0	0	0	8387	1609	56	5	373	5	KLHL15	23	24006408	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	72538	24006408	131264152	8233	30584											
POLA1	5422	broad.mit.edu	37	chrX	24759545	24759545	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctggaaagatgccaagtTcattttgcagatcatgtgtg	11	12	10	8	0	2	2	2	0	0	2	2	3	2	3	2	1	2	2	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:24759545T>C	uc004dbl.2	+	21	2275	c.2252T>C	c.(2251-2253)TTC>TCC	p.F751S		NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	751					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	GATGCCAAGTTCATTTTGCAG	0.358													5	74					0	0	1	0	0		C	24759545	C	C	24759545	3	2	27	1	0	0	0	0	1	0	0	0	12206	1783	62	3	2334	3	POLA1	23	24759545	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	753137	24759545	130511015	8234	30585											
MAGEB10	139422	broad.mit.edu	37	chrX	27840426	27840426	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtgccacagccggtgcaCgttccaaggttaagtccagc	9	9	11	12	2	0	0	0	0	0	0	2	0	2	0	4	2	4	3	4	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:27840426C>T	uc004dbw.2	+	3	1230	c.1003C>T	c.(1003-1005)CGT>TGT	p.R335C		NM_182506	NP_872312	Q96LZ2	MAGBA_HUMAN	melanoma antigen family B, 10	335										lung(1)|breast(1)|central_nervous_system(1)	3						AGCCGGTGCACGTTCCAAGGT	0.483													5	44					0	0	1	0	0		T	27840426	T	T	27840426	3	4	27	1	0	0	0	0	1	0	0	0	9191	536	19	1	1005	1	MAGEB10	23	27840426	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	3080881	27840426	127430134	8235	30586											
MAGEB3	4114	broad.mit.edu	37	chrX	30254423	30254423	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgatggaaatgtacaagAtgaaaaagcccattatgaaa	18	9	8	6	0	0	4	0	3	0	1	1	5	1	5	2	1	2	1	2	1	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:30254423A>T	uc004dca.1	+	5	1119	c.382A>T	c.(382-384)ATG>TTG	p.M128L		NM_002365	NP_002356	O15480	MAGB3_HUMAN	melanoma antigen family B, 3	128	MAGE.										0						AATGTACAAGATGAAAAAGCC	0.398													4	61					0	0	1	0	0		T	30254423	T	T	30254423	3	4	27	1	0	0	0	0	1	0	0	0	9195	333	12	5	384	5	MAGEB3	23	30254423	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2413997	30254423	125016137	8236	30587											
NR0B1	190	broad.mit.edu	37	chrX	30322917	30322917	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagtccctgaatgtactTcacgcactgcaggcccggca	8	8	11	14	2	1	1	1	1	0	0	2	2	2	2	2	3	2	4	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:30322917T>C	uc004dcf.3	-	2	1207	c.1192A>G	c.(1192-1194)AAG>GAG	p.K398E		NM_000475	NP_000466	P51843	NR0B1_HUMAN	nuclear receptor subfamily 0, group B, member 1	398	Ligand-binding (By similarity).				adrenal gland development|hypothalamus development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of steroid hormone receptor signaling pathway|pituitary gland development|protein localization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid biosynthetic process	cytoplasm|membrane fraction|nucleoplasm|nucleus|polysomal ribosome	AF-2 domain binding|DNA hairpin binding|ligand-regulated transcription factor activity|protein domain specific binding|protein homodimerization activity|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|steroid hormone receptor binding|transcription corepressor activity|transcription factor binding			ovary(1)|lung(1)	2					Dexamethasone(DB01234)|Tretinoin(DB00755)	TGAATGTACTTCACGCACTGC	0.468													5	83					0	0	1	0	0		C	30322917	C	C	30322917	3	2	27	1	0	0	0	0	1	0	0	0	10632	1792	62	3	224	3	NR0B1	23	30322917	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	68494	30322917	124947643	8237	30588											
NR0B1	190	broad.mit.edu	37	chrX	30327194	30327194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccagcgtcgcctcgggcGccttcggtgccgcgtacgtt	3	8	14	16	8	0	0	0	0	0	0	3	1	0	0	4	2	3	2	4	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:30327194G>A	uc004dcf.3	-	1	302	c.287C>T	c.(286-288)GCG>GTG	p.A96V		NM_000475	NP_000466	P51843	NR0B1_HUMAN	nuclear receptor subfamily 0, group B, member 1	96	4 X 67 AA tandem repeats.|2.				adrenal gland development|hypothalamus development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of steroid hormone receptor signaling pathway|pituitary gland development|protein localization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid biosynthetic process	cytoplasm|membrane fraction|nucleoplasm|nucleus|polysomal ribosome	AF-2 domain binding|DNA hairpin binding|ligand-regulated transcription factor activity|protein domain specific binding|protein homodimerization activity|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|steroid hormone receptor binding|transcription corepressor activity|transcription factor binding			ovary(1)|lung(1)	2					Dexamethasone(DB01234)|Tretinoin(DB00755)	CGCCTCGGGCGCCTTCGGTGC	0.682											OREG0019719	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	45					0	0	1	0	0		A	30327194	A	A	30327194	3	1	27	1	0	0	0	0	1	0	0	0	10632	1087	38	1	1133	1	NR0B1	23	30327194	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4277	30327194	124943366	8238	30589											
GK	2710	broad.mit.edu	37	chrX	30686200	30686200	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagaaaacatgtgagaaacTtggacagctcaatattgata	18	9	9	5	0	1	3	1	2	0	2	1	6	1	4	0	1	3	1	0	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:30686200T>C	uc004dch.3	+	3	403	c.224T>C	c.(223-225)CTT>CCT	p.L75P	GK_uc010ngj.2_Missense_Mutation_p.L75P|GK_uc004dci.3_Missense_Mutation_p.L75P|GK_uc011mjz.1_5'UTR|GK_uc011mka.1_Intron|GK_uc010ngk.2_Intron	NM_203391	NP_976325	P32189	GLPK_HUMAN	glycerol kinase isoform a	75					glycerol-3-phosphate metabolic process|triglyceride biosynthetic process	cytosol|mitochondrial outer membrane	ATP binding|glycerol kinase activity			central_nervous_system(1)	1						TGTGAGAAACTTGGACAGCTC	0.313													15	48					0	0	1	0	0		C	30686200	C	C	30686200	3	2	27	1	0	0	0	0	1	0	0	0	6435	1609	56	3	234	3	GK	23	30686200	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	359006	30686200	124584360	8239	30590											
TAB3	257397	broad.mit.edu	37	chrX	30849565	30849565	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtgtaccgtggcatctcGcactgctcacagcgatttag	8	10	11	12	3	2	0	1	0	1	0	3	1	2	0	1	2	3	4	1	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:30849565G>A	uc004dcj.2	-	11	2781	c.2118C>T	c.(2116-2118)TGC>TGT	p.C706C	TAB3_uc004dck.2_Silent_p.C706C|TAB3_uc010ngl.2_Silent_p.C678C	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	706	RanBP2-type.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						GTGGCATCTCGCACTGCTCAC	0.488													4	41					0	0	1	0	0		A	30849565	A	A	30849565	2	1	27	1	0	0	0	0	0	0	0	1	15522	1079	38	1		1	TAB3	23	30849565	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	163365	30849565	124420995	8240	30591											
DMD	1756	broad.mit.edu	37	chrX	31165402	31165402	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcctcacttgctccagcAgctgccttagcctgtgtaac	6	12	7	16	0	2	0	1	0	1	0	4	0	3	0	4	0	6	4	4	0	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:31165402A>G	uc004dda.1	-	75	11031	c.10787T>C	c.(10786-10788)CTG>CCG	p.L3596P	DMD_uc004dcq.1_Missense_Mutation_p.L867P|DMD_uc004dcr.1_Missense_Mutation_p.L1016P|DMD_uc004dcs.1_Missense_Mutation_p.L1026P|DMD_uc004dct.1_Missense_Mutation_p.L1136P|DMD_uc004dcu.1_Missense_Mutation_p.L1136P|DMD_uc004dcv.1_Missense_Mutation_p.L1123P|DMD_uc004dcw.2_Missense_Mutation_p.L2252P|DMD_uc004dcx.2_Missense_Mutation_p.L2255P|DMD_uc004dcz.2_Missense_Mutation_p.L3473P|DMD_uc004dcy.1_Missense_Mutation_p.L3592P|DMD_uc004ddb.1_Missense_Mutation_p.L3588P|DMD_uc004dcm.1_Missense_Mutation_p.L528P|DMD_uc004dcn.1_Missense_Mutation_p.L515P|DMD_uc004dco.1_Missense_Mutation_p.L528P|DMD_uc004dcp.1_Missense_Mutation_p.L515P|DMD_uc011mkb.1_Missense_Mutation_p.L418P	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3596					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTGCTCCAGCAGCTGCCTTAG	0.448													26	91					0	0	1	0	0		G	31165402	G	G	31165402	3	3	27	1	0	0	0	0	1	0	0	0	4586	188	7	3	376	3	DMD	23	31165402	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	315837	31165402	124105158	8241	30592											
DMD	1756	broad.mit.edu	37	chrX	31196845	31196845	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtagcccattcggggatgCttcgcaaaataccttttggt	9	12	11	9	2	0	0	0	0	0	0	2	1	0	1	2	4	3	3	2	4	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:31196845C>T	uc004dda.1	-	70	10408	c.10164G>A	c.(10162-10164)AAG>AAA	p.K3388K	DMD_uc004dcq.1_Silent_p.K659K|DMD_uc004dcr.1_Silent_p.K928K|DMD_uc004dcs.1_Silent_p.K928K|DMD_uc004dct.1_Silent_p.K928K|DMD_uc004dcu.1_Silent_p.K928K|DMD_uc004dcv.1_Silent_p.K928K|DMD_uc004dcw.2_Silent_p.K2044K|DMD_uc004dcx.2_Silent_p.K2047K|DMD_uc004dcz.2_Silent_p.K3265K|DMD_uc004dcy.1_Silent_p.K3384K|DMD_uc004ddb.1_Silent_p.K3380K|DMD_uc004dcm.1_Silent_p.K320K|DMD_uc004dcn.1_Silent_p.K320K|DMD_uc004dco.1_Silent_p.K320K|DMD_uc004dcp.1_Silent_p.K320K|DMD_uc011mkb.1_Silent_p.K320K|DMD_uc010ngm.2_Silent_p.K320K	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3388	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTCGGGGATGCTTCGCAAAAT	0.438													10	163					0	0	1	0	0		T	31196845	T	T	31196845	2	4	27	1	0	0	0	0	0	0	0	1	4586	796	28	2		2	DMD	23	31196845	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	31443	31196845	124073715	8242	30593											
DMD	1756	broad.mit.edu	37	chrX	32398784	32398784	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcatttctccaactgttgcTttctttctgttacctgaaaa	9	17	5	10	0	3	1	0	1	3	0	4	1	3	1	2	0	4	4	2	0	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:32398784T>A	uc004dda.1	-	34	4932	c.4688A>T	c.(4687-4689)AAG>ATG	p.K1563M	DMD_uc004dcw.2_Missense_Mutation_p.K219M|DMD_uc004dcx.2_Missense_Mutation_p.K222M|DMD_uc004dcz.2_Missense_Mutation_p.K1440M|DMD_uc004dcy.1_Missense_Mutation_p.K1559M|DMD_uc004ddb.1_Missense_Mutation_p.K1555M|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1563	Spectrin 10.|Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CAACTGTTGCTTTCTTTCTGT	0.318													10	86					0	0	1	0	0		A	32398784	A	A	32398784	3	1	27	1	0	0	0	0	1	0	0	0	4586	1609	56	5	6701	5	DMD	23	32398784	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1201939	32398784	122871776	8243	30594											
DMD	1756	broad.mit.edu	37	chrX	32408234	32408235	+	Missense_Mutation	DNP	CC	AA	AA																															ctctttgggcagcctccttcCcctgattatgtttcttcatt																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:32408234_32408235CC>AA	uc004dda.1	-	31	4541_4542	c.4297_4298GG>TT	c.(4297-4299)GGG>TTG	p.G1433L	DMD_uc004dcw.2_Missense_Mutation_p.G89L|DMD_uc004dcx.2_Missense_Mutation_p.G92L|DMD_uc004dcz.2_Missense_Mutation_p.G1310L|DMD_uc004dcy.1_Missense_Mutation_p.G1429L|DMD_uc004ddb.1_Missense_Mutation_p.G1425L|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1433	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AGCCTCCTTCCCCTGATTATGT	0.396													10	57					0	0	1	0	0		AA	32408235	AA	AA	32408234	3	1	27	1	0	0	0	0	1	0	0	0	4586	623	22	5	7103	5	DMD	23	32408234	Missense_Mutation	DNP	CC	TCGA-BR-6452-01A-12D-1800-08	9450	32408234	122862326	8244	30595											
DMD	1756	broad.mit.edu	37	chrX	32536157	32536157	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaagtctgagaagttgcCttccttccgaaagattgcaa	11	14	8	8	1	1	2	0	1	1	2	3	4	3	2	3	0	2	2	3	0	4	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:32536157C>A	uc004dda.1	-	18	2504	c.2260G>T	c.(2260-2262)GGC>TGC	p.G754C	DMD_uc004dcz.2_Missense_Mutation_p.G631C|DMD_uc004dcy.1_Missense_Mutation_p.G750C|DMD_uc004ddb.1_Missense_Mutation_p.G746C|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.G746C	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	754	Spectrin 4.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GAGAAGTTGCCTTCCTTCCGA	0.378													6	57					0.0215528	0.0219246	1	1	0		A	32536157	A	A	32536157	3	1	27	1	0	0	0	0	1	0	0	0	4586	681	24	5	9288	5	DMD	23	32536157	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	127923	32536157	122734403	8245	30596											
DMD	1756	broad.mit.edu	37	chrX	32583888	32583888	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaagttatccagccatgcTtccgtcttctgggtcactga	8	12	9	12	1	3	1	1	1	2	0	5	1	5	1	3	1	2	3	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:32583888T>G	uc004dda.1	-	16	2167	c.1923A>C	c.(1921-1923)GAA>GAC	p.E641D	DMD_uc004dcz.2_Missense_Mutation_p.E518D|DMD_uc004dcy.1_Missense_Mutation_p.E637D|DMD_uc004ddb.1_Missense_Mutation_p.E633D|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.E633D	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	641	Spectrin 3.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CCAGCCATGCTTCCGTCTTCT	0.403													4	99					0	0	1	0	0		G	32583888	G	G	32583888	3	3	27	1	0	0	0	0	1	0	0	0	4586	1606	56	5	9633	5	DMD	23	32583888	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	47731	32583888	122686672	8246	30597											
FAM47A	158724	broad.mit.edu	37	chrX	34148408	34148408	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagaatttgtcctcatccTtttcatctagctccatgctg	9	15	6	11	0	3	2	2	0	1	2	6	2	6	2	3	0	2	2	3	0	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:34148408T>G	uc004ddg.2	-	1	2021	c.1988A>C	c.(1987-1989)AAG>ACG	p.K663T		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	663										ovary(4)|central_nervous_system(1)	5						GTCCTCATCCTTTTCATCTAG	0.443													13	114					0	0	1	0	0		G	34148408	G	G	34148408	3	3	27	1	0	0	0	0	1	0	0	0	5583	1609	56	5	391	5	FAM47A	23	34148408	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1564520	34148408	121122152	8247	30598											
FAM47A	158724	broad.mit.edu	37	chrX	34148797	34148797	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgacgagtcttgggaggCtccggaccgagactggacgt	8	7	15	11	5	1	1	0	0	1	1	3	7	2	4	2	4	0	1	2	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:34148797C>A	uc004ddg.2	-	1	1632	c.1599G>T	c.(1597-1599)GAG>GAT	p.E533D		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	533										ovary(4)|central_nervous_system(1)	5						TCTTGGGAGGCTCCGGACCGA	0.662													6	103					0.00116845	0.00121513	1	1	0		A	34148797	A	A	34148797	3	1	27	1	0	0	0	0	1	0	0	0	5583	796	28	5	780	5	FAM47A	23	34148797	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	389	34148797	121121763	8248	30599											
FAM47B	170062	broad.mit.edu	37	chrX	34962797	34962797	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgccaagaagggatggActtacgactctgttaagact	11	12	11	7	1	1	2	0	0	1	2	1	5	1	4	1	2	2	2	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:34962797A>G	uc004ddi.1	+	1	1867	c.1849A>G	c.(1849-1851)ACT>GCT	p.T617A		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	617										ovary(3)|breast(1)	4						GAAGGGATGGACTTACGACTC	0.413													16	205					0	0	1	0	0		G	34962797	G	G	34962797	3	3	27	1	0	0	0	0	1	0	0	0	5584	275	10	3	1851	3	FAM47B	23	34962797	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	814000	34962797	120307763	8249	30600											
CXorf22	170063	broad.mit.edu	37	chrX	35944204	35944204	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgacagctatggtggaatAtcatcctgataaagacgaag	15	9	11	6	1	1	3	1	2	0	1	2	6	2	4	1	2	1	1	1	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:35944204A>T	uc004ddj.2	+	2	379	c.320A>T	c.(319-321)TAT>TTT	p.Y107F	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	107										large_intestine(1)|lung(1)|ovary(1)	3						ATGGTGGAATATCATCCTGAT	0.363													7	53					0	0	1	0	0		T	35944204	T	T	35944204	3	4	27	1	0	0	0	0	1	0	0	0	4105	449	16	5	326	5	CXorf22	23	35944204	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	981407	35944204	119326356	8250	30601											
CXorf22	170063	broad.mit.edu	37	chrX	35959399	35959399	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccttcttttctcctccctaGgttgattccatcctgtcaat	5	17	5	14	0	3	1	1	1	2	0	7	1	6	1	5	1	0	1	5	1	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:35959399G>T	uc004ddj.2	+	3	461	c.402_splice	c.e3-1	p.G134_splice	CXorf22_uc010ngv.2_Splice_Site	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063											large_intestine(1)|lung(1)|ovary(1)	3						CTCCTCCCTAGGTTGATTCCA	0.343													6	79					0.217242	0.218248	1	1	0		T	35959399	T	T	35959399	5	4	27	1	0	0	0	0	0	0	1	0	4105	1014	35	5	411	5	CXorf22	23	35959399	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	15195	35959399	119311161	8251	30602											
CXorf22	170063	broad.mit.edu	37	chrX	35966531	35966531	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggttattaaagtagatttCtgtgcagaccagccaagaat	14	12	9	6	0	1	3	0	0	1	3	1	3	1	3	2	1	2	3	2	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:35966531C>A	uc004ddj.2	+	4	677	c.618C>A	c.(616-618)TTC>TTA	p.F206L	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	206										large_intestine(1)|lung(1)|ovary(1)	3						AAGTAGATTTCTGTGCAGACC	0.383													14	88					3.35478e-16	3.75012e-16	1	1	0		A	35966531	A	A	35966531	3	1	27	1	0	0	0	0	1	0	0	0	4105	912	32	5	632	5	CXorf22	23	35966531	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7132	35966531	119304029	8252	30603											
CXorf22	170063	broad.mit.edu	37	chrX	35969365	35969365	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaatgcatacactttggTcctgttttcttcggatcatc	7	16	8	10	1	2	0	1	0	1	0	5	2	3	2	1	3	2	2	1	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:35969365T>C	uc004ddj.2	+	5	833	c.774T>C	c.(772-774)GGT>GGC	p.G258G	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	258										large_intestine(1)|lung(1)|ovary(1)	3						TACACTTTGGTCCTGTTTTCT	0.408													3	53					0	0	1	0	0		C	35969365	C	C	35969365	2	2	27	1	0	0	0	0	0	0	0	1	4105	1654	58	3		3	CXorf22	23	35969365	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2834	35969365	119301195	8253	30604											
LANCL3	347404	broad.mit.edu	37	chrX	37431373	37431373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacgtctcgcagagcccgCttttcgccacggcccgggaa	7	6	11	17	6	1	1	0	0	1	1	3	2	1	2	4	2	1	2	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:37431373C>T	uc011mkd.1	+	1	552	c.250C>T	c.(250-252)CTT>TTT	p.L84F	LANCL3_uc004ddp.1_Missense_Mutation_p.L84F	NM_198511	NP_940913	Q6ZV70	LANC3_HUMAN	LanC lantibiotic synthetase component C-like 3	84							catalytic activity				0						GCAGAGCCCGCTTTTCGCCAC	0.726													3	16					0	0	1	0	0		T	37431373	T	T	37431373	3	4	27	1	0	0	0	0	1	0	0	0	8638	797	28	2	252	2	LANCL3	23	37431373	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1462008	37431373	117839187	8254	30605											
CYBB	1536	broad.mit.edu	37	chrX	37658288	37658288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acaaaaaatctcagaatgggGaaaaataaaggaatgcccaa	22	5	8	6	0	1	1	1	0	1	1	2	3	1	3	1	3	1	0	1	3	10	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:37658288G>A	uc004ddr.2	+	7	816	c.755G>A	c.(754-756)GGA>GAA	p.G252E	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Missense_Mutation_p.G220E|CYBB_uc011mkg.1_5'UTR	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	252	Extracellular (Potential).|Ferric oxidoreductase.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						TCAGAATGGGGAAAAATAAAG	0.383													6	46					0	0	1	0	0		A	37658288	A	A	37658288	3	1	27	1	0	0	0	0	1	0	0	0	4136	1174	41	4	781	4	CYBB	23	37658288	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	226915	37658288	117612272	8255	30606											
CXorf27	25763	broad.mit.edu	37	chrX	37850184	37850184	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacaggtccctaggagctTcgtggaccgcgttgtgcaag	7	9	14	11	3	0	0	0	0	0	0	2	2	1	2	2	3	3	4	2	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:37850184T>C	uc004ddt.3	+	1	115	c.92T>C	c.(91-93)TTC>TCC	p.F31S		NM_012274	NP_036406	O75409	HYPM_HUMAN	Huntingtin interacting protein M	31							DNA binding			central_nervous_system(1)	1						CCTAGGAGCTTCGTGGACCGC	0.463													6	40					0	0	1	0	0		C	37850184	C	C	37850184	3	2	27	1	0	0	0	0	1	0	0	0	4108	1783	62	3	94	3	CXorf27	23	37850184	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	191896	37850184	117420376	8256	30607											
OTC	5009	broad.mit.edu	37	chrX	38240679	38240679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaaagtctcacggacacggCccggtttgtaaatattttct	10	13	9	9	3	2	1	1	1	2	0	3	2	2	2	1	3	0	2	1	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:38240679C>T	uc004def.3	+	4	597	c.383C>T	c.(382-384)GCC>GTC	p.A128V		NM_000531	NP_000522	P00480	OTC_HUMAN	ornithine carbamoyltransferase precursor	128					arginine biosynthetic process|urea cycle	mitochondrial matrix|ornithine carbamoyltransferase complex	ornithine carbamoyltransferase activity			ovary(1)|breast(1)	2					L-Citrulline(DB00155)|L-Ornithine(DB00129)	ACGGACACGGCCCGGTTTGTA	0.343													5	40					0	0	1	0	0		T	38240679	T	T	38240679	3	4	27	1	0	0	0	0	1	0	0	0	11320	739	26	2	397	2	OTC	23	38240679	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	390495	38240679	117029881	8257	30608											
BCOR	54880	broad.mit.edu	37	chrX	39931992	39931992	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagactggctgtttgaaagtAtaagtttcgtggaagtcact	12	13	11	5	1	1	2	1	1	0	1	2	3	1	3	0	2	0	4	0	2	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:39931992A>G	uc004den.3	-	4	2899	c.2607T>C	c.(2605-2607)TAT>TAC	p.Y869Y	BCOR_uc004dep.3_Silent_p.Y869Y|BCOR_uc004deo.3_Silent_p.Y869Y|BCOR_uc004dem.3_Silent_p.Y869Y|BCOR_uc004deq.3_Silent_p.Y869Y	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	869					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						GTTTGAAAGTATAAGTTTCGT	0.552													7	91					0	0	1	0	0		G	39931992	G	G	39931992	2	3	27	1	0	0	0	0	0	0	0	1	1387	456	16	3		3	BCOR	23	39931992	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1691313	39931992	115338568	8258	30609											
ATP6AP2	10159	broad.mit.edu	37	chrX	40456806	40456806	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatggtagggaaggcaaacTcagtgtttgaagacctttca	13	11	11	6	0	2	2	2	1	0	1	2	3	2	3	1	3	1	3	1	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:40456806T>C	uc004det.2	+	5	526	c.424T>C	c.(424-426)TCA>CCA	p.S142P	ATP6AP2_uc010nhc.2_RNA|ATP6AP2_uc011mkl.1_Missense_Mutation_p.S66P|ATP6AP2_uc011mkm.1_Missense_Mutation_p.S110P|ATP6AP2_uc011mkn.1_Intron|ATP6AP2_uc004deu.1_Missense_Mutation_p.S7P	NM_005765	NP_005756	O75787	RENR_HUMAN	ATPase, H+ transporting, lysosomal accessory	142	Extracellular (Potential).				angiotensin maturation|positive regulation of transforming growth factor-beta1 production|regulation of MAPKKK cascade	external side of plasma membrane|integral to membrane	protein binding|receptor activity				0						GAAGGCAAACTCAGTGTTTGA	0.418													10	105					0	0	1	0	0		C	40456806	C	C	40456806	3	2	27	1	0	0	0	0	1	0	0	0	1168	1551	54	3	442	3	ATP6AP2	23	40456806	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	524814	40456806	114813754	8259	30610											
CXorf38	159013	broad.mit.edu	37	chrX	40496409	40496409	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattacgacatttaattacCtgcagaaagacaaaaagata	19	10	5	7	1	1	3	1	0	0	3	1	4	1	3	1	0	3	1	1	0	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:40496409C>A	uc004dew.2	-	4	477	c.472_splice	c.e4-1	p.V158_splice	CXorf38_uc011mko.1_Splice_Site_p.V73_splice|CXorf38_uc004dev.1_Splice_Site_p.V39_splice|CXorf38_uc010nhd.2_Splice_Site	NM_144970	NP_659407	Q8TB03	CX038_HUMAN	hypothetical protein LOC159013											ovary(1)	1						ATTTAATTACCTGCAGAAAGA	0.338													4	30					0.00909568	0.0093211	1	1	0		A	40496409	A	A	40496409	5	1	27	1	0	0	0	0	0	0	1	0	4110	695	24	5	500	5	CXorf38	23	40496409	Splice_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	39603	40496409	114774151	8260	30611											
MED14	9282	broad.mit.edu	37	chrX	40571544	40571544	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgaaccaaagctcgcccAtcttccgttggcagaagaaa	13	8	8	12	2	1	3	0	1	1	2	3	3	2	3	3	1	2	3	3	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:40571544A>G	uc004dex.3	-	7	923	c.783T>C	c.(781-783)GAT>GAC	p.D261D	MED14_uc010nhe.1_Silent_p.D145D	NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	261	Interaction with STAT2.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						AAGCTCGCCCATCTTCCGTTG	0.388													8	160					0	0	1	0	0		G	40571544	G	G	40571544	2	3	27	1	0	0	0	0	0	0	0	1	9450	231	8	3		3	MED14	23	40571544	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	75135	40571544	114699016	8261	30612											
DDX3X	1654	broad.mit.edu	37	chrX	41203533	41203533	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccttgcgtggtttatggTggtgccgatattggtcagca	5	14	14	8	3	1	0	1	0	0	0	2	1	2	0	2	4	3	2	2	4	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:41203533T>C	uc004dfe.2	+	10	1761	c.906T>C	c.(904-906)GGT>GGC	p.G302G	DDX3X_uc010nhf.1_Silent_p.G286G|DDX3X_uc004dff.2_Silent_p.G302G|DDX3X_uc011mkq.1_Silent_p.G286G|DDX3X_uc011mkr.1_Silent_p.G302G|DDX3X_uc011mks.1_Intron|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	302	Necessary for interaction with XPO1.|Helicase ATP-binding.				interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						TGGTTTATGGTGGTGCCGATA	0.398										HNSCC(61;0.18)			7	238					0	0	1	0	0		C	41203533	C	C	41203533	2	2	27	1	0	0	0	0	0	0	0	1	4361	1683	59	3		3	DDX3X	23	41203533	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	631989	41203533	114067027	8262	30613											
DDX3X	1654	broad.mit.edu	37	chrX	41205775	41205775	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtagcagcaagaggactGgacatttcaaatgtgaaaca	16	7	11	7	0	1	2	1	1	0	1	1	4	1	4	0	3	3	3	0	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:41205775G>A	uc004dfe.2	+	14	2370	c.1515G>A	c.(1513-1515)CTG>CTA	p.L505L	DDX3X_uc004dff.2_Silent_p.L505L|DDX3X_uc011mkq.1_Silent_p.L489L|DDX3X_uc011mkr.1_Intron|DDX3X_uc011mks.1_Intron|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	505	Helicase C-terminal.|Necessary for interaction with XPO1.				interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						CAAGAGGACTGGACATTTCAA	0.353										HNSCC(61;0.18)			14	92					0	0	1	0	0		A	41205775	A	A	41205775	2	1	27	1	0	0	0	0	0	0	0	1	4361	1335	47	4		4	DDX3X	23	41205775	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2242	41205775	114064785	8263	30614											
GPR82	27197	broad.mit.edu	37	chrX	41586602	41586602	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtatgtttgtcagtctctTaattttaagttggattgcca	10	18	8	5	0	2	0	1	0	1	0	3	1	2	1	1	1	1	3	1	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:41586602T>C	uc004dfs.1	+	3	563	c.323T>C	c.(322-324)TTA>TCA	p.L108S	CASK_uc004dfl.3_Intron|CASK_uc004dfm.3_Intron|CASK_uc004dfn.3_Intron|GPR82_uc004dft.2_Missense_Mutation_p.L108S|GPR82_uc004dfu.1_RNA	NM_080817	NP_543007	Q96P67	GPR82_HUMAN	G protein-coupled receptor 82	108	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						GTCAGTCTCTTAATTTTAAGT	0.388													9	81					0	0	1	0	0		C	41586602	C	C	41586602	3	2	27	1	0	0	0	0	1	0	0	0	6727	1764	61	3	325	3	GPR82	23	41586602	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	380827	41586602	113683958	8264	30615											
MAOB	4129	broad.mit.edu	37	chrX	43662605	43662605	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgatctaagtaggtaattGgattccatacaggtgggaat	13	13	11	4	0	1	1	0	1	1	0	2	3	2	3	1	4	1	2	1	4	6	7	rs149395667	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:43662605G>T	uc004dfz.3	-	4	502	c.326C>A	c.(325-327)CCA>CAA	p.P109Q	MAOB_uc011mkx.1_Missense_Mutation_p.P93Q|MAOB_uc011mky.1_Missense_Mutation_p.P93Q	NM_000898	NP_000889	P27338	AOFB_HUMAN	monoamine oxidase B	109	Cytoplasmic.				xenobiotic metabolic process	integral to membrane|mitochondrial outer membrane	electron carrier activity|primary amine oxidase activity			ovary(1)|central_nervous_system(1)	2					Amantadine(DB00915)|Bupropion(DB01156)|Carbidopa(DB00190)|Citalopram(DB00215)|Dopamine(DB00988)|Entacapone(DB00494)|Furazolidone(DB00614)|Ginkgo biloba(DB01381)|Ibuprofen(DB01050)|Imipramine(DB00458)|Iproniazid(DB04818)|Isocarboxazid(DB01247)|Levodopa(DB01235)|Maprotiline(DB00934)|Meclizine(DB00737)|Moclobemide(DB01171)|Nicotine(DB00184)|Pargyline(DB01626)|Phenelzine(DB00780)|Phentermine(DB00191)|Rasagiline(DB01367)|Selegiline(DB01037)|Tranylcypromine(DB00752)	GTAGGTAATTGGATTCCATAC	0.358													6	91					0.000157383	0.000166242	1	1	0		T	43662605	T	T	43662605	3	4	27	1	0	0	0	0	1	0	0	0	9244	1348	47	5	1284	5	MAOB	23	43662605	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2076003	43662605	111607955	8265	30616											
KDM6A	7403	broad.mit.edu	37	chrX	44928862	44928862	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttcacattcggcaggtccTaatggtgaacgacctctctc	9	11	9	12	2	2	1	1	1	1	0	6	2	3	1	2	3	1	2	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:44928862T>C	uc004dge.3	+	17	2337	c.1962T>C	c.(1960-1962)CCT>CCC	p.P654P	KDM6A_uc010nhk.2_Silent_p.P620P|KDM6A_uc011mkz.1_Silent_p.P706P|KDM6A_uc011mla.1_Silent_p.P609P|KDM6A_uc011mlb.1_Silent_p.P661P|KDM6A_uc011mlc.1_Silent_p.P358P|KDM6A_uc011mld.1_Silent_p.P293P	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	654					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						CGGCAGGTCCTAATGGTGAAC	0.443			D|N|F|S		renal|oesophageal SCC|MM								7	74					0	0	1	0	0		C	44928862	C	C	44928862	2	2	27	1	0	0	0	0	0	0	0	1	8153	1509	53	3		3	KDM6A	23	44928862	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1266257	44928862	110341698	8266	30617											
ZNF673	55634	broad.mit.edu	37	chrX	46322301	46322301	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaactacagccacctggTgtccgtgggtgagggaccgt	8	8	15	10	2	0	2	0	2	0	1	1	4	1	3	4	3	3	0	4	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:46322301T>C	uc004dgn.3	+	4	433	c.134T>C	c.(133-135)GTG>GCG	p.V45A	ZNF673_uc004dgp.3_Missense_Mutation_p.V45A|ZNF673_uc010nhl.2_Missense_Mutation_p.V45A|ZNF673_uc004dgm.3_Missense_Mutation_p.V45A	NM_001129898	NP_001123370	Q5JUW0	ZN673_HUMAN	zinc finger family member 673 isoform 1	45	KRAB.				regulation of transcription, DNA-dependent	intracellular	nucleic acid binding				0						AGCCACCTGGTGTCCGTGGGT	0.557													8	66					0	0	1	0	0		C	46322301	C	C	46322301	3	2	27	1	0	0	0	0	1	0	0	0	18105	1696	59	3	140	3	ZNF673	23	46322301	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1393439	46322301	108948259	8267	30618											
RBM10	8241	broad.mit.edu	37	chrX	47045526	47045526	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggcatccccgagccgccAgagcccaagaggaggaagta	12	4	13	12	2	0	2	0	0	0	2	1	5	1	4	5	3	2	2	5	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:47045526A>G	uc004dhf.2	+	22	2872	c.2493A>G	c.(2491-2493)CCA>CCG	p.P831P	RBM10_uc004dhg.2_Silent_p.P753P|RBM10_uc004dhh.2_Silent_p.P830P|RBM10_uc010nhq.2_Silent_p.P754P|RBM10_uc004dhi.2_Silent_p.P896P	NM_005676	NP_005667	P98175	RBM10_HUMAN	RNA binding motif protein 10 isoform 1	831					mRNA processing|RNA splicing	chromatin remodeling complex	nucleotide binding|RNA binding|zinc ion binding			ovary(1)|large_intestine(1)|prostate(1)|breast(1)|pancreas(1)	5						CCGAGCCGCCAGAGCCCAAGA	0.612													3	37					0	0	1	0	0		G	47045526	G	G	47045526	2	3	27	1	0	0	0	0	0	0	0	1	13136	175	7	3		3	RBM10	23	47045526	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	723225	47045526	108225034	8268	30619											
ZNF157	7712	broad.mit.edu	37	chrX	47269706	47269706	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcgaggatgtggctgtggAtttcacccgacaggagtggc	8	10	15	8	2	1	0	1	0	0	0	2	5	1	3	1	5	0	1	1	5	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:47269706A>T	uc004dhr.1	+	2	173	c.104A>T	c.(103-105)GAT>GTT	p.D35V		NM_003446	NP_003437	P51786	ZN157_HUMAN	zinc finger protein 157	35	KRAB.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GTGGCTGTGGATTTCACCCGA	0.502													11	127					0	0	1	0	0		T	47269706	T	T	47269706	3	4	27	1	0	0	0	0	1	0	0	0	17762	333	12	5	110	5	ZNF157	23	47269706	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	224180	47269706	108000854	8269	30620											
ZNF157	7712	broad.mit.edu	37	chrX	47271938	47271938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgttagacgtaaaagaacaCccagaggagataaaaacttt	18	9	8	6	1	0	4	0	0	0	4	0	5	0	4	1	1	2	2	1	1	7	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:47271938C>T	uc004dhr.1	+	4	535	c.466C>T	c.(466-468)CCC>TCC	p.P156S		NM_003446	NP_003437	P51786	ZN157_HUMAN	zinc finger protein 157	156					negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TAAAAGAACACCCAGAGGAGA	0.388													5	68					0	0	1	0	0		T	47271938	T	T	47271938	3	4	27	1	0	0	0	0	1	0	0	0	17762	507	18	4	480	4	ZNF157	23	47271938	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2232	47271938	107998622	8270	30621											
ZNF157	7712	broad.mit.edu	37	chrX	47272743	47272743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaatgtgggaaaatcttcaGtatgaagaaatccctttgtc	13	13	9	6	0	2	3	1	2	1	1	4	4	3	4	1	1	0	1	1	1	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:47272743G>A	uc004dhr.1	+	4	1340	c.1271G>A	c.(1270-1272)AGT>AAT	p.S424N		NM_003446	NP_003437	P51786	ZN157_HUMAN	zinc finger protein 157	424	C2H2-type 10.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AAAATCTTCAGTATGAAGAAA	0.418													5	21					0	0	1	0	0		A	47272743	A	A	47272743	3	1	27	1	0	0	0	0	1	0	0	0	17762	1029	36	4	1285	4	ZNF157	23	47272743	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	805	47272743	107997817	8271	30622											
ZNF41	7592	broad.mit.edu	37	chrX	47307610	47307610	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacacatatagggttttTccccagtatgagttttctga	10	14	8	9	0	1	2	0	2	1	0	2	2	2	2	2	1	1	4	2	1	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:47307610T>C	uc004dhs.3	-	4	1752	c.1685A>G	c.(1684-1686)GAA>GGA	p.E562G	ZNF41_uc004dhu.3_Missense_Mutation_p.E554G|ZNF41_uc004dht.3_Missense_Mutation_p.E434G|ZNF41_uc004dhv.3_Missense_Mutation_p.E530G|ZNF41_uc004dhw.3_Missense_Mutation_p.E522G|ZNF41_uc004dhy.3_Missense_Mutation_p.E520G|ZNF41_uc004dhx.3_Missense_Mutation_p.E520G|ZNF41_uc011mlm.1_Missense_Mutation_p.E434G	NM_153380	NP_700359	P51814	ZNF41_HUMAN	zinc finger protein 41	562						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3		all_lung(315;0.000129)				ATAGGGTTTTTCCCCAGTATG	0.418													7	113					0	0	1	0	0		C	47307610	C	C	47307610	3	2	27	1	0	0	0	0	1	0	0	0	17914	1783	62	3	784	3	ZNF41	23	47307610	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	34867	47307610	107962950	8272	30623											
ARAF	369	broad.mit.edu	37	chrX	47426532	47426532	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgatgacaagaagaaagtggTatgctcgagggggatccttt	12	9	14	6	2	0	3	0	1	0	2	2	6	1	4	1	3	1	2	1	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:47426532T>C	uc011mlq.1	+	9	1006	c.873_splice	c.e9+2	p.V291_splice	ARAF_uc011mln.1_Splice_Site|ARAF_uc011mlo.1_Splice_Site_p.V157_splice|ARAF_uc011mlp.1_Splice_Site_p.V291_splice|ARAF_uc004dic.1_Splice_Site_p.V72_splice	NM_001654	NP_001645	P10398	ARAF_HUMAN	v-raf murine sarcoma 3611 viral oncogene						intracellular signal transduction|negative regulation of apoptosis|positive regulation of peptidyl-serine phosphorylation		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity			large_intestine(3)|lung(2)|ovary(1)|skin(1)	7					Adenosine triphosphate(DB00171)	AAGAAAGTGGTATGCTCGAGG	0.602													6	57					0	0	1	0	0		C	47426532	C	C	47426532	5	2	27	1	0	0	0	0	0	0	1	0	837	1652	57	3	905	3	ARAF	23	47426532	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	118922	47426532	107844028	8273	30624											
SYN1	6853	broad.mit.edu	37	chrX	47478771	47478771	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtcggtgtgcggctcgtcGatgaccagcagcaccctgga	7	7	14	13	4	0	1	0	1	0	0	3	3	0	2	2	3	3	3	2	3	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:47478771G>A	uc004die.2	-	1	486	c.357C>T	c.(355-357)ATC>ATT	p.I119I	SYN1_uc004did.2_Silent_p.I119I	NM_006950	NP_008881	P17600	SYN1_HUMAN	synapsin I isoform Ia	119	C; actin-binding and synaptic-vesicle binding.					cell junction|Golgi apparatus	actin binding|ATP binding|ligase activity|transporter activity			ovary(1)	1						GCGGCTCGTCGATGACCAGCA	0.701													6	25					0	0	1	0	0		A	47478771	A	A	47478771	2	1	27	1	0	0	0	0	0	0	0	1	15465	1048	37	1		1	SYN1	23	47478771	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	52239	47478771	107791789	8274	30625											
FTSJ1	24140	broad.mit.edu	37	chrX	48339902	48339902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccaagcccaggagcagccGgaactctagcatcggtcagt	10	6	12	13	2	2	0	1	0	1	0	3	2	2	2	3	3	6	2	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48339902G>A	uc004djo.1	+	8	880	c.557G>A	c.(556-558)CGG>CAG	p.R186Q	FTSJ1_uc004djl.2_Missense_Mutation_p.R186Q|FTSJ1_uc004djm.2_Missense_Mutation_p.R186Q|FTSJ1_uc004djn.1_Missense_Mutation_p.R186Q|FTSJ1_uc004djp.1_Missense_Mutation_p.R186Q|FTSJ1_uc011mlw.1_Missense_Mutation_p.R49Q	NM_012280	NP_036412	Q9UET6	RRMJ1_HUMAN	FtsJ homolog 1 isoform a	186					RNA methylation|rRNA processing		methyltransferase activity|nucleic acid binding				0						AGGAGCAGCCGGAACTCTAGC	0.637													7	53					0	0	1	0	0		A	48339902	A	A	48339902	3	1	27	1	0	0	0	0	1	0	0	0	6101	1116	39	1	583	1	FTSJ1	23	48339902	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	861131	48339902	106930658	8275	30626											
FTSJ1	24140	broad.mit.edu	37	chrX	48340054	48340054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcagggctatgaccctccCgagggcttcatcccggacct	6	9	11	15	2	2	1	2	1	0	0	4	3	4	2	4	3	0	2	4	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48340054C>T	uc004djo.1	+	9	929	c.606C>T	c.(604-606)CCC>CCT	p.P202P	FTSJ1_uc004djl.2_Silent_p.P202P|FTSJ1_uc004djm.2_Silent_p.P202P|FTSJ1_uc004djn.1_Silent_p.P202P|FTSJ1_uc004djp.1_Silent_p.P202P|FTSJ1_uc011mlw.1_Silent_p.P65P	NM_012280	NP_036412	Q9UET6	RRMJ1_HUMAN	FtsJ homolog 1 isoform a	202					RNA methylation|rRNA processing		methyltransferase activity|nucleic acid binding				0						ATGACCCTCCCGAGGGCTTCA	0.627													5	15					0	0	1	0	0		T	48340054	T	T	48340054	2	4	27	1	0	0	0	0	0	0	0	1	6101	639	23	1		1	FTSJ1	23	48340054	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	152	48340054	106930506	8276	30627											
PORCN	64840	broad.mit.edu	37	chrX	48371053	48371053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgctgtccacttgcgtggGcccctacctcttcccgtact	3	13	9	16	2	1	0	0	0	1	0	3	0	3	0	5	1	4	2	5	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48371053G>A	uc010nie.1	+	6	790	c.632G>A	c.(631-633)GGC>GAC	p.G211D	PORCN_uc004djr.1_Missense_Mutation_p.G211D|PORCN_uc004djs.1_Missense_Mutation_p.G211D|PORCN_uc004djt.1_Missense_Mutation_p.G140D|PORCN_uc011mlx.1_Missense_Mutation_p.G140D|PORCN_uc004dju.1_Missense_Mutation_p.G80D|PORCN_uc004djv.1_Missense_Mutation_p.G211D|PORCN_uc004djw.1_Missense_Mutation_p.G211D	NM_203475	NP_982301	Q9H237	PORCN_HUMAN	porcupine isoform D	211	Helical; (Potential).				Wnt receptor signaling pathway	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(2)|central_nervous_system(1)	3						ACTTGCGTGGGCCCCTACCTC	0.642													12	15					0	0	1	0	0		A	48371053	A	A	48371053	3	1	27	1	0	0	0	0	1	0	0	0	12277	1203	42	2	650	2	PORCN	23	48371053	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	30999	48371053	106899507	8277	30628											
EBP	10682	broad.mit.edu	37	chrX	48386694	48386694	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcacggagagctgggccAccctctctacttctggtttt	6	11	10	14	1	2	1	0	0	2	1	3	2	2	1	3	3	3	3	3	3	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48386694A>G	uc004djx.3	+	5	747	c.542A>G	c.(541-543)CAC>CGC	p.H181R	EBP_uc004djy.3_Missense_Mutation_p.H181R|EBP_uc004djz.2_Missense_Mutation_p.H181R	NM_006579	NP_006570	Q15125	EBP_HUMAN	emopamil binding protein (sterol isomerase)	181					cholesterol biosynthetic process|skeletal system development	endoplasmic reticulum membrane|integral to plasma membrane	cholestenol delta-isomerase activity|drug transmembrane transporter activity|steroid delta-isomerase activity|transmembrane receptor activity			ovary(1)	1						GAGCTGGGCCACCCTCTCTAC	0.567													3	27					0	0	1	0	0		G	48386694	G	G	48386694	3	3	27	1	0	0	0	0	1	0	0	0	4892	159	6	3	556	3	EBP	23	48386694	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	15641	48386694	106883866	8278	30629											
TBC1D25	4943	broad.mit.edu	37	chrX	48418075	48418075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggatggactacatgaaacGcaagagccgcgagtatgagc	13	5	14	9	4	0	3	0	2	0	1	0	6	0	5	1	2	4	2	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48418075G>A	uc004dka.1	+	6	890	c.779G>A	c.(778-780)CGC>CAC	p.R260H	TBC1D25_uc011mly.1_Missense_Mutation_p.R202H|TBC1D25_uc004dkb.1_Missense_Mutation_p.R6H|TBC1D25_uc011mlz.1_Missense_Mutation_p.R6H|TBC1D25_uc011mma.1_Missense_Mutation_p.R6H|TBC1D25_uc004dkc.1_Missense_Mutation_p.R6H|TBC1D25_uc011mmb.1_Missense_Mutation_p.R264H|TBC1D25_uc011mmc.1_Missense_Mutation_p.R6H|TBC1D25_uc011mmd.1_Missense_Mutation_p.R6H	NM_002536	NP_002527	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	260	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			ovary(1)	1						TACATGAAACGCAAGAGCCGC	0.592													15	42					0	0	1	0	0		A	48418075	A	A	48418075	3	1	27	1	0	0	0	0	1	0	0	0	15640	1087	38	1	801	1	TBC1D25	23	48418075	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	31381	48418075	106852485	8279	30630											
WDR13	64743	broad.mit.edu	37	chrX	48457143	48457143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaacgtttccacagtttcGgacgcagtatatccgccggc	9	9	9	14	5	0	0	0	0	0	0	3	1	2	1	4	2	1	4	4	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48457143G>A	uc004dkh.1	+	3	227	c.80G>A	c.(79-81)CGG>CAG	p.R27Q	WDR13_uc010nif.1_Intron|WDR13_uc004dki.1_5'UTR|WDR13_uc004dkj.1_Missense_Mutation_p.R27Q|WDR13_uc004dkk.1_5'UTR|WDR13_uc004dkl.3_5'UTR|WDR13_uc011mme.1_5'Flank	NM_017883	NP_060353	Q9H1Z4	WDR13_HUMAN	WD repeat domain 13 protein	27						cytoplasm|nucleus				ovary(2)	2						CCACAGTTTCGGACGCAGTAT	0.647													5	40					0	0	1	0	0		A	48457143	A	A	48457143	3	1	27	1	0	0	0	0	1	0	0	0	17301	1116	39	1	86	1	WDR13	23	48457143	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	39068	48457143	106813417	8280	30631											
WDR13	64743	broad.mit.edu	37	chrX	48458825	48458825	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acagtgcttcgcgtgctacgGggccacacccgtggtgtctc	5	9	13	14	4	1	0	0	0	1	0	3	0	1	0	2	3	3	2	2	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48458825G>A	uc004dkh.1	+	6	789	c.642G>A	c.(640-642)CGG>CGA	p.R214R	WDR13_uc010nif.1_Silent_p.R92R|WDR13_uc004dki.1_Silent_p.R122R|WDR13_uc004dkj.1_Silent_p.R214R|WDR13_uc004dkk.1_Silent_p.R122R|WDR13_uc004dkl.3_Silent_p.R122R|WDR13_uc011mme.1_Silent_p.R92R	NM_017883	NP_060353	Q9H1Z4	WDR13_HUMAN	WD repeat domain 13 protein	214						cytoplasm|nucleus				ovary(2)	2						GCGTGCTACGGGGCCACACCC	0.647													12	68					0	0	1	0	0		A	48458825	A	A	48458825	2	1	27	1	0	0	0	0	0	0	0	1	17301	1219	43	4		4	WDR13	23	48458825	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1682	48458825	106811735	8281	30632											
SUV39H1	6839	broad.mit.edu	37	chrX	48559089	48559089	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgggcgtggctggggcgTccgcaccctggagaagattc	6	8	17	10	3	0	3	0	1	0	2	2	4	1	3	2	5	0	2	2	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48559089T>A	uc004dkn.2	+	3	818	c.773T>A	c.(772-774)GTC>GAC	p.V258D	SUV39H1_uc011mmf.1_Missense_Mutation_p.V269D|SUV39H1_uc011mmg.1_RNA	NM_003173	NP_003164	O43463	SUV91_HUMAN	suppressor of variegation 3-9 homolog 1	258	Mediates interaction with MECOM (By similarity).|SET.				cell cycle|cell differentiation|chromatin silencing at rDNA|interspecies interaction between organisms|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|chromosome, centromeric region|condensed nuclear chromosome|rDNA heterochromatin	chromatin binding|histone methyltransferase activity (H3-K9 specific)|protein N-terminus binding|zinc ion binding				0						GGCTGGGGCGTCCGCACCCTG	0.597													4	36					0	0	1	0	0		A	48559089	A	A	48559089	3	1	27	1	0	0	0	0	1	0	0	0	15437	1667	58	5	783	5	SUV39H1	23	48559089	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	100264	48559089	106711471	8282	30633											
KCND1	3750	broad.mit.edu	37	chrX	48826003	48826003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaaaggcctgtgggaagcGttcgccacagggctgctccc	9	6	14	12	2	0	0	0	0	0	0	2	2	1	1	3	3	2	3	3	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48826003G>A	uc004dlx.1	-	1	2249	c.676C>T	c.(676-678)CGC>TGC	p.R226C	KCND1_uc004dlw.1_5'Flank	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	226						voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						TGTGGGAAGCGTTCGCCACAG	0.607													8	23					0	0	1	0	0		A	48826003	A	A	48826003	3	1	27	1	0	0	0	0	1	0	0	0	8034	1145	40	1	1291	1	KCND1	23	48826003	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	266914	48826003	106444557	8283	30634											
GRIPAP1	56850	broad.mit.edu	37	chrX	48837853	48837853	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgcccttcttctccaggAtcctctgcccatccactgtg	5	12	6	18	0	3	0	0	0	3	0	6	1	5	1	5	1	2	0	5	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48837853A>G	uc004dly.1	-	20	1840	c.1805T>C	c.(1804-1806)ATC>ACC	p.I602T	GRIPAP1_uc004dlz.2_Missense_Mutation_p.I492T|GRIPAP1_uc004dma.2_Missense_Mutation_p.I523T	NM_020137	NP_064522	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1 isoform 1	602	Potential.					early endosome				breast(2)|kidney(1)	3						CTTCTCCAGGATCCTCTGCCC	0.627													6	23					0	0	1	0	0		G	48837853	G	G	48837853	3	3	27	1	0	0	0	0	1	0	0	0	6805	333	12	3	802	3	GRIPAP1	23	48837853	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11850	48837853	106432707	8284	30635											
GRIPAP1	56850	broad.mit.edu	37	chrX	48839424	48839424	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcgccgttcaaaccagccCttggctccatccatggaatg	10	8	9	14	2	1	0	1	0	0	0	3	1	3	1	5	2	3	2	5	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48839424C>A	uc004dly.1	-	17	1601	c.1566G>T	c.(1564-1566)AAG>AAT	p.K522N	GRIPAP1_uc004dlz.2_Missense_Mutation_p.K412N|GRIPAP1_uc004dma.2_Missense_Mutation_p.K469N	NM_020137	NP_064522	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1 isoform 1	522	Potential.					early endosome				breast(2)|kidney(1)	3						CAAACCAGCCCTTGGCTCCAT	0.577													5	74					2.7689e-08	3.04041e-08	1	1	0		A	48839424	A	A	48839424	3	1	27	1	0	0	0	0	1	0	0	0	6805	680	24	5	1053	5	GRIPAP1	23	48839424	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1571	48839424	106431136	8285	30636											
GPKOW	27238	broad.mit.edu	37	chrX	48970832	48970832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccaccatcacacggtcacCctctgccttgggaaccaggg	9	6	9	17	1	3	0	2	0	1	0	3	1	3	1	5	3	2	0	5	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48970832C>T	uc004dmr.2	-	10	1262	c.1255G>A	c.(1255-1257)GGT>AGT	p.G419S		NM_015698	NP_056513	Q92917	GPKOW_HUMAN	G patch domain and KOW motifs	419	KOW 2.					nucleus	nucleic acid binding			ovary(2)	2						ACACGGTCACCCTCTGCCTTG	0.607													4	76					0	0	1	0	0		T	48970832	T	T	48970832	3	4	27	1	0	0	0	0	1	0	0	0	6628	623	22	4	183	4	GPKOW	23	48970832	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	131408	48970832	106299728	8286	30637											
GPKOW	27238	broad.mit.edu	37	chrX	48972254	48972254	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggttcccaccttggtgttGtaatattggcctcctttgta	6	16	10	9	0	0	0	0	0	0	0	2	0	2	0	4	3	0	4	4	3	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:48972254G>A	uc004dmr.2	-	8	1138	c.1131C>T	c.(1129-1131)TAC>TAT	p.Y377Y		NM_015698	NP_056513	Q92917	GPKOW_HUMAN	G patch domain and KOW motifs	377						nucleus	nucleic acid binding			ovary(2)	2						CCTTGGTGTTGTAATATTGGC	0.567													12	31					0	0	1	0	0		A	48972254	A	A	48972254	2	1	27	1	0	0	0	0	0	0	0	1	6628	1372	48	4		4	GPKOW	23	48972254	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1422	48972254	106298306	8287	30638											
PPP1R3F	89801	broad.mit.edu	37	chrX	49127054	49127054	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgacggcggccgcaccgAccgctttgccttccagctgc	5	6	12	18	7	0	0	0	0	0	0	1	3	1	0	5	2	3	3	5	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:49127054A>G	uc004dnh.1	+	1	738	c.722A>G	c.(721-723)GAC>GGC	p.D241G	PPP1R3F_uc011mnd.1_Intron|PPP1R3F_uc004dni.2_Intron	NM_033215	NP_149992	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory (inhibitor)	241	CBM21.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	Ovarian(276;0.236)					GGCCGCACCGACCGCTTTGCC	0.711													3	24					0	0	1	0	0		G	49127054	G	G	49127054	3	3	27	1	0	0	0	0	1	0	0	0	12397	275	10	3	724	3	PPP1R3F	23	49127054	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	154800	49127054	106143506	8288	30639											
GAGE10	643832	broad.mit.edu	37	chrX	49161405	49161405	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtagagccccctgaaatgAttgggcctatgctggtgagt	9	11	13	8	0	0	4	0	3	0	1	0	4	0	4	3	2	2	2	3	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:49161405A>T	uc010nir.1	+	2	183	c.67A>T	c.(67-69)ATT>TTT	p.I23F		NM_001098413	NP_001091883	A6NGK3	GAG10_HUMAN	G antigen 10	23											0	Ovarian(276;0.236)					CCCTGAAATGATTGGGCCTAT	0.408													23	305					0	0	1	0	0		T	49161405	T	T	49161405	3	4	27	1	0	0	0	0	1	0	0	0	6201	333	12	5	69	5	GAGE10	23	49161405	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	34351	49161405	106109155	8289	30640											
GAGE12J	729396	broad.mit.edu	37	chrX	49179707	49179707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatcgacctattattggcCtagaccaagaccctatgtac	13	10	7	11	1	0	3	0	0	0	3	1	4	0	3	4	1	1	1	4	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:49179707C>T	uc010nit.2	+	2	151	c.35C>T	c.(34-36)CCT>CTT	p.P12L	GAGE12J_uc004dnl.3_Missense_Mutation_p.P12L|GAGE10_uc010nis.2_Intron|GAGE12J_uc004dnk.3_Missense_Mutation_p.P12L	NM_001098406	NP_001091876	A6NER3	GG12J_HUMAN	G antigen 12J	12											0	Ovarian(276;0.236)					TATTATTGGCCTAGACCAAGA	0.438													25	254					0	0	1	0	0		T	49179707	T	T	49179707	3	4	27	1	0	0	0	0	1	0	0	0	6202	681	24	4	37	4	GAGE12J	23	49179707	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	18302	49179707	106090853	8290	30641											
CLCN5	1184	broad.mit.edu	37	chrX	49855016	49855016	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaccccggagaaatgatcCtttgttgactgtccttactc	10	12	8	11	1	0	3	0	2	0	1	3	5	2	3	4	1	2	1	4	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:49855016C>A	uc004dos.1	+	10	2026	c.1778C>A	c.(1777-1779)CCT>CAT	p.P593H	CLCN5_uc004dor.1_Missense_Mutation_p.P663H|CLCN5_uc004doq.1_Missense_Mutation_p.P663H|CLCN5_uc004dot.1_Missense_Mutation_p.P593H	NM_000084	NP_000075	P51795	CLCN5_HUMAN	chloride channel 5 isoform b	593	CBS 1.|Cytoplasmic (By similarity).				excretion	apical part of cell|endosome membrane|Golgi membrane|integral to plasma membrane	antiporter activity|ATP binding			ovary(2)|lung(1)|central_nervous_system(1)	4	Ovarian(276;0.236)					AGAAATGATCCTTTGTTGACT	0.478													5	73					3.59834e-05	3.83694e-05	1	1	0		A	49855016	A	A	49855016	3	1	27	1	0	0	0	0	1	0	0	0	3469	681	24	5	2030	5	CLCN5	23	49855016	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	675309	49855016	105415544	8291	30642											
AKAP4	8852	broad.mit.edu	37	chrX	49958148	49958148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacagatttctcttgacagCtgagacaaagtctgagtcag	13	10	10	8	0	3	4	1	3	2	2	4	6	3	4	0	0	2	1	0	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:49958148C>T	uc004dow.1	-	5	1340	c.1216G>A	c.(1216-1218)GCT>ACT	p.A406T	AKAP4_uc004dov.1_Intron|AKAP4_uc010njp.1_Missense_Mutation_p.A228T|AKAP4_uc004dou.1_Missense_Mutation_p.A397T	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	406					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					CTCTTGACAGCTGAGACAAAG	0.453													7	111					0	0	1	0	0		T	49958148	T	T	49958148	3	4	27	1	0	0	0	0	1	0	0	0	453	797	28	2	1356	2	AKAP4	23	49958148	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	103132	49958148	105312412	8292	30643											
AKAP4	8852	broad.mit.edu	37	chrX	49958224	49958224	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcaagaatcaatcaaatcGgacacaatctccttggtgtg	14	10	8	9	1	3	1	2	0	1	1	5	2	3	2	1	2	1	1	1	2	5	1	rs140947270		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:49958224G>A	uc004dow.1	-	5	1264	c.1140C>T	c.(1138-1140)TCC>TCT	p.S380S	AKAP4_uc004dov.1_Intron|AKAP4_uc010njp.1_Silent_p.S202S|AKAP4_uc004dou.1_Silent_p.S371S	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	380					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					CAATCAAATCGGACACAATCT	0.463													13	53					0	0	1	0	0		A	49958224	A	A	49958224	2	1	27	1	0	0	0	0	0	0	0	1	453	1103	39	1		1	AKAP4	23	49958224	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	76	49958224	105312336	8293	30644											
DGKK	139189	broad.mit.edu	37	chrX	50213510	50213510	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcaagctctggacagggCtctggtatgggttctggcga	7	9	17	8	1	3	0	0	0	3	0	3	3	3	2	0	6	2	5	0	6	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:50213510C>T	uc010njr.1	-	1	228	c.168G>A	c.(166-168)GAG>GAA	p.E56E		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	56	3.|33 X 4 AA approximate tandem repeats of E-P-A-P.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					CTGGACAGGGCTCTGGTATGG	0.318													15	92					0	0	1	0	0		T	50213510	T	T	50213510	2	4	27	1	0	0	0	0	0	0	0	1	4478	796	28	2		2	DGKK	23	50213510	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	255286	50213510	105057050	8294	30645											
NUDT10	170685	broad.mit.edu	37	chrX	51075982	51075982	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggggcatggagcccgaGgaggagccgggcggtgcggc	5	2	24	10	5	0	0	0	0	0	0	0	4	0	3	2	9	3	1	2	9	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:51075982G>A	uc004dph.2	+	2	385	c.165G>A	c.(163-165)GAG>GAA	p.E55E	NUDT10_uc004dpi.3_Silent_p.E55E	NM_153183	NP_694853	Q8NFP7	NUD10_HUMAN	nudix-type motif 10	55	Nudix box.|Nudix hydrolase.					cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|metal ion binding				0	Ovarian(276;0.236)					TGGAGCCCGAGGAGGAGCCGG	0.687													4	34					0	0	1	0	0		A	51075982	A	A	51075982	2	1	27	1	0	0	0	0	0	0	0	1	10745	991	35	4		4	NUDT10	23	51075982	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	862472	51075982	104194578	8295	30646											
MAGED1	9500	broad.mit.edu	37	chrX	51639598	51639598	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgcaccagttccagtgAccactcagaacccacctggc	9	7	9	16	0	2	2	1	1	1	1	3	2	3	2	5	2	2	2	5	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:51639598A>G	uc004dpm.2	+	4	942	c.847A>G	c.(847-849)ACC>GCC	p.T283A	MAGED1_uc004dpn.2_Missense_Mutation_p.T339A|MAGED1_uc004dpo.2_Missense_Mutation_p.T283A	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	283	Pro-rich.				apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					AGTTCCAGTGACCACTCAGAA	0.587										Multiple Myeloma(10;0.10)			9	34					0	0	1	0	0		G	51639598	G	G	51639598	3	3	27	1	0	0	0	0	1	0	0	0	9201	275	10	3	1029	3	MAGED1	23	51639598	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	563616	51639598	103630962	8296	30647											
KDM5C	8242	broad.mit.edu	37	chrX	53244983	53244983	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggctgggtccttacaaactgGgcattgctgtggttcctccg	5	12	13	11	1	0	0	0	0	0	0	3	0	3	0	3	4	3	4	3	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:53244983G>A	uc004drz.2	-	7	1490	c.957C>T	c.(955-957)GCC>GCT	p.A319A	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Silent_p.A252A|KDM5C_uc004dsa.2_Silent_p.A318A	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	319					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						TTACAAACTGGGCATTGCTGT	0.532			N|F|S		clear cell renal carcinoma								10	75					0	0	1	0	0		A	53244983	A	A	53244983	2	1	27	1	0	0	0	0	0	0	0	1	8151	1219	43	4		4	KDM5C	23	53244983	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1605385	53244983	102025577	8297	30648											
KDM5C	8242	broad.mit.edu	37	chrX	53247567	53247567	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccaagtagttcagtttcActctcgtctgggcctgaaga	8	12	11	10	1	4	2	2	1	2	1	6	2	5	2	2	2	0	3	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:53247567A>G	uc004drz.2	-	3	775	c.242T>C	c.(241-243)GTG>GCG	p.V81A	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Intron|KDM5C_uc004dsa.2_Missense_Mutation_p.V81A	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	81	ARID.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						GTTCAGTTTCACTCTCGTCTG	0.507			N|F|S		clear cell renal carcinoma								4	60					0	0	1	0	0		G	53247567	G	G	53247567	3	3	27	1	0	0	0	0	1	0	0	0	8151	159	6	3	4634	3	KDM5C	23	53247567	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2584	53247567	102022993	8298	30649											
IQSEC2	23096	broad.mit.edu	37	chrX	53268436	53268436	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaagactgacggaaactgTacgtcaccaagatcttcttc	13	9	9	10	2	3	3	1	1	2	2	4	5	3	5	1	2	2	1	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:53268436T>C	uc004dsd.2	-	11	3257	c.3056A>G	c.(3055-3057)TAC>TGC	p.Y1019C	IQSEC2_uc004dsc.2_Missense_Mutation_p.Y814C	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	1009	PH.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						ACGGAAACTGTACGTCACCAA	0.507											OREG0019800	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	64					0	0	1	0	0		C	53268436	C	C	53268436	3	2	27	1	0	0	0	0	1	0	0	0	7834	1638	57	3	1430	3	IQSEC2	23	53268436	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	20869	53268436	102002124	8299	30650											
IQSEC2	23096	broad.mit.edu	37	chrX	53279871	53279871	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttgtgcttcagggtcccAtgggggctgcagccatcagc	5	9	13	14	0	2	0	2	0	0	0	3	0	3	0	3	3	4	3	3	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:53279871A>G	uc004dsd.2	-	5	2088	c.1887T>C	c.(1885-1887)CAT>CAC	p.H629H	IQSEC2_uc004dsc.2_Silent_p.H424H	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	619	Pro-rich.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						TCAGGGTCCCATGGGGGCTGC	0.507													6	33					0	0	1	0	0		G	53279871	G	G	53279871	2	3	27	1	0	0	0	0	0	0	0	1	7834	214	8	3		3	IQSEC2	23	53279871	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	11435	53279871	101990689	8300	30651											
IQSEC2	23096	broad.mit.edu	37	chrX	53280312	53280312	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcagacatgggccctgacggGtggcagttcagggcttcgtc	6	9	15	11	2	2	2	2	1	0	1	4	2	2	2	1	4	0	3	1	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:53280312G>A	uc004dsd.2	-	5	1647	c.1446C>T	c.(1444-1446)CAC>CAT	p.H482H	IQSEC2_uc004dsc.2_Silent_p.H277H	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	472					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						GCCCTGACGGGTGGCAGTTCA	0.438													5	72					0	0	1	0	0		A	53280312	A	A	53280312	2	1	27	1	0	0	0	0	0	0	0	1	7834	1252	44	4		4	IQSEC2	23	53280312	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	441	53280312	101990248	8301	30652											
IQSEC2	23096	broad.mit.edu	37	chrX	53285127	53285127	+	Frame_Shift_Del	DEL	G	-	-																															agggaaggcccactccagcaGgggggccccccatgtggctg																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:53285127delG	uc004dsd.2	-	3	1055	c.854delC	c.(853-855)CCTfs	p.P285fs	IQSEC2_uc004dsc.2_Frame_Shift_Del_p.P80fs	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	275					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						CACTCCAGCAGGGGGGCCCCC	0.687													7	12	---	---	---	---						.	-	53285127	-	-	53285127	7	5	27	1	0	1	0	1	0	0	0	0	7834	1000	35	0	3664	0	IQSEC2	23	53285127	Frame_Shift_Del	DEL	G	TCGA-BR-6452-01A-12D-1800-08	4815	53285127	101985433	8302	30653											
SMC1A	8243	broad.mit.edu	37	chrX	53440054	53440054	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagctgtacctgagcccgtActacctcatccttcaggcgc	7	9	9	16	2	2	1	2	1	0	0	3	1	3	1	4	1	5	4	4	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:53440054A>T	uc004dsg.2	-	5	719	c.650T>A	c.(649-651)GTA>GAA	p.V217E	SMC1A_uc011moe.1_Missense_Mutation_p.V195E|SMC1A_uc011mof.1_Intron|SMC1A_uc004dsi.1_Missense_Mutation_p.V83E	NM_006306	NP_006297	Q14683	SMC1A_HUMAN	structural maintenance of chromosomes 1A	217	Potential.				cell cycle checkpoint|cell division|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic sister chromatid cohesion|mitotic spindle organization|negative regulation of DNA endoreduplication|nuclear mRNA splicing, via spliceosome|response to radiation|signal transduction in response to DNA damage	cohesin core heterodimer|condensed chromosome kinetochore|condensed nuclear chromosome|cytoplasm|meiotic cohesin complex|nucleoplasm	ATP binding|chromatin binding|microtubule motor activity|protein heterodimerization activity			ovary(5)|central_nervous_system(1)	6						CTGAGCCCGTACTACCTCATC	0.488													8	65					0	0	1	0	0		T	53440054	T	T	53440054	3	4	27	1	0	0	0	0	1	0	0	0	14806	391	14	5	3135	5	SMC1A	23	53440054	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	154927	53440054	101830506	8303	30654											
HUWE1	10075	broad.mit.edu	37	chrX	53607904	53607904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaggacacgaaggatgtagTtgatctcccgagagccgagg	12	6	14	9	3	1	2	0	1	1	1	2	7	1	4	2	3	1	2	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:53607904T>C	uc004dsp.2	-	43	6005	c.5603A>G	c.(5602-5604)AAC>AGC	p.N1868S	HUWE1_uc004dsn.2_Missense_Mutation_p.N693S	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	1868					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						AAGGATGTAGTTGATCTCCCG	0.552													5	30					0	0	1	0	0		C	53607904	C	C	53607904	3	2	27	1	0	0	0	0	1	0	0	0	7477	1725	60	3	7689	3	HUWE1	23	53607904	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	167850	53607904	101662656	8304	30655											
HUWE1	10075	broad.mit.edu	37	chrX	53654765	53654765	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggttggtgataaggtcAaccactctgacggctctggt	8	11	12	10	1	3	2	1	2	2	0	4	2	4	2	2	5	1	2	2	5	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:53654765A>G	uc004dsp.2	-	16	1710	c.1308T>C	c.(1306-1308)GTT>GTC	p.V436V		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	436					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						TGATAAGGTCAACCACTCTGA	0.398													3	39					0	0	1	0	0		G	53654765	G	G	53654765	2	3	27	1	0	0	0	0	0	0	0	1	7477	117	5	3		3	HUWE1	23	53654765	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	46861	53654765	101615795	8305	30656											
PHF8	23133	broad.mit.edu	37	chrX	54014280	54014280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctgaatccaagtcaaattCgtcttccatcacctgttctg	10	14	5	12	1	5	1	2	1	3	0	8	1	7	1	3	0	0	1	3	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:54014280C>T	uc004dsu.2	-	15	2009	c.1936G>A	c.(1936-1938)GAA>AAA	p.E646K	PHF8_uc004dst.2_Missense_Mutation_p.E610K|PHF8_uc004dsv.2_Missense_Mutation_p.E476K|PHF8_uc004dsw.2_Missense_Mutation_p.E509K|PHF8_uc004dsx.2_Missense_Mutation_p.E374K|PHF8_uc004dsy.2_Missense_Mutation_p.E610K	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	646					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						AAGTCAAATTCGTCTTCCATC	0.453													4	53					0	0	1	0	0		T	54014280	T	T	54014280	3	4	27	1	0	0	0	0	1	0	0	0	11859	893	31	1	1448	1	PHF8	23	54014280	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	359515	54014280	101256280	8306	30657											
PHF8	23133	broad.mit.edu	37	chrX	54019239	54019239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caagtctggtgagtcgtcatCtgagtcattcaagcaggcac	10	10	11	10	1	5	2	3	2	2	0	6	2	5	2	0	2	1	2	0	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:54019239C>T	uc004dsu.2	-	14	1841	c.1768G>A	c.(1768-1770)GAT>AAT	p.D590N	PHF8_uc004dst.2_Missense_Mutation_p.D554N|PHF8_uc004dsv.2_Missense_Mutation_p.D420N|PHF8_uc004dsw.2_Missense_Mutation_p.D453N|PHF8_uc004dsx.2_Missense_Mutation_p.D318N|PHF8_uc004dsy.2_Missense_Mutation_p.D554N	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	590					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						GAGTCGTCATCTGAGTCATTC	0.522													4	35					0	0	1	0	0		T	54019239	T	T	54019239	3	4	27	1	0	0	0	0	1	0	0	0	11859	913	32	4	1620	4	PHF8	23	54019239	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4959	54019239	101251321	8307	30658											
PHF8	23133	broad.mit.edu	37	chrX	54037577	54037577	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggaatgaaaagtgtctgTccttgcttcacggaacactt	10	12	11	8	1	2	1	1	1	1	0	3	3	3	3	1	2	2	1	1	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:54037577T>C	uc004dsu.2	-	8	1105	c.1032A>G	c.(1030-1032)GGA>GGG	p.G344G	PHF8_uc004dst.2_Silent_p.G308G|PHF8_uc004dsv.2_Silent_p.G174G|PHF8_uc004dsw.2_Silent_p.G308G|PHF8_uc004dsx.2_Silent_p.G72G|PHF8_uc004dsy.2_Silent_p.G308G	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	344	JmjC.				brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						AAAGTGTCTGTCCTTGCTTCA	0.498													9	55					0	0	1	0	0		C	54037577	C	C	54037577	2	2	27	1	0	0	0	0	0	0	0	1	11859	1654	58	3		3	PHF8	23	54037577	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	18338	54037577	101232983	8308	30659											
FGD1	2245	broad.mit.edu	37	chrX	54491892	54491892	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacacactcactttgggcaTccttgctgtccggggagcca	7	9	11	14	1	1	0	1	0	0	0	3	1	3	1	3	3	2	3	3	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:54491892T>C	uc004dtg.2	-	8	2362	c.1628A>G	c.(1627-1629)GAT>GGT	p.D543G	FGD1_uc011moi.1_Missense_Mutation_p.D301G	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	543	DH.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						ACTTTGGGCATCCTTGCTGTC	0.562													4	58					0	0	1	0	0		C	54491892	C	C	54491892	3	2	27	1	0	0	0	0	1	0	0	0	5846	1435	50	3	1301	3	FGD1	23	54491892	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	454315	54491892	100778668	8309	30660											
ITIH5L	347365	broad.mit.edu	37	chrX	54784875	54784875	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctgggcaaccaaaggcCttctggctgttgttggtggc	5	11	13	12	0	1	0	0	0	1	0	2	0	2	0	4	5	1	4	4	5	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:54784875C>A	uc004dtj.2	-	8	1662	c.1632G>T	c.(1630-1632)AAG>AAT	p.K544N		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	544					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						AACCAAAGGCCTTCTGGCTGT	0.617													3	20					0.115264	0.116483	1	1	0		A	54784875	A	A	54784875	3	1	27	1	0	0	0	0	1	0	0	0	7924	680	24	5	2333	5	ITIH5L	23	54784875	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	292983	54784875	100485685	8310	30661											
TRO	7216	broad.mit.edu	37	chrX	54955368	54955368	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggcttcagcgatggtgcTagtattagcttcaatggtgc	7	13	13	8	1	2	0	2	0	0	0	2	1	2	0	0	3	4	5	0	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:54955368T>C	uc004dtq.2	+	12	2318	c.2211T>C	c.(2209-2211)GCT>GCC	p.A737A	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Silent_p.A268A|TRO_uc004dtw.2_Silent_p.A340A|TRO_uc004dtx.2_Silent_p.A120A	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	737					embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GCGATGGTGCTAGTATTAGCT	0.537													5	33					0	0	1	0	0		C	54955368	C	C	54955368	2	2	27	1	0	0	0	0	0	0	0	1	16600	1509	53	3		3	TRO	23	54955368	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	170493	54955368	100315192	8311	30662											
TRO	7216	broad.mit.edu	37	chrX	54955548	54955548	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcattagctttggttgTgcacacagcaccagcactag	10	9	10	12	0	0	0	0	0	0	0	0	0	0	0	2	1	5	6	2	1	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:54955548T>C	uc004dtq.2	+	12	2498	c.2391T>C	c.(2389-2391)TGT>TGC	p.C797C	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Silent_p.C328C|TRO_uc004dtw.2_Silent_p.C400C|TRO_uc004dtx.2_Silent_p.C180C	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	797	62 X 10 AA approximate tandem repeats.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GCTTTGGTTGTGCACACAGCA	0.527													7	91					0	0	1	0	0		C	54955548	C	C	54955548	2	2	27	1	0	0	0	0	0	0	0	1	16600	1702	59	3		3	TRO	23	54955548	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	180	54955548	100315012	8312	30663											
KLF8	11279	broad.mit.edu	37	chrX	56276693	56276693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aactcataaacaacttggagGtccaacttaattcagaaggt	16	10	7	8	0	2	1	2	0	0	1	3	2	3	2	1	3	4	0	1	3	7	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:56276693G>A	uc004dur.2	+	2	983	c.37G>A	c.(37-39)GTC>ATC	p.V13I	KLF8_uc010nkg.2_Intron|KLF8_uc011mop.1_Missense_Mutation_p.V13I|KLF8_uc010nkh.2_RNA	NM_007250	NP_009181	O95600	KLF8_HUMAN	Kruppel-like factor 8 isoform 1	13					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CAACTTGGAGGTCCAACTTAA	0.353													9	140					0	0	1	0	0		A	56276693	A	A	56276693	3	1	27	1	0	0	0	0	1	0	0	0	8368	1261	44	4	43	4	KLF8	23	56276693	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1321145	56276693	98993867	8313	30664											
FAAH2	158584	broad.mit.edu	37	chrX	57367813	57367813	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggtatatttggacacaaGccttctccaggtaatgttaa	13	13	8	7	0	1	0	0	0	1	0	2	1	1	1	2	3	1	3	2	3	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:57367813G>A	uc004dvc.2	+	5	881	c.732G>A	c.(730-732)AAG>AAA	p.K244K		NM_174912	NP_777572	Q6GMR7	FAAH2_HUMAN	fatty acid amide hydrolase 2	244						integral to membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|hydrolase activity			ovary(3)	3						TTGGACACAAGCCTTCTCCAG	0.413										HNSCC(52;0.14)			31	313					0	0	1	0	0		A	57367813	A	A	57367813	2	1	27	1	0	0	0	0	0	0	0	1	5365	962	34	2		2	FAAH2	23	57367813	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1091120	57367813	97902747	8314	30665											
ZXDA	7789	broad.mit.edu	37	chrX	57935777	57935777	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcgcacacctcacatttgaAcgagttctcctgctcatggc	8	11	7	15	2	3	1	2	1	1	0	5	2	3	1	2	1	2	3	2	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:57935777A>T	uc004dve.2	-	1	1291	c.1078T>A	c.(1078-1080)TTC>ATC	p.F360I		NM_007156	NP_009087	P98168	ZXDA_HUMAN	zinc finger, X-linked, duplicated A	360	C2H2-type 4.|Required for interaction with ZXDC.				positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						TCACATTTGAACGAGTTCTCC	0.627													18	66					0	0	1	0	0		T	57935777	T	T	57935777	3	4	27	1	0	0	0	0	1	0	0	0	18275	43	2	5	1325	5	ZXDA	23	57935777	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	567964	57935777	97334783	8315	30666											
SPIN4	139886	broad.mit.edu	37	chrX	62570336	62570336	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaacacatgctccactgcCttgccaatcagggaatctgc	11	9	7	14	0	3	0	2	0	1	0	4	1	4	1	3	1	5	1	3	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:62570336C>A	uc004dvf.2	-	1	883	c.363G>T	c.(361-363)AAG>AAT	p.K121N		NM_001012968	NP_001012986	Q56A73	SPIN4_HUMAN	spindlin family, member 4	121					gamete generation					ovary(1)|lung(1)	2						GCTCCACTGCCTTGCCAATCA	0.498													5	88					5.9392e-07	6.46363e-07	1	1	0		A	62570336	A	A	62570336	3	1	27	1	0	0	0	0	1	0	0	0	15081	680	24	5	390	5	SPIN4	23	62570336	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	4634559	62570336	92700224	8316	30667											
ARHGEF9	23229	broad.mit.edu	37	chrX	62893983	62893983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attctctaaacgtcgcttgcGttcgttgatctgctgagtca	7	15	9	10	4	3	2	1	2	2	0	6	2	3	2	0	0	3	4	0	0	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:62893983G>A	uc004dvl.2	-	6	1698	c.859C>T	c.(859-861)CGC>TGC	p.R287C	ARHGEF9_uc004dvj.1_Missense_Mutation_p.R176C|ARHGEF9_uc004dvk.1_Missense_Mutation_p.R149C|ARHGEF9_uc011mos.1_Missense_Mutation_p.R266C|ARHGEF9_uc004dvm.1_Missense_Mutation_p.R266C|ARHGEF9_uc011mot.1_Missense_Mutation_p.R234C|ARHGEF9_uc004dvn.2_Missense_Mutation_p.R294C	NM_015185	NP_056000	O43307	ARHG9_HUMAN	Cdc42 guanine exchange factor 9	287	DH.				apoptosis|induction of apoptosis by extracellular signals|ion transmembrane transport|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(5)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	8						CGTCGCTTGCGTTCGTTGATC	0.458													17	72					0	0	1	0	0		A	62893983	A	A	62893983	3	1	27	1	0	0	0	0	1	0	0	0	912	1145	40	1	711	1	ARHGEF9	23	62893983	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	323647	62893983	92376577	8317	30668											
ARHGEF9	23229	broad.mit.edu	37	chrX	62944564	62944564	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgatcccatactgcctcagCactaacgatggaatctccag	11	9	8	13	1	2	1	1	1	1	0	4	3	3	2	3	1	4	1	3	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:62944564C>G	uc004dvl.2	-	2	876	c.37G>C	c.(37-39)GCT>CCT	p.A13P	ARHGEF9_uc004dvj.1_Intron|ARHGEF9_uc004dvk.1_5'UTR|ARHGEF9_uc011mos.1_5'UTR|ARHGEF9_uc004dvm.1_5'UTR|ARHGEF9_uc011mot.1_Intron|ARHGEF9_uc004dvn.2_Missense_Mutation_p.A20P	NM_015185	NP_056000	O43307	ARHG9_HUMAN	Cdc42 guanine exchange factor 9	13	SH3.				apoptosis|induction of apoptosis by extracellular signals|ion transmembrane transport|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(5)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	8						ACTGCCTCAGCACTAACGATG	0.512													5	78					0	0	1	0	0		G	62944564	G	G	62944564	3	3	27	1	0	0	0	0	1	0	0	0	912	710	25	5	1549	5	ARHGEF9	23	62944564	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	50581	62944564	92325996	8318	30669											
MTMR8	55613	broad.mit.edu	37	chrX	63445207	63445207	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacagcagtgaaaagtggCgtctgtgccttgacatccaa	11	9	11	10	1	1	3	0	3	1	0	2	3	2	3	2	1	2	1	2	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:63445207C>T	uc011mou.1	-	10	1517	c.1449G>A	c.(1447-1449)ACG>ACA	p.T483T	ASB12_uc004dvp.1_Silent_p.T99T|ASB12_uc004dvq.1_Silent_p.T108T|ASB12_uc004dvr.1_Silent_p.T108T	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	Error:Variant_position_missing_in_Q96EF0_after_alignment						nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						TGAAAAGTGGCGTCTGTGCCT	0.522													8	19					0	0	1	0	0		T	63445207	T	T	63445207	2	4	27	1	0	0	0	0	0	0	0	1	9967	755	27	1		1	MTMR8	23	63445207	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	500643	63445207	91825353	8319	30670											
MTMR8	55613	broad.mit.edu	37	chrX	63445479	63445479	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcaggagggagaagaTcttggtgatgtccatgaggt	9	9	18	5	0	1	4	0	2	1	2	2	6	2	5	1	5	1	2	1	5	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:63445479T>C	uc011mou.1	-	10	1245	c.1177A>G	c.(1177-1179)ATC>GTC	p.I393V	ASB12_uc004dvp.1_Missense_Mutation_p.I9V|ASB12_uc004dvq.1_Missense_Mutation_p.I18V|ASB12_uc004dvr.1_Missense_Mutation_p.I18V	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	Error:Variant_position_missing_in_Q96EF0_after_alignment						nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						AGGGAGAAGATCTTGGTGATG	0.478													5	17					0	0	1	0	0		C	63445479	C	C	63445479	3	2	27	1	0	0	0	0	1	0	0	0	9967	1435	50	3		3	MTMR8	23	63445479	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	272	63445479	91825081	8320	30671											
ZC3H12B	340554	broad.mit.edu	37	chrX	64722378	64722378	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactattcctcttacaacaaCgtgtatttggctgtagctga	11	14	7	9	1	1	1	0	1	1	0	2	1	2	1	1	1	5	4	1	1	7	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:64722378C>T	uc010nko.2	+	5	1776	c.1767C>T	c.(1765-1767)AAC>AAT	p.N589N		NM_001010888	NP_001010888	Q5HYM0	ZC12B_HUMAN	zinc finger CCCH-type containing 12B	589							endonuclease activity|nucleic acid binding|zinc ion binding			lung(1)|kidney(1)|pancreas(1)	3						CTTACAACAACGTGTATTTGG	0.507													4	32					0	0	1	0	0		T	64722378	T	T	64722378	2	4	27	1	0	0	0	0	0	0	0	1	17587	535	19	1		1	ZC3H12B	23	64722378	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1276899	64722378	90548182	8321	30672											
MSN	4478	broad.mit.edu	37	chrX	64951829	64951829	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccctgggtctcaacatCtatgagcagaatgacaggta	12	9	11	9	0	2	3	1	2	2	1	3	4	2	3	1	2	3	2	1	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:64951829C>A	uc004dwf.2	+	6	879	c.681C>A	c.(679-681)ATC>ATA	p.I227I		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	227	FERM.				leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						GTCTCAACATCTATGAGCAGA	0.458			T	ALK	ALCL								10	89					0.000442599	0.000464839	1	1	0		A	64951829	A	A	64951829	2	1	27	1	0	0	0	0	0	0	0	1	9903	903	32	5		5	MSN	23	64951829	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	229451	64951829	90318731	8322	30673											
MSN	4478	broad.mit.edu	37	chrX	64957057	64957057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaactggaagaacagaccCgtagggctctggaacttgag	13	6	13	9	1	1	4	0	1	1	3	1	6	1	6	1	3	3	2	1	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:64957057C>T	uc004dwf.2	+	10	1306	c.1108C>T	c.(1108-1110)CGT>TGT	p.R370C		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	370					leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						AGAACAGACCCGTAGGGCTCT	0.537			T	ALK	ALCL								5	13					0	0	1	0	0		T	64957057	T	T	64957057	3	4	27	1	0	0	0	0	1	0	0	0	9903	652	23	1	1146	1	MSN	23	64957057	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	5228	64957057	90313503	8323	30674											
OPHN1	4983	broad.mit.edu	37	chrX	67502906	67502906	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtgacttaccatcatcaTcctctcattttctacctcgt	8	17	3	13	1	4	1	3	1	2	0	7	1	5	1	3	0	2	0	3	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:67502906T>A	uc004dww.3	-	4	598	c.304A>T	c.(304-306)ATG>TTG	p.M102L	OPHN1_uc011mpg.1_Missense_Mutation_p.M102L|OPHN1_uc004dwx.2_Missense_Mutation_p.M102L	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	102					axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						ACCATCATCATCCTCTCATTT	0.383													3	40					0	0	1	0	0		A	67502906	A	A	67502906	3	1	27	1	0	0	0	0	1	0	0	0	10894	1435	50	5	2188	5	OPHN1	23	67502906	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2545849	67502906	87767654	8324	30675											
YIPF6	286451	broad.mit.edu	37	chrX	67751834	67751834	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgattctcacctttactcCtcagtaaatcaggaatggga	12	12	8	9	0	3	1	3	1	1	0	5	4	4	3	2	2	1	1	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:67751834C>A	uc004dwy.2	+	7	727	c.704C>A	c.(703-705)CCT>CAT	p.P235H	YIPF6_uc011mph.1_Missense_Mutation_p.P192H|uc004dwz.2_5'Flank	NM_173834	NP_776195	Q96EC8	YIPF6_HUMAN	Yip1 domain family, member 6	235						endoplasmic reticulum|integral to membrane					0						ACCTTTACTCCTCAGTAAATC	0.418													5	39					0.000602214	0.000630257	1	1	0		A	67751834	A	A	67751834	3	1	27	1	0	0	0	0	1	0	0	0	17508	681	24	5	730	5	YIPF6	23	67751834	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	248928	67751834	87518726	8325	30676											
STARD8	9754	broad.mit.edu	37	chrX	67941915	67941915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagcaaacgcagcctcattgGcaggccaggccctagggacc	10	4	13	14	1	1	0	1	0	0	0	1	2	1	1	4	4	3	3	4	4	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:67941915G>A	uc004dxa.2	+	10	2618	c.2246G>A	c.(2245-2247)GGC>GAC	p.G749D	STARD8_uc004dxb.2_Missense_Mutation_p.G829D|STARD8_uc004dxc.3_Missense_Mutation_p.G749D	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	749	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						AGCCTCATTGGCAGGCCAGGC	0.562													6	27					0	0	1	0	0		A	67941915	A	A	67941915	3	1	27	1	0	0	0	0	1	0	0	0	15288	1203	42	2	2528	2	STARD8	23	67941915	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	190081	67941915	87328645	8326	30677											
EFNB1	1947	broad.mit.edu	37	chrX	68060180	68060180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccaaggtggcattgttcGcggctgtcggtgccggttgc	4	11	15	11	4	0	0	0	0	0	0	3	0	1	0	2	5	2	4	2	5	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:68060180G>A	uc004dxd.3	+	5	1504	c.724G>A	c.(724-726)GCG>ACG	p.A242T	EFNB1_uc004dxe.2_Missense_Mutation_p.A242T	NM_004429	NP_004420	P98172	EFNB1_HUMAN	ephrin-B1 precursor	242	Helical; (Potential).				cell adhesion|cell-cell signaling	integral to plasma membrane|soluble fraction|synapse	ephrin receptor binding				0						GGCATTGTTCGCGGCTGTCGG	0.582													4	44					0	0	1	0	0		A	68060180	A	A	68060180	3	1	27	1	0	0	0	0	1	0	0	0	4961	1087	38	1	742	1	EFNB1	23	68060180	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	118265	68060180	87210380	8327	30678											
EFNB1	1947	broad.mit.edu	37	chrX	68060449	68060449	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gggcaccctgtctacatcgtCcaagagatgccgccccagag	9	6	11	15	2	1	2	0	0	1	2	3	3	2	2	5	1	2	1	5	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:68060449C>T	uc004dxd.3	+	5	1773	c.993C>T	c.(991-993)GTC>GTT	p.V331V	EFNB1_uc004dxe.2_Silent_p.V331V	NM_004429	NP_004420	P98172	EFNB1_HUMAN	ephrin-B1 precursor	331	Cytoplasmic (Potential).				cell adhesion|cell-cell signaling	integral to plasma membrane|soluble fraction|synapse	ephrin receptor binding				0						TCTACATCGTCCAAGAGATGC	0.612													3	21					0	0	1	0	0		T	68060449	T	T	68060449	2	4	27	1	0	0	0	0	0	0	0	1	4961	842	30	4		4	EFNB1	23	68060449	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	269	68060449	87210111	8328	30679											
PJA1	64219	broad.mit.edu	37	chrX	68381278	68381278	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccacctcccccttcacatAttcgctacagcagatggggc	8	9	8	16	1	1	1	1	0	0	1	3	1	2	1	4	2	3	2	4	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:68381278A>G	uc004dxh.2	-	2	2090	c.1804T>C	c.(1804-1806)TAT>CAT	p.Y602H	PJA1_uc011mpi.1_Missense_Mutation_p.Y320H|PJA1_uc004dxg.2_Missense_Mutation_p.Y414H|PJA1_uc004dxi.2_Missense_Mutation_p.Y547H	NM_145119	NP_660095	Q8NG27	PJA1_HUMAN	praja 1 isoform a	602	RING-type.						zinc ion binding				0						CCCTTCACATATTCGCTACAG	0.567													3	63					0	0	1	0	0		G	68381278	G	G	68381278	3	3	27	1	0	0	0	0	1	0	0	0	11980	449	16	3	131	3	PJA1	23	68381278	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	320829	68381278	86889282	8329	30680											
PJA1	64219	broad.mit.edu	37	chrX	68381999	68381999	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcactgtcagagtcttcgtcGcagtatttgtagtaatcatc	9	15	8	9	2	4	1	3	0	1	1	7	1	4	1	0	0	0	4	0	0	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:68381999G>T	uc004dxh.2	-	2	1369	c.1083C>A	c.(1081-1083)TGC>TGA	p.C361*	PJA1_uc011mpi.1_Nonsense_Mutation_p.C79*|PJA1_uc004dxg.2_Nonsense_Mutation_p.C173*|PJA1_uc004dxi.2_Nonsense_Mutation_p.C306*	NM_145119	NP_660095	Q8NG27	PJA1_HUMAN	praja 1 isoform a	361							zinc ion binding				0						AGTCTTCGTCGCAGTATTTGT	0.537													7	76					5.18039e-06	5.59131e-06	1	1	0		T	68381999	T	T	68381999	4	4	27	1	0	0	0	0	0	1	0	0	11980	1079	38	5	852	5	PJA1	23	68381999	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	721	68381999	86888561	8330	30681											
EDA	1896	broad.mit.edu	37	chrX	68836169	68836169	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatgggctacccggaggTggagcgcagggaactcctgc	7	5	17	12	2	0	0	0	0	0	0	1	3	1	3	3	6	4	2	3	6	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:68836169T>C	uc004dxs.2	+	1	259	c.17T>C	c.(16-18)GTG>GCG	p.V6A	EDA_uc004dxr.2_Missense_Mutation_p.V6A|EDA_uc011mpj.1_Missense_Mutation_p.V6A|EDA_uc004dxn.1_Missense_Mutation_p.V6A|EDA_uc004dxm.1_Missense_Mutation_p.V6A|EDA_uc004dxp.1_Missense_Mutation_p.V6A|EDA_uc004dxq.1_Missense_Mutation_p.V6A|EDA_uc004dxl.1_Missense_Mutation_p.V6A	NM_001399	NP_001390	Q92838	EDA_HUMAN	ectodysplasin A isoform EDA-A1	6	Cytoplasmic (Potential).				cell differentiation|ectoderm development|immune response|positive regulation of NF-kappaB transcription factor activity|signal transduction	collagen|cytoskeleton|membrane fraction	tumor necrosis factor receptor binding			ovary(2)|large_intestine(1)	3						TACCCGGAGGTGGAGCGCAGG	0.726													3	16					0	0	1	0	0		C	68836169	C	C	68836169	3	2	27	1	0	0	0	0	1	0	0	0	4909	1696	59	3	19	3	EDA	23	68836169	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	454170	68836169	86434391	8331	30682											
PDZD11	51248	broad.mit.edu	37	chrX	69507149	69507149	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaaagaagcgcacacgcAtgctgatttcacgagctgtc	12	7	12	10	3	1	2	1	1	0	1	2	4	1	3	0	1	3	4	0	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:69507149A>G	uc004dyd.1	-	6	467	c.365T>C	c.(364-366)ATG>ACG	p.M122T	KIF4A_uc004dyg.2_5'Flank|KIF4A_uc010nkw.2_5'Flank|PDZD11_uc004dye.1_Missense_Mutation_p.M154T|KIF4A_uc004dyf.1_5'Flank	NM_016484	NP_057568	Q5EBL8	PDZ11_HUMAN	PDZ domain containing 11	122	PDZ.					basolateral plasma membrane|cytosol|extracellular region	protein C-terminus binding				0						GCGCACACGCATGCTGATTTC	0.443													3	58					0	0	1	0	0		G	69507149	G	G	69507149	3	3	27	1	0	0	0	0	1	0	0	0	11719	217	8	3	65	3	PDZD11	23	69507149	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	670980	69507149	85763411	8332	30683											
KIF4A	24137	broad.mit.edu	37	chrX	69639532	69639532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atagcttgggcactgttgaaCggacccaggattccgaaggc	10	8	13	10	2	0	1	0	1	0	0	1	4	1	3	2	4	2	3	2	4	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:69639532C>T	uc004dyg.2	+	30	3521	c.3394C>T	c.(3394-3396)CGG>TGG	p.R1132W	KIF4A_uc010nkw.2_Missense_Mutation_p.R1132W	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	1132	Globular.|Interaction with PRC1.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						CACTGTTGAACGGACCCAGGA	0.483													14	95					0	0	1	0	0		T	69639532	T	T	69639532	3	4	27	1	0	0	0	0	1	0	0	0	8319	527	19	1	3508	1	KIF4A	23	69639532	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	132383	69639532	85631028	8333	30684											
KIF4A	24137	broad.mit.edu	37	chrX	69639929	69639929	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagatcctgaaagagatgtgCgatgtggagcaggtgctgtc	10	10	15	6	1	0	3	0	1	0	2	2	6	1	4	1	2	3	2	1	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:69639929C>T	uc004dyg.2	+	31	3640	c.3513C>T	c.(3511-3513)TGC>TGT	p.C1171C	KIF4A_uc010nkw.2_Silent_p.C1171C	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	1171	Globular.|Interaction with PRC1.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						AAGAGATGTGCGATGTGGAGC	0.502													14	48					0	0	1	0	0		T	69639929	T	T	69639929	2	4	27	1	0	0	0	0	0	0	0	1	8319	776	27	1		1	KIF4A	23	69639929	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	397	69639929	85630631	8334	30685											
GDPD2	54857	broad.mit.edu	37	chrX	69647035	69647035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcggaagacagctgaatgcGgagctactgtgtttgagact	10	10	14	7	2	0	3	0	2	0	2	0	6	0	5	0	2	5	3	0	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:69647035G>A	uc004dyh.2	+	9	1002	c.751G>A	c.(751-753)GGA>AGA	p.G251R	GDPD2_uc010nkx.1_Missense_Mutation_p.G251R|GDPD2_uc010nky.1_Missense_Mutation_p.G37R|GDPD2_uc011mpk.1_Missense_Mutation_p.G251R|GDPD2_uc011mpl.1_Missense_Mutation_p.G172R|GDPD2_uc011mpm.1_Missense_Mutation_p.G172R	NM_017711	NP_060181	Q9HCC8	GDPD2_HUMAN	osteoblast differentiation promoting factor	251	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol inositolphosphodiesterase activity|metal ion binding			ovary(2)	2	Renal(35;0.156)					AGCTGAATGCGGAGCTACTGT	0.572													11	79					0	0	1	0	0		A	69647035	A	A	69647035	3	1	27	1	0	0	0	0	1	0	0	0	6339	1117	39	1	781	1	GDPD2	23	69647035	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7106	69647035	85623525	8335	30686											
GDPD2	54857	broad.mit.edu	37	chrX	69649837	69649837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgcgccagatatatggaCgtcagggaggcaacagaacg	14	5	14	8	3	1	2	1	0	0	2	1	5	1	4	1	3	3	1	1	3	5	2	rs35552527	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:69649837C>T	uc004dyh.2	+	12	1482	c.1231C>T	c.(1231-1233)CGT>TGT	p.R411C	GDPD2_uc010nky.1_Silent_p.D263D|GDPD2_uc011mpk.1_Missense_Mutation_p.R411C|GDPD2_uc011mpl.1_Missense_Mutation_p.R332C|GDPD2_uc011mpm.1_Missense_Mutation_p.R332C	NM_017711	NP_060181	Q9HCC8	GDPD2_HUMAN	osteoblast differentiation promoting factor	411	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol inositolphosphodiesterase activity|metal ion binding			ovary(2)	2	Renal(35;0.156)					GATATATGGACGTCAGGGAGG	0.512													7	74					0	0	1	0	0		T	69649837	T	T	69649837	3	4	27	1	0	0	0	0	1	0	0	0	6339	536	19	1	1273	1	GDPD2	23	69649837	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2802	69649837	85620723	8336	30687											
GDPD2	54857	broad.mit.edu	37	chrX	69652204	69652204	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacctatttgtagtgaacaAgccctggctcttctctctgc	8	13	8	12	0	3	1	0	1	3	0	4	2	3	1	2	1	4	2	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:69652204A>G	uc004dyh.2	+	13	1606	c.1355A>G	c.(1354-1356)AAG>AGG	p.K452R	GDPD2_uc010nky.1_3'UTR|GDPD2_uc011mpk.1_Missense_Mutation_p.K503R|GDPD2_uc011mpl.1_Missense_Mutation_p.K373R|GDPD2_uc011mpm.1_Missense_Mutation_p.K373R	NM_017711	NP_060181	Q9HCC8	GDPD2_HUMAN	osteoblast differentiation promoting factor	452	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol inositolphosphodiesterase activity|metal ion binding			ovary(2)	2	Renal(35;0.156)					GTAGTGAACAAGCCCTGGCTC	0.502													14	166					0	0	1	0	0		G	69652204	G	G	69652204	3	3	27	1	0	0	0	0	1	0	0	0	6339	72	3	3	1558	3	GDPD2	23	69652204	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	2367	69652204	85618356	8337	30688											
SLC7A3	84889	broad.mit.edu	37	chrX	70148105	70148105	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagagcccagaggacccAagctagagtggaagaagggt	13	4	14	10	0	0	4	0	0	0	4	1	6	1	6	3	3	2	1	3	3	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:70148105A>G	uc004dyn.2	-	5	868	c.710T>C	c.(709-711)TTG>TCG	p.L237S	SLC7A3_uc004dyo.2_Missense_Mutation_p.L237S	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	237	Helical; Name=6; (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	CAGAGGACCCAAGCTAGAGTG	0.488													7	32					0	0	1	0	0		G	70148105	G	G	70148105	3	3	27	1	0	0	0	0	1	0	0	0	14723	131	5	3	1181	3	SLC7A3	23	70148105	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	495901	70148105	85122455	8338	30689											
CXorf65	158830	broad.mit.edu	37	chrX	70326212	70326212	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttaggcaactttactttActgcggatgtaatacagcaa	12	14	8	7	1	0	0	0	0	0	0	0	1	0	1	0	2	6	4	0	2	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:70326212A>G	uc011mpo.1	-	2	104	c.90T>C	c.(88-90)AGT>AGC	p.S30S	CXorf65_uc011mpp.1_5'UTR	NM_001025265	NP_001020436	A6NEN9	CX065_HUMAN	hypothetical protein LOC158830	30										central_nervous_system(1)	1						ACTTTACTTTACTGCGGATGT	0.483													14	59					0	0	1	0	0		G	70326212	G	G	70326212	2	3	27	1	0	0	0	0	0	0	0	1	4120	388	14	3		3	CXorf65	23	70326212	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	178107	70326212	84944348	8339	30690											
IL2RG	3561	broad.mit.edu	37	chrX	70327621	70327621	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagggtgtaacatgggggggCccagtaggggctatgctggt	7	9	19	6	0	0	0	0	0	0	0	0	0	0	0	1	7	2	4	1	7	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:70327621C>G	uc004dyw.1	-	8	1089	c.1075G>C	c.(1075-1077)GCC>CCC	p.A359P	CXorf65_uc011mpo.1_5'Flank|CXorf65_uc011mpp.1_5'Flank|IL2RG_uc004dyv.1_Missense_Mutation_p.A88P|IL2RG_uc004dyx.1_Missense_Mutation_p.A169P	NM_000206	NP_000197	P31785	IL2RG_HUMAN	interleukin 2 receptor, gamma precursor	359	Cytoplasmic (Potential).				immune response|interleukin-4-mediated signaling pathway|interspecies interaction between organisms	external side of plasma membrane|integral to plasma membrane	cytokine receptor activity|interleukin-2 binding			pancreas(1)	1	Renal(35;0.156)				Aldesleukin(DB00041)|Denileukin diftitox(DB00004)	CATGGGGGGGCCCAGTAGGGG	0.582									Severe_Combined_Immunodeficiency_X-linked				7	32					0	0	1	0	0		G	70327621	G	G	70327621	3	3	27	1	0	0	0	0	1	0	0	0	7704	739	26	5	38	5	IL2RG	23	70327621	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1409	70327621	84942939	8340	30691											
NLGN3	54413	broad.mit.edu	37	chrX	70389593	70389593	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccttcgctgccctctactaCcgtaaggacaaacggcgcca	9	7	9	16	4	1	0	0	0	1	0	2	1	1	1	4	2	4	2	4	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:70389593C>G	uc004dzb.2	+	7	2437	c.2133C>G	c.(2131-2133)TAC>TAG	p.Y711*	NLGN3_uc004dzc.2_Nonsense_Mutation_p.Y594*|NLGN3_uc011mps.1_Nonsense_Mutation_p.Y691*|NLGN3_uc004dze.2_Nonsense_Mutation_p.Y529*	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	731	Cytoplasmic (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					CCCTCTACTACCGTAAGGACA	0.642													11	30					0	0	1	0	0		G	70389593	G	G	70389593	4	3	27	1	0	0	0	0	0	1	0	0	10482	518	18	5	2219	5	NLGN3	23	70389593	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	61972	70389593	84880967	8341	30692											
ACRC	93953	broad.mit.edu	37	chrX	70823666	70823666	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgattcggaagctcccgAcgacaatagtgatgattcgg	11	10	12	8	4	0	4	0	4	0	0	3	7	1	5	1	2	1	1	1	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:70823666A>G	uc004eae.2	+	8	1040	c.539A>G	c.(538-540)GAC>GGC	p.D180G	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	180	Asp/Ser-rich.					nucleus				ovary(3)	3	Renal(35;0.156)					GAAGCTCCCGACGACAATAGT	0.498													25	236					0	0	1	0	0		G	70823666	G	G	70823666	3	3	27	1	0	0	0	0	1	0	0	0	171	275	10	3	565	3	ACRC	23	70823666	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	434073	70823666	84446894	8342	30693											
ACRC	93953	broad.mit.edu	37	chrX	70832302	70832302	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacgcatggaagtattaTgccaggaaatccaacaggat	14	8	12	7	1	0	1	0	1	0	0	1	4	1	4	2	4	2	2	2	4	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:70832302T>A	uc004eae.2	+	12	2349	c.1848T>A	c.(1846-1848)TAT>TAA	p.Y616*	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	616						nucleus				ovary(3)	3	Renal(35;0.156)					GGAAGTATTATGCCAGGAAAT	0.473													3	22					0	0	1	0	0		A	70832302	A	A	70832302	4	1	27	1	0	0	0	0	0	1	0	0	171	1471	51	5	1890	5	ACRC	23	70832302	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8636	70832302	84438258	8343	30694											
CXCR3	2833	broad.mit.edu	37	chrX	70836470	70836470	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagttgcgggccaaagcGcccaggtccatgaggatgtc	9	6	13	13	2	0	1	0	1	0	0	2	2	1	2	4	3	2	1	4	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:70836470G>A	uc004eaf.2	-	2	920	c.852C>T	c.(850-852)GGC>GGT	p.G284G	BCYRN1_uc011mpt.1_Intron|CXCR3_uc011mpx.1_Silent_p.G331G	NM_001504	NP_001495	P49682	CXCR3_HUMAN	chemokine (C-X-C motif) receptor 3 isoform A	284	Extracellular (Potential).				cell adhesion|cellular component movement|chemotaxis|elevation of cytosolic calcium ion concentration	cytoplasm|integral to plasma membrane	C-X-C chemokine receptor activity			ovary(2)|central_nervous_system(1)	3	Renal(35;0.156)					GGGCCAAAGCGCCCAGGTCCA	0.647													4	30					0	0	1	0	0		A	70836470	A	A	70836470	2	1	27	1	0	0	0	0	0	0	0	1	4095	1074	38	1		1	CXCR3	23	70836470	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4168	70836470	84434090	8344	30695											
RGAG4	340526	broad.mit.edu	37	chrX	71349878	71349878	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgattctggttcctccgtcTgctaggctgtattatgggag	5	15	12	9	2	2	0	0	0	2	0	5	2	4	1	2	3	1	4	2	3	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:71349878T>C	uc010nlh.1	-	1	1874	c.1513A>G	c.(1513-1515)AGA>GGA	p.R505G	NHSL2_uc011mqa.1_Intron|RGAG4_uc004eaj.1_RNA	NM_001024455	NP_001019626	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	505										ovary(2)|skin(1)	3	Renal(35;0.156)					TTCCTCCGTCTGCTAGGCTGT	0.557													4	43					0	0	1	0	0		C	71349878	C	C	71349878	3	2	27	1	0	0	0	0	1	0	0	0	13300	1588	55	3	200	3	RGAG4	23	71349878	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	513408	71349878	83920682	8345	30696											
RGAG4	340526	broad.mit.edu	37	chrX	71350381	71350381	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtactcttcatcttcacttTcttcctcattgggactcgga	7	16	6	12	1	6	0	3	0	3	0	8	2	7	2	1	2	1	1	1	2	1	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:71350381T>C	uc010nlh.1	-	1	1371	c.1010A>G	c.(1009-1011)GAA>GGA	p.E337G	NHSL2_uc011mqa.1_Intron|RGAG4_uc004eaj.1_RNA	NM_001024455	NP_001019626	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	337										ovary(2)|skin(1)	3	Renal(35;0.156)					ATCTTCACTTTCTTCCTCATT	0.502													10	79					0	0	1	0	0		C	71350381	C	C	71350381	3	2	27	1	0	0	0	0	1	0	0	0	13300	1783	62	3	703	3	RGAG4	23	71350381	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	503	71350381	83920179	8346	30697											
PIN4	5303	broad.mit.edu	37	chrX	71416695	71416695	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccatggaaaagttaaagTctgggatgagattcaatgaa	17	9	11	4	0	2	2	1	2	1	1	2	5	2	4	1	2	1	1	1	2	7	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:71416695T>A	uc004eam.2	+	3	288	c.253T>A	c.(253-255)TCT>ACT	p.S85T	PIN4_uc004eao.1_Missense_Mutation_p.S85T	NM_006223	NP_006214	Q9Y237	PIN4_HUMAN	protein (peptidyl-prolyl cis/trans isomerase)	60	PpiC.				protein folding|rRNA processing	cytoplasm|mitochondrial matrix|mitochondrial matrix|nucleolus|nucleolus|preribosome|spindle|spindle	bent DNA binding|DNA binding|double-stranded DNA binding|peptidyl-prolyl cis-trans isomerase activity				0	Renal(35;0.156)					AAAGTTAAAGTCTGGGATGAG	0.388													10	97					0	0	1	0	0		A	71416695	A	A	71416695	3	1	27	1	0	0	0	0	1	0	0	0	11950	1667	58	5	263	5	PIN4	23	71416695	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	66314	71416695	83853865	8347	30698											
ERCC6L	54821	broad.mit.edu	37	chrX	71425828	71425828	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctcacttgcttgagcaTcctgcagtgcactatgggat	7	12	11	11	0	1	1	1	1	0	0	2	2	2	2	2	2	4	4	2	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:71425828T>A	uc004eaq.1	-	2	2886	c.2789A>T	c.(2788-2790)GAT>GTT	p.D930V	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Missense_Mutation_p.D807V	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	930					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					TGCTTGAGCATCCTGCAGTGC	0.408													6	87					0	0	1	0	0		A	71425828	A	A	71425828	3	1	27	1	0	0	0	0	1	0	0	0	5226	1435	50	5	967	5	ERCC6L	23	71425828	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	9133	71425828	83844732	8348	30699											
ERCC6L	54821	broad.mit.edu	37	chrX	71426948	71426948	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagttgcaggattccagcTagggtcaaaaatgaccactc	13	9	9	10	0	2	1	2	1	0	0	4	2	3	2	2	2	2	3	2	2	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:71426948T>A	uc004eaq.1	-	2	1766	c.1669A>T	c.(1669-1671)AGC>TGC	p.S557C	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Missense_Mutation_p.S434C	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	557	Helicase C-terminal.				cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					GGATTCCAGCTAGGGTCAAAA	0.413													4	80					0	0	1	0	0		A	71426948	A	A	71426948	3	1	27	1	0	0	0	0	1	0	0	0	5226	1522	53	5	2087	5	ERCC6L	23	71426948	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1120	71426948	83843612	8349	30700											
HDAC8	55869	broad.mit.edu	37	chrX	71787753	71787753	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcttacttctttgcatgatgCcaccctccagaccagttaat	9	14	5	13	0	2	2	0	1	2	1	3	2	3	2	4	0	3	2	4	0	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:71787753C>T	uc004eau.2	-	4	465	c.423G>A	c.(421-423)TGG>TGA	p.W141*	HDAC8_uc011mqe.1_5'UTR|HDAC8_uc011mqf.1_Intron|HDAC8_uc011mqg.1_Intron|HDAC8_uc011mqh.1_Intron|HDAC8_uc010nlk.1_Nonsense_Mutation_p.W12*|HDAC8_uc004eav.2_Nonsense_Mutation_p.W141*|HDAC8_uc004eaw.2_RNA	NM_018486	NP_060956	Q9BY41	HDAC8_HUMAN	histone deacetylase 8	141	Histone deacetylase.				chromatin assembly or disassembly|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nuclear chromosome	histone deacetylase activity (H3-K16 specific)|metal ion binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding				0	Renal(35;0.156)				Vorinostat(DB02546)	TTGCATGATGCCACCCTCCAG	0.413													12	137					0	0	1	0	0		T	71787753	T	T	71787753	4	4	27	1	0	0	0	0	0	1	0	0	7029	740	26	2	828	2	HDAC8	23	71787753	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	360805	71787753	83482807	8350	30701											
PHKA1	5255	broad.mit.edu	37	chrX	71802336	71802336	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgaatttcaatatctgccAgcatggtgaggacaaggatg	13	11	11	6	0	2	2	1	2	1	0	2	4	2	4	1	3	2	1	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:71802336A>G	uc004eax.3	-	31	3711	c.3410T>C	c.(3409-3411)CTG>CCG	p.L1137P	PHKA1_uc004eay.3_Missense_Mutation_p.L1124P|PHKA1_uc011mqi.1_Missense_Mutation_p.L1065P|PHKA1_uc010nll.2_Missense_Mutation_p.L169P	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	1137					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					AATATCTGCCAGCATGGTGAG	0.448													4	85					0	0	1	0	0		G	71802336	G	G	71802336	3	3	27	1	0	0	0	0	1	0	0	0	11862	188	7	3	269	3	PHKA1	23	71802336	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14583	71802336	83468224	8351	30702											
NAP1L2	4674	broad.mit.edu	37	chrX	72433875	72433875	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgcattgatgatctgacGtcttttttccagtaagggtt	8	17	10	6	1	2	3	0	3	2	0	3	4	3	3	1	1	1	3	1	1	1	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:72433875G>A	uc004ebi.2	-	1	810	c.454C>T	c.(454-456)CGT>TGT	p.R152C	NAP1L2_uc011mqj.1_Missense_Mutation_p.R10C	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	152					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					ATGATCTGACGTCTTTTTTCC	0.378													40	144					0	0	1	0	0		A	72433875	A	A	72433875	3	1	27	1	0	0	0	0	1	0	0	0	10175	1145	40	1	932	1	NAP1L2	23	72433875	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	631539	72433875	82836685	8352	30703											
SLC16A2	6567	broad.mit.edu	37	chrX	73749123	73749123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcgggggccttatcgtcGtctgtcttttcctgggcctt	2	16	11	12	3	2	0	0	0	2	0	6	0	3	0	3	3	0	0	3	3	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:73749123G>A	uc004ebt.2	+	5	1634	c.1468G>A	c.(1468-1470)GTC>ATC	p.V490I	SLC16A2_uc010nlr.1_Intron	NM_006517	NP_006508	P36021	MOT8_HUMAN	solute carrier family 16, member 2	416	Helical; (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			breast(2)|ovary(1)	3					Pyruvic acid(DB00119)	CCTTATCGTCGTCTGTCTTTT	0.577													4	53					0	0	1	0	0		A	73749123	A	A	73749123	3	1	27	1	0	0	0	0	1	0	0	0	14433	1145	40	1	1486	1	SLC16A2	23	73749123	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1315248	73749123	81521437	8353	30704											
RLIM	51132	broad.mit.edu	37	chrX	73812655	73812655	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgttttccacattttcTccactagaacgtcttgcaga	8	16	6	11	1	2	2	0	0	2	2	4	2	3	2	2	0	2	3	2	0	2	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:73812655T>C	uc004ebu.2	-	5	785	c.495A>G	c.(493-495)GGA>GGG	p.G165G	RLIM_uc004ebw.2_Silent_p.G165G	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	165					random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CCACATTTTCTCCACTAGAAC	0.403													26	151					0	0	1	0	0		C	73812655	C	C	73812655	2	2	27	1	0	0	0	0	0	0	0	1	13415	1538	54	3		3	RLIM	23	73812655	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	63532	73812655	81457905	8354	30705											
KIAA2022	340533	broad.mit.edu	37	chrX	73963610	73963610	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcactaataaaagtctcgAagtaaccccaatcctgattg	14	12	5	10	1	2	1	1	1	1	0	4	2	3	1	3	0	1	1	3	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:73963610A>T	uc004eby.2	-	3	1399	c.782T>A	c.(781-783)TTC>TAC	p.F261Y		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	261					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						AAAAGTCTCGAAGTAACCCCA	0.398													10	157					0	0	1	0	0		T	73963610	T	T	73963610	3	4	27	1	0	0	0	0	1	0	0	0	8285	246	9	5	3776	5	KIAA2022	23	73963610	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	150955	73963610	81306950	8355	30706											
KIAA2022	340533	broad.mit.edu	37	chrX	73964288	73964288	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagagctgcaaatgacttcAttgccacatcctggtcctct	9	12	7	13	0	2	2	1	1	1	1	4	2	4	2	3	1	3	2	3	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:73964288A>G	uc004eby.2	-	3	721	c.104T>C	c.(103-105)ATG>ACG	p.M35T		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	35					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						AAATGACTTCATTGCCACATC	0.463													4	26					0	0	1	0	0		G	73964288	G	G	73964288	3	3	27	1	0	0	0	0	1	0	0	0	8285	217	8	3	4454	3	KIAA2022	23	73964288	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	678	73964288	81306272	8356	30707											
ABCB7	22	broad.mit.edu	37	chrX	74289248	74289248	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatcaaaggccacggtagcTgtctgtggtgtgatctgaag	9	12	13	7	1	3	2	1	2	2	0	3	2	3	2	1	3	1	2	1	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:74289248T>C	uc004eca.2	-	11	1432	c.1407A>G	c.(1405-1407)ACA>ACG	p.T469T	ABCB7_uc004ebz.2_Silent_p.T470T|ABCB7_uc011mqn.1_Silent_p.T443T|ABCB7_uc010nls.2_Silent_p.T430T|ABCB7_uc010nlt.2_Silent_p.T429T	NM_004299	NP_004290	O75027	ABCB7_HUMAN	ATP-binding cassette, sub-family B, member 7	469					cellular iron ion homeostasis	integral to membrane|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|heme transporter activity			ovary(1)	1						CCACGGTAGCTGTCTGTGGTG	0.463													23	82					0	0	1	0	0		C	74289248	C	C	74289248	2	2	27	1	0	0	0	0	0	0	0	1	46	1567	55	3		3	ABCB7	23	74289248	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	324960	74289248	80981312	8357	30708											
UPRT	139596	broad.mit.edu	37	chrX	74523346	74523346	+	Nonstop_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatactttggaacagactaAgttatttaagtaaaataatt	19	14	5	3	0	0	1	0	0	0	1	0	2	0	2	0	1	2	2	0	1	9	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:74523346A>T	uc004ecb.1	+	7	1059	c.930A>T	c.(928-930)TAA>TAT	p.*310Y	UPRT_uc004ecc.1_RNA|UPRT_uc004ecd.1_3'UTR|UPRT_uc004ece.1_Nonstop_Mutation_p.*174Y	NM_145052	NP_659489	Q96BW1	UPP_HUMAN	uracil phosphoribosyltransferase (FUR1) homolog	310					nucleoside metabolic process	cytoplasm|nucleus					0						GAACAGACTAAGTTATTTAAG	0.303													7	64					0	0	1	0	0		T	74523346	T	T	74523346	4	4	27	1	0	0	0	0	0	0	0	0	17040	79	3	5	956	5	UPRT	23	74523346	Nonstop_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	234098	74523346	80747214	8358	30709											
CXorf26	51260	broad.mit.edu	37	chrX	75395397	75395397	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggaaaaattttgagaccctTaggatagatgtgttggaccc	12	11	11	7	1	0	2	0	1	0	2	0	6	0	5	2	3	0	1	2	3	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:75395397T>C	uc004ecl.1	+	4	449	c.246T>C	c.(244-246)CTT>CTC	p.L82L		NM_016500	NP_057584	Q9BVG4	CX026_HUMAN	hypothetical protein LOC51260	82											0						TTGAGACCCTTAGGATAGATG	0.373													5	38					0	0	1	0	0		C	75395397	C	C	75395397	2	2	27	1	0	0	0	0	0	0	0	1	4107	1741	61	3		3	CXorf26	23	75395397	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	872051	75395397	79875163	8359	30710											
MAGEE1	57692	broad.mit.edu	37	chrX	75648280	75648280	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctgccagatcgcgggcCtgtcggtgtctgctcctaca	4	11	11	15	3	2	1	0	0	2	1	6	1	3	1	3	2	3	1	3	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:75648280C>A	uc004ecm.1	+	1	164	c.-43C>A	c.(-45--41)GCCTG>GCATG			NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1							dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						GATCGCGGGCCTGTCGGTGTC	0.517													11	67					2.80697e-09	3.09538e-09	1	1	0		A	75648280	A	A	75648280	1	1	27	1	0	0	0	0	0	0	0	0	9203	696	24	5		5	MAGEE1	23	75648280	Translation_Start_Site	SNP	C	TCGA-BR-6452-01A-12D-1800-08	252883	75648280	79622280	8360	30711											
MAGEE1	57692	broad.mit.edu	37	chrX	75649862	75649862	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagagcaagtaccctatccgGgagtctgaaatgcgggaata	13	7	12	9	2	1	2	0	1	1	1	2	4	2	4	2	2	3	2	2	2	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:75649862G>A	uc004ecm.1	+	1	1746	c.1539G>A	c.(1537-1539)CGG>CGA	p.R513R		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	513	MAGE 1.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						ACCCTATCCGGGAGTCTGAAA	0.493													6	75					0	0	1	0	0		A	75649862	A	A	75649862	2	1	27	1	0	0	0	0	0	0	0	1	9203	1219	43	4		4	MAGEE1	23	75649862	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1582	75649862	79620698	8361	30712											
MAGEE1	57692	broad.mit.edu	37	chrX	75650600	75650600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagttatttctgcttatGgattcaactaagctgcctat	9	16	8	8	0	2	0	1	0	1	0	2	1	2	1	1	1	5	4	1	1	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:75650600G>A	uc004ecm.1	+	1	2484	c.2277G>A	c.(2275-2277)ATG>ATA	p.M759I		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	759	Interaction with DTNA (By similarity).|MAGE 2.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						TTCTGCTTATGGATTCAACTA	0.478													4	108					0	0	1	0	0		A	75650600	A	A	75650600	3	1	27	1	0	0	0	0	1	0	0	0	9203	1348	47	4	2279	4	MAGEE1	23	75650600	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	738	75650600	79619960	8362	30713											
MAGEE1	57692	broad.mit.edu	37	chrX	75650756	75650756	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgatcccaggaatcactcCtatactctgtacaaccgaag	12	10	6	13	1	2	1	1	1	1	0	4	3	4	2	3	1	3	1	3	1	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:75650756C>A	uc004ecm.1	+	1	2640	c.2433C>A	c.(2431-2433)TCC>TCA	p.S811S		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	811	Interaction with DTNA (By similarity).|MAGE 2.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						GGAATCACTCCTATACTCTGT	0.498													9	102					1.76689e-08	1.94149e-08	1	1	0		A	75650756	A	A	75650756	2	1	27	1	0	0	0	0	0	0	0	1	9203	668	24	5		5	MAGEE1	23	75650756	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	156	75650756	79619804	8363	30714											
ATRX	546	broad.mit.edu	37	chrX	76829715	76829715	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacagaaaatttttcctacCtcacattagtttcatcatta	14	16	2	9	0	3	1	3	0	0	1	4	1	4	1	2	0	2	1	2	0	6	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:76829715C>A	uc004ecp.3	-	28	6558	c.6326G>T	c.(6325-6327)AGA>ATA	p.R2109I	ATRX_uc004ecq.3_Missense_Mutation_p.R2071I|ATRX_uc004eco.3_Missense_Mutation_p.R1894I	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	2109	Helicase C-terminal.				DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TTTTTCCTACCTCACATTAGT	0.289			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						4	113					0.00909568	0.0093211	1	1	0		A	76829715	A	A	76829715	3	1	27	1	0	0	0	0	1	0	0	0	1209	695	24	5	1184	5	ATRX	23	76829715	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1178959	76829715	78440845	8364	30715											
PGAM4	441531	broad.mit.edu	37	chrX	77224638	77224638	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaactatttcttcattccaGaagggcagagctctggcaat	11	11	10	9	0	3	2	1	0	2	2	4	3	4	3	1	3	2	3	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:77224638G>A	uc004ecy.1	-	1	498	c.498C>T	c.(496-498)TTC>TTT	p.F166F	ATP7A_uc004ecw.2_Intron|ATP7A_uc004ecx.3_Intron	NM_001029891	NP_001025062	Q8N0Y7	PGAM4_HUMAN	bisphosphoglycerate mutase 4	166					glycolysis		2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity|phosphoglycerate mutase activity				0						CTTCATTCCAGAAGGGCAGAG	0.517													14	142					0	0	1	0	0		A	77224638	A	A	77224638	2	1	27	1	0	0	0	0	0	0	0	1	11794	933	33	4		4	PGAM4	23	77224638	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	394923	77224638	78045922	8365	30716											
ATP7A	538	broad.mit.edu	37	chrX	77227165	77227165	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagtatgggtgtgaattcTgttaccatttctgttgaggg	8	15	12	6	0	2	2	0	2	2	0	2	2	2	2	2	2	1	3	2	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:77227165T>C	uc004ecx.3	+	2	187	c.27T>C	c.(25-27)TCT>TCC	p.S9S	ATP7A_uc004ecw.2_Silent_p.S9S|PGAM4_uc004ecy.1_5'Flank	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	9	HMA 1.|Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						GTGTGAATTCTGTTACCATTT	0.363													27	279					0	0	1	0	0		C	77227165	C	C	77227165	2	2	27	1	0	0	0	0	0	0	0	1	1191	1567	55	3		3	ATP7A	23	77227165	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2527	77227165	78043395	8366	30717											
ATP7A	538	broad.mit.edu	37	chrX	77254041	77254041	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgcttttgacttcaactaAtgaattttatactaaaggga	13	14	7	7	1	1	2	1	2	0	0	1	3	1	3	1	1	2	1	1	1	7	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:77254041A>T	uc004ecx.3	+	5	1563	c.1403A>T	c.(1402-1404)AAT>ATT	p.N468I	ATP7A_uc004ecw.2_Missense_Mutation_p.N468I	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	468	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						ACTTCAACTAATGAATTTTAT	0.418													46	192					0	0	1	0	0		T	77254041	T	T	77254041	3	4	27	1	0	0	0	0	1	0	0	0	1191	101	4	5	1417	5	ATP7A	23	77254041	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26876	77254041	78016519	8367	30718											
PGK1	5230	broad.mit.edu	37	chrX	77369604	77369604	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcatcctgctggagaacCtccgctttcatgtggaggaa	8	11	11	11	1	2	1	2	0	0	1	4	4	4	3	3	3	2	2	3	3	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:77369604C>A	uc004ecz.3	+	4	536	c.364C>A	c.(364-366)CTC>ATC	p.L122I	PGK1_uc010nlz.2_RNA|PGK1_uc011mqq.1_Missense_Mutation_p.L94I	NM_000291	NP_000282	P00558	PGK1_HUMAN	phosphoglycerate kinase 1	122					gluconeogenesis|glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			upper_aerodigestive_tract(1)|ovary(1)	2						GCTGGAGAACCTCCGCTTTCA	0.522													33	281					8.16721e-17	9.13931e-17	1	1	0		A	77369604	A	A	77369604	3	1	27	1	0	0	0	0	1	0	0	0	11809	681	24	5	378	5	PGK1	23	77369604	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	115563	77369604	77900956	8368	30719											
TAF9B	51616	broad.mit.edu	37	chrX	77393267	77393267	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttttaattaaggacttcagCctatagtttggagctgttaa	11	17	8	5	0	1	0	1	0	0	0	1	2	1	2	1	2	2	3	1	2	5	9	rs145287115		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:77393267C>T	uc004eda.2	-	4	455	c.384G>A	c.(382-384)AGG>AGA	p.R128R		NM_015975	NP_057059	Q9HBM6	TAF9B_HUMAN	transcription associated factor 9B	128					negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell growth|transcription initiation, DNA-dependent	transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding				0						AGGACTTCAGCCTATAGTTTG	0.378													14	76					0	0	1	0	0		T	77393267	T	T	77393267	2	4	27	1	0	0	0	0	0	0	0	1	15561	738	26	2		2	TAF9B	23	77393267	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	23663	77393267	77877293	8369	30720											
CYSLTR1	10800	broad.mit.edu	37	chrX	77528568	77528568	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagcctttttatgacttgAcagattttttttcattgatt	9	22	5	5	0	1	4	1	3	0	1	1	4	1	4	1	0	1	0	1	0	3	12			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:77528568A>G	uc004edb.2	-	3	1076	c.676T>C	c.(676-678)TCA>CCA	p.S226P	CYSLTR1_uc010nma.2_Missense_Mutation_p.S226P|CYSLTR1_uc010nmb.2_Missense_Mutation_p.S226P	NM_006639	NP_006630	Q9Y271	CLTR1_HUMAN	cysteinyl leukotriene receptor 1	226	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|respiratory gaseous exchange	integral to plasma membrane|membrane fraction	leukotriene receptor activity			ovary(1)	1					Amlexanox(DB01025)|Cinalukast(DB00587)|Montelukast(DB00471)|Nedocromil(DB00716)|Pranlukast(DB01411)|Zafirlukast(DB00549)	TTATGACTTGACAGATTTTTT	0.328													5	39					0	0	1	0	0		G	77528568	G	G	77528568	3	3	27	1	0	0	0	0	1	0	0	0	4204	275	10	3	341	3	CYSLTR1	23	77528568	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	135301	77528568	77741992	8370	30721											
P2RY10	27334	broad.mit.edu	37	chrX	78216180	78216180	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttctggctaacagtgcaGccttgtgggttctgtgccgc	4	13	13	11	1	3	0	0	0	3	0	3	0	3	0	2	2	4	3	2	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:78216180G>T	uc004ede.2	+	4	532	c.163G>T	c.(163-165)GCC>TCC	p.A55S	P2RY10_uc004edf.2_Missense_Mutation_p.A55S	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	55	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						TAACAGTGCAGCCTTGTGGGT	0.408													11	111					0.411799	0.413226	1	1	0		T	78216180	T	T	78216180	3	4	27	1	0	0	0	0	1	0	0	0	11366	971	34	5	165	5	P2RY10	23	78216180	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	687612	78216180	77054380	8371	30722											
P2RY10	27334	broad.mit.edu	37	chrX	78216282	78216282	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatgtattatctttacccCtccggatttactattacatc	9	17	3	12	1	2	0	1	0	1	0	4	1	3	1	3	1	3	1	3	1	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:78216282C>A	uc004ede.2	+	4	634	c.265C>A	c.(265-267)CTC>ATC	p.L89I	P2RY10_uc004edf.2_Missense_Mutation_p.L89I	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	89	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						ATCTTTACCCCTCCGGATTTA	0.458													11	161					4.68919e-08	5.14072e-08	1	1	0		A	78216282	A	A	78216282	3	1	27	1	0	0	0	0	1	0	0	0	11366	681	24	5	267	5	P2RY10	23	78216282	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	102	78216282	77054278	8372	30723											
TBX22	50945	broad.mit.edu	37	chrX	79278708	79278708	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaagattccatgacatcGggactgagatgatcattact	14	10	10	7	1	1	4	1	3	0	2	3	7	2	6	1	2	1	0	1	2	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:79278708G>T	uc010nmg.1	+	3	459	c.325G>T	c.(325-327)GGG>TGG	p.G109W	TBX22_uc004edi.1_5'UTR|TBX22_uc004edj.1_Missense_Mutation_p.G109W	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	109	T-box.				multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						CCATGACATCGGGACTGAGAT	0.473													6	91					1	1	1	1	0		T	79278708	T	T	79278708	3	4	27	1	0	0	0	0	1	0	0	0	15683	1116	39	5	331	5	TBX22	23	79278708	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1062426	79278708	75991852	8373	30724											
BRWD3	254065	broad.mit.edu	37	chrX	79948491	79948491	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atactctggttgaaaaggctGctgactctccacagtcccaa	11	10	8	12	0	2	2	0	2	2	0	4	2	3	2	2	2	2	3	2	2	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:79948491G>A	uc004edt.2	-	28	3474	c.3211C>T	c.(3211-3213)CAG>TAG	p.Q1071*	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Nonsense_Mutation_p.Q667*|BRWD3_uc004edp.2_Nonsense_Mutation_p.Q900*|BRWD3_uc004edq.2_Nonsense_Mutation_p.Q667*|BRWD3_uc010nmj.1_Nonsense_Mutation_p.Q667*|BRWD3_uc004edr.2_Nonsense_Mutation_p.Q741*|BRWD3_uc004eds.2_Nonsense_Mutation_p.Q667*|BRWD3_uc004edu.2_Nonsense_Mutation_p.Q741*|BRWD3_uc004edv.2_Nonsense_Mutation_p.Q667*|BRWD3_uc004edw.2_Nonsense_Mutation_p.Q667*|BRWD3_uc004edx.2_Nonsense_Mutation_p.Q667*|BRWD3_uc004edy.2_Nonsense_Mutation_p.Q667*|BRWD3_uc004edz.2_Nonsense_Mutation_p.Q741*|BRWD3_uc004eea.2_Nonsense_Mutation_p.Q741*|BRWD3_uc004eeb.2_Nonsense_Mutation_p.Q667*	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	1071										ovary(4)	4						TGAAAAGGCTGCTGACTCTCC	0.368													56	151					0	0	1	0	0		A	79948491	A	A	79948491	4	1	27	1	0	0	0	0	0	1	0	0	1529	1328	46	2	2253	2	BRWD3	23	79948491	Nonsense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	669783	79948491	75322069	8374	30725											
BRWD3	254065	broad.mit.edu	37	chrX	79978164	79978164	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgaggatttccatcaacAtccaccaaaaatggaggagg	15	7	11	8	0	1	1	1	1	0	0	3	5	3	5	3	5	1	0	3	5	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:79978164A>T	uc004edt.2	-	17	2036	c.1773T>A	c.(1771-1773)GAT>GAA	p.D591E	BRWD3_uc004edo.2_Missense_Mutation_p.D187E|BRWD3_uc004edp.2_Missense_Mutation_p.D420E|BRWD3_uc004edq.2_Missense_Mutation_p.D187E|BRWD3_uc010nmj.1_Missense_Mutation_p.D187E|BRWD3_uc004edr.2_Missense_Mutation_p.D261E|BRWD3_uc004eds.2_Missense_Mutation_p.D187E|BRWD3_uc004edu.2_Missense_Mutation_p.D261E|BRWD3_uc004edv.2_Missense_Mutation_p.D187E|BRWD3_uc004edw.2_Missense_Mutation_p.D187E|BRWD3_uc004edx.2_Missense_Mutation_p.D187E|BRWD3_uc004edy.2_Missense_Mutation_p.D187E|BRWD3_uc004edz.2_Missense_Mutation_p.D261E|BRWD3_uc004eea.2_Missense_Mutation_p.D261E|BRWD3_uc004eeb.2_Missense_Mutation_p.D187E	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	591										ovary(4)	4						TTCCATCAACATCCACCAAAA	0.438													5	85					0	0	1	0	0		T	79978164	T	T	79978164	3	4	27	1	0	0	0	0	1	0	0	0	1529	214	8	5	3735	5	BRWD3	23	79978164	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	29673	79978164	75292396	8375	30726											
RPS6KA6	27330	broad.mit.edu	37	chrX	83352817	83352817	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaggactcctaaactccAgatatcacaagcagcatcat	18	7	5	11	0	2	1	2	0	0	1	4	2	4	2	2	1	3	2	2	1	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:83352817A>G	uc004eej.1	-	19	1893	c.1816T>C	c.(1816-1818)TGG>CGG	p.W606R	RPS6KA6_uc011mqt.1_Missense_Mutation_p.W606R|RPS6KA6_uc011mqu.1_Missense_Mutation_p.W503R	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	606	Protein kinase 2.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						CCTAAACTCCAGATATCACAA	0.318													24	210					0	0	1	0	0		G	83352817	G	G	83352817	3	3	27	1	0	0	0	0	1	0	0	0	13680	188	7	3	437	3	RPS6KA6	23	83352817	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	3374653	83352817	71917743	8376	30727											
RPS6KA6	27330	broad.mit.edu	37	chrX	83359656	83359656	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtaaacatatctaccatCatcaaagacctacaaaagaa	21	7	4	9	0	3	2	2	0	1	2	3	2	3	2	2	1	3	1	2	1	10	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:83359656C>A	uc004eej.1	-	17	1542	c.1465G>T	c.(1465-1467)GAT>TAT	p.D489Y	RPS6KA6_uc011mqt.1_Missense_Mutation_p.D489Y|RPS6KA6_uc011mqu.1_Missense_Mutation_p.D386Y	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	489	Protein kinase 2.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TATCTACCATCATCAAAGACC	0.269													5	40					1	1	1	1	0		A	83359656	A	A	83359656	3	1	27	1	0	0	0	0	1	0	0	0	13680	826	29	5	796	5	RPS6KA6	23	83359656	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	6839	83359656	71910904	8377	30728											
RPS6KA6	27330	broad.mit.edu	37	chrX	83372088	83372088	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatctatttgctggattcCttttgaataacatccttaga	11	16	5	9	0	1	2	0	1	1	1	3	3	3	3	3	1	2	1	3	1	5	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:83372088C>A	uc004eej.1	-	11	1006	c.929G>T	c.(928-930)AGG>ATG	p.R310M	RPS6KA6_uc011mqt.1_Missense_Mutation_p.R310M|RPS6KA6_uc011mqu.1_Missense_Mutation_p.R207M	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	310	Protein kinase 1.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TGCTGGATTCCTTTTGAATAA	0.323													4	52					0.00024832	0.000261516	1	1	0		A	83372088	A	A	83372088	3	1	27	1	0	0	0	0	1	0	0	0	13680	681	24	5	1356	5	RPS6KA6	23	83372088	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	12432	83372088	71898472	8378	30729											
NAP1L3	4675	broad.mit.edu	37	chrX	92928184	92928184	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgctgtcactagtgctGctgctagagctactgctgtc	5	13	11	12	0	1	1	1	0	0	1	2	1	1	1	0	0	8	7	0	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:92928184G>A	uc004efq.2	-	1	425	c.120C>T	c.(118-120)AGC>AGT	p.S40S	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	40	Ser-rich.				nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						cactagtgctgctgctagagc	0.234													5	40					0	0	1	0	0		A	92928184	A	A	92928184	2	1	27	1	0	0	0	0	0	0	0	1	10176	1310	46	2		2	NAP1L3	23	92928184	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	9556096	92928184	62342376	8379	30730											
PCDH19	57526	broad.mit.edu	37	chrX	99551344	99551344	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgaccttccttcagaatgggGctgacctcatgcatgacttt	8	12	9	12	1	2	3	2	2	0	1	3	4	3	3	3	2	1	2	3	2	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:99551344G>A	uc010nmz.2	-	6	5054	c.3378C>T	c.(3376-3378)AGC>AGT	p.S1126S	PCDH19_uc004efw.3_Silent_p.S1078S|PCDH19_uc004efx.3_Silent_p.S1079S	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	1126	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						TCAGAATGGGGCTGACCTCAT	0.502													13	161					0	0	1	0	0		A	99551344	A	A	99551344	2	1	27	1	0	0	0	0	0	0	0	1	11533	1194	42	2		2	PCDH19	23	99551344	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	6623160	99551344	55719216	8380	30731											
PCDH19	57526	broad.mit.edu	37	chrX	99661923	99661923	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgatgaccggggtgttgTcgttgacgtcgaggatgatg	6	12	17	6	4	0	4	0	4	0	0	2	6	0	5	1	3	0	2	1	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:99661923T>C	uc010nmz.2	-	1	3349	c.1673A>G	c.(1672-1674)GAC>GGC	p.D558G	PCDH19_uc004efw.3_Missense_Mutation_p.D558G|PCDH19_uc004efx.3_Missense_Mutation_p.D558G	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	558	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CGGGGTGTTGTCGTTGACGTC	0.582													7	122					0	0	1	0	0		C	99661923	C	C	99661923	3	2	27	1	0	0	0	0	1	0	0	0	11533	1667	58	3	1797	3	PCDH19	23	99661923	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	110579	99661923	55608637	8381	30732											
SYTL4	94121	broad.mit.edu	37	chrX	99942073	99942073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagcactcacgggttagagCgcttcttggcttcatcagca	9	10	11	11	2	4	1	3	0	1	1	4	2	4	1	0	2	3	5	0	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:99942073C>T	uc004egd.3	-	13	1531	c.1175G>A	c.(1174-1176)CGC>CAC	p.R392H	SYTL4_uc010nnb.2_Missense_Mutation_p.R64H|SYTL4_uc010nnc.2_Missense_Mutation_p.R392H|SYTL4_uc004ege.3_Missense_Mutation_p.R392H|SYTL4_uc004egf.3_Missense_Mutation_p.R392H|SYTL4_uc004egg.3_3'UTR	NM_080737	NP_542775	Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	392	C2 1.				exocytosis|intracellular protein transport	extrinsic to membrane|plasma membrane|synaptic vesicle|transport vesicle membrane	neurexin binding|phospholipid binding|Rab GTPase binding|transporter activity|zinc ion binding			ovary(2)	2					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CGGGTTAGAGCGCTTCTTGGC	0.527													11	81					0	0	1	0	0		T	99942073	T	T	99942073	3	4	27	1	0	0	0	0	1	0	0	0	15510	768	27	1	868	1	SYTL4	23	99942073	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	280150	99942073	55328487	8382	30733											
NOX1	27035	broad.mit.edu	37	chrX	100104913	100104913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggctgtgccaaagggaccatCcacttcaatcctggcagaag	11	7	11	12	0	1	1	1	0	0	1	3	2	3	2	4	3	1	2	4	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:100104913C>T	uc004egj.2	-	10	1350	c.1144G>A	c.(1144-1146)GAT>AAT	p.D382N	NOX1_uc004egl.3_Missense_Mutation_p.D382N|NOX1_uc010nne.2_Missense_Mutation_p.D345N	NM_007052	NP_008983	Q9Y5S8	NOX1_HUMAN	NADPH oxidase 1 isoform long	382	FAD-binding FR-type.|Extracellular (Potential).				angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1						AAGGGACCATCCACTTCAATC	0.498													4	29					0	0	1	0	0		T	100104913	T	T	100104913	3	4	27	1	0	0	0	0	1	0	0	0	10575	855	30	4	566	4	NOX1	23	100104913	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	162840	100104913	55165647	8383	30734											
XKRX	402415	broad.mit.edu	37	chrX	100169342	100169342	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagaatcagacaacactttgCcttgcttcagtctcaaaggg	12	11	8	10	0	3	2	3	0	1	2	4	2	3	2	1	1	3	1	1	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:100169342C>T	uc004egn.2	-	3	1940	c.1335G>A	c.(1333-1335)AGG>AGA	p.R445R	XKRX_uc011mre.1_Silent_p.R241R	NM_212559	NP_997724	Q6PP77	XKR2_HUMAN	XK, Kell blood group complex subunit-related,	445						integral to membrane|plasma membrane				breast(1)	1						CAACACTTTGCCTTGCTTCAG	0.463													21	250					0	0	1	0	0		T	100169342	T	T	100169342	2	4	27	1	0	0	0	0	0	0	0	1	17465	738	26	2		2	XKRX	23	100169342	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	64429	100169342	55101218	8384	30735											
XKRX	402415	broad.mit.edu	37	chrX	100177865	100177865	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcccaggaaggcttggAtctgtgacatacgtttgtag	9	11	13	8	1	1	2	0	2	1	0	1	4	1	4	1	3	2	3	1	3	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:100177865A>T	uc004egn.2	-	2	1126	c.521T>A	c.(520-522)ATC>AAC	p.I174N	XKRX_uc011mre.1_Intron	NM_212559	NP_997724	Q6PP77	XKR2_HUMAN	XK, Kell blood group complex subunit-related,	174	Helical; (Potential).					integral to membrane|plasma membrane				breast(1)	1						GAAGGCTTGGATCTGTGACAT	0.567													10	99					0	0	1	0	0		T	100177865	T	T	100177865	3	4	27	1	0	0	0	0	1	0	0	0	17465	333	12	5	836	5	XKRX	23	100177865	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	8523	100177865	55092695	8385	30736											
TRMT2B	79979	broad.mit.edu	37	chrX	100292924	100292924	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acagagggtataataggatgGagaagacaagagagcctctc	16	6	13	6	0	1	4	0	0	1	4	2	7	1	5	1	3	1	1	1	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:100292924G>A	uc004egq.2	-	4	719	c.420C>T	c.(418-420)CTC>CTT	p.L140L	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Silent_p.L140L|TRMT2B_uc004egs.2_Silent_p.L140L|TRMT2B_uc004egt.2_Silent_p.L140L|TRMT2B_uc004egu.2_Silent_p.L21L|TRMT2B_uc004egv.2_Intron	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	140							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						TAATAGGATGGAGAAGACAAG	0.358													25	319					0	0	1	0	0		A	100292924	A	A	100292924	2	1	27	1	0	0	0	0	0	0	0	1	16592	1161	41	4		4	TRMT2B	23	100292924	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	115059	100292924	54977636	8386	30737											
TMEM35	59353	broad.mit.edu	37	chrX	100334082	100334082	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactatcaagctgacccccAggctcagcaaggatgcctac	11	6	10	14	0	2	1	2	1	0	0	2	3	2	3	3	3	4	3	3	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:100334082A>G	uc004egw.2	+	1	247	c.91A>G	c.(91-93)AGG>GGG	p.R31G		NM_021637	NP_067650	Q53FP2	TMM35_HUMAN	transmembrane protein 35	31						cytoplasmic membrane-bounded vesicle|integral to membrane|peroxisomal membrane					0						GCTGACCCCCAGGCTCAGCAA	0.552													8	17					0	0	1	0	0		G	100334082	G	G	100334082	3	3	27	1	0	0	0	0	1	0	0	0	16182	179	7	3	93	3	TMEM35	23	100334082	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	41158	100334082	54936478	8387	30738											
TMEM35	59353	broad.mit.edu	37	chrX	100349662	100349662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cattggtgcccttgaagtggCctgtggcatcgtcatgaccc	6	11	12	12	1	1	2	1	2	0	0	2	2	1	2	3	3	1	1	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:100349662C>T	uc004egw.2	+	2	377	c.221C>T	c.(220-222)GCC>GTC	p.A74V		NM_021637	NP_067650	Q53FP2	TMM35_HUMAN	transmembrane protein 35	74	Helical; (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|peroxisomal membrane					0						CTTGAAGTGGCCTGTGGCATC	0.522													32	158					0	0	1	0	0		T	100349662	T	T	100349662	3	4	27	1	0	0	0	0	1	0	0	0	16182	739	26	2	227	2	TMEM35	23	100349662	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	15580	100349662	54920898	8388	30739											
TMEM35	59353	broad.mit.edu	37	chrX	100349842	100349842	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgcctgctgattgctcgcaAgcccgaagaccggtcttctg	6	9	11	15	4	2	2	0	1	2	1	3	3	2	2	4	1	3	3	4	1	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:100349842A>G	uc004egw.2	+	2	557	c.401A>G	c.(400-402)AAG>AGG	p.K134R		NM_021637	NP_067650	Q53FP2	TMM35_HUMAN	transmembrane protein 35	134						cytoplasmic membrane-bounded vesicle|integral to membrane|peroxisomal membrane					0						ATTGCTCGCAAGCCCGAAGAC	0.557													16	115					0	0	1	0	0		G	100349842	G	G	100349842	3	3	27	1	0	0	0	0	1	0	0	0	16182	72	3	3	407	3	TMEM35	23	100349842	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	180	100349842	54920718	8389	30740											
CENPI	2491	broad.mit.edu	37	chrX	100387224	100387224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctgtataagagccttcctCtctgggatggcctttgttgt	5	16	10	10	0	1	1	0	0	1	1	4	2	3	2	4	2	1	2	4	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:100387224C>T	uc004egx.2	+	13	1603	c.1333C>T	c.(1333-1335)CTC>TTC	p.L445F	CENPI_uc011mrg.1_Missense_Mutation_p.L445F|CENPI_uc004egy.2_Missense_Mutation_p.L445F	NM_006733	NP_006724	Q92674	CENPI_HUMAN	centromere protein I	445					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	cytosol|kinetochore|nucleoplasm	protein binding			skin(1)	1						GAGCCTTCCTCTCTGGGATGG	0.398													6	270					0	0	1	0	0		T	100387224	T	T	100387224	3	4	27	1	0	0	0	0	1	0	0	0	3236	913	32	4	1379	4	CENPI	23	100387224	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37382	100387224	54883336	8390	30741											
DRP2	1821	broad.mit.edu	37	chrX	100515554	100515554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggagaaactccgtcatGccttccccagtgtgcgaagt	9	10	10	12	2	2	1	2	0	0	1	4	3	4	1	4	1	3	0	4	1	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:100515554G>A	uc004egz.2	+	24	3187	c.2818G>A	c.(2818-2820)GCC>ACC	p.A940T	DRP2_uc011mrh.1_Missense_Mutation_p.A862T	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	940					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						ACTCCGTCATGCCTTCCCCAG	0.502													14	209					0	0	1	0	0		A	100515554	A	A	100515554	3	1	27	1	0	0	0	0	1	0	0	0	4770	1319	46	2	2904	2	DRP2	23	100515554	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	128330	100515554	54755006	8391	30742											
BTK	695	broad.mit.edu	37	chrX	100608210	100608210	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaactgtacatgatggtaTataccttctctgaagccaga	13	11	8	9	0	1	3	0	2	1	1	2	3	1	3	2	1	5	3	2	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:100608210T>C	uc004ehg.2	-	18	2073	c.1880A>G	c.(1879-1881)TAT>TGT	p.Y627C	BTK_uc004ehf.2_Missense_Mutation_p.Y127C|BTK_uc010nnh.2_RNA|BTK_uc010nni.2_Intron|BTK_uc004ehe.2_RNA|BTK_uc010nnj.2_RNA|BTK_uc010nnk.2_RNA|BTK_uc010nnl.2_Missense_Mutation_p.Y103C|BTK_uc010nnm.2_Intron|BTK_uc010nnn.2_Missense_Mutation_p.Y451C|BTK_uc010nno.2_Missense_Mutation_p.Y661C	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	627	Protein kinase.				calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						CATGATGGTATATACCTTCTC	0.438									Agammaglobulinemia_X-linked				19	192					0	0	1	0	0		C	100608210	C	C	100608210	3	2	27	1	0	0	0	0	1	0	0	0	1560	1406	49	3	107	3	BTK	23	100608210	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	92656	100608210	54662350	8392	30743											
ARMCX1	51309	broad.mit.edu	37	chrX	100808785	100808785	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagacgtacatcagtcaagTgtgtgatgacaccatggtct	12	11	10	8	1	3	3	2	2	1	1	3	3	3	3	1	1	1	1	1	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:100808785T>C	uc004ehv.2	+	4	1243	c.872T>C	c.(871-873)GTG>GCG	p.V291A	ARMCX1_uc004ehw.2_Missense_Mutation_p.V291A	NM_016608	NP_057692	Q9P291	ARMX1_HUMAN	armadillo repeat containing, X-linked 1	291						integral to membrane	binding			ovary(3)|pancreas(1)	4						ATCAGTCAAGTGTGTGATGAC	0.428													6	51					0	0	1	0	0		C	100808785	C	C	100808785	3	2	27	1	0	0	0	0	1	0	0	0	960	1696	59	3	874	3	ARMCX1	23	100808785	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	200575	100808785	54461775	8393	30744											
NXF5	55998	broad.mit.edu	37	chrX	101087249	101087249	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccccagtccttagagtggTcttaggctggtgaaaagagg	11	9	13	8	0	1	3	0	1	1	2	2	3	2	3	3	4	1	1	3	4	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:101087249T>C	uc011mrk.1	-	16	1449	c.1089A>G	c.(1087-1089)AGA>AGG	p.R363R	NXF5_uc004eih.1_RNA|NXF5_uc004eii.1_RNA|NXF5_uc004eij.1_RNA|NXF5_uc004eik.1_RNA|NXF5_uc004eil.1_RNA	NM_032946	NP_116564	Q9H1B4	NXF5_HUMAN	nuclear RNA export factor 5	Error:Variant_position_missing_in_Q9H1B4_after_alignment					mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nucleus	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						CTTAGAGTGGTCTTAGGCTGG	0.502													3	12					0	0	1	0	0		C	101087249	C	C	101087249	2	2	27	1	0	0	0	0	0	0	0	1	10805	1664	58	3		3	NXF5	23	101087249	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	278464	101087249	54183311	8394	30745											
NXF5	55998	broad.mit.edu	37	chrX	101095513	101095513	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggtgctgcacaacgggTtcccttctagccatagctct	9	10	10	12	1	2	1	0	0	2	1	3	1	3	1	2	2	5	4	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:101095513T>C	uc011mrk.1	-	10	1016	c.656A>G	c.(655-657)AAC>AGC	p.N219S	NXF5_uc004eih.1_RNA|NXF5_uc004eii.1_RNA|NXF5_uc004eij.1_RNA|NXF5_uc004eik.1_RNA|NXF5_uc004eil.1_RNA	NM_032946	NP_116564	Q9H1B4	NXF5_HUMAN	nuclear RNA export factor 5	219	LRR 3.				mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nucleus	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						GCACAACGGGTTCCCTTCTAG	0.572													8	72					0	0	1	0	0		C	101095513	C	C	101095513	3	2	27	1	0	0	0	0	1	0	0	0	10805	1725	60	3	469	3	NXF5	23	101095513	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8264	101095513	54175047	8395	30746											
ZMAT1	84460	broad.mit.edu	37	chrX	101152909	101152909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaattgcttcagttttttaGcatggacctttcccacatag	9	17	6	9	0	1	0	1	0	0	0	2	1	2	1	2	1	2	3	2	1	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:101152909G>A	uc011mrl.1	-	5	748	c.437C>T	c.(436-438)GCT>GTT	p.A146V	ZMAT1_uc004ein.2_5'UTR|ZMAT1_uc011mrm.1_5'UTR	NM_001011657	NP_001011657	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						nucleus	zinc ion binding			ovary(1)	1						CAGTTTTTTAGCATGGACCTT	0.408													8	96					0	0	1	0	0		A	101152909	A	A	101152909	3	1	27	1	0	0	0	0	1	0	0	0	17716	971	34	2	1491	2	ZMAT1	23	101152909	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	57396	101152909	54117651	8396	30747											
TCEAL2	140597	broad.mit.edu	37	chrX	101382346	101382346	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagggtggaggataaaaggAgaaaaagcaaacagaaattg	20	5	13	3	0	0	2	0	0	0	2	0	5	0	4	0	4	2	1	0	4	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:101382346A>T	uc004eip.2	+	3	763	c.544A>T	c.(544-546)AGA>TGA	p.R182*		NM_080390	NP_525129	Q9H3H9	TCAL2_HUMAN	transcription elongation factor A (SII)-like 2	182					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						GGATAAAAGGAGAAAAAGCAA	0.433													12	190					0	0	1	0	0		T	101382346	T	T	101382346	4	4	27	1	0	0	0	0	0	1	0	0	15696	296	11	5	546	5	TCEAL2	23	101382346	Nonsense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	229437	101382346	53888214	8397	30748											
GPRASP1	9737	broad.mit.edu	37	chrX	101910641	101910641	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagggctgaaactagctgTgacaccatgcaaggggctga	11	8	14	8	0	0	3	0	3	0	0	0	3	0	3	1	3	3	5	1	3	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:101910641T>C	uc004ejj.3	+	5	2601	c.1800T>C	c.(1798-1800)TGT>TGC	p.C600C	GPRASP1_uc004eji.3_Silent_p.C600C|GPRASP1_uc010nod.2_Silent_p.C600C	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	600	Glu-rich.					cytoplasm	protein binding			ovary(1)|lung(1)	2						AAACTAGCTGTGACACCATGC	0.512													7	197					0	0	1	0	0		C	101910641	C	C	101910641	2	2	27	1	0	0	0	0	0	0	0	1	6738	1702	59	3		3	GPRASP1	23	101910641	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	528295	101910641	53359919	8398	30749											
RAB40AL	282808	broad.mit.edu	37	chrX	102192956	102192956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgaatgccaggatgatgcGaggcctctcctactccctca	8	9	9	15	1	2	2	1	2	1	0	4	4	3	3	5	2	3	0	5	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:102192956G>A	uc004ejs.2	+	1	757	c.710G>A	c.(709-711)CGA>CAA	p.R237Q		NM_001031834	NP_001027004	P0C0E4	RB40L_HUMAN	RAB40A, member RAS oncogene family-like	237					protein transport|small GTPase mediated signal transduction	mitochondrion|plasma membrane	GTP binding			ovary(2)	2						AGGATGATGCGAGGCCTCTCC	0.572													5	164					0	0	1	0	0		A	102192956	A	A	102192956	3	1	27	1	0	0	0	0	1	0	0	0	12965	1058	37	1	712	1	RAB40AL	23	102192956	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	282315	102192956	53077604	8399	30750											
BEX1	55859	broad.mit.edu	37	chrX	102318123	102318123	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggctcccctttattagcaActtgctccttttcttcattt	6	18	5	12	0	2	0	1	0	1	0	4	0	4	0	3	1	3	3	3	1	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:102318123A>T	uc004ejt.1	-	3	320	c.80T>A	c.(79-81)GTT>GAT	p.V27D		NM_018476	NP_060946	Q9HBH7	BEX1_HUMAN	brain expressed, X-linked 1	27					cell differentiation|nervous system development	cytoplasm|nucleus				ovary(1)	1						TTTATTAGCAACTTGCTCCTT	0.488													34	310					0	0	1	0	0		T	102318123	T	T	102318123	3	4	27	1	0	0	0	0	1	0	0	0	1411	43	2	5	301	5	BEX1	23	102318123	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	125167	102318123	52952437	8400	30751											
NXF3	56000	broad.mit.edu	37	chrX	102337215	102337215	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtatccgagaaggtcgtGcacactgggcttctgtccgc	7	9	14	11	3	1	1	0	0	1	1	4	3	3	1	2	3	1	3	2	3	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:102337215G>A	uc004eju.2	-	9	929	c.858C>T	c.(856-858)TGC>TGT	p.C286C	NXF3_uc010noi.1_Silent_p.C136C|NXF3_uc011mrw.1_Silent_p.C286C|NXF3_uc011mrx.1_Silent_p.C197C	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	286						cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3						AGAAGGTCGTGCACACTGGGC	0.537													15	200					0	0	1	0	0		A	102337215	A	A	102337215	2	1	27	1	0	0	0	0	0	0	0	1	10804	1311	46	2		2	NXF3	23	102337215	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	19092	102337215	52933345	8401	30752											
TCEAL4	79921	broad.mit.edu	37	chrX	102842091	102842091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagaatttgacaatatggCtaaggtgcaggatgagaaga	17	8	13	3	0	0	4	0	2	0	3	0	7	0	5	0	3	1	2	0	3	6	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:102842091C>T	uc004ekl.2	+	3	781	c.488C>T	c.(487-489)GCT>GTT	p.A163V	TCEAL4_uc004ekn.2_Missense_Mutation_p.A163V|TCEAL4_uc004ekm.2_Missense_Mutation_p.A163V|TCEAL4_uc004eko.2_Missense_Mutation_p.A163V	NM_024863	NP_079139	Q96EI5	TCAL4_HUMAN	transcription elongation factor A (SII)-like 4	163					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						GACAATATGGCTAAGGTGCAG	0.418													22	182					0	0	1	0	0		T	102842091	T	T	102842091	3	4	27	1	0	0	0	0	1	0	0	0	15698	797	28	2	490	2	TCEAL4	23	102842091	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	504876	102842091	52428469	8402	30753											
RAB9B	51209	broad.mit.edu	37	chrX	103080451	103080451	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagctctgccgatcatccacGctgaaggtcaagaggcagca	12	6	11	12	2	3	2	2	1	1	1	4	3	4	2	2	2	3	4	2	2	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:103080451G>A	uc004ell.1	-	3	549	c.264C>T	c.(262-264)AGC>AGT	p.S88S	RAB9B_uc004eli.1_Intron	NM_016370	NP_057454	Q9NP90	RAB9B_HUMAN	RAB9B, member RAS oncogene family	88					Golgi to endosome transport|protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|protein binding			lung(3)	3						GATCATCCACGCTGAAGGTCA	0.502													7	119					0	0	1	0	0		A	103080451	A	A	103080451	2	1	27	1	0	0	0	0	0	0	0	1	12984	1078	38	1		1	RAB9B	23	103080451	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	238360	103080451	52190109	8403	30754											
ESX1	80712	broad.mit.edu	37	chrX	103499107	103499107	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgctccggctcgtggccGccgccaccctcacggtcttg	2	10	12	17	5	2	0	1	0	1	0	4	0	3	0	5	3	1	3	5	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:103499107G>A	uc004ely.2	-	2	292	c.234C>T	c.(232-234)GGC>GGT	p.G78G		NM_153448	NP_703149	Q8N693	ESX1_HUMAN	extraembryonic, spermatogenesis, homeobox	78					negative regulation of transcription, DNA-dependent|regulation of cell cycle	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCTCGTGGCCGCCGCCACCCT	0.642													41	124					0	0	1	0	0		A	103499107	A	A	103499107	2	1	27	1	0	0	0	0	0	0	0	1	5271	1074	38	1		1	ESX1	23	103499107	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	418656	103499107	51771453	8404	30755											
SERPINA7	6906	broad.mit.edu	37	chrX	105279292	105279292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gttccatctggtgcatcatgGgcacttgaacagtggtggtc	7	12	13	9	0	2	1	1	1	1	0	4	1	3	1	1	4	2	3	1	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:105279292G>A	uc004eme.1	-	2	723	c.707C>T	c.(706-708)CCC>CTC	p.P236L	SERPINA7_uc010npd.2_Missense_Mutation_p.P236L|SERPINA7_uc010npe.1_Missense_Mutation_p.P236L	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	236					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	GTGCATCATGGGCACTTGAAC	0.428													11	170					0	0	1	0	0		A	105279292	A	A	105279292	3	1	27	1	0	0	0	0	1	0	0	0	14119	1232	43	4	552	4	SERPINA7	23	105279292	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1780185	105279292	49991268	8405	30756											
CXorf57	55086	broad.mit.edu	37	chrX	105875884	105875884	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaatcttcgagatcccccaAcaaatataattatcattcca	15	12	3	11	1	2	2	1	1	1	1	5	3	4	2	3	0	1	0	3	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:105875884A>G	uc004emi.3	+	4	1160	c.1009A>G	c.(1009-1011)ACA>GCA	p.T337A	CXorf57_uc004emj.3_Missense_Mutation_p.T337A|CXorf57_uc004emh.2_Missense_Mutation_p.T337A	NM_018015	NP_060485	Q6NSI4	CX057_HUMAN	hypothetical protein LOC55086	337										ovary(1)|lung(1)|breast(1)	3						AGATCCCCCAACAAATATAAT	0.264													5	49					0	0	1	0	0		G	105875884	G	G	105875884	3	3	27	1	0	0	0	0	1	0	0	0	4116	43	2	3	1023	3	CXorf57	23	105875884	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	596592	105875884	49394676	8406	30757											
RNF128	79589	broad.mit.edu	37	chrX	106028294	106028294	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgctgtttttttttttacaGaggcaattaaaggcagatgc	10	16	9	6	0	0	2	0	0	0	2	0	2	0	2	0	2	3	4	0	2	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:106028294G>A	uc004eml.2	+	3	983	c.733_splice	c.e3-1	p.R245_splice	RNF128_uc004emk.2_Splice_Site_p.R219_splice	NM_194463	NP_919445	Q8TEB7	RN128_HUMAN	ring finger protein 128 isoform 1							endomembrane system|integral to membrane|perinuclear region of cytoplasm	zinc ion binding			ovary(1)|central_nervous_system(1)	2						TTTTTTTACAGAGGCAATTAA	0.303													7	82					0	0	1	0	0		A	106028294	A	A	106028294	5	1	27	1	0	0	0	0	0	0	1	0	13461	956	33	4	1152	4	RNF128	23	106028294	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	152410	106028294	49242266	8407	30758											
MORC4	79710	broad.mit.edu	37	chrX	106185904	106185904	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatggctgcagcagggatTgcagcagaggccacagaata	13	5	13	10	0	0	2	0	0	0	2	0	3	0	3	2	3	4	5	2	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:106185904T>C	uc004emu.3	-	15	2460	c.2217A>G	c.(2215-2217)GCA>GCG	p.A739A	MORC4_uc004emp.3_Intron|MORC4_uc004emv.3_Silent_p.A739A|MORC4_uc004emw.3_Silent_p.A487A	NM_024657	NP_078933	Q8TE76	MORC4_HUMAN	zinc finger, CW type with coiled-coil domain 2	739							ATP binding|zinc ion binding			ovary(1)	1						CAGCAGGGATTGCAGCAGAGG	0.493													16	171					0	0	1	0	0		C	106185904	C	C	106185904	2	2	27	1	0	0	0	0	0	0	0	1	9722	1799	63	3		3	MORC4	23	106185904	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	157610	106185904	49084656	8408	30759											
RBM41	55285	broad.mit.edu	37	chrX	106331799	106331799	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcttcttaggcccagtcCaacactgctcaggtgaaaaa	12	9	8	12	0	3	1	2	1	1	0	4	1	4	1	2	2	3	2	2	2	4	2	rs149164060		TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:106331799C>T	uc004emz.2	-	5	825	c.794G>A	c.(793-795)TGG>TAG	p.W265*	RBM41_uc004emy.1_Nonsense_Mutation_p.W265*	NM_018301	NP_060771	Q96IZ5	RBM41_HUMAN	RNA binding motif protein 41	265							nucleotide binding|RNA binding			ovary(1)	1						AGGCCCAGTCCAACACTGCTC	0.463													5	84					0	0	1	0	0		T	106331799	T	T	106331799	4	4	27	1	0	0	0	0	0	1	0	0	13160	595	21	4	468	4	RBM41	23	106331799	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	145895	106331799	48938761	8409	30760											
VSIG1	340547	broad.mit.edu	37	chrX	107288361	107288361	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcaactaacctccacacaAtggtgttcgcattttggaag	11	12	7	11	1	1	0	1	0	1	0	4	1	2	1	2	2	2	2	2	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:107288361A>T	uc004eno.2	+	1	162	c.1A>T	c.(1-3)ATG>TTG	p.M1L	VSIG1_uc011msk.1_Missense_Mutation_p.M1L	NM_182607	NP_872413	Q86XK7	VSIG1_HUMAN	V-set and immunoglobulin domain containing 1	1						integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						CCTCCACACAATGGTGTTCGC	0.473													6	37					0	0	1	0	0		T	107288361	T	T	107288361	3	4	27	1	0	0	0	0	1	0	0	0	17248	101	4	5	3	5	VSIG1	23	107288361	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	956562	107288361	47982199	8410	30761											
ATG4A	115201	broad.mit.edu	37	chrX	107393482	107393482	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actttccattgcctgcagtcCccacagcgaatgaacatcct	10	10	6	15	1	0	1	0	1	0	0	3	2	3	1	5	0	4	1	5	0	2	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:107393482C>A	uc004enr.2	+	10	1038	c.915C>A	c.(913-915)TCC>TCA	p.S305S	ATG4A_uc004ent.2_Silent_p.S243S|ATG4A_uc004ens.2_Silent_p.S221S|ATG4A_uc011msl.1_Silent_p.S159S|ATG4A_uc010npi.2_RNA|ATG4A_uc004enu.2_Silent_p.S221S|COL4A6_uc011msm.1_Intron	NM_052936	NP_443168	Q8WYN0	ATG4A_HUMAN	autophagy-related cysteine endopeptidase 2	305					autophagy|protein transport|proteolysis	cytoplasm	cysteine-type peptidase activity			pancreas(1)	1						GCCTGCAGTCCCCACAGCGAA	0.493													18	265					1.56452e-12	1.74136e-12	1	1	0		A	107393482	A	A	107393482	2	1	27	1	0	0	0	0	0	0	0	1	1097	610	22	5		5	ATG4A	23	107393482	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	105121	107393482	47877078	8411	30762											
ATG4A	115201	broad.mit.edu	37	chrX	107395055	107395055	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttctgcaaagaagaaaaAgactttgataactggtgtag	15	13	9	4	0	1	4	0	1	1	3	1	4	1	4	0	1	2	2	0	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:107395055A>C	uc004enr.2	+	11	1107	c.984A>C	c.(982-984)AAA>AAC	p.K328N	ATG4A_uc004ent.2_Missense_Mutation_p.K266N|ATG4A_uc004ens.2_Missense_Mutation_p.K244N|ATG4A_uc011msl.1_Missense_Mutation_p.K182N|ATG4A_uc010npi.2_RNA|ATG4A_uc004enu.2_Missense_Mutation_p.K244N|COL4A6_uc011msm.1_Intron	NM_052936	NP_443168	Q8WYN0	ATG4A_HUMAN	autophagy-related cysteine endopeptidase 2	328					autophagy|protein transport|proteolysis	cytoplasm	cysteine-type peptidase activity			pancreas(1)	1						AAGAAGAAAAAGACTTTGATA	0.358													20	265					0	0	1	0	0		C	107395055	C	C	107395055	3	2	27	1	0	0	0	0	1	0	0	0	1097	69	3	5	1026	5	ATG4A	23	107395055	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1573	107395055	47875505	8412	30763											
COL4A6	1288	broad.mit.edu	37	chrX	107457431	107457431	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatccagaccaggtgggcCtctggggcctggttgtccag	5	8	15	13	0	1	1	0	0	1	1	3	1	3	1	6	5	0	1	6	5	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:107457431C>A	uc004enw.3	-	6	458	c.355G>T	c.(355-357)GGC>TGC	p.G119C	COL4A6_uc004env.3_Missense_Mutation_p.G118C|COL4A6_uc011msn.1_Missense_Mutation_p.G118C|COL4A6_uc010npk.2_Missense_Mutation_p.G118C	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	119	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						CCAGGTGGGCCTCTGGGGCCT	0.547									Alport_syndrome_with_Diffuse_Leiomyomatosis				9	111					1.33987e-11	1.48629e-11	1	1	0		A	107457431	A	A	107457431	3	1	27	1	0	0	0	0	1	0	0	0	3698	681	24	5	4880	5	COL4A6	23	107457431	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	62376	107457431	47813129	8413	30764											
COL4A5	1287	broad.mit.edu	37	chrX	107866021	107866021	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggatccaaatcttctgggCtcaaaaggagagaaggggga	14	7	14	6	0	3	1	1	0	2	1	4	5	4	4	1	5	0	1	1	5	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:107866021C>A	uc004enz.1	+	33	3085	c.2883C>A	c.(2881-2883)GGC>GGA	p.G961G	COL4A5_uc011mso.1_Silent_p.G961G|COL4A5_uc004eob.1_Silent_p.G569G	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	961	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						ATCTTCTGGGCTCAAAAGGAG	0.443									Alport_syndrome_with_Diffuse_Leiomyomatosis				9	89					0.000442599	0.000464839	1	1	0		A	107866021	A	A	107866021	2	1	27	1	0	0	0	0	0	0	0	1	3697	784	28	5		5	COL4A5	23	107866021	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	408590	107866021	47404539	8414	30765											
COL4A5	1287	broad.mit.edu	37	chrX	107935981	107935981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaaatctttctagggaCggctggcagctgccttcgtc	6	12	10	13	2	3	0	0	0	3	0	6	1	3	1	2	3	2	3	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:107935981C>T	uc004enz.1	+	49	4734	c.4532C>T	c.(4531-4533)ACG>ATG	p.T1511M	COL4A5_uc011mso.1_Missense_Mutation_p.T1508M|COL4A5_uc011msp.1_Missense_Mutation_p.T187M	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	1505	Collagen IV NC1.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						TTTCTAGGGACGGCTGGCAGC	0.403									Alport_syndrome_with_Diffuse_Leiomyomatosis				9	84					0	0	1	0	0		T	107935981	T	T	107935981	3	4	27	1	0	0	0	0	1	0	0	0	3697	536	19	1	4715	1	COL4A5	23	107935981	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	69960	107935981	47334579	8415	30766											
IRS4	8471	broad.mit.edu	37	chrX	107979097	107979097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtcggtaccttgcatctgCtcgctggctcacggaaaagc	7	10	12	12	3	2	0	1	0	1	0	4	1	2	1	1	3	4	5	1	3	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:107979097C>T	uc004eoc.2	-	1	511	c.478G>A	c.(478-480)GCA>ACA	p.A160T		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	160	PH.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						CTTGCATCTGCTCGCTGGCTC	0.617													7	70					0	0	1	0	0		T	107979097	T	T	107979097	3	4	27	1	0	0	0	0	1	0	0	0	7858	797	28	2	3299	2	IRS4	23	107979097	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	43116	107979097	47291463	8416	30767											
ACSL4	2182	broad.mit.edu	37	chrX	108924228	108924228	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttactgctttacttacaGttttctgggttagatcccaa	8	19	6	8	0	1	1	0	0	1	1	2	1	2	1	1	1	4	3	1	1	5	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:108924228G>A	uc004eoi.2	-	7	1282	c.777C>T	c.(775-777)AAC>AAT	p.N259N	ACSL4_uc004eoj.2_Silent_p.N218N|ACSL4_uc004eok.2_Silent_p.N218N|ACSL4_uc010npp.1_Silent_p.N259N	NM_022977	NP_075266	O60488	ACSL4_HUMAN	acyl-CoA synthetase long-chain family member 4	259	Cytoplasmic (Potential).				fatty acid metabolic process|learning or memory|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(1)|lung(1)|ovary(1)	3					Icosapent(DB00159)|Troglitazone(DB00197)	TTTACTTACAGTTTTCTGGGT	0.343													9	138					0	0	1	0	0		A	108924228	A	A	108924228	2	1	27	1	0	0	0	0	0	0	0	1	179	1043	36	4		4	ACSL4	23	108924228	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	945131	108924228	46346332	8417	30768											
RGAG1	57529	broad.mit.edu	37	chrX	109696605	109696605	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaggagaccctcagcctgTgagactgtgtccacagagtt	10	9	11	11	0	1	3	1	1	0	3	2	5	2	3	3	1	1	1	3	1	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:109696605T>C	uc004eor.1	+	3	3006	c.2760T>C	c.(2758-2760)TGT>TGC	p.C920C	RGAG1_uc011msr.1_Silent_p.C920C	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	920										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CCTCAGCCTGTGAGACTGTGT	0.537													17	182					0	0	1	0	0		C	109696605	C	C	109696605	2	2	27	1	0	0	0	0	0	0	0	1	13299	1702	59	3		3	RGAG1	23	109696605	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	772377	109696605	45573955	8418	30769											
CHRDL1	91851	broad.mit.edu	37	chrX	109937471	109937471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaatccataagagctcccCggtgacttctggccccagga	9	7	12	13	1	1	2	0	1	1	1	3	4	3	4	5	4	1	1	5	4	2	2	rs141240795	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:109937471C>T	uc004eou.3	-	8	1047	c.698G>A	c.(697-699)CGG>CAG	p.R233Q	CHRDL1_uc004eov.2_Missense_Mutation_p.R227Q|CHRDL1_uc004eow.2_Missense_Mutation_p.R232Q|CHRDL1_uc010nps.2_Missense_Mutation_p.R232Q|CHRDL1_uc004eot.2_Missense_Mutation_p.R153Q|CHRDL1_uc011mss.1_Missense_Mutation_p.R147Q	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	226					BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						AAGAGCTCCCCGGTGACTTCT	0.493													33	110					0	0	1	0	0		T	109937471	T	T	109937471	3	4	27	1	0	0	0	0	1	0	0	0	3376	652	23	1	698	1	CHRDL1	23	109937471	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	240866	109937471	45333089	8419	30770											
ALG13	79868	broad.mit.edu	37	chrX	110925502	110925502	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagacattcagaaagcagAtcttgttattagtcacgcag	15	10	9	7	1	3	4	2	0	1	4	3	4	3	4	0	0	1	3	0	0	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:110925502A>T	uc011msy.1	+	2	258	c.224A>T	c.(223-225)GAT>GTT	p.D75V	ALG13_uc004epi.1_Missense_Mutation_p.D75V|ALG13_uc011msw.1_Intron|ALG13_uc011msx.1_5'UTR|ALG13_uc011msz.1_Intron|ALG13_uc011mta.1_5'UTR|ALG13_uc011mtb.1_5'UTR			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	75					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						CAGAAAGCAGATCTTGTTATT	0.343													6	104					0	0	1	0	0		T	110925502	T	T	110925502	3	4	27	1	0	0	0	0	1	0	0	0	515	333	12	5	230	5	ALG13	23	110925502	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	988031	110925502	44345058	8420	30771											
TRPC5	7224	broad.mit.edu	37	chrX	111019870	111019870	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattccatcagaaattgtgtAcattggctctgaactgggtt	11	14	9	7	0	2	2	1	1	1	1	3	2	3	2	1	2	2	3	1	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:111019870A>G	uc004epl.1	-	11	3512	c.2593T>C	c.(2593-2595)TAC>CAC	p.Y865H		NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	865	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						GAAATTGTGTACATTGGCTCT	0.438													11	147					0	0	1	0	0		G	111019870	G	G	111019870	3	3	27	1	0	0	0	0	1	0	0	0	16608	391	14	3	332	3	TRPC5	23	111019870	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	94368	111019870	44250690	8421	30772											
TRPC5	7224	broad.mit.edu	37	chrX	111195483	111195483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttaacattatagtagatctCagcctcctgaagggcctgct	10	12	9	10	0	1	2	1	1	1	1	3	2	2	2	3	1	3	3	3	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:111195483C>T	uc004epl.1	-	2	1085	c.166G>A	c.(166-168)GAG>AAG	p.E56K	TRPC5_uc004epm.1_Missense_Mutation_p.E56K	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	56	Cytoplasmic (Potential).|ANK 1.				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						TAGTAGATCTCAGCCTCCTGA	0.537													7	99					0	0	1	0	0		T	111195483	T	T	111195483	3	4	27	1	0	0	0	0	1	0	0	0	16608	835	29	4	2795	4	TRPC5	23	111195483	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	175613	111195483	44075077	8422	30773											
LHFPL1	340596	broad.mit.edu	37	chrX	111914414	111914414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcattgaagctggcatagcGcccacattcttccaccatga	10	9	9	13	1	1	2	0	2	1	0	2	2	2	2	3	2	2	3	3	2	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:111914414G>A	uc004epq.2	-	2	538	c.205C>T	c.(205-207)CGC>TGC	p.R69C	LHFPL1_uc004epp.2_Missense_Mutation_p.R92C|LHFPL1_uc010nqa.2_Intron|LHFPL1_uc010nqb.2_Missense_Mutation_p.R69C	NM_178175	NP_835469	Q86WI0	LHPL1_HUMAN	lipoma HMGIC fusion partner-like 1 precursor	69						integral to membrane					0						CTGGCATAGCGCCCACATTCT	0.592													12	107					0	0	1	0	0		A	111914414	A	A	111914414	3	1	27	1	0	0	0	0	1	0	0	0	8780	1087	38	1	469	1	LHFPL1	23	111914414	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	718931	111914414	43356146	8423	30774											
AMOT	154796	broad.mit.edu	37	chrX	112035138	112035138	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctcacgtttttcacaTgctgcctggagctgtacaag	8	12	10	11	1	2	0	2	0	0	0	2	1	2	1	1	1	6	6	1	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:112035138T>C	uc004epr.2	-	6	1848	c.1848A>G	c.(1846-1848)GCA>GCG	p.A616A	AMOT_uc004eps.2_Silent_p.A207A	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	616	Potential.				actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						GTTTTTCACATGCTGCCTGGA	0.498													36	109					0	0	1	0	0		C	112035138	C	C	112035138	2	2	27	1	0	0	0	0	0	0	0	1	582	1451	51	3		3	AMOT	23	112035138	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	120724	112035138	43235422	8424	30775											
PLS3	5358	broad.mit.edu	37	chrX	114880488	114880488	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacctccatacccgaaactGggagccaacatgaaaaaggt	17	5	8	11	1	0	1	0	1	0	0	1	3	1	2	4	2	5	0	4	2	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:114880488G>A	uc004eqd.2	+	12	1749	c.1359G>A	c.(1357-1359)CTG>CTA	p.L453L	PLS3_uc010nqg.2_Silent_p.L235L|PLS3_uc011mtf.1_Silent_p.L440L|PLS3_uc004eqe.2_Silent_p.L453L|PLS3_uc011mtg.1_Silent_p.L426L|PLS3_uc011mth.1_Silent_p.L408L|PLS3_uc011mti.1_Silent_p.L129L|PLS3_uc011mtj.1_Silent_p.L47L|PLS3_uc011mtk.1_Silent_p.L114L|PLS3_uc011mtl.1_RNA	NM_005032	NP_005023	P13797	PLST_HUMAN	plastin 3	453	Actin-binding 2.|CH 3.					cytoplasm	actin binding|calcium ion binding			lung(1)|breast(1)	2						ACCCGAAACTGGGAGCCAACA	0.318													5	33					0	0	1	0	0		A	114880488	A	A	114880488	2	1	27	1	0	0	0	0	0	0	0	1	12127	1335	47	4		4	PLS3	23	114880488	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2845350	114880488	40390072	8425	30776											
AGTR2	186	broad.mit.edu	37	chrX	115304235	115304235	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaacatgctattttggaatTagaaaacacttactgaagac	16	11	7	7	0	0	3	0	1	0	2	0	4	0	4	0	1	4	2	0	1	8	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:115304235T>C	uc004eqh.3	+	3	909	c.702T>C	c.(700-702)ATT>ATC	p.I234I		NM_000686	NP_000677	P50052	AGTR2_HUMAN	angiotensin II receptor, type 2	234	Helical; Name=5; (Potential).				behavior|blood vessel remodeling|brain development|G-protein signaling, coupled to cGMP nucleotide second messenger|intracellular protein kinase cascade|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of heart rate|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of nitric-oxide synthase activity|positive regulation of phosphoprotein phosphatase activity|positive regulation of vasodilation|regulation of systemic arterial blood pressure by circulatory renin-angiotensin		angiotensin type II receptor activity|receptor antagonist activity			ovary(2)|lung(1)	3						ATTTTGGAATTAGAAAACACT	0.393													4	83					0	0	1	0	0		C	115304235	C	C	115304235	2	2	27	1	0	0	0	0	0	0	0	1	402	1742	61	3		3	AGTR2	23	115304235	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	423747	115304235	39966325	8426	30777											
CXorf61	203413	broad.mit.edu	37	chrX	115592931	115592931	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggatttccggtgaggtgAtgcacctctgaaacccttgc	7	11	13	10	1	1	3	0	3	1	0	2	4	2	4	3	4	3	1	3	4	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:115592931A>G	uc004eqj.1	-	2	439	c.319T>C	c.(319-321)TCA>CCA	p.S107P		NM_001017978	NP_001017978	Q5H943	KKLC1_HUMAN	chromosome X open reading frame 61	107	Extracellular (Potential).					integral to membrane|plasma membrane					0						CGGTGAGGTGATGCACCTCTG	0.413													11	175					0	0	1	0	0		G	115592931	G	G	115592931	3	3	27	1	0	0	0	0	1	0	0	0	4119	333	12	3	26	3	CXorf61	23	115592931	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	288696	115592931	39677629	8427	30778											
WDR44	54521	broad.mit.edu	37	chrX	117528054	117528054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacgtctgattctctcctaaCcgcaagcatggcttcagaaa	11	11	7	12	2	3	2	1	1	2	1	5	2	4	2	2	1	3	3	2	1	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:117528054C>T	uc004eqn.2	+	5	1288	c.863C>T	c.(862-864)ACC>ATC	p.T288I	WDR44_uc004eqo.2_Missense_Mutation_p.T288I|WDR44_uc011mtr.1_Missense_Mutation_p.T263I|WDR44_uc010nqi.2_5'UTR	NM_019045	NP_061918	Q5JSH3	WDR44_HUMAN	WD repeat domain 44 protein	288						cytosol|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm				lung(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5						TCTCTCCTAACCGCAAGCATG	0.353													6	96					0	0	1	0	0		T	117528054	T	T	117528054	3	4	27	1	0	0	0	0	1	0	0	0	17322	507	18	4	881	4	WDR44	23	117528054	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1935123	117528054	37742506	8428	30779											
DOCK11	139818	broad.mit.edu	37	chrX	117695459	117695459	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggttgcatctacttggaCgcctgcattgatgttgttca	9	14	10	8	1	2	1	1	1	1	0	2	2	2	2	1	2	3	5	1	2	2	6	rs112113377	by1000genomes	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:117695459C>T	uc004eqp.2	+	7	735	c.672C>T	c.(670-672)GAC>GAT	p.D224D	DOCK11_uc004eqq.2_Translation_Start_Site	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	224	PH.				blood coagulation	cytosol	GTP binding			ovary(3)	3						TCTACTTGGACGCCTGCATTG	0.343													22	82					0	0	1	0	0		T	117695459	T	T	117695459	2	4	27	1	0	0	0	0	0	0	0	1	4692	535	19	1		1	DOCK11	23	117695459	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	167405	117695459	37575101	8429	30780											
DOCK11	139818	broad.mit.edu	37	chrX	117742033	117742033	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcttgtgaatgtcgtttcAgggttctcttacatattgta	8	18	8	7	1	3	1	1	1	2	0	5	1	3	1	0	1	1	3	0	1	4	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:117742033A>G	uc004eqp.2	+	25	2745	c.2682_splice	c.e25-2	p.M894_splice	DOCK11_uc004eqq.2_Splice_Site_p.M660_splice	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11						blood coagulation	cytosol	GTP binding			ovary(3)	3						ATGTCGTTTCAGGGTTCTCTT	0.363													22	71					0	0	1	0	0		G	117742033	G	G	117742033	5	3	27	1	0	0	0	0	0	0	1	0	4692	202	7	3	2778	3	DOCK11	23	117742033	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	46574	117742033	37528527	8430	30781											
LONRF3	79836	broad.mit.edu	37	chrX	118123421	118123421	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caggaggaagcagcagccagGggagatggcagcagtctgat	12	4	17	8	0	1	2	0	1	1	1	1	5	1	4	1	5	4	4	1	5	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:118123421G>T	uc004eqw.2	+	4	1141	c.1110G>T	c.(1108-1110)AGG>AGT	p.R370S	LONRF3_uc004eqx.2_Missense_Mutation_p.R329S|LONRF3_uc004eqy.2_RNA|LONRF3_uc004eqz.2_Missense_Mutation_p.R114S	NM_001031855	NP_001027026	Q496Y0	LONF3_HUMAN	LON peptidase N-terminal domain and ring finger	370					proteolysis		ATP-dependent peptidase activity|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)	2						CAGCAGCCAGGGGAGATGGCA	0.502													8	68					5.18039e-06	5.59131e-06	1	1	0		T	118123421	T	T	118123421	3	4	27	1	0	0	0	0	1	0	0	0	8914	1223	43	5	1124	5	LONRF3	23	118123421	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	381388	118123421	37147139	8431	30782											
SLC25A43	203427	broad.mit.edu	37	chrX	118586848	118586848	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atagttccatattttggaatTatgtttagcacctttgagtt	10	19	7	5	0	0	1	0	1	0	0	1	2	1	2	2	1	1	4	2	1	5	10			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:118586848T>C	uc004erd.2	+	5	1190	c.846T>C	c.(844-846)ATT>ATC	p.I282I	SLC25A43_uc011mtt.1_Missense_Mutation_p.Y225H	NM_145305	NP_660348	Q8WUT9	S2543_HUMAN	mitochondrial solute carrier protein	282	Solcar 3.|Helical; Name=6; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			skin(1)	1						ATTTTGGAATTATGTTTAGCA	0.353													8	83					0	0	1	0	0		C	118586848	C	C	118586848	2	2	27	1	0	0	0	0	0	0	0	1	14533	1742	61	3		3	SLC25A43	23	118586848	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	463427	118586848	36683712	8432	30783											
UBE2A	7319	broad.mit.edu	37	chrX	118708930	118708930	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaacataatggtgtggaaCgcggtcattttcgggtgagt	11	11	13	6	3	1	1	1	1	0	0	2	2	1	2	0	4	3	0	0	4	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:118708930C>T	uc004erl.2	+	2	287	c.111C>T	c.(109-111)AAC>AAT	p.N37N	UBE2A_uc004erm.2_Silent_p.N37N|UBE2A_uc004ern.2_RNA|UBE2A_uc004ero.2_RNA	NM_003336	NP_003327	P49459	UBE2A_HUMAN	ubiquitin-conjugating enzyme E2A isoform 1	37					histone H2A ubiquitination|positive regulation of cell proliferation|postreplication repair|protein autoubiquitination|protein K11-linked ubiquitination|protein K48-linked ubiquitination|response to UV|ubiquitin-dependent protein catabolic process		ATP binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity				0						TGGTGTGGAACGCGGTCATTT	0.667								Direct_reversal_of_damage|Rad6_pathway					7	60					0	0	1	0	0		T	118708930	T	T	118708930	2	4	27	1	0	0	0	0	0	0	0	1	16870	535	19	1		1	UBE2A	23	118708930	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	122082	118708930	36561630	8433	30784											
NKRF	55922	broad.mit.edu	37	chrX	118723331	118723331	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctcaatttgcttgaggcAtaacaagctcgtaatggccc	11	11	9	10	1	1	1	1	1	1	0	3	2	1	1	1	2	3	4	1	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:118723331A>G	uc004erq.2	-	2	2710	c.2057T>C	c.(2056-2058)ATG>ACG	p.M686T	NKRF_uc004err.2_Missense_Mutation_p.M686T	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	686					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2						TGCTTGAGGCATAACAAGCTC	0.403													9	94					0	0	1	0	0		G	118723331	G	G	118723331	3	3	27	1	0	0	0	0	1	0	0	0	10466	217	8	3	19	3	NKRF	23	118723331	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	14401	118723331	36547229	8434	30785											
SEPT6	23157	broad.mit.edu	37	chrX	118797509	118797509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgtgagctttagcctcaCgttgctctcttggaggtcat	6	14	11	10	2	3	1	2	1	1	0	5	3	3	2	1	2	3	3	1	2	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:118797509C>T	uc004erv.2	-	3	542	c.277G>A	c.(277-279)GTG>ATG	p.V93M	SEPT6_uc010nqk.2_RNA|SEPT6_uc004ers.2_Missense_Mutation_p.V93M|SEPT6_uc004ert.2_Missense_Mutation_p.V93M|SEPT6_uc004eru.2_Missense_Mutation_p.V93M|SEPT6_uc004erw.2_Missense_Mutation_p.V35M|SEPT6_uc011mtv.1_Missense_Mutation_p.V35M|SEPT6_uc011mtw.1_Missense_Mutation_p.V123M	NM_015129	NP_055944	Q14141	SEPT6_HUMAN	septin 6 isoform B	93					cell cycle|cytokinesis|interspecies interaction between organisms	cleavage furrow|condensed chromosome kinetochore|midbody|septin complex|spindle	GTP binding|protein binding			lung(1)|ovary(1)|prostate(1)|kidney(1)	4						TTTAGCCTCACGTTGCTCTCT	0.562													27	331					0	0	1	0	0		T	118797509	T	T	118797509	3	4	27	1	0	0	0	0	1	0	0	0	14093	536	19	1	1081	1	SEPT6	23	118797509	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	74178	118797509	36473051	8435	30786											
UPF3B	65109	broad.mit.edu	37	chrX	118968985	118968985	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtaaagctgcatcgctggAcgatcctgaagtacaataaa	14	9	10	8	2	0	1	0	1	0	0	2	3	1	2	1	2	3	5	1	2	7	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:118968985A>T	uc004erz.1	-	11	1385	c.1308T>A	c.(1306-1308)CGT>CGA	p.R436R	UPF3B_uc004esa.1_Silent_p.R423R	NM_080632	NP_542199	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B	436	Necessary for interaction with RBM8A and for activating NMD.|Sufficient for association with EJC core.			R->A: Impairs association with EJC.|R->A: Reduces NMD.|Missing: Abolishes NMD.	mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|termination of RNA polymerase II transcription	cytosol|exon-exon junction complex|nucleoplasm	mRNA binding|nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(2)|kidney(1)	3						GCATCGCTGGACGATCCTGAA	0.418													19	109					0	0	1	0	0		T	118968985	T	T	118968985	2	4	27	1	0	0	0	0	0	0	0	1	17032	262	10	5		5	UPF3B	23	118968985	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	171476	118968985	36301575	8436	30787											
RNF113A	7737	broad.mit.edu	37	chrX	119005489	119005489	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggccgggcgctttctgcGtccagcagcccctttccgcc	3	8	12	18	4	1	0	0	0	1	0	3	0	3	0	6	2	3	3	6	2	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:119005489G>A	uc004esb.2	-	1	303	c.88C>T	c.(88-90)CGC>TGC	p.R30C	NDUFA1_uc004esc.3_5'Flank	NM_006978	NP_008909	O15541	R113A_HUMAN	ring finger protein 113A	30							nucleic acid binding|zinc ion binding			breast(2)	2						CGCTTTCTGCGTCCAGCAGCC	0.597													9	155					0	0	1	0	0		A	119005489	A	A	119005489	3	1	27	1	0	0	0	0	1	0	0	0	13452	1145	40	1	947	1	RNF113A	23	119005489	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	36504	119005489	36265071	8437	30788											
CT47B1	643311	broad.mit.edu	37	chrX	120008858	120008858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctgggggtttctcatctgCggcctcctccgcgggctccc	1	11	12	17	3	3	0	1	0	3	0	7	0	6	0	4	4	1	2	4	4	0	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:120008858C>T	uc011muc.1	-	1	922	c.667G>A	c.(667-669)GCA>ACA	p.A223T		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	223											0						TTCTCATCTGCGGCCTCCTCC	0.547													9	142					0	0	1	0	0		T	120008858	T	T	120008858	3	4	27	1	0	0	0	0	1	0	0	0	3992	768	27	1	240	1	CT47B1	23	120008858	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1003369	120008858	35261702	8438	30789											
GLUD2	2747	broad.mit.edu	37	chrX	120181790	120181790	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagcatcgtggaggacaaGttggtgaaggacctgaggac	11	6	16	8	1	0	2	0	2	0	0	1	6	0	6	2	5	1	2	2	5	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:120181790G>C	uc004eto.2	+	1	329	c.252G>C	c.(250-252)AAG>AAC	p.K84N		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	84		Substrate (By similarity).			glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	TGGAGGACAAGTTGGTGAAGG	0.617													6	103					0	0	1	0	0		C	120181790	C	C	120181790	3	2	27	1	0	0	0	0	1	0	0	0	6492	1020	36	5	254	5	GLUD2	23	120181790	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	172932	120181790	35088770	8439	30790											
GLUD2	2747	broad.mit.edu	37	chrX	120182575	120182575	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccagatggtattgacccaaAggaactggaagacttcaaat	15	9	9	8	0	1	3	1	1	0	2	2	5	2	5	2	3	1	1	2	3	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:120182575A>C	uc004eto.2	+	1	1114	c.1037A>C	c.(1036-1038)AAG>ACG	p.K346T		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	346					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	ATTGACCCAAAGGAACTGGAA	0.453													18	200					0	0	1	0	0		C	120182575	C	C	120182575	3	2	27	1	0	0	0	0	1	0	0	0	6492	72	3	5	1039	5	GLUD2	23	120182575	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	785	120182575	35087985	8440	30791											
GRIA3	2892	broad.mit.edu	37	chrX	122551552	122551553	+	Missense_Mutation	DNP	AA	GT	GT																															caaagtcctcctgatcctccAaatgaatttggaatatttaa																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:122551552_122551553AA>GT	uc004etq.3	+	12	2093_2094	c.1800_1801AA>GT	c.(1798-1803)CCAAAT>CCGTAT	p.N601Y	GRIA3_uc004etr.3_Missense_Mutation_p.N601Y|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.N585Y	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	601	Cytoplasmic (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	CTGATCCTCCAAATGAATTTGG	0.416													8	169					0	0	1	0	0		GT	122551553	GT	GT	122551552	3	3	27	1	0	0	0	0	1	0	0	0	6785	117	5	3	1842	3	GRIA3	23	122551552	Missense_Mutation	DNP	AA	TCGA-BR-6452-01A-12D-1800-08	2368977	122551552	32719008	8441	30792											
THOC2	57187	broad.mit.edu	37	chrX	122756954	122756954	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtttctacaaataagcatAccagtctcctcagtactgct	13	12	5	11	0	3	0	1	0	2	0	4	0	3	0	2	0	5	4	2	0	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:122756954A>G	uc004etu.2	-	29	3714	c.3682_splice	c.e29+1	p.D1228_splice	THOC2_uc010nqt.1_5'Flank|THOC2_uc004etw.1_Intron	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2						intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						AAATAAGCATACCAGTCTCCT	0.373													5	106					0	0	1	0	0		G	122756954	G	G	122756954	5	3	27	1	0	0	0	0	0	0	1	0	15890	405	14	3	1137	3	THOC2	23	122756954	Splice_Site	SNP	A	TCGA-BR-6452-01A-12D-1800-08	205402	122756954	32513606	8442	30793											
THOC2	57187	broad.mit.edu	37	chrX	122757104	122757104	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattttcaggtatcatgtaTgactttctacttttcaactg	9	19	5	8	0	5	1	4	1	1	0	5	1	5	1	0	1	2	2	0	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:122757104T>C	uc004etu.2	-	29	3566	c.3534A>G	c.(3532-3534)TCA>TCG	p.S1178S	THOC2_uc010nqt.1_5'Flank|THOC2_uc004etw.1_5'UTR	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1178					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						GTATCATGTATGACTTTCTAC	0.403													12	115					0	0	1	0	0		C	122757104	C	C	122757104	2	2	27	1	0	0	0	0	0	0	0	1	15890	1451	51	3		3	THOC2	23	122757104	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	150	122757104	32513456	8443	30794											
THOC2	57187	broad.mit.edu	37	chrX	122830676	122830676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcgttcctttagaactGtgtctgaaactaaatactgt	11	13	8	9	1	1	2	0	1	1	1	2	2	2	2	2	1	3	1	2	1	6	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:122830676G>A	uc004etu.2	-	6	394	c.362C>T	c.(361-363)ACA>ATA	p.T121I	THOC2_uc011muh.1_Missense_Mutation_p.T42I|THOC2_uc011mui.1_Missense_Mutation_p.T6I	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	121					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						CTTTAGAACTGTGTCTGAAAC	0.308													10	99					0	0	1	0	0		A	122830676	A	A	122830676	3	1	27	1	0	0	0	0	1	0	0	0	15890	1377	48	4	4551	4	THOC2	23	122830676	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	73572	122830676	32439884	8444	30795											
STAG2	10735	broad.mit.edu	37	chrX	123171416	123171416	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaatcatacaagcatgacCgagatatagcacttcttgac	15	10	7	9	1	2	4	1	2	1	2	2	5	2	4	1	0	3	2	1	0	6	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:123171416C>T	uc004etz.3	+	5	667	c.328C>T	c.(328-330)CGA>TGA	p.R110*	STAG2_uc004eua.2_Nonsense_Mutation_p.R110*|STAG2_uc004eub.2_Nonsense_Mutation_p.R110*|STAG2_uc004euc.2_Nonsense_Mutation_p.R110*|STAG2_uc004eud.2_Nonsense_Mutation_p.R110*|STAG2_uc004eue.2_Nonsense_Mutation_p.R110*	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	110					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						CAAGCATGACCGAGATATAGC	0.323													4	101					0	0	1	0	0		T	123171416	T	T	123171416	4	4	27	1	0	0	0	0	0	1	0	0	15268	644	23	1	342	1	STAG2	23	123171416	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	340740	123171416	32099144	8445	30796											
ODZ1	10178	broad.mit.edu	37	chrX	123631108	123631108	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttctccattccctttatgTatgattcctagattcaagga	9	18	5	9	0	2	2	1	1	1	1	5	3	4	3	3	1	0	1	3	1	4	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:123631108T>C	uc004euj.2	-	20	3517	c.3453A>G	c.(3451-3453)ATA>ATG	p.I1151M	ODZ1_uc011muj.1_Missense_Mutation_p.I1150M|ODZ1_uc010nqy.2_Missense_Mutation_p.I1151M	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1151	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TCCCTTTATGTATGATTCCTA	0.358													7	23					0	0	1	0	0		C	123631108	C	C	123631108	3	2	27	1	0	0	0	0	1	0	0	0	10853	1628	57	3	4797	3	ODZ1	23	123631108	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	459692	123631108	31639452	8446	30797											
ODZ1	10178	broad.mit.edu	37	chrX	123663719	123663719	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacattgacataccttccAtcttgccggctgatggtaaa	12	11	7	11	1	1	2	0	2	1	0	2	2	2	2	3	2	3	2	3	2	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:123663719A>G	uc004euj.2	-	16	2830	c.2766T>C	c.(2764-2766)GAT>GAC	p.D922D	ODZ1_uc011muj.1_Silent_p.D921D|ODZ1_uc010nqy.2_Silent_p.D922D	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	922	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CATACCTTCCATCTTGCCGGC	0.478													7	118					0	0	1	0	0		G	123663719	G	G	123663719	2	3	27	1	0	0	0	0	0	0	0	1	10853	214	8	3		3	ODZ1	23	123663719	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	32611	123663719	31606841	8447	30798											
ODZ1	10178	broad.mit.edu	37	chrX	124028174	124028174	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagcttgagcctccatgTcacaacaaacaggagagaat	15	6	8	12	0	1	2	1	1	0	1	2	4	2	3	3	1	4	1	3	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:124028174T>G	uc004euj.2	-	3	570	c.506A>C	c.(505-507)GAC>GCC	p.D169A	ODZ1_uc011muj.1_Missense_Mutation_p.D169A|ODZ1_uc010nqy.2_Missense_Mutation_p.D169A	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	169	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						AGCCTCCATGTCACAACAAAC	0.418													6	75					0	0	1	0	0		G	124028174	G	G	124028174	3	3	27	1	0	0	0	0	1	0	0	0	10853	1667	58	5	7812	5	ODZ1	23	124028174	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	364455	124028174	31242386	8448	30799											
DCAF12L2	340578	broad.mit.edu	37	chrX	125298619	125298619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtagcagtgggtgtagagcGcattggggaactctcccatg	8	10	15	8	1	1	1	0	0	1	1	2	2	1	2	1	3	3	4	1	3	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:125298619G>A	uc004euk.1	-	1	1316	c.1289C>T	c.(1288-1290)GCG>GTG	p.A430V		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	430										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						GGTGTAGAGCGCATTGGGGAA	0.602													15	153					0	0	1	0	0		A	125298619	A	A	125298619	3	1	27	1	0	0	0	0	1	0	0	0	4268	1087	38	1	106	1	DCAF12L2	23	125298619	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1270445	125298619	29971941	8449	30800											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299369	125299369	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcacagggggtccagggtgGgcagctggtagatggccagg	7	5	21	8	0	0	1	0	0	0	1	1	1	1	1	2	8	1	4	2	8	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:125299369G>T	uc004euk.1	-	1	566	c.539C>A	c.(538-540)CCC>CAC	p.P180H		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	180	WD 1.									lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						GTCCAGGGTGGGCAGCTGGTA	0.662													12	56					2.27111e-07	2.47899e-07	1	1	0		T	125299369	T	T	125299369	3	4	27	1	0	0	0	0	1	0	0	0	4268	1232	43	5	856	5	DCAF12L2	23	125299369	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	750	125299369	29971191	8450	30801											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299872	125299872	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccgcctcgaccgcgggcgcTttccgtttcctgctacctgt	2	11	10	18	6	0	0	0	0	0	0	3	1	2	0	6	1	2	3	6	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:125299872T>G	uc004euk.1	-	1	63	c.36A>C	c.(34-36)AAA>AAC	p.K12N		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	12										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						CCGCGGGCGCTTTCCGTTTCC	0.537													3	23					0	0	1	0	0		G	125299872	G	G	125299872	3	3	27	1	0	0	0	0	1	0	0	0	4268	1606	56	5	1359	5	DCAF12L2	23	125299872	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	503	125299872	29970688	8451	30802											
DCAF12L1	139170	broad.mit.edu	37	chrX	125685932	125685932	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacttgtccgggtccatccgCcacagcgccacagtgccgtc	7	7	10	17	4	0	0	0	0	0	0	4	0	3	0	6	1	3	0	6	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:125685932C>A	uc004eul.2	-	1	911	c.660G>T	c.(658-660)TGG>TGT	p.W220C		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	220	WD 2.									skin(3)|ovary(1)	4						GGTCCATCCGCCACAGCGCCA	0.652													6	56					0.0215528	0.0219246	1	1	0		A	125685932	A	A	125685932	3	1	27	1	0	0	0	0	1	0	0	0	4267	740	26	5	735	5	DCAF12L1	23	125685932	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	386060	125685932	29584628	8452	30803											
ACTRT1	139741	broad.mit.edu	37	chrX	127185200	127185200	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcaggagaagctgtgatcTtgatgggagtacctttggaa	11	12	13	5	0	2	3	1	2	1	1	2	6	2	5	1	3	2	2	1	3	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:127185200T>C	uc004eum.2	-	1	1183	c.986A>G	c.(985-987)AAG>AGG	p.K329R		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	329						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						AGCTGTGATCTTGATGGGAGT	0.532													8	112					0	0	1	0	0		C	127185200	C	C	127185200	3	2	27	1	0	0	0	0	1	0	0	0	218	1609	56	3	148	3	ACTRT1	23	127185200	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1499268	127185200	28085360	8453	30804											
OCRL	4952	broad.mit.edu	37	chrX	128722913	128722913	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcattttcttggaagccCtgccagagccagtcatctgt	7	13	9	12	0	4	1	2	0	2	1	4	2	4	2	3	1	4	1	3	1	1	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:128722913C>A	uc004euq.2	+	22	2557	c.2392C>A	c.(2392-2394)CTG>ATG	p.L798M	OCRL_uc004eur.2_Missense_Mutation_p.L790M|OCRL_uc010nrb.2_RNA	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	798	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						CTTGGAAGCCCTGCCAGAGCC	0.527													4	114					1.024e-07	1.12055e-07	1	1	0		A	128722913	A	A	128722913	3	1	27	1	0	0	0	0	1	0	0	0	10842	680	24	5	2478	5	OCRL	23	128722913	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1537713	128722913	26547647	8454	30805											
XPNPEP2	7512	broad.mit.edu	37	chrX	128877956	128877956	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaccttccagttactgtggTcaataccacaatgtcactca	11	12	6	12	0	3	0	3	0	0	0	4	0	4	0	3	1	3	2	3	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:128877956T>C	uc004eut.1	+	3	387	c.143T>C	c.(142-144)GTC>GCC	p.V48A	XPNPEP2_uc011mum.1_Missense_Mutation_p.V48A	NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound	48					cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						GTTACTGTGGTCAATACCACA	0.488													34	117					0	0	1	0	0		C	128877956	C	C	128877956	3	2	27	1	0	0	0	0	1	0	0	0	17469	1667	58	3	153	3	XPNPEP2	23	128877956	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	155043	128877956	26392604	8455	30806											
UTP14A	10813	broad.mit.edu	37	chrX	129041389	129041389	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aactagcggatttgccaaaaGactacctcttgagtgagagt	13	10	10	8	1	1	3	0	2	1	2	1	5	1	4	2	1	4	0	2	1	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:129041389G>C	uc004euz.2	+	2	101	c.73G>C	c.(73-75)GAC>CAC	p.D25H	UTP14A_uc011mup.1_Missense_Mutation_p.D25H|UTP14A_uc011muq.1_5'UTR	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	25					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						TTTGCCAAAAgactacctctt	0.254													12	56					0	0	1	0	0		C	129041389	C	C	129041389	3	2	27	1	0	0	0	0	1	0	0	0	17121	942	33	5	79	5	UTP14A	23	129041389	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	163433	129041389	26229171	8456	30807											
BCORL1	63035	broad.mit.edu	37	chrX	129147516	129147516	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcccttagcacctgtcccGgctctggctccagcgccacc	4	8	8	21	2	1	0	0	0	1	0	4	0	4	0	7	2	2	3	7	2	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:129147516G>A	uc004evb.1	+	4	882	c.768G>A	c.(766-768)CCG>CCA	p.P256P	BCORL1_uc010nrd.1_Silent_p.P158P	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	256	Pro-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						CACCTGTCCCGGCTCTGGCTC	0.622													15	161					0	0	1	0	0		A	129147516	A	A	129147516	2	1	27	1	0	0	0	0	0	0	0	1	1388	1103	39	1		1	BCORL1	23	129147516	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	106127	129147516	26123044	8457	30808											
BCORL1	63035	broad.mit.edu	37	chrX	129159025	129159025	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggaagccaggaagtctTccccacagaagaagaagagg	15	4	13	9	0	1	4	0	0	1	4	2	6	2	6	3	3	1	0	3	3	5	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:129159025T>C	uc004evb.1	+	7	3863	c.3749T>C	c.(3748-3750)TTC>TCC	p.F1250S	BCORL1_uc010nrd.1_Intron|BCORL1_uc004evc.1_Missense_Mutation_p.F12S	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1250					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						CAGGAAGTCTTCCCCACAGAA	0.552													11	162					0	0	1	0	0		C	129159025	C	C	129159025	3	2	27	1	0	0	0	0	1	0	0	0	1388	1783	62	3	3771	3	BCORL1	23	129159025	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	11509	129159025	26111535	8458	30809											
BCORL1	63035	broad.mit.edu	37	chrX	129185849	129185849	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacagaggaaaaagacgggTttgcctgtgacctcctacat	12	10	10	9	1	0	3	0	1	0	2	1	4	1	4	3	2	3	1	3	2	4	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:129185849T>G	uc004evb.1	+	12	4825	c.4711T>G	c.(4711-4713)TTT>GTT	p.F1571V	BCORL1_uc004evc.1_Missense_Mutation_p.F407V	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1571					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						AAAAGACGGGTTTGCCTGTGA	0.463													16	218					0	0	1	0	0		G	129185849	G	G	129185849	3	3	27	1	0	0	0	0	1	0	0	0	1388	1725	60	5	4979	5	BCORL1	23	129185849	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	26824	129185849	26084711	8459	30810											
ZNF280C	55609	broad.mit.edu	37	chrX	129339307	129339307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggcaagtatgagttttacGttgacttaagtgtttagcca	10	16	10	5	1	0	2	0	2	0	0	0	2	0	2	1	1	2	5	1	1	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:129339307G>A	uc004evm.2	-	17	2279	c.2125C>T	c.(2125-2127)CGT>TGT	p.R709C		NM_017666	NP_060136	Q8ND82	Z280C_HUMAN	zinc finger protein 280C	709					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)	3						TGAGTTTTACGTTGACTTAAG	0.333													13	55					0	0	1	0	0		A	129339307	A	A	129339307	3	1	27	1	0	0	0	0	1	0	0	0	17841	1145	40	1	100	1	ZNF280C	23	129339307	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	153458	129339307	25931253	8460	30811											
ZNF280C	55609	broad.mit.edu	37	chrX	129362957	129362957	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactttcacttactagaaaActcatggggagtgtgtgtac	13	12	9	7	0	2	1	2	0	0	1	2	2	2	2	0	2	4	1	0	2	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:129362957A>G	uc004evm.2	-	10	1295	c.1141T>C	c.(1141-1143)TTT>CTT	p.F381L	ZNF280C_uc010nrf.1_Missense_Mutation_p.F381L	NM_017666	NP_060136	Q8ND82	Z280C_HUMAN	zinc finger protein 280C	381					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)	3						TTACTAGAAAACTCATGGGGA	0.428													14	137					0	0	1	0	0		G	129362957	G	G	129362957	3	3	27	1	0	0	0	0	1	0	0	0	17841	43	2	3	1112	3	ZNF280C	23	129362957	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	23650	129362957	25907603	8461	30812											
ENOX2	10495	broad.mit.edu	37	chrX	129804045	129804045	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccattcttctacgatggcgCtcctctctggctagcatacg	6	13	8	14	3	3	0	0	0	3	0	6	1	5	0	2	2	3	3	2	2	3	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:129804045C>A	uc004evw.2	-	8	1093	c.675G>T	c.(673-675)GAG>GAT	p.E225D	ENOX2_uc004evx.2_Missense_Mutation_p.E196D|ENOX2_uc004evy.2_Missense_Mutation_p.E196D|ENOX2_uc004evv.2_Missense_Mutation_p.E52D	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	225					cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						TACGATGGCGCTCCTCTCTGG	0.493													8	77					0.000274275	0.000288501	1	1	0		A	129804045	A	A	129804045	3	1	27	1	0	0	0	0	1	0	0	0	5135	796	28	5	1193	5	ENOX2	23	129804045	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	441088	129804045	25466515	8462	30813											
IGSF1	3547	broad.mit.edu	37	chrX	130408638	130408638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcagggtaggcctggaggCggtagctgcagctgtagttt	7	11	16	7	1	1	0	1	0	0	0	1	1	1	1	1	5	3	7	1	5	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:130408638C>T	uc004ewd.2	-	18	3924	c.3686G>A	c.(3685-3687)CGC>CAC	p.R1229H	IGSF1_uc004ewe.3_Missense_Mutation_p.R1223H|IGSF1_uc004ewf.2_Missense_Mutation_p.R1209H	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	1229	Extracellular (Potential).|Ig-like C2-type 12.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GGCCTGGAGGCGGTAGCTGCA	0.517													12	203					0	0	1	0	0		T	130408638	T	T	130408638	3	4	27	1	0	0	0	0	1	0	0	0	7612	768	27	1	336	1	IGSF1	23	130408638	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	604593	130408638	24861922	8463	30814											
IGSF1	3547	broad.mit.edu	37	chrX	130416641	130416641	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccactggtcctcgacaccgTaggctcacattctgacccat	8	10	7	16	2	2	1	1	1	1	0	5	2	4	1	4	2	0	2	4	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:130416641T>C	uc004ewd.2	-	7	1261	c.1023A>G	c.(1021-1023)CTA>CTG	p.L341L	IGSF1_uc004ewe.3_Silent_p.L330L|IGSF1_uc004ewf.2_Silent_p.L321L	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	341	Ig-like C2-type 4.|Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						CTCGACACCGTAGGCTCACAT	0.493													10	87					0	0	1	0	0		C	130416641	C	C	130416641	2	2	27	1	0	0	0	0	0	0	0	1	7612	1625	57	3		3	IGSF1	23	130416641	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	8003	130416641	24853919	8464	30815											
FRMD7	90167	broad.mit.edu	37	chrX	131211940	131211940	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggttttagtgaagtcctgTcttcagcagttggtgtgttg	6	17	13	5	0	2	1	1	1	1	0	3	1	3	1	1	2	1	4	1	2	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:131211940T>A	uc004ewn.2	-	12	2283	c.2105A>T	c.(2104-2106)GAC>GTC	p.D702V	FRMD7_uc011muy.1_Missense_Mutation_p.D687V	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	702					regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TGAAGTCCTGTCTTCAGCAGT	0.403													6	82					0	0	1	0	0		A	131211940	A	A	131211940	3	1	27	1	0	0	0	0	1	0	0	0	6069	1667	58	5	43	5	FRMD7	23	131211940	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	795299	131211940	24058620	8465	30816											
RAP2C	57826	broad.mit.edu	37	chrX	131348297	131348297	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagttcatccaccattgAtttactttttgccgatgtct	11	16	5	9	1	2	1	1	1	1	0	3	2	3	1	3	0	2	1	3	0	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:131348297A>T	uc004ewp.2	-	3	1235	c.451T>A	c.(451-453)TCA>ACA	p.S151T	RAP2C_uc004ewo.2_Missense_Mutation_p.S85T|RAP2C_uc010nrk.2_RNA|RAP2C_uc004ewq.3_Missense_Mutation_p.S151T	NM_021183	NP_067006	Q9Y3L5	RAP2C_HUMAN	RAP2C, member of RAS oncogene family precursor	151					negative regulation of cell migration|positive regulation of protein autophosphorylation|Rap protein signal transduction|regulation of protein tyrosine kinase activity	recycling endosome membrane	GTP binding|GTPase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TCCACCATTGATTTACTTTTT	0.458													17	136					0	0	1	0	0		T	131348297	T	T	131348297	3	4	27	1	0	0	0	0	1	0	0	0	13067	333	12	5	104	5	RAP2C	23	131348297	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	136357	131348297	23922263	8466	30817											
USP26	83844	broad.mit.edu	37	chrX	132160099	132160099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatcttcatacaaatctttaGtaggattgataatcctatca	14	16	4	7	0	4	1	2	1	2	0	5	2	5	2	1	1	1	1	1	1	7	9			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:132160099G>A	uc010nrm.1	-	6	2620	c.2150C>T	c.(2149-2151)ACT>ATT	p.T717I	USP26_uc011mvf.1_Missense_Mutation_p.T717I	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	717					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					CAAATCTTTAGTAGGATTGAT	0.343													14	118					0	0	1	0	0		A	132160099	A	A	132160099	3	1	27	1	0	0	0	0	1	0	0	0	17083	1029	36	4	594	4	USP26	23	132160099	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	811802	132160099	23110461	8467	30818											
USP26	83844	broad.mit.edu	37	chrX	132160305	132160305	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaacggttctttttcaatGaatgctcgatctcctgagta	9	15	8	9	2	3	2	1	2	2	0	5	3	3	2	1	1	2	4	1	1	4	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:132160305G>T	uc010nrm.1	-	6	2414	c.1944C>A	c.(1942-1944)TTC>TTA	p.F648L	USP26_uc011mvf.1_Missense_Mutation_p.F648L	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	648					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					CTTTTTCAATGAATGCTCGAT	0.433													5	107					3.59834e-05	3.83694e-05	1	1	0		T	132160305	T	T	132160305	3	4	27	1	0	0	0	0	1	0	0	0	17083	1281	45	5	800	5	USP26	23	132160305	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	206	132160305	23110255	8468	30819											
USP26	83844	broad.mit.edu	37	chrX	132161101	132161101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgagctaaaaactcatgaGcatcgttctgtgcattgcca	12	11	9	9	1	2	2	1	2	1	0	3	2	2	2	1	0	5	4	1	0	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:132161101G>A	uc010nrm.1	-	6	1618	c.1148C>T	c.(1147-1149)GCT>GTT	p.A383V	USP26_uc011mvf.1_Missense_Mutation_p.A383V	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	383					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					AAACTCATGAGCATCGTTCTG	0.353													9	131					0	0	1	0	0		A	132161101	A	A	132161101	3	1	27	1	0	0	0	0	1	0	0	0	17083	971	34	2	1596	2	USP26	23	132161101	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	796	132161101	23109459	8469	30820											
FAM127C	441518	broad.mit.edu	37	chrX	134156176	134156176	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcgtcctcctcccatccaAagacccgcttcatctcagcc	7	9	4	21	2	2	1	2	0	1	1	8	1	6	1	7	0	1	1	7	0	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:134156176A>G	uc004eyc.1	-	1	391	c.314T>C	c.(313-315)TTT>TCT	p.F105S		NM_001078173	NP_001071641	Q17RB0	F127C_HUMAN	family with sequence similarity 127, member C	105											0	Acute lymphoblastic leukemia(192;0.000127)					CTCCCATCCAAAGACCCGCTT	0.657													5	57					0	0	1	0	0		G	134156176	G	G	134156176	3	3	27	1	0	0	0	0	1	0	0	0	5444	14	1	3	31	3	FAM127C	23	134156176	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	1995075	134156176	21114384	8470	30821											
FAM127B	26071	broad.mit.edu	37	chrX	134186058	134186058	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaacgtctcgggaaagggAatcgggttcctccagcgacg	10	7	13	11	5	2	0	1	0	1	0	6	3	4	2	2	3	2	1	2	3	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:134186058A>G	uc004eyf.2	-	1	164	c.81T>C	c.(79-81)ATT>ATC	p.I27I	FAM127B_uc004eyg.3_Silent_p.I27I	NM_001078172	NP_001071640	Q9BWD3	F127B_HUMAN	family with sequence similarity 127, member B	27											0	Acute lymphoblastic leukemia(192;0.000127)					CGGGAAAGGGAATCGGGTTCC	0.667													8	119					0	0	1	0	0		G	134186058	G	G	134186058	2	3	27	1	0	0	0	0	0	0	0	1	5443	242	9	3		3	FAM127B	23	134186058	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	29882	134186058	21084502	8471	30822											
ZNF75D	7626	broad.mit.edu	37	chrX	134426266	134426266	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcccagctgttcttgtagtAcccggtatgtattccaatat	9	14	8	10	1	1	0	0	0	1	0	2	0	2	0	3	1	3	6	3	1	6	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:134426266A>G	uc004eyp.2	-	4	3200	c.545T>C	c.(544-546)GTA>GCA	p.V182A	ZNF75D_uc004eym.2_Intron|ZNF75D_uc004eyn.2_5'UTR|ZNF75D_uc004eyo.2_Intron	NM_007131	NP_009062	P51815	ZN75D_HUMAN	zinc finger protein 75	182					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTCTTGTAGTACCCGGTATGT	0.502													14	102					0	0	1	0	0		G	134426266	G	G	134426266	3	3	27	1	0	0	0	0	1	0	0	0	18159	391	14	3	1003	3	ZNF75D	23	134426266	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	240208	134426266	20844294	8472	30823											
DDX26B	203522	broad.mit.edu	37	chrX	134680680	134680680	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgaactaaccaaagaaccTtttcgttgggatcaaaggtt	14	11	9	7	1	1	2	1	1	0	1	2	3	1	3	2	2	3	2	2	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:134680680T>A	uc004eyw.3	+	5	846	c.483T>A	c.(481-483)CCT>CCA	p.P161P		NM_182540	NP_872346	Q5JSJ4	DX26B_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	161	VWFA.										0	Acute lymphoblastic leukemia(192;6.56e-05)					CCAAAGAACCTTTTCGTTGGG	0.443													16	157					0	0	1	0	0		A	134680680	A	A	134680680	2	1	27	1	0	0	0	0	0	0	0	1	4356	1596	56	5		5	DDX26B	23	134680680	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	254414	134680680	20589880	8473	30824											
SAGE1	55511	broad.mit.edu	37	chrX	134988582	134988582	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttccagatgctacagtcaCtcacaatgtctgtgaacaga	12	11	8	10	0	3	3	2	1	1	2	4	3	4	3	1	0	3	2	1	0	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:134988582C>T	uc004ezh.2	+	7	775	c.608C>T	c.(607-609)ACT>ATT	p.T203I	SAGE1_uc010nry.1_Missense_Mutation_p.T172I|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	203										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GCTACAGTCACTCACAATGTC	0.443													9	162					0	0	1	0	0		T	134988582	T	T	134988582	3	4	27	1	0	0	0	0	1	0	0	0	13834	565	20	4	630	4	SAGE1	23	134988582	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	307902	134988582	20281978	8474	30825											
MMGT1	93380	broad.mit.edu	37	chrX	135047292	135047292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggaaaagtactcgaccaCgatgattaaatacataaaag	18	7	8	8	3	0	1	0	1	0	0	1	4	0	2	2	1	2	1	2	1	8	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135047292C>T	uc004ezi.1	-	4	587	c.287G>A	c.(286-288)CGT>CAT	p.R96H	MMGT1_uc011mvw.1_Missense_Mutation_p.R161H	NM_173470	NP_775741	Q8N4V1	MMGT1_HUMAN	membrane magnesium transporter 1 precursor	96	Cytoplasmic (Potential).					early endosome membrane|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	magnesium ion transmembrane transporter activity				0						TACTCGACCACGATGATTAAA	0.358													58	166					0	0	1	0	0		T	135047292	T	T	135047292	3	4	27	1	0	0	0	0	1	0	0	0	9665	536	19	1	112	1	MMGT1	23	135047292	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	58710	135047292	20223268	8475	30826											
MAP7D3	79649	broad.mit.edu	37	chrX	135308164	135308164	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgagcttttattttggcGtcccctttctaggaaatttg	6	19	8	8	1	2	1	0	1	2	0	3	2	3	2	2	2	1	1	2	2	3	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135308164G>A	uc004ezt.2	-	13	2134	c.2043C>T	c.(2041-2043)GAC>GAT	p.D681D	MAP7D3_uc004ezs.2_Silent_p.D645D|MAP7D3_uc011mwc.1_Silent_p.D663D|MAP7D3_uc010nsa.1_Silent_p.D639D	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	681						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					TTATTTTGGCGTCCCCTTTCT	0.333													16	69					0	0	1	0	0		A	135308164	A	A	135308164	2	1	27	1	0	0	0	0	0	0	0	1	9287	1136	40	1		1	MAP7D3	23	135308164	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	260872	135308164	19962396	8476	30827											
GPR112	139378	broad.mit.edu	37	chrX	135405392	135405392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgaggttaaaagcatgatgCgtagctttcctggcagcttg	9	11	13	8	2	0	1	0	1	0	0	1	2	1	1	1	2	4	6	1	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135405392C>T	uc004ezu.1	+	5	817	c.526C>T	c.(526-528)CGT>TGT	p.R176C	GPR112_uc010nsb.1_Intron	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	176	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					AAGCATGATGCGTAGCTTTCC	0.448													21	158					0	0	1	0	0		T	135405392	T	T	135405392	3	4	27	1	0	0	0	0	1	0	0	0	6644	768	27	1	532	1	GPR112	23	135405392	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	97228	135405392	19865168	8477	30828											
GPR112	139378	broad.mit.edu	37	chrX	135427956	135427956	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttatacagaatatttatcCgcaactaccaatatcacccc	15	11	2	13	1	1	1	1	0	0	1	2	1	2	1	4	0	3	1	4	0	9	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135427956C>T	uc004ezu.1	+	6	2382	c.2091C>T	c.(2089-2091)TCC>TCT	p.S697S	GPR112_uc010nsb.1_Silent_p.S492S|GPR112_uc010nsc.1_Silent_p.S464S	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	697	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					AATATTTATCCGCAACTACCA	0.398													18	93					0	0	1	0	0		T	135427956	T	T	135427956	2	4	27	1	0	0	0	0	0	0	0	1	6644	639	23	1		1	GPR112	23	135427956	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	22564	135427956	19842604	8478	30829											
GPR112	139378	broad.mit.edu	37	chrX	135428674	135428674	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttaattttaaccacaccTatgtagcacattggacttca	12	15	5	9	0	1	0	1	0	0	0	1	1	1	1	2	1	2	3	2	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135428674T>C	uc004ezu.1	+	6	3100	c.2809T>C	c.(2809-2811)TAT>CAT	p.Y937H	GPR112_uc010nsb.1_Missense_Mutation_p.Y732H|GPR112_uc010nsc.1_Missense_Mutation_p.Y704H	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	937	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TAACCACACCTATGTAGCACA	0.423													5	234					0	0	1	0	0		C	135428674	C	C	135428674	3	2	27	1	0	0	0	0	1	0	0	0	6644	1522	53	3	2819	3	GPR112	23	135428674	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	718	135428674	19841886	8479	30830											
GPR112	139378	broad.mit.edu	37	chrX	135429100	135429100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccacaaccattgttattgtgCctacccatggagacttgatt	10	13	7	11	0	0	2	0	1	0	1	0	3	0	2	4	1	3	1	4	1	3	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135429100C>T	uc004ezu.1	+	6	3526	c.3235C>T	c.(3235-3237)CCT>TCT	p.P1079S	GPR112_uc010nsb.1_Missense_Mutation_p.P874S|GPR112_uc010nsc.1_Missense_Mutation_p.P846S	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1079	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TGTTATTGTGCCTACCCATGG	0.458													25	289					0	0	1	0	0		T	135429100	T	T	135429100	3	4	27	1	0	0	0	0	1	0	0	0	6644	739	26	2	3245	2	GPR112	23	135429100	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	426	135429100	19841460	8480	30831											
GPR112	139378	broad.mit.edu	37	chrX	135429880	135429880	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacttctggaagcacacagAttacaccaaccttgacctca	13	8	5	15	0	2	2	1	1	1	1	2	3	2	3	4	1	3	1	4	1	3	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135429880A>C	uc004ezu.1	+	6	4306	c.4015A>C	c.(4015-4017)ATT>CTT	p.I1339L	GPR112_uc010nsb.1_Missense_Mutation_p.I1134L|GPR112_uc010nsc.1_Missense_Mutation_p.I1106L	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1339	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					AAGCACACAGATTACACCAAC	0.453													4	145					0	0	1	0	0		C	135429880	C	C	135429880	3	2	27	1	0	0	0	0	1	0	0	0	6644	333	12	5	4025	5	GPR112	23	135429880	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	780	135429880	19840680	8481	30832											
GPR112	139378	broad.mit.edu	37	chrX	135430773	135430773	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacagaaatgatagaggcAccttccaggatcacacctac	15	7	7	12	0	1	3	1	1	0	2	2	4	2	4	3	2	2	1	3	2	4	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135430773A>G	uc004ezu.1	+	6	5199	c.4908A>G	c.(4906-4908)GCA>GCG	p.A1636A	GPR112_uc010nsb.1_Silent_p.A1431A|GPR112_uc010nsc.1_Silent_p.A1403A	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1636	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TGATAGAGGCACCTTCCAGGA	0.448													22	204					0	0	1	0	0		G	135430773	G	G	135430773	2	3	27	1	0	0	0	0	0	0	0	1	6644	146	6	3		3	GPR112	23	135430773	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	893	135430773	19839787	8482	30833											
GPR112	139378	broad.mit.edu	37	chrX	135482127	135482127	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcagaaagtgggagtttgTatcacagctgcagtggcact	10	12	12	7	0	2	1	2	0	0	1	2	2	2	2	0	2	2	5	0	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135482127T>A	uc004ezu.1	+	21	8718	c.8427T>A	c.(8425-8427)TGT>TGA	p.C2809*	GPR112_uc010nsb.1_Nonsense_Mutation_p.C2604*	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	2809	Helical; Name=3; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TGGGAGTTTGTATCACAGCTG	0.428													13	129					0	0	1	0	0		A	135482127	A	A	135482127	4	1	27	1	0	0	0	0	0	1	0	0	6644	1644	57	5	8497	5	GPR112	23	135482127	Nonsense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	51354	135482127	19788433	8483	30834											
HTATSF1	27336	broad.mit.edu	37	chrX	135593206	135593206	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagaagtttgaaaagacAgaagatgggggagaatttga	18	7	15	1	0	0	8	0	2	0	6	0	10	0	8	0	2	0	1	0	2	6	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135593206A>T	uc004ezw.2	+	10	1724	c.1302A>T	c.(1300-1302)ACA>ACT	p.T434T	HTATSF1_uc004ezx.2_Silent_p.T434T	NM_001163280	NP_001156752	O43719	HTSF1_HUMAN	HIV-1 Tat specific factor 1	434	Asp/Glu-rich (acidic).|Mediates interaction with the P-TEFb complex.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|viral genome replication	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					TTGAAAAGACAGAAGATGGGG	0.418													21	204					0	0	1	0	0		T	135593206	T	T	135593206	2	4	27	1	0	0	0	0	0	0	0	1	7449	175	7	5		5	HTATSF1	23	135593206	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	111079	135593206	19677354	8484	30835											
VGLL1	51442	broad.mit.edu	37	chrX	135631112	135631112	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agggagaatggcaaccctggCcagatagctggaagcacagg	13	4	15	9	0	0	2	0	0	0	2	0	4	0	3	2	5	3	3	2	5	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135631112C>T	uc004ezy.2	+	3	749	c.579C>T	c.(577-579)GGC>GGT	p.G193G	MIR934_hsa-mir-934|MI0005756_5'Flank	NM_016267	NP_057351	Q99990	VGLL1_HUMAN	vestigial like 1	193					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	transcription coactivator activity				0	Acute lymphoblastic leukemia(192;0.000127)					GCAACCCTGGCCAGATAGCTG	0.562													7	98					0	0	1	0	0		T	135631112	T	T	135631112	2	4	27	1	0	0	0	0	0	0	0	1	17184	726	26	2		2	VGLL1	23	135631112	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	37906	135631112	19639448	8485	30836											
CD40LG	959	broad.mit.edu	37	chrX	135732555	135732555	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagtttgaaggctttgtgaAggtaagcagcttaattactg	11	13	11	6	0	0	2	0	2	0	0	0	2	0	2	1	2	3	5	1	2	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135732555A>G	uc004faa.2	+	2	359	c.287A>G	c.(286-288)AAG>AGG	p.K96R	CD40LG_uc010nsd.2_Missense_Mutation_p.K96R|CD40LG_uc010nse.1_RNA	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	96	Extracellular (Potential).				anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	GGCTTTGTGAAGGTAAGCAGC	0.353									Immune_Deficiency_with_Hyper-IgM				5	68					0	0	1	0	0		G	135732555	G	G	135732555	3	3	27	1	0	0	0	0	1	0	0	0	3019	86	3	3	293	3	CD40LG	23	135732555	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	101443	135732555	19538005	8486	30837											
RBMX	27316	broad.mit.edu	37	chrX	135960177	135960177	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttggaggtggaggcggTccacgtctaccactttcaaa	8	11	11	11	2	3	0	1	0	2	0	4	2	4	2	2	5	1	0	2	5	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:135960177T>A	uc004fae.1	-	4	495	c.285A>T	c.(283-285)GGA>GGT	p.G95G	RBMX_uc011mwf.1_Intron|RBMX_uc004fad.1_Silent_p.G95G|RBMX_uc011mwg.1_Silent_p.G56G|RBMX_uc004faf.1_Intron|RBMX_uc010nsf.1_Silent_p.G56G|RBMX_uc004fag.1_5'UTR	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	95						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					GTGGAGGCGGTCCACGTCTAC	0.478													4	62					0	0	1	0	0		A	135960177	A	A	135960177	2	1	27	1	0	0	0	0	0	0	0	1	13176	1654	58	5		5	RBMX	23	135960177	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	227622	135960177	19310383	8487	30838											
ZIC3	7547	broad.mit.edu	37	chrX	136651095	136651095	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtgaatttgaaggctgTgacagacgctttgccaacag	13	10	11	7	1	0	4	0	3	0	1	0	4	0	4	1	1	2	2	1	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:136651095T>C	uc004fak.2	+	2	1600	c.1095T>C	c.(1093-1095)TGT>TGC	p.C365C		NM_003413	NP_003404	O60481	ZIC3_HUMAN	zinc finger protein of the cerebellum 3	365	C2H2-type 4.				cell differentiation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					TTGAAGGCTGTGACAGACGCT	0.502													16	262					0	0	1	0	0		C	136651095	C	C	136651095	2	2	27	1	0	0	0	0	0	0	0	1	17705	1702	59	3		3	ZIC3	23	136651095	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	690918	136651095	18619465	8488	30839											
MCF2	4168	broad.mit.edu	37	chrX	138697061	138697061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgtttagatgaaaaaaatgGtgtcccagatgtgaccaaat	15	12	9	5	0	0	4	0	2	0	2	1	4	1	4	2	1	0	1	2	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:138697061G>A	uc004fau.2	-	10	1636	c.1342C>T	c.(1342-1344)CCA>TCA	p.P448S	MCF2_uc004fav.2_Missense_Mutation_p.P448S|MCF2_uc011mwl.1_Missense_Mutation_p.P409S|MCF2_uc010nsh.1_Missense_Mutation_p.P448S|MCF2_uc011mwm.1_Missense_Mutation_p.P409S|MCF2_uc011mwn.1_Missense_Mutation_p.P593S|MCF2_uc004faw.2_Missense_Mutation_p.P508S|MCF2_uc011mwo.1_Missense_Mutation_p.P508S	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	448					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					GAAAAAAATGGTGTCCCAGAT	0.378													16	201					0	0	1	0	0		A	138697061	A	A	138697061	3	1	27	1	0	0	0	0	1	0	0	0	9396	1261	44	4	1579	4	MCF2	23	138697061	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2045966	138697061	16573499	8489	30840											
MCF2	4168	broad.mit.edu	37	chrX	138713569	138713569	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catacatttctgaagatgatCcattcactgtggcagtactg	11	13	8	9	0	2	3	1	2	1	1	3	3	3	3	1	1	2	2	1	1	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:138713569C>T	uc004fau.2	-	3	567	c.273G>A	c.(271-273)TGG>TGA	p.W91*	MCF2_uc004fav.2_Nonsense_Mutation_p.W91*|MCF2_uc011mwl.1_Intron|MCF2_uc010nsh.1_Nonsense_Mutation_p.W91*|MCF2_uc011mwm.1_Intron|MCF2_uc011mwn.1_Nonsense_Mutation_p.W236*|MCF2_uc004faw.2_Nonsense_Mutation_p.W151*|MCF2_uc011mwo.1_Nonsense_Mutation_p.W151*	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	91					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					TGAAGATGATCCATTCACTGT	0.393													13	166					0	0	1	0	0		T	138713569	T	T	138713569	4	4	27	1	0	0	0	0	0	1	0	0	9396	856	30	4	2676	4	MCF2	23	138713569	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	16508	138713569	16556991	8490	30841											
ATP11C	286410	broad.mit.edu	37	chrX	138840024	138840024	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtggcaaaatgaaacaaagGttctgaaaaaaaaaaattaa	23	8	7	3	0	1	2	0	2	1	0	1	2	1	2	0	2	1	2	0	2	10	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:138840024G>T	uc004faz.2	-	23	2751	c.2652C>A	c.(2650-2652)AAC>AAA	p.N884K	ATP11C_uc004fax.2_Missense_Mutation_p.N92K|ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Missense_Mutation_p.N884K	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	884	Helical; (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					TGAAACAAAGGTTCTGAAAAA	0.284													4	24					0.00909568	0.0093211	1	1	0		T	138840024	T	T	138840024	3	4	27	1	0	0	0	0	1	0	0	0	1122	1252	44	5	841	5	ATP11C	23	138840024	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	126455	138840024	16430536	8491	30842											
CXorf66	347487	broad.mit.edu	37	chrX	139038105	139038105	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgattgtaccctctgtcacAcgtaatgattataactttat	11	17	5	8	1	2	2	1	2	1	0	2	2	2	2	1	0	2	2	1	0	5	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:139038105A>G	uc004fbb.2	-	3	1058	c.1036T>C	c.(1036-1038)TGT>CGT	p.C346R		NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor	346	Cytoplasmic (Potential).					integral to membrane					0						CCTCTGTCACACGTAATGATT	0.363													7	88					0	0	1	0	0		G	139038105	G	G	139038105	3	3	27	1	0	0	0	0	1	0	0	0	4121	159	6	3	53	3	CXorf66	23	139038105	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	198081	139038105	16232455	8492	30843											
SOX3	6658	broad.mit.edu	37	chrX	139586639	139586639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccttcatgtgcacggcgCgaagtcgcttggcctcgtcg	5	10	12	14	6	1	0	1	0	0	0	5	1	2	0	2	2	1	2	2	2	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:139586639C>T	uc004fbd.1	-	1	587	c.587G>A	c.(586-588)CGC>CAC	p.R196H		NM_005634	NP_005625	P41225	SOX3_HUMAN	SRY (sex determining region Y)-box 3	196	HMG box.				face development|hypothalamus development|negative regulation of neuron differentiation|pituitary gland development|regulation of transcription, DNA-dependent|sensory organ development|sex determination|transcription, DNA-dependent	nucleus	DNA binding			pancreas(1)	1	Acute lymphoblastic leukemia(192;7.65e-05)					GTGCACGGCGCGAAGTCGCTT	0.582													20	64					0	0	1	0	0		T	139586639	T	T	139586639	3	4	27	1	0	0	0	0	1	0	0	0	14976	768	27	1	757	1	SOX3	23	139586639	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	548534	139586639	15683921	8493	30844											
SPANXE	171489	broad.mit.edu	37	chrX	140785771	140785771	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagcgaaccactagtatggTcgaggactcagatgttttta	11	12	11	7	2	1	1	1	0	0	1	2	4	1	2	1	2	2	3	1	2	5	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:140785771T>A	uc004fbq.2	-	2	238	c.145A>T	c.(145-147)ACC>TCC	p.T49S		NM_145665	NP_663698	Q8TAD1	SPNXE_HUMAN	SPANX family, member E	49						cytoplasm|nucleus					0	Acute lymphoblastic leukemia(192;7.65e-05)					ACTAGTATGGTCGAGGACTCA	0.493													21	264					0	0	1	0	0		A	140785771	A	A	140785771	3	1	27	1	0	0	0	0	1	0	0	0	15014	1667	58	5	152	5	SPANXE	23	140785771	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1199132	140785771	14484789	8494	30845											
MAGEC3	139081	broad.mit.edu	37	chrX	140969268	140969268	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagtttcttctcctcaaaTatcaagcaaaagagcctctc	12	12	5	12	0	5	1	2	0	3	1	7	1	5	1	2	0	3	3	2	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:140969268T>C	uc011mwp.1	+	4	595	c.595T>C	c.(595-597)TAT>CAT	p.Y199H		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	199	MAGE 1.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TCTCCTCAAATATCAAGCAAA	0.458													13	164					0	0	1	0	0		C	140969268	C	C	140969268	3	2	27	1	0	0	0	0	1	0	0	0	9200	1406	49	3	609	3	MAGEC3	23	140969268	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	183497	140969268	14301292	8495	30846											
MAGEC1	9947	broad.mit.edu	37	chrX	140995836	140995836	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaatatacaagttcctcAgacaccttgctagagagtga	14	10	9	8	0	1	4	1	2	0	2	2	6	2	4	2	0	2	2	2	0	5	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:140995836A>G	uc004fbt.2	+	4	2932	c.2646A>G	c.(2644-2646)TCA>TCG	p.S882S	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	882							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CAAGTTCCTCAGACACCTTGC	0.493										HNSCC(15;0.026)			42	218					0	0	1	0	0		G	140995836	G	G	140995836	2	3	27	1	0	0	0	0	0	0	0	1	9198	175	7	3		3	MAGEC1	23	140995836	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	26568	140995836	14274724	8496	30847											
UBE2NL	389898	broad.mit.edu	37	chrX	142967329	142967329	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtggtcattgctggggaaTcaaaggattccccctttgag	9	12	12	8	0	2	1	2	1	0	0	3	3	3	3	2	4	1	1	2	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:142967329T>A	uc004fca.2	+	1	157	c.127T>A	c.(127-129)TCA>ACA	p.S43T		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	43							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					TGCTGGGGAATCAAAGGATTC	0.468													10	162					0	0	1	0	0		A	142967329	A	A	142967329	3	1	27	1	0	0	0	0	1	0	0	0	16893	1435	50	5	129	5	UBE2NL	23	142967329	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	1971493	142967329	12303231	8497	30848											
FMR1	2332	broad.mit.edu	37	chrX	147027084	147027084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactcccgaacagataatcGtccacgtaatccaagagagg	14	7	8	12	3	1	2	1	0	0	2	5	4	4	2	3	1	1	1	3	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:147027084G>A	uc010nst.2	+	16	1874	c.1685G>A	c.(1684-1686)CGT>CAT	p.R562H	FMR1_uc004fcj.2_Missense_Mutation_p.R539H|FMR1_uc004fck.3_Missense_Mutation_p.R516H|FMR1_uc004fcl.3_Missense_Mutation_p.R402H|FMR1_uc011mxa.1_Missense_Mutation_p.R209H	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	562	Interaction with RANBP9.				mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ACAGATAATCGTCCACGTAAT	0.388									Fragile_X_syndrome				5	36					0	0	1	0	0		A	147027084	A	A	147027084	3	1	27	1	0	0	0	0	1	0	0	0	5974	1145	40	1	1747	1	FMR1	23	147027084	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	4059755	147027084	8243476	8498	30849											
AFF2	2334	broad.mit.edu	37	chrX	148037982	148037982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaacctgaaaaacctctggGtgaagattgaccttgactta	14	10	9	8	0	1	6	0	4	1	2	1	6	1	6	3	1	2	0	3	1	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:148037982G>A	uc004fcp.2	+	11	2886	c.2407G>A	c.(2407-2409)GTG>ATG	p.V803M	AFF2_uc004fcq.2_Missense_Mutation_p.V793M|AFF2_uc004fcr.2_Missense_Mutation_p.V764M|AFF2_uc011mxb.1_Missense_Mutation_p.V768M|AFF2_uc004fcs.2_Missense_Mutation_p.V770M|AFF2_uc011mxc.1_Missense_Mutation_p.V444M	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	803					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					AAACCTCTGGGTGAAGATTGA	0.483													10	136					0	0	1	0	0		A	148037982	A	A	148037982	3	1	27	1	0	0	0	0	1	0	0	0	357	1261	44	4	2504	4	AFF2	23	148037982	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	1010898	148037982	7232578	8499	30850											
AFF2	2334	broad.mit.edu	37	chrX	148068943	148068943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaacgtctcccccatcaacGcaatggggaactgtaacaat	14	7	7	13	2	2	0	1	0	1	0	3	1	2	1	2	2	4	2	2	2	6	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:148068943G>A	uc004fcp.2	+	20	4149	c.3670G>A	c.(3670-3672)GCA>ACA	p.A1224T	AFF2_uc004fcq.2_Missense_Mutation_p.A1214T|AFF2_uc004fcr.2_Missense_Mutation_p.A1185T|AFF2_uc011mxb.1_Missense_Mutation_p.A1189T|AFF2_uc004fcs.2_Missense_Mutation_p.A1189T|AFF2_uc011mxc.1_Missense_Mutation_p.A865T	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	1224					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					CCCCATCAACGCAATGGGGAA	0.527													8	137					0	0	1	0	0		A	148068943	A	A	148068943	3	1	27	1	0	0	0	0	1	0	0	0	357	1087	38	1	3803	1	AFF2	23	148068943	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	30961	148068943	7201617	8500	30851											
AFF2	2334	broad.mit.edu	37	chrX	148072815	148072815	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaccaatcttgtccgctacGttcgccaaggactgtgttgg	7	12	11	11	3	1	1	0	1	1	0	3	2	2	2	3	2	1	3	3	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:148072815G>A	uc004fcp.2	+	21	4368	c.3889G>A	c.(3889-3891)GTT>ATT	p.V1297I	AFF2_uc004fcq.2_Missense_Mutation_p.V1287I|AFF2_uc004fcr.2_Missense_Mutation_p.V1258I|AFF2_uc011mxb.1_Missense_Mutation_p.V1262I|AFF2_uc004fcs.2_Missense_Mutation_p.V1262I|AFF2_uc011mxc.1_Missense_Mutation_p.V938I	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	1297					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					TGTCCGCTACGTTCGCCAAGG	0.527													38	128					0	0	1	0	0		A	148072815	A	A	148072815	3	1	27	1	0	0	0	0	1	0	0	0	357	1145	40	1	4026	1	AFF2	23	148072815	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	3872	148072815	7197745	8501	30852											
TMEM185A	84548	broad.mit.edu	37	chrX	148690318	148690318	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatatgaaatctcacctctAgtgacctgtcatgtcgaaag	13	12	7	9	1	3	2	2	2	2	0	5	3	3	2	2	0	0	0	2	0	5	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:148690318A>G	uc011mxq.1	-	4	730	c.419T>C	c.(418-420)CTA>CCA	p.L140P	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|TMEM185A_uc011mxp.1_Missense_Mutation_p.L81P|TMEM185A_uc004fdo.2_Intron|TMEM185A_uc004fdp.3_Missense_Mutation_p.L57P	NM_032508	NP_115897	Q8NFB2	T185A_HUMAN	transmembrane protein 185A	140						integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					TCTCACCTCTAGTGACCTGTC	0.313													4	93					0	0	1	0	0		G	148690318	G	G	148690318	3	3	27	1	0	0	0	0	1	0	0	0	16132	420	15	3	653	3	TMEM185A	23	148690318	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	617503	148690318	6580242	8502	30853											
MAGEA11	4110	broad.mit.edu	37	chrX	148797265	148797265	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcacttcctttttcaggTttttagagaacaggccaacc	9	15	6	11	0	2	1	2	0	1	1	4	2	3	1	3	2	2	1	3	2	3	7			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:148797265T>G	uc004fdq.2	+	4	296	c.194T>G	c.(193-195)GTT>GGT	p.V65G	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Missense_Mutation_p.V36G	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	65						cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CTTTTTCAGGTTTTTAGAGAA	0.527													10	71					0	0	1	0	0		G	148797265	G	G	148797265	3	3	27	1	0	0	0	0	1	0	0	0	9183	1739	60	5	217	5	MAGEA11	23	148797265	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	106947	148797265	6473295	8503	30854											
MAMLD1	10046	broad.mit.edu	37	chrX	149631037	149631037	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagcctactctcacccccaGggaaagaagccctcgtggat	10	7	9	15	1	2	1	2	0	1	1	4	3	2	3	4	2	3	0	4	2	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:149631037G>T	uc004fee.1	+	2	173	c.97_splice	c.e2-1	p.G33_splice	MAMLD1_uc011mxt.1_Splice_Site|MAMLD1_uc011mxu.1_Intron|MAMLD1_uc011mxv.1_Intron	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1						male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					CTCACCCCCAGGGAAAGAAGC	0.483													4	51					0.00909568	0.0093211	1	1	0		T	149631037	T	T	149631037	5	4	27	1	0	0	0	0	0	0	1	0	9226	1014	35	5	102	5	MAMLD1	23	149631037	Splice_Site	SNP	G	TCGA-BR-6452-01A-12D-1800-08	833772	149631037	5639523	8504	30855											
MAMLD1	10046	broad.mit.edu	37	chrX	149638867	149638867	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggactctctccaccttaccGcccagtgccatcaccacacc	9	7	5	20	1	2	0	1	0	1	0	4	1	3	1	7	1	2	0	7	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:149638867G>T	uc004fee.1	+	3	1098	c.1022G>T	c.(1021-1023)CGC>CTC	p.R341L	MAMLD1_uc011mxt.1_Missense_Mutation_p.R303L|MAMLD1_uc011mxu.1_Missense_Mutation_p.R316L|MAMLD1_uc011mxv.1_Missense_Mutation_p.R316L|MAMLD1_uc011mxw.1_Missense_Mutation_p.R268L	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	341					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					CCACCTTACCGCCCAGTGcca	0.468													8	51					0.000157383	0.000166242	1	1	0		T	149638867	T	T	149638867	3	4	27	1	0	0	0	0	1	0	0	0	9226	1087	38	5	1032	5	MAMLD1	23	149638867	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	7830	149638867	5631693	8505	30856											
MAMLD1	10046	broad.mit.edu	37	chrX	149671696	149671696	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccgagtcacctcctcgtaCagcacctcagaggcagcgcc	8	5	10	18	3	2	1	2	0	0	1	4	2	3	1	5	1	3	3	5	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:149671696C>A	uc004fee.1	+	5	2269	c.2193C>A	c.(2191-2193)TAC>TAA	p.Y731*	MAMLD1_uc011mxu.1_Intron|MAMLD1_uc011mxv.1_Nonsense_Mutation_p.Y706*|MAMLD1_uc011mxw.1_Nonsense_Mutation_p.Y617*	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	731					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					CCTCCTCGTACAGCACCTCAG	0.483													4	54					1	1	1	1	0		A	149671696	A	A	149671696	4	1	27	1	0	0	0	0	0	1	0	0	9226	489	17	5	2211	5	MAMLD1	23	149671696	Nonsense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	32829	149671696	5598864	8506	30857											
MTM1	4534	broad.mit.edu	37	chrX	149814303	149814303	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaatttctaaactcaccAtttatgatgcaagacccagc	16	10	4	11	0	2	2	1	1	1	1	2	2	2	2	2	0	4	1	2	0	6	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:149814303A>G	uc004fef.3	+	9	902	c.826A>G	c.(826-828)ATT>GTT	p.I276V	MTM1_uc011mxx.1_RNA|MTM1_uc011mxy.1_Missense_Mutation_p.I239V|MTM1_uc011mxz.1_Missense_Mutation_p.I161V|MTM1_uc010nte.2_Missense_Mutation_p.I144V	NM_000252	NP_000243	Q13496	MTM1_HUMAN	myotubularin	276	Myotubularin phosphatase.				endosome to lysosome transport|intermediate filament organization|mitochondrion distribution|mitochondrion morphogenesis|phosphatidylinositol dephosphorylation|protein transport|regulation of vacuole organization	filopodium|late endosome|plasma membrane|ruffle	intermediate filament binding|phosphatidylinositol binding|phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TAAACTCACCATTTATGATGC	0.408													8	67					0	0	1	0	0		G	149814303	G	G	149814303	3	3	27	1	0	0	0	0	1	0	0	0	9955	217	8	3	856	3	MTM1	23	149814303	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	142607	149814303	5456257	8507	30858											
CNGA2	1260	broad.mit.edu	37	chrX	150907014	150907014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caataatcacaaccatcatgCacctcctgccatcaaggcca	14	7	4	16	0	3	0	3	0	0	0	4	0	4	0	5	1	3	1	5	1	4	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:150907014C>T	uc004fey.1	+	2	283	c.59C>T	c.(58-60)GCA>GTA	p.A20V		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	20	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AACCATCATGCACCTCCTGCC	0.517													9	110					0	0	1	0	0		T	150907014	T	T	150907014	3	4	27	1	0	0	0	0	1	0	0	0	3600	710	25	2	61	2	CNGA2	23	150907014	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1092711	150907014	4363546	8508	30859											
CNGA2	1260	broad.mit.edu	37	chrX	150911846	150911846	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatccactggaatgccTgcatctattatgccatctcc	9	13	5	14	0	4	0	2	0	2	0	6	1	5	1	4	1	3	1	4	1	3	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:150911846T>C	uc004fey.1	+	7	1095	c.871T>C	c.(871-873)TGC>CGC	p.C291R		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	291	Helical; Name=H4; (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CTGGAATGCCTGCATCTATTA	0.493													16	221					0	0	1	0	0		C	150911846	C	C	150911846	3	2	27	1	0	0	0	0	1	0	0	0	3600	1580	55	3	893	3	CNGA2	23	150911846	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	4832	150911846	4358714	8509	30860											
MAGEA4	4103	broad.mit.edu	37	chrX	151092384	151092384	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttcacttgctggaggcAacccaatgagggttccagca	10	8	11	12	0	1	1	1	1	0	0	2	2	2	2	2	3	4	5	2	3	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:151092384A>G	uc004fez.2	+	3	404	c.248A>G	c.(247-249)CAA>CGA	p.Q83R	MAGEA4_uc004ffa.2_Missense_Mutation_p.Q83R|MAGEA4_uc004ffb.2_Missense_Mutation_p.Q83R|MAGEA4_uc004ffc.2_Missense_Mutation_p.Q83R|MAGEA4_uc004ffd.2_Missense_Mutation_p.Q83R	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	83							protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TGCTGGAGGCAACCCAATGAG	0.587													8	112					0	0	1	0	0		G	151092384	G	G	151092384	3	3	27	1	0	0	0	0	1	0	0	0	9186	130	5	3	250	3	MAGEA4	23	151092384	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	180538	151092384	4178176	8510	30861											
MAGEA10	4109	broad.mit.edu	37	chrX	151303862	151303862	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggatttggtgtctcatcAtcagcagaaacctcctctgg	9	11	11	10	0	4	1	3	0	2	1	6	3	5	3	2	4	2	1	2	4	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:151303862A>G	uc004ffk.2	-	5	639	c.231T>C	c.(229-231)GAT>GAC	p.D77D	MAGEA10_uc004ffl.2_Silent_p.D77D	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	77											0	Acute lymphoblastic leukemia(192;6.56e-05)					GTGTCTCATCATCAGCAGAAA	0.398													14	200					0	0	1	0	0		G	151303862	G	G	151303862	2	3	27	1	0	0	0	0	0	0	0	1	9182	214	8	3		3	MAGEA10	23	151303862	Silent	SNP	A	TCGA-BR-6452-01A-12D-1800-08	211478	151303862	3966698	8511	30862											
GABRA3	2556	broad.mit.edu	37	chrX	151366166	151366166	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacgacacttgtgacagaatGacagtcatgatacatggcaa	16	8	9	8	1	1	4	1	3	0	1	1	5	1	4	0	1	2	1	0	1	4	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:151366166G>A	uc010ntk.1	-	8	1110	c.870C>T	c.(868-870)GTC>GTT	p.V290V		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	290	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GTGACAGAATGACAGTCATGA	0.443													7	65					0	0	1	0	0		A	151366166	A	A	151366166	2	1	27	1	0	0	0	0	0	0	0	1	6176	1277	45	4		4	GABRA3	23	151366166	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	62304	151366166	3904394	8512	30863											
MAGEA12	4111	broad.mit.edu	37	chrX	151900642	151900642	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtgactcggcagcaggCacctcccgcagggtgacttc	6	8	13	14	2	0	2	0	2	0	0	3	2	1	2	2	4	1	4	2	4	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:151900642C>A	uc010ntp.2	-	3	513	c.159G>T	c.(157-159)GTG>GTT	p.V53V	MAGEA12_uc004fgb.2_Intron|MAGEA12_uc004fgc.2_Silent_p.V53V|CSAG1_uc004fge.2_5'Flank|CSAG1_uc004fgf.2_5'Flank|CSAG1_uc004fgd.2_5'Flank	NM_005367	NP_005358	P43365	MAGAC_HUMAN	melanoma antigen family A, 12	53										skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CGGCAGCAGGCACCTCCCGCA	0.617													9	118					0.000274275	0.000288501	1	1	0		A	151900642	A	A	151900642	2	1	27	1	0	0	0	0	0	0	0	1	9184	697	25	5		5	MAGEA12	23	151900642	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	534476	151900642	3369918	8513	30864											
CETN2	1069	broad.mit.edu	37	chrX	151997191	151997191	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagagcttgaaagctttcaGgatttcttctttagtatctt	11	17	7	6	0	4	2	1	1	3	1	4	3	4	3	0	1	2	3	0	1	4	8			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:151997191G>T	uc004fgq.2	-	4	366	c.319C>A	c.(319-321)CTG>ATG	p.L107M	CETN2_uc004fgr.2_Missense_Mutation_p.L36M|NSDHL_uc004fgt.1_5'Flank|NSDHL_uc004fgs.1_5'Flank	NM_004344	NP_004335	P41208	CETN2_HUMAN	caltractin	107	EF-hand 3.				cell division|centriole replication|G2/M transition of mitotic cell cycle|mitosis|nucleotide-excision repair|regulation of cytokinesis	centriole|cytosol|XPC complex	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					AAAGCTTTCAGGATTTCTTCT	0.433								Direct_reversal_of_damage|NER					10	71					1.33987e-11	1.48629e-11	1	1	0		T	151997191	T	T	151997191	3	4	27	1	0	0	0	0	1	0	0	0	3278	991	35	5	207	5	CETN2	23	151997191	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	96549	151997191	3273369	8514	30865											
NSDHL	50814	broad.mit.edu	37	chrX	152018925	152018925	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccagcaagggtttgataaTccccaggtgcggttctttct	8	13	10	10	1	2	1	0	1	2	0	4	1	4	1	3	3	2	3	3	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:152018925T>A	uc004fgt.1	+	4	486	c.225T>A	c.(223-225)AAT>AAA	p.N75K	NSDHL_uc004fgs.1_Missense_Mutation_p.N75K	NM_001129765	NP_001123237	Q15738	NSDHL_HUMAN	NAD(P) dependent steroid dehydrogenase-like	75					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity|sterol-4-alpha-carboxylate 3-dehydrogenase (decarboxylating) activity				0	Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	GGTTTGATAATCCCCAGGTGC	0.532													18	249					0	0	1	0	0		A	152018925	A	A	152018925	3	1	27	1	0	0	0	0	1	0	0	0	10689	1432	50	5	231	5	NSDHL	23	152018925	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	21734	152018925	3251635	8515	30866											
ZNF185	7739	broad.mit.edu	37	chrX	152128250	152128250	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcttcctcagcgtgttgActgattttgaggggaaggat	8	15	12	6	1	2	3	1	3	1	0	3	5	3	5	1	3	1	1	1	3	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:152128250A>T	uc010ntv.1	+	17	1451	c.1414A>T	c.(1414-1416)ACT>TCT	p.T472S	ZNF185_uc011myg.1_Missense_Mutation_p.T504S|ZNF185_uc011myh.1_Missense_Mutation_p.T475S|ZNF185_uc011myi.1_Missense_Mutation_p.T443S|ZNF185_uc011myj.1_Missense_Mutation_p.T413S|ZNF185_uc011myk.1_Missense_Mutation_p.T473S|ZNF185_uc004fgw.3_Missense_Mutation_p.T251S|ZNF185_uc004fgu.2_Missense_Mutation_p.T101S|ZNF185_uc004fgv.2_Missense_Mutation_p.T169S|ZNF185_uc004fgx.2_Missense_Mutation_p.T110S	NM_007150	NP_009081	O15231	ZN185_HUMAN	zinc finger protein 185	472						cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CAGCGTGTTGACTGATTTTGA	0.567													5	42					0	0	1	0	0		T	152128250	T	T	152128250	3	4	27	1	0	0	0	0	1	0	0	0	17777	275	10	5	1724	5	ZNF185	23	152128250	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	109325	152128250	3142310	8516	30867											
MAGEA1	4100	broad.mit.edu	37	chrX	152482523	152482523	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataggagtggccggtggggTctgcttccttcacgtcaatg	6	11	14	10	2	3	0	2	0	1	0	4	1	4	1	2	5	1	1	2	5	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:152482523T>G	uc004fhf.2	-	3	708	c.488A>C	c.(487-489)GAC>GCC	p.D163A		NM_004988	NP_004979	P43355	MAGA1_HUMAN	melanoma antigen family A, 1	163	MAGE.			D->A: Abolishes HLA-A1 binding.		cytoplasm|plasma membrane				central_nervous_system(7)|ovary(1)|lung(1)|breast(1)	10	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCCGGTGGGGTCTGCTTCCTT	0.507													12	122					0	0	1	0	0		G	152482523	G	G	152482523	3	3	27	1	0	0	0	0	1	0	0	0	9181	1667	58	5	445	5	MAGEA1	23	152482523	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	354273	152482523	2788037	8517	30868											
ATP2B3	492	broad.mit.edu	37	chrX	152814246	152814246	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatcattggtgtcactgtGctggtcgtggctgtcccaga	5	14	12	10	1	3	1	3	0	0	1	5	1	4	1	1	3	1	2	1	3	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:152814246G>A	uc004fht.1	+	8	1398	c.1272G>A	c.(1270-1272)GTG>GTA	p.V424V	ATP2B3_uc004fhs.1_Silent_p.V424V	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	424	Helical; (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GTGTCACTGTGCTGGTCGTGG	0.488													6	85					0	0	1	0	0		A	152814246	A	A	152814246	2	1	27	1	0	0	0	0	0	0	0	1	1142	1306	46	2		2	ATP2B3	23	152814246	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	331723	152814246	2456314	8518	30869											
ATP2B3	492	broad.mit.edu	37	chrX	152821585	152821585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacaacatcaacacggccCgggccatcgcagccaaatgc	12	3	11	15	3	1	0	1	0	0	0	2	1	1	1	3	3	4	1	3	3	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:152821585C>T	uc004fht.1	+	12	2263	c.2137C>T	c.(2137-2139)CGG>TGG	p.R713W	ATP2B3_uc004fhs.1_Missense_Mutation_p.R713W	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	713	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CAACACGGCCCGGGCCATCGC	0.587													10	106					0	0	1	0	0		T	152821585	T	T	152821585	3	4	27	1	0	0	0	0	1	0	0	0	1142	643	23	1	2183	1	ATP2B3	23	152821585	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	7339	152821585	2448975	8519	30870											
SLC6A8	6535	broad.mit.edu	37	chrX	152958731	152958731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctaggtgtggatagatgCggggacccagattttctttt	7	15	12	7	1	2	2	0	0	2	2	3	4	2	4	1	4	1	0	1	4	2	6			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:152958731C>T	uc004fib.3	+	6	1204	c.926C>T	c.(925-927)GCG>GTG	p.A309V	SLC6A8_uc004fic.3_Missense_Mutation_p.A309V|SLC6A8_uc011myx.1_Missense_Mutation_p.A194V|SLC6A8_uc010nuj.2_RNA	NM_005629	NP_005620	P48029	SC6A8_HUMAN	solute carrier family 6 member 8 isoform 1	309	Helical; (Potential).				creatine metabolic process|muscle contraction	integral to plasma membrane	creatine:sodium symporter activity|neurotransmitter:sodium symporter activity			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Creatine(DB00148)	TGGATAGATGCGGGGACCCAG	0.622													5	66					0	0	1	0	0		T	152958731	T	T	152958731	3	4	27	1	0	0	0	0	1	0	0	0	14715	768	27	1	948	1	SLC6A8	23	152958731	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	137146	152958731	2311829	8520	30871											
ABCD1	215	broad.mit.edu	37	chrX	152991452	152991452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccggcacagcctggccctCggccatcgccggcctcgtgg	4	5	14	18	5	0	0	0	0	0	0	3	0	0	0	6	5	2	1	6	5	0	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:152991452C>T	uc004fif.2	+	1	1130	c.731C>T	c.(730-732)TCG>TTG	p.S244L	BCAP31_uc004fid.2_5'Flank|BCAP31_uc011myz.1_5'Flank|BCAP31_uc011mza.1_5'Flank|BCAP31_uc004fie.2_5'Flank	NM_000033	NP_000024	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member	244	ABC transmembrane type-1.|Helical; (Potential).				fatty acid beta-oxidation using acyl-CoA oxidase|peroxisomal membrane transport|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|identical protein binding|peroxisomal fatty-acyl-CoA transporter activity				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCCTGGCCCTCGGCCATCGCC	0.697													7	35					0	0	1	0	0		T	152991452	T	T	152991452	3	4	27	1	0	0	0	0	1	0	0	0	60	893	31	1	733	1	ABCD1	23	152991452	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	32721	152991452	2279108	8521	30872											
PDZD4	57595	broad.mit.edu	37	chrX	153095697	153095697	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgccggcggccctacctgCagcatcactttgtactgctc	6	9	10	16	3	1	0	1	0	0	0	2	0	1	0	3	2	6	4	3	2	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153095697C>T	uc004fiz.1	-	1	307	c.57G>A	c.(55-57)CTG>CTA	p.L19L	PDZD4_uc004fiy.1_5'Flank|PDZD4_uc004fix.2_5'UTR|PDZD4_uc004fja.1_Silent_p.L19L|PDZD4_uc011mze.1_Silent_p.L19L	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	19						cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					gcccTACCTGCAGCATCACTT	0.527													6	63					0	0	1	0	0		T	153095697	T	T	153095697	2	4	27	1	0	0	0	0	0	0	0	1	11722	697	25	2		2	PDZD4	23	153095697	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	104245	153095697	2174863	8522	30873											
L1CAM	3897	broad.mit.edu	37	chrX	153130918	153130918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgtggatatgtctcttgCtgtgcttcctctgactgccc	3	17	9	12	0	2	1	0	1	2	0	4	2	3	2	2	1	3	2	2	1	1	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153130918C>T	uc004fjb.2	-	20	2693	c.2585G>A	c.(2584-2586)AGC>AAC	p.S862N	L1CAM_uc004fjc.2_Missense_Mutation_p.S862N|L1CAM_uc010nuo.2_Missense_Mutation_p.S857N	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	862	Extracellular (Potential).|Fibronectin type-III 3.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ATGTCTCTTGCTGTGCTTCCT	0.612													6	178					0	0	1	0	0		T	153130918	T	T	153130918	3	4	27	1	0	0	0	0	1	0	0	0	8604	797	28	2	1224	2	L1CAM	23	153130918	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	35221	153130918	2139642	8523	30874											
L1CAM	3897	broad.mit.edu	37	chrX	153132191	153132191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactttgatctcatagggcaCgaaggtggacgtgttggaca	10	10	14	7	2	1	1	1	1	1	0	2	5	1	3	0	4	0	2	0	4	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153132191C>T	uc004fjb.2	-	18	2452	c.2344G>A	c.(2344-2346)GTG>ATG	p.V782M	L1CAM_uc004fjc.2_Missense_Mutation_p.V782M|L1CAM_uc010nuo.2_Missense_Mutation_p.V777M	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	782	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TCATAGGGCACGAAGGTGGAC	0.622													21	84					0	0	1	0	0		T	153132191	T	T	153132191	3	4	27	1	0	0	0	0	1	0	0	0	8604	536	19	1	1473	1	L1CAM	23	153132191	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1273	153132191	2138369	8524	30875											
L1CAM	3897	broad.mit.edu	37	chrX	153133891	153133891	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctcgattgtgctgcggggCccctgagtgatctgagttgc	4	13	14	10	2	2	3	0	3	2	0	3	4	2	3	2	2	3	2	2	2	0	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153133891C>T	uc004fjb.2	-	13	1677	c.1569G>A	c.(1567-1569)GGG>GGA	p.G523G	L1CAM_uc004fjc.2_Silent_p.G523G|L1CAM_uc010nuo.2_Silent_p.G518G|L1CAM_uc004fjd.1_Silent_p.G337G	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	523	Ig-like C2-type 6.|Extracellular (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TGCTGCGGGGCCCCTGAGTGA	0.617													39	155					0	0	1	0	0		T	153133891	T	T	153133891	2	4	27	1	0	0	0	0	0	0	0	1	8604	726	26	2		2	L1CAM	23	153133891	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	1700	153133891	2136669	8525	30876											
L1CAM	3897	broad.mit.edu	37	chrX	153136295	153136295	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctgaatgatggtcctggtgCctgggaagtgggcgtggcag	6	10	18	7	1	1	2	0	2	1	0	2	3	2	3	2	5	1	1	2	5	2	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153136295C>A	uc004fjb.2	-	6	752	c.644G>T	c.(643-645)GGC>GTC	p.G215V	L1CAM_uc004fjc.2_Missense_Mutation_p.G215V|L1CAM_uc010nuo.2_Missense_Mutation_p.G210V|L1CAM_uc004fjd.1_Missense_Mutation_p.G29V|L1CAM_uc004fje.1_Missense_Mutation_p.G210V	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	215	Extracellular (Potential).|Ig-like C2-type 2.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGTCCTGGTGCCTGGGAAGTG	0.582													6	85					0.0215528	0.0219246	1	1	0		A	153136295	A	A	153136295	3	1	27	1	0	0	0	0	1	0	0	0	8604	739	26	5	3221	5	L1CAM	23	153136295	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	2404	153136295	2134265	8526	30877											
AVPR2	554	broad.mit.edu	37	chrX	153171979	153171979	+	Missense_Mutation	SNP	G	A	A																															gatcctccacctccacagggGcgccctttgtgctactcatg																								rs145953185	byFrequency	TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153171979G>A	uc004fjh.3	+	3	984	c.913G>A	c.(913-915)GCG>ACG	p.A305T	AVPR2_uc004fjg.3_Missense_Mutation_p.A94T|AVPR2_uc004fji.2_3'UTR	NM_000054	NP_000045	P30518	V2R_HUMAN	arginine vasopressin receptor 2 isoform 1	305	Extracellular (Potential).				activation of adenylate cyclase activity|excretion|G-protein signaling, coupled to cAMP nucleotide second messenger|hemostasis|positive regulation of gene expression|transmembrane transport|water transport	endoplasmic reticulum|endosome|Golgi apparatus|integral to plasma membrane	vasopressin receptor activity			breast(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Conivaptan(DB00872)|Terlipressin(DB02638)|Vasopressin(DB00067)	CTCCACAGGGGCGCCCTTTGT	0.622													46	131					0	0	1	0	0		A	153171979	A	A	153171979	3	1	27	1	0	0	0	0	1	0	0	0	1234	1203	42	2	943	2	AVPR2	23	153171979	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	35684	153171979	2098581	8527	30878	65	2									
AVPR2	554	broad.mit.edu	37	chrX	153171981	153171981	+	Silent	SNP	G	A	A																															tcctccacctccacaggggcGccctttgtgctactcatgtt																										TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153171981G>A	uc004fjh.3	+	3	986	c.915G>A	c.(913-915)GCG>GCA	p.A305A	AVPR2_uc004fjg.3_Silent_p.A94A|AVPR2_uc004fji.2_3'UTR	NM_000054	NP_000045	P30518	V2R_HUMAN	arginine vasopressin receptor 2 isoform 1	305	Extracellular (Potential).				activation of adenylate cyclase activity|excretion|G-protein signaling, coupled to cAMP nucleotide second messenger|hemostasis|positive regulation of gene expression|transmembrane transport|water transport	endoplasmic reticulum|endosome|Golgi apparatus|integral to plasma membrane	vasopressin receptor activity			breast(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Conivaptan(DB00872)|Terlipressin(DB02638)|Vasopressin(DB00067)	CCACAGGGGCGCCCTTTGTGC	0.622													11	168					0	0	1	0	0		A	153171981	A	A	153171981	2	1	27	1	0	0	0	0	0	0	0	1	1234	1074	38	1		1	AVPR2	23	153171981	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	2	153171981	2098579	8528	30879	65	2									
RENBP	5973	broad.mit.edu	37	chrX	153209857	153209857	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcctgcagagtctctcgcTctttctccatgtcctagggg	5	12	11	13	1	3	1	0	0	3	1	7	1	4	1	3	3	1	2	3	3	1	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153209857T>G	uc004fjo.1	-	2	211	c.41A>C	c.(40-42)GAG>GCG	p.E14A	RENBP_uc011mzh.1_Missense_Mutation_p.E14A|RENBP_uc011mzi.1_5'Flank	NM_002910	NP_002901	P51606	RENBP_HUMAN	renin binding protein	14					mannose metabolic process|regulation of blood pressure		endopeptidase inhibitor activity|mannose-6-phosphate isomerase activity|N-acylglucosamine 2-epimerase activity			ovary(1)|pancreas(1)	2	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				N-Acetyl-D-glucosamine(DB00141)	AGTCTCTCGCTCTTTCTCCAT	0.657													18	73					0	0	1	0	0		G	153209857	G	G	153209857	3	3	27	1	0	0	0	0	1	0	0	0	13250	1551	54	5	1282	5	RENBP	23	153209857	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	37876	153209857	2060703	8529	30880											
MECP2	4204	broad.mit.edu	37	chrX	153295906	153295906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggatgaaacaatgtctttgCgctctccctcccctcggtgt	7	12	9	13	2	2	1	0	1	2	0	5	2	3	2	3	2	2	1	3	2	2	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153295906C>T	uc004fjv.2	-	4	1599	c.1373G>A	c.(1372-1374)CGC>CAC	p.R458H	MECP2_uc004fjw.2_Missense_Mutation_p.R470H	NM_004992	NP_004983	P51608	MECP2_HUMAN	methyl CpG binding protein 2 isoform 1	458					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	heterochromatin|nucleus	double-stranded methylated DNA binding|protein domain specific binding|protein N-terminus binding|transcription corepressor activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AATGTCTTTGCGCTCTCCCTC	0.612													78	316					0	0	1	0	0		T	153295906	T	T	153295906	3	4	27	1	0	0	0	0	1	0	0	0	9441	768	27	1	91	1	MECP2	23	153295906	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	86049	153295906	1974654	8530	30881											
MECP2	4204	broad.mit.edu	37	chrX	153298000	153298000	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggtcctggtcttctgacTtttcttccctgaagtgttaa	6	16	10	9	0	3	2	0	2	3	0	5	3	5	3	2	3	0	1	2	3	2	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153298000T>C	uc004fjv.2	-	3	261	c.35A>G	c.(34-36)AAG>AGG	p.K12R	MECP2_uc004fjw.2_Missense_Mutation_p.K24R	NM_004992	NP_004983	P51608	MECP2_HUMAN	methyl CpG binding protein 2 isoform 1	12					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	heterochromatin|nucleus	double-stranded methylated DNA binding|protein domain specific binding|protein N-terminus binding|transcription corepressor activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GTCTTCTGACTTTTCTTCCCT	0.478													13	108					0	0	1	0	0		C	153298000	C	C	153298000	3	2	27	1	0	0	0	0	1	0	0	0	9441	1609	56	3	1433	3	MECP2	23	153298000	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	2094	153298000	1972560	8531	30882											
TKTL1	8277	broad.mit.edu	37	chrX	153533696	153533696	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttctgagatcatgtctGtgctgttcttctacatcatg	6	18	8	9	0	7	1	2	1	5	1	7	2	7	1	0	0	2	3	0	0	1	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153533696G>A	uc004fkg.2	+	2	361	c.175G>A	c.(175-177)GTG>ATG	p.V59M	TKTL1_uc011mzl.1_Missense_Mutation_p.V53M|TKTL1_uc011mzm.1_Missense_Mutation_p.V59M|TKTL1_uc004fkh.2_Missense_Mutation_p.V3M	NM_012253	NP_036385	P51854	TKTL1_HUMAN	transketolase-like 1 isoform a	59					glucose catabolic process|thiamine metabolic process	cytoplasm|nucleus	metal ion binding|transketolase activity			ovary(3)|skin(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.82e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GATCATGTCTGTGCTGTTCTT	0.512													6	72					0	0	1	0	0		A	153533696	A	A	153533696	3	1	27	1	0	0	0	0	1	0	0	0	15960	1377	48	4	181	4	TKTL1	23	153533696	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	235696	153533696	1736864	8532	30883											
FLNA	2316	broad.mit.edu	37	chrX	153579955	153579955	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcggtgcctcacctgaagGctagaaacagtgaggcggcg	9	7	14	11	3	2	3	1	2	1	1	3	3	2	3	2	4	2	1	2	4	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153579955G>A	uc004fkk.2	-	43	7266	c.7017C>T	c.(7015-7017)AGC>AGT	p.S2339S	FLNA_uc004fki.2_Silent_p.S382S|FLNA_uc011mzn.1_Silent_p.S472S|FLNA_uc010nuu.1_Silent_p.S2331S	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2339	Filamin 22.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TCACCTGAAGGCTAGAAACAG	0.627													14	31					0	0	1	0	0		A	153579955	A	A	153579955	2	1	27	1	0	0	0	0	0	0	0	1	5947	1194	42	2		2	FLNA	23	153579955	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46259	153579955	1690605	8533	30884											
RPL10	6134	broad.mit.edu	37	chrX	153626864	153626864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagatcctggtgtcgccatgGgccgccgccccgcccgttgg	4	7	14	16	5	0	1	0	0	0	1	2	1	1	1	7	3	0	1	7	3	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153626864G>A	uc004fkm.2	+	2	192	c.4G>A	c.(4-6)GGC>AGC	p.G2S	uc010nuv.1_5'UTR|RPL10_uc004fko.2_Missense_Mutation_p.G2S|RPL10_uc004fkn.1_Missense_Mutation_p.G2S|RPL10_uc004fkp.1_Missense_Mutation_p.G2S|RPL10_uc004fkq.1_5'Flank|RPL10_uc004fkr.1_5'Flank|SNORA70_uc010nux.1_5'Flank	NM_006013	NP_006004	P27635	RL10_HUMAN	ribosomal protein L10	2					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|endoplasmic reticulum	structural constituent of ribosome				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGTCGCCATGGGCCGCCGCCC	0.562													26	309					0	0	1	0	0		A	153626864	A	A	153626864	3	1	27	1	0	0	0	0	1	0	0	0	13579	1232	43	4	6	4	RPL10	23	153626864	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	46909	153626864	1643696	8534	30885											
PLXNA3	55558	broad.mit.edu	37	chrX	153696426	153696426	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctctctccaccccccagcTtttgcagagctgcagacgga	7	8	8	18	1	1	2	0	0	1	2	3	3	2	3	5	1	4	4	5	1	0	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153696426T>C	uc004flm.2	+	22	3995	c.3822T>C	c.(3820-3822)GCT>GCC	p.A1274A		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1274	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ACCCCCCAGCTTTTGCAGAGC	0.622													4	61					0	0	1	0	0		C	153696426	C	C	153696426	2	2	27	1	0	0	0	0	0	0	0	1	12140	1623	56	3		3	PLXNA3	23	153696426	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	69562	153696426	1574134	8535	30886											
PLXNA3	55558	broad.mit.edu	37	chrX	153699468	153699468	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccgctgcgcttctgggTgaatgtgatcaagaacccgc	7	9	12	13	3	2	3	1	2	1	1	2	3	2	3	3	1	3	2	3	1	3	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153699468T>C	uc004flm.2	+	31	5350	c.5177T>C	c.(5176-5178)GTG>GCG	p.V1726A		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1726	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CGCTTCTGGGTGAATGTGATC	0.592													18	92					0	0	1	0	0		C	153699468	C	C	153699468	3	2	27	1	0	0	0	0	1	0	0	0	12140	1696	59	3	5295	3	PLXNA3	23	153699468	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	3042	153699468	1571092	8536	30887											
SLC10A3	8273	broad.mit.edu	37	chrX	153717218	153717218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcttaagggacctgtgccaCcaccctcgccccccagacca	8	6	8	19	1	0	1	0	0	0	1	1	2	0	2	8	1	2	1	8	1	1	1			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153717218C>T	uc004flq.2	-	3	326	c.62G>A	c.(61-63)GGT>GAT	p.G21D	UBL4A_uc004flo.2_5'Flank|SLC10A3_uc004flr.2_Missense_Mutation_p.G21D|SLC10A3_uc004flp.2_Missense_Mutation_p.G21D	NM_001142392	NP_001135864	P09131	P3_HUMAN	solute carrier family 10, member 3 isoform 1	21					organic anion transport	integral to membrane	bile acid:sodium symporter activity			ovary(1)|skin(1)	2	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ACCTGTGCCACCACCCTCGCC	0.652													8	21					0	0	1	0	0		T	153717218	T	T	153717218	3	4	27	1	0	0	0	0	1	0	0	0	14400	507	18	4	1375	4	SLC10A3	23	153717218	Missense_Mutation	SNP	C	TCGA-BR-6452-01A-12D-1800-08	17750	153717218	1553342	8537	30888											
GAB3	139716	broad.mit.edu	37	chrX	153940895	153940895	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggaggggagcggctgcagGcagtcaacaaaaacatcatc	13	5	13	10	1	2	0	2	0	0	0	3	2	2	2	0	5	4	3	0	5	3	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153940895G>A	uc004fmj.1	-	4	723	c.675C>T	c.(673-675)TGC>TGT	p.C225C	GAB3_uc004fmk.1_Silent_p.C226C|GAB3_uc010nve.1_Silent_p.C226C|GAB3_uc004fml.1_Intron	NM_080612	NP_542179	Q8WWW8	GAB3_HUMAN	Gab3 protein isoform 2	225										ovary(1)	1	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GCGGCTGCAGGCAGTCAACAA	0.542													9	73					0	0	1	0	0		A	153940895	A	A	153940895	2	1	27	1	0	0	0	0	0	0	0	1	6164	1195	42	2		2	GAB3	23	153940895	Silent	SNP	G	TCGA-BR-6452-01A-12D-1800-08	223677	153940895	1329665	8538	30889											
GAB3	139716	broad.mit.edu	37	chrX	153941521	153941521	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtctcgcagttggacaaaAccagataatctggaaggaag	15	7	11	8	1	2	1	0	0	2	1	3	4	2	4	1	3	1	2	1	3	5	2			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:153941521A>C	uc004fmj.1	-	3	602	c.554T>G	c.(553-555)GTT>GGT	p.V185G	GAB3_uc004fmk.1_Missense_Mutation_p.V186G|GAB3_uc010nve.1_Missense_Mutation_p.V186G|GAB3_uc004fml.1_5'UTR	NM_080612	NP_542179	Q8WWW8	GAB3_HUMAN	Gab3 protein isoform 2	185										ovary(1)	1	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GTTGGACAAAACCAGATAATC	0.512													11	144					0	0	1	0	0		C	153941521	C	C	153941521	3	2	27	1	0	0	0	0	1	0	0	0	6164	43	2	5	1238	5	GAB3	23	153941521	Missense_Mutation	SNP	A	TCGA-BR-6452-01A-12D-1800-08	626	153941521	1329039	8539	30890											
MPP1	4354	broad.mit.edu	37	chrX	154009926	154009926	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctgcttatggatctggtgCactgtttcaaatttggtgcc	6	17	10	8	0	3	0	1	0	2	0	3	1	3	1	1	3	3	3	1	3	2	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:154009926C>T	uc004fmp.1	-	10	1213	c.1098G>A	c.(1096-1098)GTG>GTA	p.V366V	MPP1_uc010nvg.1_Silent_p.V346V|MPP1_uc011mzv.1_Silent_p.V336V|MPP1_uc004fmq.1_Silent_p.V320V|MPP1_uc011mzw.1_Silent_p.V349V	NM_002436	NP_002427	Q00013	EM55_HUMAN	palmitoylated membrane protein 1	366	Guanylate kinase-like.|Interaction with MPP5.				regulation of neutrophil chemotaxis|signal transduction	integral to plasma membrane|membrane fraction|stereocilium	guanylate kinase activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GGATCTGGTGCACTGTTTCAA	0.507													23	242					0	0	1	0	0		T	154009926	T	T	154009926	2	4	27	1	0	0	0	0	0	0	0	1	9751	697	25	2		2	MPP1	23	154009926	Silent	SNP	C	TCGA-BR-6452-01A-12D-1800-08	68405	154009926	1260634	8540	30891											
F8	2157	broad.mit.edu	37	chrX	154130417	154130417	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaattccagctttggatggTaacatttccactgtctcaaa	12	13	6	10	0	1	0	1	0	1	0	4	1	3	1	2	2	2	2	2	2	3	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:154130417T>C	uc004fmt.2	-	19	6195	c.6024A>G	c.(6022-6024)TTA>TTG	p.L2008L	F8_uc010nvi.1_Intron	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	2008	F5/8 type A 3.|Plastocyanin-like 6.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	CTTTGGATGGTAACATTTCCA	0.398													13	92					0	0	1	0	0		C	154130417	C	C	154130417	2	2	27	1	0	0	0	0	0	0	0	1	5358	1635	57	3		3	F8	23	154130417	Silent	SNP	T	TCGA-BR-6452-01A-12D-1800-08	120491	154130417	1140143	8541	30892											
F8	2157	broad.mit.edu	37	chrX	154158736	154158736	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaagaacgacatatctggaTtttgtgcatctggtggaatg	12	13	11	5	1	2	1	0	0	2	1	2	4	2	3	0	3	2	1	0	3	5	4			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:154158736T>G	uc004fmt.2	-	14	3500	c.3329A>C	c.(3328-3330)AAT>ACT	p.N1110T		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	1110	B.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	CATATCTGGATTTTGTGCATC	0.418													10	94					0	0	1	0	0		G	154158736	G	G	154158736	3	3	27	1	0	0	0	0	1	0	0	0	5358	1493	52	5	3806	5	F8	23	154158736	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	28319	154158736	1111824	8542	30893											
VBP1	7411	broad.mit.edu	37	chrX	154448586	154448586	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgctcaaaagaaaagaaggTaagtgtaaaaatttctaagt	19	11	8	3	0	2	2	1	0	1	2	2	2	2	2	0	1	1	3	0	1	10	5			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:154448586T>C	uc004fnc.2	+	2	277	c.218_splice	c.e2+2	p.R73_splice	VBP1_uc004fnd.2_Splice_Site_p.R36_splice	NM_003372	NP_003363	P61758	PFD3_HUMAN	von Hippel-Lindau binding protein 1						'de novo' posttranslational protein folding	nucleus|prefoldin complex	unfolded protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GAAAAGAAGGTAAGTGTAAAA	0.249													5	37					0	0	1	0	0		C	154448586	C	C	154448586	5	2	27	1	0	0	0	0	0	0	1	0	17162	1652	57	3	226	3	VBP1	23	154448586	Splice_Site	SNP	T	TCGA-BR-6452-01A-12D-1800-08	289850	154448586	821974	8543	30894											
TMLHE	55217	broad.mit.edu	37	chrX	154741379	154741379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcagtgtgccgatccagaGctagcttggtgtacgcagtg	7	11	14	9	2	1	1	1	0	0	1	2	2	2	1	2	1	4	4	2	1	2	3			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:154741379G>A	uc004fnn.2	-	5	879	c.713C>T	c.(712-714)GCT>GTT	p.A238V	TMLHE_uc004fno.2_Missense_Mutation_p.A238V|TMLHE_uc004fnp.3_Missense_Mutation_p.A238V	NM_018196	NP_060666	Q9NVH6	TMLH_HUMAN	trimethyllysine hydroxylase, epsilon	238					carnitine biosynthetic process	mitochondrial matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|trimethyllysine dioxygenase activity			ovary(1)	1	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Succinic acid(DB00139)|Vitamin C(DB00126)	CCGATCCAGAGCTAGCTTGGT	0.423													31	126					0	0	1	0	0		A	154741379	A	A	154741379	3	1	27	1	0	0	0	0	1	0	0	0	16257	971	34	2	708	2	TMLHE	23	154741379	Missense_Mutation	SNP	G	TCGA-BR-6452-01A-12D-1800-08	292793	154741379	529181	8544	30895											
IL9R	3581	broad.mit.edu	37	chrX	155227444	155227444	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgggactgggcagatgcaTctgggaaggtgagtctgtgc	8	9	18	6	0	2	2	0	1	2	1	2	5	2	4	0	4	2	2	0	4	1	0			TCGA-BR-6452-01A-12D-1800-08	TCGA-BR-6452-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8e961b4-e324-40a2-89f6-736ec3845bc9	1cd1a5fe-193a-4021-b328-a1dde0cd661b	g.chrX:155227444T>C	uc004fnv.1	+	1	199	c.20T>C	c.(19-21)ATC>ACC	p.I7T	IL9R_uc010nvn.2_5'UTR|IL9R_uc004fnu.1_Silent_p.H12H	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor	7					cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GGCAGATGCATCTGGGAAGGT	0.557													4	115					0	0	1	0	0		C	155227444	C	C	155227444	3	2	27	1	0	0	0	0	1	0	0	0	7724	1435	50	3	22	3	IL9R	23	155227444	Missense_Mutation	SNP	T	TCGA-BR-6452-01A-12D-1800-08	486065	155227444	43116	8545	30896											
CLCNKB	1188	broad.mit.edu	37	chr1	16377482	16377482	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgacccccagcacctgtggtGggaatggtaccacccgcggt	7	6	13	15	3	0	0	0	0	0	0	0	2	0	1	5	4	2	2	5	4	2	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:16377482G>A	uc001axw.3	+	12	1246	c.1166G>A	c.(1165-1167)TGG>TAG	p.W389*	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Nonsense_Mutation_p.W389*|CLCNKB_uc001axy.3_Nonsense_Mutation_p.W220*	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1	389					excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		CACCTGTGGTGGGAATGGTAC	0.632													9	90					0	0	0.058154	0	0		A	16377482	A	A	16377482	4	1	28	1	0	0	0	0	0	1	0	0	3473	1357	47	4	1356	4	CLCNKB	1	16377482	Nonsense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08		16377482	232873139	1	30897											
EPHA2	1969	broad.mit.edu	37	chr1	16464906	16464906	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctcagatgcctcaaacttAaaaaatccaggcgagcaggc	14	7	8	12	1	2	1	2	0	1	1	4	2	3	1	2	2	3	1	2	2	4	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:16464906A>T	uc001aya.1	-	4	980	c.843T>A	c.(841-843)TTT>TTA	p.F281L	EPHA2_uc010oca.1_Missense_Mutation_p.F281L	NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	281	Extracellular (Potential).|Cys-rich.				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	CCTCAAACTTAAAAAATCCAG	0.572													8	49					0	0	0.047766	0	0		T	16464906	T	T	16464906	3	4	28	1	0	0	0	0	1	0	0	0	5175	359	13	5	2143	5	EPHA2	1	16464906	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	87424	16464906	232785715	2	30898											
CLIC4	25932	broad.mit.edu	37	chr1	25124240	25124240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgttttccaggctggcaGtgatggtgaaagcataggaa	10	12	13	6	0	1	2	0	2	1	0	2	3	2	3	1	4	1	4	1	4	3	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:25124240G>A	uc001bjo.2	+	2	365	c.80G>A	c.(79-81)AGT>AAT	p.S27N	CLIC4_uc001bjn.2_RNA|CLIC4_uc001bjp.1_Intron	NM_013943	NP_039234	Q9Y696	CLIC4_HUMAN	chloride intracellular channel 4	27	Required for insertion into the membrane (Probable).				cellular response to calcium ion|establishment or maintenance of apical/basal cell polarity|keratinocyte differentiation|negative regulation of cell migration|regulation of cytoskeleton organization	actin cytoskeleton|apical part of cell|cell surface|cell-cell junction|centrosome|chloride channel complex|cytoplasmic vesicle membrane|cytosol|microvillus|midbody|mitochondrion|nuclear matrix|perinuclear region of cytoplasm|soluble fraction	voltage-gated chloride channel activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000778)|all_lung(284;0.00106)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0479)|OV - Ovarian serous cystadenocarcinoma(117;1.06e-24)|Colorectal(126;1.03e-07)|COAD - Colon adenocarcinoma(152;4.93e-06)|STAD - Stomach adenocarcinoma(196;0.000418)|GBM - Glioblastoma multiforme(114;0.000451)|BRCA - Breast invasive adenocarcinoma(304;0.00215)|KIRC - Kidney renal clear cell carcinoma(1967;0.00216)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.18)		CAGGCTGGCAGTGATGGTGAA	0.378													8	104					0	0	0.080935	0	0		A	25124240	A	A	25124240	3	1	28	1	0	0	0	0	1	0	0	0	3531	1029	36	4	86	4	CLIC4	1	25124240	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	8659334	25124240	224126381	3	30899											
SPOCD1	90853	broad.mit.edu	37	chr1	32265646	32265646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcagggtccgagctggggtCgccaagggccagggaaccgc	7	4	18	12	3	0	0	0	0	0	0	2	2	1	1	4	5	3	2	4	5	2	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:32265646C>T	uc001bts.1	-	5	1757	c.1699G>A	c.(1699-1701)GAC>AAC	p.D567N	SPOCD1_uc001btt.2_5'Flank|SPOCD1_uc001btu.2_Missense_Mutation_p.D567N|SPOCD1_uc001btv.2_Missense_Mutation_p.D60N|SPOCD1_uc001btw.1_5'Flank	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	567					transcription, DNA-dependent					ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)		GAGCTGGGGTCGCCAAGGGCC	0.632													8	38					0	0	0.038147	0	0		T	32265646	T	T	32265646	3	4	28	1	0	0	0	0	1	0	0	0	15103	884	31	1	1999	1	SPOCD1	1	32265646	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	7141406	32265646	216984975	4	30900											
TRIT1	54802	broad.mit.edu	37	chr1	40307584	40307584	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggatttggattttatgtgCgctgataagacaaaatcaaa	14	13	10	4	1	1	2	1	1	0	1	1	4	1	4	0	2	1	1	0	2	5	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:40307584C>T	uc010oiz.1	-	11	1250	c.1236G>A	c.(1234-1236)GCG>GCA	p.A412A	TRIT1_uc001cec.3_RNA|TRIT1_uc001ced.3_Silent_p.A108A|TRIT1_uc001cee.3_RNA|TRIT1_uc001cef.3_RNA|TRIT1_uc001ceg.3_Silent_p.A166A|TRIT1_uc001ceh.3_Silent_p.A166A|TRIT1_uc009vvv.2_Silent_p.A245A|TRIT1_uc001cei.3_Silent_p.A166A|TRIT1_uc001ceq.2_Silent_p.A108A|TRIT1_uc001cek.2_Silent_p.A108A|TRIT1_uc009vvx.2_RNA|TRIT1_uc001cel.2_RNA|TRIT1_uc001cem.2_Silent_p.A330A|TRIT1_uc001cen.2_Silent_p.A166A|TRIT1_uc001ceo.2_Silent_p.A166A|TRIT1_uc001cep.2_Silent_p.A166A	NM_017646	NP_060116	Q9H3H1	MOD5_HUMAN	tRNA isopentenyltransferase 1 precursor	412	Matrin-type.				tRNA processing	mitochondrion	ATP binding|metal ion binding|tRNA dimethylallyltransferase activity			ovary(1)	1	all_cancers(7;4.55e-14)|all_lung(5;1.23e-16)|all_epithelial(6;2.17e-16)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;3.29e-18)|Epithelial(16;3.07e-17)|all cancers(16;6.21e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			ATTTTATGTGCGCTGATAAGA	0.348													6	67					0	0	0.021553	0	0		T	40307584	T	T	40307584	2	4	28	1	0	0	0	0	0	0	0	1	16586	782	27	1		1	TRIT1	1	40307584	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	8041938	40307584	208943037	5	30901											
CYP4A22	284541	broad.mit.edu	37	chr1	47609043	47609043	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaagagtgccttcagccatCagggcagcatccaggtggac	10	7	13	11	0	2	2	2	1	0	1	3	3	3	3	3	3	3	2	3	3	1	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:47609043C>T	uc001cqv.1	+	5	664	c.613C>T	c.(613-615)CAG>TAG	p.Q205*	CYP4A22_uc009vyo.2_Nonsense_Mutation_p.Q205*|CYP4A22_uc009vyp.2_Nonsense_Mutation_p.Q205*	NM_001010969	NP_001010969	Q5TCH4	CP4AM_HUMAN	cytochrome P450, family 4, subfamily A,	205						endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding			skin(2)|ovary(1)|breast(1)	4						CTTCAGCCATCAGGGCAGCAT	0.572													12	63					0	0	0.11911	0	0		T	47609043	T	T	47609043	4	4	28	1	0	0	0	0	0	1	0	0	4187	827	29	4	631	4	CYP4A22	1	47609043	Nonsense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	7301459	47609043	201641578	6	30902											
FAM159A	348378	broad.mit.edu	37	chr1	53099190	53099190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgcctgcacgagctacGtgagcgcagagcaggaggtg	8	4	18	11	5	0	2	0	1	0	1	0	4	0	3	1	3	5	4	1	3	1	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:53099190G>A	uc001cuf.2	+	1	125	c.25G>A	c.(25-27)GTG>ATG	p.V9M	FAM159A_uc001cug.1_RNA|FAM159A_uc001cuh.2_RNA	NM_001042693	NP_001036158	Q6UWV7	F159A_HUMAN	hypothetical protein LOC348378	9						integral to membrane					0						CACGAGCTACGTGAGCGCAGA	0.622													3	6					0	0	0.115264	0	0		A	53099190	A	A	53099190	3	1	28	1	0	0	0	0	1	0	0	0	5479	1145	40	1	27	1	FAM159A	1	53099190	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	5490147	53099190	196151431	7	30903											
LRRIQ3	127255	broad.mit.edu	37	chr1	74507160	74507160	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaatctgttttgccaaacTtgtcgtaaactgttctgaat	10	17	7	7	1	2	2	0	2	2	0	3	2	2	2	1	0	3	3	1	0	5	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:74507160T>G	uc001dfy.3	-	7	1647	c.1455A>C	c.(1453-1455)CAA>CAC	p.Q485H	LRRIQ3_uc001dfz.3_Intron	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	485										ovary(2)	2						TTTGCCAAACTTGTCGTAAAC	0.323													21	152					0	0	0.055883	0	0		G	74507160	G	G	74507160	3	3	28	1	0	0	0	0	1	0	0	0	9048	1606	56	5	427	5	LRRIQ3	1	74507160	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	21407970	74507160	174743461	8	30904											
ELTD1	64123	broad.mit.edu	37	chr1	79392711	79392711	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttgaggtttcaataagaAgttgtcagatgatgaaagca	15	13	10	3	0	2	5	2	3	0	2	2	5	2	5	0	1	1	3	0	1	4	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:79392711A>C	uc001diq.3	-	8	1099	c.943T>G	c.(943-945)TTC>GTC	p.F315V		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	315	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		TTCAATAAGAAGTTGTCAGAT	0.318													11	96					0	0	0.080935	0	0		C	79392711	C	C	79392711	3	2	28	1	0	0	0	0	1	0	0	0	5092	72	3	5	1161	5	ELTD1	1	79392711	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	4885551	79392711	169857910	9	30905											
ELTD1	64123	broad.mit.edu	37	chr1	79403793	79403793	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacatacttacagtaagagTtgagttagaaagggtgtcct	14	11	11	5	0	0	3	0	1	0	2	1	4	1	3	1	1	3	3	1	1	6	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:79403793T>A	uc001diq.3	-	5	724	c.568A>T	c.(568-570)ACT>TCT	p.T190S		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	190	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		ACAGTAAGAGTTGAGTTAGAA	0.308													8	56					0	0	0.038147	0	0		A	79403793	A	A	79403793	3	1	28	1	0	0	0	0	1	0	0	0	5092	1725	60	5	1548	5	ELTD1	1	79403793	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	11082	79403793	169846828	10	30906											
LPHN2	23266	broad.mit.edu	37	chr1	82416057	82416057	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attccacctataacaaatatTtttcccctgccagagagatt	13	13	4	11	0	0	2	0	0	0	2	2	3	2	2	5	0	2	0	5	0	4	7			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:82416057T>G	uc001dit.3	+	7	1564	c.1383T>G	c.(1381-1383)ATT>ATG	p.I461M	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.I461M|LPHN2_uc001div.2_Missense_Mutation_p.I461M|LPHN2_uc009wcd.2_Missense_Mutation_p.I461M|LPHN2_uc001diw.2_Missense_Mutation_p.I32M	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	461	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		TAACAAATATTTTTCCCCTGC	0.473													4	47					0	0	0.009096	0	0		G	82416057	G	G	82416057	3	3	28	1	0	0	0	0	1	0	0	0	8934	1829	64	5	1401	5	LPHN2	1	82416057	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	3012264	82416057	166834564	11	30907											
HFM1	164045	broad.mit.edu	37	chr1	91851178	91851178	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaaaaagatggtgctttGaacatgccttctccgatttc	11	13	8	9	1	1	3	0	2	1	1	3	4	1	3	2	1	3	1	2	1	3	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:91851178G>T	uc001doa.3	-	5	808	c.708C>A	c.(706-708)TTC>TTA	p.F236L	HFM1_uc010osu.1_Intron|HFM1_uc010osv.1_Intron|HFM1_uc001doc.1_Missense_Mutation_p.F236L	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	236							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		ATGGTGCTTTGAACATGCCTT	0.338													11	50					0.000978159	0.00100758	0.080935	1	0		T	91851178	T	T	91851178	3	4	28	1	0	0	0	0	1	0	0	0	7099	1281	45	5	3739	5	HFM1	1	91851178	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	9435121	91851178	157399443	12	30908											
COL11A1	1301	broad.mit.edu	37	chr1	103345385	103345385	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgatgacagtggtaggtgaAattttgccgagcagaggcag	11	9	15	6	1	0	4	0	3	0	1	0	5	0	4	1	3	2	3	1	3	2	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:103345385A>C	uc001dul.2	-	66	5446	c.5128T>G	c.(5128-5130)TTC>GTC	p.F1710V	COL11A1_uc001duk.2_Missense_Mutation_p.F906V|COL11A1_uc001dum.2_Missense_Mutation_p.F1722V|COL11A1_uc001dun.2_Missense_Mutation_p.F1671V|COL11A1_uc009weh.2_Missense_Mutation_p.F1594V	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1710	Fibrillar collagen NC1.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TGGTAGGTGAAATTTTGCCGA	0.428													8	65					0	0	0.038147	0	0		C	103345385	C	C	103345385	3	2	28	1	0	0	0	0	1	0	0	0	3670	14	1	5	300	5	COL11A1	1	103345385	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	11494207	103345385	145905236	13	30909											
CELSR2	1952	broad.mit.edu	37	chr1	109794410	109794410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtggctgctgaactggaccGggaggaagttgatttctaca	9	11	14	7	1	1	2	0	2	1	0	1	5	1	5	1	4	3	3	1	4	3	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:109794410G>A	uc001dxa.3	+	1	1770	c.1709G>A	c.(1708-1710)CGG>CAG	p.R570Q		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	570	Cadherin 4.|Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		GAACTGGACCGGGAGGAAGTT	0.572													7	49					0	0	0.047766	0	0		A	109794410	A	A	109794410	3	1	28	1	0	0	0	0	1	0	0	0	3225	1116	39	1	1711	1	CELSR2	1	109794410	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	6449025	109794410	139456211	14	30910											
SMG5	23381	broad.mit.edu	37	chr1	156246933	156246933	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcactgcagttccagctggtAgtgggactggatatagagaa	11	9	14	7	0	0	1	0	0	0	1	1	4	1	3	1	3	2	5	1	3	4	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:156246933A>T	uc001foc.3	-	4	546	c.397T>A	c.(397-399)TAC>AAC	p.Y133N		NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	133					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					TCCAGCTGGTAGTGGGACTGG	0.542													4	58					0	0	0.009096	0	0		T	156246933	T	T	156246933	3	4	28	1	0	0	0	0	1	0	0	0	14821	420	15	5	2729	5	SMG5	1	156246933	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	46452523	156246933	93003688	15	30911											
CD1E	913	broad.mit.edu	37	chr1	158324361	158324361	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccctggtcccatggaaacTtcagcaagcaggagctgaaa	13	6	11	11	0	1	1	1	1	0	0	2	3	2	3	2	3	5	3	2	3	3	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:158324361T>G	uc001fse.2	+	2	492	c.253T>G	c.(253-255)TTC>GTC	p.F85V	CD1E_uc010pid.1_Missense_Mutation_p.F83V|CD1E_uc010pie.1_Intron|CD1E_uc010pif.1_Intron|CD1E_uc001fsd.2_Missense_Mutation_p.F85V|CD1E_uc001fsk.2_Missense_Mutation_p.F85V|CD1E_uc001fsj.2_Missense_Mutation_p.F85V|CD1E_uc001fsc.2_Intron|CD1E_uc010pig.1_Intron|CD1E_uc001fsa.2_Intron|CD1E_uc001fsf.2_Missense_Mutation_p.F85V|CD1E_uc001fry.2_Missense_Mutation_p.F85V|CD1E_uc001fsg.2_Intron|CD1E_uc001fsh.2_Intron|CD1E_uc001fsi.2_Missense_Mutation_p.F85V|CD1E_uc009wsv.2_Intron|CD1E_uc001frz.2_Missense_Mutation_p.F85V|CD1E_uc009wsw.2_5'Flank	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	85					antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					CCATGGAAACTTCAGCAAGCA	0.498													4	42					0	0	0.009096	0	0		G	158324361	G	G	158324361	3	3	28	1	0	0	0	0	1	0	0	0	2981	1609	56	5	259	5	CD1E	1	158324361	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	2077428	158324361	90926260	16	30912											
OR10Z1	128368	broad.mit.edu	37	chr1	158576489	158576489	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgctctctggcctggctggGggggaccaggctatctccta	5	10	14	12	0	2	0	0	0	2	0	4	1	2	1	3	6	1	3	3	6	2	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:158576489G>A	uc010pio.1	+	1	261	c.261G>A	c.(259-261)GGG>GGA	p.G87G		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					GCCTGGCTGGGGGGGACCAGG	0.547													30	251					0	0	0.134883	0	0		A	158576489	A	A	158576489	2	1	28	1	0	0	0	0	0	0	0	1	10942	1219	43	4		4	OR10Z1	1	158576489	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	252128	158576489	90674132	17	30913											
PTPRC	5788	broad.mit.edu	37	chr1	198711490	198711490	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagatgcctgatggttcaAgtagaggtatgttctaacct	11	12	11	7	0	2	3	1	1	1	2	2	4	2	3	2	2	2	4	2	2	4	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:198711490A>T	uc001gur.1	+	25	2865	c.2685A>T	c.(2683-2685)CAA>CAT	p.Q895H	PTPRC_uc001gus.1_Missense_Mutation_p.Q847H|PTPRC_uc001gut.1_Missense_Mutation_p.Q734H	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	895	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.	Substrate (By similarity).			axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TGATGGTTCAAGTAGAGGTAT	0.363													12	101					0	0	0.09319	0	0		T	198711490	T	T	198711490	3	4	28	1	0	0	0	0	1	0	0	0	12822	69	3	5	2790	5	PTPRC	1	198711490	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	40135001	198711490	50539131	18	30914											
FMOD	2331	broad.mit.edu	37	chr1	203311556	203311556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctcgttcccgtccaggCgcagcacctgcagcttggag	6	9	12	14	3	1	1	0	1	1	0	4	2	3	2	3	2	3	5	3	2	0	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:203311556C>T	uc001gzr.2	-	3	1182	c.1046G>A	c.(1045-1047)CGC>CAC	p.R349H	FMOD_uc010pqi.1_RNA	NM_002023	NP_002014	Q06828	FMOD_HUMAN	fibromodulin precursor	349	LRR 11.				transforming growth factor beta receptor complex assembly	extracellular space|proteinaceous extracellular matrix				ovary(2)|breast(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.171)			CCCGTCCAGGCGCAGCACCTG	0.647											OREG0014119	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	39					0	0	0.038147	0	0		T	203311556	T	T	203311556	3	4	28	1	0	0	0	0	1	0	0	0	5973	768	27	1	88	1	FMOD	1	203311556	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	4600066	203311556	45939065	19	30915											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220345380	220345380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agactgagaatcccaggtctCatcgatggccactataggga	12	8	11	10	1	1	2	1	1	1	2	4	5	2	3	2	3	0	0	2	3	3	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:220345380C>T	uc010puk.1	-	23	2592	c.2428G>A	c.(2428-2430)GAG>AAG	p.E810K	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Missense_Mutation_p.E390K	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	810					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		TCCCAGGTCTCATCGATGGCC	0.433													12	36					0	0	0.11911	0	0		T	220345380	T	T	220345380	3	4	28	1	0	0	0	0	1	0	0	0	12961	835	29	4	1805	4	RAB3GAP2	1	220345380	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	17033824	220345380	28905241	20	30916											
ERO1LB	56605	broad.mit.edu	37	chr1	236399099	236399099	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaacctacctcggctaggCgccagaggatttaaaggacg	14	6	11	10	3	0	1	0	0	0	1	1	3	0	3	3	4	2	1	3	4	6	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:236399099C>T	uc001hxt.2	-	8	919	c.663G>A	c.(661-663)GCG>GCA	p.A221A		NM_019891	NP_063944	Q86YB8	ERO1B_HUMAN	endoplasmic reticulum oxidoreductin 1-Lbeta	221					electron transport chain|protein thiol-disulfide exchange|transport	endoplasmic reticulum membrane	flavin adenine dinucleotide binding|oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor|unfolded protein binding				0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.123)|Acute lymphoblastic leukemia(190;0.205)|Prostate(94;0.219)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			CTCGGCTAGGCGCCAGAGGAT	0.289													8	61					0	0	0.080935	0	0		T	236399099	T	T	236399099	2	4	28	1	0	0	0	0	0	0	0	1	5248	755	27	1		1	ERO1LB	1	236399099	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	16053719	236399099	12851522	21	30917											
FMN2	56776	broad.mit.edu	37	chr1	240256759	240256759	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagaggcggccggaaccctcCctgagccgagggtccagaac	10	3	14	14	3	0	3	0	1	0	2	2	5	2	4	5	4	3	0	5	4	3	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:240256759C>A	uc010pyd.1	+	1	1575	c.1350C>A	c.(1348-1350)TCC>TCA	p.S450S	FMN2_uc010pye.1_Silent_p.S450S	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	450					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CGGAACCCTCCCTGAGCCGAG	0.697													8	58					0.00621372	0.00635283	0.058154	1	0		A	240256759	A	A	240256759	2	1	28	1	0	0	0	0	0	0	0	1	5964	610	22	5		5	FMN2	1	240256759	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	3857660	240256759	8993862	22	30918											
FMN2	56776	broad.mit.edu	37	chr1	240555824	240555824	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttcagccaaaattgaccaAgaggcagaggaaaattcact	16	8	8	9	0	2	3	2	1	0	2	2	4	2	4	2	2	1	1	2	2	5	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr1:240555824A>G	uc010pyd.1	+	15	5097	c.4872A>G	c.(4870-4872)CAA>CAG	p.Q1624Q	FMN2_uc010pye.1_Silent_p.Q1628Q|FMN2_uc010pyf.1_Silent_p.Q239Q|FMN2_uc010pyg.1_Silent_p.Q220Q	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1624	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AAATTGACCAAGAGGCAGAGG	0.343													18	136					0	0	0.055883	0	0		G	240555824	G	G	240555824	2	3	28	1	0	0	0	0	0	0	0	1	5964	69	3	3		3	FMN2	1	240555824	Silent	SNP	A	TCGA-BR-6453-01A-11D-1800-08	299065	240555824	8694797	23	30919											
MYT1L	23040	broad.mit.edu	37	chr2	1893207	1893207	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcctctgcttgttcatgcTgaggtccagggtcccgttct	3	13	12	13	2	3	1	1	1	2	0	5	1	5	1	3	3	2	4	3	3	0	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:1893207T>C	uc002qxe.2	-	16	3153	c.2326A>G	c.(2326-2328)AGC>GGC	p.S776G	MYT1L_uc002qxd.2_Missense_Mutation_p.S774G|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	776					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		TTGTTCATGCTGAGGTCCAGG	0.592													4	61					0	0	0.009096	0	0		C	1893207	C	C	1893207	3	2	28	1	0	0	0	0	1	0	0	0	10125	1580	55	3	1274	3	MYT1L	2	1893207	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08		1893207	241306166	24	30920											
ATP6V1C2	245973	broad.mit.edu	37	chr2	10912687	10912687	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaaactactcacaatggCaaaaaacctacgaatctctc	17	7	4	13	1	2	0	1	0	1	0	4	2	2	0	2	1	4	1	2	1	8	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:10912687C>G	uc002ras.2	+	8	698	c.589C>G	c.(589-591)CAA>GAA	p.Q197E	ATP6V1C2_uc002rat.2_Missense_Mutation_p.Q197E	NM_001039362	NP_001034451	Q8NEY4	VATC2_HUMAN	vacuolar H+ ATPase C2 isoform a	197					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.15)|OV - Ovarian serous cystadenocarcinoma(76;0.152)		CTCACAATGGCAAAAAACCTA	0.512													25	335					0	0	0.116897	0	0		G	10912687	G	G	10912687	3	3	28	1	0	0	0	0	1	0	0	0	1182	711	25	5	615	5	ATP6V1C2	2	10912687	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	9019480	10912687	232286686	25	30921											
CENPO	79172	broad.mit.edu	37	chr2	25040575	25040575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacttcatgggaggagcaacGagcatctcatgaaactctgt	12	9	10	10	1	3	1	2	1	2	0	4	4	3	3	0	2	4	2	0	2	2	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:25040575G>A	uc002rfo.1	+	7	992	c.803G>A	c.(802-804)CGA>CAA	p.R268Q	CENPO_uc002rfp.1_Missense_Mutation_p.R262Q|CENPO_uc002rfq.1_Missense_Mutation_p.R268Q	NM_024322	NP_077298	Q9BU64	CENPO_HUMAN	centromere protein O	268					cell division|CenH3-containing nucleosome assembly at centromere|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					GAGGAGCAACGAGCATCTCAT	0.443													5	45					0	0	0.014758	0	0		A	25040575	A	A	25040575	3	1	28	1	0	0	0	0	1	0	0	0	3242	1058	37	1	825	1	CENPO	2	25040575	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	14127888	25040575	218158798	26	30922											
OTX1	5013	broad.mit.edu	37	chr2	63283145	63283145	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgcagctcatacctagcGcccatgcactcacatcacca	11	7	6	17	1	3	0	3	0	0	0	3	1	3	0	3	0	5	3	3	0	2	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:63283145G>A	uc002scd.2	+	5	1007	c.759G>A	c.(757-759)GCG>GCA	p.A253A	OTX1_uc010ypt.1_Silent_p.A187A	NM_014562	NP_055377	P32242	OTX1_HUMAN	orthodenticle homeobox 1	253						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(2)	2	Lung NSC(7;0.121)|all_lung(7;0.211)					CATACCTAGCGCCCATGCACT	0.637													19	98					0	0	0.055883	0	0		A	63283145	A	A	63283145	2	1	28	1	0	0	0	0	0	0	0	1	11339	1074	38	1		1	OTX1	2	63283145	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	38242570	63283145	179916228	27	30923											
ALMS1	7840	broad.mit.edu	37	chr2	73800417	73800417	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtatgcttgtcacccagaCgaattaaattatatagcagc	14	11	8	8	1	1	1	1	0	0	1	1	3	1	1	1	0	3	3	1	0	7	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:73800417C>G	uc002sje.1	+	18	11527	c.11416C>G	c.(11416-11418)CGA>GGA	p.R3806G	ALMS1_uc002sjf.1_Missense_Mutation_p.R3762G|ALMS1_uc002sjg.2_Missense_Mutation_p.R3192G|ALMS1_uc002sjh.1_Missense_Mutation_p.R3192G	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3804					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GTCACCCAGACGAATTAAATT	0.468													4	105					0	0	0.014758	0	0		G	73800417	G	G	73800417	3	3	28	1	0	0	0	0	1	0	0	0	535	528	19	5	11472	5	ALMS1	2	73800417	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	10517272	73800417	169398956	28	30924											
CTNNA2	1496	broad.mit.edu	37	chr2	80646693	80646693	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagtgaaagaatatgcccaAgttttccgtgagcatgccaa	14	9	10	8	1	0	3	0	2	0	1	1	4	1	3	3	0	3	2	3	0	6	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:80646693A>C	uc010ysh.1	+	8	1262	c.1257A>C	c.(1255-1257)CAA>CAC	p.Q419H	CTNNA2_uc010yse.1_Missense_Mutation_p.Q419H|CTNNA2_uc010ysf.1_Missense_Mutation_p.Q419H|CTNNA2_uc010ysg.1_Missense_Mutation_p.Q419H|CTNNA2_uc010ysi.1_Missense_Mutation_p.Q51H	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	419					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						AATATGCCCAAGTTTTCCGTG	0.443													4	101					0	0	0.014758	0	0		C	80646693	C	C	80646693	3	2	28	1	0	0	0	0	1	0	0	0	4016	69	3	5	1079	5	CTNNA2	2	80646693	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	6846276	80646693	162552680	29	30925											
PCDP1	200373	broad.mit.edu	37	chr2	120385314	120385314	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcgcccaaggaggtgctGcccttcgctttcccagactg	5	10	12	14	2	0	1	0	0	0	1	3	2	1	2	3	2	2	2	3	2	1	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:120385314G>T	uc002tmb.2	+	17	1836	c.744G>T	c.(742-744)CTG>CTT	p.L248L	PCDP1_uc010yyq.1_Silent_p.L378L	NM_001029996	NP_001025167	Q4G0U5	PCDP1_HUMAN	primary ciliary dyskinesia protein 1	534						cilium	calmodulin binding				0	Colorectal(110;0.196)					AGGAGGTGCTGCCCTTCGCTT	0.547													13	115					4.75885e-15	5.09346e-15	0.0333	1	0		T	120385314	T	T	120385314	2	4	28	1	0	0	0	0	0	0	0	1	11591	1306	46	5		5	PCDP1	2	120385314	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	39738621	120385314	122814059	30	30926											
LRP1B	53353	broad.mit.edu	37	chr2	141201953	141201953	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttgcccattacatcttaAgtttactgggatacatttct	10	17	5	9	0	3	0	0	0	3	0	3	1	3	1	1	1	4	1	1	1	4	7			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:141201953A>G	uc002tvj.1	-	65	11212	c.10240T>C	c.(10240-10242)TTA>CTA	p.L3414L		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3414	Extracellular (Potential).|LDL-receptor class A 23.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTACATCTTAAGTTTACTGGG	0.398										TSP Lung(27;0.18)			26	117					0	0	0.0918	0	0		G	141201953	G	G	141201953	2	3	28	1	0	0	0	0	0	0	0	1	8973	69	3	3		3	LRP1B	2	141201953	Silent	SNP	A	TCGA-BR-6453-01A-11D-1800-08	20816639	141201953	101997420	31	30927											
LRP1B	53353	broad.mit.edu	37	chr2	141250226	141250226	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgctaattttccttatcTcatgatgatcagcaagaatt	12	15	6	8	0	2	3	2	2	1	1	4	3	3	3	1	0	2	2	1	0	4	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:141250226T>C	uc002tvj.1	-	57	10043	c.9071A>G	c.(9070-9072)GAG>GGG	p.E3024G		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3024	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTTCCTTATCTCATGATGATC	0.343										TSP Lung(27;0.18)			12	140					0	0	0.11911	0	0		C	141250226	C	C	141250226	3	2	28	1	0	0	0	0	1	0	0	0	8973	1551	54	3	4868	3	LRP1B	2	141250226	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	48273	141250226	101949147	32	30928											
ACVR2A	92	broad.mit.edu	37	chr2	148653912	148653912	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactcaggagtgtcttttctTtaatgctaattgggaaaaag	13	14	9	5	0	3	0	1	0	2	0	3	2	3	2	0	2	2	1	0	2	5	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:148653912T>G	uc002twg.2	+	3	367	c.98T>G	c.(97-99)TTT>TGT	p.F33C	ACVR2A_uc010zbn.1_Intron|ACVR2A_uc002twh.2_Missense_Mutation_p.F33C	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	33	Extracellular (Potential).				activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		TGTCTTTTCTTTAATGCTAAT	0.338													7	133					0	0	0.038147	0	0		G	148653912	G	G	148653912	3	3	28	1	0	0	0	0	1	0	0	0	223	1841	64	5	104	5	ACVR2A	2	148653912	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	7403686	148653912	94545461	33	30929											
SCN1A	6323	broad.mit.edu	37	chr2	166893015	166893015	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcactaaatgagctcagaAgcaaggccagaaagagattc	16	6	10	9	0	1	4	1	1	0	3	2	5	1	4	1	1	3	3	1	1	5	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:166893015A>C	uc010zcz.1	-	16	2957	c.2939T>G	c.(2938-2940)CTT>CGT	p.L980R	SCN1A_uc002udo.3_Missense_Mutation_p.L860R|SCN1A_uc010fpk.2_Missense_Mutation_p.L832R	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	991	Helical; Name=S6 of repeat II; (By similarity).|II.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TGAGCTCAGAAGCAAGGCCAG	0.373													5	41					0	0	0.014758	0	0		C	166893015	C	C	166893015	3	2	28	1	0	0	0	0	1	0	0	0	13939	72	3	5	3101	5	SCN1A	2	166893015	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	18239103	166893015	76306358	34	30930											
TTN	7273	broad.mit.edu	37	chr2	179437107	179437107	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatagtagctacagccttcTtgaagctggtctaccttcca	11	12	7	11	0	2	1	0	1	2	0	3	1	3	1	3	1	5	3	3	1	6	7			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:179437107T>C	uc010zfg.1	-	275	66272	c.66048A>G	c.(66046-66048)CAA>CAG	p.Q22016Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.Q15711Q|TTN_uc010zfi.1_Silent_p.Q15644Q|TTN_uc010zfj.1_Silent_p.Q15519Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22943							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TACAGCCTTCTTGAAGCTGGT	0.438													4	56					0	0	0.009096	0	0		C	179437107	C	C	179437107	2	2	28	1	0	0	0	0	0	0	0	1	16761	1606	56	3		3	TTN	2	179437107	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	12544092	179437107	63762266	35	30931											
TTN	7273	broad.mit.edu	37	chr2	179472135	179472135	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacattccttaccaaaaacTtctaccctggctgctgcaaa	13	10	4	14	0	1	0	0	0	1	0	2	0	2	0	3	1	6	3	3	1	6	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:179472135T>G	uc010zfg.1	-	226	45800	c.45576A>C	c.(45574-45576)GAA>GAC	p.E15192D	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E8887D|TTN_uc010zfi.1_Missense_Mutation_p.E8820D|TTN_uc010zfj.1_Missense_Mutation_p.E8695D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16119							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TACCAAAAACTTCTACCCTGG	0.383													28	122					0	0	0.108266	0	0		G	179472135	G	G	179472135	3	3	28	1	0	0	0	0	1	0	0	0	16761	1606	56	5	54757	5	TTN	2	179472135	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	35028	179472135	63727238	36	30932											
TTN	7273	broad.mit.edu	37	chr2	179635310	179635310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttgatccactggacacCtttgacattagggtgtgtaa	10	15	9	7	0	0	2	0	2	0	0	1	3	1	3	2	2	0	1	2	2	2	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:179635310C>T	uc010zfg.1	-	35	8433	c.8209G>A	c.(8209-8211)GGT>AGT	p.G2737S	TTN_uc010zfh.1_Missense_Mutation_p.G2691S|TTN_uc010zfi.1_Missense_Mutation_p.G2691S|TTN_uc010zfj.1_Missense_Mutation_p.G2691S|TTN_uc002unb.2_Missense_Mutation_p.G2737S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2737							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CACTGGACACCTTTGACATTA	0.403													4	125					0	0	0.009096	0	0		T	179635310	T	T	179635310	3	4	28	1	0	0	0	0	1	0	0	0	16761	681	24	4	103091	4	TTN	2	179635310	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	163175	179635310	63564063	37	30933											
ZNF804A	91752	broad.mit.edu	37	chr2	185802505	185802505	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaatcatttaccagaagaAtttttgaggccaccaagtac	15	10	7	9	0	1	4	1	1	0	3	1	4	1	4	3	1	2	1	3	1	6	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:185802505A>C	uc002uph.2	+	4	2976	c.2382A>C	c.(2380-2382)GAA>GAC	p.E794D		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	794						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TACCAGAAGAATTTTTGAGGC	0.383													11	105					0	0	0.080935	0	0		C	185802505	C	C	185802505	3	2	28	1	0	0	0	0	1	0	0	0	18195	98	4	5	2396	5	ZNF804A	2	185802505	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	6167195	185802505	57396868	38	30934											
NAB1	4664	broad.mit.edu	37	chr2	191524263	191524263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaaggagtagcaatgccCgggaacctcatttaaaaatc	16	8	9	8	1	1	1	1	1	0	0	2	3	1	3	2	2	3	2	2	2	7	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:191524263C>T	uc002usb.2	+	4	933	c.361C>T	c.(361-363)CGG>TGG	p.R121W	NAB1_uc010fsc.2_Missense_Mutation_p.R121W|NAB1_uc010fsd.2_Missense_Mutation_p.R121W|NAB1_uc002usc.2_Missense_Mutation_p.R121W|NAB1_uc010zgh.1_Missense_Mutation_p.R121W	NM_005966	NP_005957	Q13506	NAB1_HUMAN	NGFI-A binding protein 1	121					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0405)|all cancers(119;0.109)			TAGCAATGCCCGGGAACCTCA	0.498													9	57					0	0	0.047766	0	0		T	191524263	T	T	191524263	3	4	28	1	0	0	0	0	1	0	0	0	10149	643	23	1	363	1	NAB1	2	191524263	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	5721758	191524263	51675110	39	30935											
FEV	54738	broad.mit.edu	37	chr2	219846688	219846688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcggcatgagcgtgcgCgggcggcggctggcaggcct	3	4	22	12	7	0	1	0	1	0	0	0	1	0	1	1	8	2	3	1	8	0	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:219846688C>T	uc002vji.1	-	3	1000	c.418G>A	c.(418-420)GCG>ACG	p.A140T		NM_017521	NP_059991	Q99581	FEV_HUMAN	FEV (ETS oncogene family)	140	May mediate active transcriptional repression.|Ala-rich.				cell differentiation|nervous system development|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity		EWSR1/FEV(10)|FUS/FEV(2)	bone(10)|soft_tissue(2)	12		Renal(207;0.0474)		Epithelial(149;9.77e-07)|all cancers(144;0.000167)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGAGCGTGCGCGGGCGGCGGC	0.557			T	EWSR1| FUS	Ewing sarcoma								5	21					0	0	0.021553	0	0		T	219846688	T	T	219846688	3	4	28	1	0	0	0	0	1	0	0	0	5836	768	27	1	302	1	FEV	2	219846688	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	28322425	219846688	23352685	40	30936											
PAX3	5077	broad.mit.edu	37	chr2	223085988	223085988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtctccgacagctggtacGttggcaaggtcggcatggca	8	8	15	10	3	1	0	0	0	1	0	3	1	1	0	1	6	2	6	1	6	2	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr2:223085988G>A	uc010fwo.2	-	6	1277	c.911C>T	c.(910-912)ACG>ATG	p.T304M	PAX3_uc002vmt.1_Missense_Mutation_p.T304M|PAX3_uc002vmy.1_Missense_Mutation_p.T303M|PAX3_uc002vmv.1_Missense_Mutation_p.T304M|PAX3_uc002vmw.1_Missense_Mutation_p.T304M|PAX3_uc002vmx.1_Missense_Mutation_p.T304M	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	304					apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAGCTGGTACGTTGGCAAGGT	0.537			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						20	247					0	0	0.055883	0	0		A	223085988	A	A	223085988	3	1	28	1	0	0	0	0	1	0	0	0	11499	1145	40	1	654	1	PAX3	2	223085988	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	3239300	223085988	20113385	41	30937											
KCNH8	131096	broad.mit.edu	37	chr3	19575469	19575469	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttccttcagtctggaaaacTtaccaggatcttggaaccag	11	11	9	10	0	3	0	1	0	2	0	4	3	4	3	3	3	3	1	3	3	4	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr3:19575469T>G	uc003cbk.1	+	16	3397	c.3202T>G	c.(3202-3204)TTA>GTA	p.L1068V	KCNH8_uc010hex.1_Missense_Mutation_p.L529V	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	1068	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						TCTGGAAAACTTACCAGGATC	0.483													7	56					0	0	0.038147	0	0		G	19575469	G	G	19575469	3	3	28	1	0	0	0	0	1	0	0	0	8054	1606	56	5	3264	5	KCNH8	3	19575469	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08		19575469	178446961	42	30938											
MYRIP	25924	broad.mit.edu	37	chr3	40275351	40275351	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgttatcggaccaaacagaAgttttctgctgtttctctct	8	16	7	10	1	3	1	0	0	3	1	5	2	3	2	1	1	2	4	1	1	3	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr3:40275351A>C	uc003cka.2	+	12	2042	c.1907A>C	c.(1906-1908)AAG>ACG	p.K636T	MYRIP_uc010hhu.2_Intron|MYRIP_uc010hhv.2_Intron|MYRIP_uc010hhw.2_Missense_Mutation_p.K547T|MYRIP_uc011ayz.1_Missense_Mutation_p.K449T|uc003ckb.2_Intron	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	636	Actin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		ACCAAACAGAAGTTTTCTGCT	0.443													12	72					0	0	0.11911	0	0		C	40275351	C	C	40275351	3	2	28	1	0	0	0	0	1	0	0	0	10118	86	3	5	1949	5	MYRIP	3	40275351	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	20699882	40275351	157747079	43	30939											
NBEAL2	23218	broad.mit.edu	37	chr3	47049917	47049917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacagagctcagcgtgggaaCgtcctggggcccaggtatgg	8	7	16	10	2	1	1	1	0	0	1	2	2	2	2	2	5	4	2	2	5	3	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr3:47049917C>T	uc003cqp.2	+	51	8043	c.7864C>T	c.(7864-7866)CGT>TGT	p.R2622C	NBEAL2_uc010hjm.1_Missense_Mutation_p.R1999C|NBEAL2_uc010hjn.1_Missense_Mutation_p.R988C|NBEAL2_uc010hjo.1_Missense_Mutation_p.R182C	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	2622							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		AGCGTGGGAACGTCCTGGGGC	0.607													8	50					0	0	0.038147	0	0		T	47049917	T	T	47049917	3	4	28	1	0	0	0	0	1	0	0	0	10207	536	19	1	8066	1	NBEAL2	3	47049917	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	6774566	47049917	150972513	44	30940											
GRM2	2912	broad.mit.edu	37	chr3	51746766	51746766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcggagaaagtgggccGtgccatgagccgcgcggcct	7	5	15	14	5	0	2	0	1	0	1	1	3	0	2	5	3	2	0	5	3	1	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr3:51746766G>A	uc010hlv.2	+	3	967	c.728G>A	c.(727-729)CGT>CAT	p.R243H	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	243	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	AAAGTGGGCCGTGCCATGAGC	0.652													6	41					0	0	0.021553	0	0		A	51746766	A	A	51746766	3	1	28	1	0	0	0	0	1	0	0	0	6813	1145	40	1	734	1	GRM2	3	51746766	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	4696849	51746766	146275664	45	30941											
PRICKLE2	166336	broad.mit.edu	37	chr3	64085187	64085187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcgttgtcggagcgagagCgtcgggaacgcctggacctg	6	6	19	10	6	0	1	0	0	0	1	2	5	0	4	2	4	3	1	2	4	1	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr3:64085187C>T	uc003dmf.2	-	8	2661	c.2075G>A	c.(2074-2076)CGC>CAC	p.R692H		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	692	Arg-rich.					cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		GGAGCGAGAGCGTCGGGAACG	0.627													7	59					0	0	0.02938	0	0		T	64085187	T	T	64085187	3	4	28	1	0	0	0	0	1	0	0	0	12509	768	27	1	463	1	PRICKLE2	3	64085187	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	12338421	64085187	133937243	46	30942											
ADAMTS9	56999	broad.mit.edu	37	chr3	64619467	64619467	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcacactgttcatctcggaAgtctcgcttctgcttgagac	8	12	9	12	2	4	1	1	1	3	1	6	3	4	2	0	1	2	4	0	1	1	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr3:64619467A>C	uc003dmg.2	-	13	1977	c.1945T>G	c.(1945-1947)TTC>GTC	p.F649V	ADAMTS9_uc011bfo.1_Missense_Mutation_p.F621V|ADAMTS9_uc003dmh.1_Missense_Mutation_p.F478V|ADAMTS9_uc003dmk.1_Missense_Mutation_p.F649V	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	649	Cys-rich.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		TCATCTCGGAAGTCTCGCTTC	0.443													21	137					0	0	0.055883	0	0		C	64619467	C	C	64619467	3	2	28	1	0	0	0	0	1	0	0	0	273	72	3	5	3970	5	ADAMTS9	3	64619467	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	534280	64619467	133402963	47	30943											
CNTN3	5067	broad.mit.edu	37	chr3	74418456	74418456	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcaagcacaccactgaacTtccttaatttaattttgctg	11	16	4	10	0	1	1	1	1	0	0	2	1	2	1	2	0	3	2	2	0	4	7			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr3:74418456T>G	uc003dpm.1	-	7	910	c.830A>C	c.(829-831)AAG>ACG	p.K277T		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	277	Ig-like C2-type 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		ACCACTGAACTTCCTTAATTT	0.413													10	71					0	0	0.080935	0	0		G	74418456	G	G	74418456	3	3	28	1	0	0	0	0	1	0	0	0	3645	1609	56	5	2320	5	CNTN3	3	74418456	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	9798989	74418456	123603974	48	30944											
EPHA3	2042	broad.mit.edu	37	chr3	89176408	89176408	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggagctgggctggatctcTtatccatcacatggggtgag	7	10	16	8	0	2	1	1	1	1	0	4	3	3	3	1	6	1	2	1	6	1	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr3:89176408T>C	uc003dqy.2	+	2	363	c.138T>C	c.(136-138)TCT>TCC	p.S46S	EPHA3_uc003dqx.1_Silent_p.S46S|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	46	Extracellular (Potential).					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		GCTGGATCTCTTATCCATCAC	0.338										TSP Lung(6;0.00050)			11	128					0	0	0.080935	0	0		C	89176408	C	C	89176408	2	2	28	1	0	0	0	0	0	0	0	1	5176	1596	56	3		3	EPHA3	3	89176408	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	14757952	89176408	108846022	49	30945											
STXBP5L	9515	broad.mit.edu	37	chr3	120764302	120764302	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgccttggtcagtgcaagTtcagatgatacacttcattt	9	14	10	8	0	3	2	3	1	0	1	3	2	3	2	1	2	3	2	1	2	2	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr3:120764302T>G	uc003eec.3	+	5	530	c.390T>G	c.(388-390)AGT>AGG	p.S130R	STXBP5L_uc011bji.1_Missense_Mutation_p.S130R	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	130	WD 2.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		TCAGTGCAAGTTCAGATGATA	0.348													25	232					0	0	0.0918	0	0		G	120764302	G	G	120764302	3	3	28	1	0	0	0	0	1	0	0	0	15382	1722	60	5	404	5	STXBP5L	3	120764302	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	31587894	120764302	77258128	50	30946											
STXBP5L	9515	broad.mit.edu	37	chr3	120977937	120977937	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaggatatcaagcagaacTtgttattcaattggtgtggg	11	13	11	6	0	2	1	2	0	0	1	3	2	3	2	1	3	2	2	1	3	5	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr3:120977937T>G	uc003eec.3	+	18	2020	c.1880T>G	c.(1879-1881)CTT>CGT	p.L627R	STXBP5L_uc011bji.1_Missense_Mutation_p.L627R	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	627	WD 9.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		CAAGCAGAACTTGTTATTCAA	0.363													11	49					0	0	0.09319	0	0		G	120977937	G	G	120977937	3	3	28	1	0	0	0	0	1	0	0	0	15382	1609	56	5	1946	5	STXBP5L	3	120977937	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	213635	120977937	77044493	51	30947											
RASA2	5922	broad.mit.edu	37	chr3	141305575	141305575	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcttaacaagcagagagctCacctaccacaaacagccagg	15	5	8	13	0	1	1	1	0	0	1	1	2	1	1	3	1	7	3	3	1	4	2	rs138963413		TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr3:141305575C>T	uc003etz.1	+	19	1914	c.1914C>T	c.(1912-1914)CTC>CTT	p.L638L	RASA2_uc010huq.1_Silent_p.L638L|RASA2_uc003eua.1_Silent_p.L638L|RASA2_uc011bnc.1_Silent_p.L230L	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	638	PH.				intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6						GCAGAGAGCTCACCTACCACA	0.408													6	26					0	0	0.021553	0	0		T	141305575	T	T	141305575	2	4	28	1	0	0	0	0	0	0	0	1	13086	813	29	4		4	RASA2	3	141305575	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	20327638	141305575	56716855	52	30948											
DHX36	170506	broad.mit.edu	37	chr3	153995437	153995437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagccagttgtagtgaaagtCtgtttgctccacattaacag	12	12	9	8	0	1	1	0	1	1	0	2	1	2	1	2	0	3	4	2	0	4	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr3:153995437C>T	uc003ezy.3	-	23	2719	c.2638G>A	c.(2638-2640)GAC>AAC	p.D880N	DHX36_uc010hvq.2_Missense_Mutation_p.D866N|DHX36_uc003ezz.3_Missense_Mutation_p.D851N	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	880						cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TAGTGAAAGTCTGTTTGCTCC	0.333													9	55					0	0	0.058154	0	0		T	153995437	T	T	153995437	3	4	28	1	0	0	0	0	1	0	0	0	4515	913	32	4	400	4	DHX36	3	153995437	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	12689862	153995437	44026993	53	30949											
PPP2R2C	5522	broad.mit.edu	37	chr4	6335368	6335368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcccgggtgagcatgtagCggccgctgtggctgaacttc	6	9	15	11	3	0	2	0	2	0	0	2	2	1	2	2	3	3	4	2	3	2	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:6335368C>T	uc003gjc.2	-	7	1251	c.881G>A	c.(880-882)CGC>CAC	p.R294H	PPP2R2C_uc003gjb.2_Missense_Mutation_p.R277H|PPP2R2C_uc011bwd.1_Missense_Mutation_p.R287H|PPP2R2C_uc011bwe.1_Missense_Mutation_p.R287H|PPP2R2C_uc003gja.2_Missense_Mutation_p.R294H|PPP2R2C_uc003gjd.1_Missense_Mutation_p.R382H	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	294	WD 5.				signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						GAGCATGTAGCGGCCGCTGTG	0.567											OREG0016071	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	108					0	0	0.134883	0	0		T	6335368	T	T	6335368	3	4	28	1	0	0	0	0	1	0	0	0	12408	768	27	1	474	1	PPP2R2C	4	6335368	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08		6335368	184818908	54	30950											
SLC34A2	10568	broad.mit.edu	37	chr4	25677985	25677985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgtcggggttcccgtcGtcttcatcatcatcctggta	4	15	11	11	3	4	0	3	0	1	0	8	0	6	0	2	4	0	2	2	4	1	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:25677985G>A	uc003grr.2	+	13	1768	c.1687G>A	c.(1687-1689)GTC>ATC	p.V563I	SLC34A2_uc003grs.2_Missense_Mutation_p.V562I|SLC34A2_uc010iev.2_Missense_Mutation_p.V562I	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	563	Helical; Name=M8; (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				GGTTCCCGTCGTCTTCATCAT	0.602													6	112					0	0	0.021553	0	0		A	25677985	A	A	25677985	3	1	28	1	0	0	0	0	1	0	0	0	14593	1145	40	1	1733	1	SLC34A2	4	25677985	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	19342617	25677985	165476291	55	30951											
EPHA5	2044	broad.mit.edu	37	chr4	66356149	66356149	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgccgggctcctgggctcaAgtcggacactccattcactg	6	9	11	15	2	2	0	2	0	0	0	5	1	4	1	3	3	1	2	3	3	1	1	rs142589245		TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:66356149A>G	uc003hcy.2	-	5	1541	c.1348T>C	c.(1348-1350)TTG>CTG	p.L450L	EPHA5_uc003hcx.2_Silent_p.L381L|EPHA5_uc003hcz.2_Silent_p.L450L|EPHA5_uc011cah.1_Silent_p.L450L|EPHA5_uc011cai.1_Silent_p.L450L|EPHA5_uc003hda.2_Silent_p.L450L	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	450	Fibronectin type-III 1.|Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CCTGGGCTCAAGTCGGACACT	0.498										TSP Lung(17;0.13)			14	83					0	0	0.132662	0	0		G	66356149	G	G	66356149	2	3	28	1	0	0	0	0	0	0	0	1	5178	69	3	3		3	EPHA5	4	66356149	Silent	SNP	A	TCGA-BR-6453-01A-11D-1800-08	40678164	66356149	124798127	56	30952											
UNC5C	8633	broad.mit.edu	37	chr4	96140209	96140209	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgccttgctagactctggTtcttcaggctgagggcttca	5	14	11	11	0	5	2	2	1	3	1	5	2	5	2	1	3	2	4	1	3	1	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:96140209T>G	uc003htp.1	-	9	1710	c.1556A>C	c.(1555-1557)AAC>ACC	p.N519T	UNC5C_uc010ilc.1_Missense_Mutation_p.N538T|UNC5C_uc003htq.2_Missense_Mutation_p.N538T	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	519	Cytoplasmic (Potential).				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		TAGACTCTGGTTCTTCAGGCT	0.522													16	103					0	0	0.146539	0	0		G	96140209	G	G	96140209	3	3	28	1	0	0	0	0	1	0	0	0	17019	1725	60	5	1271	5	UNC5C	4	96140209	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	29784060	96140209	95014067	57	30953											
DDIT4L	115265	broad.mit.edu	37	chr4	101108874	101108874	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgttccaatcagtgagtaaAgttttttcttaacaagtcga	12	16	7	6	1	2	1	1	1	1	0	4	2	3	1	1	0	1	3	1	0	5	7			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:101108874A>G	uc003hvq.2	-	3	745	c.542T>C	c.(541-543)CTT>CCT	p.L181P		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	181					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		CAGTGAGTAAAGTTTTTTCTT	0.378													11	94					0	0	0.069234	0	0		G	101108874	G	G	101108874	3	3	28	1	0	0	0	0	1	0	0	0	4335	72	3	3	43	3	DDIT4L	4	101108874	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	4968665	101108874	90045402	58	30954											
SEC24B	10427	broad.mit.edu	37	chr4	110447513	110447513	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagtttaacagatacttccTtagtatgttttcaaacagcc	14	14	5	8	0	1	1	1	0	0	1	2	1	2	1	2	0	4	3	2	0	6	8			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:110447513T>G	uc003hzk.2	+	17	2978	c.2923T>G	c.(2923-2925)TTA>GTA	p.L975V	SEC24B_uc003hzl.2_Missense_Mutation_p.L940V|SEC24B_uc011cfp.1_Missense_Mutation_p.L1005V|SEC24B_uc011cfq.1_Missense_Mutation_p.L974V|SEC24B_uc011cfr.1_Missense_Mutation_p.L939V	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	975					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		AGATACTTCCTTAGTATGTTT	0.373													12	75					0	0	0.11911	0	0		G	110447513	G	G	110447513	3	3	28	1	0	0	0	0	1	0	0	0	14020	1606	56	5	2989	5	SEC24B	4	110447513	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	9338639	110447513	80706763	59	30955											
NDST4	64579	broad.mit.edu	37	chr4	115898357	115898357	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttacctgtgtggtaaaacTtccctgaaaatccaaggttg	11	13	8	9	0	1	1	0	1	1	0	3	1	3	1	3	2	2	2	3	2	6	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:115898357T>G	uc003ibu.2	-	3	1731	c.1052A>C	c.(1051-1053)AAG>ACG	p.K351T	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	351	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		GTGGTAAAACTTCCCTGAAAA	0.338													15	107					0	0	0.038395	0	0		G	115898357	G	G	115898357	3	3	28	1	0	0	0	0	1	0	0	0	10277	1609	56	5	1614	5	NDST4	4	115898357	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	5450844	115898357	75255919	60	30956											
FAT4	79633	broad.mit.edu	37	chr4	126237573	126237573	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggagccaggaccatggacTtagcaccagacagggctact	12	5	13	11	0	0	1	0	0	0	1	0	4	0	4	3	4	3	2	3	4	2	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:126237573T>G	uc003ifj.3	+	1	7	c.7T>G	c.(7-9)TTA>GTA	p.L3V		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GACCATGGACTTAGCACCAGA	0.512											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	197					0	0	0.045705	0	0		G	126237573	G	G	126237573	3	3	28	1	0	0	0	0	1	0	0	0	5706	1606	56	5	9	5	FAT4	4	126237573	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	10339216	126237573	64916703	61	30957											
FAT4	79633	broad.mit.edu	37	chr4	126370493	126370493	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataatgcccctaggttttcTcagatatttagtgcccatgt	9	15	8	9	0	1	1	1	0	1	1	2	2	1	1	3	1	2	1	3	1	4	7			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:126370493T>C	uc003ifj.3	+	9	8322	c.8322T>C	c.(8320-8322)TCT>TCC	p.S2774S	FAT4_uc011cgp.1_Silent_p.S1072S|FAT4_uc003ifi.1_Silent_p.S252S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2774	Cadherin 27.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTAGGTTTTCTCAGATATTTA	0.383													14	140					0	0	0.11911	0	0		C	126370493	C	C	126370493	2	2	28	1	0	0	0	0	0	0	0	1	5706	1538	54	3		3	FAT4	4	126370493	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	132920	126370493	64783783	62	30958											
TDO2	6999	broad.mit.edu	37	chr4	156838589	156838589	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttttcagttgctgacttcTcttatggacatagattcact	8	17	6	10	0	3	2	2	1	1	1	4	3	3	3	1	1	1	2	1	1	2	7			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:156838589T>C	uc003ipf.1	+	10	1003	c.939T>C	c.(937-939)TCT>TCC	p.S313S		NM_005651	NP_005642	P48775	T23O_HUMAN	tryptophan 2,3-dioxygenase	313					tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)	TGCTGACTTCTCTTATGGACA	0.393													9	78					0	0	0.09319	0	0		C	156838589	C	C	156838589	2	2	28	1	0	0	0	0	0	0	0	1	15752	1538	54	3		3	TDO2	4	156838589	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	30468096	156838589	34315687	63	30959											
FSTL5	56884	broad.mit.edu	37	chr4	162508614	162508614	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcacttcttaccattcacTtggaagatgtgagtctgata	12	14	7	8	0	4	3	2	2	2	1	4	4	4	4	1	1	1	0	1	1	4	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:162508614T>C	uc003iqh.2	-	8	1444	c.1008A>G	c.(1006-1008)CAA>CAG	p.Q336Q	FSTL5_uc003iqi.2_Silent_p.Q335Q|FSTL5_uc010iqv.2_Silent_p.Q335Q	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	336	Ig-like 1.					extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TACCATTCACTTGGAAGATGT	0.373													13	98					0	0	0.09319	0	0		C	162508614	C	C	162508614	2	2	28	1	0	0	0	0	0	0	0	1	6094	1606	56	3		3	FSTL5	4	162508614	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	5670025	162508614	28645662	64	30960											
SPOCK3	50859	broad.mit.edu	37	chr4	167833778	167833778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taggtgtctttacctgaaaaGagtaggtatgaccatctgaa	13	12	10	6	0	2	4	0	3	2	1	2	4	2	4	2	2	1	2	2	2	7	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:167833778G>A	uc003iri.1	-	6	617	c.476C>T	c.(475-477)TCT>TTT	p.S159F	SPOCK3_uc011cjp.1_Missense_Mutation_p.S156F|SPOCK3_uc011cjq.1_Missense_Mutation_p.S168F|SPOCK3_uc011cjr.1_Missense_Mutation_p.S39F|SPOCK3_uc003irj.1_Missense_Mutation_p.S156F|SPOCK3_uc011cjs.1_Missense_Mutation_p.S108F|SPOCK3_uc011cjt.1_Missense_Mutation_p.S67F|SPOCK3_uc011cju.1_Missense_Mutation_p.S52F|SPOCK3_uc011cjv.1_Intron|SPOCK3_uc003irk.3_Missense_Mutation_p.S156F|SPOCK3_uc011cjw.1_Intron	NM_016950	NP_058646	Q9BQ16	TICN3_HUMAN	testican 3 isoform 2	159	Kazal-like.				signal transduction	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase inhibitor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)		TACCTGAAAAGAGTAGGTATG	0.413													6	49					0	0	0.038147	0	0		A	167833778	A	A	167833778	3	1	28	1	0	0	0	0	1	0	0	0	15106	942	33	4	862	4	SPOCK3	4	167833778	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	5325164	167833778	23320498	65	30961											
TRIML1	339976	broad.mit.edu	37	chr4	189060646	189060646	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttactcaaaactgtaggaCggcagtgagggctttgctaa	11	11	12	7	1	1	1	1	1	0	0	1	2	1	2	0	3	3	5	0	3	5	4	rs146418787	by1000genomes	TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr4:189060646C>T	uc003izm.1	+	1	49	c.-66C>T	c.(-68--64)GACGG>GATGG			NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1						multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		AACTGTAGGACGGCAGTGAGG	0.483													9	32					0	0	0.047766	0	0		T	189060646	T	T	189060646	1	4	28	1	0	0	0	0	0	0	0	0	16576	551	19	1		1	TRIML1	4	189060646	Translation_Start_Site	SNP	C	TCGA-BR-6453-01A-11D-1800-08	21226868	189060646	2093630	66	30962											
CDH18	1016	broad.mit.edu	37	chr5	19473497	19473497	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgaccctcataggcataAgtctgaagagagtcataagg	13	9	10	9	0	4	3	2	2	2	1	4	4	4	3	1	2	0	1	1	2	4	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:19473497A>G	uc003jgc.2	-	12	2588	c.2211T>C	c.(2209-2211)ACT>ACC	p.T737T	CDH18_uc003jgd.2_Silent_p.T737T|CDH18_uc011cnm.1_3'UTR	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	737	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CATAGGCATAAGTCTGAAGAG	0.483													15	85					0	0	0.132662	0	0		G	19473497	G	G	19473497	2	3	28	1	0	0	0	0	0	0	0	1	3106	59	3	3		3	CDH18	5	19473497	Silent	SNP	A	TCGA-BR-6453-01A-11D-1800-08		19473497	161441763	67	30963											
CDH12	1010	broad.mit.edu	37	chr5	21755750	21755750	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatcaacgccccagtgctaAgtcctacaggtagaaaaatt	15	8	7	11	1	1	1	1	0	0	1	2	1	2	1	3	1	3	2	3	1	7	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:21755750A>G	uc010iuc.2	-	11	2293	c.1835T>C	c.(1834-1836)CTT>CCT	p.L612P	CDH12_uc011cno.1_Missense_Mutation_p.L572P|CDH12_uc003jgk.2_Missense_Mutation_p.L612P|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	612	Helical; (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CCCAGTGCTAAGTCCTACAGG	0.348										HNSCC(59;0.17)			8	76					0	0	0.038147	0	0		G	21755750	G	G	21755750	3	3	28	1	0	0	0	0	1	0	0	0	3101	72	3	3	557	3	CDH12	5	21755750	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	2282253	21755750	159159510	68	30964											
SPEF2	79925	broad.mit.edu	37	chr5	35763665	35763665	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccatttctctggaaacagTtacacccaaaccaaaaacaa	18	8	3	12	0	1	0	0	0	1	0	3	1	2	1	3	1	4	1	3	1	6	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:35763665T>G	uc003jjo.2	+	26	3773	c.3662T>G	c.(3661-3663)GTT>GGT	p.V1221G	SPEF2_uc003jjp.1_Missense_Mutation_p.V707G	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1221					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTGGAAACAGTTACACCCAAA	0.358													5	76					0	0	0.021553	0	0		G	35763665	G	G	35763665	3	3	28	1	0	0	0	0	1	0	0	0	15060	1725	60	5	3785	5	SPEF2	5	35763665	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	14007915	35763665	145151595	69	30965											
EGFLAM	133584	broad.mit.edu	37	chr5	38425137	38425137	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacctgcacagcaatcaaaGccgactcctacatttgcctc	11	8	6	16	1	1	0	1	0	0	0	3	1	2	0	4	0	5	3	4	0	3	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:38425137G>T	uc003jlc.1	+	13	2077	c.1753G>T	c.(1753-1755)GCC>TCC	p.A585S	EGFLAM_uc003jlb.1_Missense_Mutation_p.A585S|EGFLAM_uc003jle.1_Missense_Mutation_p.A351S|EGFLAM_uc003jlf.1_5'UTR	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	585	EGF-like 2.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					AGCAATCAAAGCCGACTCCTA	0.478													19	138					8.00594e-06	8.37262e-06	0.043863	1	0		T	38425137	T	T	38425137	3	4	28	1	0	0	0	0	1	0	0	0	4972	971	34	5	1817	5	EGFLAM	5	38425137	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	2661472	38425137	142490123	70	30966											
GHR	2690	broad.mit.edu	37	chr5	42689103	42689103	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaacctaggacccatacAgctgttctataccagaaggt	15	8	8	10	0	1	2	0	0	1	2	1	3	1	3	3	2	4	2	3	2	7	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:42689103A>G	uc003jmt.2	+	4	291	c.248A>G	c.(247-249)CAG>CGG	p.Q83R	GHR_uc011cpq.1_Intron	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	83	Extracellular (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	GGACCCATACAGCTGTTCTAT	0.463													20	121					0	0	0.062417	0	0		G	42689103	G	G	42689103	3	3	28	1	0	0	0	0	1	0	0	0	6386	188	7	3	258	3	GHR	5	42689103	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	4263966	42689103	138226157	71	30967											
MARVELD2	153562	broad.mit.edu	37	chr5	68715518	68715518	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccccgaatgggataagccGgtgtctgatatcaggtacat	11	9	12	9	2	2	1	1	1	1	0	2	4	2	2	3	3	2	1	3	3	4	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:68715518G>A	uc003jwq.2	+	2	365	c.306G>A	c.(304-306)CCG>CCA	p.P102P	MARVELD2_uc010ixf.2_Silent_p.P102P|MARVELD2_uc003jwr.1_Silent_p.P102P|MARVELD2_uc003jws.1_RNA	NM_001038603	NP_001033692	Q8N4S9	MALD2_HUMAN	MARVEL domain containing 2 isoform 1	102	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane|tight junction					0		Lung NSC(167;0.000937)|Prostate(74;0.0187)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;7.31e-57)|Epithelial(20;1.05e-52)|all cancers(19;2.63e-48)|Lung(70;0.0183)		GGGATAAGCCGGTGTCTGATA	0.522													5	74					0	0	0.014758	0	0		A	68715518	A	A	68715518	2	1	28	1	0	0	0	0	0	0	0	1	9336	1103	39	1		1	MARVELD2	5	68715518	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	26026415	68715518	112199742	72	30968											
KCNN2	3781	broad.mit.edu	37	chr5	113740388	113740388	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgcttttacatagcaaacTtttcactgatgcctcctcta	10	15	4	12	0	2	1	1	1	1	0	3	1	3	1	2	0	5	2	2	0	4	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:113740388T>G	uc003kqo.2	+	3	1293	c.836T>G	c.(835-837)CTT>CGT	p.L279R		NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	279						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		CATAGCAAACTTTTCACTGAT	0.378													16	97					0	0	0.146539	0	0		G	113740388	G	G	113740388	3	3	28	1	0	0	0	0	1	0	0	0	8095	1609	56	5	846	5	KCNN2	5	113740388	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	45024870	113740388	67174872	73	30969											
PRR16	51334	broad.mit.edu	37	chr5	120022263	120022263	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctacaccccatctcccTcctttcccactagaaaatgg	9	10	3	19	0	1	1	0	0	1	1	5	1	4	1	7	1	1	0	7	1	4	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:120022263T>A	uc003ksq.2	+	2	937	c.774T>A	c.(772-774)CCT>CCA	p.P258P	PRR16_uc003ksp.2_Silent_p.P235P|PRR16_uc003ksr.2_Silent_p.P188P	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16	258	Pro-rich.									pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		CCCATCTCCCTCCTTTCCCAC	0.542													7	57					0	0	0.02938	0	0		A	120022263	A	A	120022263	2	1	28	1	0	0	0	0	0	0	0	1	12611	1538	54	5		5	PRR16	5	120022263	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	6281875	120022263	60892997	74	30970											
PDLIM4	8572	broad.mit.edu	37	chr5	131606705	131606705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatatggacaaccccctcGctttccagtccctcacaatg	9	10	5	17	1	1	0	1	0	0	0	5	1	4	1	5	1	1	1	5	1	3	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:131606705G>A	uc003kwn.2	+	4	502	c.425G>A	c.(424-426)CGC>CAC	p.R142H	uc003kwm.3_Intron|PDLIM4_uc003kwp.2_Missense_Mutation_p.R142H|PDLIM4_uc003kwo.2_Missense_Mutation_p.R142H	NM_003687	NP_003678	P50479	PDLI4_HUMAN	PDZ and LIM domain 4 isoform 1	142							protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CAACCCCCTCGCTTTCCAGTC	0.632													15	134					0	0	0.146539	0	0		A	131606705	A	A	131606705	3	1	28	1	0	0	0	0	1	0	0	0	11701	1087	38	1	439	1	PDLIM4	5	131606705	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	11584442	131606705	49308555	75	30971											
KDM3B	51780	broad.mit.edu	37	chr5	137717277	137717277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataattcagcgcctcaaagcGaggtacagtaatggactgca	14	8	10	9	2	2	0	2	0	0	0	2	2	2	1	1	2	4	3	1	2	4	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:137717277G>A	uc003lcy.1	+	6	978	c.778G>A	c.(778-780)GAG>AAG	p.E260K	KDM3B_uc010jew.1_5'UTR	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	260					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						GCCTCAAAGCGAGGTACAGTA	0.433													6	42					0	0	0.021553	0	0		A	137717277	A	A	137717277	3	1	28	1	0	0	0	0	1	0	0	0	8143	1059	37	1	800	1	KDM3B	5	137717277	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	6110572	137717277	43197983	76	30972											
PCDHB6	56130	broad.mit.edu	37	chr5	140532003	140532003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggcggcctcggtgggtcGctactcggtgcccgagggtc	3	7	18	13	5	0	0	0	0	0	0	4	1	0	0	2	6	2	1	2	6	1	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:140532003G>A	uc003lir.2	+	1	2165	c.2165G>A	c.(2164-2166)CGC>CAC	p.R722H	PCDHB6_uc011dah.1_Missense_Mutation_p.R586H	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	722	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGGTGGGTCGCTACTCGGTG	0.652													19	174					0	0	0.055883	0	0		A	140532003	A	A	140532003	3	1	28	1	0	0	0	0	1	0	0	0	11565	1087	38	1	2167	1	PCDHB6	5	140532003	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	2814726	140532003	40383257	77	30973											
PCDHGA8	9708	broad.mit.edu	37	chr5	140772818	140772818	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaaaaattaacgaaatcgcGgttcctggagcacgttatcc	13	10	9	9	4	0	0	0	0	0	0	3	2	2	1	2	2	2	4	2	2	6	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:140772818G>A	uc003lkd.1	+	1	1336	c.438G>A	c.(436-438)GCG>GCA	p.A146A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Silent_p.A146A	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	146	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGAAATCGCGGTTCCTGGAG	0.453													9	75					0	0	0.069234	0	0		A	140772818	A	A	140772818	2	1	28	1	0	0	0	0	0	0	0	1	11579	1103	39	1		1	PCDHGA8	5	140772818	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	240815	140772818	40142442	78	30974											
GABRA6	2559	broad.mit.edu	37	chr5	161113274	161113274	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaactcgaagttgaaggcaActtctactcagaaaacgtca	16	8	8	9	2	3	2	2	1	1	1	4	4	3	2	0	1	4	2	0	1	7	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:161113274A>C	uc003lyu.2	+	2	415	c.77A>C	c.(76-78)AAC>ACC	p.N26T		NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	26	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GTTGAAGGCAACTTCTACTCA	0.478										TCGA Ovarian(5;0.080)			10	106					0	0	0.080935	0	0		C	161113274	C	C	161113274	3	2	28	1	0	0	0	0	1	0	0	0	6179	43	2	5	83	5	GABRA6	5	161113274	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	20340456	161113274	19801986	79	30975											
FAM153B	202134	broad.mit.edu	37	chr5	175526047	175526047	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacacaggcatccaaaccaaCggtacgtattctgggatcac	13	7	9	12	2	2	0	1	0	1	0	3	2	3	1	2	3	3	3	2	3	4	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:175526047C>T	uc003mdk.2	+	10	618	c.561C>T	c.(559-561)AAC>AAT	p.N187N		NM_001079529	NP_001072997	P0C7A2	F153B_HUMAN	hypothetical protein LOC202134	187										ovary(1)	1	all_cancers(89;0.00406)|Renal(175;0.000269)|Lung NSC(126;0.0103)|all_lung(126;0.0164)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Kidney(146;0.0965)		TCCAAACCAACGGTACGTATT	0.448													9	106					0	0	0.047766	0	0		T	175526047	T	T	175526047	2	4	28	1	0	0	0	0	0	0	0	1	5472	550	19	1		1	FAM153B	5	175526047	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	14412773	175526047	5389213	80	30976											
GRM6	2916	broad.mit.edu	37	chr5	178416042	178416042	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagcgcctggtgcatgctGtggagggcgtgggcaatggc	6	7	19	9	2	0	1	0	0	0	1	0	2	0	2	1	5	3	3	1	5	1	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr5:178416042G>A	uc003mjr.2	-	6	1427	c.1248C>T	c.(1246-1248)CAC>CAT	p.H416H	GRM6_uc010jla.1_Intron|GRM6_uc003mjs.1_Silent_p.H36H	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	416	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		GGTGCATGCTGTGGAGGGCGT	0.637													5	25					0	0	0.02938	0	0		A	178416042	A	A	178416042	2	1	28	1	0	0	0	0	0	0	0	1	6817	1368	48	4		4	GRM6	5	178416042	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	2889995	178416042	2499218	81	30977											
ZNF311	282890	broad.mit.edu	37	chr6	28963238	28963238	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggattctctgatggatggtaAggcagtgcttatcttggaag	9	13	14	5	0	2	1	0	1	2	0	3	4	2	4	0	5	1	3	0	5	3	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr6:28963238A>T	uc003nlu.2	-	7	2054	c.1541T>A	c.(1540-1542)CTT>CAT	p.L514H	ZNF311_uc011dlk.1_Missense_Mutation_p.L422H|ZNF311_uc003nlv.2_Missense_Mutation_p.L422H	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	514	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						ATGGATGGTAAGGCAGTGCTT	0.463													20	44					0	0	0.043863	0	0		T	28963238	T	T	28963238	3	4	28	1	0	0	0	0	1	0	0	0	17859	72	3	5	463	5	ZNF311	6	28963238	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08		28963238	142151829	82	30978											
OR12D2	26529	broad.mit.edu	37	chr6	29364723	29364723	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccaaaaatgctgcagaacTttctctctacacacaaagca	15	9	5	12	0	2	1	0	0	2	1	3	1	2	1	1	0	6	3	1	0	5	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr6:29364723T>G	uc003nmf.3	+	1	308	c.247T>G	c.(247-249)TTT>GTT	p.F83V		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	83	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GCTGCAGAACTTTCTCTCTAC	0.468													24	68					0	0	0.083992	0	0		G	29364723	G	G	29364723	3	3	28	1	0	0	0	0	1	0	0	0	10950	1609	56	5	249	5	OR12D2	6	29364723	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	401485	29364723	141750344	83	30979											
C6orf134	79969	broad.mit.edu	37	chr6	30596123	30596123	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaaggagcgagtggaaccGcaccaactggcaattgaccg	13	4	13	11	3	0	2	0	1	0	1	0	5	0	4	3	3	3	2	3	3	4	1	rs139657037		TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr6:30596123G>A	uc003nqu.2	+	6	503	c.453G>A	c.(451-453)CCG>CCA	p.P151P	C6orf134_uc003nqr.3_Silent_p.P151P|C6orf134_uc003rdc.2_Silent_p.P151P|C6orf134_uc003nqs.3_Silent_p.P151P|C6orf134_uc003rdd.2_Silent_p.P151P|C6orf134_uc003nqt.2_RNA|C6orf134_uc011dmm.1_Silent_p.P139P|C6orf134_uc003nqv.2_Silent_p.P139P	NM_024909	NP_079185	Q5SQI0	ATAT_HUMAN	hypothetical protein LOC79969 isoform 2	151							tubulin N-acetyltransferase activity				0						GAGTGGAACCGCACCAACTGG	0.522													11	48					0	0	0.080935	0	0		A	30596123	A	A	30596123	2	1	28	1	0	0	0	0	0	0	0	1	2333	1074	38	1		1	C6orf134	6	30596123	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	1231400	30596123	140518944	84	30980											
HLA-DOA	3111	broad.mit.edu	37	chr6	32975992	32975992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgaactggcccgaggcGccgtaagactggtagaaggc	9	6	17	9	3	0	3	0	1	0	2	0	4	0	3	2	5	1	2	2	5	4	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr6:32975992G>A	uc003ocr.2	-	2	205	c.129C>T	c.(127-129)GGC>GGT	p.G43G	HLA-DOA_uc010juj.2_Silent_p.G13G|HLA-DOA_uc010jui.2_Silent_p.G43G	NM_002119	NP_002110	P06340	DOA_HUMAN	major histocompatibility complex, class II, DO	43	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endosome membrane|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0						GGCCCGAGGCGCCGTAAGACT	0.537													13	38					0	0	0.105934	0	0		A	32975992	A	A	32975992	2	1	28	1	0	0	0	0	0	0	0	1	7216	1074	38	1		1	HLA-DOA	6	32975992	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	2379869	32975992	138139075	85	30981											
DNAH8	1769	broad.mit.edu	37	chr6	38919111	38919111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggtcttggtgcccagaccGtactgtttttcaagcaagaa	10	12	10	9	1	2	2	1	0	1	2	2	2	2	2	2	2	3	3	2	2	5	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr6:38919111G>A	uc003ooe.1	+	80	12215	c.11615G>A	c.(11614-11616)CGT>CAT	p.R3872H	DNAH8_uc003oog.1_Missense_Mutation_p.R321H|uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TGCCCAGACCGTACTGTTTTT	0.338													6	173					0	0	0.021553	0	0		A	38919111	A	A	38919111	3	1	28	1	0	0	0	0	1	0	0	0	4613	1145	40	1	11925	1	DNAH8	6	38919111	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	5943119	38919111	132195956	86	30982											
MEP1A	4224	broad.mit.edu	37	chr6	46777187	46777187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taaaggagccattctgtatgCctttgagatgttccgtctca	9	14	9	9	1	2	1	1	1	2	1	4	3	3	2	3	1	2	2	3	1	3	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr6:46777187C>T	uc010jzh.1	+	6	335	c.293C>T	c.(292-294)GCC>GTC	p.A98V	MEP1A_uc011dwg.1_5'UTR|MEP1A_uc011dwh.1_Missense_Mutation_p.A126V|MEP1A_uc011dwi.1_5'UTR	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	98	Extracellular (Potential).|Metalloprotease.				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			ATTCTGTATGCCTTTGAGATG	0.363													29	95					0	0	0.116897	0	0		T	46777187	T	T	46777187	3	4	28	1	0	0	0	0	1	0	0	0	9493	739	26	2	315	2	MEP1A	6	46777187	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	7858076	46777187	124337880	87	30983											
KHDRBS2	202559	broad.mit.edu	37	chr6	62757869	62757869	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcttcaaggagtttcctcTtggtccaagcaatttcccca	8	13	6	14	0	3	0	1	0	2	0	6	1	6	1	5	2	1	2	5	2	3	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr6:62757869T>C	uc003peg.2	-	3	497	c.250A>G	c.(250-252)AGA>GGA	p.R84G		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	84	KH.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		GAGTTTCCTCTTGGTCCAAGC	0.368													24	94					0	0	0.076483	0	0		C	62757869	C	C	62757869	3	2	28	1	0	0	0	0	1	0	0	0	8163	1617	56	3	827	3	KHDRBS2	6	62757869	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	15980682	62757869	108357198	88	30984											
COL12A1	1303	broad.mit.edu	37	chr6	75838046	75838046	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttagatggccaccatcTccatcttcataaacagcaat	12	11	5	13	0	3	1	1	0	2	1	4	1	3	1	4	1	2	2	4	1	4	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr6:75838046T>C	uc003phs.2	-	38	6472	c.6306A>G	c.(6304-6306)GGA>GGG	p.G2102G	COL12A1_uc003pht.2_Silent_p.G938G	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2102	Fibronectin type-III 16.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GGCCACCATCTCCATCTTCAT	0.378													27	123					0	0	0.108266	0	0		C	75838046	C	C	75838046	2	2	28	1	0	0	0	0	0	0	0	1	3672	1538	54	3		3	COL12A1	6	75838046	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	13080177	75838046	95277021	89	30985											
GRIK2	2898	broad.mit.edu	37	chr6	102069857	102069857	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgtggaatctggcccaaTgggagctgaggaacttgcat	11	10	13	7	0	1	1	0	1	1	0	1	4	1	4	1	4	3	2	1	4	4	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr6:102069857T>G	uc003pqp.3	+	2	398	c.149T>G	c.(148-150)ATG>AGG	p.M50R	GRIK2_uc003pqn.2_Missense_Mutation_p.M50R|GRIK2_uc003pqo.3_Missense_Mutation_p.M50R|GRIK2_uc010kcw.2_Missense_Mutation_p.M50R	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	50	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	TCTGGCCCAATGGGAGCTGAG	0.343													15	51					0	0	0.132662	0	0		G	102069857	G	G	102069857	3	3	28	1	0	0	0	0	1	0	0	0	6790	1464	51	5	155	5	GRIK2	6	102069857	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	26231811	102069857	69045210	90	30986											
DNAH11	8701	broad.mit.edu	37	chr7	21826307	21826307	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaccaatgttactgcagcCgtgatggtccttctggctcc	6	13	10	12	1	1	1	0	1	1	0	3	1	3	1	4	2	4	4	4	2	3	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr7:21826307C>A	uc003svc.2	+	60	9715	c.9684C>A	c.(9682-9684)GCC>GCA	p.A3228A		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3228	Stalk (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TTACTGCAGCCGTGATGGTCC	0.517									Kartagener_syndrome				25	133					5.35047e-06	5.61697e-06	0.083992	1	0		A	21826307	A	A	21826307	2	1	28	1	0	0	0	0	0	0	0	1	4605	639	23	5		5	DNAH11	7	21826307	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08		21826307	137312356	91	30987											
ANLN	54443	broad.mit.edu	37	chr7	36492149	36492149	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaaaaactcaatcaagtTcttgttgatattcgcctctg	12	14	6	9	1	4	1	2	1	2	0	5	1	4	1	1	0	2	3	1	0	5	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr7:36492149T>C	uc003tff.2	+	24	3519	c.3315T>C	c.(3313-3315)GTT>GTC	p.V1105V	ANLN_uc011kaz.1_Silent_p.V1017V|ANLN_uc003tfg.2_Silent_p.V1068V|ANLN_uc010kxe.2_Silent_p.V1067V	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	1105	PH.|Localization to the cleavage furrow.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						TCAATCAAGTTCTTGTTGATA	0.423													50	334					0	0	0.139131	0	0		C	36492149	C	C	36492149	2	2	28	1	0	0	0	0	0	0	0	1	694	1770	62	3		3	ANLN	7	36492149	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	14665842	36492149	122646514	92	30988											
ELMO1	9844	broad.mit.edu	37	chr7	37354471	37354471	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccttttctgtgatatagaAgtttgaactatcggcatgct	10	16	8	7	1	1	3	0	2	1	1	2	3	1	3	1	1	3	3	1	1	6	7			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr7:37354471A>C	uc003tfk.1	-	4	482	c.175T>G	c.(175-177)TTC>GTC	p.F59V	ELMO1_uc010kxg.1_Missense_Mutation_p.F59V	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	59					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						GTGATATAGAAGTTTGAACTA	0.358													7	50					0	0	0.047766	0	0		C	37354471	C	C	37354471	3	2	28	1	0	0	0	0	1	0	0	0	5073	72	3	5	2084	5	ELMO1	7	37354471	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	862322	37354471	121784192	93	30989											
TXNDC3	51314	broad.mit.edu	37	chr7	37924817	37924817	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaacaattactgggaccaAgaactgttgaagaagccatt	16	8	10	7	0	0	3	0	1	0	2	0	5	0	5	2	2	4	1	2	2	7	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr7:37924817A>C	uc003tfn.2	+	14	1582	c.1210A>C	c.(1210-1212)AGA>CGA	p.R404R		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	404	NDK 2.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						ACTGGGACCAAGAACTGTTGA	0.383									Kartagener_syndrome				3	24					0	0	0.115264	0	0		C	37924817	C	C	37924817	2	2	28	1	0	0	0	0	0	0	0	1	16824	64	3	5		5	TXNDC3	7	37924817	Silent	SNP	A	TCGA-BR-6453-01A-11D-1800-08	570346	37924817	121213846	94	30990											
ZNF716	441234	broad.mit.edu	37	chr7	57529279	57529279	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaactctaaatactcataAgaggattcatactggagaga	16	10	7	8	0	4	2	3	0	1	2	4	5	4	4	0	2	3	0	0	2	6	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr7:57529279A>C	uc011kdi.1	+	4	1224	c.1112A>C	c.(1111-1113)AAG>ACG	p.K371T		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						AATACTCATAAGAGGATTCAT	0.408													3	19					0	0	0.115264	0	0		C	57529279	C	C	57529279	3	2	28	1	0	0	0	0	1	0	0	0	18144	72	3	5	1126	5	ZNF716	7	57529279	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	19604462	57529279	101609384	95	30991											
WBSCR17	64409	broad.mit.edu	37	chr7	70885974	70885974	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacaacatcaaacaggacaActttgaggtgcagcggtacg	14	7	11	9	2	1	2	1	2	0	0	1	3	1	3	0	3	6	2	0	3	4	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr7:70885974A>C	uc003tvy.2	+	5	845	c.845A>C	c.(844-846)AAC>ACC	p.N282T	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	282	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				AAACAGGACAACTTTGAGGTG	0.557													26	154					0	0	0.108266	0	0		C	70885974	C	C	70885974	3	2	28	1	0	0	0	0	1	0	0	0	17290	43	2	5	863	5	WBSCR17	7	70885974	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	13356695	70885974	88252689	96	30992											
CHRM2	1129	broad.mit.edu	37	chr7	136700432	136700432	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatcctgtgactgaaaacTgtgttcagggagaggagaag	12	8	16	5	0	1	4	1	2	0	2	2	7	2	5	1	3	1	1	1	3	3	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr7:136700432T>A	uc003vtf.1	+	4	1443	c.820T>A	c.(820-822)TGT>AGT	p.C274S	CHRM2_uc003vtg.1_Missense_Mutation_p.C274S|CHRM2_uc003vtj.1_Missense_Mutation_p.C274S|CHRM2_uc003vtk.1_Missense_Mutation_p.C274S|CHRM2_uc003vtl.1_Missense_Mutation_p.C274S|CHRM2_uc003vtm.1_Missense_Mutation_p.C274S|CHRM2_uc003vti.1_Missense_Mutation_p.C274S|CHRM2_uc003vto.1_Missense_Mutation_p.C274S|CHRM2_uc003vtn.1_Missense_Mutation_p.C274S|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	274	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	GACTGAAAACTGTGTTCAGGG	0.483													6	57					0	0	0.021553	0	0		A	136700432	A	A	136700432	3	1	28	1	0	0	0	0	1	0	0	0	3380	1580	55	5	822	5	CHRM2	7	136700432	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	65814458	136700432	22438231	97	30993											
TMEM176B	28959	broad.mit.edu	37	chr7	150493578	150493578	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagctgactcctggtggAtgtggacgttgacgtgggtg	7	11	16	7	2	1	2	1	2	0	0	2	4	2	4	1	4	1	2	1	4	1	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr7:150493578A>G	uc003wht.3	-	2	246	c.80T>C	c.(79-81)ATC>ACC	p.I27T	TMEM176B_uc003whu.3_Missense_Mutation_p.I27T|TMEM176B_uc003whv.3_Missense_Mutation_p.I27T|TMEM176B_uc003whw.3_Missense_Mutation_p.I27T	NM_001101313	NP_001094783	Q3YBM2	T176B_HUMAN	transmembrane protein 176B isoform a	27					cell differentiation|organ morphogenesis	integral to membrane|nuclear membrane				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTCCTGGTGGATGTGGACGTT	0.537													4	67					0	0	0.014758	0	0		G	150493578	G	G	150493578	3	3	28	1	0	0	0	0	1	0	0	0	16118	333	12	3	756	3	TMEM176B	7	150493578	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	13793146	150493578	8645085	98	30994											
DLGAP2	9228	broad.mit.edu	37	chr8	1626407	1626407	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgttttaaacgttctaacagCgtcacggccgccgtccaagc	9	9	9	14	6	2	0	1	0	1	0	3	0	3	0	3	1	4	2	3	1	4	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:1626407C>T	uc003wpl.2	+	9	2173	c.2076C>T	c.(2074-2076)AGC>AGT	p.S692S	DLGAP2_uc003wpm.2_Silent_p.S678S	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	771					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		GTTCTAACAGCGTCACGGCCG	0.562													5	79					0	0	0.021553	0	0		T	1626407	T	T	1626407	2	4	28	1	0	0	0	0	0	0	0	1	4566	767	27	1		1	DLGAP2	8	1626407	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08		1626407	144737615	99	30995											
CSMD1	64478	broad.mit.edu	37	chr8	2949052	2949052	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttacctgcatagcgaatcTtgaatcctttcttactggtg	9	15	7	10	1	2	1	0	1	2	0	3	2	3	1	2	1	4	1	2	1	5	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:2949052T>G	uc011kwk.1	-	48	7664	c.7274A>C	c.(7273-7275)AAG>ACG	p.K2425T	CSMD1_uc011kwj.1_Missense_Mutation_p.K1754T|CSMD1_uc010lrg.2_Missense_Mutation_p.K493T	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2425	CUB 14.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ATAGCGAATCTTGAATCCTTT	0.313													6	64					0	0	0.021553	0	0		G	2949052	G	G	2949052	3	3	28	1	0	0	0	0	1	0	0	0	3947	1609	56	5	3515	5	CSMD1	8	2949052	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	1322645	2949052	143414970	100	30996											
SOX7	83595	broad.mit.edu	37	chr8	10583717	10583717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctggcaggtgggggatgCggcggggatggccatgctcc	4	6	20	11	2	0	0	0	0	0	0	1	2	1	2	3	8	2	2	3	8	0	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:10583717C>T	uc003wtf.2	-	2	777	c.698G>A	c.(697-699)CGC>CAC	p.R233H	SOX7_uc011kwz.1_Missense_Mutation_p.R285H	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	233					endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		GTGGGGGATGCGGCGGGGATG	0.692													8	48					0	0	0.09319	0	0		T	10583717	T	T	10583717	3	4	28	1	0	0	0	0	1	0	0	0	14981	768	27	1	472	1	SOX7	8	10583717	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	7634665	10583717	135780305	101	30997											
MSR1	4481	broad.mit.edu	37	chr8	16026107	16026107	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatgtccctggactgaggAaaacaaggtacttagctgca	12	8	10	11	0	0	1	0	1	0	0	1	3	1	3	2	3	4	3	2	3	5	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:16026107A>G	uc003wwz.2	-	4	688	c.490T>C	c.(490-492)TCC>CCC	p.S164P	MSR1_uc010lsu.2_Missense_Mutation_p.S182P|MSR1_uc003wxa.2_Missense_Mutation_p.S164P|MSR1_uc003wxb.2_Missense_Mutation_p.S164P|MSR1_uc011kxz.1_Intron	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	164	Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		TGGACTGAGGAAAACAAGGTA	0.388													11	134					0	0	0.080935	0	0		G	16026107	G	G	16026107	3	3	28	1	0	0	0	0	1	0	0	0	9904	246	9	3	941	3	MSR1	8	16026107	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	5442390	16026107	130337915	102	30998											
FGFR1	2260	broad.mit.edu	37	chr8	38279423	38279423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacatttcttaagtgaagcaCctccatctctttgtcggtgg	8	14	9	10	1	2	1	0	1	2	0	5	2	3	1	2	2	1	1	2	2	2	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:38279423C>T	uc003xlp.2	-	8	1915	c.973G>A	c.(973-975)GTG>ATG	p.V325M	FGFR1_uc011lbo.1_Missense_Mutation_p.V323M|FGFR1_uc011lbp.1_Missense_Mutation_p.V236M|FGFR1_uc011lbq.1_Missense_Mutation_p.V234M|FGFR1_uc010lwk.2_Missense_Mutation_p.V317M|FGFR1_uc011lbr.1_RNA|FGFR1_uc011lbs.1_Missense_Mutation_p.V165M|FGFR1_uc011lbt.1_Intron|FGFR1_uc011lbu.1_Missense_Mutation_p.V356M|FGFR1_uc011lbv.1_Missense_Mutation_p.V323M|FGFR1_uc011lbw.1_Missense_Mutation_p.V236M|FGFR1_uc011lbx.1_Missense_Mutation_p.V236M	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	325	Ig-like C2-type 3.|Extracellular (Potential).				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	AAGTGAAGCACCTCCATCTCT	0.498		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						7	57					0	0	0.02938	0	0		T	38279423	T	T	38279423	3	4	28	1	0	0	0	0	1	0	0	0	5877	507	18	4	1539	4	FGFR1	8	38279423	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	22253316	38279423	108084599	103	30999											
SGK196	84197	broad.mit.edu	37	chr8	42958728	42958728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacagcaggagaggcctcGccccccgagaggtgccgcca	10	2	14	15	3	0	3	0	0	0	3	1	5	0	3	6	3	3	1	6	3	1	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:42958728G>A	uc003xpw.2	+	4	296	c.37G>A	c.(37-39)GCC>ACC	p.A13T		NM_032237	NP_115613	Q9H5K3	SG196_HUMAN	protein kinase-like protein SgK196	13						integral to membrane	ATP binding|protein kinase activity				0						GAGAGGCCTCGCCCCCCGAGA	0.542													10	132					0	0	0.069234	0	0		A	42958728	A	A	42958728	3	1	28	1	0	0	0	0	1	0	0	0	14233	1087	38	1	39	1	SGK196	8	42958728	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	4679305	42958728	103405294	104	31000											
OPRK1	4986	broad.mit.edu	37	chr8	54142200	54142200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgatcctacgcaggttgCgatctttctctcgggagcca	6	12	12	11	3	2	1	0	1	2	0	5	3	3	2	2	3	3	2	2	3	1	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:54142200C>T	uc003xrh.1	-	3	1175	c.800G>A	c.(799-801)CGC>CAC	p.R267H	OPRK1_uc003xri.1_Missense_Mutation_p.R267H|OPRK1_uc010lyc.1_Missense_Mutation_p.R178H	NM_000912	NP_000903	P41145	OPRK_HUMAN	opioid receptor, kappa 1	267	Cytoplasmic (Potential).				behavior|immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception|synaptic transmission|viral genome replication	integral to plasma membrane	kappa-opioid receptor activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Buprenorphine(DB00921)|Butorphanol(DB00611)|Cocaine(DB00907)|Codeine(DB00318)|Dezocine(DB01209)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Meperidine(DB00454)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Tramadol(DB00193)	ACGCAGGTTGCGATCTTTCTC	0.572													8	60					0	0	0.038147	0	0		T	54142200	T	T	54142200	3	4	28	1	0	0	0	0	1	0	0	0	10904	768	27	1	346	1	OPRK1	8	54142200	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	11183472	54142200	92221822	105	31001											
OPRK1	4986	broad.mit.edu	37	chr8	54147490	54147490	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcatcatggtcaaggtgaAgatgctggtgaacatgttgt	10	12	13	6	0	3	3	3	2	0	1	3	3	3	3	0	3	2	3	0	3	3	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:54147490A>C	uc003xrh.1	-	2	814	c.439T>G	c.(439-441)TTC>GTC	p.F147V	OPRK1_uc003xri.1_Missense_Mutation_p.F147V|OPRK1_uc010lyc.1_Missense_Mutation_p.F58V	NM_000912	NP_000903	P41145	OPRK_HUMAN	opioid receptor, kappa 1	147	Helical; Name=3; (Potential).				behavior|immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception|synaptic transmission|viral genome replication	integral to plasma membrane	kappa-opioid receptor activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Buprenorphine(DB00921)|Butorphanol(DB00611)|Cocaine(DB00907)|Codeine(DB00318)|Dezocine(DB01209)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Meperidine(DB00454)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Tramadol(DB00193)	GTCAAGGTGAAGATGCTGGTG	0.473													11	56					0	0	0.069234	0	0		C	54147490	C	C	54147490	3	2	28	1	0	0	0	0	1	0	0	0	10904	72	3	5	711	5	OPRK1	8	54147490	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	5290	54147490	92216532	106	31002											
PREX2	80243	broad.mit.edu	37	chr8	69058469	69058469	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcttacatatcaagcagaAggaagtcggcaagctctgaa	14	8	9	10	1	3	2	1	1	2	1	4	3	3	3	1	2	3	3	1	2	7	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:69058469A>C	uc003xxv.1	+	34	4140	c.4113A>C	c.(4111-4113)GAA>GAC	p.E1371D		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1371					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ATCAAGCAGAAGGAAGTCGGC	0.323													6	66					0	0	0.038147	0	0		C	69058469	C	C	69058469	3	2	28	1	0	0	0	0	1	0	0	0	12499	69	3	5	4476	5	PREX2	8	69058469	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	14910979	69058469	77305553	107	31003											
SULF1	23213	broad.mit.edu	37	chr8	70536271	70536271	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaatctggaagaagaagaAgaattgcaagtgttgcaacc	18	8	10	5	0	1	4	0	0	1	4	1	5	1	5	1	1	3	3	1	1	9	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:70536271A>C	uc010lza.1	+	15	2406	c.1689A>C	c.(1687-1689)GAA>GAC	p.E563D	SULF1_uc003xyd.2_Missense_Mutation_p.E563D|SULF1_uc003xye.2_Missense_Mutation_p.E563D|SULF1_uc003xyf.2_Missense_Mutation_p.E563D|SULF1_uc003xyg.2_Missense_Mutation_p.E563D|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	563					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			AAGAAGAAGAAGAATTGCAAG	0.463													10	64					0	0	0.09319	0	0		C	70536271	C	C	70536271	3	2	28	1	0	0	0	0	1	0	0	0	15395	69	3	5	1731	5	SULF1	8	70536271	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	1477802	70536271	75827751	108	31004											
NECAB1	64168	broad.mit.edu	37	chr8	91937774	91937774	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgatcaaggcaagggccagCcaagccagaagtcctgtcga	12	6	12	11	1	1	2	1	1	0	1	3	3	2	2	4	2	2	1	4	2	4	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:91937774C>A	uc011lgg.1	+	7	700	c.506C>A	c.(505-507)GCC>GAC	p.A169D		NM_022351	NP_071746	Q8N987	NECA1_HUMAN	N-terminal EF-hand calcium binding protein 1	169					antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity			central_nervous_system(1)	1			BRCA - Breast invasive adenocarcinoma(11;0.0499)			CAAGGGCCAGCCAAGCCAGAA	0.478													4	31					0.00024832	0.000257726	0.009096	1	0		A	91937774	A	A	91937774	3	1	28	1	0	0	0	0	1	0	0	0	10323	739	26	5	532	5	NECAB1	8	91937774	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	21401503	91937774	54426248	109	31005											
RIMS2	9699	broad.mit.edu	37	chr8	104898091	104898091	+	Missense_Mutation	SNP	A	C	C																															ctcgagaggctcagggaccaAgttcttatgcacaaaggacc																										TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:104898091A>C	uc003yls.2	+	2	839	c.598A>C	c.(598-600)AGT>CGT	p.S200R	RIMS2_uc003ylp.2_Missense_Mutation_p.S422R|RIMS2_uc003ylw.2_Missense_Mutation_p.S230R|RIMS2_uc003ylq.2_Missense_Mutation_p.S230R|RIMS2_uc003ylr.2_Missense_Mutation_p.S230R	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	453					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TCAGGGACCAAGTTCTTATGC	0.483										HNSCC(12;0.0054)			18	67					0	0	0.043863	0	0		C	104898091	C	C	104898091	3	2	28	1	0	0	0	0	1	0	0	0	13393	72	3	5	1404	5	RIMS2	8	104898091	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	12960317	104898091	41465931	110	31006	66	2									
RIMS2	9699	broad.mit.edu	37	chr8	104898096	104898096	+	Silent	SNP	T	G	G																															gaggctcagggaccaagttcTtatgcacaaaggaccacaaa																										TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:104898096T>G	uc003yls.2	+	2	844	c.603T>G	c.(601-603)TCT>TCG	p.S201S	RIMS2_uc003ylp.2_Silent_p.S423S|RIMS2_uc003ylw.2_Silent_p.S231S|RIMS2_uc003ylq.2_Silent_p.S231S|RIMS2_uc003ylr.2_Silent_p.S231S	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	454					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding	p.S231S(1)		ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GACCAAGTTCTTATGCACAAA	0.478										HNSCC(12;0.0054)			15	71					0	0	0.0333	0	0		G	104898096	G	G	104898096	2	3	28	1	0	0	0	0	0	0	0	1	13393	1596	56	5		5	RIMS2	8	104898096	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	5	104898096	41465926	111	31007	66	2									
RIMS2	9699	broad.mit.edu	37	chr8	105260951	105260951	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgattttccctggtgttcgcTtggcctctgatagccagttc	4	16	10	11	1	1	2	0	2	1	0	4	2	2	2	3	2	1	3	3	2	1	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:105260951T>C	uc003yls.2	+	25	3794	c.3553T>C	c.(3553-3555)TTG>CTG	p.L1185L	RIMS2_uc003ylp.2_Silent_p.L1167L|RIMS2_uc003ylw.2_Silent_p.L1174L|RIMS2_uc003ylq.2_Silent_p.L981L|RIMS2_uc003ylr.2_Silent_p.L1006L	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1229					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TGGTGTTCGCTTGGCCTCTGA	0.463										HNSCC(12;0.0054)			19	100					0	0	0.043863	0	0		C	105260951	C	C	105260951	2	2	28	1	0	0	0	0	0	0	0	1	13393	1606	56	3		3	RIMS2	8	105260951	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	362855	105260951	41103071	112	31008											
LRP12	29967	broad.mit.edu	37	chr8	105503202	105503202	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccacttaccccattatcaAgttgtctcaaaggactctgg	10	13	6	12	0	3	0	2	0	2	0	5	1	4	1	3	2	1	1	3	2	4	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:105503202A>G	uc003yma.2	-	7	2374	c.2279T>C	c.(2278-2280)CTT>CCT	p.L760P	LRP12_uc003ymb.2_Missense_Mutation_p.L741P|LRP12_uc003ylz.2_Missense_Mutation_p.L166P	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	760	Cytoplasmic (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CCCATTATCAAGTTGTCTCAA	0.428													22	94					0	0	0.0918	0	0		G	105503202	G	G	105503202	3	3	28	1	0	0	0	0	1	0	0	0	8972	72	3	3	304	3	LRP12	8	105503202	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	242251	105503202	40860820	113	31009											
TRHR	7201	broad.mit.edu	37	chr8	110131681	110131681	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggtatcctttagccaaagTtgattcatgaattagaagaa	15	12	9	5	0	1	4	1	2	0	2	2	5	2	4	2	1	1	2	2	1	7	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:110131681T>G	uc003ymz.3	+	2	1210	c.1194T>G	c.(1192-1194)AGT>AGG	p.S398R		NM_003301	NP_003292	P34981	TRFR_HUMAN	thyrotropin-releasing hormone receptor	398	Cytoplasmic (Potential).					integral to plasma membrane	thyrotropin-releasing hormone receptor activity			skin(2)|lung(1)	3			OV - Ovarian serous cystadenocarcinoma(57;2.3e-11)			TTAGCCAAAGTTGATTCATGA	0.403													6	102					0	0	0.02938	0	0		G	110131681	G	G	110131681	3	3	28	1	0	0	0	0	1	0	0	0	16506	1722	60	5	1200	5	TRHR	8	110131681	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	4628479	110131681	36232341	114	31010											
FLJ43860	389690	broad.mit.edu	37	chr8	142487565	142487565	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacagagtgtcctggggCtccttctccatcaaaacctg	8	10	10	13	0	2	1	1	0	1	1	5	1	4	1	4	2	2	2	4	2	2	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr8:142487565C>T	uc003ywi.2	-	12	1464	c.1383G>A	c.(1381-1383)GAG>GAA	p.E461E	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	461							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			TGTCCTGGGGCTCCTTCTCCA	0.662													16	39					0	0	0.0333	0	0		T	142487565	T	T	142487565	2	4	28	1	0	0	0	0	0	0	0	1	5944	796	28	2		2	FLJ43860	8	142487565	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	32355884	142487565	3876457	115	31011											
KIAA2026	158358	broad.mit.edu	37	chr9	5924714	5924714	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttctgttgagtctatagacTtactgatttctcccttagga	8	17	8	8	0	3	3	0	2	3	1	4	4	3	4	1	1	1	2	1	1	4	7			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr9:5924714T>G	uc003zjq.3	-	7	2846	c.2630A>C	c.(2629-2631)AAG>ACG	p.K877T	KIAA2026_uc010mht.2_Missense_Mutation_p.K52T	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	877										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		GTCTATAGACTTACTGATTTC	0.373													21	127					0	0	0.055883	0	0		G	5924714	G	G	5924714	3	3	28	1	0	0	0	0	1	0	0	0	8286	1609	56	5	3689	5	KIAA2026	9	5924714	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08		5924714	135288717	116	31012											
BNC2	54796	broad.mit.edu	37	chr9	16436121	16436121	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcctgttatgcttagaaaAgtccttcacagacatgcctg	10	12	9	10	0	1	2	1	0	0	2	3	2	3	2	3	1	2	2	3	1	4	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr9:16436121A>G	uc003zml.2	-	6	2211	c.2071T>C	c.(2071-2073)TTT>CTT	p.F691L	BNC2_uc011lmw.1_Missense_Mutation_p.F596L|BNC2_uc003zmm.2_Missense_Mutation_p.F649L|BNC2_uc003zmq.1_Missense_Mutation_p.F705L|BNC2_uc003zmr.1_Missense_Mutation_p.F728L|BNC2_uc003zmp.1_Missense_Mutation_p.F719L|BNC2_uc010mij.1_Missense_Mutation_p.F613L|BNC2_uc011lmv.1_Missense_Mutation_p.F517L|BNC2_uc003zmo.1_Missense_Mutation_p.F613L|BNC2_uc003zmj.2_Missense_Mutation_p.F456L|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.F456L|BNC2_uc003zmn.1_Missense_Mutation_p.F456L	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	691					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		TGCTTAGAAAAGTCCTTCACA	0.493													10	108					0	0	0.069234	0	0		G	16436121	G	G	16436121	3	3	28	1	0	0	0	0	1	0	0	0	1476	72	3	3	1236	3	BNC2	9	16436121	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	10511407	16436121	124777310	117	31013											
CNTLN	54875	broad.mit.edu	37	chr9	17415802	17415802	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaggactattttcatgataAgaatgccaaaaaaccaactt	17	12	5	7	0	1	2	1	1	0	1	1	3	1	3	2	1	3	0	2	1	8	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr9:17415802A>G	uc003zmz.2	+	17	2836	c.2810A>G	c.(2809-2811)AAG>AGG	p.K937R	CNTLN_uc003zmy.2_Missense_Mutation_p.K938R|CNTLN_uc010mio.2_Missense_Mutation_p.K617R	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	938						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		TTTCATGATAAGAATGCCAAA	0.284													11	101					0	0	0.09319	0	0		G	17415802	G	G	17415802	3	3	28	1	0	0	0	0	1	0	0	0	3642	72	3	3	2909	3	CNTLN	9	17415802	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	979681	17415802	123797629	118	31014											
ANXA1	301	broad.mit.edu	37	chr9	75781105	75781105	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagaaatgcctcacagctAtcggtatgtagtccagcagt	11	11	10	9	1	1	1	1	1	0	1	3	2	2	1	2	1	3	4	2	1	4	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr9:75781105A>G	uc004ajf.1	+	10	873	c.799A>G	c.(799-801)ATC>GTC	p.I267V	ANXA1_uc004aje.1_Missense_Mutation_p.I267V|ANXA1_uc004ajg.1_Missense_Mutation_p.I267V	NM_000700	NP_000691	P04083	ANXA1_HUMAN	annexin I	267	Annexin 3.				alpha-beta T cell differentiation|anti-apoptosis|cell surface receptor linked signaling pathway|cellular component movement|inflammatory response|keratinocyte differentiation|lipid metabolic process|peptide cross-linking|positive regulation of vesicle fusion	basolateral plasma membrane|cilium|cornified envelope|cytoplasm|extracellular region|nucleus	calcium ion binding|calcium-dependent phospholipid binding|phospholipase A2 inhibitor activity|protein binding, bridging|receptor binding|structural molecule activity			breast(1)|central_nervous_system(1)	2		all_epithelial(88;2.54e-11)		OV - Ovarian serous cystadenocarcinoma(323;2.82e-06)|GBM - Glioblastoma multiforme(74;0.0325)	Alclometasone(DB00240)|Amcinonide(DB00288)|Beclomethasone(DB00394)|Betamethasone(DB00443)|Clobetasol(DB01013)|Clocortolone(DB00838)|Desonide(DB01260)|Desoximetasone(DB00547)|Dexamethasone(DB01234)|Diflorasone(DB00223)|Flumethasone Pivalate(DB00663)|Halobetasol Propionate(DB00596)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol Etabonate(DB00873)|Methylprednisolone(DB00959)|Mometasone(DB00764)|Prednicarbate(DB01130)|Prednisone(DB00635)|Rimexolone(DB00896)|Triamcinolone(DB00620)	CCTCACAGCTATCGGTATGTA	0.358													6	42					0	0	0.021553	0	0		G	75781105	G	G	75781105	3	3	28	1	0	0	0	0	1	0	0	0	714	449	16	3	833	3	ANXA1	9	75781105	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	58365303	75781105	65432326	119	31015											
RORB	6096	broad.mit.edu	37	chr9	77257530	77257530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacttatgccaacgggcacGtcattgacctgcccaagtct	9	9	9	14	2	2	1	1	1	1	0	2	1	2	1	3	1	3	2	3	1	3	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr9:77257530G>A	uc004aji.2	+	4	518	c.469G>A	c.(469-471)GTC>ATC	p.V157I	RORB_uc004ajh.2_Missense_Mutation_p.V146I	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	157	Hinge (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						CAACGGGCACGTCATTGACCT	0.542													5	62					0	0	0.021553	0	0		A	77257530	A	A	77257530	3	1	28	1	0	0	0	0	1	0	0	0	13554	1145	40	1	450	1	RORB	9	77257530	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	1476425	77257530	63955901	120	31016											
ZNF883	169834	broad.mit.edu	37	chr9	115759835	115759835	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgcattacactcatagggTttttctccagtatgaattct	10	16	6	9	0	3	1	1	1	2	0	4	1	3	1	1	1	2	3	1	1	4	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr9:115759835T>C	uc011lwy.1	-	5	1944	c.705A>G	c.(703-705)AAA>AAG	p.K235K		NM_001101338	NP_001094808	P0CG24	ZN883_HUMAN	hypothetical protein LOC169834	235					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACTCATAGGGTTTTTCTCCAG	0.428													5	51					0	0	0.014758	0	0		C	115759835	C	C	115759835	2	2	28	1	0	0	0	0	0	0	0	1	18223	1722	60	3		3	ZNF883	9	115759835	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	38502305	115759835	25453596	121	31017											
TLR4	7099	broad.mit.edu	37	chr9	120475865	120475865	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaattctttccaggaaaacTtccttccagatatcttcaca	12	13	4	12	0	3	1	1	0	2	1	6	2	6	2	3	1	1	1	3	1	4	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr9:120475865T>G	uc004bjz.2	+	3	1750	c.1459T>G	c.(1459-1461)TTC>GTC	p.F487V	TLR4_uc004bka.2_Missense_Mutation_p.F447V|TLR4_uc004bkb.2_Missense_Mutation_p.F287V	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	487	LRR 15.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						CCAGGAAAACTTCCTTCCAGA	0.448													12	97					0	0	0.080935	0	0		G	120475865	G	G	120475865	3	3	28	1	0	0	0	0	1	0	0	0	15978	1609	56	5	1469	5	TLR4	9	120475865	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	4716030	120475865	20737566	122	31018											
FUT7	2529	broad.mit.edu	37	chr9	139925609	139925609	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatccacccgcagatgaggCgccagctgccggtacagcct	9	5	11	16	3	0	2	0	1	0	1	1	2	1	2	5	2	4	3	5	2	1	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr9:139925609C>T	uc004ckq.2	-	2	1431	c.582G>A	c.(580-582)GCG>GCA	p.A194A	ABCA2_uc011mel.1_5'Flank|ABCA2_uc011mem.1_5'Flank|ABCA2_uc004ckl.1_5'Flank|ABCA2_uc004ckm.1_5'Flank|C9orf139_uc004ckp.1_Intron	NM_004479	NP_004470	Q11130	FUT7_HUMAN	fucosyltransferase 7	194	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity				0	all_cancers(76;0.0893)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.96e-05)|Epithelial(140;0.000486)		GCAGATGAGGCGCCAGCTGCC	0.687													13	39					0	0	0.105934	0	0		T	139925609	T	T	139925609	2	4	28	1	0	0	0	0	0	0	0	1	6123	755	27	1		1	FUT7	9	139925609	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	19449744	139925609	1287822	123	31019											
PLXDC2	84898	broad.mit.edu	37	chr10	20465939	20465939	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttctagatgttcgaagaAgaacaatttatgaataccac	15	14	6	6	1	1	4	0	1	1	3	2	5	1	4	1	0	2	1	1	0	8	7			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr10:20465939A>C	uc001iqg.1	+	8	1532	c.895A>C	c.(895-897)AGA>CGA	p.R299R	PLXDC2_uc001iqh.1_Silent_p.R250R|PLXDC2_uc009xkc.1_RNA	NM_032812	NP_116201	Q6UX71	PXDC2_HUMAN	plexin domain containing 2 precursor	299	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4						TGTTCGAAGAAGAACAATTTA	0.318													15	136					0	0	0.146539	0	0		C	20465939	C	C	20465939	2	2	28	1	0	0	0	0	0	0	0	1	12137	64	3	5		5	PLXDC2	10	20465939	Silent	SNP	A	TCGA-BR-6453-01A-11D-1800-08		20465939	115068808	124	31020											
GPR158	57512	broad.mit.edu	37	chr10	25701388	25701388	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatgctggtggtctaccacTttcgcaaagcaaaggtaaac	12	9	10	10	1	1	0	0	0	1	0	2	0	1	0	1	3	4	5	1	3	5	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr10:25701388T>G	uc001isj.2	+	4	1381	c.1321T>G	c.(1321-1323)TTT>GTT	p.F441V		NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	441	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GGTCTACCACTTTCGCAAAGC	0.433													30	136					0	0	0.045705	0	0		G	25701388	G	G	25701388	3	3	28	1	0	0	0	0	1	0	0	0	6678	1609	56	5	1335	5	GPR158	10	25701388	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	5235449	25701388	109833359	125	31021											
GPR158	57512	broad.mit.edu	37	chr10	25886999	25886999	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccgagtcttctcactcaAgaaatcccacagcacttatg	14	9	5	13	1	3	1	2	0	2	1	5	2	4	1	2	0	2	1	2	0	4	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr10:25886999A>C	uc001isj.2	+	11	2504	c.2444A>C	c.(2443-2445)AAG>ACG	p.K815T	GPR158_uc001isk.2_Missense_Mutation_p.K190T	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	815	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						TTCTCACTCAAGAAATCCCAC	0.512													16	97					0	0	0.0333	0	0		C	25886999	C	C	25886999	3	2	28	1	0	0	0	0	1	0	0	0	6678	72	3	5	2486	5	GPR158	10	25886999	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	185611	25886999	109647748	126	31022											
ARMC4	55130	broad.mit.edu	37	chr10	28250600	28250600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcatcttcctcactttctGaggagctatcgctaacagtt	8	15	6	12	1	4	1	2	1	2	0	6	2	5	2	1	1	2	3	1	1	2	6	rs138508233		TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr10:28250600G>A	uc009xky.2	-	10	1381	c.1283C>T	c.(1282-1284)TCA>TTA	p.S428L	ARMC4_uc010qds.1_5'UTR|ARMC4_uc010qdt.1_Missense_Mutation_p.S120L|ARMC4_uc001itz.2_Missense_Mutation_p.S428L|ARMC4_uc010qdu.1_Missense_Mutation_p.S120L	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	428							binding			ovary(4)|skin(2)	6						CTCACTTTCTGAGGAGCTATC	0.393													8	51					0	0	0.038147	0	0		A	28250600	A	A	28250600	3	1	28	1	0	0	0	0	1	0	0	0	954	1294	45	4	1895	4	ARMC4	10	28250600	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	2363601	28250600	107284147	127	31023											
TET1	80312	broad.mit.edu	37	chr10	70451076	70451076	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatgagcctccatcagaCgaacccctatctgatgaccc	11	7	8	15	1	2	5	1	3	1	2	3	6	3	5	5	0	2	1	5	0	2	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr10:70451076C>T	uc001jok.3	+	12	6421	c.5916C>T	c.(5914-5916)GAC>GAT	p.D1972D		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1972					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						CTCCATCAGACGAACCCCTAT	0.498													4	139					0	0	0.009096	0	0		T	70451076	T	T	70451076	2	4	28	1	0	0	0	0	0	0	0	1	15794	535	19	1		1	TET1	10	70451076	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	42200476	70451076	65083671	128	31024											
CDH23	64072	broad.mit.edu	37	chr10	73544140	73544140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctacaacctgaccatctGtgcccgtgaccgggggatgc	7	9	11	14	2	2	2	0	2	2	0	2	3	2	3	4	2	4	0	4	2	2	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr10:73544140G>A	uc001jrx.3	+	40	5842	c.5465G>A	c.(5464-5466)TGT>TAT	p.C1822Y		NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1822	Cadherin 17.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CTGACCATCTGTGCCCGTGAC	0.637													8	64					0	0	0.047766	0	0		A	73544140	A	A	73544140	3	1	28	1	0	0	0	0	1	0	0	0	3111	1377	48	4	5972	4	CDH23	10	73544140	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	3093064	73544140	61990607	129	31025											
ZNF503	84858	broad.mit.edu	37	chr10	77158820	77158820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtctgtcccgggaaatgccGtatgggtccgcaagtggctc	6	10	14	11	3	1	0	0	0	1	0	4	1	3	1	3	3	1	3	3	3	3	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr10:77158820G>A	uc001jxg.2	-	2	1964	c.1628C>T	c.(1627-1629)ACG>ATG	p.T543M	C10orf41_uc010qlf.1_5'Flank	NM_032772	NP_116161	Q96F45	ZN503_HUMAN	zinc finger protein 503	543					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1	all_cancers(46;0.105)|all_epithelial(25;0.00449)|Prostate(51;0.0112)|Ovarian(15;0.088)					GGGAAATGCCGTATGGGTCCG	0.662													3	32					0	0	0.009096	0	0		A	77158820	A	A	77158820	3	1	28	1	0	0	0	0	1	0	0	0	17976	1145	40	1	316	1	ZNF503	10	77158820	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	3614680	77158820	58375927	130	31026											
PYROXD2	84795	broad.mit.edu	37	chr10	100150465	100150465	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggggcagcggctggcccctGggagcattgggggccgccag	4	5	20	12	2	0	0	0	0	0	0	0	1	0	1	4	7	2	3	4	7	0	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr10:100150465G>A	uc001kpc.2	-	12	1268	c.1182C>T	c.(1180-1182)CCC>CCT	p.P394P	PYROXD2_uc001kpb.2_RNA|PYROXD2_uc001kpd.2_RNA	NM_032709	NP_116098	Q8N2H3	PYRD2_HUMAN	pyridine nucleotide-disulphide oxidoreductase	394							oxidoreductase activity			central_nervous_system(1)	1						GCTGGCCCCTGGGAGCATTGG	0.617													4	33					0	0	0.009096	0	0		A	100150465	A	A	100150465	2	1	28	1	0	0	0	0	0	0	0	1	12892	1335	47	4		4	PYROXD2	10	100150465	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	22991645	100150465	35384282	131	31027											
OR51A7	119687	broad.mit.edu	37	chr11	4928970	4928970	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgtctttggaccgctttcTtgccattcacaatcccttaa	8	16	5	12	1	3	0	1	0	2	0	4	1	4	1	3	1	1	1	3	1	3	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:4928970T>G	uc010qyq.1	+	1	371	c.371T>G	c.(370-372)CTT>CGT	p.L124R		NM_001004749	NP_001004749	Q8NH64	O51A7_HUMAN	olfactory receptor, family 51, subfamily A,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		GACCGCTTTCTTGCCATTCAC	0.393													28	86					0	0	0.144211	0	0		G	4928970	G	G	4928970	3	3	28	1	0	0	0	0	1	0	0	0	11107	1609	56	5	373	5	OR51A7	11	4928970	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08		4928970	130077546	132	31028											
OR52E8	390079	broad.mit.edu	37	chr11	5878173	5878173	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctggtgtaaaaaaggctaAgataacaccaatatgagaac	18	8	9	6	0	0	2	0	1	0	2	0	3	0	2	1	2	3	3	1	2	8	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:5878173A>C	uc010qzr.1	-	1	760	c.760T>G	c.(760-762)TTA>GTA	p.L254V	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAAAAGGCTAAGATAACACCA	0.418													12	116					0	0	0.09319	0	0		C	5878173	C	C	5878173	3	2	28	1	0	0	0	0	1	0	0	0	11137	69	3	5	195	5	OR52E8	11	5878173	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	949203	5878173	129128343	133	31029											
OR56A4	120793	broad.mit.edu	37	chr11	6023384	6023384	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatgaggtggtgcaggatgTtgagcaggatggggacatct	10	9	18	4	0	1	2	0	2	1	0	1	6	1	5	0	6	2	3	0	6	1	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:6023384T>G	uc010qzv.1	-	1	995	c.995A>C	c.(994-996)AAC>ACC	p.N332T		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	280	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTGCAGGATGTTGAGCAGGAT	0.512													10	52					0	0	0.069234	0	0		G	6023384	G	G	6023384	3	3	28	1	0	0	0	0	1	0	0	0	11154	1725	60	5	104	5	OR56A4	11	6023384	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	145211	6023384	128983132	134	31030											
OR56A1	120796	broad.mit.edu	37	chr11	6048895	6048895	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaattcagagactgggaCagtggagctgttgctgggtg	9	9	18	5	0	1	1	1	0	0	1	1	6	1	4	0	4	2	3	0	4	1	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:6048895C>G	uc010qzw.1	-	1	40	c.40G>C	c.(40-42)GTC>CTC	p.V14L		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAGACTGGGACAGTGGAGCTG	0.517													4	145					0	0	0.009096	0	0		G	6048895	G	G	6048895	3	3	28	1	0	0	0	0	1	0	0	0	11152	478	17	5	920	5	OR56A1	11	6048895	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	25511	6048895	128957621	135	31031											
DCDC1	341019	broad.mit.edu	37	chr11	31349807	31349807	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatagtgcttctctgtgatcTtctgctcctgtttttgccat	4	19	8	10	0	3	1	0	1	3	0	5	2	4	1	2	0	3	3	2	0	1	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:31349807T>C	uc001msv.2	-	3	223	c.21A>G	c.(19-21)GAA>GAG	p.E7E	DCDC1_uc001msu.1_5'UTR	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	7					intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					CTCTGTGATCTTCTGCTCCTG	0.363													13	58					0	0	0.11911	0	0		C	31349807	C	C	31349807	2	2	28	1	0	0	0	0	0	0	0	1	4287	1606	56	3		3	DCDC1	11	31349807	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	25300912	31349807	103656709	136	31032											
API5	8539	broad.mit.edu	37	chr11	43352073	43352073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtagaacaagattaaagtcGttgcattgaaaataacaaac	19	10	7	5	1	0	3	0	1	0	2	1	3	0	3	0	0	4	3	0	0	9	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:43352073G>A	uc010rfh.1	+	11	1410	c.1237G>A	c.(1237-1239)GTT>ATT	p.V413I	API5_uc010rfg.1_Missense_Mutation_p.V402I|API5_uc001mxf.2_Missense_Mutation_p.V413I|API5_uc010rfi.1_Missense_Mutation_p.V359I|API5_uc001mxg.2_Missense_Mutation_p.V287I	NM_001142930	NP_001136402	Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5 isoform a	413					anti-apoptosis|apoptosis	cytoplasm|spliceosomal complex	fibroblast growth factor binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						GATTAAAGTCGTTGCATTGAA	0.294													9	111					0	0	0.069234	0	0		A	43352073	A	A	43352073	3	1	28	1	0	0	0	0	1	0	0	0	773	1145	40	1	1279	1	API5	11	43352073	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	12002266	43352073	91654443	137	31033											
OR4A5	81318	broad.mit.edu	37	chr11	51412117	51412117	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatagctggcccatgcaaccTtggaaggaaatagtcttttt	12	12	9	8	0	1	0	0	0	1	0	1	2	1	2	2	3	3	2	2	3	6	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:51412117T>G	uc001nhi.1	-	1	279	c.279A>C	c.(277-279)CAA>CAC	p.Q93H		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	93	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				CCATGCAACCTTGGAAGGAAA	0.448													10	49					0	0	0.069234	0	0		G	51412117	G	G	51412117	3	3	28	1	0	0	0	0	1	0	0	0	11062	1606	56	5	672	5	OR4A5	11	51412117	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	8060044	51412117	83594399	138	31034											
SPRYD5	84767	broad.mit.edu	37	chr11	55657447	55657447	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgctgcaagtgtctgAgcctgtgaatccagagctca	8	11	11	11	0	3	3	1	2	2	1	4	3	4	3	2	0	5	4	2	0	2	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:55657447A>T	uc010rip.1	+	6	883	c.791A>T	c.(790-792)GAG>GTG	p.E264V	SPRYD5_uc010riq.1_Missense_Mutation_p.E121V	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	264						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				CAAGTGTCTGAGCCTGTGAAT	0.478													4	42					0	0	0.038147	0	0		T	55657447	T	T	55657447	3	4	28	1	0	0	0	0	1	0	0	0	15136	304	11	5	809	5	SPRYD5	11	55657447	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	4245330	55657447	79349069	139	31035											
OR5W2	390148	broad.mit.edu	37	chr11	55681965	55681965	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaatgatataaacagccaAgaatacagcaaatagggtca	20	8	7	6	0	1	2	1	1	0	1	1	2	1	2	1	1	4	1	1	1	9	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:55681965A>C	uc010rir.1	-	1	94	c.94T>G	c.(94-96)TTG>GTG	p.L32V		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TAAACAGCCAAGAATACAGCA	0.353													8	50					0	0	0.038147	0	0		C	55681965	C	C	55681965	3	2	28	1	0	0	0	0	1	0	0	0	11204	69	3	5	840	5	OR5W2	11	55681965	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	24518	55681965	79324551	140	31036											
FAT3	120114	broad.mit.edu	37	chr11	92533859	92533859	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	accacagaaaggctagaccgGgaaaaccctctagaagggga	16	3	12	10	1	1	3	0	0	1	3	1	5	1	5	3	4	1	1	3	4	6	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:92533859G>T	uc001pdj.3	+	9	7697	c.7680G>T	c.(7678-7680)CGG>CGT	p.R2560R		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2560	Cadherin 23.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GGCTAGACCGGGAAAACCCTC	0.473										TCGA Ovarian(4;0.039)			10	32					1.08611e-07	1.14901e-07	0.080935	1	0		T	92533859	T	T	92533859	2	4	28	1	0	0	0	0	0	0	0	1	5705	1219	43	5		5	FAT3	11	92533859	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	36851894	92533859	42472657	141	31037											
TRPC6	7225	broad.mit.edu	37	chr11	101347243	101347243	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggccctgagtccagatttcTttacattcagcccatatcat	9	13	7	12	0	3	2	2	1	1	1	4	2	4	2	3	1	2	0	3	1	2	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:101347243T>G	uc001pgk.3	-	6	1958	c.1533A>C	c.(1531-1533)AAA>AAC	p.K511N	TRPC6_uc009ywy.2_Missense_Mutation_p.K395N|TRPC6_uc009ywz.1_Missense_Mutation_p.K456N	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	511	Cytoplasmic (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		TCCAGATTTCTTTACATTCAG	0.373													3	67					0	0	0.115264	0	0		G	101347243	G	G	101347243	3	3	28	1	0	0	0	0	1	0	0	0	16609	1606	56	5	1294	5	TRPC6	11	101347243	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	8813384	101347243	33659273	142	31038											
DYNC2H1	79659	broad.mit.edu	37	chr11	103058272	103058272	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatatcaacctacctaaacTtgataaatgggggaccagta	16	9	8	8	0	1	2	1	1	0	1	1	3	1	3	3	2	3	1	3	2	8	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:103058272T>G	uc001pho.2	+	43	7241	c.7097T>G	c.(7096-7098)CTT>CGT	p.L2366R	DYNC2H1_uc001phn.1_Missense_Mutation_p.L2366R|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2366	AAA 3 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CTACCTAAACTTGATAAATGG	0.343													21	78					0	0	0.055883	0	0		G	103058272	G	G	103058272	3	3	28	1	0	0	0	0	1	0	0	0	4852	1609	56	5	7267	5	DYNC2H1	11	103058272	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	1711029	103058272	31948244	143	31039											
DYNC2H1	79659	broad.mit.edu	37	chr11	103124160	103124160	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaactttactacaacaagaAgtggattacgagggcaggta	15	10	10	6	1	0	1	0	0	0	1	0	3	0	2	0	3	5	2	0	3	8	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:103124160A>C	uc001pho.2	+	66	10333	c.10189A>C	c.(10189-10191)AGT>CGT	p.S3397R	DYNC2H1_uc001phn.1_Missense_Mutation_p.S3404R|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3397	AAA 5 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TACAACAAGAAGTGGATTACG	0.358													4	135					0	0	0.009096	0	0		C	103124160	C	C	103124160	3	2	28	1	0	0	0	0	1	0	0	0	4852	72	3	5	10476	5	DYNC2H1	11	103124160	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	65888	103124160	31882356	144	31040											
RAB39	54734	broad.mit.edu	37	chr11	107832831	107832831	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctagtgggacataaatgTgatttagcttcacaacgtca	12	12	9	8	1	2	1	2	1	0	0	2	2	2	2	0	1	3	2	0	1	5	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:107832831T>C	uc001pjt.2	+	2	405	c.387T>C	c.(385-387)TGT>TGC	p.C129C		NM_017516	NP_059986	Q14964	RB39A_HUMAN	RAB39, member RAS oncogene family	129	GTP (By similarity).				protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0				BRCA - Breast invasive adenocarcinoma(274;3.04e-05)|Epithelial(105;8.56e-05)|all cancers(92;0.00179)		GACATAAATGTGATTTAGCTT	0.388													11	69					0	0	0.09319	0	0		C	107832831	C	C	107832831	2	2	28	1	0	0	0	0	0	0	0	1	12954	1702	59	3		3	RAB39	11	107832831	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	4708671	107832831	27173685	145	31041											
CBL	867	broad.mit.edu	37	chr11	119170326	119170326	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccgcctctgctgccacCgcctcacctcagctctccag	4	8	7	22	2	4	0	2	0	2	0	5	0	4	0	8	0	4	2	8	0	0	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr11:119170326C>T	uc001pwe.2	+	16	2694	c.2556C>T	c.(2554-2556)ACC>ACT	p.T852T		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral	852	Interaction with CD2AP.				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		CTGCTGCCACCGCCTCACCTC	0.562									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome				8	231					0	0	0.038147	0	0		T	119170326	T	T	119170326	2	4	28	1	0	0	0	0	0	0	0	1	2703	639	23	1		1	CBL	11	119170326	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	11337495	119170326	15836190	146	31042											
CHD4	1108	broad.mit.edu	37	chr12	6702658	6702658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctctcggatgatggcaCggctgtccttgtcacccaca	7	11	9	14	2	2	1	1	1	1	0	5	2	3	2	2	3	0	2	2	3	0	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr12:6702658C>T	uc001qpo.2	-	16	2602	c.2438G>A	c.(2437-2439)CGT>CAT	p.R813H	CHD4_uc001qpn.2_Missense_Mutation_p.R806H|CHD4_uc001qpp.2_Missense_Mutation_p.R810H	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	813	Helicase ATP-binding.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						GATGATGGCACGGCTGTCCTT	0.537													20	172					0	0	0.049695	0	0		T	6702658	T	T	6702658	3	4	28	1	0	0	0	0	1	0	0	0	3330	536	19	1	3400	1	CHD4	12	6702658	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08		6702658	127149237	147	31043											
LAG3	3902	broad.mit.edu	37	chr12	6883914	6883914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccccccatcaccacttagCggaaagcttcctcttcctgc	7	10	6	18	1	2	0	1	0	1	0	5	1	5	1	6	1	3	1	6	1	2	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr12:6883914C>T	uc001qqt.3	+	4	1014	c.665C>T	c.(664-666)GCG>GTG	p.A222V	LAG3_uc001qqs.2_Missense_Mutation_p.A222V|LAG3_uc001qqu.2_Missense_Mutation_p.A52V	NM_002286	NP_002277	P18627	LAG3_HUMAN	lymphocyte-activation protein 3 precursor	222	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane	antigen binding|MHC class II protein binding				0						CACCACTTAGCGGAAAGCTTC	0.627													6	57					0	0	0.021553	0	0		T	6883914	T	T	6883914	3	4	28	1	0	0	0	0	1	0	0	0	8616	768	27	1	679	1	LAG3	12	6883914	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	181256	6883914	126967981	148	31044											
CLEC2B	9976	broad.mit.edu	37	chr12	10007076	10007076	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactgcatttataccgcctaAgaaaattctttagagacaaa	17	11	5	8	1	1	2	0	0	1	2	1	3	1	2	2	0	3	1	2	0	8	7			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr12:10007076A>G	uc001qwn.2	-	4	902	c.245T>C	c.(244-246)CTT>CCT	p.L82P		NM_005127	NP_005118	Q92478	CLC2B_HUMAN	C-type lectin, superfamily member 2	82	C-type lectin.|Extracellular (Potential).					integral to plasma membrane	sugar binding				0						ATACCGCCTAAGAAAATTCTT	0.373													9	62					0	0	0.047766	0	0		G	10007076	G	G	10007076	3	3	28	1	0	0	0	0	1	0	0	0	3510	72	3	3	212	3	CLEC2B	12	10007076	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	3123162	10007076	123844819	149	31045											
KCNJ8	3764	broad.mit.edu	37	chr12	21919280	21919280	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggcactaatgatcatgcTtttcctcaggtcacccactc	10	11	7	13	0	3	2	3	1	0	1	5	2	4	2	2	2	1	2	2	2	1	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr12:21919280T>G	uc001rff.2	-	3	990	c.652A>C	c.(652-654)AGC>CGC	p.S218R		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	218	Cytoplasmic (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	ATGATCATGCTTTTCCTCAGG	0.498													19	121					0	0	0.043863	0	0		G	21919280	G	G	21919280	3	3	28	1	0	0	0	0	1	0	0	0	8072	1609	56	5	626	5	KCNJ8	12	21919280	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	11912204	21919280	111932615	150	31046											
CMAS	55907	broad.mit.edu	37	chr12	22218129	22218129	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgatgcctgttctactGcccagaaggctgttggatac	7	12	11	11	0	1	2	0	1	1	1	1	3	1	3	2	2	5	4	2	2	3	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr12:22218129G>T	uc001rfm.2	+	8	1268	c.1189G>T	c.(1189-1191)GCC>TCC	p.A397S	CMAS_uc001rfn.2_RNA	NM_018686	NP_061156	Q8NFW8	NEUA_HUMAN	cytidine monophospho-N-acetylneuraminic acid	397					lipopolysaccharide biosynthetic process	nucleus	N-acylneuraminate cytidylyltransferase activity			ovary(1)|pancreas(1)|skin(1)	3						CTGTTCTACTGCCCAGAAGGC	0.443													38	237					2.05212e-20	2.20502e-20	0.080422	1	0		T	22218129	T	T	22218129	3	4	28	1	0	0	0	0	1	0	0	0	3578	1319	46	5	1219	5	CMAS	12	22218129	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	298849	22218129	111633766	151	31047											
FAR2	55711	broad.mit.edu	37	chr12	29449959	29449959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttaatcttctctagacatgCtgtgcaacttaacgtcactg	10	14	6	11	1	3	1	1	0	2	1	4	1	3	1	0	0	4	2	0	0	4	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr12:29449959C>T	uc001ris.3	+	4	518	c.371C>T	c.(370-372)GCT>GTT	p.A124V	FAR2_uc001rit.2_Missense_Mutation_p.A124V|FAR2_uc009zjm.2_Missense_Mutation_p.A27V|uc001riu.1_Intron	NM_018099	NP_060569	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	124					ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0						TCTAGACATGCTGTGCAACTT	0.428													24	167					0	0	0.099896	0	0		T	29449959	T	T	29449959	3	4	28	1	0	0	0	0	1	0	0	0	5689	797	28	2	381	2	FAR2	12	29449959	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	7231830	29449959	104401936	152	31048											
KIF21A	55605	broad.mit.edu	37	chr12	39705250	39705250	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaagaggagatcatcagtAgaatccacacagagcacagc	16	5	11	9	0	2	5	2	1	0	4	3	6	3	5	1	1	2	2	1	1	3	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr12:39705250A>G	uc001rly.2	-	32	4211	c.4065T>C	c.(4063-4065)TCT>TCC	p.S1355S	KIF21A_uc001rlv.2_Silent_p.S300S|KIF21A_uc001rlw.2_Silent_p.S625S|KIF21A_uc001rlx.2_Silent_p.S1342S|KIF21A_uc001rlz.2_Silent_p.S1302S|KIF21A_uc010skl.1_Silent_p.S1318S|KIF21A_uc001rlt.2_5'UTR|KIF21A_uc001rlu.2_5'UTR	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	1355	WD 1.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				GATCATCAGTAGAATCCACAC	0.333													21	104					0	0	0.083992	0	0		G	39705250	G	G	39705250	2	3	28	1	0	0	0	0	0	0	0	1	8304	407	15	3		3	KIF21A	12	39705250	Silent	SNP	A	TCGA-BR-6453-01A-11D-1800-08	10255291	39705250	94146645	153	31049											
KIAA0748	9840	broad.mit.edu	37	chr12	55356738	55356738	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccatcacttccaacacaActtggtccaaactgttcctt	10	13	4	14	0	1	0	1	0	0	0	5	0	5	0	4	1	3	1	4	1	3	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr12:55356738A>C	uc001sgn.3	-	9	1054	c.944T>G	c.(943-945)GTT>GGT	p.V315G	KIAA0748_uc001sgl.3_Missense_Mutation_p.V177G|KIAA0748_uc001sgm.3_Missense_Mutation_p.V62G|KIAA0748_uc010spb.1_Missense_Mutation_p.V62G|KIAA0748_uc010spc.1_Missense_Mutation_p.V177G|KIAA0748_uc010spd.1_Missense_Mutation_p.V315G|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	315										ovary(1)|central_nervous_system(1)	2						TTCCAACACAACTTGGTCCAA	0.532													8	72					0	0	0.047766	0	0		C	55356738	C	C	55356738	3	2	28	1	0	0	0	0	1	0	0	0	8206	43	2	5	629	5	KIAA0748	12	55356738	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	15651488	55356738	78495157	154	31050											
C12orf63	374467	broad.mit.edu	37	chr12	97045576	97045576	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatgttaatacaactacaaAataccagttctattaaggta	18	12	4	7	0	1	0	0	0	1	0	1	0	1	0	1	1	4	3	1	1	10	8			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr12:97045576A>C	uc001tet.1	+	3	436	c.358A>C	c.(358-360)AAT>CAT	p.N120H		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	120										skin(6)|ovary(1)	7						ACAACTACAAAATACCAGTTC	0.299													6	38					0	0	0.021553	0	0		C	97045576	C	C	97045576	3	2	28	1	0	0	0	0	1	0	0	0	1709	14	1	5	364	5	C12orf63	12	97045576	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	41688838	97045576	36806319	155	31051											
NBEA	26960	broad.mit.edu	37	chr13	36141109	36141109	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaccaactatgaatcagaAgagttggacctgactcttcc	13	11	7	10	0	2	4	1	2	1	2	3	5	3	5	3	1	2	1	3	1	5	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr13:36141109A>C	uc001uvb.2	+	45	7196	c.6990A>C	c.(6988-6990)GAA>GAC	p.E2330D	NBEA_uc010abi.2_Missense_Mutation_p.E986D|NBEA_uc010tee.1_Missense_Mutation_p.E123D|NBEA_uc010tef.1_Missense_Mutation_p.E123D|NBEA_uc010teg.1_Missense_Mutation_p.E123D	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2330	BEACH.					cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		ATGAATCAGAAGAGTTGGACC	0.348													18	141					0	0	0.043863	0	0		C	36141109	C	C	36141109	3	2	28	1	0	0	0	0	1	0	0	0	10205	69	3	5	7168	5	NBEA	13	36141109	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08		36141109	79028769	156	31052											
CCNA1	8900	broad.mit.edu	37	chr13	37012812	37012812	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccaaagcacactacatgaAgaagcagccagacatcacgg	17	3	8	13	1	1	3	1	1	0	2	1	3	1	3	2	1	4	2	2	1	4	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr13:37012812A>C	uc001uvr.3	+	5	1051	c.701A>C	c.(700-702)AAG>ACG	p.K234T	CCNA1_uc010teo.1_Missense_Mutation_p.K190T|CCNA1_uc010abq.2_Missense_Mutation_p.K190T|CCNA1_uc010abp.2_Missense_Mutation_p.K190T|CCNA1_uc001uvs.3_Missense_Mutation_p.K233T|CCNA1_uc010abr.2_Intron	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	234					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		CACTACATGAAGAAGCAGCCA	0.448													6	55					0	0	0.021553	0	0		C	37012812	C	C	37012812	3	2	28	1	0	0	0	0	1	0	0	0	2912	72	3	5	719	5	CCNA1	13	37012812	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	871703	37012812	78157066	157	31053											
SMAD9	4093	broad.mit.edu	37	chr13	37453530	37453530	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtggtgggactgcagatcCggccagcgccacacgcgaca	8	5	14	14	5	0	1	0	0	0	1	2	3	1	2	3	3	2	1	3	3	0	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr13:37453530C>T	uc001uvw.2	-	2	640	c.297G>A	c.(295-297)CCG>CCA	p.P99P	SMAD9_uc001uvx.2_Silent_p.P99P|SMAD9_uc010tep.1_5'UTR	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	99	MH1.				BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		ACTGCAGATCCGGCCAGCGCC	0.612													7	58					0	0	0.02938	0	0		T	37453530	T	T	37453530	2	4	28	1	0	0	0	0	0	0	0	1	14789	639	23	1		1	SMAD9	13	37453530	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	440718	37453530	77716348	158	31054											
TRPC4	7223	broad.mit.edu	37	chr13	38229268	38229268	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcatagctattaacatgTtgagtagaacaaccagagag	16	10	8	7	0	2	3	2	1	0	2	2	4	2	3	1	0	4	3	1	0	6	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr13:38229268T>G	uc001uws.2	-	7	2076	c.1841A>C	c.(1840-1842)AAC>ACC	p.N614T	TRPC4_uc010abv.2_Missense_Mutation_p.N194T|TRPC4_uc001uwt.2_Missense_Mutation_p.N614T|TRPC4_uc010tey.1_Missense_Mutation_p.N614T|TRPC4_uc010abw.2_Missense_Mutation_p.N441T|TRPC4_uc010abx.2_Missense_Mutation_p.N614T|TRPC4_uc010aby.2_Missense_Mutation_p.N614T	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	614	Helical; (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		TATTAACATGTTGAGTAGAAC	0.353													5	29					0	0	0.021553	0	0		G	38229268	G	G	38229268	3	3	28	1	0	0	0	0	1	0	0	0	16606	1725	60	5	1127	5	TRPC4	13	38229268	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	775738	38229268	76940610	159	31055											
ZC3H13	23091	broad.mit.edu	37	chr13	46554086	46554086	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtttcccagctgtcatgatAgttgctattactactgtgac	9	15	8	9	0	1	2	1	2	0	0	2	2	2	2	1	0	4	4	1	0	4	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr13:46554086A>C	uc010tfw.1	-	10	1780	c.1774T>G	c.(1774-1776)TAT>GAT	p.Y592D	ZC3H13_uc001vas.1_Missense_Mutation_p.Y592D|ZC3H13_uc001vat.1_Missense_Mutation_p.Y592D	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	592	Arg/Ser-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		CTGTCATGATAGTTGCTATTA	0.393													7	94					0	0	0.02938	0	0		C	46554086	C	C	46554086	3	2	28	1	0	0	0	0	1	0	0	0	17590	420	15	5	2948	5	ZC3H13	13	46554086	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	8324818	46554086	68615792	160	31056											
C13orf18	80183	broad.mit.edu	37	chr13	46946186	46946186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggcagagacacccgatgaGagtatcctgggcggaccatg	10	6	15	10	2	0	2	0	1	0	2	1	6	1	3	3	3	0	2	3	3	1	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr13:46946186G>A	uc010acl.2	-	3	1030	c.425C>T	c.(424-426)TCT>TTT	p.S142F	C13orf18_uc001vbf.3_Missense_Mutation_p.S75F|C13orf18_uc001vbg.3_5'UTR|C13orf18_uc010tfz.1_Intron|C13orf18_uc010acm.2_Missense_Mutation_p.S7F|C13orf18_uc010acn.2_Intron|C13orf18_uc001vbe.3_Missense_Mutation_p.S142F|C13orf18_uc001vbh.3_Missense_Mutation_p.S142F|C13orf18_uc001vbi.3_Intron|C13orf18_uc010aco.1_Missense_Mutation_p.S142F|C13orf18_uc010tga.1_Missense_Mutation_p.S75F	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	142											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		CACCCGATGAGAGTATCCTGG	0.542													8	62					0	0	0.038147	0	0		A	46946186	A	A	46946186	3	1	28	1	0	0	0	0	1	0	0	0	1723	942	33	4	1615	4	C13orf18	13	46946186	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	392100	46946186	68223692	161	31057											
ITM2B	9445	broad.mit.edu	37	chr13	48835306	48835306	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgaagccagcaattgtttCgcaattcggcattttgaaaa	12	12	9	8	3	0	2	0	2	0	0	2	2	0	2	1	1	2	4	1	1	5	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr13:48835306C>T	uc001vbz.3	+	6	970	c.747C>T	c.(745-747)TTC>TTT	p.F249F		NM_021999	NP_068839	Q9Y287	ITM2B_HUMAN	integral membrane protein 2B	249	Lumenal (Potential).				nervous system development	Golgi membrane|integral to membrane|nucleus|plasma membrane	beta-amyloid binding				0		all_cancers(8;2.2e-31)|all_epithelial(8;6.77e-15)|all_lung(13;9.67e-07)|all_hematologic(8;9.72e-06)|Lung NSC(96;8.3e-05)|Breast(56;0.000141)|Acute lymphoblastic leukemia(8;0.00045)|Prostate(109;0.000669)|Myeloproliferative disorder(33;0.039)|Hepatocellular(98;0.0556)|Lung SC(185;0.102)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(144;1.97e-06)		GCAATTGTTTCGCAATTCGGC	0.274													6	83					0	0	0.02938	0	0		T	48835306	T	T	48835306	2	4	28	1	0	0	0	0	0	0	0	1	7929	883	31	1		1	ITM2B	13	48835306	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	1889120	48835306	66334572	162	31058											
PCDH9	5101	broad.mit.edu	37	chr13	66878826	66878826	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactctcagtagcacctccTgcttgcttataagacttcag	9	12	8	12	0	2	1	2	0	1	1	4	2	3	2	2	1	3	4	2	1	3	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr13:66878826T>C	uc001vik.2	-	5	4367	c.3675A>G	c.(3673-3675)GCA>GCG	p.A1225A	PCDH9_uc010aei.2_RNA|PCDH9_uc001vil.2_Silent_p.A1191A|PCDH9_uc010thl.1_Silent_p.A1183A	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	1225	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		TAGCACCTCCTGCTTGCTTAT	0.443													5	92					0	0	0.021553	0	0		C	66878826	C	C	66878826	2	2	28	1	0	0	0	0	0	0	0	1	11537	1567	55	3		3	PCDH9	13	66878826	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	18043520	66878826	48291052	163	31059											
SLITRK6	84189	broad.mit.edu	37	chr13	86368894	86368894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgttgttgcaggagtggtgaCcataaggtaactagtctgtg	9	13	14	5	0	1	1	0	1	1	0	1	2	1	2	1	3	2	4	1	3	3	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr13:86368894C>T	uc001vll.1	-	2	2209	c.1750G>A	c.(1750-1752)GTC>ATC	p.V584I	SLITRK6_uc010afe.1_Intron	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	584	Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		GGAGTGGTGACCATAAGGTAA	0.408													14	102					0	0	0.11911	0	0		T	86368894	T	T	86368894	3	4	28	1	0	0	0	0	1	0	0	0	14772	507	18	4	779	4	SLITRK6	13	86368894	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	19490068	86368894	28800984	164	31060											
GPC6	10082	broad.mit.edu	37	chr13	93879749	93879749	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgattcttcccctcttgGggctgctgctctccctcccc	1	14	8	18	0	3	1	0	1	3	0	6	1	5	1	5	2	2	3	5	2	0	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr13:93879749G>C	uc001vlt.2	+	1	672	c.40G>C	c.(40-42)GGG>CGG	p.G14R	GPC6_uc010tig.1_Missense_Mutation_p.G14R	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	14						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				TCCCCTCTTGGGGCTGCTGCT	0.642											OREG0022460	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	81					0	0	0.014758	0	0		C	93879749	C	C	93879749	3	2	28	1	0	0	0	0	1	0	0	0	6617	1232	43	5	42	5	GPC6	13	93879749	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	7510855	93879749	21290129	165	31061											
NALCN	259232	broad.mit.edu	37	chr13	101710377	101710377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcctcgatccgacagcGtggggctcaggagctgctgc	5	9	13	14	3	1	0	1	0	0	0	5	3	4	1	3	3	4	3	3	3	0	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr13:101710377G>A	uc001vox.1	-	43	5126	c.4937C>T	c.(4936-4938)ACG>ATG	p.T1646M		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1646	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					ATCCGACAGCGTGGGGCTCAG	0.567													6	96					0	0	0.038147	0	0		A	101710377	A	A	101710377	3	1	28	1	0	0	0	0	1	0	0	0	10166	1145	40	1	287	1	NALCN	13	101710377	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	7830628	101710377	13459501	166	31062											
MYH6	4624	broad.mit.edu	37	chr14	23874326	23874326	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacgtgatgaggatggactgGttctcccgatctggaagaaa	11	9	13	8	2	2	3	0	2	2	1	3	7	2	6	1	4	0	1	1	4	2	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr14:23874326G>A	uc001wjv.2	-	6	580	c.513C>T	c.(511-513)AAC>AAT	p.N171N	MYH6_uc010akp.1_Silent_p.N171N	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	171	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GGATGGACTGGTTCTCCCGAT	0.597													7	76					0	0	0.038147	0	0		A	23874326	A	A	23874326	2	1	28	1	0	0	0	0	0	0	0	1	10056	1252	44	4		4	MYH6	14	23874326	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08		23874326	83475214	167	31063											
NOVA1	4857	broad.mit.edu	37	chr14	26918125	26918125	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcacagtagcacctcccttCcctattatcagacctgctgt	8	13	5	15	0	2	1	2	0	0	1	4	1	4	1	4	0	2	3	4	0	3	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr14:26918125C>T	uc001wpy.2	-	5	882	c.564G>A	c.(562-564)GGG>GGA	p.G188G	NOVA1_uc001wpz.2_Silent_p.G164G|NOVA1_uc001wqa.2_Silent_p.G66G	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	191	KH 2.				locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		CACCTCCCTTCCCTATTATCA	0.413													17	140					0	0	0.049695	0	0		T	26918125	T	T	26918125	2	4	28	1	0	0	0	0	0	0	0	1	10573	842	30	4		4	NOVA1	14	26918125	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	3043799	26918125	80431415	168	31064											
MDGA2	161357	broad.mit.edu	37	chr14	47566109	47566109	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtttcccacattattattGgcaatgcagctgtaagtacc	10	13	9	9	0	0	0	0	0	0	0	1	0	1	0	2	2	3	6	2	2	5	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr14:47566109G>T	uc001wwj.3	-	6	1132	c.936C>A	c.(934-936)GCC>GCA	p.A312A	MDGA2_uc001wwi.3_Silent_p.A83A|MDGA2_uc010ani.2_5'UTR	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	312	Ig-like 3.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CATTATTATTGGCAATGCAGC	0.438													16	99					1.15088e-07	1.21285e-07	0.146539	1	0		T	47566109	T	T	47566109	2	4	28	1	0	0	0	0	0	0	0	1	9425	1335	47	5		5	MDGA2	14	47566109	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	20647984	47566109	59783431	169	31065											
MARK3	4140	broad.mit.edu	37	chr14	103946722	103946722	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaaaaatgcccttttttatAgagtaacacagcatctggtg	14	12	7	8	0	1	1	0	0	1	1	1	1	1	1	1	1	3	2	1	1	5	5	rs144221506	by1000genomes	TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr14:103946722A>T	uc001ymz.3	+	14	2149	c.1483_splice	c.e14-2	p.S495_splice	MARK3_uc001ymx.3_Splice_Site_p.S495_splice|MARK3_uc001ymw.3_Splice_Site_p.S495_splice|MARK3_uc001yna.3_Splice_Site_p.S479_splice|MARK3_uc001ymy.3_Splice_Site_p.S416_splice|MARK3_uc010awp.2_Splice_Site_p.S518_splice|MARK3_uc010tyb.1_Splice_Site_p.S290_splice|MARK3_uc010awq.2_Splice_Site_p.S25_splice	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3								ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			CCTTTTTTATAGAGTAACACA	0.318													7	195					0	0	0.038147	0	0		T	103946722	T	T	103946722	5	4	28	1	0	0	0	0	0	0	1	0	9332	434	15	5	1535	5	MARK3	14	103946722	Splice_Site	SNP	A	TCGA-BR-6453-01A-11D-1800-08	56380613	103946722	3402818	170	31066											
SNRPN	6638	broad.mit.edu	37	chr15	25220656	25220656	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgagttcagaaagatcaAgtaaggctgatttgggcaaa	15	10	12	4	0	2	5	2	3	0	2	2	5	2	5	0	2	0	4	0	2	4	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr15:25220656A>C	uc001ywp.1	+	8	1045	c.155A>C	c.(154-156)AAG>ACG	p.K52T	SNRPN_uc001ywq.1_Missense_Mutation_p.K52T|SNRPN_uc001ywr.1_Missense_Mutation_p.K52T|SNRPN_uc001yws.1_Missense_Mutation_p.K52T|SNRPN_uc001ywt.1_Missense_Mutation_p.K52T|SNRPN_uc001ywv.1_Missense_Mutation_p.K55T|SNRPN_uc001yww.1_Missense_Mutation_p.K52T|SNRPN_uc001ywx.1_Missense_Mutation_p.K52T|SNRPN_uc001ywz.1_Intron|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	52					RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		AGAAAGATCAAGTAAGGCTGA	0.463									Prader-Willi_syndrome				15	99					0	0	0.0333	0	0		C	25220656	C	C	25220656	3	2	28	1	0	0	0	0	1	0	0	0	14895	86	3	5	161	5	SNRPN	15	25220656	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08		25220656	77310736	171	31067											
GABRA5	2558	broad.mit.edu	37	chr15	27128556	27128556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtttaaggggcccatgcagCgcctccctctcaacaacctc	8	8	9	16	1	1	0	1	0	1	0	4	0	2	0	4	3	4	2	4	3	3	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr15:27128556C>T	uc001zbd.1	+	7	688	c.349C>T	c.(349-351)CGC>TGC	p.R117C	GABRB3_uc001zbb.2_Intron	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	117	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GCCCATGCAGCGCCTCCCTCT	0.537													16	96					0	0	0.146539	0	0		T	27128556	T	T	27128556	3	4	28	1	0	0	0	0	1	0	0	0	6178	768	27	1	363	1	GABRA5	15	27128556	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	1907900	27128556	75402836	172	31068											
RYR3	6263	broad.mit.edu	37	chr15	33905387	33905387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttctttcctcaccaggccGgatacccagagctgtggctt	6	12	10	13	1	2	1	1	0	1	1	3	2	3	2	4	3	2	3	4	3	1	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr15:33905387G>A	uc001zhi.2	+	19	2238	c.2168G>A	c.(2167-2169)CGG>CAG	p.R723Q	RYR3_uc010bar.2_Missense_Mutation_p.R723Q	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	723	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TCACCAGGCCGGATACCCAGA	0.607													3	12					0	0	0.115264	0	0		A	33905387	A	A	33905387	3	1	28	1	0	0	0	0	1	0	0	0	13795	1116	39	1	2242	1	RYR3	15	33905387	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	6776831	33905387	68626005	173	31069											
RPUSD2	27079	broad.mit.edu	37	chr15	40866003	40866003	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catctacaactcagttgcctGgggtccttctcgaggccggg	6	10	12	13	2	3	0	1	0	2	0	5	1	4	0	3	4	3	1	3	4	2	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr15:40866003G>A	uc001zmd.1	+	3	1181	c.1181G>A	c.(1180-1182)TGG>TAG	p.W394*		NM_152260	NP_689473	Q8IZ73	RUSD2_HUMAN	RNA pseudouridylate synthase domain containing	394					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			skin(1)	1		all_cancers(109;2.74e-14)|all_epithelial(112;1.64e-11)|Lung NSC(122;6.69e-09)|all_lung(180;1.22e-07)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.1e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0786)		TCAGTTGCCTGGGGTCCTTCT	0.597													9	51					0	0	0.058154	0	0		A	40866003	A	A	40866003	4	1	28	1	0	0	0	0	0	1	0	0	13692	1357	47	4	1191	4	RPUSD2	15	40866003	Nonsense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	6960616	40866003	61665389	174	31070											
SECISBP2L	9728	broad.mit.edu	37	chr15	49325260	49325260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagctacatttttcaccagcGgccttttgctttttatgtgc	6	18	7	10	1	1	0	1	0	0	0	1	0	1	0	2	1	5	2	2	1	3	9			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr15:49325260G>A	uc001zxe.1	-	4	700	c.566C>T	c.(565-567)CCG>CTG	p.P189L	SECISBP2L_uc001zxd.1_Missense_Mutation_p.P189L|SECISBP2L_uc010bep.1_5'UTR|SECISBP2L_uc010beq.1_Missense_Mutation_p.P189L	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	189										breast(1)|skin(1)	2						TTTCACCAGCGGCCTTTTGCT	0.348													11	79					0	0	0.069234	0	0		A	49325260	A	A	49325260	3	1	28	1	0	0	0	0	1	0	0	0	14032	1116	39	1	2660	1	SECISBP2L	15	49325260	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	8459257	49325260	53206132	175	31071											
ATP8B4	79895	broad.mit.edu	37	chr15	50189507	50189507	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctgggctgagaaaccacaGaagaaaccaaaccagaaatg	19	3	9	10	0	0	4	0	1	0	4	0	5	0	4	4	1	3	1	4	1	5	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr15:50189507G>A	uc001zxu.2	-	23	2821	c.2679C>T	c.(2677-2679)TTC>TTT	p.F893F	ATP8B4_uc010ber.2_Silent_p.F766F|ATP8B4_uc010ufd.1_Silent_p.F703F|ATP8B4_uc010ufe.1_RNA|ATP8B4_uc001zxv.1_Silent_p.F191F	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	893	Extracellular (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		AGAAACCACAGAAGAAACCAA	0.299													17	131					0	0	0.038395	0	0		A	50189507	A	A	50189507	2	1	28	1	0	0	0	0	0	0	0	1	1198	933	33	4		4	ATP8B4	15	50189507	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	864247	50189507	52341885	176	31072											
RASGRF1	5923	broad.mit.edu	37	chr15	79356827	79356827	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctctgtcctcagctccaaGgctttctggttctcatggct	4	15	8	14	0	4	0	2	0	3	0	8	0	7	0	3	3	1	4	3	3	1	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr15:79356827G>T	uc002beq.2	-	2	693	c.318C>A	c.(316-318)GCC>GCA	p.A106A	RASGRF1_uc002bep.2_Silent_p.A106A|RASGRF1_uc010blm.1_Silent_p.A28A|RASGRF1_uc002ber.3_Silent_p.A106A	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	106	PH 1.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						TCAGCTCCAAGGCTTTCTGGT	0.512													18	142					1.64113e-05	1.70977e-05	0.055883	1	0		T	79356827	T	T	79356827	2	4	28	1	0	0	0	0	0	0	0	1	13097	987	35	5		5	RASGRF1	15	79356827	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	29167320	79356827	23174565	177	31073											
GRIN2A	2903	broad.mit.edu	37	chr16	9857275	9857275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatctcccaataaccaagcGttggtcatccctgtgggagt	9	10	10	12	1	2	0	1	0	1	0	4	1	3	1	3	2	2	2	3	2	3	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr16:9857275G>A	uc002czo.3	-	13	4674	c.4126C>T	c.(4126-4128)CGC>TGC	p.R1376C	GRIN2A_uc010uym.1_Missense_Mutation_p.R1376C|GRIN2A_uc010uyn.1_Silent_p.N1104N|GRIN2A_uc002czr.3_Silent_p.N1261N	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1376	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ATAACCAAGCGTTGGTCATCC	0.562													14	77					0	0	0.11911	0	0		A	9857275	A	A	9857275	3	1	28	1	0	0	0	0	1	0	0	0	6795	1145	40	1	272	1	GRIN2A	16	9857275	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08		9857275	80497478	178	31074											
IL21R	50615	broad.mit.edu	37	chr16	27460390	27460390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggactgccctggggtggccGgtcacctggaggggtctcag	4	7	19	11	1	2	0	2	0	1	0	3	2	2	2	3	8	1	0	3	8	0	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr16:27460390G>A	uc002doq.1	+	9	1636	c.1403G>A	c.(1402-1404)CGG>CAG	p.R468Q	IL21R_uc002dor.1_Missense_Mutation_p.R468Q|IL21R_uc002dos.1_Missense_Mutation_p.R468Q|uc002dot.2_RNA	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	468	Cytoplasmic (Potential).				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						TGGGGTGGCCGGTCACCTGGA	0.662			T	BCL6	NHL								5	36					0	0	0.014758	0	0		A	27460390	A	A	27460390	3	1	28	1	0	0	0	0	1	0	0	0	7687	1116	39	1	1433	1	IL21R	16	27460390	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	17603115	27460390	62894363	179	31075											
SRCAP	10847	broad.mit.edu	37	chr16	30727524	30727524	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacttcatggcacagaccacGtaagggaggaaggagggtgg	12	5	17	7	1	1	1	1	0	0	1	1	5	1	4	1	6	0	2	1	6	2	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr16:30727524G>A	uc002dze.1	+	17	3015	c.2630_splice	c.e17+1	p.T877_splice	SRCAP_uc002dzf.2_Splice_Site|SRCAP_uc002dzg.1_Splice_Site_p.T734_splice|SRCAP_uc010bzz.1_Splice_Site_p.T447_splice	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein						interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CACAGACCACGTAAGGGAGGA	0.507													19	119					0	0	0.049695	0	0		A	30727524	A	A	30727524	5	1	28	1	0	0	0	0	0	0	1	0	15160	1159	40	1	2689	1	SRCAP	16	30727524	Splice_Site	SNP	G	TCGA-BR-6453-01A-11D-1800-08	3267134	30727524	59627229	180	31076											
MYST1	84148	broad.mit.edu	37	chr16	31131665	31131665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccatacttacagttaacCggcggctggacgagtgggta	9	8	14	10	3	0	0	0	0	0	0	0	2	0	1	2	5	3	3	2	5	4	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr16:31131665C>T	uc002eay.2	+	3	310	c.292C>T	c.(292-294)CGG>TGG	p.R98W	MYST1_uc002eax.2_Missense_Mutation_p.R98W	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	98	Chromo.				histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						TACAGTTAACCGGCGGCTGGA	0.577													8	56					0	0	0.047766	0	0		T	31131665	T	T	31131665	3	4	28	1	0	0	0	0	1	0	0	0	10120	643	23	1	302	1	MYST1	16	31131665	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	404141	31131665	59223088	181	31077											
MT1H	4496	broad.mit.edu	37	chr16	56703730	56703730	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactgttgcgctccaccaCgccctccacgtgttccactg	6	9	7	19	3	0	0	0	0	0	0	3	0	3	0	6	0	2	3	6	0	1	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr16:56703730C>T	uc002ejw.2	+	1	5	c.-66C>T	c.(-68--64)CACGC>CATGC		MT1G_uc002eju.1_5'Flank|MT1G_uc002ejv.1_5'Flank	NM_005951	NP_005942	P80294	MT1H_HUMAN	metallothionein 1H								metal ion binding|protein binding				0						CGCTCCACCACGCCCTCCACG	0.627													15	31					0	0	0.132662	0	0		T	56703730	T	T	56703730	1	4	28	1	0	0	0	0	0	0	0	0	9920	551	19	1		1	MT1H	16	56703730	Translation_Start_Site	SNP	C	TCGA-BR-6453-01A-11D-1800-08	25572065	56703730	33651023	182	31078											
LCAT	3931	broad.mit.edu	37	chr16	67976469	67976469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaccagccctgcgagcttgCggtagtactcctcctgctgg	5	9	11	16	2	0	0	0	0	0	0	2	1	2	0	5	2	6	4	5	2	2	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr16:67976469C>T	uc002euy.1	-	5	556	c.545G>A	c.(544-546)CGC>CAC	p.R182H		NM_000229	NP_000220	P04180	LCAT_HUMAN	lecithin-cholesterol acyltransferase precursor	182			R -> C.		cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|high-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|reverse cholesterol transport|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein A-I binding|phosphatidylcholine-sterol O-acyltransferase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00418)|Epithelial(162;0.0183)|all cancers(182;0.12)		TGCGAGCTTGCGGTAGTACTC	0.637													4	63					0	0	0.014758	0	0		T	67976469	T	T	67976469	3	4	28	1	0	0	0	0	1	0	0	0	8674	768	27	1	785	1	LCAT	16	67976469	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	11272739	67976469	22378284	183	31079											
WWP2	11060	broad.mit.edu	37	chr16	69922098	69922098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagaggaacccagcacttCgggtacacagcagctcccag	12	4	12	13	1	0	1	0	0	0	1	2	3	1	2	2	3	5	4	2	3	2	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr16:69922098C>T	uc002exu.1	+	9	949	c.860C>T	c.(859-861)TCG>TTG	p.S287L	WWP2_uc002ext.2_Missense_Mutation_p.S287L|WWP2_uc002exv.1_Missense_Mutation_p.S287L|WWP2_uc010vlm.1_Missense_Mutation_p.S171L	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	287					entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						CCCAGCACTTCGGGTACACAG	0.617													15	56					0	0	0.038395	0	0		T	69922098	T	T	69922098	3	4	28	1	0	0	0	0	1	0	0	0	17442	893	31	1	886	1	WWP2	16	69922098	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	1945629	69922098	20432655	184	31080											
ITGAE	3682	broad.mit.edu	37	chr17	3631275	3631275	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtaatttggttgggacgcAaatttgcaactggtattctg	9	15	11	6	2	1	0	0	0	1	0	2	1	1	1	0	3	2	5	0	3	4	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr17:3631275A>T	uc002fwo.3	-	26	3121	c.3022T>A	c.(3022-3024)TGC>AGC	p.C1008S		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	1008	Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		GTTGGGACGCAAATTTGCAAC	0.433													5	92					0	0	0.014758	0	0		T	3631275	T	T	3631275	3	4	28	1	0	0	0	0	1	0	0	0	7901	130	5	5	541	5	ITGAE	17	3631275	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08		3631275	77563935	185	31081											
KCNAB3	9196	broad.mit.edu	37	chr17	7826435	7826435	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagactacttcttggaatgCggcttgtttcccaggagccc	8	11	10	12	1	1	1	0	0	1	1	2	3	2	3	2	3	3	2	2	3	2	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr17:7826435C>T	uc002gjm.1	-	14	1200	c.1200G>A	c.(1198-1200)CCG>CCA	p.P400P	KCNAB3_uc010vul.1_RNA	NM_004732	NP_004723	O43448	KCAB3_HUMAN	potassium voltage-gated channel, shaker-related	400						cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(1)	1		Prostate(122;0.157)				TCTTGGAATGCGGCTTGTTTC	0.677													5	83					0	0	0.014758	0	0		T	7826435	T	T	7826435	2	4	28	1	0	0	0	0	0	0	0	1	8027	755	27	1		1	KCNAB3	17	7826435	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	4195160	7826435	73368775	186	31082											
TEKT3	64518	broad.mit.edu	37	chr17	15211982	15211982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcccctcccaccttaccGtagctgagccatgtctcggc	5	10	7	19	2	1	1	0	1	1	0	4	1	3	1	7	1	3	2	7	1	2	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr17:15211982G>A	uc002gon.2	-	8	1442	c.1255C>T	c.(1255-1257)CGC>TGC	p.R419C		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	419	Potential.				microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		CCACCTTACCGTAGCTGAGCC	0.587													10	91					0	0	0.09319	0	0		A	15211982	A	A	15211982	3	1	28	1	0	0	0	0	1	0	0	0	15779	1159	40	1	225	1	TEKT3	17	15211982	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	7385547	15211982	65983228	187	31083											
UNC45B	146862	broad.mit.edu	37	chr17	33495277	33495277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctcatccatgcctccaCgaagctcagccgcgccacct	7	6	8	20	3	2	0	2	0	0	0	4	1	4	0	7	1	3	1	7	1	1	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr17:33495277C>T	uc002hja.2	+	10	1446	c.1349C>T	c.(1348-1350)ACG>ATG	p.T450M	UNC45B_uc002hjb.2_Missense_Mutation_p.T450M|UNC45B_uc002hjc.2_Missense_Mutation_p.T450M|UNC45B_uc010cto.2_Missense_Mutation_p.T450M	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	450					cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				CATGCCTCCACGAAGCTCAGC	0.552													12	66					0	0	0.09319	0	0		T	33495277	T	T	33495277	3	4	28	1	0	0	0	0	1	0	0	0	17015	536	19	1	1383	1	UNC45B	17	33495277	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	18283295	33495277	47699933	188	31084											
TMEM99	147184	broad.mit.edu	37	chr17	38990822	38990822	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtcccctcgctctgttgTtccagctatgtgccctctgt	2	16	9	14	1	2	0	0	0	2	0	5	0	4	0	4	0	2	4	4	0	1	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr17:38990822T>C	uc002hvj.1	+	3	361	c.54T>C	c.(52-54)TGT>TGC	p.C18C		NM_145274	NP_660317	Q8N816	TMM99_HUMAN	transmembrane protein 99 precursor	18						integral to membrane				skin(1)	1		Breast(137;0.000301)				CGCTCTGTTGTTCCAGCTATG	0.557													10	69					0	0	0.09319	0	0		C	38990822	C	C	38990822	2	2	28	1	0	0	0	0	0	0	0	1	16251	1731	60	3		3	TMEM99	17	38990822	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	5495545	38990822	42204388	189	31085											
KIF2B	84643	broad.mit.edu	37	chr17	51901928	51901928	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctttataggccagaacTcctccacttgcatgattgct	9	13	6	13	0	0	2	0	1	0	1	3	2	3	2	4	1	3	2	4	1	3	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr17:51901928T>G	uc002iua.2	+	1	1690	c.1534T>G	c.(1534-1536)TCC>GCC	p.S512A	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	512					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						AGGCCAGAACTCCTCCACTTG	0.448													10	70					0	0	0.058154	0	0		G	51901928	G	G	51901928	3	3	28	1	0	0	0	0	1	0	0	0	8314	1551	54	5	1536	5	KIF2B	17	51901928	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	12911106	51901928	29293282	190	31086											
CCDC46	201134	broad.mit.edu	37	chr17	64059183	64059183	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgataacttgacagtcAcgtatcagtgtctgaactgt	10	14	8	9	1	4	3	2	3	2	0	5	3	4	3	0	0	2	1	0	0	3	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr17:64059183A>C	uc002jfl.2	-	11	1191	c.972T>G	c.(970-972)CGT>CGG	p.R324R	CCDC46_uc010deo.2_Silent_p.R66R|CCDC46_uc002jfm.2_Silent_p.R324R|CCDC46_uc010dep.2_Silent_p.R282R	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	324	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			CTTGACAGTCACGTATCAGTG	0.333													5	45					0	0	0.021553	0	0		C	64059183	C	C	64059183	2	2	28	1	0	0	0	0	0	0	0	1	2820	146	6	5		5	CCDC46	17	64059183	Silent	SNP	A	TCGA-BR-6453-01A-11D-1800-08	12157255	64059183	17136027	191	31087											
ABCA5	23461	broad.mit.edu	37	chr17	67300886	67300886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaataacaaagaagctgtcGcaatgactgccataagaagg	18	6	10	7	1	0	3	0	1	0	2	1	4	0	3	1	1	3	2	1	1	7	2	rs140650277	byFrequency	TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr17:67300886G>A	uc002jif.2	-	6	2072	c.854C>T	c.(853-855)GCG>GTG	p.A285V	ABCA5_uc002jie.2_5'Flank|ABCA5_uc002jig.2_Missense_Mutation_p.A285V|ABCA5_uc002jih.2_Missense_Mutation_p.A285V|ABCA5_uc010dfe.2_Missense_Mutation_p.A285V	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	285					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					AGAAGCTGTCGCAATGACTGC	0.323													21	67					0	0	0.055883	0	0		A	67300886	A	A	67300886	3	1	28	1	0	0	0	0	1	0	0	0	35	1087	38	1	4206	1	ABCA5	17	67300886	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	3241703	67300886	13894324	192	31088											
ITGB4	3691	broad.mit.edu	37	chr17	73727404	73727404	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaggtcacctccaagatgttCcagaagacgaggactgggtc	11	7	13	10	1	1	3	1	0	0	3	4	6	3	4	3	3	0	1	3	3	2	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr17:73727404C>T	uc002jpg.2	+	10	1357	c.1170C>T	c.(1168-1170)TTC>TTT	p.F390F	ITGB4_uc002jph.2_Silent_p.F390F|ITGB4_uc010dgo.2_Silent_p.F390F|ITGB4_uc002jpi.3_Silent_p.F390F|ITGB4_uc010dgp.1_Silent_p.F390F|ITGB4_uc002jpj.2_Silent_p.F390F|ITGB4_uc010wsh.1_5'Flank	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	390	Extracellular (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			CCAAGATGTTCCAGAAGACGA	0.642													8	71					0	0	0.047766	0	0		T	73727404	T	T	73727404	2	4	28	1	0	0	0	0	0	0	0	1	7913	854	30	4		4	ITGB4	17	73727404	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	6426518	73727404	7467806	193	31089											
UBE2O	63893	broad.mit.edu	37	chr17	74396572	74396572	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggggggctgacgctgtcCgtgccccctggacagaaact	6	7	16	12	2	0	2	0	1	0	1	1	3	1	3	3	5	2	2	3	5	1	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr17:74396572C>T	uc002jrm.3	-	7	1019	c.954G>A	c.(952-954)ACG>ACA	p.T318T	UBE2O_uc002jrn.3_Silent_p.T318T|UBE2O_uc002jrl.3_5'Flank	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	318							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						TGACGCTGTCCGTGCCCCCTG	0.602													3	38					0	0	0.115264	0	0		T	74396572	T	T	74396572	2	4	28	1	0	0	0	0	0	0	0	1	16894	639	23	1		1	UBE2O	17	74396572	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	669168	74396572	6798638	194	31090											
COLEC12	81035	broad.mit.edu	37	chr18	333120	333120	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagtagcatttgtctgtgaAgttcttccagtgaggcgggc	8	13	13	7	1	2	2	0	2	2	0	3	2	3	2	1	2	1	3	1	2	3	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr18:333120A>C	uc002kkm.2	-	7	2055	c.1840T>G	c.(1840-1842)TTC>GTC	p.F614V		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	614	Extracellular (Potential).|C-type lectin.				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				TTGTCTGTGAAGTTCTTCCAG	0.388													15	72					0	0	0.043863	0	0		C	333120	C	C	333120	3	2	28	1	0	0	0	0	1	0	0	0	3715	72	3	5	404	5	COLEC12	18	333120	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08		333120	77744128	195	31091											
LAMA1	284217	broad.mit.edu	37	chr18	7050779	7050779	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaggtgggtggccctcgtcTtggagttatattgtaacgag	7	13	15	6	2	1	0	0	0	1	0	2	2	1	1	1	4	1	3	1	4	4	6			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr18:7050779T>C	uc002knm.2	-	4	596	c.502A>G	c.(502-504)AGA>GGA	p.R168G	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	168	Laminin N-terminal.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGCCCTCGTCTTGGAGTTATA	0.512													8	55					0	0	0.038147	0	0		C	7050779	C	C	7050779	3	2	28	1	0	0	0	0	1	0	0	0	8621	1617	56	3	8965	3	LAMA1	18	7050779	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	6717659	7050779	71026469	196	31092											
LRRC30	339291	broad.mit.edu	37	chr18	7231390	7231390	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctcacaaccagctccgggTtctccctcccgaggtgggga	6	8	12	15	2	2	0	1	0	2	0	6	2	4	1	4	4	2	2	4	4	1	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr18:7231390T>G	uc010wzk.1	+	1	254	c.254T>G	c.(253-255)GTT>GGT	p.V85G		NM_001105581	NP_001099051	A6NM36	LRC30_HUMAN	leucine rich repeat containing 30	85	LRR 1.									ovary(1)|liver(1)	2						CAGCTCCGGGTTCTCCCTCCC	0.587													11	47					0	0	0.069234	0	0		G	7231390	G	G	7231390	3	3	28	1	0	0	0	0	1	0	0	0	9003	1725	60	5	256	5	LRRC30	18	7231390	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	180611	7231390	70845858	197	31093											
ASXL3	80816	broad.mit.edu	37	chr18	31319840	31319840	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctcctgaagcatttccGtctgaagatttgcacaataa	12	13	7	9	1	1	3	0	2	1	1	3	3	3	3	2	0	3	3	2	0	4	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr18:31319840G>A	uc010dmg.1	+	11	2527	c.2472G>A	c.(2470-2472)CCG>CCA	p.P824P	ASXL3_uc002kxq.2_Silent_p.P531P	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	824					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						AAGCATTTCCGTCTGAAGATT	0.448													7	44					0	0	0.047766	0	0		A	31319840	A	A	31319840	2	1	28	1	0	0	0	0	0	0	0	1	1069	1132	40	1		1	ASXL3	18	31319840	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08	24088450	31319840	46757408	198	31094											
RIT2	6014	broad.mit.edu	37	chr18	40323518	40323518	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttcttccacaggctgtcTtttctcttcagtttcttttc	4	20	5	12	0	5	0	1	0	4	0	8	0	6	0	1	1	1	3	1	1	0	8			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr18:40323518T>G	uc002lav.2	-	5	767	c.594A>C	c.(592-594)AAA>AAC	p.K198N	RIT2_uc010dnf.2_3'UTR	NM_002930	NP_002921	Q99578	RIT2_HUMAN	Ras-like without CAAX 2	198					nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1						ACAGGCTGTCTTTTCTCTTCA	0.398													24	179					0	0	0.125774	0	0		G	40323518	G	G	40323518	3	3	28	1	0	0	0	0	1	0	0	0	13412	1606	56	5	63	5	RIT2	18	40323518	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	9003678	40323518	37753730	199	31095											
MUC16	94025	broad.mit.edu	37	chr19	9086015	9086015	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatgaaaaaggcaatgttaAgcttatggccctgtttccag	12	11	11	7	0	0	1	0	1	0	0	1	2	1	2	2	3	1	4	2	3	5	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:9086015A>C	uc002mkp.2	-	1	6004	c.5800T>G	c.(5800-5802)TTA>GTA	p.L1934V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1934	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGCAATGTTAAGCTTATGGCC	0.483													8	70					0	0	0.038147	0	0		C	9086015	C	C	9086015	3	2	28	1	0	0	0	0	1	0	0	0	9991	69	3	5	38059	5	MUC16	19	9086015	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08		9086015	50042968	200	31096											
CPAMD8	27151	broad.mit.edu	37	chr19	17091456	17091456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtacagggtaaagttgcagGgacatgtggacttcacagaa	14	8	13	6	0	1	1	1	0	0	1	1	3	1	3	0	3	2	4	0	3	4	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:17091456G>A	uc002nfb.2	-	14	1609	c.1577C>T	c.(1576-1578)CCC>CTC	p.P526L		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	479						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						AAAGTTGCAGGGACATGTGGA	0.582													12	124					0	0	0.11911	0	0		A	17091456	A	A	17091456	3	1	28	1	0	0	0	0	1	0	0	0	3798	1232	43	4	4337	4	CPAMD8	19	17091456	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	8005441	17091456	42037527	201	31097											
CILP2	148113	broad.mit.edu	37	chr19	19655627	19655627	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgagcaggtggagggcgTggtggtcacgctggtcaatc	7	7	18	9	3	2	0	2	0	0	0	3	2	2	1	0	6	2	2	0	6	1	0			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:19655627T>C	uc002nmv.3	+	8	2358	c.2273T>C	c.(2272-2274)GTG>GCG	p.V758A	CILP2_uc002nmw.3_Missense_Mutation_p.V764A	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	758						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						GTGGAGGGCGTGGTGGTCACG	0.697													7	19					0	0	0.038147	0	0		C	19655627	C	C	19655627	3	2	28	1	0	0	0	0	1	0	0	0	3433	1696	59	3	2303	3	CILP2	19	19655627	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	2564171	19655627	39473356	202	31098											
ZNF486	90649	broad.mit.edu	37	chr19	20308606	20308606	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagccttcacccgctccTcacaccttactatgcataag	11	9	5	16	1	2	0	2	0	0	0	3	0	3	0	4	0	3	3	4	0	4	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:20308606T>C	uc002nou.2	+	4	1144	c.1087T>C	c.(1087-1089)TCA>CCA	p.S363P		NM_052852	NP_443084	Q96H40	ZN486_HUMAN	zinc finger protein 486	363	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CACCCGCTCCTCACACCTTAC	0.418													9	39					0	0	0.069234	0	0		C	20308606	C	C	20308606	3	2	28	1	0	0	0	0	1	0	0	0	17964	1551	54	3	1101	3	ZNF486	19	20308606	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	652979	20308606	38820377	203	31099											
ZNF43	7594	broad.mit.edu	37	chr19	21992583	21992583	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatatgctgctctggccaaaAgtcttgggtaaaatgagaac	13	11	10	7	0	2	1	0	1	2	1	2	2	2	1	1	2	3	3	1	2	7	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:21992583A>C	uc002nqj.2	-	4	386	c.256T>G	c.(256-258)TTT>GTT	p.F86V	ZNF43_uc010ecv.2_Missense_Mutation_p.F80V|ZNF43_uc002nql.2_Missense_Mutation_p.F80V|ZNF43_uc002nqm.2_Missense_Mutation_p.F80V|ZNF43_uc002nqk.2_Missense_Mutation_p.F16V	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	86					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		TCTGGCCAAAAGTCTTGGGTA	0.279													9	111					0	0	0.058154	0	0		C	21992583	C	C	21992583	3	2	28	1	0	0	0	0	1	0	0	0	17928	72	3	5	2177	5	ZNF43	19	21992583	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	1683977	21992583	37136400	204	31100											
ZNF99	7652	broad.mit.edu	37	chr19	22941726	22941726	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaattatctgatgttttcTaagggctgagaaatggttaa	13	15	10	3	0	2	3	0	3	2	1	2	4	2	3	0	2	0	3	0	2	5	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:22941726T>C	uc010xrh.1	-	5	712	c.712A>G	c.(712-714)AGA>GGA	p.R238G		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				TGATGTTTTCTAAGGGCTGAG	0.383													8	75					0	0	0.038147	0	0		C	22941726	C	C	22941726	3	2	28	1	0	0	0	0	1	0	0	0	18229	1530	53	3	2412	3	ZNF99	19	22941726	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	949143	22941726	36187257	205	31101											
CEBPA	1050	broad.mit.edu	37	chr19	33792337	33792337	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcgcggctcagctgttcCacccgcttgcgcaggcggtc	4	9	13	15	5	1	0	1	0	0	0	4	0	2	0	2	3	2	6	2	3	0	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:33792337C>T	uc002nun.2	-	1	1094	c.984G>A	c.(982-984)GTG>GTA	p.V328V	LOC80054_uc002nuo.2_5'Flank	NM_004364	NP_004355	P49715	CEBPA_HUMAN	CCAAT/enhancer binding protein alpha	328	Leucine-zipper.				cytokine-mediated signaling pathway|generation of precursor metabolites and energy|interspecies interaction between organisms|positive regulation of transcription from RNA polymerase III promoter		sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding	p.D322_V328del(1)|p.H200_K352>Q(1)|p.?(1)		haematopoietic_and_lymphoid_tissue(728)|lung(4)|stomach(1)|prostate(1)	734	Esophageal squamous(110;0.137)					TCAGCTGTTCCACCCGCTTGC	0.662			Mis|N|F		AML|MDS				Acute_Myeloid_Leukemia_Familial_associated_with_CEBPA_germline_mutation				8	26					0	0	0.038147	0	0		T	33792337	T	T	33792337	2	4	28	1	0	0	0	0	0	0	0	1	3202	581	21	4		4	CEBPA	19	33792337	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	10850611	33792337	25336646	206	31102											
SNRPA	6626	broad.mit.edu	37	chr19	41263238	41263238	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttttcccccactgcagaGctaaaaaagtccctgtacgc	10	12	6	13	1	0	1	0	0	0	1	2	1	2	1	3	0	3	3	3	0	4	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:41263238G>C	uc002ooz.2	+	2	610	c.75G>C	c.(73-75)GAG>GAC	p.E25D	SNRPA_uc002opa.2_5'UTR	NM_004596	NP_004587	P09012	SNRPA_HUMAN	small nuclear ribonucleoprotein polypeptide A	25	RRM 1.					nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding			skin(2)|ovary(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			CCACTGCAGAGCTAAAAAAGT	0.507													7	45					0	0	0.02938	0	0		C	41263238	C	C	41263238	3	2	28	1	0	0	0	0	1	0	0	0	14884	985	34	5	81	5	SNRPA	19	41263238	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	7470901	41263238	17865745	207	31103											
PSG5	5673	broad.mit.edu	37	chr19	43680148	43680148	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcctgttttcaatgggtcGctttaccctgggactgaccg	6	13	11	11	2	1	1	1	1	0	0	3	3	2	2	3	2	1	2	3	2	2	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:43680148G>A	uc002ovu.2	-	3	714	c.583C>T	c.(583-585)CGA>TGA	p.R195*	PSG6_uc010xwk.1_Intron|PSG5_uc010eir.2_Intron|PSG5_uc002ovx.2_Nonsense_Mutation_p.R195*|PSG5_uc002ovv.2_Nonsense_Mutation_p.R288*|PSG5_uc002ovw.2_Intron	NM_002781	NP_002772	Q15238	PSG5_HUMAN	pregnancy specific beta-1-glycoprotein 5	195	Ig-like C2-type 1.			R -> Q (in Ref. 1; no nucleotide entry and 5; AAH12607).	female pregnancy	extracellular region				skin(3)	3		Prostate(69;0.00899)				TCAATGGGTCGCTTTACCCTG	0.493													25	221					0	0	0.064281	0	0		A	43680148	A	A	43680148	4	1	28	1	0	0	0	0	0	1	0	0	12680	1095	38	1	436	1	PSG5	19	43680148	Nonsense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	2416910	43680148	15448835	208	31104											
FPR2	2358	broad.mit.edu	37	chr19	52272262	52272262	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagtgtcttcttgattggTttcattgcactggaccgctg	6	15	12	8	1	3	1	1	1	2	0	3	3	3	3	1	3	1	3	1	3	1	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:52272262T>G	uc002pxr.2	+	2	396	c.351T>G	c.(349-351)GGT>GGG	p.G117G	FPR2_uc002pxs.3_Silent_p.G117G|FPR2_uc010epf.2_Silent_p.G117G	NM_001005738	NP_001005738	P25090	FPR2_HUMAN	formyl peptide receptor-like 1	117	Helical; Name=3; (Potential).				cell adhesion|cellular component movement|chemotaxis|inflammatory response	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(3)|ovary(1)	4						TCTTGATTGGTTTCATTGCAC	0.512													12	80					0	0	0.09319	0	0		G	52272262	G	G	52272262	2	3	28	1	0	0	0	0	0	0	0	1	6053	1712	60	5		5	FPR2	19	52272262	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	8592114	52272262	6856721	209	31105											
ZNF649	65251	broad.mit.edu	37	chr19	52394692	52394692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acacaagctacacccgtgggGtttctctcctctgtgagctc	7	11	9	14	1	2	1	0	1	2	0	5	1	3	1	2	2	3	3	2	2	2	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:52394692G>A	uc002pxy.2	-	5	965	c.697C>T	c.(697-699)CCC>TCC	p.P233S	ZNF577_uc010ydf.1_5'Flank	NM_023074	NP_075562	Q9BS31	ZN649_HUMAN	zinc finger protein 649	233					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00152)|OV - Ovarian serous cystadenocarcinoma(262;0.0185)		CACCCGTGGGGTTTCTCTCCT	0.507													26	147					0	0	0.099896	0	0		A	52394692	A	A	52394692	3	1	28	1	0	0	0	0	1	0	0	0	18089	1261	44	4	824	4	ZNF649	19	52394692	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	122430	52394692	6734291	210	31106											
NLRP7	199713	broad.mit.edu	37	chr19	55450806	55450806	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaaggagtagcagccttTggagactctgtcctggcgga	9	9	15	8	1	1	2	0	1	1	1	2	6	2	4	2	4	2	2	2	4	2	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:55450806T>G	uc002qih.3	-	4	1457	c.1381A>C	c.(1381-1383)AAA>CAA	p.K461Q	NLRP7_uc002qig.3_Missense_Mutation_p.K461Q|NLRP7_uc002qii.3_Missense_Mutation_p.K461Q|NLRP7_uc010esk.2_Missense_Mutation_p.K461Q|NLRP7_uc010esl.2_Missense_Mutation_p.K489Q	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	461	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		TAGCAGCCTTTGGAGACTCTG	0.622													5	45					0	0	0.047766	0	0		G	55450806	G	G	55450806	3	3	28	1	0	0	0	0	1	0	0	0	10501	1821	63	5	1764	5	NLRP7	19	55450806	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	3056114	55450806	3678177	211	31107											
ZSCAN1	284312	broad.mit.edu	37	chr19	58565060	58565060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtgggccccgaggtgggCggcccttccagtgtgccgac	3	6	17	15	5	0	0	0	0	0	0	1	2	1	0	5	4	1	0	5	4	0	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr19:58565060C>T	uc002qrc.1	+	6	1115	c.868C>T	c.(868-870)CGG>TGG	p.R290W		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	290					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		CCGAGGTGGGCGGCCCTTCCA	0.652													4	66					0	0	0.009096	0	0		T	58565060	T	T	58565060	3	4	28	1	0	0	0	0	1	0	0	0	18251	759	27	1	882	1	ZSCAN1	19	58565060	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	3114254	58565060	563923	212	31108											
NOP56	10528	broad.mit.edu	37	chr20	2635158	2635158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggatcccaagattggtgccGcaatacaggaggagttaggg	11	7	16	7	1	0	1	0	0	0	1	1	4	1	4	2	5	2	2	2	5	4	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr20:2635158G>A	uc002wgh.2	+	4	360	c.307G>A	c.(307-309)GCA>ACA	p.A103T	NOP56_uc010zpy.1_RNA|NOP56_uc002wgi.2_5'UTR|SNORA51_uc002wgk.1_5'Flank|NOP56_uc002wgm.1_5'Flank|SNORD86_uc010gaq.1_5'Flank|SNORD56_uc010gar.2_5'Flank|SNORD57_uc002wgo.1_5'Flank	NM_006392	NP_006383	O00567	NOP56_HUMAN	nucleolar protein 5A	103					rRNA processing	box C/D snoRNP complex|pre-snoRNP complex	protein binding|snoRNA binding			ovary(1)|pancreas(1)	2						GATTGGTGCCGCAATACAGGA	0.517													4	130					0	0	0.009096	0	0		A	2635158	A	A	2635158	3	1	28	1	0	0	0	0	1	0	0	0	10558	1087	38	1	321	1	NOP56	20	2635158	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08		2635158	60390362	213	31109											
SLC32A1	140679	broad.mit.edu	37	chr20	37356678	37356678	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctcagatcttcctgccttCgctggagggcaatatgcagc	7	11	11	12	1	2	1	1	0	2	1	5	2	3	2	2	2	3	3	2	2	2	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr20:37356678C>T	uc002xjc.2	+	2	1237	c.974C>T	c.(973-975)TCG>TTG	p.S325L		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	325	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	TTCCTGCCTTCGCTGGAGGGC	0.572													17	52					0	0	0.0333	0	0		T	37356678	T	T	37356678	3	4	28	1	0	0	0	0	1	0	0	0	14590	893	31	1	980	1	SLC32A1	20	37356678	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	34721520	37356678	25668842	214	31110											
ADRBK2	157	broad.mit.edu	37	chr22	26100174	26100174	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctgggctgtcacggaggCgggtaggccattgttcctgc	4	9	17	11	3	1	0	1	0	0	0	2	1	2	1	2	6	1	4	2	6	1	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr22:26100174C>T	uc003abx.3	+	15	1473	c.1326C>T	c.(1324-1326)GGC>GGT	p.G442G	ADRBK2_uc010gux.2_Silent_p.G442G|ADRBK2_uc003abw.2_Silent_p.G329G|ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	442	Protein kinase.						ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	GTCACGGAGGCGGGTAGGCCA	0.463													6	74					0	0	0.021553	0	0		T	26100174	T	T	26100174	2	4	28	1	0	0	0	0	0	0	0	1	344	755	27	1		1	ADRBK2	22	26100174	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08		26100174	25204392	215	31111											
ZMAT5	55954	broad.mit.edu	37	chr22	30136716	30136716	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggagccaaagtcgcacTggcctgcagcaggaagacag	12	5	14	10	1	0	1	0	0	0	1	1	3	0	3	2	3	3	4	2	3	2	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr22:30136716T>G	uc003agm.2	-	5	445	c.194A>C	c.(193-195)CAG>CCG	p.Q65P	ZMAT5_uc003agn.2_Missense_Mutation_p.Q65P	NM_019103	NP_061976	Q9UDW3	ZMAT5_HUMAN	zinc finger, matrin type 5	65	C3H1-type.				mRNA processing	cytoplasm|U12-type spliceosomal complex	nucleic acid binding|zinc ion binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(5;0.000597)|all cancers(5;0.0534)|Epithelial(10;0.0574)			AAAGTCGCACTGGCCTGCAGC	0.622													3	17					0	0	0.115264	0	0		G	30136716	G	G	30136716	3	3	28	1	0	0	0	0	1	0	0	0	17720	1580	55	5	330	5	ZMAT5	22	30136716	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	4036542	30136716	21167850	216	31112											
TMPRSS6	164656	broad.mit.edu	37	chr22	37482353	37482353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccggctgcacggagagcaCgaaggggtcgtagtagctgt	9	6	16	10	4	0	1	0	0	0	1	1	3	0	1	1	4	3	6	1	4	3	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr22:37482353C>T	uc003aqs.1	-	8	1084	c.970G>A	c.(970-972)GTG>ATG	p.V324M	TMPRSS6_uc003aqt.1_Missense_Mutation_p.V315M|TMPRSS6_uc003aqu.2_Missense_Mutation_p.V315M	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	324	CUB 1.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						ACGGAGAGCACGAAGGGGTCG	0.677													3	33					0	0	0.014758	0	0		T	37482353	T	T	37482353	3	4	28	1	0	0	0	0	1	0	0	0	16276	536	19	1	1509	1	TMPRSS6	22	37482353	Missense_Mutation	SNP	C	TCGA-BR-6453-01A-11D-1800-08	7345637	37482353	13822213	217	31113											
CACNA1I	8911	broad.mit.edu	37	chr22	40055734	40055734	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggactggaacgtcgttctCtacaatggcatggcctccac	9	9	11	12	2	1	0	0	0	1	0	4	3	2	2	2	4	2	2	2	4	3	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr22:40055734C>T	uc003ayc.2	+	14	2481	c.2481C>T	c.(2479-2481)CTC>CTT	p.L827L	CACNA1I_uc003ayd.2_Silent_p.L792L|CACNA1I_uc003aye.2_Silent_p.L742L|CACNA1I_uc003ayf.2_Silent_p.L707L	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	827	Extracellular (Potential).|II.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	ACGTCGTTCTCTACAATGGCA	0.582													15	151					0	0	0.146539	0	0		T	40055734	T	T	40055734	2	4	28	1	0	0	0	0	0	0	0	1	2549	900	32	4		4	CACNA1I	22	40055734	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	2573381	40055734	11248832	218	31114											
MPPED1	758	broad.mit.edu	37	chr22	43831011	43831011	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctacacccgcttcgtctgCgtctctgatacccactcgag	6	10	9	16	4	2	1	0	1	2	0	5	2	2	1	2	1	3	2	2	1	2	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chr22:43831011C>T	uc011apv.1	+	3	505	c.282C>T	c.(280-282)TGC>TGT	p.C94C	MPPED1_uc011apw.1_5'UTR|MPPED1_uc011apx.1_Intron|MPPED1_uc011apy.1_Silent_p.C94C|MPPED1_uc011apz.1_Silent_p.C127C	NM_001044370	NP_001037835	O15442	MPPD1_HUMAN	metallophosphoesterase domain containing 1	94							hydrolase activity				0		all_neural(38;0.0244)|Ovarian(80;0.0694)				GCTTCGTCTGCGTCTCTGATA	0.652													19	126					0	0	0.069288	0	0		T	43831011	T	T	43831011	2	4	28	1	0	0	0	0	0	0	0	1	9759	776	27	1		1	MPPED1	22	43831011	Silent	SNP	C	TCGA-BR-6453-01A-11D-1800-08	3775277	43831011	7473555	219	31115											
ZNF674	641339	broad.mit.edu	37	chrX	46359574	46359574	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctctgatgtttaatcaGtggtgacttctcactaaagg	11	15	8	7	0	3	2	2	2	2	0	5	2	3	2	0	2	0	1	0	2	4	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chrX:46359574G>A	uc004dgr.2	-	6	1677	c.1450C>T	c.(1450-1452)CTG>TTG	p.L484L	ZNF674_uc011mlg.1_Silent_p.L478L	NM_001039891	NP_001034980	Q2M3X9	ZN674_HUMAN	zinc finger family member 674 isoform 1	484	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)	2						TGTTTAATCAGTGGTGACTTC	0.413													10	28					0	0	0.069234	0	0		A	46359574	A	A	46359574	2	1	28	1	0	0	0	0	0	0	0	1	18106	1020	36	4		4	ZNF674	23	46359574	Silent	SNP	G	TCGA-BR-6453-01A-11D-1800-08		46359574	108910986	220	31116											
FAM123B	139285	broad.mit.edu	37	chrX	63410103	63410103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggtgtaggtgtgagggacGagctagttgaggcccagatt	9	9	17	6	1	0	3	0	2	0	1	0	5	0	4	1	4	1	3	1	4	2	4			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chrX:63410103G>A	uc004dvo.2	-	2	3337	c.3064C>T	c.(3064-3066)CGT>TGT	p.R1022C		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	1022	Pro-rich.				Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						TGTGAGGGACGAGCTAGTTGA	0.567													8	23					0	0	0.047766	0	0		A	63410103	A	A	63410103	3	1	28	1	0	0	0	0	1	0	0	0	5434	1058	37	1	347	1	FAM123B	23	63410103	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	17050529	63410103	91860457	221	31117											
FAM46D	169966	broad.mit.edu	37	chrX	79698310	79698310	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgttatttttggtgttgagcTtccaggtaacgaagaatttc	9	16	10	6	2	0	2	0	1	0	1	2	3	1	2	1	2	2	4	1	2	4	7			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chrX:79698310T>A	uc004edl.1	+	5	606	c.272T>A	c.(271-273)CTT>CAT	p.L91H	FAM46D_uc004edm.1_Missense_Mutation_p.L91H	NM_152630	NP_689843	Q8NEK8	FA46D_HUMAN	hypothetical protein LOC169966	91										lung(2)	2						GGTGTTGAGCTTCCAGGTAAC	0.393													13	46					0	0	0.105934	0	0		A	79698310	A	A	79698310	3	1	28	1	0	0	0	0	1	0	0	0	5582	1609	56	5	274	5	FAM46D	23	79698310	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	16288207	79698310	75572250	222	31118											
PCDH11X	27328	broad.mit.edu	37	chrX	91131988	91131988	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacaaccacccagtctttaAggagacagagattgaagtca	15	8	9	9	0	2	4	1	2	1	2	2	6	2	4	2	1	1	0	2	1	3	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chrX:91131988A>C	uc004efk.1	+	2	1594	c.749A>C	c.(748-750)AAG>ACG	p.K250T	PCDH11X_uc004efl.1_Missense_Mutation_p.K250T|PCDH11X_uc004efo.1_Missense_Mutation_p.K250T|PCDH11X_uc010nmv.1_Missense_Mutation_p.K250T|PCDH11X_uc004efm.1_Missense_Mutation_p.K250T|PCDH11X_uc004efn.1_Missense_Mutation_p.K250T|PCDH11X_uc004efh.1_Missense_Mutation_p.K250T|PCDH11X_uc004efj.1_Missense_Mutation_p.K250T	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	250	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CCAGTCTTTAAGGAGACAGAG	0.428													19	53					0	0	0.062417	0	0		C	91131988	C	C	91131988	3	2	28	1	0	0	0	0	1	0	0	0	11527	72	3	5	755	5	PCDH11X	23	91131988	Missense_Mutation	SNP	A	TCGA-BR-6453-01A-11D-1800-08	11433678	91131988	64138572	223	31119											
COL4A6	1288	broad.mit.edu	37	chrX	107430498	107430498	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcacctgggaagccctgTccaccatcaccctagacaac	10	9	6	16	0	2	1	2	0	0	1	3	2	3	2	5	1	2	0	5	1	3	3			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chrX:107430498T>C	uc004enw.3	-	23	1885	c.1782A>G	c.(1780-1782)GGA>GGG	p.G594G	COL4A6_uc004env.3_Silent_p.G593G|COL4A6_uc011msn.1_Silent_p.G593G|COL4A6_uc010npk.2_Silent_p.G593G	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	594	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						GGAAGCCCTGTCCACCATCAC	0.488									Alport_syndrome_with_Diffuse_Leiomyomatosis				14	49					0	0	0.146539	0	0		C	107430498	C	C	107430498	2	2	28	1	0	0	0	0	0	0	0	1	3698	1654	58	3		3	COL4A6	23	107430498	Silent	SNP	T	TCGA-BR-6453-01A-11D-1800-08	16298510	107430498	47840062	224	31120											
IRS4	8471	broad.mit.edu	37	chrX	107975834	107975834	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgggagagtcgaactgattAtcacgtctggcaaaatccat	12	11	10	8	2	2	2	1	1	1	1	4	4	3	2	1	2	1	1	1	2	4	2			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chrX:107975834A>G	uc004eoc.2	-	1	3774	c.3741T>C	c.(3739-3741)GAT>GAC	p.D1247D		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	1247						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						CGAACTGATTATCACGTCTGG	0.473													5	103					0	0	0.014758	0	0		G	107975834	G	G	107975834	2	3	28	1	0	0	0	0	0	0	0	1	7858	446	16	3		3	IRS4	23	107975834	Silent	SNP	A	TCGA-BR-6453-01A-11D-1800-08	545336	107975834	47294726	225	31121											
ODZ1	10178	broad.mit.edu	37	chrX	123615810	123615810	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atagtatttgtgagcaggacTtgtgctaaggaagagaaaag	15	10	13	3	0	0	2	0	1	0	1	0	5	0	4	0	2	2	3	0	2	6	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chrX:123615810T>G	uc004euj.2	-	21	3764	c.3700A>C	c.(3700-3702)AGT>CGT	p.S1234R	ODZ1_uc011muj.1_Missense_Mutation_p.S1240R|ODZ1_uc010nqy.2_Missense_Mutation_p.S1241R	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1234	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TGAGCAGGACTTGTGCTAAGG	0.393													13	42					0	0	0.09319	0	0		G	123615810	G	G	123615810	3	3	28	1	0	0	0	0	1	0	0	0	10853	1609	56	5	4521	5	ODZ1	23	123615810	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	15639976	123615810	31654750	226	31122											
MAGEA10	4109	broad.mit.edu	37	chrX	151303021	151303021	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctacctgtagcgctagaacTtgcactggccatggcagtag	9	9	12	11	1	0	1	0	0	0	1	0	1	0	1	2	2	4	6	2	2	5	5			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chrX:151303021T>C	uc004ffk.2	-	5	1480	c.1072A>G	c.(1072-1074)AGT>GGT	p.S358G	MAGEA10_uc004ffl.2_Missense_Mutation_p.S358G	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	358											0	Acute lymphoblastic leukemia(192;6.56e-05)					GCGCTAGAACTTGCACTGGCC	0.403													32	88					0	0	0.050027	0	0		C	151303021	C	C	151303021	3	2	28	1	0	0	0	0	1	0	0	0	9182	1609	56	3	41	3	MAGEA10	23	151303021	Missense_Mutation	SNP	T	TCGA-BR-6453-01A-11D-1800-08	27687211	151303021	3967539	227	31123											
LAGE3	8270	broad.mit.edu	37	chrX	153706704	153706704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctggtgccagggacccatGggcgatttccgcctccaagg	7	8	13	13	2	1	0	0	0	1	0	3	2	3	1	5	4	1	0	5	4	1	1			TCGA-BR-6453-01A-11D-1800-08	TCGA-BR-6453-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	b656f146-54b5-4c34-aa07-b91551223217	e317bae9-ecab-466c-958c-64901ebfbb90	g.chrX:153706704G>A	uc004fln.1	-	2	577	c.235C>T	c.(235-237)CAT>TAT	p.H79Y		NM_006014	NP_006005	Q14657	LAGE3_HUMAN	L antigen family, member 3	79							protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AGGGACCCATGGGCGATTTCC	0.587													14	38					0	0	0.146539	0	0		A	153706704	A	A	153706704	3	1	28	1	0	0	0	0	1	0	0	0	8617	1348	47	4	204	4	LAGE3	23	153706704	Missense_Mutation	SNP	G	TCGA-BR-6453-01A-11D-1800-08	2403683	153706704	1563856	228	31124											
KIAA1751	85452	broad.mit.edu	37	chr1	1896465	1896465	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgtccatctttgtcccGcccacgggctttcggtccac	3	13	8	17	3	1	0	0	0	1	0	6	0	5	0	5	2	0	1	5	2	0	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:1896465G>A	uc001aim.1	-	13	1593	c.1437C>T	c.(1435-1437)GGC>GGT	p.G479G	KIAA1751_uc009vkz.1_Silent_p.G479G	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	479										pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		TCTTTGTCCCGCCCACGGGCT	0.677													8	24					0	0	0.00308	0	0		A	1896465	A	A	1896465	2	1	29	1	0	0	0	0	0	0	0	1	8272	1074	38	1		1	KIAA1751	1	1896465	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08		1896465	247354156	1	31125											
GPR153	387509	broad.mit.edu	37	chr1	6311551	6311551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacgcagagtgccatccaggGcgctgaggcgtcggcccgca	7	4	15	15	5	0	2	0	1	0	1	2	2	1	2	3	3	1	3	3	3	0	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:6311551G>A	uc001amp.1	-	4	1086	c.826C>T	c.(826-828)CCC>TCC	p.P276S	GPR153_uc001amo.1_5'Flank	NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	276	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		GCCATCCAGGGCGCTGAGGCG	0.697													8	23					0	0	0.00308	0	0		A	6311551	A	A	6311551	3	1	29	1	0	0	0	0	1	0	0	0	6674	1203	42	2	1015	2	GPR153	1	6311551	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	4415086	6311551	242939070	2	31126											
MIIP	60672	broad.mit.edu	37	chr1	12081808	12081808	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggctgaggaactggcaCagctgcggctgctcaatctg	8	8	15	10	1	2	1	1	1	1	0	2	3	2	3	0	5	4	5	0	5	2	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:12081808C>G	uc001ato.1	+	2	205	c.25C>G	c.(25-27)CAG>GAG	p.Q9E		NM_021933	NP_068752	Q5JXC2	MIIP_HUMAN	invasion inhibitory protein 45	9										ovary(1)	1						GGAACTGGCACAGCTGCGGCT	0.682													8	35					0	0	0.004482	0	0		G	12081808	G	G	12081808	3	3	29	1	0	0	0	0	1	0	0	0	9603	479	17	5	27	5	MIIP	1	12081808	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	5770257	12081808	237168813	3	31127											
VAV3	10451	broad.mit.edu	37	chr1	108307785	108307785	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actccactgcagtactgcccGtaaataaccaatctgaaagg	14	8	7	12	1	1	1	0	1	1	0	2	1	2	1	3	1	4	3	3	1	6	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:108307785G>A	uc001dvk.1	-	9	888	c.834C>T	c.(832-834)TAC>TAT	p.Y278Y	VAV3_uc010ouw.1_Silent_p.Y278Y|VAV3_uc001dvl.1_Silent_p.Y102Y|VAV3_uc010oux.1_Silent_p.Y278Y	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	278	DH.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		AGTACTGCCCGTAAATAACCA	0.373													10	46					0	0	0.010729	0	0		A	108307785	A	A	108307785	2	1	29	1	0	0	0	0	0	0	0	1	17159	1140	40	1		1	VAV3	1	108307785	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	96225977	108307785	140942836	4	31128											
KCNA3	3738	broad.mit.edu	37	chr1	111215835	111215835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggttcatacccccctcttCgatcaccatatactccgact	9	12	4	16	2	3	0	2	0	1	0	5	2	4	0	5	1	2	1	5	1	3	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:111215835C>T	uc001dzv.1	-	1	1821	c.1597G>A	c.(1597-1599)GAA>AAA	p.E533K		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	533						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCCCCCTCTTCGATCACCATA	0.527													18	65					0	0	0.010504	0	0		T	111215835	T	T	111215835	3	4	29	1	0	0	0	0	1	0	0	0	8020	893	31	1	134	1	KCNA3	1	111215835	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	2908050	111215835	138034786	5	31129											
LINGO4	339398	broad.mit.edu	37	chr1	151774430	151774430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctgctgagattgagccCaaccaggctcccagggtcca	9	6	12	14	0	0	2	0	2	0	1	2	3	2	2	4	3	3	3	4	3	1	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:151774430C>T	uc001ezf.1	-	2	941	c.751G>A	c.(751-753)GGG>AGG	p.G251R		NM_001004432	NP_001004432	Q6UY18	LIGO4_HUMAN	leucine rich repeat and Ig domain containing 4	251	Extracellular (Potential).					integral to membrane				large_intestine(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			AGATTGAGCCCAACCAGGCTC	0.642													13	86					0	0	0.016723	0	0		T	151774430	T	T	151774430	3	4	29	1	0	0	0	0	1	0	0	0	8834	594	21	4	1034	4	LINGO4	1	151774430	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	40558595	151774430	97476191	6	31130											
TCHH	7062	broad.mit.edu	37	chr1	152080772	152080772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgaggaattttctgtcacGctcttggcggtgcagctgct	5	13	12	11	3	3	0	1	0	2	0	4	2	3	1	0	3	3	4	0	3	1	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:152080772G>A	uc001ezp.2	-	2	4921	c.4921C>T	c.(4921-4923)CGT>TGT	p.R1641C	TCHH_uc009wne.1_Missense_Mutation_p.R1641C	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1641	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTTCTGTCACGCTCTTGGCGG	0.592													23	131					0	0	0.012319	0	0		A	152080772	A	A	152080772	3	1	29	1	0	0	0	0	1	0	0	0	15725	1087	38	1	914	1	TCHH	1	152080772	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	306342	152080772	97169849	7	31131											
HRNR	388697	broad.mit.edu	37	chr1	152185612	152185612	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggtgaagtgctactaggAaaactgagaaaatatgagcc	16	8	12	5	0	0	3	0	3	0	1	0	5	0	4	1	2	4	1	1	2	9	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:152185612A>G	uc001ezt.1	-	3	8569	c.8493T>C	c.(8491-8493)TTT>TTC	p.F2831F		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2831					keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGCTACTAGGAAAACTGAGAA	0.388													40	78					0	0	0.021022	0	0		G	152185612	G	G	152185612	2	3	29	1	0	0	0	0	0	0	0	1	7375	243	9	3		3	HRNR	1	152185612	Silent	SNP	A	TCGA-BR-6454-01A-11D-1800-08	104840	152185612	97065009	8	31132											
HRNR	388697	broad.mit.edu	37	chr1	152193511	152193511	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagttgggagactgccctgaCccagacccacattggccgcg	8	7	12	14	2	0	3	0	1	0	2	0	4	0	3	4	2	1	1	4	2	1	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:152193511C>G	uc001ezt.1	-	3	670	c.594G>C	c.(592-594)GGG>GGC	p.G198G		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	198	2.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACTGCCCTGACCCAGACCCAC	0.557													13	98					0	0	0.013537	0	0		G	152193511	G	G	152193511	2	3	29	1	0	0	0	0	0	0	0	1	7375	494	18	5		5	HRNR	1	152193511	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	7899	152193511	97057110	9	31133											
NUP210L	91181	broad.mit.edu	37	chr1	154033097	154033097	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actaaaaaataaccagatccTtccacaaggctaaatgtttc	17	10	4	10	0	0	1	0	0	0	1	3	1	2	1	3	1	1	2	3	1	7	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:154033097T>G	uc001fdw.2	-	20	2841	c.2769A>C	c.(2767-2769)GAA>GAC	p.E923D	NUP210L_uc009woq.2_Intron|NUP210L_uc010peh.1_Missense_Mutation_p.E923D	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	923						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			AACCAGATCCTTCCACAAGGC	0.383													11	125					0	0	0.013537	0	0		G	154033097	G	G	154033097	3	3	29	1	0	0	0	0	1	0	0	0	10780	1606	56	5	2981	5	NUP210L	1	154033097	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	1839586	154033097	95217524	10	31134											
OR10X1	128367	broad.mit.edu	37	chr1	158549454	158549454	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagaaggagagtgcactaAggaagagatacataggggtg	16	5	16	4	0	0	3	0	0	0	3	0	7	0	4	0	4	2	1	0	4	5	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:158549454A>C	uc010pin.1	-	1	236	c.236T>G	c.(235-237)CTT>CGT	p.L79R		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	79	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GAGTGCACTAAGGAAGAGATA	0.498													16	89					0	0	0.00499	0	0		C	158549454	C	C	158549454	3	2	29	1	0	0	0	0	1	0	0	0	10941	72	3	5	739	5	OR10X1	1	158549454	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	4516357	158549454	90701167	11	31135											
ILDR2	387597	broad.mit.edu	37	chr1	166927077	166927077	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgagccctgttttgaagctActactcgaacagtcctcctg	8	12	8	13	2	0	1	0	1	0	0	4	3	2	1	3	0	5	2	3	0	4	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:166927077A>G	uc001gdx.1	-	2	364	c.308T>C	c.(307-309)GTA>GCA	p.V103A		NM_199351	NP_955383	Q71H61	ILDR2_HUMAN	immunoglobulin-like domain containing receptor	103	Ig-like V-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1						TTTTGAAGCTACTACTCGAAC	0.498													17	118					0	0	0.007413	0	0		G	166927077	G	G	166927077	3	3	29	1	0	0	0	0	1	0	0	0	7726	391	14	3	1647	3	ILDR2	1	166927077	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	8377623	166927077	82323544	12	31136											
SELP	6403	broad.mit.edu	37	chr1	169572294	169572294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggggagtctgtccagcGtcccgatcgagtacaatcca	8	9	13	11	3	1	0	0	0	1	0	5	3	4	1	3	3	2	1	3	3	2	1	rs144811959	byFrequency	TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:169572294G>A	uc001ggi.3	-	10	1740	c.1675C>T	c.(1675-1677)CGC>TGC	p.R559C	SELP_uc001ggh.2_Missense_Mutation_p.R394C|SELP_uc009wvr.2_Missense_Mutation_p.R559C	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	559	Extracellular (Potential).|Sushi 6.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	TCTGTCCAGCGTCCCGATCGA	0.448													17	85					0	0	0.00499	0	0		A	169572294	A	A	169572294	3	1	29	1	0	0	0	0	1	0	0	0	14044	1145	40	1	845	1	SELP	1	169572294	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	2645217	169572294	79678327	13	31137											
RASAL2	9462	broad.mit.edu	37	chr1	178414760	178414760	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaatccattgaggaatacctCaagttggtgggacaacagta	15	9	10	7	0	1	1	1	1	0	0	2	3	2	3	2	3	2	2	2	3	6	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:178414760C>T	uc001glr.2	+	7	1271	c.1146C>T	c.(1144-1146)CTC>CTT	p.L382L	RASAL2_uc001glq.2_Silent_p.L530L	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	382	Ras-GAP.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						AGGAATACCTCAAGTTGGTGG	0.403													15	92					0	0	0.004007	0	0		T	178414760	T	T	178414760	2	4	29	1	0	0	0	0	0	0	0	1	13089	813	29	4		4	RASAL2	1	178414760	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	8842466	178414760	70835861	14	31138											
F13B	2165	broad.mit.edu	37	chr1	197026201	197026201	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagttatctcattcgatccAtggagaaggtagccgctttt	10	13	9	9	2	1	1	1	0	1	1	4	3	2	1	2	2	1	3	2	2	4	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:197026201A>T	uc001gtt.1	-	7	1157	c.1113T>A	c.(1111-1113)CAT>CAA	p.H371Q		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	371	Sushi 6.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CATTCGATCCATGGAGAAGGT	0.388													13	68					0	0	0.020292	0	0		T	197026201	T	T	197026201	3	4	29	1	0	0	0	0	1	0	0	0	5349	214	8	5	896	5	F13B	1	197026201	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	18611441	197026201	52224420	15	31139											
MDM4	4194	broad.mit.edu	37	chr1	204511962	204511962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaacatctaggctggacCttggatttgaggagtgggat	11	11	14	5	0	1	2	0	2	1	0	1	6	1	6	1	5	1	1	1	5	2	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:204511962C>T	uc001hba.2	+	8	724	c.562C>T	c.(562-564)CTT>TTT	p.L188F	MDM4_uc001hbd.1_RNA|MDM4_uc010pqw.1_RNA|MDM4_uc010pqx.1_Missense_Mutation_p.L61F|MDM4_uc001hay.1_Missense_Mutation_p.L188F|MDM4_uc001hbb.2_Missense_Mutation_p.L61F|MDM4_uc010pqy.1_Intron|MDM4_uc001hbc.2_RNA|MDM4_uc009xbe.1_RNA	NM_002393	NP_002384	O15151	MDM4_HUMAN	mouse double minute 4 homolog	188					apoptosis|cell proliferation|cellular response to hypoxia|G0 to G1 transition|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of protein catabolic process|negative regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization	nucleus	enzyme binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(21;0.00146)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.112)|all_epithelial(62;0.118)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;3.15e-47)|all cancers(3;3.56e-32)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|Epithelial(59;0.143)|BRCA - Breast invasive adenocarcinoma(75;0.143)			TAGGCTGGACCTTGGATTTGA	0.378			A		GBM|bladder|retinoblastoma								15	89					0	0	0.020292	0	0		T	204511962	T	T	204511962	3	4	29	1	0	0	0	0	1	0	0	0	9432	681	24	4	588	4	MDM4	1	204511962	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	7485761	204511962	44738659	16	31140											
IL20	50604	broad.mit.edu	37	chr1	207039928	207039928	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accattatactctccggaagAtcagcagcctcgccaattcc	11	9	6	15	2	2	1	1	0	1	1	5	2	3	2	5	1	3	1	5	1	4	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr1:207039928A>T	uc001her.2	+	3	369	c.325A>T	c.(325-327)ATC>TTC	p.I109F	IL20_uc010pry.1_Missense_Mutation_p.I180F|IL20_uc009xby.2_Missense_Mutation_p.I109F	NM_018724	NP_061194	Q9NYY1	IL20_HUMAN	interleukin 20 precursor	109					positive regulation of keratinocyte differentiation|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of inflammatory response	extracellular space	cytokine activity|interleukin-20 receptor binding				0	Breast(84;0.201)			OV - Ovarian serous cystadenocarcinoma(81;0.00459)		TCTCCGGAAGATCAGCAGCCT	0.517													66	378					0	0	0.01441	0	0		T	207039928	T	T	207039928	3	4	29	1	0	0	0	0	1	0	0	0	7683	333	12	5	335	5	IL20	1	207039928	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	2527966	207039928	42210693	17	31141											
GDF7	151449	broad.mit.edu	37	chr2	20870362	20870362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggcagctggacttctcCgccgttgctgctgctgtcca	4	10	11	16	2	1	0	0	0	1	0	3	1	2	1	4	2	4	6	4	2	0	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr2:20870362C>T	uc002rdz.1	+	2	1106	c.530C>T	c.(529-531)CCG>CTG	p.P177L		NM_182828	NP_878248	Q7Z4P5	GDF7_HUMAN	growth differentiation factor 7 preproprotein	177					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGGACTTCTCCGCCGTTGCTG	0.716													3	10					0	0	0.004672	0	0		T	20870362	T	T	20870362	3	4	29	1	0	0	0	0	1	0	0	0	6333	652	23	1	536	1	GDF7	2	20870362	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08		20870362	222329011	18	31142											
GPN1	11321	broad.mit.edu	37	chr2	27861084	27861084	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttggttttcagcatcttaTacaaaaccaagctgcctttc	10	15	6	10	0	2	0	1	0	1	0	3	0	2	0	2	1	5	4	2	1	5	6			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr2:27861084T>A	uc010ymc.1	+	8	595	c.574T>A	c.(574-576)TAC>AAC	p.Y192N	GPN1_uc010ezf.2_Missense_Mutation_p.Y166N|GPN1_uc010yma.1_Missense_Mutation_p.Y99N|GPN1_uc010ymb.1_Missense_Mutation_p.Y83N|GPN1_uc010ymd.1_Missense_Mutation_p.Y73N|GPN1_uc010yme.1_Missense_Mutation_p.Y192N|GPN1_uc010ezg.1_Missense_Mutation_p.Y73N	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	178						cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						CAGCATCTTATACAAAACCAA	0.373													10	39					0	0	0.008291	0	0		A	27861084	A	A	27861084	3	1	29	1	0	0	0	0	1	0	0	0	6632	1406	49	5	687	5	GPN1	2	27861084	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	6990722	27861084	215338289	19	31143											
NRXN1	9378	broad.mit.edu	37	chr2	50724814	50724814	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgatgccagtctctatgtTatggaactccagcctagtat	10	13	9	9	0	1	1	0	1	1	0	3	3	2	2	3	1	3	2	3	1	5	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr2:50724814T>A	uc010fbq.2	-	14	4133	c.2656A>T	c.(2656-2658)AAC>TAC	p.N886Y	NRXN1_uc002rxb.3_Missense_Mutation_p.N518Y|NRXN1_uc002rxe.3_Missense_Mutation_p.N846Y|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	212	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GTCTCTATGTTATGGAACTCC	0.403													23	64					0	0	0.021523	0	0		A	50724814	A	A	50724814	3	1	29	1	0	0	0	0	1	0	0	0	10684	1754	61	5	2290	5	NRXN1	2	50724814	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	22863730	50724814	192474559	20	31144											
CCDC85A	114800	broad.mit.edu	37	chr2	56420020	56420020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaccaccacaagcaccacGcgagcagtggcagcccggag	11	1	13	16	4	0	0	0	0	0	0	0	3	0	2	4	3	3	3	4	3	1	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr2:56420020G>A	uc002rzn.2	+	2	1187	c.685G>A	c.(685-687)GCG>ACG	p.A229T		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	229	His-rich.									breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			CAAGCACCACGCGAGCAGTGG	0.682													6	29					0	0	0.001168	0	0		A	56420020	A	A	56420020	3	1	29	1	0	0	0	0	1	0	0	0	2862	1087	38	1	691	1	CCDC85A	2	56420020	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	5695206	56420020	186779353	21	31145											
ANXA4	307	broad.mit.edu	37	chr2	70033572	70033572	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacttcgagcaggtgattgTggggatgatgacgcccacgg	9	8	15	9	3	0	3	0	3	0	0	1	5	0	4	1	4	2	1	1	4	1	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr2:70033572T>A	uc002sfr.3	+	5	475	c.248T>A	c.(247-249)GTG>GAG	p.V83E	ANXA4_uc010yqn.1_Intron|ANXA4_uc002sfs.3_Intron|ANXA4_uc010yqo.1_5'UTR	NM_001153	NP_001144	P09525	ANXA4_HUMAN	annexin IV	81	Annexin 1.				anti-apoptosis|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity				0						CAGGTGATTGTGGGGATGATG	0.512													18	84					0	0	0.007413	0	0		A	70033572	A	A	70033572	3	1	29	1	0	0	0	0	1	0	0	0	720	1696	59	5	262	5	ANXA4	2	70033572	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	13613552	70033572	173165801	22	31146											
KDM3A	55818	broad.mit.edu	37	chr2	86716717	86716717	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttattgaaggaaaagagaagCcaggagcactgtggcacata	16	7	12	6	0	0	2	0	1	0	1	0	5	0	4	1	3	2	2	1	3	6	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr2:86716717C>G	uc002sri.3	+	23	3835	c.3508C>G	c.(3508-3510)CCA>GCA	p.P1170A	KDM3A_uc010ytj.1_Missense_Mutation_p.P1170A|KDM3A_uc010ytk.1_Missense_Mutation_p.P1118A	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	1170	JmjC.				androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						AAAAGAGAAGCCAGGAGCACT	0.418													10	62					0	0	0.006214	0	0		G	86716717	G	G	86716717	3	3	29	1	0	0	0	0	1	0	0	0	8142	739	26	5	3594	5	KDM3A	2	86716717	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	16683145	86716717	156482656	23	31147											
MARCO	8685	broad.mit.edu	37	chr2	119751970	119751970	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctctctatcaaggcactggGcagatctggctggataatgt	9	12	11	9	0	4	1	1	0	3	1	5	2	4	2	0	4	0	3	0	4	3	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr2:119751970G>A	uc002tln.1	+	17	1569	c.1437G>A	c.(1435-1437)GGG>GGA	p.G479G	MARCO_uc010yyf.1_Silent_p.G401G	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	479	SRCR.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						AAGGCACTGGGCAGATCTGGC	0.547													13	67					0	0	0.00499	0	0		A	119751970	A	A	119751970	2	1	29	1	0	0	0	0	0	0	0	1	9329	1190	42	2		2	MARCO	2	119751970	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	33035253	119751970	123447403	24	31148											
GLI2	2736	broad.mit.edu	37	chr2	121746631	121746631	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcaggagtggacggcgcGgggcccgaggccgacctggg	5	2	22	12	6	0	0	0	0	0	0	0	4	0	2	3	8	0	1	3	8	0	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr2:121746631G>A	uc010flp.2	+	13	3171	c.3141G>A	c.(3139-3141)GCG>GCA	p.A1047A	GLI2_uc002tmq.1_Silent_p.A719A|GLI2_uc002tmr.1_Silent_p.A702A|GLI2_uc002tmt.3_Silent_p.A719A|GLI2_uc002tmu.3_Silent_p.A702A	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	1047					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				TGGACGGCGCGGGGCCCGAGG	0.736													8	21					0	0	0.006214	0	0		A	121746631	A	A	121746631	2	1	29	1	0	0	0	0	0	0	0	1	6453	1103	39	1		1	GLI2	2	121746631	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	1994661	121746631	121452742	25	31149											
XIRP2	129446	broad.mit.edu	37	chr2	168103997	168103997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaagattgtcatagatcGtgaacaaaacaatgatgctc	16	11	8	6	1	1	4	1	2	0	2	3	4	1	4	0	0	3	2	0	0	7	3	rs111389244		TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr2:168103997G>A	uc002udx.2	+	8	6113	c.6095G>A	c.(6094-6096)CGT>CAT	p.R2032H	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.R1857H|XIRP2_uc010fpq.2_Missense_Mutation_p.R1810H|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1857					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GTCATAGATCGTGAACAAAAC	0.393													9	42					0	0	0.008291	0	0		A	168103997	A	A	168103997	3	1	29	1	0	0	0	0	1	0	0	0	17456	1145	40	1	6125	1	XIRP2	2	168103997	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	46357366	168103997	75095376	26	31150											
HECW2	57520	broad.mit.edu	37	chr2	197183523	197183523	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtgcacacggattcctgCgacccttcggcagggccact	7	7	12	15	3	0	0	0	0	0	0	2	2	1	1	3	3	2	3	3	3	0	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr2:197183523C>T	uc002utm.1	-	9	2274	c.2091G>A	c.(2089-2091)TCG>TCA	p.S697S	HECW2_uc002utl.1_Silent_p.S341S	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	697					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						CGGATTCCTGCGACCCTTCGG	0.612													5	43					0	0	0.014758	0	0		T	197183523	T	T	197183523	2	4	29	1	0	0	0	0	0	0	0	1	7059	755	27	1		1	HECW2	2	197183523	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	29079526	197183523	46015850	27	31151											
PARD3B	117583	broad.mit.edu	37	chr2	205989155	205989155	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagggagcagcaataaaaGatggccgcctacaatcaggg	16	4	12	9	1	1	1	1	0	0	1	1	2	1	2	2	3	3	2	2	3	6	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr2:205989155G>T	uc002var.1	+	9	1477	c.1270G>T	c.(1270-1272)GAT>TAT	p.D424Y	PARD3B_uc010fub.1_Missense_Mutation_p.D424Y|PARD3B_uc002vao.1_Missense_Mutation_p.D424Y|PARD3B_uc002vap.1_Missense_Mutation_p.D424Y|PARD3B_uc002vaq.1_Missense_Mutation_p.D424Y	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	424	PDZ 2.				cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		AGCAATAAAAGATGGCCGCCT	0.373													16	82					1.5739e-10	1.85314e-10	0.004007	1	0		T	205989155	T	T	205989155	3	4	29	1	0	0	0	0	1	0	0	0	11463	942	33	5	1304	5	PARD3B	2	205989155	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	8805632	205989155	37210218	28	31152											
NMUR1	10316	broad.mit.edu	37	chr2	232392858	232392858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcttggtcacttgtctccGgccccgatcgtgctgctgga	4	12	11	14	3	3	0	1	0	2	0	5	2	3	1	3	3	2	2	3	3	0	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr2:232392858G>A	uc002vry.3	-	2	984	c.874C>T	c.(874-876)CGG>TGG	p.R292W		NM_006056	NP_006047	Q9HB89	NMUR1_HUMAN	neuromedin U receptor 1	292	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|calcium ion transport|calcium-mediated signaling|chloride transport|smooth muscle contraction	integral to plasma membrane|membrane fraction	neuromedin U receptor activity			lung(3)|central_nervous_system(1)|pancreas(1)	5		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;8.37e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)		ACTTGTCTCCGGCCCCGATCG	0.647													9	74					0	0	0.006214	0	0		A	232392858	A	A	232392858	3	1	29	1	0	0	0	0	1	0	0	0	10525	1115	39	1	414	1	NMUR1	2	232392858	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	26403703	232392858	10806515	29	31153											
MST1R	4486	broad.mit.edu	37	chr3	49928023	49928023	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacactatagtactccctGtccaggatgtcgcgggccaa	10	9	10	12	2	0	1	0	1	0	0	3	2	2	2	3	2	2	1	3	2	5	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr3:49928023G>C	uc003cxy.3	-	18	3969	c.3705C>G	c.(3703-3705)GAC>GAG	p.D1235E	MST1R_uc011bdc.1_Missense_Mutation_p.D114E	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	1235	Cytoplasmic (Potential).|Protein kinase.				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		AGTACTCCCTGTCCAGGATGT	0.547													7	33					0	0	0.004482	0	0		C	49928023	C	C	49928023	3	2	29	1	0	0	0	0	1	0	0	0	9909	1368	48	5	509	5	MST1R	3	49928023	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08		49928023	148094407	30	31154											
PARP14	54625	broad.mit.edu	37	chr3	122414498	122414498	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagctctgattgaattttTtgacagaaaaggtaatattt	13	17	7	4	0	2	4	1	3	1	1	2	4	2	4	0	1	1	2	0	1	5	8			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr3:122414498T>C	uc003efq.3	+	5	883	c.824T>C	c.(823-825)TTT>TCT	p.F275S	PARP14_uc010hrk.2_RNA	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	275					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		ATTGAATTTTTTGACAGAAAA	0.214													3	25					0	0	0.004672	0	0		C	122414498	C	C	122414498	3	2	29	1	0	0	0	0	1	0	0	0	11477	1841	64	3	842	3	PARP14	3	122414498	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	72486475	122414498	75607932	31	31155											
ITGB5	3693	broad.mit.edu	37	chr3	124515266	124515266	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcccttgttcctggcacaGgagaagttgtcgcactcaca	9	10	9	13	1	1	1	1	0	0	1	4	2	3	1	2	2	0	4	2	2	1	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr3:124515266G>A	uc003eho.2	-	10	1959	c.1662C>T	c.(1660-1662)TCC>TCT	p.S554S	ITGB5_uc010hrx.2_RNA	NM_002213	NP_002204	P18084	ITB5_HUMAN	integrin, beta 5 precursor	554	Extracellular (Potential).|II.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)		TCCTGGCACAGGAGAAGTTGT	0.577													18	130					0	0	0.008871	0	0		A	124515266	A	A	124515266	2	1	29	1	0	0	0	0	0	0	0	1	7914	987	35	4		4	ITGB5	3	124515266	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	2100768	124515266	73507164	32	31156											
CLSTN2	64084	broad.mit.edu	37	chr3	140122503	140122503	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgttcaagatccatggccagGagctgccctttgaggctgtg	7	10	13	11	1	1	2	1	1	0	1	2	3	2	3	3	3	2	3	3	3	1	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr3:140122503G>T	uc003etn.2	+	3	455	c.265G>T	c.(265-267)GAG>TAG	p.E89*	CLSTN2_uc003etm.2_Nonsense_Mutation_p.E89*	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	89	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						CCATGGCCAGGAGCTGCCCTT	0.527										HNSCC(16;0.037)			33	181					1.06801e-11	1.2643e-11	0.009535	1	0		T	140122503	T	T	140122503	4	4	29	1	0	0	0	0	0	1	0	0	3565	1175	41	5	275	5	CLSTN2	3	140122503	Nonsense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	15607237	140122503	57899927	33	31157											
MME	4311	broad.mit.edu	37	chr3	154856014	154856014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagttatggaattggaaaaaGaaattgccaatgtaaaacac	20	9	8	4	0	0	1	0	0	0	1	0	3	0	3	1	2	2	2	1	2	9	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr3:154856014G>A	uc010hvr.1	+	9	1055	c.844G>A	c.(844-846)GAA>AAA	p.E282K	MME_uc003fab.1_Missense_Mutation_p.E282K|MME_uc003fac.1_Missense_Mutation_p.E282K|MME_uc003fad.1_Missense_Mutation_p.E282K|MME_uc003fae.1_Missense_Mutation_p.E282K	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	282	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	ATTGGAAAAAGAAATTGCCAA	0.338													19	72					0	0	0.008871	0	0		A	154856014	A	A	154856014	3	1	29	1	0	0	0	0	1	0	0	0	9663	943	33	4	874	4	MME	3	154856014	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	14733511	154856014	43166416	34	31158											
PIK3CA	5290	broad.mit.edu	37	chr3	178952007	178952007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttttgatgacattgcatAcattcgaaagaccctagcct	12	13	6	10	1	1	3	0	2	1	1	2	4	1	3	2	0	3	1	2	0	3	6	rs121913288		TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr3:178952007A>G	uc003fjk.2	+	21	3219	c.3062A>G	c.(3061-3063)TAC>TGC	p.Y1021C		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1021	PI3K/PI4K.		Y -> C (in cancer).|Y -> H (in cancer).|Y -> N (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.Y1021C(17)|p.Y1021H(2)|p.Y1021N(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GACATTGCATACATTCGAAAG	0.388		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			15	50					0	0	0.020292	0	0		G	178952007	G	G	178952007	3	3	29	1	0	0	0	0	1	0	0	0	11932	391	14	3	3140	3	PIK3CA	3	178952007	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	24095993	178952007	19070423	35	31159											
C4orf37	285555	broad.mit.edu	37	chr4	98633959	98633959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaaaacaggattgtatgctGcaggacctgagagacaacaa	16	8	10	7	0	0	2	0	1	0	1	0	5	0	4	1	2	4	3	1	2	5	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr4:98633959G>A	uc003htt.1	-	10	1301	c.1211C>T	c.(1210-1212)GCA>GTA	p.A404V		NM_174952	NP_777612	Q8N412	CD037_HUMAN	hypothetical protein LOC285555	404											0				OV - Ovarian serous cystadenocarcinoma(123;2.27e-08)		ATTGTATGCTGCAGGACCTGA	0.343													5	93					0	0	0.014758	0	0		A	98633959	A	A	98633959	3	1	29	1	0	0	0	0	1	0	0	0	2270	1319	46	2	176	2	C4orf37	4	98633959	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08		98633959	92520317	36	31160											
FAT4	79633	broad.mit.edu	37	chr4	126370611	126370611	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagatattctataatggatGcaagtcttccatttacaatt	13	16	6	6	0	2	1	0	0	2	1	3	2	3	2	1	1	2	2	1	1	7	9			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr4:126370611G>T	uc003ifj.3	+	9	8440	c.8440G>T	c.(8440-8442)GCA>TCA	p.A2814S	FAT4_uc011cgp.1_Missense_Mutation_p.A1112S|FAT4_uc003ifi.1_Missense_Mutation_p.A292S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2814	Cadherin 27.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TATAATGGATGCAAGTCTTCC	0.398													16	66					4.14922e-12	4.93847e-12	0.004007	1	0		T	126370611	T	T	126370611	3	4	29	1	0	0	0	0	1	0	0	0	5706	1319	46	5	8474	5	FAT4	4	126370611	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	27736652	126370611	64783665	37	31161											
ODZ3	55714	broad.mit.edu	37	chr4	183713739	183713739	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcagttttacctatgatGaaacagcaggagtcctaaag	14	10	10	7	0	1	2	1	2	0	0	2	4	2	3	2	1	3	2	2	1	5	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr4:183713739G>T	uc003ivd.1	+	25	5951	c.5914G>T	c.(5914-5916)GAA>TAA	p.E1972*		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1972	Extracellular (Potential).|YD 11.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TACCTATGATGAAACAGCAGG	0.403													42	174					2.40579e-17	2.92705e-17	0.00623	1	0		T	183713739	T	T	183713739	4	4	29	1	0	0	0	0	0	1	0	0	10855	1291	45	5	6012	5	ODZ3	4	183713739	Nonsense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	57343128	183713739	7440537	38	31162											
SLC6A3	6531	broad.mit.edu	37	chr5	1409887	1409887	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgccaggacgatgaagagCgtgaagagctcacggtgtct	10	7	15	9	4	2	4	1	2	1	2	3	6	2	5	1	2	2	1	1	2	2	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr5:1409887C>T	uc003jck.2	-	10	1468	c.1347G>A	c.(1345-1347)ACG>ACA	p.T449T		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	449	Helical; Name=9; (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	CGATGAAGAGCGTGAAGAGCT	0.582													8	75					0	0	0.00308	0	0		T	1409887	T	T	1409887	2	4	29	1	0	0	0	0	0	0	0	1	14710	755	27	1		1	SLC6A3	5	1409887	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08		1409887	179505373	39	31163											
ADCY2	108	broad.mit.edu	37	chr5	7396565	7396565	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcatcgtcttcctgctgctCatcgtcatgggctcctgcct	3	14	8	16	2	4	0	3	0	1	0	8	0	6	0	3	1	3	3	3	1	0	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr5:7396565C>G	uc003jdz.1	+	1	223	c.156C>G	c.(154-156)CTC>CTG	p.L52L		NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	52	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						TCCTGCTGCTCATCGTCATGG	0.716													11	57					0	0	0.013537	0	0		G	7396565	G	G	7396565	2	3	29	1	0	0	0	0	0	0	0	1	294	813	29	5		5	ADCY2	5	7396565	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	5986678	7396565	173518695	40	31164											
C5orf49	134121	broad.mit.edu	37	chr5	7832018	7832018	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggctggggatgtcgttcTtcctgtagaagtcagcctgc	6	12	14	9	1	2	2	1	1	1	1	4	3	3	3	2	3	2	3	2	3	2	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr5:7832018T>G	uc003jea.3	-	3	519	c.389A>C	c.(388-390)AAG>ACG	p.K130T		NM_001089584	NP_001083053	A4QMS7	CE049_HUMAN	hypothetical protein LOC134121	130											0						GATGTCGTTCTTCCTGTAGAA	0.582													39	109					0	0	0.006999	0	0		G	7832018	G	G	7832018	3	3	29	1	0	0	0	0	1	0	0	0	2310	1609	56	5	58	5	C5orf49	5	7832018	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	435453	7832018	173083242	41	31165											
DNAH5	1767	broad.mit.edu	37	chr5	13922344	13922344	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccagccatggctcgtggCtctgagagcaggaatgaaga	10	6	14	11	1	1	3	0	2	1	2	2	5	1	4	3	3	2	3	3	3	2	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr5:13922344C>T	uc003jfd.2	-	5	574	c.532G>A	c.(532-534)GCC>ACC	p.A178T	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	178	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TGGCTCGTGGCTCTGAGAGCA	0.552									Kartagener_syndrome				16	39					0	0	0.004007	0	0		T	13922344	T	T	13922344	3	4	29	1	0	0	0	0	1	0	0	0	4610	797	28	2	13642	2	DNAH5	5	13922344	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	6090326	13922344	166992916	42	31166											
MARCH11	441061	broad.mit.edu	37	chr5	16067798	16067798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctccccggctgctttcttCgatgtctgtggctttgtcat	2	17	9	13	2	4	0	1	0	3	0	6	1	4	0	2	2	1	3	2	2	0	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr5:16067798C>T	uc003jfo.2	-	4	1204	c.991G>A	c.(991-993)GAA>AAA	p.E331K	MARCH11_uc010itw.1_Missense_Mutation_p.E87K	NM_001102562	NP_001096032	A6NNE9	MARHB_HUMAN	membrane-associated ring finger (C3HC4) 11	331						cytoplasmic vesicle membrane|integral to membrane	ligase activity|zinc ion binding				0						CTGCTTTCTTCGATGTCTGTG	0.478													40	51					0	0	0.021022	0	0		T	16067798	T	T	16067798	3	4	29	1	0	0	0	0	1	0	0	0	9318	893	31	1	221	1	MARCH11	5	16067798	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	2145454	16067798	164847462	43	31167											
PDZD2	23037	broad.mit.edu	37	chr5	32089722	32089722	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacagacagagtgagccgcgCctggccagccatgtggcagc	10	4	14	13	2	0	3	0	1	0	2	0	3	0	3	4	2	4	1	4	2	1	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr5:32089722C>T	uc003jhl.2	+	20	6556	c.6168C>T	c.(6166-6168)CGC>CGT	p.R2056R	PDZD2_uc003jhm.2_Silent_p.R2056R	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2056					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GTGAGCCGCGCCTGGCCAGCC	0.647													25	134					0	0	0.004656	0	0		T	32089722	T	T	32089722	2	4	29	1	0	0	0	0	0	0	0	1	11720	726	26	2		2	PDZD2	5	32089722	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	16021924	32089722	148825538	44	31168											
ARAP3	64411	broad.mit.edu	37	chr5	141033762	141033762	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggggcctggagggggctCaggtggcctctcctcctggc	3	7	19	12	0	2	0	1	0	1	0	4	1	3	1	4	9	0	1	4	9	0	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr5:141033762C>A	uc003llm.2	-	33	4468	c.4390G>T	c.(4390-4392)GAG>TAG	p.E1464*	ARAP3_uc003lll.2_Nonsense_Mutation_p.E415*|ARAP3_uc011dbe.1_Nonsense_Mutation_p.E1113*|ARAP3_uc003lln.2_Nonsense_Mutation_p.E1295*	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1464	Pro-rich.				cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						GGAGGGGGCTCAGGTGGCCTC	0.612													20	69					2.37509e-13	2.85794e-13	0.010504	1	0		A	141033762	A	A	141033762	4	1	29	1	0	0	0	0	0	1	0	0	840	835	29	5	248	5	ARAP3	5	141033762	Nonsense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	108944040	141033762	39881498	45	31169											
ERVFRDE1	405754	broad.mit.edu	37	chr6	11105535	11105535	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaatgagaaccagcaggagCaggcccatggtgacctaaga	15	4	13	9	0	0	4	0	2	0	3	0	6	0	5	3	3	3	2	3	3	3	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr6:11105535C>T	uc003mzt.2	-	2	379	c.9G>A	c.(7-9)CTG>CTA	p.L3L	LOC221710_uc003mzr.2_Intron|LOC221710_uc011dio.1_Intron	NM_207582	NP_997465	P60508	EFRD1_HUMAN	syncytin 2	3						integral to membrane|plasma membrane|virion					0						CCAGCAGGAGCAGGCCCATGG	0.478													7	37					0	0	0.006214	0	0		T	11105535	T	T	11105535	2	4	29	1	0	0	0	0	0	0	0	1	5254	697	25	2		2	ERVFRDE1	6	11105535	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08		11105535	160009532	46	31170											
HIST1H1C	3006	broad.mit.edu	37	chr6	26056139	26056139	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccttggccttctttgggCtcttagccactttcttggtt	4	17	8	12	0	3	0	0	0	3	0	3	0	3	0	3	3	2	2	3	3	2	7	rs145521943		TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr6:26056139C>G	uc003nfw.2	-	1	561	c.518G>C	c.(517-519)AGC>ACC	p.S173T		NM_005319	NP_005310	P16403	H12_HUMAN	histone cluster 1, H1c	173					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)|skin(2)	5						CTTCTTTGGGCTCTTAGCCAC	0.562													107	119					0	0	0.01441	0	0		G	26056139	G	G	26056139	3	3	29	1	0	0	0	0	1	0	0	0	7140	797	28	5	127	5	HIST1H1C	6	26056139	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	14950604	26056139	145058928	47	31171											
HIST1H4E	8367	broad.mit.edu	37	chr6	26204985	26204985	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagcctgccatccggcgccTtgctcgtcgcgggggtgtca	4	8	14	15	5	1	0	1	0	0	0	4	0	2	0	4	3	3	1	4	3	1	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr6:26204985T>A	uc003ngy.2	+	1	113	c.113T>A	c.(112-114)CTT>CAT	p.L38H		NM_003545	NP_003536	P62805	H4_HUMAN	histone cluster 1, H4e	38					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1		all_hematologic(11;0.196)				ATCCGGCGCCTTGCTCGTCGC	0.572													42	70					0	0	0.011902	0	0		A	26204985	A	A	26204985	3	1	29	1	0	0	0	0	1	0	0	0	7185	1609	56	5	115	5	HIST1H4E	6	26204985	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	148846	26204985	144910082	48	31172											
C6orf125	84300	broad.mit.edu	37	chr6	33679443	33679443	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcacagagcttaagaaaacgCcggtaccggctggccgccat	11	6	11	13	4	1	2	1	0	0	2	1	2	1	2	4	3	3	3	4	3	4	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr6:33679443C>T	uc003ofa.1	-	1	62	c.21G>A	c.(19-21)CGG>CGA	p.R7R	C6orf125_uc010jve.1_RNA	NM_032340	NP_115716	Q9BRT2	CF125_HUMAN	hypothetical protein LOC84300	7											0						TAAGAAAACGCCGGTACCGGC	0.667													3	30					0	0	0.004672	0	0		T	33679443	T	T	33679443	2	4	29	1	0	0	0	0	0	0	0	1	2328	726	26	2		2	C6orf125	6	33679443	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	7474458	33679443	137435624	49	31173											
RIPPLY2	134701	broad.mit.edu	37	chr6	84563444	84563444	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggagaccctgggtggaCgccggaggcaagaaagaaga	12	5	16	8	2	1	4	0	0	1	4	1	7	1	6	2	5	0	1	2	5	3	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr6:84563444C>T	uc003pke.2	+	2	277	c.126C>T	c.(124-126)GAC>GAT	p.D42D		NM_001009994	NP_001009994	Q5TAB7	RIPP2_HUMAN	ripply2 protein	42					somite rostral/caudal axis specification	nucleus					0						CCTGGGTGGACGCCGGAGGCA	0.667													5	42					0	0	0.001168	0	0		T	84563444	T	T	84563444	2	4	29	1	0	0	0	0	0	0	0	1	13410	535	19	1		1	RIPPLY2	6	84563444	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	50884001	84563444	86551623	50	31174											
NCOA7	135112	broad.mit.edu	37	chr6	126248844	126248844	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcaactcatcctttcaagttCagtgaccactattatggcac	11	12	6	12	0	3	1	3	1	0	0	4	1	4	1	2	1	1	3	2	1	4	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr6:126248844C>G	uc010kes.2	+	16	3008	c.2559C>G	c.(2557-2559)TTC>TTG	p.F853L	NCOA7_uc003qae.3_Missense_Mutation_p.F853L|NCOA7_uc003qah.2_Missense_Mutation_p.F842L|NCOA7_uc003qai.2_Missense_Mutation_p.F853L|NCOA7_uc010ket.2_Missense_Mutation_p.F738L|NCOA7_uc003qak.2_Missense_Mutation_p.F130L	NM_181782	NP_861447	Q8NI08	NCOA7_HUMAN	nuclear receptor coactivator 7 isoform 1	853	TLD.				cell wall macromolecule catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)		CTTTCAAGTTCAGTGACCACT	0.393													7	105					0	0	0.00308	0	0		G	126248844	G	G	126248844	3	3	29	1	0	0	0	0	1	0	0	0	10253	825	29	5	2609	5	NCOA7	6	126248844	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	41685400	126248844	44866223	51	31175											
RSPO3	84870	broad.mit.edu	37	chr6	127471646	127471646	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtggattttacttacaccTtggaaagtgccttgacaatt	12	14	8	7	0	0	1	0	1	0	0	0	3	0	3	2	2	3	0	2	2	5	6			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr6:127471646T>A	uc003qar.2	+	3	655	c.365T>A	c.(364-366)CTT>CAT	p.L122H	RSPO3_uc003qas.1_Missense_Mutation_p.L122H	NM_032784	NP_116173	Q9BXY4	RSPO3_HUMAN	R-spondin 3 precursor	122	FU 2.					extracellular region	heparin binding				0				GBM - Glioblastoma multiforme(226;0.0555)		TACTTACACCTTGGAAAGTGC	0.363													26	42					0	0	0.021523	0	0		A	127471646	A	A	127471646	3	1	29	1	0	0	0	0	1	0	0	0	13736	1609	56	5	375	5	RSPO3	6	127471646	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	1222802	127471646	43643421	52	31176											
SLC22A1	6580	broad.mit.edu	37	chr6	160560841	160560841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgggccgcatctaccccatGgccatgtcaaatttgttggc	7	11	11	12	1	2	0	1	0	1	0	2	0	2	0	4	3	1	2	4	3	2	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr6:160560841G>A	uc003qtc.2	+	7	1323	c.1218G>A	c.(1216-1218)ATG>ATA	p.M406I	SLC22A1_uc003qtd.2_Missense_Mutation_p.M406I	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	406	Helical; (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		TCTACCCCATGGCCATGTCAA	0.527													15	61					0	0	0.003163	0	0		A	160560841	A	A	160560841	3	1	29	1	0	0	0	0	1	0	0	0	14465	1348	47	4	1244	4	SLC22A1	6	160560841	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	33089195	160560841	10554226	53	31177											
MAGI2	9863	broad.mit.edu	37	chr7	77885499	77885499	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacaatggttaaggtcataAgttcagcttgggtggcccca	10	11	11	9	0	3	0	3	0	0	0	3	0	3	0	2	4	1	3	2	4	3	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr7:77885499A>C	uc003ugx.2	-	10	2062	c.1808T>G	c.(1807-1809)CTT>CGT	p.L603R	MAGI2_uc003ugy.2_Missense_Mutation_p.L603R|MAGI2_uc010ldx.1_Missense_Mutation_p.L212R|MAGI2_uc010ldy.1_Missense_Mutation_p.L212R|MAGI2_uc011kgr.1_Missense_Mutation_p.L435R|MAGI2_uc011kgs.1_Missense_Mutation_p.L440R	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	603						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TAAGGTCATAAGTTCAGCTTG	0.522													5	44					0	0	0.001984	0	0		C	77885499	C	C	77885499	3	2	29	1	0	0	0	0	1	0	0	0	9209	72	3	5	2611	5	MAGI2	7	77885499	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08		77885499	81253164	54	31178											
ZNF804B	219578	broad.mit.edu	37	chr7	88963320	88963320	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttactcctaccagcagaGaaaaagaaactagaaataca	20	8	5	8	0	0	3	0	0	0	3	1	4	1	3	2	0	5	1	2	0	8	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr7:88963320G>T	uc011khi.1	+	4	1562	c.1024G>T	c.(1024-1026)GAA>TAA	p.E342*		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	342						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TACCAGCAGAGAAAAAGAAAC	0.353										HNSCC(36;0.09)			7	54					8.12818e-05	9.082e-05	0.001984	1	0		T	88963320	T	T	88963320	4	4	29	1	0	0	0	0	0	1	0	0	18196	943	33	5	1038	5	ZNF804B	7	88963320	Nonsense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	11077821	88963320	70175343	55	31179											
AKAP9	10142	broad.mit.edu	37	chr7	91632525	91632525	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgataaacttcagaaagaActcaatgtacttaaatcaga	20	10	5	6	0	3	4	3	1	0	3	3	4	3	4	0	0	3	1	0	0	9	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr7:91632525A>C	uc003ulg.2	+	8	3519	c.3294A>C	c.(3292-3294)GAA>GAC	p.E1098D	AKAP9_uc003ule.2_Missense_Mutation_p.E1110D|AKAP9_uc003ulf.2_Missense_Mutation_p.E1098D|AKAP9_uc003uli.2_Missense_Mutation_p.E723D	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1110	Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTCAGAAAGAACTCAATGTAC	0.328			T	BRAF	papillary thyroid								29	282					0	0	0.007291	0	0		C	91632525	C	C	91632525	3	2	29	1	0	0	0	0	1	0	0	0	459	40	2	5	3324	5	AKAP9	7	91632525	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	2669205	91632525	67506138	56	31180											
TRRAP	8295	broad.mit.edu	37	chr7	98503872	98503872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatatactgccagagagaCtctaaggtatgagattaaac	16	9	10	6	0	1	3	0	1	1	3	1	6	1	4	1	2	3	1	1	2	6	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr7:98503872C>T	uc003upp.2	+	13	1318	c.1109C>T	c.(1108-1110)ACT>ATT	p.T370I	TRRAP_uc011kis.1_Missense_Mutation_p.T370I|TRRAP_uc003upr.2_Missense_Mutation_p.T62I	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	370					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GCCAGAGAGACTCTAAGGTAT	0.413													7	113					0	0	0.00308	0	0		T	98503872	T	T	98503872	3	4	29	1	0	0	0	0	1	0	0	0	16627	565	20	4	1155	4	TRRAP	7	98503872	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	6871347	98503872	60634791	57	31181											
TRRAP	8295	broad.mit.edu	37	chr7	98581821	98581821	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcatccagtatggaaaaaTcgcccggaaacaaggactgg	15	6	11	9	2	1	0	1	0	0	0	3	4	2	3	2	4	1	1	2	4	5	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr7:98581821T>A	uc003upp.2	+	60	9349	c.9140T>A	c.(9139-9141)ATC>AAC	p.I3047N	TRRAP_uc011kis.1_Missense_Mutation_p.I3018N|TRRAP_uc003upr.2_Missense_Mutation_p.I2735N	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3047	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TATGGAAAAATCGCCCGGAAA	0.438													28	320					0	0	0.010818	0	0		A	98581821	A	A	98581821	3	1	29	1	0	0	0	0	1	0	0	0	16627	1435	50	5	9283	5	TRRAP	7	98581821	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	77949	98581821	60556842	58	31182											
ADRA1A	148	broad.mit.edu	37	chr8	26722075	26722075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacccctcctctgggtgaCgatggttgggtagcgcagcg	6	8	16	11	3	1	2	0	1	1	1	2	4	2	2	3	3	2	3	3	3	1	2	rs140950299		TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr8:26722075C>T	uc003xfh.1	-	1	848	c.412G>A	c.(412-414)GTC>ATC	p.V138I	ADRA1A_uc003xfc.1_Missense_Mutation_p.V138I|ADRA1A_uc010lul.1_Missense_Mutation_p.V138I|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.V138I|ADRA1A_uc010lum.1_Missense_Mutation_p.V138I|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.V138I	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	138	Cytoplasmic (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	CTCTGGGTGACGATGGTTGGG	0.632													10	50					0	0	0.006214	0	0		T	26722075	T	T	26722075	3	4	29	1	0	0	0	0	1	0	0	0	334	536	19	1	1287	1	ADRA1A	8	26722075	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08		26722075	119641947	59	31183											
TEX15	56154	broad.mit.edu	37	chr8	30701489	30701489	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcaacagcacatggttttAatgtgtgtttgcaattattc	10	17	8	6	0	1	0	1	0	0	0	2	0	1	0	0	1	3	4	0	1	4	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr8:30701489A>C	uc003xil.2	-	1	5045	c.5045T>G	c.(5044-5046)TTA>TGA	p.L1682*		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1682										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		ACATGGTTTTAATGTGTGTTT	0.348													16	81					0	0	0.010504	0	0		C	30701489	C	C	30701489	4	2	29	1	0	0	0	0	0	1	0	0	15804	372	13	5	3340	5	TEX15	8	30701489	Nonsense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	3979414	30701489	115662533	60	31184											
GDAP1	54332	broad.mit.edu	37	chr8	75262744	75262744	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggagcccgcccttgagggcGgaaggcaaggccgacgcgga	8	2	19	12	5	0	1	0	1	0	0	0	5	0	4	3	6	1	1	3	6	2	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr8:75262744G>A	uc003yah.2	+	1	127	c.48G>A	c.(46-48)GCG>GCA	p.A16A	GDAP1_uc011lfj.1_5'UTR|GDAP1_uc003yai.2_Intron	NM_018972	NP_061845	Q8TB36	GDAP1_HUMAN	ganglioside-induced differentiation-associated	16				AE -> GK (in Ref. 1; CAA76892).		cytoplasm					0	Breast(64;0.00769)	Myeloproliferative disorder(644;0.0122)	BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.104)|all cancers(69;0.234)			CCTTGAGGGCGGAAGGCAAGG	0.642													8	29					0	0	0.00308	0	0		A	75262744	A	A	75262744	2	1	29	1	0	0	0	0	0	0	0	1	6322	1103	39	1		1	GDAP1	8	75262744	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	44561255	75262744	71101278	61	31185											
RGS22	26166	broad.mit.edu	37	chr8	101075729	101075729	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctctcccaatgtaccttTtataaatttcttaaatcttt	10	20	1	10	0	4	0	0	0	4	0	6	0	4	0	2	0	1	1	2	0	7	7			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr8:101075729T>C	uc003yjb.1	-	8	1462	c.1267A>G	c.(1267-1269)AAA>GAA	p.K423E	RGS22_uc003yja.1_Missense_Mutation_p.K242E|RGS22_uc003yjc.1_Missense_Mutation_p.K411E|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	423					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			AATGTACCTTTTATAAATTTC	0.383													14	82					0	0	0.016723	0	0		C	101075729	C	C	101075729	3	2	29	1	0	0	0	0	1	0	0	0	13330	1850	64	3	2607	3	RGS22	8	101075729	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	25812985	101075729	45288293	62	31186											
DCAF13	25879	broad.mit.edu	37	chr8	104427550	104427550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagttgagccagcaggccGccgctccgcgagtcacgtga	7	6	13	15	5	1	2	1	2	0	0	3	3	3	2	5	1	2	3	5	1	0	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr8:104427550G>A	uc003yln.2	+	1	609	c.332G>A	c.(331-333)CGC>CAC	p.R111H	SLC25A32_uc003yll.2_5'Flank|SLC25A32_uc011lhr.1_5'Flank|DCAF13_uc003ylm.1_5'UTR|DCAF13_uc003ylo.2_5'UTR	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	Error:Variant_position_missing_in_Q9NV06_after_alignment					rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						CCAGCAGGCCGCCGCTCCGCG	0.637													12	53					0	0	0.010729	0	0		A	104427550	A	A	104427550	3	1	29	1	0	0	0	0	1	0	0	0	4269	1087	38	1	334	1	DCAF13	8	104427550	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	3351821	104427550	41936472	63	31187											
RIMS2	9699	broad.mit.edu	37	chr8	104709365	104709365	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaggtaaagaagatgggAgaagaatcacagcaacagca	19	3	13	6	0	1	4	1	0	0	4	1	6	1	4	0	2	4	4	0	2	6	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr8:104709365A>G	uc003ylp.2	+	2	367	c.228A>G	c.(226-228)GGA>GGG	p.G76G		NM_001100117	NP_001093587	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	107	RabBD.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGAAGATGGGAGAAGAATCAC	0.403										HNSCC(12;0.0054)			15	69					0	0	0.004007	0	0		G	104709365	G	G	104709365	2	3	29	1	0	0	0	0	0	0	0	1	13393	291	11	3		3	RIMS2	8	104709365	Silent	SNP	A	TCGA-BR-6454-01A-11D-1800-08	281815	104709365	41654657	64	31188											
TG	7038	broad.mit.edu	37	chr8	133898821	133898821	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgggcctctccaagagtaGccagatttgccacatcctgc	9	9	10	13	0	1	2	0	0	1	2	3	3	2	2	5	1	3	1	5	1	2	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr8:133898821G>T	uc003ytw.2	+	9	1245	c.1204G>T	c.(1204-1206)GCC>TCC	p.A402S		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	402					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCCAAGAGTAGCCAGATTTGC	0.557													10	214					1.08611e-07	1.23242e-07	0.010729	1	0		T	133898821	T	T	133898821	3	4	29	1	0	0	0	0	1	0	0	0	15838	971	34	5	1238	5	TG	8	133898821	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	29189456	133898821	12465201	65	31189											
ZNF623	9831	broad.mit.edu	37	chr8	144732869	144732869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaatccttcataaggagctCgagcctcattcgccattatc	11	11	7	12	2	2	0	2	0	0	0	6	3	3	1	3	1	2	1	3	1	3	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr8:144732869C>T	uc003yzd.2	+	1	916	c.827C>T	c.(826-828)TCG>TTG	p.S276L	ZNF623_uc011lkp.1_Missense_Mutation_p.S236L|ZNF623_uc003yzc.2_Missense_Mutation_p.S236L	NM_014789	NP_055604	O75123	ZN623_HUMAN	zinc finger protein 623 isoform 1	276	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;5.28e-40)|all cancers(56;5.23e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			ATAAGGAGCTCGAGCCTCATT	0.468													4	68					0	0	0.009096	0	0		T	144732869	T	T	144732869	3	4	29	1	0	0	0	0	1	0	0	0	18072	893	31	1	829	1	ZNF623	8	144732869	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	10834048	144732869	1631153	66	31190											
PTPRD	5789	broad.mit.edu	37	chr9	8331655	8331655	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacttggccgatgaagtcaaTaaatccttctccggactttg	10	12	9	10	2	2	1	1	1	1	0	4	4	3	2	3	2	0	0	3	2	4	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr9:8331655T>C	uc003zkk.2	-	43	6172	c.5461A>G	c.(5461-5463)ATT>GTT	p.I1821V	PTPRD_uc003zkp.2_Missense_Mutation_p.I1415V|PTPRD_uc003zkq.2_Missense_Mutation_p.I1414V|PTPRD_uc003zkr.2_Missense_Mutation_p.I1405V|PTPRD_uc003zks.2_Missense_Mutation_p.I1414V|PTPRD_uc003zkl.2_Missense_Mutation_p.I1812V|PTPRD_uc003zkm.2_Missense_Mutation_p.I1808V|PTPRD_uc003zkn.2_Missense_Mutation_p.I1410V|PTPRD_uc003zko.2_Missense_Mutation_p.I1411V	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1821	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		ATGAAGTCAATAAATCCTTCT	0.468										TSP Lung(15;0.13)			31	71					0	0	0.009535	0	0		C	8331655	C	C	8331655	3	2	29	1	0	0	0	0	1	0	0	0	12824	1406	49	3	289	3	PTPRD	9	8331655	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08		8331655	132881776	67	31191											
FOXB2	442425	broad.mit.edu	37	chr9	79634960	79634960	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagagcgcgccgggcgcCggtccgggagggcaccttca	7	3	16	15	6	1	1	1	0	0	1	2	2	2	2	5	4	1	1	5	4	1	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr9:79634960C>T	uc004ako.1	+	1	390	c.390C>T	c.(388-390)GCC>GCT	p.A130A		NM_001013735	NP_001013757	Q5VYV0	FOXB2_HUMAN	forkhead box B2	130					brain development|embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CGCCGGGCGCCGGTCCGGGAG	0.433													4	12					0	0	0.009096	0	0		T	79634960	T	T	79634960	2	4	29	1	0	0	0	0	0	0	0	1	6007	639	23	1		1	FOXB2	9	79634960	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	71303305	79634960	61578471	68	31192											
EPB41L4B	54566	broad.mit.edu	37	chr9	111947780	111947780	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacctaccagcctcgtttTgattggagggtacatgcaaa	10	11	11	9	1	0	1	0	1	0	0	1	2	0	2	3	3	5	4	3	3	4	6			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr9:111947780T>A	uc004bdz.1	-	23	2702	c.2407A>T	c.(2407-2409)AAA>TAA	p.K803*		NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	803						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						AGCCTCGTTTTGATTGGAGGG	0.637													8	43					0	0	0.004482	0	0		A	111947780	A	A	111947780	4	1	29	1	0	0	0	0	0	1	0	0	5164	1821	63	5	311	5	EPB41L4B	9	111947780	Nonsense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	32312820	111947780	29265651	69	31193											
PAPPA	5069	broad.mit.edu	37	chr9	118974066	118974066	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccctgcatggagacagaGccctccttcgagactggaga	10	6	12	13	1	0	4	0	0	0	4	2	8	1	4	4	2	2	1	4	2	0	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr9:118974066G>A	uc004bjn.2	+	4	2154	c.1773G>A	c.(1771-1773)GAG>GAA	p.E591E	PAPPA_uc011lxp.1_Intron|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	591					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						TGGAGACAGAGCCCTCCTTCG	0.552													24	126					0	0	0.016522	0	0		A	118974066	A	A	118974066	2	1	29	1	0	0	0	0	0	0	0	1	11451	962	34	2		2	PAPPA	9	118974066	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	7026286	118974066	22239365	70	31194											
RAPGEF1	2889	broad.mit.edu	37	chr9	134497285	134497285	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtatacctccatgaggagCttgttcttctgctggtagat	7	14	10	10	1	2	2	0	1	2	1	3	3	3	3	3	2	3	5	3	2	3	6			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr9:134497285C>A	uc004cbc.2	-	11	1882	c.1752G>T	c.(1750-1752)AAG>AAT	p.K584N	RAPGEF1_uc004cbb.2_Missense_Mutation_p.K602N|RAPGEF1_uc010mzm.2_RNA|RAPGEF1_uc010mzn.2_Missense_Mutation_p.K589N|RAPGEF1_uc004cbd.2_Missense_Mutation_p.K589N|RAPGEF1_uc010mzs.1_Missense_Mutation_p.K30N|RAPGEF1_uc010mzl.1_Missense_Mutation_p.K30N|RAPGEF1_uc010mzo.1_Missense_Mutation_p.K30N|RAPGEF1_uc010mzp.1_Missense_Mutation_p.K30N|RAPGEF1_uc010mzq.1_Missense_Mutation_p.K30N|RAPGEF1_uc010mzr.1_Missense_Mutation_p.K30N	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	584					activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		CCATGAGGAGCTTGTTCTTCT	0.622													6	24					0.000157383	0.000174959	0.00308	1	0		A	134497285	A	A	134497285	3	1	29	1	0	0	0	0	1	0	0	0	13068	796	28	5	1537	5	RAPGEF1	9	134497285	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	15523219	134497285	6716146	71	31195											
C9orf96	169436	broad.mit.edu	37	chr9	136253262	136253262	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacctctgcctggtgatggAgttcaatgagctcagcttcc	7	12	11	11	0	3	2	2	2	1	0	4	3	4	3	3	2	4	4	3	2	2	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr9:136253262A>C	uc004cdk.2	+	5	387	c.326A>C	c.(325-327)GAG>GCG	p.E109A	C9orf96_uc004cdl.2_RNA	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	109	Protein kinase.						ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		CTGGTGATGGAGTTCAATGAG	0.572													22	64					0	0	0.01892	0	0		C	136253262	C	C	136253262	3	2	29	1	0	0	0	0	1	0	0	0	2511	304	11	5	344	5	C9orf96	9	136253262	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	1755977	136253262	4960169	72	31196											
CYP2C9	1559	broad.mit.edu	37	chr10	96707655	96707655	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttaacttaatggaaaagTtgaatgaaaacatcaagatt	18	13	6	4	0	2	3	1	2	1	1	2	4	2	4	0	1	2	1	0	1	8	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr10:96707655T>C	uc001kka.3	+	4	626	c.601T>C	c.(601-603)TTG>CTG	p.L201L	CYP2C9_uc009xut.2_Silent_p.L201L	NM_000771	NP_000762	P11712	CP2C9_HUMAN	cytochrome P450, family 2, subfamily C,	201					exogenous drug catabolic process|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative demethylation|steroid metabolic process|urea metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|caffeine oxidase activity|drug binding|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(4)|ovary(2)	6		Colorectal(252;0.0902)		all cancers(201;6.93e-05)	Acenocoumarol(DB01418)|Alosetron(DB00969)|Amiodarone(DB01118)|Antihemophilic Factor(DB00025)|Aprepitant(DB00673)|Bosentan(DB00559)|Carprofen(DB00821)|Carvedilol(DB01136)|Celecoxib(DB00482)|Clomipramine(DB01242)|Dapsone(DB00250)|Delavirdine(DB00705)|Desloratadine(DB00967)|Desogestrel(DB00304)|Diclofenac(DB00586)|Esomeprazole(DB00736)|Etodolac(DB00749)|Fluconazole(DB00196)|Fluoxetine(DB00472)|Flurbiprofen(DB00712)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Gemfibrozil(DB01241)|Ginkgo biloba(DB01381)|Glibenclamide(DB01016)|Glimepiride(DB00222)|Glipizide(DB01067)|Guanfacine(DB01018)|Hydromorphone(DB00327)|Ibuprofen(DB01050)|Imipramine(DB00458)|Irbesartan(DB01029)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Losartan(DB00678)|Lumiracoxib(DB01283)|Marinol(DB00470)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mephenytoin(DB00532)|Metronidazole(DB00916)|Miconazole(DB01110)|Midazolam(DB00683)|Montelukast(DB00471)|Nateglinide(DB00731)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Oxymorphone(DB01192)|Pantoprazole(DB00213)|Paramethadione(DB00617)|Phenprocoumon(DB00946)|Phenytoin(DB00252)|Pravastatin(DB00175)|Quinidine(DB00908)|Ritonavir(DB00503)|Rosiglitazone(DB00412)|Sertraline(DB01104)|Sildenafil(DB00203)|Sulfamethoxazole(DB01015)|Suprofen(DB00870)|Tamoxifen(DB00675)|Tenoxicam(DB00469)|Terfenadine(DB00342)|Tolbutamide(DB01124)|Torasemide(DB00214)|Troleandomycin(DB01361)|Valdecoxib(DB00580)|Valsartan(DB00177)|Voriconazole(DB00582)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zileuton(DB00744)	AATGGAAAAGTTGAATGAAAA	0.368													51	76					0	0	0.01441	0	0		C	96707655	C	C	96707655	2	2	29	1	0	0	0	0	0	0	0	1	4171	1722	60	3		3	CYP2C9	10	96707655	Silent	SNP	T	TCGA-BR-6454-01A-11D-1800-08		96707655	38827092	73	31197											
COL17A1	1308	broad.mit.edu	37	chr10	105798252	105798252	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcccagggggccctggCgggcctgacacgtacatggt	5	5	19	12	2	0	1	0	1	0	0	0	1	0	1	3	7	1	1	3	7	1	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr10:105798252C>T	uc001kxr.2	-	45	3151	c.2982G>A	c.(2980-2982)CCG>CCA	p.P994P		NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	994	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GGGGCCCTGGCGGGCCTGACA	0.602													72	84					0	0	0.01441	0	0		T	105798252	T	T	105798252	2	4	29	1	0	0	0	0	0	0	0	1	3677	755	27	1		1	COL17A1	10	105798252	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	9090597	105798252	29736495	74	31198											
ADRB1	153	broad.mit.edu	37	chr10	115804689	115804689	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctgcgagcgccgtttcctCggcggcccagcgcggccgcc	3	5	15	18	8	0	0	0	0	0	0	2	1	1	0	5	3	4	2	5	3	0	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr10:115804689C>T	uc001lba.2	+	1	884	c.798C>T	c.(796-798)CTC>CTT	p.L266L		NM_000684	NP_000675	P08588	ADRB1_HUMAN	beta-1-adrenergic receptor	266	Cytoplasmic (By similarity).				positive regulation of cAMP biosynthetic process	integral to plasma membrane	alpha-2A adrenergic receptor binding|beta1-adrenergic receptor activity|protein heterodimerization activity				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0124)|all cancers(201;0.0298)	Acebutolol(DB01193)|Alprenolol(DB00866)|Amiodarone(DB01118)|Arbutamine(DB01102)|Atenolol(DB00335)|Betaxolol(DB00195)|Bevantolol(DB01295)|Bisoprolol(DB00612)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Desipramine(DB01151)|Dobutamine(DB00841)|Dopamine(DB00988)|Epinephrine(DB00668)|Esmolol(DB00187)|Isoetharine(DB00221)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Metoprolol(DB00264)|Nadolol(DB01203)|Norepinephrine(DB00368)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Practolol(DB01297)|Propranolol(DB00571)|Risperidone(DB00734)|Timolol(DB00373)|Ziprasidone(DB00246)	GCCGTTTCCTCGGCGGCCCAG	0.398													6	4					0	0	0.001984	0	0		T	115804689	T	T	115804689	2	4	29	1	0	0	0	0	0	0	0	1	340	871	31	1		1	ADRB1	10	115804689	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	10006437	115804689	19730058	75	31199											
PNLIPRP3	119548	broad.mit.edu	37	chr10	118215240	118215240	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaattctttcagaaaaaaTttgaatattccccttctaaa	17	14	2	8	0	3	2	1	1	2	1	4	2	4	2	2	0	1	0	2	0	9	7			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr10:118215240T>A	uc001lcl.3	+	5	564	c.463T>A	c.(463-465)TTT>ATT	p.F155I		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	155					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		TCAGAAAAAATTTGAATATTC	0.373													19	38					0	0	0.006122	0	0		A	118215240	A	A	118215240	3	1	29	1	0	0	0	0	1	0	0	0	12171	1493	52	5	481	5	PNLIPRP3	10	118215240	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	2410551	118215240	17319507	76	31200											
C11orf41	25758	broad.mit.edu	37	chr11	33589770	33589770	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accctgggaagctacactgtGcaggtaggtgtatacagagc	11	8	13	9	0	0	1	0	0	0	1	0	2	0	2	1	3	5	4	1	3	5	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr11:33589770G>A	uc001mup.3	+	8	3478	c.3354G>A	c.(3352-3354)GTG>GTA	p.V1118V	C11orf41_uc001mun.1_Silent_p.V1118V	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	1112						integral to membrane				ovary(2)	2						GCTACACTGTGCAGGTAGGTG	0.562													9	21					0	0	0.006214	0	0		A	33589770	A	A	33589770	2	1	29	1	0	0	0	0	0	0	0	1	1643	1306	46	2		2	C11orf41	11	33589770	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08		33589770	101416746	77	31201											
OR5T3	390154	broad.mit.edu	37	chr11	56019933	56019933	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaggattcctggctccaCaaccccatgtattattttct	9	15	6	11	0	1	1	0	1	1	0	3	2	3	2	4	2	1	2	4	2	3	6			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr11:56019933C>A	uc010rjd.1	+	1	258	c.258C>A	c.(256-258)CAC>CAA	p.H86Q		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	86	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					CCTGGCTCCACAACCCCATGT	0.363													19	54					2.4624e-09	2.85325e-09	0.008871	1	0		A	56019933	A	A	56019933	3	1	29	1	0	0	0	0	1	0	0	0	11202	477	17	5	260	5	OR5T3	11	56019933	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	22430163	56019933	78986583	78	31202											
INCENP	3619	broad.mit.edu	37	chr11	61898025	61898025	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcagaaggcttgccaagaaGactgccgaagagccagctgc	13	4	13	11	1	0	4	0	0	0	4	0	5	0	4	3	1	6	3	3	1	4	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr11:61898025G>C	uc001nsw.1	+	4	1228	c.1026G>C	c.(1024-1026)AAG>AAC	p.K342N	INCENP_uc009ynv.2_Missense_Mutation_p.K342N|INCENP_uc009ynw.1_Missense_Mutation_p.K342N|INCENP_uc001nsx.1_Missense_Mutation_p.K342N	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	342					chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						TTGCCAAGAAGACTGCCGAAG	0.607													12	54					0	0	0.013537	0	0		C	61898025	C	C	61898025	3	2	29	1	0	0	0	0	1	0	0	0	7749	933	33	5	1036	5	INCENP	11	61898025	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	5878092	61898025	73108491	79	31203											
SLC3A2	6520	broad.mit.edu	37	chr11	62648671	62648671	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggcggcagccgcggctaAgttcacgggcctgtccaagg	7	5	17	12	4	1	0	1	0	0	0	2	1	2	1	3	6	1	3	3	6	2	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr11:62648671A>C	uc001nwd.2	+	4	703	c.479A>C	c.(478-480)AAG>ACG	p.K160T	SLC3A2_uc001nwb.2_Missense_Mutation_p.K191T|SLC3A2_uc001nwc.2_Missense_Mutation_p.K161T|SLC3A2_uc001nwe.2_Missense_Mutation_p.K129T|SLC3A2_uc001nwf.2_Missense_Mutation_p.K98T|SLC3A2_uc001nwg.2_Missense_Mutation_p.K59T|SLC3A2_uc010rml.1_5'Flank	NM_002394	NP_002385	P08195	4F2_HUMAN	solute carrier family 3, member 2 isoform c	160	Cytoplasmic (Potential).				blood coagulation|carbohydrate metabolic process|cell growth|cellular nitrogen compound metabolic process|leucine import|leukocyte migration|tryptophan transport	apical plasma membrane|cell surface|integral to membrane|melanosome	calcium:sodium antiporter activity|catalytic activity|cation binding|neutral amino acid transmembrane transporter activity|protein binding				0						GCCGCGGCTAAGTTCACGGGC	0.687											OREG0021031	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	14					0	0	0.001984	0	0		C	62648671	C	C	62648671	3	2	29	1	0	0	0	0	1	0	0	0	14652	72	3	5	593	5	SLC3A2	11	62648671	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	750646	62648671	72357845	80	31204											
RBM4	5936	broad.mit.edu	37	chr11	66410965	66410965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagccggcttaggactGcgcccgggatgggagaccag	8	4	15	14	3	0	1	0	0	0	1	0	4	0	3	5	4	2	1	5	4	1	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr11:66410965G>A	uc009yrj.2	+	3	945	c.457G>A	c.(457-459)GCG>ACG	p.A153T	RBM4_uc009yrk.2_Missense_Mutation_p.A128T|RBM4_uc001oiw.1_Missense_Mutation_p.A153T|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Missense_Mutation_p.A153T|RBM4_uc001oiz.1_Missense_Mutation_p.A153T	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	153					circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		GCTTAGGACTGCGCCCGGGAT	0.582													24	100					0	0	0.021523	0	0		A	66410965	A	A	66410965	3	1	29	1	0	0	0	0	1	0	0	0	13159	1319	46	2	463	2	RBM4	11	66410965	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	3762294	66410965	68595551	81	31205											
IGHMBP2	3508	broad.mit.edu	37	chr11	68703977	68703977	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacgtccaccaggaccggaAgccagcggcaggagggaggc	10	2	16	13	3	0	0	0	0	0	0	1	4	1	4	4	6	3	1	4	6	2	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr11:68703977A>G	uc001ook.1	+	13	2131	c.2029A>G	c.(2029-2031)AGC>GGC	p.S677G	IGHMBP2_uc001ool.1_Missense_Mutation_p.S301G|IGHMBP2_uc001oom.1_Missense_Mutation_p.S255G	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	677	SS DNA-binding (By similarity).				cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CAGGACCGGAAGCCAGCGGCA	0.627													8	87					0	0	0.00308	0	0		G	68703977	G	G	68703977	3	3	29	1	0	0	0	0	1	0	0	0	7607	72	3	3	2079	3	IGHMBP2	11	68703977	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	2293012	68703977	66302539	82	31206											
FAT3	120114	broad.mit.edu	37	chr11	92534124	92534124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcctctgtttcagtggccGacctcctggaaatcgatcct	7	11	10	13	2	2	0	1	0	1	0	5	3	4	1	5	3	0	1	5	3	1	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr11:92534124G>A	uc001pdj.3	+	9	7962	c.7945G>A	c.(7945-7947)GAC>AAC	p.D2649N		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2649	Cadherin 24.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TTCAGTGGCCGACCTCCTGGA	0.458										TCGA Ovarian(4;0.039)			7	28					0	0	0.00308	0	0		A	92534124	A	A	92534124	3	1	29	1	0	0	0	0	1	0	0	0	5705	1058	37	1	7979	1	FAT3	11	92534124	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	23830147	92534124	42472392	83	31207											
ATM	472	broad.mit.edu	37	chr11	108121510	108121511	+	Frame_Shift_Del	DEL	TC	-	-																															ctccattactgatgatactaTctcagcttctaccccaacag																										TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr11:108121510_108121511delTC	uc001pkb.1	+	10	1703_1704	c.1318_1319delTC	c.(1318-1320)TCTfs	p.S440fs	ATM_uc009yxr.1_Frame_Shift_Del_p.S440fs	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	440					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		GATGATACTATCTCAGCTTCTA	0.401			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			42	90	---	---	---	---						.	-	108121511	-	-	108121510	7	5	29	1	0	1	0	1	0	0	0	0	1110	1435	50	0	1352	0	ATM	11	108121510	Frame_Shift_Del	DEL	TC	TCGA-BR-6454-01A-11D-1800-08	15587386	108121510	26885006	84	31208											
ATM	472	broad.mit.edu	37	chr11	108163407	108163407	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgttgtgacttattaagtCaggtttgccagacagccgtg	8	15	11	7	1	1	2	1	1	0	1	1	2	1	2	2	1	2	2	2	1	2	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr11:108163407C>T	uc001pkb.1	+	30	4883	c.4498C>T	c.(4498-4500)CAG>TAG	p.Q1500*	ATM_uc009yxr.1_Nonsense_Mutation_p.Q1500*|ATM_uc001pke.1_Nonsense_Mutation_p.Q152*|ATM_uc001pkf.2_Intron	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1500					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		CTTATTAAGTCAGGTTTGCCA	0.403			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			97	140					0	0	0.01441	0	0		T	108163407	T	T	108163407	4	4	29	1	0	0	0	0	0	1	0	0	1110	827	29	4	4612	4	ATM	11	108163407	Nonsense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	41897	108163407	26843109	85	31209											
SLC37A2	219855	broad.mit.edu	37	chr11	124949017	124949017	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttccccagtggggttttTggggagcggcttccgctccg	2	12	14	13	3	1	0	0	0	1	0	4	1	4	1	4	5	1	3	4	5	0	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr11:124949017T>G	uc001qbn.2	+	5	575	c.324T>G	c.(322-324)TTT>TTG	p.F108L	SLC37A2_uc010sau.1_Missense_Mutation_p.F108L	NM_001145290	NP_001138762	Q8TED4	SPX2_HUMAN	solute carrier family 37 (glycerol-3-phosphate	108	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane				ovary(2)	2	all_hematologic(175;0.215)	Breast(109;0.012)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.152)|all_lung(97;0.159)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0384)		GTGGGGTTTTTGGGGAGCGGC	0.438													35	163					0	0	0.021022	0	0		G	124949017	G	G	124949017	3	3	29	1	0	0	0	0	1	0	0	0	14623	1809	63	5	342	5	SLC37A2	11	124949017	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	16785610	124949017	10057499	86	31210											
NCAPD2	9918	broad.mit.edu	37	chr12	6623969	6623969	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaaagtgtccccaagagctGagtcgagacccttcagggac	12	6	11	12	1	1	3	1	1	0	2	3	5	2	4	3	1	1	1	3	1	3	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr12:6623969G>A	uc001qoo.2	+	9	916	c.870G>A	c.(868-870)CTG>CTA	p.L290L	NCAPD2_uc009zen.1_Silent_p.L162L|NCAPD2_uc010sfd.1_Silent_p.L245L	NM_014865	NP_055680	Q15021	CND1_HUMAN	non-SMC condensin I complex, subunit D2	290	Interactions with SMC2 and SMC4.				cell division|mitotic chromosome condensation	condensin core heterodimer|cytoplasm	histone binding			ovary(2)|lung(1)|breast(1)|kidney(1)	5						CCCAAGAGCTGAGTCGAGACC	0.473													21	118					0	0	0.010504	0	0		A	6623969	A	A	6623969	2	1	29	1	0	0	0	0	0	0	0	1	10224	1277	45	4		4	NCAPD2	12	6623969	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08		6623969	127227926	87	31211											
SOX5	6660	broad.mit.edu	37	chr12	23757383	23757383	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgctggtaggagatacagCagcaccaaggttgccttggg	11	8	14	8	0	0	1	0	0	0	1	0	2	0	1	2	4	5	5	2	4	4	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr12:23757383C>A	uc001rfw.2	-	9	1204	c.1102G>T	c.(1102-1104)GCT>TCT	p.A368S	SOX5_uc001rfx.2_Missense_Mutation_p.A355S|SOX5_uc001rfy.2_Missense_Mutation_p.A355S|SOX5_uc010siv.1_Missense_Mutation_p.A355S|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.A320S	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	368					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						GGAGATACAGCAGCACCAAGG	0.507													17	103					6.94344e-10	8.13163e-10	0.006122	1	0		A	23757383	A	A	23757383	3	1	29	1	0	0	0	0	1	0	0	0	14979	710	25	5	1227	5	SOX5	12	23757383	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	17133414	23757383	110094512	88	31212											
NELL2	4753	broad.mit.edu	37	chr12	44926420	44926420	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcatggtagccatctctgCactcacagtggtaccatcca	9	11	8	13	0	3	0	2	0	1	0	5	0	4	0	3	2	3	3	3	2	2	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr12:44926420C>A	uc001rog.2	-	16	2343	c.1748G>T	c.(1747-1749)TGC>TTC	p.C583F	NELL2_uc001rof.3_Missense_Mutation_p.C582F|NELL2_uc001roh.2_Missense_Mutation_p.C583F|NELL2_uc009zkd.2_Intron|NELL2_uc010skz.1_Missense_Mutation_p.C633F|NELL2_uc010sla.1_Missense_Mutation_p.C606F|NELL2_uc001roi.1_Missense_Mutation_p.C583F|NELL2_uc010slb.1_Missense_Mutation_p.C582F	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	583	EGF-like 5; calcium-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		GCCATCTCTGCACTCACAGTG	0.428													48	70					6.42738e-09	7.4084e-09	0.01441	1	0		A	44926420	A	A	44926420	3	1	29	1	0	0	0	0	1	0	0	0	10353	710	25	5	722	5	NELL2	12	44926420	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	21169037	44926420	88925475	89	31213											
ARID2	196528	broad.mit.edu	37	chr12	46244555	46244555	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atggttactattgctggtgtCccaagtccacaagcctcaag	10	11	9	11	0	1	0	1	0	0	0	3	0	3	0	3	2	3	2	3	2	5	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr12:46244555C>G	uc001ros.1	+	15	2649	c.2649C>G	c.(2647-2649)GTC>GTG	p.V883V	ARID2_uc001ror.2_Silent_p.V883V|ARID2_uc009zkg.1_Silent_p.V339V|ARID2_uc009zkh.1_Silent_p.V510V|ARID2_uc001rou.1_Silent_p.V217V	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	883	Gln-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TTGCTGGTGTCCCAAGTCCAC	0.448													9	92					0	0	0.006214	0	0		G	46244555	G	G	46244555	2	3	29	1	0	0	0	0	0	0	0	1	915	842	30	5		5	ARID2	12	46244555	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	1318135	46244555	87607340	90	31214											
KRT73	319101	broad.mit.edu	37	chr12	53004496	53004496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtactcgcgcagcatccGtgccagctcctccttggcct	4	11	10	16	3	0	0	0	0	0	0	4	0	3	0	5	2	4	4	5	2	1	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr12:53004496G>A	uc001sas.2	-	7	1269	c.1234C>T	c.(1234-1236)CGG>TGG	p.R412W		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	412	Rod.|Coil 2.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CGCAGCATCCGTGCCAGCTCC	0.647													9	103					0	0	0.008291	0	0		A	53004496	A	A	53004496	3	1	29	1	0	0	0	0	1	0	0	0	8502	1144	40	1	400	1	KRT73	12	53004496	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	6759941	53004496	80847399	91	31215											
ERBB3	2065	broad.mit.edu	37	chr12	56489534	56489534	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcacttttctctactggCgtgggcgccggattcagaat	6	11	13	11	4	2	1	1	0	1	1	3	2	2	2	1	4	1	1	1	4	2	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr12:56489534C>A	uc001sjh.2	+	17	2192	c.1999C>A	c.(1999-2001)CGT>AGT	p.R667S	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Missense_Mutation_p.R24S|ERBB3_uc010sqc.1_Missense_Mutation_p.R608S|ERBB3_uc009zok.2_Missense_Mutation_p.R109S|ERBB3_uc001sjk.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	667	Cytoplasmic (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			TCTCTACTGGCGTGGGCGCCG	0.438													62	83					8.77104e-35	1.07913e-34	0.01441	1	0		A	56489534	A	A	56489534	3	1	29	1	0	0	0	0	1	0	0	0	5216	768	27	5	2196	5	ERBB3	12	56489534	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	3485038	56489534	77362361	92	31216											
GLT8D2	83468	broad.mit.edu	37	chr12	104393227	104393227	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgatcttccctttgaggAccatcgggttgaattccacg	7	13	10	11	2	2	3	0	3	2	0	5	4	4	4	3	2	0	1	3	2	1	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr12:104393227A>G	uc001tkh.1	-	6	756	c.350T>C	c.(349-351)GTC>GCC	p.V117A	GLT8D2_uc001tki.1_Missense_Mutation_p.V117A	NM_031302	NP_112592	Q9H1C3	GL8D2_HUMAN	glycosyltransferase 8 domain containing 2	117	Lumenal (Potential).					integral to membrane	transferase activity, transferring glycosyl groups			ovary(1)|skin(1)	2						CCCTTTGAGGACCATCGGGTT	0.443													23	100					0	0	0.012319	0	0		G	104393227	G	G	104393227	3	3	29	1	0	0	0	0	1	0	0	0	6485	275	10	3	723	3	GLT8D2	12	104393227	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	47903693	104393227	29458668	93	31217											
POP5	51367	broad.mit.edu	37	chr12	121018991	121018991	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcgtgtcccgtacgaggctGctcagaactcggtcatcgag	8	9	12	12	5	2	1	2	0	0	1	6	3	3	1	1	2	3	3	1	2	2	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr12:121018991G>A	uc001tys.2	-	2	122	c.90C>T	c.(88-90)AGC>AGT	p.S30S	POP5_uc001tyt.2_Silent_p.S30S	NM_015918	NP_057002	Q969H6	POP5_HUMAN	processing of precursor 5 isoform a	30					tRNA processing		protein binding|ribonuclease P activity				0	all_neural(191;0.077)|Medulloblastoma(191;0.0922)					GTACGAGGCTGCTCAGAACTC	0.662													11	59					0	0	0.013537	0	0		A	121018991	A	A	121018991	2	1	29	1	0	0	0	0	0	0	0	1	12272	1310	46	2		2	POP5	12	121018991	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	16625764	121018991	12832904	94	31218											
TMEM132D	121256	broad.mit.edu	37	chr12	129566418	129566418	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagctccgtgatgtccacTtgccagtctgagcccagcag	8	9	10	14	1	2	2	1	2	1	0	4	2	4	2	4	0	4	2	4	0	0	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr12:129566418T>C	uc009zyl.1	-	7	2137	c.1809A>G	c.(1807-1809)CAA>CAG	p.Q603Q	TMEM132D_uc001uia.2_Silent_p.Q141Q	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	603	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TGATGTCCACTTGCCAGTCTG	0.632													9	69					0	0	0.006214	0	0		C	129566418	C	C	129566418	2	2	29	1	0	0	0	0	0	0	0	1	16072	1606	56	3		3	TMEM132D	12	129566418	Silent	SNP	T	TCGA-BR-6454-01A-11D-1800-08	8547427	129566418	4285477	95	31219											
POLE	5426	broad.mit.edu	37	chr12	133233758	133233758	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agggtgaagagctcactgatCttcttctgcttgtagacatc	9	13	10	9	0	4	4	1	2	3	2	5	4	4	4	0	1	2	3	0	1	2	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr12:133233758C>T	uc001uks.1	-	29	3590	c.3546G>A	c.(3544-3546)AAG>AAA	p.K1182K	POLE_uc001ukr.1_5'UTR|POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Silent_p.K1155K	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1182					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		GCTCACTGATCTTCTTCTGCT	0.567								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					14	64					0	0	0.003163	0	0		T	133233758	T	T	133233758	2	4	29	1	0	0	0	0	0	0	0	1	12215	912	32	4		4	POLE	12	133233758	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	3667340	133233758	618137	96	31220											
FLT1	2321	broad.mit.edu	37	chr13	29001983	29001983	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcatcctcttcagttacGtccttgataattaacgagta	10	14	6	11	2	2	1	1	1	1	0	4	2	4	1	3	0	3	3	3	0	4	6			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr13:29001983G>A	uc001usb.3	-	9	1467	c.1182C>T	c.(1180-1182)GAC>GAT	p.D394D	FLT1_uc010aar.1_Silent_p.D394D|FLT1_uc001usc.3_Silent_p.D394D|FLT1_uc010tdp.1_Silent_p.D394D	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	394	Ig-like C2-type 4.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	CTTCAGTTACGTCCTTGATAA	0.388													19	72					0	0	0.012319	0	0		A	29001983	A	A	29001983	2	1	29	1	0	0	0	0	0	0	0	1	5955	1136	40	1		1	FLT1	13	29001983	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08		29001983	86167895	97	31221											
SLC46A3	283537	broad.mit.edu	37	chr13	29292018	29292018	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctatcagatgaaaaagTgtagttgccagtttcttccc	11	14	8	8	0	2	2	1	1	1	1	3	2	3	2	2	0	2	4	2	0	4	6			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr13:29292018T>A	uc001usi.2	-	1	1088	c.118A>T	c.(118-120)ACT>TCT	p.T40S	SLC46A3_uc001usg.2_5'Flank|SLC46A3_uc001usj.2_Missense_Mutation_p.T40S|SLC46A3_uc001ush.2_Missense_Mutation_p.T40S|SLC46A3_uc001usk.2_5'Flank	NM_181785	NP_861450	Q7Z3Q1	S46A3_HUMAN	solute carrier family 46, member 3 isoform a	40	Extracellular (Potential).				transmembrane transport	integral to membrane				central_nervous_system(1)|skin(1)	2		Lung SC(185;0.0367)		all cancers(112;0.159)		GATGAAAAAGTGTAGTTGCCA	0.368													14	105					0	0	0.020292	0	0		A	29292018	A	A	29292018	3	1	29	1	0	0	0	0	1	0	0	0	14671	1696	59	5	1301	5	SLC46A3	13	29292018	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	290035	29292018	85877860	98	31222											
DGKH	160851	broad.mit.edu	37	chr13	42740687	42740687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcgttctgtgttagtcCtctattggtttttgtcaatt	5	23	7	6	1	3	0	1	0	2	0	5	0	4	0	1	1	0	3	1	1	3	9			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr13:42740687C>T	uc001uyl.1	+	9	1016	c.995C>T	c.(994-996)CCT>CTT	p.P332L	DGKH_uc010tfh.1_Missense_Mutation_p.P332L|DGKH_uc001uym.1_Missense_Mutation_p.P332L|DGKH_uc010tfi.1_Missense_Mutation_p.P87L|DGKH_uc010tfj.1_Missense_Mutation_p.P187L|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Missense_Mutation_p.P187L|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	332	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		TGTGTTAGTCCTCTATTGGTT	0.358													17	111					0	0	0.00499	0	0		T	42740687	T	T	42740687	3	4	29	1	0	0	0	0	1	0	0	0	4476	681	24	4	1029	4	DGKH	13	42740687	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	13448669	42740687	72429191	99	31223											
KPNA3	3839	broad.mit.edu	37	chr13	50279853	50279853	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tagaaccacctgaaccacttGagaatctttcactgacagta	14	10	6	11	0	2	4	1	3	1	2	2	5	2	4	3	0	2	1	3	0	5	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr13:50279853G>C	uc001vdj.2	-	15	1691	c.1276C>G	c.(1276-1278)CAA>GAA	p.Q426E		NM_002267	NP_002258	O00505	IMA3_HUMAN	karyopherin alpha 3	426	ARM 9.				interspecies interaction between organisms|NLS-bearing substrate import into nucleus|protein complex assembly	cytoplasm|nuclear pore	nuclear localization sequence binding|protein transporter activity				0		Lung NSC(96;2.46e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.42e-09)		TGAACCACTTGAGAATCTTTC	0.363													15	97					0	0	0.020292	0	0		C	50279853	C	C	50279853	3	2	29	1	0	0	0	0	1	0	0	0	8447	1299	45	5	301	5	KPNA3	13	50279853	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	7539166	50279853	64890025	100	31224											
TGM1	7051	broad.mit.edu	37	chr14	24724611	24724611	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgatgtcctcccgcatgTtggagctgatggcctttgtg	5	13	14	9	1	0	2	0	2	0	0	2	3	2	3	3	3	1	3	3	3	0	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr14:24724611T>A	uc001wod.2	-	11	1728	c.1604A>T	c.(1603-1605)AAC>ATC	p.N535I	TGM1_uc010tog.1_Missense_Mutation_p.N93I	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	535					cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	CTCCCGCATGTTGGAGCTGAT	0.547													10	37					0	0	0.006214	0	0		A	24724611	A	A	24724611	3	1	29	1	0	0	0	0	1	0	0	0	15854	1725	60	5	869	5	TGM1	14	24724611	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08		24724611	82624929	101	31225											
HECTD1	25831	broad.mit.edu	37	chr14	31585523	31585523	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgaagcaatttttgtacaTagtaaaagatggttgatctg	14	15	9	3	0	1	3	0	2	1	1	1	3	1	3	0	1	2	4	0	1	6	7			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr14:31585523T>C	uc001wrc.1	-	30	6026	c.5537A>G	c.(5536-5538)TAT>TGT	p.Y1846C	HECTD1_uc001wra.1_5'UTR|HECTD1_uc001wrb.1_5'UTR|HECTD1_uc001wrd.1_Missense_Mutation_p.Y1314C	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1846					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		TTTTTGTACATAGTAAAAGAT	0.378													35	56					0	0	0.015359	0	0		C	31585523	C	C	31585523	3	2	29	1	0	0	0	0	1	0	0	0	7055	1406	49	3	2351	3	HECTD1	14	31585523	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	6860912	31585523	75764017	102	31226											
SPTB	6710	broad.mit.edu	37	chr14	65252605	65252605	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accccaagaaatcctcaaacTtccggatcccagcctctgca	12	7	5	17	1	2	1	1	0	1	1	5	2	5	2	6	1	3	1	6	1	3	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr14:65252605T>A	uc001xht.2	-	16	3680	c.3626A>T	c.(3625-3627)AAG>ATG	p.K1209M	SPTB_uc001xhr.2_Missense_Mutation_p.K1209M|SPTB_uc001xhs.2_Missense_Mutation_p.K1209M|SPTB_uc001xhu.2_Missense_Mutation_p.K1209M	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1209	Spectrin 9.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		ATCCTCAAACTTCCGGATCCC	0.512													53	171					0	0	0.01441	0	0		A	65252605	A	A	65252605	3	1	29	1	0	0	0	0	1	0	0	0	15143	1609	56	5	3509	5	SPTB	14	65252605	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	33667082	65252605	42096935	103	31227											
KIAA1409	57578	broad.mit.edu	37	chr14	94088124	94088124	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcttttgtttacattagaCgaacatcgtaggaagtcgtg	10	14	10	7	4	0	1	0	0	0	1	3	3	0	2	0	1	2	3	0	1	5	6			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr14:94088124C>T	uc001ybv.1	+	28	4163	c.4080C>T	c.(4078-4080)GAC>GAT	p.D1360D	KIAA1409_uc001ybs.1_Silent_p.D1338D	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1515						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TTACATTAGACGAACATCGTA	0.438													13	73					0	0	0.013537	0	0		T	94088124	T	T	94088124	2	4	29	1	0	0	0	0	0	0	0	1	8246	535	19	1		1	KIAA1409	14	94088124	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	28835519	94088124	13261416	104	31228											
HERC2	8924	broad.mit.edu	37	chr15	28412927	28412927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcggaggctgagggggccGacggagtcactgcagagggg	8	3	22	8	3	1	2	1	1	0	1	1	6	1	4	1	7	2	2	1	7	0	0	rs146303265	byFrequency	TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr15:28412927G>A	uc001zbj.2	-	68	10566	c.10460C>T	c.(10459-10461)TCG>TTG	p.S3487L		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3487					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TGAGGGGGCCGACGGAGTCAC	0.532													24	118					0	0	0.01892	0	0		A	28412927	A	A	28412927	3	1	29	1	0	0	0	0	1	0	0	0	7074	1059	37	1	4148	1	HERC2	15	28412927	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08		28412927	74118465	105	31229											
KIAA1370	56204	broad.mit.edu	37	chr15	52970229	52970229	+	Translation_Start_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcttcattttcacatccAattttcgcccagagtgctgt	7	15	7	12	1	2	1	2	0	0	1	4	1	3	1	2	1	1	2	2	1	1	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr15:52970229A>C	uc002acg.3	-	2	143	c.-10T>G	c.(-12--8)ATTGG>ATGGG		KIAA1370_uc002ach.3_RNA|KIAA1370_uc010bfg.1_Translation_Start_Site	NM_019600	NP_062546	Q32MH5	K1370_HUMAN	hypothetical protein LOC56204												0				all cancers(107;0.0803)		TTTCACATCCAATTTTCGCCC	0.458													20	68					0	0	0.008871	0	0		C	52970229	C	C	52970229	1	2	29	1	0	0	0	0	0	0	0	0	8242	145	5	5		5	KIAA1370	15	52970229	Translation_Start_Site	SNP	A	TCGA-BR-6454-01A-11D-1800-08	24557302	52970229	49561163	106	31230											
TEX9	374618	broad.mit.edu	37	chr15	56704540	56704540	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgcaaaaacaggctgcaaGtagtcaaagtgccacagagg	16	5	11	9	0	1	1	1	0	0	1	1	1	1	1	1	2	4	4	1	2	5	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr15:56704540G>C	uc002adp.2	+	10	874	c.869G>C	c.(868-870)AGT>ACT	p.S290T	TEX9_uc010ugl.1_Missense_Mutation_p.S215T	NM_198524	NP_940926	Q8N6V9	TEX9_HUMAN	testis expressed 9	290	Potential.										0				all cancers(107;0.0394)|GBM - Glioblastoma multiforme(80;0.056)		CAGGCTGCAAGTAGTCAAAGT	0.328													15	74					0	0	0.020292	0	0		C	56704540	C	C	56704540	3	2	29	1	0	0	0	0	1	0	0	0	15809	1029	36	5	907	5	TEX9	15	56704540	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	3734311	56704540	45826852	107	31231											
MNS1	55329	broad.mit.edu	37	chr15	56748664	56748664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagttttgccaattccataGccagtttttcttcttgtttg	6	20	6	9	0	3	0	1	0	2	0	4	0	4	0	3	0	2	3	3	0	2	9			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr15:56748664G>A	uc002adr.2	-	3	446	c.281C>T	c.(280-282)GCT>GTT	p.A94V	MNS1_uc010bfo.2_5'UTR	NM_018365	NP_060835	Q8NEH6	MNS1_HUMAN	meiosis-specific nuclear structural 1	94	Potential.|Glu-rich.				meiosis					ovary(1)	1				all cancers(107;0.0196)|GBM - Glioblastoma multiforme(80;0.101)		CAATTCCATAGCCAGTTTTTC	0.348													8	59					0	0	0.00308	0	0		A	56748664	A	A	56748664	3	1	29	1	0	0	0	0	1	0	0	0	9695	971	34	2	1238	2	MNS1	15	56748664	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	44124	56748664	45782728	108	31232											
EDC3	80153	broad.mit.edu	37	chr15	74948184	74948184	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgagtgggcctttcatttGggatgccccgggaacgggta	7	9	15	10	3	1	0	1	0	0	0	1	3	1	2	4	4	2	1	4	4	2	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr15:74948184G>C	uc002ayn.2	-	7	1198	c.710C>G	c.(709-711)CCA>CGA	p.P237R	EDC3_uc002ayo.2_Missense_Mutation_p.P237R|EDC3_uc002aym.2_Missense_Mutation_p.P237R	NM_001142443	NP_001135915	Q96F86	EDC3_HUMAN	enhancer of mRNA decapping 3	237	Required for interaction with DDX6 (By similarity).				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1						CCTTTCATTTGGGATGCCCCG	0.507													37	126					0	0	0.006999	0	0		C	74948184	C	C	74948184	3	2	29	1	0	0	0	0	1	0	0	0	4913	1348	47	5	832	5	EDC3	15	74948184	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	18199520	74948184	27583208	109	31233											
KIAA1199	57214	broad.mit.edu	37	chr15	81187373	81187373	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctcagcaccgaggttgtcTacaaaaaaggccaggattat	14	8	9	10	1	2	0	1	0	1	0	2	2	2	1	3	3	2	2	3	3	5	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr15:81187373T>C	uc002bfw.1	+	10	1389	c.1129T>C	c.(1129-1131)TAC>CAC	p.Y377H	KIAA1199_uc010unn.1_Missense_Mutation_p.Y377H	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	377										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CGAGGTTGTCTACAAAAAAGG	0.498													13	125					0	0	0.003163	0	0		C	81187373	C	C	81187373	3	2	29	1	0	0	0	0	1	0	0	0	8229	1522	53	3	1163	3	KIAA1199	15	81187373	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	6239189	81187373	21344019	110	31234											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84506901	84506901	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacaactgtggagtctgtGccggcgatggctccacctgc	7	8	14	12	2	1	0	0	0	1	0	2	3	2	2	3	4	3	1	3	4	1	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr15:84506901G>T	uc002bjz.3	+	7	885	c.661G>T	c.(661-663)GCC>TCC	p.A221S	ADAMTSL3_uc002bjy.1_Missense_Mutation_p.A221S|ADAMTSL3_uc010bmt.1_Missense_Mutation_p.A221S|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.A221S	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	221						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			TGGAGTCTGTGCCGGCGATGG	0.522													15	113					0.000308642	0.000341377	0.003163	1	0		T	84506901	T	T	84506901	3	4	29	1	0	0	0	0	1	0	0	0	276	1319	46	5	683	5	ADAMTSL3	15	84506901	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	3319528	84506901	18024491	111	31235											
KLHL25	64410	broad.mit.edu	37	chr15	86311859	86311859	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgccagggatgtgtgtcCccccaccacatagaggcagt	8	7	11	15	0	0	1	0	0	0	1	1	2	1	2	6	2	1	1	6	2	1	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr15:86311859C>A	uc002bly.2	-	2	1386	c.1183G>T	c.(1183-1185)GGA>TGA	p.G395*		NM_022480	NP_071925	Q9H0H3	ENC2_HUMAN	BTB/POZ KELCH domain protein	395	Kelch 3.					cytoplasm				ovary(2)	2						GATGTGTGTCCCCCCACCACA	0.602													15	60					4.14922e-12	4.93847e-12	0.004007	1	0		A	86311859	A	A	86311859	4	1	29	1	0	0	0	0	0	1	0	0	8396	632	22	5	590	5	KLHL25	15	86311859	Nonsense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	1804958	86311859	16219533	112	31236											
AGBL1	123624	broad.mit.edu	37	chr15	87089267	87089267	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatggccactcccaaaagaAgaatgtgttcctttatggct	11	11	8	11	0	0	2	0	0	0	2	2	2	2	2	4	2	0	2	4	2	5	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr15:87089267A>C	uc002blz.1	+	19	2662	c.2582A>C	c.(2581-2583)AAG>ACG	p.K861T		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	861					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						TCCCAAAAGAAGAATGTGTTC	0.438													6	84					0	0	0.001168	0	0		C	87089267	C	C	87089267	3	2	29	1	0	0	0	0	1	0	0	0	375	72	3	5	2652	5	AGBL1	15	87089267	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	777408	87089267	15442125	113	31237											
BLM	641	broad.mit.edu	37	chr15	91304081	91304081	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgaaaggcctttattcaAtacccatttacagaagtcct	12	15	5	9	0	1	2	1	1	0	1	2	2	2	2	3	1	2	0	3	1	6	8			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr15:91304081A>G	uc002bpr.2	+	7	1575	c.1478A>G	c.(1477-1479)AAT>AGT	p.N493S	BLM_uc010uqh.1_Missense_Mutation_p.N493S|BLM_uc010uqi.1_Missense_Mutation_p.N118S|BLM_uc010bnx.2_Missense_Mutation_p.N493S|BLM_uc002bps.1_Missense_Mutation_p.N55S	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	493					double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			CCTTTATTCAATACCCATTTA	0.403			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				15	188					0	0	0.003163	0	0		G	91304081	G	G	91304081	3	3	29	1	0	0	0	0	1	0	0	0	1446	101	4	3	1500	3	BLM	15	91304081	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	4214814	91304081	11227311	114	31238											
PGPEP1L	145814	broad.mit.edu	37	chr15	99511811	99511811	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctggatgatgactctcaAggctcttcccagcaggctgg	7	11	11	12	0	2	2	1	2	2	0	5	3	4	3	2	4	1	3	2	4	1	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr15:99511811A>C	uc002bum.2	-	5	693	c.487T>G	c.(487-489)TTG>GTG	p.L163V	PGPEP1L_uc010bop.2_Silent_p.P107P|PGPEP1L_uc002bun.2_RNA	NM_001102612	NP_001096082	A6NFU8	PGPIL_HUMAN	pyroglutamyl-peptidase 1-like protein	163					proteolysis		cysteine-type peptidase activity				0						ATGACTCTCAAGGCTCTTCCC	0.562													5	27					0	0	0.014758	0	0		C	99511811	C	C	99511811	3	2	29	1	0	0	0	0	1	0	0	0	11823	69	3	5	107	5	PGPEP1L	15	99511811	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	8207730	99511811	3019581	115	31239											
LYSMD4	145748	broad.mit.edu	37	chr15	100272076	100272076	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgcaaaaccacacggtgAgactcttcttcagaagagtc	12	7	10	12	2	3	3	1	1	2	3	4	4	3	3	2	2	1	1	2	2	3	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr15:100272076A>G	uc002bvk.2	-	2	192	c.129T>C	c.(127-129)TCT>TCC	p.S43S	LYSMD4_uc002bvj.1_Intron|LYSMD4_uc010bou.1_Intron|LYSMD4_uc002bvl.2_Missense_Mutation_p.L14P|LYSMD4_uc002bvm.2_Silent_p.S43S|LYSMD4_uc010bov.2_Silent_p.S43S			Q5XG99	LYSM4_HUMAN	SubName: Full=cDNA FLJ77040, highly similar to Homo sapiens LysM, putative peptidoglycan-binding, domain containing 4, mRNA; SubName: Full=LysM, putative peptidoglycan-binding, domain containing 4, isoform CRA_c;	43	Extracellular (Potential).				cell wall macromolecule catabolic process	integral to membrane					0	Lung NSC(78;0.00335)|all_lung(78;0.00659)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00162)|LUSC - Lung squamous cell carcinoma(107;0.17)|Lung(145;0.208)			CCACACGGTGAGACTCTTCTT	0.627													7	67					0	0	0.00308	0	0		G	100272076	G	G	100272076	2	3	29	1	0	0	0	0	0	0	0	1	9145	304	11	3		3	LYSMD4	15	100272076	Silent	SNP	A	TCGA-BR-6454-01A-11D-1800-08	760265	100272076	2259316	116	31240											
TSC2	7249	broad.mit.edu	37	chr16	2134593	2134593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgctcgcccagtggcctccGgccccgaggttacaccatct	5	7	10	19	4	1	0	0	0	1	0	3	1	2	0	7	3	1	2	7	3	1	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr16:2134593G>A	uc002con.2	+	34	4476	c.4370G>A	c.(4369-4371)CGG>CAG	p.R1457Q	TSC2_uc010bsd.2_Missense_Mutation_p.R1434Q|TSC2_uc002coo.2_Missense_Mutation_p.R1390Q|TSC2_uc010uvv.1_Missense_Mutation_p.R1354Q|TSC2_uc010uvw.1_Missense_Mutation_p.R1342Q|TSC2_uc002cop.2_Missense_Mutation_p.R1213Q|TSC2_uc002coq.2_Missense_Mutation_p.R232Q|TSC2_uc002cor.2_Missense_Mutation_p.R158Q	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	1457					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				AGTGGCCTCCGGCCCCGAGGT	0.672			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				8	23					0	0	0.004482	0	0		A	2134593	A	A	2134593	3	1	29	1	0	0	0	0	1	0	0	0	16632	1116	39	1	4500	1	TSC2	16	2134593	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08		2134593	88220160	117	31241											
OTOA	146183	broad.mit.edu	37	chr16	21698841	21698841	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acactggagaggtgtttccaGatgctgaactccctggagtg	9	10	13	9	0	0	3	0	1	0	2	2	5	2	4	2	3	2	2	2	3	1	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr16:21698841G>A	uc002djh.2	+	7	508	c.507G>A	c.(505-507)CAG>CAA	p.Q169Q	uc002diq.3_Intron|OTOA_uc010vbj.1_Silent_p.Q90Q	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	169					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		GGTGTTTCCAGATGCTGAACT	0.572													34	80					0	0	0.010818	0	0		A	21698841	A	A	21698841	2	1	29	1	0	0	0	0	0	0	0	1	11321	933	33	4		4	OTOA	16	21698841	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	19564248	21698841	68655912	118	31242											
TMEM219	124446	broad.mit.edu	37	chr16	29979459	29979459	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctaccctccagccagccaCccatatcctgctcagaggag	9	7	7	18	0	1	1	1	0	0	1	4	2	4	2	7	1	4	1	7	1	2	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr16:29979459C>A	uc002duw.2	+	4	636	c.469C>A	c.(469-471)CCC>ACC	p.P157T	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TMEM219_uc002duy.2_Missense_Mutation_p.P157T|TMEM219_uc010bzk.1_Missense_Mutation_p.P157T|TMEM219_uc002duz.2_Missense_Mutation_p.P157T|TMEM219_uc010bzl.1_RNA	NM_194280	NP_919256	Q86XT9	TM219_HUMAN	transmembrane protein 219	157						integral to membrane					0						CAGCCAGCCACCCATATCCTG	0.542													19	141					7.41877e-09	8.50634e-09	0.012319	1	0		A	29979459	A	A	29979459	3	1	29	1	0	0	0	0	1	0	0	0	16167	507	18	5	479	5	TMEM219	16	29979459	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	8280618	29979459	60375294	119	31243											
MAF	4094	broad.mit.edu	37	chr16	79633675	79633675	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggccgcactggctgatgAtgcggtcggtctccaccggt	5	8	15	13	5	1	2	0	2	1	0	3	3	1	2	3	5	1	2	3	5	0	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr16:79633675A>T	uc002ffn.2	-	1	948	c.125T>A	c.(124-126)ATC>AAC	p.I42N	MAF_uc002ffm.2_Missense_Mutation_p.I42N	NM_001031804	NP_001026974	O75444	MAF_HUMAN	v-maf musculoaponeurotic fibrosarcoma oncogene	42					transcription from RNA polymerase II promoter	chromatin|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_epithelial(2;0.139)|Lung NSC(2;0.186)|Melanoma(2;0.211)		UCEC - Uterine corpus endometrioid carcinoma (2;0.0178)		CTGGCTGATGATGCGGTCGGT	0.612			T	IGH@	MM								10	44					0	0	0.006214	0	0		T	79633675	T	T	79633675	3	4	29	1	0	0	0	0	1	0	0	0	9173	333	12	5	1098	5	MAF	16	79633675	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	49654216	79633675	10721078	120	31244											
MYH3	4621	broad.mit.edu	37	chr17	10544483	10544483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaggacaccgttacacCgcagctggtgcagaacaagg	11	5	11	14	2	0	1	0	0	0	1	1	2	1	2	4	3	4	4	4	3	3	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr17:10544483C>T	uc002gmq.1	-	18	2161	c.2084G>A	c.(2083-2085)CGG>CAG	p.R695Q		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	695	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						ACCGTTACACCGCAGCTGGTG	0.483													13	56					0	0	0.013537	0	0		T	10544483	T	T	10544483	3	4	29	1	0	0	0	0	1	0	0	0	10054	652	23	1	3830	1	MYH3	17	10544483	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08		10544483	70650727	121	31245											
RNF112	7732	broad.mit.edu	37	chr17	19318451	19318451	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctgccaggggtactggaaCgaggggcgcgccgtggccag	6	4	19	12	5	0	0	0	0	0	0	0	2	0	1	3	6	3	2	3	6	2	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr17:19318451C>T	uc010vyw.1	+	11	1426	c.1227C>T	c.(1225-1227)AAC>AAT	p.N409N	RNF112_uc010vyv.1_Silent_p.N410N|RNF112_uc010vyx.1_Silent_p.N292N	NM_007148	NP_009079	Q7Z5V9	Q7Z5V9_HUMAN	ring finger protein 112	409							GTP binding|GTPase activity|zinc ion binding			ovary(2)	2						GGTACTGGAACGAGGGGCGCG	0.637													31	58					0	0	0.012213	0	0		T	19318451	T	T	19318451	2	4	29	1	0	0	0	0	0	0	0	1	13451	535	19	1		1	RNF112	17	19318451	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	8773968	19318451	61876759	122	31246											
SSH2	85464	broad.mit.edu	37	chr17	27963708	27963709	+	Frame_Shift_Ins	INS	-	G	G																															tcagcaatctggtctgctgaINSggtggtgatatccttcttgt																										TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr17:27963708_27963709insG	uc002heo.1	-	14	1458_1459	c.1458_1459insC	c.(1456-1461)ACCTCAfs	p.T486fs	SSH2_uc010wbh.1_Frame_Shift_Ins_p.T513fs	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	486_487					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TGGTCTGCTGAGGTGGTGATAT	0.475													99	170	---	---	---	---						.	G	27963709	G	G	27963708	7	5	29	1	0	1	1	0	0	0	0	0	15210	304	11	0	2820	0	SSH2	17	27963708	Frame_Shift_Ins	INS	-	TCGA-BR-6454-01A-11D-1800-08	8645257	27963708	53231502	123	31247											
SSH2	85464	broad.mit.edu	37	chr17	28004742	28004742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccagagaggcaaaactaagCccatggtacaagtgctactg	14	7	10	10	0	0	1	0	0	0	1	1	2	1	1	2	2	5	3	2	2	6	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr17:28004742C>T	uc002heo.1	-	6	416	c.416G>A	c.(415-417)GGC>GAC	p.G139D	SSH2_uc010wbh.1_Missense_Mutation_p.G166D|SSH2_uc002hep.1_Missense_Mutation_p.G139D|SSH2_uc002heq.2_Missense_Mutation_p.G146D|SSH2_uc002her.2_Missense_Mutation_p.G139D|SSH2_uc010csc.1_Missense_Mutation_p.G139D	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	139					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						CAAAACTAAGCCCATGGTACA	0.443													11	112					0	0	0.013537	0	0		T	28004742	T	T	28004742	3	4	29	1	0	0	0	0	1	0	0	0	15210	739	26	2	3895	2	SSH2	17	28004742	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	41034	28004742	53190468	124	31248											
EVI2A	2123	broad.mit.edu	37	chr17	29645449	29645449	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttttgttcttttccaagTgtctgattcagcgggccata	6	17	9	9	1	3	1	1	1	2	0	4	1	4	1	2	1	1	2	2	1	2	7			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr17:29645449T>G	uc002hgm.2	-	2	798	c.583A>C	c.(583-585)ACT>CCT	p.T195P	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2A_uc002hgl.2_Missense_Mutation_p.T218P	NM_014210	NP_055025	P22794	EVI2A_HUMAN	ecotropic viral integration site 2A isoform 2	195	Cytoplasmic (Potential).					integral to membrane	transmembrane receptor activity			ovary(1)|breast(1)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;5.94e-13)|Epithelial(4;7.98e-12)|OV - Ovarian serous cystadenocarcinoma(4;9.4e-12)|GBM - Glioblastoma multiforme(4;0.18)		CTTTTCCAAGTGTCTGATTCA	0.468													11	48					0	0	0.010729	0	0		G	29645449	G	G	29645449	3	3	29	1	0	0	0	0	1	0	0	0	5295	1696	59	5	131	5	EVI2A	17	29645449	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	1640707	29645449	51549761	125	31249											
NLE1	54475	broad.mit.edu	37	chr17	33464132	33464132	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcccggtgaggatgcgcTcacagcggcctgcagttgtg	5	9	16	11	3	1	1	1	1	0	0	1	2	1	2	2	3	4	3	2	3	0	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr17:33464132T>A	uc002hiy.1	-	7	744	c.716A>T	c.(715-717)GAG>GTG	p.E239V	NLE1_uc010ctn.1_5'UTR|NLE1_uc002hiz.1_5'UTR	NM_018096	NP_060566	Q9NVX2	NLE1_HUMAN	Notchless gene homolog isoform a	239	WD 3.					nucleolus				breast(3)|ovary(1)	4		Ovarian(249;0.17)				GAGGATGCGCTCACAGCGGCC	0.632													10	69					0	0	0.006214	0	0		A	33464132	A	A	33464132	3	1	29	1	0	0	0	0	1	0	0	0	10479	1551	54	5	769	5	NLE1	17	33464132	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	3818683	33464132	47731078	126	31250											
PSME3	10197	broad.mit.edu	37	chr17	40986840	40986840	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccactctgacatgaatCtcccagtccctgaccccatt	10	10	5	16	0	2	4	0	3	2	1	5	4	4	4	5	0	0	0	5	0	1	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr17:40986840C>A	uc002ibr.2	+	4	416	c.190C>A	c.(190-192)CTC>ATC	p.L64I	PSME3_uc002ibp.2_Missense_Mutation_p.L3I|PSME3_uc002ibq.2_Missense_Mutation_p.L64I|PSME3_uc002ibs.2_Missense_Mutation_p.L75I|PSME3_uc010whd.1_5'UTR	NM_005789	NP_005780	P61289	PSME3_HUMAN	proteasome activator subunit 3 isoform 1	64					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of proteasomal protein catabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome activator complex	endopeptidase activator activity|identical protein binding|MDM2 binding|p53 binding				0		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		TGACATGAATCTCCCAGTCCC	0.428													55	72					1.46168e-27	1.78831e-27	0.01441	1	0		A	40986840	A	A	40986840	3	1	29	1	0	0	0	0	1	0	0	0	12730	913	32	5	204	5	PSME3	17	40986840	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	7522708	40986840	40208370	127	31251											
KIF2B	84643	broad.mit.edu	37	chr17	51901650	51901650	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccaggcaaacacctgtcaAcgctcactcatccaggagcc	11	7	7	16	1	3	0	3	0	0	0	5	1	5	1	4	2	3	2	4	2	2	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr17:51901650A>C	uc002iua.2	+	1	1412	c.1256A>C	c.(1255-1257)AAC>ACC	p.N419T	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	419	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						ACACCTGTCAACGCTCACTCA	0.512													11	68					0	0	0.010729	0	0		C	51901650	C	C	51901650	3	2	29	1	0	0	0	0	1	0	0	0	8314	43	2	5	1258	5	KIF2B	17	51901650	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	10914810	51901650	29293560	128	31252											
BAHCC1	57597	broad.mit.edu	37	chr17	79423467	79423467	+	Frame_Shift_Del	DEL	G	-	-																															agcagaaggaggctacccccGgggggcgcatccgggagaag																										TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr17:79423467delG	uc002kaf.2	+	14	4714	c.4714delG	c.(4714-4716)GGGfs	p.G1572fs	BAHCC1_uc002kae.2_Frame_Shift_Del_p.G802fs	NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	1572							DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			GGCTACCCCCGGGGGGCGCAT	0.682													2	4	---	---	---	---						.	-	79423467	-	-	79423467	7	5	29	1	0	1	0	1	0	0	0	0	1297	1116	39	0	4607	0	BAHCC1	17	79423467	Frame_Shift_Del	DEL	G	TCGA-BR-6454-01A-11D-1800-08	27521817	79423467	1771743	129	31253											
ST8SIA5	29906	broad.mit.edu	37	chr18	44260170	44260170	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggggttcatggggaaggcCcagaagccaaagaggtgcac	12	4	17	8	0	1	2	1	0	0	2	1	4	1	3	2	6	2	2	2	6	3	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr18:44260170C>T	uc002lcj.1	-	7	1534	c.966G>A	c.(964-966)TGG>TGA	p.W322*	ST8SIA5_uc002lci.1_Nonsense_Mutation_p.W169*|ST8SIA5_uc010xcy.1_Nonsense_Mutation_p.W358*|ST8SIA5_uc010xcz.1_Nonsense_Mutation_p.W291*	NM_013305	NP_037437	O15466	SIA8E_HUMAN	ST8 alpha-N-acetyl-neuraminide	322	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						TGGGGAAGGCCCAGAAGCCAA	0.627													26	73					0	0	0.004656	0	0		T	44260170	T	T	44260170	4	4	29	1	0	0	0	0	0	1	0	0	15260	624	22	4	168	4	ST8SIA5	18	44260170	Nonsense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08		44260170	33817078	130	31254											
CDH7	1005	broad.mit.edu	37	chr18	63511056	63511056	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttctttacaggagctggaTtttgaagccaaaacaagtta	13	13	8	7	0	1	1	0	1	1	0	1	3	1	3	1	2	4	2	1	2	6	6			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr18:63511056T>G	uc002ljz.2	+	7	1315	c.990T>G	c.(988-990)GAT>GAG	p.D330E	CDH7_uc002lka.2_Missense_Mutation_p.D330E|CDH7_uc002lkb.2_Missense_Mutation_p.D330E	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	330	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				AGGAGCTGGATTTTGAAGCCA	0.418													19	42					0	0	0.007413	0	0		G	63511056	G	G	63511056	3	3	29	1	0	0	0	0	1	0	0	0	3118	1490	52	5	1012	5	CDH7	18	63511056	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	19250886	63511056	14566192	131	31255											
SALL3	27164	broad.mit.edu	37	chr18	76753964	76753964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgctagactcgatgcaaaCgtcggaaacctcgaagctgc	11	7	11	12	4	0	1	0	0	0	1	3	4	0	2	1	1	6	4	1	1	4	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr18:76753964C>T	uc002lmt.2	+	2	1973	c.1973C>T	c.(1972-1974)ACG>ATG	p.T658M	SALL3_uc010dra.2_Missense_Mutation_p.T265M	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	658					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		TCGATGCAAACGTCGGAAACC	0.647													10	12					0	0	0.006214	0	0		T	76753964	T	T	76753964	3	4	29	1	0	0	0	0	1	0	0	0	13837	536	19	1	1979	1	SALL3	18	76753964	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	13242908	76753964	1323284	132	31256											
MUC16	94025	broad.mit.edu	37	chr19	9071727	9071727	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcaggtggcactgtggacTtatcatggtctggggtggaa	7	12	16	6	0	3	0	2	0	1	0	3	2	3	2	0	7	0	1	0	7	2	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr19:9071727T>G	uc002mkp.2	-	3	15923	c.15719A>C	c.(15718-15720)AAG>ACG	p.K5240T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5242	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CACTGTGGACTTATCATGGTC	0.473													24	118					0	0	0.01892	0	0		G	9071727	G	G	9071727	3	3	29	1	0	0	0	0	1	0	0	0	9991	1609	56	5	28132	5	MUC16	19	9071727	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08		9071727	50057256	133	31257											
ZNF793	390927	broad.mit.edu	37	chr19	38028045	38028045	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagagaaactgtgcaaaaaAgcaagatgagtgttatgctt	17	10	10	4	0	0	3	0	1	0	2	0	4	0	3	0	0	4	4	0	0	7	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr19:38028045A>G	uc010efm.2	+	8	927	c.485A>G	c.(484-486)AAG>AGG	p.K162R	ZNF793_uc010xts.1_Missense_Mutation_p.K162R|ZNF793_uc010efo.2_Intron	NM_001013659	NP_001013681	Q6ZN11	ZN793_HUMAN	zinc finger protein 793	162					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TGTGCAAAAAAGCAAGATGAG	0.398													6	63					0	0	0.001984	0	0		G	38028045	G	G	38028045	3	3	29	1	0	0	0	0	1	0	0	0	18190	72	3	3	499	3	ZNF793	19	38028045	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	28956318	38028045	21100938	134	31258											
CYP2A7	1549	broad.mit.edu	37	chr19	41383171	41383171	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatggggatcacgtctccaAatctttggatctcgtggatc	8	13	10	10	2	5	0	2	0	3	0	8	3	5	3	1	4	0	0	1	4	1	1	rs150178247		TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr19:41383171A>T	uc002opm.2	-	7	1627	c.1085T>A	c.(1084-1086)TTT>TAT	p.F362Y	CYP2A7_uc002opo.2_Missense_Mutation_p.F362Y|CYP2A7_uc002opn.2_Missense_Mutation_p.F311Y	NM_000764	NP_000755	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A,	362						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			CACGTCTCCAAATCTTTGGAT	0.532													35	186					0	0	0.005524	0	0		T	41383171	T	T	41383171	3	4	29	1	0	0	0	0	1	0	0	0	4166	14	1	5	411	5	CYP2A7	19	41383171	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	3355126	41383171	17745812	135	31259											
PSG8	440533	broad.mit.edu	37	chr19	43258561	43258561	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagagcaagcatagagcccGctatgctttgtagtaatttg	12	11	10	8	1	0	2	0	0	0	2	0	2	0	2	1	0	4	6	1	0	5	6			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr19:43258561G>A	uc002ouo.2	-	5	1265	c.1167C>T	c.(1165-1167)AGC>AGT	p.S389S	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc010eim.2_RNA|PSG8_uc002oui.2_Silent_p.S228S|PSG8_uc002ouh.2_Silent_p.S389S|PSG8_uc010ein.2_Silent_p.S267S|PSG8_uc002ouj.3_Silent_p.S171S|PSG8_uc002ouk.3_Silent_p.S228S|PSG8_uc002oul.3_Silent_p.S389S|PSG8_uc002oum.3_Silent_p.S296S|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Silent_p.S296S	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	389	Ig-like C2-type 3.					extracellular region					0		Prostate(69;0.00899)				CATAGAGCCCGCTATGCTTTG	0.468													113	210					0	0	0.01441	0	0		A	43258561	A	A	43258561	2	1	29	1	0	0	0	0	0	0	0	1	12683	1078	38	1		1	PSG8	19	43258561	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	1875390	43258561	15870422	136	31260											
ZNF227	7770	broad.mit.edu	37	chr19	44740983	44740983	+	Nonstop_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catactggtaaaaagctttaGaaatgagaaatgtgttacca	17	11	8	5	0	0	2	0	1	0	2	0	3	0	2	1	1	3	3	1	1	8	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr19:44740983G>T	uc002oyu.2	+	6	2605	c.2400G>T	c.(2398-2400)TAG>TAT	p.*800Y	ZNF227_uc010xwu.1_Nonstop_Mutation_p.*749Y|ZNF227_uc002oyv.2_Nonstop_Mutation_p.*800Y|ZNF227_uc010xwv.1_Nonstop_Mutation_p.*749Y|ZNF227_uc010xww.1_Nonstop_Mutation_p.*721Y|ZNF227_uc002oyw.2_Nonstop_Mutation_p.*772Y|ZNF227_uc010ejh.2_Nonstop_Mutation_p.*793Y|ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	800					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)				AAAAGCTTTAGAAATGAGAAA	0.388													9	24					2.27111e-07	2.56378e-07	0.013537	1	0		T	44740983	T	T	44740983	4	4	29	1	0	0	0	0	0	0	0	0	17806	937	33	5	2414	5	ZNF227	19	44740983	Nonstop_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	1482422	44740983	14388000	137	31261											
SLC6A16	28968	broad.mit.edu	37	chr19	49814483	49814483	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggtccaagatgttgcaGaccgggtcaatgaacccttg	10	9	12	10	1	1	4	1	2	0	2	2	4	2	4	3	2	2	2	3	2	3	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr19:49814483G>T	uc002pmz.2	-	2	356	c.122C>A	c.(121-123)TCT>TAT	p.S41Y	SLC6A16_uc002pna.2_Missense_Mutation_p.S41Y|hsa-mir-4324|MI0015854_5'Flank	NM_014037	NP_054756	Q9GZN6	S6A16_HUMAN	solute carrier family 6, member 16	41	Cytoplasmic (Potential).					integral to membrane|intracellular	neurotransmitter:sodium symporter activity			skin(2)|ovary(1)|kidney(1)	4		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00099)|GBM - Glioblastoma multiforme(486;0.0336)		AGATGTTGCAGACCGGGTCAA	0.547													12	41					6.40141e-05	7.18928e-05	0.010729	1	0		T	49814483	T	T	49814483	3	4	29	1	0	0	0	0	1	0	0	0	14704	942	33	5	2132	5	SLC6A16	19	49814483	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	5073500	49814483	9314500	138	31262											
TEAD2	8463	broad.mit.edu	37	chr19	49862699	49862699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccattccgagacctgttttCgagttcgggtcttccccgtt	4	15	9	13	4	1	1	0	0	1	1	6	3	4	1	5	1	0	3	5	1	0	6			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr19:49862699C>T	uc002pnj.2	-	3	381	c.290G>A	c.(289-291)CGA>CAA	p.R97Q	TEAD2_uc002png.2_Missense_Mutation_p.R97Q|TEAD2_uc002pnh.2_Missense_Mutation_p.R97Q|TEAD2_uc002pni.2_Missense_Mutation_p.R97Q|TEAD2_uc010yao.1_5'UTR|TEAD2_uc010emw.2_Missense_Mutation_p.R97Q	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	97	TEA.				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		GACCTGTTTTCGAGTTCGGGT	0.512													73	100					0	0	0.01441	0	0		T	49862699	T	T	49862699	3	4	29	1	0	0	0	0	1	0	0	0	15764	884	31	1	1093	1	TEAD2	19	49862699	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	48216	49862699	9266284	139	31263											
CNOT3	4849	broad.mit.edu	37	chr19	54656052	54656052	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctgtgccaacgctgcacctGaccgagcgaggtgagggacc	8	5	14	14	3	0	2	0	2	0	0	0	5	0	3	5	2	4	2	5	2	1	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr19:54656052G>C	uc002qdj.1	+	14	2006	c.1695G>C	c.(1693-1695)CTG>CTC	p.L565L	CNOT3_uc010yel.1_Silent_p.L565L|CNOT3_uc002qdi.2_Silent_p.L478L|CNOT3_uc002qdk.1_Silent_p.L565L|CNOT3_uc010ere.1_RNA|CNOT3_uc002qdl.2_Silent_p.L20L	NM_014516	NP_055331	O75175	CNOT3_HUMAN	CCR4-NOT transcription complex, subunit 3	565	Pro-rich.				nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CGCTGCACCTGACCGAGCGAG	0.667													12	78					0	0	0.010729	0	0		C	54656052	C	C	54656052	2	2	29	1	0	0	0	0	0	0	0	1	3623	1277	45	5		5	CNOT3	19	54656052	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	4793353	54656052	4472931	140	31264											
LILRA2	11027	broad.mit.edu	37	chr19	55087526	55087526	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacagctcactcagctccaAcccctacctgctgtctctcc	7	10	4	20	0	3	0	2	0	1	0	6	0	5	0	5	0	6	3	5	0	3	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr19:55087526A>G	uc002qgg.3	+	6	1294	c.1205A>G	c.(1204-1206)AAC>AGC	p.N402S	LILRA2_uc010ern.2_Missense_Mutation_p.N402S|LILRA2_uc002qgf.2_Missense_Mutation_p.N402S|LILRA2_uc010yfe.1_Missense_Mutation_p.N402S|LILRA2_uc010yff.1_Missense_Mutation_p.N390S|LILRA2_uc010ero.2_Missense_Mutation_p.N390S|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	402	Ig-like C2-type 4.|Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		CTCAGCTCCAACCCCTACCTG	0.607													24	63					0	0	0.016522	0	0		G	55087526	G	G	55087526	3	3	29	1	0	0	0	0	1	0	0	0	8801	43	2	3	1227	3	LILRA2	19	55087526	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	431474	55087526	4041457	141	31265											
NLRP5	126206	broad.mit.edu	37	chr19	56569735	56569735	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaggaatgatgaagctgtgTtcggcctttgcctgtcccac	9	11	11	10	1	0	2	0	2	0	0	2	3	1	3	3	2	2	2	3	2	3	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr19:56569735T>A	uc002qmj.2	+	14	3429	c.3429T>A	c.(3427-3429)TGT>TGA	p.C1143*	NLRP5_uc002qmi.2_Nonsense_Mutation_p.C1124*	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	1143						mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		TGAAGCTGTGTTCGGCCTTTG	0.498													8	39					0	0	0.00308	0	0		A	56569735	A	A	56569735	4	1	29	1	0	0	0	0	0	1	0	0	10499	1731	60	5	3483	5	NLRP5	19	56569735	Nonsense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08	1482209	56569735	2559248	142	31266											
ZNF584	201514	broad.mit.edu	37	chr19	58929139	58929139	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacagggcacatgggaaggtCgttagctgctagcaccgtgt	9	8	15	9	2	0	0	0	0	0	0	1	2	0	1	1	3	3	5	1	3	3	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr19:58929139C>T	uc002qsp.2	+	4	1706	c.1254C>T	c.(1252-1254)GTC>GTT	p.V418V	ZNF584_uc010yia.1_RNA|ZNF584_uc002qsr.2_Silent_p.V373V|ZNF584_uc010yib.1_3'UTR	NM_173548	NP_775819	Q8IVC4	ZN584_HUMAN	zinc finger protein 584	418					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;5.3e-17)|all_epithelial(17;3.71e-12)|Lung NSC(17;8.3e-05)|Colorectal(82;0.000147)|all_lung(17;0.000386)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0271)		ATGGGAAGGTCGTTAGCTGCT	0.512													13	69					0	0	0.003163	0	0		T	58929139	T	T	58929139	2	4	29	1	0	0	0	0	0	0	0	1	18041	871	31	1		1	ZNF584	19	58929139	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	2359404	58929139	199844	143	31267											
KIF16B	55614	broad.mit.edu	37	chr20	16486769	16486769	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggcatctgcacgctcacTtccggcaagatcaaccaagt	10	8	10	13	2	3	1	2	0	1	1	4	1	4	1	2	3	2	4	2	3	3	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr20:16486769T>G	uc002wpg.1	-	8	924	c.766A>C	c.(766-768)AGT>CGT	p.S256R	KIF16B_uc010gch.1_Missense_Mutation_p.S256R|KIF16B_uc010gci.1_Missense_Mutation_p.S256R|KIF16B_uc010gcj.1_Missense_Mutation_p.S256R	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	256	Kinesin-motor.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						GCACGCTCACTTCCGGCAAGA	0.458													27	142					0	0	0.012213	0	0		G	16486769	G	G	16486769	3	3	29	1	0	0	0	0	1	0	0	0	8294	1609	56	5	3263	5	KIF16B	20	16486769	Missense_Mutation	SNP	T	TCGA-BR-6454-01A-11D-1800-08		16486769	46538751	144	31268											
C20orf12	55184	broad.mit.edu	37	chr20	18429663	18429663	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccctttgaattctcattatCtccgtgcttgtcaaacactt	8	17	4	12	1	3	1	2	1	2	0	6	1	4	1	2	0	2	1	2	0	3	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr20:18429663C>G	uc010zsa.1	-	7	860	c.651G>C	c.(649-651)GAG>GAC	p.E217D	C20orf12_uc002wqr.3_RNA|C20orf12_uc002wqs.3_Missense_Mutation_p.E84D|C20orf12_uc002wqq.3_Missense_Mutation_p.E198D|C20orf12_uc002wqu.1_RNA|C20orf12_uc010gct.1_RNA	NM_001099407	NP_001092877	Q9NVP4	CT012_HUMAN	hypothetical protein LOC55184	25						intracellular	zinc ion binding			ovary(1)	1		Myeloproliferative disorder(85;0.0122)				TTCTCATTATCTCCGTGCTTG	0.368													17	116					0	0	0.007413	0	0		G	18429663	G	G	18429663	3	3	29	1	0	0	0	0	1	0	0	0	2088	912	32	5	1724	5	C20orf12	20	18429663	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	1942894	18429663	44595857	145	31269											
PHF20	51230	broad.mit.edu	37	chr20	34526800	34526800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggccctgcccctgccgCgttctgtggaggaatcctat	4	10	11	16	2	1	0	0	0	1	0	2	2	2	2	6	3	2	1	6	3	2	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr20:34526800C>T	uc002xek.1	+	16	2593	c.2482C>T	c.(2482-2484)CGT>TGT	p.R828C		NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	828					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					GCCCCTGCCGCGTTCTGTGGA	0.602													17	82					0	0	0.004007	0	0		T	34526800	T	T	34526800	3	4	29	1	0	0	0	0	1	0	0	0	11850	768	27	1	2540	1	PHF20	20	34526800	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	16097137	34526800	28498720	146	31270											
EPB41L1	2036	broad.mit.edu	37	chr20	34778617	34778617	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggtacagtgggaggaccCaggcacagactcgccaggcc	9	4	14	14	2	0	1	0	0	0	1	2	3	1	3	4	5	1	2	4	5	1	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr20:34778617C>T	uc002xfb.2	+	11	1369	c.1198C>T	c.(1198-1200)CAG>TAG	p.Q400*	EPB41L1_uc002xeu.2_Nonsense_Mutation_p.Q338*|EPB41L1_uc010zvo.1_Nonsense_Mutation_p.Q400*|EPB41L1_uc002xev.2_Nonsense_Mutation_p.Q400*|EPB41L1_uc002xew.2_Nonsense_Mutation_p.Q303*|EPB41L1_uc002xex.2_Nonsense_Mutation_p.Q369*|EPB41L1_uc002xey.2_Nonsense_Mutation_p.Q327*|EPB41L1_uc002xez.2_Nonsense_Mutation_p.Q338*	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	400					cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					TGGGAGGACCCAGGCACAGAC	0.637													9	90					0	0	0.004482	0	0		T	34778617	T	T	34778617	4	4	29	1	0	0	0	0	0	1	0	0	5160	595	21	4	1236	4	EPB41L1	20	34778617	Nonsense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	251817	34778617	28246903	147	31271											
CHD6	84181	broad.mit.edu	37	chr20	40049424	40049424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatttcaaattcatcattctCgaggccatgcatccacctct	10	13	5	13	1	5	0	3	0	2	0	7	2	6	0	3	1	1	1	3	1	1	3	rs61752058	byFrequency	TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr20:40049424C>T	uc002xka.1	-	31	6029	c.5851G>A	c.(5851-5853)GAG>AAG	p.E1951K		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1951					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TCATCATTCTCGAGGCCATGC	0.502													51	269					0	0	0.01441	0	0		T	40049424	T	T	40049424	3	4	29	1	0	0	0	0	1	0	0	0	3332	893	31	1	2324	1	CHD6	20	40049424	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	5270807	40049424	22976096	148	31272											
IFT52	51098	broad.mit.edu	37	chr20	42252656	42252656	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacctgtccatcttccagctGgataccacctccttccacag	8	10	6	17	0	1	0	0	0	1	0	5	2	5	1	7	1	2	1	7	1	1	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr20:42252656G>A	uc002xkw.2	+	10	1016	c.894G>A	c.(892-894)CTG>CTA	p.L298L	IFT52_uc002xky.2_Silent_p.L298L|IFT52_uc002xkx.2_RNA|IFT52_uc010ggn.2_Silent_p.L274L|IFT52_uc002xkz.2_Silent_p.L298L	NM_016004	NP_057088	Q9Y366	IFT52_HUMAN	intraflagellar transport 52 homolog	298						intraflagellar transport particle B|microtubule-based flagellum	protein C-terminus binding			ovary(2)	2		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TCTTCCAGCTGGATACCACCT	0.532													44	556					0	0	0.01441	0	0		A	42252656	A	A	42252656	2	1	29	1	0	0	0	0	0	0	0	1	7577	1335	47	4		4	IFT52	20	42252656	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	2203232	42252656	20772864	149	31273											
TOX2	84969	broad.mit.edu	37	chr20	42574562	42574562	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgctgattatgcagcagActcgcacagaggctgtcgcg	8	9	12	12	3	1	3	0	1	1	2	3	3	1	3	0	1	3	5	0	1	1	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr20:42574562A>G	uc002xlf.3	+	1	27	c.10A>G	c.(10-12)ACT>GCT	p.T4A	TOX2_uc010ggo.2_Intron|TOX2_uc002xle.3_Intron|TOX2_uc010ggp.2_Intron	NM_001098798	NP_001092268	Q96NM4	TOX2_HUMAN	TOX high mobility group box family member 2	4					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)			TATGCAGCAGACTCGCACAGA	0.537													5	122					0	0	0.014758	0	0		G	42574562	G	G	42574562	3	3	29	1	0	0	0	0	1	0	0	0	16404	275	10	3	115	3	TOX2	20	42574562	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	321906	42574562	20450958	150	31274											
SLC12A5	57468	broad.mit.edu	37	chr20	44674590	44674590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcctgcatctgcgagattgGcatcctcattgcatccctcg	6	12	9	14	2	2	1	1	0	1	1	5	2	4	1	3	1	4	3	3	1	0	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr20:44674590G>A	uc010zxl.1	+	13	1788	c.1712G>A	c.(1711-1713)GGC>GAC	p.G571D	SLC12A5_uc010zxm.1_RNA|SLC12A5_uc002xrb.2_Missense_Mutation_p.G548D	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	571	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	TGCGAGATTGGCATCCTCATT	0.582													34	321					0	0	0.019004	0	0		A	44674590	A	A	44674590	3	1	29	1	0	0	0	0	1	0	0	0	14411	1203	42	2	1818	2	SLC12A5	20	44674590	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	2100028	44674590	18350930	151	31275											
ADNP	23394	broad.mit.edu	37	chr20	49509123	49509123	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cttcacaggtgccagacttgGagactgattaagccgagagg	11	8	13	9	1	1	4	1	1	0	3	1	6	1	4	2	3	2	0	2	3	1	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr20:49509123G>C	uc002xvt.1	-	5	2473	c.2128C>G	c.(2128-2130)CCA>GCA	p.P710A	ADNP_uc002xvu.1_Missense_Mutation_p.P710A	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	710						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						GCCAGACTTGGAGACTGATTA	0.463													10	214					0	0	0.010729	0	0		C	49509123	C	C	49509123	3	2	29	1	0	0	0	0	1	0	0	0	323	1174	41	5	1184	5	ADNP	20	49509123	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	4834533	49509123	13516397	152	31276											
C20orf106	200232	broad.mit.edu	37	chr20	55100041	55100041	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggctggcttgggagcaaAtggctctggcttctttttgt	6	14	13	8	0	2	0	0	0	2	0	2	1	2	1	0	5	1	5	0	5	2	4			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr20:55100041A>G	uc002xxx.2	+	1	257	c.177A>G	c.(175-177)AAA>AAG	p.K59K	GCNT7_uc010zzg.1_Intron|C20orf107_uc010zzh.1_Silent_p.K59K	NM_001012971	NP_001012989	Q5JX71	CT106_HUMAN	hypothetical protein LOC200232 precursor	59	Helical; (Potential).					integral to membrane					0			Colorectal(105;0.202)			TTGGGAGCAAATGGCTCTGGC	0.483													16	198					0	0	0.006122	0	0		G	55100041	G	G	55100041	2	3	29	1	0	0	0	0	0	0	0	1	2079	98	4	3		3	C20orf106	20	55100041	Silent	SNP	A	TCGA-BR-6454-01A-11D-1800-08	5590918	55100041	7925479	153	31277											
SLC17A9	63910	broad.mit.edu	37	chr20	61588204	61588204	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcatgcccatctgcaccgtCtccatgagccaggacttcgg	8	8	10	15	2	2	1	0	1	2	0	4	2	2	2	4	2	4	2	4	2	0	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr20:61588204C>G	uc002yea.3	+	2	331	c.147C>G	c.(145-147)GTC>GTG	p.V49V	SLC17A9_uc002ydz.3_Silent_p.V43V|SLC17A9_uc011aap.1_Silent_p.V69V	NM_022082	NP_071365	Q9BYT1	S17A9_HUMAN	vesicular nucleotide transporter SLC17A9	49					exocytosis|transmembrane transport	integral to membrane	transporter activity			ovary(1)|skin(1)	2						TCTGCACCGTCTCCATGAGCC	0.647													9	86					0	0	0.004482	0	0		G	61588204	G	G	61588204	2	3	29	1	0	0	0	0	0	0	0	1	14449	900	32	5		5	SLC17A9	20	61588204	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	6488163	61588204	1437316	154	31278											
KRTAP13-2	337959	broad.mit.edu	37	chr21	31744376	31744376	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atctcctgacagcccctataGagagaggaacccagctggca	12	6	10	13	0	1	3	0	1	1	2	2	5	1	4	4	2	3	2	4	2	3	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr21:31744376G>A	uc002ynz.3	-	1	182	c.156C>T	c.(154-156)CTC>CTT	p.L52L		NM_181621	NP_853652	Q52LG2	KR132_HUMAN	keratin associated protein 13-2	52	1.|5 X 10 AA approximate repeats.					intermediate filament					0						AGCCCCTATAGAGAGAGGAAC	0.612													8	95					0	0	0.006214	0	0		A	31744376	A	A	31744376	2	1	29	1	0	0	0	0	0	0	0	1	8539	929	33	4		4	KRTAP13-2	21	31744376	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08		31744376	16385519	155	31279											
KRTAP19-7	337974	broad.mit.edu	37	chr21	31933515	31933515	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccatagcccagtctgcggaAgctgccacatccacagctat	10	7	9	15	1	1	0	0	0	1	0	2	1	2	1	4	1	5	2	4	1	3	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr21:31933515A>C	uc011adb.1	-	1	94	c.94T>G	c.(94-96)TTC>GTC	p.F32V		NM_181614	NP_853645	Q3SYF9	KR197_HUMAN	keratin associated protein 19-7	32						intermediate filament					0						AGTCTGCGGAAGCTGCCACAT	0.547													18	133					0	0	0.00499	0	0		C	31933515	C	C	31933515	3	2	29	1	0	0	0	0	1	0	0	0	8550	72	3	5	100	5	KRTAP19-7	21	31933515	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	189139	31933515	16196380	156	31280											
DYRK1A	1859	broad.mit.edu	37	chr21	38845158	38845158	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccttatcatattctgaccaGattcagcaacctctaactaa	13	12	4	12	0	4	2	2	1	2	1	4	2	4	2	3	0	3	1	3	0	5	6			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr21:38845158G>C	uc002ywk.2	+	2	258	c.183G>C	c.(181-183)CAG>CAC	p.Q61H	DYRK1A_uc002ywg.1_RNA|DYRK1A_uc010gno.1_RNA|DYRK1A_uc002ywh.1_Missense_Mutation_p.Q32H|DYRK1A_uc002ywi.2_Missense_Mutation_p.Q61H|DYRK1A_uc002ywj.2_Missense_Mutation_p.Q61H|DYRK1A_uc002ywl.2_Missense_Mutation_p.Q61H|DYRK1A_uc002ywm.2_Missense_Mutation_p.Q61H	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	61					nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						ATTCTGACCAGATTCAGCAAC	0.423													18	67					0	0	0.007413	0	0		C	38845158	C	C	38845158	3	2	29	1	0	0	0	0	1	0	0	0	4860	933	33	5	189	5	DYRK1A	21	38845158	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	6911643	38845158	9284737	157	31281											
MX1	4599	broad.mit.edu	37	chr21	42821220	42821220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatatgctacacaccgtgaCgggtgagtgctcagtttcac	9	10	12	10	2	2	2	2	2	0	0	2	3	2	3	1	2	3	3	1	2	2	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr21:42821220C>T	uc002yzh.2	+	16	2377	c.1430C>T	c.(1429-1431)ACG>ATG	p.T477M	MX1_uc002yzi.2_Missense_Mutation_p.T477M|MX1_uc010goq.2_Missense_Mutation_p.T477M	NM_001144925	NP_001138397	P20591	MX1_HUMAN	myxovirus resistance protein 1	477					induction of apoptosis|response to virus|type I interferon-mediated signaling pathway	cytosol	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(19;3.18e-07)|all_epithelial(19;0.0277)				CACACCGTGACGGGTGAGTGC	0.463													15	68					0	0	0.006122	0	0		T	42821220	T	T	42821220	3	4	29	1	0	0	0	0	1	0	0	0	10015	536	19	1	1468	1	MX1	21	42821220	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	3976062	42821220	5308675	158	31282											
MYH9	4627	broad.mit.edu	37	chr22	36681783	36681783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagctcctcctccagctggGcgatgcgggcctccagacgc	5	6	12	18	3	0	1	0	0	0	1	4	2	4	1	6	2	3	2	6	2	0	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr22:36681783G>A	uc003apg.2	-	37	5426	c.5195C>T	c.(5194-5196)GCC>GTC	p.A1732V		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1732	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						ctccagctGGGCGATGCGGGC	0.587			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				8	19					0	0	0.00308	0	0		A	36681783	A	A	36681783	3	1	29	1	0	0	0	0	1	0	0	0	10060	1203	42	2	707	2	MYH9	22	36681783	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08		36681783	14622783	159	31283											
BAIAP2L2	80115	broad.mit.edu	37	chr22	38482283	38482283	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caactgctgtgctgcccatgCtgctgcggcggctgctgggc	3	9	15	14	2	0	0	0	0	0	0	0	0	0	0	1	3	8	6	1	3	1	0			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr22:38482283C>G	uc003auw.2	-	12	1577	c.1433G>C	c.(1432-1434)AGC>ACC	p.S478T	BAIAP2L2_uc003auv.2_RNA	NM_025045	NP_079321	Q6UXY1	BI2L2_HUMAN	BAI1-associated protein 2-like 2	478					filopodium assembly|signal transduction		cytoskeletal adaptor activity|SH3 domain binding			pancreas(1)	1	Melanoma(58;0.045)					GCTGCCCATGCTGCTGCGGCG	0.706													13	22					0	0	0.016723	0	0		G	38482283	G	G	38482283	3	3	29	1	0	0	0	0	1	0	0	0	1304	797	28	5	168	5	BAIAP2L2	22	38482283	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	1800500	38482283	12822283	160	31284											
FAM83F	113828	broad.mit.edu	37	chr22	40417550	40417550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgatgcgctgggctgccCggcaacagcgggaggcgggc	7	4	19	11	4	0	2	0	1	0	1	0	3	0	3	1	5	4	3	1	5	1	0	rs145428025		TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chr22:40417550C>T	uc003ayk.1	+	4	1130	c.1036C>T	c.(1036-1038)CGG>TGG	p.R346W		NM_138435	NP_612444	Q8NEG4	FA83F_HUMAN	hypothetical protein LOC113828	346										breast(1)	1						CTGGGCTGCCCGGCAACAGCG	0.677													7	36					0	0	0.00308	0	0		T	40417550	T	T	40417550	3	4	29	1	0	0	0	0	1	0	0	0	5652	643	23	1	1050	1	FAM83F	22	40417550	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	1935267	40417550	10887016	161	31285											
MXRA5	25878	broad.mit.edu	37	chrX	3227890	3227890	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggggtgaagaaatctgtttCcatacagacgagcctgaacc	12	8	12	9	1	1	4	0	2	1	2	2	5	2	4	3	2	3	1	3	2	4	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chrX:3227890C>A	uc004crg.3	-	7	8511	c.8354G>T	c.(8353-8355)GGA>GTA	p.G2785V		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2785	Ig-like C2-type 12.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				AAATCTGTTTCCATACAGACG	0.512													15	33					0.000422831	0.000465327	0.004007	1	0		A	3227890	A	A	3227890	3	1	29	1	0	0	0	0	1	0	0	0	10021	855	30	5	136	5	MXRA5	23	3227890	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08		3227890	152042670	162	31286											
ARAF	369	broad.mit.edu	37	chrX	47422726	47422726	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtctaccgactcatcaaGgggtgagtgtggcagcccca	8	8	14	11	1	3	1	2	1	1	0	3	2	3	1	3	4	2	1	3	4	2	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chrX:47422726G>C	uc011mlq.1	+	3	331	c.198G>C	c.(196-198)AAG>AAC	p.K66N	ARAF_uc011mln.1_RNA|ARAF_uc011mlo.1_5'UTR|ARAF_uc011mlp.1_Missense_Mutation_p.K66N|ARAF_uc004dic.1_5'Flank	NM_001654	NP_001645	P10398	ARAF_HUMAN	v-raf murine sarcoma 3611 viral oncogene	66	RBD.				intracellular signal transduction|negative regulation of apoptosis|positive regulation of peptidyl-serine phosphorylation		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity			large_intestine(3)|lung(2)|ovary(1)|skin(1)	7					Adenosine triphosphate(DB00171)	GACTCATCAAGGGGTGAGTGT	0.557													4	18					0	0	0.009096	0	0		C	47422726	C	C	47422726	3	2	29	1	0	0	0	0	1	0	0	0	837	991	35	5	204	5	ARAF	23	47422726	Missense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	44194836	47422726	107847834	163	31287											
PHF8	23133	broad.mit.edu	37	chrX	54014281	54014281	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaatccaagtcaaattcGtcttccatcacctgttctgc	9	14	5	13	1	5	1	2	1	3	0	8	1	7	1	3	0	1	1	3	0	3	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chrX:54014281G>A	uc004dsu.2	-	15	2008	c.1935C>T	c.(1933-1935)GAC>GAT	p.D645D	PHF8_uc004dst.2_Silent_p.D609D|PHF8_uc004dsv.2_Silent_p.D475D|PHF8_uc004dsw.2_Silent_p.D508D|PHF8_uc004dsx.2_Silent_p.D373D|PHF8_uc004dsy.2_Silent_p.D609D	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	645					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						AGTCAAATTCGTCTTCCATCA	0.453													6	25					0	0	0.001168	0	0		A	54014281	A	A	54014281	2	1	29	1	0	0	0	0	0	0	0	1	11859	1136	40	1		1	PHF8	23	54014281	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	6591555	54014281	101256279	164	31288											
AR	367	broad.mit.edu	37	chrX	66765698	66765698	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccatttctgacaacgccaAggagttgtgtaaggcagtgt	11	10	12	8	1	1	1	0	1	1	0	1	3	1	2	2	2	1	3	2	2	3	3			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chrX:66765698A>G	uc004dwu.1	+	1	1825	c.710A>G	c.(709-711)AAG>AGG	p.K237R	AR_uc011mpd.1_Missense_Mutation_p.K237R|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.K237R	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	235	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	GACAACGCCAAGGAGTTGTGT	0.607									Androgen_Insensitivity_Syndrome				15	13					0	0	0.020292	0	0		G	66765698	G	G	66765698	3	3	29	1	0	0	0	0	1	0	0	0	836	72	3	3	712	3	AR	23	66765698	Missense_Mutation	SNP	A	TCGA-BR-6454-01A-11D-1800-08	12751417	66765698	88504862	165	31289											
P2RY10	27334	broad.mit.edu	37	chrX	78216896	78216896	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctttttgcctgtgcctTgcaagtctctgctgcctttt	3	17	7	14	0	1	0	0	0	1	0	2	0	1	0	4	0	5	2	4	0	1	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chrX:78216896T>A	uc004ede.2	+	4	1248	c.879T>A	c.(877-879)CTT>CTA	p.L293L	P2RY10_uc004edf.2_Silent_p.L293L	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	293	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						GCCTGTGCCTTGCAAGTCTCT	0.443													55	164					0	0	0.01441	0	0		A	78216896	A	A	78216896	2	1	29	1	0	0	0	0	0	0	0	1	11366	1799	63	5		5	P2RY10	23	78216896	Silent	SNP	T	TCGA-BR-6454-01A-11D-1800-08	11451198	78216896	77053664	166	31290											
MCART6	401612	broad.mit.edu	37	chrX	103349893	103349893	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctggagcctctgctcgCgtcctgtgctgaagctcctt	3	14	10	14	2	1	1	0	1	1	0	5	2	4	2	4	1	4	3	4	1	1	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chrX:103349893C>T	uc004elu.2	-	2	229	c.48G>A	c.(46-48)ACG>ACA	p.T16T		NM_001012755	NP_001012773	Q5H9E4	MCAR6_HUMAN	mitochondrial carrier triple repeat 6	16					transport	integral to membrane|mitochondrial inner membrane					0						CCTCTGCTCGCGTCCTGTGCT	0.517													15	17					0	0	0.003163	0	0		T	103349893	T	T	103349893	2	4	29	1	0	0	0	0	0	0	0	1	9389	755	27	1		1	MCART6	23	103349893	Silent	SNP	C	TCGA-BR-6454-01A-11D-1800-08	25132997	103349893	51920667	167	31291											
ACTRT1	139741	broad.mit.edu	37	chrX	127185859	127185859	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaggattcaaagagggctcGgtcataagtacaggctgttg	11	10	13	7	1	2	1	2	0	0	1	3	2	2	2	0	4	1	4	0	4	4	5			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chrX:127185859G>A	uc004eum.2	-	1	524	c.327C>T	c.(325-327)ACC>ACT	p.T109T		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	109						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						AAGAGGGCTCGGTCATAAGTA	0.478													83	165					0	0	0.01441	0	0		A	127185859	A	A	127185859	2	1	29	1	0	0	0	0	0	0	0	1	218	1103	39	1		1	ACTRT1	23	127185859	Silent	SNP	G	TCGA-BR-6454-01A-11D-1800-08	23835966	127185859	28084701	168	31292											
GPR50	9248	broad.mit.edu	37	chrX	150349052	150349052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtgagatgcaggaggccCgtaccctggcccgcgcccgt	5	7	14	15	5	0	1	0	1	0	1	1	3	0	2	4	3	2	2	4	3	1	2			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chrX:150349052C>T	uc010ntg.1	+	2	1132	c.997C>T	c.(997-999)CGT>TGT	p.R333C	uc004fes.1_5'Flank|GPR50_uc011myc.1_3'UTR	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	333	Cytoplasmic (Potential).|Pro-rich.				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GCAGGAGGCCCGTACCCTGGC	0.567													36	79					0	0	0.019004	0	0		T	150349052	T	T	150349052	3	4	29	1	0	0	0	0	1	0	0	0	6712	652	23	1	1003	1	GPR50	23	150349052	Missense_Mutation	SNP	C	TCGA-BR-6454-01A-11D-1800-08	23163193	150349052	4921508	169	31293											
F8	2157	broad.mit.edu	37	chrX	154176146	154176146	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctcatgcaaacaaactGacaactgcaaactatcaaaa	19	6	3	13	0	2	1	2	1	0	0	2	1	2	1	2	0	6	2	2	0	7	1			TCGA-BR-6454-01A-11D-1800-08	TCGA-BR-6454-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e716ee38-12c6-4cf9-aee2-1ca60ed8f8b5	02a6d96b-8aee-4512-8454-f01a984641b0	g.chrX:154176146G>T	uc004fmt.2	-	13	2111	c.1940C>A	c.(1939-1941)TCA>TAA	p.S647*		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	647	F5/8 type A 2.|Plastocyanin-like 4.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	CAAACAAACTGACAACTGCAA	0.378													14	19					1.05317e-09	1.22683e-09	0.020292	1	0		T	154176146	T	T	154176146	4	4	29	1	0	0	0	0	0	1	0	0	5358	1294	45	5	5199	5	F8	23	154176146	Nonsense_Mutation	SNP	G	TCGA-BR-6454-01A-11D-1800-08	3827094	154176146	1094414	170	31294											
VWA1	64856	broad.mit.edu	37	chr1	1372328	1372328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaccagcatcagccccccGaggggacctgatgttcctgc	7	7	10	17	1	1	1	1	1	0	0	3	3	3	2	7	2	3	2	7	2	0	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:1372328G>A	uc001afs.2	+	2	315	c.95G>A	c.(94-96)CGA>CAA	p.R32Q	VWA1_uc001afr.2_Intron	NM_022834	NP_073745	Q6PCB0	VWA1_HUMAN	von Willebrand factor A domain containing 1	32						basement membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		TCAGCCCCCCGAGGGGACCTG	0.667													14	87					0	0	0.003163	0	0		A	1372328	A	A	1372328	3	1	30	1	0	0	0	0	1	0	0	0	17264	1058	37	1	101	1	VWA1	1	1372328	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08		1372328	247878293	1	31295											
ARID1A	8289	broad.mit.edu	37	chr1	27107162	27107162	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactctgtacgaatcacggcTgttggacatctcggtatcac	9	12	9	11	3	4	0	2	0	2	0	5	2	4	1	0	3	2	4	0	3	4	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:27107162T>G	uc001bmv.1	+	20	7146	c.6773T>G	c.(6772-6774)CTG>CGG	p.L2258R	ARID1A_uc001bmu.1_Missense_Mutation_p.L2041R|ARID1A_uc001bmx.1_Missense_Mutation_p.L1104R|ARID1A_uc009vsm.1_Missense_Mutation_p.L586R|ARID1A_uc009vsn.1_Missense_Mutation_p.L500R	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2258					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		GAATCACGGCTGTTGGACATC	0.527			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								51	64					0	0	0.01441	0	0		G	27107162	G	G	27107162	3	3	30	1	0	0	0	0	1	0	0	0	913	1580	55	5	6851	5	ARID1A	1	27107162	Missense_Mutation	SNP	T	TCGA-BR-6455-01A-11D-1800-08	25734834	27107162	222143459	2	31296											
YRDC	79693	broad.mit.edu	37	chr1	38272879	38272879	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctcaggtactctcacaCggcagtatctgggaaacaca	11	7	9	14	1	3	0	2	0	2	0	4	1	3	1	2	3	2	3	2	3	3	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:38272879C>A	uc001cca.1	-	2	411	c.398G>T	c.(397-399)CGT>CTT	p.R133L	C1orf122_uc001ccb.1_5'UTR	NM_024640	NP_078916	Q86U90	YRDC_HUMAN	ischemia/reperfusion inducible protein	133	YrdC-like.				negative regulation of transport	membrane|mitochondrion					0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TACTCTCACACGGCAGTATCT	0.418													29	45					3.57733e-08	3.95964e-08	0.009535	1	0		A	38272879	A	A	38272879	3	1	30	1	0	0	0	0	1	0	0	0	17520	536	19	5	457	5	YRDC	1	38272879	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	11165717	38272879	210977742	3	31297											
PTGER3	5733	broad.mit.edu	37	chr1	71478123	71478123	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccgtgtgtgtcttgcaGtgctcaactgatgtctgatt	5	17	10	9	1	4	2	1	2	3	0	5	2	4	2	1	0	3	2	1	0	1	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:71478123G>A	uc001dfg.1	-	2	1173	c.942C>T	c.(940-942)CAC>CAT	p.H314H	PTGER3_uc001dfh.1_RNA|PTGER3_uc001dfi.1_RNA|PTGER3_uc001dfj.1_RNA|PTGER3_uc001dfk.1_Silent_p.H314H|PTGER3_uc001dfl.1_Silent_p.H314H|PTGER3_uc009wbm.1_Silent_p.H314H|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Silent_p.H314H|PTGER3_uc009wbn.1_Silent_p.H314H|PTGER3_uc009wbo.2_Silent_p.H314H|PTGER3_uc001dfo.2_Silent_p.H314H|PTGER3_uc001dfp.1_Silent_p.H314H|PTGER3_uc001dfq.2_Silent_p.H314H	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	314	Extracellular (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	GTGTCTTGCAGTGCTCAACTG	0.368													20	31					0	0	0.00278	0	0		A	71478123	A	A	71478123	2	1	30	1	0	0	0	0	0	0	0	1	12767	1020	36	4		4	PTGER3	1	71478123	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	33205244	71478123	177772498	4	31298											
EPHX4	253152	broad.mit.edu	37	chr1	92508453	92508453	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactggatttgagaggttatGgagaaacagatgctcccatt	12	11	11	7	0	0	3	0	1	0	3	1	6	1	4	1	3	2	2	1	3	2	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:92508453G>T	uc001don.2	+	3	495	c.391G>T	c.(391-393)GGA>TGA	p.G131*		NM_173567	NP_775838	Q8IUS5	EPHX4_HUMAN	abhydrolase domain containing 7	131						integral to membrane	hydrolase activity			central_nervous_system(1)	1						GAGAGGTTATGGAGAAACAGA	0.333													23	61					3.62473e-10	4.07431e-10	0.012319	1	0		T	92508453	T	T	92508453	4	4	30	1	0	0	0	0	0	1	0	0	5190	1349	47	5	401	5	EPHX4	1	92508453	Nonsense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	21030330	92508453	156742168	5	31299											
NRAS	4893	broad.mit.edu	37	chr1	115258748	115258748	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcttttcccaacaccacCtgctccaaccaccaccagtt	9	9	4	19	1	0	0	0	0	0	0	2	0	2	0	7	0	4	3	7	0	2	3	rs121913250		TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:115258748C>A	uc009wgu.2	-	2	288	c.34G>T	c.(34-36)GGT>TGT	p.G12C		NM_002524	NP_002515	P01111	RASN_HUMAN	neuroblastoma RAS viral (v-ras) oncogene homolog	12	GTP.		G -> C (in leukemia).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	Golgi membrane|plasma membrane	GTP binding|GTPase activity	p.G12D(333)|p.G12S(118)|p.G12C(71)|p.G12V(54)|p.G12A(36)|p.G12R(16)|p.G12G(4)|p.G12N(1)|p.G12T(1)|p.G12P(1)|p.G12Y(1)		haematopoietic_and_lymphoid_tissue(1008)|skin(956)|thyroid(334)|large_intestine(62)|NS(60)|soft_tissue(32)|lung(31)|upper_aerodigestive_tract(25)|urinary_tract(12)|liver(10)|adrenal_gland(9)|autonomic_ganglia(8)|testis(8)|central_nervous_system(8)|prostate(8)|breast(7)|biliary_tract(6)|ovary(6)|stomach(5)|pancreas(5)|endometrium(2)|kidney(2)|cervix(2)|eye(1)	2607	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCAACACCACCTGCTCCAACC	0.493	G12C(P31FUJ_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12S(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12C(MOLT4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12C(KHM1B_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	50	Mis		melanoma|MM|AML|thyroid				Noonan_syndrome	TSP Lung(23;0.16)|Multiple Myeloma(1;<1E-6)			50	94					5.0973e-17	5.91287e-17	0.01441	1	0		A	115258748	A	A	115258748	3	1	30	1	0	0	0	0	1	0	0	0	10659	681	24	5	551	5	NRAS	1	115258748	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	22750295	115258748	133991873	6	31300											
PDE4DIP	9659	broad.mit.edu	37	chr1	144916601	144916601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcctatcatgaagagacGtctgtaactgctgaatgata	12	13	9	7	1	2	4	1	3	1	1	3	5	3	4	1	0	2	3	1	0	5	4	rs146793096	by1000genomes	TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:144916601G>A	uc001elw.3	-	13	2045	c.1754C>T	c.(1753-1755)ACG>ATG	p.T585M	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.T651M|PDE4DIP_uc001emc.1_Missense_Mutation_p.T585M|PDE4DIP_uc001emd.1_Missense_Mutation_p.T585M|PDE4DIP_uc001emb.1_Missense_Mutation_p.T748M|PDE4DIP_uc001eme.1_Missense_Mutation_p.T114M|PDE4DIP_uc001emf.1_Missense_Mutation_p.T372M	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	585	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		ATGAAGAGACGTCTGTAACTG	0.418			T	PDGFRB	MPD								25	839					0	0	0.004656	0	0		A	144916601	A	A	144916601	3	1	30	1	0	0	0	0	1	0	0	0	11662	1145	40	1	5424	1	PDE4DIP	1	144916601	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	29657853	144916601	104334020	7	31301											
POGZ	23126	broad.mit.edu	37	chr1	151396574	151396574	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttggtctggacggcatcGcccacgttctcatttggttc	5	14	11	11	3	2	0	1	0	2	0	5	1	2	1	1	4	0	4	1	4	0	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:151396574G>A	uc001eyd.1	-	9	1680	c.1374C>T	c.(1372-1374)GGC>GGT	p.G458G	POGZ_uc001eye.1_Silent_p.G405G|POGZ_uc010pdb.1_Silent_p.G449G|POGZ_uc001eyf.1_Silent_p.G405G|POGZ_uc010pdc.1_Silent_p.G396G|POGZ_uc009wmv.1_Silent_p.G363G|POGZ_uc010pdd.1_Intron	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	458					cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GGACGGCATCGCCCACGTTCT	0.507													52	102					0	0	0.01441	0	0		A	151396574	A	A	151396574	2	1	30	1	0	0	0	0	0	0	0	1	12205	1074	38	1		1	POGZ	1	151396574	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	6479973	151396574	97854047	8	31302											
TCHH	7062	broad.mit.edu	37	chr1	152080964	152080964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaacggaattttctgtcacGctcttggcggctcagctgct	7	13	10	11	3	4	0	2	0	2	0	4	1	4	1	0	3	3	4	0	3	3	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:152080964G>A	uc001ezp.2	-	2	4729	c.4729C>T	c.(4729-4731)CGT>TGT	p.R1577C	TCHH_uc009wne.1_Missense_Mutation_p.R1577C	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1577	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTTCTGTCACGCTCTTGGCGG	0.597													41	78					0	0	0.01441	0	0		A	152080964	A	A	152080964	3	1	30	1	0	0	0	0	1	0	0	0	15725	1087	38	1	1106	1	TCHH	1	152080964	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	684390	152080964	97169657	9	31303											
SLC9A11	284525	broad.mit.edu	37	chr1	173567077	173567077	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttgagtgtataaaattctAcatccaaagcaaccataaat	17	12	4	8	0	2	1	0	1	2	0	3	1	3	1	2	0	3	2	2	0	8	6			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:173567077A>G	uc001giz.2	-	4	746	c.323T>C	c.(322-324)GTA>GCA	p.V108A	SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	108	Helical; (Potential).				sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						ATAAAATTCTACATCCAAAGC	0.318													3	120					0	0	0.004672	0	0		G	173567077	G	G	173567077	3	3	30	1	0	0	0	0	1	0	0	0	14736	391	14	3	3151	3	SLC9A11	1	173567077	Missense_Mutation	SNP	A	TCGA-BR-6455-01A-11D-1800-08	21486113	173567077	75683544	10	31304											
ADORA1	134	broad.mit.edu	37	chr1	203134919	203134919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccattgtctatgccttccGcatccagaagttccgcgtca	7	11	7	16	3	2	1	1	0	1	1	5	1	5	1	6	0	1	2	6	0	2	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:203134919G>A	uc001gze.1	+	4	1305	c.872G>A	c.(871-873)CGC>CAC	p.R291H	FMOD_uc010pqi.1_Intron|ADORA1_uc001gzf.1_Missense_Mutation_p.R291H|ADORA1_uc010pqg.1_Missense_Mutation_p.R223H|ADORA1_uc009xak.1_Silent_p.P216P|ADORA1_uc010pqh.1_Missense_Mutation_p.R324H	NM_000674	NP_000665	P30542	AA1R_HUMAN	adenosine A1 receptor	291	Helical; Name=7; (Potential).				induction of apoptosis by extracellular signals|inflammatory response|nervous system development|phagocytosis	integral to plasma membrane				large_intestine(1)	1					Aminophylline(DB01223)|Caffeine(DB00201)|Defibrotide(DB04932)|Gabapentin(DB00996)|Imipramine(DB00458)|Pegademase bovine(DB00061)|Theophylline(DB00277)	TATGCCTTCCGCATCCAGAAG	0.557													26	46					0	0	0.00333	0	0		A	203134919	A	A	203134919	3	1	30	1	0	0	0	0	1	0	0	0	326	1087	38	1	878	1	ADORA1	1	203134919	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	29567842	203134919	46115702	11	31305											
OBSCN	84033	broad.mit.edu	37	chr1	228524806	228524806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctcccagatcactgagatgGtatcggccaagatcacgcag	11	7	10	13	2	2	3	2	1	0	3	4	4	3	3	3	2	0	2	3	2	2	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:228524806G>A	uc009xez.1	+	65	16683	c.16639G>A	c.(16639-16641)GTA>ATA	p.V5547I	OBSCN_uc001hsn.2_Missense_Mutation_p.V5547I|OBSCN_uc001hsr.1_Missense_Mutation_p.V175I	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5547					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CACTGAGATGGTATCGGCCAA	0.642													20	56					0	0	0.014323	0	0		A	228524806	A	A	228524806	3	1	30	1	0	0	0	0	1	0	0	0	10831	1261	44	4	16893	4	OBSCN	1	228524806	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	25389887	228524806	20725815	12	31306											
RYR2	6262	broad.mit.edu	37	chr1	237801713	237801713	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccagatgctggtgtctaaGggctatccagacattgggtg	8	11	14	8	0	1	2	0	0	1	2	2	2	2	2	2	3	2	2	2	3	2	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr1:237801713G>A	uc001hyl.1	+	45	6969	c.6849G>A	c.(6847-6849)AAG>AAA	p.K2283K		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2283	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TGGTGTCTAAGGGCTATCCAG	0.428													79	155					0	0	0.01441	0	0		A	237801713	A	A	237801713	2	1	30	1	0	0	0	0	0	0	0	1	13794	991	35	4		4	RYR2	1	237801713	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	9276907	237801713	11448908	13	31307											
PXDN	7837	broad.mit.edu	37	chr2	1653281	1653281	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaaggcggtcagcgaggcGccccacatggggtgctgcag	7	5	17	12	4	1	0	1	0	0	0	2	2	1	0	2	5	3	2	2	5	1	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr2:1653281G>A	uc002qxa.2	-	17	2335	c.2271C>T	c.(2269-2271)GGC>GGT	p.G757G		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	757					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		TCAGCGAGGCGCCCCACATGG	0.637													52	108					0	0	0.01441	0	0		A	1653281	A	A	1653281	2	1	30	1	0	0	0	0	0	0	0	1	12872	1074	38	1		1	PXDN	2	1653281	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08		1653281	241546092	14	31308											
GREB1	9687	broad.mit.edu	37	chr2	11750964	11750964	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaacctcctcaactccccGaagcagtgcccctgcggcca	9	5	8	19	2	1	1	1	0	0	1	3	2	3	1	7	1	5	1	7	1	3	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr2:11750964G>A	uc002rbk.1	+	18	3117	c.2817G>A	c.(2815-2817)CCG>CCA	p.P939P	GREB1_uc002rbo.1_Silent_p.P573P|GREB1_uc002rbp.1_5'Flank	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	939						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		TCAACTCCCCGAAGCAGTGCC	0.687													18	33					0	0	0.006122	0	0		A	11750964	A	A	11750964	2	1	30	1	0	0	0	0	0	0	0	1	6776	1045	37	1		1	GREB1	2	11750964	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	10097683	11750964	231448409	15	31309											
ACTG2	72	broad.mit.edu	37	chr2	74143812	74143812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccaacaatgtcctctctgggGgcaccaccatgtaccctggc	8	8	9	16	0	1	0	0	0	1	0	3	0	2	0	5	3	2	2	5	3	3	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr2:74143812G>A	uc002sjw.2	+	8	1029	c.907G>A	c.(907-909)GGC>AGC	p.G303S	ACTG2_uc010fey.2_Missense_Mutation_p.G303S|ACTG2_uc010yrn.1_Missense_Mutation_p.G260S	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	303					muscle contraction	cytoskeleton|cytosol	ATP binding				0						CCTCTCTGGGGGCACCACCAT	0.512													18	44					0	0	0.006122	0	0		A	74143812	A	A	74143812	3	1	30	1	0	0	0	0	1	0	0	0	197	1232	43	4	933	4	ACTG2	2	74143812	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	62392848	74143812	169055561	16	31310											
CTNNA2	1496	broad.mit.edu	37	chr2	79878715	79878715	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttcacctatcattctgaaAtgggaccccaaaagtttgga	13	11	7	10	0	3	1	2	1	1	0	3	3	3	3	3	2	0	1	3	2	4	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr2:79878715A>T	uc010ysh.1	+	1	38	c.33A>T	c.(31-33)AAA>AAT	p.K11N	CTNNA2_uc010yse.1_Missense_Mutation_p.K11N|CTNNA2_uc010ysf.1_Missense_Mutation_p.K11N|CTNNA2_uc010ysg.1_Missense_Mutation_p.K11N|hsa-mir-4264|MI0015877_5'Flank	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	11					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TCATTCTGAAATGGGACCCCA	0.403													34	69					0	0	0.00623	0	0		T	79878715	T	T	79878715	3	4	30	1	0	0	0	0	1	0	0	0	4016	98	4	5	35	5	CTNNA2	2	79878715	Missense_Mutation	SNP	A	TCGA-BR-6455-01A-11D-1800-08	5734903	79878715	163320658	17	31311											
PSD4	23550	broad.mit.edu	37	chr2	113940394	113940394	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacctggggagcccctctGcccagagggagcacaggcag	9	3	14	15	0	1	1	0	0	1	1	1	3	1	3	4	4	3	2	4	4	0	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr2:113940394G>T	uc002tjc.2	+	2	544	c.361G>T	c.(361-363)GCC>TCC	p.A121S	PSD4_uc002tjd.2_5'UTR|PSD4_uc002tje.2_Missense_Mutation_p.A120S|PSD4_uc002tjf.2_5'Flank	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	121					regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						GAGCCCCTCTGCCCAGAGGGA	0.627													21	52					1.96292e-10	2.22362e-10	0.010504	1	0		T	113940394	T	T	113940394	3	4	30	1	0	0	0	0	1	0	0	0	12671	1319	46	5	363	5	PSD4	2	113940394	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	34061679	113940394	129258979	18	31312											
WDSUB1	151525	broad.mit.edu	37	chr2	160132102	160132102	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaaattttgacttggcaatCctgaccacatgatgccagtc	11	11	7	12	0	0	3	0	3	0	0	2	3	1	3	4	1	1	1	4	1	2	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr2:160132102C>A	uc002uaj.3	-	4	780	c.631G>T	c.(631-633)GAT>TAT	p.D211Y	WDSUB1_uc002uak.3_Missense_Mutation_p.D211Y|WDSUB1_uc002ual.3_Missense_Mutation_p.D211Y|WDSUB1_uc002uam.3_Missense_Mutation_p.D211Y|WDSUB1_uc010foo.2_Missense_Mutation_p.D211Y	NM_152528	NP_689741	Q8N9V3	WSDU1_HUMAN	WD repeat, sterile alpha motif and U-box domain	211	WD 5.					ubiquitin ligase complex	ubiquitin-protein ligase activity				0						ACTTGGCAATCCTGACCACAT	0.333													82	121					2.38877e-28	2.81603e-28	0.01441	1	0		A	160132102	A	A	160132102	3	1	30	1	0	0	0	0	1	0	0	0	17367	855	30	5	831	5	WDSUB1	2	160132102	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	46191708	160132102	83067271	19	31313											
MYO3B	140469	broad.mit.edu	37	chr2	171371472	171371472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggccacattcccccgtcGcagcaggtacgaggggaagt	8	6	15	12	3	0	0	0	0	0	0	2	2	1	1	3	4	2	3	3	4	2	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr2:171371472G>A	uc002ufy.2	+	29	3555	c.3412G>A	c.(3412-3414)GCA>ACA	p.A1138T	MYO3B_uc002ufv.2_Missense_Mutation_p.A1125T|MYO3B_uc010fqb.1_Missense_Mutation_p.A1125T|MYO3B_uc002ufz.2_Missense_Mutation_p.A1111T|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	1138					response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						TTCCCCCGTCGCAGCAGGTAC	0.478													21	47					0	0	0.005443	0	0		A	171371472	A	A	171371472	3	1	30	1	0	0	0	0	1	0	0	0	10095	1087	38	1	3526	1	MYO3B	2	171371472	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	11239370	171371472	71827901	20	31314											
TTN	7273	broad.mit.edu	37	chr2	179454415	179454415	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagacaaatgtctttcctttAtctgcaatgtgaaggttttc	10	17	7	7	0	2	2	0	1	2	1	4	2	3	2	1	1	1	2	1	1	5	6			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr2:179454415A>T	uc010zfg.1	-	253	54557	c.54333T>A	c.(54331-54333)GAT>GAA	p.D18111E	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D11806E|TTN_uc010zfi.1_Missense_Mutation_p.D11739E|TTN_uc010zfj.1_Missense_Mutation_p.D11614E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19038							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTTTCCTTTATCTGCAATGT	0.448													72	194					0	0	0.01441	0	0		T	179454415	T	T	179454415	3	4	30	1	0	0	0	0	1	0	0	0	16761	446	16	5	46178	5	TTN	2	179454415	Missense_Mutation	SNP	A	TCGA-BR-6455-01A-11D-1800-08	8082943	179454415	63744958	21	31315											
ZDBF2	57683	broad.mit.edu	37	chr2	207172945	207172945	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgaagaagttgacacGgaagataggagaaatgaagc	19	5	14	3	1	0	6	0	3	0	3	0	9	0	8	0	3	1	1	0	3	7	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr2:207172945G>A	uc002vbp.2	+	5	3943	c.3693G>A	c.(3691-3693)ACG>ACA	p.T1231T		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1231							nucleic acid binding|zinc ion binding			ovary(3)	3						AAGTTGACACGGAAGATAGGA	0.423													18	36					0	0	0.00499	0	0		A	207172945	A	A	207172945	2	1	30	1	0	0	0	0	0	0	0	1	17624	1103	39	1		1	ZDBF2	2	207172945	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	27718530	207172945	36026428	22	31316											
C2orf57	165100	broad.mit.edu	37	chr2	232458738	232458738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctgcgcaccatcacccGtgtgctggagacagtggagc	8	6	13	14	2	1	1	1	0	0	1	1	3	1	2	3	2	4	2	3	2	0	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr2:232458738G>A	uc002vrz.2	+	1	1127	c.1076G>A	c.(1075-1077)CGT>CAT	p.R359H		NM_152614	NP_689827	Q53QW1	CB057_HUMAN	hypothetical protein LOC165100	359										ovary(1)	1		Renal(207;0.025)|all_hematologic(139;0.0735)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;1.33e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)		ACCATCACCCGTGTGCTGGAG	0.687													18	62					0	0	0.008871	0	0		A	232458738	A	A	232458738	3	1	30	1	0	0	0	0	1	0	0	0	2181	1145	40	1	1078	1	C2orf57	2	232458738	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	25285793	232458738	10740635	23	31317											
GPR35	2859	broad.mit.edu	37	chr2	241569891	241569891	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaatttcaactccatggcGttcccgctgctgggattcta	8	12	8	13	2	2	0	1	0	1	0	4	1	4	1	2	2	2	3	2	2	3	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr2:241569891G>A	uc002vzs.1	+	1	1097	c.522G>A	c.(520-522)GCG>GCA	p.A174A	GPR35_uc010fzh.1_Silent_p.A205A|GPR35_uc010fzi.1_Silent_p.A205A	NM_005301	NP_005292	Q9HC97	GPR35_HUMAN	G protein-coupled receptor 35	174	Extracellular (Potential).			A -> R (in Ref. 1; AAC52028).		integral to plasma membrane	G-protein coupled receptor activity			skin(2)|pancreas(1)	3		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;5.29e-32)|all cancers(36;1.38e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.02e-06)|Lung(119;0.00163)|Colorectal(34;0.00463)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.031)		ACTCCATGGCGTTCCCGCTGC	0.662													7	90					0	0	0.001984	0	0		A	241569891	A	A	241569891	2	1	30	1	0	0	0	0	0	0	0	1	6705	1132	40	1		1	GPR35	2	241569891	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	9111153	241569891	1629482	24	31318											
GOLGA4	2803	broad.mit.edu	37	chr3	37365781	37365781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcatctgctaagctggacGtttttcagtcttaccagagt	9	13	10	9	1	3	1	1	0	2	1	3	2	3	2	1	2	3	4	1	2	2	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr3:37365781G>A	uc003cgv.2	+	14	2708	c.2404G>A	c.(2404-2406)GTT>ATT	p.V802I	GOLGA4_uc010hgr.1_Missense_Mutation_p.V363I|GOLGA4_uc003cgw.2_Missense_Mutation_p.V824I|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.V683I	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	802	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TAAGCTGGACGTTTTTCAGTC	0.443													33	89					0	0	0.013726	0	0		A	37365781	A	A	37365781	3	1	30	1	0	0	0	0	1	0	0	0	6570	1145	40	1	2528	1	GOLGA4	3	37365781	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08		37365781	160656649	25	31319											
SLC38A3	10991	broad.mit.edu	37	chr3	50254855	50254855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccactttgcaggctacctgGgctactccagcggcttctct	5	12	9	15	1	1	0	0	0	1	0	4	0	3	0	3	3	4	4	3	3	2	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr3:50254855G>A	uc003cyn.3	+	9	781	c.640G>A	c.(640-642)GGC>AGC	p.G214S	SLC38A3_uc011bdl.1_Missense_Mutation_p.G189S|SLC38A3_uc011bdm.1_Missense_Mutation_p.G145S	NM_006841	NP_006832	Q99624	S38A3_HUMAN	solute carrier family 38, member 3	214	Helical; (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to plasma membrane	antiporter activity|L-alanine transmembrane transporter activity|L-asparagine transmembrane transporter activity|L-glutamine transmembrane transporter activity|L-histidine transmembrane transporter activity|symporter activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000275)|KIRC - Kidney renal clear cell carcinoma(197;0.00548)|Kidney(197;0.00615)	L-Asparagine(DB00174)|L-Glutamine(DB00130)|L-Histidine(DB00117)	AGGCTACCTGGGCTACTCCAG	0.592													9	24					0	0	0.006214	0	0		A	50254855	A	A	50254855	3	1	30	1	0	0	0	0	1	0	0	0	14630	1232	43	4	670	4	SLC38A3	3	50254855	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	12889074	50254855	147767575	26	31320											
DNAH1	25981	broad.mit.edu	37	chr3	52380535	52380535	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagctcgctaaaggtggcCatgcgcagcagcctgcgcga	9	6	13	13	4	1	0	1	0	0	0	2	1	1	0	2	2	5	4	2	2	2	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr3:52380535C>T	uc011bef.1	+	11	1965	c.1704C>T	c.(1702-1704)GCC>GCT	p.A568A	DNAH1_uc003ddt.1_Silent_p.A568A	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	568	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TAAAGGTGGCCATGCGCAGCA	0.582													6	20					0	0	0.001984	0	0		T	52380535	T	T	52380535	2	4	30	1	0	0	0	0	0	0	0	1	4603	581	21	4		4	DNAH1	3	52380535	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08	2125680	52380535	145641895	27	31321											
DNAH1	25981	broad.mit.edu	37	chr3	52417495	52417495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacgagcaggaccagatcGtcagcaccatgcggccctat	10	5	12	14	4	1	1	1	0	0	1	2	4	1	3	3	3	3	2	3	3	1	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr3:52417495G>A	uc011bef.1	+	51	8296	c.8035G>A	c.(8035-8037)GTC>ATC	p.V2679I	DNAH1_uc003ddv.2_5'Flank	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2679	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GGACCAGATCGTCAGCACCAT	0.542													7	16					0	0	0.00308	0	0		A	52417495	A	A	52417495	3	1	30	1	0	0	0	0	1	0	0	0	4603	1145	40	1	8233	1	DNAH1	3	52417495	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	36960	52417495	145604935	28	31322											
DNAH1	25981	broad.mit.edu	37	chr3	52426895	52426895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggacatcgacctgacgcGcatggagtacatacccgtgg	11	6	13	11	4	0	1	0	1	0	0	1	5	0	3	2	3	2	2	2	3	3	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr3:52426895G>A	uc011bef.1	+	65	10589	c.10328G>A	c.(10327-10329)CGC>CAC	p.R3443H	DNAH1_uc003ddv.2_Missense_Mutation_p.R301H	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3508					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GACCTGACGCGCATGGAGTAC	0.592													41	80					0	0	0.01441	0	0		A	52426895	A	A	52426895	3	1	30	1	0	0	0	0	1	0	0	0	4603	1087	38	1	10582	1	DNAH1	3	52426895	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	9400	52426895	145595535	29	31323											
NCK1	4690	broad.mit.edu	37	chr3	136664893	136664893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacccagagtggtggaaatGcaggaagatcaatggtatgg	13	8	15	5	0	1	3	1	1	0	2	1	5	1	5	1	5	1	2	1	5	4	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr3:136664893G>A	uc003erh.2	+	3	802	c.695G>A	c.(694-696)TGC>TAC	p.C232Y	NCK1_uc011bme.1_Missense_Mutation_p.C168Y	NM_006153	NP_006144	P16333	NCK1_HUMAN	NCK adaptor protein 1	232	SH3 3.				axon guidance|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of translation|signal complex assembly|T cell activation|T cell receptor signaling pathway	cytosol|endoplasmic reticulum|nucleus	cytoskeletal adaptor activity|receptor binding|receptor signaling complex scaffold activity			pancreas(1)	1						TGGTGGAAATGCAGGAAGATC	0.383													38	73					0	0	0.00623	0	0		A	136664893	A	A	136664893	3	1	30	1	0	0	0	0	1	0	0	0	10238	1319	46	2	701	2	NCK1	3	136664893	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	84237998	136664893	61357537	30	31324											
ZBTB38	253461	broad.mit.edu	37	chr3	141164795	141164795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaggataacatacaaaccGgtgtggaaaatgttgtcctt	16	10	9	6	1	0	0	0	0	0	0	1	2	1	2	2	3	3	1	2	3	7	4	rs76129297		TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr3:141164795G>A	uc003etw.2	+	8	4547	c.3565G>A	c.(3565-3567)GGT>AGT	p.G1189S	ZBTB38_uc010hun.2_Missense_Mutation_p.G1186S|ZBTB38_uc010huo.2_Missense_Mutation_p.G1189S|ZBTB38_uc003ety.2_Missense_Mutation_p.G1189S|ZBTB38_uc010hup.2_Missense_Mutation_p.G1190S	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	1189					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CATACAAACCGGTGTGGAAAA	0.343													20	103					0	0	0.012319	0	0		A	141164795	A	A	141164795	3	1	30	1	0	0	0	0	1	0	0	0	17564	1116	39	1	3567	1	ZBTB38	3	141164795	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	4499902	141164795	56857635	31	31325											
PIK3CA	5290	broad.mit.edu	37	chr3	178927980	178927980	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgttttttaaggaacacTgtccattggcatggggaaat	10	15	10	6	0	0	0	0	0	0	0	1	2	1	2	1	4	1	2	1	4	3	5	rs121913272		TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr3:178927980T>C	uc003fjk.2	+	8	1415	c.1258T>C	c.(1258-1260)TGT>CGT	p.C420R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	420	C2 PI3K-type.		C -> R (in cancer; shows an increase in lipid kinase activity; may increase the affinity for lipid membranes).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.C420R(26)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TAAGGAACACTGTCCATTGGC	0.328	C420R(EFM192A_BREAST)|C420R(OVISE_OVARY)|C420R(HEC151_ENDOMETRIUM)|C420R(CCK81_LARGE_INTESTINE)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			25	63					0	0	0.004656	0	0		C	178927980	C	C	178927980	3	2	30	1	0	0	0	0	1	0	0	0	11932	1580	55	3	1284	3	PIK3CA	3	178927980	Missense_Mutation	SNP	T	TCGA-BR-6455-01A-11D-1800-08	37763185	178927980	19094450	32	31326											
KCTD8	386617	broad.mit.edu	37	chr4	44449880	44449880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgtcggcctggttgtcgcGcacggtggtgtaggagcccc	3	8	18	12	5	0	0	0	0	0	0	2	1	0	1	3	6	1	3	3	6	1	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr4:44449880G>A	uc003gwu.2	-	1	945	c.661C>T	c.(661-663)CGC>TGC	p.R221C		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	221						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						TGGTTGTCGCGCACGGTGGTG	0.542										HNSCC(17;0.042)			4	5					0	0	0.000602	0	0		A	44449880	A	A	44449880	3	1	30	1	0	0	0	0	1	0	0	0	8131	1087	38	1	768	1	KCTD8	4	44449880	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08		44449880	146704396	33	31327											
C4orf33	132321	broad.mit.edu	37	chr4	130030790	130030790	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgaagctctttaccctgtaCctcagcatgaactgcagcaa	12	10	7	12	0	2	2	1	2	1	0	2	2	2	2	2	0	7	5	2	0	5	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr4:130030790C>G	uc003igu.3	+	5	821	c.457C>G	c.(457-459)CCT>GCT	p.P153A	C4orf33_uc010ioc.1_Missense_Mutation_p.P153A|C4orf33_uc010iod.2_Missense_Mutation_p.P153A	NM_173487	NP_775758	Q8N1A6	CD033_HUMAN	hypothetical protein LOC132321	153										upper_aerodigestive_tract(1)	1						TTACCCTGTACCTCAGCATGA	0.333													17	39					0	0	0.00499	0	0		G	130030790	G	G	130030790	3	3	30	1	0	0	0	0	1	0	0	0	2266	507	18	5	471	5	C4orf33	4	130030790	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	85580910	130030790	61123486	34	31328											
NR3C2	4306	broad.mit.edu	37	chr4	149041319	149041319	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaatttacttgtgcttagTagcagcaaaactttcatgat	13	15	6	7	0	2	1	2	1	0	0	2	1	2	1	0	0	5	4	0	0	6	6			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr4:149041319T>C	uc003ilj.3	-	7	2965	c.2631A>G	c.(2629-2631)CTA>CTG	p.L877L	NR3C2_uc003ilk.3_Silent_p.L760L|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	877	Steroid-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	TTGTGCTTAGTAGCAGCAAAA	0.428													19	69					0	0	0.008871	0	0		C	149041319	C	C	149041319	2	2	30	1	0	0	0	0	0	0	0	1	10650	1625	57	3		3	NR3C2	4	149041319	Silent	SNP	T	TCGA-BR-6455-01A-11D-1800-08	19010529	149041319	42112957	35	31329											
FYB	2533	broad.mit.edu	37	chr5	39202557	39202557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccagtcaatttgggaaacGcttgcttctgttcattttct	7	16	7	11	1	4	0	2	0	2	0	4	1	4	1	2	1	2	3	2	1	2	6			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr5:39202557G>A	uc003jls.2	-	1	573	c.506C>T	c.(505-507)GCG>GTG	p.A169V	FYB_uc003jlt.2_Missense_Mutation_p.A169V|FYB_uc003jlu.2_Missense_Mutation_p.A169V|FYB_uc011cpl.1_Missense_Mutation_p.A179V	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	169					cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			TTTGGGAAACGCTTGCTTCTG	0.488													60	110					0	0	0.01441	0	0		A	39202557	A	A	39202557	3	1	30	1	0	0	0	0	1	0	0	0	6138	1087	38	1	2055	1	FYB	5	39202557	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08		39202557	141712703	36	31330											
POU5F2	134187	broad.mit.edu	37	chr5	93077167	93077167	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggggccgcctgggtgctcaAccaggtcagagtgtcaaccc	8	6	14	13	1	3	1	3	0	0	1	3	1	3	1	4	4	3	1	4	4	2	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr5:93077167A>C	uc003kkl.1	-	1	143	c.103T>G	c.(103-105)TTG>GTG	p.L35V	FAM172A_uc010jbd.2_Intron|FAM172A_uc011cuf.1_Intron|FAM172A_uc011cug.1_Intron|FAM172A_uc011cuh.1_Intron|FAM172A_uc011cui.1_Intron|FAM172A_uc011cuj.1_Intron	NM_153216	NP_694948	Q8N7G0	PO5F2_HUMAN	POU domain class 5, transcription factor 2	35						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(142;3.87e-05)|all_epithelial(76;4.59e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0415)|all cancers(79;2.03e-19)		TGGGTGCTCAACCAGGTCAGA	0.697													10	19					0	0	0.006214	0	0		C	93077167	C	C	93077167	3	2	30	1	0	0	0	0	1	0	0	0	12302	40	2	5	887	5	POU5F2	5	93077167	Missense_Mutation	SNP	A	TCGA-BR-6455-01A-11D-1800-08	53874610	93077167	87838093	37	31331											
YTHDC2	64848	broad.mit.edu	37	chr5	112888990	112888990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttatcatcatagtttcgatGatgaaaaagtagacttggat	14	14	8	5	1	2	3	2	2	0	1	3	5	2	4	0	1	0	2	0	1	5	5			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr5:112888990G>A	uc003kqn.2	+	13	1984	c.1801G>A	c.(1801-1803)GAT>AAT	p.D601N	YTHDC2_uc010jce.1_Missense_Mutation_p.D601N|YTHDC2_uc010jcf.1_Missense_Mutation_p.D301N	NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	601							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		TAGTTTCGATGATGAAAAAGT	0.373													8	21					0	0	0.004482	0	0		A	112888990	A	A	112888990	3	1	30	1	0	0	0	0	1	0	0	0	17523	1290	45	4	1851	4	YTHDC2	5	112888990	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	19811823	112888990	68026270	38	31332											
P4HA2	8974	broad.mit.edu	37	chr5	131552925	131552925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggacaaggtcctccagcGcaggccagtctgtgtttagc	8	8	13	12	1	1	0	0	0	1	0	3	1	3	1	3	3	2	3	3	3	2	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr5:131552925G>A	uc003kwh.2	-	4	860	c.296C>T	c.(295-297)GCG>GTG	p.A99V	P4HA2_uc003kwg.2_Missense_Mutation_p.A99V|P4HA2_uc003kwi.2_Missense_Mutation_p.A99V|P4HA2_uc003kwk.2_Missense_Mutation_p.A99V|P4HA2_uc003kwl.2_Missense_Mutation_p.A99V|P4HA2_uc003kwj.2_Missense_Mutation_p.A99V	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	99						endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	GTCCTCCAGCGCAGGCCAGTC	0.567													33	61					0	0	0.013726	0	0		A	131552925	A	A	131552925	3	1	30	1	0	0	0	0	1	0	0	0	11376	1087	38	1	1423	1	P4HA2	5	131552925	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	18663935	131552925	49362335	39	31333											
BRD8	10902	broad.mit.edu	37	chr5	137475855	137475855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtctaaccagatattcagtaCctaaagggttaaggaacaca	16	9	8	8	0	2	1	1	0	1	1	2	2	2	2	2	2	3	2	2	2	7	6			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr5:137475855C>T	uc003lcf.1	-	27	3671	c.3616G>A	c.(3616-3618)GTA>ATA	p.V1206I	BRD8_uc003lcc.1_Intron|NME5_uc003lce.2_5'Flank	NM_139199	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 2	1206					cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			ATATTCAGTACCTAAAGGGTT	0.368													30	63					0	0	0.013726	0	0		T	137475855	T	T	137475855	3	4	30	1	0	0	0	0	1	0	0	0	1509	521	18	4	95	4	BRD8	5	137475855	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	5922930	137475855	43439405	40	31334											
PCDHB8	56128	broad.mit.edu	37	chr5	140559781	140559781	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaggagcagggcggcctcGgtgggtcgctgctcagtgcc	5	6	19	11	3	1	0	1	0	0	0	3	2	1	2	2	6	3	3	2	6	0	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr5:140559781G>A	uc011dai.1	+	1	2352	c.2166G>A	c.(2164-2166)TCG>TCA	p.S722S	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	722	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGGCGGCCTCGGTGGGTCGCT	0.642													41	114					0	0	0.006999	0	0		A	140559781	A	A	140559781	2	1	30	1	0	0	0	0	0	0	0	1	11567	1103	39	1		1	PCDHB8	5	140559781	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	3083926	140559781	40355479	41	31335											
SH3RF2	153769	broad.mit.edu	37	chr5	145317619	145317619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctacagagggttttcaaggCccacaaagagctgcggtgcc	10	8	12	11	1	2	2	1	0	1	2	2	2	2	2	2	3	4	2	2	3	3	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr5:145317619C>T	uc003lnt.2	+	2	366	c.128C>T	c.(127-129)GCC>GTC	p.A43V	SH3RF2_uc011dbl.1_Missense_Mutation_p.A43V	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	43	RING-type.						ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GTTTTCAAGGCCCACAAAGAG	0.577													22	53					0	0	0.00278	0	0		T	145317619	T	T	145317619	3	4	30	1	0	0	0	0	1	0	0	0	14284	739	26	2	130	2	SH3RF2	5	145317619	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	4757838	145317619	35597641	42	31336											
PCYOX1L	78991	broad.mit.edu	37	chr5	148748009	148748009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agctgagtggcaggcccatcCcctctatggctcccgcccca	6	7	10	18	1	1	1	0	1	1	0	3	1	3	1	6	3	1	3	6	3	1	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr5:148748009C>T	uc003lqk.2	+	6	1339	c.1277C>T	c.(1276-1278)CCC>CTC	p.P426L	PCYOX1L_uc003lql.2_Missense_Mutation_p.P409L|PCYOX1L_uc010jgz.2_Missense_Mutation_p.P350L|PCYOX1L_uc003lqm.2_Missense_Mutation_p.P308L|PCYOX1L_uc003lqn.2_Missense_Mutation_p.P336L	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	426					prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGCCCATCCCCTCTATGGC	0.612													22	41					0	0	0.014323	0	0		T	148748009	T	T	148748009	3	4	30	1	0	0	0	0	1	0	0	0	11628	623	22	4	1299	4	PCYOX1L	5	148748009	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	3430390	148748009	32167251	43	31337											
EBF1	1879	broad.mit.edu	37	chr5	158158138	158158138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttctgtaacctctggaaaCcataatcgatggtgggttcg	9	12	10	10	2	2	0	0	0	2	0	4	2	2	1	3	3	2	2	3	3	3	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr5:158158138C>T	uc010jip.2	-	11	1366	c.1064G>A	c.(1063-1065)GGT>GAT	p.G355D	EBF1_uc011ddw.1_Missense_Mutation_p.G223D|EBF1_uc011ddx.1_Missense_Mutation_p.G356D|EBF1_uc003lxl.3_Missense_Mutation_p.G324D	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	355					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCTCTGGAAACCATAATCGAT	0.433			T	HMGA2	lipoma								14	29					0	0	0.004007	0	0		T	158158138	T	T	158158138	3	4	30	1	0	0	0	0	1	0	0	0	4886	507	18	4	735	4	EBF1	5	158158138	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	9410129	158158138	22757122	44	31338											
PKHD1	5314	broad.mit.edu	37	chr6	51512896	51512896	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catggctctgaaggaggtccCagggactctactcttcgatt	8	11	11	11	1	3	1	0	1	3	0	5	4	4	3	1	4	1	1	1	4	2	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr6:51512896C>A	uc003pah.1	-	63	11607	c.11331G>T	c.(11329-11331)CTG>CTT	p.L3777L		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3777	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AAGGAGGTCCCAGGGACTCTA	0.418													36	101					2.59497e-14	2.98628e-14	0.007835	1	0		A	51512896	A	A	51512896	2	1	30	1	0	0	0	0	0	0	0	1	11990	581	21	5		5	PKHD1	6	51512896	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08		51512896	119602171	45	31339											
COL12A1	1303	broad.mit.edu	37	chr6	75893230	75893230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaagactaatctggaccCtatttggtgaaatttcaaaa	15	11	7	8	0	2	2	1	1	1	1	2	3	2	3	1	2	0	1	1	2	6	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr6:75893230C>T	uc003phs.2	-	10	1593	c.1427G>A	c.(1426-1428)AGG>AAG	p.R476K	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_Missense_Mutation_p.R134K	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	476	VWFA 2.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						AATCTGGACCCTATTTGGTGA	0.353													34	66					0	0	0.010818	0	0		T	75893230	T	T	75893230	3	4	30	1	0	0	0	0	1	0	0	0	3672	681	24	4	7992	4	COL12A1	6	75893230	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	24380334	75893230	95221837	46	31340											
SLC35D3	340146	broad.mit.edu	37	chr6	137245222	137245222	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcaccgactccatccaCgcctggaccttcccgggctg	6	6	10	19	3	0	0	0	0	0	0	3	2	3	1	7	2	1	2	7	2	0	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr6:137245222C>T	uc003qhe.2	+	2	804	c.639C>T	c.(637-639)CAC>CAT	p.H213H		NM_001008783	NP_001008783	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	213					carbohydrate transport	integral to membrane				ovary(1)|central_nervous_system(1)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		ACTCCATCCACGCCTGGACCT	0.657													4	11					0	0	0.009096	0	0		T	137245222	T	T	137245222	2	4	30	1	0	0	0	0	0	0	0	1	14608	535	19	1		1	SLC35D3	6	137245222	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08	61351992	137245222	33869845	47	31341											
GRM1	2911	broad.mit.edu	37	chr6	146720544	146720544	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccaaatatatcgcgttcaCcatgtacaccacctgtatca	12	10	6	13	2	2	0	2	0	0	0	3	0	2	0	4	1	1	3	4	1	5	5			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr6:146720544C>T	uc010khw.1	+	8	2839	c.2369C>T	c.(2368-2370)ACC>ATC	p.T790I	GRM1_uc010khv.1_Missense_Mutation_p.T790I|GRM1_uc003qll.2_Missense_Mutation_p.T790I|GRM1_uc011edz.1_Missense_Mutation_p.T790I|GRM1_uc011eea.1_Missense_Mutation_p.T790I	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	790	Helical; Name=6; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	ATCGCGTTCACCATGTACACC	0.478													43	74					0	0	0.00874	0	0		T	146720544	T	T	146720544	3	4	30	1	0	0	0	0	1	0	0	0	6812	507	18	4	2395	4	GRM1	6	146720544	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	9475322	146720544	24394523	48	31342											
SYNE1	23345	broad.mit.edu	37	chr6	152651705	152651705	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagaaagagcctcctcaacGgccaggtcggtgggaacttt	11	7	13	10	2	1	2	1	0	0	2	3	4	2	3	3	4	3	0	3	4	3	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr6:152651705G>A	uc010kiw.2	-	78	14717	c.14115C>T	c.(14113-14115)GCC>GCT	p.A4705A	SYNE1_uc003qot.3_Silent_p.A4634A|SYNE1_uc003qou.3_Silent_p.A4705A|SYNE1_uc010kiz.2_Silent_p.A460A	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4705	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CCTCCTCAACGGCCAGGTCGG	0.522										HNSCC(10;0.0054)			11	32					0	0	0.010729	0	0		A	152651705	A	A	152651705	2	1	30	1	0	0	0	0	0	0	0	1	15470	1103	39	1		1	SYNE1	6	152651705	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	5931161	152651705	18463362	49	31343											
PDGFA	5154	broad.mit.edu	37	chr7	552006	552006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgatgcttctcttcctccGaatgggcaggggccgcttct	5	11	11	14	3	2	0	0	0	2	0	5	2	4	0	4	3	1	3	4	3	1	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr7:552006G>A	uc003sir.2	-	3	1090	c.247C>T	c.(247-249)CGG>TGG	p.R83W	PDGFA_uc003sis.2_Missense_Mutation_p.R83W|PDGFA_uc003sit.1_Missense_Mutation_p.R97W	NM_002607	NP_002598	P04085	PDGFA_HUMAN	platelet-derived growth factor alpha isoform 1	83					actin cytoskeleton organization|angiogenesis|cell projection assembly|embryo development|hair follicle development|lung alveolus development|negative chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|organ morphogenesis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of DNA replication|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of MAP kinase activity|positive regulation of mesenchymal cell proliferation|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein kinase B signaling cascade|regulation of actin cytoskeleton organization|regulation of branching involved in salivary gland morphogenesis by epithelial-mesenchymal signaling|regulation of peptidyl-tyrosine phosphorylation|regulation of smooth muscle cell migration|skin development	cell surface|endoplasmic reticulum lumen|extracellular space|Golgi membrane|microvillus|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity				0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|Epithelial(4;1.1e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.7e-17)|all cancers(6;4.89e-15)		CTCTTCCTCCGAATGGGCAGG	0.398													22	44					0	0	0.00333	0	0		A	552006	A	A	552006	3	1	30	1	0	0	0	0	1	0	0	0	11676	1057	37	1	419	1	PDGFA	7	552006	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08		552006	158586657	50	31344											
URGCP	55665	broad.mit.edu	37	chr7	43917871	43917871	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aacttattcagaaatctcagGtttgtgttgcgcttcccacg	9	14	8	10	2	2	1	2	0	1	1	4	1	3	1	1	1	2	3	1	1	3	5			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr7:43917871G>A	uc003tiw.2	-	6	1248	c.1191C>T	c.(1189-1191)AAC>AAT	p.N397N	URGCP_uc003tiu.2_Silent_p.N354N|URGCP_uc003tiv.2_Silent_p.N322N|URGCP_uc003tix.2_Silent_p.N388N|URGCP_uc003tiy.2_Silent_p.N354N|URGCP_uc003tiz.2_Silent_p.N354N|URGCP_uc011kbj.1_Silent_p.N354N	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	397					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						GAAATCTCAGGTTTGTGTTGC	0.438													52	99					0	0	0.01441	0	0		A	43917871	A	A	43917871	2	1	30	1	0	0	0	0	0	0	0	1	17052	1252	44	4		4	URGCP	7	43917871	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	43365865	43917871	115220792	51	31345											
ADCY1	107	broad.mit.edu	37	chr7	45614571	45614571	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtcctttcgcgctgggCggccccgcccggggttccgc	0	9	15	17	6	0	0	0	0	0	0	3	0	2	0	5	4	1	3	5	4	0	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr7:45614571C>T	uc003tne.3	+	1	447	c.429C>T	c.(427-429)GGC>GGT	p.G143G	ADCY1_uc003tnd.2_5'UTR	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	143	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TCGCGCTgggcggccccgccc	0.507													13	24					0	0	0.013537	0	0		T	45614571	T	T	45614571	2	4	30	1	0	0	0	0	0	0	0	1	292	755	27	1		1	ADCY1	7	45614571	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08	1696700	45614571	113524092	52	31346											
MUC17	140453	broad.mit.edu	37	chr7	100678664	100678664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttcatctcctacacctgctGaaggtaccagcatgccaacc	10	9	7	15	0	2	1	1	1	1	0	3	1	2	1	5	1	6	4	5	1	4	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr7:100678664G>A	uc003uxp.1	+	3	4020	c.3967G>A	c.(3967-3969)GAA>AAA	p.E1323K	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1323	Extracellular (Potential).|20.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TACACCTGCTGAAGGTACCAG	0.468													102	220					0	0	0.01441	0	0		A	100678664	A	A	100678664	3	1	30	1	0	0	0	0	1	0	0	0	9992	1291	45	4	3977	4	MUC17	7	100678664	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	55064093	100678664	58459999	53	31347											
MUC17	140453	broad.mit.edu	37	chr7	100684284	100684284	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgacaccagcacacctgtgaCcacttctactgaagccactt	11	9	6	15	0	1	3	0	3	1	0	1	3	1	3	4	0	3	1	4	0	2	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr7:100684284C>A	uc003uxp.1	+	3	9640	c.9587C>A	c.(9586-9588)ACC>AAC	p.T3196N	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3196	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|52.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ACACCTGTGACCACTTCTACT	0.468													152	259					2.96194e-67	3.52034e-67	0.01441	1	0		A	100684284	A	A	100684284	3	1	30	1	0	0	0	0	1	0	0	0	9992	507	18	5	9597	5	MUC17	7	100684284	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	5620	100684284	58454379	54	31348											
IFRD1	3475	broad.mit.edu	37	chr7	112102348	112102348	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccataagcttccaagccTcctctcttgtgatgatgtaa	9	15	6	11	0	1	2	0	2	1	0	5	2	4	2	4	0	2	2	4	0	3	5			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr7:112102348T>C	uc003vgh.2	+	9	1264	c.821T>C	c.(820-822)CTC>CCC	p.L274P	IFRD1_uc011kmn.1_Missense_Mutation_p.L224P|IFRD1_uc003vgj.2_Missense_Mutation_p.L274P|IFRD1_uc011kmo.1_RNA|IFRD1_uc011kmp.1_Missense_Mutation_p.L224P	NM_001007245	NP_001007246	O00458	IFRD1_HUMAN	interferon-related developmental regulator 1	274					multicellular organismal development|myoblast cell fate determination		binding			kidney(1)|central_nervous_system(1)	2						CTTCCAAGCCTCCTCTCTTGT	0.353													28	53					0	0	0.007291	0	0		C	112102348	C	C	112102348	3	2	30	1	0	0	0	0	1	0	0	0	7569	1551	54	3	851	3	IFRD1	7	112102348	Missense_Mutation	SNP	T	TCGA-BR-6455-01A-11D-1800-08	11418064	112102348	47036315	55	31349											
FAM180A	389558	broad.mit.edu	37	chr7	135418743	135418743	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggaggtactcccggctGtgaggagcgcatcaagtcgt	8	8	15	10	3	2	1	2	1	0	0	4	3	3	3	1	4	2	3	1	4	2	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr7:135418743G>T	uc003vtd.2	-	3	768	c.502C>A	c.(502-504)CAG>AAG	p.Q168K	FAM180A_uc010lmt.2_RNA|FAM180A_uc010lmu.2_Missense_Mutation_p.Q168K	NM_205855	NP_995327	Q6UWF9	F180A_HUMAN	hypothetical protein LOC389558 precursor	168						extracellular region				ovary(2)	2						ACTCCCGGCTGTGAGGAGCGC	0.587													9	29					1.76689e-08	1.97077e-08	0.006214	1	0		T	135418743	T	T	135418743	3	4	30	1	0	0	0	0	1	0	0	0	5518	1386	48	5	23	5	FAM180A	7	135418743	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	23316395	135418743	23719920	56	31350											
FAM135B	51059	broad.mit.edu	37	chr8	139209873	139209873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctcggtgccacttgtgtgCgtgctgcatgcagttctcag	4	13	13	11	2	2	0	1	0	2	0	4	0	2	0	1	1	5	4	1	1	0	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr8:139209873C>T	uc003yuy.2	-	8	880	c.709G>A	c.(709-711)GCA>ACA	p.A237T	FAM135B_uc003yux.2_Missense_Mutation_p.A138T|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	237										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CACTTGTGTGCGTGCTGCATG	0.582										HNSCC(54;0.14)			20	84					0	0	0.010504	0	0		T	139209873	T	T	139209873	3	4	30	1	0	0	0	0	1	0	0	0	5460	768	27	1	3563	1	FAM135B	8	139209873	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08		139209873	7154149	57	31351											
PLEC	5339	broad.mit.edu	37	chr8	144997456	144997456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcggcctccgtggcctccGccttcagccgctgcagctcc	2	8	12	19	4	1	0	1	0	0	0	4	0	4	0	7	2	4	3	7	2	0	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr8:144997456G>A	uc003zaf.1	-	31	7222	c.7052C>T	c.(7051-7053)GCG>GTG	p.A2351V	PLEC_uc003zab.1_Missense_Mutation_p.A2214V|PLEC_uc003zac.1_Missense_Mutation_p.A2218V|PLEC_uc003zad.2_Missense_Mutation_p.A2214V|PLEC_uc003zae.1_Missense_Mutation_p.A2182V|PLEC_uc003zag.1_Missense_Mutation_p.A2192V|PLEC_uc003zah.2_Missense_Mutation_p.A2200V|PLEC_uc003zaj.2_Missense_Mutation_p.A2241V	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2351	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CGTGGCCTCCGCCTTCAGCCG	0.662													12	12					0	0	0.001855	0	0		A	144997456	A	A	144997456	3	1	30	1	0	0	0	0	1	0	0	0	12071	1087	38	1	7010	1	PLEC	8	144997456	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	5787583	144997456	1366566	58	31352											
FAM166B	730112	broad.mit.edu	37	chr9	35562915	35562915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcctccagctgcccctccGgctctggcacctggtccttc	2	10	9	20	1	1	0	0	0	1	0	6	0	5	0	7	3	2	4	7	3	0	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr9:35562915G>A	uc010mkr.2	-	3	520	c.449C>T	c.(448-450)CCG>CTG	p.P150L	FAM166B_uc011lov.1_Missense_Mutation_p.P150L|FAM166B_uc011low.1_Missense_Mutation_p.P150L|FAM166B_uc003zwy.2_Missense_Mutation_p.P150L	NM_001164310	NP_001157782	A8MTA8	F166B_HUMAN	hypothetical protein LOC730112 isoform 1	150											0						CTGCCCCTCCGGCTCTGGCAC	0.567													30	66					0	0	0.004878	0	0		A	35562915	A	A	35562915	3	1	30	1	0	0	0	0	1	0	0	0	5493	1116	39	1	213	1	FAM166B	9	35562915	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08		35562915	105650516	59	31353											
PPP3R2	5535	broad.mit.edu	37	chr9	104356919	104356919	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccatgtcgtaaatgctgaaCgcaaacctcaacttctgctc	11	11	6	13	2	2	1	1	1	1	0	5	1	3	1	2	0	5	4	2	0	5	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr9:104356919C>T	uc004bbr.2	-	1	365	c.294G>A	c.(292-294)GCG>GCA	p.A98A	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_RNA	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	95	EF-hand 3.						calcium ion binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	AAATGCTGAACGCAAACCTCA	0.537													44	98					0	0	0.00874	0	0		T	104356919	T	T	104356919	2	4	30	1	0	0	0	0	0	0	0	1	12423	523	19	1		1	PPP3R2	9	104356919	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08	68794004	104356919	36856512	60	31354											
NUP188	23511	broad.mit.edu	37	chr9	131768031	131768031	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccttctggccacagtgaaTgtggccctcaacatgcttgg	8	10	10	13	0	2	1	1	1	1	0	2	1	2	1	3	3	2	1	3	3	2	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr9:131768031T>C	uc004bws.1	+	41	4867	c.4845T>C	c.(4843-4845)AAT>AAC	p.N1615N		NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1615					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						CCACAGTGAATGTGGCCCTCA	0.502													82	158					0	0	0.01441	0	0		C	131768031	C	C	131768031	2	2	30	1	0	0	0	0	0	0	0	1	10777	1461	51	3		3	NUP188	9	131768031	Silent	SNP	T	TCGA-BR-6455-01A-11D-1800-08	27411112	131768031	9445400	61	31355											
FBXW5	54461	broad.mit.edu	37	chr9	139835750	139835750	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagatgaagaagcactcGtcgttgggcgtgtaggcgcg	10	7	17	7	5	0	3	0	1	0	2	2	4	0	4	0	3	1	3	0	3	4	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr9:139835750G>A	uc004cjx.2	-	8	1561	c.1410C>T	c.(1408-1410)GAC>GAT	p.D470D	FBXW5_uc010nbx.2_RNA|FBXW5_uc004cjy.2_Silent_p.D218D|FBXW5_uc004cjz.2_Silent_p.D200D	NM_018998	NP_061871	Q969U6	FBXW5_HUMAN	F-box and WD repeat domain containing 5	470	WD 2.						catalytic activity|protein binding				0	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.19)	OV - Ovarian serous cystadenocarcinoma(145;7.8e-06)|Epithelial(140;0.000106)		AGAAGCACTCGTCGTTGGGCG	0.682													9	23					0	0	0.006214	0	0		A	139835750	A	A	139835750	2	1	30	1	0	0	0	0	0	0	0	1	5782	1136	40	1		1	FBXW5	9	139835750	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	8067719	139835750	1377681	62	31356											
C9orf140	89958	broad.mit.edu	37	chr9	139960781	139960781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgggcacggggagcccgcCgggcatcccctgagtccgcc	4	4	15	18	5	0	1	0	1	0	0	3	2	2	2	6	4	1	2	6	4	0	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr9:139960781C>T	uc011men.1	-	2	733	c.617G>A	c.(616-618)CGG>CAG	p.R206Q		NM_178448	NP_848543	Q86UD0	CI140_HUMAN	tumor specificity and mitosis phase-dependent	206						cytoplasm|nucleus				skin(1)	1	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0821)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;3.02e-05)|Epithelial(140;0.000499)		GGGAGCCCGCCGGGCATCCCC	0.711													13	15					0	0	0.004007	0	0		T	139960781	T	T	139960781	3	4	30	1	0	0	0	0	1	0	0	0	2463	652	23	1	587	1	C9orf140	9	139960781	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	125031	139960781	1252650	63	31357											
PDE6C	5146	broad.mit.edu	37	chr10	95372701	95372701	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggaccgtgcaggaggagggGggcaccccagagcagggggt	8	3	21	9	1	0	1	0	0	0	1	0	4	0	4	3	8	2	3	3	8	0	0	rs140469169	byFrequency	TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr10:95372701G>A	uc001kiu.3	+	1	357	c.219G>A	c.(217-219)GGG>GGA	p.G73G		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	73					visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				AGGAGGAGGGGGGCACCCCAG	0.672													42	11					0	0	0.01441	0	0		A	95372701	A	A	95372701	2	1	30	1	0	0	0	0	0	0	0	1	11666	1219	43	4		4	PDE6C	10	95372701	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08		95372701	40162046	64	31358											
PYROXD2	84795	broad.mit.edu	37	chr10	100154955	100154955	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacccccctcactcacccActccccggagtgtggggact	6	7	8	20	1	3	0	3	0	0	0	4	2	4	2	6	3	0	0	6	3	0	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr10:100154955A>G	uc001kpc.2	-	8	869	c.783T>C	c.(781-783)AGT>AGC	p.S261S	PYROXD2_uc001kpb.2_RNA|PYROXD2_uc001kpd.2_RNA|PYROXD2_uc010qpe.1_Silent_p.S261S	NM_032709	NP_116098	Q8N2H3	PYRD2_HUMAN	pyridine nucleotide-disulphide oxidoreductase	261							oxidoreductase activity			central_nervous_system(1)	1						TCACTCACCCACTCCCCGGAG	0.542													81	40					0	0	0.01441	0	0		G	100154955	G	G	100154955	2	3	30	1	0	0	0	0	0	0	0	1	12892	156	6	3		3	PYROXD2	10	100154955	Silent	SNP	A	TCGA-BR-6455-01A-11D-1800-08	4782254	100154955	35379792	65	31359											
NDUFS3	4722	broad.mit.edu	37	chr11	47604020	47604020	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctctatctggctatgttgaGgtaggagccttggaactggg	7	12	14	8	0	2	1	0	1	2	0	2	3	2	3	2	5	2	3	2	5	4	5			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr11:47604020G>A	uc001nga.2	+	6	709	c.627G>A	c.(625-627)GAG>GAA	p.E209E	NDUFS3_uc001nft.3_Silent_p.E188E	NM_004551	NP_004542	O75489	NDUS3_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 3	209					induction of apoptosis|mitochondrial electron transport, NADH to ubiquinone|negative regulation of cell growth|reactive oxygen species metabolic process|transport	mitochondrial respiratory chain complex I	electron carrier activity|NADH dehydrogenase (ubiquinone) activity|protein binding				0					NADH(DB00157)	GCTATGTTGAGGTAGGAGCCT	0.502													118	379					0	0	0.01441	0	0		A	47604020	A	A	47604020	2	1	30	1	0	0	0	0	0	0	0	1	10312	1014	35	4		4	NDUFS3	11	47604020	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08		47604020	87402496	66	31360											
CNTF	1270	broad.mit.edu	37	chr11	58391516	58391516	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctcggccaggtgaagcatCagggcctgaacaagaacatc	12	6	11	12	1	1	3	1	2	0	1	4	3	2	3	3	3	3	1	3	3	4	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr11:58391516C>T	uc001nna.3	+	2	204	c.124C>T	c.(124-126)CAG>TAG	p.Q42*	ZFP91-CNTF_uc010rkm.1_RNA	NM_000614	NP_000605	P26441	CNTF_HUMAN	ciliary neurotrophic factor	42					ciliary neurotrophic factor-mediated signaling pathway|growth|negative regulation of neuron apoptosis|positive regulation of tyrosine phosphorylation of Stat3 protein		ciliary neurotrophic factor receptor binding|growth factor activity|interleukin-6 receptor binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				GGTGAAGCATCAGGGCCTGAA	0.507													34	102					0	0	0.004878	0	0		T	58391516	T	T	58391516	4	4	30	1	0	0	0	0	0	1	0	0	3640	827	29	4	130	4	CNTF	11	58391516	Nonsense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	10787496	58391516	76615000	67	31361											
MS4A8B	83661	broad.mit.edu	37	chr11	60476242	60476242	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccccgactattatccttaCgcctggggtgtggtgagtat	7	13	11	10	2	0	1	0	1	0	0	1	2	1	1	4	3	2	1	4	3	5	5			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr11:60476242C>T	uc001npv.2	+	5	725	c.522C>T	c.(520-522)TAC>TAT	p.Y174Y	MS4A8B_uc009yne.1_Silent_p.Y174Y	NM_031457	NP_113645	Q9BY19	M4A8B_HUMAN	membrane-spanning 4-domains, subfamily A, member	174	Extracellular (Potential).					integral to membrane	receptor activity				0						ATTATCCTTACGCCTGGGGTG	0.458													31	90					0	0	0.003271	0	0		T	60476242	T	T	60476242	2	4	30	1	0	0	0	0	0	0	0	1	9885	547	19	1		1	MS4A8B	11	60476242	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08	2084726	60476242	74530274	68	31362											
BIRC3	330	broad.mit.edu	37	chr11	102195339	102195339	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgtgaactgtaccgaatGtctacgtattccacttttcc	9	15	6	11	2	2	1	1	1	1	0	4	2	4	1	3	0	3	2	3	0	5	6			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr11:102195339G>C	uc001pgx.2	+	3	321	c.99G>C	c.(97-99)ATG>ATC	p.M33I		NM_182962	NP_892007	Q13489	BIRC3_HUMAN	baculoviral IAP repeat-containing protein 3	33	BIR 1.				anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|skin(1)	4	all_cancers(8;0.00044)|all_epithelial(12;0.00348)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0093)	Lung(13;0.109)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0146)		TGTACCGAATGTCTACGTATT	0.403			T	MALT1	MALT								62	150					0	0	0.01441	0	0		C	102195339	C	C	102195339	3	2	30	1	0	0	0	0	1	0	0	0	1437	1377	48	5	101	5	BIRC3	11	102195339	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	41719097	102195339	32811177	69	31363											
CACNA1C	775	broad.mit.edu	37	chr12	2719812	2719812	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcaactccacctacttcGagtacctgatgttcgtcctc	7	13	7	14	2	1	1	1	1	0	0	6	2	3	1	4	1	3	2	4	1	3	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr12:2719812G>T	uc009zdu.1	+	29	4037	c.3724G>T	c.(3724-3726)GAG>TAG	p.E1242*	CACNA1C_uc009zdv.1_Nonsense_Mutation_p.E1219*|CACNA1C_uc001qkb.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qkc.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qke.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qkf.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qjz.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qkd.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qkg.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc009zdw.1_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qkh.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qkl.2_Nonsense_Mutation_p.E1242*|CACNA1C_uc001qkn.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qko.2_Nonsense_Mutation_p.E1242*|CACNA1C_uc001qkp.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qkr.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qku.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qkq.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qks.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qkt.2_Nonsense_Mutation_p.E1222*|CACNA1C_uc001qka.1_Nonsense_Mutation_p.E757*|CACNA1C_uc001qki.1_Nonsense_Mutation_p.E958*|CACNA1C_uc001qkj.1_Nonsense_Mutation_p.E958*|CACNA1C_uc001qkk.1_Nonsense_Mutation_p.E958*|CACNA1C_uc001qkm.1_Nonsense_Mutation_p.E958*	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1242	Helical; Name=S1 of repeat IV; (Potential).|IV.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CACCTACTTCGAGTACCTGAT	0.587													17	38					4.14922e-12	4.7373e-12	0.004007	1	0		T	2719812	T	T	2719812	4	4	30	1	0	0	0	0	0	1	0	0	2543	1059	37	5	3946	5	CACNA1C	12	2719812	Nonsense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08		2719812	131132083	70	31364											
TEAD4	7004	broad.mit.edu	37	chr12	3131110	3131110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaatctatgacaaattccCggagaaaaagggtggactca	16	7	9	9	1	2	2	1	1	1	1	3	4	3	3	2	3	0	0	2	3	5	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr12:3131110C>T	uc010sej.1	+	10	1098	c.821C>T	c.(820-822)CCG>CTG	p.P274L	TEAD4_uc010sek.1_Missense_Mutation_p.P231L|TEAD4_uc001qln.2_Missense_Mutation_p.P146L	NM_003213	NP_003204	Q15561	TEAD4_HUMAN	TEA domain family member 4 isoform 1	275					hippo signaling cascade|muscle organ development|skeletal system development		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(42;0.211)		OV - Ovarian serous cystadenocarcinoma(31;0.000563)|COAD - Colon adenocarcinoma(12;0.0831)			GACAAATTCCCGGAGAAAAAG	0.517													50	135					0	0	0.01441	0	0		T	3131110	T	T	3131110	3	4	30	1	0	0	0	0	1	0	0	0	15766	652	23	1	854	1	TEAD4	12	3131110	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	411298	3131110	130720785	71	31365											
ALG10	84920	broad.mit.edu	37	chr12	34179654	34179654	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttcactgttatagttcCtcagaaactgctggaatttc	9	16	7	9	0	2	1	2	0	0	1	4	2	3	2	1	1	2	4	1	1	4	6			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr12:34179654C>T	uc001rlm.2	+	3	1545	c.1226C>T	c.(1225-1227)CCT>CTT	p.P409L		NM_032834	NP_116223	Q5BKT4	AG10A_HUMAN	asparagine-linked glycosylation 10 homolog	409	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			skin(1)	1	Lung NSC(5;3.82e-05)|Acute lymphoblastic leukemia(23;0.0142)|all_hematologic(23;0.0429)	Lung NSC(34;0.204)|all_lung(34;0.235)				GTTATAGTTCCTCAGAAACTG	0.358													15	155					0	0	0.004007	0	0		T	34179654	T	T	34179654	3	4	30	1	0	0	0	0	1	0	0	0	511	681	24	4	1236	4	ALG10	12	34179654	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	31048544	34179654	99672241	72	31366											
MLL2	8085	broad.mit.edu	37	chr12	49424062	49424062	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggcatctgctcttgacttaCccctcagtgccctttcacta	6	14	6	15	0	4	1	2	1	2	0	4	1	4	1	3	1	3	2	3	1	2	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr12:49424062C>T	uc001rta.3	-	42	13999	c.13999_splice	c.e42+1	p.D4667_splice		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2						chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TCTTGACTTACCCCTCAGTGC	0.547			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			4	7					0	0	0.000602	0	0		T	49424062	T	T	49424062	5	4	30	1	0	0	0	0	0	0	1	0	9639	521	18	4	2665	4	MLL2	12	49424062	Splice_Site	SNP	C	TCGA-BR-6455-01A-11D-1800-08	15244408	49424062	84427833	73	31367											
C12orf44	60673	broad.mit.edu	37	chr12	52470726	52470726	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctggccacggagcaggagCggcagatctgccgggagaag	9	3	17	12	3	1	2	0	0	1	2	1	5	1	4	3	5	3	2	3	5	1	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr12:52470726C>A	uc001rzu.3	+	4	884	c.409C>A	c.(409-411)CGG>AGG	p.R137R	C12orf44_uc009zmd.2_Silent_p.R137R|uc009zme.1_5'Flank	NM_021934	NP_068753	Q9BSB4	ATGA1_HUMAN	Atg13-interacting protein	137					autophagic vacuole assembly	pre-autophagosomal structure	identical protein binding|protein complex binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0978)		GGAGCAGGAGCGGCAGATCTG	0.567													3	53					0.00909568	0.0096976	0.009096	1	0		A	52470726	A	A	52470726	2	1	30	1	0	0	0	0	0	0	0	1	1693	759	27	5		5	C12orf44	12	52470726	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08	3046664	52470726	81381169	74	31368											
RBMS2	5939	broad.mit.edu	37	chr12	56975886	56975886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacccccaacaggatgcttGctcagtctgcactctcccca	8	9	6	18	0	4	0	2	0	2	0	5	1	4	1	4	1	4	3	4	1	1	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr12:56975886G>A	uc001sln.2	+	9	1022	c.823G>A	c.(823-825)GCT>ACT	p.A275T	RBMS2_uc010sqp.1_Missense_Mutation_p.A130T|RBMS2_uc010sqq.1_Missense_Mutation_p.A150T|RBMS2_uc009zou.2_Missense_Mutation_p.A32T	NM_002898	NP_002889	Q15434	RBMS2_HUMAN	RNA binding motif, single stranded interacting	275					RNA processing	nucleus	nucleotide binding|RNA binding				0						CAGGATGCTTGCTCAGTCTGC	0.502													58	108					0	0	0.01441	0	0		A	56975886	A	A	56975886	3	1	30	1	0	0	0	0	1	0	0	0	13174	1319	46	2	857	2	RBMS2	12	56975886	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	4505160	56975886	76876009	75	31369											
ALX1	8092	broad.mit.edu	37	chr12	85677378	85677378	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatcactaaagtagaaggAcagccccttcacaccgaact	14	6	9	12	1	2	1	2	0	0	1	2	4	2	3	3	2	2	1	3	2	5	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr12:85677378A>G	uc001tae.3	+	2	259	c.255A>G	c.(253-255)GGA>GGG	p.G85G		NM_006982	NP_008913	Q15699	ALX1_HUMAN	cartilage paired-class homeoprotein 1	85					brain development|cartilage condensation|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(134;0.134)		AAGTAGAAGGACAGCCCCTTC	0.438													11	74					0	0	0.013537	0	0		G	85677378	G	G	85677378	2	3	30	1	0	0	0	0	0	0	0	1	556	262	10	3		3	ALX1	12	85677378	Silent	SNP	A	TCGA-BR-6455-01A-11D-1800-08	28701492	85677378	48174517	76	31370											
CCDC122	160857	broad.mit.edu	37	chr13	44433927	44433927	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttcagtcataaatgaccAtttgctctctacttccccca	10	13	5	13	0	3	1	2	1	1	0	5	2	4	1	3	0	2	2	3	0	3	5			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr13:44433927A>G	uc010acf.2	-	5	695	c.436T>C	c.(436-438)TGG>CGG	p.W146R	CCDC122_uc010tfn.1_Missense_Mutation_p.W146R	NM_144974	NP_659411	Q5T0U0	CC122_HUMAN	coiled-coil domain containing 122	146											0		Lung NSC(96;7.5e-06)|Breast(139;0.00765)|Hepatocellular(98;0.00826)|Prostate(109;0.0143)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000767)|BRCA - Breast invasive adenocarcinoma(63;0.128)		ATAAATGACCATTTGCTCTCT	0.318													41	94					0	0	0.01441	0	0		G	44433927	G	G	44433927	3	3	30	1	0	0	0	0	1	0	0	0	2761	217	8	3	397	3	CCDC122	13	44433927	Missense_Mutation	SNP	A	TCGA-BR-6455-01A-11D-1800-08		44433927	70735951	77	31371											
NID2	22795	broad.mit.edu	37	chr14	52508986	52508986	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcccacgatatacgcatgCaggtccacatcagtgaagtg	11	9	10	11	2	1	1	1	1	0	0	2	2	2	1	2	1	3	2	2	1	3	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr14:52508986C>T	uc001wzo.2	-	7	1896	c.1662G>A	c.(1660-1662)CTG>CTA	p.L554L	NID2_uc010tqs.1_Silent_p.L554L|NID2_uc010tqt.1_Silent_p.L554L|NID2_uc001wzp.2_Silent_p.L554L	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	554	Nidogen G2 beta-barrel.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					TATACGCATGCAGGTCCACAT	0.587													56	138					0	0	0.01441	0	0		T	52508986	T	T	52508986	2	4	30	1	0	0	0	0	0	0	0	1	10434	697	25	2		2	NID2	14	52508986	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08		52508986	54840554	78	31372											
MTHFD1	4522	broad.mit.edu	37	chr14	64894054	64894054	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcttttgctttcgtcttgaaGaataactccaacacccctgg	9	14	6	12	1	2	2	0	1	2	1	4	2	3	2	3	1	3	1	3	1	4	5			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr14:64894054G>C	uc001xhb.2	+	12	1515	c.1128_splice	c.e12-1	p.G376_splice	MTHFD1_uc010aqe.2_Splice_Site_p.G412_splice|MTHFD1_uc010aqf.2_Splice_Site_p.G432_splice	NM_005956	NP_005947	P11586	C1TC_HUMAN	methylenetetrahydrofolate dehydrogenase 1						folic acid metabolic process|folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process	cytosol|mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|methylenetetrahydrofolate dehydrogenase|protein binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(108;8.7e-12)|all cancers(60;3.29e-11)|BRCA - Breast invasive adenocarcinoma(234;0.0488)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	TCGTCTTGAAGAATAACTCCA	0.423													27	44					0	0	0.003954	0	0		C	64894054	C	C	64894054	5	2	30	1	0	0	0	0	0	0	1	0	9945	956	33	5	1173	5	MTHFD1	14	64894054	Splice_Site	SNP	G	TCGA-BR-6455-01A-11D-1800-08	12385068	64894054	42455486	79	31373											
CYP19A1	1588	broad.mit.edu	37	chr15	51503068	51503068	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttccagcatgtttttagtCtcatctgggtgcaaggacaa	10	14	9	8	0	2	0	1	0	2	0	4	1	3	1	1	2	2	3	1	2	3	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr15:51503068C>T	uc001zyz.3	-	11	1700	c.1449G>A	c.(1447-1449)GAG>GAA	p.E483E	CYP19A1_uc001zza.3_Silent_p.E483E	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	483					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	TGTTTTTAGTCTCATCTGGGT	0.463													77	50					0	0	0.01441	0	0		T	51503068	T	T	51503068	2	4	30	1	0	0	0	0	0	0	0	1	4151	912	32	4		4	CYP19A1	15	51503068	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08		51503068	51028324	80	31374											
ISLR	3671	broad.mit.edu	37	chr15	74467619	74467619	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccttcatcccccgcgaCgccttccgcagcctccgtgc	4	8	8	21	5	1	1	1	1	0	0	4	2	4	1	7	0	2	1	7	0	0	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr15:74467619C>T	uc002axg.1	+	2	702	c.420C>T	c.(418-420)GAC>GAT	p.D140D	ISLR_uc002axh.1_Silent_p.D140D	NM_005545	NP_005536	O14498	ISLR_HUMAN	immunoglobulin superfamily containing	140	LRR 4.				cell adhesion	extracellular region				large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						TCCCCCGCGACGCCTTCCGCA	0.612													4	37					0	0	0.000602	0	0		T	74467619	T	T	74467619	2	4	30	1	0	0	0	0	0	0	0	1	7874	535	19	1		1	ISLR	15	74467619	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08	22964551	74467619	28063773	81	31375											
AXIN1	8312	broad.mit.edu	37	chr16	339583	339583	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggctgggcactcccgccGcccaccttcctctgcgatct	4	8	9	20	4	2	0	0	0	2	0	4	1	4	0	5	2	1	2	5	2	0	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr16:339583G>A	uc002cgp.1	-	10	2496	c.2319C>T	c.(2317-2319)GGC>GGT	p.G773G	AXIN1_uc002cgq.1_Silent_p.G737G	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	773	Interaction with PPP2CA.				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				CACTCCCGCCGCCCACCTTCC	0.647													9	21					0	0	0.006214	0	0		A	339583	A	A	339583	2	1	30	1	0	0	0	0	0	0	0	1	1237	1074	38	1		1	AXIN1	16	339583	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08		339583	90015170	82	31376											
C16orf73	254528	broad.mit.edu	37	chr16	1891975	1891975	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacatcaactattgtacttaCtaaaaacagaaagaagtatt	19	11	5	6	0	1	2	1	0	0	2	1	3	1	2	0	0	4	2	0	0	10	7			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr16:1891975C>T	uc002cne.2	-	11	999	c.881_splice	c.e11-1	p.L294_splice	C16orf73_uc010uvq.1_Splice_Site_p.L294_splice|C16orf73_uc010uvr.1_Splice_Site_p.L87_splice	NM_152764	NP_689977	Q8N635	CP073_HUMAN	hypothetical protein LOC254528 isoform 2						meiosis	cytoplasm					0						ATTGTACTTACTAAAAACAGA	0.328													25	63					0	0	0.003954	0	0		T	1891975	T	T	1891975	5	4	30	1	0	0	0	0	0	0	1	0	1835	579	20	4	551	4	C16orf73	16	1891975	Splice_Site	SNP	C	TCGA-BR-6455-01A-11D-1800-08	1552392	1891975	88462778	83	31377											
ITPRIPL2	162073	broad.mit.edu	37	chr16	19126204	19126204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgcgcccgggggtcccccGgtctcattcctgggggagcg	2	6	17	16	5	1	0	1	0	1	0	4	1	3	1	5	5	1	0	5	5	0	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr16:19126204G>A	uc002dfu.3	+	1	951	c.421G>A	c.(421-423)GGT>AGT	p.G141S	ITPRIPL2_uc002dft.2_5'UTR	NM_001034841	NP_001030013	Q3MIP1	IPIL2_HUMAN	inositol 1,4,5-triphosphate receptor interacting	141	Cytoplasmic (Potential).					integral to membrane				skin(2)	2						GGGGTCCCCCGGTCTCATTCC	0.692													4	11					0	0	0.009096	0	0		A	19126204	A	A	19126204	3	1	30	1	0	0	0	0	1	0	0	0	7941	1116	39	1	423	1	ITPRIPL2	16	19126204	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	17234229	19126204	71228549	84	31378											
TUFM	7284	broad.mit.edu	37	chr16	28855126	28855126	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aacatgacaggcatgaagtgGgacacaaagggcttgtggcg	13	6	15	7	1	0	2	0	2	0	0	0	3	0	3	0	4	1	2	0	4	3	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr16:28855126G>A	uc002drh.2	-	9	1264	c.1125C>T	c.(1123-1125)TCC>TCT	p.S375S	uc010vct.1_Intron|SH2B1_uc002dri.2_5'Flank	NM_003321	NP_003312	P49411	EFTU_HUMAN	Tu translation elongation factor, mitochondrial	372						mitochondrial nucleoid	GTP binding|GTPase activity|protein binding|translation elongation factor activity			ovary(1)	1						GCATGAAGTGGGACACAAAGG	0.587													14	37					0	0	0.004007	0	0		A	28855126	A	A	28855126	2	1	30	1	0	0	0	0	0	0	0	1	16797	1219	43	4		4	TUFM	16	28855126	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	9728922	28855126	61499627	85	31379											
HYDIN	54768	broad.mit.edu	37	chr16	70908761	70908761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgtgatgtagatatacGcggtggtgggcctccctttc	5	13	12	11	2	1	2	0	1	1	1	3	2	2	2	3	3	1	1	3	3	3	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr16:70908761G>A	uc002ezr.2	-	63	10744	c.10616C>T	c.(10615-10617)GCG>GTG	p.A3539V		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3540										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GTAGATATACGCGGTGGTGGG	0.507													17	27					0	0	0.00333	0	0		A	70908761	A	A	70908761	3	1	30	1	0	0	0	0	1	0	0	0	7483	1087	38	1	4842	1	HYDIN	16	70908761	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	42053635	70908761	19445992	86	31380											
FA2H	79152	broad.mit.edu	37	chr16	74750315	74750315	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaggtaggagcccttgtgCggcgagccaaagtgcaggta	10	7	15	9	2	0	0	0	0	0	0	0	2	0	1	2	4	5	3	2	4	4	4	rs144071567	byFrequency	TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr16:74750315C>A	uc002fde.1	-	6	1037	c.969G>T	c.(967-969)CCG>CCT	p.P323P	FA2H_uc002fdd.1_Silent_p.P96P|FA2H_uc010vmy.1_RNA	NM_024306	NP_077282	Q7L5A8	FA2H_HUMAN	fatty acid 2-hydroxylase	323					cell death|electron transport chain|fatty acid biosynthetic process|sphingolipid metabolic process|transport	endoplasmic reticulum membrane|integral to membrane|microsome	heme binding|oxidoreductase activity				0						AGCCCTTGTGCGGCGAGCCAA	0.607													4	42					0.00909568	0.0096976	0.009096	1	0		A	74750315	A	A	74750315	2	1	30	1	0	0	0	0	0	0	0	1	5363	755	27	5		5	FA2H	16	74750315	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08	3841554	74750315	15604438	87	31381											
OVCA2	124641	broad.mit.edu	37	chr17	1945948	1945948	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctggtggttttcagagcaGgaggccgacgttttctccgc	5	11	15	10	3	2	1	1	0	1	1	3	3	2	2	2	5	1	4	2	5	0	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr17:1945948G>A	uc002ftx.2	+	2	299	c.234G>A	c.(232-234)CAG>CAA	p.Q78Q	DPH1_uc002ftr.1_Intron|DPH1_uc002fts.2_3'UTR|DPH1_uc002ftt.2_3'UTR|DPH1_uc010cjx.2_3'UTR|DPH1_uc010vqs.1_3'UTR|DPH1_uc002ftu.2_3'UTR|DPH1_uc002ftv.2_3'UTR|DPH1_uc002ftw.2_3'UTR	NM_080822	NP_543012	Q8WZ82	OVCA2_HUMAN	candidate tumor suppressor in ovarian cancer 2	78					response to retinoic acid	cytoplasm	hydrolase activity				0						TTTCAGAGCAGGAGGCCGACG	0.617											OREG0024078	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	54					0	0	0.00333	0	0		A	1945948	A	A	1945948	2	1	30	1	0	0	0	0	0	0	0	1	11341	991	35	4		4	OVCA2	17	1945948	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08		1945948	79249262	88	31382											
ZMYND15	84225	broad.mit.edu	37	chr17	4646694	4646694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatgctgattccaggccCgggcttctccagacaccccc	7	7	9	18	1	1	2	0	1	1	1	3	2	2	2	5	2	2	3	5	2	0	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr17:4646694C>T	uc002fyt.2	+	6	1280	c.1241C>T	c.(1240-1242)CCG>CTG	p.P414L	ZMYND15_uc002fyv.2_Missense_Mutation_p.P414L|ZMYND15_uc002fyu.2_Missense_Mutation_p.P414L	NM_032265	NP_115641	Q9H091	ZMY15_HUMAN	zinc finger, MYND-type containing 15 isoform 2	414							zinc ion binding				0						ATTCCAGGCCCGGGCTTCTCC	0.632													53	149					0	0	0.01441	0	0		T	4646694	T	T	4646694	3	4	30	1	0	0	0	0	1	0	0	0	17733	652	23	1	1259	1	ZMYND15	17	4646694	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	2700746	4646694	76548516	89	31383											
MYH4	4622	broad.mit.edu	37	chr17	10362660	10362660	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgtactcttcctgctccaGcacgaacatgtggtggttga	7	13	10	11	1	1	1	0	1	1	0	3	2	3	1	2	2	4	4	2	2	2	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr17:10362660G>A	uc002gmn.2	-	15	1606	c.1495C>T	c.(1495-1497)CTG>TTG	p.L499L	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	499	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TCCTGCTCCAGCACGAACATG	0.478													45	92					0	0	0.011902	0	0		A	10362660	A	A	10362660	2	1	30	1	0	0	0	0	0	0	0	1	10055	962	34	2		2	MYH4	17	10362660	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	5715966	10362660	70832550	90	31384											
FBXW10	10517	broad.mit.edu	37	chr17	18675802	18675802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtatgccgtggaaaaaaCgaaacaaaagaagaataagg	21	4	11	5	2	0	2	0	0	0	2	0	4	0	3	1	2	3	2	1	2	10	2	rs150329747	byFrequency	TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr17:18675802C>T	uc002guk.2	+	12	2316	c.2084C>T	c.(2083-2085)ACG>ATG	p.T695M	FBXW10_uc002guj.2_Missense_Mutation_p.T695M|FBXW10_uc002gul.2_Missense_Mutation_p.T724M|FBXW10_uc010cqh.1_Missense_Mutation_p.T642M	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	695	Potential.									ovary(1)	1						GTggaaaaaacgaaacaaaag	0.328													83	166					0	0	0.01441	0	0		T	18675802	T	T	18675802	3	4	30	1	0	0	0	0	1	0	0	0	5777	536	19	1	2130	1	FBXW10	17	18675802	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	8313142	18675802	62519408	91	31385											
SLC4A1	6521	broad.mit.edu	37	chr17	42338119	42338119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttgcacccagcgcgccGcctccatccatctcagctcc	6	7	7	21	3	1	0	1	0	1	0	5	0	4	0	7	0	3	3	7	0	0	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr17:42338119G>A	uc002igf.3	-	5	382	c.233C>T	c.(232-234)GCG>GTG	p.A78V	SLC4A1_uc002igg.3_Missense_Mutation_p.A78V	NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	78	Cytoplasmic.				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		CCAGCGCGCCGCCTCCATCCA	0.622													22	33					0	0	0.00278	0	0		A	42338119	A	A	42338119	3	1	30	1	0	0	0	0	1	0	0	0	14675	1087	38	1	2566	1	SLC4A1	17	42338119	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	23662317	42338119	38857091	92	31386											
DGKE	8526	broad.mit.edu	37	chr17	54912541	54912541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgccccaccactggatcCggggcaacgtgcccctgtgc	6	6	11	18	2	0	0	0	0	0	0	1	1	1	1	7	3	4	1	7	3	1	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr17:54912541C>T	uc002iur.2	+	2	565	c.385C>T	c.(385-387)CGG>TGG	p.R129W	DGKE_uc002ius.1_Missense_Mutation_p.R129W|C17orf67_uc002iuq.2_5'Flank	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	129	Phorbol-ester/DAG-type 2.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|phospholipid biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding|protein binding			breast(2)	2	Breast(9;3.59e-07)					CCACTGGATCCGGGGCAACGT	0.567													26	51					0	0	0.00333	0	0		T	54912541	T	T	54912541	3	4	30	1	0	0	0	0	1	0	0	0	4474	643	23	1	387	1	DGKE	17	54912541	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	12574422	54912541	26282669	93	31387											
BAHCC1	57597	broad.mit.edu	37	chr17	79428363	79428363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaacaagacctgcaaggCgttgctcatgggggacaagg	13	5	14	9	1	1	2	1	0	0	2	1	3	1	3	1	4	3	3	1	4	5	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr17:79428363C>T	uc002kaf.2	+	24	6674	c.6674C>T	c.(6673-6675)GCG>GTG	p.A2225V	BAHCC1_uc002kae.2_Missense_Mutation_p.A1455V	NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	2225							DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			ACCTGCAAGGCGTTGCTCATG	0.677													5	12					0	0	0.000602	0	0		T	79428363	T	T	79428363	3	4	30	1	0	0	0	0	1	0	0	0	1297	768	27	1	6607	1	BAHCC1	17	79428363	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	24515822	79428363	1766847	94	31388											
EPB41L3	23136	broad.mit.edu	37	chr18	5398077	5398077	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaattctgttggttttcgCgcagactctaataaactgaa	12	14	8	7	2	2	3	0	2	2	1	3	3	2	3	0	1	1	3	0	1	5	6			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr18:5398077C>T	uc002kmt.1	-	17	2501	c.2415G>A	c.(2413-2415)GCG>GCA	p.A805A	EPB41L3_uc010wzh.1_Silent_p.A636A|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Silent_p.A110A|EPB41L3_uc010wzf.1_Silent_p.A102A|EPB41L3_uc010wzg.1_Silent_p.A77A|EPB41L3_uc010dkr.2_Silent_p.A197A	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	805	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TTGGTTTTCGCGCAGACTCTA	0.448													108	203					0	0	0.01441	0	0		T	5398077	T	T	5398077	2	4	30	1	0	0	0	0	0	0	0	1	5162	755	27	1		1	EPB41L3	18	5398077	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08		5398077	72679171	95	31389											
PIGN	23556	broad.mit.edu	37	chr18	59777079	59777079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacttactctcttagaaccGcataccatattggcagtggc	10	13	7	11	1	1	1	0	0	1	1	2	1	1	1	2	2	4	2	2	2	6	6			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr18:59777079G>A	uc002lii.3	-	18	2010	c.1562C>T	c.(1561-1563)GCG>GTG	p.A521V	PIGN_uc002lij.3_Missense_Mutation_p.A521V	NM_176787	NP_789744	O95427	PIGN_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	521	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphotransferase activity, for other substituted phosphate groups			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5		Colorectal(73;0.187)				TCTTAGAACCGCATACCATAT	0.358													5	221					0	0	0.000602	0	0		A	59777079	A	A	59777079	3	1	30	1	0	0	0	0	1	0	0	0	11912	1087	38	1	1293	1	PIGN	18	59777079	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	54379002	59777079	18300169	96	31390											
CYP4F2	8529	broad.mit.edu	37	chr19	15989736	15989736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccatcgcgaacgtctgccCgatgcagttcctaggggagg	7	7	14	13	5	1	0	0	0	1	0	3	3	2	1	3	3	3	2	3	3	2	2	rs146148233		TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr19:15989736C>T	uc002nbs.1	-	13	1458	c.1408G>A	c.(1408-1410)GGG>AGG	p.G470R	CYP4F2_uc010xot.1_Missense_Mutation_p.G321R	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	470					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						AACGTCTGCCCGATGCAGTTC	0.672													3	44					0	0	0.004672	0	0		T	15989736	T	T	15989736	3	4	30	1	0	0	0	0	1	0	0	0	4191	652	23	1	158	1	CYP4F2	19	15989736	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08		15989736	43139247	97	31391											
LSM4	25804	broad.mit.edu	37	chr19	18420552	18420552	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcaggcctccgcggccGcggcccttggccaccacctc	3	6	12	20	4	0	0	0	0	0	0	2	0	1	0	7	4	2	2	7	4	0	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr19:18420552G>A	uc002niq.2	-	4	435	c.264C>T	c.(262-264)CGC>CGT	p.R88R		NM_012321	NP_036453	Q9Y4Z0	LSM4_HUMAN	U6 snRNA-associated Sm-like protein 4	88					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|mRNA processing|RNA splicing	cytosol|U6 snRNP	protein binding|RNA binding				0						CTCCGCGGCCGCGGCCCTTGG	0.682													17	25					0	0	0.004007	0	0		A	18420552	A	A	18420552	2	1	30	1	0	0	0	0	0	0	0	1	9076	1074	38	1		1	LSM4	19	18420552	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	2430816	18420552	40708431	98	31392											
MED29	55588	broad.mit.edu	37	chr19	39882040	39882040	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagacgcagtcgtaacgcacTtccggcggtctacgcgagga	9	6	14	12	7	1	1	0	0	1	1	3	4	2	2	1	3	2	3	1	3	2	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr19:39882040T>C	uc002olf.2	+	1	78	c.41T>C	c.(40-42)CTT>CCT	p.L14P	PAF1_uc002old.2_5'Flank|PAF1_uc002ole.1_5'Flank|PAF1_uc010xuv.1_5'Flank|MED29_uc010xuw.1_Missense_Mutation_p.L14P|MED29_uc010xux.1_RNA	NM_017592	NP_060062	Q9NX70	MED29_HUMAN	mediator complex subunit 29	161					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mediator complex	protein binding			ovary(1)|pancreas(1)	2	all_cancers(60;7.82e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.88e-06)|Ovarian(47;0.0512)		Epithelial(26;1.04e-26)|all cancers(26;7.68e-24)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			CGTAACGCACTTCCGGCGGTC	0.587													6	16					0	0	0.001984	0	0		C	39882040	C	C	39882040	3	2	30	1	0	0	0	0	1	0	0	0	9465	1609	56	3	43	3	MED29	19	39882040	Missense_Mutation	SNP	T	TCGA-BR-6455-01A-11D-1800-08	21461488	39882040	19246943	99	31393											
PHLDB3	653583	broad.mit.edu	37	chr19	43990419	43990419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgggggtgggactgaccGtgatggcaggaacagcaggg	8	4	22	7	2	0	2	0	2	0	0	0	4	0	4	1	7	2	2	1	7	1	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr19:43990419G>A	uc002own.3	-	13	1743	c.1484C>T	c.(1483-1485)ACG>ATG	p.T495M	PHLDB3_uc010eit.2_Missense_Mutation_p.T199M	NM_198850	NP_942147	Q6NSJ2	PHLB3_HUMAN	pleckstrin homology-like domain, family B,	495											0		Prostate(69;0.0153)				GGGACTGACCGTGATGGCAGG	0.567													4	21					0	0	0.009096	0	0		A	43990419	A	A	43990419	3	1	30	1	0	0	0	0	1	0	0	0	11872	1159	40	1	454	1	PHLDB3	19	43990419	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	4108379	43990419	15138564	100	31394											
LIN7B	64130	broad.mit.edu	37	chr19	49619588	49619588	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagtggagctacccaagacGgatgagggcctaggcttcaa	11	7	14	9	1	1	2	1	1	0	1	1	4	1	4	2	4	2	3	2	4	5	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr19:49619588G>A	uc002pmp.2	+	4	341	c.297G>A	c.(295-297)ACG>ACA	p.T99T		NM_022165	NP_071448	Q9HAP6	LIN7B_HUMAN	lin-7 homolog B	99	PDZ.				exocytosis|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein domain specific binding				0		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;5e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000191)|GBM - Glioblastoma multiforme(486;0.00449)|Epithelial(262;0.01)		TACCCAAGACGGATGAGGGCC	0.607													16	35					0	0	0.006122	0	0		A	49619588	A	A	49619588	2	1	30	1	0	0	0	0	0	0	0	1	8828	1103	39	1		1	LIN7B	19	49619588	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	5629169	49619588	9509395	101	31395											
ZNF610	162963	broad.mit.edu	37	chr19	52857558	52857558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gttgaagcaaaggagagagcCcttgattctgcaaagtcaag	14	8	12	7	0	2	3	1	2	1	1	2	5	2	4	1	1	3	3	1	1	4	3			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr19:52857558C>T	uc002pyx.3	+	5	651	c.245C>T	c.(244-246)CCC>CTC	p.P82L	ZNF610_uc002pyy.3_Missense_Mutation_p.P82L|ZNF610_uc002pyz.3_Intron|ZNF610_uc002pza.2_Missense_Mutation_p.P82L	NM_001161426	NP_001154898	Q8N9Z0	ZN610_HUMAN	zinc finger protein 610 isoform a	82	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3				OV - Ovarian serous cystadenocarcinoma(262;0.00396)|GBM - Glioblastoma multiforme(134;0.00434)		AGGAGAGAGCCCTTGATTCTG	0.398													19	52					0	0	0.010504	0	0		T	52857558	T	T	52857558	3	4	30	1	0	0	0	0	1	0	0	0	18061	623	22	4	255	4	ZNF610	19	52857558	Missense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	3237970	52857558	6271425	102	31396											
PPP1R12C	54776	broad.mit.edu	37	chr19	55606106	55606106	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgctggggattcaggctcCggaatcctggagggaggcga	7	8	17	9	3	1	0	1	0	0	0	4	5	3	4	2	7	0	2	2	7	1	2			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr19:55606106C>T	uc002qix.2	-	12	1531	c.1515G>A	c.(1513-1515)CCG>CCA	p.P505P	PPP1R12C_uc010yfs.1_Silent_p.P431P|PPP1R12C_uc002qiy.2_Silent_p.P504P	NM_017607	NP_060077	Q9BZL4	PP12C_HUMAN	protein phosphatase 1, regulatory subunit 12C	505	Pro-rich.					cytoplasm				ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		ATTCAGGCTCCGGAATCCTGG	0.552													10	28					0	0	0.008291	0	0		T	55606106	T	T	55606106	2	4	30	1	0	0	0	0	0	0	0	1	12378	639	23	1		1	PPP1R12C	19	55606106	Silent	SNP	C	TCGA-BR-6455-01A-11D-1800-08	2748548	55606106	3522877	103	31397											
BPI	671	broad.mit.edu	37	chr20	36932707	36932707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgccgtgacagcggccGtcaaccctggcgtcgtggtc	5	6	14	16	6	1	1	1	1	0	0	3	1	1	1	4	3	2	1	4	3	1	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr20:36932707G>A	uc002xib.2	+	1	156	c.94G>A	c.(94-96)GTC>ATC	p.V32I		NM_001725	NP_001716	P17213	BPI_HUMAN	bactericidal/permeability-increasing protein	32					defense response to bacterium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of macrophage activation|negative regulation of tumor necrosis factor production	extracellular region|integral to plasma membrane	lipid binding|lipopolysaccharide binding			ovary(4)	4		Myeloproliferative disorder(115;0.00878)				GACAGCGGCCGTCAACCCTGG	0.607													23	68					0	0	0.014323	0	0		A	36932707	A	A	36932707	3	1	30	1	0	0	0	0	1	0	0	0	1493	1145	40	1	96	1	BPI	20	36932707	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08		36932707	26092813	104	31398											
ARFGEF2	10564	broad.mit.edu	37	chr20	47589805	47589805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagaagtggacatgagctggGaatgacacctctgcaggtaa	14	7	13	7	0	1	3	0	2	1	1	1	5	1	5	1	3	2	3	1	3	4	1			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr20:47589805G>A	uc002xtx.3	+	12	1801	c.1649G>A	c.(1648-1650)GGA>GAA	p.G550E		NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	550					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			CATGAGCTGGGAATGACACCT	0.289													11	38					0	0	0.010729	0	0		A	47589805	A	A	47589805	3	1	30	1	0	0	0	0	1	0	0	0	853	1174	41	4	1695	4	ARFGEF2	20	47589805	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	10657098	47589805	15435715	105	31399											
CLDN14	23562	broad.mit.edu	37	chr21	37833744	37833744	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaggcaggagatgaccaTgagggcgcgggcagcctgga	10	3	19	9	2	0	3	0	2	0	1	0	6	0	4	2	5	2	3	2	5	0	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr21:37833744T>C	uc002yvk.1	-	2	392	c.250A>G	c.(250-252)ATG>GTG	p.M84V	CLDN14_uc002yvn.1_Missense_Mutation_p.M84V|CLDN14_uc002yvo.1_Missense_Mutation_p.M84V|CLDN14_uc002yvl.1_Missense_Mutation_p.M84V|CLDN14_uc002yvm.1_Missense_Mutation_p.M84V	NM_012130	NP_036262	O95500	CLD14_HUMAN	claudin 14	84	Helical; (Potential).				calcium-independent cell-cell adhesion|protein complex assembly|tight junction assembly	endoplasmic reticulum|integral to membrane|tight junction	identical protein binding|structural molecule activity				0						GAGATGACCATGAGGGCGCGG	0.652													15	37					0	0	0.003163	0	0		C	37833744	C	C	37833744	3	2	30	1	0	0	0	0	1	0	0	0	3478	1464	51	3	473	3	CLDN14	21	37833744	Missense_Mutation	SNP	T	TCGA-BR-6455-01A-11D-1800-08		37833744	10296151	106	31400											
LSS	4047	broad.mit.edu	37	chr21	47636354	47636354	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggcactcagccgaacggcGtagcagtagctcatgggcag	9	5	15	12	4	2	0	2	0	0	0	2	1	2	0	1	3	4	6	1	3	3	2	rs138974013		TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr21:47636354G>A	uc002zij.2	-	7	811	c.732C>T	c.(730-732)TAC>TAT	p.Y244Y	LSS_uc011afv.1_Silent_p.Y233Y|LSS_uc002zil.2_Silent_p.Y244Y|LSS_uc002zik.2_Silent_p.Y164Y	NM_001001438	NP_001001438	P48449	ERG7_HUMAN	lanosterol synthase isoform 1	244					cholesterol biosynthetic process	endoplasmic reticulum membrane	lanosterol synthase activity				0	Breast(49;0.214)					GCCGAACGGCGTAGCAGTAGC	0.652													14	46					0	0	0.003163	0	0		A	47636354	A	A	47636354	2	1	30	1	0	0	0	0	0	0	0	1	9083	1140	40	1		1	LSS	21	47636354	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	9802610	47636354	493541	107	31401											
POLR2F	5435	broad.mit.edu	37	chr22	38352790	38352790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgtacagttttgatggcGacgactttgatgatgtggag	8	14	13	6	2	0	3	0	3	0	0	1	6	1	4	1	2	1	2	1	2	1	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr22:38352790G>A	uc003aul.2	+	2	152	c.31G>A	c.(31-33)GAC>AAC	p.D11N	POLR2F_uc010gxi.2_5'UTR|POLR2F_uc003aum.2_RNA	NM_021974	NP_068809	P61218	RPAB2_HUMAN	DNA directed RNA polymerase II polypeptide F	11					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase II promoter|transcription elongation from RNA polymerase III promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex|nucleolus	DNA binding|DNA-directed RNA polymerase activity			breast(1)	1	Melanoma(58;0.045)					TTTTGATGGCGACGACTTTGA	0.398													27	69					0	0	0.007291	0	0		A	38352790	A	A	38352790	3	1	30	1	0	0	0	0	1	0	0	0	12238	1058	37	1	37	1	POLR2F	22	38352790	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08		38352790	12951776	108	31402											
C22orf40	150383	broad.mit.edu	37	chr22	46640993	46640993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagccccagttgcactcacGtccgagaaccgggctggctg	7	7	12	15	3	1	1	1	0	0	1	2	2	2	1	4	2	3	4	4	2	2	2	rs151250954		TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr22:46640993G>A	uc003bhe.2	-	4	409	c.368C>T	c.(367-369)ACG>ATG	p.T123M	C22orf40_uc003bhc.2_3'UTR|C22orf40_uc003bhd.2_Missense_Mutation_p.T118M|C22orf40_uc003bhf.2_RNA	NM_207327	NP_997210	Q6NVV7	CV040_HUMAN	hypothetical protein LOC150383	123											0						TTGCACTCACGTCCGAGAACC	0.612													25	74					0	0	0.004656	0	0		A	46640993	A	A	46640993	3	1	30	1	0	0	0	0	1	0	0	0	2151	1145	40	1	7	1	C22orf40	22	46640993	Missense_Mutation	SNP	G	TCGA-BR-6455-01A-11D-1800-08	8288203	46640993	4663573	109	31403											
TUBGCP6	85378	broad.mit.edu	37	chr22	50682244	50682244	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggctgtgcacaagggccccGaagagcgagacccgggtgtc	8	4	16	13	4	0	2	0	0	0	2	1	4	0	2	3	3	2	2	3	3	2	0			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chr22:50682244G>A	uc003bkb.1	-	1	1157	c.645C>T	c.(643-645)TTC>TTT	p.F215F	TUBGCP6_uc010har.1_Silent_p.F215F|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hau.1_Silent_p.F215F	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	215					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CAAGGGCCCCGAAGAGCGAGA	0.627													12	28					0	0	0.010729	0	0		A	50682244	A	A	50682244	2	1	30	1	0	0	0	0	0	0	0	1	16796	1049	37	1		1	TUBGCP6	22	50682244	Silent	SNP	G	TCGA-BR-6455-01A-11D-1800-08	4041251	50682244	622322	110	31404											
CNKSR2	22866	broad.mit.edu	37	chrX	21627677	21627678	+	In_Frame_Ins	INS	-	GAG	GAG																															aacccccagaggtggaggaaINSgaggaggaggaggaggagga																										TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chrX:21627677_21627678insGAG	uc004czx.1	+	20	2670_2671	c.2634_2635insGAG	c.(2632-2637)insGAG	p.886_887insE	CNKSR2_uc004czw.2_In_Frame_Ins_p.886_887insE|CNKSR2_uc011mjn.1_In_Frame_Ins_p.837_838insE|CNKSR2_uc011mjo.1_In_Frame_Ins_p.856_857insE|CNKSR2_uc004czy.2_In_Frame_Ins_p.478_479insE	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	886_887	Potential.|Poly-Glu.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						aggtggaggaagaggaggagga	0.376													14	18	---	---	---	---						.	GAG	21627678	GAG	GAG	21627677	7	5	30	1	0	1	1	0	0	0	0	0	3610	69	3	0	2712	0	CNKSR2	23	21627677	In_Frame_Ins	INS	-	TCGA-BR-6455-01A-11D-1800-08		21627677	133642883	111	31405											
BCOR	54880	broad.mit.edu	37	chrX	39931763	39931763	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcatttgattcagcctCatcagctccatctttggtat	8	15	6	12	0	5	1	4	1	1	0	6	1	6	1	3	1	2	2	3	1	1	4			TCGA-BR-6455-01A-11D-1800-08	TCGA-BR-6455-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bf3beb5-f999-4822-a0af-ec36f9510d58	db67ce76-e686-4298-a5c1-59638619e250	g.chrX:39931763C>A	uc004den.3	-	4	3128	c.2836G>T	c.(2836-2838)GAG>TAG	p.E946*	BCOR_uc004dep.3_Nonsense_Mutation_p.E946*|BCOR_uc004deo.3_Nonsense_Mutation_p.E946*|BCOR_uc004dem.3_Nonsense_Mutation_p.E946*|BCOR_uc004deq.3_Nonsense_Mutation_p.E946*	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	946					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						GATTCAGCCTCATCAGCTCCA	0.488													9	11					1.12685e-05	1.22852e-05	0.004482	1	0		A	39931763	A	A	39931763	4	1	30	1	0	0	0	0	0	1	0	0	1387	835	29	5	2479	5	BCOR	23	39931763	Nonsense_Mutation	SNP	C	TCGA-BR-6455-01A-11D-1800-08	18304086	39931763	115338797	112	31406											
MED8	112950	broad.mit.edu	37	chr1	43851858	43851858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgccaccaaggcattaGtgtctgtagggttaaaggtc	10	10	12	9	0	1	0	0	0	1	0	2	0	1	0	2	3	2	4	2	3	5	3			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr1:43851858G>A	uc001cjg.3	-	6	581	c.533C>T	c.(532-534)ACT>ATT	p.T178I	MED8_uc001cje.1_Missense_Mutation_p.T178I|MED8_uc001cjf.3_Missense_Mutation_p.T89I	NM_201542	NP_963836	Q96G25	MED8_HUMAN	mediator complex subunit 8 isoform 1	178					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CAAGGCATTAGTGTCTGTAGG	0.542													12	69					0	0	0.000978159	0	0		A	43851858	A	A	43851858	3	1	31	1	0	0	0	0	1	0	0	0	9471	1029	36	4	388	4	MED8	1	43851858	Missense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08		43851858	205398763	1	31407											
LY9	4063	broad.mit.edu	37	chr1	160783561	160783561	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaccccaagggaaccccAtgcttctgagtccaatggag	10	7	11	13	0	1	1	0	1	1	0	2	4	2	4	5	3	2	1	5	3	3	1			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr1:160783561A>G	uc001fwu.2	+	3	640	c.590A>G	c.(589-591)CAT>CGT	p.H197R	LY9_uc010pjs.1_Missense_Mutation_p.H197R|LY9_uc001fwv.2_Missense_Mutation_p.H197R|LY9_uc001fww.2_Missense_Mutation_p.H197R|LY9_uc001fwx.2_Missense_Mutation_p.H197R|LY9_uc001fwy.1_Missense_Mutation_p.H99R|LY9_uc001fwz.2_5'Flank	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	197	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			AGGGAACCCCATGCTTCTGAG	0.542													15	133					0	0	0.000219431	0	0		G	160783561	G	G	160783561	3	3	31	1	0	0	0	0	1	0	0	0	9119	217	8	3	732	3	LY9	1	160783561	Missense_Mutation	SNP	A	TCGA-BR-6456-01A-11D-1800-08	116931703	160783561	88467060	2	31408											
PPP1R15B	84919	broad.mit.edu	37	chr1	204380537	204380537	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccgcctgtccccggctcCatctcctttttcttgacagt	4	14	7	16	2	2	1	0	1	2	0	6	2	5	1	6	1	0	1	6	1	0	3			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr1:204380537C>G	uc001hav.3	-	1	408	c.3G>C	c.(1-3)ATG>ATC	p.M1I		NM_032833	NP_116222	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	1					regulation of translation					ovary(1)|pancreas(1)	2	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			TCCCCGGCTCCATCTCCTTTT	0.642													6	65					0	0	8.12818e-05	0	0		G	204380537	G	G	204380537	3	3	31	1	0	0	0	0	1	0	0	0	12386	594	21	5	2146	5	PPP1R15B	1	204380537	Missense_Mutation	SNP	C	TCGA-BR-6456-01A-11D-1800-08	43596976	204380537	44870084	3	31409											
EXO1	9156	broad.mit.edu	37	chr1	242016726	242016726	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaagtctcggaagctcgAgagtgtttcacccggtctat	9	10	13	9	3	3	1	1	0	2	1	5	4	3	3	1	3	1	2	1	3	3	2			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr1:242016726A>G	uc001hzh.2	+	6	888	c.348A>G	c.(346-348)CGA>CGG	p.R116R	EXO1_uc001hzi.2_Silent_p.R116R|EXO1_uc001hzj.2_Silent_p.R116R|EXO1_uc009xgq.2_Silent_p.R116R	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	116					meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			CGGAAGCTCGAGAGTGTTTCA	0.423								Direct_reversal_of_damage|Editing_and_processing_nucleases					30	78					0	0	0.000409698	0	0		G	242016726	G	G	242016726	2	3	31	1	0	0	0	0	0	0	0	1	5308	291	11	3		3	EXO1	1	242016726	Silent	SNP	A	TCGA-BR-6456-01A-11D-1800-08	37636189	242016726	7233895	4	31410											
PXDN	7837	broad.mit.edu	37	chr2	1643143	1643143	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agctgaactcaagagaccgtCtgcctcggaaatgataggaa	14	7	11	9	2	2	3	1	2	1	1	3	6	2	5	2	2	3	1	2	2	5	1			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr2:1643143C>G	uc002qxa.2	-	20	4068	c.4004G>C	c.(4003-4005)AGA>ACA	p.R1335T		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1335					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		AAGAGACCGTCTGCCTCGGAA	0.498													11	48					0	0	0.000673444	0	0		G	1643143	G	G	1643143	3	3	31	1	0	0	0	0	1	0	0	0	12872	913	32	5	451	5	PXDN	2	1643143	Missense_Mutation	SNP	C	TCGA-BR-6456-01A-11D-1800-08		1643143	241556230	5	31411											
SP100	6672	broad.mit.edu	37	chr2	231379989	231379989	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatccctcctaaaggggaGaaaaaaaagaagttcaagga	19	7	9	6	0	1	2	1	0	0	2	3	4	3	3	2	3	0	1	2	3	10	4			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr2:231379989G>T	uc002vqt.2	+	25	2415	c.2274G>T	c.(2272-2274)GAG>GAT	p.E758D	SP100_uc002vqu.1_Intron|SP100_uc010fxp.1_Intron	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	758					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CTAAAGGGGAGAAAAAAAAGA	0.418													28	74					1.88708e-17	5.46542e-16	0.000227799	1	0		T	231379989	T	T	231379989	3	4	31	1	0	0	0	0	1	0	0	0	14985	933	33	5	2372	5	SP100	2	231379989	Missense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08	229736846	231379989	11819384	6	31412											
SCN11A	11280	broad.mit.edu	37	chr3	38941492	38941492	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaaaatgttccagcctcGgcgaaagtagtggtagggat	12	9	13	7	2	1	0	1	0	0	0	3	2	2	1	2	3	1	3	2	3	5	3			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr3:38941492G>A	uc011ays.1	-	13	2114	c.1915C>T	c.(1915-1917)CGA>TGA	p.R639*		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	639	II.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	TTCCAGCCTCGGCGAAAGTAG	0.418													12	25					0	0	0.00010058	0	0		A	38941492	A	A	38941492	4	1	31	1	0	0	0	0	0	1	0	0	13938	1124	39	1	3516	1	SCN11A	3	38941492	Nonsense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08		38941492	159080938	7	31413											
HHATL	57467	broad.mit.edu	37	chr3	42735277	42735277	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagctctgggatcacagcGgaatgctccccaccaatgtg	9	7	11	14	1	2	0	1	0	1	0	3	2	3	2	4	2	3	2	4	2	2	0			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr3:42735277G>A	uc003clw.2	-	11	1227	c.1080C>T	c.(1078-1080)TCC>TCT	p.S360S	HHATL_uc003clx.2_Silent_p.S360S	NM_020707	NP_065758	Q9HCP6	HHATL_HUMAN	hedgehog acyltransferase-like	360					negative regulation of N-terminal protein palmitoylation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm				ovary(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.215)		GGATCACAGCGGAATGCTCCC	0.542													8	27					0	0	0.000157383	0	0		A	42735277	A	A	42735277	2	1	31	1	0	0	0	0	0	0	0	1	7106	1103	39	1		1	HHATL	3	42735277	Silent	SNP	G	TCGA-BR-6456-01A-11D-1800-08	3793785	42735277	155287153	8	31414											
IGSF11	152404	broad.mit.edu	37	chr3	118645024	118645024	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggtcgaggaatgccttcCtctgagctacagagcaggat	9	10	13	9	1	1	2	0	1	1	1	3	5	2	4	2	3	4	3	2	3	2	3			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr3:118645024C>T	uc003ebw.2	-	4	751	c.504G>A	c.(502-504)GAG>GAA	p.E168E	IGSF11_uc011biv.1_Silent_p.E168E|IGSF11_uc003ebx.2_Silent_p.E168E|IGSF11_uc003eby.2_Silent_p.E167E|IGSF11_uc003ebz.2_Silent_p.E167E|IGSF11_uc010hqs.2_Silent_p.E167E	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	168	Ig-like C2-type.|Extracellular (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						GAATGCCTTCCTCTGAGCTAC	0.488													14	62					0	0	0.000151284	0	0		T	118645024	T	T	118645024	2	4	31	1	0	0	0	0	0	0	0	1	7614	680	24	4		4	IGSF11	3	118645024	Silent	SNP	C	TCGA-BR-6456-01A-11D-1800-08	75909747	118645024	79377406	9	31415											
ARHGAP31	57514	broad.mit.edu	37	chr3	119112366	119112366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaatatttaacctgggaCgttctggatcagactccaaa	14	11	7	9	1	3	1	2	0	1	1	4	3	4	3	2	2	1	1	2	2	5	4			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr3:119112366C>T	uc003ecj.3	+	8	1466	c.934C>T	c.(934-936)CGT>TGT	p.R312C		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	312					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						TAACCTGGGACGTTCTGGATC	0.393													27	93					0	0	0.000720815	0	0		T	119112366	T	T	119112366	3	4	31	1	0	0	0	0	1	0	0	0	880	536	19	1	964	1	ARHGAP31	3	119112366	Missense_Mutation	SNP	C	TCGA-BR-6456-01A-11D-1800-08	467342	119112366	78910064	10	31416											
TMCC1	23023	broad.mit.edu	37	chr3	129389972	129389972	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcttcaggatcttctgctGcaggtgagcaatggcagcct	8	10	13	10	0	3	1	1	1	2	0	3	3	3	2	1	3	5	5	1	3	1	2			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr3:129389972G>T	uc003emz.3	-	5	1213	c.712C>A	c.(712-714)CAG>AAG	p.Q238K	TMCC1_uc003emy.3_5'UTR|TMCC1_uc011blc.1_Missense_Mutation_p.Q59K|TMCC1_uc010htg.2_Missense_Mutation_p.Q124K	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	238	Potential.					integral to membrane				skin(1)	1						ATCTTCTGCTGCAGGTGAGCA	0.527													46	182					1.86633e-21	5.50927e-20	0.000781405	1	0		T	129389972	T	T	129389972	3	4	31	1	0	0	0	0	1	0	0	0	16017	1328	46	5	1261	5	TMCC1	3	129389972	Missense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08	10277606	129389972	68632458	11	31417											
REST	5978	broad.mit.edu	37	chr4	57797479	57797479	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagcctcctctccgaaaaGataaaaaggaaaagtctaac	20	6	6	9	1	2	1	0	0	2	1	4	3	3	2	3	1	2	0	3	1	10	2			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr4:57797479G>T	uc003hch.2	+	4	2802	c.2455G>T	c.(2455-2457)GAT>TAT	p.D819Y	REST_uc003hci.2_Missense_Mutation_p.D819Y|REST_uc010ihf.2_Missense_Mutation_p.D493Y	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	819					cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					TCTCCGAAAAGATAAAAAGGA	0.498													47	143					1.89013e-27	5.68891e-26	0.000781405	1	0		T	57797479	T	T	57797479	3	4	31	1	0	0	0	0	1	0	0	0	13259	942	33	5	2465	5	REST	4	57797479	Missense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08		57797479	133356797	12	31418											
ADAMTS12	81792	broad.mit.edu	37	chr5	33561157	33561157	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccagtttcccactttccagCcagcacagggacggaggtgg	8	8	12	13	1	0	0	0	0	0	0	3	2	3	2	4	4	2	2	4	4	0	2			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr5:33561157C>A	uc003jia.1	-	20	4263	c.4100G>T	c.(4099-4101)GGC>GTC	p.G1367V	ADAMTS12_uc010iuq.1_Missense_Mutation_p.G1282V	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1367					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CACTTTCCAGCCAGCACAGGG	0.527										HNSCC(64;0.19)			16	104					1.3612e-06	3.6657e-05	0.000308642	1	0		A	33561157	A	A	33561157	3	1	31	1	0	0	0	0	1	0	0	0	257	739	26	5	704	5	ADAMTS12	5	33561157	Missense_Mutation	SNP	C	TCGA-BR-6456-01A-11D-1800-08		33561157	147354103	13	31419											
GPR98	84059	broad.mit.edu	37	chr5	89938526	89938526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttattttggaaaatgatgacCctgggggagtttttgaattt	10	17	11	3	0	0	3	0	3	0	0	0	5	0	5	1	3	0	1	1	3	4	6			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr5:89938526C>T	uc003kju.2	+	12	2410	c.2314C>T	c.(2314-2316)CCT>TCT	p.P772S	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	772	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AAATGATGACCCTGGGGGAGT	0.388													40	132					0	0	0.000270559	0	0		T	89938526	T	T	89938526	3	4	31	1	0	0	0	0	1	0	0	0	6737	623	22	4	2360	4	GPR98	5	89938526	Missense_Mutation	SNP	C	TCGA-BR-6456-01A-11D-1800-08	56377369	89938526	90976734	14	31420											
HBEGF	1839	broad.mit.edu	37	chr5	139722343	139722344	+	Missense_Mutation	DNP	CC	AA	AA																															tgcctttcttctttcttttcCcgtgctcctccttgtttggt																										TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr5:139722343_139722344CC>AA	uc003lfi.2	-	3	549_550	c.274_275GG>TT	c.(274-276)GGG>TTG	p.G92L	HBEGF_uc010jfj.2_RNA	NM_001945	NP_001936	Q99075	HBEGF_HUMAN	heparin-binding EGF-like growth factor	92	Extracellular (Potential).				epidermal growth factor receptor signaling pathway|muscle organ development|positive regulation of protein kinase B signaling cascade|positive regulation of wound healing	cell surface|extracellular space|integral to plasma membrane	epidermal growth factor receptor binding|eukaryotic cell surface binding|growth factor activity|heparin binding|receptor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTTCTTTTCCCGTGCTCCTCC	0.465													10	532					0	0	6.4e-05	0	0		AA	139722344	AA	AA	139722343	3	1	31	1	0	0	0	0	1	0	0	0	6997	623	22	5	363	5	HBEGF	5	139722343	Missense_Mutation	DNP	CC	TCGA-BR-6456-01A-11D-1800-08	49783817	139722343	41192917	15	31421											
PCDHGA1	56114	broad.mit.edu	37	chr5	140712464	140712464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttagcgagcatgcccggttCgcactttgtgggcgtggacg	5	10	15	11	5	0	0	0	0	0	0	1	2	0	1	1	3	3	3	1	3	1	3			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr5:140712464C>T	uc003lji.1	+	1	2213	c.2213C>T	c.(2212-2214)TCG>TTG	p.S738L	PCDHGA1_uc011dan.1_Missense_Mutation_p.S738L	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	738	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGCCCGGTTCGCACTTTGTG	0.642													24	67					0	0	0.000375601	0	0		T	140712464	T	T	140712464	3	4	31	1	0	0	0	0	1	0	0	0	11569	893	31	1	2215	1	PCDHGA1	5	140712464	Missense_Mutation	SNP	C	TCGA-BR-6456-01A-11D-1800-08	990121	140712464	40202796	16	31422											
GPRIN1	114787	broad.mit.edu	37	chr5	176026581	176026581	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggctccctctggggccGtcagagcaggaggccccttc	5	6	14	16	1	2	1	1	0	1	1	4	2	3	2	5	5	1	2	5	5	0	1			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr5:176026581G>T	uc003meo.1	-	2	430	c.255C>A	c.(253-255)GAC>GAA	p.D85E		NM_052899	NP_443131	Q7Z2K8	GRIN1_HUMAN	G protein-regulated inducer of neurite outgrowth	85						growth cone|plasma membrane				ovary(2)	2	all_cancers(89;0.00263)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTCTGGGGCCGTCAGAGCAGG	0.657													12	35					6.40141e-05	0.00163769	0.000978159	1	0		T	176026581	T	T	176026581	3	4	31	1	0	0	0	0	1	0	0	0	6745	1136	40	5	2775	5	GPRIN1	5	176026581	Missense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08	35314117	176026581	4888679	17	31423											
CDK14	5218	broad.mit.edu	37	chr7	90747439	90747439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaagctggagaaagcatgCgggcctttgggaaaaacaat	15	6	13	7	1	0	2	0	0	0	2	0	4	0	3	1	3	4	2	1	3	5	1	rs145303395		TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr7:90747439C>T	uc003uky.2	+	14	1576	c.1354C>T	c.(1354-1356)CGG>TGG	p.R452W	CDK14_uc003ukz.1_Missense_Mutation_p.R434W|CDK14_uc010les.1_Missense_Mutation_p.R406W|CDK14_uc011khl.1_Missense_Mutation_p.R323W	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	452					cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						AGAAAGCATGCGGGCCTTTGG	0.393													9	113					0	0	0.000673444	0	0		T	90747439	T	T	90747439	3	4	31	1	0	0	0	0	1	0	0	0	3133	759	27	1	1350	1	CDK14	7	90747439	Missense_Mutation	SNP	C	TCGA-BR-6456-01A-11D-1800-08		90747439	68391224	18	31424											
FAM110B	90362	broad.mit.edu	37	chr8	59059521	59059521	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccccgaggccgaccctgtGgaaccagcttgtggagtcag	7	7	13	14	2	1	0	1	0	0	0	2	4	2	2	5	3	2	1	5	3	1	1			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr8:59059521G>T	uc003xtj.1	+	5	1612	c.732G>T	c.(730-732)GTG>GTT	p.V244V		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	244						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				CCGACCCTGTGGAACCAGCTT	0.612													44	88					5.7616e-29	1.76881e-27	0.000781405	1	0		T	59059521	T	T	59059521	2	4	31	1	0	0	0	0	0	0	0	1	5408	1335	47	5		5	FAM110B	8	59059521	Silent	SNP	G	TCGA-BR-6456-01A-11D-1800-08		59059521	87304501	19	31425											
TG	7038	broad.mit.edu	37	chr8	133900554	133900554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccagcaagatgtcttcccGgtgctgtcacaatacccttc	8	10	9	14	1	2	1	1	0	1	1	4	1	3	1	3	2	3	2	3	2	3	3	rs138731686		TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr8:133900554G>A	uc003ytw.2	+	10	2543	c.2502G>A	c.(2500-2502)CCG>CCA	p.P834P		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	834	Thyroglobulin type-1 7.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		ATGTCTTCCCGGTGCTGTCAC	0.522													18	69					0	0	0.000958276	0	0		A	133900554	A	A	133900554	2	1	31	1	0	0	0	0	0	0	0	1	15838	1103	39	1		1	TG	8	133900554	Silent	SNP	G	TCGA-BR-6456-01A-11D-1800-08	74841033	133900554	12463468	20	31426											
TNC	3371	broad.mit.edu	37	chr9	117808831	117808831	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggttatttccagtggctcAgactgctttttggtatctct	6	17	10	8	0	2	1	1	0	1	1	4	1	3	1	1	3	1	4	1	3	2	5			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr9:117808831A>C	uc004bjj.3	-	17	5345	c.4983T>G	c.(4981-4983)TCT>TCG	p.S1661S	TNC_uc010mvf.2_Intron	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1661	Fibronectin type-III 12.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CCAGTGGCTCAGACTGCTTTT	0.468													45	147					0	0	0.000781405	0	0		C	117808831	C	C	117808831	2	2	31	1	0	0	0	0	0	0	0	1	16295	175	7	5		5	TNC	9	117808831	Silent	SNP	A	TCGA-BR-6456-01A-11D-1800-08		117808831	23404600	21	31427											
MTPAP	55149	broad.mit.edu	37	chr10	30615481	30615481	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtggtcaaggcactctccTaacacagacaggatcttctg	12	9	9	11	0	4	1	1	0	3	1	5	2	4	2	1	3	1	1	1	3	3	2			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr10:30615481T>G	uc001iva.3	-	5	927	c.864A>C	c.(862-864)TTA>TTC	p.L288F	MTPAP_uc001ivb.3_Missense_Mutation_p.L418F	NM_018109	NP_060579	Q9NVV4	PAPD1_HUMAN	PAP associated domain containing 1 precursor	288					cell death|histone mRNA catabolic process|mRNA polyadenylation|transcription, DNA-dependent	mitochondrion	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|protein homodimerization activity|RNA binding|UTP binding			ovary(1)	1						GGCACTCTCCTAACACAGACA	0.443													56	214					0	0	0.000781405	0	0		G	30615481	G	G	30615481	3	3	31	1	0	0	0	0	1	0	0	0	9974	1519	53	5	904	5	MTPAP	10	30615481	Missense_Mutation	SNP	T	TCGA-BR-6456-01A-11D-1800-08		30615481	104919266	22	31428											
CPN1	1369	broad.mit.edu	37	chr10	101829528	101829528	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggggcctccgtacttctcGttatagtagatataggtatt	8	16	10	7	2	1	1	0	0	1	1	3	1	2	1	2	3	1	4	2	3	7	10			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr10:101829528G>A	uc001kql.2	-	3	779	c.519C>T	c.(517-519)AAC>AAT	p.N173N		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	173	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		CGTACTTCTCGTTATAGTAGA	0.478													35	75					0	0	0.000692331	0	0		A	101829528	A	A	101829528	2	1	31	1	0	0	0	0	0	0	0	1	3812	1136	40	1		1	CPN1	10	101829528	Silent	SNP	G	TCGA-BR-6456-01A-11D-1800-08	71214047	101829528	33705219	23	31429											
PLEKHA7	144100	broad.mit.edu	37	chr11	16877376	16877376	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggcttggcctccagggTggaggcggtcccagccgtgg	4	7	17	13	2	0	0	0	0	0	0	3	1	3	1	5	7	1	1	5	7	0	1			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr11:16877376T>G	uc001mmo.2	-	5	406	c.391A>C	c.(391-393)ACC>CCC	p.T131P	PLEKHA7_uc010rcu.1_Missense_Mutation_p.T131P	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	131					epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3						GCCTCCAGGGTGGAGGCGGTC	0.468													10	124					0	0	0.000270559	0	0		G	16877376	G	G	16877376	3	3	31	1	0	0	0	0	1	0	0	0	12080	1696	59	5	3050	5	PLEKHA7	11	16877376	Missense_Mutation	SNP	T	TCGA-BR-6456-01A-11D-1800-08		16877376	118129140	24	31430											
CKAP5	9793	broad.mit.edu	37	chr11	46799806	46799806	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acttcatctaggccttctttCctaatcttccaattcttatc	8	18	2	13	0	5	0	1	0	4	0	8	0	7	0	3	1	0	0	3	1	4	8			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr11:46799806C>A	uc001ndi.1	-	22	2741	c.2631G>T	c.(2629-2631)AGG>AGT	p.R877S	CKAP5_uc009ylg.1_Missense_Mutation_p.R763S|CKAP5_uc001ndj.1_Missense_Mutation_p.R877S	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	877	HEAT 5.				cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						GGCCTTCTTTCCTAATCTTCC	0.358													28	91					8.24728e-16	2.30174e-14	0.000720815	1	0		A	46799806	A	A	46799806	3	1	31	1	0	0	0	0	1	0	0	0	3448	854	30	5	3559	5	CKAP5	11	46799806	Missense_Mutation	SNP	C	TCGA-BR-6456-01A-11D-1800-08	29922430	46799806	88206710	25	31431											
MMP20	9313	broad.mit.edu	37	chr11	102496027	102496027	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgatgaggaagacagcaagGccagatgcagggagcacctt	14	5	14	8	0	0	4	0	2	0	2	0	6	0	6	2	3	3	3	2	3	2	1			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr11:102496027G>A	uc001phc.2	-	1	37	c.24C>T	c.(22-24)GGC>GGT	p.G8G		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein	8					proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		AGACAGCAAGGCCAGATGCAG	0.562													26	90					0	0	0.000878237	0	0		A	102496027	A	A	102496027	2	1	31	1	0	0	0	0	0	0	0	1	9677	1190	42	2		2	MMP20	11	102496027	Silent	SNP	G	TCGA-BR-6456-01A-11D-1800-08	55696221	102496027	32510489	26	31432											
MMP8	4317	broad.mit.edu	37	chr11	102584178	102584178	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcttggtccactgaagacAtggaagaaatctataaaaaa	18	10	7	6	0	2	3	0	1	2	2	3	4	3	4	1	2	0	0	1	2	8	4			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr11:102584178A>T	uc001phe.2	-	10	1404	c.1305T>A	c.(1303-1305)CAT>CAA	p.H435Q	MMP8_uc010rut.1_3'UTR|MMP8_uc010ruu.1_Missense_Mutation_p.H412Q	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	435	Hemopexin-like 4.				collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		CACTGAAGACATGGAAGAAAT	0.353													51	81					0	0	0.000781405	0	0		T	102584178	T	T	102584178	3	4	31	1	0	0	0	0	1	0	0	0	9686	214	8	5	102	5	MMP8	11	102584178	Missense_Mutation	SNP	A	TCGA-BR-6456-01A-11D-1800-08	88151	102584178	32422338	27	31433											
DYNC2H1	79659	broad.mit.edu	37	chr11	103270478	103270478	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcattcttgaacaatttAatgctattcgtttagtacaa	13	17	4	7	1	3	1	2	1	1	0	4	1	3	1	0	0	3	3	0	0	7	9			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr11:103270478A>T	uc001pho.2	+	84	12388	c.12244A>T	c.(12244-12246)AAT>TAT	p.N4082Y	DYNC2H1_uc001phn.1_Missense_Mutation_p.N4089Y|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	4082					cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TGAACAATTTAATGCTATTCG	0.373													34	65					0	0	0.000409698	0	0		T	103270478	T	T	103270478	3	4	31	1	0	0	0	0	1	0	0	0	4852	362	13	5	12603	5	DYNC2H1	11	103270478	Missense_Mutation	SNP	A	TCGA-BR-6456-01A-11D-1800-08	686300	103270478	31736038	28	31434											
FLI1	2313	broad.mit.edu	37	chr11	128680436	128680436	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctgtatcacctgggagggGaccaacggggagttcaaaat	12	7	14	8	1	2	0	2	0	0	0	2	3	2	3	2	5	2	3	2	5	4	2			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr11:128680436G>T	uc010sbu.1	+	9	1253	c.912G>T	c.(910-912)GGG>GGT	p.G304G	FLI1_uc010sbt.1_Silent_p.G111G|FLI1_uc010sbv.1_Silent_p.G271G|FLI1_uc009zci.2_Silent_p.G238G	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1	304	ETS.				hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		CCTGGGAGGGGACCAACGGGG	0.622			T	EWSR1	Ewing sarcoma								11	17					3.86212e-05	0.00100481	0.000673444	1	0		T	128680436	T	T	128680436	2	4	31	1	0	0	0	0	0	0	0	1	5938	1161	41	5		5	FLI1	11	128680436	Silent	SNP	G	TCGA-BR-6456-01A-11D-1800-08	25409958	128680436	6326080	29	31435											
LRRK2	120892	broad.mit.edu	37	chr12	40671789	40671789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatattccatcaaatgtctTccaatatcatggaacaaaag	17	12	4	8	0	3	0	2	0	1	0	5	1	5	1	2	1	1	0	2	1	8	5			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr12:40671789T>C	uc001rmg.3	+	17	2162	c.2041T>C	c.(2041-2043)TCC>CCC	p.S681P	LRRK2_uc001rmh.1_Missense_Mutation_p.S303P	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	681					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				TCAAATGTCTTCCAATATCAT	0.343													7	61					0	0	0.000157383	0	0		C	40671789	C	C	40671789	3	2	31	1	0	0	0	0	1	0	0	0	9051	1783	62	3	2107	3	LRRK2	12	40671789	Missense_Mutation	SNP	T	TCGA-BR-6456-01A-11D-1800-08		40671789	93180106	30	31436											
FOXN4	121643	broad.mit.edu	37	chr12	109719324	109719324	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccatggcggggtgggggagCgggctggggctgaggtccgg	3	5	24	9	3	0	1	0	1	0	0	1	2	1	2	2	10	1	2	2	10	0	0			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr12:109719324C>A	uc001toe.3	-	9	1287	c.1182G>T	c.(1180-1182)CCG>CCT	p.P394P	FOXN4_uc009zvg.2_Silent_p.P191P|FOXN4_uc001tof.3_Silent_p.P214P	NM_213596	NP_998761	Q96NZ1	FOXN4_HUMAN	forkhead box N4	394					axon extension|embryo development|organ development|pattern specification process|regulation of heart contraction|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|lung(1)	2						GGTGGGGGAGCGGGCTGGGGC	0.647													10	18					7.48243e-07	2.05099e-05	0.000442599	1	0		A	109719324	A	A	109719324	2	1	31	1	0	0	0	0	0	0	0	1	6036	755	27	5		5	FOXN4	12	109719324	Silent	SNP	C	TCGA-BR-6456-01A-11D-1800-08	69047535	109719324	24132571	31	31437											
COL4A1	1282	broad.mit.edu	37	chr13	110861227	110861227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttggtccttgaaaacttaagCccatttgtccctgtggatta	9	15	8	9	0	0	1	0	1	0	0	2	2	2	2	3	2	2	0	3	2	4	5			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr13:110861227C>T	uc001vqw.3	-	12	784	c.662G>A	c.(661-663)GGC>GAC	p.G221D	COL4A1_uc010agl.2_Missense_Mutation_p.G221D	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	221	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			AAAACTTAAGCCCATTTGTCC	0.403													32	71					0	0	0.000409698	0	0		T	110861227	T	T	110861227	3	4	31	1	0	0	0	0	1	0	0	0	3692	739	26	2	4511	2	COL4A1	13	110861227	Missense_Mutation	SNP	C	TCGA-BR-6456-01A-11D-1800-08		110861227	4308651	32	31438											
VIPAR	63894	broad.mit.edu	37	chr14	77910667	77910668	+	Frame_Shift_Del	DEL	TC	-	-																															ttgtcctgtaaggagcggaaTctctctagtgagcaaacctg																										TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr14:77910667_77910668delTC	uc001xtt.1	-	9	859_860	c.521_522delGA	c.(520-522)AGAfs	p.R174fs	VIPAR_uc001xtu.1_Frame_Shift_Del_p.R174fs|VIPAR_uc010tvj.1_Frame_Shift_Del_p.R125fs|VIPAR_uc001xtv.1_Frame_Shift_Del_p.R174fs	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894	174					endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1						AGGAGCGGAATCTCTCTAGTGA	0.391													18	38	---	---	---	---						.	-	77910668	-	-	77910667	7	5	31	1	0	1	0	1	0	0	0	0	17194	1432	50	0	1011	0	VIPAR	14	77910667	Frame_Shift_Del	DEL	TC	TCGA-BR-6456-01A-11D-1800-08		77910667	29438873	33	31439											
SLC12A1	6557	broad.mit.edu	37	chr15	48527094	48527094	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcaatatttgcagaaaacTttgggccacgcttcacaaag	14	10	7	10	1	2	1	2	0	0	1	2	1	2	1	1	1	2	2	1	1	5	4			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr15:48527094T>G	uc001zwn.3	+	9	1324	c.1108T>G	c.(1108-1110)TTT>GTT	p.F370V	SLC12A1_uc010uew.1_Missense_Mutation_p.F176V|SLC12A1_uc010bem.2_Missense_Mutation_p.F370V|SLC12A1_uc010uex.1_Missense_Mutation_p.F370V|SLC12A1_uc001zwq.3_Missense_Mutation_p.F141V|SLC12A1_uc001zwr.3_Missense_Mutation_p.F97V	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	370					potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	TGCAGAAAACTTTGGGCCACG	0.403													20	63					0	0	0.000175454	0	0		G	48527094	G	G	48527094	3	3	31	1	0	0	0	0	1	0	0	0	14407	1609	56	5	1238	5	SLC12A1	15	48527094	Missense_Mutation	SNP	T	TCGA-BR-6456-01A-11D-1800-08		48527094	54004298	34	31440											
SCNN1B	6338	broad.mit.edu	37	chr16	23366787	23366787	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgatcctggcctgcctattCggagctgagccctgcaacta	8	10	10	13	1	0	2	0	2	0	0	2	3	1	3	4	2	5	2	4	2	3	3			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr16:23366787C>T	uc002dln.2	+	4	929	c.753C>T	c.(751-753)TTC>TTT	p.F251F		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	251	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	CCTGCCTATTCGGAGCTGAGC	0.493													5	38					0	0	0.000602214	0	0		T	23366787	T	T	23366787	2	4	31	1	0	0	0	0	0	0	0	1	13953	883	31	1		1	SCNN1B	16	23366787	Silent	SNP	C	TCGA-BR-6456-01A-11D-1800-08		23366787	66987966	35	31441											
SLC5A2	6524	broad.mit.edu	37	chr16	31500611	31500611	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgttcttctgctctggcctCctcaccctcacggtctccct	2	14	6	19	1	6	0	2	0	4	0	8	0	7	0	4	2	1	2	4	2	0	2			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr16:31500611C>A	uc002ecf.3	+	12	1636	c.1617C>A	c.(1615-1617)CTC>CTA	p.L539L	SLC5A2_uc010car.2_RNA|C16orf58_uc002ecg.2_RNA	NM_003041	NP_003032	P31639	SC5A2_HUMAN	solute carrier family 5 (sodium/glucose	539	Helical; (Potential).				carbohydrate metabolic process	integral to membrane	low-affinity glucose:sodium symporter activity			ovary(1)	1						GCTCTGGCCTCCTCACCCTCA	0.647													4	22					2.56e-06	6.77517e-05	0.00024832	1	0		A	31500611	A	A	31500611	2	1	31	1	0	0	0	0	0	0	0	1	14690	842	30	5		5	SLC5A2	16	31500611	Silent	SNP	C	TCGA-BR-6456-01A-11D-1800-08	8133824	31500611	58854142	36	31442											
ALOX12	239	broad.mit.edu	37	chr17	6902654	6902654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccagtgctggcaggatgatGagttgttcagctaccagttc	8	11	13	9	0	1	2	1	2	0	0	2	3	1	3	2	2	3	6	2	2	1	4			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr17:6902654G>A	uc002gdx.3	+	6	729	c.676G>A	c.(676-678)GAG>AAG	p.E226K		NM_000697	NP_000688	P18054	LOX12_HUMAN	arachidonate 12-lipoxygenase	226	Lipoxygenase.				anti-apoptosis|cellular component movement|fatty acid oxidation|leukotriene biosynthetic process|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of cell proliferation|superoxide anion generation	cytosol|sarcolemma	arachidonate 12-lipoxygenase activity|hepoxilin-epoxide hydrolase activity|iron ion binding|lipoxygenase activity|protein binding			central_nervous_system(1)	1						GCAGGATGATGAGTTGTTCAG	0.552													16	48					0	0	0.000958276	0	0		A	6902654	A	A	6902654	3	1	31	1	0	0	0	0	1	0	0	0	536	1291	45	4	698	4	ALOX12	17	6902654	Missense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08		6902654	74292556	37	31443											
TP53	7157	broad.mit.edu	37	chr17	7578271	7578271	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttccactcggataagaTgctgaggaggggccagacct	9	9	12	11	1	0	3	0	1	0	2	3	5	2	5	4	4	1	1	4	4	1	3			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr17:7578271T>C	uc002gim.2	-	6	772	c.578A>G	c.(577-579)CAT>CGT	p.H193R	TP53_uc002gig.1_Missense_Mutation_p.H193R|TP53_uc002gih.2_Missense_Mutation_p.H193R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H61R|TP53_uc010cng.1_Missense_Mutation_p.H61R|TP53_uc002gii.1_Missense_Mutation_p.H61R|TP53_uc010cnh.1_Missense_Mutation_p.H193R|TP53_uc010cni.1_Missense_Mutation_p.H193R|TP53_uc002gij.2_Missense_Mutation_p.H193R|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.H100R|TP53_uc002gio.2_Missense_Mutation_p.H61R|TP53_uc010vug.1_Missense_Mutation_p.H154R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	193	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		H -> D (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> Y (in sporadic cancers; somatic mutation).|QH -> HN (in a sporadic cancer; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|QH -> HY (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> R (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H193R(67)|p.H193L(31)|p.H193Y(26)|p.H193P(12)|p.0?(7)|p.H193D(7)|p.H193N(4)|p.A189_V197delAPPQHLIRV(4)|p.H193fs*16(3)|p.H193H(2)|p.P191fs*53(2)|p.K164_P219del(1)|p.P191fs*15(1)|p.P191fs*6(1)|p.H100L(1)|p.H61L(1)|p.H193_I195delHLI(1)|p.H193_I195>AP(1)|p.A189fs*53(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TCGGATAAGATGCTGAGGAGG	0.562		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			6	24					0	0	0.000157383	0	0		C	7578271	C	C	7578271	3	2	31	1	0	0	0	0	1	0	0	0	16407	1464	51	3	716	3	TP53	17	7578271	Missense_Mutation	SNP	T	TCGA-BR-6456-01A-11D-1800-08	675617	7578271	73616939	38	31444											
NOS2	4843	broad.mit.edu	37	chr17	26105786	26105786	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagagcgaggccagcttgTgcgtttccaggcccattctc	6	10	11	14	2	1	1	0	0	1	1	4	2	3	1	4	2	3	2	4	2	0	3			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr17:26105786T>C	uc002gzu.2	-	11	1475	c.1211A>G	c.(1210-1212)CAC>CGC	p.H404R	NOS2_uc010crh.1_Missense_Mutation_p.H404R|NOS2_uc010wab.1_Missense_Mutation_p.H404R	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	404					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GGCCAGCTTGTGCGTTTCCAG	0.562													25	65					0	0	0.000878237	0	0		C	26105786	C	C	26105786	3	2	31	1	0	0	0	0	1	0	0	0	10562	1696	59	3	2318	3	NOS2	17	26105786	Missense_Mutation	SNP	T	TCGA-BR-6456-01A-11D-1800-08	18527515	26105786	55089424	39	31445											
TBXA2R	6915	broad.mit.edu	37	chr19	3600596	3600596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagggtaatgtttgtgggccGgaaacagggccccagggaac	10	6	16	9	1	0	0	0	0	0	0	0	2	0	2	3	5	2	2	3	5	3	2			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr19:3600596G>A	uc002lyg.1	-	2	251	c.37C>T	c.(37-39)CGG>TGG	p.R13W	TBXA2R_uc002lye.1_Missense_Mutation_p.R13W	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	13	Extracellular (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	TTTGTGGGCCGGAAACAGGGC	0.667													10	26					0	0	0.000673444	0	0		A	3600596	A	A	3600596	3	1	31	1	0	0	0	0	1	0	0	0	15688	1115	39	1	1247	1	TBXA2R	19	3600596	Missense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08		3600596	55528387	40	31446											
SAFB	6294	broad.mit.edu	37	chr19	5654453	5654453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgattagtgtaaaaacgtccGggtccaaagagagagtgagt	14	9	13	5	2	0	4	0	2	0	2	2	5	2	4	2	1	1	1	2	1	5	2	rs147202286		TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr19:5654453G>A	uc002mcf.2	+	13	1794	c.1741G>A	c.(1741-1743)GGG>AGG	p.G581R	SAFB_uc002mcg.2_Missense_Mutation_p.G581R|SAFB_uc002mce.3_Missense_Mutation_p.G581R|SAFB_uc010xir.1_Missense_Mutation_p.G581R|SAFB_uc010xis.1_Missense_Mutation_p.G512R|SAFB_uc010xit.1_Missense_Mutation_p.G424R|SAFB_uc010xiu.1_Missense_Mutation_p.G380R	NM_002967	NP_002958	Q15424	SAFB1_HUMAN	scaffold attachment factor B	581	Interaction with POLR2A.				chromatin organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding			ovary(1)|liver(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;0.000222)		AAAAACGTCCGGGTCCAAAGA	0.413													7	213					0	0	8.12818e-05	0	0		A	5654453	A	A	5654453	3	1	31	1	0	0	0	0	1	0	0	0	13831	1116	39	1	1791	1	SAFB	19	5654453	Missense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08	2053857	5654453	53474530	41	31447											
MUC16	94025	broad.mit.edu	37	chr19	9057759	9057759	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcactccataaaggactGcacttgtttctgtgattgag	9	13	11	8	0	1	2	0	2	1	0	2	3	2	3	1	2	1	3	1	2	2	4			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr19:9057759G>C	uc002mkp.2	-	3	29891	c.29687C>G	c.(29686-29688)GCA>GGA	p.A9896G		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9898	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATAAAGGACTGCACTTGTTTC	0.473													7	148					0	0	0.000157383	0	0		C	9057759	C	C	9057759	3	2	31	1	0	0	0	0	1	0	0	0	9991	1319	46	5	14164	5	MUC16	19	9057759	Missense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08	3403306	9057759	50071224	42	31448											
FAM129C	199786	broad.mit.edu	37	chr19	17641671	17641671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggccctcaggagccgaccGgaagccagttgctacgcagc	8	5	14	14	3	1	0	1	0	0	0	1	3	1	2	4	3	5	3	4	3	2	2			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr19:17641671G>A	uc010xpr.1	+	3	394	c.256G>A	c.(256-258)GGA>AGA	p.G86R	FAM129C_uc010xpq.1_Missense_Mutation_p.G86R|FAM129C_uc010xps.1_Missense_Mutation_p.G55R|FAM129C_uc010xpt.1_Intron	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	86											0						GGAGCCGACCGGAAGCCAGTT	0.632													16	48					0	0	0.00074312	0	0		A	17641671	A	A	17641671	3	1	31	1	0	0	0	0	1	0	0	0	5449	1117	39	1	266	1	FAM129C	19	17641671	Missense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08	8583912	17641671	41487312	43	31449											
MLL4	9757	broad.mit.edu	37	chr19	36229073	36229075	+	In_Frame_Del	DEL	AGA	-	-																															ggtgttgactgacaagcgggAgaagttctacgatgggaagg																										TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr19:36229073_36229075delAGA	uc010eei.2	+	37	7853_7855	c.7853_7855delAGA	c.(7852-7857)GAGAAG>GAG	p.K2619del		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2619	SET.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GACAAGCGGGAGAAGTTCTACGA	0.606													22	41	---	---	---	---						.	-	36229075	-	-	36229073	7	5	31	1	0	1	0	1	0	0	0	0	9641	304	11	0	7995	0	MLL4	19	36229073	In_Frame_Del	DEL	AGA	TCGA-BR-6456-01A-11D-1800-08	18587402	36229073	22899910	44	31450											
ZNF665	79788	broad.mit.edu	37	chr19	53669357	53669357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcctgtttcctgcagcccttCtatcacgttgagctcttcta	5	15	7	14	1	4	1	1	1	3	0	5	1	5	1	3	0	3	4	3	0	2	6			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chr19:53669357C>T	uc010eqm.1	-	4	486	c.386G>A	c.(385-387)AGA>AAA	p.R129K		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	64					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		TGCAGCCCTTCTATCACGTTG	0.388													45	149					0	0	0.000589545	0	0		T	53669357	T	T	53669357	3	4	31	1	0	0	0	0	1	0	0	0	18098	913	32	4	1654	4	ZNF665	19	53669357	Missense_Mutation	SNP	C	TCGA-BR-6456-01A-11D-1800-08	17440284	53669357	5459626	45	31451											
P2RY8	286530	broad.mit.edu	37	chrX	1585140	1585140	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgctggaatacatgtttgcGtaaaaggccacggtcaccac	12	9	10	10	2	1	0	1	0	0	0	1	1	1	1	2	3	3	3	2	3	4	3			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chrX:1585140G>A	uc004cpz.2	-	2	560	c.312C>T	c.(310-312)TAC>TAT	p.Y104Y		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	104	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ACATGTTTGCGTAAAAGGCCA	0.587			T	CRLF2	B-ALL|Downs associated ALL								5	46					0	0	0.000602214	0	0		A	1585140	A	A	1585140	2	1	31	1	0	0	0	0	0	0	0	1	11374	1140	40	1		1	P2RY8	23	1585140	Silent	SNP	G	TCGA-BR-6456-01A-11D-1800-08		1585140	153685420	46	31452											
STARD8	9754	broad.mit.edu	37	chrX	67943490	67943490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accggatgggcaccccctgcGgctatggaaggcatccacag	9	5	13	14	2	0	0	0	0	0	0	1	2	1	2	4	5	1	3	4	5	2	1			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chrX:67943490G>A	uc004dxa.2	+	12	2954	c.2582G>A	c.(2581-2583)CGG>CAG	p.R861Q	STARD8_uc004dxb.2_Missense_Mutation_p.R941Q|STARD8_uc004dxc.3_Missense_Mutation_p.R861Q	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	861	START.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						CACCCCCTGCGGCTATGGAAG	0.667													3	7					0	0	6.4e-05	0	0		A	67943490	A	A	67943490	3	1	31	1	0	0	0	0	1	0	0	0	15288	1116	39	1	2872	1	STARD8	23	67943490	Missense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08	66358350	67943490	87327070	47	31453											
RGAG1	57529	broad.mit.edu	37	chrX	109695526	109695526	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagaaccatggcctcaggaTtgacatctgcagcacagatg	12	8	11	10	0	2	3	1	2	1	2	2	5	2	4	2	2	3	2	2	2	1	1			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chrX:109695526T>C	uc004eor.1	+	3	1927	c.1681T>C	c.(1681-1683)TTG>CTG	p.L561L	RGAG1_uc011msr.1_Silent_p.L561L	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	561										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GGCCTCAGGATTGACATCTGC	0.498													40	133					0	0	0.00111076	0	0		C	109695526	C	C	109695526	2	2	31	1	0	0	0	0	0	0	0	1	13299	1490	52	3		3	RGAG1	23	109695526	Silent	SNP	T	TCGA-BR-6456-01A-11D-1800-08	41752036	109695526	45575034	48	31454											
THOC2	57187	broad.mit.edu	37	chrX	122744807	122744807	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatctgtgcttgtccgaggActtatgagtagatgacaaat	11	14	10	6	1	1	3	0	2	1	1	2	5	2	4	1	1	1	2	1	1	4	4			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chrX:122744807A>G	uc004etu.2	-	38	4794	c.4762T>C	c.(4762-4764)TCC>CCC	p.S1588P	THOC2_uc004etv.3_RNA	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1588	Lys-rich.				intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TTGTCCGAGGACTTATGAGTA	0.403													10	59					0	0	0.000151284	0	0		G	122744807	G	G	122744807	3	3	31	1	0	0	0	0	1	0	0	0	15890	275	10	3	23	3	THOC2	23	122744807	Missense_Mutation	SNP	A	TCGA-BR-6456-01A-11D-1800-08	13049281	122744807	32525753	49	31455											
GABRQ	55879	broad.mit.edu	37	chrX	151808925	151808925	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgcctgagaccgaattttgGaggtaaggcatatccagaca	12	8	11	10	2	0	2	0	1	0	2	1	5	1	3	4	3	0	2	4	3	3	4			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	ca1b50f8-f400-42ce-a9b4-3d1e88841563	g.chrX:151808925G>T	uc004ffp.1	+	2	256	c.236G>T	c.(235-237)GGA>GTA	p.G79V		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	79	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCGAATTTTGGAGGTAAGGCA	0.483													31	180					1.61788e-16	4.59897e-15	0.000409698	1	0		T	151808925	T	T	151808925	3	4	31	1	0	0	0	0	1	0	0	0	6189	1174	41	5	242	5	GABRQ	23	151808925	Missense_Mutation	SNP	G	TCGA-BR-6456-01A-11D-1800-08	29064118	151808925	3461635	50	31456											
CA6	765	broad.mit.edu	37	chr1	9009386	9009386	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggggccagagacagtcGcctatcaacctacagaggac	11	6	13	11	1	1	2	1	0	0	2	2	4	1	3	3	3	2	0	3	3	3	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:9009386G>A	uc001apm.2	+	2	168	c.144G>A	c.(142-144)TCG>TCA	p.S48S	CA6_uc009vmn.2_Intron	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	48					one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)		AGAGACAGTCGCCTATCAACC	0.592													4	41					0	0	0.000248	0	0		A	9009386	A	A	9009386	2	1	32	1	0	0	0	0	0	0	0	1	2524	1074	38	1		1	CA6	1	9009386	Silent	SNP	G	TCGA-BR-6457-01A-21D-1800-08		9009386	240241235	1	31457											
HSPG2	3339	broad.mit.edu	37	chr1	22188576	22188576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagccaggggcacaaagctcGcagaactcccctgcggcgtt	9	6	12	14	3	0	1	0	0	0	1	2	1	1	1	3	3	4	4	3	3	3	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:22188576G>A	uc001bfj.2	-	38	4813	c.4773C>T	c.(4771-4773)TGC>TGT	p.C1591C	HSPG2_uc009vqd.2_Silent_p.C1592C	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	1591	Laminin EGF-like 10.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CACAAAGCTCGCAGAACTCCC	0.517													8	54					0	0	0.00308	0	0		A	22188576	A	A	22188576	2	1	32	1	0	0	0	0	0	0	0	1	7446	1079	38	1		1	HSPG2	1	22188576	Silent	SNP	G	TCGA-BR-6457-01A-21D-1800-08	13179190	22188576	227062045	2	31458											
MYOM3	127294	broad.mit.edu	37	chr1	24418800	24418800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccccggggttctcggcctCggcatctgaaacccgggggt	4	7	16	14	4	2	1	0	1	2	0	4	1	2	1	4	7	1	2	4	7	1	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:24418800C>T	uc001bin.3	-	11	1259	c.1096G>A	c.(1096-1098)GAG>AAG	p.E366K	MYOM3_uc001bim.3_Missense_Mutation_p.E23K|MYOM3_uc001bio.2_Missense_Mutation_p.E366K|MYOM3_uc001bip.1_Missense_Mutation_p.E23K	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	366										skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		TTCTCGGCCTCGGCATCTGAA	0.637													7	59					0	0	0.006214	0	0		T	24418800	T	T	24418800	3	4	32	1	0	0	0	0	1	0	0	0	10111	893	31	1	3325	1	MYOM3	1	24418800	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	2230224	24418800	224831821	3	31459											
KLF17	128209	broad.mit.edu	37	chr1	44595138	44595138	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcactttcctcacagcgcAgagatgctggggtccccttt	7	10	10	14	1	1	1	1	0	0	1	3	2	3	1	3	2	3	3	3	2	0	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:44595138A>C	uc001clp.2	+	2	253	c.195A>C	c.(193-195)GCA>GCC	p.A65A	KLF17_uc009vxf.1_Silent_p.A28A	NM_173484	NP_775755	Q5JT82	KLF17_HUMAN	zinc finger protein 393	65					regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					CTCACAGCGCAGAGATGCTGG	0.557													5	113					0	0	0.000602	0	0		C	44595138	C	C	44595138	2	2	32	1	0	0	0	0	0	0	0	1	8361	175	7	5		5	KLF17	1	44595138	Silent	SNP	A	TCGA-BR-6457-01A-21D-1800-08	20176338	44595138	204655483	4	31460											
C8A	731	broad.mit.edu	37	chr1	57347266	57347266	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actatggagatgatgagaaaTactttcggaaaccctacaac	16	9	8	8	1	0	3	0	2	0	2	1	6	0	4	1	2	4	0	1	2	6	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:57347266T>C	uc001cyo.2	+	5	745	c.613T>C	c.(613-615)TAC>CAC	p.Y205H		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	205	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						TGATGAGAAATACTTTCGGAA	0.488													14	114					0	0	0.003163	0	0		C	57347266	C	C	57347266	3	2	32	1	0	0	0	0	1	0	0	0	2419	1406	49	3	631	3	C8A	1	57347266	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	12752128	57347266	191903355	5	31461											
LPHN2	23266	broad.mit.edu	37	chr1	82302724	82302724	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtttatcattgtaatcagcTtcttaccaaatacagaaggt	13	14	7	7	0	3	1	2	0	1	1	3	1	3	1	1	2	3	3	1	2	6	7			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:82302724T>G	uc001dit.3	+	3	236	c.55T>G	c.(55-57)TTC>GTC	p.F19V	LPHN2_uc001dis.2_Missense_Mutation_p.F19V|LPHN2_uc001diu.2_Missense_Mutation_p.F19V|LPHN2_uc001div.2_Missense_Mutation_p.F19V|LPHN2_uc009wcd.2_Missense_Mutation_p.F19V	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	19					neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		TGTAATCAGCTTCTTACCAAA	0.328													4	74					0	0	0.000602	0	0		G	82302724	G	G	82302724	3	3	32	1	0	0	0	0	1	0	0	0	8934	1609	56	5	57	5	LPHN2	1	82302724	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	24955458	82302724	166947897	6	31462											
WNT2B	7482	broad.mit.edu	37	chr1	113058897	113058897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgacaccatgaccagcGtggggactttgactggggtg	7	8	16	10	2	0	2	0	2	0	0	0	4	0	3	3	5	1	0	3	5	0	1	rs35058556	byFrequency	TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:113058897G>A	uc001ecb.2	+	3	1054	c.539G>A	c.(538-540)CGT>CAT	p.R180H	WNT2B_uc001eca.2_Missense_Mutation_p.R161H|WNT2B_uc009wgg.2_Missense_Mutation_p.R88H	NM_024494	NP_078613	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family,	180					chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity			ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CATGACCAGCGTGGGGACTTT	0.587													17	94					0	0	0.006122	0	0		A	113058897	A	A	113058897	3	1	32	1	0	0	0	0	1	0	0	0	17413	1145	40	1	682	1	WNT2B	1	113058897	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	30756173	113058897	136191724	7	31463											
FLG2	388698	broad.mit.edu	37	chr1	152327633	152327633	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccagagtattgacctgagcTtgacctgtgttgtccaaagc	9	11	11	10	0	0	4	0	3	0	1	1	4	1	4	4	0	2	3	4	0	2	4	rs144938115		TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:152327633T>A	uc001ezw.3	-	3	2702	c.2629A>T	c.(2629-2631)AGC>TGC	p.S877C	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	877	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGACCTGAGCTTGACCTGTGT	0.502													69	187					0	0	0.00361	0	0		A	152327633	A	A	152327633	3	1	32	1	0	0	0	0	1	0	0	0	5937	1609	56	5	4550	5	FLG2	1	152327633	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	39268736	152327633	96922988	8	31464											
C1orf156	92342	broad.mit.edu	37	chr1	169762277	169762277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatccaagacttttttcccaGcaaatttcactttggccttt	9	16	5	11	0	1	1	1	0	0	1	3	2	3	1	3	1	1	1	3	1	2	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:169762277G>A	uc001ggn.2	-	2	838	c.560C>T	c.(559-561)GCT>GTT	p.A187V	C1orf112_uc001ggj.2_Intron|C1orf112_uc001ggo.2_5'Flank|uc010plt.1_5'Flank|C1orf112_uc001ggp.2_5'Flank|C1orf112_uc001ggq.2_5'Flank|C1orf112_uc009wvt.2_5'Flank	NM_033418	NP_219486	O95568	MET18_HUMAN	hypothetical protein MGC9084	187						cytoplasm	protein methyltransferase activity				0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TTTTTTCCCAGCAAATTTCAC	0.398													4	154					0	0	0.000602	0	0		A	169762277	A	A	169762277	3	1	32	1	0	0	0	0	1	0	0	0	2009	971	34	2	562	2	C1orf156	1	169762277	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	17434644	169762277	79488344	9	31465											
OBSCN	84033	broad.mit.edu	37	chr1	228437778	228437778	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcccagacagaggtgacGtggtacaaggacgggaagaa	14	3	16	8	2	0	4	0	1	0	3	0	6	0	6	1	5	1	1	1	5	4	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:228437778G>A	uc009xez.1	+	14	4190	c.4146G>A	c.(4144-4146)ACG>ACA	p.T1382T	OBSCN_uc001hsn.2_Silent_p.T1382T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1382	Ig-like 14.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CAGAGGTGACGTGGTACAAGG	0.642													15	111					0	0	0.003163	0	0		A	228437778	A	A	228437778	2	1	32	1	0	0	0	0	0	0	0	1	10831	1132	40	1		1	OBSCN	1	228437778	Silent	SNP	G	TCGA-BR-6457-01A-21D-1800-08	58675501	228437778	20812843	10	31466											
SIPA1L2	57568	broad.mit.edu	37	chr1	232581434	232581434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgggcacccggtgccacGtggtgttcctcctgaagggg	5	8	17	11	2	0	1	0	1	0	0	2	2	2	1	4	5	1	2	4	5	1	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:232581434G>A	uc001hvg.2	-	9	3352	c.3194C>T	c.(3193-3195)ACG>ATG	p.T1065M	SIPA1L2_uc001hvf.2_Missense_Mutation_p.T139M	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1065					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				CCGGTGCCACGTGGTGTTCCT	0.637													7	85					0	0	0.001984	0	0		A	232581434	A	A	232581434	3	1	32	1	0	0	0	0	1	0	0	0	14355	1145	40	1	2026	1	SIPA1L2	1	232581434	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	4143656	232581434	16669187	11	31467											
LGALS8	3964	broad.mit.edu	37	chr1	236708103	236708103	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatattgctctacacttgaAcccacgcctgaatattaaag	13	11	7	10	1	1	2	0	2	1	0	1	3	1	3	2	1	3	1	2	1	7	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:236708103A>T	uc001hxz.1	+	10	1073	c.692A>T	c.(691-693)AAC>ATC	p.N231I	LGALS8_uc001hxw.1_Missense_Mutation_p.N273I|LGALS8_uc001hxy.1_Missense_Mutation_p.N273I|LGALS8_uc009xgg.1_RNA|LGALS8_uc001hya.1_Missense_Mutation_p.N231I|LGALS8_uc001hyb.1_Missense_Mutation_p.N231I|LGALS8_uc001hyc.1_Missense_Mutation_p.N214I	NM_201543	NP_963837	O00214	LEG8_HUMAN	galectin-8 isoform b	231	Galectin 2.					cytoplasm|extracellular space	sugar binding			ovary(1)	1	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.0253)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CTACACTTGAACCCACGCCTG	0.358													14	128					0	0	0.003163	0	0		T	236708103	T	T	236708103	3	4	32	1	0	0	0	0	1	0	0	0	8763	43	2	5	852	5	LGALS8	1	236708103	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	4126669	236708103	12542518	12	31468											
FMN2	56776	broad.mit.edu	37	chr1	240555838	240555838	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaccaagaggcagaggaaaAttcactgacagagactcata	17	6	10	8	0	2	5	2	2	0	3	2	7	2	6	1	2	0	1	1	2	4	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:240555838A>C	uc010pyd.1	+	15	5111	c.4886A>C	c.(4885-4887)AAT>ACT	p.N1629T	FMN2_uc010pye.1_Missense_Mutation_p.N1633T|FMN2_uc010pyf.1_Missense_Mutation_p.N244T|FMN2_uc010pyg.1_Missense_Mutation_p.N225T	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1629	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GCAGAGGAAAATTCACTGACA	0.343													15	149					0	0	0.00499	0	0		C	240555838	C	C	240555838	3	2	32	1	0	0	0	0	1	0	0	0	5964	101	4	5	4944	5	FMN2	1	240555838	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	3847735	240555838	8694783	13	31469											
OR2T12	127064	broad.mit.edu	37	chr1	248457994	248457994	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaccgtttcagggcttccTtgacctcactgttcctcaca	6	12	7	16	1	3	1	3	1	0	0	5	1	5	1	5	1	0	3	5	1	0	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:248457994T>G	uc010pzj.1	-	1	887	c.887A>C	c.(886-888)AAG>ACG	p.K296T		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	296	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			CAGGGCTTCCTTGACCTCACT	0.473													16	232					0	0	0.00499	0	0		G	248457994	G	G	248457994	3	3	32	1	0	0	0	0	1	0	0	0	11038	1609	56	5	78	5	OR2T12	1	248457994	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	7902156	248457994	792627	14	31470											
OR2M7	391196	broad.mit.edu	37	chr1	248487429	248487429	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagagcccaggatccaggAgaaggcagtcataagtccac	13	6	12	10	0	1	2	1	0	0	2	3	4	3	3	3	3	1	2	3	3	3	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr1:248487429A>G	uc010pzk.1	-	1	442	c.442T>C	c.(442-444)TCC>CCC	p.S148P		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AGGATCCAGGAGAAGGCAGTC	0.473													13	316					0	0	0.001368	0	0		G	248487429	G	G	248487429	3	3	32	1	0	0	0	0	1	0	0	0	11033	304	11	3	499	3	OR2M7	1	248487429	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	29435	248487429	763192	15	31471											
PXDN	7837	broad.mit.edu	37	chr2	1652393	1652393	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagcattgatgccggggtcGtagccgtggtactctcccag	6	9	13	13	3	1	1	0	1	1	0	3	1	1	1	4	3	4	3	4	3	2	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr2:1652393G>A	uc002qxa.2	-	17	3223	c.3159C>T	c.(3157-3159)TAC>TAT	p.Y1053Y		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1053					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		TGCCGGGGTCGTAGCCGTGGT	0.617													4	14					0	0	0.000248	0	0		A	1652393	A	A	1652393	2	1	32	1	0	0	0	0	0	0	0	1	12872	1140	40	1		1	PXDN	2	1652393	Silent	SNP	G	TCGA-BR-6457-01A-21D-1800-08		1652393	241546980	16	31472											
ASXL2	55252	broad.mit.edu	37	chr2	25972861	25972861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtttgcttggcgatgtaaCtaaagattcttggctttcac	8	15	11	7	1	2	1	1	0	1	1	2	2	2	1	0	3	2	4	0	3	3	7			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr2:25972861C>T	uc002rgs.2	-	11	1785	c.1564G>A	c.(1564-1566)GTT>ATT	p.V522I	ASXL2_uc002rgt.1_Missense_Mutation_p.V262I	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	522					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCGATGTAACTAAAGATTCT	0.458													5	102					0	0	0.000602	0	0		T	25972861	T	T	25972861	3	4	32	1	0	0	0	0	1	0	0	0	1068	565	20	4	2751	4	ASXL2	2	25972861	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	24320468	25972861	217226512	17	31473											
TMEM131	23505	broad.mit.edu	37	chr2	98392446	98392446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttttcctcttgcttcttagGtggtttcaccttgcgctgaa	4	18	8	11	1	3	1	1	1	2	0	4	1	4	1	2	2	2	3	2	2	2	7			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr2:98392446G>A	uc002syh.3	-	32	4409	c.4180C>T	c.(4180-4182)CCT>TCT	p.P1394S		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1394	Lys-rich.					integral to membrane				ovary(4)|central_nervous_system(2)	6						TGCTTCTTAGGTGGTTTCACC	0.378													18	91					0	0	0.001216	0	0		A	98392446	A	A	98392446	3	1	32	1	0	0	0	0	1	0	0	0	16069	1261	44	4	1511	4	TMEM131	2	98392446	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	72419585	98392446	144806927	18	31474											
CPS1	1373	broad.mit.edu	37	chr2	211465372	211465372	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggctacggaagacaggcAgctgttttcagataaactaa	14	10	10	7	1	1	2	1	0	0	2	1	3	1	3	0	3	3	4	0	3	6	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr2:211465372A>C	uc002vee.3	+	15	1775	c.1643A>C	c.(1642-1644)CAG>CCG	p.Q548P	CPS1_uc010fur.2_Missense_Mutation_p.Q554P|CPS1_uc010fus.2_Missense_Mutation_p.Q97P	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	548					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		GAAGACAGGCAGCTGTTTTCA	0.408													17	142					0	0	0.004007	0	0		C	211465372	C	C	211465372	3	2	32	1	0	0	0	0	1	0	0	0	3826	188	7	5	1723	5	CPS1	2	211465372	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	113072926	211465372	31734001	19	31475											
ACSL3	2181	broad.mit.edu	37	chr2	223773557	223773557	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataccatcaaccctattcttTtatattttatacattttcta	12	20	0	9	0	3	0	1	0	2	0	3	0	3	0	2	0	3	0	2	0	8	12			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr2:223773557T>A	uc002vni.2	+	4	518	c.67T>A	c.(67-69)TTA>ATA	p.L23I	ACSL3_uc002vnj.2_Missense_Mutation_p.L23I	NM_004457	NP_004448	O95573	ACSL3_HUMAN	acyl-CoA synthetase long-chain family member 3	23	Helical; Signal-anchor for type III membrane protein; (Potential).				long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|fatty-acyl-CoA synthase activity|long-chain fatty acid-CoA ligase activity|protein binding			ovary(2)	2		Renal(207;0.0183)		Epithelial(121;1.28e-10)|all cancers(144;8.06e-08)|Lung(261;0.00834)|LUSC - Lung squamous cell carcinoma(224;0.00864)	Icosapent(DB00159)	CCCTATTCTTTTATATTTTAT	0.289			T	ETV1	prostate								8	176					0	0	0.00308	0	0		A	223773557	A	A	223773557	3	1	32	1	0	0	0	0	1	0	0	0	178	1838	64	5	69	5	ACSL3	2	223773557	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	12308185	223773557	19425816	20	31476											
DOCK10	55619	broad.mit.edu	37	chr2	225688336	225688336	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccaattcattttggtaaGattcaggaaatctctgaggc	11	14	9	7	0	3	2	2	1	1	1	5	3	4	3	1	3	0	1	1	3	3	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr2:225688336G>T	uc010fwz.1	-	28	3304	c.3065C>A	c.(3064-3066)TCT>TAT	p.S1022Y	DOCK10_uc002vob.2_Missense_Mutation_p.S1016Y	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1022							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		ATTTTGGTAAGATTCAGGAAA	0.408													7	120					0.00307968	0.00419128	0.00308	1	0		T	225688336	T	T	225688336	3	4	32	1	0	0	0	0	1	0	0	0	4691	942	33	5	3611	5	DOCK10	2	225688336	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	1914779	225688336	17511037	21	31477											
PFKFB4	5210	broad.mit.edu	37	chr3	48587369	48587369	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggtcttgaccacgtccCggcgatactggccaacattg	8	10	11	12	3	1	1	0	1	1	0	2	2	2	1	3	3	2	1	3	3	3	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr3:48587369C>T	uc003ctv.2	-	3	256	c.239G>A	c.(238-240)CGG>CAG	p.R80Q	PFKFB4_uc003ctw.2_5'UTR|PFKFB4_uc010hkc.2_Missense_Mutation_p.R80Q|PFKFB4_uc003ctx.2_Missense_Mutation_p.R37Q|PFKFB4_uc010hkb.2_Missense_Mutation_p.R80Q|PFKFB4_uc011bbm.1_Missense_Mutation_p.R69Q|PFKFB4_uc011bbn.1_RNA	NM_004567	NP_004558	Q16877	F264_HUMAN	6-phosphofructo-2-kinase/fructose-2,	80	6-phosphofructo-2-kinase.				fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0003)|KIRC - Kidney renal clear cell carcinoma(197;0.00596)|Kidney(197;0.00684)		GACCACGTCCCGGCGATACTG	0.517													9	68					0	0	0.006214	0	0		T	48587369	T	T	48587369	3	4	32	1	0	0	0	0	1	0	0	0	11782	652	23	1	1218	1	PFKFB4	3	48587369	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08		48587369	149435061	22	31478											
QARS	5859	broad.mit.edu	37	chr3	49139687	49139687	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtctgtttcttctagccgAgcttttgccacctgaaagaa	8	13	9	11	2	3	2	0	1	3	1	3	3	3	2	3	1	3	2	3	1	3	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr3:49139687A>C	uc003cvx.2	-	7	587	c.582T>G	c.(580-582)GCT>GCG	p.A194A	QARS_uc011bcc.1_5'Flank|QARS_uc011bcd.1_Silent_p.A49A|QARS_uc003cvy.2_Silent_p.A49A|QARS_uc011bce.1_Silent_p.A183A|QARS_uc011bcf.1_Silent_p.A194A	NM_005051	NP_005042	P47897	SYQ_HUMAN	glutaminyl-tRNA synthetase	194					glutaminyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|glutamine-tRNA ligase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)	L-Glutamine(DB00130)	CTTCTAGCCGAGCTTTTGCCA	0.507													41	265					0	0	0.00361	0	0		C	49139687	C	C	49139687	2	2	32	1	0	0	0	0	0	0	0	1	12896	291	11	5		5	QARS	3	49139687	Silent	SNP	A	TCGA-BR-6457-01A-21D-1800-08	552318	49139687	148882743	23	31479											
VPRBP	9730	broad.mit.edu	37	chr3	51457862	51457862	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagaaataagatggtttcgTatcaacaaaagcagctcttt	15	13	7	6	1	2	2	1	0	1	2	3	2	2	2	0	1	3	4	0	1	7	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr3:51457862T>C	uc003dbe.1	-	14	2730	c.2562A>G	c.(2560-2562)ATA>ATG	p.I854M	VPRBP_uc003dbf.1_Missense_Mutation_p.I130M	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	854	LisH.				interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		GATGGTTTCGTATCAACAAAA	0.478													6	69					0	0	0.001168	0	0		C	51457862	C	C	51457862	3	2	32	1	0	0	0	0	1	0	0	0	17211	1628	57	3	2005	3	VPRBP	3	51457862	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	2318175	51457862	146564568	24	31480											
SNTN	132203	broad.mit.edu	37	chr3	63638466	63638466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctgcgcacctaggaaaatgCccaaaaggtcagtggcactt	12	7	10	12	1	1	0	1	0	0	0	1	1	1	1	3	3	2	2	3	3	5	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr3:63638466C>T	uc003dlr.2	+	1	123	c.103C>T	c.(103-105)CCC>TCC	p.P35S		NM_001080537	NP_001074006	A6NMZ2	SNTAN_HUMAN	sentan, cilia apical structure protein	35						cilium	calcium ion binding			ovary(1)	1						TAGGAAAATGCCCAAAAGGTC	0.453													15	45					0	0	0.004007	0	0		T	63638466	T	T	63638466	3	4	32	1	0	0	0	0	1	0	0	0	14901	739	26	2	105	2	SNTN	3	63638466	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	12180604	63638466	134383964	25	31481											
ARL13B	200894	broad.mit.edu	37	chr3	93758757	93758757	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagcaggctgaactcgaTggaaccagtggtctggctga	10	7	15	9	1	1	2	0	2	1	0	2	5	1	4	1	5	3	3	1	5	2	0			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr3:93758757T>G	uc003drc.2	+	6	1009	c.723T>G	c.(721-723)GAT>GAG	p.D241E	ARL13B_uc010hop.2_Missense_Mutation_p.D92E|ARL13B_uc003drd.2_Missense_Mutation_p.D134E|ARL13B_uc003dre.2_Missense_Mutation_p.D226E|ARL13B_uc003drf.2_Missense_Mutation_p.D241E|ARL13B_uc003drg.2_Missense_Mutation_p.D138E	NM_182896	NP_878899	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 2-like 1 isoform 1	241	Potential.						GTP binding				0						CTGAACTCGATGGAACCAGTG	0.393													5	46					0	0	0.000602	0	0		G	93758757	G	G	93758757	3	3	32	1	0	0	0	0	1	0	0	0	929	1461	51	5	745	5	ARL13B	3	93758757	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	30120291	93758757	104263673	26	31482											
MRPL47	57129	broad.mit.edu	37	chr3	179311560	179311560	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttaactacataccagatgaTtcttccaaagatgtctcttc	12	14	5	10	0	2	3	0	1	2	2	5	3	3	3	2	0	3	1	2	0	4	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr3:179311560T>G	uc003fjz.2	-	5	548	c.526A>C	c.(526-528)ATC>CTC	p.I176L	MRPL47_uc003fka.2_Missense_Mutation_p.I66L|MRPL47_uc003fkb.2_Missense_Mutation_p.I156L	NM_020409	NP_065142	Q9HD33	RM47_HUMAN	mitochondrial ribosomal protein L47 isoform a	176					translation	mitochondrial ribosome	structural constituent of ribosome				0	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)			TACCAGATGATTCTTCCAAAG	0.413													7	181					0	0	0.001984	0	0		G	179311560	G	G	179311560	3	3	32	1	0	0	0	0	1	0	0	0	9829	1493	52	5	238	5	MRPL47	3	179311560	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	85552803	179311560	18710870	27	31483											
EVC	2121	broad.mit.edu	37	chr4	5733156	5733156	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctactgccaccccagcctcTggccgatggctcctccaacc	6	7	7	21	1	1	0	0	0	1	0	3	1	3	0	9	2	4	1	9	2	2	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr4:5733156T>C	uc003gil.1	+	4	573	c.389T>C	c.(388-390)CTG>CCG	p.L130P	EVC_uc003gim.1_RNA	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	130					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				CCCCAGCCTCTGGCCGATGGC	0.542													5	103					0	0	0.001984	0	0		C	5733156	C	C	5733156	3	2	32	1	0	0	0	0	1	0	0	0	5293	1580	55	3	403	3	EVC	4	5733156	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08		5733156	185421120	28	31484											
LDB2	9079	broad.mit.edu	37	chr4	16587554	16587554	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgatcttaccctgaggtaGttgagggtgaagtttgttag	9	15	13	4	0	1	4	0	4	1	0	1	4	1	4	1	2	1	4	1	2	4	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr4:16587554G>C	uc003goz.2	-	5	922	c.606C>G	c.(604-606)AAC>AAG	p.N202K	LDB2_uc003gpa.2_Missense_Mutation_p.N202K|LDB2_uc003gpb.2_Missense_Mutation_p.N202K|LDB2_uc011bxh.1_Intron|LDB2_uc010iee.2_Missense_Mutation_p.N202K|LDB2_uc003goy.2_Missense_Mutation_p.N78K|LDB2_uc011bxi.1_Missense_Mutation_p.N78K	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	202							LIM domain binding|transcription cofactor activity				0						CCCTGAGGTAGTTGAGGGTGA	0.408													17	103					0	0	0.001523	0	0		C	16587554	C	C	16587554	3	2	32	1	0	0	0	0	1	0	0	0	8712	1020	36	5	640	5	LDB2	4	16587554	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	10854398	16587554	174566722	29	31485											
SPATA18	132671	broad.mit.edu	37	chr4	52926960	52926960	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttaggaggacgtaatgAtggtgtggaaacaatcaagt	14	11	12	4	1	1	1	1	1	0	0	1	4	1	4	0	4	1	1	0	4	5	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr4:52926960A>T	uc003gzl.2	+	3	484	c.206A>T	c.(205-207)GAT>GTT	p.D69V	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.D69V|SPATA18_uc003gzk.1_Missense_Mutation_p.D69V	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	69					mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			GGACGTAATGATGGTGTGGAA	0.294													9	81					0	0	0.004482	0	0		T	52926960	T	T	52926960	3	4	32	1	0	0	0	0	1	0	0	0	15028	333	12	5	216	5	SPATA18	4	52926960	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	36339406	52926960	138227316	30	31486											
KDR	3791	broad.mit.edu	37	chr4	55968591	55968591	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtggagggggattcccaGatgccgtgcatgagacttcg	7	10	15	9	2	1	2	0	1	1	2	3	5	2	4	2	3	2	1	2	3	0	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr4:55968591G>T	uc003has.2	-	14	2374	c.2072C>A	c.(2071-2073)TCT>TAT	p.S691Y	KDR_uc003hat.1_Missense_Mutation_p.S691Y	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	691	Ig-like C2-type 7.|Extracellular (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	GGGATTCCCAGATGCCGTGCA	0.468			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			9	113					2.17888e-05	3.15183e-05	0.006214	1	0		T	55968591	T	T	55968591	3	4	32	1	0	0	0	0	1	0	0	0	8155	942	33	5	2066	5	KDR	4	55968591	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	3041631	55968591	135185685	31	31487											
KIAA1109	84162	broad.mit.edu	37	chr4	123252486	123252486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttctttctgtagacataCgtctcgtaaaaaagcaacag	13	13	7	8	2	3	1	0	0	3	1	4	1	3	1	0	0	3	4	0	0	6	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr4:123252486C>T	uc003ieh.2	+	65	11300	c.11255C>T	c.(11254-11256)ACG>ATG	p.T3752M	KIAA1109_uc003iem.2_Missense_Mutation_p.T143M	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3752					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TGTAGACATACGTCTCGTAAA	0.373													6	21					0	0	0.001984	0	0		T	123252486	T	T	123252486	3	4	32	1	0	0	0	0	1	0	0	0	8224	536	19	1	11513	1	KIAA1109	4	123252486	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	67283895	123252486	67901790	32	31488											
FAT4	79633	broad.mit.edu	37	chr4	126241072	126241072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagggagtctcttatgaggcGgagagggactgctgtgttta	8	11	16	6	1	1	2	0	1	1	1	2	5	1	4	0	4	1	2	0	4	2	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr4:126241072G>A	uc003ifj.3	+	1	3506	c.3506G>A	c.(3505-3507)CGG>CAG	p.R1169Q		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1169	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTTATGAGGCGGAGAGGGACT	0.453													14	182					0	0	0.004007	0	0		A	126241072	A	A	126241072	3	1	32	1	0	0	0	0	1	0	0	0	5706	1116	39	1	3508	1	FAT4	4	126241072	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	2988586	126241072	64913204	33	31489											
ZNF827	152485	broad.mit.edu	37	chr4	146806888	146806888	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatgtcctggctgaacaaTgctgacgcactgttggccac	9	9	12	11	1	0	3	0	2	0	1	1	4	1	3	2	2	2	4	2	2	2	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr4:146806888T>C	uc003ikn.2	-	4	1737	c.1689A>G	c.(1687-1689)GCA>GCG	p.A563A	ZNF827_uc003ikm.2_Silent_p.A563A|ZNF827_uc010iox.2_Silent_p.A213A	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	563					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					GGCTGAACAATGCTGACGCAC	0.458													7	104					0	0	0.004482	0	0		C	146806888	C	C	146806888	2	2	32	1	0	0	0	0	0	0	0	1	18205	1451	51	3		3	ZNF827	4	146806888	Silent	SNP	T	TCGA-BR-6457-01A-21D-1800-08	20565816	146806888	44347388	34	31490											
NPY1R	4886	broad.mit.edu	37	chr4	164246633	164246633	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgcaagtctctctggaagTttttgttcaggaacccataa	11	13	8	9	0	3	0	1	0	2	0	4	2	3	2	1	2	2	3	1	2	4	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr4:164246633T>G	uc003iqm.1	-	3	1243	c.977A>C	c.(976-978)AAC>ACC	p.N326T	NPY1R_uc011cjj.1_Missense_Mutation_p.N83T	NM_000909	NP_000900	P25929	NPY1R_HUMAN	neuropeptide Y receptor Y1	326	Cytoplasmic (Potential).				inhibition of adenylate cyclase activity by G-protein signaling pathway|outflow tract morphogenesis	integral to plasma membrane	protein binding			lung(1)|pancreas(1)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TCTCTGGAAGTTTTTGTTCAG	0.428													9	124					0	0	0.000978	0	0		G	164246633	G	G	164246633	3	3	32	1	0	0	0	0	1	0	0	0	10627	1725	60	5	181	5	NPY1R	4	164246633	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	17439745	164246633	26907643	35	31491											
PRDM9	56979	broad.mit.edu	37	chr5	23522743	23522743	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgtgagatgtgtcagaacTtcttcattgacagctgtgct	9	15	10	7	0	3	3	2	2	1	2	3	4	3	3	0	0	3	2	0	0	1	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr5:23522743T>G	uc003jgo.2	+	8	813	c.631T>G	c.(631-633)TTC>GTC	p.F211V		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	211					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						GTGTCAGAACTTCTTCATTGA	0.498										HNSCC(3;0.000094)			5	42					0	0	0.000602	0	0		G	23522743	G	G	23522743	3	3	32	1	0	0	0	0	1	0	0	0	12485	1609	56	5	657	5	PRDM9	5	23522743	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08		23522743	157392517	36	31492											
ERBB2IP	55914	broad.mit.edu	37	chr5	65288677	65288678	+	Missense_Mutation	DNP	TT	AC	AC																															tccgaaagagatttttacttTtgaaaaaaccttggaggaac																										TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr5:65288677_65288678TT>AC	uc003juk.1	+	3	439_440	c.131_132TT>AC	c.(130-132)TTT>TAC	p.F44Y	ERBB2IP_uc003juh.1_Missense_Mutation_p.F44Y|ERBB2IP_uc003jui.1_Missense_Mutation_p.F44Y|ERBB2IP_uc003juj.1_Missense_Mutation_p.F44Y|ERBB2IP_uc011cqx.1_Missense_Mutation_p.F44Y|ERBB2IP_uc011cqy.1_Missense_Mutation_p.F44Y|ERBB2IP_uc011cqz.1_Missense_Mutation_p.F44Y|ERBB2IP_uc010iwx.1_Missense_Mutation_p.F44Y|ERBB2IP_uc003jul.1_Missense_Mutation_p.F44Y	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	44	LRR 1.				basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		ATTTTTACTTTTGAAAAAACCT	0.361													5	75					0	0	0.004672	0	0		AC	65288678	AC	AC	65288677	3	1	32	1	0	0	0	0	1	0	0	0	5215	1841	64	5	133	5	ERBB2IP	5	65288677	Missense_Mutation	DNP	TT	TCGA-BR-6457-01A-21D-1800-08	41765934	65288677	115626583	37	31493											
GPR98	84059	broad.mit.edu	37	chr5	89954028	89954028	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaaaatactactgcaaGattaacaatacaaaaaagtg	22	7	7	5	0	0	2	0	0	0	2	0	3	0	3	0	1	5	1	0	1	12	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr5:89954028G>T	uc003kju.2	+	21	4781	c.4685G>T	c.(4684-4686)AGA>ATA	p.R1562I	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1562	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		ACTACTGCAAGATTAACAATA	0.363													12	114					5.16669e-11	7.71648e-11	0.000978	1	0		T	89954028	T	T	89954028	3	4	32	1	0	0	0	0	1	0	0	0	6737	942	33	5	4767	5	GPR98	5	89954028	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	24665351	89954028	90961232	38	31494											
FAM81B	153643	broad.mit.edu	37	chr5	94764400	94764400	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccattcaagaattcgtgccCgccctggaaactctttccaa	10	10	7	14	2	2	1	1	0	1	1	4	2	3	2	4	1	2	0	4	1	4	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr5:94764400C>T	uc003kla.1	+	6	796	c.750C>T	c.(748-750)CCC>CCT	p.P250P	FAM81B_uc010jbe.1_Silent_p.P46P	NM_152548	NP_689761	Q96LP2	FA81B_HUMAN	hypothetical protein LOC153643	250										ovary(1)|skin(1)	2		all_cancers(142;1.1e-06)|all_epithelial(76;1.48e-09)|all_lung(232;0.000696)|Lung NSC(167;0.000947)|Ovarian(225;0.00473)		all cancers(79;1.04e-16)		AATTCGTGCCCGCCCTGGAAA	0.408													15	135					0	0	0.004007	0	0		T	94764400	T	T	94764400	2	4	32	1	0	0	0	0	0	0	0	1	5643	639	23	1		1	FAM81B	5	94764400	Silent	SNP	C	TCGA-BR-6457-01A-21D-1800-08	4810372	94764400	86150860	39	31495											
SLC25A46	91137	broad.mit.edu	37	chr5	110097216	110097216	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctttgttctgacgttataCtttacccattggaaacagtt	9	17	7	8	1	2	1	0	1	2	0	2	2	2	2	1	1	3	3	1	1	4	8			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr5:110097216C>G	uc003koz.2	+	8	1058	c.991C>G	c.(991-993)CTT>GTT	p.L331V	SLC25A46_uc011cvi.1_Missense_Mutation_p.L240V	NM_138773	NP_620128	Q96AG3	S2546_HUMAN	solute carrier family 25, member 46	331	Solcar 2.|Helical; Name=5; (Potential).				transport	integral to membrane|mitochondrial inner membrane					0		all_cancers(142;0.00203)|all_epithelial(76;4.52e-05)|Prostate(80;0.0115)|Colorectal(57;0.0676)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;2.58e-09)|Epithelial(69;7.29e-08)|all cancers(49;9.35e-06)|COAD - Colon adenocarcinoma(37;0.211)		TGACGTTATACTTTACCCATT	0.423													24	268					0	0	0.005443	0	0		G	110097216	G	G	110097216	3	3	32	1	0	0	0	0	1	0	0	0	14536	565	20	5	1021	5	SLC25A46	5	110097216	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	15332816	110097216	70818044	40	31496											
ZNF300	91975	broad.mit.edu	37	chr5	150275190	150275190	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgaattcgctggtgtccCggaaggtgggacttctgaga	8	11	15	7	2	1	2	0	2	1	1	3	5	2	4	1	4	0	2	1	4	3	3	rs140923053		TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr5:150275190C>T	uc003lsy.1	-	6	1878	c.1611G>A	c.(1609-1611)CCG>CCA	p.P537P	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	537	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCTGGTGTCCCGGAAGGTGGG	0.428													12	45					0	0	0.001368	0	0		T	150275190	T	T	150275190	2	4	32	1	0	0	0	0	0	0	0	1	17856	639	23	1		1	ZNF300	5	150275190	Silent	SNP	C	TCGA-BR-6457-01A-21D-1800-08	40177974	150275190	30640070	41	31497											
DUSP22	56940	broad.mit.edu	37	chr6	345906	345906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgagtgccggctccgcGgtgagagctgccttgtacac	6	9	13	13	4	1	1	1	1	0	1	2	3	2	1	3	2	4	3	3	2	1	3	rs148279164		TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr6:345906G>A	uc003msx.2	+	5	680	c.241G>A	c.(241-243)GGT>AGT	p.G81S	DUSP22_uc011dhn.1_Missense_Mutation_p.G81S|DUSP22_uc003msy.1_Missense_Mutation_p.G38S	NM_020185	NP_064570	Q9NRW4	DUS22_HUMAN	dual specificity phosphatase 22	81	Tyrosine-protein phosphatase.				apoptosis|cell proliferation|inactivation of MAPK activity|multicellular organismal development|positive regulation of JNK cascade|regulation of cell proliferation|transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(77;0.228)	Breast(5;0.0249)|all_hematologic(90;0.0489)		OV - Ovarian serous cystadenocarcinoma(45;0.0277)|BRCA - Breast invasive adenocarcinoma(62;0.0669)		CCGGCTCCGCGGTGAGAGCTG	0.438													8	127					0	0	0.006214	0	0		A	345906	A	A	345906	3	1	32	1	0	0	0	0	1	0	0	0	4827	1116	39	1	259	1	DUSP22	6	345906	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08		345906	170769161	42	31498											
NUP153	9972	broad.mit.edu	37	chr6	17629488	17629488	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaagaaagtccaaacttaAaattatcattcttactatct	17	13	3	8	0	3	2	1	0	2	2	4	2	4	2	1	0	2	0	1	0	8	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr6:17629488A>C	uc003ncd.1	-	18	3142	c.2942T>G	c.(2941-2943)TTT>TGT	p.F981C	NUP153_uc011dje.1_Missense_Mutation_p.F1012C|NUP153_uc010jpl.1_Missense_Mutation_p.F939C	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	981					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			TCCAAACTTAAAATTATCATT	0.323													7	58					0	0	0.00308	0	0		C	17629488	C	C	17629488	3	2	32	1	0	0	0	0	1	0	0	0	10774	14	1	5	1505	5	NUP153	6	17629488	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	17283582	17629488	153485579	43	31499											
C6orf134	79969	broad.mit.edu	37	chr6	30610778	30610778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggcagcccagctcaacgtCgtcgcaccaggtaataggag	10	5	14	12	3	1	0	1	0	0	0	3	1	1	1	2	4	3	4	2	4	3	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr6:30610778C>T	uc003nqu.2	+	10	1008	c.958C>T	c.(958-960)CGT>TGT	p.R320C	C6orf134_uc003nqr.3_Missense_Mutation_p.R320C|C6orf134_uc003rdc.2_Missense_Mutation_p.R320C|C6orf134_uc003nqs.3_Missense_Mutation_p.R297C|C6orf134_uc003rdd.2_Missense_Mutation_p.R297C|C6orf134_uc003nqt.2_Intron|C6orf134_uc011dmm.1_Missense_Mutation_p.R285C|C6orf134_uc003nqv.2_Missense_Mutation_p.R308C	NM_024909	NP_079185	Q5SQI0	ATAT_HUMAN	hypothetical protein LOC79969 isoform 2	320							tubulin N-acetyltransferase activity				0						AGCTCAACGTCGTCGCACCAG	0.572													18	150					0	0	0.001216	0	0		T	30610778	T	T	30610778	3	4	32	1	0	0	0	0	1	0	0	0	2333	884	31	1	996	1	C6orf134	6	30610778	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	12981290	30610778	140504289	44	31500											
BRD2	6046	broad.mit.edu	37	chr6	32945244	32945244	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggagaaccgtgattaccGggatgcacaggagtttgctg	10	9	15	7	2	0	2	0	1	0	1	0	6	0	4	2	3	4	3	2	3	2	2	rs141044200		TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr6:32945244G>T	uc003ocn.3	+	8	2927	c.1226G>T	c.(1225-1227)CGG>CTG	p.R409L	BRD2_uc003oco.2_RNA|BRD2_uc003ocq.3_Missense_Mutation_p.R409L|BRD2_uc003ocp.3_Missense_Mutation_p.R289L|BRD2_uc010juh.2_Missense_Mutation_p.R409L	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	409	Bromo 2.				spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						CGTGATTACCGGGATGCACAG	0.522													25	150					2.41591e-17	3.67986e-17	0.004656	1	0		T	32945244	T	T	32945244	3	4	32	1	0	0	0	0	1	0	0	0	1505	1116	39	5	1252	5	BRD2	6	32945244	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	2334466	32945244	138169823	45	31501											
KCNK5	8645	broad.mit.edu	37	chr6	39159379	39159379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctcaaaggactccttccGtcgccgccgccgcttcttaa	6	10	8	17	5	2	0	1	0	2	0	6	1	4	1	5	1	0	2	5	1	2	3	rs150380866	byFrequency	TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr6:39159379G>A	uc003oon.2	-	5	1151	c.787C>T	c.(787-789)CGG>TGG	p.R263W		NM_003740	NP_003731	O95279	KCNK5_HUMAN	potassium channel, subfamily K, member 5	263	Cytoplasmic (Potential).				excretion	integral to plasma membrane	potassium channel activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						GACTCCTTCCGTCGCCGCCGC	0.562													19	129					0	0	0.007413	0	0		A	39159379	A	A	39159379	3	1	32	1	0	0	0	0	1	0	0	0	8085	1144	40	1	716	1	KCNK5	6	39159379	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	6214135	39159379	131955688	46	31502											
UTRN	7402	broad.mit.edu	37	chr6	144811268	144811268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagttgagaagaaatatgcGttctcagcccctgacctccc	10	9	10	12	1	1	3	1	2	1	2	3	5	2	4	4	1	2	2	4	1	3	3	rs151173089		TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr6:144811268G>A	uc003qkt.2	+	30	4288	c.4196G>A	c.(4195-4197)CGT>CAT	p.R1399H		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1399	Interaction with SYNM.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		AGAAATATGCGTTCTCAGCCC	0.473													13	113					0	0	0.001368	0	0		A	144811268	A	A	144811268	3	1	32	1	0	0	0	0	1	0	0	0	17129	1145	40	1	4314	1	UTRN	6	144811268	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	105651889	144811268	26303799	47	31503											
PPIL4	85313	broad.mit.edu	37	chr6	149826767	149826767	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttctgagttcggtctctcTtttcactcttttgtttctcc	2	21	7	11	1	6	1	1	1	5	0	9	1	6	1	1	2	0	3	1	2	0	7			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr6:149826767T>C	uc003qmo.1	-	13	1331	c.1301A>G	c.(1300-1302)AAG>AGG	p.K434R	PPIL4_uc010kic.2_Intron	NM_139126	NP_624311	Q8WUA2	PPIL4_HUMAN	peptidylprolyl isomerase-like 4	434					protein folding	nucleus	nucleotide binding|peptidyl-prolyl cis-trans isomerase activity|RNA binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.11e-11)|GBM - Glioblastoma multiforme(68;0.0885)		TCGGTCTCTCTTTTCACTCTT	0.398													8	91					0	0	0.00308	0	0		C	149826767	C	C	149826767	3	2	32	1	0	0	0	0	1	0	0	0	12351	1609	56	3	181	3	PPIL4	6	149826767	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	5015499	149826767	21288300	48	31504											
LPA	4018	broad.mit.edu	37	chr6	161010612	161010612	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagtattctgtggttctcTgatgccagtgtggtgtcata	6	16	13	6	0	3	1	1	1	2	0	4	1	3	1	1	3	1	3	1	3	3	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr6:161010612T>C	uc003qtl.2	-	25	4040	c.3920A>G	c.(3919-3921)CAG>CGG	p.Q1307R		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3815	Kringle 34.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	TGTGGTTCTCTGATGCCAGTG	0.473													9	82					0	0	0.004482	0	0		C	161010612	C	C	161010612	3	2	32	1	0	0	0	0	1	0	0	0	8921	1580	55	3	2266	3	LPA	6	161010612	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	11183845	161010612	10104455	49	31505											
CDK13	8621	broad.mit.edu	37	chr7	40132537	40132537	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagcagctaaataaaataaAccttcctgctggaattttgg	15	11	7	8	0	0	0	0	0	0	0	1	1	1	1	2	2	4	3	2	2	7	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr7:40132537A>T	uc003thh.3	+	13	3671	c.3389A>T	c.(3388-3390)AAC>ATC	p.N1130I	CDK13_uc003thi.3_Intron|CDK13_uc003thj.2_Missense_Mutation_p.N181I|CDK13_uc003thk.2_Missense_Mutation_p.N63I	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	1130					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						AATAAAATAAACCTTCCTGCT	0.393													13	94					0	0	0.001855	0	0		T	40132537	T	T	40132537	3	4	32	1	0	0	0	0	1	0	0	0	3132	43	2	5	3439	5	CDK13	7	40132537	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08		40132537	119006126	50	31506											
GLI3	2737	broad.mit.edu	37	chr7	42004616	42004616	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtagatgttgatgtgtGaggtagcactaatctgccca	9	13	12	7	0	1	3	0	2	1	1	1	3	1	3	1	2	2	4	1	2	3	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr7:42004616G>T	uc011kbh.1	-	15	4146	c.4055C>A	c.(4054-4056)TCA>TAA	p.S1352*	GLI3_uc011kbg.1_Nonsense_Mutation_p.S1293*	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1352					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GTTGATGTGTGAGGTAGCACT	0.647									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				6	42					2.0095e-06	2.94385e-06	0.001984	1	0		T	42004616	T	T	42004616	4	4	32	1	0	0	0	0	0	1	0	0	6454	1294	45	5	691	5	GLI3	7	42004616	Nonsense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	1872079	42004616	117134047	51	31507											
POLD2	5425	broad.mit.edu	37	chr7	44157562	44157562	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcgctgacctcccgcaGgatggagggctgcagcggca	6	6	14	15	3	0	1	0	1	0	0	3	3	2	3	3	4	2	5	3	4	0	0			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr7:44157562G>A	uc010kxz.2	-	4	972	c.322C>T	c.(322-324)CTG>TTG	p.L108L	POLD2_uc003tke.3_Silent_p.L108L|POLD2_uc010kya.2_Silent_p.L108L|POLD2_uc003tkf.3_Silent_p.L108L	NM_006230	NP_006221	P49005	DPOD2_HUMAN	DNA-directed DNA polymerase delta 2	108					base-excision repair|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	DNA binding|DNA-directed DNA polymerase activity|protein binding			ovary(2)	2						ACCTCCCGCAGGATGGAGGGC	0.632													10	73					0	0	0.000673	0	0		A	44157562	A	A	44157562	2	1	32	1	0	0	0	0	0	0	0	1	12210	991	35	4		4	POLD2	7	44157562	Silent	SNP	G	TCGA-BR-6457-01A-21D-1800-08	2152946	44157562	114981101	52	31508											
SLC13A1	6561	broad.mit.edu	37	chr7	122765669	122765669	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcagtgtcttagctgggatAagaaagaatagcagccctat	13	10	11	7	0	2	2	1	0	1	2	2	3	2	3	1	1	3	2	1	1	6	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr7:122765669A>G	uc003vkm.2	-	11	1219	c.1194T>C	c.(1192-1194)CTT>CTC	p.L398L	SLC13A1_uc010lks.2_Silent_p.L274L	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	398	Helical; (Potential).					integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	TAGCTGGGATAAGAAAGAATA	0.333													20	191					0	0	0.00278	0	0		G	122765669	G	G	122765669	2	3	32	1	0	0	0	0	0	0	0	1	14416	349	13	3		3	SLC13A1	7	122765669	Silent	SNP	A	TCGA-BR-6457-01A-21D-1800-08	78608107	122765669	36372994	53	31509											
OR2F1	26211	broad.mit.edu	37	chr7	143657178	143657178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcatgtatgtggtgaccGtgctggggaactgtctcatt	6	14	14	7	1	2	1	2	1	1	0	3	2	2	2	1	4	2	2	1	4	2	2	rs141187562	byFrequency	TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr7:143657178G>A	uc003wds.1	+	1	159	c.115G>A	c.(115-117)GTG>ATG	p.V39M		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					TGTGGTGACCGTGCTGGGGAA	0.522													22	283					0	0	0.001882	0	0		A	143657178	A	A	143657178	3	1	32	1	0	0	0	0	1	0	0	0	11015	1145	40	1	117	1	OR2F1	7	143657178	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	20891509	143657178	15481485	54	31510											
MLL3	58508	broad.mit.edu	37	chr7	151932911	151932911	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaagcctcaccccaggtaaTacaacagctccgattccact	12	7	6	16	1	1	0	1	0	0	0	3	1	3	0	5	1	4	3	5	1	4	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr7:151932911T>C	uc003wla.2	-	16	2979	c.2760A>G	c.(2758-2760)GTA>GTG	p.V920V	MLL3_uc003wkz.2_5'UTR	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	920					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CCCCAGGTAATACAACAGCTC	0.453			N		medulloblastoma								8	98					0	0	0.000673	0	0		C	151932911	C	C	151932911	2	2	32	1	0	0	0	0	0	0	0	1	9640	1393	49	3		3	MLL3	7	151932911	Silent	SNP	T	TCGA-BR-6457-01A-21D-1800-08	8275733	151932911	7205752	55	31511											
CSMD1	64478	broad.mit.edu	37	chr8	3200843	3200843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgagttgaaaaccttggtCggtgtcagatccattggtgt	8	13	14	6	1	1	3	1	2	0	1	3	3	2	3	2	4	1	1	2	4	2	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:3200843C>T	uc011kwk.1	-	23	3997	c.3607G>A	c.(3607-3609)GAC>AAC	p.D1203N	CSMD1_uc011kwj.1_Missense_Mutation_p.D595N|CSMD1_uc003wqe.2_Missense_Mutation_p.D359N	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1203	Extracellular (Potential).|CUB 7.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		AAACCTTGGTCGGTGTCAGAT	0.408													5	70					0	0	0.001168	0	0		T	3200843	T	T	3200843	3	4	32	1	0	0	0	0	1	0	0	0	3947	884	31	1	7282	1	CSMD1	8	3200843	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08		3200843	143163179	56	31512											
PRSS55	203074	broad.mit.edu	37	chr8	10396212	10396212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaaacctatgggctcccCagtctcgggagtcccagagc	10	6	11	14	1	1	2	0	0	1	2	4	3	3	3	4	2	2	1	4	2	2	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:10396212C>T	uc003wta.2	+	5	983	c.968C>T	c.(967-969)CCA>CTA	p.P323L	uc010lru.2_Intron|PRSS55_uc003wtb.2_Intron	NM_198464	NP_940866	Q6UWB4	PRS55_HUMAN	hypothetical protein LOC203074 precursor	323	Extracellular (Potential).				proteolysis	integral to membrane	serine-type endopeptidase activity			ovary(1)	1						ATGGGCTCCCCAGTCTCGGGA	0.517													199	158					0	0	0.00361	0	0		T	10396212	T	T	10396212	3	4	32	1	0	0	0	0	1	0	0	0	12656	594	21	4	986	4	PRSS55	8	10396212	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	7195369	10396212	135967810	57	31513											
DLC1	10395	broad.mit.edu	37	chr8	13258989	13258989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagctcacaggaacgtgcCgccgcaggtttgttggtgtg	8	9	15	9	3	1	0	1	0	0	0	1	2	1	1	2	3	3	4	2	3	2	2	rs150701452		TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:13258989C>T	uc003wwm.2	-	3	1607	c.1163G>A	c.(1162-1164)CGG>CAG	p.R388Q	DLC1_uc003wwn.2_Missense_Mutation_p.R388Q|DLC1_uc011kxy.1_Missense_Mutation_p.R388Q	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	388					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						AGGAACGTGCCGCCGCAGGTT	0.483													18	72					0	0	0.00499	0	0		T	13258989	T	T	13258989	3	4	32	1	0	0	0	0	1	0	0	0	4556	652	23	1	3572	1	DLC1	8	13258989	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	2862777	13258989	133105033	58	31514											
TUSC3	7991	broad.mit.edu	37	chr8	15480646	15480646	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagttccagacgctcaatcTtccgaatgaatggtgataaa	13	10	10	8	2	2	3	1	2	1	1	4	5	4	4	2	2	0	2	2	2	5	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:15480646T>G	uc003wwt.2	+	2	406	c.196T>G	c.(196-198)TTC>GTC	p.F66V	TUSC3_uc003wwr.2_Missense_Mutation_p.F66V|TUSC3_uc003wws.2_Missense_Mutation_p.F66V|TUSC3_uc003wwu.2_Missense_Mutation_p.F66V|TUSC3_uc003wwv.2_Missense_Mutation_p.F66V|TUSC3_uc003www.2_Missense_Mutation_p.F66V|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.F66V	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	66					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		ACGCTCAATCTTCCGAATGAA	0.388													15	109					0	0	0.004007	0	0		G	15480646	G	G	15480646	3	3	32	1	0	0	0	0	1	0	0	0	16804	1609	56	5	202	5	TUSC3	8	15480646	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	2221657	15480646	130883376	59	31515											
ZMAT4	79698	broad.mit.edu	37	chr8	40625183	40625183	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgaccggagcctcttggCaggacaccctccatccctgg	6	9	10	16	1	2	1	0	1	2	0	4	3	4	3	5	4	1	1	5	4	0	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:40625183C>A	uc003xnr.2	-	3	315	c.169G>T	c.(169-171)GCC>TCC	p.A57S	ZMAT4_uc003xns.2_Missense_Mutation_p.A57S	NM_024645	NP_078921	Q9H898	ZMAT4_HUMAN	zinc finger, matrin type 4 isoform a	57						nucleus	DNA binding|zinc ion binding			pancreas(1)|central_nervous_system(1)|skin(1)	3	Ovarian(28;0.00724)|Colorectal(14;0.0468)	all_cancers(7;0.00936)|all_epithelial(6;3.53e-06)|all_lung(54;0.0318)|Lung NSC(58;0.0919)|Esophageal squamous(32;0.15)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;0.00722)			AGCCTCTTGGCAGGACACCCT	0.453													4	56					0.00116845	0.00160924	0.001168	1	0		A	40625183	A	A	40625183	3	1	32	1	0	0	0	0	1	0	0	0	17719	710	25	5	540	5	ZMAT4	8	40625183	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	25144537	40625183	105738839	60	31516											
RP1	6101	broad.mit.edu	37	chr8	55541424	55541424	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcaggtttgtccttataattCtgtggaatttcagtgttcca	8	18	8	7	0	3	0	2	0	1	0	5	1	5	1	2	2	0	2	2	2	3	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:55541424C>G	uc003xsd.1	+	4	5130	c.4982C>G	c.(4981-4983)TCT>TGT	p.S1661C	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1661					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CCTTATAATTCTGTGGAATTT	0.388													15	183					0	0	0.00499	0	0		G	55541424	G	G	55541424	3	3	32	1	0	0	0	0	1	0	0	0	13557	913	32	5	4992	5	RP1	8	55541424	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	14916241	55541424	90822598	61	31517											
FAM82B	51115	broad.mit.edu	37	chr8	87491204	87491204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagcattttagcaattcttCtttgataccaaggcatttcg	11	15	6	9	1	2	1	0	1	2	0	3	1	2	1	1	1	3	3	1	1	4	7			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:87491204C>T	uc003ydu.2	-	7	837	c.677G>A	c.(676-678)AGA>AAA	p.R226K	FAM82B_uc011lfz.1_Missense_Mutation_p.R196K|FAM82B_uc011lga.1_Missense_Mutation_p.R196K	NM_016033	NP_057117	Q96DB5	RMD1_HUMAN	regulator of microtubule dynamics 1	226	TPR 2.					microtubule|spindle pole	binding			ovary(1)	1						AGCAATTCTTCTTTGATACCA	0.348													60	173					0	0	0.00361	0	0		T	87491204	T	T	87491204	3	4	32	1	0	0	0	0	1	0	0	0	5646	913	32	4	283	4	FAM82B	8	87491204	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	31949780	87491204	58872818	62	31518											
SDC2	6383	broad.mit.edu	37	chr8	97614693	97614693	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagatactgttgactagTgctgctccaaaagtggaaac	14	9	9	9	0	0	2	0	1	0	1	1	3	1	3	2	1	4	3	2	1	6	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:97614693T>G	uc003yhv.1	+	3	861	c.243T>G	c.(241-243)AGT>AGG	p.S81R	SDC2_uc011lgu.1_Missense_Mutation_p.S52R	NM_002998	NP_002989	P34741	SDC2_HUMAN	syndecan 2 precursor	81	Extracellular (Potential).					integral to plasma membrane	cytoskeletal protein binding|PDZ domain binding			ovary(2)	2	Breast(36;3.41e-05)				Sargramostim(DB00020)	TGTTGACTAGTGCTGCTCCAA	0.438													7	123					0	0	0.00308	0	0		G	97614693	G	G	97614693	3	3	32	1	0	0	0	0	1	0	0	0	13977	1693	59	5	253	5	SDC2	8	97614693	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	10123489	97614693	48749329	63	31519											
ANGPT1	284	broad.mit.edu	37	chr8	108306233	108306233	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgatgttgtattacagtccaAcctcccccattgacatccat	10	12	5	14	1	0	1	0	1	0	0	3	2	3	1	5	0	2	2	5	0	3	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:108306233A>T	uc003ymn.2	-	6	1437	c.969T>A	c.(967-969)GGT>GGA	p.G323G	ANGPT1_uc011lhv.1_Silent_p.G123G|ANGPT1_uc003ymo.2_Silent_p.G322G|ANGPT1_uc003ymp.3_Silent_p.G122G	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	323	Fibrinogen C-terminal.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			TTACAGTCCAACCTCCCCCAT	0.343													9	115					0	0	0.000673	0	0		T	108306233	T	T	108306233	2	4	32	1	0	0	0	0	0	0	0	1	610	30	2	5		5	ANGPT1	8	108306233	Silent	SNP	A	TCGA-BR-6457-01A-21D-1800-08	10691540	108306233	38057789	64	31520											
CSMD3	114788	broad.mit.edu	37	chr8	113317004	113317004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtaccattaggaagacattCgatggaggcaggacctagtc	13	8	12	8	1	0	1	0	0	0	1	2	5	0	4	2	4	1	2	2	4	4	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:113317004C>T	uc003ynu.2	-	52	8371	c.8212G>A	c.(8212-8214)GAA>AAA	p.E2738K	CSMD3_uc003yns.2_Missense_Mutation_p.E1940K|CSMD3_uc003ynt.2_Missense_Mutation_p.E2698K|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2738	Extracellular (Potential).|Sushi 16.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GGAAGACATTCGATGGAGGCA	0.398										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			30	66					0	0	0.007291	0	0		T	113317004	T	T	113317004	3	4	32	1	0	0	0	0	1	0	0	0	3949	893	31	1	2991	1	CSMD3	8	113317004	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	5010771	113317004	33047018	65	31521											
CSMD3	114788	broad.mit.edu	37	chr8	113318286	113318286	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgttccatctgattggCatacagctgtagtgagttct	8	15	9	9	0	2	2	0	2	2	0	4	2	4	2	2	1	2	5	2	1	2	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:113318286C>A	uc003ynu.2	-	51	8180	c.8021G>T	c.(8020-8022)TGC>TTC	p.C2674F	CSMD3_uc003yns.2_Missense_Mutation_p.C1876F|CSMD3_uc003ynt.2_Missense_Mutation_p.C2634F|CSMD3_uc011lhx.1_Missense_Mutation_p.C2570F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2674	Extracellular (Potential).|Sushi 15.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ATCTGATTGGCATACAGCTGT	0.393										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			10	182					7.48243e-07	1.10318e-06	0.006214	1	0		A	113318286	A	A	113318286	3	1	32	1	0	0	0	0	1	0	0	0	3949	710	25	5	3186	5	CSMD3	8	113318286	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	1282	113318286	33045736	66	31522											
CSMD3	114788	broad.mit.edu	37	chr8	113323373	113323373	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatatccatgaggtggggaTtctggtgtactacagtagaa	12	12	12	5	0	1	2	0	1	1	1	2	3	2	3	1	4	2	2	1	4	6	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:113323373T>G	uc003ynu.2	-	50	7878	c.7719A>C	c.(7717-7719)GAA>GAC	p.E2573D	CSMD3_uc003yns.2_Missense_Mutation_p.E1775D|CSMD3_uc003ynt.2_Missense_Mutation_p.E2533D|CSMD3_uc011lhx.1_Missense_Mutation_p.E2469D|CSMD3_uc003ynw.1_Missense_Mutation_p.E284D	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2573	Extracellular (Potential).|Sushi 14.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GAGGTGGGGATTCTGGTGTAC	0.398										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			5	98					0	0	0.001168	0	0		G	113323373	G	G	113323373	3	3	32	1	0	0	0	0	1	0	0	0	3949	1490	52	5	3492	5	CSMD3	8	113323373	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	5087	113323373	33040649	67	31523											
NFKBIL2	4796	broad.mit.edu	37	chr8	145661049	145661049	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatacccaccaagggctGgcctgccgcagagctgtccc	7	6	11	17	1	0	1	0	0	0	1	1	1	1	1	5	2	4	4	5	2	2	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr8:145661049G>A	uc011llg.1	-	17	2782	c.2767C>T	c.(2767-2769)CAG>TAG	p.Q923*	uc011llh.1_Intron	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	923					cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			ACCAAGGGCTGGCCTGCCGCA	0.677													6	45					0	0	0.001168	0	0		A	145661049	A	A	145661049	4	1	32	1	0	0	0	0	0	1	0	0	10401	1357	47	4	1409	4	NFKBIL2	8	145661049	Nonsense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	32337676	145661049	702973	68	31524											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18657714	18657714	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atccaccgatggagggagacGgatttctttccttgctcagc	8	11	11	11	2	2	1	1	0	1	1	4	5	4	3	3	3	2	1	3	3	0	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr9:18657714G>A	uc003zne.3	+	8	1039	c.912G>A	c.(910-912)ACG>ACA	p.T304T	ADAMTSL1_uc003znb.2_Silent_p.T304T|ADAMTSL1_uc003znc.3_Silent_p.T304T	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	304						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		GGAGGGAGACGGATTTCTTTC	0.463													9	92					0	0	0.004482	0	0		A	18657714	A	A	18657714	2	1	32	1	0	0	0	0	0	0	0	1	274	1103	39	1		1	ADAMTSL1	9	18657714	Silent	SNP	G	TCGA-BR-6457-01A-21D-1800-08		18657714	122555717	69	31525											
UNC13B	10497	broad.mit.edu	37	chr9	35375189	35375189	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacgcacttctcttaaggaCgaagagctggtaagtgtccc	11	9	10	11	2	1	1	0	0	1	1	3	3	2	2	1	2	1	3	1	2	3	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr9:35375189C>T	uc003zwq.2	+	13	1651	c.1359C>T	c.(1357-1359)GAC>GAT	p.D453D	UNC13B_uc003zwr.2_Silent_p.D453D	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	453					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			CTCTTAAGGACGAAGAGCTGG	0.498													19	119					0	0	0.001216	0	0		T	35375189	T	T	35375189	2	4	32	1	0	0	0	0	0	0	0	1	17011	535	19	1		1	UNC13B	9	35375189	Silent	SNP	C	TCGA-BR-6457-01A-21D-1800-08	16717475	35375189	105838242	70	31526											
C9orf84	158401	broad.mit.edu	37	chr9	114462251	114462251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacctttacatccagttcttCagagtttagcccaaatgaaa	13	13	5	10	0	2	2	1	1	1	1	3	2	3	2	3	0	3	2	3	0	5	7			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr9:114462251C>T	uc004bfr.2	-	22	3109	c.2974G>A	c.(2974-2976)GAA>AAA	p.E992K	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Missense_Mutation_p.E953K|C9orf84_uc010mug.2_Missense_Mutation_p.E903K	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	992										ovary(2)	2						TCCAGTTCTTCAGAGTTTAGC	0.308													20	121					0	0	0.002299	0	0		T	114462251	T	T	114462251	3	4	32	1	0	0	0	0	1	0	0	0	2503	835	29	4	1380	4	C9orf84	9	114462251	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	79087062	114462251	26751180	71	31527											
RGS3	5998	broad.mit.edu	37	chr9	116357901	116357901	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttagcagtgttccaagcCttccttcgcactgagttcag	7	12	11	11	1	1	1	1	1	0	0	4	1	3	1	3	1	2	5	3	1	2	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr9:116357901C>T	uc004bhq.2	+	25	3476	c.3267C>T	c.(3265-3267)GCC>GCT	p.A1089A	RGS3_uc004bhs.2_Silent_p.A979A|RGS3_uc004bht.2_Silent_p.A808A|RGS3_uc010muy.2_Silent_p.A482A|RGS3_uc004bhv.2_Silent_p.A410A|RGS3_uc004bhw.2_Silent_p.A59A|RGS3_uc011lxh.1_Silent_p.A399A|RGS3_uc004bhx.2_Silent_p.A410A|RGS3_uc004bhz.2_Silent_p.A431A|RGS3_uc004bia.2_Silent_p.A202A	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	1089	RGS.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						TGTTCCAAGCCTTCCTTCGCA	0.527													5	77					0	0	0.000602	0	0		T	116357901	T	T	116357901	2	4	32	1	0	0	0	0	0	0	0	1	13331	668	24	4		4	RGS3	9	116357901	Silent	SNP	C	TCGA-BR-6457-01A-21D-1800-08	1895650	116357901	24855530	72	31528											
SARDH	1757	broad.mit.edu	37	chr9	136596596	136596596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggattccacaccatacGccttgcccagctagggggac	9	7	11	14	1	0	0	0	0	0	0	1	2	1	2	4	3	3	1	4	3	2	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr9:136596596G>A	uc004cep.3	-	4	655	c.521C>T	c.(520-522)GCG>GTG	p.A174V	SARDH_uc004ceo.2_Missense_Mutation_p.A174V|SARDH_uc011mdn.1_Missense_Mutation_p.A174V|SARDH_uc011mdo.1_Missense_Mutation_p.A6V	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	174					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		CACACCATACGCCTTGCCCAG	0.632													5	53					0	0	0.000602	0	0		A	136596596	A	A	136596596	3	1	32	1	0	0	0	0	1	0	0	0	13866	1087	38	1	2307	1	SARDH	9	136596596	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	20238695	136596596	4616835	73	31529											
ZMYND11	10771	broad.mit.edu	37	chr10	288050	288050	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaagacaatcaagtcgaCgttcgcttctttggccacca	13	9	8	11	3	2	2	1	0	1	2	4	3	2	2	2	1	0	2	2	1	4	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr10:288050C>T	uc010pzt.1	+	10	1349	c.921C>T	c.(919-921)GAC>GAT	p.D307D	ZMYND11_uc001ifk.2_Silent_p.D306D|ZMYND11_uc010pzu.1_Silent_p.D307D|ZMYND11_uc010pzv.1_Silent_p.D252D|ZMYND11_uc010pzw.1_Silent_p.D222D|ZMYND11_uc001ifm.2_Silent_p.D253D|ZMYND11_uc010pzx.1_Silent_p.D307D|ZMYND11_uc001ifn.2_Silent_p.D253D|ZMYND11_uc009xhg.2_Silent_p.D290D|ZMYND11_uc009xhh.2_Silent_p.D181D|ZMYND11_uc010pzy.1_Silent_p.D159D	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	267	PWWP.				cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		ATCAAGTCGACGTTCGCTTCT	0.428													6	131					0	0	0.001168	0	0		T	288050	T	T	288050	2	4	32	1	0	0	0	0	0	0	0	1	17731	535	19	1		1	ZMYND11	10	288050	Silent	SNP	C	TCGA-BR-6457-01A-21D-1800-08		288050	135246697	74	31530											
WAPAL	23063	broad.mit.edu	37	chr10	88220968	88220968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccagaccacccaaaagcCggagttcttctttaaaccag	13	8	7	13	1	2	1	0	0	2	1	3	3	3	2	5	1	2	1	5	1	4	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr10:88220968C>T	uc001kdo.2	-	10	2889	c.2447G>A	c.(2446-2448)CGG>CAG	p.R816Q	WAPAL_uc009xsv.2_Missense_Mutation_p.R130Q|WAPAL_uc001kdn.2_Missense_Mutation_p.R853Q|WAPAL_uc009xsw.2_Missense_Mutation_p.R810Q	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	816	WAPL.				cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						ACCCAAAAGCCGGAGTTCTTC	0.333													9	137					0	0	0.000673	0	0		T	88220968	T	T	88220968	3	4	32	1	0	0	0	0	1	0	0	0	17274	652	23	1	1165	1	WAPAL	10	88220968	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	87932918	88220968	47313779	75	31531											
KIF20B	9585	broad.mit.edu	37	chr10	91533796	91533796	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgacttcgaacaaaaacAgccaaataaatcacttatgg	18	7	6	10	3	1	0	1	0	0	0	2	3	1	0	1	1	3	0	1	1	7	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr10:91533796A>G	uc001kgs.1	+	33	5526	c.5454A>G	c.(5452-5454)ACA>ACG	p.T1818T	KIF20B_uc001kgr.1_Silent_p.T1778T|KIF20B_uc001kgt.1_Silent_p.T1029T|KIF20B_uc009xtw.1_RNA	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	1818	Interaction with PIN1.				cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						GAACAAAAACAGCCAAATAAA	0.279													5	86					0	0	0.001168	0	0		G	91533796	G	G	91533796	2	3	32	1	0	0	0	0	0	0	0	1	8303	175	7	3		3	KIF20B	10	91533796	Silent	SNP	A	TCGA-BR-6457-01A-21D-1800-08	3312828	91533796	44000951	76	31532											
HECTD2	143279	broad.mit.edu	37	chr10	93250996	93250996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatctcgaagacagagacctGatatgaatatattatttcta	15	14	6	6	1	2	4	0	2	2	2	3	6	2	4	1	0	0	0	1	0	8	7	rs149760758	byFrequency	TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr10:93250996G>A	uc001khl.2	+	12	1331	c.1231G>A	c.(1231-1233)GAT>AAT	p.D411N	LOC100188947_uc010qnl.1_Intron|HECTD2_uc010qnm.1_Missense_Mutation_p.D415N|HECTD2_uc001khm.2_RNA|HECTD2_uc009xty.1_5'UTR|HECTD2_uc001khn.1_Missense_Mutation_p.D61N	NM_182765	NP_877497	Q5U5R9	HECD2_HUMAN	HECT domain containing 2 isoform a	411					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			skin(1)	1						ACAGAGACCTGATATGAATAT	0.279													7	73					0	0	0.00308	0	0		A	93250996	A	A	93250996	3	1	32	1	0	0	0	0	1	0	0	0	7056	1290	45	4	1301	4	HECTD2	10	93250996	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	1717200	93250996	42283751	77	31533											
BTRC	8945	broad.mit.edu	37	chr10	103298091	103298091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggctgctttggacccccGtgctcctgcagggacactct	4	11	12	14	1	1	0	0	0	1	0	2	2	2	2	3	3	3	4	3	3	0	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr10:103298091G>A	uc001kta.2	+	13	1732	c.1619G>A	c.(1618-1620)CGT>CAT	p.R540H	BTRC_uc001ktb.2_Missense_Mutation_p.R504H|BTRC_uc001ktc.2_Missense_Mutation_p.R514H	NM_033637	NP_378663	Q9Y297	FBW1A_HUMAN	beta-transducin repeat containing protein	540	WD 6.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|positive regulation of proteolysis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|viral reproduction|Wnt receptor signaling pathway	cytosol|nucleus|SCF ubiquitin ligase complex				ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;1.05e-08)|all cancers(201;6.59e-07)		TTGGACCCCCGTGCTCCTGCA	0.458													6	121					0	0	0.001168	0	0		A	103298091	A	A	103298091	3	1	32	1	0	0	0	0	1	0	0	0	1572	1145	40	1	1669	1	BTRC	10	103298091	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	10047095	103298091	32236656	78	31534											
KRTAP5-5	439915	broad.mit.edu	37	chr11	1651127	1651127	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtggaggccgtggctcCggctgtgggggctgtggctc	1	9	21	10	2	0	0	0	0	0	0	2	1	1	1	2	8	0	5	2	8	0	0			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr11:1651127C>T	uc001lty.2	+	1	95	c.57C>T	c.(55-57)TCC>TCT	p.S19S		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	19						keratin filament				lung(1)	1		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		gccgtggctccggctgtgggg	0.149													6	118					0	0	0.001168	0	0		T	1651127	T	T	1651127	2	4	32	1	0	0	0	0	0	0	0	1	8580	639	23	1		1	KRTAP5-5	11	1651127	Silent	SNP	C	TCGA-BR-6457-01A-21D-1800-08		1651127	133355389	79	31535											
NELL1	4745	broad.mit.edu	37	chr11	21594908	21594908	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtttcacggcttagtggcTcagtgtggacgatggctgga	6	12	16	7	2	2	0	2	0	0	0	2	3	2	2	0	5	0	4	0	5	1	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr11:21594908T>G	uc001mqe.2	+	19	2488	c.2335T>G	c.(2335-2337)TCA>GCA	p.S779A	NELL1_uc001mqf.2_Missense_Mutation_p.S732A|NELL1_uc009yid.2_Missense_Mutation_p.S807A|NELL1_uc010rdo.1_Missense_Mutation_p.S722A|NELL1_uc010rdp.1_Missense_Mutation_p.S492A|NELL1_uc001mqh.2_Missense_Mutation_p.S324A	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	779	VWFC 5.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						GCTTAGTGGCTCAGTGTGGAC	0.488													5	166					0	0	0.001168	0	0		G	21594908	G	G	21594908	3	3	32	1	0	0	0	0	1	0	0	0	10352	1551	54	5	2409	5	NELL1	11	21594908	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	19943781	21594908	113411608	80	31536											
CCDC73	493860	broad.mit.edu	37	chr11	32632734	32632734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgccattgcattcttctcttCactgggttctcccttgggat	4	17	8	12	0	4	0	1	0	3	0	6	1	4	1	2	2	2	2	2	2	0	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr11:32632734C>T	uc001mtv.2	-	17	3018	c.2974G>A	c.(2974-2976)GAA>AAA	p.E992K		NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	992										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					TTCTTCTCTTCACTGGGTTCT	0.398													18	155					0	0	0.00499	0	0		T	32632734	T	T	32632734	3	4	32	1	0	0	0	0	1	0	0	0	2849	835	29	4	273	4	CCDC73	11	32632734	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	11037826	32632734	102373782	81	31537											
OR4C13	283092	broad.mit.edu	37	chr11	49974468	49974468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttcatctgtcaattacCtttctgtggtcctaatgtca	7	17	5	12	0	6	0	3	0	3	0	7	0	7	0	3	1	1	0	3	1	3	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr11:49974468C>T	uc010rhz.1	+	1	494	c.494C>T	c.(493-495)CCT>CTT	p.P165L		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						TGTCAATTACCTTTCTGTGGT	0.438													21	122					0	0	0.002299	0	0		T	49974468	T	T	49974468	3	4	32	1	0	0	0	0	1	0	0	0	11066	681	24	4	496	4	OR4C13	11	49974468	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	17341734	49974468	85032048	82	31538											
OR5D13	390142	broad.mit.edu	37	chr11	55541130	55541130	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcacttgtccttgacagacTtctgtttttccactgtagtt	6	18	7	10	0	2	2	1	1	1	1	4	2	4	2	2	0	0	3	2	0	1	7			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr11:55541130T>G	uc010ril.1	+	1	217	c.217T>G	c.(217-219)TTC>GTC	p.F73V		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	73	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				CTTGACAGACTTCTGTTTTTC	0.393													14	151					0	0	0.001855	0	0		G	55541130	G	G	55541130	3	3	32	1	0	0	0	0	1	0	0	0	11173	1609	56	5	219	5	OR5D13	11	55541130	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	5566662	55541130	79465386	83	31539											
C11orf9	745	broad.mit.edu	37	chr11	61539366	61539366	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactaccagtccatcaagTggcagcctcatcagcagaac	13	6	7	15	0	3	1	3	0	0	1	4	1	4	1	4	1	5	2	4	1	4	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr11:61539366T>C	uc001nsc.1	+	7	1153	c.1057T>C	c.(1057-1059)TGG>CGG	p.W353R	C11orf9_uc001nse.1_Missense_Mutation_p.W344R	NM_001127392	NP_001120864	Q9Y2G1	MRF_HUMAN	myelin gene regulatory factor isoform 2	353	NDT80.				central nervous system myelination|positive regulation of myelination|positive regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						GTCCATCAAGTGGCAGCCTCA	0.617													15	116					0	0	0.003163	0	0		C	61539366	C	C	61539366	3	2	32	1	0	0	0	0	1	0	0	0	1674	1696	59	3	1106	3	C11orf9	11	61539366	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	5998236	61539366	73467150	84	31540											
AHNAK	79026	broad.mit.edu	37	chr11	62299903	62299903	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggcttccacattgaccttGggccctgaaatactgatatc	9	11	10	11	0	0	3	0	3	0	0	2	3	1	3	3	3	1	1	3	3	3	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr11:62299903G>A	uc001ntl.2	-	5	2286	c.1986C>T	c.(1984-1986)CCC>CCT	p.P662P	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	662					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CATTGACCTTGGGCCCTGAAA	0.498													27	186					0	0	0.005443	0	0		A	62299903	A	A	62299903	2	1	32	1	0	0	0	0	0	0	0	1	414	1335	47	4		4	AHNAK	11	62299903	Silent	SNP	G	TCGA-BR-6457-01A-21D-1800-08	760537	62299903	72706613	85	31541											
SLC22A6	9356	broad.mit.edu	37	chr11	62747361	62747361	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacctggattaggtagatgCtgactccaaagccctgcagg	10	9	11	11	0	1	2	1	1	0	1	2	3	2	3	3	3	3	3	3	3	3	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr11:62747361C>A	uc001nwk.2	-	7	1404	c.1097G>T	c.(1096-1098)AGC>ATC	p.S366I	SLC22A6_uc001nwl.2_Missense_Mutation_p.S366I|SLC22A6_uc001nwj.2_Missense_Mutation_p.S366I|SLC22A6_uc001nwm.2_Missense_Mutation_p.S366I	NM_004790	NP_004781	Q4U2R8	S22A6_HUMAN	solute carrier family 22 member 6 isoform a	366	Extracellular (Potential).				alpha-ketoglutarate transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|protein binding				0						TAGGTAGATGCTGACTCCAAA	0.517													5	53					3.59834e-05	5.14048e-05	0.001168	1	0		A	62747361	A	A	62747361	3	1	32	1	0	0	0	0	1	0	0	0	14483	797	28	5	610	5	SLC22A6	11	62747361	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	447458	62747361	72259155	86	31542											
ZFPL1	7542	broad.mit.edu	37	chr11	64854058	64854058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccacagtcaactgggcccGggcaggactgggcctccctc	6	5	14	16	1	1	0	1	0	0	0	3	1	2	1	4	5	1	1	4	5	1	0			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr11:64854058G>A	uc001ocq.1	+	4	551	c.386G>A	c.(385-387)CGG>CAG	p.R129Q	CDCA5_uc001ocp.2_5'Flank	NM_006782	NP_006773	O95159	ZFPL1_HUMAN	zinc finger protein-like 1	129	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|vesicle-mediated transport	Golgi apparatus|integral to membrane|nucleus	DNA binding|zinc ion binding			ovary(1)	1						AACTGGGCCCGGGCAGGACTG	0.647													13	69					0	0	0.001855	0	0		A	64854058	A	A	64854058	3	1	32	1	0	0	0	0	1	0	0	0	17681	1116	39	1	396	1	ZFPL1	11	64854058	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	2106697	64854058	70152458	87	31543											
C11orf2	738	broad.mit.edu	37	chr11	64875710	64875710	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcaggcagagtgcgtggAgctgctgctggccctgggcg	5	6	20	10	2	0	1	0	0	0	1	0	3	0	3	1	5	5	5	1	5	0	0			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr11:64875710A>G	uc001ocr.1	+	5	807	c.767A>G	c.(766-768)GAG>GGG	p.E256G	C11orf2_uc001ocs.1_Missense_Mutation_p.E132G	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	256					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						GAGTGCGTGGAGCTGCTGCTG	0.726													4	12					0	0	0.000602	0	0		G	64875710	G	G	64875710	3	3	32	1	0	0	0	0	1	0	0	0	1636	304	11	3	785	3	C11orf2	11	64875710	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	21652	64875710	70130806	88	31544											
SLC36A4	120103	broad.mit.edu	37	chr11	92918925	92918925	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcttgctcatgttcttcAtctgatgtcccatcaaaatt	9	16	5	11	0	6	1	3	1	3	0	7	1	7	1	1	0	2	3	1	0	2	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr11:92918925A>T	uc001pdn.2	-	2	208	c.111T>A	c.(109-111)GAT>GAA	p.D37E	SLC36A4_uc001pdm.2_5'UTR	NM_152313	NP_689526	Q6YBV0	S36A4_HUMAN	solute carrier family 36 (proton/amino acid	37					L-alanine transport|proline transport|tryptophan transport	integral to membrane	symporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CATGTTCTTCATCTGATGTCC	0.353													13	95					0	0	0.001855	0	0		T	92918925	T	T	92918925	3	4	32	1	0	0	0	0	1	0	0	0	14621	214	8	5	1443	5	SLC36A4	11	92918925	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	28043215	92918925	42087591	89	31545											
GRIK4	2900	broad.mit.edu	37	chr11	120811160	120811160	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaattagcattctttaccgCgttcatatggtaagagactt	11	14	9	7	2	2	1	1	0	1	1	2	3	2	2	1	2	2	3	1	2	5	8			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr11:120811160C>T	uc001pxn.2	+	14	1868	c.1581C>T	c.(1579-1581)CGC>CGT	p.R527R	GRIK4_uc009zav.1_Silent_p.R527R|GRIK4_uc009zaw.1_Silent_p.R527R|GRIK4_uc009zax.1_Silent_p.R527R	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	527	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	TTCTTTACCGCGTTCATATGG	0.393													16	85					0	0	0.006122	0	0		T	120811160	T	T	120811160	2	4	32	1	0	0	0	0	0	0	0	1	6792	755	27	1		1	GRIK4	11	120811160	Silent	SNP	C	TCGA-BR-6457-01A-21D-1800-08	27892235	120811160	14195356	90	31546											
CACNA1C	775	broad.mit.edu	37	chr12	2558239	2558239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaccccaatgcctacctccGcaacggctggaacctactag	10	7	7	17	2	1	0	1	0	0	0	2	1	2	1	6	2	5	2	6	2	6	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr12:2558239G>A	uc009zdu.1	+	4	888	c.575G>A	c.(574-576)CGC>CAC	p.R192H	CACNA1C_uc009zdv.1_Missense_Mutation_p.R192H|CACNA1C_uc001qkb.2_Missense_Mutation_p.R192H|CACNA1C_uc001qkc.2_Missense_Mutation_p.R192H|CACNA1C_uc001qke.2_Missense_Mutation_p.R192H|CACNA1C_uc001qkf.2_Missense_Mutation_p.R192H|CACNA1C_uc001qjz.2_Missense_Mutation_p.R192H|CACNA1C_uc001qkd.2_Missense_Mutation_p.R192H|CACNA1C_uc001qkg.2_Missense_Mutation_p.R192H|CACNA1C_uc009zdw.1_Missense_Mutation_p.R192H|CACNA1C_uc001qkh.2_Missense_Mutation_p.R192H|CACNA1C_uc001qkl.2_Missense_Mutation_p.R192H|CACNA1C_uc001qkn.2_Missense_Mutation_p.R192H|CACNA1C_uc001qko.2_Missense_Mutation_p.R192H|CACNA1C_uc001qkp.2_Missense_Mutation_p.R192H|CACNA1C_uc001qkr.2_Missense_Mutation_p.R192H|CACNA1C_uc001qku.2_Missense_Mutation_p.R192H|CACNA1C_uc001qkq.2_Missense_Mutation_p.R192H|CACNA1C_uc001qks.2_Missense_Mutation_p.R192H|CACNA1C_uc001qkt.2_Missense_Mutation_p.R192H|CACNA1C_uc001qka.1_5'UTR|CACNA1C_uc001qki.1_5'UTR|CACNA1C_uc001qkj.1_5'UTR|CACNA1C_uc001qkk.1_5'UTR|CACNA1C_uc001qkm.1_5'UTR	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	192	I.|Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GCCTACCTCCGCAACGGCTGG	0.378													4	15					0	0	0.000248	0	0		A	2558239	A	A	2558239	3	1	32	1	0	0	0	0	1	0	0	0	2543	1087	38	1	589	1	CACNA1C	12	2558239	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08		2558239	131293656	91	31547											
RIMKLB	57494	broad.mit.edu	37	chr12	8926380	8926380	+	Nonstop_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaactactggtggactgActccactggtaattaaccaa	14	10	7	10	0	1	1	1	1	0	0	2	2	2	2	2	3	3	1	2	3	5	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr12:8926380A>C	uc001quu.2	+	6	1412	c.1161A>C	c.(1159-1161)TGA>TGC	p.*387C	RIMKLB_uc009zgf.1_Intron|RIMKLB_uc001qux.2_Nonstop_Mutation_p.*387C|RIMKLB_uc010sgl.1_Nonstop_Mutation_p.*387C|RIMKLB_uc001quw.2_Intron	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	387					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						TGGTGGACTGACTCCACTGGT	0.453													4	98					0	0	0.000602	0	0		C	8926380	C	C	8926380	4	2	32	1	0	0	0	0	0	0	0	0	13391	288	10	5	1179	5	RIMKLB	12	8926380	Nonstop_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	6368141	8926380	124925515	92	31548											
A2M	2	broad.mit.edu	37	chr12	9231877	9231877	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgccatatcgctccccaaAggtgctgtaggagccatcat	9	9	9	14	1	1	0	1	0	0	0	3	1	2	1	5	2	3	3	5	2	3	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr12:9231877A>C	uc001qvk.1	-	25	3195	c.3082T>G	c.(3082-3084)TTT>GTT	p.F1028V	A2M_uc001qvj.1_Missense_Mutation_p.F70V|A2M_uc009zgk.1_Missense_Mutation_p.F878V	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1028					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	CGCTCCCCAAAGGTGCTGTAG	0.343													5	87					0	0	0.001984	0	0		C	9231877	C	C	9231877	3	2	32	1	0	0	0	0	1	0	0	0	4	72	3	5	1390	5	A2M	12	9231877	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	305497	9231877	124620018	93	31549											
SLCO1B3	28234	broad.mit.edu	37	chr12	21028196	21028196	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaataactcctaaggactCtcgttgggttggagcttggt	9	12	12	8	1	1	1	0	0	1	1	3	3	2	3	1	4	2	3	1	4	3	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr12:21028196C>A	uc001rek.2	+	8	881	c.755C>A	c.(754-756)TCT>TAT	p.S252Y	SLCO1B3_uc001rel.2_Missense_Mutation_p.S252Y|SLCO1B3_uc010sil.1_Missense_Mutation_p.S252Y|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Missense_Mutation_p.S77Y	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	252	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					CCTAAGGACTCTCGTTGGGTT	0.368													26	216					4.22769e-11	6.35536e-11	0.00632	1	0		A	21028196	A	A	21028196	3	1	32	1	0	0	0	0	1	0	0	0	14749	913	32	5	781	5	SLCO1B3	12	21028196	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	11796319	21028196	112823699	94	31550											
SLCO1B3	28234	broad.mit.edu	37	chr12	21051412	21051412	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacttgcaatgggtttccaGtcaatggttataagaacact	12	12	9	8	0	1	1	1	0	0	1	2	1	2	1	1	2	2	4	1	2	5	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr12:21051412G>C	uc001rek.2	+	13	1851	c.1725G>C	c.(1723-1725)CAG>CAC	p.Q575H	SLCO1B3_uc001rel.2_Missense_Mutation_p.Q575H|SLCO1B3_uc010sil.1_Missense_Mutation_p.Q575H|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Missense_Mutation_p.Q400H	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	575	Helical; Name=11; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TGGGTTTCCAGTCAATGGTTA	0.259													12	78					0	0	0.001368	0	0		C	21051412	C	C	21051412	3	2	32	1	0	0	0	0	1	0	0	0	14749	1020	36	5	1771	5	SLCO1B3	12	21051412	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	23216	21051412	112800483	95	31551											
HELB	92797	broad.mit.edu	37	chr12	66725385	66725385	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagcatccaaaagaacctGtggtgtgaatgatgatgaaa	15	8	12	6	1	0	5	0	4	0	1	1	6	1	5	2	1	2	1	2	1	5	0			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr12:66725385G>T	uc001sti.2	+	12	3150	c.3122G>T	c.(3121-3123)TGT>TTT	p.C1041F	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	1041					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		AAAAGAACCTGTGGTGTGAAT	0.393													6	116					0.00116845	0.00160924	0.001168	1	0		T	66725385	T	T	66725385	3	4	32	1	0	0	0	0	1	0	0	0	7061	1377	48	5	3168	5	HELB	12	66725385	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	45673973	66725385	67126510	96	31552											
CLLU1OS	574016	broad.mit.edu	37	chr12	92814941	92814941	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttggaggtaaacttgttaGcaaggccactgagaagagaa	14	9	13	5	0	0	2	0	1	0	2	0	5	0	3	1	3	2	4	1	3	6	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr12:92814941G>A	uc001tcb.1	-	3	153	c.151C>T	c.(151-153)CTA>TTA	p.L51L	CLLU1_uc001tcc.2_5'Flank|CLLU1_uc001tcd.2_5'Flank|CLLU1_uc001tce.1_5'Flank|CLLU1_uc001tcf.2_5'Flank	NM_001025232	NP_001020403	Q5K130	CLU1O_HUMAN	chronic lymphocytic leukemia up-regulated 1	51											0						AAACTTGTTAGCAAGGCCACT	0.413													13	99					0	0	0.001368	0	0		A	92814941	A	A	92814941	2	1	32	1	0	0	0	0	0	0	0	1	3544	962	34	2		2	CLLU1OS	12	92814941	Silent	SNP	G	TCGA-BR-6457-01A-21D-1800-08	26089556	92814941	41036954	97	31553											
ANO4	121601	broad.mit.edu	37	chr12	101520783	101520783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtatgaagcagaactggaaCgtctccagaaggaacgaaag	16	6	12	7	2	1	3	0	1	1	2	2	6	1	5	1	2	4	2	1	2	7	1	rs139827573		TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr12:101520783C>T	uc010svm.1	+	27	3375	c.2803C>T	c.(2803-2805)CGT>TGT	p.R935C	ANO4_uc001thw.2_Missense_Mutation_p.R900C|ANO4_uc001thx.2_Missense_Mutation_p.R935C|ANO4_uc001thy.2_Missense_Mutation_p.R455C	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	935	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						AGAACTGGAACGTCTCCAGAA	0.483										HNSCC(74;0.22)			5	26					0	0	0.001168	0	0		T	101520783	T	T	101520783	3	4	32	1	0	0	0	0	1	0	0	0	699	536	19	1	2796	1	ANO4	12	101520783	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	8705842	101520783	32331112	98	31554											
TPCN1	53373	broad.mit.edu	37	chr12	113704147	113704147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccgccgtccccgcactcCggcttggcatctatgtgagc	4	8	10	19	4	1	1	0	1	1	0	3	1	3	1	6	2	1	3	6	2	1	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr12:113704147C>T	uc001tuw.2	+	4	697	c.400C>T	c.(400-402)CGG>TGG	p.R134W	TPCN1_uc001tux.2_Missense_Mutation_p.R206W|TPCN1_uc010syt.1_Missense_Mutation_p.R66W	NM_017901	NP_060371	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1 isoform 2	134	Extracellular (Potential).					endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated ion channel activity			skin(2)|ovary(1)	3						CCCCGCACTCCGGCTTGGCAT	0.617													47	293					0	0	0.00361	0	0		T	113704147	T	T	113704147	3	4	32	1	0	0	0	0	1	0	0	0	16421	643	23	1	630	1	TPCN1	12	113704147	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	12183364	113704147	20147748	99	31555											
SPG20	23111	broad.mit.edu	37	chr13	36878722	36878722	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagttacgccaacattgaccGcagaatccaccgcatggtgg	11	7	10	13	3	0	2	0	1	0	1	1	2	1	2	4	2	2	3	4	2	3	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr13:36878722G>T	uc001uvn.2	-	10	2051	c.1781C>A	c.(1780-1782)GCG>GAG	p.A594E	SPG20_uc010ten.1_Missense_Mutation_p.A584E|SPG20_uc001uvm.2_Missense_Mutation_p.A594E|SPG20_uc001uvo.2_Missense_Mutation_p.A594E|SPG20_uc001uvq.2_Missense_Mutation_p.A594E	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	594					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		AACATTGACCGCAGAATCCAC	0.388													16	69					2.31682e-05	3.33043e-05	0.003163	1	0		T	36878722	T	T	36878722	3	4	32	1	0	0	0	0	1	0	0	0	15067	1087	38	5	223	5	SPG20	13	36878722	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08		36878722	78291156	100	31556											
SMAD9	4093	broad.mit.edu	37	chr13	37427777	37427777	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcactcacgcactcggCatacacctctcccccgacgt	7	8	7	19	4	3	0	2	0	1	0	5	1	3	0	3	1	1	3	3	1	1	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr13:37427777C>A	uc001uvw.2	-	6	1382	c.1039G>T	c.(1039-1041)GCC>TCC	p.A347S	SMAD9_uc001uvx.2_Missense_Mutation_p.A310S|SMAD9_uc010tep.1_Missense_Mutation_p.A140S	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	347	MH2.				BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		ACGCACTCGGCATACACCTCT	0.557													11	44					0.00185496	0.00253953	0.001855	1	0		A	37427777	A	A	37427777	3	1	32	1	0	0	0	0	1	0	0	0	14789	710	25	5	372	5	SMAD9	13	37427777	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	549055	37427777	77742101	101	31557											
PCDH17	27253	broad.mit.edu	37	chr13	58208453	58208453	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccccacgctgcagaacgaCaccgcggagctgcaggtgcc	8	4	12	17	4	0	1	0	0	0	1	1	3	1	2	4	2	5	4	4	2	1	0			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr13:58208453C>A	uc001vhq.1	+	1	2665	c.1773C>A	c.(1771-1773)GAC>GAA	p.D591E	PCDH17_uc010aec.1_Missense_Mutation_p.D591E	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	591	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TGCAGAACGACACCGCGGAGC	0.667													5	28					0.000602214	0.00083945	0.000602	1	0		A	58208453	A	A	58208453	3	1	32	1	0	0	0	0	1	0	0	0	11531	477	17	5	1775	5	PCDH17	13	58208453	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	20780676	58208453	56961425	102	31558											
GPC6	10082	broad.mit.edu	37	chr13	94938678	94938678	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggacccgatagatgtcaAgatttctgaagccattatga	13	11	9	8	1	2	4	1	2	1	2	2	6	2	5	2	1	1	0	2	1	4	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr13:94938678A>G	uc001vlt.2	+	5	1585	c.953A>G	c.(952-954)AAG>AGG	p.K318R	GPC6_uc010tig.1_Missense_Mutation_p.K318R	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	318						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				ATAGATGTCAAGATTTCTGAA	0.413													11	51					0	0	0.00245	0	0		G	94938678	G	G	94938678	3	3	32	1	0	0	0	0	1	0	0	0	6617	72	3	3	971	3	GPC6	13	94938678	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	36730225	94938678	20231200	103	31559											
ZNF219	51222	broad.mit.edu	37	chr14	21560052	21560052	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggtcgatcttgcctgggcCccagcagcagaggcagagtg	7	6	16	12	2	1	2	0	0	1	2	2	3	1	2	3	3	3	3	3	3	0	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr14:21560052C>G	uc001vzr.2	-	3	1825	c.1404G>C	c.(1402-1404)GGG>GGC	p.G468G	ZNF219_uc001vzs.2_Silent_p.G468G|ZNF219_uc010aik.1_Silent_p.G468G	NM_016423	NP_057507	Q9P2Y4	ZN219_HUMAN	zinc finger protein 219	468					negative regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|histamine receptor activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)	1	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;9.86e-11)|Epithelial(56;1.27e-08)|all cancers(55;6.06e-08)	GBM - Glioblastoma multiforme(265;0.0191)		TTGCCTGGGCCCCAGCAGCAG	0.667													5	31					0	0	0.001168	0	0		G	21560052	G	G	21560052	2	3	32	1	0	0	0	0	0	0	0	1	17798	610	22	5		5	ZNF219	14	21560052	Silent	SNP	C	TCGA-BR-6457-01A-21D-1800-08		21560052	85789488	104	31560											
OR10G2	26534	broad.mit.edu	37	chr14	22102378	22102378	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcggccactaccctgacGtccacaaaggtcacaagctc	10	6	9	16	2	1	1	1	1	0	0	3	1	2	1	3	3	2	1	3	3	3	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr14:22102378G>A	uc010tmc.1	-	1	621	c.621C>T	c.(619-621)GAC>GAT	p.D207D		NM_001005466	NP_001005466	Q8NGC3	O10G2_HUMAN	olfactory receptor, family 10, subfamily G,	207	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(95;0.00113)	Acute lymphoblastic leukemia(2;0.0279)		GBM - Glioblastoma multiforme(265;0.0142)		CTACCCTGACGTCCACAAAGG	0.527													8	50					0	0	0.006214	0	0		A	22102378	A	A	22102378	2	1	32	1	0	0	0	0	0	0	0	1	10918	1136	40	1		1	OR10G2	14	22102378	Silent	SNP	G	TCGA-BR-6457-01A-21D-1800-08	542326	22102378	85247162	105	31561											
FITM1	161247	broad.mit.edu	37	chr14	24601699	24601699	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagtggcgaggctacacCgtctcctcccacaccttcct	7	8	7	19	2	1	0	0	0	1	0	4	1	3	0	6	2	1	1	6	2	1	2	rs139067370		TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr14:24601699C>T	uc001wmf.2	+	2	644	c.546C>T	c.(544-546)ACC>ACT	p.T182T		NM_203402	NP_981947	A5D6W6	FITM1_HUMAN	fat-inducing transcript 1	182	Extracellular (Potential).				lipid particle organization|positive regulation of sequestering of triglyceride	endoplasmic reticulum membrane|integral to membrane					0						GAGGCTACACCGTCTCCTCCC	0.667													10	61					0	0	0.001368	0	0		T	24601699	T	T	24601699	2	4	32	1	0	0	0	0	0	0	0	1	5912	639	23	1		1	FITM1	14	24601699	Silent	SNP	C	TCGA-BR-6457-01A-21D-1800-08	2499321	24601699	82747841	106	31562											
SLC25A21	89874	broad.mit.edu	37	chr14	37180670	37180670	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaatgatttgtcttgcataAcccacagtggatggttgctg	9	15	10	7	0	1	1	0	1	1	0	1	2	1	2	1	2	3	3	1	2	2	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr14:37180670A>C	uc001wtz.1	-	7	766	c.456T>G	c.(454-456)GGT>GGG	p.G152G		NM_030631	NP_085134	Q9BQT8	ODC_HUMAN	solute carrier family 25 (mitochondrial	152	Solcar 2.				lysine catabolic process	integral to membrane|mitochondrial inner membrane	alpha-ketoglutarate transmembrane transporter activity|binding			skin(1)	1	Esophageal squamous(585;0.164)|Breast(36;0.179)|Hepatocellular(127;0.213)		Lung(8;2.16e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.0112)|all cancers(34;0.0274)|LUSC - Lung squamous cell carcinoma(13;0.149)	GBM - Glioblastoma multiforme(112;0.00204)		GTCTTGCATAACCCACAGTGG	0.443													12	71					0	0	0.001368	0	0		C	37180670	C	C	37180670	2	2	32	1	0	0	0	0	0	0	0	1	14509	30	2	5		5	SLC25A21	14	37180670	Silent	SNP	A	TCGA-BR-6457-01A-21D-1800-08	12578971	37180670	70168870	107	31563											
FANCM	57697	broad.mit.edu	37	chr14	45620674	45620674	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatatcccaaatctaacaaaAtatcagataattctggcaag	18	10	5	8	0	3	1	1	0	2	1	4	2	4	1	1	1	1	1	1	1	8	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr14:45620674A>G	uc001wwd.3	+	5	1092	c.993A>G	c.(991-993)AAA>AAG	p.K331K	FANCM_uc001wwc.2_Silent_p.K331K|FANCM_uc010anf.2_Silent_p.K305K	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	331					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						ATCTAACAAAATATCAGATAA	0.303								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				3	66					0	0	0.004672	0	0		G	45620674	G	G	45620674	2	3	32	1	0	0	0	0	0	0	0	1	5685	98	4	3		3	FANCM	14	45620674	Silent	SNP	A	TCGA-BR-6457-01A-21D-1800-08	8440004	45620674	61728866	108	31564											
ZFYVE1	53349	broad.mit.edu	37	chr14	73459882	73459882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagatgactcccgggtgcCggggagaacgggtggtgtta	8	8	18	7	3	0	4	0	2	0	2	1	5	1	4	2	5	2	1	2	5	3	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr14:73459882C>T	uc001xnm.2	-	4	1812	c.1172G>A	c.(1171-1173)CGG>CAG	p.R391Q	ZFYVE1_uc010arj.2_Missense_Mutation_p.R391Q	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	391						endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		TCCCGGGTGCCGGGGAGAACG	0.572													9	69					0	0	0.000673	0	0		T	73459882	T	T	73459882	3	4	32	1	0	0	0	0	1	0	0	0	17688	652	23	1	1197	1	ZFYVE1	14	73459882	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	27839208	73459882	33889658	109	31565											
YLPM1	56252	broad.mit.edu	37	chr14	75248531	75248531	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagttctccccccaccttcCctgtcttctgcagggccacc	4	10	6	21	0	3	0	0	0	3	0	5	0	4	0	8	1	1	2	8	1	0	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr14:75248531C>T	uc001xqj.3	+	4	1909	c.1785C>T	c.(1783-1785)TCC>TCT	p.S595S	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		CCCCACCTTCCCTGTCTTCTG	0.582													14	119					0	0	0.00245	0	0		T	75248531	T	T	75248531	2	4	32	1	0	0	0	0	0	0	0	1	17512	610	22	4		4	YLPM1	14	75248531	Silent	SNP	C	TCGA-BR-6457-01A-21D-1800-08	1788649	75248531	32101009	110	31566											
SLC25A29	123096	broad.mit.edu	37	chr14	100765194	100765194	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaccttgaccgtgtcaaaCgggtgtcccacaagcacgcc	9	7	9	16	3	2	1	2	1	0	0	3	1	3	1	4	1	2	1	4	1	2	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr14:100765194C>T	uc001yha.2	-	2	354	c.63G>A	c.(61-63)CCG>CCA	p.P21P	SLC25A29_uc010twx.1_Intron|SLC25A29_uc010avw.2_Silent_p.P21P	NM_001039355	NP_001034444	Q8N8R3	MCATL_HUMAN	solute carrier family 25, member 29	21	Solcar 1.|Helical; Name=1; (Potential).					integral to membrane|mitochondrial inner membrane	binding			ovary(1)	1		Melanoma(154;0.152)			L-Carnitine(DB00583)	CCGTGTCAAACGGGTGTCCCA	0.597													7	40					0	0	0.00308	0	0		T	100765194	T	T	100765194	2	4	32	1	0	0	0	0	0	0	0	1	14517	523	19	1		1	SLC25A29	14	100765194	Silent	SNP	C	TCGA-BR-6457-01A-21D-1800-08	25516663	100765194	6584346	111	31567											
RYR3	6263	broad.mit.edu	37	chr15	33855184	33855184	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagcacaagacgccaaaacTtcccgcctgggacctctaaa	15	5	7	14	2	1	1	0	0	1	1	2	2	2	2	4	1	2	1	4	1	6	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr15:33855184T>G	uc001zhi.2	+	11	1189	c.1119T>G	c.(1117-1119)ACT>ACG	p.T373T	RYR3_uc010bar.2_Silent_p.T373T	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	373	Cytoplasmic (By similarity).|MIR 5.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		ACGCCAAAACTTCCCGCCTGG	0.453													5	108					0	0	0.001168	0	0		G	33855184	G	G	33855184	2	3	32	1	0	0	0	0	0	0	0	1	13795	1596	56	5		5	RYR3	15	33855184	Silent	SNP	T	TCGA-BR-6457-01A-21D-1800-08		33855184	68676208	112	31568											
DISP2	85455	broad.mit.edu	37	chr15	40661112	40661112	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcagccactggctggcagcGgagctgggcatggcacctcc	6	6	15	14	1	1	0	1	0	0	0	2	1	2	1	3	5	3	5	3	5	0	0	rs140286504	byFrequency	TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr15:40661112G>A	uc001zlk.1	+	8	2888	c.2799G>A	c.(2797-2799)GCG>GCA	p.A933A		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	933					smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		GGCTGGCAGCGGAGCTGGGCA	0.607													20	65					0	0	0.00278	0	0		A	40661112	A	A	40661112	2	1	32	1	0	0	0	0	0	0	0	1	4546	1103	39	1		1	DISP2	15	40661112	Silent	SNP	G	TCGA-BR-6457-01A-21D-1800-08	6805928	40661112	61870280	113	31569											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84690165	84690165	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttttctttctgcagagcCtttttgggagcctggtaact	5	18	10	8	0	2	1	0	0	2	1	2	2	2	2	2	2	4	3	2	2	1	7			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr15:84690165C>A	uc002bjz.3	+	26	4501	c.4277C>A	c.(4276-4278)CCT>CAT	p.P1426H	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.P1426H|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.P1426H	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	1426	TSP type-1 8.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			TCTGCAGAGCCTTTTTGGGAG	0.493													8	216					3.86212e-05	5.48326e-05	0.000673	1	0		A	84690165	A	A	84690165	3	1	32	1	0	0	0	0	1	0	0	0	276	681	24	5	4375	5	ADAMTSL3	15	84690165	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	44029053	84690165	17841227	114	31570											
MCTP2	55784	broad.mit.edu	37	chr15	94983411	94983411	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctttcaatcaggtatttTtgatcactgtctggaatttt	8	20	7	6	0	5	1	3	1	2	0	5	2	5	2	0	2	0	1	0	2	3	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr15:94983411T>G	uc002btj.2	+	17	2157	c.2092T>G	c.(2092-2094)TTG>GTG	p.L698V	MCTP2_uc010boj.2_Missense_Mutation_p.L427V|MCTP2_uc010bok.2_Intron|MCTP2_uc002btl.2_Missense_Mutation_p.L286V	NM_018349	NP_060819	Q6DN12	MCTP2_HUMAN	multiple C2 domains, transmembrane 2 isoform 1	698	Helical; (Potential).				calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(78;0.0821)|all_lung(78;0.148)		BRCA - Breast invasive adenocarcinoma(143;0.0323)|OV - Ovarian serous cystadenocarcinoma(32;0.0593)			TCAGGTATTTTTGATCACTGT	0.378													12	229					0	0	0.001368	0	0		G	94983411	G	G	94983411	3	3	32	1	0	0	0	0	1	0	0	0	9419	1838	64	5	2234	5	MCTP2	15	94983411	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	10293246	94983411	7547981	115	31571											
OR4F15	390649	broad.mit.edu	37	chr15	102358857	102358857	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcattggccttatccactcAttggtccaattagtttttgt	8	18	6	9	0	2	0	2	0	0	0	4	0	4	0	3	2	0	1	3	2	3	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr15:102358857A>C	uc010uts.1	+	1	468	c.468A>C	c.(466-468)TCA>TCC	p.S156S		NM_001001674	NP_001001674	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			TTATCCACTCATTGGTCCAAT	0.418													7	213					0	0	0.001984	0	0		C	102358857	C	C	102358857	2	2	32	1	0	0	0	0	0	0	0	1	11080	204	8	5		5	OR4F15	15	102358857	Silent	SNP	A	TCGA-BR-6457-01A-21D-1800-08	7375446	102358857	172535	116	31572											
AQP8	343	broad.mit.edu	37	chr16	25235898	25235898	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accgtggatatcctggctggGtgagtgtcccttggcagtgg	5	11	16	9	1	0	1	0	1	0	0	2	2	2	2	3	5	0	2	3	5	1	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr16:25235898G>A	uc002doc.2	+	4	684	c.602_splice	c.e4+1	p.G201_splice		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8						cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		TCCTGGCTGGGTGAGTGTCCC	0.512													4	17					0	0	0.000248	0	0		A	25235898	A	A	25235898	5	1	32	1	0	0	0	0	0	0	1	0	832	1275	44	4	617	4	AQP8	16	25235898	Splice_Site	SNP	G	TCGA-BR-6457-01A-21D-1800-08		25235898	65118855	117	31573											
SLC7A6OS	84138	broad.mit.edu	37	chr16	68344764	68344764	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttacaagcgagcacaagAgcctccgccggctccgcact	9	6	10	16	5	0	1	0	0	0	1	2	2	2	1	4	1	4	4	4	1	3	2	rs147089863		TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr16:68344764A>C	uc002evw.1	-	1	85	c.66T>G	c.(64-66)GCT>GCG	p.A22A	PRMT7_uc002evx.1_5'Flank|PRMT7_uc002evy.1_5'Flank|PRMT7_uc010vlg.1_5'Flank	NM_032178	NP_115554	Q96CW6	S7A6O_HUMAN	solute carrier family 7, member 6 opposite	22					protein transport	cytoplasm|nucleus				ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.106)		CGAGCACAAGAGCCTCCGCCG	0.657													4	14					0	0	0.000248	0	0		C	68344764	C	C	68344764	2	2	32	1	0	0	0	0	0	0	0	1	14727	291	11	5		5	SLC7A6OS	16	68344764	Silent	SNP	A	TCGA-BR-6457-01A-21D-1800-08	43108866	68344764	22009989	118	31574											
COG8	84342	broad.mit.edu	37	chr16	69366758	69366758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaggcagcctcttcagcgcGatggaaggccaggattattt	10	9	13	9	2	2	0	1	0	1	0	2	4	2	2	2	4	2	1	2	4	3	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr16:69366758G>A	uc002ewy.2	-	4	1512	c.1441C>T	c.(1441-1443)CGC>TGC	p.R481C	PDF_uc002ewx.1_5'Flank|COG8_uc002ewz.3_Missense_Mutation_p.R481C	NM_032382	NP_115758	Q96MW5	COG8_HUMAN	component of oligomeric golgi complex 8	481					protein transport	Golgi membrane|Golgi transport complex				ovary(1)	1						TCTTCAGCGCGATGGAAGGCC	0.507													4	64					0	0	0.000248	0	0		A	69366758	A	A	69366758	3	1	32	1	0	0	0	0	1	0	0	0	3667	1058	37	1	405	1	COG8	16	69366758	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	1021994	69366758	20987995	119	31575											
GLG1	2734	broad.mit.edu	37	chr16	74487204	74487204	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgtcattacttgcatggcaAgatcagagaagccatctgct	12	10	9	10	1	3	2	2	0	1	2	3	3	3	2	1	1	4	3	1	1	3	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr16:74487204A>T	uc002fcy.3	-	26	3451	c.3401T>A	c.(3400-3402)CTT>CAT	p.L1134H	GLG1_uc002fcx.2_Missense_Mutation_p.L1134H|GLG1_uc002fcw.3_Missense_Mutation_p.L1123H|GLG1_uc002fcz.3_Missense_Mutation_p.L551H	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	1134	Extracellular (Potential).					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						TTGCATGGCAAGATCAGAGAA	0.488													5	54					0	0	0.000602	0	0		T	74487204	T	T	74487204	3	4	32	1	0	0	0	0	1	0	0	0	6451	72	3	5	222	5	GLG1	16	74487204	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	5120446	74487204	15867549	120	31576											
TP53	7157	broad.mit.edu	37	chr17	7577022	7577022	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtcctgcttgcttacctcGcttagtgctccctgggggca	3	14	11	13	1	0	0	0	0	0	0	3	0	2	0	3	2	4	5	3	2	2	4	rs121913344		TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr17:7577022G>A	uc002gim.2	-	8	1110	c.916C>T	c.(916-918)CGA>TGA	p.R306*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.R306*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R174*|TP53_uc010cng.1_Nonsense_Mutation_p.R174*|TP53_uc002gii.1_Nonsense_Mutation_p.R174*|TP53_uc010cnh.1_Nonsense_Mutation_p.R306*|TP53_uc010cni.1_Nonsense_Mutation_p.R306*|TP53_uc002gij.2_Nonsense_Mutation_p.R306*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	306	Bipartite nuclear localization signal.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.		R -> Q (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R306*(99)|p.0?(7)|p.?(3)|p.R306R(2)|p.R306fs*39(2)|p.K305fs*1(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TGCTTACCTCGCTTAGTGCTC	0.562	R306*(MFE296_ENDOMETRIUM)|R306*(HCC1937_BREAST)|R306*(MOLT4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R306*(RCM1_LARGE_INTESTINE)|R306*(JURLMK1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			15	73					0	0	0.00499	0	0		A	7577022	A	A	7577022	4	1	32	1	0	0	0	0	0	1	0	0	16407	1095	38	1	370	1	TP53	17	7577022	Nonsense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08		7577022	73618188	121	31577											
CYB5D1	124637	broad.mit.edu	37	chr17	7762832	7762832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggaagagaatgggatcCgggatgaggaggaagaattt	13	7	16	5	1	0	3	0	1	0	2	1	9	1	8	2	5	0	0	2	5	4	1	rs62059715	byFrequency	TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr17:7762832C>T	uc002gjb.3	+	4	978	c.589C>T	c.(589-591)CGG>TGG	p.R197W	LSMD1_uc002giz.2_5'Flank|LSMD1_uc002gja.2_5'Flank|CYB5D1_uc010cnn.1_3'UTR	NM_144607	NP_653208	Q6P9G0	CB5D1_HUMAN	cytochrome b5 domain containing 1	197							heme binding			skin(1)	1		all_cancers(10;0.11)|Prostate(122;0.219)				GAATGGGATCCGGGATGAGGA	0.463													5	102					0	0	0.000602	0	0		T	7762832	T	T	7762832	3	4	32	1	0	0	0	0	1	0	0	0	4127	643	23	1	603	1	CYB5D1	17	7762832	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	185810	7762832	73432378	122	31578											
KRT28	162605	broad.mit.edu	37	chr17	38953225	38953225	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagggtgcgcctcatctcGgtgagctggctccgggcgaa	5	8	16	12	4	2	1	1	1	1	0	4	2	3	1	2	4	3	3	2	4	1	0			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr17:38953225G>A	uc002hvh.1	-	5	987	c.921C>T	c.(919-921)ACC>ACT	p.T307T		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	307	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				GCCTCATCTCGGTGAGCTGGC	0.617													5	84					0	0	0.001168	0	0		A	38953225	A	A	38953225	2	1	32	1	0	0	0	0	0	0	0	1	8481	1103	39	1		1	KRT28	17	38953225	Silent	SNP	G	TCGA-BR-6457-01A-21D-1800-08	31190393	38953225	42241985	123	31579											
STAT3	6774	broad.mit.edu	37	chr17	40485746	40485746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgaggggccggtcaggatGcatgggcatgcagggctgcc	7	5	19	10	2	1	0	1	0	0	0	1	3	1	1	2	6	3	4	2	6	0	0			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr17:40485746G>A	uc002hzl.1	-	10	1234	c.994C>T	c.(994-996)CAT>TAT	p.H332Y	STAT3_uc002hzk.1_Missense_Mutation_p.H332Y|STAT3_uc002hzm.1_Missense_Mutation_p.H332Y|STAT3_uc010wgh.1_Missense_Mutation_p.H234Y|STAT3_uc002hzn.1_Missense_Mutation_p.H332Y	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	332					cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		CGGTCAGGATGCATGGGCATG	0.577									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				5	70					0	0	0.001168	0	0		A	40485746	A	A	40485746	3	1	32	1	0	0	0	0	1	0	0	0	15291	1319	46	2	1378	2	STAT3	17	40485746	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	1532521	40485746	40709464	124	31580											
ACBD4	79777	broad.mit.edu	37	chr17	43213915	43213915	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcgattctacagttactAcaagcaggccaccatggggc	10	8	11	12	1	1	0	0	0	1	0	1	1	1	0	2	3	5	3	2	3	4	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr17:43213915A>G	uc002iid.2	+	3	481	c.137A>G	c.(136-138)TAC>TGC	p.Y46C	ACBD4_uc010wjj.1_Missense_Mutation_p.Y46C|ACBD4_uc002iie.2_Missense_Mutation_p.Y46C|ACBD4_uc002iif.2_Missense_Mutation_p.Y46C|ACBD4_uc002iic.2_Missense_Mutation_p.Y46C|ACBD4_uc010dae.2_5'UTR	NM_001135707	NP_001129179	Q8NC06	ACBD4_HUMAN	acyl-Coenzyme A binding domain containing 4	46	ACB.						fatty-acyl-CoA binding			ovary(1)|kidney(1)	2						TACAGTTACTACAAGCAGGCC	0.602													23	100					0	0	0.00278	0	0		G	43213915	G	G	43213915	3	3	32	1	0	0	0	0	1	0	0	0	124	391	14	3	143	3	ACBD4	17	43213915	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08	2728169	43213915	37981295	125	31581											
GPRC5C	55890	broad.mit.edu	37	chr17	72436661	72436661	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctttgtgctcctcaccaCagccacctccgttgccatat	6	12	7	16	1	2	0	1	0	1	0	4	0	4	0	6	1	3	2	6	1	1	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr17:72436661C>A	uc002jks.2	+	1	785	c.746C>A	c.(745-747)ACA>AAA	p.T249K	GPRC5C_uc002jkp.2_Missense_Mutation_p.T294K|GPRC5C_uc002jkq.2_Intron|GPRC5C_uc002jkr.2_Missense_Mutation_p.T261K|GPRC5C_uc002jkt.2_Missense_Mutation_p.T249K|GPRC5C_uc002jku.2_5'Flank	NM_018653	NP_061123	Q9NQ84	GPC5C_HUMAN	G protein-coupled receptor family C, group 5,	249	Helical; Name=6; (Potential).					cytoplasmic vesicle membrane|integral to plasma membrane	G-protein coupled receptor activity|protein binding			ovary(2)|prostate(1)|central_nervous_system(1)|pancreas(1)	5						CTCCTCACCACAGCCACCTCC	0.617													8	51					1.12685e-05	1.64035e-05	0.004482	1	0		A	72436661	A	A	72436661	3	1	32	1	0	0	0	0	1	0	0	0	6742	478	17	5	895	5	GPRC5C	17	72436661	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	29222746	72436661	8758549	126	31582											
DSEL	92126	broad.mit.edu	37	chr18	65180695	65180695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgtattcagtgtgaagaGtactccacctttgggcagtt	10	13	11	7	0	1	3	1	1	0	2	2	3	2	3	2	1	1	4	2	1	3	5			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr18:65180695G>A	uc002lke.1	-	2	2405	c.1181C>T	c.(1180-1182)ACT>ATT	p.T394I		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	384						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				AGTGTGAAGAGTACTCCACCT	0.458													10	64					0	0	0.000978	0	0		A	65180695	A	A	65180695	3	1	32	1	0	0	0	0	1	0	0	0	4781	1029	36	4	2491	4	DSEL	18	65180695	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08		65180695	12896553	127	31583											
MUC16	94025	broad.mit.edu	37	chr19	9047473	9047473	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttggaaaatctgaagtggcTtctgccccaggactggtggc	8	10	14	9	0	2	1	0	1	2	0	2	3	2	3	2	5	1	2	2	5	3	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr19:9047473T>G	uc002mkp.2	-	5	34362	c.34158A>C	c.(34156-34158)GAA>GAC	p.E11386D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11388	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGAAGTGGCTTCTGCCCCAG	0.468													29	159					0	0	0.007291	0	0		G	9047473	G	G	9047473	3	3	32	1	0	0	0	0	1	0	0	0	9991	1606	56	5	9685	5	MUC16	19	9047473	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08		9047473	50081510	128	31584											
CDC37	11140	broad.mit.edu	37	chr19	10505732	10505732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaactgccggaagcaggcccGggggtccacctttaggctct	7	7	14	13	2	1	0	0	0	1	0	2	2	2	1	4	5	3	2	4	5	3	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr19:10505732G>A	uc002mof.1	-	5	807	c.691C>T	c.(691-693)CGG>TGG	p.R231W	CDC37_uc002moe.1_Missense_Mutation_p.R186W|CDC37_uc010dxf.1_Missense_Mutation_p.R68W|CDC37_uc002mog.1_Intron|CDC37_uc002moh.2_Missense_Mutation_p.R231W	NM_007065	NP_008996	Q16543	CDC37_HUMAN	cell division cycle 37 protein	231					protein targeting|regulation of cyclin-dependent protein kinase activity|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway		unfolded protein binding				0			OV - Ovarian serous cystadenocarcinoma(20;4.65e-10)|Epithelial(33;6.48e-07)|all cancers(31;2.31e-06)	GBM - Glioblastoma multiforme(1328;0.0318)		AAGCAGGCCCGGGGGTCCACC	0.582													5	94					0	0	0.001168	0	0		A	10505732	A	A	10505732	3	1	32	1	0	0	0	0	1	0	0	0	3071	1115	39	1	461	1	CDC37	19	10505732	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	1458259	10505732	48623251	129	31585											
CPAMD8	27151	broad.mit.edu	37	chr19	17008738	17008738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacggagactggcagcgccGacgtcctgcccaccacgcac	9	3	11	18	5	0	1	0	0	0	1	1	3	1	1	4	2	2	2	4	2	0	0			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr19:17008738G>A	uc002nfb.2	-	38	5089	c.5057C>T	c.(5056-5058)TCG>TTG	p.S1686L	CPAMD8_uc010xpj.1_5'Flank|CPAMD8_uc002nfd.1_Missense_Mutation_p.S151L	NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1639						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						TGGCAGCGCCGACGTCCTGCC	0.587													4	22					0	0	0.000248	0	0		A	17008738	A	A	17008738	3	1	32	1	0	0	0	0	1	0	0	0	3798	1059	37	1	761	1	CPAMD8	19	17008738	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	6503006	17008738	42120245	130	31586											
DDX49	54555	broad.mit.edu	37	chr19	19035507	19035507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcaacagacgtggcctccCggtgagcagcccccagtctc	7	6	11	17	3	1	2	0	1	1	1	4	2	2	2	4	2	3	2	4	2	1	0			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr19:19035507C>T	uc002nkq.1	+	8	985	c.928C>T	c.(928-930)CGG>TGG	p.R310W	HOMER3_uc002nko.1_Intron|HOMER3_uc002nkp.1_Intron|DDX49_uc002nkr.1_RNA|DDX49_uc002nks.1_Missense_Mutation_p.R203W|DDX49_uc002nkt.1_Missense_Mutation_p.R192W	NM_019070	NP_061943	Q9Y6V7	DDX49_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 49	310	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			Epithelial(12;0.0289)			CGTGGCCTCCCGGTGAGCAGC	0.577													9	60					0	0	0.004482	0	0		T	19035507	T	T	19035507	3	4	32	1	0	0	0	0	1	0	0	0	4369	666	23	1	958	1	DDX49	19	19035507	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	2026769	19035507	40093476	131	31587											
C19orf2	8725	broad.mit.edu	37	chr19	30502064	30502064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaagaaagaagaagccaaaCgtaaacgaaagaacagcact	24	2	8	7	2	0	4	0	0	0	4	0	5	0	4	1	0	5	2	1	0	10	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr19:30502064C>T	uc002nsr.2	+	9	1129	c.1099C>T	c.(1099-1101)CGT>TGT	p.R367C	C19orf2_uc002nsq.2_Missense_Mutation_p.R349C|C19orf2_uc002nss.2_Missense_Mutation_p.R327C|C19orf2_uc002nst.2_Missense_Mutation_p.R291C	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	367					protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		AGAAGCCAAACGTAAACGAAA	0.453													15	133					0	0	0.003163	0	0		T	30502064	T	T	30502064	3	4	32	1	0	0	0	0	1	0	0	0	1914	536	19	1	1133	1	C19orf2	19	30502064	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	11466557	30502064	28626919	132	31588											
ZNF568	374900	broad.mit.edu	37	chr19	37440970	37440970	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcatactggggagaaaccTtatgcatgtaaggattgttg	12	13	11	5	0	1	1	1	0	0	1	1	3	1	2	1	3	3	3	1	3	4	6			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr19:37440970T>G	uc002ofc.2	+	7	1430	c.915T>G	c.(913-915)CCT>CCG	p.P305P	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Silent_p.P229P|ZNF568_uc010efe.2_Silent_p.P229P|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	305					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GGGAGAAACCTTATGCATGTA	0.378													4	54					0	0	0.000602	0	0		G	37440970	G	G	37440970	2	3	32	1	0	0	0	0	0	0	0	1	18024	1596	56	5		5	ZNF568	19	37440970	Silent	SNP	T	TCGA-BR-6457-01A-21D-1800-08	6938906	37440970	21688013	133	31589											
LYPD4	147719	broad.mit.edu	37	chr19	42343074	42343074	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatcttgaggctgttgctTcatagcacaaaagagctcca	12	11	9	9	0	2	3	1	2	1	1	3	3	3	3	1	1	3	5	1	1	4	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr19:42343074T>C	uc002orp.1	-	3	1076	c.92A>G	c.(91-93)GAA>GGA	p.E31G	LYPD4_uc002orq.1_Intron	NM_173506	NP_775777	Q6UWN0	LYPD4_HUMAN	LY6/PLAUR domain containing 4 precursor	31						anchored to membrane|plasma membrane				ovary(1)	1						GGCTGTTGCTTCATAGCACAA	0.502													12	130					0	0	0.000978	0	0		C	42343074	C	C	42343074	3	2	32	1	0	0	0	0	1	0	0	0	9130	1783	62	3	660	3	LYPD4	19	42343074	Missense_Mutation	SNP	T	TCGA-BR-6457-01A-21D-1800-08	4902104	42343074	16785909	134	31590											
ATP1A3	478	broad.mit.edu	37	chr19	42471430	42471430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctgcgcaggatgagtttgCggatttcgtcgtagacgaag	8	11	14	8	5	0	2	0	1	0	1	3	5	1	4	1	2	2	3	1	2	2	3			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr19:42471430C>T	uc002osg.2	-	22	3138	c.2984G>A	c.(2983-2985)CGC>CAC	p.R995H	ATP1A3_uc010xwf.1_Missense_Mutation_p.R1006H|ATP1A3_uc010xwg.1_Missense_Mutation_p.R965H|ATP1A3_uc010xwh.1_Missense_Mutation_p.R1008H|ATP1A3_uc002osh.2_Missense_Mutation_p.R995H	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	995	Helical; (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						GATGAGTTTGCGGATTTCGTC	0.662													5	56					0	0	0.000602	0	0		T	42471430	T	T	42471430	3	4	32	1	0	0	0	0	1	0	0	0	1131	768	27	1	65	1	ATP1A3	19	42471430	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	128356	42471430	16657553	135	31591											
PSG1	5669	broad.mit.edu	37	chr19	43348747	43348747	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgaatgaagggtaaattCtggggaggtctggaccatct	11	10	15	5	0	3	2	0	2	3	0	3	4	3	4	1	6	0	1	1	6	4	2			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr19:43348747C>A	uc002oux.1	-	5	1198	c.1049G>T	c.(1048-1050)AGA>ATA	p.R350I	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG8_uc002ouj.3_Intron|PSG8_uc002ouk.3_Intron|PSG8_uc002oul.3_Intron|PSG8_uc002oum.3_Intron|PSG1_uc002oun.2_RNA|PSG8_uc002oup.3_Intron|PSG10_uc010eip.2_RNA|PSG1_uc002our.1_Intron|PSG1_uc010eio.1_Intron|PSG1_uc002ouy.1_Missense_Mutation_p.R328I	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	336	Ig-like C2-type 3.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				AGGGTAAATTCTGGGGAGGTC	0.483													24	209					2.79863e-10	4.15281e-10	0.004656	1	0		A	43348747	A	A	43348747	3	1	32	1	0	0	0	0	1	0	0	0	12675	928	32	5		5	PSG1	19	43348747	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	877317	43348747	15780236	136	31592											
ZNF813	126017	broad.mit.edu	37	chr19	53995030	53995030	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccttgcatgtcatcataGacttcatactggagagaaac	14	10	7	10	0	3	2	3	0	0	2	3	4	3	3	1	1	3	1	1	1	3	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr19:53995030G>T	uc002qbu.2	+	4	1672	c.1544G>T	c.(1543-1545)AGA>ATA	p.R515I	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	515	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		TGTCATCATAGACTTCATACT	0.383													4	56					0.00024832	0.00035039	0.000248	1	0		T	53995030	T	T	53995030	3	4	32	1	0	0	0	0	1	0	0	0	18200	942	33	5	1554	5	ZNF813	19	53995030	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	10646283	53995030	5133953	137	31593											
LILRA3	11026	broad.mit.edu	37	chr19	54803095	54803095	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcataaccatagcacctgtaCgaccacctgcgacttgggct	10	9	8	14	2	1	0	1	0	0	0	1	2	1	0	4	1	4	3	4	1	3	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr19:54803095C>T	uc002qfd.2	-	4	647	c.582G>A	c.(580-582)TCG>TCA	p.S194S	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Intron	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	194	Ig-like C2-type 2.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		AGCACCTGTACGACCACCTGC	0.587													20	124					0	0	0.007413	0	0		T	54803095	T	T	54803095	2	4	32	1	0	0	0	0	0	0	0	1	8802	523	19	1		1	LILRA3	19	54803095	Silent	SNP	C	TCGA-BR-6457-01A-21D-1800-08	808065	54803095	4325888	138	31594											
ZNF471	57573	broad.mit.edu	37	chr19	57036519	57036519	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaggtataacacatctttTattcgtcactggaggagtta	11	16	8	6	1	2	0	1	0	1	0	3	2	2	2	0	3	1	2	0	3	5	8			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr19:57036519T>C	uc002qnh.2	+	5	1216	c.1083T>C	c.(1081-1083)TTT>TTC	p.F361F		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	361	C2H2-type 6.		F -> C (in a colorectal cancer sample; somatic mutation).		regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	p.F361C(1)		large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		ACACATCTTTTATTCGTCACT	0.418													4	128					0	0	0.000248	0	0		C	57036519	C	C	57036519	2	2	32	1	0	0	0	0	0	0	0	1	17955	1751	61	3		3	ZNF471	19	57036519	Silent	SNP	T	TCGA-BR-6457-01A-21D-1800-08	2233424	57036519	2092464	139	31595											
FAM113A	64773	broad.mit.edu	37	chr20	2818920	2818920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagctccacgccccaggcgtCagccacatgggtcagaagca	10	4	11	16	2	2	1	2	0	0	1	3	1	3	1	4	2	3	2	4	2	1	0			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr20:2818920C>T	uc002wgz.1	-	6	1296	c.799G>A	c.(799-801)GAC>AAC	p.D267N	FAM113A_uc002whb.1_Missense_Mutation_p.D118N|FAM113A_uc002wha.1_Missense_Mutation_p.D118N|FAM113A_uc010zqa.1_Missense_Mutation_p.D114N|FAM113A_uc002whc.1_Missense_Mutation_p.D216N|VPS16_uc002whe.2_5'Flank|VPS16_uc002whf.2_5'Flank|VPS16_uc002whd.2_5'Flank	NM_022760	NP_073597	Q9H1Q7	F113A_HUMAN	hypothetical protein LOC64773	267							hydrolase activity|protein binding			ovary(2)	2						CCCCAGGCGTCAGCCACATGG	0.637													10	85					0	0	0.000978	0	0		T	2818920	T	T	2818920	3	4	32	1	0	0	0	0	1	0	0	0	5412	826	29	4	577	4	FAM113A	20	2818920	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08		2818920	60206600	140	31596											
C20orf3	57136	broad.mit.edu	37	chr20	24954292	24954292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaacttactgcaagggcccGaaccaaaccgggcaatggtc	12	5	10	14	2	0	0	0	0	0	0	1	1	0	0	4	3	5	2	4	3	6	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr20:24954292G>A	uc002wty.2	-	4	511	c.410C>T	c.(409-411)TCG>TTG	p.S137L	C20orf3_uc002wtz.2_Missense_Mutation_p.S137L|C20orf3_uc010zsw.1_Missense_Mutation_p.S137L	NM_020531	NP_065392	Q9HDC9	APMAP_HUMAN	chromosome 20 open reading frame 3	137	Extracellular (Potential).				biosynthetic process	cell surface|integral to membrane	arylesterase activity|strictosidine synthase activity			ovary(1)	1						GCAAGGGCCCGAACCAAACCG	0.443													7	61					0	0	0.004482	0	0		A	24954292	A	A	24954292	3	1	32	1	0	0	0	0	1	0	0	0	2112	1059	37	1	864	1	C20orf3	20	24954292	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08	22135372	24954292	38071228	141	31597											
MYBL2	4605	broad.mit.edu	37	chr20	42344707	42344707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaagcccagccacacatctCggaccctcatcttgtcctga	9	9	7	16	1	3	2	1	2	2	0	5	3	4	3	4	1	2	0	4	1	1	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr20:42344707C>T	uc002xlb.1	+	14	2298	c.2083C>T	c.(2083-2085)CGG>TGG	p.R695W	MYBL2_uc010zwj.1_Missense_Mutation_p.R671W	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	695						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			CCACACATCTCGGACCCTCAT	0.607													25	202					0	0	0.003954	0	0		T	42344707	T	T	42344707	3	4	32	1	0	0	0	0	1	0	0	0	10028	875	31	1	2137	1	MYBL2	20	42344707	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	17390415	42344707	20680813	142	31598											
EEF1A2	1917	broad.mit.edu	37	chr20	62126325	62126325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggagtccattttgttcaCgcccacgatgagctgcttca	7	13	10	11	2	2	1	2	1	0	0	3	3	3	2	2	1	2	3	2	1	0	4			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr20:62126325C>T	uc002yfd.1	-	3	555	c.454G>A	c.(454-456)GTG>ATG	p.V152M	EEF1A2_uc002yfe.1_Missense_Mutation_p.V152M|EEF1A2_uc010gkg.1_Missense_Mutation_p.V152M	NM_001958	NP_001949	Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha	152						nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			ATTTTGTTCACGCCCACGATG	0.607													10	92					0	0	0.000673	0	0		T	62126325	T	T	62126325	3	4	32	1	0	0	0	0	1	0	0	0	4930	536	19	1	957	1	EEF1A2	20	62126325	Missense_Mutation	SNP	C	TCGA-BR-6457-01A-21D-1800-08	19781618	62126325	899195	143	31599											
ZDHHC8	29801	broad.mit.edu	37	chr22	20130417	20130417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccatccccaccgctcagcGcctctgatgccttctcgggc	4	8	9	20	4	3	1	1	1	2	0	5	1	4	1	6	1	2	1	6	1	0	1			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chr22:20130417G>A	uc002zrq.2	+	10	1370	c.1264G>A	c.(1264-1266)GCC>ACC	p.A422T	ZDHHC8_uc002zrr.1_Missense_Mutation_p.A422T|ZDHHC8_uc010gsa.2_Missense_Mutation_p.A228T	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	422	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					ACCGCTCAGCGCCTCTGATGC	0.692													6	17					0	0	0.001168	0	0		A	20130417	A	A	20130417	3	1	32	1	0	0	0	0	1	0	0	0	17646	1087	38	1	1302	1	ZDHHC8	22	20130417	Missense_Mutation	SNP	G	TCGA-BR-6457-01A-21D-1800-08		20130417	31174149	144	31600											
TAF9B	51616	broad.mit.edu	37	chrX	77393257	77393257	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcttacctttttaattaAggacttcagcctatagtttg	10	19	5	7	0	2	0	1	0	1	0	2	1	2	1	2	1	2	1	2	1	5	10			TCGA-BR-6457-01A-21D-1800-08	TCGA-BR-6457-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a79bb4ec-4479-4a1f-97c6-fe1b0a99c2f6	21e4f58c-1f7a-4a48-9a90-c9fb18055b43	g.chrX:77393257A>T	uc004eda.2	-	4	465	c.394T>A	c.(394-396)TTA>ATA	p.L132I		NM_015975	NP_057059	Q9HBM6	TAF9B_HUMAN	transcription associated factor 9B	132					negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell growth|transcription initiation, DNA-dependent	transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding				0						TTTTTAATTAAGGACTTCAGC	0.363													13	64					0	0	0.00245	0	0		T	77393257	T	T	77393257	3	4	32	1	0	0	0	0	1	0	0	0	15561	69	3	5	377	5	TAF9B	23	77393257	Missense_Mutation	SNP	A	TCGA-BR-6457-01A-21D-1800-08		77393257	77877303	145	31601											
C1orf144	26099	broad.mit.edu	37	chr1	16719932	16719932	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcccggaagcggatcctggGcagcgccagccccgaggagg	7	2	18	14	4	0	0	0	0	0	0	1	4	1	3	5	6	3	1	5	6	1	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:16719932G>C	uc001aym.3	+	3	481	c.311G>C	c.(310-312)GGC>GCC	p.G104A	C1orf144_uc010ocb.1_Missense_Mutation_p.G84A|C1orf144_uc001ayi.3_Missense_Mutation_p.G85A|C1orf144_uc001ayk.3_Missense_Mutation_p.G84A	NM_001114600	NP_001108072	Q7Z422	CA144_HUMAN	putative MAPK activating protein PM20,PM21	104											0		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00475)|all_lung(284;0.00671)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(227;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;4.12e-05)|Kidney(64;0.00018)|KIRC - Kidney renal clear cell carcinoma(64;0.00267)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		CGGATCCTGGGCAGCGCCAGC	0.677													4	23					0	0	0.000602	0	0		C	16719932	C	C	16719932	3	2	33	1	0	0	0	0	1	0	0	0	2005	1203	42	5	321	5	C1orf144	1	16719932	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08		16719932	232530689	1	31602											
CSMD2	114784	broad.mit.edu	37	chr1	34238265	34238265	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcgggctggcactcaaacTtgagtgtgtcaccgtggtga	8	9	15	9	2	2	2	2	2	0	0	2	2	2	2	1	4	1	2	1	4	1	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:34238265T>G	uc001bxn.1	-	13	1660	c.1631A>C	c.(1630-1632)AAG>ACG	p.K544T	CSMD2_uc001bxm.1_Missense_Mutation_p.K584T	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	544	Sushi 3.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GCACTCAAACTTGAGTGTGTC	0.557													23	79					0	0	0.012319	0	0		G	34238265	G	G	34238265	3	3	33	1	0	0	0	0	1	0	0	0	3948	1609	56	5	9060	5	CSMD2	1	34238265	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	17518333	34238265	215012356	2	31603											
GJA9	81025	broad.mit.edu	37	chr1	39341098	39341098	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaatttcaagaatgtttaAgaaaagtgaaatagtggcta	19	11	9	2	0	1	3	1	1	0	2	1	4	1	3	0	1	0	2	0	1	10	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:39341098A>C	uc001cct.1	-	2	954	c.673T>G	c.(673-675)TTA>GTA	p.L225V	RRAGC_uc001ccr.2_5'Flank|MYCBP_uc001ccs.2_5'Flank	NM_030772	NP_110399	P57773	CXA9_HUMAN	gap junction protein, alpha 9, 59kDa	225	Helical; (Potential).				cell communication	connexon complex|integral to membrane					0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			AGAATGTTTAAGAAAAGTGAA	0.328													9	94					0	0	0.006214	0	0		C	39341098	C	C	39341098	3	2	33	1	0	0	0	0	1	0	0	0	6421	69	3	5	878	5	GJA9	1	39341098	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	5102833	39341098	209909523	3	31604											
RLF	6018	broad.mit.edu	37	chr1	40704945	40704945	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtggcttaatcaaagaaaAgaaagccccaataagtttta	18	10	7	6	0	1	2	1	0	0	2	1	2	1	2	2	1	1	2	2	1	8	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:40704945A>C	uc001cfc.3	+	8	4602	c.4571A>C	c.(4570-4572)AAG>ACG	p.K1524T	RLF_uc001cfd.3_Missense_Mutation_p.K1215T	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	1524					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			ATCAAAGAAAAGAAAGCCCCA	0.433													27	248					0	0	0.00632	0	0		C	40704945	C	C	40704945	3	2	33	1	0	0	0	0	1	0	0	0	13414	72	3	5	4601	5	RLF	1	40704945	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1363847	40704945	208545676	4	31605											
RLF	6018	broad.mit.edu	37	chr1	40705056	40705056	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggatgcttatctgtggtgaAgttggagagcagcattgtga	10	12	15	4	0	1	3	0	2	1	1	1	5	1	4	0	3	3	4	0	3	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:40705056A>C	uc001cfc.3	+	8	4713	c.4682A>C	c.(4681-4683)AAG>ACG	p.K1561T	RLF_uc001cfd.3_Missense_Mutation_p.K1252T	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	1561	C2H2-type 14.				chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			TCTGTGGTGAAGTTGGAGAGC	0.453													24	236					0	0	0.00278	0	0		C	40705056	C	C	40705056	3	2	33	1	0	0	0	0	1	0	0	0	13414	72	3	5	4712	5	RLF	1	40705056	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	111	40705056	208545565	5	31606											
PGM1	5236	broad.mit.edu	37	chr1	64097413	64097413	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgaaagaactactttctggGccaaaccgactgaagatccg	13	8	9	11	2	1	4	0	2	1	2	2	5	2	4	3	1	3	0	3	1	5	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:64097413G>A	uc001dbh.2	+	4	855	c.642G>A	c.(640-642)GGG>GGA	p.G214G	PGM1_uc010ooy.1_Silent_p.G17G|PGM1_uc010ooz.1_Silent_p.G232G	NM_002633	NP_002624	P36871	PGM1_HUMAN	phosphoglucomutase 1	214					cellular calcium ion homeostasis|galactose catabolic process|glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity			ovary(2)|kidney(1)	3						TACTTTCTGGGCCAAACCGAC	0.418													4	147					0	0	0.000602	0	0		A	64097413	A	A	64097413	2	1	33	1	0	0	0	0	0	0	0	1	11816	1190	42	2		2	PGM1	1	64097413	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	23392357	64097413	185153208	6	31607											
COL24A1	255631	broad.mit.edu	37	chr1	86590762	86590762	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttgcatttccatgagttcGttagtgtgtagatttgctgt	6	18	12	5	1	0	2	0	1	0	1	2	2	1	2	1	1	2	6	1	1	2	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:86590762G>A	uc001dlj.2	-	3	1299	c.1257C>T	c.(1255-1257)AAC>AAT	p.N419N	COL24A1_uc010osd.1_Translation_Start_Site|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Silent_p.N419N	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	419					cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		CCATGAGTTCGTTAGTGTGTA	0.363													13	55					0	0	0.001855	0	0		A	86590762	A	A	86590762	2	1	33	1	0	0	0	0	0	0	0	1	3686	1136	40	1		1	COL24A1	1	86590762	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	22493349	86590762	162659859	7	31608											
GBP4	115361	broad.mit.edu	37	chr1	89657186	89657186	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattttgaattttgggattcTtgcctgtggaattgtaaaaa	12	17	9	3	0	1	1	0	1	1	0	1	3	1	3	1	2	1	1	1	2	6	8			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:89657186T>C	uc001dnb.2	-	6	790	c.674A>G	c.(673-675)AAG>AGG	p.K225R		NM_052941	NP_443173	Q96PP9	GBP4_HUMAN	guanylate binding protein 4	225						cytoplasm	GTP binding|GTPase activity				0				all cancers(265;0.00723)|Epithelial(280;0.0291)		TTTGGGATTCTTGCCTGTGGA	0.473													10	40					0	0	0.013537	0	0		C	89657186	C	C	89657186	3	2	33	1	0	0	0	0	1	0	0	0	6291	1609	56	3	1272	3	GBP4	1	89657186	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	3066424	89657186	159593435	8	31609											
CCDC18	343099	broad.mit.edu	37	chr1	93705450	93705450	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaggatctcacagctgaacTtaggtgagttaaataataag	17	10	9	5	0	1	2	1	2	1	0	2	3	1	3	0	2	2	2	0	2	7	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:93705450T>G	uc001dpq.2	+	21	3500	c.3332T>G	c.(3331-3333)CTT>CGT	p.L1111R	CCDC18_uc009wdl.1_Missense_Mutation_p.L628R	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	992	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		ACAGCTGAACTTAGGTGAGTT	0.313													11	38					0	0	0.008291	0	0		G	93705450	G	G	93705450	3	3	33	1	0	0	0	0	1	0	0	0	2797	1609	56	5	3414	5	CCDC18	1	93705450	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	4048264	93705450	155545171	9	31610											
SPAG17	200162	broad.mit.edu	37	chr1	118558604	118558604	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccgttccattgacaggaTctgtggcctgaaaggataac	12	10	10	9	1	1	2	0	2	1	0	2	4	2	4	3	3	2	1	3	3	3	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:118558604T>C	uc001ehk.2	-	29	4339	c.4271A>G	c.(4270-4272)GAT>GGT	p.D1424G		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1424						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		ATTGACAGGATCTGTGGCCTG	0.343													6	236					0	0	0.001168	0	0		C	118558604	C	C	118558604	3	2	33	1	0	0	0	0	1	0	0	0	15004	1435	50	3	2480	3	SPAG17	1	118558604	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	24853154	118558604	130692017	10	31611											
NBPF7	343505	broad.mit.edu	37	chr1	120378693	120378693	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatcctgagcagagcaaacTttctgttcaactagtgccaa	13	10	7	11	0	2	2	1	1	1	1	3	2	3	2	2	0	5	3	2	0	4	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:120378693T>G	uc010oxk.1	-	7	1674	c.1053A>C	c.(1051-1053)AAA>AAC	p.K351N		NM_001047980	NP_001041445	P0C2Y1	NBPF7_HUMAN	hypothetical protein LOC343505	351	NBPF 2.					cytoplasm				ovary(1)|skin(1)	2	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;3.66e-05)|Lung NSC(69;0.000192)|all_epithelial(167;0.0347)		Lung(183;0.0103)|LUSC - Lung squamous cell carcinoma(189;0.0544)		CAGAGCAAACTTTCTGTTCAA	0.488													19	197					0	0	0.008871	0	0		G	120378693	G	G	120378693	3	3	33	1	0	0	0	0	1	0	0	0	10217	1606	56	5	219	5	NBPF7	1	120378693	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	1820089	120378693	128871928	11	31612											
PDE4DIP	9659	broad.mit.edu	37	chr1	144866714	144866714	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaagatgctcttccagcAggtcagcccctgcggccaaa	10	6	9	16	1	2	1	1	0	1	1	3	1	3	1	5	2	4	2	5	2	2	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:144866714A>C	uc001elw.3	-	34	5819	c.5528T>G	c.(5527-5529)CTG>CGG	p.L1843R	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.L1737R|PDE4DIP_uc001elv.3_Missense_Mutation_p.L850R|PDE4DIP_uc001ema.2_Missense_Mutation_p.L30R	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1843	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CTCTTCCAGCAGGTCAGCCCC	0.607			T	PDGFRB	MPD								7	185					0	0	0.00308	0	0		C	144866714	C	C	144866714	3	2	33	1	0	0	0	0	1	0	0	0	11662	188	7	5	1556	5	PDE4DIP	1	144866714	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	24488021	144866714	104383907	12	31613											
LINGO4	339398	broad.mit.edu	37	chr1	151774162	151774162	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagggaaagctgtttccTctagtgtctgaagggcgtta	10	11	14	6	1	2	2	0	1	2	1	3	4	3	3	1	2	1	3	1	2	5	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:151774162T>C	uc001ezf.1	-	2	1209	c.1019A>G	c.(1018-1020)GAG>GGG	p.E340G		NM_001004432	NP_001004432	Q6UY18	LIGO4_HUMAN	leucine rich repeat and Ig domain containing 4	340	Extracellular (Potential).|LRR 11.					integral to membrane				large_intestine(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			AGCTGTTTCCTCTAGTGTCTG	0.592													4	108					0	0	0.009096	0	0		C	151774162	C	C	151774162	3	2	33	1	0	0	0	0	1	0	0	0	8834	1551	54	3	766	3	LINGO4	1	151774162	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	6907448	151774162	97476459	13	31614											
NES	10763	broad.mit.edu	37	chr1	156640713	156640713	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgcagcagactcacccatGgcaggctctgaccccaacat	10	5	8	18	1	2	2	1	1	1	1	2	2	2	2	4	2	2	4	4	2	1	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:156640713G>C	uc001fpq.2	-	4	3400	c.3267C>G	c.(3265-3267)GCC>GCG	p.A1089A		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	1089	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					ACTCACCCATGGCAGGCTCTG	0.677													7	39					0	0	0.004482	0	0		C	156640713	C	C	156640713	2	2	33	1	0	0	0	0	0	0	0	1	10356	1335	47	5		5	NES	1	156640713	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	4866551	156640713	92609908	14	31615											
SPTA1	6708	broad.mit.edu	37	chr1	158619716	158619716	+	Frame_Shift_Del	DEL	A	-	-																															atctgcaagcctctgcaaagAaccccagcgggaattcaatt																										TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:158619716delA	uc001fst.1	-	25	3698	c.3499delT	c.(3499-3501)TCTfs	p.S1167fs		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1167	Spectrin 11.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CTCTGCAAAGAACCCCAGCGG	0.463													23	45	---	---	---	---						.	-	158619716	-	-	158619716	7	5	33	1	0	1	0	1	0	0	0	0	15141	246	9	0	3872	0	SPTA1	1	158619716	Frame_Shift_Del	DEL	A	TCGA-BR-6458-01A-11D-1800-08	1979003	158619716	90630905	15	31616											
MNDA	4332	broad.mit.edu	37	chr1	158815416	158815416	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacggcaggtggatgcaagaAgaaatgttccccaaaacgac	16	5	11	9	2	0	2	0	0	0	2	1	4	1	3	2	3	3	3	2	3	6	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:158815416A>C	uc001fsz.1	+	5	810	c.610A>C	c.(610-612)AGA>CGA	p.R204R		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	204	HIN-200.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					GGATGCAAGAAGAAATGTTCC	0.423													4	56					0	0	0.000602	0	0		C	158815416	C	C	158815416	2	2	33	1	0	0	0	0	0	0	0	1	9694	64	3	5		5	MNDA	1	158815416	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	195700	158815416	90435205	16	31617											
FCRL6	343413	broad.mit.edu	37	chr1	159778997	159778997	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccctgagggtggccaggTccagaagcagagcccccagc	8	3	15	15	0	0	3	0	1	0	2	1	3	1	3	6	4	3	1	6	4	1	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:159778997T>G	uc001fud.3	+	4	608	c.566T>G	c.(565-567)GTC>GGC	p.V189G	FCRL6_uc010pix.1_3'UTR|FCRL6_uc001fuc.2_Missense_Mutation_p.V196G|FCRL6_uc009wsz.1_Intron|FCRL6_uc009wta.2_Missense_Mutation_p.V189G	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	189	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					GGTGGCCAGGTCCAGAAGCAG	0.657													19	116					0	0	0.007413	0	0		G	159778997	G	G	159778997	3	3	33	1	0	0	0	0	1	0	0	0	5813	1667	58	5	580	5	FCRL6	1	159778997	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	963581	159778997	89471624	17	31618											
ZNF648	127665	broad.mit.edu	37	chr1	182025473	182025473	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaagggatgggctccttcTtgcaggtgccgtgcttggct	5	11	16	9	1	1	0	0	0	1	0	2	2	2	2	2	5	3	4	2	5	1	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:182025473T>C	uc001goz.2	-	2	1881	c.1673A>G	c.(1672-1674)AAG>AGG	p.K558R		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	558					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGGCTCCTTCTTGCAGGTGCC	0.587													13	57					0	0	0.001855	0	0		C	182025473	C	C	182025473	3	2	33	1	0	0	0	0	1	0	0	0	18088	1609	56	3	37	3	ZNF648	1	182025473	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	22246476	182025473	67225148	18	31619											
CRB1	23418	broad.mit.edu	37	chr1	197404424	197404424	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgcagttaaatgtctgcaActccaacccctgtttgcatg	9	14	7	11	0	1	0	0	0	1	0	2	0	2	0	3	0	5	5	3	0	4	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:197404424A>C	uc001gtz.2	+	9	3566	c.3431A>C	c.(3430-3432)AAC>ACC	p.N1144T	CRB1_uc010poz.1_Missense_Mutation_p.N1120T|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.N1032T|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.N625T|CRB1_uc001gub.1_Missense_Mutation_p.N793T	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1144	Extracellular (Potential).|EGF-like 15.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						AATGTCTGCAACTCCAACCCC	0.423													15	54					0	0	0.00245	0	0		C	197404424	C	C	197404424	3	2	33	1	0	0	0	0	1	0	0	0	3851	43	2	5	3465	5	CRB1	1	197404424	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	15378951	197404424	51846197	19	31620											
PPFIA4	8497	broad.mit.edu	37	chr1	203045504	203045504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacggacacatgctctccGccttccgggactagccatgg	7	9	10	15	3	2	0	0	0	2	0	4	2	3	2	4	3	3	1	4	3	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:203045504G>A	uc001gyz.2	+	17	2685	c.2092G>A	c.(2092-2094)GCC>ACC	p.A698T	PPFIA4_uc009xaj.2_Missense_Mutation_p.A1329T|PPFIA4_uc010pqf.1_Missense_Mutation_p.A911T|PPFIA4_uc001gza.2_Missense_Mutation_p.A689T|PPFIA4_uc001gzb.1_3'UTR|PPFIA4_uc001gzc.1_3'UTR	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	698					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						CATGCTCTCCGCCTTCCGGGA	0.617													22	100					0	0	0.00278	0	0		A	203045504	A	A	203045504	3	1	33	1	0	0	0	0	1	0	0	0	12331	1087	38	1	2158	1	PPFIA4	1	203045504	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	5641080	203045504	46205117	20	31621											
IL19	29949	broad.mit.edu	37	chr1	206972263	206972263	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcactgagggagcgtttccGcacagatctgcgtgttcctt	6	12	12	11	3	1	2	0	1	1	1	3	3	3	3	2	1	3	4	2	1	0	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:206972263G>A	uc001heo.2	+	1	49	c.24G>A	c.(22-24)CCG>CCA	p.P8P		NM_153758	NP_715639	Q9UHD0	IL19_HUMAN	interleukin 19 isoform 1 precursor	Error:Variant_position_missing_in_Q9UHD0_after_alignment					apoptosis|immune response|signal transduction	extracellular space	cytokine activity			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(75;0.211)			GAGCGTTTCCGCACAGATCTG	0.483													15	87					0	0	0.00245	0	0		A	206972263	A	A	206972263	2	1	33	1	0	0	0	0	0	0	0	1	7665	1074	38	1		1	IL19	1	206972263	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	3926759	206972263	42278358	21	31622											
G0S2	50486	broad.mit.edu	37	chr1	209849270	209849270	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctccagaagcaagccctgCaggagaaaggcaagcagcag	14	3	12	12	0	1	2	0	0	1	2	2	3	1	2	2	2	5	5	2	2	4	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:209849270C>A	uc001hhi.3	+	2	498	c.241C>A	c.(241-243)CAG>AAG	p.Q81K		NM_015714	NP_056529	P27469	G0S2_HUMAN	G0/G1switch 2	81					cell cycle						0				OV - Ovarian serous cystadenocarcinoma(81;0.041)		GCAAGCCCTGCAGGAGAAAGG	0.701													8	30					0.000157383	0.000159653	0.00308	1	0		A	209849270	A	A	209849270	3	1	33	1	0	0	0	0	1	0	0	0	6153	711	25	5	243	5	G0S2	1	209849270	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	2877007	209849270	39401351	22	31623											
TGFB2	7042	broad.mit.edu	37	chr1	218607431	218607431	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcccctccagattctcaAgtccaaagatttaacatctc	11	14	3	13	0	2	2	1	0	2	2	7	2	5	2	4	0	1	0	4	0	3	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:218607431A>C	uc001hlm.2	+	3	1171	c.518A>C	c.(517-519)AAG>ACG	p.K173T	TGFB2_uc001hln.2_Missense_Mutation_p.K201T|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	173					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		CAGATTCTCAAGTCCAAAGAT	0.423													123	276					0	0	0.01441	0	0		C	218607431	C	C	218607431	3	2	33	1	0	0	0	0	1	0	0	0	15843	72	3	5	616	5	TGFB2	1	218607431	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	8758161	218607431	30643190	23	31624											
MIA3	375056	broad.mit.edu	37	chr1	222794619	222794619	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggcaagaggatggcctgaAgtttgggctggaagtgtaag	10	9	17	5	0	0	2	0	1	0	1	0	4	0	4	1	5	0	4	1	5	4	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:222794619A>T	uc001hnl.2	+	2	261	c.252A>T	c.(250-252)GAA>GAT	p.E84D		NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	84	SH3.|Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		GATGGCCTGAAGTTTGGGCTG	0.363													32	70					0	0	0.003755	0	0		T	222794619	T	T	222794619	3	4	33	1	0	0	0	0	1	0	0	0	9583	69	3	5	258	5	MIA3	1	222794619	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	4187188	222794619	26456002	24	31625											
OBSCN	84033	broad.mit.edu	37	chr1	228462138	228462138	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaccagtgcgcagctcacCgtcagtggtatgtaaggggt	9	8	13	11	2	2	0	2	0	0	0	2	0	2	0	2	3	2	4	2	3	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:228462138C>T	uc009xez.1	+	19	5720	c.5676C>T	c.(5674-5676)ACC>ACT	p.T1892T	OBSCN_uc001hsn.2_Silent_p.T1892T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1892	Ig-like 18.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CGCAGCTCACCGTCAGTGGTA	0.637													22	22					0	0	0.00278	0	0		T	228462138	T	T	228462138	2	4	33	1	0	0	0	0	0	0	0	1	10831	639	23	1		1	OBSCN	1	228462138	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	5667519	228462138	20788483	25	31626											
KIAA1804	84451	broad.mit.edu	37	chr1	233512225	233512225	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggtcaactatcttaataAaaaatcagaaaaccatgccc	17	10	4	10	0	3	1	2	0	1	1	3	1	3	1	2	1	3	0	2	1	8	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:233512225A>C	uc001hvt.3	+	8	2137	c.1876A>C	c.(1876-1878)AAA>CAA	p.K626Q	KIAA1804_uc001hvu.3_Missense_Mutation_p.K72Q	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	626					activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				TATCTTAATAAAAAATCAGAA	0.413													10	80					0	0	0.010729	0	0		C	233512225	C	C	233512225	3	2	33	1	0	0	0	0	1	0	0	0	8275	15	1	5	1906	5	KIAA1804	1	233512225	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	5050087	233512225	15738396	26	31627											
TFB2M	64216	broad.mit.edu	37	chr1	246707908	246707908	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attatagttcataggtgttaAgttcttggtaaataaatttt	13	19	7	2	0	2	0	1	0	1	0	2	0	2	0	0	2	0	4	0	2	8	11			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:246707908A>T	uc001ibn.2	-	7	1059	c.934T>A	c.(934-936)TTA>ATA	p.L312I		NM_022366	NP_071761	Q9H5Q4	TFB2M_HUMAN	transcription factor B2, mitochondrial	312					positive regulation of transcription, DNA-dependent|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity|transcription cofactor activity			ovary(1)	1	all_cancers(71;4.25e-05)|all_epithelial(71;4.92e-06)|Ovarian(71;0.0254)|all_lung(81;0.0272)|Breast(184;0.0318)|Lung NSC(105;0.0376)		OV - Ovarian serous cystadenocarcinoma(106;0.00358)			ATAGGTGTTAAGTTCTTGGTA	0.333													18	68					0	0	0.006122	0	0		T	246707908	T	T	246707908	3	4	33	1	0	0	0	0	1	0	0	0	15819	69	3	5	264	5	TFB2M	1	246707908	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	13195683	246707908	2542713	27	31628											
OR2B11	127623	broad.mit.edu	37	chr1	247614782	247614782	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcagaatggcaattgcAccgtcaggaccacctgcacg	10	5	11	15	3	1	1	1	0	0	1	1	2	1	2	4	2	2	4	4	2	2	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:247614782A>T	uc010pyx.1	-	1	503	c.503T>A	c.(502-504)GTG>GAG	p.V168E		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TGGCAATTGCACCGTCAGGAC	0.592													4	38					0	0	0.009096	0	0		T	247614782	T	T	247614782	3	4	33	1	0	0	0	0	1	0	0	0	11007	159	6	5	453	5	OR2B11	1	247614782	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	906874	247614782	1635839	28	31629											
OR2T6	254879	broad.mit.edu	37	chr1	248551780	248551780	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattaaaccctctcatctacAgtctgaggaacagggatgtg	12	11	9	9	0	3	1	1	1	3	0	4	3	3	3	1	2	3	0	1	2	5	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr1:248551780A>G	uc001iei.1	+	1	871	c.871A>G	c.(871-873)AGT>GGT	p.S291G		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	291	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCTCATCTACAGTCTGAGGAA	0.448													47	65					0	0	0.01441	0	0		G	248551780	G	G	248551780	3	3	33	1	0	0	0	0	1	0	0	0	11048	188	7	3	873	3	OR2T6	1	248551780	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	936998	248551780	698841	29	31630											
PXDN	7837	broad.mit.edu	37	chr2	1647273	1647273	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgtccgcgttgtcgcatagGatcctggccagcgacgtctg	5	11	13	12	5	1	0	0	0	1	0	4	2	3	1	3	2	1	2	3	2	1	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:1647273G>T	uc002qxa.2	-	19	3883	c.3819C>A	c.(3817-3819)ATC>ATA	p.I1273I		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1273					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		TGTCGCATAGGATCCTGGCCA	0.612													9	65					5.68852e-11	5.89818e-11	0.004482	1	0		T	1647273	T	T	1647273	2	4	33	1	0	0	0	0	0	0	0	1	12872	1164	41	5		5	PXDN	2	1647273	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08		1647273	241552100	30	31631											
PXDN	7837	broad.mit.edu	37	chr2	1652724	1652724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcagcggcttcccggacCgctgcacgatgccctgccgc	5	5	14	17	5	0	0	0	0	0	0	1	3	1	2	4	3	5	4	4	3	0	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:1652724C>T	uc002qxa.2	-	17	2892	c.2828G>A	c.(2827-2829)CGG>CAG	p.R943Q		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	943					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CTTCCCGGACCGCTGCACGAT	0.711													3	27					0	0	0.004672	0	0		T	1652724	T	T	1652724	3	4	33	1	0	0	0	0	1	0	0	0	12872	652	23	1	1639	1	PXDN	2	1652724	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	5451	1652724	241546649	31	31632											
COLEC11	78989	broad.mit.edu	37	chr2	3691528	3691528	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgacctggagaaggagggCgccttcgtgtactctgacca	10	7	13	11	3	1	2	0	1	1	1	2	5	1	3	3	3	2	1	3	3	3	2	rs141570591	by1000genomes	TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:3691528C>T	uc002qya.2	+	7	784	c.636C>T	c.(634-636)GGC>GGT	p.G212G	COLEC11_uc002qxz.2_Silent_p.G209G|COLEC11_uc002qyb.2_Silent_p.G188G|COLEC11_uc002qyc.2_Silent_p.G188G|COLEC11_uc010ewo.2_Silent_p.G164G|COLEC11_uc010ewp.2_Silent_p.G186G|COLEC11_uc010ewq.2_Silent_p.G162G|COLEC11_uc010ewr.2_Silent_p.G162G|COLEC11_uc010ews.2_Silent_p.G138G	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	212	C-type lectin.					collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		AGAAGGAGGGCGCCTTCGTGT	0.632													11	21					0	0	0.008291	0	0		T	3691528	T	T	3691528	2	4	33	1	0	0	0	0	0	0	0	1	3714	755	27	1		1	COLEC11	2	3691528	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	2038804	3691528	239507845	32	31633											
NT5C1B	93034	broad.mit.edu	37	chr2	18765460	18765460	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgtagattttcctgccgTccaccatgttgaagagcgcg	7	11	11	12	4	0	3	0	1	0	2	3	3	2	3	4	0	2	3	4	0	2	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:18765460T>C	uc002rcz.2	-	6	1069	c.965A>G	c.(964-966)GAC>GGC	p.D322G	NT5C1B_uc002rcy.2_Missense_Mutation_p.D322G|NT5C1B_uc010exr.2_Missense_Mutation_p.D264G|NT5C1B_uc010yju.1_Missense_Mutation_p.D262G|NT5C1B_uc002rda.2_Missense_Mutation_p.D262G|NT5C1B_uc010yjv.1_Missense_Mutation_p.D339G|NT5C1B_uc010yjw.1_Missense_Mutation_p.D305G|NT5C1B_uc010exs.2_Missense_Mutation_p.D324G|NT5C1B_uc002rdb.1_Missense_Mutation_p.D114G	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	322					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				TTTCCTGCCGTCCACCATGTT	0.557													23	110					0	0	0.003954	0	0		C	18765460	C	C	18765460	3	2	33	1	0	0	0	0	1	0	0	0	10705	1667	58	3	887	3	NT5C1B	2	18765460	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	15073932	18765460	224433913	33	31634											
APOB	338	broad.mit.edu	37	chr2	21256384	21256384	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatgcgaggcccatcttcTtagtacctggaagatggaaa	13	9	10	9	1	2	1	0	0	2	1	2	4	2	3	2	3	2	1	2	3	5	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:21256384T>C	uc002red.2	-	9	1039	c.911A>G	c.(910-912)AAG>AGG	p.K304R		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	304	Vitellogenin.|Heparin-binding.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GCCCATCTTCTTAGTACCTGG	0.443													20	113					0	0	0.012319	0	0		C	21256384	C	C	21256384	3	2	33	1	0	0	0	0	1	0	0	0	785	1609	56	3	12864	3	APOB	2	21256384	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	2490924	21256384	221942989	34	31635											
ITSN2	50618	broad.mit.edu	37	chr2	24507636	24507636	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatattagaaaataaccttaAgtaagaggaagaggttgttg	17	11	11	2	0	0	3	0	0	0	3	0	5	0	4	1	2	1	3	1	2	8	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:24507636A>C	uc002rfe.2	-	17	2198	c.1940T>G	c.(1939-1941)CTT>CGT	p.L647R	ITSN2_uc002rff.2_Intron|ITSN2_uc002rfg.2_Missense_Mutation_p.L647R	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	647	Potential.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AATAACCTTAAGTAAGAGGAA	0.338													28	93					0	0	0.00632	0	0		C	24507636	C	C	24507636	3	2	33	1	0	0	0	0	1	0	0	0	7943	72	3	5	3300	5	ITSN2	2	24507636	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	3251252	24507636	218691737	35	31636											
PRKD3	23683	broad.mit.edu	37	chr2	37483980	37483980	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taacctttgctccggagaacTtcaggggctaagtatgctgg	9	11	12	9	1	1	1	1	0	0	1	2	2	2	1	2	4	4	4	2	4	4	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:37483980T>G	uc002rqd.2	-	16	2793	c.2238A>C	c.(2236-2238)GAA>GAC	p.E746D	PRKD3_uc002rqe.1_Missense_Mutation_p.E346D	NM_005813	NP_005804	O94806	KPCD3_HUMAN	protein kinase D3	746	Protein kinase.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(2)|ovary(1)|central_nervous_system(1)	4		all_hematologic(82;0.21)				TCCGGAGAACTTCAGGGGCTA	0.458													32	105					0	0	0.008361	0	0		G	37483980	G	G	37483980	3	3	33	1	0	0	0	0	1	0	0	0	12542	1606	56	5	446	5	PRKD3	2	37483980	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	12976344	37483980	205715393	36	31637											
FSHR	2492	broad.mit.edu	37	chr2	49190889	49190889	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgttgtaccccatgatatcTtcacatgggttgaatgcatc	10	14	8	9	0	2	2	1	2	1	0	3	2	2	2	2	1	2	4	2	1	3	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:49190889T>C	uc002rww.2	-	10	1145	c.1071A>G	c.(1069-1071)GAA>GAG	p.E357E	FSHR_uc002rwx.2_Silent_p.E295E|FSHR_uc010fbn.2_Silent_p.E331E	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	357	Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	CCATGATATCTTCACATGGGT	0.463									Gonadal_Dysgenesis_46_XX				25	89					0	0	0.003954	0	0		C	49190889	C	C	49190889	2	2	33	1	0	0	0	0	0	0	0	1	6087	1606	56	3		3	FSHR	2	49190889	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	11706909	49190889	194008484	37	31638											
ATP6V1B1	525	broad.mit.edu	37	chr2	71192185	71192185	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagcgcattccgcaggcCgtgatcgacgagttctattc	8	10	11	12	5	1	2	0	2	1	0	4	4	2	2	2	1	1	3	2	1	2	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:71192185C>T	uc002shj.2	+	14	1563	c.1476C>T	c.(1474-1476)GCC>GCT	p.A492A	ATP6V1B1_uc010fdv.2_Silent_p.A475A|ATP6V1B1_uc010fdw.2_RNA|ATP6V1B1_uc010fdx.2_Silent_p.A450A	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	492					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						TTCCGCAGGCCGTGATCGACG	0.672											OREG0014686	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	73					0	0	0.00245	0	0		T	71192185	T	T	71192185	2	4	33	1	0	0	0	0	0	0	0	1	1179	639	23	1		1	ATP6V1B1	2	71192185	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	22001296	71192185	172007188	38	31639											
ALMS1	7840	broad.mit.edu	37	chr2	73835667	73835667	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagagaaaatcagaatataAgtcataccggctgcgagccc	16	6	10	9	2	2	2	2	0	0	2	2	5	2	2	2	1	3	1	2	1	7	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:73835667A>C	uc002sje.1	+	24	12542	c.12431A>C	c.(12430-12432)AAG>ACG	p.K4144T	ALMS1_uc002sjf.1_Missense_Mutation_p.K4100T	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	4142					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TCAGAATATAAGTCATACCGG	0.428													17	50					0	0	0.006122	0	0		C	73835667	C	C	73835667	3	2	33	1	0	0	0	0	1	0	0	0	535	72	3	5	12511	5	ALMS1	2	73835667	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	2643482	73835667	169363706	39	31640											
FER1L5	90342	broad.mit.edu	37	chr2	97370410	97370410	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtgatattttcccagaacTtccagccccaggagactaat	12	10	8	11	0	0	3	0	1	0	2	2	5	2	3	4	1	2	0	4	1	3	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:97370410T>G	uc010fia.2	+	52	6263	c.6263T>G	c.(6262-6264)CTT>CGT	p.L2088R	FER1L5_uc002sws.3_Missense_Mutation_p.L797R|FER1L5_uc002swt.3_Missense_Mutation_p.L797R|FER1L5_uc010yus.1_Missense_Mutation_p.L796R	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	2088						integral to membrane				ovary(1)	1						TTCCCAGAACTTCCAGCCCCA	0.507													7	139					0	0	0.001984	0	0		G	97370410	G	G	97370410	3	3	33	1	0	0	0	0	1	0	0	0	5828	1609	56	5	6469	5	FER1L5	2	97370410	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	23534743	97370410	145828963	40	31641											
CNGA3	1261	broad.mit.edu	37	chr2	99013210	99013210	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacatcatcaacgagggcaAgctggccgtggtggctgatg	9	8	15	9	2	2	1	2	1	0	0	2	2	2	1	1	4	3	4	1	4	3	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:99013210A>C	uc002syt.2	+	8	1994	c.1577A>C	c.(1576-1578)AAG>ACG	p.K526T	CNGA3_uc002syu.2_Missense_Mutation_p.K508T|CNGA3_uc010fij.2_Missense_Mutation_p.K530T	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	526	cGMP.				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						AACGAGGGCAAGCTGGCCGTG	0.552													15	171					0	0	0.003163	0	0		C	99013210	C	C	99013210	3	2	33	1	0	0	0	0	1	0	0	0	3601	72	3	5	1603	5	CNGA3	2	99013210	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1642800	99013210	144186163	41	31642											
AFF3	3899	broad.mit.edu	37	chr2	100203726	100203726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgatctccctgtagtcGtcttcgttgtcacactgtat	5	18	7	11	2	4	1	1	1	3	0	7	1	4	1	1	0	0	3	1	0	2	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:100203726G>A	uc002tag.2	-	15	2717	c.2481C>T	c.(2479-2481)GAC>GAT	p.D827D	AFF3_uc002taf.2_Silent_p.D852D|AFF3_uc010fiq.1_Silent_p.D827D|AFF3_uc010yvr.1_Silent_p.D980D|AFF3_uc002tah.1_Silent_p.D852D	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	827					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						CCCTGTAGTCGTCTTCGTTGT	0.473													23	234					0	0	0.00278	0	0		A	100203726	A	A	100203726	2	1	33	1	0	0	0	0	0	0	0	1	358	1136	40	1		1	AFF3	2	100203726	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	1190516	100203726	142995647	42	31643											
IL1F5	26525	broad.mit.edu	37	chr2	113820164	113820164	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctgtgcacggtgcctgaAgccgatcagcctgtcagact	7	10	11	13	2	2	2	2	1	0	1	3	3	3	2	4	1	4	1	4	1	1	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:113820164A>G	uc002tis.2	+	5	511	c.378A>G	c.(376-378)GAA>GAG	p.E126E	IL1F5_uc002tit.2_Silent_p.E126E	NM_173170	NP_775262	Q9UBH0	I36RA_HUMAN	interleukin 1 family, member 5	126						extracellular space	cytokine activity|interleukin-1 receptor antagonist activity				0						CGGTGCCTGAAGCCGATCAGC	0.602													8	59					0	0	0.00308	0	0		G	113820164	G	G	113820164	2	3	33	1	0	0	0	0	0	0	0	1	7669	69	3	3		3	IL1F5	2	113820164	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	13616438	113820164	129379209	43	31644											
ZEB2	9839	broad.mit.edu	37	chr2	145157299	145157299	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcatgtgataacctttcaaCtttgaaatttcttcagcctt	10	18	4	9	0	4	2	3	2	1	0	4	2	4	2	2	0	3	0	2	0	3	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:145157299C>G	uc002tvu.2	-	8	1935	c.1455G>C	c.(1453-1455)AAG>AAC	p.K485N	ZEB2_uc002tvv.2_Missense_Mutation_p.K479N|ZEB2_uc010zbm.1_Missense_Mutation_p.K456N|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.K514N	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	485	SMAD-MH2 binding domain (By similarity).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		AACCTTTCAACTTTGAAATTT	0.408													12	69					0	0	0.001855	0	0		G	145157299	G	G	145157299	3	3	33	1	0	0	0	0	1	0	0	0	17649	564	20	5	2201	5	ZEB2	2	145157299	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	31337135	145157299	98042074	44	31645											
ZEB2	9839	broad.mit.edu	37	chr2	145157311	145157311	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttcaactttgaaatttcTtcagccttgcagtccatttt	8	18	4	11	0	3	1	2	1	1	0	4	1	4	1	3	0	3	1	3	0	2	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:145157311T>C	uc002tvu.2	-	8	1923	c.1443A>G	c.(1441-1443)GAA>GAG	p.E481E	ZEB2_uc002tvv.2_Silent_p.E475E|ZEB2_uc010zbm.1_Silent_p.E452E|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Silent_p.E510E	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	481	SMAD-MH2 binding domain (By similarity).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TTGAAATTTCTTCAGCCTTGC	0.418													17	70					0	0	0.007413	0	0		C	145157311	C	C	145157311	2	2	33	1	0	0	0	0	0	0	0	1	17649	1606	56	3		3	ZEB2	2	145157311	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	12	145157311	98042062	45	31646											
NEB	4703	broad.mit.edu	37	chr2	152470950	152470950	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccactgggctgctgaacTtggtcttccacttctcaaac	7	13	8	13	0	2	1	1	1	2	0	5	1	4	1	2	2	3	2	2	2	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:152470950T>A	uc010fnx.2	-	73	10903	c.10712A>T	c.(10711-10713)AAG>ATG	p.K3571M		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3571					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GCTGCTGAACTTGGTCTTCCA	0.517													70	231					0	0	0.01441	0	0		A	152470950	A	A	152470950	3	1	33	1	0	0	0	0	1	0	0	0	10321	1609	56	5	14669	5	NEB	2	152470950	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	7313639	152470950	90728423	46	31647											
GALNT13	114805	broad.mit.edu	37	chr2	155295112	155295112	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatattttcaggtattttcTtacactgctgacaaagaaat	13	17	5	6	0	2	2	1	1	1	1	2	2	2	2	0	1	2	2	0	1	6	8			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:155295112T>G	uc002tyr.3	+	12	1971	c.1404T>G	c.(1402-1404)TCT>TCG	p.S468S	GALNT13_uc002tyt.3_Silent_p.S468S|GALNT13_uc010fod.2_Intron|uc002tyu.1_Intron	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	468	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding	p.S468Y(1)		ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						AGGTATTTTCTTACACTGCTG	0.313													19	70					0	0	0.008871	0	0		G	155295112	G	G	155295112	2	3	33	1	0	0	0	0	0	0	0	1	6226	1596	56	5		5	GALNT13	2	155295112	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	2824162	155295112	87904261	47	31648											
KCNH7	90134	broad.mit.edu	37	chr2	163693107	163693107	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccccagcaatgcctgggCaatttgggcaatatcatgcc	10	9	10	12	0	1	1	1	1	0	0	1	1	1	1	4	2	3	3	4	2	4	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:163693107C>A	uc002uch.1	-	2	459	c.247G>T	c.(247-249)GCC>TCC	p.A83S	KCNH7_uc002uci.2_Missense_Mutation_p.A83S	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	83	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	AATGCCTGGGCAATTTGGGCA	0.468													16	47					3.52763e-06	3.63088e-06	0.00499	1	0		A	163693107	A	A	163693107	3	1	33	1	0	0	0	0	1	0	0	0	8053	710	25	5	3469	5	KCNH7	2	163693107	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	8397995	163693107	79506266	48	31649											
PHOSPHO2	493911	broad.mit.edu	37	chr2	170557595	170557595	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctattgaactacgtgattcTtatcgaaaaggattttggac	12	14	8	7	2	1	2	0	2	1	0	2	5	1	4	1	2	2	0	1	2	6	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:170557595T>G	uc002ufg.2	+	4	502	c.114T>G	c.(112-114)TCT>TCG	p.S38S	KLHL23_uc002ufh.1_Intron	NM_001008489	NP_001008489	Q8TCD6	PHOP2_HUMAN	phosphatase, orphan 2	38							metal ion binding|pyridoxal phosphatase activity			skin(1)	1						TACGTGATTCTTATCGAAAAG	0.353													16	85					0	0	0.004007	0	0		G	170557595	G	G	170557595	2	3	33	1	0	0	0	0	0	0	0	1	11876	1596	56	5		5	PHOSPHO2	2	170557595	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	6864488	170557595	72641778	49	31650											
HOXD10	3236	broad.mit.edu	37	chr2	176983956	176983956	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accgccaacctcacgttttcTtaggtctgaggccggtctga	7	11	10	13	3	4	2	1	2	3	0	4	2	4	2	4	3	1	1	4	3	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:176983956T>G	uc002ukj.2	+	2	1090	c.1020T>G	c.(1018-1020)TCT>TCG	p.S340S		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	340						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		TCACGTTTTCTTAggtctgag	0.448													10	15					0	0	0.008291	0	0		G	176983956	G	G	176983956	2	3	33	1	0	0	0	0	0	0	0	1	7335	1596	56	5		5	HOXD10	2	176983956	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	6426361	176983956	66215417	50	31651											
ITGAV	3685	broad.mit.edu	37	chr2	187521058	187521058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctacagcaggtccccaaGtcactccaagaacatgacta	13	8	6	14	0	2	2	1	1	1	1	5	2	4	2	3	1	3	1	3	1	5	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:187521058G>A	uc002upq.2	+	17	1925	c.1649G>A	c.(1648-1650)AGT>AAT	p.S550N	ITGAV_uc010frs.2_Missense_Mutation_p.S514N|ITGAV_uc010zfv.1_Missense_Mutation_p.S504N	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	550	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		AGGTCCCCAAGTCACTCCAAG	0.453													28	115					0	0	0.008361	0	0		A	187521058	A	A	187521058	3	1	33	1	0	0	0	0	1	0	0	0	7904	1029	36	4	1766	4	ITGAV	2	187521058	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	10537102	187521058	55678315	51	31652											
MFSD6	54842	broad.mit.edu	37	chr2	191301390	191301390	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcaatgtctcagacaccgTtactttgccaacagctccaa	11	10	6	14	1	2	1	2	0	1	1	4	1	3	1	3	0	4	3	3	0	4	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:191301390T>G	uc002urz.2	+	3	959	c.635T>G	c.(634-636)GTT>GGT	p.V212G		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	212					transmembrane transport	integral to membrane				ovary(2)	2						TCAGACACCGTTACTTTGCCA	0.438													12	65					0	0	0.013537	0	0		G	191301390	G	G	191301390	3	3	33	1	0	0	0	0	1	0	0	0	9553	1725	60	5	637	5	MFSD6	2	191301390	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	3780332	191301390	51897983	52	31653											
ALS2CR4	65062	broad.mit.edu	37	chr2	202489002	202489002	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaagaggctttgatttctttCtctttatcaggatattcttc	8	19	7	7	0	4	2	1	1	3	1	6	4	4	3	0	2	0	1	0	2	3	8			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:202489002C>G	uc002uyh.1	-	14	1304	c.1203G>C	c.(1201-1203)GAG>GAC	p.E401D	ALS2CR4_uc002uyg.1_Missense_Mutation_p.E393D|ALS2CR4_uc010zho.1_Missense_Mutation_p.E196D	NM_001044385	NP_001037850	Q96Q45	TM237_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	425						integral to membrane	protein binding				0						TGATTTCTTTCTCTTTATCAG	0.343													12	47					0	0	0.001855	0	0		G	202489002	G	G	202489002	3	3	33	1	0	0	0	0	1	0	0	0	554	912	32	5	27	5	ALS2CR4	2	202489002	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	11187612	202489002	40710371	53	31654											
DYTN	391475	broad.mit.edu	37	chr2	207527659	207527659	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagattgaaggcatccataAgttttgacaatagttcttgc	12	14	8	7	0	1	3	0	2	1	1	2	3	2	3	1	1	1	3	1	1	5	8			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:207527659A>G	uc002vbr.1	-	11	1718	c.1601T>C	c.(1600-1602)CTT>CCT	p.L534P		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	534	Potential.					plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		GGCATCCATAAGTTTTGACAA	0.438													47	173					0	0	0.01441	0	0		G	207527659	G	G	207527659	3	3	33	1	0	0	0	0	1	0	0	0	4867	72	3	3	143	3	DYTN	2	207527659	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	5038657	207527659	35671714	54	31655											
KIAA1486	57624	broad.mit.edu	37	chr2	226446694	226446694	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacagcgatgaatattcCaagaagattcctcctcccaa	13	8	5	15	1	0	3	0	1	0	2	4	4	4	3	6	0	1	0	6	0	5	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:226446694C>T	uc002voe.2	+	4	736	c.561C>T	c.(559-561)TCC>TCT	p.S187S	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_5'UTR	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	187										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		ATGAATATTCCAAGAAGATTC	0.423													8	182					0	0	0.006214	0	0		T	226446694	T	T	226446694	2	4	33	1	0	0	0	0	0	0	0	1	8253	581	21	4		4	KIAA1486	2	226446694	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	18919035	226446694	16752679	55	31656											
COL6A3	1293	broad.mit.edu	37	chr2	238283329	238283329	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggccgtgaggacgatcagCagctggggcacaccttctgt	7	8	14	12	3	2	1	1	1	1	0	3	3	2	2	2	4	2	3	2	4	0	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:238283329C>G	uc002vwl.2	-	8	3690	c.3405G>C	c.(3403-3405)CTG>CTC	p.L1135L	COL6A3_uc002vwo.2_Silent_p.L929L|COL6A3_uc010znj.1_Silent_p.L528L|COL6A3_uc002vwq.2_Silent_p.L929L|COL6A3_uc002vwr.2_Silent_p.L728L	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1135	Nonhelical region.|VWFA 6.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GGACGATCAGCAGCTGGGGCA	0.642													7	61					0	0	0.001984	0	0		G	238283329	G	G	238283329	2	3	33	1	0	0	0	0	0	0	0	1	3704	697	25	5		5	COL6A3	2	238283329	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	11836635	238283329	4916044	56	31657											
SNED1	25992	broad.mit.edu	37	chr2	241969917	241969917	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttccccgagctcctggacTtcaatgccacctgggttttt	6	13	8	14	1	1	0	1	0	0	0	3	2	3	1	5	2	2	2	5	2	1	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr2:241969917T>G	uc002wah.1	+	2	430	c.430T>G	c.(430-432)TTC>GTC	p.F144V		NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	144	NIDO.				cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		GCTCCTGGACTTCAATGCCAC	0.632													5	33					0	0	0.000602	0	0		G	241969917	G	G	241969917	3	3	33	1	0	0	0	0	1	0	0	0	14870	1609	56	5	436	5	SNED1	2	241969917	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	3686588	241969917	1229456	57	31658											
FBLN2	2199	broad.mit.edu	37	chr3	13655628	13655628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctcatagtacctgaggttCgccgacctccagagcccgca	8	8	9	16	3	1	2	1	1	1	1	4	3	2	2	5	1	2	3	5	1	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:13655628C>T	uc011avb.1	+	5	1818	c.1693C>T	c.(1693-1695)CGC>TGC	p.R565C	FBLN2_uc011auz.1_Missense_Mutation_p.R591C|FBLN2_uc011ava.1_Missense_Mutation_p.R565C|FBLN2_uc011avc.1_Missense_Mutation_p.R565C|uc003byc.1_5'Flank	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	565						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			ACCTGAGGTTCGCCGACCTCC	0.597													10	36					0	0	0.008291	0	0		T	13655628	T	T	13655628	3	4	33	1	0	0	0	0	1	0	0	0	5713	884	31	1	397	1	FBLN2	3	13655628	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08		13655628	184366802	58	31659											
TBC1D5	9779	broad.mit.edu	37	chr3	17279755	17279755	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctctgctgaggtcctggtAggaattacaacagaggagga	11	8	14	8	0	1	2	0	1	1	1	2	5	2	5	2	5	3	2	2	5	4	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:17279755A>G	uc003cbf.2	-	17	3153	c.1488T>C	c.(1486-1488)CCT>CCC	p.P496P	TBC1D5_uc010heu.2_Silent_p.P83P|TBC1D5_uc010hev.2_Silent_p.P496P|TBC1D5_uc003cbe.2_Silent_p.P496P|TBC1D5_uc010hew.1_Silent_p.P448P	NM_014744	NP_055559	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5 isoform b	496						intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						AGGTCCTGGTAGGAATTACAA	0.517													7	33					0	0	0.001984	0	0		G	17279755	G	G	17279755	2	3	33	1	0	0	0	0	0	0	0	1	15648	407	15	3		3	TBC1D5	3	17279755	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	3624127	17279755	180742675	59	31660											
CYP8B1	1582	broad.mit.edu	37	chr3	42916035	42916035	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatggtgtagtggtggatcTtcttgcctgtcttgaagaag	7	14	14	6	0	3	2	0	1	3	1	3	3	3	3	1	3	1	2	1	3	3	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:42916035T>G	uc003cmh.2	-	1	1599	c.1274A>C	c.(1273-1275)AAG>ACG	p.K425T	CCBP2_uc003cmd.1_Intron|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Missense_Mutation_p.K425T	NM_004391	NP_004382	Q9UNU6	CP8B1_HUMAN	cytochrome P450, family 8, subfamily B,	425					bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	7alpha-hydroxycholest-4-en-3-one 12alpha-hydroxylase activity|electron carrier activity|heme binding|oxygen binding|sterol 12-alpha-hydroxylase activity			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.213)|Kidney(284;0.249)		GTGGTGGATCTTCTTGCCTGT	0.542													26	87					0	0	0.010818	0	0		G	42916035	G	G	42916035	3	3	33	1	0	0	0	0	1	0	0	0	4201	1609	56	5	235	5	CYP8B1	3	42916035	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	25636280	42916035	155106395	60	31661											
RBM5	10181	broad.mit.edu	37	chr3	50153411	50153411	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttggagctaagggagagaGaggtgaatgggaaactgtgc	12	7	17	5	0	0	3	0	1	0	2	0	7	0	5	1	4	3	1	1	4	3	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:50153411G>A	uc003cyg.2	+	22	2240	c.2092G>A	c.(2092-2094)GAG>AAG	p.E698K	RBM5_uc011bdj.1_Missense_Mutation_p.E642K|RBM5_uc011bdk.1_Missense_Mutation_p.E526K|RBM5_uc003cyh.2_Missense_Mutation_p.E155K	NM_005778	NP_005769	P52756	RBM5_HUMAN	RNA binding motif protein 5	698	Required for interaction with U2AF2.				apoptosis|negative regulation of cell proliferation|positive regulation of apoptosis|regulation of alternative nuclear mRNA splicing, via spliceosome|spliceosome assembly	nucleoplasm|spliceosomal complex	DNA binding|mRNA binding|nucleotide binding|protein binding|zinc ion binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000121)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		AAGGGAGAGAGAGGTGAATGG	0.468													11	44					0	0	0.013537	0	0		A	50153411	A	A	50153411	3	1	33	1	0	0	0	0	1	0	0	0	13168	943	33	4	2174	4	RBM5	3	50153411	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	7237376	50153411	147869019	61	31662											
WNT5A	7474	broad.mit.edu	37	chr3	55504415	55504415	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgttgacctgtaccaacTtgccccggctgttgagccgc	5	10	12	14	2	0	2	0	2	0	0	0	2	0	2	5	2	4	5	5	2	2	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:55504415T>C	uc003dhn.2	-	5	1166	c.848A>G	c.(847-849)AAG>AGG	p.K283R	WNT5A_uc003dhm.2_Missense_Mutation_p.K268R|WNT5A_uc010hmw.2_Missense_Mutation_p.K268R|WNT5A_uc010hmx.2_Missense_Mutation_p.K194R	NM_003392	NP_003383	P41221	WNT5A_HUMAN	wingless-type MMTV integration site family,	283					activation of JUN kinase activity|activation of protein kinase B activity|axon guidance|cartilage development|cellular protein localization|cellular response to calcium ion|cellular response to interferon-gamma|cellular response to lipopolysaccharide|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|cervix development|cochlea morphogenesis|convergent extension involved in organogenesis|dopaminergic neuron differentiation|dorsal/ventral axis specification|embryonic digit morphogenesis|embryonic skeletal system development|epithelial cell proliferation involved in mammary gland duct elongation|epithelial to mesenchymal transition|face development|genitalia development|heart looping|hemopoietic stem cell proliferation|keratinocyte differentiation|lateral sprouting involved in mammary gland duct morphogenesis|lens development in camera-type eye|male gonad development|mammary gland branching involved in thelarche|negative regulation of apoptosis|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of mesenchymal cell proliferation|negative regulation of transcription, DNA-dependent|neural tube closure|olfactory bulb interneuron development|optic cup formation involved in camera-type eye development|palate development|positive regulation of angiogenesis|positive regulation of cartilage development|positive regulation of cGMP metabolic process|positive regulation of chemokine biosynthetic process|positive regulation of cytokine secretion involved in immune response|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of macrophage activation|positive regulation of macrophage cytokine production|positive regulation of mesenchymal cell proliferation|positive regulation of neuron projection development|positive regulation of NF-kappaB transcription factor activity|positive regulation of ossification|positive regulation of protein catabolic process|positive regulation of protein kinase C signaling cascade|positive regulation of T cell chemotaxis|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|primitive streak formation|regulation of branching involved in mammary gland duct morphogenesis|somitogenesis|tail morphogenesis|type B pancreatic cell development|urinary bladder development|uterus development|vagina development|Wnt receptor signaling pathway, calcium modulating pathway|wound healing	extracellular space|membrane fraction|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|receptor tyrosine kinase-like orphan receptor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.00377)|Kidney(284;0.00408)|OV - Ovarian serous cystadenocarcinoma(275;0.204)		CTGTACCAACTTGCCCCGGCT	0.617													6	18					0	0	0.001984	0	0		C	55504415	C	C	55504415	3	2	33	1	0	0	0	0	1	0	0	0	17417	1609	56	3	298	3	WNT5A	3	55504415	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	5351004	55504415	142518015	62	31663											
GABRR3	200959	broad.mit.edu	37	chr3	97705706	97705706	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggctgcatatcgattttcTtctcatgaagtcttctgagt	7	16	10	8	1	4	2	1	2	4	0	6	3	4	2	0	2	1	2	0	2	2	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:97705706T>C	uc011bgr.1	-	9	1225	c.1225A>G	c.(1225-1227)AGA>GGA	p.R409G		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	409	Cytoplasmic (Potential).|Interaction with SQSTM1 (By similarity).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0						ATCGATTTTCTTCTCATGAAG	0.438													19	18					0	0	0.010504	0	0		C	97705706	C	C	97705706	3	2	33	1	0	0	0	0	1	0	0	0	6192	1617	56	3	181	3	GABRR3	3	97705706	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	42201291	97705706	100316724	63	31664											
OR5AC2	81050	broad.mit.edu	37	chr3	97806150	97806150	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcaccatggtgggcaaccTtggactgatagttctaattt	10	13	9	9	0	2	1	1	1	1	0	2	2	2	2	2	3	1	2	2	3	3	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:97806150T>G	uc011bgs.1	+	1	134	c.134T>G	c.(133-135)CTT>CGT	p.L45R		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GTGGGCAACCTTGGACTGATA	0.448													44	216					0	0	0.013114	0	0		G	97806150	G	G	97806150	3	3	33	1	0	0	0	0	1	0	0	0	11160	1609	56	5	136	5	OR5AC2	3	97806150	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	100444	97806150	100216280	64	31665											
OR5K2	402135	broad.mit.edu	37	chr3	98216669	98216669	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattagtttggtggcactgAtatttacacactgtcggctt	9	16	9	7	1	0	1	0	1	0	0	1	1	0	1	0	3	1	3	0	3	4	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:98216669A>C	uc011bgx.1	+	1	145	c.145A>C	c.(145-147)ATA>CTA	p.I49L		NM_001004737	NP_001004737	Q8NHB8	OR5K2_HUMAN	olfactory receptor, family 5, subfamily K,	49	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						GGTGGCACTGATATTTACACA	0.453													49	269					0	0	0.01441	0	0		C	98216669	C	C	98216669	3	2	33	1	0	0	0	0	1	0	0	0	11186	333	12	5	147	5	OR5K2	3	98216669	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	410519	98216669	99805761	65	31666											
ABI3BP	25890	broad.mit.edu	37	chr3	100523678	100523678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggacttggtgacgtttttgGttttgcagtaacacgctggg	6	15	14	6	2	0	1	0	1	0	0	0	2	0	2	0	4	2	5	0	4	1	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:100523678G>A	uc003dun.2	-	20	1790	c.1705C>T	c.(1705-1707)CCA>TCA	p.P569S	ABI3BP_uc003duj.2_Missense_Mutation_p.P124S|ABI3BP_uc003duk.2_Missense_Mutation_p.P253S|ABI3BP_uc003dul.2_Missense_Mutation_p.P374S|ABI3BP_uc011bhd.1_Missense_Mutation_p.P523S|ABI3BP_uc003dum.2_5'UTR	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	569	Pro-rich.					extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						GACGTTTTTGGTTTTGCAGTA	0.413													15	80					0	0	0.00499	0	0		A	100523678	A	A	100523678	3	1	33	1	0	0	0	0	1	0	0	0	91	1261	44	4	1586	4	ABI3BP	3	100523678	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	2307009	100523678	97498752	66	31667											
KTELC1	56983	broad.mit.edu	37	chr3	119205779	119205779	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggcctggaaatctatgaaAgtaatcaccagtcatctgac	14	9	8	10	0	4	2	2	2	2	0	4	3	4	3	2	2	0	1	2	2	4	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:119205779A>C	uc003ecm.2	+	7	822	c.738A>C	c.(736-738)AAA>AAC	p.K246N	KTELC1_uc011biz.1_RNA|KTELC1_uc011bja.1_Missense_Mutation_p.K87N	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	246						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		AATCTATGAAAGTAATCACCA	0.428													18	86					0	0	0.00499	0	0		C	119205779	C	C	119205779	3	2	33	1	0	0	0	0	1	0	0	0	8599	86	3	5	764	5	KTELC1	3	119205779	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	18682101	119205779	78816651	67	31668											
HGD	3081	broad.mit.edu	37	chr3	120352085	120352085	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccatggggggtcattgtgCtgtgtagactccctccccct	4	12	12	13	0	1	1	1	0	0	1	4	1	4	1	4	3	1	2	4	3	1	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:120352085C>A	uc003edw.2	-	13	1467	c.1097G>T	c.(1096-1098)AGC>ATC	p.S366I	HGD_uc003edv.2_Missense_Mutation_p.S225I	NM_000187	NP_000178	Q93099	HGD_HUMAN	homogentisate 1,2-dioxygenase	366					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	homogentisate 1,2-dioxygenase activity|metal ion binding				0				GBM - Glioblastoma multiforme(114;0.158)		GGTCATTGTGCTGTGTAGACT	0.557													16	106					1.52009e-12	1.58e-12	0.003163	1	0		A	120352085	A	A	120352085	3	1	33	1	0	0	0	0	1	0	0	0	7100	797	28	5	248	5	HGD	3	120352085	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	1146306	120352085	77670345	68	31669											
PLXNA1	5361	broad.mit.edu	37	chr3	126736735	126736735	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgggcagcacaaggtcacGgtgcgtctgtccaccggggg	7	6	16	12	3	2	0	1	0	1	0	3	0	3	0	2	5	2	2	2	5	1	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:126736735G>A	uc003ejg.2	+	18	3595	c.3591G>A	c.(3589-3591)ACG>ACA	p.T1197T		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1220	Extracellular (Potential).|IPT/TIG 4.				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		ACAAGGTCACGGTGCGTCTGT	0.657													11	25					0	0	0.013537	0	0		A	126736735	A	A	126736735	2	1	33	1	0	0	0	0	0	0	0	1	12138	1130	39	1		1	PLXNA1	3	126736735	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	6384650	126736735	71285695	69	31670											
TOPBP1	11073	broad.mit.edu	37	chr3	133379947	133379947	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttaaaaacttcacaaaaaAcggttctttgtcatttctgg	13	15	5	8	1	4	0	2	0	2	0	4	0	4	0	0	2	2	1	0	2	6	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:133379947A>C	uc003eps.2	-	2	157	c.25T>G	c.(25-27)TTT>GTT	p.F9V		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	9					DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						TTCACAAAAAACGGTTCTTTG	0.308								Other_conserved_DNA_damage_response_genes					10	11					0	0	0.006214	0	0		C	133379947	C	C	133379947	3	2	33	1	0	0	0	0	1	0	0	0	16395	43	2	5	4651	5	TOPBP1	3	133379947	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	6643212	133379947	64642483	70	31671											
PCOLCE2	26577	broad.mit.edu	37	chr3	142567080	142567080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttcgtttggttcagcagCggagaacatggccatgaagc	9	11	12	9	2	2	2	1	1	1	1	3	3	2	2	1	3	4	3	1	3	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:142567080C>T	uc003evd.2	-	3	623	c.427G>A	c.(427-429)GCT>ACT	p.A143T		NM_013363	NP_037495	Q9UKZ9	PCOC2_HUMAN	procollagen C-endopeptidase enhancer 2	143	CUB 1.					extracellular region	collagen binding|heparin binding|peptidase activator activity			ovary(2)|skin(1)	3						GGTTCAGCAGCGGAGAACATG	0.458													7	54					0	0	0.00308	0	0		T	142567080	T	T	142567080	3	4	33	1	0	0	0	0	1	0	0	0	11614	768	27	1	848	1	PCOLCE2	3	142567080	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	9187133	142567080	55455350	71	31672											
GNB4	59345	broad.mit.edu	37	chr3	179132727	179132727	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttccctctctggtctttaAgttatatatagagcagatgt	10	17	7	7	0	2	2	0	0	2	2	4	2	3	2	1	1	1	2	1	1	5	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:179132727A>T	uc003fjv.3	-	6	656	c.376T>A	c.(376-378)TTA>ATA	p.L126I	GNB4_uc003fju.3_Missense_Mutation_p.L37I	NM_021629	NP_067642	Q9HAV0	GBB4_HUMAN	guanine nucleotide-binding protein, beta-4	126	WD 2.				cellular response to glucagon stimulus|energy reserve metabolic process	plasma membrane	signal transducer activity			skin(2)	2	all_cancers(143;2.01e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.237)			CTGGTCTTTAAGTTATATATA	0.468													49	243					0	0	0.01441	0	0		T	179132727	T	T	179132727	3	4	33	1	0	0	0	0	1	0	0	0	6535	69	3	5	666	5	GNB4	3	179132727	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	36565647	179132727	18889703	72	31673											
IL1RAP	3556	broad.mit.edu	37	chr3	190366162	190366162	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgagcttcattcagaaaAgcagacgcctcctggttgtt	9	13	9	10	1	2	3	2	1	0	2	3	3	3	3	2	1	2	4	2	1	2	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:190366162A>C	uc003fsm.1	+	12	1587	c.1381A>C	c.(1381-1383)AGC>CGC	p.S461R	IL1RAP_uc010hzg.1_Missense_Mutation_p.S461R|IL1RAP_uc003fsn.1_RNA|IL1RAP_uc003fso.1_Missense_Mutation_p.S461R|IL1RAP_uc003fsp.1_RNA|IL1RAP_uc003fsq.2_Intron	NM_002182	NP_002173	Q9NPH3	IL1AP_HUMAN	interleukin 1 receptor accessory protein isoform	461	Cytoplasmic (Potential).|TIR.				inflammatory response|innate immune response|protein complex assembly	extracellular region|integral to plasma membrane				ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0733)|Breast(254;0.21)		Lung(62;1.95e-06)|LUSC - Lung squamous cell carcinoma(58;2.05e-06)	GBM - Glioblastoma multiforme(93;0.00851)		CATTCAGAAAAGCAGACGCCT	0.512													41	210					0	0	0.007835	0	0		C	190366162	C	C	190366162	3	2	33	1	0	0	0	0	1	0	0	0	7676	72	3	5	1439	5	IL1RAP	3	190366162	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	11233435	190366162	7656268	73	31674											
APOD	347	broad.mit.edu	37	chr3	195300808	195300808	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccattctcaaaggttgttGggatcttctcaatttcgtac	8	16	8	9	1	3	0	2	0	3	0	7	1	4	1	1	2	1	3	1	2	3	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:195300808G>T	uc003fur.2	-	3	520	c.158C>A	c.(157-159)CCA>CAA	p.P53Q	APOD_uc011bsx.1_Missense_Mutation_p.P53Q	NM_001647	NP_001638	P05090	APOD_HUMAN	apolipoprotein D precursor	53					lipid metabolic process	extracellular space	lipid binding|lipid transporter activity|protein binding			ovary(2)	2	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.191)	Epithelial(36;1e-21)|all cancers(36;9.02e-20)|OV - Ovarian serous cystadenocarcinoma(49;1.6e-18)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;1.66e-05)		AAAGGTTGTTGGGATCTTCTC	0.478													10	66					2.80697e-09	2.90329e-09	0.010729	1	0		T	195300808	T	T	195300808	3	4	33	1	0	0	0	0	1	0	0	0	801	1348	47	5	423	5	APOD	3	195300808	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	4934646	195300808	2721622	74	31675											
MUC4	4585	broad.mit.edu	37	chr3	195495955	195495955	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgtcccactgcatcccaccGctctggtagagaaacagggc	10	6	10	15	2	1	1	0	0	1	1	3	2	3	1	3	2	2	3	3	2	2	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr3:195495955G>A	uc011bto.1	-	8	13543	c.13083C>T	c.(13081-13083)AGC>AGT	p.S4361S	MUC4_uc003fuz.2_Missense_Mutation_p.A117V|MUC4_uc003fva.2_5'UTR|MUC4_uc003fvb.2_Missense_Mutation_p.A35V|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.A35V|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_5'UTR|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Silent_p.S53S|MUC4_uc011bti.1_Silent_p.S53S|MUC4_uc011btj.1_Silent_p.S230S|MUC4_uc011btk.1_5'UTR|MUC4_uc011btl.1_5'UTR|MUC4_uc011btm.1_Silent_p.S178S|MUC4_uc011btn.1_5'UTR|MUC4_uc003fvo.2_Silent_p.S253S|MUC4_uc003fvp.2_Silent_p.S202S|MUC4_uc010hzu.1_Silent_p.S1101S	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1246	NIDO.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GCATCCCACCGCTCTGGTAGA	0.612													17	12					0	0	0.004007	0	0		A	195495955	A	A	195495955	2	1	33	1	0	0	0	0	0	0	0	1	9996	1078	38	1		1	MUC4	3	195495955	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	195147	195495955	2526475	75	31676											
CYTL1	54360	broad.mit.edu	37	chr4	5018891	5018891	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtacagcctgggcaggtAtctcacacatggctcctgtg	8	9	12	12	0	1	0	1	0	1	0	3	0	2	0	2	4	2	4	2	4	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:5018891A>T	uc003gig.2	-	2	194	c.169T>A	c.(169-171)TAC>AAC	p.Y57N		NM_018659	NP_061129	Q9NRR1	CYTL1_HUMAN	cytokine-like 1 precursor	57					signal transduction	extracellular space|soluble fraction	receptor binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.164)		CTGGGCAGGTATCTCACACAT	0.582													5	55					0	0	0.000602	0	0		T	5018891	T	T	5018891	3	4	33	1	0	0	0	0	1	0	0	0	4211	449	16	5	253	5	CYTL1	4	5018891	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08		5018891	186135385	76	31677											
LGI2	55203	broad.mit.edu	37	chr4	25030161	25030161	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcagatgggaaaacatTcggtccttgatttctgaaaa	14	10	11	6	1	1	3	0	2	1	1	3	5	2	4	1	3	1	1	1	3	5	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:25030161T>G	uc003grf.2	-	2	336	c.237A>C	c.(235-237)CGA>CGC	p.R79R		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	79						extracellular region					0		Breast(46;0.173)				GGGAAAACATTCGGTCCTTGA	0.522													6	27					0	0	0.001168	0	0		G	25030161	G	G	25030161	2	3	33	1	0	0	0	0	0	0	0	1	8768	1770	62	5		5	LGI2	4	25030161	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	20011270	25030161	166124115	77	31678											
TLR6	10333	broad.mit.edu	37	chr4	38830380	38830380	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttctgataaaaatttaaTgaaaacttgacagttgtcat	16	14	7	4	0	2	3	1	3	1	0	2	4	2	3	0	0	1	2	0	0	6	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:38830380T>C	uc003gtm.2	-	1	781	c.715A>G	c.(715-717)ATT>GTT	p.I239V	TLR6_uc010ifg.1_Missense_Mutation_p.I239V	NM_006068	NP_006059	Q9Y2C9	TLR6_HUMAN	toll-like receptor 6 precursor	239	Extracellular (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to diacyl bacterial lipopeptide|defense response to bacterium|detection of diacyl bacterial lipopeptide|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-6 biosynthetic process|positive regulation of JUN kinase activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	integral to plasma membrane|phagocytic vesicle membrane	lipopeptide binding|transmembrane receptor activity			ovary(2)	2						AAAAATTTAATGAAAACTTGA	0.338													12	46					0	0	0.013537	0	0		C	38830380	C	C	38830380	3	2	33	1	0	0	0	0	1	0	0	0	15980	1464	51	3	1679	3	TLR6	4	38830380	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	13800219	38830380	152323896	78	31679											
N4BP2	55728	broad.mit.edu	37	chr4	40115104	40115104	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaccagacacatggtggaAgtttaaaccaaaggaacttg	16	7	11	7	0	0	1	0	0	0	1	0	4	0	4	2	4	3	1	2	4	6	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:40115104A>C	uc003guy.3	+	7	1978	c.1640A>C	c.(1639-1641)AAG>ACG	p.K547T	N4BP2_uc010ifq.2_Missense_Mutation_p.K467T|N4BP2_uc010ifr.2_Missense_Mutation_p.K467T	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	547						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						ACATGGTGGAAGTTTAAACCA	0.363													38	172					0	0	0.007835	0	0		C	40115104	C	C	40115104	3	2	33	1	0	0	0	0	1	0	0	0	10128	72	3	5	1658	5	N4BP2	4	40115104	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1284724	40115104	151039172	79	31680											
ATP8A1	10396	broad.mit.edu	37	chr4	42583692	42583692	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actattccatgaacccactgTgtatttctcaactgagctcc	10	13	5	13	0	1	2	1	2	1	0	4	2	3	2	3	0	3	2	3	0	4	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:42583692T>A	uc003gwr.2	-	10	1012	c.780A>T	c.(778-780)ACA>ACT	p.T260T	ATP8A1_uc003gws.2_Silent_p.T260T|ATP8A1_uc011byz.1_Silent_p.T260T	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	260	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	GAACCCACTGTGTATTTCTCA	0.413													20	115					0	0	0.012319	0	0		A	42583692	A	A	42583692	2	1	33	1	0	0	0	0	0	0	0	1	1193	1683	59	5		5	ATP8A1	4	42583692	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	2468588	42583692	148570584	80	31681											
UGT2A1	10941	broad.mit.edu	37	chr4	70513235	70513235	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattatgctcctttttaatgAgctcatctataattatctta	11	19	3	8	0	3	1	1	1	2	0	4	1	4	1	1	0	2	2	1	0	6	8			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:70513235A>C	uc003hem.3	-	1	191	c.128T>G	c.(127-129)CTC>CGC	p.L43R	UGT2A1_uc011caq.1_Missense_Mutation_p.L43R|UGT2A1_uc010ihu.2_Missense_Mutation_p.L43R|UGT2A1_uc010iht.2_Missense_Mutation_p.L43R	NM_006798	NP_006789	Q9Y4X1	UD2A1_HUMAN	UDP glucuronosyltransferase 2 family,	43	Extracellular (Potential).				detection of chemical stimulus|sensory perception of smell	integral to membrane	glucuronosyltransferase activity|glucuronosyltransferase activity			ovary(1)	1						CTTTTTAATGAGCTCATCTAT	0.393													12	44					0	0	0.010729	0	0		C	70513235	C	C	70513235	3	2	33	1	0	0	0	0	1	0	0	0	16979	304	11	5	1479	5	UGT2A1	4	70513235	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	27929543	70513235	120641041	81	31682											
MEPE	56955	broad.mit.edu	37	chr4	88766376	88766376	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggatgtcaatttatcctaAgtcaactgggaataaagggt	14	11	11	5	0	2	0	2	0	0	0	3	3	3	2	1	3	1	0	1	3	7	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:88766376A>C	uc003hqy.2	+	4	395	c.356A>C	c.(355-357)AAG>ACG	p.K119T	MEPE_uc010ikn.2_Missense_Mutation_p.K6T	NM_020203	NP_064588	Q9NQ76	MEPE_HUMAN	matrix, extracellular phosphoglycoprotein with	119					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			ovary(1)|lung(1)|skin(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000432)		ATTTATCCTAAGTCAACTGGG	0.363													10	30					0	0	0.008291	0	0		C	88766376	C	C	88766376	3	2	33	1	0	0	0	0	1	0	0	0	9496	72	3	5	366	5	MEPE	4	88766376	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	18253141	88766376	102387900	82	31683											
FAM13A	10144	broad.mit.edu	37	chr4	89950685	89950685	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggtgagcccctgccgttcaAgttcttggagactgactcca	7	10	11	13	2	2	3	1	2	1	1	3	4	3	3	4	2	2	2	4	2	1	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:89950685A>C	uc003hse.1	-	2	351	c.143T>G	c.(142-144)CTT>CGT	p.L48R	FAM13A_uc003hsf.1_5'UTR|FAM13A_uc003hsh.1_5'UTR|FAM13A_uc003hsi.2_Missense_Mutation_p.L48R|FAM13A_uc003hsj.2_Missense_Mutation_p.L48R	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	48	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						CTGCCGTTCAAGTTCTTGGAG	0.428													36	135					0	0	0.005524	0	0		C	89950685	C	C	89950685	3	2	33	1	0	0	0	0	1	0	0	0	5463	72	3	5	3053	5	FAM13A	4	89950685	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1184309	89950685	101203591	83	31684											
C4orf37	285555	broad.mit.edu	37	chr4	98902359	98902359	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaatcgaacagcactttgAccaaatggaatatttttcag	14	12	8	7	1	1	2	1	2	0	0	2	4	1	3	1	1	2	1	1	1	5	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:98902359A>T	uc003htt.1	-	6	813	c.723T>A	c.(721-723)GGT>GGA	p.G241G		NM_174952	NP_777612	Q8N412	CD037_HUMAN	hypothetical protein LOC285555	241											0				OV - Ovarian serous cystadenocarcinoma(123;2.27e-08)		CAGCACTTTGACCAAATGGAA	0.388													28	116					0	0	0.007291	0	0		T	98902359	T	T	98902359	2	4	33	1	0	0	0	0	0	0	0	1	2270	262	10	5		5	C4orf37	4	98902359	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	8951674	98902359	92251917	84	31685											
EIF4E	1977	broad.mit.edu	37	chr4	99823081	99823081	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggttagcaacctcctgattaGattccgttttctcctcttct	6	17	6	12	1	3	2	0	1	3	1	6	2	5	2	4	1	2	3	4	1	3	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:99823081G>C	uc003hue.2	-	2	1594	c.71C>G	c.(70-72)TCT>TGT	p.S24C	EIF4E_uc011cea.1_Missense_Mutation_p.S44C|EIF4E_uc011ceb.1_Missense_Mutation_p.S24C|EIF4E_uc011cec.1_Missense_Mutation_p.S24C	NM_001968	NP_001959	P06730	IF4E_HUMAN	eukaryotic translation initiation factor 4E	24					G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|interspecies interaction between organisms|mRNA export from nucleus|nuclear-transcribed mRNA poly(A) tail shortening|positive regulation of mitotic cell cycle|regulation of translation	cytoplasmic mRNA processing body|cytosol|eukaryotic translation initiation factor 4F complex|mRNA cap binding complex|RNA-induced silencing complex	protein binding|RNA cap binding|translation initiation factor activity			lung(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)|LUSC - Lung squamous cell carcinoma(721;0.00227)		CTCCTGATTAGATTCCGTTTT	0.378													53	160					0	0	0.01441	0	0		C	99823081	C	C	99823081	3	2	33	1	0	0	0	0	1	0	0	0	5036	942	33	5	703	5	EIF4E	4	99823081	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	920722	99823081	91331195	85	31686											
NDST3	9348	broad.mit.edu	37	chr4	119163259	119163259	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgatggatgaagtacagaAgtttctaggagtcttgcctc	11	12	12	6	0	2	3	0	2	2	1	3	5	2	5	1	2	2	2	1	2	4	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:119163259A>C	uc003ibx.2	+	12	2757	c.2354A>C	c.(2353-2355)AAG>ACG	p.K785T		NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	785	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						GAAGTACAGAAGTTTCTAGGA	0.299													22	106					0	0	0.00278	0	0		C	119163259	C	C	119163259	3	2	33	1	0	0	0	0	1	0	0	0	10276	72	3	5	2396	5	NDST3	4	119163259	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	19340178	119163259	71991017	86	31687											
ADAD1	132612	broad.mit.edu	37	chr4	123332388	123332388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttattttaggtacttttataGacaacttctgctcttctaca	10	19	4	8	0	3	1	0	0	3	1	3	1	3	1	0	1	4	2	0	1	7	10			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:123332388G>A	uc003ieo.2	+	9	1092	c.860G>A	c.(859-861)AGA>AAA	p.R287K	ADAD1_uc003iep.2_Intron|ADAD1_uc003ieq.2_Missense_Mutation_p.R269K	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	287	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						TACTTTTATAGACAACTTCTG	0.289													7	32					0	0	0.001984	0	0		A	123332388	A	A	123332388	3	1	33	1	0	0	0	0	1	0	0	0	231	942	33	4	886	4	ADAD1	4	123332388	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	4169129	123332388	67821888	87	31688											
FAT4	79633	broad.mit.edu	37	chr4	126389829	126389829	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgacaaccagacaggcgAccgggctgagtttttggccc	9	8	12	12	2	0	3	0	2	0	1	0	4	0	3	3	3	1	2	3	3	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:126389829A>T	uc003ifj.3	+	11	12062	c.12062A>T	c.(12061-12063)GAC>GTC	p.D4021V	FAT4_uc011cgp.1_Missense_Mutation_p.D2284V|FAT4_uc003ifi.1_Missense_Mutation_p.D1499V	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4021	Laminin G-like 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAGACAGGCGACCGGGCTGAG	0.403													15	53					0	0	0.004007	0	0		T	126389829	T	T	126389829	3	4	33	1	0	0	0	0	1	0	0	0	5706	275	10	5	12104	5	FAT4	4	126389829	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	3057441	126389829	64764447	88	31689											
FAT4	79633	broad.mit.edu	37	chr4	126411383	126411383	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagatggtggtggcctgtcTtggcgtcctctgtcctcagg	3	13	15	10	1	3	1	1	1	2	1	5	2	5	1	3	5	0	0	3	5	0	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:126411383T>A	uc003ifj.3	+	17	13406	c.13406T>A	c.(13405-13407)CTT>CAT	p.L4469H	FAT4_uc011cgp.1_Missense_Mutation_p.L2710H|FAT4_uc003ifi.1_Missense_Mutation_p.L1946H	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4469	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GTGGCCTGTCTTGGCGTCCTC	0.602													14	57					0	0	0.00245	0	0		A	126411383	A	A	126411383	3	1	33	1	0	0	0	0	1	0	0	0	5706	1609	56	5	13472	5	FAT4	4	126411383	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	21554	126411383	64742893	89	31690											
DCHS2	54798	broad.mit.edu	37	chr4	155287504	155287504	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggtctcatcactgatgctCgtcacataggttgatgggtt	7	14	12	8	1	3	2	3	2	1	0	5	2	3	2	0	3	1	3	0	3	1	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:155287504C>T	uc003inw.2	-	5	552	c.552G>A	c.(550-552)ACG>ACA	p.T184T	DCHS2_uc003inx.2_Silent_p.T778T	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	184	Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CACTGATGCTCGTCACATAGG	0.502													12	38					0	0	0.013537	0	0		T	155287504	T	T	155287504	2	4	33	1	0	0	0	0	0	0	0	1	4291	871	31	1		1	DCHS2	4	155287504	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	28876121	155287504	35866772	90	31691											
GRIA2	2891	broad.mit.edu	37	chr4	158254090	158254090	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagactgtctggcaaacccAgcagtgccctggggacaagg	10	5	15	11	0	1	1	0	0	1	1	1	3	1	2	2	5	3	2	2	5	2	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr4:158254090A>G	uc003ipm.3	+	7	1461	c.1002A>G	c.(1000-1002)CCA>CCG	p.P334P	GRIA2_uc011cit.1_Silent_p.P287P|GRIA2_uc003ipl.3_Silent_p.P334P|GRIA2_uc003ipk.3_Silent_p.P287P|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	334	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	TGGCAAACCCAGCAGTGCCCT	0.458													9	57					0	0	0.006214	0	0		G	158254090	G	G	158254090	2	3	33	1	0	0	0	0	0	0	0	1	6784	175	7	3		3	GRIA2	4	158254090	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	2966586	158254090	32900186	91	31692											
CTNND2	1501	broad.mit.edu	37	chr5	11364952	11364952	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggactgcagggcccgcaActctgggcccaggtgcccat	6	6	15	14	1	1	0	0	0	1	0	1	1	1	1	3	5	3	2	3	5	1	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:11364952A>C	uc003jfa.1	-	8	1373	c.1228T>G	c.(1228-1230)TTG>GTG	p.L410V	CTNND2_uc010itt.2_Missense_Mutation_p.L319V|CTNND2_uc011cmy.1_Missense_Mutation_p.L73V|CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_5'UTR	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	410	ARM 1.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						AGGGCCCGCAACTCTGGGCCC	0.572													18	98					0	0	0.014323	0	0		C	11364952	C	C	11364952	3	2	33	1	0	0	0	0	1	0	0	0	4023	40	2	5	2509	5	CTNND2	5	11364952	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08		11364952	169550308	92	31693											
DNAH5	1767	broad.mit.edu	37	chr5	13729648	13729648	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggttttggaggacaagctTtaaggtctaatgaggcacct	11	12	12	6	0	1	1	0	1	1	0	1	3	1	3	1	5	1	3	1	5	3	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:13729648T>G	uc003jfd.2	-	69	11825	c.11783A>C	c.(11782-11784)AAA>ACA	p.K3928T	DNAH5_uc003jfc.2_Missense_Mutation_p.K96T	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3928					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGGACAAGCTTTAAGGTCTAA	0.333									Kartagener_syndrome				7	45					0	0	0.001984	0	0		G	13729648	G	G	13729648	3	3	33	1	0	0	0	0	1	0	0	0	4610	1841	64	5	2135	5	DNAH5	5	13729648	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	2364696	13729648	167185612	93	31694											
DNAH5	1767	broad.mit.edu	37	chr5	13751364	13751364	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctacttccttgtcaccaacTttcaccttttttataaaaag	11	17	2	11	0	3	0	2	0	1	0	4	0	4	0	3	0	2	0	3	0	6	8			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:13751364T>G	uc003jfd.2	-	65	11076	c.11034A>C	c.(11032-11034)AAA>AAC	p.K3678N	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3678	AAA 5 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TGTCACCAACTTTCACCtttt	0.328									Kartagener_syndrome				13	33					0	0	0.013537	0	0		G	13751364	G	G	13751364	3	3	33	1	0	0	0	0	1	0	0	0	4610	1606	56	5	2900	5	DNAH5	5	13751364	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	21716	13751364	167163896	94	31695											
BRIX1	55299	broad.mit.edu	37	chr5	34915867	34915867	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcggcaaccaagaggaaacgGcgtggaggctttgcagttca	11	6	15	9	3	1	1	1	0	0	1	1	3	1	3	1	5	3	4	1	5	3	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:34915867G>A	uc003jja.2	+	1	48	c.24G>A	c.(22-24)CGG>CGA	p.R8R	RAD1_uc003jiw.2_5'Flank|RAD1_uc003jix.2_5'Flank|RAD1_uc003jiy.2_Intron|BRIX1_uc003jiz.2_Silent_p.R8R|BRIX1_uc011col.1_Silent_p.R8R	NM_018321	NP_060791	Q8TDN6	BRX1_HUMAN	BRIX	8					ribosome biogenesis|translation	nucleolus	aminoacyl-tRNA ligase activity|ATP binding|protein binding				0						AGAGGAAACGGCGTGGAGGCT	0.607													5	7					0	0	0.001984	0	0		A	34915867	A	A	34915867	2	1	33	1	0	0	0	0	0	0	0	1	1518	1190	42	2		2	BRIX1	5	34915867	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	21164503	34915867	145999393	95	31696											
SPEF2	79925	broad.mit.edu	37	chr5	35727819	35727819	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaggaaaagtaccagtaaAgaaatcacctgctgactcta	17	7	9	8	0	2	2	1	1	1	1	2	4	2	4	2	2	2	3	2	2	7	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:35727819A>G	uc003jjo.2	+	21	3068	c.2957A>G	c.(2956-2958)AAG>AGG	p.K986R	SPEF2_uc003jjp.1_Missense_Mutation_p.K472R	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	986					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GTACCAGTAAAGAAATCACCT	0.398													14	55					0	0	0.001855	0	0		G	35727819	G	G	35727819	3	3	33	1	0	0	0	0	1	0	0	0	15060	72	3	3	3060	3	SPEF2	5	35727819	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	811952	35727819	145187441	96	31697											
SPEF2	79925	broad.mit.edu	37	chr5	35814620	35814620	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaaggaagtgatggagagAgatcaccttcaagacataca	17	7	10	7	0	2	4	2	1	0	3	2	7	2	5	1	2	2	0	1	2	5	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:35814620A>C	uc003jjo.2	+	37	5545	c.5434A>C	c.(5434-5436)AGA>CGA	p.R1812R	SPEF2_uc003jjr.2_Silent_p.R867R	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1812					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGATGGAGAGAGATCACCTTC	0.308													10	51					0	0	0.010729	0	0		C	35814620	C	C	35814620	2	2	33	1	0	0	0	0	0	0	0	1	15060	296	11	5		5	SPEF2	5	35814620	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	86801	35814620	145100640	97	31698											
HSPB3	8988	broad.mit.edu	37	chr5	53752045	53752045	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatggaattttggtggtggaAgtaaaggatccagttgggac	11	11	16	3	0	0	0	0	0	0	0	1	5	1	4	1	6	0	2	1	6	4	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:53752045A>C	uc003jph.1	+	1	601	c.426A>C	c.(424-426)GAA>GAC	p.E142D		NM_006308	NP_006299	Q12988	HSPB3_HUMAN	heat shock 27kDa protein 3	142					cell death|response to heat|response to unfolded protein	cytoplasm|nucleus					0		Lung NSC(810;0.00104)				TGGTGGTGGAAGTAAAGGATC	0.443													13	59					0	0	0.013537	0	0		C	53752045	C	C	53752045	3	2	33	1	0	0	0	0	1	0	0	0	7437	69	3	5	428	5	HSPB3	5	53752045	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	17937425	53752045	127163215	98	31699											
NAIP	4671	broad.mit.edu	37	chr5	70405051	70405051	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagctttctgggtggtcgAaaaagtactgtaagttaagc	13	11	11	6	1	1	0	0	0	1	0	2	1	1	0	0	2	3	4	0	2	6	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:70405051A>G	uc003kat.1	-	1	2813	c.1547T>C	c.(1546-1548)TTC>TCC	p.F516S		NM_022892	NP_075043	Q13075	BIRC1_HUMAN	NLR family, apoptosis inhibitory protein isoform	904					anti-apoptosis|apoptosis|nervous system development	basolateral plasma membrane|cytoplasm	caspase inhibitor activity|metal ion binding|nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(1)	1		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		TGGGTGGTCGAAAAAGTACTG	0.428													38	258					0	0	0.010771	0	0		G	70405051	G	G	70405051	3	3	33	1	0	0	0	0	1	0	0	0	10165	261	9	3		3	NAIP	5	70405051	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	16653006	70405051	110510209	99	31700											
RASGRF2	5924	broad.mit.edu	37	chr5	80390141	80390141	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggttctgtctctaatagaCtgcacattgattgaggagcc	9	12	12	8	0	2	3	0	2	2	1	3	4	2	4	1	3	2	2	1	3	2	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:80390141C>A	uc003kha.1	+	11	1578	c.1578C>A	c.(1576-1578)GAC>GAA	p.D526E	RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	526	PH 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		CTCTAATAGACTGCACATTGA	0.438													3	27					0.004672	0.00471671	0.004672	1	0		A	80390141	A	A	80390141	3	1	33	1	0	0	0	0	1	0	0	0	13098	564	20	5	1620	5	RASGRF2	5	80390141	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	9985090	80390141	100525119	100	31701											
SLCO4C1	353189	broad.mit.edu	37	chr5	101631706	101631706	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaagttcctccagccgtaAgacccctcctcaaactcgga	10	8	8	15	2	1	1	1	0	0	1	5	3	4	3	6	2	2	2	6	2	3	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:101631706A>C	uc003knm.2	-	1	548	c.261T>G	c.(259-261)TCT>TCG	p.S87S		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	87	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		TCCAGCCGTAAGACCCCTCCT	0.572													13	38					0	0	0.001855	0	0		C	101631706	C	C	101631706	2	2	33	1	0	0	0	0	0	0	0	1	14755	59	3	5		5	SLCO4C1	5	101631706	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	21241565	101631706	79283554	101	31702											
KCNN2	3781	broad.mit.edu	37	chr5	113822854	113822854	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaagaaaacatcaacgaaaAttcctgcaagctattcatca	18	9	5	9	1	3	1	3	0	0	1	4	2	4	1	1	0	4	3	1	0	8	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:113822854A>C	uc003kqo.2	+	6	1819	c.1362A>C	c.(1360-1362)AAA>AAC	p.K454N	KCNN2_uc003kqp.2_Missense_Mutation_p.K106N|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	454	Calmodulin-binding (By similarity).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		ATCAACGAAAATTCCTGCAAG	0.323													9	44					0	0	0.008291	0	0		C	113822854	C	C	113822854	3	2	33	1	0	0	0	0	1	0	0	0	8095	98	4	5	1384	5	KCNN2	5	113822854	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	12191148	113822854	67092406	102	31703											
ACSL6	23305	broad.mit.edu	37	chr5	131307262	131307262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcaccctagagctgccCggagaaatcccagaactgtt	10	7	10	14	1	0	3	0	0	0	3	1	4	1	3	4	2	3	3	4	2	3	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:131307262C>T	uc010jdo.1	-	14	1423	c.1340G>A	c.(1339-1341)CGG>CAG	p.R447Q	ACSL6_uc003kvv.1_RNA|ACSL6_uc003kvx.1_Missense_Mutation_p.R472Q|ACSL6_uc003kvy.1_Missense_Mutation_p.R472Q|ACSL6_uc003kwb.2_Missense_Mutation_p.R437Q|ACSL6_uc003kvz.1_Missense_Mutation_p.R372Q|ACSL6_uc003kwa.1_Missense_Mutation_p.R458Q|ACSL6_uc003kvw.1_Missense_Mutation_p.R93Q|ACSL6_uc010jdn.1_Missense_Mutation_p.R462Q	NM_015256	NP_056071	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6	447	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TAGAGCTGCCCGGAGAAATCC	0.532													7	18					0	0	0.001984	0	0		T	131307262	T	T	131307262	3	4	33	1	0	0	0	0	1	0	0	0	181	652	23	1	785	1	ACSL6	5	131307262	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	17484408	131307262	49607998	103	31704											
PCDHA6	56142	broad.mit.edu	37	chr5	140209285	140209285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcagtttcaggtgagcGcgcgcgacgcgggcgtgccg	4	7	18	12	8	1	1	1	1	0	0	1	2	1	1	1	2	4	3	1	2	0	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:140209285G>A	uc003lho.2	+	1	1636	c.1609G>A	c.(1609-1611)GCG>ACG	p.A537T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Missense_Mutation_p.A537T	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	537	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAGGTGAGCGCGCGCGACGC	0.677													34	120					0	0	0.012213	0	0		A	140209285	A	A	140209285	3	1	33	1	0	0	0	0	1	0	0	0	11547	1087	38	1	1611	1	PCDHA6	5	140209285	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	8902023	140209285	40705975	104	31705											
PCDHA8	56140	broad.mit.edu	37	chr5	140222313	140222313	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtgaaggagaacaacccGccgggctgccacatcttcac	10	7	10	14	3	2	2	1	1	1	1	3	3	2	2	3	2	3	1	3	2	3	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:140222313G>A	uc003lhs.2	+	1	1407	c.1407G>A	c.(1405-1407)CCG>CCA	p.P469P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.P469P	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	469	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAACAACCCGCCGGGCTGCC	0.672													20	48					0	0	0.010504	0	0		A	140222313	A	A	140222313	2	1	33	1	0	0	0	0	0	0	0	1	11549	1074	38	1		1	PCDHA8	5	140222313	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	13028	140222313	40692947	105	31706											
PCDHB12	56124	broad.mit.edu	37	chr5	140589755	140589755	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccatcaccgtcaccgacTtggggacccccaggctaaaa	11	6	8	16	2	3	0	3	0	0	0	3	2	3	1	5	3	0	1	5	3	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:140589755T>A	uc003liz.2	+	1	1465	c.1276T>A	c.(1276-1278)TTG>ATG	p.L426M	PCDHB12_uc011dak.1_Missense_Mutation_p.L89M	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	426	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGTCACCGACTTGGGGACCCC	0.522													14	63					0	0	0.003163	0	0		A	140589755	A	A	140589755	3	1	33	1	0	0	0	0	1	0	0	0	11556	1606	56	5	1278	5	PCDHB12	5	140589755	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	367442	140589755	40325505	106	31707											
PCDHGB2	56103	broad.mit.edu	37	chr5	140741903	140741903	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcctggtctcagctccaAgcctggacctggggttctcc	5	10	11	15	0	3	0	2	0	2	0	6	1	4	1	5	4	3	2	5	4	1	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:140741903A>C	uc003ljs.1	+	1	2201	c.2201A>C	c.(2200-2202)AAG>ACG	p.K734T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Missense_Mutation_p.K734T|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	734	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCAGCTCCAAGCCTGGACCT	0.527													27	125					0	0	0.005443	0	0		C	140741903	C	C	140741903	3	2	33	1	0	0	0	0	1	0	0	0	11582	72	3	5	2203	5	PCDHGB2	5	140741903	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	152148	140741903	40173357	107	31708											
KCTD16	57528	broad.mit.edu	37	chr5	143853664	143853664	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaatctgaacttttaaggaAgtatcatctataagggaggg	14	11	11	5	0	3	1	1	1	2	0	3	3	3	3	0	3	1	2	0	3	7	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:143853664A>C	uc003lnm.1	+	4	1903	c.1274A>C	c.(1273-1275)AAG>ACG	p.K425T	KCTD16_uc003lnn.1_Missense_Mutation_p.K425T	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	425						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			CTTTTAAGGAAGTATCATCTA	0.358													10	73					0	0	0.006214	0	0		C	143853664	C	C	143853664	3	2	33	1	0	0	0	0	1	0	0	0	8119	72	3	5	1280	5	KCTD16	5	143853664	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	3111761	143853664	37061596	108	31709											
SH3TC2	79628	broad.mit.edu	37	chr5	148424152	148424152	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggtcttgaaggtgatgAgaaactgggccctctgagac	10	9	13	9	0	2	4	0	4	2	2	2	6	2	4	2	3	1	0	2	3	2	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:148424152A>G	uc003lpu.2	-	4	481	c.329T>C	c.(328-330)CTC>CCC	p.L110P	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc003lps.2_5'Flank|SH3TC2_uc003lpt.2_5'UTR|SH3TC2_uc010jgx.2_Missense_Mutation_p.L110P|SH3TC2_uc003lpv.1_5'UTR|SH3TC2_uc011dbz.1_5'UTR|SH3TC2_uc003lpw.1_3'UTR	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	110							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAAGGTGATGAGAAACTGGGC	0.483													10	46					0	0	0.010729	0	0		G	148424152	G	G	148424152	3	3	33	1	0	0	0	0	1	0	0	0	14287	304	11	3	3593	3	SH3TC2	5	148424152	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	4570488	148424152	32491108	109	31710											
GRIA1	2890	broad.mit.edu	37	chr5	153149735	153149735	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtccctaccagaggtctaAaattgctgtgtttgagaaga	11	12	10	8	0	1	3	0	1	1	3	2	4	2	3	2	1	2	2	2	1	4	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:153149735A>C	uc003lva.3	+	13	2395	c.2030A>C	c.(2029-2031)AAA>ACA	p.K677T	GRIA1_uc003luy.3_Missense_Mutation_p.K677T|GRIA1_uc003luz.3_Missense_Mutation_p.K582T|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.K597T|GRIA1_uc011dcx.1_Missense_Mutation_p.K608T|GRIA1_uc011dcy.1_Missense_Mutation_p.K687T|GRIA1_uc011dcz.1_Missense_Mutation_p.K687T	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	677	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CAGAGGTCTAAAATTGCTGTG	0.468													22	89					0	0	0.014323	0	0		C	153149735	C	C	153149735	3	2	33	1	0	0	0	0	1	0	0	0	6783	14	1	5	2080	5	GRIA1	5	153149735	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	4725583	153149735	27765525	110	31711											
ITK	3702	broad.mit.edu	37	chr5	156649893	156649893	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaccactttgggaacctgaAgaaactgtggtcattgcctt	10	11	10	10	1	1	2	1	1	0	1	1	4	1	3	3	2	3	0	3	2	3	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:156649893A>C	uc003lwo.1	+	6	598	c.516A>C	c.(514-516)GAA>GAC	p.E172D		NM_005546	NP_005537	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase	172	SH3.			PE -> GS (in Ref. 6; AA sequence).	cellular defense response|intracellular signal transduction|T cell receptor signaling pathway	cytosol|plasma membrane	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(12)|ovary(8)|skin(4)|stomach(1)|central_nervous_system(1)	26	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GGGAACCTGAAGAAACTGTGG	0.488			T	SYK	peripheral T-cell lymphoma								9	56					0	0	0.010729	0	0		C	156649893	C	C	156649893	3	2	33	1	0	0	0	0	1	0	0	0	7925	69	3	5	538	5	ITK	5	156649893	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	3500158	156649893	24265367	111	31712											
SLIT3	6586	broad.mit.edu	37	chr5	168671766	168671766	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcgatgacgctgacctggTtgtcttccagatgcctacaa	8	12	9	12	2	2	3	0	2	2	1	4	4	3	3	3	1	2	2	3	1	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr5:168671766T>C	uc003mab.2	-	3	704	c.284A>G	c.(283-285)AAC>AGC	p.N95S	SLIT3_uc010jjg.2_Missense_Mutation_p.N95S|SLIT3_uc010jji.2_Missense_Mutation_p.N95S	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	95	LRR 2.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCTGACCTGGTTGTCTTCCAG	0.498													11	40					0	0	0.013537	0	0		C	168671766	C	C	168671766	3	2	33	1	0	0	0	0	1	0	0	0	14766	1725	60	3	4423	3	SLIT3	5	168671766	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	12021873	168671766	12243494	112	31713											
CCHCR1	54535	broad.mit.edu	37	chr6	31116191	31116191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccctgatacctgctgacaGcattgaccacaagcctcagc	11	8	7	15	0	1	3	1	3	0	0	2	3	2	3	4	0	5	2	4	0	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:31116191G>A	uc003nsr.3	-	10	1427	c.1304C>T	c.(1303-1305)GCT>GTT	p.A435V	CCHCR1_uc011dne.1_Missense_Mutation_p.A435V|CCHCR1_uc003nsq.3_Missense_Mutation_p.A488V|CCHCR1_uc003nsp.3_Missense_Mutation_p.A524V|CCHCR1_uc010jsk.1_Missense_Mutation_p.A435V	NM_019052	NP_061925	Q8TD31	CCHCR_HUMAN	coiled-coil alpha-helical rod protein 1 isoform	435	Potential.				cell differentiation|multicellular organismal development	cytoplasm|nucleus	protein binding			skin(1)	1						CCTGCTGACAGCATTGACCAC	0.627													4	93					0	0	0.000602	0	0		A	31116191	A	A	31116191	3	1	33	1	0	0	0	0	1	0	0	0	2880	971	34	2	1080	2	CCHCR1	6	31116191	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08		31116191	139998876	113	31714											
PBX2	5089	broad.mit.edu	37	chr6	32156083	32156083	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatgtgacggatctgggcaAgtttgctgcgatagtccgag	9	11	14	7	3	1	1	0	1	1	0	2	4	2	2	1	2	2	3	1	2	3	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:32156083A>C	uc003oav.1	-	3	765	c.494T>G	c.(493-495)CTT>CGT	p.L165R	PBX2_uc003oaw.2_Missense_Mutation_p.L165R	NM_002586	NP_002577	P40425	PBX2_HUMAN	pre-B-cell leukemia homeobox 2	165							transcription factor binding			ovary(1)	1						GATCTGGGCAAGTTTGCTGCG	0.592													23	74					0	0	0.00278	0	0		C	32156083	C	C	32156083	3	2	33	1	0	0	0	0	1	0	0	0	11512	72	3	5	826	5	PBX2	6	32156083	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1039892	32156083	138958984	114	31715											
USP49	25862	broad.mit.edu	37	chr6	41766457	41766457	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccacagagtaaagcgcaCgcacctccctctgtgttgta	10	8	8	15	2	1	1	0	0	1	1	2	1	2	1	4	0	1	5	4	0	3	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:41766457C>T	uc003ori.2	-	7	2103	c.1881G>A	c.(1879-1881)GCG>GCA	p.A627A		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	Error:Variant_position_missing_in_Q70CQ1_after_alignment					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GTAAAGCGCACGCACCTCCCT	0.493													31	127					0	0	0.008361	0	0		T	41766457	T	T	41766457	2	4	33	1	0	0	0	0	0	0	0	1	17106	523	19	1		1	USP49	6	41766457	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	9610374	41766457	129348610	115	31716											
PRPH2	5961	broad.mit.edu	37	chr6	42690053	42690053	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccgcttcttctggtcaaacTtgactttcagtagcgccatg	7	13	8	13	2	4	1	2	1	2	0	4	1	4	1	2	1	2	2	2	1	2	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:42690053T>G	uc003osk.2	-	1	306	c.20A>C	c.(19-21)AAG>ACG	p.K7T		NM_000322	NP_000313	P23942	PRPH2_HUMAN	peripherin 2	7	Cytoplasmic (Potential).				cell adhesion|visual perception	integral to membrane				ovary(4)|central_nervous_system(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.00178)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0904)			CTGGTCAAACTTGACTTTCAG	0.552													15	55					0	0	0.003163	0	0		G	42690053	G	G	42690053	3	3	33	1	0	0	0	0	1	0	0	0	12599	1609	56	5	1032	5	PRPH2	6	42690053	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	923596	42690053	128425014	116	31717											
RUNX2	860	broad.mit.edu	37	chr6	45514961	45514961	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagaatgatggtgttgaCgctgatggaagccacagcag	13	7	13	8	1	0	4	0	3	0	1	0	5	0	5	2	2	3	3	2	2	3	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:45514961C>T	uc011dvx.1	+	9	1695	c.1485C>T	c.(1483-1485)GAC>GAT	p.D495D	RUNX2_uc011dvy.1_Silent_p.D473D|RUNX2_uc003oxt.2_Silent_p.D481D	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	495	Pro/Ser/Thr-rich.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						ATGGTGTTGACGCTGATGGAA	0.493													30	120					0	0	0.008361	0	0		T	45514961	T	T	45514961	2	4	33	1	0	0	0	0	0	0	0	1	13773	535	19	1		1	RUNX2	6	45514961	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	2824908	45514961	125600106	117	31718											
PKHD1	5314	broad.mit.edu	37	chr6	51612651	51612651	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccatggctcctgaggccActgatttggttctgaggtga	6	12	14	9	0	1	4	0	4	1	0	2	4	2	4	3	4	1	2	3	4	0	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:51612651A>G	uc003pah.1	-	58	10039	c.9763T>C	c.(9763-9765)TGG>CGG	p.W3255R	PKHD1_uc010jzn.1_Missense_Mutation_p.W1238R|PKHD1_uc003pai.2_Missense_Mutation_p.W3255R	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3255	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TCCTGAGGCCACTGATTTGGT	0.443													19	115					0	0	0.007413	0	0		G	51612651	G	G	51612651	3	3	33	1	0	0	0	0	1	0	0	0	11990	159	6	3	2540	3	PKHD1	6	51612651	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	6097690	51612651	119502416	118	31719											
BMP5	653	broad.mit.edu	37	chr6	55659183	55659183	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaagccaacccacatctaaAgcttgggcctttcttgtgtc	10	11	7	13	0	2	0	0	0	2	0	3	0	2	0	3	1	3	1	3	1	4	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:55659183A>C	uc003pcq.2	-	3	1438	c.726T>G	c.(724-726)GCT>GCG	p.A242A	BMP5_uc011dxf.1_Silent_p.A242A	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	242					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			CCACATCTAAAGCTTGGGCCT	0.383													15	131					0	0	0.004007	0	0		C	55659183	C	C	55659183	2	2	33	1	0	0	0	0	0	0	0	1	1464	59	3	5		5	BMP5	6	55659183	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	4046532	55659183	115455884	119	31720											
ZNF451	26036	broad.mit.edu	37	chr6	57013172	57013172	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttatgttcggcaacagcacaGaatttaaccgacatgaacac	15	9	7	10	2	0	2	0	1	0	1	1	3	0	2	1	1	4	3	1	1	5	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:57013172G>A	uc003pdm.1	+	10	2513	c.2289G>A	c.(2287-2289)CAG>CAA	p.Q763Q	ZNF451_uc003pdl.2_Silent_p.Q763Q|ZNF451_uc003pdn.1_Silent_p.Q763Q|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Silent_p.Q763Q	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	763	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			CAACAGCACAGAATTTAACCG	0.418													3	20					0	0	0.004672	0	0		A	57013172	A	A	57013172	2	1	33	1	0	0	0	0	0	0	0	1	17947	933	33	4		4	ZNF451	6	57013172	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	1353989	57013172	114101895	120	31721											
COL12A1	1303	broad.mit.edu	37	chr6	75844528	75844528	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaggagtgtctggcttcAgtttctgcaggaccacactg	8	12	12	9	0	3	0	1	0	2	0	3	2	3	2	1	3	1	4	1	3	1	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:75844528A>C	uc003phs.2	-	32	5604	c.5438T>G	c.(5437-5439)CTG>CGG	p.L1813R	COL12A1_uc003pht.2_Missense_Mutation_p.L649R	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1813	Fibronectin type-III 13.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GTCTGGCTTCAGTTTCTGCAG	0.493													18	83					0	0	0.006122	0	0		C	75844528	C	C	75844528	3	2	33	1	0	0	0	0	1	0	0	0	3672	188	7	5	3893	5	COL12A1	6	75844528	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	18831356	75844528	95270539	121	31722											
GPRC6A	222545	broad.mit.edu	37	chr6	117130660	117130660	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgccattgccactgtgacTtctgtacaagtgtcatagat	9	13	9	10	0	2	2	1	1	1	1	2	2	2	2	2	0	3	2	2	0	3	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:117130660T>G	uc003pxj.1	-	2	337	c.315A>C	c.(313-315)GAA>GAC	p.E105D	GPRC6A_uc003pxk.1_Missense_Mutation_p.E105D|GPRC6A_uc003pxl.1_Missense_Mutation_p.E105D	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	105	Extracellular (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		CCACTGTGACTTCTGTACAAG	0.418													12	59					0	0	0.010729	0	0		G	117130660	G	G	117130660	3	3	33	1	0	0	0	0	1	0	0	0	6744	1606	56	5	2485	5	GPRC6A	6	117130660	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	41286132	117130660	53984407	122	31723											
SLC35F1	222553	broad.mit.edu	37	chr6	118635300	118635300	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgagtgtataagcagttccGcaatccttcaggacctgttg	9	11	10	11	2	1	0	1	0	0	0	3	2	3	1	4	1	1	5	4	1	3	5	rs138680595	byFrequency	TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:118635300G>A	uc003pxx.3	+	8	1313	c.1112G>A	c.(1111-1113)CGC>CAC	p.R371H	SLC35F1_uc003pxy.1_Missense_Mutation_p.R176H	NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	371					transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		AAGCAGTTCCGCAATCCTTCA	0.557													14	132					0	0	0.004007	0	0		A	118635300	A	A	118635300	3	1	33	1	0	0	0	0	1	0	0	0	14613	1087	38	1	1142	1	SLC35F1	6	118635300	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	1504640	118635300	52479767	123	31724											
C6orf174	387104	broad.mit.edu	37	chr6	127834069	127834069	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagttcattctgtaaagcTtgctttgcaatttcaacttc	9	17	5	10	0	3	0	2	0	1	0	5	0	4	0	1	0	4	5	1	0	4	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:127834069T>C	uc003qbd.2	-	4	2317	c.1452A>G	c.(1450-1452)CAA>CAG	p.Q484Q		NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	484	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		TCTGTAAAGCTTGCTTTGCAA	0.328													5	38					0	0	0.000602	0	0		C	127834069	C	C	127834069	2	2	33	1	0	0	0	0	0	0	0	1	2348	1606	56	3		3	C6orf174	6	127834069	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	9198769	127834069	43280998	124	31725											
UTRN	7402	broad.mit.edu	37	chr6	144768817	144768817	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggatgtgggacaattacTtgataattccaaggcatcta	13	11	9	8	0	1	1	0	1	1	0	2	3	2	3	2	3	1	1	2	3	5	5	rs116045799	by1000genomes	TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:144768817T>G	uc003qkt.2	+	15	1894	c.1802T>G	c.(1801-1803)CTT>CGT	p.L601R	UTRN_uc010khq.1_Missense_Mutation_p.L601R	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	601	Interaction with SYNM.|Spectrin 4.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GGACAATTACTTGATAATTCC	0.398													13	87					0	0	0.00245	0	0		G	144768817	G	G	144768817	3	3	33	1	0	0	0	0	1	0	0	0	17129	1609	56	5	1860	5	UTRN	6	144768817	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	16934748	144768817	26346250	125	31726											
UTRN	7402	broad.mit.edu	37	chr6	144801062	144801062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgaggaagaatatttggagCgggattttgagtacaagtca	13	10	13	5	2	1	2	1	1	0	1	1	6	1	5	1	3	2	1	1	3	5	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:144801062C>T	uc003qkt.2	+	25	3543	c.3451C>T	c.(3451-3453)CGG>TGG	p.R1151W	UTRN_uc010khq.1_Missense_Mutation_p.R1151W	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1151	Spectrin 8.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		ATATTTGGAGCGGGATTTTGA	0.507													31	59					0	0	0.010818	0	0		T	144801062	T	T	144801062	3	4	33	1	0	0	0	0	1	0	0	0	17129	759	27	1	3549	1	UTRN	6	144801062	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	32245	144801062	26314005	126	31727											
UTRN	7402	broad.mit.edu	37	chr6	144832238	144832238	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagttcgtacctggactgaAgattggtgcaataccttgat	10	12	11	8	2	0	3	0	2	0	1	1	5	0	4	2	2	3	3	2	2	4	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:144832238A>C	uc003qkt.2	+	34	5015	c.4923A>C	c.(4921-4923)GAA>GAC	p.E1641D		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1641	Interaction with SYNM.|Spectrin 11.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		CCTGGACTGAAGATTGGTGCA	0.418													21	80					0	0	0.010504	0	0		C	144832238	C	C	144832238	3	2	33	1	0	0	0	0	1	0	0	0	17129	69	3	5	5057	5	UTRN	6	144832238	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	31176	144832238	26282829	127	31728											
FBXO30	84085	broad.mit.edu	37	chr6	146125620	146125620	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacacacatccctcattaacTtggatacacatgagagctga	14	9	6	12	0	1	2	1	2	0	1	2	4	2	3	1	1	3	1	1	1	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:146125620T>A	uc003qla.2	-	2	2121	c.1922A>T	c.(1921-1923)AAG>ATG	p.K641M	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	641							ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		CCTCATTAACTTGGATACACA	0.463													40	96					0	0	0.007835	0	0		A	146125620	A	A	146125620	3	1	33	1	0	0	0	0	1	0	0	0	5754	1609	56	5	323	5	FBXO30	6	146125620	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	1293382	146125620	24989447	128	31729											
SYNE1	23345	broad.mit.edu	37	chr6	152590341	152590341	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggtccatgtggtgcgagcTtgggccagccattcctggac	5	10	15	11	1	0	0	0	0	0	0	2	2	2	1	4	4	3	1	4	4	0	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:152590341T>C	uc010kiw.2	-	99	19256	c.18654A>G	c.(18652-18654)CAA>CAG	p.Q6218Q	SYNE1_uc010kiv.2_Silent_p.Q742Q|SYNE1_uc003qos.3_Silent_p.Q742Q|SYNE1_uc003qot.3_Silent_p.Q6147Q|SYNE1_uc003qou.3_Silent_p.Q6218Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6218	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TGGTGCGAGCTTGGGCCAGCC	0.557										HNSCC(10;0.0054)			35	82					0	0	0.004289	0	0		C	152590341	C	C	152590341	2	2	33	1	0	0	0	0	0	0	0	1	15470	1606	56	3		3	SYNE1	6	152590341	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	6464721	152590341	18524726	129	31730											
RGS17	26575	broad.mit.edu	37	chr6	153332885	153332885	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcacctctctaactcgagAatcaagactgacctaaaaag	16	8	6	11	1	3	3	2	1	1	2	5	5	3	3	2	0	1	0	2	0	6	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:153332885A>T	uc003qpm.2	-	5	613	c.457T>A	c.(457-459)TCT>ACT	p.S153T		NM_012419	NP_036551	Q9UGC6	RGS17_HUMAN	regulator of G-protein signalling 17	153	RGS.				negative regulation of signal transduction	cytoplasm|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			pancreas(1)	1		Ovarian(120;0.126)		OV - Ovarian serous cystadenocarcinoma(155;1.09e-09)|BRCA - Breast invasive adenocarcinoma(81;0.0429)		CTAACTCGAGAATCAAGACTG	0.328									Lung_Cancer_Familial_Clustering_of				9	42					0	0	0.004482	0	0		T	153332885	T	T	153332885	3	4	33	1	0	0	0	0	1	0	0	0	13324	246	9	5	179	5	RGS17	6	153332885	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	742544	153332885	17782182	130	31731											
T	6862	broad.mit.edu	37	chr6	166571913	166571913	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcggccgccccttcgtacaGtggggatcccgaggaagagg	7	5	16	13	5	0	1	0	0	0	1	2	4	1	3	4	5	1	1	4	5	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr6:166571913G>T	uc003quu.1	-	9	1691	c.1198C>A	c.(1198-1200)CTG>ATG	p.L400M	T_uc003qut.1_Missense_Mutation_p.L401M|T_uc003quv.1_Missense_Mutation_p.L342M	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	400					anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		CCTTCGTACAGTGGGGATCCC	0.692									Chordoma_Familial_Clustering_of				20	79					2.37509e-13	2.48091e-13	0.010504	1	0		T	166571913	T	T	166571913	3	4	33	1	0	0	0	0	1	0	0	0	15513	1020	36	5	113	5	T	6	166571913	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	13239028	166571913	4543154	131	31732											
DNAH11	8701	broad.mit.edu	37	chr7	21603831	21603831	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaagcccaagatgtggaacTttacctgagacctctgagga	12	8	11	10	1	1	3	0	2	1	2	1	7	1	5	3	2	3	0	3	2	4	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:21603831T>G	uc003svc.2	+	6	1041	c.1010T>G	c.(1009-1011)CTT>CGT	p.L337R		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	337	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GATGTGGAACTTTACCTGAGA	0.408									Kartagener_syndrome				15	86					0	0	0.003163	0	0		G	21603831	G	G	21603831	3	3	33	1	0	0	0	0	1	0	0	0	4605	1609	56	5	1032	5	DNAH11	7	21603831	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08		21603831	137534832	132	31733											
DNAH11	8701	broad.mit.edu	37	chr7	21630894	21630894	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctgattgaagatgagcTgagggctattgacgagcagc	10	9	13	9	1	1	6	0	5	1	1	1	7	1	6	1	1	3	3	1	1	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:21630894T>G	uc003svc.2	+	14	2397	c.2366T>G	c.(2365-2367)CTG>CGG	p.L789R		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	789	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GAAGATGAGCTGAGGGCTATT	0.512									Kartagener_syndrome				10	92					0	0	0.006214	0	0		G	21630894	G	G	21630894	3	3	33	1	0	0	0	0	1	0	0	0	4605	1580	55	5	2420	5	DNAH11	7	21630894	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	27063	21630894	137507769	133	31734											
HOXA11	3207	broad.mit.edu	37	chr7	27224672	27224672	+	Missense_Mutation	SNP	G	A	A																															gggtctggggcagaaaagaaGggaggctggagaaatctgga																										TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:27224672G>A	uc003syx.2	-	1	164	c.92C>T	c.(91-93)CCT>CTT	p.P31L	HOXA11_uc003syy.2_Intron|HOXA11AS_uc003syz.1_5'Flank	NM_005523	NP_005514	P31270	HXA11_HUMAN	homeobox A11	31					branching involved in ureteric bud morphogenesis|cartilage development involved in endochondral bone morphogenesis|developmental growth|dorsal/ventral pattern formation|mesodermal cell fate specification|positive regulation of cell development|positive regulation of chondrocyte differentiation	protein-DNA complex|transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)	2						CAGAAAAGAAGGGAGGCTGGA	0.537			T	NUP98	CML						OREG0003747	type=REGULATORY REGION|Gene=BC025338|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	18	150					0	0	0.007413	0	0		A	27224672	A	A	27224672	3	1	33	1	0	0	0	0	1	0	0	0	7306	1000	35	4	857	4	HOXA11	7	27224672	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	5593778	27224672	131913991	134	31735	67	2									
HOXA11	3207	broad.mit.edu	37	chr7	27224674	27224674	+	Silent	SNP	G	A	A																															gtctggggcagaaaagaaggGaggctggagaaatctggacc																										TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:27224674G>A	uc003syx.2	-	1	162	c.90C>T	c.(88-90)CTC>CTT	p.L30L	HOXA11_uc003syy.2_Intron|HOXA11AS_uc003syz.1_5'Flank	NM_005523	NP_005514	P31270	HXA11_HUMAN	homeobox A11	30					branching involved in ureteric bud morphogenesis|cartilage development involved in endochondral bone morphogenesis|developmental growth|dorsal/ventral pattern formation|mesodermal cell fate specification|positive regulation of cell development|positive regulation of chondrocyte differentiation	protein-DNA complex|transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)	2						GAAAAGAAGGGAGGCTGGAGA	0.537			T	NUP98	CML						OREG0003747	type=REGULATORY REGION|Gene=BC025338|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	17	149					0	0	0.006122	0	0		A	27224674	A	A	27224674	2	1	33	1	0	0	0	0	0	0	0	1	7306	1161	41	4		4	HOXA11	7	27224674	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	2	27224674	131913989	135	31736	67	2									
CCM2	83605	broad.mit.edu	37	chr7	45078002	45078002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccagacagactgctgagcGactatattgagaaggaggta	14	7	13	7	1	0	4	0	2	0	3	0	7	0	5	1	2	3	2	1	2	4	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:45078002G>A	uc003tmo.2	+	2	327	c.181G>A	c.(181-183)GAC>AAC	p.D61N	CCM2_uc003tmn.2_RNA|CCM2_uc003tmp.2_Intron|CCM2_uc003tmq.2_RNA|CCM2_uc003tmr.2_Missense_Mutation_p.D61N|CCM2_uc011kcb.1_Intron|CCM2_uc011kcc.1_Missense_Mutation_p.D82N|CCM2_uc003tms.2_Missense_Mutation_p.D82N	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2	61	PID.				endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						ACTGCTGAGCGACTATATTGA	0.532									Familial_Cerebral_Cavernous_Angioma				7	152					0	0	0.00308	0	0		A	45078002	A	A	45078002	3	1	33	1	0	0	0	0	1	0	0	0	2911	1058	37	1	284	1	CCM2	7	45078002	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	17853328	45078002	114060661	136	31737											
AUTS2	26053	broad.mit.edu	37	chr7	69364348	69364348	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagaagaaacgagaagcacTtaccaatggcttgtcctttc	14	9	8	10	1	0	3	0	0	0	3	2	4	1	3	2	1	3	2	2	1	6	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:69364348T>G	uc003tvw.3	+	2	1129	c.386T>G	c.(385-387)CTT>CGT	p.L129R	AUTS2_uc003tvv.3_Missense_Mutation_p.L129R|AUTS2_uc003tvx.3_Missense_Mutation_p.L129R	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	129										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CGAGAAGCACTTACCAATGGC	0.483													18	101					0	0	0.008871	0	0		G	69364348	G	G	69364348	3	3	33	1	0	0	0	0	1	0	0	0	1226	1609	56	5	392	5	AUTS2	7	69364348	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	24286346	69364348	89774315	137	31738											
WBSCR17	64409	broad.mit.edu	37	chr7	70886007	70886007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtacgagaactcggcccAcgggtacagctgggagctgt	8	6	16	11	4	0	1	0	0	0	1	1	3	0	2	1	4	5	4	1	4	3	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:70886007A>G	uc003tvy.2	+	5	878	c.878A>G	c.(877-879)CAC>CGC	p.H293R	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	293	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				AACTCGGCCCACGGGTACAGC	0.582													14	163					0	0	0.001855	0	0		G	70886007	G	G	70886007	3	3	33	1	0	0	0	0	1	0	0	0	17290	159	6	3	896	3	WBSCR17	7	70886007	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1521659	70886007	88252656	138	31739											
WBSCR17	64409	broad.mit.edu	37	chr7	70886090	70886090	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacccttctctccccatcAggtctgtggctggtgagcct	5	11	11	14	0	3	2	1	1	2	1	5	3	4	2	4	3	1	1	4	3	0	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:70886090A>G	uc003tvy.2	+	5	961	c.961A>G	c.(961-963)AGG>GGG	p.R321G	WBSCR17_uc003tvz.2_Missense_Mutation_p.R20G	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	321	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TCTCCCCATCAGGTCTGTGGC	0.607													6	49					0	0	0.001984	0	0		G	70886090	G	G	70886090	3	3	33	1	0	0	0	0	1	0	0	0	17290	202	7	3	979	3	WBSCR17	7	70886090	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	83	70886090	88252573	139	31740											
PCLO	27445	broad.mit.edu	37	chr7	82387919	82387919	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgagtaggactgaccaaaAgtttgtgccagttgactatt	11	14	10	6	0	0	3	0	3	0	0	0	4	0	4	2	1	1	3	2	1	4	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:82387919A>G	uc003uhx.2	-	25	15690	c.15401T>C	c.(15400-15402)CTT>CCT	p.L5134P		NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	5057					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ACTGACCAAAAGTTTGTGCCA	0.388													45	742					0	0	0.01441	0	0		G	82387919	G	G	82387919	3	3	33	1	0	0	0	0	1	0	0	0	11602	72	3	3	31	3	PCLO	7	82387919	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	11501829	82387919	76750744	140	31741											
PCLO	27445	broad.mit.edu	37	chr7	82545548	82545548	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagtctgataaggtgaaacTtgctgatggtacaaagtttg	12	13	12	4	0	1	4	0	4	1	0	1	4	1	4	0	2	3	3	0	2	4	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:82545548T>C	uc003uhx.2	-	7	12043	c.11754A>G	c.(11752-11754)CAA>CAG	p.Q3918Q	PCLO_uc003uhv.2_Silent_p.Q3918Q|PCLO_uc010lec.2_Silent_p.Q883Q	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3849	Gln-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AAGGTGAAACTTGCTGATGGT	0.463													57	852					0	0	0.01441	0	0		C	82545548	C	C	82545548	2	2	33	1	0	0	0	0	0	0	0	1	11602	1606	56	3		3	PCLO	7	82545548	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	157629	82545548	76593115	141	31742											
PCLO	27445	broad.mit.edu	37	chr7	82545671	82545671	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacttgtcggaggaactagTtgagattctgtttgggtttg	7	15	15	4	1	1	1	0	1	1	1	2	5	1	4	0	4	1	3	0	4	2	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:82545671T>G	uc003uhx.2	-	7	11920	c.11631A>C	c.(11629-11631)CAA>CAC	p.Q3877H	PCLO_uc003uhv.2_Missense_Mutation_p.Q3877H|PCLO_uc010lec.2_Missense_Mutation_p.Q842H	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3808	Gln-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GAGGAACTAGTTGAGATTCTG	0.473													50	852					0	0	0.01441	0	0		G	82545671	G	G	82545671	3	3	33	1	0	0	0	0	1	0	0	0	11602	1722	60	5	3890	5	PCLO	7	82545671	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	123	82545671	76592992	142	31743											
AKAP9	10142	broad.mit.edu	37	chr7	91708757	91708757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcagcttaaagagagaacGtgaaagtgtggaaaagattc	17	9	11	4	1	1	4	1	1	0	3	2	6	1	5	0	1	2	1	0	1	6	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:91708757G>A	uc003ulg.2	+	31	7535	c.7310G>A	c.(7309-7311)CGT>CAT	p.R2437H	AKAP9_uc003ulf.2_Missense_Mutation_p.R2429H|AKAP9_uc003uli.2_Missense_Mutation_p.R2060H|AKAP9_uc003ulj.2_Missense_Mutation_p.R207H	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2449	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AAGAGAGAACGTGAAAGTGTG	0.348			T	BRAF	papillary thyroid								8	299					0	0	0.00308	0	0		A	91708757	A	A	91708757	3	1	33	1	0	0	0	0	1	0	0	0	459	1145	40	1	7432	1	AKAP9	7	91708757	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	9163086	91708757	67429906	143	31744											
CDK6	1021	broad.mit.edu	37	chr7	92355004	92355004	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagtcagcgagttttattTgtccgctgctggtcaccaga	8	12	11	10	3	2	1	2	0	0	1	3	3	3	1	2	1	2	3	2	1	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:92355004T>A	uc011khw.1	-	4	885	c.473A>T	c.(472-474)CAA>CTA	p.Q158L	CDK6_uc010lez.2_Missense_Mutation_p.Q158L	NM_001259	NP_001250	Q00534	CDK6_HUMAN	cyclin-dependent kinase 6	158	Protein kinase.				cell dedifferentiation|cell division|G1 phase of mitotic cell cycle|gliogenesis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|negative regulation of osteoblast differentiation|positive regulation of cell-matrix adhesion|positive regulation of fibroblast proliferation|regulation of erythrocyte differentiation|regulation of gene expression|response to virus	cyclin-dependent protein kinase holoenzyme complex|cytosol|nucleus|ruffle	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			central_nervous_system(1)|skin(1)	2	all_cancers(62;8.72e-12)|all_epithelial(64;3.65e-10)|Breast(17;0.000675)|all_lung(186;0.0392)|Lung NSC(181;0.053)|all_neural(327;0.219)|all_hematologic(106;0.237)		STAD - Stomach adenocarcinoma(4;6.16e-07)|GBM - Glioblastoma multiforme(5;1.2e-06)|all cancers(6;3.1e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			GAGTTTTATTTGTCCGCTGCT	0.463			T	MLLT10	ALL								21	823					0	0	0.010504	0	0		A	92355004	A	A	92355004	3	1	33	1	0	0	0	0	1	0	0	0	3151	1812	63	5	527	5	CDK6	7	92355004	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	646247	92355004	66783659	144	31745											
PPP1R9A	55607	broad.mit.edu	37	chr7	94540772	94540772	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttggattgccagaagaagaAgaaatcccagcaaataggaa	18	6	11	6	0	0	4	0	0	0	4	1	6	1	6	2	2	2	2	2	2	7	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:94540772A>C	uc003unp.2	+	2	1629	c.1347A>C	c.(1345-1347)GAA>GAC	p.E449D	PPP1R9A_uc010lfj.2_Missense_Mutation_p.E449D|PPP1R9A_uc011kif.1_Missense_Mutation_p.E449D|PPP1R9A_uc003unq.2_Missense_Mutation_p.E449D|PPP1R9A_uc011kig.1_Missense_Mutation_p.E449D	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	449	Poly-Glu.|Interacts with protein phosphatase 1 (By similarity).					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			CAGAAGAAGAAGAAATCCCAG	0.383										HNSCC(28;0.073)			5	158					0	0	0.001168	0	0		C	94540772	C	C	94540772	3	2	33	1	0	0	0	0	1	0	0	0	12400	69	3	5	1349	5	PPP1R9A	7	94540772	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	2185768	94540772	64597891	145	31746											
ZNF498	221785	broad.mit.edu	37	chr7	99217362	99217362	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagacttttcggctgaggTttcggcagttccgctaccag	7	11	12	11	3	0	2	0	1	0	1	3	3	1	2	2	3	1	5	2	3	1	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:99217362T>G	uc003url.1	+	4	460	c.133T>G	c.(133-135)TTT>GTT	p.F45V	ZNF498_uc003urm.1_5'UTR|ZNF498_uc010lge.1_5'UTR|ZNF498_uc003urn.2_RNA|ZNF498_uc010lgf.1_Missense_Mutation_p.F45V|ZNF498_uc003uro.1_5'Flank	NM_145115	NP_660090	Q6NSZ9	ZN498_HUMAN	zinc finger and SCAN domain containing 25	45	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_epithelial(64;1.95e-08)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					TCGGCTGAGGTTTCGGCAGTT	0.587													29	164					0	0	0.008361	0	0		G	99217362	G	G	99217362	3	3	33	1	0	0	0	0	1	0	0	0	17972	1725	60	5	135	5	ZNF498	7	99217362	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	4676590	99217362	59921301	146	31747											
STAG3	10734	broad.mit.edu	37	chr7	99796118	99796118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatggaaggggtgctgaCggacgcggattgtgagagcg	10	6	19	6	4	0	2	0	2	0	1	0	7	0	5	0	5	3	1	0	5	2	1	rs147690401		TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:99796118C>T	uc003utx.1	+	13	1420	c.1265C>T	c.(1264-1266)ACG>ATG	p.T422M	STAG3_uc010lgs.1_Missense_Mutation_p.T210M|STAG3_uc011kjk.1_Missense_Mutation_p.T364M|STAG3_uc003uub.1_5'Flank	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	422					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GGGGTGCTGACGGACGCGGAT	0.532													20	120					0	0	0.012319	0	0		T	99796118	T	T	99796118	3	4	33	1	0	0	0	0	1	0	0	0	15269	536	19	1	1311	1	STAG3	7	99796118	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	578756	99796118	59342545	147	31748											
RELN	5649	broad.mit.edu	37	chr7	103294587	103294587	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgttatatgctcttttcTtccttcaatttttgcataca	8	20	4	9	0	3	0	1	0	2	0	4	0	4	0	1	0	3	3	1	0	4	9			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:103294587T>G	uc003vca.2	-	13	1667	c.1507A>C	c.(1507-1509)AGA>CGA	p.R503R	RELN_uc010liz.2_Silent_p.R503R	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	503					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TGCTCTTTTCTTCCTTCAATT	0.393													14	69					0	0	0.004007	0	0		G	103294587	G	G	103294587	2	3	33	1	0	0	0	0	0	0	0	1	13245	1617	56	5		5	RELN	7	103294587	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	3498469	103294587	55844076	148	31749											
PRKAR2B	5577	broad.mit.edu	37	chr7	106793689	106793689	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacgatggagaacaaatcaTtgctcaggtatgatattttg	14	12	9	6	1	2	2	2	1	0	1	2	4	2	2	0	2	3	2	0	2	5	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:106793689T>C	uc003vdx.2	+	8	1086	c.911T>C	c.(910-912)ATT>ACT	p.I304T		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	304	cAMP 2.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						GAACAAATCATTGCTCAGGTA	0.303													16	95					0	0	0.004007	0	0		C	106793689	C	C	106793689	3	2	33	1	0	0	0	0	1	0	0	0	12528	1493	52	3	941	3	PRKAR2B	7	106793689	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	3499102	106793689	52344974	149	31750											
LAMB4	22798	broad.mit.edu	37	chr7	107732089	107732089	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accaaaggcgccagtccttgGagtgttgtggcttcctctgc	6	11	12	12	1	1	0	0	0	1	0	3	1	3	1	4	3	1	2	4	3	1	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:107732089G>T	uc010ljo.1	-	14	1767	c.1683C>A	c.(1681-1683)CTC>CTA	p.L561L	LAMB4_uc003vey.2_Silent_p.L561L	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	561	Laminin IV type B.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						CCAGTCCTTGGAGTGTTGTGG	0.458													19	72					1.10513e-12	1.15152e-12	0.014323	1	0		T	107732089	T	T	107732089	2	4	33	1	0	0	0	0	0	0	0	1	8629	1161	41	5		5	LAMB4	7	107732089	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	938400	107732089	51406574	150	31751											
TAS2R16	50833	broad.mit.edu	37	chr7	122635486	122635486	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaattaaaataggagcaaAaattgttcagcattgatgcc	17	11	7	6	0	2	1	2	1	0	0	2	2	2	2	1	1	3	3	1	1	6	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:122635486A>C	uc003vkl.1	-	1	269	c.203T>G	c.(202-204)TTT>TGT	p.F68C		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	68	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						ATAGGAGCAAAAATTGTTCAG	0.408													17	61					0	0	0.006122	0	0		C	122635486	C	C	122635486	3	2	33	1	0	0	0	0	1	0	0	0	15594	14	1	5	676	5	TAS2R16	7	122635486	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	14903397	122635486	36503177	151	31752											
OR2A12	346525	broad.mit.edu	37	chr7	143792445	143792445	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactgtccctaagatgctagCaaatcttgtgatgcacaaaa	14	11	7	9	0	1	2	0	1	1	1	2	2	2	2	1	0	4	3	1	0	6	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:143792445C>A	uc011kty.1	+	1	245	c.245C>A	c.(244-246)GCA>GAA	p.A82E		NM_001004135	NP_001004135	Q8NGT7	O2A12_HUMAN	olfactory receptor, family 2, subfamily A,	82	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	Melanoma(164;0.0783)					AAGATGCTAGCAAATCTTGTG	0.438													42	38					3.09479e-21	3.24876e-21	0.006999	1	0		A	143792445	A	A	143792445	3	1	33	1	0	0	0	0	1	0	0	0	10994	710	25	5	247	5	OR2A12	7	143792445	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	21156959	143792445	15346218	152	31753											
CNTNAP2	26047	broad.mit.edu	37	chr7	147092834	147092834	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaaggaagccgggaagtttCgcgaatgtcagcattgacat	13	8	12	8	3	1	1	1	1	0	0	2	4	1	3	1	2	2	2	1	2	4	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr7:147092834C>T	uc003weu.1	+	10	2148	c.1632C>T	c.(1630-1632)TTC>TTT	p.F544F		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	544	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CGGGAAGTTTCGCGAATGTCA	0.438										HNSCC(39;0.1)			23	97					0	0	0.00278	0	0		T	147092834	T	T	147092834	2	4	33	1	0	0	0	0	0	0	0	1	3650	883	31	1		1	CNTNAP2	7	147092834	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	3300389	147092834	12045829	153	31754											
RP1L1	94137	broad.mit.edu	37	chr8	10465425	10465425	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcctcctgtgcctcctcTtctgcctccggggcctctac	2	12	8	19	1	4	0	1	0	3	0	7	0	7	0	7	2	4	0	7	2	1	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:10465425T>G	uc003wtc.2	-	4	6412	c.6183A>C	c.(6181-6183)GAA>GAC	p.E2061D		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	2061					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GTGCCTCCTCTTCTGCCTCCG	0.627													18	931					0	0	0.008871	0	0		G	10465425	G	G	10465425	3	3	33	1	0	0	0	0	1	0	0	0	13558	1606	56	5	1023	5	RP1L1	8	10465425	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08		10465425	135898597	154	31755											
USP17L2	377630	broad.mit.edu	37	chr8	11994773	11994773	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgagggtgccagtgttcacGgactcctgatctgtccgggt	5	10	15	11	3	2	1	1	1	1	0	4	3	4	2	3	3	1	1	3	3	0	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:11994773G>A	uc003wvc.1	-	1	1497	c.1497C>T	c.(1495-1497)TCC>TCT	p.S499S	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	499					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3						CAGTGTTCACGGACTCCTGAT	0.512													28	780					0	0	0.009535	0	0		A	11994773	A	A	11994773	2	1	33	1	0	0	0	0	0	0	0	1	17074	1103	39	1		1	USP17L2	8	11994773	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	1529348	11994773	134369249	155	31756											
DLC1	10395	broad.mit.edu	37	chr8	12946131	12946131	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagaggtgctgttctttaAgtaggcgctttaagatttcc	8	14	10	9	1	1	2	0	0	1	2	2	2	2	2	2	2	1	4	2	2	3	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:12946131A>G	uc003wwm.2	-	16	4601	c.4157T>C	c.(4156-4158)CTT>CCT	p.L1386P	DLC1_uc003wwk.1_Missense_Mutation_p.L949P|DLC1_uc003wwl.1_Missense_Mutation_p.L983P|DLC1_uc011kxx.1_Missense_Mutation_p.L875P	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1386	START.				actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CTGTTCTTTAAGTAGGCGCTT	0.458													869	57					0	0	0.01441	0	0		G	12946131	G	G	12946131	3	3	33	1	0	0	0	0	1	0	0	0	4556	72	3	3	441	3	DLC1	8	12946131	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	951358	12946131	133417891	156	31757											
EFHA2	286097	broad.mit.edu	37	chr8	16921715	16921715	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatgactccgtatgatttTattttggctgttacaacaga	10	17	7	7	1	1	3	1	2	0	1	2	3	2	3	1	1	2	3	1	1	4	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:16921715T>C	uc003wxd.2	+	2	546	c.504T>C	c.(502-504)TTT>TTC	p.F168F		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	168						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		CGTATGATTTTATTTTGGCTG	0.348													39	318					0	0	0.00874	0	0		C	16921715	C	C	16921715	2	2	33	1	0	0	0	0	0	0	0	1	4950	1751	61	3		3	EFHA2	8	16921715	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	3975584	16921715	129442307	157	31758											
LPL	4023	broad.mit.edu	37	chr8	19813350	19813350	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgtctcttttttacccAgatgtggaccagctagtgaa	8	15	10	8	0	1	2	0	1	1	1	2	3	1	3	2	2	2	1	2	2	3	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:19813350A>G	uc003wzk.3	+	6	1146	c.776_splice	c.e6-2	p.D259_splice		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor						fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	TTTTTTACCCAGATGTGGACC	0.433													36	127					0	0	0.007835	0	0		G	19813350	G	G	19813350	5	3	33	1	0	0	0	0	0	0	1	0	8939	202	7	3	796	3	LPL	8	19813350	Splice_Site	SNP	A	TCGA-BR-6458-01A-11D-1800-08	2891635	19813350	126550672	158	31759											
GFRA2	2675	broad.mit.edu	37	chr8	21562635	21562635	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagttaggtgtcatgtcaaAccctgggcaggaagaaaggt	13	9	13	6	0	2	1	2	0	0	1	2	2	2	2	1	4	1	2	1	4	5	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:21562635A>C	uc003wzu.1	-	6	1582	c.907T>G	c.(907-909)TTT>GTT	p.F303V	GFRA2_uc003wzv.1_Missense_Mutation_p.F198V|GFRA2_uc003wzw.1_Missense_Mutation_p.F170V	NM_001495	NP_001486	O00451	GFRA2_HUMAN	GDNF family receptor alpha 2 isoform a	303						anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity				0				Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)		GTCATGTCAAACCCTGGGCAG	0.632													4	16					0	0	0.000602	0	0		C	21562635	C	C	21562635	3	2	33	1	0	0	0	0	1	0	0	0	6363	43	2	5	503	5	GFRA2	8	21562635	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1749285	21562635	124801387	159	31760											
SORBS3	10174	broad.mit.edu	37	chr8	22428560	22428560	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctccggctctgtgacgaCggcccccagctccccacgtc	4	6	11	20	5	1	1	0	1	1	0	4	2	3	1	5	3	1	3	5	3	0	0	rs146729720		TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:22428560C>T	uc003xbv.2	+	18	1909	c.1569C>T	c.(1567-1569)GAC>GAT	p.D523D	SORBS3_uc003xbw.3_Silent_p.D181D	NM_005775	NP_005766	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3 isoform 1	523					muscle contraction|positive regulation of stress fiber assembly	cytoskeleton|cytosol|nucleus	protein binding|structural constituent of cytoskeleton|vinculin binding				0		Prostate(55;0.0421)|Breast(100;0.102)		BRCA - Breast invasive adenocarcinoma(99;0.00566)|Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		TCTGTGACGACGGCCCCCAGC	0.711													18	48					0	0	0.006122	0	0		T	22428560	T	T	22428560	2	4	33	1	0	0	0	0	0	0	0	1	14954	535	19	1		1	SORBS3	8	22428560	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	865925	22428560	123935462	160	31761											
FZD3	7976	broad.mit.edu	37	chr8	28385541	28385541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtttatgatccggatcGgtgttttcagcattctttat	8	18	9	6	2	2	2	1	2	1	0	4	3	3	3	1	2	1	3	1	2	3	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:28385541G>A	uc003xgx.2	+	5	1742	c.1264G>A	c.(1264-1266)GGT>AGT	p.G422S	FZD3_uc010lvb.2_Missense_Mutation_p.G422S	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	422	Helical; Name=6; (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		GATCCGGATCGGTGTTTTCAG	0.403													31	133					0	0	0.012213	0	0		A	28385541	A	A	28385541	3	1	33	1	0	0	0	0	1	0	0	0	6145	1116	39	1	1274	1	FZD3	8	28385541	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	5956981	28385541	117978481	161	31762											
FZD3	7976	broad.mit.edu	37	chr8	28385645	28385645	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaacaacgtggatacaagaAcgctgcagagaatatcacat	18	6	9	8	2	1	2	1	0	0	2	1	5	1	3	0	1	5	2	0	1	7	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:28385645A>C	uc003xgx.2	+	5	1846	c.1368A>C	c.(1366-1368)GAA>GAC	p.E456D	FZD3_uc010lvb.2_Missense_Mutation_p.E456D	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	456	Extracellular (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		GGATACAAGAACGCTGCAGAG	0.368													21	74					0	0	0.008871	0	0		C	28385645	C	C	28385645	3	2	33	1	0	0	0	0	1	0	0	0	6145	40	2	5	1378	5	FZD3	8	28385645	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	104	28385645	117978377	162	31763											
GPR124	25960	broad.mit.edu	37	chr8	37697060	37697060	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggcacatgctgctgaacTtgtgcttccacatagccatg	8	11	10	12	0	0	1	0	1	0	0	1	1	1	1	2	1	5	5	2	1	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:37697060T>G	uc003xkj.2	+	16	2794	c.2431T>G	c.(2431-2433)TTG>GTG	p.L811V	GPR124_uc010lvy.2_Missense_Mutation_p.L594V	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	811	Helical; Name=2; (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			GCTGCTGAACTTGTGCTTCCA	0.587													12	57					0	0	0.010729	0	0		G	37697060	G	G	37697060	3	3	33	1	0	0	0	0	1	0	0	0	6653	1606	56	5	2472	5	GPR124	8	37697060	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	9311415	37697060	108666962	163	31764											
PXDNL	137902	broad.mit.edu	37	chr8	52321900	52321900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgagcccgcggggcgcgcGgatgccgtcccggtaggctg	3	4	19	15	8	0	0	0	0	0	0	1	2	1	1	4	5	2	2	4	5	1	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:52321900G>A	uc003xqu.3	-	17	2385	c.2284C>T	c.(2284-2286)CGC>TGC	p.R762C	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	762					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CGGGGCGCGCGGATGCCGTCC	0.791													4	12					0	0	0.000602	0	0		A	52321900	A	A	52321900	3	1	33	1	0	0	0	0	1	0	0	0	12873	1116	39	1	2135	1	PXDNL	8	52321900	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	14624840	52321900	94042122	164	31765											
PREX2	80243	broad.mit.edu	37	chr8	69012014	69012014	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctactgaccttcagagtaAattcagtgccctttgcagtg	9	13	8	11	0	2	2	2	1	0	1	3	2	3	2	3	0	3	2	3	0	3	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:69012014A>C	uc003xxv.1	+	23	2678	c.2651A>C	c.(2650-2652)AAA>ACA	p.K884T	PREX2_uc003xxu.1_Missense_Mutation_p.K884T|PREX2_uc011lez.1_Missense_Mutation_p.K819T	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	884					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CTTCAGAGTAAATTCAGTGCC	0.348													8	88					0	0	0.006214	0	0		C	69012014	C	C	69012014	3	2	33	1	0	0	0	0	1	0	0	0	12499	14	1	5	2741	5	PREX2	8	69012014	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	16690114	69012014	77352008	165	31766											
OSR2	116039	broad.mit.edu	37	chr8	99961704	99961704	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaaaagagtttatctgcaAgttttgcggcagacacttta	14	12	9	6	1	1	2	0	0	1	2	1	3	1	2	0	1	2	4	0	1	6	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:99961704A>C	uc003yir.2	+	2	1059	c.524A>C	c.(523-525)AAG>ACG	p.K175T	OSR2_uc010mbn.2_Missense_Mutation_p.K175T|OSR2_uc003yiq.2_Missense_Mutation_p.K175T|OSR2_uc011lgx.1_Missense_Mutation_p.K296T	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	175	C2H2-type 1.				bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding	p.K175R(1)		central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			TTTATCTGCAAGTTTTGCGGC	0.522													31	233					0	0	0.013726	0	0		C	99961704	C	C	99961704	3	2	33	1	0	0	0	0	1	0	0	0	11313	72	3	5	526	5	OSR2	8	99961704	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	30949690	99961704	46402318	166	31767											
RIMS2	9699	broad.mit.edu	37	chr8	104898096	104898096	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggctcagggaccaagttcTtatgcacaaaggaccacaaa	15	6	10	10	0	2	0	1	0	1	0	2	3	2	2	2	3	1	3	2	3	4	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:104898096T>G	uc003yls.2	+	2	844	c.603T>G	c.(601-603)TCT>TCG	p.S201S	RIMS2_uc003ylp.2_Silent_p.S423S|RIMS2_uc003ylw.2_Silent_p.S231S|RIMS2_uc003ylq.2_Silent_p.S231S|RIMS2_uc003ylr.2_Silent_p.S231S	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	454					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding	p.S231S(1)		ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GACCAAGTTCTTATGCACAAA	0.478										HNSCC(12;0.0054)			16	57					0	0	0.006122	0	0		G	104898096	G	G	104898096	2	3	33	1	0	0	0	0	0	0	0	1	13393	1596	56	5		5	RIMS2	8	104898096	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	4936392	104898096	41465926	167	31768											
ZFPM2	23414	broad.mit.edu	37	chr8	106813816	106813816	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttcctatctcagttttcTttcccccaagatatcaccat	8	16	2	15	0	3	1	2	0	2	1	6	1	5	1	5	0	0	1	5	0	3	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:106813816T>G	uc003ymd.2	+	8	1529	c.1506T>G	c.(1504-1506)TCT>TCG	p.S502S	ZFPM2_uc011lhs.1_Silent_p.S233S	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	502					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			CTCAGTTTTCTTTCCCCCAAG	0.493													37	191					0	0	0.00623	0	0		G	106813816	G	G	106813816	2	3	33	1	0	0	0	0	0	0	0	1	17683	1596	56	5		5	ZFPM2	8	106813816	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	1915720	106813816	39550206	168	31769											
OXR1	55074	broad.mit.edu	37	chr8	107718983	107718983	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgggactttatgtcataaaActgatttaaataatcttgaa	15	16	6	4	0	2	2	1	2	1	0	2	3	2	3	0	1	1	0	0	1	7	8			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:107718983A>C	uc011lht.1	+	8	1336	c.1237A>C	c.(1237-1239)ACT>CCT	p.T413P	OXR1_uc003ymf.2_Missense_Mutation_p.T412P|OXR1_uc011lhu.1_Missense_Mutation_p.T405P|OXR1_uc010mcg.2_Intron|OXR1_uc010mch.2_Missense_Mutation_p.T110P|OXR1_uc003ymg.1_Missense_Mutation_p.T345P|OXR1_uc003ymi.1_Missense_Mutation_p.T324P	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	413					cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			ATGTCATAAAACTGATTTAAA	0.348													12	64					0	0	0.003163	0	0		C	107718983	C	C	107718983	3	2	33	1	0	0	0	0	1	0	0	0	11353	43	2	5	1467	5	OXR1	8	107718983	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	905167	107718983	38645039	169	31770											
SNTB1	6641	broad.mit.edu	37	chr8	121823876	121823876	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcccagccccggcgccccTgcagaacgagccattggtgg	6	5	14	16	3	0	1	0	0	0	1	0	2	0	1	6	3	5	1	6	3	1	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:121823876T>G	uc010mdg.2	-	1	434	c.208A>C	c.(208-210)AGG>CGG	p.R70R	SNTB1_uc003ype.2_Silent_p.R70R	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	70	PH 1.				muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			ccggcgccccTGCAGAACGAG	0.448													7	21					0	0	0.001984	0	0		G	121823876	G	G	121823876	2	3	33	1	0	0	0	0	0	0	0	1	14897	1579	55	5		5	SNTB1	8	121823876	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	14104893	121823876	24540146	170	31771											
TG	7038	broad.mit.edu	37	chr8	133953600	133953600	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgcctttcccccaggccaAggatccaccacaacacttca	10	8	5	18	0	2	0	1	0	1	0	4	1	4	1	6	2	2	0	6	2	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:133953600A>C	uc003ytw.2	+	26	5087	c.5046A>C	c.(5044-5046)CAA>CAC	p.Q1682H	TG_uc010mdw.2_Missense_Mutation_p.Q441H|TG_uc011ljb.1_Intron	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1682	Type IIIA.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CCCCAGGCCAAGGATCCACCA	0.458													25	157					0	0	0.005443	0	0		C	133953600	C	C	133953600	3	2	33	1	0	0	0	0	1	0	0	0	15838	69	3	5	5148	5	TG	8	133953600	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	12129724	133953600	12410422	171	31772											
TG	7038	broad.mit.edu	37	chr8	133961049	133961049	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgtgggttgctgagctcAcccagtgtcctgctttgtaa	6	14	11	10	0	2	1	1	1	1	0	3	1	3	1	2	1	3	5	2	1	1	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:133961049A>C	uc003ytw.2	+	27	5303	c.5262A>C	c.(5260-5262)TCA>TCC	p.S1754S	TG_uc010mdw.2_Silent_p.S513S|TG_uc011ljb.1_Silent_p.S123S	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1754	Type IIIB.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TGCTGAGCTCACCCAGTGTCC	0.527													21	188					0	0	0.014323	0	0		C	133961049	C	C	133961049	2	2	33	1	0	0	0	0	0	0	0	1	15838	146	6	5		5	TG	8	133961049	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	7449	133961049	12402973	172	31773											
PLEC	5339	broad.mit.edu	37	chr8	144991805	144991805	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttgtaggccacctccacggGcagccggtggctctcctcag	5	8	12	16	2	2	0	1	0	1	0	4	0	3	0	5	4	1	3	5	4	1	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:144991805G>T	uc003zaf.1	-	32	12765	c.12595C>A	c.(12595-12597)CCC>ACC	p.P4199T	PLEC_uc003zab.1_Missense_Mutation_p.P4062T|PLEC_uc003zac.1_Missense_Mutation_p.P4066T|PLEC_uc003zad.2_Missense_Mutation_p.P4062T|PLEC_uc003zae.1_Missense_Mutation_p.P4030T|PLEC_uc003zag.1_Missense_Mutation_p.P4040T|PLEC_uc003zah.2_Missense_Mutation_p.P4048T|PLEC_uc003zaj.2_Missense_Mutation_p.P4089T	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4199	Plectin 25.|Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						ACCTCCACGGGCAGCCGGTGG	0.627													9	54					2.17888e-05	2.22098e-05	0.006214	1	0		T	144991805	T	T	144991805	3	4	33	1	0	0	0	0	1	0	0	0	12071	1203	42	5	1463	5	PLEC	8	144991805	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	11030756	144991805	1372217	173	31774											
PLEC	5339	broad.mit.edu	37	chr8	144997653	144997653	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctgctccgcctgtgcccgCcgcgccgcctcttgctcggc	0	8	12	21	6	1	0	0	0	1	0	3	0	2	0	7	1	3	2	7	1	0	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:144997653C>T	uc003zaf.1	-	31	7025	c.6855G>A	c.(6853-6855)CGG>CGA	p.R2285R	PLEC_uc003zab.1_Silent_p.R2148R|PLEC_uc003zac.1_Silent_p.R2152R|PLEC_uc003zad.2_Silent_p.R2148R|PLEC_uc003zae.1_Silent_p.R2116R|PLEC_uc003zag.1_Silent_p.R2126R|PLEC_uc003zah.2_Silent_p.R2134R|PLEC_uc003zaj.2_Silent_p.R2175R	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2285	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CCTGTGCCCGCCGCGCCGCCT	0.687													3	14					0	0	0.009096	0	0		T	144997653	T	T	144997653	2	4	33	1	0	0	0	0	0	0	0	1	12071	726	26	2		2	PLEC	8	144997653	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	5848	144997653	1366369	174	31775											
EXOSC4	54512	broad.mit.edu	37	chr8	145135310	145135310	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtggaggaagcagctggtGgcccccagctggccctggcc	6	6	16	13	0	0	0	0	0	0	0	0	2	0	2	4	6	3	3	4	6	1	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr8:145135310G>C	uc003zau.2	+	3	654	c.544G>C	c.(544-546)GGC>CGC	p.G182R	GPAA1_uc003zav.1_5'Flank|GPAA1_uc003zaw.1_5'Flank|GPAA1_uc003zax.2_5'Flank	NM_019037	NP_061910	Q9NPD3	EXOS4_HUMAN	exosome component 4	182					DNA deamination|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear mRNA surveillance|positive regulation of cell growth	cytosol|exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5'-exoribonuclease activity|AU-rich element binding|protein binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;3.48e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			AGCAGCTGGTGGCCCCCAGCT	0.652													5	71					0	0	0.001168	0	0		C	145135310	C	C	145135310	3	2	33	1	0	0	0	0	1	0	0	0	5325	1348	47	5	554	5	EXOSC4	8	145135310	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	137657	145135310	1228712	175	31776											
C9orf93	203238	broad.mit.edu	37	chr9	15779060	15779060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactacgcttagaggtcaCagaattcaaacgaagtgtga	14	9	9	9	2	3	3	3	1	0	2	3	4	3	3	0	1	2	1	0	1	5	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr9:15779060C>T	uc003zmd.2	+	20	3308	c.2993C>T	c.(2992-2994)ACA>ATA	p.T998I	C9orf93_uc003zme.2_Missense_Mutation_p.T913I|C9orf93_uc011lmu.1_Missense_Mutation_p.T1006I|C9orf93_uc003zmf.1_Missense_Mutation_p.T306I	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	998	Potential.										0				GBM - Glioblastoma multiforme(50;4.84e-07)		TTAGAGGTCACAGAATTCAAA	0.413													9	29					0	0	0.004482	0	0		T	15779060	T	T	15779060	3	4	33	1	0	0	0	0	1	0	0	0	2509	478	17	4	3067	4	C9orf93	9	15779060	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08		15779060	125434371	176	31777											
TRPM3	80036	broad.mit.edu	37	chr9	73205969	73205969	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctatctggtccgcaaacacTtccccataaatcatccaata	13	11	3	14	1	3	0	1	0	2	0	6	0	6	0	4	1	1	1	4	1	6	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr9:73205969T>G	uc004aid.2	-	21	3409	c.3165A>C	c.(3163-3165)GAA>GAC	p.E1055D	TRPM3_uc004ahu.2_Missense_Mutation_p.E885D|TRPM3_uc004ahv.2_Missense_Mutation_p.E857D|TRPM3_uc004ahw.2_Missense_Mutation_p.E927D|TRPM3_uc004ahx.2_Missense_Mutation_p.E914D|TRPM3_uc004ahy.2_Missense_Mutation_p.E917D|TRPM3_uc004ahz.2_Missense_Mutation_p.E904D|TRPM3_uc004aia.2_Missense_Mutation_p.E902D|TRPM3_uc004aib.2_Missense_Mutation_p.E892D|TRPM3_uc004aic.2_Missense_Mutation_p.E1055D	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1080	Extracellular (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						CCGCAAACACTTCCCCATAAA	0.423													19	107					0	0	0.004656	0	0		G	73205969	G	G	73205969	3	3	33	1	0	0	0	0	1	0	0	0	16613	1606	56	5	1978	5	TRPM3	9	73205969	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	57426909	73205969	68007462	177	31778											
COL15A1	1306	broad.mit.edu	37	chr9	101818614	101818614	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctgcctgggccacctggcTttggaagacctggtgatcct	5	11	13	12	0	1	2	0	1	1	1	2	3	2	3	5	4	1	1	5	4	1	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr9:101818614T>G	uc004azb.1	+	35	3471	c.3265T>G	c.(3265-3267)TTT>GTT	p.F1089V		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1089	Triple-helical region 8 (COL8).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				GCCACCTGGCTTTGGAAGACC	0.627													24	76					0	0	0.014323	0	0		G	101818614	G	G	101818614	3	3	33	1	0	0	0	0	1	0	0	0	3675	1609	56	5	3403	5	COL15A1	9	101818614	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	28612645	101818614	39394817	178	31779											
INVS	27130	broad.mit.edu	37	chr9	103002501	103002501	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataacttatttcgaaccccaCtgcactgggcagctttatta	11	13	6	11	1	0	0	0	0	0	0	1	1	0	0	2	1	4	3	2	1	5	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr9:103002501C>A	uc004bap.1	+	6	987	c.775C>A	c.(775-777)CTG>ATG	p.L259M	INVS_uc010mta.1_Missense_Mutation_p.L163M|INVS_uc011lve.1_Missense_Mutation_p.L163M|INVS_uc004bao.1_Missense_Mutation_p.L259M|INVS_uc004baq.1_Missense_Mutation_p.L163M|INVS_uc004bar.1_Missense_Mutation_p.L163M|INVS_uc010mtb.1_Translation_Start_Site	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	259	ANK 8.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				TCGAACCCCACTGCACTGGGC	0.413													9	61					1.76689e-08	1.82305e-08	0.006214	1	0		A	103002501	A	A	103002501	3	1	33	1	0	0	0	0	1	0	0	0	7803	564	20	5	793	5	INVS	9	103002501	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	1183887	103002501	38210930	179	31780											
GRIN3A	116443	broad.mit.edu	37	chr9	104390538	104390538	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaagaggttgacactcacTtcagatactccactccatca	12	10	5	14	0	3	3	3	1	0	2	6	3	6	3	3	1	1	1	3	1	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr9:104390538T>C	uc004bbp.1	-	4	3099	c.2498A>G	c.(2497-2499)AAG>AGG	p.K833R	GRIN3A_uc004bbq.1_Missense_Mutation_p.K833R	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	833	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	TGACACTCACTTCAGATACTC	0.398													8	56					0	0	0.004482	0	0		C	104390538	C	C	104390538	3	2	33	1	0	0	0	0	1	0	0	0	6799	1623	56	3	873	3	GRIN3A	9	104390538	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	1388037	104390538	36822893	180	31781											
C9orf43	257169	broad.mit.edu	37	chr9	116185755	116185755	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgggctcaatccgaagcGttacctcaggatctactgaa	10	10	9	12	2	4	1	2	1	2	0	5	3	5	2	2	2	3	2	2	2	5	2	rs141883275	by1000genomes	TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr9:116185755G>A	uc004bho.3	+	7	1029	c.633G>A	c.(631-633)GCG>GCA	p.A211A	C9orf43_uc004bhp.2_Silent_p.A211A	NM_152786	NP_689999	Q8TAL5	CI043_HUMAN	hypothetical protein LOC257169	211											0						AATCCGAAGCGTTACCTCAGG	0.502													17	65					0	0	0.010504	0	0		A	116185755	A	A	116185755	2	1	33	1	0	0	0	0	0	0	0	1	2486	1132	40	1		1	C9orf43	9	116185755	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	11795217	116185755	25027676	181	31782											
TRIM32	22954	broad.mit.edu	37	chr9	119461292	119461292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctaagcttccttggggCagatctacccaacctcactc	8	11	8	14	0	2	1	1	0	1	1	4	1	3	1	3	2	4	3	3	2	3	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr9:119461292C>T	uc004bjx.2	+	2	1429	c.1271C>T	c.(1270-1272)GCA>GTA	p.A424V	ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjs.1_Intron|ASTN2_uc004bjt.1_Intron|TRIM32_uc004bjw.2_Missense_Mutation_p.A424V	NM_001099679	NP_001093149	Q13049	TRI32_HUMAN	tripartite motif-containing 32	424	NHL 2.				fat cell differentiation|innate immune response|negative regulation of apoptosis|negative regulation of fibroblast proliferation|positive regulation of cell cycle|positive regulation of cell growth|positive regulation of cell migration|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein catabolic process|positive regulation of proteolysis|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to tumor necrosis factor|response to UV	nucleus	myosin binding|protein self-association|RNA binding|Tat protein binding|transcription coactivator activity|translation initiation factor binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(2)|kidney(1)	3						TTCCTTGGGGCAGATCTACCC	0.493									Bardet-Biedl_syndrome				32	169					0	0	0.012213	0	0		T	119461292	T	T	119461292	3	4	33	1	0	0	0	0	1	0	0	0	16532	710	25	2	1273	2	TRIM32	9	119461292	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	3275537	119461292	21752139	182	31783											
OR1N2	138882	broad.mit.edu	37	chr9	125315533	125315533	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaaaccactgtttcagacTtcctccttctaggactctct	9	13	4	15	0	3	1	1	0	2	1	6	2	5	2	4	1	1	1	4	1	2	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr9:125315533T>C	uc011lyx.1	+	1	85	c.85T>C	c.(85-87)TTC>CTC	p.F29L		NM_001004457	NP_001004457	Q8NGR9	OR1N2_HUMAN	olfactory receptor, family 1, subfamily N,	29	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4						TGTTTCAGACTTCCTCCTTCT	0.488													10	63					0	0	0.006214	0	0		C	125315533	C	C	125315533	3	2	33	1	0	0	0	0	1	0	0	0	10989	1609	56	3	87	3	OR1N2	9	125315533	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	5854241	125315533	15897898	183	31784											
RALGPS1	9649	broad.mit.edu	37	chr9	129981048	129981048	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccttatgtcatttgagtaAgtctctgcaggacgtggcat	10	13	10	8	1	2	1	1	1	1	0	3	2	2	2	1	2	2	3	1	2	3	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr9:129981048A>G	uc004bqo.1	+	19	1941	c.1674A>G	c.(1672-1674)TAA>TAG	p.*558*		NM_014636	NP_055451	Q5JS13	RGPS1_HUMAN	Ral GEF with PH domain and SH3 binding motif 1	558					small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity			ovary(1)	1						CATTTGAGTAAGTCTCTGCAG	0.552													37	204					0	0	0.006999	0	0		G	129981048	G	G	129981048	2	3	33	1	0	0	0	0	0	0	0	1	13042	79	3	3		3	RALGPS1	9	129981048	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	4665515	129981048	11232383	184	31785											
C9orf106	414318	broad.mit.edu	37	chr9	132084374	132084374	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagggctgtgagctccaTgagggcaggaaccacatggc	11	5	14	11	0	0	2	0	2	0	0	1	3	1	3	2	4	2	3	2	4	1	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr9:132084374T>C	uc004bxs.2	+	2	335	c.282T>C	c.(280-282)CAT>CAC	p.H94H		NM_001012715	NP_001012733	Q8NAJ2	CI106_HUMAN	hypothetical protein LOC414318	94											0		Ovarian(14;0.00556)|Medulloblastoma(224;0.235)				gtgagctccatgagggcagga	0.139													2	8					0	0	0.004672	0	0		C	132084374	C	C	132084374	2	2	33	1	0	0	0	0	0	0	0	1	2450	1461	51	3		3	C9orf106	9	132084374	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	2103326	132084374	9129057	185	31786											
COL5A1	1289	broad.mit.edu	37	chr9	137713968	137713968	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactggtccttctggcccgaTtgggcctcctgggccccctg	2	10	12	17	1	1	0	0	0	1	0	3	1	3	0	6	4	0	0	6	4	0	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr9:137713968T>G	uc004cfe.2	+	59	4962	c.4580T>G	c.(4579-4581)ATT>AGT	p.I1527S	uc004cff.2_Intron	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1527	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		TCTGGCCCGATTGGGCCTCCT	0.622													19	107					0	0	0.00278	0	0		G	137713968	G	G	137713968	3	3	33	1	0	0	0	0	1	0	0	0	3699	1493	52	5	4814	5	COL5A1	9	137713968	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	5629594	137713968	3499463	186	31787											
SNAPC4	6621	broad.mit.edu	37	chr9	139273391	139273391	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaggagccagaagtgccaGgtttggctgccgcgggggcc	6	5	18	12	2	0	1	0	0	0	1	0	2	0	2	5	5	3	2	5	5	1	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr9:139273391G>C	uc004chh.2	-	21	2897	c.2888C>G	c.(2887-2889)CCT>CGT	p.P963R		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	963	Pro-rich.				snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		AGAAGTGCCAGGTTTGGCTGC	0.667													27	22					0	0	0.004656	0	0		C	139273391	C	C	139273391	3	2	33	1	0	0	0	0	1	0	0	0	14862	1000	35	5	1529	5	SNAPC4	9	139273391	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	1559423	139273391	1940040	187	31788											
ITIH5	80760	broad.mit.edu	37	chr10	7658034	7658034	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaaggtctttaggagcaaAgtagtgcacaaaatagccat	16	8	11	6	0	1	0	0	0	1	0	1	2	1	2	1	3	3	3	1	3	7	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:7658034A>C	uc001ijq.2	-	7	929	c.850T>G	c.(850-852)TTT>GTT	p.F284V	ITIH5_uc001ijp.2_Missense_Mutation_p.F70V|ITIH5_uc001ijr.1_Missense_Mutation_p.F284V	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	284					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						TTAGGAGCAAAGTAGTGCACA	0.468													12	67					0	0	0.010729	0	0		C	7658034	C	C	7658034	3	2	33	1	0	0	0	0	1	0	0	0	7923	72	3	5	2133	5	ITIH5	10	7658034	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08		7658034	127876713	188	31789											
APBB1IP	54518	broad.mit.edu	37	chr10	26789970	26789970	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagccaatatgaggatgactTaccacctccaccagccgatc	12	7	7	15	1	0	2	0	2	0	0	2	4	1	3	6	1	3	0	6	1	3	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:26789970T>A	uc001iss.2	+	5	704	c.383T>A	c.(382-384)TTA>TAA	p.L128*	APBB1IP_uc001isr.2_Nonsense_Mutation_p.L128*|APBB1IP_uc009xks.1_Nonsense_Mutation_p.L128*	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	128					blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						GAGGATGACTTACCACCTCCA	0.502													14	98					0	0	0.001855	0	0		A	26789970	A	A	26789970	4	1	33	1	0	0	0	0	0	1	0	0	760	1764	61	5	393	5	APBB1IP	10	26789970	Nonsense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	19131936	26789970	108744777	189	31790											
SVIL	6840	broad.mit.edu	37	chr10	29813446	29813446	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgagtttgatagcgagcGttcattctcctctgtctcgt	5	15	11	10	3	4	2	1	2	3	0	6	3	4	2	1	1	2	3	1	1	1	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:29813446G>A	uc001iut.1	-	14	3294	c.2541C>T	c.(2539-2541)AAC>AAT	p.N847N	SVIL_uc010qdw.1_5'Flank|SVIL_uc001iuu.1_Silent_p.N421N	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	847					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				GATAGCGAGCGTTCATTCTCC	0.478													20	89					0	0	0.008871	0	0		A	29813446	A	A	29813446	2	1	33	1	0	0	0	0	0	0	0	1	15446	1136	40	1		1	SVIL	10	29813446	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	3023476	29813446	105721301	190	31791											
ZEB1	6935	broad.mit.edu	37	chr10	31809813	31809813	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcttactgttaagtctgAgaaggacaaaagctttgaag	15	11	10	5	0	2	3	0	2	2	2	2	5	2	4	0	1	2	2	0	1	6	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:31809813A>C	uc001ivs.3	+	7	1613	c.1550A>C	c.(1549-1551)GAG>GCG	p.E517A	ZEB1_uc001ivr.3_Missense_Mutation_p.E299A|ZEB1_uc010qee.1_Missense_Mutation_p.E299A|ZEB1_uc010qef.1_Missense_Mutation_p.E299A|ZEB1_uc009xlj.1_Missense_Mutation_p.E443A|ZEB1_uc010qeg.1_Missense_Mutation_p.E376A|ZEB1_uc009xlk.1_Missense_Mutation_p.E299A|ZEB1_uc001ivt.3_Missense_Mutation_p.E299A|ZEB1_uc001ivu.3_Missense_Mutation_p.E518A|ZEB1_uc001ivv.3_Missense_Mutation_p.E497A|ZEB1_uc010qeh.1_Missense_Mutation_p.E450A|ZEB1_uc009xlo.1_Missense_Mutation_p.E500A|ZEB1_uc009xlp.2_Missense_Mutation_p.E501A	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	517					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				GTTAAGTCTGAGAAGGACAAA	0.363													12	78					0	0	0.013537	0	0		C	31809813	C	C	31809813	3	2	33	1	0	0	0	0	1	0	0	0	17648	304	11	5	1590	5	ZEB1	10	31809813	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1996367	31809813	103724934	191	31792											
EPC1	80314	broad.mit.edu	37	chr10	32560982	32560982	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaggacgccattcaccccGattccaagcaccacatcatc	12	6	7	16	2	2	0	2	0	0	0	4	3	3	2	5	2	1	1	5	2	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:32560982G>A	uc001iwg.1	-	13	2316	c.2046C>T	c.(2044-2046)ATC>ATT	p.I682I	EPC1_uc001iwi.3_Silent_p.I609I|EPC1_uc001iwh.1_Silent_p.I659I	NM_025209	NP_079485	Q9H2F5	EPC1_HUMAN	enhancer of polycomb 1	682					histone H2A acetylation|histone H4 acetylation|negative regulation of gene expression, epigenetic|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear membrane|Piccolo NuA4 histone acetyltransferase complex				ovary(3)|central_nervous_system(1)	4		Prostate(175;0.0199)				CATTCACCCCGATTCCAAGCA	0.388													13	47					0	0	0.003163	0	0		A	32560982	A	A	32560982	2	1	33	1	0	0	0	0	0	0	0	1	5168	1048	37	1		1	EPC1	10	32560982	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	751169	32560982	102973765	192	31793											
NRP1	8829	broad.mit.edu	37	chr10	33515169	33515169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtttcttttgaaatggCgccctgtgtcccgacagccg	5	13	11	12	3	1	1	0	1	1	0	2	2	2	1	3	2	1	1	3	2	1	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:33515169C>T	uc001iwx.3	-	7	1553	c.1030G>A	c.(1030-1032)GCC>ACC	p.A344T	NRP1_uc001iwv.3_Missense_Mutation_p.A344T|NRP1_uc009xlz.2_Missense_Mutation_p.A344T|NRP1_uc001iww.3_Missense_Mutation_p.A163T|NRP1_uc001iwy.3_Missense_Mutation_p.A344T|NRP1_uc001iwz.2_Missense_Mutation_p.A344T|NRP1_uc001ixa.2_Missense_Mutation_p.A344T|NRP1_uc001ixb.1_Missense_Mutation_p.A344T|NRP1_uc001ixc.1_Missense_Mutation_p.A344T	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	344	F5/8 type C 1.|Extracellular (Potential).				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	TTTGAAATGGCGCCCTGTGTC	0.483													13	51					0	0	0.013537	0	0		T	33515169	T	T	33515169	3	4	33	1	0	0	0	0	1	0	0	0	10679	768	27	1	1796	1	NRP1	10	33515169	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	954187	33515169	102019578	193	31794											
FZD8	8325	broad.mit.edu	37	chr10	35928827	35928827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgcttgatgaccgagcGgatgcggaagagggacacga	10	7	16	8	4	0	3	0	2	0	1	0	8	0	6	1	3	3	2	1	3	1	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:35928827G>A	uc001iyz.1	-	1	1536	c.1531C>T	c.(1531-1533)CGC>TGC	p.R511C		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	511	Cytoplasmic (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						ATGACCGAGCGGATGCGGAAG	0.637													9	23					0	0	0.008291	0	0		A	35928827	A	A	35928827	3	1	33	1	0	0	0	0	1	0	0	0	6150	1116	39	1	557	1	FZD8	10	35928827	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	2413658	35928827	99605920	194	31795											
MARCH8	220972	broad.mit.edu	37	chr10	45954591	45954591	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctgcccctgcttgatcTcctcagcagtacggtcaatg	6	12	9	14	1	3	1	2	1	1	0	4	1	3	1	4	1	5	3	4	1	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:45954591T>C	uc001jci.1	-	6	787	c.548A>G	c.(547-549)GAG>GGG	p.E183G	MARCH8_uc001jch.2_Missense_Mutation_p.E465G|MARCH8_uc001jcj.1_Missense_Mutation_p.E183G|MARCH8_uc001jck.1_Missense_Mutation_p.E183G|uc001jcf.2_5'Flank|MARCH8_uc001jcg.1_Missense_Mutation_p.E52G	NM_001002266	NP_001002266	Q5T0T0	MARH8_HUMAN	cellular modulator of immune recognition isoform	183						cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding				0						CTGCTTGATCTCCTCAGCAGT	0.557													14	57					0	0	0.003163	0	0		C	45954591	C	C	45954591	3	2	33	1	0	0	0	0	1	0	0	0	9325	1551	54	3	335	3	MARCH8	10	45954591	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	10025764	45954591	89580156	195	31796											
AGAP7	653268	broad.mit.edu	37	chr10	51465248	51465248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcccgctcctcatatgtcGtggcttcaaagtgccacgtt	7	12	8	14	3	2	0	2	0	0	0	5	0	4	0	3	1	1	3	3	1	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:51465248G>A	uc001jio.2	-	7	1334	c.1208C>T	c.(1207-1209)ACG>ATG	p.T403M	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron	NM_001077685	NP_001071153	Q5VUJ5	AGAP7_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	403	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						CTCATATGTCGTGGCTTCAAA	0.512													42	155					0	0	0.01441	0	0		A	51465248	A	A	51465248	3	1	33	1	0	0	0	0	1	0	0	0	373	1145	40	1	787	1	AGAP7	10	51465248	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	5510657	51465248	84069499	196	31797											
PRKG1	5592	broad.mit.edu	37	chr10	53564348	53564348	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttatttttctccagctcTtgtaaatgtaaaactctggg	9	18	6	8	0	3	0	0	0	3	0	4	0	3	0	1	1	2	3	1	1	5	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:53564348T>G	uc001jjm.2	+	4	745	c.551T>G	c.(550-552)CTT>CGT	p.L184R	PRKG1_uc001jjn.2_Missense_Mutation_p.L199R|PRKG1_uc001jjo.2_Missense_Mutation_p.L199R	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	184	cGMP 1.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		TCTCCAGCTCTTGTAAATGTA	0.343													6	47					0	0	0.001168	0	0		G	53564348	G	G	53564348	3	3	33	1	0	0	0	0	1	0	0	0	12544	1609	56	5	880	5	PRKG1	10	53564348	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	2099100	53564348	81970399	197	31798											
RHOBTB1	9886	broad.mit.edu	37	chr10	62631271	62631271	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggagatgaattccagaagCaccactttcgtcttgagcga	11	10	10	10	2	1	4	0	2	1	2	3	6	2	4	2	1	2	1	2	1	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:62631271C>T	uc001jli.2	-	12	2498	c.2060G>A	c.(2059-2061)TGC>TAC	p.C687Y	RHOBTB1_uc001jlh.2_Missense_Mutation_p.C687Y|RHOBTB1_uc001jlj.2_Missense_Mutation_p.C687Y|RHOBTB1_uc001jlk.2_Missense_Mutation_p.C687Y|RHOBTB1_uc009xpe.1_Missense_Mutation_p.C625Y|RHOBTB1_uc009xpd.2_3'UTR|RHOBTB1_uc001jll.2_Missense_Mutation_p.C437Y	NM_014836	NP_055651	O94844	RHBT1_HUMAN	Rho-related BTB domain containing 1	687					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)					ATTCCAGAAGCACCACTTTCG	0.428													6	140					0	0	0.001984	0	0		T	62631271	T	T	62631271	3	4	33	1	0	0	0	0	1	0	0	0	13358	710	25	2	34	2	RHOBTB1	10	62631271	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	9066923	62631271	72903476	198	31799											
SIRT1	23411	broad.mit.edu	37	chr10	69672625	69672625	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaccacaggaagtacaaacTtctaggaatgttgaaagtat	18	9	8	6	0	1	1	0	1	1	0	1	3	1	3	1	2	3	3	1	2	8	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:69672625T>G	uc001jnd.2	+	8	1805	c.1752T>G	c.(1750-1752)ACT>ACG	p.T584T	SIRT1_uc010qis.1_Silent_p.T289T|SIRT1_uc009xpp.2_Silent_p.T392T|SIRT1_uc001jne.2_Silent_p.T281T	NM_012238	NP_036370	Q96EB6	SIRT1_HUMAN	sirtuin 1 isoform a	584					apoptosis|cell aging|cellular response to hydrogen peroxide|cellular response to starvation|chromatin silencing at rDNA|DNA repair|DNA replication|establishment of chromatin silencing|histone H3 deacetylation|interspecies interaction between organisms|maintenance of chromatin silencing|muscle organ development|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of fat cell differentiation|negative regulation of helicase activity|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine acetylation|peptidyl-lysine deacetylation|positive regulation of anti-apoptosis|positive regulation of chromatin silencing|positive regulation of DNA repair|regulation of apoptosis|regulation of cell proliferation|regulation of endodeoxyribonuclease activity|regulation of protein import into nucleus, translocation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|rRNA processing|transcription, DNA-dependent|triglyceride mobilization|white fat cell differentiation	chromatin silencing complex|cytoplasm|nuclear euchromatin|nuclear heterochromatin|nuclear inner membrane|nucleolus|PML body|rDNA heterochromatin	bHLH transcription factor binding|histone binding|HLH domain binding|identical protein binding|mitogen-activated protein kinase binding|NAD+ binding|NAD-dependent histone deacetylase activity (H3-K9 specific)|p53 binding|protein C-terminus binding|transcription corepressor activity|zinc ion binding				0						AAGTACAAACTTCTAGGAATG	0.373													9	99					0	0	0.004482	0	0		G	69672625	G	G	69672625	2	3	33	1	0	0	0	0	0	0	0	1	14362	1596	56	5		5	SIRT1	10	69672625	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	7041354	69672625	65862122	199	31800											
MYPN	84665	broad.mit.edu	37	chr10	69882022	69882022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggttcactcaaaagttacGgagcagagaagttccagaag	14	7	11	9	2	2	2	2	0	0	2	3	4	3	3	2	2	2	4	2	2	5	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:69882022G>A	uc001jnm.3	+	3	1012	c.827G>A	c.(826-828)CGG>CAG	p.R276Q	MYPN_uc001jnl.1_Missense_Mutation_p.R276Q|MYPN_uc001jnn.3_Intron|MYPN_uc001jno.3_Missense_Mutation_p.R276Q|MYPN_uc001jnp.1_Missense_Mutation_p.R276Q|MYPN_uc009xps.2_Missense_Mutation_p.R276Q|MYPN_uc009xpt.2_Missense_Mutation_p.R276Q|MYPN_uc010qit.1_5'UTR|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	276	Interaction with CARP.|Ig-like 1.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						CAAAAGTTACGGAGCAGAGAA	0.493													12	70					0	0	0.013537	0	0		A	69882022	A	A	69882022	3	1	33	1	0	0	0	0	1	0	0	0	10116	1116	39	1	829	1	MYPN	10	69882022	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	209397	69882022	65652725	200	31801											
SLC29A3	55315	broad.mit.edu	37	chr10	73082526	73082526	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatagtggccgttgtctcAgaggacgactttcagcacag	10	9	11	11	2	2	1	2	0	1	1	3	3	2	2	2	2	1	2	2	2	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:73082526A>C	uc001jrr.3	+	2	72	c.15A>C	c.(13-15)TCA>TCC	p.S5S	SLC29A3_uc001jrs.3_Silent_p.S5S|SLC29A3_uc010qjq.1_5'UTR|SLC29A3_uc001jrt.3_5'UTR|SLC29A3_uc001jru.3_5'UTR	NM_018344	NP_060814	Q9BZD2	S29A3_HUMAN	solute carrier family 29 (nucleoside	5	Cytoplasmic (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to membrane|late endosome membrane|lysosomal membrane	nucleoside transmembrane transporter activity				0						CCGTTGTCTCAGAGGACGACT	0.572													17	242					0	0	0.007413	0	0		C	73082526	C	C	73082526	2	2	33	1	0	0	0	0	0	0	0	1	14561	175	7	5		5	SLC29A3	10	73082526	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	3200504	73082526	62452221	201	31802											
LRIT1	26103	broad.mit.edu	37	chr10	86001132	86001132	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcattgagaggggcagaAgccccgggcctgggggggcc	6	4	20	11	1	0	2	0	1	0	2	0	3	0	2	4	6	2	3	4	6	1	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:86001132A>C	uc001kcz.1	-	1	86	c.64T>G	c.(64-66)TTC>GTC	p.F22V		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	22	Lumenal (Potential).|LRRNT.					integral to endoplasmic reticulum membrane					0						GAGGGGCAGAAGCCCCGGGCC	0.662													4	26					0	0	0.009096	0	0		C	86001132	C	C	86001132	3	2	33	1	0	0	0	0	1	0	0	0	8965	72	3	5	1823	5	LRIT1	10	86001132	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	12918606	86001132	49533615	202	31803											
IFIT3	3437	broad.mit.edu	37	chr10	91098757	91098757	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agactctcagatgctcagatTtatgtagataaggtgaaaca	15	11	9	6	0	2	5	2	1	1	4	3	5	2	5	0	1	2	2	0	1	4	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:91098757T>G	uc001kgf.2	+	2	574	c.345T>G	c.(343-345)ATT>ATG	p.I115M	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron|IFIT3_uc001kgg.2_Missense_Mutation_p.I115M	NM_001549	NP_001540	O14879	IFIT3_HUMAN	interferon-induced protein with	115	TPR 2.				type I interferon-mediated signaling pathway		protein binding			central_nervous_system(1)	1						ATGCTCAGATTTATGTAGATA	0.423													37	61					0	0	0.00623	0	0		G	91098757	G	G	91098757	3	3	33	1	0	0	0	0	1	0	0	0	7540	1829	64	5	360	5	IFIT3	10	91098757	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	5097625	91098757	44435990	203	31804											
SORCS1	114815	broad.mit.edu	37	chr10	108459101	108459101	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtcattctggttccattcTtggaccgctgcgaacacctg	6	13	10	12	2	3	0	1	0	2	0	4	2	4	1	3	2	2	2	3	2	1	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:108459101T>G	uc001kym.2	-	9	1292	c.1284A>C	c.(1282-1284)CAA>CAC	p.Q428H	SORCS1_uc001kyl.2_Missense_Mutation_p.Q428H|SORCS1_uc009xxs.2_Missense_Mutation_p.Q428H|SORCS1_uc001kyn.1_Missense_Mutation_p.Q428H|SORCS1_uc001kyo.2_Missense_Mutation_p.Q428H	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	428	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		GGTTCCATTCTTGGACCGCTG	0.483													3	46					0	0	0.004672	0	0		G	108459101	G	G	108459101	3	3	33	1	0	0	0	0	1	0	0	0	14955	1606	56	5	2528	5	SORCS1	10	108459101	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	17360344	108459101	27075646	204	31805											
GFRA1	2674	broad.mit.edu	37	chr10	117856235	117856235	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctgctgacagaccttgActctggctggcagttggtaa	9	10	12	10	0	1	3	0	2	1	1	1	3	1	3	1	3	2	6	1	3	1	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:117856235A>G	uc001lcj.2	-	7	1509	c.811T>C	c.(811-813)TCA>CCA	p.S271P	GFRA1_uc001lci.2_Missense_Mutation_p.S266P|GFRA1_uc009xyr.2_Missense_Mutation_p.S266P	NM_005264	NP_005255	P56159	GFRA1_HUMAN	GDNF family receptor alpha 1 isoform a	271	3.				axon guidance	anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity			ovary(1)|pancreas(1)	2		Lung NSC(174;0.21)		all cancers(201;0.0337)		ACAGACCTTGACTCTGGCTGG	0.502													9	42					0	0	0.008291	0	0		G	117856235	G	G	117856235	3	3	33	1	0	0	0	0	1	0	0	0	6362	275	10	3	606	3	GFRA1	10	117856235	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	9397134	117856235	17678512	205	31806											
C10orf46	143384	broad.mit.edu	37	chr10	120467071	120467071	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaagagctatattaaatCtttcaatatagagatctgga	15	13	7	6	0	3	2	1	0	2	2	4	4	4	3	1	1	1	1	1	1	8	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:120467071C>A	uc001lds.1	-	4	1110	c.626G>T	c.(625-627)AGA>ATA	p.R209I	C10orf46_uc010qst.1_RNA	NM_153810	NP_722517	Q86Y37	CJ046_HUMAN	chromosome 10 open reading frame 46	209					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding				0		Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0131)		TATATTAAATCTTTCAATATA	0.408													5	62					8.12818e-05	8.26529e-05	0.001984	1	0		A	120467071	A	A	120467071	3	1	33	1	0	0	0	0	1	0	0	0	1607	913	32	5	507	5	C10orf46	10	120467071	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	2610836	120467071	15067676	206	31807											
HTRA1	5654	broad.mit.edu	37	chr10	124273733	124273733	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcaaggaaaacgacgtcaTaatcagcatcaatggacagt	16	8	8	9	2	4	0	4	0	1	0	5	3	4	2	0	2	2	1	0	2	5	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:124273733T>C	uc001lgj.2	+	9	1429	c.1301T>C	c.(1300-1302)ATA>ACA	p.I434T		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	434	PDZ.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				AACGACGTCATAATCAGCATC	0.483													57	240					0	0	0.01441	0	0		C	124273733	C	C	124273733	3	2	33	1	0	0	0	0	1	0	0	0	7469	1406	49	3	1335	3	HTRA1	10	124273733	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	3806662	124273733	11261014	207	31808											
CPXM2	119587	broad.mit.edu	37	chr10	125526505	125526505	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccgtggcattttccgacAgaaaccactcagggattgca	11	9	9	12	2	2	1	2	0	0	1	3	3	3	2	3	2	2	2	3	2	1	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr10:125526505A>G	uc001lhk.1	-	10	1788	c.1463T>C	c.(1462-1464)CTG>CCG	p.L488P	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	488					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		ATTTTCCGACAGAAACCACTC	0.458													13	55					0	0	0.004007	0	0		G	125526505	G	G	125526505	3	3	33	1	0	0	0	0	1	0	0	0	3841	188	7	3	827	3	CPXM2	10	125526505	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1252772	125526505	10008242	208	31809											
OR51A7	119687	broad.mit.edu	37	chr11	4928674	4928674	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggactggaacatgcccacatTtggttctccatccccatttg	8	12	8	13	0	1	0	0	0	1	0	3	2	2	2	4	3	2	1	4	3	1	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:4928674T>G	uc010qyq.1	+	1	75	c.75T>G	c.(73-75)ATT>ATG	p.I25M		NM_001004749	NP_001004749	Q8NH64	O51A7_HUMAN	olfactory receptor, family 51, subfamily A,	25	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATGCCCACATTTGGTTCTCCA	0.473													13	78					0	0	0.013537	0	0		G	4928674	G	G	4928674	3	3	33	1	0	0	0	0	1	0	0	0	11107	1829	64	5	77	5	OR51A7	11	4928674	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08		4928674	130077842	209	31810											
LUZP2	338645	broad.mit.edu	37	chr11	25004695	25004695	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacagatgaaagcaatgaaAgagactgtgcagctctgctt	14	9	10	8	0	2	4	1	2	1	2	2	5	2	4	0	0	4	4	0	0	3	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:25004695A>C	uc001mqs.2	+	9	855	c.621A>C	c.(619-621)AAA>AAC	p.K207N	LUZP2_uc009yif.2_Missense_Mutation_p.K121N|LUZP2_uc009yig.2_Missense_Mutation_p.K165N	NM_001009909	NP_001009909	Q86TE4	LUZP2_HUMAN	leucine zipper protein 2 precursor	207	Potential.					extracellular region				ovary(1)|skin(1)	2						AAGCAATGAAAGAGACTGTGC	0.418													27	174					0	0	0.010818	0	0		C	25004695	C	C	25004695	3	2	33	1	0	0	0	0	1	0	0	0	9105	69	3	5	655	5	LUZP2	11	25004695	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	20076021	25004695	110001821	210	31811											
TTC17	55761	broad.mit.edu	37	chr11	43425686	43425686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttggggcagggactctgatGcatatagggtaagttaatag	11	12	14	4	0	1	1	0	1	1	0	1	2	1	2	0	4	1	4	0	4	5	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:43425686G>A	uc001mxi.2	+	11	1485	c.1471G>A	c.(1471-1473)GCA>ACA	p.A491T	TTC17_uc001mxh.2_Missense_Mutation_p.A491T|TTC17_uc010rfj.1_Missense_Mutation_p.A434T|TTC17_uc001mxj.2_Missense_Mutation_p.A261T	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	491							binding			ovary(5)	5						GGACTCTGATGCATATAGGGT	0.428													23	164					0	0	0.005443	0	0		A	43425686	A	A	43425686	3	1	33	1	0	0	0	0	1	0	0	0	16710	1319	46	2	1513	2	TTC17	11	43425686	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	18420991	43425686	91580830	211	31812											
CKAP5	9793	broad.mit.edu	37	chr11	46831385	46831385	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgagtaggtctaggagcacTtgttggcagtttgacccatt	8	13	12	8	1	1	1	0	1	1	0	2	3	1	2	1	3	1	5	1	3	2	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:46831385T>C	uc001ndi.1	-	6	780	c.670A>G	c.(670-672)AGT>GGT	p.S224G	CKAP5_uc009ylg.1_Missense_Mutation_p.S110G|CKAP5_uc001ndj.1_Missense_Mutation_p.S224G	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	224					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						CTAGGAGCACTTGTTGGCAGT	0.388													15	142					0	0	0.004007	0	0		C	46831385	C	C	46831385	3	2	33	1	0	0	0	0	1	0	0	0	3448	1609	56	3	5584	3	CKAP5	11	46831385	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	3405699	46831385	88175131	212	31813											
OR4A5	81318	broad.mit.edu	37	chr11	51412114	51412114	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaatagctggcccatgcaAccttggaaggaaatagtctt	14	10	9	8	0	1	0	0	0	1	0	1	2	1	2	2	3	3	2	2	3	7	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:51412114A>C	uc001nhi.1	-	1	282	c.282T>G	c.(280-282)GGT>GGG	p.G94G		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				GGCCCATGCAACCTTGGAAGG	0.448													8	34					0	0	0.00308	0	0		C	51412114	C	C	51412114	2	2	33	1	0	0	0	0	0	0	0	1	11062	30	2	5		5	OR4A5	11	51412114	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	4580729	51412114	83594402	213	31814											
OR5L1	219437	broad.mit.edu	37	chr11	55579495	55579495	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtgatctacctcctgtcTtaagtcttgcttgctctgat	5	18	7	11	0	5	2	0	2	5	0	6	2	6	2	2	0	3	2	2	0	2	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:55579495T>G	uc001nhw.1	+	1	553	c.553T>G	c.(553-555)TTA>GTA	p.L185V		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				ACCTCCTGTCTTAAGTCTTGC	0.433													30	134					0	0	0.009535	0	0		G	55579495	G	G	55579495	3	3	33	1	0	0	0	0	1	0	0	0	11189	1606	56	5	555	5	OR5L1	11	55579495	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	4167381	55579495	79427021	214	31815											
OR5T1	390155	broad.mit.edu	37	chr11	56043468	56043468	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagatgtttcttgcttgtacTtttggaaccacagaatgctt	9	16	8	8	0	1	2	0	0	1	2	1	3	1	3	1	1	4	4	1	1	3	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:56043468T>G	uc001nio.1	+	1	354	c.354T>G	c.(352-354)ACT>ACG	p.T118T		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	118	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TTGCTTGTACTTTTGGAACCA	0.403													31	144					0	0	0.010818	0	0		G	56043468	G	G	56043468	2	3	33	1	0	0	0	0	0	0	0	1	11200	1596	56	5		5	OR5T1	11	56043468	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	463973	56043468	78963048	215	31816											
OR8H1	219469	broad.mit.edu	37	chr11	56058069	56058069	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcatccaaaccacattgAcaaaggagttgataaagcta	16	9	7	9	0	1	2	1	2	0	0	2	3	2	3	2	1	3	3	2	1	5	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:56058069A>C	uc010rje.1	-	1	470	c.470T>G	c.(469-471)GTC>GGC	p.V157G		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					AACCACATTGACAAAGGAGTT	0.458													12	64					0	0	0.013537	0	0		C	56058069	C	C	56058069	3	2	33	1	0	0	0	0	1	0	0	0	11256	275	10	5	467	5	OR8H1	11	56058069	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	14601	56058069	78948447	216	31817											
OR5B2	390190	broad.mit.edu	37	chr11	58189836	58189836	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgccttctcaacactttcTtgaatgcattctggacttct	7	18	5	11	0	4	1	1	1	4	0	5	2	4	2	1	1	3	1	1	1	2	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:58189836T>C	uc010rkg.1	-	1	899	c.899A>G	c.(898-900)AAG>AGG	p.K300R		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CAACACTTTCTTGAATGCATT	0.393													9	57					0	0	0.008291	0	0		C	58189836	C	C	58189836	3	2	33	1	0	0	0	0	1	0	0	0	11169	1609	56	3	34	3	OR5B2	11	58189836	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	2131767	58189836	76816680	217	31818											
DTX4	23220	broad.mit.edu	37	chr11	58962713	58962713	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtccaacctgcaagacCatttatggggtgaagacagg	12	8	12	9	0	0	3	0	1	0	2	1	3	1	3	3	3	2	1	3	3	4	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:58962713C>T	uc001nns.2	+	7	1664	c.1407C>T	c.(1405-1407)ACC>ACT	p.T469T	DTX4_uc001nnr.2_Silent_p.T363T	NM_015177	NP_055992	Q9Y2E6	DTX4_HUMAN	deltex 4 homolog	469					Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)				CCTGCAAGACCATTTATGGGG	0.547													22	68					0	0	0.003954	0	0		T	58962713	T	T	58962713	2	4	33	1	0	0	0	0	0	0	0	1	4803	581	21	4		4	DTX4	11	58962713	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	772877	58962713	76043803	218	31819											
PGA5	5222	broad.mit.edu	37	chr11	61017153	61017153	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accctcagcatcaccatgaaCggagagaccatcgcctgtgc	11	6	9	15	2	2	2	2	1	0	1	3	4	2	3	4	1	3	1	4	1	1	0	rs139579497	byFrequency	TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:61017153C>T	uc001nqz.2	+	7	816	c.786C>T	c.(784-786)AAC>AAT	p.N262N		NM_014224	NP_055039	P00790	PEPA_HUMAN	pepsinogen 5, group I precursor	262					digestion|proteolysis	extracellular region	aspartic-type endopeptidase activity			skin(1)	1						TCACCATGAACGGAGAGACCA	0.587													28	141					0	0	0.005443	0	0		T	61017153	T	T	61017153	2	4	33	1	0	0	0	0	0	0	0	1	11791	535	19	1		1	PGA5	11	61017153	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	2054440	61017153	73989363	219	31820											
CCDC88B	283234	broad.mit.edu	37	chr11	64119683	64119683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggaggtgcgggcggcaCggcagtcccaggaggagacc	9	2	20	10	3	0	1	0	0	0	1	1	5	1	4	2	8	1	2	2	8	0	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:64119683C>T	uc001nzy.2	+	19	3225	c.3181C>T	c.(3181-3183)CGG>TGG	p.R1061W	CCDC88B_uc009ypo.1_Missense_Mutation_p.R1058W|CCDC88B_uc001oaa.2_Missense_Mutation_p.R213W|CCDC88B_uc001oab.1_5'Flank|CCDC88B_uc001oac.2_5'Flank	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	1061	Potential.				microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						GCGGGCGGCACGGCAGTCCCA	0.692													10	21					0	0	0.008291	0	0		T	64119683	T	T	64119683	3	4	33	1	0	0	0	0	1	0	0	0	2867	527	19	1	3255	1	CCDC88B	11	64119683	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	3102530	64119683	70886833	220	31821											
FRMD8	83786	broad.mit.edu	37	chr11	65178738	65178738	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gggatcaggcgagtgaagccGaagcgcaccacatccttctt	10	7	12	12	3	2	1	1	1	1	0	3	4	3	2	3	2	2	1	3	2	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:65178738G>C	uc001odu.3	+	11	1494	c.1302G>C	c.(1300-1302)CCG>CCC	p.P434P	FRMD8_uc009yqj.2_Silent_p.P378P|FRMD8_uc010rof.1_Silent_p.P400P	NM_031904	NP_114110	Q9BZ67	FRMD8_HUMAN	FERM domain containing 8	434						cytoskeleton	binding			lung(1)|pancreas(1)	2						GAGTGAAGCCGAAGCGCACCA	0.672													7	42					0	0	0.001984	0	0		C	65178738	C	C	65178738	2	2	33	1	0	0	0	0	0	0	0	1	6070	1045	37	5		5	FRMD8	11	65178738	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	1059055	65178738	69827778	221	31822											
PRSS23	11098	broad.mit.edu	37	chr11	86519692	86519692	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagaagtgggagcgaaaaaTtattggcattttttcagggc	12	11	13	5	1	1	1	1	0	0	1	1	3	1	2	0	3	1	2	0	3	4	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:86519692T>G	uc001pcb.2	+	2	1223	c.1007T>G	c.(1006-1008)ATT>AGT	p.I336S	PRSS23_uc001pcc.1_Intron|PRSS23_uc010rts.1_Missense_Mutation_p.I304S	NM_007173	NP_009104	O95084	PRS23_HUMAN	protease, serine, 23 precursor	336					proteolysis	extracellular region|nucleus	serine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GAGCGAAAAATTATTGGCATT	0.522													22	103					0	0	0.010504	0	0		G	86519692	G	G	86519692	3	3	33	1	0	0	0	0	1	0	0	0	12642	1493	52	5	1009	5	PRSS23	11	86519692	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	21340954	86519692	48486824	222	31823											
GRM5	2915	broad.mit.edu	37	chr11	88780736	88780736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgctctagggccacagccGaatgccagcaggagtccctt	8	8	11	14	1	2	0	0	0	2	0	3	2	3	1	4	2	4	2	4	2	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:88780736G>A	uc001pcq.2	-	1	505	c.305C>T	c.(304-306)TCG>TTG	p.S102L	GRM5_uc009yvm.2_Missense_Mutation_p.S102L|GRM5_uc009yvn.1_Missense_Mutation_p.S102L	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	102	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	GGCCACAGCCGAATGCCAGCA	0.527													11	37					0	0	0.010729	0	0		A	88780736	A	A	88780736	3	1	33	1	0	0	0	0	1	0	0	0	6816	1059	37	1	3369	1	GRM5	11	88780736	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	2261044	88780736	46225780	223	31824											
CCDC67	159989	broad.mit.edu	37	chr11	93170867	93170867	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataaatactccaagctaaaAcaaaatagacacatatgagc	22	7	4	8	0	0	2	0	1	0	1	1	2	1	2	1	0	4	1	1	0	11	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:93170867A>C	uc001pdq.2	+	14	1897	c.1797A>C	c.(1795-1797)AAA>AAC	p.K599N		NM_181645	NP_857596	Q05D60	CCD67_HUMAN	coiled-coil domain containing 67	599	Potential.									ovary(1)	1		Acute lymphoblastic leukemia(157;2.35e-05)|all_hematologic(158;0.00824)				CCAAGCTAAAACAAAATAGAC	0.338													20	117					0	0	0.010504	0	0		C	93170867	C	C	93170867	3	2	33	1	0	0	0	0	1	0	0	0	2842	40	2	5	1847	5	CCDC67	11	93170867	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	4390131	93170867	41835649	224	31825											
CNTN5	53942	broad.mit.edu	37	chr11	99827733	99827733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaacgccactcactctgcGtaatgatggtaagttgcttg	9	12	9	11	2	2	1	1	1	1	0	3	1	3	1	2	1	3	4	2	1	3	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:99827733G>A	uc001pga.2	+	8	1208	c.869G>A	c.(868-870)CGT>CAT	p.R290H	CNTN5_uc009ywv.1_Missense_Mutation_p.R290H|CNTN5_uc001pfz.2_Missense_Mutation_p.R290H|CNTN5_uc001pgb.2_Missense_Mutation_p.R216H	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	290					cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CTCACTCTGCGTAATGATGGT	0.398													4	41					0	0	0.009096	0	0		A	99827733	A	A	99827733	3	1	33	1	0	0	0	0	1	0	0	0	3647	1145	40	1	891	1	CNTN5	11	99827733	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	6656866	99827733	35178783	225	31826											
KIAA1377	57562	broad.mit.edu	37	chr11	101815057	101815057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaaattagagaacaaataCttcaacaaagaaaacagaag	24	5	5	7	0	1	3	1	0	0	3	1	4	1	3	1	0	4	0	1	0	10	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:101815057C>T	uc001pgm.2	+	3	580	c.310C>T	c.(310-312)CTT>TTT	p.L104F	KIAA1377_uc001pgn.2_Missense_Mutation_p.L60F|KIAA1377_uc009yxa.1_5'UTR	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	104	Potential.						protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		AGAACAAATACTTCAACAAAG	0.373													10	44					0	0	0.008291	0	0		T	101815057	T	T	101815057	3	4	33	1	0	0	0	0	1	0	0	0	8243	565	20	4	320	4	KIAA1377	11	101815057	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	1987324	101815057	33191459	226	31827											
GUCY1A2	2977	broad.mit.edu	37	chr11	106680788	106680788	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattcagcatgctgattacTtgcatgggagtacactgggc	9	12	11	9	0	2	1	2	1	0	0	2	2	2	2	0	2	5	4	0	2	2	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:106680788T>G	uc001pjg.1	-	5	2013	c.1623A>C	c.(1621-1623)CAA>CAC	p.Q541H	GUCY1A2_uc010rvo.1_Missense_Mutation_p.Q562H|GUCY1A2_uc009yxn.1_Missense_Mutation_p.Q541H	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	541	Guanylate cyclase.				intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		TGCTGATTACTTGCATGGGAG	0.413													11	66					0	0	0.008291	0	0		G	106680788	G	G	106680788	3	3	33	1	0	0	0	0	1	0	0	0	6909	1606	56	5	591	5	GUCY1A2	11	106680788	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	4865731	106680788	28325728	227	31828											
USP28	57646	broad.mit.edu	37	chr11	113698007	113698007	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttattgtgaattttctctgGctgcccaagggactgattaa	9	15	9	8	0	1	2	0	2	1	0	2	3	1	3	1	2	1	1	1	2	4	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:113698007G>C	uc001poh.2	-	11	1168	c.1135C>G	c.(1135-1137)CCA>GCA	p.P379A	USP28_uc001pog.2_Missense_Mutation_p.P87A|USP28_uc010rwy.1_Missense_Mutation_p.P254A|USP28_uc001poi.2_5'UTR|USP28_uc001poj.3_Missense_Mutation_p.P379A	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	379					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		ATTTTCTCTGGCTGCCCAAGG	0.393													13	44					0	0	0.001855	0	0		C	113698007	C	C	113698007	3	2	33	1	0	0	0	0	1	0	0	0	17084	1203	42	5	2158	5	USP28	11	113698007	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	7017219	113698007	21308509	228	31829											
ZBTB16	7704	broad.mit.edu	37	chr11	113934741	113934741	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcaccctggggtggctgAggtgaagacggagatgatgc	8	6	19	8	2	0	5	0	3	0	2	0	6	0	5	1	6	1	2	1	6	1	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:113934741A>G	uc001pop.2	+	2	983	c.719A>G	c.(718-720)GAG>GGG	p.E240G	ZBTB16_uc001poo.1_Missense_Mutation_p.E240G|ZBTB16_uc001poq.2_Missense_Mutation_p.E240G	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	240					apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		GGGGTGGCTGAGGTGAAGACG	0.642													4	23					0	0	0.009096	0	0		G	113934741	G	G	113934741	3	3	33	1	0	0	0	0	1	0	0	0	17551	304	11	3	721	3	ZBTB16	11	113934741	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	236734	113934741	21071775	229	31830											
FAM55A	120400	broad.mit.edu	37	chr11	114400955	114400955	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctctctattccgggtggTcatgtaggtcagagcctcac	7	12	10	12	1	4	1	3	0	1	1	6	1	5	1	3	3	2	1	3	3	3	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:114400955T>G	uc001ppa.2	-	3	766	c.349A>C	c.(349-351)ACC>CCC	p.T117P	FAM55A_uc010rxd.1_5'UTR|FAM55A_uc001ppb.1_Missense_Mutation_p.T259P	NM_152315	NP_689528	Q8N323	FA55A_HUMAN	hypothetical protein LOC120400	259						extracellular region					0		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;3.02e-06)|Epithelial(105;0.000144)|all cancers(92;0.00106)		TTCCGGGTGGTCATGTAGGTC	0.443													14	86					0	0	0.004007	0	0		G	114400955	G	G	114400955	3	3	33	1	0	0	0	0	1	0	0	0	5598	1667	58	5	884	5	FAM55A	11	114400955	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	466214	114400955	20605561	230	31831											
FAM55B	120406	broad.mit.edu	37	chr11	114569142	114569142	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcaggaaaggtgactgacTtcaacaacggcacctacctg	12	8	9	12	1	2	2	2	2	0	0	2	3	2	3	2	3	3	1	2	3	4	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:114569142T>C	uc009yyy.2	+	3	606	c.508T>C	c.(508-510)TTC>CTC	p.F170L		NM_182495	NP_872301	Q96DL1	FA55B_HUMAN	hypothetical protein LOC120406	170						integral to membrane				ovary(1)	1						GGTGACTGACTTCAACAACGG	0.552													4	25					0	0	0.009096	0	0		C	114569142	C	C	114569142	3	2	33	1	0	0	0	0	1	0	0	0	5599	1609	56	3	518	3	FAM55B	11	114569142	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	168187	114569142	20437374	231	31832											
C11orf63	79864	broad.mit.edu	37	chr11	122830032	122830032	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcatcaaaggaacaaaaaaAtccaacctatgctgggaaag	20	5	8	8	0	1	0	1	0	0	0	2	2	2	2	2	2	4	2	2	2	8	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:122830032A>C	uc001pym.2	+	9	2513	c.2216A>C	c.(2215-2217)AAT>ACT	p.N739T		NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	739										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		GAACAAAAAAATCCAACCTAT	0.408													14	84					0	0	0.003163	0	0		C	122830032	C	C	122830032	3	2	33	1	0	0	0	0	1	0	0	0	1657	101	4	5	2310	5	C11orf63	11	122830032	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	8260890	122830032	12176484	232	31833											
TMEM225	338661	broad.mit.edu	37	chr11	123755343	123755343	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgaccactttcaggtcaTctgttggaaagcaaaagctg	11	11	9	10	0	3	1	2	1	1	0	4	2	4	2	2	2	2	3	2	2	3	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:123755343T>C	uc001pzi.2	-	2	390	c.182A>G	c.(181-183)GAT>GGT	p.D61G		NM_001013743	NP_001013765	Q6GV28	TM225_HUMAN	transmembrane protein 225	61						integral to membrane				upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	3						TTTCAGGTCATCTGTTGGAAA	0.428													4	41					0	0	0.000602	0	0		C	123755343	C	C	123755343	3	2	33	1	0	0	0	0	1	0	0	0	16172	1449	50	3	507	3	TMEM225	11	123755343	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	925311	123755343	11251173	233	31834											
ROBO4	54538	broad.mit.edu	37	chr11	124766979	124766979	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagaagggtcccatcaggCaggaggtggtgtgggtctgg	8	7	19	7	0	2	1	1	0	1	1	3	2	3	2	1	7	1	2	1	7	1	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr11:124766979C>A	uc001qbg.2	-	2	389	c.249G>T	c.(247-249)CTG>CTT	p.L83L	ROBO4_uc010sas.1_Intron|ROBO4_uc001qbh.2_Intron|ROBO4_uc010sat.1_5'Flank	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	83	Ig-like C2-type 1.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		TCCCATCAGGCAGGAGGTGGT	0.657													8	48					0.00307968	0.00311661	0.00308	1	0		A	124766979	A	A	124766979	2	1	33	1	0	0	0	0	0	0	0	1	13541	697	25	5		5	ROBO4	11	124766979	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	1011636	124766979	10239537	234	31835											
TEAD4	7004	broad.mit.edu	37	chr12	3131176	3131176	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgccttttttcttgtgaAgttctgggtaagcctgtgat	7	17	10	7	0	2	2	0	2	2	0	2	2	2	2	2	1	2	2	2	1	3	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:3131176A>C	uc010sej.1	+	10	1164	c.887A>C	c.(886-888)AAG>ACG	p.K296T	TEAD4_uc010sek.1_Missense_Mutation_p.K253T|TEAD4_uc001qln.2_Missense_Mutation_p.K168T	NM_003213	NP_003204	Q15561	TEAD4_HUMAN	TEA domain family member 4 isoform 1	297				K->A: Important loss of interaction with YAP1 and complete loss of transforming ability.	hippo signaling cascade|muscle organ development|skeletal system development		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(42;0.211)		OV - Ovarian serous cystadenocarcinoma(31;0.000563)|COAD - Colon adenocarcinoma(12;0.0831)			TTTCTTGTGAAGTTCTGGGTA	0.537													19	102					0	0	0.008871	0	0		C	3131176	C	C	3131176	3	2	33	1	0	0	0	0	1	0	0	0	15766	72	3	5	920	5	TEAD4	12	3131176	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08		3131176	130720719	235	31836											
A2ML1	144568	broad.mit.edu	37	chr12	9004872	9004872	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagattctcagacctccAgttgtctctgtgctgatgac	7	12	11	11	0	2	4	1	2	2	2	5	4	3	4	2	1	1	3	2	1	0	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:9004872A>C	uc001quz.3	+	20	2628	c.2530A>C	c.(2530-2532)AGT>CGT	p.S844R	A2ML1_uc001qva.1_Missense_Mutation_p.S424R|A2ML1_uc010sgm.1_Missense_Mutation_p.S344R	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	688						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TCAGACCTCCAGTTGTCTCTG	0.493													22	182					0	0	0.012319	0	0		C	9004872	C	C	9004872	3	2	33	1	0	0	0	0	1	0	0	0	5	188	7	5	2608	5	A2ML1	12	9004872	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	5873696	9004872	124847023	236	31837											
KLRF1	51348	broad.mit.edu	37	chr12	9995000	9995000	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttgaaaatgacatggacTtgggtggatggttctccaat	10	13	11	7	0	1	2	0	2	1	0	3	4	2	4	2	4	0	1	2	4	3	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:9995000T>G	uc010sgw.1	+	6	619	c.555T>G	c.(553-555)ACT>ACG	p.T185T	KLRF1_uc009zgw.2_Silent_p.T136T|KLRF1_uc009zgx.2_RNA|KLRF1_uc001qwm.2_RNA|KLRF1_uc009zgy.2_RNA|KLRF1_uc009zgz.2_Intron|KLRF1_uc009zha.2_Intron	NM_016523	NP_057607	Q9NZS2	KLRF1_HUMAN	killer cell lectin-like receptor subfamily F,	186	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to plasma membrane	MHC class I receptor activity|sugar binding			large_intestine(1)	1						TGACATGGACTTGGGTGGATG	0.373													19	52					0	0	0.012319	0	0		G	9995000	G	G	9995000	2	3	33	1	0	0	0	0	0	0	0	1	8436	1596	56	5		5	KLRF1	12	9995000	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	990128	9995000	123856895	237	31838											
CLEC1B	51266	broad.mit.edu	37	chr12	10149597	10149597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggggctgcatttatgacCttctggagaaaccaagcaca	13	8	10	10	0	1	2	0	1	1	1	1	3	1	2	2	3	3	3	2	3	3	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:10149597C>T	uc001qwu.2	-	4	486	c.286G>A	c.(286-288)GGT>AGT	p.G96S	CLEC1B_uc009zhd.2_Missense_Mutation_p.G63S	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform	96	Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0						CATTTATGACCTTCTGGAGAA	0.408													24	55					0	0	0.003954	0	0		T	10149597	T	T	10149597	3	4	33	1	0	0	0	0	1	0	0	0	3509	681	24	4	415	4	CLEC1B	12	10149597	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	154597	10149597	123702298	238	31839											
ALG10B	144245	broad.mit.edu	37	chr12	38714574	38714574	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacatggaattctgtttttGgtggttaccttagtctctgt	8	18	9	6	0	2	0	0	0	2	0	3	1	2	1	1	3	2	2	1	3	4	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:38714574G>A	uc001rln.3	+	3	1120	c.981G>A	c.(979-981)TTG>TTA	p.L327L	ALG10B_uc001rlo.3_Silent_p.L297L|ALG10B_uc010skk.1_Silent_p.L267L	NM_001013620	NP_001013642	Q5I7T1	AG10B_HUMAN	asparagine-linked glycosylation 10 homolog B	327	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|plasma membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			ovary(2)|skin(1)	3	Esophageal squamous(101;0.187)	Lung NSC(34;0.204)|all_lung(34;0.235)				TTCTGTTTTTGGTGGTTACCT	0.318													32	172					0	0	0.009535	0	0		A	38714574	A	A	38714574	2	1	33	1	0	0	0	0	0	0	0	1	512	1339	47	4		4	ALG10B	12	38714574	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	28564977	38714574	95137321	239	31840											
CPNE8	144402	broad.mit.edu	37	chr12	39233729	39233729	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaacttacatgtttggataAgttggggctctttgaatcaa	11	15	10	5	0	2	2	1	2	1	0	2	3	2	3	0	3	2	3	0	3	5	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:39233729A>T	uc001rls.1	-	5	403	c.319T>A	c.(319-321)TTA>ATA	p.L107I		NM_153634	NP_705898	Q86YQ8	CPNE8_HUMAN	copine VIII	107	C2 1.									pancreas(1)	1	Esophageal squamous(101;0.187)	Lung NSC(34;0.137)|Melanoma(24;0.152)|all_lung(34;0.157)				TGTTTGGATAAGTTGGGGCTC	0.239													7	29					0	0	0.00308	0	0		T	39233729	T	T	39233729	3	4	33	1	0	0	0	0	1	0	0	0	3821	69	3	5	1439	5	CPNE8	12	39233729	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	519155	39233729	94618166	240	31841											
ADAMTS20	80070	broad.mit.edu	37	chr12	43840490	43840490	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctatcttggcactggagTttaacacgtgatcacaacca	11	12	8	10	1	3	1	1	1	2	0	3	2	3	2	1	2	2	2	1	2	3	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:43840490T>G	uc010skx.1	-	15	2105	c.2105A>C	c.(2104-2106)AAC>ACC	p.N702T		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	702	Cys-rich.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		GGCACTGGAGTTTAACACGTG	0.318													11	47					0	0	0.008291	0	0		G	43840490	G	G	43840490	3	3	33	1	0	0	0	0	1	0	0	0	266	1725	60	5	3726	5	ADAMTS20	12	43840490	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	4606761	43840490	90011405	241	31842											
LIMA1	51474	broad.mit.edu	37	chr12	50616015	50616015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttgatgtggggatatcgaCcctgaacgagggcttcagga	9	9	14	9	2	1	2	1	2	0	0	2	6	1	4	2	4	1	1	2	4	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:50616015C>T	uc001rwj.3	-	4	593	c.419G>A	c.(418-420)GGT>GAT	p.G140D	LIMA1_uc001rwh.3_5'UTR|LIMA1_uc001rwi.3_5'UTR|LIMA1_uc001rwk.3_Missense_Mutation_p.G140D|LIMA1_uc010smr.1_RNA|LIMA1_uc010sms.1_RNA	NM_016357	NP_057441	Q9UHB6	LIMA1_HUMAN	LIM domain and actin binding 1 isoform b	140					actin filament bundle assembly|negative regulation of actin filament depolymerization|ruffle organization	cytoplasm|focal adhesion|stress fiber	actin filament binding|actin monomer binding|zinc ion binding			ovary(1)	1						GGGATATCGACCCTGAACGAG	0.473													26	61					0	0	0.005443	0	0		T	50616015	T	T	50616015	3	4	33	1	0	0	0	0	1	0	0	0	8812	507	18	4	1895	4	LIMA1	12	50616015	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	6775525	50616015	83235880	242	31843											
CALCOCO1	57658	broad.mit.edu	37	chr12	54108389	54108389	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgggtgctcacctgtttcTcctcctgtaactgctccttt	4	17	7	13	0	2	0	1	0	1	0	5	0	4	0	4	1	3	4	4	1	2	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:54108389T>A	uc001sef.2	-	11	1619	c.1475A>T	c.(1474-1476)GAG>GTG	p.E492V	CALCOCO1_uc001see.2_5'UTR|CALCOCO1_uc010som.1_Missense_Mutation_p.E407V|CALCOCO1_uc010son.1_Missense_Mutation_p.E369V|CALCOCO1_uc001seh.2_Missense_Mutation_p.E492V|CALCOCO1_uc009znd.2_Missense_Mutation_p.E492V|CALCOCO1_uc001seg.2_Missense_Mutation_p.E317V|CALCOCO1_uc010soo.1_Missense_Mutation_p.E485V	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	492	Potential.				steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						CACCTGTTTCTCCTCCTGTAA	0.527													8	45					0	0	0.00308	0	0		A	54108389	A	A	54108389	3	1	33	1	0	0	0	0	1	0	0	0	2580	1551	54	5	620	5	CALCOCO1	12	54108389	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	3492374	54108389	79743506	243	31844											
KIAA0748	9840	broad.mit.edu	37	chr12	55356615	55356615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaagacacatggatagggaGaagtgggcaacttcttaccc	14	7	12	8	0	1	3	0	0	1	3	1	5	1	4	1	3	2	1	1	3	5	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:55356615G>A	uc001sgn.3	-	9	1177	c.1067C>T	c.(1066-1068)TCT>TTT	p.S356F	KIAA0748_uc001sgl.3_Missense_Mutation_p.S218F|KIAA0748_uc001sgm.3_Missense_Mutation_p.S103F|KIAA0748_uc010spb.1_Missense_Mutation_p.S103F|KIAA0748_uc010spc.1_Missense_Mutation_p.S218F|KIAA0748_uc010spd.1_Missense_Mutation_p.S356F|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	356										ovary(1)|central_nervous_system(1)	2						TGGATAGGGAGAAGTGGGCAA	0.517													19	39					0	0	0.006122	0	0		A	55356615	A	A	55356615	3	1	33	1	0	0	0	0	1	0	0	0	8206	942	33	4	506	4	KIAA0748	12	55356615	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	1248226	55356615	78495280	244	31845											
IKZF4	64375	broad.mit.edu	37	chr12	56421645	56421645	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcgccacatcaagctgcactCtggggagaagccctttaaat	11	8	10	12	1	2	1	1	0	1	1	2	2	2	1	2	2	3	2	2	2	4	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:56421645C>G	uc001sjb.1	+	6	788	c.629C>G	c.(628-630)TCT>TGT	p.S210C	IKZF4_uc010sqa.1_Missense_Mutation_p.S163C|IKZF4_uc001sjc.1_Missense_Mutation_p.S210C|IKZF4_uc001sjd.1_Missense_Mutation_p.S108C|IKZF4_uc009zoi.1_Missense_Mutation_p.S165C|IKZF4_uc001sje.1_Missense_Mutation_p.S169C	NM_022465	NP_071910	Q9H2S9	IKZF4_HUMAN	zinc finger protein, subfamily 1A, 4	210					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (6;0.025)|OV - Ovarian serous cystadenocarcinoma(18;0.123)			AAGCTGCACTCTGGGGAGAAG	0.562													7	24					0	0	0.001984	0	0		G	56421645	G	G	56421645	3	3	33	1	0	0	0	0	1	0	0	0	7633	913	32	5	647	5	IKZF4	12	56421645	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	1065030	56421645	77430250	245	31846											
TMEM19	55266	broad.mit.edu	37	chr12	72083376	72083376	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttataatttttcaggtaacTtacgacctatttctccgtgg	9	18	6	8	2	2	0	1	0	1	0	3	1	2	0	2	2	2	1	2	2	5	9			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:72083376T>C	uc001sws.2	+	2	719	c.136T>C	c.(136-138)TTA>CTA	p.L46L	TMEM19_uc001swr.1_Silent_p.L32L|TMEM19_uc009zru.1_RNA	NM_018279	NP_060749	Q96HH6	TMM19_HUMAN	transmembrane protein 19	46						integral to membrane					0		Breast(359;0.0889)		GBM - Glioblastoma multiforme(134;0.044)		TTCAGGTAACTTACGACCTAT	0.398													21	134					0	0	0.010504	0	0		C	72083376	C	C	72083376	2	2	33	1	0	0	0	0	0	0	0	1	16138	1606	56	3		3	TMEM19	12	72083376	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	15661731	72083376	61768519	246	31847											
TRHDE	29953	broad.mit.edu	37	chr12	73056901	73056901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacgagctgtggaaactgtcGaagccaatgtgcgctggaaa	12	7	13	9	3	0	0	0	0	0	0	1	4	0	2	1	2	4	2	1	2	4	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:73056901G>A	uc001sxa.2	+	19	3031	c.3001G>A	c.(3001-3003)GAA>AAA	p.E1001K		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	1001	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						GGAAACTGTCGAAGCCAATGT	0.373													10	77					0	0	0.008291	0	0		A	73056901	A	A	73056901	3	1	33	1	0	0	0	0	1	0	0	0	16505	1059	37	1	3075	1	TRHDE	12	73056901	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	973525	73056901	60794994	247	31848											
OSBPL8	114882	broad.mit.edu	37	chr12	76784288	76784288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgatatatgagtcatcttgtCtttctgatgtatctgtgtca	8	18	8	7	1	6	2	2	2	4	0	6	3	6	2	0	0	0	1	0	0	3	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:76784288C>T	uc001sye.1	-	11	1559	c.1079G>A	c.(1078-1080)AGA>AAA	p.R360K	OSBPL8_uc001syf.1_Missense_Mutation_p.R318K|OSBPL8_uc001syg.1_Missense_Mutation_p.R318K|OSBPL8_uc001syh.1_Missense_Mutation_p.R335K	NM_020841	NP_065892	Q9BZF1	OSBL8_HUMAN	oxysterol-binding protein-like protein 8 isoform	360					lipid transport		lipid binding			ovary(1)	1						GTCATCTTGTCTTTCTGATGT	0.388													27	121					0	0	0.005443	0	0		T	76784288	T	T	76784288	3	4	33	1	0	0	0	0	1	0	0	0	11302	913	32	4	1646	4	OSBPL8	12	76784288	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	3727387	76784288	57067607	248	31849											
NAV3	89795	broad.mit.edu	37	chr12	78444768	78444768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtataccacgcctctccGtcgagctgctgtctctaggc	6	11	9	15	3	2	0	0	0	2	0	5	1	2	0	3	1	3	3	3	1	3	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:78444768G>A	uc001syp.2	+	11	2530	c.2357G>A	c.(2356-2358)CGT>CAT	p.R786H	NAV3_uc001syo.2_Missense_Mutation_p.R786H|NAV3_uc010sub.1_Missense_Mutation_p.R286H	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	786						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						ACGCCTCTCCGTCGAGCTGCT	0.557										HNSCC(70;0.22)			6	38					0	0	0.001168	0	0		A	78444768	A	A	78444768	3	1	33	1	0	0	0	0	1	0	0	0	10203	1145	40	1	2399	1	NAV3	12	78444768	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	1660480	78444768	55407127	249	31850											
NAV3	89795	broad.mit.edu	37	chr12	78573437	78573437	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcatcatcttgatcagaTccgggaagccatgaaccgga	11	9	10	11	2	4	3	3	2	1	1	5	5	5	5	3	2	3	1	3	2	2	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:78573437T>G	uc001syp.2	+	29	5665	c.5492T>G	c.(5491-5493)ATC>AGC	p.I1831S	NAV3_uc001syo.2_Missense_Mutation_p.I1809S|NAV3_uc010sub.1_Missense_Mutation_p.I1288S|NAV3_uc009zsf.2_Missense_Mutation_p.I640S	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1831	Potential.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CTTGATCAGATCCGGGAAGCC	0.433										HNSCC(70;0.22)			16	90					0	0	0.007413	0	0		G	78573437	G	G	78573437	3	3	33	1	0	0	0	0	1	0	0	0	10203	1435	50	5	5536	5	NAV3	12	78573437	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	128669	78573437	55278458	250	31851											
PPFIA2	8499	broad.mit.edu	37	chr12	81719631	81719631	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactcctgagctgcagctTcagtctccataaagcctcct	8	10	9	14	0	2	1	1	1	1	0	5	2	4	2	4	1	4	3	4	1	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:81719631T>G	uc001szo.1	-	22	2728	c.2567A>C	c.(2566-2568)GAA>GCA	p.E856A	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	782										ovary(3)|lung(2)|pancreas(1)	6						AGCTGCAGCTTCAGTCTCCAT	0.423													6	45					0	0	0.00308	0	0		G	81719631	G	G	81719631	3	3	33	1	0	0	0	0	1	0	0	0	12329	1783	62	5	1250	5	PPFIA2	12	81719631	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	3146194	81719631	52132264	251	31852											
FGD6	55785	broad.mit.edu	37	chr12	95566467	95566467	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgatgatttcctcctcatcaGagggaaggtcaccaagacca	12	9	9	11	0	3	4	3	2	0	2	5	5	5	5	4	2	0	0	4	2	2	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:95566467G>C	uc001tdp.3	-	3	2719	c.2495C>G	c.(2494-2496)TCT>TGT	p.S832C	FGD6_uc009zsx.2_5'UTR	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	832				S -> P (in Ref. 3; CAD98096).	actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						CTCCTCATCAGAGGGAAGGTC	0.433													32	200					0	0	0.009535	0	0		C	95566467	C	C	95566467	3	2	33	1	0	0	0	0	1	0	0	0	5851	942	33	5	1873	5	FGD6	12	95566467	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	13846836	95566467	38285428	252	31853											
SCYL2	55681	broad.mit.edu	37	chr12	100685289	100685289	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttatttaggaagtggcAgtttttgtctttgataaaaa	11	19	8	3	0	2	1	0	1	2	0	2	2	2	2	0	2	0	2	0	2	6	8			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:100685289A>C	uc001thn.2	+	3	236	c.186A>C	c.(184-186)GCA>GCC	p.A62A	SCYL2_uc009ztw.1_5'UTR|SCYL2_uc001thm.1_Silent_p.A62A	NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein	62	Protein kinase.				endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						AGGAAGTGGCAGTTTTTGTCT	0.279													8	58					0	0	0.00308	0	0		C	100685289	C	C	100685289	2	2	33	1	0	0	0	0	0	0	0	1	13973	175	7	5		5	SCYL2	12	100685289	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	5118822	100685289	33166606	253	31854											
WSCD2	9671	broad.mit.edu	37	chr12	108634185	108634185	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatcaagacgcacgaaagCggccagaaagagatcgaggc	15	3	13	10	4	1	3	1	0	0	3	2	6	1	3	1	2	2	2	1	2	3	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:108634185C>T	uc001tms.2	+	8	1953	c.1209C>T	c.(1207-1209)AGC>AGT	p.S403S	WSCD2_uc001tmt.2_Silent_p.S403S|WSCD2_uc001tmu.2_Silent_p.S151S	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	403						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						CGCACGAAAGCGGCCAGAAAG	0.607													5	186					0	0	0.001168	0	0		T	108634185	T	T	108634185	2	4	33	1	0	0	0	0	0	0	0	1	17433	767	27	1		1	WSCD2	12	108634185	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	7948896	108634185	25217710	254	31855											
NAA25	80018	broad.mit.edu	37	chr12	112471065	112471065	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaagtgtcttctaaaataAgttcttcaagtttaagtgca	14	14	8	5	0	4	1	1	0	3	1	4	2	4	1	0	0	1	3	0	0	6	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:112471065A>G	uc001ttm.2	-	23	2788	c.2768T>C	c.(2767-2769)CTT>CCT	p.L923P	NAA25_uc001ttn.3_RNA	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	923						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						TTCTAAAATAAGTTCTTCAAG	0.373													15	65					0	0	0.004007	0	0		G	112471065	G	G	112471065	3	3	33	1	0	0	0	0	1	0	0	0	10139	72	3	3	158	3	NAA25	12	112471065	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	3836880	112471065	21380830	255	31856											
DNAH10	196385	broad.mit.edu	37	chr12	124414973	124414973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtatggaggacgggccatcGacagctttgatcgccgcatc	8	9	13	11	4	0	1	0	1	0	0	3	4	0	3	2	3	1	3	2	3	1	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr12:124414973G>A	uc001uft.3	+	72	12308	c.12283G>A	c.(12283-12285)GAC>AAC	p.D4095N	DNAH10_uc001ufu.3_Missense_Mutation_p.D8N	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	4095	TPR 5.				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		ACGGGCCATCGACAGCTTTGA	0.557													8	25					0	0	0.00308	0	0		A	124414973	A	A	124414973	3	1	33	1	0	0	0	0	1	0	0	0	4604	1058	37	1	12569	1	DNAH10	12	124414973	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	11943908	124414973	9436922	256	31857											
SACS	26278	broad.mit.edu	37	chr13	23908520	23908520	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgggtcgttttgcatcaaaAgtttgcaaaacactgtccag	11	13	9	8	1	1	0	1	0	0	0	3	0	2	0	1	1	3	4	1	1	4	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr13:23908520A>C	uc001uon.2	-	10	10084	c.9495T>G	c.(9493-9495)ACT>ACG	p.T3165T	SACS_uc001uoo.2_Silent_p.T3018T|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3165					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TTGCATCAAAAGTTTGCAAAA	0.318													7	38					0	0	0.004482	0	0		C	23908520	C	C	23908520	2	2	33	1	0	0	0	0	0	0	0	1	13829	59	3	5		5	SACS	13	23908520	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08		23908520	91261358	257	31858											
RNF17	56163	broad.mit.edu	37	chr13	25399903	25399903	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaatttggtaccgagcaaaAgttatcggtaggagaatgca	14	9	13	5	2	0	1	0	0	0	1	1	4	0	2	1	4	3	5	1	4	7	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr13:25399903A>C	uc001upr.2	+	16	2279	c.2238A>C	c.(2236-2238)AAA>AAC	p.K746N	RNF17_uc010tdd.1_Missense_Mutation_p.K605N|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.K746N|RNF17_uc001ups.2_Missense_Mutation_p.K685N	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	746	Tudor 1.				multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		ACCGAGCAAAAGTTATCGGTA	0.368													17	63					0	0	0.006122	0	0		C	25399903	C	C	25399903	3	2	33	1	0	0	0	0	1	0	0	0	13486	69	3	5	2300	5	RNF17	13	25399903	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1491383	25399903	89769975	258	31859											
SPG20	23111	broad.mit.edu	37	chr13	36888405	36888405	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctcctcctgtagcttgcTtcgctatataaagtcccttg	6	15	7	13	1	0	0	0	0	0	0	4	0	3	0	3	0	3	5	3	0	5	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr13:36888405T>G	uc001uvn.2	-	7	1712	c.1442A>C	c.(1441-1443)AAG>ACG	p.K481T	SPG20_uc010ten.1_Missense_Mutation_p.K471T|SPG20_uc001uvm.2_Missense_Mutation_p.K481T|SPG20_uc001uvo.2_Missense_Mutation_p.K481T|SPG20_uc001uvq.2_Missense_Mutation_p.K481T	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	481					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		TGTAGCTTGCTTCGCTATATA	0.393													17	107					0	0	0.014323	0	0		G	36888405	G	G	36888405	3	3	33	1	0	0	0	0	1	0	0	0	15067	1609	56	5	574	5	SPG20	13	36888405	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	11488502	36888405	78281473	259	31860											
SUCLA2	8803	broad.mit.edu	37	chr13	48562750	48562750	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcgctcacagaccaatacttGattgcatattctgccctttt	9	15	5	12	1	2	2	1	1	1	1	3	2	2	2	2	0	3	2	2	0	3	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr13:48562750G>C	uc001vbs.2	-	4	517	c.460C>G	c.(460-462)CAA>GAA	p.Q154E	SUCLA2_uc010tgb.1_Missense_Mutation_p.Q94E|SUCLA2_uc010tgc.1_Missense_Mutation_p.Q20E|SUCLA2_uc010tgd.1_Missense_Mutation_p.Q94E|SUCLA2_uc001vbt.1_RNA|SUCLA2_uc001vbu.1_Missense_Mutation_p.Q154E	NM_003850	NP_003841	Q9P2R7	SUCB1_HUMAN	succinate-CoA ligase, ADP-forming, beta subunit	154	ATP-grasp.				succinyl-CoA pathway|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			central_nervous_system(1)	1		all_cancers(8;1.13e-24)|all_epithelial(8;1.78e-13)|all_lung(13;2.85e-06)|Breast(56;0.000141)|Lung NSC(96;0.000226)|all_hematologic(8;0.000885)|Prostate(109;0.00132)|Acute lymphoblastic leukemia(8;0.0167)|Myeloproliferative disorder(33;0.039)|Hepatocellular(98;0.0556)|Lung SC(185;0.102)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(144;2.1e-06)	Succinic acid(DB00139)	ACCAATACTTGATTGCATATT	0.353													3	96					0	0	0.009096	0	0		C	48562750	C	C	48562750	3	2	33	1	0	0	0	0	1	0	0	0	15388	1299	45	5	963	5	SUCLA2	13	48562750	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	11674345	48562750	66607128	260	31861											
GPC5	2262	broad.mit.edu	37	chr13	92560224	92560224	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggttggaaatggaatcaaAgcccagtctggaaatcctga	13	9	12	7	0	2	1	1	1	1	0	3	4	3	4	2	4	1	1	2	4	4	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr13:92560224A>C	uc010tif.1	+	6	1680	c.1314A>C	c.(1312-1314)AAA>AAC	p.K438N		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	438						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				ATGGAATCAAAGCCCAGTCTG	0.393													12	66					0	0	0.001855	0	0		C	92560224	C	C	92560224	3	2	33	1	0	0	0	0	1	0	0	0	6616	69	3	5	1336	5	GPC5	13	92560224	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	43997474	92560224	22609654	261	31862											
MYO16	23026	broad.mit.edu	37	chr13	109859011	109859011	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtggccctgcaggaactcTtggactggaggagaaagctc	9	8	15	9	0	1	1	0	0	1	1	2	5	1	4	1	5	3	2	1	5	2	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr13:109859011T>G	uc001vqt.1	+	35	5530	c.5404T>G	c.(5404-5406)TTG>GTG	p.L1802V	MYO16_uc010agk.1_Missense_Mutation_p.L1824V	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1802					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			GCAGGAACTCTTGGACTGGAG	0.552													11	63					0	0	0.010729	0	0		G	109859011	G	G	109859011	3	3	33	1	0	0	0	0	1	0	0	0	10082	1606	56	5	5538	5	MYO16	13	109859011	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	17298787	109859011	5310867	262	31863											
CHD8	57680	broad.mit.edu	37	chr14	21859686	21859686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacatctccagttcagccCggcgaggggcatcctcaccc	8	6	9	18	2	3	0	2	0	1	0	5	1	4	0	5	3	1	2	5	3	0	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr14:21859686C>T	uc001was.1	-	36	6258	c.6164G>A	c.(6163-6165)CGG>CAG	p.R2055Q	CHD8_uc001war.1_Missense_Mutation_p.R1951Q	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	2334					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		CAGTTCAGCCCGGCGAGGGGC	0.527													5	17					0	0	0.001168	0	0		T	21859686	T	T	21859686	3	4	33	1	0	0	0	0	1	0	0	0	3334	652	23	1	756	1	CHD8	14	21859686	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08		21859686	85489854	263	31864											
SLC35F4	341880	broad.mit.edu	37	chr14	58063439	58063439	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgtgtgtagcgagcaagTgttgaatgtataagccacac	12	11	11	7	1	0	1	0	1	0	0	0	2	0	1	1	0	3	4	1	0	5	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr14:58063439T>G	uc001xdb.1	-	1	177	c.177A>C	c.(175-177)ACA>ACC	p.T59T	SLC35F4_uc010aoz.1_RNA|SLC35F4_uc010apa.1_Intron	NM_001080455	NP_001073924			solute carrier family 35, member F4											ovary(2)	2						AGCGAGCAAGTGTTGAATGTA	0.378													9	31					0	0	0.006214	0	0		G	58063439	G	G	58063439	2	3	33	1	0	0	0	0	0	0	0	1	14616	1683	59	5		5	SLC35F4	14	58063439	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	36203753	58063439	49286101	264	31865											
DACT1	51339	broad.mit.edu	37	chr14	59112838	59112838	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggccctgccccgccgcaggaGaacaaagttgtacagcccct	9	5	11	16	2	0	1	0	0	0	1	0	2	0	1	6	2	4	3	6	2	3	2	rs145184753		TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr14:59112838G>C	uc001xdw.2	+	4	1661	c.1497G>C	c.(1495-1497)GAG>GAC	p.E499D	DACT1_uc010trv.1_Missense_Mutation_p.E218D|DACT1_uc001xdx.2_Missense_Mutation_p.E462D|DACT1_uc010trw.1_Missense_Mutation_p.E218D	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	499					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						CGCCGCAGGAGAACAAAGTTG	0.607													16	79					0	0	0.008871	0	0		C	59112838	C	C	59112838	3	2	33	1	0	0	0	0	1	0	0	0	4225	933	33	5	1511	5	DACT1	14	59112838	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	1049399	59112838	48236702	265	31866											
PRKCH	5583	broad.mit.edu	37	chr14	61789032	61789033	+	Frame_Shift_Ins	INS	-	T	T																															aacccacgtacaacgaggagINSttttgcgctaacgtcaccga																										TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr14:61789032_61789033insT	uc001xfn.2	+	1	518_519	c.213_214insT	c.(211-216)GAGTTTfs	p.E71fs	PRKCH_uc010tsa.1_Intron|uc001xfm.2_Intron	NM_006255	NP_006246	P24723	KPCL_HUMAN	protein kinase C, eta	71_72	C2.				intracellular signal transduction|platelet activation	cytosol|plasma membrane	ATP binding|enzyme binding|metal ion binding|protein kinase C activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|large_intestine(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(108;0.045)|BRCA - Breast invasive adenocarcinoma(234;0.0906)|KIRC - Kidney renal clear cell carcinoma(182;0.182)		ACAACGAGGAGTTTTGCGCTAA	0.624													17	36	---	---	---	---						.	T	61789033	T	T	61789032	7	5	33	1	0	1	1	0	0	0	0	0	12535	1020	36	0	215	0	PRKCH	14	61789032	Frame_Shift_Ins	INS	-	TCGA-BR-6458-01A-11D-1800-08	2676194	61789032	45560508	266	31867											
KCNH5	27133	broad.mit.edu	37	chr14	63416924	63416924	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctatgtttccaaatcctatGgttgtaaggcttgtcatggt	8	16	10	7	0	1	0	1	0	0	0	3	0	3	0	2	3	0	5	2	3	4	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr14:63416924G>A	uc001xfx.2	-	7	1347	c.1296C>T	c.(1294-1296)ACC>ACT	p.T432T	KCNH5_uc001xfy.2_Silent_p.T432T|KCNH5_uc001xfz.1_Silent_p.T374T|KCNH5_uc001xga.2_Silent_p.T374T	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	432	Selectivity filter (By similarity).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		CAAATCCTATGGTTGTAAGGC	0.418													18	41					0	0	0.006122	0	0		A	63416924	A	A	63416924	2	1	33	1	0	0	0	0	0	0	0	1	8051	1335	47	4		4	KCNH5	14	63416924	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	1627892	63416924	43932616	267	31868											
KCNK10	54207	broad.mit.edu	37	chr14	88707082	88707082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagttccagcaaagaaaaagGcactgccgaggtcccagtgg	13	5	12	11	1	0	1	0	0	0	1	2	2	2	1	3	3	2	3	3	3	3	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr14:88707082G>A	uc001xwo.2	-	3	927	c.470C>T	c.(469-471)GCC>GTC	p.A157V	KCNK10_uc001xwm.2_Missense_Mutation_p.A162V|KCNK10_uc001xwn.2_Missense_Mutation_p.A162V	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	157					signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						AAAGAAAAAGGCACTGCCGAG	0.478													31	109					0	0	0.007291	0	0		A	88707082	A	A	88707082	3	1	33	1	0	0	0	0	1	0	0	0	8075	1203	42	2	1166	2	KCNK10	14	88707082	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	25290158	88707082	18642458	268	31869											
ATG2B	55102	broad.mit.edu	37	chr14	96777946	96777946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagccccatatccatcacaCgaacataatctaaaattttt	17	11	2	11	1	2	0	1	0	1	0	3	1	3	0	3	0	2	0	3	0	6	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr14:96777946C>T	uc001yfi.2	-	27	4288	c.3923G>A	c.(3922-3924)CGT>CAT	p.R1308H		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1308										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		ATCCATCACACGAACATAATC	0.313													8	50					0	0	0.004482	0	0		T	96777946	T	T	96777946	3	4	33	1	0	0	0	0	1	0	0	0	1095	536	19	1	2377	1	ATG2B	14	96777946	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	8070864	96777946	10571594	269	31870											
RASGRP1	10125	broad.mit.edu	37	chr15	38805039	38805039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggagctgcggcgtggggCggctgagaaccatcagttgt	6	8	17	10	4	1	1	1	1	0	1	2	3	1	2	1	5	3	3	1	5	1	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr15:38805039C>T	uc001zke.3	-	7	972	c.794G>A	c.(793-795)CGC>CAC	p.R265H	RASGRP1_uc010bbe.2_RNA|RASGRP1_uc010bbf.2_Missense_Mutation_p.R127H|RASGRP1_uc010bbg.2_Missense_Mutation_p.R127H|RASGRP1_uc001zkd.3_Missense_Mutation_p.R265H	NM_005739	NP_005730	O95267	GRP1_HUMAN	RAS guanyl releasing protein 1 isoform a	265	Ras-GEF.				cell differentiation|platelet activation|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|lipid binding|protein binding			large_intestine(1)|ovary(1)	2		all_cancers(109;6.38e-17)|all_epithelial(112;5.51e-15)|Lung NSC(122;2.12e-11)|all_lung(180;5.63e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;1.97e-07)|BRCA - Breast invasive adenocarcinoma(123;0.00248)		CGGCGTGGGGCGGCTGAGAAC	0.502													7	41					0	0	0.001984	0	0		T	38805039	T	T	38805039	3	4	33	1	0	0	0	0	1	0	0	0	13099	768	27	1	1643	1	RASGRP1	15	38805039	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08		38805039	63726353	270	31871											
CATSPER2	117155	broad.mit.edu	37	chr15	43924471	43924471	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaactcaaaatatcggaagAgtgagtctctgggccaaaca	15	7	10	9	1	2	2	1	1	1	1	4	3	2	3	1	2	2	1	1	2	6	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr15:43924471A>T	uc001zsh.2	-	12	1702	c.1487T>A	c.(1486-1488)CTC>CAC	p.L496H	STRC_uc010udz.1_RNA|CATSPER2_uc010bdm.2_RNA|CATSPER2_uc001zsi.2_Missense_Mutation_p.L494H|CATSPER2_uc001zsj.2_Missense_Mutation_p.L494H	NM_172095	NP_742093	Q96P56	CTSR2_HUMAN	sperm-associated cation channel 2 isoform 2	496	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|protein binding|voltage-gated ion channel activity			ovary(1)	1		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		ATATCGGAAGAGTGAGTCTCT	0.483													11	95					0	0	0.010729	0	0		T	43924471	T	T	43924471	3	4	33	1	0	0	0	0	1	0	0	0	2691	304	11	5	113	5	CATSPER2	15	43924471	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	5119432	43924471	58606921	271	31872											
SEMA6D	80031	broad.mit.edu	37	chr15	48062707	48062707	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcaggtgtacgatgggaAgtccagtctggagagtccaa	11	10	13	7	1	2	1	1	0	1	1	4	4	4	2	2	3	1	1	2	3	3	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr15:48062707A>C	uc010bek.2	+	19	2307	c.1947A>C	c.(1945-1947)GAA>GAC	p.E649D	SEMA6D_uc001zvw.2_Missense_Mutation_p.E587D|SEMA6D_uc001zvy.2_Missense_Mutation_p.E649D|SEMA6D_uc001zvz.2_Missense_Mutation_p.E593D|SEMA6D_uc001zwa.2_Missense_Mutation_p.K586T|SEMA6D_uc001zwb.2_Missense_Mutation_p.E587D|SEMA6D_uc001zwc.2_Missense_Mutation_p.E574D	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	649	Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		TACGATGGGAAGTCCAGTCTG	0.438													18	121					0	0	0.012319	0	0		C	48062707	C	C	48062707	3	2	33	1	0	0	0	0	1	0	0	0	14067	72	3	5	2060	5	SEMA6D	15	48062707	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	4138236	48062707	54468685	272	31873											
ADAM10	102	broad.mit.edu	37	chr15	58913755	58913755	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatctttacactggtcacTatagccacaatcacattctt	11	15	3	12	0	5	0	3	0	2	0	5	0	5	0	1	1	2	0	1	1	4	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr15:58913755T>C	uc002afd.1	-	11	1870	c.1426A>G	c.(1426-1428)AGT>GGT	p.S476G	ADAM10_uc010bgc.1_RNA|ADAM10_uc010ugz.1_Missense_Mutation_p.S175G|ADAM10_uc002afe.1_Intron|ADAM10_uc002aff.1_Missense_Mutation_p.S13G	NM_001110	NP_001101	O14672	ADA10_HUMAN	ADAM metallopeptidase domain 10 precursor	476	Extracellular (Potential).|Disintegrin.				cell-cell signaling|constitutive protein ectodomain proteolysis|epidermal growth factor receptor signaling pathway|in utero embryonic development|integrin-mediated signaling pathway|monocyte activation|negative regulation of cell adhesion|Notch receptor processing|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of T cell chemotaxis|protein phosphorylation|response to tumor necrosis factor	cell surface|endomembrane system|Golgi-associated vesicle|integral to membrane|nucleus|plasma membrane	integrin binding|metalloendopeptidase activity|protein homodimerization activity|protein kinase binding|SH3 domain binding|zinc ion binding			skin(2)	2				GBM - Glioblastoma multiforme(80;0.202)		CACTGGTCACTATAGCCACAA	0.403													43	76					0	0	0.00874	0	0		C	58913755	C	C	58913755	3	2	33	1	0	0	0	0	1	0	0	0	234	1522	53	3	844	3	ADAM10	15	58913755	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	10851048	58913755	43617637	273	31874											
FOXB1	27023	broad.mit.edu	37	chr15	60297500	60297500	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagcgcttcaaggtgcttaAgtccgaccacctggcgccca	9	7	10	15	3	1	0	1	0	0	0	2	1	2	0	4	2	2	2	4	2	3	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr15:60297500A>C	uc002agj.1	+	2	817	c.338A>C	c.(337-339)AAG>ACG	p.K113T	FOXB1_uc010bgh.1_Intron	NM_012182	NP_036314	Q99853	FOXB1_HUMAN	forkhead box B1	113					axon target recognition|cell migration in diencephalon|epithelial cell differentiation involved in mammary gland alveolus development|floor plate development|hypothalamus cell migration|inferior colliculus development|lactation|mammillothalamic axonal tract development|negative regulation of neuron apoptosis|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|telencephalon cell migration|visual learning	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|central_nervous_system(1)	2						AAGGTGCTTAAGTCCGACCAC	0.697													4	30					0	0	0.009096	0	0		C	60297500	C	C	60297500	3	2	33	1	0	0	0	0	1	0	0	0	6006	72	3	5	340	5	FOXB1	15	60297500	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1383745	60297500	42233892	274	31875											
NOX5	79400	broad.mit.edu	37	chr15	69327747	69327747	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgggccacgtggctggctcaAgtcctaccactggaccagaa	9	6	12	14	2	1	1	1	0	0	1	2	2	2	2	4	4	1	2	4	4	3	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr15:69327747A>C	uc002ars.1	+	6	929	c.909A>C	c.(907-909)CAA>CAC	p.Q303H	NOX5_uc002arp.1_Missense_Mutation_p.Q285H|NOX5_uc002arq.1_Missense_Mutation_p.Q257H|NOX5_uc010bid.1_Missense_Mutation_p.Q268H|NOX5_uc002arr.1_Missense_Mutation_p.Q275H|NOX5_uc010bie.1_Missense_Mutation_p.Q103H|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	303	Ferric oxidoreductase.|Cytoplasmic (Potential).				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						GGCTGGCTCAAGTCCTACCAC	0.617													5	37					0	0	0.001168	0	0		C	69327747	C	C	69327747	3	2	33	1	0	0	0	0	1	0	0	0	10578	69	3	5	964	5	NOX5	15	69327747	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	9030247	69327747	33203645	275	31876											
CCDC33	80125	broad.mit.edu	37	chr15	74572359	74572359	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaatcagtccttcctctTccaaggccgagatggagcta	9	10	11	11	1	2	1	1	0	1	1	5	4	5	3	4	3	1	1	4	3	3	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr15:74572359T>C	uc002axo.2	+	8	1209	c.815T>C	c.(814-816)TTC>TCC	p.F272S	CCDC33_uc002axp.2_Missense_Mutation_p.F94S	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	475							protein binding			ovary(3)|skin(2)	5						TCCTTCCTCTTCCAAGGCCGA	0.612													8	35					0	0	0.006214	0	0		C	74572359	C	C	74572359	3	2	33	1	0	0	0	0	1	0	0	0	2809	1783	62	3	845	3	CCDC33	15	74572359	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	5244612	74572359	27959033	276	31877											
WHAMM	123720	broad.mit.edu	37	chr15	83499800	83499800	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcacctgctgagcgaccAcgtgactccttggaaagttt	10	10	10	11	2	1	2	1	2	0	0	2	5	2	3	3	1	2	2	3	1	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr15:83499800A>G	uc002bje.2	+	9	2597	c.2091A>G	c.(2089-2091)CCA>CCG	p.P697P		NM_001080435	NP_001073904	Q8TF30	WHAMM_HUMAN	WAS protein homolog associated with actin, golgi	697						cytoplasmic vesicle membrane|ER-Golgi intermediate compartment|Golgi apparatus	actin binding				0						CTGAGCGACCACGTGACTCCT	0.498													37	212					0	0	0.007835	0	0		G	83499800	G	G	83499800	2	3	33	1	0	0	0	0	0	0	0	1	17387	146	6	3		3	WHAMM	15	83499800	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	8927441	83499800	19031592	277	31878											
ACAN	176	broad.mit.edu	37	chr15	89391183	89391183	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccccatgcgtgggtgacaAggacagcagcccaggggtca	10	4	15	12	1	1	1	1	1	0	0	1	3	1	2	3	4	3	1	3	4	1	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr15:89391183A>C	uc010upo.1	+	9	2020	c.1646A>C	c.(1645-1647)AAG>ACG	p.K549T	ACAN_uc002bmx.2_Missense_Mutation_p.K549T|ACAN_uc010upp.1_Missense_Mutation_p.K549T|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	549					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			GTGGGTGACAAGGACAGCAGC	0.572													16	115					0	0	0.004007	0	0		C	89391183	C	C	89391183	3	2	33	1	0	0	0	0	1	0	0	0	117	72	3	5	1676	5	ACAN	15	89391183	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	5891383	89391183	13140209	278	31879											
ADAMTS17	170691	broad.mit.edu	37	chr15	100649236	100649236	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatcagtctcgtagggcccGcagggtgtaccgtccaggac	8	7	14	12	3	2	1	1	0	1	1	4	2	3	2	3	3	1	3	3	3	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr15:100649236G>A	uc002bvv.1	-	14	2053	c.1974C>T	c.(1972-1974)TGC>TGT	p.C658C	ADAMTS17_uc002bvx.1_Silent_p.C415C	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	658	Cys-rich.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		CGTAGGGCCCGCAGGGTGTAC	0.617													12	37					0	0	0.001855	0	0		A	100649236	A	A	100649236	2	1	33	1	0	0	0	0	0	0	0	1	262	1079	38	1		1	ADAMTS17	15	100649236	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	11258053	100649236	1882156	279	31880											
TSC2	7249	broad.mit.edu	37	chr16	2106669	2106669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcaggtgctggacgccGtggtctgctacaactgcctg	5	9	13	14	2	1	0	0	0	1	0	1	1	1	1	3	3	6	3	3	3	2	1	rs142919353		TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr16:2106669G>A	uc002con.2	+	8	779	c.673G>A	c.(673-675)GTG>ATG	p.V225M	TSC2_uc010bsd.2_Missense_Mutation_p.V225M|TSC2_uc002coo.2_Missense_Mutation_p.V225M|TSC2_uc010uvv.1_Missense_Mutation_p.V188M|TSC2_uc010uvw.1_Missense_Mutation_p.V176M|TSC2_uc002cop.2_Missense_Mutation_p.V25M	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	225	Required for interaction with TSC1.				cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				GCTGGACGCCGTGGTCTGCTA	0.637			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				10	35					0	0	0.008291	0	0		A	2106669	A	A	2106669	3	1	33	1	0	0	0	0	1	0	0	0	16632	1145	40	1	699	1	TSC2	16	2106669	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08		2106669	88248084	280	31881											
OR2C1	4993	broad.mit.edu	37	chr16	3406818	3406818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccctcatctacacgctgcGgaacatggaagtgaagggcg	10	7	12	12	3	2	1	1	1	1	0	3	3	3	3	2	3	3	1	2	3	4	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr16:3406818G>A	uc002cuw.1	+	1	930	c.878G>A	c.(877-879)CGG>CAG	p.R293Q		NM_012368	NP_036500	O95371	OR2C1_HUMAN	olfactory receptor, family 2, subfamily C,	293	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TACACGCTGCGGAACATGGAA	0.512													17	29					0	0	0.004007	0	0		A	3406818	A	A	3406818	3	1	33	1	0	0	0	0	1	0	0	0	11011	1116	39	1	880	1	OR2C1	16	3406818	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	1300149	3406818	86947935	281	31882											
C16orf62	57020	broad.mit.edu	37	chr16	19603148	19603148	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagacaccagtgttattcagTtctacccaagcaaatttgtc	12	12	6	11	0	2	1	1	0	1	1	3	1	2	1	2	0	2	3	2	0	4	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr16:19603148T>G	uc002dgn.1	+	8	688	c.676T>G	c.(676-678)TTC>GTC	p.F226V	C16orf62_uc002dgo.1_Missense_Mutation_p.F226V|C16orf62_uc002dgp.1_Intron|C16orf62_uc010vas.1_Missense_Mutation_p.F100V|C16orf62_uc002dgm.1_Missense_Mutation_p.F226V	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	226						integral to membrane				ovary(1)	1						TGTTATTCAGTTCTACCCAAG	0.378													23	82					0	0	0.003954	0	0		G	19603148	G	G	19603148	3	3	33	1	0	0	0	0	1	0	0	0	1828	1725	60	5	706	5	C16orf62	16	19603148	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	16196330	19603148	70751605	282	31883											
GPRC5B	51704	broad.mit.edu	37	chr16	19883494	19883494	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcttccacctcttgaacTtgccgcacagagtgaagagg	10	9	10	12	1	2	4	1	2	1	2	3	4	3	4	3	1	3	2	3	1	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr16:19883494T>C	uc002dgt.2	-	2	782	c.674A>G	c.(673-675)AAG>AGG	p.K225R	GPRC5B_uc010vav.1_Missense_Mutation_p.K251R	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	225	Cytoplasmic (Potential).									lung(1)|breast(1)|skin(1)	3						CCTCTTGAACTTGCCGCACAG	0.582													17	55					0	0	0.004007	0	0		C	19883494	C	C	19883494	3	2	33	1	0	0	0	0	1	0	0	0	6741	1609	56	3	549	3	GPRC5B	16	19883494	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	280346	19883494	70471259	283	31884											
DCTN5	84516	broad.mit.edu	37	chr16	23678440	23678440	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccaagagctactaccagaAgtttttgcccctgacgcaag	12	8	8	13	1	0	3	0	1	0	2	0	3	0	3	4	0	4	3	4	0	5	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr16:23678440A>C	uc002dly.1	+	6	581	c.524A>C	c.(523-525)AAG>ACG	p.K175T		NM_032486	NP_115875	Q9BTE1	DCTN5_HUMAN	dynactin 5	175						centrosome	transferase activity			upper_aerodigestive_tract(1)	1				GBM - Glioblastoma multiforme(48;0.0156)		TACTACCAGAAGTTTTTGCCC	0.522													11	58					0	0	0.001855	0	0		C	23678440	C	C	23678440	3	2	33	1	0	0	0	0	1	0	0	0	4313	72	3	5	546	5	DCTN5	16	23678440	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	3794946	23678440	66676313	284	31885											
SEZ6L2	26470	broad.mit.edu	37	chr16	29897033	29897033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtccgaatcatagatcaCgggggatagggggctgcccc	9	7	14	11	2	2	1	2	0	0	1	3	3	3	2	3	4	1	1	3	4	3	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr16:29897033C>T	uc002duq.3	-	8	1486	c.1246G>A	c.(1246-1248)GTG>ATG	p.V416M	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.V346M|SEZ6L2_uc002dur.3_Missense_Mutation_p.V346M|SEZ6L2_uc002dus.3_Missense_Mutation_p.V302M|SEZ6L2_uc010vec.1_Missense_Mutation_p.V416M|SEZ6L2_uc010ved.1_Missense_Mutation_p.V372M	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	416	CUB 2.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						TCATAGATCACGGGGGATAGG	0.612													22	32					0	0	0.012319	0	0		T	29897033	T	T	29897033	3	4	33	1	0	0	0	0	1	0	0	0	14169	536	19	1	1569	1	SEZ6L2	16	29897033	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	6218593	29897033	60457720	285	31886											
GABARAPL2	11345	broad.mit.edu	37	chr16	75602021	75602021	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgatatcactgtggctcaGttcatgtggatcatcaggaa	10	13	10	8	0	6	1	5	1	1	0	6	3	6	3	0	3	0	2	0	3	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr16:75602021G>A	uc002fen.2	+	3	313	c.177G>A	c.(175-177)CAG>CAA	p.Q59Q	GABARAPL2_uc010cgy.2_Intron	NM_007285	NP_009216	P60520	GBRL2_HUMAN	GABA(A) receptor-associated protein-like 2	59	Interaction with GABRG2 (Potential).				autophagy|intra-Golgi vesicle-mediated transport|positive regulation of ATPase activity|protein transport	autophagic vacuole membrane|cytosol|Golgi membrane|membrane fraction	ATPase binding|beta-tubulin binding|GABA receptor binding|microtubule binding|SNARE binding			ovary(1)	1						CTGTGGCTCAGTTCATGTGGA	0.453													36	146					0	0	0.003271	0	0		A	75602021	A	A	75602021	2	1	33	1	0	0	0	0	0	0	0	1	6168	1020	36	4		4	GABARAPL2	16	75602021	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	45704988	75602021	14752732	286	31887											
TP53	7157	broad.mit.edu	37	chr17	7577120	7577120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggacaggcacaaacaCgcacctcaaagctgttccgt	12	6	8	15	2	1	0	1	0	0	0	3	1	3	1	3	2	2	4	3	2	2	1	rs28934576	by1000genomes	TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr17:7577120C>T	uc002gim.2	-	8	1012	c.818G>A	c.(817-819)CGT>CAT	p.R273H	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141H|TP53_uc010cng.1_Missense_Mutation_p.R141H|TP53_uc002gii.1_Missense_Mutation_p.R141H|TP53_uc010cnh.1_Missense_Mutation_p.R273H|TP53_uc010cni.1_Missense_Mutation_p.R273H|TP53_uc002gij.2_Missense_Mutation_p.R273H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(469)|p.R273C(394)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGCACAAACACGCACCTCAAA	0.542	R273H(NCIH1793_LUNG)|R273H(MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PANC1_PANCREAS)|R273H(NCIH508_LARGE_INTESTINE)|R273H(NCIH1975_LUNG)|R273H(U251MG_CENTRAL_NERVOUS_SYSTEM)|R273H(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273H(NCIH2405_LUNG)|R273H(HEC59_ENDOMETRIUM)|R273H(NCIH1155_LUNG)|R273H(HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(EN_ENDOMETRIUM)|R273H(SNB19_CENTRAL_NERVOUS_SYSTEM)|R273H(MDAMB468_BREAST)|R273H(SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW620_LARGE_INTESTINE)|R273H(SUIT2_PANCREAS)|R273H(SW480_LARGE_INTESTINE)|R273H(SKMEL30_SKIN)|R273H(OC314_OVARY)|R273H(HEC6_ENDOMETRIUM)|R273H(HT29_LARGE_INTESTINE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			13	8					0	0	0.013537	0	0		T	7577120	T	T	7577120	3	4	33	1	0	0	0	0	1	0	0	0	16407	536	19	1	468	1	TP53	17	7577120	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08		7577120	73618090	287	31888											
DNAH2	146754	broad.mit.edu	37	chr17	7684068	7684068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgctatgctggcaagaagCgccgcctacagccggatctg	8	7	13	13	4	1	1	0	0	1	1	1	2	1	2	3	2	5	3	3	2	4	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr17:7684068C>T	uc002giu.1	+	37	5985	c.5971C>T	c.(5971-5973)CGC>TGC	p.R1991C		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1991					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TGGCAAGAAGCGCCGCCTACA	0.557													23	54					0	0	0.014323	0	0		T	7684068	T	T	7684068	3	4	33	1	0	0	0	0	1	0	0	0	4608	768	27	1	6117	1	DNAH2	17	7684068	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	106948	7684068	73511142	288	31889											
MYH2	4620	broad.mit.edu	37	chr17	10428647	10428647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttctgcaatctgttccGtgaggtcagaaatctcctct	7	14	7	13	1	5	2	1	1	4	1	8	2	7	2	3	1	1	2	3	1	2	2	rs138796340		TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr17:10428647G>A	uc010coi.2	-	33	4684	c.4556C>T	c.(4555-4557)ACG>ATG	p.T1519M	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.T1519M|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1519	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						AATCTGTTCCGTGAGGTCAGA	0.383													13	46					0	0	0.013537	0	0		A	10428647	A	A	10428647	3	1	33	1	0	0	0	0	1	0	0	0	10053	1145	40	1	1301	1	MYH2	17	10428647	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	2744579	10428647	70766563	289	31890											
EFCAB5	374786	broad.mit.edu	37	chr17	28417521	28417521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcatatagtagttccacttCgtgagagaacaggagaggct	12	9	12	8	2	0	3	0	1	0	2	2	5	1	3	1	2	1	4	1	2	4	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr17:28417521C>T	uc002het.2	+	20	3958	c.3766C>T	c.(3766-3768)CGT>TGT	p.R1256C	EFCAB5_uc010cse.2_Missense_Mutation_p.R1011C|EFCAB5_uc010csf.2_Intron	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	1256							calcium ion binding			ovary(1)|skin(1)	2						AGTTCCACTTCGTGAGAGAAC	0.393													25	101					0	0	0.004656	0	0		T	28417521	T	T	28417521	3	4	33	1	0	0	0	0	1	0	0	0	4944	884	31	1	4011	1	EFCAB5	17	28417521	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	17988874	28417521	52777689	290	31891											
CCL8	6355	broad.mit.edu	37	chr17	32647919	32647919	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaatatttcaaaatctgaAgccatgagccttcatacatg	15	11	5	10	0	3	2	2	2	1	0	3	2	3	2	3	0	3	0	3	0	6	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr17:32647919A>C	uc002hib.2	+	3	748	c.293A>C	c.(292-294)AAG>ACG	p.K98T		NM_005623	NP_005614	P80075	CCL8_HUMAN	small inducible cytokine A8 precursor	98					calcium ion transport|cell-cell signaling|chemotaxis|exocytosis|immune response|inflammatory response|response to virus	extracellular space	chemokine activity|heparin binding|signal transducer activity				0		Ovarian(249;0.0443)|Breast(31;0.151)				CAAAATCTGAAGCCATGAGCC	0.453													9	20					0	0	0.006214	0	0		C	32647919	C	C	32647919	3	2	33	1	0	0	0	0	1	0	0	0	2910	72	3	5	303	5	CCL8	17	32647919	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	4230398	32647919	48547291	291	31892											
SOCS7	30837	broad.mit.edu	37	chr17	36508871	36508871	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcttcagctgcgagcctGacagacatgggaggctctgc	7	8	14	12	1	2	2	1	1	1	1	2	4	2	3	1	2	5	4	1	2	0	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr17:36508871G>T	uc002hqa.2	+	1	867	c.744G>T	c.(742-744)CTG>CTT	p.L248L	SOCS7_uc010cvl.2_Silent_p.L248L|SOCS7_uc002hqb.2_RNA	NM_014598	NP_055413	O14512	SOCS7_HUMAN	suppressor of cytokine signaling 7	248	Mediates interaction with SORBS3.				intracellular signal transduction|negative regulation of signal transduction|regulation of growth	cytoplasm|nucleus|plasma membrane	protein binding|SH3 domain binding			skin(1)	1	Breast(7;3.47e-17)					CTGCGAGCCTGACAGACATGG	0.647													4	23					1.23904e-05	1.26911e-05	0.000602	1	0		T	36508871	T	T	36508871	2	4	33	1	0	0	0	0	0	0	0	1	14944	1277	45	5		5	SOCS7	17	36508871	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	3860952	36508871	44686339	292	31893											
ABCA8	10351	broad.mit.edu	37	chr17	66898948	66898948	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagaaagttcccaggtgtaActgttttgatatattttcac	11	15	9	6	0	1	2	1	1	0	1	2	3	2	2	1	2	1	3	1	2	4	8			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr17:66898948A>C	uc002jhp.2	-	19	2729	c.2550T>G	c.(2548-2550)AGT>AGG	p.S850R	ABCA8_uc002jhq.2_Missense_Mutation_p.S890R|ABCA8_uc010wqq.1_Missense_Mutation_p.S890R|ABCA8_uc010wqr.1_Missense_Mutation_p.S829R|ABCA8_uc002jhr.2_Missense_Mutation_p.S890R	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	850						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					CCCAGGTGTAACTGTTTTGAT	0.373													14	61					0	0	0.001855	0	0		C	66898948	C	C	66898948	3	2	33	1	0	0	0	0	1	0	0	0	38	40	2	5	2275	5	ABCA8	17	66898948	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	30390077	66898948	14296262	293	31894											
KIAA0802	23255	broad.mit.edu	37	chr18	8783803	8783803	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcgtggagctggaggtggaGaaccgtggcctcaaggcaga	10	6	17	8	2	1	2	1	0	0	2	2	5	1	4	2	6	2	2	2	6	2	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr18:8783803G>A	uc002knr.2	+	6	835	c.693G>A	c.(691-693)GAG>GAA	p.E231E	KIAA0802_uc002knq.2_Silent_p.E231E|KIAA0802_uc010dkw.1_Silent_p.E69E	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	582	Potential.										0						TGGAGGTGGAGAACCGTGGCC	0.672													5	22					0	0	0.000602	0	0		A	8783803	A	A	8783803	2	1	33	1	0	0	0	0	0	0	0	1	8210	933	33	4		4	KIAA0802	18	8783803	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08		8783803	69293445	294	31895											
ZNF521	25925	broad.mit.edu	37	chr18	22806982	22806982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccgctatgcacctgctcCatgtggttcatgagggaggt	6	11	12	12	1	1	1	1	1	0	0	3	2	3	2	4	3	2	4	4	3	1	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr18:22806982C>T	uc002kvk.2	-	4	1147	c.900G>A	c.(898-900)ATG>ATA	p.M300I	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.M300I|ZNF521_uc002kvl.2_Missense_Mutation_p.M80I	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	300	C2H2-type 7.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					GCACCTGCTCCATGTGGTTCA	0.552			T	PAX5	ALL								5	60					0	0	0.000602	0	0		T	22806982	T	T	22806982	3	4	33	1	0	0	0	0	1	0	0	0	17990	594	21	4	3055	4	ZNF521	18	22806982	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	14023179	22806982	55270266	295	31896											
SLC39A6	25800	broad.mit.edu	37	chr18	33706542	33706542	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatggtctgggcaaagagcTtttcgcttatttttaccaga	9	15	9	8	1	2	2	1	0	1	2	3	2	2	2	1	2	2	3	1	2	3	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr18:33706542T>G	uc010dmy.2	-	2	719	c.429A>C	c.(427-429)AAA>AAC	p.K143N	SLC39A6_uc002kzj.2_Intron	NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	143	Extracellular (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						GGCAAAGAGCTTTTCGCTTAT	0.303													18	60					0	0	0.006122	0	0		G	33706542	G	G	33706542	3	3	33	1	0	0	0	0	1	0	0	0	14647	1606	56	5	1886	5	SLC39A6	18	33706542	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	10899560	33706542	44370706	296	31897											
MC4R	4160	broad.mit.edu	37	chr18	58039273	58039273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtactgtttaatagggtgaTgacaatggtttctgatccat	10	16	10	5	0	1	3	0	3	1	0	2	3	2	3	1	2	1	3	1	2	4	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr18:58039273T>C	uc002lie.1	-	1	729	c.310A>G	c.(310-312)ATC>GTC	p.I104V		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	104	Helical; Name=2; (Potential).				feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)				AATAGGGTGATGACAATGGTT	0.423													4	77					0	0	0.009096	0	0		C	58039273	C	C	58039273	3	2	33	1	0	0	0	0	1	0	0	0	9384	1464	51	3	692	3	MC4R	18	58039273	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	24332731	58039273	20037975	297	31898											
CDH7	1005	broad.mit.edu	37	chr18	63481784	63481784	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacatatggcaacagtgccaGagtggtctacagtattctgc	11	11	10	9	0	2	1	0	0	2	1	2	1	2	1	1	2	5	2	1	2	5	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr18:63481784G>C	uc002ljz.2	+	4	894	c.569G>C	c.(568-570)AGA>ACA	p.R190T	CDH7_uc002lka.2_Missense_Mutation_p.R190T|CDH7_uc002lkb.2_Missense_Mutation_p.R190T	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	190	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				AACAGTGCCAGAGTGGTCTAC	0.428													22	65					0	0	0.012319	0	0		C	63481784	C	C	63481784	3	2	33	1	0	0	0	0	1	0	0	0	3118	942	33	5	579	5	CDH7	18	63481784	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	5442511	63481784	14595464	298	31899											
MUC16	94025	broad.mit.edu	37	chr19	9058990	9058990	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catattgggagctgaagtggTctcaggttccaaacttgcat	10	12	11	8	0	1	1	1	1	1	0	3	2	2	2	1	3	3	3	1	3	3	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:9058990T>G	uc002mkp.2	-	3	28660	c.28456A>C	c.(28456-28458)ACC>CCC	p.T9486P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9488	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCTGAAGTGGTCTCAGGTTCC	0.478													27	136					0	0	0.008361	0	0		G	9058990	G	G	9058990	3	3	33	1	0	0	0	0	1	0	0	0	9991	1667	58	5	15395	5	MUC16	19	9058990	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08		9058990	50069993	299	31900											
ZNF317	57693	broad.mit.edu	37	chr19	9271459	9271459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagtccaactttaatttgCacaagaagaaccacatggtg	15	9	9	8	0	0	2	0	0	0	2	1	3	1	3	2	2	3	1	2	2	6	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:9271459C>T	uc002mku.2	+	7	1413	c.1138C>T	c.(1138-1140)CAC>TAC	p.H380Y	ZNF317_uc002mkv.2_Missense_Mutation_p.H239Y|ZNF317_uc002mkw.2_Missense_Mutation_p.H348Y|ZNF317_uc002mkx.2_Missense_Mutation_p.H295Y|ZNF317_uc002mky.2_Missense_Mutation_p.H263Y	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	380	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTTAATTTGCACAAGAAGAA	0.522													13	22					0	0	0.003163	0	0		T	9271459	T	T	9271459	3	4	33	1	0	0	0	0	1	0	0	0	17860	710	25	2	1160	2	ZNF317	19	9271459	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	212469	9271459	49857524	300	31901											
MAST1	22983	broad.mit.edu	37	chr19	12969369	12969369	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctacctggtgcggcaccgCgacacgcggcagcgctttgc	5	7	14	15	6	1	0	0	0	1	0	1	1	1	0	2	3	4	3	2	3	1	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:12969369C>T	uc002mvm.2	+	12	1310	c.1182C>T	c.(1180-1182)CGC>CGT	p.R394R	MAST1_uc002mvk.2_Silent_p.R390R	NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	394	Protein kinase.				cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						TGCGGCACCGCGACACGCGGC	0.647													7	37					0	0	0.00308	0	0		T	12969369	T	T	12969369	2	4	33	1	0	0	0	0	0	0	0	1	9342	755	27	1		1	MAST1	19	12969369	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	3697910	12969369	46159614	301	31902											
CALR	811	broad.mit.edu	37	chr19	13051267	13051267	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacagactccaagcctgagGttggtgtttgggcaggggct	7	9	15	10	0	0	2	0	1	0	1	1	2	1	2	3	5	1	4	3	5	1	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:13051267G>A	uc002mvu.2	+	5	782	c.702_splice	c.e5+1	p.E234_splice		NM_004343	NP_004334	P27797	CALR_HUMAN	calreticulin precursor						cell cycle arrest|cellular senescence|glucocorticoid receptor signaling pathway|negative regulation of neuron differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of steroid hormone receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of translation|peptide antigen assembly with MHC class I protein complex|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of phagocytosis|post-translational protein modification|protein export from nucleus|protein maturation by protein folding|protein N-linked glycosylation via asparagine|protein stabilization|regulation of apoptosis|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|extracellular space|MHC class I peptide loading complex|nucleus|perinuclear region of cytoplasm|polysome|proteinaceous extracellular matrix	androgen receptor binding|calcium ion binding|chaperone binding|complement component C1q binding|DNA binding|integrin binding|mRNA binding|protein binding involved in protein folding|sugar binding|ubiquitin protein ligase binding|unfolded protein binding|zinc ion binding			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAAGCCTGAGGTTGGTGTTTG	0.552													11	26					0	0	0.010729	0	0		A	13051267	A	A	13051267	5	1	33	1	0	0	0	0	0	0	1	0	2595	1275	44	4	721	4	CALR	19	13051267	Splice_Site	SNP	G	TCGA-BR-6458-01A-11D-1800-08	81898	13051267	46077716	302	31903											
OR7A17	26333	broad.mit.edu	37	chr19	14991857	14991857	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaaccctccaaaaagtacaAaaaagcacatctgggtgatg	17	7	7	10	0	1	1	0	1	1	0	2	1	2	1	2	1	3	2	2	1	7	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:14991857A>T	uc010xob.1	-	1	311	c.311T>A	c.(310-312)TTT>TAT	p.F104Y		NM_030901	NP_112163	O14581	OR7AH_HUMAN	olfactory receptor, family 7, subfamily A,	104	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					AAAAAGTACAAAAAAGCACAT	0.463													16	59					0	0	0.00499	0	0		T	14991857	T	T	14991857	3	4	33	1	0	0	0	0	1	0	0	0	11234	14	1	5	620	5	OR7A17	19	14991857	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1940590	14991857	44137126	303	31904											
TM6SF2	53345	broad.mit.edu	37	chr19	19381881	19381881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggacaagctgtagaccGccacgaaaagcagacccagg	14	3	12	12	2	0	2	0	0	0	2	0	4	0	3	3	2	2	3	3	2	4	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:19381881G>A	uc002nmd.1	-	2	199	c.149C>T	c.(148-150)GCG>GTG	p.A50V	HAPLN4_uc002nmc.2_5'UTR	NM_001001524	NP_001001524	Q9BZW4	TM6S2_HUMAN	transmembrane 6 superfamily member 2	50	Helical; (Potential).					integral to membrane					0			Epithelial(12;0.0151)			GCTGTAGACCGCCACGAAAAG	0.607													19	56					0	0	0.007413	0	0		A	19381881	A	A	19381881	3	1	33	1	0	0	0	0	1	0	0	0	15998	1087	38	1	1020	1	TM6SF2	19	19381881	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	4390024	19381881	39747102	304	31905											
ZNF43	7594	broad.mit.edu	37	chr19	21992308	21992308	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaatgatttgccacattcTttgcatttgaaaagtttttt	12	18	5	6	0	1	2	0	2	1	0	1	2	1	2	1	0	2	2	1	0	4	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:21992308T>A	uc002nqj.2	-	4	661	c.531A>T	c.(529-531)AAA>AAT	p.K177N	ZNF43_uc010ecv.2_Missense_Mutation_p.K171N|ZNF43_uc002nql.2_Missense_Mutation_p.K171N|ZNF43_uc002nqm.2_Missense_Mutation_p.K171N|ZNF43_uc002nqk.2_Missense_Mutation_p.K107N	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	177	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		TGCCACATTCTTTGCATTTGA	0.289													7	25					0	0	0.001984	0	0		A	21992308	A	A	21992308	3	1	33	1	0	0	0	0	1	0	0	0	17928	1606	56	5	1902	5	ZNF43	19	21992308	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	2610427	21992308	37136675	305	31906											
ZNF99	7652	broad.mit.edu	37	chr19	22951153	22951153	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttcatattccaaggctcTttcccttgcttcagacaagt	8	15	5	13	0	4	1	2	0	2	1	6	1	6	1	2	1	1	2	2	1	3	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:22951153T>C	uc010xrh.1	-	3	243	c.243A>G	c.(241-243)AAA>AAG	p.K81K		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				TCCAAGGCTCTTTCCCTTGCT	0.368													7	23					0	0	0.004482	0	0		C	22951153	C	C	22951153	2	2	33	1	0	0	0	0	0	0	0	1	18229	1606	56	3		3	ZNF99	19	22951153	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	958845	22951153	36177830	306	31907											
TSHZ3	57616	broad.mit.edu	37	chr19	31769734	31769734	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagctccagggaagctttcTtccgagtggcagggatgatt	8	10	13	10	1	1	1	0	1	1	0	3	4	3	3	3	3	2	3	3	3	1	3	rs146913156		TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:31769734T>A	uc002nsy.3	-	2	1030	c.965A>T	c.(964-966)AAG>ATG	p.K322M		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	322					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					GGAAGCTTTCTTCCGAGTGGC	0.522													11	111					0	0	0.001855	0	0		A	31769734	A	A	31769734	3	1	33	1	0	0	0	0	1	0	0	0	16651	1609	56	5	2284	5	TSHZ3	19	31769734	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	8818581	31769734	27359249	307	31908											
MLL4	9757	broad.mit.edu	37	chr19	36218419	36218419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctggggcagcgcagcccCgctggcgagaggccctgagc	5	4	18	14	3	0	2	0	1	0	1	0	3	0	2	3	4	4	4	3	4	0	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:36218419C>T	uc010eei.2	+	17	4198	c.4198C>T	c.(4198-4200)CGC>TGC	p.R1400C		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1400					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGCGCAGCCCCGCTGGCGAGA	0.667													23	126					0	0	0.012319	0	0		T	36218419	T	T	36218419	3	4	33	1	0	0	0	0	1	0	0	0	9641	652	23	1	4260	1	MLL4	19	36218419	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	4448685	36218419	22910564	308	31909											
EGLN2	112398	broad.mit.edu	37	chr19	41307126	41307126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaggccctcaaacggggtGggcgcctgcgagacgggcag	7	4	19	11	4	1	1	1	0	0	1	1	3	1	2	2	6	2	1	2	6	1	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:41307126G>A	uc010ehd.2	+	8	1650	c.649G>A	c.(649-651)GGG>AGG	p.G217R	EGLN2_uc002opg.3_Missense_Mutation_p.G217R|EGLN2_uc002oph.2_Missense_Mutation_p.G217R|EGLN2_uc002opi.2_Missense_Mutation_p.G217R	NM_080732	NP_542770	Q96KS0	EGLN2_HUMAN	EGL nine (C.elegans) homolog 2	217					cell redox homeostasis|estrogen receptor signaling pathway|positive regulation of protein catabolic process|regulation of cell growth|response to hypoxia	cytoplasm|nucleus	ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|oxygen sensor activity			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Vitamin C(DB00126)	CAAACGGGGTGGGCGCCTGCG	0.687													44	79					0	0	0.00874	0	0		A	41307126	A	A	41307126	3	1	33	1	0	0	0	0	1	0	0	0	4975	1348	47	4	651	4	EGLN2	19	41307126	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	5088707	41307126	17821857	309	31910											
PSG2	5670	broad.mit.edu	37	chr19	43570731	43570731	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgttggattaaggagaggaAgaagtcctattcttgtagaa	14	12	12	3	0	1	3	0	0	1	3	2	6	2	5	1	3	0	2	1	3	6	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:43570731A>G	uc002ovr.2	-	5	1079	c.986T>C	c.(985-987)CTT>CCT	p.L329P	PSG10_uc002ouv.1_RNA|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.L329P|PSG2_uc010eiq.1_Intron|PSG2_uc002ovs.3_Missense_Mutation_p.L329P|PSG2_uc002ovt.3_Missense_Mutation_p.L329P	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	329					cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				AAGGAGAGGAAGAAGTCCTAT	0.418													21	127					0	0	0.010504	0	0		G	43570731	G	G	43570731	3	3	33	1	0	0	0	0	1	0	0	0	12677	72	3	3	25	3	PSG2	19	43570731	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	2263605	43570731	15558252	310	31911											
ZNF404	342908	broad.mit.edu	37	chr19	44377328	44377328	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcactactatgaattctCttatgtttaagaaggcttga	11	17	6	7	0	2	3	1	2	2	1	4	3	2	3	0	1	1	2	0	1	6	8			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:44377328C>A	uc002oxs.3	-	2	1038	c.1029G>T	c.(1027-1029)AAG>AAT	p.K343N		NM_001033719	NP_001028891	Q494X3	ZN404_HUMAN	zinc finger protein 404	346	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				TATGAATTCTCTTATGTTTAA	0.393													13	87					1.36491e-13	1.42926e-13	0.001855	1	0		A	44377328	A	A	44377328	3	1	33	1	0	0	0	0	1	0	0	0	17911	912	32	5	624	5	ZNF404	19	44377328	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	806597	44377328	14751655	311	31912											
ZNF285	26974	broad.mit.edu	37	chr19	44891483	44891483	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtttgtctcctgaggagacTttctgatatctgggaaggtc	7	14	13	7	0	3	3	0	2	3	1	5	5	3	4	1	4	0	1	1	4	2	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:44891483T>G	uc002ozd.3	-	4	1011	c.924A>C	c.(922-924)AAA>AAC	p.K308N	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Missense_Mutation_p.K315N	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	308					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						CTGAGGAGACTTTCTGATATC	0.483													25	169					0	0	0.00333	0	0		G	44891483	G	G	44891483	3	3	33	1	0	0	0	0	1	0	0	0	17847	1606	56	5	852	5	ZNF285	19	44891483	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	514155	44891483	14237500	312	31913											
PRKD2	25865	broad.mit.edu	37	chr19	47192802	47192802	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagacgcacctgggtgaTgaggaacttggtgaggcgct	8	7	18	8	2	0	4	0	3	0	1	0	5	0	5	1	5	1	3	1	5	1	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:47192802T>C	uc002pfh.2	-	15	2305	c.1963A>G	c.(1963-1965)ATC>GTC	p.I655V	PRKD2_uc002pfd.2_Missense_Mutation_p.I29V|PRKD2_uc010eks.2_Missense_Mutation_p.I58V|PRKD2_uc010ekt.2_5'UTR|PRKD2_uc002pfe.2_Missense_Mutation_p.I175V|PRKD2_uc002pff.2_Missense_Mutation_p.I175V|PRKD2_uc002pfg.2_Missense_Mutation_p.I498V|PRKD2_uc002pfi.2_Missense_Mutation_p.I655V|PRKD2_uc002pfj.2_Missense_Mutation_p.I655V|PRKD2_uc010xye.1_Missense_Mutation_p.I655V|PRKD2_uc002pfk.2_Missense_Mutation_p.I498V	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	655	Protein kinase.				cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		ACCTGGGTGATGAGGAACTTG	0.607													12	21					0	0	0.010729	0	0		C	47192802	C	C	47192802	3	2	33	1	0	0	0	0	1	0	0	0	12541	1464	51	3	693	3	PRKD2	19	47192802	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	2301319	47192802	11936181	313	31914											
FKRP	79147	broad.mit.edu	37	chr19	47259669	47259669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccctgctgcctgcgcgCgctgcgcgagaccgcccgct	2	5	13	21	7	0	1	0	0	0	1	0	2	0	1	6	0	4	3	6	0	0	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:47259669C>T	uc002pfn.2	+	4	1259	c.962C>T	c.(961-963)GCG>GTG	p.A321V	FKRP_uc002pfp.2_Missense_Mutation_p.A321V	NM_024301	NP_077277	Q9H9S5	FKRP_HUMAN	fukutin-related protein	321						extracellular space|Golgi apparatus|rough endoplasmic reticulum|sarcolemma	transferase activity			pancreas(1)	1		all_epithelial(76;5.08e-05)|Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000541)|all cancers(93;0.00128)|Epithelial(262;0.0207)|GBM - Glioblastoma multiforme(486;0.0336)		TGCCTGCGCGCGCTGCGCGAG	0.741													3	9					0	0	0.009096	0	0		T	47259669	T	T	47259669	3	4	33	1	0	0	0	0	1	0	0	0	5931	768	27	1	964	1	FKRP	19	47259669	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	66867	47259669	11869314	314	31915											
NPAS1	4861	broad.mit.edu	37	chr19	47542709	47542709	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcccacgccctgggcctTgtggccctcgggcacacgtt	3	7	14	17	4	0	0	0	0	0	0	1	0	0	0	4	4	0	2	4	4	0	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:47542709T>C	uc002pfw.2	+	8	1045	c.849T>C	c.(847-849)CTT>CTC	p.L283L	NPAS1_uc002pfx.2_Silent_p.L108L|NPAS1_uc002pfy.2_Silent_p.L283L|NPAS1_uc010xyj.1_Silent_p.L107L	NM_002517	NP_002508	Q99742	NPAS1_HUMAN	neuronal PAS domain protein 1	283					central nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0		all_cancers(25;4.31e-08)|all_epithelial(76;2.96e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.102)		all cancers(93;6.02e-05)|OV - Ovarian serous cystadenocarcinoma(262;7.35e-05)|Epithelial(262;0.00389)|GBM - Glioblastoma multiforme(486;0.0252)		CCCTGGGCCTTGTGGCCCTCG	0.677													10	51					0	0	0.008291	0	0		C	47542709	C	C	47542709	2	2	33	1	0	0	0	0	0	0	0	1	10581	1799	63	3		3	NPAS1	19	47542709	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	283040	47542709	11586274	315	31916											
ZNF613	79898	broad.mit.edu	37	chr19	52448445	52448445	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaatgaatgtgggaaaggcTtcagccagaagacatgttta	14	9	12	6	0	1	3	1	1	0	2	1	4	1	4	1	2	1	3	1	2	5	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:52448445T>G	uc002pxz.1	+	6	1732	c.1309T>G	c.(1309-1311)TTC>GTC	p.F437V	ZNF613_uc002pya.1_Missense_Mutation_p.F401V	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	437	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		TGGGAAAGGCTTCAGCCAGAA	0.438													11	70					0	0	0.008291	0	0		G	52448445	G	G	52448445	3	3	33	1	0	0	0	0	1	0	0	0	18063	1609	56	5	1323	5	ZNF613	19	52448445	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	4905736	52448445	6680538	316	31917											
LILRA4	23547	broad.mit.edu	37	chr19	54849465	54849465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgttcactcctgaggtcaCcacagggcttggcagtgcgg	7	8	13	13	2	2	1	2	1	0	0	3	1	3	1	2	4	1	3	2	4	0	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr19:54849465C>T	uc002qfj.2	-	4	454	c.397G>A	c.(397-399)GTG>ATG	p.V133M	LILRA4_uc002qfi.2_Missense_Mutation_p.V67M	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	133	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		CCTGAGGTCACCACAGGGCTT	0.582													11	63					0	0	0.001855	0	0		T	54849465	T	T	54849465	3	4	33	1	0	0	0	0	1	0	0	0	8803	507	18	4	1122	4	LILRA4	19	54849465	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	2401020	54849465	4279518	317	31918											
VPS16	64601	broad.mit.edu	37	chr20	2845684	2845684	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccttctacaaggccaagAatgagtttgcagccaaggtt	12	10	10	9	0	1	2	0	1	1	1	1	2	1	2	3	2	4	3	3	2	5	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr20:2845684A>C	uc002whe.2	+	20	2035	c.1987A>C	c.(1987-1989)AAT>CAT	p.N663H	VPS16_uc002whh.2_RNA|PTPRA_uc002whj.2_5'UTR|VPS16_uc002whf.2_Missense_Mutation_p.N519H|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_Missense_Mutation_p.N349H|VPS16_uc002whi.2_Missense_Mutation_p.N147H	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	663					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						CAAGGCCAAGAATGAGTTTGC	0.542													16	129					0	0	0.008871	0	0		C	2845684	C	C	2845684	3	2	33	1	0	0	0	0	1	0	0	0	17219	246	9	5	2065	5	VPS16	20	2845684	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08		2845684	60179836	318	31919											
HAO1	54363	broad.mit.edu	37	chr20	7920962	7920962	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcaatattatcagccaaAgtttcttcatcatttgcccc	10	14	5	12	0	4	0	3	0	1	0	4	0	4	0	3	0	3	3	3	0	4	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr20:7920962A>G	uc002wmw.1	-	1	132	c.108T>C	c.(106-108)ACT>ACC	p.T36T	HAO1_uc010gbu.2_Silent_p.T36T	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	36	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						TATCAGCCAAAGTTTCTTCAT	0.318													12	75					0	0	0.013537	0	0		G	7920962	G	G	7920962	2	3	33	1	0	0	0	0	0	0	0	1	6967	59	3	3		3	HAO1	20	7920962	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	5075278	7920962	55104558	319	31920											
NINL	22981	broad.mit.edu	37	chr20	25459831	25459831	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgccgcaatttccctttcGtagtaatttacctaaaacga	12	13	6	10	3	0	0	0	0	0	0	2	1	1	0	3	0	3	3	3	0	6	7	rs148406486	by1000genomes	TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr20:25459831G>A	uc002wux.1	-	16	2003	c.1929C>T	c.(1927-1929)TAC>TAT	p.Y643Y	NINL_uc010gdn.1_Silent_p.Y643Y|NINL_uc010gdo.1_Silent_p.Y426Y	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	643	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						TTTCCCTTTCGTAGTAATTTA	0.527													19	143					0	0	0.010504	0	0		A	25459831	A	A	25459831	2	1	33	1	0	0	0	0	0	0	0	1	10439	1140	40	1		1	NINL	20	25459831	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	17538869	25459831	37565689	320	31921											
DNMT3B	1789	broad.mit.edu	37	chr20	31386384	31386384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgctgtcatggcgtcctgCggcgccggaaggactggaac	7	6	16	12	5	1	0	1	0	0	0	2	3	2	3	2	5	3	1	2	5	2	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr20:31386384C>T	uc002wyc.2	+	15	1930	c.1609C>T	c.(1609-1611)CGG>TGG	p.R537W	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Missense_Mutation_p.R517W|DNMT3B_uc002wye.2_Missense_Mutation_p.R517W|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.R475W|DNMT3B_uc010zua.1_Missense_Mutation_p.R441W|DNMT3B_uc002wyf.2_Missense_Mutation_p.R529W|DNMT3B_uc002wyg.2_Missense_Mutation_p.R236W|DNMT3B_uc010geg.2_5'Flank|DNMT3B_uc010geh.2_5'Flank	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	537	ADD.				negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						TGGCGTCCTGCGGCGCCGGAA	0.637													23	77					0	0	0.00333	0	0		T	31386384	T	T	31386384	3	4	33	1	0	0	0	0	1	0	0	0	4683	759	27	1	1703	1	DNMT3B	20	31386384	Missense_Mutation	SNP	C	TCGA-BR-6458-01A-11D-1800-08	5926553	31386384	31639136	321	31922											
BPIL1	80341	broad.mit.edu	37	chr20	31601629	31601629	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacagcgccccagagcccCtggagctgacgctgcctgtg	6	6	12	17	2	0	2	0	1	0	1	0	3	0	3	6	1	5	2	6	1	1	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr20:31601629C>T	uc002wyj.2	+	5	516	c.322C>T	c.(322-324)CTG>TTG	p.L108L		NM_025227	NP_079503	Q8N4F0	BPIL1_HUMAN	bactericidal/permeability-increasing	108						extracellular region	lipid binding			skin(2)|large_intestine(1)|ovary(1)	4						CCCAGAGCCCCTGGAGCTGAC	0.612													6	80					0	0	0.001168	0	0		T	31601629	T	T	31601629	2	4	33	1	0	0	0	0	0	0	0	1	1494	680	24	4		4	BPIL1	20	31601629	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	215245	31601629	31423891	322	31923											
RPN2	6185	broad.mit.edu	37	chr20	35862467	35862467	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaacttcacttttgctccTagcacgattatatttcacct	9	16	3	13	1	2	0	2	0	0	0	4	1	4	0	3	0	3	2	3	0	4	7			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr20:35862467T>C	uc002xgp.2	+	15	2026	c.1722T>C	c.(1720-1722)CCT>CCC	p.P574P	RPN2_uc002xgq.2_Silent_p.P542P	NM_002951	NP_002942	P04844	RPN2_HUMAN	ribophorin II isoform 1 precursor	574	Helical; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|nucleus|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CTTTTGCTCCTAGCACGATTA	0.458													4	76					0	0	0.000602	0	0		C	35862467	C	C	35862467	2	2	33	1	0	0	0	0	0	0	0	1	13633	1509	53	3		3	RPN2	20	35862467	Silent	SNP	T	TCGA-BR-6458-01A-11D-1800-08	4260838	35862467	27163053	323	31924											
SLC32A1	140679	broad.mit.edu	37	chr20	37357171	37357171	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcaagctgctgtggcaccaAgtcttcttcgacgtcgccat	7	10	10	14	4	2	0	0	0	2	0	4	1	2	0	2	1	2	4	2	1	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr20:37357171A>C	uc002xjc.2	+	2	1730	c.1467A>C	c.(1465-1467)CAA>CAC	p.Q489H		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	489	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	TGTGGCACCAAGTCTTCTTCG	0.642													5	48					0	0	0.000602	0	0		C	37357171	C	C	37357171	3	2	33	1	0	0	0	0	1	0	0	0	14590	69	3	5	1473	5	SLC32A1	20	37357171	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	1494704	37357171	25668349	324	31925											
DDX27	55661	broad.mit.edu	37	chr20	47851592	47851592	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgggtgagctccatggcaActtgtcacagacgcagcggc	8	7	15	11	2	1	2	1	1	0	1	2	2	2	2	1	4	3	3	1	4	1	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr20:47851592A>C	uc002xuh.2	+	12	1548	c.1487A>C	c.(1486-1488)AAC>ACC	p.N496T		NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	496	Helicase C-terminal.					nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CTCCATGGCAACTTGTCACAG	0.597													10	61					0	0	0.008291	0	0		C	47851592	C	C	47851592	3	2	33	1	0	0	0	0	1	0	0	0	4357	43	2	5	1533	5	DDX27	20	47851592	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	10494421	47851592	15173928	325	31926											
KCNG1	3755	broad.mit.edu	37	chr20	49620993	49620993	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcaggagcccgaactcGcgggtgcagcggcgggccgt	7	3	18	13	6	0	0	0	0	0	0	1	2	0	1	2	4	6	3	2	4	1	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr20:49620993G>A	uc002xwa.3	-	3	1420	c.1125C>T	c.(1123-1125)CGC>CGT	p.R375R		NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	375	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						GCCCGAACTCGCGGGTGCAGC	0.701													7	15					0	0	0.001984	0	0		A	49620993	A	A	49620993	2	1	33	1	0	0	0	0	0	0	0	1	8043	1074	38	1		1	KCNG1	20	49620993	Silent	SNP	G	TCGA-BR-6458-01A-11D-1800-08	1769401	49620993	13404527	326	31927											
SALL4	57167	broad.mit.edu	37	chr20	50406871	50406871	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccctagcgtgggtgatgcCgagtggatgctgggaagagg	9	7	18	7	2	0	2	0	1	0	1	0	5	0	4	2	4	4	1	2	4	3	1			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr20:50406871C>T	uc002xwh.3	-	2	2252	c.2151G>A	c.(2149-2151)TCG>TCA	p.S717S	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	717					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TGGGTGATGCCGAGTGGATGC	0.577													18	47					0	0	0.007413	0	0		T	50406871	T	T	50406871	2	4	33	1	0	0	0	0	0	0	0	1	13838	639	23	1		1	SALL4	20	50406871	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	785878	50406871	12618649	327	31928											
ARFGAP1	55738	broad.mit.edu	37	chr20	61910326	61910326	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagatgacttcctcaacaaCgccatgtcctccctgtactc	10	10	6	15	1	1	2	1	1	0	1	5	3	4	2	4	0	3	1	4	0	4	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr20:61910326C>T	uc002yem.2	+	7	718	c.606C>T	c.(604-606)AAC>AAT	p.N202N	ARFGAP1_uc011aas.1_Silent_p.N149N|ARFGAP1_uc011aat.1_Silent_p.N89N|ARFGAP1_uc002yel.2_Silent_p.N202N|ARFGAP1_uc002yen.2_Silent_p.N202N	NM_018209	NP_060679	Q8N6T3	ARFG1_HUMAN	ADP-ribosylation factor GTPase activating	202					COPI coating of Golgi vesicle|protein transport|regulation of ARF GTPase activity|retrograde vesicle-mediated transport, Golgi to ER	cytosol|Golgi-associated vesicle membrane	ARF GTPase activator activity|zinc ion binding			pancreas(1)	1	all_cancers(38;1.59e-09)					TCCTCAACAACGCCATGTCCT	0.607													16	43					0	0	0.008871	0	0		T	61910326	T	T	61910326	2	4	33	1	0	0	0	0	0	0	0	1	849	535	19	1		1	ARFGAP1	20	61910326	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	11503455	61910326	1115194	328	31929											
TPTE	7179	broad.mit.edu	37	chr21	10906985	10906985	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaaaatctgatggataaaTtctccgtgctttttgtttat	10	17	8	6	1	2	1	0	1	2	0	3	2	2	2	1	2	1	3	1	2	5	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr21:10906985T>G	uc002yip.1	-	24	1944	c.1576A>C	c.(1576-1578)ATT>CTT	p.I526L	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.I508L|TPTE_uc002yir.1_Missense_Mutation_p.I488L|TPTE_uc010gkv.1_Missense_Mutation_p.I388L	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	526	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		GATGGATAAATTCTCCGTGCT	0.363													7	70					0	0	0.001984	0	0		G	10906985	G	G	10906985	3	3	33	1	0	0	0	0	1	0	0	0	16456	1493	52	5	83	5	TPTE	21	10906985	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08		10906985	37222910	329	31930											
TIAM1	7074	broad.mit.edu	37	chr21	32554938	32554938	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcacgattattgatctcaAgaatctcatctcctgctttc	10	14	5	12	1	3	2	2	1	3	1	7	3	3	2	1	0	2	2	1	0	3	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr21:32554938A>G	uc002yow.1	-	16	3159	c.2687T>C	c.(2686-2688)CTT>CCT	p.L896P	TIAM1_uc011adk.1_Missense_Mutation_p.L896P|TIAM1_uc011adl.1_Missense_Mutation_p.L836P	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	896	PDZ.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						ATTGATCTCAAGAATCTCATC	0.473													5	46					0	0	0.001984	0	0		G	32554938	G	G	32554938	3	3	33	1	0	0	0	0	1	0	0	0	15915	72	3	3	2144	3	TIAM1	21	32554938	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	21647953	32554938	15574957	330	31931											
ADRBK2	157	broad.mit.edu	37	chr22	26110408	26110408	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaagaactctacaagaacTtccctttggtcatctctgaa	13	11	5	12	0	3	3	1	1	2	2	5	3	4	3	2	1	3	0	2	1	6	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr22:26110408T>G	uc003abx.3	+	18	1672	c.1525T>G	c.(1525-1527)TTC>GTC	p.F509V	ADRBK2_uc003abw.2_Missense_Mutation_p.F396V|ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	509	AGC-kinase C-terminal.						ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	CTACAAGAACTTCCCTTTGGT	0.408													16	56					0	0	0.010504	0	0		G	26110408	G	G	26110408	3	3	33	1	0	0	0	0	1	0	0	0	344	1609	56	5	1595	5	ADRBK2	22	26110408	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08		26110408	25194158	331	31932											
CRYBA4	1413	broad.mit.edu	37	chr22	27024279	27024279	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgactcgaggctgacaatcTtcgagcaagagaacttcctg	11	9	11	10	2	1	3	0	2	1	1	4	6	2	3	1	1	2	2	1	1	3	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr22:27024279T>G	uc003acz.3	+	5	363	c.328T>G	c.(328-330)TTC>GTC	p.F110V		NM_001886	NP_001877	P53673	CRBA4_HUMAN	crystallin, beta A4	110	Beta/gamma crystallin 'Greek key' 3.				camera-type eye development|visual perception	soluble fraction	structural constituent of eye lens				0						GCTGACAATCTTCGAGCAAGA	0.562													18	81					0	0	0.008871	0	0		G	27024279	G	G	27024279	3	3	33	1	0	0	0	0	1	0	0	0	3912	1609	56	5	342	5	CRYBA4	22	27024279	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	913871	27024279	24280287	332	31933											
SYNGR1	9145	broad.mit.edu	37	chr22	39772142	39772142	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaaggacaacccactgaaCgaagggacggacgcagcccg	13	1	12	15	4	0	1	0	1	0	0	0	5	0	4	3	3	3	1	3	3	4	0			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr22:39772142C>T	uc003axq.3	+	3	485	c.423C>T	c.(421-423)AAC>AAT	p.N141N	SYNGR1_uc003axo.3_Silent_p.N141N|SYNGR1_uc003axp.3_Nonsense_Mutation_p.R108*|TAB1_uc003axr.2_Silent_p.N67N|SYNGR1_uc003axs.3_Silent_p.N142N	NM_004711	NP_004702	O43759	SNG1_HUMAN	synaptogyrin 1 isoform 1a	141	MARVEL.				regulation of long-term neuronal synaptic plasticity|regulation of short-term neuronal synaptic plasticity	cell junction|integral to plasma membrane|melanosome					0	Melanoma(58;0.04)					ACCCACTGAACGAAGGGACGG	0.632													19	85					0	0	0.008871	0	0		T	39772142	T	T	39772142	2	4	33	1	0	0	0	0	0	0	0	1	15473	535	19	1		1	SYNGR1	22	39772142	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	12747863	39772142	11532424	333	31934											
EFCAB6	64800	broad.mit.edu	37	chr22	44062988	44062988	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacccattctcctaccttcTtaaagtcatgcacgttaatt	12	14	3	12	1	3	0	1	0	2	0	4	0	3	0	3	0	3	2	3	0	5	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chr22:44062988T>G	uc003bdy.1	-	17	2194	c.1979A>C	c.(1978-1980)AAG>ACG	p.K660T	EFCAB6_uc003bdz.1_Missense_Mutation_p.K508T|EFCAB6_uc010gzi.1_Missense_Mutation_p.K508T|EFCAB6_uc010gzj.1_5'UTR|EFCAB6_uc010gzk.1_RNA	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	660	EF-hand 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				TCCTACCTTCTTAAAGTCATG	0.388													16	45					0	0	0.006122	0	0		G	44062988	G	G	44062988	3	3	33	1	0	0	0	0	1	0	0	0	4945	1609	56	5	2590	5	EFCAB6	22	44062988	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	4290846	44062988	7241578	334	31935											
MAGEB4	4115	broad.mit.edu	37	chrX	30260841	30260841	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagtgcctggacccttccaAggaatgggcttctgatgcct	7	10	12	12	0	1	1	0	1	1	0	2	3	2	3	4	3	2	2	4	3	2	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chrX:30260841A>C	uc004dcb.2	+	1	673	c.589A>C	c.(589-591)AGG>CGG	p.R197R	MAGEB1_uc004dcc.2_5'Flank|MAGEB1_uc004dcd.2_5'Flank	NM_002367	NP_002358	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	197	MAGE.									ovary(1)	1						GACCCTTCCAAGGAATGGGCT	0.522													17	40					0	0	0.006122	0	0		C	30260841	C	C	30260841	2	2	33	1	0	0	0	0	0	0	0	1	9196	63	3	5		5	MAGEB4	23	30260841	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08		30260841	125009719	335	31936											
FAM47A	158724	broad.mit.edu	37	chrX	34148536	34148536	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgatggattcttcatcAgctcccaggtctccagccca	7	12	7	15	0	4	1	2	1	2	0	7	2	6	2	4	2	2	1	4	2	0	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chrX:34148536A>G	uc004ddg.2	-	1	1893	c.1860T>C	c.(1858-1860)GCT>GCC	p.A620A		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	620										ovary(4)|central_nervous_system(1)	5						ATTCTTCATCAGCTCCCAGGT	0.438													16	43					0	0	0.006122	0	0		G	34148536	G	G	34148536	2	3	33	1	0	0	0	0	0	0	0	1	5583	175	7	3		3	FAM47A	23	34148536	Silent	SNP	A	TCGA-BR-6458-01A-11D-1800-08	3887695	34148536	121122024	336	31937											
FAM133A	286499	broad.mit.edu	37	chrX	92964511	92964511	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgtgggcccaacaatccaAgattatctaaatcgaccaag	14	9	7	11	1	2	1	0	0	2	1	4	2	3	1	3	1	1	0	3	1	7	2			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chrX:92964511A>C	uc004efr.1	+	4	406	c.93A>C	c.(91-93)CAA>CAC	p.Q31H		NM_173698	NP_775969	Q8N9E0	F133A_HUMAN	hypothetical protein LOC286499	31											0						CAACAATCCAAGATTATCTAA	0.418													5	34					0	0	0.001168	0	0		C	92964511	C	C	92964511	3	2	33	1	0	0	0	0	1	0	0	0	5454	69	3	5	95	5	FAM133A	23	92964511	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	58815975	92964511	62306049	337	31938											
PCDH19	57526	broad.mit.edu	37	chrX	99662240	99662240	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtagtagggcttggaaaaGtgcgggtggttgtcattttc	7	14	16	4	1	1	0	1	0	0	0	2	1	1	1	0	5	1	4	0	5	4	6			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chrX:99662240G>T	uc010nmz.2	-	1	3032	c.1356C>A	c.(1354-1356)CAC>CAA	p.H452Q	PCDH19_uc004efw.3_Missense_Mutation_p.H452Q|PCDH19_uc004efx.3_Missense_Mutation_p.H452Q	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	452	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						GCTTGGAAAAGTGCGGGTGGT	0.577													9	79					2.17888e-05	2.22098e-05	0.006214	1	0		T	99662240	T	T	99662240	3	4	33	1	0	0	0	0	1	0	0	0	11533	1020	36	5	2114	5	PCDH19	23	99662240	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	6697729	99662240	55608320	338	31939											
GUCY2F	2986	broad.mit.edu	37	chrX	108684663	108684663	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtcttggggacctcccacTttggacctctgaggtaatct	7	12	11	11	0	3	1	0	1	3	0	4	4	4	3	3	4	0	1	3	4	1	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chrX:108684663T>G	uc004eod.3	-	7	1894	c.1618A>C	c.(1618-1620)AGT>CGT	p.S540R	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	540	Protein kinase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						GACCTCCCACTTTGGACCTCT	0.433													63	232					0	0	0.01441	0	0		G	108684663	G	G	108684663	3	3	33	1	0	0	0	0	1	0	0	0	6914	1609	56	5	1760	5	GUCY2F	23	108684663	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	9022423	108684663	46585897	339	31940											
TRPC5	7224	broad.mit.edu	37	chrX	111155770	111155770	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacggaaggcagttaggaTggggtcctcacttgataagg	11	8	15	7	1	1	2	1	1	0	1	2	4	2	4	1	6	0	2	1	6	3	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chrX:111155770T>G	uc004epl.1	-	3	1568	c.649A>C	c.(649-651)ATC>CTC	p.I217L	TRPC5_uc004epm.1_Missense_Mutation_p.I217L	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	217	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						GCAGTTAGGATGGGGTCCTCA	0.552													32	142					0	0	0.013726	0	0		G	111155770	G	G	111155770	3	3	33	1	0	0	0	0	1	0	0	0	16608	1464	51	5	2308	5	TRPC5	23	111155770	Missense_Mutation	SNP	T	TCGA-BR-6458-01A-11D-1800-08	2471107	111155770	44114790	340	31941											
SLITRK2	84631	broad.mit.edu	37	chrX	144906221	144906221	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgctgtatcaaaatattGctgagcgagtcaaggaactt	13	11	10	7	1	2	1	2	1	0	0	2	3	2	2	0	1	5	4	0	1	6	4			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chrX:144906221G>C	uc004fcd.2	+	5	3268	c.2278G>C	c.(2278-2280)GCT>CCT	p.A760P	SLITRK2_uc010nsp.2_Missense_Mutation_p.A760P|SLITRK2_uc010nso.2_Missense_Mutation_p.A760P|SLITRK2_uc011mwq.1_Missense_Mutation_p.A760P|SLITRK2_uc011mwr.1_Missense_Mutation_p.A760P|SLITRK2_uc011mws.1_Missense_Mutation_p.A760P|SLITRK2_uc004fcg.2_Missense_Mutation_p.A760P|SLITRK2_uc011mwt.1_Missense_Mutation_p.A760P|CXorf1_uc004fch.2_5'Flank	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	760	Cytoplasmic (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					TCAAAATATTGCTGAGCGAGT	0.488													14	157					0	0	0.001855	0	0		C	144906221	C	C	144906221	3	2	33	1	0	0	0	0	1	0	0	0	14768	1319	46	5	2280	5	SLITRK2	23	144906221	Missense_Mutation	SNP	G	TCGA-BR-6458-01A-11D-1800-08	33750451	144906221	10364339	341	31942											
PASD1	139135	broad.mit.edu	37	chrX	150840247	150840247	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagccttgtgttgccttcaAccaggtatggaaaggctgtt	8	12	13	8	0	1	0	1	0	0	0	1	2	1	2	3	4	3	4	3	4	3	5			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chrX:150840247A>C	uc004fev.3	+	13	1765	c.1433A>C	c.(1432-1434)AAC>ACC	p.N478T		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	478						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GTTGCCTTCAACCAGGTATGG	0.453													15	53					0	0	0.003163	0	0		C	150840247	C	C	150840247	3	2	33	1	0	0	0	0	1	0	0	0	11490	43	2	5	1479	5	PASD1	23	150840247	Missense_Mutation	SNP	A	TCGA-BR-6458-01A-11D-1800-08	5934026	150840247	4430313	342	31943											
RPL10	6134	broad.mit.edu	37	chrX	153629051	153629051	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgctccttagatccacatCtcaaagaagtggggcttcac	11	11	8	11	0	2	2	2	0	1	2	5	2	4	2	2	2	1	2	2	2	3	3			TCGA-BR-6458-01A-11D-1800-08	TCGA-BR-6458-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	9b302ae7-9c9a-487d-89d3-a56a33731aac	33c9ffb8-f68f-45cb-b4d5-8ab431791fae	g.chrX:153629051C>T	uc004fkm.2	+	7	689	c.501C>T	c.(499-501)ATC>ATT	p.I167I	uc010nuv.1_5'Flank|RPL10_uc004fko.2_Missense_Mutation_p.S113F|RPL10_uc004fkn.1_Silent_p.I167I|RPL10_uc004fkp.1_3'UTR|RPL10_uc004fkq.1_Intron|RPL10_uc004fkr.1_Intron	NM_006013	NP_006004	P27635	RL10_HUMAN	ribosomal protein L10	167					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|endoplasmic reticulum	structural constituent of ribosome				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AGATCCACATCTCAAAGAAGT	0.527													20	41					0	0	0.008871	0	0		T	153629051	T	T	153629051	2	4	33	1	0	0	0	0	0	0	0	1	13579	903	32	4		4	RPL10	23	153629051	Silent	SNP	C	TCGA-BR-6458-01A-11D-1800-08	2788804	153629051	1641509	343	31944											
MIIP	60672	broad.mit.edu	37	chr1	12091805	12091805	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaatgcagatgctgcccccGaccccgacctggtcagtgcc	7	6	10	18	2	1	1	1	0	0	1	1	3	1	1	7	1	4	2	7	1	1	0			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr1:12091805G>A	uc001ato.1	+	10	1287	c.1107G>A	c.(1105-1107)CCG>CCA	p.P369P		NM_021933	NP_068752	Q5JXC2	MIIP_HUMAN	invasion inhibitory protein 45	369										ovary(1)	1						TGCTGCCCCCGACCCCGACCT	0.652													8	121					0	0	0.004482	0	0		A	12091805	A	A	12091805	2	1	34	1	0	0	0	0	0	0	0	1	9603	1045	37	1		1	MIIP	1	12091805	Silent	SNP	G	TCGA-BR-6563-01A-13D-2053-08		12091805	237158816	1	31945											
PRAMEF6	440561	broad.mit.edu	37	chr1	13001215	13001215	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcatccagagtcctgttCttgagccaaagttctacgaa	11	13	7	10	1	3	2	1	1	2	1	5	3	5	2	3	0	2	2	3	0	4	6			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr1:13001215C>A	uc001auq.2	-	3	554	c.468G>T	c.(466-468)AAG>AAT	p.K156N	PRAMEF5_uc001aur.2_Intron	NM_001010889	NP_001010889	Q5VXH4	PRAM6_HUMAN	PRAME family member 6	156											0	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GAGTCCTGTTCTTGAGCCAAA	0.478													13	365					4.7546e-09	5.09422e-09	0.028581	1	0		A	13001215	A	A	13001215	3	1	34	1	0	0	0	0	1	0	0	0	12460	912	32	5	970	5	PRAMEF6	1	13001215	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	909410	13001215	236249406	2	31946											
CSMD2	114784	broad.mit.edu	37	chr1	34006124	34006124	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcccttgtaagcaacttaCggaaacactgaggcagctct	12	8	10	11	1	1	1	0	1	1	0	1	2	1	2	1	3	5	4	1	3	4	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr1:34006124C>T	uc001bxn.1	-	59	9228	c.9199_splice	c.e59+1	p.P3067_splice	CSMD2_uc001bxm.1_Splice_Site_p.P3211_splice	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2							integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AAGCAACTTACGGAAACACTG	0.582													3	62					0	0	0.009096	0	0		T	34006124	T	T	34006124	5	4	34	1	0	0	0	0	0	0	1	0	3948	550	19	1	1307	1	CSMD2	1	34006124	Splice_Site	SNP	C	TCGA-BR-6563-01A-13D-2053-08	21004909	34006124	215244497	3	31947											
FLG	2312	broad.mit.edu	37	chr1	152275780	152275780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cactgtcctggctaacactgGatccctggcgcctgcttctc	5	11	9	16	1	1	0	0	0	1	0	4	1	3	1	3	3	2	2	3	3	1	2			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr1:152275780G>A	uc001ezu.1	-	3	11618	c.11582C>T	c.(11581-11583)TCC>TTC	p.S3861F		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3861	Filaggrin 23.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTAACACTGGATCCCTGGCG	0.577									Ichthyosis				15	248					0	0	0.007413	0	0		A	152275780	A	A	152275780	3	1	34	1	0	0	0	0	1	0	0	0	5936	1174	41	4	607	4	FLG	1	152275780	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	118269656	152275780	96974841	4	31948											
FLG	2312	broad.mit.edu	37	chr1	152283700	152283700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctgattgtttgtccttaCgagtttgtctgcttgcactt	4	19	8	10	1	1	1	0	1	1	0	3	2	3	1	2	0	3	4	2	0	1	6			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr1:152283700C>T	uc001ezu.1	-	3	3698	c.3662G>A	c.(3661-3663)CGT>CAT	p.R1221H	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1221	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTTGTCCTTACGAGTTTGTCT	0.567									Ichthyosis				51	351					0	0	0.01441	0	0		T	152283700	T	T	152283700	3	4	34	1	0	0	0	0	1	0	0	0	5936	536	19	1	8527	1	FLG	1	152283700	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	7920	152283700	96966921	5	31949											
CNTN2	6900	broad.mit.edu	37	chr1	205039136	205039136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagatccgcagctacaaccGccgcggggatgggcccgaga	10	3	14	14	5	0	2	0	0	0	2	1	4	1	3	4	3	3	2	4	3	3	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr1:205039136G>A	uc001hbr.2	+	18	2647	c.2378G>A	c.(2377-2379)CGC>CAC	p.R793H	CNTN2_uc001hbq.1_Missense_Mutation_p.R684H|CNTN2_uc001hbs.2_Missense_Mutation_p.R581H	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	793	Fibronectin type-III 2.				axon guidance|clustering of voltage-gated potassium channels	anchored to membrane|juxtaparanode region of axon|myelin sheath|node of Ranvier|synapse part	identical protein binding			ovary(1)	1	all_cancers(21;0.144)|Breast(84;0.0437)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			AGCTACAACCGCCGCGGGGAT	0.662													3	35					0	0	0.009096	0	0		A	205039136	A	A	205039136	3	1	34	1	0	0	0	0	1	0	0	0	3644	1087	38	1	2444	1	CNTN2	1	205039136	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	52755436	205039136	44211485	6	31950											
OBSCN	84033	broad.mit.edu	37	chr1	228399542	228399542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacccggcccaaggccttcGtggtgtcggtgggcaaggac	6	7	15	13	3	1	0	1	0	0	0	3	1	1	1	3	6	0	1	3	6	2	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr1:228399542G>A	uc009xez.1	+	2	102	c.58G>A	c.(58-60)GTG>ATG	p.V20M	OBSCN_uc001hsn.2_Missense_Mutation_p.V20M|uc001hsm.1_Intron	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	20	Ig-like 1.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CAAGGCCTTCGTGGTGTCGGT	0.677													3	9					0	0	0.004672	0	0		A	228399542	A	A	228399542	3	1	34	1	0	0	0	0	1	0	0	0	10831	1145	40	1	60	1	OBSCN	1	228399542	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	23360406	228399542	20851079	7	31951											
OR2T8	343172	broad.mit.edu	37	chr1	248084417	248084417	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgatggttctgagtatcgTtttgacctccctgtttggca	6	16	10	9	1	1	3	0	3	1	0	3	3	2	3	2	2	0	5	2	2	1	5			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr1:248084417T>G	uc010pzc.1	+	1	98	c.98T>G	c.(97-99)GTT>GGT	p.V33G		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	33	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CTGAGTATCGTTTTGACCTCC	0.488													3	67					0	0	0.009096	0	0		G	248084417	G	G	248084417	3	3	34	1	0	0	0	0	1	0	0	0	11049	1725	60	5	100	5	OR2T8	1	248084417	Missense_Mutation	SNP	T	TCGA-BR-6563-01A-13D-2053-08	19684875	248084417	1166204	8	31952											
APOB	338	broad.mit.edu	37	chr2	21229930	21229930	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttttgggaacacatagccGaatgccgacatctctatggt	10	11	10	10	2	1	0	0	0	1	0	2	3	1	1	2	2	3	1	2	2	4	4	rs138010392	byFrequency	TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr2:21229930G>A	uc002red.2	-	26	9938	c.9810C>T	c.(9808-9810)TTC>TTT	p.F3270F		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3270					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ACACATAGCCGAATGCCGACA	0.473													5	47					0	0	0.014758	0	0		A	21229930	A	A	21229930	2	1	34	1	0	0	0	0	0	0	0	1	785	1049	37	1		1	APOB	2	21229930	Silent	SNP	G	TCGA-BR-6563-01A-13D-2053-08		21229930	221969443	9	31953											
HEATR5B	54497	broad.mit.edu	37	chr2	37289090	37289090	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atataattatacctaaagtcAtaagtgctccaagtaaaagc	18	11	5	7	0	1	0	1	0	0	0	2	0	2	0	2	0	3	2	2	0	10	7	rs147152129		TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr2:37289090A>T	uc002rpp.1	-	11	1784	c.1688T>A	c.(1687-1689)ATG>AAG	p.M563K		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	563							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				ACCTAAAGTCATAAGTGCTCC	0.373													9	70					0	0	0.008291	0	0		T	37289090	T	T	37289090	3	4	34	1	0	0	0	0	1	0	0	0	7048	217	8	5	4631	5	HEATR5B	2	37289090	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	16059160	37289090	205910283	10	31954											
GLI2	2736	broad.mit.edu	37	chr2	121712927	121712927	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtggcaggccaccccgcGccctacggggacctgctgat	5	6	13	17	4	0	1	0	1	0	0	1	2	0	2	5	4	2	2	5	4	1	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr2:121712927G>A	uc010flp.2	+	4	594	c.564G>A	c.(562-564)GCG>GCA	p.A188A	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Intron|GLI2_uc002tmu.3_Intron|GLI2_uc002tmv.1_Intron|GLI2_uc010flo.1_Silent_p.A63A|GLI2_uc002tmw.1_Silent_p.A188A	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	188					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				GCCACCCCGCGCCCTACGGGG	0.667													4	28					0	0	0.014758	0	0		A	121712927	A	A	121712927	2	1	34	1	0	0	0	0	0	0	0	1	6453	1074	38	1		1	GLI2	2	121712927	Silent	SNP	G	TCGA-BR-6563-01A-13D-2053-08	84423837	121712927	121486446	11	31955											
PLCL1	5334	broad.mit.edu	37	chr2	198950136	198950136	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagtacccagaggattttgTtaattataataagaagttct	14	15	8	4	0	1	3	0	1	1	2	1	4	1	4	1	1	1	3	1	1	6	8			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr2:198950136T>G	uc010fsp.2	+	2	2186	c.1895T>G	c.(1894-1896)GTT>GGT	p.V632G	PLCL1_uc002uuv.3_Missense_Mutation_p.V553G	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	632	PI-PLC Y-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	GAGGATTTTGTTAATTATAAT	0.378													5	35					0	0	0.014758	0	0		G	198950136	G	G	198950136	3	3	34	1	0	0	0	0	1	0	0	0	12058	1725	60	5	1901	5	PLCL1	2	198950136	Missense_Mutation	SNP	T	TCGA-BR-6563-01A-13D-2053-08	77237209	198950136	44249237	12	31956											
RBMS3	27303	broad.mit.edu	37	chr3	29938904	29938904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtacagtattgcaaccaacCgcatgattccacagacatct	13	9	6	13	2	1	2	0	1	1	1	2	2	2	2	3	0	4	4	3	0	4	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr3:29938904C>T	uc003cel.2	+	9	1056	c.826C>T	c.(826-828)CGC>TGC	p.R276C	RBMS3_uc003cek.2_Missense_Mutation_p.R276C|RBMS3_uc010hfq.2_Missense_Mutation_p.R289C|RBMS3_uc003cem.2_Missense_Mutation_p.R275C|RBMS3_uc010hfr.2_Missense_Mutation_p.R276C	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	276						cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				TGCAACCAACCGCATGATTCC	0.433													23	149					0	0	0.024334	0	0		T	29938904	T	T	29938904	3	4	34	1	0	0	0	0	1	0	0	0	13175	652	23	1	903	1	RBMS3	3	29938904	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08		29938904	168083526	13	31957											
RHOA	387	broad.mit.edu	37	chr3	49405969	49405969	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcccagctgtgtcccacaAagccaactctacctgtaatg	10	9	7	15	0	1	0	0	0	1	0	2	0	2	0	4	0	5	2	4	0	4	2			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr3:49405969A>C	uc003cwu.2	-	3	445	c.169T>G	c.(169-171)TTG>GTG	p.L57V	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	57					axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	GTGTCCCACAAAGCCAACTCT	0.463													11	75					0	0	0.010729	0	0		C	49405969	C	C	49405969	3	2	34	1	0	0	0	0	1	0	0	0	13356	11	1	5	424	5	RHOA	3	49405969	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	19467065	49405969	148616461	14	31958											
ADRA2C	152	broad.mit.edu	37	chr4	3769558	3769558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcctgtacggcatctgcCgcgaggcctgccaggtgccc	6	6	13	16	3	1	0	0	0	1	0	1	1	1	0	5	3	5	2	5	3	1	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr4:3769558C>T	uc003ghm.2	+	1	1263	c.1225C>T	c.(1225-1227)CGC>TGC	p.R409C	ADRA2C_uc010icx.2_Intron	NM_000683	NP_000674	P18825	ADA2C_HUMAN	alpha-2C-adrenergic receptor	409	Extracellular (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation|regulation of insulin secretion	endosome|integral to plasma membrane	alpha-2A adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|protein heterodimerization activity|protein homodimerization activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)	Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	CGGCATCTGCCGCGAGGCCTG	0.597													3	25					0	0	0.004672	0	0		T	3769558	T	T	3769558	3	4	34	1	0	0	0	0	1	0	0	0	339	652	23	1	1227	1	ADRA2C	4	3769558	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08		3769558	187384718	15	31959											
TECRL	253017	broad.mit.edu	37	chr4	65188509	65188509	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtccttcaaaaaaggcccGcctaaaataaaaataacaag	20	7	5	9	1	1	0	1	0	0	0	2	0	2	0	3	1	1	0	3	1	11	5			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr4:65188509G>A	uc003hcv.2	-	4	442	c.333C>T	c.(331-333)GGC>GGT	p.G111G	TECRL_uc003hcw.2_Silent_p.G111G	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	111					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						AAAAAGGCCCGCCtaaaataa	0.308													4	41					0	0	0.014758	0	0		A	65188509	A	A	65188509	2	1	34	1	0	0	0	0	0	0	0	1	15771	1101	38	1		1	TECRL	4	65188509	Silent	SNP	G	TCGA-BR-6563-01A-13D-2053-08	61418951	65188509	125965767	16	31960											
TBCK	93627	broad.mit.edu	37	chr4	107154126	107154126	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaagatcaggatgagacacTacccaggcttttaatacacg	15	8	8	10	1	1	2	1	1	0	2	1	4	1	3	1	2	2	1	1	2	4	4	rs55956749	byFrequency	TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr4:107154126T>G	uc010ilv.2	-	17	1973	c.1608A>C	c.(1606-1608)GTA>GTC	p.V536V	TBCK_uc003hyb.2_Silent_p.V279V|TBCK_uc003hye.2_Silent_p.V497V|TBCK_uc003hyc.2_Silent_p.V473V|TBCK_uc003hyd.2_Silent_p.V364V|TBCK_uc003hyf.2_Silent_p.V536V	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like	536	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						GATGAGACACTACCCAGGCTT	0.368													5	100					0	0	0.021553	0	0		G	107154126	G	G	107154126	2	3	34	1	0	0	0	0	0	0	0	1	15661	1509	53	5		5	TBCK	4	107154126	Silent	SNP	T	TCGA-BR-6563-01A-13D-2053-08	41965617	107154126	84000150	17	31961											
KIAA1109	84162	broad.mit.edu	37	chr4	123167896	123167896	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaactacggctcctagtaGgagtgtgactcatgtttccc	8	12	9	12	1	1	1	1	1	0	0	4	2	4	2	3	2	2	3	3	2	4	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr4:123167896G>T	uc003ieh.2	+	32	5288	c.5243G>T	c.(5242-5244)AGG>ATG	p.R1748M	KIAA1109_uc003iek.2_Missense_Mutation_p.R367M	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1748					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GCTCCTAGTAGGAGTGTGACT	0.388													3	84					0.00024832	0.000260736	0.009096	1	0		T	123167896	T	T	123167896	3	4	34	1	0	0	0	0	1	0	0	0	8224	1000	35	5	5369	5	KIAA1109	4	123167896	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	16013770	123167896	67986380	18	31962											
FAT4	79633	broad.mit.edu	37	chr4	126412194	126412194	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcatggtgacacctgccaAcctggcattttcaactatgc	10	11	8	12	0	1	1	1	1	0	0	1	1	1	1	3	2	5	2	3	2	3	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr4:126412194A>C	uc003ifj.3	+	17	14217	c.14217A>C	c.(14215-14217)CAA>CAC	p.Q4739H	FAT4_uc011cgp.1_Missense_Mutation_p.Q2980H|FAT4_uc003ifi.1_Missense_Mutation_p.Q2216H	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4739	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACACCTGCCAACCTGGCATTT	0.483													7	76					0	0	0.00308	0	0		C	126412194	C	C	126412194	3	2	34	1	0	0	0	0	1	0	0	0	5706	40	2	5	14283	5	FAT4	4	126412194	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	3244298	126412194	64742082	19	31963											
FSTL5	56884	broad.mit.edu	37	chr4	162307467	162307467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcagccaatgaagtagtagCctcccaagtgtgtatatgcc	11	10	10	10	0	0	1	0	1	0	0	1	1	1	1	4	0	4	4	4	0	7	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr4:162307467C>T	uc003iqh.2	-	16	2412	c.1976G>A	c.(1975-1977)GGC>GAC	p.G659D	FSTL5_uc003iqi.2_Missense_Mutation_p.G658D|FSTL5_uc010iqv.2_Missense_Mutation_p.G649D|uc010iqu.1_RNA	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	659						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		GAAGTAGTAGCCTCCCAAGTG	0.438													3	53					0	0	0.004672	0	0		T	162307467	T	T	162307467	3	4	34	1	0	0	0	0	1	0	0	0	6094	739	26	2	571	2	FSTL5	4	162307467	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	35895273	162307467	28846809	20	31964											
C5orf42	65250	broad.mit.edu	37	chr5	37201824	37201824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagttgaaatgtctccgaaaGaatatctgcatcggccataa	15	10	8	8	2	2	2	0	1	2	1	4	3	2	2	2	1	1	2	2	1	6	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr5:37201824G>A	uc011cpa.1	-	19	3607	c.3376C>T	c.(3376-3378)CTT>TTT	p.L1126F	C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.L201F|C5orf42_uc011cpb.1_Missense_Mutation_p.L7F	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1126										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			GTCTCCGAAAGAATATCTGCA	0.418													11	106					0	0	0.008291	0	0		A	37201824	A	A	37201824	3	1	34	1	0	0	0	0	1	0	0	0	2304	942	33	4	6353	4	C5orf42	5	37201824	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08		37201824	143713436	21	31965											
APC	324	broad.mit.edu	37	chr5	112174605	112174605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtttctccatacaggtcacGgggagccaatggttcagaaa	11	10	11	9	1	3	1	2	0	1	1	4	2	3	2	2	4	2	2	2	4	3	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr5:112174605G>A	uc010jby.2	+	16	3694	c.3314G>A	c.(3313-3315)CGG>CAG	p.R1105Q	APC_uc011cvt.1_Missense_Mutation_p.R1087Q|APC_uc003kpz.3_Missense_Mutation_p.R1105Q|APC_uc003kpy.3_Missense_Mutation_p.R1105Q|APC_uc010jbz.2_Missense_Mutation_p.R822Q|APC_uc010jca.2_Missense_Mutation_p.R405Q	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1105	Ser-rich.|Responsible for down-regulation through a process mediated by direct ubiquitination.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TACAGGTCACGGGGAGCCAAT	0.398		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			19	82					0	0	0.014323	0	0		A	112174605	A	A	112174605	3	1	34	1	0	0	0	0	1	0	0	0	763	1116	39	1	3372	1	APC	5	112174605	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	74972781	112174605	68740655	22	31966											
DMXL1	1657	broad.mit.edu	37	chr5	118533559	118533559	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgggccacctcaaaattaTatcgcaagtcataccgccga	12	8	9	12	3	2	0	2	0	0	0	3	1	2	0	4	2	1	1	4	2	6	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr5:118533559T>A	uc003ksd.2	+	32	7834	c.7653T>A	c.(7651-7653)TAT>TAA	p.Y2551*	DMXL1_uc010jcl.1_Nonsense_Mutation_p.Y2551*	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2551										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		CTCAAAATTATATCGCAAGTC	0.438													14	121					0	0	0.028581	0	0		A	118533559	A	A	118533559	4	1	34	1	0	0	0	0	0	1	0	0	4600	1413	49	5	7779	5	DMXL1	5	118533559	Nonsense_Mutation	SNP	T	TCGA-BR-6563-01A-13D-2053-08	6358954	118533559	62381701	23	31967											
TIFAB	497189	broad.mit.edu	37	chr5	134785162	134785162	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctaccctgaaccagggggAggctgcccctgggagatgcc	7	6	15	13	0	0	2	0	1	0	1	0	4	0	3	5	4	5	2	5	4	2	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr5:134785162A>G	uc003law.3	-	2	669	c.468T>C	c.(466-468)CCT>CCC	p.P156P	C5orf20_uc003lav.2_5'Flank	NM_001099221	NP_001092691	Q6ZNK6	TIFAB_HUMAN	TIFA-related protein TIFAB	156											0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AACCAGGGGGAGGCTGCCCCT	0.582													3	90					0	0	0.009096	0	0		G	134785162	G	G	134785162	2	3	34	1	0	0	0	0	0	0	0	1	15920	291	11	3		3	TIFAB	5	134785162	Silent	SNP	A	TCGA-BR-6563-01A-13D-2053-08	16251603	134785162	46130098	24	31968											
PCDHA13	56136	broad.mit.edu	37	chr5	140261955	140261955	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggccagctccactactcCgtccccgaggaagcaaaaca	12	5	9	15	2	0	0	0	0	0	0	3	2	3	1	5	2	4	2	5	2	4	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr5:140261955C>T	uc003lif.2	+	1	102	c.102C>T	c.(100-102)TCC>TCT	p.S34S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.S34S|PCDHA13_uc003lid.2_Silent_p.S34S	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	34	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCACTACTCCGTCCCCGAGG	0.662													9	103					0	0	0.004482	0	0		T	140261955	T	T	140261955	2	4	34	1	0	0	0	0	0	0	0	1	11542	639	23	1		1	PCDHA13	5	140261955	Silent	SNP	C	TCGA-BR-6563-01A-13D-2053-08	5476793	140261955	40653305	25	31969											
EYS	346007	broad.mit.edu	37	chr6	66200566	66200566	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatggaaacagacatgtggTtgacactggccaattatttc	12	11	9	9	0	0	2	0	1	0	1	1	3	0	3	2	3	1	1	2	3	3	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr6:66200566T>C	uc011dxu.1	-	5	1321	c.783A>G	c.(781-783)CAA>CAG	p.Q261Q	EYS_uc003peq.2_Silent_p.Q261Q|EYS_uc003per.1_Silent_p.Q261Q|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	261	EGF-like 3.				response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						AGACATGTGGTTGACACTGGC	0.308													7	44					0	0	0.004482	0	0		C	66200566	C	C	66200566	2	2	34	1	0	0	0	0	0	0	0	1	5340	1722	60	3		3	EYS	6	66200566	Silent	SNP	T	TCGA-BR-6563-01A-13D-2053-08		66200566	104914501	26	31970											
EPHA7	2045	broad.mit.edu	37	chr6	93956675	93956675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtccatgggtgctggtaaaCgataaccttcttctattgct	9	14	9	9	1	2	0	0	0	2	0	3	1	3	0	2	2	4	3	2	2	4	6			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr6:93956675C>T	uc003poe.2	-	15	2802	c.2561G>A	c.(2560-2562)CGT>CAT	p.R854H	EPHA7_uc003pof.2_Missense_Mutation_p.R849H|EPHA7_uc011eac.1_Missense_Mutation_p.R850H	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	854	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		TGCTGGTAAACGATAACCTTC	0.388													5	37					0	0	0.00308	0	0		T	93956675	T	T	93956675	3	4	34	1	0	0	0	0	1	0	0	0	5180	536	19	1	447	1	EPHA7	6	93956675	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	27756109	93956675	77158392	27	31971											
RSPO3	84870	broad.mit.edu	37	chr6	127471624	127471624	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatttctgcacaaaatgtAaaagtggattttacttacac	17	13	5	6	0	1	0	0	0	1	0	1	1	1	1	0	1	3	2	0	1	8	5			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr6:127471624A>C	uc003qar.2	+	3	633	c.343A>C	c.(343-345)AAA>CAA	p.K115Q	RSPO3_uc003qas.1_Missense_Mutation_p.K115Q	NM_032784	NP_116173	Q9BXY4	RSPO3_HUMAN	R-spondin 3 precursor	115	FU 2.					extracellular region	heparin binding				0				GBM - Glioblastoma multiforme(226;0.0555)		CACAAAATGTAAAAGTGGATT	0.368													4	70					0	0	0.014758	0	0		C	127471624	C	C	127471624	3	2	34	1	0	0	0	0	1	0	0	0	13736	363	13	5	353	5	RSPO3	6	127471624	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	33514949	127471624	43643443	28	31972											
SYNJ2	8871	broad.mit.edu	37	chr6	158516672	158516672	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgtcaccggaagaacagtTtgagcaacagactgtccatt	12	9	9	11	1	1	3	1	1	0	2	2	4	2	4	3	1	3	2	3	1	3	2			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr6:158516672T>G	uc003qqx.1	+	27	3842	c.3767T>G	c.(3766-3768)TTT>TGT	p.F1256C	SYNJ2_uc003qqy.1_Missense_Mutation_p.F969C|SYNJ2_uc003qqz.1_Missense_Mutation_p.F873C|SYNJ2_uc003qra.1_Missense_Mutation_p.F599C|SYNJ2_uc010kjp.1_Missense_Mutation_p.F139C	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	1256	Catalytic (By similarity).|Pro-rich.						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		GAAGAACAGTTTGAGCAACAG	0.537													11	103					0	0	0.010729	0	0		G	158516672	G	G	158516672	3	3	34	1	0	0	0	0	1	0	0	0	15478	1841	64	5	3873	5	SYNJ2	6	158516672	Missense_Mutation	SNP	T	TCGA-BR-6563-01A-13D-2053-08	31045048	158516672	12598395	29	31973											
WDR27	253769	broad.mit.edu	37	chr6	170068234	170068234	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcggtggtgggactttgtgGcggttattaacatcaggacg	7	12	16	6	3	1	0	1	0	0	0	2	2	1	2	0	6	1	1	0	6	2	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr6:170068234G>A	uc003qwx.2	-	5	1024	c.504C>T	c.(502-504)CGC>CGT	p.R168R	WDR27_uc010kkw.1_Silent_p.R168R|WDR27_uc003qwy.2_Intron|WDR27_uc011egw.1_Intron			A2RRH5	WDR27_HUMAN	RecName: Full=WD repeat-containing protein 27;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										pancreas(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.216)		OV - Ovarian serous cystadenocarcinoma(33;6.48e-20)|BRCA - Breast invasive adenocarcinoma(81;3.56e-07)|GBM - Glioblastoma multiforme(31;0.00168)		GGACTTTGTGGCGGTTATTAA	0.502													8	64					0	0	0.013537	0	0		A	170068234	A	A	170068234	2	1	34	1	0	0	0	0	0	0	0	1	17310	1190	42	2		2	WDR27	6	170068234	Silent	SNP	G	TCGA-BR-6563-01A-13D-2053-08	11551562	170068234	1046833	30	31974											
DLGAP2	9228	broad.mit.edu	37	chr8	1497743	1497743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcctggtctacgctgaCggtcagccaggccaaggagg	8	6	14	13	2	2	1	1	1	1	0	3	2	3	2	3	5	3	2	3	5	2	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr8:1497743C>T	uc003wpl.2	+	2	981	c.884C>T	c.(883-885)ACG>ATG	p.T295M	DLGAP2_uc003wpm.2_Missense_Mutation_p.T295M	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	374					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		TCTACGCTGACGGTCAGCCAG	0.652													3	11					0	0	0.004672	0	0		T	1497743	T	T	1497743	3	4	34	1	0	0	0	0	1	0	0	0	4566	536	19	1	886	1	DLGAP2	8	1497743	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08		1497743	144866279	31	31975											
ANK1	286	broad.mit.edu	37	chr8	41577290	41577290	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggtccagggtgatgtcGtctatctctgcgtcgtattg	5	14	14	8	3	2	1	0	1	2	0	6	1	3	1	1	3	1	1	1	3	2	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr8:41577290G>A	uc003xok.2	-	10	1080	c.996C>T	c.(994-996)GAC>GAT	p.D332D	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Silent_p.D332D|ANK1_uc003xoj.2_Silent_p.D332D|ANK1_uc003xol.2_Silent_p.D332D|ANK1_uc003xom.2_Silent_p.D365D	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	332	ANK 9.|89 kDa domain.		D -> H (in a breast cancer sample; somatic mutation).		axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton	p.D332H(1)		ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			GGGTGATGTCGTCTATCTCTG	0.587													10	137					0	0	0.010729	0	0		A	41577290	A	A	41577290	2	1	34	1	0	0	0	0	0	0	0	1	620	1136	40	1		1	ANK1	8	41577290	Silent	SNP	G	TCGA-BR-6563-01A-13D-2053-08	40079547	41577290	104786732	32	31976											
TRPS1	7227	broad.mit.edu	37	chr8	116632246	116632246	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatctggccctcgccttcacTtgcaacgtttctcagagggg	6	11	11	13	2	3	1	2	0	2	1	5	2	3	1	2	3	2	2	2	3	1	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr8:116632246T>C	uc003ynz.2	-	2	499	c.40A>G	c.(40-42)AGT>GGT	p.S14G	TRPS1_uc011lhy.1_Missense_Mutation_p.S18G|TRPS1_uc003yny.2_Missense_Mutation_p.S27G|TRPS1_uc010mcy.2_Missense_Mutation_p.S14G	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	14					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TCGCCTTCACTTGCAACGTTT	0.433									Langer-Giedion_syndrome				3	39					0	0	0.004672	0	0		C	116632246	C	C	116632246	3	2	34	1	0	0	0	0	1	0	0	0	16619	1609	56	3	3825	3	TRPS1	8	116632246	Missense_Mutation	SNP	T	TCGA-BR-6563-01A-13D-2053-08	75054956	116632246	29731776	33	31977											
GPR21	2844	broad.mit.edu	37	chr9	125797424	125797424	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accgactcctacttcaccctGttcatcgtgatgatgttata	9	14	6	12	2	2	2	2	2	0	0	4	3	3	2	3	0	1	2	3	0	3	5			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr9:125797424G>A	uc011lzk.1	+	1	579	c.579G>A	c.(577-579)CTG>CTA	p.L193L	RABGAP1_uc004bnl.3_Intron|RABGAP1_uc011lzh.1_Intron|RABGAP1_uc011lzj.1_Intron|GPR21_uc011lzi.1_RNA	NM_005294	NP_005285	Q99679	GPR21_HUMAN	G protein-coupled receptor 21	193	Helical; Name=5; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1						ACTTCACCCTGTTCATCGTGA	0.498													9	137					0	0	0.008291	0	0		A	125797424	A	A	125797424	2	1	34	1	0	0	0	0	0	0	0	1	6696	1364	48	4		4	GPR21	9	125797424	Silent	SNP	G	TCGA-BR-6563-01A-13D-2053-08		125797424	15416007	34	31978											
FAM78A	286336	broad.mit.edu	37	chr9	134136226	134136226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgtcaccggtgcttgggcgGgatcaccaccagcggctgcc	5	7	14	15	3	2	0	2	0	0	0	2	1	2	1	4	4	3	2	4	4	0	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr9:134136226G>A	uc004cak.2	-	2	1175	c.835C>T	c.(835-837)CCG>TCG	p.P279S	FAM78A_uc004caj.2_Missense_Mutation_p.P276S	NM_033387	NP_203745	Q5JUQ0	FA78A_HUMAN	hypothetical protein LOC286336	279										ovary(1)	1	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.15e-05)|Epithelial(140;0.000267)		TGCTTGGGCGGGATCACCACC	0.577													4	117					0	0	0.009096	0	0		A	134136226	A	A	134136226	3	1	34	1	0	0	0	0	1	0	0	0	5640	1232	43	4	20	4	FAM78A	9	134136226	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	8338802	134136226	7077205	35	31979											
SURF6	6838	broad.mit.edu	37	chr9	136199499	136199499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcctggccttctctttcGcccgcagctcctttcgcttc	1	15	6	19	3	1	0	0	0	1	0	7	0	3	0	5	1	1	3	5	1	0	5			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr9:136199499G>A	uc004cdb.3	-	4	569	c.491C>T	c.(490-492)GCG>GTG	p.A164V		NM_006753	NP_006744	O75683	SURF6_HUMAN	surfeit 6	164						granular component	DNA binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.16e-06)|Epithelial(140;8.34e-06)|all cancers(34;7.08e-05)		CTTCTCTTTCGCCCGCAGCTC	0.687													11	130					0	0	0.016723	0	0		A	136199499	A	A	136199499	3	1	34	1	0	0	0	0	1	0	0	0	15431	1087	38	1	602	1	SURF6	9	136199499	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	2063273	136199499	5013932	36	31980											
SLC34A3	142680	broad.mit.edu	37	chr9	140130470	140130470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtacctggtgcctgcactgCggctgcccatcccgctggcc	3	8	13	17	2	0	0	0	0	0	0	1	0	1	0	5	4	5	4	5	4	1	1	rs121918238		TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr9:140130470C>T	uc004cmf.1	+	13	1588	c.1402C>T	c.(1402-1404)CGG>TGG	p.R468W	SLC34A3_uc011met.1_Missense_Mutation_p.R468W	NM_080877	NP_543153	Q8N130	NPT2C_HUMAN	solute carrier family 34 (sodium phosphate),	468	Cytoplasmic (Potential).		R -> W (in HHRH).		cellular phosphate ion homeostasis	apical plasma membrane|integral to membrane	sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GCCTGCACTGCGGCTGCCCAT	0.692											OREG0019630	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	94					0	0	0.02938	0	0		T	140130470	T	T	140130470	3	4	34	1	0	0	0	0	1	0	0	0	14594	759	27	1	1448	1	SLC34A3	9	140130470	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	3930971	140130470	1082961	37	31981											
CAMK1D	57118	broad.mit.edu	37	chr10	12866468	12866468	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgcctctgtttcaggatcGctggtgacacagccctcaac	7	12	9	13	1	3	1	2	1	1	0	4	2	3	2	2	2	3	2	2	2	1	2			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr10:12866468G>C	uc001ilo.2	+	9	1073	c.838G>C	c.(838-840)GCT>CCT	p.A280P	CAMK1D_uc001iln.2_Missense_Mutation_p.A280P	NM_153498	NP_705718	Q8IU85	KCC1D_HUMAN	calcium/calmodulin-dependent protein kinase ID	280	Autoinhibitory domain (By similarity).					calcium- and calmodulin-dependent protein kinase complex|cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|stomach(1)	2				GBM - Glioblastoma multiforme(1;3.16e-05)		TTTCAGGATCGCTGGTGACAC	0.527													3	42					0	0	0.009096	0	0		C	12866468	C	C	12866468	3	2	34	1	0	0	0	0	1	0	0	0	2600	1087	38	5	872	5	CAMK1D	10	12866468	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08		12866468	122668279	38	31982											
MYO3A	53904	broad.mit.edu	37	chr10	26241113	26241113	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatacatgggaaatcactgAgacaattggcaaaggaactt	16	9	10	6	0	1	2	1	2	0	1	1	5	1	4	0	3	2	1	0	3	5	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr10:26241113A>C	uc001isn.2	+	3	434	c.74A>C	c.(73-75)GAG>GCG	p.E25A	MYO3A_uc009xko.1_Missense_Mutation_p.E25A|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Missense_Mutation_p.E25A|MYO3A_uc001ism.2_Missense_Mutation_p.E25A	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	25	Protein kinase.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity	p.E25_I27>I(1)		ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GAAATCACTGAGACAATTGGC	0.328													8	63					0	0	0.00308	0	0		C	26241113	C	C	26241113	3	2	34	1	0	0	0	0	1	0	0	0	10094	304	11	5	76	5	MYO3A	10	26241113	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	13374645	26241113	109293634	39	31983											
DDX50	79009	broad.mit.edu	37	chr10	70679639	70679639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagcagttattggagatGtccttcaagtctacagtggg	9	11	13	8	0	2	1	1	0	1	1	3	2	3	1	2	3	2	2	2	3	3	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr10:70679639G>A	uc001jou.2	+	8	1248	c.1141G>A	c.(1141-1143)GTC>ATC	p.V381I	DDX50_uc010qjc.1_Missense_Mutation_p.V381I	NM_024045	NP_076950	Q9BQ39	DDX50_HUMAN	nucleolar protein GU2	381	Helicase C-terminal.					nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1						TATTGGAGATGTCCTTCAAGT	0.383													5	153					0	0	0.014758	0	0		A	70679639	A	A	70679639	3	1	34	1	0	0	0	0	1	0	0	0	4371	1377	48	4	1171	4	DDX50	10	70679639	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	44438526	70679639	64855108	40	31984											
AGAP5	729092	broad.mit.edu	37	chr10	75487057	75487057	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcatctcctacctgacaCgatcatcacagggcctctga	10	8	8	15	1	4	2	2	2	2	0	5	3	4	2	3	1	2	2	3	1	1	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr10:75487057C>T	uc001juu.3	-	3	469	c.-1135G>A	c.(-1137--1133)TCGTG>TCATG		BMS1P4_uc001juv.3_RNA|BMS1P4_uc010qkm.1_RNA	NM_001144000	NP_001137472	A6NIR3	AGAP5_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH						regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						CTACCTGACACGATCATCACA	0.493													8	109					0	0	0.010729	0	0		T	75487057	T	T	75487057	1	4	34	1	0	0	0	0	0	0	0	0	371	551	19	1		1	AGAP5	10	75487057	Translation_Start_Site	SNP	C	TCGA-BR-6563-01A-13D-2053-08	4807418	75487057	60047690	41	31985											
EXOSC1	51013	broad.mit.edu	37	chr10	99196244	99196244	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgtactcgggctactttccgGaattctttagtgtgggtctt	5	17	11	8	2	2	0	0	0	2	0	4	1	3	1	1	3	2	2	1	3	4	7			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr10:99196244G>C	uc001kni.2	-	8	572	c.546C>G	c.(544-546)TTC>TTG	p.F182L	EXOSC1_uc009xvp.1_RNA	NM_016046	NP_057130	Q9Y3B2	EXOS1_HUMAN	exosomal core protein CSL4	182					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	protein binding|RNA binding				0		Renal(717;0.000147)|Colorectal(252;0.00205)|Ovarian(717;0.00965)		all cancers(201;8.29e-42)|Epithelial(162;5.7e-33)|BRCA - Breast invasive adenocarcinoma(275;0.000315)|Kidney(138;0.000832)|KIRC - Kidney renal clear cell carcinoma(50;0.00269)|STAD - Stomach adenocarcinoma(243;0.202)		CTACTTTCCGGAATTCTTTAG	0.507													16	165					0	0	0.008871	0	0		C	99196244	C	C	99196244	3	2	34	1	0	0	0	0	1	0	0	0	5321	1165	41	5	45	5	EXOSC1	10	99196244	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	23709187	99196244	36338503	42	31986											
HBG1	3047	broad.mit.edu	37	chr11	5269648	5269648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caccatcttctgccaggaagCctgcacctcaggggtgaatt	9	9	10	13	0	3	1	1	1	2	0	3	2	3	2	4	3	3	1	4	3	2	2	rs41330850		TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr11:5269648C>T	uc001mah.1	-	3	438	c.385G>A	c.(385-387)GCT>ACT	p.A129T	HBG2_uc001mai.1_Missense_Mutation_p.A129T	NM_000559	NP_000550	P69891	HBG1_HUMAN	A-gamma globin	129			A -> T (in Baskent).		blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity|protein binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGCCAGGAAGCCTGCACCTCA	0.502													6	47					0	0	0.00308	0	0		T	5269648	T	T	5269648	3	4	34	1	0	0	0	0	1	0	0	0	6998	739	26	2	62	2	HBG1	11	5269648	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08		5269648	129736868	43	31987											
OR10A4	283297	broad.mit.edu	37	chr11	6898750	6898750	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgttgaaccccatcatctAcagctcaaggaataaagaag	16	8	7	10	0	3	2	2	1	1	1	3	3	3	3	2	1	3	2	2	1	7	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr11:6898750A>G	uc010rat.1	+	1	872	c.872A>G	c.(871-873)TAC>TGC	p.Y291C		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	291	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CCCATCATCTACAGCTCAAGG	0.502													11	123					0	0	0.013537	0	0		G	6898750	G	G	6898750	3	3	34	1	0	0	0	0	1	0	0	0	10911	391	14	3	874	3	OR10A4	11	6898750	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	1629102	6898750	128107766	44	31988											
RBM7	10179	broad.mit.edu	37	chr11	114273598	114273598	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtcatatccccaacatcAtgttggaaattcaagcccta	12	13	5	11	0	3	0	3	0	0	0	4	1	4	1	3	1	2	1	3	1	5	5			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr11:114273598A>G	uc001pov.2	+	3	318	c.308A>G	c.(307-309)CAT>CGT	p.H103R	C11orf71_uc001pot.1_5'Flank|C11orf71_uc001pou.3_5'Flank|RBM7_uc001pow.2_Missense_Mutation_p.H103R|RBM7_uc001pox.2_5'UTR	NM_016090	NP_057174	Q9Y580	RBM7_HUMAN	RNA binding motif protein 7	103					meiosis		nucleotide binding|protein binding|RNA binding			ovary(2)	2		all_cancers(61;5.06e-12)|all_epithelial(67;5.3e-06)|all_hematologic(158;7.68e-05)|Acute lymphoblastic leukemia(157;0.000966)|Melanoma(852;0.00153)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.0818)|Prostate(24;0.104)		BRCA - Breast invasive adenocarcinoma(274;2.56e-06)|Epithelial(105;4.17e-05)|all cancers(92;0.000348)		CCCCAACATCATGTTGGAAAT	0.338													16	128					0	0	0.007413	0	0		G	114273598	G	G	114273598	3	3	34	1	0	0	0	0	1	0	0	0	13170	217	8	3	318	3	RBM7	11	114273598	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	107374848	114273598	20732918	45	31989											
POU2F3	25833	broad.mit.edu	37	chr11	120168982	120168982	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacttgcagattaaaacCgaagatctcagtgactccct	12	11	6	12	1	1	3	1	1	1	2	4	4	3	3	3	0	2	1	3	0	3	3	rs139585451		TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr11:120168982C>T	uc001pxc.2	+	4	243	c.141C>T	c.(139-141)ACC>ACT	p.T47T	POU2F3_uc010rzk.1_5'UTR|POU2F3_uc010rzl.1_5'UTR	NM_014352	NP_055167	Q9UKI9	PO2F3_HUMAN	POU transcription factor	47					negative regulation by host of viral transcription	cytoplasm	sequence-specific DNA binding			ovary(1)|skin(1)	2		Breast(109;0.0011)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;6.85e-06)		AGATTAAAACCGAAGATCTCA	0.542													26	361					0	0	0.034045	0	0		T	120168982	T	T	120168982	2	4	34	1	0	0	0	0	0	0	0	1	12292	639	23	1		1	POU2F3	11	120168982	Silent	SNP	C	TCGA-BR-6563-01A-13D-2053-08	5895384	120168982	14837534	46	31990											
GRIK4	2900	broad.mit.edu	37	chr11	120702685	120702685	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatccgggacgacaagacCgccaccatcatcatccacgc	12	4	9	16	4	2	2	2	0	0	2	4	5	4	3	5	1	0	0	5	1	1	0	rs148308915	byFrequency	TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr11:120702685C>T	uc001pxn.2	+	7	923	c.636C>T	c.(634-636)ACC>ACT	p.T212T	GRIK4_uc009zav.1_Silent_p.T212T|GRIK4_uc009zaw.1_Silent_p.T212T|GRIK4_uc009zax.1_Silent_p.T212T	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	212	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	ACGACAAGACCGCCACCATCA	0.637													14	130					0	0	0.0333	0	0		T	120702685	T	T	120702685	2	4	34	1	0	0	0	0	0	0	0	1	6792	639	23	1		1	GRIK4	11	120702685	Silent	SNP	C	TCGA-BR-6563-01A-13D-2053-08	533703	120702685	14303831	47	31991											
PTPN6	5777	broad.mit.edu	37	chr12	7065608	7065608	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctaggccctgatgagaaCgctaagacctacatcgccag	11	7	10	13	2	0	3	0	2	0	2	1	4	0	3	3	1	3	2	3	1	4	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr12:7065608C>T	uc001qsb.2	+	9	1193	c.951C>T	c.(949-951)AAC>AAT	p.N317N	PTPN6_uc001qsa.1_Silent_p.N319N|PTPN6_uc010sfr.1_Silent_p.N278N|PTPN6_uc009zfl.1_Silent_p.N317N|PTPN6_uc010sfs.1_Silent_p.N305N	NM_002831	NP_002822	P29350	PTN6_HUMAN	protein tyrosine phosphatase, non-receptor type	317	Tyrosine-protein phosphatase.				apoptosis|cell junction assembly|G-protein coupled receptor protein signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|negative regulation of peptidyl-tyrosine phosphorylation|platelet activation|positive regulation of cell proliferation|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of G1/S transition of mitotic cell cycle|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol|membrane|nucleus	protein binding|protein tyrosine phosphatase activity			breast(1)	1						CTGATGAGAACGCTAAGACCT	0.607													11	69					0	0	0.028581	0	0		T	7065608	T	T	7065608	2	4	34	1	0	0	0	0	0	0	0	1	12817	535	19	1		1	PTPN6	12	7065608	Silent	SNP	C	TCGA-BR-6563-01A-13D-2053-08		7065608	126786287	48	31992											
ERBB3	2065	broad.mit.edu	37	chr12	56489547	56489547	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctactggcgtgggcgccggaTtcagaataaaagggctatga	11	8	14	8	3	1	2	1	1	0	1	1	3	1	3	1	4	1	1	1	4	5	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr12:56489547T>A	uc001sjh.2	+	17	2205	c.2012T>A	c.(2011-2013)ATT>AAT	p.I671N	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Missense_Mutation_p.I28N|ERBB3_uc010sqc.1_Missense_Mutation_p.I612N|ERBB3_uc009zok.2_Missense_Mutation_p.I113N|ERBB3_uc001sjk.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	671	Cytoplasmic (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			GGGCGCCGGATTCAGAATAAA	0.453													19	75					0	0	0.012319	0	0		A	56489547	A	A	56489547	3	1	34	1	0	0	0	0	1	0	0	0	5216	1493	52	5	2209	5	ERBB3	12	56489547	Missense_Mutation	SNP	T	TCGA-BR-6563-01A-13D-2053-08	49423939	56489547	77362348	49	31993											
SDR9C7	121214	broad.mit.edu	37	chr12	57323335	57323335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaaagtagtagagctcaCgcctgggaaagaagagttgc	13	6	12	10	1	1	3	1	0	0	3	1	4	1	4	3	1	2	4	3	1	5	3	rs141626978		TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr12:57323335C>T	uc010sqw.1	-	3	563	c.563G>A	c.(562-564)CGT>CAT	p.R188H		NM_148897	NP_683695	Q8NEX9	DR9C7_HUMAN	short chain dehydrogenase/reductase family 9C,	188						cytoplasm	binding|oxidoreductase activity			central_nervous_system(1)	1						GTAGAGCTCACGCCTGGGAAA	0.532													16	54					0	0	0.008871	0	0		T	57323335	T	T	57323335	3	4	34	1	0	0	0	0	1	0	0	0	13999	536	19	1	386	1	SDR9C7	12	57323335	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	833788	57323335	76528560	50	31994											
DAO	1610	broad.mit.edu	37	chr12	109286789	109286789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggagtgaagttcttccagCggaaagtggagtcttttgag	9	11	16	5	1	2	2	0	2	2	0	3	5	3	5	1	4	1	1	1	4	2	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr12:109286789C>T	uc001tnr.3	+	6	637	c.484C>T	c.(484-486)CGG>TGG	p.R162W	DAO_uc001tnq.3_Intron|DAO_uc009zvb.2_RNA|DAO_uc001tns.3_RNA	NM_001917	NP_001908	P14920	OXDA_HUMAN	D-amino-acid oxidase	162					glyoxylate metabolic process	peroxisomal matrix	binding|D-amino-acid oxidase activity			ovary(1)|skin(1)	2						GTTCTTCCAGCGGAAAGTGGA	0.557													3	32					0	0	0.009096	0	0		T	109286789	T	T	109286789	3	4	34	1	0	0	0	0	1	0	0	0	4234	759	27	1	502	1	DAO	12	109286789	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	51963454	109286789	24565106	51	31995											
ACAD10	80724	broad.mit.edu	37	chr12	112140003	112140003	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtatcccttctggaactatAttaaaggccttgatggaagg	11	12	10	8	1	1	1	0	1	1	0	2	3	2	3	2	4	1	1	2	4	7	6			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr12:112140003A>G	uc001tsq.2	+	3	425	c.225A>G	c.(223-225)ATA>ATG	p.I75M	ACAD10_uc009zvw.2_Missense_Mutation_p.I75M|ACAD10_uc001tso.3_Missense_Mutation_p.I75M|ACAD10_uc001tsp.2_Missense_Mutation_p.I75M|ACAD10_uc009zvx.2_Missense_Mutation_p.I75M	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	75							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						CTGGAACTATATTAAAGGCCT	0.413													12	87					0	0	0.013537	0	0		G	112140003	G	G	112140003	3	3	34	1	0	0	0	0	1	0	0	0	108	439	16	3	231	3	ACAD10	12	112140003	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	2853214	112140003	21711892	52	31996											
ZNF605	100289635	broad.mit.edu	37	chr12	133501996	133501996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgatgtatcataagctgcGacttcctgttgaaggtggtc	8	14	11	8	1	2	2	1	2	1	0	4	3	3	2	1	2	2	3	1	2	3	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr12:133501996G>A	uc001ulh.2	-	5	2214	c.1889C>T	c.(1888-1890)TCG>TTG	p.S630L	ZNF605_uc001uli.2_Missense_Mutation_p.S661L|ZNF605_uc001ulj.2_Missense_Mutation_p.S630L	NM_183238	NP_899061	Q86T29	ZN605_HUMAN	zinc finger protein 605 isoform 1	630	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00227)|all_epithelial(31;0.142)		OV - Ovarian serous cystadenocarcinoma(86;9.24e-09)|Epithelial(86;2.11e-07)|all cancers(50;5.27e-06)		CATAAGCTGCGACTTCCTGTT	0.383													16	72					0	0	0.006122	0	0		A	133501996	A	A	133501996	3	1	34	1	0	0	0	0	1	0	0	0	18056	1059	37	1	40	1	ZNF605	12	133501996	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	21361993	133501996	349899	53	31997											
KLHL1	57626	broad.mit.edu	37	chr13	70314635	70314635	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccactgtattcagatagcTccagccatcatggcctccca	9	11	6	15	0	2	1	2	0	0	1	5	1	5	1	5	1	2	2	5	1	2	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr13:70314635T>C	uc001vip.2	-	8	2487	c.1693A>G	c.(1693-1695)AGC>GGC	p.S565G	KLHL1_uc010thm.1_Missense_Mutation_p.S504G	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	565	Kelch 3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		TTCAGATAGCTCCAGCCATCA	0.383													9	84					0	0	0.013537	0	0		C	70314635	C	C	70314635	3	2	34	1	0	0	0	0	1	0	0	0	8381	1551	54	3	569	3	KLHL1	13	70314635	Missense_Mutation	SNP	T	TCGA-BR-6563-01A-13D-2053-08		70314635	44855243	54	31998											
RALGAPA1	253959	broad.mit.edu	37	chr14	36143463	36143463	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtcaggttatcagttgAaatgccaaggttatctctaa	12	12	11	6	0	3	1	2	1	1	0	4	2	3	2	1	4	1	3	1	4	5	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr14:36143463A>C	uc001wti.2	-	23	3713	c.3322T>G	c.(3322-3324)TCA>GCA	p.S1108A	RALGAPA1_uc010amp.2_5'Flank|RALGAPA1_uc001wtj.2_Missense_Mutation_p.S1108A|RALGAPA1_uc010tpv.1_Missense_Mutation_p.S1121A|RALGAPA1_uc010tpw.1_Missense_Mutation_p.S1155A	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1108					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						TTATCAGTTGAAATGCCAAGG	0.323													4	48					0	0	0.009096	0	0		C	36143463	C	C	36143463	3	2	34	1	0	0	0	0	1	0	0	0	13038	246	9	5	3013	5	RALGAPA1	14	36143463	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08		36143463	71206077	55	31999											
RIN3	79890	broad.mit.edu	37	chr14	93118183	93118183	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctgcacgccctttgccGcccacctctgatgccacctc	4	9	7	21	2	1	1	0	1	1	0	2	1	1	1	7	0	4	1	7	0	0	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr14:93118183G>A	uc001yap.2	+	6	941	c.789G>A	c.(787-789)CCG>CCA	p.P263P	RIN3_uc010auk.2_5'UTR|RIN3_uc001yaq.2_Silent_p.P188P|RIN3_uc001yar.1_5'UTR|RIN3_uc001yas.1_5'UTR	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	263	Pro-rich.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				GCCCTTTGCCGCCCACCTCTG	0.453													11	96					0	0	0.013537	0	0		A	93118183	A	A	93118183	2	1	34	1	0	0	0	0	0	0	0	1	13398	1074	38	1		1	RIN3	14	93118183	Silent	SNP	G	TCGA-BR-6563-01A-13D-2053-08	56974720	93118183	14231357	56	32000											
CAPN3	825	broad.mit.edu	37	chr15	42652189	42652189	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaaagagaagacattcgaGcaacttcacaagaaatgtct	17	8	9	7	1	2	4	1	1	1	3	3	6	2	4	0	0	2	1	0	0	5	2			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr15:42652189G>A	uc001zpn.1	+	1	492	c.186G>A	c.(184-186)GAG>GAA	p.E62E	CAPN3_uc001zpk.1_Intron|CAPN3_uc001zpl.1_Intron|CAPN3_uc010udf.1_Intron|CAPN3_uc010udg.1_Intron|CAPN3_uc001zpo.1_Silent_p.E62E|CAPN3_uc001zpp.1_Silent_p.E62E	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	62					muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)		AGACATTCGAGCAACTTCACA	0.473													4	192					0	0	0.014758	0	0		A	42652189	A	A	42652189	2	1	34	1	0	0	0	0	0	0	0	1	2631	962	34	2		2	CAPN3	15	42652189	Silent	SNP	G	TCGA-BR-6563-01A-13D-2053-08		42652189	59879203	57	32001											
LOXL1	4016	broad.mit.edu	37	chr15	74239441	74239441	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggacgagttcagccactaCgacctactggatgcagccac	11	7	10	13	2	1	0	1	0	0	0	1	4	1	2	3	2	5	2	3	2	2	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr15:74239441C>T	uc002awc.1	+	4	1719	c.1383C>T	c.(1381-1383)TAC>TAT	p.Y461Y	LOXL1_uc002awd.1_5'Flank	NM_005576	NP_005567	Q08397	LOXL1_HUMAN	lysyl oxidase-like 1 preproprotein	461	Lysyl-oxidase like.				protein deamination	extracellular space	copper ion binding				0						TCAGCCACTACGACCTACTGG	0.592													5	30					0	0	0.014758	0	0		T	74239441	T	T	74239441	2	4	34	1	0	0	0	0	0	0	0	1	8917	547	19	1		1	LOXL1	15	74239441	Silent	SNP	C	TCGA-BR-6563-01A-13D-2053-08	31587252	74239441	28291951	58	32002											
ZNF710	374655	broad.mit.edu	37	chr15	90611201	90611201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatcggctggacatcaacGtgcagattgacgactcctat	10	10	11	10	3	1	2	1	1	0	1	3	5	2	4	1	3	2	2	1	3	2	2			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr15:90611201G>A	uc002bov.1	+	2	955	c.832G>A	c.(832-834)GTG>ATG	p.V278M		NM_198526	NP_940928	Q8N1W2	ZN710_HUMAN	zinc finger protein 710	278					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	Melanoma(11;0.00551)|Lung NSC(78;0.0196)|all_lung(78;0.04)		BRCA - Breast invasive adenocarcinoma(143;0.00769)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.129)			GGACATCAACGTGCAGATTGA	0.622													7	81					0	0	0.00308	0	0		A	90611201	A	A	90611201	3	1	34	1	0	0	0	0	1	0	0	0	18140	1145	40	1	834	1	ZNF710	15	90611201	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	16371760	90611201	11920191	59	32003											
E4F1	1877	broad.mit.edu	37	chr16	2284270	2284270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgcgtgagcgccgcttcCgctgtggcgactgcgggaag	5	7	17	12	7	0	1	0	1	0	0	1	3	1	2	2	2	3	2	2	2	1	1	rs142977286		TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr16:2284270C>T	uc002cpm.2	+	10	1522	c.1474C>T	c.(1474-1476)CGC>TGC	p.R492C	E4F1_uc010bsi.2_Missense_Mutation_p.R492C|E4F1_uc010bsj.2_Intron|DNASE1L2_uc002cpn.2_5'Flank|DNASE1L2_uc002cpo.2_5'Flank|DNASE1L2_uc002cpp.2_5'Flank|DNASE1L2_uc002cpq.2_5'Flank	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	492	Mediates interaction with CDKN2A.|Interaction with BMI1.|C2H2-type 6.				cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						GCGCCGCTTCCGCTGTGGCGA	0.667													3	43					0	0	0.009096	0	0		T	2284270	T	T	2284270	3	4	34	1	0	0	0	0	1	0	0	0	4880	652	23	1	1512	1	E4F1	16	2284270	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08		2284270	88070483	60	32004											
C16orf53	79447	broad.mit.edu	37	chr16	29828032	29828032	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccgagcgtgaggggtcCgggggcgaggaggcgcaggg	7	2	24	8	5	0	2	0	1	0	1	1	6	1	3	2	7	1	1	2	7	0	0			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr16:29828032C>T	uc002dug.3	+	1	505	c.186C>T	c.(184-186)TCC>TCT	p.S62S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron	NM_024516	NP_078792	Q9BTK6	PA1_HUMAN	PTIP-associated 1 protein	62	Glu-rich.										0						GTGAGGGGTCCGGGGGCGAGG	0.716											OREG0023722	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	12					0	0	0.004672	0	0		T	29828032	T	T	29828032	2	4	34	1	0	0	0	0	0	0	0	1	1821	639	23	1		1	C16orf53	16	29828032	Silent	SNP	C	TCGA-BR-6563-01A-13D-2053-08	27543762	29828032	60526721	61	32005											
TMCO7	79613	broad.mit.edu	37	chr16	68934404	68934404	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttccagtcctgggagtgcTttttcttctctactgtttta	4	19	8	10	0	2	0	0	0	2	0	5	1	4	1	2	1	2	3	2	1	2	7			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr16:68934404T>C	uc002ewi.3	+	8	1457	c.1445T>C	c.(1444-1446)CTT>CCT	p.L482P		NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	482	Helical; (Potential).					integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		CTGGGAGTGCTTTTTCTTCTC	0.388													3	106					0	0	0.014758	0	0		C	68934404	C	C	68934404	3	2	34	1	0	0	0	0	1	0	0	0	16026	1609	56	3	1475	3	TMCO7	16	68934404	Missense_Mutation	SNP	T	TCGA-BR-6563-01A-13D-2053-08	39106372	68934404	21420349	62	32006											
ST3GAL2	6483	broad.mit.edu	37	chr16	70428945	70428945	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagagccccgcaggttgcccGagttccccaccacggcacag	8	4	11	18	3	0	1	0	0	0	1	1	2	1	1	6	2	2	4	6	2	0	2			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr16:70428945G>A	uc002eyw.2	-	2	2581	c.473C>T	c.(472-474)TCG>TTG	p.S158L	ST3GAL2_uc002eyx.2_Missense_Mutation_p.S158L	NM_006927	NP_008858	Q16842	SIA4B_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	158	Lumenal (Potential).				amino sugar metabolic process	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity			ovary(1)	1		Ovarian(137;0.0694)				CAGGTTGCCCGAGTTCCCCAC	0.652													18	182					0	0	0.012319	0	0		A	70428945	A	A	70428945	3	1	34	1	0	0	0	0	1	0	0	0	15240	1059	37	1	599	1	ST3GAL2	16	70428945	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	1494541	70428945	19925808	63	32007											
PRPF8	10594	broad.mit.edu	37	chr17	1559814	1559814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcctggaaagggagttggaGctccgatcctttgatgacaa	10	9	13	9	2	0	2	0	2	0	0	2	6	2	5	3	3	1	2	3	3	2	2			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr17:1559814G>A	uc002fte.2	-	36	5779	c.5665C>T	c.(5665-5667)CTC>TTC	p.L1889F		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	1889	Involved in interaction with pre-mRNA 5' splice site.					catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		GGGAGTTGGAGCTCCGATCCT	0.478													4	52					0	0	0.014758	0	0		A	1559814	A	A	1559814	3	1	34	1	0	0	0	0	1	0	0	0	12597	971	34	2	1374	2	PRPF8	17	1559814	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08		1559814	79635396	64	32008											
KRT25	147183	broad.mit.edu	37	chr17	38904587	38904587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtggtaagtattttgctgCgttggtctacctcctcaaga	7	15	11	8	1	2	1	1	0	1	1	3	1	3	1	2	3	3	4	2	3	4	6			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr17:38904587C>T	uc002hve.2	-	8	1356	c.1295G>A	c.(1294-1296)CGC>CAC	p.R432H		NM_181534	NP_853512	Q7Z3Z0	K1C25_HUMAN	keratin 25	432	Tail.					cytoplasm|intermediate filament	structural molecule activity			ovary(2)	2		Breast(137;0.00526)				TATTTTGCTGCGTTGGTCTAC	0.403													13	133					0	0	0.024245	0	0		T	38904587	T	T	38904587	3	4	34	1	0	0	0	0	1	0	0	0	8478	768	27	1	61	1	KRT25	17	38904587	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	37344773	38904587	42290623	65	32009											
KIF2B	84643	broad.mit.edu	37	chr17	51900906	51900906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggctgcagcaggagatccGagctagacgcgccctcgatg	8	5	15	13	5	0	2	0	0	0	2	2	5	1	2	2	2	3	4	2	2	1	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr17:51900906G>A	uc002iua.2	+	1	668	c.512G>A	c.(511-513)CGA>CAA	p.R171Q	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	171	Potential.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CAGGAGATCCGAGCTAGACGC	0.532													4	65					0	0	0.021553	0	0		A	51900906	A	A	51900906	3	1	34	1	0	0	0	0	1	0	0	0	8314	1058	37	1	514	1	KIF2B	17	51900906	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	12996319	51900906	29294304	66	32010											
PIK3C3	5289	broad.mit.edu	37	chr18	39637994	39637994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccgtaaacagtgttacaCggctttcctccacctgcgaa	9	11	8	13	3	0	0	0	0	0	0	3	1	3	0	4	1	3	4	4	1	4	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr18:39637994C>T	uc002lap.2	+	22	2469	c.2411C>T	c.(2410-2412)ACG>ATG	p.T804M	PIK3C3_uc010xcl.1_Missense_Mutation_p.T741M|PIK3C3_uc002laq.2_Missense_Mutation_p.T289M	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	804	PI3K/PI4K.				cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						CAGTGTTACACGGCTTTCCTC	0.398										TSP Lung(28;0.18)			4	57					0	0	0.014758	0	0		T	39637994	T	T	39637994	3	4	34	1	0	0	0	0	1	0	0	0	11931	536	19	1	2497	1	PIK3C3	18	39637994	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08		39637994	38439254	67	32011											
KATNAL2	83473	broad.mit.edu	37	chr18	44579393	44579393	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatttcagaaataccccaaaAttgtcaaaaagtcatcagac	19	9	4	9	0	4	2	4	0	0	2	4	2	4	2	2	0	1	0	2	0	7	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr18:44579393A>G	uc002lco.2	+	2	243	c.49A>G	c.(49-51)ATT>GTT	p.I17V	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lcp.3_Intron	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2	89						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						ATACCCCAAAATTGTCAAAAA	0.338													10	140					0	0	0.016723	0	0		G	44579393	G	G	44579393	3	3	34	1	0	0	0	0	1	0	0	0	8002	101	4	3	51	3	KATNAL2	18	44579393	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	4941399	44579393	33497855	68	32012											
CXXC1	30827	broad.mit.edu	37	chr18	47812195	47812195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgaacttcttcatgtccCgacagaaatcacagtgacca	12	8	6	15	2	3	2	2	1	1	1	4	4	4	2	4	0	1	0	4	0	2	2			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr18:47812195C>T	uc002leq.3	-	5	1296	c.563G>A	c.(562-564)CGG>CAG	p.R188Q	CXXC1_uc002lep.3_Missense_Mutation_p.R45Q|CXXC1_uc002ler.3_Missense_Mutation_p.R188Q|CXXC1_uc010doy.2_Missense_Mutation_p.R188Q|CXXC1_uc002les.2_Missense_Mutation_p.R188Q	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	188	CXXC-type.				histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTTCATGTCCCGACAGAAATC	0.552													5	75					0	0	0.014758	0	0		T	47812195	T	T	47812195	3	4	34	1	0	0	0	0	1	0	0	0	4100	652	23	1	1463	1	CXXC1	18	47812195	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	3232802	47812195	30265053	69	32013											
MUC16	94025	broad.mit.edu	37	chr19	9071751	9071751	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggtctggggtggaaattTtgctagaagagttgacccct	9	12	13	7	0	1	3	0	1	1	2	1	4	1	4	2	4	1	2	2	4	3	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr19:9071751T>G	uc002mkp.2	-	3	15899	c.15695A>C	c.(15694-15696)AAA>ACA	p.K5232T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5234	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTGGAAATTTTGCTAGAAGA	0.488													5	78					0	0	0.014758	0	0		G	9071751	G	G	9071751	3	3	34	1	0	0	0	0	1	0	0	0	9991	1841	64	5	28156	5	MUC16	19	9071751	Missense_Mutation	SNP	T	TCGA-BR-6563-01A-13D-2053-08		9071751	50057232	70	32014											
CC2D1A	54862	broad.mit.edu	37	chr19	14031623	14031623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcctgcaggccgcactgcGagccaagcagaaaaacgacg	12	3	12	14	4	0	1	0	0	0	1	1	3	1	1	3	1	5	4	3	1	3	0			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr19:14031623G>A	uc002mxo.2	+	14	1828	c.1529G>A	c.(1528-1530)CGA>CAA	p.R510Q	CC2D1A_uc002mxp.2_Missense_Mutation_p.R510Q|CC2D1A_uc010dzh.2_Missense_Mutation_p.R79Q|CC2D1A_uc002mxq.1_Missense_Mutation_p.R155Q	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	510	Potential.				positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			GCCGCACTGCGAGCCAAGCAG	0.647													4	45					0	0	0.014758	0	0		A	14031623	A	A	14031623	3	1	34	1	0	0	0	0	1	0	0	0	2729	1058	37	1	1583	1	CC2D1A	19	14031623	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	4959872	14031623	45097360	71	32015											
ZNF93	81931	broad.mit.edu	37	chr19	20045182	20045182	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcccttactaaacataagaAaattcatactggagagaaac	19	9	5	8	0	1	2	1	0	0	2	2	4	2	3	1	1	4	0	1	1	8	5			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr19:20045182A>G	uc002non.2	+	4	1529	c.1418A>G	c.(1417-1419)AAA>AGA	p.K473R		NM_031218	NP_112495	P35789	ZNF93_HUMAN	zinc finger protein 93	473	C2H2-type 12.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1						AAACATAAGAAAATTCATACT	0.368													3	81					0	0	0.004672	0	0		G	20045182	G	G	20045182	3	3	34	1	0	0	0	0	1	0	0	0	18227	14	1	3	1432	3	ZNF93	19	20045182	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	6013559	20045182	39083801	72	32016											
ZNF208	7757	broad.mit.edu	37	chr19	22155029	22155029	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctccagcatgagttttcTtatgtttactaaagactgac	10	16	6	9	0	2	3	0	2	2	1	4	3	3	3	1	0	2	3	1	0	4	6			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr19:22155029T>A	uc002nqp.2	-	5	2656	c.2507A>T	c.(2506-2508)AAG>ATG	p.K836M	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				ATGAGTTTTCTTATGTTTACT	0.368													5	45					0	0	0.021553	0	0		A	22155029	A	A	22155029	3	1	34	1	0	0	0	0	1	0	0	0	17791	1609	56	5	1039	5	ZNF208	19	22155029	Missense_Mutation	SNP	T	TCGA-BR-6563-01A-13D-2053-08	2109847	22155029	36973954	73	32017											
ZNF600	162966	broad.mit.edu	37	chr19	53269036	53269036	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctttccaggatgaattCtcctatgtcttttaaggtgt	7	19	8	7	0	3	1	0	1	3	0	5	2	4	2	2	2	0	1	2	2	3	6			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr19:53269036C>A	uc002qab.3	-	3	2259	c.1973G>T	c.(1972-1974)AGA>ATA	p.R658I		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	658	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		AGGATGAATTCTCCTATGTCT	0.383													7	106					0.00198382	0.00206239	0.02938	1	0		A	53269036	A	A	53269036	3	1	34	1	0	0	0	0	1	0	0	0	18055	913	32	5	199	5	ZNF600	19	53269036	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	31114007	53269036	5859947	74	32018											
ANKRD5	63926	broad.mit.edu	37	chr20	10023849	10023849	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgaacatggtgcagatgtCaacaattctacctatgaagg	13	11	9	8	0	2	3	1	2	1	1	2	3	2	3	1	2	4	1	1	2	6	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr20:10023849C>T	uc002wno.2	+	4	819	c.426C>T	c.(424-426)GTC>GTT	p.V142V	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Silent_p.V142V|ANKRD5_uc010gbz.2_5'UTR	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	142							calcium ion binding			ovary(1)|breast(1)	2						GTGCAGATGTCAACAATTCTA	0.418													10	92					0	0	0.010729	0	0		T	10023849	T	T	10023849	2	4	34	1	0	0	0	0	0	0	0	1	676	813	29	4		4	ANKRD5	20	10023849	Silent	SNP	C	TCGA-BR-6563-01A-13D-2053-08		10023849	53001671	75	32019											
MACROD2	140733	broad.mit.edu	37	chr20	15913947	15913947	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acggtccagaggagaagcaaAgtgtggaagaaatggaagag	17	4	16	4	1	0	4	0	0	0	4	1	7	1	6	1	4	1	1	1	4	5	0			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr20:15913947A>C	uc002wou.2	+	11	1066	c.802A>C	c.(802-804)AGT>CGT	p.S268R	MACROD2_uc002wot.2_Missense_Mutation_p.S268R|MACROD2_uc002woz.2_Missense_Mutation_p.S33R|MACROD2_uc002wpb.2_Missense_Mutation_p.S33R	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	268	Glu-rich.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				GGAGAAGCAAAGTGTGGAAGA	0.418													3	41					0	0	0.014758	0	0		C	15913947	C	C	15913947	3	2	34	1	0	0	0	0	1	0	0	0	9164	72	3	5	844	5	MACROD2	20	15913947	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	5890098	15913947	47111573	76	32020											
NINL	22981	broad.mit.edu	37	chr20	25457205	25457205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactccacagggctgcatgcGtgaccacctctctgaggggc	7	7	12	15	1	1	2	0	2	1	0	3	2	2	2	3	3	2	2	3	3	0	0			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr20:25457205G>A	uc002wux.1	-	17	2796	c.2722C>T	c.(2722-2724)CGC>TGC	p.R908C	NINL_uc010gdn.1_Intron	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	908					G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						GGCTGCATGCGTGACCACCTC	0.706													5	29					0	0	0.02938	0	0		A	25457205	A	A	25457205	3	1	34	1	0	0	0	0	1	0	0	0	10439	1145	40	1	1458	1	NINL	20	25457205	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	9543258	25457205	37568315	77	32021											
BPIL1	80341	broad.mit.edu	37	chr20	31598877	31598877	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgggccctgcaggtcactGtccctcatttcctggactgg	5	10	12	14	1	2	0	2	0	0	0	4	1	4	1	3	4	2	1	3	4	0	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr20:31598877G>C	uc002wyj.2	+	3	351	c.157G>C	c.(157-159)GTC>CTC	p.V53L		NM_025227	NP_079503	Q8N4F0	BPIL1_HUMAN	bactericidal/permeability-increasing	53						extracellular region	lipid binding			skin(2)|large_intestine(1)|ovary(1)	4						GCAGGTCACTGTCCCTCATTT	0.617													5	117					0	0	0.014758	0	0		C	31598877	C	C	31598877	3	2	34	1	0	0	0	0	1	0	0	0	1494	1377	48	5	163	5	BPIL1	20	31598877	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	6141672	31598877	31426643	78	32022											
PREX1	57580	broad.mit.edu	37	chr20	47262400	47262400	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacccacctgtaggagtcGcgataactcatggtgtcgtg	9	9	12	11	3	1	0	1	0	0	0	3	3	1	1	2	2	1	1	2	2	2	2	rs141398646	byFrequency	TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr20:47262400G>A	uc002xtw.1	-	26	3524	c.3501C>T	c.(3499-3501)CGC>CGT	p.R1167R	PREX1_uc002xtv.1_Silent_p.R464R	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1167					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			TGTAGGAGTCGCGATAACTCA	0.602													3	27					0	0	0.004672	0	0		A	47262400	A	A	47262400	2	1	34	1	0	0	0	0	0	0	0	1	12498	1074	38	1		1	PREX1	20	47262400	Silent	SNP	G	TCGA-BR-6563-01A-13D-2053-08	15663523	47262400	15763120	79	32023											
CDH4	1002	broad.mit.edu	37	chr20	60503377	60503377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaacgccatcaacatcaCggcggccgacgctgacgtcg	9	5	11	16	7	2	2	2	2	0	0	3	3	2	2	3	2	2	1	3	2	2	0			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr20:60503377C>T	uc002ybn.1	+	12	1915	c.1901C>T	c.(1900-1902)ACG>ATG	p.T634M	CDH4_uc002ybp.1_Missense_Mutation_p.T560M	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	634	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			ATCAACATCACGGCGGCCGAC	0.622													13	98					0	0	0.016723	0	0		T	60503377	T	T	60503377	3	4	34	1	0	0	0	0	1	0	0	0	3115	536	19	1	1947	1	CDH4	20	60503377	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	13240977	60503377	2522143	80	32024											
COL20A1	57642	broad.mit.edu	37	chr20	61945434	61945434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcctaggtctctgtgcCaggagccaggagccacgtga	7	9	12	13	1	2	1	0	1	2	0	4	3	2	3	4	3	3	0	4	3	1	2			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr20:61945434C>T	uc011aau.1	+	19	2469	c.2369C>T	c.(2368-2370)CCA>CTA	p.P790L	COL20A1_uc011aav.1_Missense_Mutation_p.P611L	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	790	Fibronectin type-III 6.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					GTCTCTGTGCCAGGAGCCAGG	0.642													6	27					0	0	0.02938	0	0		T	61945434	T	T	61945434	3	4	34	1	0	0	0	0	1	0	0	0	3682	594	21	4	2439	4	COL20A1	20	61945434	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	1442057	61945434	1080086	81	32025											
TMPRSS15	5651	broad.mit.edu	37	chr21	19666657	19666657	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgccgcagagcagtcggcCgccataatacagacccacaa	12	4	10	15	4	0	2	0	0	0	2	1	2	0	2	4	1	3	2	4	1	3	2			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr21:19666657C>T	uc002ykw.2	-	21	2447	c.2416G>A	c.(2416-2418)GGC>AGC	p.G806S		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	806	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						AGCAGTCGGCCGCCATAATAC	0.557													5	111					0	0	0.02938	0	0		T	19666657	T	T	19666657	3	4	34	1	0	0	0	0	1	0	0	0	16271	652	23	1	663	1	TMPRSS15	21	19666657	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08		19666657	28463238	82	32026											
CHEK2	11200	broad.mit.edu	37	chr22	29121096	29121096	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatgtatgcaatgtaagagTttttaggacccacttcctaa	12	14	7	8	0	0	1	0	0	0	1	1	2	1	2	2	1	1	4	2	1	6	8			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chr22:29121096T>C	uc003adu.1	-	4	533	c.461A>G	c.(460-462)AAC>AGC	p.N154S	CHEK2_uc003ads.1_Intron|CHEK2_uc010gvh.1_Intron|CHEK2_uc010gvi.1_Missense_Mutation_p.N154S|CHEK2_uc010gvj.1_Intron|CHEK2_uc003adr.1_RNA|CHEK2_uc010gvk.1_RNA|CHEK2_uc003adt.1_Missense_Mutation_p.N197S|CHEK2_uc003adv.1_Missense_Mutation_p.N154S|CHEK2_uc003adw.1_Missense_Mutation_p.N154S|CHEK2_uc003adx.1_5'UTR|CHEK2_uc003ady.1_Missense_Mutation_p.N154S|CHEK2_uc003adz.1_Intron	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a	154	FHA.				cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						AATGTAAGAGTTTTTAGGACC	0.348			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				10	58					0	0	0.010729	0	0		C	29121096	C	C	29121096	3	2	34	1	0	0	0	0	1	0	0	0	3338	1725	60	3	1218	3	CHEK2	22	29121096	Missense_Mutation	SNP	T	TCGA-BR-6563-01A-13D-2053-08		29121096	22183470	83	32027											
GPR64	10149	broad.mit.edu	37	chrX	19045346	19045346	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattactcactttaattcaCttagagacaggactccagtt	13	13	6	9	0	2	2	2	0	0	2	3	4	3	3	1	1	1	1	1	1	3	6			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chrX:19045346C>A	uc004cyx.2	-	11	625	c.461G>T	c.(460-462)AGT>ATT	p.S154I	GPR64_uc004cyy.2_Missense_Mutation_p.S151I|GPR64_uc004cyz.2_Missense_Mutation_p.S140I|GPR64_uc004czb.2_Missense_Mutation_p.S154I|GPR64_uc004czc.2_Missense_Mutation_p.S138I|GPR64_uc004czd.2_Missense_Mutation_p.S130I|GPR64_uc004cze.2_Missense_Mutation_p.S124I|GPR64_uc004czf.2_Missense_Mutation_p.S116I|GPR64_uc004cza.2_Missense_Mutation_p.S132I|GPR64_uc004cyw.2_Missense_Mutation_p.S138I|GPR64_uc010nfj.2_Missense_Mutation_p.S124I	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	154	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					CTTTAATTCACTTAGAGACAG	0.333													33	109					9.39024e-22	1.01647e-21	0.036044	1	0		A	19045346	A	A	19045346	3	1	34	1	0	0	0	0	1	0	0	0	6720	565	20	5	2668	5	GPR64	23	19045346	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08		19045346	136225214	84	32028											
USP9X	8239	broad.mit.edu	37	chrX	41043383	41043383	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgctatatctaacagaggTtagtttttggggttttttgt	8	19	11	3	0	1	1	0	0	1	1	1	1	1	1	0	3	2	4	0	3	4	9			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chrX:41043383T>C	uc004dfb.2	+	22	3912	c.3279_splice	c.e22+2	p.E1093_splice	USP9X_uc004dfc.2_Splice_Site_p.E1093_splice	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform						BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						CTAACAGAGGTTAGTTTTTGG	0.294													11	50					0	0	0.010729	0	0		C	41043383	C	C	41043383	5	2	34	1	0	0	0	0	0	0	1	0	17116	1739	60	3	3363	3	USP9X	23	41043383	Splice_Site	SNP	T	TCGA-BR-6563-01A-13D-2053-08	21998037	41043383	114227177	85	32029											
FGD1	2245	broad.mit.edu	37	chrX	54472781	54472781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacatgccttctgtcaggccGctcccctgcctcgggcggtc	3	9	12	17	3	2	0	1	0	1	0	5	1	3	0	5	3	2	1	5	3	0	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chrX:54472781G>A	uc004dtg.2	-	18	3381	c.2647C>T	c.(2647-2649)CGG>TGG	p.R883W		NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	883	PH 2.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CTGTCAGGCCGCTCCCCTGCC	0.632													3	14					0	0	0.004672	0	0		A	54472781	A	A	54472781	3	1	34	1	0	0	0	0	1	0	0	0	5846	1086	38	1	242	1	FGD1	23	54472781	Missense_Mutation	SNP	G	TCGA-BR-6563-01A-13D-2053-08	13429398	54472781	100797779	86	32030											
KIAA2022	340533	broad.mit.edu	37	chrX	73960013	73960013	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctttcccttacatttcTcatctctcagggccttggag	5	16	8	12	0	3	0	2	0	2	0	6	1	4	1	2	2	2	1	2	2	1	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chrX:73960013T>G	uc004eby.2	-	3	4996	c.4379A>C	c.(4378-4380)GAG>GCG	p.E1460A		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1460					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						CTTACATTTCTCATCTCTCAG	0.433													4	29					0	0	0.009096	0	0		G	73960013	G	G	73960013	3	3	34	1	0	0	0	0	1	0	0	0	8285	1551	54	5	179	5	KIAA2022	23	73960013	Missense_Mutation	SNP	T	TCGA-BR-6563-01A-13D-2053-08	19487232	73960013	81310547	87	32031											
CYSLTR1	10800	broad.mit.edu	37	chrX	77529240	77529240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgtcagatttcctgtttcatCcatgtttctctacgaatgtc	7	18	6	10	1	3	1	2	0	1	1	7	2	5	1	2	0	1	2	2	0	2	4			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chrX:77529240C>T	uc004edb.2	-	3	404	c.4G>A	c.(4-6)GAT>AAT	p.D2N	CYSLTR1_uc010nma.2_Missense_Mutation_p.D2N|CYSLTR1_uc010nmb.2_Missense_Mutation_p.D2N	NM_006639	NP_006630	Q9Y271	CLTR1_HUMAN	cysteinyl leukotriene receptor 1	2	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|respiratory gaseous exchange	integral to plasma membrane|membrane fraction	leukotriene receptor activity			ovary(1)	1					Amlexanox(DB01025)|Cinalukast(DB00587)|Montelukast(DB00471)|Nedocromil(DB00716)|Pranlukast(DB01411)|Zafirlukast(DB00549)	CCTGTTTCATCCATGTTTCTC	0.338													14	48					0	0	0.0333	0	0		T	77529240	T	T	77529240	3	4	34	1	0	0	0	0	1	0	0	0	4204	855	30	4	1013	4	CYSLTR1	23	77529240	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	3569227	77529240	77741320	88	32032											
FAM46D	169966	broad.mit.edu	37	chrX	79698243	79698243	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattgaatggttccgtagcaAgttacatacttgcaagccac	12	11	9	9	1	0	1	0	1	0	0	1	2	1	1	2	1	5	5	2	1	6	6			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chrX:79698243A>C	uc004edl.1	+	5	539	c.205A>C	c.(205-207)AGT>CGT	p.S69R	FAM46D_uc004edm.1_Missense_Mutation_p.S69R	NM_152630	NP_689843	Q8NEK8	FA46D_HUMAN	hypothetical protein LOC169966	69										lung(2)	2						TTCCGTAGCAAGTTACATACT	0.378													17	53					0	0	0.0333	0	0		C	79698243	C	C	79698243	3	2	34	1	0	0	0	0	1	0	0	0	5582	72	3	5	207	5	FAM46D	23	79698243	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	2169003	79698243	75572317	89	32033											
DOCK11	139818	broad.mit.edu	37	chrX	117817085	117817085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcacttgaactaaatgagCggctaattaaagaagatcaa	17	10	8	6	1	1	4	1	2	0	2	1	4	1	4	0	1	3	2	0	1	8	5			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chrX:117817085C>T	uc004eqp.2	+	52	6070	c.6007C>T	c.(6007-6009)CGG>TGG	p.R2003W	DOCK11_uc004eqq.2_Missense_Mutation_p.R1782W	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	2003	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						ACTAAATGAGCGGCTAATTAA	0.353													3	74					0	0	0.004672	0	0		T	117817085	T	T	117817085	3	4	34	1	0	0	0	0	1	0	0	0	4692	759	27	1	6213	1	DOCK11	23	117817085	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	38118842	117817085	37453475	90	32034											
SLITRK4	139065	broad.mit.edu	37	chrX	142717006	142717006	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttgcgtcgcaggacaaaaAcaagaaggcaaaaagcaaca	19	4	10	8	2	0	1	0	0	0	1	1	2	0	2	0	2	4	4	0	2	7	1			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chrX:142717006A>T	uc004fbx.2	-	2	2295	c.1919T>A	c.(1918-1920)GTT>GAT	p.V640D	SLITRK4_uc004fby.2_Missense_Mutation_p.V640D	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	640	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CAGGACAAAAACAAGAAGGCA	0.483													8	58					0	0	0.00308	0	0		T	142717006	T	T	142717006	3	4	34	1	0	0	0	0	1	0	0	0	14770	43	2	5	598	5	SLITRK4	23	142717006	Missense_Mutation	SNP	A	TCGA-BR-6563-01A-13D-2053-08	24899921	142717006	12553554	91	32035											
GABRA3	2556	broad.mit.edu	37	chrX	151336800	151336800	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagcacaggaaagatgatgCgggaaattttgtcaaccttg	14	9	12	6	1	1	3	1	1	0	2	1	5	1	5	1	2	3	1	1	2	3	3			TCGA-BR-6563-01A-13D-2053-08	TCGA-BR-6563-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ef0d519-c910-4490-b9b0-e1e52ae95802	eaffeea4-d428-4d1a-b0bf-3760c79fd5c1	g.chrX:151336800C>A	uc010ntk.1	-	10	1619	c.1379G>T	c.(1378-1380)CGC>CTC	p.R460L		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	460	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	AAAGATGATGCGGGAAATTTT	0.498													13	77					1.49906e-05	1.58991e-05	0.020292	1	0		A	151336800	A	A	151336800	3	1	34	1	0	0	0	0	1	0	0	0	6176	768	27	5	103	5	GABRA3	23	151336800	Missense_Mutation	SNP	C	TCGA-BR-6563-01A-13D-2053-08	8619794	151336800	3933760	92	32036											
MTHFR	4524	broad.mit.edu	37	chr1	11861224	11861224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctggctccacacctccccGcagcgccatgatgttcttca	6	10	8	17	2	2	1	1	1	1	0	4	1	4	1	5	1	2	4	5	1	0	2			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr1:11861224G>A	uc001atc.1	-	3	653	c.469C>T	c.(469-471)CGG>TGG	p.R157W	MTHFR_uc001atb.1_Missense_Mutation_p.R180W	NM_005957	NP_005948	P42898	MTHR_HUMAN	5,10-methylenetetrahydrofolate reductase	157			R -> Q (in MTHFRD).		blood circulation|folic acid metabolic process	cytosol	methylenetetrahydrofolate reductase (NADPH) activity|protein binding				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)	Benazepril(DB00542)|Cyanocobalamin(DB00115)|Folic Acid(DB00158)|L-Methionine(DB00134)|Menadione(DB00170)|Methotrexate(DB00563)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|Raltitrexed(DB00293)|Riboflavin(DB00140)|S-Adenosylmethionine(DB00118)|Tetrahydrofolic acid(DB00116)	ACACCTCCCCGCAGCGCCATG	0.587													12	133					0	0	0.010729	0	0		A	11861224	A	A	11861224	3	1	35	1	0	0	0	0	1	0	0	0	9949	1086	38	1	1541	1	MTHFR	1	11861224	Missense_Mutation	SNP	G	TCGA-BR-6564-01A-12D-1882-08		11861224	237389397	1	32037											
LHX8	431707	broad.mit.edu	37	chr1	75602794	75602794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttcctgcaggtgagccccGagggagcgggggacgaggac	7	5	19	10	3	0	1	0	1	0	0	1	6	1	4	3	5	3	2	3	5	0	1			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr1:75602794G>A	uc001dgo.2	+	4	779	c.115G>A	c.(115-117)GAG>AAG	p.E39K	LHX8_uc001dgq.2_5'UTR	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	39						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						GGTGAGCCCCGAGGGAGCGGG	0.731													9	58					0	0	0.004482	0	0		A	75602794	A	A	75602794	3	1	35	1	0	0	0	0	1	0	0	0	8792	1059	37	1	125	1	LHX8	1	75602794	Missense_Mutation	SNP	G	TCGA-BR-6564-01A-12D-1882-08	63741570	75602794	173647827	2	32038											
CD101	9398	broad.mit.edu	37	chr1	117554317	117554317	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtacctaacacaggatggAggaggaagccaagccactga	14	5	13	9	0	0	1	0	1	0	0	0	5	0	5	3	5	4	1	3	5	4	2			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr1:117554317A>G	uc010oxb.1	+	3	628	c.570A>G	c.(568-570)GGA>GGG	p.G190G	CD101_uc009whd.2_Silent_p.G190G|CD101_uc010oxc.1_Silent_p.G190G|CD101_uc010oxd.1_Intron	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	190	Extracellular (Potential).|Ig-like C2-type 2.				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CACAGGATGGAGGAGGAAGCC	0.512													3	85					0	0	0.004672	0	0		G	117554317	G	G	117554317	2	3	35	1	0	0	0	0	0	0	0	1	2965	291	11	3		3	CD101	1	117554317	Silent	SNP	A	TCGA-BR-6564-01A-12D-1882-08	41951523	117554317	131696304	3	32039											
NBPF9	400818	broad.mit.edu	37	chr1	144619399	144619399	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgaggaggatgagaaagtGcagaaatcatctgcccccag	13	7	13	8	0	2	3	1	2	1	2	2	6	2	5	2	2	2	2	2	2	2	1	rs4067645	by1000genomes	TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr1:144619399G>A	uc009wig.1	+	7	622	c.546G>A	c.(544-546)GTG>GTA	p.V182V	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Silent_p.V182V|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Silent_p.V113V|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Silent_p.V113V|NBPF9_uc010oyg.1_Silent_p.V147V|NBPF9_uc009wii.1_Intron	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	182	NBPF 1.					cytoplasm					0						ATGAGAAAGTGCAGAAATCAT	0.413													9	413					0	0	0.007413	0	0		A	144619399	A	A	144619399	2	1	35	1	0	0	0	0	0	0	0	1	10218	1306	46	2		2	NBPF9	1	144619399	Silent	SNP	G	TCGA-BR-6564-01A-12D-1882-08	27065082	144619399	104631222	4	32040											
FLG	2312	broad.mit.edu	37	chr1	152283625	152283625	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacctgtgagtgtctagagCtgtcagcccaagaggcagct	9	8	12	12	0	2	3	1	1	1	2	2	3	2	3	3	1	3	3	3	1	2	1			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr1:152283625C>A	uc001ezu.1	-	3	3773	c.3737G>T	c.(3736-3738)AGC>ATC	p.S1246I	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1246	Ser-rich.|Filaggrin 7.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTGTCTAGAGCTGTCAGCCCA	0.552									Ichthyosis				19	427					2.40579e-17	2.98496e-17	0.00623	1	0		A	152283625	A	A	152283625	3	1	35	1	0	0	0	0	1	0	0	0	5936	797	28	5	8452	5	FLG	1	152283625	Missense_Mutation	SNP	C	TCGA-BR-6564-01A-12D-1882-08	7664226	152283625	96966996	5	32041											
FLG	2312	broad.mit.edu	37	chr1	152284540	152284540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctaacactggatccctggCgcctgcttgtcctggacccc	5	9	11	16	1	0	0	0	0	0	0	2	2	2	2	5	4	2	2	5	4	1	2			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr1:152284540C>T	uc001ezu.1	-	3	2858	c.2822G>A	c.(2821-2823)CGC>CAC	p.R941H	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	941	Ser-rich.|Filaggrin 5.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGATCCCTGGCGCCTGCTTGT	0.562									Ichthyosis				12	600					0	0	0.010729	0	0		T	152284540	T	T	152284540	3	4	35	1	0	0	0	0	1	0	0	0	5936	768	27	1	9367	1	FLG	1	152284540	Missense_Mutation	SNP	C	TCGA-BR-6564-01A-12D-1882-08	915	152284540	96966081	6	32042											
MUC1	4582	broad.mit.edu	37	chr1	155160774	155160774	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagacaactggggagaagtGctgtgattggaggaggtgag	11	8	19	3	0	0	4	0	2	0	2	0	7	0	6	0	5	2	2	0	5	3	2			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr1:155160774G>T	uc010pfj.1	-	2	784	c.378C>A	c.(376-378)AGC>AGA	p.S126R	RAG1AP1_uc010pey.1_Intron|MUC1_uc001fhy.2_5'UTR|MUC1_uc001fhz.2_5'UTR|MUC1_uc010pfb.1_Intron|MUC1_uc010pfc.1_Intron|MUC1_uc009wph.2_Intron|MUC1_uc010pfd.1_Intron|MUC1_uc010pfe.1_Intron|MUC1_uc010pff.1_Intron|MUC1_uc009wpi.2_Intron|MUC1_uc010pfg.1_Intron|MUC1_uc010pfh.1_Silent_p.L102L|MUC1_uc010pfi.1_Silent_p.L102L|MUC1_uc010pfk.1_Intron|MUC1_uc010pfl.1_Intron|MUC1_uc001fin.2_Intron|MUC1_uc009wpk.2_Intron|MUC1_uc001fip.2_Intron|MUC1_uc009wqg.2_Intron|MUC1_uc009wpo.2_Intron|MUC1_uc009wps.2_Intron|MUC1_uc009wpt.2_Intron|MUC1_uc001fic.2_Intron|MUC1_uc009wpu.2_Intron|MUC1_uc009wpq.2_Intron|MUC1_uc009wpv.2_Intron|MUC1_uc001fim.2_Intron|MUC1_uc001fib.2_Intron|MUC1_uc009wpw.2_Intron|MUC1_uc001fie.2_Intron|MUC1_uc009wpr.2_Intron|MUC1_uc001fig.2_Intron|MUC1_uc001fif.2_Intron|MUC1_uc009wpx.2_Intron|MUC1_uc001fid.2_Intron|MUC1_uc009wpj.2_Intron|MUC1_uc001fij.2_Intron|MUC1_uc009wpy.2_Intron|MUC1_uc010pfm.1_Intron|MUC1_uc001fiq.2_Intron|MUC1_uc009wpz.2_Intron|MUC1_uc010pfn.1_Intron|MUC1_uc009wqa.2_Missense_Mutation_p.S114R|MUC1_uc010pfo.1_Intron|MUC1_uc010pfp.1_Intron|MUC1_uc001fii.2_Intron|MUC1_uc001fih.2_Intron|MUC1_uc001fia.2_Intron|MUC1_uc009wqc.2_Silent_p.L28L|MUC1_uc009wqd.2_Missense_Mutation_p.S52R|MUC1_uc009wqb.2_Intron|MUC1_uc010pfq.1_Silent_p.L28L|MUC1_uc010pfr.1_Intron|MUC1_uc001fit.2_Intron|MUC1_uc009wqe.2_Intron|MUC1_uc001fil.2_Intron|MUC1_uc009wpm.2_Intron|MUC1_uc009wpp.2_Intron|MUC1_uc010pfs.1_Intron|MUC1_uc001fik.2_Intron|MUC1_uc001fio.2_Intron|MUC1_uc009wqf.2_Intron|MUC1_uc009wpl.2_Intron|MUC1_uc009wpn.2_Intron|MUC1_uc001fis.1_Intron			P15941	MUC1_HUMAN	SubName: Full=Mucin 1, cell surface associated;	1031	Extracellular (Potential).					apical plasma membrane|cell surface|cytoplasm|extracellular region|integral to plasma membrane|nucleus	protein binding			large_intestine(1)|pancreas(1)|breast(1)|skin(1)	4	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;5.31e-10)|all cancers(21;2.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GGGGAGAAGTGCTGTGATTGG	0.498			T	IGH@	B-NHL								7	77					0.000157383	0.000184994	0.00308	1	0		T	155160774	T	T	155160774	3	4	35	1	0	0	0	0	1	0	0	0	9988	1334	46	5		5	MUC1	1	155160774	Missense_Mutation	SNP	G	TCGA-BR-6564-01A-12D-1882-08	2876234	155160774	94089847	7	32043											
OR6N1	128372	broad.mit.edu	37	chr1	158735950	158735950	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaagtcacaaaagacgtgctGaatgcgattggggccacaga	14	6	13	8	2	1	3	1	1	0	2	1	5	1	3	1	2	2	1	1	2	4	1			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr1:158735950G>C	uc010piq.1	-	1	523	c.523C>G	c.(523-525)CAG>GAG	p.Q175E		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AAGACGTGCTGAATGCGATTG	0.468													6	146					0	0	0.001168	0	0		C	158735950	C	C	158735950	3	2	35	1	0	0	0	0	1	0	0	0	11225	1299	45	5	418	5	OR6N1	1	158735950	Missense_Mutation	SNP	G	TCGA-BR-6564-01A-12D-1882-08	3575176	158735950	90514671	8	32044											
RGPD3	653489	broad.mit.edu	37	chr2	107049684	107049684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctccttcactatagttttCgagttcctgcatgactgact	8	15	6	12	1	1	2	1	2	0	0	4	3	3	2	3	0	1	3	3	0	2	6			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr2:107049684C>T	uc010ywi.1	-	16	2320	c.2263G>A	c.(2263-2265)GAA>AAA	p.E755K		NM_001144013	NP_001137485	A6NKT7	RGPD3_HUMAN	RANBP2-like and GRIP domain containing 3	755					intracellular transport		binding			ovary(1)	1						CTATAGTTTTCGAGTTCCTGC	0.368													28	506					0	0	0.005524	0	0		T	107049684	T	T	107049684	3	4	35	1	0	0	0	0	1	0	0	0	13312	893	31	1	3045	1	RGPD3	2	107049684	Missense_Mutation	SNP	C	TCGA-BR-6564-01A-12D-1882-08		107049684	136149689	9	32045											
NPRL2	10641	broad.mit.edu	37	chr3	50385317	50385317	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgaggttcttcataagcccGaactggatcagcttcctagg	10	11	10	10	1	3	1	2	1	1	0	4	3	4	2	2	3	3	2	2	3	3	5			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr3:50385317G>A	uc003daj.1	-	10	1351	c.948C>T	c.(946-948)TTC>TTT	p.F316F	ZMYND10_uc003dag.1_5'Flank|ZMYND10_uc010hll.1_5'Flank|ZMYND10_uc003dah.1_5'Flank|ZMYND10_uc010hlm.1_5'Flank|NPRL2_uc003dai.1_Silent_p.F196F|CYB561D2_uc003dak.2_5'Flank|CYB561D2_uc003dal.2_5'Flank|CYB561D2_uc003dam.2_5'Flank	NM_006545	NP_006536	Q8WTW4	NPRL2_HUMAN	tumor suppressor candidate 4	316					negative regulation of kinase activity		protein binding|protein kinase activity			lung(1)	1						TCATAAGCCCGAACTGGATCA	0.577													5	153					0	0	0.00308	0	0		A	50385317	A	A	50385317	2	1	35	1	0	0	0	0	0	0	0	1	10616	1049	37	1		1	NPRL2	3	50385317	Silent	SNP	G	TCGA-BR-6564-01A-12D-1882-08		50385317	147637113	10	32046											
ARMC8	25852	broad.mit.edu	37	chr3	137983022	137983022	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcttcgaaccagtttcCaggatcatgctgtttggaaa	11	11	10	9	1	1	0	1	0	0	0	3	3	2	2	2	2	4	5	2	2	2	3			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr3:137983022C>T	uc003esa.1	+	15	1592	c.1225C>T	c.(1225-1227)CAG>TAG	p.Q409*	TXNDC6_uc003esd.1_Intron|TXNDC6_uc010huf.1_Intron|TXNDC6_uc003ese.1_Intron|ARMC8_uc011bmf.1_Nonsense_Mutation_p.Q392*|ARMC8_uc011bmg.1_Nonsense_Mutation_p.Q356*|ARMC8_uc011bmh.1_Nonsense_Mutation_p.Q350*|ARMC8_uc003esb.1_Nonsense_Mutation_p.Q381*|ARMC8_uc003esc.1_Nonsense_Mutation_p.Q181*|ARMC8_uc003esf.1_5'UTR	NM_015396	NP_056211	Q8IUR7	ARMC8_HUMAN	armadillo repeat containing 8 isoform 2	423	ARM 9.						binding				0						AACCAGTTTCCAGGATCATGC	0.398													12	71					0	0	0.001855	0	0		T	137983022	T	T	137983022	4	4	35	1	0	0	0	0	0	1	0	0	958	595	21	4	1345	4	ARMC8	3	137983022	Nonsense_Mutation	SNP	C	TCGA-BR-6564-01A-12D-1882-08	87597705	137983022	60039408	11	32047											
MIER3	166968	broad.mit.edu	37	chr5	56234714	56234714	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgctcacacttactttgTctagtgtcatgtctggtagt	9	16	8	8	0	4	0	2	0	2	0	4	0	4	0	0	1	2	2	0	1	4	4			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr5:56234714T>A	uc003jrd.1	-	4	336	c.311A>T	c.(310-312)GAC>GTC	p.D104V	MIER3_uc003jqz.1_Missense_Mutation_p.D41V|MIER3_uc003jra.1_Missense_Mutation_p.D104V|MIER3_uc003jrb.1_5'UTR|MIER3_uc003jrc.1_Missense_Mutation_p.D109V	NM_152622	NP_689835	Q7Z3K6	MIER3_HUMAN	mesoderm induction early response 1, family	104					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Lung NSC(810;4.65e-05)|Prostate(74;0.0253)|Breast(144;0.0503)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;1.24e-37)		ACTTACTTTGTCTAGTGTCAT	0.353													12	96					0	0	0.001855	0	0		A	56234714	A	A	56234714	3	1	35	1	0	0	0	0	1	0	0	0	9600	1667	58	5	1378	5	MIER3	5	56234714	Missense_Mutation	SNP	T	TCGA-BR-6564-01A-12D-1882-08		56234714	124680546	12	32048											
BRD8	10902	broad.mit.edu	37	chr5	137485477	137485477	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcccctttggattcttgctGagcctccccctaggaatgcc	5	12	8	16	0	1	1	0	1	1	0	3	3	3	3	6	2	3	1	6	2	2	4			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr5:137485477G>A	uc003lcf.1	-	23	3185	c.3130C>T	c.(3130-3132)CAG>TAG	p.Q1044*	BRD8_uc003lcc.1_Intron	NM_139199	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 2	1044					cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GATTCTTGCTGAGCCTCCCCC	0.453													8	81					0	0	0.006214	0	0		A	137485477	A	A	137485477	4	1	35	1	0	0	0	0	0	1	0	0	1509	1299	45	4	597	4	BRD8	5	137485477	Nonsense_Mutation	SNP	G	TCGA-BR-6564-01A-12D-1882-08	81250763	137485477	43429783	13	32049											
SPDEF	25803	broad.mit.edu	37	chr6	34508912	34508912	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agccggtattggtgctctgtCcacaggagccacttctgcac	7	10	11	13	1	2	0	0	0	2	0	3	1	3	1	3	3	4	3	3	3	1	3			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr6:34508912C>T	uc003ojq.1	-	3	898	c.483G>A	c.(481-483)TGG>TGA	p.W161*	SPDEF_uc011dsq.1_Nonsense_Mutation_p.W161*	NM_012391	NP_036523	O95238	SPDEF_HUMAN	SAM pointed domain containing ets transcription	161	PNT.				negative regulation of survival gene product expression|negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(3)|ovary(1)|central_nervous_system(1)	5						GGTGCTCTGTCCACAGGAGCC	0.652													6	15					0	0	0.001168	0	0		T	34508912	T	T	34508912	4	4	35	1	0	0	0	0	0	1	0	0	15051	856	30	4	540	4	SPDEF	6	34508912	Nonsense_Mutation	SNP	C	TCGA-BR-6564-01A-12D-1882-08		34508912	136606155	14	32050											
ATRNL1	26033	broad.mit.edu	37	chr10	117061471	117061471	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtatgtggtgcagcagtacGaaacgatgtgttgactctaa	11	12	12	6	2	1	1	0	1	1	0	1	3	1	1	0	1	4	5	0	1	4	4			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr10:117061471G>A	uc001lcg.2	+	17	3122	c.2736G>A	c.(2734-2736)ACG>ACA	p.T912T	ATRNL1_uc010qsm.1_Silent_p.T87T|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	912	PSI 4.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		GCAGCAGTACGAAACGATGTG	0.448													17	69					0	0	0.004007	0	0		A	117061471	A	A	117061471	2	1	35	1	0	0	0	0	0	0	0	1	1208	1045	37	1		1	ATRNL1	10	117061471	Silent	SNP	G	TCGA-BR-6564-01A-12D-1882-08		117061471	18473276	15	32051											
MRGPRX2	117194	broad.mit.edu	37	chr11	19077900	19077900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaagaagggcttggtcatttCcattcactgttgtactttct	8	16	9	8	0	3	1	2	0	1	1	4	2	4	1	1	2	1	3	1	2	3	6			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr11:19077900C>T	uc001mph.2	-	2	138	c.50G>A	c.(49-51)GGA>GAA	p.G17E		NM_054030	NP_473371	Q96LB1	MRGX2_HUMAN	MAS-related GPR, member X2	17	Extracellular (Potential).				sensory perception of pain|sleep	plasma membrane	G-protein coupled receptor activity|neuropeptide binding			ovary(1)	1						TTGGTCATTTCCATTCACTGT	0.522													40	318					0	0	0.009718	0	0		T	19077900	T	T	19077900	3	4	35	1	0	0	0	0	1	0	0	0	9785	855	30	4	946	4	MRGPRX2	11	19077900	Missense_Mutation	SNP	C	TCGA-BR-6564-01A-12D-1882-08		19077900	115928616	16	32052											
PDHX	8050	broad.mit.edu	37	chr11	35006231	35006231	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacttactccaatcataaaaGatgctgctgctaaaggtatc	14	12	6	9	0	1	1	1	0	0	1	3	1	2	1	1	1	5	4	1	1	8	5			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr11:35006231G>C	uc001mvt.2	+	9	1664	c.1138G>C	c.(1138-1140)GAT>CAT	p.D380H	PDHX_uc010rep.1_Missense_Mutation_p.D365H|PDHX_uc010req.1_Missense_Mutation_p.D153H	NM_003477	NP_003468	O00330	ODPX_HUMAN	pyruvate dehydrogenase complex, component X	380					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	acyltransferase activity			kidney(1)	1	all_epithelial(35;0.115)|Lung NSC(22;0.218)|all_lung(20;0.242)	all_hematologic(20;0.124)	STAD - Stomach adenocarcinoma(6;0.00113)			AATCATAAAAGATGCTGCTGC	0.388													10	109					0	0	0.006214	0	0		C	35006231	C	C	35006231	3	2	35	1	0	0	0	0	1	0	0	0	11686	942	33	5	1291	5	PDHX	11	35006231	Missense_Mutation	SNP	G	TCGA-BR-6564-01A-12D-1882-08	15928331	35006231	100000285	17	32053											
MRPL21	219927	broad.mit.edu	37	chr11	68665460	68665460	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccaaggtggtgaactcAgggatgttttaggaacatat	11	11	13	6	0	1	1	1	1	0	0	1	3	1	3	1	5	2	1	1	5	5	3			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr11:68665460A>G	uc001ooi.2	-	3	192	c.167T>C	c.(166-168)CTG>CCG	p.L56P	MRPL21_uc001ooh.2_5'UTR|MRPL21_uc010rqe.1_Missense_Mutation_p.L56P	NM_181514	NP_852615	Q7Z2W9	RM21_HUMAN	mitochondrial ribosomal protein L21 isoform d	56					translation	mitochondrion|ribosome	RNA binding|structural constituent of ribosome				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TGGTGAACTCAGGGATGTTTT	0.478													3	81					0	0	0.001168	0	0		G	68665460	G	G	68665460	3	3	35	1	0	0	0	0	1	0	0	0	9805	188	7	3	470	3	MRPL21	11	68665460	Missense_Mutation	SNP	A	TCGA-BR-6564-01A-12D-1882-08	33659229	68665460	66341056	18	32054											
PDE2A	5138	broad.mit.edu	37	chr11	72288493	72288493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccatccagatcaggcacctCgtactcctcatccaggaagt	10	8	8	15	1	2	1	2	0	0	1	6	2	5	2	5	2	1	2	5	2	2	1			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr11:72288493C>T	uc010rrc.1	-	31	3004	c.2761G>A	c.(2761-2763)GAG>AAG	p.E921K	PDE2A_uc001oso.2_Missense_Mutation_p.E900K|PDE2A_uc010rra.1_Missense_Mutation_p.E914K|PDE2A_uc001osn.2_Missense_Mutation_p.E665K|PDE2A_uc010rrb.1_Missense_Mutation_p.E912K|PDE2A_uc010rrd.1_Missense_Mutation_p.E806K	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	921					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	TCAGGCACCTCGTACTCCTCA	0.607													7	86					0	0	0.004482	0	0		T	72288493	T	T	72288493	3	4	35	1	0	0	0	0	1	0	0	0	11655	893	31	1	68	1	PDE2A	11	72288493	Missense_Mutation	SNP	C	TCGA-BR-6564-01A-12D-1882-08	3623033	72288493	62718023	19	32055											
NECAP1	25977	broad.mit.edu	37	chr12	8242546	8242546	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctagggcctctgactggaAattagaccagcctgattgga	10	10	11	10	0	1	3	0	2	1	1	2	5	2	5	4	3	1	0	4	3	3	3			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr12:8242546A>T	uc001qtx.2	+	2	188	c.110A>T	c.(109-111)AAA>ATA	p.K37I	NECAP1_uc001qty.2_5'UTR	NM_015509	NP_056324	Q8NC96	NECP1_HUMAN	NECAP endocytosis associated 1	37					endocytosis|protein transport	clathrin coated vesicle membrane|plasma membrane				ovary(1)	1				Kidney(36;0.0915)		TCTGACTGGAAATTAGACCAG	0.463													15	149					0	0	0.006122	0	0		T	8242546	T	T	8242546	3	4	35	1	0	0	0	0	1	0	0	0	10326	14	1	5	116	5	NECAP1	12	8242546	Missense_Mutation	SNP	A	TCGA-BR-6564-01A-12D-1882-08		8242546	125609349	20	32056											
SLC38A4	55089	broad.mit.edu	37	chr12	47172329	47172329	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttcacacttgtcatcactAtgagcttcatattctactcc	9	15	5	12	0	5	1	4	1	1	0	6	1	6	1	1	1	2	2	1	1	3	7			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr12:47172329A>G	uc001rpi.2	-	11	1347	c.948T>C	c.(946-948)CAT>CAC	p.H316H	SLC38A4_uc001rpj.2_Silent_p.H316H	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	316	Extracellular (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Lung SC(27;0.192)|Renal(347;0.236)					TGTCATCACTATGAGCTTCAT	0.453													7	69					0	0	0.001984	0	0		G	47172329	G	G	47172329	2	3	35	1	0	0	0	0	0	0	0	1	14631	446	16	3		3	SLC38A4	12	47172329	Silent	SNP	A	TCGA-BR-6564-01A-12D-1882-08	38929783	47172329	86679566	21	32057											
ZCCHC8	55596	broad.mit.edu	37	chr12	122967235	122967235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accacaattgaaacagtgagGctttggcctatttggtcaaa	13	11	9	8	0	1	2	1	2	0	0	1	2	1	2	2	3	1	1	2	3	4	4			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr12:122967235G>A	uc001ucn.2	-	8	810	c.679C>T	c.(679-681)CCT>TCT	p.P227S	ZCCHC8_uc001ucm.2_5'UTR|ZCCHC8_uc009zxp.2_5'UTR|ZCCHC8_uc009zxq.2_5'UTR	NM_017612	NP_060082	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	227	CCHC-type.					catalytic step 2 spliceosome	nucleic acid binding|protein binding|zinc ion binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.25e-05)|Epithelial(86;0.000113)|BRCA - Breast invasive adenocarcinoma(302;0.202)		AAACAGTGAGGCTTTGGCCTA	0.308													6	26					0	0	0.00308	0	0		A	122967235	A	A	122967235	3	1	35	1	0	0	0	0	1	0	0	0	17619	1203	42	2	1472	2	ZCCHC8	12	122967235	Missense_Mutation	SNP	G	TCGA-BR-6564-01A-12D-1882-08	75794906	122967235	10884660	22	32058											
ZNF75A	7627	broad.mit.edu	37	chr16	3367328	3367328	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaggcaaagaaaatcattTtgatatgcacagagtgggaa	17	8	11	5	0	1	3	1	1	0	2	1	4	1	4	0	2	2	3	0	2	5	3			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr16:3367328T>G	uc002cut.3	+	6	876	c.350T>G	c.(349-351)TTT>TGT	p.F117C	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	117					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						GAAAATCATTTTGATATGCAC	0.393													10	57					0	0	0.006214	0	0		G	3367328	G	G	3367328	3	3	35	1	0	0	0	0	1	0	0	0	18158	1841	64	5	360	5	ZNF75A	16	3367328	Missense_Mutation	SNP	T	TCGA-BR-6564-01A-12D-1882-08		3367328	86987425	23	32059											
NDE1	54820	broad.mit.edu	37	chr16	15790648	15790648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtggcccagcctctgggcGgagcagcaagaacagagatg	11	4	16	10	1	1	2	0	0	1	2	1	4	1	3	2	4	4	2	2	4	2	0			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr16:15790648G>A	uc002ddt.1	+	7	921	c.878G>A	c.(877-879)CGG>CAG	p.R293Q	NDE1_uc010uzy.1_Missense_Mutation_p.R293Q|NDE1_uc002dds.2_Missense_Mutation_p.R293Q	NM_017668	NP_060138	Q9NXR1	NDE1_HUMAN	nuclear distribution gene E homolog 1	293					cell differentiation|cell division|centrosome duplication|establishment of chromosome localization|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|mitotic prometaphase|nervous system development	cleavage furrow|condensed chromosome kinetochore|cytosol|microtubule|spindle pole centrosome	microtubule binding			ovary(1)	1						GCCTCTGGGCGGAGCAGCAAG	0.577													3	78					0	0	0.004672	0	0		A	15790648	A	A	15790648	3	1	35	1	0	0	0	0	1	0	0	0	10262	1116	39	1	904	1	NDE1	16	15790648	Missense_Mutation	SNP	G	TCGA-BR-6564-01A-12D-1882-08	12423320	15790648	74564105	24	32060											
PAPD5	64282	broad.mit.edu	37	chr16	50258847	50258847	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagatgaagttgccacataTagagattggatatcaaagca	17	9	9	6	0	1	3	1	1	0	2	1	5	1	4	1	1	2	2	1	1	5	5			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr16:50258847T>C	uc010vgo.1	+	10	1544	c.1509T>C	c.(1507-1509)TAT>TAC	p.Y503Y	PAPD5_uc010cbi.2_RNA|PAPD5_uc002efz.2_Silent_p.Y294Y|PAPD5_uc002ega.2_Silent_p.Y294Y	NM_001040284	NP_001035374	Q8NDF8	PAPD5_HUMAN	PAP associated domain containing 5 isoform a	424					cell division|DNA replication|histone mRNA catabolic process|mitosis	cytoplasm|nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding				0		all_cancers(37;0.0452)		BRCA - Breast invasive adenocarcinoma(181;0.0843)|GBM - Glioblastoma multiforme(240;0.231)		TTGCCACATATAGAGATTGGA	0.378													21	140					0	0	0.00278	0	0		C	50258847	C	C	50258847	2	2	35	1	0	0	0	0	0	0	0	1	11444	1413	49	3		3	PAPD5	16	50258847	Silent	SNP	T	TCGA-BR-6564-01A-12D-1882-08	34468199	50258847	40095906	25	32061											
PDP2	57546	broad.mit.edu	37	chr16	66918510	66918510	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtcccaaattcagtgttgcGgtttgagagcaaccagctgg	10	10	12	9	1	1	1	1	1	0	1	2	2	2	1	2	2	4	4	2	2	2	3			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr16:66918510G>A	uc002eqk.1	+	2	485	c.323G>A	c.(322-324)CGG>CAG	p.R108Q		NM_020786	NP_065837	Q9P2J9	PDP2_HUMAN	pyruvate dehydrogenase phosphatase isoenzyme 2	108					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity|metal ion binding			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		TCAGTGTTGCGGTTTGAGAGC	0.522													4	63					0	0	0.009096	0	0		A	66918510	A	A	66918510	3	1	35	1	0	0	0	0	1	0	0	0	11705	1116	39	1	325	1	PDP2	16	66918510	Missense_Mutation	SNP	G	TCGA-BR-6564-01A-12D-1882-08	16659663	66918510	23436243	26	32062											
ELAC2	60528	broad.mit.edu	37	chr17	12903546	12903546	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaagttgggaagctgcagCgcctcaactatgaattcctc	10	10	11	10	1	1	1	1	1	0	0	3	3	2	3	2	2	4	3	2	2	5	3			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr17:12903546C>T	uc002gnz.3	-	15	1445	c.1350G>A	c.(1348-1350)GCG>GCA	p.A450A	ELAC2_uc002gnu.3_5'UTR|ELAC2_uc002gnv.3_Silent_p.A78A|ELAC2_uc002gnw.3_Silent_p.A108A|ELAC2_uc002gnx.3_Silent_p.A210A|ELAC2_uc010vvo.1_Silent_p.A248A|ELAC2_uc010vvp.1_Silent_p.A431A|ELAC2_uc010vvq.1_Silent_p.A449A|ELAC2_uc010vvr.1_Silent_p.A410A	NM_018127	NP_060597	Q9BQ52	RNZ2_HUMAN	elaC homolog 2 isoform 1	450					tRNA processing	nucleus	endonuclease activity|metal ion binding|protein binding				0						GAAGCTGCAGCGCCTCAACTA	0.572									Hereditary_Prostate_Cancer				11	59					0	0	0.013537	0	0		T	12903546	T	T	12903546	2	4	35	1	0	0	0	0	0	0	0	1	5055	755	27	1		1	ELAC2	17	12903546	Silent	SNP	C	TCGA-BR-6564-01A-12D-1882-08		12903546	68291664	27	32063											
FAM83G	644815	broad.mit.edu	37	chr17	18874692	18874692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaggggtctttgcggtcccGgggggcttgagccctccgtt	2	11	16	12	3	1	1	0	1	1	0	3	1	3	1	3	6	2	2	3	6	1	4			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr17:18874692G>A	uc002guw.2	-	6	2619	c.2452C>T	c.(2452-2454)CGG>TGG	p.R818W	SLC5A10_uc002gur.1_Intron|SLC5A10_uc002guu.1_Intron|SLC5A10_uc002gut.1_Intron|SLC5A10_uc002guv.1_Intron|SLC5A10_uc010vyl.1_Intron	NM_001039999	NP_001035088	A6ND36	FA83G_HUMAN	hypothetical protein LOC644815	818										ovary(1)|central_nervous_system(1)	2						TTGCGGTCCCGGGGGGCTTGA	0.632													16	109					0	0	0.004007	0	0		A	18874692	A	A	18874692	3	1	35	1	0	0	0	0	1	0	0	0	5653	1115	39	1	23	1	FAM83G	17	18874692	Missense_Mutation	SNP	G	TCGA-BR-6564-01A-12D-1882-08	5971146	18874692	62320518	28	32064											
ZNRF4	148066	broad.mit.edu	37	chr19	5456633	5456633	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgaggacccctccctaccGggccaccggccccccatctg	6	4	10	21	3	1	0	0	0	1	0	2	3	2	1	9	3	1	0	9	3	1	1			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr19:5456633G>A	uc002mca.3	+	1	1208	c.1131G>A	c.(1129-1131)CCG>CCA	p.P377P		NM_181710	NP_859061	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4 precursor	377	Cytoplasmic (Potential).					integral to membrane	zinc ion binding	p.P377Q(1)		large_intestine(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		CCTCCCTACCGGGCCACCGGC	0.682													11	79					0	0	0.008291	0	0		A	5456633	A	A	5456633	2	1	35	1	0	0	0	0	0	0	0	1	18239	1103	39	1		1	ZNRF4	19	5456633	Silent	SNP	G	TCGA-BR-6564-01A-12D-1882-08		5456633	53672350	29	32065											
KHSRP	8570	broad.mit.edu	37	chr19	6417055	6417055	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcgtgctcgcacctgtctggGggccccattatatgagcaat	7	10	12	12	2	1	1	0	1	1	0	2	1	1	1	3	2	2	3	3	2	3	2			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr19:6417055G>C	uc002mer.3	-	12	1235	c.1125C>G	c.(1123-1125)CCC>CCG	p.P375P		NM_003685	NP_003676	Q92945	FUBP2_HUMAN	KH-type splicing regulatory protein	375	Gly-rich.|KH 3.				mRNA processing|mRNA transport|regulation of transcription, DNA-dependent|RNA splicing, via transesterification reactions|transcription, DNA-dependent	cytosol|nucleus	DNA binding|protein binding|RNA binding			skin(1)	1						ACCTGTCTGGGGGCCCCATTA	0.622													11	96					0	0	0.013537	0	0		C	6417055	C	C	6417055	2	2	35	1	0	0	0	0	0	0	0	1	8167	1219	43	5		5	KHSRP	19	6417055	Silent	SNP	G	TCGA-BR-6564-01A-12D-1882-08	960422	6417055	52711928	30	32066											
C3	718	broad.mit.edu	37	chr19	6697719	6697719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctcggatttccacctgctCgtttcgaacaacagagtagg	9	10	11	11	3	0	1	0	0	0	1	4	3	1	2	2	3	3	4	2	3	3	3			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr19:6697719C>T	uc002mfm.2	-	20	2589	c.2527G>A	c.(2527-2529)GAG>AAG	p.E843K		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	843					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TCCACCTGCTCGTTTCGAACA	0.587													6	55					0	0	0.001168	0	0		T	6697719	T	T	6697719	3	4	35	1	0	0	0	0	1	0	0	0	2207	893	31	1	2552	1	C3	19	6697719	Missense_Mutation	SNP	C	TCGA-BR-6564-01A-12D-1882-08	280664	6697719	52431264	31	32067											
CPAMD8	27151	broad.mit.edu	37	chr19	17104353	17104353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgccttaatctggaccGtcaccccctcagctgggctg	5	10	10	16	1	4	0	2	0	2	0	4	1	4	1	4	2	2	3	4	2	1	1			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr19:17104353G>A	uc002nfb.2	-	12	1312	c.1280C>T	c.(1279-1281)ACG>ATG	p.T427M		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	380						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						AATCTGGACCGTCACCCCCTC	0.443													7	63					0	0	0.00308	0	0		A	17104353	A	A	17104353	3	1	35	1	0	0	0	0	1	0	0	0	3798	1145	40	1	4642	1	CPAMD8	19	17104353	Missense_Mutation	SNP	G	TCGA-BR-6564-01A-12D-1882-08	10406634	17104353	42024630	32	32068											
TMEM143	55260	broad.mit.edu	37	chr19	48836573	48836573	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggggtgggtacaatcccAtgctgggggtcagggcctgc	5	7	18	11	1	1	0	1	0	0	0	2	0	2	0	3	6	3	2	3	6	2	1			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chr19:48836573A>G	uc002pix.1	-	8	1292	c.1283T>C	c.(1282-1284)ATG>ACG	p.M428T	TMEM143_uc002piw.1_RNA|TMEM143_uc002piy.1_Missense_Mutation_p.M393T|TMEM143_uc010xzn.1_Missense_Mutation_p.M363T|TMEM143_uc010elw.1_Missense_Mutation_p.M328T|TMEM143_uc010xzo.1_Missense_Mutation_p.M218T	NM_018273	NP_060743	Q96AN5	TM143_HUMAN	transmembrane protein 143	428						integral to membrane|mitochondrion					0		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000149)|all cancers(93;0.000198)|Epithelial(262;0.0151)|GBM - Glioblastoma multiforme(486;0.0157)		GTACAATCCCATGCTGGGGGT	0.627													22	89					0	0	0.00333	0	0		G	48836573	G	G	48836573	3	3	35	1	0	0	0	0	1	0	0	0	16082	217	8	3	100	3	TMEM143	19	48836573	Missense_Mutation	SNP	A	TCGA-BR-6564-01A-12D-1882-08	31732220	48836573	10292410	33	32069											
FRMPD4	9758	broad.mit.edu	37	chrX	12735849	12735849	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcttgcctccaaagtcctcGcacgccctggctgctaggcc	5	8	11	17	2	0	0	0	0	0	0	3	0	2	0	5	3	2	4	5	3	2	2			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chrX:12735849G>A	uc004cuz.1	+	16	3410	c.2904G>A	c.(2902-2904)TCG>TCA	p.S968S	FRMPD4_uc011mij.1_Silent_p.S960S	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	968					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						CAAAGTCCTCGCACGCCCTGG	0.602													26	151					0	0	0.00333	0	0		A	12735849	A	A	12735849	2	1	35	1	0	0	0	0	0	0	0	1	6073	1074	38	1		1	FRMPD4	23	12735849	Silent	SNP	G	TCGA-BR-6564-01A-12D-1882-08		12735849	142534711	34	32070											
OFD1	8481	broad.mit.edu	37	chrX	13753462	13753462	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggggtatactggatacactCaaggtatcggatttaggcgt	10	11	13	7	3	1	0	1	0	0	0	2	2	1	2	0	6	2	2	0	6	6	6			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chrX:13753462C>T	uc004cvp.3	+	2	467	c.108C>T	c.(106-108)CTC>CTT	p.L36L	OFD1_uc004cvr.3_5'UTR|OFD1_uc011mil.1_5'UTR|OFD1_uc004cvq.3_5'UTR|OFD1_uc010nen.2_Silent_p.L35L|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Silent_p.L35L|OFD1_uc004cvv.3_Silent_p.L35L|TRAPPC2_uc010nek.1_5'Flank|TRAPPC2_uc010nel.1_5'Flank|TRAPPC2_uc010nem.1_5'Flank	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	36					cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0						TGGATACACTCAAGGTATCGG	0.393													6	64					0	0	0.00308	0	0		T	13753462	T	T	13753462	2	4	35	1	0	0	0	0	0	0	0	1	10857	813	29	4		4	OFD1	23	13753462	Silent	SNP	C	TCGA-BR-6564-01A-12D-1882-08	1017613	13753462	141517098	35	32071											
ZFX	7543	broad.mit.edu	37	chrX	24228401	24228401	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcgagaggttttttgaaaagGcacatgaaaaaccatcccga	15	9	9	8	2	0	3	0	2	0	1	2	5	1	3	2	2	1	2	2	2	4	3			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chrX:24228401G>A	uc004dbf.2	+	9	1584	c.1326G>A	c.(1324-1326)AGG>AGA	p.R442R	ZFX_uc004dbe.2_3'UTR|ZFX_uc011mjv.1_Silent_p.R481R|ZFX_uc010nfz.2_Silent_p.R98R	NM_003410	NP_003401	P17010	ZFX_HUMAN	zinc finger protein, X-linked	442	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(2)	2						TTTTGAAAAGGCACATGAAAA	0.403													18	124					0	0	0.008871	0	0		A	24228401	A	A	24228401	2	1	35	1	0	0	0	0	0	0	0	1	17686	1194	42	2		2	ZFX	23	24228401	Silent	SNP	G	TCGA-BR-6564-01A-12D-1882-08	10474939	24228401	131042159	36	32072											
MED12	9968	broad.mit.edu	37	chrX	70357076	70357076	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccgtcctgtgcgcttacCaatgcagaagctgcccaccc	9	8	8	16	2	0	1	0	0	0	1	1	1	1	1	5	0	6	3	5	0	4	2			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chrX:70357076C>A	uc004dyy.2	+	39	5790	c.5591C>A	c.(5590-5592)CCA>CAA	p.P1864Q	MED12_uc011mpq.1_Missense_Mutation_p.P1864Q|MED12_uc004dyz.2_Missense_Mutation_p.P1864Q|MED12_uc004dza.2_Missense_Mutation_p.P1711Q|MED12_uc010nla.2_Missense_Mutation_p.P490Q	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1864	Interaction with CTNNB1 and GLI3.				androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					GTGCGCTTACCAATGCAGAAG	0.567													10	70					7.48243e-07	9.11496e-07	0.006214	1	0		A	70357076	A	A	70357076	3	1	35	1	0	0	0	0	1	0	0	0	9446	594	21	5	5745	5	MED12	23	70357076	Missense_Mutation	SNP	C	TCGA-BR-6564-01A-12D-1882-08	46128675	70357076	84913484	37	32073											
ZCCHC13	389874	broad.mit.edu	37	chrX	73524180	73524180	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagaggaggagctggagggCgaagaggtggaggccatggc	10	4	21	6	1	0	2	0	0	0	2	0	7	0	6	1	8	1	1	1	8	2	1			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chrX:73524180C>T	uc004ebs.3	+	1	156	c.79C>T	c.(79-81)CGA>TGA	p.R27*		NM_203303	NP_976048	Q8WW36	ZCH13_HUMAN	zinc finger, CCHC domain containing 13	27							nucleic acid binding|zinc ion binding				0						AGCTGGAGGGCGAAGAGGTGG	0.552													4	40					0	0	0.009096	0	0		T	73524180	T	T	73524180	4	4	35	1	0	0	0	0	0	1	0	0	17607	760	27	1	81	1	ZCCHC13	23	73524180	Nonsense_Mutation	SNP	C	TCGA-BR-6564-01A-12D-1882-08	3167104	73524180	81746380	38	32074											
MCART6	401612	broad.mit.edu	37	chrX	103349655	103349655	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggctatcataagtcccaaAcagaagagtcccttgcaacg	14	7	8	12	1	1	2	1	0	0	2	3	2	3	2	2	1	3	2	2	1	5	3			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chrX:103349655A>T	uc004elu.2	-	2	467	c.286T>A	c.(286-288)TTT>ATT	p.F96I		NM_001012755	NP_001012773	Q5H9E4	MCAR6_HUMAN	mitochondrial carrier triple repeat 6	96	Helical; Name=2; (Potential).|Solcar 1.				transport	integral to membrane|mitochondrial inner membrane					0						TAAGTCCCAAACAGAAGAGTC	0.567													15	108					0	0	0.003163	0	0		T	103349655	T	T	103349655	3	4	35	1	0	0	0	0	1	0	0	0	9389	43	2	5	641	5	MCART6	23	103349655	Missense_Mutation	SNP	A	TCGA-BR-6564-01A-12D-1882-08	29825475	103349655	51920905	39	32075											
AMOT	154796	broad.mit.edu	37	chrX	112035177	112035177	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcctgctgcatcttctcCaccttgtcaacgtacacttg	7	12	8	14	1	3	0	1	0	2	0	4	0	3	0	3	1	4	3	3	1	2	4			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chrX:112035177C>T	uc004epr.2	-	6	1809	c.1809G>A	c.(1807-1809)GTG>GTA	p.V603V	AMOT_uc004eps.2_Silent_p.V194V	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	603	Potential.				actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						GCATCTTCTCCACCTTGTCAA	0.483													10	129					0	0	0.006214	0	0		T	112035177	T	T	112035177	2	4	35	1	0	0	0	0	0	0	0	1	582	581	21	4		4	AMOT	23	112035177	Silent	SNP	C	TCGA-BR-6564-01A-12D-1882-08	8685522	112035177	43235383	40	32076											
DOCK11	139818	broad.mit.edu	37	chrX	117810670	117810670	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaaagtttggtacggaGaatgtcaaaataattcagga	16	10	12	3	1	2	2	2	1	0	1	2	4	2	3	0	4	1	2	0	4	7	4			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chrX:117810670G>T	uc004eqp.2	+	48	5493	c.5430G>T	c.(5428-5430)GAG>GAT	p.E1810D	DOCK11_uc004eqq.2_Missense_Mutation_p.E1589D	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1810	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						TTGGTACGGAGAATGTCAAAA	0.363													6	63					8.12818e-05	9.72479e-05	0.001984	1	0		T	117810670	T	T	117810670	3	4	35	1	0	0	0	0	1	0	0	0	4692	933	33	5	5620	5	DOCK11	23	117810670	Missense_Mutation	SNP	G	TCGA-BR-6564-01A-12D-1882-08	5775493	117810670	37459890	41	32077											
SOX3	6658	broad.mit.edu	37	chrX	139586762	139586762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttctccagggccattttgCgccgctgcccgcgggaccat	4	9	13	15	4	1	0	0	0	1	0	2	1	1	1	5	3	2	2	5	3	0	3			TCGA-BR-6564-01A-12D-1882-08	TCGA-BR-6564-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e66eb75-097c-4ad8-b2b3-9f5849dfd02f	ead5afab-44fa-4e35-ae10-89c8fdf61757	g.chrX:139586762C>T	uc004fbd.1	-	1	464	c.464G>A	c.(463-465)CGC>CAC	p.R155H		NM_005634	NP_005625	P41225	SOX3_HUMAN	SRY (sex determining region Y)-box 3	155	HMG box.				face development|hypothalamus development|negative regulation of neuron differentiation|pituitary gland development|regulation of transcription, DNA-dependent|sensory organ development|sex determination|transcription, DNA-dependent	nucleus	DNA binding			pancreas(1)	1	Acute lymphoblastic leukemia(192;7.65e-05)					GGCCATTTTGCGCCGCTGCCC	0.632													4	93					0	0	0.009096	0	0		T	139586762	T	T	139586762	3	4	35	1	0	0	0	0	1	0	0	0	14976	768	27	1	880	1	SOX3	23	139586762	Missense_Mutation	SNP	C	TCGA-BR-6564-01A-12D-1882-08	21776092	139586762	15683798	42	32078											
ACTRT2	140625	broad.mit.edu	37	chr1	2938986	2938986	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tgagggagtacaagctgcccGacgggaacatcatcagcctc	11	6	12	12	2	2	1	2	1	0	0	3	4	2	3	2	2	5	2	2	2	3	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:2938986G>C	uc001ajz.2	+	1	941	c.736G>C	c.(736-738)GAC>CAC	p.D246H		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	246						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		CAAGCTGCCCGACGGGAACAT	0.652													4	50					0	0	0.009096	0	0		C	2938986	C	C	2938986	3	2	36	1	0	0	0	0	1	0	0	0	219	1058	37	5	738	5	ACTRT2	1	2938986	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08		2938986	246311635	1	32079											
MFN2	9927	broad.mit.edu	37	chr1	12069766	12069766	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcttgactcacttcagagCaaagcaaagctgctcaggtg	11	10	10	10	0	4	2	3	1	1	1	4	2	4	2	0	1	4	5	0	1	2	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:12069766C>G	uc001atn.3	+	18	2640	c.2187C>G	c.(2185-2187)AGC>AGG	p.S729R	MFN2_uc009vni.2_Missense_Mutation_p.S729R	NM_014874	NP_055689	O95140	MFN2_HUMAN	mitofusin 2	729	Cytoplasmic (Potential).|Potential.				blood coagulation|mitochondrial fusion|mitochondrial membrane organization|mitochondrion localization|negative regulation of Ras protein signal transduction|negative regulation of smooth muscle cell proliferation|protein targeting to mitochondrion	cytosol|integral to membrane|intrinsic to mitochondrial outer membrane	GTP binding|GTPase activity|ubiquitin protein ligase binding			ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.25e-06)|COAD - Colon adenocarcinoma(227;0.000302)|BRCA - Breast invasive adenocarcinoma(304;0.000329)|Kidney(185;0.000896)|KIRC - Kidney renal clear cell carcinoma(229;0.00274)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		CACTTCAGAGCAAAGCAAAGC	0.567													4	72					0	0	0.009096	0	0		G	12069766	G	G	12069766	3	3	36	1	0	0	0	0	1	0	0	0	9542	709	25	5	2249	5	MFN2	1	12069766	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	9130780	12069766	237180855	2	32080											
LOC440563	440563	broad.mit.edu	37	chr1	13183419	13183419	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttttgccccttcgtgaggTgtttcctgatatgcgctggt	4	16	11	10	2	0	2	0	2	0	0	2	2	1	2	3	2	2	2	3	2	1	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:13183419T>G	uc010obg.1	-	1	549	c.454A>C	c.(454-456)ACC>CCC	p.T152P		NM_001136561	NP_001130033	B2RXH8	B2RXH8_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	152						ribonucleoprotein complex	nucleic acid binding|nucleotide binding				0						CTTCGTGAGGTGTTTCCTGAT	0.498													45	448					0	0	0.01441	0	0		G	13183419	G	G	13183419	3	3	36	1	0	0	0	0	1	0	0	0	8897	1696	59	5	431	5	LOC440563	1	13183419	Missense_Mutation	SNP	T	TCGA-BR-6565-01A-11D-1800-08	1113653	13183419	236067202	3	32081											
CSMD2	114784	broad.mit.edu	37	chr1	34182101	34182101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtggaaagtgaagaacacaCctgccaagagaccagagggt	15	5	13	8	0	0	4	0	1	0	3	0	6	0	5	3	2	2	0	3	2	4	0			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:34182101C>T	uc001bxn.1	-	20	2911	c.2882G>A	c.(2881-2883)GGT>GAT	p.G961D	CSMD2_uc001bxm.1_Missense_Mutation_p.G1001D	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	961	Extracellular (Potential).|CUB 6.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GAAGAACACACCTGCCAAGAG	0.522													3	14					0	0	0.004672	0	0		T	34182101	T	T	34182101	3	4	36	1	0	0	0	0	1	0	0	0	3948	521	18	4	7781	4	CSMD2	1	34182101	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	20998682	34182101	215068520	4	32082											
DIO1	1733	broad.mit.edu	37	chr1	54360179	54360179	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaactgcccggtggtccGcctctcaggacagaggtgca	8	6	12	15	2	1	1	1	0	1	1	3	2	2	2	4	4	3	1	4	4	1	0			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:54360179G>A	uc010onx.1	+	1	319	c.296G>A	c.(295-297)CGC>CAC	p.R99H	DIO1_uc010onw.1_Intron|DIO1_uc009vzl.2_Missense_Mutation_p.R99H|DIO1_uc001cwb.2_Missense_Mutation_p.R99H|DIO1_uc010ony.1_Missense_Mutation_p.R99H|DIO1_uc001cwd.2_RNA|DIO1_uc001cwe.2_RNA|DIO1_uc001cwf.2_Intron|DIO1_uc001cwg.2_Intron	NM_000792	NP_000783	P49895	IOD1_HUMAN	deiodinase, iodothyronine, type I isoform a	99					hormone biosynthetic process|thyroid hormone generation	endoplasmic reticulum membrane|integral to membrane|plasma membrane	selenium binding|thyroxine 5'-deiodinase activity				0						CCGGTGGTCCGCCTCTCAGGA	0.562													4	32					0	0	0.009096	0	0		A	54360179	A	A	54360179	3	1	36	1	0	0	0	0	1	0	0	0	4530	1087	38	1	298	1	DIO1	1	54360179	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	20178078	54360179	194890442	5	32083											
GNG12	55970	broad.mit.edu	37	chr1	68171254	68171254	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgaggtccgctgatgccttCgaaacctgacatggagataa	12	9	11	9	2	0	4	0	3	0	1	2	6	1	4	3	2	2	1	3	2	2	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:68171254C>T	uc001dea.1	-	4	291	c.99G>A	c.(97-99)TCG>TCA	p.S33S		NM_018841	NP_061329	Q9UBI6	GBG12_HUMAN	G-protein gamma-12 subunit precursor	33					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	signal transducer activity				0						CTGATGCCTTCGAAACCTGAC	0.348													16	39					0	0	0.00499	0	0		T	68171254	T	T	68171254	2	4	36	1	0	0	0	0	0	0	0	1	6540	871	31	1		1	GNG12	1	68171254	Silent	SNP	C	TCGA-BR-6565-01A-11D-1800-08	13811075	68171254	181079367	6	32084											
LPPR4	9890	broad.mit.edu	37	chr1	99772187	99772187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcccatcatacagatcccgtCcactgaaggtgaaggcagtg	11	7	11	12	1	1	3	1	2	0	1	3	3	3	3	3	2	1	1	3	2	3	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:99772187C>T	uc001dse.2	+	7	2019	c.1913C>T	c.(1912-1914)TCC>TTC	p.S638F	LPPR4_uc010oue.1_Missense_Mutation_p.S580F	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	638							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		CAGATCCCGTCCACTGAAGGT	0.542													10	40					0	0	0.010729	0	0		T	99772187	T	T	99772187	3	4	36	1	0	0	0	0	1	0	0	0	8945	855	30	4	1939	4	LPPR4	1	99772187	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	31600933	99772187	149478434	7	32085											
COL11A1	1301	broad.mit.edu	37	chr1	103544369	103544369	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagataaaaggaaagactgAattcctttttttggttttac	14	16	7	4	0	0	3	0	1	0	2	1	4	1	4	1	2	1	1	1	2	6	8			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:103544369A>T	uc001dul.2	-	3	651	c.333T>A	c.(331-333)ATT>ATA	p.I111I	COL11A1_uc001dum.2_Silent_p.I111I|COL11A1_uc001dun.2_Silent_p.I111I|COL11A1_uc009weh.2_Silent_p.I111I	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	111	TSP N-terminal.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GGAAAGACTGAATTCCTTTTT	0.353													13	22					0	0	0.003163	0	0		T	103544369	T	T	103544369	2	4	36	1	0	0	0	0	0	0	0	1	3670	242	9	5		5	COL11A1	1	103544369	Silent	SNP	A	TCGA-BR-6565-01A-11D-1800-08	3772182	103544369	145706252	8	32086											
ALX3	257	broad.mit.edu	37	chr1	110607471	110607471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccgtctctggggccccctCggcagtccaagggcagctgg	4	6	15	16	2	1	0	0	0	1	0	4	0	2	0	4	5	1	3	4	5	1	0			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:110607471C>T	uc001dzb.2	-	2	420	c.332G>A	c.(331-333)CGA>CAA	p.R111Q		NM_006492	NP_006483	O95076	ALX3_HUMAN	aristaless-like homeobox 3	111						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(81;2.35e-05)|all_epithelial(167;7.69e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.015)|all cancers(265;0.0706)|Epithelial(280;0.0758)|Colorectal(144;0.113)|LUSC - Lung squamous cell carcinoma(189;0.135)		GGGGCCCCCTCGGCAGTCCAA	0.632													5	63					0	0	0.000602	0	0		T	110607471	T	T	110607471	3	4	36	1	0	0	0	0	1	0	0	0	557	884	31	1	711	1	ALX3	1	110607471	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	7063102	110607471	138643150	9	32087											
GJA5	2702	broad.mit.edu	37	chr1	147230319	147230319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctggccttactaagaCgtcgcttgtcactatgatag	8	13	10	10	2	1	2	1	1	0	1	2	2	1	2	1	1	3	3	1	1	4	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:147230319C>T	uc001eps.1	-	2	1169	c.1028G>A	c.(1027-1029)CGT>CAT	p.R343H	GJA5_uc001ept.1_Missense_Mutation_p.R343H	NM_181703	NP_859054	P36382	CXA5_HUMAN	connexin 40	343	Cytoplasmic (Potential).				angiogenesis|cell-cell junction assembly|muscle contraction	integral to membrane				ovary(1)	1	all_hematologic(923;0.0276)		LUSC - Lung squamous cell carcinoma(543;0.202)			CTTACTAAGACGTCGCTTGTC	0.542													12	84					0	0	0.010729	0	0		T	147230319	T	T	147230319	3	4	36	1	0	0	0	0	1	0	0	0	6419	536	19	1	52	1	GJA5	1	147230319	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	36622848	147230319	102020302	10	32088											
NUP210L	91181	broad.mit.edu	37	chr1	154127377	154127377	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccggcctggctctcggccGaagggtagcaacacctgtgg	7	6	14	14	3	1	0	0	0	1	0	2	1	1	0	4	5	2	3	4	5	3	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:154127377G>A	uc001fdw.2	-	1	216	c.144C>T	c.(142-144)TTC>TTT	p.F48F	NUP210L_uc010peh.1_Silent_p.F48F	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	48						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			GCTCTCGGCCGAAGGGTAGCA	0.582													4	43					0	0	0.009096	0	0		A	154127377	A	A	154127377	2	1	36	1	0	0	0	0	0	0	0	1	10780	1049	37	1		1	NUP210L	1	154127377	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	6897058	154127377	95123244	11	32089											
IGSF9	57549	broad.mit.edu	37	chr1	159906263	159906263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaggtgtagaccccagagCtgcctcgctctacccggcgg	6	6	14	15	3	1	2	0	0	1	2	2	2	1	2	4	4	3	4	4	4	2	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:159906263C>T	uc001fur.2	-	6	797	c.599G>A	c.(598-600)AGC>AAC	p.S200N	IGSF9_uc001fuq.2_Missense_Mutation_p.S200N	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	200	Ig-like 2.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			GACCCCAGAGCTGCCTCGCTC	0.662											OREG0013921	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	54					0	0	0.004482	0	0		T	159906263	T	T	159906263	3	4	36	1	0	0	0	0	1	0	0	0	7621	797	28	2	3004	2	IGSF9	1	159906263	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	5778886	159906263	89344358	12	32090											
TBX19	9095	broad.mit.edu	37	chr1	168260524	168260524	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaacggggaatgggtgccCgctggcaagccagaggtctc	8	6	16	11	2	2	1	1	0	1	1	3	2	2	2	2	5	3	2	2	5	3	0	rs148222296		TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:168260524C>T	uc001gfl.2	+	2	381	c.330C>T	c.(328-330)CCC>CCT	p.P110P	TBX19_uc001gfj.3_Silent_p.P41P	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	110	T-box.				anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					AATGGGTGCCCGCTGGCAAGC	0.597													17	106					0	0	0.004007	0	0		T	168260524	T	T	168260524	2	4	36	1	0	0	0	0	0	0	0	1	15679	639	23	1		1	TBX19	1	168260524	Silent	SNP	C	TCGA-BR-6565-01A-11D-1800-08	8354261	168260524	80990097	13	32091											
TNN	63923	broad.mit.edu	37	chr1	175087816	175087816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcactacacgtctgccaacGgagagaccagggaggttcca	11	6	12	12	2	1	1	0	0	1	1	2	4	2	3	3	3	4	2	3	3	2	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:175087816G>A	uc001gkl.1	+	11	2619	c.2506G>A	c.(2506-2508)GGA>AGA	p.G836R		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	836	Fibronectin type-III 7.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GTCTGCCAACGGAGAGACCAG	0.617													7	73					0	0	0.008291	0	0		A	175087816	A	A	175087816	3	1	36	1	0	0	0	0	1	0	0	0	16348	1117	39	1	2544	1	TNN	1	175087816	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	6827292	175087816	74162805	14	32092											
FAM129A	116496	broad.mit.edu	37	chr1	184787881	184787881	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccgagctcactggtcccAtgagctcctccaggatggat	8	9	10	14	1	1	1	1	1	0	0	5	4	5	3	4	3	2	2	4	3	0	0			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:184787881A>G	uc001gra.2	-	9	1258	c.1064T>C	c.(1063-1065)ATG>ACG	p.M355T	FAM129A_uc001grb.1_Missense_Mutation_p.M118T|FAM129A_uc009wyh.1_Missense_Mutation_p.M183T|FAM129A_uc009wyi.1_Missense_Mutation_p.M153T	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	355					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						CACTGGTCCCATGAGCTCCTC	0.532													18	172					0	0	0.007413	0	0		G	184787881	G	G	184787881	3	3	36	1	0	0	0	0	1	0	0	0	5447	217	8	3	1746	3	FAM129A	1	184787881	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	9700065	184787881	64462740	15	32093											
KIF14	9928	broad.mit.edu	37	chr1	200584676	200584676	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacttgtttcgtgtcagggtGttccacagttatttctttcc	6	18	8	9	1	2	0	1	0	1	0	5	0	4	0	2	1	1	3	2	1	2	6			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:200584676G>C	uc010ppk.1	-	3	1613	c.1174C>G	c.(1174-1176)CAC>GAC	p.H392D	KIF14_uc010ppj.1_5'UTR	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	392	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						GTGTCAGGGTGTTCCACAGTT	0.353													19	25					0	0	0.010504	0	0		C	200584676	C	C	200584676	3	2	36	1	0	0	0	0	1	0	0	0	8292	1377	48	5	3884	5	KIF14	1	200584676	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	15796795	200584676	48665945	16	32094											
TNNT2	7139	broad.mit.edu	37	chr1	201337322	201337322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcctcggtctcagcctctGcttcagcatcctcttccgct	3	14	6	18	2	5	0	2	0	4	0	10	0	7	0	4	1	3	3	4	1	0	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:201337322G>A	uc001gwf.2	-	6	200	c.131C>T	c.(130-132)GCA>GTA	p.A44V	TNNT2_uc001gwg.2_Missense_Mutation_p.A34V|TNNT2_uc001gwh.2_Missense_Mutation_p.A29V|TNNT2_uc001gwi.2_Missense_Mutation_p.A44V|TNNT2_uc009wzr.2_5'UTR|TNNT2_uc009wzs.1_5'Flank|TNNT2_uc001gwk.1_5'UTR|TNNT2_uc009wzt.1_Missense_Mutation_p.A34V|TNNT2_uc001gwl.1_RNA	NM_000364	NP_000355	P45379	TNNT2_HUMAN	troponin T type 2, cardiac isoform 1	44					ATP catabolic process|muscle filament sliding|negative regulation of ATPase activity|positive regulation of ATPase activity|regulation of heart contraction|response to calcium ion|response to calcium ion|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin binding|tropomyosin binding|troponin C binding|troponin I binding				0						CTCAGCCTCTGCTTCAGCATC	0.612													8	51					0	0	0.008291	0	0		A	201337322	A	A	201337322	3	1	36	1	0	0	0	0	1	0	0	0	16356	1319	46	2	816	2	TNNT2	1	201337322	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	752646	201337322	47913299	17	32095											
FAM177B	400823	broad.mit.edu	37	chr1	222920036	222920036	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaggaaaaggaggagcAgagcacaaattcaacacttg	18	4	13	6	0	1	2	1	0	0	2	1	6	1	6	0	4	3	2	0	4	5	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:222920036A>C	uc001hnt.2	+	3	415	c.149A>C	c.(148-150)CAG>CCG	p.Q50P	uc001hnr.1_Intron|FAM177B_uc009xeb.2_RNA	NM_207468	NP_997351	A6PVY3	F177B_HUMAN	hypothetical protein LOC400823	50										ovary(1)	1						aaggaggagCAGAGCACAAAT	0.353													3	29					0	0	0.004672	0	0		C	222920036	C	C	222920036	3	2	36	1	0	0	0	0	1	0	0	0	5513	188	7	5	151	5	FAM177B	1	222920036	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	21582714	222920036	26330585	18	32096											
OR2L3	391192	broad.mit.edu	37	chr1	248224383	248224383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcttcactatcccatcCgcatgagcaaaagaatgtgt	11	12	6	12	1	2	2	1	1	1	1	5	2	5	2	3	0	1	2	3	0	4	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr1:248224383C>T	uc001idx.1	+	1	400	c.400C>T	c.(400-402)CGC>TGC	p.R134C	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	134	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			CTATCCCATCCGCATGAGCAA	0.428													101	123					0	0	0.01441	0	0		T	248224383	T	T	248224383	3	4	36	1	0	0	0	0	1	0	0	0	11027	652	23	1	402	1	OR2L3	1	248224383	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	25304347	248224383	1026238	19	32097											
TPO	7173	broad.mit.edu	37	chr2	1500379	1500379	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttcatagacgacaagtgtgGcttcccagagagcgtggaga	11	9	13	8	2	1	3	1	0	0	3	2	6	2	3	1	2	1	1	1	2	2	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr2:1500379G>T	uc002qww.2	+	13	2319	c.2228G>T	c.(2227-2229)GGC>GTC	p.G743V	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Missense_Mutation_p.G686V|TPO_uc002qwr.2_Missense_Mutation_p.G743V|TPO_uc002qwx.2_Missense_Mutation_p.G686V|TPO_uc010yio.1_Missense_Mutation_p.G570V|TPO_uc010yip.1_Missense_Mutation_p.G743V|TPO_uc002qwy.1_Missense_Mutation_p.G83V|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	743	Extracellular (Potential).|Sushi.				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	GACAAGTGTGGCTTCCCAGAG	0.552													13	146					1.5842e-08	1.77891e-08	0.001855	1	0		T	1500379	T	T	1500379	3	4	36	1	0	0	0	0	1	0	0	0	16436	1203	42	5	2274	5	TPO	2	1500379	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08		1500379	241698994	20	32098											
APOB	338	broad.mit.edu	37	chr2	21238012	21238012	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggactctgtgatccaggagtCtattagcatacatatgcaag	12	11	10	8	0	2	1	0	1	2	0	3	3	3	3	1	2	3	2	1	2	5	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr2:21238012C>G	uc002red.2	-	23	3757	c.3629G>C	c.(3628-3630)AGA>ACA	p.R1210T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1210					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ATCCAGGAGTCTATTAGCATA	0.413													8	144					0	0	0.004482	0	0		G	21238012	G	G	21238012	3	3	36	1	0	0	0	0	1	0	0	0	785	913	32	5	10090	5	APOB	2	21238012	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	19737633	21238012	221961361	21	32099											
BIRC6	57448	broad.mit.edu	37	chr2	32640080	32640080	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attagctggaggtttattaaCatataaatctcctgctacct	12	15	6	8	0	1	0	0	0	1	0	2	1	1	1	2	2	4	3	2	2	7	7			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr2:32640080C>A	uc010ezu.2	+	10	1855	c.1721C>A	c.(1720-1722)ACA>AAA	p.T574K		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	574					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					GGTTTATTAACATATAAATCT	0.383													5	45					4.096e-09	4.65139e-09	0.001168	1	0		A	32640080	A	A	32640080	3	1	36	1	0	0	0	0	1	0	0	0	1439	478	17	5	1759	5	BIRC6	2	32640080	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	11402068	32640080	210559293	22	32100											
EPAS1	2034	broad.mit.edu	37	chr2	46607710	46607710	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctctcttccatggggggCagatccaatacccagtggcc	7	9	10	15	0	2	1	0	0	2	1	5	1	4	1	5	4	1	1	5	4	2	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr2:46607710C>T	uc002ruv.2	+	12	2387	c.1899C>T	c.(1897-1899)GGC>GGT	p.G633G	EPAS1_uc002ruw.2_Silent_p.G99G	NM_001430	NP_001421	Q99814	EPAS1_HUMAN	endothelial PAS domain protein 1	633					angiogenesis|myoblast cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|response to hypoxia	transcription factor complex	histone acetyltransferase binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription coactivator activity|transcription factor binding			ovary(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	LUSC - Lung squamous cell carcinoma(58;0.151)			CCATGGGGGGCAGATCCAATA	0.612													6	131					0	0	0.00308	0	0		T	46607710	T	T	46607710	2	4	36	1	0	0	0	0	0	0	0	1	5158	697	25	2		2	EPAS1	2	46607710	Silent	SNP	C	TCGA-BR-6565-01A-11D-1800-08	13967630	46607710	196591663	23	32101											
HSPC159	29094	broad.mit.edu	37	chr2	64685502	64685502	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttaccatcgcattcaaacGttatctgcaattgacaccat	12	14	4	11	2	2	1	1	1	1	0	3	1	2	1	2	0	3	3	2	0	4	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr2:64685502G>A	uc002scy.3	+	5	812	c.459G>A	c.(457-459)ACG>ACA	p.T153T		NM_014181	NP_054900	Q3ZCW2	LEGL_HUMAN	galectin-related protein	153	Galectin.					intracellular	sugar binding				0						GCATTCAAACGTTATCTGCAA	0.403													16	185					0	0	0.004007	0	0		A	64685502	A	A	64685502	2	1	36	1	0	0	0	0	0	0	0	1	7443	1132	40	1		1	HSPC159	2	64685502	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	18077792	64685502	178513871	24	32102											
GFPT1	2673	broad.mit.edu	37	chr2	69569333	69569333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaataagaatcaaacgcCggcatctctggatctccttt	13	10	7	11	2	3	1	1	0	2	1	5	2	3	2	2	2	2	2	2	2	5	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr2:69569333C>T	uc002sfh.2	-	12	1279	c.1100G>A	c.(1099-1101)CGG>CAG	p.R367Q		NM_002056	NP_002047	Q06210	GFPT1_HUMAN	glucosamine-fructose-6-phosphate	385	SIS 1.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			skin(1)	1						AATCAAACGCCGGCATCTCTG	0.333													32	315					0	0	0.013726	0	0		T	69569333	T	T	69569333	3	4	36	1	0	0	0	0	1	0	0	0	6360	652	23	1	977	1	GFPT1	2	69569333	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	4883831	69569333	173630040	25	32103											
SPR	6697	broad.mit.edu	37	chr2	73118535	73118535	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccgtggacccagacatgCgaaaagggctgcaggagctg	10	5	14	12	2	0	1	0	0	0	1	1	4	1	3	3	3	3	3	3	3	2	0			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr2:73118535C>T	uc002sik.2	+	3	705	c.655C>T	c.(655-657)CGA>TGA	p.R219*		NM_003124	NP_003115	P35270	SPRE_HUMAN	sepiapterin reductase	219					nitric oxide biosynthetic process|tetrahydrobiopterin biosynthetic process	cytoplasm	aldo-keto reductase (NADP) activity|NADP binding|sepiapterin reductase activity			ovary(2)	2						CCCAGACATGCGAAAAGGGCT	0.557													19	74					0	0	0.006122	0	0		T	73118535	T	T	73118535	4	4	36	1	0	0	0	0	0	1	0	0	15116	760	27	1	665	1	SPR	2	73118535	Nonsense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	3549202	73118535	170080838	26	32104											
MOGS	7841	broad.mit.edu	37	chr2	74689430	74689430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattctggaggcacccgggCtcgggcctcatcccccagta	7	7	12	15	2	2	0	1	0	1	0	4	2	3	1	4	4	0	3	4	4	2	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr2:74689430C>T	uc010ffj.2	-	4	1649	c.1486G>A	c.(1486-1488)GCC>ACC	p.A496T	MOGS_uc010ffh.2_Missense_Mutation_p.A221T|MOGS_uc010yrt.1_Missense_Mutation_p.A377T|MOGS_uc010ffi.2_Missense_Mutation_p.A390T	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	496	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						GGCACCCGGGCTCGGGCCTCA	0.607													14	72					0	0	0.001855	0	0		T	74689430	T	T	74689430	3	4	36	1	0	0	0	0	1	0	0	0	9715	797	28	2	1031	2	MOGS	2	74689430	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	1570895	74689430	168509943	27	32105											
TEKT4	150483	broad.mit.edu	37	chr2	95537520	95537520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgaccagtcggagcggcagCggcacgagagccagcagctg	9	2	17	13	5	0	1	0	0	0	1	1	4	0	2	2	3	5	4	2	3	0	0	rs75859449		TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr2:95537520C>T	uc002stw.1	+	1	289	c.196C>T	c.(196-198)CGG>TGG	p.R66W	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	66					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						GGAGCGGCAGCGGCACGAGAG	0.672													20	49					0	0	0.007413	0	0		T	95537520	T	T	95537520	3	4	36	1	0	0	0	0	1	0	0	0	15780	759	27	1	198	1	TEKT4	2	95537520	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	20848090	95537520	147661853	28	32106											
IL1RL2	8808	broad.mit.edu	37	chr2	102842401	102842401	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataggagggcttatcgccttGgtggctgtggctgtgtctgt	4	14	16	7	1	1	0	0	0	1	0	2	1	1	1	1	5	0	3	1	5	2	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr2:102842401G>A	uc002tbs.2	+	9	1161	c.1035G>A	c.(1033-1035)TTG>TTA	p.L345L	IL1RL2_uc002tbt.2_Silent_p.L227L	NM_003854	NP_003845	Q9HB29	ILRL2_HUMAN	interleukin 1 receptor-like 2 precursor	345	Helical; (Potential).				cellular defense response|innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity			ovary(2)	2						TTATCGCCTTGGTGGCTGTGG	0.363													4	45					0	0	0.009096	0	0		A	102842401	A	A	102842401	2	1	36	1	0	0	0	0	0	0	0	1	7680	1339	47	4		4	IL1RL2	2	102842401	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	7304881	102842401	140356972	29	32107											
LRP1B	53353	broad.mit.edu	37	chr2	141665568	141665568	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggtggtccacacaagaaaCtgtcacagtcatcttcatct	11	11	8	11	0	5	1	3	0	2	1	6	1	6	1	1	2	1	0	1	2	2	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr2:141665568C>T	uc002tvj.1	-	22	4370	c.3398G>A	c.(3397-3399)AGT>AAT	p.S1133N	LRP1B_uc010fnl.1_Missense_Mutation_p.S315N	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1133	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACACAAGAAACTGTCACAGTC	0.453										TSP Lung(27;0.18)			5	80					0	0	0.001168	0	0		T	141665568	T	T	141665568	3	4	36	1	0	0	0	0	1	0	0	0	8973	565	20	4	10681	4	LRP1B	2	141665568	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	38823167	141665568	101533805	30	32108											
TNS1	7145	broad.mit.edu	37	chr2	218747129	218747129	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgccatactctggaaatcGatcatctggaaaaagagaag	15	10	9	7	1	3	1	1	0	2	1	4	5	3	3	1	2	2	0	1	2	5	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr2:218747129G>A	uc002vgt.2	-	15	1275	c.877C>T	c.(877-879)CGA>TGA	p.R293*	TNS1_uc002vgr.2_Nonsense_Mutation_p.R293*|TNS1_uc002vgs.2_Nonsense_Mutation_p.R293*|TNS1_uc010zjv.1_Nonsense_Mutation_p.R293*|TNS1_uc010fvj.1_Nonsense_Mutation_p.R361*|TNS1_uc010fvk.1_Nonsense_Mutation_p.R418*|TNS1_uc002vgu.3_Nonsense_Mutation_p.R324*|TNS1_uc010fvi.1_5'UTR	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	293	C2 tensin-type.					cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		TCTGGAAATCGATCATCTGGA	0.323													8	67					0	0	0.004482	0	0		A	218747129	A	A	218747129	4	1	36	1	0	0	0	0	0	1	0	0	16368	1066	37	1	4406	1	TNS1	2	218747129	Nonsense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	77081561	218747129	24452244	31	32109											
TMPPE	643853	broad.mit.edu	37	chr3	33135129	33135129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacagttttcacagccggggGctgcgcggcattcagaatcc	8	8	12	13	3	2	1	2	0	0	1	3	1	3	1	2	3	2	3	2	3	1	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr3:33135129G>A	uc003cfk.2	-	2	750	c.559C>T	c.(559-561)CCC>TCC	p.P187S	GLB1_uc003cfh.1_Intron|GLB1_uc003cfi.1_Intron|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Intron|TMPPE_uc011axl.1_Missense_Mutation_p.P50S	NM_001039770	NP_001034859	Q6ZT21	TMPPE_HUMAN	transmembrane protein with	187						integral to membrane	metal ion binding				0						ACAGCCGGGGGCTGCGCGGCA	0.607													9	31					0	0	0.006214	0	0		A	33135129	A	A	33135129	3	1	36	1	0	0	0	0	1	0	0	0	16263	1203	42	2	806	2	TMPPE	3	33135129	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08		33135129	164887301	32	32110											
NBEAL2	23218	broad.mit.edu	37	chr3	47042669	47042669	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accagactgcatcaagcgcaGgtgagagggaaagtctggag	13	5	15	8	1	2	2	1	1	1	2	2	5	2	4	1	3	2	2	1	3	2	0			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr3:47042669G>C	uc003cqp.2	+	28	4663	c.4484G>C	c.(4483-4485)AGC>ACC	p.S1495T	NBEAL2_uc010hjm.1_Missense_Mutation_p.S872T|NBEAL2_uc010hjn.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1495							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		ATCAAGCGCAGGTGAGAGGGA	0.632													7	22					0	0	0.004482	0	0		C	47042669	C	C	47042669	3	2	36	1	0	0	0	0	1	0	0	0	10207	1014	35	5	4594	5	NBEAL2	3	47042669	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	13907540	47042669	150979761	33	32111											
ARIH2	10425	broad.mit.edu	37	chr3	49006074	49006074	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacaggcgctacctcttcAgggactatgtggaggtatgg	10	10	13	8	1	2	0	1	0	1	0	2	2	2	2	1	5	2	2	1	5	5	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr3:49006074A>G	uc003cvb.2	+	7	958	c.646A>G	c.(646-648)AGG>GGG	p.R216G	ARIH2_uc003cvc.2_Missense_Mutation_p.R216G|ARIH2_uc003cvf.2_Missense_Mutation_p.R134G|ARIH2_uc010hkl.2_Missense_Mutation_p.R216G	NM_006321	NP_006312	O95376	ARI2_HUMAN	ariadne homolog 2	216	IBR-type.				developmental cell growth|hemopoietic stem cell proliferation|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.42e-05)|Kidney(197;0.00258)|KIRC - Kidney renal clear cell carcinoma(197;0.00269)		CTACCTCTTCAGGGACTATGT	0.408													14	132					0	0	0.004007	0	0		G	49006074	G	G	49006074	3	3	36	1	0	0	0	0	1	0	0	0	924	179	7	3	664	3	ARIH2	3	49006074	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	1963405	49006074	149016356	34	32112											
AMT	275	broad.mit.edu	37	chr3	49455114	49455114	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacccatcgccacattcttCttcagagagggggaggggca	10	8	12	11	1	3	1	1	0	2	1	4	3	3	2	2	4	1	1	2	4	1	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr3:49455114C>A	uc003cww.2	-	9	1200	c.1071G>T	c.(1069-1071)AAG>AAT	p.K357N	AMT_uc011bcn.1_3'UTR|AMT_uc003cwx.2_Missense_Mutation_p.K357N|AMT_uc011bco.1_Missense_Mutation_p.K313N|AMT_uc003cwy.2_Missense_Mutation_p.K309N|AMT_uc011bcp.1_Missense_Mutation_p.K260N|AMT_uc011bcq.1_Missense_Mutation_p.K301N	NM_000481	NP_000472	P48728	GCST_HUMAN	aminomethyltransferase isoform 1 precursor	357					glycine catabolic process	mitochondrion	aminomethyltransferase activity|transaminase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	CCACATTCTTCTTCAGAGAGG	0.592													36	39					6.2361e-21	7.28754e-21	0.007835	1	0		A	49455114	A	A	49455114	3	1	36	1	0	0	0	0	1	0	0	0	589	912	32	5	172	5	AMT	3	49455114	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	449040	49455114	148567316	35	32113											
CACNA1D	776	broad.mit.edu	37	chr3	53778854	53778854	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacagagcaaaaggacttaaGgttttgattcctctcctccc	12	11	7	11	0	1	2	0	1	1	1	4	3	3	3	3	2	2	2	3	2	4	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr3:53778854G>A	uc003dgv.3	+	23	3169	c.3006G>A	c.(3004-3006)AAG>AAA	p.K1002K	CACNA1D_uc003dgu.3_Silent_p.K1022K|CACNA1D_uc003dgy.3_Silent_p.K1002K|CACNA1D_uc003dgw.3_Silent_p.K669K|CACNA1D_uc003dgx.1_Silent_p.K150K	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1002	Cytoplasmic (Potential).|III.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	AAGGACTTAAGGTTTTGATTC	0.542													10	43					0	0	0.010729	0	0		A	53778854	A	A	53778854	2	1	36	1	0	0	0	0	0	0	0	1	2544	1014	35	4		4	CACNA1D	3	53778854	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	4323740	53778854	144243576	36	32114											
PDZRN3	23024	broad.mit.edu	37	chr3	73433107	73433107	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgcgccgggatgtgcgcGtgcttgtatggggagtggtg	3	10	21	7	5	0	0	0	0	0	0	0	2	0	2	1	4	3	2	1	4	1	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr3:73433107G>A	uc003dpl.1	-	10	2706	c.2610C>T	c.(2608-2610)CAC>CAT	p.H870H	PDZRN3_uc011bgh.1_Silent_p.H527H|PDZRN3_uc010hoe.1_Silent_p.H568H|PDZRN3_uc011bgf.1_Silent_p.H587H|PDZRN3_uc011bgg.1_Silent_p.H590H	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	870							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GGATGTGCGCGTGCTTGTATG	0.652													8	56					0	0	0.00308	0	0		A	73433107	A	A	73433107	2	1	36	1	0	0	0	0	0	0	0	1	11728	1136	40	1		1	PDZRN3	3	73433107	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	19654253	73433107	124589323	37	32115											
EPHA6	285220	broad.mit.edu	37	chr3	97356746	97356746	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccacttcacagtcatccaGttggtcggaatgctccgagg	8	9	12	12	2	2	0	2	0	0	0	5	2	4	1	3	4	1	2	3	4	1	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr3:97356746G>C	uc010how.1	+	14	2647	c.2604G>C	c.(2602-2604)CAG>CAC	p.Q868H	EPHA6_uc011bgp.1_3'UTR|EPHA6_uc003drs.3_Missense_Mutation_p.Q260H|EPHA6_uc003drr.3_Missense_Mutation_p.Q260H|EPHA6_uc003drt.2_Missense_Mutation_p.Q260H|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	773	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CAGTCATCCAGTTGGTCGGAA	0.413													14	146					0	0	0.00245	0	0		C	97356746	C	C	97356746	3	2	36	1	0	0	0	0	1	0	0	0	5179	1020	36	5	2726	5	EPHA6	3	97356746	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	23923639	97356746	100665684	38	32116											
KIAA2018	205717	broad.mit.edu	37	chr3	113377235	113377235	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggaagcatggatgcaactgaGaaactacgactactgccaga	15	6	11	9	1	0	2	0	1	0	2	0	6	0	4	1	2	7	2	1	2	5	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr3:113377235G>C	uc003eam.2	-	7	3705	c.3294C>G	c.(3292-3294)TTC>TTG	p.F1098L	KIAA2018_uc003eal.2_Missense_Mutation_p.F1042L	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1098					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						ATGCAACTGAGAAACTACGAC	0.448													22	113					0	0	0.00333	0	0		C	113377235	C	C	113377235	3	2	36	1	0	0	0	0	1	0	0	0	8284	933	33	5	3447	5	KIAA2018	3	113377235	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	16020489	113377235	84645195	39	32117											
RBP1	5947	broad.mit.edu	37	chr3	139236484	139236484	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggcctcactgcaccttcttGaatacttgcttgcagaccac	8	11	8	14	0	2	2	1	1	1	1	2	2	2	2	3	1	4	3	3	1	2	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr3:139236484G>A	uc003eti.2	-	4	690	c.579C>T	c.(577-579)TTC>TTT	p.F193F		NM_002899	NP_002890	P09455	RET1_HUMAN	retinol binding protein 1, cellular isoform a	131						cytoplasm	retinal binding|retinol binding|transporter activity				0					Vitamin A(DB00162)	GCACCTTCTTGAATACTTGCT	0.512													32	128					0	0	0.003755	0	0		A	139236484	A	A	139236484	2	1	36	1	0	0	0	0	0	0	0	1	13180	1281	45	4		4	RBP1	3	139236484	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	25859249	139236484	58785946	40	32118											
IGSF10	285313	broad.mit.edu	37	chr3	151162781	151162781	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggaagaaaggcatctgagTtagctggaatagtaaaactt	16	9	12	4	0	1	2	0	1	1	1	1	4	1	4	0	3	2	4	0	3	7	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr3:151162781T>G	uc011bod.1	-	4	4988	c.4988A>C	c.(4987-4989)AAC>ACC	p.N1663T		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1663	Ig-like C2-type 3.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GGCATCTGAGTTAGCTGGAAT	0.423													5	107					0	0	0.000602	0	0		G	151162781	G	G	151162781	3	3	36	1	0	0	0	0	1	0	0	0	7613	1725	60	5	2943	5	IGSF10	3	151162781	Missense_Mutation	SNP	T	TCGA-BR-6565-01A-11D-1800-08	11926297	151162781	46859649	41	32119											
HGFAC	3083	broad.mit.edu	37	chr4	3446377	3446377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagcagcccttgcctgaacgGgggcacctgccacctgatcg	7	6	13	15	2	0	2	0	2	0	0	1	3	0	2	5	2	5	2	5	2	1	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr4:3446377G>A	uc003ghc.2	+	7	761	c.758G>A	c.(757-759)GGG>GAG	p.G253E	HGFAC_uc010icw.2_Missense_Mutation_p.G253E	NM_001528	NP_001519	Q04756	HGFA_HUMAN	HGF activator preproprotein	253	EGF-like 2.				proteolysis	extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(2)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		TGCCTGAACGGGGGCACCTGC	0.721													5	13					0	0	0.001984	0	0		A	3446377	A	A	3446377	3	1	36	1	0	0	0	0	1	0	0	0	7102	1232	43	4	784	4	HGFAC	4	3446377	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08		3446377	187707899	42	32120											
PPARGC1A	10891	broad.mit.edu	37	chr4	23886497	23886497	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttcacatctagttcagaaaGatcaagttcaggaagatctg	14	11	9	7	0	6	3	4	0	2	3	6	4	6	4	0	1	0	3	0	1	4	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr4:23886497G>C	uc003gqs.2	-	2	232	c.112C>G	c.(112-114)CTT>GTT	p.L38V	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_5'Flank|PPARGC1A_uc010ier.1_RNA|PPARGC1A_uc003gqu.3_Missense_Mutation_p.L38V	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	38					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				AGTTCAGAAAGATCAAGTTCA	0.418													5	41					0	0	0.001984	0	0		C	23886497	C	C	23886497	3	2	36	1	0	0	0	0	1	0	0	0	12319	942	33	5	2332	5	PPARGC1A	4	23886497	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	20440120	23886497	167267779	43	32121											
C4orf19	55286	broad.mit.edu	37	chr4	37592414	37592414	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattcattgaatgaggatgTggaaacagaagttctaagca	15	10	12	4	0	2	3	1	2	1	1	2	6	2	6	0	3	2	2	0	3	4	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr4:37592414T>G	uc003gsw.3	+	4	920	c.737T>G	c.(736-738)GTG>GGG	p.V246G	C4orf19_uc003gsy.3_Missense_Mutation_p.V246G	NM_001104629	NP_001098099	Q8IY42	CD019_HUMAN	hypothetical protein LOC55286	246											0						AATGAGGATGTGGAAACAGAA	0.507													12	57					0	0	0.013537	0	0		G	37592414	G	G	37592414	3	3	36	1	0	0	0	0	1	0	0	0	2256	1696	59	5	743	5	C4orf19	4	37592414	Missense_Mutation	SNP	T	TCGA-BR-6565-01A-11D-1800-08	13705917	37592414	153561862	44	32122											
C4orf40	401137	broad.mit.edu	37	chr4	71024501	71024501	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggcacctgttgcagctgagCctgctgcagaggcacctgtt	7	9	13	12	0	0	2	0	1	0	1	0	2	0	2	3	2	5	8	3	2	0	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr4:71024501C>A	uc003hfa.3	+	4	605	c.532C>A	c.(532-534)CCT>ACT	p.P178T	C4orf40_uc003hfb.3_Missense_Mutation_p.P178T	NM_214711	NP_999876	Q6MZM9	CD040_HUMAN	hypothetical protein LOC401137 precursor	178	Ala-rich.					extracellular region					0						TGCAGCTGAGCCTGCTGCAGA	0.637													9	51					1.12685e-05	1.1984e-05	0.004482	1	0		A	71024501	A	A	71024501	3	1	36	1	0	0	0	0	1	0	0	0	2272	739	26	5	542	5	C4orf40	4	71024501	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	33432087	71024501	120129775	45	32123											
CDKL2	8999	broad.mit.edu	37	chr4	76539472	76539472	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaatccaattccattaatAatctgaaacaaatacttttg	18	13	2	8	0	1	1	0	1	1	0	3	1	3	1	2	0	2	0	2	0	8	6			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr4:76539472A>C	uc003hiq.2	-	3	855	c.330T>G	c.(328-330)ATT>ATG	p.I110M	CDKL2_uc011cbp.1_Missense_Mutation_p.I110M|CDKL2_uc010iix.1_Intron	NM_003948	NP_003939	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2	110	Protein kinase.				sex differentiation|signal transduction	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(2)|stomach(2)|breast(2)|skin(1)	7			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			TTCCATTAATAATCTGAAACA	0.254													4	35					0	0	0.009096	0	0		C	76539472	C	C	76539472	3	2	36	1	0	0	0	0	1	0	0	0	3157	358	13	5	1187	5	CDKL2	4	76539472	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	5514971	76539472	114614804	46	32124											
RASGEF1B	153020	broad.mit.edu	37	chr4	82369254	82369254	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcagctgctgggccaacGtgtaagggtcgttgcagaca	9	8	15	9	2	1	1	1	0	0	1	2	2	1	1	1	2	4	5	1	2	2	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr4:82369254G>C	uc003hmi.1	-	5	767	c.623C>G	c.(622-624)ACG>AGG	p.T208R	RASGEF1B_uc003hmj.1_Missense_Mutation_p.T207R|RASGEF1B_uc010ijq.1_Missense_Mutation_p.T166R	NM_152545	NP_689758	Q0VAM2	RGF1B_HUMAN	RasGEF domain family, member 1B	208	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						CTGGGCCAACGTGTAAGGGTC	0.463													18	124					0	0	0.006122	0	0		C	82369254	C	C	82369254	3	2	36	1	0	0	0	0	1	0	0	0	13095	1145	40	5	838	5	RASGEF1B	4	82369254	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	5829782	82369254	108785022	47	32125											
SYNPO2	171024	broad.mit.edu	37	chr4	119951305	119951305	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgttgacgacaacacacaaGttgtgaactttgactgggat	13	10	10	8	2	0	3	0	3	0	0	0	5	0	4	0	1	2	2	0	1	3	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr4:119951305G>T	uc003icm.3	+	4	1571	c.1375G>T	c.(1375-1377)GTT>TTT	p.V459F	SYNPO2_uc010ina.2_Missense_Mutation_p.V459F|SYNPO2_uc010inb.2_Missense_Mutation_p.V459F|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Missense_Mutation_p.V387F	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	459						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						CAACACACAAGTTGTGAACTT	0.463													10	48					2.52707e-12	2.90252e-12	0.006214	1	0		T	119951305	T	T	119951305	3	4	36	1	0	0	0	0	1	0	0	0	15482	1029	36	5	1389	5	SYNPO2	4	119951305	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	37582051	119951305	71202971	48	32126											
PCDH10	57575	broad.mit.edu	37	chr4	134072365	134072365	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctaatgacaacgcgccagAgatcagcttcagcaccgtga	12	7	10	12	3	2	3	2	2	0	1	2	4	2	3	2	0	4	3	2	0	2	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr4:134072365A>C	uc003iha.2	+	1	1896	c.1070A>C	c.(1069-1071)GAG>GCG	p.E357A	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.E357A	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	357	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AACGCGCCAGAGATCAGCTTC	0.612													6	80					0	0	0.001168	0	0		C	134072365	C	C	134072365	3	2	36	1	0	0	0	0	1	0	0	0	11526	304	11	5	1072	5	PCDH10	4	134072365	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	14121060	134072365	57081911	49	32127											
DCLK2	166614	broad.mit.edu	37	chr4	151170753	151170753	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggagaataacatgcaagctGaggtgacaggtaaactaaaa	19	6	11	5	0	0	3	0	2	0	1	0	4	0	3	0	3	4	3	0	3	7	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr4:151170753G>C	uc003ilm.3	+	15	2090	c.1990G>C	c.(1990-1992)GAG>CAG	p.E664Q	DCLK2_uc003iln.3_Missense_Mutation_p.E663Q|DCLK2_uc003ilo.3_Missense_Mutation_p.E681Q|DCLK2_uc003ilp.3_RNA	NM_001040260	NP_001035350	Q8N568	DCLK2_HUMAN	doublecortin-like kinase 2 isoform a	664					intracellular signal transduction	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)					CATGCAAGCTGAGGTGACAGG	0.458													7	94					0	0	0.00308	0	0		C	151170753	C	C	151170753	3	2	36	1	0	0	0	0	1	0	0	0	4295	1291	45	5	2048	5	DCLK2	4	151170753	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	17098388	151170753	39983523	50	32128											
TRIO	7204	broad.mit.edu	37	chr5	14485253	14485253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacatcgaggacgggtgacGtggtagagaccttcattttg	9	11	14	7	3	1	3	1	2	0	1	2	6	1	4	1	3	0	1	1	3	1	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr5:14485253G>A	uc003jff.2	+	47	6739	c.6733G>A	c.(6733-6735)GTG>ATG	p.V2245M	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Missense_Mutation_p.V1894M	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2245	PH 2.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GACGGGTGACGTGGTAGAGAC	0.373													4	79					0	0	0.009096	0	0		A	14485253	A	A	14485253	3	1	36	1	0	0	0	0	1	0	0	0	16578	1145	40	1	6919	1	TRIO	5	14485253	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08		14485253	166430007	51	32129											
PRDM9	56979	broad.mit.edu	37	chr5	23521174	23521174	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaatgaatctagtttgaaaGaattgtcaagaacagcaaat	18	11	8	4	0	2	4	1	2	1	2	2	4	2	4	0	0	2	3	0	0	8	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr5:23521174G>T	uc003jgo.2	+	6	576	c.394G>T	c.(394-396)GAA>TAA	p.E132*		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	132					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						TAGTTTGAAAGAATTGTCAAG	0.423										HNSCC(3;0.000094)			9	59					3.09899e-07	3.36701e-07	0.004482	1	0		T	23521174	T	T	23521174	4	4	36	1	0	0	0	0	0	1	0	0	12485	943	33	5	412	5	PRDM9	5	23521174	Nonsense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	9035921	23521174	157394086	52	32130											
OSMR	9180	broad.mit.edu	37	chr5	38925432	38925432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cactagtgctggtgaaggccCcagtgctacgttcacgaagg	9	8	13	11	2	1	1	1	1	0	0	1	2	1	1	2	3	3	3	2	3	4	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr5:38925432C>T	uc003jln.1	+	15	2538	c.2171C>T	c.(2170-2172)CCC>CTC	p.P724L	OSMR_uc011cpj.1_5'UTR	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	724	Fibronectin type-III 4.|Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					GGTGAAGGCCCCAGTGCTACG	0.443													5	102					0	0	0.000602	0	0		T	38925432	T	T	38925432	3	4	36	1	0	0	0	0	1	0	0	0	11311	623	22	4	2263	4	OSMR	5	38925432	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	15404258	38925432	141989828	53	32131											
NNT	23530	broad.mit.edu	37	chr5	43653307	43653307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggagcgatggctttgggtgGtaccattggtaagcacttgt	7	13	15	6	1	0	0	0	0	0	0	0	2	0	1	1	5	3	4	1	5	2	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr5:43653307G>A	uc003joe.2	+	14	2306	c.2051G>A	c.(2050-2052)GGT>GAT	p.G684D	NNT_uc003jof.2_Missense_Mutation_p.G684D	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	684	Helical; (Potential).				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	GCTTTGGGTGGTACCATTGGT	0.458													12	16					0	0	0.013537	0	0		A	43653307	A	A	43653307	3	1	36	1	0	0	0	0	1	0	0	0	10529	1261	44	4	2101	4	NNT	5	43653307	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	4727875	43653307	137261953	54	32132											
SLCO4C1	353189	broad.mit.edu	37	chr5	101631703	101631703	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatggaagttcctccagccGtaagacccctcctcaaactc	10	8	8	15	1	1	1	1	0	0	1	5	3	4	3	6	2	2	2	6	2	3	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr5:101631703G>C	uc003knm.2	-	1	551	c.264C>G	c.(262-264)TAC>TAG	p.Y88*		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	88	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		TCCTCCAGCCGTAAGACCCCT	0.572													7	53					0	0	0.001984	0	0		C	101631703	C	C	101631703	4	2	36	1	0	0	0	0	0	1	0	0	14755	1140	40	5	1962	5	SLCO4C1	5	101631703	Nonsense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	57978396	101631703	79283557	55	32133											
APC	324	broad.mit.edu	37	chr5	112177901	112177901	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttgattactggaaaagttCgatctaattcagaaatttca	14	15	7	5	1	3	2	2	1	1	1	4	4	3	3	0	1	1	2	0	1	5	6			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr5:112177901C>T	uc010jby.2	+	16	6990	c.6610C>T	c.(6610-6612)CGA>TGA	p.R2204*	APC_uc011cvt.1_Nonsense_Mutation_p.R2186*|APC_uc003kpz.3_Nonsense_Mutation_p.R2204*|APC_uc003kpy.3_Nonsense_Mutation_p.R2204*|APC_uc010jbz.2_Nonsense_Mutation_p.R1921*|APC_uc010jca.2_Nonsense_Mutation_p.R1504*	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	2204	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGGAAAAGTTCGATCTAATTC	0.363		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			51	64					0	0	0.01441	0	0		T	112177901	T	T	112177901	4	4	36	1	0	0	0	0	0	1	0	0	763	876	31	1	6668	1	APC	5	112177901	Nonsense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	10546198	112177901	68737359	56	32134											
PCDHA8	56140	broad.mit.edu	37	chr5	140222761	140222761	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagctgcaagcagccctCgcatcccgttccgcgtgggg	6	6	13	16	4	0	0	0	0	0	0	3	0	2	0	4	2	5	5	4	2	1	1	rs145175505		TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr5:140222761C>A	uc003lhs.2	+	1	1855	c.1855C>A	c.(1855-1857)CGC>AGC	p.R619S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.R619S	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	619	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGCAGCCCTCGCATCCCGTT	0.672													26	48					2.44723e-14	2.82697e-14	0.004656	1	0		A	140222761	A	A	140222761	3	1	36	1	0	0	0	0	1	0	0	0	11549	884	31	5	1857	5	PCDHA8	5	140222761	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	28044860	140222761	40692499	57	32135											
PCDHGB3	56102	broad.mit.edu	37	chr5	140751796	140751796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccacattgtgcaggccaGcgagcccgggctgttcagcc	7	7	12	15	2	1	0	1	0	0	0	1	1	1	0	4	2	5	3	4	2	1	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr5:140751796G>A	uc003ljw.1	+	1	1835	c.1835G>A	c.(1834-1836)AGC>AAC	p.S612N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.S612N|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	612	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCAGGCCAGCGAGCCCGGG	0.697													14	72					0	0	0.001855	0	0		A	140751796	A	A	140751796	3	1	36	1	0	0	0	0	1	0	0	0	11583	971	34	2	1837	2	PCDHGB3	5	140751796	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	529035	140751796	40163464	58	32136											
PCDHGC5	56097	broad.mit.edu	37	chr5	140870921	140870921	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agcgaccgtcagtctcttatCcctagtcaccttcacctttc	7	13	5	16	2	4	0	3	0	1	0	7	1	5	0	4	0	1	0	4	0	2	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr5:140870921C>G	uc003lla.1	+	1	2114	c.2114C>G	c.(2113-2115)TCC>TGC	p.S705C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc003lky.1_Intron|PCDHGC5_uc011dbc.1_Missense_Mutation_p.S705C	NM_018929	NP_061752	Q9Y5F6	PCDGM_HUMAN	protocadherin gamma subfamily C, 5 isoform 1	705	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTCTCTTATCCCTAGTCACC	0.572													21	168					0	0	0.012319	0	0		G	140870921	G	G	140870921	3	3	36	1	0	0	0	0	1	0	0	0	11590	855	30	5	2116	5	PCDHGC5	5	140870921	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	119125	140870921	40044339	59	32137											
FAT2	2196	broad.mit.edu	37	chr5	150914081	150914081	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcggggcattgtcattcaCatcctccacatggagggtga	8	9	12	12	2	2	1	2	1	0	0	4	2	4	2	3	4	0	1	3	4	0	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr5:150914081C>G	uc003lue.3	-	12	9329	c.9316G>C	c.(9316-9318)GTG>CTG	p.V3106L	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_5'Flank	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3106	Extracellular (Potential).|Cadherin 27.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTGTCATTCACATCCTCCACA	0.572													8	47					0	0	0.004482	0	0		G	150914081	G	G	150914081	3	3	36	1	0	0	0	0	1	0	0	0	5704	478	17	5	3781	5	FAT2	5	150914081	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	10043160	150914081	30001179	60	32138											
NSD1	64324	broad.mit.edu	37	chr5	176637132	176637132	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcctgtggaaaaaacactGcaaagaaagaatttgagact	17	9	8	7	0	0	3	0	1	0	3	1	5	1	4	1	1	2	1	1	1	6	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr5:176637132G>T	uc003mfr.3	+	5	1870	c.1732G>T	c.(1732-1734)GCA>TCA	p.A578S	NSD1_uc003mft.3_Missense_Mutation_p.A309S|NSD1_uc003mfs.1_Missense_Mutation_p.A475S|NSD1_uc011dfx.1_Missense_Mutation_p.A226S	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	578					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		AAAAAACACTGCAAAGAAAGA	0.443			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			17	107					1.67942e-08	1.87535e-08	0.006122	1	0		T	176637132	T	T	176637132	3	4	36	1	0	0	0	0	1	0	0	0	10688	1319	46	5	1746	5	NSD1	5	176637132	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	25723051	176637132	4278128	61	32139											
FAM50B	26240	broad.mit.edu	37	chr6	3850733	3850733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcctggagctgcgctccGccggcgtggagcagctcatg	5	8	14	14	4	1	0	1	0	0	0	3	2	3	2	3	3	4	4	3	3	0	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr6:3850733G>A	uc003mvu.2	+	2	800	c.688G>A	c.(688-690)GCC>ACC	p.A230T		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	230						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				GCTGCGCTCCGCCGGCGTGGA	0.652													5	66					0	0	0.001168	0	0		A	3850733	A	A	3850733	3	1	36	1	0	0	0	0	1	0	0	0	5592	1087	38	1	690	1	FAM50B	6	3850733	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08		3850733	167264334	62	32140											
HIVEP1	3096	broad.mit.edu	37	chr6	12120526	12120526	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgaacaatgtgactcaagTtccttgtcaagtaaaaccag	15	10	8	8	0	2	2	2	2	0	0	3	3	3	2	2	0	2	2	2	0	6	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr6:12120526T>C	uc003nac.2	+	4	677	c.498T>C	c.(496-498)AGT>AGC	p.S166S	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	166					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				GTGACTCAAGTTCCTTGTCAA	0.473													53	131					0	0	0.01441	0	0		C	12120526	C	C	12120526	2	2	36	1	0	0	0	0	0	0	0	1	7202	1722	60	3		3	HIVEP1	6	12120526	Silent	SNP	T	TCGA-BR-6565-01A-11D-1800-08	8269793	12120526	158994541	63	32141											
NUP153	9972	broad.mit.edu	37	chr6	17629536	17629536	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttcttcgggcttagattcaGatgaaactccaaatttaaaa	14	13	6	8	1	2	3	1	1	1	2	4	3	3	3	1	1	1	1	1	1	5	6			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr6:17629536G>C	uc003ncd.1	-	18	3094	c.2894C>G	c.(2893-2895)TCT>TGT	p.S965C	NUP153_uc011dje.1_Missense_Mutation_p.S996C|NUP153_uc010jpl.1_Missense_Mutation_p.S923C	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	965					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			CTTAGATTCAGATGAAACTCC	0.328													8	113					0	0	0.00308	0	0		C	17629536	C	C	17629536	3	2	36	1	0	0	0	0	1	0	0	0	10774	942	33	5	1553	5	NUP153	6	17629536	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	5509010	17629536	153485531	64	32142											
HIST1H3D	8351	broad.mit.edu	37	chr6	26197279	26197279	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacggactagacgctggaatGgcagtttgcgaatcagcagc	11	7	13	10	3	1	1	1	0	0	1	1	4	1	3	0	3	3	4	0	3	3	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr6:26197279G>C	uc003ngv.2	-	2	597	c.200C>G	c.(199-201)CCA>CGA	p.P67R	HIST1H2BF_uc003ngx.2_5'Flank	NM_003530	NP_003521	P68431	H31_HUMAN	histone cluster 1, H3d	67					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.196)				ACGCTGGAATGGCAGTTTGCG	0.637													14	75					0	0	0.004007	0	0		C	26197279	C	C	26197279	3	2	36	1	0	0	0	0	1	0	0	0	7174	1348	47	5	214	5	HIST1H3D	6	26197279	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	8567743	26197279	144917788	65	32143											
OR2J2	26707	broad.mit.edu	37	chr6	29141962	29141962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttcttctgtgaagttccaGcacttctgcgtttatcatgt	7	17	7	10	1	4	1	1	1	3	0	5	1	5	1	1	0	2	3	1	0	2	6			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr6:29141962G>A	uc011dlm.1	+	1	652	c.550G>A	c.(550-552)GCA>ACA	p.A184T		NM_030905	NP_112167	O76002	OR2J2_HUMAN	olfactory receptor, family 2, subfamily J,	184	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGAAGTTCCAGCACTTCTGCG	0.443													12	203					0	0	0.001855	0	0		A	29141962	A	A	29141962	3	1	36	1	0	0	0	0	1	0	0	0	11022	971	34	2	552	2	OR2J2	6	29141962	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	2944683	29141962	141973105	66	32144											
PHF3	23469	broad.mit.edu	37	chr6	64422326	64422326	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagacttcaaatagttcTccatgcagatctaatgtagg	14	11	7	9	0	3	2	1	0	2	2	4	2	3	2	2	1	2	3	2	1	5	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr6:64422326T>C	uc003pep.1	+	15	4868	c.4842T>C	c.(4840-4842)TCT>TCC	p.S1614S	PHF3_uc003pen.2_Silent_p.S1526S|PHF3_uc011dxs.1_Silent_p.S883S	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	1614					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			CAAATAGTTCTCCATGCAGAT	0.373													11	53					0	0	0.001855	0	0		C	64422326	C	C	64422326	2	2	36	1	0	0	0	0	0	0	0	1	11855	1538	54	3		3	PHF3	6	64422326	Silent	SNP	T	TCGA-BR-6565-01A-11D-1800-08	35280364	64422326	106692741	67	32145											
HTR1E	3354	broad.mit.edu	37	chr6	87725916	87725916	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctagcaccagggaacggaaGgcagcacgcatcctggggct	10	5	14	12	2	1	0	0	0	1	0	2	2	2	2	2	5	3	5	2	5	3	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr6:87725916G>A	uc003pli.2	+	2	1567	c.864G>A	c.(862-864)AAG>AAA	p.K288K		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	288	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	GGGAACGGAAGGCAGCACGCA	0.502													10	130					0	0	0.008291	0	0		A	87725916	A	A	87725916	2	1	36	1	0	0	0	0	0	0	0	1	7455	991	35	4		4	HTR1E	6	87725916	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	23303590	87725916	83389151	68	32146											
UTRN	7402	broad.mit.edu	37	chr6	144858786	144858786	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagattatctgttggttaaCaaaggctgagcatgctatgc	11	13	11	6	0	1	2	0	2	1	1	1	3	1	2	0	2	4	5	0	2	4	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr6:144858786C>A	uc003qkt.2	+	43	6394	c.6302C>A	c.(6301-6303)ACA>AAA	p.T2101K		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	2101					muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TGTTGGTTAACAAAGGCTGAG	0.353													9	27					3.09899e-07	3.36701e-07	0.004482	1	0		A	144858786	A	A	144858786	3	1	36	1	0	0	0	0	1	0	0	0	17129	478	17	5	6472	5	UTRN	6	144858786	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	57132870	144858786	26256281	69	32147											
FBXO30	84085	broad.mit.edu	37	chr6	146126159	146126159	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatattgcagatggaagtgaAaaagtctgagtcccaacgtc	15	9	10	7	1	1	3	0	2	1	1	3	4	2	4	1	1	2	1	1	1	6	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr6:146126159A>G	uc003qla.2	-	2	1582	c.1383T>C	c.(1381-1383)TTT>TTC	p.F461F	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	461							ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		ATGGAAGTGAAAAAGTCTGAG	0.438													7	137					0	0	0.001984	0	0		G	146126159	G	G	146126159	2	3	36	1	0	0	0	0	0	0	0	1	5754	11	1	3		3	FBXO30	6	146126159	Silent	SNP	A	TCGA-BR-6565-01A-11D-1800-08	1267373	146126159	24988908	70	32148											
SYNE1	23345	broad.mit.edu	37	chr6	152658021	152658021	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatgttcagctccagctcAgagtgcctcctcttcatgtt	7	13	8	13	0	4	1	3	0	1	1	6	1	6	1	3	0	3	5	3	0	1	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr6:152658021A>G	uc010kiw.2	-	76	13085	c.12483T>C	c.(12481-12483)TCT>TCC	p.S4161S	SYNE1_uc003qot.3_Silent_p.S4090S|SYNE1_uc003qou.3_Silent_p.S4161S|SYNE1_uc010kja.1_Silent_p.S866S|SYNE1_uc010kiz.2_5'Flank	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4161	Spectrin 11.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GCTCCAGCTCAGAGTGCCTCC	0.473										HNSCC(10;0.0054)			22	106					0	0	0.014323	0	0		G	152658021	G	G	152658021	2	3	36	1	0	0	0	0	0	0	0	1	15470	175	7	3		3	SYNE1	6	152658021	Silent	SNP	A	TCGA-BR-6565-01A-11D-1800-08	6531862	152658021	18457046	71	32149											
SYNE1	23345	broad.mit.edu	37	chr6	152671388	152671388	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtctgccagacatctgcAgcagccacttttcgacctct	8	10	7	16	1	3	1	0	0	3	1	4	2	3	1	4	0	4	2	4	0	0	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr6:152671388A>G	uc010kiw.2	-	72	12418	c.11816T>C	c.(11815-11817)CTG>CCG	p.L3939P	SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Missense_Mutation_p.L3939P|SYNE1_uc010kja.1_Missense_Mutation_p.L644P	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3939	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AGACATCTGCAGCAGCCACTT	0.542										HNSCC(10;0.0054)			18	71					0	0	0.010504	0	0		G	152671388	G	G	152671388	3	3	36	1	0	0	0	0	1	0	0	0	15470	188	7	3	14950	3	SYNE1	6	152671388	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	13367	152671388	18443679	72	32150											
BZW2	28969	broad.mit.edu	37	chr7	16745690	16745690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcttctctcctagaatccGaatcggaaggtgaggaaaat	12	12	9	8	2	2	2	0	1	2	1	6	5	4	4	2	3	0	0	2	3	6	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr7:16745690G>A	uc003stl.2	+	12	1415	c.1237G>A	c.(1237-1239)GAA>AAA	p.E413K	BZW2_uc003stm.2_Missense_Mutation_p.E219K|BZW2_uc003stj.2_Missense_Mutation_p.E413K|BZW2_uc003stk.2_Missense_Mutation_p.E337K|BZW2_uc003stp.2_Missense_Mutation_p.E261K|BZW2_uc010kua.2_Missense_Mutation_p.E372K	NM_001159767	NP_001153239	Q9Y6E2	BZW2_HUMAN	basic leucine zipper and W2 domains 2	413	W2.				cell differentiation|nervous system development|RNA metabolic process		protein binding			ovary(2)	2	Lung NSC(10;0.0367)|all_lung(11;0.0837)			UCEC - Uterine corpus endometrioid carcinoma (126;0.199)		CCTAGAATCCGAATCGGAAGG	0.418													32	70					0	0	0.010818	0	0		A	16745690	A	A	16745690	3	1	36	1	0	0	0	0	1	0	0	0	1582	1059	37	1	1279	1	BZW2	7	16745690	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08		16745690	142392973	73	32151											
ABCA13	154664	broad.mit.edu	37	chr7	48559652	48559652	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagaatttacagaatatcTatgatgtcctcaagtgggtc	12	13	9	7	0	2	3	1	1	1	2	4	3	3	3	1	1	2	1	1	1	6	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr7:48559652T>C	uc003toq.2	+	53	13838	c.13813T>C	c.(13813-13815)TAT>CAT	p.Y4605H	ABCA13_uc010kys.1_Missense_Mutation_p.Y1680H|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Missense_Mutation_p.Y335H	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4605					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ACAGAATATCTATGATGTCCT	0.333													4	37					0	0	0.009096	0	0		C	48559652	C	C	48559652	3	2	36	1	0	0	0	0	1	0	0	0	31	1522	53	3	13852	3	ABCA13	7	48559652	Missense_Mutation	SNP	T	TCGA-BR-6565-01A-11D-1800-08	31813962	48559652	110579011	74	32152											
MUC17	140453	broad.mit.edu	37	chr7	100685356	100685356	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgttaccagttctagtcaAgccagttcatctccagcaac	10	13	6	12	0	4	0	2	0	2	0	5	0	4	0	3	0	4	4	3	0	4	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr7:100685356A>G	uc003uxp.1	+	3	10712	c.10659A>G	c.(10657-10659)CAA>CAG	p.Q3553Q	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3553	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GTTCTAGTCAAGCCAGTTCAT	0.478													63	366					0	0	0.01441	0	0		G	100685356	G	G	100685356	2	3	36	1	0	0	0	0	0	0	0	1	9992	69	3	3		3	MUC17	7	100685356	Silent	SNP	A	TCGA-BR-6565-01A-11D-1800-08	52125704	100685356	58453307	75	32153											
LRRN3	54674	broad.mit.edu	37	chr7	110764339	110764339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaactaacctagttggcgCtgacttgaagtctgttatga	11	12	10	8	1	1	3	0	3	1	0	1	3	1	3	1	1	3	4	1	1	5	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr7:110764339C>T	uc003vft.3	+	4	2557	c.1511C>T	c.(1510-1512)GCT>GTT	p.A504V	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.A504V|LRRN3_uc003vfs.3_Missense_Mutation_p.A504V	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	504	Extracellular (Potential).|Ig-like C2-type.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		CTAGTTGGCGCTGACTTGAAG	0.373													6	92					0	0	0.001168	0	0		T	110764339	T	T	110764339	3	4	36	1	0	0	0	0	1	0	0	0	9054	797	28	2	1513	2	LRRN3	7	110764339	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	10078983	110764339	48374324	76	32154											
LRGUK	136332	broad.mit.edu	37	chr7	133876492	133876492	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaagacgtttttgatgaaAtggtgaacatggtaagaatg	14	12	11	4	1	1	5	1	3	0	2	1	5	1	5	0	2	1	2	0	2	5	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr7:133876492A>T	uc003vrm.1	+	12	1436	c.1420A>T	c.(1420-1422)ATG>TTG	p.M474L		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	474	Guanylate kinase-like.						ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						TTTTGATGAAATGGTGAACAT	0.343													10	81					0	0	0.008291	0	0		T	133876492	T	T	133876492	3	4	36	1	0	0	0	0	1	0	0	0	8961	101	4	5	1466	5	LRGUK	7	133876492	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	23112153	133876492	25262171	77	32155											
CLCN1	1180	broad.mit.edu	37	chr7	143048760	143048760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgccagcttccggaacaCgacttcaactcgaaagagta	12	8	8	13	3	1	1	1	0	0	1	3	4	2	2	3	1	4	2	3	1	4	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr7:143048760C>T	uc003wcr.1	+	23	2756	c.2669C>T	c.(2668-2670)ACG>ATG	p.T890M	CLCN1_uc011ktc.1_Missense_Mutation_p.T502M	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	890	Cytoplasmic (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					TTCCGGAACACGACTTCAACT	0.562													5	54					0	0	0.000602	0	0		T	143048760	T	T	143048760	3	4	36	1	0	0	0	0	1	0	0	0	3465	536	19	1	2759	1	CLCN1	7	143048760	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	9172268	143048760	16089903	78	32156											
FAM160B2	64760	broad.mit.edu	37	chr8	21959240	21959240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggagtgcagctcccgcGtcgcctcctggggctggcct	3	8	14	16	3	0	0	0	0	0	0	4	1	3	1	5	4	2	3	5	4	0	0			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr8:21959240G>A	uc011kyx.1	+	14	1780	c.1729G>A	c.(1729-1731)GTC>ATC	p.V577I	FAM160B2_uc011kyy.1_RNA	NM_022749	NP_073586	Q86V87	F16B2_HUMAN	retinoic acid induced 16	577											0						CAGCTCCCGCGTCGCCTCCTG	0.662													3	13					0	0	0.004672	0	0		A	21959240	A	A	21959240	3	1	36	1	0	0	0	0	1	0	0	0	5482	1145	40	1	1582	1	FAM160B2	8	21959240	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08		21959240	124404782	79	32157											
HOOK3	84376	broad.mit.edu	37	chr8	42868523	42868523	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatggaagagaaatatattGttagtgcctggtacaatatg	15	12	11	3	0	0	2	0	0	0	2	0	4	0	3	1	2	2	2	1	2	8	6			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr8:42868523G>C	uc003xpr.2	+	21	2238	c.1996G>C	c.(1996-1998)GTT>CTT	p.V666L		NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	666	Potential.|Required for interaction with MSR1.|Required for association with Golgi.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			GAAATATATTGTTAGTGCCTG	0.264			T	RET	papillary thyroid								12	149					0	0	0.004007	0	0		C	42868523	C	C	42868523	3	2	36	1	0	0	0	0	1	0	0	0	7300	1377	48	5	2078	5	HOOK3	8	42868523	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	20909283	42868523	103495499	80	32158											
MRPL15	29088	broad.mit.edu	37	chr8	55055268	55055268	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttaatattgaagtacagttgGcttcagaactagctattgct	12	15	8	6	0	1	2	1	1	0	1	1	2	1	2	0	1	4	5	0	1	7	9			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr8:55055268G>C	uc003xsa.2	+	4	538	c.475G>C	c.(475-477)GCT>CCT	p.A159P		NM_014175	NP_054894	Q9P015	RM15_HUMAN	mitochondrial ribosomal protein L15 precursor	159					translation	large ribosomal subunit|mitochondrion	structural constituent of ribosome				0		Lung NSC(129;0.109)|all_epithelial(80;0.134)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;4.3e-07)|Epithelial(17;5.79e-05)|all cancers(17;0.000458)			AGTACAGTTGGCTTCAGAACT	0.383													5	102					0	0	0.000602	0	0		C	55055268	C	C	55055268	3	2	36	1	0	0	0	0	1	0	0	0	9798	1203	42	5	489	5	MRPL15	8	55055268	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	12186745	55055268	91308754	81	32159											
LYN	4067	broad.mit.edu	37	chr8	56910959	56910959	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actacattcaccgggacctgCgagcagctaatgttctggtc	9	10	10	12	2	2	0	1	0	1	0	3	2	2	1	2	2	4	3	2	2	2	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr8:56910959C>G	uc003xsk.3	+	11	1387	c.1105C>G	c.(1105-1107)CGA>GGA	p.R369G	LYN_uc003xsl.3_Missense_Mutation_p.R348G	NM_002350	NP_002341	P07948	LYN_HUMAN	Yamaguchi sarcoma viral (v-yes-1) oncogene	369	Protein kinase.				erythrocyte differentiation|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of cellular component movement|positive regulation of stress-activated protein kinase signaling cascade|positive regulation of tyrosine phosphorylation of STAT protein|response to DNA damage stimulus|T cell costimulation	cytosol|Golgi apparatus|membrane raft|nucleus|perinuclear region of cytoplasm	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|receptor signaling protein tyrosine kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_lung(136;0.0555)|Lung NSC(129;0.0726)|all_epithelial(80;0.0772)	Epithelial(17;0.000834)|all cancers(17;0.00598)			CCGGGACCTGCGAGCAGCTAA	0.458													5	78					0	0	0.001168	0	0		G	56910959	G	G	56910959	3	3	36	1	0	0	0	0	1	0	0	0	9125	760	27	5	1143	5	LYN	8	56910959	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	1855691	56910959	89453063	82	32160											
IMPAD1	54928	broad.mit.edu	37	chr8	57878831	57878831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccatccctgaatgggaacGagacacaacgatccttgggg	12	6	12	11	2	0	2	0	1	0	1	2	6	2	3	3	3	2	0	3	3	3	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr8:57878831G>A	uc003xte.3	-	4	1010	c.727C>T	c.(727-729)CGT>TGT	p.R243C		NM_017813	NP_060283	Q9NX62	IMPA3_HUMAN	inositol monophosphatase domain containing 1	243						Golgi apparatus|integral to membrane	inositol-1(or 4)-monophosphatase activity|metal ion binding			ovary(1)	1		all_cancers(86;0.175)|all_lung(136;0.0321)|Lung NSC(129;0.0417)|all_epithelial(80;0.0448)				GAATGGGAACGAGACACAACG	0.463													18	129					0	0	0.00499	0	0		A	57878831	A	A	57878831	3	1	36	1	0	0	0	0	1	0	0	0	7741	1058	37	1	360	1	IMPAD1	8	57878831	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	967872	57878831	88485191	83	32161											
CSMD3	114788	broad.mit.edu	37	chr8	113256710	113256710	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgctaagaagaagccaggctGacaggtataaatcagtgtat	15	9	11	6	0	1	3	1	1	0	2	1	3	1	3	1	2	2	4	1	2	7	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr8:113256710G>C	uc003ynu.2	-	65	10474	c.10315C>G	c.(10315-10317)CAG>GAG	p.Q3439E	CSMD3_uc003yns.2_Missense_Mutation_p.Q2641E|CSMD3_uc003ynt.2_Missense_Mutation_p.Q3399E|CSMD3_uc011lhx.1_Missense_Mutation_p.Q3270E	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3439	Extracellular (Potential).|Sushi 28.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AAGCCAGGCTGACAGGTATAA	0.443										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			4	90					0	0	0.009096	0	0		C	113256710	C	C	113256710	3	2	36	1	0	0	0	0	1	0	0	0	3949	1299	45	5	836	5	CSMD3	8	113256710	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	55377879	113256710	33107312	84	32162											
ADCY8	114	broad.mit.edu	37	chr8	131795942	131795942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgctactcaccaatcCggagttcaaaattgttgaat	12	11	8	10	1	2	1	2	1	0	0	3	2	3	2	2	1	3	5	2	1	5	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr8:131795942C>T	uc003ytd.3	-	17	3519	c.3263G>A	c.(3262-3264)CGG>CAG	p.R1088Q	ADCY8_uc010mds.2_Missense_Mutation_p.R957Q	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1088	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CTCACCAATCCGGAGTTCAAA	0.512										HNSCC(32;0.087)			19	64					0	0	0.007413	0	0		T	131795942	T	T	131795942	3	4	36	1	0	0	0	0	1	0	0	0	300	652	23	1	500	1	ADCY8	8	131795942	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	18539232	131795942	14568080	85	32163											
BAI1	575	broad.mit.edu	37	chr8	143570781	143570781	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcacacccttggagatcgaGtttgcccacatgtataatgt	10	11	9	11	2	0	1	0	0	0	1	1	3	0	1	2	1	1	3	2	1	2	4	rs146388200	by1000genomes	TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr8:143570781G>C	uc003ywm.2	+	15	2796	c.2613G>C	c.(2611-2613)GAG>GAC	p.E871D		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	871	Extracellular (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					TGGAGATCGAGTTTGCCCACA	0.572													11	138					0	0	0.008291	0	0		C	143570781	C	C	143570781	3	2	36	1	0	0	0	0	1	0	0	0	1299	1020	36	5	2671	5	BAI1	8	143570781	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	11774839	143570781	2793241	86	32164											
KIAA2026	158358	broad.mit.edu	37	chr9	5968974	5968974	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggtaaaaaggtagttcGtgaaaaggtttttcttccaa	12	16	9	4	1	1	1	0	1	1	0	3	1	2	1	1	3	0	4	1	3	7	8			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr9:5968974G>A	uc003zjq.3	-	3	1473	c.1257C>T	c.(1255-1257)CAC>CAT	p.H419H		NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	419										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		AAGGTAGTTCGTGAAAAGGTT	0.373													6	18					0	0	0.001168	0	0		A	5968974	A	A	5968974	2	1	36	1	0	0	0	0	0	0	0	1	8286	1136	40	1		1	KIAA2026	9	5968974	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08		5968974	135244457	87	32165											
PTPRD	5789	broad.mit.edu	37	chr9	8317903	8317903	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagtggtcaaagctgcccaGgtactctagtgcggcacgat	10	9	12	10	2	2	0	1	0	1	0	2	1	2	0	1	3	4	3	1	3	4	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr9:8317903G>C	uc003zkk.2	-	45	6421	c.5710C>G	c.(5710-5712)CTG>GTG	p.L1904V	PTPRD_uc003zkp.2_Missense_Mutation_p.L1498V|PTPRD_uc003zkq.2_Missense_Mutation_p.L1497V|PTPRD_uc003zkr.2_Missense_Mutation_p.L1488V|PTPRD_uc003zks.2_Missense_Mutation_p.L1497V|PTPRD_uc003zkl.2_Missense_Mutation_p.L1895V|PTPRD_uc003zkm.2_Missense_Mutation_p.L1891V|PTPRD_uc003zkn.2_Missense_Mutation_p.L1493V|PTPRD_uc003zko.2_Missense_Mutation_p.L1494V	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1904	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		AAGCTGCCCAGGTACTCTAGT	0.448										TSP Lung(15;0.13)			25	182					0	0	0.00278	0	0		C	8317903	C	C	8317903	3	2	36	1	0	0	0	0	1	0	0	0	12824	991	35	5	32	5	PTPRD	9	8317903	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	2348929	8317903	132895528	88	32166											
C9orf100	84904	broad.mit.edu	37	chr9	35662219	35662219	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gtaccagcgtgacagctcctCctggtctgtggacataagca	9	9	11	12	1	1	1	0	1	1	0	3	2	3	2	3	2	4	3	3	2	2	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr9:35662219C>G	uc003zxm.1	-	8	1061	c.949G>C	c.(949-951)GAG>CAG	p.E317Q	C9orf100_uc003zxl.2_RNA	NM_032818	NP_116207	Q8N4T4	CI100_HUMAN	hypothetical protein LOC84904	317	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0	all_epithelial(49;0.217)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GACAGCTCCTCCTGGTCTGTG	0.532													48	47					0	0	0.01441	0	0		G	35662219	G	G	35662219	3	3	36	1	0	0	0	0	1	0	0	0	2447	864	30	5	66	5	C9orf100	9	35662219	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	27344316	35662219	105551212	89	32167											
SHC3	53358	broad.mit.edu	37	chr9	91686168	91686168	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtggtgattcgctatgatCtgccaggcccaaaacaagaa	13	9	10	9	1	1	3	0	2	1	1	2	3	1	3	2	2	2	1	2	2	5	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr9:91686168C>A	uc004aqg.2	-	5	1037	c.730_splice	c.e5-1	p.I244_splice		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming						central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						TCGCTATGATCTGCCAGGCCC	0.483													7	63					5.18039e-06	5.53861e-06	0.00308	1	0		A	91686168	A	A	91686168	5	1	36	1	0	0	0	0	0	0	1	0	14297	927	32	5	1087	5	SHC3	9	91686168	Splice_Site	SNP	C	TCGA-BR-6565-01A-11D-1800-08	56023949	91686168	49527263	90	32168											
METTL11A	28989	broad.mit.edu	37	chr9	132397491	132397491	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctctgccctccccaggccaCctcaccgatcagcacctggc	6	6	7	22	1	3	0	2	0	1	0	4	1	4	0	8	2	2	1	8	2	0	0			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr9:132397491C>G	uc004byd.1	+	4	614	c.420C>G	c.(418-420)CAC>CAG	p.H140Q	METTL11A_uc010myw.1_RNA|METTL11A_uc011mbs.1_Missense_Mutation_p.T112S|ASB6_uc004bye.1_3'UTR|ASB6_uc004byf.1_3'UTR|ASB6_uc004byg.1_3'UTR|ASB6_uc011mbt.1_3'UTR|ASB6_uc010myx.1_3'UTR	NM_014064	NP_054783	Q9BV86	NTM1A_HUMAN	methyltransferase like 11A	140					chromosome segregation|N-terminal peptidyl-proline dimethylation|N-terminal peptidyl-serine dimethylation|N-terminal peptidyl-serine trimethylation|spindle organization	nucleus	protein binding|protein methyltransferase activity				0						CCCCAGGCCACCTCACCGATC	0.597													7	73					0	0	0.001984	0	0		G	132397491	G	G	132397491	3	3	36	1	0	0	0	0	1	0	0	0	9513	506	18	5	430	5	METTL11A	9	132397491	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	40711323	132397491	8815940	91	32169											
DIP2C	22982	broad.mit.edu	37	chr10	402365	402365	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaggccagctccgcgcctcaCccgacagttgagcagcgtgt	8	6	12	15	4	1	1	1	1	0	0	2	2	2	1	4	1	3	3	4	1	1	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr10:402365C>A	uc001ifp.2	-	24	3075	c.2985_splice	c.e24+1	p.R995_splice	DIP2C_uc009xhi.1_Splice_Site_p.R381_splice|DIP2C_uc010pzz.1_Missense_Mutation_p.V317L	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C							nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CCGCGCCTCACCCGACAGTTG	0.592													8	116					0.000157383	0.000165623	0.00308	1	0		A	402365	A	A	402365	5	1	36	1	0	0	0	0	0	0	1	0	4535	521	18	5	1740	5	DIP2C	10	402365	Splice_Site	SNP	C	TCGA-BR-6565-01A-11D-1800-08		402365	135132382	92	32170											
CACNB2	783	broad.mit.edu	37	chr10	18827202	18827202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctactggaaggccacccatCctcccagcagtagcctcccc	8	6	7	20	0	0	0	0	0	0	0	3	1	3	1	8	2	3	2	8	2	3	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr10:18827202C>T	uc001ipr.2	+	13	1456	c.1396C>T	c.(1396-1398)CCT>TCT	p.P466S	CACNB2_uc009xjz.1_Missense_Mutation_p.P216S|CACNB2_uc001ips.2_Missense_Mutation_p.P442S|CACNB2_uc001ipt.2_Missense_Mutation_p.P428S|CACNB2_uc001ipu.2_Missense_Mutation_p.P438S|CACNB2_uc001ipv.2_Missense_Mutation_p.P414S|CACNB2_uc009xka.1_Missense_Mutation_p.P400S|CACNB2_uc001ipw.2_Missense_Mutation_p.P373S|CACNB2_uc001ipx.2_Missense_Mutation_p.P411S|CACNB2_uc001ipz.2_Missense_Mutation_p.P388S|CACNB2_uc001ipy.2_Missense_Mutation_p.P412S|CACNB2_uc010qco.1_Missense_Mutation_p.P380S|CACNB2_uc001iqa.2_Missense_Mutation_p.P418S|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	466					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GGCCACCCATCCTCCCAGCAG	0.557													28	259					0	0	0.008361	0	0		T	18827202	T	T	18827202	3	4	36	1	0	0	0	0	1	0	0	0	2556	855	30	4	1756	4	CACNB2	10	18827202	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	18424837	18827202	116707545	93	32171											
NEBL	10529	broad.mit.edu	37	chr10	21461326	21461327	+	Missense_Mutation	DNP	CT	AA	AA																															acttacgcattacaatagggCttcttttcatagcctttgta																										TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr10:21461326_21461327CT>AA	uc001iqk.2	-	2	503_504	c.149_150AG>TT	c.(148-150)AAG>ATT	p.K50I		NM_213569	NP_998734	O76041	NEBL_HUMAN	nebulette non-muscle isoform	712	Nebulin 20.			RAKENQKNISNVYYRGQLGRA -> PKETRKTSACLLQSSA GES (in Ref. 2; AAF24858).	regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						TACAATAGGGCTTCTTTTCATA	0.431													8	69					0	0	0.004672	0	0		AA	21461327	AA	AA	21461326	3	1	36	1	0	0	0	0	1	0	0	0	10322	796	28	5	3375	5	NEBL	10	21461326	Missense_Mutation	DNP	CT	TCGA-BR-6565-01A-11D-1800-08	2634124	21461326	114073421	94	32172											
LRRC18	474354	broad.mit.edu	37	chr10	50121975	50121975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgcaggtccagccaccGgaggttctggaacttggaga	8	8	15	10	1	1	1	0	0	1	1	2	4	2	3	3	5	3	3	3	5	1	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr10:50121975G>A	uc001jhd.2	-	1	306	c.226C>T	c.(226-228)CGG>TGG	p.R76W	WDFY4_uc001jha.3_Intron|LRRC18_uc001jhe.1_Missense_Mutation_p.R76W	NM_001006939	NP_001006940	Q8N456	LRC18_HUMAN	leucine rich repeat containing 18	76	LRR 3.					cytoplasm				ovary(1)|pancreas(1)	2						TCCAGCCACCGGAGGTTCTGG	0.547													7	53					0	0	0.001984	0	0		A	50121975	A	A	50121975	3	1	36	1	0	0	0	0	1	0	0	0	8992	1115	39	1	567	1	LRRC18	10	50121975	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	28660649	50121975	85412772	95	32173											
COL13A1	1305	broad.mit.edu	37	chr10	71684726	71684726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatgcaacagggggagcGtggagcagctggagaacagg	11	5	18	7	1	1	1	1	0	0	1	1	4	1	3	0	5	6	3	0	5	2	0			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr10:71684726G>A	uc001jpr.1	+	23	1795	c.1259G>A	c.(1258-1260)CGT>CAT	p.R420H	COL13A1_uc001jqj.1_Missense_Mutation_p.R420H|COL13A1_uc001jps.1_Missense_Mutation_p.R391H|COL13A1_uc001jpt.1_Missense_Mutation_p.R379H|COL13A1_uc001jpu.1_Missense_Mutation_p.R401H|COL13A1_uc001jpv.1_Missense_Mutation_p.R420H|COL13A1_uc001jpx.1_Missense_Mutation_p.R398H|COL13A1_uc001jpw.1_Missense_Mutation_p.R367H|COL13A1_uc001jpy.1_Missense_Mutation_p.R358H|COL13A1_uc001jpz.1_Missense_Mutation_p.R363H|COL13A1_uc001jqa.1_Missense_Mutation_p.R360H|COL13A1_uc001jqc.1_Missense_Mutation_p.R420H|COL13A1_uc001jqb.1_Missense_Mutation_p.R369H|COL13A1_uc001jql.2_Missense_Mutation_p.R420H|COL13A1_uc001jqd.1_Missense_Mutation_p.R408H|COL13A1_uc001jqe.1_Missense_Mutation_p.R403H|COL13A1_uc001jqf.1_Missense_Mutation_p.R401H|COL13A1_uc001jqg.1_Missense_Mutation_p.R398H|COL13A1_uc001jqh.1_Missense_Mutation_p.R420H|COL13A1_uc001jqi.1_Missense_Mutation_p.R420H|COL13A1_uc010qjf.1_Missense_Mutation_p.R210H|COL13A1_uc001jqk.1_Missense_Mutation_p.R258H	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	420	Extracellular (Potential).|Triple-helical region 2 (COL2).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	CAGGGGGAGCGTGGAGCAGCT	0.512													4	4					0	0	0.009096	0	0		A	71684726	A	A	71684726	3	1	36	1	0	0	0	0	1	0	0	0	3673	1145	40	1	1353	1	COL13A1	10	71684726	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	21562751	71684726	63850021	96	32174											
ECD	11319	broad.mit.edu	37	chr10	74906052	74906052	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acctttctggccagtctactGagagctggaagtaattctct	9	13	9	10	0	3	1	0	1	3	1	4	3	3	2	2	2	2	2	2	2	3	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr10:74906052G>C	uc001jtn.2	-	9	1352	c.1109C>G	c.(1108-1110)TCA>TGA	p.S370*	ECD_uc009xqx.2_Nonsense_Mutation_p.S370*|ECD_uc009xqy.2_Nonsense_Mutation_p.S327*|ECD_uc001jto.2_Nonsense_Mutation_p.S69*	NM_007265	NP_009196	O95905	SGT1_HUMAN	suppressor of S. cerevisiae gcr2 isoform 1	370					regulation of glycolysis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	transcription coactivator activity			pancreas(1)	1	Prostate(51;0.0119)					CCAGTCTACTGAGAGCTGGAA	0.328													9	32					0	0	0.006214	0	0		C	74906052	C	C	74906052	4	2	36	1	0	0	0	0	0	1	0	0	4894	1294	45	5	952	5	ECD	10	74906052	Nonsense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	3221326	74906052	60628695	97	32175											
ZMYND17	118490	broad.mit.edu	37	chr10	75185821	75185821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagtaagaaatgtctccaCatgggaagcaccaaccacat	15	6	9	11	1	1	1	0	0	1	1	2	3	1	2	3	1	2	2	3	1	4	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr10:75185821C>T	uc001jud.2	-	5	883	c.817G>A	c.(817-819)GTG>ATG	p.V273M	ZMYND17_uc001juc.2_Missense_Mutation_p.V273M|ZMYND17_uc009xrh.2_Missense_Mutation_p.V296M|ZMYND17_uc009xrg.2_Intron	NM_001024593	NP_001019764	Q4VC12	ZMY17_HUMAN	zinc finger, MYND domain containing 17	273							zinc ion binding			ovary(1)	1	Prostate(51;0.0119)					AATGTCTCCACATGGGAAGCA	0.547													13	52					0	0	0.001855	0	0		T	75185821	T	T	75185821	3	4	36	1	0	0	0	0	1	0	0	0	17734	478	17	4	577	4	ZMYND17	10	75185821	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	279769	75185821	60348926	98	32176											
SORCS3	22986	broad.mit.edu	37	chr10	106982932	106982932	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccataagaaataaggaggtCaacatcagtgcagtcgtgtg	14	8	12	7	1	2	1	2	0	0	1	3	2	2	2	1	2	2	1	1	2	4	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr10:106982932C>G	uc001kyi.1	+	20	3020	c.2793C>G	c.(2791-2793)GTC>GTG	p.V931V	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	931	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		ATAAGGAGGTCAACATCAGTG	0.443													6	164					0	0	0.001984	0	0		G	106982932	G	G	106982932	2	3	36	1	0	0	0	0	0	0	0	1	14957	813	29	5		5	SORCS3	10	106982932	Silent	SNP	C	TCGA-BR-6565-01A-11D-1800-08	31797111	106982932	28551815	99	32177											
PHRF1	57661	broad.mit.edu	37	chr11	598413	598413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcttccctgctggatgaagCcatcgaggctgtggcgactg	6	10	14	11	2	1	1	0	1	1	0	3	4	2	2	2	3	2	2	2	3	1	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:598413C>T	uc001lqe.2	+	9	1066	c.935C>T	c.(934-936)GCC>GTC	p.A312V	PHRF1_uc010qwc.1_Missense_Mutation_p.A312V|PHRF1_uc010qwd.1_Missense_Mutation_p.A311V|PHRF1_uc010qwe.1_Missense_Mutation_p.A308V|PHRF1_uc009ybz.1_Missense_Mutation_p.A103V	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	312	Arg-rich.						RNA polymerase binding|zinc ion binding				0						CTGGATGAAGCCATCGAGGCT	0.652													6	36					0	0	0.001168	0	0		T	598413	T	T	598413	3	4	36	1	0	0	0	0	1	0	0	0	11880	739	26	2	965	2	PHRF1	11	598413	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08		598413	134408103	100	32178											
PHRF1	57661	broad.mit.edu	37	chr11	607264	607264	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcgcctgtgaggctggActtgccagcagcccctgggg	4	6	19	12	1	0	1	0	1	0	0	0	2	0	2	4	6	3	2	4	6	0	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:607264A>G	uc001lqe.2	+	14	1939	c.1808A>G	c.(1807-1809)GAC>GGC	p.D603G	PHRF1_uc010qwc.1_Missense_Mutation_p.D602G|PHRF1_uc010qwd.1_Missense_Mutation_p.D601G|PHRF1_uc010qwe.1_Missense_Mutation_p.D599G|PHRF1_uc009ybz.1_Missense_Mutation_p.D393G|PHRF1_uc009yca.1_RNA	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	603							RNA polymerase binding|zinc ion binding				0						GTGAGGCTGGACTTGCCAGCA	0.672													29	74					0	0	0.013726	0	0		G	607264	G	G	607264	3	3	36	1	0	0	0	0	1	0	0	0	11880	275	10	3	1855	3	PHRF1	11	607264	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	8851	607264	134399252	101	32179											
RBMXL2	27288	broad.mit.edu	37	chr11	7111351	7111351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcagttatggccggagcGaccgctactcgaggggccga	8	5	16	12	5	0	0	0	0	0	0	1	4	0	1	3	4	3	4	3	4	2	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:7111351G>A	uc001mfc.2	+	1	1187	c.1000G>A	c.(1000-1002)GAC>AAC	p.D334N		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	334	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TGGCCGGAGCGACCGCTACTC	0.647													3	28					0	0	0.004672	0	0		A	7111351	A	A	7111351	3	1	36	1	0	0	0	0	1	0	0	0	13179	1058	37	1	1002	1	RBMXL2	11	7111351	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	6504087	7111351	127895165	102	32180											
SCUBE2	57758	broad.mit.edu	37	chr11	9048919	9048919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgagacgcacaggttttcCgcatcaccagatagtcccca	11	8	9	13	2	1	2	1	1	0	2	3	3	3	2	4	1	0	3	4	1	1	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:9048919C>T	uc001mhh.1	-	19	2686	c.2606G>A	c.(2605-2607)CGG>CAG	p.R869Q	SCUBE2_uc001mhi.1_Missense_Mutation_p.R841Q|SCUBE2_uc001mhj.1_Intron	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	869	CUB.					extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		ACAGGTTTTCCGCATCACCAG	0.592													6	17					0	0	0.001984	0	0		T	9048919	T	T	9048919	3	4	36	1	0	0	0	0	1	0	0	0	13970	652	23	1	409	1	SCUBE2	11	9048919	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	1937568	9048919	125957597	103	32181											
CCDC73	493860	broad.mit.edu	37	chr11	32635062	32635062	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctgatggatctagtggtctCtccttcagcaacaaagaaat	12	12	8	9	0	4	2	1	1	3	1	6	3	5	3	1	2	2	1	1	2	4	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:32635062C>G	uc001mtv.2	-	16	2846	c.2802G>C	c.(2800-2802)GAG>GAC	p.E934D		NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	934										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					CTAGTGGTCTCTCCTTCAGCA	0.398													26	94					0	0	0.003954	0	0		G	32635062	G	G	32635062	3	3	36	1	0	0	0	0	1	0	0	0	2849	912	32	5	449	5	CCDC73	11	32635062	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	23586143	32635062	102371454	104	32182											
OR5M8	219484	broad.mit.edu	37	chr11	56258070	56258070	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gattcctttgaggggggtctGagatacatgaagaaaagggt	12	10	15	4	0	1	4	0	3	1	2	2	6	2	4	1	4	1	0	1	4	4	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:56258070G>A	uc001nix.1	-	1	777	c.777C>T	c.(775-777)CTC>CTT	p.L259L		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	259	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					AGGGGGGTCTGAGATACATGA	0.413													16	70					0	0	0.004007	0	0		A	56258070	A	A	56258070	2	1	36	1	0	0	0	0	0	0	0	1	11195	1277	45	4		4	OR5M8	11	56258070	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	23623008	56258070	78748446	105	32183											
RTN4RL2	349667	broad.mit.edu	37	chr11	57244117	57244117	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctcctccaaccacctgtaCggggtggccgaggccggggc	6	5	15	15	3	0	0	0	0	0	0	2	1	2	0	6	6	3	2	6	6	2	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:57244117C>T	uc010rjt.1	+	3	996	c.996C>T	c.(994-996)TAC>TAT	p.Y332Y		NM_178570	NP_848665	Q86UN3	R4RL2_HUMAN	reticulon 4 receptor-like 2 precursor	332					axon regeneration	anchored to plasma membrane	receptor activity				0						ACCACCTGTACGGGGTGGCCG	0.577													4	8					0	0	0.009096	0	0		T	57244117	T	T	57244117	2	4	36	1	0	0	0	0	0	0	0	1	13757	547	19	1		1	RTN4RL2	11	57244117	Silent	SNP	C	TCGA-BR-6565-01A-11D-1800-08	986047	57244117	77762399	106	32184											
SF3B2	10992	broad.mit.edu	37	chr11	65827302	65827302	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgatgtgacagcgcaggAccctaagctcttggttcacc	9	8	11	13	2	2	1	1	1	1	0	2	3	2	2	2	2	2	4	2	2	1	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:65827302A>T	uc001ogy.1	+	13	1491	c.1451A>T	c.(1450-1452)GAC>GTC	p.D484V		NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	484					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						ACAGCGCAGGACCCTAAGCTC	0.562													11	57					0	0	0.013537	0	0		T	65827302	T	T	65827302	3	4	36	1	0	0	0	0	1	0	0	0	14176	275	10	5	1501	5	SF3B2	11	65827302	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	8583185	65827302	69179214	107	32185											
TCIRG1	10312	broad.mit.edu	37	chr11	67816583	67816583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccggctgctgctggagaCgctgccggagctcaccttcc	5	7	13	16	3	1	1	1	0	0	1	2	3	2	2	4	3	4	6	4	3	0	1	rs61730880		TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:67816583C>T	uc001one.2	+	15	1817	c.1709C>T	c.(1708-1710)ACG>ATG	p.T570M	TCIRG1_uc001ong.2_Missense_Mutation_p.T354M|TCIRG1_uc001onh.2_Missense_Mutation_p.T272M|TCIRG1_uc001oni.2_Missense_Mutation_p.T74M|TCIRG1_uc009ysd.2_5'Flank	NM_006019	NP_006010	Q13488	VPP3_HUMAN	T-cell, immune regulator 1 isoform a	570	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular defense response|cellular iron ion homeostasis|insulin receptor signaling pathway|positive regulation of cell proliferation|transferrin transport	apical plasma membrane|endosome membrane|integral to plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity			ovary(1)	1						CTGCTGGAGACGCTGCCGGAG	0.672													23	104					0	0	0.00278	0	0		T	67816583	T	T	67816583	3	4	36	1	0	0	0	0	1	0	0	0	15728	536	19	1	1763	1	TCIRG1	11	67816583	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	1989281	67816583	67189933	108	32186											
RSF1	51773	broad.mit.edu	37	chr11	77412169	77412169	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatttgaatttgctttttTgcatagaaccctttgtctca	9	20	5	7	0	1	2	1	1	1	1	2	2	1	2	1	0	3	2	1	0	5	9			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:77412169T>C	uc001oyn.2	-	6	2225	c.2105A>G	c.(2104-2106)CAA>CGA	p.Q702R	RSF1_uc001oym.2_Missense_Mutation_p.Q450R	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	702					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			TTTGCTTTTTTGCATAGAACC	0.403													5	106					0	0	0.000602	0	0		C	77412169	C	C	77412169	3	2	36	1	0	0	0	0	1	0	0	0	13724	1812	63	3	2264	3	RSF1	11	77412169	Missense_Mutation	SNP	T	TCGA-BR-6565-01A-11D-1800-08	9595586	77412169	57594347	109	32187											
DYNC2H1	79659	broad.mit.edu	37	chr11	103027275	103027275	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaaagatatagtaaatcaGgttggagataatagatgcct	16	11	11	3	0	1	3	1	0	0	3	1	5	1	4	1	3	1	2	1	3	7	6			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:103027275G>A	uc001pho.2	+	26	4047	c.3903G>A	c.(3901-3903)CAG>CAA	p.Q1301Q	DYNC2H1_uc001phn.1_Silent_p.Q1301Q|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	1301	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TAGTAAATCAGGTTGGAGATA	0.343													10	130					0	0	0.006214	0	0		A	103027275	A	A	103027275	2	1	36	1	0	0	0	0	0	0	0	1	4852	991	35	4		4	DYNC2H1	11	103027275	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	25615106	103027275	31979241	110	32188											
EXPH5	23086	broad.mit.edu	37	chr11	108383768	108383768	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caaccttggtctgtcctgggGaaagatggtggtgttctgtg	6	13	15	7	0	2	1	0	0	2	1	3	2	3	2	2	5	1	1	2	5	2	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:108383768G>A	uc001pkk.2	-	6	2577	c.2466C>T	c.(2464-2466)TTC>TTT	p.F822F	EXPH5_uc010rvy.1_Silent_p.F634F|EXPH5_uc010rvz.1_Silent_p.F666F|EXPH5_uc010rwa.1_Silent_p.F746F	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	822					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		CTGTCCTGGGGAAAGATGGTG	0.388													8	162					0	0	0.00308	0	0		A	108383768	A	A	108383768	2	1	36	1	0	0	0	0	0	0	0	1	5330	1165	41	4		4	EXPH5	11	108383768	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	5356493	108383768	26622748	111	32189											
ETS1	2113	broad.mit.edu	37	chr11	128359355	128359355	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccacatcacccagtccCgaacatgggtttctgtccac	9	8	7	17	1	2	0	1	0	1	0	4	1	4	0	4	1	2	1	4	1	1	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr11:128359355C>A	uc010sbs.1	-	3	549	c.233G>T	c.(232-234)CGG>CTG	p.R78L	ETS1_uc001qej.2_Missense_Mutation_p.R122L|ETS1_uc009zch.2_Intron|ETS1_uc009zcg.2_Missense_Mutation_p.R78L	NM_005238	NP_005229	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	78	PNT.				cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)		CACCCAGTCCCGAACATGGGT	0.527													18	112					8.10497e-08	8.9511e-08	0.010504	1	0		A	128359355	A	A	128359355	3	1	36	1	0	0	0	0	1	0	0	0	5283	652	23	5	1116	5	ETS1	11	128359355	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	19975587	128359355	6647161	112	32190											
LRTM2	654429	broad.mit.edu	37	chr12	1943618	1943618	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctgctaagcccaagcccGgggctgagccggagccggag	8	3	16	14	3	0	1	0	1	0	0	0	3	0	3	5	4	6	2	5	4	2	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr12:1943618G>C	uc001qjt.2	+	5	1650	c.844G>C	c.(844-846)GGG>CGG	p.G282R	CACNA2D4_uc001qjp.2_Intron|CACNA2D4_uc009zds.1_Intron|CACNA2D4_uc009zdt.1_Intron|CACNA2D4_uc009zdr.1_Intron|LRTM2_uc001qju.2_Missense_Mutation_p.G282R|LRTM2_uc010sdx.1_Missense_Mutation_p.G282R|LRTM2_uc001qjv.2_Missense_Mutation_p.G44R	NM_001039029	NP_001034118	Q8N967	LRTM2_HUMAN	leucine-rich repeats and transmembrane domains 2	282	Extracellular (Potential).					integral to membrane				large_intestine(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000834)			GCCCAAGCCCGGGGCTGAGCC	0.667													13	36					0	0	0.001855	0	0		C	1943618	C	C	1943618	3	2	36	1	0	0	0	0	1	0	0	0	9063	1116	39	5	854	5	LRTM2	12	1943618	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08		1943618	131908277	113	32191											
CD163L1	283316	broad.mit.edu	37	chr12	7528429	7528429	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagttagaccattccctttTccaaagtgatctcccacaga	12	11	5	13	0	1	3	0	1	1	2	4	3	3	3	4	0	0	1	4	0	3	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr12:7528429T>C	uc001qsy.2	-	10	2579	c.2553A>G	c.(2551-2553)GGA>GGG	p.G851G	CD163L1_uc010sge.1_Silent_p.G861G	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	851	SRCR 8.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						CATTCCCTTTTCCAAAGTGAT	0.448													4	98					0	0	0.000602	0	0		C	7528429	C	C	7528429	2	2	36	1	0	0	0	0	0	0	0	1	2971	1770	62	3		3	CD163L1	12	7528429	Silent	SNP	T	TCGA-BR-6565-01A-11D-1800-08	5584811	7528429	126323466	114	32192											
SLC2A3	6515	broad.mit.edu	37	chr12	8074090	8074090	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccagatctatctgcaccGtgtgcctgcccttcaaaggc	7	12	8	14	1	3	1	1	0	2	1	4	1	4	1	4	1	3	1	4	1	2	3	rs146012904		TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr12:8074090G>A	uc001qtr.2	-	10	1672	c.1410C>T	c.(1408-1410)CAC>CAT	p.H470H		NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	470	Cytoplasmic (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		TATCTGCACCGTGTGCCTGCC	0.527													13	185					0	0	0.001855	0	0		A	8074090	A	A	8074090	2	1	36	1	0	0	0	0	0	0	0	1	14570	1136	40	1		1	SLC2A3	12	8074090	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	545661	8074090	125777805	115	32193											
OVCH1	341350	broad.mit.edu	37	chr12	29596410	29596410	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgaatgatgtgatttaaaGgggctactaatctccattgg	11	13	11	6	0	1	3	0	3	1	0	2	3	1	3	1	3	1	2	1	3	5	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr12:29596410G>C	uc001rix.1	-	25	3041	c.3041C>G	c.(3040-3042)CCT>CGT	p.P1014R		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	1014					proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					GTGATTTAAAGGGGCTACTAA	0.338													11	157					0	0	0.010729	0	0		C	29596410	C	C	29596410	3	2	36	1	0	0	0	0	1	0	0	0	11342	1000	35	5	379	5	OVCH1	12	29596410	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	21522320	29596410	104255485	116	32194											
WNT1	7471	broad.mit.edu	37	chr12	49373448	49373448	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggcagttccggaatcgccGctggaactgtcccactgctc	6	9	12	14	3	0	0	0	0	0	0	4	2	2	2	3	3	2	4	3	3	2	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr12:49373448G>T	uc001rsu.2	+	2	500	c.302G>T	c.(301-303)CGC>CTC	p.R101L		NM_005430	NP_005421	P04628	WNT1_HUMAN	wingless-type MMTV integration site family,	101					brain segmentation|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|central nervous system morphogenesis|cerebellum formation|dermatome development|diencephalon development|embryonic axis specification|forebrain anterior/posterior pattern formation|fourth ventricle development|hemopoietic stem cell proliferation|hepatocyte differentiation|inner ear morphogenesis|mesoderm morphogenesis|midbrain development|midbrain-hindbrain boundary maturation during brain development|negative regulation of cell-cell adhesion|negative regulation of cell-substrate adhesion|negative regulation of DNA damage checkpoint|negative regulation of fat cell differentiation|neuron fate determination|positive regulation of fibroblast proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of lamellipodium assembly|positive regulation of Notch signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to wounding|signal transduction in response to DNA damage|Spemann organizer formation|T cell differentiation in thymus|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled-2 binding|transcription regulatory region DNA binding			kidney(1)	1				BRCA - Breast invasive adenocarcinoma(357;0.244)		CGGAATCGCCGCTGGAACTGT	0.657													10	34					7.48243e-07	8.08585e-07	0.006214	1	0		T	49373448	T	T	49373448	3	4	36	1	0	0	0	0	1	0	0	0	17407	1087	38	5	308	5	WNT1	12	49373448	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	19777038	49373448	84478447	117	32195											
KRT83	3889	broad.mit.edu	37	chr12	52714852	52714852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggggcgtgaggaggctctCgttgaccgacacggtggtga	7	7	19	8	4	1	3	0	3	1	0	2	6	1	4	1	6	0	2	1	6	0	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr12:52714852C>T	uc001saf.2	-	1	331	c.268G>A	c.(268-270)GAG>AAG	p.E90K		NM_002282	NP_002273	P78385	KRT83_HUMAN	keratin 83	90	Head.				epidermis development	keratin filament	structural molecule activity			skin(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		AGGAGGCTCTCGTTGACCGAC	0.667													35	110					0	0	0.004289	0	0		T	52714852	T	T	52714852	3	4	36	1	0	0	0	0	1	0	0	0	8513	893	31	1	1249	1	KRT83	12	52714852	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	3341404	52714852	81137043	118	32196											
NEUROD4	58158	broad.mit.edu	37	chr12	55420636	55420636	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggaactatatttgggCtttatctgaagtcctggaga	10	12	12	7	0	1	2	0	1	1	1	2	4	2	3	2	4	1	1	2	4	5	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr12:55420636C>A	uc001sgp.3	+	2	791	c.413C>A	c.(412-414)GCT>GAT	p.A138D		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	138	Helix-loop-helix motif.				amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						TATATTTGGGCTTTATCTGAA	0.502													14	73					6.31663e-08	7.0146e-08	0.003163	1	0		A	55420636	A	A	55420636	3	1	36	1	0	0	0	0	1	0	0	0	10369	797	28	5	415	5	NEUROD4	12	55420636	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	2705784	55420636	78431259	119	32197											
GEFT	115557	broad.mit.edu	37	chr12	58009044	58009044	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggaggtcatgtgctttGtgcccaagcgctgcaacgat	7	11	13	10	2	1	0	1	0	0	0	1	2	1	1	1	2	5	3	1	2	2	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr12:58009044G>T	uc001spb.2	+	11	1445	c.985G>T	c.(985-987)GTG>TTG	p.V329L	GEFT_uc009zpy.2_Missense_Mutation_p.V368L|GEFT_uc001soz.1_Intron|GEFT_uc001spa.2_Missense_Mutation_p.V223L|uc001spc.2_RNA|GEFT_uc001spd.2_Missense_Mutation_p.V34L	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	329	DH.				regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					CATGTGCTTTGTGCCCAAGCG	0.572													4	30					0.00116845	0.00121688	0.001168	1	0		T	58009044	T	T	58009044	3	4	36	1	0	0	0	0	1	0	0	0	6343	1377	48	5	1249	5	GEFT	12	58009044	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	2588408	58009044	75842851	120	32198											
NAV3	89795	broad.mit.edu	37	chr12	78334097	78334097	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccttctctctgttcaacAgatttacactgactgggcca	8	15	6	12	0	3	2	1	1	2	1	5	2	4	2	2	1	2	1	2	1	2	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr12:78334097A>G	uc001syp.2	+	2	417	c.244_splice	c.e2-2	p.I82_splice	NAV3_uc001syo.2_Splice_Site_p.I82_splice	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3							nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TCTGTTCAACAGATTTACACT	0.443										HNSCC(70;0.22)			10	216					0	0	0.00245	0	0		G	78334097	G	G	78334097	5	3	36	1	0	0	0	0	0	0	1	0	10203	202	7	3	248	3	NAV3	12	78334097	Splice_Site	SNP	A	TCGA-BR-6565-01A-11D-1800-08	20325053	78334097	55517798	121	32199											
NAV3	89795	broad.mit.edu	37	chr12	78573323	78573323	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaggatctgtgaatgcaCagaagctgaggcagagataa	14	8	12	7	0	2	4	1	2	1	2	2	6	2	5	0	2	2	3	0	2	3	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr12:78573323C>A	uc001syp.2	+	29	5551	c.5378C>A	c.(5377-5379)ACA>AAA	p.T1793K	NAV3_uc001syo.2_Missense_Mutation_p.T1771K|NAV3_uc010sub.1_Missense_Mutation_p.T1250K|NAV3_uc009zsf.2_Missense_Mutation_p.T602K	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1793						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TGTGAATGCACAGAAGCTGAG	0.468										HNSCC(70;0.22)			7	75					0.000274275	0.000287132	0.004482	1	0		A	78573323	A	A	78573323	3	1	36	1	0	0	0	0	1	0	0	0	10203	478	17	5	5422	5	NAV3	12	78573323	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	239226	78573323	55278572	122	32200											
UTP20	27340	broad.mit.edu	37	chr12	101684666	101684666	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattttttgaatgtttgcaAgtgagttctaatctttaagg	11	18	8	4	0	2	2	0	2	2	0	2	2	2	2	0	1	1	3	0	1	4	8			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr12:101684666A>G	uc001tia.1	+	8	1047	c.891A>G	c.(889-891)CAA>CAG	p.Q297Q	UTP20_uc009ztz.1_Silent_p.Q297Q	NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	297					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						AATGTTTGCAAGTGAGTTCTA	0.333													9	55					0	0	0.008291	0	0		G	101684666	G	G	101684666	2	3	36	1	0	0	0	0	0	0	0	1	17125	86	3	3		3	UTP20	12	101684666	Silent	SNP	A	TCGA-BR-6565-01A-11D-1800-08	23111343	101684666	32167229	123	32201											
TRPV4	59341	broad.mit.edu	37	chr12	110232195	110232195	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaccatggcacacaggtagGagaccacgttgatgtagaag	13	7	13	8	1	0	4	0	2	0	2	0	5	0	4	2	3	0	4	2	3	3	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr12:110232195G>T	uc001tpj.1	-	7	1525	c.1430C>A	c.(1429-1431)TCC>TAC	p.S477Y	TRPV4_uc001tpg.1_Missense_Mutation_p.S443Y|TRPV4_uc001tph.1_Missense_Mutation_p.S430Y|TRPV4_uc001tpi.1_Missense_Mutation_p.S370Y|TRPV4_uc001tpk.1_Missense_Mutation_p.S477Y|TRPV4_uc001tpl.1_Missense_Mutation_p.S417Y	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	477	Helical; (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						ACACAGGTAGGAGACCACGTT	0.627													18	96					9.16793e-09	1.03525e-08	0.00499	1	0		T	110232195	T	T	110232195	3	4	36	1	0	0	0	0	1	0	0	0	16624	1174	41	5	1221	5	TRPV4	12	110232195	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	8547529	110232195	23619700	124	32202											
TPTE2	93492	broad.mit.edu	37	chr13	20025355	20025355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtttcttatctagaaacCgcacaacttcctaaaaaaga	16	11	5	9	1	2	2	0	0	2	2	3	3	3	2	2	0	2	2	2	0	7	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr13:20025355C>T	uc001umd.2	-	12	963	c.752G>A	c.(751-753)CGG>CAG	p.R251Q	TPTE2_uc009zzk.2_RNA|TPTE2_uc009zzl.2_Missense_Mutation_p.R140Q|TPTE2_uc001ume.2_Missense_Mutation_p.R174Q|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	251	Phosphatase tensin-type.					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		ATCTAGAAACCGCACAACTTC	0.338													18	51					0	0	0.010504	0	0		T	20025355	T	T	20025355	3	4	36	1	0	0	0	0	1	0	0	0	16457	652	23	1	856	1	TPTE2	13	20025355	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08		20025355	95144523	125	32203											
NBEA	26960	broad.mit.edu	37	chr13	36223918	36223918	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactctgccccacttgaccAtccccgcagtggtgacagtg	8	8	9	16	1	1	2	0	2	1	0	2	2	2	2	5	1	1	1	5	1	0	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr13:36223918A>G	uc001uvb.2	+	51	8040	c.7834A>G	c.(7834-7836)ATC>GTC	p.I2612V	NBEA_uc010abi.2_Missense_Mutation_p.I1268V|NBEA_uc010tee.1_Missense_Mutation_p.I405V|NBEA_uc010tef.1_Missense_Mutation_p.I405V|NBEA_uc001uvd.2_Missense_Mutation_p.I190V	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2612						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CCACTTGACCATCCCCGCAGT	0.468													8	163					0	0	0.00308	0	0		G	36223918	G	G	36223918	3	3	36	1	0	0	0	0	1	0	0	0	10205	217	8	3	8036	3	NBEA	13	36223918	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	16198563	36223918	78945960	126	32204											
PCDH17	27253	broad.mit.edu	37	chr13	58207577	58207577	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcttctccatcgaccccaaGaccggcctaatccgtgtgaa	9	9	7	16	3	2	2	0	1	2	1	5	3	3	2	6	1	0	0	6	1	3	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr13:58207577G>C	uc001vhq.1	+	1	1789	c.897G>C	c.(895-897)AAG>AAC	p.K299N	PCDH17_uc010aec.1_Missense_Mutation_p.K299N	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	299	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TCGACCCCAAGACCGGCCTAA	0.592													3	57					0	0	0.004672	0	0		C	58207577	C	C	58207577	3	2	36	1	0	0	0	0	1	0	0	0	11531	933	33	5	899	5	PCDH17	13	58207577	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	21983659	58207577	56962301	127	32205											
ANKRD10	55608	broad.mit.edu	37	chr13	111563089	111563089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacgttgagtgtggctcccGctctcaccaactgcactaag	9	9	10	13	2	1	2	1	1	1	1	3	2	2	2	2	1	2	4	2	1	2	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr13:111563089G>A	uc001vrn.2	-	2	374	c.239C>T	c.(238-240)GCG>GTG	p.A80V	ANKRD10_uc001vro.1_Missense_Mutation_p.A80V|ANKRD10_uc001vrp.1_Missense_Mutation_p.A80V	NM_017664	NP_060134	Q9NXR5	ANR10_HUMAN	ankyrin repeat domain 10	80	ANK 2.									central_nervous_system(1)	1	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		all cancers(43;0.0882)|BRCA - Breast invasive adenocarcinoma(86;0.188)|Lung(89;0.208)			TGTGGCTCCCGCTCTCACCAA	0.507													6	46					0	0	0.001984	0	0		A	111563089	A	A	111563089	3	1	36	1	0	0	0	0	1	0	0	0	638	1087	38	1	1043	1	ANKRD10	13	111563089	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	53355512	111563089	3606789	128	32206											
OR4N2	390429	broad.mit.edu	37	chr14	20296431	20296431	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggtggtttctctcttccAcacagtgatttttcctttgt	6	18	7	10	0	2	1	0	1	2	0	5	1	4	1	2	2	0	1	2	2	1	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr14:20296431A>G	uc010tkv.1	+	1	824	c.824A>G	c.(823-825)CAC>CGC	p.H275R		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	275	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCTCTCTTCCACACAGTGATT	0.433													8	157					0	0	0.00308	0	0		G	20296431	G	G	20296431	3	3	36	1	0	0	0	0	1	0	0	0	11096	159	6	3	826	3	OR4N2	14	20296431	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08		20296431	87053109	129	32207											
AKAP6	9472	broad.mit.edu	37	chr14	33290805	33290805	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaggaccctggttatgaCgaggaggctgataaccatgg	12	8	14	7	1	0	3	0	3	0	0	0	6	0	5	2	5	1	2	2	5	3	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr14:33290805C>T	uc001wrq.2	+	13	3956	c.3786C>T	c.(3784-3786)GAC>GAT	p.D1262D		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1262					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CTGGTTATGACGAGGAGGCTG	0.453													8	45					0	0	0.006214	0	0		T	33290805	T	T	33290805	2	4	36	1	0	0	0	0	0	0	0	1	455	535	19	1		1	AKAP6	14	33290805	Silent	SNP	C	TCGA-BR-6565-01A-11D-1800-08	12994374	33290805	74058735	130	32208											
SOS2	6655	broad.mit.edu	37	chr14	50587046	50587046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcgaggaggaagaggaggagGaatcaggggctcttcactta	12	7	16	6	1	3	1	2	0	1	1	4	7	3	6	0	7	0	1	0	7	3	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr14:50587046G>A	uc001wxs.3	-	22	3534	c.3436C>T	c.(3436-3438)CCT>TCT	p.P1146S	SOS2_uc010ans.2_5'UTR|SOS2_uc010tql.1_Missense_Mutation_p.P1113S	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	1146					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					AGAGGAGGAGGAATCAGGGGC	0.378													6	55					0	0	0.001984	0	0		A	50587046	A	A	50587046	3	1	36	1	0	0	0	0	1	0	0	0	14962	1174	41	4	570	4	SOS2	14	50587046	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	17296241	50587046	56762494	131	32209											
KCNH5	27133	broad.mit.edu	37	chr14	63174364	63174364	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggggtacgcttttttcCgacagtatttttaaaatttc	8	17	8	8	2	0	0	0	0	0	0	2	1	1	0	2	2	1	3	2	2	4	9			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr14:63174364C>T	uc001xfx.2	-	11	2880	c.2829G>A	c.(2827-2829)TCG>TCA	p.S943S	KCNH5_uc001xfy.2_3'UTR	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	943	CAD (involved in subunit assembly) (By similarity).|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		CGCTTTTTTCCGACAGTATTT	0.478													8	202					0	0	0.00308	0	0		T	63174364	T	T	63174364	2	4	36	1	0	0	0	0	0	0	0	1	8051	639	23	1		1	KCNH5	14	63174364	Silent	SNP	C	TCGA-BR-6565-01A-11D-1800-08	12587318	63174364	44175176	132	32210											
C15orf2	23742	broad.mit.edu	37	chr15	24921098	24921098	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggcgcccccgctcccctGtcccgggacgcctccccgcc	1	5	11	24	6	0	0	0	0	0	0	3	1	3	1	9	2	0	1	9	2	0	0			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr15:24921098G>A	uc001ywo.2	+	1	558	c.84G>A	c.(82-84)CTG>CTA	p.L28L		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	28					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CCGCTCCCCTGTCCCGGGACG	0.706													6	9					0	0	0.001984	0	0		A	24921098	A	A	24921098	2	1	36	1	0	0	0	0	0	0	0	1	1787	1364	48	4		4	C15orf2	15	24921098	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08		24921098	77610294	133	32211											
MEGF11	84465	broad.mit.edu	37	chr15	66191074	66191074	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagacacctaccaacttcaTatatatttttattagatgtc	13	16	4	8	0	1	2	1	1	0	2	2	3	1	2	2	0	2	0	2	0	7	9			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr15:66191074T>C	uc002apm.2	-	22	3107	c.2966A>G	c.(2965-2967)TAT>TGT	p.Y989C	MEGF11_uc002apl.2_Missense_Mutation_p.Y914C|MEGF11_uc002apn.1_Missense_Mutation_p.Y989C	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	989						basolateral plasma membrane|integral to membrane				pancreas(1)	1						ACCAACTTCATATATATTTTT	0.433													15	75					0	0	0.003163	0	0		C	66191074	C	C	66191074	3	2	36	1	0	0	0	0	1	0	0	0	9479	1406	49	3	176	3	MEGF11	15	66191074	Missense_Mutation	SNP	T	TCGA-BR-6565-01A-11D-1800-08	41269976	66191074	36340318	134	32212											
NR2F2	7026	broad.mit.edu	37	chr15	96877403	96877403	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccactcgtacctgtccggaTatatttccctgctgttgcgc	5	13	9	14	3	0	0	0	0	0	0	3	1	2	1	4	1	3	3	4	1	3	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr15:96877403T>C	uc010uri.1	+	2	1765	c.541T>C	c.(541-543)TAT>CAT	p.Y181H	NR2F2_uc002btp.2_Missense_Mutation_p.Y48H|NR2F2_uc010urj.1_Missense_Mutation_p.Y28H|NR2F2_uc010urk.1_Missense_Mutation_p.Y28H	NM_021005	NP_066285	P24468	COT2_HUMAN	nuclear receptor subfamily 2, group F, member 2	181	Interaction with ZFPM2 (By similarity).				lipid metabolic process|negative regulation of cyclin-dependent protein kinase activity|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment	nucleus	ligand-regulated transcription factor activity|protein homodimerization activity|retinoic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(1)	3	Lung NSC(78;0.0186)|Melanoma(26;0.0195)|all_lung(78;0.0297)		OV - Ovarian serous cystadenocarcinoma(32;0.0856)			CCTGTCCGGATATATTTCCCT	0.622													25	155					0	0	0.00632	0	0		C	96877403	C	C	96877403	3	2	36	1	0	0	0	0	1	0	0	0	10647	1406	49	3	594	3	NR2F2	15	96877403	Missense_Mutation	SNP	T	TCGA-BR-6565-01A-11D-1800-08	30686329	96877403	5653989	135	32213											
CLCN7	1186	broad.mit.edu	37	chr16	1505133	1505133	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgggcgatggggcaggttAcctccgagtcaaaccttccg	7	8	15	11	3	1	0	1	0	0	0	3	2	3	0	4	5	2	2	4	5	2	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr16:1505133A>G	uc002clv.2	-	12	1208	c.1098_splice	c.e12+1	p.E366_splice	CLCN7_uc002clw.2_Splice_Site_p.E342_splice	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a							integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				GGGGCAGGTTACCTCCGAGTC	0.537													27	83					0	0	0.00632	0	0		G	1505133	G	G	1505133	5	3	36	1	0	0	0	0	0	0	1	0	3471	405	14	3	1373	3	CLCN7	16	1505133	Splice_Site	SNP	A	TCGA-BR-6565-01A-11D-1800-08		1505133	88849620	136	32214											
CD2BP2	10421	broad.mit.edu	37	chr16	30364821	30364821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caaacccttcagacgcatagCcaaccgttcccttgtttcct	9	11	5	16	2	1	1	1	0	0	1	3	1	3	1	5	0	3	3	5	0	3	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr16:30364821C>T	uc002dxr.2	-	4	929	c.676G>A	c.(676-678)GCT>ACT	p.A226T	CD2BP2_uc002dxs.2_Missense_Mutation_p.A226T	NM_006110	NP_006101	O95400	CD2B2_HUMAN	CD2 antigen (cytoplasmic tail) binding protein	226					assembly of spliceosomal tri-snRNP	cytoplasm|nucleoplasm|U5 snRNP	protein binding|ribonucleoprotein binding			ovary(1)	1						AGACGCATAGCCAACCGTTCC	0.632													10	65					0	0	0.013537	0	0		T	30364821	T	T	30364821	3	4	36	1	0	0	0	0	1	0	0	0	2998	739	26	2	361	2	CD2BP2	16	30364821	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	28859688	30364821	59989932	137	32215											
CNTNAP4	85445	broad.mit.edu	37	chr16	76569621	76569621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagggaaatgcagagaaagaCccattgggttcttttgtgac	12	10	13	6	0	1	3	0	1	1	2	1	6	1	4	1	2	1	2	1	2	2	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr16:76569621C>T	uc002feu.1	+	20	3320	c.2935C>T	c.(2935-2937)CCC>TCC	p.P979S	CNTNAP4_uc002fev.1_Missense_Mutation_p.P843S|CNTNAP4_uc010chb.1_Missense_Mutation_p.P906S|CNTNAP4_uc002fex.1_Missense_Mutation_p.P982S	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	979	Extracellular (Potential).|EGF-like 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						CAGAGAAAGACCCATTGGGTT	0.478													14	37					0	0	0.003163	0	0		T	76569621	T	T	76569621	3	4	36	1	0	0	0	0	1	0	0	0	3652	507	18	4	3018	4	CNTNAP4	16	76569621	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	46204800	76569621	13785132	138	32216											
TP53	7157	broad.mit.edu	37	chr17	7579368	7579368	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagcccagacggaaaccgtAgctgccctggtaggttttct	9	9	12	11	2	1	1	0	0	1	1	1	3	1	2	3	3	4	4	3	3	4	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr17:7579368A>C	uc002gim.2	-	4	513	c.319T>G	c.(319-321)TAC>GAC	p.Y107D	TP53_uc002gig.1_Missense_Mutation_p.Y107D|TP53_uc002gih.2_Missense_Mutation_p.Y107D|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Missense_Mutation_p.Y107D|TP53_uc010cni.1_Missense_Mutation_p.Y107D|TP53_uc002gij.2_Missense_Mutation_p.Y107D|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Missense_Mutation_p.Y68D|TP53_uc010cnk.1_Missense_Mutation_p.Y122D	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	107	Interaction with HIPK1 (By similarity).||Interaction with WWOX.		Y -> D (in sporadic cancers; somatic mutation).|Y -> C (in a sporadic cancer; somatic mutation).|Y -> H (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.Y107*(6)|p.Y107Y(3)|p.G59fs*23(3)|p.V73fs*9(1)|p.S106_Y107delSY(1)|p.G105_T125del21(1)|p.Y107Q(1)|p.Y107fs*44(1)|p.W91fs*13(1)|p.Y103_G112>C(1)|p.Y107D(1)|p.P13fs*18(1)|p.S33fs*23(1)|p.Y107C(1)|p.Y107fs*38(1)|p.Y103_L111>L(1)|p.Y103fs*15(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CGGAAACCGTAGCTGCCCTGG	0.617		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			20	40					0	0	0.007413	0	0		C	7579368	C	C	7579368	3	2	36	1	0	0	0	0	1	0	0	0	16407	420	15	5	983	5	TP53	17	7579368	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08		7579368	73615842	139	32217											
MYH10	4628	broad.mit.edu	37	chr17	8415782	8415782	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatacctgaatatgtgctTgcatttttttcttttcattt	8	22	4	7	0	2	1	1	1	1	0	2	1	2	1	1	0	4	2	1	0	4	10			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr17:8415782T>G	uc002gll.2	-	22	2942	c.2846A>C	c.(2845-2847)CAA>CCA	p.Q949P	MYH10_uc002glm.2_Missense_Mutation_p.Q980P|MYH10_uc010cnx.2_Missense_Mutation_p.Q958P	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	949	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						AATATGTGCTTGCATTTTTTT	0.308													4	48					0	0	0.000602	0	0		G	8415782	G	G	8415782	3	3	36	1	0	0	0	0	1	0	0	0	10048	1812	63	5	3164	5	MYH10	17	8415782	Missense_Mutation	SNP	T	TCGA-BR-6565-01A-11D-1800-08	836414	8415782	72779428	140	32218											
SLC13A2	9058	broad.mit.edu	37	chr17	26816245	26816245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaggaggcctactgcgCgtatgccatcatcctcatgg	7	9	11	14	2	2	0	2	0	0	0	3	1	3	1	4	3	4	2	4	3	2	2	rs78103056		TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr17:26816245C>T	uc002hbh.2	+	2	183	c.116C>T	c.(115-117)GCG>GTG	p.A39V	SLC13A2_uc010wal.1_Intron|SLC13A2_uc010wam.1_5'UTR|SLC13A2_uc010wan.1_Missense_Mutation_p.A39V|SLC13A2_uc010wao.1_Intron|SLC13A2_uc002hbi.2_5'UTR	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	39						integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	GCCTACTGCGCGTATGCCATC	0.607													8	85					0	0	0.004482	0	0		T	26816245	T	T	26816245	3	4	36	1	0	0	0	0	1	0	0	0	14417	768	27	1	122	1	SLC13A2	17	26816245	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	18400463	26816245	54378965	141	32219											
ACACA	31	broad.mit.edu	37	chr17	35454770	35454770	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccattgtacttacgctaaTaacacccttctcctgcatcc	11	12	3	15	1	1	0	0	0	1	0	3	0	2	0	4	0	5	3	4	0	5	6			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr17:35454770T>C	uc002hnm.2	-	53	6795	c.6604A>G	c.(6604-6606)ATT>GTT	p.I2202V	ACACA_uc002hnk.2_Missense_Mutation_p.I2124V|ACACA_uc002hnl.2_Missense_Mutation_p.I2144V|ACACA_uc002hnn.2_Missense_Mutation_p.I2202V|ACACA_uc002hno.2_Missense_Mutation_p.I2239V|ACACA_uc010cuy.2_Missense_Mutation_p.I847V|ACACA_uc010wdb.1_Missense_Mutation_p.I240V|ACACA_uc010wdc.1_Missense_Mutation_p.I328V	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	2202					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	CTTACGCTAATAACACCCTTC	0.522													10	163					0	0	0.008291	0	0		C	35454770	C	C	35454770	3	2	36	1	0	0	0	0	1	0	0	0	106	1406	49	3	452	3	ACACA	17	35454770	Missense_Mutation	SNP	T	TCGA-BR-6565-01A-11D-1800-08	8638525	35454770	45740440	142	32220											
KRT36	8689	broad.mit.edu	37	chr17	39643839	39643839	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagccccacctgggtgttgaAccaggcctccacatctctgc	7	8	9	17	0	1	1	0	1	1	0	3	1	2	1	6	2	3	1	6	2	1	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr17:39643839A>T	uc002hwt.2	-	4	850	c.850T>A	c.(850-852)TTC>ATC	p.F284I		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	284	Rod.|Coil 2.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)				TGGGTGTTGAACCAGGCCTCC	0.607													8	282					0	0	0.004482	0	0		T	39643839	T	T	39643839	3	4	36	1	0	0	0	0	1	0	0	0	8489	43	2	5	569	5	KRT36	17	39643839	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	4189069	39643839	41551371	143	32221											
PLCD3	113026	broad.mit.edu	37	chr17	43197709	43197709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttgaagaggaggtaggCgtacatgtcgttcatgtcca	10	10	12	9	2	1	2	1	1	0	1	3	3	2	3	2	3	1	3	2	3	3	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr17:43197709C>T	uc002iib.2	-	4	781	c.667G>A	c.(667-669)GCC>ACC	p.A223T		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	223	EF-hand 2.				intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	AGGAGGTAGGCGTACATGTCG	0.572													7	24					0	0	0.001984	0	0		T	43197709	T	T	43197709	3	4	36	1	0	0	0	0	1	0	0	0	12051	768	27	1	1749	1	PLCD3	17	43197709	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	3553870	43197709	37997501	144	32222											
DDX5	1655	broad.mit.edu	37	chr17	62500356	62500356	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccagggaaattggcttcAtaaaaatttagaactggctt	14	13	8	6	0	1	1	1	0	0	1	1	2	1	2	1	3	2	2	1	3	7	7			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr17:62500356A>C	uc002jek.2	-	3	538	c.291T>G	c.(289-291)TAT>TAG	p.Y97*	CCDC45_uc002jem.2_5'Flank|CCDC45_uc002jen.2_5'Flank|CCDC45_uc010wqb.1_5'Flank|DDX5_uc010deh.2_Nonsense_Mutation_p.Y97*|DDX5_uc002jej.2_5'UTR|DDX5_uc010wqa.1_Intron|DDX5_uc002jel.1_5'Flank	NM_004396	NP_004387	P17844	DDX5_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 5	97	Q motif.				cell growth|regulation of alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA helicase activity|transcription cofactor activity			ovary(2)|lung(1)	3	Breast(5;2.15e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			AATTGGCTTCATAAAAATTTA	0.388			T	ETV4	prostate								14	90					0	0	0.001855	0	0		C	62500356	C	C	62500356	4	2	36	1	0	0	0	0	0	1	0	0	4370	224	8	5	1597	5	DDX5	17	62500356	Nonsense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	19302647	62500356	18694854	145	32223											
SOCS3	9021	broad.mit.edu	37	chr17	76354533	76354534	+	Missense_Mutation	DNP	CG	AA	AA																															cgtactggtccaggaactccCgaatgggccccggcagctgg																										TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr17:76354533_76354534CG>AA	uc002jvl.2	-	2	1059_1060	c.643_644CG>TT	c.(643-645)CGG>TTG	p.R215L		NM_003955	NP_003946	O14543	SOCS3_HUMAN	suppressor of cytokine signaling 3	215	SOCS box.				anti-apoptosis|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|regulation of growth|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol	protein kinase inhibitor activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.000688)|OV - Ovarian serous cystadenocarcinoma(97;0.0554)			CAGGAACTCCCGAATGGGCCCC	0.624													10	44					0	0	0.004672	0	0		AA	76354534	AA	AA	76354533	3	1	36	1	0	0	0	0	1	0	0	0	14940	652	23	5	37	5	SOCS3	17	76354533	Missense_Mutation	DNP	CG	TCGA-BR-6565-01A-11D-1800-08	13854177	76354533	4840677	146	32224											
USP36	57602	broad.mit.edu	37	chr17	76803161	76803161	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttagaatctgctccactTggcggcgttttggagtggcc	5	13	13	10	2	2	1	0	0	2	1	3	2	3	2	2	4	1	2	2	4	2	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr17:76803161T>C	uc002jvz.1	-	14	2290	c.1965A>G	c.(1963-1965)CCA>CCG	p.P655P	USP36_uc002jwa.1_Silent_p.P655P|USP36_uc002jwb.1_Silent_p.P292P|USP36_uc002jwc.1_Silent_p.P355P	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	655					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			CTGCTCCACTTGGCGGCGTTT	0.587													10	47					0	0	0.008291	0	0		C	76803161	C	C	76803161	2	2	36	1	0	0	0	0	0	0	0	1	17093	1799	63	3		3	USP36	17	76803161	Silent	SNP	T	TCGA-BR-6565-01A-11D-1800-08	448628	76803161	4392049	147	32225											
CANT1	124583	broad.mit.edu	37	chr17	76989930	76989930	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgctgtagcgctcctggCtggcgcggcgcggcaggaag	4	7	17	13	6	1	0	0	0	1	0	3	1	2	1	1	5	1	5	1	5	2	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr17:76989930C>G	uc002jwn.2	-	6	1347	c.908G>C	c.(907-909)AGC>ACC	p.S303T	CANT1_uc002jwk.2_Missense_Mutation_p.S303T|CANT1_uc002jwj.2_Missense_Mutation_p.S303T|CANT1_uc002jwl.2_Intron|CANT1_uc002jwm.1_RNA	NM_001159772	NP_001153244	Q8WVQ1	CANT1_HUMAN	calcium activated nucleotidase 1	303	Lumenal (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to membrane	calcium ion binding|nucleoside-diphosphatase activity|signal transducer activity				0			BRCA - Breast invasive adenocarcinoma(99;0.0362)|OV - Ovarian serous cystadenocarcinoma(97;0.139)			GCGCTCCTGGCTGGCGCGGCG	0.677			T	ETV4	prostate								4	12					0	0	0.000602	0	0		G	76989930	G	G	76989930	3	3	36	1	0	0	0	0	1	0	0	0	2620	797	28	5	301	5	CANT1	17	76989930	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	186769	76989930	4205280	148	32226											
C18orf34	374864	broad.mit.edu	37	chr18	30847250	30847250	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggtcataaactcttctCaaatcttccagctaagaaag	14	12	6	9	0	4	1	2	0	3	1	6	1	5	1	1	1	2	2	1	1	5	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr18:30847250C>A	uc002kxn.2	-	12	1330	c.1188G>T	c.(1186-1188)TTG>TTT	p.L396F	C18orf34_uc010dme.1_5'Flank|C18orf34_uc010xbr.1_Missense_Mutation_p.L396F|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.L396F|C18orf34_uc002kxp.2_Missense_Mutation_p.L396F	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	396	Potential.									ovary(1)	1						AAACTCTTCTCAAATCTTCCA	0.264													19	127					2.27731e-05	2.40915e-05	0.012319	1	0		A	30847250	A	A	30847250	3	1	36	1	0	0	0	0	1	0	0	0	1905	825	29	5	1459	5	C18orf34	18	30847250	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08		30847250	47229998	149	32227											
C18orf54	162681	broad.mit.edu	37	chr18	51904563	51904563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggctttgcaccatttatctCgcctgagagacctggttgat	7	13	11	10	1	1	3	0	2	1	1	2	4	1	3	3	2	1	3	3	2	1	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr18:51904563C>T	uc002lfn.3	+	8	1182	c.1066C>T	c.(1066-1068)CGC>TGC	p.R356C	C18orf54_uc002lfo.3_Missense_Mutation_p.R517C	NM_173529	NP_775800	Q8IYD9	CR054_HUMAN	hypothetical protein LOC162681 precursor	356						extracellular region				ovary(1)|skin(1)	2				Colorectal(16;0.0206)|READ - Rectum adenocarcinoma(59;0.186)		CCATTTATCTCGCCTGAGAGA	0.363													13	32					0	0	0.00245	0	0		T	51904563	T	T	51904563	3	4	36	1	0	0	0	0	1	0	0	0	1907	884	31	1	1092	1	C18orf54	18	51904563	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	21057313	51904563	26172685	150	32228											
FBN3	84467	broad.mit.edu	37	chr19	8140221	8140221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccttggtggcattcacagcGgaagctgcccggggtgttgt	5	10	16	10	2	1	0	1	0	0	0	1	1	1	1	2	5	3	3	2	5	1	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr19:8140221G>A	uc002mjf.2	-	59	7549	c.7528C>T	c.(7528-7530)CGC>TGC	p.R2510C	FBN3_uc002mje.2_Intron	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2510	EGF-like 41; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CATTCACAGCGGAAGCTGCCC	0.617													6	36					0	0	0.001168	0	0		A	8140221	A	A	8140221	3	1	36	1	0	0	0	0	1	0	0	0	5718	1116	39	1	921	1	FBN3	19	8140221	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08		8140221	50988762	151	32229											
WIZ	58525	broad.mit.edu	37	chr19	15538061	15538061	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgagatgtgaaggtccgaGgggctgcgggcttccagtga	7	8	19	7	2	0	3	0	3	0	1	2	5	2	3	2	5	1	2	2	5	1	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr19:15538061G>A	uc002nbc.2	-	4	1358	c.1335C>T	c.(1333-1335)CCC>CCT	p.P445P	WIZ_uc002nba.3_Silent_p.P312P|WIZ_uc002nbb.3_Silent_p.P271P	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	1128	Pro-rich.					nucleus	zinc ion binding				0						GAAGGTCCGAGGGGCTGCGGG	0.667													7	79					0	0	0.004482	0	0		A	15538061	A	A	15538061	2	1	36	1	0	0	0	0	0	0	0	1	17401	987	35	4		4	WIZ	19	15538061	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	7397840	15538061	43590922	152	32230											
PIK3R2	5296	broad.mit.edu	37	chr19	18273284	18273284	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagtccgagatgcttctagCaagatccagggcgagtacac	11	8	11	11	2	1	2	0	0	1	2	3	4	3	2	2	1	3	3	2	1	4	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr19:18273284C>G	uc002nia.1	+	9	1589	c.1077C>G	c.(1075-1077)AGC>AGG	p.S359R	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	359	SH2 1.				fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						ATGCTTCTAGCAAGATCCAGG	0.602													3	42					0	0	0.004672	0	0		G	18273284	G	G	18273284	3	3	36	1	0	0	0	0	1	0	0	0	11938	709	25	5	1107	5	PIK3R2	19	18273284	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	2735223	18273284	40855699	153	32231											
CLIP3	25999	broad.mit.edu	37	chr19	36515332	36515332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcacgcggtctcccaggCgcaagcccagtgcgctaagc	8	4	13	16	4	1	0	0	0	1	0	2	0	1	0	2	2	4	4	2	2	2	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr19:36515332C>T	uc010eeq.1	-	6	1166	c.884G>A	c.(883-885)CGC>CAC	p.R295H	uc002ocy.2_Intron|CLIP3_uc002ocz.1_Missense_Mutation_p.R295H	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	295					chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GTCTCCCAGGCGCAAGCCCAG	0.607													7	49					0	0	0.00308	0	0		T	36515332	T	T	36515332	3	4	36	1	0	0	0	0	1	0	0	0	3537	768	27	1	791	1	CLIP3	19	36515332	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	18242048	36515332	22613651	154	32232											
KCNK6	9424	broad.mit.edu	37	chr19	38817329	38817329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccatgctgctgctgaccgCctcagcccagcgcctgtcac	6	7	9	19	2	2	1	2	1	0	0	2	1	2	1	5	0	5	3	5	0	0	0			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr19:38817329C>T	uc002oic.2	+	2	529	c.419C>T	c.(418-420)GCC>GTC	p.A140V	KCNK6_uc002oid.2_Missense_Mutation_p.A6V	NM_004823	NP_004814	Q9Y257	KCNK6_HUMAN	potassium channel, subfamily K, member 6	140	Helical; (Potential).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)	1	all_cancers(60;5.83e-07)		Lung(45;0.00047)|LUSC - Lung squamous cell carcinoma(53;0.000613)		Ibutilide(DB00308)|Quinidine(DB00908)	CTGCTGACCGCCTCAGCCCAG	0.667													5	105					0	0	0.001168	0	0		T	38817329	T	T	38817329	3	4	36	1	0	0	0	0	1	0	0	0	8086	739	26	2	425	2	KCNK6	19	38817329	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08	2301997	38817329	20311654	155	32233											
SPTBN4	57731	broad.mit.edu	37	chr19	41077990	41077990	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttctacaaggactccaaggGcccggcatccgggagcacac	10	5	11	15	2	1	0	0	0	1	0	3	2	3	2	3	4	2	2	3	4	3	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr19:41077990G>T	uc002ony.2	+	34	7471	c.7385G>T	c.(7384-7386)GGC>GTC	p.G2462V	SPTBN4_uc002onz.2_Missense_Mutation_p.G2462V|SPTBN4_uc010egx.2_Missense_Mutation_p.G1205V	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	2462	PH.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GACTCCAAGGGCCCGGCATCC	0.597													47	320					2.64894e-19	3.07767e-19	0.01441	1	0		T	41077990	T	T	41077990	3	4	36	1	0	0	0	0	1	0	0	0	15146	1203	42	5	7609	5	SPTBN4	19	41077990	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	2260661	41077990	18050993	156	32234											
GPR32	2854	broad.mit.edu	37	chr19	51274341	51274341	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcagcgggcgagctggctgGcctttggggtgtggctcctg	2	10	19	10	2	0	0	0	0	0	0	1	1	1	0	2	6	3	4	2	6	0	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr19:51274341G>C	uc010ycf.1	+	1	484	c.484G>C	c.(484-486)GCC>CCC	p.A162P		NM_001506	NP_001497	O75388	GPR32_HUMAN	G protein-coupled receptor 32	162	Helical; Name=4; (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		GAGCTGGCTGGCCTTTGGGGT	0.597													22	87					0	0	0.014323	0	0		C	51274341	C	C	51274341	3	2	36	1	0	0	0	0	1	0	0	0	6703	1203	42	5	486	5	GPR32	19	51274341	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	10196351	51274341	7854642	157	32235											
ZNF175	7728	broad.mit.edu	37	chr19	52091638	52091638	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccttcaacaacaggtcaaActtcaataaacaccaaacaa	19	6	4	12	0	3	0	3	0	0	0	3	0	3	0	2	2	5	0	2	2	8	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr19:52091638A>G	uc002pxb.2	+	5	2432	c.2054A>G	c.(2053-2055)AAC>AGC	p.N685S	uc002pxc.1_5'Flank	NM_007147	NP_009078	Q9Y473	ZN175_HUMAN	zinc finger protein 175	685	C2H2-type 15.				response to virus	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000426)|OV - Ovarian serous cystadenocarcinoma(262;0.0257)		AACAGGTCAAACTTCAATAAA	0.403													7	45					0	0	0.00308	0	0		G	52091638	G	G	52091638	3	3	36	1	0	0	0	0	1	0	0	0	17770	43	2	3	2068	3	ZNF175	19	52091638	Missense_Mutation	SNP	A	TCGA-BR-6565-01A-11D-1800-08	817297	52091638	7037345	158	32236											
AVP	551	broad.mit.edu	37	chr20	3065247	3065247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcttgccgcccctcgggCagttctggaagtagcacgcg	5	8	12	16	4	2	0	0	0	2	0	3	1	2	1	4	2	2	4	4	2	2	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr20:3065247C>T	uc002whu.2	-	1	124	c.74G>A	c.(73-75)TGC>TAC	p.C25Y		NM_000490	NP_000481	P01185	NEU2_HUMAN	arginine vasopressin-neurophysin II	25					cell-cell signaling|ERK1 and ERK2 cascade|generation of precursor metabolites and energy|negative regulation of apoptosis|negative regulation of release of cytochrome c from mitochondria|positive regulation of gene expression|positive regulation of peptidyl-serine phosphorylation|protein kinase C signaling cascade|sodium-independent organic anion transport|transmembrane transport|vasoconstriction|water transport	cytosol|soluble fraction	caspase inhibitor activity|neurohypophyseal hormone activity|protein kinase activity|signal transducer activity|V1A vasopressin receptor binding				0				COAD - Colon adenocarcinoma(99;0.00643)		GCCCCTCGGGCAGTTCTGGAA	0.642													21	248					0	0	0.010504	0	0		T	3065247	T	T	3065247	3	4	36	1	0	0	0	0	1	0	0	0	1230	710	25	2	432	2	AVP	20	3065247	Missense_Mutation	SNP	C	TCGA-BR-6565-01A-11D-1800-08		3065247	59960273	159	32237											
C20orf4	25980	broad.mit.edu	37	chr20	34832803	34832803	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagatccccgctgacttcttCgtagacattgtctcccaaga	9	11	8	13	2	2	4	0	1	2	3	5	5	3	4	3	0	0	2	3	0	2	4			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr20:34832803C>T	uc002xfc.1	+	3	1035	c.942C>T	c.(940-942)TTC>TTT	p.F314F	C20orf4_uc002xfd.1_Silent_p.F314F|C20orf4_uc002xfe.1_Silent_p.F314F	NM_015511	NP_056326	Q9Y312	CT004_HUMAN	hypothetical protein LOC25980	314											0	Breast(12;0.0162)	Myeloproliferative disorder(115;0.0393)				CTGACTTCTTCGTAGACATTG	0.517													5	87					0	0	0.001168	0	0		T	34832803	T	T	34832803	2	4	36	1	0	0	0	0	0	0	0	1	2114	883	31	1		1	C20orf4	20	34832803	Silent	SNP	C	TCGA-BR-6565-01A-11D-1800-08	31767556	34832803	28192717	160	32238											
TPTE	7179	broad.mit.edu	37	chr21	10907025	10907025	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagattatccaattcattTtttggtagataaagcctaag	13	16	7	5	0	1	2	1	0	0	2	2	2	2	2	2	1	1	2	2	1	7	9			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr21:10907025T>G	uc002yip.1	-	24	1904	c.1536A>C	c.(1534-1536)AAA>AAC	p.K512N	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.K494N|TPTE_uc002yir.1_Missense_Mutation_p.K474N|TPTE_uc010gkv.1_Missense_Mutation_p.K374N	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	512	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CCAATTCATTTTTTGGTAGAT	0.363													8	48					0	0	0.004482	0	0		G	10907025	G	G	10907025	3	3	36	1	0	0	0	0	1	0	0	0	16456	1838	64	5	123	5	TPTE	21	10907025	Missense_Mutation	SNP	T	TCGA-BR-6565-01A-11D-1800-08		10907025	37222870	161	32239											
ADAMTS1	9510	broad.mit.edu	37	chr21	28212246	28212246	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctgtagcgcactcgtttGccttcacagtacttccctcc	6	13	7	15	2	2	0	1	0	1	0	5	1	4	0	3	0	3	4	3	0	2	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chr21:28212246G>C	uc002ymf.2	-	6	2255	c.1800C>G	c.(1798-1800)GGC>GGG	p.G600G		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	600	TSP type-1 1.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		GCACTCGTTTGCCTTCACAGT	0.483													21	134					0	0	0.00333	0	0		C	28212246	C	C	28212246	2	2	36	1	0	0	0	0	0	0	0	1	255	1306	46	5		5	ADAMTS1	21	28212246	Silent	SNP	G	TCGA-BR-6565-01A-11D-1800-08	17305221	28212246	19917649	162	32240											
USP51	158880	broad.mit.edu	37	chrX	55515195	55515195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggctcacgctcttgtaatgGctccagcttcatctcctcgg	5	12	10	14	2	4	0	2	0	2	0	7	0	5	0	2	3	1	5	2	3	1	3			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chrX:55515195G>A	uc004dun.1	-	2	257	c.178C>T	c.(178-180)CCA>TCA	p.P60S	USP51_uc011moo.1_Missense_Mutation_p.P5S	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	60					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						TCTTGTAATGGCTCCAGCTTC	0.637													7	26					0	0	0.00308	0	0		A	55515195	A	A	55515195	3	1	36	1	0	0	0	0	1	0	0	0	17109	1203	42	2	1961	2	USP51	23	55515195	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08		55515195	99755365	163	32241											
POF1B	79983	broad.mit.edu	37	chrX	84586035	84586035	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagatcagcaagcaactcTccaaaatatctggggtccaa	14	8	7	12	0	4	1	2	0	2	1	6	1	5	1	2	2	3	2	2	2	6	1			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chrX:84586035T>G	uc004eer.2	-	7	920	c.774A>C	c.(772-774)GGA>GGC	p.G258G	POF1B_uc004ees.2_Silent_p.G258G	NM_024921	NP_079197	Q8WVV4	POF1B_HUMAN	premature ovarian failure, 1B	258							actin binding				0						CAAGCAACTCTCCAAAATATC	0.358													4	41					0	0	0.009096	0	0		G	84586035	G	G	84586035	2	3	36	1	0	0	0	0	0	0	0	1	12201	1538	54	5		5	POF1B	23	84586035	Silent	SNP	T	TCGA-BR-6565-01A-11D-1800-08	29070840	84586035	70684525	164	32242											
FRMD7	90167	broad.mit.edu	37	chrX	131212239	131212239	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtctaaattctgacccaaaAggaaaacgaatagttttcat	16	11	7	7	1	3	1	1	1	2	0	3	3	3	2	1	2	1	1	1	2	8	5			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chrX:131212239A>C	uc004ewn.2	-	12	1984	c.1806T>G	c.(1804-1806)CCT>CCG	p.P602P	FRMD7_uc011muy.1_Silent_p.P587P	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	602					regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					CTGACCCAAAAGGAAAACGAA	0.433													11	78					0	0	0.008291	0	0		C	131212239	C	C	131212239	2	2	36	1	0	0	0	0	0	0	0	1	6069	59	3	5		5	FRMD7	23	131212239	Silent	SNP	A	TCGA-BR-6565-01A-11D-1800-08	46626204	131212239	24058321	165	32243											
USP26	83844	broad.mit.edu	37	chrX	132161820	132161820	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttccttttgctatctcaaaAgatttgctacttgatttctc	8	19	4	10	0	2	2	1	1	2	1	5	2	3	2	1	0	3	2	1	0	4	8			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chrX:132161820A>C	uc010nrm.1	-	6	899	c.429T>G	c.(427-429)TCT>TCG	p.S143S	USP26_uc011mvf.1_Silent_p.S143S	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	143					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					CTATCTCAAAAGATTTGCTAC	0.408													11	44					0	0	0.008291	0	0		C	132161820	C	C	132161820	2	2	36	1	0	0	0	0	0	0	0	1	17083	59	3	5		5	USP26	23	132161820	Silent	SNP	A	TCGA-BR-6565-01A-11D-1800-08	949581	132161820	23108740	166	32244											
FLNA	2316	broad.mit.edu	37	chrX	153594681	153594681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagcctcccctcacctgccGtaaagatctcaaagtaggtg	10	8	9	14	1	2	1	2	0	1	1	4	1	3	1	5	1	2	3	5	1	4	2			TCGA-BR-6565-01A-11D-1800-08	TCGA-BR-6565-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7f702b28-c460-4265-9d93-83a18b65255f	0ce7327b-a7c7-4d7d-aac6-5d93385d2301	g.chrX:153594681G>A	uc004fkk.2	-	8	1472	c.1223C>T	c.(1222-1224)ACG>ATG	p.T408M	FLNA_uc010nuu.1_Missense_Mutation_p.T408M	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	408	Filamin 2.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTCACCTGCCGTAAAGATCTC	0.637													4	37					0	0	0.000602	0	0		A	153594681	A	A	153594681	3	1	36	1	0	0	0	0	1	0	0	0	5947	1145	40	1	6884	1	FLNA	23	153594681	Missense_Mutation	SNP	G	TCGA-BR-6565-01A-11D-1800-08	21432861	153594681	1675879	167	32245											
KLHL17	339451	broad.mit.edu	37	chr1	900386	900386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacggatggttgtacgccGtggggggtaacgacggtagc	7	8	19	7	5	0	0	0	0	0	0	0	3	0	2	1	7	3	4	1	7	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:900386G>A	uc001aca.1	+	12	1851	c.1744G>A	c.(1744-1746)GTG>ATG	p.V582M	KLHL17_uc001acc.1_RNA|PLEKHN1_uc001acd.2_5'Flank|PLEKHN1_uc001acf.2_5'Flank|PLEKHN1_uc001ace.2_5'Flank	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	582	Kelch 6.|Interaction with F-actin (By similarity).				actin cytoskeleton organization	actin cytoskeleton|cell junction|postsynaptic density|postsynaptic membrane	protein complex scaffold				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.52e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.59e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000469)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GTTGTACGCCGTGGGGGGTAA	0.657													7	39					0	0	0.00308	0	0		A	900386	A	A	900386	3	1	37	1	0	0	0	0	1	0	0	0	8388	1145	40	1	1790	1	KLHL17	1	900386	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08		900386	248350235	1	32246											
AGRN	375790	broad.mit.edu	37	chr1	977059	977059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcctcctgcagaaagtgcGctccggccagtgccagggtc	6	8	12	15	2	1	1	0	0	1	1	5	1	3	1	5	2	3	2	5	2	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:977059G>A	uc001ack.1	+	6	1204	c.1154G>A	c.(1153-1155)CGC>CAC	p.R385H		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	385	Kazal-like 3.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		CAGAAAGTGCGCTCCGGCCAG	0.736													16	41					0	0	0.00499	0	0		A	977059	A	A	977059	3	1	37	1	0	0	0	0	1	0	0	0	397	1087	38	1	1176	1	AGRN	1	977059	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	76673	977059	248273562	2	32247											
ATAD3B	83858	broad.mit.edu	37	chr1	1421563	1421563	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaaccggggcctgtacaGgcacatcctgctgtatgggc	9	7	14	11	1	0	1	0	0	0	1	1	2	1	1	3	4	3	4	3	4	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:1421563G>T	uc001afv.2	+	10	1138	c.1037G>T	c.(1036-1038)AGG>ATG	p.R346M	ATAD3B_uc001afx.2_Missense_Mutation_p.R300M	NM_031921	NP_114127	Q5T9A4	ATD3B_HUMAN	AAA-ATPase  TOB3	346							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		GGCCTGTACAGGCACATCCTG	0.657													23	92					6.21321e-17	7.12982e-17	0.00278	1	0		T	1421563	T	T	1421563	3	4	37	1	0	0	0	0	1	0	0	0	1075	1000	35	5	1075	5	ATAD3B	1	1421563	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	444504	1421563	247829058	3	32248											
NADK	65220	broad.mit.edu	37	chr1	1685737	1685737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttaccgtcgccctgcaccGtggtgatgaggtgtccgtcc	4	10	12	15	4	0	2	0	2	0	0	3	2	2	2	6	2	2	1	6	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:1685737G>A	uc009vkw.2	-	9	1050	c.929C>T	c.(928-930)ACG>ATG	p.T310M	NADK_uc001aic.2_Missense_Mutation_p.T310M|NADK_uc001aid.3_Missense_Mutation_p.T310M|NADK_uc001aie.2_Missense_Mutation_p.T455M|NADK_uc010nyv.1_Missense_Mutation_p.T278M|NADK_uc009vkx.1_Missense_Mutation_p.T188M	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	310					ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)		GCCCTGCACCGTGGTGATGAG	0.647													6	35					0	0	0.001168	0	0		A	1685737	A	A	1685737	3	1	37	1	0	0	0	0	1	0	0	0	10155	1145	40	1	427	1	NADK	1	1685737	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	264174	1685737	247564884	4	32249											
AJAP1	55966	broad.mit.edu	37	chr1	4832466	4832466	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagcctggacatattcacGgcctataacgagaccctgca	12	7	9	13	2	1	1	1	0	0	1	1	3	1	2	3	2	4	2	3	2	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:4832466G>A	uc001alm.1	+	4	1425	c.1044G>A	c.(1042-1044)ACG>ACA	p.T348T	AJAP1_uc001aln.2_Silent_p.T348T	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	348	Targeting signals.|Cytoplasmic (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		ACATATTCACGGCCTATAACG	0.612													11	37					0	0	0.008291	0	0		A	4832466	A	A	4832466	2	1	37	1	0	0	0	0	0	0	0	1	438	1103	39	1		1	AJAP1	1	4832466	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3146729	4832466	244418155	5	32250											
PLEKHG5	57449	broad.mit.edu	37	chr1	6531129	6531129	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccctcctcctccatgcagTagcggatgtagggcttgaag	8	9	12	12	1	0	1	0	1	0	0	3	2	3	2	4	2	3	4	4	2	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:6531129T>C	uc001ano.1	-	14	1582	c.1481A>G	c.(1480-1482)TAC>TGC	p.Y494C	PLEKHG5_uc001ann.1_Missense_Mutation_p.Y475C|PLEKHG5_uc001anq.1_Missense_Mutation_p.Y515C|PLEKHG5_uc001anp.1_Missense_Mutation_p.Y515C|PLEKHG5_uc001anj.1_5'UTR|PLEKHG5_uc009vma.1_Missense_Mutation_p.Y278C|PLEKHG5_uc010nzr.1_Missense_Mutation_p.Y507C|PLEKHG5_uc001ank.1_Missense_Mutation_p.Y438C|PLEKHG5_uc009vmb.1_Missense_Mutation_p.Y438C|PLEKHG5_uc001anl.1_Missense_Mutation_p.Y438C|PLEKHG5_uc001anm.1_Missense_Mutation_p.Y438C|PLEKHG5_uc001anr.1_5'Flank	NM_001042663	NP_001036128	O94827	PKHG5_HUMAN	pleckstrin homology domain containing family G	494	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			liver(1)	1	Ovarian(185;0.02)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;5.51e-35)|GBM - Glioblastoma multiforme(13;3.57e-27)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00159)|READ - Rectum adenocarcinoma(331;0.0419)		CTCCATGCAGTAGCGGATGTA	0.527													6	8					0	0	0.001168	0	0		C	6531129	C	C	6531129	3	2	37	1	0	0	0	0	1	0	0	0	12092	1638	57	3	1743	3	PLEKHG5	1	6531129	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1698663	6531129	242719492	6	32251											
CLSTN1	22883	broad.mit.edu	37	chr1	9795576	9795576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgggcgtggggaactgcCgggagttcaggtacgagatg	7	8	18	8	4	1	1	1	0	0	1	2	4	2	3	2	5	3	2	2	5	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:9795576C>T	uc001aqh.2	-	13	2591	c.1832G>A	c.(1831-1833)CGG>CAG	p.R611Q	CLSTN1_uc001aqi.2_Missense_Mutation_p.R601Q|CLSTN1_uc010oag.1_Missense_Mutation_p.R592Q|CLSTN1_uc001aqf.2_5'Flank	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	611	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		GGGGAACTGCCGGGAGTTCAG	0.527													42	118					0	0	0.007835	0	0		T	9795576	T	T	9795576	3	4	37	1	0	0	0	0	1	0	0	0	3564	652	23	1	1141	1	CLSTN1	1	9795576	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3264447	9795576	239455045	7	32252											
C1orf158	93190	broad.mit.edu	37	chr1	12806445	12806445	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagattgagaccaagtatTcaacgaaagtgctcactgga	14	8	11	8	1	2	2	2	1	0	2	2	5	2	3	1	2	2	3	1	2	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:12806445T>C	uc001auh.2	+	1	283	c.67T>C	c.(67-69)TCA>CCA	p.S23P	C1orf158_uc010obe.1_Missense_Mutation_p.S23P	NM_152290	NP_689503	Q8N1D5	CA158_HUMAN	hypothetical protein LOC93190	23										ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00575)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		GACCAAGTATTCAACGAAAGT	0.478													4	61					0	0	0.001168	0	0		C	12806445	C	C	12806445	3	2	37	1	0	0	0	0	1	0	0	0	2010	1783	62	3	69	3	C1orf158	1	12806445	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	3010869	12806445	236444176	8	32253											
SPEN	23013	broad.mit.edu	37	chr1	16258904	16258904	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagacaaaaacccccctgaaAccgcccctgttgaagttgta	13	7	7	14	1	0	3	0	2	0	1	0	3	0	3	6	0	2	3	6	0	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:16258904A>G	uc001axk.1	+	11	6373	c.6169A>G	c.(6169-6171)ACC>GCC	p.T2057A	SPEN_uc010obp.1_Missense_Mutation_p.T2016A	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2057					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CCCCCCTGAAACCGCCCCTGT	0.493													6	83					0	0	0.00308	0	0		G	16258904	G	G	16258904	3	3	37	1	0	0	0	0	1	0	0	0	15063	43	2	3	6211	3	SPEN	1	16258904	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3452459	16258904	232991717	9	32254											
UBR4	23352	broad.mit.edu	37	chr1	19449413	19449413	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatatcccctgctcttctaGcagcttcttgatcccacgca	8	12	6	15	1	3	1	0	1	3	0	5	2	5	1	3	0	3	4	3	0	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:19449413G>A	uc001bbi.2	-	66	9734	c.9730C>T	c.(9730-9732)CTA>TTA	p.L3244L	UBR4_uc001bbk.1_Silent_p.L891L	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3244					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TGCTCTTCTAGCAGCTTCTTG	0.562													8	106					0	0	0.004482	0	0		A	19449413	A	A	19449413	2	1	37	1	0	0	0	0	0	0	0	1	16930	962	34	2		2	UBR4	1	19449413	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3190509	19449413	229801208	10	32255											
C1QC	714	broad.mit.edu	37	chr1	22974057	22974057	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactttgtctaccacgcgtcGcatacagccaacctgtgcgt	8	11	8	14	4	1	0	0	0	1	0	2	0	1	0	3	0	6	1	3	0	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:22974057G>A	uc001bgc.3	+	3	622	c.519G>A	c.(517-519)TCG>TCA	p.S173S	C1QC_uc001bga.3_Silent_p.S173S|C1QC_uc001bgb.2_Silent_p.S173S	NM_172369	NP_758957	P02747	C1QC_HUMAN	complement component 1, q subcomponent, C chain	173	C1q.				complement activation, classical pathway|innate immune response|negative regulation of granulocyte differentiation|negative regulation of macrophage differentiation	collagen					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.21e-27)|Colorectal(126;1.5e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.61e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000538)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.196)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	ACCACGCGTCGCATACAGCCA	0.582													11	76					0	0	0.013537	0	0		A	22974057	A	A	22974057	2	1	37	1	0	0	0	0	0	0	0	1	1960	1074	38	1		1	C1QC	1	22974057	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3524644	22974057	226276564	11	32256											
LUZP1	7798	broad.mit.edu	37	chr1	23418649	23418649	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatcattctcaaatagggaGgttctaggtgcccctcgggt	8	13	11	9	1	3	0	2	0	2	0	5	1	3	1	2	4	1	1	2	4	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:23418649G>T	uc001bgk.2	-	4	2490	c.2106C>A	c.(2104-2106)ACC>ACA	p.T702T	LUZP1_uc010odv.1_Silent_p.T702T|LUZP1_uc001bgl.2_Silent_p.T702T|LUZP1_uc001bgm.1_Silent_p.T702T	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	702						nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		CAAATAGGGAGGTTCTAGGTG	0.468													16	393					2.32078e-09	2.59059e-09	0.003163	1	0		T	23418649	T	T	23418649	2	4	37	1	0	0	0	0	0	0	0	1	9104	987	35	5		5	LUZP1	1	23418649	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	444592	23418649	225831972	12	32257											
IL28RA	163702	broad.mit.edu	37	chr1	24484052	24484052	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccaagcagaggagccttcGcttgggaccagaggagccct	9	6	13	13	1	0	2	0	0	0	2	2	5	1	5	4	3	3	2	4	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:24484052G>A	uc001bis.2	-	7	1144	c.1131C>T	c.(1129-1131)AGC>AGT	p.S377S	IL28RA_uc001bir.2_Silent_p.S348S|IL28RA_uc001bit.2_3'UTR|IL28RA_uc001biu.2_Silent_p.S293S	NM_170743	NP_734464	Q8IU57	I28RA_HUMAN	interleukin 28 receptor, alpha isoform 1	377	Cytoplasmic (Potential).				cytokine-mediated signaling pathway|negative regulation of cell proliferation|regulation of defense response to virus by host	interleukin-28 receptor complex	protein binding|receptor activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00117)|all_lung(284;0.00151)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;3.21e-24)|Colorectal(126;6.61e-08)|COAD - Colon adenocarcinoma(152;3.56e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00918)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.185)		AGGAGCCTTCGCTTGGGACCA	0.622													19	34					0	0	0.006122	0	0		A	24484052	A	A	24484052	2	1	37	1	0	0	0	0	0	0	0	1	7700	1078	38	1		1	IL28RA	1	24484052	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1065403	24484052	224766569	13	32258											
RUNX3	864	broad.mit.edu	37	chr1	25254159	25254159	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagctcagcggagtagttCtcgtcattgcctgccatcac	7	10	10	14	3	4	0	3	0	1	0	5	1	4	1	2	1	4	4	2	1	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:25254159C>A	uc001bjq.2	-	2	756	c.345G>T	c.(343-345)GAG>GAT	p.E115D	RUNX3_uc010oen.1_Missense_Mutation_p.E115D|RUNX3_uc009vrj.2_Missense_Mutation_p.E129D|RUNX3_uc001bjr.2_Missense_Mutation_p.E129D	NM_004350	NP_004341	Q13761	RUNX3_HUMAN	runt-related transcription factor 3 isoform 2	115	Runt.				cell proliferation|induction of apoptosis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|protein phosphorylation|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00131)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;2.85e-26)|Colorectal(126;4.35e-08)|COAD - Colon adenocarcinoma(152;1.92e-06)|GBM - Glioblastoma multiforme(114;0.000102)|STAD - Stomach adenocarcinoma(196;0.000766)|KIRC - Kidney renal clear cell carcinoma(1967;0.00148)|BRCA - Breast invasive adenocarcinoma(304;0.00173)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.136)		CGGAGTAGTTCTCGTCATTGC	0.627													30	175					6.00712e-18	6.92566e-18	0.012213	1	0		A	25254159	A	A	25254159	3	1	37	1	0	0	0	0	1	0	0	0	13774	912	32	5	918	5	RUNX3	1	25254159	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	770107	25254159	223996462	14	32259											
SEPN1	57190	broad.mit.edu	37	chr1	26135608	26135608	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agctgtggcctgcctgactgCcatcagcgacttctactaca	8	10	9	14	1	2	1	1	1	1	0	2	2	2	1	3	1	6	1	3	1	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:26135608C>A	uc010oer.1	+	8	894	c.839C>A	c.(838-840)GCC>GAC	p.A280D	SEPN1_uc010oes.1_Missense_Mutation_p.A246D	NM_020451	NP_065184	Q9NZV5	SELN_HUMAN	selenoprotein N, 1 isoform 1 precursor	280						endoplasmic reticulum membrane|extracellular region	protein binding			ovary(2)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0421)|OV - Ovarian serous cystadenocarcinoma(117;1.26e-25)|Colorectal(126;3.01e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0143)|READ - Rectum adenocarcinoma(331;0.0649)		TGCCTGACTGCCATCAGCGAC	0.627													28	97					2.65835e-16	3.04767e-16	0.007291	1	0		A	26135608	A	A	26135608	3	1	37	1	0	0	0	0	1	0	0	0	14081	739	26	5	861	5	SEPN1	1	26135608	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	881449	26135608	223115013	15	32260											
CATSPER4	378807	broad.mit.edu	37	chr1	26524495	26524495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcggtggagcccctcgcccGgatcatccgcgtcatcctgc	4	7	13	17	5	2	0	2	0	0	0	5	2	4	2	5	4	2	0	5	4	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:26524495G>A	uc010oez.1	+	5	605	c.605G>A	c.(604-606)CGG>CAG	p.R202Q	CATSPER4_uc010oey.1_Missense_Mutation_p.R24Q|CATSPER4_uc009vsf.2_RNA	NM_198137	NP_937770	Q7RTX7	CTSR4_HUMAN	cation channel, sperm associated 4	202	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_cancers(24;2.05e-18)|Colorectal(325;0.000147)|Renal(390;0.00211)|all_lung(284;0.00218)|Lung NSC(340;0.00239)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-26)|Colorectal(126;1.34e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|BRCA - Breast invasive adenocarcinoma(304;0.000995)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00878)|READ - Rectum adenocarcinoma(331;0.0649)		CCCCTCGCCCGGATCATCCGC	0.652													38	172					0	0	0.005524	0	0		A	26524495	A	A	26524495	3	1	37	1	0	0	0	0	1	0	0	0	2693	1116	39	1	623	1	CATSPER4	1	26524495	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	388887	26524495	222726126	16	32261											
DHDDS	79947	broad.mit.edu	37	chr1	26795537	26795537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacaaactctcggccagacGggaagagcgagtccaaggct	12	4	13	12	3	1	2	0	0	1	2	3	4	2	3	2	3	2	2	2	3	3	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:26795537G>A	uc001bml.2	+	9	1038	c.917G>A	c.(916-918)CGG>CAG	p.R306Q	DHDDS_uc001bmk.2_Missense_Mutation_p.R307Q|DHDDS_uc001bmm.2_Missense_Mutation_p.R213Q|DHDDS_uc001bmn.2_Missense_Mutation_p.R267Q|DHDDS_uc010ofd.1_Missense_Mutation_p.R272Q|uc001bmo.1_5'Flank	NM_205861	NP_995583	Q86SQ9	DHDDS_HUMAN	dehydrodolichyl diphosphate synthase isoform b	306							protein binding|transferase activity, transferring alkyl or aryl (other than methyl) groups			breast(3)	3		all_cancers(24;2.04e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.11e-27)|Colorectal(126;1.61e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.0161)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.166)|LUSC - Lung squamous cell carcinoma(448;0.239)		TCGGCCAGACGGGAAGAGCGA	0.637													4	82					0	0	0.009096	0	0		A	26795537	A	A	26795537	3	1	37	1	0	0	0	0	1	0	0	0	4484	1116	39	1	950	1	DHDDS	1	26795537	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	271042	26795537	222455084	17	32262											
XKR8	55113	broad.mit.edu	37	chr1	28293529	28293529	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcctggctctgcggcttGtgtactaccactggctgcac	4	11	13	13	1	1	0	0	0	1	0	1	0	1	0	2	4	4	5	2	4	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:28293529G>T	uc001bph.1	+	3	1083	c.1006G>T	c.(1006-1008)GTG>TTG	p.V336L		NM_018053	NP_060523	Q9H6D3	XKR8_HUMAN	XK, Kell blood group complex subunit-related	336						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00588)|all_lung(284;0.00645)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;4.72e-24)|Colorectal(126;1.52e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00572)|READ - Rectum adenocarcinoma(331;0.0526)		TCTGCGGCTTGTGTACTACCA	0.637													5	34					3.52763e-06	3.7997e-06	0.00499	1	0		T	28293529	T	T	28293529	3	4	37	1	0	0	0	0	1	0	0	0	17463	1377	48	5	1016	5	XKR8	1	28293529	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1497992	28293529	220957092	18	32263											
SDC3	9672	broad.mit.edu	37	chr1	31349853	31349853	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaccaccagggggctggtgGctggctccagggtggggcgc	4	6	19	12	1	1	0	1	0	0	0	2	0	2	0	3	8	0	3	3	8	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:31349853G>A	uc001bse.2	-	3	463	c.416C>T	c.(415-417)GCC>GTC	p.A139V	SDC3_uc001bsd.2_Missense_Mutation_p.A81V	NM_014654	NP_055469	O75056	SDC3_HUMAN	syndecan 3	139	Extracellular (Potential).|Ser/Thr-rich (mucin-like).					integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)|Colorectal(325;0.0466)|all_neural(195;0.0966)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)		STAD - Stomach adenocarcinoma(196;0.0197)|READ - Rectum adenocarcinoma(331;0.0649)		GGGGCTGGTGGCTGGCTCCAG	0.652													3	48					0	0	0.009096	0	0		A	31349853	A	A	31349853	3	1	37	1	0	0	0	0	1	0	0	0	13978	1203	42	2	924	2	SDC3	1	31349853	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3056324	31349853	217900768	19	32264											
KPNA6	23633	broad.mit.edu	37	chr1	32628122	32628122	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggagattggtagagctgcTgatgtgagtggtcttagaag	9	11	16	5	1	1	5	0	2	1	3	1	6	1	5	1	3	2	3	1	3	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:32628122T>C	uc001bug.2	+	9	996	c.908T>C	c.(907-909)CTG>CCG	p.L303P	KPNA6_uc001buh.2_Missense_Mutation_p.L78P|KPNA6_uc010ogx.1_Missense_Mutation_p.L300P|KPNA6_uc010ogy.1_Missense_Mutation_p.L308P|KPNA6_uc009vtz.2_Missense_Mutation_p.L198P	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6	303	ARM 6.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GTAGAGCTGCTGATGTGAGTG	0.353													7	66					0	0	0.001984	0	0		C	32628122	C	C	32628122	3	2	37	1	0	0	0	0	1	0	0	0	8450	1580	55	3	942	3	KPNA6	1	32628122	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1278269	32628122	216622499	20	32265											
TRIM62	55223	broad.mit.edu	37	chr1	33623854	33623854	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgataacccatgccttacCtgggtggatgtcctggaaca	10	10	10	11	0	0	1	0	1	0	0	1	3	1	3	4	3	4	0	4	3	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:33623854C>A	uc001bxb.2	-	4	1515	c.877G>T	c.(877-879)GTG>TTG	p.V293L		NM_018207	NP_060677	Q9BVG3	TRI62_HUMAN	tripartite motif-containing 62	293	B30.2/SPRY.					intracellular	zinc ion binding				0		Myeloproliferative disorder(586;0.0393)				CATGCCTTACCTGGGTGGATG	0.567													15	86					1.49906e-05	1.60065e-05	0.00245	1	0		A	33623854	A	A	33623854	3	1	37	1	0	0	0	0	1	0	0	0	16563	695	24	5	558	5	TRIM62	1	33623854	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	995732	33623854	215626767	21	32266											
NCDN	23154	broad.mit.edu	37	chr1	36031043	36031043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgccctggctggcccccGctgccctgcgctcccgctgg	0	8	13	20	3	0	0	0	0	0	0	1	0	1	0	5	3	4	5	5	3	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:36031043G>A	uc001bza.2	+	8	2096	c.1969G>A	c.(1969-1971)GCT>ACT	p.A657T	NCDN_uc001bzb.2_Missense_Mutation_p.A657T|NCDN_uc001bzc.2_Missense_Mutation_p.A640T	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	657					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GCTGGCCCCCGCTGCCCTGCG	0.677													7	27					0	0	0.001984	0	0		A	36031043	A	A	36031043	3	1	37	1	0	0	0	0	1	0	0	0	10233	1087	38	1	1995	1	NCDN	1	36031043	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2407189	36031043	213219578	22	32267											
EIF2C4	192670	broad.mit.edu	37	chr1	36306800	36306800	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcagcctgtcatcttcctgGgagcggatgtcacacacccc	8	8	10	15	1	3	0	2	0	1	0	4	2	4	2	4	2	3	1	4	2	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:36306800G>T	uc001bzj.1	+	14	1949	c.1759G>T	c.(1759-1761)GGA>TGA	p.G587*		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4	587	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CATCTTCCTGGGAGCGGATGT	0.532													12	47					5.50884e-06	5.91815e-06	0.013537	1	0		T	36306800	T	T	36306800	4	4	37	1	0	0	0	0	0	1	0	0	5014	1233	43	5	1813	5	EIF2C4	1	36306800	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	275757	36306800	212943821	23	32268											
EIF2C3	192669	broad.mit.edu	37	chr1	36520603	36520603	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgataactgctttactgcAgatgaacttcagctgctaac	12	12	8	9	0	1	3	1	2	0	1	1	4	1	3	0	0	8	4	0	0	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:36520603A>G	uc001bzp.2	+	18	2587	c.2331A>G	c.(2329-2331)GCA>GCG	p.A777A	EIF2C3_uc001bzq.2_Silent_p.A543A	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	777	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GCTTTACTGCAGATGAACTTC	0.433													13	65					0	0	0.00245	0	0		G	36520603	G	G	36520603	2	3	37	1	0	0	0	0	0	0	0	1	5013	175	7	3		3	EIF2C3	1	36520603	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	213803	36520603	212730018	24	32269											
HEYL	26508	broad.mit.edu	37	chr1	40098329	40098329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggacactcacccctctgtGtttcttcctggcttgcatct	5	14	7	15	1	4	0	1	0	3	0	5	1	5	1	3	2	1	3	3	2	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:40098329G>A	uc001cdp.2	-	2	190	c.139C>T	c.(139-141)CGC>TGC	p.R47C	HEYL_uc010oiw.1_Missense_Mutation_p.H19Y	NM_014571	NP_055386	Q9NQ87	HEYL_HUMAN	hairy/enhancer-of-split related with YRPW	47	Transcriptional repression and interaction with NCOR1 and SIN3A (By similarity).|Basic motif.				multicellular organismal development|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.1e-18)|Epithelial(16;2.77e-17)|all cancers(16;5.64e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			ACCCCTCTGTGTTTCTTCCTG	0.567													14	261					0	0	0.00499	0	0		A	40098329	A	A	40098329	3	1	37	1	0	0	0	0	1	0	0	0	7096	1377	48	4	863	4	HEYL	1	40098329	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3577726	40098329	209152292	25	32270											
HPCAL4	51440	broad.mit.edu	37	chr1	40149756	40149756	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccggaagtcgatggtgccGtcgccgttcttgtcgaaggt	5	11	14	11	6	1	0	0	0	1	0	5	3	2	1	3	3	1	1	3	3	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:40149756G>A	uc001cdr.2	-	3	351	c.231C>T	c.(229-231)GAC>GAT	p.D77D	HPCAL4_uc010oix.1_Intron	NM_016257	NP_057341	Q9UM19	HPCL4_HUMAN	hippocalcin-like protein 4	77	EF-hand 2.|1 (Potential).				central nervous system development	intracellular	calcium ion binding			central_nervous_system(1)	1	all_cancers(7;4.65e-13)|Lung NSC(20;2.88e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CGATGGTGCCGTCGCCGTTCT	0.647													7	45					0	0	0.001984	0	0		A	40149756	A	A	40149756	2	1	37	1	0	0	0	0	0	0	0	1	7347	1136	40	1		1	HPCAL4	1	40149756	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	51427	40149756	209100865	26	32271											
RLF	6018	broad.mit.edu	37	chr1	40705239	40705239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaagctgtgaatcagagcGcacagaacacagccattccc	14	6	9	12	1	1	4	1	1	0	3	2	4	2	4	2	0	4	2	2	0	4	2	rs150236303		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:40705239G>A	uc001cfc.3	+	8	4896	c.4865G>A	c.(4864-4866)CGC>CAC	p.R1622H	RLF_uc001cfd.3_Missense_Mutation_p.R1313H	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	1622					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			GAATCAGAGCGCACAGAACAC	0.463													14	44					0	0	0.00245	0	0		A	40705239	A	A	40705239	3	1	37	1	0	0	0	0	1	0	0	0	13414	1087	38	1	4895	1	RLF	1	40705239	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	555483	40705239	208545382	27	32272											
RIMKLA	284716	broad.mit.edu	37	chr1	42880412	42880412	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggaaagatggctgtcctcCcaggactgtcgagtccaagg	9	8	13	11	1	0	1	0	0	0	1	4	4	3	3	3	4	0	1	3	4	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:42880412C>A	uc001chi.2	+	5	1081	c.943C>A	c.(943-945)CCA>ACA	p.P315T		NM_173642	NP_775913	Q8IXN7	RIMKA_HUMAN	ribosomal modification protein rimK-like family	315					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						GGCTGTCCTCCCAGGACTGTC	0.532													19	81					6.49762e-13	7.38721e-13	0.006122	1	0		A	42880412	A	A	42880412	3	1	37	1	0	0	0	0	1	0	0	0	13390	623	22	5	961	5	RIMKLA	1	42880412	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2175173	42880412	206370209	28	32273											
ZSWIM5	57643	broad.mit.edu	37	chr1	45484698	45484698	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaacagctgtgaatgggTcataccaccagcagcagcat	12	7	12	10	0	1	2	1	2	0	0	1	2	1	2	2	2	6	4	2	2	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:45484698T>C	uc001cnd.2	-	14	3214	c.2986A>G	c.(2986-2988)ACC>GCC	p.T996A		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	996							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TGTGAATGGGTCATACCACCA	0.552											OREG0013450	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	91					0	0	0.010818	0	0		C	45484698	C	C	45484698	3	2	37	1	0	0	0	0	1	0	0	0	18269	1667	58	3	575	3	ZSWIM5	1	45484698	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2604286	45484698	203765923	29	32274											
ZFYVE9	9372	broad.mit.edu	37	chr1	52705193	52705193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatgggtaccggattctcagGctccaaattgcatgaaatgt	11	12	10	8	1	1	1	1	1	1	0	3	2	2	2	2	3	2	3	2	3	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:52705193G>A	uc001cto.2	+	4	2276	c.2104G>A	c.(2104-2106)GCT>ACT	p.A702T	ZFYVE9_uc001ctn.2_Missense_Mutation_p.A702T|ZFYVE9_uc001ctp.2_Missense_Mutation_p.A702T	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	702	FYVE-type.				endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						GGATTCTCAGGCTCCAAATTG	0.473													9	72					0	0	0.004482	0	0		A	52705193	A	A	52705193	3	1	37	1	0	0	0	0	1	0	0	0	17696	1203	42	2	2110	2	ZFYVE9	1	52705193	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	7220495	52705193	196545428	30	32275											
ZCCHC11	23318	broad.mit.edu	37	chr1	52911986	52911986	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttctcaaaagttgtcaaCagctttttctgccgaatgct	9	15	7	10	1	3	0	2	0	2	0	4	1	3	0	1	0	5	4	1	0	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:52911986C>T	uc001ctx.2	-	22	3876	c.3642G>A	c.(3640-3642)CTG>CTA	p.L1214L	ZCCHC11_uc001cty.2_Silent_p.L1214L|ZCCHC11_uc001ctz.2_Silent_p.L1214L|ZCCHC11_uc009vze.1_Silent_p.L1214L|ZCCHC11_uc009vzf.1_Silent_p.L935L|ZCCHC11_uc001cua.1_Silent_p.L131L	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	1214	PAP-associated 2.				miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						AAGTTGTCAACAGCTTTTTCT	0.388													19	121					0	0	0.008871	0	0		T	52911986	T	T	52911986	2	4	37	1	0	0	0	0	0	0	0	1	17605	465	17	4		4	ZCCHC11	1	52911986	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	206793	52911986	196338635	31	32276											
TTC4	7268	broad.mit.edu	37	chr1	55197241	55197241	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtgagcttttcctggatgGactcagcactgagaaccccc	9	9	11	12	0	1	2	1	2	0	1	2	5	2	4	3	3	3	2	3	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:55197241G>T	uc001cxx.3	+	7	817	c.764G>T	c.(763-765)GGA>GTA	p.G255V	C1orf175_uc001cxq.2_Intron|TTC4_uc001cxw.3_Intron|TTC4_uc001cxv.2_Missense_Mutation_p.G266V	NM_004623	NP_004614	O95801	TTC4_HUMAN	tetratricopeptide repeat domain 4	255							binding				0						TTCCTGGATGGACTCAGCACT	0.542													14	27					9.16793e-09	1.01691e-08	0.00499	1	0		T	55197241	T	T	55197241	3	4	37	1	0	0	0	0	1	0	0	0	16736	1174	41	5	790	5	TTC4	1	55197241	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2285255	55197241	194053380	32	32277											
C1orf177	163747	broad.mit.edu	37	chr1	55273338	55273338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accccacttccagtaccaggCcatcatgaaagagaagcggc	13	5	9	14	1	1	2	1	1	0	1	2	3	2	2	5	2	2	1	5	2	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:55273338C>T	uc001cyb.3	+	3	386	c.332C>T	c.(331-333)GCC>GTC	p.A111V	C1orf177_uc001cya.3_Missense_Mutation_p.A111V	NM_001110533	NP_001104003	Q3ZCV2	CA177_HUMAN	hypothetical protein LOC163747 isoform 2	111											0						CAGTACCAGGCCATCATGAAA	0.607													6	23					0	0	0.001984	0	0		T	55273338	T	T	55273338	3	4	37	1	0	0	0	0	1	0	0	0	2020	739	26	2	342	2	C1orf177	1	55273338	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	76097	55273338	193977283	33	32278											
EFCAB7	84455	broad.mit.edu	37	chr1	63998360	63998360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagaggtgagaagatgactcGagaagaagtaaatgccataa	18	6	13	4	1	0	6	0	2	0	5	1	9	0	6	1	1	1	1	1	1	6	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:63998360G>A	uc001dbf.2	+	4	713	c.419G>A	c.(418-420)CGA>CAA	p.R140Q		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	140	EF-hand 2.						calcium ion binding				0						AAGATGACTCGAGAAGAAGTA	0.323													13	51					0	0	0.013537	0	0		A	63998360	A	A	63998360	3	1	37	1	0	0	0	0	1	0	0	0	4946	1058	37	1	429	1	EFCAB7	1	63998360	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	8725022	63998360	185252261	34	32279											
NEGR1	257194	broad.mit.edu	37	chr1	72241870	72241870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacctgatggggagatgtGtcgccaagaaatggaaggct	11	10	14	6	1	0	3	0	1	0	2	1	5	0	4	2	4	1	1	2	4	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:72241870G>A	uc001dfw.2	-	3	620	c.520C>T	c.(520-522)CAC>TAC	p.H174Y	NEGR1_uc001dfv.2_Missense_Mutation_p.H46Y|NEGR1_uc010oqs.1_Missense_Mutation_p.H174Y	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	174	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		GGGGAGATGTGTCGCCAAGAA	0.423													5	32					0	0	0.001168	0	0		A	72241870	A	A	72241870	3	1	37	1	0	0	0	0	1	0	0	0	10336	1377	48	4	564	4	NEGR1	1	72241870	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	8243510	72241870	177008751	35	32280											
CCBL2	56267	broad.mit.edu	37	chr1	89408705	89408705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactttaatgaagcaaaaacGcacaaacttctcaaactgtg	17	10	5	9	1	1	1	1	1	1	0	2	1	1	1	0	0	5	2	0	0	7	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:89408705G>A	uc001dmp.2	-	13	1662	c.1285C>T	c.(1285-1287)CGT>TGT	p.R429C	CCBL2_uc001dmq.2_Missense_Mutation_p.R395C|CCBL2_uc001dmr.2_Missense_Mutation_p.R265C	NM_001008661	NP_001008661	Q6YP21	KAT3_HUMAN	kynurenine aminotransferase III isoform 1	429		Substrate (By similarity).			biosynthetic process|kynurenine metabolic process|tryptophan catabolic process		cysteine-S-conjugate beta-lyase activity|kynurenine-glyoxylate transaminase activity|kynurenine-oxoglutarate transaminase activity|pyridoxal phosphate binding			ovary(1)	1		Lung NSC(277;0.123)		all cancers(265;0.0117)|Epithelial(280;0.0341)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AAGCAAAAACGCACAAACTTC	0.294													24	178					0	0	0.008361	0	0		A	89408705	A	A	89408705	3	1	37	1	0	0	0	0	1	0	0	0	2736	1087	38	1	87	1	CCBL2	1	89408705	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	17166835	89408705	159841916	36	32281											
GBP5	115362	broad.mit.edu	37	chr1	89730595	89730595	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggactgcattctctatgcaaGgcagatccccactgctgatg	9	10	10	12	0	1	2	0	1	1	1	3	3	2	3	2	2	3	4	2	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:89730595G>T	uc001dnc.2	-	8	1460	c.923C>A	c.(922-924)CCT>CAT	p.P308H	GBP5_uc001dnd.2_Missense_Mutation_p.P308H|GBP5_uc001dne.1_Missense_Mutation_p.P308H	NM_052942	NP_443174	Q96PP8	GBP5_HUMAN	guanylate-binding protein 5	308						plasma membrane	GTP binding|GTPase activity			ovary(1)	1				all cancers(265;0.00784)|Epithelial(280;0.0286)		CTCTATGCAAGGCAGATCCCC	0.468													9	69					0.000274275	0.000289094	0.004482	1	0		T	89730595	T	T	89730595	3	4	37	1	0	0	0	0	1	0	0	0	6292	1000	35	5	857	5	GBP5	1	89730595	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	321890	89730595	159520026	37	32282											
GBP5	115362	broad.mit.edu	37	chr1	89732816	89732816	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttcttgccttgagcagaTctgtcagttctgtcacattg	7	16	9	9	0	5	2	2	1	3	1	5	2	5	2	1	0	2	3	1	0	0	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:89732816T>C	uc001dnc.2	-	6	986	c.449A>G	c.(448-450)GAT>GGT	p.D150G	GBP5_uc001dnd.2_Missense_Mutation_p.D150G|GBP5_uc001dne.1_Missense_Mutation_p.D150G	NM_052942	NP_443174	Q96PP8	GBP5_HUMAN	guanylate-binding protein 5	150						plasma membrane	GTP binding|GTPase activity			ovary(1)	1				all cancers(265;0.00784)|Epithelial(280;0.0286)		CTTGAGCAGATCTGTCAGTTC	0.448													17	73					0	0	0.004007	0	0		C	89732816	C	C	89732816	3	2	37	1	0	0	0	0	1	0	0	0	6292	1435	50	3	1339	3	GBP5	1	89732816	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2221	89732816	159517805	38	32283											
LRRC8D	55144	broad.mit.edu	37	chr1	90399510	90399510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagaaagtgaggaagttcCgtgcccatgtggaagatagt	12	10	14	5	1	0	3	0	2	0	2	1	6	1	5	2	2	1	1	2	2	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:90399510C>T	uc001dnm.2	+	3	1308	c.883C>T	c.(883-885)CGT>TGT	p.R295C	LRRC8D_uc001dnn.2_Missense_Mutation_p.R295C	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	295						integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		GAGGAAGTTCCGTGCCCATGT	0.428													5	40					0	0	0.000602	0	0		T	90399510	T	T	90399510	3	4	37	1	0	0	0	0	1	0	0	0	9042	652	23	1	885	1	LRRC8D	1	90399510	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	666694	90399510	158851111	39	32284											
RPAP2	79871	broad.mit.edu	37	chr1	92811469	92811469	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctatggtgttgctgtcAttgtaagtactctctcagat	8	17	9	7	0	3	1	2	0	1	1	4	1	3	1	0	1	3	5	0	1	3	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:92811469A>G	uc001dot.2	+	11	1795	c.1686A>G	c.(1684-1686)TCA>TCG	p.S562S	RPAP2_uc009wdh.2_RNA	NM_024813	NP_079089	Q8IXW5	RPAP2_HUMAN	RNA polymerase II associated protein 2	562	Helical; (Potential).					integral to membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		all_lung(203;0.0565)|Lung NSC(277;0.152)|Glioma(108;0.222)		all cancers(265;0.00647)|GBM - Glioblastoma multiforme(16;0.0234)|Epithelial(280;0.115)		TGTTGCTGTCATTGTAAGTAC	0.323													7	60					0	0	0.00308	0	0		G	92811469	G	G	92811469	2	3	37	1	0	0	0	0	0	0	0	1	13567	204	8	3		3	RPAP2	1	92811469	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2411959	92811469	156439152	40	32285											
ABCA4	24	broad.mit.edu	37	chr1	94476454	94476454	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggttcttcccaatcaggtcCcagtggaacggatttgcaga	10	10	11	10	1	2	1	1	0	1	1	4	3	4	3	2	4	2	2	2	4	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:94476454C>A	uc001dqh.2	-	40	5720	c.5616G>T	c.(5614-5616)TGG>TGT	p.W1872C	ABCA4_uc001dqi.1_5'UTR|ABCA4_uc009wdp.1_Missense_Mutation_p.W140C	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1872					phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CAATCAGGTCCCAGTGGAACG	0.582													17	67					1.15088e-07	1.26855e-07	0.004007	1	0		A	94476454	A	A	94476454	3	1	37	1	0	0	0	0	1	0	0	0	34	624	22	5	1249	5	ABCA4	1	94476454	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1664985	94476454	154774167	41	32286											
DPH5	51611	broad.mit.edu	37	chr1	101456138	101456138	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgcaattttctggtcGtcggctccaaccctggctaa	6	12	9	14	2	1	0	0	0	1	0	4	0	2	0	3	3	3	4	3	3	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:101456138G>A	uc001dts.2	-	8	831	c.684C>T	c.(682-684)GAC>GAT	p.D228D	DPH5_uc001dtr.2_Silent_p.D227D|DPH5_uc001dtq.2_RNA|DPH5_uc001dtt.2_Silent_p.D228D|DPH5_uc001dtu.2_RNA|DPH5_uc001dtv.2_RNA|DPH5_uc001dtw.2_RNA|DPH5_uc001dtx.2_Nonsense_Mutation_p.R193*|DPH5_uc001dty.2_Silent_p.D107D|DPH5_uc001dtz.2_RNA	NM_015958	NP_057042	Q9H2P9	DPH5_HUMAN	diphthine synthase isoform a	228					peptidyl-diphthamide biosynthetic process from peptidyl-histidine		diphthine synthase activity				0		all_epithelial(167;3.1e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0385)|all cancers(265;0.043)|COAD - Colon adenocarcinoma(174;0.151)|Colorectal(144;0.173)|Lung(183;0.198)		TTTTCTGGTCGTCGGCTCCAA	0.443													18	65					0	0	0.008871	0	0		A	101456138	A	A	101456138	2	1	37	1	0	0	0	0	0	0	0	1	4729	1136	40	1		1	DPH5	1	101456138	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6979684	101456138	147794483	42	32287											
NTNG1	22854	broad.mit.edu	37	chr1	107691419	107691419	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagtgaaactcgatcctccGgatattacctgtggagaccc	12	9	9	11	2	0	2	0	1	0	1	3	5	2	3	4	2	2	0	4	2	4	2	rs147345058	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:107691419G>A	uc001dvh.3	+	2	922	c.204G>A	c.(202-204)CCG>CCA	p.P68P	NTNG1_uc001dvf.3_Silent_p.P68P|NTNG1_uc010out.1_Silent_p.P68P|NTNG1_uc001dvc.3_Silent_p.P68P|NTNG1_uc001dvd.1_Silent_p.P68P	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	68	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		TCGATCCTCCGGATATTACCT	0.438													23	83					0	0	0.00278	0	0		A	107691419	A	A	107691419	2	1	37	1	0	0	0	0	0	0	0	1	10723	1103	39	1		1	NTNG1	1	107691419	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6235281	107691419	141559202	43	32288											
EPS8L3	79574	broad.mit.edu	37	chr1	110301215	110301215	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagatagcgtgcctgctccaTagggagcggcctttccatag	8	9	12	12	2	0	1	0	0	0	1	2	2	2	2	4	2	4	1	4	2	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:110301215T>C	uc001dyr.1	-	7	677	c.532A>G	c.(532-534)ATG>GTG	p.M178V	EPS8L3_uc001dys.1_Missense_Mutation_p.M178V|EPS8L3_uc001dyq.1_Missense_Mutation_p.M179V|EPS8L3_uc009wfm.1_Missense_Mutation_p.M145V|EPS8L3_uc009wfn.1_Missense_Mutation_p.M145V|EPS8L3_uc009wfo.1_Missense_Mutation_p.M125V	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	178	Pro-rich.					cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		GCCTGCTCCATAGGGAGCGGC	0.617													6	75					0	0	0.001984	0	0		C	110301215	C	C	110301215	3	2	37	1	0	0	0	0	1	0	0	0	5205	1406	49	3	1301	3	EPS8L3	1	110301215	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2609796	110301215	138949406	44	32289											
C1orf103	55791	broad.mit.edu	37	chr1	111490937	111490937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcttccccatttatgattgCgttataagcattctctgttt	8	18	6	9	1	1	1	0	1	1	0	3	1	2	1	2	0	3	4	2	0	3	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:111490937C>T	uc001eaa.2	-	4	2210	c.1954G>A	c.(1954-1956)GCA>ACA	p.A652T	C1orf103_uc001dzz.2_Missense_Mutation_p.A116T|C1orf103_uc001eab.2_Missense_Mutation_p.A116T|C1orf103_uc001eac.1_Missense_Mutation_p.A115T	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	652					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		TTTATGATTGCGTTATAAGCA	0.348													16	77					0	0	0.003163	0	0		T	111490937	T	T	111490937	3	4	37	1	0	0	0	0	1	0	0	0	1980	768	27	1	359	1	C1orf103	1	111490937	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1189722	111490937	137759684	45	32290											
DDX20	11218	broad.mit.edu	37	chr1	112308658	112308658	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcaccaaaagaactgggcTgtgacaggcaatccgaagag	14	5	12	10	2	1	3	1	1	0	2	2	4	2	3	2	2	1	2	2	2	5	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:112308658T>C	uc001ebs.2	+	11	1969	c.1612T>C	c.(1612-1614)TGT>CGT	p.C538R	DDX20_uc010owf.1_Missense_Mutation_p.C300R|DDX20_uc001ebt.2_Missense_Mutation_p.C146R	NM_007204	NP_009135	Q9UHI6	DDX20_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 20	538	SMN interacting.				assembly of spliceosomal tri-snRNP|ncRNA metabolic process	Cajal body|cytoskeleton|cytosol|spliceosomal complex	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding			lung(1)|kidney(1)	2		all_cancers(81;1.06e-05)|all_epithelial(167;7.36e-06)|all_lung(203;2.44e-05)|Lung NSC(69;4.15e-05)		Lung(183;0.0234)|Colorectal(144;0.0282)|all cancers(265;0.0614)|Epithelial(280;0.0999)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGAACTGGGCTGTGACAGGCA	0.418													4	75					0	0	0.009096	0	0		C	112308658	C	C	112308658	3	2	37	1	0	0	0	0	1	0	0	0	4351	1580	55	3	1654	3	DDX20	1	112308658	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	817721	112308658	136941963	46	32291											
SPAG17	200162	broad.mit.edu	37	chr1	118609480	118609480	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgtcttgggtgtggtagtAagaatcaacacacctatatt	11	14	10	6	0	2	1	1	0	1	1	2	1	2	1	1	2	1	3	1	2	6	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:118609480A>G	uc001ehk.2	-	18	2496	c.2428T>C	c.(2428-2430)TAC>CAC	p.Y810H		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	810						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GTGTGGTAGTAAGAATCAACA	0.363													7	46					0	0	0.00308	0	0		G	118609480	G	G	118609480	3	3	37	1	0	0	0	0	1	0	0	0	15004	362	13	3	4367	3	SPAG17	1	118609480	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	6300822	118609480	130641141	47	32292											
GJA8	2703	broad.mit.edu	37	chr1	147380281	147380281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgcgagaacgtctgctacGacgaggcctttcccatctcc	7	9	10	15	4	2	1	0	0	2	1	4	4	3	1	3	1	4	2	3	1	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:147380281G>A	uc001epu.1	+	2	262	c.199G>A	c.(199-201)GAC>AAC	p.D67N		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	67	Extracellular (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					CGTCTGCTACGACGAGGCCTT	0.612													19	52					0	0	0.008871	0	0		A	147380281	A	A	147380281	3	1	37	1	0	0	0	0	1	0	0	0	6420	1058	37	1	201	1	GJA8	1	147380281	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	28770801	147380281	101870340	48	32293											
HIST2H2BF	440689	broad.mit.edu	37	chr1	149398890	149398890	+	RNA	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcaggcgcacggccGtctggatctcgcgggacgtg	6	5	17	13	6	2	0	0	0	2	0	3	2	2	2	1	4	2	4	1	4	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:149398890G>A	uc010pbi.1	-	1		c.340C>T						Q5QNW6	H2B2F_HUMAN	Homo sapiens histone cluster 2, H3, pseudogene 2, mRNA (cDNA clone IMAGE:5190019).						nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)					GCGCACGGCCGTCTGGATCTC	0.647													11	96					0	0	0.013537	0	0		A	149398890	A	A	149398890	1	1	37	0	1	0	0	0	0	0	0	0	7196	1145	40	1		1	HIST2H2BF	1	149398890	RNA	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2018609	149398890	99851731	49	32294											
POGZ	23126	broad.mit.edu	37	chr1	151378226	151378226	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcattctctgctacatcCttaggtagggtgtgggccac	6	12	11	12	0	1	0	0	0	1	0	3	0	2	0	3	3	3	3	3	3	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:151378226C>A	uc001eyd.1	-	19	3591	c.3285G>T	c.(3283-3285)AAG>AAT	p.K1095N	POGZ_uc001eye.1_Missense_Mutation_p.K1042N|POGZ_uc010pdb.1_Missense_Mutation_p.K1086N|POGZ_uc001eyf.1_Missense_Mutation_p.K1051N|POGZ_uc010pdc.1_Missense_Mutation_p.K1033N|POGZ_uc009wmv.1_Missense_Mutation_p.K1000N|POGZ_uc010pdd.1_Missense_Mutation_p.K586N	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1095				TLPKDVAENAGLFIDF -> PTLLFCLFVFSSPSTL (in Ref. 4; BAB87117/BAE45744).	cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CTGCTACATCCTTAGGTAGGG	0.512													32	87					9.65021e-13	1.09613e-12	0.010818	1	0		A	151378226	A	A	151378226	3	1	37	1	0	0	0	0	1	0	0	0	12205	680	24	5	951	5	POGZ	1	151378226	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1979336	151378226	97872395	50	32295											
TCHH	7062	broad.mit.edu	37	chr1	152080709	152080709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttctgtcgcggtcgtgacGcagctgttgttcgcgctcct	2	15	12	12	6	1	1	0	1	1	0	5	1	2	1	1	1	1	5	1	1	0	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:152080709G>A	uc001ezp.2	-	2	4984	c.4984C>T	c.(4984-4986)CGT>TGT	p.R1662C	TCHH_uc009wne.1_Missense_Mutation_p.R1662C	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1662	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGGTCGTGACGCAGCTGTTGT	0.597													19	178					0	0	0.007413	0	0		A	152080709	A	A	152080709	3	1	37	1	0	0	0	0	1	0	0	0	15725	1087	38	1	851	1	TCHH	1	152080709	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	702483	152080709	97169912	51	32296											
FLG	2312	broad.mit.edu	37	chr1	152277576	152277576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagagtgcccgtgaccGgctctgtcttcgtgatggga	5	11	14	11	3	3	3	0	2	3	1	4	4	3	4	2	2	2	2	2	2	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:152277576G>A	uc001ezu.1	-	3	9822	c.9786C>T	c.(9784-9786)GCC>GCT	p.A3262A		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3262	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCCCGTGACCGGCTCTGTCTT	0.582									Ichthyosis				18	555					0	0	0.007413	0	0		A	152277576	A	A	152277576	2	1	37	1	0	0	0	0	0	0	0	1	5936	1103	39	1		1	FLG	1	152277576	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	196867	152277576	96973045	52	32297											
FLG	2312	broad.mit.edu	37	chr1	152280923	152280923	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggacccctgtcttcctcCtctgcttggccccgggtgtc	1	12	12	16	1	2	0	0	0	2	0	5	1	4	1	6	3	1	1	6	3	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:152280923C>G	uc001ezu.1	-	3	6475	c.6439G>C	c.(6439-6441)GGA>CGA	p.G2147R		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2147	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTCTTCCTCCTCTGCTTGGC	0.567									Ichthyosis				139	403					0	0	0.01441	0	0		G	152280923	G	G	152280923	3	3	37	1	0	0	0	0	1	0	0	0	5936	690	24	5	5750	5	FLG	1	152280923	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3347	152280923	96969698	53	32298											
LOR	4014	broad.mit.edu	37	chr1	153233517	153233517	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggtggcggcggcagcggcgGtggtggctgcggcttcttcg	1	8	21	11	7	1	0	0	0	1	0	2	0	1	0	0	9	2	3	0	9	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:153233517G>A	uc001fbm.2	+	2	146	c.92G>A	c.(91-93)GGT>GAT	p.G31D		NM_000427	NP_000418	P23490	LORI_HUMAN	loricrin	31					keratinization|peptide cross-linking	cornified envelope|cytoplasm|insoluble fraction|nucleoplasm	protein binding, bridging|structural constituent of cytoskeleton				0	all_lung(78;3.35e-32)|Lung NSC(65;1.22e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			ggcagcggcggtggtggctgc	0.184													5	32					0	0	0.000602	0	0		A	153233517	A	A	153233517	3	1	37	1	0	0	0	0	1	0	0	0	8915	1261	44	4	94	4	LOR	1	153233517	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	952594	153233517	96017104	54	32299											
PGLYRP3	114771	broad.mit.edu	37	chr1	153270514	153270514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgttgaccacgtcactgtggCccatcagcaggtagtttgga	8	11	12	10	1	2	1	2	1	0	0	2	2	2	2	2	3	1	4	2	3	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:153270514C>T	uc001fbn.1	-	7	997	c.944G>A	c.(943-945)GGC>GAC	p.G315D		NM_052891	NP_443123	Q96LB9	PGRP3_HUMAN	peptidoglycan recognition protein 3 precursor	315					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4	all_lung(78;3.35e-32)|Lung NSC(65;1.22e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GTCACTGTGGCCCATCAGCAG	0.577													10	378					0	0	0.008291	0	0		T	153270514	T	T	153270514	3	4	37	1	0	0	0	0	1	0	0	0	11814	739	26	2	85	2	PGLYRP3	1	153270514	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	36997	153270514	95980107	55	32300											
ILF2	3608	broad.mit.edu	37	chr1	153642708	153642708	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accacggcctctgtcaccccTagaaatgcagattttatttt	10	13	6	12	1	2	2	1	0	1	2	2	2	2	2	4	1	1	1	4	1	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:153642708T>C	uc001fcr.2	-	2	87	c.6_splice	c.e2-1	p.R2_splice	ILF2_uc010pdy.1_Splice_Site|ILF2_uc009wok.2_Splice_Site_p.R2_splice|ILF2_uc009wol.1_Splice_Site	NM_004515	NP_004506	Q12905	ILF2_HUMAN	interleukin enhancer binding factor 2						immune response|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|ribonucleoprotein complex	ATP binding|DNA binding|double-stranded RNA binding|protein binding|transferase activity				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			CTGTCACCCCTAGAAATGCAG	0.522													22	70					0	0	0.010504	0	0		C	153642708	C	C	153642708	5	2	37	1	0	0	0	0	0	0	1	0	7727	1536	53	3	1220	3	ILF2	1	153642708	Splice_Site	SNP	T	TCGA-BR-6566-01A-11D-1800-08	372194	153642708	95607913	56	32301											
DENND4B	9909	broad.mit.edu	37	chr1	153907329	153907329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgctgctgctgttgccGttctctcaagggctggcgga	3	12	14	12	2	2	0	1	0	1	0	3	1	2	1	1	3	5	7	1	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:153907329G>A	uc001fdd.1	-	18	3081	c.2680C>T	c.(2680-2682)CGG>TGG	p.R894W	uc001fdc.1_RNA	NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	894	Gln-rich.									ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			tgctgttgcCGTTCTCTCAAG	0.463													21	97					0	0	0.00278	0	0		A	153907329	A	A	153907329	3	1	37	1	0	0	0	0	1	0	0	0	4440	1144	40	1	1854	1	DENND4B	1	153907329	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	264621	153907329	95343292	57	32302											
ATP8B2	57198	broad.mit.edu	37	chr1	154318321	154318321	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtataacatcgtgtacAcctccctgccagtcctggct	7	11	7	16	1	0	0	0	0	0	0	3	0	2	0	5	1	3	3	5	1	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:154318321A>C	uc001fex.2	+	24	2839	c.2839A>C	c.(2839-2841)ACC>CCC	p.T947P		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	933	Helical; (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CATCGTGTACACCTCCCTGCC	0.507													5	111					0	0	0.013537	0	0		C	154318321	C	C	154318321	3	2	37	1	0	0	0	0	1	0	0	0	1196	159	6	5	3063	5	ATP8B2	1	154318321	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	410992	154318321	94932300	58	32303											
RXFP4	339403	broad.mit.edu	37	chr1	155911718	155911718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgcccggagagcccctgGcccaccttcagacaccttcg	6	7	10	18	2	1	2	1	0	0	2	2	3	1	2	6	2	2	0	6	2	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:155911718G>A	uc010pgs.1	+	1	239	c.218G>A	c.(217-219)GGC>GAC	p.G73D		NM_181885	NP_871001	Q8TDU9	RL3R2_HUMAN	relaxin 3 receptor 2	73	Cytoplasmic (Potential).					integral to membrane|plasma membrane	angiotensin type II receptor activity				0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					AGAGCCCCTGGCCCACCTTCA	0.612													27	65					0	0	0.004656	0	0		A	155911718	A	A	155911718	3	1	37	1	0	0	0	0	1	0	0	0	13787	1203	42	2	220	2	RXFP4	1	155911718	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1593397	155911718	93338903	59	32304											
SMG5	23381	broad.mit.edu	37	chr1	156235649	156235649	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgagggttggtggtgggcTggaggagcaggttgctaaag	8	10	20	3	0	0	1	0	1	0	0	0	3	0	3	0	7	2	5	0	7	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:156235649T>C	uc001foc.3	-	12	1927	c.1778A>G	c.(1777-1779)CAG>CGG	p.Q593R	SMG5_uc009wrv.2_Missense_Mutation_p.Q78R	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	593					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					GGTGGTGGGCTGGAGGAGCAG	0.567													20	119					0	0	0.008871	0	0		C	156235649	C	C	156235649	3	2	37	1	0	0	0	0	1	0	0	0	14821	1580	55	3	1316	3	SMG5	1	156235649	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	323931	156235649	93014972	60	32305											
SMG5	23381	broad.mit.edu	37	chr1	156235910	156235910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtttcagcatcaaaggccGttcccccaccttcaagactc	9	10	6	16	1	3	1	3	0	0	1	5	1	4	1	4	1	1	3	4	1	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:156235910G>A	uc001foc.3	-	12	1666	c.1517C>T	c.(1516-1518)ACG>ATG	p.T506M	SMG5_uc009wrv.2_Translation_Start_Site	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	506					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					ATCAAAGGCCGTTCCCCCACC	0.552													35	101					0	0	0.004878	0	0		A	156235910	A	A	156235910	3	1	37	1	0	0	0	0	1	0	0	0	14821	1145	40	1	1577	1	SMG5	1	156235910	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	261	156235910	93014711	61	32306											
APOA1BP	128240	broad.mit.edu	37	chr1	156563292	156563292	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgggaaccgttccacagcatCctgagtgtcctgaagggact	9	8	12	12	2	0	2	0	2	0	0	3	4	3	4	4	2	2	2	4	2	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:156563292C>T	uc001fph.2	+	5	648	c.609C>T	c.(607-609)ATC>ATT	p.I203I	APOA1BP_uc001fpg.2_Silent_p.I203I|APOA1BP_uc001fpi.2_Missense_Mutation_p.P185S|APOA1BP_uc001fpj.2_Silent_p.I120I|APOA1BP_uc001fpk.2_Silent_p.I100I|APOA1BP_uc010php.1_Silent_p.I100I	NM_144772	NP_658985	Q8NCW5	AIBP_HUMAN	apolipoprotein A-I binding protein precursor	203	YjeF N-terminal.					extracellular region	protein binding			central_nervous_system(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCCACAGCATCCTGAGTGTCC	0.572													14	57					0	0	0.00245	0	0		T	156563292	T	T	156563292	2	4	37	1	0	0	0	0	0	0	0	1	781	845	30	4		4	APOA1BP	1	156563292	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	327382	156563292	92687329	62	32307											
PEAR1	375033	broad.mit.edu	37	chr1	156875185	156875185	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcctgcagtgctgccaTggcttctatgagagcagggg	7	8	15	11	1	1	1	0	1	1	1	1	2	1	1	2	3	5	4	2	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:156875185T>C	uc001fqj.1	+	4	392	c.276T>C	c.(274-276)CAT>CAC	p.H92H	PEAR1_uc009wsl.1_5'Flank|PEAR1_uc001fqk.1_5'Flank	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	92	EMI.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					AGTGCTGCCATGGCTTCTATG	0.637													5	60					0	0	0.001984	0	0		C	156875185	C	C	156875185	2	2	37	1	0	0	0	0	0	0	0	1	11731	1461	51	3		3	PEAR1	1	156875185	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	311893	156875185	92375436	63	32308											
CD5L	922	broad.mit.edu	37	chr1	157804431	157804431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccagcctgtctggcacaCggtataccactggttctggt	6	11	11	13	1	2	0	0	0	2	0	3	0	3	0	3	4	2	4	3	4	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:157804431C>T	uc001frk.3	-	4	627	c.484G>A	c.(484-486)GTG>ATG	p.V162M		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	162	SRCR 2.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GTCTGGCACACGGTATACCAC	0.617													29	102					0	0	0.008361	0	0		T	157804431	T	T	157804431	3	4	37	1	0	0	0	0	1	0	0	0	3030	536	19	1	571	1	CD5L	1	157804431	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	929246	157804431	91446190	64	32309											
CD1D	912	broad.mit.edu	37	chr1	158152844	158152844	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaatgctgacgagacatggTatctccgagcaaccctggat	11	8	10	12	2	1	2	0	1	1	1	2	5	1	3	3	2	3	3	3	2	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:158152844T>C	uc001frr.2	+	5	1283	c.784T>C	c.(784-786)TAT>CAT	p.Y262H	CD1D_uc009wss.2_Intron	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	262	Ig-like.|Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					CGAGACATGGTATCTCCGAGC	0.602													20	110					0	0	0.010504	0	0		C	158152844	C	C	158152844	3	2	37	1	0	0	0	0	1	0	0	0	2980	1638	57	3	798	3	CD1D	1	158152844	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	348413	158152844	91097777	65	32310											
SPTA1	6708	broad.mit.edu	37	chr1	158632648	158632648	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaatcggcataccaaggActcttgccttgcccttatat	10	13	6	12	1	2	0	1	0	1	0	3	1	2	1	3	2	3	1	3	2	5	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:158632648A>G	uc001fst.1	-	17	2507	c.2308T>C	c.(2308-2310)TCC>CCC	p.S770P		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	770	Spectrin 8.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CATACCAAGGACTCTTGCCTT	0.458													11	57					0	0	0.008291	0	0		G	158632648	G	G	158632648	3	3	37	1	0	0	0	0	1	0	0	0	15141	275	10	3	5095	3	SPTA1	1	158632648	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	479804	158632648	90617973	66	32311											
OR6K3	391114	broad.mit.edu	37	chr1	158687066	158687066	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggattgaagaatggagcAagtacagtaaacatcagtgc	16	8	12	5	0	1	2	1	1	0	1	1	4	1	4	0	2	4	3	0	2	6	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:158687066A>G	uc010pip.1	-	1	888	c.888T>C	c.(886-888)CTT>CTC	p.L296L		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	296	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					AGAATGGAGCAAGTACAGTAA	0.408													21	96					0	0	0.012319	0	0		G	158687066	G	G	158687066	2	3	37	1	0	0	0	0	0	0	0	1	11222	117	5	3		3	OR6K3	1	158687066	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	54418	158687066	90563555	67	32312											
DCAF8	50717	broad.mit.edu	37	chr1	160208501	160208501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgtcacgggcacacatggCcagagtagaatcaccactgt	11	6	10	14	2	2	2	2	0	0	2	2	2	2	2	3	2	0	2	3	2	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:160208501C>T	uc001fvo.2	-	5	1072	c.760G>A	c.(760-762)GCC>ACC	p.A254T	DCAF8_uc001fvn.2_Missense_Mutation_p.A254T|DCAF8_uc009wth.2_Missense_Mutation_p.A254T|DCAF8_uc010pjb.1_Missense_Mutation_p.A254T|DCAF8_uc010pjc.1_Missense_Mutation_p.A408T|uc010pjd.1_5'Flank	NM_015726	NP_056541	Q5TAQ9	DCAF8_HUMAN	DDB1 and CUL4 associated factor 8	254	WD 2.					CUL4 RING ubiquitin ligase complex	protein binding			skin(2)	2						GCACACATGGCCAGAGTAGAA	0.473													7	20					0	0	0.00308	0	0		T	160208501	T	T	160208501	3	4	37	1	0	0	0	0	1	0	0	0	4279	739	26	2	1073	2	DCAF8	1	160208501	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1521435	160208501	89042120	68	32313											
B4GALT3	8703	broad.mit.edu	37	chr1	161143511	161143511	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccgaagtactgggggtaCgggaggctagggagagaaag	11	5	18	7	2	0	1	0	0	0	1	1	5	1	3	2	5	2	3	2	5	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:161143511C>T	uc001fyq.1	-	6	949	c.687G>A	c.(685-687)CCG>CCA	p.P229P	PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_Intron|B4GALT3_uc001fyo.1_Silent_p.P9P|B4GALT3_uc001fyp.1_RNA|B4GALT3_uc001fyr.1_Silent_p.P229P|B4GALT3_uc001fys.1_Silent_p.P229P|B4GALT3_uc009wud.1_3'UTR	NM_003779	NP_003770	O60512	B4GT3_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	229	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|metal ion binding|N-acetyllactosamine synthase activity				0	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)		N-Acetyl-D-glucosamine(DB00141)	ACTGGGGGTACGGGAGGCTAG	0.552													6	95					0	0	0.001168	0	0		T	161143511	T	T	161143511	2	4	37	1	0	0	0	0	0	0	0	1	1273	523	19	1		1	B4GALT3	1	161143511	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	935010	161143511	88107110	69	32314											
FCRLB	127943	broad.mit.edu	37	chr1	161695837	161695837	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcgcatcccggtggagagCgcgcccatgttctccgctaa	7	8	12	14	5	1	1	0	0	1	1	3	2	2	1	3	2	2	3	3	2	1	2	rs3738330		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:161695837C>T	uc001gbh.2	+	6	768	c.534C>T	c.(532-534)AGC>AGT	p.S178S	FCRLB_uc009wus.2_Silent_p.S178S|FCRLB_uc001gbj.2_Silent_p.S178S|FCRLB_uc001gbk.2_Silent_p.S178S|FCRLB_uc001gbl.2_Silent_p.S171S|FCRLB_uc001gbm.2_Silent_p.S171S|FCRLB_uc001gbi.2_Silent_p.S178S|FCRLB_uc001gbn.3_5'UTR	NM_001002901	NP_001002901	Q6BAA4	FCRLB_HUMAN	Fc receptor-like B	178	Ig-like C2-type 2.					endoplasmic reticulum					0	all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00634)			CGGTGGAGAGCGCGCCCATGT	0.627											OREG0013944	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	34					0	0	0.004007	0	0		T	161695837	T	T	161695837	2	4	37	1	0	0	0	0	0	0	0	1	5815	767	27	1		1	FCRLB	1	161695837	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	552326	161695837	87554784	70	32315											
HSD17B7	51478	broad.mit.edu	37	chr1	162769680	162769680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacagctcttccaaatatGccactgaccttttgagtgtg	9	13	7	12	0	1	2	0	2	1	0	2	2	2	2	4	0	3	1	4	0	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:162769680G>A	uc001gci.2	+	5	690	c.595G>A	c.(595-597)GCC>ACC	p.A199T	HSD17B7_uc009wuv.2_RNA	NM_016371	NP_057455	P56937	DHB7_HUMAN	hydroxysteroid (17-beta) dehydrogenase 7	199	Extracellular (Potential).				cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	3-keto sterol reductase activity|estradiol 17-beta-dehydrogenase activity			ovary(1)	1	all_hematologic(112;0.115)				NADH(DB00157)	TTCCAAATATGCCACTGACCT	0.483													10	26					0	0	0.008291	0	0		A	162769680	A	A	162769680	3	1	37	1	0	0	0	0	1	0	0	0	7404	1319	46	2	613	2	HSD17B7	1	162769680	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1073843	162769680	86480941	71	32316											
RXRG	6258	broad.mit.edu	37	chr1	165386448	165386448	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcacaactgtataccccgTagtgctttcctggttagaag	9	13	8	11	1	1	1	1	0	0	1	2	1	2	1	3	1	3	4	3	1	6	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:165386448T>C	uc001gda.2	-	4	752	c.452A>G	c.(451-453)TAC>TGC	p.Y151C		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	151	NR C4-type.|Nuclear receptor.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	GTATACCCCGTAGTGCTTTCC	0.428													39	96					0	0	0.011902	0	0		C	165386448	C	C	165386448	3	2	37	1	0	0	0	0	1	0	0	0	13790	1638	57	3	967	3	RXRG	1	165386448	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2616768	165386448	83864173	72	32317											
SLC19A2	10560	broad.mit.edu	37	chr1	169446496	169446496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtgtcagtaacaatgccaCcattttgtaccttgatgcca	10	12	9	10	0	1	1	1	1	0	0	1	1	1	1	4	1	4	2	4	1	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:169446496C>T	uc001gge.3	-	2	908	c.704G>A	c.(703-705)GGT>GAT	p.G235D	SLC19A2_uc001ggf.3_Intron	NM_006996	NP_008927	O60779	S19A2_HUMAN	solute carrier family 19, member 2	235	Cytoplasmic (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|folic acid transporter activity|reduced folate carrier activity|thiamine uptake transmembrane transporter activity				0	all_hematologic(923;0.208)					AACAATGCCACCATTTTGTAC	0.488													4	112					0	0	0.009096	0	0		T	169446496	T	T	169446496	3	4	37	1	0	0	0	0	1	0	0	0	14454	507	18	4	809	4	SLC19A2	1	169446496	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4060048	169446496	79804125	73	32318											
MYOC	4653	broad.mit.edu	37	chr1	171605701	171605701	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaaacctggcggacatcCgtgccaactgtgtcgattct	10	10	9	12	3	2	0	1	0	1	0	4	2	3	1	3	2	3	0	3	2	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:171605701C>T	uc001ghu.2	-	3	901	c.879G>A	c.(877-879)ACG>ACA	p.T293T	MYOC_uc010pmk.1_Silent_p.T235T	NM_000261	NP_000252	Q99972	MYOC_HUMAN	myocilin precursor	293	Olfactomedin-like.		T -> K (in GLC1A).		anatomical structure morphogenesis	cilium|extracellular space|rough endoplasmic reticulum	structural molecule activity			lung(1)	1	all_cancers(6;5.47e-10)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					GGCGGACATCCGTGCCAACTG	0.537													8	80					0	0	0.004482	0	0		T	171605701	T	T	171605701	2	4	37	1	0	0	0	0	0	0	0	1	10104	639	23	1		1	MYOC	1	171605701	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2159205	171605701	77644920	74	32319											
IVNS1ABP	10625	broad.mit.edu	37	chr1	185267231	185267231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaggttatagacttccaccGtattcagaaattcattgcca	13	12	6	10	1	2	2	2	0	0	2	3	2	3	2	3	1	1	2	3	1	5	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:185267231G>A	uc001grl.2	-	15	2488	c.1865C>T	c.(1864-1866)ACG>ATG	p.T622M	IVNS1ABP_uc001gri.2_Missense_Mutation_p.T282M|IVNS1ABP_uc001grj.2_Missense_Mutation_p.T282M|IVNS1ABP_uc009wyj.2_Missense_Mutation_p.T404M|IVNS1ABP_uc009wyk.2_RNA	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	622	Kelch 6.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						GACTTCCACCGTATTCAGAAA	0.408													46	143					0	0	0.01441	0	0		A	185267231	A	A	185267231	3	1	37	1	0	0	0	0	1	0	0	0	7946	1145	40	1	67	1	IVNS1ABP	1	185267231	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	13661530	185267231	63983390	75	32320											
HMCN1	83872	broad.mit.edu	37	chr1	185892699	185892699	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgtaccaccaaatgaagCtttctttctcaaagtaacag	13	13	5	10	0	2	1	1	1	2	0	3	1	2	1	2	0	3	3	2	0	5	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:185892699C>A	uc001grq.1	+	8	1428	c.1199C>A	c.(1198-1200)GCT>GAT	p.A400D		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	400					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CCAAATGAAGCTTTCTTTCTC	0.358													4	79					0.00116845	0.001218	0.001168	1	0		A	185892699	A	A	185892699	3	1	37	1	0	0	0	0	1	0	0	0	7236	797	28	5	1229	5	HMCN1	1	185892699	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	625468	185892699	63357922	76	32321											
PRG4	10216	broad.mit.edu	37	chr1	186275472	186275472	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagataacaagaagaacagAactaaaaagaaacctacccc	24	3	5	9	0	0	5	0	0	0	5	0	5	0	5	3	0	5	0	3	0	11	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:186275472A>T	uc001gru.3	+	7	672	c.621A>T	c.(619-621)AGA>AGT	p.R207S	PRG4_uc001grt.3_Missense_Mutation_p.R166S|PRG4_uc009wyl.2_Missense_Mutation_p.R114S|PRG4_uc009wym.2_Missense_Mutation_p.R73S|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	207					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						AGAAGAACAGAACTAAAAAGA	0.323													5	137					0	0	0.001168	0	0		T	186275472	T	T	186275472	3	4	37	1	0	0	0	0	1	0	0	0	12503	243	9	5	643	5	PRG4	1	186275472	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	382773	186275472	62975149	77	32322											
RGS18	64407	broad.mit.edu	37	chr1	192128397	192128397	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttgtgcagaaacctgAgtttcatgaagacacccgct	10	12	8	11	1	3	4	1	2	2	2	3	4	3	4	2	0	2	3	2	0	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:192128397A>T	uc001gsg.2	+	2	343	c.167A>T	c.(166-168)GAG>GTG	p.E56V		NM_130782	NP_570138	Q9NS28	RGS18_HUMAN	regulator of G-protein signalling 18	56					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)	3						CAGAAACCTGAGTTTCATGAA	0.373													11	41					0	0	0.010729	0	0		T	192128397	T	T	192128397	3	4	37	1	0	0	0	0	1	0	0	0	13325	304	11	5	173	5	RGS18	1	192128397	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	5852925	192128397	57122224	78	32323											
KIF21B	23046	broad.mit.edu	37	chr1	200973959	200973959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcccctgtccgcttcagccGctctgagccggccaggtcca	5	7	11	18	3	2	1	1	1	1	0	4	1	4	1	7	2	3	2	7	2	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:200973959G>A	uc001gvs.1	-	6	1152	c.835C>T	c.(835-837)CGG>TGG	p.R279W	KIF21B_uc001gvr.1_Missense_Mutation_p.R279W|KIF21B_uc009wzl.1_Missense_Mutation_p.R279W|KIF21B_uc010ppn.1_Missense_Mutation_p.R279W|KIF21B_uc001gvt.1_Missense_Mutation_p.R62W	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	279	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						CGCTTCAGCCGCTCTGAGCCG	0.602													15	36					0	0	0.00499	0	0		A	200973959	A	A	200973959	3	1	37	1	0	0	0	0	1	0	0	0	8305	1086	38	1	4155	1	KIF21B	1	200973959	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	8845562	200973959	48276662	79	32324											
CACNA1S	779	broad.mit.edu	37	chr1	201058527	201058527	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcactgccattgatggtgcaCcggcgccctgagcccgtcct	5	9	11	16	3	1	2	1	2	0	0	2	2	2	2	5	2	3	1	5	2	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:201058527C>T	uc001gvv.2	-	6	986	c.759G>A	c.(757-759)CGG>CGA	p.R253R		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	253	Extracellular (Potential).|I.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TGATGGTGCACCGGCGCCCTG	0.622													8	28					0	0	0.00308	0	0		T	201058527	T	T	201058527	2	4	37	1	0	0	0	0	0	0	0	1	2550	494	18	4		4	CACNA1S	1	201058527	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	84568	201058527	48192094	80	32325											
DSTYK	25778	broad.mit.edu	37	chr1	205117339	205117339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgtggctcttacccctccGcacattgttccagagatggt	6	13	9	13	1	1	1	0	0	1	1	3	2	3	1	4	2	1	3	4	2	1	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:205117339G>A	uc001hbw.2	-	12	2660	c.2596C>T	c.(2596-2598)CGG>TGG	p.R866W	DSTYK_uc001hbx.2_Intron	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	866	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						TTACCCCTCCGCACATTGTTC	0.532													29	80					0	0	0.012213	0	0		A	205117339	A	A	205117339	3	1	37	1	0	0	0	0	1	0	0	0	4791	1086	38	1	201	1	DSTYK	1	205117339	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4058812	205117339	44133282	81	32326											
C4BPB	725	broad.mit.edu	37	chr1	207269950	207269950	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccaccattagttattacTgtgaagacaggtaagtgaac	14	11	9	7	0	0	3	0	2	0	1	1	4	1	3	2	1	2	2	2	1	6	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:207269950T>C	uc001hfj.2	+	5	623	c.493T>C	c.(493-495)TGT>CGT	p.C165R	C4BPB_uc001hfi.2_Missense_Mutation_p.C164R|C4BPB_uc001hfk.2_Missense_Mutation_p.C164R|C4BPB_uc001hfl.2_Missense_Mutation_p.C165R|C4BPB_uc009xcd.2_Missense_Mutation_p.C216R|C4BPB_uc001hfm.2_Missense_Mutation_p.C165R	NM_001017365	NP_001017365	P20851	C4BPB_HUMAN	complement component 4 binding protein, beta	165	Sushi 3.				blood coagulation|complement activation, classical pathway|innate immune response	extracellular region				ovary(1)	1						TAGTTATTACTGTGAAGACAG	0.463													12	46					0	0	0.013537	0	0		C	207269950	C	C	207269950	3	2	37	1	0	0	0	0	1	0	0	0	2253	1580	55	3	507	3	C4BPB	1	207269950	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2152611	207269950	41980671	82	32327											
RD3	343035	broad.mit.edu	37	chr1	211652526	211652526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggtggccaggctgccgCggggccgcaggctccactgg	5	5	18	13	3	0	1	0	1	0	0	1	1	1	1	4	7	1	3	4	7	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:211652526C>T	uc001him.2	-	3	1604	c.440G>A	c.(439-441)CGC>CAC	p.R147H	RD3_uc001hin.2_RNA|RD3_uc009xda.2_RNA	NM_183059	NP_898882	Q7Z3Z2	RD3_HUMAN	retinal degeneration 3	147					response to stimulus|visual perception					ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00284)|all cancers(67;0.0279)|Epithelial(68;0.0689)		CAGGCTGCCGCGGGGCCGCAG	0.687													5	22					0	0	0.001168	0	0		T	211652526	T	T	211652526	3	4	37	1	0	0	0	0	1	0	0	0	13212	768	27	1	151	1	RD3	1	211652526	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4382576	211652526	37598095	83	32328											
SLC30A1	7779	broad.mit.edu	37	chr1	211748999	211748999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctacactagcaaattcagGctgaatggtagtagcgtgaa	13	9	11	8	1	1	2	1	2	0	0	1	2	1	2	1	2	3	4	1	2	7	5	rs148119372		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:211748999G>A	uc001hio.1	-	2	1400	c.1255C>T	c.(1255-1257)CCT>TCT	p.P419S		NM_021194	NP_067017	Q9Y6M5	ZNT1_HUMAN	solute carrier family 30 (zinc transporter),	419	Cytoplasmic (Potential).				cadmium ion transmembrane transport|cellular calcium ion homeostasis|cellular zinc ion homeostasis|negative regulation of calcium ion import|negative regulation of neurotransmitter secretion|negative regulation of zinc ion import	integral to membrane|T-tubule	calcium channel inhibitor activity|zinc ion transmembrane transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(81;0.00535)|GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.0604)|Epithelial(68;0.0978)		GCAAATTCAGGCTGAATGGTA	0.423													27	85					0	0	0.00632	0	0		A	211748999	A	A	211748999	3	1	37	1	0	0	0	0	1	0	0	0	14578	1203	42	2	272	2	SLC30A1	1	211748999	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	96473	211748999	37501622	84	32329											
HLX	3142	broad.mit.edu	37	chr1	221053526	221053526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagtcccggctggcttcccGcagcggctgtctccgctctc	3	9	12	17	4	2	0	0	0	2	0	6	1	4	0	3	3	1	5	3	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:221053526G>A	uc001hmv.3	+	1	784	c.327G>A	c.(325-327)CCG>CCA	p.P109P		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	109	Pro-rich.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)		CTGGCTTCCCGCAGCGGCTGT	0.572													10	44					0	0	0.006214	0	0		A	221053526	A	A	221053526	2	1	37	1	0	0	0	0	0	0	0	1	7232	1074	38	1		1	HLX	1	221053526	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	9304527	221053526	28197095	85	32330											
DISP1	84976	broad.mit.edu	37	chr1	223177225	223177225	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccaggcctggattttgcActtctgtcaaaaactgagaa	11	12	8	10	0	2	1	1	1	1	1	3	3	3	2	2	2	2	1	2	2	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:223177225A>G	uc001hnu.1	+	8	2633	c.2486A>G	c.(2485-2487)CAC>CGC	p.H829R		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	829					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TGGATTTTGCACTTCTGTCAA	0.433													24	65					0	0	0.003954	0	0		G	223177225	G	G	223177225	3	3	37	1	0	0	0	0	1	0	0	0	4545	159	6	3	2512	3	DISP1	1	223177225	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2123699	223177225	26073396	86	32331											
TLR5	7100	broad.mit.edu	37	chr1	223286273	223286273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgggtgaggttgcagaaaCgataaaaggctattcggcca	12	8	13	8	2	0	2	0	1	0	1	1	3	0	2	2	4	2	3	2	4	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:223286273C>T	uc001hnv.1	-	4	547	c.101G>A	c.(100-102)CGT>CAT	p.R34H	TLR5_uc001hnw.1_Missense_Mutation_p.R34H	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	34	Extracellular (Potential).				cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		GTTGCAGAAACGATAAAAGGC	0.542													9	58					0	0	0.006214	0	0		T	223286273	T	T	223286273	3	4	37	1	0	0	0	0	1	0	0	0	15979	536	19	1	2479	1	TLR5	1	223286273	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	109048	223286273	25964348	87	32332											
OBSCN	84033	broad.mit.edu	37	chr1	228475418	228475418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccagtgcggttccaggagGccctgaaggacctggaggtg	7	6	18	10	1	0	1	0	1	0	0	1	4	1	4	4	7	1	1	4	7	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:228475418G>A	uc009xez.1	+	36	9612	c.9568G>A	c.(9568-9570)GCC>ACC	p.A3190T	OBSCN_uc001hsn.2_Missense_Mutation_p.A3190T|OBSCN_uc001hsq.1_Missense_Mutation_p.A446T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3190	Ig-like 32.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GTTCCAGGAGGCCCTGAAGGA	0.637													14	47					0	0	0.00245	0	0		A	228475418	A	A	228475418	3	1	37	1	0	0	0	0	1	0	0	0	10831	1203	42	2	9706	2	OBSCN	1	228475418	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5189145	228475418	20775203	88	32333											
OBSCN	84033	broad.mit.edu	37	chr1	228554800	228554800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagcgagacatcctggccGcgctgagccacccgctggtc	6	5	15	15	4	0	2	0	1	0	1	2	4	1	3	4	3	2	2	4	3	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:228554800G>A	uc009xez.1	+	86	19596	c.19552G>A	c.(19552-19554)GCG>ACG	p.A6518T	OBSCN_uc001hsr.1_Missense_Mutation_p.A1147T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	6518	Protein kinase 1.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CATCCTGGCCGCGCTGAGCCA	0.612													5	19					0	0	0.000602	0	0		A	228554800	A	A	228554800	3	1	37	1	0	0	0	0	1	0	0	0	10831	1087	38	1	21100	1	OBSCN	1	228554800	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	79382	228554800	20695821	89	32334											
EXOC8	149371	broad.mit.edu	37	chr1	231471552	231471552	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccaaaatgatttccaccAggctctccaaaagtaccatg	15	8	5	13	0	1	1	0	1	1	0	3	1	2	1	5	1	2	2	5	1	6	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:231471552A>G	uc001huq.2	-	1	2027	c.1940T>C	c.(1939-1941)CTG>CCG	p.L647P		NM_175876	NP_787072	Q8IYI6	EXOC8_HUMAN	exocyst complex 84-kDa subunit	647					exocytosis|protein transport	growth cone|nucleus	protein binding			skin(1)	1	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				GATTTCCACCAGGCTCTCCAA	0.453													12	134					0	0	0.010729	0	0		G	231471552	G	G	231471552	3	3	37	1	0	0	0	0	1	0	0	0	5319	188	7	3	241	3	EXOC8	1	231471552	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2916752	231471552	17779069	90	32335											
NID1	4811	broad.mit.edu	37	chr1	236228195	236228195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgtcgtagaagcggagcGccccactcagctccagggca	9	6	12	14	3	2	1	1	0	1	1	4	2	3	2	3	2	3	3	3	2	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:236228195G>A	uc001hxo.2	-	1	287	c.185C>T	c.(184-186)GCG>GTG	p.A62V	NID1_uc009xgd.2_Missense_Mutation_p.A62V|uc001hxp.1_Silent_p.A112A	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	62					cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	GAAGCGGAGCGCCCCACTCAG	0.597													3	31					0	0	0.004672	0	0		A	236228195	A	A	236228195	3	1	37	1	0	0	0	0	1	0	0	0	10433	1087	38	1	3638	1	NID1	1	236228195	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4756643	236228195	13022426	91	32336											
ZP4	57829	broad.mit.edu	37	chr1	238048859	238048859	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgggtagtcaccaacaccgTagtaagagccatagttttta	12	11	9	9	1	1	1	1	0	0	1	1	1	1	1	3	1	2	4	3	1	6	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:238048859T>C	uc001hym.2	-	8	992	c.992A>G	c.(991-993)TAC>TGC	p.Y331C	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	331	ZP.|Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			ACCAACACCGTAGTAAGAGCC	0.483													4	48					0	0	0.009096	0	0		C	238048859	C	C	238048859	3	2	37	1	0	0	0	0	1	0	0	0	18243	1638	57	3	650	3	ZP4	1	238048859	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1820664	238048859	11201762	92	32337											
KIF26B	55083	broad.mit.edu	37	chr1	245704075	245704075	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttttccactccagagctgcCcagaagttaaatctgtcttc	9	14	6	12	0	2	2	0	0	2	2	5	2	4	2	3	0	2	2	3	0	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:245704075C>A	uc001ibf.1	+	5	1613	c.1173C>A	c.(1171-1173)GCC>GCA	p.A391A	KIF26B_uc010pyq.1_Silent_p.A391A|KIF26B_uc001ibg.1_Silent_p.A9A	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	391					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CCAGAGCTGCCCAGAAGTTAA	0.453													30	139					1.39806e-14	1.59982e-14	0.008361	1	0		A	245704075	A	A	245704075	2	1	37	1	0	0	0	0	0	0	0	1	8311	610	22	5		5	KIF26B	1	245704075	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	7655216	245704075	3546546	93	32338											
OR2M3	127062	broad.mit.edu	37	chr1	248367276	248367276	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgaccagagcattcatgAagatcttaggaaagggcaag	15	7	13	6	0	2	4	1	2	1	2	2	5	2	5	1	3	1	2	1	3	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:248367276A>G	uc010pzg.1	+	1	907	c.907A>G	c.(907-909)AAG>GAG	p.K303E		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AGCATTCATGAAGATCTTAGG	0.423													4	140					0	0	0.000602	0	0		G	248367276	G	G	248367276	3	3	37	1	0	0	0	0	1	0	0	0	11030	247	9	3	909	3	OR2M3	1	248367276	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2663201	248367276	883345	94	32339											
PXDN	7837	broad.mit.edu	37	chr2	1642695	1642695	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgtcccagatgcatctgAgcgtgtgctgaaggctgagg	8	11	14	8	1	1	4	0	3	1	1	2	4	2	4	1	2	3	3	1	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:1642695A>C	uc002qxa.2	-	21	4193	c.4129T>G	c.(4129-4131)TCA>GCA	p.S1377A		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1377					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GATGCATCTGAGCGTGTGCTG	0.532													21	74					0	0	0.008871	0	0		C	1642695	C	C	1642695	3	2	37	1	0	0	0	0	1	0	0	0	12872	304	11	5	322	5	PXDN	2	1642695	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08		1642695	241556678	95	32340											
PXDN	7837	broad.mit.edu	37	chr2	1647230	1647230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactccgccaccctgaacaCgtcgctctgcacccgggtga	8	6	10	17	4	1	2	0	2	1	0	3	3	2	2	4	1	3	2	4	1	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:1647230C>T	uc002qxa.2	-	19	3926	c.3862G>A	c.(3862-3864)GTG>ATG	p.V1288M		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1288					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		ACCCTGAACACGTCGCTCTGC	0.637													19	150					0	0	0.008871	0	0		T	1647230	T	T	1647230	3	4	37	1	0	0	0	0	1	0	0	0	12872	536	19	1	597	1	PXDN	2	1647230	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4535	1647230	241552143	96	32341											
PXDN	7837	broad.mit.edu	37	chr2	1652618	1652618	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggcccagctgctcgttGgcgcggtggtccccggccag	3	7	16	15	4	1	0	1	0	0	0	3	0	2	0	4	5	2	3	4	5	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:1652618G>T	uc002qxa.2	-	17	2998	c.2934C>A	c.(2932-2934)GCC>GCA	p.A978A		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	978					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GCTGCTCGTTGGCGCGGTGGT	0.697													5	15					0.000602214	0.000629355	0.000602	1	0		T	1652618	T	T	1652618	2	4	37	1	0	0	0	0	0	0	0	1	12872	1335	47	5		5	PXDN	2	1652618	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5388	1652618	241546755	97	32342											
SOX11	6664	broad.mit.edu	37	chr2	5832927	5832927	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggacacggaggagggcgAattcatggcttgcagcccgg	8	6	17	10	3	1	0	1	0	0	0	1	4	1	3	1	6	2	3	1	6	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:5832927A>C	uc002qyj.2	+	1	129	c.74A>C	c.(73-75)GAA>GCA	p.E25A		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	25					cardiac ventricle formation|closure of optic fissure|cornea development in camera-type eye|embryonic digestive tract morphogenesis|embryonic skeletal system morphogenesis|eyelid development in camera-type eye|glial cell proliferation|hard palate development|lens morphogenesis in camera-type eye|limb bud formation|lung morphogenesis|negative regulation of cell death|negative regulation of glial cell proliferation|negative regulation of lymphocyte proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|neural crest cell development|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|outflow tract morphogenesis|positive regulation of BMP signaling pathway|positive regulation of hippo signaling cascade|positive regulation of hormone secretion|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of ossification|positive regulation of osteoblast differentiation|positive regulation of stem cell proliferation|regulation of transforming growth factor beta receptor signaling pathway|signal transduction involved in G1/S transition checkpoint|soft palate development|somite development|spinal cord development|sympathetic nervous system development|ventricular septum morphogenesis	cytoplasm|nucleolus	enhancer sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			OV - Ovarian serous cystadenocarcinoma(76;0.132)		GAGGAGGGCGAATTCATGGCT	0.657													8	28					0	0	0.008291	0	0		C	5832927	C	C	5832927	3	2	37	1	0	0	0	0	1	0	0	0	14967	246	9	5	76	5	SOX11	2	5832927	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	4180309	5832927	237366446	98	32343											
MBOAT2	129642	broad.mit.edu	37	chr2	9013332	9013332	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgaagctgtagcttgaaaAtgctcatcaatgttgtactc	12	12	8	9	1	2	1	2	1	0	0	3	2	2	1	0	0	4	6	0	0	6	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:9013332A>G	uc002qzg.1	-	8	922	c.789T>C	c.(787-789)CAT>CAC	p.H263H	MBOAT2_uc010yix.1_Silent_p.H263H	NM_138799	NP_620154	Q6ZWT7	MBOA2_HUMAN	O-acyltransferase (membrane bound) domain	263					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TAGCTTGAAAATGCTCATCAA	0.418													8	70					0	0	0.006214	0	0		G	9013332	G	G	9013332	2	3	37	1	0	0	0	0	0	0	0	1	9375	98	4	3		3	MBOAT2	2	9013332	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3180405	9013332	234186041	99	32344											
KLF11	8462	broad.mit.edu	37	chr2	10192518	10192518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgacgaagcatgcccggCgccacatgacgaccaagaag	13	3	11	14	4	0	3	0	2	0	1	0	5	0	3	4	1	2	1	4	1	3	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:10192518C>T	uc002raf.1	+	4	1585	c.1423C>T	c.(1423-1425)CGC>TGC	p.R475C	KLF11_uc010yjc.1_Missense_Mutation_p.R458C	NM_003597	NP_003588	O14901	KLF11_HUMAN	Kruppel-like factor 11	475	C2H2-type 3.				apoptosis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|regulation of transcription involved in S phase of mitotic cell cycle	nucleus	sequence-specific DNA binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.133)|OV - Ovarian serous cystadenocarcinoma(76;0.228)		GCATGCCCGGCGCCACATGAC	0.607													22	64					0	0	0.00278	0	0		T	10192518	T	T	10192518	3	4	37	1	0	0	0	0	1	0	0	0	8355	768	27	1	1437	1	KLF11	2	10192518	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1179186	10192518	233006855	100	32345											
KCNF1	3754	broad.mit.edu	37	chr2	11053586	11053586	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgccctgggctacaccaTggagcagagccatccagaga	10	6	11	14	0	1	2	0	0	1	2	2	4	2	3	4	2	4	2	4	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:11053586T>C	uc002rax.2	+	1	1524	c.1034T>C	c.(1033-1035)ATG>ACG	p.M345T		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	345	Helical; Name=Segment S5; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		GGCTACACCATGGAGCAGAGC	0.587													14	59					0	0	0.001855	0	0		C	11053586	C	C	11053586	3	2	37	1	0	0	0	0	1	0	0	0	8042	1464	51	3	1036	3	KCNF1	2	11053586	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	861068	11053586	232145787	101	32346											
ROCK2	9475	broad.mit.edu	37	chr2	11348480	11348480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgactgtttgaggtcaCagtctaatagagaacatctt	11	13	10	7	0	3	3	1	2	2	1	3	4	3	3	0	1	1	2	0	1	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:11348480C>T	uc002rbd.1	-	19	2746	c.2297G>A	c.(2296-2298)TGT>TAT	p.C766Y		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	766	Potential.|Interaction with PPP1R12A.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		TTTGAGGTCACAGTCTAATAG	0.338													5	23					0	0	0.000602	0	0		T	11348480	T	T	11348480	3	4	37	1	0	0	0	0	1	0	0	0	13543	478	17	4	1929	4	ROCK2	2	11348480	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	294894	11348480	231850893	102	32347											
GREB1	9687	broad.mit.edu	37	chr2	11702638	11702638	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagaagagggagaaggaggGctggaaacaaatggcccccc	15	2	16	8	0	0	3	0	0	0	3	0	7	0	5	3	5	1	1	3	5	5	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:11702638G>A	uc002rbk.1	+	3	507	c.207G>A	c.(205-207)GGG>GGA	p.G69G	GREB1_uc002rbl.2_Silent_p.G69G|GREB1_uc002rbm.2_5'UTR|GREB1_uc002rbn.1_Silent_p.G69G	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	69						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GAGAAGGAGGGCTGGAAACAA	0.587													40	105					0	0	0.007835	0	0		A	11702638	A	A	11702638	2	1	37	1	0	0	0	0	0	0	0	1	6776	1190	42	2		2	GREB1	2	11702638	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	354158	11702638	231496735	103	32348											
GREB1	9687	broad.mit.edu	37	chr2	11750942	11750942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggagacgctggagatcaCgcagaacctcctcaactccc	10	6	11	14	2	2	3	2	0	0	3	4	5	4	3	3	3	2	2	3	3	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:11750942C>T	uc002rbk.1	+	18	3095	c.2795C>T	c.(2794-2796)ACG>ATG	p.T932M	GREB1_uc002rbo.1_Missense_Mutation_p.T566M|GREB1_uc002rbp.1_5'Flank	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	932						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		CTGGAGATCACGCAGAACCTC	0.652													6	92					0	0	0.001984	0	0		T	11750942	T	T	11750942	3	4	37	1	0	0	0	0	1	0	0	0	6776	536	19	1	2969	1	GREB1	2	11750942	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	48304	11750942	231448431	104	32349											
NBAS	51594	broad.mit.edu	37	chr2	15415645	15415645	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaaaatgtaactgcatctAccacagtgatgaggtcacct	14	9	9	9	0	2	3	1	2	1	1	2	4	2	3	2	1	3	2	2	1	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:15415645A>G	uc002rcc.1	-	44	5713	c.5687T>C	c.(5686-5688)GTA>GCA	p.V1896A	NBAS_uc010exl.1_Missense_Mutation_p.V968A|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1896										ovary(2)|liver(1)|skin(1)	4						AACTGCATCTACCACAGTGAT	0.413													4	55					0	0	0.009096	0	0		G	15415645	G	G	15415645	3	3	37	1	0	0	0	0	1	0	0	0	10204	391	14	3	1464	3	NBAS	2	15415645	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3664703	15415645	227783728	105	32350											
NBAS	51594	broad.mit.edu	37	chr2	15557796	15557796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaaaccaggaatattcCgctccatcccaagtcgaata	14	7	6	14	2	0	0	0	0	0	0	4	2	3	1	5	1	2	2	5	1	6	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:15557796C>T	uc002rcc.1	-	24	2644	c.2618G>A	c.(2617-2619)CGG>CAG	p.R873Q	NBAS_uc010exl.1_Intron|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	873										ovary(2)|liver(1)|skin(1)	4						AGGAATATTCCGCTCCATCCC	0.383													5	36					0	0	0.001984	0	0		T	15557796	T	T	15557796	3	4	37	1	0	0	0	0	1	0	0	0	10204	652	23	1	4613	1	NBAS	2	15557796	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	142151	15557796	227641577	106	32351											
RAD51AP2	729475	broad.mit.edu	37	chr2	17699599	17699599	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgcttgctactaggtggttgGgaatccgggtcctcaggagg	6	10	16	9	2	1	0	1	0	0	0	3	2	3	2	2	6	2	3	2	6	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:17699599G>T	uc002rcl.1	-	1	108	c.84C>A	c.(82-84)TCC>TCA	p.S28S	RAD51AP2_uc010exn.1_Silent_p.S19S	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	28										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TAGGTGGTTGGGAATCCGGGT	0.602													30	127					3.99451e-17	4.59238e-17	0.009535	1	0		T	17699599	T	T	17699599	2	4	37	1	0	0	0	0	0	0	0	1	13012	1219	43	5		5	RAD51AP2	2	17699599	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2141803	17699599	225499774	107	32352											
SMC6	79677	broad.mit.edu	37	chr2	17888597	17888597	+	Frame_Shift_Del	DEL	T	-	-																															cagtaaaagcttctctacaaTttttgggtggcttttgggac																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:17888597delT	uc002rco.2	-	18	2191	c.1895delA	c.(1894-1896)AATfs	p.N632fs	SMC6_uc010exo.2_Frame_Shift_Del_p.N632fs|SMC6_uc002rcn.2_Frame_Shift_Del_p.N632fs|SMC6_uc002rcp.1_Frame_Shift_Del_p.N658fs|SMC6_uc002rcq.2_Frame_Shift_Del_p.N658fs	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	632	Flexible hinge.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTCTCTACAATTTTTGGGTGG	0.338													24	49	---	---	---	---						.	-	17888597	-	-	17888597	7	5	37	1	0	1	0	1	0	0	0	0	14812	1493	52	0	1424	0	SMC6	2	17888597	Frame_Shift_Del	DEL	T	TCGA-BR-6566-01A-11D-1800-08	188998	17888597	225310776	108	32353											
APOB	338	broad.mit.edu	37	chr2	21231016	21231016	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaacagtgtcttgatctcGttgcgcaggtcagcctgact	7	13	10	11	2	4	2	2	2	2	0	5	2	4	2	1	1	3	2	1	1	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:21231016G>A	uc002red.2	-	26	8852	c.8724C>T	c.(8722-8724)AAC>AAT	p.N2908N		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2908					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TCTTGATCTCGTTGCGCAGGT	0.468													26	212					0	0	0.004656	0	0		A	21231016	A	A	21231016	2	1	37	1	0	0	0	0	0	0	0	1	785	1136	40	1		1	APOB	2	21231016	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3342419	21231016	221968357	109	32354											
DTNB	1838	broad.mit.edu	37	chr2	25799766	25799766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggccgccggcatggccacGccaaaagcaattctggcaga	11	4	13	13	3	1	1	0	0	1	1	1	1	1	1	4	4	1	3	4	4	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:25799766G>A	uc002rgh.2	-	8	1067	c.817C>T	c.(817-819)CGT>TGT	p.R273C	DTNB_uc010yko.1_Missense_Mutation_p.R216C|DTNB_uc010ykp.1_Missense_Mutation_p.R69C|DTNB_uc002rgo.2_Missense_Mutation_p.R94C|DTNB_uc002rgi.2_Missense_Mutation_p.R273C|DTNB_uc002rgj.2_Missense_Mutation_p.R273C|DTNB_uc002rgk.2_Missense_Mutation_p.R273C|DTNB_uc002rgl.2_Missense_Mutation_p.R273C|DTNB_uc002rgq.2_Missense_Mutation_p.R273C|DTNB_uc002rgm.2_Missense_Mutation_p.R273C|DTNB_uc002rgn.2_Missense_Mutation_p.R69C|DTNB_uc002rgr.1_Missense_Mutation_p.R262C|DTNB_uc010ykq.1_Missense_Mutation_p.R126C	NM_021907	NP_068707	O60941	DTNB_HUMAN	dystrobrevin, beta isoform 1	273	ZZ-type.					cytoplasm	calcium ion binding|zinc ion binding			large_intestine(2)|ovary(2)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCATGGCCACGCCAAAAGCAA	0.542													13	15					0	0	0.00245	0	0		A	25799766	A	A	25799766	3	1	37	1	0	0	0	0	1	0	0	0	4795	1087	38	1	1118	1	DTNB	2	25799766	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4568750	25799766	217399607	110	32355											
C2orf39	92749	broad.mit.edu	37	chr2	26677563	26677563	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatgtgcgtgacaactcCaaggactcggagtactggca	13	7	12	9	2	0	2	0	1	0	1	2	4	1	4	1	3	3	2	1	3	5	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:26677563C>T	uc002rhg.2	+	15	2042	c.1968C>T	c.(1966-1968)TCC>TCT	p.S656S		NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	656											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGACAACTCCAAGGACTCGG	0.572													5	134					0	0	0.001168	0	0		T	26677563	T	T	26677563	2	4	37	1	0	0	0	0	0	0	0	1	2167	581	21	4		4	C2orf39	2	26677563	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	877797	26677563	216521810	111	32356											
NRBP1	29959	broad.mit.edu	37	chr2	27662650	27662650	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taggagttcattcaaaagtgCctgcagtctgagcctgctcg	9	11	11	10	1	3	1	2	1	1	0	4	2	3	2	2	1	4	3	2	1	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:27662650C>T	uc002rko.2	+	12	1753	c.921C>T	c.(919-921)TGC>TGT	p.C307C	NRBP1_uc002rkq.2_Silent_p.C306C|NRBP1_uc002rkp.2_Silent_p.C307C|NRBP1_uc002rkr.2_Silent_p.C98C|KRTCAP3_uc002rks.2_5'Flank|KRTCAP3_uc010ylr.1_5'Flank|KRTCAP3_uc002rkt.2_5'Flank	NM_013392	NP_037524	Q9UHY1	NRBP_HUMAN	nuclear receptor binding protein	307	Protein kinase.				ER to Golgi vesicle-mediated transport|gene expression|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cell cortex|endomembrane system|lamellipodium|membrane|nucleoplasm	ATP binding|protein homodimerization activity|protein kinase activity			ovary(2)|lung(1)	3	Acute lymphoblastic leukemia(172;0.155)					TTCAAAAGTGCCTGCAGTCTG	0.453													76	163					0	0	0.01441	0	0		T	27662650	T	T	27662650	2	4	37	1	0	0	0	0	0	0	0	1	10661	747	26	2		2	NRBP1	2	27662650	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	985087	27662650	215536723	112	32357											
IFT172	26160	broad.mit.edu	37	chr2	27684328	27684328	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcgctcctcttgctgTgtgtccatcagccactggta	4	13	9	15	1	2	0	1	0	1	0	5	0	4	0	4	1	3	4	4	1	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:27684328T>C	uc002rku.2	-	22	2301	c.2250A>G	c.(2248-2250)ACA>ACG	p.T750T		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	750					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CCTCTTGCTGTGTGTCCATCA	0.582													40	136					0	0	0.00874	0	0		C	27684328	C	C	27684328	2	2	37	1	0	0	0	0	0	0	0	1	7573	1683	59	3		3	IFT172	2	27684328	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	21678	27684328	215515045	113	32358											
RBKS	64080	broad.mit.edu	37	chr2	28004550	28004550	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcctgcagcctggacacTgactgctgcaatgaaattgg	9	11	11	10	0	0	2	0	2	0	0	1	3	1	3	2	2	4	4	2	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:28004550T>G	uc002rlo.1	-	8	912	c.901A>C	c.(901-903)AGT>CGT	p.S301R	RBKS_uc010ezi.1_Missense_Mutation_p.S234R	NM_022128	NP_071411	Q9H477	RBSK_HUMAN	ribokinase	301					D-ribose metabolic process		ATP binding|ribokinase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)					GCCTGGACACTGACTGCTGCA	0.448													27	88					0	0	0.007291	0	0		G	28004550	G	G	28004550	3	3	37	1	0	0	0	0	1	0	0	0	13133	1580	55	5	71	5	RBKS	2	28004550	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	320222	28004550	215194823	114	32359											
C2orf71	388939	broad.mit.edu	37	chr2	29294952	29294952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cttgacggatgttctggtggGacagcctctgacattccagt	7	12	12	10	1	2	2	0	2	2	0	3	4	3	4	2	3	1	1	2	3	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:29294952G>A	uc002rmt.1	-	1	2176	c.2176C>T	c.(2176-2178)CCC>TCC	p.P726S		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	726					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						GTTCTGGTGGGACAGCCTCTG	0.552													13	97					0	0	0.001855	0	0		A	29294952	A	A	29294952	3	1	37	1	0	0	0	0	1	0	0	0	2194	1174	41	4	1698	4	C2orf71	2	29294952	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1290402	29294952	213904421	115	32360											
NLRC4	58484	broad.mit.edu	37	chr2	32475569	32475569	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacgtcaataaactgctgAgtcttcgtcctgctgtgtac	9	12	10	10	2	2	2	1	1	1	1	4	3	3	2	1	0	4	3	1	0	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:32475569A>G	uc002roi.2	-	4	1610	c.1364T>C	c.(1363-1365)CTC>CCC	p.L455P	NLRC4_uc002roj.1_Missense_Mutation_p.L455P|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	455	NACHT.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TAAACTGCTGAGTCTTCGTCC	0.438													6	113					0	0	0.001168	0	0		G	32475569	G	G	32475569	3	3	37	1	0	0	0	0	1	0	0	0	10488	304	11	3	1734	3	NLRC4	2	32475569	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3180617	32475569	210723804	116	32361											
CRIM1	51232	broad.mit.edu	37	chr2	36749262	36749262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttcggccttccttgtcccGcaataacagcgtacctaatt	8	14	6	13	3	0	0	0	0	0	0	3	0	2	0	4	1	3	2	4	1	4	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:36749262G>A	uc002rpd.2	+	13	2273	c.2234G>A	c.(2233-2235)CGC>CAC	p.R745H		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	745	Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				TCCTTGTCCCGCAATAACAGC	0.443													4	116					0	0	0.001168	0	0		A	36749262	A	A	36749262	3	1	37	1	0	0	0	0	1	0	0	0	3876	1087	38	1	2284	1	CRIM1	2	36749262	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4273693	36749262	206450111	117	32362											
CDC42EP3	10602	broad.mit.edu	37	chr2	37873630	37873630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcgaaagtctccaagcGggggactgatcatatcagga	11	8	14	8	2	3	1	2	1	1	0	4	4	3	3	1	4	1	0	1	4	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:37873630G>A	uc002rqi.1	-	2	1094	c.101C>T	c.(100-102)CCG>CTG	p.P34L		NM_006449	NP_006440	Q9UKI2	BORG2_HUMAN	Cdc42 effector protein 3	34	CRIB.				regulation of cell shape|signal transduction	actin cytoskeleton|cytoplasm|endomembrane system|membrane	cytoskeletal regulatory protein binding				0		all_hematologic(82;0.172)				GTCTCCAAGCGGGGGACTGAT	0.458													6	181					0	0	0.001984	0	0		A	37873630	A	A	37873630	3	1	37	1	0	0	0	0	1	0	0	0	3080	1116	39	1	667	1	CDC42EP3	2	37873630	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1124368	37873630	205325743	118	32363											
SLC8A1	6546	broad.mit.edu	37	chr2	40656482	40656482	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatcttggtccctctcAtccacctccagaaccagagc	9	10	5	17	0	4	2	3	0	2	2	8	2	7	2	5	1	2	0	5	1	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:40656482A>G	uc002rrx.2	-	1	963	c.939T>C	c.(937-939)GAT>GAC	p.D313D	SLC8A1_uc002rry.2_Silent_p.D313D|SLC8A1_uc002rrz.2_Silent_p.D313D|SLC8A1_uc002rsa.2_Silent_p.D313D|SLC8A1_uc002rsd.3_Silent_p.D313D|SLC8A1_uc002rsb.1_Silent_p.D313D|SLC8A1_uc010fan.1_Silent_p.D313D|SLC8A1_uc002rsc.1_Silent_p.D313D	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	313	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	GGTCCCTCTCATCCACCTCCA	0.418													28	180					0	0	0.00632	0	0		G	40656482	G	G	40656482	2	3	37	1	0	0	0	0	0	0	0	1	14731	214	8	3		3	SLC8A1	2	40656482	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2782852	40656482	202542891	119	32364											
EML4	27436	broad.mit.edu	37	chr2	42543190	42543190	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgatgcgctactcaataGgtaggcaaatttactcccac	11	11	8	11	1	1	1	1	1	0	0	2	1	2	1	1	2	3	3	1	2	6	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:42543190G>T	uc002rsi.2	+	18	2318	c.2056G>T	c.(2056-2058)GAT>TAT	p.D686Y	EML4_uc010fap.2_Missense_Mutation_p.D628Y|EML4_uc002rsj.2_Missense_Mutation_p.D375Y|EML4_uc010faq.2_Missense_Mutation_p.D31Y|EML4_uc010ynv.1_Intron	NM_019063	NP_061936	Q9HC35	EMAL4_HUMAN	echinoderm microtubule associated protein like 4	686	WD 7.				microtubule-based process|mitosis	cytoplasm|microtubule	protein binding		EML4/ALK(246)	lung(246)|ovary(2)|central_nervous_system(1)|skin(1)	250						CTACTCAATAGGTAGGCAAAT	0.428			T	ALK	NSCLC								5	88					3.59834e-05	3.82557e-05	0.001168	1	0		T	42543190	T	T	42543190	3	4	37	1	0	0	0	0	1	0	0	0	5107	1014	35	5	2126	5	EML4	2	42543190	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1886708	42543190	200656183	120	32365											
SRBD1	55133	broad.mit.edu	37	chr2	45807021	45807021	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaagccagtacctttaacGtcaggcctaatgtacgatag	14	10	8	9	2	1	0	1	0	0	0	1	1	1	0	3	1	4	2	3	1	7	7	rs143177963		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:45807021G>A	uc002rus.2	-	7	1141	c.1065C>T	c.(1063-1065)GAC>GAT	p.D355D		NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	355					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			TACCTTTAACGTCAGGCCTAA	0.388													12	264					0	0	0.001855	0	0		A	45807021	A	A	45807021	2	1	37	1	0	0	0	0	0	0	0	1	15158	1136	40	1		1	SRBD1	2	45807021	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3263831	45807021	197392352	121	32366											
SOCS5	9655	broad.mit.edu	37	chr2	46986749	46986749	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggagcttggaaagtccaCacacagattgattacataca	15	8	9	9	0	0	2	0	1	0	1	1	4	1	4	1	2	3	1	1	2	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:46986749C>T	uc002rvf.2	+	2	1244	c.1080C>T	c.(1078-1080)CAC>CAT	p.H360H	SOCS5_uc010yoe.1_Silent_p.H329H|SOCS5_uc002rvg.2_Silent_p.H360H	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	360					cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			GGAAAGTCCACACACAGATTG	0.498													32	72					0	0	0.008361	0	0		T	46986749	T	T	46986749	2	4	37	1	0	0	0	0	0	0	0	1	14942	477	17	4		4	SOCS5	2	46986749	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1179728	46986749	196212624	122	32367											
KLRAQ1	129285	broad.mit.edu	37	chr2	48707064	48707064	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgattttgatttcctaggTacagagccagatggactcct	9	14	10	8	0	0	4	0	2	0	2	2	5	2	5	3	2	2	1	3	2	2	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:48707064T>C	uc002rwm.2	+	13	1412	c.1227T>C	c.(1225-1227)AGT>AGC	p.S409S	KLRAQ1_uc002rwj.2_Silent_p.S409S|KLRAQ1_uc002rwl.2_Silent_p.S363S|KLRAQ1_uc002rwk.2_Silent_p.S409S|KLRAQ1_uc010yok.1_Silent_p.S409S	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	409										ovary(1)	1						ATTTCCTAGGTACAGAGCCAG	0.408													4	60					0	0	0.009096	0	0		C	48707064	C	C	48707064	2	2	37	1	0	0	0	0	0	0	0	1	8429	1652	57	3		3	KLRAQ1	2	48707064	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1720315	48707064	194492309	123	32368											
SLC1A4	6509	broad.mit.edu	37	chr2	65245255	65245255	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgaagagaacaatggtgTggacaagaggatcagcaggt	15	7	14	5	0	1	3	1	1	0	2	1	6	1	5	0	4	2	1	0	4	4	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:65245255T>C	uc010yqa.1	+	6	1407	c.1085T>C	c.(1084-1086)GTG>GCG	p.V362A	SLC1A4_uc010ypy.1_Missense_Mutation_p.V142A|SLC1A4_uc010ypz.1_Missense_Mutation_p.V64A|SLC1A4_uc010fcv.2_Missense_Mutation_p.V362A|SLC1A4_uc002sdh.2_Missense_Mutation_p.V142A	NM_003038	NP_003029	P43007	SATT_HUMAN	solute carrier family 1, member 4 isoform 1	362					cellular nitrogen compound metabolic process|cognition|synaptic transmission, glutamatergic	intermediate filament|melanosome	chloride channel activity|L-alanine transmembrane transporter activity|L-cystine transmembrane transporter activity|L-hydroxyproline transmembrane transporter activity|L-proline transmembrane transporter activity|L-serine transmembrane transporter activity|L-threonine transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(1)	1					L-Alanine(DB00160)	AACAATGGTGTGGACAAGAGG	0.532													23	104					0	0	0.014323	0	0		C	65245255	C	C	65245255	3	2	37	1	0	0	0	0	1	0	0	0	14459	1696	59	3	1107	3	SLC1A4	2	65245255	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	16538191	65245255	177954118	124	32369											
SPRED2	200734	broad.mit.edu	37	chr2	65541010	65541010	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttccgccgccgcgacttgccCcgggagggctgcgtcttgat	3	9	14	15	6	1	1	0	1	1	0	2	3	2	2	5	2	2	1	5	2	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:65541010C>A	uc002sdr.3	-	6	1417	c.882G>T	c.(880-882)CGG>CGT	p.R294R	SPRED2_uc010fcw.2_Silent_p.R291R	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	294					inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						GCGACTTGCCCCGGGAGGGCT	0.662													42	127					5.2432e-18	6.05061e-18	0.01441	1	0		A	65541010	A	A	65541010	2	1	37	1	0	0	0	0	0	0	0	1	15118	610	22	5		5	SPRED2	2	65541010	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	295755	65541010	177658363	125	32370											
ASPRV1	151516	broad.mit.edu	37	chr2	70188248	70188248	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatagtagcccttacccatGctgttggcaaagacgatctc	11	10	9	11	1	1	2	0	0	1	2	2	3	1	2	2	1	3	4	2	1	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:70188248G>A	uc002sfz.3	-	1	1150	c.573C>T	c.(571-573)AGC>AGT	p.S191S		NM_152792	NP_690005	Q53RT3	APRV1_HUMAN	aspartic peptidase, retroviral-like 1 precursor	191	Extracellular (Potential).				protein maturation by peptide bond cleavage|skin development		aspartic-type endopeptidase activity			ovary(1)	1						CCTTACCCATGCTGTTGGCAA	0.587													5	114					0	0	0.000602	0	0		A	70188248	A	A	70188248	2	1	37	1	0	0	0	0	0	0	0	1	1059	1310	46	2		2	ASPRV1	2	70188248	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4647238	70188248	173011125	126	32371											
PCYOX1	51449	broad.mit.edu	37	chr2	70504467	70504467	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctatcaccgctggaacggGcacacagacatgattgatca	12	7	10	12	2	2	3	2	2	0	1	2	4	2	4	2	2	1	2	2	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:70504467G>A	uc002sgn.3	+	6	1527	c.1461G>A	c.(1459-1461)GGG>GGA	p.G487G	PCYOX1_uc010fdo.2_Silent_p.G410G|PCYOX1_uc010yqu.1_Silent_p.G469G	NM_016297	NP_057381	Q9UHG3	PCYOX_HUMAN	prenylcysteine oxidase 1 precursor	487					prenylated protein catabolic process	lysosome|very-low-density lipoprotein particle	prenylcysteine oxidase activity			central_nervous_system(1)	1						GCTGGAACGGGCACACAGACA	0.463													6	225					0	0	0.00308	0	0		A	70504467	A	A	70504467	2	1	37	1	0	0	0	0	0	0	0	1	11627	1190	42	2		2	PCYOX1	2	70504467	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	316219	70504467	172694906	127	32372											
ZNF638	27332	broad.mit.edu	37	chr2	71607362	71607362	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctacgtagaacaaagaggTgaagaaaaagactttagagt	18	8	10	5	1	0	6	0	1	0	5	1	6	1	6	1	1	2	1	1	1	8	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:71607362T>C	uc002shx.2	+	9	2595	c.2276T>C	c.(2275-2277)GTG>GCG	p.V759A	ZNF638_uc010fec.2_Missense_Mutation_p.V865A|ZNF638_uc010yqw.1_Missense_Mutation_p.V338A|ZNF638_uc002shw.2_Missense_Mutation_p.V759A|ZNF638_uc002shy.2_Missense_Mutation_p.V759A|ZNF638_uc002shz.2_Missense_Mutation_p.V759A|ZNF638_uc002sia.2_Missense_Mutation_p.V759A|ZNF638_uc002sib.1_Missense_Mutation_p.V759A|ZNF638_uc010fed.2_RNA	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	759					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AACAAAGAGGTGAAGAAAAAG	0.264													11	28					0	0	0.010729	0	0		C	71607362	C	C	71607362	3	2	37	1	0	0	0	0	1	0	0	0	18080	1696	59	3	2306	3	ZNF638	2	71607362	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1102895	71607362	171592011	128	32373											
RTKN	6242	broad.mit.edu	37	chr2	74653450	74653450	+	Frame_Shift_Del	DEL	G	-	-																															tggggatcgctgaggtgggaGgggggcaaccgagcgagccc																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:74653450delG	uc002sle.2	-	12	1729	c.1612delC	c.(1612-1614)CTCfs	p.L538fs	RTKN_uc002slc.2_Frame_Shift_Del_p.L525fs|RTKN_uc002sld.2_Frame_Shift_Del_p.L488fs	NM_001015055	NP_001015055	Q9BST9	RTKN_HUMAN	rhotekin isoform a	538	Pro-rich.				apoptosis|regulation of anti-apoptosis|Rho protein signal transduction	intracellular	GTP binding|GTP-Rho binding|GTPase inhibitor activity			skin(1)	1						TGAGGTGGGAGGGGGGCAACC	0.652													85	175	---	---	---	---						.	-	74653450	-	-	74653450	7	5	37	1	0	1	0	1	0	0	0	0	13747	1000	35	0	83	0	RTKN	2	74653450	Frame_Shift_Del	DEL	G	TCGA-BR-6566-01A-11D-1800-08	3046088	74653450	168545923	129	32374											
POLR1A	25885	broad.mit.edu	37	chr2	86272846	86272846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttgccagacgccatcagcGggggtctccgaccttccagt	7	8	11	15	3	2	1	1	0	1	1	4	2	3	1	5	2	2	0	5	2	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:86272846G>A	uc002sqs.2	-	20	3159	c.2780C>T	c.(2779-2781)CCG>CTG	p.P927L	POLR1A_uc010ytb.1_Missense_Mutation_p.P293L|POLR1A_uc002sqt.1_5'Flank	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	927					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						CGCCATCAGCGGGGGTCTCCG	0.552													9	91					0	0	0.008291	0	0		A	86272846	A	A	86272846	3	1	37	1	0	0	0	0	1	0	0	0	12228	1116	39	1	2442	1	POLR1A	2	86272846	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	11619396	86272846	156926527	130	32375											
ASTL	431705	broad.mit.edu	37	chr2	96789603	96789603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggcttaatcttcggacaTccccttgaaatgatttctag	11	13	7	10	1	2	2	0	2	2	0	4	3	3	3	2	2	0	1	2	2	3	5	rs11292169		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:96789603T>C	uc010yui.1	-	9	1282	c.1282A>G	c.(1282-1284)ATG>GTG	p.M428V		NM_001002036	NP_001002036	Q6HA08	ASTL_HUMAN	astacin-like metalloendopeptidase precursor	428					proteolysis		metalloendopeptidase activity|zinc ion binding				0						TCTTCGGACATCCCCTTGAAA	0.582													4	108					0	0	0.001168	0	0		C	96789603	C	C	96789603	3	2	37	1	0	0	0	0	1	0	0	0	1064	1435	50	3	16	3	ASTL	2	96789603	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	10516757	96789603	146409770	131	32376											
TMEM127	55654	broad.mit.edu	37	chr2	96919847	96919847	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaatgacggtggcacacTgcagaactaggagacagagg	14	4	14	9	1	0	4	0	1	0	3	0	5	0	4	1	4	3	2	1	4	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:96919847T>C	uc002svq.2	-	4	673	c.416A>G	c.(415-417)CAG>CGG	p.Q139R	TMEM127_uc002svr.2_Missense_Mutation_p.Q139R	NM_017849	NP_060319	O75204	TM127_HUMAN	transmembrane protein 127	139	Helical; (Potential).				negative regulation of cell proliferation|negative regulation of TOR signaling cascade	cytoplasm|integral to membrane|plasma membrane					0						GGTGGCACACTGCAGAACTAG	0.522									Pheochromocytoma_(Adrenal)_Familial				32	66					0	0	0.010818	0	0		C	96919847	C	C	96919847	3	2	37	1	0	0	0	0	1	0	0	0	16065	1580	55	3	304	3	TMEM127	2	96919847	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	130244	96919847	146279526	132	32377											
SNRNP200	23020	broad.mit.edu	37	chr2	96963431	96963431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgtccattcgagactgacGcactcgctctctccgggacc	6	10	10	15	4	1	2	0	1	1	1	6	4	3	3	3	1	0	2	3	1	0	1	rs142216052		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:96963431G>A	uc002svu.2	-	10	1233	c.1147C>T	c.(1147-1149)CGT>TGT	p.R383C		NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	383						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						CGAGACTGACGCACTCGCTCT	0.483													11	74					0	0	0.010729	0	0		A	96963431	A	A	96963431	3	1	37	1	0	0	0	0	1	0	0	0	14877	1087	38	1	5407	1	SNRNP200	2	96963431	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	43584	96963431	146235942	133	32378											
ARID5A	10865	broad.mit.edu	37	chr2	97217888	97217888	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcccacttcctggccacCgcaggcccctcgcccatggc	4	5	10	22	3	0	0	0	0	0	0	2	0	1	0	8	4	0	1	8	4	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:97217888C>T	uc002swe.2	+	7	1723	c.1623C>T	c.(1621-1623)ACC>ACT	p.T541T	ARID5A_uc010yuq.1_Silent_p.T489T|ARID5A_uc002swf.2_Silent_p.T377T|ARID5A_uc002swg.2_Silent_p.T489T	NM_212481	NP_997646	Q03989	ARI5A_HUMAN	AT rich interactive domain 5A	541					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding				0						TCCTGGCCACCGCAGGCCCCT	0.697													54	181					0	0	0.01441	0	0		T	97217888	T	T	97217888	2	4	37	1	0	0	0	0	0	0	0	1	921	639	23	1		1	ARID5A	2	97217888	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	254457	97217888	145981485	134	32379											
FAHD2B	151313	broad.mit.edu	37	chr2	97751598	97751598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgggccatggcatctgtggCctatgggggcaggggatttg	5	10	19	7	0	1	0	0	0	1	0	1	1	1	1	2	7	0	2	2	7	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:97751598C>T	uc002sxm.2	-	5	674	c.523G>A	c.(523-525)GCC>ACC	p.A175T		NM_199336	NP_955368	Q6P2I3	FAH2B_HUMAN	fumarylacetoacetate hydrolase domain containing	175							hydrolase activity|metal ion binding				0						GCATCTGTGGCCTATGGGGGC	0.567													12	102					0	0	0.010729	0	0		T	97751598	T	T	97751598	3	4	37	1	0	0	0	0	1	0	0	0	5385	753	26	2	437	2	FAHD2B	2	97751598	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	533710	97751598	145447775	135	32380											
C2orf55	343990	broad.mit.edu	37	chr2	99448879	99448879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggctcctgggcagcccgtCgtcctcagagctcatgccgg	4	7	15	15	3	2	1	2	0	0	1	5	1	4	1	4	4	3	3	4	4	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:99448879C>T	uc002szf.1	-	5	766	c.472G>A	c.(472-474)GAC>AAC	p.D158N		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	158											0						GGCAGCCCGTCGTCCTCAGAG	0.587													30	63					0	0	0.007291	0	0		T	99448879	T	T	99448879	3	4	37	1	0	0	0	0	1	0	0	0	2179	884	31	1	2440	1	C2orf55	2	99448879	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1697281	99448879	143750494	136	32381											
LONRF2	164832	broad.mit.edu	37	chr2	100916256	100916256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaactgtctctttaagccaGcgctgggtgctgttggaagg	8	11	14	8	1	1	0	0	0	1	0	2	2	1	1	1	3	4	3	1	3	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:100916256G>A	uc002tal.3	-	5	1830	c.1190C>T	c.(1189-1191)GCT>GTT	p.A397V	LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	397					proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						CTTTAAGCCAGCGCTGGGTGC	0.448													13	108					0	0	0.00245	0	0		A	100916256	A	A	100916256	3	1	37	1	0	0	0	0	1	0	0	0	8913	971	34	2	1106	2	LONRF2	2	100916256	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1467377	100916256	142283117	137	32382											
FBLN7	129804	broad.mit.edu	37	chr2	112940466	112940466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttaccgttgcacctgccccGgtggataccgaactctggct	6	10	10	15	3	1	0	0	0	1	0	1	2	1	1	5	3	5	3	5	3	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:112940466G>A	uc002tho.1	+	6	1040	c.769G>A	c.(769-771)GGT>AGT	p.G257S	FBLN7_uc002thn.2_Missense_Mutation_p.G257S|FBLN7_uc010fki.1_Missense_Mutation_p.G211S|FBLN7_uc010fkj.1_Intron	NM_153214	NP_694946	Q53RD9	FBLN7_HUMAN	fibulin 7 isoform 1	257	EGF-like 2; calcium-binding (Potential).				cell adhesion	proteinaceous extracellular matrix	calcium ion binding|heparin binding			ovary(1)|central_nervous_system(1)	2						CACCTGCCCCGGTGGATACCG	0.647													33	70					0	0	0.013726	0	0		A	112940466	A	A	112940466	3	1	37	1	0	0	0	0	1	0	0	0	5715	1116	39	1	791	1	FBLN7	2	112940466	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	12024210	112940466	130258907	138	32383											
CCDC93	54520	broad.mit.edu	37	chr2	118766148	118766148	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggtgataagcctttaatTcttgccctgaaatacccagc	12	11	8	10	0	1	2	0	2	1	0	1	2	1	2	3	1	4	0	3	1	5	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:118766148T>C	uc002tlj.2	-	2	255	c.129A>G	c.(127-129)AGA>AGG	p.R43R	CCDC93_uc010fld.1_Silent_p.R43R	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	43										large_intestine(1)|ovary(1)	2						AGCCTTTAATTCTTGCCCTGA	0.378													7	120					0	0	0.001984	0	0		C	118766148	C	C	118766148	2	2	37	1	0	0	0	0	0	0	0	1	2875	1780	62	3		3	CCDC93	2	118766148	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	5825682	118766148	124433225	139	32384											
NCKAP5	344148	broad.mit.edu	37	chr2	133540357	133540357	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcccggaggaggggtgccCcgagggcctcccaacactgg	6	5	15	15	2	0	0	0	0	0	0	2	3	2	2	5	6	2	0	5	6	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:133540357C>A	uc002ttp.2	-	14	4401	c.4027G>T	c.(4027-4029)GGG>TGG	p.G1343W	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1343							protein binding				0						GAGGGGTGCCCCGAGGGCCTC	0.602													8	31					0.000442599	0.000465316	0.006214	1	0		A	133540357	A	A	133540357	3	1	37	1	0	0	0	0	1	0	0	0	10242	623	22	5	1730	5	NCKAP5	2	133540357	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	14774209	133540357	109659016	140	32385											
NCKAP5	344148	broad.mit.edu	37	chr2	133887625	133887625	+	Frame_Shift_Del	DEL	T	-	-																															gggtcacctcctgcaaccgcTtctcgctttgaagacgtaag																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:133887625delT	uc002ttp.2	-	6	640	c.266delA	c.(265-267)AAGfs	p.K89fs	NCKAP5_uc002ttq.2_Frame_Shift_Del_p.K89fs|NCKAP5_uc002ttt.1_Frame_Shift_Del_p.K89fs|NCKAP5_uc002tts.1_Frame_Shift_Del_p.K64fs	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	89	Potential.						protein binding				0						CTGCAACCGCTTCTCGCTTTG	0.458													8	16	---	---	---	---						.	-	133887625	-	-	133887625	7	5	37	1	0	1	0	1	0	0	0	0	10242	1609	56	0	5523	0	NCKAP5	2	133887625	Frame_Shift_Del	DEL	T	TCGA-BR-6566-01A-11D-1800-08	347268	133887625	109311748	141	32386											
YSK4	80122	broad.mit.edu	37	chr2	135744541	135744541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatttagtcttggctctgtcGgttgaacagagagaggaaca	12	11	12	6	1	2	3	0	1	2	2	3	5	2	4	0	3	2	2	0	3	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:135744541G>A	uc002tue.1	-	7	1932	c.1901C>T	c.(1900-1902)CCG>CTG	p.P634L	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Missense_Mutation_p.P521L|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Missense_Mutation_p.P362L|YSK4_uc002tui.3_Missense_Mutation_p.P651L	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	634							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TGGCTCTGTCGGTTGAACAGA	0.383													48	211					0	0	0.013114	0	0		A	135744541	A	A	135744541	3	1	37	1	0	0	0	0	1	0	0	0	17521	1116	39	1	2101	1	YSK4	2	135744541	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1856916	135744541	107454832	142	32387											
ZRANB3	84083	broad.mit.edu	37	chr2	136029371	136029371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatgcttaggatagccacGcgagtgtcaggatccttttg	9	12	12	8	2	1	1	1	1	0	0	2	4	2	3	2	2	2	1	2	2	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:136029371G>A	uc002tum.2	-	10	1290	c.1173C>T	c.(1171-1173)CGC>CGT	p.R391R	ZRANB3_uc002tuk.2_5'UTR|ZRANB3_uc002tul.2_Silent_p.R391R|ZRANB3_uc002tun.1_Silent_p.R331R	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	391	Helicase C-terminal.					intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		GGATAGCCACGCGAGTGTCAG	0.378													14	52					0	0	0.00245	0	0		A	136029371	A	A	136029371	2	1	37	1	0	0	0	0	0	0	0	1	18249	1074	38	1		1	ZRANB3	2	136029371	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	284830	136029371	107170002	143	32388											
LRP1B	53353	broad.mit.edu	37	chr2	141202148	141202148	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccacagttgagttcatcAgaattgtctccacaatcatt	12	13	5	11	0	4	2	3	1	1	1	5	2	4	2	2	0	1	2	2	0	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:141202148A>G	uc002tvj.1	-	64	11130	c.10158T>C	c.(10156-10158)TCT>TCC	p.S3386S		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3386	Extracellular (Potential).|LDL-receptor class A 22.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TGAGTTCATCAGAATTGTCTC	0.383										TSP Lung(27;0.18)			30	47					0	0	0.008361	0	0		G	141202148	G	G	141202148	2	3	37	1	0	0	0	0	0	0	0	1	8973	175	7	3		3	LRP1B	2	141202148	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	5172777	141202148	101997225	144	32389											
LRP1B	53353	broad.mit.edu	37	chr2	141625740	141625740	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggccaagccccagttttcAtgtctttatagatggttttt	8	17	8	8	0	2	1	1	0	1	1	2	1	2	1	3	2	1	2	3	2	4	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:141625740A>G	uc002tvj.1	-	26	5234	c.4262T>C	c.(4261-4263)ATG>ACG	p.M1421T	LRP1B_uc010fnl.1_Missense_Mutation_p.M603T	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1421	Extracellular (Potential).|LDL-receptor class B 11.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CCCAGTTTTCATGTCTTTATA	0.403										TSP Lung(27;0.18)			25	87					0	0	0.005443	0	0		G	141625740	G	G	141625740	3	3	37	1	0	0	0	0	1	0	0	0	8973	217	8	3	9801	3	LRP1B	2	141625740	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	423592	141625740	101573633	145	32390											
ZEB2	9839	broad.mit.edu	37	chr2	145153986	145153986	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtcactcatacctgtgtgTtcgtatttatgtcgcagaag	10	14	9	8	2	2	1	2	0	0	1	4	1	2	1	1	0	1	3	1	0	5	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:145153986T>C	uc002tvu.2	-	9	3540	c.3060A>G	c.(3058-3060)GAA>GAG	p.E1020E	ZEB2_uc002tvv.2_Silent_p.E1014E|ZEB2_uc010zbm.1_Silent_p.E991E|ZEB2_uc010fnp.2_Intron	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	1020	C2H2-type 5.					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TACCTGTGTGTTCGTATTTAT	0.408													62	136					0	0	0.01441	0	0		C	145153986	C	C	145153986	2	2	37	1	0	0	0	0	0	0	0	1	17649	1722	60	3		3	ZEB2	2	145153986	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	3528246	145153986	98045387	146	32391											
NR4A2	4929	broad.mit.edu	37	chr2	157184520	157184520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccttttaaactgtctgtgCgaaccactgcaaaggaagag	12	9	11	9	1	1	1	0	0	1	1	1	3	1	2	2	2	4	1	2	2	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:157184520C>T	uc002tyz.3	-	5	1423	c.1001G>A	c.(1000-1002)CGC>CAC	p.R334H	NR4A2_uc002tyx.3_Missense_Mutation_p.R271H|NR4A2_uc010zcf.1_Missense_Mutation_p.R334H|NR4A2_uc010zcg.1_5'UTR	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	334	Nuclear receptor.				cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						ACTGTCTGTGCGAACCACTGC	0.657													5	11					0	0	0.000602	0	0		T	157184520	T	T	157184520	3	4	37	1	0	0	0	0	1	0	0	0	10652	768	27	1	811	1	NR4A2	2	157184520	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	12030534	157184520	86014853	147	32392											
BAZ2B	29994	broad.mit.edu	37	chr2	160289669	160289669	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagcttcttgaatgacaCtttgaataactccatttggt	11	14	9	7	0	1	3	0	3	1	0	2	5	2	4	1	2	2	1	1	2	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:160289669C>A	uc002uao.2	-	9	1851	c.1499G>T	c.(1498-1500)AGT>ATT	p.S500I	BAZ2B_uc002uap.2_Missense_Mutation_p.S498I|BAZ2B_uc002uas.1_Missense_Mutation_p.S437I|BAZ2B_uc002uaq.1_Missense_Mutation_p.S428I|BAZ2B_uc002uar.1_Missense_Mutation_p.S73I	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	500					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TTGAATGACACTTTGAATAAC	0.383													18	202					1.45105e-14	1.65892e-14	0.006122	1	0		A	160289669	A	A	160289669	3	1	37	1	0	0	0	0	1	0	0	0	1333	565	20	5	5123	5	BAZ2B	2	160289669	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3105149	160289669	82909704	148	32393											
FIGN	55137	broad.mit.edu	37	chr2	164467050	164467050	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagctgcctgtgctcgtccCcatgctcactcattactggc	5	11	10	15	1	2	0	2	0	0	0	4	1	3	1	3	2	5	3	3	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:164467050C>A	uc002uck.1	-	3	1603	c.1292G>T	c.(1291-1293)GGG>GTG	p.G431V		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	431						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						GTGCTCGTCCCCATGCTCACT	0.517													40	101					2.40579e-17	2.77106e-17	0.00623	1	0		A	164467050	A	A	164467050	3	1	37	1	0	0	0	0	1	0	0	0	5905	623	22	5	991	5	FIGN	2	164467050	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4177381	164467050	78732323	149	32394											
B3GALT1	8708	broad.mit.edu	37	chr2	168726164	168726164	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagaaggtattttactggCtatgtcattaatggaggacc	12	12	11	6	1	1	1	1	0	0	1	1	4	1	3	1	4	1	2	1	4	6	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:168726164C>T	uc002udz.1	+	2	966	c.615C>T	c.(613-615)GGC>GGT	p.G205G		NM_020981	NP_066191	Q9Y5Z6	B3GT1_HUMAN	UDP-Gal:betaGlcNAc beta	205	Lumenal (Potential).				lipid glycosylation|protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4						ATTTTACTGGCTATGTCATTA	0.428													31	50					0	0	0.010818	0	0		T	168726164	T	T	168726164	2	4	37	1	0	0	0	0	0	0	0	1	1248	784	28	2		2	B3GALT1	2	168726164	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4259114	168726164	74473209	150	32395											
LRP2	4036	broad.mit.edu	37	chr2	170104000	170104000	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgaataatggcacccagTctccagtcagtaaaaaataa	17	8	6	10	1	2	0	1	0	1	0	4	1	2	0	2	1	0	2	2	1	6	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:170104000T>A	uc002ues.2	-	20	3009	c.2796A>T	c.(2794-2796)AGA>AGT	p.R932S	LRP2_uc010zdf.1_Missense_Mutation_p.R795S	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	932	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TGGCACCCAGTCTCCAGTCAG	0.363													32	64					0	0	0.010818	0	0		A	170104000	A	A	170104000	3	1	37	1	0	0	0	0	1	0	0	0	8974	1664	58	5	11411	5	LRP2	2	170104000	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1377836	170104000	73095373	151	32396											
GPR155	151556	broad.mit.edu	37	chr2	175346317	175346317	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactatcaggactggcaaccAataaggttaatacacataca	17	8	7	9	0	1	0	1	0	0	0	1	2	1	1	1	3	3	2	1	3	7	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:175346317A>G	uc002uit.2	-	3	759	c.368T>C	c.(367-369)TTG>TCG	p.L123S	GPR155_uc002uiu.2_Missense_Mutation_p.L123S|GPR155_uc002uiv.2_Missense_Mutation_p.L123S|GPR155_uc010fqs.2_Missense_Mutation_p.L123S	NM_001033045	NP_001028217	Q7Z3F1	GP155_HUMAN	G protein-coupled receptor 155 isoform 9	123	Helical; (Potential).				intracellular signal transduction|transmembrane transport	integral to membrane				ovary(1)	1						ACTGGCAACCAATAAGGTTAA	0.353													8	273					0	0	0.006214	0	0		G	175346317	G	G	175346317	3	3	37	1	0	0	0	0	1	0	0	0	6675	131	5	3	2304	3	GPR155	2	175346317	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	5242317	175346317	67853056	152	32397											
OSBPL6	114880	broad.mit.edu	37	chr2	179247919	179247919	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagctaaacgagccgctcaAcaccctgcagcacctctgtg	10	6	10	15	2	2	0	1	0	1	0	2	2	2	1	3	1	6	4	3	1	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:179247919A>G	uc002ulx.2	+	17	2168	c.1790A>G	c.(1789-1791)AAC>AGC	p.N597S	OSBPL6_uc002uly.2_Missense_Mutation_p.N622S|OSBPL6_uc010zfe.1_Missense_Mutation_p.N566S|OSBPL6_uc002ulz.2_Missense_Mutation_p.N561S|OSBPL6_uc002uma.2_Missense_Mutation_p.N601S	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	597					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			GAGCCGCTCAACACCCTGCAG	0.458													6	55					0	0	0.001984	0	0		G	179247919	G	G	179247919	3	3	37	1	0	0	0	0	1	0	0	0	11300	43	2	3	1970	3	OSBPL6	2	179247919	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3901602	179247919	63951454	153	32398											
TTN	7273	broad.mit.edu	37	chr2	179410360	179410360	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcaggttttgtccactgaAtgatgatatgctctttgcca	9	16	8	8	0	2	3	1	3	1	0	3	3	3	3	2	1	2	2	2	1	2	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:179410360A>G	uc010zfg.1	-	293	87997	c.87773T>C	c.(87772-87774)ATT>ACT	p.I29258T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I22953T|TTN_uc010zfi.1_Missense_Mutation_p.I22886T|TTN_uc010zfj.1_Missense_Mutation_p.I22761T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30185							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGTCCACTGAATGATGATATG	0.428													72	274					0	0	0.01441	0	0		G	179410360	G	G	179410360	3	3	37	1	0	0	0	0	1	0	0	0	16761	101	4	3	12578	3	TTN	2	179410360	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	162441	179410360	63789013	154	32399											
TTN	7273	broad.mit.edu	37	chr2	179413378	179413378	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacagtaagggtatatttcCctgcatcatttctgttgcag	9	14	8	10	0	2	0	1	0	1	0	3	0	3	0	2	1	2	5	2	1	3	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:179413378C>A	uc010zfg.1	-	288	85495	c.85271G>T	c.(85270-85272)GGG>GTG	p.G28424V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G22119V|TTN_uc010zfi.1_Missense_Mutation_p.G22052V|TTN_uc010zfj.1_Missense_Mutation_p.G21927V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29351							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGTATATTTCCCTGCATCATT	0.468													39	152					4.32679e-17	4.96974e-17	0.006999	1	0		A	179413378	A	A	179413378	3	1	37	1	0	0	0	0	1	0	0	0	16761	623	22	5	15100	5	TTN	2	179413378	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3018	179413378	63785995	155	32400											
TTN	7273	broad.mit.edu	37	chr2	179427507	179427507	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtggtggttcccaggacaaCgtcactgagtctttcttcac	8	12	10	11	1	4	1	2	1	2	0	5	2	5	2	1	3	1	1	1	3	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:179427507C>T	uc010zfg.1	-	275	75872	c.75648G>A	c.(75646-75648)ACG>ACA	p.T25216T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.T18911T|TTN_uc010zfi.1_Silent_p.T18844T|TTN_uc010zfj.1_Silent_p.T18719T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26143							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCCAGGACAACGTCACTGAGT	0.413													5	47					0	0	0.000602	0	0		T	179427507	T	T	179427507	2	4	37	1	0	0	0	0	0	0	0	1	16761	523	19	1		1	TTN	2	179427507	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	14129	179427507	63771866	156	32401											
TTN	7273	broad.mit.edu	37	chr2	179430401	179430401	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttcagttcctttgggctGcatttcaacaacgtacccca	8	15	6	12	1	2	0	2	0	0	0	3	0	3	0	3	1	4	4	3	1	3	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:179430401G>A	uc010zfg.1	-	275	72978	c.72754C>T	c.(72754-72756)CAG>TAG	p.Q24252*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.Q17947*|TTN_uc010zfi.1_Nonsense_Mutation_p.Q17880*|TTN_uc010zfj.1_Nonsense_Mutation_p.Q17755*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25179							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCTTTGGGCTGCATTTCAACA	0.463													6	243					0	0	0.001168	0	0		A	179430401	A	A	179430401	4	1	37	1	0	0	0	0	0	1	0	0	16761	1328	46	2	27669	2	TTN	2	179430401	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2894	179430401	63768972	157	32402											
TTN	7273	broad.mit.edu	37	chr2	179544699	179544699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatgtactcttcttcttcttCtacaagatattcttctacat	10	19	2	10	0	7	1	0	0	7	1	7	1	7	1	0	0	3	1	0	0	6	10			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:179544699C>T	uc010zfg.1	-	137	29994	c.29770G>A	c.(29770-29772)GAA>AAA	p.E9924K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E6585K|TTN_uc010fre.1_Intron|TTN_uc002una.1_5'Flank|TTN_uc010frf.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10851							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTTCTTCTTCTACAAGATAT	0.403													18	74					0	0	0.00499	0	0		T	179544699	T	T	179544699	3	4	37	1	0	0	0	0	1	0	0	0	16761	922	32	4	70919	4	TTN	2	179544699	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	114298	179544699	63654674	158	32403											
CWC22	57703	broad.mit.edu	37	chr2	180830644	180830644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttcctcttcttcttcctCgtcctcttcactactcccag	3	17	2	19	1	6	0	1	0	5	0	11	0	10	0	4	0	1	0	4	0	1	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:180830644C>T	uc010frh.1	-	12	1576	c.1276G>A	c.(1276-1278)GAG>AAG	p.E426K	CWC22_uc002unp.2_Missense_Mutation_p.E426K	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	426	Poly-Glu.					catalytic step 2 spliceosome	protein binding|RNA binding				0						tcttcttcctcgtcctcttcA	0.229													7	54					0	0	0.001984	0	0		T	180830644	T	T	180830644	3	4	37	1	0	0	0	0	1	0	0	0	4071	893	31	1	1486	1	CWC22	2	180830644	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1285945	180830644	62368729	159	32404											
PPP1R1C	151242	broad.mit.edu	37	chr2	182928520	182928520	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaccacccaccataaaaggTactgttcaggtactgtttcg	12	10	7	12	1	1	0	1	0	0	0	2	0	1	0	3	2	2	4	3	2	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:182928520T>C	uc002uoo.2	+	4	528	c.241_splice	c.e4+2	p.G81_splice	PPP1R1C_uc002uon.2_Splice_Site|PPP1R1C_uc002uop.1_Splice_Site_p.G81_splice|PPP1R1C_uc010frm.1_Splice_Site_p.G88_splice|PPP1R1C_uc010frn.1_Splice_Site	NM_001080545	NP_001074014	Q8WVI7	PPR1C_HUMAN	protein phosphatase 1, regulatory (inhibitor)						signal transduction	cytoplasm	protein phosphatase inhibitor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0628)			CCATAAAAGGTACTGTTCAGG	0.433													49	98					0	0	0.01441	0	0		C	182928520	C	C	182928520	5	2	37	1	0	0	0	0	0	0	1	0	12391	1652	57	3	257	3	PPP1R1C	2	182928520	Splice_Site	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2097876	182928520	60270853	160	32405											
PDE1A	5136	broad.mit.edu	37	chr2	183088619	183088619	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgaaagttgtttgttgTccctgtatgctcataatcat	10	17	8	6	0	2	1	2	1	0	0	3	1	3	1	1	0	1	5	1	0	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:183088619T>C	uc002uos.2	-	8	880	c.796A>G	c.(796-798)ACA>GCA	p.T266A	PDE1A_uc010zfp.1_Missense_Mutation_p.T162A|PDE1A_uc002uoq.1_Missense_Mutation_p.T266A|PDE1A_uc010zfq.1_Missense_Mutation_p.T266A|PDE1A_uc002uor.2_Missense_Mutation_p.T250A|PDE1A_uc002uou.2_Missense_Mutation_p.T232A	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	266	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			TTGTTTGTTGTCCCTGTATGC	0.328													3	38					0	0	0.009096	0	0		C	183088619	C	C	183088619	3	2	37	1	0	0	0	0	1	0	0	0	11652	1667	58	3	921	3	PDE1A	2	183088619	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	160099	183088619	60110754	161	32406											
MFSD6	54842	broad.mit.edu	37	chr2	191301681	191301681	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcctcttctgtcacaatcgTagacacggtcacactccagt	9	11	7	14	2	4	1	2	0	2	1	6	1	5	1	2	1	1	1	2	1	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:191301681T>C	uc002urz.2	+	3	1250	c.926T>C	c.(925-927)GTA>GCA	p.V309A		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	309					transmembrane transport	integral to membrane				ovary(2)	2						GTCACAATCGTAGACACGGTC	0.478													18	204					0	0	0.006122	0	0		C	191301681	C	C	191301681	3	2	37	1	0	0	0	0	1	0	0	0	9553	1638	57	3	928	3	MFSD6	2	191301681	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	8213062	191301681	51897692	162	32407											
PGAP1	80055	broad.mit.edu	37	chr2	197729777	197729777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	attagatacgacataagcagGaagagctccaccatgaaatc	17	7	8	9	1	0	3	0	1	0	2	2	5	1	4	2	1	3	2	2	1	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:197729777G>A	uc002utw.2	-	20	1909	c.1795C>T	c.(1795-1797)CCT>TCT	p.P599S	PGAP1_uc002utx.2_Missense_Mutation_p.P425S|PGAP1_uc002uty.1_Intron	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	599	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						ACATAAGCAGGAAGAGCTCCA	0.318													8	32					0	0	0.00308	0	0		A	197729777	A	A	197729777	3	1	37	1	0	0	0	0	1	0	0	0	11796	1174	41	4	1005	4	PGAP1	2	197729777	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6428096	197729777	45469596	163	32408											
AOX1	316	broad.mit.edu	37	chr2	201478593	201478593	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaagtctcccttttgggCtcggcgccaggtgggaaagt	8	10	14	9	2	1	1	0	1	1	0	3	2	1	2	2	4	0	1	2	4	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:201478593C>T	uc002uvx.2	+	15	1616	c.1515C>T	c.(1513-1515)GGC>GGT	p.G505G	AOX1_uc010zhf.1_Silent_p.G61G|AOX1_uc010fsu.2_5'UTR	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	505					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	CCCTTTTGGGCTCGGCGCCAG	0.478													5	67					0	0	0.001168	0	0		T	201478593	T	T	201478593	2	4	37	1	0	0	0	0	0	0	0	1	729	784	28	2		2	AOX1	2	201478593	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3748816	201478593	41720780	164	32409											
MPP4	58538	broad.mit.edu	37	chr2	202546262	202546262	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcagagactggaaccaccTtgaacatgattgtgcctcga	11	9	11	10	1	1	3	1	2	0	1	2	6	1	4	3	2	3	0	3	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:202546262T>G	uc002uyk.3	-	9	897	c.689A>C	c.(688-690)AAG>ACG	p.K230T	MPP4_uc010ftj.2_Missense_Mutation_p.K230T|MPP4_uc010zhq.1_Missense_Mutation_p.K230T|MPP4_uc010zhr.1_Missense_Mutation_p.K230T|MPP4_uc010zhs.1_Missense_Mutation_p.K186T|MPP4_uc002uyj.3_Missense_Mutation_p.K186T|MPP4_uc010zht.1_Missense_Mutation_p.K203T|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.K230T|MPP4_uc002uym.1_Missense_Mutation_p.K199T|MPP4_uc002uyn.2_Missense_Mutation_p.K186T	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	230	PDZ.					cytoplasm	protein binding				0						TGGAACCACCTTGAACATGAT	0.483													11	33					0	0	0.010729	0	0		G	202546262	G	G	202546262	3	3	37	1	0	0	0	0	1	0	0	0	9754	1609	56	5	1280	5	MPP4	2	202546262	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1067669	202546262	40653111	165	32410											
FZD7	8324	broad.mit.edu	37	chr2	202900082	202900082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccccgtgcgaaccgggcCgtgccaacggcctgatgtac	6	5	14	16	6	0	1	0	1	0	0	0	2	0	1	6	2	5	1	6	2	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:202900082C>T	uc002uyw.1	+	1	773	c.712C>T	c.(712-714)CGT>TGT	p.R238C		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	238	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(2)|ovary(1)|breast(1)	4						CGAACCGGGCCGTGCCAACGG	0.672											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	71					0	0	0.013537	0	0		T	202900082	T	T	202900082	3	4	37	1	0	0	0	0	1	0	0	0	6149	652	23	1	714	1	FZD7	2	202900082	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	353820	202900082	40299291	166	32411											
NDUFS1	4719	broad.mit.edu	37	chr2	206991509	206991509	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaacaagattaggagagacTtcttccaatctgttccttac	12	12	7	10	1	2	2	0	0	2	2	4	5	4	3	2	1	2	1	2	1	5	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:206991509T>G	uc002vbe.2	-	17	2071	c.1944A>C	c.(1942-1944)GAA>GAC	p.E648D	NDUFS1_uc010ziq.1_Missense_Mutation_p.E662D|NDUFS1_uc010zir.1_Missense_Mutation_p.E612D|NDUFS1_uc010zis.1_Missense_Mutation_p.E591D|NDUFS1_uc010zit.1_Missense_Mutation_p.E537D|NDUFS1_uc010ziu.1_Missense_Mutation_p.E532D	NM_005006	NP_004997	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1,	648					apoptosis|ATP metabolic process|mitochondrial electron transport, NADH to ubiquinone|reactive oxygen species metabolic process|regulation of mitochondrial membrane potential|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	TAGGAGAGACTTCTTCCAATC	0.398													53	93					0	0	0.01441	0	0		G	206991509	G	G	206991509	3	3	37	1	0	0	0	0	1	0	0	0	10310	1606	56	5	251	5	NDUFS1	2	206991509	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	4091427	206991509	36207864	167	32412											
CCNYL1	151195	broad.mit.edu	37	chr2	208618400	208618400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taacttcattggtattcagcGctctaaagccatcctctctt	9	15	5	12	1	4	0	2	0	2	0	6	0	5	0	2	1	3	2	2	1	4	7	rs34427171		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:208618400G>A	uc002vci.2	+	8	1262	c.905G>A	c.(904-906)CGC>CAC	p.R302H	CCNYL1_uc002vch.2_Missense_Mutation_p.R283H	NM_001142300	NP_001135772	Q8N7R7	CCYL1_HUMAN	cyclin Y-like 1 isoform 1	353					regulation of cyclin-dependent protein kinase activity		protein kinase binding				0				LUSC - Lung squamous cell carcinoma(261;0.0731)|Epithelial(149;0.139)|Lung(261;0.14)		GGTATTCAGCGCTCTAAAGCC	0.418													31	66					0	0	0.007291	0	0		A	208618400	A	A	208618400	3	1	37	1	0	0	0	0	1	0	0	0	2940	1087	38	1	1096	1	CCNYL1	2	208618400	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1626891	208618400	34580973	168	32413											
ATIC	471	broad.mit.edu	37	chr2	216214270	216214270	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcccccagagtggtgtggcGtacattgcggctccctccgg	4	10	13	14	3	0	1	0	0	0	1	3	1	3	1	4	4	2	2	4	4	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:216214270G>A	uc002vex.3	+	16	1845	c.1671G>A	c.(1669-1671)GCG>GCA	p.A557A	ATIC_uc010zjo.1_Silent_p.A498A|ATIC_uc002vey.3_Silent_p.A556A	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	557					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity	p.A557A(1)	ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	GTGGTGTGGCGTACATTGCGG	0.468			T	ALK	ALCL								4	96					0	0	0.009096	0	0		A	216214270	A	A	216214270	2	1	37	1	0	0	0	0	0	0	0	1	1106	1132	40	1		1	ATIC	2	216214270	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	7595870	216214270	26985103	169	32414											
CYP27A1	1593	broad.mit.edu	37	chr2	219674400	219674400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcttggagcaagtgatgcGgcaagagggcaagtacccag	11	6	15	9	1	1	2	0	1	1	1	1	3	1	3	1	3	3	5	1	3	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:219674400G>A	uc002viz.3	+	2	790	c.356G>A	c.(355-357)CGG>CAG	p.R119Q		NM_000784	NP_000775	Q02318	CP27A_HUMAN	cytochrome P450, family 27, subfamily A,	119					bile acid biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	cholestanetriol 26-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;9.48e-07)|all cancers(144;0.000171)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00981)	Cholecalciferol(DB00169)	CAAGTGATGCGGCAAGAGGGC	0.587													83	134					0	0	0.01441	0	0		A	219674400	A	A	219674400	3	1	37	1	0	0	0	0	1	0	0	0	4161	1116	39	1	362	1	CYP27A1	2	219674400	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3460130	219674400	23524973	170	32415											
IHH	3549	broad.mit.edu	37	chr2	219920330	219920330	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccgtgtgattgtcagccgTaaagagcaggtgagcgggtg	8	9	16	8	3	1	3	1	2	0	1	2	3	2	3	2	2	3	2	2	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:219920330T>C	uc002vjo.1	-	3	835	c.835A>G	c.(835-837)ACG>GCG	p.T279A		NM_002181	NP_002172	Q14623	IHH_HUMAN	Indian hedgehog homolog precursor	279					cell-cell signaling|intein-mediated protein splicing|proteolysis	extracellular space|plasma membrane	cholesterol binding|patched binding|peptidase activity			breast(1)	1		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000188)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TTGTCAGCCGTAAAGAGCAGG	0.662													4	47					0	0	0.009096	0	0		C	219920330	C	C	219920330	3	2	37	1	0	0	0	0	1	0	0	0	7623	1638	57	3	404	3	IHH	2	219920330	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	245930	219920330	23279043	171	32416											
WDFY1	57590	broad.mit.edu	37	chr2	224782711	224782711	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaccactgtctcttttcaGccatacccggatggttctgt	6	15	8	12	1	3	1	1	1	2	0	4	2	3	2	3	2	2	1	3	2	1	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:224782711G>A	uc002vnq.2	-	2	205	c.154C>T	c.(154-156)CTG>TTG	p.L52L		NM_020830	NP_065881	Q8IWB7	WDFY1_HUMAN	WD repeat and FYVE domain containing 1	52	WD 1.					cytosol|early endosome|nucleus	1-phosphatidylinositol binding|zinc ion binding			lung(1)	1		all_lung(227;0.00682)|Lung NSC(271;0.00859)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;5.34e-10)|all cancers(144;1.67e-07)|Lung(261;0.00807)|LUSC - Lung squamous cell carcinoma(224;0.00843)		TCTCTTTTCAGCCATACCCGG	0.353													12	52					0	0	0.00245	0	0		A	224782711	A	A	224782711	2	1	37	1	0	0	0	0	0	0	0	1	17294	962	34	2		2	WDFY1	2	224782711	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4862381	224782711	18416662	172	32417											
FAM124B	79843	broad.mit.edu	37	chr2	225265836	225265836	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcatggattgggtagcagaGgcactaactggccgatctct	9	10	13	9	1	1	1	0	0	1	1	2	3	1	2	1	4	3	4	1	4	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:225265836G>T	uc002vnx.2	-	1	876	c.650C>A	c.(649-651)CCT>CAT	p.P217H	FAM124B_uc002vnw.2_Missense_Mutation_p.P217H	NM_001122779	NP_001116251	Q9H5Z6	F124B_HUMAN	hypothetical protein LOC79843 isoform a	217							protein binding			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0126)|Lung NSC(271;0.0161)|all_hematologic(139;0.138)		Epithelial(121;4.4e-10)|all cancers(144;2.02e-07)|Lung(261;0.00766)|LUSC - Lung squamous cell carcinoma(224;0.00825)		GGGTAGCAGAGGCACTAACTG	0.532													6	67					8.12818e-05	8.61167e-05	0.001984	1	0		T	225265836	T	T	225265836	3	4	37	1	0	0	0	0	1	0	0	0	5437	1000	35	5	816	5	FAM124B	2	225265836	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	483125	225265836	17933537	173	32418											
TRIP12	9320	broad.mit.edu	37	chr2	230723553	230723553	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgacttagaagaccctggaAgagacagttttgttttagga	12	12	11	6	0	0	4	0	1	0	3	0	7	0	6	1	2	0	2	1	2	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:230723553A>G	uc002vpw.1	-	3	945	c.836T>C	c.(835-837)CTT>CCT	p.L279P	TRIP12_uc002vpx.1_Missense_Mutation_p.L321P|TRIP12_uc002vpy.1_Intron|TRIP12_uc010zlz.1_RNA|TRIP12_uc010fxh.1_Missense_Mutation_p.L279P	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	279					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		AGACCCTGGAAGAGACAGTTT	0.388													8	70					0	0	0.004482	0	0		G	230723553	G	G	230723553	3	3	37	1	0	0	0	0	1	0	0	0	16582	72	3	3	5298	3	TRIP12	2	230723553	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	5457717	230723553	12475820	174	32419											
SP140L	93349	broad.mit.edu	37	chr2	231266129	231266129	+	Frame_Shift_Del	DEL	T	-	-																															attgctgttctgagagctccTtttttgccaagattccatac																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:231266129delT	uc010fxm.1	+	17	1562	c.1471delT	c.(1471-1473)TTTfs	p.F491fs	SP140L_uc010fxo.1_3'UTR	NM_138402	NP_612411	Q9H930	LY10L_HUMAN	SP140 nuclear body protein-like	Error:Variant_position_missing_in_Q9H930_after_alignment						nucleus	DNA binding|metal ion binding			central_nervous_system(1)	1						TGAGAGCTCCTTTTTTGCCAA	0.433													12	26	---	---	---	---						.	-	231266129	-	-	231266129	7	5	37	1	0	1	0	1	0	0	0	0	14988	1609	56	0	1537	0	SP140L	2	231266129	Frame_Shift_Del	DEL	T	TCGA-BR-6566-01A-11D-1800-08	542576	231266129	11933244	175	32420											
ALPI	248	broad.mit.edu	37	chr2	233322527	233322527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcctggtatgtgtggaaccGcactgagctcatgcaggcgt	7	10	14	10	2	1	1	1	1	0	0	1	2	1	2	2	3	4	4	2	3	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:233322527G>A	uc002vst.3	+	7	883	c.806G>A	c.(805-807)CGC>CAC	p.R269H	ALPI_uc002vsu.3_Missense_Mutation_p.R180H	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	269					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GTGTGGAACCGCACTGAGCTC	0.627													17	143					0	0	0.007413	0	0		A	233322527	A	A	233322527	3	1	37	1	0	0	0	0	1	0	0	0	543	1087	38	1	832	1	ALPI	2	233322527	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2056398	233322527	9876846	176	32421											
HJURP	55355	broad.mit.edu	37	chr2	234749594	234749594	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcgaacttccatacttgctTtatctgtagacactccaata	12	14	4	11	1	1	1	0	0	1	1	4	2	3	1	2	0	3	2	2	0	6	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:234749594T>C	uc002vvg.2	-	8	1898	c.1832A>G	c.(1831-1833)AAA>AGA	p.K611R	HJURP_uc010znd.1_Missense_Mutation_p.K550R|HJURP_uc010zne.1_Missense_Mutation_p.K519R	NM_018410	NP_060880	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	611					cell cycle|CenH3-containing nucleosome assembly at centromere|centromeric core chromatin assembly|chromosome segregation|regulation of DNA binding|regulation of protein complex assembly	condensed chromosome kinetochore|cytoplasm|nucleolus|nucleoplasm	DNA binding|histone binding			ovary(1)	1		Breast(86;0.00204)|all_lung(227;0.00433)|Renal(207;0.00685)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0719)|Lung SC(224;0.128)		Epithelial(121;2.01e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000186)|Lung(119;0.00521)|LUSC - Lung squamous cell carcinoma(224;0.00829)		CATACTTGCTTTATCTGTAGA	0.403													46	83					0	0	0.01441	0	0		C	234749594	C	C	234749594	3	2	37	1	0	0	0	0	1	0	0	0	7205	1841	64	3	422	3	HJURP	2	234749594	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1427067	234749594	8449779	177	32422											
GBX2	2637	broad.mit.edu	37	chr2	237076276	237076276	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctggtgctggggcgacgcGgagaagccgccggggagcgt	5	5	20	11	6	0	1	0	0	0	1	1	4	1	2	3	6	3	1	3	6	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:237076276G>A	uc002vvw.1	-	1	377	c.339C>T	c.(337-339)TCC>TCT	p.S113S	GBX2_uc010zng.1_Silent_p.S103S	NM_001485	NP_001476	P52951	GBX2_HUMAN	gastrulation brain homeo box 2	113				LPPAHPHHQIPSLPTGFCSSLAQGMALTSTLMATLPGGFSA SPQHQEAAAARKFAPQPLPGGGNFDKAEALQADAEDGKGFL AKEGSLLAFSAAETVQASLVGAVRGQGKDESKVEDDPKG -> CRPHTLTTRSPACPQASAPAWRRAWRSPLRSWPRSPAA SPRRPSTRRRQRPASSRRSRCPAAVTSTRRRRCRLTRRTAK ASWPKRARCSPSPRPRRCRLRSSGLSEGKGKTSQRWKTTRS (in Ref. 1; AAC03241).		nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Breast(86;0.00235)|Renal(207;0.00339)|all_hematologic(139;0.00357)|all_lung(227;0.0616)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|Lung NSC(271;0.179)		Epithelial(121;4.5e-25)|OV - Ovarian serous cystadenocarcinoma(60;5.16e-11)|BRCA - Breast invasive adenocarcinoma(100;3.4e-05)|Lung(119;0.00195)|LUSC - Lung squamous cell carcinoma(224;0.00471)		GGGGCGACGCGGAGAAGCCGC	0.726													18	35					0	0	0.008871	0	0		A	237076276	A	A	237076276	2	1	37	1	0	0	0	0	0	0	0	1	6296	1103	39	1		1	GBX2	2	237076276	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2326682	237076276	6123097	178	32423											
COPS8	10920	broad.mit.edu	37	chr2	238002750	238002750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatgcaacaaggagacgcGcctttgccctggtctctcaa	10	9	10	12	2	2	2	1	0	1	2	3	3	2	2	2	2	3	1	2	2	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:238002750G>A	uc002vwh.2	+	5	873	c.349G>A	c.(349-351)GCC>ACC	p.A117T	COPS8_uc010fys.1_RNA|COPS8_uc002vwg.2_Missense_Mutation_p.A68T|COPS8_uc002vwi.2_Missense_Mutation_p.A117T	NM_006710	NP_006701	Q99627	CSN8_HUMAN	COP9 signalosome subunit 8 isoform 1	117	PCI.				cullin deneddylation	cytoplasm|signalosome				ovary(1)	1		Breast(86;0.000162)|Renal(207;0.00339)|all_hematologic(139;0.0123)|Ovarian(221;0.0694)|Acute lymphoblastic leukemia(138;0.0775)|all_lung(227;0.169)|all_neural(83;0.211)		Epithelial(121;7.41e-23)|OV - Ovarian serous cystadenocarcinoma(60;5.42e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000175)|Lung(119;0.011)|LUSC - Lung squamous cell carcinoma(224;0.0258)		AAGGAGACGCGCCTTTGCCCT	0.478													16	158					0	0	0.00499	0	0		A	238002750	A	A	238002750	3	1	37	1	0	0	0	0	1	0	0	0	3743	1087	38	1	367	1	COPS8	2	238002750	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	926474	238002750	5196623	179	32424											
MLPH	79083	broad.mit.edu	37	chr2	238419298	238419298	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catctgaacgagacccactgCgcccgctgcctgcagcccta	8	6	9	18	3	1	2	0	1	1	1	1	3	1	2	4	0	5	2	4	0	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:238419298C>T	uc002vwt.2	+	3	419	c.192C>T	c.(190-192)TGC>TGT	p.C64C	MLPH_uc002vws.2_Silent_p.C64C|MLPH_uc010fyt.1_Silent_p.C64C|MLPH_uc002vwu.2_Silent_p.C64C|MLPH_uc002vwv.2_Silent_p.C64C|MLPH_uc002vww.2_Silent_p.C40C	NM_024101	NP_077006	Q9BV36	MELPH_HUMAN	melanophilin isoform 1	64	FYVE-type.|RabBD.						metal ion binding			ovary(1)	1		Breast(86;0.000381)|Renal(207;0.000966)|Ovarian(221;0.0695)|all_hematologic(139;0.095)|all_lung(227;0.17)|Melanoma(123;0.203)		Epithelial(121;1.17e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.02e-10)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.15e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000439)|Lung(119;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0316)		AGACCCACTGCGCCCGCTGCC	0.562													27	37					0	0	0.004656	0	0		T	238419298	T	T	238419298	2	4	37	1	0	0	0	0	0	0	0	1	9651	776	27	1		1	MLPH	2	238419298	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	416548	238419298	4780075	180	32425											
OR6B2	389090	broad.mit.edu	37	chr2	240969039	240969039	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagagatgagcttgttggAgctctgggaatcaatggctt	9	11	15	6	0	2	2	1	1	1	1	2	5	2	4	0	4	2	5	0	4	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:240969039A>G	uc002vyr.2	-	2	854	c.808T>C	c.(808-810)TCC>CCC	p.S270P	OR6B2_uc010zoc.1_Missense_Mutation_p.S270P	NM_001005853	NP_001005853	Q6IFH4	OR6B2_HUMAN	olfactory receptor, family 6, subfamily B,	270	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.4e-29)|all cancers(36;2.08e-27)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)		AGCTTGTTGGAGCTCTGGGAA	0.488													15	116					0	0	0.003163	0	0		G	240969039	G	G	240969039	3	3	37	1	0	0	0	0	1	0	0	0	11207	304	11	3	132	3	OR6B2	2	240969039	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2549741	240969039	2230334	181	32426											
SRGAP3	9901	broad.mit.edu	37	chr3	9027355	9027355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggcgggcggagctgggCgccagccaggcgggcggaca	5	1	24	11	5	0	0	0	0	0	0	0	2	0	2	2	9	2	1	2	9	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:9027355C>T	uc003brf.1	-	22	3824	c.3148G>A	c.(3148-3150)GCC>ACC	p.A1050T	SRGAP3_uc003brg.1_Missense_Mutation_p.A1026T	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	1050					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		CGGAGCTGGGCGCCAGCCAGG	0.751			T	RAF1	pilocytic astrocytoma								10	23					0	0	0.00499	0	0		T	9027355	T	T	9027355	3	4	37	1	0	0	0	0	1	0	0	0	15172	768	27	1	155	1	SRGAP3	3	9027355	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08		9027355	188995075	182	32427											
MTMR14	64419	broad.mit.edu	37	chr3	9714373	9714373	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatccttgtcttgtagtgtaAcctcctctgagaaggtggac	8	14	10	9	0	2	1	0	1	2	1	4	3	4	2	3	2	1	2	3	2	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:9714373A>G	uc003brz.2	+	7	806	c.682A>G	c.(682-684)ACC>GCC	p.T228A	MTMR14_uc003bsa.2_Missense_Mutation_p.T228A|MTMR14_uc003bsb.2_Missense_Mutation_p.T228A|MTMR14_uc011ath.1_RNA|MTMR14_uc010hcl.2_Intron|MTMR14_uc003bsc.2_RNA	NM_001077525	NP_001070993	Q8NCE2	MTMRE_HUMAN	jumpy isoform 2	228						perinuclear region of cytoplasm|ruffle	phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(99;0.227)					TTGTAGTGTAACCTCCTCTGA	0.488													27	72					0	0	0.00632	0	0		G	9714373	G	G	9714373	3	3	37	1	0	0	0	0	1	0	0	0	9960	43	2	3	708	3	MTMR14	3	9714373	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	687018	9714373	188308057	183	32428											
ZFYVE20	64145	broad.mit.edu	37	chr3	15116004	15116004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctgaagtccagggacCgagtccgtgtgtgcagggat	7	11	14	9	2	1	1	0	1	1	0	4	4	3	3	3	2	1	1	3	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:15116004C>T	uc003bzm.1	-	14	2254	c.1640G>A	c.(1639-1641)CGG>CAG	p.R547Q	ZFYVE20_uc010hek.1_Missense_Mutation_p.R547Q	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	547	Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						GTCCAGGGACCGAGTCCGTGT	0.582													8	93					0	0	0.00308	0	0		T	15116004	T	T	15116004	3	4	37	1	0	0	0	0	1	0	0	0	17691	652	23	1	718	1	ZFYVE20	3	15116004	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5401631	15116004	182906426	184	32429											
RBMS3	27303	broad.mit.edu	37	chr3	30029683	30029683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctacattcctcagtacaCgcctgtgcctccgacagctg	8	9	8	16	2	1	0	1	0	0	0	3	2	3	0	5	0	4	2	5	0	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:30029683C>T	uc003cel.2	+	13	1378	c.1148C>T	c.(1147-1149)ACG>ATG	p.T383M	RBMS3_uc003cek.2_Missense_Mutation_p.T367M|RBMS3_uc010hfq.2_Missense_Mutation_p.T380M|RBMS3_uc003cem.2_Missense_Mutation_p.T365M|RBMS3_uc010hfr.2_Missense_Mutation_p.T367M	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	383						cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				CCTCAGTACACGCCTGTGCCT	0.433													22	69					0	0	0.007291	0	0		T	30029683	T	T	30029683	3	4	37	1	0	0	0	0	1	0	0	0	13175	536	19	1	1241	1	RBMS3	3	30029683	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	14913679	30029683	167992747	185	32430											
EPM2AIP1	9852	broad.mit.edu	37	chr3	37033859	37033859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccaaccattctctgcaagCtaagccctgctgtctgcagg	8	10	9	14	0	2	0	0	0	2	0	4	0	3	0	3	1	6	4	3	1	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:37033859C>T	uc003cgk.2	-	1	937	c.710G>A	c.(709-711)AGC>AAC	p.S237N	MLH1_uc011aye.1_5'Flank|MLH1_uc003cgl.2_5'Flank|MLH1_uc011ayb.1_5'Flank|MLH1_uc010hge.2_5'Flank|MLH1_uc003cgn.3_5'Flank|MLH1_uc011ayc.1_5'Flank|MLH1_uc011ayd.1_5'Flank|MLH1_uc003cgo.2_5'Flank	NM_014805	NP_055620	Q7L775	EPMIP_HUMAN	EPM2A interacting protein 1	237						endoplasmic reticulum					0						TCTCTGCAAGCTAAGCCCTGC	0.498													12	166					0	0	0.010729	0	0		T	37033859	T	T	37033859	3	4	37	1	0	0	0	0	1	0	0	0	5192	797	28	2	1117	2	EPM2AIP1	3	37033859	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	7004176	37033859	160988571	186	32431											
SCN10A	6336	broad.mit.edu	37	chr3	38793834	38793834	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagggagggggccttgctggCcagcacccccacccagcagc	7	4	14	16	0	0	0	0	0	0	0	0	1	0	1	5	4	4	3	5	4	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:38793834C>A	uc003ciq.2	-	11	1631	c.1631G>T	c.(1630-1632)GGC>GTC	p.G544V		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	544					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GCCTTGCTGGCCAGCACCCCC	0.602													9	93					1.12685e-05	1.20846e-05	0.004482	1	0		A	38793834	A	A	38793834	3	1	37	1	0	0	0	0	1	0	0	0	13937	739	26	5	4307	5	SCN10A	3	38793834	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1759975	38793834	159228596	187	32432											
ZNF619	285267	broad.mit.edu	37	chr3	40529635	40529635	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccctcatctgaaaaggccaAcccttcacctgtccaaatag	12	9	5	15	0	3	1	2	1	1	0	5	1	5	1	5	1	1	0	5	1	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:40529635A>T	uc011azb.1	+	6	2032	c.1754A>T	c.(1753-1755)AAC>ATC	p.N585I	ZNF619_uc010hhz.2_Missense_Mutation_p.N536I|ZNF619_uc003ckj.2_Missense_Mutation_p.N529I|ZNF619_uc011azc.1_Missense_Mutation_p.N545I|ZNF619_uc011azd.1_Missense_Mutation_p.N501I|ZNF619_uc011aza.1_Missense_Mutation_p.N487I	NM_001145082	NP_001138554	E9PCD9	E9PCD9_HUMAN	zinc finger protein 619 isoform 1	585					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		GAAAAGGCCAACCCTTCACCT	0.522													26	131					0	0	0.004656	0	0		T	40529635	T	T	40529635	3	4	37	1	0	0	0	0	1	0	0	0	18068	43	2	5	1794	5	ZNF619	3	40529635	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1735801	40529635	157492795	188	32433											
CTNNB1	1499	broad.mit.edu	37	chr3	41265566	41265566	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccagcgtggacaatggctActcaaggtttgtgtcattaa	11	12	10	8	1	2	0	2	0	0	0	3	1	3	1	1	3	2	2	1	3	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:41265566A>G	uc010hia.1	+	3	163	c.7A>G	c.(7-9)ACT>GCT	p.T3A	CTNNB1_uc003ckp.2_Missense_Mutation_p.T3A|CTNNB1_uc003ckq.2_Missense_Mutation_p.T3A|CTNNB1_uc003ckr.2_Missense_Mutation_p.T3A|CTNNB1_uc011azf.1_5'UTR|CTNNB1_uc011azg.1_Missense_Mutation_p.T3A|uc010hib.1_Intron	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	3	Interaction with VCL (By similarity).				adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.T3_A126del(2)|p.A5_A80del(2)|p.T3S(2)|p.M1_V173del(1)|p.?(1)|p.M1_T42del(1)|p.M1_A87del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	GACAATGGCTACTCAAGGTTT	0.393		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				24	88					0	0	0.003954	0	0		G	41265566	G	G	41265566	3	3	37	1	0	0	0	0	1	0	0	0	4019	391	14	3	9	3	CTNNB1	3	41265566	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	735931	41265566	156756864	189	32434											
VIPR1	7433	broad.mit.edu	37	chr3	42568962	42568962	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccctcgccacccttctggtCgccacagctatcctgagcct	5	10	7	19	2	1	1	0	1	1	0	5	1	3	1	6	1	2	1	6	1	1	2	rs149397146	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:42568962C>T	uc003clf.2	+	5	601	c.477C>T	c.(475-477)GTC>GTT	p.V159V	VIPR1_uc011azl.1_Silent_p.V111V|VIPR1_uc011azm.1_Intron|VIPR1_uc011azn.1_Silent_p.V132V	NM_004624	NP_004615	P32241	VIPR1_HUMAN	vasoactive intestinal peptide receptor 1	159	Helical; Name=1; (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|muscle contraction|positive regulation of cell proliferation|synaptic transmission	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.241)		CCCTTCTGGTCGCCACAGCTA	0.612													15	52					0	0	0.003163	0	0		T	42568962	T	T	42568962	2	4	37	1	0	0	0	0	0	0	0	1	17195	871	31	1		1	VIPR1	3	42568962	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1303396	42568962	155453468	190	32435											
FYCO1	79443	broad.mit.edu	37	chr3	46009009	46009009	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcctggctgccctctTgcaccttggtatcgtctaac	4	14	7	16	1	2	0	0	0	2	0	5	0	4	0	4	2	3	3	4	2	2	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:46009009T>C	uc003cpb.3	-	8	2023	c.1817A>G	c.(1816-1818)CAA>CGA	p.Q606R	FYCO1_uc011bal.1_Missense_Mutation_p.Q606R	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	606	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GCTGCCCTCTTGCACCTTGGT	0.627													10	196					0	0	0.008291	0	0		C	46009009	C	C	46009009	3	2	37	1	0	0	0	0	1	0	0	0	6139	1812	63	3	2663	3	FYCO1	3	46009009	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	3440047	46009009	152013421	191	32436											
CCR2	729230	broad.mit.edu	37	chr3	46399125	46399125	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctccctgtcataaatttgAcgtgaagcaaattggggccc	10	11	10	10	1	1	2	1	2	0	0	2	2	2	2	2	2	2	2	2	2	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:46399125A>T	uc003cpn.3	+	2	592	c.107A>T	c.(106-108)GAC>GTC	p.D36V	CCR2_uc003cpm.3_Missense_Mutation_p.D36V	NM_001123041	NP_001116513	P41597	CCR2_HUMAN	chemokine (C-C motif) receptor 2 isoform A	36	Extracellular (Potential).				astrocyte cell migration|blood vessel remodeling|cellular defense response|chemokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response|interspecies interaction between organisms|JAK-STAT cascade|monocyte extravasation|negative regulation of adenylate cyclase activity|negative regulation of angiogenesis|negative regulation of eosinophil degranulation|negative regulation of type 2 immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of immune complex clearance by monocytes and macrophages|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-2 production|positive regulation of monocyte chemotaxis|positive regulation of T cell chemotaxis|positive regulation of T cell extravasation|positive regulation of T-helper 1 type immune response|positive regulation of tumor necrosis factor biosynthetic process|regulation of vascular endothelial growth factor production|T-helper 17 cell chemotaxis	cytosol|dendrite|integral to plasma membrane|perikaryon|perinuclear region of cytoplasm|soluble fraction	C-C chemokine receptor activity|CCR2 chemokine receptor binding|protein homodimerization activity			lung(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0174)|Kidney(197;0.0206)		CATAAATTTGACGTGAAGCAA	0.463													40	147					0	0	0.00623	0	0		T	46399125	T	T	46399125	3	4	37	1	0	0	0	0	1	0	0	0	2944	275	10	5	109	5	CCR2	3	46399125	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	390116	46399125	151623305	192	32437											
SETD2	29072	broad.mit.edu	37	chr3	47147551	47147551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcgtgcatactccttcactCgagctttaaactctttatga	9	16	5	11	2	2	1	1	1	1	0	5	2	3	1	1	0	4	2	1	0	4	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:47147551C>T	uc003cqs.2	-	6	4828	c.4775G>A	c.(4774-4776)CGA>CAA	p.R1592Q	SETD2_uc003cqv.2_Missense_Mutation_p.R1581Q	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1592	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		CTCCTTCACTCGAGCTTTAAA	0.398			N|F|S|Mis		clear cell renal carcinoma								18	63					0	0	0.007413	0	0		T	47147551	T	T	47147551	3	4	37	1	0	0	0	0	1	0	0	0	14156	884	31	1	2983	1	SETD2	3	47147551	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	748426	47147551	150874879	193	32438											
PTPN23	25930	broad.mit.edu	37	chr3	47449946	47449946	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggctctcagcgtccggccCgacactgtcaggaaccttgt	6	8	12	15	4	2	0	2	0	1	0	4	2	3	1	3	3	2	1	3	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:47449946C>T	uc003crf.1	+	15	1392	c.1296C>T	c.(1294-1296)CCC>CCT	p.P432P	PTPN23_uc011baw.1_Silent_p.P397P|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Silent_p.P302P	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	432					cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCGTCCGGCCCGACACTGTCA	0.587													11	50					0	0	0.010729	0	0		T	47449946	T	T	47449946	2	4	37	1	0	0	0	0	0	0	0	1	12813	639	23	1		1	PTPN23	3	47449946	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	302395	47449946	150572484	194	32439											
PLXNB1	5364	broad.mit.edu	37	chr3	48454291	48454291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaagaagatcctctccgCatacaccttgtagtcgagga	12	8	11	10	2	1	2	0	0	1	2	4	5	2	4	3	2	1	2	3	2	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:48454291C>T	uc003csw.2	-	25	4984	c.4714G>A	c.(4714-4716)GCG>ACG	p.A1572T	PLXNB1_uc003cst.2_Missense_Mutation_p.A22T|PLXNB1_uc003csu.2_Missense_Mutation_p.A1389T|PLXNB1_uc003csx.2_Missense_Mutation_p.A1572T	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1572	Cytoplasmic (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		ATCCTCTCCGCATACACCTTG	0.617													9	60					0	0	0.006214	0	0		T	48454291	T	T	48454291	3	4	37	1	0	0	0	0	1	0	0	0	12142	710	25	2	1749	2	PLXNB1	3	48454291	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1004345	48454291	149568139	195	32440											
COL7A1	1294	broad.mit.edu	37	chr3	48612948	48612948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggtcgcccttcagcccgcGttctccaggaaagccgatgg	7	7	12	15	5	2	0	1	0	1	0	4	2	2	1	4	3	2	1	4	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:48612948G>A	uc003ctz.2	-	73	6005	c.6004C>T	c.(6004-6006)CGC>TGC	p.R2002C		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2002	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TTCAGCCCGCGTTCTCCAGGA	0.692													9	42					0	0	0.006214	0	0		A	48612948	A	A	48612948	3	1	37	1	0	0	0	0	1	0	0	0	3707	1145	40	1	3014	1	COL7A1	3	48612948	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	158657	48612948	149409482	196	32441											
COL7A1	1294	broad.mit.edu	37	chr3	48628240	48628240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggaagcaccagggtcCgctcaacccctaagagagaa	13	4	10	14	1	1	2	1	0	0	2	3	4	3	3	5	2	2	2	5	2	4	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:48628240C>T	uc003ctz.2	-	13	1647	c.1646G>A	c.(1645-1647)CGG>CAG	p.R549Q		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	549	Fibronectin type-III 4.|Nonhelical region (NC1).				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CACCAGGGTCCGCTCAACCCC	0.587													15	64					0	0	0.003163	0	0		T	48628240	T	T	48628240	3	4	37	1	0	0	0	0	1	0	0	0	3707	652	23	1	7612	1	COL7A1	3	48628240	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	15292	48628240	149394190	197	32442											
AMIGO3	386724	broad.mit.edu	37	chr3	49755668	49755668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcagcggcaggcacggcGgcagcagcggcagggtgggg	6	1	23	11	5	0	0	0	0	0	0	0	0	0	0	0	9	3	6	0	9	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:49755668G>A	uc003cxj.2	-	1	1571	c.1231C>T	c.(1231-1233)CGC>TGC	p.R411C	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	411	Cytoplasmic (Potential).				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		caggcacggcggcagcagcgg	0.522													22	56					0	0	0.010504	0	0		A	49755668	A	A	49755668	3	1	37	1	0	0	0	0	1	0	0	0	577	1116	39	1	287	1	AMIGO3	3	49755668	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1127428	49755668	148266762	198	32443											
DNAH1	25981	broad.mit.edu	37	chr3	52395698	52395698	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggggcctgggcctgcttCgacgagttcaatcgcatcga	6	9	14	12	4	1	0	1	0	0	0	4	3	1	0	2	3	1	4	2	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:52395698C>T	uc011bef.1	+	30	5157	c.4896C>T	c.(4894-4896)TTC>TTT	p.F1632F		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1632	CFDEFNR motif.|AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GGGCCTGCTTCGACGAGTTCA	0.642													5	12					0	0	0.001168	0	0		T	52395698	T	T	52395698	2	4	37	1	0	0	0	0	0	0	0	1	4603	883	31	1		1	DNAH1	3	52395698	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2640030	52395698	145626732	199	32444											
ITIH3	3699	broad.mit.edu	37	chr3	52841006	52841006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttggaaaactgggcatcGccaatgctcagatggacttc	11	10	10	10	1	1	1	1	0	0	1	3	3	1	3	1	3	2	2	1	3	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:52841006G>A	uc003dfv.2	+	19	2182	c.2146G>A	c.(2146-2148)GCC>ACC	p.A716T	ITIH3_uc011bek.1_Intron	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	716				A -> R (in Ref. 1; CAA47439 and 8; CAA32821).	hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		ACTGGGCATCGCCAATGCTCA	0.562													4	11					0	0	0.009096	0	0		A	52841006	A	A	52841006	3	1	37	1	0	0	0	0	1	0	0	0	7921	1087	38	1	2220	1	ITIH3	3	52841006	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	445308	52841006	145181424	200	32445											
ACTR8	93973	broad.mit.edu	37	chr3	53911269	53911269	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcagtgggatttccaagTatttttgtatcgcatgagac	9	16	9	7	1	1	1	1	1	0	1	3	3	2	2	1	1	0	3	1	1	3	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:53911269T>C	uc003dhd.2	-	5	715	c.656A>G	c.(655-657)TAC>TGC	p.Y219C	ACTR8_uc003dhb.2_Translation_Start_Site|ACTR8_uc003dhc.2_Missense_Mutation_p.Y108C	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	219					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		GATTTCCAAGTATTTTTGTAT	0.388													23	51					0	0	0.00333	0	0		C	53911269	C	C	53911269	3	2	37	1	0	0	0	0	1	0	0	0	217	1638	57	3	1254	3	ACTR8	3	53911269	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1070263	53911269	144111161	201	32446											
ABHD6	57406	broad.mit.edu	37	chr3	58279408	58279408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggcactcagtagtgatGgaaagacccaggaagacagc	13	6	14	8	0	1	3	1	1	0	2	1	5	1	5	1	3	1	2	1	3	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:58279408G>A	uc003djs.3	+	9	1340	c.930G>A	c.(928-930)ATG>ATA	p.M310I	ABHD6_uc003djr.2_Missense_Mutation_p.M311I|ABHD6_uc003djt.3_Missense_Mutation_p.M310I	NM_020676	NP_065727	Q9BV23	ABHD6_HUMAN	abhydrolase domain containing 6	310	Cytoplasmic (Potential).					integral to membrane	acylglycerol lipase activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(55;0.000225)|KIRC - Kidney renal clear cell carcinoma(284;0.0471)|Kidney(284;0.0589)|OV - Ovarian serous cystadenocarcinoma(275;0.209)		CAGTAGTGATGGAAAGACCCA	0.532													15	75					0	0	0.003163	0	0		A	58279408	A	A	58279408	3	1	37	1	0	0	0	0	1	0	0	0	86	1348	47	4	960	4	ABHD6	3	58279408	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4368139	58279408	139743022	202	32447											
ADAMTS9	56999	broad.mit.edu	37	chr3	64619404	64619404	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagggacccagcgcacatTgggaagcagaccgttgatgt	10	9	13	9	2	0	2	0	1	0	1	0	4	0	4	2	2	2	3	2	2	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:64619404T>C	uc003dmg.2	-	13	2040	c.2008A>G	c.(2008-2010)AAT>GAT	p.N670D	ADAMTS9_uc011bfo.1_Missense_Mutation_p.N642D|ADAMTS9_uc003dmh.1_Missense_Mutation_p.N499D|ADAMTS9_uc003dmk.1_Missense_Mutation_p.N670D	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	670	Cys-rich.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CAGCGCACATTGGGAAGCAGA	0.522													41	245					0	0	0.011902	0	0		C	64619404	C	C	64619404	3	2	37	1	0	0	0	0	1	0	0	0	273	1812	63	3	3907	3	ADAMTS9	3	64619404	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	6339996	64619404	133403026	203	32448											
FAM19A4	151647	broad.mit.edu	37	chr3	68788325	68788325	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaacacggattcatgtgacaCcaccatttctgaatcacaat	15	10	5	11	1	3	2	2	2	1	0	3	3	3	3	2	1	1	0	2	1	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:68788325C>G	uc003dnh.1	-	5	755	c.312G>C	c.(310-312)TGG>TGC	p.W104C	FAM19A4_uc003dni.1_Missense_Mutation_p.W104C	NM_182522	NP_872328	Q96LR4	F19A4_HUMAN	family with sequence similarity 19 (chemokine	104						extracellular region				skin(2)	2		Lung NSC(201;0.0198)		BRCA - Breast invasive adenocarcinoma(55;1.38e-05)|Epithelial(33;0.000124)|LUSC - Lung squamous cell carcinoma(21;0.0248)|KIRC - Kidney renal clear cell carcinoma(39;0.0729)|Kidney(39;0.0904)		TCATGTGACACCACCATTTCT	0.403													18	68					0	0	0.010504	0	0		G	68788325	G	G	68788325	3	3	37	1	0	0	0	0	1	0	0	0	5545	508	18	5	118	5	FAM19A4	3	68788325	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4168921	68788325	129234105	204	32449											
C3orf64	285203	broad.mit.edu	37	chr3	69027566	69027566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccaagtctaagtaacagCgttcatcttcacagttgtac	11	12	8	10	1	4	0	2	0	2	0	4	0	4	0	1	1	3	4	1	1	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:69027566C>T	uc003dnl.2	-	17	1760	c.1355G>A	c.(1354-1356)CGC>CAC	p.R452H	C3orf64_uc003dnj.2_Missense_Mutation_p.R131H|C3orf64_uc003dnk.2_Missense_Mutation_p.R368H|C3orf64_uc011bfw.1_RNA	NM_173654	NP_775925	Q5NDL2	AER61_HUMAN	AER61 glycosyltransferase	452						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)	1		Lung NSC(201;0.126)		BRCA - Breast invasive adenocarcinoma(55;4.61e-05)|Epithelial(33;0.000291)|LUSC - Lung squamous cell carcinoma(21;0.0127)|KIRC - Kidney renal clear cell carcinoma(39;0.216)		TAAGTAACAGCGTTCATCTTC	0.433													5	85					0	0	0.000602	0	0		T	69027566	T	T	69027566	3	4	37	1	0	0	0	0	1	0	0	0	2243	768	27	1	236	1	C3orf64	3	69027566	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	239241	69027566	128994864	205	32450											
ROBO2	6092	broad.mit.edu	37	chr3	77147272	77147272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactgcaaggcggagggcCggccaacgcccaccattgag	10	4	14	13	3	0	2	0	2	0	0	0	3	0	3	4	4	3	1	4	4	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:77147272C>T	uc003dpy.3	+	2	812	c.169C>T	c.(169-171)CGG>TGG	p.R57W	ROBO2_uc003dpz.2_Missense_Mutation_p.R57W|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.R57W	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	57	Ig-like C2-type 1.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		GGCGGAGGGCCGGCCAACGCC	0.607													15	35					0	0	0.00499	0	0		T	77147272	T	T	77147272	3	4	37	1	0	0	0	0	1	0	0	0	13539	652	23	1	177	1	ROBO2	3	77147272	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	8119706	77147272	120875158	206	32451											
HTR1F	3355	broad.mit.edu	37	chr3	88040785	88040785	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaaagcagccactaccctgGgattaatcttgggtgcattt	10	11	11	9	0	1	0	0	0	1	0	1	2	1	2	2	3	4	2	2	3	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:88040785G>T	uc003dqr.2	+	2	1044	c.886G>T	c.(886-888)GGA>TGA	p.G296*		NM_000866	NP_000857	P30939	5HT1F_HUMAN	5-hydroxytryptamine (serotonin) receptor 1F	296	Helical; Name=6; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	serotonin binding|serotonin receptor activity			ovary(3)	3	all_cancers(8;0.147)	Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00664)	Eletriptan(DB00216)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Zolmitriptan(DB00315)	CACTACCCTGGGATTAATCTT	0.378													4	42					0.000602214	0.000629355	0.000602	1	0		T	88040785	T	T	88040785	4	4	37	1	0	0	0	0	0	1	0	0	7456	1233	43	5	888	5	HTR1F	3	88040785	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	10893513	88040785	109981645	207	32452											
ARL13B	200894	broad.mit.edu	37	chr3	93768344	93768344	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctcctgagagtccaacGccacccccaccccctcctcc	6	7	6	22	1	0	1	0	1	0	1	4	2	4	1	9	0	2	1	9	0	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:93768344G>A	uc003drc.2	+	8	1405	c.1119G>A	c.(1117-1119)ACG>ACA	p.T373T	ARL13B_uc010hop.2_Silent_p.T224T|ARL13B_uc003drd.2_Silent_p.T266T|ARL13B_uc003dre.2_Silent_p.T358T|ARL13B_uc003drf.2_Silent_p.T373T|ARL13B_uc003drg.2_Silent_p.T270T	NM_182896	NP_878899	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 2-like 1 isoform 1	373	Pro-rich.						GTP binding				0						AGAGTCCAACGCCACCCCCAC	0.373													17	70					0	0	0.008871	0	0		A	93768344	A	A	93768344	2	1	37	1	0	0	0	0	0	0	0	1	929	1074	38	1		1	ARL13B	3	93768344	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5727559	93768344	104254086	208	32453											
BOC	91653	broad.mit.edu	37	chr3	112969475	112969475	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcactgtgatcttgggctgCgtggtggaacctccaaggat	7	10	15	9	1	1	1	0	1	1	0	2	3	2	3	2	5	2	2	2	5	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:112969475C>T	uc003dzx.2	+	4	792	c.171C>T	c.(169-171)TGC>TGT	p.C57C	BOC_uc010hqi.2_Silent_p.C57C|BOC_uc003dzy.2_Silent_p.C57C|BOC_uc003dzz.2_Silent_p.C57C|BOC_uc003dzw.1_Silent_p.C57C|BOC_uc003eaa.1_Silent_p.C57C	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	57	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			TCTTGGGCTGCGTGGTGGAAC	0.597													19	64					0	0	0.007413	0	0		T	112969475	T	T	112969475	2	4	37	1	0	0	0	0	0	0	0	1	1482	776	27	1		1	BOC	3	112969475	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	19201131	112969475	85052955	209	32454											
BOC	91653	broad.mit.edu	37	chr3	112993495	112993495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgagggcagtggccgggCgccaatcctctactatgtgg	7	8	15	11	2	1	1	0	1	1	0	2	1	2	1	3	4	1	2	3	4	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:112993495C>T	uc003dzx.2	+	9	2129	c.1508C>T	c.(1507-1509)GCG>GTG	p.A503V	BOC_uc003dzy.2_Missense_Mutation_p.A503V|BOC_uc003dzz.2_Missense_Mutation_p.A503V|BOC_uc003eab.2_Missense_Mutation_p.A204V	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	503	Fibronectin type-III 1.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			AGTGGCCGGGCGCCAATCCTC	0.632													13	49					0	0	0.00245	0	0		T	112993495	T	T	112993495	3	4	37	1	0	0	0	0	1	0	0	0	1482	768	27	1	1534	1	BOC	3	112993495	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	24020	112993495	85028935	210	32455											
WDR52	55779	broad.mit.edu	37	chr3	113122717	113122717	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accctaacatatccatctgaCccaacagtgataacttcacc	14	9	3	15	0	2	2	1	2	1	0	3	2	3	2	4	0	3	0	4	0	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:113122717C>T	uc003eae.1	-	9	1198	c.1152G>A	c.(1150-1152)GGG>GGA	p.G384G		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	384	WD 4.									central_nervous_system(1)	1						ATCCATCTGACCCAACAGTGA	0.433													6	121					0	0	0.001984	0	0		T	113122717	T	T	113122717	2	4	37	1	0	0	0	0	0	0	0	1	17330	494	18	4		4	WDR52	3	113122717	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	129222	113122717	84899713	211	32456											
CD80	941	broad.mit.edu	37	chr3	119263419	119263419	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgactgataacgtcacttcAgccaggtgttcccgcttgaa	9	12	9	11	2	2	3	2	3	0	0	3	3	3	3	2	1	2	2	2	1	2	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:119263419A>G	uc003ecq.2	-	3	791	c.396T>C	c.(394-396)GCT>GCC	p.A132A	CD80_uc010hqt.1_Silent_p.A132A|CD80_uc010hqu.1_Silent_p.A132A|CD80_uc003ecr.1_Silent_p.A132A	NM_005191	NP_005182	P33681	CD80_HUMAN	CD80 antigen precursor	132	Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms|intracellular signal transduction|positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of signal transduction|positive regulation of T-helper 1 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation	intracellular	coreceptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2					Abatacept(DB01281)	ACGTCACTTCAGCCAGGTGTT	0.463													21	62					0	0	0.00333	0	0		G	119263419	G	G	119263419	2	3	37	1	0	0	0	0	0	0	0	1	3041	175	7	3		3	CD80	3	119263419	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	6140702	119263419	78759011	212	32457											
CD80	941	broad.mit.edu	37	chr3	119263442	119263442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtgttcccgcttgaaagCgtctttttcatacttcagaa	9	14	8	10	2	3	2	2	1	1	1	4	2	4	2	1	1	2	2	1	1	3	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:119263442C>T	uc003ecq.2	-	3	768	c.373G>A	c.(373-375)GCT>ACT	p.A125T	CD80_uc010hqt.1_Missense_Mutation_p.A125T|CD80_uc010hqu.1_Missense_Mutation_p.A125T|CD80_uc003ecr.1_Missense_Mutation_p.A125T	NM_005191	NP_005182	P33681	CD80_HUMAN	CD80 antigen precursor	125	Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms|intracellular signal transduction|positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of signal transduction|positive regulation of T-helper 1 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation	intracellular	coreceptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2					Abatacept(DB01281)	CGCTTGAAAGCGTCTTTTTCA	0.453													5	92					0	0	0.000602	0	0		T	119263442	T	T	119263442	3	4	37	1	0	0	0	0	1	0	0	0	3041	768	27	1	509	1	CD80	3	119263442	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	23	119263442	78758988	213	32458											
NR1I2	8856	broad.mit.edu	37	chr3	119534599	119534599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgtgctgcagcaccgcGtggtggaccagctgcaggag	7	6	17	11	2	0	0	0	0	0	0	0	2	0	2	2	4	5	5	2	4	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:119534599G>A	uc003edj.2	+	8	2920	c.1081G>A	c.(1081-1083)GTG>ATG	p.V361M	NR1I2_uc003edi.2_Missense_Mutation_p.V324M|NR1I2_uc003edk.2_Missense_Mutation_p.V400M|NR1I2_uc003edl.2_Missense_Mutation_p.V249M	NM_003889	NP_003880	O75469	NR1I2_HUMAN	nuclear receptor subfamily 1, group I, member 2	361	Ligand-binding.				drug export|exogenous drug catabolic process|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid metabolic process|xenobiotic metabolic process|xenobiotic transport	nucleoplasm	drug binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(114;0.175)	Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Rifampin(DB01045)|Vitamin E(DB00163)	GCAGCACCGCGTGGTGGACCA	0.597													6	20					0	0	0.001168	0	0		A	119534599	A	A	119534599	3	1	37	1	0	0	0	0	1	0	0	0	10639	1145	40	1	1228	1	NR1I2	3	119534599	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	271157	119534599	78487831	214	32459											
PDIA5	10954	broad.mit.edu	37	chr3	122864423	122864424	+	Missense_Mutation	DNP	TC	AA	AA																															tgagaaggcagcagaagcccTccatggagaagcggatgtaa																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:122864423_122864424TC>AA	uc003egc.1	+	12	1021_1022	c.965_966TC>AA	c.(964-966)CTC>CAA	p.L322Q	PDIA5_uc003egd.1_RNA	NM_006810	NP_006801	Q14554	PDIA5_HUMAN	protein disulfide isomerase A5 precursor	322	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|protein folding|response to stress	endoplasmic reticulum lumen	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0427)		GCAGAAGCCCTCCATGGAGAAG	0.51													6	49					0	0	0.004672	0	0		AA	122864424	AA	AA	122864423	3	1	37	1	0	0	0	0	1	0	0	0	11690	1551	54	5	1011	5	PDIA5	3	122864423	Missense_Mutation	DNP	TC	TCGA-BR-6566-01A-11D-1800-08	3329824	122864423	75158007	215	32460											
PLXNA1	5361	broad.mit.edu	37	chr3	126710304	126710304	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtcaccattgaggggacGcccctgttcgtggacaagga	10	7	13	11	2	1	1	1	1	0	0	2	4	1	4	3	4	0	1	3	4	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:126710304G>A	uc003ejg.2	+	2	1207	c.1203G>A	c.(1201-1203)ACG>ACA	p.T401T		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	424	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TTGAGGGGACGCCCCTGTTCG	0.647													4	47					0	0	0.009096	0	0		A	126710304	A	A	126710304	2	1	37	1	0	0	0	0	0	0	0	1	12138	1074	38	1		1	PLXNA1	3	126710304	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3845881	126710304	71312126	216	32461											
PLXNA1	5361	broad.mit.edu	37	chr3	126732871	126732871	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcacctaacagtactcctaCgaggggaacgatgtcagcga	13	7	10	11	3	2	0	2	0	0	0	3	4	3	1	2	2	5	1	2	2	4	3	rs147176760		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:126732871C>T	uc003ejg.2	+	10	2257	c.2253C>T	c.(2251-2253)TAC>TAT	p.Y751Y		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	774	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		AGTACTCCTACGAGGGGAACG	0.597													29	123					0	0	0.009535	0	0		T	126732871	T	T	126732871	2	4	37	1	0	0	0	0	0	0	0	1	12138	547	19	1		1	PLXNA1	3	126732871	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	22567	126732871	71289559	217	32462											
COPG	22820	broad.mit.edu	37	chr3	128973580	128973580	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgcgagccctctgccagatCactgatgtgagtcgtgccgg	6	9	14	12	3	2	3	1	2	1	1	3	4	2	3	3	1	4	0	3	1	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:128973580C>T	uc003els.2	+	6	493	c.393C>T	c.(391-393)ATC>ATT	p.I131I	COPG_uc010htb.2_Silent_p.I37I	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	131					COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						TCTGCCAGATCACTGATGTGA	0.562													17	18					0	0	0.00499	0	0		T	128973580	T	T	128973580	2	4	37	1	0	0	0	0	0	0	0	1	3734	816	29	4		4	COPG	3	128973580	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2240709	128973580	69048850	218	32463											
SLCO2A1	6578	broad.mit.edu	37	chr3	133664053	133664053	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagatagaatctgggcaCgagcagtccctgcggcaggc	10	6	15	10	2	1	2	0	0	1	2	2	4	2	3	1	4	2	3	1	4	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:133664053C>T	uc003eqa.3	-	10	1621	c.1347G>A	c.(1345-1347)TCG>TCA	p.S449S	SLCO2A1_uc003eqb.3_Silent_p.S373S|SLCO2A1_uc011blv.1_Silent_p.S268S	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	449	Extracellular (Potential).|Kazal-like.				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						AATCTGGGCACGAGCAGTCCC	0.527													46	247					0	0	0.01441	0	0		T	133664053	T	T	133664053	2	4	37	1	0	0	0	0	0	0	0	1	14751	523	19	1		1	SLCO2A1	3	133664053	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4690473	133664053	64358377	219	32464											
PLCH1	23007	broad.mit.edu	37	chr3	155200068	155200068	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactcgagagtgctatcagCtccggagatgagcacaggaa	13	6	13	9	2	1	3	1	1	0	2	3	7	2	4	1	2	4	3	1	2	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:155200068C>T	uc011bok.1	-	23	4048	c.3771G>A	c.(3769-3771)GAG>GAA	p.E1257E	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Silent_p.E1219E	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1257					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GTGCTATCAGCTCCGGAGATG	0.483													8	126					0	0	0.00308	0	0		T	155200068	T	T	155200068	2	4	37	1	0	0	0	0	0	0	0	1	12056	796	28	2		2	PLCH1	3	155200068	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	21536015	155200068	42822362	220	32465											
GMPS	8833	broad.mit.edu	37	chr3	155633942	155633942	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaactcatcaaaacccaTcacaatgacacagagctcat	16	7	5	13	0	4	3	4	2	0	1	4	3	4	3	1	0	3	2	1	0	4	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:155633942T>C	uc003faq.2	+	9	1508	c.1173T>C	c.(1171-1173)CAT>CAC	p.H391H	GMPS_uc011bom.1_Silent_p.H292H	NM_003875	NP_003866	P49915	GUAA_HUMAN	guanine monophosphate synthetase	391					glutamine metabolic process|purine base biosynthetic process	cytosol	ATP binding|GMP synthase (glutamine-hydrolyzing) activity|GMP synthase activity			ovary(2)|lung(1)	3			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TCAAAACCCATCACAATGACA	0.408			T	MLL	AML								17	81					0	0	0.003954	0	0		C	155633942	C	C	155633942	2	2	37	1	0	0	0	0	0	0	0	1	6513	1432	50	3		3	GMPS	3	155633942	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	433874	155633942	42388488	221	32466											
MLF1	4291	broad.mit.edu	37	chr3	158315874	158315874	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtttacctgtagggtcaActttcagtggatccaaatgg	9	15	10	7	0	2	0	2	0	0	0	3	1	3	1	2	3	2	2	2	3	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:158315874A>C	uc003fcb.2	+	4	422	c.285A>C	c.(283-285)CAA>CAC	p.Q95H	MLF1_uc003fbz.2_Missense_Mutation_p.Q70H|MLF1_uc003fca.2_Missense_Mutation_p.Q70H|MLF1_uc003fbx.2_Missense_Mutation_p.Q85H|MLF1_uc003fcc.2_Missense_Mutation_p.Q126H|MLF1_uc003fby.2_Missense_Mutation_p.Q21H|MLF1_uc010hvx.2_Intron	NM_022443	NP_071888	P58340	MLF1_HUMAN	myeloid leukemia factor 1 isoform 1	95	Interaction with COPS3.				cell cycle arrest|myeloid progenitor cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein domain specific binding				0		Melanoma(1037;0.000458)|Prostate(884;0.0235)|all_neural(597;0.0299)	Lung(72;0.00199)|LUSC - Lung squamous cell carcinoma(72;0.00256)			TGTAGGGTCAACTTTCAGTGG	0.358			T	NPM1	AML								16	54					0	0	0.006122	0	0		C	158315874	C	C	158315874	3	2	37	1	0	0	0	0	1	0	0	0	9632	40	2	5	299	5	MLF1	3	158315874	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2681932	158315874	39706556	222	32467											
WDR49	151790	broad.mit.edu	37	chr3	167277851	167277851	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagcatcattgtgttcgcaCctttacagtcccatctgtgc	9	13	7	12	1	2	0	1	0	1	0	4	0	3	0	2	0	3	3	2	0	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:167277851C>T	uc003fev.1	-	5	957	c.651_splice	c.e5+1	p.K217_splice	WDR49_uc003feu.1_Splice_Site_p.K42_splice|WDR49_uc011bpd.1_Splice_Site_p.K270_splice|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49											large_intestine(1)|ovary(1)|skin(1)	3						TGTGTTCGCACCTTTACAGTC	0.428													14	151					0	0	0.004007	0	0		T	167277851	T	T	167277851	5	4	37	1	0	0	0	0	0	0	1	0	17328	521	18	4	1485	4	WDR49	3	167277851	Splice_Site	SNP	C	TCGA-BR-6566-01A-11D-1800-08	8961977	167277851	30744579	223	32468											
SAMD7	344658	broad.mit.edu	37	chr3	169642884	169642884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgaatccataaaggcagtgGccagaaggaatgaaatgatt	16	8	11	6	0	0	4	0	3	0	1	1	5	1	5	2	3	0	1	2	3	6	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:169642884G>A	uc003fgd.2	+	5	517	c.250G>A	c.(250-252)GCC>ACC	p.A84T	SAMD7_uc003fge.2_Missense_Mutation_p.A84T|SAMD7_uc011bpo.1_5'UTR	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	84										skin(1)	1	all_cancers(22;1.55e-22)|all_epithelial(15;2.41e-27)|all_lung(20;3.52e-17)|Lung NSC(18;1.44e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0106)			AAAGGCAGTGGCCAGAAGGAA	0.353													9	28					0	0	0.006214	0	0		A	169642884	A	A	169642884	3	1	37	1	0	0	0	0	1	0	0	0	13849	1203	42	2	260	2	SAMD7	3	169642884	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2365033	169642884	28379546	224	32469											
SLC7A14	57709	broad.mit.edu	37	chr3	170204121	170204121	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgatgatgtcaaagccaaTgaaagcgtagaagcatgttg	14	8	13	6	2	1	3	1	2	0	1	1	4	1	3	1	1	3	3	1	1	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:170204121T>C	uc003fgz.2	-	5	1112	c.796A>G	c.(796-798)ATT>GTT	p.I266V	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	266	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			TCAAAGCCAATGAAAGCGTAG	0.527													4	95					0	0	0.009096	0	0		C	170204121	C	C	170204121	3	2	37	1	0	0	0	0	1	0	0	0	14721	1464	51	3	1535	3	SLC7A14	3	170204121	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	561237	170204121	27818309	225	32470											
EIF4G1	1981	broad.mit.edu	37	chr3	184043127	184043127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagacgtcatcccgcatccGctttatgctgcaggacgtgc	8	9	11	13	4	1	1	1	0	0	1	3	3	3	2	2	1	3	4	2	1	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:184043127G>A	uc003fnp.2	+	19	3125	c.2927G>A	c.(2926-2928)CGC>CAC	p.R976H	EIF4G1_uc003fno.1_Missense_Mutation_p.R917H|EIF4G1_uc010hxw.1_Missense_Mutation_p.R812H|EIF4G1_uc003fnt.2_Missense_Mutation_p.R687H|EIF4G1_uc003fnq.2_Missense_Mutation_p.R889H|EIF4G1_uc003fnr.2_Missense_Mutation_p.R812H|EIF4G1_uc010hxx.2_Missense_Mutation_p.R983H|EIF4G1_uc003fns.2_Missense_Mutation_p.R936H|EIF4G1_uc010hxy.2_Missense_Mutation_p.R983H|EIF4G1_uc003fnv.3_Missense_Mutation_p.R977H|EIF4G1_uc003fnu.3_Missense_Mutation_p.R976H|EIF4G1_uc003fnw.2_Missense_Mutation_p.R983H|EIF4G1_uc003fnx.2_Missense_Mutation_p.R781H|EIF4G1_uc003fny.3_Missense_Mutation_p.R780H|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	976	eIF3/EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCCCGCATCCGCTTTATGCTG	0.527													32	92					0	0	0.012213	0	0		A	184043127	A	A	184043127	3	1	37	1	0	0	0	0	1	0	0	0	5044	1087	38	1	2993	1	EIF4G1	3	184043127	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	13839006	184043127	13979303	226	32471											
CLCN2	1181	broad.mit.edu	37	chr3	184075996	184075996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaggggccaggatctgtGtgaatccggctgagaaagtg	9	8	16	8	1	1	3	0	3	1	1	2	5	2	4	3	4	0	1	3	4	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:184075996G>A	uc003foi.2	-	4	579	c.455C>T	c.(454-456)ACA>ATA	p.T152I	CLCN2_uc003foh.2_5'Flank|CLCN2_uc010hya.1_Missense_Mutation_p.T152I|CLCN2_uc011brl.1_Missense_Mutation_p.T152I|CLCN2_uc011brm.1_Missense_Mutation_p.T108I|CLCN2_uc011brn.1_Missense_Mutation_p.T152I	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	152	Helical; (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	CAGGATCTGTGTGAATCCGGC	0.582													6	116					0	0	0.001984	0	0		A	184075996	A	A	184075996	3	1	37	1	0	0	0	0	1	0	0	0	3466	1377	48	4	2325	4	CLCN2	3	184075996	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	32869	184075996	13946434	227	32472											
MAP3K13	9175	broad.mit.edu	37	chr3	185167821	185167821	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccacttgccctgatggaTtcaaaatccttatgaaacag	12	12	6	11	0	1	2	1	2	0	0	3	3	3	3	3	1	2	0	3	1	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:185167821T>C	uc010hyf.2	+	7	1410	c.1144T>C	c.(1144-1146)TTC>CTC	p.F382L	MAP3K13_uc011brt.1_Missense_Mutation_p.F175L|MAP3K13_uc003fph.3_Missense_Mutation_p.F150L|MAP3K13_uc011bru.1_Missense_Mutation_p.F238L|MAP3K13_uc003fpi.2_Missense_Mutation_p.F382L|MAP3K13_uc010hyg.2_Missense_Mutation_p.F72L	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	382	Protein kinase.				activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			CCCTGATGGATTCAAAATCCT	0.388													4	98					0	0	0.009096	0	0		C	185167821	C	C	185167821	3	2	37	1	0	0	0	0	1	0	0	0	9265	1493	52	3	1162	3	MAP3K13	3	185167821	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1091825	185167821	12854609	228	32473											
LSG1	55341	broad.mit.edu	37	chr3	194373625	194373625	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtagagctttccttccAgtcctggctgcagtcctctt	5	14	9	13	0	1	1	0	0	1	1	5	1	5	1	4	1	3	5	4	1	1	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:194373625A>G	uc003fui.2	-	8	1321	c.1006T>C	c.(1006-1008)TGG>CGG	p.W336R		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	336					nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		CTTTCCTTCCAGTCCTGGCTG	0.522													57	172					0	0	0.01441	0	0		G	194373625	G	G	194373625	3	3	37	1	0	0	0	0	1	0	0	0	9067	188	7	3	998	3	LSG1	3	194373625	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	9205804	194373625	3648805	229	32474											
MUC4	4585	broad.mit.edu	37	chr3	195492283	195492283	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacggtagttgggcctttcTtcccggtgtagcctgtagaa	7	12	13	9	2	1	2	0	0	1	2	2	2	2	2	3	3	1	4	3	3	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:195492283T>C	uc011bto.1	-	10	13732	c.13272A>G	c.(13270-13272)GAA>GAG	p.E4424E	MUC4_uc003fuz.2_Silent_p.E150E|MUC4_uc003fva.2_Silent_p.E32E|MUC4_uc003fvb.2_Silent_p.E68E|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Silent_p.E68E|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Silent_p.E32E|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Silent_p.E116E|MUC4_uc011bti.1_Silent_p.E116E|MUC4_uc011btj.1_Silent_p.E293E|MUC4_uc011btk.1_Silent_p.E32E|MUC4_uc011btl.1_Silent_p.E61E|MUC4_uc011btm.1_Silent_p.E241E|MUC4_uc011btn.1_Silent_p.E32E|MUC4_uc003fvo.2_Silent_p.E316E|MUC4_uc003fvp.2_Silent_p.E265E|MUC4_uc010hzu.1_Silent_p.E1164E	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1309	NIDO.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TGGGCCTTTCTTCCCGGTGTA	0.652													13	38					0	0	0.00245	0	0		C	195492283	C	C	195492283	2	2	37	1	0	0	0	0	0	0	0	1	9996	1606	56	3		3	MUC4	3	195492283	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1118658	195492283	2530147	230	32475											
FBXO45	200933	broad.mit.edu	37	chr3	196304666	196304666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttttccacagtgcaacaacGcaccaaaatatcaggtgaga	15	8	8	10	1	1	1	1	1	0	1	2	2	2	1	2	1	3	3	2	1	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:196304666G>A	uc010iai.2	+	2	792	c.661G>A	c.(661-663)GCA>ACA	p.A221T		NM_001105573	NP_001099043	P0C2W1	FBSP1_HUMAN	F-box protein 45	221	B30.2/SPRY.				nervous system development|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	cell junction|postsynaptic membrane|presynaptic membrane	protein binding			skin(1)	1	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;2.75e-23)|all cancers(36;2.47e-21)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		GTGCAACAACGCACCAAAATA	0.403													11	22					0	0	0.013537	0	0		A	196304666	A	A	196304666	3	1	37	1	0	0	0	0	1	0	0	0	5768	1087	38	1	667	1	FBXO45	3	196304666	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	812383	196304666	1717764	231	32476											
DLG1	1739	broad.mit.edu	37	chr3	196792610	196792610	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatccaaatttgtcaggaaaTtctgagatcaagtcatcatt	14	13	7	7	0	5	1	4	1	1	1	6	4	6	2	1	1	0	0	1	1	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:196792610T>C	uc003fxo.3	-	22	2392	c.2202A>G	c.(2200-2202)GAA>GAG	p.E734E	DLG1_uc011bub.1_Silent_p.E630E|DLG1_uc011buc.1_Silent_p.E618E|DLG1_uc011bud.1_Silent_p.E417E|DLG1_uc003fxn.3_Silent_p.E756E|DLG1_uc011bue.1_Silent_p.E722E|DLG1_uc010ial.2_Silent_p.E734E	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	734	Guanylate kinase-like.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		TGTCAGGAAATTCTGAGATCA	0.333													4	68					0	0	0.000602	0	0		C	196792610	C	C	196792610	2	2	37	1	0	0	0	0	0	0	0	1	4560	1490	52	3		3	DLG1	3	196792610	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	487944	196792610	1229820	232	32477											
MAEA	10296	broad.mit.edu	37	chr4	1332301	1332301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggcgcagcccctgcccatgGcccactgtgccaactcccgc	5	6	10	20	2	0	0	0	0	0	0	1	0	1	0	6	2	4	1	6	2	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:1332301G>A	uc003gda.2	+	8	1021	c.991G>A	c.(991-993)GCC>ACC	p.A331T	MAEA_uc003gdb.2_Missense_Mutation_p.A290T|MAEA_uc011bvb.1_Missense_Mutation_p.A263T|MAEA_uc003gdc.2_Missense_Mutation_p.A263T|MAEA_uc003gdd.2_RNA|MAEA_uc011bvc.1_Missense_Mutation_p.A330T|MAEA_uc011bvd.1_Missense_Mutation_p.A283T|MAEA_uc010ibt.2_Missense_Mutation_p.A104T|MAEA_uc010ibu.2_RNA	NM_001017405	NP_001017405	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher isoform 1	331					cell adhesion|cell cycle|cell division|erythrocyte maturation|negative regulation of myeloid cell apoptosis|regulation of mitotic cell cycle	actomyosin contractile ring|integral to plasma membrane|membrane fraction|nuclear matrix|spindle	actin binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0201)			CCTGCCCATGGCCCACTGTGC	0.612													4	46					0	0	0.001168	0	0		A	1332301	A	A	1332301	3	1	37	1	0	0	0	0	1	0	0	0	9171	1203	42	2	1021	2	MAEA	4	1332301	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08		1332301	189821975	233	32478											
EVC2	132884	broad.mit.edu	37	chr4	5664972	5664972	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttgctctcatactgccaaAccttcaggagaattgcggaa	11	10	9	11	1	2	1	2	0	1	1	3	3	2	2	2	2	5	2	2	2	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:5664972A>C	uc003gij.2	-	9	1061	c.1007T>G	c.(1006-1008)GTT>GGT	p.V336G	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Missense_Mutation_p.V256G	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	336						integral to membrane				large_intestine(3)|ovary(2)	5						ATACTGCCAAACCTTCAGGAG	0.498													19	82					0	0	0.010504	0	0		C	5664972	C	C	5664972	3	2	37	1	0	0	0	0	1	0	0	0	5294	57	2	5	2975	5	EVC2	4	5664972	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	4332671	5664972	185489304	234	32479											
TBC1D14	57533	broad.mit.edu	37	chr4	6925517	6925517	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctccacgtttcccaggacagGctatgactcggtaaagctct	9	10	9	13	2	1	1	0	1	1	0	4	2	3	2	2	3	1	4	2	3	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:6925517G>A	uc011bwg.1	+	2	480	c.401G>A	c.(400-402)GGC>GAC	p.G134D	TBC1D14_uc003gjs.3_Missense_Mutation_p.G134D	NM_001113361	NP_001106832	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14 isoform a	134						intracellular	Rab GTPase activator activity			ovary(1)|pancreas(1)	2						CCCAGGACAGGCTATGACTCG	0.617													52	143					0	0	0.01441	0	0		A	6925517	A	A	6925517	3	1	37	1	0	0	0	0	1	0	0	0	15628	1203	42	2	403	2	TBC1D14	4	6925517	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1260545	6925517	184228759	235	32480											
DRD5	1816	broad.mit.edu	37	chr4	9784677	9784677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgtcagtgagaccaccttcGacgtcttcgtctggttcggc	5	11	12	13	5	3	1	1	1	2	1	6	3	3	1	2	2	0	1	2	2	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:9784677G>A	uc003gmb.3	+	1	1420	c.1024G>A	c.(1024-1026)GAC>AAC	p.D342N		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	342	Helical; Name=7; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	GACCACCTTCGACGTCTTCGT	0.597													31	105					0	0	0.010818	0	0		A	9784677	A	A	9784677	3	1	37	1	0	0	0	0	1	0	0	0	4766	1058	37	1	1026	1	DRD5	4	9784677	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2859160	9784677	181369599	236	32481											
HS3ST1	9957	broad.mit.edu	37	chr4	11401356	11401356	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggctgtaatgctcctcccAgtcgaagaagtggacctcgt	8	10	12	11	2	0	1	0	0	0	1	4	3	2	2	3	2	1	3	3	2	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:11401356A>G	uc003gmq.2	-	2	597	c.274T>C	c.(274-276)TGG>CGG	p.W92R		NM_005114	NP_005105	O14792	HS3S1_HUMAN	heparan sulfate D-glucosaminyl	92						Golgi lumen|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			skin(1)	1						TGCTCCTCCCAGTCGAAGAAG	0.647													6	106					0	0	0.001168	0	0		G	11401356	G	G	11401356	3	3	37	1	0	0	0	0	1	0	0	0	7379	188	7	3	653	3	HS3ST1	4	11401356	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1616679	11401356	179752920	237	32482											
C1QTNF7	114905	broad.mit.edu	37	chr4	15437604	15437604	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggtgaaaagggaactgcAggtaatgaatgagaagttgc	17	7	14	3	0	0	3	0	3	0	1	0	5	0	4	0	3	3	3	0	3	7	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:15437604A>G	uc011bxb.1	+	2	464	c.237A>G	c.(235-237)GCA>GCG	p.A79A	C1QTNF7_uc003gno.2_Silent_p.A86A|C1QTNF7_uc003gnp.2_Silent_p.A79A	NM_001135171	NP_001128643	Q9BXJ2	C1QT7_HUMAN	C1q and tumor necrosis factor related protein 7	79	Collagen-like.					collagen					0						AGGGAACTGCAGGTAATGAAT	0.478													9	39					0	0	0.006214	0	0		G	15437604	G	G	15437604	2	3	37	1	0	0	0	0	0	0	0	1	1971	202	7	3		3	C1QTNF7	4	15437604	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	4036248	15437604	175716672	238	32483											
SLIT2	9353	broad.mit.edu	37	chr4	20599972	20599972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactctatcgggggcgtgttCgtgccagctatgacaccggc	7	9	13	12	4	1	1	0	1	1	0	3	1	1	1	2	3	3	2	2	3	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:20599972C>T	uc003gpr.1	+	33	3850	c.3646C>T	c.(3646-3648)CGT>TGT	p.R1216C	SLIT2_uc003gps.1_Missense_Mutation_p.R1208C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1216	Laminin G-like.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GGGGCGTGTTCGTGCCAGCTA	0.463													20	132					0	0	0.010504	0	0		T	20599972	T	T	20599972	3	4	37	1	0	0	0	0	1	0	0	0	14765	884	31	1	3776	1	SLIT2	4	20599972	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5162368	20599972	170554304	239	32484											
PACRGL	133015	broad.mit.edu	37	chr4	20714531	20714531	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctagactgattcctgtgCtaaaggcagctctggtatgt	9	13	10	9	0	1	2	0	1	1	1	2	2	2	2	2	2	3	4	2	2	5	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:20714531C>A	uc010iek.2	+	6	878	c.487C>A	c.(487-489)CTA>ATA	p.L163I	PACRGL_uc003gpu.2_RNA|PACRGL_uc010iei.1_Missense_Mutation_p.L211I|PACRGL_uc003gpz.2_Missense_Mutation_p.L163I|PACRGL_uc011bxm.1_Missense_Mutation_p.L110I|PACRGL_uc003gqa.2_Intron|PACRGL_uc003gpx.3_RNA|PACRGL_uc003gpv.2_Missense_Mutation_p.L163I|PACRGL_uc003gpw.2_RNA|PACRGL_uc010iej.1_RNA|PACRGL_uc011bxn.1_Intron|PACRGL_uc003gpy.2_Missense_Mutation_p.L110I	NM_145048	NP_659485	Q8N7B6	PACRL_HUMAN	PARK2 co-regulated-like isoform 1	163							binding				0						GATTCCTGTGCTAAAGGCAGC	0.333													4	170					2.56e-06	2.76471e-06	0.009096	1	0		A	20714531	A	A	20714531	3	1	37	1	0	0	0	0	1	0	0	0	11390	796	28	5	505	5	PACRGL	4	20714531	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	114559	20714531	170439745	240	32485											
TBC1D1	23216	broad.mit.edu	37	chr4	38016279	38016279	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcgcacaagaaggctccGccggccctgatcgacgagtg	8	5	15	13	5	0	2	0	1	0	1	2	4	1	2	3	3	0	2	3	3	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:38016279G>A	uc003gtb.2	+	3	910	c.567G>A	c.(565-567)CCG>CCA	p.P189P	TBC1D1_uc011byd.1_Silent_p.P189P|TBC1D1_uc010ifd.2_Intron|TBC1D1_uc011byf.1_Silent_p.P60P	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	189						nucleus	Rab GTPase activator activity			ovary(1)	1						AGAAGGCTCCGCCGGCCCTGA	0.667													36	134					0	0	0.007835	0	0		A	38016279	A	A	38016279	2	1	37	1	0	0	0	0	0	0	0	1	15622	1074	38	1		1	TBC1D1	4	38016279	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	17301748	38016279	153137997	241	32486											
KLF3	51274	broad.mit.edu	37	chr4	38698768	38698768	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgctcggtctgatgaactaAcaagacatttccgaaaacat	14	11	7	9	2	1	3	0	2	1	1	3	4	2	3	1	1	4	1	1	1	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:38698768A>G	uc003gth.3	+	6	1254	c.922A>G	c.(922-924)ACA>GCA	p.T308A		NM_016531	NP_057615	P57682	KLF3_HUMAN	Kruppel-like factor 3 (basic)	308	C2H2-type 2.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						TGATGAACTAACAAGACATTT	0.443													8	137					0	0	0.004482	0	0		G	38698768	G	G	38698768	3	3	37	1	0	0	0	0	1	0	0	0	8363	43	2	3	940	3	KLF3	4	38698768	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	682489	38698768	152455508	242	32487											
LIAS	11019	broad.mit.edu	37	chr4	39462409	39462409	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cataattaactctttctttaGgtatttgggagatatttttg	10	20	7	4	0	2	1	0	0	2	1	2	2	2	1	0	2	1	1	0	2	5	10			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:39462409G>T	uc003guf.2	+	2	119	c.46_splice	c.e2-1	p.V16_splice	RPL9_uc003gub.2_5'Flank|RPL9_uc003guc.2_5'Flank|RPL9_uc011byk.1_5'Flank|RPL9_uc011byl.1_5'Flank|RPL9_uc003gud.1_5'Flank|LIAS_uc003gue.3_Splice_Site_p.V16_splice|LIAS_uc011bym.1_Splice_Site_p.V16_splice|LIAS_uc003gug.2_Splice_Site_p.V16_splice|LIAS_uc003guh.2_Splice_Site_p.V16_splice	NM_006859	NP_006850	O43766	LIAS_HUMAN	lipoic acid synthetase isoform 1 precursor						inflammatory response|response to lipopolysaccharide|response to oxidative stress	mitochondrion	4 iron, 4 sulfur cluster binding|lipoate synthase activity|metal ion binding				0					Lipoic Acid(DB00166)	TCTTTCTTTAGGTATTTGGGA	0.373													5	186					0.000602214	0.000629355	0.000602	1	0		T	39462409	T	T	39462409	5	4	37	1	0	0	0	0	0	0	1	0	8794	1014	35	5	51	5	LIAS	4	39462409	Splice_Site	SNP	G	TCGA-BR-6566-01A-11D-1800-08	763641	39462409	151691867	243	32488											
CNGA1	1259	broad.mit.edu	37	chr4	47939078	47939078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcacaatcagcaaaaatgCgtaccttttttaatgtgtct	12	15	5	9	1	3	0	2	0	1	0	3	0	3	0	1	0	3	2	1	0	5	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:47939078C>T	uc003gxt.3	-	11	1699	c.1433G>A	c.(1432-1434)CGC>CAC	p.R478H	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.R547H	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	478	Extracellular (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						AGCAAAAATGCGTACCTTTTT	0.378													8	179					0	0	0.00308	0	0		T	47939078	T	T	47939078	3	4	37	1	0	0	0	0	1	0	0	0	3599	768	27	1	643	1	CNGA1	4	47939078	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	8476669	47939078	143215198	244	32489											
PDGFRA	5156	broad.mit.edu	37	chr4	54248502	54248502	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaaatggtgtaccaaaaccGgtaacataaggctttgaaat	17	9	9	6	1	0	1	0	1	0	0	0	2	0	1	2	3	3	3	2	3	8	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:54248502G>A	uc003haa.2	+	4	414	c.228G>A	c.(226-228)CCG>CCA	p.P76P	FIP1L1_uc003gzx.3_Silent_p.P61P|FIP1L1_uc011bzt.1_Silent_p.P76P|FIP1L1_uc003gzy.2_Silent_p.P76P|FIP1L1_uc011bzu.1_Silent_p.P61P|FIP1L1_uc003gzz.2_Silent_p.P61P|FIP1L1_uc003hab.2_Silent_p.P64P|FIP1L1_uc003hac.2_5'UTR	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	TACCAAAACCGGTAACATAAG	0.348			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			6	37					0	0	0.001168	0	0		A	54248502	A	A	54248502	2	1	37	1	0	0	0	0	0	0	0	1	11680	1130	39	1		1	PDGFRA	4	54248502	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6309424	54248502	136905774	245	32490											
STAP1	26228	broad.mit.edu	37	chr4	68459005	68459005	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaaaccttttcagtgtcAttgattattttgtgaaggag	10	16	8	7	0	2	2	2	2	0	0	3	3	3	3	2	1	1	0	2	1	3	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:68459005A>G	uc003hde.3	+	8	839	c.757A>G	c.(757-759)ATT>GTT	p.I253V	STAP1_uc003hdf.2_Missense_Mutation_p.I253V	NM_012108	NP_036240	Q9ULZ2	STAP1_HUMAN	signal transducing adaptor family member 1	253	SH2.				cellular membrane fusion|intracellular protein transport	cytoplasm					0						TTTCAGTGTCATTGATTATTT	0.363													4	113					0	0	0.000602	0	0		G	68459005	G	G	68459005	3	3	37	1	0	0	0	0	1	0	0	0	15277	217	8	3	787	3	STAP1	4	68459005	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	14210503	68459005	122695271	246	32491											
TMPRSS11D	9407	broad.mit.edu	37	chr4	68691524	68691524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggctccattataactatGtggtgcattacatacatcat	12	14	7	8	0	1	0	1	0	0	0	2	1	2	0	1	2	4	2	1	2	5	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:68691524G>A	uc003hdq.2	-	9	1086	c.1021C>T	c.(1021-1023)CAT>TAT	p.H341Y	LOC550112_uc003hdl.3_Intron|TMPRSS11D_uc003hdp.2_Missense_Mutation_p.H122Y|TMPRSS11D_uc011caj.1_Missense_Mutation_p.H224Y	NM_004262	NP_004253	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	341	Peptidase S1.|Extracellular (Potential).				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						TTATAACTATGTGGTGCATTA	0.433													15	50					0	0	0.004007	0	0		A	68691524	A	A	68691524	3	1	37	1	0	0	0	0	1	0	0	0	16266	1377	48	4	243	4	TMPRSS11D	4	68691524	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	232519	68691524	122462752	247	32492											
CCDC158	339965	broad.mit.edu	37	chr4	77283362	77283362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgatgtccttcactgcaCggagccgctcagagcctgca	7	10	11	13	2	2	2	2	1	0	1	3	3	3	3	3	1	4	4	3	1	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:77283362C>T	uc003hkb.3	-	12	2090	c.1937G>A	c.(1936-1938)CGT>CAT	p.R646H		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	646	Potential.									skin(3)|ovary(2)|pancreas(1)	6						CTTCACTGCACGGAGCCGCTC	0.438													29	94					0	0	0.007291	0	0		T	77283362	T	T	77283362	3	4	37	1	0	0	0	0	1	0	0	0	2793	536	19	1	1456	1	CCDC158	4	77283362	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	8591838	77283362	113870914	248	32493											
PRKG2	5593	broad.mit.edu	37	chr4	82063969	82063969	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcaactcttccgaacccAccaacgcccagtgttgcaat	11	8	6	16	2	2	0	1	0	1	0	3	1	3	0	4	0	5	3	4	0	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:82063969A>G	uc003hmh.2	-	10	1400	c.1386T>C	c.(1384-1386)GGT>GGC	p.G462G	PRKG2_uc011ccf.1_Silent_p.G42G|PRKG2_uc011ccg.1_Silent_p.G42G|PRKG2_uc011cch.1_Intron	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	462	Protein kinase.|ATP (By similarity).				platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						TTCCGAACCCACCAACGCCCA	0.438													56	210					0	0	0.01441	0	0		G	82063969	G	G	82063969	2	3	37	1	0	0	0	0	0	0	0	1	12545	146	6	3		3	PRKG2	4	82063969	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	4780607	82063969	109090307	249	32494											
CDS1	1040	broad.mit.edu	37	chr4	85525440	85525440	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagatttggattccagaacAgattctgatattccggaaat	13	12	10	6	1	1	4	0	1	1	3	3	7	3	6	2	3	1	0	2	3	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:85525440A>C	uc011ccv.1	+	2	660	c.162A>C	c.(160-162)ACA>ACC	p.T54T		NM_001263	NP_001254	Q92903	CDS1_HUMAN	CDP-diacylglycerol synthase 1	54					signal transduction|visual perception	endoplasmic reticulum membrane|integral to membrane	diacylglycerol cholinephosphotransferase activity|phosphatidate cytidylyltransferase activity			large_intestine(2)|ovary(1)|breast(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.00101)		ATTCCAGAACAGATTCTGATA	0.353													12	54					0	0	0.013537	0	0		C	85525440	C	C	85525440	2	2	37	1	0	0	0	0	0	0	0	1	3180	175	7	5		5	CDS1	4	85525440	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3461471	85525440	105628836	250	32495											
WDFY3	23001	broad.mit.edu	37	chr4	85605111	85605111	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacccgaaccactccatcTgagtgtcctgtcactatgac	9	11	6	15	1	2	2	1	2	1	0	4	3	4	2	4	0	2	0	4	0	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:85605111T>C	uc003hpd.2	-	63	10119	c.9711A>G	c.(9709-9711)TCA>TCG	p.S3237S	WDFY3_uc003hpc.2_5'Flank	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	3237	WD 4.					cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CCACTCCATCTGAGTGTCCTG	0.453													4	106					0	0	0.001168	0	0		C	85605111	C	C	85605111	2	2	37	1	0	0	0	0	0	0	0	1	17296	1567	55	3		3	WDFY3	4	85605111	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	79671	85605111	105549165	251	32496											
WDFY3	23001	broad.mit.edu	37	chr4	85636503	85636503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagcaaggaggtaattccGtccatctccagagaaaactt	16	8	8	9	1	1	1	0	0	1	1	4	3	3	2	3	2	2	2	3	2	6	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:85636503G>A	uc003hpd.2	-	50	8317	c.7909C>T	c.(7909-7911)CGG>TGG	p.R2637W	WDFY3_uc003hpe.1_Missense_Mutation_p.R248W	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2637						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AGGTAATTCCGTCCATCTCCA	0.333													24	73					0	0	0.003954	0	0		A	85636503	A	A	85636503	3	1	37	1	0	0	0	0	1	0	0	0	17296	1144	40	1	2747	1	WDFY3	4	85636503	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	31392	85636503	105517773	252	32497											
AFF1	4299	broad.mit.edu	37	chr4	88053502	88053502	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagtattctcgtactcttAataaacacttcgagagttct	13	15	5	8	2	3	1	0	0	3	1	5	2	3	1	0	0	2	3	0	0	7	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:88053502A>G	uc003hqj.3	+	18	3639	c.3232A>G	c.(3232-3234)AAT>GAT	p.N1078D	AFF1_uc011ccz.1_Missense_Mutation_p.N1085D|AFF1_uc003hqk.3_Missense_Mutation_p.N1078D|AFF1_uc011cda.1_Missense_Mutation_p.N716D	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1078						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		TCGTACTCTTAATAAACACTT	0.383													12	51					0	0	0.013537	0	0		G	88053502	G	G	88053502	3	3	37	1	0	0	0	0	1	0	0	0	356	362	13	3	3344	3	AFF1	4	88053502	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2416999	88053502	103100774	253	32498											
SNCA	6622	broad.mit.edu	37	chr4	90743423	90743423	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caactggtcctttttgacaaAgccagtggctgctgcaatgc	9	11	10	11	0	0	1	0	1	0	0	1	1	1	1	2	2	5	3	2	2	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:90743423A>C	uc003hsq.2	-	4	539	c.280T>G	c.(280-282)TTT>GTT	p.F94V	SNCA_uc010ikt.2_Missense_Mutation_p.F80V|SNCA_uc003hso.2_Missense_Mutation_p.F94V|SNCA_uc003hsp.2_Missense_Mutation_p.F94V|SNCA_uc003hsr.2_Missense_Mutation_p.F94V	NM_001146054	NP_001139526	P37840	SYUA_HUMAN	alpha-synuclein isoform NACP140	94				Missing: Reduces polymerization into amyloid fibrils.	activation of caspase activity|anti-apoptosis|negative regulation of dopamine uptake|negative regulation of exocytosis|negative regulation of histone acetylation|negative regulation of microtubule polymerization|negative regulation of monooxygenase activity|negative regulation of norepinephrine uptake|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of serotonin uptake|negative regulation of thrombin receptor signaling pathway|negative regulation of transporter activity|positive regulation of endocytosis|positive regulation of inositol phosphate biosynthetic process|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein serine/threonine kinase activity|positive regulation of receptor recycling|positive regulation of release of sequestered calcium ion into cytosol|receptor internalization|regulation of phospholipase activity|response to interferon-gamma|response to interleukin-1|response to iron(II) ion|response to lipopolysaccharide|response to magnesium ion|synaptic vesicle endocytosis	actin cytoskeleton|axon|cell cortex|cell junction|cytosol|fibril|growth cone|nucleus|synapse	alpha-tubulin binding|calcium ion binding|caspase inhibitor activity|dynein binding|ferrous iron binding|histone binding|Hsp70 protein binding|kinesin binding|magnesium ion binding|phosphoprotein binding|tau protein binding|zinc ion binding				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.42e-05)	Melatonin(DB01065)	TTTTTGACAAAGCCAGTGGCT	0.502													5	80					0	0	0.001168	0	0		C	90743423	C	C	90743423	3	2	37	1	0	0	0	0	1	0	0	0	14865	72	3	5	154	5	SNCA	4	90743423	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2689921	90743423	100410853	254	32499											
UNC5C	8633	broad.mit.edu	37	chr4	96140152	96140152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caataaggtgacctcccagcGagttgaagctgccaaatgcg	12	7	11	11	2	0	2	0	2	0	0	1	3	1	2	3	1	4	2	3	1	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:96140152G>A	uc003htp.1	-	9	1767	c.1613C>T	c.(1612-1614)TCG>TTG	p.S538L	UNC5C_uc010ilc.1_Missense_Mutation_p.S557L|UNC5C_uc003htq.2_Missense_Mutation_p.S557L	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	538	Cytoplasmic (Potential).|ZU5.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		ACCTCCCAGCGAGTTGAAGCT	0.443													18	70					0	0	0.008871	0	0		A	96140152	A	A	96140152	3	1	37	1	0	0	0	0	1	0	0	0	17019	1059	37	1	1214	1	UNC5C	4	96140152	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5396729	96140152	95014124	255	32500											
MANBA	4126	broad.mit.edu	37	chr4	103557139	103557139	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattctgagcaaagtaatgAagcattttccactttcctcc	13	13	5	10	0	1	2	0	2	1	0	4	2	4	2	3	0	2	3	3	0	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:103557139A>G	uc003hwg.2	-	15	2140	c.2040T>C	c.(2038-2040)CTT>CTC	p.L680L	MANBA_uc011ces.1_Silent_p.L623L	NM_005908	NP_005899	O00462	MANBA_HUMAN	mannosidase, beta A, lysosomal precursor	680					carbohydrate metabolic process|protein modification process	lysosome	beta-mannosidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;4.44e-08)		CAAAGTAATGAAGCATTTTCC	0.438													9	42					0	0	0.006214	0	0		G	103557139	G	G	103557139	2	3	37	1	0	0	0	0	0	0	0	1	9237	233	9	3		3	MANBA	4	103557139	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	7416987	103557139	87597137	256	32501											
COL25A1	84570	broad.mit.edu	37	chr4	109740459	109740459	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggctggcctggctccccTttttcccccttaacgccacg	4	10	8	19	2	0	0	0	0	0	0	2	0	2	0	7	3	1	2	7	3	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:109740459T>C	uc003hze.1	-	35	2403	c.1872A>G	c.(1870-1872)AAA>AAG	p.K624K	COL25A1_uc003hzd.2_Intron	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	624	Extracellular (Potential).|Collagen-like 7.					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		CTGGCTCCCCTTTTTCCCCCT	0.453													11	79					0	0	0.013537	0	0		C	109740459	C	C	109740459	2	2	37	1	0	0	0	0	0	0	0	1	3687	1606	56	3		3	COL25A1	4	109740459	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	6183320	109740459	81413817	257	32502											
AP1AR	55435	broad.mit.edu	37	chr4	113189433	113189433	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgattccaatgggctggaGtgggaaaatgattttgttag	11	13	14	3	0	0	2	0	2	0	0	1	5	1	4	1	3	0	2	1	3	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:113189433G>A	uc003iaj.3	+	10	1130	c.777G>A	c.(775-777)GAG>GAA	p.E259E	AP1AR_uc003iak.3_Silent_p.E226E	NM_018569	NP_061039	Q63HQ0	AP1AR_HUMAN	adaptor-related protein complex 1 associated	259					protein transport	early endosome|Golgi apparatus|late endosome|transport vesicle					0						ATGGGCTGGAGTGGGAAAATG	0.403													8	51					0	0	0.00308	0	0		A	113189433	A	A	113189433	2	1	37	1	0	0	0	0	0	0	0	1	730	1020	36	4		4	AP1AR	4	113189433	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3448974	113189433	77964843	258	32503											
ANK2	287	broad.mit.edu	37	chr4	114277090	114277090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccacaaagactctctggaagCcagccctgtgctagaagata	13	7	9	12	0	1	3	0	0	1	3	2	4	1	4	3	1	3	1	3	1	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:114277090C>T	uc003ibe.3	+	38	7416	c.7316C>T	c.(7315-7317)GCC>GTC	p.A2439V	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Intron|ANK2_uc011cgb.1_Missense_Mutation_p.A2454V	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2406					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TCTCTGGAAGCCAGCCCTGTG	0.527													17	73					0	0	0.00499	0	0		T	114277090	T	T	114277090	3	4	37	1	0	0	0	0	1	0	0	0	621	739	26	2	7531	2	ANK2	4	114277090	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1087657	114277090	76877186	259	32504											
PRSS12	8492	broad.mit.edu	37	chr4	119204068	119204068	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtggtaaacaggctggcaaAacatggctgctgaatctggc	12	8	13	8	0	1	1	0	1	1	0	1	1	1	1	0	5	3	5	0	5	5	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:119204068A>C	uc003ica.1	-	12	2285	c.2238T>G	c.(2236-2238)GTT>GTG	p.V746V		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	746	Peptidase S1.					membrane	scavenger receptor activity			skin(1)	1						AGGCTGGCAAAACATGGCTGC	0.473													5	316					0	0	0.000602	0	0		C	119204068	C	C	119204068	2	2	37	1	0	0	0	0	0	0	0	1	12637	1	1	5		5	PRSS12	4	119204068	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	4926978	119204068	71950208	260	32505											
KIAA1109	84162	broad.mit.edu	37	chr4	123120577	123120577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactaccagcatgcaatatcGgacccttttagaagcagaaa	15	8	7	11	1	0	2	0	0	0	2	1	3	0	3	2	1	4	3	2	1	6	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:123120577G>A	uc003ieh.2	+	12	1397	c.1352G>A	c.(1351-1353)CGG>CAG	p.R451Q	KIAA1109_uc003iei.1_Missense_Mutation_p.R205Q|KIAA1109_uc010ins.1_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	451					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ATGCAATATCGGACCCTTTTA	0.318													4	65					0	0	0.000602	0	0		A	123120577	A	A	123120577	3	1	37	1	0	0	0	0	1	0	0	0	8224	1116	39	1	1398	1	KIAA1109	4	123120577	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3916509	123120577	68033699	261	32506											
KIAA1109	84162	broad.mit.edu	37	chr4	123159371	123159371	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagttcatcctcttcctcAgaagagaacagtagttctag	12	12	7	10	0	4	2	2	0	2	2	6	3	6	2	2	0	1	3	2	0	5	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:123159371A>G	uc003ieh.2	+	26	3744	c.3699A>G	c.(3697-3699)TCA>TCG	p.S1233S	KIAA1109_uc003iei.1_Silent_p.S986S|KIAA1109_uc010ins.1_Silent_p.S576S|KIAA1109_uc003iek.2_5'Flank	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1233	Poly-Ser.				regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CCTCTTCCTCAGAAGAGAACA	0.408													6	83					0	0	0.001168	0	0		G	123159371	G	G	123159371	2	3	37	1	0	0	0	0	0	0	0	1	8224	175	7	3		3	KIAA1109	4	123159371	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	38794	123159371	67994905	262	32507											
FAT4	79633	broad.mit.edu	37	chr4	126238469	126238469	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttccaaatggaccctgaGacgggacttatcacggtgcg	9	8	11	13	3	1	1	1	1	0	1	2	4	2	3	3	3	1	0	3	3	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:126238469G>T	uc003ifj.3	+	1	903	c.903G>T	c.(901-903)GAG>GAT	p.E301D		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	301	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGGACCCTGAGACGGGACTTA	0.667											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	46					5.16669e-11	5.80426e-11	0.010729	1	0		T	126238469	T	T	126238469	3	4	37	1	0	0	0	0	1	0	0	0	5706	933	33	5	905	5	FAT4	4	126238469	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3079098	126238469	64915807	263	32508											
FAT4	79633	broad.mit.edu	37	chr4	126320048	126320048	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctctaagattatgcagcTgacagccatggatgctgatg	10	11	12	8	0	1	3	0	2	1	1	1	4	1	4	1	2	4	4	1	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:126320048T>C	uc003ifj.3	+	2	5285	c.5285T>C	c.(5284-5286)CTG>CCG	p.L1762P	FAT4_uc011cgp.1_Missense_Mutation_p.L60P	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1762	Cadherin 17.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ATTATGCAGCTGACAGCCATG	0.423													25	103					0	0	0.007291	0	0		C	126320048	C	C	126320048	3	2	37	1	0	0	0	0	1	0	0	0	5706	1580	55	3	5291	3	FAT4	4	126320048	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	81579	126320048	64834228	264	32509											
FAT4	79633	broad.mit.edu	37	chr4	126329902	126329902	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttaatggagaatctacCtgtgggatctactgttcttg	9	16	9	7	0	4	1	0	0	4	1	4	3	4	2	1	2	2	1	1	2	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:126329902C>A	uc003ifj.3	+	4	5873	c.5873C>A	c.(5872-5874)CCT>CAT	p.P1958H	FAT4_uc011cgp.1_Missense_Mutation_p.P256H	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1958	Cadherin 19.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAGAATCTACCTGTGGGATCT	0.289													15	100					5.03518e-11	5.66689e-11	0.007413	1	0		A	126329902	A	A	126329902	3	1	37	1	0	0	0	0	1	0	0	0	5706	681	24	5	5887	5	FAT4	4	126329902	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	9854	126329902	64824374	265	32510											
FAT4	79633	broad.mit.edu	37	chr4	126371861	126371861	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaacaaatgctgtgattgcGtatactgtacagtcatctga	12	12	10	7	1	2	2	1	2	1	0	2	3	2	3	0	1	5	3	0	1	5	4	rs142877205	by1000genomes	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:126371861G>A	uc003ifj.3	+	9	9690	c.9690G>A	c.(9688-9690)GCG>GCA	p.A3230A	FAT4_uc011cgp.1_Silent_p.A1528A|FAT4_uc003ifi.1_Silent_p.A708A	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3230	Cadherin 31.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTGTGATTGCGTATACTGTAC	0.428													11	50					0	0	0.001855	0	0		A	126371861	A	A	126371861	2	1	37	1	0	0	0	0	0	0	0	1	5706	1132	40	1		1	FAT4	4	126371861	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	41959	126371861	64782415	266	32511											
HSPA4L	22824	broad.mit.edu	37	chr4	128748490	128748490	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctattcaaatgaagtacAtggagcatgaagagagacca	17	7	10	7	0	1	4	1	2	0	2	1	6	1	5	2	1	3	2	2	1	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:128748490A>G	uc003ifm.2	+	17	2330	c.2077A>G	c.(2077-2079)ATG>GTG	p.M693V	HSPA4L_uc011cgr.1_Missense_Mutation_p.M660V	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	693					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						AATGAAGTACATGGAGCATGA	0.323													5	71					0	0	0.00308	0	0		G	128748490	G	G	128748490	3	3	37	1	0	0	0	0	1	0	0	0	7429	217	8	3	2143	3	HSPA4L	4	128748490	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2376629	128748490	62405786	267	32512											
PHF17	79960	broad.mit.edu	37	chr4	129783281	129783281	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcaacaagcccctgatcacCccaaagaaagatgaagagga	17	5	8	11	0	2	5	2	2	0	3	2	6	2	6	4	1	2	0	4	1	5	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:129783281C>A	uc003igk.2	+	9	1684	c.1404C>A	c.(1402-1404)ACC>ACA	p.T468T	PHF17_uc003igj.2_Silent_p.T468T|PHF17_uc003igl.2_Silent_p.T456T|PHF17_uc011cgy.1_Silent_p.T468T|PHF17_uc003igm.2_Silent_p.T468T	NM_199320	NP_955352	Q6IE81	JADE1_HUMAN	PHD finger protein 17 long isoform	468					apoptosis|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell growth|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	histone acetyltransferase complex|mitochondrion	protein binding|zinc ion binding				0						CCCTGATCACCCCAAAGAAAG	0.537													4	112					1.23904e-05	1.32531e-05	0.000602	1	0		A	129783281	A	A	129783281	2	1	37	1	0	0	0	0	0	0	0	1	11847	610	22	5		5	PHF17	4	129783281	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1034791	129783281	61370995	268	32513											
CCRN4L	25819	broad.mit.edu	37	chr4	139966465	139966465	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcaggcacaccctggattAcatctggtattctaaacatg	11	11	9	10	0	2	0	0	0	2	0	2	1	2	1	1	3	3	3	1	3	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:139966465A>G	uc003ihl.2	+	3	1326	c.1133A>G	c.(1132-1134)TAC>TGC	p.Y378C		NM_012118	NP_036250	Q9UK39	NOCT_HUMAN	CCR4 carbon catabolite repression 4-like	378					rhythmic process|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_hematologic(180;0.162)					ACCCTGGATTACATCTGGTAT	0.498													3	87					0	0	0.004672	0	0		G	139966465	G	G	139966465	3	3	37	1	0	0	0	0	1	0	0	0	2954	391	14	3	1143	3	CCRN4L	4	139966465	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	10183184	139966465	51187811	269	32514											
HHIP	64399	broad.mit.edu	37	chr4	145629358	145629358	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacggctggatgtggacaCagacatgtgcaacgtgcctt	9	9	13	10	2	0	1	0	0	0	1	0	3	0	3	1	3	4	3	1	3	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:145629358C>G	uc003ijs.1	+	7	1851	c.1196C>G	c.(1195-1197)ACA>AGA	p.T399R		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	399						cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		GATGTGGACACAGACATGTGC	0.463													12	57					0	0	0.001855	0	0		G	145629358	G	G	145629358	3	3	37	1	0	0	0	0	1	0	0	0	7108	478	17	5	1222	5	HHIP	4	145629358	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5662893	145629358	45524918	270	32515											
ABCE1	6059	broad.mit.edu	37	chr4	146041224	146041224	+	Frame_Shift_Del	DEL	A	-	-																															ataaatatccaggaatgaagAaaaaaatgggagaatttgag																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:146041224delA	uc003ijx.2	+	11	1503	c.1063delA	c.(1063-1065)AAAfs	p.K355fs	ABCE1_uc003ijy.2_Frame_Shift_Del_p.K355fs|ABCE1_uc010iot.2_RNA	NM_001040876	NP_001035809	P61221	ABCE1_HUMAN	ATP-binding cassette, sub-family E, member 1	355	ABC transporter 2.				interspecies interaction between organisms|response to virus|RNA catabolic process	mitochondrion	ATP binding|ATPase activity|electron carrier activity|iron-sulfur cluster binding|ribonuclease inhibitor activity			skin(1)	1	all_hematologic(180;0.151)					AGGAATGAAGAAAAAAATGGG	0.353													20	46	---	---	---	---						.	-	146041224	-	-	146041224	7	5	37	1	0	1	0	1	0	0	0	0	64	247	9	0	1101	0	ABCE1	4	146041224	Frame_Shift_Del	DEL	A	TCGA-BR-6566-01A-11D-1800-08	411866	146041224	45113052	271	32516											
NR3C2	4306	broad.mit.edu	37	chr4	149035413	149035413	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgaggccatcctttggaaCtgtgttaaggaaaacagaca	13	11	10	7	0	0	2	0	1	0	1	1	4	1	4	2	3	2	1	2	3	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:149035413C>A	uc003ilj.3	-	8	2976	c.2642_splice	c.e8-1	p.I881_splice	NR3C2_uc003ilk.3_Splice_Site_p.I764_splice|NR3C2_uc010iph.2_Splice_Site	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2						regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	TCCTTTGGAACTGTGTTAAGG	0.373													3	28					0.00024832	0.000262187	0.009096	1	0		A	149035413	A	A	149035413	5	1	37	1	0	0	0	0	0	0	1	0	10650	579	20	5	321	5	NR3C2	4	149035413	Splice_Site	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2994189	149035413	42118863	272	32517											
TKTL2	84076	broad.mit.edu	37	chr4	164394017	164394017	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcttccacaggcgatttTggtatgagattctcattggt	8	15	11	7	1	2	1	1	1	2	1	4	4	3	1	1	3	0	1	1	3	1	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:164394017T>C	uc003iqp.3	-	1	1031	c.870A>G	c.(868-870)CCA>CCG	p.P290P		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	290						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				CAGGCGATTTTGGTATGAGAT	0.284													42	152					0	0	0.010771	0	0		C	164394017	C	C	164394017	2	2	37	1	0	0	0	0	0	0	0	1	15961	1799	63	3		3	TKTL2	4	164394017	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	15358604	164394017	26760259	273	32518											
ADAM29	11086	broad.mit.edu	37	chr4	175898280	175898280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgaccgtgttggtcactgtgGtatcaaaaatgctacatata	12	13	9	7	1	2	1	2	1	0	0	2	1	2	1	1	2	2	3	1	2	6	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:175898280G>A	uc003iuc.2	+	5	2274	c.1604G>A	c.(1603-1605)GGT>GAT	p.G535D	ADAM29_uc003iud.2_Missense_Mutation_p.G535D|ADAM29_uc010irr.2_Missense_Mutation_p.G535D|ADAM29_uc011cki.1_Missense_Mutation_p.G535D	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	535	Cys-rich.|Extracellular (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		GGTCACTGTGGTATCAAAAAT	0.393													16	71					0	0	0.004007	0	0		A	175898280	A	A	175898280	3	1	37	1	0	0	0	0	1	0	0	0	247	1261	44	4	1606	4	ADAM29	4	175898280	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	11504263	175898280	15255996	274	32519											
ODZ3	55714	broad.mit.edu	37	chr4	183658156	183658156	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtttcctgcctcaccaaacTtggcctatactttcatatgg	8	14	7	12	0	2	0	2	0	0	0	3	0	3	0	4	3	3	1	4	3	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:183658156T>G	uc003ivd.1	+	16	3200	c.3163T>G	c.(3163-3165)TTG>GTG	p.L1055V	ODZ3_uc003ive.1_Missense_Mutation_p.L461V	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1055	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CTCACCAAACTTGGCCTATAC	0.373													38	130					0	0	0.004878	0	0		G	183658156	G	G	183658156	3	3	37	1	0	0	0	0	1	0	0	0	10855	1606	56	5	3225	5	ODZ3	4	183658156	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	7759876	183658156	7496120	275	32520											
MTNR1A	4543	broad.mit.edu	37	chr4	187455686	187455686	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccaccaggtctgccacCgctaagctcaccacaaagat	12	5	7	17	1	2	1	1	0	1	1	2	1	2	1	6	1	2	2	6	1	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:187455686C>T	uc003izd.1	-	2	228	c.210G>A	c.(208-210)GCG>GCA	p.A70A		NM_005958	NP_005949	P48039	MTR1A_HUMAN	melatonin receptor 1A	70	Helical; Name=2; (Potential).				circadian rhythm|G-protein signaling, coupled to cyclic nucleotide second messenger|mating behavior	integral to plasma membrane	melatonin receptor activity			ovary(1)|skin(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5		all_cancers(14;6.39e-56)|all_epithelial(14;1.48e-41)|all_lung(41;2.45e-15)|Lung NSC(41;7.26e-15)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00335)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|Renal(120;0.0183)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;7.63e-12)|BRCA - Breast invasive adenocarcinoma(30;6.68e-07)|GBM - Glioblastoma multiforme(59;3.44e-05)|LUSC - Lung squamous cell carcinoma(40;0.000106)|STAD - Stomach adenocarcinoma(60;0.000279)|READ - Rectum adenocarcinoma(43;0.159)	Melatonin(DB01065)|Ramelteon(DB00980)	GGTCTGCCACCGCTAAGCTCA	0.458													8	61					0	0	0.00308	0	0		T	187455686	T	T	187455686	2	4	37	1	0	0	0	0	0	0	0	1	9969	639	23	1		1	MTNR1A	4	187455686	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3797530	187455686	3698590	276	32521											
SLC12A7	10723	broad.mit.edu	37	chr5	1052501	1052501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagatggtgatcacctcccGgccgccacccctgaccagga	8	6	11	16	2	1	3	1	2	0	1	2	4	2	4	7	3	0	1	7	3	1	1	rs145103734		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:1052501G>A	uc003jbu.2	-	24	3292	c.3226C>T	c.(3226-3228)CGG>TGG	p.R1076W		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	1076	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	ATCACCTCCCGGCCGCCACCC	0.607													30	118					0	0	0.009535	0	0		A	1052501	A	A	1052501	3	1	37	1	0	0	0	0	1	0	0	0	14413	1115	39	1	29	1	SLC12A7	5	1052501	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08		1052501	179862759	277	32522											
SLC12A7	10723	broad.mit.edu	37	chr5	1081737	1081737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaccagcagggtgaaggaggCcgcgatgtcggtgagcacgt	10	5	17	9	4	0	2	0	2	0	0	1	4	0	3	2	4	3	2	2	4	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:1081737C>T	uc003jbu.2	-	9	1318	c.1252G>A	c.(1252-1254)GCC>ACC	p.A418T		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	418	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	GTGAAGGAGGCCGCGATGTCG	0.552													13	78					0	0	0.00499	0	0		T	1081737	T	T	1081737	3	4	37	1	0	0	0	0	1	0	0	0	14413	739	26	2	2063	2	SLC12A7	5	1081737	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	29236	1081737	179833523	278	32523											
SLC6A19	340024	broad.mit.edu	37	chr5	1212545	1212545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgctgctgtgcctggcctgCgcatggagcgtcctgtacat	5	11	13	12	2	0	0	0	0	0	0	1	1	1	1	3	2	6	4	3	2	1	1	rs149582176		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:1212545C>T	uc003jbw.3	+	4	665	c.609C>T	c.(607-609)TGC>TGT	p.C203C		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	203	Helical; Name=4; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GCCTGGCCTGCGCATGGAGCG	0.642													21	119					0	0	0.00278	0	0		T	1212545	T	T	1212545	2	4	37	1	0	0	0	0	0	0	0	1	14707	776	27	1		1	SLC6A19	5	1212545	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	130808	1212545	179702715	279	32524											
FASTKD3	79072	broad.mit.edu	37	chr5	7861317	7861317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgtttaatagcttctttcCccagtaagtgtttgctattg	7	20	7	7	0	1	0	0	0	1	0	2	0	2	0	2	0	2	5	2	0	4	10			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:7861317C>T	uc003jeb.2	-	6	1966	c.1829G>A	c.(1828-1830)GGG>GAG	p.G610E	FASTKD3_uc011cmp.1_Missense_Mutation_p.G312E|FASTKD3_uc003jec.2_RNA	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	610	RAP.				apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						AGCTTCTTTCCCCAGTAAGTG	0.323													6	69					0	0	0.001168	0	0		T	7861317	T	T	7861317	3	4	37	1	0	0	0	0	1	0	0	0	5701	623	22	4	167	4	FASTKD3	5	7861317	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	6648772	7861317	173053943	280	32525											
FASTKD3	79072	broad.mit.edu	37	chr5	7868079	7868079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacaaccaagggcacagacGctccttgactaccttgtgaa	13	7	8	13	1	0	3	0	2	0	1	1	3	1	3	3	1	2	2	3	1	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:7868079G>A	uc003jeb.2	-	2	255	c.118C>T	c.(118-120)CGT>TGT	p.R40C	FASTKD3_uc011cmp.1_5'UTR|FASTKD3_uc003jec.2_Intron|MTRR_uc010itn.1_5'Flank|MTRR_uc003jee.3_5'Flank|MTRR_uc003jed.2_5'Flank|MTRR_uc003jef.3_5'Flank|MTRR_uc003jeg.3_5'Flank|MTRR_uc010ito.2_5'Flank	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	40					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						GGGCACAGACGCTCCTTGACT	0.408													24	97					0	0	0.004656	0	0		A	7868079	A	A	7868079	3	1	37	1	0	0	0	0	1	0	0	0	5701	1087	38	1	1894	1	FASTKD3	5	7868079	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6762	7868079	173047181	281	32526											
SEMA5A	9037	broad.mit.edu	37	chr5	9054362	9054362	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaccagcaagaccacacGccatccactgtgaagaaaca	15	3	10	13	1	0	3	0	1	0	2	1	4	1	4	4	2	2	1	4	2	3	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:9054362G>A	uc003jek.2	-	19	3238	c.2526C>T	c.(2524-2526)GGC>GGT	p.G842G		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	842	TSP type-1 6.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						AAGACCACACGCCATCCACTG	0.493													6	36					0	0	0.00308	0	0		A	9054362	A	A	9054362	2	1	37	1	0	0	0	0	0	0	0	1	14062	1074	38	1		1	SEMA5A	5	9054362	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1186283	9054362	171860898	282	32527											
DNAH5	1767	broad.mit.edu	37	chr5	13700841	13700841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcatgttcctcttgtcccagCcagcaccttcaagatataag	10	12	6	13	0	3	1	2	0	1	1	5	1	5	1	4	0	2	2	4	0	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:13700841C>T	uc003jfd.2	-	78	13673	c.13631G>A	c.(13630-13632)GGC>GAC	p.G4544D	DNAH5_uc003jfc.2_Missense_Mutation_p.G712D	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4544					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CTTGTCCCAGCCAGCACCTTC	0.428									Kartagener_syndrome				36	143					0	0	0.004878	0	0		T	13700841	T	T	13700841	3	4	37	1	0	0	0	0	1	0	0	0	4610	739	26	2	251	2	DNAH5	5	13700841	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4646479	13700841	167214419	283	32528											
PTGER4	5734	broad.mit.edu	37	chr5	40692308	40692308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaagacaccacctcactgaGgactttgcgaatatcagaga	14	7	10	10	1	2	3	2	1	0	2	2	7	2	5	2	2	1	0	2	2	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:40692308G>A	uc003jlz.2	+	3	1887	c.1295G>A	c.(1294-1296)AGG>AAG	p.R432K		NM_000958	NP_000949	P35408	PE2R4_HUMAN	prostaglandin E receptor 4, subtype EP4	432	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|immune response	integral to membrane|plasma membrane	prostaglandin E receptor activity			lung(2)	2						ACCTCACTGAGGACTTTGCGA	0.577													3	53					0	0	0.004672	0	0		A	40692308	A	A	40692308	3	1	37	1	0	0	0	0	1	0	0	0	12768	1000	35	4	1301	4	PTGER4	5	40692308	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	26991467	40692308	140222952	284	32529											
MIER3	166968	broad.mit.edu	37	chr5	56219756	56219756	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttacgtaactccagggtgAtggttatatctttttttccc	8	17	7	9	1	1	1	0	1	1	0	3	1	3	1	2	2	2	2	2	2	4	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:56219756A>G	uc003jrd.1	-	11	1063	c.1038T>C	c.(1036-1038)CAT>CAC	p.H346H	MIER3_uc003jqz.1_Silent_p.H283H|MIER3_uc003jra.1_Silent_p.H345H|MIER3_uc003jrb.1_Silent_p.H170H|MIER3_uc003jrc.1_Silent_p.H351H	NM_152622	NP_689835	Q7Z3K6	MIER3_HUMAN	mesoderm induction early response 1, family	346					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Lung NSC(810;4.65e-05)|Prostate(74;0.0253)|Breast(144;0.0503)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;1.24e-37)		CTCCAGGGTGATGGTTATATC	0.368													18	75					0	0	0.007413	0	0		G	56219756	G	G	56219756	2	3	37	1	0	0	0	0	0	0	0	1	9600	330	12	3		3	MIER3	5	56219756	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	15527448	56219756	124695504	285	32530											
CD180	4064	broad.mit.edu	37	chr5	66478959	66478959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggttatgacttaaattaatgGtgctctgctgggacaagata	12	13	11	5	0	1	2	0	1	1	1	1	3	1	3	0	3	2	3	0	3	6	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:66478959G>A	uc003juy.2	-	3	1860	c.1712C>T	c.(1711-1713)ACC>ATC	p.T571I		NM_005582	NP_005573	Q99467	CD180_HUMAN	CD180 molecule precursor	571	Extracellular (Potential).				inflammatory response|innate immune response	integral to membrane|plasma membrane	receptor activity			ovary(1)	1		Lung NSC(167;4.94e-05)|Prostate(74;0.00601)|Ovarian(174;0.0654)|Breast(144;0.198)|Colorectal(97;0.234)		Lung(70;0.0046)		TAAATTAATGGTGCTCTGCTG	0.453													7	52					0	0	0.00308	0	0		A	66478959	A	A	66478959	3	1	37	1	0	0	0	0	1	0	0	0	2975	1261	44	4	277	4	CD180	5	66478959	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	10259203	66478959	114436301	286	32531											
CD180	4064	broad.mit.edu	37	chr5	66480342	66480342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccatgaatatcaggggatttCcagttaacacaagtgtgctt	12	12	9	8	0	1	1	1	1	0	0	2	2	2	2	2	2	2	2	2	2	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:66480342C>T	uc003juy.2	-	3	477	c.329G>A	c.(328-330)GGA>GAA	p.G110E		NM_005582	NP_005573	Q99467	CD180_HUMAN	CD180 molecule precursor	110	LRR 3.|Extracellular (Potential).				inflammatory response|innate immune response	integral to membrane|plasma membrane	receptor activity			ovary(1)	1		Lung NSC(167;4.94e-05)|Prostate(74;0.00601)|Ovarian(174;0.0654)|Breast(144;0.198)|Colorectal(97;0.234)		Lung(70;0.0046)		CAGGGGATTTCCAGTTAACAC	0.368													5	102					0	0	0.000602	0	0		T	66480342	T	T	66480342	3	4	37	1	0	0	0	0	1	0	0	0	2975	855	30	4	1660	4	CD180	5	66480342	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1383	66480342	114434918	287	32532											
RASA1	5921	broad.mit.edu	37	chr5	86672770	86672770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacaagaccgaacactactgGccagcatcctactgaggatt	13	7	9	12	1	0	2	0	1	0	1	1	5	1	3	3	2	4	1	3	2	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:86672770G>A	uc003kiw.2	+	17	2375	c.2257G>A	c.(2257-2259)GCC>ACC	p.A753T	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Missense_Mutation_p.A576T|RASA1_uc011ctv.1_Missense_Mutation_p.A586T|RASA1_uc011ctw.1_Missense_Mutation_p.A587T|RASA1_uc010jaw.2_Missense_Mutation_p.A575T	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	753	Ras-GAP.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		AACACTACTGGCCAGCATCCT	0.373													5	71					0	0	0.001168	0	0		A	86672770	A	A	86672770	3	1	37	1	0	0	0	0	1	0	0	0	13085	1203	42	2	2335	2	RASA1	5	86672770	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	20192428	86672770	94242490	288	32533											
APC	324	broad.mit.edu	37	chr5	112178333	112178333	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattatctcaacttccaaggAcatcatcccctagtactgct	12	12	4	13	0	2	0	2	0	1	0	5	1	4	1	3	1	3	2	3	1	6	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:112178333A>G	uc010jby.2	+	16	7422	c.7042A>G	c.(7042-7044)ACA>GCA	p.T2348A	APC_uc011cvt.1_Missense_Mutation_p.T2330A|APC_uc003kpz.3_Missense_Mutation_p.T2348A|APC_uc003kpy.3_Missense_Mutation_p.T2348A|APC_uc010jbz.2_Missense_Mutation_p.T2065A|APC_uc010jca.2_Missense_Mutation_p.T1648A	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	2348	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		ACTTCCAAGGACATCATCCCC	0.423		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			3	88					0	0	0.004672	0	0		G	112178333	G	G	112178333	3	3	37	1	0	0	0	0	1	0	0	0	763	275	10	3	7100	3	APC	5	112178333	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	25505563	112178333	68736927	289	32534											
SRP19	6728	broad.mit.edu	37	chr5	112227455	112227455	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaaacgtcggcaggaacTtgctcgactgagagactcag	14	6	12	9	3	1	3	1	1	0	2	3	6	1	4	0	2	3	2	0	2	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:112227455T>G	uc011cvv.1	+	4	449	c.194T>G	c.(193-195)CTT>CGT	p.L65R	SRP19_uc011cvu.1_Missense_Mutation_p.L50R|REEP5_uc011cvw.1_Intron|REEP5_uc003kqe.1_Intron|REEP5_uc011cvx.1_Intron|REEP5_uc011cvy.1_Intron|REEP5_uc011cvz.1_Intron			P09132	SRP19_HUMAN	SubName: Full=Zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 2;	Error:Variant_position_missing_in_P09132_after_alignment					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|mitochondrion|nucleolus|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding				0		all_cancers(142;0.00328)|all_epithelial(76;6.39e-05)|Prostate(80;0.00174)|Colorectal(10;0.00372)|Ovarian(225;0.156)		Epithelial(69;1.7e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.17e-08)|all cancers(49;3.96e-07)|Colorectal(14;0.0056)|COAD - Colon adenocarcinoma(37;0.0104)		CGGCAGGAACTTGCTCGACTG	0.463													19	53					0	0	0.008871	0	0		G	112227455	G	G	112227455	3	3	37	1	0	0	0	0	1	0	0	0	15179	1624	56	5		5	SRP19	5	112227455	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	49122	112227455	68687805	290	32535											
CDKL3	51265	broad.mit.edu	37	chr5	133644013	133644013	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagttttgtatctggagacaTaggatgaacattttcatttg	12	16	9	4	0	2	2	1	1	1	1	2	4	2	3	0	2	1	2	0	2	4	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:133644013T>C	uc003kzf.3	-	9	1299	c.1180A>G	c.(1180-1182)ATG>GTG	p.M394V	CDKL3_uc011cxm.1_Missense_Mutation_p.M201V|CDKL3_uc011cxn.1_RNA|CDKL3_uc010jdw.2_Missense_Mutation_p.M1V|CDKL3_uc011cxo.1_Missense_Mutation_p.M99V|CDKL3_uc011cxp.1_Missense_Mutation_p.M99V|CDKL3_uc011cxq.1_Missense_Mutation_p.M201V|CDKL3_uc003kzg.3_Missense_Mutation_p.M394V	NM_001113575	NP_001107047	Q8IVW4	CDKL3_HUMAN	cyclin-dependent kinase-like 3 isoform 1	394						cytoplasm	ATP binding|cyclin-dependent protein kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCTGGAGACATAGGATGAACA	0.393													4	73					0	0	0.000602	0	0		C	133644013	C	C	133644013	3	2	37	1	0	0	0	0	1	0	0	0	3158	1406	49	3	622	3	CDKL3	5	133644013	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	21416558	133644013	47271247	291	32536											
PCDHA6	56142	broad.mit.edu	37	chr5	140209182	140209182	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcggcgggtgggcgagcgCgcgttgtcgagctacatttc	5	8	18	10	7	0	0	0	0	0	0	2	3	0	0	0	3	4	2	0	3	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140209182C>T	uc003lho.2	+	1	1533	c.1506C>T	c.(1504-1506)CGC>CGT	p.R502R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.R502R|PCDHA6_uc011dab.1_Silent_p.R502R	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	502	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGCGAGCGCGCGTTGTCGA	0.672													4	107					0	0	0.009096	0	0		T	140209182	T	T	140209182	2	4	37	1	0	0	0	0	0	0	0	1	11547	755	27	1		1	PCDHA6	5	140209182	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	6565169	140209182	40706078	292	32537											
PCDHA7	56141	broad.mit.edu	37	chr5	140214268	140214268	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctgtgcgggcggagcgcGgagtgcagcatccacctgga	7	5	18	11	4	0	0	0	0	0	0	1	4	1	3	2	4	5	3	2	4	0	0	rs151308899		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140214268G>A	uc003lhq.2	+	1	300	c.300G>A	c.(298-300)GCG>GCA	p.A100A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.A100A	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	100	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGGAGCGCGGAGTGCAGCA	0.557													12	396					0	0	0.00499	0	0		A	140214268	A	A	140214268	2	1	37	1	0	0	0	0	0	0	0	1	11548	1103	39	1		1	PCDHA7	5	140214268	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5086	140214268	40700992	293	32538											
PCDHA8	56140	broad.mit.edu	37	chr5	140223021	140223021	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctgatcatcgccatctgCgcggtatccagcctgctggt	6	11	10	14	3	2	1	1	1	1	0	4	1	3	1	4	2	4	2	4	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140223021C>T	uc003lhs.2	+	1	2115	c.2115C>T	c.(2113-2115)TGC>TGT	p.C705C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.C705C	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	705	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGCCATCTGCGCGGTATCCA	0.662													43	31					0	0	0.009718	0	0		T	140223021	T	T	140223021	2	4	37	1	0	0	0	0	0	0	0	1	11549	776	27	1		1	PCDHA8	5	140223021	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	8753	140223021	40692239	294	32539											
PCDHA11	56138	broad.mit.edu	37	chr5	140250465	140250465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggccacgtggtggcgaagGtgcgcgcagtggatgcggac	6	5	20	10	6	0	0	0	0	0	0	0	3	0	2	1	6	2	1	1	6	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140250465G>A	uc003lia.2	+	1	2635	c.1777G>A	c.(1777-1779)GTG>ATG	p.V593M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.V593M	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	593	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGGCGAAGGTGCGCGCAGT	0.682													39	139					0	0	0.007835	0	0		A	140250465	A	A	140250465	3	1	37	1	0	0	0	0	1	0	0	0	11540	1261	44	4	1779	4	PCDHA11	5	140250465	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	27444	140250465	40664795	295	32540											
PCDHB13	56123	broad.mit.edu	37	chr5	140595915	140595915	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcatcttgtggacatgagCggcaccaggaccctatccca	9	7	12	13	1	1	1	0	1	1	0	2	3	2	3	3	4	1	2	3	4	1	2	rs141051000		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140595915C>T	uc003lja.1	+	1	2407	c.2220C>T	c.(2218-2220)AGC>AGT	p.S740S		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	740	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGACATGAGCGGCACCAGGA	0.617													8	188					0	0	0.00308	0	0		T	140595915	T	T	140595915	2	4	37	1	0	0	0	0	0	0	0	1	11557	767	27	1		1	PCDHB13	5	140595915	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	345450	140595915	40319345	296	32541											
PCDHGA5	56110	broad.mit.edu	37	chr5	140746310	140746310	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaaacaaagaagaacggCgagttcaggttagttttctc	14	10	10	7	2	2	2	1	0	1	2	3	3	2	2	0	2	3	4	0	2	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140746310C>T	uc003lju.1	+	1	2413	c.2413C>T	c.(2413-2415)CGA>TGA	p.R805*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Nonsense_Mutation_p.R805*	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	805	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.R805*(1)		ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAAGAACGGCGAGTTCAGGT	0.418													5	169					0	0	0.000602	0	0		T	140746310	T	T	140746310	4	4	37	1	0	0	0	0	0	1	0	0	11576	760	27	1	2415	1	PCDHGA5	5	140746310	Nonsense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	150395	140746310	40168950	297	32542											
PCDHGB3	56102	broad.mit.edu	37	chr5	140750133	140750133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggacctggggtttggcGtgggggatttacctactagg	7	10	16	8	1	0	0	0	0	0	0	0	2	0	2	3	7	2	1	3	7	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140750133G>A	uc003ljw.1	+	1	172	c.172G>A	c.(172-174)GTG>ATG	p.V58M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc011dat.1_Missense_Mutation_p.V58M	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	58	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGGTTTGGCGTGGGGGATTT	0.547													10	169					0	0	0.006214	0	0		A	140750133	A	A	140750133	3	1	37	1	0	0	0	0	1	0	0	0	11583	1145	40	1	174	1	PCDHGB3	5	140750133	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3823	140750133	40165127	298	32543											
PCDHGB6	56100	broad.mit.edu	37	chr5	140789324	140789324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggtgttcgcgcagcgcGcctttgatcacgagcagctg	5	9	16	11	5	1	1	1	1	0	0	2	2	1	1	1	2	3	4	1	2	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140789324G>A	uc003lkj.1	+	1	1555	c.1555G>A	c.(1555-1557)GCC>ACC	p.A519T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.A519T	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	519	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGCAGCGCGCCTTTGATCA	0.667													6	42					0	0	0.004482	0	0		A	140789324	A	A	140789324	3	1	37	1	0	0	0	0	1	0	0	0	11586	1087	38	1	1557	1	PCDHGB6	5	140789324	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	39191	140789324	40125936	299	32544											
PCDHGB6	56100	broad.mit.edu	37	chr5	140789386	140789386	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcccgcgaccacggctcGcccacgctcagcgccaacgt	7	3	11	20	7	1	0	1	0	0	0	2	1	1	0	4	2	2	2	4	2	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140789386G>A	uc003lkj.1	+	1	1617	c.1617G>A	c.(1615-1617)TCG>TCA	p.S539S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Silent_p.S539S	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	539	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCACGGCTCGCCCACGCTCA	0.701													6	22					0	0	0.001168	0	0		A	140789386	A	A	140789386	2	1	37	1	0	0	0	0	0	0	0	1	11586	1074	38	1		1	PCDHGB6	5	140789386	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	62	140789386	40125874	300	32545											
PCDHGA10	56106	broad.mit.edu	37	chr5	140793850	140793850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcacctctgggaacagtcGtagcccttttaaatgtgcat	10	13	8	10	1	2	0	1	0	1	0	3	1	2	1	2	1	3	2	2	1	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140793850G>A	uc003lkl.1	+	1	1108	c.1108G>A	c.(1108-1110)GTA>ATA	p.V370I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.V370I	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	370	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGAACAGTCGTAGCCCTTTT	0.403													10	30					0	0	0.008291	0	0		A	140793850	A	A	140793850	3	1	37	1	0	0	0	0	1	0	0	0	11570	1145	40	1	1110	1	PCDHGA10	5	140793850	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4464	140793850	40121410	301	32546											
PCDHGC3	5098	broad.mit.edu	37	chr5	140856242	140856242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcgcttcgcgtgcagacgCgggaggacagcaccaagtac	9	6	14	12	5	0	1	0	0	0	1	1	3	0	3	1	2	4	4	1	2	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140856242C>T	uc003lkv.1	+	1	674	c.559C>T	c.(559-561)CGG>TGG	p.R187W	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Missense_Mutation_p.R187W|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	187	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGCAGACGCGGGAGGACAG	0.597													19	50					0	0	0.007413	0	0		T	140856242	T	T	140856242	3	4	37	1	0	0	0	0	1	0	0	0	11588	759	27	1	561	1	PCDHGC3	5	140856242	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	62392	140856242	40059018	302	32547											
DIAPH1	1729	broad.mit.edu	37	chr5	140908744	140908744	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggcctcactcaccaccaCgccaaactgctctgactcag	11	6	6	18	1	4	1	3	1	1	0	4	1	4	1	4	1	2	1	4	1	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140908744C>T	uc003llb.3	-	22	2914	c.2773G>A	c.(2773-2775)GTG>ATG	p.V925M	DIAPH1_uc011dbd.1_5'Flank|DIAPH1_uc003llc.3_Missense_Mutation_p.V916M|DIAPH1_uc010jgc.1_Missense_Mutation_p.V361M	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	925	FH2.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCACCACCACGCCAAACTGC	0.512													4	100					0	0	0.000602	0	0		T	140908744	T	T	140908744	3	4	37	1	0	0	0	0	1	0	0	0	4524	536	19	1	1077	1	DIAPH1	5	140908744	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	52502	140908744	40006516	303	32548											
LARS	51520	broad.mit.edu	37	chr5	145552290	145552290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgtgtcccaaatgaaggCgtccattcatatatggatat	12	12	9	8	2	1	1	1	1	0	0	3	2	3	2	2	2	0	0	2	2	5	4	rs148510496	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:145552290C>T	uc003lnx.1	-	3	411	c.173G>A	c.(172-174)CGC>CAC	p.R58H	LARS_uc011dbq.1_Missense_Mutation_p.R58H|LARS_uc011dbr.1_Missense_Mutation_p.R4H|LARS_uc011dbs.1_Missense_Mutation_p.R58H	NM_020117	NP_064502	Q9P2J5	SYLC_HUMAN	leucyl-tRNA synthetase	58	HIGH region.				leucyl-tRNA aminoacylation	cytosol	ATP binding|leucine-tRNA ligase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Leucine(DB00149)	CAAATGAAGGCGTCCATTCAT	0.348													4	17					0	0	0.000602	0	0		T	145552290	T	T	145552290	3	4	37	1	0	0	0	0	1	0	0	0	8650	768	27	1	3477	1	LARS	5	145552290	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4643546	145552290	35362970	304	32549											
ADRB2	154	broad.mit.edu	37	chr5	148206748	148206748	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgatgtgctgtgcgtcacGgccagcattgagaccctgtg	7	11	13	10	2	1	2	1	2	0	1	1	3	1	2	2	1	3	2	2	1	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:148206748G>A	uc003lpr.1	+	1	593	c.354G>A	c.(352-354)ACG>ACA	p.T118T	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	118	Helical; Name=3.	Agonist or antagonist.			activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	TGTGCGTCACGGCCAGCATTG	0.522													36	90					0	0	0.005524	0	0		A	148206748	A	A	148206748	2	1	37	1	0	0	0	0	0	0	0	1	341	1103	39	1		1	ADRB2	5	148206748	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2654458	148206748	32708512	305	32550											
FAT2	2196	broad.mit.edu	37	chr5	150934154	150934154	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgggagaatataggtggAttgtcattgacgtccaagat	11	13	13	4	1	1	3	1	1	0	2	2	5	2	4	1	3	0	0	1	3	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:150934154A>T	uc003lue.3	-	4	3727	c.3714T>A	c.(3712-3714)AAT>AAA	p.N1238K	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1238	Extracellular (Potential).|Cadherin 10.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATATAGGTGGATTGTCATTGA	0.562													24	123					0	0	0.005443	0	0		T	150934154	T	T	150934154	3	4	37	1	0	0	0	0	1	0	0	0	5704	330	12	5	9415	5	FAT2	5	150934154	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2727406	150934154	29981106	306	32551											
CCNJL	79616	broad.mit.edu	37	chr5	159680577	159680577	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggagggatgagcctgtactCcccgagagcaggctccctga	8	7	14	12	1	0	3	0	2	0	1	2	6	2	5	4	3	3	3	4	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:159680577C>T	uc003lyb.1	-	7	1368	c.1116G>A	c.(1114-1116)GGG>GGA	p.G372G	CCNJL_uc011dee.1_Silent_p.G324G|CCNJL_uc003lyc.1_RNA	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	372						nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGCCTGTACTCCCCGAGAGCA	0.627													5	75					0	0	0.000602	0	0		T	159680577	T	T	159680577	2	4	37	1	0	0	0	0	0	0	0	1	2932	842	30	4		4	CCNJL	5	159680577	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	8746423	159680577	21234683	307	32552											
ODZ2	57451	broad.mit.edu	37	chr5	167489118	167489118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtgaagcagaagttggtCggcgggtaacacaagaagtc	12	7	16	6	2	0	3	0	1	0	2	2	3	0	3	0	4	2	3	0	4	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:167489118C>T	uc010jjd.2	+	7	1363	c.1363C>T	c.(1363-1365)CGG>TGG	p.R455W	ODZ2_uc003lzq.2_Missense_Mutation_p.R334W|ODZ2_uc003lzr.3_Missense_Mutation_p.R223W	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		AGAAGTTGGTCGGCGGGTAAC	0.458													6	48					0	0	0.001168	0	0		T	167489118	T	T	167489118	3	4	37	1	0	0	0	0	1	0	0	0	10854	875	31	1	1389	1	ODZ2	5	167489118	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	7808541	167489118	13426142	308	32553											
C5orf41	153222	broad.mit.edu	37	chr5	172513527	172513527	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtaagcggaatggatccGcctttcggggatgcctttcg	7	11	14	9	4	0	0	0	0	0	0	3	3	1	3	3	4	2	1	3	4	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:172513527G>A	uc003mch.2	+	3	337	c.33G>A	c.(31-33)CCG>CCA	p.P11P	C5orf41_uc003mcg.2_Silent_p.P11P|C5orf41_uc003mcf.2_Silent_p.P11P|C5orf41_uc011dfd.1_Silent_p.P11P	NM_153607	NP_705835	Q8IUR6	CE041_HUMAN	luman-recruiting factor	11							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GAATGGATCCGCCTTTCGGGG	0.428													22	79					0	0	0.012319	0	0		A	172513527	A	A	172513527	2	1	37	1	0	0	0	0	0	0	0	1	2303	1074	38	1		1	C5orf41	5	172513527	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5024409	172513527	8401733	309	32554											
CDHR2	54825	broad.mit.edu	37	chr5	176018287	176018287	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggggtgatgccctcagccCctgccatcccagggactaac	8	6	11	16	0	1	1	1	1	0	0	2	2	2	2	5	3	4	0	5	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:176018287C>A	uc003mem.1	+	29	3682	c.3616C>A	c.(3616-3618)CCT>ACT	p.P1206T	CDHR2_uc003men.1_Missense_Mutation_p.P1206T	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	1206	Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GCCCTCAGCCCCTGCCATCCC	0.602													15	51					1.99824e-07	2.19271e-07	0.00499	1	0		A	176018287	A	A	176018287	3	1	37	1	0	0	0	0	1	0	0	0	3122	623	22	5	3726	5	CDHR2	5	176018287	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3504760	176018287	4896973	310	32555											
NSD1	64324	broad.mit.edu	37	chr5	176687028	176687028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgctgtcctgtggcatacCacgccaatgacttttgcctg	6	12	9	14	2	0	1	0	1	0	0	2	1	2	1	5	1	2	2	5	1	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:176687028C>T	uc003mfr.3	+	14	5143	c.5005C>T	c.(5005-5007)CAC>TAC	p.H1669Y	NSD1_uc003mft.3_Missense_Mutation_p.H1400Y|NSD1_uc003mfs.1_Missense_Mutation_p.H1566Y|NSD1_uc011dfx.1_Missense_Mutation_p.H1317Y	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1669					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		TGTGGCATACCACGCCAATGA	0.448			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			6	114					0	0	0.00308	0	0		T	176687028	T	T	176687028	3	4	37	1	0	0	0	0	1	0	0	0	10688	594	21	4	5055	4	NSD1	5	176687028	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	668741	176687028	4228232	311	32556											
DBN1	1627	broad.mit.edu	37	chr5	176885640	176885640	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggggctcctccatggggcCggcccaggcctgaggggctg	4	5	19	13	1	0	1	0	1	0	0	2	1	2	1	5	8	0	2	5	8	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:176885640C>T	uc003mgy.2	-	12	1367	c.1195G>A	c.(1195-1197)GGC>AGC	p.G399S	DBN1_uc011dga.1_Missense_Mutation_p.G131S|DBN1_uc003mgx.2_Missense_Mutation_p.G401S|DBN1_uc010jkn.1_Missense_Mutation_p.G349S|DBN1_uc003mgz.1_Missense_Mutation_p.G382S	NM_004395	NP_004386	Q16643	DREB_HUMAN	drebrin 1 isoform a	399					actin filament organization|regulation of dendrite development|regulation of neuronal synaptic plasticity	actomyosin|cytoplasm|dendrite	actin binding|profilin binding			breast(3)|ovary(1)|lung(1)|skin(1)	6	all_cancers(89;2.17e-05)|Renal(175;0.000269)|Lung NSC(126;0.0014)|all_lung(126;0.0025)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCCATGGGGCCGGCCCAGGCC	0.652													3	27					0	0	0.009096	0	0		T	176885640	T	T	176885640	3	4	37	1	0	0	0	0	1	0	0	0	4255	652	23	1	766	1	DBN1	5	176885640	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	198612	176885640	4029620	312	32557											
ZNF354A	6940	broad.mit.edu	37	chr5	178139186	178139186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctctgatgtgcaatacGtgatgagctttgtctaaaag	12	14	9	6	1	2	3	0	3	2	0	3	3	2	3	0	0	3	2	0	0	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:178139186G>A	uc003mjj.2	-	5	1891	c.1693C>T	c.(1693-1695)CGT>TGT	p.R565C		NM_005649	NP_005640	O60765	Z354A_HUMAN	zinc finger protein 354A	565	C2H2-type 12.				regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;0.000536)|Renal(175;0.000159)|all_epithelial(37;0.000221)|Lung NSC(126;0.00308)|all_lung(126;0.00536)	all_cancers(40;0.0452)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.185)		TGTGCAATACGTGATGAGCTT	0.358													21	74					0	0	0.014323	0	0		A	178139186	A	A	178139186	3	1	37	1	0	0	0	0	1	0	0	0	17889	1145	40	1	128	1	ZNF354A	5	178139186	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1253546	178139186	2776074	313	32558											
ADAMTS2	9509	broad.mit.edu	37	chr5	178540988	178540988	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttgggtggctggacttcAtcttccaggccatggatttt	6	14	13	8	0	2	0	1	0	1	0	3	2	3	2	2	6	0	2	2	6	0	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:178540988A>G	uc003mjw.2	-	22	3516	c.3516T>C	c.(3514-3516)GAT>GAC	p.D1172D	uc003mjv.3_5'Flank	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1172					collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		GCTGGACTTCATCTTCCAGGC	0.517													41	144					0	0	0.007835	0	0		G	178540988	G	G	178540988	2	3	37	1	0	0	0	0	0	0	0	1	265	214	8	3		3	ADAMTS2	5	178540988	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	401802	178540988	2374272	314	32559											
FLT4	2324	broad.mit.edu	37	chr5	180055888	180055888	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggctgttaccactggAactcgggcggggggtacgct	6	7	17	11	3	0	0	0	0	0	0	1	1	0	1	2	6	3	4	2	6	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:180055888A>G	uc003mma.3	-	8	1176	c.1097T>C	c.(1096-1098)TTC>TCC	p.F366S	FLT4_uc003mlz.3_Missense_Mutation_p.F366S|FLT4_uc003mmb.1_5'UTR|FLT4_uc011dgy.1_Missense_Mutation_p.F366S|FLT4_uc011dgz.1_3'UTR	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	366	Ig-like C2-type 4.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	TTACCACTGGAACTCGGGCGG	0.652									Congenital_Hereditary_Lymphedema				11	40					0	0	0.010729	0	0		G	180055888	G	G	180055888	3	3	37	1	0	0	0	0	1	0	0	0	5958	246	9	3	3094	3	FLT4	5	180055888	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1514900	180055888	859372	315	32560											
FAM50B	26240	broad.mit.edu	37	chr6	3850409	3850409	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaagatctcctgcctgtccTttgcactagacgacctcgat	8	12	8	13	2	1	2	0	0	1	2	4	4	2	2	4	0	2	2	4	0	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:3850409T>G	uc003mvu.2	+	2	476	c.364T>G	c.(364-366)TTT>GTT	p.F122V		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	122						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				CTGCCTGTCCTTTGCACTAGA	0.517													19	55					0	0	0.008871	0	0		G	3850409	G	G	3850409	3	3	37	1	0	0	0	0	1	0	0	0	5592	1609	56	5	366	5	FAM50B	6	3850409	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08		3850409	167264658	316	32561											
NEDD9	4739	broad.mit.edu	37	chr6	11185718	11185718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgacacaactgaagagtgCgtcaatggcgttgagaaggg	12	7	15	7	2	1	4	1	3	0	2	1	5	1	4	0	2	2	2	0	2	4	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:11185718C>T	uc003mzv.2	-	7	2349	c.2182G>A	c.(2182-2184)GCA>ACA	p.A728T	NEDD9_uc010joz.2_Missense_Mutation_p.A728T|NEDD9_uc003mzw.3_Missense_Mutation_p.A582T	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	728	Divergent helix-loop-helix motif.				actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			CTGAAGAGTGCGTCAATGGCG	0.517													22	99					0	0	0.014323	0	0		T	11185718	T	T	11185718	3	4	37	1	0	0	0	0	1	0	0	0	10332	768	27	1	326	1	NEDD9	6	11185718	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	7335309	11185718	159929349	317	32562											
LRRC16A	55604	broad.mit.edu	37	chr6	25492198	25492198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgtggagctcttctccgtgGatgccttcaatatttagctg	6	15	10	10	1	3	0	1	0	2	0	4	2	3	2	2	2	3	2	2	2	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:25492198G>A	uc011djw.1	+	15	1542	c.1166G>A	c.(1165-1167)GGA>GAA	p.G389E	LRRC16A_uc010jpx.2_Missense_Mutation_p.G389E|LRRC16A_uc010jpy.2_Missense_Mutation_p.G389E	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	389					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						CTTCTCCGTGGATGCCTTCAA	0.418													4	50					0	0	0.000602	0	0		A	25492198	A	A	25492198	3	1	37	1	0	0	0	0	1	0	0	0	8989	1174	41	4	1224	4	LRRC16A	6	25492198	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	14306480	25492198	145622869	318	32563											
SLC17A2	10246	broad.mit.edu	37	chr6	25924033	25924033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtggtgttcaccatggCgatgatcgcaatgctcagac	9	10	12	10	2	2	3	2	2	0	1	3	4	2	3	1	2	1	3	1	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:25924033C>T	uc011dkb.1	-	2	213	c.130G>A	c.(130-132)GCC>ACC	p.A44T	SLC17A2_uc011dkc.1_Missense_Mutation_p.A44T|SLC17A2_uc003nfl.2_Missense_Mutation_p.A44T			O00624	NPT3_HUMAN	SubName: Full=Solute carrier family 17 (Sodium phosphate), member 2, isoform CRA_b; SubName: Full=Putative uncharacterized protein SLC17A2;	44					phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			ovary(1)	1						TTCACCATGGCGATGATCGCA	0.478													7	126					0	0	0.001984	0	0		T	25924033	T	T	25924033	3	4	37	1	0	0	0	0	1	0	0	0	14442	768	27	1	1216	1	SLC17A2	6	25924033	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	431835	25924033	145191034	319	32564											
HIST1H3E	8353	broad.mit.edu	37	chr6	26225388	26225388	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcagatgaactatggcGcgtactaagcagacggctcg	10	9	12	10	4	0	3	0	1	0	2	1	3	0	3	0	2	4	4	0	2	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:26225388G>A	uc003nhb.2	+	2	366	c.6G>A	c.(4-6)GCG>GCA	p.A2A	HIST1H3E_uc003nhc.3_Silent_p.A2A	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	2					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.0223)|Acute lymphoblastic leukemia(11;0.0351)				GAACTATGGCGCGTACTAAGC	0.532													15	118					0	0	0.00245	0	0		A	26225388	A	A	26225388	2	1	37	1	0	0	0	0	0	0	0	1	7175	1074	38	1		1	HIST1H3E	6	26225388	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	301355	26225388	144889679	320	32565											
BTN3A1	11119	broad.mit.edu	37	chr6	26413715	26413715	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagtatcggactctaactgAgcccagaaccaacctgaaac	15	7	7	12	1	1	3	0	2	1	1	2	4	1	4	3	1	5	1	3	1	6	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:26413715A>C	uc003nhv.2	+	10	1705	c.1337A>C	c.(1336-1338)GAG>GCG	p.E446A	BTN3A1_uc011dkj.1_3'UTR|BTN3A1_uc011dkk.1_Missense_Mutation_p.E394A|BTN3A1_uc010jqj.2_3'UTR	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a	446	Cytoplasmic (Potential).|B30.2/SPRY.				lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						ACTCTAACTGAGCCCAGAACC	0.468													30	114					0	0	0.008361	0	0		C	26413715	C	C	26413715	3	2	37	1	0	0	0	0	1	0	0	0	1565	304	11	5	1539	5	BTN3A1	6	26413715	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	188327	26413715	144701352	321	32566											
HIST1H2AL	8332	broad.mit.edu	37	chr6	27833264	27833264	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcaactatgctgagcgggtCggggccggcgcgccggtgta	5	6	19	11	6	0	1	0	1	0	0	1	1	0	1	2	6	3	3	2	6	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:27833264C>T	uc003njw.2	+	1	158	c.132C>T	c.(130-132)GTC>GTT	p.V44V		NM_003511	NP_003502	P0C0S8	H2A1_HUMAN	histone cluster 1, H2al	44					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding				0						CTGAGCGGGTCGGGGCCGGCG	0.692													23	129					0	0	0.00278	0	0		T	27833264	T	T	27833264	2	4	37	1	0	0	0	0	0	0	0	1	7154	871	31	1		1	HIST1H2AL	6	27833264	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1419549	27833264	143281803	322	32567											
NKAPL	222698	broad.mit.edu	37	chr6	28227239	28227239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggggagcccaccatccccGcagagcagatgttcctcttg	7	8	11	15	2	1	2	0	0	1	2	4	3	3	3	5	2	2	3	5	2	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:28227239G>A	uc003nkt.2	+	1	142	c.90G>A	c.(88-90)CCG>CCA	p.P30P	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	30										upper_aerodigestive_tract(1)|ovary(1)	2						CACCATCCCCGCAGAGCAGAT	0.657													16	52					0	0	0.004007	0	0		A	28227239	A	A	28227239	2	1	37	1	0	0	0	0	0	0	0	1	10459	1074	38	1		1	NKAPL	6	28227239	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	393975	28227239	142887828	323	32568											
TRIM10	10107	broad.mit.edu	37	chr6	30121851	30121851	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatgggctctcgggtgacAgcgttggtgaaggtcaccca	8	9	15	9	2	2	3	1	2	1	1	3	3	2	3	1	4	1	2	1	4	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:30121851A>C	uc003npo.3	-	7	1417	c.1341T>G	c.(1339-1341)GCT>GCG	p.A447A	TRIM10_uc003npn.2_Intron	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	447	B30.2/SPRY.					cytoplasm	zinc ion binding				0						CTCGGGTGACAGCGTTGGTGA	0.607													10	53					0	0	0.006214	0	0		C	30121851	C	C	30121851	2	2	37	1	0	0	0	0	0	0	0	1	16512	175	7	5		5	TRIM10	6	30121851	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1894612	30121851	140993216	324	32569											
PPP1R10	5514	broad.mit.edu	37	chr6	30572415	30572415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaaccggggtgcctggaCggtctgcgtccattgcctca	5	8	16	12	3	2	0	1	0	1	0	3	2	3	2	4	6	4	0	4	6	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:30572415C>T	uc003nqn.1	-	12	1604	c.1052G>A	c.(1051-1053)CGT>CAT	p.R351H	PPP1R10_uc010jsc.1_Missense_Mutation_p.R5H	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	351					protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						GGTGCCTGGACGGTCTGCGTC	0.542													20	350					0	0	0.008871	0	0		T	30572415	T	T	30572415	3	4	37	1	0	0	0	0	1	0	0	0	12374	536	19	1	1806	1	PPP1R10	6	30572415	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	450564	30572415	140542652	325	32570											
TUBB	203068	broad.mit.edu	37	chr6	30692147	30692147	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagaagaggaggaggatttCggtgaggaggccgaagagga	13	4	20	4	2	0	4	0	1	0	3	1	10	0	9	1	7	0	1	1	7	2	1	rs3873307		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:30692147C>T	uc003nrl.2	+	4	1435	c.1308C>T	c.(1306-1308)TTC>TTT	p.F436F	TUBB_uc003nrk.1_Missense_Mutation_p.R430W|TUBB_uc011dmq.1_Silent_p.F364F	NM_178014	NP_821133	P07437	TBB5_HUMAN	tubulin, beta	436					cellular component movement|G2/M transition of mitotic cell cycle|microtubule-based movement|natural killer cell mediated cytotoxicity|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|MHC class I protein binding			ovary(1)	1					Colchicine(DB01394)|Vinblastine(DB00570)|Vincristine(DB00541)|Vinorelbine(DB00361)	AGGAGGATTTCGGTGAGGAGG	0.572													8	55					0	0	0.004482	0	0		T	30692147	T	T	30692147	2	4	37	1	0	0	0	0	0	0	0	1	16778	883	31	1		1	TUBB	6	30692147	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	119732	30692147	140422920	326	32571											
DDR1	780	broad.mit.edu	37	chr6	30865936	30865936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctttgtacatcgggacctggCcacgcggaactgcctagttg	7	10	12	12	3	0	0	0	0	0	0	1	2	0	2	3	3	3	2	3	3	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:30865936C>T	uc003nrr.2	+	17	2562	c.2303C>T	c.(2302-2304)GCC>GTC	p.A768V	DDR1_uc010jse.2_Missense_Mutation_p.A731V|DDR1_uc003nrq.2_Missense_Mutation_p.A731V|DDR1_uc003nrs.2_Missense_Mutation_p.A768V|DDR1_uc003nrt.2_Missense_Mutation_p.A731V|DDR1_uc011dms.1_Missense_Mutation_p.A749V|DDR1_uc003nru.2_Missense_Mutation_p.A731V|DDR1_uc003nrv.2_Missense_Mutation_p.A774V|DDR1_uc003nrw.1_Missense_Mutation_p.A503V|DDR1_uc003nrz.1_Missense_Mutation_p.A93V	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	768	Cytoplasmic (Potential).|Protein kinase.				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	CGGGACCTGGCCACGCGGAAC	0.562													5	68					0	0	0.000602	0	0		T	30865936	T	T	30865936	3	4	37	1	0	0	0	0	1	0	0	0	4339	739	26	2	2379	2	DDR1	6	30865936	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	173789	30865936	140249131	327	32572											
C6orf25	80739	broad.mit.edu	37	chr6	31691611	31691611	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tttcgtcggccgcctacgctCcctggactctggtatccggc	3	11	11	16	5	1	0	0	0	1	0	5	1	3	1	4	4	1	2	4	4	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:31691611C>G	uc011doc.1	+	2	257	c.257C>G	c.(256-258)TCC>TGC	p.S86C	LY6G6C_uc003nwh.2_5'Flank|LY6G6C_uc010jtd.2_5'Flank|C6orf25_uc003nwk.2_Missense_Mutation_p.S86C|C6orf25_uc011dod.1_Missense_Mutation_p.S86C|C6orf25_uc011doe.1_Missense_Mutation_p.S86C|C6orf25_uc003nwo.2_Missense_Mutation_p.S86C|C6orf25_uc003nwn.2_Missense_Mutation_p.S86C	NM_138272	NP_612116	O95866	G6B_HUMAN	G6B protein isoform G6b-B precursor	86	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	heparin binding|receptor activity				0						CGCCTACGCTCCCTGGACTCT	0.672													38	116					0	0	0.006999	0	0		G	31691611	G	G	31691611	3	3	37	1	0	0	0	0	1	0	0	0	2363	855	30	5	263	5	C6orf25	6	31691611	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	825675	31691611	139423456	328	32573											
VARS	7407	broad.mit.edu	37	chr6	31752401	31752401	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagatggcggagttgagggTgcaggaccagttaacaaggc	12	6	17	6	1	0	2	0	1	0	1	0	5	0	4	1	5	2	3	1	5	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:31752401T>C	uc003nxe.2	-	11	1861	c.1438A>G	c.(1438-1440)ACC>GCC	p.T480A	VARS_uc011doi.1_RNA	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	480					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	GAGTTGAGGGTGCAGGACCAG	0.612													4	70					0	0	0.009096	0	0		C	31752401	C	C	31752401	3	2	37	1	0	0	0	0	1	0	0	0	17149	1696	59	3	2436	3	VARS	6	31752401	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	60790	31752401	139362666	329	32574											
TNXB	7148	broad.mit.edu	37	chr6	32037632	32037632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtatcatccatagcactcCgggcttctgagatggagaca	11	9	10	11	1	2	2	1	1	1	2	4	4	4	2	2	2	1	3	2	2	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:32037632C>T	uc003nzl.2	-	15	5487	c.5285G>A	c.(5284-5286)CGG>CAG	p.R1762Q		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1844					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CATAGCACTCCGGGCTTCTGA	0.597													13	25					0	0	0.00245	0	0		T	32037632	T	T	32037632	3	4	37	1	0	0	0	0	1	0	0	0	16371	652	23	1	9548	1	TNXB	6	32037632	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	285231	32037632	139077435	330	32575											
NOTCH4	4855	broad.mit.edu	37	chr6	32190542	32190542	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggcgttctggcaggggTcaggaaactggcacgtctca	7	8	16	10	2	3	0	2	0	2	0	4	1	3	1	0	6	1	4	0	6	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:32190542T>C	uc003obb.2	-	3	336	c.197A>G	c.(196-198)GAC>GGC	p.D66G	NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc003obc.2_Missense_Mutation_p.D66G	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	66	Extracellular (Potential).|EGF-like 2.				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						CTGGCAGGGGTCAGGAAACTG	0.562													15	38					0	0	0.004007	0	0		C	32190542	C	C	32190542	3	2	37	1	0	0	0	0	1	0	0	0	10570	1667	58	3	5926	3	NOTCH4	6	32190542	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	152910	32190542	138924525	331	32576											
ITPR3	3710	broad.mit.edu	37	chr6	33654203	33654203	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacttgcattgtgactcaCgagtccaatggcatagacat	12	10	9	10	1	1	3	1	1	0	2	2	4	2	3	1	1	1	2	1	1	2	3	rs145776727	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:33654203C>T	uc011drk.1	+	43	6105	c.5886C>T	c.(5884-5886)CAC>CAT	p.H1962H	ITPR3_uc003oey.2_Silent_p.H49H	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1962	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						TTGTGACTCACGAGTCCAATG	0.592													17	73					0	0	0.007413	0	0		T	33654203	T	T	33654203	2	4	37	1	0	0	0	0	0	0	0	1	7938	535	19	1		1	ITPR3	6	33654203	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1463661	33654203	137460864	332	32577											
UHRF1BP1	54887	broad.mit.edu	37	chr6	34825955	34825955	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgcatcgtccccaggccCttgtcttctctgcgtcaggc	4	12	10	15	2	3	0	1	0	2	0	6	0	4	0	3	2	2	2	3	2	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:34825955C>A	uc003oju.3	+	14	2056	c.1822C>A	c.(1822-1824)CTT>ATT	p.L608I	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	608										ovary(3)	3						TCCCCAGGCCCTTGTCTTCTC	0.498													14	99					2.61681e-11	2.95323e-11	0.00245	1	0		A	34825955	A	A	34825955	3	1	37	1	0	0	0	0	1	0	0	0	16994	681	24	5	1876	5	UHRF1BP1	6	34825955	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1171752	34825955	136289112	333	32578											
ETV7	51513	broad.mit.edu	37	chr6	36334731	36334731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagggcacgagacatcttctCgtaggtcatgttcacccggt	8	10	11	12	3	4	1	2	0	2	1	5	2	4	1	1	3	0	3	1	3	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:36334731C>T	uc003omb.2	-	7	978	c.829G>A	c.(829-831)GAG>AAG	p.E277K	ETV7_uc003olz.1_Missense_Mutation_p.E277K|ETV7_uc003oma.1_Missense_Mutation_p.E222K|ETV7_uc010jwg.2_RNA|ETV7_uc003omc.2_Missense_Mutation_p.E222K|ETV7_uc010jwj.2_Missense_Mutation_p.E218K|ETV7_uc010jwh.2_Missense_Mutation_p.E196K|ETV7_uc010jwi.2_Missense_Mutation_p.E200K|ETV7_uc011dtl.1_Missense_Mutation_p.E126K	NM_016135	NP_057219	Q9Y603	ETV7_HUMAN	ets variant 7	277	ETS.				organ morphogenesis|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GACATCTTCTCGTAGGTCATG	0.542													13	198					0	0	0.013537	0	0		T	36334731	T	T	36334731	3	4	37	1	0	0	0	0	1	0	0	0	5292	893	31	1	204	1	ETV7	6	36334731	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1508776	36334731	134780336	334	32579											
CUL7	9820	broad.mit.edu	37	chr6	43020511	43020511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccctgaattccctgtagcGgagttctcccaccatcctgg	7	10	8	16	1	1	1	0	1	1	0	4	2	3	2	5	2	1	2	5	2	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:43020511G>A	uc003otq.2	-	2	319	c.16C>T	c.(16-18)CGC>TGC	p.R6C	CUL7_uc011dvb.1_Missense_Mutation_p.R58C|CUL7_uc010jyh.2_5'UTR|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	6					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			TCCCTGTAGCGGAGTTCTCCC	0.562													3	44					0	0	0.004672	0	0		A	43020511	A	A	43020511	3	1	37	1	0	0	0	0	1	0	0	0	4063	1116	39	1	5276	1	CUL7	6	43020511	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6685780	43020511	128094556	335	32580											
VEGFA	7422	broad.mit.edu	37	chr6	43745279	43745279	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtggacatcttccaggaGtaccctgatgagatcgagta	10	10	12	9	1	1	2	0	2	1	1	3	6	2	4	2	3	1	2	2	3	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:43745279G>A	uc003owc.2	+	3	1223	c.192G>A	c.(190-192)GAG>GAA	p.E64E	VEGFA_uc003owb.2_Silent_p.E64E|VEGFA_uc003owd.2_Silent_p.E244E|VEGFA_uc003owf.2_Silent_p.E244E|VEGFA_uc003owe.2_Silent_p.E244E|VEGFA_uc003owg.2_Silent_p.E244E|VEGFA_uc003owh.2_Silent_p.E244E|VEGFA_uc003owi.2_Silent_p.E244E|VEGFA_uc003owj.2_Silent_p.E244E|VEGFA_uc010jyx.2_Silent_p.E64E|VEGFA_uc003owk.2_5'Flank	NM_001025370	NP_001020541	P15692	VEGFA_HUMAN	vascular endothelial growth factor A isoform f	64					basophil chemotaxis|cellular response to hypoxia|induction of positive chemotaxis|induction of positive chemotaxis|platelet activation|platelet degranulation|platelet-derived growth factor receptor signaling pathway|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of cell adhesion|positive regulation of cell division|positive regulation of endothelial cell proliferation|positive regulation of leukocyte migration|positive regulation of mast cell chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|positive regulation of vascular permeability|regulation of cell shape|vascular endothelial growth factor receptor signaling pathway|vasculogenesis	cell surface|extracellular space|membrane|platelet alpha granule lumen	cell surface binding|chemoattractant activity|cytokine activity|fibronectin binding|growth factor activity|heparin binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|vascular endothelial growth factor receptor 1 binding|vascular endothelial growth factor receptor 2 binding|vascular endothelial growth factor receptor binding			ovary(1)|breast(1)	2	all_cancers(18;5.46e-07)|all_epithelial(2;5.96e-08)|Lung NSC(15;0.000157)|all_lung(25;0.000486)|Hepatocellular(11;0.00309)		all cancers(41;0.000413)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0742)|OV - Ovarian serous cystadenocarcinoma(102;0.196)		Atorvastatin(DB01076)|Bevacizumab(DB00112)|Carvedilol(DB01136)|Ginkgo biloba(DB01381)|Gliclazide(DB01120)|Minocycline(DB01017)|Ranibizumab(DB01270)|Simvastatin(DB00641)	TCTTCCAGGAGTACCCTGATG	0.562													5	65					0	0	0.000602	0	0		A	43745279	A	A	43745279	2	1	37	1	0	0	0	0	0	0	0	1	17176	1020	36	4		4	VEGFA	6	43745279	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	724768	43745279	127369788	336	32581											
ENPP5	59084	broad.mit.edu	37	chr6	46135200	46135200	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagatggctgctactggaGattgatcaatcagggtatag	12	10	13	6	0	2	3	2	1	0	2	2	4	2	3	0	3	2	4	0	3	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:46135200G>T	uc003oxz.1	-	2	1008	c.800C>A	c.(799-801)TCT>TAT	p.S267Y	ENPP5_uc003oya.1_Missense_Mutation_p.S267Y|ENPP5_uc011dvz.1_Missense_Mutation_p.S173Y|ENPP5_uc010jzc.1_Missense_Mutation_p.S267Y	NM_021572	NP_067547	Q9UJA9	ENPP5_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	267						extracellular region|integral to membrane	hydrolase activity				0						TGCTACTGGAGATTGATCAAT	0.443													26	130					1.68575e-08	1.86648e-08	0.007291	1	0		T	46135200	T	T	46135200	3	4	37	1	0	0	0	0	1	0	0	0	5141	942	33	5	645	5	ENPP5	6	46135200	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2389921	46135200	124979867	337	32582											
HMGCLL1	54511	broad.mit.edu	37	chr6	55406583	55406583	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctattacagacaagccagTttgggaaagtcgattgataa	14	12	9	6	1	1	2	0	1	1	1	2	4	1	3	1	1	2	1	1	1	5	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:55406583T>C	uc003pcn.2	-	4	490	c.331A>G	c.(331-333)ACT>GCT	p.T111A	HMGCLL1_uc003pco.2_Missense_Mutation_p.T81A|HMGCLL1_uc010jzx.2_5'UTR|HMGCLL1_uc011dxc.1_Missense_Mutation_p.T81A|HMGCLL1_uc011dxd.1_Missense_Mutation_p.T81A|HMGCLL1_uc011dxe.1_Missense_Mutation_p.T81A|HMGCLL1_uc003pcp.2_Missense_Mutation_p.T81A	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	111							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			GACAAGCCAGTTTGGGAAAGT	0.308													3	90					0	0	0.009096	0	0		C	55406583	C	C	55406583	3	2	37	1	0	0	0	0	1	0	0	0	7246	1725	60	3	809	3	HMGCLL1	6	55406583	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	9271383	55406583	115708484	338	32583											
KHDRBS2	202559	broad.mit.edu	37	chr6	62887150	62887150	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctttatgtttttgttgctGatgacatcaagatacttctt	9	19	7	6	0	2	3	1	2	1	1	2	3	2	3	0	0	3	4	0	0	3	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:62887150G>A	uc003peg.2	-	2	406	c.159C>T	c.(157-159)ATC>ATT	p.I53I		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	53					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		TTTTGTTGCTGATGACATCAA	0.328													10	19					0	0	0.010729	0	0		A	62887150	A	A	62887150	2	1	37	1	0	0	0	0	0	0	0	1	8163	1280	45	4		4	KHDRBS2	6	62887150	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	7480567	62887150	108227917	339	32584											
ZNF292	23036	broad.mit.edu	37	chr6	87965771	87965771	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacattataatacgtacacTtgtaagttcacaggttgtgg	13	13	8	7	1	1	0	1	0	0	0	1	0	1	0	0	2	3	4	0	2	6	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:87965771T>G	uc003plm.3	+	8	2465	c.2424T>G	c.(2422-2424)ACT>ACG	p.T808T		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	808	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		ATACGTACACTTGTAAGTTCA	0.378													6	20					0	0	0.001168	0	0		G	87965771	G	G	87965771	2	3	37	1	0	0	0	0	0	0	0	1	17851	1596	56	5		5	ZNF292	6	87965771	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	25078621	87965771	83149296	340	32585											
ZNF292	23036	broad.mit.edu	37	chr6	87967537	87967537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtgggcacttatccaagcGatcttactgtaaaccactgg	10	10	11	10	1	1	0	0	0	1	0	2	1	2	0	2	3	3	2	2	3	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:87967537G>A	uc003plm.3	+	8	4231	c.4190G>A	c.(4189-4191)CGA>CAA	p.R1397Q		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1397	C2H2-type 8; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		TTATCCAAGCGATCTTACTGT	0.443													20	90					0	0	0.008871	0	0		A	87967537	A	A	87967537	3	1	37	1	0	0	0	0	1	0	0	0	17851	1058	37	1	4220	1	ZNF292	6	87967537	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1766	87967537	83147530	341	32586											
ZNF292	23036	broad.mit.edu	37	chr6	87968758	87968758	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtaaacactgtgcaaaataAcaaattacccgattcttctc	16	11	4	10	1	2	0	0	0	2	0	3	1	2	0	1	0	4	2	1	0	7	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:87968758A>G	uc003plm.3	+	8	5452	c.5411A>G	c.(5410-5412)AAC>AGC	p.N1804S		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1804					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		GTGCAAAATAACAAATTACCC	0.363													6	35					0	0	0.001168	0	0		G	87968758	G	G	87968758	3	3	37	1	0	0	0	0	1	0	0	0	17851	43	2	3	5441	3	ZNF292	6	87968758	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1221	87968758	83146309	342	32587											
MDN1	23195	broad.mit.edu	37	chr6	90382364	90382364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacagaggatggctcggatgGcaatttccatttgctctgaa	10	11	11	9	1	1	2	0	1	1	1	3	4	2	4	1	4	1	3	1	4	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:90382364G>A	uc003pnn.1	-	81	13648	c.13532C>T	c.(13531-13533)GCC>GTC	p.A4511V		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4511					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GGCTCGGATGGCAATTTCCAT	0.408													10	31					0	0	0.006214	0	0		A	90382364	A	A	90382364	3	1	37	1	0	0	0	0	1	0	0	0	9433	1203	42	2	3346	2	MDN1	6	90382364	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2413606	90382364	80732703	343	32588											
MDN1	23195	broad.mit.edu	37	chr6	90433306	90433306	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtactggcaatgaactcCatgtcaattactgtaagggg	14	10	10	7	0	1	1	1	1	0	0	2	1	2	1	1	3	3	3	1	3	7	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:90433306C>A	uc003pnn.1	-	39	5819	c.5703G>T	c.(5701-5703)ATG>ATT	p.M1901I		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1901					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CAATGAACTCCATGTCAATTA	0.348													6	13					2.0095e-06	2.17401e-06	0.001984	1	0		A	90433306	A	A	90433306	3	1	37	1	0	0	0	0	1	0	0	0	9433	594	21	5	11343	5	MDN1	6	90433306	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	50942	90433306	80681761	344	32589											
ASCC3	10973	broad.mit.edu	37	chr6	101037585	101037585	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacattttaactgtttgatgCttcaaatagtaataggaggc	14	14	8	5	0	1	1	1	1	0	0	1	2	1	2	0	2	3	3	0	2	6	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:101037585C>T	uc003pqk.2	-	36	5804	c.5475G>A	c.(5473-5475)AAG>AAA	p.K1825K		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1825	SEC63 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CTGTTTGATGCTTCAAATAGT	0.348													9	87					0	0	0.008291	0	0		T	101037585	T	T	101037585	2	4	37	1	0	0	0	0	0	0	0	1	1034	796	28	2		2	ASCC3	6	101037585	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	10604279	101037585	70077482	345	32590											
ASCC3	10973	broad.mit.edu	37	chr6	101100601	101100601	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttgcattagtataatacCtcaatggtgttgtatttaat	12	19	6	4	0	1	0	1	0	0	0	1	0	1	0	1	1	2	4	1	1	8	10			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:101100601C>A	uc003pqk.2	-	18	3317	c.2988G>T	c.(2986-2988)GAG>GAT	p.E996D	ASCC3_uc011eai.1_Missense_Mutation_p.E898D	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	996	SEC63 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		AGTATAATACCTCAATGGTGT	0.294													10	20					6.40141e-05	6.78804e-05	0.010729	1	0		A	101100601	A	A	101100601	3	1	37	1	0	0	0	0	1	0	0	0	1034	695	24	5	3720	5	ASCC3	6	101100601	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	63016	101100601	70014466	346	32591											
FIG4	9896	broad.mit.edu	37	chr6	110037748	110037748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctcgggcttatttcgagCggtttcagcttttggtgttg	4	17	12	8	3	1	0	1	0	0	0	4	1	2	0	1	3	2	4	1	3	1	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:110037748C>T	uc003ptt.2	+	3	481	c.266C>T	c.(265-267)GCG>GTG	p.A89V	FIG4_uc011eau.1_Intron	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	89					cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		TTATTTCGAGCGGTTTCAGCT	0.413													29	144					0	0	0.005524	0	0		T	110037748	T	T	110037748	3	4	37	1	0	0	0	0	1	0	0	0	5902	768	27	1	276	1	FIG4	6	110037748	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	8937147	110037748	61077319	347	32592											
C6orf204	387119	broad.mit.edu	37	chr6	118953732	118953732	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagttgtggcctgccacAatgattcattagcaggtagc	11	10	11	9	0	1	1	1	1	0	0	1	2	1	1	2	2	4	3	2	2	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:118953732A>C	uc003pxz.1	-	2	704	c.116T>G	c.(115-117)TTG>TGG	p.L39W	C6orf204_uc003pya.1_Missense_Mutation_p.L42W|C6orf204_uc003pyb.2_Missense_Mutation_p.L39W|C6orf204_uc011ebj.1_Translation_Start_Site|C6orf204_uc003pyc.2_Missense_Mutation_p.L42W|C6orf204_uc011ebl.1_Translation_Start_Site	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	39						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		GGCCTGCCACAATGATTCATT	0.408													12	42					0	0	0.010729	0	0		C	118953732	C	C	118953732	3	2	37	1	0	0	0	0	1	0	0	0	2356	131	5	5	2403	5	C6orf204	6	118953732	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	8915984	118953732	52161335	348	32593											
MAN1A1	4121	broad.mit.edu	37	chr6	119569513	119569513	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagttccactgctttctttcGaaaaatctgaaaagtcaaac	15	12	5	9	1	3	1	1	1	2	0	5	2	4	1	1	0	2	2	1	0	6	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:119569513G>A	uc003pym.1	-	6	1346	c.904C>T	c.(904-906)CGA>TGA	p.R302*	MAN1A1_uc010kei.1_Nonsense_Mutation_p.R325*	NM_005907	NP_005898	P33908	MA1A1_HUMAN	mannosidase, alpha, class 1A, member 1	302	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_epithelial(87;0.173)		OV - Ovarian serous cystadenocarcinoma(136;0.0612)|GBM - Glioblastoma multiforme(226;0.0702)|all cancers(137;0.115)		GCTTTCTTTCGAAAAATCTGA	0.348													8	20					0	0	0.00308	0	0		A	119569513	A	A	119569513	4	1	37	1	0	0	0	0	0	1	0	0	9228	1066	37	1	1089	1	MAN1A1	6	119569513	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	615781	119569513	51545554	349	32594											
ECHDC1	55862	broad.mit.edu	37	chr6	127651955	127651955	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaaaagatccctaataccTgaaaaggcattcattctact	17	11	4	9	0	2	2	1	1	1	1	3	2	3	2	2	1	2	1	2	1	8	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:127651955T>C	uc003qax.2	-	2	273	c.237A>G	c.(235-237)TCA>TCG	p.S79S	ECHDC1_uc003qaz.3_Silent_p.S73S|ECHDC1_uc010key.2_Intron|ECHDC1_uc003qay.3_Silent_p.S73S|ECHDC1_uc010kez.2_Intron|ECHDC1_uc010kex.2_RNA	NM_001139510	NP_001132982	Q9NTX5	ECHD1_HUMAN	enoyl Coenzyme A hydratase domain containing 1	79							catalytic activity				0				GBM - Glioblastoma multiforme(226;0.0423)|all cancers(137;0.156)		CCCTAATACCTGAAAAGGCAT	0.308													7	42					0	0	0.001984	0	0		C	127651955	C	C	127651955	2	2	37	1	0	0	0	0	0	0	0	1	4899	1594	55	3		3	ECHDC1	6	127651955	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	8082442	127651955	43463112	350	32595											
HBS1L	10767	broad.mit.edu	37	chr6	135318743	135318743	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatggcatcttcaatgggCggtcctttttgaggtgtgtg	6	14	14	7	1	2	1	1	1	1	0	3	1	3	1	1	4	0	2	1	4	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:135318743C>T	uc003qez.2	-	6	798	c.591G>A	c.(589-591)CCG>CCA	p.P197P	HBS1L_uc003qey.2_Silent_p.P33P|HBS1L_uc011ecy.1_Intron|HBS1L_uc011ecz.1_Silent_p.P33P|HBS1L_uc011eda.1_Silent_p.P155P	NM_006620	NP_006611	Q9Y450	HBS1L_HUMAN	Hsp70 subfamily B suppressor 1-like protein	197					signal transduction		GTP binding|GTPase activity|translation elongation factor activity			skin(2)	2	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0046)|GBM - Glioblastoma multiforme(68;0.00702)		CTTCAATGGGCGGTCCTTTTT	0.413													37	109					0	0	0.004878	0	0		T	135318743	T	T	135318743	2	4	37	1	0	0	0	0	0	0	0	1	7003	755	27	1		1	HBS1L	6	135318743	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	7666788	135318743	35796324	351	32596											
MYB	4602	broad.mit.edu	37	chr6	135507123	135507123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttcccaagtctggaaagCgtcacttggggaaaacaagg	12	8	12	9	1	2	0	1	0	1	0	3	2	3	2	1	4	3	1	1	4	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:135507123C>T	uc003qfc.2	+	2	305	c.106C>T	c.(106-108)CGT>TGT	p.R36C	MYB_uc003qfh.2_Missense_Mutation_p.R36C|MYB_uc003qfi.2_Missense_Mutation_p.R36C|MYB_uc010kgi.2_Missense_Mutation_p.R36C|MYB_uc003qfq.2_Missense_Mutation_p.R36C|MYB_uc010kgj.2_Missense_Mutation_p.R36C|MYB_uc003qfo.2_Missense_Mutation_p.R36C|MYB_uc003qfu.2_Missense_Mutation_p.R36C|MYB_uc003qfl.2_RNA|MYB_uc003qfv.2_RNA|MYB_uc003qfz.2_RNA|MYB_uc003qfx.2_RNA|MYB_uc003qga.2_RNA|MYB_uc003qgb.2_RNA|MYB_uc010kgk.2_RNA|MYB_uc003qfd.2_RNA|MYB_uc003qfe.2_RNA|MYB_uc003qfg.2_RNA|MYB_uc003qff.2_RNA|MYB_uc003qfj.2_RNA|MYB_uc003qfm.2_RNA|MYB_uc003qfp.2_RNA|MYB_uc003qfn.2_RNA|MYB_uc003qfk.2_RNA|MYB_uc003qfr.2_RNA|MYB_uc003qfs.2_5'UTR|MYB_uc003qft.2_RNA|MYB_uc003qfw.2_5'UTR|MYB_uc003qfy.2_RNA|MYB_uc003qgc.2_RNA|MYB_uc003qfb.1_Missense_Mutation_p.R36C|MYB_uc003qgd.1_5'Flank	NM_005375	NP_005366	P10242	MYB_HUMAN	v-myb myeloblastosis viral oncogene homolog	36	HTH myb-type 1.				blood coagulation|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone H3-K4 methylation|positive regulation of histone H3-K9 methylation|positive regulation of T-helper cell differentiation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear matrix	DNA binding|protein binding			lung(1)	1	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)		GTCTGGAAAGCGTCACTTGGG	0.398			T	NFIB	adenoid cystic carcinoma								17	50					0	0	0.00499	0	0		T	135507123	T	T	135507123	3	4	37	1	0	0	0	0	1	0	0	0	10025	768	27	1	112	1	MYB	6	135507123	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	188380	135507123	35607944	352	32597											
SLC35D3	340146	broad.mit.edu	37	chr6	137245806	137245806	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgaagaaggattatttgaTagaaaacgaggagttaccca	17	10	10	4	1	0	4	0	2	0	2	0	7	0	6	1	2	2	1	1	2	8	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:137245806T>C	uc003qhe.2	+	2	1388	c.1223T>C	c.(1222-1224)ATA>ACA	p.I408T		NM_001008783	NP_001008783	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	408					carbohydrate transport	integral to membrane				ovary(1)|central_nervous_system(1)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		GATTATTTGATAGAAAACGAG	0.423													19	41					0	0	0.008871	0	0		C	137245806	C	C	137245806	3	2	37	1	0	0	0	0	1	0	0	0	14608	1406	49	3	1229	3	SLC35D3	6	137245806	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1738683	137245806	33869261	353	32598											
MTHFD1L	25902	broad.mit.edu	37	chr6	151209072	151209072	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttccagagaaaagggtcCatgacaatgagcatccagtg	13	8	11	9	0	0	3	0	2	0	1	3	4	3	3	3	1	1	2	3	1	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:151209072C>T	uc003qob.2	+	7	1003	c.735C>T	c.(733-735)TCC>TCT	p.S245S	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Silent_p.S246S|MTHFD1L_uc003qoc.2_Silent_p.S193S|MTHFD1L_uc003qoa.1_Silent_p.S245S|MTHFD1L_uc010kil.1_RNA	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	245	Methylenetetrahydrofolate dehydrogenase and cyclohydrolase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		GAAAAGGGTCCATGACAATGA	0.383													5	82					0	0	0.000602	0	0		T	151209072	T	T	151209072	2	4	37	1	0	0	0	0	0	0	0	1	9946	581	21	4		4	MTHFD1L	6	151209072	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	13963266	151209072	19905995	354	32599											
SYNE1	23345	broad.mit.edu	37	chr6	152680514	152680514	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagttctagctgggtgacaTagtgttctgtcatgccagcc	7	12	13	9	0	3	1	1	1	2	0	3	2	3	2	2	2	3	3	2	2	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:152680514T>C	uc010kiw.2	-	65	10981	c.10379A>G	c.(10378-10380)TAT>TGT	p.Y3460C	SYNE1_uc003qot.3_Missense_Mutation_p.Y3467C|SYNE1_uc003qou.3_Missense_Mutation_p.Y3460C|SYNE1_uc010kja.1_Missense_Mutation_p.Y165C	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3460	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTGGGTGACATAGTGTTCTGT	0.458										HNSCC(10;0.0054)			6	111					0	0	0.001168	0	0		C	152680514	C	C	152680514	3	2	37	1	0	0	0	0	1	0	0	0	15470	1406	49	3	16415	3	SYNE1	6	152680514	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1471442	152680514	18434553	355	32600											
SYNE1	23345	broad.mit.edu	37	chr6	152749388	152749388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgtctgtctctccttcGccctccttaggatgtcctcg	2	13	9	17	4	2	0	0	0	2	0	8	1	5	1	5	1	0	0	5	1	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:152749388G>A	uc010kiw.2	-	37	5530	c.4928C>T	c.(4927-4929)GCG>GTG	p.A1643V	SYNE1_uc003qot.3_Missense_Mutation_p.A1650V|SYNE1_uc003qou.3_Missense_Mutation_p.A1643V|SYNE1_uc010kjb.1_Missense_Mutation_p.A1626V|SYNE1_uc003qow.2_Missense_Mutation_p.A938V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1643	Spectrin 1.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCTCTCCTTCGCCCTCCTTAG	0.537										HNSCC(10;0.0054)			12	323					0	0	0.004007	0	0		A	152749388	A	A	152749388	3	1	37	1	0	0	0	0	1	0	0	0	15470	1087	38	1	21978	1	SYNE1	6	152749388	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	68874	152749388	18365679	356	32601											
SYNE1	23345	broad.mit.edu	37	chr6	152831394	152831394	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttggatcttggtggtcAccttccgtttacttggtggg	3	17	12	9	1	2	0	1	0	1	0	4	1	4	1	3	5	1	1	3	5	1	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:152831394A>G	uc010kiw.2	-	8	1117	c.515T>C	c.(514-516)GTG>GCG	p.V172A	SYNE1_uc003qot.3_Missense_Mutation_p.V179A|SYNE1_uc003qou.3_Missense_Mutation_p.V172A|SYNE1_uc010kjb.1_Missense_Mutation_p.V172A|SYNE1_uc003qpa.1_Missense_Mutation_p.V172A	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	172	Actin-binding.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTTGGTGGTCACCTTCCGTTT	0.488										HNSCC(10;0.0054)			4	94					0	0	0.000602	0	0		G	152831394	G	G	152831394	3	3	37	1	0	0	0	0	1	0	0	0	15470	159	6	3	26507	3	SYNE1	6	152831394	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	82006	152831394	18283673	357	32602											
C6orf118	168090	broad.mit.edu	37	chr6	165715776	165715776	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgtctcgcagtgcttccacTtcaggtacactggtcagaaa	9	10	10	12	2	3	1	2	0	1	1	5	1	4	1	1	2	2	3	1	2	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:165715776T>G	uc003qum.3	-	2	71	c.35A>C	c.(34-36)AAG>ACG	p.K12T	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	12											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		GTGCTTCCACTTCAGGTACAC	0.532													23	71					0	0	0.00278	0	0		G	165715776	G	G	165715776	3	3	37	1	0	0	0	0	1	0	0	0	2326	1609	56	5	1406	5	C6orf118	6	165715776	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	12884382	165715776	5399291	358	32603											
T	6862	broad.mit.edu	37	chr6	166580221	166580221	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccggcttgccccccggCacccattccccgttcacgta	4	8	9	20	4	1	0	1	0	0	0	3	0	3	0	7	3	1	5	7	3	1	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:166580221C>T	uc003quu.1	-	3	823	c.330G>A	c.(328-330)GTG>GTA	p.V110V	T_uc003qut.1_Silent_p.V110V|T_uc003quv.1_Silent_p.V110V	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	110	T-box.				anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		TGCCCCCCGGCACCCATTCCC	0.657									Chordoma_Familial_Clustering_of				6	75					0	0	0.001984	0	0		T	166580221	T	T	166580221	2	4	37	1	0	0	0	0	0	0	0	1	15513	697	25	2		2	T	6	166580221	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	864445	166580221	4534846	359	32604											
UNC93A	54346	broad.mit.edu	37	chr6	167721272	167721272	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctctgcacccccaggcgcgGtgacccacgtgtcctgcatg	5	7	11	18	3	1	1	0	1	1	0	2	1	2	1	5	2	2	2	5	2	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:167721272G>A	uc003qvq.2	+	7	1157	c.982G>A	c.(982-984)GTG>ATG	p.V328M	UNC93A_uc003qvr.2_Missense_Mutation_p.V286M	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	328	Helical; (Potential).					integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CCCAGGCGCGGTGACCCACGT	0.622													4	78					0	0	0.009096	0	0		A	167721272	A	A	167721272	3	1	37	1	0	0	0	0	1	0	0	0	17022	1261	44	4	1008	4	UNC93A	6	167721272	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1141051	167721272	3393795	360	32605											
DLL1	28514	broad.mit.edu	37	chr6	170597536	170597536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaccactcctcgcccaccGtcaggtgcctctgggtggcc	4	7	13	17	2	2	0	1	0	1	0	4	1	3	1	6	4	1	0	6	4	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:170597536G>A	uc003qxm.2	-	4	931	c.461C>T	c.(460-462)ACG>ATG	p.T154M	DLL1_uc011ehc.1_Missense_Mutation_p.T154M|DLL1_uc003qxn.3_3'UTR	NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	154	Extracellular (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		CTCGCCCACCGTCAGGTGCCT	0.607													12	33					0	0	0.013537	0	0		A	170597536	A	A	170597536	3	1	37	1	0	0	0	0	1	0	0	0	4572	1145	40	1	1742	1	DLL1	6	170597536	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2876264	170597536	517531	361	32606											
C7orf27	221927	broad.mit.edu	37	chr7	2578167	2578167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggggcagtgggtacgcggcgGccccaaagtctggcccagga	7	4	18	12	3	1	0	0	0	1	0	1	1	1	1	3	7	1	2	3	7	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:2578167G>A	uc003smi.2	-	14	2044	c.2002C>T	c.(2002-2004)CCG>TCG	p.P668S	C7orf27_uc003smh.3_Missense_Mutation_p.P100S	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	668					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)		GTACGCGGCGGCCCCAAAGTC	0.716													8	15					0	0	0.00308	0	0		A	2578167	A	A	2578167	3	1	37	1	0	0	0	0	1	0	0	0	2385	1203	42	2	467	2	C7orf27	7	2578167	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08		2578167	156560496	362	32607											
CARD11	84433	broad.mit.edu	37	chr7	2962848	2962848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcacgaagctccctcgcGcgttgccccccagcagggtg	6	6	13	16	4	0	0	0	0	0	0	2	1	1	0	4	1	4	4	4	1	1	1	rs41493047	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:2962848G>A	uc003smv.2	-	16	2464	c.2060C>T	c.(2059-2061)GCG>GTG	p.A687V		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	687	PDZ.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GCTCCCTCGCGCGTTGCCCCC	0.697			Mis		DLBCL								6	77					0	0	0.001168	0	0		A	2962848	A	A	2962848	3	1	37	1	0	0	0	0	1	0	0	0	2648	1087	38	1	1444	1	CARD11	7	2962848	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	384681	2962848	156175815	363	32608											
KIAA0415	9907	broad.mit.edu	37	chr7	4830444	4830444	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgccctgcccaggtgTcccccccaggtggtcaccgt	3	9	11	18	1	2	0	1	0	1	0	3	0	3	0	6	3	3	1	6	3	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:4830444T>C	uc003sne.2	+	16	2162	c.2079T>C	c.(2077-2079)TGT>TGC	p.C693C	KIAA0415_uc010ksp.2_RNA|KIAA0415_uc003snf.2_Silent_p.C170C	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	693					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		TGCCCAGGTGTCCCCCCCAGG	0.647													3	23					0	0	0.009096	0	0		C	4830444	C	C	4830444	2	2	37	1	0	0	0	0	0	0	0	1	8191	1673	58	3		3	KIAA0415	7	4830444	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1867596	4830444	154308219	364	32609											
FBXL18	80028	broad.mit.edu	37	chr7	5540477	5540477	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcttcagcagagaccagaAcacggaggagggctgggggc	10	5	17	9	1	2	2	1	0	1	2	2	5	2	4	1	5	2	3	1	5	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:5540477A>G	uc003soo.2	-	3	1517	c.1423T>C	c.(1423-1425)TTC>CTC	p.F475L	FBXL18_uc003son.3_Missense_Mutation_p.F475L	NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	475	LRR 8.									central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)		AGAGACCAGAACACGGAGGAG	0.657													10	31					0	0	0.010729	0	0		G	5540477	G	G	5540477	3	3	37	1	0	0	0	0	1	0	0	0	5728	43	2	3	745	3	FBXL18	7	5540477	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	710033	5540477	153598186	365	32610											
ACTB	60	broad.mit.edu	37	chr7	5568135	5568137	+	In_Frame_Del	DEL	GAG	-	-																															aagctgtagccgcgctcggtGaggatcttcatgaggtagtc																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:5568135_5568137delGAG	uc003sos.3	-	3	613_615	c.577_579delCTC	c.(577-579)CTCdel	p.L193del	ACTB_uc003sor.3_In_Frame_Del_p.L71del|ACTB_uc003sot.3_In_Frame_Del_p.L193del|ACTB_uc003soq.3_In_Frame_Del_p.L71del|ACTB_uc010ksy.2_In_Frame_Del_p.L71del	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	193					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		CGCGCTCGGTGAGGATCTTCATG	0.611													47	99	---	---	---	---						.	-	5568137	-	-	5568135	7	5	37	1	0	1	0	1	0	0	0	0	193	1277	45	0	560	0	ACTB	7	5568135	In_Frame_Del	DEL	GAG	TCGA-BR-6566-01A-11D-1800-08	27658	5568135	153570528	366	32611											
FERD3L	222894	broad.mit.edu	37	chr7	19184940	19184940	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggacaggtctgcgacgaAgtccagcaccgtagtgtcca	10	6	13	12	3	1	0	0	0	1	0	3	3	3	1	3	2	2	2	3	2	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:19184940A>C	uc003suo.1	-	1	105	c.46T>G	c.(46-48)TTC>GTC	p.F16V	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	16					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						TCTGCGACGAAGTCCAGCACC	0.682													8	58					0	0	0.00308	0	0		C	19184940	C	C	19184940	3	2	37	1	0	0	0	0	1	0	0	0	5830	72	3	5	458	5	FERD3L	7	19184940	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	13616805	19184940	139953723	367	32612											
OSBPL3	26031	broad.mit.edu	37	chr7	24839808	24839808	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttctttactttttcaccaTaagacaggatggtccagttt	9	17	6	9	0	3	1	1	0	2	1	4	2	4	2	2	2	1	1	2	2	2	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:24839808T>C	uc003sxf.2	-	23	3063	c.2658A>G	c.(2656-2658)TTA>TTG	p.L886L	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Silent_p.L850L|OSBPL3_uc003sxh.2_Silent_p.L855L|OSBPL3_uc003sxi.2_Silent_p.L819L	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	886					lipid transport		lipid binding|protein binding			skin(1)	1						TTTTTCACCATAAGACAGGAT	0.383													4	27					0	0	0.000602	0	0		C	24839808	C	C	24839808	2	2	37	1	0	0	0	0	0	0	0	1	11298	1403	49	3		3	OSBPL3	7	24839808	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	5654868	24839808	134298855	368	32613											
HOXA6	3203	broad.mit.edu	37	chr7	27185359	27185359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcctttttccacttcatgCggcggttctggaaccagatc	6	15	8	12	2	2	1	1	0	1	1	5	2	4	2	3	3	2	1	3	3	1	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:27185359C>T	uc003syo.1	-	2	620	c.620G>A	c.(619-621)CGC>CAC	p.R207H	HOXA5_uc003syn.1_5'Flank|uc003syp.1_5'Flank	NM_024014	NP_076919	P31267	HXA6_HUMAN	homeobox A6	207	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CCACTTCATGCGGCGGTTCTG	0.602													11	317					0	0	0.001855	0	0		T	27185359	T	T	27185359	3	4	37	1	0	0	0	0	1	0	0	0	7312	768	27	1	85	1	HOXA6	7	27185359	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2345551	27185359	131953304	369	32614											
TRIL	9865	broad.mit.edu	37	chr7	28997405	28997405	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtactgcaggtccagccgTctgagctgccccagacggtg	6	9	13	13	2	1	2	0	1	1	1	2	2	2	2	4	2	5	3	4	2	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:28997405T>G	uc003szt.2	-	3	625	c.258A>C	c.(256-258)AGA>AGC	p.R86S	uc003szu.1_5'Flank	NM_014817	NP_055632	Q7L0X0	TRIL_HUMAN	TLR4 interactor with leucine rich repeats	86	LRR 2.|Extracellular (Potential).				inflammatory response|innate immune response|regulation of cytokine production involved in immune response|toll-like receptor 4 signaling pathway	lipopolysaccharide receptor complex	lipopolysaccharide binding				0						GGTCCAGCCGTCTGAGCTGCC	0.617													16	59					0	0	0.004007	0	0		G	28997405	G	G	28997405	3	3	37	1	0	0	0	0	1	0	0	0	16511	1664	58	5	2181	5	TRIL	7	28997405	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1812046	28997405	130141258	370	32615											
CPVL	54504	broad.mit.edu	37	chr7	29105640	29105640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttaaaatgtcattaccGtgcaccgcaaaaagttatag	14	13	7	7	2	1	0	1	0	0	0	1	0	1	0	2	0	2	4	2	0	7	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:29105640G>A	uc003szv.2	-	10	1081	c.962C>T	c.(961-963)ACG>ATG	p.T321M	CPVL_uc003szw.2_Missense_Mutation_p.T321M|CPVL_uc003szx.2_Missense_Mutation_p.T321M	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	321					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						TGTCATTACCGTGCACCGCAA	0.323													12	65					0	0	0.013537	0	0		A	29105640	A	A	29105640	3	1	37	1	0	0	0	0	1	0	0	0	3838	1159	40	1	484	1	CPVL	7	29105640	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	108235	29105640	130033023	371	32616											
POU6F2	11281	broad.mit.edu	37	chr7	39472802	39472802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcccagggccagatcatcGccacagtcattgggaaccag	11	5	11	14	2	2	1	2	0	0	1	3	2	2	2	4	2	1	0	4	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:39472802G>A	uc003thb.1	+	7	1195	c.1153G>A	c.(1153-1155)GCC>ACC	p.A385T		NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1	385	Gln-rich.				central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						CCAGATCATCGCCACAGTCAT	0.602													4	99					0	0	0.009096	0	0		A	39472802	A	A	39472802	3	1	37	1	0	0	0	0	1	0	0	0	12304	1087	38	1	1179	1	POU6F2	7	39472802	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	10367162	39472802	119665861	372	32617											
ZMIZ2	83637	broad.mit.edu	37	chr7	44802877	44802877	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcggaacttcagcagcggCaccatccctggcacccctgg	9	5	11	16	2	1	0	1	0	0	0	2	1	2	1	4	4	4	3	4	4	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:44802877C>T	uc003tlr.2	+	13	1848	c.1725C>T	c.(1723-1725)GGC>GGT	p.G575G	ZMIZ2_uc003tlq.2_Silent_p.G517G|ZMIZ2_uc003tls.2_Silent_p.G549G|ZMIZ2_uc003tlt.2_Silent_p.G198G|ZMIZ2_uc010kyj.2_Silent_p.G97G|ZMIZ2_uc003tlu.2_5'Flank	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	575					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						TCAGCAGCGGCACCATCCCTG	0.587													33	178					0	0	0.010818	0	0		T	44802877	T	T	44802877	2	4	37	1	0	0	0	0	0	0	0	1	17722	697	25	2		2	ZMIZ2	7	44802877	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5330075	44802877	114335786	373	32618											
TNS3	64759	broad.mit.edu	37	chr7	47344511	47344511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaggagggcgtcgaggacGcatcagcccggagcatcgtg	10	4	17	10	5	1	0	1	0	0	0	3	5	1	3	1	4	2	2	1	4	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:47344511G>A	uc003tnv.2	-	21	3108	c.2741C>T	c.(2740-2742)GCG>GTG	p.A914V	TNS3_uc003tnw.2_Missense_Mutation_p.A914V	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	914						focal adhesion	protein binding			ovary(4)	4						CGTCGAGGACGCATCAGCCCG	0.582													13	46					0	0	0.013537	0	0		A	47344511	A	A	47344511	3	1	37	1	0	0	0	0	1	0	0	0	16369	1087	38	1	1640	1	TNS3	7	47344511	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2541634	47344511	111794152	374	32619											
COBL	23242	broad.mit.edu	37	chr7	51111346	51111346	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgacagcacctgcggggcTccatccgggctgcagtggct	5	8	14	14	2	1	1	0	1	1	0	3	1	3	1	3	4	3	5	3	4	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:51111346T>C	uc003tpr.3	-	8	1325	c.1140A>G	c.(1138-1140)GGA>GGG	p.G380G	COBL_uc003tps.2_Silent_p.G437G|COBL_uc011kcl.1_Silent_p.G380G|COBL_uc010kzc.2_Silent_p.G380G|COBL_uc003tpp.3_Silent_p.G166G|COBL_uc003tpq.3_Silent_p.G321G	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	380										skin(3)|ovary(2)	5	Glioma(55;0.08)					CCTGCGGGGCTCCATCCGGGC	0.632													13	45					0	0	0.013537	0	0		C	51111346	C	C	51111346	2	2	37	1	0	0	0	0	0	0	0	1	3656	1538	54	3		3	COBL	7	51111346	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	3766835	51111346	108027317	375	32620											
KCTD7	154881	broad.mit.edu	37	chr7	66103382	66103382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgaagggcgagaaggtgCgccaagcgtttctgggactc	9	7	15	10	3	1	2	0	1	1	1	2	4	1	3	1	3	2	1	1	3	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:66103382C>T	uc003tve.2	+	3	619	c.457C>T	c.(457-459)CGC>TGC	p.R153C	RABGEF1_uc003tvf.2_5'UTR|KCTD7_uc003tvd.3_Missense_Mutation_p.R153C	NM_153033	NP_694578	Q96MP8	KCTD7_HUMAN	potassium channel tetramerisation domain	153						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)	3						CGAGAAGGTGCGCCAAGCGTT	0.582													13	86					0	0	0.013537	0	0		T	66103382	T	T	66103382	3	4	37	1	0	0	0	0	1	0	0	0	8130	768	27	1	467	1	KCTD7	7	66103382	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	14992036	66103382	93035281	376	32621											
FZD9	8326	broad.mit.edu	37	chr7	72849399	72849399	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgaggccatcgaggcccaCggcagctatttccacatggc	9	6	11	15	3	0	0	0	0	0	0	2	2	1	0	3	4	1	2	3	4	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:72849399C>T	uc003tyb.2	+	1	1291	c.1062C>T	c.(1060-1062)CAC>CAT	p.H354H		NM_003508	NP_003499	O00144	FZD9_HUMAN	frizzled 9 precursor	354	Cytoplasmic (Potential).				B cell differentiation|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|neuroblast proliferation|vasculature development	cell surface|filopodium membrane|integral to membrane|perinuclear region of cytoplasm	G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				TCGAGGCCCACGGCAGCTATT	0.642													6	96					0	0	0.001984	0	0		T	72849399	T	T	72849399	2	4	37	1	0	0	0	0	0	0	0	1	6151	535	19	1		1	FZD9	7	72849399	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	6746017	72849399	86289264	377	32622											
WBSCR28	135886	broad.mit.edu	37	chr7	73275584	73275584	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcctgttgcaggttacgagGctctcagtgctggtgagtgg	6	12	15	8	1	1	1	1	1	1	0	3	2	2	1	1	4	3	5	1	4	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:73275584G>A	uc003tzk.2	+	1	96	c.60G>A	c.(58-60)AGG>AGA	p.R20R	RFC2_uc011kfa.1_Intron|WBSCR28_uc003tzl.2_5'UTR	NM_182504	NP_872310	Q6UE05	WBS28_HUMAN	hypothetical protein LOC135886	20						integral to membrane				breast(1)	1		Lung NSC(55;0.159)				AGGTTACGAGGCTCTCAGTGC	0.642													4	48					0	0	0.009096	0	0		A	73275584	A	A	73275584	2	1	37	1	0	0	0	0	0	0	0	1	17293	1194	42	2		2	WBSCR28	7	73275584	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	426185	73275584	85863079	378	32623											
CCDC146	57639	broad.mit.edu	37	chr7	76889459	76889459	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaaggaagttgaaggcaaaCgagccttacttgaaatcaaa	18	8	9	6	1	1	2	1	2	0	0	1	4	1	3	1	2	3	2	1	2	8	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:76889459C>T	uc003uga.2	+	8	1019	c.892C>T	c.(892-894)CGA>TGA	p.R298*	CCDC146_uc010ldp.2_Nonsense_Mutation_p.R44*	NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	298	Potential.									ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				TGAAGGCAAACGAGCCTTACT	0.363													5	73					0	0	0.001168	0	0		T	76889459	T	T	76889459	4	4	37	1	0	0	0	0	0	1	0	0	2783	528	19	1	918	1	CCDC146	7	76889459	Nonsense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3613875	76889459	82249204	379	32624											
SEMA3D	223117	broad.mit.edu	37	chr7	84702392	84702392	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actctgatgaaatttgcacaTtctgtctgttgggcacaaaa	12	13	8	8	0	3	2	0	2	3	0	3	2	3	2	0	1	1	3	0	1	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:84702392T>C	uc003uic.2	-	4	421	c.381A>G	c.(379-381)GAA>GAG	p.E127E	SEMA3D_uc010led.2_Silent_p.E127E|SEMA3D_uc010lee.1_Silent_p.E127E	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	127	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						AATTTGCACATTCTGTCTGTT	0.343													5	54					0	0	0.001168	0	0		C	84702392	C	C	84702392	2	2	37	1	0	0	0	0	0	0	0	1	14052	1490	52	3		3	SEMA3D	7	84702392	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	7812933	84702392	74436271	380	32625											
AKAP9	10142	broad.mit.edu	37	chr7	91631714	91631714	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagaaatacttatagaggAaaatgaggacctcaaacaac	21	7	7	6	0	1	3	1	1	0	2	1	5	1	5	1	2	3	0	1	2	10	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:91631714A>G	uc003ulg.2	+	8	2708	c.2483A>G	c.(2482-2484)GAA>GGA	p.E828G	AKAP9_uc003ule.2_Missense_Mutation_p.E840G|AKAP9_uc003ulf.2_Missense_Mutation_p.E828G|AKAP9_uc003uli.2_Missense_Mutation_p.E453G	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	840	Glu-rich.|Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CTTATAGAGGAAAATGAGGAC	0.323			T	BRAF	papillary thyroid								8	90					0	0	0.00308	0	0		G	91631714	G	G	91631714	3	3	37	1	0	0	0	0	1	0	0	0	459	246	9	3	2513	3	AKAP9	7	91631714	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	6929322	91631714	67506949	381	32626											
FAM133B	257415	broad.mit.edu	37	chr7	92208639	92208639	+	Frame_Shift_Del	DEL	T	-	-																															ctttttacaaacctcattcaTtttttcttcaaattcagcca																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:92208639delT	uc003umc.2	-	3	294	c.193delA	c.(193-195)ATGfs	p.M65fs	FAM133B_uc003umb.2_Frame_Shift_Del_p.M55fs|FAM133B_uc003umd.2_RNA	NM_152789	NP_690002	Q5BKY9	F133B_HUMAN	hypothetical protein LOC257415 isoform 1	65	Lys-rich.									ovary(1)	1	all_cancers(62;7.39e-11)|all_epithelial(64;7.03e-10)|Breast(17;0.00201)|all_lung(186;0.0384)|Lung NSC(181;0.053)|all_hematologic(106;0.237)		STAD - Stomach adenocarcinoma(4;6.16e-07)|GBM - Glioblastoma multiforme(5;9.78e-06)|all cancers(6;1.67e-05)|Epithelial(20;0.113)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			ACCTCATTCATTTTTTCTTCA	0.204													22	38	---	---	---	---						.	-	92208639	-	-	92208639	7	5	37	1	0	1	0	1	0	0	0	0	5455	1493	52	0	586	0	FAM133B	7	92208639	Frame_Shift_Del	DEL	T	TCGA-BR-6566-01A-11D-1800-08	576925	92208639	66930024	382	32627											
CALCR	799	broad.mit.edu	37	chr7	93108738	93108738	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatccatcatcttctttcGtcctacgacgtaaagaaatg	11	13	6	11	3	3	1	1	0	2	1	6	2	5	1	2	0	2	2	2	0	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:93108738G>A	uc003umv.1	-	4	448	c.187C>T	c.(187-189)CGA>TGA	p.R63*	CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Nonsense_Mutation_p.R45*|CALCR_uc003umw.2_Nonsense_Mutation_p.R45*	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	45	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding	p.R45*(1)		ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	ATCTTCTTTCGTCCTACGACG	0.398													6	170					0	0	0.001984	0	0		A	93108738	A	A	93108738	4	1	37	1	0	0	0	0	0	1	0	0	2582	1153	40	1	1387	1	CALCR	7	93108738	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	900099	93108738	66029925	383	32628											
COL1A2	1278	broad.mit.edu	37	chr7	94034179	94034179	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtgctcgtggtccagctgGccctcctggcaaggctggtg	4	9	16	12	1	0	0	0	0	0	0	3	0	2	0	3	6	2	4	3	6	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:94034179G>A	uc003ung.1	+	9	878	c.407G>A	c.(406-408)GGC>GAC	p.G136D	COL1A2_uc011kib.1_Missense_Mutation_p.G136D|COL1A2_uc010lfh.1_5'Flank	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	136					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GGTCCAGCTGGCCCTCCTGGC	0.393										HNSCC(75;0.22)			23	123					0	0	0.012319	0	0		A	94034179	A	A	94034179	3	1	37	1	0	0	0	0	1	0	0	0	3681	1203	42	2	441	2	COL1A2	7	94034179	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	925441	94034179	65104484	384	32629											
ZNF655	79027	broad.mit.edu	37	chr7	99170985	99170985	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgtggaaaagctttcagTcaaacctcatgccttattca	13	12	7	9	0	4	0	4	0	0	0	4	2	4	1	2	1	3	1	2	1	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:99170985T>C	uc003urh.2	+	3	1647	c.1254T>C	c.(1252-1254)AGT>AGC	p.S418S	ZNF655_uc010lga.2_Silent_p.S453S|ZNF655_uc010lgc.2_Silent_p.S453S|ZNF655_uc003urj.2_Silent_p.S418S|ZNF655_uc003urk.2_Silent_p.S255S|ZNF655_uc010lgd.2_Silent_p.S255S	NM_138494	NP_612503	Q8N720	ZN655_HUMAN	zinc finger protein 655 isoform a	418	C2H2-type 6.				G1 phase|regulation of mitotic cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_epithelial(64;3.19e-09)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					AAGCTTTCAGTCAAACCTCAT	0.368													34	56					0	0	0.012213	0	0		C	99170985	C	C	99170985	2	2	37	1	0	0	0	0	0	0	0	1	18093	1664	58	3		3	ZNF655	7	99170985	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	5136806	99170985	59967678	385	32630											
CYP3A7	1551	broad.mit.edu	37	chr7	99315250	99315250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatttttcataaatcccaCtggcccgaaaggctagagtt	11	11	9	10	1	1	1	1	0	0	1	2	2	2	1	2	3	0	3	2	3	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:99315250C>T	uc003uru.2	-	5	436	c.331G>A	c.(331-333)GTG>ATG	p.V111M	ZNF498_uc003urn.2_Intron|CYP3A5_uc003urs.2_Intron|CYP3A5_uc010lgg.2_Intron	NM_000765	NP_000756	P24462	CP3A7_HUMAN	cytochrome P450, family 3, subfamily A,	111					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)	1	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)					ATAAATCCCACTGGCCCGAAA	0.408													3	53					0	0	0.004672	0	0		T	99315250	T	T	99315250	3	4	37	1	0	0	0	0	1	0	0	0	4184	565	20	4	1216	4	CYP3A7	7	99315250	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	144265	99315250	59823413	386	32631											
STAG3	10734	broad.mit.edu	37	chr7	99787211	99787211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagagcctgttggagaaaCgcaaagaggtgaggagtgtt	12	8	17	4	1	0	4	0	1	0	3	0	7	0	5	1	4	2	3	1	4	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:99787211C>T	uc003utx.1	+	8	1014	c.859C>T	c.(859-861)CGC>TGC	p.R287C	STAG3_uc010lgs.1_Missense_Mutation_p.R75C|STAG3_uc011kjk.1_Missense_Mutation_p.R229C	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	287					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GTTGGAGAAACGCAAAGAGGT	0.552													7	143					0	0	0.001984	0	0		T	99787211	T	T	99787211	3	4	37	1	0	0	0	0	1	0	0	0	15269	536	19	1	885	1	STAG3	7	99787211	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	471961	99787211	59351452	387	32632											
EPHB4	2050	broad.mit.edu	37	chr7	100410518	100410518	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagaaactcacgccgctGccgctccgtgtagccaccct	7	7	9	18	4	2	1	2	0	0	1	3	1	3	1	5	0	3	4	5	0	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:100410518G>C	uc003uwn.1	-	12	2460	c.1969C>G	c.(1969-1971)CAG>GAG	p.Q657E	EPHB4_uc003uwm.1_Missense_Mutation_p.Q564E|EPHB4_uc010lhj.1_Missense_Mutation_p.Q657E	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	657	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					TCACGCCGCTGCCGCTCCGTG	0.627													37	188					0	0	0.004878	0	0		C	100410518	C	C	100410518	3	2	37	1	0	0	0	0	1	0	0	0	5185	1328	46	5	1018	5	EPHB4	7	100410518	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	623307	100410518	58728145	388	32633											
EPHB4	2050	broad.mit.edu	37	chr7	100416267	100416267	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcagacactgcaggaggtaCtgtgagaggcagagacacag	13	5	15	8	0	1	3	1	1	0	3	1	6	1	4	0	3	2	3	0	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:100416267C>G	uc003uwn.1	-	7	1789	c.1298_splice	c.e7-1	p.V433_splice	EPHB4_uc003uwm.1_Splice_Site_p.V340_splice|EPHB4_uc010lhj.1_Splice_Site_p.V433_splice|EPHB4_uc011kkf.1_Splice_Site_p.V433_splice|EPHB4_uc011kkg.1_Intron|EPHB4_uc011kkh.1_Intron	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor						cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					GCAGGAGGTACTGTGAGAGGC	0.483													7	28					0	0	0.001984	0	0		G	100416267	G	G	100416267	5	3	37	1	0	0	0	0	0	0	1	0	5185	579	20	5	1710	5	EPHB4	7	100416267	Splice_Site	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5749	100416267	58722396	389	32634											
FBXL13	222235	broad.mit.edu	37	chr7	102604067	102604067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctttgcaaagtagacaCtatatatttatctggaatca	14	13	5	9	0	2	1	1	0	1	1	2	2	2	2	2	1	1	2	2	1	7	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:102604067C>T	uc003vaq.2	-	8	1064	c.637G>A	c.(637-639)GTG>ATG	p.V213M	FBXL13_uc010liq.1_Missense_Mutation_p.V28M|FBXL13_uc010lir.1_Missense_Mutation_p.V213M|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Missense_Mutation_p.V213M|FBXL13_uc003vav.2_RNA	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	213											0						AAAGTAGACACTATATATTTA	0.289													7	78					0	0	0.00308	0	0		T	102604067	T	T	102604067	3	4	37	1	0	0	0	0	1	0	0	0	5723	565	20	4	1622	4	FBXL13	7	102604067	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2187800	102604067	56534596	390	32635											
PSMC2	5701	broad.mit.edu	37	chr7	102996164	102996164	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaagaatctgacactggcCtggccccaccagcactctgg	10	8	9	14	0	2	2	0	1	2	1	2	2	2	2	4	3	1	1	4	3	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:102996164C>A	uc003vbs.2	+	4	284	c.214C>A	c.(214-216)CTG>ATG	p.L72M	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011kln.1_Missense_Mutation_p.L72M|PSMC2_uc011klo.1_Intron	NM_002803	NP_002794	P35998	PRS7_HUMAN	proteasome 26S ATPase subunit 2	72					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0						TGACACTGGCCTGGCCCCACC	0.413													7	67					0.000274275	0.000289094	0.004482	1	0		A	102996164	A	A	102996164	3	1	37	1	0	0	0	0	1	0	0	0	12708	680	24	5	228	5	PSMC2	7	102996164	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	392097	102996164	56142499	391	32636											
PNPLA8	50640	broad.mit.edu	37	chr7	108119718	108119718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacatcactctcataacGtccagtgcccagggatacta	11	10	6	14	1	3	0	3	0	2	0	6	1	4	1	2	1	3	0	2	1	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:108119718G>A	uc003vff.1	-	11	2391	c.1984C>T	c.(1984-1986)CGT>TGT	p.R662C	PNPLA8_uc003vfg.1_RNA|PNPLA8_uc003vfh.1_Missense_Mutation_p.R662C|PNPLA8_uc003vfi.1_Missense_Mutation_p.R562C|PNPLA8_uc003vfj.1_Missense_Mutation_p.R662C|PNPLA8_uc003vfk.1_Missense_Mutation_p.R562C	NM_015723	NP_056538	Q9NP80	PLPL8_HUMAN	patatin-like phospholipase domain containing 8	662					fatty acid metabolic process|lipid catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|membrane fraction|perinuclear region of cytoplasm|peroxisomal membrane	ATP binding|calcium-independent phospholipase A2 activity|lysophospholipase activity			breast(2)	2						CTCTCATAACGTCCAGTGCCC	0.418													41	81					0	0	0.00874	0	0		A	108119718	A	A	108119718	3	1	37	1	0	0	0	0	1	0	0	0	12190	1145	40	1	372	1	PNPLA8	7	108119718	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5123554	108119718	51018945	392	32637											
GPR85	54329	broad.mit.edu	37	chr7	112724532	112724532	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtccaggtagaaccatttTtgacagagttgaacacaaat	16	10	8	7	0	0	4	0	2	0	2	1	4	1	4	2	1	2	2	2	1	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:112724532T>C	uc010ljv.2	-	2	762	c.245A>G	c.(244-246)AAA>AGA	p.K82R	GPR85_uc003vgp.1_Missense_Mutation_p.K82R|GPR85_uc003vgq.2_Missense_Mutation_p.K82R|GPR85_uc010ljw.1_Missense_Mutation_p.K82R	NM_001146266	NP_001139738	P60893	GPR85_HUMAN	G protein-coupled receptor 85	82	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)	2						AGAACCATTTTTGACAGAGTT	0.433													3	105					0	0	0.004672	0	0		C	112724532	C	C	112724532	3	2	37	1	0	0	0	0	1	0	0	0	6730	1841	64	3	871	3	GPR85	7	112724532	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	4604814	112724532	46414131	393	32638											
MET	4233	broad.mit.edu	37	chr7	116423356	116423356	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataatttttgtcctttctgtAggctggatgaaaaattcaca	12	16	7	6	0	2	1	1	1	1	0	3	2	3	2	1	2	0	2	1	2	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:116423356A>G	uc003vij.2	+	19	3820	c.3633_splice	c.e19-2	p.M1211_splice	MET_uc010lkh.2_Splice_Site_p.M1229_splice|MET_uc011knj.1_Splice_Site_p.M781_splice	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor						axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			TCCTTTCTGTAGGCTGGATGA	0.348			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				10	32					0	0	0.008291	0	0		G	116423356	G	G	116423356	5	3	37	1	0	0	0	0	0	0	1	0	9503	434	15	3	3755	3	MET	7	116423356	Splice_Site	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3698824	116423356	42715307	394	32639											
SPAM1	6677	broad.mit.edu	37	chr7	123593877	123593877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccccgaataaacgccaccGggcaaggtgttacaatattt	12	8	9	12	3	0	0	0	0	0	0	0	1	0	0	4	2	2	2	4	2	7	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:123593877G>A	uc003vld.2	+	4	655	c.253G>A	c.(253-255)GGG>AGG	p.G85R	SPAM1_uc003vle.2_Missense_Mutation_p.G85R|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.G85R|SPAM1_uc010lku.2_Missense_Mutation_p.G85R	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	85					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	AAACGCCACCGGGCAAGGTGT	0.433													20	49					0	0	0.010504	0	0		A	123593877	A	A	123593877	3	1	37	1	0	0	0	0	1	0	0	0	15011	1116	39	1	255	1	SPAM1	7	123593877	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	7170521	123593877	35544786	395	32640											
SPAM1	6677	broad.mit.edu	37	chr7	123594152	123594152	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattggttcagcaacaaaaTgtacaacttagtctcacaga	16	10	7	8	0	2	1	2	0	1	1	3	2	2	1	0	1	4	3	0	1	7	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:123594152T>C	uc003vld.2	+	4	930	c.528T>C	c.(526-528)AAT>AAC	p.N176N	SPAM1_uc003vle.2_Silent_p.N176N|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Silent_p.N176N|SPAM1_uc010lku.2_Silent_p.N176N	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	176					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	AGCAACAAAATGTACAACTTA	0.388													18	33					0	0	0.007413	0	0		C	123594152	C	C	123594152	2	2	37	1	0	0	0	0	0	0	0	1	15011	1461	51	3		3	SPAM1	7	123594152	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	275	123594152	35544511	396	32641											
C7orf45	136263	broad.mit.edu	37	chr7	129847757	129847757	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaggagtcatcatgggaGaccttttttccttattttgg	9	15	10	7	0	2	1	2	0	0	1	3	3	3	2	2	3	1	1	2	3	2	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:129847757G>T	uc003vpp.2	+	1	54	c.7G>T	c.(7-9)GAC>TAC	p.D3Y	TMEM209_uc003vpn.2_5'Flank|TMEM209_uc010lmc.1_5'Flank|TMEM209_uc003vpo.2_5'Flank	NM_145268	NP_660311	Q8WWF3	CG045_HUMAN	hypothetical protein LOC136263	3						integral to membrane					0	Melanoma(18;0.0435)					CATCATGGGAGACCTTTTTTC	0.413													35	84					2.51541e-25	2.92473e-25	0.004878	1	0		T	129847757	T	T	129847757	3	4	37	1	0	0	0	0	1	0	0	0	2398	942	33	5	9	5	C7orf45	7	129847757	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6253605	129847757	29290906	397	32642											
WDR91	29062	broad.mit.edu	37	chr7	134873256	134873256	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacagagtagacctccccgtAgtgggccctccagctcatcg	8	7	10	16	2	1	2	1	0	0	2	4	2	3	2	5	1	1	3	5	1	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:134873256A>G	uc003vsp.2	-	13	1872	c.1810T>C	c.(1810-1812)TAC>CAC	p.Y604H	WDR91_uc010lmq.2_Missense_Mutation_p.Y193H|WDR91_uc010lmr.2_Intron	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91	604	WD 5.									breast(2)|ovary(1)|skin(1)	4						ACCTCCCCGTAGTGGGCCCTC	0.522													20	271					0	0	0.012319	0	0		G	134873256	G	G	134873256	3	3	37	1	0	0	0	0	1	0	0	0	17364	420	15	3	445	3	WDR91	7	134873256	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	5025499	134873256	24265407	398	32643											
SLC13A4	26266	broad.mit.edu	37	chr7	135370367	135370367	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatgccagcagggtgacaGcccacggtgggaggctgctc	7	6	16	12	1	0	1	0	1	0	0	1	2	0	2	2	4	5	4	2	4	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:135370367G>T	uc003vta.2	-	14	2197	c.1508C>A	c.(1507-1509)GCT>GAT	p.A503D	SLC13A4_uc003vtb.2_Missense_Mutation_p.A504D|PL-5283_uc003vsz.3_Intron	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	503	Helical; (Potential).					integral to plasma membrane	sodium:sulfate symporter activity				0						CAGGGTGACAGCCCACGGTGG	0.547													66	167					5.98616e-33	6.96685e-33	0.01441	1	0		T	135370367	T	T	135370367	3	4	37	1	0	0	0	0	1	0	0	0	14419	971	34	5	384	5	SLC13A4	7	135370367	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	497111	135370367	23768296	399	32644											
CREB3L2	64764	broad.mit.edu	37	chr7	137612997	137612997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcctggatgagaggcgccGgggacgtcggggaaggttcc	7	5	19	10	4	0	1	0	1	0	1	2	5	1	4	3	7	1	1	3	7	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:137612997G>A	uc003vtw.2	-	2	613	c.218C>T	c.(217-219)CCG>CTG	p.P73L	CREB3L2_uc003vtx.1_Missense_Mutation_p.P73L|CREB3L2_uc003vty.3_Missense_Mutation_p.P73L|CREB3L2_uc003vtv.2_Missense_Mutation_p.P10L	NM_194071	NP_919047	Q70SY1	CR3L2_HUMAN	cAMP responsive element binding protein 3-like	73	Cytoplasmic (Potential).				chondrocyte differentiation|positive regulation of transcription, DNA-dependent|response to endoplasmic reticulum stress|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	cAMP response element binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		FUS/CREB3L2(158)	soft_tissue(158)|upper_aerodigestive_tract(1)|ovary(1)	160						GAGAGGCGCCGGGGACGTCGG	0.577			T	FUS	fibromyxoid sarcoma								6	24					0	0	0.001168	0	0		A	137612997	A	A	137612997	3	1	37	1	0	0	0	0	1	0	0	0	3860	1116	39	1	1388	1	CREB3L2	7	137612997	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2242630	137612997	21525666	400	32645											
OR2F2	135948	broad.mit.edu	37	chr7	143632486	143632486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgatcagactggacagccGactccacactcccatgtatt	10	10	7	14	1	2	2	1	1	1	1	4	4	4	3	3	1	1	1	3	1	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:143632486G>A	uc011ktv.1	+	1	161	c.161G>A	c.(160-162)CGA>CAA	p.R54Q		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					CTGGACAGCCGACTCCACACT	0.507													44	333					0	0	0.01441	0	0		A	143632486	A	A	143632486	3	1	37	1	0	0	0	0	1	0	0	0	11016	1058	37	1	163	1	OR2F2	7	143632486	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6019489	143632486	15506177	401	32646											
CNTNAP2	26047	broad.mit.edu	37	chr7	147092860	147092860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcagcattgacatgtgtgCgatcatagacaggtaaatga	13	11	11	6	1	2	3	2	2	0	1	2	4	2	3	0	1	2	2	0	1	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:147092860C>T	uc003weu.1	+	10	2174	c.1658C>T	c.(1657-1659)GCG>GTG	p.A553V		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	553	Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GACATGTGTGCGATCATAGAC	0.428										HNSCC(39;0.1)			4	107					0	0	0.009096	0	0		T	147092860	T	T	147092860	3	4	37	1	0	0	0	0	1	0	0	0	3650	768	27	1	1696	1	CNTNAP2	7	147092860	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3460374	147092860	12045803	402	32647											
ZNF786	136051	broad.mit.edu	37	chr7	148767858	148767858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggcttctctcccgtgtgcGttctgatgtgctcgatgagc	5	13	12	11	3	2	2	0	2	2	0	5	3	3	2	1	1	3	3	1	1	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:148767858G>A	uc003wfh.2	-	4	2143	c.2006C>T	c.(2005-2007)ACG>ATG	p.T669M	ZNF786_uc011kuk.1_Missense_Mutation_p.T632M|ZNF786_uc003wfi.2_Missense_Mutation_p.T583M	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	669	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TCCCGTGTGCGTTCTGATGTG	0.577													30	119					0	0	0.008361	0	0		A	148767858	A	A	148767858	3	1	37	1	0	0	0	0	1	0	0	0	18183	1145	40	1	346	1	ZNF786	7	148767858	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1674998	148767858	10370805	403	32648											
ZNF398	57541	broad.mit.edu	37	chr7	148876830	148876830	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaacttctggcctgggtgtCaacactgaaggtctagagac	11	9	12	9	0	3	2	1	1	2	1	3	4	3	2	1	3	2	0	1	3	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:148876830C>T	uc003wfl.2	+	6	2141	c.1866C>T	c.(1864-1866)GTC>GTT	p.V622V	ZNF398_uc011kul.1_Silent_p.V451V|ZNF398_uc011kum.1_Silent_p.V627V	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	622					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			GCCTGGGTGTCAACACTGAAG	0.532													12	71					0	0	0.013537	0	0		T	148876830	T	T	148876830	2	4	37	1	0	0	0	0	0	0	0	1	17910	813	29	4		4	ZNF398	7	148876830	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	108972	148876830	10261833	404	32649											
ZNF467	168544	broad.mit.edu	37	chr7	149463148	149463148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaccccacccagacagcGcgagcccactcagtgccccc	8	3	9	21	3	1	1	1	0	0	1	2	3	1	2	6	1	3	0	6	1	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:149463148G>A	uc003wgd.2	-	5	584	c.443C>T	c.(442-444)GCG>GTG	p.A148V	ZNF467_uc003wgc.2_Intron	NM_207336	NP_997219	Q7Z7K2	ZN467_HUMAN	zinc finger protein 467	148					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCCAGACAGCGCGAGCCCACT	0.692													6	12					0	0	0.001984	0	0		A	149463148	A	A	149463148	3	1	37	1	0	0	0	0	1	0	0	0	17952	1087	38	1	1348	1	ZNF467	7	149463148	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	586318	149463148	9675515	405	32650											
ZNF467	168544	broad.mit.edu	37	chr7	149463207	149463207	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgtacgcggcagccagatgCcccaggtcaggcgcgggaaa	9	5	15	12	4	1	1	1	0	0	1	1	2	1	2	3	4	3	2	3	4	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:149463207C>T	uc003wgd.2	-	5	525	c.384G>A	c.(382-384)GGG>GGA	p.G128G	ZNF467_uc003wgc.2_Intron	NM_207336	NP_997219	Q7Z7K2	ZN467_HUMAN	zinc finger protein 467	128					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CAGCCAGATGCCCCAGGTCAG	0.652													12	45					0	0	0.010729	0	0		T	149463207	T	T	149463207	2	4	37	1	0	0	0	0	0	0	0	1	17952	726	26	2		2	ZNF467	7	149463207	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	59	149463207	9675456	406	32651											
GIMAP7	168537	broad.mit.edu	37	chr7	150217549	150217549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcaaggagtgcgggaacCgctgctgtgcctttagcaac	8	9	13	11	3	1	0	1	0	0	0	2	2	1	2	2	2	6	3	2	2	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:150217549C>T	uc003whk.2	+	2	617	c.487C>T	c.(487-489)CGC>TGC	p.R163C		NM_153236	NP_694968	Q8NHV1	GIMA7_HUMAN	GTPase, IMAP family member 7	163							GTP binding			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GTGCGGGAACCGCTGCTGTGC	0.502													6	69					0	0	0.001168	0	0		T	150217549	T	T	150217549	3	4	37	1	0	0	0	0	1	0	0	0	6399	652	23	1	489	1	GIMAP7	7	150217549	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	754342	150217549	8921114	407	32652											
SLC4A2	6522	broad.mit.edu	37	chr7	150772823	150772823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctgcatctgctgctcatGccgcccaaacaccacccaga	9	6	8	18	2	2	1	1	0	1	1	2	1	2	1	4	1	5	4	4	1	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:150772823G>A	uc003wit.3	+	21	3688	c.3432G>A	c.(3430-3432)ATG>ATA	p.M1144I	SLC4A2_uc011kve.1_Missense_Mutation_p.M1135I|SLC4A2_uc003wiu.3_Missense_Mutation_p.M1130I|SLC4A2_uc003wiv.3_Missense_Mutation_p.M338I|uc011kvf.1_Intron	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	1144	Membrane (anion exchange).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGCTGCTCATGCCGCCCAAAC	0.587													36	49					0	0	0.006999	0	0		A	150772823	A	A	150772823	3	1	37	1	0	0	0	0	1	0	0	0	14679	1319	46	2	3510	2	SLC4A2	7	150772823	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	555274	150772823	8365840	408	32653											
FASTK	10922	broad.mit.edu	37	chr7	150774416	150774416	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgcagtagcctggaggCacagtcaggtcctggcggta	7	8	15	11	1	1	0	1	0	0	0	2	1	2	1	3	5	2	4	3	5	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:150774416C>T	uc003wix.1	-	7	1370	c.1272G>A	c.(1270-1272)GTG>GTA	p.V424V	uc011kvf.1_5'Flank|FASTK_uc003wiw.1_Silent_p.V185V|FASTK_uc003wiy.1_Silent_p.V283V|FASTK_uc003wiz.1_Silent_p.V397V|FASTK_uc003wja.1_3'UTR	NM_006712	NP_006703	Q14296	FASTK_HUMAN	Fas-activated serine/threonine kinase isoform 1	424			V -> L (in a lung adenocarcinoma sample; somatic mutation).		apoptosis|induction of apoptosis by extracellular signals|regulation of RNA splicing		ATP binding|Fas-activated serine/threonine kinase activity|protein binding	p.V424L(2)		lung(2)|stomach(2)	4			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)|LUSC - Lung squamous cell carcinoma(290;0.0718)|Lung(243;0.138)		AGCCTGGAGGCACAGTCAGGT	0.562													22	61					0	0	0.00333	0	0		T	150774416	T	T	150774416	2	4	37	1	0	0	0	0	0	0	0	1	5698	697	25	2		2	FASTK	7	150774416	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1593	150774416	8364247	409	32654											
MLL3	58508	broad.mit.edu	37	chr7	151856107	151856107	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctccatctgtttttggCaactggttgccacatccaaa	8	14	6	13	0	1	0	0	0	1	0	4	0	4	0	4	2	2	3	4	2	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:151856107C>T	uc003wla.2	-	44	11730	c.11511G>A	c.(11509-11511)TTG>TTA	p.L3837L	MLL3_uc003wkz.2_Silent_p.L2898L|MLL3_uc003wkx.2_5'Flank|MLL3_uc003wky.2_Silent_p.L1346L	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3837					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CTGTTTTTGGCAACTGGTTGC	0.433			N		medulloblastoma								7	136					0	0	0.001984	0	0		T	151856107	T	T	151856107	2	4	37	1	0	0	0	0	0	0	0	1	9640	709	25	2		2	MLL3	7	151856107	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1081691	151856107	7282556	410	32655											
MLL3	58508	broad.mit.edu	37	chr7	151878420	151878420	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggggtttggggctgctgActatatgggtcaacagtagt	7	13	15	6	0	1	1	1	1	0	0	1	1	1	1	0	5	2	4	0	5	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:151878420A>G	uc003wla.2	-	36	6744	c.6525T>C	c.(6523-6525)AGT>AGC	p.S2175S	MLL3_uc003wkz.2_Silent_p.S1236S	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2175	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGGGCTGCTGACTATATGGGT	0.463			N		medulloblastoma								49	128					0	0	0.01441	0	0		G	151878420	G	G	151878420	2	3	37	1	0	0	0	0	0	0	0	1	9640	272	10	3		3	MLL3	7	151878420	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	22313	151878420	7260243	411	32656											
DPP6	1804	broad.mit.edu	37	chr7	154681010	154681010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagcccatcgagtctccgCgctggaagaacagcagttcc	9	7	12	13	3	1	1	0	0	1	1	4	3	2	2	3	2	3	4	3	2	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:154681010C>T	uc003wlk.2	+	24	2462	c.2333C>T	c.(2332-2334)GCG>GTG	p.A778V	DPP6_uc003wli.2_Missense_Mutation_p.A714V|DPP6_uc003wlm.2_Missense_Mutation_p.A716V|DPP6_uc011kvq.1_Missense_Mutation_p.A671V	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	778	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CGAGTCTCCGCGCTGGAAGAA	0.537													8	25					0	0	0.006214	0	0		T	154681010	T	T	154681010	3	4	37	1	0	0	0	0	1	0	0	0	4736	768	27	1	2543	1	DPP6	7	154681010	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2802590	154681010	4457653	412	32657											
NOM1	64434	broad.mit.edu	37	chr7	156755705	156755705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctctcttcatcaggtcCgcaacgccggctcaggttct	5	13	8	15	3	7	0	3	0	4	0	9	0	8	0	2	3	1	3	2	3	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:156755705C>T	uc003wmy.2	+	6	1762	c.1747C>T	c.(1747-1749)CGC>TGC	p.R583C	NOM1_uc010lqp.1_Missense_Mutation_p.R32C	NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	583					RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		TCATCAGGTCCGCAACGCCGG	0.527													6	37					0	0	0.001984	0	0		T	156755705	T	T	156755705	3	4	37	1	0	0	0	0	1	0	0	0	10549	652	23	1	1769	1	NOM1	7	156755705	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2074695	156755705	2382958	413	32658											
PTPRN2	5799	broad.mit.edu	37	chr7	157414084	157414084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggccagggagcggttcttggGcacgttctcctccctctggg	3	10	15	13	2	3	0	0	0	3	0	5	1	4	1	3	5	1	3	3	5	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:157414084G>A	uc003wno.2	-	15	2435	c.2314C>T	c.(2314-2316)CCC>TCC	p.P772S	PTPRN2_uc003wnp.2_Missense_Mutation_p.P755S|PTPRN2_uc003wnq.2_Missense_Mutation_p.P743S|PTPRN2_uc003wnr.2_Missense_Mutation_p.P734S|PTPRN2_uc011kwa.1_Missense_Mutation_p.P795S	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	772	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CGGTTCTTGGGCACGTTCTCC	0.647													77	301					0	0	0.01441	0	0		A	157414084	A	A	157414084	3	1	37	1	0	0	0	0	1	0	0	0	12833	1203	42	2	769	2	PTPRN2	7	157414084	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	658379	157414084	1724579	414	32659											
ZNF596	169270	broad.mit.edu	37	chr8	196026	196026	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggagagaaaccatatgagtgCcatgtatgtgggaaagcctt	13	9	13	6	0	0	2	0	1	0	1	0	5	0	4	3	2	3	1	3	2	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:196026C>T	uc003wot.2	+	6	1467	c.1179C>T	c.(1177-1179)TGC>TGT	p.C393C	ZNF596_uc003wou.2_Silent_p.C292C|ZNF596_uc003wov.2_Silent_p.C393C|ZNF596_uc003wow.2_Silent_p.C393C	NM_173539	NP_775810	Q8TC21	ZN596_HUMAN	zinc finger protein 596	393	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(2;4.81e-29)|all_epithelial(2;5.03e-19)|Lung NSC(2;8.68e-08)|all_lung(2;1.52e-07)|Ovarian(12;0.00965)|Colorectal(14;0.0367)|all_neural(12;0.0837)|Myeloproliferative disorder(644;0.116)|all_hematologic(2;0.138)|Acute lymphoblastic leukemia(644;0.242)		Epithelial(5;3.77e-18)|all cancers(2;5.2e-17)|OV - Ovarian serous cystadenocarcinoma(5;5.37e-09)|BRCA - Breast invasive adenocarcinoma(11;1.7e-06)|Colorectal(2;6.51e-05)|READ - Rectum adenocarcinoma(2;0.0276)|COAD - Colon adenocarcinoma(149;0.0702)		CATATGAGTGCCATGTATGTG	0.428													8	70					0	0	0.00308	0	0		T	196026	T	T	196026	2	4	37	1	0	0	0	0	0	0	0	1	18051	747	26	2		2	ZNF596	8	196026	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08		196026	146167996	415	32660											
MYOM2	9172	broad.mit.edu	37	chr8	2072088	2072088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggcaatgagtagagtctGtggtaagtaaatgcctttta	11	15	11	4	0	1	2	0	1	1	1	1	2	1	2	1	2	1	4	1	2	6	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:2072088G>A	uc003wpx.3	+	31	3830	c.3692G>A	c.(3691-3693)TGT>TAT	p.C1231Y	MYOM2_uc011kwi.1_Missense_Mutation_p.C656Y	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1231					muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		AGTAGAGTCTGTGGTAAGTAA	0.408													6	24					0	0	0.001984	0	0		A	2072088	A	A	2072088	3	1	37	1	0	0	0	0	1	0	0	0	10110	1377	48	4	3810	4	MYOM2	8	2072088	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1876062	2072088	144291934	416	32661											
CSMD1	64478	broad.mit.edu	37	chr8	2836280	2836280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagttctgttgcccgtgaCgaatggcattttccacaaag	10	11	11	9	2	1	1	0	1	1	0	2	3	2	2	2	2	1	3	2	2	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:2836280C>T	uc011kwk.1	-	55	8813	c.8423G>A	c.(8422-8424)CGT>CAT	p.R2808H	CSMD1_uc011kwj.1_Missense_Mutation_p.R2137H|CSMD1_uc010lrg.2_Missense_Mutation_p.R818H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2808	Extracellular (Potential).|Sushi 20.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TTGCCCGTGACGAATGGCATT	0.403													6	13					0	0	0.001984	0	0		T	2836280	T	T	2836280	3	4	37	1	0	0	0	0	1	0	0	0	3947	536	19	1	2338	1	CSMD1	8	2836280	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	764192	2836280	143527742	417	32662											
RHOBTB2	23221	broad.mit.edu	37	chr8	22864845	22864845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccggtcctgctggcctcCgtgcttccaccagcgacggg	3	8	13	17	4	0	0	0	0	0	0	4	1	4	0	6	3	3	3	6	3	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:22864845C>T	uc003xcq.2	+	5	1624	c.1087C>T	c.(1087-1089)CGT>TGT	p.R363C	RHOBTB2_uc003xcp.2_Missense_Mutation_p.R385C|RHOBTB2_uc011kzp.1_Missense_Mutation_p.R370C|uc003xcr.2_RNA	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	363	BTB 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		TGCTGGCCTCCGTGCTTCCAC	0.592													8	164					0	0	0.00308	0	0		T	22864845	T	T	22864845	3	4	37	1	0	0	0	0	1	0	0	0	13359	652	23	1	1186	1	RHOBTB2	8	22864845	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	20028565	22864845	123499177	418	32663											
TRIM35	23087	broad.mit.edu	37	chr8	27145611	27145611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgtcagacacggagagccagCcagctgcggtgttggggtca	8	6	16	11	3	2	2	2	0	0	2	2	3	2	2	2	4	4	2	2	4	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:27145611C>T	uc003xfl.1	-	6	1020	c.938G>A	c.(937-939)GGC>GAC	p.G313D	TRIM35_uc010lup.1_3'UTR	NM_171982	NP_741983	Q9UPQ4	TRI35_HUMAN	tripartite motif-containing 35 isoform 2	313	B30.2/SPRY.				apoptosis|induction of apoptosis|negative regulation of mitotic cell cycle	cytoplasm|nucleus	zinc ion binding				0		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|Epithelial(17;9.34e-10)|Colorectal(74;0.141)		GGAGAGCCAGCCAGCTGCGGT	0.612													8	70					0	0	0.008291	0	0		T	27145611	T	T	27145611	3	4	37	1	0	0	0	0	1	0	0	0	16535	739	26	2	547	2	TRIM35	8	27145611	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4280766	27145611	119218411	419	32664											
TRIM35	23087	broad.mit.edu	37	chr8	27151667	27151667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatgtgccagcacctccGtctcctctgtgagctgcttc	4	13	8	16	1	3	1	1	1	3	0	7	1	4	1	4	0	4	3	4	0	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:27151667G>A	uc003xfl.1	-	3	774	c.692C>T	c.(691-693)ACG>ATG	p.T231M	TRIM35_uc010lup.1_Missense_Mutation_p.T199M|TRIM35_uc003xfm.1_RNA	NM_171982	NP_741983	Q9UPQ4	TRI35_HUMAN	tripartite motif-containing 35 isoform 2	231	Potential.				apoptosis|induction of apoptosis|negative regulation of mitotic cell cycle	cytoplasm|nucleus	zinc ion binding				0		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|Epithelial(17;9.34e-10)|Colorectal(74;0.141)		CAGCACCTCCGTCTCCTCTGT	0.552													15	72					0	0	0.006122	0	0		A	27151667	A	A	27151667	3	1	37	1	0	0	0	0	1	0	0	0	16535	1145	40	1	805	1	TRIM35	8	27151667	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6056	27151667	119212355	420	32665											
SCARA5	286133	broad.mit.edu	37	chr8	27779531	27779531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcggtctgcaccgcctgcGcctgcagcccccacagcgcg	4	5	12	20	5	1	0	0	0	1	0	2	0	1	0	5	1	5	3	5	1	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:27779531G>A	uc003xgj.2	-	4	913	c.473C>T	c.(472-474)GCG>GTG	p.A158V	SCARA5_uc010luz.2_Intron|SCARA5_uc003xgk.2_Missense_Mutation_p.A115V|SCARA5_uc003xgl.2_Missense_Mutation_p.A158V	NM_173833	NP_776194	Q6ZMJ2	SCAR5_HUMAN	scavenger receptor class A, member 5	158	Extracellular (Potential).				cellular iron ion homeostasis|endocytosis|iron ion transmembrane transport|protein homotrimerization	integral to plasma membrane	ferritin receptor activity|scavenger receptor activity			central_nervous_system(1)|skin(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)|Colorectal(74;0.228)		CACCGCCTGCGCCTGCAGCCC	0.721													4	4					0	0	0.000602	0	0		A	27779531	A	A	27779531	3	1	37	1	0	0	0	0	1	0	0	0	13905	1087	38	1	1038	1	SCARA5	8	27779531	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	627864	27779531	118584491	421	32666											
DUSP4	1846	broad.mit.edu	37	chr8	29195908	29195908	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagtggtttgggcagtcCgaggagacattcaacagagc	12	8	13	8	1	2	2	2	0	0	2	3	4	3	2	1	3	2	2	1	3	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:29195908C>T	uc003xhm.2	-	3	1080	c.690G>A	c.(688-690)TCG>TCA	p.S230S	DUSP4_uc003xhl.2_Silent_p.S139S	NM_001394	NP_001385	Q13115	DUS4_HUMAN	dual specificity phosphatase 4 isoform 1	230	Tyrosine-protein phosphatase.				endoderm formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/threonine phosphatase activity			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.094)|Kidney(114;0.113)		TTGGGCAGTCCGAGGAGACAT	0.552													10	64					0	0	0.013537	0	0		T	29195908	T	T	29195908	2	4	37	1	0	0	0	0	0	0	0	1	4833	639	23	1		1	DUSP4	8	29195908	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1416377	29195908	117168114	422	32667											
FGFR1	2260	broad.mit.edu	37	chr8	38275456	38275456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccagcccgatagcctctGccaacaccacctgcccaaag	10	6	7	18	1	1	0	0	0	1	0	2	1	2	0	7	0	5	0	7	0	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:38275456G>A	uc003xlp.2	-	12	2426	c.1484C>T	c.(1483-1485)GCA>GTA	p.A495V	FGFR1_uc010lwf.2_RNA|FGFR1_uc011lbo.1_Missense_Mutation_p.A493V|FGFR1_uc011lbp.1_Missense_Mutation_p.A406V|FGFR1_uc011lbq.1_Missense_Mutation_p.A404V|FGFR1_uc010lwk.2_Missense_Mutation_p.A485V	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	495	Cytoplasmic (Potential).|Protein kinase.				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	GATAGCCTCTGCCAACACCAC	0.522		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						5	101					0	0	0.001984	0	0		A	38275456	A	A	38275456	3	1	37	1	0	0	0	0	1	0	0	0	5877	1319	46	2	1016	2	FGFR1	8	38275456	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	9079548	38275456	108088566	423	32668											
ADAM32	203102	broad.mit.edu	37	chr8	39131857	39131857	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaaggcagcactcagaCatatgccagccagtaagtag	14	6	10	11	0	2	2	2	0	0	2	2	2	2	2	2	1	3	4	2	1	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:39131857C>G	uc003xmt.3	+	21	2473	c.2228C>G	c.(2227-2229)ACA>AGA	p.T743R	ADAM32_uc011lch.1_Missense_Mutation_p.T644R|ADAM32_uc003xmu.3_Intron|ADAM32_uc003xmv.2_Intron	NM_145004	NP_659441	Q8TC27	ADA32_HUMAN	a disintegrin and metalloprotease domain 32	743	Cytoplasmic (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)			AGCACTCAGACATATGCCAGC	0.308													4	93					0	0	0.000602	0	0		G	39131857	G	G	39131857	3	3	37	1	0	0	0	0	1	0	0	0	249	478	17	5	2310	5	ADAM32	8	39131857	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	856401	39131857	107232165	424	32669											
POLB	5423	broad.mit.edu	37	chr8	42207582	42207582	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgactcgagttagtggcattGggtaagaactattttttaag	11	15	11	4	1	0	2	0	1	0	1	1	3	0	2	0	2	1	3	0	2	5	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:42207582G>T	uc003xoz.1	+	5	432	c.319G>T	c.(319-321)GGT>TGT	p.G107C	POLB_uc003xpa.1_Missense_Mutation_p.G107C|POLB_uc011lcs.1_Intron	NM_002690	NP_002681	P06746	DPOLB_HUMAN	DNA-directed DNA polymerase beta	107					DNA-dependent DNA replication	cytoplasm|nucleoplasm|spindle microtubule	DNA-(apurinic or apyrimidinic site) lyase activity|DNA-directed DNA polymerase activity|enzyme binding|metal ion binding|microtubule binding			ovary(1)|breast(1)	2	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;2.58e-12)|Lung NSC(13;4.24e-11)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.1)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;3.18e-11)|Lung(22;0.00467)|OV - Ovarian serous cystadenocarcinoma(14;0.00523)|LUSC - Lung squamous cell carcinoma(45;0.024)		Cytarabine(DB00987)	TAGTGGCATTGGGTAAGAACT	0.348								DNA_polymerases_(catalytic_subunits)					4	76					0.00909568	0.00934665	0.009096	1	0		T	42207582	T	T	42207582	3	4	37	1	0	0	0	0	1	0	0	0	12208	1362	47	5	337	5	POLB	8	42207582	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3075725	42207582	104156440	425	32670											
HOOK3	84376	broad.mit.edu	37	chr8	42812260	42812260	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgagtaaagaatctcctgtCtctgctggaaatgatgccta	12	12	9	8	0	2	3	0	2	2	1	4	4	2	4	2	1	2	2	2	1	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:42812260C>T	uc003xpr.2	+	7	734	c.492C>T	c.(490-492)GTC>GTT	p.V164V	HOOK3_uc010lxq.1_Silent_p.V164V	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	164	Sufficient for interaction with microtubules.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			AATCTCCTGTCTCTGCTGGAA	0.303			T	RET	papillary thyroid								8	16					0	0	0.004482	0	0		T	42812260	T	T	42812260	2	4	37	1	0	0	0	0	0	0	0	1	7300	900	32	4		4	HOOK3	8	42812260	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	604678	42812260	103551762	426	32671											
HOOK3	84376	broad.mit.edu	37	chr8	42821647	42821647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaagatgattatcgaataCgttgtgaagagttagaaaag	17	10	10	4	2	0	5	0	2	0	3	1	6	0	5	1	0	1	2	1	0	8	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:42821647C>T	uc003xpr.2	+	10	1053	c.811C>T	c.(811-813)CGT>TGT	p.R271C	HOOK3_uc010lxq.1_Missense_Mutation_p.R271C	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	271	Potential.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			TTATCGAATACGTTGTGAAGA	0.398			T	RET	papillary thyroid								8	112					0	0	0.00308	0	0		T	42821647	T	T	42821647	3	4	37	1	0	0	0	0	1	0	0	0	7300	536	19	1	849	1	HOOK3	8	42821647	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	9387	42821647	103542375	427	32672											
MCM4	4173	broad.mit.edu	37	chr8	48874074	48874074	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctgttttgtgtgacacaAgctcggagtgaggatgccag	8	13	13	7	1	1	2	0	2	1	0	2	4	1	4	1	2	2	2	1	2	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:48874074A>C	uc003xqk.1	+	3	166	c.71_splice	c.e3-2	p.P24_splice	PRKDC_uc003xqi.2_5'Flank|PRKDC_uc003xqj.2_5'Flank|PRKDC_uc011ldh.1_5'Flank|MCM4_uc003xql.1_Splice_Site_p.P24_splice|MCM4_uc011ldi.1_Splice_Site_p.P24_splice|MCM4_uc010lxw.1_Splice_Site	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4						cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				GTGTGACACAAGCTCGGAGTG	0.542													4	63					0	0	0.009096	0	0		C	48874074	C	C	48874074	5	2	37	1	0	0	0	0	0	0	1	0	9407	86	3	5	75	5	MCM4	8	48874074	Splice_Site	SNP	A	TCGA-BR-6566-01A-11D-1800-08	6052427	48874074	97489948	428	32673											
UBE2V2	7336	broad.mit.edu	37	chr8	48955657	48955657	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggacaaaaaggagtaggCgacggtacagttagctgggg	14	5	17	5	2	0	0	0	0	0	0	0	4	0	2	0	6	2	4	0	6	6	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:48955657C>T	uc003xqm.2	+	2	102	c.81C>T	c.(79-81)GGC>GGT	p.G27G		NM_003350	NP_003341	Q15819	UB2V2_HUMAN	ubiquitin-conjugating enzyme E2v2	27					cell proliferation|DNA double-strand break processing|protein polyubiquitination|regulation of DNA repair	cytoplasm|nucleus|UBC13-MMS2 complex	acid-amino acid ligase activity|protein binding				0		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00171)|all_lung(136;0.00196)				AAGGAGTAGGCGACGGTACAG	0.408								Direct_reversal_of_damage|Rad6_pathway					16	122					0	0	0.00499	0	0		T	48955657	T	T	48955657	2	4	37	1	0	0	0	0	0	0	0	1	16902	755	27	1		1	UBE2V2	8	48955657	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	81583	48955657	97408365	429	32674											
RB1CC1	9821	broad.mit.edu	37	chr8	53568774	53568774	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggttctggataatagcttcGtatttctcttcttgttgggt	6	19	10	6	1	3	0	0	0	3	0	5	1	3	1	0	3	1	4	0	3	3	9			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:53568774G>A	uc003xre.3	-	15	4173	c.3615C>T	c.(3613-3615)TAC>TAT	p.Y1205Y	RB1CC1_uc003xrf.3_Silent_p.Y1205Y	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	1205	Potential.				autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				TAATAGCTTCGTATTTCTCTT	0.343													33	123					0	0	0.012213	0	0		A	53568774	A	A	53568774	2	1	37	1	0	0	0	0	0	0	0	1	13124	1140	40	1		1	RB1CC1	8	53568774	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4613117	53568774	92795248	430	32675											
SLCO5A1	81796	broad.mit.edu	37	chr8	70585114	70585114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttcaagcttcaggagggcGgctccaaggcagcggggctc	7	8	15	11	2	2	0	2	0	0	0	4	1	3	1	1	6	2	4	1	6	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:70585114G>A	uc003xyl.2	-	10	3244	c.2537C>T	c.(2536-2538)CCG>CTG	p.P846L	SLCO5A1_uc010lzb.2_Missense_Mutation_p.P791L|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_3'UTR	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	846						integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			TCAGGAGGGCGGCTCCAAGGC	0.512													24	81					0	0	0.014323	0	0		A	70585114	A	A	70585114	3	1	37	1	0	0	0	0	1	0	0	0	14756	1116	39	1	13	1	SLCO5A1	8	70585114	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	17016340	70585114	75778908	431	32676											
SLCO5A1	81796	broad.mit.edu	37	chr8	70744651	70744651	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagccccgccgaagtggaCggggcagagggactgggggc	7	2	20	12	4	0	1	0	0	0	1	0	5	0	3	4	6	1	1	4	6	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:70744651C>T	uc003xyl.2	-	2	965	c.258G>A	c.(256-258)CCG>CCA	p.P86P	SLCO5A1_uc010lzb.2_Silent_p.P86P|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Silent_p.P86P|SLCO5A1_uc010lzc.2_Silent_p.P86P	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	86	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			CCGAAGTGGACGGGGCAGAGG	0.642											OREG0018815	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	55					0	0	0.00245	0	0		T	70744651	T	T	70744651	2	4	37	1	0	0	0	0	0	0	0	1	14756	523	19	1		1	SLCO5A1	8	70744651	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	159537	70744651	75619371	432	32677											
TRPA1	8989	broad.mit.edu	37	chr8	72946517	72946517	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatgtaaaagctgagtccaAaagccagaagaaggaagata	19	5	12	5	0	0	4	0	1	0	3	1	6	1	6	2	2	2	2	2	2	8	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:72946517A>G	uc003xza.2	-	22	2826	c.2651T>C	c.(2650-2652)TTT>TCT	p.F884S	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	884	Helical; Name=5; (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GCTGAGTCCAAAAGCCAGAAG	0.303													14	70					0	0	0.003163	0	0		G	72946517	G	G	72946517	3	3	37	1	0	0	0	0	1	0	0	0	16603	14	1	3	732	3	TRPA1	8	72946517	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2201866	72946517	73417505	433	32678											
PAG1	55824	broad.mit.edu	37	chr8	81897284	81897284	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtagattttgccttgccActgtggcctttctccaggtg	6	14	11	10	0	1	1	0	0	1	1	2	2	1	1	4	2	2	1	4	2	2	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:81897284A>G	uc003ybz.2	-	7	1314	c.603T>C	c.(601-603)AGT>AGC	p.S201S		NM_018440	NP_060910	Q9NWQ8	PAG1_HUMAN	phosphoprotein associated with glycosphingolipid	201	Cytoplasmic (Potential).				epidermal growth factor receptor signaling pathway|intracellular signal transduction|T cell receptor signaling pathway	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding|SH3/SH2 adaptor activity				0	Lung NSC(7;5.76e-06)|all_lung(9;2e-05)		BRCA - Breast invasive adenocarcinoma(6;0.0567)|Epithelial(68;0.0634)|all cancers(69;0.197)			TTGCCTTGCCACTGTGGCCTT	0.512													9	95					0	0	0.004482	0	0		G	81897284	G	G	81897284	2	3	37	1	0	0	0	0	0	0	0	1	11407	156	6	3		3	PAG1	8	81897284	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	8950767	81897284	64466738	434	32679											
MTERFD1	51001	broad.mit.edu	37	chr8	97269256	97269256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgaagtgtgaatgaagctgGtggcaatggagggtctgcaa	11	9	16	5	1	1	2	0	2	1	0	2	4	1	3	0	4	2	3	0	4	5	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:97269256G>A	uc003yhs.1	-	3	499	c.421C>T	c.(421-423)CCA>TCA	p.P141S	MTERFD1_uc003yhr.1_Missense_Mutation_p.P20S|MTERFD1_uc010mbd.1_Missense_Mutation_p.P141S	NM_015942	NP_057026	Q96E29	MTER1_HUMAN	MTERF domain containing 1 precursor	141					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion	transcription regulatory region DNA binding			ovary(1)	1	Breast(36;5.16e-05)					AATGAAGCTGGTGGCAATGGA	0.418													5	47					0	0	0.000602	0	0		A	97269256	A	A	97269256	3	1	37	1	0	0	0	0	1	0	0	0	9937	1261	44	4	856	4	MTERFD1	8	97269256	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	15371972	97269256	49094766	435	32680											
VPS13B	157680	broad.mit.edu	37	chr8	100791202	100791202	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagttgattctgtatttgtAaaccttggacagcatgtagt	11	16	9	5	0	1	1	0	1	1	0	1	2	1	2	1	1	2	5	1	1	5	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:100791202A>G	uc003yiv.2	+	42	7908	c.7797A>G	c.(7795-7797)GTA>GTG	p.V2599V	VPS13B_uc003yiw.2_Silent_p.V2574V	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2599					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CTGTATTTGTAAACCTTGGAC	0.443													3	77					0	0	0.004672	0	0		G	100791202	G	G	100791202	2	3	37	1	0	0	0	0	0	0	0	1	17216	349	13	3		3	VPS13B	8	100791202	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3521946	100791202	45572820	436	32681											
TNFRSF11B	4982	broad.mit.edu	37	chr8	119941097	119941097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgtgttttctacagggtgCtttagatgacgtctcatttg	6	18	11	6	1	2	2	1	1	2	1	3	2	2	2	0	1	2	2	0	1	2	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:119941097C>T	uc003yon.3	-	3	795	c.472G>A	c.(472-474)GCA>ACA	p.A158T	TNFRSF11B_uc010mdc.1_RNA	NM_002546	NP_002537	O00300	TR11B_HUMAN	osteoprotegerin precursor	158	TNFR-Cys 4.				apoptosis|skeletal system development		cytokine activity|receptor activity			central_nervous_system(2)	2	all_cancers(13;3.71e-26)|Lung NSC(37;1.69e-07)|Ovarian(258;0.018)|all_neural(195;0.0592)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00193)			CTACAGGGTGCTTTAGATGAC	0.418													21	93					0	0	0.008871	0	0		T	119941097	T	T	119941097	3	4	37	1	0	0	0	0	1	0	0	0	16310	797	28	2	745	2	TNFRSF11B	8	119941097	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	19149895	119941097	26422925	437	32682											
ADCY8	114	broad.mit.edu	37	chr8	132051861	132051861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgctgtactgcaggtacGtgtgggaggtggtgtccttc	4	11	16	10	3	0	0	0	0	0	0	2	1	1	1	2	4	3	4	2	4	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:132051861G>A	uc003ytd.3	-	1	975	c.719C>T	c.(718-720)ACG>ATG	p.T240M	ADCY8_uc010mds.2_Missense_Mutation_p.T240M	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	240					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CTGCAGGTACGTGTGGGAGGT	0.647										HNSCC(32;0.087)			10	30					0	0	0.010729	0	0		A	132051861	A	A	132051861	3	1	37	1	0	0	0	0	1	0	0	0	300	1145	40	1	3108	1	ADCY8	8	132051861	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	12110764	132051861	14312161	438	32683											
TG	7038	broad.mit.edu	37	chr8	134034247	134034247	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccacaggcccctaacgcGtctgtgctggtgttcttcca	6	11	9	15	2	2	0	0	0	2	0	3	0	3	0	4	2	3	2	4	2	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:134034247G>A	uc003ytw.2	+	40	6929	c.6888G>A	c.(6886-6888)GCG>GCA	p.A2296A	TG_uc010mdw.2_Silent_p.A1055A|TG_uc011ljb.1_Silent_p.A665A|TG_uc011ljc.1_Silent_p.A429A	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2296					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CCCCTAACGCGTCTGTGCTGG	0.562													21	67					0	0	0.010504	0	0		A	134034247	A	A	134034247	2	1	37	1	0	0	0	0	0	0	0	1	15838	1132	40	1		1	TG	8	134034247	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1982386	134034247	12329775	439	32684											
COL22A1	169044	broad.mit.edu	37	chr8	139636008	139636008	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacccggctttccatctctGccctctttgccttcttctcc	2	15	6	18	1	4	0	0	0	4	0	7	1	5	1	5	2	2	1	5	2	0	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:139636008G>A	uc003yvd.2	-	52	4185	c.3738C>T	c.(3736-3738)GGC>GGT	p.G1246G	COL22A1_uc011ljo.1_Silent_p.G526G	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1246	Pro-rich.|Gly-rich.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			TTCCATCTCTGCCCTCTTTGC	0.433										HNSCC(7;0.00092)			14	215					0	0	0.001855	0	0		A	139636008	A	A	139636008	2	1	37	1	0	0	0	0	0	0	0	1	3684	1306	46	2		2	COL22A1	8	139636008	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5601761	139636008	6728014	440	32685											
TRAPPC9	83696	broad.mit.edu	37	chr8	141407727	141407727	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatacactcacctgtcgaaGgttaatgtaaactgcattct	13	12	6	10	1	2	0	1	0	1	0	3	1	2	0	1	1	3	3	1	1	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:141407727G>T	uc003yvj.2	-	7	1260	c.1126C>A	c.(1126-1128)CTT>ATT	p.L376I	TRAPPC9_uc003yvh.2_Missense_Mutation_p.L474I|TRAPPC9_uc003yvi.1_Missense_Mutation_p.L367I	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	376					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						ACCTGTCGAAGGTTAATGTAA	0.418													4	94					4.096e-09	4.55977e-09	0.001168	1	0		T	141407727	T	T	141407727	3	4	37	1	0	0	0	0	1	0	0	0	16491	1000	35	5	2388	5	TRAPPC9	8	141407727	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1771719	141407727	4956295	441	32686											
FAM83H	286077	broad.mit.edu	37	chr8	144810245	144810245	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcgcgccggcgtgagctgCgggtcccactggtactgctg	3	7	18	13	5	0	1	0	1	0	0	1	1	1	1	2	4	4	3	2	4	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:144810245C>T	uc003yzk.2	-	5	1455	c.1386G>A	c.(1384-1386)CCG>CCA	p.P462P	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	462					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GCGTGAGCTGCGGGTCCCACT	0.701													6	108					0	0	0.001984	0	0		T	144810245	T	T	144810245	2	4	37	1	0	0	0	0	0	0	0	1	5654	755	27	1		1	FAM83H	8	144810245	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3402518	144810245	1553777	442	32687											
EPPK1	83481	broad.mit.edu	37	chr8	144946676	144946676	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgtccaggatgcccaccTccagcagctcagctgcactc	7	7	9	18	1	1	0	1	0	0	0	5	1	3	1	4	1	5	5	4	1	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:144946676T>G	uc003zaa.1	-	1	759	c.746A>C	c.(745-747)GAG>GCG	p.E249A		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	249						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GATGCCCACCTCCAGCAGCTC	0.692													4	19					0	0	0.001168	0	0		G	144946676	G	G	144946676	3	3	37	1	0	0	0	0	1	0	0	0	5198	1551	54	5	6520	5	EPPK1	8	144946676	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	136431	144946676	1417346	443	32688											
PLEC	5339	broad.mit.edu	37	chr8	144994175	144994175	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgcccgtgcggaactgacGcaacagctcctgccgctgct	6	8	11	16	4	0	1	0	1	0	0	1	2	1	2	3	1	7	4	3	1	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:144994175G>A	uc003zaf.1	-	32	10395	c.10225C>T	c.(10225-10227)CGT>TGT	p.R3409C	PLEC_uc003zab.1_Missense_Mutation_p.R3272C|PLEC_uc003zac.1_Missense_Mutation_p.R3276C|PLEC_uc003zad.2_Missense_Mutation_p.R3272C|PLEC_uc003zae.1_Missense_Mutation_p.R3240C|PLEC_uc003zag.1_Missense_Mutation_p.R3250C|PLEC_uc003zah.2_Missense_Mutation_p.R3258C|PLEC_uc003zaj.2_Missense_Mutation_p.R3299C	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3409	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CGGAACTGACGCAACAGCTCC	0.607													6	128					0	0	0.001984	0	0		A	144994175	A	A	144994175	3	1	37	1	0	0	0	0	1	0	0	0	12071	1087	38	1	3833	1	PLEC	8	144994175	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	47499	144994175	1369847	444	32689											
GRINA	2907	broad.mit.edu	37	chr8	145065972	145065972	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgacaggccttcatccgcaaGgtgggtaggggcatctccaa	9	7	13	12	2	2	0	1	0	1	0	4	1	3	0	3	5	0	3	3	5	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:145065972G>T	uc003zan.1	+	3	658	c.492G>T	c.(490-492)AAG>AAT	p.K164N	GRINA_uc003zao.1_Missense_Mutation_p.K164N|GRINA_uc003zap.1_Missense_Mutation_p.K164N	NM_001009184	NP_001009184	Q7Z429	GRINA_HUMAN	glutamate receptor, ionotropic, N-methyl	164						integral to membrane				central_nervous_system(1)	1	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TCATCCGCAAGGTGGGTAGGG	0.607													5	98					0.00116845	0.001218	0.001168	1	0		T	145065972	T	T	145065972	3	4	37	1	0	0	0	0	1	0	0	0	6801	1014	35	5	498	5	GRINA	8	145065972	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	71797	145065972	1298050	445	32690											
LRRC14	9684	broad.mit.edu	37	chr8	145746387	145746387	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcacggagcccacatgctgCccacctcaagaagttggacc	10	5	11	15	1	1	1	1	0	0	1	1	3	1	3	4	3	3	3	4	3	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:145746387C>A	uc003zdk.1	+	4	1153	c.1007C>A	c.(1006-1008)GCC>GAC	p.A336D	LRRC14_uc003zdl.1_Missense_Mutation_p.A336D|LRRC14_uc003zdo.2_5'Flank	NM_014665	NP_055480	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	336											0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CCACATGCTGCCCACCTCAAG	0.617													8	172					0.00307968	0.00318596	0.00308	1	0		A	145746387	A	A	145746387	3	1	37	1	0	0	0	0	1	0	0	0	8986	739	26	5	1017	5	LRRC14	8	145746387	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	680415	145746387	617635	446	32691											
ZNF251	90987	broad.mit.edu	37	chr8	145948606	145948606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccggcagaatttcccaCgcgctctttgagtttgccct	5	12	9	15	3	1	2	0	1	1	1	2	2	2	2	3	1	2	3	3	1	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:145948606C>T	uc003zdv.3	-	5	695	c.439G>A	c.(439-441)GTG>ATG	p.V147M		NM_138367	NP_612376	Q9BRH9	ZN251_HUMAN	zinc finger protein 251	147					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;7.54e-38)|all cancers(56;6.19e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.198)		GAATTTCCCACGCGCTCTTTG	0.478													18	86					0	0	0.006122	0	0		T	145948606	T	T	145948606	3	4	37	1	0	0	0	0	1	0	0	0	17821	536	19	1	1580	1	ZNF251	8	145948606	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	202219	145948606	415416	447	32692											
COMMD5	28991	broad.mit.edu	37	chr8	146076615	146076615	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taggtcccctagtagccgggCcattgctgccacctctggag	6	9	12	14	1	1	0	0	0	1	0	2	1	2	1	6	3	3	2	6	3	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:146076615C>A	uc003zem.2	-	2	240	c.109G>T	c.(109-111)GCC>TCC	p.A37S	COMMD5_uc003zel.1_RNA|COMMD5_uc003zen.2_Missense_Mutation_p.A37S|COMMD5_uc003zeo.3_Missense_Mutation_p.A37S|COMMD5_uc010mgf.2_Missense_Mutation_p.A37S	NM_001081004	NP_001074473	Q9GZQ3	COMD5_HUMAN	COMM domain containing 5	37						nucleus	protein binding			ovary(1)	1	all_cancers(97;1.14e-11)|all_epithelial(106;7.74e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;8.75e-39)|OV - Ovarian serous cystadenocarcinoma(54;1.13e-38)|all cancers(56;8.48e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)			AGTAGCCGGGCCATTGCTGCC	0.597													29	121					7.68411e-24	8.92607e-24	0.008361	1	0		A	146076615	A	A	146076615	3	1	37	1	0	0	0	0	1	0	0	0	3722	739	26	5	569	5	COMMD5	8	146076615	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	128009	146076615	287407	448	32693											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													9	146					0	0	0.004482	0	0		G	164038	G	G	164038	5	3	37	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-6566-01A-11D-1800-08		164038	141049393	449	32694											
DOCK8	81704	broad.mit.edu	37	chr9	379854	379854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggacctgagcaaggaccagCatgggaggaactgcctgctg	11	5	15	10	0	0	1	0	1	0	0	0	5	0	5	3	4	5	3	3	4	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:379854C>T	uc003zgf.2	+	21	2636	c.2524C>T	c.(2524-2526)CAT>TAT	p.H842Y	DOCK8_uc010mgu.2_Missense_Mutation_p.H144Y|DOCK8_uc010mgv.2_Missense_Mutation_p.H774Y|DOCK8_uc010mgw.1_Missense_Mutation_p.H144Y|DOCK8_uc003zgk.2_Missense_Mutation_p.H300Y|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	842					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		CAAGGACCAGCATGGGAGGAA	0.572													13	57					0	0	0.001855	0	0		T	379854	T	T	379854	3	4	37	1	0	0	0	0	1	0	0	0	4699	710	25	2	2606	2	DOCK8	9	379854	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	215816	379854	140833577	450	32695											
DMRT3	58524	broad.mit.edu	37	chr9	990868	990868	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgcccgtccttcctgccCgcgccacggaagaccctcgg	4	6	11	20	6	0	1	0	0	0	1	4	2	2	2	6	2	1	1	6	2	1	1	rs141821476	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:990868C>A	uc003zgw.1	+	2	1320	c.1282C>A	c.(1282-1284)CGC>AGC	p.R428S		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	428					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity	p.R428C(1)		ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		CCTTCCTGCCCGCGCCACGGA	0.552													20	65					3.51602e-12	3.98633e-12	0.008871	1	0		A	990868	A	A	990868	3	1	37	1	0	0	0	0	1	0	0	0	4593	652	23	5	1288	5	DMRT3	9	990868	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	611014	990868	140222563	451	32696											
SMARCA2	6595	broad.mit.edu	37	chr9	2060967	2060967	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcagccaaagagaagaagaAgaggaggaggaggaagaagg	19	0	19	3	0	0	5	0	0	0	5	0	10	0	9	1	6	1	1	1	6	6	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:2060967A>G	uc003zhc.2	+	9	1772	c.1673A>G	c.(1672-1674)AAG>AGG	p.K558R	SMARCA2_uc003zhd.2_Missense_Mutation_p.K558R|SMARCA2_uc010mha.2_Missense_Mutation_p.K549R	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	558					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		gagaagaagaagaggaggagg	0.418													4	46					0	0	0.009096	0	0		G	2060967	G	G	2060967	3	3	37	1	0	0	0	0	1	0	0	0	14794	72	3	3	1703	3	SMARCA2	9	2060967	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1070099	2060967	139152464	452	32697											
KCNV2	169522	broad.mit.edu	37	chr9	2717876	2717876	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggccagcatccacggctGgacagagggcaactataact	12	5	11	13	1	0	1	0	0	0	1	1	2	1	2	3	4	3	3	3	4	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:2717876G>A	uc003zho.1	+	1	351	c.137G>A	c.(136-138)TGG>TAG	p.W46*		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	46	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		ATCCACGGCTGGACAGAGGGC	0.617													4	126					0	0	0.000602	0	0		A	2717876	A	A	2717876	4	1	37	1	0	0	0	0	0	1	0	0	8111	1357	47	4	139	4	KCNV2	9	2717876	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	656909	2717876	138495555	453	32698											
KCNV2	169522	broad.mit.edu	37	chr9	2718786	2718786	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcctgccgctctaccttcaGctgctgctcgagtgcttcac	5	12	8	16	2	3	0	2	0	1	0	5	1	4	0	3	0	6	5	3	0	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:2718786G>A	uc003zho.1	+	1	1261	c.1047G>A	c.(1045-1047)CAG>CAA	p.Q349Q		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	349	Helical; Name=Segment S3; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		TCTACCTTCAGCTGCTGCTCG	0.682													20	97					0	0	0.012319	0	0		A	2718786	A	A	2718786	2	1	37	1	0	0	0	0	0	0	0	1	8111	962	34	2		2	KCNV2	9	2718786	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	910	2718786	138494645	454	32699											
NFIB	4781	broad.mit.edu	37	chr9	14125630	14125630	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctatgcttgaaactcctcaCcactgtgtgcaactccaggt	9	12	7	13	0	2	1	1	1	1	0	4	1	4	1	3	1	4	2	3	1	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:14125630C>T	uc003zle.2	-	7	1495	c.1060_splice	c.e7+1	p.V354_splice	NFIB_uc003zld.2_Splice_Site_p.V102_splice|NFIB_uc003zlf.2_Splice_Site_p.V354_splice|NFIB_uc011lmo.1_Splice_Site_p.V354_splice	NM_005596	NP_005587	O00712	NFIB_HUMAN	nuclear factor I/B						anterior commissure morphogenesis|chondrocyte differentiation|Clara cell differentiation|commissural neuron axon guidance|DNA replication|glial cell differentiation|lung ciliated cell differentiation|negative regulation of DNA binding|negative regulation of epithelial cell proliferation involved in lung morphogenesis|negative regulation of mesenchymal cell proliferation involved in lung development|positive regulation of transcription from RNA polymerase II promoter|principal sensory nucleus of trigeminal nerve development|Type I pneumocyte differentiation|Type II pneumocyte differentiation	cerebellar mossy fiber|nucleolus|nucleus	RNA polymerase II transcription corepressor activity|sequence-specific DNA binding RNA polymerase II transcription factor activity				0				GBM - Glioblastoma multiforme(50;4.4e-08)|LUAD - Lung adenocarcinoma(58;0.119)|Lung(218;0.164)		AAACTCCTCACCACTGTGTGC	0.507			T	MYB|HGMA2	adenoid cystic carcinoma|lipoma								5	158					0	0	0.000602	0	0		T	14125630	T	T	14125630	5	4	37	1	0	0	0	0	0	0	1	0	10390	521	18	4	213	4	NFIB	9	14125630	Splice_Site	SNP	C	TCGA-BR-6566-01A-11D-1800-08	11406844	14125630	127087801	455	32700											
FREM1	158326	broad.mit.edu	37	chr9	14737531	14737531	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccctcttctcccattggTgaaggcaacaggttcaccac	8	9	10	14	0	3	1	1	1	2	0	4	1	3	1	3	4	1	2	3	4	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:14737531T>A	uc003zlm.2	-	37	6993	c.6403A>T	c.(6403-6405)ACC>TCC	p.T2135S	FREM1_uc010mic.2_RNA|FREM1_uc003zlk.2_RNA|FREM1_uc003zll.2_Missense_Mutation_p.T671S	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	2135	C-type lectin.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		CTCCCATTGGTGAAGGCAACA	0.468													5	20					0	0	0.000602	0	0		A	14737531	A	A	14737531	3	1	37	1	0	0	0	0	1	0	0	0	6058	1696	59	5	140	5	FREM1	9	14737531	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	611901	14737531	126475900	456	32701											
FREM1	158326	broad.mit.edu	37	chr9	14823321	14823321	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccactttcatatagttcacaGcatgctgcaaagtaagttga	13	12	7	9	0	2	1	2	1	0	0	2	1	2	1	1	0	3	6	1	0	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:14823321G>T	uc003zlm.2	-	13	2764	c.2174C>A	c.(2173-2175)GCT>GAT	p.A725D	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	725	CSPG 4.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		ATAGTTCACAGCATGCTGCAA	0.433													10	207					3.07112e-06	3.31379e-06	0.010729	1	0		T	14823321	T	T	14823321	3	4	37	1	0	0	0	0	1	0	0	0	6058	971	34	5	4515	5	FREM1	9	14823321	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	85790	14823321	126390110	457	32702											
HAUS6	54801	broad.mit.edu	37	chr9	19058129	19058129	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaggtgtccaaaaagttaAgcgtatcatctgtttgtaca	13	12	8	8	1	2	0	1	0	1	0	3	0	3	0	1	1	2	4	1	1	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:19058129A>C	uc003znk.2	-	16	2889	c.2636T>G	c.(2635-2637)CTT>CGT	p.L879R	HAUS6_uc011lmz.1_Missense_Mutation_p.L599R|HAUS6_uc003znl.1_Missense_Mutation_p.L743R	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	879					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						CAAAAAGTTAAGCGTATCATC	0.413													6	136					0	0	0.001984	0	0		C	19058129	C	C	19058129	3	2	37	1	0	0	0	0	1	0	0	0	6986	72	3	5	239	5	HAUS6	9	19058129	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	4234808	19058129	122155302	458	32703											
SPINK4	27290	broad.mit.edu	37	chr9	33240248	33240248	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atcgccctggccttggctgcCctccttgttgtggacagggg	3	11	14	13	1	0	0	0	0	0	0	2	1	1	1	4	5	1	2	4	5	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:33240248C>A	uc003zsh.2	+	1	53	c.42C>A	c.(40-42)GCC>GCA	p.A14A	SUGT1P1_uc010mjq.1_Intron	NM_014471	NP_055286	O60575	ISK4_HUMAN	serine peptidase inhibitor, Kazal type 4	14						extracellular region	serine-type endopeptidase inhibitor activity				0			LUSC - Lung squamous cell carcinoma(29;0.00506)			CCTTGGCTGCCCTCCTTGTTG	0.622													3	7					0.004672	0.00481702	0.004672	1	0		A	33240248	A	A	33240248	2	1	37	1	0	0	0	0	0	0	0	1	15086	610	22	5		5	SPINK4	9	33240248	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	14182119	33240248	107973183	459	32704											
NOL6	65083	broad.mit.edu	37	chr9	33469213	33469213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcctgctcaccatcccctGcaggactctgccctcggtac	5	8	10	18	1	2	0	1	0	1	0	4	1	3	1	5	3	4	3	5	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:33469213G>A	uc003zsz.2	-	6	955	c.854C>T	c.(853-855)GCA>GTA	p.A285V	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zta.2_Missense_Mutation_p.A285V|NOL6_uc010mjv.2_Missense_Mutation_p.A285V|NOL6_uc011lob.1_Missense_Mutation_p.A225V|NOL6_uc003ztb.1_Missense_Mutation_p.A285V	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	285					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		ACCATCCCCTGCAGGACTCTG	0.612													17	100					0	0	0.007413	0	0		A	33469213	A	A	33469213	3	1	37	1	0	0	0	0	1	0	0	0	10544	1319	46	2	2670	2	NOL6	9	33469213	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	228965	33469213	107744218	460	32705											
UBAP1	51271	broad.mit.edu	37	chr9	34234267	34234267	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacaggagacaaattcaaaAcaccagctaaagttggtcta	18	7	8	8	0	2	2	1	0	1	2	2	3	2	2	1	2	2	2	1	2	6	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:34234267A>G	uc003ztx.2	+	3	323	c.88A>G	c.(88-90)ACA>GCA	p.T30A	UBAP1_uc010mka.1_Intron|UBAP1_uc003zty.2_Missense_Mutation_p.T30A|UBAP1_uc011loi.1_Intron|UBAP1_uc011loj.1_Missense_Mutation_p.T94A|KIF24_uc010mkb.2_Intron|UBAP1_uc003ztz.2_Missense_Mutation_p.T30A	NM_016525	NP_057609	Q9NZ09	UBAP1_HUMAN	ubiquitin associated protein 1	30	UMA.					cytoplasm					0			LUSC - Lung squamous cell carcinoma(29;0.00272)			CAAATTCAAAACACCAGCTAA	0.348													19	61					0	0	0.010504	0	0		G	34234267	G	G	34234267	3	3	37	1	0	0	0	0	1	0	0	0	16862	43	2	3	331	3	UBAP1	9	34234267	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	765054	34234267	106979164	461	32706											
KIF24	347240	broad.mit.edu	37	chr9	34256112	34256112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgctcactacccatgtgttCgtgggagaaaagtacagtct	10	11	10	10	1	2	1	1	0	1	1	3	2	2	1	1	1	3	3	1	1	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:34256112C>T	uc003zua.3	-	11	3613	c.3493G>A	c.(3493-3495)GAA>AAA	p.E1165K	KIF24_uc010mkb.2_Intron	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	1165					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			CCCATGTGTTCGTGGGAGAAA	0.582													5	73					0	0	0.000602	0	0		T	34256112	T	T	34256112	3	4	37	1	0	0	0	0	1	0	0	0	8308	893	31	1	625	1	KIF24	9	34256112	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	21845	34256112	106957319	462	32707											
ZCCHC7	84186	broad.mit.edu	37	chr9	37126908	37126908	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgatgatatccttctcaaCcttgtgggatgtgaaaactc	11	13	9	8	0	1	3	1	3	1	0	4	5	2	4	2	1	2	0	2	1	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:37126908C>A	uc003zzq.2	+	2	752	c.579C>A	c.(577-579)AAC>AAA	p.N193K	ZCCHC7_uc011lqh.1_Intron|ZCCHC7_uc011lqi.1_Missense_Mutation_p.N192K|ZCCHC7_uc010mlt.2_Missense_Mutation_p.N192K|ZCCHC7_uc003zzs.1_Missense_Mutation_p.N192K	NM_032226	NP_115602	Q8N3Z6	ZCHC7_HUMAN	zinc finger, CCHC domain containing 7	193							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.0137)		TCCTTCTCAACCTTGTGGGAT	0.393													37	90					3.62531e-18	4.1875e-18	0.004289	1	0		A	37126908	A	A	37126908	3	1	37	1	0	0	0	0	1	0	0	0	17618	506	18	5	581	5	ZCCHC7	9	37126908	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2870796	37126908	104086523	463	32708											
CNTNAP3	79937	broad.mit.edu	37	chr9	39140608	39140608	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggttccctcggtgcttgTgggcttcacaagactgctcg	5	11	13	12	3	1	1	1	0	0	1	4	1	2	1	1	3	2	4	1	3	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:39140608T>C	uc004abi.2	-	12	2023	c.1784A>G	c.(1783-1785)CAC>CGC	p.H595R	CNTNAP3_uc004abj.2_Missense_Mutation_p.H595R|CNTNAP3_uc011lqr.1_RNA|CNTNAP3_uc004abk.1_Missense_Mutation_p.H595R|CNTNAP3_uc011lqs.1_Missense_Mutation_p.H502R|CNTNAP3_uc004abl.1_Missense_Mutation_p.H414R	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor	595	Fibrinogen C-terminal.|Extracellular (Potential).				cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		TCGGTGCTTGTGGGCTTCACA	0.478													7	81					0	0	0.001984	0	0		C	39140608	C	C	39140608	3	2	37	1	0	0	0	0	1	0	0	0	3651	1696	59	3	2134	3	CNTNAP3	9	39140608	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2013700	39140608	102072823	464	32709											
TMEM2	23670	broad.mit.edu	37	chr9	74347431	74347431	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acccatgtgcaggaactgagGggtttctggttgatatgagc	9	11	14	7	0	1	3	0	3	1	0	1	4	1	4	1	4	3	3	1	4	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:74347431G>T	uc011lsa.1	-	7	1939	c.1399C>A	c.(1399-1401)CCT>ACT	p.P467T	TMEM2_uc010mos.2_Missense_Mutation_p.P404T|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	467						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		AGGAACTGAGGGGTTTCTGGT	0.408													3	29					0.004672	0.00481702	0.004672	1	0		T	74347431	T	T	74347431	3	4	37	1	0	0	0	0	1	0	0	0	16146	1232	43	5	2824	5	TMEM2	9	74347431	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	35206823	74347431	66866000	465	32710											
TRPM6	140803	broad.mit.edu	37	chr9	77448921	77448921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	attgtctacttacatcttttCcaataaggtctctctggttc	8	18	5	10	0	4	0	0	0	4	0	7	0	5	0	1	2	2	1	1	2	4	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:77448921C>T	uc004ajl.1	-	6	900	c.662G>A	c.(661-663)GGA>GAA	p.G221E	TRPM6_uc004ajk.1_Missense_Mutation_p.G216E|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.G221E|TRPM6_uc010mpd.1_Missense_Mutation_p.G221E|TRPM6_uc010mpe.1_Missense_Mutation_p.G221E|TRPM6_uc004ajn.1_Missense_Mutation_p.G221E	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	221	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						TACATCTTTTCCAATAAGGTC	0.333													10	47					0	0	0.013537	0	0		T	77448921	T	T	77448921	3	4	37	1	0	0	0	0	1	0	0	0	16616	855	30	4	5542	4	TRPM6	9	77448921	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3101490	77448921	63764510	466	32711											
VPS13A	23230	broad.mit.edu	37	chr9	79981681	79981681	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgagttccggcagagaagaAgctaaagattcaaaacaaaa	19	6	9	7	1	1	4	1	1	0	3	2	5	2	4	1	1	2	3	1	1	8	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:79981681A>C	uc004akr.2	+	61	8624	c.8364A>C	c.(8362-8364)GAA>GAC	p.E2788D	VPS13A_uc004akp.3_Missense_Mutation_p.E2788D|VPS13A_uc004akq.3_Missense_Mutation_p.E2788D|VPS13A_uc004aks.2_Missense_Mutation_p.E2749D	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2788					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GCAGAGAAGAAGCTAAAGATT	0.313													7	26					0	0	0.004482	0	0		C	79981681	C	C	79981681	3	2	37	1	0	0	0	0	1	0	0	0	17215	69	3	5	8606	5	VPS13A	9	79981681	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2532760	79981681	61231750	467	32712											
HNRNPK	3190	broad.mit.edu	37	chr9	86586858	86586858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctgctaccaccccggcCgcctcgtccgggaggagggg	5	5	15	16	4	1	0	0	0	1	0	3	2	2	2	6	5	3	2	6	5	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:86586858C>T	uc004ang.3	-	11	1116	c.892G>A	c.(892-894)GGC>AGC	p.G298S	HNRNPK_uc011lsw.1_Missense_Mutation_p.G58S|HNRNPK_uc004and.3_Missense_Mutation_p.G58S|HNRNPK_uc004ank.3_Missense_Mutation_p.G298S|HNRNPK_uc004anf.3_Missense_Mutation_p.G298S|HNRNPK_uc004anh.3_Missense_Mutation_p.G274S|HNRNPK_uc011lsx.1_Missense_Mutation_p.G274S|HNRNPK_uc004ani.3_Missense_Mutation_p.G298S|HNRNPK_uc004anj.3_Missense_Mutation_p.G298S|HNRNPK_uc004ann.3_Missense_Mutation_p.G274S|HNRNPK_uc004anl.3_Missense_Mutation_p.G298S|HNRNPK_uc004anm.3_Missense_Mutation_p.G298S|uc004ano.1_5'Flank|MIR7-1_hsa-mir-7-1|MI0000263_5'Flank	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	298	3-4.|2 X 6 AA approximate repeats.|2 X 22 AA approximate repeats.|Interaction with ZIK1 (By similarity).|5 X 4 AA repeats of G-X-G-G.				interspecies interaction between organisms|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of low-density lipoprotein particle clearance|signal transduction	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nuclear chromatin|nucleoplasm	protein binding|RNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|single-stranded DNA binding			skin(1)	1						CCACCCCGGCCGCCTCGTCCG	0.572													17	111					0	0	0.004007	0	0		T	86586858	T	T	86586858	3	4	37	1	0	0	0	0	1	0	0	0	7285	652	23	1	565	1	HNRNPK	9	86586858	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	6605177	86586858	54626573	468	32713											
ZCCHC6	79670	broad.mit.edu	37	chr9	88938202	88938202	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagagagtcttctagttcCtcagtaccttctgtactttc	7	18	6	10	0	4	1	1	0	3	1	6	2	5	1	2	0	2	3	2	0	4	9			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:88938202C>A	uc004aoq.2	-	13	2678	c.2463G>T	c.(2461-2463)GAG>GAT	p.E821D	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.E698D|ZCCHC6_uc004aou.2_Missense_Mutation_p.E821D	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	821	Glu-rich.				RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						CTTCTAGTTCCTCAGTACCTT	0.373													11	78					1.08611e-07	1.19931e-07	0.010729	1	0		A	88938202	A	A	88938202	3	1	37	1	0	0	0	0	1	0	0	0	17617	680	24	5	2084	5	ZCCHC6	9	88938202	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2351344	88938202	52275229	469	32714											
WNK2	65268	broad.mit.edu	37	chr9	95992150	95992150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcagggacgctgaagaCgtaagctccgcttcctgagg	9	7	13	12	3	1	3	1	2	0	1	3	5	3	4	3	2	1	4	3	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:95992150C>T	uc004ati.1	+	2	854	c.854C>T	c.(853-855)ACA>ATA	p.T285I	WNK2_uc011lud.1_Missense_Mutation_p.T285I|WNK2_uc004atj.2_Missense_Mutation_p.T285I|WNK2_uc010mrc.1_Missense_Mutation_p.T285I|WNK2_uc010mrd.1_5'Flank	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	285	Protein kinase.				intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						ACGCTGAAGACGTAAGCTCCG	0.637													9	24					0	0	0.006214	0	0		T	95992150	T	T	95992150	3	4	37	1	0	0	0	0	1	0	0	0	17404	550	19	1	860	1	WNK2	9	95992150	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	7053948	95992150	45221281	470	32715											
ANKS6	203286	broad.mit.edu	37	chr9	101530501	101530501	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttttttcctctgggcagcGatttgggacaagacattgtc	7	14	11	9	1	1	1	0	0	1	1	3	3	2	2	1	2	1	2	1	2	1	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:101530501G>A	uc004ayu.2	-	11	2025	c.2004C>T	c.(2002-2004)ATC>ATT	p.I668I	ANKS6_uc004ayt.2_Silent_p.I367I|ANKS6_uc004ayv.1_Silent_p.I130I|ANKS6_uc004ayw.1_Silent_p.I250I|ANKS6_uc004ayx.1_RNA|ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	668	Ser-rich.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				TCTGGGCAGCGATTTGGGACA	0.527													16	63					0	0	0.006122	0	0		A	101530501	A	A	101530501	2	1	37	1	0	0	0	0	0	0	0	1	692	1048	37	1		1	ANKS6	9	101530501	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5538351	101530501	39682930	471	32716											
TMEFF1	8577	broad.mit.edu	37	chr9	103204565	103204565	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagatcgccagcatgctGccggagcagctctacttcct	9	8	11	13	2	1	2	0	0	1	2	3	4	2	3	3	1	6	4	3	1	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:103204565G>A	uc004bay.1	+	1	378	c.345G>A	c.(343-345)CTG>CTA	p.L115L	C9orf30_uc004baw.2_Silent_p.L115L|C9orf30_uc004bax.2_RNA	NM_003692	NP_003683	Q8IYR6	TEFF1_HUMAN	transmembrane protein with EGF-like and two	Error:Variant_position_missing_in_Q8IYR6_after_alignment					multicellular organismal development	integral to membrane|plasma membrane					0		Acute lymphoblastic leukemia(62;0.0452)				CCAGCATGCTGCCGGAGCAGC	0.582													4	75					0	0	0.009096	0	0		A	103204565	A	A	103204565	2	1	37	1	0	0	0	0	0	0	0	1	16038	1306	46	2		2	TMEFF1	9	103204565	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1674064	103204565	38008866	472	32717											
CYLC2	1539	broad.mit.edu	37	chr9	105767642	105767642	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaaaagcagatgaaaagaaGgatgaggatggaaaaaaaga	23	4	13	1	0	0	5	0	2	0	3	0	8	0	8	0	3	1	2	0	3	8	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:105767642G>C	uc004bbs.2	+	5	799	c.729G>C	c.(727-729)AAG>AAC	p.K243N		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	243	31 X 3 AA repeats of K-K-X.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				ATGAAAAGAAGGATGAGGATG	0.363													8	36					0	0	0.006214	0	0		C	105767642	C	C	105767642	3	2	37	1	0	0	0	0	1	0	0	0	4145	991	35	5	747	5	CYLC2	9	105767642	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2563077	105767642	35445789	473	32718											
ACTL7B	10880	broad.mit.edu	37	chr9	111617863	111617863	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtccaccacgatgccgtgCttcagcgggttcaccagctt	7	9	10	15	3	2	0	2	0	0	0	3	1	3	0	4	1	4	3	4	1	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:111617863C>A	uc004bdi.2	-	1	413	c.348G>T	c.(346-348)AAG>AAT	p.K116N		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	116						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						CGATGCCGTGCTTCAGCGGGT	0.642													7	47					0.00198382	0.00205922	0.001984	1	0		A	111617863	A	A	111617863	3	1	37	1	0	0	0	0	1	0	0	0	201	796	28	5	903	5	ACTL7B	9	111617863	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5850221	111617863	29595568	474	32719											
ACTL7A	10881	broad.mit.edu	37	chr9	111625161	111625161	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagagaaatatgctgaaatgCtgtttgaagccttcaacacc	14	10	9	8	0	1	3	1	2	0	1	1	5	1	3	2	0	4	3	2	0	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:111625161C>T	uc004bdj.1	+	1	559	c.559C>T	c.(559-561)CTG>TTG	p.L187L		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	187						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						TGCTGAAATGCTGTTTGAAGC	0.567													9	91					0	0	0.006214	0	0		T	111625161	T	T	111625161	2	4	37	1	0	0	0	0	0	0	0	1	200	796	28	2		2	ACTL7A	9	111625161	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	7298	111625161	29588270	475	32720											
PTPN3	5774	broad.mit.edu	37	chr9	112144725	112144725	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcactgtgtgttcttccccGgtctgtgggagatgcagtgg	4	13	15	9	1	3	1	1	0	2	1	4	2	4	1	2	3	1	2	2	3	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:112144725G>A	uc004bed.2	-	24	2497	c.2385C>T	c.(2383-2385)ACC>ACT	p.T795T	PTPN3_uc004beb.2_Silent_p.T664T|PTPN3_uc004bec.2_Silent_p.T619T|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Silent_p.T750T|PTPN3_uc011lwh.1_Silent_p.T641T|PTPN3_uc011lwd.1_Silent_p.T263T|PTPN3_uc011lwe.1_Silent_p.T508T|PTPN3_uc011lwf.1_Silent_p.T463T	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	795	Tyrosine-protein phosphatase.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						GTTCTTCCCCGGTCTGTGGGA	0.572													16	45					0	0	0.006122	0	0		A	112144725	A	A	112144725	2	1	37	1	0	0	0	0	0	0	0	1	12814	1103	39	1		1	PTPN3	9	112144725	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	519564	112144725	29068706	476	32721											
KIAA0368	23392	broad.mit.edu	37	chr9	114138817	114138817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taagccgagcactatccatcGcagcctaaagaagagaaatt	16	7	8	10	2	0	2	0	0	0	2	2	4	1	2	3	0	3	2	3	0	6	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:114138817G>A	uc004bfe.1	-	38	4493	c.4493C>T	c.(4492-4494)GCG>GTG	p.A1498V		NM_001080398	NP_001073867			KIAA0368 protein												0						ACTATCCATCGCAGCCTAAAG	0.388													5	12					0	0	0.000602	0	0		A	114138817	A	A	114138817	3	1	37	1	0	0	0	0	1	0	0	0	8187	1087	38	1	1616	1	KIAA0368	9	114138817	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1994092	114138817	27074614	477	32722											
SUSD1	64420	broad.mit.edu	37	chr9	114874015	114874015	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacggtgtagttggtgcctgGgtacagggctaggcacactt	7	10	15	9	1	0	0	0	0	0	0	0	0	0	0	1	5	2	5	1	5	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:114874015G>T	uc004bfu.2	-	8	1131	c.1090C>A	c.(1090-1092)CCA>ACA	p.P364T	SUSD1_uc010mui.2_Missense_Mutation_p.P364T|SUSD1_uc010muj.2_Missense_Mutation_p.P364T	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	364	Extracellular (Potential).					integral to membrane	calcium ion binding				0						TTGGTGCCTGGGTACAGGGCT	0.557													15	77					1.05317e-09	1.17775e-09	0.00245	1	0		T	114874015	T	T	114874015	3	4	37	1	0	0	0	0	1	0	0	0	15432	1232	43	5	1193	5	SUSD1	9	114874015	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	735198	114874015	26339416	478	32723											
TNFSF15	9966	broad.mit.edu	37	chr9	117552745	117552745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcctcctatagtaagaagGctccaaagaaggttttatct	12	13	7	9	0	2	2	0	0	2	2	5	2	4	2	3	2	0	3	3	2	7	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:117552745G>A	uc004bjh.2	-	4	859	c.743C>T	c.(742-744)GCC>GTC	p.A248V	TNFSF15_uc004bjg.2_Missense_Mutation_p.A189V	NM_005118	NP_005109	O95150	TNF15_HUMAN	tumor necrosis factor (ligand) superfamily,	248	Extracellular (Potential).				activation of caspase activity|activation of NF-kappaB-inducing kinase activity|cytokine metabolic process|immune response	extracellular space|integral to plasma membrane	cytokine activity|tumor necrosis factor receptor binding				0						TAGTAAGAAGGCTCCAAAGAA	0.398													16	102					0	0	0.00499	0	0		A	117552745	A	A	117552745	3	1	37	1	0	0	0	0	1	0	0	0	16333	1203	42	2	16	2	TNFSF15	9	117552745	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2678730	117552745	23660686	479	32724											
PAPPA	5069	broad.mit.edu	37	chr9	119109445	119109445	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagggcaccacctttggCagtcaatgttccttccagtg	7	11	10	13	0	1	1	1	1	0	0	3	1	3	1	5	2	0	3	5	2	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:119109445C>T	uc004bjn.2	+	15	4302	c.3921C>T	c.(3919-3921)GGC>GGT	p.G1307G	PAPPA_uc011lxq.1_Silent_p.G682G	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1307	Sushi 2.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CCACCTTTGGCAGTCAATGTT	0.542													10	72					0	0	0.001855	0	0		T	119109445	T	T	119109445	2	4	37	1	0	0	0	0	0	0	0	1	11451	697	25	2		2	PAPPA	9	119109445	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1556700	119109445	22103986	480	32725											
CEP110	11064	broad.mit.edu	37	chr9	123877367	123877367	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatggtttttaaatttgcAgcacaaactcgactatcaga	14	12	7	8	1	1	1	1	0	0	1	2	2	1	1	0	1	4	4	0	1	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:123877367A>G	uc004bkx.1	+	9	1377	c.1346_splice	c.e9-2	p.A449_splice	CEP110_uc004bky.1_Splice_Site_p.A53_splice	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa						cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						TTAAATTTGCAGCACAAACTC	0.333													16	50					0	0	0.003163	0	0		G	123877367	G	G	123877367	5	3	37	1	0	0	0	0	0	0	1	0	3248	202	7	3	1378	3	CEP110	9	123877367	Splice_Site	SNP	A	TCGA-BR-6566-01A-11D-1800-08	4767922	123877367	17336064	481	32726											
GAPVD1	26130	broad.mit.edu	37	chr9	128061329	128061329	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagctgaaaagttgtatcgTacagcatggattgcgaagca	14	9	11	7	2	0	1	0	1	0	0	1	3	0	2	0	1	5	6	0	1	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:128061329T>C	uc010mwx.2	+	4	455	c.129T>C	c.(127-129)CGT>CGC	p.R43R	GAPVD1_uc004bpo.2_Silent_p.R43R|GAPVD1_uc011lzs.1_Silent_p.R43R|GAPVD1_uc004bpp.2_Silent_p.R43R|GAPVD1_uc004bpq.2_Silent_p.R43R|GAPVD1_uc004bpr.2_Silent_p.R43R|GAPVD1_uc004bps.2_Silent_p.R43R|GAPVD1_uc010mwy.1_5'Flank	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	43					endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						AGTTGTATCGTACAGCATGGA	0.398													4	39					0	0	0.009096	0	0		C	128061329	C	C	128061329	2	2	37	1	0	0	0	0	0	0	0	1	6254	1625	57	3		3	GAPVD1	9	128061329	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	4183962	128061329	13152102	482	32727											
ZBTB43	23099	broad.mit.edu	37	chr9	129595476	129595476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgagttccactacacccggCccatgtacagcaagcccagc	10	5	8	18	2	0	0	0	0	0	0	1	1	1	0	5	1	5	3	5	1	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:129595476C>T	uc004bql.2	+	3	961	c.688C>T	c.(688-690)CCC>TCC	p.P230S	ZBTB43_uc010mxf.2_Missense_Mutation_p.P230S	NM_014007	NP_054726	O43298	ZBT43_HUMAN	zinc finger and BTB domain containing 43	230					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTACACCCGGCCCATGTACAG	0.622													4	34					0	0	0.000602	0	0		T	129595476	T	T	129595476	3	4	37	1	0	0	0	0	1	0	0	0	17569	739	26	2	690	2	ZBTB43	9	129595476	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1534147	129595476	11617955	483	32728											
ANGPTL2	23452	broad.mit.edu	37	chr9	129856048	129856048	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgaagaagttaacagaGccatccaggcgtctctggat	11	10	10	10	1	1	3	0	1	1	2	4	4	3	4	3	2	2	1	3	2	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:129856048G>T	uc004bqr.1	-	3	1475	c.975C>A	c.(973-975)GGC>GGA	p.G325G	RALGPS1_uc004bqo.1_Intron|RALGPS1_uc011mab.1_Intron|RALGPS1_uc011mac.1_Intron|RALGPS1_uc004bqq.3_Intron|ANGPTL2_uc010mxg.1_Silent_p.G23G	NM_012098	NP_036230	Q9UKU9	ANGL2_HUMAN	angiopoietin-like 2 precursor	325	Fibrinogen C-terminal.				multicellular organismal development|signal transduction	extracellular space	receptor binding				0						AGTTAACAGAGCCATCCAGGC	0.612													16	144					4.7546e-09	5.28337e-09	0.004007	1	0		T	129856048	T	T	129856048	2	4	37	1	0	0	0	0	0	0	0	1	614	958	34	5		5	ANGPTL2	9	129856048	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	260572	129856048	11357383	484	32729											
GARNL3	84253	broad.mit.edu	37	chr9	130106617	130106617	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtttgttagaatagggcAggtgggttttcttctgaaac	9	14	14	4	0	2	2	0	1	2	1	2	3	2	3	0	4	1	4	0	4	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:130106617A>G	uc011mae.1	+	15	1756	c.1355A>G	c.(1354-1356)CAG>CGG	p.Q452R	GARNL3_uc011mad.1_Missense_Mutation_p.Q430R|GARNL3_uc004bqt.1_Missense_Mutation_p.Q233R	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	452					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						AGAATAGGGCAGGTGGGTTTT	0.478													6	145					0	0	0.00308	0	0		G	130106617	G	G	130106617	3	3	37	1	0	0	0	0	1	0	0	0	6256	202	7	3	1413	3	GARNL3	9	130106617	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	250569	130106617	11106814	485	32730											
ST6GALNAC6	30815	broad.mit.edu	37	chr9	130653119	130653119	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggttgacaaactcctggggCctcctcagcacgcggaacac	9	6	11	15	3	1	1	1	1	0	0	3	2	3	2	3	4	3	2	3	4	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:130653119C>T	uc004bso.1	-	5	620	c.501G>A	c.(499-501)AGG>AGA	p.R167R	ST6GALNAC6_uc004bsn.1_Silent_p.R133R|ST6GALNAC6_uc011man.1_Intron|ST6GALNAC6_uc004bsp.1_Silent_p.R167R|ST6GALNAC6_uc004bsq.1_Silent_p.R133R|ST6GALNAC6_uc004bsr.2_Silent_p.R133R|ST6GALNAC6_uc010mxp.1_RNA	NM_013443	NP_038471	Q969X2	SIA7F_HUMAN	sialytransferase 7F	167	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane|plasma membrane					0						ACTCCTGGGGCCTCCTCAGCA	0.612													13	36					0	0	0.001855	0	0		T	130653119	T	T	130653119	2	4	37	1	0	0	0	0	0	0	0	1	15253	738	26	2		2	ST6GALNAC6	9	130653119	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	546502	130653119	10560312	486	32731											
CERCAM	51148	broad.mit.edu	37	chr9	131198024	131198024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacccactatgccggggacgCcgagtggctcagtgacacgg	8	6	14	13	4	1	1	1	1	0	0	1	3	1	2	3	4	2	1	3	4	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:131198024C>T	uc004buz.3	+	12	2026	c.1628C>T	c.(1627-1629)GCC>GTC	p.A543V	CERCAM_uc004buy.1_Missense_Mutation_p.A465V|CERCAM_uc010mxz.2_Missense_Mutation_p.A465V	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	543					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						GCCGGGGACGCCGAGTGGCTC	0.662													4	26					0	0	0.009096	0	0		T	131198024	T	T	131198024	3	4	37	1	0	0	0	0	1	0	0	0	3269	739	26	2	1674	2	CERCAM	9	131198024	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	544905	131198024	10015407	487	32732											
SPTAN1	6709	broad.mit.edu	37	chr9	131386637	131386637	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaggagaacatctcttcaAagatgaagggcctgaacggg	14	7	13	7	1	2	5	1	3	1	2	3	6	2	5	1	3	2	0	1	3	4	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:131386637A>G	uc004bvl.3	+	45	5961	c.5848A>G	c.(5848-5850)AAG>GAG	p.K1950E	SPTAN1_uc004bvm.3_Missense_Mutation_p.K1955E|SPTAN1_uc004bvn.3_Missense_Mutation_p.K1930E|SPTAN1_uc010mye.1_5'Flank|SPTAN1_uc010myf.1_5'Flank	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1950	Spectrin 20.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						CATCTCTTCAAAGATGAAGGG	0.532													4	30					0	0	0.009096	0	0		G	131386637	G	G	131386637	3	3	37	1	0	0	0	0	1	0	0	0	15142	15	1	3	6041	3	SPTAN1	9	131386637	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	188613	131386637	9826794	488	32733											
C9orf50	375759	broad.mit.edu	37	chr9	132375434	132375434	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctcggaggctgcttcgCggcctctgagcagcggcctt	5	8	15	13	4	1	1	0	1	1	0	3	2	1	2	2	5	3	4	2	5	1	2	rs149142867	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:132375434C>T	uc004byc.3	-	6	1342	c.1140G>A	c.(1138-1140)CCG>CCA	p.P380P	C9orf50_uc004byb.3_RNA	NM_199350	NP_955382	Q5SZB4	CI050_HUMAN	hypothetical protein LOC375759	380										ovary(1)|central_nervous_system(1)	2		Ovarian(14;0.00556)				GGCTGCTTCGCGGCCTCTGAG	0.607													17	54					0	0	0.00499	0	0		T	132375434	T	T	132375434	2	4	37	1	0	0	0	0	0	0	0	1	2490	755	27	1		1	C9orf50	9	132375434	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	988797	132375434	8837997	489	32734											
USP20	10868	broad.mit.edu	37	chr9	132632083	132632083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggggacagctatgccGcccagggctggctggccttc	4	8	15	14	1	0	0	0	0	0	0	1	1	0	1	4	5	2	3	4	5	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:132632083G>A	uc004bys.2	+	14	1736	c.1525G>A	c.(1525-1527)GCC>ACC	p.A509T	USP20_uc004byr.2_Missense_Mutation_p.A509T|USP20_uc004byt.1_Missense_Mutation_p.A509T	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	509					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				CAGCTATGCCGCCCAGGGCTG	0.627													6	119					0	0	0.001984	0	0		A	132632083	A	A	132632083	3	1	37	1	0	0	0	0	1	0	0	0	17078	1087	38	1	1571	1	USP20	9	132632083	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	256649	132632083	8581348	490	32735											
BAT2L1	84726	broad.mit.edu	37	chr9	134357813	134357813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacttgagtgccgagtctcGggagtcgtctgcgacctcct	5	11	13	12	4	2	2	0	2	2	0	5	5	3	3	3	1	2	0	3	1	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:134357813G>A	uc004can.3	+	20	5094	c.5039G>A	c.(5038-5040)CGG>CAG	p.R1680Q	BAT2L1_uc004cao.3_Missense_Mutation_p.R1037Q|BAT2L1_uc004cap.3_5'Flank	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1680							protein binding				0						GCCGAGTCTCGGGAGTCGTCT	0.602													56	208					0	0	0.01441	0	0		A	134357813	A	A	134357813	3	1	37	1	0	0	0	0	1	0	0	0	1321	1116	39	1	5117	1	BAT2L1	9	134357813	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1725730	134357813	6855618	491	32736											
DDX31	64794	broad.mit.edu	37	chr9	135493751	135493751	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccctcctctcactggaGtgcacgtaatcttcaaatac	11	10	7	13	1	3	1	2	0	2	1	5	3	4	2	2	1	2	2	2	1	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:135493751G>A	uc004cbq.1	-	18	2258	c.2106C>T	c.(2104-2106)CAC>CAT	p.H702H	DDX31_uc010mzu.1_Intron	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	702						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		TCTCACTGGAGTGCACGTAAT	0.557													6	79					0	0	0.001168	0	0		A	135493751	A	A	135493751	2	1	37	1	0	0	0	0	0	0	0	1	4359	1020	36	4		4	DDX31	9	135493751	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1135938	135493751	5719680	492	32737											
ABO	28	broad.mit.edu	37	chr9	136131645	136131645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgtcacgcggggcaccGcggccggctggtcggtgaag	5	4	18	14	7	1	1	1	1	0	0	2	1	1	1	3	6	1	2	3	6	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:136131645G>A	uc004cda.1	-	8	498	c.473C>T	c.(472-474)GCG>GTG	p.A158V	ABO_uc010naf.1_Missense_Mutation_p.A17V|ABO_uc011mcz.1_Missense_Mutation_p.A17V|ABO_uc010nag.1_Missense_Mutation_p.A17V	NM_020469	NP_065202	P16442	BGAT_HUMAN	ABO blood group (alpha	158	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	fucosylgalactoside 3-alpha-galactosyltransferase activity|glycoprotein-fucosylgalactoside alpha-N-acetylgalactosaminyltransferase activity|metal ion binding				0				OV - Ovarian serous cystadenocarcinoma(145;5.82e-06)|Epithelial(140;3.45e-05)		GCGGGGCACCGCGGCCGGCTG	0.647													13	37					0	0	0.001855	0	0		A	136131645	A	A	136131645	3	1	37	1	0	0	0	0	1	0	0	0	97	1087	38	1	595	1	ABO	9	136131645	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	637894	136131645	5081786	493	32738											
CAMSAP1	157922	broad.mit.edu	37	chr9	138710908	138710908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagctgctgcttgcgcaCgcgggcctcctcggccttgc	2	10	12	17	4	0	0	0	0	0	0	3	0	2	0	4	2	5	4	4	2	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:138710908C>T	uc004cgr.3	-	12	3907	c.3907G>A	c.(3907-3909)GTG>ATG	p.V1303M	CAMSAP1_uc004cgq.3_Missense_Mutation_p.V1193M|CAMSAP1_uc010nbg.2_Missense_Mutation_p.V1025M	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1303						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		TGCTTGCGCACGCGGGCCTCC	0.657													4	18					0	0	0.000602	0	0		T	138710908	T	T	138710908	3	4	37	1	0	0	0	0	1	0	0	0	2614	536	19	1	925	1	CAMSAP1	9	138710908	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2579263	138710908	2502523	494	32739											
LHX3	8022	broad.mit.edu	37	chr9	139089228	139089228	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggggctggcagggaagtcGgggtaacccccgctgctccc	5	5	17	14	3	0	0	0	0	0	0	2	1	1	1	3	6	2	5	3	6	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:139089228G>A	uc004cha.2	-	6	1234	c.1137C>T	c.(1135-1137)CCC>CCT	p.P379P	LHX3_uc004cgz.2_Silent_p.P384P	NM_178138	NP_835258	Q9UBR4	LHX3_HUMAN	LIM homeobox protein 3 isoform a	379					inner ear development|organ morphogenesis|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;8.43e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.26e-07)		CAGGGAAGTCGGGGTAACCCC	0.697													4	23					0	0	0.000602	0	0		A	139089228	A	A	139089228	2	1	37	1	0	0	0	0	0	0	0	1	8788	1103	39	1		1	LHX3	9	139089228	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	378320	139089228	2124203	495	32740											
CARD9	64170	broad.mit.edu	37	chr9	139265581	139265581	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagcagctgagtcaggccTgactccccggacgcgtctgt	7	8	12	14	3	3	2	2	2	1	0	4	3	4	3	3	2	2	2	3	2	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:139265581T>C	uc004chg.3	-	4	505	c.339A>G	c.(337-339)TCA>TCG	p.S113S	CARD9_uc011mdw.1_Silent_p.S113S|CARD9_uc011mdx.1_Silent_p.S9S|CARD9_uc010nbj.2_Silent_p.S113S	NM_052813	NP_434700	Q9H257	CARD9_HUMAN	caspase recruitment domain protein 9 isoform 1	113					positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of JNK cascade|positive regulation of stress-activated MAPK cascade|regulation of apoptosis	cytoplasm	CARD domain binding|protein homodimerization activity			pancreas(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;4.58e-06)|Epithelial(140;5.65e-06)		GAGTCAGGCCTGACTCCCCGG	0.627													7	27					0	0	0.004482	0	0		C	139265581	C	C	139265581	2	2	37	1	0	0	0	0	0	0	0	1	2655	1567	55	3		3	CARD9	9	139265581	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	176353	139265581	1947850	496	32741											
NOTCH1	4851	broad.mit.edu	37	chr9	139401051	139401051	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcccccattcttgcagggCttgcctttgcagccattgat	5	13	10	13	0	1	1	0	1	1	0	1	1	1	1	4	1	5	3	4	1	0	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:139401051C>T	uc004chz.2	-	24	3942	c.3942G>A	c.(3940-3942)AAG>AAA	p.K1314K	NOTCH1_uc004cia.1_Silent_p.K544K	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1314	Extracellular (Potential).|EGF-like 34.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		TCTTGCAGGGCTTGCCTTTGC	0.687			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			6	27					0	0	0.001984	0	0		T	139401051	T	T	139401051	2	4	37	1	0	0	0	0	0	0	0	1	10566	796	28	2		2	NOTCH1	9	139401051	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	135470	139401051	1812380	497	32742											
MAMDC4	158056	broad.mit.edu	37	chr9	139751877	139751877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catggcgctggacgatgtggCcgtgcggccgggcccctgct	3	7	17	14	5	0	0	0	0	0	0	0	2	0	1	4	5	2	2	4	5	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:139751877C>T	uc004cjs.2	+	18	2215	c.2165C>T	c.(2164-2166)GCC>GTC	p.A722V	MAMDC4_uc011mej.1_Missense_Mutation_p.A59V	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	801	MAM 4.|Extracellular (Potential).				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		GACGATGTGGCCGTGCGGCCG	0.692													14	48					0	0	0.00499	0	0		T	139751877	T	T	139751877	3	4	37	1	0	0	0	0	1	0	0	0	9222	739	26	2	2235	2	MAMDC4	9	139751877	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	350826	139751877	1461554	498	32743											
TRAF2	7186	broad.mit.edu	37	chr9	139820133	139820133	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctggggctctctcctccAggtgaccttaatgctgctcg	4	12	10	15	1	1	1	0	1	1	0	6	1	4	1	4	3	2	3	4	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:139820133A>C	uc010nbu.2	+	12	1461	c.1288_splice	c.e12-2	p.V430_splice	TRAF2_uc004cjv.2_Splice_Site_p.V430_splice|TRAF2_uc011mek.1_Splice_Site_p.V419_splice|TRAF2_uc010nbw.2_Splice_Site_p.V405_splice	NM_021138	NP_066961	Q12933	TRAF2_HUMAN	TNF receptor-associated factor 2						activation of caspase activity|activation of NF-kappaB-inducing kinase activity|activation of pro-apoptotic gene products|cellular protein complex assembly|induction of apoptosis by extracellular signals|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|protein autoubiquitination|protein homotrimerization|protein K63-linked ubiquitination|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane	CD40 receptor binding|enzyme binding|protein binding|signal transducer activity|sphingolipid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.229)	OV - Ovarian serous cystadenocarcinoma(145;4.48e-06)|Epithelial(140;9.55e-06)		TCTCTCCTCCAGGTGACCTTA	0.617													11	56					0	0	0.008291	0	0		C	139820133	C	C	139820133	5	2	37	1	0	0	0	0	0	0	1	0	16464	202	7	5	1324	5	TRAF2	9	139820133	Splice_Site	SNP	A	TCGA-BR-6566-01A-11D-1800-08	68256	139820133	1393298	499	32744											
NDOR1	27158	broad.mit.edu	37	chr9	140100312	140100312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagagactgggtcgcgaggCccggcgccggcggcttggct	4	5	20	12	6	0	1	0	0	0	1	1	4	0	2	2	7	0	2	2	7	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:140100312C>T	uc004clw.2	+	1	194	c.83C>T	c.(82-84)GCC>GTC	p.A28V	TMEM203_uc004clv.2_5'Flank|NDOR1_uc004clx.2_Missense_Mutation_p.A28V|NDOR1_uc011mes.1_Missense_Mutation_p.A28V|NDOR1_uc004cly.2_Missense_Mutation_p.A28V	NM_014434	NP_055249	Q9UHB4	NDOR1_HUMAN	NADPH dependent diflavin oxidoreductase 1	28	Flavodoxin-like.				cell death	cytosol|intermediate filament cytoskeleton|nucleus|perinuclear region of cytoplasm	flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding|oxidoreductase activity|protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GGTCGCGAGGCCCGGCGCCGG	0.731													18	44					0	0	0.006122	0	0		T	140100312	T	T	140100312	3	4	37	1	0	0	0	0	1	0	0	0	10268	739	26	2	85	2	NDOR1	9	140100312	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	280179	140100312	1113119	500	32745											
FAM166A	401565	broad.mit.edu	37	chr9	140139126	140139126	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattcgtccatggcttgcaTgacgccgtctcggtaattca	8	12	10	11	4	2	1	1	1	1	0	5	2	3	1	2	2	1	3	2	2	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:140139126T>C	uc004cmi.1	-	5	770	c.715A>G	c.(715-717)ATG>GTG	p.M239V		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	239										ovary(1)	1						ATGGCTTGCATGACGCCGTCT	0.592													8	47					0	0	0.006214	0	0		C	140139126	C	C	140139126	3	2	37	1	0	0	0	0	1	0	0	0	5492	1464	51	3	250	3	FAM166A	9	140139126	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	38814	140139126	1074305	501	32746											
FAM166A	401565	broad.mit.edu	37	chr9	140140222	140140222	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggggctcttctgcacaCtggggtctgtgagcagctgc	6	9	15	11	0	3	1	0	1	3	0	3	1	3	1	0	4	5	5	0	4	0	1	rs142886368		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:140140222C>A	uc004cmi.1	-	2	195	c.140G>T	c.(139-141)AGT>ATT	p.S47I		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	47										ovary(1)	1						CTTCTGCACACTGGGGTCTGT	0.607													7	59					0.00448238	0.00463318	0.004482	1	0		A	140140222	A	A	140140222	3	1	37	1	0	0	0	0	1	0	0	0	5492	565	20	5	837	5	FAM166A	9	140140222	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1096	140140222	1073209	502	32747											
ZMYND11	10771	broad.mit.edu	37	chr10	255850	255850	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatatgtctcgagtccacggTatgcaccctaaagagaccac	12	9	8	12	2	1	1	0	0	1	1	3	3	2	1	3	1	1	2	3	1	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:255850T>C	uc010pzt.1	+	3	566	c.138T>C	c.(136-138)GGT>GGC	p.G46G	ZMYND11_uc001ifk.2_Silent_p.G46G|ZMYND11_uc010pzu.1_Silent_p.G46G|ZMYND11_uc010pzv.1_Silent_p.G46G|ZMYND11_uc010pzw.1_Silent_p.G46G|ZMYND11_uc001ifm.2_Silent_p.G46G|ZMYND11_uc010pzx.1_Silent_p.G46G|ZMYND11_uc001ifn.2_Silent_p.G46G|ZMYND11_uc009xhg.2_Silent_p.G29G|ZMYND11_uc009xhh.2_5'UTR|ZMYND11_uc010pzy.1_5'UTR	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	6					cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GAGTCCACGGTATGCACCCTA	0.393													20	82					0	0	0.014323	0	0		C	255850	C	C	255850	2	2	37	1	0	0	0	0	0	0	0	1	17731	1625	57	3		3	ZMYND11	10	255850	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08		255850	135278897	503	32748											
DIP2C	22982	broad.mit.edu	37	chr10	486873	486873	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgcgtttggaaggcataGgcactgccatcttccgctct	7	11	10	13	2	2	0	0	0	2	0	3	1	3	1	3	3	2	4	3	3	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:486873G>T	uc001ifp.2	-	4	422	c.332C>A	c.(331-333)CCT>CAT	p.P111H	DIP2C_uc009xhk.1_Missense_Mutation_p.L113I	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	111						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GGAAGGCATAGGCACTGCCAT	0.602													11	37					0.00829132	0.00853436	0.008291	1	0		T	486873	T	T	486873	3	4	37	1	0	0	0	0	1	0	0	0	4535	1000	35	5	4474	5	DIP2C	10	486873	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	231023	486873	135047874	504	32749											
ITIH2	3698	broad.mit.edu	37	chr10	7788613	7788613	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagagaccaggaaaggaccCtgagaagccagaggccagca	15	2	14	10	0	0	4	0	2	0	3	0	8	0	6	4	3	2	1	4	3	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:7788613C>A	uc001ijs.2	+	20	2801	c.2639C>A	c.(2638-2640)CCT>CAT	p.P880H		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	880					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						GGAAAGGACCCTGAGAAGCCA	0.483													5	26					0.000602214	0.000629355	0.000602	1	0		A	7788613	A	A	7788613	3	1	37	1	0	0	0	0	1	0	0	0	7920	681	24	5	2717	5	ITIH2	10	7788613	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	7301740	7788613	127746134	505	32750											
USP6NL	9712	broad.mit.edu	37	chr10	11505504	11505504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctgatatttgaagtggCgttgctattttggttggcag	6	17	12	6	1	0	2	0	2	0	0	1	2	1	2	1	3	1	4	1	3	3	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:11505504C>T	uc001ikt.3	-	15	1744	c.1423G>A	c.(1423-1425)GCC>ACC	p.A475T	USP6NL_uc001iks.1_Missense_Mutation_p.A492T	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	475						intracellular	Rab GTPase activator activity				0						TTTGAAGTGGCGTTGCTATTT	0.453													46	246					0	0	0.01441	0	0		T	11505504	T	T	11505504	3	4	37	1	0	0	0	0	1	0	0	0	17113	768	27	1	1067	1	USP6NL	10	11505504	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3716891	11505504	124029243	506	32751											
ST8SIA6	338596	broad.mit.edu	37	chr10	17363280	17363280	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatgctggcagaagaaaaAatgcatctccataggttgca	17	8	9	7	0	1	2	0	0	1	2	2	2	1	2	1	2	3	5	1	2	7	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:17363280A>C	uc001ipd.2	-	8	794	c.794T>G	c.(793-795)TTT>TGT	p.F265C	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	265	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						CAGAAGAAAAAATGCATCTCC	0.378													18	71					0	0	0.010504	0	0		C	17363280	C	C	17363280	3	2	37	1	0	0	0	0	1	0	0	0	15261	14	1	5	406	5	ST8SIA6	10	17363280	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	5857776	17363280	118171467	507	32752											
PLXDC2	84898	broad.mit.edu	37	chr10	20432315	20432315	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttcgatcccagtgtatcCagaaattcaactgtcagata	14	12	6	9	1	2	2	2	0	0	2	5	3	4	2	2	0	1	1	2	0	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:20432315C>T	uc001iqg.1	+	5	1270	c.633C>T	c.(631-633)TCC>TCT	p.S211S	PLXDC2_uc001iqh.1_Silent_p.S162S|PLXDC2_uc009xkc.1_RNA	NM_032812	NP_116201	Q6UX71	PXDC2_HUMAN	plexin domain containing 2 precursor	211	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4						CCAGTGTATCCAGAAATTCAA	0.353													24	70					0	0	0.005443	0	0		T	20432315	T	T	20432315	2	4	37	1	0	0	0	0	0	0	0	1	12137	581	21	4		4	PLXDC2	10	20432315	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3069035	20432315	115102432	508	32753											
NEBL	10529	broad.mit.edu	37	chr10	21097514	21097514	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggagatttctgacctgtCgtctccgagacctgtaccga	7	11	10	13	4	2	3	0	1	2	2	5	6	2	3	4	1	1	1	4	1	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:21097514C>A	uc001iqi.2	-	26	3083	c.2686G>T	c.(2686-2688)GAC>TAC	p.D896Y	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	896	Linker.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						TCTGACCTGTCGTCTCCGAGA	0.453													25	88					4.26978e-12	4.832e-12	0.00333	1	0		A	21097514	A	A	21097514	3	1	37	1	0	0	0	0	1	0	0	0	10322	884	31	5	370	5	NEBL	10	21097514	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	665199	21097514	114437233	509	32754											
NEBL	10529	broad.mit.edu	37	chr10	21139364	21139364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctcctttgaagcttgatatGatggtgtctcaacaaattca	11	14	7	9	0	2	3	2	3	1	0	4	3	3	3	2	1	2	1	2	1	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:21139364G>A	uc001iqi.2	-	11	1473	c.1076C>T	c.(1075-1077)TCA>TTA	p.S359L	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	359	Nebulin 10.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						AGCTTGATATGATGGTGTCTC	0.303													29	96					0	0	0.012213	0	0		A	21139364	A	A	21139364	3	1	37	1	0	0	0	0	1	0	0	0	10322	1294	45	4	2040	4	NEBL	10	21139364	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	41850	21139364	114395383	510	32755											
NEBL	10529	broad.mit.edu	37	chr10	21177122	21177122	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggtcagctttaatggtGcctttgtattttgcctgggg	7	15	13	6	0	1	0	1	0	0	0	1	1	1	0	2	4	3	2	2	4	3	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:21177122G>A	uc001iqi.2	-	4	670	c.273C>T	c.(271-273)GGC>GGT	p.G91G	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	91	Nebulin 2.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						CTTTAATGGTGCCTTTGTATT	0.343													8	33					0	0	0.00308	0	0		A	21177122	A	A	21177122	2	1	37	1	0	0	0	0	0	0	0	1	10322	1306	46	2		2	NEBL	10	21177122	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	37758	21177122	114357625	511	32756											
C10orf140	387640	broad.mit.edu	37	chr10	21805337	21805337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgcacgctgggaggcttgCagaagctggtgcgcctgaat	7	8	15	11	2	0	2	0	1	0	1	0	3	0	3	2	3	4	5	2	3	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:21805337C>T	uc009xkd.2	-	4	3668	c.1415G>A	c.(1414-1416)TGC>TAC	p.C472Y	uc001iqp.1_RNA	NM_207371	NP_997254	Q1XH10	DLN1_HUMAN	hypothetical protein LOC387640	391						nucleus	nucleotide binding			ovary(1)	1						GGGAGGCTTGCAGAAGCTGGT	0.637													17	49					0	0	0.006122	0	0		T	21805337	T	T	21805337	3	4	37	1	0	0	0	0	1	0	0	0	1598	710	25	2	1315	2	C10orf140	10	21805337	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	628215	21805337	113729410	512	32757											
GAD2	2572	broad.mit.edu	37	chr10	26506598	26506598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatcggaaacaaactgtgcGgtgagtgcccagggaccggg	10	5	16	10	3	0	1	0	1	0	0	1	3	0	3	2	4	4	1	2	4	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:26506598G>A	uc001isp.2	+	2	639	c.136G>A	c.(136-138)GCC>ACC	p.A46T	GAD2_uc009xkr.2_Missense_Mutation_p.A46T|GAD2_uc001isq.2_Missense_Mutation_p.A46T	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	46					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	CAAACTGTGCGGTGAGTGCCC	0.642													9	16					0	0	0.004482	0	0		A	26506598	A	A	26506598	3	1	37	1	0	0	0	0	1	0	0	0	6194	1130	39	1	142	1	GAD2	10	26506598	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4701261	26506598	109028149	513	32758											
ZNF33A	7581	broad.mit.edu	37	chr10	38299639	38299639	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttttctcaggttttgcGtgggaggcggtcccgggatt	3	16	15	7	3	1	0	1	0	1	0	3	2	2	2	1	5	1	2	1	5	0	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:38299639G>A	uc001izh.2	+	1	62	c.-116G>A	c.(-118--114)GCGTG>GCATG		ZNF33A_uc001izg.2_Translation_Start_Site|ZNF33A_uc010qev.1_Translation_Start_Site|ZNF33A_uc001izi.1_Translation_Start_Site	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						CAGGTTTTGCGTGGGAGGCGG	0.607													9	53					0	0	0.004482	0	0		A	38299639	A	A	38299639	1	1	37	1	0	0	0	0	0	0	0	0	17879	1160	40	1		1	ZNF33A	10	38299639	Translation_Start_Site	SNP	G	TCGA-BR-6566-01A-11D-1800-08	11793041	38299639	97235108	514	32759											
ZNF32	7580	broad.mit.edu	37	chr10	44139888	44139888	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggacagcgagactacctcgTtgactgaagcttttcccaca	10	10	9	12	2	0	3	0	2	0	1	2	5	1	4	2	1	3	2	2	1	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:44139888T>C	uc001jbb.2	-	3	621	c.432A>G	c.(430-432)CAA>CAG	p.Q144Q	uc001jba.2_Intron|ZNF32_uc001jbc.2_Silent_p.Q144Q	NM_001005368	NP_001005368	P17041	ZNF32_HUMAN	zinc finger protein 32	144	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		all_neural(218;0.0182)|Ovarian(717;0.0443)|Renal(717;0.157)		Lung(62;0.179)		GACTACCTCGTTGACTGAAGC	0.488													3	68					0	0	0.009096	0	0		C	44139888	C	C	44139888	2	2	37	1	0	0	0	0	0	0	0	1	17863	1722	60	3		3	ZNF32	10	44139888	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	5840249	44139888	91394859	515	32760											
GDF10	2662	broad.mit.edu	37	chr10	48429293	48429293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggcctgccacaggccgCgcggtgggggcgccagggcc	3	4	18	16	4	0	0	0	0	0	0	0	0	0	0	6	6	1	0	6	6	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:48429293C>T	uc001jfb.2	-	2	1049	c.593G>A	c.(592-594)CGC>CAC	p.R198H	GDF10_uc009xnp.2_Missense_Mutation_p.R197H|GDF10_uc009xnq.1_Missense_Mutation_p.R198H	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	198					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						CCACAGGCCGCGCGGTGGGGG	0.721													7	28					0	0	0.004482	0	0		T	48429293	T	T	48429293	3	4	37	1	0	0	0	0	1	0	0	0	6326	768	27	1	851	1	GDF10	10	48429293	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4289405	48429293	87105454	516	32761											
NCOA4	8031	broad.mit.edu	37	chr10	51579211	51579211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgaggtgtagtgatgcaCggagggacttggagcttgct	7	13	16	5	1	0	2	0	2	0	0	0	5	0	5	0	4	3	4	0	4	1	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:51579211C>T	uc001jis.3	+	2	273	c.70C>T	c.(70-72)CGG>TGG	p.R24W	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|NCOA4_uc009xon.2_Missense_Mutation_p.R40W|NCOA4_uc010qhd.1_Missense_Mutation_p.R40W|NCOA4_uc010qhe.1_Intron|NCOA4_uc010qhf.1_Intron|NCOA4_uc001jit.2_Missense_Mutation_p.R24W|NCOA4_uc009xoo.2_Missense_Mutation_p.R24W	NM_001145263	NP_001138735	Q13772	NCOA4_HUMAN	nuclear receptor coactivator 4 isoform 3	24					androgen receptor signaling pathway|male gonad development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	androgen receptor binding|transcription coactivator activity			central_nervous_system(1)|kidney(1)	2						TAGTGATGCACGGAGGGACTT	0.448			T	RET	papillary thyroid 								35	104					0	0	0.013726	0	0		T	51579211	T	T	51579211	3	4	37	1	0	0	0	0	1	0	0	0	10250	527	19	1	124	1	NCOA4	10	51579211	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3149918	51579211	83955536	517	32762											
FAM13C	220965	broad.mit.edu	37	chr10	61022345	61022345	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgggttgctcacacaacAggtttctaggtggacctttg	7	13	12	9	0	2	0	1	0	1	0	2	1	2	1	1	4	2	3	1	4	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:61022345A>C	uc001jkn.2	-	11	1219	c.1085T>G	c.(1084-1086)CTG>CGG	p.L362R	FAM13C_uc001jko.2_Intron|FAM13C_uc010qid.1_Missense_Mutation_p.L279R|FAM13C_uc010qie.1_Missense_Mutation_p.L279R|FAM13C_uc010qif.1_Missense_Mutation_p.L384R|FAM13C_uc001jkp.2_Missense_Mutation_p.L279R	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	362										ovary(2)	2						CTCACACAACAGGTTTCTAGG	0.502													21	60					0	0	0.014323	0	0		C	61022345	C	C	61022345	3	2	37	1	0	0	0	0	1	0	0	0	5465	188	7	5	692	5	FAM13C	10	61022345	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	9443134	61022345	74512402	518	32763											
SLC16A9	220963	broad.mit.edu	37	chr10	61414261	61414261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tatatttaaagctaaagcacCcacaatcagcaagcatccat	17	9	4	11	0	1	0	1	0	0	0	2	0	2	0	2	0	4	4	2	0	8	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:61414261C>T	uc010qig.1	-	5	972	c.523G>A	c.(523-525)GGT>AGT	p.G175S		NM_194298	NP_919274	Q7RTY1	MOT9_HUMAN	solute carrier family 16 (monocarboxylic acid	175	Helical; (Potential).				urate metabolic process	integral to membrane|plasma membrane	symporter activity			skin(2)|ovary(1)	3						GCTAAAGCACCCACAATCAGC	0.438													19	98					0	0	0.008871	0	0		T	61414261	T	T	61414261	3	4	37	1	0	0	0	0	1	0	0	0	14440	623	22	4	1014	4	SLC16A9	10	61414261	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	391916	61414261	74120486	519	32764											
ANK3	288	broad.mit.edu	37	chr10	61843307	61843307	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaaagttaaaaacaagttgCtgtcctcctttggtaagtgg	13	13	9	6	0	0	0	0	0	0	0	2	0	2	0	2	2	2	4	2	2	7	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:61843307C>T	uc001jky.2	-	33	4335	c.4143G>A	c.(4141-4143)CAG>CAA	p.Q1381Q	ANK3_uc001jkw.2_Silent_p.Q515Q|ANK3_uc009xpa.2_Silent_p.Q515Q|ANK3_uc001jkx.2_Silent_p.Q559Q|ANK3_uc010qih.1_Silent_p.Q1382Q|ANK3_uc001jkz.3_Silent_p.Q1375Q|ANK3_uc001jla.1_Silent_p.Q447Q|ANK3_uc001jkv.2_5'Flank|ANK3_uc009xpb.1_5'Flank|ANK3_uc009xpc.1_5'Flank	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1381					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						AAACAAGTTGCTGTCCTCCTT	0.313													14	47					0	0	0.001855	0	0		T	61843307	T	T	61843307	2	4	37	1	0	0	0	0	0	0	0	1	622	796	28	2		2	ANK3	10	61843307	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	429046	61843307	73691440	520	32765											
ZNF365	22891	broad.mit.edu	37	chr10	64425917	64425917	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctacaagtcaaagcaggAatatcagccttcttacacta	14	11	5	11	0	4	0	2	0	2	0	5	1	4	1	1	1	4	1	1	1	7	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:64425917A>C	uc001jmd.1	+	6	845	c.511A>C	c.(511-513)AAT>CAT	p.N171H	ZNF365_uc001jmc.2_Missense_Mutation_p.N417H|ZNF365_uc001jme.1_RNA|ZNF365_uc001jmf.1_RNA|ZNF365_uc009xpg.1_Intron	NM_199452	NP_955524	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform D	171										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					TCAAAGCAGGAATATCAGCCT	0.388													3	35					0	0	0.001168	0	0		C	64425917	C	C	64425917	3	2	37	1	0	0	0	0	1	0	0	0	17894	246	9	5	2007	5	ZNF365	10	64425917	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2582610	64425917	71108830	521	32766											
TET1	80312	broad.mit.edu	37	chr10	70446170	70446170	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgttattcctcaagatgagCagctccatgtgctacctctt	8	14	8	11	0	2	2	1	1	1	1	4	2	4	2	3	0	4	4	3	0	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:70446170C>T	uc001jok.3	+	11	5615	c.5110C>T	c.(5110-5112)CAG>TAG	p.Q1704*		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1704					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						TCAAGATGAGCAGCTCCATGT	0.453													16	103					0	0	0.003163	0	0		T	70446170	T	T	70446170	4	4	37	1	0	0	0	0	0	1	0	0	15794	711	25	2	5148	2	TET1	10	70446170	Nonsense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	6020253	70446170	65088577	522	32767											
HK1	3098	broad.mit.edu	37	chr10	71129308	71129308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggagcctttggagacgatgGatcattagaagacatccgga	12	8	14	7	2	1	3	1	0	0	3	2	8	2	6	2	4	1	0	2	4	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:71129308G>A	uc001jpl.3	+	7	904	c.803G>A	c.(802-804)GGA>GAA	p.G268E	HK1_uc001jpg.3_Missense_Mutation_p.G256E|HK1_uc001jph.3_Missense_Mutation_p.G272E|HK1_uc001jpi.3_Missense_Mutation_p.G272E|HK1_uc001jpj.3_Missense_Mutation_p.G303E|HK1_uc001jpk.3_Missense_Mutation_p.G267E|HK1_uc009xqd.2_Missense_Mutation_p.G146E	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	268	Regulatory.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						GGAGACGATGGATCATTAGAA	0.493													6	69					0	0	0.001168	0	0		A	71129308	A	A	71129308	3	1	37	1	0	0	0	0	1	0	0	0	7206	1174	41	4	1007	4	HK1	10	71129308	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	683138	71129308	64405439	523	32768											
NEUROG3	50674	broad.mit.edu	37	chr10	71332527	71332527	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgcattcgattgcgctcGcggtcgttggccttctttcg	2	16	12	11	6	1	0	0	0	1	0	5	1	1	0	1	2	2	3	1	2	0	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:71332527G>A	uc001jpp.2	-	2	431	c.273C>T	c.(271-273)CGC>CGT	p.R91R		NM_020999	NP_066279	Q9Y4Z2	NGN3_HUMAN	neurogenin 3	91	Basic motif.				central nervous system development|endocrine pancreas development|peripheral nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	transcription coactivator activity				0						GATTGCGCTCGCGGTCGTTGG	0.662													5	42					0	0	0.000602	0	0		A	71332527	A	A	71332527	2	1	37	1	0	0	0	0	0	0	0	1	10373	1074	38	1		1	NEUROG3	10	71332527	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	203219	71332527	64202220	524	32769											
SEC24C	9632	broad.mit.edu	37	chr10	75529233	75529233	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacacgctcatcaactacatGgccaagtttggtgagggtag	11	9	12	9	1	2	1	2	1	0	0	2	2	2	1	1	3	2	3	1	3	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:75529233G>T	uc001juw.2	+	19	2732	c.2553G>T	c.(2551-2553)ATG>ATT	p.M851I	SEC24C_uc009xrj.1_3'UTR|SEC24C_uc001jux.2_Missense_Mutation_p.M851I|SEC24C_uc010qko.1_Missense_Mutation_p.M732I|SEC24C_uc010qkp.1_Missense_Mutation_p.M99I|SEC24C_uc010qkq.1_Missense_Mutation_p.M99I|FUT11_uc001juy.1_5'Flank|FUT11_uc001juz.1_5'Flank|FUT11_uc001jva.2_5'Flank	NM_004922	NP_004913	P53992	SC24C_HUMAN	SEC24-related protein C	851					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|zinc ion binding			skin(2)|central_nervous_system(1)	3	Prostate(51;0.0112)					TCAACTACATGGCCAAGTTTG	0.552													8	56					5.4927e-09	6.09804e-09	0.004482	1	0		T	75529233	T	T	75529233	3	4	37	1	0	0	0	0	1	0	0	0	14021	1348	47	5	2619	5	SEC24C	10	75529233	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4196706	75529233	60005514	525	32770											
ACTA2	59	broad.mit.edu	37	chr10	90708573	90708573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacctgatgtctgggacGtcccacaatggatgggaaaa	11	8	11	11	1	2	1	1	1	1	0	3	4	3	4	3	3	0	0	3	3	3	0	rs112901682		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:90708573G>A	uc001kfp.2	-	2	231	c.115C>T	c.(115-117)CGT>TGT	p.R39C	STAMBPL1_uc010qmx.1_Intron|ACTA2_uc010qmy.1_Intron|ACTA2_uc001kfq.2_Missense_Mutation_p.R39C|ACTA2_uc010qmz.1_Missense_Mutation_p.R39C	NM_001613	NP_001604	P62736	ACTA_HUMAN	alpha 2 actin	39			R -> H (in AAT6).		response to virus	cytosol	ATP binding				0		Colorectal(252;0.0161)		Colorectal(12;0.000123)|COAD - Colon adenocarcinoma(12;0.00018)		TGTCTGGGACGTCCCACAATG	0.502													17	136					0	0	0.006122	0	0		A	90708573	A	A	90708573	3	1	37	1	0	0	0	0	1	0	0	0	192	1145	40	1	1050	1	ACTA2	10	90708573	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	15179340	90708573	44826174	526	32771											
IFIT1B	439996	broad.mit.edu	37	chr10	91143709	91143709	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacgagctgtcaggctaaaTccagatgatgtatatattag	15	11	9	6	1	1	2	1	1	0	1	2	3	2	2	1	1	2	3	1	1	7	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:91143709T>C	uc001kgh.2	+	2	719	c.639T>C	c.(637-639)AAT>AAC	p.N213N	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron	NM_001010987	NP_001010987	Q5T764	IFT1B_HUMAN	interferon-induced protein with	213	TPR 4.						binding				0						TCAGGCTAAATCCAGATGATG	0.448													89	298					0	0	0.01441	0	0		C	91143709	C	C	91143709	2	2	37	1	0	0	0	0	0	0	0	1	7538	1432	50	3		3	IFIT1B	10	91143709	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	435136	91143709	44391038	527	32772											
IDE	3416	broad.mit.edu	37	chr10	94294397	94294397	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtaattggtatgctctccActagtaaaggcatttgaact	12	14	8	7	0	1	1	0	1	1	0	2	1	1	1	1	2	2	5	1	2	7	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:94294397A>G	uc001kia.2	-	3	505	c.429T>C	c.(427-429)AGT>AGC	p.S143S		NM_004969	NP_004960	P14735	IDE_HUMAN	insulin-degrading enzyme isoform 1 precursor	143					beta-amyloid metabolic process|bradykinin catabolic process|interspecies interaction between organisms|sex differentiation	cell surface|extracellular space|soluble fraction	ATP binding|metalloendopeptidase activity|protein homodimerization activity|signal transducer activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3					Bacitracin(DB00626)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TATGCTCTCCACTAGTAAAGG	0.378													23	87					0	0	0.00333	0	0		G	94294397	G	G	94294397	2	3	37	1	0	0	0	0	0	0	0	1	7509	156	6	3		3	IDE	10	94294397	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3150688	94294397	41240350	528	32773											
PLCE1	51196	broad.mit.edu	37	chr10	96013971	96013971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagtggagaggtaactgacGatgagatggcaacccgaaag	15	5	15	6	2	0	4	0	2	0	3	0	8	0	4	1	3	2	2	1	3	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:96013971G>A	uc001kjk.2	+	10	3938	c.3304G>A	c.(3304-3306)GAT>AAT	p.D1102N	PLCE1_uc010qnx.1_Missense_Mutation_p.D1102N|PLCE1_uc001kjm.2_Missense_Mutation_p.D794N	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1102					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GGTAACTGACGATGAGATGGC	0.478													13	50					0	0	0.001855	0	0		A	96013971	A	A	96013971	3	1	37	1	0	0	0	0	1	0	0	0	12053	1058	37	1	3624	1	PLCE1	10	96013971	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1719574	96013971	39520776	529	32774											
NOC3L	64318	broad.mit.edu	37	chr10	96116929	96116929	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaccagtttattagactcAcctggcttctccctagtctg	8	15	6	12	0	3	1	1	0	2	1	4	1	3	1	3	1	1	2	3	1	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:96116929A>G	uc001kjq.1	-	4	596	c.508_splice	c.e4+1	p.V170_splice	NOC3L_uc009xuk.1_Splice_Site	NM_022451	NP_071896	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog							nuclear speck|nucleolus	binding			ovary(1)	1		Colorectal(252;0.0897)				TATTAGACTCACCTGGCTTCT	0.338													14	89					0	0	0.00245	0	0		G	96116929	G	G	96116929	5	3	37	1	0	0	0	0	0	0	1	0	10533	173	6	3	1964	3	NOC3L	10	96116929	Splice_Site	SNP	A	TCGA-BR-6566-01A-11D-1800-08	102958	96116929	39417818	530	32775											
CUTC	51076	broad.mit.edu	37	chr10	101503026	101503026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtgatgaaggctgacattCgtcttgccaagctttatggt	9	13	12	7	1	1	3	0	3	1	0	2	3	1	3	1	3	2	2	1	3	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:101503026C>T	uc001kqd.3	+	4	458	c.310C>T	c.(310-312)CGT>TGT	p.R104C	CUTC_uc010qpk.1_Missense_Mutation_p.R104C|CUTC_uc001kqe.3_RNA	NM_015960	NP_057044	Q9NTM9	CUTC_HUMAN	cutC copper transporter homolog	104					copper ion homeostasis|copper ion transport|protein tetramerization	cytoplasm|nucleus	copper ion binding			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3e-10)|all cancers(201;2.37e-08)		GGCTGACATTCGTCTTGCCAA	0.443													44	110					0	0	0.007835	0	0		T	101503026	T	T	101503026	3	4	37	1	0	0	0	0	1	0	0	0	4066	884	31	1	324	1	CUTC	10	101503026	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5386097	101503026	34031721	531	32776											
SFXN3	81855	broad.mit.edu	37	chr10	102798404	102798404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtctctccacagcgccGcccctggctgggggcacccc	3	8	11	19	2	2	0	0	0	2	0	4	0	3	0	6	3	1	2	6	3	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:102798404G>A	uc001ksp.2	+	10	1244	c.788G>A	c.(787-789)CGC>CAC	p.R263H	SFXN3_uc001ksq.2_Missense_Mutation_p.R263H|SFXN3_uc010qpx.1_Missense_Mutation_p.R267H	NM_030971	NP_112233	Q9BWM7	SFXN3_HUMAN	sideroflexin 3	263					iron ion homeostasis	integral to membrane|mitochondrial membrane	cation transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		CCACAGCGCCGCCCCTGGCTG	0.597											OREG0020454	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	78					0	0	0.00245	0	0		A	102798404	A	A	102798404	3	1	37	1	0	0	0	0	1	0	0	0	14221	1087	38	1	822	1	SFXN3	10	102798404	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1295378	102798404	32736343	532	32777											
KAZALD1	81621	broad.mit.edu	37	chr10	102824653	102824653	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaggaggaggctgagagTgaagagaatgacgattacta	14	7	15	5	1	0	5	0	4	0	2	0	10	0	7	1	3	1	1	1	3	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:102824653T>G	uc001ksr.2	+	5	1816	c.891T>G	c.(889-891)AGT>AGG	p.S297R	KAZALD1_uc001kss.3_RNA|uc001ksu.2_5'Flank	NM_030929	NP_112191	Q96I82	KAZD1_HUMAN	Kazal-type serine peptidase inhibitor domain 1	297					cell differentiation|multicellular organismal development|ossification|regulation of cell growth		insulin-like growth factor binding				0				Epithelial(162;6.21e-09)|all cancers(201;3.14e-07)		AGGCTGAGAGTGAAGAGAATG	0.532													4	63					0	0	0.000602	0	0		G	102824653	G	G	102824653	3	3	37	1	0	0	0	0	1	0	0	0	8005	1693	59	5	905	5	KAZALD1	10	102824653	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	26249	102824653	32710094	533	32778											
HPS6	79803	broad.mit.edu	37	chr10	103826834	103826834	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctagatgggaatggcaagCtgaggtcccaagcaccccct	11	6	12	12	0	0	2	0	1	0	1	1	3	1	3	3	3	3	4	3	3	4	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:103826834C>T	uc001kuj.2	+	1	1688	c.1603C>T	c.(1603-1605)CTG>TTG	p.L535L		NM_024747	NP_079023	Q86YV9	HPS6_HUMAN	Hermansky-Pudlak syndrome-6	535						cytosol|early endosome membrane|endoplasmic reticulum|microsome					0		Colorectal(252;0.122)		Epithelial(162;5.93e-08)|all cancers(201;1.03e-06)		GAATGGCAAGCTGAGGTCCCA	0.582									Hermansky-Pudlak_syndrome				26	79					0	0	0.005443	0	0		T	103826834	T	T	103826834	2	4	37	1	0	0	0	0	0	0	0	1	7359	796	28	2		2	HPS6	10	103826834	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1002181	103826834	31707913	534	32779											
LDB1	8861	broad.mit.edu	37	chr10	103867975	103867975	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcctcgtcgtcaatgcCgttggctgcgtcaaactggg	5	11	13	12	4	2	0	2	0	0	0	5	0	3	0	2	2	3	3	2	2	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:103867975C>T	uc009xwz.2	-	11	1454	c.1111G>A	c.(1111-1113)GGC>AGC	p.G371S	LDB1_uc001kuk.3_Missense_Mutation_p.G335S	NM_001113407	NP_001106878	Q86U70	LDB1_HUMAN	LIM domain binding 1 isoform 1	371	LIM-binding domain (LID) (By similarity).				histone H3-K4 acetylation|negative regulation of erythrocyte differentiation|negative regulation of transcription, DNA-dependent|positive regulation of hemoglobin biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription elongation, DNA-dependent|transcription, DNA-dependent|transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery	nuclear chromatin|protein complex	LIM domain binding|protein homodimerization activity|transcription corepressor activity			large_intestine(1)	1		Colorectal(252;0.122)		Epithelial(162;1.11e-07)|all cancers(201;1.82e-06)		TCGTCAATGCCGTTGGCTGCG	0.617													8	121					0	0	0.00308	0	0		T	103867975	T	T	103867975	3	4	37	1	0	0	0	0	1	0	0	0	8711	652	23	1	128	1	LDB1	10	103867975	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	41141	103867975	31666772	535	32780											
LOC729020	729020	broad.mit.edu	37	chr10	105005846	105005846	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgctagactctggggcCgattatctgcatctggatgt	8	12	12	9	1	3	2	0	0	3	2	3	4	3	3	1	3	2	2	1	3	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:105005846C>A	uc009xxi.2	+	1	203	c.93C>A	c.(91-93)GCC>GCA	p.A31A	uc001kwr.2_Intron	NM_001143909	NP_001137381	Q2QD12	Q2QD12_HUMAN	rcRPE protein	31					carbohydrate metabolic process		ribulose-phosphate 3-epimerase activity				0						ACTCTGGGGCCGATTATCTGC	0.557													40	126					5.71845e-15	6.54984e-15	0.005524	1	0		A	105005846	A	A	105005846	2	1	37	1	0	0	0	0	0	0	0	1	8906	639	23	5		5	LOC729020	10	105005846	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1137871	105005846	30528901	536	32781											
SORCS1	114815	broad.mit.edu	37	chr10	108924061	108924061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccactgagaacaggggaCgcactacgaggggcaggggc	10	2	19	10	2	0	1	0	1	0	1	0	4	0	2	1	7	2	2	1	7	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:108924061C>T	uc001kym.2	-	1	232	c.224G>A	c.(223-225)CGT>CAT	p.R75H	SORCS1_uc001kyl.2_Missense_Mutation_p.R75H|SORCS1_uc009xxs.2_Missense_Mutation_p.R75H|SORCS1_uc001kyn.1_Missense_Mutation_p.R75H|SORCS1_uc001kyo.2_Missense_Mutation_p.R75H	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	75	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		GAACAGGGGACGCACTACGAG	0.736													3	16					0	0	0.009096	0	0		T	108924061	T	T	108924061	3	4	37	1	0	0	0	0	1	0	0	0	14955	536	19	1	3620	1	SORCS1	10	108924061	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3918215	108924061	26610686	537	32782											
RAB11FIP2	22841	broad.mit.edu	37	chr10	119805671	119805671	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggcttgctcggacagcaTcatcctgtcctgtttctctg	4	15	10	12	1	2	0	1	0	1	0	6	1	4	1	2	2	2	4	2	2	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:119805671T>G	uc001ldj.1	-	1	444	c.4A>C	c.(4-6)ATG>CTG	p.M2L	RAB11FIP2_uc009xyz.1_Missense_Mutation_p.M2L|CASC2_uc001ldm.3_5'Flank|CASC2_uc009xzc.2_5'Flank|CASC2_uc001ldk.2_5'Flank|CASC2_uc009xza.2_5'Flank|CASC2_uc009xzb.2_5'Flank	NM_014904	NP_055719	Q7L804	RFIP2_HUMAN	RAB11 family interacting protein 2	2	C2.				protein transport	plasma membrane|recycling endosome membrane	protein homodimerization activity				0		Colorectal(252;0.235)		all cancers(201;0.0238)		TCGGACAGCATCATCCTGTCC	0.532													13	149					0	0	0.003163	0	0		G	119805671	G	G	119805671	3	3	37	1	0	0	0	0	1	0	0	0	12919	1435	50	5	1554	5	RAB11FIP2	10	119805671	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	10881610	119805671	15729076	538	32783											
FGFR2	2263	broad.mit.edu	37	chr10	123256201	123256201	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtattctcggaggttgcCtttagaggcatactcaacta	10	12	11	8	1	2	1	1	0	1	1	3	3	2	2	1	4	3	3	1	4	5	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:123256201C>G	uc010qtk.1	-	14	2355	c.1708G>C	c.(1708-1710)GGC>CGC	p.G570R	FGFR2_uc010qtg.1_Missense_Mutation_p.G458R|FGFR2_uc010qth.1_Missense_Mutation_p.G455R|FGFR2_uc010qti.1_Missense_Mutation_p.G481R|FGFR2_uc010qtj.1_Missense_Mutation_p.G571R|FGFR2_uc010qtl.1_Missense_Mutation_p.G454R|FGFR2_uc010qtm.1_Missense_Mutation_p.G453R|FGFR2_uc001lfl.3_Missense_Mutation_p.G571R|FGFR2_uc001lfm.2_Missense_Mutation_p.G482R|FGFR2_uc001lfg.3_Missense_Mutation_p.G178R	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	570	Cytoplasmic (Potential).|Protein kinase.				angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of mesenchymal cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding			endometrium(44)|skin(28)|lung(11)|ovary(4)|cervix(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|soft_tissue(1)|central_nervous_system(1)	96		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Palifermin(DB00039)	CGGAGGTTGCCTTTAGAGGCA	0.522		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				22	133					0	0	0.012319	0	0		G	123256201	G	G	123256201	3	3	37	1	0	0	0	0	1	0	0	0	5880	681	24	5	885	5	FGFR2	10	123256201	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3450530	123256201	12278546	539	32784											
NPS	594857	broad.mit.edu	37	chr10	129347763	129347763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactttgcagctcagtaaaaCtcaatctcatcctagttctg	11	14	5	11	0	4	0	3	0	2	0	6	0	5	0	1	0	4	4	1	0	5	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:129347763C>T	uc001ljx.1	+	2	39	c.19C>T	c.(19-21)CTC>TTC	p.L7F		NM_001030013	NP_001025184	P0C0P6	NPS_HUMAN	neuropeptide S precursor	7					neuropeptide signaling pathway	extracellular region					0						CTCAGTAAAACTCAATCTCAT	0.358													19	76					0	0	0.012319	0	0		T	129347763	T	T	129347763	3	4	37	1	0	0	0	0	1	0	0	0	10618	565	20	4	25	4	NPS	10	129347763	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	6091562	129347763	6186984	540	32785											
JAKMIP3	282973	broad.mit.edu	37	chr10	133963530	133963530	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagctggacatcctgggCgataacgccgtaagtgtatg	12	8	13	8	3	0	1	0	0	0	1	1	3	1	2	2	2	2	3	2	2	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:133963530C>T	uc001lkx.3	+	15	1992	c.1992C>T	c.(1990-1992)GGC>GGT	p.G664G	JAKMIP3_uc009yba.1_Silent_p.G101G	NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		ACATCCTGGGCGATAACGCCG	0.587													5	22					0	0	0.000602	0	0		T	133963530	T	T	133963530	2	4	37	1	0	0	0	0	0	0	0	1	7958	755	27	1		1	JAKMIP3	10	133963530	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4615767	133963530	1571217	541	32786											
CDHR5	53841	broad.mit.edu	37	chr11	618634	618634	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgctgaggggcatcggcTgagaggttcctggctctggg	4	11	17	9	1	2	2	0	2	2	1	4	3	3	2	1	6	1	5	1	6	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:618634T>C	uc001lqj.2	-	13	2030	c.1925A>G	c.(1924-1926)CAG>CGG	p.Q642R	IRF7_uc010qwf.1_5'Flank|IRF7_uc001lqf.2_5'Flank|IRF7_uc010qwg.1_5'Flank|IRF7_uc001lqg.2_5'Flank|IRF7_uc001lqh.2_5'Flank|IRF7_uc001lqi.2_5'Flank|IRF7_uc010qwh.1_5'Flank|CDHR5_uc001lqk.2_Intron|CDHR5_uc009ycc.2_Missense_Mutation_p.Q476R|CDHR5_uc009ycd.2_Missense_Mutation_p.Q636R|CDHR5_uc001lql.2_Missense_Mutation_p.Q642R	NM_021924	NP_068743	Q9HBB8	CDHR5_HUMAN	mucin and cadherin-like isoform 1	642	4 X 31 AA approximate tandem repeats.|Extracellular (Potential).|4; truncated.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						GGGCATCGGCTGAGAGGTTCC	0.622													4	117					0	0	0.000602	0	0		C	618634	C	C	618634	3	2	37	1	0	0	0	0	1	0	0	0	3125	1580	55	3	624	3	CDHR5	11	618634	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08		618634	134387882	542	32787											
CTSD	1509	broad.mit.edu	37	chr11	1774897	1774897	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggtcttcccggcctgcgAcacctgggacggccctggtg	4	7	16	14	3	1	0	0	0	1	0	2	3	2	1	4	5	1	0	4	5	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:1774897A>G	uc001luc.1	-	9	1208	c.1075T>C	c.(1075-1077)TCG>CCG	p.S359P	CTSD_uc009yda.1_RNA	NM_001909	NP_001900	P07339	CATD_HUMAN	cathepsin D preproprotein	359					cell death|proteolysis	extracellular space|lysosome|melanosome	aspartic-type endopeptidase activity				0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CCGGCCTGCGACACCTGGGAC	0.711													3	49					0	0	0.004672	0	0		G	1774897	G	G	1774897	3	3	37	1	0	0	0	0	1	0	0	0	4035	275	10	3	167	3	CTSD	11	1774897	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1156263	1774897	133231619	543	32788											
OR52I2	143502	broad.mit.edu	37	chr11	4608670	4608670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggttgtccactcctactgtGagcacatagctttggccagg	7	12	11	11	0	0	1	0	1	0	0	2	1	2	1	3	3	3	3	3	3	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:4608670G>A	uc010qyh.1	+	1	628	c.628G>A	c.(628-630)GAG>AAG	p.E210K		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	210	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTCCTACTGTGAGCACATAGC	0.517													4	212					0	0	0.001984	0	0		A	4608670	A	A	4608670	3	1	37	1	0	0	0	0	1	0	0	0	11140	1291	45	4	630	4	OR52I2	11	4608670	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2833773	4608670	130397846	544	32789											
OR52I1	390037	broad.mit.edu	37	chr11	4615645	4615645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgaccatggcttttgaccGctatgtagccatctgcaagc	8	11	10	12	1	1	2	0	2	1	0	1	2	1	2	3	1	3	5	3	1	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:4615645G>A	uc010qyi.1	+	1	377	c.377G>A	c.(376-378)CGC>CAC	p.R126H		NM_001005169	NP_001005169	Q8NGK6	O52I1_HUMAN	olfactory receptor, family 52, subfamily I,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;7.98e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCTTTTGACCGCTATGTAGCC	0.502													6	40					0	0	0.004482	0	0		A	4615645	A	A	4615645	3	1	37	1	0	0	0	0	1	0	0	0	11139	1087	38	1	379	1	OR52I1	11	4615645	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6975	4615645	130390871	545	32790											
OR51B6	390058	broad.mit.edu	37	chr11	5373205	5373205	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtctgtccattatgccAatagttgttcgcctacactg	7	14	9	11	1	1	0	0	0	1	0	3	0	2	0	3	1	2	3	3	1	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:5373205A>G	uc010qzb.1	+	1	468	c.468A>G	c.(466-468)CCA>CCG	p.P156P	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCATTATGCCAATAGTTGTTC	0.493													9	98					0	0	0.008291	0	0		G	5373205	G	G	5373205	2	3	37	1	0	0	0	0	0	0	0	1	11111	117	5	3		3	OR51B6	11	5373205	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	757560	5373205	129633311	546	32791											
OR51I2	390064	broad.mit.edu	37	chr11	5475541	5475541	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatgctacatacatgtcCtcatgtcaaatgtgtaccta	11	13	5	12	0	2	0	2	0	0	0	4	0	4	0	3	0	4	2	3	0	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:5475541C>A	uc010qzf.1	+	1	823	c.823C>A	c.(823-825)CTC>ATC	p.L275I	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004754	NP_001004754	Q9H344	O51I2_HUMAN	olfactory receptor, family 51, subfamily I,	275	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.09e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CATACATGTCCTCATGTCAAA	0.473													20	171					3.99206e-14	4.5597e-14	0.007413	1	0		A	5475541	A	A	5475541	3	1	37	1	0	0	0	0	1	0	0	0	11120	681	24	5	825	5	OR51I2	11	5475541	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	102336	5475541	129530975	547	32792											
OR52B6	340980	broad.mit.edu	37	chr11	5602431	5602431	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccaatttgtggctaggtTatagcctcatttcctttgat	7	17	9	8	0	1	1	1	1	0	0	2	1	2	1	3	3	1	2	3	3	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:5602431T>A	uc010qzi.1	+	1	325	c.325T>A	c.(325-327)TAT>AAT	p.Y109N	HBG2_uc001mak.1_Intron	NM_001005162	NP_001005162	Q8NGF0	O52B6_HUMAN	olfactory receptor, family 52, subfamily B,	109	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;3.56e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTGGCTAGGTTATAGCCTCAT	0.498													21	103					0	0	0.010504	0	0		A	5602431	A	A	5602431	3	1	37	1	0	0	0	0	1	0	0	0	11132	1754	61	5	327	5	OR52B6	11	5602431	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	126890	5602431	129404085	548	32793											
OR52E4	390081	broad.mit.edu	37	chr11	5906226	5906226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttccctctcaagatgtccGactaaaggccttcaatacct	10	11	5	15	1	2	1	2	0	1	1	5	2	4	1	5	1	1	0	5	1	5	4	rs141226100		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:5906226G>A	uc010qzs.1	+	1	704	c.704G>A	c.(703-705)CGA>CAA	p.R235Q	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAAGATGTCCGACTAAAGGCC	0.398													14	169					0	0	0.008871	0	0		A	5906226	A	A	5906226	3	1	37	1	0	0	0	0	1	0	0	0	11135	1058	37	1	706	1	OR52E4	11	5906226	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	303795	5906226	129100290	549	32794											
CCKBR	887	broad.mit.edu	37	chr11	6292358	6292358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggagctgacggcgctgaCggctcctgggccgggatccg	4	6	17	14	5	0	2	0	2	0	0	2	4	2	4	4	5	1	3	4	5	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:6292358C>T	uc001mcp.2	+	5	1122	c.929C>T	c.(928-930)ACG>ATG	p.T310M	CCKBR_uc001mcq.2_Missense_Mutation_p.T238M|CCKBR_uc001mcr.2_Missense_Mutation_p.T310M|CCKBR_uc001mcs.2_Missense_Mutation_p.T379M|CCKBR_uc001mct.1_RNA	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	310	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	ACGGCGCTGACGGCTCCTGGG	0.652													20	85					0	0	0.012319	0	0		T	6292358	T	T	6292358	3	4	37	1	0	0	0	0	1	0	0	0	2884	536	19	1	947	1	CCKBR	11	6292358	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	386132	6292358	128714158	550	32795											
DNHD1	144132	broad.mit.edu	37	chr11	6520167	6520167	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgacaatgcagaggtggAgcctgttggaagaaaagaga	15	6	14	6	0	0	4	0	1	0	3	0	7	0	6	1	3	2	2	1	3	4	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:6520167A>T	uc001mdw.3	+	3	1286	c.722A>T	c.(721-723)GAG>GTG	p.E241V	DNHD1_uc001mdp.2_Missense_Mutation_p.E241V	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	241					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GCAGAGGTGGAGCCTGTTGGA	0.527													10	51					0	0	0.008291	0	0		T	6520167	T	T	6520167	3	4	37	1	0	0	0	0	1	0	0	0	4674	304	11	5	724	5	DNHD1	11	6520167	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	227809	6520167	128486349	551	32796											
AMPD3	272	broad.mit.edu	37	chr11	10483162	10483162	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctaaagtgctccgagaagaGgacagcaaagatgccctgtc	13	6	12	10	1	0	3	0	0	0	3	2	5	1	4	2	1	3	3	2	1	4	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:10483162G>T	uc001mio.1	+	2	431	c.96G>T	c.(94-96)GAG>GAT	p.E32D	AMPD3_uc010rbz.1_Translation_Start_Site|AMPD3_uc001min.1_Missense_Mutation_p.E41D|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfx.1_Missense_Mutation_p.E32D|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.E39D|AMPD3_uc009yfy.2_Missense_Mutation_p.E32D	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	32					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		TCCGAGAAGAGGACAGCAAAG	0.577													23	78					2.21704e-12	2.51592e-12	0.00278	1	0		T	10483162	T	T	10483162	3	4	37	1	0	0	0	0	1	0	0	0	587	991	35	5	149	5	AMPD3	11	10483162	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3962995	10483162	124523354	552	32797											
MRVI1	10335	broad.mit.edu	37	chr11	10673666	10673666	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgctgggagtggccaCgtgtgcccggaacctccgct	4	8	13	16	3	0	0	0	0	0	0	2	2	2	2	6	3	3	2	6	3	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:10673666C>T	uc010rcc.1	-	2	517	c.131G>A	c.(130-132)CGT>CAT	p.R44H	MRVI1_uc001miw.2_Missense_Mutation_p.R35H|MRVI1_uc010rcb.1_Missense_Mutation_p.R35H|MRVI1_uc009ygb.1_Translation_Start_Site|MRVI1_uc001mix.2_Translation_Start_Site|MRVI1_uc001miz.2_Intron|MRVI1_uc009ygc.1_Intron|MRVI1_uc010rcd.1_Missense_Mutation_p.R44H|MRVI1_uc009ygd.1_Intron	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	35					platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum		p.M44I(1)		ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		GGAGTGGCCACGTGTGCCCGG	0.647													3	24					0	0	0.004672	0	0		T	10673666	T	T	10673666	3	4	37	1	0	0	0	0	1	0	0	0	9871	536	19	1	2687	1	MRVI1	11	10673666	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	190504	10673666	124332850	553	32798											
SPON1	10418	broad.mit.edu	37	chr11	14156984	14156984	+	Missense_Mutation	SNP	C	T	T																															aggtcgggccaaccactggtCtgcgatcatcggaggatccc																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:14156984C>T	uc001mle.2	+	7	1233	c.695C>T	c.(694-696)TCT>TTT	p.S232F		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	232	Spondin.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		AACCACTGGTCTGCGATCATC	0.522													16	84					0	0	0.003163	0	0		T	14156984	T	T	14156984	3	4	37	1	0	0	0	0	1	0	0	0	15107	913	32	4	716	4	SPON1	11	14156984	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3483318	14156984	120849532	554	32799	68	2									
SPON1	10418	broad.mit.edu	37	chr11	14156987	14156987	+	Missense_Mutation	SNP	C	T	T																															tcgggccaaccactggtctgCgatcatcggaggatcccact																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:14156987C>T	uc001mle.2	+	7	1236	c.698C>T	c.(697-699)GCG>GTG	p.A233V		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	233	Spondin.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		CACTGGTCTGCGATCATCGGA	0.532													27	76					0	0	0.005443	0	0		T	14156987	T	T	14156987	3	4	37	1	0	0	0	0	1	0	0	0	15107	768	27	1	719	1	SPON1	11	14156987	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3	14156987	120849529	555	32800	68	2									
PDE3B	5140	broad.mit.edu	37	chr11	14852374	14852374	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctaacagaagaggcacaGagtgaacagcaaacaaatgt	18	5	11	7	0	0	4	0	1	0	3	0	4	0	4	0	2	4	3	0	2	5	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:14852374G>T	uc001mln.2	+	8	2291	c.1938G>T	c.(1936-1938)CAG>CAT	p.Q646H	PDE3B_uc010rcr.1_Missense_Mutation_p.Q595H	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	646					cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						AAGAGGCACAGAGTGAACAGC	0.338													4	93					0.000602214	0.000629355	0.000602	1	0		T	14852374	T	T	14852374	3	4	37	1	0	0	0	0	1	0	0	0	11657	933	33	5	1968	5	PDE3B	11	14852374	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	695387	14852374	120154142	556	32801											
ABCC8	6833	broad.mit.edu	37	chr11	17428671	17428671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcctcctcgctctcagctgCctcctctgcaggccgcaaga	6	9	8	18	2	2	1	1	0	2	1	7	1	5	1	5	1	3	4	5	1	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:17428671C>T	uc001mnc.2	-	25	3052	c.2926G>A	c.(2926-2928)GCA>ACA	p.A976T		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	976	Cytoplasmic (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	CTCTCAGCTGCCTCCTCTGCA	0.443													7	21					0	0	0.00308	0	0		T	17428671	T	T	17428671	3	4	37	1	0	0	0	0	1	0	0	0	58	739	26	2	1879	2	ABCC8	11	17428671	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2576297	17428671	117577845	557	32802											
E2F8	79733	broad.mit.edu	37	chr11	19253779	19253779	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgaaagaaaaaaatacatAccactggtatttggactgat	17	10	9	5	0	0	3	0	2	0	1	0	4	0	4	1	3	2	1	1	3	7	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:19253779A>G	uc001mpm.2	-	7	1588	c.1066_splice	c.e7+1	p.G356_splice	E2F8_uc009yhv.2_Intron|E2F8_uc001mpn.3_Splice_Site_p.G356_splice	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8						cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						AAAAATACATACCACTGGTAT	0.303													8	169					0	0	0.00308	0	0		G	19253779	G	G	19253779	5	3	37	1	0	0	0	0	0	0	1	0	4879	405	14	3	1563	3	E2F8	11	19253779	Splice_Site	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1825108	19253779	115752737	558	32803											
KCNA4	3739	broad.mit.edu	37	chr11	30033234	30033234	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccctgtcgtccctaaacTcaggcaaggtttccaggcaa	10	9	9	13	1	1	0	1	0	0	0	5	1	4	0	3	3	1	3	3	3	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:30033234T>G	uc001msk.2	-	2	2144	c.992A>C	c.(991-993)GAG>GCG	p.E331A		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	331						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GTCCCTAAACTCAGGCAAGGT	0.527													18	65					0	0	0.008871	0	0		G	30033234	G	G	30033234	3	3	37	1	0	0	0	0	1	0	0	0	8021	1551	54	5	973	5	KCNA4	11	30033234	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	10779455	30033234	104973282	559	32804											
FSHB	2488	broad.mit.edu	37	chr11	30255240	30255240	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagattccttgtatacatacCcagtggccacccagtgtcac	10	10	7	14	0	1	1	1	0	0	1	2	1	2	1	4	1	2	1	4	1	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:30255240C>A	uc001msl.2	+	3	352	c.283C>A	c.(283-285)CCA>ACA	p.P95T	FSHB_uc001msm.2_Missense_Mutation_p.P95T|FSHB_uc001msn.2_Missense_Mutation_p.P95T	NM_000510	NP_000501	P01225	FSHB_HUMAN	follicle stimulating hormone, beta polypeptide	95					cellular nitrogen compound metabolic process|female gamete generation|female pregnancy|ovarian follicle development|peptide hormone processing|progesterone biosynthetic process|spermatogenesis|transforming growth factor beta receptor signaling pathway	cytoplasm|extracellular region|soluble fraction	follicle-stimulating hormone activity|protein heterodimerization activity			ovary(3)	3					Follitropin beta(DB00066)|Thyrotropin Alfa(DB00024)|Urofollitropin(DB00094)	GTATACATACCCAGTGGCCAC	0.522													6	67					2.0095e-06	2.17401e-06	0.001984	1	0		A	30255240	A	A	30255240	3	1	37	1	0	0	0	0	1	0	0	0	6086	623	22	5	289	5	FSHB	11	30255240	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	222006	30255240	104751276	560	32805											
TP53I11	9537	broad.mit.edu	37	chr11	44956568	44956568	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctagcgtggcagtgaccActgtgggagagagtccagca	10	6	15	10	1	0	2	0	1	0	1	1	4	1	3	2	2	3	3	2	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:44956568A>G	uc001myi.2	-	10	1042	c.437T>C	c.(436-438)GTG>GCG	p.V146A	TP53I11_uc001myf.1_Intron|TP53I11_uc001myj.2_Missense_Mutation_p.V146A|TP53I11_uc001myk.2_Missense_Mutation_p.V146A|TP53I11_uc001myl.2_Missense_Mutation_p.V146A|TP53I11_uc001mym.2_Missense_Mutation_p.V93A	NM_006034	NP_006025	O14683	P5I11_HUMAN	p53-induced protein	146	Helical; (Potential).				negative regulation of cell proliferation|response to stress	integral to membrane				ovary(1)	1						GGCAGTGACCACTGTGGGAGA	0.622													9	102					0	0	0.004482	0	0		G	44956568	G	G	44956568	3	3	37	1	0	0	0	0	1	0	0	0	16411	173	6	3	136	3	TP53I11	11	44956568	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	14701328	44956568	90049948	561	32806											
GYLTL1B	120071	broad.mit.edu	37	chr11	45949811	45949811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtaccgtgtgcaatgggCggccaactatgaaccctacg	9	7	11	14	4	0	1	0	1	0	0	0	1	0	1	4	2	5	2	4	2	6	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:45949811C>T	uc001nbv.1	+	13	1949	c.1838C>T	c.(1837-1839)GCG>GTG	p.A613V	GYLTL1B_uc001nbw.1_Missense_Mutation_p.A582V|GYLTL1B_uc001nbx.1_Missense_Mutation_p.A613V|GYLTL1B_uc001nby.1_Missense_Mutation_p.A296V|GYLTL1B_uc001nbz.1_Intron	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	613	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		GTGCAATGGGCGGCCAACTAT	0.642													14	167					0	0	0.004007	0	0		T	45949811	T	T	45949811	3	4	37	1	0	0	0	0	1	0	0	0	6923	768	27	1	1884	1	GYLTL1B	11	45949811	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	993243	45949811	89056705	562	32807											
AMBRA1	55626	broad.mit.edu	37	chr11	46465080	46465080	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttagtgaagtcccaccActggagccggtaggtagtat	12	9	11	9	1	0	1	0	1	0	0	1	2	1	2	3	3	2	3	3	3	6	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:46465080A>G	uc010rgu.1	-	12	2950	c.2590T>C	c.(2590-2592)TGG>CGG	p.W864R	AMBRA1_uc010rgt.1_Missense_Mutation_p.W430R|AMBRA1_uc009ylc.1_Missense_Mutation_p.W835R|AMBRA1_uc001ncu.1_Missense_Mutation_p.W774R|AMBRA1_uc001ncv.2_Missense_Mutation_p.W867R|AMBRA1_uc001ncw.2_Missense_Mutation_p.W745R|AMBRA1_uc001ncx.2_Missense_Mutation_p.W804R	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	864					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		AAGTCCCACCACTGGAGCCGG	0.473													4	30					0	0	0.000602	0	0		G	46465080	G	G	46465080	3	3	37	1	0	0	0	0	1	0	0	0	565	159	6	3	1334	3	AMBRA1	11	46465080	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	515269	46465080	88541436	563	32808											
ARHGAP1	392	broad.mit.edu	37	chr11	46700719	46700719	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccacagcaggttagggccGaaaacaacagccaggttagt	13	5	12	11	1	0	0	0	0	0	0	0	1	0	0	3	3	4	3	3	3	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:46700719G>A	uc001ndd.2	-	13	1257	c.1188C>T	c.(1186-1188)TTC>TTT	p.F396F		NM_004308	NP_004299	Q07960	RHG01_HUMAN	Rho GTPase activating protein 1	396	Rho-GAP.				Rho protein signal transduction	cytosol|intracellular membrane-bounded organelle	SH3 domain binding|SH3/SH2 adaptor activity			skin(1)	1		Lung NSC(402;1.76e-12)|all_lung(304;1.3e-11)		GBM - Glioblastoma multiforme(35;5.17e-06)|BRCA - Breast invasive adenocarcinoma(625;0.00112)|Lung(87;0.153)		GGTTAGGGCCGAAAACAACAG	0.537													29	120					0	0	0.012213	0	0		A	46700719	A	A	46700719	2	1	37	1	0	0	0	0	0	0	0	1	861	1049	37	1		1	ARHGAP1	11	46700719	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	235639	46700719	88305797	564	32809											
CKAP5	9793	broad.mit.edu	37	chr11	46829626	46829626	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcataatcgccagcttccagTttggggttttttattagtac	8	16	9	8	1	0	0	0	0	0	0	2	0	1	0	2	2	2	5	2	2	4	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:46829626T>C	uc001ndi.1	-	8	1043	c.933A>G	c.(931-933)AAA>AAG	p.K311K	CKAP5_uc009ylg.1_Silent_p.K197K|CKAP5_uc001ndj.1_Silent_p.K311K	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	311					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						CAGCTTCCAGTTTGGGGTTTT	0.388													48	231					0	0	0.01441	0	0		C	46829626	C	C	46829626	2	2	37	1	0	0	0	0	0	0	0	1	3448	1722	60	3		3	CKAP5	11	46829626	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	128907	46829626	88176890	565	32810											
SLC39A13	91252	broad.mit.edu	37	chr11	47431758	47431758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggttcccagccggccctccGgagccgggggactgcgacgg	4	4	18	15	5	0	0	0	0	0	0	2	3	2	2	5	6	3	1	5	6	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:47431758G>A	uc009ylq.2	+	2	284	c.113G>A	c.(112-114)CGG>CAG	p.R38Q	SLC39A13_uc001nfd.2_Missense_Mutation_p.R38Q|SLC39A13_uc001nfe.1_RNA|SLC39A13_uc001nff.3_Missense_Mutation_p.R38Q|SLC39A13_uc001nfg.3_Missense_Mutation_p.R38Q	NM_001128225	NP_001121697	Q96H72	S39AD_HUMAN	solute carrier family 39 (zinc transporter),	38	Cytoplasmic (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity				0				Lung(87;0.0936)		CCGGCCCTCCGGAGCCGGGGG	0.692													16	91					0	0	0.00499	0	0		A	47431758	A	A	47431758	3	1	37	1	0	0	0	0	1	0	0	0	14641	1116	39	1	115	1	SLC39A13	11	47431758	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	602132	47431758	87574758	566	32811											
OR4S1	256148	broad.mit.edu	37	chr11	48328082	48328082	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccagctcttttctgcccActtctttggtggcactgaga	6	13	9	13	0	3	1	0	1	3	1	3	3	3	1	2	2	2	2	2	2	0	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:48328082A>G	uc010rhu.1	+	1	308	c.308A>G	c.(307-309)CAC>CGC	p.H103R		NM_001004725	NP_001004725	Q8NGB4	OR4S1_HUMAN	olfactory receptor, family 4, subfamily S,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTTTCTGCCCACTTCTTTGGT	0.498													10	112					0	0	0.006214	0	0		G	48328082	G	G	48328082	3	3	37	1	0	0	0	0	1	0	0	0	11101	159	6	3	310	3	OR4S1	11	48328082	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	896324	48328082	86678434	567	32812											
OR8I2	120586	broad.mit.edu	37	chr11	55861106	55861106	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacttttttgttggattggTgtgttgtgagtgtttccttc	3	22	12	4	0	0	1	0	1	0	0	2	2	1	2	1	2	1	4	1	2	1	9			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:55861106T>C	uc010rix.1	+	1	323	c.323T>C	c.(322-324)GTG>GCG	p.V108A		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					GTTGGATTGGTGTGTTGTGAG	0.418													29	106					0	0	0.00632	0	0		C	55861106	C	C	55861106	3	2	37	1	0	0	0	0	1	0	0	0	11259	1696	59	3	325	3	OR8I2	11	55861106	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	7533024	55861106	79145410	568	32813											
SLC43A3	29015	broad.mit.edu	37	chr11	57185246	57185246	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctgtagttggggggcagtgGgtatgggatgtgcccccggg	4	9	21	7	1	0	0	0	0	0	0	0	1	0	1	2	6	1	5	2	6	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:57185246G>T	uc001nkg.2	-	8	1056	c.646C>A	c.(646-648)CCA>ACA	p.P216T	PRG2_uc001nke.2_Missense_Mutation_p.P115T|SLC43A3_uc001nkh.2_Missense_Mutation_p.P216T|SLC43A3_uc010rjr.1_Missense_Mutation_p.P229T|SLC43A3_uc009yme.2_Missense_Mutation_p.P216T|SLC43A3_uc001nki.2_Missense_Mutation_p.P216T|SLC43A3_uc009ymf.1_Missense_Mutation_p.P216T|SLC43A3_uc010rjs.1_Missense_Mutation_p.P216T|SLC43A3_uc009ymg.1_Missense_Mutation_p.P229T	NM_014096	NP_054815	Q8NBI5	S43A3_HUMAN	solute carrier family 43, member 3	216					transmembrane transport	integral to membrane				central_nervous_system(1)	1						GGGGGCAGTGGGTATGGGATG	0.577													9	73					2.74318e-10	3.07326e-10	0.006214	1	0		T	57185246	T	T	57185246	3	4	37	1	0	0	0	0	1	0	0	0	14659	1232	43	5	857	5	SLC43A3	11	57185246	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1324140	57185246	77821270	569	32814											
SLC43A1	8501	broad.mit.edu	37	chr11	57281506	57281508	+	In_Frame_Del	DEL	AGA	-	-																															ccagcccaggagtacagcagAgaagaagaggttctccagca																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:57281506_57281508delAGA	uc001nkk.2	-	2	195_197	c.77_79delTCT	c.(76-81)TTCTCT>TCT	p.F26del	SLC43A1_uc001nkl.2_In_Frame_Del_p.F26del	NM_003627	NP_003618	O75387	LAT3_HUMAN	solute carrier family 43, member 1	26	Helical; (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	neutral amino acid transmembrane transporter activity				0						AGTACAGCAGAGAAGAAGAGGTT	0.611													5	8	---	---	---	---						.	-	57281508	-	-	57281506	7	5	37	1	0	1	0	1	0	0	0	0	14657	304	11	0	1656	0	SLC43A1	11	57281506	In_Frame_Del	DEL	AGA	TCGA-BR-6566-01A-11D-1800-08	96260	57281506	77725010	570	32815											
CTNND1	1500	broad.mit.edu	37	chr11	57575890	57575890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacatccgctctgctctgcGtcaagagaaggctctttctg	8	12	9	12	2	5	1	1	0	4	1	6	2	6	1	1	1	3	3	1	1	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:57575890G>A	uc001nmc.3	+	14	2691	c.2120G>A	c.(2119-2121)CGT>CAT	p.R707H	CTNND1_uc001nlh.1_Missense_Mutation_p.R707H|CTNND1_uc001nlu.3_Missense_Mutation_p.R600H|CTNND1_uc001nlt.3_Missense_Mutation_p.R600H|CTNND1_uc001nls.3_Missense_Mutation_p.R600H|CTNND1_uc001nlw.3_Missense_Mutation_p.R600H|CTNND1_uc001nmf.3_Missense_Mutation_p.R707H|CTNND1_uc001nmd.3_Missense_Mutation_p.R653H|CTNND1_uc001nlk.3_Missense_Mutation_p.R653H|CTNND1_uc001nme.3_Missense_Mutation_p.R701H|CTNND1_uc001nll.3_Missense_Mutation_p.R647H|CTNND1_uc001nmg.3_Missense_Mutation_p.R647H|CTNND1_uc001nlj.3_Missense_Mutation_p.R647H|CTNND1_uc001nlr.3_Missense_Mutation_p.R647H|CTNND1_uc001nlp.3_Missense_Mutation_p.R647H|CTNND1_uc001nlx.3_Missense_Mutation_p.R384H|CTNND1_uc001nlz.3_Missense_Mutation_p.R384H|CTNND1_uc009ymn.2_Missense_Mutation_p.R378H|CTNND1_uc001nlm.3_Missense_Mutation_p.R701H|CTNND1_uc001nly.3_Missense_Mutation_p.R378H|CTNND1_uc001nmb.3_Missense_Mutation_p.R378H|CTNND1_uc001nma.3_Missense_Mutation_p.R378H|CTNND1_uc001nmi.3_Missense_Mutation_p.R606H|CTNND1_uc001nmh.3_Missense_Mutation_p.R701H|CTNND1_uc001nlq.3_Missense_Mutation_p.R606H|CTNND1_uc001nln.3_Missense_Mutation_p.R701H|CTNND1_uc001nli.3_Missense_Mutation_p.R701H|CTNND1_uc001nlo.3_Missense_Mutation_p.R600H|CTNND1_uc001nlv.3_Missense_Mutation_p.R600H	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	707	ARM 8.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				TCTGCTCTGCGTCAAGAGAAG	0.458													4	131					0	0	0.000602	0	0		A	57575890	A	A	57575890	3	1	37	1	0	0	0	0	1	0	0	0	4022	1145	40	1	2166	1	CTNND1	11	57575890	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	294384	57575890	77430626	571	32816											
TCN1	6947	broad.mit.edu	37	chr11	59622135	59622135	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagacctacccaaatatagTatcattcattttctgggctt	12	14	5	10	0	3	1	2	0	1	1	3	1	3	1	2	1	1	2	2	1	5	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:59622135T>C	uc001noj.2	-	7	1209	c.1111A>G	c.(1111-1113)ACT>GCT	p.T371A		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	371					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CCAAATATAGTATCATTCATT	0.358													8	90					0	0	0.00308	0	0		C	59622135	C	C	59622135	3	2	37	1	0	0	0	0	1	0	0	0	15731	1638	57	3	202	3	TCN1	11	59622135	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2046245	59622135	75384381	572	32817											
TMEM109	79073	broad.mit.edu	37	chr11	60689416	60689416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcttgtcatcttcctggccGgcttcgtggccctgatgagg	4	12	13	12	2	2	2	1	2	1	0	4	2	3	2	3	4	1	2	3	4	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:60689416G>A	uc001nqg.2	+	4	889	c.511G>A	c.(511-513)GGC>AGC	p.G171S	TMEM109_uc001nqh.2_Missense_Mutation_p.G171S|TMEM132A_uc001nqi.2_5'Flank|TMEM132A_uc001nqj.2_5'Flank	NM_024092	NP_076997	Q9BVC6	TM109_HUMAN	transmembrane protein 109 precursor	171	Helical; (Potential).					integral to membrane|nuclear outer membrane|sarcoplasmic reticulum membrane					0						CTTCCTGGCCGGCTTCGTGGC	0.657													11	124					0	0	0.010729	0	0		A	60689416	A	A	60689416	3	1	37	1	0	0	0	0	1	0	0	0	16050	1116	39	1	521	1	TMEM109	11	60689416	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1067281	60689416	74317100	573	32818											
INCENP	3619	broad.mit.edu	37	chr11	61912511	61912511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaggaggccgagcagctgCgcaggcagaaggtggaggag	11	2	21	7	2	0	1	0	0	0	1	0	6	0	5	1	7	3	4	1	7	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:61912511C>T	uc001nsw.1	+	12	1865	c.1663C>T	c.(1663-1665)CGC>TGC	p.R555C	INCENP_uc009ynw.1_Missense_Mutation_p.R555C|INCENP_uc001nsx.1_Missense_Mutation_p.R551C|INCENP_uc001nsy.1_5'UTR	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	555	Potential.				chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						CGAGCAGCTGCGCAGGCAGAA	0.672													9	43					0	0	0.006214	0	0		T	61912511	T	T	61912511	3	4	37	1	0	0	0	0	1	0	0	0	7749	768	27	1	1705	1	INCENP	11	61912511	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1223095	61912511	73094005	574	32819											
ATL3	25923	broad.mit.edu	37	chr11	63398579	63398579	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgatattgaccagaatacCtgatgtagccccaggtgagg	12	8	11	10	1	0	4	0	3	0	1	0	5	0	4	4	2	2	1	4	2	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:63398579C>A	uc001nxk.1	-	12	1748	c.1472G>T	c.(1471-1473)AGG>ATG	p.R491M	ATL3_uc010rms.1_Missense_Mutation_p.R473M|ATL3_uc010rmr.1_Missense_Mutation_p.R149M	NM_015459	NP_056274	Q6DD88	ATLA3_HUMAN	atlastin 3	491	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			pancreas(1)	1						ACCAGAATACCTGATGTAGCC	0.502													7	96					5.18039e-06	5.57504e-06	0.00308	1	0		A	63398579	A	A	63398579	3	1	37	1	0	0	0	0	1	0	0	0	1109	681	24	5	161	5	ATL3	11	63398579	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1486068	63398579	71607937	575	32820											
ATL3	25923	broad.mit.edu	37	chr11	63398938	63398938	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaataaggtttctctcccccAcaaacctaaaaagaacaaag	19	7	4	11	0	1	1	0	0	1	1	3	1	2	1	3	1	2	1	3	1	8	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:63398938A>C	uc001nxk.1	-	12	1389	c.1113T>G	c.(1111-1113)TGT>TGG	p.C371W	ATL3_uc010rms.1_Missense_Mutation_p.C353W|ATL3_uc010rmr.1_Missense_Mutation_p.C29W	NM_015459	NP_056274	Q6DD88	ATLA3_HUMAN	atlastin 3	371	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			pancreas(1)	1						TCTCTCCCCCACAAACCTAAA	0.338													10	25					0	0	0.010729	0	0		C	63398938	C	C	63398938	3	2	37	1	0	0	0	0	1	0	0	0	1109	157	6	5	520	5	ATL3	11	63398938	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	359	63398938	71607578	576	32821											
PLCB3	5331	broad.mit.edu	37	chr11	64028918	64028918	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgaggagatgtccacgcTtgtcaactacatcgaacctg	11	9	9	12	2	1	2	1	1	0	1	3	4	2	2	2	1	3	1	2	1	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:64028918T>G	uc001nzb.2	+	15	1778	c.1778T>G	c.(1777-1779)CTT>CGT	p.L593R	PLCB3_uc009ypg.1_Missense_Mutation_p.L593R|PLCB3_uc009yph.1_Missense_Mutation_p.L526R|PLCB3_uc009ypi.2_Missense_Mutation_p.L593R	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	593	PI-PLC Y-box.				intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						ATGTCCACGCTTGTCAACTAC	0.612													19	76					0	0	0.012319	0	0		G	64028918	G	G	64028918	3	3	37	1	0	0	0	0	1	0	0	0	12048	1609	56	5	1836	5	PLCB3	11	64028918	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	629980	64028918	70977598	577	32822											
PLCB3	5331	broad.mit.edu	37	chr11	64032517	64032517	+	Frame_Shift_Del	DEL	C	-	-																															ccccagcccactggatgcctCcccccgccggccccctggcc																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:64032517delC	uc001nzb.2	+	23	2747	c.2747delC	c.(2746-2748)TCCfs	p.S916fs	PLCB3_uc009ypg.1_Frame_Shift_Del_p.S916fs|PLCB3_uc009yph.1_Frame_Shift_Del_p.S849fs|PLCB3_uc009ypi.2_Frame_Shift_Del_p.S916fs	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	916					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						CTGGATGCCTCCCCCCGCCGG	0.701													7	11	---	---	---	---						.	-	64032517	-	-	64032517	7	5	37	1	0	1	0	1	0	0	0	0	12048	855	30	0	2837	0	PLCB3	11	64032517	Frame_Shift_Del	DEL	C	TCGA-BR-6566-01A-11D-1800-08	3599	64032517	70973999	578	32823											
LTBP3	4054	broad.mit.edu	37	chr11	65315479	65315479	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccggcacgcactctccgtgGccacagatgttctggttcag	6	9	11	15	3	3	1	1	0	2	1	4	1	3	1	3	3	0	4	3	3	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:65315479G>A	uc001oej.2	-	12	2027	c.1758C>T	c.(1756-1758)GGC>GGT	p.G586G	LTBP3_uc001oeg.2_5'Flank|LTBP3_uc001oeh.2_Silent_p.G16G|LTBP3_uc010roi.1_Silent_p.G469G|LTBP3_uc001oei.2_Silent_p.G586G|LTBP3_uc010roj.1_Silent_p.G287G|LTBP3_uc010rok.1_Silent_p.G497G	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	586	Cys-rich.|EGF-like 3.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						ACTCTCCGTGGCCACAGATGT	0.657													17	68					0	0	0.004007	0	0		A	65315479	A	A	65315479	2	1	37	1	0	0	0	0	0	0	0	1	9093	1190	42	2		2	LTBP3	11	65315479	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1282962	65315479	69691037	579	32824											
MUS81	80198	broad.mit.edu	37	chr11	65629422	65629422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgtacctttcaggttcCtgcccagcccaaagcgggag	7	9	10	15	1	2	0	1	0	1	0	3	1	3	1	5	2	4	2	5	2	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:65629422C>T	uc001ofv.3	+	4	709	c.356C>T	c.(355-357)CCT>CTT	p.P119L	CFL1_uc001oft.2_5'Flank|MUS81_uc001ofw.3_RNA|MUS81_uc001ofx.3_5'Flank	NM_025128	NP_079404	Q96NY9	MUS81_HUMAN	MUS81 endonuclease homolog	119					DNA recombination|DNA repair	nucleolus	3'-flap endonuclease activity|DNA binding|metal ion binding|protein binding				0				READ - Rectum adenocarcinoma(159;0.166)		TTTCAGGTTCCTGCCCAGCCC	0.458								Homologous_recombination					6	15					0	0	0.001168	0	0		T	65629422	T	T	65629422	3	4	37	1	0	0	0	0	1	0	0	0	10006	681	24	4	370	4	MUS81	11	65629422	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	313943	65629422	69377094	580	32825											
RBM4	5936	broad.mit.edu	37	chr11	66411100	66411100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgagcaatacggagcagtgCgtacgccttacaccatgagc	12	7	11	11	3	0	2	0	2	0	0	0	3	0	3	2	1	7	3	2	1	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:66411100C>T	uc009yrj.2	+	3	1080	c.592C>T	c.(592-594)CGT>TGT	p.R198C	RBM4_uc009yrk.2_Missense_Mutation_p.R173C|RBM4_uc001oiw.1_Missense_Mutation_p.R198C|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Missense_Mutation_p.R198C|RBM4_uc001oiz.1_Missense_Mutation_p.R198C	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	198	Interaction with TNPO3.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		CGGAGCAGTGCGTACGCCTTA	0.552													22	56					0	0	0.012319	0	0		T	66411100	T	T	66411100	3	4	37	1	0	0	0	0	1	0	0	0	13159	768	27	1	598	1	RBM4	11	66411100	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	781678	66411100	68595416	581	32826											
ADRBK1	156	broad.mit.edu	37	chr11	67048584	67048584	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaccatgaatgacttcagCgtgcatcgcatcattgggcg	9	10	11	11	3	2	3	2	3	0	0	3	3	2	3	1	1	2	2	1	1	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:67048584C>T	uc009yrn.1	+	8	842	c.576C>T	c.(574-576)AGC>AGT	p.S192S	ADRBK1_uc009yrm.1_Silent_p.S192S	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	192	Protein kinase.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	ATGACTTCAGCGTGCATCGCA	0.657													18	60					0	0	0.010504	0	0		T	67048584	T	T	67048584	2	4	37	1	0	0	0	0	0	0	0	1	343	767	27	1		1	ADRBK1	11	67048584	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	637484	67048584	67957932	582	32827											
SLCO2B1	11309	broad.mit.edu	37	chr11	74876908	74876908	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	accccgaatgattggctatgGggctatccttgtggccctgg	6	11	13	11	1	0	1	0	1	0	0	1	2	1	1	4	5	0	2	4	5	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:74876908G>T	uc001owb.2	+	4	749	c.362G>T	c.(361-363)GGG>GTG	p.G121V	SLCO2B1_uc010rrq.1_Intron|SLCO2B1_uc010rrr.1_Intron|SLCO2B1_uc010rrs.1_Missense_Mutation_p.G5V|SLCO2B1_uc001owc.2_Missense_Mutation_p.G5V|SLCO2B1_uc001owd.2_Missense_Mutation_p.G99V	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	121	Helical; Name=3; (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	ATTGGCTATGGGGCTATCCTT	0.582													10	196					0.00829132	0.00853436	0.008291	1	0		T	74876908	T	T	74876908	3	4	37	1	0	0	0	0	1	0	0	0	14752	1232	43	5	376	5	SLCO2B1	11	74876908	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	7828324	74876908	60129608	583	32828											
USP35	57558	broad.mit.edu	37	chr11	77916960	77916960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctggacttcgcagaagagcGagctggcgggtttctatccc	7	9	13	12	3	1	2	0	0	1	2	3	4	2	3	2	3	2	3	2	3	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:77916960G>A	uc009yva.1	+	7	1516	c.1270G>A	c.(1270-1272)GAG>AAG	p.E424K	USP35_uc001oze.2_Missense_Mutation_p.E180K|USP35_uc001ozc.2_5'UTR|USP35_uc010rsp.1_Intron|USP35_uc001ozd.2_Silent_p.A33A|USP35_uc001ozf.2_Missense_Mutation_p.E155K	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	424					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			GCAGAAGAGCGAGCTGGCGGG	0.572													15	279					0	0	0.006122	0	0		A	77916960	A	A	77916960	3	1	37	1	0	0	0	0	1	0	0	0	17092	1059	37	1	1292	1	USP35	11	77916960	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3040052	77916960	57089556	584	32829											
GAB2	9846	broad.mit.edu	37	chr11	77936163	77936163	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacactcaccaggaaagaGccaactccatcactcatgga	14	5	6	16	0	3	1	3	0	0	1	4	3	4	3	4	2	2	0	4	2	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:77936163G>A	uc001ozh.2	-	5	1293	c.1293C>T	c.(1291-1293)GGC>GGT	p.G431G	GAB2_uc001ozg.2_Silent_p.G393G	NM_080491	NP_536739	Q9UQC2	GAB2_HUMAN	GRB2-associated binding protein 2 isoform a	431					osteoclast differentiation|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mast cell degranulation	cytosol|plasma membrane	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|transmembrane receptor protein tyrosine kinase adaptor activity			ovary(5)|lung(1)	6	all_cancers(14;3.31e-18)|all_epithelial(13;5.3e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.58e-23)			CCAGGAAAGAGCCAACTCCAT	0.522													9	96					0	0	0.008291	0	0		A	77936163	A	A	77936163	2	1	37	1	0	0	0	0	0	0	0	1	6163	958	34	2		2	GAB2	11	77936163	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	19203	77936163	57070353	585	32830											
CCDC89	220388	broad.mit.edu	37	chr11	85396904	85396904	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagctctaggatctggcaGcgctccagggcctcatctga	8	8	12	13	1	4	1	1	1	3	0	5	2	5	2	2	3	3	4	2	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:85396904G>A	uc001pau.1	-	1	417	c.270C>T	c.(268-270)CGC>CGT	p.R90R		NM_152723	NP_689936	Q8N998	CCD89_HUMAN	coiled-coil domain containing 89	90	Potential.					cytoplasm|nucleus					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				GGATCTGGCAGCGCTCCAGGG	0.577													7	57					0	0	0.00308	0	0		A	85396904	A	A	85396904	2	1	37	1	0	0	0	0	0	0	0	1	2869	958	34	2		2	CCDC89	11	85396904	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	7460741	85396904	49609612	586	32831											
NAALAD2	10003	broad.mit.edu	37	chr11	89883713	89883713	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcaaactagaaagagagatgGgcatcaactgtactgggaag	16	7	12	6	0	2	3	2	0	0	3	2	5	2	4	0	2	3	2	0	2	6	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:89883713G>T	uc001pdf.3	+	5	656	c.547G>T	c.(547-549)GGC>TGC	p.G183C	NAALAD2_uc009yvx.2_Missense_Mutation_p.G183C|NAALAD2_uc009yvy.2_Missense_Mutation_p.G183C|NAALAD2_uc001pdd.2_Missense_Mutation_p.G183C|NAALAD2_uc001pde.2_Missense_Mutation_p.G183C	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	183	Extracellular (Potential).				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				AAGAGAGATGGGCATCAACTG	0.328													16	42					6.49762e-13	7.38721e-13	0.006122	1	0		T	89883713	T	T	89883713	3	4	37	1	0	0	0	0	1	0	0	0	10146	1232	43	5	565	5	NAALAD2	11	89883713	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4486809	89883713	45122803	587	32832											
FAT3	120114	broad.mit.edu	37	chr11	92087030	92087030	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaaaagtggcttgccaGggagttatttcatatgactt	11	15	10	5	0	1	2	1	2	0	0	1	3	1	3	1	2	1	2	1	2	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:92087030G>T	uc001pdj.3	+	1	1769	c.1752G>T	c.(1750-1752)CAG>CAT	p.Q584H		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	584	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TGGCTTGCCAGGGAGTTATTT	0.428										TCGA Ovarian(4;0.039)			12	35					9.31168e-06	9.99481e-06	0.001855	1	0		T	92087030	T	T	92087030	3	4	37	1	0	0	0	0	1	0	0	0	5705	991	35	5	1754	5	FAT3	11	92087030	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2203317	92087030	42919486	588	32833											
FOLR4	390243	broad.mit.edu	37	chr11	94038823	94038823	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atggcatgctggtggccgctCctgctagagctgtggacagt	6	10	15	10	1	0	1	0	0	0	1	1	2	1	2	2	4	3	5	2	4	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:94038823C>T	uc010rud.1	+	1	21	c.21C>T	c.(19-21)CTC>CTT	p.L7L		NM_001080486	NP_001073955	A6ND01	FOLR4_HUMAN	folate receptor 4 (delta) homolog	7						extracellular region	folic acid binding|receptor activity			ovary(1)	1						GGTGGCCGCTCCTGCTAGAGC	0.582													30	107					0	0	0.003271	0	0		T	94038823	T	T	94038823	2	4	37	1	0	0	0	0	0	0	0	1	5998	842	30	4		4	FOLR4	11	94038823	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1951793	94038823	40967693	589	32834											
CNTN5	53942	broad.mit.edu	37	chr11	100211267	100211267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagagggaatgagtctttcGtcatcctaacaggattagaa	13	11	10	7	1	2	3	1	1	1	2	4	5	3	5	1	2	1	0	1	2	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:100211267G>A	uc001pga.2	+	22	3142	c.2803G>A	c.(2803-2805)GTC>ATC	p.V935I	CNTN5_uc001pgb.2_Missense_Mutation_p.V861I|CNTN5_uc010ruk.1_Missense_Mutation_p.V206I	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	935	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		TGAGTCTTTCGTCATCCTAAC	0.428													6	26					0	0	0.001168	0	0		A	100211267	A	A	100211267	3	1	37	1	0	0	0	0	1	0	0	0	3647	1145	40	1	2881	1	CNTN5	11	100211267	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6172444	100211267	34795249	590	32835											
ATM	472	broad.mit.edu	37	chr11	108216545	108216545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattttcaaccagttttcCgttacttctgcatggaaaaa	14	14	5	8	1	2	0	1	0	1	0	3	1	3	1	2	1	3	3	2	1	6	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:108216545C>T	uc001pkb.1	+	58	8879	c.8494C>T	c.(8494-8496)CGT>TGT	p.R2832C	ATM_uc009yxr.1_Missense_Mutation_p.R2832C|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.R1484C	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2832	PI3K/PI4K.		R -> C (in AT and B-cell non-Hodgkin lymphoma).		cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding	p.R2832C(1)		haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		ACCAGTTTTCCGTTACTTCTG	0.343			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			33	133					0	0	0.004289	0	0		T	108216545	T	T	108216545	3	4	37	1	0	0	0	0	1	0	0	0	1110	652	23	1	8720	1	ATM	11	108216545	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	8005278	108216545	26789971	591	32836											
EXPH5	23086	broad.mit.edu	37	chr11	108381075	108381075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactaaattctgagctgctGtgacgtctttagaattctca	10	16	7	8	1	3	3	1	2	3	1	4	3	3	3	0	0	3	2	0	0	5	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:108381075G>A	uc001pkk.2	-	6	5270	c.5159C>T	c.(5158-5160)ACA>ATA	p.T1720I	EXPH5_uc010rvy.1_Missense_Mutation_p.T1532I|EXPH5_uc010rvz.1_Missense_Mutation_p.T1564I|EXPH5_uc010rwa.1_Missense_Mutation_p.T1644I	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1720					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		CTGAGCTGCTGTGACGTCTTT	0.448													33	150					0	0	0.012213	0	0		A	108381075	A	A	108381075	3	1	37	1	0	0	0	0	1	0	0	0	5330	1377	48	4	814	4	EXPH5	11	108381075	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	164530	108381075	26625441	592	32837											
USP28	57646	broad.mit.edu	37	chr11	113704196	113704196	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagatccagggctgcagaCgggtctacaaattttctatt	12	12	9	8	1	2	2	0	0	2	2	3	2	3	2	1	2	2	2	1	2	5	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:113704196C>T	uc001poh.2	-	7	738	c.705G>A	c.(703-705)CCG>CCA	p.P235P	USP28_uc010rwy.1_Silent_p.P110P|USP28_uc001poi.2_5'UTR|USP28_uc001poj.3_Silent_p.P235P|USP28_uc010rwz.1_Silent_p.P235P	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	235					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		GGGCTGCAGACGGGTCTACAA	0.398													10	146					0	0	0.008291	0	0		T	113704196	T	T	113704196	2	4	37	1	0	0	0	0	0	0	0	1	17084	523	19	1		1	USP28	11	113704196	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5323121	113704196	21302320	593	32838											
RBM7	10179	broad.mit.edu	37	chr11	114278312	114278312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggcgccaaggtacaccatCatcacagcgtaaagtcagaa	14	6	10	11	2	3	1	3	0	0	1	3	1	3	1	2	2	2	2	2	2	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:114278312C>T	uc001pov.2	+	5	594	c.584C>T	c.(583-585)TCA>TTA	p.S195L	RBM7_uc001pow.2_Missense_Mutation_p.S196L|RBM7_uc001pox.2_Missense_Mutation_p.S75L	NM_016090	NP_057174	Q9Y580	RBM7_HUMAN	RNA binding motif protein 7	195					meiosis		nucleotide binding|protein binding|RNA binding			ovary(2)	2		all_cancers(61;5.06e-12)|all_epithelial(67;5.3e-06)|all_hematologic(158;7.68e-05)|Acute lymphoblastic leukemia(157;0.000966)|Melanoma(852;0.00153)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.0818)|Prostate(24;0.104)		BRCA - Breast invasive adenocarcinoma(274;2.56e-06)|Epithelial(105;4.17e-05)|all cancers(92;0.000348)		GGTACACCATCATCACAGCGT	0.443													22	72					0	0	0.012319	0	0		T	114278312	T	T	114278312	3	4	37	1	0	0	0	0	1	0	0	0	13170	838	29	4	602	4	RBM7	11	114278312	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	574116	114278312	20728204	594	32839											
RNF214	257160	broad.mit.edu	37	chr11	117152774	117152774	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagcccagccagccttcCtcaccccttcctggctccca	5	8	5	23	0	1	0	1	0	0	0	5	0	5	0	9	1	3	1	9	1	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:117152774C>A	uc001pqt.2	+	11	1545	c.1500C>A	c.(1498-1500)TCC>TCA	p.S500S	RNF214_uc001pqu.2_Silent_p.S500S|RNF214_uc010rxf.1_Silent_p.S345S	NM_207343	NP_997226	Q8ND24	RN214_HUMAN	ring finger protein 214	500	Pro-rich.						zinc ion binding				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.88e-05)|Epithelial(105;0.000397)|all cancers(92;0.00258)		GCCAGCCTTCCTCACCCCTTC	0.622													9	286					5.16669e-11	5.80426e-11	0.010729	1	0		A	117152774	A	A	117152774	2	1	37	1	0	0	0	0	0	0	0	1	13503	668	24	5		5	RNF214	11	117152774	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2874462	117152774	17853742	595	32840											
MLL	4297	broad.mit.edu	37	chr11	118344459	118344459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgaggagctgtccaaagatcGagatgctgacaagagcgtgg	12	6	15	8	3	0	4	0	1	0	3	2	7	1	5	1	2	3	2	1	2	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:118344459G>A	uc001pta.2	+	3	2608	c.2585G>A	c.(2584-2586)CGA>CAA	p.R862Q	MLL_uc001ptb.2_Missense_Mutation_p.R862Q|MLL_uc001psz.1_Missense_Mutation_p.R895Q|MLL_uc001ptd.1_Intron	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	862					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TCCAAAGATCGAGATGCTGAC	0.303			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								12	29					0	0	0.010729	0	0		A	118344459	A	A	118344459	3	1	37	1	0	0	0	0	1	0	0	0	9638	1058	37	1	2595	1	MLL	11	118344459	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1191685	118344459	16662057	596	32841											
H2AFX	3014	broad.mit.edu	37	chr11	118965850	118965850	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtcgttgcggatggccagCtgcaggtggcgggggatgat	5	9	19	8	4	0	1	0	1	0	0	2	3	0	3	1	6	3	3	1	6	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:118965850C>T	uc001pvg.2	-	1	328	c.255G>A	c.(253-255)CAG>CAA	p.Q85Q	H2AFX_uc001pvh.1_RNA	NM_002105	NP_002096	P16104	H2AX_HUMAN	H2A histone family, member X	85					DNA damage checkpoint|double-strand break repair via homologous recombination|meiosis|nucleosome assembly|positive regulation of DNA repair|response to ionizing radiation	nucleoplasm|nucleosome	DNA binding|enzyme binding|histone binding				0	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.47e-05)		GGATGGCCAGCTGCAGGTGGC	0.667								Chromatin_Structure|Direct_reversal_of_damage			OREG0021395	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	202					0	0	0.00308	0	0		T	118965850	T	T	118965850	2	4	37	1	0	0	0	0	0	0	0	1	6944	796	28	2		2	H2AFX	11	118965850	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	621391	118965850	16040666	597	32842											
NLRX1	79671	broad.mit.edu	37	chr11	119045262	119045262	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtttctctgataccaaccTgcagaagctctacttccagc	9	11	7	14	1	2	2	0	1	2	1	4	2	3	2	3	1	6	3	3	1	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:119045262T>C	uc001pvu.2	+	6	1165	c.950T>C	c.(949-951)CTG>CCG	p.L317P	NLRX1_uc010rzc.1_Missense_Mutation_p.L139P|NLRX1_uc001pvv.2_Missense_Mutation_p.L317P|NLRX1_uc001pvw.2_Missense_Mutation_p.L317P|NLRX1_uc001pvx.2_Missense_Mutation_p.L317P	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	317	Required for interaction with MAVS.|NACHT.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		GATACCAACCTGCAGAAGCTC	0.602													8	182					0	0	0.006214	0	0		C	119045262	C	C	119045262	3	2	37	1	0	0	0	0	1	0	0	0	10504	1580	55	3	968	3	NLRX1	11	119045262	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	79412	119045262	15961254	598	32843											
TECTA	7007	broad.mit.edu	37	chr11	120996278	120996278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatctgggagagagctggCgtgtgtaccacgcagactgg	8	8	17	8	2	1	2	0	0	1	2	1	5	1	4	1	4	2	3	1	4	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:120996278C>T	uc010rzo.1	+	7	1471	c.1471C>T	c.(1471-1473)CGT>TGT	p.R491C		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	491	VWFD 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		AGAGAGCTGGCGTGTGTACCA	0.582													7	167					0	0	0.00308	0	0		T	120996278	T	T	120996278	3	4	37	1	0	0	0	0	1	0	0	0	15772	768	27	1	1497	1	TECTA	11	120996278	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1951016	120996278	14010238	599	32844											
VWA5A	4013	broad.mit.edu	37	chr11	123994983	123994983	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaagttacagacacgtttAgtgtaattaaagaagttagg	16	11	11	3	1	0	3	0	0	0	3	0	4	0	3	0	1	1	4	0	1	8	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:123994983A>G	uc001pzu.2	+	11	1413	c.1204A>G	c.(1204-1206)AGT>GGT	p.S402G	VWA5A_uc001pzr.2_Missense_Mutation_p.S402G|VWA5A_uc001pzs.2_Missense_Mutation_p.S402G|VWA5A_uc010sae.1_Missense_Mutation_p.S418G|VWA5A_uc001pzt.2_Missense_Mutation_p.S402G	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	402	VWFA.									upper_aerodigestive_tract(1)|ovary(1)	2						AGACACGTTTAGTGTAATTAA	0.363													3	48					0	0	0.004672	0	0		G	123994983	G	G	123994983	3	3	37	1	0	0	0	0	1	0	0	0	17268	420	15	3	1238	3	VWA5A	11	123994983	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2998705	123994983	11011533	600	32845											
OR8D1	283159	broad.mit.edu	37	chr11	124179741	124179741	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccccaaatcaggactcattTtcctactaagaccttcctta	11	12	3	15	0	2	1	2	0	0	1	4	2	4	2	5	1	1	0	5	1	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:124179741T>G	uc010sag.1	-	1	922	c.922A>C	c.(922-924)AAA>CAA	p.K308Q		NM_001002917	NP_001002917	Q8WZ84	OR8D1_HUMAN	olfactory receptor, family 8, subfamily D,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		AGGACTCATTTTCCTACTAAG	0.363													9	55					0	0	0.010729	0	0		G	124179741	G	G	124179741	3	3	37	1	0	0	0	0	1	0	0	0	11250	1850	64	5	7	5	OR8D1	11	124179741	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	184758	124179741	10826775	601	32846											
ERC1	23085	broad.mit.edu	37	chr12	1372286	1372286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataactgcagagcgggaaatGgtgctagcacaagaggaatc	15	6	13	7	1	0	2	0	0	0	2	1	4	0	4	0	3	5	3	0	3	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:1372286G>A	uc001qjb.2	+	14	2815	c.2574G>A	c.(2572-2574)ATG>ATA	p.M858I	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.M830I|ERC1_uc001qja.2_Intron|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.M858I|ERC1_uc010sdv.1_Intron|ERC1_uc001qje.2_RNA	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	858	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			AGCGGGAAATGGTGCTAGCAC	0.443													7	36					0	0	0.00308	0	0		A	1372286	A	A	1372286	3	1	37	1	0	0	0	0	1	0	0	0	5218	1348	47	4	2624	4	ERC1	12	1372286	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08		1372286	132479609	602	32847											
LAG3	3902	broad.mit.edu	37	chr12	6882045	6882045	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggctcagttcctgggcttGctgtttctgcagccgctttg	3	14	13	11	1	2	0	1	0	1	0	3	1	3	0	2	2	3	7	2	2	0	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:6882045G>A	uc001qqt.3	+	1	376	c.27G>A	c.(25-27)TTG>TTA	p.L9L	LAG3_uc001qqs.2_Silent_p.L9L|LAG3_uc001qqu.2_5'UTR	NM_002286	NP_002277	P18627	LAG3_HUMAN	lymphocyte-activation protein 3 precursor	9						integral to membrane	antigen binding|MHC class II protein binding				0						TCCTGGGCTTGCTGTTTCTGC	0.622													6	28					0	0	0.001984	0	0		A	6882045	A	A	6882045	2	1	37	1	0	0	0	0	0	0	0	1	8616	1310	46	2		2	LAG3	12	6882045	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5509759	6882045	126969850	603	32848											
GPR162	27239	broad.mit.edu	37	chr12	6933449	6933449	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcaactaccgcctcagcAacgccaagaagcaggcactg	12	4	9	16	3	2	1	2	0	0	1	2	1	2	1	4	1	5	3	4	1	5	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:6933449A>G	uc001qqw.1	+	2	920	c.385A>G	c.(385-387)AAC>GAC	p.N129D	GPR162_uc010sfn.1_Missense_Mutation_p.N129D|GPR162_uc001qqx.1_Intron|GPR162_uc009zfd.1_Intron|GPR162_uc001qqy.1_5'Flank	NM_019858	NP_062832	Q16538	GP162_HUMAN	G protein-coupled receptor 162 isoform 2	129	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCGCCTCAGCAACGCCAAGAA	0.622													5	97					0	0	0.000602	0	0		G	6933449	G	G	6933449	3	3	37	1	0	0	0	0	1	0	0	0	6681	130	5	3	406	3	GPR162	12	6933449	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	51404	6933449	126918446	604	32849											
CD163L1	283316	broad.mit.edu	37	chr12	7526223	7526223	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcagtttcactgtagagcctCaaggctgtgaattctacaga	11	12	9	9	0	4	3	3	1	1	2	4	3	4	3	1	1	2	3	1	1	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:7526223C>T	uc001qsy.2	-	14	3449	c.3423G>A	c.(3421-3423)TTG>TTA	p.L1141L	CD163L1_uc010sge.1_Silent_p.L1151L	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	1141	SRCR 11.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						TGTAGAGCCTCAAGGCTGTGA	0.448													8	203					0	0	0.004482	0	0		T	7526223	T	T	7526223	2	4	37	1	0	0	0	0	0	0	0	1	2971	825	29	4		4	CD163L1	12	7526223	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	592774	7526223	126325672	605	32850											
LRP6	4040	broad.mit.edu	37	chr12	12278295	12278295	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctgtaacatgggctcGgtcataggggggtccactgc	6	10	14	11	1	1	0	1	0	0	0	4	0	3	0	2	5	3	3	2	5	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:12278295G>A	uc001rah.3	-	21	4526	c.4384C>T	c.(4384-4386)CGA>TGA	p.R1462*	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Nonsense_Mutation_p.R1417*	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	1462	Cytoplasmic (Potential).				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				ACATGGGCTCGGTCATAGGGG	0.448													3	32					0	0	0.004672	0	0		A	12278295	A	A	12278295	4	1	37	1	0	0	0	0	0	1	0	0	8980	1124	39	1	469	1	LRP6	12	12278295	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4752072	12278295	121573600	606	32851											
GRIN2B	2904	broad.mit.edu	37	chr12	13716547	13716547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagaagttgcccccggaccGgtcctcccactccacgttgg	6	7	11	17	3	0	1	0	0	0	1	3	2	3	2	6	3	1	3	6	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:13716547G>A	uc001rbt.2	-	13	3804	c.3625C>T	c.(3625-3627)CGG>TGG	p.R1209W		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1209	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding	p.R1209R(1)		central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CCCCCGGACCGGTCCTCCCAC	0.642													15	109					0	0	0.004007	0	0		A	13716547	A	A	13716547	3	1	37	1	0	0	0	0	1	0	0	0	6796	1115	39	1	833	1	GRIN2B	12	13716547	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1438252	13716547	120135348	607	32852											
H2AFJ	55766	broad.mit.edu	37	chr12	14927697	14927697	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggagttaaacaagctgcTgggcaaagtgaccatcgctc	12	7	12	10	2	0	1	0	1	0	0	2	3	0	2	1	2	3	5	1	2	4	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:14927697T>C	uc009zia.2	+	1	428	c.293T>C	c.(292-294)CTG>CCG	p.L98P	H2AFJ_uc001rch.3_RNA	NM_177925	NP_808760	Q9BTM1	H2AJ_HUMAN	H2A histone family, member J	98					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)	1						AACAAGCTGCTGGGCAAAGTG	0.602													6	136					0	0	0.004482	0	0		C	14927697	C	C	14927697	3	2	37	1	0	0	0	0	1	0	0	0	6942	1580	55	3	295	3	H2AFJ	12	14927697	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1211150	14927697	118924198	608	32853											
PLCZ1	89869	broad.mit.edu	37	chr12	18865917	18865917	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caacggcatcctttcacaagGgcactagcaaaatttcagca	14	8	7	12	1	2	0	2	0	0	0	3	0	3	0	1	2	3	4	1	2	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:18865917G>A	uc010sid.1	-	6	764	c.573C>T	c.(571-573)GCC>GCT	p.A191A	PLCZ1_uc001rdv.3_Silent_p.A87A|PLCZ1_uc001rdw.3_Intron|PLCZ1_uc001rdu.1_5'UTR|PLCZ1_uc009zil.1_RNA	NM_033123	NP_149114	Q86YW0	PLCZ1_HUMAN	phospholipase C, zeta 1	191	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process|multicellular organismal development	nucleus|perinuclear region of cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)					CTTTCACAAGGGCACTAGCAA	0.348													7	48					0	0	0.004482	0	0		A	18865917	A	A	18865917	2	1	37	1	0	0	0	0	0	0	0	1	12063	1219	43	4		4	PLCZ1	12	18865917	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3938220	18865917	114985978	609	32854											
LST-3TM12	338821	broad.mit.edu	37	chr12	21207464	21207464	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcacttgggtgaatgcccaAgagatgatgcttgtacaagg	11	9	13	8	1	0	3	0	2	0	1	0	4	0	3	1	2	3	3	1	2	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:21207464A>T	uc010sin.1	+	10	1435	c.1435A>T	c.(1435-1437)AGA>TGA	p.R479*	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Nonsense_Mutation_p.R526*	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	479						membrane	transporter activity				0						TGAATGCCCAAGAGATGATGC	0.368													10	71					0	0	0.006214	0	0		T	21207464	T	T	21207464	4	4	37	1	0	0	0	0	0	1	0	0	9084	64	3	5	1473	5	LST-3TM12	12	21207464	Nonsense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2341547	21207464	112644431	610	32855											
SOX5	6660	broad.mit.edu	37	chr12	23728680	23728680	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccactgtttattctcagAgctggcatatggggagaggt	8	11	13	9	0	1	2	1	0	1	2	2	3	1	2	2	4	1	3	2	4	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:23728680A>C	uc001rfw.2	-	10	1359	c.1257T>G	c.(1255-1257)GCT>GCG	p.A419A	SOX5_uc001rfx.2_Silent_p.A406A|SOX5_uc001rfy.2_Intron|SOX5_uc001rfv.2_Silent_p.A33A|SOX5_uc010siv.1_Silent_p.A406A|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Silent_p.A371A	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	419					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TTATTCTCAGAGCTGGCATAT	0.517													12	128					0	0	0.00245	0	0		C	23728680	C	C	23728680	2	2	37	1	0	0	0	0	0	0	0	1	14979	291	11	5		5	SOX5	12	23728680	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2521216	23728680	110123215	611	32856											
YARS2	51067	broad.mit.edu	37	chr12	32908133	32908133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggtaatagaagtcataggCctggagcacctggtaaaaga	15	7	13	6	0	1	2	1	0	0	2	1	4	1	3	2	4	1	3	2	4	6	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:32908133C>T	uc001rli.2	-	1	742	c.676G>A	c.(676-678)GCC>ACC	p.A226T		NM_001040436	NP_001035526	Q9Y2Z4	SYYM_HUMAN	tyrosyl-tRNA synthetase 2, mitochondrial	226					tyrosyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|RNA binding|tyrosine-tRNA ligase activity				0	Lung NSC(5;2.43e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)				L-Tyrosine(DB00135)	AAGTCATAGGCCTGGAGCACC	0.567											OREG0021729	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	175					0	0	0.010771	0	0		T	32908133	T	T	32908133	3	4	37	1	0	0	0	0	1	0	0	0	17494	739	26	2	777	2	YARS2	12	32908133	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	9179453	32908133	100943762	612	32857											
SYT10	341359	broad.mit.edu	37	chr12	33532785	33532785	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccagcaatgggtgccaGtgcgttattggttttcgatg	7	13	12	9	2	0	0	0	0	0	0	2	1	1	0	3	2	3	3	3	2	2	4	rs150924840		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:33532785G>A	uc001rll.1	-	6	1779	c.1482C>T	c.(1480-1482)CAC>CAT	p.H494H	SYT10_uc009zju.1_Silent_p.H304H	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	494	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					ATGGGTGCCAGTGCGTTATTG	0.438													6	103					0	0	0.001168	0	0		A	33532785	A	A	33532785	2	1	37	1	0	0	0	0	0	0	0	1	15491	1020	36	4		4	SYT10	12	33532785	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	624652	33532785	100319110	613	32858											
LRRK2	120892	broad.mit.edu	37	chr12	40677742	40677742	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatagtggatctcgtgaacaAgatgtacgaaaagcgttgac	15	9	11	6	3	1	3	0	2	1	1	2	5	1	4	0	1	3	2	0	1	7	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:40677742A>G	uc001rmg.3	+	19	2428	c.2307A>G	c.(2305-2307)CAA>CAG	p.Q769Q	LRRK2_uc001rmh.1_Silent_p.Q391Q	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	769					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CTCGTGAACAAGATGTACGAA	0.408													25	66					0	0	0.004656	0	0		G	40677742	G	G	40677742	2	3	37	1	0	0	0	0	0	0	0	1	9051	69	3	3		3	LRRK2	12	40677742	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	7144957	40677742	93174153	614	32859											
LRRK2	120892	broad.mit.edu	37	chr12	40734203	40734203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcaaagattgctgactacgGcattgctcagtactgctgta	10	12	10	9	1	1	2	1	1	0	1	1	2	1	2	0	1	6	7	0	1	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:40734203G>A	uc001rmg.3	+	41	6177	c.6056G>A	c.(6055-6057)GGC>GAC	p.G2019D	LRRK2_uc009zjw.2_Missense_Mutation_p.G857D|LRRK2_uc001rmi.2_Missense_Mutation_p.G852D	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2019	Protein kinase.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				GCTGACTACGGCATTGCTCAG	0.453													8	130					0	0	0.00308	0	0		A	40734203	A	A	40734203	3	1	37	1	0	0	0	0	1	0	0	0	9051	1203	42	2	6218	2	LRRK2	12	40734203	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	56461	40734203	93117692	615	32860											
HDAC7	51564	broad.mit.edu	37	chr12	48191938	48191938	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggactgttctttctagggcCgcctgctgttttttcagaat	5	17	10	9	1	3	1	1	0	2	1	3	2	3	2	2	2	1	3	2	2	2	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:48191938C>T	uc009zkv.1	-	3	512	c.297G>A	c.(295-297)GCG>GCA	p.A99A	HDAC7_uc010slo.1_Silent_p.A138A|HDAC7_uc001rqj.3_Silent_p.A138A|HDAC7_uc001rqk.3_Silent_p.A121A			Q8WUI4	HDAC7_HUMAN	Synthetic construct DNA, clone: pF1KB0470, Homo sapiens HDAC7 gene for histone deacetylase 7, without stop codon, in Flexi system.	99	Interaction with MEF2A (By similarity).|Transcription repression 1 (By similarity).				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		TTTCTAGGGCCGCCTGCTGTT	0.617													18	370					0	0	0.007413	0	0		T	48191938	T	T	48191938	2	4	37	1	0	0	0	0	0	0	0	1	7028	639	23	1		1	HDAC7	12	48191938	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	7457735	48191938	85659957	616	32861											
MLL2	8085	broad.mit.edu	37	chr12	49444339	49444339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatcaggatgggagaagccGgccccactggggagcctgga	9	4	16	12	1	1	1	1	0	0	1	1	5	1	4	5	6	2	0	5	6	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:49444339G>A	uc001rta.3	-	11	3032	c.3032C>T	c.(3031-3033)CCG>CTG	p.P1011L		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1011	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GGGAGAAGCCGGCCCCACTGG	0.612			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			5	57					0	0	0.000602	0	0		A	49444339	A	A	49444339	3	1	37	1	0	0	0	0	1	0	0	0	9639	1116	39	1	13757	1	MLL2	12	49444339	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1252401	49444339	84407556	617	32862											
KCNH3	23416	broad.mit.edu	37	chr12	49943878	49943878	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcagctgctgcagagcctcCctgacgagctgcgcgcagac	7	6	13	15	3	0	3	0	1	0	2	1	4	1	3	2	0	7	6	2	0	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:49943878C>A	uc001ruh.1	+	10	1944	c.1684C>A	c.(1684-1686)CCT>ACT	p.P562T	KCNH3_uc010smj.1_Missense_Mutation_p.P502T	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	562	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						GCAGAGCCTCCCTGACGAGCT	0.692													5	34					1.23904e-05	1.32531e-05	0.000602	1	0		A	49943878	A	A	49943878	3	1	37	1	0	0	0	0	1	0	0	0	8049	623	22	5	1722	5	KCNH3	12	49943878	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	499539	49943878	83908017	618	32863											
RACGAP1	29127	broad.mit.edu	37	chr12	50399110	50399110	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagctgatttttgctcctcGcttagttgaatgctgccaga	8	14	10	9	1	0	4	0	2	0	2	2	4	1	4	2	0	4	5	2	0	2	4	rs149574224		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:50399110G>A	uc001rvt.2	-	6	664	c.354C>T	c.(352-354)AGC>AGT	p.S118S	RACGAP1_uc009zlm.1_Silent_p.S118S|RACGAP1_uc001rvs.2_Silent_p.S118S|RACGAP1_uc001rvu.2_Silent_p.S118S	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1	118	Interaction with SLC26A8.				blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						TTTGCTCCTCGCTTAGTTGAA	0.453													37	66					0	0	0.007835	0	0		A	50399110	A	A	50399110	2	1	37	1	0	0	0	0	0	0	0	1	13002	1078	38	1		1	RACGAP1	12	50399110	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	455232	50399110	83452785	619	32864											
ACVR1B	91	broad.mit.edu	37	chr12	52374774	52374774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttacccctctttgtccagcGcacagtggcccgaaccatcg	7	9	9	16	3	1	0	0	0	1	0	3	1	2	0	5	1	3	2	5	1	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:52374774G>A	uc001rzn.2	+	4	644	c.602G>A	c.(601-603)CGC>CAC	p.R201H	ACVR1B_uc001rzl.2_Missense_Mutation_p.R201H|ACVR1B_uc001rzm.2_Missense_Mutation_p.R201H|ACVR1B_uc010snn.1_Missense_Mutation_p.R201H	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	201	Cytoplasmic (Potential).|GS.				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	TTTGTCCAGCGCACAGTGGCC	0.498											OREG0021829	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	53					0	0	0.001984	0	0		A	52374774	A	A	52374774	3	1	37	1	0	0	0	0	1	0	0	0	221	1087	38	1	616	1	ACVR1B	12	52374774	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1975664	52374774	81477121	620	32865											
KRT75	9119	broad.mit.edu	37	chr12	52826980	52826980	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtcctggagccctgctcCtgcaggagggcccacttggt	6	8	13	14	0	0	0	0	0	0	0	2	2	2	2	4	4	3	2	4	4	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:52826980C>T	uc001saj.2	-	2	577	c.555G>A	c.(553-555)CAG>CAA	p.Q185Q		NM_004693	NP_004684	O95678	K2C75_HUMAN	keratin 75	185	Linker 1.|Rod.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.192)		AGCCCTGCTCCTGCAGGAGGG	0.567													11	108					0	0	0.008291	0	0		T	52826980	T	T	52826980	2	4	37	1	0	0	0	0	0	0	0	1	8504	680	24	4		4	KRT75	12	52826980	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	452206	52826980	81024915	621	32866											
GPR84	53831	broad.mit.edu	37	chr12	54756512	54756512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatgcttggcggaattggCggttcatggctgcatagagc	8	11	14	8	2	1	1	1	0	0	1	1	2	1	2	0	5	3	4	0	5	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:54756512C>T	uc001sfu.2	-	2	1214	c.1124G>A	c.(1123-1125)CGC>CAC	p.R375H		NM_020370	NP_065103	Q9NQS5	GPR84_HUMAN	G protein-coupled receptor 84	375	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			breast(2)	2						GCGGAATTGGCGGTTCATGGC	0.542													5	356					0	0	0.001168	0	0		T	54756512	T	T	54756512	3	4	37	1	0	0	0	0	1	0	0	0	6729	768	27	1	70	1	GPR84	12	54756512	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1929532	54756512	79095383	622	32867											
NCKAP1L	3071	broad.mit.edu	37	chr12	54936413	54936413	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctggagtcctgtttccctTatgtcctgcttcgaaatgcc	5	15	9	12	1	0	0	0	0	0	0	4	2	3	1	4	1	3	3	4	1	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:54936413T>C	uc001sgc.3	+	31	3407	c.3328T>C	c.(3328-3330)TAT>CAT	p.Y1110H	NCKAP1L_uc010sox.1_Missense_Mutation_p.Y652H|NCKAP1L_uc010soy.1_Missense_Mutation_p.Y1060H	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	1110					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						CTGTTTCCCTTATGTCCTGCT	0.532													33	103					0	0	0.004878	0	0		C	54936413	C	C	54936413	3	2	37	1	0	0	0	0	1	0	0	0	10241	1754	61	3	3450	3	NCKAP1L	12	54936413	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	179901	54936413	78915482	623	32868											
OR6C3	254786	broad.mit.edu	37	chr12	55725984	55725984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccagctggattactgtgCttccaacgtcattgatcact	8	13	7	13	1	2	1	2	1	0	0	4	2	4	2	3	1	4	2	3	1	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:55725984C>T	uc010spj.1	+	1	500	c.500C>T	c.(499-501)GCT>GTT	p.A167V		NM_054104	NP_473445	Q9NZP0	OR6C3_HUMAN	olfactory receptor, family 6, subfamily C,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GATTACTGTGCTTCCAACGTC	0.438													10	249					0	0	0.008291	0	0		T	55725984	T	T	55725984	3	4	37	1	0	0	0	0	1	0	0	0	11211	797	28	2	502	2	OR6C3	12	55725984	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	789571	55725984	78125911	624	32869											
OR6C76	390326	broad.mit.edu	37	chr12	55820443	55820443	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacaaccatcatgagtgacAggatctgttatcagcttata	14	12	7	8	0	3	2	2	2	1	0	3	3	3	3	1	1	3	2	1	1	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:55820443A>C	uc010spm.1	+	1	406	c.406A>C	c.(406-408)AGG>CGG	p.R136R		NM_001005183	NP_001005183	A6NM76	O6C76_HUMAN	olfactory receptor, family 6, subfamily C,	136	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CATGAGTGACAGGATCTGTTA	0.453													9	129					0	0	0.004482	0	0		C	55820443	C	C	55820443	2	2	37	1	0	0	0	0	0	0	0	1	11219	179	7	5		5	OR6C76	12	55820443	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	94459	55820443	78031452	625	32870											
MYL6B	140465	broad.mit.edu	37	chr12	56549214	56549214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctccagagctgaagtcgCggcgtgtggactttgagact	9	9	13	10	3	0	3	0	2	0	2	2	5	1	4	2	2	2	1	2	2	2	1	rs149424698		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:56549214C>T	uc001sjs.2	+	5	485	c.358C>T	c.(358-360)CGG>TGG	p.R120W	MYL6B_uc009zoo.2_Missense_Mutation_p.R120W|MYL6B_uc001sjt.2_Missense_Mutation_p.R120W|MYL6B_uc001sju.1_Missense_Mutation_p.R120W|MYL6_uc001sjv.2_5'Flank|MYL6_uc001sjw.1_5'Flank|MYL6_uc001sjx.1_5'Flank|MYL6_uc010sqd.1_5'Flank|MYL6_uc001sjz.2_5'Flank	NM_002475	NP_002466	P14649	MYL6B_HUMAN	smooth muscle and non-muscle myosin alkali light	120					muscle filament sliding|skeletal muscle tissue development	cytosol|muscle myosin complex|unconventional myosin complex	calcium ion binding|motor activity|protein binding|structural constituent of muscle				0			OV - Ovarian serous cystadenocarcinoma(18;0.0979)			GCTGAAGTCGCGGCGTGTGGA	0.522													4	157					0	0	0.009096	0	0		T	56549214	T	T	56549214	3	4	37	1	0	0	0	0	1	0	0	0	10070	759	27	1	372	1	MYL6B	12	56549214	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	728771	56549214	77302681	626	32871											
COQ10A	93058	broad.mit.edu	37	chr12	56662937	56662937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctctggtggtatccagcCgtaagggtcatttgaaagcc	9	11	12	9	1	2	1	1	1	1	0	4	1	3	1	3	3	2	2	3	3	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:56662937C>T	uc001sko.3	+	3	637	c.376C>T	c.(376-378)CGT>TGT	p.R126C	COQ10A_uc001skp.3_Missense_Mutation_p.R94C|COQ10A_uc001skq.3_Missense_Mutation_p.R109C	NM_144576	NP_653177	Q96MF6	CQ10A_HUMAN	coenzyme Q10 homolog A isoform a	126						mitochondrial inner membrane				ovary(1)	1						GGTATCCAGCCGTAAGGGTCA	0.507													45	97					0	0	0.013114	0	0		T	56662937	T	T	56662937	3	4	37	1	0	0	0	0	1	0	0	0	3746	652	23	1	428	1	COQ10A	12	56662937	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	113723	56662937	77188958	627	32872											
AVIL	10677	broad.mit.edu	37	chr12	58204205	58204205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggcttgataatggagcGtcggccaagggtgtcctgaa	9	10	15	7	2	0	2	0	2	0	0	2	3	1	3	2	4	1	2	2	4	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:58204205G>A	uc001sqj.1	-	6	717	c.688C>T	c.(688-690)CGC>TGC	p.R230C	AVIL_uc009zqe.1_Missense_Mutation_p.R223C|AVIL_uc001sqk.1_5'Flank|AVIL_uc001sql.3_Missense_Mutation_p.R207C	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	230	Core (By similarity).				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					ATAATGGAGCGTCGGCCAAGG	0.517													8	91					0	0	0.00308	0	0		A	58204205	A	A	58204205	3	1	37	1	0	0	0	0	1	0	0	0	1228	1145	40	1	1827	1	AVIL	12	58204205	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1541268	58204205	75647690	628	32873											
SRGAP1	57522	broad.mit.edu	37	chr12	64488720	64488720	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttacccaggactcaggAcaggttattcccctcattgt	8	12	7	14	0	2	0	2	0	0	0	3	2	3	2	4	3	1	1	4	3	2	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:64488720A>T	uc010ssp.1	+	13	1604	c.1548A>T	c.(1546-1548)GGA>GGT	p.G516G	SRGAP1_uc001srv.2_Silent_p.G453G	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	516	Rho-GAP.				axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		AGGACTCAGGACAGGTTATTC	0.368													11	129					0	0	0.001855	0	0		T	64488720	T	T	64488720	2	4	37	1	0	0	0	0	0	0	0	1	15170	262	10	5		5	SRGAP1	12	64488720	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	6284515	64488720	69363175	629	32874											
GLIPR1L2	144321	broad.mit.edu	37	chr12	75784952	75784952	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccagtccctacccctggCagtagggggcgttttgaagc	6	8	14	13	1	0	1	0	1	0	0	1	1	1	1	4	4	2	3	4	4	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:75784952C>A	uc001sxr.1	+	1	64	c.56C>A	c.(55-57)GCA>GAA	p.A19E	CAPS2_uc001sxm.3_5'Flank|CAPS2_uc009zsa.2_5'Flank|GLIPR1L2_uc001sxp.1_Missense_Mutation_p.A19E|GLIPR1L2_uc001sxq.1_5'UTR	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	19						integral to membrane				ovary(1)	1						CTACCCCTGGCAGTAGGGGGC	0.647											OREG0021999	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	43					0.000308642	0.000325039	0.003163	1	0		A	75784952	A	A	75784952	3	1	37	1	0	0	0	0	1	0	0	0	6458	710	25	5	58	5	GLIPR1L2	12	75784952	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	11296232	75784952	58066943	630	32875											
LIN7A	8825	broad.mit.edu	37	chr12	81331469	81331469	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaatgtcgccatgtctgcCgtgggagccgaagtgacgct	7	9	14	11	4	2	1	1	1	1	0	3	3	2	2	3	1	2	1	3	1	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:81331469C>T	uc001szj.1	-	1	226	c.33G>A	c.(31-33)ACG>ACA	p.T11T	LIN7A_uc001szk.1_RNA|MIR618_hsa-mir-618|MI0003632_5'Flank	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	11					exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						CCATGTCTGCCGTGGGAGCCG	0.498													4	19					0	0	0.009096	0	0		T	81331469	T	T	81331469	2	4	37	1	0	0	0	0	0	0	0	1	8827	639	23	1		1	LIN7A	12	81331469	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5546517	81331469	52520426	631	32876											
LRRIQ1	84125	broad.mit.edu	37	chr12	85626524	85626524	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtacttaatggtggaagagTtcagcttgtggtaagaaatg	12	13	13	3	0	1	2	1	0	0	2	1	3	1	3	0	3	2	4	0	3	5	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:85626524T>C	uc001tac.2	+	26	5117	c.5006T>C	c.(5005-5007)GTT>GCT	p.V1669A		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1669										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		GGTGGAAGAGTTCAGCTTGTG	0.313													12	36					0	0	0.003163	0	0		C	85626524	C	C	85626524	3	2	37	1	0	0	0	0	1	0	0	0	9047	1725	60	3	5108	3	LRRIQ1	12	85626524	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	4295055	85626524	48225371	632	32877											
DUSP6	1848	broad.mit.edu	37	chr12	89743155	89743155	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgtcctctcgaagtccAgcagctgacccatgaagttg	9	8	10	14	2	1	2	0	2	1	0	4	3	3	2	4	0	3	3	4	0	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:89743155A>C	uc001tay.2	-	3	1502	c.1022T>G	c.(1021-1023)CTG>CGG	p.L341R	DUSP6_uc001taz.2_Missense_Mutation_p.L195R	NM_001946	NP_001937	Q16828	DUS6_HUMAN	dual specificity phosphatase 6 isoform a	341	Tyrosine-protein phosphatase.				dorsal/ventral pattern formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|nerve growth factor receptor signaling pathway|positive regulation of apoptosis|regulation of endodermal cell fate specification|regulation of fibroblast growth factor receptor signaling pathway|regulation of heart growth|response to nitrosative stress|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0						CTCGAAGTCCAGCAGCTGACC	0.478													6	139					0	0	0.001168	0	0		C	89743155	C	C	89743155	3	2	37	1	0	0	0	0	1	0	0	0	4835	188	7	5	127	5	DUSP6	12	89743155	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	4116631	89743155	44108740	633	32878											
ATP2B1	490	broad.mit.edu	37	chr12	90010761	90010761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtttttacaatatcatcacGgtcccttggtctgaatactt	10	16	6	9	1	3	1	2	1	1	0	4	1	4	1	1	2	2	1	1	2	5	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:90010761G>A	uc001tbh.2	-	11	2066	c.1885C>T	c.(1885-1887)CGT>TGT	p.R629C	ATP2B1_uc001tbg.2_Missense_Mutation_p.R629C|ATP2B1_uc001tbf.2_Missense_Mutation_p.R299C	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	629	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						ATATCATCACGGTCCCTTGGT	0.373													8	98					0	0	0.004482	0	0		A	90010761	A	A	90010761	3	1	37	1	0	0	0	0	1	0	0	0	1140	1116	39	1	1975	1	ATP2B1	12	90010761	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	267606	90010761	43841134	634	32879											
CCDC41	51134	broad.mit.edu	37	chr12	94729387	94729387	+	Frame_Shift_Del	DEL	T	-	-																															gttttaggtcagaattttcaTttttttccttctctgcattt																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:94729387delT	uc001tdd.2	-	12	1983	c.1397delA	c.(1396-1398)AATfs	p.N466fs	CCDC41_uc001tde.2_Frame_Shift_Del_p.N466fs|CCDC41_uc009zsw.1_RNA	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen	458	Potential.										0						AGAATTTTCATTTTTTTCCTT	0.269													10	21	---	---	---	---						.	-	94729387	-	-	94729387	7	5	37	1	0	1	0	1	0	0	0	0	2816	1493	52	0	732	0	CCDC41	12	94729387	Frame_Shift_Del	DEL	T	TCGA-BR-6566-01A-11D-1800-08	4718626	94729387	39122508	635	32880											
VEZT	55591	broad.mit.edu	37	chr12	95656840	95656840	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttccaacactttgctccctGgcaacccctaatatttggta	9	13	5	14	0	0	0	0	0	0	0	2	0	2	0	4	2	3	3	4	2	5	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:95656840G>A	uc001tdz.2	+	4	522	c.417G>A	c.(415-417)CTG>CTA	p.L139L	VEZT_uc009zsy.1_Intron|VEZT_uc001tdr.2_Intron|VEZT_uc001tds.2_Silent_p.L91L|VEZT_uc001tdt.2_Silent_p.L91L|VEZT_uc009zsz.1_Silent_p.L139L|VEZT_uc001tdv.2_Silent_p.L108L|VEZT_uc001tdw.1_Silent_p.L91L|VEZT_uc009zta.1_Silent_p.L91L	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	139	Helical; (Potential).					acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						TTTGCTCCCTGGCAACCCCTA	0.448													73	251					0	0	0.01441	0	0		A	95656840	A	A	95656840	2	1	37	1	0	0	0	0	0	0	0	1	17182	1335	47	4		4	VEZT	12	95656840	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	927453	95656840	38195055	636	32881											
APAF1	317	broad.mit.edu	37	chr12	99061338	99061338	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcagagatatcaccagccGcatactctttcaccagatca	12	11	5	13	1	5	2	4	0	1	2	5	3	5	2	3	0	2	1	3	0	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:99061338G>A	uc001tfz.2	+	10	1987	c.1410G>A	c.(1408-1410)CCG>CCA	p.P470P	APAF1_uc001tfy.2_Silent_p.P459P|APAF1_uc001tga.2_Silent_p.P459P|APAF1_uc001tgb.2_Silent_p.P470P|APAF1_uc001tgc.2_Intron	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	470					activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	ATCACCAGCCGCATACTCTTT	0.413													5	98					0	0	0.001168	0	0		A	99061338	A	A	99061338	2	1	37	1	0	0	0	0	0	0	0	1	755	1074	38	1		1	APAF1	12	99061338	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3404498	99061338	34790557	637	32882											
GNPTAB	79158	broad.mit.edu	37	chr12	102164266	102164266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgacaatgaaaatattcCgaacccatggtgcatgcctc	12	10	9	10	1	0	2	0	2	0	0	2	3	1	2	3	2	3	1	3	2	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:102164266C>T	uc001tit.2	-	9	1210	c.1031G>A	c.(1030-1032)CGG>CAG	p.R344Q	GNPTAB_uc001tiu.1_Missense_Mutation_p.R344Q	NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	344					cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						GAAAATATTCCGAACCCATGG	0.453													8	41					0	0	0.006214	0	0		T	102164266	T	T	102164266	3	4	37	1	0	0	0	0	1	0	0	0	6560	652	23	1	2791	1	GNPTAB	12	102164266	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3102928	102164266	31687629	638	32883											
C12orf42	374470	broad.mit.edu	37	chr12	103699764	103699764	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacttaccagaatttttctTgggactgctcaagggctggc	9	13	10	9	0	2	1	1	0	1	1	2	2	2	2	1	3	3	2	1	3	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:103699764T>C	uc001tjt.2	-	5	707	c.619A>G	c.(619-621)AAG>GAG	p.K207E	C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Missense_Mutation_p.K207E|C12orf42_uc001tju.2_Missense_Mutation_p.K112E	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	207										ovary(1)|central_nervous_system(1)	2						GAATTTTTCTTGGGACTGCTC	0.418													7	271					0	0	0.00308	0	0		C	103699764	C	C	103699764	3	2	37	1	0	0	0	0	1	0	0	0	1691	1821	63	3	471	3	C12orf42	12	103699764	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1535498	103699764	30152131	639	32884											
STAB2	55576	broad.mit.edu	37	chr12	104140466	104140466	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctggattatgaaggtgaCggaatcacatgcacaggtaa	15	8	11	7	1	1	2	1	2	0	0	1	4	1	4	1	4	2	2	1	4	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:104140466C>T	uc001tjw.2	+	58	6414	c.6228C>T	c.(6226-6228)GAC>GAT	p.D2076D	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2076	Extracellular (Potential).|EGF-like 15.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						ATGAAGGTGACGGAATCACAT	0.348													12	257					0	0	0.010729	0	0		T	104140466	T	T	104140466	2	4	37	1	0	0	0	0	0	0	0	1	15263	535	19	1		1	STAB2	12	104140466	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	440702	104140466	29711429	640	32885											
STAB2	55576	broad.mit.edu	37	chr12	104155080	104155080	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcttctcatttccctagacGgagaccaggtttgttgatgg	7	14	10	10	1	2	3	1	1	2	2	4	4	3	3	2	3	0	2	2	3	1	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:104155080G>A	uc001tjw.2	+	66	7437	c.7251G>A	c.(7249-7251)ACG>ACA	p.T2417T	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2417	Extracellular (Potential).|FAS1 7.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity	p.T2417M(1)		ovary(9)|skin(5)	14						TTCCCTAGACGGAGACCAGGT	0.512													31	106					0	0	0.010818	0	0		A	104155080	A	A	104155080	2	1	37	1	0	0	0	0	0	0	0	1	15263	1103	39	1		1	STAB2	12	104155080	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	14614	104155080	29696815	641	32886											
APPL2	55198	broad.mit.edu	37	chr12	105601755	105601755	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagtattcttaccttctcAttctcctttttcttaggcag	8	19	4	10	0	4	0	1	0	4	0	6	0	4	0	2	1	1	2	2	1	5	9			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:105601755A>G	uc001tlf.1	-	7	686	c.468T>C	c.(466-468)AAT>AAC	p.N156N	APPL2_uc010swt.1_Silent_p.N113N|APPL2_uc001tlg.1_5'UTR|APPL2_uc010swu.1_Silent_p.N162N|APPL2_uc009zuq.2_Silent_p.N113N	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH	156	Required for RAB5A binding (By similarity).				cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1						TTACCTTCTCATTCTCCTTTT	0.413													27	56					0	0	0.007291	0	0		G	105601755	G	G	105601755	2	3	37	1	0	0	0	0	0	0	0	1	818	214	8	3		3	APPL2	12	105601755	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1446675	105601755	28250140	642	32887											
ACACB	32	broad.mit.edu	37	chr12	109644517	109644517	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtggtgtctcatcaggcTgaaccgttcacaggagaact	9	11	11	10	1	3	2	3	1	1	1	4	3	3	2	1	3	2	2	1	3	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:109644517T>C	uc001tob.2	+	20	3035	c.2916T>C	c.(2914-2916)GCT>GCC	p.A972A	ACACB_uc001toc.2_Silent_p.A972A	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	972					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CTCATCAGGCTGAACCGTTCA	0.572													12	245					0	0	0.00245	0	0		C	109644517	C	C	109644517	2	2	37	1	0	0	0	0	0	0	0	1	107	1567	55	3		3	ACACB	12	109644517	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	4042762	109644517	24207378	643	32888											
ACACB	32	broad.mit.edu	37	chr12	109677741	109677741	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcgtgcgcaccgactgcaAccacatcttcctcaacttcg	9	8	7	17	4	2	0	1	0	1	0	4	1	3	0	3	0	5	2	3	0	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:109677741A>C	uc001tob.2	+	35	4888	c.4769A>C	c.(4768-4770)AAC>ACC	p.N1590T	ACACB_uc001toc.2_Missense_Mutation_p.N1590T|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.N256T	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1590					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	ACCGACTGCAACCACATCTTC	0.602													6	95					0	0	0.001984	0	0		C	109677741	C	C	109677741	3	2	37	1	0	0	0	0	1	0	0	0	107	43	2	5	4903	5	ACACB	12	109677741	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	33224	109677741	24174154	644	32889											
ATXN2	6311	broad.mit.edu	37	chr12	111923108	111923108	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggcttgattcactggcaTgggcgtcataggtattgggt	6	14	14	7	1	2	1	2	1	0	0	2	1	2	1	0	5	0	3	0	5	2	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:111923108T>C	uc001tsj.2	-	18	3127	c.2965A>G	c.(2965-2967)ATG>GTG	p.M989V	ATXN2_uc001tsh.2_Missense_Mutation_p.M724V|ATXN2_uc001tsi.2_Missense_Mutation_p.M700V|ATXN2_uc001tsk.2_Intron|ATXN2_uc001tsg.2_Missense_Mutation_p.M175V	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	989	Pro-rich.				cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						TTCACTGGCATGGGCGTCATA	0.368													61	137					0	0	0.01441	0	0		C	111923108	C	C	111923108	3	2	37	1	0	0	0	0	1	0	0	0	1212	1464	51	3	1008	3	ATXN2	12	111923108	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2245367	111923108	21928787	645	32890											
OAS1	4938	broad.mit.edu	37	chr12	113348918	113348918	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagctcatcgaggagtgcAccgacctgcagaaagagggc	12	5	13	11	2	2	2	2	0	0	2	3	5	2	3	2	2	3	3	2	2	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:113348918A>G	uc001tud.2	+	3	638	c.532A>G	c.(532-534)ACC>GCC	p.T178A	OAS1_uc010syn.1_Missense_Mutation_p.T177A|OAS1_uc010syo.1_Missense_Mutation_p.H161R|OAS1_uc001tub.2_Missense_Mutation_p.T178A|OAS1_uc001tuc.2_Missense_Mutation_p.T178A|OAS1_uc009zwf.2_Missense_Mutation_p.T177A	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	178					interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						CGAGGAGTGCACCGACCTGCA	0.527													8	91					0	0	0.00308	0	0		G	113348918	G	G	113348918	3	3	37	1	0	0	0	0	1	0	0	0	10818	159	6	3	542	3	OAS1	12	113348918	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1425810	113348918	20502977	646	32891											
RASAL1	8437	broad.mit.edu	37	chr12	113543607	113543607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaagcgcgtggccaggccgGcaggctcctccttgcgcttc	5	7	13	16	4	0	0	0	0	0	0	3	0	2	0	4	4	2	3	4	4	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:113543607G>A	uc001tum.1	-	17	2032	c.1739C>T	c.(1738-1740)GCC>GTC	p.A580V	RASAL1_uc010syp.1_Missense_Mutation_p.A581V|RASAL1_uc001tul.2_Missense_Mutation_p.A580V|RASAL1_uc001tun.1_Missense_Mutation_p.A582V|RASAL1_uc010syq.1_Missense_Mutation_p.A581V|RASAL1_uc001tuo.3_Missense_Mutation_p.A581V	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	580	PH.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						GGCCAGGCCGGCAGGCTCCTC	0.627													9	94					0	0	0.006214	0	0		A	113543607	A	A	113543607	3	1	37	1	0	0	0	0	1	0	0	0	13088	1203	42	2	699	2	RASAL1	12	113543607	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	194689	113543607	20308288	647	32892											
KSR2	283455	broad.mit.edu	37	chr12	118105367	118105367	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggagcggagggagcgctcGgacagcagcggggagcgctg	9	2	21	9	5	0	0	0	0	0	0	1	5	0	5	0	6	5	3	0	6	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:118105367G>A	uc001two.2	-	5	1051	c.996C>T	c.(994-996)TCC>TCT	p.S332S		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	361					intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GGGAGCGCTCGGACAGCAGCG	0.582													8	25					0	0	0.00308	0	0		A	118105367	A	A	118105367	2	1	37	1	0	0	0	0	0	0	0	1	8598	1103	39	1		1	KSR2	12	118105367	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4561760	118105367	15746528	648	32893											
CIT	11113	broad.mit.edu	37	chr12	120142226	120142226	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggagaatgacgactttgctgGgcatggctgcacagatgcag	10	8	15	8	1	0	3	0	1	0	2	0	5	0	3	0	3	3	5	0	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:120142226G>T	uc001txi.1	-	40	5173	c.5120C>A	c.(5119-5121)CCC>CAC	p.P1707H	CIT_uc001txh.1_Missense_Mutation_p.P1226H|CIT_uc001txj.1_Missense_Mutation_p.P1749H	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1707	CNH.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		GACTTTGCTGGGCATGGCTGC	0.502													5	95					5.9392e-07	6.46526e-07	0.001168	1	0		T	120142226	T	T	120142226	3	4	37	1	0	0	0	0	1	0	0	0	3441	1232	43	5	995	5	CIT	12	120142226	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2036859	120142226	13709669	649	32894											
KNTC1	9735	broad.mit.edu	37	chr12	123082320	123082320	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttcttcagctcttcatTgaaacgctgctccacaacac	10	11	6	14	1	4	1	2	1	2	0	5	1	5	1	1	0	4	5	1	0	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:123082320T>C	uc001ucv.2	+	44	4561	c.4398T>C	c.(4396-4398)ATT>ATC	p.I1466I	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	1466					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		AGCTCTTCATTGAAACGCTGC	0.512													12	80					0	0	0.013537	0	0		C	123082320	C	C	123082320	2	2	37	1	0	0	0	0	0	0	0	1	8444	1800	63	3		3	KNTC1	12	123082320	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2940094	123082320	10769575	650	32895											
HIP1R	9026	broad.mit.edu	37	chr12	123339495	123339495	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacagggaccggttccaCgagcagtttcacaggtactg	9	7	13	12	2	1	0	1	0	0	0	2	2	2	1	3	4	2	4	3	4	1	3	rs137994880		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:123339495C>T	uc001udj.1	+	9	821	c.762C>T	c.(760-762)CAC>CAT	p.H254H	HIP1R_uc001udg.1_Silent_p.H242H|HIP1R_uc001udi.1_Silent_p.H254H|HIP1R_uc001udk.1_5'Flank	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	254					receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		ACCGGTTCCACGAGCAGTTTC	0.622													36	114					0	0	0.003755	0	0		T	123339495	T	T	123339495	2	4	37	1	0	0	0	0	0	0	0	1	7131	535	19	1		1	HIP1R	12	123339495	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	257175	123339495	10512400	651	32896											
MPHOSPH9	10198	broad.mit.edu	37	chr12	123648515	123648515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttggagtacttgatttacGatttgaaggtggtaaagatg	12	14	12	3	1	0	3	0	2	0	1	0	5	0	4	0	3	2	2	0	3	5	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:123648515G>A	uc001uel.2	-	15	2541	c.2434C>T	c.(2434-2436)CGT>TGT	p.R812C	MPHOSPH9_uc010tal.1_Missense_Mutation_p.R266C|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Missense_Mutation_p.R266C	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	812					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		CTTGATTTACGATTTGAAGGT	0.398													5	155					0	0	0.000602	0	0		A	123648515	A	A	123648515	3	1	37	1	0	0	0	0	1	0	0	0	9746	1058	37	1	685	1	MPHOSPH9	12	123648515	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	309020	123648515	10203380	652	32897											
DNAH10	196385	broad.mit.edu	37	chr12	124297909	124297909	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacaaaaatggaagcggtatCgacctctctggaaattggac	14	9	10	8	2	1	0	0	0	1	0	3	4	1	3	1	4	2	1	1	4	6	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:124297909C>T	uc001uft.3	+	19	3014	c.2989C>T	c.(2989-2991)CGA>TGA	p.R997*	DNAH10_uc010tav.1_Nonsense_Mutation_p.R539*|DNAH10_uc010taw.1_Nonsense_Mutation_p.R482*	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	997	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GAAGCGGTATCGACCTCTCTG	0.393													44	71					0	0	0.009718	0	0		T	124297909	T	T	124297909	4	4	37	1	0	0	0	0	0	1	0	0	4604	876	31	1	3063	1	DNAH10	12	124297909	Nonsense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	649394	124297909	9553986	653	32898											
NCOR2	9612	broad.mit.edu	37	chr12	124862855	124862855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctcctcatcctccaccaCgggcgggaatgcagcctcct	7	8	8	18	2	2	0	1	0	1	0	6	1	5	1	6	2	2	1	6	2	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:124862855C>T	uc010tba.1	-	18	2212	c.2095G>A	c.(2095-2097)GTG>ATG	p.V699M	NCOR2_uc010tay.1_Missense_Mutation_p.V699M|NCOR2_uc010taz.1_Missense_Mutation_p.V699M|NCOR2_uc010tbb.1_Missense_Mutation_p.V699M|NCOR2_uc010tbc.1_Missense_Mutation_p.V698M|NCOR2_uc001ugj.1_Missense_Mutation_p.V699M	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	699					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		TCCTCCACCACGGGCGGGAAT	0.662													29	58					0	0	0.005443	0	0		T	124862855	T	T	124862855	3	4	37	1	0	0	0	0	1	0	0	0	10255	536	19	1	5593	1	NCOR2	12	124862855	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	564946	124862855	8989040	654	32899											
TMEM132D	121256	broad.mit.edu	37	chr12	130184785	130184785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagccggcagctgccccGcacctctcgggtctctcgga	4	7	12	18	4	2	0	0	0	2	0	5	1	2	1	4	3	4	4	4	3	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:130184785G>A	uc009zyl.1	-	2	866	c.538C>T	c.(538-540)CGG>TGG	p.R180W		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	180	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		CAGCTGCCCCGCACCTCTCGG	0.687													7	40					0	0	0.004482	0	0		A	130184785	A	A	130184785	3	1	37	1	0	0	0	0	1	0	0	0	16072	1086	38	1	2793	1	TMEM132D	12	130184785	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5321930	130184785	3667110	655	32900											
N6AMT2	221143	broad.mit.edu	37	chr13	21303256	21303256	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccagaatcataattcacaTaacagcgaaactcatttgcc	15	9	5	12	1	3	1	3	0	0	1	3	2	3	1	2	0	4	0	2	0	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:21303256T>C	uc001uno.1	-	5	689	c.608A>G	c.(607-609)TAT>TGT	p.Y203C	uc001unn.1_5'Flank|N6AMT2_uc009zzr.1_Missense_Mutation_p.Y203C|N6AMT2_uc001unp.2_RNA	NM_174928	NP_777588	Q8WVE0	N6MT2_HUMAN	N-6 adenine-specific DNA methyltransferase 2	203							methyltransferase activity|nucleic acid binding				0		all_cancers(29;5.91e-19)|all_epithelial(30;1.42e-15)|all_lung(29;5.9e-14)|Lung SC(185;0.0367)		all cancers(112;0.000234)|Epithelial(112;0.000471)|OV - Ovarian serous cystadenocarcinoma(117;0.0111)|Lung(94;0.0161)|LUSC - Lung squamous cell carcinoma(192;0.0431)		ATAATTCACATAACAGCGAAA	0.463													5	291					0	0	0.001168	0	0		C	21303256	C	C	21303256	3	2	37	1	0	0	0	0	1	0	0	0	10133	1406	49	3	40	3	N6AMT2	13	21303256	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08		21303256	93866622	656	32901											
C1QTNF9B	387911	broad.mit.edu	37	chr13	24465970	24465970	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctttccaatagggcccaTggggcccggtaaaccagttg	9	8	13	11	1	0	0	0	0	0	0	1	0	1	0	4	5	1	3	4	5	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:24465970T>C	uc010tcw.1	-	3	460	c.460A>G	c.(460-462)ATG>GTG	p.M154V	MIPEP_uc001uox.3_5'Flank|PCOTH_uc001uoy.2_Missense_Mutation_p.M75T|PCOTH_uc009zzx.2_Missense_Mutation_p.M84T|C1QTNF9B_uc010tcv.1_Intron|C1QTNF9B_uc001uoz.1_Intron|C1QTNF9B_uc010tcx.1_Missense_Mutation_p.M154V	NM_001007537	NP_001007538	B2RNN3	C1T9B_HUMAN	C1q and tumor necrosis factor related protein 9B	154	Collagen-like 2.					collagen					0						ATAGGGCCCATGGGGCCCGGT	0.632													12	52					0	0	0.013537	0	0		C	24465970	C	C	24465970	3	2	37	1	0	0	0	0	1	0	0	0	1974	1464	51	3	544	3	C1QTNF9B	13	24465970	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	3162714	24465970	90703908	657	32902											
MTMR6	9107	broad.mit.edu	37	chr13	25825905	25825905	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaattgatggtacatgttcCtccaaaacctttatgacaaa	15	12	5	9	0	0	2	0	2	0	0	2	2	2	2	3	1	2	2	3	1	6	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:25825905C>A	uc001uqf.3	-	13	1806	c.1487G>T	c.(1486-1488)AGG>ATG	p.R496M	MTMR6_uc001uqe.1_Missense_Mutation_p.R496M	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	496	Myotubularin phosphatase.					cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		GTACATGTTCCTCCAAAACCT	0.274													13	60					0.00185496	0.00193035	0.001855	1	0		A	25825905	A	A	25825905	3	1	37	1	0	0	0	0	1	0	0	0	9965	681	24	5	386	5	MTMR6	13	25825905	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1359935	25825905	89343973	658	32903											
ATP8A2	51761	broad.mit.edu	37	chr13	26043196	26043196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggagaccagctggaggCacccgcccgcaccatttacc	8	7	11	15	2	0	1	0	0	0	1	0	3	0	2	5	3	2	4	5	3	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:26043196C>T	uc001uqk.2	+	2	300	c.158C>T	c.(157-159)GCA>GTA	p.A53V	ATP8A2_uc010tdi.1_Missense_Mutation_p.A13V|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc001uql.1_Missense_Mutation_p.A13V	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	13	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		CAGCTGGAGGCACCCGCCCGC	0.602													9	57					0	0	0.004482	0	0		T	26043196	T	T	26043196	3	4	37	1	0	0	0	0	1	0	0	0	1194	710	25	2	164	2	ATP8A2	13	26043196	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	217291	26043196	89126682	659	32904											
FRY	10129	broad.mit.edu	37	chr13	32761728	32761728	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccctgtctttgacaatgtgGgcctttccccagatggctac	6	12	10	13	0	1	2	0	1	1	1	2	2	2	2	4	2	1	1	4	2	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:32761728G>T	uc001utx.2	+	28	4022	c.3526G>T	c.(3526-3528)GGC>TGC	p.G1176C	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1176					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		TGACAATGTGGGCCTTTCCCC	0.393													49	71					6.77423e-14	7.73029e-14	0.01441	1	0		T	32761728	T	T	32761728	3	4	37	1	0	0	0	0	1	0	0	0	6077	1232	43	5	3636	5	FRY	13	32761728	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6718532	32761728	82408150	660	32905											
KIAA0564	23078	broad.mit.edu	37	chr13	42179380	42179380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaacctttcataggttgcaGcatcgtattcactcatttgg	11	14	7	9	1	3	0	3	0	0	0	4	0	3	0	1	2	3	4	1	2	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:42179380G>A	uc001uyj.2	-	40	4980	c.4910C>T	c.(4909-4911)GCT>GTT	p.A1637V		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1637						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		ATAGGTTGCAGCATCGTATTC	0.408													23	117					0	0	0.003954	0	0		A	42179380	A	A	42179380	3	1	37	1	0	0	0	0	1	0	0	0	8201	971	34	2	831	2	KIAA0564	13	42179380	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	9417652	42179380	72990498	661	32906											
TSC22D1	8848	broad.mit.edu	37	chr13	45147869	45147869	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgttgaggaaggcttggaGcactagtttgaactccctga	10	12	12	7	0	0	3	0	3	0	0	1	5	1	5	1	3	2	4	1	3	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:45147869G>T	uc001uzn.3	-	1	2833	c.2342C>A	c.(2341-2343)GCT>GAT	p.A781D	TSC22D1_uc001uzo.1_Intron	NM_183422	NP_904358	Q15714	T22D1_HUMAN	TSC22 domain family, member 1 isoform 1	781	Gln-rich.				transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(4;8.74e-08)|Acute lymphoblastic leukemia(4;1.78e-07)|Lung NSC(96;2.21e-05)|Breast(139;0.000625)|Prostate(109;0.000947)|Hepatocellular(98;0.0202)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000522)|BRCA - Breast invasive adenocarcinoma(63;0.118)		AAGGCTTGGAGCACTAGTTTG	0.478													11	156					5.50884e-06	5.91815e-06	0.013537	1	0		T	45147869	T	T	45147869	3	4	37	1	0	0	0	0	1	0	0	0	16633	971	34	5	1020	5	TSC22D1	13	45147869	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2968489	45147869	70022009	662	32907											
ZC3H13	23091	broad.mit.edu	37	chr13	46539429	46539429	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttacctggcatcttctccTcatcctgttggtcctccctc	4	15	6	16	0	3	0	1	0	2	0	8	0	6	0	5	2	1	3	5	2	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:46539429T>G	uc010tfw.1	-	15	4463	c.4457A>C	c.(4456-4458)GAG>GCG	p.E1486A	ZC3H13_uc001vaq.2_Missense_Mutation_p.E71A|ZC3H13_uc001vas.1_Missense_Mutation_p.E1487A	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	1486							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		CATCTTCTCCTCATCCTGTTG	0.393													9	272					0	0	0.010729	0	0		G	46539429	G	G	46539429	3	3	37	1	0	0	0	0	1	0	0	0	17590	1551	54	5	242	5	ZC3H13	13	46539429	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1391560	46539429	68630449	663	32908											
CDADC1	81602	broad.mit.edu	37	chr13	49865876	49865876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaccaggacaagaagctgCgcctcggaatccactaagaa	15	4	10	12	2	0	2	0	0	0	2	2	4	1	4	3	2	3	2	3	2	5	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:49865876C>T	uc001vcu.2	+	10	1604	c.1528C>T	c.(1528-1530)CGC>TGC	p.R510C	CDADC1_uc010tgk.1_Missense_Mutation_p.R312C|CDADC1_uc001vcv.2_RNA	NM_030911	NP_112173	Q9BWV3	CDAC1_HUMAN	cytidine and dCMP deaminase domain containing 1	510							hydrolase activity|zinc ion binding	p.R510H(1)		upper_aerodigestive_tract(1)	1		Lung NSC(96;0.000705)|Breast(56;0.0011)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;1.06e-08)|COAD - Colon adenocarcinoma(199;0.216)		CAAGAAGCTGCGCCTCGGAAT	0.458													24	120					0	0	0.004656	0	0		T	49865876	T	T	49865876	3	4	37	1	0	0	0	0	1	0	0	0	3056	768	27	1	1566	1	CDADC1	13	49865876	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3326447	49865876	65304002	664	32909											
PCDH8	5100	broad.mit.edu	37	chr13	53420276	53420276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcgatggcgatgatggCggccagcagcagcgtgcagc	7	5	19	10	4	0	1	0	1	0	0	0	3	0	1	1	5	5	3	1	5	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:53420276C>T	uc001vhi.2	-	1	2499	c.2296G>A	c.(2296-2298)GCC>ACC	p.A766T	PCDH8_uc001vhj.2_Missense_Mutation_p.A766T	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	766	Helical; (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GCGATGATGGCGGCCAGCAGC	0.607													25	99					0	0	0.00632	0	0		T	53420276	T	T	53420276	3	4	37	1	0	0	0	0	1	0	0	0	11536	768	27	1	928	1	PCDH8	13	53420276	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3554400	53420276	61749602	665	32910											
TBC1D4	9882	broad.mit.edu	37	chr13	75898529	75898529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtacatgcgtcgaactgacGaaagattgctgagtacagaa	14	9	11	7	3	0	4	0	2	0	2	1	6	0	4	0	0	5	3	0	0	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:75898529G>A	uc001vjl.1	-	11	2389	c.2042C>T	c.(2041-2043)TCG>TTG	p.S681L	TBC1D4_uc010aer.2_Missense_Mutation_p.S681L|TBC1D4_uc010aes.2_Intron	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	681	Ser-rich.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		TCGAACTGACGAAAGATTGCT	0.393													12	32					0	0	0.010729	0	0		A	75898529	A	A	75898529	3	1	37	1	0	0	0	0	1	0	0	0	15647	1059	37	1	1898	1	TBC1D4	13	75898529	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	22478253	75898529	39271349	666	32911											
LMO7	4008	broad.mit.edu	37	chr13	76382165	76382165	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atattagttccttcatatcgGcagaagaaagatgacatgct	14	12	8	7	1	1	4	1	1	0	3	3	4	2	4	1	1	1	3	1	1	5	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:76382165G>A	uc001vjv.2	+	7	1807	c.1047G>A	c.(1045-1047)CGG>CGA	p.R349R	LMO7_uc010thv.1_Intron|LMO7_uc001vjt.1_Intron|LMO7_uc010thw.1_Intron|LMO7_uc001vjw.1_Silent_p.R255R	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	634						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		CTTCATATCGGCAGAAGAAAG	0.448													16	61					0	0	0.003163	0	0		A	76382165	A	A	76382165	2	1	37	1	0	0	0	0	0	0	0	1	8872	1190	42	2		2	LMO7	13	76382165	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	483636	76382165	38787713	667	32912											
MYCBP2	23077	broad.mit.edu	37	chr13	77732134	77732134	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatcatccagaaaagactgTtcattgctttggatttggag	13	13	9	6	0	2	2	2	0	0	2	3	4	3	4	1	2	1	2	1	2	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:77732134T>C	uc001vkf.2	-	46	6685	c.6594A>G	c.(6592-6594)GAA>GAG	p.E2198E	MYCBP2_uc010aev.2_Silent_p.E1602E	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2198					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GAAAAGACTGTTCATTGCTTT	0.393													12	67					0	0	0.001855	0	0		C	77732134	C	C	77732134	2	2	37	1	0	0	0	0	0	0	0	1	10036	1722	60	3		3	MYCBP2	13	77732134	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1349969	77732134	37437744	668	32913											
EDNRB	1910	broad.mit.edu	37	chr13	78492668	78492668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccgcaggcaagaaccagcGcaaccagggcgcgtccgcac	10	1	14	16	5	0	1	0	0	0	1	1	1	1	1	4	3	3	4	4	3	3	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:78492668G>A	uc001vko.2	-	1	299	c.41C>T	c.(40-42)GCG>GTG	p.A14V	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.A14V|EDNRB_uc010aez.1_Missense_Mutation_p.A14V|EDNRB_uc001vkp.1_Missense_Mutation_p.A97V|EDNRB_uc010afa.1_Missense_Mutation_p.A14V	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	14					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	AAGAACCAGCGCAACCAGGGC	0.637											OREG0022452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	47					0	0	0.006122	0	0		A	78492668	A	A	78492668	3	1	37	1	0	0	0	0	1	0	0	0	4926	1087	38	1	1436	1	EDNRB	13	78492668	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	760534	78492668	36677210	669	32914											
SLITRK5	26050	broad.mit.edu	37	chr13	88329399	88329399	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagctcaaagtgggcgtcCtagtggacgaggtgatctgt	9	9	15	8	2	2	1	1	1	1	0	3	3	3	2	1	3	2	2	1	3	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:88329399C>A	uc001vln.2	+	2	1975	c.1756C>A	c.(1756-1758)CTA>ATA	p.L586I	SLITRK5_uc010tic.1_Missense_Mutation_p.L345I	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	586	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					AGTGGGCGTCCTAGTGGACGA	0.517													47	195					1.30409e-13	1.48676e-13	0.01441	1	0		A	88329399	A	A	88329399	3	1	37	1	0	0	0	0	1	0	0	0	14771	680	24	5	1758	5	SLITRK5	13	88329399	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	9836731	88329399	26840479	670	32915											
STK24	8428	broad.mit.edu	37	chr13	99118674	99118674	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctccacaaactccttgaGgggtttactgtagtttcctt	7	14	9	11	0	0	1	0	1	0	0	3	1	3	1	4	3	2	3	4	3	3	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:99118674G>T	uc001vnm.1	-	6	1010	c.775C>A	c.(775-777)CTC>ATC	p.L259I	STK24_uc001vnn.1_Missense_Mutation_p.L247I|STK24_uc010tim.1_Missense_Mutation_p.L228I	NM_003576	NP_003567	Q9Y6E0	STK24_HUMAN	serine/threonine kinase 24 isoform a	259	Protein kinase.				cellular component disassembly involved in apoptosis|signal transduction	cytosol|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			AACTCCTTGAGGGGTTTACTG	0.493													10	64					1.58986e-06	1.72457e-06	0.008291	1	0		T	99118674	T	T	99118674	3	4	37	1	0	0	0	0	1	0	0	0	15318	1000	35	5	580	5	STK24	13	99118674	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	10789275	99118674	16051204	671	32916											
OR11H4	390442	broad.mit.edu	37	chr14	20711372	20711372	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatctgccacccactgcAgtaccctgccatcatgactg	8	8	8	17	0	2	1	1	1	1	0	2	1	2	1	5	1	4	2	5	1	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:20711372A>G	uc010tld.1	+	1	422	c.422A>G	c.(421-423)CAG>CGG	p.Q141R		NM_001004479	NP_001004479	Q8NGC9	O11H4_HUMAN	olfactory receptor, family 11, subfamily H,	141	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.000888)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0146)		CACCCACTGCAGTACCCTGCC	0.453													23	122					0	0	0.014323	0	0		G	20711372	G	G	20711372	3	3	37	1	0	0	0	0	1	0	0	0	10947	188	7	3	424	3	OR11H4	14	20711372	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08		20711372	86638168	672	32917											
METT11D1	64745	broad.mit.edu	37	chr14	21460309	21460309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcagacagaggagaaacttCgtggagcagtgctacacgca	13	6	12	10	2	1	3	1	0	0	3	2	5	1	4	0	2	4	3	0	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:21460309C>T	uc001vyn.2	+	4	588	c.391C>T	c.(391-393)CGT>TGT	p.R131C	METT11D1_uc010tlk.1_Silent_p.F141F|METT11D1_uc001vym.2_Missense_Mutation_p.R131C|METT11D1_uc001vyo.2_Missense_Mutation_p.R131C|METT11D1_uc001vyp.2_5'UTR|METT11D1_uc001vyq.2_5'UTR	NM_022734	NP_073571	Q9H7H0	MET17_HUMAN	methyltransferase 11 domain containing 1 isoform	131					translation	mitochondrion|ribosome	copper ion binding|methyltransferase activity				0	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0191)		GGAGAAACTTCGTGGAGCAGT	0.483													46	153					0	0	0.01441	0	0		T	21460309	T	T	21460309	3	4	37	1	0	0	0	0	1	0	0	0	9509	884	31	1	405	1	METT11D1	14	21460309	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	748937	21460309	85889231	673	32918											
PCK2	5106	broad.mit.edu	37	chr14	24568857	24568857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaccaacctggctatgatgCggcctgcactgccaggctgg	8	7	13	13	1	0	2	0	1	0	1	0	2	0	2	4	4	4	3	4	4	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:24568857C>T	uc001wlt.2	+	6	1075	c.943C>T	c.(943-945)CGG>TGG	p.R315W	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Missense_Mutation_p.R327W|PCK2_uc001wls.2_Missense_Mutation_p.R315W|PCK2_uc010tnw.1_Missense_Mutation_p.R181W|PCK2_uc010ald.2_Missense_Mutation_p.R167W|PCK2_uc010ale.2_3'UTR|PCK2_uc010tnx.1_Missense_Mutation_p.R181W|PCK2_uc001wlu.3_Missense_Mutation_p.R181W	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	315					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		GGCTATGATGCGGCCTGCACT	0.562													6	121					0	0	0.001168	0	0		T	24568857	T	T	24568857	3	4	37	1	0	0	0	0	1	0	0	0	11601	759	27	1	965	1	PCK2	14	24568857	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3108548	24568857	82780683	674	32919											
TM9SF1	10548	broad.mit.edu	37	chr14	24663934	24663934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcttctccacgttttcccGaaagcggatctcatacaaag	10	12	6	13	3	3	0	1	0	3	0	7	2	4	1	2	1	2	1	2	1	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:24663934G>A	uc001wnb.1	-	2	640	c.292C>T	c.(292-294)CGG>TGG	p.R98W	TM9SF1_uc010toa.1_Missense_Mutation_p.R11W|TM9SF1_uc001wna.1_RNA|TM9SF1_uc010tob.1_Missense_Mutation_p.R333W|TM9SF1_uc001wnc.2_Missense_Mutation_p.R98W|TM9SF1_uc001wnd.2_5'Flank	NM_006405	NP_006396	O15321	TM9S1_HUMAN	transmembrane 9 superfamily member 1 isoform a	98					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0183)		ACGTTTTCCCGAAAGCGGATC	0.532													25	385					0	0	0.005443	0	0		A	24663934	A	A	24663934	3	1	37	1	0	0	0	0	1	0	0	0	16002	1057	37	1	1591	1	TM9SF1	14	24663934	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	95077	24663934	82685606	675	32920											
GZMH	2999	broad.mit.edu	37	chr14	25078817	25078817	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaggaggaggaatggctgCattttctcaggaaggctgcc	11	8	14	8	0	1	0	1	0	1	0	2	4	1	4	1	6	3	3	1	6	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:25078817C>A	uc001wpr.1	-	1	48	c.3G>T	c.(1-3)ATG>ATT	p.M1I	GZMH_uc010aly.1_Missense_Mutation_p.M1I|GZMH_uc010alz.1_Missense_Mutation_p.M1I	NM_033423	NP_219491	P20718	GRAH_HUMAN	granzyme H precursor	1					apoptosis|cytolysis|proteolysis	cytoplasm	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(265;0.0267)		GGAATGGCTGCATTTTCTCAG	0.512													28	85					2.14196e-07	2.34832e-07	0.007291	1	0		A	25078817	A	A	25078817	3	1	37	1	0	0	0	0	1	0	0	0	6933	710	25	5	757	5	GZMH	14	25078817	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	414883	25078817	82270723	676	32921											
NPAS3	64067	broad.mit.edu	37	chr14	34029327	34029327	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttattctttttcctgcagTccctggatggctttgtattt	5	21	7	8	0	1	0	0	0	1	0	3	1	3	1	2	2	1	3	2	2	2	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:34029327T>C	uc001wru.2	+	5	533	c.469T>C	c.(469-471)TCC>CCC	p.S157P	NPAS3_uc001wrs.2_Missense_Mutation_p.S144P|NPAS3_uc001wrt.2_Missense_Mutation_p.S125P|NPAS3_uc001wrv.2_Missense_Mutation_p.S127P|NPAS3_uc001wrw.2_Missense_Mutation_p.S55P	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	157	PAS 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		TTTCCTGCAGTCCCTGGATGG	0.313													5	31					0	0	0.001168	0	0		C	34029327	C	C	34029327	3	2	37	1	0	0	0	0	1	0	0	0	10583	1681	58	3	542	3	NPAS3	14	34029327	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	8950510	34029327	73320213	677	32922											
PSMC6	5706	broad.mit.edu	37	chr14	53194224	53194224	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttattctctacaggtatgttCgcaattcgtgctgatcatga	9	16	8	8	2	2	2	1	2	1	0	5	2	2	2	0	1	2	4	0	1	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:53194224C>T	uc010tqx.1	+	14	1101	c.1101C>T	c.(1099-1101)TTC>TTT	p.F367F	STYX_uc010tqy.1_5'Flank|STYX_uc001xaa.2_5'Flank|PSMC6_uc001wzy.2_RNA	NM_002806	NP_002797	P62333	PRS10_HUMAN	proteasome 26S ATPase subunit 6	353					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding, bridging			lung(1)	1	Breast(41;0.176)					CAGGTATGTTCGCAATTCGTG	0.323													8	28					0	0	0.008291	0	0		T	53194224	T	T	53194224	2	4	37	1	0	0	0	0	0	0	0	1	12713	883	31	1		1	PSMC6	14	53194224	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	19164897	53194224	54155316	678	32923											
WDHD1	11169	broad.mit.edu	37	chr14	55477052	55477052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcagcaattttagtacCatccccattaaagaccacat	14	10	4	13	0	0	1	0	0	0	1	2	1	2	1	5	0	3	3	5	0	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:55477052C>T	uc001xbm.1	-	4	394	c.316G>A	c.(316-318)GGT>AGT	p.G106S	WDHD1_uc001xbn.1_5'UTR	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	106	WD 3.					cytoplasm|nucleoplasm	DNA binding			skin(1)	1						ATTTTAGTACCATCCCCATTA	0.373													35	85					0	0	0.006999	0	0		T	55477052	T	T	55477052	3	4	37	1	0	0	0	0	1	0	0	0	17297	594	21	4	3165	4	WDHD1	14	55477052	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2282828	55477052	51872488	679	32924											
ARG2	384	broad.mit.edu	37	chr14	68086712	68086712	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcatgtccctaaggggcagCctctcgcgtctcctccagac	7	9	9	16	2	3	1	1	0	2	1	7	1	5	1	4	2	1	1	4	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:68086712C>T	uc001xjs.2	+	1	134	c.18C>T	c.(16-18)AGC>AGT	p.S6S		NM_001172	NP_001163	P78540	ARGI2_HUMAN	arginase 2 precursor	6					arginine metabolic process|nitric oxide biosynthetic process|urea cycle	mitochondrial matrix	arginase activity|metal ion binding				0				all cancers(60;0.000582)|OV - Ovarian serous cystadenocarcinoma(108;0.00392)|BRCA - Breast invasive adenocarcinoma(234;0.00928)	L-Arginine(DB00125)|L-Ornithine(DB00129)	TAAGGGGCAGCCTCTCGCGTC	0.627													4	17					0	0	0.009096	0	0		T	68086712	T	T	68086712	2	4	37	1	0	0	0	0	0	0	0	1	858	738	26	2		2	ARG2	14	68086712	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	12609660	68086712	39262828	680	32925											
RDH11	51109	broad.mit.edu	37	chr14	68159192	68159192	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaaagctcgaatagacttAgtatcagacaggtccagttt	14	10	9	8	1	1	2	1	0	0	2	3	3	2	2	1	1	1	4	1	1	6	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:68159192A>G	uc001xjv.3	-	3	402	c.312T>C	c.(310-312)ACT>ACC	p.T104T	RDH11_uc001xjw.3_Silent_p.T91T|RDH11_uc001xjx.3_Silent_p.T104T	NM_016026	NP_057110	Q8TC12	RDH11_HUMAN	retinol dehydrogenase 11	104	Cytoplasmic (Potential).				retinol metabolic process|steroid metabolic process	endoplasmic reticulum membrane|integral to membrane	binding|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(1)	1				all cancers(60;0.00047)|OV - Ovarian serous cystadenocarcinoma(108;0.00206)|BRCA - Breast invasive adenocarcinoma(234;0.00924)	Vitamin A(DB00162)	GAATAGACTTAGTATCAGACA	0.448													31	181					0	0	0.010818	0	0		G	68159192	G	G	68159192	2	3	37	1	0	0	0	0	0	0	0	1	13215	407	15	3		3	RDH11	14	68159192	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	72480	68159192	39190348	681	32926											
ADAM20	8748	broad.mit.edu	37	chr14	70990275	70990275	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctaaatatattccctggAtatggaggcggttgaataca	13	12	10	6	1	1	1	0	1	1	0	2	3	2	3	1	4	1	1	1	4	7	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:70990275A>G	uc001xme.2	-	2	1595	c.1350T>C	c.(1348-1350)TAT>TAC	p.Y450Y		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	400	Peptidase M12B.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		TATTCCCTGGATATGGAGGCG	0.423													35	103					0	0	0.003271	0	0		G	70990275	G	G	70990275	2	3	37	1	0	0	0	0	0	0	0	1	242	340	12	3		3	ADAM20	14	70990275	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2831083	70990275	36359265	682	32927											
SIPA1L1	26037	broad.mit.edu	37	chr14	72171482	72171482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttcaattcttttgtcctcGagcagcatgaatatacaggt	11	15	7	8	1	2	1	1	1	1	0	4	2	3	1	1	1	3	2	1	1	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:72171482G>A	uc001xms.2	+	13	4039	c.3691G>A	c.(3691-3693)GAG>AAG	p.E1231K	SIPA1L1_uc001xmt.2_Intron|SIPA1L1_uc001xmu.2_Intron|SIPA1L1_uc001xmv.2_Missense_Mutation_p.E1231K|SIPA1L1_uc010ttm.1_Intron|SIPA1L1_uc001xmw.2_Intron	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1231					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TTTTGTCCTCGAGCAGCATGA	0.388													7	21					0	0	0.00308	0	0		A	72171482	A	A	72171482	3	1	37	1	0	0	0	0	1	0	0	0	14354	1059	37	1	3737	1	SIPA1L1	14	72171482	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1181207	72171482	35178058	683	32928											
FOXN3	1112	broad.mit.edu	37	chr14	89747303	89747303	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagggacctaccttggagaaGggctccatttctcttgaaga	10	11	11	9	0	1	3	0	1	1	2	3	5	2	4	3	3	1	1	3	3	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:89747303G>T	uc001xxo.3	-	4	873	c.736C>A	c.(736-738)CTT>ATT	p.L246I	FOXN3_uc001xxn.3_Missense_Mutation_p.L246I|FOXN3_uc010atk.2_Missense_Mutation_p.L246I	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1	246					DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(2)|ovary(1)	3						CCTTGGAGAAGGGCTCCATTT	0.517													9	23					1.76689e-08	1.95456e-08	0.006214	1	0		T	89747303	T	T	89747303	3	4	37	1	0	0	0	0	1	0	0	0	6035	1000	35	5	752	5	FOXN3	14	89747303	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	17575821	89747303	17602237	684	32929											
C14orf102	55051	broad.mit.edu	37	chr14	90755357	90755357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaagcaaccactccagatGtgcatactgcttccacaggc	11	7	8	15	0	0	1	0	0	0	1	2	1	2	1	4	1	5	3	4	1	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:90755357G>A	uc001xyi.1	-	11	2393	c.2362C>T	c.(2362-2364)CAT>TAT	p.H788Y	C14orf102_uc010atp.1_Missense_Mutation_p.H293Y|C14orf102_uc001xyj.1_Missense_Mutation_p.H557Y|C14orf102_uc001xyk.1_5'UTR	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	788	HAT 3.						protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		CACTCCAGATGTGCATACTGC	0.463													76	236					0	0	0.01441	0	0		A	90755357	A	A	90755357	3	1	37	1	0	0	0	0	1	0	0	0	1738	1377	48	4	1148	4	C14orf102	14	90755357	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1008054	90755357	16594183	685	32930											
C14orf102	55051	broad.mit.edu	37	chr14	90767681	90767681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccttctcagagtggccagCctgccgcagaaagtggcact	8	7	13	13	1	1	2	1	0	1	2	2	2	1	2	4	3	2	2	4	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:90767681C>T	uc001xyi.1	-	7	1478	c.1447G>A	c.(1447-1449)GCT>ACT	p.A483T	C14orf102_uc010atp.1_5'UTR|C14orf102_uc001xyj.1_Missense_Mutation_p.A252T	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	483							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		GAGTGGCCAGCCTGCCGCAGA	0.522													4	49					0	0	0.000602	0	0		T	90767681	T	T	90767681	3	4	37	1	0	0	0	0	1	0	0	0	1738	739	26	2	2079	2	C14orf102	14	90767681	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	12324	90767681	16581859	686	32931											
CLMN	79789	broad.mit.edu	37	chr14	95786119	95786119	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggaaccagtcccactcgTgtgcagccatgaagcgcggg	8	7	14	12	3	0	1	0	1	0	0	2	2	1	2	3	2	4	2	3	2	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:95786119T>C	uc001yef.2	-	1	127	c.11A>G	c.(10-12)CAC>CGC	p.H4R		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	4	Actin-binding.|CH 1.					integral to membrane	actin binding				0				Epithelial(152;0.193)		GTCCCACTCGTGTGCAGCCAT	0.448													7	41					0	0	0.004482	0	0		C	95786119	C	C	95786119	3	2	37	1	0	0	0	0	1	0	0	0	3545	1696	59	3	3049	3	CLMN	14	95786119	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	5018438	95786119	11563421	687	32932											
ATG2B	55102	broad.mit.edu	37	chr14	96800759	96800759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctggtccagcaatagctGccaacatatccaaaagcaag	14	7	8	12	0	0	0	0	0	0	0	2	0	2	0	4	1	6	3	4	1	7	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:96800759G>A	uc001yfi.2	-	7	1369	c.1004C>T	c.(1003-1005)GCA>GTA	p.A335V		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	335										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		AGCAATAGCTGCCAACATATC	0.308													4	48					0	0	0.000602	0	0		A	96800759	A	A	96800759	3	1	37	1	0	0	0	0	1	0	0	0	1095	1319	46	2	5376	2	ATG2B	14	96800759	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1014640	96800759	10548781	688	32933											
WDR25	79446	broad.mit.edu	37	chr14	100934422	100934422	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcacacagaggcagtgcGggccgcccggtgggctccct	5	5	15	16	3	0	1	0	0	0	1	1	1	1	1	4	4	2	3	4	4	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:100934422G>T	uc010avx.2	+	3	980	c.887G>T	c.(886-888)CGG>CTG	p.R296L	WDR25_uc001yhm.2_Missense_Mutation_p.R288L|WDR25_uc001yhn.2_Missense_Mutation_p.R296L|WDR25_uc010avy.2_Intron|WDR25_uc001yho.2_Missense_Mutation_p.R39L	NM_001161476	NP_001154948	Q64LD2	WDR25_HUMAN	WD repeat domain 25	296	WD 2.										0		Melanoma(154;0.212)				GAGGCAGTGCGGGCCGCCCGG	0.617													46	141					8.20599e-20	9.5143e-20	0.011902	1	0		T	100934422	T	T	100934422	3	4	37	1	0	0	0	0	1	0	0	0	17308	1116	39	5	893	5	WDR25	14	100934422	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4133663	100934422	6415118	689	32934											
DYNC1H1	1778	broad.mit.edu	37	chr14	102505979	102505979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcttgtcccaggtggCgtttaaccgagtggctcgag	5	11	13	12	3	1	0	0	0	1	0	3	2	2	0	3	3	2	3	3	3	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:102505979C>T	uc001yks.2	+	62	11764	c.11600C>T	c.(11599-11601)GCG>GTG	p.A3867V		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3867					cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						TCCCAGGTGGCGTTTAACCGA	0.577													6	169					0	0	0.001168	0	0		T	102505979	T	T	102505979	3	4	37	1	0	0	0	0	1	0	0	0	4847	768	27	1	11846	1	DYNC1H1	14	102505979	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1571557	102505979	4843561	690	32935											
RCOR1	23186	broad.mit.edu	37	chr14	103174857	103174857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactattcttggaagaagaCgaggactaaaactagtgtga	15	11	10	5	1	1	3	0	1	1	2	1	6	1	5	0	2	2	0	0	2	7	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:103174857C>T	uc001ymb.2	+	6	707	c.707C>T	c.(706-708)ACG>ATG	p.T236M		NM_015156	NP_055971	Q9UKL0	RCOR1_HUMAN	REST corepressor 1	236	Interaction with HDAC1.|SANT 1.				blood coagulation|histone H4 deacetylation|interspecies interaction between organisms	transcriptional repressor complex	protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription regulatory region DNA binding			ovary(1)	1						TGGAAGAAGACGAGGACTAAA	0.403													30	230					0	0	0.013726	0	0		T	103174857	T	T	103174857	3	4	37	1	0	0	0	0	1	0	0	0	13207	536	19	1	729	1	RCOR1	14	103174857	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	668878	103174857	4174683	691	32936											
GPR132	29933	broad.mit.edu	37	chr14	105517586	105517586	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgccgttcaccgtggaCaggcacagaaacaccacaga	13	3	10	15	3	1	2	1	0	0	2	1	3	1	3	4	2	1	2	4	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:105517586C>T	uc001yqd.2	-	4	1787	c.888G>A	c.(886-888)CTG>CTA	p.L296L	GPR132_uc001yqc.2_Silent_p.L108L|GPR132_uc001yqe.2_Silent_p.L287L	NM_013345	NP_037477	Q9UNW8	GP132_HUMAN	G protein-coupled receptor 132	296	Helical; Name=7; (Potential).				response to stress	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.0953)|Melanoma(154;0.155)|all_epithelial(191;0.219)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.02)|all cancers(159;0.0419)|OV - Ovarian serous cystadenocarcinoma(161;0.0521)		TCACCGTGGACAGGCACAGAA	0.562													5	55					0	0	0.000602	0	0		T	105517586	T	T	105517586	2	4	37	1	0	0	0	0	0	0	0	1	6657	465	17	4		4	GPR132	14	105517586	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2342729	105517586	1831954	692	32937											
PACS2	23241	broad.mit.edu	37	chr14	105849215	105849215	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcctgcggacgtccaggcGgccttcagcaccatcgtctc	5	9	10	17	4	3	0	1	0	2	0	7	1	4	1	4	3	2	1	4	3	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:105849215G>A	uc001yqt.2	+	15	1753	c.1578G>A	c.(1576-1578)GCG>GCA	p.A526A	PACS2_uc001yqs.2_Silent_p.A451A|PACS2_uc001yqv.2_Silent_p.A530A|PACS2_uc001yqu.2_Silent_p.A530A	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	526					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		ACGTCCAGGCGGCCTTCAGCA	0.632													6	23					0	0	0.00308	0	0		A	105849215	A	A	105849215	2	1	37	1	0	0	0	0	0	0	0	1	11392	1103	39	1		1	PACS2	14	105849215	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	331629	105849215	1500325	693	32938											
MKRN3	7681	broad.mit.edu	37	chr15	23811706	23811706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcgtggggagagctgtatGtacctccatggagacatatg	9	12	13	7	1	0	2	0	0	0	2	2	4	1	2	2	3	2	3	2	3	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:23811706G>A	uc001ywh.3	+	1	1253	c.777G>A	c.(775-777)ATG>ATA	p.M259I	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.M259I	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	259	C3H1-type 2.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		AGAGCTGTATGTACCTCCATG	0.542													18	69					0	0	0.012319	0	0		A	23811706	A	A	23811706	3	1	37	1	0	0	0	0	1	0	0	0	9626	1377	48	4	779	4	MKRN3	15	23811706	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08		23811706	78719686	694	32939											
MKRN3	7681	broad.mit.edu	37	chr15	23812005	23812005	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttgagaacaggatcgtcaAgtcttgcccacagtgcaggg	10	9	13	9	1	2	1	1	1	1	1	3	3	2	2	1	2	3	2	1	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:23812005A>C	uc001ywh.3	+	1	1552	c.1076A>C	c.(1075-1077)AAG>ACG	p.K359T	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.K359T	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	359	RING-type.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		AGGATCGTCAAGTCTTGCCCA	0.493													12	92					0	0	0.013537	0	0		C	23812005	C	C	23812005	3	2	37	1	0	0	0	0	1	0	0	0	9626	72	3	5	1078	5	MKRN3	15	23812005	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	299	23812005	78719387	695	32940											
C15orf2	23742	broad.mit.edu	37	chr15	24921372	24921372	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtaaggatccctcctcccAgccgcatgttcactctcctg	6	10	7	18	2	2	0	1	0	1	0	6	1	5	1	6	1	1	3	6	1	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:24921372A>G	uc001ywo.2	+	1	832	c.358A>G	c.(358-360)AGC>GGC	p.S120G		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	120					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CCCTCCTCCCAGCCGCATGTT	0.652													6	78					0	0	0.001168	0	0		G	24921372	G	G	24921372	3	3	37	1	0	0	0	0	1	0	0	0	1787	188	7	3	360	3	C15orf2	15	24921372	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1109367	24921372	77610020	696	32941											
C15orf2	23742	broad.mit.edu	37	chr15	24922571	24922571	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagtccccaatatctatGtgtgtggattcccctcctcc	7	12	9	13	0	1	0	0	0	1	0	5	2	5	2	6	2	0	0	6	2	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:24922571G>C	uc001ywo.2	+	1	2031	c.1557G>C	c.(1555-1557)ATG>ATC	p.M519I		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	519	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CAATATCTATGTGTGTGGATT	0.557													35	237					0	0	0.004289	0	0		C	24922571	C	C	24922571	3	2	37	1	0	0	0	0	1	0	0	0	1787	1377	48	5	1559	5	C15orf2	15	24922571	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1199	24922571	77608821	697	32942											
C15orf2	23742	broad.mit.edu	37	chr15	24922914	24922914	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattccacaataccaccccaAgttttaaccaactctttgga	13	12	3	13	0	1	0	0	0	1	0	2	1	2	1	5	1	3	1	5	1	6	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:24922914A>T	uc001ywo.2	+	1	2374	c.1900A>T	c.(1900-1902)AGT>TGT	p.S634C		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	634					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		TACCACCCCAAGTTTTAACCA	0.493													29	117					0	0	0.00632	0	0		T	24922914	T	T	24922914	3	4	37	1	0	0	0	0	1	0	0	0	1787	72	3	5	1902	5	C15orf2	15	24922914	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	343	24922914	77608478	698	32943											
TJP1	7082	broad.mit.edu	37	chr15	30010323	30010323	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagatgctacttctggaggCtgtttaaaaaaaaaaaaaaa	19	11	7	4	0	1	1	0	0	1	1	1	2	1	2	0	2	2	3	0	2	10	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:30010323C>A	uc001zcr.2	-	22	4352	c.3877_splice	c.e22-1	p.P1293_splice	TJP1_uc010azl.2_Splice_Site_p.P1281_splice|TJP1_uc001zcq.2_Splice_Site_p.P1217_splice|TJP1_uc001zcs.2_Splice_Site_p.P1213_splice	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a						cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		CTTCTGGAGGCTGTTTaaaaa	0.388													32	115					1.99505e-19	2.31095e-19	0.012213	1	0		A	30010323	A	A	30010323	5	1	37	1	0	0	0	0	0	0	1	0	15954	811	28	5	1398	5	TJP1	15	30010323	Splice_Site	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5087409	30010323	72521069	699	32944											
CHRNA7	1139	broad.mit.edu	37	chr15	32460281	32460281	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagcgccgtggcgccgccGcccgccagcaacgggaacct	7	3	14	17	7	0	1	0	1	0	0	0	2	0	2	6	2	4	1	6	2	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:32460281G>A	uc001zft.2	+	10	1203	c.1131G>A	c.(1129-1131)CCG>CCA	p.P377P	uc001zfv.1_Intron|CHRNA7_uc010baf.2_Silent_p.P196P|CHRNA7_uc010bak.2_Silent_p.P292P	NM_000746	NP_000737	P36544	ACHA7_HUMAN	cholinergic receptor, nicotinic, alpha 7	377	Cytoplasmic (Potential).				activation of MAPK activity|calcium ion transport|cellular calcium ion homeostasis|memory|negative regulation of tumor necrosis factor production|positive regulation of angiogenesis|positive regulation of cell proliferation|response to hypoxia|response to nicotine	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|beta-amyloid binding|chloride channel regulator activity|nicotinic acetylcholine-activated cation-selective channel activity|protein homodimerization activity|toxin binding			ovary(1)	1		all_lung(180;6.35e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)	Nicotine(DB00184)|Varenicline(DB01273)	TGGCGCCGCCGCCCGCCAGCA	0.706													15	81					0	0	0.00499	0	0		A	32460281	A	A	32460281	2	1	37	1	0	0	0	0	0	0	0	1	3391	1074	38	1		1	CHRNA7	15	32460281	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2449958	32460281	70071111	700	32945											
IVD	3712	broad.mit.edu	37	chr15	40707611	40707611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctgacaggctcatgcaagCggtcctggaccacaccattc	9	9	9	14	1	2	1	1	1	1	0	4	2	3	2	3	3	2	2	3	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:40707611C>T	uc001zls.3	+	9	1233	c.899C>T	c.(898-900)GCG>GTG	p.A300V	IVD_uc001zlq.2_Missense_Mutation_p.A270V|IVD_uc001zlr.2_Missense_Mutation_p.A3V	NM_002225	NP_002216	P26440	IVD_HUMAN	isovaleryl Coenzyme A dehydrogenase isoform 1	297					leucine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|isovaleryl-CoA dehydrogenase activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;1.52e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.65e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0808)		CTCATGCAAGCGGTCCTGGAC	0.587													4	39					0	0	0.009096	0	0		T	40707611	T	T	40707611	3	4	37	1	0	0	0	0	1	0	0	0	7944	768	27	1	933	1	IVD	15	40707611	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	8247330	40707611	61823781	701	32946											
IVD	3712	broad.mit.edu	37	chr15	40708545	40708545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacacaggtagccctggaCggcattcagtgttttggtga	8	10	13	10	1	1	1	1	1	0	0	1	2	1	2	2	4	1	3	2	4	1	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:40708545C>T	uc001zls.3	+	11	1465	c.1131C>T	c.(1129-1131)GAC>GAT	p.D377D	IVD_uc001zlq.2_Silent_p.D347D|IVD_uc001zlr.2_Silent_p.D80D	NM_002225	NP_002216	P26440	IVD_HUMAN	isovaleryl Coenzyme A dehydrogenase isoform 1	374					leucine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|isovaleryl-CoA dehydrogenase activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;1.52e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.65e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0808)		TAGCCCTGGACGGCATTCAGT	0.572													8	48					0	0	0.004482	0	0		T	40708545	T	T	40708545	2	4	37	1	0	0	0	0	0	0	0	1	7944	535	19	1		1	IVD	15	40708545	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	934	40708545	61822847	702	32947											
VPS18	57617	broad.mit.edu	37	chr15	41192156	41192156	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacaggccagctgtgggcCtacactgagcgggctgtctt	6	9	13	13	1	1	1	0	1	1	0	2	1	2	1	3	3	3	2	3	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:41192156C>A	uc001zne.2	+	4	1479	c.1140C>A	c.(1138-1140)GCC>GCA	p.A380A		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	380					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		AGCTGTGGGCCTACACTGAGC	0.607													17	92					1.99824e-07	2.19271e-07	0.00499	1	0		A	41192156	A	A	41192156	2	1	37	1	0	0	0	0	0	0	0	1	17220	668	24	5		5	VPS18	15	41192156	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	483611	41192156	61339236	703	32948											
DLL4	54567	broad.mit.edu	37	chr15	41228487	41228487	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgtcctggattcacgggCacctactgtgaactccacgt	7	10	10	14	3	1	1	1	1	0	0	3	2	3	2	4	2	3	1	4	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:41228487C>T	uc001zng.1	+	9	1622	c.1302C>T	c.(1300-1302)GGC>GGT	p.G434G		NM_019074	NP_061947	Q9NR61	DLL4_HUMAN	delta-like 4 protein precursor	434	EGF-like 6.|Extracellular (Potential).				blood circulation|cell communication|cell differentiation|Notch receptor processing|Notch signaling pathway	integral to membrane|plasma membrane	calcium ion binding|Notch binding			breast(2)	2		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		GATTCACGGGCACCTACTGTG	0.617													6	15					0	0	0.001168	0	0		T	41228487	T	T	41228487	2	4	37	1	0	0	0	0	0	0	0	1	4574	697	25	2		2	DLL4	15	41228487	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	36331	41228487	61302905	704	32949											
RPAP1	26015	broad.mit.edu	37	chr15	41819655	41819655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgggccaggtcaggtggaGgccggctttcttcttcaggg	4	10	17	10	2	4	0	2	0	2	0	5	1	4	1	2	7	0	1	2	7	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:41819655G>A	uc001zod.2	-	12	1701	c.1577C>T	c.(1576-1578)CCT>CTT	p.P526L		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	526						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GTCAGGTGGAGGCCGGCTTTC	0.557													23	85					0	0	0.003954	0	0		A	41819655	A	A	41819655	3	1	37	1	0	0	0	0	1	0	0	0	13566	1000	35	4	2660	4	RPAP1	15	41819655	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	591168	41819655	60711737	705	32950											
SPTBN5	51332	broad.mit.edu	37	chr15	42147042	42147042	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctcaatgcggctcctctGggcttggatgtggggatagc	6	10	15	10	1	2	0	1	0	1	0	3	2	3	2	2	5	3	2	2	5	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:42147042G>C	uc001zos.2	-	56	9784	c.9451C>G	c.(9451-9453)CAG>GAG	p.Q3151E		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	3186	Spectrin 28.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		CGGCTCCTCTGGGCTTGGATG	0.622													4	88					0	0	0.009096	0	0		C	42147042	C	C	42147042	3	2	37	1	0	0	0	0	1	0	0	0	15147	1357	47	5	1520	5	SPTBN5	15	42147042	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	327387	42147042	60384350	706	32951											
TGM5	9333	broad.mit.edu	37	chr15	43531359	43531359	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttcttctggagagcctcAccgttgctcatctcctgagg	5	13	9	14	1	5	2	2	1	3	1	6	3	5	2	4	2	2	2	4	2	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:43531359A>G	uc001zrd.1	-	8	1113	c.1105_splice	c.e8+1	p.G369_splice	TGM5_uc001zrc.1_Intron|TGM5_uc001zre.1_Splice_Site_p.G287_splice	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1						epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	GGAGAGCCTCACCGTTGCTCA	0.632													19	70					0	0	0.008871	0	0		G	43531359	G	G	43531359	5	3	37	1	0	0	0	0	0	0	1	0	15858	173	6	3	1079	3	TGM5	15	43531359	Splice_Site	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1384317	43531359	59000033	707	32952											
MAP1A	4130	broad.mit.edu	37	chr15	43816676	43816676	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctccaccatctggccCacccagtgccacccacacac	8	7	4	22	0	2	0	0	0	2	0	4	0	3	0	7	1	1	0	7	1	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:43816676C>T	uc001zrt.2	+	4	3472	c.3005C>T	c.(3004-3006)CCA>CTA	p.P1002L		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1002						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	CCATCTGGCCCACCCAGTGCC	0.582													5	103					0	0	0.000602	0	0		T	43816676	T	T	43816676	3	4	37	1	0	0	0	0	1	0	0	0	9245	594	21	4	3007	4	MAP1A	15	43816676	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	285317	43816676	58714716	708	32953											
B2M	567	broad.mit.edu	37	chr15	45003747	45003747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcattcgggccgagatGtctcgctccgtggccttagc	6	9	13	13	4	1	1	0	0	1	1	4	3	2	1	3	2	2	2	3	2	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:45003747G>A	uc001zuc.2	+	1	63	c.3G>A	c.(1-3)ATG>ATA	p.M1I	B2M_uc010uek.1_Missense_Mutation_p.M1I|B2M_uc010bdx.1_Missense_Mutation_p.M1I	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor	1					antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding	p.M1V(2)		ovary(2)|skin(1)	3		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		GGGCCGAGATGTCTCGCTCCG	0.612													14	65					0	0	0.00245	0	0		A	45003747	A	A	45003747	3	1	37	1	0	0	0	0	1	0	0	0	1245	1377	48	4	5	4	B2M	15	45003747	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1187071	45003747	57527645	709	32954											
SEMA6D	80031	broad.mit.edu	37	chr15	48063126	48063126	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaccctgcaggccatgaAgagccactcagaaaaggccc	14	3	11	13	0	1	4	1	1	0	3	1	5	1	4	4	2	2	1	4	2	4	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:48063126A>G	uc010bek.2	+	19	2726	c.2366A>G	c.(2365-2367)AAG>AGG	p.K789R	SEMA6D_uc001zvw.2_Missense_Mutation_p.K727R|SEMA6D_uc001zvy.2_Missense_Mutation_p.K789R|SEMA6D_uc001zvz.2_Missense_Mutation_p.K733R|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Missense_Mutation_p.K727R|SEMA6D_uc001zwc.2_Missense_Mutation_p.K714R	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	789	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		CAGGCCATGAAGAGCCACTCA	0.537													25	61					0	0	0.005443	0	0		G	48063126	G	G	48063126	3	3	37	1	0	0	0	0	1	0	0	0	14067	72	3	3	2479	3	SEMA6D	15	48063126	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3059379	48063126	54468266	710	32955											
FBN1	2200	broad.mit.edu	37	chr15	48780642	48780642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgccaatggtgtttctgCacttgccgtgggtgcagagg	6	11	15	9	1	1	1	0	0	1	1	1	1	1	1	2	3	5	4	2	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:48780642C>T	uc001zwx.1	-	26	3459	c.3131G>A	c.(3130-3132)TGC>TAC	p.C1044Y		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1044	EGF-like 15; calcium-binding.		C -> Y (in MFS).		heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GGTGTTTCTGCACTTGCCGTG	0.458													29	100					0	0	0.005443	0	0		T	48780642	T	T	48780642	3	4	37	1	0	0	0	0	1	0	0	0	5716	710	25	2	5648	2	FBN1	15	48780642	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	717516	48780642	53750750	711	32956											
USP50	373509	broad.mit.edu	37	chr15	50836866	50836866	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacactgtgagatggcatTcacgcagcatgtgttgccca	10	9	12	10	1	1	2	1	1	0	2	1	4	1	2	1	1	2	4	1	1	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:50836866T>C	uc001zyq.3	-	2	346	c.166A>G	c.(166-168)AAT>GAT	p.N56D		NM_203494	NP_987090	E9PP86	E9PP86_HUMAN	ubiquitin specific protease 50	56					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			lung(1)|breast(1)	2				all cancers(107;0.000519)|GBM - Glioblastoma multiforme(94;0.00288)		GAGATGGCATTCACGCAGCAT	0.493													3	41					0	0	0.004672	0	0		C	50836866	C	C	50836866	3	2	37	1	0	0	0	0	1	0	0	0	17108	1783	62	3	862	3	USP50	15	50836866	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2056224	50836866	51694526	712	32957											
GRINL1A	81488	broad.mit.edu	37	chr15	58001264	58001264	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgaataagggcccagctTccagcaatagagacagggta	14	6	12	9	0	0	2	0	1	0	1	1	3	1	2	2	2	2	3	2	2	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:58001264T>C	uc002aet.3	+	2	606	c.466T>C	c.(466-468)TCC>CCC	p.S156P	GCOM1_uc002aem.2_Intron|GCOM1_uc002aeq.2_Intron|GCOM1_uc002aen.2_Intron|GCOM1_uc010bfy.2_Intron|GCOM1_uc002aeo.2_Intron|GCOM1_uc002aep.2_RNA|GCOM1_uc010bfx.2_Intron|GRINL1A_uc002aes.2_Intron|GRINL1A_uc002aev.1_3'UTR|GRINL1A_uc010ugu.1_RNA|GRINL1A_uc002aeu.3_Intron	NM_015532	NP_056347	P0CAP1	GCOM1_HUMAN	glutamate receptor, ionotropic, N-methyl	247	Potential.				intracellular signal transduction	extrinsic to internal side of plasma membrane|I band					0				all cancers(107;0.0697)|GBM - Glioblastoma multiforme(80;0.12)		GGGCCCAGCTTCCAGCAATAG	0.493													8	39					0	0	0.00308	0	0		C	58001264	C	C	58001264	3	2	37	1	0	0	0	0	1	0	0	0	6802	1783	62	3	472	3	GRINL1A	15	58001264	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	7164398	58001264	44530128	713	32958											
RNF111	54778	broad.mit.edu	37	chr15	59368267	59368267	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcttcctcccgagctgcaAtctttggccatcaggccgct	5	13	8	15	2	3	0	1	0	2	0	5	1	5	0	4	2	2	3	4	2	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:59368267A>G	uc002afv.2	+	7	2080	c.1801A>G	c.(1801-1803)ATC>GTC	p.I601V	RNF111_uc002afs.2_Missense_Mutation_p.I601V|RNF111_uc002aft.2_Missense_Mutation_p.I601V|RNF111_uc002afu.2_Missense_Mutation_p.I600V|RNF111_uc002afw.2_Missense_Mutation_p.I601V|RNF111_uc002afx.2_Missense_Mutation_p.I127V	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	601					multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		CCGAGCTGCAATCTTTGGCCA	0.552													22	119					0	0	0.012319	0	0		G	59368267	G	G	59368267	3	3	37	1	0	0	0	0	1	0	0	0	13450	101	4	3	1823	3	RNF111	15	59368267	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1367003	59368267	43163125	714	32959											
TLN2	83660	broad.mit.edu	37	chr15	62989927	62989927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agttcaaccggaccgggaagGcagagcacggctcagtggcg	10	4	16	11	4	2	1	2	0	0	1	2	3	2	3	2	5	2	4	2	5	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:62989927G>A	uc002alb.3	+	12	1333	c.1333G>A	c.(1333-1335)GCA>ACA	p.A445T		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	445					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GACCGGGAAGGCAGAGCACGG	0.627													6	165					0	0	0.001168	0	0		A	62989927	A	A	62989927	3	1	37	1	0	0	0	0	1	0	0	0	15973	1203	42	2	1379	2	TLN2	15	62989927	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3621660	62989927	39541465	715	32960											
MAP2K1	5604	broad.mit.edu	37	chr15	66737006	66737006	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctaggtaataaaaggcCtgacatatctgagggagaag	14	9	11	7	0	2	3	0	2	2	1	3	4	3	3	2	3	0	1	2	3	6	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:66737006C>A	uc010bhq.2	+	5	1004	c.529C>A	c.(529-531)CTG>ATG	p.L177M	MAP2K1_uc010ujp.1_Missense_Mutation_p.L155M	NM_002755	NP_002746	Q02750	MP2K1_HUMAN	mitogen-activated protein kinase kinase 1	177	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|plasma membrane	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						AATAAAAGGCCTGACATATCT	0.323									Cardiofaciocutaneous_syndrome				11	99					0.000978159	0.00102137	0.010729	1	0		A	66737006	A	A	66737006	3	1	37	1	0	0	0	0	1	0	0	0	9254	680	24	5	547	5	MAP2K1	15	66737006	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3747079	66737006	35794386	716	32961											
IQCH	64799	broad.mit.edu	37	chr15	67664873	67664873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattcttcctcttttatcGccagcagaagtgggcatcag	11	12	8	10	1	3	1	1	0	2	1	5	1	4	1	2	1	1	2	2	1	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:67664873G>A	uc002aqo.1	+	9	1225	c.1178G>A	c.(1177-1179)CGC>CAC	p.R393H	IQCH_uc010ujv.1_Missense_Mutation_p.R212H|IQCH_uc002aqn.1_Missense_Mutation_p.R220H|IQCH_uc002aqq.1_Missense_Mutation_p.R141H|IQCH_uc002aqp.1_Missense_Mutation_p.R145H	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	393	IQ.									skin(3)|ovary(1)	4				Colorectal(3;0.0856)		CTCTTTTATCGCCAGCAGAAG	0.458													32	135					0	0	0.010818	0	0		A	67664873	A	A	67664873	3	1	37	1	0	0	0	0	1	0	0	0	7827	1087	38	1	1340	1	IQCH	15	67664873	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	927867	67664873	34866519	717	32962											
UACA	55075	broad.mit.edu	37	chr15	70959562	70959562	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttgattctccaacaatTgatgcagtttggtcactgtc	8	17	7	9	0	3	2	1	2	2	0	5	2	3	2	1	1	2	2	1	1	2	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:70959562T>C	uc002asr.2	-	16	3565	c.3461A>G	c.(3460-3462)CAA>CGA	p.Q1154R	UACA_uc010uke.1_Missense_Mutation_p.Q1045R|UACA_uc002asq.2_Missense_Mutation_p.Q1141R|UACA_uc010bin.1_Missense_Mutation_p.Q1129R	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	1154	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						CTCCAACAATTGATGCAGTTT	0.383													9	217					0	0	0.008291	0	0		C	70959562	C	C	70959562	3	2	37	1	0	0	0	0	1	0	0	0	16850	1812	63	3	805	3	UACA	15	70959562	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	3294689	70959562	31571830	718	32963											
UBL7	84993	broad.mit.edu	37	chr15	74741564	74741564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtgagagctgctctccGgagtgctggccagggccaag	6	8	17	10	1	1	1	0	1	1	1	2	3	1	2	3	3	3	3	3	3	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:74741564G>A	uc002axw.1	-	9	1007	c.845C>T	c.(844-846)CCG>CTG	p.P282L	UBL7_uc002axx.1_Missense_Mutation_p.P322L|UBL7_uc010bjr.1_Missense_Mutation_p.P173L|UBL7_uc002axy.1_Missense_Mutation_p.P282L|UBL7_uc002axz.1_Missense_Mutation_p.P282L	NM_032907	NP_116296	Q96S82	UBL7_HUMAN	ubiquitin-like 7	282							protein binding			ovary(1)	1						GCTGCTCTCCGGAGTGCTGGC	0.682													12	60					0	0	0.001855	0	0		A	74741564	A	A	74741564	3	1	37	1	0	0	0	0	1	0	0	0	16916	1116	39	1	309	1	UBL7	15	74741564	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3782002	74741564	27789828	719	32964											
LMAN1L	79748	broad.mit.edu	37	chr15	75108840	75108840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcttcgtgggacggcatcGggatcttctttgactctccg	4	13	13	11	4	3	1	0	1	3	0	6	3	3	3	1	4	0	2	1	4	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:75108840G>A	uc002ayt.1	+	3	405	c.403G>A	c.(403-405)GGG>AGG	p.G135R	LMAN1L_uc010bkd.2_Missense_Mutation_p.G63R|LMAN1L_uc010ulo.1_Intron|LMAN1L_uc010bke.1_Missense_Mutation_p.G135R	NM_021819	NP_068591	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like precursor	135	Lumenal (Potential).|L-type lectin-like.					ER-Golgi intermediate compartment membrane|integral to membrane	sugar binding				0						GGACGGCATCGGGATCTTCTT	0.493													22	114					0	0	0.012319	0	0		A	75108840	A	A	75108840	3	1	37	1	0	0	0	0	1	0	0	0	8854	1116	39	1	413	1	LMAN1L	15	75108840	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	367276	75108840	27422552	720	32965											
CSPG4	1464	broad.mit.edu	37	chr15	75970141	75970141	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgtcccgggcaggcggcgaGgacagctggagctctagggt	7	5	18	11	4	1	0	0	0	1	0	2	3	2	2	1	6	2	3	1	6	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:75970141G>T	uc002baw.2	-	9	5130	c.5037C>A	c.(5035-5037)TCC>TCA	p.S1679S		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1679	Extracellular (Potential).|Cysteine-containing.|Neurite growth inhibition (By similarity).|CSPG 11.				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						CAGGCGGCGAGGACAGCTGGA	0.622													19	105					2.94398e-08	3.25374e-08	0.007413	1	0		T	75970141	T	T	75970141	2	4	37	1	0	0	0	0	0	0	0	1	3963	987	35	5		5	CSPG4	15	75970141	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	861301	75970141	26561251	721	32966											
CSPG4	1464	broad.mit.edu	37	chr15	75979870	75979870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggctggctgaccagccCggactagctgtccccagcga	6	7	13	15	2	0	1	0	1	0	0	1	3	1	2	4	3	3	3	4	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:75979870C>T	uc002baw.2	-	3	3629	c.3536G>A	c.(3535-3537)CGG>CAG	p.R1179Q		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1179	Interaction with COL5A1 (By similarity).|Extracellular (Potential).|Gly/Ser-rich (glycosaminoglycan attachment domain).|CSPG 7.				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						CTGACCAGCCCGGACTAGCTG	0.657													21	78					0	0	0.010504	0	0		T	75979870	T	T	75979870	3	4	37	1	0	0	0	0	1	0	0	0	3963	652	23	1	3464	1	CSPG4	15	75979870	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	9729	75979870	26551522	722	32967											
MEX3B	84206	broad.mit.edu	37	chr15	82336148	82336148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcagctcggggcagcCgtcgggggatggcactgagg	5	5	21	10	3	0	1	0	1	0	0	2	2	0	2	1	7	3	5	1	7	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:82336148C>T	uc002bgq.1	-	2	1378	c.1063G>A	c.(1063-1065)GGC>AGC	p.G355S		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	355					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						TCGGGGCAGCCGTCGGGGGAT	0.652													18	61					0	0	0.00499	0	0		T	82336148	T	T	82336148	3	4	37	1	0	0	0	0	1	0	0	0	9528	652	23	1	650	1	MEX3B	15	82336148	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	6356278	82336148	20195244	723	32968											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84582089	84582089	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagacgacttacgactgggAgtacgctgggttcacccctt	8	10	12	11	3	1	1	1	1	0	1	1	5	1	2	2	2	2	3	2	2	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:84582089A>G	uc002bjz.3	+	16	2170	c.1946A>G	c.(1945-1947)GAG>GGG	p.E649G	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.E649G|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.E649G	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	649						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			TACGACTGGGAGTACGCTGGG	0.542													4	33					0	0	0.009096	0	0		G	84582089	G	G	84582089	3	3	37	1	0	0	0	0	1	0	0	0	276	304	11	3	2004	3	ADAMTSL3	15	84582089	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2245941	84582089	17949303	724	32969											
POLG	5428	broad.mit.edu	37	chr15	89862219	89862219	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgcagcagcccagcaccggGgtacgtggtatgtcagacgt	9	7	14	11	3	1	1	1	0	0	1	1	1	1	1	2	3	5	5	2	3	2	2	rs146936870		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:89862219G>C	uc002bns.3	-	20	3498	c.3216C>G	c.(3214-3216)ACC>ACG	p.T1072T	POLG_uc002bnr.3_Silent_p.T1072T	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	1072					base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			CCAGCACCGGGGTACGTGGTA	0.587								DNA_polymerases_(catalytic_subunits)					6	84					0	0	0.001984	0	0		C	89862219	C	C	89862219	2	2	37	1	0	0	0	0	0	0	0	1	12219	1219	43	5		5	POLG	15	89862219	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5280130	89862219	12669173	725	32970											
TM2D3	80213	broad.mit.edu	37	chr15	102182698	102182698	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acagctaaatgtacaaagagCcatctgctggtccaacatag	15	8	8	10	0	1	1	0	0	1	1	2	1	2	1	2	1	5	3	2	1	6	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:102182698C>A	uc002bxi.2	-	6	758	c.728G>T	c.(727-729)GGC>GTC	p.G243V	TM2D3_uc010usg.1_Intron|TM2D3_uc002bxh.2_Missense_Mutation_p.G178V|TM2D3_uc002bxj.2_Missense_Mutation_p.G217V|TM2D3_uc002bxk.2_Missense_Mutation_p.G178V	NM_078474	NP_510883	Q9BRN9	TM2D3_HUMAN	TM2 domain containing 3 isoform a	243						integral to membrane				ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GTACAAAGAGCCATCTGCTGG	0.502													33	110					3.2961e-07	3.6008e-07	0.004878	1	0		A	102182698	A	A	102182698	3	1	37	1	0	0	0	0	1	0	0	0	15990	739	26	5	19	5	TM2D3	15	102182698	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	12320479	102182698	348694	726	32971											
WDR90	197335	broad.mit.edu	37	chr16	711649	711649	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcacggccacctatgacctCgtgtcctccacccgcctccc	5	7	8	21	3	0	1	0	1	0	0	4	1	3	1	8	2	0	1	8	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:711649C>T	uc002cii.1	+	31	3780	c.3726C>T	c.(3724-3726)CTC>CTT	p.L1242L	WDR90_uc002cij.1_Intron|WDR90_uc002cik.1_Silent_p.L769L|WDR90_uc002cil.1_RNA|WDR90_uc002cim.1_Silent_p.L416L|WDR90_uc002cin.1_5'UTR	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	1242	WD 13.									ovary(1)	1		Hepatocellular(780;0.0218)				CCTATGACCTCGTGTCCTCCA	0.687													4	69					0	0	0.009096	0	0		T	711649	T	T	711649	2	4	37	1	0	0	0	0	0	0	0	1	17363	871	31	1		1	WDR90	16	711649	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08		711649	89643104	727	32972											
NARFL	64428	broad.mit.edu	37	chr16	780644	780644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctggagctggcccccgcCgttcaggcagcctatgggag	5	6	16	14	2	1	0	1	0	0	0	1	2	1	2	5	5	2	3	5	5	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:780644C>T	uc002cjr.2	-	11	1216	c.1204G>A	c.(1204-1206)GGC>AGC	p.G402S	NARFL_uc002cjp.2_Missense_Mutation_p.G300S|NARFL_uc002cjq.2_Missense_Mutation_p.G300S|NARFL_uc002cjs.2_Missense_Mutation_p.G184S	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	402					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				TGGCCCCCGCCGTTCAGGCAG	0.706													9	43					0	0	0.008291	0	0		T	780644	T	T	780644	3	4	37	1	0	0	0	0	1	0	0	0	10186	652	23	1	230	1	NARFL	16	780644	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	68995	780644	89574109	728	32973											
SSTR5	6755	broad.mit.edu	37	chr16	1129861	1129861	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggtgccaaggacgctgaCgccacggagccgcgtccaga	8	5	14	14	5	1	2	0	1	1	1	2	4	2	4	4	3	2	1	4	3	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:1129861C>T	uc002ckq.2	+	1	1081	c.993C>T	c.(991-993)GAC>GAT	p.D331D	LOC146336_uc002cko.2_5'Flank|LOC146336_uc002ckp.1_5'Flank	NM_001053	NP_001044	P35346	SSR5_HUMAN	somatostatin receptor 5	331	Cytoplasmic (Potential).				negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			lung(1)	1		Hepatocellular(780;0.00369)			Octreotide(DB00104)	AGGACGCTGACGCCACGGAGC	0.662													7	45					0	0	0.001984	0	0		T	1129861	T	T	1129861	2	4	37	1	0	0	0	0	0	0	0	1	15226	535	19	1		1	SSTR5	16	1129861	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	349217	1129861	89224892	729	32974											
TELO2	9894	broad.mit.edu	37	chr16	1551731	1551731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagatcgtggatggcggcGtcccccaagcacagctggcg	8	5	15	13	4	0	1	0	0	0	1	2	3	1	2	2	4	2	2	2	4	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:1551731G>A	uc002cly.2	+	11	1720	c.1429G>A	c.(1429-1431)GTC>ATC	p.V477I		NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	477						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				GGATGGCGGCGTCCCCCAAGC	0.647													12	56					0	0	0.013537	0	0		A	1551731	A	A	1551731	3	1	37	1	0	0	0	0	1	0	0	0	15782	1145	40	1	1467	1	TELO2	16	1551731	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	421870	1551731	88803022	730	32975											
PKD1	5310	broad.mit.edu	37	chr16	2164521	2164521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttggtgggcacgtagaggcGgccgtcgcggggggcagggt	4	6	23	8	5	0	1	0	0	0	1	1	1	0	1	1	8	0	4	1	8	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:2164521G>A	uc002cos.1	-	11	2712	c.2503C>T	c.(2503-2505)CGC>TGC	p.R835C	PKD1_uc002cot.1_Missense_Mutation_p.R835C	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	835	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						ACGTAGAGGCGGCCGTCGCGG	0.692													6	21					0	0	0.00308	0	0		A	2164521	A	A	2164521	3	1	37	1	0	0	0	0	1	0	0	0	11982	1116	39	1	10552	1	PKD1	16	2164521	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	612790	2164521	88190232	731	32976											
E4F1	1877	broad.mit.edu	37	chr16	2284966	2284966	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgttggtggagttctcGtccgtggtagctgacaccca	7	11	13	10	2	1	1	0	1	1	0	3	2	2	2	2	3	1	4	2	3	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:2284966G>A	uc002cpm.2	+	12	1947	c.1899G>A	c.(1897-1899)TCG>TCA	p.S633S	E4F1_uc010bsi.2_Intron|E4F1_uc010bsj.2_Silent_p.S456S|DNASE1L2_uc002cpn.2_5'Flank|DNASE1L2_uc002cpo.2_5'Flank|DNASE1L2_uc002cpp.2_5'Flank|DNASE1L2_uc002cpq.2_5'Flank	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	633					cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						TGGAGTTCTCGTCCGTGGTAG	0.652													4	15					0	0	0.000602	0	0		A	2284966	A	A	2284966	2	1	37	1	0	0	0	0	0	0	0	1	4880	1132	40	1		1	E4F1	16	2284966	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	120445	2284966	88069787	732	32977											
ZNF213	7760	broad.mit.edu	37	chr16	3190766	3190766	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccaggccagacaggcagCgacgtgactgtgtcctggag	8	6	16	11	2	0	2	0	1	0	1	1	4	1	3	3	3	2	1	3	3	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:3190766C>T	uc010uws.1	+	6	1245	c.798C>T	c.(796-798)AGC>AGT	p.S266S	ZNF213_uc002cud.2_RNA|ZNF213_uc010btf.2_3'UTR|ZNF213_uc010bth.2_Silent_p.S266S|ZNF213_uc010uwt.1_3'UTR	NM_004220	NP_004211	O14771	ZN213_HUMAN	zinc finger protein 213	266	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AGACAGGCAGCGACGTGACTG	0.692													21	56					0	0	0.00278	0	0		T	3190766	T	T	3190766	2	4	37	1	0	0	0	0	0	0	0	1	17794	767	27	1		1	ZNF213	16	3190766	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	905800	3190766	87163987	733	32978											
MEFV	4210	broad.mit.edu	37	chr16	3293871	3293871	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacttaccagcatgtgccTgagcgccaatcagctccgga	9	7	11	14	2	1	1	1	1	0	0	2	2	2	2	4	2	5	3	4	2	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:3293871T>C	uc002cun.1	-	9	1821	c.1781A>G	c.(1780-1782)CAG>CGG	p.Q594R		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	594	B30.2/SPRY.				inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	AGCATGTGCCTGAGCGCCAAT	0.517													6	54					0	0	0.006214	0	0		C	3293871	C	C	3293871	3	2	37	1	0	0	0	0	1	0	0	0	9477	1580	55	3	572	3	MEFV	16	3293871	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	103105	3293871	87060882	734	32979											
TIGD7	91151	broad.mit.edu	37	chr16	3349324	3349324	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcatcatccaacttagtttCcaactccccacatttttcaa	12	14	1	14	0	3	0	3	0	0	0	6	0	6	0	4	0	2	1	4	0	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:3349324C>A	uc002cus.2	-	1	2077	c.1291G>T	c.(1291-1293)GAA>TAA	p.E431*	ZNF263_uc002cur.2_3'UTR	NM_033208	NP_149985	Q6NT04	TIGD7_HUMAN	tigger transposable element derived 7	431					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						AACTTAGTTTCCAACTCCCCA	0.358													13	256					0.00136819	0.00142501	0.013537	1	0		A	3349324	A	A	3349324	4	1	37	1	0	0	0	0	0	1	0	0	15926	864	30	5	362	5	TIGD7	16	3349324	Nonsense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	55453	3349324	87005429	735	32980											
CREBBP	1387	broad.mit.edu	37	chr16	3786719	3786719	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtaccactcctgcagtcGttttggcttgggtatttttt	4	20	9	8	1	0	0	0	0	0	0	2	0	1	0	2	2	2	5	2	2	2	9			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:3786719G>A	uc002cvv.2	-	27	4696	c.4492C>T	c.(4492-4494)CGA>TGA	p.R1498*	CREBBP_uc002cvw.2_Nonsense_Mutation_p.R1460*	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1498	Interaction with TRERF1.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TCCTGCAGTCGTTTTGGCTTG	0.507			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				10	226					0	0	0.013537	0	0		A	3786719	A	A	3786719	4	1	37	1	0	0	0	0	0	1	0	0	3864	1153	40	1	2856	1	CREBBP	16	3786719	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	437395	3786719	86568034	736	32981											
CREBBP	1387	broad.mit.edu	37	chr16	3808004	3808004	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtgtccagcttccgctTgatggtggagaggtccatgg	5	11	14	11	1	0	2	0	1	0	1	3	3	3	2	4	4	1	2	4	4	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:3808004T>C	uc002cvv.2	-	18	3619	c.3415A>G	c.(3415-3417)AAG>GAG	p.K1139E	CREBBP_uc002cvw.2_Missense_Mutation_p.K1101E	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1139	Bromo.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		AGCTTCCGCTTGATGGTGGAG	0.463			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				12	63					0	0	0.013537	0	0		C	3808004	C	C	3808004	3	2	37	1	0	0	0	0	1	0	0	0	3864	1821	63	3	3969	3	CREBBP	16	3808004	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	21285	3808004	86546749	737	32982											
GLIS2	84662	broad.mit.edu	37	chr16	4384870	4384870	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcctgcccctcggctcCgggggggccctgcacctgcc	1	9	12	19	2	1	0	0	0	1	0	4	0	3	0	7	4	3	2	7	4	0	2	rs145025457		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:4384870C>T	uc002cwc.1	+	3	471	c.414C>T	c.(412-414)TCC>TCT	p.S138S		NM_032575	NP_115964	Q9BZE0	GLIS2_HUMAN	GLIS family zinc finger 2	138	Interaction with CTNND1 (By similarity).				cell differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development	cytoplasm|nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|transcription regulatory region DNA binding|zinc ion binding				0						CCCTCGGCTCCGGGGGGGCCC	0.657													4	90					0	0	0.000602	0	0		T	4384870	T	T	4384870	2	4	37	1	0	0	0	0	0	0	0	1	6461	639	23	1		1	GLIS2	16	4384870	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	576866	4384870	85969883	738	32983											
PPL	5493	broad.mit.edu	37	chr16	4935616	4935616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtgcctccagctcctcccGcagctgcaagacctcatccg	7	7	8	19	2	1	1	1	0	0	1	5	1	5	1	6	0	4	4	6	0	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:4935616G>A	uc002cyd.1	-	22	3130	c.3040C>T	c.(3040-3042)CGG>TGG	p.R1014W		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1014	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						AGCTCCTCCCGCAGCTGCAAG	0.687													32	123					0	0	0.013726	0	0		A	4935616	A	A	4935616	3	1	37	1	0	0	0	0	1	0	0	0	12356	1086	38	1	2234	1	PPL	16	4935616	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	550746	4935616	85419137	739	32984											
CLEC16A	23274	broad.mit.edu	37	chr16	11154827	11154827	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagcctgagacacagttGccgctgactcgggaggagga	9	5	18	9	2	0	2	0	2	0	1	1	7	0	6	2	5	2	2	2	5	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:11154827G>A	uc002dao.2	+	19	2294	c.2064G>A	c.(2062-2064)TTG>TTA	p.L688L	CLEC16A_uc002dan.3_Silent_p.L670L	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	688										ovary(1)|central_nervous_system(1)	2						AGACACAGTTGCCGCTGACTC	0.577													14	230					0	0	0.00245	0	0		A	11154827	A	A	11154827	2	1	37	1	0	0	0	0	0	0	0	1	3503	1310	46	2		2	CLEC16A	16	11154827	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6219211	11154827	79199926	740	32985											
RUNDC2A	84127	broad.mit.edu	37	chr16	12142456	12142456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccgaccccttgcctgtcGtgtccaggaatgtcagtgct	7	10	11	13	2	1	1	1	0	0	1	3	3	2	2	5	1	2	1	5	1	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:12142456G>A	uc002dbw.1	+	7	789	c.727G>A	c.(727-729)GTG>ATG	p.V243M		NM_032167	NP_115543	Q9HA26	RUN2A_HUMAN	RUN domain containing 2A	243										ovary(1)	1						CTTGCCTGTCGTGTCCAGGAA	0.577			T	CIITA	PMBL|Hodgkin Lymphona|								22	82					0	0	0.014323	0	0		A	12142456	A	A	12142456	3	1	37	1	0	0	0	0	1	0	0	0	13768	1145	40	1	753	1	RUNDC2A	16	12142456	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	987629	12142456	78212297	741	32986											
TMC5	79838	broad.mit.edu	37	chr16	19451843	19451843	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattttggctccttagaaccGgactaccctggagctcagag	9	10	10	12	1	1	2	1	0	0	2	2	4	2	4	3	3	3	2	3	3	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:19451843G>A	uc002dgc.3	+	3	1232	c.483G>A	c.(481-483)CCG>CCA	p.P161P	TMC5_uc010vaq.1_Silent_p.P161P|TMC5_uc002dgb.3_Silent_p.P161P|TMC5_uc010var.1_Silent_p.P161P	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	161	Extracellular (Potential).					integral to membrane				skin(1)	1						CCTTAGAACCGGACTACCCTG	0.478													5	227					0	0	0.000602	0	0		A	19451843	A	A	19451843	2	1	37	1	0	0	0	0	0	0	0	1	16013	1103	39	1		1	TMC5	16	19451843	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	7309387	19451843	70902910	742	32987											
GDE1	51573	broad.mit.edu	37	chr16	19528399	19528399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaatgtcaaatcacacaatCgcccagtcccatcagtcgtc	13	8	5	15	2	3	0	3	0	0	0	7	0	4	0	2	0	0	0	2	0	3	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:19528399C>T	uc002dgh.2	-	2	538	c.374G>A	c.(373-375)CGA>CAA	p.R125Q	GDE1_uc002dgi.2_Missense_Mutation_p.R15Q	NM_016641	NP_057725	Q9NZC3	GDE1_HUMAN	glycerophosphodiester phosphodiesterase 1	125	Lumenal (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	cytoplasm|integral to membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol glycerophosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3						ATCACACAATCGCCCAGTCCC	0.433													13	71					0	0	0.00245	0	0		T	19528399	T	T	19528399	3	4	37	1	0	0	0	0	1	0	0	0	6325	884	31	1	641	1	GDE1	16	19528399	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	76556	19528399	70826354	743	32988											
ZP2	7783	broad.mit.edu	37	chr16	21221474	21221474	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgccaggactgcttgggAactccactgttatttccctt	6	14	10	11	0	0	0	0	0	0	0	2	2	2	2	3	3	3	2	3	3	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:21221474A>G	uc002dii.2	-	3	191	c.191T>C	c.(190-192)TTC>TCC	p.F64S	ZP2_uc010bwn.1_Missense_Mutation_p.F103S|ZP2_uc010bwo.2_Missense_Mutation_p.F103S	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	64	Extracellular (Potential).				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		ACTGCTTGGGAACTCCACTGT	0.478													8	66					0	0	0.004482	0	0		G	21221474	G	G	21221474	3	3	37	1	0	0	0	0	1	0	0	0	18241	246	9	3	2114	3	ZP2	16	21221474	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1693075	21221474	69133279	744	32989											
USP31	57478	broad.mit.edu	37	chr16	23080493	23080493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatcaaatggaccagagagcGggggcaggcggtccccttgt	9	7	15	10	2	1	1	1	0	0	1	2	3	2	2	3	5	1	1	3	5	2	2	rs148943431		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:23080493G>A	uc002dll.2	-	16	2933	c.2933C>T	c.(2932-2934)CCG>CTG	p.P978L	USP31_uc002dlk.2_Missense_Mutation_p.P250L|USP31_uc010vca.1_Missense_Mutation_p.P281L|USP31_uc010bxm.2_Missense_Mutation_p.P266L	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	978	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		ACCAGAGAGCGGGGGCAGGCG	0.522													19	98					0	0	0.010504	0	0		A	23080493	A	A	23080493	3	1	37	1	0	0	0	0	1	0	0	0	17088	1116	39	1	1129	1	USP31	16	23080493	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1859019	23080493	67274260	745	32990											
COG7	91949	broad.mit.edu	37	chr16	23415109	23415109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggttaagccgagtcagcGctgctcgaggtgcagccagc	7	7	15	12	3	1	0	1	0	0	0	2	2	1	0	2	2	6	5	2	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:23415109G>A	uc002dlo.2	-	13	1897	c.1709C>T	c.(1708-1710)GCG>GTG	p.A570V		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	570					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		CCGAGTCAGCGCTGCTCGAGG	0.512													9	59					0	0	0.010729	0	0		A	23415109	A	A	23415109	3	1	37	1	0	0	0	0	1	0	0	0	3666	1087	38	1	623	1	COG7	16	23415109	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	334616	23415109	66939644	746	32991											
CACNG3	10368	broad.mit.edu	37	chr16	24372735	24372735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgccggagaccccgggcagCgtgactccaaaaaaagttac	13	4	11	13	4	0	2	0	1	0	1	1	3	1	2	4	2	2	2	4	2	4	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:24372735C>T	uc002dmf.2	+	4	1699	c.499C>T	c.(499-501)CGT>TGT	p.R167C		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	167					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0				GBM - Glioblastoma multiforme(48;0.0809)		CCCCGGGCAGCGTGACTCCAA	0.443													36	161					0	0	0.004878	0	0		T	24372735	T	T	24372735	3	4	37	1	0	0	0	0	1	0	0	0	2561	768	27	1	513	1	CACNG3	16	24372735	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	957626	24372735	65982018	747	32992											
KIAA0556	23247	broad.mit.edu	37	chr16	27761019	27761019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaccgctcccaccggggacGcatctccaacacggagctcc	8	4	10	19	5	1	0	0	0	1	0	4	3	3	2	5	3	2	3	5	3	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:27761019G>A	uc002dow.2	+	16	2762	c.2738G>A	c.(2737-2739)CGC>CAC	p.R913H		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	913										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						CACCGGGGACGCATCTCCAAC	0.647													4	81					0	0	0.009096	0	0		A	27761019	A	A	27761019	3	1	37	1	0	0	0	0	1	0	0	0	8199	1087	38	1	2800	1	KIAA0556	16	27761019	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3388284	27761019	62593734	748	32993											
KIAA0556	23247	broad.mit.edu	37	chr16	27765529	27765529	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcccatccagttcccctgtCccccaagtcaccacgccaga	8	7	5	21	1	1	1	1	0	0	1	5	1	5	1	8	0	0	1	8	0	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:27765529C>T	uc002dow.2	+	18	3612	c.3588C>T	c.(3586-3588)GTC>GTT	p.V1196V		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	1196										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						GTTCCCCTGTCCCCCAAGTCA	0.582													16	84					0	0	0.007413	0	0		T	27765529	T	T	27765529	2	4	37	1	0	0	0	0	0	0	0	1	8199	842	30	4		4	KIAA0556	16	27765529	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4510	27765529	62589224	749	32994											
GSG1L	146395	broad.mit.edu	37	chr16	27802759	27802759	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcctgtgcggagctccgggGccaggaatccgccatgtgtg	5	9	15	12	3	0	0	0	0	0	0	3	2	3	2	5	4	2	1	5	4	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:27802759G>C	uc002doz.2	-	7	1013	c.928C>G	c.(928-930)CCC>GCC	p.P310A	GSG1L_uc010bya.1_Missense_Mutation_p.P259A|GSG1L_uc010bxz.1_Missense_Mutation_p.P173A|GSG1L_uc002doy.2_Missense_Mutation_p.P155A	NM_001109763	NP_001103233	Q6UXU4	GSG1L_HUMAN	GSG1-like isoform 1	310						integral to membrane				ovary(1)	1						GAGCTCCGGGGCCAGGAATCC	0.647													4	33					0	0	0.009096	0	0		C	27802759	C	C	27802759	3	2	37	1	0	0	0	0	1	0	0	0	6837	1203	42	5	71	5	GSG1L	16	27802759	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	37230	27802759	62551994	750	32995											
TUFM	7284	broad.mit.edu	37	chr16	28856346	28856346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctaccaccaggatgcagcCgtcgaggggtgcagtgcctg	7	7	15	12	2	0	0	0	0	0	0	1	2	0	1	4	3	6	3	4	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:28856346C>T	uc002drh.2	-	4	584	c.445G>A	c.(445-447)GGC>AGC	p.G149S	uc010vct.1_Intron|SH2B1_uc002dri.2_5'Flank	NM_003321	NP_003312	P49411	EFTU_HUMAN	Tu translation elongation factor, mitochondrial	146						mitochondrial nucleoid	GTP binding|GTPase activity|protein binding|translation elongation factor activity			ovary(1)	1						AGGATGCAGCCGTCGAGGGGT	0.542													22	55					0	0	0.003954	0	0		T	28856346	T	T	28856346	3	4	37	1	0	0	0	0	1	0	0	0	16797	652	23	1	950	1	TUFM	16	28856346	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1053587	28856346	61498407	751	32996											
MVP	9961	broad.mit.edu	37	chr16	29853263	29853263	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcgggcctgagctggtgtcGctgggtcctgaggagcagtt	4	11	17	9	2	0	2	0	2	0	0	3	3	1	3	2	4	2	4	2	4	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:29853263G>A	uc002dui.2	+	10	1548	c.1464G>A	c.(1462-1464)TCG>TCA	p.S488S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010vdz.1_RNA|MVP_uc002duj.2_Silent_p.S488S|MVP_uc010vea.1_Silent_p.S82S	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	488	MVP 9.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						AGCTGGTGTCGCTGGGTCCTG	0.672													11	43					0	0	0.001855	0	0		A	29853263	A	A	29853263	2	1	37	1	0	0	0	0	0	0	0	1	10014	1074	38	1		1	MVP	16	29853263	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	996917	29853263	60501490	752	32997											
SEZ6L2	26470	broad.mit.edu	37	chr16	29891335	29891335	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactcagggtccgtggtagTgacatttccatgtgccagga	9	11	12	9	1	1	1	1	1	0	0	3	2	3	2	3	3	2	1	3	3	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:29891335T>C	uc002duq.3	-	9	1663	c.1423A>G	c.(1423-1425)ACT>GCT	p.T475A	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.T405A|SEZ6L2_uc002dur.3_Missense_Mutation_p.T405A|SEZ6L2_uc002dus.3_Missense_Mutation_p.T361A|SEZ6L2_uc010vec.1_Missense_Mutation_p.T475A|SEZ6L2_uc010ved.1_Missense_Mutation_p.T431A	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	475	Sushi 2.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						TCCGTGGTAGTGACATTTCCA	0.587													5	74					0	0	0.000602	0	0		C	29891335	C	C	29891335	3	2	37	1	0	0	0	0	1	0	0	0	14169	1696	59	3	1388	3	SEZ6L2	16	29891335	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	38072	29891335	60463418	753	32998											
SRCAP	10847	broad.mit.edu	37	chr16	30735442	30735442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgtcagcaccaaatccagCtccagctcaggcttcccttc	8	9	6	18	1	2	0	2	0	0	0	7	0	6	0	5	1	3	4	5	1	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:30735442C>T	uc002dze.1	+	25	5082	c.4697C>T	c.(4696-4698)GCT>GTT	p.A1566V	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.A1361V|SRCAP_uc010bzz.1_Missense_Mutation_p.A1136V	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1566	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CCAAATCCAGCTCCAGCTCAG	0.592													26	64					0	0	0.00333	0	0		T	30735442	T	T	30735442	3	4	37	1	0	0	0	0	1	0	0	0	15160	797	28	2	4787	2	SRCAP	16	30735442	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	844107	30735442	59619311	754	32999											
C16orf93	90835	broad.mit.edu	37	chr16	30768894	30768894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctcgctggccttgagcCgctcctccaccagcccctgg	3	10	9	19	2	0	1	0	1	0	0	4	1	3	1	8	2	2	2	8	2	0	2	rs138413324	by1000genomes	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:30768894C>T	uc002dzm.2	-	9	1230	c.899G>A	c.(898-900)CGG>CAG	p.R300Q	C16orf93_uc002dzn.2_Missense_Mutation_p.R365Q|C16orf93_uc002dzo.2_Missense_Mutation_p.R263Q	NM_001014979	NP_001014979	A1A4V9	CP093_HUMAN	hypothetical protein LOC90835	300	Potential.										0						GGCCTTGAGCCGCTCCTCCAC	0.602													30	121					0	0	0.007291	0	0		T	30768894	T	T	30768894	3	4	37	1	0	0	0	0	1	0	0	0	1849	652	23	1	100	1	C16orf93	16	30768894	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	33452	30768894	59585859	755	33000											
MYST1	84148	broad.mit.edu	37	chr16	31131792	31131792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctgagcgcaagatcactcGcaaccaaaagcgcaagcatg	14	4	10	13	3	1	2	1	1	0	1	2	2	1	2	2	0	4	4	2	0	5	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:31131792G>A	uc002eay.2	+	3	437	c.419G>A	c.(418-420)CGC>CAC	p.R140H	MYST1_uc002eax.2_Missense_Mutation_p.R140H	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	140					histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						AAGATCACTCGCAACCAAAAG	0.572													12	34					0	0	0.010729	0	0		A	31131792	A	A	31131792	3	1	37	1	0	0	0	0	1	0	0	0	10120	1087	38	1	429	1	MYST1	16	31131792	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	362898	31131792	59222961	756	33001											
PRSS36	146547	broad.mit.edu	37	chr16	31152917	31152917	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccactggagcagcctccaGccgcaggccacaggctaggg	8	3	13	17	1	0	0	0	0	0	0	1	1	1	1	6	4	3	3	6	4	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:31152917G>A	uc002ebd.2	-	12	1833	c.1774C>T	c.(1774-1776)CTG>TTG	p.L592L	PRSS36_uc010vff.1_Silent_p.L367L|PRSS36_uc010vfg.1_Silent_p.L587L|PRSS36_uc010vfh.1_Silent_p.L592L	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	592	Peptidase S1 3.				proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						GCAGCCTCCAGCCGCAGGCCA	0.687													25	67					0	0	0.00333	0	0		A	31152917	A	A	31152917	2	1	37	1	0	0	0	0	0	0	0	1	12647	962	34	2		2	PRSS36	16	31152917	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	21125	31152917	59201836	757	33002											
ITGAX	3687	broad.mit.edu	37	chr16	31383749	31383749	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttgcgtctgaacttcacGctggtgggcaagcccctcct	6	10	10	15	2	2	1	1	1	1	0	3	1	3	1	4	2	3	2	4	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:31383749G>A	uc002ebu.1	+	18	2278	c.2211G>A	c.(2209-2211)ACG>ACA	p.T737T	ITGAX_uc002ebt.2_Silent_p.T737T	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	737	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGAACTTCACGCTGGTGGGCA	0.637													25	74					0	0	0.008361	0	0		A	31383749	A	A	31383749	2	1	37	1	0	0	0	0	0	0	0	1	7905	1074	38	1		1	ITGAX	16	31383749	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	230832	31383749	58971004	758	33003											
ITGAD	3681	broad.mit.edu	37	chr16	31426276	31426276	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccagaacctgcgtcctgtGctggccgtgggctcacaaga	7	7	12	15	2	1	2	1	0	0	2	2	2	2	2	5	2	3	2	5	2	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:31426276G>A	uc002ebv.1	+	18	2296	c.2247G>A	c.(2245-2247)GTG>GTA	p.V749V	ITGAD_uc010cap.1_Silent_p.V750V	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	749	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						TGCGTCCTGTGCTGGCCGTGG	0.537													30	100					0	0	0.009535	0	0		A	31426276	A	A	31426276	2	1	37	1	0	0	0	0	0	0	0	1	7900	1306	46	2		2	ITGAD	16	31426276	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	42527	31426276	58928477	759	33004											
RPGRIP1L	23322	broad.mit.edu	37	chr16	53720489	53720489	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgactgaataacgttttctCtgaaataaagagcctctgta	13	13	8	7	1	2	4	0	3	2	1	3	4	2	4	1	0	2	2	1	0	6	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:53720489C>G	uc002ehp.2	-	6	697	c.633_splice	c.e6-1	p.L211_splice	RPGRIP1L_uc002eho.3_Splice_Site_p.L211_splice|RPGRIP1L_uc010vgy.1_Splice_Site_p.L211_splice|RPGRIP1L_uc010cbx.2_Splice_Site_p.L211_splice|RPGRIP1L_uc010vgz.1_Splice_Site_p.L211_splice|RPGRIP1L_uc002ehq.1_Splice_Site_p.L211_splice	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a						negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				AACGTTTTCTCTGAAATAAAG	0.363													6	73					0	0	0.001984	0	0		G	53720489	G	G	53720489	5	3	37	1	0	0	0	0	0	0	1	0	13575	927	32	5	3403	5	RPGRIP1L	16	53720489	Splice_Site	SNP	C	TCGA-BR-6566-01A-11D-1800-08	22294213	53720489	36634264	760	33005											
BBS2	583	broad.mit.edu	37	chr16	56536710	56536710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccccagttcggtcacttCgagcatcaacctacaaataa	12	9	5	15	2	2	0	2	0	0	0	5	1	3	0	4	1	3	2	4	1	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:56536710C>T	uc002ejd.2	-	8	1049	c.815G>A	c.(814-816)CGA>CAA	p.R272Q	BBS2_uc010ccg.2_Missense_Mutation_p.R272Q	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein	272					adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						TCGGTCACTTCGAGCATCAAC	0.363									Bardet-Biedl_syndrome				8	41					0	0	0.00308	0	0		T	56536710	T	T	56536710	3	4	37	1	0	0	0	0	1	0	0	0	1339	884	31	1	1390	1	BBS2	16	56536710	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2816221	56536710	33818043	761	33006											
CCDC102A	92922	broad.mit.edu	37	chr16	57551998	57551998	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accttgttcttctcgaagagCgcggcctggctggccctcag	5	10	12	14	3	3	1	1	0	2	1	4	2	3	1	3	3	1	2	3	3	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:57551998C>T	uc002elw.2	-	6	1443	c.1230G>A	c.(1228-1230)GCG>GCA	p.A410A		NM_033212	NP_149989	Q96A19	C102A_HUMAN	coiled-coil domain containing 102A	410										ovary(1)	1						TCTCGAAGAGCGCGGCCTGGC	0.682													6	153					0	0	0.001168	0	0		T	57551998	T	T	57551998	2	4	37	1	0	0	0	0	0	0	0	1	2739	755	27	1		1	CCDC102A	16	57551998	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1015288	57551998	32802755	762	33007											
GPR97	222487	broad.mit.edu	37	chr16	57713135	57713135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggcgtgttgaacaatcGcctggtgggtttgagtgtgg	6	11	17	7	3	0	2	0	2	0	0	1	2	0	2	1	4	2	2	1	4	2	2	rs149201757		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:57713135G>A	uc002emh.2	+	5	642	c.539G>A	c.(538-540)CGC>CAC	p.R180H	GPR97_uc010vhv.1_Missense_Mutation_p.R60H|GPR97_uc010cdd.2_RNA|GPR97_uc010cde.2_5'Flank	NM_170776	NP_740746	Q86Y34	GPR97_HUMAN	G protein-coupled receptor 97 precursor	180	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1						TTGAACAATCGCCTGGTGGGT	0.637													24	75					0	0	0.00632	0	0		A	57713135	A	A	57713135	3	1	37	1	0	0	0	0	1	0	0	0	6736	1087	38	1	557	1	GPR97	16	57713135	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	161137	57713135	32641618	763	33008											
EXOC3L	283849	broad.mit.edu	37	chr16	67222785	67222785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttccctgcaccacctcaatgGcctgggccagctgccacaca	8	7	8	18	0	1	0	1	0	0	0	2	0	2	0	6	2	3	2	6	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:67222785G>A	uc002erx.1	-	4	507	c.266C>T	c.(265-267)GCC>GTC	p.A89V	EXOC3L_uc002erv.1_RNA|EXOC3L_uc002erw.1_Intron|EXOC3L_uc002ery.1_Intron|EXOC3L_uc010vje.1_Intron	NM_178516	NP_848611	Q86VI1	EX3L1_HUMAN	exocyst complex component 3-like	89	Mediates interaction with EXOC2, EXOC4 and EXOC5 (By similarity).				exocytosis|peptide hormone secretion	exocyst|stored secretory granule|transport vesicle					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0021)|Epithelial(162;0.0073)|all cancers(182;0.0616)		CACCTCAATGGCCTGGGCCAG	0.642													12	56					0	0	0.010729	0	0		A	67222785	A	A	67222785	3	1	37	1	0	0	0	0	1	0	0	0	5312	1203	42	2	2018	2	EXOC3L	16	67222785	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	9509650	67222785	23131968	764	33009											
E2F4	1874	broad.mit.edu	37	chr16	67229832	67229832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagcagcagcagcagcaGcaacagtaacagcagcagtt	15	3	11	12	0	0	0	0	0	0	0	0	0	0	0	0	0	11	11	0	0	2	2	rs3830472		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:67229832G>A	uc002erz.2	+	7	1019	c.956G>A	c.(955-957)AGC>AAC	p.S319N		NM_001950	NP_001941	Q16254	E2F4_HUMAN	E2F transcription factor 4	319	Poly-Ser.		S -> SSSS.		G1 phase of mitotic cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000697)|Epithelial(162;0.00303)|all cancers(182;0.0325)		agcagcagcagcaacagtaac	0.453													5	175					0	0	0.001168	0	0		A	67229832	A	A	67229832	3	1	37	1	0	0	0	0	1	0	0	0	4875	971	34	2	982	2	E2F4	16	67229832	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	7047	67229832	23124921	765	33010											
ELMO3	79767	broad.mit.edu	37	chr16	67235910	67235910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacaggacctggagcgcGtgccccccggtctgctggcc	5	5	14	17	3	1	0	0	0	1	0	1	2	1	2	5	4	4	2	5	4	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:67235910G>A	uc002esa.2	+	12	1283	c.1240G>A	c.(1240-1242)GTG>ATG	p.V414M	ELMO3_uc002esb.2_Missense_Mutation_p.V397M|ELMO3_uc002esc.2_Missense_Mutation_p.V248M	NM_024712	NP_078988	Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3	361	ELMO.				apoptosis|phagocytosis	cytoplasm|cytoskeleton	SH3 domain binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		CCTGGAGCGCGTGCCCCCCGG	0.667													24	81					0	0	0.005443	0	0		A	67235910	A	A	67235910	3	1	37	1	0	0	0	0	1	0	0	0	5075	1145	40	1	1286	1	ELMO3	16	67235910	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6078	67235910	23118843	766	33011											
ACD	65057	broad.mit.edu	37	chr16	67692248	67692248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcggatgacatgtggcCgggtaaggccggggttcctg	5	10	16	10	3	0	1	0	1	0	0	3	2	2	2	4	6	0	2	4	6	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:67692248C>T	uc002etq.3	-	10	1442	c.1105G>A	c.(1105-1107)GGC>AGC	p.G369S	ACD_uc002etp.3_Missense_Mutation_p.G366S|ACD_uc002etr.3_Missense_Mutation_p.G366S|ACD_uc010vjt.1_3'UTR|PARD6A_uc002ets.2_5'Flank|PARD6A_uc002ett.2_5'Flank|PARD6A_uc002etu.2_5'Flank	NM_001082486	NP_001075955	Q96AP0	ACD_HUMAN	adrenocortical dysplasia homolog isoform 1	369	Ser-rich.				intracellular protein transport|negative regulation of telomere maintenance via telomerase|positive regulation of single-stranded telomeric DNA binding|positive regulation of telomerase activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|telomere assembly	nuclear telomere cap complex|nucleoplasm	DNA binding|DNA polymerase binding			pancreas(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		GACATGTGGCCGGGTAAGGCC	0.632													5	65					0	0	0.000602	0	0		T	67692248	T	T	67692248	3	4	37	1	0	0	0	0	1	0	0	0	135	652	23	1	541	1	ACD	16	67692248	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	456338	67692248	22662505	767	33012											
CDH1	999	broad.mit.edu	37	chr16	68844099	68844099	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accctcacttggttctttcaGctcttctctcacgctgtgtc	4	16	6	15	1	6	0	3	0	3	0	8	0	6	0	1	1	1	3	1	1	0	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:68844099G>A	uc002ewg.1	+	6	812	c.688_splice	c.e6-1	p.L230_splice	CDH1_uc010vlj.1_Splice_Site|CDH1_uc010cfg.1_Splice_Site_p.L230_splice	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein						adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.?(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		GGTTCTTTCAGCTCTTCTCTC	0.527			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				21	205					0	0	0.005443	0	0		A	68844099	A	A	68844099	5	1	37	1	0	0	0	0	0	0	1	0	3098	985	34	2	709	2	CDH1	16	68844099	Splice_Site	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1151851	68844099	21510654	768	33013											
DDX19B	11269	broad.mit.edu	37	chr16	70351442	70351442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctatgccatgggtttcaatCgtccatccaagatacaagag	12	11	8	10	1	2	2	1	0	1	2	5	2	4	2	3	1	2	1	3	1	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:70351442C>T	uc002eyo.2	+	5	469	c.340C>T	c.(340-342)CGT>TGT	p.R114C	DDX19B_uc010vly.1_Missense_Mutation_p.R114C|DDX19A_uc002eys.2_Intron|DDX19B_uc010vlv.1_Intron|DDX19B_uc010vlw.1_Missense_Mutation_p.R5C|DDX19B_uc002eyp.2_Intron|DDX19B_uc002eyq.2_Missense_Mutation_p.R5C|DDX19B_uc002eyr.2_Intron|DDX19B_uc010vlx.1_Intron|uc002eyt.2_Intron	NM_007242	NP_009173	Q9UMR2	DD19B_HUMAN	DEAD (Asp-Glu-Ala-As) box polypeptide 19 isoform	114	Q motif.				mRNA export from nucleus|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			kidney(1)	1		Ovarian(137;0.0694)				GGGTTTCAATCGTCCATCCAA	0.398													13	75					0	0	0.00245	0	0		T	70351442	T	T	70351442	3	4	37	1	0	0	0	0	1	0	0	0	4350	884	31	1	358	1	DDX19B	16	70351442	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1507343	70351442	20003311	769	33014											
DDX19A	55308	broad.mit.edu	37	chr16	70384460	70384460	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttttatttctattcagAtgaccaatttgcagatcaag	11	18	5	7	0	4	3	2	1	2	2	4	3	4	3	1	0	1	1	1	0	4	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:70384460A>C	uc002eyv.2	+	2	129	c.58A>C	c.(58-60)ATG>CTG	p.M20L	DDX19B_uc010vly.1_Intron|DDX19A_uc002eys.2_Intron|DDX19A_uc010cfq.1_5'UTR|DDX19A_uc010cfr.2_5'UTR|DDX19A_uc010cfs.2_5'UTR|DDX19A_uc010vlz.1_Missense_Mutation_p.M20L	NM_018332	NP_060802	Q9NUU7	DD19A_HUMAN	DDX19-like protein	20					mRNA transport|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|RNA binding				0		Ovarian(137;0.221)				TTCTATTCAGATGACCAATTT	0.378													6	36					0	0	0.001168	0	0		C	70384460	C	C	70384460	3	2	37	1	0	0	0	0	1	0	0	0	4349	347	12	5	64	5	DDX19A	16	70384460	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	33018	70384460	19970293	770	33015											
COG4	25839	broad.mit.edu	37	chr16	70524291	70524291	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacttccacgttgttcagaGtcacctgggagatgaggaag	11	9	13	8	1	2	4	2	1	0	3	3	6	3	5	2	2	0	2	2	2	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:70524291G>T	uc002ezc.2	-	13	1663	c.1652C>A	c.(1651-1653)ACT>AAT	p.T551N	COG4_uc002eza.2_5'UTR|COG4_uc002ezb.2_Intron|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Intron|COG4_uc002eze.2_Missense_Mutation_p.T245N	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	547					Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)				GTTGTTCAGAGTCACCTGGGA	0.522													6	84					0.00198382	0.00205922	0.001984	1	0		T	70524291	T	T	70524291	3	4	37	1	0	0	0	0	1	0	0	0	3663	1029	36	5	745	5	COG4	16	70524291	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	139831	70524291	19830462	771	33016											
PHLPP2	23035	broad.mit.edu	37	chr16	71683682	71683682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcaaataaactaccatcGcccctacattgtcctgacag	13	11	4	13	1	1	1	1	1	0	0	3	1	2	1	4	0	3	0	4	0	6	6	rs148247641	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:71683682G>A	uc002fax.2	-	18	3089	c.3083C>T	c.(3082-3084)GCG>GTG	p.A1028V	PHLPP2_uc002fav.2_Intron|PHLPP2_uc010cgf.2_Missense_Mutation_p.A961V	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	1028	PP2C-like.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						AACTACCATCGCCCCTACATT	0.493													12	262					0	0	0.001855	0	0		A	71683682	A	A	71683682	3	1	37	1	0	0	0	0	1	0	0	0	11874	1087	38	1	892	1	PHLPP2	16	71683682	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1159391	71683682	18671071	772	33017											
DHX38	9785	broad.mit.edu	37	chr16	72138492	72138492	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccatcttccacatccctggCcgtaccttccctgttgacat	6	12	5	18	1	1	1	0	1	1	0	4	1	4	1	6	1	1	2	6	1	1	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:72138492C>T	uc002fcb.2	+	15	2473	c.2118C>T	c.(2116-2118)GGC>GGT	p.G706G	DHX38_uc010vmp.1_Intron	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	706					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				ACATCCCTGGCCGTACCTTCC	0.547													32	145					0	0	0.012213	0	0		T	72138492	T	T	72138492	2	4	37	1	0	0	0	0	0	0	0	1	4517	726	26	2		2	DHX38	16	72138492	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	454810	72138492	18216261	773	33018											
ZFHX3	463	broad.mit.edu	37	chr16	72991559	72991559	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtaacatcatgttatgcAtgtgcttctcactggtcatg	9	14	9	9	0	3	0	3	0	1	0	4	0	3	0	0	1	3	5	0	1	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:72991559A>G	uc002fck.2	-	2	3159	c.2486T>C	c.(2485-2487)ATG>ACG	p.M829T	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	829					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CATGTTATGCATGTGCTTCTC	0.562													44	145					0	0	0.01441	0	0		G	72991559	G	G	72991559	3	3	37	1	0	0	0	0	1	0	0	0	17659	217	8	3	8661	3	ZFHX3	16	72991559	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	853067	72991559	17363194	774	33019											
ZFHX3	463	broad.mit.edu	37	chr16	72993336	72993336	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccttgttgcttttgtgtcGcacgtcaaacacgcggaagc	8	12	10	11	4	1	0	1	0	0	0	3	1	2	1	1	1	3	3	1	1	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:72993336G>A	uc002fck.2	-	2	1382	c.709C>T	c.(709-711)CGA>TGA	p.R237*	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	237					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CTTTTGTGTCGCACGTCAAAC	0.552													13	152					0	0	0.013537	0	0		A	72993336	A	A	72993336	4	1	37	1	0	0	0	0	0	1	0	0	17659	1095	38	1	10438	1	ZFHX3	16	72993336	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1777	72993336	17361417	775	33020											
ADAMTS18	170692	broad.mit.edu	37	chr16	77387780	77387780	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actagacaccccgcctgaggTgtgctgtaatgacaatacat	12	9	9	11	1	0	3	0	2	0	1	0	3	0	3	3	1	2	2	3	1	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:77387780T>G	uc002ffc.3	-	10	1883	c.1464A>C	c.(1462-1464)ACA>ACC	p.T488T	ADAMTS18_uc010chc.1_Silent_p.T76T|ADAMTS18_uc002ffe.1_Silent_p.T184T	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	488	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						CCGCCTGAGGTGTGCTGTAAT	0.408													6	203					0	0	0.00308	0	0		G	77387780	G	G	77387780	2	3	37	1	0	0	0	0	0	0	0	1	263	1683	59	5		5	ADAMTS18	16	77387780	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	4394444	77387780	12966973	776	33021											
GAN	8139	broad.mit.edu	37	chr16	81398592	81398592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttcagatcggctgctatgCagctatgaaaaagaaaatct	14	11	8	8	1	2	3	1	1	1	2	3	3	2	3	0	1	3	4	0	1	6	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:81398592C>T	uc002fgo.2	+	8	1398	c.1250C>T	c.(1249-1251)GCA>GTA	p.A417V		NM_022041	NP_071324	Q9H2C0	GAN_HUMAN	gigaxonin	417	Kelch 3.				cell death	cytoplasm|neurofilament	protein binding			ovary(2)	2		Colorectal(91;0.153)				GGCTGCTATGCAGCTATGAAA	0.478													6	90					0	0	0.001168	0	0		T	81398592	T	T	81398592	3	4	37	1	0	0	0	0	1	0	0	0	6247	710	25	2	1280	2	GAN	16	81398592	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4010812	81398592	8956161	777	33022											
ZC3H18	124245	broad.mit.edu	37	chr16	88675419	88675419	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggacagtatgagaatttcaGggtgcagtatacagaaacag	15	8	12	6	1	1	2	1	1	0	2	1	4	1	3	0	2	3	3	0	2	5	4	rs116570026	by1000genomes	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:88675419G>T	uc002fky.2	+	7	1366	c.1166G>T	c.(1165-1167)AGG>ATG	p.R389M	ZC3H18_uc010voy.1_Missense_Mutation_p.R272M|ZC3H18_uc010voz.1_Missense_Mutation_p.R413M|ZC3H18_uc010chw.2_5'Flank	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	389						nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		GAGAATTTCAGGGTGCAGTAT	0.408													23	97					2.89027e-11	3.25884e-11	0.014323	1	0		T	88675419	T	T	88675419	3	4	37	1	0	0	0	0	1	0	0	0	17593	1000	35	5	1188	5	ZC3H18	16	88675419	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	7276827	88675419	1679334	778	33023											
ANKRD11	29123	broad.mit.edu	37	chr16	89349977	89349977	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggcccttcccaaagtcGccgtcggacttgtccttgaa	7	10	9	15	3	0	1	0	1	0	0	5	2	3	2	5	2	0	0	5	2	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:89349977G>A	uc002fmx.1	-	9	3434	c.2973C>T	c.(2971-2973)GGC>GGT	p.G991G	ANKRD11_uc002fmy.1_Silent_p.G991G|ANKRD11_uc002fnc.1_Silent_p.G991G|ANKRD11_uc002fnb.1_Silent_p.G948G	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	991	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TCCCAAAGTCGCCGTCGGACT	0.627													6	196					0	0	0.001168	0	0		A	89349977	A	A	89349977	2	1	37	1	0	0	0	0	0	0	0	1	639	1074	38	1		1	ANKRD11	16	89349977	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	674558	89349977	1004776	779	33024											
PRPF8	10594	broad.mit.edu	37	chr17	1576732	1576732	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaggcaggatgcggcactcGaagccacacatgttgaacag	12	7	12	10	2	0	1	0	1	0	0	1	3	0	2	1	3	3	3	1	3	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:1576732G>A	uc002fte.2	-	23	3690	c.3576C>T	c.(3574-3576)TTC>TTT	p.F1192F		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	1192						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		TGCGGCACTCGAAGCCACACA	0.572													18	68					0	0	0.006122	0	0		A	1576732	A	A	1576732	2	1	37	1	0	0	0	0	0	0	0	1	12597	1049	37	1		1	PRPF8	17	1576732	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08		1576732	79618478	780	33025											
RTN4RL1	146760	broad.mit.edu	37	chr17	1840671	1840671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagaggtactgcaggctgtGcaggccgccaaagacgccgg	9	5	16	11	3	0	2	0	0	0	2	0	2	0	2	3	4	3	5	3	4	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:1840671G>A	uc002ftp.2	-	2	464	c.445C>T	c.(445-447)CAC>TAC	p.H149Y		NM_178568	NP_848663	Q86UN2	R4RL1_HUMAN	reticulon 4 receptor-like 1 precursor	149					axon regeneration	anchored to plasma membrane	receptor activity				0						TGCAGGCTGTGCAGGCCGCCA	0.622													19	65					0	0	0.012319	0	0		A	1840671	A	A	1840671	3	1	37	1	0	0	0	0	1	0	0	0	13756	1319	46	2	884	2	RTN4RL1	17	1840671	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	263939	1840671	79354539	781	33026											
HIC1	3090	broad.mit.edu	37	chr17	1961289	1961289	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctctgagcagctgaacgcGcacgtggaggctcacgtgga	9	6	15	11	4	2	2	1	2	1	0	2	4	2	4	0	3	4	5	0	3	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:1961289G>A	uc010cjy.2	+	2	1362	c.1362G>A	c.(1360-1362)GCG>GCA	p.A454A	HIC1_uc002fty.3_Silent_p.A435A|HIC1_uc002ftz.3_Silent_p.A435A	NM_001098202	NP_001091672	Q14526	HIC1_HUMAN	hypermethylated in cancer 1 isoform 2	454	C2H2-type 1.				multicellular organismal development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)	1				READ - Rectum adenocarcinoma(1115;0.236)		AGCTGAACGCGCACGTGGAGG	0.692													4	20					0	0	0.009096	0	0		A	1961289	A	A	1961289	2	1	37	1	0	0	0	0	0	0	0	1	7117	1074	38	1		1	HIC1	17	1961289	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	120618	1961289	79233921	782	33027											
SGSM2	9905	broad.mit.edu	37	chr17	2282757	2282757	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	catcacgatgcccaggagatCctgcggattgcccgggacct	8	7	12	14	3	1	1	1	0	0	1	2	5	2	3	4	3	3	0	4	3	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:2282757C>G	uc002fun.3	+	23	3139	c.2964C>G	c.(2962-2964)ATC>ATG	p.I988M	SGSM2_uc002fum.3_Missense_Mutation_p.I1033M|SGSM2_uc010vqw.1_Intron|SGSM2_uc002fup.1_3'UTR|SGSM2_uc002fuq.2_Missense_Mutation_p.I150M	NM_001098509	NP_001091979	O43147	SGSM2_HUMAN	RUN and TBC1 domain containing 1 isoform 2	988						intracellular	Rab GTPase activator activity				0				Colorectal(2;5.15e-05)|READ - Rectum adenocarcinoma(2;0.000115)		CCCAGGAGATCCTGCGGATTG	0.617													16	40					0	0	0.004007	0	0		G	2282757	G	G	2282757	3	3	37	1	0	0	0	0	1	0	0	0	14248	845	30	5	3193	5	SGSM2	17	2282757	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	321468	2282757	78912453	783	33028											
GSG2	83903	broad.mit.edu	37	chr17	3629365	3629365	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggatgaggacctgtttacCggtgacggtgactaccagtt	9	11	13	8	2	0	3	0	3	0	0	0	5	0	5	3	4	2	2	3	4	2	4	rs146730005		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:3629365C>T	uc002fwp.2	+	1	2169	c.2136C>T	c.(2134-2136)ACC>ACT	p.T712T	ITGAE_uc002fwo.3_Intron|ITGAE_uc002fwn.3_5'Flank	NM_031965	NP_114171	Q8TF76	HASP_HUMAN	haspin	712	Protein kinase.				cell cycle|chromatin modification|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity				0						ACCTGTTTACCGGTGACGGTG	0.488													25	67					0	0	0.003954	0	0		T	3629365	T	T	3629365	2	4	37	1	0	0	0	0	0	0	0	1	6838	639	23	1		1	GSG2	17	3629365	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1346608	3629365	77565845	784	33029											
ZZEF1	23140	broad.mit.edu	37	chr17	3980228	3980228	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actatggtttttccactgtaCtgtgagaaaagggattccaa	12	13	9	7	0	0	1	0	1	0	1	2	3	2	2	2	2	1	2	2	2	5	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:3980228C>T	uc002fxe.2	-	20	3109	c.3045G>A	c.(3043-3045)CAG>CAA	p.Q1015Q	ZZEF1_uc002fxk.1_Silent_p.Q1016Q	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	1015							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TTCCACTGTACTGTGAGAAAA	0.363													10	51					0	0	0.013537	0	0		T	3980228	T	T	3980228	2	4	37	1	0	0	0	0	0	0	0	1	18280	564	20	4		4	ZZEF1	17	3980228	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	350863	3980228	77214982	785	33030											
ANKFY1	51479	broad.mit.edu	37	chr17	4139185	4139185	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaacctttatcttcagatcGctgatgaagaaaaagatcca	15	10	6	10	1	2	5	1	2	1	3	4	5	3	5	3	0	1	1	3	0	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:4139185G>A	uc002fxq.1	-	3	242	c.204C>T	c.(202-204)AGC>AGT	p.S68S	ANKFY1_uc002fxn.2_Silent_p.S110S|ANKFY1_uc002fxo.2_Silent_p.S68S|ANKFY1_uc002fxp.2_Silent_p.S68S|ANKFY1_uc010ckp.2_Intron|ANKFY1_uc002fxr.2_Silent_p.S68S|ANKFY1_uc010vrz.1_Silent_p.S68S	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	68	BTB.					endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						TCTTCAGATCGCTGATGAAGA	0.423													34	132					0	0	0.004289	0	0		A	4139185	A	A	4139185	2	1	37	1	0	0	0	0	0	0	0	1	626	1101	38	1		1	ANKFY1	17	4139185	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	158957	4139185	77056025	786	33031											
RNF167	26001	broad.mit.edu	37	chr17	4846555	4846555	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagggattgtgggactgctGgttttggccatgggagcagt	7	11	17	6	0	0	0	0	0	0	0	0	3	0	3	1	5	2	3	1	5	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:4846555G>T	uc002fzq.2	+	8	968	c.552G>T	c.(550-552)CTG>CTT	p.L184L	RNF167_uc002fzr.2_Silent_p.L184L|RNF167_uc002fzs.2_Silent_p.L184L|RNF167_uc002fzt.2_Silent_p.L184L|RNF167_uc002fzu.2_Silent_p.L184L|RNF167_uc002fzv.2_Silent_p.L149L|RNF167_uc002fzx.2_Silent_p.L149L|RNF167_uc002fzy.2_5'Flank	NM_015528	NP_056343	Q9H6Y7	RN167_HUMAN	ring finger protein 167 precursor	184	Helical; (Potential).				negative regulation of cell cycle|protein polyubiquitination	cytoplasm|endomembrane system|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						TGGGACTGCTGGTTTTGGCCA	0.547													12	48					2.27111e-07	2.48548e-07	0.013537	1	0		T	4846555	T	T	4846555	2	4	37	1	0	0	0	0	0	0	0	1	13483	1335	47	5		5	RNF167	17	4846555	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	707370	4846555	76348655	787	33032											
CAMTA2	23125	broad.mit.edu	37	chr17	4876222	4876222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagtcgggaatgctcagtGcctgtcggttccaacggaaa	10	8	14	9	3	1	1	1	0	0	1	4	4	2	3	2	3	3	2	2	3	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:4876222G>A	uc002gah.1	-	15	2453	c.2345C>T	c.(2344-2346)GCA>GTA	p.A782V	CAMTA2_uc010cku.1_Missense_Mutation_p.A805V|CAMTA2_uc002gag.1_Missense_Mutation_p.A781V|CAMTA2_uc002gai.1_Missense_Mutation_p.A784V|CAMTA2_uc010ckv.1_Missense_Mutation_p.A429V	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	782	ANK 2.				cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						AATGCTCAGTGCCTGTCGGTT	0.622													10	110					0	0	0.006214	0	0		A	4876222	A	A	4876222	3	1	37	1	0	0	0	0	1	0	0	0	2617	1319	46	2	1349	2	CAMTA2	17	4876222	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	29667	4876222	76318988	788	33033											
NLRP1	22861	broad.mit.edu	37	chr17	5437297	5437297	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctcagtaggggtcatcAcacttggtttcctggacaaa	9	10	11	11	0	3	0	3	0	0	0	4	1	4	1	2	5	0	2	2	5	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:5437297A>G	uc002gci.2	-	9	3527	c.2972T>C	c.(2971-2973)GTG>GCG	p.V991A	NLRP1_uc002gcg.1_Missense_Mutation_p.V991A|NLRP1_uc002gck.2_Missense_Mutation_p.V991A|NLRP1_uc002gcj.2_Missense_Mutation_p.V961A|NLRP1_uc002gcl.2_Missense_Mutation_p.V961A|NLRP1_uc002gch.3_Missense_Mutation_p.V991A|NLRP1_uc010clh.2_Missense_Mutation_p.V991A	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	991					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				AGGGGTCATCACACTTGGTTT	0.498													45	219					0	0	0.01441	0	0		G	5437297	G	G	5437297	3	3	37	1	0	0	0	0	1	0	0	0	10490	159	6	3	1560	3	NLRP1	17	5437297	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	561075	5437297	75757913	789	33034											
XAF1	54739	broad.mit.edu	37	chr17	6663872	6663872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatgcaccgcatgctcGcccagcacagagatgtctgt	9	9	9	14	2	3	1	2	0	1	1	4	2	3	1	2	0	3	4	2	0	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:6663872G>A	uc002gdn.2	+	4	615	c.373G>A	c.(373-375)GCC>ACC	p.A125T	XAF1_uc010clr.1_Missense_Mutation_p.A125T|XAF1_uc002gdm.1_Missense_Mutation_p.A65T|XAF1_uc002gdo.2_Missense_Mutation_p.A106T|XAF1_uc002gdp.2_Silent_p.S102S|XAF1_uc002gdq.2_Intron|XAF1_uc002gdr.2_Silent_p.S83S	NM_017523	NP_059993	Q6GPH4	XAF1_HUMAN	XIAP associated factor 1 isoform 1	125					apoptosis|type I interferon-mediated signaling pathway	mitochondrion|nucleus	zinc ion binding				0						CCGCATGCTCGCCCAGCACAG	0.592													5	40					0	0	0.001168	0	0		A	6663872	A	A	6663872	3	1	37	1	0	0	0	0	1	0	0	0	17445	1087	38	1	387	1	XAF1	17	6663872	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1226575	6663872	74531338	790	33035											
SLC16A11	162515	broad.mit.edu	37	chr17	6945994	6945994	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggccccgttgccggtgagCgccagccccaccgccaagac	7	3	13	18	4	0	2	0	1	0	1	0	3	0	2	8	2	3	1	8	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:6945994C>T	uc002gei.1	-	3	845	c.507G>A	c.(505-507)GCG>GCA	p.A169A		NM_153357	NP_699188	Q8NCK7	MOT11_HUMAN	solute carrier family 16, member 11	169	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(1)	1						TGCCGGTGAGCGCCAGCCCCA	0.682													5	5					0	0	0.001168	0	0		T	6945994	T	T	6945994	2	4	37	1	0	0	0	0	0	0	0	1	14429	755	27	1		1	SLC16A11	17	6945994	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	282122	6945994	74249216	791	33036											
SLC2A4	6517	broad.mit.edu	37	chr17	7186847	7186847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggcaggggcctgagggacCcagctccatccctccaggca	8	4	14	15	0	0	1	0	1	0	0	3	3	3	2	5	5	1	3	5	5	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7186847C>T	uc002gfp.2	+	3	406	c.206C>T	c.(205-207)CCC>CTC	p.P69L	SLC2A4_uc002gfo.2_Missense_Mutation_p.P69L|SLC2A4_uc010cmd.2_RNA	NM_001042	NP_001033	P14672	GTR4_HUMAN	glucose transporter 4	69	Extracellular (Potential).				carbohydrate metabolic process|glucose homeostasis|glucose import	external side of plasma membrane|integral to plasma membrane|perinuclear region of cytoplasm	D-glucose transmembrane transporter activity|protein binding				0						CCTGAGGGACCCAGCTCCATC	0.602													19	122					0	0	0.006122	0	0		T	7186847	T	T	7186847	3	4	37	1	0	0	0	0	1	0	0	0	14571	623	22	4	216	4	SLC2A4	17	7186847	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	240853	7186847	74008363	792	33037											
SLC2A4	6517	broad.mit.edu	37	chr17	7189779	7189779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctacgtcttccttctatttgCggtcctcctgctgggcttct	2	17	8	14	2	3	0	0	0	3	0	6	0	6	0	3	2	3	2	3	2	2	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7189779C>T	uc002gfp.2	+	11	1561	c.1361C>T	c.(1360-1362)GCG>GTG	p.A454V	SLC2A4_uc010cmd.2_RNA	NM_001042	NP_001033	P14672	GTR4_HUMAN	glucose transporter 4	454	Helical; Name=12; (Potential).				carbohydrate metabolic process|glucose homeostasis|glucose import	external side of plasma membrane|integral to plasma membrane|perinuclear region of cytoplasm	D-glucose transmembrane transporter activity|protein binding				0						CTTCTATTTGCGGTCCTCCTG	0.562													10	495					0	0	0.008291	0	0		T	7189779	T	T	7189779	3	4	37	1	0	0	0	0	1	0	0	0	14571	768	27	1	1403	1	SLC2A4	17	7189779	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2932	7189779	74005431	793	33038											
NEURL4	84461	broad.mit.edu	37	chr17	7221114	7221114	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccatatgtacctgaggtTgaacctgcaccagccaaagg	11	8	10	12	0	0	2	0	2	0	0	0	2	0	2	5	2	5	3	5	2	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7221114T>C	uc002gga.1	-	26	4205	c.4198A>G	c.(4198-4200)AAC>GAC	p.N1400D	GPS2_uc002gfv.1_5'Flank|GPS2_uc002gfw.1_5'Flank|GPS2_uc002gfx.1_5'Flank|NEURL4_uc002gfy.1_RNA|GPS2_uc002gfz.1_5'UTR|NEURL4_uc002ggb.1_Missense_Mutation_p.N1398D	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	1400							protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						TACCTGAGGTTGAACCTGCAC	0.567													5	61					0	0	0.001168	0	0		C	7221114	C	C	7221114	3	2	37	1	0	0	0	0	1	0	0	0	10366	1812	63	3	506	3	NEURL4	17	7221114	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	31335	7221114	73974096	794	33039											
KCTD11	147040	broad.mit.edu	37	chr17	7256534	7256534	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacagctgccctgctccaCgcagatgtagatgtcagccc	8	7	9	17	1	1	2	1	0	0	2	2	2	2	2	4	0	4	4	4	0	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7256534C>T	uc002gge.3	+	1	1327	c.273C>T	c.(271-273)CAC>CAT	p.H91H	TMEM95_uc002ggf.1_5'Flank|TMEM95_uc002ggg.1_5'Flank|TMEM95_uc002ggh.1_5'Flank	NM_001002914	NP_001002914	Q693B1	KCD11_HUMAN	potassium channel tetramerisation domain	91					cell cycle|regulation of growth	voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		Prostate(122;0.157)				CCCTGCTCCACGCAGATGTAG	0.662													15	57					0	0	0.00245	0	0		T	7256534	T	T	7256534	2	4	37	1	0	0	0	0	0	0	0	1	8114	535	19	1		1	KCTD11	17	7256534	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	35420	7256534	73938676	795	33040											
ZBTB4	57659	broad.mit.edu	37	chr17	7366640	7366640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggcccttggcctcctccGtggtggtggccatggctggc	1	10	15	15	2	0	0	0	0	0	0	3	0	3	0	6	7	0	1	6	7	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7366640G>A	uc002ghc.3	-	4	1911	c.1661C>T	c.(1660-1662)ACG>ATG	p.T554M	ZBTB4_uc002ghd.3_Missense_Mutation_p.T554M	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	554					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		GGCCTCCTCCGTGGTGGTGGC	0.682													4	21					0	0	0.000602	0	0		A	7366640	A	A	7366640	3	1	37	1	0	0	0	0	1	0	0	0	17566	1145	40	1	1384	1	ZBTB4	17	7366640	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	110106	7366640	73828570	796	33041											
ZBTB4	57659	broad.mit.edu	37	chr17	7369845	7369845	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagaagaggaagaagaCgaggaagaggaggaggagga	19	0	21	1	1	0	5	0	0	0	5	0	14	0	12	0	7	0	0	0	7	5	0	rs145401608		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7369845C>T	uc002ghc.3	-	3	526	c.276G>A	c.(274-276)TCG>TCA	p.S92S	ZBTB4_uc002ghd.3_Silent_p.S92S	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	92	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		aggaagaagacgaggaagagg	0.418													10	21					0	0	0.010729	0	0		T	7369845	T	T	7369845	2	4	37	1	0	0	0	0	0	0	0	1	17566	523	19	1		1	ZBTB4	17	7369845	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3205	7369845	73825365	797	33042											
TNFSF12-TNFSF13	407977	broad.mit.edu	37	chr17	7463187	7463187	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcactctgtcctgcacctggTtcccattaacgccacctcca	7	10	6	18	1	1	0	0	0	1	0	4	0	4	0	6	1	2	3	6	1	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7463187T>C	uc002ghi.1	+	8	657	c.602T>C	c.(601-603)GTT>GCT	p.V201A	SENP3_uc002ghm.2_5'Flank|TNFSF13_uc002ghj.2_Missense_Mutation_p.V121A|TNFSF13_uc002ghk.2_Missense_Mutation_p.V121A|TNFSF13_uc002ghl.2_Intron|TNFSF13_uc010cmk.2_Missense_Mutation_p.V94A|TNFSF13_uc010vua.1_Missense_Mutation_p.V93A	NM_172089	NP_742086	Q8IZK7	Q8IZK7_HUMAN	TNFSF12-TNFSF13 protein	201					immune response	extracellular space|membrane	cytokine activity|tumor necrosis factor receptor binding				0		Prostate(122;0.157)				CTGCACCTGGTTCCCATTAAC	0.567											OREG0024138	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	94					0	0	0.00278	0	0		C	7463187	C	C	7463187	3	2	37	1	0	0	0	0	1	0	0	0	16329	1725	60	3	632	3	TNFSF12-TNFSF13	17	7463187	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	93342	7463187	73732023	798	33043											
STX8	9482	broad.mit.edu	37	chr17	9395197	9395197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgccccatttgtttttggcGacttatgatagaggaaaggg	9	13	12	7	1	0	2	0	1	0	1	0	4	0	3	2	3	1	1	2	3	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:9395197G>A	uc002glx.2	-	6	640	c.490C>T	c.(490-492)CGC>TGC	p.R164C		NM_004853	NP_004844	Q9UNK0	STX8_HUMAN	syntaxin 8	164	t-SNARE coiled-coil homology.|Cytoplasmic (Potential).				transport	endoplasmic reticulum|integral to plasma membrane				central_nervous_system(1)	1						TGTTTTTGGCGACTTATGATA	0.363													7	165					0	0	0.00308	0	0		A	9395197	A	A	9395197	3	1	37	1	0	0	0	0	1	0	0	0	15376	1058	37	1	232	1	STX8	17	9395197	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1932010	9395197	71800013	799	33044											
MYH8	4626	broad.mit.edu	37	chr17	10304654	10304654	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttgactttgtcctcctCtgcctgcaggtcatccaggg	5	13	11	12	0	2	1	1	1	1	0	5	2	5	1	4	2	2	2	4	2	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:10304654C>A	uc002gmm.2	-	24	3141	c.3046G>T	c.(3046-3048)GAG>TAG	p.E1016*	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1016	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TTGTCCTCCTCTGCCTGCAGG	0.453									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				48	159					1.07234e-20	1.24449e-20	0.01441	1	0		A	10304654	A	A	10304654	4	1	37	1	0	0	0	0	0	1	0	0	10059	922	32	5	2835	5	MYH8	17	10304654	Nonsense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	909457	10304654	70890556	800	33045											
MYH1	4619	broad.mit.edu	37	chr17	10399358	10399358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctgttccagagtggccCgcagctcctcgatctcagcc	5	10	10	16	2	2	1	1	0	2	1	6	2	4	1	4	1	2	3	4	1	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:10399358C>T	uc002gmo.2	-	35	5172	c.5078G>A	c.(5077-5079)CGG>CAG	p.R1693Q	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1693	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CAGAGTGGCCCGCAGCTCCTC	0.597													18	84					0	0	0.006122	0	0		T	10399358	T	T	10399358	3	4	37	1	0	0	0	0	1	0	0	0	10047	652	23	1	765	1	MYH1	17	10399358	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	94704	10399358	70795852	801	33046											
RICH2	9912	broad.mit.edu	37	chr17	12847420	12847420	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagccttccttcgggaagccGctggaggagcacctcaccat	9	7	11	14	2	1	0	1	0	0	0	3	3	2	3	5	3	3	2	5	3	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:12847420G>A	uc002gnr.3	+	10	1095	c.768G>A	c.(766-768)CCG>CCA	p.P256P	RICH2_uc010vvk.1_Silent_p.P256P|RICH2_uc010vvl.1_Silent_p.P256P|RICH2_uc002gns.3_Silent_p.P56P|RICH2_uc010vvm.1_Silent_p.P256P|RICH2_uc010vvn.1_RNA|RICH2_uc002gnt.1_5'UTR	NM_014859	NP_055674	Q17R89	RHG44_HUMAN	Rho GTPase-activating protein RICH2	256	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						TCGGGAAGCCGCTGGAGGAGC	0.597													14	38					0	0	0.001855	0	0		A	12847420	A	A	12847420	2	1	37	1	0	0	0	0	0	0	0	1	13382	1074	38	1		1	RICH2	17	12847420	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2448062	12847420	68347790	802	33047											
ZNF287	57336	broad.mit.edu	37	chr17	16455348	16455348	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacattcattacatttatagGgtctctctccagtatgagtt	10	16	6	9	0	3	1	1	1	2	0	5	1	3	1	1	1	1	2	1	1	4	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:16455348G>T	uc002gqi.2	-	6	2561	c.2108C>A	c.(2107-2109)CCC>CAC	p.P703H		NM_020653	NP_065704	Q9HBT7	ZN287_HUMAN	zinc finger protein 287	696					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.083)		ACATTTATAGGGTCTCTCTCC	0.368													11	83					1.58986e-06	1.72457e-06	0.008291	1	0		T	16455348	T	T	16455348	3	4	37	1	0	0	0	0	1	0	0	0	17850	1232	43	5	181	5	ZNF287	17	16455348	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3607928	16455348	64739862	803	33048											
MPRIP	23164	broad.mit.edu	37	chr17	17030083	17030083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtggtggatggggagggccGcacgggccagaagttctccc	6	7	18	10	2	1	1	0	0	1	1	2	3	1	3	3	6	0	2	3	6	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:17030083G>A	uc002gqu.1	+	4	391	c.335G>A	c.(334-336)CGC>CAC	p.R112H	MPRIP_uc002gqv.1_Missense_Mutation_p.R112H	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	112	Interaction with F-actin (By similarity).|PH 1.					cytoplasm|cytoskeleton	actin binding				0						GGGGAGGGCCGCACGGGCCAG	0.597													5	70					0	0	0.000602	0	0		A	17030083	A	A	17030083	3	1	37	1	0	0	0	0	1	0	0	0	9761	1087	38	1	349	1	MPRIP	17	17030083	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	574735	17030083	64165127	804	33049											
MPRIP	23164	broad.mit.edu	37	chr17	17053492	17053492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaaattgacttgtccgCatgttacgatgtcacagagt	11	12	11	7	2	1	3	1	1	0	2	2	5	2	3	1	1	1	2	1	1	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:17053492C>T	uc002gqu.1	+	12	1366	c.1310C>T	c.(1309-1311)GCA>GTA	p.A437V	MPRIP_uc002gqv.1_Missense_Mutation_p.A437V|MPRIP_uc002gqw.1_Missense_Mutation_p.A192V	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	437	PH 2.					cytoplasm|cytoskeleton	actin binding				0						GACTTGTCCGCATGTTACGAT	0.488													8	165					0	0	0.004482	0	0		T	17053492	T	T	17053492	3	4	37	1	0	0	0	0	1	0	0	0	9761	710	25	2	1356	2	MPRIP	17	17053492	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	23409	17053492	64141718	805	33050											
MYO15A	51168	broad.mit.edu	37	chr17	18058523	18058523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggaggtctacttctcccGcatcttccccgccacggtgc	4	10	10	17	3	3	0	0	0	3	0	5	1	4	1	4	3	2	1	4	3	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:18058523G>A	uc010vxh.1	+	45	8662	c.8324G>A	c.(8323-8325)CGC>CAC	p.R2775H	MYO15A_uc010vxi.1_Missense_Mutation_p.R39H|MYO15A_uc010vxj.1_5'UTR|MYO15A_uc010vxk.1_Intron|MYO15A_uc010vxl.1_5'Flank	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	2775	Tail.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					TACTTCTCCCGCATCTTCCCC	0.612													3	38					0	0	0.004672	0	0		A	18058523	A	A	18058523	3	1	37	1	0	0	0	0	1	0	0	0	10081	1087	38	1	8498	1	MYO15A	17	18058523	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1005031	18058523	63136687	806	33051											
CCDC144B	284047	broad.mit.edu	37	chr17	18486027	18486027	+	RNA	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttttgtttacttgtcagaAtctgatcttgtaatattctg	8	20	6	7	0	4	2	1	1	3	1	4	2	4	2	1	0	1	2	1	0	4	9			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:18486027A>T	uc002gua.3	-	11		c.2446T>A								Homo sapiens cDNA FLJ36492 fis, clone THYMU2018455.											ovary(1)|skin(1)	2						ACTTGTCAGAATCTGATCTTG	0.343													8	54					0	0	0.00308	0	0		T	18486027	T	T	18486027	1	4	37	0	1	0	0	0	0	0	0	0	2781	116	4	5		5	CCDC144B	17	18486027	RNA	SNP	A	TCGA-BR-6566-01A-11D-1800-08	427504	18486027	62709183	807	33052											
EPN2	22905	broad.mit.edu	37	chr17	19232061	19232061	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccattgacccatggggggtGcccactggagccaccgtaca	8	7	12	14	1	0	1	0	1	0	0	1	2	1	2	5	4	3	1	5	4	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:19232061G>A	uc002gvd.3	+	8	1633	c.1185G>A	c.(1183-1185)GTG>GTA	p.V395V	EPN2_uc010cql.1_Silent_p.V104V|EPN2_uc002gve.3_Silent_p.V338V|EPN2_uc002gvf.3_Silent_p.V110V|EPN2_uc010vyo.1_Silent_p.V103V|EPN2_uc010vyp.1_Silent_p.V331V|EPN2_uc010vyq.1_Silent_p.V332V|EPN2_uc002gvh.1_Silent_p.V395V|EPN2_uc002gvj.3_Silent_p.V58V	NM_014964	NP_055779	O95208	EPN2_HUMAN	epsin 2 isoform b	395	6 X 3 AA repeats of [DE]-P-W.				endocytosis		lipid binding			skin(1)	1	all_cancers(12;3.11e-05)|all_epithelial(12;0.00121)|Hepatocellular(7;0.00345)|Breast(13;0.143)					CATGGGGGGTGCCCACTGGAG	0.612													6	100					0	0	0.001168	0	0		A	19232061	A	A	19232061	2	1	37	1	0	0	0	0	0	0	0	1	5194	1306	46	2		2	EPN2	17	19232061	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	746034	19232061	61963149	808	33053											
TMEM11	8834	broad.mit.edu	37	chr17	21101784	21101784	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtgtgcagaggcaggcgCgacagtttataggcgtcgta	9	9	16	7	4	0	1	0	0	0	1	1	2	0	1	0	3	1	4	0	3	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:21101784C>T	uc002gyp.2	-	2	875	c.432G>A	c.(430-432)TCG>TCA	p.S144S	TMEM11_uc002gyq.2_3'UTR	NM_003876	NP_003867	P17152	TMM11_HUMAN	transmembrane protein 11	144					mitochondrion organization	integral to mitochondrial inner membrane|integral to plasma membrane	protein binding				0						GAGGCAGGCGCGACAGTTTAT	0.597													29	111					0	0	0.009535	0	0		T	21101784	T	T	21101784	2	4	37	1	0	0	0	0	0	0	0	1	16051	755	27	1		1	TMEM11	17	21101784	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1869723	21101784	60093426	809	33054											
MAP2K3	5606	broad.mit.edu	37	chr17	21207775	21207775	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtccttatcaacaaggagggCcatgtgaagatgtgtgactt	11	11	12	7	0	1	3	1	2	0	1	2	4	2	4	2	2	1	0	2	2	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:21207775C>T	uc002gys.2	+	8	871	c.606C>T	c.(604-606)GGC>GGT	p.G202G	MAP2K3_uc002gyt.2_Silent_p.G173G|MAP2K3_uc002gyu.2_Silent_p.G173G	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	202	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		ACAAGGAGGGCCATGTGAAGA	0.577													10	71					0	0	0.006214	0	0		T	21207775	T	T	21207775	2	4	37	1	0	0	0	0	0	0	0	1	9256	726	26	2		2	MAP2K3	17	21207775	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	105991	21207775	59987435	810	33055											
NOS2	4843	broad.mit.edu	37	chr17	26105983	26105983	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccatgtaccagccattgaaGgggcaccctgggaactccag	10	6	11	14	0	0	1	0	1	0	0	1	2	1	2	5	3	3	2	5	3	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:26105983G>T	uc002gzu.2	-	10	1368	c.1104C>A	c.(1102-1104)CCC>CCA	p.P368P	NOS2_uc010crh.1_Silent_p.P368P|NOS2_uc010wab.1_Silent_p.P368P	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	368					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	AGCCATTGAAGGGGCACCCTG	0.607													27	93					1.5548e-18	1.7976e-18	0.005443	1	0		T	26105983	T	T	26105983	2	4	37	1	0	0	0	0	0	0	0	1	10562	987	35	5		5	NOS2	17	26105983	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4898208	26105983	55089227	811	33056											
NOS2	4843	broad.mit.edu	37	chr17	26107891	26107891	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaccagggggaccacatcGaagcggccgtacttgggctt	9	6	15	11	3	0	0	0	0	0	0	1	3	0	2	3	5	2	2	3	5	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:26107891G>A	uc002gzu.2	-	9	1170	c.906C>T	c.(904-906)TTC>TTT	p.F302F	NOS2_uc010crh.1_Silent_p.F302F|NOS2_uc010wab.1_Silent_p.F302F	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	302					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GGACCACATCGAAGCGGCCGT	0.622													19	50					0	0	0.007413	0	0		A	26107891	A	A	26107891	2	1	37	1	0	0	0	0	0	0	0	1	10562	1049	37	1		1	NOS2	17	26107891	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1908	26107891	55087319	812	33057											
NOS2	4843	broad.mit.edu	37	chr17	26108173	26108173	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaagtcgtgcttgccatcActccgctgggggaacacggt	7	8	14	12	4	1	0	1	0	0	0	3	2	2	2	2	4	3	2	2	4	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:26108173A>G	uc002gzu.2	-	8	1017	c.753T>C	c.(751-753)AGT>AGC	p.S251S	NOS2_uc010crh.1_Silent_p.S251S|NOS2_uc010wab.1_Silent_p.S251S	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	251					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GCTTGCCATCACTCCGCTGGG	0.622													7	86					0	0	0.001984	0	0		G	26108173	G	G	26108173	2	3	37	1	0	0	0	0	0	0	0	1	10562	156	6	3		3	NOS2	17	26108173	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	282	26108173	55087037	813	33058											
SLC13A2	9058	broad.mit.edu	37	chr17	26820707	26820707	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgcagaaaaggccatcAgcatcctattcgtcatcctg	10	11	7	13	1	2	1	2	0	0	1	5	1	4	1	4	1	2	2	4	1	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:26820707A>C	uc002hbh.2	+	7	1064	c.997A>C	c.(997-999)AGC>CGC	p.S333R	SLC13A2_uc010wal.1_Missense_Mutation_p.S290R|SLC13A2_uc010wam.1_Missense_Mutation_p.S289R|SLC13A2_uc010wan.1_Missense_Mutation_p.S382R|SLC13A2_uc010wao.1_Missense_Mutation_p.S290R|SLC13A2_uc002hbi.2_Missense_Mutation_p.S262R	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	333	Helical; (Potential).					integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	AAAGGCCATCAGCATCCTATT	0.572													8	97					0	0	0.00308	0	0		C	26820707	C	C	26820707	3	2	37	1	0	0	0	0	1	0	0	0	14417	188	7	5	1170	5	SLC13A2	17	26820707	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	712534	26820707	54374503	814	33059											
TRAF4	9618	broad.mit.edu	37	chr17	27071132	27071132	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccggccgctcgcccgccaTgcctggcttcgactacaagt	5	8	11	17	5	0	0	0	0	0	0	2	1	0	0	5	2	3	2	5	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:27071132T>C	uc002hcs.2	+	1	110	c.2T>C	c.(1-3)ATG>ACG	p.M1T	TRAF4_uc002hcq.1_Missense_Mutation_p.M1T	NM_004295	NP_004286	Q9BUZ4	TRAF4_HUMAN	TNF receptor-associated factor 4	1					apoptosis|positive regulation of JNK cascade|positive regulation of protein homodimerization activity|positive regulation of protein kinase activity|regulation of apoptosis|signal transduction	cytoskeleton|nucleus|perinuclear region of cytoplasm|tight junction	DNA binding|ubiquitin-protein ligase activity|WW domain binding|zinc ion binding			upper_aerodigestive_tract(1)|lung(1)	2	Lung NSC(42;0.01)		Epithelial(11;3.26e-05)|all cancers(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.235)			TCGCCCGCCATGCCTGGCTTC	0.751													6	20					0	0	0.001168	0	0		C	27071132	C	C	27071132	3	2	37	1	0	0	0	0	1	0	0	0	16469	1464	51	3	4	3	TRAF4	17	27071132	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	250425	27071132	54124078	815	33060											
CRYBA1	1411	broad.mit.edu	37	chr17	27579207	27579207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcgtctcatgtccttccGccccatctgttcagctgtga	5	13	9	14	2	3	2	2	2	2	0	6	2	5	2	4	0	2	2	4	0	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:27579207G>A	uc002hdw.2	+	4	348	c.341G>A	c.(340-342)CGC>CAC	p.R114H		NM_005208	NP_005199	P05813	CRBA1_HUMAN	crystallin, beta A3	114	Beta/gamma crystallin 'Greek key' 2.				visual perception	soluble fraction	structural constituent of eye lens				0			BRCA - Breast invasive adenocarcinoma(11;3.3e-05)|Colorectal(6;0.0178)|COAD - Colon adenocarcinoma(6;0.0551)			ATGTCCTTCCGCCCCATCTGT	0.507											OREG0024293	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	50					0	0	0.001855	0	0		A	27579207	A	A	27579207	3	1	37	1	0	0	0	0	1	0	0	0	3910	1087	38	1	355	1	CRYBA1	17	27579207	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	508075	27579207	53616003	816	33061											
AATF	26574	broad.mit.edu	37	chr17	35306443	35306443	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acgatggcggggccgcagccCctggcgctgcaactggaaca	8	4	15	14	4	0	0	0	0	0	0	0	2	0	1	3	5	4	3	3	5	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:35306443C>A	uc002hni.2	+	1	269	c.18C>A	c.(16-18)CCC>CCA	p.P6P	AATF_uc002hnj.2_RNA	NM_012138	NP_036270	Q9NY61	AATF_HUMAN	apoptosis antagonizing transcription factor	6					anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of superoxide anion generation|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to DNA damage stimulus	centrosome|focal adhesion|nucleolus	leucine zipper domain binding|sequence-specific DNA binding transcription factor activity				0		Breast(25;0.00607)				GGCCGCAGCCCCTGGCGCTGC	0.697													4	8					1.23904e-05	1.32531e-05	0.000602	1	0		A	35306443	A	A	35306443	2	1	37	1	0	0	0	0	0	0	0	1	25	610	22	5		5	AATF	17	35306443	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	7727236	35306443	45888767	817	33062											
SYNRG	11276	broad.mit.edu	37	chr17	35921614	35921614	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaggacttgtcagctgcaAttcctttaaacacagcatat	13	11	7	10	0	1	1	1	0	0	1	2	2	2	2	1	1	4	3	1	1	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:35921614A>C	uc002hoa.2	-	12	1642	c.1559T>G	c.(1558-1560)ATT>AGT	p.I520S	SYNRG_uc010wde.1_Missense_Mutation_p.I442S|SYNRG_uc010wdf.1_Missense_Mutation_p.I442S|SYNRG_uc002hoc.2_Missense_Mutation_p.I441S|SYNRG_uc002hoe.2_Missense_Mutation_p.I442S|SYNRG_uc002hod.2_Missense_Mutation_p.I442S|SYNRG_uc010wdg.1_Missense_Mutation_p.I359S|SYNRG_uc002hob.2_Missense_Mutation_p.I520S|SYNRG_uc002hof.2_Missense_Mutation_p.I232S|SYNRG_uc010cvd.1_Missense_Mutation_p.I320S	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	520	Interaction with A1P1G1 and A1P1G2.				endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						GTCAGCTGCAATTCCTTTAAA	0.353													13	34					0	0	0.013537	0	0		C	35921614	C	C	35921614	3	2	37	1	0	0	0	0	1	0	0	0	15485	101	4	5	2502	5	SYNRG	17	35921614	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	615171	35921614	45273596	818	33063											
PCGF2	7703	broad.mit.edu	37	chr17	36895090	36895090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctccaagacctcgccgCggtcctcattggagccgttg	5	9	11	16	4	1	1	1	0	0	1	4	2	3	2	6	2	2	2	6	2	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:36895090C>T	uc002hqp.1	-	7	584	c.341G>A	c.(340-342)CGC>CAC	p.R114H	PCGF2_uc002hqn.1_Missense_Mutation_p.R114H|PCGF2_uc002hqo.1_Missense_Mutation_p.R114H|PCGF2_uc010cvo.1_5'UTR|PCGF2_uc002hqq.1_Missense_Mutation_p.R114H	NM_007144	NP_009075	P35227	PCGF2_HUMAN	ring finger protein 110	114					negative regulation of transcription from RNA polymerase II promoter	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2	Breast(7;9.07e-22)					GACCTCGCCGCGGTCCTCATT	0.587													15	54					0	0	0.00499	0	0		T	36895090	T	T	36895090	3	4	37	1	0	0	0	0	1	0	0	0	11594	768	27	1	713	1	PCGF2	17	36895090	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	973476	36895090	44300120	819	33064											
CDK12	51755	broad.mit.edu	37	chr17	37650838	37650838	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagggcttcccaatcacAgccattcgtgaaatcaaaat	16	8	7	10	1	2	2	2	1	0	1	4	2	3	2	2	1	1	1	2	1	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:37650838A>G	uc010cvv.2	+	5	2896	c.2310A>G	c.(2308-2310)ACA>ACG	p.T770T	CDK12_uc010wef.1_Silent_p.T769T|CDK12_uc002hrw.3_Silent_p.T770T	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	770	Protein kinase.				mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						TCCCAATCACAGCCATTCGTG	0.269										TCGA Ovarian(9;0.13)			7	21					0	0	0.001984	0	0		G	37650838	G	G	37650838	2	3	37	1	0	0	0	0	0	0	0	1	3131	175	7	3		3	CDK12	17	37650838	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	755748	37650838	43544372	820	33065											
ERBB2	2064	broad.mit.edu	37	chr17	37881000	37881000	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcatacgtgatggctggtGtgggctccccatatgtctcc	7	11	12	11	1	1	1	0	1	1	0	3	1	2	1	3	3	2	3	3	3	3	2	rs121913471		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:37881000G>A	uc002hso.2	+	20	2567	c.2329G>A	c.(2329-2331)GTG>ATG	p.V777M	ERBB2_uc002hsm.2_Missense_Mutation_p.V747M|ERBB2_uc010cwa.2_Missense_Mutation_p.V762M|ERBB2_uc002hsp.2_Missense_Mutation_p.V580M|ERBB2_uc010cwb.2_Missense_Mutation_p.V777M|ERBB2_uc010wek.1_Missense_Mutation_p.V501M	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	777	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V777L(5)|p.V777A(2)|p.V777M(1)		lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	GATGGCTGGTGTGGGCTCCCC	0.577		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			19	63					0	0	0.008871	0	0		A	37881000	A	A	37881000	3	1	37	1	0	0	0	0	1	0	0	0	5214	1377	48	4	2407	4	ERBB2	17	37881000	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	230162	37881000	43314210	821	33066											
SMARCE1	6605	broad.mit.edu	37	chr17	38792295	38792295	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgcacgactttttgcattTatgtaagcaaggtacgcggg	9	13	11	8	3	1	0	0	0	1	0	1	1	1	0	0	2	4	5	0	2	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:38792295T>C	uc002hux.2	-	7	553	c.429A>G	c.(427-429)ATA>ATG	p.I143M	SMARCE1_uc010wff.1_Missense_Mutation_p.I108M|SMARCE1_uc010wfg.1_Missense_Mutation_p.I73M|SMARCE1_uc002huy.2_Missense_Mutation_p.I108M|SMARCE1_uc010wfh.1_Missense_Mutation_p.I73M|SMARCE1_uc010wfi.1_Missense_Mutation_p.I125M|SMARCE1_uc002huz.1_Missense_Mutation_p.I108M|SMARCE1_uc010wfj.1_Missense_Mutation_p.I125M	NM_003079	NP_003070	Q969G3	SMCE1_HUMAN	SWI/SNF-related matrix-associated	143					chromatin modification|negative regulation of transcription, DNA-dependent|nervous system development|nucleosome disassembly|regulation of transcription from RNA polymerase II promoter	nBAF complex|npBAF complex|nuclear chromosome|SWI/SNF complex|transcriptional repressor complex	chromatin binding|DNA binding|N-acetyltransferase activity|protein binding|protein N-terminus binding|transcription coactivator activity				0		Breast(137;0.000812)				TTTTTGCATTTATGTAAGCAA	0.383													19	114					0	0	0.008871	0	0		C	38792295	C	C	38792295	3	2	37	1	0	0	0	0	1	0	0	0	14805	1744	61	3	826	3	SMARCE1	17	38792295	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	911295	38792295	42402915	822	33067											
KRT39	390792	broad.mit.edu	37	chr17	39116718	39116718	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaggccgtgtagcgagcCtctgtctccgttaggatgca	8	9	13	11	3	2	0	0	0	2	0	3	2	2	1	3	2	4	4	3	2	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:39116718C>T	uc002hvo.1	-	6	1068	c.1032G>A	c.(1030-1032)GAG>GAA	p.E344E	KRT39_uc010wfm.1_Silent_p.E77E	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	344	Coil 2.|Rod.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				TGTAGCGAGCCTCTGTCTCCG	0.512													14	217					0	0	0.003163	0	0		T	39116718	T	T	39116718	2	4	37	1	0	0	0	0	0	0	0	1	8492	680	24	4		4	KRT39	17	39116718	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	324423	39116718	42078492	823	33068											
KRTAP4-4	84616	broad.mit.edu	37	chr17	39316761	39316761	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacacacagcagctggggtgGcagcaggtggtcctgcagca	9	5	16	11	0	0	0	0	0	0	0	1	1	1	0	1	5	5	6	1	5	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:39316761G>A	uc002hwc.2	-	1	223	c.183C>T	c.(181-183)TGC>TGT	p.C61C		NM_032524	NP_115913	Q9BYR3	KRA44_HUMAN	keratin associated protein 4.4	61	9.|26 X 5 AA repeats of C-C-[GRQVCH]-[SPT]- [VSTQR].		Missing (in allele KAP4.13).|Missing (in allele KAP4.4-v1).			keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			AGCTGGGGTGGCAGCAGGTGG	0.662													6	127					0	0	0.001168	0	0		A	39316761	A	A	39316761	2	1	37	1	0	0	0	0	0	0	0	1	8569	1195	42	2		2	KRTAP4-4	17	39316761	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	200043	39316761	41878449	824	33069											
KRTAP9-9	81870	broad.mit.edu	37	chr17	39412120	39412120	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagcccacctgtgtgtcCagctgctgccagccttcttg	4	12	9	16	0	1	0	0	0	1	0	3	0	3	0	6	0	5	2	6	0	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:39412120C>T	uc010wfq.1	+	3	440	c.438C>T	c.(436-438)TCC>TCT	p.S146S		NM_030975	NP_112237	B5MDD6	B5MDD6_HUMAN	keratin associated protein 9-9	161						keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			CCTGTGTGTCCAGCTGCTGCC	0.562													58	215					0	0	0.01441	0	0		T	39412120	T	T	39412120	2	4	37	1	0	0	0	0	0	0	0	1	8593	581	21	4		4	KRTAP9-9	17	39412120	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	95359	39412120	41783090	825	33070											
JUP	3728	broad.mit.edu	37	chr17	39919526	39919526	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggacgttgacgtcatcCacactcagctgattcaccag	10	9	10	12	2	3	3	3	3	0	0	4	4	4	4	2	1	1	2	2	1	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:39919526C>A	uc002hxq.2	-	8	1483	c.1206G>T	c.(1204-1206)GTG>GTT	p.V402V	JUP_uc010wfs.1_Intron|JUP_uc002hxr.2_Silent_p.V402V|JUP_uc002hxs.2_Silent_p.V402V	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	402	ARM 5.				adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		TGACGTCATCCACACTCAGCT	0.587													6	74					0.000157383	0.000166601	0.00308	1	0		A	39919526	A	A	39919526	2	1	37	1	0	0	0	0	0	0	0	1	7988	581	21	5		5	JUP	17	39919526	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	507406	39919526	41275684	826	33071											
STAT5B	6777	broad.mit.edu	37	chr17	40375517	40375517	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcctcaaacgtctggtTgatctggaggtgtttctggg	6	13	13	9	1	4	1	1	1	3	0	5	2	5	2	1	4	2	3	1	4	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:40375517T>C	uc002hzh.2	-	5	602	c.433A>G	c.(433-435)AAC>GAC	p.N145D	STAT5B_uc002hzi.3_Missense_Mutation_p.N145D	NM_012448	NP_036580	P51692	STA5B_HUMAN	signal transducer and activator of transcription	145					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|JAK-STAT cascade involved in growth hormone signaling pathway|oxaloacetate metabolic process|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|glucocorticoid receptor binding|sequence-specific DNA binding transcription factor activity			ovary(3)|lung(2)|skin(1)	6		all_cancers(22;4.15e-07)|all_epithelial(22;2.83e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.135)	Dasatinib(DB01254)	AACGTCTGGTTGATCTGGAGG	0.537													19	99					0	0	0.008871	0	0		C	40375517	C	C	40375517	3	2	37	1	0	0	0	0	1	0	0	0	15294	1812	63	3	1990	3	STAT5B	17	40375517	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	455991	40375517	40819693	827	33072											
NAGLU	4669	broad.mit.edu	37	chr17	40690692	40690692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttctgttcctccagcaccGggtcctggaccagatgcgct	5	10	10	16	2	1	1	0	0	1	1	4	2	4	2	6	2	2	3	6	2	0	2	rs146456266	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:40690692G>A	uc002hzv.2	+	4	1023	c.683G>A	c.(682-684)CGG>CAG	p.R228Q		NM_000263	NP_000254	P54802	ANAG_HUMAN	alpha-N-acetylglucosaminidase precursor	228						lysosome	alpha-N-acetylglucosaminidase activity				0		all_cancers(22;1.58e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)	N-Acetyl-D-glucosamine(DB00141)	CTCCAGCACCGGGTCCTGGAC	0.632													18	59					0	0	0.010504	0	0		A	40690692	A	A	40690692	3	1	37	1	0	0	0	0	1	0	0	0	10161	1116	39	1	697	1	NAGLU	17	40690692	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	315175	40690692	40504518	828	33073											
MLX	6945	broad.mit.edu	37	chr17	40723569	40723569	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgccctcgccagacccTgcgggagattgtgattggcg	5	9	14	13	3	0	3	0	1	0	2	1	4	0	3	3	2	3	1	3	2	0	2	rs140676383		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:40723569T>C	uc002iag.2	+	8	910	c.845T>C	c.(844-846)CTG>CCG	p.L282P	MLX_uc002iaf.2_Missense_Mutation_p.L228P|MLX_uc002iah.2_Missense_Mutation_p.L198P	NM_170607	NP_733752	Q9UH92	MLX_HUMAN	transcription factor-like protein 4 isoform	282					energy reserve metabolic process|negative regulation of transcription, DNA-dependent|positive regulation of cellular metabolic process	cytoplasm|nucleus	DNA binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		all_cancers(22;4.26e-05)|Breast(137;0.000153)|all_epithelial(22;0.00148)		BRCA - Breast invasive adenocarcinoma(366;0.129)		CGCCAGACCCTGCGGGAGATT	0.493													46	156					0	0	0.01441	0	0		C	40723569	C	C	40723569	3	2	37	1	0	0	0	0	1	0	0	0	9653	1580	55	3	875	3	MLX	17	40723569	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	32877	40723569	40471641	829	33074											
PLEKHM1	9842	broad.mit.edu	37	chr17	43516967	43516967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggcaaattcaatcagggCcttgaggaatccttcataca	13	9	10	9	0	3	1	3	1	0	0	4	3	4	3	2	4	1	1	2	4	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:43516967C>T	uc002ija.2	-	11	3105	c.2935G>A	c.(2935-2937)GCC>ACC	p.A979T	PLEKHM1_uc010wjm.1_Missense_Mutation_p.A951T|PLEKHM1_uc002ijb.2_Missense_Mutation_p.A454T	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	979					intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					TCAATCAGGGCCTTGAGGAAT	0.572													11	46					0	0	0.010729	0	0		T	43516967	T	T	43516967	3	4	37	1	0	0	0	0	1	0	0	0	12099	739	26	2	243	2	PLEKHM1	17	43516967	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2793398	43516967	37678243	830	33075											
XYLT2	64132	broad.mit.edu	37	chr17	48437638	48437638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggggcctgtcaaagcagacGggcgactcaggtagcagggc	9	5	17	10	2	2	1	2	0	0	1	2	2	2	1	1	5	2	3	1	5	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:48437638G>A	uc002iqo.2	+	11	2693	c.2584G>A	c.(2584-2586)GGG>AGG	p.G862R	XYLT2_uc010dbo.2_RNA	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	862	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)					CAAAGCAGACGGGCGACTCAG	0.652													5	26					0	0	0.000602	0	0		A	48437638	A	A	48437638	3	1	37	1	0	0	0	0	1	0	0	0	17490	1116	39	1	2626	1	XYLT2	17	48437638	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4920671	48437638	32757572	831	33076											
MYCBPAP	84073	broad.mit.edu	37	chr17	48598498	48598498	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcccagagggacgcttcatAccgctacacctgggatcgga	10	6	12	13	3	1	1	1	0	0	1	2	4	1	4	3	3	3	2	3	3	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:48598498A>G	uc010wmr.1	+	8	1235	c.1073A>G	c.(1072-1074)TAC>TGC	p.Y358C	MYCBPAP_uc002iqx.2_Missense_Mutation_p.Y358C|MYCBPAP_uc002iqz.2_RNA	NM_032133	NP_115509	Q8TBZ2	MYBPP_HUMAN	Myc-binding protein-associated protein	321					cell differentiation|multicellular organismal development|spermatogenesis|synaptic transmission	cytoplasm|membrane	protein binding			urinary_tract(2)|skin(2)|ovary(1)|pancreas(1)	6	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;1.23e-09)			GACGCTTCATACCGCTACACC	0.567													9	18					0	0	0.006214	0	0		G	48598498	G	G	48598498	3	3	37	1	0	0	0	0	1	0	0	0	10037	391	14	3	1103	3	MYCBPAP	17	48598498	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	160860	48598498	32596712	832	33077											
WFIKKN2	124857	broad.mit.edu	37	chr17	48913367	48913367	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagcgctgctgctgctgctGctactgctcggggtgccccc	2	9	14	16	2	0	0	0	0	0	0	1	0	0	0	2	2	9	8	2	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:48913367G>A	uc002isv.3	+	1	763	c.69G>A	c.(67-69)CTG>CTA	p.L23L	WFIKKN2_uc010dbu.2_Intron	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	23						extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			tgctgctgctgctactgctCG	0.612													6	18					0	0	0.001168	0	0		A	48913367	A	A	48913367	2	1	37	1	0	0	0	0	0	0	0	1	17385	1306	46	2		2	WFIKKN2	17	48913367	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	314869	48913367	32281843	833	33078											
DGKE	8526	broad.mit.edu	37	chr17	54939267	54939267	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggatgggggacgagacttAccctctagccaggtatgtac	10	8	14	9	1	1	1	0	0	1	1	1	4	1	3	2	4	3	2	2	4	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:54939267A>G	uc002iur.2	+	10	1580	c.1400A>G	c.(1399-1401)TAC>TGC	p.Y467C	DGKE_uc002ius.1_Missense_Mutation_p.Y467C	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	467					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|phospholipid biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding|protein binding			breast(2)	2	Breast(9;3.59e-07)					GACGAGACTTACCCTCTAGCC	0.423													22	149					0	0	0.014323	0	0		G	54939267	G	G	54939267	3	3	37	1	0	0	0	0	1	0	0	0	4474	391	14	3	1434	3	DGKE	17	54939267	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	6025900	54939267	26255943	834	33079											
TRIM25	7706	broad.mit.edu	37	chr17	54969487	54969487	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgaacctctggggatgcggCcggtagttctgaggcatctc	6	10	15	10	2	3	2	0	2	3	0	4	3	3	3	2	5	2	3	2	5	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:54969487C>T	uc002iut.2	-	9	1527	c.1467G>A	c.(1465-1467)CGG>CGA	p.R489R	TRIM25_uc010dcj.2_Silent_p.R281R	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25	489	B30.2/SPRY.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)					GGGGATGCGGCCGGTAGTTCT	0.532													5	61					0	0	0.001168	0	0		T	54969487	T	T	54969487	2	4	37	1	0	0	0	0	0	0	0	1	16525	726	26	2		2	TRIM25	17	54969487	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	30220	54969487	26225723	835	33080											
EPX	8288	broad.mit.edu	37	chr17	56276417	56276417	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggtgacacccgatcaacGgaaacccccaaactggcagc	14	3	9	15	2	1	1	1	1	0	0	1	3	1	2	3	3	4	1	3	3	4	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:56276417G>A	uc002ivq.2	+	8	1223	c.1137G>A	c.(1135-1137)ACG>ACA	p.T379T		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	379					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						CCCGATCAACGGAAACCCCCA	0.567													12	38					0	0	0.001855	0	0		A	56276417	A	A	56276417	2	1	37	1	0	0	0	0	0	0	0	1	5208	1103	39	1		1	EPX	17	56276417	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1306930	56276417	24918793	836	33081											
BZRAP1	9256	broad.mit.edu	37	chr17	56385063	56385063	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcatagtcaaacagagccAcaaagatcctgacgggtagg	14	6	12	9	1	2	3	2	1	0	2	3	3	3	3	2	3	2	1	2	3	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:56385063A>G	uc002ivx.3	-	24	5763	c.4892T>C	c.(4891-4893)GTG>GCG	p.V1631A	BZRAP1_uc002ivv.2_5'Flank|BZRAP1_uc002ivw.2_5'Flank|BZRAP1_uc010dcs.2_Missense_Mutation_p.V1571A|BZRAP1_uc010wnt.1_Missense_Mutation_p.V1631A	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	1631	SH3 2.					mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AAACAGAGCCACAAAGATCCT	0.567													18	55					0	0	0.00499	0	0		G	56385063	G	G	56385063	3	3	37	1	0	0	0	0	1	0	0	0	1580	159	6	3	713	3	BZRAP1	17	56385063	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	108646	56385063	24810147	837	33082											
MRC2	9902	broad.mit.edu	37	chr17	60743600	60743600	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaggactacggcaaagaCgagcgctggggcttctgccc	9	5	13	14	3	1	1	0	0	1	1	1	3	1	2	2	4	3	3	2	4	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:60743600C>T	uc002jad.2	+	3	1068	c.666C>T	c.(664-666)GAC>GAT	p.D222D	MRC2_uc002jac.2_Silent_p.D222D	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	222	Extracellular (Potential).|Fibronectin type-II.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						ACGGCAAAGACGAGCGCTGGG	0.657													5	10					0	0	0.000602	0	0		T	60743600	T	T	60743600	2	4	37	1	0	0	0	0	0	0	0	1	9776	535	19	1		1	MRC2	17	60743600	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4358537	60743600	20451610	838	33083											
TANC2	26115	broad.mit.edu	37	chr17	61498207	61498207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaccagcccagcccagccGtccattcaagcaccgtcatc	10	6	7	18	2	2	0	2	0	0	0	4	0	3	0	6	0	5	2	6	0	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:61498207G>A	uc002jal.3	+	25	4887	c.4864G>A	c.(4864-4866)GTC>ATC	p.V1622I	TANC2_uc010wpe.1_3'UTR|TANC2_uc002jao.3_Missense_Mutation_p.V733I	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1622							binding			ovary(2)	2						CAGCCCAGCCGTCCATTCAAG	0.567													25	117					0	0	0.00632	0	0		A	61498207	A	A	61498207	3	1	37	1	0	0	0	0	1	0	0	0	15570	1145	40	1	4962	1	TANC2	17	61498207	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	754607	61498207	19697003	839	33084											
MAP3K3	4215	broad.mit.edu	37	chr17	61744414	61744414	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccagaagcaggcacctcTctgtcagtgagtatttcaac	11	9	9	12	0	3	2	2	1	1	1	4	2	3	2	2	1	3	3	2	1	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:61744414T>C	uc002jbg.2	+	6	815	c.496T>C	c.(496-498)TCT>CCT	p.S166P	MAP3K3_uc002jbe.2_Missense_Mutation_p.S197P|MAP3K3_uc002jbf.2_Missense_Mutation_p.S197P|MAP3K3_uc002jbh.2_Missense_Mutation_p.S197P|MAP3K3_uc010wpo.1_Missense_Mutation_p.S81P|MAP3K3_uc010wpp.1_Missense_Mutation_p.S166P	NM_002401	NP_002392	Q99759	M3K3_HUMAN	mitogen-activated protein kinase kinase kinase 3	166					MAPKKK cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autophosphorylation	cytosol	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			lung(3)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)	6						CAGGCACCTCTCTGTCAGTGA	0.448													6	86					0	0	0.004482	0	0		C	61744414	C	C	61744414	3	2	37	1	0	0	0	0	1	0	0	0	9269	1551	54	3	615	3	MAP3K3	17	61744414	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	246207	61744414	19450796	840	33085											
TEX2	55852	broad.mit.edu	37	chr17	62291431	62291431	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtactccctgaactcctcCtcctcttcctcctcctcctc	5	13	2	21	0	1	1	0	1	1	0	10	1	9	1	8	0	2	1	8	0	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:62291431C>A	uc002jec.2	-	2	320	c.147G>T	c.(145-147)GAG>GAT	p.E49D	TEX2_uc002jed.2_Missense_Mutation_p.E49D|TEX2_uc002jee.2_Missense_Mutation_p.E49D	NM_018469	NP_060939	Q8IWB9	TEX2_HUMAN	testis expressed sequence 2	49	Poly-Glu.				signal transduction|sphingolipid metabolic process	integral to membrane				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		TGAActcctcctcctcttcct	0.473													17	103					2.23348e-06	2.41421e-06	0.004007	1	0		A	62291431	A	A	62291431	3	1	37	1	0	0	0	0	1	0	0	0	15806	680	24	5	3301	5	TEX2	17	62291431	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	547017	62291431	18903779	841	33086											
RGS9	8787	broad.mit.edu	37	chr17	63156438	63156438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcattctcaagcctgatgGcagcctctacagatttcagg	9	12	8	12	0	4	2	3	1	3	1	6	2	4	2	2	2	3	1	2	2	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:63156438G>A	uc002jfe.2	+	4	403	c.293G>A	c.(292-294)GGC>GAC	p.G98D	RGS9_uc010dem.2_Missense_Mutation_p.G98D|RGS9_uc002jfd.2_Missense_Mutation_p.G98D|RGS9_uc002jff.2_RNA	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	98	DEP.				intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						AAGCCTGATGGCAGCCTCTAC	0.473													18	68					0	0	0.008871	0	0		A	63156438	A	A	63156438	3	1	37	1	0	0	0	0	1	0	0	0	13338	1203	42	2	307	2	RGS9	17	63156438	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	865007	63156438	18038772	842	33087											
BPTF	2186	broad.mit.edu	37	chr17	65940481	65940481	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaccactgtttccacgacAgcagcaggtagagctgtggg	10	7	12	12	1	0	1	0	0	0	1	1	2	1	1	3	2	3	5	3	2	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:65940481A>C	uc002jgf.2	+	20	6754	c.6693A>C	c.(6691-6693)ACA>ACC	p.T2231T	BPTF_uc002jge.2_Silent_p.T2357T|BPTF_uc002jgg.2_Silent_p.T31T	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2357	Thr-rich.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TTTCCACGACAGCAGCAGGTA	0.512													22	71					0	0	0.012319	0	0		C	65940481	C	C	65940481	2	2	37	1	0	0	0	0	0	0	0	1	1498	175	7	5		5	BPTF	17	65940481	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2784043	65940481	15254729	843	33088											
SDK2	54549	broad.mit.edu	37	chr17	71426743	71426743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgggggggcttggtgatgCgggtccgagctgaaagatac	7	8	18	8	2	0	3	0	2	0	1	1	4	1	3	2	5	3	2	2	5	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:71426743C>T	uc010dfm.2	-	12	1490	c.1490G>A	c.(1489-1491)CGC>CAC	p.R497H	SDK2_uc010dfn.2_Missense_Mutation_p.R176H	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	497	Extracellular (Potential).|Ig-like C2-type 6.				cell adhesion	integral to membrane				ovary(2)	2						CTTGGTGATGCGGGTCCGAGC	0.592													8	9					0	0	0.00308	0	0		T	71426743	T	T	71426743	3	4	37	1	0	0	0	0	1	0	0	0	13994	768	27	1	5164	1	SDK2	17	71426743	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5486262	71426743	9768467	844	33089											
TTYH2	94015	broad.mit.edu	37	chr17	72245498	72245498	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagaggtgactcgctactAcctgtattgcagccagagtg	9	10	12	10	1	0	3	0	1	0	2	1	3	0	3	2	1	5	4	2	1	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:72245498A>G	uc002jkc.2	+	8	921	c.890A>G	c.(889-891)TAC>TGC	p.Y297C	TTYH2_uc010wqw.1_Missense_Mutation_p.Y276C|TTYH2_uc002jkd.2_5'UTR	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	297	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						ACTCGCTACTACCTGTATTGC	0.602													45	164					0	0	0.01441	0	0		G	72245498	G	G	72245498	3	3	37	1	0	0	0	0	1	0	0	0	16766	391	14	3	920	3	TTYH2	17	72245498	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	818755	72245498	8949712	845	33090											
GPR142	350383	broad.mit.edu	37	chr17	72368072	72368072	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caacatcctggagtttgctgCcaaccacgcctcagtctgga	9	9	9	14	1	2	0	1	0	1	0	3	2	3	2	4	2	4	2	4	2	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:72368072C>T	uc010wqy.1	+	4	722	c.722C>T	c.(721-723)GCC>GTC	p.A241V	GPR142_uc010wqx.1_Missense_Mutation_p.A153V	NM_181790	NP_861455	Q7Z601	GP142_HUMAN	G protein-coupled receptor 142	241	Helical; Name=3; (Potential).					cell junction|cytoplasm|integral to membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GAGTTTGCTGCCAACCACGCC	0.682													8	34					0	0	0.004482	0	0		T	72368072	T	T	72368072	3	4	37	1	0	0	0	0	1	0	0	0	6665	739	26	2	736	2	GPR142	17	72368072	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	122574	72368072	8827138	846	33091											
CD300A	11314	broad.mit.edu	37	chr17	72470778	72470778	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgcagtgggtgccaccCacagtgccagcatccaggag	8	8	13	12	0	0	0	0	0	0	0	1	1	1	1	4	2	4	3	4	2	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:72470778C>A	uc002jkv.2	+	3	808	c.487C>A	c.(487-489)CAC>AAC	p.H163N	CD300A_uc002jkw.2_Missense_Mutation_p.H50N|CD300A_uc010dfr.2_Missense_Mutation_p.H50N|CD300A_uc010dfs.2_Intron	NM_007261	NP_009192	Q9UGN4	CLM8_HUMAN	leukocyte membrane antigen	163	Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2						GGGTGCCACCCACAGTGCCAG	0.552													17	65					1.67942e-08	1.86114e-08	0.006122	1	0		A	72470778	A	A	72470778	3	1	37	1	0	0	0	0	1	0	0	0	2999	594	21	5	497	5	CD300A	17	72470778	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	102706	72470778	8724432	847	33092											
NUP85	79902	broad.mit.edu	37	chr17	73229063	73229063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccacgctcgtgtcagacaGgtgggtgccgctagtgttgg	5	10	16	10	3	1	1	1	0	0	1	2	1	1	1	2	3	2	3	2	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:73229063G>A	uc002jng.1	+	15	1774	c.1514G>A	c.(1513-1515)AGG>AAG	p.R505K	NUP85_uc010dgd.1_Missense_Mutation_p.R460K|NUP85_uc010wrv.1_Missense_Mutation_p.R459K|NUP85_uc002jnh.1_Missense_Mutation_p.R108K	NM_024844	NP_079120	Q9BW27	NUP85_HUMAN	nucleoporin 85	505					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|nuclear membrane|Nup107-160 complex|spindle	protein binding			ovary(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		all cancers(21;3.45e-06)			GTGTCAGACAGGTGGGTGCCG	0.617													23	110					0	0	0.014323	0	0		A	73229063	A	A	73229063	3	1	37	1	0	0	0	0	1	0	0	0	10789	1014	35	4	1572	4	NUP85	17	73229063	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	758285	73229063	7966147	848	33093											
ITGB4	3691	broad.mit.edu	37	chr17	73753308	73753308	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccgcagctgggcagccgtgCcgggctcttccagcacccgc	4	5	13	19	4	1	0	0	0	1	0	2	0	2	0	5	2	4	5	5	2	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:73753308C>G	uc002jpg.2	+	39	5433	c.5246C>G	c.(5245-5247)GCC>GGC	p.A1749G	ITGB4_uc002jph.2_Missense_Mutation_p.A1679G|ITGB4_uc002jpi.3_Missense_Mutation_p.A1679G|ITGB4_uc002jpj.2_Missense_Mutation_p.A1732G|GALK1_uc010wsi.1_Intron	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1749	Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGCAGCCGTGCCGGGCTCTTC	0.672													19	87					0	0	0.008871	0	0		G	73753308	G	G	73753308	3	3	37	1	0	0	0	0	1	0	0	0	7913	739	26	5	5559	5	ITGB4	17	73753308	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	524245	73753308	7441902	849	33094											
RNF157	114804	broad.mit.edu	37	chr17	74151699	74151699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggggaagagagagcctctcCctcctcttcagtgccagggg	7	7	15	12	0	3	2	1	0	2	2	5	4	4	3	4	4	2	0	4	4	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:74151699C>T	uc002jqz.2	-	15	1711	c.1642G>A	c.(1642-1644)GGA>AGA	p.G548R	RNF157_uc002jra.2_Missense_Mutation_p.G548R|uc002jrb.1_5'Flank	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	548							zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			AGAGCCTCTCCCTCCTCTTCA	0.607													10	38					0	0	0.006214	0	0		T	74151699	T	T	74151699	3	4	37	1	0	0	0	0	1	0	0	0	13479	632	22	4	417	4	RNF157	17	74151699	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	398391	74151699	7043511	850	33095											
C1QTNF1	114897	broad.mit.edu	37	chr17	77040120	77040120	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgcctctggcctggtcCtgagtcgtgtgccccatgtc	2	13	11	15	1	1	1	0	1	1	0	4	1	2	1	6	2	2	0	6	2	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:77040120C>A	uc002jwp.2	+	2	410	c.70C>A	c.(70-72)CTG>ATG	p.L24M	C1QTNF1_uc002jwq.2_Intron|C1QTNF1_uc002jwr.3_Missense_Mutation_p.L34M|C1QTNF1_uc002jws.2_Missense_Mutation_p.L24M|C1QTNF1_uc002jwt.2_Missense_Mutation_p.L122M	NM_030968	NP_112230	Q9BXJ1	C1QT1_HUMAN	C1q and tumor necrosis factor related protein 1	24						collagen				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.0294)|OV - Ovarian serous cystadenocarcinoma(97;0.201)			TGGCCTGGTCCTGAGTCGTGT	0.657													19	64					1.33834e-09	1.49529e-09	0.007413	1	0		A	77040120	A	A	77040120	3	1	37	1	0	0	0	0	1	0	0	0	1965	680	24	5	72	5	C1QTNF1	17	77040120	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2888421	77040120	4155090	851	33096											
CCDC40	55036	broad.mit.edu	37	chr17	78011966	78011966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttctgagggagagaaggaagGgaataatgaaagccacatgg	16	6	15	4	0	1	3	0	2	1	1	1	7	1	6	1	4	1	0	1	4	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:78011966G>A	uc010dht.2	+	2	101	c.74G>A	c.(73-75)GGG>GAG	p.G25E	TBC1D16_uc002jxj.2_5'Flank|CCDC40_uc010wub.1_Missense_Mutation_p.G25E	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	25					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GAGAAGGAAGGGAATAATGAA	0.378													5	21					0	0	0.000602	0	0		A	78011966	A	A	78011966	3	1	37	1	0	0	0	0	1	0	0	0	2815	1232	43	4	80	4	CCDC40	17	78011966	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	971846	78011966	3183244	852	33097											
RNF213	57674	broad.mit.edu	37	chr17	78363029	78363029	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacagctgcagtcctacagCgatgcctgtgaagtgctgtc	8	9	13	11	1	0	1	0	1	0	0	2	3	1	2	2	1	6	3	2	1	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:78363029C>T	uc002jyh.1	+	40	9499	c.9276C>T	c.(9274-9276)AGC>AGT	p.S3092S	uc002jyi.1_Intron|RNF213_uc010dhx.1_Silent_p.S36S	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment								p.S3092N(1)		ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			AGTCCTACAGCGATGCCTGTG	0.532													4	136					0	0	0.009096	0	0		T	78363029	T	T	78363029	2	4	37	1	0	0	0	0	0	0	0	1	13502	767	27	1		1	RNF213	17	78363029	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	351063	78363029	2832181	853	33098											
RPTOR	57521	broad.mit.edu	37	chr17	78865595	78865595	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggccctgcagttcataGaagaggaaaagaactacgcc	13	6	11	11	2	1	3	1	0	0	3	1	4	1	4	3	2	3	2	3	2	6	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:78865595G>T	uc002jyt.1	+	18	2864	c.2059G>T	c.(2059-2061)GAA>TAA	p.E687*	RPTOR_uc010wug.1_Nonsense_Mutation_p.E529*	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	687					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						GCAGTTCATAGAAGAGGAAAA	0.547													8	159					0.00307968	0.00318596	0.00308	1	0		T	78865595	T	T	78865595	4	4	37	1	0	0	0	0	0	1	0	0	13690	943	33	5	2129	5	RPTOR	17	78865595	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	502566	78865595	2329615	854	33099											
ZNF750	79755	broad.mit.edu	37	chr17	80788060	80788060	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtagtgtgaacactctggcCgtgtcctgcagcttcgcctt	5	12	11	13	3	1	1	0	1	1	0	3	1	2	1	3	1	3	3	3	1	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:80788060C>T	uc002kga.2	-	3	2441	c.2130G>A	c.(2128-2130)ACG>ACA	p.T710T	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	710						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			ACACTCTGGCCGTGTCCTGCA	0.572													21	90					0	0	0.012319	0	0		T	80788060	T	T	80788060	2	4	37	1	0	0	0	0	0	0	0	1	18157	639	23	1		1	ZNF750	17	80788060	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1922465	80788060	407150	855	33100											
MYOM1	8736	broad.mit.edu	37	chr18	3135622	3135622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaattagaacagcggacaCggaaacagtaggatttcccc	15	6	10	10	2	0	2	0	0	0	2	1	5	1	5	2	3	3	1	2	3	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:3135622C>T	uc002klp.2	-	15	2466	c.2132G>A	c.(2131-2133)CGT>CAT	p.R711H	MYOM1_uc002klq.2_Missense_Mutation_p.R711H	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	711	Fibronectin type-III 2.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						ACAGCGGACACGGAAACAGTA	0.522													4	40					0	0	0.009096	0	0		T	3135622	T	T	3135622	3	4	37	1	0	0	0	0	1	0	0	0	10109	536	19	1	3021	1	MYOM1	18	3135622	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08		3135622	74941626	856	33101											
EPB41L3	23136	broad.mit.edu	37	chr18	5397403	5397403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gttccgtctctattccactgGactccgtcttggtttccatt	4	17	7	13	2	2	0	0	0	2	0	7	1	6	1	4	2	0	2	4	2	1	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:5397403G>A	uc002kmt.1	-	18	2581	c.2495C>T	c.(2494-2496)TCC>TTC	p.S832F	EPB41L3_uc010wzh.1_Missense_Mutation_p.S663F|EPB41L3_uc002kmu.1_Missense_Mutation_p.S610F|EPB41L3_uc010dkq.1_Missense_Mutation_p.S501F|EPB41L3_uc002kms.1_Missense_Mutation_p.S67F|EPB41L3_uc010wze.1_Missense_Mutation_p.S137F|EPB41L3_uc010wzf.1_Missense_Mutation_p.S129F|EPB41L3_uc010wzg.1_Missense_Mutation_p.S104F|EPB41L3_uc010dkr.2_Missense_Mutation_p.S224F	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	832	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TATTCCACTGGACTCCGTCTT	0.537													35	78					0	0	0.00623	0	0		A	5397403	A	A	5397403	3	1	37	1	0	0	0	0	1	0	0	0	5162	1174	41	4	788	4	EPB41L3	18	5397403	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2261781	5397403	72679845	857	33102											
LAMA1	284217	broad.mit.edu	37	chr18	6997771	6997771	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagttgtattttccaggttTgacaaaattccatatgggac	11	16	8	6	0	0	1	0	1	0	0	2	2	2	2	2	2	0	3	2	2	5	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:6997771T>C	uc002knm.2	-	33	4870	c.4776A>G	c.(4774-4776)TCA>TCG	p.S1592S	LAMA1_uc010wzj.1_Silent_p.S1068S	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1592	Domain II and I.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTTCCAGGTTTGACAAAATTC	0.418													9	67					0	0	0.006214	0	0		C	6997771	C	C	6997771	2	2	37	1	0	0	0	0	0	0	0	1	8621	1799	63	3		3	LAMA1	18	6997771	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1600368	6997771	71079477	858	33103											
CIDEA	1149	broad.mit.edu	37	chr18	12274251	12274251	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctacgacatccggtgcAcgggactcaagggcctgctg	7	8	13	13	3	1	0	1	0	0	0	3	2	3	1	3	3	3	2	3	3	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:12274251A>C	uc002kqt.3	+	4	555	c.490A>C	c.(490-492)ACG>CCG	p.T164P	CIDEA_uc002kqu.3_Missense_Mutation_p.T198P|CIDEA_uc010dlc.2_RNA	NM_001279	NP_001270	O60543	CIDEA_HUMAN	cell death-inducing DFFA-like effector a isoform	164					DNA damage response, signal transduction resulting in induction of apoptosis|DNA fragmentation involved in apoptotic nuclear change|lipid metabolic process|lipid storage|negative regulation of apoptosis|negative regulation of cytokine secretion|negative regulation of lipid catabolic process|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of sequestering of triglyceride|temperature homeostasis	mitochondrial envelope|nucleus	protein homodimerization activity			ovary(1)|central_nervous_system(1)	2						CATCCGGTGCACGGGACTCAA	0.592													14	63					0	0	0.00245	0	0		C	12274251	C	C	12274251	3	2	37	1	0	0	0	0	1	0	0	0	3428	159	6	5	648	5	CIDEA	18	12274251	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	5276480	12274251	65802997	859	33104											
FAM59A	64762	broad.mit.edu	37	chr18	29890192	29890192	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcctccatgacgtacacGcgttcaggaaatgccttagc	11	10	8	12	3	1	1	1	1	0	0	3	2	3	2	3	1	3	2	3	1	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:29890192G>A	uc002kxl.2	-	3	413	c.357C>T	c.(355-357)CGC>CGT	p.R119R	FAM59A_uc002kxk.1_Silent_p.R119R	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	119	CABIT.									ovary(1)|skin(1)	2						TGACGTACACGCGTTCAGGAA	0.413													5	118					0	0	0.001168	0	0		A	29890192	A	A	29890192	2	1	37	1	0	0	0	0	0	0	0	1	5606	1074	38	1		1	FAM59A	18	29890192	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	17615941	29890192	48187056	860	33105											
ASXL3	80816	broad.mit.edu	37	chr18	31326030	31326030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttagttggccacagtccaCgggcatatgtagcaatataa	13	10	9	9	1	0	0	0	0	0	0	1	0	1	0	2	2	1	4	2	2	6	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:31326030C>T	uc010dmg.1	+	12	6273	c.6218C>T	c.(6217-6219)ACG>ATG	p.T2073M	ASXL3_uc002kxq.2_Missense_Mutation_p.T1780M	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	2073					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CCACAGTCCACGGGCATATGT	0.398													6	94					0	0	0.001984	0	0		T	31326030	T	T	31326030	3	4	37	1	0	0	0	0	1	0	0	0	1069	536	19	1	6264	1	ASXL3	18	31326030	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1435838	31326030	46751218	861	33106											
INO80C	125476	broad.mit.edu	37	chr18	33077704	33077704	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcaaagctggaagcggaCgcttttttcttcttactggc	7	13	11	10	3	2	0	0	0	2	0	2	2	2	2	0	3	4	3	0	3	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:33077704C>T	uc002kyy.3	-	1	252	c.135G>A	c.(133-135)GCG>GCA	p.A45A	INO80C_uc002kyw.1_Silent_p.A45A|INO80C_uc002kyx.3_5'Flank|INO80C_uc010dmt.2_Silent_p.A45A	NM_194281	NP_919257	Q6PI98	IN80C_HUMAN	Ies6-similar protein isoform 2	45					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex|MLL1 complex					0						TGGAAGCGGACGCTTTTTTCT	0.672													4	18					0	0	0.009096	0	0		T	33077704	T	T	33077704	2	4	37	1	0	0	0	0	0	0	0	1	7764	523	19	1		1	INO80C	18	33077704	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1751674	33077704	44999544	862	33107											
KIAA1632	57724	broad.mit.edu	37	chr18	43440128	43440128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccatgtggcggacggacGccaggctctggcaggctgct	6	6	16	13	3	1	0	0	0	1	0	1	2	1	2	2	6	2	4	2	6	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:43440128G>A	uc002lbm.2	-	40	7050	c.6950C>T	c.(6949-6951)GCG>GTG	p.A2317V	KIAA1632_uc010xcq.1_Missense_Mutation_p.A871V|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.A1192V	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	2317					autophagy						0						GCGGACGGACGCCAGGCTCTG	0.532													8	92					0	0	0.008291	0	0		A	43440128	A	A	43440128	3	1	37	1	0	0	0	0	1	0	0	0	8265	1087	38	1	809	1	KIAA1632	18	43440128	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	10362424	43440128	34637120	863	33108											
C18orf25	147339	broad.mit.edu	37	chr18	43795862	43795862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgaaatgaagatggaggagGcagtgggaaaagttgaagaa	17	6	16	2	0	0	5	0	3	0	2	0	8	0	8	0	4	0	2	0	4	6	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:43795862G>A	uc002lbw.2	+	2	395	c.16G>A	c.(16-18)GCA>ACA	p.A6T	C18orf25_uc002lbx.2_Missense_Mutation_p.A6T	NM_145055	NP_659492	Q96B23	CR025_HUMAN	ARKadia-like 1 isoform a	6										central_nervous_system(2)	2						GATGGAGGAGGCAGTGGGAAA	0.418													17	51					0	0	0.006122	0	0		A	43795862	A	A	43795862	3	1	37	1	0	0	0	0	1	0	0	0	1902	1203	42	2	18	2	C18orf25	18	43795862	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	355734	43795862	34281386	864	33109											
ACAA2	10449	broad.mit.edu	37	chr18	47323922	47323922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctttgggattcccacacGcaaaccaacatgccttgcca	10	9	6	16	1	0	0	0	0	0	0	2	1	2	1	5	1	4	1	5	1	2	3	rs145076043		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:47323922G>A	uc002ldw.3	-	3	623	c.226C>T	c.(226-228)CGT>TGT	p.R76C	ACAA2_uc002ldx.3_Missense_Mutation_p.R73C	NM_006111	NP_006102	P42765	THIM_HUMAN	acetyl-coenzyme A acyltransferase 2	76					anti-apoptosis|cholesterol biosynthetic process		acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1						ATTCCCACACGCAAACCAACA	0.388													14	63					0	0	0.00499	0	0		A	47323922	A	A	47323922	3	1	37	1	0	0	0	0	1	0	0	0	105	1087	38	1	999	1	ACAA2	18	47323922	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3528060	47323922	30753326	865	33110											
CDH7	1005	broad.mit.edu	37	chr18	63477150	63477150	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccgagtcggagtttgtcAtcaaaattcaggatatcaac	13	10	9	9	2	4	0	4	0	0	0	5	3	4	2	1	2	2	1	1	2	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:63477150A>G	uc002ljz.2	+	3	746	c.421A>G	c.(421-423)ATC>GTC	p.I141V	CDH7_uc002lka.2_Missense_Mutation_p.I141V|CDH7_uc002lkb.2_Missense_Mutation_p.I141V	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	141	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GGAGTTTGTCATCAAAATTCA	0.512													22	93					0	0	0.00333	0	0		G	63477150	G	G	63477150	3	3	37	1	0	0	0	0	1	0	0	0	3118	217	8	3	427	3	CDH7	18	63477150	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	16153228	63477150	14600098	866	33111											
CBLN2	147381	broad.mit.edu	37	chr18	70209217	70209217	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaggcacttgccctccAgcacgatgggctccgtgtcg	6	7	11	17	3	0	0	0	0	0	0	3	1	2	0	5	2	2	3	5	2	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:70209217A>G	uc002lku.2	-	2	414	c.179T>C	c.(178-180)CTG>CCG	p.L60P	CBLN2_uc002lkv.2_Missense_Mutation_p.L60P	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	60						integral to membrane					0		Esophageal squamous(42;0.131)				CTTGCCCTCCAGCACGATGGG	0.706													8	48					0	0	0.004482	0	0		G	70209217	G	G	70209217	3	3	37	1	0	0	0	0	1	0	0	0	2708	188	7	3	507	3	CBLN2	18	70209217	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	6732067	70209217	7868031	867	33112											
NETO1	81832	broad.mit.edu	37	chr18	70461450	70461450	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtatagactccacaattcCttcggaaccgcccatctcaa	11	11	5	14	2	1	1	1	0	1	1	5	2	3	2	4	1	1	1	4	1	5	5	rs138679154		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:70461450C>A	uc002lkw.2	-	6	825	c.541G>T	c.(541-543)GGA>TGA	p.G181*	NETO1_uc002lkx.1_Nonsense_Mutation_p.G180*|NETO1_uc002lky.1_Nonsense_Mutation_p.G181*	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	181	CUB 2.|Extracellular (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity	p.G181R(1)		ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		TCCACAATTCCTTCGGAACCG	0.428													24	72					5.35356e-11	6.0087e-11	0.00278	1	0		A	70461450	A	A	70461450	4	1	37	1	0	0	0	0	0	1	0	0	10358	690	24	5	1080	5	NETO1	18	70461450	Nonsense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	252233	70461450	7615798	868	33113											
ZNF407	55628	broad.mit.edu	37	chr18	72346733	72346733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacacctgtgccctgtgaCgctcgatggggagcgctcgg	6	7	15	13	4	0	2	0	1	0	1	2	4	0	3	2	3	2	2	2	3	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:72346733C>T	uc002llw.2	+	1	3815	c.3758C>T	c.(3757-3759)ACG>ATG	p.T1253M	ZNF407_uc010xfc.1_Missense_Mutation_p.T1253M|ZNF407_uc010dqu.1_Missense_Mutation_p.T1253M|ZNF407_uc002llu.2_Missense_Mutation_p.T1252M	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1253					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		TGCCCTGTGACGCTCGATGGG	0.572													14	35					0	0	0.00245	0	0		T	72346733	T	T	72346733	3	4	37	1	0	0	0	0	1	0	0	0	17912	536	19	1	3760	1	ZNF407	18	72346733	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1885283	72346733	5730515	869	33114											
NFATC1	4772	broad.mit.edu	37	chr18	77170705	77170705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatgtggaggtggaagacGtcctccctagctccaaacgg	10	7	13	11	3	0	1	0	0	0	1	3	4	3	3	3	4	2	1	3	4	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:77170705G>A	uc010xfg.1	+	2	883	c.430G>A	c.(430-432)GTC>ATC	p.V144I	NFATC1_uc002lnc.1_Missense_Mutation_p.V144I|NFATC1_uc010xff.1_Missense_Mutation_p.V144I|NFATC1_uc002lnd.2_Missense_Mutation_p.V144I|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Missense_Mutation_p.V144I|NFATC1_uc010xfi.1_Missense_Mutation_p.V131I|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Missense_Mutation_p.V131I|NFATC1_uc002lng.2_Missense_Mutation_p.V131I|NFATC1_uc010xfk.1_Missense_Mutation_p.V131I	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	144	Trans-activation domain A (TAD-A).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		GGTGGAAGACGTCCTCCCTAG	0.627													10	45					0	0	0.006214	0	0		A	77170705	A	A	77170705	3	1	37	1	0	0	0	0	1	0	0	0	10380	1145	40	1	528	1	NFATC1	18	77170705	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4823972	77170705	906543	870	33115											
MED16	10025	broad.mit.edu	37	chr19	877145	877145	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccagccccacctccagcggGtggcccatggaaggtgagag	8	4	15	14	1	0	1	0	1	0	1	1	3	1	2	6	4	2	0	6	4	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:877145G>A	uc002lqd.1	-	9	1540	c.1389C>T	c.(1387-1389)CAC>CAT	p.H463H	MED16_uc010drw.1_Silent_p.H288H|MED16_uc002lqe.2_Silent_p.H452H|MED16_uc002lqf.2_Silent_p.H452H|MED16_uc010xfv.1_Intron|MED16_uc010xfw.1_Intron|MED16_uc010xfx.1_Silent_p.H308H|MED16_uc010xfy.1_Intron	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	463					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCCAGCGGGTGGCCCATGG	0.672													8	19					0	0	0.004482	0	0		A	877145	A	A	877145	2	1	37	1	0	0	0	0	0	0	0	1	9452	1252	44	4		4	MED16	19	877145	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08		877145	58251838	871	33116											
C19orf6	91304	broad.mit.edu	37	chr19	1014301	1014301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgggaagctcccgcggcCgccgctgtcacagaactgta	7	5	13	16	5	1	1	1	0	0	1	2	2	2	2	4	2	2	3	4	2	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:1014301C>T	uc002lqr.1	-	2	543	c.397G>A	c.(397-399)GGC>AGC	p.G133S	C19orf6_uc002lqq.1_5'Flank|C19orf6_uc002lqs.1_Missense_Mutation_p.G133S	NM_001033026	NP_001028198	Q4ZIN3	MBRL_HUMAN	membralin isoform 1	133						cytoplasm|integral to membrane				pancreas(2)|breast(1)	3		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.0252)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCCGCGGCCGCCGCTGTCA	0.637													12	56					0	0	0.013537	0	0		T	1014301	T	T	1014301	3	4	37	1	0	0	0	0	1	0	0	0	1944	652	23	1	1505	1	C19orf6	19	1014301	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	137156	1014301	58114682	872	33117											
ADAT3	113179	broad.mit.edu	37	chr19	1912976	1912976	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcgagccctgcgccatgtgCgccatggccctggtgcacgc	4	6	14	17	5	0	0	0	0	0	0	0	1	0	0	4	2	4	1	4	2	0	0	rs150936899		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:1912976C>T	uc002luh.2	+	2	1110	c.882C>T	c.(880-882)TGC>TGT	p.C294C	SCAMP4_uc002lui.1_Intron|SCAMP4_uc002luj.2_Intron|SCAMP4_uc002luk.2_Intron|SCAMP4_uc010dss.2_Intron	NM_138422	NP_612431	Q96EY9	ADAT3_HUMAN	tRNA-specific adenosine deaminase 3	294		Zinc (By similarity).			tRNA processing		hydrolase activity|zinc ion binding			breast(1)|skin(1)	2		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGCCATGTGCGCCATGGCCC	0.716													26	83					0	0	0.007291	0	0		T	1912976	T	T	1912976	2	4	37	1	0	0	0	0	0	0	0	1	286	776	27	1		1	ADAT3	19	1912976	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	898675	1912976	57216007	873	33118											
TMPRSS9	360200	broad.mit.edu	37	chr19	2408410	2408410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcgacctacctcagcggctCggaggccagcaccgtgcggg	6	5	15	15	5	1	0	1	0	0	0	2	2	1	1	4	4	5	2	4	4	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:2408410C>T	uc010xgx.1	+	7	797	c.797C>T	c.(796-798)TCG>TTG	p.S266L	TMPRSS9_uc002lvv.1_Missense_Mutation_p.S300L	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	266	Extracellular (Potential).|Peptidase S1 1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCAGCGGCTCGGAGGCCAGC	0.637													25	66					0	0	0.004656	0	0		T	2408410	T	T	2408410	3	4	37	1	0	0	0	0	1	0	0	0	16278	893	31	1	823	1	TMPRSS9	19	2408410	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	495434	2408410	56720573	874	33119											
LMNB2	84823	broad.mit.edu	37	chr19	2433834	2433834	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccggtcaccttgtccgagTtgttcttgagctgcacaaac	7	13	9	12	2	2	1	1	1	1	0	4	2	4	1	3	1	3	4	3	1	1	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:2433834T>C	uc002lvy.2	-	8	1499	c.1412A>G	c.(1411-1413)AAC>AGC	p.N471S	LMNB2_uc002lwa.1_Missense_Mutation_p.N491S	NM_032737	NP_116126	Q03252	LMNB2_HUMAN	lamin B2	471	Tail.					nuclear inner membrane	structural molecule activity			large_intestine(1)|ovary(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTGTCCGAGTTGTTCTTGAG	0.657													7	113					0	0	0.001984	0	0		C	2433834	C	C	2433834	3	2	37	1	0	0	0	0	1	0	0	0	8867	1725	60	3	410	3	LMNB2	19	2433834	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	25424	2433834	56695149	875	33120											
PIP5K1C	23396	broad.mit.edu	37	chr19	3646034	3646034	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcgctcggcatagaagctgGggcggtggacggacaccgtg	8	5	18	10	5	0	1	0	0	0	1	1	3	0	3	1	6	2	3	1	6	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:3646034G>T	uc002lyj.1	-	11	1340	c.1283C>A	c.(1282-1284)CCC>CAC	p.P428H	PIP5K1C_uc010xhq.1_Missense_Mutation_p.P428H|PIP5K1C_uc010xhr.1_Missense_Mutation_p.P428H	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	428	PIPK.				axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		ATAGAAGCTGGGGCGGTGGAC	0.622													13	88					4.3838e-07	4.78481e-07	0.001855	1	0		T	3646034	T	T	3646034	3	4	37	1	0	0	0	0	1	0	0	0	11960	1232	43	5	755	5	PIP5K1C	19	3646034	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1212200	3646034	55482949	876	33121											
FSD1	79187	broad.mit.edu	37	chr19	4323414	4323414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaccaggttcacacagcCgctgctgcctgctttcacgg	8	8	10	15	2	2	1	2	0	0	1	2	1	2	1	3	2	4	4	3	2	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:4323414C>T	uc002lzy.2	+	12	1514	c.1361C>T	c.(1360-1362)CCG>CTG	p.P454L	FSD1_uc002lzz.2_Missense_Mutation_p.R424C|FSD1_uc002maa.2_Missense_Mutation_p.P267L	NM_024333	NP_077309	Q9BTV5	FSD1_HUMAN	fibronectin type III and SPRY domain containing	454	B30.2/SPRY.				cell division|mitosis	cleavage furrow|microtubule|microtubule organizing center|nucleus				skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.034)|STAD - Stomach adenocarcinoma(1328;0.18)		TTCACACAGCCGCTGCTGCCT	0.657													12	30					0	0	0.00245	0	0		T	4323414	T	T	4323414	3	4	37	1	0	0	0	0	1	0	0	0	6084	652	23	1	1407	1	FSD1	19	4323414	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	677380	4323414	54805569	877	33122											
UHRF1	29128	broad.mit.edu	37	chr19	4929423	4929423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccacggtgaggcggccGccgagactgacagcaggcca	9	2	14	16	4	0	3	0	2	0	1	0	4	0	3	5	4	1	1	5	4	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:4929423G>A	uc002mbo.2	+	3	511	c.343G>A	c.(343-345)GCC>ACC	p.A115T	UHRF1_uc010xik.1_Intron|UHRF1_uc010duf.2_RNA|UHRF1_uc002mbp.2_Missense_Mutation_p.A128T	NM_001048201	NP_001041666	Q96T88	UHRF1_HUMAN	ubiquitin-like with PHD and ring finger domains	115					cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)		TGAGGCGGCCGCCGAGACTGA	0.652													13	28					0	0	0.001855	0	0		A	4929423	A	A	4929423	3	1	37	1	0	0	0	0	1	0	0	0	16993	1087	38	1	388	1	UHRF1	19	4929423	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	606009	4929423	54199560	878	33123											
SAFB2	9667	broad.mit.edu	37	chr19	5590402	5590402	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggggtcctccgtggccatgGcggtcatctccatagtgctg	4	10	15	12	2	2	0	1	0	1	0	5	0	4	0	4	5	1	1	4	5	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:5590402G>A	uc002mcd.2	-	18	2624	c.2412C>T	c.(2410-2412)CGC>CGT	p.R804R		NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	804	Interacts with SAFB1.|Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		CGTGGCCATGGCGGTCATCTC	0.667													6	39					0	0	0.001984	0	0		A	5590402	A	A	5590402	2	1	37	1	0	0	0	0	0	0	0	1	13832	1190	42	2		2	SAFB2	19	5590402	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	660979	5590402	53538581	879	33124											
FBN3	84467	broad.mit.edu	37	chr19	8137014	8137014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcgtagcaggcttcagacGagagcagctcctctttgtcc	8	11	10	12	2	2	2	1	0	1	2	5	3	4	2	2	1	3	5	2	1	1	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:8137014G>A	uc002mjf.2	-	62	8027	c.8006C>T	c.(8005-8007)TCG>TTG	p.S2669L	FBN3_uc002mje.2_Missense_Mutation_p.S465L	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2669						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GGCTTCAGACGAGAGCAGCTC	0.657													42	223					0	0	0.01441	0	0		A	8137014	A	A	8137014	3	1	37	1	0	0	0	0	1	0	0	0	5718	1059	37	1	431	1	FBN3	19	8137014	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2546612	8137014	50991969	880	33125											
RAB11B	9230	broad.mit.edu	37	chr19	8464825	8464825	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacgagttcaacctggagaGcaagagcaccatcggcgtgg	12	5	13	11	3	1	2	1	0	0	2	2	4	1	2	2	3	4	3	2	3	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:8464825G>T	uc002mju.3	+	2	215	c.119G>T	c.(118-120)AGC>ATC	p.S40I	RAB11B_uc010xkd.1_Missense_Mutation_p.S40I	NM_004218	NP_004209	Q15907	RB11B_HUMAN	RAB11B, member RAS oncogene family	40	Effector region (By similarity).				cell cycle|protein transport|small GTPase mediated signal transduction	plasma membrane	GDP binding|GTP binding|GTPase activity				0						AACCTGGAGAGCAAGAGCACC	0.642													6	45					3.59834e-05	3.82557e-05	0.001168	1	0		T	8464825	T	T	8464825	3	4	37	1	0	0	0	0	1	0	0	0	12917	971	34	5	125	5	RAB11B	19	8464825	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	327811	8464825	50664158	881	33126											
HNRNPM	4670	broad.mit.edu	37	chr19	8548060	8548060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatcctaagtaatgcacTgaagagaggagagatcattg	17	8	11	5	0	1	4	1	1	0	3	2	7	2	5	1	1	1	2	1	1	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:8548060T>C	uc010dwe.2	+	13	1219	c.1139T>C	c.(1138-1140)CTG>CCG	p.L380P	HNRNPM_uc010xke.1_Missense_Mutation_p.L326P|HNRNPM_uc010dwd.2_Missense_Mutation_p.L341P|HNRNPM_uc002mka.2_Missense_Mutation_p.L245P	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	380					alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						AGTAATGCACTGAAGAGAGGA	0.378													7	42					0	0	0.004482	0	0		C	8548060	C	C	8548060	3	2	37	1	0	0	0	0	1	0	0	0	7287	1580	55	3	1189	3	HNRNPM	19	8548060	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	83235	8548060	50580923	882	33127											
OR7E24	26648	broad.mit.edu	37	chr19	9362135	9362135	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagtgtgatggcctatgAccggtttgtggccatctgtc	5	13	13	10	1	1	3	0	3	1	0	2	3	1	3	4	3	0	1	4	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:9362135A>T	uc002mlb.1	+	1	416	c.416A>T	c.(415-417)GAC>GTC	p.D139V		NM_001079935	NP_001073404	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ATGGCCTATGACCGGTTTGTG	0.458													20	64					0	0	0.008871	0	0		T	9362135	T	T	9362135	3	4	37	1	0	0	0	0	1	0	0	0	11240	275	10	5	418	5	OR7E24	19	9362135	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	814075	9362135	49766848	883	33128											
DNM2	1785	broad.mit.edu	37	chr19	10893787	10893787	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgccacatctgcagaagacGctgaatcaggtactgcaagg	13	6	11	11	2	2	3	1	1	1	2	2	3	2	3	1	2	3	4	1	2	4	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:10893787G>A	uc002mps.1	+	6	1004	c.840G>A	c.(838-840)ACG>ACA	p.T280T	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Silent_p.T280T|DNM2_uc002mpv.1_Silent_p.T280T|DNM2_uc002mpu.1_Silent_p.T280T|DNM2_uc010dxl.1_Silent_p.T280T|DNM2_uc002mpw.2_Silent_p.T13T	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	280					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			TGCAGAAGACGCTGAATCAGG	0.577													13	53					0	0	0.001855	0	0		A	10893787	A	A	10893787	2	1	37	1	0	0	0	0	0	0	0	1	4678	1074	38	1		1	DNM2	19	10893787	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1531652	10893787	48235196	884	33129											
ZNF442	79973	broad.mit.edu	37	chr19	12461464	12461464	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccagtgtgagttcttTcatgtattcgaagggaactg	8	15	10	8	1	3	1	1	1	2	0	6	3	4	2	1	1	1	2	1	1	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:12461464T>C	uc002mtr.1	-	6	1546	c.935A>G	c.(934-936)GAA>GGA	p.E312G	ZNF442_uc010xmk.1_Missense_Mutation_p.E243G	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	312	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						GTGAGTTCTTTCATGTATTCG	0.418													69	169					0	0	0.01441	0	0		C	12461464	C	C	12461464	3	2	37	1	0	0	0	0	1	0	0	0	17940	1783	62	3	952	3	ZNF442	19	12461464	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1567677	12461464	46667519	885	33130											
TNPO2	30000	broad.mit.edu	37	chr19	12826220	12826220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagggagctgcacccaccGgatcttgggactgcagtgct	7	7	13	14	1	1	0	0	0	1	0	1	3	1	3	3	3	4	4	3	3	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:12826220G>A	uc002muo.2	-	6	750	c.565C>T	c.(565-567)CGG>TGG	p.R189W	TNPO2_uc002mup.2_Missense_Mutation_p.R281W|TNPO2_uc002muq.2_Missense_Mutation_p.R189W|TNPO2_uc002mur.2_Missense_Mutation_p.R189W	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	189	HEAT 2.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						TGCACCCACCGGATCTTGGGA	0.627													19	75					0	0	0.008871	0	0		A	12826220	A	A	12826220	3	1	37	1	0	0	0	0	1	0	0	0	16361	1130	39	1	2204	1	TNPO2	19	12826220	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	364756	12826220	46302763	886	33131											
LPHN1	22859	broad.mit.edu	37	chr19	14272389	14272389	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctgtgctggtgaggggCgtgggcctggctgtggtggt	2	10	23	6	1	0	1	0	1	0	0	0	2	0	1	1	8	1	3	1	8	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:14272389C>T	uc010xnn.1	-	7	1556	c.1260G>A	c.(1258-1260)ACG>ACA	p.T420T	LPHN1_uc010xno.1_Silent_p.T415T|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	420	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						TGGTGAGGGGCGTGGGCCTGG	0.697													3	22					0	0	0.009096	0	0		T	14272389	T	T	14272389	2	4	37	1	0	0	0	0	0	0	0	1	8933	755	27	1		1	LPHN1	19	14272389	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1446169	14272389	44856594	887	33132											
CYP4F3	4051	broad.mit.edu	37	chr19	15760769	15760769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggagctcagtgcccttGtgacaaaaagacaccagcag	12	8	10	11	0	2	2	1	1	1	1	2	3	2	3	2	1	3	2	2	1	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:15760769G>A	uc002nbj.2	+	7	744	c.694G>A	c.(694-696)GTG>ATG	p.V232M	CYP4F3_uc010xok.1_Missense_Mutation_p.V232M|CYP4F3_uc010xol.1_Missense_Mutation_p.V232M|CYP4F3_uc010xom.1_Missense_Mutation_p.V83M|CYP4F3_uc002nbk.2_Missense_Mutation_p.V232M|CYP4F3_uc010xon.1_5'Flank	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	232					leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						CAGTGCCCTTGTGACAAAAAG	0.532													8	261					0	0	0.004482	0	0		A	15760769	A	A	15760769	3	1	37	1	0	0	0	0	1	0	0	0	4193	1377	48	4	716	4	CYP4F3	19	15760769	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1488380	15760769	43368214	888	33133											
SIN3B	23309	broad.mit.edu	37	chr19	16977341	16977341	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgctccaagagcttgctcAacgagatcgagagcgtctac	10	8	11	12	4	2	3	1	0	1	3	4	5	3	3	1	0	6	3	1	0	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:16977341A>G	uc002ney.1	+	13	1890	c.1876A>G	c.(1876-1878)AAC>GAC	p.N626D	SIN3B_uc002nez.1_Missense_Mutation_p.N594D|SIN3B_uc010xpi.1_Missense_Mutation_p.N184D	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	626					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						GAGCTTGCTCAACGAGATCGA	0.627													17	52					0	0	0.006122	0	0		G	16977341	G	G	16977341	3	3	37	1	0	0	0	0	1	0	0	0	14351	130	5	3	1926	3	SIN3B	19	16977341	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1216572	16977341	42151642	889	33134											
GTPBP3	84705	broad.mit.edu	37	chr19	17450368	17450368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgggttgcgggagggcgtgGggcccgtggagcaggagggc	4	5	24	8	3	0	0	0	0	0	0	0	3	0	3	1	8	2	2	1	8	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:17450368G>A	uc010eas.2	+	7	999	c.934G>A	c.(934-936)GGG>AGG	p.G312R	GTPBP3_uc010xpo.1_Missense_Mutation_p.G334R|GTPBP3_uc010ear.1_RNA|GTPBP3_uc002ngh.3_Missense_Mutation_p.G312R|GTPBP3_uc002ngg.3_Missense_Mutation_p.G344R|GTPBP3_uc002ngi.3_5'UTR	NM_032620	NP_116009	Q969Y2	GTPB3_HUMAN	GTP binding protein 3 (mitochondrial) isoform V	312					tRNA modification	mitochondrion	GTP binding|GTPase activity			skin(1)	1						GGAGGGCGTGGGGCCCGTGGA	0.716													5	32					0	0	0.001168	0	0		A	17450368	A	A	17450368	3	1	37	1	0	0	0	0	1	0	0	0	6897	1232	43	4	1052	4	GTPBP3	19	17450368	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	473027	17450368	41678615	890	33135											
NCAN	1463	broad.mit.edu	37	chr19	19338930	19338930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatggattccacagtcaCgccggcccccagtgatgcta	8	8	9	16	2	1	1	1	1	0	0	3	2	3	2	5	2	1	1	5	2	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:19338930C>T	uc002nlz.2	+	8	2600	c.2501C>T	c.(2500-2502)ACG>ATG	p.T834M	NCAN_uc010ecc.1_Missense_Mutation_p.T398M	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	834					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			TCCACAGTCACGCCGGCCCCC	0.547													14	61					0	0	0.00245	0	0		T	19338930	T	T	19338930	3	4	37	1	0	0	0	0	1	0	0	0	10223	536	19	1	2527	1	NCAN	19	19338930	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1888562	19338930	39790053	891	33136											
NCAN	1463	broad.mit.edu	37	chr19	19339050	19339050	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcattgtgacgcccctcaCgaccctggagcagggggaca	10	5	13	13	2	1	1	1	1	0	0	1	4	1	3	3	3	2	2	3	3	1	1	rs148196919		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:19339050C>T	uc002nlz.2	+	8	2720	c.2621C>T	c.(2620-2622)ACG>ATG	p.T874M	NCAN_uc010ecc.1_Missense_Mutation_p.T438M	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	874					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			ACGCCCCTCACGACCCTGGAG	0.587													17	104					0	0	0.006122	0	0		T	19339050	T	T	19339050	3	4	37	1	0	0	0	0	1	0	0	0	10223	536	19	1	2647	1	NCAN	19	19339050	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	120	19339050	39789933	892	33137											
HAPLN4	404037	broad.mit.edu	37	chr19	19371869	19371869	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttgagccggacgccgtcGtgaccgtgggcggctgcctc	4	7	15	15	6	0	2	0	2	0	0	2	3	0	3	4	3	2	1	4	3	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:19371869G>A	uc002nmb.2	-	3	292	c.237C>T	c.(235-237)CAC>CAT	p.H79H	HAPLN4_uc002nmc.2_Silent_p.H79H	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	79	Ig-like C2-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			GGACGCCGTCGTGACCGTGGG	0.662													10	27					0	0	0.010729	0	0		A	19371869	A	A	19371869	2	1	37	1	0	0	0	0	0	0	0	1	6973	1136	40	1		1	HAPLN4	19	19371869	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	32819	19371869	39757114	893	33138											
CILP2	148113	broad.mit.edu	37	chr19	19656297	19656297	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggagtgtgcgagacccCgagcgtccgggcacctcggc	5	4	16	16	6	0	1	0	0	0	1	2	4	1	2	5	3	2	1	5	3	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:19656297C>T	uc002nmv.3	+	8	3028	c.2943C>T	c.(2941-2943)CCC>CCT	p.P981P	CILP2_uc002nmw.3_Silent_p.P987P	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	981						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						TGCGAGACCCCGAGCGTCCGG	0.677													7	31					0	0	0.001984	0	0		T	19656297	T	T	19656297	2	4	37	1	0	0	0	0	0	0	0	1	3433	639	23	1		1	CILP2	19	19656297	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	284428	19656297	39472686	894	33139											
ATP13A1	57130	broad.mit.edu	37	chr19	19766902	19766902	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctgtggggggatgtgctGcaccaccttggtgcccccga	4	11	14	12	1	1	0	0	0	1	0	1	2	1	1	4	4	3	2	4	4	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:19766902G>A	uc002nnh.3	-	8	1202	c.1174C>T	c.(1174-1176)CAG>TAG	p.Q392*	ATP13A1_uc002nnf.3_5'Flank|ATP13A1_uc002nng.2_Nonsense_Mutation_p.Q274*	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	392	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						GGGATGTGCTGCACCACCTTG	0.652													15	53					0	0	0.004007	0	0		A	19766902	A	A	19766902	4	1	37	1	0	0	0	0	0	1	0	0	1124	1328	46	2	2516	2	ATP13A1	19	19766902	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	110605	19766902	39362081	895	33140											
ZNF253	56242	broad.mit.edu	37	chr19	20002841	20002841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctacaaatgtgaagaatgtgGcaaagccttcaaccgatcca	15	8	8	10	1	1	2	1	1	0	1	2	3	2	2	3	1	3	1	3	1	6	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:20002841G>A	uc002noj.2	+	4	877	c.785G>A	c.(784-786)GGC>GAC	p.G262D	ZNF253_uc002nok.2_Missense_Mutation_p.G186D|ZNF253_uc002nol.2_RNA	NM_021047	NP_066385	O75346	ZN253_HUMAN	zinc finger protein 253	262	C2H2-type 4.			Missing (in Ref. 1; AAC26844).	negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAAGAATGTGGCAAAGCCTTC	0.403													15	60					0	0	0.003163	0	0		A	20002841	A	A	20002841	3	1	37	1	0	0	0	0	1	0	0	0	17822	1203	42	2	799	2	ZNF253	19	20002841	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	235939	20002841	39126142	896	33141											
TSHZ3	57616	broad.mit.edu	37	chr19	31769867	31769867	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggagtggccacagtacaTgcacttcagcaccttctggg	11	8	11	11	0	2	0	1	0	1	0	2	1	2	1	2	3	3	3	2	3	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:31769867T>C	uc002nsy.3	-	2	897	c.832A>G	c.(832-834)ATG>GTG	p.M278V		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	278	C2H2-type 2.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CCACAGTACATGCACTTCAGC	0.512													40	162					0	0	0.006999	0	0		C	31769867	C	C	31769867	3	2	37	1	0	0	0	0	1	0	0	0	16651	1464	51	3	2417	3	TSHZ3	19	31769867	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	11767026	31769867	27359116	897	33142											
ZNF181	339318	broad.mit.edu	37	chr19	35232137	35232137	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcccttacacgacatcTgataagccatagtggagaga	13	9	8	11	1	2	2	1	1	1	1	3	5	3	3	2	1	2	0	2	1	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:35232137T>A	uc002nvu.3	+	4	1314	c.851T>A	c.(850-852)CTG>CAG	p.L284Q	ZNF181_uc010xsa.1_Missense_Mutation_p.L283Q|ZNF181_uc010xsb.1_Missense_Mutation_p.L283Q|ZNF181_uc010xsc.1_Missense_Mutation_p.L219Q	NM_001029997	NP_001025168	Q2M3W8	ZN181_HUMAN	zinc finger protein 181 isoform 1	284	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			ACACGACATCTGATAAGCCAT	0.448													4	103					0	0	0.000602	0	0		A	35232137	A	A	35232137	3	1	37	1	0	0	0	0	1	0	0	0	17774	1580	55	5	865	5	ZNF181	19	35232137	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	3462270	35232137	23896846	898	33143											
ZNF181	339318	broad.mit.edu	37	chr19	35232234	35232234	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccatcagagcactcacacTggagagaaaccatatgaatg	17	6	8	10	0	2	3	2	1	0	2	2	5	2	4	2	1	3	1	2	1	4	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:35232234T>G	uc002nvu.3	+	4	1411	c.948T>G	c.(946-948)ACT>ACG	p.T316T	ZNF181_uc010xsa.1_Silent_p.T315T|ZNF181_uc010xsb.1_Silent_p.T315T|ZNF181_uc010xsc.1_Silent_p.T251T	NM_001029997	NP_001025168	Q2M3W8	ZN181_HUMAN	zinc finger protein 181 isoform 1	316					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			GCACTCACACTGGAGAGAAAC	0.383													10	78					0	0	0.010729	0	0		G	35232234	G	G	35232234	2	3	37	1	0	0	0	0	0	0	0	1	17774	1567	55	5		5	ZNF181	19	35232234	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	97	35232234	23896749	899	33144											
ZNF30	90075	broad.mit.edu	37	chr19	35434229	35434229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataagtagacagaaaccacGtgaatgtcaggaatatggaa	19	7	10	5	1	1	3	1	1	0	2	1	5	1	5	1	2	1	1	1	2	8	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:35434229G>A	uc010edp.1	+	5	737	c.359G>A	c.(358-360)CGT>CAT	p.R120H	ZNF30_uc002nxf.2_Missense_Mutation_p.R39H|ZNF30_uc010edq.1_Missense_Mutation_p.R121H|ZNF30_uc010edr.1_Missense_Mutation_p.R121H	NM_194325	NP_919306	P17039	ZNF30_HUMAN	zinc finger protein 30 isoform b	120	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_lung(56;8.38e-08)|Lung NSC(56;1.31e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)	GBM - Glioblastoma multiforme(1328;0.0265)		CAGAAACCACGTGAATGTCAG	0.383													5	60					0	0	0.000602	0	0		A	35434229	A	A	35434229	3	1	37	1	0	0	0	0	1	0	0	0	17855	1145	40	1	376	1	ZNF30	19	35434229	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	201995	35434229	23694754	900	33145											
GRAMD1A	57655	broad.mit.edu	37	chr19	35500086	35500086	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgctccggaaacggctgcaGctcctgcccccaagccggcc	6	5	11	19	4	0	0	0	0	0	0	3	1	2	1	6	3	5	4	6	3	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:35500086G>A	uc010xse.1	+	2	209	c.72G>A	c.(70-72)CAG>CAA	p.Q24Q	GRAMD1A_uc002nxi.1_Silent_p.Q111Q|GRAMD1A_uc002nxk.2_Silent_p.Q24Q|GRAMD1A_uc002nxl.2_5'UTR|GRAMD1A_uc010xsf.1_Silent_p.Q29Q	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	24						integral to membrane					0	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			AACGGCTGCAGCTCCTGCCCC	0.642													5	112					0	0	0.001984	0	0		A	35500086	A	A	35500086	2	1	37	1	0	0	0	0	0	0	0	1	6763	962	34	2		2	GRAMD1A	19	35500086	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	65857	35500086	23628897	901	33146											
ATP4A	495	broad.mit.edu	37	chr19	36046105	36046105	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatggaggcaaagttgtcAtccagcaggatcatgtcagc	13	8	11	9	0	3	0	3	0	0	0	4	2	4	2	1	3	2	3	1	3	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:36046105A>G	uc002oal.1	-	15	2318	c.2289T>C	c.(2287-2289)GAT>GAC	p.D763D	ATP4A_uc010eee.1_5'UTR	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	763	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	CAAAGTTGTCATCCAGCAGGA	0.597													13	46					0	0	0.00245	0	0		G	36046105	G	G	36046105	2	3	37	1	0	0	0	0	0	0	0	1	1146	214	8	3		3	ATP4A	19	36046105	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	546019	36046105	23082878	902	33147											
ATP4A	495	broad.mit.edu	37	chr19	36050029	36050029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagcccaatgtctccaccGcctccaggttcttgaccacg	7	9	9	16	2	2	1	0	1	2	0	4	2	3	2	6	2	1	1	6	2	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:36050029G>A	uc002oal.1	-	8	1150	c.1121C>T	c.(1120-1122)GCG>GTG	p.A374V	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	374	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	TGTCTCCACCGCCTCCAGGTT	0.602													45	187					0	0	0.01441	0	0		A	36050029	A	A	36050029	3	1	37	1	0	0	0	0	1	0	0	0	1146	1087	38	1	2046	1	ATP4A	19	36050029	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3924	36050029	23078954	903	33148											
ZBTB32	27033	broad.mit.edu	37	chr19	36207582	36207582	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggaccatccgctccacCttcctctactcctcctcgag	6	10	7	18	2	1	0	0	0	1	0	7	3	6	2	7	2	1	1	7	2	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:36207582C>A	uc002oay.2	+	6	1602	c.1392C>A	c.(1390-1392)ACC>ACA	p.T464T	ZBTB32_uc002oaz.2_RNA|MLL4_uc010eei.2_5'Flank	NM_014383	NP_055198	Q9Y2Y4	ZBT32_HUMAN	zinc finger and BTB domain containing 32	464					DNA repair|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleoplasm	DNA binding|protein binding|transcription corepressor activity|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TCCGCTCCACCTTCCTCTACT	0.672											OREG0025433	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	92					1.04594e-18	1.21041e-18	0.00623	1	0		A	36207582	A	A	36207582	2	1	37	1	0	0	0	0	0	0	0	1	17560	668	24	5		5	ZBTB32	19	36207582	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	157553	36207582	22921401	904	33149											
CLIP3	25999	broad.mit.edu	37	chr19	36510151	36510151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggttcgtccagctccaCgcccacccactggccgctgg	5	7	10	19	3	1	0	1	0	0	0	4	0	3	0	5	3	1	3	5	3	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:36510151C>T	uc010eeq.1	-	7	1258	c.976G>A	c.(976-978)GTG>ATG	p.V326M	uc002ocy.2_Missense_Mutation_p.R22C|CLIP3_uc002ocz.1_Missense_Mutation_p.V326M	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	326	CAP-Gly 1.				chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TCCAGCTCCACGCCCACCCAC	0.637													11	37					0	0	0.010729	0	0		T	36510151	T	T	36510151	3	4	37	1	0	0	0	0	1	0	0	0	3537	536	19	1	695	1	CLIP3	19	36510151	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	302569	36510151	22618832	905	33150											
ZNF571	51276	broad.mit.edu	37	chr19	38057129	38057129	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatattctcccactggagTgattccatttcataaatttc	10	15	4	12	0	2	1	1	1	1	0	5	2	3	2	3	1	0	0	3	1	3	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:38057129T>C	uc002ogt.2	-	4	302	c.201A>G	c.(199-201)TCA>TCG	p.S67S	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Silent_p.S67S	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	67	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CCCACTGGAGTGATTCCATTT	0.388													13	79					0	0	0.013537	0	0		C	38057129	C	C	38057129	2	2	37	1	0	0	0	0	0	0	0	1	18028	1683	59	3		3	ZNF571	19	38057129	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1546978	38057129	21071854	906	33151											
HNRNPL	3191	broad.mit.edu	37	chr19	39321970	39321970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccagaagaccttgttcatgGcattcctcttgttgggccgg	6	13	11	11	1	2	2	1	0	1	2	4	2	4	2	4	3	0	3	4	3	1	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:39321970G>A	uc002ojj.1	-	6	946	c.866C>T	c.(865-867)GCC>GTC	p.A289V	ECH1_uc002oji.2_Missense_Mutation_p.A80V|ECH1_uc010xuk.1_Missense_Mutation_p.A80V|HNRNPL_uc010ege.1_Intron	NM_001005335	NP_001005335	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	Error:Variant_position_missing_in_P14866_after_alignment					nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			CTTGTTCATGGCATTCCTCTT	0.602													18	156					0	0	0.007413	0	0		A	39321970	A	A	39321970	3	1	37	1	0	0	0	0	1	0	0	0	7286	1203	42	2		2	HNRNPL	19	39321970	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1264841	39321970	19807013	907	33152											
PAF1	54623	broad.mit.edu	37	chr19	39880926	39880926	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagagtccggtgggaattGggcctagtggagaagaaaga	12	6	18	5	1	0	4	0	0	0	4	1	6	1	5	2	5	0	1	2	5	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:39880926G>T	uc002old.2	-	2	226	c.51C>A	c.(49-51)CCC>CCA	p.P17P	PAF1_uc002ole.1_Intron|PAF1_uc010xuv.1_RNA|MED29_uc010xuw.1_5'Flank|MED29_uc002olf.2_5'Flank|MED29_uc010xux.1_5'Flank	NM_019088	NP_061961	Q8N7H5	PAF1_HUMAN	Paf1, RNA polymerase II associated factor,	17					histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			pancreas(1)	1	all_cancers(60;9.14e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.88e-06)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			GGTGGGAATTGGGCCTAGTGG	0.592													12	15					2.80697e-09	3.13046e-09	0.010729	1	0		T	39880926	T	T	39880926	2	4	37	1	0	0	0	0	0	0	0	1	11402	1335	47	5		5	PAF1	19	39880926	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	558956	39880926	19248057	908	33153											
FBL	2091	broad.mit.edu	37	chr19	40328363	40328363	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccctcaccgatgagcatgcGgtatttgtgtgggtgtcgag	6	11	14	10	3	1	1	1	1	0	0	2	3	1	1	3	2	2	2	3	2	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:40328363G>T	uc002omn.2	-	6	784	c.670C>A	c.(670-672)CGC>AGC	p.R224S	FBL_uc002omm.1_Missense_Mutation_p.R138S|FBL_uc002omo.2_Missense_Mutation_p.R223S	NM_001436	NP_001427	P22087	FBRL_HUMAN	fibrillarin	224					rRNA processing|tRNA processing	box C/D snoRNP complex|Cajal body	methyltransferase activity|protein binding|RNA binding			ovary(1)	1	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)	Renal(1328;0.000518)|Hepatocellular(1079;0.0893)	Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)	GBM - Glioblastoma multiforme(1328;0.000826)|STAD - Stomach adenocarcinoma(1328;0.138)		ATGAGCATGCGGTATTTGTGT	0.587													14	117					4.14922e-12	4.6999e-12	0.004007	1	0		T	40328363	T	T	40328363	3	4	37	1	0	0	0	0	1	0	0	0	5710	1116	39	5	311	5	FBL	19	40328363	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	447437	40328363	18800620	909	33154											
BCKDHA	593	broad.mit.edu	37	chr19	41929040	41929042	+	In_Frame_Del	DEL	AGG	-	-																															aggctggtgggatgaggagcAggagaaggcctggaggaagc																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:41929040_41929042delAGG	uc002oqq.2	+	8	1162_1164	c.1133_1135delAGG	c.(1132-1137)CAGGAG>CAG	p.E379del	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_In_Frame_Del_p.E413del|BCKDHA_uc002oqr.2_In_Frame_Del_p.E378del|BCKDHA_uc010xvz.1_In_Frame_Del_p.E382del	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	379					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						GATGAGGAGCAGGAGAAGGCCTG	0.635													3	4	---	---	---	---						.	-	41929042	-	-	41929040	7	5	37	1	0	1	0	1	0	0	0	0	1360	188	7	0	1163	0	BCKDHA	19	41929040	In_Frame_Del	DEL	AGG	TCGA-BR-6566-01A-11D-1800-08	1600677	41929040	17199943	910	33155											
ATP1A3	478	broad.mit.edu	37	chr19	42489310	42489310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatgacagtgcggtcgccCgtggccaccaccacgccccg	6	4	11	20	5	0	1	0	1	0	0	1	1	0	1	7	2	1	0	7	2	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:42489310C>T	uc002osg.2	-	8	907	c.753G>A	c.(751-753)ACG>ACA	p.T251T	ATP1A3_uc010xwf.1_Silent_p.T262T|ATP1A3_uc010xwg.1_Silent_p.T221T|ATP1A3_uc010xwh.1_Silent_p.T264T|ATP1A3_uc002osh.2_Silent_p.T251T	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	251	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						TGCGGTCGCCCGTGGCCACCA	0.672													3	34					0	0	0.009096	0	0		T	42489310	T	T	42489310	2	4	37	1	0	0	0	0	0	0	0	1	1131	639	23	1		1	ATP1A3	19	42489310	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	560270	42489310	16639673	911	33156											
GRIK5	2901	broad.mit.edu	37	chr19	42560855	42560855	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcacagttctccctccAggacatgttgaggctgcgga	7	10	12	12	1	2	1	1	1	1	0	4	3	3	3	2	4	1	4	2	4	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:42560855A>G	uc002osj.1	-	7	897	c.862T>C	c.(862-864)TGG>CGG	p.W288R	GRIK5_uc010eib.1_Missense_Mutation_p.W207R	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	288	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	TTCTCCCTCCAGGACATGTTG	0.502													20	68					0	0	0.008871	0	0		G	42560855	G	G	42560855	3	3	37	1	0	0	0	0	1	0	0	0	6793	188	7	3	2132	3	GRIK5	19	42560855	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	71545	42560855	16568128	912	33157											
ZNF224	7767	broad.mit.edu	37	chr19	44610781	44610781	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaatggatataaaccatcCttcagtgatgtctcccactt	11	12	7	11	0	2	1	1	1	1	0	4	2	3	2	3	2	1	1	3	2	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:44610781C>A	uc002oyh.1	+	6	770	c.468C>A	c.(466-468)TCC>TCA	p.S156S	uc002oyi.2_RNA	NM_013398	NP_037530	Q9NZL3	ZN224_HUMAN	zinc finger protein 224	156					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				ATAAACCATCCTTCAGTGATG	0.418													26	95					1.42536e-11	1.61008e-11	0.004656	1	0		A	44610781	A	A	44610781	2	1	37	1	0	0	0	0	0	0	0	1	17803	668	24	5		5	ZNF224	19	44610781	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2049926	44610781	14518202	913	33158											
ZNF224	7767	broad.mit.edu	37	chr19	44611657	44611657	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttgactttcaccagcgCgtccatacaggagagaaact	12	9	9	11	2	2	2	1	1	1	1	3	5	3	3	2	1	3	0	2	1	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:44611657C>T	uc002oyh.1	+	6	1646	c.1344C>T	c.(1342-1344)CGC>CGT	p.R448R	uc002oyi.2_RNA	NM_013398	NP_037530	Q9NZL3	ZN224_HUMAN	zinc finger protein 224	448	C2H2-type 10.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				TTCACCAGCGCGTCCATACAG	0.463													4	84					0	0	0.000602	0	0		T	44611657	T	T	44611657	2	4	37	1	0	0	0	0	0	0	0	1	17803	755	27	1		1	ZNF224	19	44611657	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	876	44611657	14517326	914	33159											
PPM1N	147699	broad.mit.edu	37	chr19	46002426	46002426	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctggccgtgtcgcgagcGttgggcgactttacctacaa	6	11	12	12	5	1	0	0	0	1	0	3	2	1	0	2	2	3	1	2	2	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:46002426G>A	uc002pce.2	+	1	696	c.696G>A	c.(694-696)GCG>GCA	p.A232A	RTN2_uc002pcb.2_5'Flank|RTN2_uc002pcc.2_5'Flank|RTN2_uc002pcd.2_5'Flank|PPM1N_uc002pcf.2_5'Flank	NM_001080401	NP_001073870	Q8N819	PPM1N_HUMAN	protein phosphatase 1B-like	232	PP2C-like.						magnesium ion binding|manganese ion binding|phosphoprotein phosphatase activity				0						TGTCGCGAGCGTTGGGCGACT	0.721													11	53					0	0	0.013537	0	0		A	46002426	A	A	46002426	2	1	37	1	0	0	0	0	0	0	0	1	12368	1132	40	1		1	PPM1N	19	46002426	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1390769	46002426	13126557	915	33160											
OPA3	80207	broad.mit.edu	37	chr19	46032599	46032599	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgatgaagatgatgccCtcgcccagcagctccgcgcc	7	6	13	15	4	0	4	0	3	0	1	2	4	1	4	4	1	3	2	4	1	1	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:46032599C>A	uc002pcj.3	-	2	358	c.258G>T	c.(256-258)GAG>GAT	p.E86D		NM_001017989	NP_001017989	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform a	86					response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)		AGATGATGCCCTCGCCCAGCA	0.627													35	114					6.90743e-12	7.80978e-12	0.003755	1	0		A	46032599	A	A	46032599	3	1	37	1	0	0	0	0	1	0	0	0	10891	680	24	5	288	5	OPA3	19	46032599	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	30173	46032599	13096384	916	33161											
SNRPD2	6633	broad.mit.edu	37	chr19	46190822	46190822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcggcccctacttgccggCgatgagcgggttccgcagga	6	6	16	13	5	0	1	0	1	0	0	1	3	1	2	4	5	3	2	4	5	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:46190822C>T	uc002pcw.2	-	3	643	c.346G>A	c.(346-348)GCC>ACC	p.A116T	SNRPD2_uc002pcv.2_Missense_Mutation_p.A106T	NM_004597	NP_004588	P62316	SMD2_HUMAN	small nuclear ribonucleoprotein D2 isoform 1	116					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00546)|GBM - Glioblastoma multiforme(486;0.0807)|Epithelial(262;0.194)		TACTTGCCGGCGATGAGCGGG	0.532													6	65					0	0	0.004482	0	0		T	46190822	T	T	46190822	3	4	37	1	0	0	0	0	1	0	0	0	14890	768	27	1	14	1	SNRPD2	19	46190822	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	158223	46190822	12938161	917	33162											
FBXO46	23403	broad.mit.edu	37	chr19	46216383	46216383	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggagctatcgctgcccCagtgccccttgaccttcatg	5	11	9	16	1	1	1	1	1	0	0	2	2	1	2	6	1	3	2	6	1	1	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:46216383C>A	uc002pcy.2	-	2	496	c.371G>T	c.(370-372)TGG>TTG	p.W124L	FBXO46_uc002pcz.2_Missense_Mutation_p.W124L	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	124							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		ATCGCTGCCCCAGTGCCCCTT	0.667													6	80					3.59834e-05	3.82557e-05	0.001168	1	0		A	46216383	A	A	46216383	3	1	37	1	0	0	0	0	1	0	0	0	5769	595	21	5	1444	5	FBXO46	19	46216383	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	25561	46216383	12912600	918	33163											
PPP5C	5536	broad.mit.edu	37	chr19	46891936	46891936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtcaaggccgagggctacGaggtggctcacggaggccgc	9	4	17	11	4	2	0	2	0	0	0	2	3	2	1	2	6	1	2	2	6	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:46891936G>A	uc002pem.2	+	11	1363	c.1303G>A	c.(1303-1305)GAG>AAG	p.E435K	PPP5C_uc010xya.1_Missense_Mutation_p.E302K|PPP5C_uc002pen.2_Missense_Mutation_p.E413K	NM_006247	NP_006238	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	435	Catalytic.				mitosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein dephosphorylation|transcription, DNA-dependent	Golgi apparatus|nucleus	metal ion binding|protein binding|protein serine/threonine phosphatase activity|signal transducer activity			lung(1)|pancreas(1)	2		Ovarian(192;0.0731)|all_neural(266;0.196)		OV - Ovarian serous cystadenocarcinoma(262;0.000196)|all cancers(93;0.00192)|GBM - Glioblastoma multiforme(486;0.0499)|Epithelial(262;0.0504)		CGAGGGCTACGAGGTGGCTCA	0.582													14	123					0	0	0.004007	0	0		A	46891936	A	A	46891936	3	1	37	1	0	0	0	0	1	0	0	0	12428	1059	37	1	1345	1	PPP5C	19	46891936	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	675553	46891936	12237047	919	33164											
PRMT1	3276	broad.mit.edu	37	chr19	50185181	50185181	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctaggagatgctgaaggaCgaggtgcgcaccctcactta	10	7	12	12	2	1	2	1	1	0	1	1	5	1	3	2	3	2	2	2	3	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:50185181C>T	uc010enf.1	+	4	249	c.207C>T	c.(205-207)GAC>GAT	p.D69D	PRMT1_uc002ppc.1_RNA|PRMT1_uc002ppd.2_Silent_p.D45D|PRMT1_uc002ppe.2_Silent_p.D51D|PRMT1_uc002ppf.2_RNA|PRMT1_uc002ppg.2_Silent_p.D16D|PRMT1_uc010yba.1_RNA	NM_001536	NP_001527	Q8WUW5	Q8WUW5_HUMAN	HMT1 hnRNP methyltransferase-like 2 isoform 1	50						cytoplasm	protein methyltransferase activity			ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00103)|GBM - Glioblastoma multiforme(134;0.012)		TGCTGAAGGACGAGGTGCGCA	0.612													12	36					0	0	0.013537	0	0		T	50185181	T	T	50185181	2	4	37	1	0	0	0	0	0	0	0	1	12557	535	19	1		1	PRMT1	19	50185181	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3293245	50185181	8943802	920	33165											
PTOV1	53635	broad.mit.edu	37	chr19	50360274	50360274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatctccccctgtgaggtgCgcgtgctcatgctcctgtac	5	11	10	15	2	2	1	1	1	1	0	4	1	3	1	3	1	4	3	3	1	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:50360274C>T	uc002pqf.1	+	6	771	c.601C>T	c.(601-603)CGC>TGC	p.R201C	PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Missense_Mutation_p.R169C|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	201	Interaction with FLOT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		CTGTGAGGTGCGCGTGCTCAT	0.657													46	165					0	0	0.013114	0	0		T	50360274	T	T	50360274	3	4	37	1	0	0	0	0	1	0	0	0	12792	768	27	1	623	1	PTOV1	19	50360274	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	175093	50360274	8768709	921	33166											
TBC1D17	79735	broad.mit.edu	37	chr19	50384662	50384662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctggaggttccctgcccGcactgcacttccaccgcggg	5	7	13	16	3	0	0	0	0	0	0	2	1	2	1	4	4	2	4	4	4	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:50384662G>A	uc002pqo.2	+	5	609	c.457G>A	c.(457-459)GCA>ACA	p.A153T	TBC1D17_uc010enn.1_RNA|TBC1D17_uc010ybg.1_Missense_Mutation_p.A120T|TBC1D17_uc002pqp.2_5'UTR|TBC1D17_uc002pqq.1_RNA|TBC1D17_uc002pqr.2_5'UTR|TBC1D17_uc002pqs.2_5'Flank	NM_024682	NP_078958	Q9HA65	TBC17_HUMAN	TBC1 domain family, member 17	153						intracellular	Rab GTPase activator activity				0		all_lung(116;0.000338)|Lung NSC(112;0.000446)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.017)		TTCCCTGCCCGCACTGCACTT	0.667													4	68					0	0	0.000602	0	0		A	50384662	A	A	50384662	3	1	37	1	0	0	0	0	1	0	0	0	15631	1087	38	1	475	1	TBC1D17	19	50384662	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	24388	50384662	8744321	922	33167											
ZNF473	25888	broad.mit.edu	37	chr19	50549654	50549654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttttaaatgtaacgaatgcGgaaagaccttcagccacagt	14	10	8	9	2	1	1	1	0	0	1	1	3	1	2	2	1	3	1	2	1	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:50549654G>A	uc002prn.2	+	5	2191	c.1954G>A	c.(1954-1956)GGA>AGA	p.G652R	ZNF473_uc002prm.2_Missense_Mutation_p.G652R|ZNF473_uc010ybo.1_Missense_Mutation_p.G640R	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	652	C2H2-type 13.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		TAACGAATGCGGAAAGACCTT	0.453													18	51					0	0	0.007413	0	0		A	50549654	A	A	50549654	3	1	37	1	0	0	0	0	1	0	0	0	17956	1117	39	1	1968	1	ZNF473	19	50549654	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	164992	50549654	8579329	923	33168											
LRRC4B	94030	broad.mit.edu	37	chr19	51021694	51021694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgtgtcctgcacggtgaCgttggtgaagttaagcgtgc	6	10	15	10	4	0	2	0	2	0	0	1	2	1	2	2	2	3	3	2	2	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:51021694C>T	uc002pss.2	-	3	1413	c.1276G>A	c.(1276-1278)GTC>ATC	p.V426I		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	426	Extracellular (Potential).|Ig-like C2-type.					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		TGCACGGTGACGTTGGTGAAG	0.647													16	67					0	0	0.004007	0	0		T	51021694	T	T	51021694	3	4	37	1	0	0	0	0	1	0	0	0	9025	536	19	1	869	1	LRRC4B	19	51021694	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	472040	51021694	8107289	924	33169											
KLK9	284366	broad.mit.edu	37	chr19	51506431	51506431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctggtgtagactgcggggCgccggggtctggagcagggc	4	6	21	10	4	1	1	0	0	1	1	1	2	1	2	1	7	2	3	1	7	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:51506431C>T	uc002pux.1	-	5	776	c.689G>A	c.(688-690)CGC>CAC	p.R230H	KLK9_uc002puw.1_RNA|KLK9_uc010eol.1_Missense_Mutation_p.R201H|KLK8_uc002puq.1_5'Flank|KLK8_uc002pur.1_5'Flank|KLK8_uc002pus.1_5'Flank|KLK8_uc002put.1_5'Flank|KLK8_uc002puu.1_5'UTR|KLK9_uc002puv.1_RNA	NM_012315	NP_036447	Q9UKQ9	KLK9_HUMAN	kallikrein-related peptidase 9 precursor	230	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			central_nervous_system(1)	1		all_neural(266;0.0652)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00885)		GACTGCGGGGCGCCGGGGTCT	0.627													14	132					0	0	0.001855	0	0		T	51506431	T	T	51506431	3	4	37	1	0	0	0	0	1	0	0	0	8427	768	27	1	67	1	KLK9	19	51506431	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	484737	51506431	7622552	925	33170											
C19orf75	284369	broad.mit.edu	37	chr19	51769106	51769106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctatgcgggaattgtaattgCgctgctcttcctctgcctcc	5	14	9	13	2	2	0	0	0	2	0	4	1	4	1	3	1	4	3	3	1	3	5	rs149546733		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:51769106C>T	uc002pwb.1	+	4	761	c.380C>T	c.(379-381)GCG>GTG	p.A127V	C19orf75_uc010eov.1_RNA|C19orf75_uc010ycw.1_Missense_Mutation_p.A33V	NM_173635	NP_775906	Q8N7X8	CS075_HUMAN	hypothetical protein LOC284369	127	Helical; (Potential).					integral to membrane				ovary(1)|pancreas(1)	2						ATTGTAATTGCGCTGCTCTTC	0.418													29	256					0	0	0.007291	0	0		T	51769106	T	T	51769106	3	4	37	1	0	0	0	0	1	0	0	0	1952	768	27	1	390	1	C19orf75	19	51769106	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	262675	51769106	7359877	926	33171											
NKG7	4818	broad.mit.edu	37	chr19	51875430	51875430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttacctgcagcaaaggctgCggtggttgagacaagcgggc	9	7	15	10	2	0	1	0	1	0	1	0	2	0	1	1	4	5	4	1	4	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:51875430C>T	uc002pwj.2	-	2	460	c.289G>A	c.(289-291)GCA>ACA	p.A97T	NKG7_uc002pwk.2_Missense_Mutation_p.A62T	NM_005601	NP_005592	Q16617	NKG7_HUMAN	natural killer cell group 7 sequence	97	Helical; (Potential).					integral to plasma membrane				central_nervous_system(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000211)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		GCAAAGGCTGCGGTGGTTGAG	0.622													19	145					0	0	0.008871	0	0		T	51875430	T	T	51875430	3	4	37	1	0	0	0	0	1	0	0	0	10462	768	27	1	220	1	NKG7	19	51875430	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	106324	51875430	7253553	927	33172											
ZNF841	284371	broad.mit.edu	37	chr19	52570189	52570189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acatacatcacattggtatgGtttccctcttgtatggacta	10	15	7	9	0	2	0	1	0	1	0	3	1	3	1	1	3	1	3	1	3	4	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:52570189G>A	uc002pyl.1	-	5	1150	c.598C>T	c.(598-600)CCA>TCA	p.P200S	ZNF841_uc010ydh.1_Missense_Mutation_p.P316S|ZNF841_uc010epk.1_Missense_Mutation_p.P200S	NM_001136499	NP_001129971	Q6ZN19	ZN841_HUMAN	zinc finger protein 841	200					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CATTGGTATGGTTTCCCTCTT	0.413													6	37					0	0	0.001168	0	0		A	52570189	A	A	52570189	3	1	37	1	0	0	0	0	1	0	0	0	18214	1261	44	4	1832	4	ZNF841	19	52570189	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	694759	52570189	6558794	928	33173											
PPP2R1A	5518	broad.mit.edu	37	chr19	52719794	52719794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcccaggagctggtgtccGatgccaaccaacatgtcaag	10	8	10	13	1	2	0	1	0	1	0	4	2	3	1	4	2	4	1	4	2	3	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:52719794G>A	uc002pyp.2	+	9	1165	c.1006G>A	c.(1006-1008)GAT>AAT	p.D336N	PPP2R1A_uc010ydk.1_Missense_Mutation_p.D281N|PPP2R1A_uc010epm.1_Missense_Mutation_p.D376N|PPP2R1A_uc002pyq.2_Missense_Mutation_p.D157N	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	336	PP2A subunit B binding.|HEAT 9.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		GCTGGTGTCCGATGCCAACCA	0.557			Mis		clear cell ovarian carcinoma								18	42					0	0	0.007413	0	0		A	52719794	A	A	52719794	3	1	37	1	0	0	0	0	1	0	0	0	12404	1058	37	1	1040	1	PPP2R1A	19	52719794	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	149605	52719794	6409189	929	33174											
ZNF320	162967	broad.mit.edu	37	chr19	53384761	53384761	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccctgtgaattctagtatgTtttgccaggtgtgaatcatg	8	15	10	8	0	2	2	1	2	1	0	2	2	2	2	3	1	1	2	3	1	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:53384761T>G	uc002qag.2	-	4	809	c.618A>C	c.(616-618)AAA>AAC	p.K206N	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.K152N|ZNF320_uc002qai.2_Missense_Mutation_p.K206N	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	206	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		TTCTAGTATGTTTTGCCAGGT	0.363													3	62					0	0	0.004672	0	0		G	53384761	G	G	53384761	3	3	37	1	0	0	0	0	1	0	0	0	17864	1722	60	5	915	5	ZNF320	19	53384761	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	664967	53384761	5744222	930	33175											
ZNF347	84671	broad.mit.edu	37	chr19	53644779	53644779	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaacaccaaaggctttgccGcactcattacacttgtaagg	12	9	8	12	2	1	0	1	0	0	0	1	1	1	0	2	2	3	3	2	2	4	4	rs77716783	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:53644779G>A	uc002qbb.1	-	5	1371	c.1302C>T	c.(1300-1302)TGC>TGT	p.C434C	ZNF347_uc010eql.1_Silent_p.C435C|ZNF347_uc002qbc.1_Silent_p.C435C	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	434	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		AGGCTTTGCCGCACTCATTAC	0.423													18	150					0	0	0.00499	0	0		A	53644779	A	A	53644779	2	1	37	1	0	0	0	0	0	0	0	1	17886	1079	38	1		1	ZNF347	19	53644779	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	260018	53644779	5484204	931	33176											
LENG1	79165	broad.mit.edu	37	chr19	54660650	54660650	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctcatctggggctgggccGggcggggggccccctcgccc	1	7	17	16	3	2	0	1	0	2	0	4	0	2	0	4	7	0	1	4	7	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:54660650G>A	uc002qdm.2	-	3	439	c.426C>T	c.(424-426)CCC>CCT	p.P142P		NM_024316	NP_077292	Q96BZ8	LENG1_HUMAN	leukocyte receptor cluster (LRC) member 1	142										ovary(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GGGCTGGGCCGGGCGGGGGGC	0.642													13	116					0	0	0.004007	0	0		A	54660650	A	A	54660650	2	1	37	1	0	0	0	0	0	0	0	1	8739	1103	39	1		1	LENG1	19	54660650	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1015871	54660650	4468333	932	33177											
RPS9	6203	broad.mit.edu	37	chr19	54710190	54710190	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcattggggtgctggatgaGggcaagatgaagctggatta	10	9	17	5	1	0	3	0	2	0	1	0	5	0	5	0	5	2	4	0	5	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:54710190G>T	uc002qdx.2	+	4	323	c.267G>T	c.(265-267)GAG>GAT	p.E89D	RPS9_uc002qdy.2_Intron|RPS9_uc002qdz.2_Missense_Mutation_p.E89D|RPS9_uc002qea.2_Missense_Mutation_p.E89D|RPS9_uc002qeb.2_Missense_Mutation_p.E89D|RPS9_uc002qec.2_RNA|RPS9_uc002qed.1_Missense_Mutation_p.E89D	NM_001013	NP_001004	P46781	RS9_HUMAN	ribosomal protein S9	89					endocrine pancreas development|positive regulation of cell proliferation|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding|rRNA binding|structural constituent of ribosome|translation regulator activity			breast(1)	1	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.18)		TGCTGGATGAGGGCAAGATGA	0.522													16	49					4.7546e-09	5.28337e-09	0.004007	1	0		T	54710190	T	T	54710190	3	4	37	1	0	0	0	0	1	0	0	0	13687	991	35	5	277	5	RPS9	19	54710190	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	49540	54710190	4418793	933	33178											
SUV420H2	84787	broad.mit.edu	37	chr19	55855161	55855161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcatcatgtactcaacccGcaagcggagtgctcagctgt	10	8	10	13	2	3	0	3	0	0	0	3	1	3	1	1	1	6	5	1	1	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:55855161G>A	uc002qkj.3	+	5	748	c.500G>A	c.(499-501)CGC>CAC	p.R167H	SUV420H2_uc002qkl.2_Missense_Mutation_p.R52H	NM_032701	NP_116090	Q86Y97	SV422_HUMAN	suppressor of variegation 4-20 homolog 2	167	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding				0	Breast(117;0.191)		BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		TACTCAACCCGCAAGCGGAGT	0.632													8	26					0	0	0.006214	0	0		A	55855161	A	A	55855161	3	1	37	1	0	0	0	0	1	0	0	0	15440	1087	38	1	514	1	SUV420H2	19	55855161	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1144971	55855161	3273822	934	33179											
ZNF628	89887	broad.mit.edu	37	chr19	55994109	55994109	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctgtggccagtgcggcCtcaccttcaagtggtcgtcc	5	10	11	15	2	3	0	3	0	0	0	5	0	4	0	5	3	1	0	5	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:55994109C>A	uc002qld.2	+	3	2102	c.1537C>A	c.(1537-1539)CTC>ATC	p.L513I	NAT14_uc002qle.1_5'Flank	NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	513	C2H2-type 12.					nucleus	DNA binding|zinc ion binding				0	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0531)		CCAGTGCGGCCTCACCTTCAA	0.682													21	70					1.28384e-07	1.41257e-07	0.012319	1	0		A	55994109	A	A	55994109	3	1	37	1	0	0	0	0	1	0	0	0	18077	681	24	5	1539	5	ZNF628	19	55994109	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	138948	55994109	3134874	935	33180											
CCDC106	29903	broad.mit.edu	37	chr19	56163822	56163822	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgccgacggggtcctctgcCggtacaagaagatcctgggc	8	6	14	13	4	1	2	0	0	1	2	3	3	3	2	4	4	2	1	4	4	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:56163822C>A	uc002qlr.2	+	6	1288	c.553C>A	c.(553-555)CGG>AGG	p.R185R	CCDC106_uc002qls.2_Silent_p.R185R|U2AF2_uc002qlt.2_5'Flank|U2AF2_uc002qlu.2_5'Flank	NM_013301	NP_037433	Q9BWC9	CC106_HUMAN	coiled-coil domain containing 106	185						nucleus					0		Colorectal(82;0.00403)|Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		GGTCCTCTGCCGGTACAAGAA	0.652													8	44					0.000442599	0.000465316	0.006214	1	0		A	56163822	A	A	56163822	2	1	37	1	0	0	0	0	0	0	0	1	2744	643	23	5		5	CCDC106	19	56163822	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	169713	56163822	2965161	936	33181											
NLRP5	126206	broad.mit.edu	37	chr19	56549538	56549538	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgatgccttgagagtctcCcagtgcgccctgcagaagct	8	9	12	12	1	1	3	0	2	1	2	2	4	1	3	3	0	4	2	3	0	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:56549538C>T	uc002qmj.2	+	10	2763	c.2763C>T	c.(2761-2763)TCC>TCT	p.S921S	NLRP5_uc002qmi.2_Silent_p.S902S	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	921						mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		TGAGAGTCTCCCAGTGCGCCC	0.517													42	87					0	0	0.011902	0	0		T	56549538	T	T	56549538	2	4	37	1	0	0	0	0	0	0	0	1	10499	610	22	4		4	NLRP5	19	56549538	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	385716	56549538	2579445	937	33182											
ZNF787	126208	broad.mit.edu	37	chr19	56600242	56600242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agctctgcgagaaggtcttgCcgcagtcggcgcaggcgttg	6	8	16	11	5	2	1	0	0	2	1	3	2	2	1	1	3	3	4	1	3	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:56600242C>T	uc010eth.1	-	3	418	c.299G>A	c.(298-300)GGC>GAC	p.G100D		NM_001002836	NP_001002836	Q6DD87	ZN787_HUMAN	zinc finger protein 787	100	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0559)		GAAGGTCTTGCCGCAGTCGGC	0.667													3	34					0	0	0.004672	0	0		T	56600242	T	T	56600242	3	4	37	1	0	0	0	0	1	0	0	0	18184	739	26	2	856	2	ZNF787	19	56600242	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	50704	56600242	2528741	938	33183											
ZSCAN5A	79149	broad.mit.edu	37	chr19	56733037	56733037	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacttggaacatttgtagggTttctctccggagtggatgcg	7	13	13	8	2	1	0	0	0	1	0	3	3	2	3	1	4	2	2	1	4	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:56733037T>G	uc002qmq.2	-	5	1564	c.1398A>C	c.(1396-1398)AAA>AAC	p.K466N	ZSCAN5A_uc010ygi.1_Missense_Mutation_p.K349N|ZSCAN5A_uc002qmr.2_Missense_Mutation_p.K466N|ZSCAN5A_uc002qms.1_Missense_Mutation_p.K465N	NM_024303	NP_077279	Q9BUG6	ZSA5A_HUMAN	zinc finger and SCAN domain containing 5A	466					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						ATTTGTAGGGTTTCTCTCCGG	0.498													15	62					0	0	0.004007	0	0		G	56733037	G	G	56733037	3	3	37	1	0	0	0	0	1	0	0	0	18263	1722	60	5	96	5	ZSCAN5A	19	56733037	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	132795	56733037	2395946	939	33184											
ZNF667	63934	broad.mit.edu	37	chr19	56953014	56953014	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgattggcggccgaaaacTttactacatttattgcattt	12	15	7	7	2	0	1	0	1	0	0	0	2	0	1	1	2	4	1	1	2	6	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:56953014T>G	uc002qnd.2	-	5	1512	c.1350A>C	c.(1348-1350)AAA>AAC	p.K450N	ZNF667_uc010etl.2_Missense_Mutation_p.K232N|ZNF667_uc002qne.2_Missense_Mutation_p.K450N|ZNF667_uc010etm.2_Missense_Mutation_p.K393N	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	450	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		GGCCGAAAACTTTACTACATT	0.373													3	55					0	0	0.000602	0	0		G	56953014	G	G	56953014	3	3	37	1	0	0	0	0	1	0	0	0	18099	1606	56	5	486	5	ZNF667	19	56953014	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	219977	56953014	2175969	940	33185											
ZNF667	63934	broad.mit.edu	37	chr19	56953681	56953681	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaggccttcccacagtcaAgaatttcctttccatcatga	11	12	5	13	0	3	2	3	1	0	1	6	2	6	2	4	1	0	0	4	1	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:56953681A>C	uc002qnd.2	-	5	845	c.683T>G	c.(682-684)CTT>CGT	p.L228R	ZNF667_uc010etl.2_Missense_Mutation_p.L10R|ZNF667_uc002qne.2_Missense_Mutation_p.L228R|ZNF667_uc010etm.2_Missense_Mutation_p.L171R	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	228					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		CCCACAGTCAAGAATTTCCTT	0.393													24	120					0	0	0.00278	0	0		C	56953681	C	C	56953681	3	2	37	1	0	0	0	0	1	0	0	0	18099	72	3	5	1153	5	ZNF667	19	56953681	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	667	56953681	2175302	941	33186											
ZNF416	55659	broad.mit.edu	37	chr19	58083498	58083498	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcaagagttaaacaatgtTagatcttgggctgtagggtt	11	15	11	4	0	2	2	1	0	1	2	2	2	2	2	0	2	1	5	0	2	6	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:58083498T>C	uc002qpf.2	-	4	1945	c.1774A>G	c.(1774-1776)AAC>GAC	p.N592D	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	592					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		TAAACAATGTTAGATCTTGGG	0.458													8	155					0	0	0.00308	0	0		C	58083498	C	C	58083498	3	2	37	1	0	0	0	0	1	0	0	0	17918	1754	61	3	14	3	ZNF416	19	58083498	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1129817	58083498	1045485	942	33187											
ZNF324	25799	broad.mit.edu	37	chr19	58983336	58983336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggccgcgccttccgtgagCgcccggccctcttccaccac	3	7	11	20	5	1	1	0	1	1	0	3	1	3	1	7	2	1	0	7	2	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:58983336C>T	uc002qsw.1	+	4	1571	c.1477C>T	c.(1477-1479)CGC>TGC	p.R493C	ZNF324_uc002qsx.1_Missense_Mutation_p.R270C	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	493	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		CTTCCGTGAGCGCCCGGCCCT	0.697													5	42					0	0	0.000602	0	0		T	58983336	T	T	58983336	3	4	37	1	0	0	0	0	1	0	0	0	17869	768	27	1	1487	1	ZNF324	19	58983336	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	899838	58983336	145647	943	33188											
TBC1D20	128637	broad.mit.edu	37	chr20	419299	419299	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccacagccagtgcagcCgctccaagtgccactgtcag	9	7	9	16	1	2	0	2	0	0	0	3	0	3	0	5	0	4	2	5	0	1	1	rs141648576		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:419299C>T	uc002wds.2	-	8	1281	c.1143G>A	c.(1141-1143)GCG>GCA	p.A381A	TBC1D20_uc002wdv.2_Silent_p.A204A|TBC1D20_uc002wdt.2_RNA|TBC1D20_uc002wdu.2_RNA	NM_144628	NP_653229	Q96BZ9	TBC20_HUMAN	TBC1 domain family, member 20	381	Helical; (Potential).				interspecies interaction between organisms	integral to membrane|intracellular	Rab GTPase activator activity			central_nervous_system(1)	1		all_epithelial(17;0.228)|Breast(17;0.231)				CCAGTGCAGCCGCTCCAAGTG	0.532													20	166					0	0	0.008871	0	0		T	419299	T	T	419299	2	4	37	1	0	0	0	0	0	0	0	1	15634	639	23	1		1	TBC1D20	20	419299	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08		419299	62606221	944	33189											
ZNF343	79175	broad.mit.edu	37	chr20	2464827	2464827	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcttccctaagagggtcctCgggtttgtaataaagtttga	9	15	10	7	1	1	2	0	1	1	1	4	2	3	2	2	2	0	3	2	2	4	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:2464827C>T	uc002wge.1	-	6	1268	c.780G>A	c.(778-780)CCG>CCA	p.P260P	ZNF343_uc010gao.1_Silent_p.P260P|ZNF343_uc002wgd.1_Silent_p.P170P	NM_024325	NP_077301	Q6P1L6	ZN343_HUMAN	zinc finger protein 343	260					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						AGAGGGTCCTCGGGTTTGTAA	0.433													28	69					0	0	0.005443	0	0		T	2464827	T	T	2464827	2	4	37	1	0	0	0	0	0	0	0	1	17883	871	31	1		1	ZNF343	20	2464827	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2045528	2464827	60560693	945	33190											
C20orf27	54976	broad.mit.edu	37	chr20	3735049	3735049	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcacgctctcacccatgAcgcgggcctgcaccgtcacg	6	6	10	19	5	3	1	3	1	1	0	4	1	3	1	4	1	1	2	4	1	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:3735049A>G	uc002wji.1	-	5	648	c.419T>C	c.(418-420)GTC>GCC	p.V140A	C20orf27_uc002wjf.1_3'UTR|C20orf27_uc002wjh.1_Missense_Mutation_p.V165A	NM_001039140	NP_001034229	Q9GZN8	CT027_HUMAN	hypothetical protein LOC54976	140											0						CTCACCCATGACGCGGGCCTG	0.612													5	126					0	0	0.001168	0	0		G	3735049	G	G	3735049	3	3	37	1	0	0	0	0	1	0	0	0	2110	275	10	3	113	3	C20orf27	20	3735049	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1270222	3735049	59290471	946	33191											
FERMT1	55612	broad.mit.edu	37	chr20	6088264	6088264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccttgttccataagggagCgtgaggagtctagccaacta	10	10	12	9	1	1	1	0	1	1	0	2	3	2	3	3	2	4	1	3	2	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:6088264C>T	uc002wmr.2	-	6	1553	c.764G>A	c.(763-765)CGC>CAC	p.R255H	FERMT1_uc010gbt.2_5'UTR|FERMT1_uc002wms.2_Missense_Mutation_p.R255H|FERMT1_uc002wmt.2_5'UTR	NM_017671	NP_060141	Q9BQL6	FERM1_HUMAN	kindlin-1	255	FERM.				cell adhesion|establishment of epithelial cell polarity|keratinocyte migration|keratinocyte proliferation	cytosol|focal adhesion|ruffle membrane	binding			ovary(1)|pancreas(1)|skin(1)	3						CATAAGGGAGCGTGAGGAGTC	0.338													9	15					0	0	0.008291	0	0		T	6088264	T	T	6088264	3	4	37	1	0	0	0	0	1	0	0	0	5831	768	27	1	1309	1	FERMT1	20	6088264	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2353215	6088264	56937256	947	33192											
CST2	1470	broad.mit.edu	37	chr20	23807170	23807170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaagggcacgctgtaccCgctcatcattgaggtctgca	9	9	12	11	2	3	2	2	2	1	0	3	2	3	2	1	2	2	5	1	2	2	2	rs148004300	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:23807170C>T	uc002wtq.1	-	1	143	c.128G>A	c.(127-129)CGG>CAG	p.R43Q		NM_001322	NP_001313	P09228	CYTT_HUMAN	cystatin SA precursor	43						extracellular region	cysteine-type endopeptidase inhibitor activity				0						ACGCTGTACCCGCTCATCATT	0.592													4	45					0	0	0.009096	0	0		T	23807170	T	T	23807170	3	4	37	1	0	0	0	0	1	0	0	0	3975	652	23	1	309	1	CST2	20	23807170	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	17718906	23807170	39218350	948	33193											
DEFB116	245930	broad.mit.edu	37	chr20	29891233	29891233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggctctcggctcttgcCattgtgggatctgaacaggc	7	10	12	12	1	3	1	0	1	3	0	4	2	3	2	2	4	2	2	2	4	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:29891233C>T	uc010ztm.1	-	2	91	c.91G>A	c.(91-93)GGC>AGC	p.G31S		NM_001037731	NP_001032820	Q30KQ4	DB116_HUMAN	beta-defensin 116 precursor	31					defense response to bacterium	extracellular region					0	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			CGGCTCTTGCCATTGTGGGAT	0.463													4	131					0	0	0.009096	0	0		T	29891233	T	T	29891233	3	4	37	1	0	0	0	0	1	0	0	0	4410	594	21	4	220	4	DEFB116	20	29891233	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	6084063	29891233	33134287	949	33194											
TM9SF4	9777	broad.mit.edu	37	chr20	30733169	30733169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctgaccatgagtgacGtccagatccactggttttct	8	13	8	12	1	1	4	0	3	1	1	3	4	3	4	4	1	1	1	4	1	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:30733169G>A	uc002wxj.2	+	8	1061	c.826G>A	c.(826-828)GTC>ATC	p.V276I	TM9SF4_uc010ztr.1_Missense_Mutation_p.V202I|TM9SF4_uc010zts.1_Missense_Mutation_p.V183I|TM9SF4_uc002wxk.2_Missense_Mutation_p.V259I|TM9SF4_uc010gdz.2_Missense_Mutation_p.V183I	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	276						integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CATGAGTGACGTCCAGATCCA	0.527													26	43					0	0	0.007291	0	0		A	30733169	A	A	30733169	3	1	37	1	0	0	0	0	1	0	0	0	16005	1145	40	1	856	1	TM9SF4	20	30733169	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	841936	30733169	32292351	950	33195											
CHMP4B	128866	broad.mit.edu	37	chr20	32439984	32439984	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccctctaccaaatgttccCtctatagccctaccatcaaa	11	11	3	16	0	3	0	1	0	2	0	5	0	5	0	5	0	3	1	5	0	6	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:32439984C>A	uc002xaa.2	+	4	741	c.585C>A	c.(583-585)CCC>CCA	p.P195P		NM_176812	NP_789782	Q9H444	CHM4B_HUMAN	chromatin modifying protein 4B	195					cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			ovary(1)|central_nervous_system(1)	2						CAAATGTTCCCTCTATAGCCC	0.488													15	167					1.49906e-05	1.60065e-05	0.00245	1	0		A	32439984	A	A	32439984	2	1	37	1	0	0	0	0	0	0	0	1	3360	668	24	5		5	CHMP4B	20	32439984	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1706815	32439984	30585536	951	33196											
AHCY	191	broad.mit.edu	37	chr20	32883286	32883286	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgatgcgggcgcccttcAgtggcttggaggccgagtac	6	7	16	12	4	1	0	1	0	0	0	1	3	1	1	2	4	3	2	2	4	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:32883286A>C	uc002xai.2	-	2	273	c.134T>G	c.(133-135)CTG>CGG	p.L45R	AHCY_uc002xaj.2_Missense_Mutation_p.L17R|AHCY_uc010get.2_Missense_Mutation_p.L45R	NM_000687	NP_000678	P23526	SAHH_HUMAN	adenosylhomocysteinase isoform 1	45					methylation|xenobiotic metabolic process	cytosol|melanosome	adenosylhomocysteinase activity|protein binding				0						GGCGCCCTTCAGTGGCTTGGA	0.662													4	21					0	0	0.009096	0	0		C	32883286	C	C	32883286	3	2	37	1	0	0	0	0	1	0	0	0	409	188	7	5	1200	5	AHCY	20	32883286	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	443302	32883286	30142234	952	33197											
GSS	2937	broad.mit.edu	37	chr20	33523414	33523414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgaggcatgtagccatcccGgaagtaaaccacagcaattt	14	7	9	11	2	0	0	0	0	0	0	1	2	1	1	3	2	3	4	3	2	5	3	rs121909308		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:33523414G>A	uc002xbg.2	-	9	879	c.799C>T	c.(799-801)CGG>TGG	p.R267W	GSS_uc010zun.1_Missense_Mutation_p.R139W|GSS_uc010zuo.1_Missense_Mutation_p.R156W|GSS_uc010zup.1_Missense_Mutation_p.R198W|GSS_uc002xbh.2_RNA|GSS_uc010gez.1_5'UTR	NM_000178	NP_000169	P48637	GSHB_HUMAN	glutathione synthetase	267	Substrate binding.		R -> W (in GSS deficiency).		nervous system development|response to oxidative stress|xenobiotic metabolic process	cytosol	ATP binding|glutathione binding|glutathione synthase activity|magnesium ion binding|protein homodimerization activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(18;0.035)		Glutathione(DB00143)|Glycine(DB00145)|L-Cysteine(DB00151)	TAGCCATCCCGGAAGTAAACC	0.468													5	66					0	0	0.000602	0	0		A	33523414	A	A	33523414	3	1	37	1	0	0	0	0	1	0	0	0	6845	1115	39	1	645	1	GSS	20	33523414	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	640128	33523414	29502106	953	33198											
MYL9	10398	broad.mit.edu	37	chr20	35176475	35176475	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctggagggcatgatgagCgaggccccggggcccatcaa	9	5	15	12	2	1	2	1	2	0	0	1	4	1	3	4	5	2	1	4	5	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:35176475C>T	uc002xfl.1	+	3	319	c.225C>T	c.(223-225)AGC>AGT	p.S75S	uc002xfk.3_Intron|MYL9_uc002xfm.1_Intron	NM_006097	NP_006088	P24844	MYL9_HUMAN	myosin regulatory light chain 9 isoform a	75					axon guidance|muscle contraction|regulation of muscle contraction	cytosol|muscle myosin complex	calcium ion binding|structural constituent of muscle				0	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				GCATGATGAGCGAGGCCCCGG	0.612													3	34					0	0	0.004672	0	0		T	35176475	T	T	35176475	2	4	37	1	0	0	0	0	0	0	0	1	10072	767	27	1		1	MYL9	20	35176475	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1653061	35176475	27849045	954	33199											
FAM83D	81610	broad.mit.edu	37	chr20	37555035	37555035	+	Frame_Shift_Del	DEL	C	-	-																															ttcaaaggttgcctataaagCgggactgcacgccggttttt																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:37555035delC	uc002xjg.2	+	1	81	c.40delC	c.(40-42)CGGfs	p.R14fs	FAM83D_uc002xjf.2_Frame_Shift_Del_p.R14fs	NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	Error:Variant_position_missing_in_Q9H4H8_after_alignment					cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				GCCTATAAAGCGGGACTGCAC	0.652													20	30	---	---	---	---						.	-	37555035	-	-	37555035	7	5	37	1	0	1	0	1	0	0	0	0	5650	759	27	0	42	0	FAM83D	20	37555035	Frame_Shift_Del	DEL	C	TCGA-BR-6566-01A-11D-1800-08	2378560	37555035	25470485	955	33200											
LPIN3	64900	broad.mit.edu	37	chr20	39980775	39980775	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaccccaaccctgaacaTgaacctgaacccactctgga	13	5	8	15	0	1	3	0	3	1	0	1	5	1	5	5	2	4	0	5	2	4	0	rs146167352	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:39980775T>C	uc002xjx.2	+	9	1369	c.1278T>C	c.(1276-1278)CAT>CAC	p.H426H	LPIN3_uc010ggh.2_Silent_p.H427H|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	426					fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				ACCCTGAACATGAACCTGAAC	0.567													40	76					0	0	0.010771	0	0		C	39980775	C	C	39980775	2	2	37	1	0	0	0	0	0	0	0	1	8938	1461	51	3		3	LPIN3	20	39980775	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2425740	39980775	23044745	956	33201											
SEMG2	6407	broad.mit.edu	37	chr20	43851236	43851236	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctatccaaactgaagagaaAatacatggcaagtctcaaaa	19	8	6	8	0	2	2	1	1	2	1	4	3	3	2	1	1	2	1	1	1	9	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:43851236A>C	uc010ggz.2	+	2	1020	c.963A>C	c.(961-963)AAA>AAC	p.K321N	SEMG2_uc002xnk.2_Missense_Mutation_p.K321N|SEMG2_uc002xnl.2_Missense_Mutation_p.K321N	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	321	Repeat-rich region.|4 X 60 AA tandem repeats, type I.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				CTGAAGAGAAAATACATGGCA	0.378													4	45					0	0	0.009096	0	0		C	43851236	C	C	43851236	3	2	37	1	0	0	0	0	1	0	0	0	14070	11	1	5	969	5	SEMG2	20	43851236	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3870461	43851236	19174284	957	33202											
MATN4	8785	broad.mit.edu	37	chr20	43933091	43933091	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtcacgatgacagcgacAcgcggcacgcgctcctctgg	7	7	12	15	6	3	1	1	1	2	0	4	3	4	1	1	2	1	2	1	2	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:43933091A>G	uc002xnn.2	-	3	607	c.420T>C	c.(418-420)CGT>CGC	p.R140R	MATN4_uc002xno.2_Silent_p.R140R|MATN4_uc002xnp.2_Silent_p.R140R|MATN4_uc010zwr.1_Silent_p.R88R|MATN4_uc002xnr.1_Silent_p.R140R|RBPJL_uc002xns.2_5'Flank|RBPJL_uc002xnt.2_5'Flank	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	140	VWFA 1.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				TGACAGCGACACGCGGCACGC	0.701													3	19					0	0	0.004672	0	0		G	43933091	G	G	43933091	2	3	37	1	0	0	0	0	0	0	0	1	9354	146	6	3		3	MATN4	20	43933091	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	81855	43933091	19092429	958	33203											
PLTP	5360	broad.mit.edu	37	chr20	44533614	44533614	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaacagctgcagggccccCgcccggaagtagctctccat	9	5	11	16	2	1	0	0	0	1	0	2	1	1	1	4	2	5	5	4	2	3	1	rs61731059	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:44533614C>T	uc002xqn.1	-	9	929	c.849G>A	c.(847-849)GCG>GCA	p.A283A	PLTP_uc002xql.1_Silent_p.A195A|PLTP_uc002xqm.1_Silent_p.A303A|PLTP_uc002xqo.1_Silent_p.A231A|PLTP_uc002xqp.1_Silent_p.A283A|PLTP_uc002xqq.1_Silent_p.A252A|PLTP_uc010zxj.1_Silent_p.A188A|PLTP_uc010ghj.1_Silent_p.A283A	NM_006227	NP_006218	P55058	PLTP_HUMAN	phospholipid transfer protein isoform a	283					cellular lipid metabolic process|lipid transport	extracellular region	lipid binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GCAGGGCCCCCGCCCGGAAGT	0.597													6	71					0	0	0.001168	0	0		T	44533614	T	T	44533614	2	4	37	1	0	0	0	0	0	0	0	1	12133	639	23	1		1	PLTP	20	44533614	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	600523	44533614	18491906	959	33204											
SLC9A8	23315	broad.mit.edu	37	chr20	48503419	48503419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgaaccccttcttcactcGgaggctgacgcaggaggtgg	7	8	13	13	2	2	2	1	2	1	0	3	4	2	4	3	5	1	2	3	5	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:48503419G>A	uc002xuv.1	+	15	1832	c.1622G>A	c.(1621-1623)CGG>CAG	p.R541Q	SLC9A8_uc010zym.1_Missense_Mutation_p.R241Q|SLC9A8_uc010gid.2_Missense_Mutation_p.R165Q	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	541						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			TTCTTCACTCGGAGGCTGACG	0.647													31	59					0	0	0.013726	0	0		A	48503419	A	A	48503419	3	1	37	1	0	0	0	0	1	0	0	0	14745	1116	39	1	1680	1	SLC9A8	20	48503419	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3969805	48503419	14522101	960	33205											
PCK1	5105	broad.mit.edu	37	chr20	56138681	56138681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggccgcatttcccagcGcctgcgggaagaccaacctg	7	6	13	15	4	0	1	0	0	0	1	1	2	1	2	5	3	3	1	5	3	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:56138681G>A	uc002xyn.3	+	6	1022	c.859G>A	c.(859-861)GCC>ACC	p.A287T	PCK1_uc010zzm.1_Intron	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	287	GTP.				gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			ATTTCCCAGCGCCTGCGGGAA	0.542													34	63					0	0	0.012213	0	0		A	56138681	A	A	56138681	3	1	37	1	0	0	0	0	1	0	0	0	11600	1087	38	1	877	1	PCK1	20	56138681	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	7635262	56138681	6886839	961	33206											
STX16	8675	broad.mit.edu	37	chr20	57227154	57227154	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgagcaagtgagtagtcAcatcacctccagccctctgc	10	7	9	15	1	3	1	2	1	1	0	4	2	4	1	4	0	4	2	4	0	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:57227154A>G	uc002xzi.2	+	1	827	c.92A>G	c.(91-93)CAC>CGC	p.H31R	STX16_uc010zzq.1_5'UTR|STX16_uc002xzk.2_Intron|STX16_uc002xzm.2_Missense_Mutation_p.H31R|STX16_uc002xzj.2_Intron|STX16_uc002xzl.2_Intron	NM_001001433	NP_001001433	O14662	STX16_HUMAN	syntaxin 16 isoform a	31	Cytoplasmic (Potential).				intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|microsome|SNARE complex	SNAP receptor activity			ovary(1)	1	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;3.73e-09)|Epithelial(14;8.54e-06)|all cancers(14;6.89e-05)			GTGAGTAGTCACATCACCTCC	0.542													5	52					0	0	0.000602	0	0		G	57227154	G	G	57227154	3	3	37	1	0	0	0	0	1	0	0	0	15364	159	6	3	94	3	STX16	20	57227154	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1088473	57227154	5798366	962	33207											
TH1L	51497	broad.mit.edu	37	chr20	57561169	57561169	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaggatgattctggagaaGgagaggatgatgcggaggtt	12	8	19	2	1	1	4	0	2	1	2	1	10	1	8	0	7	1	1	0	7	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:57561169G>T	uc002yag.2	+	2	136	c.109G>T	c.(109-111)GGA>TGA	p.G37*	TH1L_uc010zzu.1_Nonsense_Mutation_p.G37*|TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Nonsense_Mutation_p.G37*	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	37					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			TTCTGGAGAAGGAGAGGATGA	0.373													6	135					3.59834e-05	3.82557e-05	0.001168	1	0		T	57561169	T	T	57561169	4	4	37	1	0	0	0	0	0	1	0	0	15864	1001	35	5	115	5	TH1L	20	57561169	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	334015	57561169	5464351	963	33208											
PSMA7	5688	broad.mit.edu	37	chr20	60714232	60714232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagatgccaaacggcctgcGcccattgctctgcgtataac	10	8	10	13	3	1	1	0	0	1	1	1	2	1	1	3	1	6	2	3	1	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:60714232G>A	uc002ybx.1	-	4	485	c.370C>T	c.(370-372)CGC>TGC	p.R124C	PSMA7_uc002yby.1_RNA	NM_002792	NP_002783	O14818	PSA7_HUMAN	proteasome alpha 7 subunit	124					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			AACGGCCTGCGCCCATTGCTC	0.502													7	62					0	0	0.00308	0	0		A	60714232	A	A	60714232	3	1	37	1	0	0	0	0	1	0	0	0	12694	1087	38	1	392	1	PSMA7	20	60714232	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	3153063	60714232	2311288	964	33209											
BHLHE23	128408	broad.mit.edu	37	chr20	61637673	61637673	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgatcttggagagcttgcGcaccgacgggctgtgcgcgt	5	8	17	11	6	1	1	0	0	1	1	1	4	1	1	1	3	3	3	1	3	0	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:61637673G>A	uc002yeb.2	-	1	715	c.406C>T	c.(406-408)CGC>TGC	p.R136C		NM_080606	NP_542173	Q8NDY6	BHE23_HUMAN	basic helix-loop-helix domain containing, class	136	Helix-loop-helix motif.				transcription, DNA-dependent	nucleus	DNA binding				0						GAGAGCTTGCGCACCGACGGG	0.552													3	45					0	0	0.009096	0	0		A	61637673	A	A	61637673	3	1	37	1	0	0	0	0	1	0	0	0	1423	1087	38	1	275	1	BHLHE23	20	61637673	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	923441	61637673	1387847	965	33210											
ZGPAT	84619	broad.mit.edu	37	chr20	62366010	62366010	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcagtggtggggtcggaCgccgtggactctgcacagtc	5	9	16	11	3	1	0	0	0	1	0	3	2	1	2	1	5	2	2	1	5	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:62366010C>T	uc002ygk.2	+	5	1063	c.885C>T	c.(883-885)GAC>GAT	p.D295D	ZGPAT_uc002ygi.2_Intron|ZGPAT_uc002ygj.2_Intron|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Intron|ZGPAT_uc002ygm.2_Intron|ZGPAT_uc002ygn.3_Intron|LIME1_uc011abi.1_5'Flank|LIME1_uc002ygp.3_5'Flank	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	295					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					TGGGGTCGGACGCCGTGGACT	0.617													67	125					0	0	0.01441	0	0		T	62366010	T	T	62366010	2	4	37	1	0	0	0	0	0	0	0	1	17699	535	19	1		1	ZGPAT	20	62366010	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	728337	62366010	659510	966	33211											
TPTE	7179	broad.mit.edu	37	chr21	10942730	10942730	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgtaacgtaagtgaggtcTaggtcaaatccatcccttgt	10	12	9	10	1	2	1	1	1	1	0	4	1	4	1	3	2	1	2	3	2	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:10942730T>G	uc002yip.1	-	13	1079	c.711A>C	c.(709-711)CTA>CTC	p.L237L	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Silent_p.L219L|TPTE_uc002yir.1_Silent_p.L199L|TPTE_uc010gkv.1_Silent_p.L99L	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	237	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		AAGTGAGGTCTAGGTCAAATC	0.328													20	367					0	0	0.00333	0	0		G	10942730	G	G	10942730	2	3	37	1	0	0	0	0	0	0	0	1	16456	1509	53	5		5	TPTE	21	10942730	Silent	SNP	T	TCGA-BR-6566-01A-11D-1800-08		10942730	37187165	967	33212											
POTED	317754	broad.mit.edu	37	chr21	14982981	14982981	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatctggacaagctccaCagagctgcctggtggggtaa	11	7	14	9	0	1	2	0	0	1	2	2	4	2	3	2	4	3	3	2	4	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:14982981C>A	uc002yjb.1	+	1	484	c.432C>A	c.(430-432)CAC>CAA	p.H144Q		NM_174981	NP_778146	Q86YR6	POTED_HUMAN	pote protein	144						plasma membrane				ovary(3)|skin(3)	6						ACAAGCTCCACAGAGCTGCCT	0.577													16	131					1.99824e-07	2.19271e-07	0.00499	1	0		A	14982981	A	A	14982981	3	1	37	1	0	0	0	0	1	0	0	0	12282	477	17	5	434	5	POTED	21	14982981	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4040251	14982981	33146914	968	33213											
APP	351	broad.mit.edu	37	chr21	27328060	27328060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctttagcatattgaacaCgtgacgaggctgtgggagga	10	11	13	7	2	1	2	0	2	1	0	1	5	1	4	0	3	2	2	0	3	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:27328060C>T	uc002ylz.2	-	12	1668	c.1468G>A	c.(1468-1470)GTG>ATG	p.V490M	APP_uc011acg.1_Translation_Start_Site|APP_uc010glk.2_Missense_Mutation_p.V466M|APP_uc002yma.2_Missense_Mutation_p.V471M|APP_uc011ach.1_Missense_Mutation_p.V434M|APP_uc002ymb.2_Missense_Mutation_p.V415M|APP_uc010glj.2_Missense_Mutation_p.V359M|APP_uc011aci.1_Missense_Mutation_p.V380M	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	490	Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				ATATTGAACACGTGACGAGGC	0.463													11	58					0	0	0.010729	0	0		T	27328060	T	T	27328060	3	4	37	1	0	0	0	0	1	0	0	0	815	536	19	1	872	1	APP	21	27328060	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	12345079	27328060	20801835	969	33214											
TIAM1	7074	broad.mit.edu	37	chr21	32595734	32595734	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctactcaccagggcatgaaaCgatgataccgaaaagattcc	15	7	8	11	2	1	3	1	2	0	1	2	5	2	3	3	1	3	1	3	1	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:32595734C>T	uc002yow.1	-	9	2455	c.1983G>A	c.(1981-1983)TCG>TCA	p.S661S	TIAM1_uc011adk.1_Silent_p.S661S|TIAM1_uc011adl.1_Silent_p.S661S|TIAM1_uc002yox.1_Silent_p.S269S	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	661					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						GGGCATGAAACGATGATACCG	0.463													24	91					0	0	0.00333	0	0		T	32595734	T	T	32595734	2	4	37	1	0	0	0	0	0	0	0	1	15915	523	19	1		1	TIAM1	21	32595734	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5267674	32595734	15534161	970	33215											
IFNAR1	3454	broad.mit.edu	37	chr21	34697376	34697376	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagatgatggtcgtcctcCtgggcgcgacgaccctagtg	6	8	13	14	4	0	2	0	1	0	1	3	4	2	2	4	2	0	0	4	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:34697376C>A	uc002yrn.2	+	1	163	c.16C>A	c.(16-18)CTG>ATG	p.L6M	IFNAR1_uc011adv.1_Intron	NM_000629	NP_000620	P17181	INAR1_HUMAN	interferon-alpha receptor 1 precursor	6					JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	integral to plasma membrane	type I interferon receptor activity			central_nervous_system(1)|skin(1)	2					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	GGTCGTCCTCCTGGGCGCGAC	0.682													7	23					2.62144e-13	2.98587e-13	0.004482	1	0		A	34697376	A	A	34697376	3	1	37	1	0	0	0	0	1	0	0	0	7560	680	24	5	18	5	IFNAR1	21	34697376	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2101642	34697376	13432519	971	33216											
ERG	2078	broad.mit.edu	37	chr21	39775628	39775628	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgtactccatagcgtaGgatctgaaaggggtgggaac	10	9	15	7	1	2	1	0	1	2	0	3	3	3	3	1	5	3	2	1	5	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:39775628G>T	uc010gnw.2	-	6	708	c.413C>A	c.(412-414)CCT>CAT	p.P138H	ERG_uc002yxa.2_Missense_Mutation_p.P131H|ERG_uc011aek.1_Missense_Mutation_p.P39H|ERG_uc010gnv.2_Missense_Mutation_p.P39H|ERG_uc010gnx.2_Missense_Mutation_p.P138H|ERG_uc011ael.1_Missense_Mutation_p.P138H|ERG_uc002yxb.2_Missense_Mutation_p.P138H|ERG_uc011aem.1_Intron|ERG_uc002yxc.3_Missense_Mutation_p.P138H|ERG_uc010gny.1_RNA	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	138	PNT.				cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				CCATAGCGTAGGATCTGAAAG	0.512													3	41					0.00024832	0.000262187	0.009096	1	0		T	39775628	T	T	39775628	3	4	37	1	0	0	0	0	1	0	0	0	5230	1000	35	5	1075	5	ERG	21	39775628	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5078252	39775628	8354267	972	33217											
UMODL1	89766	broad.mit.edu	37	chr21	43496242	43496242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggctggatcccctggaggCggtgccctaagatggtttac	6	9	15	11	2	0	1	0	0	0	1	1	3	1	3	3	6	2	2	3	6	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:43496242C>T	uc002zaf.1	+	2	205	c.205C>T	c.(205-207)CGG>TGG	p.R69W	UMODL1_uc002zad.1_5'UTR|UMODL1_uc002zae.1_5'UTR|UMODL1_uc002zag.1_Missense_Mutation_p.R69W|uc002zah.1_RNA	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	69	Extracellular (Potential).|EMI.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						CCCCTGGAGGCGGTGCCCTAA	0.607													13	74					0	0	0.001855	0	0		T	43496242	T	T	43496242	3	4	37	1	0	0	0	0	1	0	0	0	17006	759	27	1	211	1	UMODL1	21	43496242	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3720614	43496242	4633653	973	33218											
UMODL1	89766	broad.mit.edu	37	chr21	43529775	43529775	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgccgtaccaccagggaCgccaccccctcccgcgcagg	7	3	11	20	4	0	0	0	0	0	0	1	1	1	1	7	2	2	2	7	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:43529775C>T	uc002zaf.1	+	10	1623	c.1623C>T	c.(1621-1623)GAC>GAT	p.D541D	UMODL1_uc002zad.1_Silent_p.D469D|UMODL1_uc002zae.1_Silent_p.D469D|UMODL1_uc002zag.1_Silent_p.D541D|C21orf128_uc002zak.2_5'Flank	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	541	EGF-like 2; calcium-binding (Potential).|Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						CCACCAGGGACGCCACCCCCT	0.687													15	76					0	0	0.004007	0	0		T	43529775	T	T	43529775	2	4	37	1	0	0	0	0	0	0	0	1	17006	535	19	1		1	UMODL1	21	43529775	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	33533	43529775	4600120	974	33219											
SIK1	150094	broad.mit.edu	37	chr21	44836942	44836942	+	Frame_Shift_Del	DEL	G	-	-																															aaacggggcaggggccggctGgggggcctgggagcagccgg																										TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:44836942delG	uc002zdf.2	-	14	2159	c.2032delC	c.(2032-2034)CAGfs	p.Q678fs		NM_173354	NP_775490	P57059	SIK1_HUMAN	salt-inducible kinase 1	678					anoikis|cell cycle|cell differentiation|intracellular protein kinase cascade|multicellular organismal development|regulation of cell differentiation|regulation of mitotic cell cycle	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(2)|testis(2)|ovary(1)|central_nervous_system(1)|skin(1)	7						GGGGCCGGCTGGGGGGCCTGG	0.736													6	7	---	---	---	---						.	-	44836942	-	-	44836942	7	5	37	1	0	1	0	1	0	0	0	0	14342	1357	47	0	323	0	SIK1	21	44836942	Frame_Shift_Del	DEL	G	TCGA-BR-6566-01A-11D-1800-08	1307167	44836942	3292953	975	33220											
C21orf58	54058	broad.mit.edu	37	chr21	47722461	47722461	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaccaactggtgcacctgtgCgttctgcagcagcagcagct	8	8	12	13	1	1	0	0	0	1	0	1	1	1	0	2	1	8	7	2	1	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:47722461C>T	uc002zjf.2	-	8	1885	c.751G>A	c.(751-753)GCA>ACA	p.A251T	C21orf58_uc002ziz.2_Missense_Mutation_p.A168T|C21orf58_uc002zja.2_Missense_Mutation_p.A145T|C21orf58_uc011afw.1_Missense_Mutation_p.A168T|C21orf58_uc002zjc.2_Missense_Mutation_p.A145T|C21orf58_uc011afx.1_Missense_Mutation_p.A145T|C21orf58_uc010gqj.1_RNA	NM_058180	NP_478060	P58505	CU058_HUMAN	hypothetical protein LOC54058	251										pancreas(1)	1	Breast(49;0.112)			Colorectal(79;0.239)		TGCACCTGTGCGTTCTGCAGC	0.547													3	22					0	0	0.004672	0	0		T	47722461	T	T	47722461	3	4	37	1	0	0	0	0	1	0	0	0	2132	768	27	1	225	1	C21orf58	21	47722461	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2885519	47722461	407434	976	33221											
BID	637	broad.mit.edu	37	chr22	18220977	18220977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagctgctccagggcagtggCcaggtccctgttccggtcct	4	9	13	15	1	0	0	0	0	0	0	4	0	4	0	5	4	2	4	5	4	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:18220977C>T	uc002znd.1	-	5	552	c.382G>A	c.(382-384)GCC>ACC	p.A128T	BID_uc002znc.1_Missense_Mutation_p.A174T|BID_uc002zne.1_Missense_Mutation_p.A32T|BID_uc010gra.1_RNA|BID_uc002znf.1_Missense_Mutation_p.A32T|BID_uc010grb.1_Missense_Mutation_p.A128T|BID_uc010grc.1_Missense_Mutation_p.A32T	NM_001196	NP_001187	P55957	BID_HUMAN	BH3 interacting domain death agonist isoform 2	128					activation of pro-apoptotic gene products|establishment of protein localization in membrane|induction of apoptosis by intracellular signals|induction of apoptosis via death domain receptors|neuron apoptosis|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria|release of cytochrome c from mitochondria	cytosol|membrane fraction|mitochondrial outer membrane	death receptor binding				0		all_epithelial(15;0.198)		Lung(27;0.0419)		AGGGCAGTGGCCAGGTCCCTG	0.577													16	57					0	0	0.004007	0	0		T	18220977	T	T	18220977	3	4	37	1	0	0	0	0	1	0	0	0	1431	739	26	2	213	2	BID	22	18220977	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08		18220977	33083589	977	33222											
HIRA	7290	broad.mit.edu	37	chr22	19398267	19398267	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttgcgaacttggtcccGtcagggtgaatatcaactga	10	10	11	10	2	2	2	2	2	0	0	3	3	3	2	2	2	3	1	2	2	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:19398267G>A	uc002zpf.1	-	2	292	c.72C>T	c.(70-72)GAC>GAT	p.D24D	HIRA_uc011agx.1_Translation_Start_Site|HIRA_uc010grn.1_Silent_p.D24D|HIRA_uc010gro.1_Translation_Start_Site|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	24	WD 1.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					ACTTGGTCCCGTCAGGGTGAA	0.398													66	199					0	0	0.01441	0	0		A	19398267	A	A	19398267	2	1	37	1	0	0	0	0	0	0	0	1	7136	1136	40	1		1	HIRA	22	19398267	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1177290	19398267	31906299	978	33223											
C22orf25	128989	broad.mit.edu	37	chr22	20050943	20050943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtacgcggctgtgtgcgtgCgctgccctggctacggcacc	4	8	15	14	5	0	0	0	0	0	0	0	0	0	0	2	3	5	5	2	3	2	2	rs140525489		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:20050943C>T	uc010grw.1	+	9	1025	c.688C>T	c.(688-690)CGC>TGC	p.R230C	C22orf25_uc002zrb.1_Missense_Mutation_p.R168C|C22orf25_uc002zrc.1_Missense_Mutation_p.R230C|C22orf25_uc002zrd.1_Missense_Mutation_p.R196C|C22orf25_uc011ahe.1_RNA|C22orf25_uc011ahf.1_3'UTR|C22orf25_uc011ahg.1_Intron|C22orf25_uc002zrg.2_Missense_Mutation_p.R271C|C22orf25_uc011ahh.1_Missense_Mutation_p.A229V|C22orf25_uc002zrf.2_Missense_Mutation_p.R168C|C22orf25_uc011ahi.1_Missense_Mutation_p.R132C|C22orf25_uc010gry.1_RNA|C22orf25_uc002zrh.1_Missense_Mutation_p.R132C	NM_152906	NP_690870	Q6ICL3	CV025_HUMAN	hypothetical protein LOC128989	230											0	Colorectal(54;0.0533)					TGTGTGCGTGCGCTGCCCTGG	0.652													8	30					0	0	0.004482	0	0		T	20050943	T	T	20050943	3	4	37	1	0	0	0	0	1	0	0	0	2142	768	27	1	714	1	C22orf25	22	20050943	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	652676	20050943	31253623	979	33224											
ZNF74	7625	broad.mit.edu	37	chr22	20749701	20749701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggggtcttcccgaagccaGgtccaaggtgagtggctgtg	6	10	16	9	1	1	1	0	1	1	0	3	2	3	1	3	5	1	1	3	5	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:20749701G>A	uc010gsm.2	+	3	325	c.113G>A	c.(112-114)AGG>AAG	p.R38K	ZNF74_uc002zsg.2_5'UTR|ZNF74_uc002zsh.2_Missense_Mutation_p.R38K|ZNF74_uc002zsi.2_Intron|ZNF74_uc010gsn.2_5'UTR	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	38					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CCCGAAGCCAGGTCCAAGGTG	0.537													20	81					0	0	0.008871	0	0		A	20749701	A	A	20749701	3	1	37	1	0	0	0	0	1	0	0	0	18152	1000	35	4	119	4	ZNF74	22	20749701	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	698758	20749701	30554865	980	33225											
DERL3	91319	broad.mit.edu	37	chr22	24180574	24180574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaagagaaacatgaagaCgaagtcggccgtgcggccgc	12	3	14	12	6	0	3	0	1	0	2	1	6	0	3	3	2	2	0	3	2	4	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:24180574C>T	uc002zyh.2	-	4	317	c.292G>A	c.(292-294)GTC>ATC	p.V98I	DERL3_uc002zyk.3_Missense_Mutation_p.V98I|DERL3_uc002zyi.2_Missense_Mutation_p.V98I|DERL3_uc002zyj.2_Missense_Mutation_p.V24I	NM_001002862	NP_001002862	Q96Q80	DERL3_HUMAN	derlin 3 isoform 2	98	Cytoplasmic (Potential).				endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process	integral to endoplasmic reticulum membrane	protein binding			ovary(1)	1						AACATGAAGACGAAGTCGGCC	0.652													4	14					0	0	0.001168	0	0		T	24180574	T	T	24180574	3	4	37	1	0	0	0	0	1	0	0	0	4454	536	19	1	545	1	DERL3	22	24180574	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	3430873	24180574	27123992	981	33226											
MIF	4282	broad.mit.edu	37	chr22	24236713	24236713	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgcgcctccgtgccggacGggttcctctccgagctcacc	3	7	11	20	6	2	0	1	0	1	0	5	2	4	1	7	2	2	2	7	2	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:24236713G>T	uc002zyr.1	+	1	149	c.52G>T	c.(52-54)GGG>TGG	p.G18W	MIF_uc011aje.1_Missense_Mutation_p.G18W|uc002zys.1_3'UTR	NM_002415	NP_002406	P14174	MIF_HUMAN	macrophage migration inhibitory factor	18					cell proliferation|cell surface receptor linked signaling pathway|inflammatory response|innate immune response|negative regulation of apoptosis|negative regulation of cell aging|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of gene expression|positive regulation of B cell proliferation|positive regulation of cytokine secretion|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase A signaling cascade|prostaglandin biosynthetic process|protein homotrimerization|regulation of macrophage activation	cell surface|cytoplasm|extracellular space	cell surface binding|chemoattractant activity|cytokine activity|cytokine receptor binding|dopachrome isomerase activity|phenylpyruvate tautomerase activity				0						CGTGCCGGACGGGTTCCTCTC	0.692													6	58					3.59834e-05	3.82557e-05	0.001168	1	0		T	24236713	T	T	24236713	3	4	37	1	0	0	0	0	1	0	0	0	9601	1116	39	5	54	5	MIF	22	24236713	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	56139	24236713	27067853	982	33227											
CABIN1	23523	broad.mit.edu	37	chr22	24530289	24530289	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctccagtgggcccgcgaCgtgttgctaggcagcagtat	8	8	13	12	3	0	0	0	0	0	0	1	1	1	0	3	2	3	5	3	2	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:24530289C>T	uc002zzi.1	+	29	4780	c.4653C>T	c.(4651-4653)GAC>GAT	p.D1551D	CABIN1_uc002zzj.1_Silent_p.D1472D|CABIN1_uc002zzl.1_Silent_p.D1551D	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1551					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GGGCCCGCGACGTGTTGCTAG	0.587													7	25					0	0	0.001984	0	0		T	24530289	T	T	24530289	2	4	37	1	0	0	0	0	0	0	0	1	2531	535	19	1		1	CABIN1	22	24530289	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	293576	24530289	26774277	983	33228											
CRYBB3	1417	broad.mit.edu	37	chr22	25598726	25598726	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaccgacagcctgctggAgaaggtgggctccatccaag	9	6	13	13	1	0	2	0	1	0	1	2	4	2	2	5	3	2	2	5	3	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:25598726A>C	uc003abo.1	+	3	233	c.161A>C	c.(160-162)GAG>GCG	p.E54A		NM_004076	NP_004067	P26998	CRBB3_HUMAN	crystallin, beta B3	54	Beta/gamma crystallin 'Greek key' 1.				visual perception		protein binding|structural constituent of eye lens				0						AGCCTGCTGGAGAAGGTGGGC	0.537											OREG0026423	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	54					0	0	0.00245	0	0		C	25598726	C	C	25598726	3	2	37	1	0	0	0	0	1	0	0	0	3915	304	11	5	167	5	CRYBB3	22	25598726	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1068437	25598726	25705840	984	33229											
EWSR1	2130	broad.mit.edu	37	chr22	29668385	29668385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctacagtgcttacaccGcccagcccactcaaggatat	11	7	8	15	1	1	0	1	0	0	0	1	1	1	1	3	1	5	3	3	1	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:29668385G>A	uc003aet.2	+	3	395	c.67G>A	c.(67-69)GCC>ACC	p.A23T	EWSR1_uc003aes.3_Missense_Mutation_p.A23T|EWSR1_uc003aev.2_Missense_Mutation_p.A23T|EWSR1_uc003aew.2_Missense_Mutation_p.A23T|EWSR1_uc003aex.2_Missense_Mutation_p.A23T	NM_005243	NP_005234	Q01844	EWS_HUMAN	Ewing sarcoma breakpoint region 1 isoform 2	23	EAD (Gln/Pro/Thr-rich).|2.|31 X approximate tandem repeats.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	calmodulin binding|nucleotide binding|RNA binding|zinc ion binding		EWSR1/FLI1(2266)|EWSR1/ATF1(323)|EWSR1/WT1(231)|EWSR1/ERG(162)|EWSR1/NR4A3(140)|EWSR1/DDIT3(43)|EWSR1/CREB1(42)|EWSR1/FEV(10)|EWSR1/POU5F1(10)|EWSR1/ETV1(7)|EWSR1/ETV4(6)|EWSR1/ZNF384(4)|EWSR1/PBX1(3)|EWSR1/SP3(3)|EWSR1/PATZ1(2)	bone(2526)|soft_tissue(702)|skin(8)|autonomic_ganglia(4)|haematopoietic_and_lymphoid_tissue(4)|salivary_gland(2)|central_nervous_system(2)|NS(2)|pancreas(2)|lung(1)|ovary(1)	3254						TGCTTACACCGCCCAGCCCAC	0.368			T	FLI1|ERG|ZNF278|NR4A3|FEV|ATF1|ETV1|ETV4|WT1|ZNF384|CREB1|POU5F1| PBX1	Ewing sarcoma| desmoplastic small round cell tumor |ALL|clear cell sarcoma|sarcoma|myoepithelioma								21	54					0	0	0.012319	0	0		A	29668385	A	A	29668385	3	1	37	1	0	0	0	0	1	0	0	0	5304	1087	38	1	77	1	EWSR1	22	29668385	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4069659	29668385	21636181	985	33230											
DRG1	4733	broad.mit.edu	37	chr22	31823111	31823111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgcttccttactccaggaCcacagtggaggatttctgca	8	11	11	11	0	1	0	0	0	1	0	3	3	3	3	3	4	3	2	3	4	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:31823111C>T	uc003aku.2	+	8	1078	c.947C>T	c.(946-948)ACC>ATC	p.T316I		NM_004147	NP_004138	Q9Y295	DRG1_HUMAN	developmentally regulated GTP binding protein 1	316					multicellular organismal development|transcription, DNA-dependent	cytoplasm|intermediate filament cytoskeleton|nucleus	GTP binding|transcription factor binding			central_nervous_system(1)	1						TACTCCAGGACCACAGTGGAG	0.418													5	104					0	0	0.001168	0	0		T	31823111	T	T	31823111	3	4	37	1	0	0	0	0	1	0	0	0	4767	507	18	4	977	4	DRG1	22	31823111	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2154726	31823111	19481455	986	33231											
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31859034	31859034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagactgacttgtgggtccaGcagagaaccactctggttct	9	10	11	11	0	2	3	0	1	2	2	3	4	3	3	2	2	2	2	2	2	1	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:31859034G>A	uc003akz.1	-	6	835	c.671C>T	c.(670-672)GCT>GTT	p.A224V	EIF4ENIF1_uc003ala.1_Missense_Mutation_p.A224V|EIF4ENIF1_uc003alb.1_Intron	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	224						nucleus	protein binding|protein transporter activity			ovary(1)	1						TGTGGGTCCAGCAGAGAACCA	0.428													6	46					0	0	0.001168	0	0		A	31859034	A	A	31859034	3	1	37	1	0	0	0	0	1	0	0	0	5043	971	34	2	2345	2	EIF4ENIF1	22	31859034	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	35923	31859034	19445532	987	33232											
PISD	23761	broad.mit.edu	37	chr22	32015676	32015676	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaagtccttgggggcctcGaagatgagcacgatggtgga	9	9	16	7	2	0	3	0	2	0	1	2	6	1	4	2	4	1	1	2	4	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:32015676G>A	uc003alm.3	-	8	1159	c.1152C>T	c.(1150-1152)TTC>TTT	p.F384F	PISD_uc003alk.2_Silent_p.F350F|PISD_uc003all.2_3'UTR|PISD_uc011alr.1_Silent_p.F349F|PISD_uc003aln.3_Silent_p.F346F	NM_014338	NP_055153	Q9UG56	PISD_HUMAN	phosphatidylserine decarboxylase	384					phospholipid biosynthetic process	mitochondrion	phosphatidylserine decarboxylase activity			central_nervous_system(2)|ovary(1)	3					Phosphatidylserine(DB00144)	TGGGGGCCTCGAAGATGAGCA	0.557													10	50					0	0	0.010729	0	0		A	32015676	A	A	32015676	2	1	37	1	0	0	0	0	0	0	0	1	11965	1049	37	1		1	PISD	22	32015676	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	156642	32015676	19288890	988	33233											
LARGE	9215	broad.mit.edu	37	chr22	33670462	33670462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagggcagcaaagccgtagCggcgggacatgtcctgctga	9	6	15	11	3	1	1	1	1	0	0	2	2	2	2	2	3	4	4	2	3	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:33670462C>T	uc003and.3	-	16	2801	c.2222G>A	c.(2221-2223)CGC>CAC	p.R741H	LARGE_uc011amd.1_Missense_Mutation_p.R540H|LARGE_uc003ane.3_Missense_Mutation_p.R741H|LARGE_uc010gwp.2_Missense_Mutation_p.R689H|LARGE_uc011ame.1_Missense_Mutation_p.R673H|LARGE_uc011amf.1_Missense_Mutation_p.R692H	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	741	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				AAAGCCGTAGCGGCGGGACAT	0.537											OREG0026497	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	117					0	0	0.005524	0	0		T	33670462	T	T	33670462	3	4	37	1	0	0	0	0	1	0	0	0	8643	768	27	1	52	1	LARGE	22	33670462	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1654786	33670462	17634104	989	33234											
TMPRSS6	164656	broad.mit.edu	37	chr22	37480395	37480395	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcatacttctgcctcctcAgtgcataggcatcaaaccag	12	10	6	13	0	4	0	3	0	1	0	5	0	5	0	3	1	4	2	3	1	4	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:37480395A>G	uc003aqs.1	-	10	1277	c.1163T>C	c.(1162-1164)CTG>CCG	p.L388P	TMPRSS6_uc003aqt.1_Missense_Mutation_p.L379P|TMPRSS6_uc003aqu.2_Missense_Mutation_p.L379P	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	388	CUB 2.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						CTGCCTCCTCAGTGCATAGGC	0.512													4	18					0	0	0.000602	0	0		G	37480395	G	G	37480395	3	3	37	1	0	0	0	0	1	0	0	0	16276	188	7	3	1308	3	TMPRSS6	22	37480395	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3809933	37480395	13824171	990	33235											
DDX17	10521	broad.mit.edu	37	chr22	38894492	38894492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaatgcccaccatatcccGgccactaagagccaacggaa	14	4	8	15	2	0	1	0	0	0	1	1	2	1	2	5	2	4	1	5	2	5	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:38894492G>A	uc003avy.3	-	4	728	c.625C>T	c.(625-627)CGG>TGG	p.R209W	DDX17_uc003avx.3_Missense_Mutation_p.R209W|DDX17_uc011anu.1_Missense_Mutation_p.R122W	NM_001098504	NP_001091974	Q92841	DDX17_HUMAN	DEAD box polypeptide 17 isoform 3	130	Helicase ATP-binding.				RNA processing	nucleus	ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity|RNA-dependent ATPase activity			skin(3)|upper_aerodigestive_tract(1)	4	Melanoma(58;0.0286)					ACCATATCCCGGCCACTAAGA	0.438													4	80					0	0	0.000602	0	0		A	38894492	A	A	38894492	3	1	37	1	0	0	0	0	1	0	0	0	4347	1115	39	1	1610	1	DDX17	22	38894492	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1414097	38894492	12410074	991	33236											
PDGFB	5155	broad.mit.edu	37	chr22	39621767	39621767	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcagtgccgtcttgtcatgCgtgtgcttgaatttccggtg	4	16	12	9	3	3	1	2	1	1	0	4	1	4	1	2	1	3	1	2	1	1	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:39621767C>T	uc003axf.2	-	6	1676	c.687G>A	c.(685-687)ACG>ACA	p.T229T	PDGFB_uc003axe.2_Silent_p.T214T	NM_002608	NP_002599	P01127	PDGFB_HUMAN	platelet-derived growth factor beta isoform 1	229					activation of protein kinase B activity|cellular response to mycophenolic acid|embryonic placenta development|heart development|hemopoiesis|metanephric glomerular mesangial cell development|monocyte chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|negative regulation of transcription, DNA-dependent|paracrine signaling|peptidyl-serine phosphorylation|peptidyl-tyrosine phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of calcium ion import|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of cyclin-dependent protein kinase activity|positive regulation of DNA biosynthetic process|positive regulation of DNA replication|positive regulation of endothelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of glomerular filtration|positive regulation of glomerular mesangial cell proliferation|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent|reactive oxygen species metabolic process|transforming growth factor beta receptor signaling pathway	basolateral plasma membrane|cell surface|endoplasmic reticulum lumen|extracellular region|Golgi membrane|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|superoxide-generating NADPH oxidase activator activity		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(1)	373	Melanoma(58;0.04)				Becaplermin(DB00102)	TCTTGTCATGCGTGTGCTTGA	0.622			T	COL1A1	DFSP								7	42					0	0	0.001984	0	0		T	39621767	T	T	39621767	2	4	37	1	0	0	0	0	0	0	0	1	11677	755	27	1		1	PDGFB	22	39621767	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	727275	39621767	11682799	992	33237											
MGAT3	4248	broad.mit.edu	37	chr22	39884484	39884484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcagtgtatgggctggacGgcatccgcctgcgccgccgc	5	6	16	14	5	0	0	0	0	0	0	1	1	1	1	4	4	1	4	4	4	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:39884484G>A	uc003axv.3	+	2	1371	c.1132G>A	c.(1132-1134)GGC>AGC	p.G378S	MGAT3_uc010gxy.2_Missense_Mutation_p.G378S	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	378	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					TGGGCTGGACGGCATCCGCCT	0.647													20	77					0	0	0.014323	0	0		A	39884484	A	A	39884484	3	1	37	1	0	0	0	0	1	0	0	0	9562	1116	39	1	1134	1	MGAT3	22	39884484	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	262717	39884484	11420082	993	33238											
EP300	2033	broad.mit.edu	37	chr22	41556645	41556645	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtatggccttcttgccgacaGgtatcatttctgtgagaagt	8	14	11	8	1	3	1	1	1	2	1	3	3	3	1	2	2	1	2	2	2	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:41556645G>T	uc003azl.3	+	20	3986	c.3591_splice	c.e20-1	p.R1197_splice		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300						apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CTTGCCGACAGGTATCATTTC	0.507			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				10	66					1.58986e-06	1.72457e-06	0.008291	1	0		T	41556645	T	T	41556645	5	4	37	1	0	0	0	0	0	0	1	0	5156	1014	35	5	3668	5	EP300	22	41556645	Splice_Site	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1672161	41556645	9747921	994	33239											
SAMM50	25813	broad.mit.edu	37	chr22	44379812	44379812	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtgctgttttgtcctaGgttttaccttgggggaccca	4	16	12	9	0	0	0	0	0	0	0	1	1	1	1	3	3	2	3	3	3	2	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:44379812G>T	uc003bej.2	+	12	1205	c.1008_splice	c.e12-1	p.R336_splice	SAMM50_uc011aqd.1_Splice_Site_p.R126_splice|SAMM50_uc003bek.2_Splice_Site_p.R141_splice	NM_015380	NP_056195	Q9Y512	SAM50_HUMAN	sorting and assembly machinery component 50						protein import into mitochondrial outer membrane	integral to membrane|integral to membrane of membrane fraction|mitochondrial sorting and assembly machinery complex	protein binding			skin(1)	1		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				TTTTGTCCTAGGTTTTACCTT	0.537													9	100					6.40141e-05	6.78804e-05	0.010729	1	0		T	44379812	T	T	44379812	5	4	37	1	0	0	0	0	0	0	1	0	13854	1014	35	5	1053	5	SAMM50	22	44379812	Splice_Site	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2823167	44379812	6924754	995	33240											
UPK3A	7380	broad.mit.edu	37	chr22	45681923	45681923	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctgcatgtttgacagcAaagaggccctcactggcacc	9	9	9	14	0	2	2	1	1	1	1	3	2	2	2	2	2	2	4	2	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:45681923A>G	uc003bfy.2	+	2	160	c.154A>G	c.(154-156)AAA>GAA	p.K52E	UPK3A_uc010gzy.2_Missense_Mutation_p.K52E	NM_006953	NP_008884	O75631	UPK3A_HUMAN	uroplakin 3A precursor	52	Lumenal (Potential).				epithelial cell differentiation	endoplasmic reticulum membrane|integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		GTTTGACAGCAAAGAGGCCCT	0.567													14	62					0	0	0.00245	0	0		G	45681923	G	G	45681923	3	3	37	1	0	0	0	0	1	0	0	0	17036	131	5	3	160	3	UPK3A	22	45681923	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1302111	45681923	5622643	996	33241											
FBLN1	2192	broad.mit.edu	37	chr22	45944543	45944543	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacatctgctcctaccgcTgcatcaacatccctggaagc	9	8	7	17	1	2	0	1	0	1	0	4	1	4	1	4	1	5	3	4	1	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:45944543T>C	uc003bgj.1	+	13	1639	c.1492T>C	c.(1492-1494)TGC>CGC	p.C498R	FBLN1_uc003bgg.1_Missense_Mutation_p.C498R|FBLN1_uc003bgh.2_Missense_Mutation_p.C498R|FBLN1_uc010gzz.2_Missense_Mutation_p.C536R|FBLN1_uc003bgi.1_Missense_Mutation_p.C498R	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	498	EGF-like 8; calcium-binding.				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		CTCCTACCGCTGCATCAACAT	0.652													22	56					0	0	0.012319	0	0		C	45944543	C	C	45944543	3	2	37	1	0	0	0	0	1	0	0	0	5712	1580	55	3	1542	3	FBLN1	22	45944543	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	262620	45944543	5360023	997	33242											
PANX2	56666	broad.mit.edu	37	chr22	50617614	50617614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccgcctgccgcaggacGtgggggacctcatcgccatc	5	5	13	18	4	1	0	1	0	0	0	3	2	1	2	6	3	1	1	6	3	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:50617614G>A	uc003bjn.3	+	3	1942	c.1942G>A	c.(1942-1944)GTG>ATG	p.V648M	PANX2_uc003bjp.3_Intron|PANX2_uc003bjo.3_Intron	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	648					protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		GCCGCAGGACGTGGGGGACCT	0.657													8	39					0	0	0.006214	0	0		A	50617614	A	A	50617614	3	1	37	1	0	0	0	0	1	0	0	0	11440	1145	40	1	1952	1	PANX2	22	50617614	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	4673071	50617614	686952	998	33243											
SLC25A6	293	broad.mit.edu	37	chrX	1505589	1505589	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgcacccttgaagaaggccTtgcccccctcatctctgaag	9	8	8	16	1	2	3	1	2	1	1	3	3	2	3	5	1	1	1	5	1	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:1505589T>C	uc004cpt.2	-	4	899	c.803A>G	c.(802-804)AAG>AGG	p.K268R	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	268	Solcar 3.				active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	GAAGAAGGCCTTGCCCCCCTC	0.617													18	328					0	0	0.007413	0	0		C	1505589	C	C	1505589	3	2	37	1	0	0	0	0	1	0	0	0	14538	1609	56	3	97	3	SLC25A6	23	1505589	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08		1505589	153764971	999	33244											
GPR143	4935	broad.mit.edu	37	chrX	9693832	9693832	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagggtcaccctcatttttgTtgcaggattcacttgcagtg	7	14	10	10	0	3	0	3	0	0	0	3	1	3	1	1	2	2	3	1	2	0	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:9693832T>C	uc004cst.1	-	9	1229	c.1229A>G	c.(1228-1230)AAC>AGC	p.N410S		NM_000273	NP_000264	P51810	GP143_HUMAN	G protein-coupled receptor 143	390	Cytoplasmic (Potential).				calcium-mediated signaling using intracellular calcium source|eye pigment biosynthetic process|melanosome organization|melanosome transport|phosphatidylinositol-mediated signaling|regulation of calcium-mediated signaling|visual perception	apical plasma membrane|Golgi apparatus|integral to membrane|lysosomal membrane|melanosome membrane|membrane fraction	dopamine binding|L-DOPA receptor activity|protein binding|tyrosine binding			ovary(1)	1		Hepatocellular(5;0.000888)				CTCATTTTTGTTGCAGGATTC	0.483													9	40					0	0	0.004482	0	0		C	9693832	C	C	9693832	3	2	37	1	0	0	0	0	1	0	0	0	6666	1725	60	3	49	3	GPR143	23	9693832	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	8188243	9693832	145576728	1000	33245											
CDKL5	6792	broad.mit.edu	37	chrX	18622574	18622574	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggcccaaattgcggaGcccagtaccagtaggtactt	10	7	12	12	1	0	0	0	0	0	0	0	1	0	1	4	3	4	3	4	3	4	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:18622574G>A	uc004cym.2	+	12	1783	c.1530G>A	c.(1528-1530)GAG>GAA	p.E510E	CDKL5_uc004cyn.2_Silent_p.E510E	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	510					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					AAATTGCGGAGCCCAGTACCA	0.552													14	229					0	0	0.00245	0	0		A	18622574	A	A	18622574	2	1	37	1	0	0	0	0	0	0	0	1	3160	962	34	2		2	CDKL5	23	18622574	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	8928742	18622574	136647986	1001	33246											
GPR64	10149	broad.mit.edu	37	chrX	19031992	19031992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctatgggagctgaaggctggGgtgaaaggggttgaatctcc	9	9	17	6	0	1	3	0	3	1	0	2	4	1	4	1	6	1	3	1	6	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:19031992G>A	uc004cyx.2	-	16	1075	c.911C>T	c.(910-912)CCC>CTC	p.P304L	GPR64_uc004cyy.2_Missense_Mutation_p.P301L|GPR64_uc004cyz.2_Missense_Mutation_p.P290L|GPR64_uc004czb.2_Missense_Mutation_p.P304L|GPR64_uc004czc.2_Missense_Mutation_p.P288L|GPR64_uc004czd.2_Missense_Mutation_p.P280L|GPR64_uc004cze.2_Missense_Mutation_p.P274L|GPR64_uc004czf.2_Missense_Mutation_p.P266L|GPR64_uc004cza.2_Missense_Mutation_p.P282L|GPR64_uc004cyw.2_Missense_Mutation_p.P288L|GPR64_uc010nfj.2_Missense_Mutation_p.P274L	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	304	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					TGAAGGCTGGGGTGAAAGGGG	0.552													24	153					0	0	0.00278	0	0		A	19031992	A	A	19031992	3	1	37	1	0	0	0	0	1	0	0	0	6720	1232	43	4	2198	4	GPR64	23	19031992	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	409418	19031992	136238568	1002	33247											
DCAF8L1	139425	broad.mit.edu	37	chrX	27998016	27998016	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttactatatctcctctgTccccctccatgaactggatg	8	14	6	13	0	2	1	0	1	2	0	5	2	4	2	4	1	2	1	4	1	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:27998016T>C	uc004dbx.1	-	1	1551	c.1436A>G	c.(1435-1437)GAC>GGC	p.D479G		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	479	WD 7.									ovary(3)|skin(1)	4						ATCTCCTCTGTCCCCCTCCAT	0.532													8	36					0	0	0.004482	0	0		C	27998016	C	C	27998016	3	2	37	1	0	0	0	0	1	0	0	0	4280	1667	58	3	370	3	DCAF8L1	23	27998016	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	8966024	27998016	127272544	1003	33248											
IL1RAPL1	11141	broad.mit.edu	37	chrX	29959813	29959813	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggccttggtgctatacTcttgctgcttgtatgtttgg	4	17	13	7	0	1	0	0	0	1	0	1	1	1	1	1	4	4	5	1	4	3	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:29959813T>C	uc004dby.2	+	9	1611	c.1103T>C	c.(1102-1104)CTC>CCC	p.L368P		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	368	Helical; (Potential).				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						GGTGCTATACTCTTGCTGCTT	0.403													8	169					0	0	0.00308	0	0		C	29959813	C	C	29959813	3	2	37	1	0	0	0	0	1	0	0	0	7677	1551	54	3	1133	3	IL1RAPL1	23	29959813	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	1961797	29959813	125310747	1004	33249											
DMD	1756	broad.mit.edu	37	chrX	32360319	32360319	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggctccactgccattgcggcCccatcctcagacaagccctc	7	7	8	19	1	1	1	1	0	0	1	4	1	3	1	6	2	3	1	6	2	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:32360319C>T	uc004dda.1	-	41	6064	c.5820G>A	c.(5818-5820)GGG>GGA	p.G1940G	DMD_uc004dcw.2_Silent_p.G596G|DMD_uc004dcx.2_Silent_p.G599G|DMD_uc004dcz.2_Silent_p.G1817G|DMD_uc004dcy.1_Silent_p.G1936G|DMD_uc004ddb.1_Silent_p.G1932G|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1940	Spectrin 13.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CCATTGCGGCCCCATCCTCAG	0.493													15	62					0	0	0.003163	0	0		T	32360319	T	T	32360319	2	4	37	1	0	0	0	0	0	0	0	1	4586	610	22	4		4	DMD	23	32360319	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	2400506	32360319	122910241	1005	33250											
DMD	1756	broad.mit.edu	37	chrX	32466739	32466739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctttcgcttctttttgttggGcctcttctttagctctctga	2	21	7	11	1	4	1	0	1	4	0	6	1	4	1	1	1	1	3	1	1	1	8			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:32466739G>A	uc004dda.1	-	27	3864	c.3620C>T	c.(3619-3621)GCC>GTC	p.A1207V	DMD_uc004dcz.2_Missense_Mutation_p.A1084V|DMD_uc004dcy.1_Missense_Mutation_p.A1203V|DMD_uc004ddb.1_Missense_Mutation_p.A1199V|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1207	Spectrin 8.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTTTTGTTGGGCCTCTTCTTT	0.348													4	47					0	0	0.009096	0	0		A	32466739	A	A	32466739	3	1	37	1	0	0	0	0	1	0	0	0	4586	1203	42	2	7892	2	DMD	23	32466739	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	106420	32466739	122803821	1006	33251											
DMD	1756	broad.mit.edu	37	chrX	32834669	32834669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattaacctgtggataattaCgagttgattgtcggacccag	11	12	10	8	2	0	1	0	1	0	0	1	4	0	3	2	2	2	1	2	2	3	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:32834669C>T	uc004dda.1	-	6	690	c.446G>A	c.(445-447)CGT>CAT	p.R149H	DMD_uc004dcz.2_Missense_Mutation_p.R26H|DMD_uc004dcy.1_Missense_Mutation_p.R145H|DMD_uc004ddb.1_Missense_Mutation_p.R141H|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.R141H|DMD_uc010ngp.1_Missense_Mutation_p.R26H|DMD_uc010ngq.1_Intron|DMD_uc010ngr.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	149	CH 2.|Actin-binding.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGGATAATTACGAGTTGATTG	0.408													4	93					0	0	0.009096	0	0		T	32834669	T	T	32834669	3	4	37	1	0	0	0	0	1	0	0	0	4586	536	19	1	11150	1	DMD	23	32834669	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	367930	32834669	122435891	1007	33252											
DYNLT3	6990	broad.mit.edu	37	chrX	37701055	37701055	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	caatatatttataggcttttCccaacttaaccaggtgtgtt	11	16	6	8	0	0	0	0	0	0	0	1	0	1	0	2	2	2	2	2	2	7	9			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:37701055C>G	uc004dds.2	-	3	302	c.176G>C	c.(175-177)GGA>GCA	p.G59A		NM_006520	NP_006511	P51808	DYLT3_HUMAN	dynein, light chain, Tctex-type 3	59					cell division|mitosis|regulation of mitotic cell cycle|transport	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|nucleus|plasma membrane	motor activity				0						ATAGGCTTTTCCCAACTTAAC	0.368													11	24					0	0	0.001855	0	0		G	37701055	G	G	37701055	3	3	37	1	0	0	0	0	1	0	0	0	4859	855	30	5	186	5	DYNLT3	23	37701055	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4866386	37701055	117569505	1008	33253											
USP9X	8239	broad.mit.edu	37	chrX	41025133	41025133	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttttttcaagatttttatTgaaggatggtcagctgtggc	8	18	11	4	0	2	2	2	1	0	1	2	3	2	3	0	3	1	2	0	3	3	7			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:41025133T>C	uc004dfb.2	+	16	2627	c.1994T>C	c.(1993-1995)TTG>TCG	p.L665S	USP9X_uc004dfc.2_Missense_Mutation_p.L665S	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	665					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						AGATTTTTATTGAAGGATGGT	0.338													6	66					0	0	0.001168	0	0		C	41025133	C	C	41025133	3	2	37	1	0	0	0	0	1	0	0	0	17116	1821	63	3	2052	3	USP9X	23	41025133	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	3324078	41025133	114245427	1009	33254											
USP11	8237	broad.mit.edu	37	chrX	47101540	47101540	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgattctgtgatcgtggaCactttccacggcctcttcaa	9	12	8	12	3	3	1	1	1	2	0	5	3	4	2	2	2	1	0	2	2	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:47101540C>T	uc004dhp.2	+	10	1368	c.1368C>T	c.(1366-1368)GAC>GAT	p.D456D	USP11_uc004dhq.2_Silent_p.D183D	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	456					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						TGATCGTGGACACTTTCCACG	0.567													9	26					0	0	0.004482	0	0		T	47101540	T	T	47101540	2	4	37	1	0	0	0	0	0	0	0	1	17068	477	17	4		4	USP11	23	47101540	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	6076407	47101540	108169020	1010	33255											
KCND1	3750	broad.mit.edu	37	chrX	48826046	48826046	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggacctgcgtgcagagccGcggcatgggatggtctccac	7	6	16	12	3	1	1	0	0	1	1	2	4	1	3	3	4	3	2	3	4	0	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:48826046G>A	uc004dlx.1	-	1	2206	c.633C>T	c.(631-633)CGC>CGT	p.R211R	KCND1_uc004dlw.1_5'Flank	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	211						voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						GTGCAGAGCCGCGGCATGGGA	0.582													10	22					0	0	0.008291	0	0		A	48826046	A	A	48826046	2	1	37	1	0	0	0	0	0	0	0	1	8034	1074	38	1		1	KCND1	23	48826046	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	1724506	48826046	106444514	1011	33256											
GRIPAP1	56850	broad.mit.edu	37	chrX	48839705	48839705	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgtcttcatgcagctctcGgagctcacgctcatagcggg	6	11	11	13	3	5	0	3	0	2	0	6	1	5	1	0	2	4	4	0	2	1	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:48839705G>A	uc004dly.1	-	16	1455	c.1420C>T	c.(1420-1422)CGA>TGA	p.R474*	GRIPAP1_uc004dlz.2_Nonsense_Mutation_p.R364*|GRIPAP1_uc004dma.2_Nonsense_Mutation_p.R421*	NM_020137	NP_064522	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1 isoform 1	474	Potential.					early endosome				breast(2)|kidney(1)	3						TGCAGCTCTCGGAGCTCACGC	0.592													43	80					0	0	0.009718	0	0		A	48839705	A	A	48839705	4	1	37	1	0	0	0	0	0	1	0	0	6805	1124	39	1	1203	1	GRIPAP1	23	48839705	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	13659	48839705	106430855	1012	33257											
TFE3	7030	broad.mit.edu	37	chrX	48891239	48891239	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcacacgctctctggcttActtaggttgtgattgtcttt	6	17	9	9	1	2	1	0	1	2	0	3	1	2	1	0	2	2	4	0	2	2	5			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:48891239A>G	uc004dmb.3	-	7	1298	c.1060_splice	c.e7+1	p.I354_splice	TFE3_uc004dmc.3_Splice_Site_p.I249_splice|TFE3_uc004dme.1_Splice_Site	NM_006521	NP_006512	P19532	TFE3_HUMAN	transcription factor E3						humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding		ASPSCR1/TFE3(161)|PRCC/TFE3(25)|SFPQ/TFE3(6)|NONO/TFE3(2)|CLTC/TFE3(2)	soft_tissue(120)|kidney(76)|central_nervous_system(1)	197						TCTCTGGCTTACTTAGGTTGT	0.582			T	SFPQ|ASPSCR1|PRCC|NONO|CLTC	papillary renal|alveolar soft part sarcoma|renal								14	47					0	0	0.00499	0	0		G	48891239	G	G	48891239	5	3	37	1	0	0	0	0	0	0	1	0	15825	405	14	3	681	3	TFE3	23	48891239	Splice_Site	SNP	A	TCGA-BR-6566-01A-11D-1800-08	51534	48891239	106379321	1013	33258											
PRAF2	11230	broad.mit.edu	37	chrX	48931588	48931588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccggagccgccagacgcGccgaccccagaacaaagtcg	11	2	12	16	6	0	2	0	0	0	2	2	5	1	3	6	1	2	0	6	1	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:48931588G>A	uc004dmi.2	-	1	75	c.59C>T	c.(58-60)GCG>GTG	p.A20V	PRAF2_uc004dmh.2_5'Flank|PRAF2_uc011mmt.1_Intron	NM_007213	NP_009144	O60831	PRAF2_HUMAN	PRA1 domain family, member 2	20	Cytoplasmic (Potential).				L-glutamate transport|protein transport	endosome membrane|integral to membrane					0						CGCCAGACGCGCCGACCCCAG	0.647													5	27					0	0	0.000602	0	0		A	48931588	A	A	48931588	3	1	37	1	0	0	0	0	1	0	0	0	12444	1087	38	1	489	1	PRAF2	23	48931588	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	40349	48931588	106338972	1014	33259											
RIBC1	158787	broad.mit.edu	37	chrX	53455530	53455530	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtacaacttggaaaggCaacagcaggagcaacagcaa	17	4	11	9	0	1	0	1	0	0	0	1	2	1	2	0	4	7	5	0	4	6	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:53455530C>T	uc004dsk.2	+	5	652	c.499C>T	c.(499-501)CAA>TAA	p.Q167*	RIBC1_uc004dsj.1_Nonsense_Mutation_p.Q167*|RIBC1_uc011mog.1_Intron	NM_001031745	NP_001026915	Q8N443	RIBC1_HUMAN	RIB43A domain with coiled-coils 1 isoform 1	167											0						CTTGGAAAGGCAACAGCAGGA	0.562													6	33					0	0	0.001984	0	0		T	53455530	T	T	53455530	4	4	37	1	0	0	0	0	0	1	0	0	13377	711	25	2	509	2	RIBC1	23	53455530	Nonsense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	4523942	53455530	101815030	1015	33260											
PHF8	23133	broad.mit.edu	37	chrX	54069132	54069132	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcacatcgtaaggcagccgGcagaggcaatacaccggcac	12	4	12	13	3	1	1	1	0	0	1	2	1	1	1	2	4	2	5	2	4	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:54069132G>A	uc004dsu.2	-	2	211	c.138C>T	c.(136-138)TGC>TGT	p.C46C	PHF8_uc004dst.2_Silent_p.C10C|PHF8_uc004dsw.2_Silent_p.C10C|PHF8_uc004dsy.2_Silent_p.C10C	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	46	PHD-type.				brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						AAGGCAGCCGGCAGAGGCAAT	0.642											OREG0019805	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	26					0	0	0.010729	0	0		A	54069132	A	A	54069132	2	1	37	1	0	0	0	0	0	0	0	1	11859	1195	42	2		2	PHF8	23	54069132	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	613602	54069132	101201428	1016	33261											
WNK3	65267	broad.mit.edu	37	chrX	54275628	54275628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaataaactctgcatcCatagctggctgctgtactga	12	11	9	9	0	1	2	0	2	1	1	2	3	2	2	1	1	5	5	1	1	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:54275628C>T	uc004dtd.1	-	17	3592	c.3153G>A	c.(3151-3153)ATG>ATA	p.M1051I	WNK3_uc004dtc.1_Missense_Mutation_p.M1051I	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1051					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						ACTCTGCATCCATAGCTGGCT	0.453													6	52					0	0	0.001168	0	0		T	54275628	T	T	54275628	3	4	37	1	0	0	0	0	1	0	0	0	17405	594	21	4	2281	4	WNK3	23	54275628	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	206496	54275628	100994932	1017	33262											
MAGED2	10916	broad.mit.edu	37	chrX	54837342	54837342	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgaagggtctcaaaggcccTaatggcctcaatggcccgca	10	6	11	14	2	2	0	2	0	1	0	3	1	2	0	4	4	0	1	4	4	4	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:54837342T>C	uc004dtk.1	+	4	720	c.626T>C	c.(625-627)CTA>CCA	p.L209P	MAGED2_uc004dtl.1_Missense_Mutation_p.L209P|MAGED2_uc004dtm.1_Intron|MAGED2_uc010nkc.1_Missense_Mutation_p.L209P|MAGED2_uc004dtn.1_Missense_Mutation_p.L209P|MAGED2_uc004dto.1_Missense_Mutation_p.L183P	NM_177433	NP_803182	Q9UNF1	MAGD2_HUMAN	melanoma antigen family D, 2	209										ovary(2)|breast(1)	3						TCAAAGGCCCTAATGGCCTCA	0.602													14	28					0	0	0.001855	0	0		C	54837342	C	C	54837342	3	2	37	1	0	0	0	0	1	0	0	0	9202	1522	53	3	636	3	MAGED2	23	54837342	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	561714	54837342	100433218	1018	33263											
MAGEH1	28986	broad.mit.edu	37	chrX	55479097	55479097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcctgatgtctatattagCgctcatcttcatcatgggca	8	15	7	11	1	6	1	3	1	3	0	7	1	6	1	1	1	1	2	1	1	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:55479097C>T	uc004dum.2	+	1	560	c.290C>T	c.(289-291)GCG>GTG	p.A97V		NM_014061	NP_054780	Q9H213	MAGH1_HUMAN	melanoma antigen, family H, 1 protein	97	MAGE.				apoptosis					ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TCTATATTAGCGCTCATCTTC	0.527													15	68					0	0	0.003163	0	0		T	55479097	T	T	55479097	3	4	37	1	0	0	0	0	1	0	0	0	9206	768	27	1	292	1	MAGEH1	23	55479097	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	641755	55479097	99791463	1019	33264											
USP51	158880	broad.mit.edu	37	chrX	55514661	55514661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcatatgggtactacataCgtgacagatgcatgactttg	11	13	10	7	1	1	3	1	2	0	1	1	3	1	3	0	1	4	3	0	1	4	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:55514661C>T	uc004dun.1	-	2	791	c.712G>A	c.(712-714)GTA>ATA	p.V238I	USP51_uc011moo.1_Intron	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	238	UBP-type.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						GTACTACATACGTGACAGATG	0.443													8	56					0	0	0.006214	0	0		T	55514661	T	T	55514661	3	4	37	1	0	0	0	0	1	0	0	0	17109	536	19	1	1427	1	USP51	23	55514661	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	35564	55514661	99755899	1020	33265											
RRAGB	10325	broad.mit.edu	37	chrX	55748712	55748712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagacacacgtcgccttggcGcaacaagtaagatgttttat	12	10	10	9	3	0	2	0	0	0	2	1	3	0	2	1	1	1	3	1	1	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:55748712G>A	uc004dup.2	+	3	871	c.220G>A	c.(220-222)GCA>ACA	p.A74T	RRAGB_uc004duq.2_Missense_Mutation_p.A74T	NM_016656	NP_057740	Q5VZM2	RRAGB_HUMAN	Ras-related GTP binding B long isoform	74					cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade|signal transduction	Golgi apparatus|lysosome|nucleus	GTP binding|protein binding				0						TCGCCTTGGCGCAACAAGTAA	0.408													5	83					0	0	0.001168	0	0		A	55748712	A	A	55748712	3	1	37	1	0	0	0	0	1	0	0	0	13698	1087	38	1	230	1	RRAGB	23	55748712	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	234051	55748712	99521848	1021	33266											
ZXDB	158586	broad.mit.edu	37	chrX	57620192	57620192	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagacgcacatggttaaaAggcataaggtgggccaggat	14	7	14	6	1	0	2	0	1	0	1	0	3	0	3	1	5	0	3	1	5	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:57620192A>G	uc004dvd.2	+	1	1924	c.1711A>G	c.(1711-1713)AGG>GGG	p.R571G		NM_007157	NP_009088	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	571	C2H2-type 10.|Required for interaction with ZXDC (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						CATGGTTAAAAGGCATAAGGT	0.483													3	137					0	0	0.001168	0	0		G	57620192	G	G	57620192	3	3	37	1	0	0	0	0	1	0	0	0	18276	63	3	3	1713	3	ZXDB	23	57620192	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	1871480	57620192	97650368	1022	33267											
FAM123B	139285	broad.mit.edu	37	chrX	63411068	63411068	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcataacgcttctccagaGgacggaagtccctccagtct	9	10	8	14	2	3	1	1	0	2	1	6	3	5	3	3	2	1	1	3	2	2	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:63411068G>T	uc004dvo.2	-	2	2372	c.2099C>A	c.(2098-2100)CCT>CAT	p.P700H		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	700					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						CTTCTCCAGAGGACGGAAGTC	0.542													14	63					0.00244969	0.00254065	0.00245	1	0		T	63411068	T	T	63411068	3	4	37	1	0	0	0	0	1	0	0	0	5434	1000	35	5	1312	5	FAM123B	23	63411068	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	5790876	63411068	91859492	1023	33268											
KIF4A	24137	broad.mit.edu	37	chrX	69626771	69626771	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcgtgttaaagaaaagtTcctggagcaaagcatggaca	14	10	10	7	1	1	1	0	0	1	1	3	3	2	3	1	2	2	4	1	2	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:69626771T>C	uc004dyg.2	+	28	3228	c.3101T>C	c.(3100-3102)TTC>TCC	p.F1034S	KIF4A_uc010nkw.2_Missense_Mutation_p.F1034S	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	1034	Globular.|Interaction with PRC1.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						AAAGAAAAGTTCCTGGAGCAA	0.264													16	50					0	0	0.008871	0	0		C	69626771	C	C	69626771	3	2	37	1	0	0	0	0	1	0	0	0	8319	1783	62	3	3207	3	KIF4A	23	69626771	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	6215703	69626771	85643789	1024	33269											
DLG3	1741	broad.mit.edu	37	chrX	69669640	69669640	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcaggccctgtggtgcgaTtggtggtgcggaggcgacag	6	7	20	8	3	0	0	0	0	0	0	0	3	0	1	1	7	2	1	1	7	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:69669640T>A	uc004dyi.1	+	4	962	c.634T>A	c.(634-636)TTG>ATG	p.L212M	DLG3_uc004dyj.1_5'Flank	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	212	PDZ 1.				axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					TGTGGTGCGATTGGTGGTGCG	0.647													7	36					0	0	0.001984	0	0		A	69669640	A	A	69669640	3	1	37	1	0	0	0	0	1	0	0	0	4562	1490	52	5	648	5	DLG3	23	69669640	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	42869	69669640	85600920	1025	33270											
MED12	9968	broad.mit.edu	37	chrX	70349689	70349689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctatgccaagtacgtgctgcGcagcatctgccaacaggtca	10	8	10	13	2	2	0	1	0	1	0	2	0	2	0	2	1	7	4	2	1	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:70349689G>A	uc004dyy.2	+	27	4050	c.3851G>A	c.(3850-3852)CGC>CAC	p.R1284H	MED12_uc011mpq.1_Missense_Mutation_p.R1284H|MED12_uc004dyz.2_Missense_Mutation_p.R1284H|MED12_uc004dza.2_Missense_Mutation_p.R1131H|MED12_uc010nla.2_5'UTR	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1284					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					TACGTGCTGCGCAGCATCTGC	0.562											OREG0019857	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	31					0	0	0.008291	0	0		A	70349689	A	A	70349689	3	1	37	1	0	0	0	0	1	0	0	0	9446	1087	38	1	3957	1	MED12	23	70349689	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	680049	70349689	84920871	1026	33271											
OGT	8473	broad.mit.edu	37	chrX	70767837	70767837	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgtgttttcaatgcacaAggggaaatttggcttgcaat	10	13	12	6	0	1	0	1	0	0	0	1	1	1	1	0	4	2	5	0	4	4	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:70767837A>G	uc004eaa.1	+	5	829	c.612A>G	c.(610-612)CAA>CAG	p.Q204Q	BCYRN1_uc011mpt.1_Intron|OGT_uc004eab.1_Silent_p.Q194Q|OGT_uc004eac.2_Silent_p.Q65Q|OGT_uc004ead.2_5'UTR	NM_181672	NP_858058	O15294	OGT1_HUMAN	O-linked GlcNAc transferase isoform 1	204	TPR 5.				cellular response to retinoic acid|positive regulation of granulocyte differentiation|positive regulation of histone H3-K4 methylation|positive regulation of proteolysis|protein O-linked glycosylation|signal transduction	cytosol|MLL5-L complex	enzyme activator activity|protein binding|protein N-acetylglucosaminyltransferase activity			ovary(3)|kidney(1)|pancreas(1)	5	Renal(35;0.156)					TCAATGCACAAGGGGAAATTT	0.358													11	123					0	0	0.008291	0	0		G	70767837	G	G	70767837	2	3	37	1	0	0	0	0	0	0	0	1	10866	69	3	3		3	OGT	23	70767837	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	418148	70767837	84502723	1027	33272											
PCDH19	57526	broad.mit.edu	37	chrX	99663536	99663536	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacttgagattaatgagggcGgcagcctgcgtccacagtat	10	10	12	9	2	0	2	0	2	0	1	1	3	1	2	2	2	3	2	2	2	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:99663536G>A	uc010nmz.2	-	1	1736	c.60C>T	c.(58-60)GCC>GCT	p.A20A	PCDH19_uc004efw.3_Silent_p.A20A|PCDH19_uc004efx.3_Silent_p.A20A	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	20					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						TAATGAGGGCGGCAGCCTGCG	0.667													7	16					0	0	0.001984	0	0		A	99663536	A	A	99663536	2	1	37	1	0	0	0	0	0	0	0	1	11533	1103	39	1		1	PCDH19	23	99663536	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	28895699	99663536	55607024	1028	33273											
DRP2	1821	broad.mit.edu	37	chrX	100505521	100505521	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgggtgaagtggcagcCtttgggggcagcaatgtgga	8	8	18	7	0	0	1	0	1	0	0	0	2	0	2	1	5	3	4	1	5	2	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:100505521C>T	uc004egz.2	+	15	2019	c.1650C>T	c.(1648-1650)GCC>GCT	p.A550A	DRP2_uc011mrh.1_Silent_p.A472A	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	550					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						AAGTGGCAGCCTTTGGGGGCA	0.483													6	102					0	0	0.001168	0	0		T	100505521	T	T	100505521	2	4	37	1	0	0	0	0	0	0	0	1	4770	668	24	4		4	DRP2	23	100505521	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	841985	100505521	54765039	1029	33274											
BEX2	84707	broad.mit.edu	37	chrX	102564886	102564886	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgagattgtttaacgctcGttcctctttggactccatta	8	16	8	9	2	1	1	0	1	1	1	4	4	3	2	2	1	1	3	2	1	2	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:102564886G>A	uc004ekb.2	-	3	258	c.19C>T	c.(19-21)CGA>TGA	p.R7*	BEX2_uc004eka.2_Nonsense_Mutation_p.R36*	NM_032621	NP_116010	Q9BXY8	BEX2_HUMAN	brain expressed X-linked 2	7					apoptosis|cell cycle|regulation of apoptosis|regulation of cell cycle	cytoplasm|nucleus				ovary(1)	1						TTTAACGCTCGTTCCTCTTTG	0.468													18	72					0	0	0.007413	0	0		A	102564886	A	A	102564886	4	1	37	1	0	0	0	0	0	1	0	0	1412	1153	40	1	371	1	BEX2	23	102564886	Nonsense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2059365	102564886	52705674	1030	33275											
SERPINA7	6906	broad.mit.edu	37	chrX	105279315	105279315	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgaacagtggtggtcttGtctattaagaagctggaact	11	13	11	6	0	2	2	0	1	2	1	2	3	2	3	0	3	3	1	0	3	5	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:105279315G>A	uc004eme.1	-	2	700	c.684C>T	c.(682-684)GAC>GAT	p.D228D	SERPINA7_uc010npd.2_Silent_p.D228D|SERPINA7_uc010npe.1_Silent_p.D228D	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	228					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	TGGTGGTCTTGTCTATTAAGA	0.408													6	161					0	0	0.001168	0	0		A	105279315	A	A	105279315	2	1	37	1	0	0	0	0	0	0	0	1	14119	1368	48	4		4	SERPINA7	23	105279315	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2714429	105279315	49991245	1031	33276											
DOCK11	139818	broad.mit.edu	37	chrX	117788585	117788585	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaactgcctttcccgcagaAgtcaaagacttgaccaagag	13	7	9	12	1	1	4	1	1	0	3	2	4	2	4	3	0	2	2	3	0	4	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:117788585A>C	uc004eqp.2	+	43	4779	c.4716A>C	c.(4714-4716)GAA>GAC	p.E1572D	DOCK11_uc004eqq.2_Missense_Mutation_p.E1351D	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1572	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						TTCCCGCAGAAGTCAAAGACT	0.423													20	75					0	0	0.010504	0	0		C	117788585	C	C	117788585	3	2	37	1	0	0	0	0	1	0	0	0	4692	69	3	5	4886	5	DOCK11	23	117788585	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	12509270	117788585	37481975	1032	33277											
PGRMC1	10857	broad.mit.edu	37	chrX	118370568	118370568	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgccgagctgcggcgctTcgacggcgtccaggacccgc	4	4	14	19	8	0	0	0	0	0	0	2	3	1	1	5	3	2	2	5	3	0	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:118370568T>C	uc004erb.2	+	1	358	c.242T>C	c.(241-243)TTC>TCC	p.F81S	PGRMC1_uc011mts.1_Missense_Mutation_p.F81S	NM_006667	NP_006658	O00264	PGRC1_HUMAN	progesterone receptor membrane component 1	81	Cytochrome b5 heme-binding.|Cytoplasmic (Potential).					cell surface|endoplasmic reticulum membrane|integral to membrane|microsome|nucleolus	heme binding|protein binding|receptor activity|steroid binding				0						CTGCGGCGCTTCGACGGCGTC	0.716													7	28					0	0	0.001984	0	0		C	118370568	C	C	118370568	3	2	37	1	0	0	0	0	1	0	0	0	11825	1783	62	3	244	3	PGRMC1	23	118370568	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	581983	118370568	36899992	1033	33278											
ANKRD58	347454	broad.mit.edu	37	chrX	118893082	118893082	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccgatcaccggctactcggTtctgcactggctggccaagc	6	8	11	16	3	2	0	1	0	1	0	3	1	2	0	3	4	3	4	3	4	2	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:118893082T>A	uc010nql.2	+	1	507	c.452T>A	c.(451-453)GTT>GAT	p.V151D		NM_001105576	NP_001099046	A6NJG2	ANR58_HUMAN	ankyrin repeat domain 58	151	ANK 2.										0						GGCTACTCGGTTCTGCACTGG	0.692													5	19					0	0	0.000602	0	0		A	118893082	A	A	118893082	3	1	37	1	0	0	0	0	1	0	0	0	684	1725	60	5	454	5	ANKRD58	23	118893082	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	522514	118893082	36377478	1034	33279											
THOC2	57187	broad.mit.edu	37	chrX	122767892	122767892	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctattcctgccattttttgtAccacttctttcaatataagc	9	18	3	11	0	2	0	1	0	1	0	3	0	3	0	3	0	3	1	3	0	5	10			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:122767892A>G	uc004etu.2	-	20	2080	c.2048T>C	c.(2047-2049)GTA>GCA	p.V683A	THOC2_uc011muh.1_Missense_Mutation_p.V608A	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	683					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						CATTTTTTGTACCACTTCTTT	0.328													3	112					0	0	0.009096	0	0		G	122767892	G	G	122767892	3	3	37	1	0	0	0	0	1	0	0	0	15890	391	14	3	2809	3	THOC2	23	122767892	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3874810	122767892	32502668	1035	33280											
BCORL1	63035	broad.mit.edu	37	chrX	129189854	129189854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaactggttcctcttttccGatgtcttgaagaggctgaag	8	13	11	9	1	2	3	0	2	2	1	4	4	4	3	2	2	1	3	2	2	3	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:129189854G>A	uc004evb.1	+	13	4993	c.4879G>A	c.(4879-4881)GAT>AAT	p.D1627N	BCORL1_uc004evc.1_Missense_Mutation_p.D463N	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1627					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						CCTCTTTTCCGATGTCTTGAA	0.562													13	282					0	0	0.001855	0	0		A	129189854	A	A	129189854	3	1	37	1	0	0	0	0	1	0	0	0	1388	1058	37	1	5151	1	BCORL1	23	129189854	Missense_Mutation	SNP	G	TCGA-BR-6566-01A-11D-1800-08	6421962	129189854	26080706	1036	33281											
ENOX2	10495	broad.mit.edu	37	chrX	129801658	129801658	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcgctacgacggttgacCtctcctcgctctatccaggt	5	12	10	14	4	2	1	0	1	2	0	5	2	3	1	3	3	1	3	3	3	2	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:129801658C>A	uc004evw.2	-	9	1258	c.840G>T	c.(838-840)GAG>GAT	p.E280D	ENOX2_uc004evx.2_Missense_Mutation_p.E251D|ENOX2_uc004evy.2_Missense_Mutation_p.E251D|ENOX2_uc004evv.2_Missense_Mutation_p.E107D	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	280					cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						GACGGTTGACCTCTCCTCGCT	0.448													22	159					4.59853e-10	5.14717e-10	0.005443	1	0		A	129801658	A	A	129801658	3	1	37	1	0	0	0	0	1	0	0	0	5135	680	24	5	1024	5	ENOX2	23	129801658	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	611804	129801658	25468902	1037	33282											
USP26	83844	broad.mit.edu	37	chrX	132160701	132160701	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgtttgaggtgaacaataagGattctaggtagcctactgaa	13	11	11	6	1	1	3	0	3	1	0	1	4	1	4	1	3	3	2	1	3	7	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:132160701G>A	uc010nrm.1	-	6	2018	c.1548C>T	c.(1546-1548)ATC>ATT	p.I516I	USP26_uc011mvf.1_Silent_p.I516I	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	516					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					GAACAATAAGGATTCTAGGTA	0.378													69	217					0	0	0.01441	0	0		A	132160701	A	A	132160701	2	1	37	1	0	0	0	0	0	0	0	1	17083	1164	41	4		4	USP26	23	132160701	Silent	SNP	G	TCGA-BR-6566-01A-11D-1800-08	2359043	132160701	23109859	1038	33283											
ZNF449	203523	broad.mit.edu	37	chrX	134494827	134494827	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacgcatactgaagagagAccttttaaatgtaattattg	16	12	8	5	1	0	4	0	1	0	3	0	5	0	4	1	0	2	2	1	0	7	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:134494827A>G	uc004eys.2	+	5	1548	c.1383A>G	c.(1381-1383)AGA>AGG	p.R461R	ZNF449_uc004eyt.2_Silent_p.R341R|ZNF449_uc004eyu.2_Silent_p.R267R	NM_152695	NP_689908	Q6P9G9	ZN449_HUMAN	zinc finger protein 449	461					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CTGAAGAGAGACCTTTTAAAT	0.393													26	158					0	0	0.00632	0	0		G	134494827	G	G	134494827	2	3	37	1	0	0	0	0	0	0	0	1	17945	272	10	3		3	ZNF449	23	134494827	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	2334126	134494827	20775733	1039	33284											
MAP7D3	79649	broad.mit.edu	37	chrX	135310894	135310894	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctcggcattcataatacCtgcagtactcttattaccag	10	12	6	13	2	2	0	1	0	1	0	3	0	2	0	3	1	4	3	3	1	5	6			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:135310894C>A	uc004ezt.2	-	11	1865	c.1774G>T	c.(1774-1776)GGT>TGT	p.G592C	MAP7D3_uc004ezs.2_Missense_Mutation_p.G556C|MAP7D3_uc011mwc.1_Missense_Mutation_p.G574C|MAP7D3_uc010nsa.1_Missense_Mutation_p.G550C	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	592	Potential.					cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					TTCATAATACCTGCAGTACTC	0.403													15	64					1.3612e-06	1.48046e-06	0.003163	1	0		A	135310894	A	A	135310894	3	1	37	1	0	0	0	0	1	0	0	0	9287	681	24	5	888	5	MAP7D3	23	135310894	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	816067	135310894	19959666	1040	33285											
MAGEC1	9947	broad.mit.edu	37	chrX	140995299	140995299	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctcttgagggagaggaCtccctgtcttctctccattt	6	14	9	12	0	3	2	0	1	3	1	7	4	6	3	3	2	0	0	3	2	0	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:140995299C>A	uc004fbt.2	+	4	2395	c.2109C>A	c.(2107-2109)GAC>GAA	p.D703E	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	703							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AGGGAGAGGACTCCCTGTCTT	0.562										HNSCC(15;0.026)			40	110					3.78316e-11	4.26169e-11	0.00623	1	0		A	140995299	A	A	140995299	3	1	37	1	0	0	0	0	1	0	0	0	9198	564	20	5	2115	5	MAGEC1	23	140995299	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	5684405	140995299	14275261	1041	33286											
SPANXN2	494119	broad.mit.edu	37	chrX	142795423	142795423	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagtctaggccttcgtcCtcctcctcttggacgggatt	4	13	11	13	2	2	1	0	1	2	0	6	3	5	3	4	3	0	1	4	3	1	4			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:142795423C>A	uc004fbz.2	-	2	1009	c.255G>T	c.(253-255)GAG>GAT	p.E85D		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	85										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					GGCCTTCGTCCTCCTCCTCTT	0.478													143	413					2.05974e-71	2.39945e-71	0.01441	1	0		A	142795423	A	A	142795423	3	1	37	1	0	0	0	0	1	0	0	0	15016	680	24	5	291	5	SPANXN2	23	142795423	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	1800124	142795423	12475137	1042	33287											
SLITRK2	84631	broad.mit.edu	37	chrX	144904104	144904104	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacaaaggatttacaacagTtagcctgctccagccccccc	12	7	7	15	0	0	0	0	0	0	0	1	2	1	1	5	1	6	2	5	1	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:144904104T>G	uc004fcd.2	+	5	1151	c.161T>G	c.(160-162)GTT>GGT	p.V54G	SLITRK2_uc010nsp.2_Missense_Mutation_p.V54G|SLITRK2_uc010nso.2_Missense_Mutation_p.V54G|SLITRK2_uc011mwq.1_Missense_Mutation_p.V54G|SLITRK2_uc011mwr.1_Missense_Mutation_p.V54G|SLITRK2_uc011mws.1_Missense_Mutation_p.V54G|SLITRK2_uc004fcg.2_Missense_Mutation_p.V54G|SLITRK2_uc011mwt.1_Missense_Mutation_p.V54G	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	54	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					TTTACAACAGTTAGCCTGCTC	0.423													11	66					0	0	0.010729	0	0		G	144904104	G	G	144904104	3	3	37	1	0	0	0	0	1	0	0	0	14768	1725	60	5	163	5	SLITRK2	23	144904104	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	2108681	144904104	10366456	1043	33288											
AFF2	2334	broad.mit.edu	37	chrX	148038101	148038101	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcgtcagacagctgtcacAgctgtggagaaaccagcccc	12	5	11	13	1	2	2	2	0	0	2	2	3	2	2	3	1	5	2	3	1	2	0			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:148038101A>G	uc004fcp.2	+	11	3005	c.2526A>G	c.(2524-2526)ACA>ACG	p.T842T	AFF2_uc004fcq.2_Silent_p.T832T|AFF2_uc004fcr.2_Silent_p.T803T|AFF2_uc011mxb.1_Silent_p.T807T|AFF2_uc004fcs.2_Silent_p.T809T|AFF2_uc011mxc.1_Silent_p.T483T	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	842					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					CAGCTGTCACAGCTGTGGAGA	0.527													9	107					0	0	0.006214	0	0		G	148038101	G	G	148038101	2	3	37	1	0	0	0	0	0	0	0	1	357	175	7	3		3	AFF2	23	148038101	Silent	SNP	A	TCGA-BR-6566-01A-11D-1800-08	3133997	148038101	7232459	1044	33289											
MAGEA10	4109	broad.mit.edu	37	chrX	151303514	151303514	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtggccagtgggatccacTtcctttacatcaatgccaaa	11	10	9	11	0	1	0	1	0	0	0	3	2	3	1	4	2	2	0	4	2	3	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:151303514T>A	uc004ffk.2	-	5	987	c.579A>T	c.(577-579)GAA>GAT	p.E193D	MAGEA10_uc004ffl.2_Missense_Mutation_p.E193D	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	193	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					TGGGATCCACTTCCTTTACAT	0.498													26	94					0	0	0.00333	0	0		A	151303514	A	A	151303514	3	1	37	1	0	0	0	0	1	0	0	0	9182	1606	56	5	534	5	MAGEA10	23	151303514	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	3265413	151303514	3967046	1045	33290											
PNMA5	114824	broad.mit.edu	37	chrX	152159455	152159455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaagatctgctttagggCgtcaaggcactgctccacag	10	8	10	13	1	2	1	1	0	1	1	3	1	3	1	2	2	2	3	2	2	3	2			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:152159455C>T	uc010ntw.2	-	3	1027	c.688G>A	c.(688-690)GCC>ACC	p.A230T	PNMA5_uc004fha.3_Missense_Mutation_p.A230T|PNMA5_uc010ntx.2_Missense_Mutation_p.A230T|PNMA5_uc004fgy.3_Missense_Mutation_p.A230T	NM_001103151	NP_001096621	Q96PV4	PNMA5_HUMAN	paraneoplastic antigen like 5	230					apoptosis					ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TGCTTTAGGGCGTCAAGGCAC	0.522													16	130					0	0	0.003163	0	0		T	152159455	T	T	152159455	3	4	37	1	0	0	0	0	1	0	0	0	12175	768	27	1	662	1	PNMA5	23	152159455	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	855941	152159455	3111105	1046	33291											
HAUS7	55559	broad.mit.edu	37	chrX	152721108	152721108	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagctcgtcgtcgtagacTtggagaaaagccaagattag	12	8	11	10	3	0	3	0	0	0	3	3	4	0	3	2	1	2	2	2	1	5	3			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:152721108T>G	uc004fho.1	-	8	1410	c.852A>C	c.(850-852)CAA>CAC	p.Q284H	HAUS7_uc004fhl.2_RNA|HAUS7_uc004fhm.2_Splice_Site|HAUS7_uc004fhn.1_Missense_Mutation_p.Q284H|HAUS7_uc004fhp.1_Splice_Site	NM_017518	NP_059988	Q99871	HAUS7_HUMAN	HAUS augmin-like complex subunit 7	284					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleolus|plasma membrane|spindle	thioesterase binding				0						CGTCGTAGACTTGGAGAAAAG	0.627													29	93					0	0	0.010818	0	0		G	152721108	G	G	152721108	3	3	37	1	0	0	0	0	1	0	0	0	6987	1606	56	5	266	5	HAUS7	23	152721108	Missense_Mutation	SNP	T	TCGA-BR-6566-01A-11D-1800-08	561653	152721108	2549452	1047	33292											
SLC6A8	6535	broad.mit.edu	37	chrX	152958537	152958537	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcccctacgtggtcctggtCgtgctgctggtgcgtggagt	2	13	15	11	3	0	0	0	0	0	0	3	1	2	1	3	4	4	2	3	4	1	2	rs143750068	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:152958537C>T	uc004fib.3	+	5	1097	c.819C>T	c.(817-819)GTC>GTT	p.V273V	SLC6A8_uc004fic.3_Silent_p.V273V|SLC6A8_uc011myx.1_Silent_p.V158V|SLC6A8_uc010nuj.2_RNA	NM_005629	NP_005620	P48029	SC6A8_HUMAN	solute carrier family 6 member 8 isoform 1	273	Helical; (Potential).				creatine metabolic process|muscle contraction	integral to plasma membrane	creatine:sodium symporter activity|neurotransmitter:sodium symporter activity			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Creatine(DB00148)	TGGTCCTGGTCGTGCTGCTGG	0.622													11	48					0	0	0.008291	0	0		T	152958537	T	T	152958537	2	4	37	1	0	0	0	0	0	0	0	1	14715	871	31	1		1	SLC6A8	23	152958537	Silent	SNP	C	TCGA-BR-6566-01A-11D-1800-08	237429	152958537	2312023	1048	33293											
ABCD1	215	broad.mit.edu	37	chrX	152991361	152991361	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggcccacctctactccAacctgaccaagccactcctg	8	8	6	19	0	1	1	0	1	1	0	3	1	3	1	7	1	3	0	7	1	3	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:152991361A>G	uc004fif.2	+	1	1039	c.640A>G	c.(640-642)AAC>GAC	p.N214D	BCAP31_uc004fid.2_5'Flank|BCAP31_uc011myz.1_5'Flank|BCAP31_uc011mza.1_5'Flank|BCAP31_uc004fie.2_5'Flank	NM_000033	NP_000024	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member	214	ABC transmembrane type-1.		N -> D (in X-ALD).		fatty acid beta-oxidation using acyl-CoA oxidase|peroxisomal membrane transport|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|identical protein binding|peroxisomal fatty-acyl-CoA transporter activity				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCTCTACTCCAACCTGACCAA	0.672													19	84					0	0	0.010504	0	0		G	152991361	G	G	152991361	3	3	37	1	0	0	0	0	1	0	0	0	60	130	5	3	642	3	ABCD1	23	152991361	Missense_Mutation	SNP	A	TCGA-BR-6566-01A-11D-1800-08	32824	152991361	2279199	1049	33294											
PLXNA3	55558	broad.mit.edu	37	chrX	153696164	153696164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgcacatctcggcagagCgggcgctgaccctaccggcc	6	5	12	18	4	1	2	0	1	1	1	2	2	1	2	4	3	3	3	4	3	1	1			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:153696164C>T	uc004flm.2	+	21	3813	c.3640C>T	c.(3640-3642)CGG>TGG	p.R1214W		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1214	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTCGGCAGAGCGGGCGCTGAC	0.692													4	43					0	0	0.009096	0	0		T	153696164	T	T	153696164	3	4	37	1	0	0	0	0	1	0	0	0	12140	759	27	1	3718	1	PLXNA3	23	153696164	Missense_Mutation	SNP	C	TCGA-BR-6566-01A-11D-1800-08	704803	153696164	1574396	1050	33295											
PLOD1	5351	broad.mit.edu	37	chr1	12008083	12008083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagaccgagggattccgtCgcttcaagcgctcagctcag	9	7	13	12	4	3	1	3	0	0	1	5	4	4	2	2	2	2	3	2	2	1	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr1:12008083C>T	uc001atm.2	+	2	218	c.127C>T	c.(127-129)CGC>TGC	p.R43C	PLOD1_uc010obb.1_Missense_Mutation_p.R90C	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	43					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	GGGATTCCGTCGCTTCAAGCG	0.552													6	113					0	0	0.021553	0	0		T	12008083	T	T	12008083	3	4	38	1	0	0	0	0	1	0	0	0	12120	884	31	1	133	1	PLOD1	1	12008083	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08		12008083	237242538	1	33296											
EPB41	2035	broad.mit.edu	37	chr1	29391555	29391555	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcatcagtgagctgaaaaAgaacttcatggagtctgtac	14	9	10	8	0	3	3	2	2	1	1	3	4	3	4	0	1	4	3	0	1	4	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr1:29391555A>T	uc001brm.1	+	15	2076	c.2069A>T	c.(2068-2070)AAG>ATG	p.K690M	EPB41_uc001brg.1_Missense_Mutation_p.K467M|EPB41_uc001brh.1_Missense_Mutation_p.K448M|EPB41_uc001bri.1_Missense_Mutation_p.K601M|EPB41_uc001brj.1_Missense_Mutation_p.K427M|EPB41_uc001brk.2_Missense_Mutation_p.K676M|EPB41_uc001brl.1_Missense_Mutation_p.K657M|EPB41_uc009vtl.1_Missense_Mutation_p.K427M|EPB41_uc009vtm.1_Missense_Mutation_p.K269M	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1	690	Spectrin--actin-binding.				blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)		GAGCTGAAAAAGAACTTCATG	0.418													7	72					0	0	0.02938	0	0		T	29391555	T	T	29391555	3	4	38	1	0	0	0	0	1	0	0	0	5159	72	3	5	2127	5	EPB41	1	29391555	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08	17383472	29391555	219859066	2	33297											
POU3F1	5453	broad.mit.edu	37	chr1	38511541	38511541	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcctcgaagcggcagatgGtggtctgcgagaacacgtta	9	7	16	9	4	1	2	0	0	1	2	2	4	1	2	1	4	3	2	1	4	3	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr1:38511541G>T	uc001ccp.1	-	1	910	c.875C>A	c.(874-876)ACC>AAC	p.T292N		NM_002699	NP_002690	Q03052	PO3F1_HUMAN	POU domain, class 3, transcription factor 1	292	POU-specific.				positive regulation of transcription, DNA-dependent		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GCGGCAGATGGTGGTCTGCGA	0.627													10	98					0.000673444	0.000747179	0.069234	1	0		T	38511541	T	T	38511541	3	4	38	1	0	0	0	0	1	0	0	0	12293	1261	44	5	484	5	POU3F1	1	38511541	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	9119986	38511541	210739080	3	33298											
CHIA	27159	broad.mit.edu	37	chr1	111862929	111862929	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagctctggaggcagctcGggaggcagtggattctgtgc	7	8	17	9	1	2	0	0	0	2	0	3	3	2	3	0	5	4	5	0	5	0	1	rs35242709	byFrequency	TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr1:111862929G>T	uc001eas.2	+	12	1375	c.1272G>T	c.(1270-1272)TCG>TCT	p.S424S	CHIA_uc001ear.2_Silent_p.S316S|CHIA_uc001eaq.2_Silent_p.S316S|CHIA_uc009wgc.2_Silent_p.S316S|CHIA_uc001eat.2_Silent_p.S263S|CHIA_uc001eav.2_Silent_p.S263S|CHIA_uc001eau.2_Silent_p.S263S|CHIA_uc009wgd.2_Silent_p.S263S	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	424					apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		GAGGCAGCTCGGGAGGCAGTG	0.592													3	38					0.004672	0.00514597	0.115264	1	0		T	111862929	T	T	111862929	2	4	38	1	0	0	0	0	0	0	0	1	3345	1103	39	5		5	CHIA	1	111862929	Silent	SNP	G	TCGA-BR-6705-01A-12D-1882-08	73351388	111862929	137387692	4	33299											
CHD1L	9557	broad.mit.edu	37	chr1	146757013	146757013	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctctaggttctcatcccaGgccttgtggagggatctacc	6	12	10	13	0	3	0	1	0	3	0	6	2	5	2	4	4	1	1	4	4	2	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr1:146757013G>T	uc001epm.3	+	17	1930	c.1867G>T	c.(1867-1869)GGC>TGC	p.G623C	uc001epp.2_Intron|CHD1L_uc001epn.3_Missense_Mutation_p.G510C|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Missense_Mutation_p.G529C|CHD1L_uc010ozp.1_Missense_Mutation_p.G342C|CHD1L_uc001epo.3_Missense_Mutation_p.G419C|CHD1L_uc010ozq.1_Missense_Mutation_p.G196C|CHD1L_uc009wji.2_Missense_Mutation_p.G342C	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	623					chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)					TCTCATCCCAGGCCTTGTGGA	0.493													9	227					2.17888e-05	2.49015e-05	0.058154	1	0		T	146757013	T	T	146757013	3	4	38	1	0	0	0	0	1	0	0	0	3327	1000	35	5	1933	5	CHD1L	1	146757013	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	34894084	146757013	102493608	5	33300											
CD1D	912	broad.mit.edu	37	chr1	158151974	158151974	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccccactttgggtaaacTtggccattcaagtgctcaac	10	10	9	12	0	2	0	2	0	0	0	2	0	2	0	3	3	3	2	3	3	4	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr1:158151974T>G	uc001frr.2	+	4	980	c.481T>G	c.(481-483)TTG>GTG	p.L161V	CD1D_uc009wsr.1_Missense_Mutation_p.L161V|CD1D_uc009wss.2_Missense_Mutation_p.L161V|CD1D_uc009wst.1_Missense_Mutation_p.L57V	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	161	Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					TTGGGTAAACTTGGCCATTCA	0.493													53	256					0	0	0.139131	0	0		G	158151974	G	G	158151974	3	3	38	1	0	0	0	0	1	0	0	0	2980	1606	56	5	491	5	CD1D	1	158151974	Missense_Mutation	SNP	T	TCGA-BR-6705-01A-12D-1882-08	11394961	158151974	91098647	6	33301											
OR10R2	343406	broad.mit.edu	37	chr1	158449804	158449805	+	Missense_Mutation	DNP	CC	AA	AA																															ccttggtgaaattcagctggCcctctttgtagtttttcttt																										TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr1:158449804_158449805CC>AA	uc010pik.1	+	1	137_138	c.137_138CC>AA	c.(136-138)GCC>GAA	p.A46E	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	46	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					ATTCAGCTGGCCCTCTTTGTAG	0.436													12	155					0	0	0.115264	0	0		AA	158449805	AA	AA	158449804	3	1	38	1	0	0	0	0	1	0	0	0	10936	739	26	5	139	5	OR10R2	1	158449804	Missense_Mutation	DNP	CC	TCGA-BR-6705-01A-12D-1882-08	297830	158449804	90800817	7	33302											
SPTA1	6708	broad.mit.edu	37	chr1	158646087	158646087	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcacataactccttcaccTttgggatgaaaaagaaacct	15	10	6	10	0	1	2	1	1	0	1	2	3	2	3	3	1	3	1	3	1	5	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr1:158646087T>G	uc001fst.1	-	8	1157	c.958_splice	c.e8-1	p.V320_splice		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1						actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CTCCTTCACCTTTGGGATGAA	0.423													17	160					0	0	0.0333	0	0		G	158646087	G	G	158646087	5	3	38	1	0	0	0	0	0	0	1	0	15141	1623	56	5	6483	5	SPTA1	1	158646087	Splice_Site	SNP	T	TCGA-BR-6705-01A-12D-1882-08	196283	158646087	90604534	8	33303											
USH2A	7399	broad.mit.edu	37	chr1	215901420	215901420	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgttaaatgtaggatcgtcGggtctctcctggtagaccac	8	12	11	10	2	1	1	0	0	1	1	5	2	2	2	2	3	0	3	2	3	4	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr1:215901420G>A	uc001hku.1	-	61	12405	c.12018C>T	c.(12016-12018)CCC>CCT	p.P4006P		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4006	Fibronectin type-III 25.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TAGGATCGTCGGGTCTCTCCT	0.458										HNSCC(13;0.011)			24	145					0	0	0.108266	0	0		A	215901420	A	A	215901420	2	1	38	1	0	0	0	0	0	0	0	1	17062	1103	39	1		1	USH2A	1	215901420	Silent	SNP	G	TCGA-BR-6705-01A-12D-1882-08	57255333	215901420	33349201	9	33304											
FBXO28	23219	broad.mit.edu	37	chr1	224345314	224345314	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagctagaacgcaaactaCgagaagtaatggaaagtgct	17	6	11	7	2	0	3	0	0	0	3	0	5	0	4	0	1	5	4	0	1	7	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr1:224345314C>T	uc001hoh.2	+	5	1014	c.973C>T	c.(973-975)CGA>TGA	p.R325*	FBXO28_uc009xef.2_3'UTR|FBXO28_uc010pvc.1_Nonsense_Mutation_p.R120*	NM_015176	NP_055991	Q9NVF7	FBX28_HUMAN	F-box protein 28 isoform a	325										ovary(2)|kidney(2)|lung(1)	5	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.0363)		ACGCAAACTACGAGAAGTAAT	0.488													8	159					0	0	0.038147	0	0		T	224345314	T	T	224345314	4	4	38	1	0	0	0	0	0	1	0	0	5752	528	19	1	991	1	FBXO28	1	224345314	Nonsense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	8443894	224345314	24905307	10	33305											
OR2AK2	391191	broad.mit.edu	37	chr1	248129101	248129101	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttatgagcaagaagatctgCtgcctcatggttgcatgtgc	9	12	11	9	0	2	3	1	1	1	2	2	3	2	3	1	1	5	4	1	1	3	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr1:248129101C>A	uc010pzd.1	+	1	468	c.468C>A	c.(466-468)TGC>TGA	p.C156*	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			AGAAGATCTGCTGCCTCATGG	0.428													41	178					1.30998e-17	1.53167e-17	0.080422	1	0		A	248129101	A	A	248129101	4	1	38	1	0	0	0	0	0	1	0	0	11005	805	28	5	470	5	OR2AK2	1	248129101	Nonsense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	23783787	248129101	1121520	11	33306											
OR2M5	127059	broad.mit.edu	37	chr1	248308962	248308962	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttctcctactgtgggtcTcgggaaatagcccacttctt	6	14	8	13	1	3	0	0	0	3	0	6	1	4	1	3	2	2	0	3	2	3	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr1:248308962T>C	uc010pze.1	+	1	513	c.513T>C	c.(511-513)TCT>TCC	p.S171S		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	171	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			ACTGTGGGTCTCGGGAAATAG	0.438													17	339					0	0	0.146539	0	0		C	248308962	C	C	248308962	2	2	38	1	0	0	0	0	0	0	0	1	11032	1538	54	3		3	OR2M5	1	248308962	Silent	SNP	T	TCGA-BR-6705-01A-12D-1882-08	179861	248308962	941659	12	33307											
APOB	338	broad.mit.edu	37	chr2	21265256	21265256	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagttgatcctggtggcacTtcttgaatcagcagtcccag	8	11	11	11	0	2	2	1	2	1	0	4	2	4	2	2	2	1	4	2	2	1	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr2:21265256T>G	uc002red.2	-	3	342	c.214A>C	c.(214-216)AGT>CGT	p.S72R		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	72	Vitellogenin.|Heparin-binding.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CTGGTGGCACTTCTTGAATCA	0.572													19	134					0	0	0.062417	0	0		G	21265256	G	G	21265256	3	3	38	1	0	0	0	0	1	0	0	0	785	1609	56	5	13585	5	APOB	2	21265256	Missense_Mutation	SNP	T	TCGA-BR-6705-01A-12D-1882-08		21265256	221934117	13	33308											
PREPL	9581	broad.mit.edu	37	chr2	44566387	44566387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattcgcttctggataagtaCtggtgggtcccaagggctca	8	12	12	9	1	2	0	1	0	1	0	4	1	3	1	1	4	1	3	1	4	4	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr2:44566387C>T	uc002ruf.2	-	6	903	c.868G>A	c.(868-870)GTA>ATA	p.V290I	PREPL_uc002rug.2_Missense_Mutation_p.V290I|PREPL_uc002ruh.2_Missense_Mutation_p.V290I|PREPL_uc010fax.2_Missense_Mutation_p.V290I|PREPL_uc002rui.3_Missense_Mutation_p.V201I|PREPL_uc002ruj.1_Missense_Mutation_p.V201I|PREPL_uc002ruk.1_Missense_Mutation_p.V290I	NM_006036	NP_006027	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like isoform C	290					proteolysis	cytosol	serine-type endopeptidase activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TGGATAAGTACTGGTGGGTCC	0.388													5	47					0	0	0.014758	0	0		T	44566387	T	T	44566387	3	4	38	1	0	0	0	0	1	0	0	0	12497	565	20	4	1351	4	PREPL	2	44566387	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	23301131	44566387	198632986	14	33309											
TSPYL6	388951	broad.mit.edu	37	chr2	54482198	54482198	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaataatctgagcaatcCtgtcggactctggaaggctg	10	12	10	9	1	2	1	0	1	2	0	4	3	3	3	1	3	1	2	1	3	4	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr2:54482198C>G	uc002rxr.2	-	1	1212	c.1091G>C	c.(1090-1092)AGG>ACG	p.R364T	ACYP2_uc002rxq.3_Intron	NM_001003937	NP_001003937	Q8N831	TSYL6_HUMAN	TSPY-like 6	364					nucleosome assembly	nucleus					0						CTGAGCAATCCTGTCGGACTC	0.532													6	71					0	0	0.02938	0	0		G	54482198	G	G	54482198	3	3	38	1	0	0	0	0	1	0	0	0	16689	681	24	5	145	5	TSPYL6	2	54482198	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	9915811	54482198	188717175	15	33310											
RAB11FIP5	26056	broad.mit.edu	37	chr2	73316188	73316188	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagaagcctttggctttGcccatcttgcccaggctgcc	7	10	11	13	0	1	1	0	0	1	1	1	2	1	2	4	3	4	2	4	3	2	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr2:73316188G>C	uc002siu.3	-	2	928	c.687C>G	c.(685-687)GGC>GGG	p.G229G	RAB11FIP5_uc002sit.3_Silent_p.G151G	NM_015470	NP_056285	Q9BXF6	RFIP5_HUMAN	RAB11 family interacting protein 5 (class I)	229					protein transport	mitochondrial outer membrane|recycling endosome membrane	gamma-tubulin binding				0						CTTTGGCTTTGCCCATCTTGC	0.592													9	127					0	0	0.047766	0	0		C	73316188	C	C	73316188	2	2	38	1	0	0	0	0	0	0	0	1	12922	1306	46	5		5	RAB11FIP5	2	73316188	Silent	SNP	G	TCGA-BR-6705-01A-12D-1882-08	18833990	73316188	169883185	16	33311											
LRP1B	53353	broad.mit.edu	37	chr2	141250225	141250225	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgctaattttccttatCtcatgatgatcagcaagaat	12	15	6	8	0	3	3	3	2	1	1	5	3	4	3	1	0	2	2	1	0	4	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr2:141250225C>A	uc002tvj.1	-	57	10044	c.9072G>T	c.(9070-9072)GAG>GAT	p.E3024D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3024	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTTTCCTTATCTCATGATGAT	0.348										TSP Lung(27;0.18)			4	136					0.000602214	0.000673063	0.014758	1	0		A	141250225	A	A	141250225	3	1	38	1	0	0	0	0	1	0	0	0	8973	912	32	5	4867	5	LRP1B	2	141250225	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	67934037	141250225	101949148	17	33312											
GPD2	2820	broad.mit.edu	37	chr2	157407168	157407168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgccacgggacctttcaCggactctgtgcgcaaaatgg	10	8	11	12	3	2	0	1	0	1	0	2	2	2	2	2	3	2	1	2	3	3	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr2:157407168C>T	uc002tzf.3	+	8	1241	c.881C>T	c.(880-882)ACG>ATG	p.T294M	GPD2_uc010zch.1_Missense_Mutation_p.T67M|GPD2_uc002tzd.3_Missense_Mutation_p.T294M|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	294					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						GGACCTTTCACGGACTCTGTG	0.463													11	74					0	0	0.09319	0	0		T	157407168	T	T	157407168	3	4	38	1	0	0	0	0	1	0	0	0	6621	536	19	1	907	1	GPD2	2	157407168	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	16156943	157407168	85792205	18	33313											
TTN	7273	broad.mit.edu	37	chr2	179610671	179610671	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccattaaactgcttaaagTcactttgcttttctttgcta	9	19	4	9	0	2	0	1	0	1	0	3	0	3	0	1	0	4	3	1	0	5	8			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr2:179610671T>C	uc002unb.2	-	46	16680	c.16456A>G	c.(16456-16458)ACT>GCT	p.T5486A	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGCTTAAAGTCACTTTGCTT	0.423													8	90					0	0	0.038147	0	0		C	179610671	C	C	179610671	3	2	38	1	0	0	0	0	1	0	0	0	16761	1667	58	3	93841	3	TTN	2	179610671	Missense_Mutation	SNP	T	TCGA-BR-6705-01A-12D-1882-08	22203503	179610671	63588702	19	33314											
ERBB4	2066	broad.mit.edu	37	chr2	213403244	213403244	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagacccaaagtcctgtcGccggcttcattttttggaag	8	11	9	13	2	1	1	1	0	0	1	3	2	2	2	4	2	0	1	4	2	2	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr2:213403244G>T	uc002veg.1	-	1	109	c.11C>A	c.(10-12)GCG>GAG	p.A4E	ERBB4_uc002veh.1_Missense_Mutation_p.A4E|ERBB4_uc010zji.1_Missense_Mutation_p.A4E|ERBB4_uc010zjj.1_Missense_Mutation_p.A4E|ERBB4_uc010fut.1_Missense_Mutation_p.A4E	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	4					cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		AAGTCCTGTCGCCGGCTTCAT	0.582										TSP Lung(8;0.080)			9	115					0.000442599	0.000502053	0.058154	1	0		T	213403244	T	T	213403244	3	4	38	1	0	0	0	0	1	0	0	0	5217	1087	38	5	4027	5	ERBB4	2	213403244	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	33792573	213403244	29796129	20	33315											
IL17RE	132014	broad.mit.edu	37	chr3	9952952	9952952	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctcagttctcttttggaaAcagcagccatgttgaatgcc	9	14	8	10	0	2	1	1	1	2	0	4	2	2	2	2	1	4	3	2	1	2	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr3:9952952A>G	uc003btu.2	+	12	1157	c.1040A>G	c.(1039-1041)AAC>AGC	p.N347S	CIDEC_uc003bto.2_Intron|IL17RE_uc011atn.1_RNA|IL17RE_uc003btw.2_Missense_Mutation_p.N347S|IL17RE_uc003btx.2_Missense_Mutation_p.N231S|IL17RE_uc010hcq.2_Missense_Mutation_p.N347S|IL17RE_uc003bty.2_RNA	NM_153483	NP_705616	Q8NFR9	I17RE_HUMAN	interleukin 17 receptor E isoform 1	347	Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane	receptor activity			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(96;5.34e-64)		TCTTTTGGAAACAGCAGCCAT	0.493													10	186					0	0	0.069234	0	0		G	9952952	G	G	9952952	3	3	38	1	0	0	0	0	1	0	0	0	7659	43	2	3	1082	3	IL17RE	3	9952952	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08		9952952	188069478	21	33316											
RFTN1	23180	broad.mit.edu	37	chr3	16419336	16419336	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctccctctccggagggtgAgctgggctgcttggcgaggg	4	9	17	11	2	2	1	0	1	2	0	4	3	2	2	2	5	2	3	2	5	0	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr3:16419336A>G	uc003cay.2	-	5	997	c.715T>C	c.(715-717)TCA>CCA	p.S239P	RFTN1_uc010hes.2_Missense_Mutation_p.S203P	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	239						plasma membrane				ovary(3)|central_nervous_system(1)	4						CCGGAGGGTGAGCTGGGCTGC	0.642													7	45					0	0	0.02938	0	0		G	16419336	G	G	16419336	3	3	38	1	0	0	0	0	1	0	0	0	13283	304	11	3	1045	3	RFTN1	3	16419336	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08	6466384	16419336	181603094	22	33317											
SCN5A	6331	broad.mit.edu	37	chr3	38591857	38591857	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccggagaaggggggaagtcGgcgagatcttcactgtggct	8	8	17	8	3	2	2	1	0	1	2	4	5	3	3	1	6	0	1	1	6	2	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr3:38591857G>A	uc003cio.2	-	28	6200	c.6006C>T	c.(6004-6006)GCC>GCT	p.A2002A	SCN5A_uc003cin.2_Silent_p.A2001A|SCN5A_uc003cil.3_Silent_p.A2002A|SCN5A_uc010hhi.2_Silent_p.A1984A|SCN5A_uc010hhk.2_Silent_p.A1969A|SCN5A_uc011ayr.1_Silent_p.A1948A	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	2002					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	GGGGGAAGTCGGCGAGATCTT	0.592													8	124					0	0	0.058154	0	0		A	38591857	A	A	38591857	2	1	38	1	0	0	0	0	0	0	0	1	13947	1103	39	1		1	SCN5A	3	38591857	Silent	SNP	G	TCGA-BR-6705-01A-12D-1882-08	22172521	38591857	159430573	23	33318											
LRIG1	26018	broad.mit.edu	37	chr3	66430710	66430710	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttttggtgccaacagcaGtggcaccctctgtttcccgg	5	12	11	13	1	1	0	0	0	1	0	2	0	2	0	3	3	3	4	3	3	1	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr3:66430710G>C	uc003dmx.2	-	19	3273	c.3259C>G	c.(3259-3261)CTG>GTG	p.L1087V	SLC25A26_uc011bft.1_RNA|LRIG1_uc011bfu.1_Missense_Mutation_p.L707V|LRIG1_uc003dmw.2_Missense_Mutation_p.L753V|LRIG1_uc010hnz.2_Missense_Mutation_p.L803V|LRIG1_uc010hoa.2_Missense_Mutation_p.L1064V	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	1087	Cytoplasmic (Potential).					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		GCCAACAGCAGTGGCACCCTC	0.547													8	75					0	0	0.038147	0	0		C	66430710	C	C	66430710	3	2	38	1	0	0	0	0	1	0	0	0	8962	1020	36	5	26	5	LRIG1	3	66430710	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	27838853	66430710	131591720	24	33319											
TMPRSS7	344805	broad.mit.edu	37	chr3	111799889	111799889	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttacacaagggtgtcaaaCtttgttccctggattcataa	11	14	8	8	0	2	0	2	0	0	0	3	1	3	1	1	2	2	2	1	2	4	6			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr3:111799889C>T	uc010hqb.2	+	16	2282	c.2112C>T	c.(2110-2112)AAC>AAT	p.N704N	TMPRSS7_uc011bhr.1_Silent_p.N559N	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	830	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						GGGTGTCAAACTTTGTTCCCT	0.353													6	85					0	0	0.038147	0	0		T	111799889	T	T	111799889	2	4	38	1	0	0	0	0	0	0	0	1	16277	564	20	4		4	TMPRSS7	3	111799889	Silent	SNP	C	TCGA-BR-6705-01A-12D-1882-08	45369179	111799889	86222541	25	33320											
GOLGB1	2804	broad.mit.edu	37	chr3	121448138	121448138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaagttaatttggccttcGcatgaagttttagtttttta	11	18	8	4	1	0	2	0	1	0	1	1	2	0	2	1	1	0	4	1	1	6	8			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr3:121448138G>A	uc003eei.3	-	4	425	c.299C>T	c.(298-300)GCG>GTG	p.A100V	GOLGB1_uc010hrc.2_Missense_Mutation_p.A100V|GOLGB1_uc003eej.3_Missense_Mutation_p.A61V|GOLGB1_uc011bjm.1_Missense_Mutation_p.A61V|GOLGB1_uc010hrd.1_Missense_Mutation_p.A100V	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	100	Potential.|Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TTTGGCCTTCGCATGAAGTTT	0.363													4	75					0	0	0.009096	0	0		A	121448138	A	A	121448138	3	1	38	1	0	0	0	0	1	0	0	0	6580	1087	38	1	9556	1	GOLGB1	3	121448138	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	9648249	121448138	76574292	26	33321											
EPHB1	2047	broad.mit.edu	37	chr3	134920329	134920329	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attacagcaaaatgacgggcAgttcaccgtgatccagcttg	12	9	10	10	2	1	2	1	2	0	0	2	2	2	2	2	1	3	4	2	1	3	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr3:134920329A>T	uc003eqt.2	+	12	2364	c.2144A>T	c.(2143-2145)CAG>CTG	p.Q715L	EPHB1_uc003equ.2_Missense_Mutation_p.Q276L	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	715	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						AATGACGGGCAGTTCACCGTG	0.527													13	214					0	0	0.146539	0	0		T	134920329	T	T	134920329	3	4	38	1	0	0	0	0	1	0	0	0	5182	188	7	5	2190	5	EPHB1	3	134920329	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08	13472191	134920329	63102101	27	33322											
PLSCR5	389158	broad.mit.edu	37	chr3	146311762	146311762	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctcaagggcctgttcactGtaatgacctctcgacctgag	9	11	9	12	1	3	2	2	2	2	0	5	3	3	2	3	1	0	2	3	1	2	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr3:146311762G>C	uc003ewb.2	-	4	1402	c.398C>G	c.(397-399)ACA>AGA	p.T133R	PLSCR5_uc010hvb.2_Missense_Mutation_p.T121R|PLSCR5_uc010hvc.2_Missense_Mutation_p.T133R	NM_001085420	NP_001078889	A0PG75	PLS5_HUMAN	phospholipid scramblase family, member 5	133											0						CCTGTTCACTGTAATGACCTC	0.463													6	97					0	0	0.02938	0	0		C	146311762	C	C	146311762	3	2	38	1	0	0	0	0	1	0	0	0	12132	1377	48	5	433	5	PLSCR5	3	146311762	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	11391433	146311762	51710668	28	33323											
NMD3	51068	broad.mit.edu	37	chr3	160945104	160945104	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaacttcttgctttgtgcttGaaaaaaatcaaagcccctct	12	13	6	10	0	3	1	1	1	2	0	3	2	3	1	2	0	4	2	2	0	5	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr3:160945104G>C	uc003feb.1	+	4	368	c.249G>C	c.(247-249)TTG>TTC	p.L83F	NMD3_uc003fec.2_Missense_Mutation_p.L83F|NMD3_uc003fed.1_Missense_Mutation_p.L83F	NM_015938	NP_057022	Q96D46	NMD3_HUMAN	NMD3 homolog	83					protein transport	cytoplasm|nucleolus|nucleoplasm				ovary(1)	1			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			CTTTGTGCTTGAAAAAAATCA	0.343													8	62					0	0	0.047766	0	0		C	160945104	C	C	160945104	3	2	38	1	0	0	0	0	1	0	0	0	10507	1281	45	5	259	5	NMD3	3	160945104	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	14633342	160945104	37077326	29	33324											
WDR49	151790	broad.mit.edu	37	chr3	167254760	167254760	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggatgaaaaattgattgaAgttttggggtcgaaacacag	14	11	12	4	1	0	3	0	3	0	0	1	5	0	4	0	3	1	1	0	3	4	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr3:167254760A>G	uc003fev.1	-	7	1102	c.796T>C	c.(796-798)TTC>CTC	p.F266L	WDR49_uc003feu.1_Missense_Mutation_p.F91L|WDR49_uc011bpd.1_Missense_Mutation_p.F330L|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	266										large_intestine(1)|ovary(1)|skin(1)	3						AATTGATTGAAGTTTTGGGGT	0.393													10	57					0	0	0.080935	0	0		G	167254760	G	G	167254760	3	3	38	1	0	0	0	0	1	0	0	0	17328	72	3	3	1333	3	WDR49	3	167254760	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08	6309656	167254760	30767670	30	33325											
LPP	4026	broad.mit.edu	37	chr3	188327328	188327328	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acctccttcaacacggggagGcatggattatgcctacattc	10	10	9	12	1	1	0	1	0	0	0	3	2	2	2	3	4	3	1	3	4	3	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr3:188327328G>C	uc003frs.1	+	6	1055	c.809G>C	c.(808-810)GGC>GCC	p.G270A	LPP_uc011bsg.1_Intron|LPP_uc011bsi.1_Missense_Mutation_p.G270A|LPP_uc003frt.2_Missense_Mutation_p.G270A|LPP_uc011bsj.1_Missense_Mutation_p.G107A	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	270	Pro-rich.				cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		ACACGGGGAGGCATGGATTAT	0.557			T	HMGA2|MLL|C12orf9	lipoma|leukemia								6	88					0	0	0.021553	0	0		C	188327328	C	C	188327328	3	2	38	1	0	0	0	0	1	0	0	0	8941	1203	42	5	823	5	LPP	3	188327328	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	21072568	188327328	9695102	31	33326											
ATP13A5	344905	broad.mit.edu	37	chr3	193007764	193007764	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggagaaacaggaattcaaaAatattgaaagcagtaaaggg	21	6	11	3	0	1	2	1	1	0	1	1	4	1	3	0	3	2	2	0	3	8	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr3:193007764A>T	uc011bsq.1	-	26	2933	c.2933T>A	c.(2932-2934)TTT>TAT	p.F978Y		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	978	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		GGAATTCAAAAATATTGAAAG	0.433													6	43					0	0	0.02938	0	0		T	193007764	T	T	193007764	3	4	38	1	0	0	0	0	1	0	0	0	1128	14	1	5	741	5	ATP13A5	3	193007764	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08	4680436	193007764	5014666	32	33327											
ZNF518B	85460	broad.mit.edu	37	chr4	10445492	10445492	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttaaaggctgtaagtctgAgtccgcctgtctcacagggc	8	11	11	11	1	3	1	1	1	3	0	5	1	4	1	2	2	0	2	2	2	3	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr4:10445492A>C	uc003gmn.2	-	3	2948	c.2461T>G	c.(2461-2463)TCA>GCA	p.S821A		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	821					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						TGTAAGTCTGAGTCCGCCTGT	0.468													7	109					0	0	0.038147	0	0		C	10445492	C	C	10445492	3	2	38	1	0	0	0	0	1	0	0	0	17988	304	11	5	767	5	ZNF518B	4	10445492	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08		10445492	180708784	33	33328											
CWH43	80157	broad.mit.edu	37	chr4	49005981	49005981	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgtcccaggaggtgtctaCgctagagaaagatcagatgt	11	11	12	7	1	2	3	1	0	1	3	3	5	3	4	1	2	1	1	1	2	3	3	rs151323921		TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr4:49005981C>T	uc003gyv.2	+	7	1214	c.1032C>T	c.(1030-1032)TAC>TAT	p.Y344Y	CWH43_uc011bzl.1_Silent_p.Y317Y	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	344					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						GAGGTGTCTACGCTAGAGAAA	0.393													5	30					0	0	0.014758	0	0		T	49005981	T	T	49005981	2	4	38	1	0	0	0	0	0	0	0	1	4076	547	19	1		1	CWH43	4	49005981	Silent	SNP	C	TCGA-BR-6705-01A-12D-1882-08	38560489	49005981	142148295	34	33329											
LPHN3	23284	broad.mit.edu	37	chr4	62903555	62903555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttctcgaactcctggacGctactccacaggctcacagg	8	9	10	14	2	2	0	1	0	1	0	5	2	4	1	2	4	2	3	2	4	2	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr4:62903555G>A	uc010ihh.2	+	21	3667	c.3494G>A	c.(3493-3495)CGC>CAC	p.R1165H	LPHN3_uc003hcq.3_Missense_Mutation_p.R1165H|LPHN3_uc003hct.2_Missense_Mutation_p.R549H	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	1143	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						ACTCCTGGACGCTACTCCACA	0.413													7	68					0	0	0.02938	0	0		A	62903555	A	A	62903555	3	1	38	1	0	0	0	0	1	0	0	0	8935	1087	38	1	3576	1	LPHN3	4	62903555	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	13897574	62903555	128250721	35	33330											
CXCL9	4283	broad.mit.edu	37	chr4	76924788	76924788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacgagaacgttgagattttCgaactttcagaactttcttt	11	15	8	7	3	2	3	1	1	1	3	3	7	2	3	0	0	3	1	0	0	3	6	rs139830877		TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr4:76924788C>T	uc003hjh.1	-	4	380	c.341G>A	c.(340-342)CGA>CAA	p.R114Q		NM_002416	NP_002407	Q07325	CXCL9_HUMAN	small inducible cytokine B9 precursor	114					cell-cell signaling|cellular defense response|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|inflammatory response	extracellular space	chemokine activity			ovary(1)	1			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TTGAGATTTTCGAACTTTCAG	0.338													5	99					0	0	0.038147	0	0		T	76924788	T	T	76924788	3	4	38	1	0	0	0	0	1	0	0	0	4092	884	31	1	40	1	CXCL9	4	76924788	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	14021233	76924788	114229488	36	33331											
FRG1	2483	broad.mit.edu	37	chr4	190876245	190876245	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtataaattcagatggacTtgttgttgggcgttcagatg	9	15	13	4	1	2	2	2	0	0	2	2	3	2	3	0	3	0	4	0	3	3	7			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr4:190876245T>C	uc003izs.2	+	5	562	c.371T>C	c.(370-372)CTT>CCT	p.L124P		NM_004477	NP_004468	Q14331	FRG1_HUMAN	FSHD region gene 1	124					rRNA processing	Cajal body|catalytic step 2 spliceosome|nuclear speck|nucleolus					0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;1.73e-30)|Epithelial(3;5.85e-30)|OV - Ovarian serous cystadenocarcinoma(60;5.56e-15)|BRCA - Breast invasive adenocarcinoma(30;9.14e-06)|Lung(3;3.54e-05)|STAD - Stomach adenocarcinoma(60;8.83e-05)|LUSC - Lung squamous cell carcinoma(40;0.000198)|GBM - Glioblastoma multiforme(59;0.00892)|READ - Rectum adenocarcinoma(43;0.161)		TCAGATGGACTTGTTGTTGGG	0.348													3	117					0	0	0.014758	0	0		C	190876245	C	C	190876245	3	2	38	1	0	0	0	0	1	0	0	0	6060	1609	56	3	389	3	FRG1	4	190876245	Missense_Mutation	SNP	T	TCGA-BR-6705-01A-12D-1882-08	113951457	190876245	278031	37	33332											
IRX1	79192	broad.mit.edu	37	chr5	3599410	3599410	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcccacacggcgccggcTtattacccctacggccagtt	7	7	10	17	4	0	0	0	0	0	0	0	0	0	0	5	3	3	3	5	3	3	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr5:3599410T>C	uc003jde.2	+	2	400	c.348T>C	c.(346-348)GCT>GCC	p.A116A		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	116						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CGGCGCCGGCTTATTACCCCT	0.652													4	60					0	0	0.009096	0	0		C	3599410	C	C	3599410	2	2	38	1	0	0	0	0	0	0	0	1	7859	1596	56	3		3	IRX1	5	3599410	Silent	SNP	T	TCGA-BR-6705-01A-12D-1882-08		3599410	177315850	38	33333											
FBXL7	23194	broad.mit.edu	37	chr5	15928114	15928114	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcctcgtcctccatcacCggggagacggtggccatggt	6	8	12	15	3	1	1	1	0	0	1	5	2	4	1	6	5	0	0	6	5	0	0			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr5:15928114C>T	uc003jfn.1	+	3	724	c.243C>T	c.(241-243)ACC>ACT	p.T81T		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	81					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						CCTCCATCACCGGGGAGACGG	0.657													4	43					0	0	0.009096	0	0		T	15928114	T	T	15928114	2	4	38	1	0	0	0	0	0	0	0	1	5738	639	23	1		1	FBXL7	5	15928114	Silent	SNP	C	TCGA-BR-6705-01A-12D-1882-08	12328704	15928114	164987146	39	33334											
SLC45A2	51151	broad.mit.edu	37	chr5	33951726	33951726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaacctcgactcctctttcGtagatgagaaactctgtgga	10	11	8	12	2	2	2	0	1	2	2	5	5	3	3	3	1	2	1	3	1	3	2	rs148156477		TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr5:33951726G>A	uc003jid.2	-	5	1181	c.1089C>T	c.(1087-1089)TAC>TAT	p.Y363Y	SLC45A2_uc003jie.2_Silent_p.Y363Y|SLC45A2_uc003jif.3_3'UTR|SLC45A2_uc011coe.1_3'UTR	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	363	Extracellular (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						CTCCTCTTTCGTAGATGAGAA	0.453													11	142					0	0	0.105934	0	0		A	33951726	A	A	33951726	2	1	38	1	0	0	0	0	0	0	0	1	14666	1140	40	1		1	SLC45A2	5	33951726	Silent	SNP	G	TCGA-BR-6705-01A-12D-1882-08	18023612	33951726	146963534	40	33335											
C5orf33	133686	broad.mit.edu	37	chr5	36226645	36226645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctctcctctttactagaCgaacctcaattccctcattc	9	15	2	15	1	4	1	2	0	2	1	8	2	6	1	3	0	2	0	3	0	4	6			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr5:36226645C>T	uc003jkf.3	-	3	410	c.410G>A	c.(409-411)CGT>CAT	p.R137H	C5orf33_uc010iux.2_5'Flank|C5orf33_uc003jkg.3_5'UTR|C5orf33_uc011cov.1_5'UTR	NM_001085411	NP_001078880	Q4G0N4	NAKD1_HUMAN	hypothetical protein LOC133686 isoform 1	137							NAD+ kinase activity				0	all_lung(31;5.63e-05)		Epithelial(62;0.0254)|all cancers(62;0.0805)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTTTACTAGACGAACCTCAAT	0.378													5	84					0	0	0.021553	0	0		T	36226645	T	T	36226645	3	4	38	1	0	0	0	0	1	0	0	0	2295	536	19	1	958	1	C5orf33	5	36226645	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	2274919	36226645	144688615	41	33336											
ELOVL7	79993	broad.mit.edu	37	chr5	60050537	60050537	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacggtaccaaaaatggaGaaagagcagcagaaacatga	20	3	11	7	1	0	4	0	1	0	3	0	5	0	4	1	2	5	4	1	2	5	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr5:60050537G>T	uc003jsi.3	-	9	960	c.760C>A	c.(760-762)CTC>ATC	p.L254I	ELOVL7_uc011cqo.1_Missense_Mutation_p.L167I|ELOVL7_uc010iwk.2_Missense_Mutation_p.L254I|ELOVL7_uc003jsj.3_Missense_Mutation_p.L241I	NM_024930	NP_079206	A1L3X0	ELOV7_HUMAN	elongation of very long chain fatty acids-like	254	Helical; (Potential).				fatty acid elongation, polyunsaturated fatty acid|fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding				0		Lung NSC(810;2.56e-06)|Prostate(74;0.0115)|Breast(144;0.0244)|Ovarian(174;0.0481)				CAAAAATGGAGAAAGAGCAGC	0.398													4	42					0.00909568	0.00980527	0.009096	1	0		T	60050537	T	T	60050537	3	4	38	1	0	0	0	0	1	0	0	0	5087	942	33	5	89	5	ELOVL7	5	60050537	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	23823892	60050537	120864723	42	33337											
MAST4	375449	broad.mit.edu	37	chr5	66459277	66459277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcactccccgcccaccatcGtcagacacatcgtgaggccc	8	6	8	19	3	1	2	1	1	0	1	4	2	2	2	5	1	1	1	5	1	0	0			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr5:66459277G>A	uc003jut.1	+	28	3771	c.3703G>A	c.(3703-3705)GTC>ATC	p.V1235I	MAST4_uc003juw.2_Missense_Mutation_p.V1163I|MAST4_uc003jux.2_5'Flank	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1427						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		GCCCACCATCGTCAGACACAT	0.637													5	33					0	0	0.021553	0	0		A	66459277	A	A	66459277	3	1	38	1	0	0	0	0	1	0	0	0	9345	1145	40	1	4514	1	MAST4	5	66459277	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	6408740	66459277	114455983	43	33338											
CMYA5	202333	broad.mit.edu	37	chr5	79034738	79034738	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccttcccggaggaagaaTttgcatctggtgcaactcat	9	12	10	10	1	2	1	1	0	1	1	4	3	4	3	2	3	3	2	2	3	3	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr5:79034738T>A	uc003kgc.2	+	2	10222	c.10150T>A	c.(10150-10152)TTT>ATT	p.F3384I		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3384						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GGAGGAAGAATTTGCATCTGG	0.488													11	76					0	0	0.069234	0	0		A	79034738	A	A	79034738	3	1	38	1	0	0	0	0	1	0	0	0	3593	1493	52	5	10156	5	CMYA5	5	79034738	Missense_Mutation	SNP	T	TCGA-BR-6705-01A-12D-1882-08	12575461	79034738	101880522	44	33339											
CEP120	153241	broad.mit.edu	37	chr5	122724246	122724246	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctgtcctgaagctacttctGaagcattggatgtagtcact	9	14	9	9	0	3	2	1	2	2	0	4	3	4	3	1	1	3	3	1	1	4	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr5:122724246G>C	uc003ktk.2	-	10	1392	c.1310C>G	c.(1309-1311)TCA>TGA	p.S437*	CEP120_uc011cwq.1_Nonsense_Mutation_p.S246*|CEP120_uc010jcz.1_Nonsense_Mutation_p.S411*	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	437						centrosome				ovary(1)	1						AGCTACTTCTGAAGCATTGGA	0.388													3	140					0	0	0.009096	0	0		C	122724246	C	C	122724246	4	2	38	1	0	0	0	0	0	1	0	0	3249	1294	45	5	1698	5	CEP120	5	122724246	Nonsense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	43689508	122724246	58191014	45	33340											
SLC36A2	153201	broad.mit.edu	37	chr5	150723122	150723122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggatgtgcatacagtggcagGcaatgaagcccatcaccagc	12	6	12	11	0	1	1	1	1	0	0	1	2	1	2	2	3	4	3	2	3	3	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr5:150723122G>A	uc003lty.2	-	3	423	c.293C>T	c.(292-294)GCC>GTC	p.A98V	GM2A_uc011dcs.1_Intron|SLC36A2_uc003ltz.2_RNA|SLC36A2_uc003lua.2_5'UTR|SLC36A2_uc010jhv.2_Missense_Mutation_p.A98V|SLC36A2_uc011dct.1_Missense_Mutation_p.A98V	NM_181776	NP_861441	Q495M3	S36A2_HUMAN	solute carrier family 36, member 2	98	Helical; (Potential).				cellular nitrogen compound metabolic process	cytoplasm|integral to membrane|plasma membrane	glycine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACAGTGGCAGGCAATGAAGCC	0.527													4	113					0	0	0.014758	0	0		A	150723122	A	A	150723122	3	1	38	1	0	0	0	0	1	0	0	0	14619	1203	42	2	1190	2	SLC36A2	5	150723122	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	27998876	150723122	30192138	46	33341											
CYFIP2	26999	broad.mit.edu	37	chr5	156810315	156810315	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgaaacgtctggaagccaAgtatgccccgctccacctgg	10	7	11	13	2	1	1	0	1	1	0	2	3	2	2	5	2	3	2	5	2	4	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr5:156810315A>C	uc003lwq.2	+	30	3293	c.3155A>C	c.(3154-3156)AAG>ACG	p.K1052T	CYFIP2_uc011ddn.1_Missense_Mutation_p.K1026T|CYFIP2_uc011ddo.1_Missense_Mutation_p.K856T|CYFIP2_uc003lwr.2_Missense_Mutation_p.K1052T|CYFIP2_uc003lws.2_Missense_Mutation_p.K1052T|CYFIP2_uc003lwt.2_Missense_Mutation_p.K955T|CYFIP2_uc011ddp.1_Missense_Mutation_p.K786T|CYFIP2_uc003lwv.2_Missense_Mutation_p.K7T	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	1077					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTGGAAGCCAAGTATGCCCCG	0.522													3	54					0	0	0.014758	0	0		C	156810315	C	C	156810315	3	2	38	1	0	0	0	0	1	0	0	0	4141	72	3	5	3261	5	CYFIP2	5	156810315	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08	6087193	156810315	24104945	47	33342											
HIST1H2AE	3012	broad.mit.edu	37	chr6	26217233	26217233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggaaagcaaggcggcaaaGctcgggcaaaagctaaaacg	16	3	14	8	3	0	0	0	0	0	0	1	1	0	1	0	4	4	5	0	4	7	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr6:26217233G>A	uc003nha.1	+	1	86	c.31G>A	c.(31-33)GCT>ACT	p.A11T	HIST1H2BG_uc003ngz.2_5'Flank	NM_021052	NP_066390	P04908	H2A1B_HUMAN	histone cluster 1, H2ae	11					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2		all_hematologic(11;0.196)				AGGCGGCAAAGCTCGGGCAAA	0.517													8	56					0	0	0.058154	0	0		A	26217233	A	A	26217233	3	1	38	1	0	0	0	0	1	0	0	0	7148	971	34	2	33	2	HIST1H2AE	6	26217233	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08		26217233	144897834	48	33343											
GPR110	266977	broad.mit.edu	37	chr6	46979887	46979887	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagattttgcacgaaggaTgacacagctgcctcagtggc	12	8	12	9	1	1	2	1	1	0	1	1	5	1	3	1	2	3	2	1	2	2	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr6:46979887T>C	uc003oyt.2	-	10	1171	c.972A>G	c.(970-972)TCA>TCG	p.S324S	GPR110_uc011dwl.1_Silent_p.S12S	NM_153840	NP_722582	Q5T601	GP110_HUMAN	G-protein coupled receptor 110 isoform 1	324	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|pancreas(1)	3						GCACGAAGGATGACACAGCTG	0.423													5	101					0	0	0.038147	0	0		C	46979887	C	C	46979887	2	2	38	1	0	0	0	0	0	0	0	1	6642	1451	51	3		3	GPR110	6	46979887	Silent	SNP	T	TCGA-BR-6705-01A-12D-1882-08	20762654	46979887	124135180	49	33344											
GFRAL	389400	broad.mit.edu	37	chr6	55223692	55223692	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactctttctctaggaggcaCtatagaacatttcagtcaaa	13	12	6	10	0	4	1	2	0	2	1	5	2	4	2	0	2	1	1	0	2	5	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr6:55223692C>G	uc003pcm.1	+	6	794	c.708C>G	c.(706-708)CAC>CAG	p.H236Q		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	236	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			CTAGGAGGCACTATAGAACAT	0.383													6	56					0	0	0.02938	0	0		G	55223692	G	G	55223692	3	3	38	1	0	0	0	0	1	0	0	0	6366	564	20	5	730	5	GFRAL	6	55223692	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	8243805	55223692	115891375	50	33345											
ROS1	6098	broad.mit.edu	37	chr6	117642553	117642553	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgattctttaatcttctatgCcagactataaaggaaaaaat	16	14	5	6	0	3	2	0	1	3	1	3	3	3	3	1	1	1	0	1	1	8	7			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr6:117642553C>T	uc003pxp.1	-	35	5845	c.5646G>A	c.(5644-5646)TGG>TGA	p.W1882*	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Nonsense_Mutation_p.W194*	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1882	Helical; (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		ATCTTCTATGCCAGACTATAA	0.363			T	GOPC|ROS1	glioblastoma|NSCLC								11	175					0	0	0.069234	0	0		T	117642553	T	T	117642553	4	4	38	1	0	0	0	0	0	1	0	0	13556	740	26	2	1433	2	ROS1	6	117642553	Nonsense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	62418861	117642553	53472514	51	33346											
DNAH11	8701	broad.mit.edu	37	chr7	21847621	21847621	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccttcacaaggcagtatcGccaggagctggtgcactgca	10	7	11	13	1	1	0	1	0	0	0	2	1	1	1	2	3	3	5	2	3	2	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr7:21847621G>T	uc003svc.2	+	64	10338	c.10307G>T	c.(10306-10308)CGC>CTC	p.R3436L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3436					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AGGCAGTATCGCCAGGAGCTG	0.468									Kartagener_syndrome				5	13					0.000602214	0.000673063	0.014758	1	0		T	21847621	T	T	21847621	3	4	38	1	0	0	0	0	1	0	0	0	4605	1087	38	5	10558	5	DNAH11	7	21847621	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08		21847621	137291042	52	33347											
GTF2IRD1	9569	broad.mit.edu	37	chr7	74005258	74005258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgatgacatccccttcCggaaccccaacacgtacgac	10	7	7	17	3	0	2	0	2	0	0	2	4	2	3	6	1	4	1	6	1	3	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr7:74005258C>T	uc003uaq.2	+	24	2941	c.2548C>T	c.(2548-2550)CGG>TGG	p.R850W	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.R867W|GTF2IRD1_uc003uap.2_Missense_Mutation_p.R835W|GTF2IRD1_uc003uar.1_Missense_Mutation_p.R835W	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	850	GTF2I-like 5.					nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CATCCCCTTCCGGAACCCCAA	0.617													13	59					0	0	0.11911	0	0		T	74005258	T	T	74005258	3	4	38	1	0	0	0	0	1	0	0	0	6884	643	23	1	2638	1	GTF2IRD1	7	74005258	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	52157637	74005258	85133405	53	33348											
CLDN12	9069	broad.mit.edu	37	chr7	90042682	90042682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcagcacgctctcgcctctCtgccattgaaattgacattc	8	13	6	14	2	3	2	1	2	2	0	6	2	3	2	2	0	2	2	2	0	1	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr7:90042682C>T	uc003ukp.2	+	5	1328	c.692C>T	c.(691-693)TCT>TTT	p.S231F	CLDN12_uc003ukq.2_Missense_Mutation_p.S231F|CLDN12_uc010leq.2_Missense_Mutation_p.S231F|CLDN12_uc003ukr.2_Missense_Mutation_p.S231F|CLDN12_uc003uks.2_Missense_Mutation_p.S231F	NM_012129	NP_036261	P56749	CLD12_HUMAN	claudin 12	231	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						TCTCGCCTCTCTGCCATTGAA	0.438													27	141					0	0	0.116897	0	0		T	90042682	T	T	90042682	3	4	38	1	0	0	0	0	1	0	0	0	3477	913	32	4	694	4	CLDN12	7	90042682	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	16037424	90042682	69095981	54	33349											
TAS2R16	50833	broad.mit.edu	37	chr7	122634836	122634836	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcactttccctttagaatccTtttcaacgtagggctgctca	8	14	7	12	1	2	1	2	0	0	1	4	1	4	1	2	1	2	4	2	1	4	6			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr7:122634836T>C	uc003vkl.1	-	1	919	c.853A>G	c.(853-855)AGG>GGG	p.R285G		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	285	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						TTTAGAATCCTTTTCAACGTA	0.418													3	196					0	0	0.115264	0	0		C	122634836	C	C	122634836	3	2	38	1	0	0	0	0	1	0	0	0	15594	1608	56	3	26	3	TAS2R16	7	122634836	Missense_Mutation	SNP	T	TCGA-BR-6705-01A-12D-1882-08	32592154	122634836	36503827	55	33350											
POT1	25913	broad.mit.edu	37	chr7	124532403	124532403	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccacccttaagttgattcAggggtgtatatatataattt	12	16	7	6	0	1	1	1	1	0	0	1	1	1	1	2	2	1	2	2	2	7	10			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr7:124532403A>G	uc003vlm.2	-	6	642	c.41T>C	c.(40-42)CTG>CCG	p.L14P	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_5'UTR|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	14					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						AAGTTGATTCAGGGGTGTATA	0.333													4	227					0	0	0.009096	0	0		G	124532403	G	G	124532403	3	3	38	1	0	0	0	0	1	0	0	0	12279	188	7	3	1919	3	POT1	7	124532403	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08	1897567	124532403	34606260	56	33351											
GRM8	2918	broad.mit.edu	37	chr7	126173574	126173574	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgttaggagcacgtaactaAgttcgcgtcctgaagccctc	9	9	10	13	4	0	1	0	1	0	0	3	2	1	2	3	1	3	4	3	1	4	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr7:126173574A>G	uc003vlr.2	-	8	2173	c.1862T>C	c.(1861-1863)CTT>CCT	p.L621P	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.L621P|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	621	Helical; Name=2; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	CACGTAACTAAGTTCGCGTCC	0.453										HNSCC(24;0.065)			9	55					0	0	0.058154	0	0		G	126173574	G	G	126173574	3	3	38	1	0	0	0	0	1	0	0	0	6819	72	3	3	926	3	GRM8	7	126173574	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08	1641171	126173574	32965089	57	33352											
CNTNAP2	26047	broad.mit.edu	37	chr7	146997238	146997238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttgtacttaccaggttctGggttgaatgatggacagtgg	8	14	13	6	0	2	2	0	2	2	0	2	3	2	3	1	4	2	3	1	4	3	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr7:146997238G>A	uc003weu.1	+	9	1870	c.1354G>A	c.(1354-1356)GGG>AGG	p.G452R		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	452	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ACCAGGTTCTGGGTTGAATGA	0.373										HNSCC(39;0.1)			11	72					0	0	0.09319	0	0		A	146997238	A	A	146997238	3	1	38	1	0	0	0	0	1	0	0	0	3650	1348	47	4	1388	4	CNTNAP2	7	146997238	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	20823664	146997238	12141425	58	33353											
UBE3C	9690	broad.mit.edu	37	chr7	157046671	157046671	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gttgaactaaaattcggtggGaaagacatccctgtcaccag	13	9	10	9	1	1	2	1	1	0	1	3	3	2	3	2	2	1	1	2	2	4	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr7:157046671G>A	uc010lqs.2	+	20	3030	c.2718G>A	c.(2716-2718)GGG>GGA	p.G906G	UBE3C_uc003wni.3_Silent_p.G269G	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	906	HECT.				protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		AATTCGGTGGGAAAGACATCC	0.453													7	32					0	0	0.038147	0	0		A	157046671	A	A	157046671	2	1	38	1	0	0	0	0	0	0	0	1	16907	1161	41	4		4	UBE3C	7	157046671	Silent	SNP	G	TCGA-BR-6705-01A-12D-1882-08	10049433	157046671	2091992	59	33354											
ADCY8	114	broad.mit.edu	37	chr8	131916210	131916210	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcttcctcaggaattcattCctctctttaccatggccctc	6	15	5	15	0	3	0	2	0	1	0	7	1	5	1	4	2	2	1	4	2	2	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr8:131916210C>A	uc003ytd.3	-	7	1975	c.1719G>T	c.(1717-1719)AGG>AGT	p.R573S	ADCY8_uc010mds.2_Missense_Mutation_p.R573S	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	573	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GGAATTCATTCCTCTCTTTAC	0.463										HNSCC(32;0.087)			15	210					9.16793e-09	1.06376e-08	0.0333	1	0		A	131916210	A	A	131916210	3	1	38	1	0	0	0	0	1	0	0	0	300	854	30	5	2084	5	ADCY8	8	131916210	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08		131916210	14447812	60	33355											
PSIP1	11168	broad.mit.edu	37	chr9	15468792	15468792	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcttaaacttgttatacAacattgtagacttttccatg	11	18	5	7	0	1	1	0	0	1	1	2	1	2	1	1	0	3	3	1	0	6	9			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr9:15468792A>C	uc003zlv.3	-	14	1586	c.1256T>G	c.(1255-1257)TTG>TGG	p.L419W	PSIP1_uc003zlw.3_Missense_Mutation_p.L419W	NM_033222	NP_150091	O75475	PSIP1_HUMAN	PC4 and SFRS1 interacting protein 1 isoform 2	419					initiation of viral infection|interspecies interaction between organisms|nuclear mRNA 5'-splice site recognition|provirus integration|regulation of transcription, DNA-dependent|response to heat|response to oxidative stress|transcription, DNA-dependent	cytosol|nuclear heterochromatin|nuclear periphery|nucleoplasm|nucleoplasm|transcriptionally active chromatin	activating transcription factor binding|chromatin binding|DNA secondary structure binding|RNA polymerase II transcription coactivator activity			breast(1)	1				GBM - Glioblastoma multiforme(50;2.38e-06)		CTTGTTATACAACATTGTAGA	0.343													8	49					0	0	0.047766	0	0		C	15468792	C	C	15468792	3	2	38	1	0	0	0	0	1	0	0	0	12685	131	5	5	348	5	PSIP1	9	15468792	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08		15468792	125744639	61	33356											
TAF1L	138474	broad.mit.edu	37	chr9	32632187	32632187	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagctgagagctggtttTcttgttctgcaacatgttct	7	16	10	8	0	3	2	0	2	3	1	3	3	3	2	0	1	4	6	0	1	1	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr9:32632187T>C	uc003zrg.1	-	1	3481	c.3391A>G	c.(3391-3393)AAA>GAA	p.K1131E	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1131					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		GAGCTGGTTTTCTTGTTCTGC	0.468													8	100					0	0	0.058154	0	0		C	32632187	C	C	32632187	3	2	38	1	0	0	0	0	1	0	0	0	15548	1792	62	3	2093	3	TAF1L	9	32632187	Missense_Mutation	SNP	T	TCGA-BR-6705-01A-12D-1882-08	17163395	32632187	108581244	62	33357											
FLJ46321	389763	broad.mit.edu	37	chr9	84603746	84603746	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagaccatggagaatatcCtctgttttctgaacagctat	11	14	7	9	0	3	3	1	1	2	2	4	4	4	3	2	1	2	2	2	1	4	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr9:84603746C>G	uc004amn.2	+	1	60	c.13C>G	c.(13-15)CTC>GTC	p.L5V		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	5						integral to membrane					0						GGAGAATATCCTCTGTTTTCT	0.507													10	80					0	0	0.058154	0	0		G	84603746	G	G	84603746	3	3	38	1	0	0	0	0	1	0	0	0	5946	681	24	5	15	5	FLJ46321	9	84603746	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	51971559	84603746	56609685	63	33358											
PAPPA	5069	broad.mit.edu	37	chr9	119114988	119114988	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcctatgtcttccaggcaAcaacagcctcctgacctgca	9	10	7	15	0	1	1	0	1	1	0	3	1	3	1	5	1	5	2	5	1	3	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr9:119114988A>G	uc004bjn.2	+	16	4349	c.3968A>G	c.(3967-3969)AAC>AGC	p.N1323S	PAPPA_uc011lxq.1_Missense_Mutation_p.N698S	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1323	Sushi 2.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CTTCCAGGCAACAACAGCCTC	0.547													6	66					0	0	0.02938	0	0		G	119114988	G	G	119114988	3	3	38	1	0	0	0	0	1	0	0	0	11451	43	2	3	4030	3	PAPPA	9	119114988	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08	34511242	119114988	22098443	64	33359											
PAPPA	5069	broad.mit.edu	37	chr9	119115107	119115107	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccagaccgcccggtgcCgagagaataagcacaaggtg	12	4	12	13	3	0	2	0	0	0	2	1	4	1	2	5	2	2	1	5	2	3	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr9:119115107C>T	uc004bjn.2	+	16	4468	c.4087C>T	c.(4087-4089)CGA>TGA	p.R1363*	PAPPA_uc011lxq.1_Nonsense_Mutation_p.R738*	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1363	Sushi 3.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CGCCCGGTGCCGAGAGAATAA	0.572													5	69					0	0	0.014758	0	0		T	119115107	T	T	119115107	4	4	38	1	0	0	0	0	0	1	0	0	11451	644	23	1	4149	1	PAPPA	9	119115107	Nonsense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	119	119115107	22098324	65	33360											
GAPVD1	26130	broad.mit.edu	37	chr9	128074745	128074745	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattagcaactcggagcagaAgccgcaccaatatgctaatg	14	8	9	10	2	0	1	0	0	0	1	1	2	0	2	2	1	5	4	2	1	7	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr9:128074745A>C	uc010mwx.2	+	9	1782	c.1456A>C	c.(1456-1458)AGC>CGC	p.S486R	GAPVD1_uc011lzs.1_Missense_Mutation_p.S486R|GAPVD1_uc004bpp.2_Missense_Mutation_p.S486R|GAPVD1_uc004bpq.2_Missense_Mutation_p.S486R|GAPVD1_uc004bpr.2_Missense_Mutation_p.S486R|GAPVD1_uc004bps.2_Missense_Mutation_p.S486R|GAPVD1_uc010mwy.1_Missense_Mutation_p.S345R	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	486					endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						TCGGAGCAGAAGCCGCACCAA	0.338													4	25					0	0	0.009096	0	0		C	128074745	C	C	128074745	3	2	38	1	0	0	0	0	1	0	0	0	6254	72	3	5	1478	5	GAPVD1	9	128074745	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08	8959638	128074745	13138686	66	33361											
SPTAN1	6709	broad.mit.edu	37	chr9	131353798	131353798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acgatcgtcagggttttgtgCcggctgcgtacgtgaagaaa	9	10	14	8	5	1	2	1	1	0	1	2	3	1	2	1	2	3	3	1	2	3	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr9:131353798C>T	uc004bvl.3	+	22	3162	c.3049C>T	c.(3049-3051)CCG>TCG	p.P1017S	SPTAN1_uc011mbg.1_Missense_Mutation_p.P1017S|SPTAN1_uc011mbh.1_Missense_Mutation_p.P1029S|SPTAN1_uc004bvm.3_Missense_Mutation_p.P1017S|SPTAN1_uc004bvn.3_Missense_Mutation_p.P1017S	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1017	SH3.		P -> S (in a breast cancer sample; somatic mutation).		actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton	p.P1017S(1)		breast(5)|ovary(4)|pancreas(1)	10						GGGTTTTGTGCCGGCTGCGTA	0.522													5	158					0	0	0.014758	0	0		T	131353798	T	T	131353798	3	4	38	1	0	0	0	0	1	0	0	0	15142	739	26	2	3131	2	SPTAN1	9	131353798	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	3279053	131353798	9859633	67	33362											
VAV2	7410	broad.mit.edu	37	chr9	136648670	136648670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcactccttgtgtgcccCgacgccacacttggtacaca	8	8	9	16	2	0	0	0	0	0	0	1	1	1	0	4	2	2	2	4	2	1	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr9:136648670C>T	uc004ces.2	-	19	1724	c.1678G>A	c.(1678-1680)GGG>AGG	p.G560R	VAV2_uc004cer.2_Missense_Mutation_p.G550R|VAV2_uc004cet.1_Missense_Mutation_p.G99R	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	560	Phorbol-ester/DAG-type.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		TTGTGTGCCCCGACGCCACAC	0.632													3	50					0	0	0.115264	0	0		T	136648670	T	T	136648670	3	4	38	1	0	0	0	0	1	0	0	0	17158	652	23	1	1006	1	VAV2	9	136648670	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	5294872	136648670	4564761	68	33363											
CDH23	64072	broad.mit.edu	37	chr10	73544820	73544820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcaccttcaacatcactgCgggcaaccgcgagcgggcct	8	6	10	17	4	3	0	3	0	0	0	3	1	3	0	4	2	4	1	4	2	2	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr10:73544820C>T	uc001jrx.3	+	41	6052	c.5675C>T	c.(5674-5676)GCG>GTG	p.A1892V		NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1892	Cadherin 18.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						AACATCACTGCGGGCAACCGC	0.602													5	72					0	0	0.014758	0	0		T	73544820	T	T	73544820	3	4	38	1	0	0	0	0	1	0	0	0	3111	768	27	1	6186	1	CDH23	10	73544820	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08		73544820	61989927	69	33364											
FBXW4	6468	broad.mit.edu	37	chr10	103371080	103371080	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatccaggacgtggaggtTgtaagacagggcagcataga	15	6	14	6	1	0	2	0	0	0	2	1	4	1	4	1	4	1	4	1	4	4	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr10:103371080T>A	uc001kto.2	-	9	1553	c.1207A>T	c.(1207-1209)AAC>TAC	p.N403Y		NM_022039	NP_071322	P57775	FBXW4_HUMAN	F-box and WD repeat domain containing 4	403					ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	ubiquitin ligase complex				skin(1)	1		Colorectal(252;0.123)		Epithelial(162;4.35e-08)|all cancers(201;1.92e-06)		ACGTGGAGGTTGTAAGACAGG	0.607													11	68					0	0	0.105934	0	0		A	103371080	A	A	103371080	3	1	38	1	0	0	0	0	1	0	0	0	5781	1812	63	5	35	5	FBXW4	10	103371080	Missense_Mutation	SNP	T	TCGA-BR-6705-01A-12D-1882-08	29826260	103371080	32163667	70	33365											
SORCS1	114815	broad.mit.edu	37	chr10	108389026	108389026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccacctgcacggtcacacGgaaaatgcccacgttctgat	10	8	9	14	3	2	1	1	1	1	0	3	2	3	2	3	2	2	2	3	2	2	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr10:108389026G>A	uc001kym.2	-	19	2604	c.2596C>T	c.(2596-2598)CGT>TGT	p.R866C	SORCS1_uc001kyl.2_Missense_Mutation_p.R866C|SORCS1_uc009xxs.2_Missense_Mutation_p.R866C|SORCS1_uc001kyn.1_Missense_Mutation_p.R866C|SORCS1_uc001kyo.2_Missense_Mutation_p.R866C	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	866	Lumenal (Potential).|PKD.					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		ACGGTCACACGGAAAATGCCC	0.478													5	31					0	0	0.014758	0	0		A	108389026	A	A	108389026	3	1	38	1	0	0	0	0	1	0	0	0	14955	1116	39	1	1176	1	SORCS1	10	108389026	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	5017946	108389026	27145721	71	33366											
MRVI1	10335	broad.mit.edu	37	chr11	10622545	10622545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcatggtccttctcatacGtcctctttagattctccaca	7	14	5	15	2	3	1	1	0	3	1	7	1	5	1	4	1	1	1	4	1	2	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr11:10622545G>A	uc010rcc.1	-	15	2323	c.1937C>T	c.(1936-1938)ACG>ATG	p.T646M	MRVI1_uc001miw.2_Missense_Mutation_p.T637M|MRVI1_uc010rcb.1_Missense_Mutation_p.T638M|MRVI1_uc009ygb.1_Missense_Mutation_p.T331M|MRVI1_uc001mix.2_Missense_Mutation_p.T331M|MRVI1_uc001miz.2_Missense_Mutation_p.T555M|MRVI1_uc009ygc.1_Missense_Mutation_p.T555M|MRVI1_uc010rcd.1_Missense_Mutation_p.T440M|MRVI1_uc009ygd.1_Missense_Mutation_p.T331M|MRVI1_uc010rce.1_RNA	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	619	Potential.				platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum				ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		CTTCTCATACGTCCTCTTTAG	0.517													28	250					0	0	0.125774	0	0		A	10622545	A	A	10622545	3	1	38	1	0	0	0	0	1	0	0	0	9871	1145	40	1	829	1	MRVI1	11	10622545	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08		10622545	124383971	72	33367											
OR5T3	390154	broad.mit.edu	37	chr11	56020552	56020552	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtcagttatatgagaccaAgttccagctatgcttcagac	11	12	8	10	1	2	2	2	1	0	2	4	3	3	2	2	0	2	4	2	0	4	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr11:56020552A>T	uc010rjd.1	+	1	877	c.877A>T	c.(877-879)AGT>TGT	p.S293C		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	293	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					TATGAGACCAAGTTCCAGCTA	0.398													8	114					0	0	0.047766	0	0		T	56020552	T	T	56020552	3	4	38	1	0	0	0	0	1	0	0	0	11202	72	3	5	879	5	OR5T3	11	56020552	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08	45398007	56020552	78985964	73	33368											
MTL5	9633	broad.mit.edu	37	chr11	68475799	68475799	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccattttcaatcccttagAtttaaactcagtgtggagaa	12	14	6	9	0	2	2	2	0	0	2	4	3	4	2	2	1	1	0	2	1	5	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr11:68475799A>G	uc001ooc.2	-	10	1644	c.1504T>C	c.(1504-1506)TCT>CCT	p.S502P		NM_004923	NP_004914	Q9Y4I5	MTL5_HUMAN	metallothionein-like 5, testis-specific isoform	502					cell differentiation|cellular metal ion homeostasis|multicellular organismal development|response to metal ion|spermatogenesis	cytoplasm|nucleus|soluble fraction	metal ion binding			ovary(2)|breast(1)	3	Esophageal squamous(3;4.37e-12)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.185)			AATCCCTTAGATTTAAACTCA	0.408													6	84					0	0	0.02938	0	0		G	68475799	G	G	68475799	3	3	38	1	0	0	0	0	1	0	0	0	9954	333	12	3	26	3	MTL5	11	68475799	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08	12455247	68475799	66530717	74	33369											
IGHMBP2	3508	broad.mit.edu	37	chr11	68673617	68673617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgcaggtatccagccagcGcactgggctgtacggacggc	7	6	15	13	3	0	0	0	0	0	0	1	1	1	1	2	4	4	6	2	4	2	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr11:68673617G>A	uc001ook.1	+	2	269	c.167G>A	c.(166-168)CGC>CAC	p.R56H	IGHMBP2_uc001ooj.1_RNA|MRPL21_uc001ooh.2_5'Flank|MRPL21_uc001ooi.2_5'Flank|MRPL21_uc010rqe.1_5'Flank	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	56					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TCCAGCCAGCGCACTGGGCTG	0.587													14	117					0	0	0.105934	0	0		A	68673617	A	A	68673617	3	1	38	1	0	0	0	0	1	0	0	0	7607	1087	38	1	173	1	IGHMBP2	11	68673617	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	197818	68673617	66332899	75	33370											
DLG2	1740	broad.mit.edu	37	chr11	84996402	84996402	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgtcacctcataaaattcTtggatatctgtaaagaaaat	17	13	5	6	0	4	1	2	0	2	1	4	2	4	2	1	1	0	1	1	1	8	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr11:84996402T>G	uc001pak.2	-	4	360	c.48A>C	c.(46-48)CAA>CAC	p.Q16H		NM_001142699	NP_001136171	Q15700	DLG2_HUMAN	chapsyn-110 isoform 1	Error:Variant_position_missing_in_Q15700_after_alignment						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				CATAAAATTCTTGGATATCTG	0.323													9	97					0	0	0.047766	0	0		G	84996402	G	G	84996402	3	3	38	1	0	0	0	0	1	0	0	0	4561	1606	56	5	3184	5	DLG2	11	84996402	Missense_Mutation	SNP	T	TCGA-BR-6705-01A-12D-1882-08	16322785	84996402	50010114	76	33371											
TRPC6	7225	broad.mit.edu	37	chr11	101347160	101347160	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaatctcgcaatgaatgatGctgcgaaaattgctaacata	15	11	8	7	2	1	3	0	3	1	0	2	4	1	3	0	0	4	3	0	0	7	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr11:101347160G>T	uc001pgk.3	-	6	2041	c.1616C>A	c.(1615-1617)GCA>GAA	p.A539E	TRPC6_uc009ywy.2_Missense_Mutation_p.A423E|TRPC6_uc009ywz.1_Missense_Mutation_p.A484E	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	539	Helical; (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		AATGAATGATGCTGCGAAAAT	0.408													4	48					0.00909568	0.00980527	0.009096	1	0		T	101347160	T	T	101347160	3	4	38	1	0	0	0	0	1	0	0	0	16609	1319	46	5	1211	5	TRPC6	11	101347160	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	16350758	101347160	33659356	77	33372											
HINFP	25988	broad.mit.edu	37	chr11	119004822	119004822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacatgaagatggctatatgCggctgcagctggttcgctac	10	10	12	9	2	0	2	0	1	0	1	1	2	0	2	0	3	5	6	0	3	5	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr11:119004822C>T	uc001pvp.2	+	11	1357	c.1168C>T	c.(1168-1170)CGG>TGG	p.R390W	HINFP_uc001pvq.2_Missense_Mutation_p.R390W|HINFP_uc001pvr.2_Missense_Mutation_p.R143W	NM_015517	NP_056332	Q9BQA5	HINFP_HUMAN	MBD2 (methyl-CpG-binding protein)-interacting	390	Interaction with NPAT.|Required for activation of histone H4 transcription and contributes to DNA- binding.				DNA damage checkpoint|DNA repair|establishment of protein localization|in utero embryonic development|myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	enzyme binding|histone binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						TGGCTATATGCGGCTGCAGCT	0.567											OREG0021397	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	66					0	0	0.105934	0	0		T	119004822	T	T	119004822	3	4	38	1	0	0	0	0	1	0	0	0	7126	759	27	1	1202	1	HINFP	11	119004822	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	17657662	119004822	16001694	78	33373											
NLRX1	79671	broad.mit.edu	37	chr11	119052840	119052840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacggcggcaggtgttgccGtgctaatggaggggctggca	6	8	19	8	3	0	1	0	1	0	0	0	2	0	2	1	7	2	5	1	7	1	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr11:119052840G>A	uc001pvu.2	+	9	2607	c.2392G>A	c.(2392-2394)GTG>ATG	p.V798M	NLRX1_uc001pvv.2_Missense_Mutation_p.V798M|NLRX1_uc001pvw.2_Missense_Mutation_p.V798M|NLRX1_uc001pvx.2_Missense_Mutation_p.V798M	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	798	Required for the repression of MAVS- induced interferon signaling.|LRR 4.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		AGGTGTTGCCGTGCTAATGGA	0.637													21	176					0	0	0.055883	0	0		A	119052840	A	A	119052840	3	1	38	1	0	0	0	0	1	0	0	0	10504	1145	40	1	2422	1	NLRX1	11	119052840	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	48018	119052840	15953676	79	33374											
FKBP4	2288	broad.mit.edu	37	chr12	2910480	2910480	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgcccgggagaagaagctCtatgccaatatgtttgagag	11	10	12	8	1	1	3	0	1	1	3	1	5	1	3	2	1	3	2	2	1	5	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr12:2910480C>T	uc001qkz.2	+	9	1428	c.1230C>T	c.(1228-1230)CTC>CTT	p.L410L		NM_002014	NP_002005	Q02790	FKBP4_HUMAN	FK506 binding protein 52	410					negative regulation of microtubule polymerization or depolymerization|negative regulation of neuron projection development|protein folding	axonal growth cone|cytosol|membrane|microtubule|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity|protein binding, bridging				0			OV - Ovarian serous cystadenocarcinoma(31;0.00105)		Dimethyl sulfoxide(DB01093)	AGAAGAAGCTCTATGCCAATA	0.562													101	119					0	0	0.139131	0	0		T	2910480	T	T	2910480	2	4	38	1	0	0	0	0	0	0	0	1	5924	900	32	4		4	FKBP4	12	2910480	Silent	SNP	C	TCGA-BR-6705-01A-12D-1882-08		2910480	130941415	80	33375											
KRAS	3845	broad.mit.edu	37	chr12	25378594	25378594	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taaaaggaattccataacttCttgctaagtcctgagcctgt	12	13	7	9	0	1	1	0	1	1	0	3	2	3	2	3	1	3	1	3	1	5	6			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr12:25378594C>G	uc001rgp.1	-	4	585	c.404G>C	c.(403-405)AGA>ACA	p.R135T	KRAS_uc001rgq.1_Missense_Mutation_p.R135T	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	135					activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding			large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			TCCATAACTTCTTGCTAAGTC	0.353		119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			24	408					0	0	0.076483	0	0		G	25378594	G	G	25378594	3	3	38	1	0	0	0	0	1	0	0	0	8454	913	32	5	294	5	KRAS	12	25378594	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	22468114	25378594	108473301	81	33376											
ANO4	121601	broad.mit.edu	37	chr12	101333096	101333096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atttactttggttctagtggCcaaggatgtcaatattcttt	9	18	8	6	0	3	0	1	0	2	0	3	1	3	1	1	3	1	1	1	3	5	8			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr12:101333096C>T	uc010svm.1	+	4	736	c.164C>T	c.(163-165)GCC>GTC	p.A55V	ANO4_uc010svl.1_RNA|ANO4_uc001thw.2_Missense_Mutation_p.A20V|ANO4_uc001thx.2_Missense_Mutation_p.A55V	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	55	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						GTTCTAGTGGCCAAGGATGTC	0.378										HNSCC(74;0.22)			10	98					0	0	0.080935	0	0		T	101333096	T	T	101333096	3	4	38	1	0	0	0	0	1	0	0	0	699	739	26	2	65	2	ANO4	12	101333096	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	75954502	101333096	32518799	82	33377											
MYO1H	283446	broad.mit.edu	37	chr12	109845697	109845697	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acttggctggtcaacaaaatCaattcctccttagttaacaa	14	12	5	10	0	2	0	2	0	0	0	4	0	4	0	2	2	2	2	2	2	7	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr12:109845697C>T	uc010sxn.1	+	9	1086	c.1086C>T	c.(1084-1086)ATC>ATT	p.I362I		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						TCAACAAAATCAATTCCTCCT	0.423													10	58					0	0	0.058154	0	0		T	109845697	T	T	109845697	2	4	38	1	0	0	0	0	0	0	0	1	10093	816	29	4		4	MYO1H	12	109845697	Silent	SNP	C	TCGA-BR-6705-01A-12D-1882-08	8512601	109845697	24006198	83	33378											
DGKH	160851	broad.mit.edu	37	chr13	42748255	42748255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttccctacttccaggacCtccagaagcatctgaagaat	12	9	7	13	0	1	3	0	1	1	2	4	4	4	4	4	1	3	2	4	1	4	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr13:42748255C>T	uc001uyl.1	+	12	1448	c.1427C>T	c.(1426-1428)CCT>CTT	p.P476L	DGKH_uc010tfh.1_Missense_Mutation_p.P476L|DGKH_uc001uym.1_Missense_Mutation_p.P476L|DGKH_uc010tfi.1_Missense_Mutation_p.P231L|DGKH_uc010tfj.1_Missense_Mutation_p.P331L|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Missense_Mutation_p.P331L|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	476					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		CTTCCAGGACCTCCAGAAGCA	0.363													3	71					0	0	0.115264	0	0		T	42748255	T	T	42748255	3	4	38	1	0	0	0	0	1	0	0	0	4476	681	24	4	1473	4	DGKH	13	42748255	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08		42748255	72421623	84	33379											
STK24	8428	broad.mit.edu	37	chr13	99116043	99116043	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtaggaagttttctttgcAttgcgtagtataaacttgtg	11	16	10	4	1	1	0	0	0	1	0	1	1	1	1	0	1	3	5	0	1	7	9			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr13:99116043A>G	uc001vnm.1	-	7	1102	c.867T>C	c.(865-867)AAT>AAC	p.N289N	STK24_uc001vnn.1_Silent_p.N277N|STK24_uc010tim.1_Silent_p.N258N	NM_003576	NP_003567	Q9Y6E0	STK24_HUMAN	serine/threonine kinase 24 isoform a	289					cellular component disassembly involved in apoptosis|signal transduction	cytosol|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			TTTTCTTTGCATTGCGTAGTA	0.473													6	65					0	0	0.02938	0	0		G	99116043	G	G	99116043	2	3	38	1	0	0	0	0	0	0	0	1	15318	214	8	3		3	STK24	13	99116043	Silent	SNP	A	TCGA-BR-6705-01A-12D-1882-08	56367788	99116043	16053835	85	33380											
AKAP6	9472	broad.mit.edu	37	chr14	33293356	33293356	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggggacttttattcgtacTtatctctctcatctcatgac	9	16	6	10	1	3	1	2	1	3	0	7	2	3	2	0	2	1	1	0	2	4	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr14:33293356T>G	uc001wrq.2	+	13	6507	c.6337T>G	c.(6337-6339)TTA>GTA	p.L2113V		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	2113					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TTATTCGTACTTATCTCTCTC	0.473													13	134					0	0	0.105934	0	0		G	33293356	G	G	33293356	3	3	38	1	0	0	0	0	1	0	0	0	455	1606	56	5	6383	5	AKAP6	14	33293356	Missense_Mutation	SNP	T	TCGA-BR-6705-01A-12D-1882-08		33293356	74056184	86	33381											
GALNTL1	57452	broad.mit.edu	37	chr14	69787487	69787487	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacctgtcggccaagcagctGaaggctggagaggaccccta	10	6	13	12	1	0	2	0	1	0	1	1	4	0	3	4	4	3	3	4	4	4	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr14:69787487G>A	uc010aqu.1	+	2	330	c.237G>A	c.(235-237)CTG>CTA	p.L79L	GALNTL1_uc001xla.1_Silent_p.L79L|GALNTL1_uc001xlb.1_Silent_p.L79L	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	79	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		CCAAGCAGCTGAAGGCTGGAG	0.592													6	101					0	0	0.021553	0	0		A	69787487	A	A	69787487	2	1	38	1	0	0	0	0	0	0	0	1	6236	1277	45	4		4	GALNTL1	14	69787487	Silent	SNP	G	TCGA-BR-6705-01A-12D-1882-08	36494131	69787487	37562053	87	33382											
VASH1	22846	broad.mit.edu	37	chr14	77242566	77242566	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtggagcgcctgggccgcGatgacttccgcaaggagctg	7	6	16	12	5	0	1	0	1	0	0	1	4	1	3	3	3	2	2	3	3	1	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr14:77242566G>A	uc001xst.2	+	5	1792	c.862G>A	c.(862-864)GAT>AAT	p.D288N		NM_014909	NP_055724	Q7L8A9	VASH1_HUMAN	vasohibin 1	288					cell cycle arrest|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of endothelial cell proliferation	endoplasmic reticulum|extracellular space					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0283)		CCTGGGCCGCGATGACTTCCG	0.552													4	33					0	0	0.014758	0	0		A	77242566	A	A	77242566	3	1	38	1	0	0	0	0	1	0	0	0	17151	1058	37	1	880	1	VASH1	14	77242566	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	7455079	77242566	30106974	88	33383											
AXIN1	8312	broad.mit.edu	37	chr16	354351	354351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttctcctcggcctcccGcgtgcgctgcacagcctcca	4	8	9	20	4	1	0	0	0	1	0	5	0	3	0	5	1	4	3	5	1	0	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr16:354351G>A	uc002cgp.1	-	5	1384	c.1207C>T	c.(1207-1209)CGG>TGG	p.R403W	AXIN1_uc002cgq.1_Missense_Mutation_p.R403W	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	403	Interaction with GSK3B (By similarity).				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				TCGGCCTCCCGCGTGCGCTGC	0.687													5	53					0	0	0.014758	0	0		A	354351	A	A	354351	3	1	38	1	0	0	0	0	1	0	0	0	1237	1086	38	1	1409	1	AXIN1	16	354351	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08		354351	90000402	89	33384											
MMP25	64386	broad.mit.edu	37	chr16	3100096	3100096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggtcaggcggcgtcgcCggtacgctctgagcggcagc	4	6	18	13	6	2	1	1	1	1	0	3	1	2	1	1	6	3	4	1	6	1	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr16:3100096C>T	uc002cth.2	+	3	556	c.319C>T	c.(319-321)CGG>TGG	p.R107W	MMP25_uc002cti.1_Missense_Mutation_p.R43W	NM_022468	NP_071913	Q9NPA2	MMP25_HUMAN	matrix metalloproteinase 25 preproprotein	107	Poly-Arg.				inflammatory response|proteolysis	anchored to membrane|cell surface|plasma membrane|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0						GCGGCGTCGCCGGTACGCTCT	0.701													17	99					0	0	0.043863	0	0		T	3100096	T	T	3100096	3	4	38	1	0	0	0	0	1	0	0	0	9680	643	23	1	329	1	MMP25	16	3100096	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	2745745	3100096	87254657	90	33385											
ZNF200	7752	broad.mit.edu	37	chr16	3274181	3274181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttctctcctgtatgaattCgctcatgtttattgaggttt	6	20	8	7	1	2	2	1	2	1	0	5	2	3	2	1	1	0	5	1	1	3	7	rs148762905		TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr16:3274181C>T	uc002cuj.2	-	5	1531	c.899G>A	c.(898-900)CGA>CAA	p.R300Q	ZNF200_uc002cum.3_Missense_Mutation_p.R299Q|ZNF200_uc010bti.2_Missense_Mutation_p.R299Q|ZNF200_uc002cuk.2_Missense_Mutation_p.R300Q|ZNF200_uc002cui.2_Missense_Mutation_p.R299Q|ZNF200_uc002cul.3_Missense_Mutation_p.R299Q	NM_003454	NP_003445	P98182	ZN200_HUMAN	zinc finger protein 200 isoform 1	300	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						TGTATGAATTCGCTCATGTTT	0.418													9	123					0	0	0.047766	0	0		T	3274181	T	T	3274181	3	4	38	1	0	0	0	0	1	0	0	0	17787	884	31	1	292	1	ZNF200	16	3274181	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	174085	3274181	87080572	91	33386											
TAOK2	9344	broad.mit.edu	37	chr16	29989217	29989217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccatggcagctttggagccGtatactttgtgagttgggtc	6	13	14	8	1	0	1	0	1	0	0	1	2	0	2	2	3	3	4	2	3	2	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr16:29989217G>A	uc002dva.1	+	2	907	c.124G>A	c.(124-126)GTA>ATA	p.V42I	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Missense_Mutation_p.V42I|TAOK2_uc002dvc.1_Missense_Mutation_p.V42I|TAOK2_uc010bzm.1_Missense_Mutation_p.V42I|TAOK2_uc002dvd.1_5'Flank	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	42	ATP (By similarity).|Protein kinase.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CTTTGGAGCCGTATACTTTGT	0.532													4	190					0	0	0.014758	0	0		A	29989217	A	A	29989217	3	1	38	1	0	0	0	0	1	0	0	0	15573	1145	40	1	126	1	TAOK2	16	29989217	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	26715036	29989217	60365536	92	33387											
ITGAX	3687	broad.mit.edu	37	chr16	31371109	31371109	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgccacgatgatgaacttCgtgagagctgtgataagcca	11	11	11	8	2	0	4	0	4	0	1	1	6	0	4	2	0	4	1	2	0	2	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr16:31371109C>T	uc002ebu.1	+	6	586	c.519C>T	c.(517-519)TTC>TTT	p.F173F	ITGAX_uc002ebt.2_Silent_p.F173F|ITGAX_uc010vfk.1_5'Flank	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	173	VWFA.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGATGAACTTCGTGAGAGCTG	0.582													7	75					0	0	0.047766	0	0		T	31371109	T	T	31371109	2	4	38	1	0	0	0	0	0	0	0	1	7905	883	31	1		1	ITGAX	16	31371109	Silent	SNP	C	TCGA-BR-6705-01A-12D-1882-08	1381892	31371109	58983644	93	33388											
MYH2	4620	broad.mit.edu	37	chr17	10428212	10428212	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcatcattcctactcctGatctcagcatccagcgtgct	8	12	7	14	1	2	1	2	1	1	0	6	1	5	1	3	1	4	3	3	1	1	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr17:10428212G>T	uc010coi.2	-	34	4961	c.4833C>A	c.(4831-4833)ATC>ATA	p.I1611I	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.I1611I|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1611	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TCCTACTCCTGATCTCAGCAT	0.468													6	189					5.18039e-06	5.9653e-06	0.038147	1	0		T	10428212	T	T	10428212	2	4	38	1	0	0	0	0	0	0	0	1	10053	1280	45	5		5	MYH2	17	10428212	Silent	SNP	G	TCGA-BR-6705-01A-12D-1882-08		10428212	70766998	94	33389											
ITGA2B	3674	broad.mit.edu	37	chr17	42455111	42455111	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccagctcacacagcaccacCctggtctcattctccttctt	7	11	4	19	0	4	0	2	0	3	0	6	0	4	0	4	1	2	2	4	1	0	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr17:42455111C>T	uc002igt.1	-	21	2174	c.2142G>A	c.(2140-2142)AGG>AGA	p.R714R	ITGA2B_uc002igu.1_Silent_p.R195R	NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	714	Extracellular (Potential).				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	ACAGCACCACCCTGGTCTCAT	0.498													4	70					0	0	0.009096	0	0		T	42455111	T	T	42455111	2	4	38	1	0	0	0	0	0	0	0	1	7892	622	22	4		4	ITGA2B	17	42455111	Silent	SNP	C	TCGA-BR-6705-01A-12D-1882-08	32026899	42455111	38740099	95	33390											
B4GALNT2	124872	broad.mit.edu	37	chr17	47241497	47241497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctaccaagactttcctcCgcccccacaagctcatgatc	9	10	5	17	1	1	2	1	1	0	1	4	2	3	2	5	0	3	2	5	0	3	3	rs145043273		TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr17:47241497C>T	uc002ion.2	+	8	1053	c.994C>T	c.(994-996)CGC>TGC	p.R332C	B4GALNT2_uc010wlt.1_Missense_Mutation_p.R246C|B4GALNT2_uc010wlu.1_Missense_Mutation_p.R272C	NM_153446	NP_703147	Q8NHY0	B4GN2_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 2	332	Lumenal (Potential).				lipid glycosylation|negative regulation of cell-cell adhesion|UDP-N-acetylgalactosamine metabolic process	integral to Golgi membrane	acetylgalactosaminyltransferase activity			large_intestine(1)|ovary(1)	2			all cancers(6;0.000316)			GACTTTCCTCCGCCCCCACAA	0.502													19	197					0	0	0.043863	0	0		T	47241497	T	T	47241497	3	4	38	1	0	0	0	0	1	0	0	0	1268	652	23	1	1042	1	B4GALNT2	17	47241497	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	4786386	47241497	33953713	96	33391											
MPO	4353	broad.mit.edu	37	chr17	56356886	56356886	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccccagccagccgcacctGttgttgcacatcccggtgat	7	8	9	17	2	0	1	0	1	0	0	1	1	1	1	6	1	3	4	6	1	0	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr17:56356886G>C	uc002ivu.1	-	4	723	c.546C>G	c.(544-546)AAC>AAG	p.N182K		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	182					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	AGCCGCACCTGTTGTTGCACA	0.652													3	31					0	0	0.115264	0	0		C	56356886	C	C	56356886	3	2	38	1	0	0	0	0	1	0	0	0	9750	1368	48	5	1727	5	MPO	17	56356886	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	9115389	56356886	24838324	97	33392											
MGAT5B	146664	broad.mit.edu	37	chr17	74928759	74928759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaactccttcatgggcttcGtgtccgaggagctcaacgag	9	9	11	12	3	2	0	2	0	0	0	5	3	4	1	2	2	3	2	2	2	2	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr17:74928759G>A	uc002jti.2	+	10	1460	c.1357G>A	c.(1357-1359)GTG>ATG	p.V453M	MGAT5B_uc002jth.2_Missense_Mutation_p.V442M	NM_198955	NP_945193	Q3V5L5	MGT5B_HUMAN	N-acetylglucosaminyltranferase VB isoform 2	442	Lumenal (Potential).					Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						CATGGGCTTCGTGTCCGAGGA	0.617													7	103					0	0	0.058154	0	0		A	74928759	A	A	74928759	3	1	38	1	0	0	0	0	1	0	0	0	9567	1145	40	1	1467	1	MGAT5B	17	74928759	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	18571873	74928759	6266451	98	33393											
MC5R	4161	broad.mit.edu	37	chr18	13826438	13826438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatcgcggctctgcccggggCcagctctgcgcggcagagga	5	5	17	14	5	2	1	0	0	2	1	3	3	2	2	2	5	3	3	2	5	0	0			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr18:13826438C>T	uc010xaf.1	+	1	674	c.674C>T	c.(673-675)GCC>GTC	p.A225V		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	225	Cytoplasmic (Potential).			ALPGASSARQRTSM -> LCPGPALRGRGPAW (in Ref. 1).	G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6						CTGCCCGGGGCCAGCTCTGCG	0.622													19	243					0	0	0.038395	0	0		T	13826438	T	T	13826438	3	4	38	1	0	0	0	0	1	0	0	0	9385	739	26	2	676	2	MC5R	18	13826438	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08		13826438	64250810	99	33394											
ZNF521	25925	broad.mit.edu	37	chr18	22805350	22805350	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgctcggaagctccattTgttccacagttgggtgtctt	6	15	10	10	1	1	0	0	0	1	0	4	1	3	1	2	2	2	4	2	2	1	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr18:22805350T>G	uc002kvk.2	-	4	2779	c.2532A>C	c.(2530-2532)ACA>ACC	p.T844T	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.T844T|ZNF521_uc002kvl.2_Silent_p.T624T	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	844					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					AAGCTCCATTTGTTCCACAGT	0.478			T	PAX5	ALL								10	162					0	0	0.069234	0	0		G	22805350	G	G	22805350	2	3	38	1	0	0	0	0	0	0	0	1	17990	1799	63	5		5	ZNF521	18	22805350	Silent	SNP	T	TCGA-BR-6705-01A-12D-1882-08	8978912	22805350	55271898	100	33395											
PIK3C3	5289	broad.mit.edu	37	chr18	39618752	39618752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttgattaaaagctgttacGgaaagaaaatctggacttga	15	13	9	4	1	1	3	0	2	1	1	1	5	1	5	0	2	2	2	0	2	6	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr18:39618752G>A	uc002lap.2	+	18	2034	c.1976G>A	c.(1975-1977)CGG>CAG	p.R659Q	PIK3C3_uc010xcl.1_Missense_Mutation_p.R596Q|PIK3C3_uc002laq.2_Missense_Mutation_p.R144Q|PIK3C3_uc002lar.1_Missense_Mutation_p.R43Q	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	659	PI3K/PI4K.				cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						AAGCTGTTACGGAAAGAAAAT	0.289										TSP Lung(28;0.18)			6	58					0	0	0.021553	0	0		A	39618752	A	A	39618752	3	1	38	1	0	0	0	0	1	0	0	0	11931	1116	39	1	2046	1	PIK3C3	18	39618752	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	16813402	39618752	38458496	101	33396											
ANKRD24	170961	broad.mit.edu	37	chr19	4219595	4219595	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgggccacaggtgcagcGtgaggccctgttcatgaaga	8	8	15	10	1	1	3	1	2	0	1	1	3	1	3	2	3	2	3	2	3	1	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr19:4219595G>A	uc010dtt.1	+	19	3287	c.3011G>A	c.(3010-3012)CGT>CAT	p.R1004H		NM_133475	NP_597732	Q8TF21	ANR24_HUMAN	ankyrin repeat domain 24	1004	Potential.										0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)		CAGGTGCAGCGTGAGGCCCTG	0.557													7	96					0	0	0.02938	0	0		A	4219595	A	A	4219595	3	1	38	1	0	0	0	0	1	0	0	0	653	1145	40	1	3081	1	ANKRD24	19	4219595	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08		4219595	54909388	102	33397											
MUC16	94025	broad.mit.edu	37	chr19	9056390	9056390	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatggggtagctgaagaggaAgttatctcatggagggctgg	10	10	17	4	0	1	2	1	1	1	1	2	4	1	4	0	6	1	4	0	6	5	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr19:9056390A>T	uc002mkp.2	-	3	31260	c.31056T>A	c.(31054-31056)ACT>ACA	p.T10352T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10354	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGAAGAGGAAGTTATCTCAT	0.498													7	97					0	0	0.02938	0	0		T	9056390	T	T	9056390	2	4	38	1	0	0	0	0	0	0	0	1	9991	59	3	5		5	MUC16	19	9056390	Silent	SNP	A	TCGA-BR-6705-01A-12D-1882-08	4836795	9056390	50072593	103	33398											
MUC16	94025	broad.mit.edu	37	chr19	9064152	9064152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtttgtggaaggatgcacgGcttctgtatgtgcagtgtct	6	15	14	6	1	2	0	0	0	2	0	2	2	2	2	0	3	2	5	0	3	2	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr19:9064152G>A	uc002mkp.2	-	3	23498	c.23294C>T	c.(23293-23295)GCC>GTC	p.A7765V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7767	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGGATGCACGGCTTCTGTATG	0.488													10	425					0	0	0.09319	0	0		A	9064152	A	A	9064152	3	1	38	1	0	0	0	0	1	0	0	0	9991	1203	42	2	20557	2	MUC16	19	9064152	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	7762	9064152	50064831	104	33399											
IL12RB1	3594	broad.mit.edu	37	chr19	18183067	18183067	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggccttggccttacaCgggcaggacagcatgtggag	7	8	16	10	1	0	0	0	0	0	0	0	2	0	2	2	6	2	2	2	6	1	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr19:18183067C>T	uc002nhw.1	-	9	940	c.876G>A	c.(874-876)CCG>CCA	p.P292P	IL12RB1_uc010xqb.1_Silent_p.P292P|IL12RB1_uc002nhx.1_Silent_p.P332P|IL12RB1_uc002nhy.2_Silent_p.P292P	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1	292	Extracellular (Potential).|Fibronectin type-III 3.				cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1						TGGCCTTACACGGGCAGGACA	0.607													15	38					0	0	0.132662	0	0		T	18183067	T	T	18183067	2	4	38	1	0	0	0	0	0	0	0	1	7642	523	19	1		1	IL12RB1	19	18183067	Silent	SNP	C	TCGA-BR-6705-01A-12D-1882-08	9118915	18183067	40945916	105	33400											
COMP	1311	broad.mit.edu	37	chr19	18898331	18898331	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcgtcgtcgcacgcatcGccccggccgtcctggtctgt	3	10	12	16	7	1	0	0	0	1	0	6	0	2	0	4	2	0	2	4	2	0	0			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr19:18898331G>A	uc002nke.2	-	10	1140	c.1104C>T	c.(1102-1104)GGC>GGT	p.G368G	COMP_uc002nkd.2_Silent_p.G335G|COMP_uc010xqj.1_Silent_p.G315G	NM_000095	NP_000086	P49747	COMP_HUMAN	cartilage oligomeric matrix protein precursor	368	Cell attachment site (Potential).|TSP type-3 4.		Missing (in EDM1).		anti-apoptosis|apoptosis|cell adhesion|limb development	extracellular space|proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent|heparan sulfate proteoglycan binding|heparin binding				0						CGCACGCATCGCCCCGGCCGT	0.687													8	152					0	0	0.069234	0	0		A	18898331	A	A	18898331	2	1	38	1	0	0	0	0	0	0	0	1	3727	1074	38	1		1	COMP	19	18898331	Silent	SNP	G	TCGA-BR-6705-01A-12D-1882-08	715264	18898331	40230652	106	33401											
TSHZ3	57616	broad.mit.edu	37	chr19	31767522	31767522	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcccgtgtgttttgctaagGtgaagtttaacagcgtgctt	7	16	11	7	2	0	1	0	1	0	0	1	1	1	1	1	1	4	4	1	1	3	7			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr19:31767522G>A	uc002nsy.3	-	2	3242	c.3177C>T	c.(3175-3177)CAC>CAT	p.H1059H		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	1059	C2H2-type 5.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TTTTGCTAAGGTGAAGTTTAA	0.468													7	91					0	0	0.038147	0	0		A	31767522	A	A	31767522	2	1	38	1	0	0	0	0	0	0	0	1	16651	1252	44	4		4	TSHZ3	19	31767522	Silent	SNP	G	TCGA-BR-6705-01A-12D-1882-08	12869191	31767522	27361461	107	33402											
ZNF540	163255	broad.mit.edu	37	chr19	38103644	38103644	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattagtctacataagaaaaTtcatactgatgtgaagccct	16	12	6	7	0	2	3	1	2	1	1	2	3	2	3	1	0	3	0	1	0	8	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr19:38103644T>G	uc002ogq.2	+	5	1795	c.1463T>G	c.(1462-1464)ATT>AGT	p.I488S	ZNF540_uc002ogu.2_Missense_Mutation_p.I488S|ZNF540_uc010efq.2_Missense_Mutation_p.I456S	NM_152606	NP_689819	Q8NDQ6	ZN540_HUMAN	zinc finger protein 540	488	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CATAAGAAAATTCATACTGAT	0.403													10	91					0	0	0.069234	0	0		G	38103644	G	G	38103644	3	3	38	1	0	0	0	0	1	0	0	0	18000	1493	52	5	1477	5	ZNF540	19	38103644	Missense_Mutation	SNP	T	TCGA-BR-6705-01A-12D-1882-08	6336122	38103644	21025339	108	33403											
ZNF543	125919	broad.mit.edu	37	chr19	57839487	57839487	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctccttgttcagcatgaacgGattcacactcaagtgaagcc	11	10	8	12	1	3	2	3	2	0	0	4	3	4	3	2	1	3	2	2	1	3	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr19:57839487G>C	uc002qoi.1	+	4	1002	c.657G>C	c.(655-657)CGG>CGC	p.R219R		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	219	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		AGCATGAACGGATTCACACTC	0.443													5	77					0	0	0.021553	0	0		C	57839487	C	C	57839487	2	2	38	1	0	0	0	0	0	0	0	1	18001	1161	41	5		5	ZNF543	19	57839487	Silent	SNP	G	TCGA-BR-6705-01A-12D-1882-08	19735843	57839487	1289496	109	33404											
ZNF256	10172	broad.mit.edu	37	chr19	58452476	58452476	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcctttctccggtatgaactCttcggtgtttaacgaggcta	7	14	10	10	3	2	1	0	1	2	0	4	2	2	1	2	3	2	3	2	3	4	6			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr19:58452476C>G	uc002qqu.2	-	3	1935	c.1700G>C	c.(1699-1701)AGA>ACA	p.R567T	ZNF256_uc010euj.2_Missense_Mutation_p.R414T	NM_005773	NP_005764	Q9Y2P7	ZN256_HUMAN	zinc finger protein 256	567	C2H2-type 13.				multicellular organismal development|negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0155)		GGTATGAACTCTTCGGTGTTT	0.453													7	71					0	0	0.02938	0	0		G	58452476	G	G	58452476	3	3	38	1	0	0	0	0	1	0	0	0	17824	913	32	5	187	5	ZNF256	19	58452476	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	612989	58452476	676507	110	33405											
SLC27A5	10998	broad.mit.edu	37	chr19	59010878	59010878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggaaggtgtccccgaggcGgtcgcggaagtagaggaagc	9	4	18	10	5	0	1	0	0	0	1	2	5	1	4	3	6	1	1	3	6	4	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr19:59010878G>A	uc002qtc.2	-	7	1758	c.1648C>T	c.(1648-1650)CGC>TGC	p.R550C	SLC27A5_uc002qtb.2_5'Flank	NM_012254	NP_036386	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid	550	Cytoplasmic (Probable).				bile acid and bile salt transport|bile acid biosynthetic process|very long-chain fatty acid metabolic process	endoplasmic reticulum membrane|integral to membrane	ATP binding|cholate-CoA ligase activity|long-chain fatty acid-CoA ligase activity				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.181)		TCCCCGAGGCGGTCGCGGAAG	0.657													5	85					0	0	0.021553	0	0		A	59010878	A	A	59010878	3	1	38	1	0	0	0	0	1	0	0	0	14554	1116	39	1	440	1	SLC27A5	19	59010878	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	558402	59010878	118105	111	33406											
RASSF2	9770	broad.mit.edu	37	chr20	4771182	4771182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcctcacattgccacggCgacgcaccccaacatcactg	9	6	8	18	4	2	0	2	0	0	0	3	1	3	0	4	1	2	1	4	1	1	1	rs145831009	byFrequency	TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr20:4771182C>T	uc002wld.2	-	6	506	c.452G>A	c.(451-453)CGC>CAC	p.R151H	RASSF2_uc002wlc.2_RNA|RASSF2_uc002wle.2_RNA|RASSF2_uc002wlf.2_Missense_Mutation_p.R151H	NM_170774	NP_739580	P50749	RASF2_HUMAN	Ras association domain family 2	151					cell cycle|signal transduction	nucleus	protein binding			ovary(3)|lung(2)|large_intestine(1)	6						ATTGCCACGGCGACGCACCCC	0.592													6	41					0	0	0.021553	0	0		T	4771182	T	T	4771182	3	4	38	1	0	0	0	0	1	0	0	0	13111	768	27	1	552	1	RASSF2	20	4771182	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08		4771182	58254338	112	33407											
ACSS1	84532	broad.mit.edu	37	chr20	25004206	25004206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttcacagcctcatccaCtattttcttcagctccacca	8	13	4	16	0	4	0	3	0	1	0	6	0	6	0	4	0	3	2	4	0	1	5			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr20:25004206C>T	uc002wub.2	-	4	1581	c.703G>A	c.(703-705)GTG>ATG	p.V235M	ACSS1_uc002wuc.2_Missense_Mutation_p.V235M|ACSS1_uc010gdc.2_Intron|ACSS1_uc002wud.1_5'Flank|ACSS1_uc002wua.2_Missense_Mutation_p.V152M	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	235					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GCCTCATCCACTATTTTCTTC	0.557													5	37					0	0	0.02938	0	0		T	25004206	T	T	25004206	3	4	38	1	0	0	0	0	1	0	0	0	188	565	20	4	1410	4	ACSS1	20	25004206	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	20233024	25004206	38021314	113	33408											
PKIG	11142	broad.mit.edu	37	chr20	43243200	43243200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggagcgatgcgacaggcatGatggaggtcgagtcctccta	10	7	15	9	3	0	1	0	1	0	0	3	6	2	3	2	4	2	1	2	4	1	1			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr20:43243200G>A	uc002xmg.2	+	5	532	c.3G>A	c.(1-3)ATG>ATA	p.M1I	PKIG_uc002xmh.2_Missense_Mutation_p.M1I|PKIG_uc002xmi.2_Missense_Mutation_p.M1I	NM_181805	NP_861521	Q9Y2B9	IPKG_HUMAN	cAMP-dependent protein kinase inhibitor gamma	1							cAMP-dependent protein kinase inhibitor activity|protein binding				0		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.001)|COAD - Colon adenocarcinoma(18;0.00189)			CGACAGGCATGATGGAGGTCG	0.607													4	82					0	0	0.021553	0	0		A	43243200	A	A	43243200	3	1	38	1	0	0	0	0	1	0	0	0	11994	1290	45	4	5	4	PKIG	20	43243200	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08	18238994	43243200	19782320	114	33409											
KRTAP13-3	337960	broad.mit.edu	37	chr21	31797958	31797958	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaacatgcatagtcaggcaAgaattgcagagcatgtgagt	14	8	11	8	0	1	3	1	1	0	2	1	3	1	3	1	1	4	4	1	1	4	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr21:31797958A>G	uc002yob.1	-	1	273	c.273T>C	c.(271-273)TCT>TCC	p.S91S		NM_181622	NP_853653	Q3SY46	KR133_HUMAN	keratin associated protein 13-3	91	5 X 10 AA approximate repeats.					intermediate filament				ovary(1)|lung(1)	2						TAGTCAGGCAAGAATTGCAGA	0.567													8	58					0	0	0.038147	0	0		G	31797958	G	G	31797958	2	3	38	1	0	0	0	0	0	0	0	1	8540	59	3	3		3	KRTAP13-3	21	31797958	Silent	SNP	A	TCGA-BR-6705-01A-12D-1882-08		31797958	16331937	115	33410											
ETS2	2114	broad.mit.edu	37	chr21	40186841	40186841	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccttggcaaggaacgcttTctggagctggcacctgactt	9	10	11	11	1	1	1	0	1	1	0	1	3	1	3	2	4	3	4	2	4	3	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr21:40186841T>A	uc002yxg.2	+	5	637	c.441T>A	c.(439-441)TTT>TTA	p.F147L	ETS2_uc002yxf.2_Missense_Mutation_p.F287L	NM_005239	NP_005230	P15036	ETS2_HUMAN	v-ets erythroblastosis virus E26 oncogene	147	PNT.				positive regulation of transcription, DNA-dependent|skeletal system development	nucleus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|breast(1)|pancreas(1)	4		Prostate(19;6.33e-08)|all_epithelial(19;0.123)				AGGAACGCTTTCTGGAGCTGG	0.512													28	205					0	0	0.144211	0	0		A	40186841	A	A	40186841	3	1	38	1	0	0	0	0	1	0	0	0	5284	1780	62	5	455	5	ETS2	21	40186841	Missense_Mutation	SNP	T	TCGA-BR-6705-01A-12D-1882-08	8388883	40186841	7943054	116	33411											
GAB4	128954	broad.mit.edu	37	chr22	17472913	17472913	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaatctccttcttgttgaAgttcagagtcacatcaacat	11	14	6	10	0	5	3	3	2	2	1	6	3	5	3	1	0	1	2	1	0	3	4			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr22:17472913A>C	uc002zlw.2	-	2	436	c.328T>G	c.(328-330)TTC>GTC	p.F110V	GAB4_uc010gqs.1_Missense_Mutation_p.F110V	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	110	PH.									large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				TTCTTGTTGAAGTTCAGAGTC	0.478													35	300					0	0	0.059317	0	0		C	17472913	C	C	17472913	3	2	38	1	0	0	0	0	1	0	0	0	6165	72	3	5	1432	5	GAB4	22	17472913	Missense_Mutation	SNP	A	TCGA-BR-6705-01A-12D-1882-08		17472913	33831653	117	33412											
PLA2G3	50487	broad.mit.edu	37	chr22	31533854	31533854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgaaggtgctgcttctgtCgaggcttgggaggggctggg	4	10	19	8	2	1	0	0	0	1	0	3	3	2	1	1	6	2	4	1	6	1	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr22:31533854C>T	uc003aka.2	-	4	1037	c.908G>A	c.(907-909)CGA>CAA	p.R303Q		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	303					cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						CTGCTTCTGTCGAGGCTTGGG	0.657													11	194					0	0	0.132662	0	0		T	31533854	T	T	31533854	3	4	38	1	0	0	0	0	1	0	0	0	12019	884	31	1	637	1	PLA2G3	22	31533854	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	14060941	31533854	19770712	118	33413											
TRIOBP	11078	broad.mit.edu	37	chr22	38120424	38120424	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcccaatagagccacaCgagataaccccagaacatcc	14	5	5	17	1	1	3	0	0	1	3	3	4	2	3	6	0	3	0	6	0	4	2			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chr22:38120424C>T	uc003atr.2	+	7	2132	c.1861C>T	c.(1861-1863)CGA>TGA	p.R621*	TRIOBP_uc003atu.2_Nonsense_Mutation_p.R449*|TRIOBP_uc003atq.1_Nonsense_Mutation_p.R621*|TRIOBP_uc003ats.1_Nonsense_Mutation_p.R449*	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	621					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					TAGAGCCACACGAGATAACCC	0.582													9	121					0	0	0.047766	0	0		T	38120424	T	T	38120424	4	4	38	1	0	0	0	0	0	1	0	0	16579	528	19	1	1879	1	TRIOBP	22	38120424	Nonsense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	6586570	38120424	13184142	119	33414											
MID1	4281	broad.mit.edu	37	chrX	10450560	10450560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtctgtaggaaacgcgcatGatcattctccttcagagagt	11	11	10	9	2	4	2	2	1	2	1	5	4	4	3	1	1	1	2	1	1	2	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chrX:10450560G>A	uc004cte.3	-	5	1164	c.973C>T	c.(973-975)CAT>TAT	p.H325Y	MID1_uc004ctd.3_Missense_Mutation_p.H36Y|MID1_uc004ctg.3_Missense_Mutation_p.H325Y|MID1_uc004cth.3_Missense_Mutation_p.H287Y|MID1_uc004ctk.3_Missense_Mutation_p.H325Y|MID1_uc004cti.3_Missense_Mutation_p.H325Y|MID1_uc004ctj.3_Missense_Mutation_p.H325Y|MID1_uc011mie.1_RNA|MID1_uc004ctm.1_Missense_Mutation_p.H376Y|MID1_uc004ctn.1_Missense_Mutation_p.H325Y|MID1_uc004cto.1_Missense_Mutation_p.H287Y|MID1_uc010ndw.1_Missense_Mutation_p.H36Y|MID1_uc004cts.1_Missense_Mutation_p.H92Y|MID1_uc004ctt.2_Missense_Mutation_p.H376Y|MID1_uc004ctu.2_Missense_Mutation_p.H325Y|MID1_uc004ctv.2_Missense_Mutation_p.H338Y|MID1_uc004ctw.2_Missense_Mutation_p.H287Y|MID1_uc010ndy.1_Missense_Mutation_p.H289Y|MID1_uc004ctc.3_Missense_Mutation_p.H92Y|MID1_uc004ctp.1_Intron|MID1_uc004ctq.1_Missense_Mutation_p.H92Y|MID1_uc004ctr.1_Missense_Mutation_p.H92Y|MID1_uc010ndu.1_Missense_Mutation_p.H92Y|MID1_uc010ndv.1_Missense_Mutation_p.H36Y|MID1_uc010ndx.1_RNA	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1	325	COS.				microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3						AAACGCGCATGATCATTCTCC	0.527													9	162					0	0	0.058154	0	0		A	10450560	A	A	10450560	3	1	38	1	0	0	0	0	1	0	0	0	9594	1290	45	4	1054	4	MID1	23	10450560	Missense_Mutation	SNP	G	TCGA-BR-6705-01A-12D-1882-08		10450560	144820000	120	33415											
FAM48B2	170067	broad.mit.edu	37	chrX	24330059	24330059	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgcggggaggtggatgtttCtctcccttcccggatactga	5	12	14	10	2	1	1	0	1	1	0	4	4	3	4	2	5	2	1	2	5	1	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chrX:24330059C>G	uc011mjw.1	-	1	1374	c.1374G>C	c.(1372-1374)GAG>GAC	p.E458D		NM_001136233	NP_001129705	P0C7V6	F48B2_HUMAN	family with sequence similarity 48, member B2	458											0						GTGGATGTTTCTCTCCCTTCC	0.552													4	25					0	0	0.009096	0	0		G	24330059	G	G	24330059	3	3	38	1	0	0	0	0	1	0	0	0	5588	912	32	5	1082	5	FAM48B2	23	24330059	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	13879499	24330059	130940501	121	33416											
NAP1L3	4675	broad.mit.edu	37	chrX	92928030	92928030	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccacgaaatttgttcccaAcggggcccgccgcgcccttc	7	8	9	17	5	0	0	0	0	0	0	3	1	2	0	5	2	1	1	5	2	2	3			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chrX:92928030A>G	uc004efq.2	-	1	579	c.274T>C	c.(274-276)TTG>CTG	p.L92L	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	92					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						TTTGTTCCCAACGGGGCCCGC	0.398													6	30					0	0	0.021553	0	0		G	92928030	G	G	92928030	2	3	38	1	0	0	0	0	0	0	0	1	10176	40	2	3		3	NAP1L3	23	92928030	Silent	SNP	A	TCGA-BR-6705-01A-12D-1882-08	68597971	92928030	62342530	122	33417											
KLHL13	90293	broad.mit.edu	37	chrX	117033040	117033040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcactatctctaccatacaaCgattattccaagaatacccc	14	10	3	14	1	1	1	0	0	1	1	3	2	2	1	4	0	4	1	4	0	8	6			TCGA-BR-6705-01A-12D-1882-08	TCGA-BR-6705-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	02c5e07a-0986-4860-b192-0cf8d4fce7ce	ba6c6e1c-d481-4e30-a777-a943c3566d4b	g.chrX:117033040C>T	uc004eql.2	-	7	1861	c.1799G>A	c.(1798-1800)CGT>CAT	p.R600H	KLHL13_uc004eqk.2_Missense_Mutation_p.R549H|KLHL13_uc011mtn.1_Missense_Mutation_p.R440H|KLHL13_uc011mto.1_Missense_Mutation_p.R594H|KLHL13_uc011mtp.1_Missense_Mutation_p.R602H|KLHL13_uc004eqm.2_Missense_Mutation_p.R549H|KLHL13_uc011mtq.1_Missense_Mutation_p.R584H	NM_033495	NP_277030	Q9P2N7	KLH13_HUMAN	kelch-like 13	600	Kelch 6.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex				kidney(1)|skin(1)	2						TACCATACAACGATTATTCCA	0.438													17	166					0	0	0.0333	0	0		T	117033040	T	T	117033040	3	4	38	1	0	0	0	0	1	0	0	0	8385	536	19	1	172	1	KLHL13	23	117033040	Missense_Mutation	SNP	C	TCGA-BR-6705-01A-12D-1882-08	24105010	117033040	38237520	123	33418											
MEGF6	1953	broad.mit.edu	37	chr1	3427384	3427384	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggcactgagccggtagccGgcgtagcagccgcactcgta	7	6	14	14	6	0	1	0	1	0	0	2	1	0	1	3	3	4	6	3	3	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:3427384G>A	uc001akl.2	-	10	1424	c.1197C>T	c.(1195-1197)GCC>GCT	p.A399A	MEGF6_uc001akk.2_Silent_p.A294A	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	399	EGF-like 7.					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		GCCGGTAGCCGGCGTAGCAGC	0.672													5	55					0	0	0.000602	0	0		A	3427384	A	A	3427384	2	1	39	1	0	0	0	0	0	0	0	1	9480	1103	39	1		1	MEGF6	1	3427384	Silent	SNP	G	TCGA-BR-6706-01A-11D-1882-08		3427384	245823237	1	33419											
PER3	8863	broad.mit.edu	37	chr1	7886602	7886602	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagccagcccctttgaccTcggaagaatttaaacacgtg	11	9	9	12	2	0	2	0	1	0	1	1	3	0	3	4	1	4	1	4	1	4	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:7886602T>C	uc001aoo.2	+	16	2171	c.1996T>C	c.(1996-1998)TCG>CCG	p.S666P	PER3_uc009vmg.1_Missense_Mutation_p.S674P|PER3_uc009vmh.1_Missense_Mutation_p.S667P|PER3_uc001aop.2_Missense_Mutation_p.S674P|PER3_uc010nzw.1_Missense_Mutation_p.S355P	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	666	CSNK1E binding domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		CCCTTTGACCTCGGAAGAATT	0.478													3	35					0	0	0.009096	0	0		C	7886602	C	C	7886602	3	2	39	1	0	0	0	0	1	0	0	0	11750	1551	54	3	2058	3	PER3	1	7886602	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	4459218	7886602	241364019	2	33420											
PRAMEF1	65121	broad.mit.edu	37	chr1	12855688	12855688	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaagcctcggttacctaaAgcatctgaatctcagctacg	11	9	7	14	2	2	1	1	1	2	0	4	1	2	1	3	1	5	3	3	1	6	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:12855688A>C	uc001auj.1	+	4	1071	c.968A>C	c.(967-969)AAG>ACG	p.K323T		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	323	LRR 1.										0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GGTTACCTAAAGCATCTGAAT	0.493													33	252					0	0	0.003214	0	0		C	12855688	C	C	12855688	3	2	39	1	0	0	0	0	1	0	0	0	12447	72	3	5	978	5	PRAMEF1	1	12855688	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	4969086	12855688	236394933	3	33421											
DLGAP3	58512	broad.mit.edu	37	chr1	35369893	35369893	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcacctgcagatagtgataAgtcctggctttggccttggt	7	13	11	10	0	1	2	1	1	0	1	2	2	2	2	3	3	1	2	3	3	2	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:35369893A>G	uc001byc.2	-	1	1092	c.1092T>C	c.(1090-1092)ACT>ACC	p.T364T		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	364					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				GATAGTGATAAGTCCTGGCTT	0.602													17	104					0	0	0.010504	0	0		G	35369893	G	G	35369893	2	3	39	1	0	0	0	0	0	0	0	1	4567	59	3	3		3	DLGAP3	1	35369893	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	22514205	35369893	213880728	4	33422											
MRPS15	64960	broad.mit.edu	37	chr1	36926911	36926911	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcttttcacgacatcatcaAccctgtggataaaccacagc	12	10	6	13	1	4	0	3	0	1	0	4	2	4	1	2	1	3	0	2	1	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:36926911A>G	uc001cas.2	-	4	418	c.254T>C	c.(253-255)GTT>GCT	p.V85A		NM_031280	NP_112570	P82914	RT15_HUMAN	mitochondrial ribosomal protein S15 precursor	85					translation	mitochondrial small ribosomal subunit|nuclear membrane	structural constituent of ribosome			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GACATCATCAACCCTGTGGAT	0.453													6	56					0	0	0.00308	0	0		G	36926911	G	G	36926911	3	3	39	1	0	0	0	0	1	0	0	0	9843	43	2	3	539	3	MRPS15	1	36926911	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	1557018	36926911	212323710	5	33423											
ZNF643	65243	broad.mit.edu	37	chr1	40929053	40929053	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacatctttctatccatcAgagagtccatactggagtaa	14	12	6	9	0	3	1	1	0	2	1	5	3	5	2	2	1	2	1	2	1	5	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:40929053A>G	uc001cfn.1	+	5	1694	c.1397A>G	c.(1396-1398)CAG>CGG	p.Q466R	ZNF643_uc001cfl.1_Missense_Mutation_p.Q364R|ZNF643_uc001cfm.1_Missense_Mutation_p.Q332R	NM_023070	NP_075558	Q9UJL9	ZN643_HUMAN	zinc finger protein 643	466	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;5.25e-18)			TCTATCCATCAGAGAGTCCAT	0.393													5	48					0	0	0.000602	0	0		G	40929053	G	G	40929053	3	3	39	1	0	0	0	0	1	0	0	0	18084	188	7	3	1415	3	ZNF643	1	40929053	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	4002142	40929053	208321568	6	33424											
PGM1	5236	broad.mit.edu	37	chr1	64100648	64100648	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctggtggagaccatgaaGtcaggagagcatgattttgg	11	9	15	6	0	1	4	1	2	0	2	1	7	1	4	2	4	1	1	2	4	1	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:64100648G>A	uc001dbh.2	+	5	1044	c.831G>A	c.(829-831)AAG>AAA	p.K277K	PGM1_uc010ooy.1_Silent_p.K80K|PGM1_uc010ooz.1_Silent_p.K295K	NM_002633	NP_002624	P36871	PGM1_HUMAN	phosphoglucomutase 1	277					cellular calcium ion homeostasis|galactose catabolic process|glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity			ovary(2)|kidney(1)	3						AGACCATGAAGTCAGGAGAGC	0.552													19	211					0	0	0.010504	0	0		A	64100648	A	A	64100648	2	1	39	1	0	0	0	0	0	0	0	1	11816	1020	36	4		4	PGM1	1	64100648	Silent	SNP	G	TCGA-BR-6706-01A-11D-1882-08	23171595	64100648	185149973	7	33425											
WDR63	126820	broad.mit.edu	37	chr1	85551632	85551632	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacagcctacccagataaaaAttttacccttaaacaacttg	16	11	3	11	0	0	1	0	0	0	1	0	1	0	1	3	0	6	0	3	0	9	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:85551632A>C	uc001dkt.2	+	7	850	c.659A>C	c.(658-660)AAT>ACT	p.N220T	WDR63_uc009wcl.2_Missense_Mutation_p.N220T	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	220										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		CCAGATAAAAATTTTACCCTT	0.378													9	71					0	0	0.006214	0	0		C	85551632	C	C	85551632	3	2	39	1	0	0	0	0	1	0	0	0	17340	101	4	5	681	5	WDR63	1	85551632	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	21450984	85551632	163698989	8	33426											
NGF	4803	broad.mit.edu	37	chr1	115828920	115828920	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtttgaatacactgttgTtaatgttcacctctcccaac	10	15	5	11	0	2	1	1	1	1	0	3	1	2	1	2	0	2	4	2	0	4	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:115828920T>G	uc001efu.1	-	3	666	c.497A>C	c.(496-498)AAC>ACC	p.N166T		NM_002506	NP_002497	P01138	NGF_HUMAN	nerve growth factor, beta polypeptide precursor	166					activation of MAPKK activity|activation of phospholipase C activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of cell cycle|nerve growth factor processing|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|Golgi lumen	growth factor activity|nerve growth factor receptor binding			upper_aerodigestive_tract(2)	2	Lung SC(450;0.211)	all_cancers(81;1.07e-06)|all_epithelial(167;4.43e-06)|all_lung(203;2.86e-05)|Lung NSC(69;4.99e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|all cancers(265;0.159)|Epithelial(280;0.179)	Clenbuterol(DB01407)	TACACTGTTGTTAATGTTCAC	0.522													19	147					0	0	0.001882	0	0		G	115828920	G	G	115828920	3	3	39	1	0	0	0	0	1	0	0	0	10414	1725	60	5	232	5	NGF	1	115828920	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	30277288	115828920	133421701	9	33427											
POGZ	23126	broad.mit.edu	37	chr1	151384863	151384863	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaacgcccattcacagatcTtgcacttggctgtaagaaga	13	9	8	11	1	2	3	1	0	1	3	2	3	2	3	1	1	2	3	1	1	3	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:151384863T>G	uc001eyd.1	-	11	1994	c.1688A>C	c.(1687-1689)AAG>ACG	p.K563T	POGZ_uc001eye.1_Missense_Mutation_p.K510T|POGZ_uc010pdb.1_Missense_Mutation_p.K554T|POGZ_uc001eyf.1_Missense_Mutation_p.K510T|POGZ_uc010pdc.1_Missense_Mutation_p.K501T|POGZ_uc009wmv.1_Missense_Mutation_p.K468T|POGZ_uc010pdd.1_Missense_Mutation_p.K54T	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	563	C2H2-type 4.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TTCACAGATCTTGCACTTGGC	0.393													15	103					0	0	0.003163	0	0		G	151384863	G	G	151384863	3	3	39	1	0	0	0	0	1	0	0	0	12205	1609	56	5	2580	5	POGZ	1	151384863	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	35555943	151384863	97865758	10	33428											
TCHH	7062	broad.mit.edu	37	chr1	152080591	152080591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctctcgttcctgacggCggagctgctgttcctcttcg	2	15	10	14	4	3	1	0	1	3	0	8	2	5	2	2	2	2	4	2	2	0	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:152080591C>T	uc001ezp.2	-	2	5102	c.5102G>A	c.(5101-5103)CGC>CAC	p.R1701H	TCHH_uc009wne.1_Missense_Mutation_p.R1701H	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1701	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCCTGACGGCGGAGCTGCTG	0.567													22	199					0	0	0.00333	0	0		T	152080591	T	T	152080591	3	4	39	1	0	0	0	0	1	0	0	0	15725	768	27	1	733	1	TCHH	1	152080591	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	695728	152080591	97170030	11	33429											
SH2D2A	9047	broad.mit.edu	37	chr1	156779580	156779580	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcttcggtcctcagggaaAgtcctgcaggctcaggagtc	8	10	12	11	1	3	0	2	0	1	0	7	2	5	2	2	4	1	2	2	4	1	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:156779580A>G	uc001fqd.2	-	6	727	c.587T>C	c.(586-588)CTT>CCT	p.L196P	SH2D2A_uc001fqc.1_Missense_Mutation_p.L168P|SH2D2A_uc009wsh.2_Missense_Mutation_p.L206P|SH2D2A_uc001fqe.2_Missense_Mutation_p.L178P|SH2D2A_uc010phs.1_Missense_Mutation_p.L196P	NM_003975	NP_003966	Q9NP31	SH22A_HUMAN	SH2 domain protein 2A isoform 2	196	Pro-rich.				angiogenesis|cell differentiation|signal transduction	cytoplasm|soluble fraction	SH3 domain binding|SH3/SH2 adaptor activity				0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CCTCAGGGAAAGTCCTGCAGG	0.557													25	186					0	0	0.004656	0	0		G	156779580	G	G	156779580	3	3	39	1	0	0	0	0	1	0	0	0	14257	72	3	3	594	3	SH2D2A	1	156779580	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	4698989	156779580	92471041	12	33430											
FCRL3	115352	broad.mit.edu	37	chr1	157668201	157668201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaattccacatgcacggcatCactgagggaggatcctcggg	11	7	12	11	2	1	1	1	1	0	0	4	3	3	3	2	4	1	2	2	4	1	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:157668201C>T	uc001frb.2	-	4	563	c.271G>A	c.(271-273)GAT>AAT	p.D91N	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.D91N|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_5'Flank|FCRL3_uc001frc.1_Missense_Mutation_p.D91N	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	91	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					TGCACGGCATCACTGAGGGAG	0.473													13	119					0	0	0.00245	0	0		T	157668201	T	T	157668201	3	4	39	1	0	0	0	0	1	0	0	0	5810	826	29	4	1981	4	FCRL3	1	157668201	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	888621	157668201	91582420	13	33431											
DYRK3	8444	broad.mit.edu	37	chr1	206821103	206821103	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttattggtggtcccaataAtggagggtatgatgatgcag	11	12	14	4	0	0	2	0	2	0	0	1	3	1	3	1	4	1	3	1	4	4	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:206821103A>C	uc001hej.2	+	3	728	c.560A>C	c.(559-561)AAT>ACT	p.N187T	DYRK3_uc001hek.2_Intron|DYRK3_uc001hei.2_Missense_Mutation_p.N167T	NM_003582	NP_003573	O43781	DYRK3_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	187					erythrocyte differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|central_nervous_system(1)	3	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			GGTCCCAATAATGGAGGGTAT	0.398													3	170					0	0	0.009096	0	0		C	206821103	C	C	206821103	3	2	39	1	0	0	0	0	1	0	0	0	4863	101	4	5	591	5	DYRK3	1	206821103	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	49152902	206821103	42429518	14	33432											
GPATCH2	55105	broad.mit.edu	37	chr1	217793304	217793304	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaaattcttgatactggtaGgctctatcactgtccatgtc	9	15	8	9	0	3	1	1	1	2	0	5	1	4	1	1	2	1	3	1	2	5	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:217793304G>A	uc001hlf.1	-	2	690	c.594C>T	c.(592-594)GCC>GCT	p.A198A	GPATCH2_uc001hlg.3_Silent_p.A198A	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	198						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		GATACTGGTAGGCTCTATCAC	0.408													17	185					0	0	0.00499	0	0		A	217793304	A	A	217793304	2	1	39	1	0	0	0	0	0	0	0	1	6606	987	35	4		4	GPATCH2	1	217793304	Silent	SNP	G	TCGA-BR-6706-01A-11D-1882-08	10972201	217793304	31457317	15	33433											
LYST	1130	broad.mit.edu	37	chr1	235918837	235918837	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaagcattctaacaattcTtgagttcctcgatgaagata	14	13	7	7	1	2	4	0	3	2	1	4	5	3	4	1	0	2	2	1	0	5	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:235918837T>G	uc001hxj.2	-	25	7345	c.7170A>C	c.(7168-7170)CAA>CAC	p.Q2390H	LYST_uc009xga.1_5'Flank	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2390					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			CTAACAATTCTTGAGTTCCTC	0.373									Chediak-Higashi_syndrome				4	258					0	0	0.001168	0	0		G	235918837	G	G	235918837	3	3	39	1	0	0	0	0	1	0	0	0	9146	1606	56	5	4351	5	LYST	1	235918837	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	18125533	235918837	13331784	16	33434											
ZP4	57829	broad.mit.edu	37	chr1	238049070	238049070	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatacctttggcaatctgaAgttccagagtgaggggtcca	10	11	11	9	0	2	3	1	2	1	1	4	3	4	3	3	3	1	2	3	3	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:238049070A>C	uc001hym.2	-	7	956	c.956T>G	c.(955-957)CTT>CGT	p.L319R	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	319	ZP.|Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			GGCAATCTGAAGTTCCAGAGT	0.498													6	65					0	0	0.001168	0	0		C	238049070	C	C	238049070	3	2	39	1	0	0	0	0	1	0	0	0	18243	72	3	5	690	5	ZP4	1	238049070	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	2130233	238049070	11201551	17	33435											
OR2L8	391190	broad.mit.edu	37	chr1	248113081	248113081	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgagtgagtcagagaatcTgctctgtgaaaatgtagaaa	15	9	11	6	1	3	4	1	2	2	2	3	6	3	4	0	0	1	2	0	0	5	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr1:248113081T>C	uc001idt.1	+	1	922	c.922T>C	c.(922-924)TGC>CGC	p.C308R	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TCAGAGAATCTGCTCTGTGAA	0.448													9	66					0	0	0.006214	0	0		C	248113081	C	C	248113081	3	2	39	1	0	0	0	0	1	0	0	0	11028	1580	55	3	924	3	OR2L8	1	248113081	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	10064011	248113081	1137540	18	33436											
IL1R2	7850	broad.mit.edu	37	chr2	102625053	102625053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaatgttgcgcttgtacGtgttggtaatgggagtttct	7	15	14	5	2	1	0	0	0	1	0	1	2	1	1	0	2	3	7	0	2	3	6	rs148522700		TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:102625053G>A	uc002tbm.2	+	2	245	c.16G>A	c.(16-18)GTG>ATG	p.V6M	IL1R2_uc002tbn.2_Missense_Mutation_p.V6M|IL1R2_uc002tbo.1_Missense_Mutation_p.V6M	NM_004633	NP_004624	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II precursor	6					immune response	integral to membrane|plasma membrane	interleukin-1, Type II, blocking receptor activity			ovary(1)|breast(1)	2					Anakinra(DB00026)	GCGCTTGTACGTGTTGGTAAT	0.532													27	324					0	0	0.002836	0	0		A	102625053	A	A	102625053	3	1	39	1	0	0	0	0	1	0	0	0	7675	1145	40	1	18	1	IL1R2	2	102625053	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08		102625053	140574320	19	33437											
RGPD4	285190	broad.mit.edu	37	chr2	108477254	108477254	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctttttatgatcaacgAgaatacatagggagaagtgt	15	13	9	4	1	2	3	1	1	1	2	2	5	2	3	0	1	2	0	0	1	7	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:108477254A>G	uc010ywk.1	+	13	1873	c.1791A>G	c.(1789-1791)CGA>CGG	p.R597R	RGPD4_uc002tdu.2_5'UTR|RGPD4_uc010ywl.1_RNA	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	597	TPR 2.				intracellular transport		binding			skin(2)	2						ATGATCAACGAGAATACATAG	0.323													29	241					0	0	0.004289	0	0		G	108477254	G	G	108477254	2	3	39	1	0	0	0	0	0	0	0	1	13313	291	11	3		3	RGPD4	2	108477254	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	5852201	108477254	134722119	20	33438											
EDAR	10913	broad.mit.edu	37	chr2	109513596	109513596	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgaggtggcgccacgtttTcacaacagccttctcagagt	8	9	12	12	3	2	1	2	0	1	1	3	2	2	1	2	3	2	1	2	3	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:109513596T>G	uc002teq.3	-	12	1545	c.1114A>C	c.(1114-1116)AAA>CAA	p.K372Q	EDAR_uc010fjn.2_Missense_Mutation_p.K404Q|EDAR_uc010yws.1_Missense_Mutation_p.K404Q	NM_022336	NP_071731	Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor precursor	372	Death.|Cytoplasmic (Potential).				apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1						CGCCACGTTTTCACAACAGCC	0.572													8	84					0	0	0.006214	0	0		G	109513596	G	G	109513596	3	3	39	1	0	0	0	0	1	0	0	0	4911	1792	62	5	236	5	EDAR	2	109513596	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	1036342	109513596	133685777	21	33439											
DPP10	57628	broad.mit.edu	37	chr2	115200414	115200414	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaccctcaaaaacaatcaAggtaggatctggtttttccc	13	11	6	11	0	4	0	3	0	1	0	5	1	5	1	2	3	2	2	2	3	6	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:115200414A>G	uc002tla.1	+	1	516	c.59A>G	c.(58-60)AAG>AGG	p.K20R		NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	20	Mediates effects on KCND2.|Cytoplasmic (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						AAAACAATCAAGGTAGGATCT	0.483													7	56					0	0	0.004482	0	0		G	115200414	G	G	115200414	3	3	39	1	0	0	0	0	1	0	0	0	4733	86	3	3	61	3	DPP10	2	115200414	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	5686818	115200414	127998959	22	33440											
CCDC93	54520	broad.mit.edu	37	chr2	118698836	118698836	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctagggacttcatcaatcTtgcggtgcaaaattgctatt	10	13	10	8	1	3	0	2	0	1	0	3	1	3	1	0	3	3	3	0	3	5	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:118698836T>C	uc002tlj.2	-	19	1577	c.1451A>G	c.(1450-1452)AAG>AGG	p.K484R	CCDC93_uc010fld.1_Missense_Mutation_p.K484R	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	484										large_intestine(1)|ovary(1)	2						TTCATCAATCTTGCGGTGCAA	0.438													11	103					0	0	0.001368	0	0		C	118698836	C	C	118698836	3	2	39	1	0	0	0	0	1	0	0	0	2875	1609	56	3	468	3	CCDC93	2	118698836	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	3498422	118698836	124500537	23	33441											
MGAT5	4249	broad.mit.edu	37	chr2	135206285	135206285	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgccctcctttgaccctaAgaataagcactgtgtgtttc	8	13	9	11	0	0	2	0	1	0	1	2	2	1	2	3	1	2	2	3	1	3	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:135206285A>C	uc002ttv.1	+	16	2238	c.2093A>C	c.(2092-2094)AAG>ACG	p.K698T	LOC151162_uc002ttw.3_5'Flank	NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	698	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		TTTGACCCTAAGAATAAGCAC	0.562													16	209					0	0	0.010504	0	0		C	135206285	C	C	135206285	3	2	39	1	0	0	0	0	1	0	0	0	9566	72	3	5	2155	5	MGAT5	2	135206285	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	16507449	135206285	107993088	24	33442											
THSD7B	80731	broad.mit.edu	37	chr2	138208477	138208477	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaagttaagcgattggtctAgttgggggtcttgcagttca	8	13	14	6	1	3	0	1	0	2	0	3	1	3	0	0	3	2	5	0	3	3	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:138208477A>G	uc002tva.1	+	14	2929	c.2929A>G	c.(2929-2931)AGT>GGT	p.S977G	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CGATTGGTCTAGTTGGGGGTC	0.393													5	56					0	0	0.001168	0	0		G	138208477	G	G	138208477	3	3	39	1	0	0	0	0	1	0	0	0	15905	420	15	3	2983	3	THSD7B	2	138208477	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	3002192	138208477	104990896	25	33443											
LRP1B	53353	broad.mit.edu	37	chr2	141625218	141625218	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggctgtgcactggttttcTgaatcacactgacattctgc	8	14	9	10	0	3	2	1	2	2	0	3	2	3	2	0	2	2	3	0	2	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:141625218T>G	uc002tvj.1	-	27	5492	c.4520A>C	c.(4519-4521)CAG>CCG	p.Q1507P	LRP1B_uc010fnl.1_Missense_Mutation_p.Q689P	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1507	Extracellular (Potential).|LDL-receptor class B 13.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACTGGTTTTCTGAATCACACT	0.473										TSP Lung(27;0.18)			14	166					0	0	0.00245	0	0		G	141625218	G	G	141625218	3	3	39	1	0	0	0	0	1	0	0	0	8973	1580	55	5	9539	5	LRP1B	2	141625218	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	3416741	141625218	101574155	26	33444											
GCG	2641	broad.mit.edu	37	chr2	163000597	163000597	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctggcggcaagattatcaAgaatggtgttcatctcatca	11	11	9	10	1	4	2	4	0	1	2	5	2	4	2	1	3	0	2	1	3	4	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:163000597A>G	uc002ucc.2	-	5	575	c.476T>C	c.(475-477)CTT>CCT	p.L159P		NM_002054	NP_002045	P01275	GLUC_HUMAN	glucagon preproprotein	159					cell proliferation|cellular response to glucagon stimulus|energy reserve metabolic process|feeding behavior|regulation of insulin secretion	plasma membrane|soluble fraction	hormone activity				0					Exenatide(DB01276)|Phentolamine(DB00692)	AAGATTATCAAGAATGGTGTT	0.398													17	95					0	0	0.00499	0	0		G	163000597	G	G	163000597	3	3	39	1	0	0	0	0	1	0	0	0	6305	72	3	3	74	3	GCG	2	163000597	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	21375379	163000597	80198776	27	33445											
KCNH7	90134	broad.mit.edu	37	chr2	163241356	163241356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caatggaggagatgaaagatGaggatctgctttttttctct	11	14	11	5	0	2	4	0	2	2	2	3	7	2	6	0	3	1	1	0	3	2	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:163241356G>A	uc002uch.1	-	13	3016	c.2804C>T	c.(2803-2805)TCA>TTA	p.S935L		NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	935	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	GATGAAAGATGAGGATCTGCT	0.408													6	182					0	0	0.001168	0	0		A	163241356	A	A	163241356	3	1	39	1	0	0	0	0	1	0	0	0	8053	1294	45	4	802	4	KCNH7	2	163241356	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	240759	163241356	79958017	28	33446											
CSRNP3	80034	broad.mit.edu	37	chr2	166535430	166535430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggccctgtcgctcactccGtagaatattcaatcgcagac	9	10	9	13	3	2	2	2	0	0	2	5	2	3	2	2	1	0	3	2	1	4	3	rs141222366		TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:166535430G>A	uc002udf.2	+	7	1301	c.925G>A	c.(925-927)GTA>ATA	p.V309I	CSRNP3_uc002udg.2_Missense_Mutation_p.V309I	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	309					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						CGCTCACTCCGTAGAATATTC	0.507													13	90					0	0	0.001855	0	0		A	166535430	A	A	166535430	3	1	39	1	0	0	0	0	1	0	0	0	3968	1145	40	1	939	1	CSRNP3	2	166535430	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	3294074	166535430	76663943	29	33447											
XIRP2	129446	broad.mit.edu	37	chr2	168100111	168100111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagaagtataaaatgtttcGaaactcaaccattatatgtt	18	13	5	5	1	1	1	1	0	0	1	2	2	1	1	1	0	2	3	1	0	9	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:168100111G>A	uc002udx.2	+	8	2227	c.2209G>A	c.(2209-2211)GAA>AAA	p.E737K	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E562K|XIRP2_uc010fpq.2_Missense_Mutation_p.E515K|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	562	Xin 6.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAAATGTTTCGAAACTCAACC	0.373													4	46					0	0	0.009096	0	0		A	168100111	A	A	168100111	3	1	39	1	0	0	0	0	1	0	0	0	17456	1059	37	1	2239	1	XIRP2	2	168100111	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	1564681	168100111	75099262	30	33448											
TTN	7273	broad.mit.edu	37	chr2	179425966	179425966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tataattgcacttcagccacCggccatctggtagttctctg	8	13	8	12	1	3	0	1	0	2	0	4	0	3	0	3	2	2	3	3	2	3	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:179425966C>T	uc010zfg.1	-	275	77413	c.77189G>A	c.(77188-77190)CGG>CAG	p.R25730Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R19425Q|TTN_uc010zfi.1_Missense_Mutation_p.R19358Q|TTN_uc010zfj.1_Missense_Mutation_p.R19233Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26657							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTCAGCCACCGGCCATCTGG	0.383													14	86					0	0	0.001855	0	0		T	179425966	T	T	179425966	3	4	39	1	0	0	0	0	1	0	0	0	16761	652	23	1	23234	1	TTN	2	179425966	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	11325855	179425966	63773407	31	33449											
TTN	7273	broad.mit.edu	37	chr2	179445318	179445318	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttccttaagtccgcatcaAgttctccctcaggtggaact	8	13	7	13	1	4	0	2	0	2	0	7	1	6	1	3	2	1	2	3	2	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:179445318A>C	uc010zfg.1	-	266	59308	c.59084T>G	c.(59083-59085)CTT>CGT	p.L19695R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.L13390R|TTN_uc010zfi.1_Missense_Mutation_p.L13323R|TTN_uc010zfj.1_Missense_Mutation_p.L13198R|uc002umv.1_3'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20622							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTCCGCATCAAGTTCTCCCTC	0.393													5	34					0	0	0.001984	0	0		C	179445318	C	C	179445318	3	2	39	1	0	0	0	0	1	0	0	0	16761	72	3	5	41375	5	TTN	2	179445318	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	19352	179445318	63754055	32	33450											
TTN	7273	broad.mit.edu	37	chr2	179452255	179452255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacccacctaatactctgaCatttacgaatacagcctttt	13	13	3	12	1	1	1	0	1	1	0	1	2	1	1	3	0	5	0	3	0	6	8			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:179452255C>T	uc010zfg.1	-	255	56301	c.56077G>A	c.(56077-56079)GTC>ATC	p.V18693I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V12388I|TTN_uc010zfi.1_Missense_Mutation_p.V12321I|TTN_uc010zfj.1_Missense_Mutation_p.V12196I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19620							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATACTCTGACATTTACGAAT	0.398													5	47					0	0	0.000602	0	0		T	179452255	T	T	179452255	3	4	39	1	0	0	0	0	1	0	0	0	16761	478	17	4	44426	4	TTN	2	179452255	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	6937	179452255	63747118	33	33451											
TTN	7273	broad.mit.edu	37	chr2	179458569	179458569	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacctcatcaaaactaacTggtcctactggtggtccagg	10	10	9	12	0	3	0	3	0	0	0	5	0	5	0	3	4	3	0	3	4	4	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:179458569T>C	uc010zfg.1	-	247	50978	c.50754A>G	c.(50752-50754)CCA>CCG	p.P16918P	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.P10613P|TTN_uc010zfi.1_Silent_p.P10546P|TTN_uc010zfj.1_Silent_p.P10421P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17845							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAAAACTAACTGGTCCTACTG	0.373													5	49					0	0	0.001984	0	0		C	179458569	C	C	179458569	2	2	39	1	0	0	0	0	0	0	0	1	16761	1567	55	3		3	TTN	2	179458569	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	6314	179458569	63740804	34	33452											
PLCL1	5334	broad.mit.edu	37	chr2	198950584	198950584	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcctatttttgatgaaacTtttgagttccaagtaaacct	13	16	5	7	0	0	3	0	3	0	0	2	3	2	3	3	0	2	2	3	0	6	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:198950584T>C	uc010fsp.2	+	2	2634	c.2343T>C	c.(2341-2343)ACT>ACC	p.T781T	PLCL1_uc002uuv.3_Silent_p.T702T	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	781	C2.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TTGATGAAACTTTTGAGTTCC	0.388													23	132					0	0	0.002299	0	0		C	198950584	C	C	198950584	2	2	39	1	0	0	0	0	0	0	0	1	12058	1596	56	3		3	PLCL1	2	198950584	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	19492015	198950584	44248789	35	33453											
IKZF2	22807	broad.mit.edu	37	chr2	213878645	213878645	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctcttgttccttacaatcTtccataggaggtactataca	10	14	7	10	0	2	0	0	0	2	0	4	1	4	1	2	3	3	3	2	3	6	8			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr2:213878645T>C	uc002vem.2	-	7	895	c.726A>G	c.(724-726)GAA>GAG	p.E242E	IKZF2_uc010fuu.2_Silent_p.E97E|IKZF2_uc002vej.2_Silent_p.E189E|IKZF2_uc002vek.2_RNA|IKZF2_uc010fuv.2_Intron|IKZF2_uc002vel.2_Silent_p.E163E|IKZF2_uc010fuw.2_Silent_p.E16E|IKZF2_uc010fux.2_Silent_p.E16E|IKZF2_uc010fuy.2_Silent_p.E170E|IKZF2_uc002ven.2_Silent_p.E216E|IKZF2_uc002vei.2_Silent_p.E20E	NM_016260	NP_057344	Q9UKS7	IKZF2_HUMAN	helios isoform 1	242					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		CCTTACAATCTTCCATAGGAG	0.383													13	92					0	0	0.001855	0	0		C	213878645	C	C	213878645	2	2	39	1	0	0	0	0	0	0	0	1	7631	1606	56	3		3	IKZF2	2	213878645	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	14928061	213878645	29320728	36	33454											
CNTN6	27255	broad.mit.edu	37	chr3	1415438	1415438	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgtgggttggcaggctgTtgctacaggtgagtgacaaa	8	12	15	6	0	1	2	0	2	1	0	1	2	1	2	0	4	2	5	0	4	2	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:1415438T>G	uc003boz.2	+	15	2204	c.1937T>G	c.(1936-1938)GTT>GGT	p.V646G	CNTN6_uc011asj.1_Missense_Mutation_p.V574G|CNTN6_uc003bpa.2_Missense_Mutation_p.V646G	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	646	Fibronectin type-III 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TGGCAGGCTGTTGCTACAGGT	0.299													4	98					0	0	0.000602	0	0		G	1415438	G	G	1415438	3	3	39	1	0	0	0	0	1	0	0	0	3648	1725	60	5	1991	5	CNTN6	3	1415438	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08		1415438	196606992	37	33455											
C3orf20	84077	broad.mit.edu	37	chr3	14770025	14770025	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagatccagaactcatccCgagcggctccccaagctaag	12	6	9	14	2	1	2	1	1	0	2	4	4	4	2	4	1	3	2	4	1	3	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:14770025C>T	uc003byy.2	+	12	2174	c.1770C>T	c.(1768-1770)CCC>CCT	p.P590P	C3orf20_uc003byz.2_Silent_p.P468P|C3orf20_uc003bza.2_Silent_p.P468P|C3orf20_uc003bzb.1_Silent_p.P91P	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	590						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						GAACTCATCCCGAGCGGCTCC	0.453													6	81					0	0	0.001984	0	0		T	14770025	T	T	14770025	2	4	39	1	0	0	0	0	0	0	0	1	2216	639	23	1		1	C3orf20	3	14770025	Silent	SNP	C	TCGA-BR-6706-01A-11D-1882-08	13354587	14770025	183252405	38	33456											
EOMES	8320	broad.mit.edu	37	chr3	27759036	27759036	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaactgatgtctagtttgTtggtcccaggttgctggaca	8	13	13	7	0	1	1	0	1	1	0	2	3	2	3	1	4	2	4	1	4	2	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:27759036T>G	uc003cdx.2	-	6	1586	c.1586A>C	c.(1585-1587)AAC>ACC	p.N529T	EOMES_uc003cdy.3_Missense_Mutation_p.N548T|EOMES_uc010hfn.2_3'UTR|EOMES_uc011axc.1_Missense_Mutation_p.N253T	NM_005442	NP_005433	O95936	EOMES_HUMAN	eomesodermin	529					CD8-positive, alpha-beta T cell differentiation involved in immune response|cell differentiation involved in embryonic placenta development|endoderm formation|mesoderm formation|mesodermal to mesenchymal transition involved in gastrulation|positive regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|breast(1)	4						GTCTAGTTTGTTGGTCCCAGG	0.542													7	201					0	0	0.004482	0	0		G	27759036	G	G	27759036	3	3	39	1	0	0	0	0	1	0	0	0	5155	1725	60	5	478	5	EOMES	3	27759036	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	12989011	27759036	170263394	39	33457											
UBA7	7318	broad.mit.edu	37	chr3	49850964	49850964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggatcatgcagagtgaggCtgcccacacccatcagaacc	11	5	12	13	0	2	3	2	1	0	2	2	4	2	4	3	3	3	2	3	3	1	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:49850964C>T	uc003cxr.2	-	2	344	c.173G>A	c.(172-174)AGC>AAC	p.S58N		NM_003335	NP_003326	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7	58	2 approximate repeats.|1-1.				ISG15-protein conjugation|negative regulation of type I interferon production	cytosol	ATP binding|ISG15 activating enzyme activity|ligase activity			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CAGAGTGAGGCTGCCCACACC	0.662													5	82					0	0	0.000602	0	0		T	49850964	T	T	49850964	3	4	39	1	0	0	0	0	1	0	0	0	16859	797	28	2	2957	2	UBA7	3	49850964	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	22091928	49850964	148171466	40	33458											
HYAL2	8692	broad.mit.edu	37	chr3	50355620	50355620	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactggtgaggtgggacccAgcccaggcctcgctggcacc	7	5	15	14	1	0	2	0	1	0	1	1	3	0	3	4	5	1	2	4	5	0	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:50355620A>G	uc003czu.2	-	4	1582	c.1362T>C	c.(1360-1362)GCT>GCC	p.A454A	HYAL2_uc003czx.2_Silent_p.A454A|HYAL2_uc003czv.2_Silent_p.A454A|HYAL2_uc003czw.2_Silent_p.A454A	NM_033158	NP_149348	Q12891	HYAL2_HUMAN	hyaluronoglucosaminidase 2 precursor	454						anchored to membrane|lysosome|plasma membrane	hyalurononglucosaminidase activity|receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)	Hyaluronidase(DB00070)	GGTGGGACCCAGCCCAGGCCT	0.632													4	65					0	0	0.009096	0	0		G	50355620	G	G	50355620	2	3	39	1	0	0	0	0	0	0	0	1	7480	175	7	3		3	HYAL2	3	50355620	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	504656	50355620	147666810	41	33459											
CACNA2D2	9254	broad.mit.edu	37	chr3	50416351	50416351	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgcaggggaggtacctttgTtggcacaggccatccactgc	7	8	14	12	1	0	0	0	0	0	0	1	1	1	1	3	5	2	4	3	5	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:50416351T>A	uc003daq.2	-	13	1372	c.1334A>T	c.(1333-1335)AAC>ATC	p.N445I	CACNA2D2_uc003dap.2_Missense_Mutation_p.N445I	NM_006030	NP_006021	Q9NY47	CA2D2_HUMAN	calcium channel, voltage-dependent, alpha	445	VWFA.|Extracellular (Potential).				energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000365)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)	Gabapentin(DB00996)	GGTACCTTTGTTGGCACAGGC	0.547													11	60					0	0	0.008291	0	0		A	50416351	A	A	50416351	3	1	39	1	0	0	0	0	1	0	0	0	2552	1725	60	5	2232	5	CACNA2D2	3	50416351	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	60731	50416351	147606079	42	33460											
IQCF2	389123	broad.mit.edu	37	chr3	51897136	51897136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtggcggatgacgctgtCgagggtgctggagaagaaac	9	7	18	7	3	0	3	0	1	0	2	1	6	0	4	0	5	2	2	0	5	2	0	rs147180778		TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:51897136C>T	uc003dbt.1	+	3	283	c.245C>T	c.(244-246)TCG>TTG	p.S82L	IQCF1_uc003dbq.3_Intron|IQCF2_uc003dbu.1_RNA	NM_203424	NP_982248	Q8IXL9	IQCF2_HUMAN	IQ motif containing F2	82											0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		ATGACGCTGTCGAGGGTGCTG	0.612													4	82					0	0	0.009096	0	0		T	51897136	T	T	51897136	3	4	39	1	0	0	0	0	1	0	0	0	7824	893	31	1	255	1	IQCF2	3	51897136	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	1480785	51897136	146125294	43	33461											
LRTM1	57408	broad.mit.edu	37	chr3	54958865	54958865	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttatgttgtttgatgacaAatcaagctccctcagctgag	10	13	9	9	0	2	3	2	3	0	0	3	3	3	3	1	0	2	5	1	0	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:54958865A>C	uc003dhl.2	-	2	519	c.385T>G	c.(385-387)TTG>GTG	p.L129V	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	129	LRR 4.|Extracellular (Potential).					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		TTTGATGACAAATCAAGCTCC	0.468													6	89					0	0	0.001984	0	0		C	54958865	C	C	54958865	3	2	39	1	0	0	0	0	1	0	0	0	9062	11	1	5	660	5	LRTM1	3	54958865	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	3061729	54958865	143063565	44	33462											
ERC2	26059	broad.mit.edu	37	chr3	56183149	56183149	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtttcgttccaatgaagcGatttttgtgtcctgttggta	7	18	10	6	2	0	1	0	1	0	0	3	2	2	1	2	1	1	4	2	1	3	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:56183149G>T	uc003dhr.1	-	5	1417	c.1161C>A	c.(1159-1161)ATC>ATA	p.I387I		NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	387	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		CCAATGAAGCGATTTTTGTGT	0.328													5	39					0.000602214	0.000922715	0.000602	1	0		T	56183149	T	T	56183149	2	4	39	1	0	0	0	0	0	0	0	1	5219	1048	37	5		5	ERC2	3	56183149	Silent	SNP	G	TCGA-BR-6706-01A-11D-1882-08	1224284	56183149	141839281	45	33463											
HTR1F	3355	broad.mit.edu	37	chr3	88040704	88040704	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcacagtgagaagtctcAggtctgaattcaagcatgag	14	9	11	7	0	3	3	2	3	2	1	4	4	3	3	0	1	2	2	0	1	4	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:88040704A>C	uc003dqr.2	+	2	963	c.805A>C	c.(805-807)AGG>CGG	p.R269R		NM_000866	NP_000857	P30939	5HT1F_HUMAN	5-hydroxytryptamine (serotonin) receptor 1F	269	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	serotonin binding|serotonin receptor activity			ovary(3)	3	all_cancers(8;0.147)	Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00664)	Eletriptan(DB00216)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Zolmitriptan(DB00315)	GAGAAGTCTCAGGTCTGAATT	0.403													8	65					0	0	0.004482	0	0		C	88040704	C	C	88040704	2	2	39	1	0	0	0	0	0	0	0	1	7456	179	7	5		5	HTR1F	3	88040704	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	31857555	88040704	109981726	46	33464											
ABI3BP	25890	broad.mit.edu	37	chr3	100595361	100595361	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcagacaaattaccttgcTtgatgattgttattgggatt	11	15	10	5	0	0	3	0	2	0	1	0	5	0	4	1	1	3	3	1	1	3	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:100595361T>C	uc003dun.2	-	7	846	c.761A>G	c.(760-762)AAG>AGG	p.K254R	ABI3BP_uc003duo.2_Missense_Mutation_p.K247R|ABI3BP_uc003dup.3_Missense_Mutation_p.K247R	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	254						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						ATTACCTTGCTTGATGATTGT	0.343													9	106					0	0	0.006214	0	0		C	100595361	C	C	100595361	3	2	39	1	0	0	0	0	1	0	0	0	91	1609	56	3	2582	3	ABI3BP	3	100595361	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	12554657	100595361	97427069	47	33465											
XRN1	54464	broad.mit.edu	37	chr3	142048335	142048335	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaacaagggaacaaattcGagaaagttcagttactggtg	15	9	10	7	1	1	1	1	0	0	1	3	3	2	2	1	2	3	2	1	2	6	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:142048335G>A	uc003eus.2	-	37	4409	c.4342C>T	c.(4342-4344)CGA>TGA	p.R1448*	XRN1_uc010huu.2_Nonsense_Mutation_p.R915*|XRN1_uc003eut.2_Nonsense_Mutation_p.R1448*|XRN1_uc003euu.2_Nonsense_Mutation_p.R1449*	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	1448					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						GAACAAATTCGAGAAAGTTCA	0.403													4	25					0	0	0.001984	0	0		A	142048335	A	A	142048335	4	1	39	1	0	0	0	0	0	1	0	0	17485	1066	37	1	802	1	XRN1	3	142048335	Nonsense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	41452974	142048335	55974095	48	33466											
PLOD2	5352	broad.mit.edu	37	chr3	145803056	145803056	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttcatcctgacggcaaaAgtccctaacagtgaaaaaga	15	9	7	10	1	1	3	1	2	0	1	3	3	3	3	2	1	1	1	2	1	5	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:145803056A>G	uc003evs.1	-	11	1638	c.1132T>C	c.(1132-1134)TTT>CTT	p.F378L	PLOD2_uc003evq.1_Missense_Mutation_p.F38L|PLOD2_uc011bnm.1_Missense_Mutation_p.F323L|PLOD2_uc003evr.1_Missense_Mutation_p.F378L	NM_000935	NP_000926	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	378					protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)	TGACGGCAAAAGTCCCTAACA	0.294													3	43					0	0	0.004672	0	0		G	145803056	G	G	145803056	3	3	39	1	0	0	0	0	1	0	0	0	12121	72	3	3	1184	3	PLOD2	3	145803056	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	3754721	145803056	52219374	49	33467											
GPR87	53836	broad.mit.edu	37	chr3	151012123	151012123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatccaggcaaacattacacGcagacaagaaaagtgtaatt	18	7	8	8	1	0	2	0	0	0	2	1	3	1	2	1	1	2	3	1	1	6	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:151012123G>A	uc003eyt.2	-	3	1272	c.911C>T	c.(910-912)GCG>GTG	p.A304V	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_023915	NP_076404	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	304	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AACATTACACGCAGACAAGAA	0.338													21	119					0	0	0.00278	0	0		A	151012123	A	A	151012123	3	1	39	1	0	0	0	0	1	0	0	0	6731	1087	38	1	169	1	GPR87	3	151012123	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	5209067	151012123	47010307	50	33468											
PIK3CA	5290	broad.mit.edu	37	chr3	178928079	178928079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggccagtacctcatggattaGaagatttgctgaaccctatt	11	12	9	9	0	1	3	1	1	0	2	1	4	1	4	3	2	3	2	3	2	5	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:178928079G>A	uc003fjk.2	+	8	1514	c.1357G>A	c.(1357-1359)GAA>AAA	p.E453K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	453	C2 PI3K-type.		E -> Q (in cancer; shows an increase in lipid kinase activity; may disrupt the interaction of the C2 PI3K-type domain with the iSH2 region of the p85 regulatory subunit).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E453K(5)|p.E453Q(1)|p.E453A(1)|p.P449_L455del(1)|p.G451_L456>V(1)|p.E453del(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCATGGATTAGAAGATTTGCT	0.348		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			15	113					0	0	0.00499	0	0		A	178928079	A	A	178928079	3	1	39	1	0	0	0	0	1	0	0	0	11932	943	33	4	1383	4	PIK3CA	3	178928079	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	27915956	178928079	19094351	51	33469											
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003		TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			6	89					0	0	0.001984	0	0		A	178936091	A	A	178936091	3	1	39	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1667	4	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	8012	178936091	19086339	52	33470											
CCDC39	339829	broad.mit.edu	37	chr3	180372680	180372680	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatctcactttccaaaaacTtgatcttttctttaaccaaa	14	15	1	11	0	3	1	1	1	3	0	5	1	4	1	2	0	2	0	2	0	5	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:180372680T>C	uc010hxe.2	-	7	915	c.800A>G	c.(799-801)AAG>AGG	p.K267R	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	267	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TTCCAAAAACTTGATCTTTTC	0.308													5	37					0	0	0.000602	0	0		C	180372680	C	C	180372680	3	2	39	1	0	0	0	0	1	0	0	0	2814	1609	56	3	2081	3	CCDC39	3	180372680	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	1436589	180372680	17649750	53	33471											
CCDC39	339829	broad.mit.edu	37	chr3	180377341	180377341	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcattatgaatcttacgaaAatcttgtgctgctttatcca	11	17	5	8	1	3	1	1	1	2	0	4	2	4	1	1	0	3	2	1	0	6	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:180377341A>C	uc010hxe.2	-	6	752	c.637T>G	c.(637-639)TTT>GTT	p.F213V	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	213	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			ATCTTACGAAAATCTTGTGCT	0.343													17	132					0	0	0.006122	0	0		C	180377341	C	C	180377341	3	2	39	1	0	0	0	0	1	0	0	0	2814	14	1	5	2248	5	CCDC39	3	180377341	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	4661	180377341	17645089	54	33472											
ZDHHC19	131540	broad.mit.edu	37	chr3	195938172	195938172	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccagcggcgtggcatcCgttaagagtgtcatggctgg	7	10	14	10	3	2	1	2	0	0	1	3	1	3	1	2	4	1	3	2	4	1	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr3:195938172C>T	uc003fwc.2	-	1	129	c.15G>A	c.(13-15)ACG>ACA	p.T5T	ZDHHC19_uc010hzz.2_RNA|ZDHHC19_uc010iaa.2_RNA|ZDHHC19_uc010iab.2_RNA	NM_001039617	NP_001034706	Q8WVZ1	ZDH19_HUMAN	zinc finger, DHHC domain containing 19	5						integral to membrane	acyltransferase activity|zinc ion binding			ovary(3)	3	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.89e-25)|all cancers(36;1.46e-23)|OV - Ovarian serous cystadenocarcinoma(49;2.1e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0022)		GCGTGGCATCCGTTAAGAGTG	0.647													8	110					0	0	0.00308	0	0		T	195938172	T	T	195938172	2	4	39	1	0	0	0	0	0	0	0	1	17634	639	23	1		1	ZDHHC19	3	195938172	Silent	SNP	C	TCGA-BR-6706-01A-11D-1882-08	15560831	195938172	2084258	55	33473											
EVC2	132884	broad.mit.edu	37	chr4	5620291	5620291	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaattgctgcagcagaactcGggcccggatcttggggaggg	9	7	16	9	2	1	1	0	0	1	1	2	3	1	3	1	5	4	3	1	5	2	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:5620291G>A	uc003gij.2	-	15	2674	c.2620C>T	c.(2620-2622)CGA>TGA	p.R874*	EVC2_uc011bwb.1_Nonsense_Mutation_p.R314*|EVC2_uc003gik.2_Nonsense_Mutation_p.R794*	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	874						integral to membrane				large_intestine(3)|ovary(2)	5						AGCAGAACTCGGGCCCGGATC	0.607													6	54					0	0	0.001168	0	0		A	5620291	A	A	5620291	4	1	39	1	0	0	0	0	0	1	0	0	5294	1124	39	1	1338	1	EVC2	4	5620291	Nonsense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08		5620291	185533985	56	33474											
DRD5	1816	broad.mit.edu	37	chr4	9784832	9784832	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgaacatcagcaatgagctCatctcctacaaccaagacat	15	8	6	12	0	3	3	2	2	1	1	4	3	3	3	2	0	5	2	2	0	5	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:9784832C>T	uc003gmb.3	+	1	1575	c.1179C>T	c.(1177-1179)CTC>CTT	p.L393L		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	393	Cytoplasmic (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	GCAATGAGCTCATCTCCTACA	0.582													6	56					0	0	0.001168	0	0		T	9784832	T	T	9784832	2	4	39	1	0	0	0	0	0	0	0	1	4766	813	29	4		4	DRD5	4	9784832	Silent	SNP	C	TCGA-BR-6706-01A-11D-1882-08	4164541	9784832	181369444	57	33475											
GBA3	57733	broad.mit.edu	37	chr4	22820403	22820403	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggtctcttctggataacTttgagtggaaccagggatac	10	12	11	8	0	2	1	0	1	2	0	3	4	2	4	1	4	3	0	1	4	3	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:22820403T>G	uc003gqp.3	+	5	1358	c.1267T>G	c.(1267-1269)TTT>GTT	p.F423V	GBA3_uc010iep.2_Missense_Mutation_p.F116V|GBA3_uc011bxo.1_Missense_Mutation_p.F424V	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	423					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						TCTGGATAACTTTGAGTGGAA	0.413													6	36					0	0	0.004482	0	0		G	22820403	G	G	22820403	3	3	39	1	0	0	0	0	1	0	0	0	6283	1609	56	5	1285	5	GBA3	4	22820403	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	13035571	22820403	168333873	58	33476											
PPARGC1A	10891	broad.mit.edu	37	chr4	23814390	23814390	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgccttctgcctctgccTctccctttgcttggccctct	2	16	6	17	0	4	0	0	0	4	0	5	0	4	0	5	1	4	1	5	1	1	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:23814390T>C	uc003gqs.2	-	10	2119	c.1999A>G	c.(1999-2001)AGG>GGG	p.R667G	PPARGC1A_uc003gqt.2_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	667					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				TGCCTCTGCCTCTCCCTTTGC	0.448													10	171					0	0	0.000978	0	0		C	23814390	C	C	23814390	3	2	39	1	0	0	0	0	1	0	0	0	12319	1550	54	3	413	3	PPARGC1A	4	23814390	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	993987	23814390	167339886	59	33477											
PTPN13	5783	broad.mit.edu	37	chr4	87724935	87724935	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttccctctggtaaatacacGggtgccaacttaaaatcagt	12	11	7	11	1	2	0	1	0	1	0	3	0	3	0	2	2	3	1	2	2	6	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:87724935G>A	uc003hpz.2	+	43	7059	c.6579G>A	c.(6577-6579)ACG>ACA	p.T2193T	PTPN13_uc003hpy.2_Silent_p.T2198T|PTPN13_uc003hqa.2_Silent_p.T2174T|PTPN13_uc003hqb.2_Silent_p.T2002T|PTPN13_uc003hqc.1_Silent_p.T559T	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	2193						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		GTAAATACACGGGTGCCAACT	0.448													25	174					0	0	0.004656	0	0		A	87724935	A	A	87724935	2	1	39	1	0	0	0	0	0	0	0	1	12805	1103	39	1		1	PTPN13	4	87724935	Silent	SNP	G	TCGA-BR-6706-01A-11D-1882-08	63910545	87724935	103429341	60	33478											
DDIT4L	115265	broad.mit.edu	37	chr4	101109157	101109157	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggacatcttgagcaattcTctgggtcagtttctcaggga	9	12	11	9	0	4	1	2	1	3	0	6	3	4	3	0	3	1	2	0	3	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:101109157T>C	uc003hvq.2	-	3	462	c.259A>G	c.(259-261)AGA>GGA	p.R87G		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	87					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		TGAGCAATTCTCTGGGTCAGT	0.443													13	127					0	0	0.001368	0	0		C	101109157	C	C	101109157	3	2	39	1	0	0	0	0	1	0	0	0	4335	1559	54	3	326	3	DDIT4L	4	101109157	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	13384222	101109157	90045119	61	33479											
ANK2	287	broad.mit.edu	37	chr4	114278657	114278657	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcttctgaagtgtattcTgttaccatcacatcccctgt	8	15	5	13	0	4	1	1	1	3	0	5	1	5	1	3	0	1	2	3	0	3	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:114278657T>C	uc003ibe.3	+	38	8983	c.8883T>C	c.(8881-8883)TCT>TCC	p.S2961S	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Silent_p.S263S|ANK2_uc011cgb.1_Silent_p.S2976S	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2928					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AAGTGTATTCTGTTACCATCA	0.393													25	190					0	0	0.004656	0	0		C	114278657	C	C	114278657	2	2	39	1	0	0	0	0	0	0	0	1	621	1567	55	3		3	ANK2	4	114278657	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	13169500	114278657	76875619	62	33480											
NDST4	64579	broad.mit.edu	37	chr4	115997948	115997948	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtattggctctccacgaagAgaaggacagtagggtccgtt	11	9	13	8	2	1	1	0	0	1	1	3	4	2	2	2	3	0	4	2	3	4	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:115997948A>T	uc003ibu.2	-	2	924	c.245T>A	c.(244-246)CTC>CAC	p.L82H	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	82	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		CTCCACGAAGAGAAGGACAGT	0.438													13	118					0	0	0.004007	0	0		T	115997948	T	T	115997948	3	4	39	1	0	0	0	0	1	0	0	0	10277	304	11	5	2425	5	NDST4	4	115997948	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	1719291	115997948	75156328	63	33481											
FAT4	79633	broad.mit.edu	37	chr4	126371322	126371322	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcctccctgatttctgacTtgaaccaaaacttttttatc	10	16	3	12	0	1	3	0	3	1	0	4	3	3	3	3	0	2	0	3	0	4	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:126371322T>G	uc003ifj.3	+	9	9151	c.9151T>G	c.(9151-9153)TTG>GTG	p.L3051V	FAT4_uc011cgp.1_Missense_Mutation_p.L1349V|FAT4_uc003ifi.1_Missense_Mutation_p.L529V	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3051	Extracellular (Potential).|Cadherin 29.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GATTTCTGACTTGAACCAAAA	0.383													8	63					0	0	0.004482	0	0		G	126371322	G	G	126371322	3	3	39	1	0	0	0	0	1	0	0	0	5706	1606	56	5	9185	5	FAT4	4	126371322	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	10373374	126371322	64782954	64	33482											
INTU	27152	broad.mit.edu	37	chr4	128629739	128629739	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcaggtcactaaaaagaAgtctactcttccaaatccat	14	13	4	10	0	4	1	2	0	2	1	6	1	6	1	2	1	1	0	2	1	6	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:128629739A>C	uc003ifk.1	+	13	2355	c.2285A>C	c.(2284-2286)AAG>ACG	p.K762T	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	762										ovary(1)	1						ACTAAAAAGAAGTCTACTCTT	0.284													4	31					0	0	0.009096	0	0		C	128629739	C	C	128629739	3	2	39	1	0	0	0	0	1	0	0	0	7802	72	3	5	2335	5	INTU	4	128629739	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	2258417	128629739	62524537	65	33483											
DCLK2	166614	broad.mit.edu	37	chr4	151023936	151023936	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actagactcaggagtcgtcaAgaggctctgcaccctggatg	10	8	12	11	1	3	2	2	0	1	2	4	4	3	4	1	3	1	2	1	3	2	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:151023936A>G	uc003ilm.3	+	2	828	c.728A>G	c.(727-729)AAG>AGG	p.K243R	DCLK2_uc003iln.3_Missense_Mutation_p.K243R|DCLK2_uc003ilo.3_Missense_Mutation_p.K243R|DCLK2_uc003ilp.3_RNA	NM_001040260	NP_001035350	Q8N568	DCLK2_HUMAN	doublecortin-like kinase 2 isoform a	243	Doublecortin 2.				intracellular signal transduction	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)					GGAGTCGTCAAGAGGCTCTGC	0.463													3	35					0	0	0.004672	0	0		G	151023936	G	G	151023936	3	3	39	1	0	0	0	0	1	0	0	0	4295	72	3	3	734	3	DCLK2	4	151023936	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	22394197	151023936	40130340	66	33484											
RBM46	166863	broad.mit.edu	37	chr4	155720526	155720526	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggattattactgcaacaaAaataactgggcaccaccaga	16	9	7	9	0	0	1	0	0	0	1	0	2	0	2	2	2	4	2	2	2	6	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:155720526A>C	uc003ioo.2	+	4	1385	c.1212A>C	c.(1210-1212)AAA>AAC	p.K404N	RBM46_uc011cim.1_Missense_Mutation_p.K404N|RBM46_uc003iop.1_Missense_Mutation_p.K404N	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	404							nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				ACTGCAACAAAAATAACTGGG	0.313													4	66					0	0	0.000602	0	0		C	155720526	C	C	155720526	3	2	39	1	0	0	0	0	1	0	0	0	13165	11	1	5	1222	5	RBM46	4	155720526	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	4696590	155720526	35433750	67	33485											
GUCY1A3	2982	broad.mit.edu	37	chr4	156634503	156634503	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaagccctggaggaggagaAgaaaaagacagtagaccttc	16	4	12	9	0	0	4	0	0	0	4	1	7	0	6	3	3	1	1	3	3	5	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:156634503A>C	uc003iov.2	+	8	1876	c.1340A>C	c.(1339-1341)AAG>ACG	p.K447T	GUCY1A3_uc010iqc.2_Missense_Mutation_p.K447T|GUCY1A3_uc003iow.2_Missense_Mutation_p.K447T|GUCY1A3_uc010iqd.2_Missense_Mutation_p.K446T|GUCY1A3_uc003iox.2_Missense_Mutation_p.K447T|GUCY1A3_uc003ioz.2_Missense_Mutation_p.K212T|GUCY1A3_uc003ioy.2_Missense_Mutation_p.K447T|GUCY1A3_uc010iqe.2_Missense_Mutation_p.K212T|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Missense_Mutation_p.K447T	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	447					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		GAGGAGGAGAAGAAAAAGACA	0.522													12	80					0	0	0.000978	0	0		C	156634503	C	C	156634503	3	2	39	1	0	0	0	0	1	0	0	0	6910	72	3	5	1373	5	GUCY1A3	4	156634503	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	913977	156634503	34519773	68	33486											
TDO2	6999	broad.mit.edu	37	chr4	156831278	156831278	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagtcccttataacagaaGacattatcgtgataacttca	15	11	7	8	1	1	4	1	1	0	3	3	5	2	4	1	0	2	0	1	0	5	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:156831278G>T	uc003ipf.1	+	6	597	c.533G>T	c.(532-534)AGA>ATA	p.R178I		NM_005651	NP_005642	P48775	T23O_HUMAN	tryptophan 2,3-dioxygenase	178					tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)	TATAACAGAAGACATTATCGT	0.383													15	121					1.49906e-05	2.32844e-05	0.00245	1	0		T	156831278	T	T	156831278	3	4	39	1	0	0	0	0	1	0	0	0	15752	942	33	5	555	5	TDO2	4	156831278	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	196775	156831278	34322998	69	33487											
FNIP2	57600	broad.mit.edu	37	chr4	159790449	159790449	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggactgaaggagacatTccccgaaatgaaagctcaga	15	7	10	9	1	2	4	2	2	0	2	3	7	3	5	2	2	1	1	2	2	3	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:159790449T>C	uc003iqe.3	+	13	2844	c.2661T>C	c.(2659-2661)ATT>ATC	p.I887I		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	887	Interaction with PRKAA1.				DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		AAGGAGACATTCCCCGAAATG	0.597													4	27					0	0	0.000602	0	0		C	159790449	C	C	159790449	2	2	39	1	0	0	0	0	0	0	0	1	5990	1771	62	3		3	FNIP2	4	159790449	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	2959171	159790449	31363827	70	33488											
CCDC111	201973	broad.mit.edu	37	chr4	185593358	185593358	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaattttgcagcctgcTcttgacttgcttggcagtga	10	13	10	8	0	1	3	0	2	1	1	1	3	1	3	1	1	4	4	1	1	2	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:185593358T>G	uc003iwk.2	+	7	1021	c.588T>G	c.(586-588)GCT>GCG	p.A196A	CCDC111_uc010isd.1_RNA|CCDC111_uc003iwj.2_Silent_p.A196A|CCDC111_uc003iwl.2_Silent_p.A196A|CCDC111_uc003iwm.2_Silent_p.A67A|CCDC111_uc003iwn.2_Silent_p.A21A	NM_152683	NP_689896	Q96LW4	CC111_HUMAN	coiled-coil domain containing 111	196					DNA replication, synthesis of RNA primer		DNA primase activity			central_nervous_system(1)	1		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.00531)|Hepatocellular(41;0.00932)|Renal(120;0.0246)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|all_neural(102;0.131)		all cancers(43;5.84e-27)|Epithelial(43;2.2e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.28e-11)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.03e-05)|Colorectal(24;7.57e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000249)|COAD - Colon adenocarcinoma(29;0.000502)|LUSC - Lung squamous cell carcinoma(40;0.00995)|READ - Rectum adenocarcinoma(43;0.173)		TGCAGCCTGCTCTTGACTTGC	0.428													15	141					0	0	0.003163	0	0		G	185593358	G	G	185593358	2	3	39	1	0	0	0	0	0	0	0	1	2751	1538	54	5		5	CCDC111	4	185593358	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	25802909	185593358	5560918	71	33489											
CCDC110	256309	broad.mit.edu	37	chr4	186379713	186379713	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattttttatttcttgcagAaaattctcttcggcagtaga	10	17	7	7	1	2	2	0	0	2	2	4	2	2	2	0	1	1	4	0	1	4	8			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr4:186379713A>G	uc003ixu.3	-	6	2104	c.2028T>C	c.(2026-2028)TTT>TTC	p.F676F	CCDC110_uc003ixv.3_Silent_p.F639F|CCDC110_uc011ckt.1_Silent_p.F676F	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	676	Potential.					nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		TTTCTTGCAGAAAATTCTCTT	0.323													9	101					0	0	0.004482	0	0		G	186379713	G	G	186379713	2	3	39	1	0	0	0	0	0	0	0	1	2750	243	9	3		3	CCDC110	4	186379713	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	786355	186379713	4774563	72	33490											
ZFR	51663	broad.mit.edu	37	chr5	32400164	32400164	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcactctgtaaagcagcaAgagatgcaggtgtgactggt	12	9	12	8	0	2	2	1	1	1	1	2	3	2	2	0	2	3	4	0	2	3	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:32400164A>G	uc003jhr.1	-	9	1741	c.1661T>C	c.(1660-1662)CTT>CCT	p.L554P		NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	554					multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		TAAAGCAGCAAGAGATGCAGG	0.433													12	89					0	0	0.001855	0	0		G	32400164	G	G	32400164	3	3	39	1	0	0	0	0	1	0	0	0	17684	72	3	3	1611	3	ZFR	5	32400164	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08		32400164	148515096	73	33491											
SLC45A2	51151	broad.mit.edu	37	chr5	33982444	33982444	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaatgaagtcggcagcaaaAtcaaagagaacgacacctat	18	6	8	9	2	2	2	2	1	0	1	3	4	2	2	1	1	2	2	1	1	7	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:33982444A>C	uc003jid.2	-	2	551	c.459T>G	c.(457-459)GAT>GAG	p.D153E	SLC45A2_uc003jie.2_Missense_Mutation_p.D153E|SLC45A2_uc003jif.3_Missense_Mutation_p.D153E|SLC45A2_uc011coe.1_Missense_Mutation_p.D153E	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	153	Helical; Name=4; (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						CGGCAGCAAAATCAAAGAGAA	0.463													9	53					0	0	0.004482	0	0		C	33982444	C	C	33982444	3	2	39	1	0	0	0	0	1	0	0	0	14666	98	4	5	1172	5	SLC45A2	5	33982444	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	1582280	33982444	146932816	74	33492											
UGT3A1	133688	broad.mit.edu	37	chr5	35991320	35991320	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagaaggaaggccactagaAgcagcacccgctgcccaacc	15	2	10	14	1	0	2	0	0	0	2	0	3	0	3	4	2	4	3	4	2	6	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:35991320A>C	uc003jjv.1	-	1	180	c.23T>G	c.(22-24)CTT>CGT	p.L8R	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.L8R|UGT3A1_uc011cor.1_Missense_Mutation_p.L8R|UGT3A1_uc003jjy.1_Intron	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	8						integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGCCACTAGAAGCAGCACCCG	0.602													10	115					0	0	0.006214	0	0		C	35991320	C	C	35991320	3	2	39	1	0	0	0	0	1	0	0	0	16989	72	3	5	1658	5	UGT3A1	5	35991320	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	2008876	35991320	144923940	75	33493											
GHR	2690	broad.mit.edu	37	chr5	42718874	42718874	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggttaaaaggggaagcagAtctcttatgccttgaccaga	13	9	12	7	0	1	3	0	1	1	2	2	5	1	4	2	3	2	2	2	3	4	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:42718874A>G	uc003jmt.2	+	10	1308	c.1265A>G	c.(1264-1266)GAT>GGT	p.D422G	GHR_uc011cpq.1_Missense_Mutation_p.D235G	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	422	Cytoplasmic (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	GGGGAAGCAGATCTCTTATGC	0.443													13	69					0	0	0.001368	0	0		G	42718874	G	G	42718874	3	3	39	1	0	0	0	0	1	0	0	0	6386	333	12	3	1299	3	GHR	5	42718874	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	6727554	42718874	138196386	76	33494											
DDX4	54514	broad.mit.edu	37	chr5	55088488	55088488	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattggtctcaaacagatcaAatacttagttttggatgaag	14	13	9	5	0	2	2	2	1	1	1	3	4	2	3	0	2	2	1	0	2	5	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:55088488A>C	uc003jqg.3	+	17	1396	c.1322A>C	c.(1321-1323)AAA>ACA	p.K441T	DDX4_uc010ivz.2_Missense_Mutation_p.K421T|DDX4_uc003jqh.3_Missense_Mutation_p.K407T|DDX4_uc003jqj.2_Missense_Mutation_p.K292T	NM_001136034	NP_001129506	Q9NQI0	DDX4_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4 isoform	441	Helicase ATP-binding.				multicellular organismal development|sperm motility	perinuclear region of cytoplasm|pi-body|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|skin(1)	2		Lung NSC(810;6.93e-05)|all_neural(839;0.00409)|Prostate(74;0.0107)|Breast(144;0.0544)|Ovarian(174;0.223)				AAACAGATCAAATACTTAGTT	0.328													4	46					0	0	0.000602	0	0		C	55088488	C	C	55088488	3	2	39	1	0	0	0	0	1	0	0	0	4363	14	1	5	1425	5	DDX4	5	55088488	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	12369614	55088488	125826772	77	33495											
GPR98	84059	broad.mit.edu	37	chr5	89990213	89990213	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctccttgaagttcaccTcatgaacatttcagccagtt	9	15	5	12	0	4	2	3	2	1	0	6	2	5	2	3	0	2	2	3	0	2	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:89990213T>G	uc003kju.2	+	33	7736	c.7640T>G	c.(7639-7641)CTC>CGC	p.L2547R	GPR98_uc003kjt.2_Missense_Mutation_p.L253R|GPR98_uc003kjv.2_Missense_Mutation_p.L147R	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2547	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GAAGTTCACCTCATGAACATT	0.398													13	151					0	0	0.003163	0	0		G	89990213	G	G	89990213	3	3	39	1	0	0	0	0	1	0	0	0	6737	1551	54	5	7770	5	GPR98	5	89990213	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	34901725	89990213	90925047	78	33496											
PAM	5066	broad.mit.edu	37	chr5	102295728	102295728	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacattccaattcccgtgaAgtctgatatggttatgatgc	11	13	8	9	1	1	3	0	3	1	0	3	3	3	3	2	1	2	1	2	1	5	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:102295728A>G	uc003knw.2	+	12	1428	c.1055A>G	c.(1054-1056)AAG>AGG	p.K352R	PAM_uc003kns.2_Missense_Mutation_p.K352R|PAM_uc003knt.2_Missense_Mutation_p.K352R|PAM_uc003knu.2_Missense_Mutation_p.K352R|PAM_uc003knv.2_Missense_Mutation_p.K352R|PAM_uc011cuz.1_Missense_Mutation_p.K255R|PAM_uc003knx.1_Missense_Mutation_p.K44R	NM_000919	NP_000910	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	352	Peptidylglycine alpha-hydroxylating monooxygenase (By similarity).|Intragranular (Potential).				peptide metabolic process|protein modification process	extracellular region|integral to membrane|stored secretory granule	L-ascorbic acid binding|peptidylamidoglycolate lyase activity|peptidylglycine monooxygenase activity|protein binding				0		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	ATTCCCGTGAAGTCTGATATG	0.338													7	79					0	0	0.006214	0	0		G	102295728	G	G	102295728	3	3	39	1	0	0	0	0	1	0	0	0	11431	72	3	3	1101	3	PAM	5	102295728	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	12305515	102295728	78619532	79	33497											
FBN2	2201	broad.mit.edu	37	chr5	127855063	127855063	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccattttcacagacagcTgcatacaaaaatagcaagaa	18	8	5	10	0	1	2	1	0	0	2	2	2	2	2	1	0	4	3	1	0	6	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:127855063T>G	uc003kuu.2	-	5	972	c.533_splice	c.e5-1	p.P178_splice	FBN2_uc003kuv.2_Splice_Site_p.P145_splice|FBN2_uc003kuw.3_Splice_Site_p.P178_splice|FBN2_uc003kux.1_Splice_Site_p.P178_splice	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor						bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		CACAGACAGCTGCATACAAAA	0.423													4	56					0	0	0.009096	0	0		G	127855063	G	G	127855063	5	3	39	1	0	0	0	0	0	0	1	0	5717	1594	55	5	8451	5	FBN2	5	127855063	Splice_Site	SNP	T	TCGA-BR-6706-01A-11D-1882-08	25559335	127855063	53060197	80	33498											
MYOT	9499	broad.mit.edu	37	chr5	137222974	137222974	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcagcaaatatttagcacTtaatgggaaaggtttgaatg	15	13	9	4	0	1	1	1	1	0	0	1	2	1	2	0	2	2	3	0	2	6	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:137222974T>A	uc011cye.1	+	10	1414	c.1397T>A	c.(1396-1398)CTT>CAT	p.L466H	PKD2L2_uc010jep.1_5'Flank|PKD2L2_uc003lbw.1_5'Flank|PKD2L2_uc003lbx.2_5'Flank|PKD2L2_uc003lby.2_5'Flank|MYOT_uc003lbv.2_Missense_Mutation_p.L466H|MYOT_uc011cyg.1_Missense_Mutation_p.L282H|MYOT_uc011cyh.1_Missense_Mutation_p.L351H	NM_001135940	NP_001129412	Q9UBF9	MYOTI_HUMAN	myotilin isoform b	466	Necessary for interaction with ACTA1.|Necessary for interaction with FLNC.				muscle contraction	actin cytoskeleton|sarcolemma|sarcomere	actin binding|structural constituent of muscle			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TATTTAGCACTTAATGGGAAA	0.388													15	100					0	0	0.003163	0	0		A	137222974	A	A	137222974	3	1	39	1	0	0	0	0	1	0	0	0	10112	1609	56	5	1431	5	MYOT	5	137222974	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	9367911	137222974	43692286	81	33499											
PCDHAC2	56134	broad.mit.edu	37	chr5	140347619	140347619	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactcctatacactggtggTgagcggcccactggaccgag	10	7	12	12	2	0	1	0	1	0	0	1	3	1	2	3	4	3	0	3	4	3	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:140347619T>G	uc003lii.2	+	1	1508	c.1268T>G	c.(1267-1269)GTG>GGG	p.V423G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Missense_Mutation_p.V423G	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	423	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACACTGGTGGTGAGCGGCCCA	0.577													16	146					0	0	0.004007	0	0		G	140347619	G	G	140347619	3	3	39	1	0	0	0	0	1	0	0	0	11552	1696	59	5	1270	5	PCDHAC2	5	140347619	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	3124645	140347619	40567641	82	33500											
SH3TC2	79628	broad.mit.edu	37	chr5	148389903	148389903	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcacctgcttcttcataaAgtttgagagccagcaaaggc	12	10	8	11	0	3	1	2	1	1	1	3	2	3	1	2	1	3	3	2	1	3	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:148389903A>G	uc003lpu.2	-	14	3409	c.3257T>C	c.(3256-3258)CTT>CCT	p.L1086P	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_Missense_Mutation_p.L730P|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_Missense_Mutation_p.L633P|SH3TC2_uc010jgx.2_Missense_Mutation_p.L1079P	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	1086	TPR 5.						binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCTTCATAAAGTTTGAGAGC	0.532													7	78					0	0	0.001984	0	0		G	148389903	G	G	148389903	3	3	39	1	0	0	0	0	1	0	0	0	14287	72	3	3	625	3	SH3TC2	5	148389903	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	8042284	148389903	32525357	83	33501											
ANXA6	309	broad.mit.edu	37	chr5	150515865	150515865	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtggccagaggtgtcgccGatgatgtcagcctccaggtc	8	8	14	11	2	1	2	1	1	0	1	4	3	2	2	4	3	1	0	4	3	1	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:150515865G>A	uc003ltl.1	-	7	593	c.441C>T	c.(439-441)ATC>ATT	p.I147I	ANXA6_uc011dcp.1_Silent_p.I115I|ANXA6_uc003ltm.1_Silent_p.I147I|ANXA6_uc003ltn.1_Intron|ANXA6_uc003lto.1_Intron	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	147	Annexin 2.					melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGGTGTCGCCGATGATGTCAG	0.547													4	65					0	0	0.001168	0	0		A	150515865	A	A	150515865	2	1	39	1	0	0	0	0	0	0	0	1	722	1048	37	1		1	ANXA6	5	150515865	Silent	SNP	G	TCGA-BR-6706-01A-11D-1882-08	2125962	150515865	30399395	84	33502											
FAT2	2196	broad.mit.edu	37	chr5	150908754	150908754	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaccgtgaggatgacgtcAcccacaagggcattctctaa	11	9	9	12	2	2	2	1	2	1	0	3	3	2	3	2	2	1	1	2	2	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:150908754A>G	uc003lue.3	-	14	10024	c.10011T>C	c.(10009-10011)GGT>GGC	p.G3337G	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Silent_p.G30G	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3337	Cadherin 30.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGATGACGTCACCCACAAGGG	0.517													12	81					0	0	0.001855	0	0		G	150908754	G	G	150908754	2	3	39	1	0	0	0	0	0	0	0	1	5704	146	6	3		3	FAT2	5	150908754	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	392889	150908754	30006506	85	33503											
IL12B	3593	broad.mit.edu	37	chr5	158743698	158743698	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggcctgctcacctaacTgcagggcacagatgcccatt	9	8	11	13	0	1	2	1	1	0	1	1	2	1	2	3	2	4	3	3	2	1	2	rs143277765		TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:158743698T>A	uc003lxr.1	-	7	1024	c.982A>T	c.(982-984)AGT>TGT	p.S328C		NM_002187	NP_002178	P29460	IL12B_HUMAN	interleukin 12B precursor	328					cell cycle arrest|cell migration|defense response to Gram-negative bacterium|interferon-gamma biosynthetic process|natural killer cell activation|negative regulation of interleukin-10 production|negative regulation of interleukin-17 production|negative regulation of smooth muscle cell proliferation|positive regulation of activated T cell proliferation|positive regulation of activation of JAK2 kinase activity|positive regulation of cell adhesion|positive regulation of defense response to virus by host|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-17 production|positive regulation of memory T cell differentiation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|positive regulation of natural killer cell proliferation|positive regulation of NF-kappaB import into nucleus|positive regulation of NK T cell activation|positive regulation of NK T cell proliferation|positive regulation of osteoclast differentiation|positive regulation of smooth muscle cell apoptosis|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat4 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|regulation of tyrosine phosphorylation of Stat1 protein|response to UV-B|sexual reproduction|T-helper 1 type immune response|T-helper cell differentiation	interleukin-12 complex|interleukin-23 complex|membrane	cytokine activity|cytokine receptor activity|interleukin-12 receptor binding|protein heterodimerization activity				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTCACCTAACTGCAGGGCACA	0.592											OREG0016989	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	32					0	0	0.001168	0	0		A	158743698	A	A	158743698	3	1	39	1	0	0	0	0	1	0	0	0	7641	1580	55	5	8	5	IL12B	5	158743698	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	7834944	158743698	22171562	86	33504											
WWC1	23286	broad.mit.edu	37	chr5	167824784	167824784	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgagatcctgaaagctgaAattgccactgcaaaatcccg	13	8	8	12	1	0	3	0	3	0	1	2	4	2	3	4	0	3	2	4	0	4	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr5:167824784A>C	uc003lzu.2	+	4	582	c.489A>C	c.(487-489)GAA>GAC	p.E163D	WWC1_uc003lzv.2_Missense_Mutation_p.E163D|WWC1_uc011den.1_Missense_Mutation_p.E163D	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	163	Potential.				cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		TGAAAGCTGAAATTGCCACTG	0.468													12	150					0	0	0.00245	0	0		C	167824784	C	C	167824784	3	2	39	1	0	0	0	0	1	0	0	0	17437	11	1	5	503	5	WWC1	5	167824784	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	9081086	167824784	13090476	87	33505											
FOXQ1	94234	broad.mit.edu	37	chr6	1313596	1313596	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaagcgcctcagccaccgCgcgccggtccccgcgcccgg	4	2	13	22	9	1	0	1	0	0	0	2	0	2	0	7	2	2	1	7	2	1	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr6:1313596C>T	uc003mtl.3	+	1	922	c.657C>T	c.(655-657)CGC>CGT	p.R219R		NM_033260	NP_150285	Q9C009	FOXQ1_HUMAN	forkhead box Q1	219					DNA fragmentation involved in apoptotic nuclear change|embryo development|hair follicle morphogenesis|pattern specification process|positive regulation of caspase activity|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	caspase regulator activity|DNA bending activity|double-stranded DNA binding|estrogen receptor binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|ubiquitin conjugating enzyme binding				0	Ovarian(93;0.0733)	Breast(5;0.052)|all_lung(73;0.0713)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.0954)|BRCA - Breast invasive adenocarcinoma(62;0.18)		TCAGCCAccgcgcgccggtcc	0.343													5	12					0	0	0.00308	0	0		T	1313596	T	T	1313596	2	4	39	1	0	0	0	0	0	0	0	1	6044	755	27	1		1	FOXQ1	6	1313596	Silent	SNP	C	TCGA-BR-6706-01A-11D-1882-08		1313596	169801471	88	33506											
IP6K3	117283	broad.mit.edu	37	chr6	33703132	33703132	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcccgggagacgaggggcTtgcacaccgtatgctcgtca	7	7	14	13	4	1	1	1	0	0	1	3	3	2	1	2	3	2	5	2	3	1	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr6:33703132T>C	uc010jvf.2	-	3	658	c.122A>G	c.(121-123)AAG>AGG	p.K41R	IP6K3_uc003ofb.2_Missense_Mutation_p.K41R	NM_001142883	NP_001136355	Q96PC2	IP6K3_HUMAN	inositol hexakisphosphate kinase 3	41					inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|protein phosphorylation	cytoplasm	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol hexakisphosphate 6-kinase activity|inositol trisphosphate 3-kinase activity				0						GACGAGGGGCTTGCACACCGT	0.627													7	49					0	0	0.006214	0	0		C	33703132	C	C	33703132	3	2	39	1	0	0	0	0	1	0	0	0	7806	1609	56	3	1130	3	IP6K3	6	33703132	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	32389536	33703132	137411935	89	33507											
UBR2	23304	broad.mit.edu	37	chr6	42612227	42612227	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataggatgttgttcagcagaAcaatactctaatagaagaaa	18	10	8	5	0	2	3	1	0	1	3	2	4	2	4	0	1	3	3	0	1	8	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr6:42612227A>C	uc011dur.1	+	20	2237	c.2237A>C	c.(2236-2238)AAC>ACC	p.N746T	UBR2_uc011dus.1_Missense_Mutation_p.N391T|UBR2_uc003osh.2_RNA	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	746					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			GTTCAGCAGAACAATACTCTA	0.303													10	89					0	0	0.006214	0	0		C	42612227	C	C	42612227	3	2	39	1	0	0	0	0	1	0	0	0	16928	43	2	5	2461	5	UBR2	6	42612227	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	8909095	42612227	128502840	90	33508											
DOPEY1	23033	broad.mit.edu	37	chr6	83845580	83845580	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacaagcatttcatgcaaaAttttgcctgcagcaatggtg	12	12	9	8	0	1	1	1	1	0	0	1	1	1	1	1	1	5	4	1	1	4	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr6:83845580A>C	uc003pjs.1	+	20	3373	c.3113A>C	c.(3112-3114)AAT>ACT	p.N1038T	DOPEY1_uc011dyy.1_Missense_Mutation_p.N1029T|DOPEY1_uc010kbl.1_Missense_Mutation_p.N1029T|DOPEY1_uc003pjt.2_5'Flank	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1038					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		TTCATGCAAAATTTTGCCTGC	0.358													6	44					0	0	0.001168	0	0		C	83845580	C	C	83845580	3	2	39	1	0	0	0	0	1	0	0	0	4713	101	4	5	3183	5	DOPEY1	6	83845580	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	41233353	83845580	87269487	91	33509											
LAMA4	3910	broad.mit.edu	37	chr6	112471810	112471810	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacacgcctgctagtgtcAgccactgcttcatcactgcc	7	9	7	18	1	3	0	3	0	0	0	3	0	3	0	4	0	4	2	4	0	1	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr6:112471810A>G	uc003pvu.2	-	17	2385	c.2076T>C	c.(2074-2076)GCT>GCC	p.A692A	LAMA4_uc003pvv.2_Silent_p.A685A|LAMA4_uc003pvt.2_Silent_p.A685A	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	692	Domain II and I.|Potential.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		TGCTAGTGTCAGCCACTGCTT	0.493													11	135					0	0	0.000978	0	0		G	112471810	G	G	112471810	2	3	39	1	0	0	0	0	0	0	0	1	8624	175	7	3		3	LAMA4	6	112471810	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	28626230	112471810	58643257	92	33510											
C6orf170	221322	broad.mit.edu	37	chr6	121576500	121576500	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggattcctggcttactgaAgaaacagaatcagaaccctc	13	9	9	10	0	1	4	1	1	0	3	3	5	2	5	2	2	3	1	2	2	5	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr6:121576500A>G	uc003pyo.1	-	17	2060	c.1992T>C	c.(1990-1992)TCT>TCC	p.S664S	C6orf170_uc003pyq.1_RNA|C6orf170_uc003pyp.1_Silent_p.S183S	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	664					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		GGCTTACTGAAGAAACAGAAT	0.284													8	77					0	0	0.001855	0	0		G	121576500	G	G	121576500	2	3	39	1	0	0	0	0	0	0	0	1	2347	59	3	3		3	C6orf170	6	121576500	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	9104690	121576500	49538567	93	33511											
SERINC1	57515	broad.mit.edu	37	chr6	122779730	122779730	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacacatactccaacaagcaAgaaaagtgcatagatcaatc	19	7	5	10	0	1	2	1	0	0	2	3	2	2	2	1	0	5	2	1	0	9	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr6:122779730A>G	uc003pyy.1	-	2	206	c.136T>C	c.(136-138)TTG>CTG	p.L46L		NM_020755	NP_065806	Q9NRX5	SERC1_HUMAN	serine incorporator 1	46	Helical; (Potential).				phosphatidylserine metabolic process|phospholipid biosynthetic process|positive regulation of transferase activity|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	L-serine transmembrane transporter activity|protein binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.126)		CCAACAAGCAAGAAAAGTGCA	0.408													13	145					0	0	0.001368	0	0		G	122779730	G	G	122779730	2	3	39	1	0	0	0	0	0	0	0	1	14104	69	3	3		3	SERINC1	6	122779730	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	1203230	122779730	48335337	94	33512											
SHPRH	257218	broad.mit.edu	37	chr6	146254276	146254276	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacattcagttccacatttcTtctgcaaagatgtcagcagc	11	12	6	12	0	4	1	2	0	2	1	5	1	5	1	1	0	3	3	1	0	1	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr6:146254276T>G	uc003qlf.2	-	14	3428	c.3029A>C	c.(3028-3030)AAG>ACG	p.K1010T	SHPRH_uc003qld.2_Missense_Mutation_p.K1019T|SHPRH_uc003qle.2_Missense_Mutation_p.K1019T|SHPRH_uc003qlg.1_Missense_Mutation_p.K566T|SHPRH_uc003qlh.2_5'UTR	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	1010					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		TCCACATTTCTTCTGCAAAGA	0.403													5	46					0	0	0.000602	0	0		G	146254276	G	G	146254276	3	3	39	1	0	0	0	0	1	0	0	0	14316	1609	56	5	2107	5	SHPRH	6	146254276	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	23474546	146254276	24860791	95	33513											
THSD7A	221981	broad.mit.edu	37	chr7	11581104	11581104	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggaccacactcctttccGttatctggctcgcagtttcc	5	13	7	16	2	1	0	0	0	1	0	5	1	4	1	5	2	0	4	5	2	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:11581104G>A	uc003ssf.3	-	6	2016	c.1764C>T	c.(1762-1764)AAC>AAT	p.N588N		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	588	Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		ACTCCTTTCCGTTATCTGGCT	0.483										HNSCC(18;0.044)			7	61					0	0	0.008291	0	0		A	11581104	A	A	11581104	2	1	39	1	0	0	0	0	0	0	0	1	15904	1136	40	1		1	THSD7A	7	11581104	Silent	SNP	G	TCGA-BR-6706-01A-11D-1882-08		11581104	147557559	96	33514											
AGR3	155465	broad.mit.edu	37	chr7	16900136	16900136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atacttacataggggtaaatCccgaggctcatatgtgtaca	13	11	9	8	1	1	0	1	0	0	0	2	1	2	0	1	3	3	3	1	3	7	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:16900136C>T	uc003sts.2	-	7	512	c.439G>A	c.(439-441)GAT>AAT	p.D147N		NM_176813	NP_789783	Q8TD06	AGR3_HUMAN	breast cancer membrane protein 11 precursor	147						extracellular region					0	Lung NSC(10;0.0376)|all_lung(11;0.0721)|all_epithelial(12;0.202)			UCEC - Uterine corpus endometrioid carcinoma (126;0.184)		AGGGGTAAATCCCGAGGCTCA	0.423													15	137					0	0	0.00499	0	0		T	16900136	T	T	16900136	3	4	39	1	0	0	0	0	1	0	0	0	396	855	30	4	69	4	AGR3	7	16900136	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	5319032	16900136	142238527	97	33515											
ABCB5	340273	broad.mit.edu	37	chr7	20762765	20762765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattgctccagtacttgccGtgacaggaatgattgaaacc	11	11	10	9	1	0	3	0	3	0	0	1	4	1	4	3	1	4	3	3	1	4	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:20762765G>A	uc003suw.3	+	12	1759	c.1213G>A	c.(1213-1215)GTG>ATG	p.V405M	ABCB5_uc010kuh.2_Missense_Mutation_p.V850M|ABCB5_uc003sux.1_Missense_Mutation_p.V28M	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	405	Cytoplasmic (Potential).|ABC transmembrane type-1.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						AGTACTTGCCGTGACAGGAAT	0.393													4	84					0	0	0.000602	0	0		A	20762765	A	A	20762765	3	1	39	1	0	0	0	0	1	0	0	0	44	1145	40	1	2667	1	ABCB5	7	20762765	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	3862629	20762765	138375898	98	33516											
KBTBD2	25948	broad.mit.edu	37	chr7	32909212	32909212	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcatttaagtgggtttcTcgcataaacacacatagaga	13	11	8	9	2	2	1	1	0	1	1	3	2	2	1	0	1	1	3	0	1	4	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:32909212T>C	uc003tdb.2	-	4	2276	c.1617A>G	c.(1615-1617)CGA>CGG	p.R539R	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	539	Kelch 5.										0			GBM - Glioblastoma multiforme(11;0.0499)			AGTGGGTTTCTCGCATAAACA	0.453													34	117					0	0	0.004289	0	0		C	32909212	C	C	32909212	2	2	39	1	0	0	0	0	0	0	0	1	8009	1538	54	3		3	KBTBD2	7	32909212	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	12146447	32909212	126229451	99	33517											
FKBP9	11328	broad.mit.edu	37	chr7	33014900	33014900	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctatttcaagcccccgagTtgccctcggaccatccaggt	8	9	8	16	2	1	0	1	0	0	0	3	2	2	1	6	2	2	1	6	2	2	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:33014900T>G	uc003tdh.2	+	3	655	c.474T>G	c.(472-474)AGT>AGG	p.S158R	AVL9_uc011kai.1_Intron|FKBP9_uc011kak.1_RNA|FKBP9_uc011kal.1_Missense_Mutation_p.S211R|FKBP9_uc003tdg.2_Missense_Mutation_p.S158R|FKBP9_uc010kwm.2_Missense_Mutation_p.S65R	NM_007270	NP_009201	O95302	FKBP9_HUMAN	FK506 binding protein 9 precursor	158					protein folding	endoplasmic reticulum|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			central_nervous_system(13)|ovary(1)	14			GBM - Glioblastoma multiforme(11;0.0156)			AGCCCCCGAGTTGCCCTCGGA	0.478													20	88					0	0	0.00278	0	0		G	33014900	G	G	33014900	3	3	39	1	0	0	0	0	1	0	0	0	5929	1722	60	5	484	5	FKBP9	7	33014900	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	105688	33014900	126123763	100	33518											
ASL	435	broad.mit.edu	37	chr7	65552354	65552354	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcaatcccctgggtgtggaCcgagagctgctccgagcagg	7	6	16	12	2	0	1	0	0	0	1	2	4	2	2	4	4	3	4	4	4	1	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:65552354C>G	uc003tuo.2	+	9	747	c.636C>G	c.(634-636)GAC>GAG	p.D212E	ASL_uc003tup.2_Missense_Mutation_p.D212E|ASL_uc003tur.2_Missense_Mutation_p.D186E|ASL_uc003tuq.2_Missense_Mutation_p.D212E	NM_000048	NP_000039	P04424	ARLY_HUMAN	argininosuccinate lyase isoform 1	212					arginine biosynthetic process via ornithine|arginine catabolic process|urea cycle	cytosol	argininosuccinate lyase activity			breast(2)	2					L-Arginine(DB00125)	TGGGTGTGGACCGAGAGCTGC	0.592													3	66					0	0	0.004672	0	0		G	65552354	G	G	65552354	3	3	39	1	0	0	0	0	1	0	0	0	1045	506	18	5	666	5	ASL	7	65552354	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	32537454	65552354	93586309	101	33519											
PCLO	27445	broad.mit.edu	37	chr7	82583320	82583320	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttatctctgtaagcttccaAaacttccagaatgattccat	12	15	4	10	0	1	2	0	1	1	1	5	2	4	2	3	0	2	2	3	0	5	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:82583320A>G	uc003uhx.2	-	5	7238	c.6949T>C	c.(6949-6951)TTG>CTG	p.L2317L	PCLO_uc003uhv.2_Silent_p.L2317L|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2248					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TAAGCTTCCAAAACTTCCAGA	0.428													7	396					0	0	0.00308	0	0		G	82583320	G	G	82583320	2	3	39	1	0	0	0	0	0	0	0	1	11602	11	1	3		3	PCLO	7	82583320	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	17030966	82583320	76555343	102	33520											
COL1A2	1278	broad.mit.edu	37	chr7	94041406	94041406	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctggttcccctggaaatatCggccccgctggaaaagaagg	10	7	12	12	2	0	1	0	0	0	1	2	3	1	3	5	5	0	2	5	5	5	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:94041406C>T	uc003ung.1	+	24	1848	c.1377C>T	c.(1375-1377)ATC>ATT	p.I459I	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	459					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CTGGAAATATCGGCCCCGCTG	0.378										HNSCC(75;0.22)			4	27					0	0	0.001168	0	0		T	94041406	T	T	94041406	2	4	39	1	0	0	0	0	0	0	0	1	3681	874	31	1		1	COL1A2	7	94041406	Silent	SNP	C	TCGA-BR-6706-01A-11D-1882-08	11458086	94041406	65097257	103	33521											
DLX6	1750	broad.mit.edu	37	chr7	96639182	96639182	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagtaatcctcatgagagCgaccccctccagggctcggc	8	6	12	15	2	1	1	1	1	0	1	4	3	3	1	4	3	1	3	4	3	1	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:96639182C>T	uc003uom.2	+	4	621	c.621C>T	c.(619-621)AGC>AGT	p.S207S	DLX6AS_uc003uol.2_Intron|DLX6AS_uc010lfo.1_Intron	NM_005222	NP_005213	P56179	DLX6_HUMAN	distal-less homeobox 6	117					nervous system development|skeletal system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					CTCATGAGAGCGACCCCCTCC	0.567													9	93					0	0	0.006214	0	0		T	96639182	T	T	96639182	2	4	39	1	0	0	0	0	0	0	0	1	4581	767	27	1		1	DLX6	7	96639182	Silent	SNP	C	TCGA-BR-6706-01A-11D-1882-08	2597776	96639182	62499481	104	33522											
ZNF789	285989	broad.mit.edu	37	chr7	99077375	99077375	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggacctctaccgagatgTgatgttggagaactacagga	13	8	13	7	1	1	3	0	1	1	2	1	8	1	5	2	3	3	1	2	3	4	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:99077375T>C	uc003uqq.1	+	3	335	c.116T>C	c.(115-117)GTG>GCG	p.V39A	ZNF789_uc003uqp.2_Missense_Mutation_p.V39A|ZNF789_uc010lfw.1_5'UTR	NM_213603	NP_998768	Q5FWF6	ZN789_HUMAN	zinc finger protein 789 isoform 1	39	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					TACCGAGATGTGATGTTGGAG	0.488													19	101					0	0	0.007413	0	0		C	99077375	C	C	99077375	3	2	39	1	0	0	0	0	1	0	0	0	18185	1696	59	3	122	3	ZNF789	7	99077375	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	2438193	99077375	60061288	105	33523											
MUC17	140453	broad.mit.edu	37	chr7	100675453	100675453	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtgaccatttctgctcaAgccagttcatctcctacaac	9	12	5	15	0	4	1	2	1	2	0	5	1	4	1	4	0	4	2	4	0	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:100675453A>C	uc003uxp.1	+	3	809	c.756A>C	c.(754-756)CAA>CAC	p.Q252H	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	252	Extracellular (Potential).|59 X approximate tandem repeats.|2.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TTTCTGCTCAAGCCAGTTCAT	0.507													14	318					0	0	0.00245	0	0		C	100675453	C	C	100675453	3	2	39	1	0	0	0	0	1	0	0	0	9992	69	3	5	766	5	MUC17	7	100675453	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	1598078	100675453	58463210	106	33524											
MUC17	140453	broad.mit.edu	37	chr7	100686766	100686766	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagcagaggctgcactacTtctgcatcaacgctttctgc	9	10	8	14	1	3	1	1	0	2	1	3	1	3	1	1	1	6	5	1	1	2	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:100686766T>G	uc003uxp.1	+	3	12122	c.12069T>G	c.(12067-12069)ACT>ACG	p.T4023T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	4023	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GCTGCACTACTTCTGCATCAA	0.527													16	214					0	0	0.00499	0	0		G	100686766	G	G	100686766	2	3	39	1	0	0	0	0	0	0	0	1	9992	1596	56	5		5	MUC17	7	100686766	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	11313	100686766	58451897	107	33525											
CTTNBP2	83992	broad.mit.edu	37	chr7	117432071	117432071	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggtgtgctactggttggAtctggtgttgagccagtgct	4	13	18	6	0	1	1	0	1	1	0	1	2	1	2	1	5	4	4	1	5	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:117432071A>G	uc003vjf.2	-	4	1271	c.1179T>C	c.(1177-1179)GAT>GAC	p.D393D		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	393	Pro-rich.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		TACTGGTTGGATCTGGTGTTG	0.537													46	204					0	0	0.00361	0	0		G	117432071	G	G	117432071	2	3	39	1	0	0	0	0	0	0	0	1	4048	330	12	3		3	CTTNBP2	7	117432071	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	16745305	117432071	41706592	108	33526											
TSPAN12	23554	broad.mit.edu	37	chr7	120446622	120446622	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttgataaaggtcactgAgatcttcctggtgggcctgt	7	13	11	10	0	3	2	1	2	2	1	4	3	4	2	3	3	0	0	3	3	2	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:120446622A>G	uc003vjk.2	-	7	967	c.593T>C	c.(592-594)CTC>CCC	p.L198P	TSPAN12_uc010lkj.2_Missense_Mutation_p.L71P	NM_012338	NP_036470	O95859	TSN12_HUMAN	transmembrane 4 superfamily member 12	198	Extracellular (Potential).				angiogenesis|cell surface receptor linked signaling pathway|regulation of angiogenesis|retina layer formation	integral to plasma membrane|membrane fraction					0	all_neural(327;0.117)					AAGGTCACTGAGATCTTCCTG	0.403													6	71					0	0	0.001984	0	0		G	120446622	G	G	120446622	3	3	39	1	0	0	0	0	1	0	0	0	16662	304	11	3	332	3	TSPAN12	7	120446622	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	3014551	120446622	38692041	109	33527											
IQUB	154865	broad.mit.edu	37	chr7	123119949	123119949	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgagtctctttttccagaAgttcacacagagcagctttc	9	14	7	11	0	3	3	1	1	2	2	6	3	4	3	1	0	2	3	1	0	1	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:123119949A>G	uc003vkn.2	-	8	1887	c.1310T>C	c.(1309-1311)CTT>CCT	p.L437P	IQUB_uc003vko.2_Missense_Mutation_p.L437P|IQUB_uc010lkt.2_Intron|IQUB_uc003vkp.1_Missense_Mutation_p.L437P	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	437										ovary(3)|large_intestine(1)	4						TTTTTCCAGAAGTTCACACAG	0.393													13	74					0	0	0.001368	0	0		G	123119949	G	G	123119949	3	3	39	1	0	0	0	0	1	0	0	0	7836	72	3	3	1089	3	IQUB	7	123119949	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	2673327	123119949	36018714	110	33528											
CNTNAP2	26047	broad.mit.edu	37	chr7	146825804	146825804	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gataacctttggaggcatccCtttctctggcaagcccagct	8	11	9	13	0	1	0	0	0	1	0	3	2	2	1	3	3	3	3	3	3	2	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:146825804C>A	uc003weu.1	+	7	1475	c.959C>A	c.(958-960)CCT>CAT	p.P320H		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	320	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GGAGGCATCCCTTTCTCTGGC	0.398										HNSCC(39;0.1)			5	152					0.00116845	0.00178425	0.001168	1	0		A	146825804	A	A	146825804	3	1	39	1	0	0	0	0	1	0	0	0	3650	681	24	5	985	5	CNTNAP2	7	146825804	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	23705855	146825804	12312859	111	33529											
CNTNAP2	26047	broad.mit.edu	37	chr7	147914383	147914383	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctcctttataacagatgTtggtgcattttttgaagaag	10	17	8	6	0	1	3	0	1	1	2	3	3	2	3	1	1	2	2	1	1	4	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr7:147914383T>G	uc003weu.1	+	19	3530	c.3014T>G	c.(3013-3015)GTT>GGT	p.V1005G		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	1005	Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ATAACAGATGTTGGTGCATTT	0.478										HNSCC(39;0.1)			6	123					0	0	0.001168	0	0		G	147914383	G	G	147914383	3	3	39	1	0	0	0	0	1	0	0	0	3650	1725	60	5	3088	5	CNTNAP2	7	147914383	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	1088579	147914383	11224280	112	33530											
CSMD1	64478	broad.mit.edu	37	chr8	2820827	2820827	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagagctggtaaccgtccAtgcagctgtaacttatgctg	10	10	12	9	1	0	1	0	0	0	1	1	3	1	1	2	1	6	6	2	1	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr8:2820827A>T	uc011kwk.1	-	60	9764	c.9374T>A	c.(9373-9375)ATG>AAG	p.M3125K	CSMD1_uc011kwj.1_Missense_Mutation_p.M2454K|CSMD1_uc010lrg.2_Missense_Mutation_p.M1016K	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3125	Sushi 25.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GTAACCGTCCATGCAGCTGTA	0.572													7	230					0	0	0.00308	0	0		T	2820827	T	T	2820827	3	4	39	1	0	0	0	0	1	0	0	0	3947	217	8	5	1367	5	CSMD1	8	2820827	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08		2820827	143543195	113	33531											
BLK	640	broad.mit.edu	37	chr8	11421550	11421550	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggagcggcccaccttcgAgttcctgcagtcggtgctgg	5	8	15	13	4	0	0	0	0	0	0	3	3	1	1	3	4	3	3	3	4	0	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr8:11421550A>G	uc003wty.2	+	13	2032	c.1451A>G	c.(1450-1452)GAG>GGG	p.E484G	BLK_uc003wtz.2_Missense_Mutation_p.E413G|BLK_uc003wua.2_Missense_Mutation_p.E320G	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	484	Protein kinase.				intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		CCCACCTTCGAGTTCCTGCAG	0.741													4	16					0	0	0.000602	0	0		G	11421550	G	G	11421550	3	3	39	1	0	0	0	0	1	0	0	0	1445	304	11	3	1497	3	BLK	8	11421550	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	8600723	11421550	134942472	114	33532											
DEFB134	613211	broad.mit.edu	37	chr8	11851601	11851601	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccatttttatagcatttcTtgtgcatttctgatgataat	9	20	6	6	0	2	2	0	2	2	0	2	2	2	2	1	0	3	2	1	0	3	8			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr8:11851601T>C	uc011kxn.1	-	2	89	c.89A>G	c.(88-90)AAG>AGG	p.K30R		NM_001033019	NP_001028191	Q4QY38	DB134_HUMAN	beta-defensin 134 precursor	30					defense response to bacterium	extracellular region					0			STAD - Stomach adenocarcinoma(15;0.033)	COAD - Colon adenocarcinoma(149;0.159)		ATAGCATTTCTTGTGCATTTC	0.363													7	99					0	0	0.001984	0	0		C	11851601	C	C	11851601	3	2	39	1	0	0	0	0	1	0	0	0	4424	1609	56	3	114	3	DEFB134	8	11851601	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	430051	11851601	134512421	115	33533											
MTUS1	57509	broad.mit.edu	37	chr8	17504590	17504590	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgctgtgttgttgtccaccTtggcataaacaagaattcca	11	13	8	9	0	0	1	0	0	0	1	2	1	2	1	3	1	2	4	3	1	4	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr8:17504590T>G	uc003wxv.2	-	14	3976	c.3502_splice	c.e14-1	p.V1168_splice	MTUS1_uc003wxt.2_Splice_Site_p.V415_splice|MTUS1_uc011kyg.1_Splice_Site_p.V313_splice|MTUS1_uc010lsy.2_Splice_Site|MTUS1_uc003wxw.2_Splice_Site_p.V1114_splice|MTUS1_uc003wxs.2_Splice_Site_p.V334_splice	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1							Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		GTTGTCCACCTTGGCATAAAC	0.284													7	82					0	0	0.001984	0	0		G	17504590	G	G	17504590	5	3	39	1	0	0	0	0	0	0	1	0	9983	1623	56	5	320	5	MTUS1	8	17504590	Splice_Site	SNP	T	TCGA-BR-6706-01A-11D-1882-08	5652989	17504590	128859432	116	33534											
MCM4	4173	broad.mit.edu	37	chr8	48883436	48883436	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagactctgtccattgcaaaGgtgagtcgccttctccaccg	8	10	9	14	2	2	2	0	1	2	1	5	2	3	2	4	1	1	1	4	1	1	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr8:48883436G>A	uc003xqk.1	+	12	1895	c.1800G>A	c.(1798-1800)AAG>AAA	p.K600K	MCM4_uc003xql.1_Silent_p.K600K|MCM4_uc011ldi.1_Silent_p.K587K	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	600	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				CCATTGCAAAGGTGAGTCGCC	0.463													13	82					0	0	0.001855	0	0		A	48883436	A	A	48883436	2	1	39	1	0	0	0	0	0	0	0	1	9407	1014	35	4		4	MCM4	8	48883436	Silent	SNP	G	TCGA-BR-6706-01A-11D-1882-08	31378846	48883436	97480586	117	33535											
PREX2	80243	broad.mit.edu	37	chr8	68942747	68942747	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaggagttgctgaagcggActccacggaaacacagtgac	14	5	12	10	2	0	2	0	2	0	0	1	5	1	5	1	3	4	2	1	3	3	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr8:68942747A>G	uc003xxv.1	+	6	586	c.559A>G	c.(559-561)ACT>GCT	p.T187A	PREX2_uc003xxu.1_Missense_Mutation_p.T187A|PREX2_uc011lez.1_Missense_Mutation_p.T122A	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	187	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GCTGAAGCGGACTCCACGGAA	0.463													4	47					0	0	0.000602	0	0		G	68942747	G	G	68942747	3	3	39	1	0	0	0	0	1	0	0	0	12499	275	10	3	581	3	PREX2	8	68942747	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	20059311	68942747	77421275	118	33536											
ZFHX4	79776	broad.mit.edu	37	chr8	77764117	77764117	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggatgttagattccatgAgtttagcagctgtaaacagc	12	11	12	6	0	0	2	0	1	0	1	1	3	1	3	1	2	4	5	1	2	4	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr8:77764117A>G	uc003yav.2	+	10	5212	c.4825A>G	c.(4825-4827)AGT>GGT	p.S1609G	ZFHX4_uc003yau.1_Missense_Mutation_p.S1654G|ZFHX4_uc003yaw.1_Missense_Mutation_p.S1609G	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1609						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AGATTCCATGAGTTTAGCAGC	0.478										HNSCC(33;0.089)			5	72					0	0	0.000602	0	0		G	77764117	G	G	77764117	3	3	39	1	0	0	0	0	1	0	0	0	17660	304	11	3	4994	3	ZFHX4	8	77764117	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	8821370	77764117	68599905	119	33537											
ZFPM2	23414	broad.mit.edu	37	chr8	106813442	106813442	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttccagactcagagggagTtattgcagcaccaggagctc	10	8	12	11	0	1	2	1	0	0	2	3	4	2	4	2	2	3	5	2	2	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr8:106813442T>G	uc003ymd.2	+	8	1155	c.1132T>G	c.(1132-1134)TTA>GTA	p.L378V	ZFPM2_uc011lhs.1_Missense_Mutation_p.L109V|uc003yme.1_5'Flank	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	378	C2H2-type 3.				blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			TCAGAGGGAGTTATTGCAGCA	0.507													19	188					0	0	0.007413	0	0		G	106813442	G	G	106813442	3	3	39	1	0	0	0	0	1	0	0	0	17683	1722	60	5	1162	5	ZFPM2	8	106813442	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	29049325	106813442	39550580	120	33538											
C8orf85	441376	broad.mit.edu	37	chr8	117954916	117954916	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagactcccaaagcccaaaAgatgatgctgcgaatccgga	14	6	9	12	2	1	3	1	1	0	2	3	5	3	4	3	1	3	1	3	1	4	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr8:117954916A>C	uc003yof.2	+	2	463	c.444A>C	c.(442-444)AAA>AAC	p.K148N		NM_001025357	NP_001020528	Q4LEZ3	AARD_HUMAN	alanine and arginine-rich domain-containing	148											0						AAAGCCCAAAAGATGATGCTG	0.303													5	92					0	0	0.001168	0	0		C	117954916	C	C	117954916	3	2	39	1	0	0	0	0	1	0	0	0	2444	69	3	5	450	5	C8orf85	8	117954916	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	11141474	117954916	28409106	121	33539											
FER1L6	654463	broad.mit.edu	37	chr8	125082784	125082784	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgagctcttcagaggcaAgtctacggaagatgaccatg	11	11	11	8	1	3	4	1	2	2	2	3	5	3	5	1	2	2	2	1	2	3	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr8:125082784A>G	uc003yqw.2	+	30	4117	c.3911A>G	c.(3910-3912)AAG>AGG	p.K1304R	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1304	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TTCAGAGGCAAGTCTACGGAA	0.408													16	119					0	0	0.004007	0	0		G	125082784	G	G	125082784	3	3	39	1	0	0	0	0	1	0	0	0	5829	72	3	3	4025	3	FER1L6	8	125082784	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	7127868	125082784	21281238	122	33540											
GSDMC	56169	broad.mit.edu	37	chr8	130761760	130761760	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccagcaaatcgtgttggaAgtcactcagcactgagggtg	10	8	14	9	1	2	1	2	1	0	0	3	2	2	2	1	3	2	3	1	3	2	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr8:130761760A>C	uc003ysr.2	-	13	2107	c.1225T>G	c.(1225-1227)TTC>GTC	p.F409V		NM_031415	NP_113603	Q9BYG8	GSDMC_HUMAN	melanoma-derived leucine zipper, extra-nuclear	409						mitochondrion				ovary(2)|skin(1)	3						TCGTGTTGGAAGTCACTCAGC	0.527													15	94					0	0	0.004007	0	0		C	130761760	C	C	130761760	3	2	39	1	0	0	0	0	1	0	0	0	6834	72	3	5	309	5	GSDMC	8	130761760	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	5678976	130761760	15602262	123	33541											
TG	7038	broad.mit.edu	37	chr8	133899716	133899716	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcctgtccagtgcttcaActcagagtgctactgtgttg	6	13	10	12	0	2	1	2	0	0	1	3	1	3	1	3	0	5	3	3	0	2	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr8:133899716A>G	uc003ytw.2	+	9	2140	c.2099A>G	c.(2098-2100)AAC>AGC	p.N700S		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	700	Thyroglobulin type-1 6.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CAGTGCTTCAACTCAGAGTGC	0.522													12	93					0	0	0.003163	0	0		G	133899716	G	G	133899716	3	3	39	1	0	0	0	0	1	0	0	0	15838	43	2	3	2133	3	TG	8	133899716	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	3137956	133899716	12464306	124	33542											
SMARCA2	6595	broad.mit.edu	37	chr9	2123719	2123719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcttattaatgtctccagCggatggacatggaccggcgg	8	10	12	11	3	2	0	0	0	2	0	3	3	2	3	3	5	1	0	3	5	2	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:2123719C>T	uc003zhc.2	+	27	3862	c.3763C>T	c.(3763-3765)CGG>TGG	p.R1255W	SMARCA2_uc003zhd.2_Missense_Mutation_p.R1255W|SMARCA2_uc010mha.2_Missense_Mutation_p.R1188W	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1255					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		ATGTCTCCAGCGGATGGACAT	0.542													7	68					0	0	0.00308	0	0		T	2123719	T	T	2123719	3	4	39	1	0	0	0	0	1	0	0	0	14794	782	27	1	3865	1	SMARCA2	9	2123719	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08		2123719	139089712	125	33543											
JAK2	3717	broad.mit.edu	37	chr9	5077540	5077540	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tataaatatattatggaaacTtgaagttgctaaacagttgg	16	14	8	3	0	0	1	0	1	0	0	0	2	0	2	0	2	3	3	0	2	10	9			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:5077540T>G	uc010mhm.2	+	14	2065	c.1952T>G	c.(1951-1953)CTT>CGT	p.L651R	JAK2_uc003ziw.2_Missense_Mutation_p.L651R	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	651	Protein kinase 1.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		TTATGGAAACTTGAAGTTGCT	0.259		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				5	179					0	0	0.001168	0	0		G	5077540	G	G	5077540	3	3	39	1	0	0	0	0	1	0	0	0	7954	1609	56	5	2002	5	JAK2	9	5077540	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	2953821	5077540	136135891	126	33544											
IL33	90865	broad.mit.edu	37	chr9	6255985	6255985	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctccataagtgtgaaaaAccactgccagaccaggcctt	13	7	8	13	0	0	2	0	1	0	1	1	2	1	2	5	1	3	1	5	1	3	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:6255985A>C	uc003zjt.2	+	8	687	c.630A>C	c.(628-630)AAA>AAC	p.K210N	IL33_uc011lmg.1_Missense_Mutation_p.K168N|IL33_uc011lmh.1_Missense_Mutation_p.K84N|IL33_uc003zju.1_Missense_Mutation_p.K210N	NM_033439	NP_254274	O95760	IL33_HUMAN	interleukin 33 precursor	210					positive regulation of chemokine secretion|positive regulation of inflammatory response|positive regulation of macrophage activation|positive regulation of transcription from RNA polymerase II promoter	extracellular space	cytokine activity				0		Acute lymphoblastic leukemia(23;0.158)|Prostate(43;0.167)		GBM - Glioblastoma multiforme(50;0.0161)|Lung(218;0.105)		AGTGTGAAAAACCACTGCCAG	0.418													5	177					0	0	0.000602	0	0		C	6255985	C	C	6255985	3	2	39	1	0	0	0	0	1	0	0	0	7709	40	2	5	656	5	IL33	9	6255985	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	1178445	6255985	134957446	127	33545											
BNC2	54796	broad.mit.edu	37	chr9	16436469	16436469	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcccctggagtgagtaaacTtctataaaatggaggaactg	13	11	10	7	0	1	1	0	1	1	0	2	4	2	4	2	3	2	1	2	3	6	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:16436469T>G	uc003zml.2	-	6	1863	c.1723A>C	c.(1723-1725)AGT>CGT	p.S575R	BNC2_uc011lmw.1_Missense_Mutation_p.S480R|BNC2_uc003zmm.2_Missense_Mutation_p.S533R|BNC2_uc003zmq.1_Missense_Mutation_p.S589R|BNC2_uc003zmr.1_Missense_Mutation_p.S612R|BNC2_uc003zmp.1_Missense_Mutation_p.S603R|BNC2_uc010mij.1_Missense_Mutation_p.S497R|BNC2_uc011lmv.1_Missense_Mutation_p.S401R|BNC2_uc003zmo.1_Missense_Mutation_p.S497R|BNC2_uc003zmj.2_Missense_Mutation_p.S340R|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.S340R|BNC2_uc003zmn.1_Missense_Mutation_p.S340R	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	575	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		GTGAGTAAACTTCTATAAAAT	0.517													5	122					0	0	0.000602	0	0		G	16436469	G	G	16436469	3	3	39	1	0	0	0	0	1	0	0	0	1476	1609	56	5	1584	5	BNC2	9	16436469	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	10180484	16436469	124776962	128	33546											
RNF38	152006	broad.mit.edu	37	chr9	36357894	36357894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagtggaatcccatgtggtgCcactgttgttactgtgtaag	8	13	13	7	0	0	0	0	0	0	0	1	2	1	1	2	2	2	3	2	2	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:36357894C>T	uc003zzh.2	-	5	807	c.616G>A	c.(616-618)GCA>ACA	p.A206T	RNF38_uc003zzi.2_Missense_Mutation_p.A156T|RNF38_uc003zzj.2_Missense_Mutation_p.A123T|RNF38_uc003zzk.2_Missense_Mutation_p.A123T|RNF38_uc003zzl.2_Missense_Mutation_p.A130T|RNF38_uc003zzm.2_Missense_Mutation_p.A123T	NM_022781	NP_073618	Q9H0F5	RNF38_HUMAN	ring finger protein 38 isoform 1	206			A -> T.				zinc ion binding			central_nervous_system(1)	1			STAD - Stomach adenocarcinoma(86;0.228)			CCATGTGGTGCCACTGTTGTT	0.453													8	104					0	0	0.006214	0	0		T	36357894	T	T	36357894	3	4	39	1	0	0	0	0	1	0	0	0	13515	739	26	2	963	2	RNF38	9	36357894	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	19921425	36357894	104855537	129	33547											
TRPM3	80036	broad.mit.edu	37	chr9	73240173	73240173	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcgtgtagttgcagcgataAgccccgcccatcaggtactc	8	8	11	14	4	1	0	1	0	0	0	2	1	1	0	3	1	4	4	3	1	3	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:73240173A>C	uc004aid.2	-	13	1951	c.1707T>G	c.(1705-1707)GCT>GCG	p.A569A	TRPM3_uc004ahu.2_Silent_p.A399A|TRPM3_uc004ahv.2_Silent_p.A381A|TRPM3_uc004ahw.2_Silent_p.A441A|TRPM3_uc004ahx.2_Silent_p.A428A|TRPM3_uc004ahy.2_Silent_p.A441A|TRPM3_uc004ahz.2_Silent_p.A428A|TRPM3_uc004aia.2_Silent_p.A416A|TRPM3_uc004aib.2_Silent_p.A416A|TRPM3_uc004aic.2_Silent_p.A569A	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	594	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						TGCAGCGATAAGCCCCGCCCA	0.582													5	41					0	0	0.000602	0	0		C	73240173	C	C	73240173	2	2	39	1	0	0	0	0	0	0	0	1	16613	59	3	5		5	TRPM3	9	73240173	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	36882279	73240173	67973258	130	33548											
PTPDC1	138639	broad.mit.edu	37	chr9	96847701	96847701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cattaagggggtttactcatCctggtgagtgatcctgttgg	7	14	13	7	0	1	2	1	2	0	0	3	2	3	2	2	4	1	2	2	4	2	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:96847701C>T	uc004auf.1	+	3	591	c.251C>T	c.(250-252)TCC>TTC	p.S84F	PTPDC1_uc004aug.1_Missense_Mutation_p.S84F|PTPDC1_uc004auh.1_Missense_Mutation_p.S136F|PTPDC1_uc010mrj.1_Missense_Mutation_p.S138F|PTPDC1_uc010mri.1_Missense_Mutation_p.S136F	NM_177995	NP_818931	A2A3K4	PTPC1_HUMAN	protein tyrosine phosphatase domain containing 1	84							protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1						GTTTACTCATCCTGGTGAGTG	0.483													4	76					0	0	0.009096	0	0		T	96847701	T	T	96847701	3	4	39	1	0	0	0	0	1	0	0	0	12796	855	30	4	499	4	PTPDC1	9	96847701	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	23607528	96847701	44365730	131	33549											
FOXE1	2304	broad.mit.edu	37	chr9	100616468	100616468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcgcttccccttctaccGcgacaaccccaaaaagtggc	10	6	8	17	4	1	0	0	0	1	0	2	2	2	0	5	1	3	1	5	1	4	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:100616468G>A	uc004axu.2	+	1	932	c.272G>A	c.(271-273)CGC>CAC	p.R91H		NM_004473	NP_004464	O00358	FOXE1_HUMAN	forkhead box E1	91	Fork-head.				cell migration|embryonic organ morphogenesis|hair follicle morphogenesis|hard palate development|lens morphogenesis in camera-type eye|negative regulation of transcription from RNA polymerase II promoter|pattern specification process|peripheral nervous system development|pharynx development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|soft palate development|thymus development|thyroid gland development|thyroid hormone generation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		Acute lymphoblastic leukemia(62;0.158)				CCCTTCTACCGCGACAACCCC	0.647													7	75					0	0	0.001984	0	0		A	100616468	A	A	100616468	3	1	39	1	0	0	0	0	1	0	0	0	6017	1087	38	1	274	1	FOXE1	9	100616468	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	3768767	100616468	40596963	132	33550											
LPPR1	54886	broad.mit.edu	37	chr9	104075105	104075105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattacaagcacaatcaagaCgaagagcagtcgactggcca	16	6	9	10	2	1	2	1	0	0	2	2	4	1	2	1	1	3	2	1	1	6	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:104075105C>T	uc004bbb.2	+	6	1061	c.662C>T	c.(661-663)ACG>ATG	p.T221M	LPPR1_uc011lvi.1_Missense_Mutation_p.T197M|LPPR1_uc004bbc.2_Missense_Mutation_p.T221M|LPPR1_uc010mtc.2_Missense_Mutation_p.T205M	NM_207299	NP_997182	Q8TBJ4	LPPR1_HUMAN	plasticity related gene 3	221						integral to membrane	catalytic activity				0						ACAATCAAGACGAAGAGCAGT	0.547													11	95					0	0	0.008291	0	0		T	104075105	T	T	104075105	3	4	39	1	0	0	0	0	1	0	0	0	8942	536	19	1	680	1	LPPR1	9	104075105	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	3458637	104075105	37138326	133	33551											
ZNF462	58499	broad.mit.edu	37	chr9	109736459	109736459	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagctgggcactcagcagTtcccgaggagggccccaaag	10	4	15	12	1	1	0	1	0	0	0	2	3	2	2	3	4	2	4	3	4	2	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:109736459T>C	uc004bcz.2	+	9	7026	c.6737T>C	c.(6736-6738)GTT>GCT	p.V2246A	ZNF462_uc010mto.2_Missense_Mutation_p.V2155A|ZNF462_uc004bda.2_Missense_Mutation_p.V2154A|ZNF462_uc011lvz.1_Missense_Mutation_p.V203A|ZNF462_uc004bdb.1_Missense_Mutation_p.V154A	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	2246					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						CACTCAGCAGTTCCCGAGGAG	0.517													44	360					0	0	0.00361	0	0		C	109736459	C	C	109736459	3	2	39	1	0	0	0	0	1	0	0	0	17951	1725	60	3	6767	3	ZNF462	9	109736459	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	5661354	109736459	31476972	134	33552											
OR2K2	26248	broad.mit.edu	37	chr9	114090461	114090461	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttttctgggatgacagcaAgttcaccagcaaagtaggaa	13	9	12	7	0	2	1	1	1	1	0	2	3	2	3	1	3	2	5	1	3	4	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:114090461A>C	uc011lwp.1	-	1	253	c.253T>G	c.(253-255)TTG>GTG	p.L85V		NM_205859	NP_995581	Q8NGT1	OR2K2_HUMAN	olfactory receptor, family 2, subfamily K,	114	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GATGACAGCAAGTTCACCAGC	0.458													4	51					0	0	0.000602	0	0		C	114090461	C	C	114090461	3	2	39	1	0	0	0	0	1	0	0	0	11024	69	3	5	700	5	OR2K2	9	114090461	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	4354002	114090461	27122970	135	33553											
TLR4	7099	broad.mit.edu	37	chr9	120475898	120475898	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcacagagctgagaaacTtgaccttcctggacctctct	9	12	7	13	0	3	3	1	2	2	2	5	5	4	4	3	1	2	1	3	1	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:120475898T>G	uc004bjz.2	+	3	1783	c.1492T>G	c.(1492-1494)TTG>GTG	p.L498V	TLR4_uc004bka.2_Missense_Mutation_p.L458V|TLR4_uc004bkb.2_Missense_Mutation_p.L298V	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	498	LRR 16.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						GCTGAGAAACTTGACCTTCCT	0.448													9	90					0	0	0.004482	0	0		G	120475898	G	G	120475898	3	3	39	1	0	0	0	0	1	0	0	0	15978	1606	56	5	1502	5	TLR4	9	120475898	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	6385437	120475898	20737533	136	33554											
STRBP	55342	broad.mit.edu	37	chr9	125936031	125936031	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtctttgcacattaaaacCagctccaagtccatatcatc	12	13	4	12	0	2	0	1	0	1	0	5	0	4	0	3	0	3	2	3	0	4	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr9:125936031C>T	uc004bns.2	-	5	745	c.315G>A	c.(313-315)CTG>CTA	p.L105L	STRBP_uc004bnt.2_5'UTR|STRBP_uc004bnu.2_Silent_p.L91L|STRBP_uc004bnv.2_Silent_p.L105L	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	105	DZF.				multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2						ACATTAAAACCAGCTCCAAGT	0.408													6	116					0	0	0.001168	0	0		T	125936031	T	T	125936031	2	4	39	1	0	0	0	0	0	0	0	1	15352	581	21	4		4	STRBP	9	125936031	Silent	SNP	C	TCGA-BR-6706-01A-11D-1882-08	5460133	125936031	15277400	137	33555											
NEBL	10529	broad.mit.edu	37	chr10	21139351	21139351	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatcttttgagcctccttTgaagcttgatatgatggtgt	7	17	10	7	0	1	4	0	4	1	0	2	4	2	4	2	1	3	2	2	1	2	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr10:21139351T>G	uc001iqi.2	-	11	1486	c.1089A>C	c.(1087-1089)TCA>TCC	p.S363S	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	363	Nebulin 10.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						GAGCCTCCTTTGAAGCTTGAT	0.318													13	158					0	0	0.00499	0	0		G	21139351	G	G	21139351	2	3	39	1	0	0	0	0	0	0	0	1	10322	1799	63	5		5	NEBL	10	21139351	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08		21139351	114395396	138	33556											
PGBD3	267004	broad.mit.edu	37	chr10	50724274	50724274	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtggcaccacaccaaaacTtatagccaaaccgaatgggc	15	5	9	12	1	0	0	0	0	0	0	0	1	0	0	4	3	3	1	4	3	6	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr10:50724274T>G	uc001jht.2	-	2	1142	c.887A>C	c.(886-888)AAG>ACG	p.K296T	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Missense_Mutation_p.K764T|PGBD3_uc001jhu.2_Missense_Mutation_p.K764T	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	296										pancreas(1)|breast(1)|skin(1)	3						ACACCAAAACTTATAGCCAAA	0.433													10	46					0	0	0.001368	0	0		G	50724274	G	G	50724274	3	3	39	1	0	0	0	0	1	0	0	0	11801	1609	56	5	898	5	PGBD3	10	50724274	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	29584923	50724274	84810473	139	33557											
PCDH15	65217	broad.mit.edu	37	chr10	55700715	55700715	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatggtccctttggtggcaAgttcacttactggaggaggt	7	12	13	9	0	1	0	1	0	0	0	2	2	2	2	2	6	1	2	2	6	2	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr10:55700715A>G	uc001jju.1	-	24	3538	c.3143T>C	c.(3142-3144)CTT>CCT	p.L1048P	PCDH15_uc010qhq.1_Missense_Mutation_p.L1053P|PCDH15_uc010qhr.1_Missense_Mutation_p.L1048P|PCDH15_uc010qhs.1_Missense_Mutation_p.L1060P|PCDH15_uc010qht.1_Missense_Mutation_p.L1055P|PCDH15_uc010qhu.1_Missense_Mutation_p.L1048P|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.L1048P|PCDH15_uc010qhw.1_Missense_Mutation_p.L1011P|PCDH15_uc010qhx.1_Missense_Mutation_p.L977P|PCDH15_uc010qhy.1_Missense_Mutation_p.L1053P|PCDH15_uc010qhz.1_Missense_Mutation_p.L1048P|PCDH15_uc010qia.1_Missense_Mutation_p.L1026P|PCDH15_uc010qib.1_Missense_Mutation_p.L1026P	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1048	Cadherin 10.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TTTGGTGGCAAGTTCACTTAC	0.308										HNSCC(58;0.16)			5	70					0	0	0.000602	0	0		G	55700715	G	G	55700715	3	3	39	1	0	0	0	0	1	0	0	0	11530	72	3	3	4383	3	PCDH15	10	55700715	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	4976441	55700715	79834032	140	33558											
ARHGAP19	84986	broad.mit.edu	37	chr10	99019212	99019212	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggcaaggttataggctgAcatcttgttcttgtcttgtt	8	16	11	6	0	3	1	0	1	3	0	3	1	3	1	0	3	0	5	0	3	4	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr10:99019212A>C	uc001knb.2	-	5	816	c.787T>G	c.(787-789)TCA>GCA	p.S263A	ARHGAP19_uc001kmy.2_RNA|ARHGAP19_uc001kna.2_Missense_Mutation_p.S254A|ARHGAP19_uc009xvi.2_RNA|ARHGAP19_uc009xvj.2_Missense_Mutation_p.S263A|ARHGAP19_uc009xvk.2_Missense_Mutation_p.S57A	NM_032900	NP_116289	Q14CB8	RHG19_HUMAN	Rho GTPase activating protein 19	263	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	GTPase activator activity				0		Colorectal(252;0.0854)		Epithelial(162;7.65e-09)|all cancers(201;4.49e-07)		TTATAGGCTGACATCTTGTTC	0.438													18	154					0	0	0.003954	0	0		C	99019212	C	C	99019212	3	2	39	1	0	0	0	0	1	0	0	0	869	275	10	5	729	5	ARHGAP19	10	99019212	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	43318497	99019212	36515535	141	33559											
CPN1	1369	broad.mit.edu	37	chr10	101802248	101802248	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctggcttggggctgcactTtggctctgactccgtgcctt	2	15	12	12	1	2	1	0	1	2	0	3	1	3	1	2	4	2	4	2	4	0	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr10:101802248T>G	uc001kql.2	-	9	1573	c.1313A>C	c.(1312-1314)AAA>ACA	p.K438T		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	438					proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		GGGCTGCACTTTGGCTCTGAC	0.527													8	92					0	0	0.00308	0	0		G	101802248	G	G	101802248	3	3	39	1	0	0	0	0	1	0	0	0	3812	1841	64	5	67	5	CPN1	10	101802248	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	2783036	101802248	33732499	142	33560											
LBX1	10660	broad.mit.edu	37	chr10	102987446	102987446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacttctggtatagaaagcGcttttccaattcatagatct	11	15	7	8	1	3	2	1	0	2	2	4	2	4	2	1	1	2	3	1	1	6	8			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr10:102987446G>A	uc001ksx.2	-	2	572	c.427C>T	c.(427-429)CGC>TGC	p.R143C	uc010qpy.1_5'Flank	NM_006562	NP_006553	P52954	LBX1_HUMAN	ladybird homeobox 1	143	Homeobox.				muscle organ development		sequence-specific DNA binding				0		Colorectal(252;0.234)		Epithelial(162;3.22e-09)|all cancers(201;1.79e-07)		TATAGAAAGCGCTTTTCCAAT	0.582													5	196					0	0	0.000602	0	0		A	102987446	A	A	102987446	3	1	39	1	0	0	0	0	1	0	0	0	8669	1087	38	1	422	1	LBX1	10	102987446	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	1185198	102987446	32547301	143	33561											
NOLC1	9221	broad.mit.edu	37	chr10	103919991	103919991	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctacaggttctcctcagaTtcaagttctgaagaagagaa	13	11	9	8	0	4	4	2	1	2	3	5	5	4	4	1	1	2	3	1	1	5	4	rs151088360	byFrequency	TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr10:103919991T>G	uc001kuo.2	+	9	1225	c.990T>G	c.(988-990)GAT>GAG	p.D330E	NOLC1_uc001kup.2_Missense_Mutation_p.D340E|NOLC1_uc001kuq.2_Missense_Mutation_p.D331E|NOLC1_uc009xxb.1_Missense_Mutation_p.D49E|NOLC1_uc001kur.2_Missense_Mutation_p.D49E	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	330	11 X 12 AA approximate repeats of an acidic serine cluster.|Interacts with RPA194.|Acidic serine cluster 6.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		TCTCCTCAGATTCAAGTTCTG	0.473													18	129					0	0	0.010504	0	0		G	103919991	G	G	103919991	3	3	39	1	0	0	0	0	1	0	0	0	10548	1507	52	5	1024	5	NOLC1	10	103919991	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	932545	103919991	31614756	144	33562											
PSD	5662	broad.mit.edu	37	chr10	104164417	104164417	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctaacagcagctgggaaggGgggcgcagagaacatagcgg	12	3	18	8	2	0	1	0	0	0	1	0	3	0	2	0	5	5	4	0	5	4	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr10:104164417G>T	uc001kvg.1	-	15	3150	c.2623C>A	c.(2623-2625)CCC>ACC	p.P875T	PSD_uc001kve.1_Missense_Mutation_p.P83T|PSD_uc001kvf.1_Missense_Mutation_p.P244T|PSD_uc001kvh.1_Missense_Mutation_p.P496T|PSD_uc009xxd.1_Missense_Mutation_p.P875T	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	875					regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		GCTGGGAAGGGGGGCGCAGAG	0.612													8	256					2.17888e-05	3.37278e-05	0.006214	1	0		T	104164417	T	T	104164417	3	4	39	1	0	0	0	0	1	0	0	0	12668	1232	43	5	463	5	PSD	10	104164417	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	244426	104164417	31370330	145	33563											
TRIM8	81603	broad.mit.edu	37	chr10	104416988	104416988	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctcccgcccacaccctcCgtcccccagtcccttcccag	4	6	5	26	3	0	0	0	0	0	0	5	0	5	0	9	0	0	1	9	0	0	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr10:104416988C>T	uc001kvz.2	+	6	1656	c.1533C>T	c.(1531-1533)TCC>TCT	p.S511S		NM_030912	NP_112174	Q9BZR9	TRIM8_HUMAN	tripartite motif-containing 8	511						cytoplasm|PML body	ligase activity|protein homodimerization activity|zinc ion binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CCACACCCTCCGTCCCCCAGT	0.682													3	27					0	0	0.009096	0	0		T	104416988	T	T	104416988	2	4	39	1	0	0	0	0	0	0	0	1	16574	639	23	1		1	TRIM8	10	104416988	Silent	SNP	C	TCGA-BR-6706-01A-11D-1882-08	252571	104416988	31117759	146	33564											
PNLIPRP3	119548	broad.mit.edu	37	chr10	118236234	118236234	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaacgttggaaacattacaAgtgttcagttcatctggaaa	14	13	8	6	1	3	0	2	0	1	0	3	2	3	2	0	2	3	3	0	2	5	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr10:118236234A>C	uc001lcl.3	+	11	1344	c.1243A>C	c.(1243-1245)AGT>CGT	p.S415R		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	415	PLAT.				lipid catabolic process	extracellular region	triglyceride lipase activity	p.S415C(1)		ovary(1)	1				all cancers(201;0.0131)		AAACATTACAAGTGTTCAGTT	0.338													8	88					0	0	0.00308	0	0		C	118236234	C	C	118236234	3	2	39	1	0	0	0	0	1	0	0	0	12171	72	3	5	1285	5	PNLIPRP3	10	118236234	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	13819246	118236234	17298513	147	33565											
SLC18A2	6571	broad.mit.edu	37	chr10	119003515	119003515	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagttatctgtacagcattaAgcatgagaagaatgctacag	16	10	9	6	0	1	2	0	1	1	2	1	3	1	2	0	0	5	5	0	0	7	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr10:119003515A>C	uc001ldd.1	+	3	186	c.155A>C	c.(154-156)AAG>ACG	p.K52T	SLC18A2_uc009xyy.1_5'UTR	NM_003054	NP_003045	Q05940	VMAT2_HUMAN	solute carrier family 18 (vesicular monoamine),	52	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted monoamine transport vesicle membrane|integral to plasma membrane|membrane fraction	monoamine transmembrane transporter activity				0		Colorectal(252;0.19)		all cancers(201;0.029)	Alseroxylon(DB00386)|Reserpine(DB00206)|Tetrabenazine(DB04844)	TACAGCATTAAGCATGAGAAG	0.488													6	40					0	0	0.00308	0	0		C	119003515	C	C	119003515	3	2	39	1	0	0	0	0	1	0	0	0	14451	72	3	5	161	5	SLC18A2	10	119003515	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	767281	119003515	16531232	148	33566											
TACC2	10579	broad.mit.edu	37	chr10	123843481	123843481	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggggaccctggagaggTtcctgccccatcaccccagg	9	5	13	14	0	1	2	1	0	0	2	2	4	2	3	6	5	1	1	6	5	1	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr10:123843481T>C	uc001lfv.2	+	4	1826	c.1466T>C	c.(1465-1467)GTT>GCT	p.V489A	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.V489A|TACC2_uc010qtv.1_Missense_Mutation_p.V489A	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	489	Pro-rich.					microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				CCTGGAGAGGTTCCTGCCCCA	0.597													20	161					0	0	0.008871	0	0		C	123843481	C	C	123843481	3	2	39	1	0	0	0	0	1	0	0	0	15527	1725	60	3	1476	3	TACC2	10	123843481	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	4839966	123843481	11691266	149	33567											
CARS	833	broad.mit.edu	37	chr11	3040369	3040369	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactctgttttcacctacCtccgactgtgccagctcatt	6	13	8	14	1	3	0	2	0	1	0	4	2	4	1	4	1	3	2	4	1	1	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:3040369C>T	uc001lxh.2	-	11	1220	c.1146G>A	c.(1144-1146)GAG>GAA	p.E382E	CARS_uc001lxe.2_Silent_p.E372E|CARS_uc001lxf.2_Silent_p.E465E|CARS_uc001lxg.2_Silent_p.E382E|CARS_uc010qxo.1_Silent_p.E465E|CARS_uc010qxp.1_Silent_p.E395E	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	382					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	TTTCACCTACCTCCGACTGTG	0.582			T	ALK	ALCL								5	252					0	0	0.001168	0	0		T	3040369	T	T	3040369	2	4	39	1	0	0	0	0	0	0	0	1	2660	695	24	4		4	CARS	11	3040369	Silent	SNP	C	TCGA-BR-6706-01A-11D-1882-08		3040369	131966147	150	33568											
OR52K2	119774	broad.mit.edu	37	chr11	4471192	4471192	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcgctgtggccatgtttaTtgtggtgttggacctgctcc	4	15	12	10	1	0	0	0	0	0	0	2	1	1	1	3	3	1	4	3	3	1	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:4471192T>G	uc001lyz.1	+	1	623	c.623T>G	c.(622-624)ATT>AGT	p.I208S		NM_001005172	NP_001005172	Q8NGK3	O52K2_HUMAN	olfactory receptor, family 52, subfamily K,	208	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.48e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0821)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCCATGTTTATTGTGGTGTTG	0.502													6	335					0	0	0.001984	0	0		G	4471192	G	G	4471192	3	3	39	1	0	0	0	0	1	0	0	0	11143	1493	52	5	625	5	OR52K2	11	4471192	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	1430823	4471192	130535324	151	33569											
OR51G1	79324	broad.mit.edu	37	chr11	4945175	4945175	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggacggtggagtcatgcAgtgggttgcagacggccacg	8	7	17	9	3	2	1	2	0	0	1	2	3	2	3	1	5	2	3	1	5	0	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:4945175A>C	uc010qyr.1	-	1	395	c.395T>G	c.(394-396)CTG>CGG	p.L132R		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	132	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGAGTCATGCAGTGGGTTGCA	0.512													5	77					0	0	0.001168	0	0		C	4945175	C	C	4945175	3	2	39	1	0	0	0	0	1	0	0	0	11117	188	7	5	572	5	OR51G1	11	4945175	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	473983	4945175	130061341	152	33570											
OR56A3	390083	broad.mit.edu	37	chr11	5969389	5969389	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacatgtggctaagaagaaAgtctcccctgatgtgccagt	12	9	10	10	0	1	3	0	1	1	2	2	3	1	3	3	1	1	1	3	1	3	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:5969389A>C	uc010qzt.1	+	1	813	c.813A>C	c.(811-813)AAA>AAC	p.K271N		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	271	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTAAGAAGAAAGTCTCCCCTG	0.493													26	262					0	0	0.004656	0	0		C	5969389	C	C	5969389	3	2	39	1	0	0	0	0	1	0	0	0	11153	69	3	5	815	5	OR56A3	11	5969389	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	1024214	5969389	129037127	153	33571											
LRP4	4038	broad.mit.edu	37	chr11	46896598	46896598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcacaggagaagccagaagGccgaggcaagcagaggtggg	13	1	19	8	1	0	3	0	0	0	3	0	5	0	3	2	6	2	3	2	6	3	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:46896598G>A	uc001ndn.3	-	28	4128	c.3982C>T	c.(3982-3984)CCT>TCT	p.P1328S		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1328	Extracellular (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		AAGCCAGAAGGCCGAGGCAAG	0.572													8	57					0	0	0.00308	0	0		A	46896598	A	A	46896598	3	1	39	1	0	0	0	0	1	0	0	0	8977	1203	42	2	1779	2	LRP4	11	46896598	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	40927209	46896598	88109918	154	33572											
OR4C6	219432	broad.mit.edu	37	chr11	55433389	55433390	+	Missense_Mutation	DNP	TG	AT	AT																															acggtggttgtattgttcttTgtcccctgtattttcttgta																								rs75211559		TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:55433389_55433390TG>AT	uc001nht.3	+	3	1012_1013	c.747_748TG>AT	c.(745-750)TTTGTC>TTATTC	p.249_250FV>LF	OR4C6_uc010rik.1_Missense_Mutation_p.249_250FV>LF	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	249_250	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TATTGTTCTTTGTCCCCTGTAT	0.5													9	168					0	0	0.004672	0	0		AT	55433390	AT	AT	55433389	3	1	39	1	0	0	0	0	1	0	0	0	11071	1809	63	5	749	5	OR4C6	11	55433389	Missense_Mutation	DNP	TG	TCGA-BR-6706-01A-11D-1882-08	8536791	55433389	79573127	155	33573											
OR5D14	219436	broad.mit.edu	37	chr11	55563569	55563569	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaatgtaatcaaccacttcTtttgtgagtatactgctctc	10	16	5	10	0	3	1	1	1	2	0	4	1	3	1	1	0	3	3	1	0	5	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:55563569T>C	uc010rim.1	+	1	538	c.538T>C	c.(538-540)TTT>CTT	p.F180L		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				CAACCACTTCTTTTGTGAGTA	0.478													45	292					0	0	0.00361	0	0		C	55563569	C	C	55563569	3	2	39	1	0	0	0	0	1	0	0	0	11174	1609	56	3	540	3	OR5D14	11	55563569	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	130180	55563569	79442947	156	33574											
OR5T2	219464	broad.mit.edu	37	chr11	55999756	55999756	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtccgaagcatagctggaActtggtctcacatacatgaa	12	10	10	9	1	1	1	1	1	1	0	3	3	2	2	1	3	4	2	1	3	5	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:55999756A>C	uc010rjc.1	-	1	906	c.906T>G	c.(904-906)AGT>AGG	p.S302R		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	302	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CATAGCTGGAACTTGGTCTCA	0.433													4	158					0	0	0.009096	0	0		C	55999756	C	C	55999756	3	2	39	1	0	0	0	0	1	0	0	0	11201	40	2	5	172	5	OR5T2	11	55999756	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	436187	55999756	79006760	157	33575											
MS4A6A	64231	broad.mit.edu	37	chr11	59949151	59949151	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgggagaagttgatgacaTttgatgggagcactatgatg	11	12	14	4	0	0	5	0	4	0	1	0	7	0	6	0	2	1	2	0	2	2	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:59949151T>G	uc001nor.2	-	2	288	c.50A>C	c.(49-51)AAT>ACT	p.N17T	MS4A6A_uc001noq.2_Missense_Mutation_p.N17T|MS4A6A_uc001nos.3_Missense_Mutation_p.N45T|MS4A6A_uc009ymv.2_Missense_Mutation_p.N17T|MS4A6A_uc001not.2_Missense_Mutation_p.N17T|MS4A6A_uc010rla.1_Missense_Mutation_p.N45T|MS4A6A_uc010rlb.1_Missense_Mutation_p.N17T	NM_152852	NP_690591	Q9H2W1	M4A6A_HUMAN	membrane-spanning 4-domains, subfamily A, member	17	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						GTTGATGACATTTGATGGGAG	0.423													22	172					0	0	0.00278	0	0		G	59949151	G	G	59949151	3	3	39	1	0	0	0	0	1	0	0	0	9882	1493	52	5	747	5	MS4A6A	11	59949151	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	3949395	59949151	75057365	158	33576											
MS4A10	341116	broad.mit.edu	37	chr11	60561521	60561521	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgtcatctccaaggatcTctttctggagagcccatttg	7	14	8	12	1	4	1	1	0	3	1	7	3	4	2	2	2	1	0	2	2	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:60561521T>C	uc001npz.1	+	5	533	c.437T>C	c.(436-438)CTC>CCC	p.L146P		NM_206893	NP_996776	Q96PG2	M4A10_HUMAN	membrane-spanning 4-domains, subfamily A, member	146	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|skin(1)	2						TCCAAGGATCTCTTTCTGGAG	0.517													18	119					0	0	0.006122	0	0		C	60561521	C	C	60561521	3	2	39	1	0	0	0	0	1	0	0	0	9873	1551	54	3	451	3	MS4A10	11	60561521	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	612370	60561521	74444995	159	33577											
NUMA1	4926	broad.mit.edu	37	chr11	71724063	71724063	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagtgctctgtgcttctcGctgcacctcagccagacggg	5	9	13	14	2	3	1	1	0	2	1	4	1	3	1	2	2	4	5	2	2	0	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:71724063G>A	uc001orl.1	-	15	4658	c.4486C>T	c.(4486-4488)CGA>TGA	p.R1496*	NUMA1_uc009ysw.1_Nonsense_Mutation_p.R1059*|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Nonsense_Mutation_p.R1496*|NUMA1_uc001orn.2_Nonsense_Mutation_p.R1059*|NUMA1_uc009ysx.1_Nonsense_Mutation_p.R1496*|NUMA1_uc001oro.1_Nonsense_Mutation_p.R1496*	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1496	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						TGTGCTTCTCGCTGCACCTCA	0.597			T	RARA	APL								12	105					0	0	0.000978	0	0		A	71724063	A	A	71724063	4	1	39	1	0	0	0	0	0	1	0	0	10769	1095	38	1	1913	1	NUMA1	11	71724063	Nonsense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	11162542	71724063	63282453	160	33578											
GPR83	10888	broad.mit.edu	37	chr11	94113847	94113847	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggaggggcaggatgtagAgcaggatgaaggtggccaag	12	5	20	4	0	0	3	0	2	0	1	0	6	0	6	1	7	1	3	1	7	3	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:94113847A>T	uc001pet.2	-	4	912	c.740T>A	c.(739-741)CTC>CAC	p.L247H		NM_016540	NP_057624	Q9NYM4	GPR83_HUMAN	G protein-coupled receptor 83 precursor	247	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			central_nervous_system(2)|ovary(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CAGGATGTAGAGCAGGATGAA	0.567													10	50					0	0	0.008291	0	0		T	94113847	T	T	94113847	3	4	39	1	0	0	0	0	1	0	0	0	6728	304	11	5	535	5	GPR83	11	94113847	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	22389784	94113847	40892669	161	33579											
USP28	57646	broad.mit.edu	37	chr11	113674571	113674571	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagatacacagacacttttCggaacaaactataatcttca	16	10	6	9	1	2	2	1	0	1	2	3	4	2	3	0	2	3	0	0	2	5	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr11:113674571C>T	uc001poh.2	-	22	2720	c.2687G>A	c.(2686-2688)CGA>CAA	p.R896Q	USP28_uc001pog.2_Missense_Mutation_p.R572Q|USP28_uc010rwy.1_Missense_Mutation_p.R739Q|USP28_uc001poi.2_Missense_Mutation_p.R219Q	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	896					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		AGACACTTTTCGGAACAAACT	0.333													10	62					0	0	0.000978	0	0		T	113674571	T	T	113674571	3	4	39	1	0	0	0	0	1	0	0	0	17084	884	31	1	562	1	USP28	11	113674571	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	19560724	113674571	21331945	162	33580											
A2ML1	144568	broad.mit.edu	37	chr12	8998053	8998053	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttagttaatagggaaaggaAgtttggtgatggaggggcag	12	11	17	1	0	0	1	0	1	0	0	0	4	0	4	0	6	0	3	0	6	5	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr12:8998053A>C	uc001quz.3	+	13	1590	c.1492A>C	c.(1492-1494)AGT>CGT	p.S498R	A2ML1_uc001qva.1_Missense_Mutation_p.S78R|A2ML1_uc010sgm.1_5'UTR	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	342						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						AGGGAAAGGAAGTTTGGTGAT	0.398													7	60					0	0	0.006214	0	0		C	8998053	C	C	8998053	3	2	39	1	0	0	0	0	1	0	0	0	5	72	3	5	1542	5	A2ML1	12	8998053	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08		8998053	124853842	163	33581											
LRRK2	120892	broad.mit.edu	37	chr12	40716140	40716140	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgtattcttttgggccaAgttgtggaccacattgattc	7	15	11	8	0	1	1	0	1	1	0	2	2	1	2	2	3	0	3	2	3	2	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr12:40716140A>C	uc001rmg.3	+	37	5458	c.5337A>C	c.(5335-5337)CAA>CAC	p.Q1779H	LRRK2_uc009zjw.2_Missense_Mutation_p.Q617H|LRRK2_uc001rmi.2_Missense_Mutation_p.Q612H	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1779					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				TTTTGGGCCAAGTTGTGGACC	0.393													12	207					0	0	0.00245	0	0		C	40716140	C	C	40716140	3	2	39	1	0	0	0	0	1	0	0	0	9051	69	3	5	5483	5	LRRK2	12	40716140	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	31718087	40716140	93135755	164	33582											
TMEM117	84216	broad.mit.edu	37	chr12	44782372	44782372	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccacctaacctcggaaaacTtgagctcacagttgaacgaa	14	7	7	13	2	1	2	1	2	0	0	2	4	1	3	3	1	4	2	3	1	5	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr12:44782372T>G	uc001rod.2	+	8	1528	c.1462T>G	c.(1462-1464)TTG>GTG	p.L488V	TMEM117_uc001roe.2_Missense_Mutation_p.L384V|TMEM117_uc009zkc.2_3'UTR	NM_032256	NP_115632	Q9H0C3	TM117_HUMAN	transmembrane protein 117	488						endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		CTCGGAAAACTTGAGCTCACA	0.453													24	193					0	0	0.004656	0	0		G	44782372	G	G	44782372	3	3	39	1	0	0	0	0	1	0	0	0	16056	1606	56	5	1488	5	TMEM117	12	44782372	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	4066232	44782372	89069523	165	33583											
ERBB3	2065	broad.mit.edu	37	chr12	56478854	56478854	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccattgcccaacctccgcGtggtgcgagggacccaggtc	7	7	12	15	3	0	0	0	0	0	0	2	2	1	1	5	3	4	0	5	3	2	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr12:56478854G>T	uc001sjh.2	+	3	503	c.310G>T	c.(310-312)GTG>TTG	p.V104L	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.V45L|ERBB3_uc001sjg.2_Missense_Mutation_p.V104L	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	104	Extracellular (Potential).		V -> M (in an ovarian mucinous carcinoma sample; somatic mutation).		cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity	p.V104M(1)		lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CAACCTCCGCGTGGTGCGAGG	0.517													20	158					1.56452e-12	2.46399e-12	0.007413	1	0		T	56478854	T	T	56478854	3	4	39	1	0	0	0	0	1	0	0	0	5216	1145	40	5	320	5	ERBB3	12	56478854	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	11696482	56478854	77373041	166	33584											
ESYT1	23344	broad.mit.edu	37	chr12	56525562	56525562	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaactggacagggatgacCaacctgctggatatcccagg	12	7	11	11	0	1	1	1	1	0	0	2	4	2	4	3	4	3	1	3	4	3	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr12:56525562C>T	uc001sjq.2	+	7	884	c.834C>T	c.(832-834)ACC>ACT	p.T278T	ESYT1_uc001sjr.2_Silent_p.T278T	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	278						integral to membrane				ovary(4)|skin(1)	5						CAGGGATGACCAACCTGCTGG	0.338													11	92					0	0	0.000978	0	0		T	56525562	T	T	56525562	2	4	39	1	0	0	0	0	0	0	0	1	5272	581	21	4		4	ESYT1	12	56525562	Silent	SNP	C	TCGA-BR-6706-01A-11D-1882-08	46708	56525562	77326333	167	33585											
STAT2	6773	broad.mit.edu	37	chr12	56748325	56748325	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgggccttccactccTccaactttggcagcagtagc	6	10	10	15	0	0	0	0	0	0	0	3	0	3	0	4	2	4	5	4	2	2	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr12:56748325T>C	uc001slc.2	-	8	785	c.707A>G	c.(706-708)GAG>GGG	p.E236G	STAT2_uc001sld.2_Missense_Mutation_p.E232G|STAT2_uc010sqn.1_Missense_Mutation_p.E232G	NM_005419	NP_005410	P52630	STAT2_HUMAN	signal transducer and activator of transcription	236					interspecies interaction between organisms|JAK-STAT cascade|regulation of transcription from RNA polymerase II promoter|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	cytosol|nucleoplasm|plasma membrane	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						CTTCCACTCCTCCAACTTTGG	0.542													3	115					0	0	0.004672	0	0		C	56748325	C	C	56748325	3	2	39	1	0	0	0	0	1	0	0	0	15290	1551	54	3	1916	3	STAT2	12	56748325	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	222763	56748325	77103570	168	33586											
MYF6	4618	broad.mit.edu	37	chr12	81101582	81101582	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagccattagaagtggcAgaaggctctcctttgtatcc	9	11	10	11	0	1	2	0	0	1	2	3	2	2	2	3	2	2	4	3	2	4	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr12:81101582A>G	uc001szf.1	+	1	137	c.84A>G	c.(82-84)GCA>GCG	p.A28A		NM_002469	NP_002460	P23409	MYF6_HUMAN	myogenic factor 6	28					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						TAGAAGTGGCAGAAGGCTCTC	0.527													16	137					0	0	0.003163	0	0		G	81101582	G	G	81101582	2	3	39	1	0	0	0	0	0	0	0	1	10046	175	7	3		3	MYF6	12	81101582	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	24353257	81101582	52750313	169	33587											
NR1H4	9971	broad.mit.edu	37	chr12	100904824	100904824	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagccccgcatgggcgcGtcagcagggaggatcaaagg	12	3	16	10	3	2	1	2	0	0	1	2	3	2	3	2	4	2	2	2	4	3	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr12:100904824G>A	uc001tht.1	+	2	406	c.378G>A	c.(376-378)GCG>GCA	p.A126A	NR1H4_uc001thp.1_Silent_p.A116A|NR1H4_uc001thq.1_Silent_p.A116A|NR1H4_uc010svj.1_RNA|NR1H4_uc001thr.1_Silent_p.A116A|NR1H4_uc010svk.1_Silent_p.A116A|NR1H4_uc001ths.1_Silent_p.A126A	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	126					bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding	p.A116A(1)		ovary(1)|lung(1)|skin(1)	3						GCATGGGCGCGTCAGCAGGGA	0.517													14	136					0	0	0.004007	0	0		A	100904824	A	A	100904824	2	1	39	1	0	0	0	0	0	0	0	1	10638	1132	40	1		1	NR1H4	12	100904824	Silent	SNP	G	TCGA-BR-6706-01A-11D-1882-08	19803242	100904824	32947071	170	33588											
STAB2	55576	broad.mit.edu	37	chr12	104144357	104144357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcccactctccctccacagGgcaagcacaagtgtgagtgt	9	9	9	14	0	1	1	0	1	1	0	4	1	3	1	3	1	1	2	3	1	2	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr12:104144357G>A	uc001tjw.2	+	60	6625	c.6439G>A	c.(6439-6441)GGC>AGC	p.G2147S	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2147	Extracellular (Potential).|EGF-like 17.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CCCTCCACAGGGCAAGCACAA	0.547													21	117					0	0	0.00333	0	0		A	104144357	A	A	104144357	3	1	39	1	0	0	0	0	1	0	0	0	15263	1246	43	4	6677	4	STAB2	12	104144357	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	3239533	104144357	29707538	171	33589											
DAO	1610	broad.mit.edu	37	chr12	109294207	109294207	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaactatggccatggaggcTacgggctcaccatccactgg	10	7	11	13	1	1	0	1	0	0	0	2	1	2	1	3	5	2	2	3	5	3	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr12:109294207T>C	uc001tnr.3	+	11	1093	c.940T>C	c.(940-942)TAC>CAC	p.Y314H	DAO_uc001tnq.3_Missense_Mutation_p.Y248H|DAO_uc009zvb.2_RNA|DAO_uc001tns.3_RNA	NM_001917	NP_001908	P14920	OXDA_HUMAN	D-amino-acid oxidase	314	FAD.				glyoxylate metabolic process	peroxisomal matrix	binding|D-amino-acid oxidase activity			ovary(1)|skin(1)	2						CCATGGAGGCTACGGGCTCAC	0.547													9	105					0	0	0.000978	0	0		C	109294207	C	C	109294207	3	2	39	1	0	0	0	0	1	0	0	0	4234	1522	53	3	978	3	DAO	12	109294207	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	5149850	109294207	24557688	172	33590											
UBE3B	89910	broad.mit.edu	37	chr12	109959319	109959319	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattacctgcagctcttcgAgtttgtggggaagatgctgg	8	12	14	7	1	1	1	0	0	1	1	2	4	1	2	1	3	4	4	1	3	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr12:109959319A>G	uc001top.2	+	21	2930	c.2327A>G	c.(2326-2328)GAG>GGG	p.E776G	UBE3B_uc001toq.2_Missense_Mutation_p.E776G|UBE3B_uc001tos.2_Missense_Mutation_p.E203G|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.E776G	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	776	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						CAGCTCTTCGAGTTTGTGGGG	0.483													12	78					0	0	0.003163	0	0		G	109959319	G	G	109959319	3	3	39	1	0	0	0	0	1	0	0	0	16906	304	11	3	2401	3	UBE3B	12	109959319	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	665112	109959319	23892576	173	33591											
TMEM132D	121256	broad.mit.edu	37	chr12	129566470	129566470	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccccagggccggccgccTcagccacaaactgcgtcagg	7	4	12	18	3	2	0	2	0	0	0	3	0	3	0	6	3	3	0	6	3	1	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr12:129566470T>G	uc009zyl.1	-	7	2085	c.1757A>C	c.(1756-1758)GAG>GCG	p.E586A	TMEM132D_uc001uia.2_Missense_Mutation_p.E124A	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	586	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GCCGGCCGCCTCAGCCACAAA	0.652													7	73					0	0	0.001984	0	0		G	129566470	G	G	129566470	3	3	39	1	0	0	0	0	1	0	0	0	16072	1551	54	5	1554	5	TMEM132D	12	129566470	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	19607151	129566470	4285425	174	33592											
PARP4	143	broad.mit.edu	37	chr13	25049733	25049733	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggcatctggtaactggtaAtctaaacgttaaaaatgtta	14	14	8	5	1	2	0	0	0	2	0	2	0	2	0	0	3	2	5	0	3	8	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr13:25049733A>C	uc001upl.2	-	15	1897	c.1791T>G	c.(1789-1791)GAT>GAG	p.D597E	PARP4_uc010tdc.1_Missense_Mutation_p.D597E	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	597					cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity	p.D597H(1)		ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		GTAACTGGTAATCTAAACGTT	0.418													15	86					0	0	0.00245	0	0		C	25049733	C	C	25049733	3	2	39	1	0	0	0	0	1	0	0	0	11482	115	4	5	3463	5	PARP4	13	25049733	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08		25049733	90120145	175	33593											
NALCN	259232	broad.mit.edu	37	chr13	101944618	101944618	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgagagtgatgaaatagAagtaggaacgccaacgggga	18	5	14	4	2	0	4	0	3	0	2	0	7	0	6	1	3	2	1	1	3	7	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr13:101944618A>G	uc001vox.1	-	8	1088	c.899T>C	c.(898-900)TTC>TCC	p.F300S	NALCN_uc001voy.2_Missense_Mutation_p.F15S|NALCN_uc001voz.2_Missense_Mutation_p.F300S|NALCN_uc001vpa.2_Missense_Mutation_p.F300S	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	300	Extracellular (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GATGAAATAGAAGTAGGAACG	0.458													7	44					0	0	0.00308	0	0		G	101944618	G	G	101944618	3	3	39	1	0	0	0	0	1	0	0	0	10166	246	9	3	4465	3	NALCN	13	101944618	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	76894885	101944618	13225260	176	33594											
LTB4R	1241	broad.mit.edu	37	chr14	24785153	24785153	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcactatgtctgcggagTcagcatgtacgccagcgtcc	7	10	12	12	3	3	0	2	0	1	0	4	1	4	1	2	1	4	2	2	1	2	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr14:24785153T>A	uc001wos.2	+	2	617	c.296T>A	c.(295-297)GTC>GAC	p.V99D	LTB4R_uc010alp.2_Missense_Mutation_p.V99D|LTB4R_uc001wou.2_Missense_Mutation_p.V99D	NM_001143919	NP_001137391	Q15722	LT4R1_HUMAN	leukotriene B4 receptor	99	Helical; Name=3; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cellular component movement|immune response|inflammatory response|muscle contraction	integral to plasma membrane	nucleotide binding				0				GBM - Glioblastoma multiforme(265;0.018)		GTCTGCGGAGTCAGCATGTAC	0.597													10	96					0	0	0.008291	0	0		A	24785153	A	A	24785153	3	1	39	1	0	0	0	0	1	0	0	0	9089	1667	58	5	298	5	LTB4R	14	24785153	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08		24785153	82564387	177	33595											
RALGAPA1	253959	broad.mit.edu	37	chr14	36096777	36096777	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtaggttctgacaagccacTtacaggaggtgggccataca	11	9	12	9	0	1	1	0	1	1	0	1	2	1	2	2	4	3	2	2	4	4	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr14:36096777T>C	uc001wti.2	-	33	5249	c.4858A>G	c.(4858-4860)AGT>GGT	p.S1620G	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Missense_Mutation_p.S1620G|RALGAPA1_uc010tpv.1_Missense_Mutation_p.S1633G|RALGAPA1_uc010tpw.1_Missense_Mutation_p.S1667G	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1620	Minimal domain that binds to TCF3/E12 (By similarity).				activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						GACAAGCCACTTACAGGAGGT	0.428													9	63					0	0	0.001855	0	0		C	36096777	C	C	36096777	3	2	39	1	0	0	0	0	1	0	0	0	13038	1609	56	3	1437	3	RALGAPA1	14	36096777	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	11311624	36096777	71252763	178	33596											
FSCB	84075	broad.mit.edu	37	chr14	44975246	44975246	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcaggtggaggctgaacTttaacagaattctccgcaac	12	9	10	10	1	2	2	1	1	1	1	3	3	2	3	1	3	4	3	1	3	4	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr14:44975246T>C	uc001wvn.2	-	1	1254	c.945A>G	c.(943-945)AAA>AAG	p.K315K		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	315						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		GAGGCTGAACTTTAACAGAAT	0.522													6	104					0	0	0.001168	0	0		C	44975246	C	C	44975246	2	2	39	1	0	0	0	0	0	0	0	1	6080	1606	56	3		3	FSCB	14	44975246	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	8878469	44975246	62374294	179	33597											
SAV1	60485	broad.mit.edu	37	chr14	51107520	51107520	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtcaggaatttctgcagtatGatatggatttgcaggtacca	11	13	11	6	0	2	1	1	1	1	0	2	3	2	3	1	3	3	4	1	3	4	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr14:51107520G>C	uc001wyg.1	-	5	1059	c.898C>G	c.(898-900)CAT>GAT	p.H300D	SAV1_uc001wyh.1_Missense_Mutation_p.H300D	NM_021818	NP_068590	Q9H4B6	SAV1_HUMAN	WW45 protein	300					hippo signaling cascade	cytoplasm|nucleus	identical protein binding			breast(1)	1	all_epithelial(31;0.000611)|Breast(41;0.0333)					TCTGCAGTATGATATGGATTT	0.448													3	107					0	0	0.004672	0	0		C	51107520	C	C	51107520	3	2	39	1	0	0	0	0	1	0	0	0	13881	1290	45	5	261	5	SAV1	14	51107520	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	6132274	51107520	56242020	180	33598											
MAX	4149	broad.mit.edu	37	chr14	65544747	65544747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtctaggatttgggccCgggatgcctgtggcaatatg	6	13	14	8	1	1	0	0	0	1	0	1	2	1	2	2	4	1	1	2	4	3	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr14:65544747C>T	uc001xif.1	-	4	349	c.179G>A	c.(178-180)CGG>CAG	p.R60Q	MAX_uc001xic.1_Intron|MAX_uc001xie.1_Missense_Mutation_p.R60Q|MAX_uc010aql.1_Intron|MAX_uc001xig.1_Missense_Mutation_p.R51Q|MAX_uc001xih.1_RNA|MAX_uc001xii.1_Missense_Mutation_p.R51Q|MAX_uc001xij.1_Missense_Mutation_p.R60Q	NM_002382	NP_002373	P61244	MAX_HUMAN	MAX protein isoform a	60	Helix-loop-helix motif.				transcription from RNA polymerase II promoter	cytoplasm|MLL1 complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			lung(1)	1				all cancers(60;0.000776)|OV - Ovarian serous cystadenocarcinoma(108;0.00359)|BRCA - Breast invasive adenocarcinoma(234;0.00999)		GATTTGGGCCCGGGATGCCTG	0.498													11	77					0	0	0.008291	0	0		T	65544747	T	T	65544747	3	4	39	1	0	0	0	0	1	0	0	0	9357	652	23	1	527	1	MAX	14	65544747	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	14437227	65544747	41804793	181	33599											
KIAA1409	57578	broad.mit.edu	37	chr14	94007143	94007143	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgatgataaacacgatcAgaggctgctcagtcaattcg	13	8	11	9	3	3	2	3	1	0	1	4	5	3	3	0	2	2	2	0	2	3	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr14:94007143A>G	uc001ybv.1	+	10	1042	c.959A>G	c.(958-960)CAG>CGG	p.Q320R	KIAA1409_uc001ybs.1_Missense_Mutation_p.Q320R|KIAA1409_uc001ybu.1_Missense_Mutation_p.Q258R	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	497						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		AAACACGATCAGAGGCTGCTC	0.433													8	125					0	0	0.00308	0	0		G	94007143	G	G	94007143	3	3	39	1	0	0	0	0	1	0	0	0	8246	188	7	3	997	3	KIAA1409	14	94007143	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	28462396	94007143	13342397	182	33600											
C14orf49	161176	broad.mit.edu	37	chr14	95912417	95912417	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttcaggcgggagctttcCatcagggctgcctgtgggag	5	11	15	10	1	3	0	2	0	1	0	4	2	4	2	2	4	2	2	2	4	0	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr14:95912417C>G	uc001yei.3	-	8	1476	c.1461G>C	c.(1459-1461)ATG>ATC	p.M487I	C14orf49_uc010avi.2_Missense_Mutation_p.M487I|C14orf49_uc001yej.1_Missense_Mutation_p.M487I	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	487	Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		GGGAGCTTTCCATCAGGGCTG	0.587													14	132					0	0	0.004007	0	0		G	95912417	G	G	95912417	3	3	39	1	0	0	0	0	1	0	0	0	1779	594	21	5	1506	5	C14orf49	14	95912417	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	1905274	95912417	11437123	183	33601											
RTL1	388015	broad.mit.edu	37	chr14	101348153	101348153	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctcacaggtggcagagcTcggccgccgtcttgttctgg	4	12	13	12	3	3	1	1	0	3	1	5	1	3	1	2	4	1	3	2	4	0	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr14:101348153T>A	uc010txj.1	-	1	3032	c.2973A>T	c.(2971-2973)CGA>CGT	p.R991R	MIR433_hsa-mir-433|MI0001723_5'Flank|uc001yig.3_5'Flank|MIR127_hsa-mir-127|MI0000472_5'Flank|MIR432_hsa-mir-432|MI0003133_5'Flank|uc010txk.1_5'Flank|MIR136_hsa-mir-136|MI0000475_5'Flank	NM_001134888	NP_001128360	A6NKG5	RTL1_HUMAN	retrotransposon-like 1	991										pancreas(1)	1						GTGGCAGAGCTCGGCCGCCGT	0.592													5	80					0	0	0.001168	0	0		A	101348153	A	A	101348153	2	1	39	1	0	0	0	0	0	0	0	1	13749	1538	54	5		5	RTL1	14	101348153	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	5435736	101348153	6001387	184	33602											
OR4N4	283694	broad.mit.edu	37	chr15	22382731	22382731	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgttggtggacttcctcTctgagaaaaaggtaatctcc	10	12	11	8	0	2	1	0	1	2	1	5	4	3	3	2	4	0	2	2	4	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr15:22382731T>G	uc001yuc.1	+	7	1240	c.259T>G	c.(259-261)TCT>GCT	p.S87A	LOC727924_uc001yub.1_RNA|OR4N4_uc010tzv.1_Missense_Mutation_p.S87A	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GGACTTCCTCTCTGAGAAAAA	0.507													12	202					0	0	0.00499	0	0		G	22382731	G	G	22382731	3	3	39	1	0	0	0	0	1	0	0	0	11097	1551	54	5	261	5	OR4N4	15	22382731	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08		22382731	80148661	185	33603											
SLC12A6	9990	broad.mit.edu	37	chr15	34533513	34533513	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgagggacagcccacggaTaccatcaccccattctttct	10	9	7	15	1	3	1	1	1	2	0	3	3	3	3	4	2	2	0	4	2	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr15:34533513T>C	uc001zhw.2	-	17	2352	c.2188A>G	c.(2188-2190)ATC>GTC	p.I730V	SLC12A6_uc001zhv.2_Missense_Mutation_p.I679V|SLC12A6_uc001zhx.2_Missense_Mutation_p.I715V|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.I671V|SLC12A6_uc001zib.2_Missense_Mutation_p.I721V|SLC12A6_uc001zic.2_Missense_Mutation_p.I730V|SLC12A6_uc010bau.2_Missense_Mutation_p.I730V|SLC12A6_uc001zid.2_Missense_Mutation_p.I671V|SLC12A6_uc001zht.2_RNA|SLC12A6_uc001zhu.2_Missense_Mutation_p.I542V	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	730					angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	AGCCCACGGATACCATCACCC	0.393													4	56					0	0	0.009096	0	0		C	34533513	C	C	34533513	3	2	39	1	0	0	0	0	1	0	0	0	14412	1406	49	3	1300	3	SLC12A6	15	34533513	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	12150782	34533513	67997879	186	33604											
GPR176	11245	broad.mit.edu	37	chr15	40094058	40094058	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcacgctacacaagatgaAgaccatcaccatggagagca	15	4	11	11	1	1	4	1	1	0	3	1	5	1	4	2	2	2	3	2	2	3	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr15:40094058A>G	uc001zkj.1	-	3	1689	c.823T>C	c.(823-825)TTC>CTC	p.F275L	GPR176_uc010uck.1_Missense_Mutation_p.F215L	NM_007223	NP_009154	Q14439	GP176_HUMAN	G protein-coupled receptor 176	275	Helical; Name=6; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		all_cancers(109;4.05e-15)|all_epithelial(112;2.96e-13)|Lung NSC(122;8.53e-11)|all_lung(180;2.71e-09)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;4.4e-06)|BRCA - Breast invasive adenocarcinoma(123;0.123)		CACAAGATGAAGACCATCACC	0.582											OREG0023053	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	67					0	0	0.00245	0	0		G	40094058	G	G	40094058	3	3	39	1	0	0	0	0	1	0	0	0	6688	72	3	3	728	3	GPR176	15	40094058	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	5560545	40094058	62437334	187	33605											
NDUFAF1	51103	broad.mit.edu	37	chr15	41679693	41679693	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaattttcataggcaaattcTtctgtatgagctggatcagt	11	15	9	6	0	4	1	2	1	2	0	4	3	4	2	0	2	1	3	0	2	4	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr15:41679693T>G	uc001znx.2	-	5	1315	c.933A>C	c.(931-933)GAA>GAC	p.E311D	NDUFAF1_uc010bcf.2_RNA	NM_016013	NP_057097	Q9Y375	CIA30_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	311					mitochondrial electron transport, NADH to ubiquinone|protein complex assembly	mitochondrial respiratory chain complex I	unfolded protein binding			ovary(1)	1		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;8e-17)|GBM - Glioblastoma multiforme(113;1.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.114)		AGGCAAATTCTTCTGTATGAG	0.368													9	137					0	0	0.008291	0	0		G	41679693	G	G	41679693	3	3	39	1	0	0	0	0	1	0	0	0	10293	1606	56	5	54	5	NDUFAF1	15	41679693	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	1585635	41679693	60851699	188	33606											
MGA	23269	broad.mit.edu	37	chr15	42040962	42040962	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttagacctgtctcaaacacAcaacttcagggacatcggat	13	9	7	12	1	2	1	2	0	1	1	4	3	2	3	1	2	2	0	1	2	3	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr15:42040962A>T	uc010ucy.1	+	16	5521	c.5340A>T	c.(5338-5340)ACA>ACT	p.T1780T	MGA_uc010ucz.1_Silent_p.T1571T|MGA_uc010uda.1_Silent_p.T396T|MGA_uc001zoi.2_5'UTR	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		TCTCAAACACACAACTTCAGG	0.493													7	70					0	0	0.001984	0	0		T	42040962	T	T	42040962	2	4	39	1	0	0	0	0	0	0	0	1	9558	146	6	5		5	MGA	15	42040962	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	361269	42040962	60490430	189	33607											
PIAS1	8554	broad.mit.edu	37	chr15	68479946	68479946	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatcaagacctcctacacTcgtctcggtttttcccgtat	8	14	6	13	3	2	2	1	1	1	1	6	2	4	2	3	1	1	2	3	1	3	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr15:68479946T>C	uc002aqz.2	+	14	1825	c.1729T>C	c.(1729-1731)TCG>CCG	p.S577P	PIAS1_uc002ara.2_Missense_Mutation_p.S185P	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	577	Ser-rich.|4 X 4 AA repeats of N-T-S-L.				androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						CCTCCTACACTCGTCTCGGTT	0.478													3	87					0	0	0.004672	0	0		C	68479946	C	C	68479946	3	2	39	1	0	0	0	0	1	0	0	0	11894	1551	54	3	1783	3	PIAS1	15	68479946	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	26438984	68479946	34051446	190	33608											
DNAJA4	55466	broad.mit.edu	37	chr15	78566640	78566640	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgggcatggtacagcagAtccagaccgtgtgcatcgag	9	6	15	11	3	0	2	0	0	0	2	2	3	1	2	3	3	3	4	3	3	1	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr15:78566640A>G	uc002bdj.1	+	4	637	c.520A>G	c.(520-522)ATC>GTC	p.I174V	DNAJA4_uc002bdi.2_Missense_Mutation_p.I203V|DNAJA4_uc002bdk.2_Missense_Mutation_p.I147V|DNAJA4_uc002bdl.2_Missense_Mutation_p.I89V|DNAJA4_uc002bdm.1_5'Flank	NM_001130182	NP_001123654	Q8WW22	DNJA4_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 4	174	CR-type.				protein folding|response to heat	membrane	ATP binding|heat shock protein binding|metal ion binding|unfolded protein binding			skin(1)	1						GGTACAGCAGATCCAGACCGT	0.627													7	60					0	0	0.00308	0	0		G	78566640	G	G	78566640	3	3	39	1	0	0	0	0	1	0	0	0	4620	333	12	3	680	3	DNAJA4	15	78566640	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	10086694	78566640	23964752	191	33609											
OR4F6	390648	broad.mit.edu	37	chr15	102346405	102346405	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactcagtgattcagttggcTtttgttgtagacctgctgtt	6	17	10	8	0	2	2	2	1	0	1	2	2	2	2	1	1	1	6	1	1	1	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr15:102346405T>C	uc010utr.1	+	1	483	c.483T>C	c.(481-483)GCT>GCC	p.A161A		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	161	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			TTCAGTTGGCTTTTGTTGTAG	0.398													39	233					0	0	0.00623	0	0		C	102346405	C	C	102346405	2	2	39	1	0	0	0	0	0	0	0	1	11085	1596	56	3		3	OR4F6	15	102346405	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	23779765	102346405	184987	192	33610											
NETO2	81831	broad.mit.edu	37	chr16	47117496	47117496	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgcagaaatctctttgTcccttagtgaaaacagttca	11	13	8	9	0	3	2	1	1	2	1	5	2	4	2	1	1	2	2	1	1	4	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr16:47117496T>C	uc002eer.1	-	9	1599	c.1214A>G	c.(1213-1215)GAC>GGC	p.D405G	NETO2_uc002eeq.1_Missense_Mutation_p.D140G|NETO2_uc010vgf.1_Missense_Mutation_p.D262G	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	405	Cytoplasmic (Potential).					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				AATCTCTTTGTCCCTTAGTGA	0.493										HNSCC(25;0.065)			13	123					0	0	0.001368	0	0		C	47117496	C	C	47117496	3	2	39	1	0	0	0	0	1	0	0	0	10359	1667	58	3	367	3	NETO2	16	47117496	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08		47117496	43237257	193	33611											
LPCAT2	54947	broad.mit.edu	37	chr16	55613109	55613109	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagtgcctgaccttgatgTttctggtctcttcaaggaaa	8	14	11	8	0	3	2	1	2	2	0	4	4	3	4	2	3	1	1	2	3	2	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr16:55613109T>G	uc002eie.3	+	13	1584	c.1403T>G	c.(1402-1404)GTT>GGT	p.V468G	LPCAT2_uc002eic.2_Missense_Mutation_p.V198G	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	468	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						GACCTTGATGTTTCTGGTCTC	0.468													8	110					0	0	0.00308	0	0		G	55613109	G	G	55613109	3	3	39	1	0	0	0	0	1	0	0	0	8929	1725	60	5	1453	5	LPCAT2	16	55613109	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	8495613	55613109	34741644	194	33612											
GPR114	221188	broad.mit.edu	37	chr16	57597818	57597818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttccccgccgagctgacccGggacgcctgcaagacccgcc	6	4	12	19	5	0	2	0	1	0	1	1	4	1	3	7	1	2	3	7	1	1	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr16:57597818G>A	uc002elx.3	+	5	441	c.356G>A	c.(355-357)CGG>CAG	p.R119Q	GPR114_uc010vhr.1_Missense_Mutation_p.R119Q|GPR114_uc002ely.2_Missense_Mutation_p.R119Q	NM_153837	NP_722579	Q8IZF4	GP114_HUMAN	G protein-coupled receptor 114 precursor	119	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)	1						GAGCTGACCCGGGACGCCTGC	0.632													7	67					0	0	0.001984	0	0		A	57597818	A	A	57597818	3	1	39	1	0	0	0	0	1	0	0	0	6646	1116	39	1	370	1	GPR114	16	57597818	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	1984709	57597818	32756935	195	33613											
TK2	7084	broad.mit.edu	37	chr16	66565325	66565325	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcatggtgagctgcacataAgtctgtagcgtaagacccca	12	8	11	10	1	1	2	0	1	1	1	1	2	1	2	2	1	4	5	2	1	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr16:66565325A>C	uc002eos.2	-	5	684	c.459T>G	c.(457-459)ACT>ACG	p.T153T	TK2_uc010vip.1_Silent_p.T14T|TK2_uc002eor.2_Silent_p.T80T|TK2_uc010cdq.2_Silent_p.T80T|TK2_uc010cdr.2_Silent_p.T62T|TK2_uc010viq.1_Silent_p.T135T|TK2_uc010vir.1_Silent_p.T128T	NM_004614	NP_004605	O00142	KITM_HUMAN	thymidine kinase 2, mitochondrial	111					pyrimidine base metabolic process|pyrimidine nucleoside salvage	mitochondrial matrix	ATP binding|phosphotransferase activity, alcohol group as acceptor|thymidine kinase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0736)|Epithelial(162;0.237)		GCTGCACATAAGTCTGTAGCG	0.507													5	45					0	0	0.001168	0	0		C	66565325	C	C	66565325	2	2	39	1	0	0	0	0	0	0	0	1	15958	59	3	5		5	TK2	16	66565325	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	8967507	66565325	23789428	196	33614											
MTSS1L	92154	broad.mit.edu	37	chr16	70710872	70710872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtagtccgagccctttaggtCtttgattacctggacaggga	8	12	12	9	1	1	1	0	1	1	0	2	4	2	3	3	3	2	1	3	3	3	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr16:70710872C>T	uc002ezj.2	-	10	1002	c.742G>A	c.(742-744)GAC>AAC	p.D248N	MTSS1L_uc002ezk.1_Missense_Mutation_p.D165N	NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	248	IMD.				filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						CCCTTTAGGTCTTTGATTACC	0.602													4	34					0	0	0.000602	0	0		T	70710872	T	T	70710872	3	4	39	1	0	0	0	0	1	0	0	0	9981	913	32	4	1525	4	MTSS1L	16	70710872	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	4145547	70710872	19643881	197	33615											
CTU2	348180	broad.mit.edu	37	chr16	88779164	88779164	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgggggtggtcctggcccGactcaaggggaggaacagcc	7	4	18	12	2	1	0	1	0	0	0	2	3	2	2	4	7	2	0	4	7	2	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr16:88779164G>A	uc002flm.2	+	7	636	c.588G>A	c.(586-588)CCG>CCA	p.P196P	CTU2_uc002fln.2_Silent_p.P196P|CTU2_uc010chz.2_Silent_p.P267P|CTU2_uc010cia.2_Silent_p.P109P	NM_001012759	NP_001012777	Q2VPK5	CTU2_HUMAN	cytoplasmic tRNA 2-thiolation protein 2 isoform	196					tRNA thio-modification|tRNA wobble uridine modification	cytoplasm|protein complex|soluble fraction	protein binding			skin(1)	1						GTCCTGGCCCGACTCAAGGGG	0.687													5	29					0	0	0.000602	0	0		A	88779164	A	A	88779164	2	1	39	1	0	0	0	0	0	0	0	1	4051	1045	37	1		1	CTU2	16	88779164	Silent	SNP	G	TCGA-BR-6706-01A-11D-1882-08	18068292	88779164	1575589	198	33616											
FAM101B	359845	broad.mit.edu	37	chr17	293034	293034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacagaaacctcctcagcGtcttgcggcagttgtaatcc	9	10	10	12	2	2	1	1	0	1	1	4	2	4	2	3	2	3	3	3	2	2	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr17:293034G>A	uc002frj.2	-	2	630	c.356C>T	c.(355-357)ACG>ATG	p.T119M		NM_182705	NP_874364	Q8N5W9	F101B_HUMAN	hypothetical protein LOC359845	189											0		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.0216)		CCTCCTCAGCGTCTTGCGGCA	0.637													9	51					0	0	0.004482	0	0		A	293034	A	A	293034	3	1	39	1	0	0	0	0	1	0	0	0	5392	1145	40	1	82	1	FAM101B	17	293034	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08		293034	80902176	199	33617											
PER1	5187	broad.mit.edu	37	chr17	8047060	8047060	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggggtgggccagggggTggagggtggcacgggtgagg	4	6	27	4	1	0	1	0	1	0	0	0	2	0	2	1	11	0	1	1	11	0	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr17:8047060T>G	uc002gkd.2	-	19	2834	c.2596A>C	c.(2596-2598)ACC>CCC	p.T866P	PER1_uc010cns.2_5'Flank|PER1_uc010vuq.1_Intron	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	866	Pro-rich.				circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						GGCCAGGGGGTGGAGGGTGGC	0.667			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					6	15					0	0	0.008291	0	0		G	8047060	G	G	8047060	3	3	39	1	0	0	0	0	1	0	0	0	11748	1696	59	5	1296	5	PER1	17	8047060	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	7754026	8047060	73148150	200	33618											
NXPH3	11248	broad.mit.edu	37	chr17	47656222	47656222	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggctggggcgacttctacTccaacatcaagacggtggcc	8	9	12	12	2	2	1	1	0	1	1	3	2	3	1	2	5	2	1	2	5	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr17:47656222T>G	uc002ipa.2	+	2	603	c.319T>G	c.(319-321)TCC>GCC	p.S107A	NXPH3_uc010wlw.1_Missense_Mutation_p.S107A	NM_007225	NP_009156	O95157	NXPH3_HUMAN	neurexophilin 3 precursor	107	III.				neuropeptide signaling pathway	extracellular region				pancreas(1)|skin(1)	2	all_cancers(4;7.45e-14)|Breast(4;1.08e-27)|all_epithelial(4;2.27e-17)					CGACTTCTACTCCAACATCAA	0.592													4	59					0	0	0.000602	0	0		G	47656222	G	G	47656222	3	3	39	1	0	0	0	0	1	0	0	0	10811	1551	54	5	325	5	NXPH3	17	47656222	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	39609162	47656222	33538988	201	33619											
ABCA6	23460	broad.mit.edu	37	chr17	67087355	67087355	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggtggtaatcaatatacTtaggtcaaaatgattgatta	15	14	8	4	0	2	2	2	2	0	0	2	2	2	2	0	3	1	1	0	3	8	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr17:67087355T>C	uc002jhw.1	-	26	3632	c.3457A>G	c.(3457-3459)AGT>GGT	p.S1153G		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	1153	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					ATCAATATACTTAGGTCAAAA	0.338													5	52					0	0	0.001168	0	0		C	67087355	C	C	67087355	3	2	39	1	0	0	0	0	1	0	0	0	36	1609	56	3	1452	3	ABCA6	17	67087355	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	19431133	67087355	14107855	202	33620											
AZI1	22994	broad.mit.edu	37	chr17	79167799	79167799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagctgctcccgcagctcctCggcctggcgcaggcagcgct	4	6	13	18	4	0	0	0	0	0	0	3	0	2	0	3	3	4	7	3	3	0	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr17:79167799C>T	uc002jzp.1	-	18	2457	c.2257G>A	c.(2257-2259)GAG>AAG	p.E753K	AZI1_uc002jzm.1_Missense_Mutation_p.E180K|AZI1_uc002jzn.1_Missense_Mutation_p.E750K|AZI1_uc002jzo.1_Missense_Mutation_p.E750K|AZI1_uc010wum.1_Missense_Mutation_p.E753K|AZI1_uc002jzq.2_5'UTR	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	753					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CGCAGCTCCTCGGCCTGGCGC	0.721													3	12					0	0	0.009096	0	0		T	79167799	T	T	79167799	3	4	39	1	0	0	0	0	1	0	0	0	1241	893	31	1	1030	1	AZI1	17	79167799	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	12080444	79167799	2027411	203	33621											
C18orf8	29919	broad.mit.edu	37	chr18	21086966	21086966	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggagaagtgaagtgcattaAgttttccttagaaaataaga	17	11	10	3	0	0	4	0	1	0	3	1	5	1	4	1	1	1	2	1	1	7	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr18:21086966A>C	uc010xax.1	+	3	333	c.212A>C	c.(211-213)AAG>ACG	p.K71T	C18orf8_uc010xau.1_Intron|C18orf8_uc010xav.1_Missense_Mutation_p.K71T|C18orf8_uc010xaw.1_Intron|C18orf8_uc002kul.2_RNA	NM_013326	NP_037458	Q96DM3	MIC1_HUMAN	colon cancer-associated protein Mic1	71										ovary(1)	1	all_cancers(21;0.000122)|all_epithelial(16;8.08e-07)|Lung NSC(20;0.00206)|all_lung(20;0.00659)|Colorectal(14;0.0202)|Ovarian(20;0.127)					AAGTGCATTAAGTTTTCCTTA	0.323													9	243					0	0	0.000978	0	0		C	21086966	C	C	21086966	3	2	39	1	0	0	0	0	1	0	0	0	1910	72	3	5	222	5	C18orf8	18	21086966	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08		21086966	56990282	204	33622											
ZNF521	25925	broad.mit.edu	37	chr18	22807019	22807019	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtctcctctacgaagagcTcgtggcagtagacacactgg	10	8	12	11	2	2	2	0	0	2	2	4	3	2	2	1	3	2	3	1	3	3	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr18:22807019T>C	uc002kvk.2	-	4	1110	c.863A>G	c.(862-864)GAG>GGG	p.E288G	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.E288G|ZNF521_uc002kvl.2_Missense_Mutation_p.E68G	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	288	C2H2-type 7.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TACGAAGAGCTCGTGGCAGTA	0.537			T	PAX5	ALL								8	82					0	0	0.004482	0	0		C	22807019	C	C	22807019	3	2	39	1	0	0	0	0	1	0	0	0	17990	1551	54	3	3092	3	ZNF521	18	22807019	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	1720053	22807019	55270229	205	33623											
PIK3C3	5289	broad.mit.edu	37	chr18	39647433	39647433	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgattgatgagagtgtccatGctctttttgctgcagtggtg	6	16	13	6	0	1	3	0	3	1	1	2	4	2	3	1	1	3	3	1	1	0	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr18:39647433G>C	uc002lap.2	+	24	2663	c.2605G>C	c.(2605-2607)GCT>CCT	p.A869P	PIK3C3_uc010xcl.1_Missense_Mutation_p.A806P|PIK3C3_uc002laq.2_Missense_Mutation_p.A354P	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	869	PI3K/PI4K.				cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						GAGTGTCCATGCTCTTTTTGC	0.463										TSP Lung(28;0.18)			8	73					0	0	0.00308	0	0		C	39647433	C	C	39647433	3	2	39	1	0	0	0	0	1	0	0	0	11931	1319	46	5	2699	5	PIK3C3	18	39647433	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	16840414	39647433	38429815	206	33624											
DCC	1630	broad.mit.edu	37	chr18	50731590	50731590	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatttttttatacagtgcaAgttccagggccagtagaaaa	13	14	8	6	0	0	1	0	0	0	1	1	1	1	1	2	1	2	3	2	1	7	8			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr18:50731590A>G	uc002lfe.1	+	10	2165	c.1578A>G	c.(1576-1578)CAA>CAG	p.Q526Q	DCC_uc010xdr.1_Silent_p.Q374Q|DCC_uc010dpf.1_Silent_p.Q181Q	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	526	Extracellular (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		ATACAGTGCAAGTTCCAGGGC	0.373													25	202					0	0	0.00278	0	0		G	50731590	G	G	50731590	2	3	39	1	0	0	0	0	0	0	0	1	4285	69	3	3		3	DCC	18	50731590	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	11084157	50731590	27345658	207	33625											
RAX	30062	broad.mit.edu	37	chr18	56936342	56936342	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgcctcgtccagcgggaacTtgtccccgaagccgggcccg	5	5	13	18	6	0	0	0	0	0	0	3	2	2	1	7	2	3	0	7	2	2	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr18:56936342T>G	uc002lhx.2	-	3	1122	c.935A>C	c.(934-936)AAG>ACG	p.K312T	RAX_uc010dpp.2_3'UTR	NM_013435	NP_038463	Q9Y2V3	RX_HUMAN	retina and anterior neural fold homeobox	312					visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1		Lung NSC(161;0.0804)|Colorectal(73;0.0946)		STAD - Stomach adenocarcinoma(84;0.18)		CAGCGGGAACTTGTCCCCGAA	0.731													3	20					0	0	0.004672	0	0		G	56936342	G	G	56936342	3	3	39	1	0	0	0	0	1	0	0	0	13121	1609	56	5	109	5	RAX	18	56936342	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	6204752	56936342	21140906	208	33626											
RTTN	25914	broad.mit.edu	37	chr18	67684867	67684867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tacttagatgtttatttcctCcttttggcaatgctagagag	9	17	8	7	0	0	2	0	0	0	2	2	3	2	2	2	1	2	3	2	1	5	8			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr18:67684867C>T	uc002lkp.2	-	46	6265	c.6197G>A	c.(6196-6198)GGA>GAA	p.G2066E	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.G1154E|RTTN_uc002lkn.2_Missense_Mutation_p.G56E|RTTN_uc010dqp.2_Missense_Mutation_p.G318E	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	2066							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TTTATTTCCTCCTTTTGGCAA	0.338													10	92					0	0	0.001368	0	0		T	67684867	T	T	67684867	3	4	39	1	0	0	0	0	1	0	0	0	13762	855	30	4	499	4	RTTN	18	67684867	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	10748525	67684867	10392381	209	33627											
APC2	10297	broad.mit.edu	37	chr19	1465645	1465645	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgctttgacgacgacgAtgcaccgtcatccctggctg	6	9	13	13	4	1	1	1	1	0	0	2	4	2	1	2	2	2	4	2	2	0	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:1465645A>G	uc002lsr.1	+	15	2553	c.2345A>G	c.(2344-2346)GAT>GGT	p.D782G	APC2_uc002lss.1_Missense_Mutation_p.D364G|APC2_uc002lst.1_Missense_Mutation_p.D782G|APC2_uc002lsu.1_Missense_Mutation_p.D781G|C19orf25_uc010xgn.1_Intron	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	782					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GACGACGACGATGCACCGTCA	0.711													4	21					0	0	0.000602	0	0		G	1465645	G	G	1465645	3	3	39	1	0	0	0	0	1	0	0	0	764	333	12	3	2399	3	APC2	19	1465645	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08		1465645	57663338	210	33628											
ARRDC5	645432	broad.mit.edu	37	chr19	4891231	4891231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagtgtgcatgatctcacCgtcctgcgtgctgctgctca	5	11	12	13	3	2	1	2	1	1	0	4	2	3	1	2	0	5	4	2	0	0	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:4891231C>T	uc002mbm.2	-	3	856	c.856G>A	c.(856-858)GGT>AGT	p.G286S		NM_001080523	NP_001073992	A6NEK1	ARRD5_HUMAN	arrestin domain containing 5	286					signal transduction						0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0257)		ATGATCTCACCGTCCTGCGTG	0.617													27	194					0	0	0.00632	0	0		T	4891231	T	T	4891231	3	4	39	1	0	0	0	0	1	0	0	0	987	652	23	1	176	1	ARRDC5	19	4891231	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	3425586	4891231	54237752	211	33629											
MUC16	94025	broad.mit.edu	37	chr19	9018538	9018538	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatggtgaagttgagggtgaAcagcaccaggagagggccag	12	5	18	6	0	0	4	0	3	0	1	0	6	0	4	2	4	2	2	2	4	2	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:9018538A>C	uc002mkp.2	-	24	37840	c.37636T>G	c.(37636-37638)TTC>GTC	p.F12546V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12548	SEA 4.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTGAGGGTGAACAGCACCAGG	0.463													24	221					0	0	0.00333	0	0		C	9018538	C	C	9018538	3	2	39	1	0	0	0	0	1	0	0	0	9991	43	2	5	6131	5	MUC16	19	9018538	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	4127307	9018538	50110445	212	33630											
OR7G1	125962	broad.mit.edu	37	chr19	9226256	9226256	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaggagagattaaagagaaGgaagtacatgggggtgtgga	17	6	17	1	0	0	2	0	0	0	2	0	7	0	5	0	5	1	1	0	5	6	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:9226256G>T	uc002mks.1	-	1	184	c.184C>A	c.(184-186)CTT>ATT	p.L62I		NM_001005192	NP_001005192	Q8NGA0	OR7G1_HUMAN	olfactory receptor, family 7, subfamily G,	62	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						TTAAAGAGAAGGAAGTACATG	0.488													16	179					3.32936e-07	5.18921e-07	0.006122	1	0		T	9226256	T	T	9226256	3	4	39	1	0	0	0	0	1	0	0	0	11241	1000	35	5	825	5	OR7G1	19	9226256	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	207718	9226256	49902727	213	33631											
ZNF559	84527	broad.mit.edu	37	chr19	9453044	9453044	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatgaatgtggcaaagaatTtacttgtttctcaaaactca	15	14	6	6	0	2	2	2	1	1	1	3	2	2	2	0	1	2	2	0	1	7	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:9453044T>G	uc002mlg.2	+	7	1564	c.917T>G	c.(916-918)TTT>TGT	p.F306C	ZNF559_uc002mlf.2_Missense_Mutation_p.F75C|ZNF559_uc010dwl.1_Missense_Mutation_p.F75C|ZNF559_uc010xkn.1_Missense_Mutation_p.F298C|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Missense_Mutation_p.F370C|ZNF559_uc010dwk.1_Missense_Mutation_p.F75C|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	306	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGCAAAGAATTTACTTGTTTC	0.368													19	98					0	0	0.001882	0	0		G	9453044	G	G	9453044	3	3	39	1	0	0	0	0	1	0	0	0	18015	1841	64	5	931	5	ZNF559	19	9453044	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	226788	9453044	49675939	214	33632											
TRMT1	55621	broad.mit.edu	37	chr19	13226979	13226979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgtcaggtcccgattgaattCctgcaccgggttataaaaga	11	10	10	10	3	1	2	1	1	0	1	3	3	3	2	3	2	1	2	3	2	4	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:13226979C>T	uc002mwj.2	-	1	485	c.235G>A	c.(235-237)GAA>AAA	p.E79K	NACC1_uc002mwm.2_5'Flank|TRMT1_uc002mwk.2_Missense_Mutation_p.E79K|TRMT1_uc002mwl.3_Missense_Mutation_p.E79K|TRMT1_uc010xmz.1_Intron	NM_017722	NP_060192	Q9NXH9	TRM1_HUMAN	tRNA methyltransferase 1 isoform 1	79							RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.08e-22)	GBM - Glioblastoma multiforme(1328;0.0356)		CGATTGAATTCCTGCACCGGG	0.582													9	96					0	0	0.004482	0	0		T	13226979	T	T	13226979	3	4	39	1	0	0	0	0	1	0	0	0	16587	864	30	4	1808	4	TRMT1	19	13226979	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	3773935	13226979	45902004	215	33633											
SLC1A6	6511	broad.mit.edu	37	chr19	15079169	15079169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctcgatccggccctccCggtgcagcccctccttggag	3	9	12	17	3	1	0	0	0	1	0	5	2	4	1	6	4	2	1	6	4	0	1	rs149934975		TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:15079169C>T	uc002naa.1	-	3	502	c.494G>A	c.(493-495)CGG>CAG	p.R165Q	SLC1A6_uc010dzu.1_Missense_Mutation_p.R165Q|SLC1A6_uc010xod.1_Intron|SLC1A6_uc002nab.2_Missense_Mutation_p.R165Q|SLC1A6_uc002nac.2_Missense_Mutation_p.R165Q|SLC1A6_uc002nad.1_Missense_Mutation_p.R165Q	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	165	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	CCGGCCCTCCCGGTGCAGCCC	0.473													7	28					0	0	0.004482	0	0		T	15079169	T	T	15079169	3	4	39	1	0	0	0	0	1	0	0	0	14461	652	23	1	1228	1	SLC1A6	19	15079169	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	1852190	15079169	44049814	216	33634											
CYP4F2	8529	broad.mit.edu	37	chr19	15989663	15989663	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcggggctcggtgtggTcaggcaggacgcggaagcgc	5	6	19	11	5	1	0	1	0	0	0	3	2	2	2	1	7	2	2	1	7	1	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:15989663T>G	uc002nbs.1	-	13	1531	c.1481A>C	c.(1480-1482)GAC>GCC	p.D494A	CYP4F2_uc010xot.1_Missense_Mutation_p.D345A	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	494					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						CTCGGTGTGGTCAGGCAGGAC	0.677													8	46					0	0	0.004482	0	0		G	15989663	G	G	15989663	3	3	39	1	0	0	0	0	1	0	0	0	4191	1667	58	5	85	5	CYP4F2	19	15989663	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	910494	15989663	43139320	217	33635											
JAK3	3718	broad.mit.edu	37	chr19	17951088	17951088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtcctgggggctgcggCggagaacataggagccagga	11	4	17	9	2	0	1	0	0	0	1	1	4	1	3	2	6	3	1	2	6	3	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:17951088C>T	uc002nhn.3	-	9	1305	c.1205G>A	c.(1204-1206)CGC>CAC	p.R402H	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Missense_Mutation_p.R402H|JAK3_uc010xpx.1_Missense_Mutation_p.R402H	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	402	SH2; atypical.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						GGGGCTGCGGCGGAGAACATA	0.483		2	Mis		acute megakaryocytic leukemia|								5	44					0	0	0.000602	0	0		T	17951088	T	T	17951088	3	4	39	1	0	0	0	0	1	0	0	0	7955	768	27	1	2233	1	JAK3	19	17951088	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	1961425	17951088	41177895	218	33636											
ISYNA1	51477	broad.mit.edu	37	chr19	18547246	18547246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgactttgtccagccccGcgctagaccggaagtctcgg	7	9	11	14	4	1	2	0	1	1	1	3	3	2	3	4	2	1	1	4	2	3	3	rs138096546		TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:18547246G>A	uc002njd.1	-	6	703	c.653C>T	c.(652-654)GCG>GTG	p.A218V	ISYNA1_uc002nja.1_Missense_Mutation_p.A90V|ISYNA1_uc002njb.1_Missense_Mutation_p.A136V|ISYNA1_uc002njc.1_Missense_Mutation_p.A68V|ISYNA1_uc010xqh.1_Missense_Mutation_p.A16V|ISYNA1_uc002nje.1_Missense_Mutation_p.A164V|ISYNA1_uc002njf.1_Missense_Mutation_p.A68V	NM_016368	NP_057452	Q9NPH2	INO1_HUMAN	inositol-3-phosphate synthase 1	218					inositol biosynthetic process|phospholipid biosynthetic process	cytoplasm	binding|inositol-3-phosphate synthase activity			ovary(1)|pancreas(1)	2						GTCCAGCCCCGCGCTAGACCG	0.607													19	126					0	0	0.007413	0	0		A	18547246	A	A	18547246	3	1	39	1	0	0	0	0	1	0	0	0	7883	1087	38	1	1047	1	ISYNA1	19	18547246	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	596158	18547246	40581737	219	33637											
ZNF536	9745	broad.mit.edu	37	chr19	31040061	31040061	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaagggggagaacaacGatgaagaggatgttgaaacc	15	5	13	8	1	0	4	0	2	0	2	1	7	1	5	3	3	3	1	3	3	5	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:31040061G>T	uc002nsu.1	+	4	3673	c.3535G>T	c.(3535-3537)GAT>TAT	p.D1179Y	ZNF536_uc010edd.1_Missense_Mutation_p.D1179Y	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1179					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GGAGAACAACGATGAAGAGGA	0.557													9	101					3.09899e-07	4.84686e-07	0.004482	1	0		T	31040061	T	T	31040061	3	4	39	1	0	0	0	0	1	0	0	0	17999	1058	37	5	3545	5	ZNF536	19	31040061	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	12492815	31040061	28088922	220	33638											
ZNF570	148268	broad.mit.edu	37	chr19	37976066	37976066	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagcatgcacaccttgcTcatcaccagagaattcacat	13	8	7	13	0	3	1	3	0	0	1	3	2	3	1	2	1	3	4	2	1	1	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:37976066T>C	uc002ogk.1	+	5	2071	c.1542T>C	c.(1540-1542)GCT>GCC	p.A514A	ZNF570_uc010efl.1_Silent_p.A570A|ZNF570_uc010xtr.1_Silent_p.A311A	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	514	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CACACCTTGCTCATCACCAGA	0.299													4	99					0	0	0.001984	0	0		C	37976066	C	C	37976066	2	2	39	1	0	0	0	0	0	0	0	1	18027	1538	54	3		3	ZNF570	19	37976066	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	6936005	37976066	21152917	221	33639											
SPINT2	10653	broad.mit.edu	37	chr19	38779813	38779813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attctgaagaccactccagcGatatgttcaactatgaaggt	13	11	8	9	1	2	3	1	2	1	1	3	4	3	3	2	1	2	1	2	1	5	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:38779813G>A	uc002ohr.1	+	4	704	c.373G>A	c.(373-375)GAT>AAT	p.D125N	SPINT2_uc002ohs.1_Missense_Mutation_p.D68N	NM_021102	NP_066925	O43291	SPIT2_HUMAN	serine protease inhibitor, Kunitz type, 2	125	Extracellular (Potential).				cellular component movement	cytoplasm|extracellular region|integral to membrane|soluble fraction	serine-type endopeptidase inhibitor activity				0	all_cancers(60;6.83e-07)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CCACTCCAGCGATATGTTCAA	0.338													15	134					0	0	0.001882	0	0		A	38779813	A	A	38779813	3	1	39	1	0	0	0	0	1	0	0	0	15094	1058	37	1	387	1	SPINT2	19	38779813	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	803747	38779813	20349170	222	33640											
ATP1A3	478	broad.mit.edu	37	chr19	42479939	42479939	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatccccggtcacagccAcaattgcaccctggagggag	10	5	10	16	1	1	0	1	0	0	0	2	2	2	2	5	3	2	1	5	3	1	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:42479939A>G	uc002osg.2	-	16	2259	c.2105T>C	c.(2104-2106)GTG>GCG	p.V702A	ATP1A3_uc010xwf.1_Missense_Mutation_p.V713A|ATP1A3_uc010xwg.1_Missense_Mutation_p.V672A|ATP1A3_uc010xwh.1_Missense_Mutation_p.V715A|ATP1A3_uc002osh.2_Missense_Mutation_p.V702A	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	702	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						GGTCACAGCCACAATTGCACC	0.438													17	153					0	0	0.006122	0	0		G	42479939	G	G	42479939	3	3	39	1	0	0	0	0	1	0	0	0	1131	159	6	3	968	3	ATP1A3	19	42479939	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	3700126	42479939	16649044	223	33641											
TRPM4	54795	broad.mit.edu	37	chr19	49705384	49705384	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctgctggtcaacttgctCattgccatgttcaggtgagg	7	13	11	10	0	3	1	3	1	0	0	4	1	4	1	2	3	4	3	2	3	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:49705384C>T	uc002pmw.2	+	20	3189	c.3117C>T	c.(3115-3117)CTC>CTT	p.L1039L	TRPM4_uc010emu.2_Silent_p.L894L|TRPM4_uc010yak.1_Silent_p.L503L|TRPM4_uc002pmx.2_Silent_p.L865L|TRPM4_uc010emv.2_Silent_p.L924L|TRPM4_uc010yal.1_Silent_p.L685L|TRPM4_uc002pmy.2_Silent_p.L381L	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	1039	Helical; (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		TCAACTTGCTCATTGCCATGT	0.582													10	110					0	0	0.001368	0	0		T	49705384	T	T	49705384	2	4	39	1	0	0	0	0	0	0	0	1	16614	813	29	4		4	TRPM4	19	49705384	Silent	SNP	C	TCGA-BR-6706-01A-11D-1882-08	7225445	49705384	9423599	224	33642											
POLD1	5424	broad.mit.edu	37	chr19	50910659	50910659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacgggagccactgtcatcGagcccctcaaagggtgaggc	10	5	13	13	2	2	1	2	1	0	0	3	3	2	2	3	3	2	0	3	3	1	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:50910659G>A	uc002psb.3	+	14	1818	c.1762G>A	c.(1762-1764)GAG>AAG	p.E588K	POLD1_uc002psc.3_Missense_Mutation_p.E588K|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Missense_Mutation_p.E588K	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	588					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		CACTGTCATCGAGCCCCTCAA	0.403								DNA_polymerases_(catalytic_subunits)					8	24					0	0	0.00308	0	0		A	50910659	A	A	50910659	3	1	39	1	0	0	0	0	1	0	0	0	12209	1059	37	1	1812	1	POLD1	19	50910659	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	1205275	50910659	8218324	225	33643											
ZNF610	162963	broad.mit.edu	37	chr19	52857592	52857592	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtcaagttaaaatagtaaaAaatacagatggaagggaatg	21	8	10	2	0	1	1	1	0	0	1	1	3	1	3	0	2	1	2	0	2	10	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:52857592A>C	uc002pyx.3	+	5	685	c.279A>C	c.(277-279)AAA>AAC	p.K93N	ZNF610_uc002pyy.3_Missense_Mutation_p.K93N|ZNF610_uc002pyz.3_Intron|ZNF610_uc002pza.2_Missense_Mutation_p.K93N	NM_001161426	NP_001154898	Q8N9Z0	ZN610_HUMAN	zinc finger protein 610 isoform a	93	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3				OV - Ovarian serous cystadenocarcinoma(262;0.00396)|GBM - Glioblastoma multiforme(134;0.00434)		AAATAGTAAAAAATACAGATG	0.353													15	48					0	0	0.003163	0	0		C	52857592	C	C	52857592	3	2	39	1	0	0	0	0	1	0	0	0	18061	11	1	5	289	5	ZNF610	19	52857592	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	1946933	52857592	6271391	226	33644											
ZNF347	84671	broad.mit.edu	37	chr19	53645784	53645784	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccctttgtgtagtaaatcTttcattacaaattcggaaga	12	16	6	7	1	2	1	1	0	1	1	4	2	3	2	1	1	1	2	1	1	6	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:53645784T>A	uc002qbb.1	-	5	366	c.297A>T	c.(295-297)AAA>AAT	p.K99N	ZNF347_uc010eql.1_Missense_Mutation_p.K100N|ZNF347_uc002qbc.1_Missense_Mutation_p.K100N	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	99					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		GTAGTAAATCTTTCATTACAA	0.353													5	28					0	0	0.001168	0	0		A	53645784	A	A	53645784	3	1	39	1	0	0	0	0	1	0	0	0	17886	1606	56	5	2226	5	ZNF347	19	53645784	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	788192	53645784	5483199	227	33645											
KIR2DL1	3802	broad.mit.edu	37	chr19	55284967	55284967	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggggtctccaaggccaacTtctccatcagtcgcatgacg	9	9	10	13	2	3	1	1	1	2	0	6	1	3	1	3	3	1	1	3	3	2	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:55284967T>G	uc002qhb.1	+	3	291	c.253T>G	c.(253-255)TTC>GTC	p.F85V	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_Intron|KIR3DP1_uc010yfi.1_Intron|KIR2DL1_uc010erz.1_Missense_Mutation_p.F85V	NM_014218	NP_055033	P43626	KI2L1_HUMAN	killer cell immunoglobulin-like receptor, two	85	Extracellular (Potential).|Ig-like C2-type 1.				immune response|natural killer cell inhibitory signaling pathway	integral to plasma membrane	protein binding|receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		CAAGGCCAACTTCTCCATCAG	0.522													39	129					0	0	0.00874	0	0		G	55284967	G	G	55284967	3	3	39	1	0	0	0	0	1	0	0	0	8332	1609	56	5	263	5	KIR2DL1	19	55284967	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	1639183	55284967	3844016	228	33646											
NLRP9	338321	broad.mit.edu	37	chr19	56243496	56243496	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaccaatataaatgaaaacTtcttcaaagaaattcatcac	19	12	2	8	0	4	2	3	1	1	1	4	2	4	2	1	0	2	0	1	0	9	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:56243496T>G	uc002qly.2	-	2	1729	c.1701A>C	c.(1699-1701)GAA>GAC	p.E567D		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	567						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		AAATGAAAACTTCTTCAAAGA	0.348													13	65					0	0	0.001855	0	0		G	56243496	G	G	56243496	3	3	39	1	0	0	0	0	1	0	0	0	10503	1606	56	5	1306	5	NLRP9	19	56243496	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	958529	56243496	2885487	229	33647											
PEG3	5178	broad.mit.edu	37	chr19	57326873	57326873	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgaggtcagagctatgAgcaaagcactccccacactc	12	7	9	13	0	2	3	2	2	0	1	4	3	3	3	2	1	3	3	2	1	2	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr19:57326873A>G	uc002qnu.2	-	7	3288	c.2937T>C	c.(2935-2937)GCT>GCC	p.A979A	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.A950A|PEG3_uc002qnv.2_Silent_p.A979A|PEG3_uc002qnw.2_Silent_p.A855A|PEG3_uc002qnx.2_Silent_p.A853A|PEG3_uc010etr.2_Silent_p.A979A	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	979	C2H2-type 5.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CAGAGCTATGAGCAAAGCACT	0.493													4	188					0	0	0.000602	0	0		G	57326873	G	G	57326873	2	3	39	1	0	0	0	0	0	0	0	1	11739	291	11	3		3	PEG3	19	57326873	Silent	SNP	A	TCGA-BR-6706-01A-11D-1882-08	1083377	57326873	1802110	230	33648											
DEFB132	400830	broad.mit.edu	37	chr20	238424	238424	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccaccccttcagccatgaAgttcctgctcctggtcttgg	6	11	9	15	0	2	1	1	1	1	0	4	1	4	1	6	2	3	2	6	2	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr20:238424A>G	uc002wdb.2	+	1	48	c.5A>G	c.(4-6)AAG>AGG	p.K2R		NM_207469	NP_997352	Q7Z7B7	DB132_HUMAN	beta-defensin 32 precursor	2					defense response to bacterium	extracellular region					0						TCAGCCATGAAGTTCCTGCTC	0.522													7	57					0	0	0.00308	0	0		G	238424	G	G	238424	3	3	39	1	0	0	0	0	1	0	0	0	4423	72	3	3	7	3	DEFB132	20	238424	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08		238424	62787096	231	33649											
RBCK1	10616	broad.mit.edu	37	chr20	402813	402813	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcaacagccaggaggcggaGgtctcctgccccttcattga	8	7	12	14	2	2	1	1	1	1	0	3	3	2	3	4	4	3	1	4	4	1	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr20:402813G>A	uc002wdp.3	+	8	1653	c.960G>A	c.(958-960)GAG>GAA	p.E320E	RBCK1_uc010zpm.1_RNA|RBCK1_uc002wdq.3_Silent_p.E278E|RBCK1_uc010fzy.2_RNA|RBCK1_uc002wdr.3_Silent_p.E150E	NM_031229	NP_112506	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing	320	RING-type.				interspecies interaction between organisms|negative regulation of NF-kappaB transcription factor activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|proteasomal ubiquitin-dependent protein catabolic process|protein linear polyubiquitination|T cell receptor signaling pathway	LUBAC complex	protein binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)				AGGAGGCGGAGGTCTCCTGCC	0.607													34	175					0	0	0.002836	0	0		A	402813	A	A	402813	2	1	39	1	0	0	0	0	0	0	0	1	13132	991	35	4		4	RBCK1	20	402813	Silent	SNP	G	TCGA-BR-6706-01A-11D-1882-08	164389	402813	62622707	232	33650											
PAX1	5075	broad.mit.edu	37	chr20	21695269	21695269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgcacaggtctgcgcggCggccccggcaatcggcacgg	5	3	18	15	7	1	0	0	0	1	0	2	0	1	0	2	7	1	3	2	7	1	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr20:21695269C>T	uc002wsj.2	+	5	1487	c.1433C>T	c.(1432-1434)GCG>GTG	p.A478V	PAX1_uc010zsl.1_3'UTR|PAX1_uc010zsm.1_3'UTR	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	478					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						GTCTGCGCGGCGGCCCCGGCA	0.771													3	12					0	0	0.004672	0	0		T	21695269	T	T	21695269	3	4	39	1	0	0	0	0	1	0	0	0	11497	768	27	1	1451	1	PAX1	20	21695269	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	21292456	21695269	41330251	233	33651											
SSTR4	6754	broad.mit.edu	37	chr20	23016968	23016968	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggtgcagctgctgaaccTcttcgtgaccagccttgatg	6	11	12	12	2	1	3	0	3	1	0	2	3	1	3	3	1	5	3	3	1	1	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr20:23016968T>G	uc002wsr.2	+	1	912	c.848T>G	c.(847-849)CTC>CGC	p.L283R		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	283	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					CTGCTGAACCTCTTCGTGACC	0.567													15	136					0	0	0.00278	0	0		G	23016968	G	G	23016968	3	3	39	1	0	0	0	0	1	0	0	0	15225	1551	54	5	850	5	SSTR4	20	23016968	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	1321699	23016968	40008552	234	33652											
NAPB	63908	broad.mit.edu	37	chr20	23383641	23383641	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtacataccactccaatttTtagccatcttgaacatattt	12	16	3	10	0	1	1	0	1	1	0	2	1	2	1	3	0	4	1	3	0	6	8			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr20:23383641T>C	uc002wta.2	-	2	284	c.167A>G	c.(166-168)AAA>AGA	p.K56R	NAPB_uc002wtc.2_5'UTR|NAPB_uc002wtb.2_Missense_Mutation_p.K56R|NAPB_uc002wtd.3_RNA|NAPB_uc010zst.1_Missense_Mutation_p.K56R	NM_022080	NP_071363	Q9H115	SNAB_HUMAN	N-ethylmaleimide-sensitive factor attachment	56					intracellular protein transport|vesicle-mediated transport	membrane				ovary(1)	1	Lung NSC(19;0.0646)|Colorectal(13;0.0993)|all_lung(19;0.143)					ACTCCAATTTTTAGCCATCTT	0.333													7	52					0	0	0.001984	0	0		C	23383641	C	C	23383641	3	2	39	1	0	0	0	0	1	0	0	0	10180	1841	64	3	769	3	NAPB	20	23383641	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	366673	23383641	39641879	235	33653											
DLGAP4	22839	broad.mit.edu	37	chr20	35064645	35064645	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatgggcgacgaggacaGcgacgagtccggcggcagcc	8	2	18	13	6	0	0	0	0	0	0	1	5	1	1	3	5	2	1	3	5	0	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr20:35064645G>C	uc002xff.2	+	4	1568	c.1133G>C	c.(1132-1134)AGC>ACC	p.S378T	DLGAP4_uc010zvp.1_Missense_Mutation_p.S378T	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	378					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				GACGAGGACAGCGACGAGTCC	0.711													3	54					0	0	0.009096	0	0		C	35064645	C	C	35064645	3	2	39	1	0	0	0	0	1	0	0	0	4568	971	34	5	1139	5	DLGAP4	20	35064645	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	11681004	35064645	27960875	236	33654											
VSTM2L	128434	broad.mit.edu	37	chr20	36572448	36572448	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgggtgaagcccacggaCgaaggcacctacgagtgccg	9	4	14	14	5	0	1	0	1	0	0	1	4	1	2	4	3	3	1	4	3	3	1	rs150645578		TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr20:36572448C>T	uc002xhk.3	+	4	662	c.408C>T	c.(406-408)GAC>GAT	p.D136D		NM_080607	NP_542174	Q96N03	VTM2L_HUMAN	V-set and transmembrane domain containing 2 like	136	Ig-like.									ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.00878)				AGCCCACGGACGAAGGCACCT	0.652													4	44					0	0	0.009096	0	0		T	36572448	T	T	36572448	2	4	39	1	0	0	0	0	0	0	0	1	17256	535	19	1		1	VSTM2L	20	36572448	Silent	SNP	C	TCGA-BR-6706-01A-11D-1882-08	1507803	36572448	26453072	237	33655											
PREX1	57580	broad.mit.edu	37	chr20	47267989	47267989	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatcttctccagcacatggCacctgacgcctgccgtgctc	6	9	9	17	3	2	1	0	1	2	0	4	2	2	1	4	1	3	3	4	1	0	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr20:47267989C>A	uc002xtw.1	-	22	2623	c.2600G>T	c.(2599-2601)TGC>TTC	p.C867F	PREX1_uc002xtv.1_Missense_Mutation_p.C164F	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	867					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			CAGCACATGGCACCTGACGCC	0.637													10	79					6.40141e-05	9.87521e-05	0.000978	1	0		A	47267989	A	A	47267989	3	1	39	1	0	0	0	0	1	0	0	0	12498	710	25	5	2455	5	PREX1	20	47267989	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	10695541	47267989	15757531	238	33656											
SALL4	57167	broad.mit.edu	37	chr20	50406626	50406626	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcatcgggagactttgacTtgatgctttcggcttgacta	8	13	11	9	2	0	4	0	3	0	1	2	5	0	4	0	2	2	3	0	2	1	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr20:50406626T>C	uc002xwh.3	-	2	2497	c.2396A>G	c.(2395-2397)AAG>AGG	p.K799R	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	799					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						AGACTTTGACTTGATGCTTTC	0.512													11	138					0	0	0.001855	0	0		C	50406626	C	C	50406626	3	2	39	1	0	0	0	0	1	0	0	0	13838	1609	56	3	777	3	SALL4	20	50406626	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	3138637	50406626	12618894	239	33657											
CASS4	57091	broad.mit.edu	37	chr20	55027707	55027707	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagaagaatctgtaagagAatttctggattttgcccgag	13	12	10	6	1	2	3	0	0	2	3	2	6	2	4	1	1	1	1	1	1	5	5	rs145762733		TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr20:55027707A>T	uc002xxp.2	+	6	1700	c.1475A>T	c.(1474-1476)GAA>GTA	p.E492V	CASS4_uc002xxq.3_Missense_Mutation_p.E492V|CASS4_uc002xxr.2_Missense_Mutation_p.E492V|CASS4_uc010zze.1_Missense_Mutation_p.E438V|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	492					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						TCTGTAAGAGAATTTCTGGAT	0.478													11	48					0	0	0.000978	0	0		T	55027707	T	T	55027707	3	4	39	1	0	0	0	0	1	0	0	0	2686	246	9	5	1493	5	CASS4	20	55027707	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	4621081	55027707	7997813	240	33658											
CDH26	60437	broad.mit.edu	37	chr20	58564160	58564160	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcaataaagaggagggcGccaggcctgggaccctgttg	9	8	15	9	1	1	1	1	0	0	1	1	3	1	3	3	4	0	1	3	4	3	3	rs143325825		TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr20:58564160G>T	uc002ybe.2	+	9	1525	c.1225G>T	c.(1225-1227)GCC>TCC	p.A409S	CDH26_uc002ybf.1_5'UTR|CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	409	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			AGAGGAGGGCGCCAGGCCTGG	0.557													52	458					6.3008e-33	9.95791e-33	0.00361	1	0		T	58564160	T	T	58564160	3	4	39	1	0	0	0	0	1	0	0	0	3113	1087	38	5	1259	5	CDH26	20	58564160	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	3536453	58564160	4461360	241	33659											
LIPI	149998	broad.mit.edu	37	chr21	15561478	15561478	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaattacattcatatcttcTtcattcagcaaaatccttac	14	15	1	11	0	5	0	3	0	2	0	6	0	6	0	1	0	3	1	1	0	6	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr21:15561478T>C	uc002yjm.2	-	2	382	c.372A>G	c.(370-372)GAA>GAG	p.E124E	LIPI_uc010gkw.1_Silent_p.E57E	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	103					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		TCATATCTTCTTCATTCAGCA	0.388													6	76					0	0	0.001984	0	0		C	15561478	C	C	15561478	2	2	39	1	0	0	0	0	0	0	0	1	8842	1606	56	3		3	LIPI	21	15561478	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08		15561478	32568417	242	33660											
ADAMTS5	11096	broad.mit.edu	37	chr21	28296442	28296442	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggacatccttttgctaacTtccggtttccatcctggcac	7	13	8	13	1	0	0	0	0	0	0	4	2	4	1	4	3	2	3	4	3	1	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr21:28296442T>G	uc002ymg.2	-	8	3452	c.2723A>C	c.(2722-2724)AAG>ACG	p.K908T		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	908	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						TTTTGCTAACTTCCGGTTTCC	0.522													7	84					0	0	0.001984	0	0		G	28296442	G	G	28296442	3	3	39	1	0	0	0	0	1	0	0	0	269	1609	56	5	73	5	ADAMTS5	21	28296442	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	12734964	28296442	19833453	243	33661											
TIAM1	7074	broad.mit.edu	37	chr21	32638350	32638350	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgttttagctcttctgccTtgcatgctgttgctatggct	3	19	10	9	0	2	0	0	0	2	0	2	0	2	0	1	1	5	8	1	1	2	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr21:32638350T>G	uc002yow.1	-	5	1411	c.939A>C	c.(937-939)CAA>CAC	p.Q313H	TIAM1_uc011adk.1_Missense_Mutation_p.Q313H|TIAM1_uc011adl.1_Missense_Mutation_p.Q313H|TIAM1_uc002yox.1_Intron	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	313					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CTCTTCTGCCTTGCATGCTGT	0.408													9	80					0	0	0.004482	0	0		G	32638350	G	G	32638350	3	3	39	1	0	0	0	0	1	0	0	0	15915	1606	56	5	3936	5	TIAM1	21	32638350	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	4341908	32638350	15491545	244	33662											
CECR1	51816	broad.mit.edu	37	chr22	17688091	17688091	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgatcccccttggggtgaAacagatgtggcagtgaggcc	9	8	14	10	0	0	4	0	3	0	1	1	4	1	4	3	4	1	1	3	4	1	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr22:17688091A>C	uc002zmk.1	-	2	624	c.412T>G	c.(412-414)TTC>GTC	p.F138V	CECR1_uc010gqu.1_Missense_Mutation_p.F138V|CECR1_uc011agi.1_Missense_Mutation_p.F96V|CECR1_uc011agj.1_Missense_Mutation_p.F96V	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	138	PRB domain.				adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				CTTGGGGTGAAACAGATGTGG	0.537													16	146					0	0	0.004007	0	0		C	17688091	C	C	17688091	3	2	39	1	0	0	0	0	1	0	0	0	3208	14	1	5	1189	5	CECR1	22	17688091	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08		17688091	33616475	245	33663											
GNAZ	2781	broad.mit.edu	37	chr22	23437912	23437912	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggcaaagctcagaggaaaaAgaagcagcccggcggtcccg	13	2	14	12	4	1	2	1	0	0	2	2	3	2	3	2	4	3	3	2	4	4	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr22:23437912A>C	uc002zwu.1	+	2	567	c.30A>C	c.(28-30)AAA>AAC	p.K10N	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	10						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		CAGAGGAAAAAGAAGCAGCCC	0.637													4	38					0	0	0.009096	0	0		C	23437912	C	C	23437912	3	2	39	1	0	0	0	0	1	0	0	0	6529	69	3	5	32	5	GNAZ	22	23437912	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	5749821	23437912	27866654	246	33664											
ZNRF3	84133	broad.mit.edu	37	chr22	29445296	29445296	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggccgcgtgcacaggaccaAcgccatcccagcctacccta	9	4	9	19	4	0	0	0	0	0	0	1	1	1	1	6	2	4	1	6	2	3	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr22:29445296A>T	uc003aeg.2	+	8	992	c.827A>T	c.(826-828)AAC>ATC	p.N276I	ZNRF3_uc003aeh.1_Missense_Mutation_p.N276I	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	376	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						CACAGGACCAACGCCATCCCA	0.647													11	88					0	0	0.008291	0	0		T	29445296	T	T	29445296	3	4	39	1	0	0	0	0	1	0	0	0	18238	43	2	5	853	5	ZNRF3	22	29445296	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	6007384	29445296	21859270	247	33665											
EFCAB6	64800	broad.mit.edu	37	chr22	44063009	44063009	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaagtcatgcacgttaattTttccattaggctccttgctg	9	16	7	9	1	1	0	1	0	0	0	3	0	3	0	2	1	2	4	2	1	4	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr22:44063009T>A	uc003bdy.1	-	17	2173	c.1958A>T	c.(1957-1959)AAA>ATA	p.K653I	EFCAB6_uc003bdz.1_Missense_Mutation_p.K501I|EFCAB6_uc010gzi.1_Missense_Mutation_p.K501I|EFCAB6_uc010gzj.1_5'UTR|EFCAB6_uc010gzk.1_RNA	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	653	EF-hand 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CACGTTAATTTTTCCATTAGG	0.373													18	113					0	0	0.006122	0	0		A	44063009	A	A	44063009	3	1	39	1	0	0	0	0	1	0	0	0	4945	1841	64	5	2611	5	EFCAB6	22	44063009	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	14617713	44063009	7241557	248	33666											
PKDREJ	10343	broad.mit.edu	37	chr22	46655349	46655349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acggatggaatggatgtcccCcaagtcactttttgtcgtta	9	13	10	9	2	1	0	1	0	0	0	3	3	2	3	2	3	0	1	2	3	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chr22:46655349C>T	uc003bhh.2	-	1	3871	c.3871G>A	c.(3871-3873)GGG>AGG	p.G1291R		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1291	Cytoplasmic (Potential).|PLAT.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TGGATGTCCCCCAAGTCACTT	0.463													14	132					0	0	0.004007	0	0		T	46655349	T	T	46655349	3	4	39	1	0	0	0	0	1	0	0	0	11989	623	22	4	2894	4	PKDREJ	22	46655349	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	2592340	46655349	4649217	249	33667											
WWC3	55841	broad.mit.edu	37	chrX	10047829	10047829	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtacaaagaaaagggggTggagaccctgcaagagtgag	15	4	16	6	0	0	4	0	1	0	3	0	5	0	4	1	3	2	3	1	3	5	1			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chrX:10047829T>C	uc004csx.3	+	5	560	c.362T>C	c.(361-363)GTG>GCG	p.V121A	WWC3_uc010nds.2_5'UTR|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	121	Potential.									ovary(4)	4						GAAAAGGGGGTGGAGACCCTG	0.428													8	17					0	0	0.00308	0	0		C	10047829	C	C	10047829	3	2	39	1	0	0	0	0	1	0	0	0	17439	1696	59	3	376	3	WWC3	23	10047829	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08		10047829	145222731	250	33668											
GRPR	2925	broad.mit.edu	37	chrX	16142269	16142269	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatcactttgatcaagatcTtctgtacagtcaagtccatg	12	13	6	10	0	5	2	3	1	2	1	6	2	6	2	1	0	1	1	1	0	3	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chrX:16142269T>G	uc004cxj.2	+	1	846	c.193T>G	c.(193-195)TTC>GTC	p.F65V		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	65	Cytoplasmic (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					GATCAAGATCTTCTGTACAGT	0.493											OREG0019682	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	136					0	0	0.009096	0	0		G	16142269	G	G	16142269	3	3	39	1	0	0	0	0	1	0	0	0	6824	1609	56	5	195	5	GRPR	23	16142269	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	6094440	16142269	139128291	251	33669											
REPS2	9185	broad.mit.edu	37	chrX	17080602	17080602	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtcaattatttgattctTattctgagtcactgccggca	9	16	7	9	1	4	2	2	2	2	0	4	2	4	2	1	1	1	1	1	1	3	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chrX:17080602T>C	uc004cxv.1	+	9	1327	c.1156T>C	c.(1156-1158)TAT>CAT	p.Y386H	REPS2_uc004cxw.1_Missense_Mutation_p.Y385H|REPS2_uc011miw.1_Missense_Mutation_p.Y245H	NM_004726	NP_004717	Q8NFH8	REPS2_HUMAN	RALBP1 associated Eps domain containing 2	386					epidermal growth factor receptor signaling pathway|protein complex assembly	cytoplasm	calcium ion binding|protein binding			skin(2)|central_nervous_system(1)	3	Hepatocellular(33;0.183)					ATTTGATTCTTATTCTGAGTC	0.353													21	39					0	0	0.00333	0	0		C	17080602	C	C	17080602	3	2	39	1	0	0	0	0	1	0	0	0	13254	1754	61	3	1190	3	REPS2	23	17080602	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	938333	17080602	138189958	252	33670											
MAOB	4129	broad.mit.edu	37	chrX	43662581	43662581	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catccattgtcctccaaaagTtgttatgatctaagtaggta	12	14	7	8	0	1	1	0	1	1	0	4	1	4	1	3	1	0	4	3	1	6	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chrX:43662581T>G	uc004dfz.3	-	4	526	c.350A>C	c.(349-351)AAC>ACC	p.N117T	MAOB_uc011mkx.1_Missense_Mutation_p.N101T|MAOB_uc011mky.1_Missense_Mutation_p.N101T	NM_000898	NP_000889	P27338	AOFB_HUMAN	monoamine oxidase B	117	Cytoplasmic.				xenobiotic metabolic process	integral to membrane|mitochondrial outer membrane	electron carrier activity|primary amine oxidase activity			ovary(1)|central_nervous_system(1)	2					Amantadine(DB00915)|Bupropion(DB01156)|Carbidopa(DB00190)|Citalopram(DB00215)|Dopamine(DB00988)|Entacapone(DB00494)|Furazolidone(DB00614)|Ginkgo biloba(DB01381)|Ibuprofen(DB01050)|Imipramine(DB00458)|Iproniazid(DB04818)|Isocarboxazid(DB01247)|Levodopa(DB01235)|Maprotiline(DB00934)|Meclizine(DB00737)|Moclobemide(DB01171)|Nicotine(DB00184)|Pargyline(DB01626)|Phenelzine(DB00780)|Phentermine(DB00191)|Rasagiline(DB01367)|Selegiline(DB01037)|Tranylcypromine(DB00752)	CCTCCAAAAGTTGTTATGATC	0.373													20	45					0	0	0.001882	0	0		G	43662581	G	G	43662581	3	3	39	1	0	0	0	0	1	0	0	0	9244	1725	60	5	1260	5	MAOB	23	43662581	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	26581979	43662581	111607979	253	33671											
ZNF630	57232	broad.mit.edu	37	chrX	47918755	47918755	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgtataattagatgtgacTtctgggagaaagcttttgga	12	14	12	3	0	1	3	0	1	1	2	1	6	1	4	0	2	1	2	0	2	4	6			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chrX:47918755T>G	uc004div.3	-	5	1328	c.1076A>C	c.(1075-1077)AAG>ACG	p.K359T	ZNF630_uc010nhz.1_Intron|ZNF630_uc004diw.2_Missense_Mutation_p.K235T	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	359	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2						TAGATGTGACTTCTGGGAGAA	0.428													18	36					0	0	0.007413	0	0		G	47918755	G	G	47918755	3	3	39	1	0	0	0	0	1	0	0	0	18079	1609	56	5	901	5	ZNF630	23	47918755	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	4256174	47918755	107351805	254	33672											
FAM123B	139285	broad.mit.edu	37	chrX	63412453	63412453	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttctggtgttggagaaacTtttggcccaggggcatcttg	6	13	15	7	0	2	1	0	0	2	1	2	2	2	1	1	6	1	3	1	6	1	5			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chrX:63412453T>C	uc004dvo.2	-	2	987	c.714A>G	c.(712-714)AAA>AAG	p.K238K		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	238					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						TTGGAGAAACTTTTGGCCCAG	0.532													6	155					0	0	0.001984	0	0		C	63412453	C	C	63412453	2	2	39	1	0	0	0	0	0	0	0	1	5434	1606	56	3		3	FAM123B	23	63412453	Silent	SNP	T	TCGA-BR-6706-01A-11D-1882-08	15493698	63412453	91858107	255	33673											
KIAA2022	340533	broad.mit.edu	37	chrX	73961294	73961294	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctttgctggatcaccagcTtagggctgcaatgggccagg	7	10	14	10	0	1	0	1	0	0	0	1	1	1	1	2	4	4	5	2	4	2	2			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chrX:73961294T>G	uc004eby.2	-	3	3715	c.3098A>C	c.(3097-3099)AAG>ACG	p.K1033T		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1033					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GATCACCAGCTTAGGGCTGCA	0.468													5	80					0	0	0.001168	0	0		G	73961294	G	G	73961294	3	3	39	1	0	0	0	0	1	0	0	0	8285	1609	56	5	1460	5	KIAA2022	23	73961294	Missense_Mutation	SNP	T	TCGA-BR-6706-01A-11D-1882-08	10548841	73961294	81309266	256	33674											
TRPC5	7224	broad.mit.edu	37	chrX	111022219	111022219	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgattaaattaccttaaaAttttcttctgtaagtccctc	12	17	3	9	0	2	1	0	1	2	0	4	1	3	1	2	0	1	1	2	0	6	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chrX:111022219A>C	uc004epl.1	-	10	3145	c.2226T>G	c.(2224-2226)AAT>AAG	p.N742K		NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	742	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						TTACCTTAAAATTTTCTTCTG	0.313													13	27					0	0	0.001855	0	0		C	111022219	C	C	111022219	3	2	39	1	0	0	0	0	1	0	0	0	16608	98	4	5	703	5	TRPC5	23	111022219	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	37060925	111022219	44248341	257	33675											
USP26	83844	broad.mit.edu	37	chrX	132160633	132160633	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaatatttggaaatgatgActtcctggtcattcttcttt	10	19	6	6	0	3	2	1	2	2	0	4	3	4	3	1	2	0	0	1	2	4	7			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chrX:132160633A>C	uc010nrm.1	-	6	2086	c.1616T>G	c.(1615-1617)GTC>GGC	p.V539G	USP26_uc011mvf.1_Missense_Mutation_p.V539G	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	539					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					GGAAATGATGACTTCCTGGTC	0.398													7	127					0	0	0.004482	0	0		C	132160633	C	C	132160633	3	2	39	1	0	0	0	0	1	0	0	0	17083	275	10	5	1128	5	USP26	23	132160633	Missense_Mutation	SNP	A	TCGA-BR-6706-01A-11D-1882-08	21138414	132160633	23109927	258	33676											
ARHGEF6	9459	broad.mit.edu	37	chrX	135825841	135825841	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcttcaactcgtgtgacGtaaatgatgtcccccttaca	9	13	6	13	2	2	2	1	2	1	0	4	2	3	2	3	0	2	1	3	0	4	4			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chrX:135825841G>A	uc004fab.2	-	5	1026	c.564C>T	c.(562-564)TAC>TAT	p.Y188Y	ARHGEF6_uc011mwd.1_Silent_p.Y34Y|ARHGEF6_uc011mwe.1_Silent_p.Y34Y	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	188	SH3.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					CTCGTGTGACGTAAATGATGT	0.423													16	88					0	0	0.004007	0	0		A	135825841	A	A	135825841	2	1	39	1	0	0	0	0	0	0	0	1	910	1140	40	1		1	ARHGEF6	23	135825841	Silent	SNP	G	TCGA-BR-6706-01A-11D-1882-08	3665208	135825841	19444719	259	33677											
L1CAM	3897	broad.mit.edu	37	chrX	153134383	153134383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatgtacgtctgattgtccGcagtcaggatcttggctggc	6	12	12	11	2	3	1	1	1	2	0	4	2	4	2	2	3	1	3	2	3	1	3			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chrX:153134383G>A	uc004fjb.2	-	11	1400	c.1292C>T	c.(1291-1293)GCG>GTG	p.A431V	L1CAM_uc004fjc.2_Missense_Mutation_p.A431V|L1CAM_uc010nuo.2_Missense_Mutation_p.A426V|L1CAM_uc004fjd.1_Missense_Mutation_p.A245V	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	431	Extracellular (Potential).|Ig-like C2-type 5.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTGATTGTCCGCAGTCAGGAT	0.617													4	63					0	0	0.000602	0	0		A	153134383	A	A	153134383	3	1	39	1	0	0	0	0	1	0	0	0	8604	1087	38	1	2553	1	L1CAM	23	153134383	Missense_Mutation	SNP	G	TCGA-BR-6706-01A-11D-1882-08	17308542	153134383	2136177	260	33678											
ARHGAP4	393	broad.mit.edu	37	chrX	153176006	153176006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaccaccagcaccggcgCgggcagccgccacagcaggc	10	0	13	18	4	0	1	0	0	0	1	0	1	0	1	5	3	4	3	5	3	1	0			TCGA-BR-6706-01A-11D-1882-08	TCGA-BR-6706-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	41ef4abd-e2b5-477c-9853-ac828578ba3f	f779f135-1db2-4a42-b853-b69f9e5f7547	g.chrX:153176006C>T	uc004fjk.1	-	16	1918	c.1876G>A	c.(1876-1878)GCG>ACG	p.A626T	ARHGAP4_uc004fjj.1_5'UTR|ARHGAP4_uc011mzf.1_Missense_Mutation_p.A603T|ARHGAP4_uc004fjl.1_Missense_Mutation_p.A666T|ARHGAP4_uc010nup.1_Intron	NM_001666	NP_001657	P98171	RHG04_HUMAN	Rho GTPase activating protein 4 isoform 2	626	Rho-GAP.				apoptosis|cytoskeleton organization|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|Rho protein signal transduction	cytosol|focal adhesion|nucleus	Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			central_nervous_system(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGCACCGGCGCGGGCAGCCGC	0.711													6	21					0	0	0.004482	0	0		T	153176006	T	T	153176006	3	4	39	1	0	0	0	0	1	0	0	0	885	768	27	1	992	1	ARHGAP4	23	153176006	Missense_Mutation	SNP	C	TCGA-BR-6706-01A-11D-1882-08	41623	153176006	2094554	261	33679											
LOC649330	649330	broad.mit.edu	37	chr1	12907938	12907938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcattctgccatcctctcCtgctacagcagcccgggcat	8	10	7	16	1	3	0	1	0	2	0	5	0	4	0	4	1	5	3	4	1	2	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr1:12907938C>T	uc009vno.2	-	1	300	c.205G>A	c.(205-207)GGA>AGA	p.G69R	HNRNPCL1_uc010obf.1_Missense_Mutation_p.G69R	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	69							nucleic acid binding|nucleotide binding				0						CCATCCTCTCCTGCTACAGCA	0.483													29	175					0	0	0.010818	0	0		T	12907938	T	T	12907938	3	4	40	1	0	0	0	0	1	0	0	0	8903	690	24	4	680	4	LOC649330	1	12907938	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08		12907938	236342683	1	33680											
ARID1A	8289	broad.mit.edu	37	chr1	27101593	27101593	+	Frame_Shift_Del	DEL	A	-	-																															ccagtacctgcctcgcacatAgcacctgcccctgtgcagcc																										TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr1:27101593delA	uc001bmv.1	+	18	5248	c.4875delA	c.(4873-4875)ATAfs	p.I1625fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.I1624fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.I1408fs|ARID1A_uc001bmw.1_Frame_Shift_Del_p.I1242fs|ARID1A_uc001bmx.1_Frame_Shift_Del_p.I471fs|ARID1A_uc009vsm.1_Intron|ARID1A_uc009vsn.1_Translation_Start_Site	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1625					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CCTCGCACATAGCACCTGCCC	0.602			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								53	71	---	---	---	---						.	-	27101593	-	-	27101593	7	5	40	1	0	1	0	1	0	0	0	0	913	410	15	0	4945	0	ARID1A	1	27101593	Frame_Shift_Del	DEL	A	TCGA-BR-6707-01A-11D-1882-08	14193655	27101593	222149028	2	33681											
MSH4	4438	broad.mit.edu	37	chr1	76282161	76282161	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatttgtttccagggtagtGaacagacagccatgatagat	13	11	11	6	0	0	5	0	2	0	3	1	5	1	5	2	1	2	2	2	1	3	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr1:76282161G>T	uc001dhd.1	+	6	960	c.919G>T	c.(919-921)GAA>TAA	p.E307*		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	307					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						CCAGGGTAGTGAACAGACAGC	0.318								MMR					10	28					5.50884e-06	8.9794e-06	0.013537	1	0		T	76282161	T	T	76282161	4	4	40	1	0	0	0	0	0	1	0	0	9890	1291	45	5	941	5	MSH4	1	76282161	Nonsense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	49180568	76282161	172968460	3	33682											
SORT1	6272	broad.mit.edu	37	chr1	109870142	109870142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgagcaatgacaatgcctaCggcattcggctctgagagtg	11	9	12	9	2	1	3	0	3	1	1	2	4	1	3	1	2	3	3	1	2	3	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr1:109870142C>T	uc001dxm.1	-	12	1502	c.1453G>A	c.(1453-1455)GTA>ATA	p.V485I	SORT1_uc010ovi.1_Missense_Mutation_p.V348I	NM_002959	NP_002950	Q99523	SORT_HUMAN	sortilin 1 preproprotein	485	Extracellular (Potential).				endocytosis|endosome to lysosome transport|endosome transport via multivesicular body sorting pathway|glucose import|Golgi to endosome transport|induction of apoptosis by extracellular signals|myotube differentiation|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|neuropeptide signaling pathway|ossification|plasma membrane to endosome transport|regulation of gene expression|response to insulin stimulus|vesicle organization	cell surface|coated pit|early endosome|endoplasmic reticulum membrane|endosome membrane|Golgi cisterna membrane|integral to membrane|lysosomal membrane|microsome|nuclear membrane|perinuclear region of cytoplasm|plasma membrane	enzyme binding|nerve growth factor binding|nerve growth factor receptor activity|neurotensin receptor activity, non-G-protein coupled			ovary(1)	1		all_epithelial(167;4.69e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0529)|Colorectal(144;0.142)|Epithelial(280;0.145)|Kidney(133;0.169)|all cancers(265;0.184)		ACAATGCCTACGGCATTCGGC	0.498													9	49					0	0	0.006214	0	0		T	109870142	T	T	109870142	3	4	40	1	0	0	0	0	1	0	0	0	14960	536	19	1	1078	1	SORT1	1	109870142	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	33587981	109870142	139380479	4	33683											
FCRL5	83416	broad.mit.edu	37	chr1	157485636	157485636	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggggagactcaccttgTtcctgagatgcctggggtca	9	9	14	9	0	2	3	2	1	0	3	3	5	3	3	3	4	1	1	3	4	1	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr1:157485636T>C	uc001fqu.2	-	16	2998	c.2840A>G	c.(2839-2841)AAC>AGC	p.N947S	FCRL5_uc009wsm.2_Missense_Mutation_p.T944A	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	947	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				ACTCACCTTGTTCCTGAGATG	0.602													3	102					0	0	0.009096	0	0		C	157485636	C	C	157485636	3	2	40	1	0	0	0	0	1	0	0	0	5812	1725	60	3	101	3	FCRL5	1	157485636	Missense_Mutation	SNP	T	TCGA-BR-6707-01A-11D-1882-08	47615494	157485636	91764985	5	33684											
ABL2	27	broad.mit.edu	37	chr1	179077710	179077710	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactccagccatcccaagtcGtgccccaccattcttctctt	8	11	4	18	1	2	0	0	0	2	0	6	0	4	0	6	0	3	0	6	0	2	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr1:179077710G>A	uc001gmj.3	-	12	2979	c.2692C>T	c.(2692-2694)CGA>TGA	p.R898*	ABL2_uc010pnf.1_Nonsense_Mutation_p.R795*|ABL2_uc010png.1_Nonsense_Mutation_p.R774*|ABL2_uc010pnh.1_Nonsense_Mutation_p.R877*|ABL2_uc001gmg.3_Nonsense_Mutation_p.R780*|ABL2_uc001gmi.3_Nonsense_Mutation_p.R883*|ABL2_uc001gmh.3_Nonsense_Mutation_p.R862*|ABL2_uc010pne.1_Nonsense_Mutation_p.R759*	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	898	F-actin-binding (By similarity).|Pro-rich.				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	ATCCCAAGTCGTGCCCCACCA	0.612			T	ETV6	AML								10	55					0	0	0.006214	0	0		A	179077710	A	A	179077710	4	1	40	1	0	0	0	0	0	1	0	0	93	1153	40	1	860	1	ABL2	1	179077710	Nonsense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	21592074	179077710	70172911	6	33685											
LHX4	89884	broad.mit.edu	37	chr1	180241097	180241097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caagcaggagaaggagagctCtgcagaggactgtggggtta	12	6	17	6	0	1	3	0	0	1	3	1	6	1	4	0	5	3	4	0	5	3	1			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr1:180241097C>T	uc001goe.1	+	5	957	c.734C>T	c.(733-735)TCT>TTT	p.S245F	uc001gof.1_RNA	NM_033343	NP_203129	Q969G2	LHX4_HUMAN	LIM homeobox protein 4	245						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						AAGGAGAGCTCTGCAGAGGAC	0.617													22	51					0	0	0.010504	0	0		T	180241097	T	T	180241097	3	4	40	1	0	0	0	0	1	0	0	0	8789	913	32	4	752	4	LHX4	1	180241097	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	1163387	180241097	69009524	7	33686											
RGL1	23179	broad.mit.edu	37	chr1	183891428	183891428	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatctggactcagaccccGccgaggagtacgagctggtg	10	6	13	12	3	2	1	1	0	1	1	2	5	2	3	3	3	2	2	3	3	2	1	rs146832723		TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr1:183891428G>A	uc001gqo.2	+	17	2234	c.2077G>A	c.(2077-2079)GCC>ACC	p.A693T	RGL1_uc001gqm.2_Missense_Mutation_p.A728T|RGL1_uc010pog.1_Missense_Mutation_p.A691T|RGL1_uc010poh.1_Missense_Mutation_p.A691T|RGL1_uc010poi.1_Missense_Mutation_p.A664T	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	693	Ras-associating.				cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						CTCAGACCCCGCCGAGGAGTA	0.552											OREG0014047	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	40					0	0	0.008291	0	0		A	183891428	A	A	183891428	3	1	40	1	0	0	0	0	1	0	0	0	13301	1087	38	1	2248	1	RGL1	1	183891428	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	3650331	183891428	65359193	8	33687											
PROX1	5629	broad.mit.edu	37	chr1	214171517	214171517	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacacccgcccagcaccGccgaagggctctccttgtcg	7	5	10	19	4	1	0	0	0	1	0	3	1	1	0	5	1	2	3	5	1	1	1			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr1:214171517G>A	uc001hkh.2	+	2	1911	c.1639G>A	c.(1639-1641)GCC>ACC	p.A547T	PROX1_uc001hkg.1_Missense_Mutation_p.A547T	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	547					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		GCCCAGCACCGCCGAAGGGCT	0.498													35	102					0	0	0.003755	0	0		A	214171517	A	A	214171517	3	1	40	1	0	0	0	0	1	0	0	0	12582	1087	38	1	1641	1	PROX1	1	214171517	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	30280089	214171517	35079104	9	33688											
USH2A	7399	broad.mit.edu	37	chr1	215802319	215802319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcaggacacatgcactcCggttgctgcggatactcaca	9	8	11	13	3	1	0	1	0	0	0	2	2	2	2	1	3	5	4	1	3	1	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr1:215802319C>T	uc001hku.1	-	71	15743	c.15356G>A	c.(15355-15357)CGG>CAG	p.R5119Q		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	5119	Cytoplasmic (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACATGCACTCCGGTTGCTGCG	0.512										HNSCC(13;0.011)			47	120					0	0	0.01441	0	0		T	215802319	T	T	215802319	3	4	40	1	0	0	0	0	1	0	0	0	17062	652	23	1	260	1	USH2A	1	215802319	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	1630802	215802319	33448302	10	33689											
OBSCN	84033	broad.mit.edu	37	chr1	228404826	228404826	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcccacgtccacgtgcactgGtacaaggatggcatggagct	9	7	13	12	2	0	0	0	0	0	0	1	2	1	2	2	4	3	4	2	4	2	1			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr1:228404826G>C	uc009xez.1	+	8	2534	c.2490G>C	c.(2488-2490)TGG>TGC	p.W830C	OBSCN_uc001hsn.2_Missense_Mutation_p.W830C	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	830	Ig-like 8.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				ACGTGCACTGGTACAAGGATG	0.657													22	73					0	0	0.003954	0	0		C	228404826	C	C	228404826	3	2	40	1	0	0	0	0	1	0	0	0	10831	1270	44	5	2516	5	OBSCN	1	228404826	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	12602507	228404826	20845795	11	33690											
OR2T6	254879	broad.mit.edu	37	chr1	248551682	248551682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctatggggctgccttgtataCgtatacgcttccccaatctt	7	14	8	12	2	1	0	0	0	1	0	2	0	2	0	3	2	3	4	3	2	6	8	rs141134612	by1000genomes	TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr1:248551682C>T	uc001iei.1	+	1	773	c.773C>T	c.(772-774)ACG>ATG	p.T258M		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	258	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GCCTTGTATACGTATACGCTT	0.473													23	77					0	0	0.014323	0	0		T	248551682	T	T	248551682	3	4	40	1	0	0	0	0	1	0	0	0	11048	536	19	1	775	1	OR2T6	1	248551682	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	20146856	248551682	698939	12	33691											
CCDC88A	55704	broad.mit.edu	37	chr2	55523480	55523480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaaccagttttgatcttgtGatgtcgactctccagtgttt	7	16	10	8	1	2	2	0	2	2	0	4	4	2	3	2	1	1	2	2	1	1	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr2:55523480G>A	uc002ryv.2	-	30	5844	c.5002C>T	c.(5002-5004)CAC>TAC	p.H1668Y	CCDC88A_uc010yoz.1_Missense_Mutation_p.H1641Y|CCDC88A_uc010ypa.1_Missense_Mutation_p.H1668Y|CCDC88A_uc002ryt.2_5'UTR|CCDC88A_uc010fbw.2_Missense_Mutation_p.H170Y|CCDC88A_uc002ryu.2_Missense_Mutation_p.H923Y|CCDC88A_uc002rys.2_Missense_Mutation_p.H626Y|CCDC88A_uc002ryw.2_Missense_Mutation_p.H952Y|CCDC88A_uc010fby.1_Missense_Mutation_p.H520Y	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	1669					activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						TTGATCTTGTGATGTCGACTC	0.428													16	58					0	0	0.003163	0	0		A	55523480	A	A	55523480	3	1	40	1	0	0	0	0	1	0	0	0	2866	1290	45	4	622	4	CCDC88A	2	55523480	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08		55523480	187675893	13	33692											
LRP1B	53353	broad.mit.edu	37	chr2	141283858	141283858	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatgttctggttgcatcgTgctgatcttggaatacaagt	8	16	10	7	1	3	1	0	1	3	0	4	2	3	2	0	2	3	4	0	2	4	5			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr2:141283858T>C	uc002tvj.1	-	48	8796	c.7824A>G	c.(7822-7824)GCA>GCG	p.A2608A		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2608	Extracellular (Potential).|LDL-receptor class A 13.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GGTTGCATCGTGCTGATCTTG	0.428										TSP Lung(27;0.18)			18	49					0	0	0.007413	0	0		C	141283858	C	C	141283858	2	2	40	1	0	0	0	0	0	0	0	1	8973	1683	59	3		3	LRP1B	2	141283858	Silent	SNP	T	TCGA-BR-6707-01A-11D-1882-08	85760378	141283858	101915515	14	33693											
CPS1	1373	broad.mit.edu	37	chr2	211512631	211512631	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttggaggccagattccaaaCaacctggcagttcctctata	11	10	9	11	0	1	1	0	0	1	1	3	2	3	2	4	3	2	3	4	3	4	5			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr2:211512631C>A	uc002vee.3	+	26	3318	c.3186C>A	c.(3184-3186)AAC>AAA	p.N1062K	CPS1_uc010fur.2_Missense_Mutation_p.N1068K|CPS1_uc010fus.2_Missense_Mutation_p.N611K	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1062					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		AGATTCCAAACAACCTGGCAG	0.473													19	77					2.37509e-13	4.07516e-13	0.010504	1	0		A	211512631	A	A	211512631	3	1	40	1	0	0	0	0	1	0	0	0	3826	477	17	5	3310	5	CPS1	2	211512631	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	70228773	211512631	31686742	15	33694											
SLC23A3	151295	broad.mit.edu	37	chr2	220032699	220032699	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggtgggggcagacagtTcctgggggataacactgaat	9	9	15	8	0	0	2	0	1	0	1	1	3	1	3	2	5	1	2	2	5	2	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr2:220032699T>A	uc010zks.1	-	7	977	c.866A>T	c.(865-867)GAA>GTA	p.E289V	NHEJ1_uc002vjq.3_RNA|SLC23A3_uc010zkr.1_Missense_Mutation_p.E297V|SLC23A3_uc010fwb.2_Missense_Mutation_p.N257Y|SLC23A3_uc002vjs.1_Silent_p.G141G|SLC23A3_uc002vjt.1_Silent_p.G148G	NM_001144889	NP_001138361	Q6PIS1	S23A3_HUMAN	solute carrier family 23 (nucleobase	289	Cytoplasmic (Potential).				transmembrane transport	integral to membrane	protein binding|transporter activity				0		Renal(207;0.0474)		Epithelial(149;9.27e-07)|all cancers(144;0.000156)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGCAGACAGTTCCTGGGGGAT	0.512													23	71					0	0	0.00278	0	0		A	220032699	A	A	220032699	3	1	40	1	0	0	0	0	1	0	0	0	14489	1797	62	5	990	5	SLC23A3	2	220032699	Missense_Mutation	SNP	T	TCGA-BR-6707-01A-11D-1882-08	8520068	220032699	23166674	16	33695											
KIF1A	547	broad.mit.edu	37	chr2	241710462	241710462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctggacacggaggccgCgcggctggacagggctgaga	8	3	20	10	4	0	1	0	1	0	1	0	6	0	4	1	7	0	3	1	7	0	0			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr2:241710462C>T	uc002vzy.2	-	14	1386	c.1240G>A	c.(1240-1242)GCG>ACG	p.A414T	KIF1A_uc010fzk.2_Missense_Mutation_p.A423T|KIF1A_uc002vzz.1_Missense_Mutation_p.A423T	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	414					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		ACGGAGGCCGCGCGGCTGGAC	0.647													21	64					0	0	0.00278	0	0		T	241710462	T	T	241710462	3	4	40	1	0	0	0	0	1	0	0	0	8299	768	27	1	3968	1	KIF1A	2	241710462	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	21677763	241710462	1488911	17	33696											
CNTN6	27255	broad.mit.edu	37	chr3	1424860	1424860	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtctactctggggaagatGgtaagttgtcctcaactctg	8	14	11	8	0	4	1	1	0	3	1	5	2	5	2	1	3	2	2	1	3	4	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr3:1424860G>A	uc003boz.2	+	18	2668	c.2401G>A	c.(2401-2403)GAA>AAA	p.E801K	CNTN6_uc011asj.1_Missense_Mutation_p.E729K|CNTN6_uc003bpa.2_Missense_Mutation_p.E801K	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	801					axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TGGGGAAGATGGTAAGTTGTC	0.423													19	87					0	0	0.008871	0	0		A	1424860	A	A	1424860	3	1	40	1	0	0	0	0	1	0	0	0	3648	1362	47	4	2467	4	CNTN6	3	1424860	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08		1424860	196597570	18	33697											
ATP2B2	491	broad.mit.edu	37	chr3	10401792	10401792	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacctgccgaggcagggcgcCctccttctctgggggctgca	4	7	14	16	2	1	0	0	0	1	0	3	1	2	0	4	4	2	3	4	4	0	1			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr3:10401792C>A	uc003bvt.2	-	13	2114	c.1675G>T	c.(1675-1677)GGC>TGC	p.G559C	ATP2B2_uc003bvv.2_Missense_Mutation_p.G514C|ATP2B2_uc003bvw.2_Missense_Mutation_p.G514C|ATP2B2_uc010hdo.2_Missense_Mutation_p.G264C	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	559	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						GGCAGGGCGCCCTCCTTCTCT	0.687													15	46					0.00316338	0.00486444	0.003163	1	0		A	10401792	A	A	10401792	3	1	40	1	0	0	0	0	1	0	0	0	1141	623	22	5	2100	5	ATP2B2	3	10401792	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	8976932	10401792	187620638	19	33698											
SLC6A20	54716	broad.mit.edu	37	chr3	45801497	45801497	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctcggccggtcatggccTtaaggtcactttcaaatcta	9	11	9	12	2	4	0	3	0	1	0	5	0	4	0	2	4	1	1	2	4	3	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr3:45801497T>C	uc011bai.1	-	10	1605	c.1481A>G	c.(1480-1482)AAG>AGG	p.K494R	SLC6A20_uc003cow.2_Missense_Mutation_p.K144R|SLC6A20_uc011baj.1_Missense_Mutation_p.K457R	NM_020208	NP_064593	Q9NP91	S6A20_HUMAN	solute carrier family 6, member 20 isoform 1	494	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|glycine transport|proline transport	apical plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;0.01)|KIRC - Kidney renal clear cell carcinoma(197;0.0225)|Kidney(197;0.0267)		GGTCATGGCCTTAAGGTCACT	0.532													3	142					0	0	0.009096	0	0		C	45801497	C	C	45801497	3	2	40	1	0	0	0	0	1	0	0	0	14709	1609	56	3	305	3	SLC6A20	3	45801497	Missense_Mutation	SNP	T	TCGA-BR-6707-01A-11D-1882-08	35399705	45801497	152220933	20	33699											
SETD2	29072	broad.mit.edu	37	chr3	47164272	47164272	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaatcatttaatcgattTgatggagctggagacccagc	11	11	12	7	1	1	3	1	2	0	1	2	6	1	4	1	3	2	1	1	3	2	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr3:47164272T>C	uc003cqs.2	-	3	1907	c.1854A>G	c.(1852-1854)TCA>TCG	p.S618S	SETD2_uc003cqv.2_Silent_p.S607S	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	618					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		TTAATCGATTTGATGGAGCTG	0.318			N|F|S|Mis		clear cell renal carcinoma								7	39					0	0	0.001984	0	0		C	47164272	C	C	47164272	2	2	40	1	0	0	0	0	0	0	0	1	14156	1799	63	3		3	SETD2	3	47164272	Silent	SNP	T	TCGA-BR-6707-01A-11D-1882-08	1362775	47164272	150858158	21	33700											
ZBED2	79413	broad.mit.edu	37	chr3	111312998	111312998	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttcatctctaagtccccTtttgccttcatcattgttcc	5	18	3	15	0	4	0	3	0	1	0	8	0	7	0	5	0	1	1	5	0	1	7			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr3:111312998T>C	uc003dxy.2	-	2	936	c.51A>G	c.(49-51)AAA>AAG	p.K17K	CD96_uc003dxv.2_Intron|CD96_uc003dxw.2_Intron|CD96_uc003dxx.2_Intron|CD96_uc010hpy.1_Intron	NM_024508	NP_078784	Q9BTP6	ZBED2_HUMAN	zinc finger, BED domain containing 2	17							DNA binding|metal ion binding			skin(1)	1						CTAAGTCCCCTTTTGCCTTCA	0.488													3	120					0	0	0.004672	0	0		C	111312998	C	C	111312998	2	2	40	1	0	0	0	0	0	0	0	1	17544	1606	56	3		3	ZBED2	3	111312998	Silent	SNP	T	TCGA-BR-6707-01A-11D-1882-08	64148726	111312998	86709432	22	33701											
EPHB1	2047	broad.mit.edu	37	chr3	134851683	134851683	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacatcatctgcaaaaagtgCcgggcagaccgccggagctg	12	5	12	12	3	2	1	1	0	1	1	2	2	2	2	3	2	4	3	3	2	3	0			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr3:134851683C>T	uc003eqt.2	+	5	1309	c.1089C>T	c.(1087-1089)TGC>TGT	p.C363C	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_3'UTR|EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	363	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GCAAAAAGTGCCGGGCAGACC	0.597													12	37					0	0	0.001855	0	0		T	134851683	T	T	134851683	2	4	40	1	0	0	0	0	0	0	0	1	5182	747	26	2		2	EPHB1	3	134851683	Silent	SNP	C	TCGA-BR-6707-01A-11D-1882-08	23538685	134851683	63170747	23	33702											
SLITRK3	22865	broad.mit.edu	37	chr3	164905876	164905876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcatgccaggagggtgcaCgtgcagttcctttaatttgg	7	13	13	8	1	0	0	0	0	0	0	1	1	1	1	2	3	4	4	2	3	1	5			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr3:164905876C>T	uc003fej.3	-	2	3187	c.2743G>A	c.(2743-2745)GTG>ATG	p.V915M	SLITRK3_uc003fek.2_Missense_Mutation_p.V915M	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	915	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GGAGGGTGCACGTGCAGTTCC	0.532										HNSCC(40;0.11)			9	115					0	0	0.004482	0	0		T	164905876	T	T	164905876	3	4	40	1	0	0	0	0	1	0	0	0	14769	536	19	1	194	1	SLITRK3	3	164905876	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	30054193	164905876	33116554	24	33703											
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003		TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			41	50					0	0	0.013114	0	0		A	178936091	A	A	178936091	3	1	40	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1667	4	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	14030215	178936091	19086339	25	33704											
GRSF1	2926	broad.mit.edu	37	chr4	71698070	71698070	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattgcaactataaggaagTcctctcaaacgaaccacacc	15	8	5	13	1	2	0	2	0	1	0	4	2	3	1	3	1	4	1	3	1	6	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr4:71698070T>A	uc010iia.1	-	4	851	c.768A>T	c.(766-768)GGA>GGT	p.G256G	GRSF1_uc011caz.1_Silent_p.G138G|GRSF1_uc003hfs.2_Silent_p.G94G	NM_002092	NP_002083	Q12849	GRSF1_HUMAN	G-rich RNA sequence binding factor 1 isoform 1	256	RRM 2.				mRNA polyadenylation		mRNA binding|nucleotide binding				0		all_hematologic(202;0.21)	Lung(101;0.235)			TATAAGGAAGTCCTCTCAAAC	0.393													27	72					0	0	0.00632	0	0		A	71698070	A	A	71698070	2	1	40	1	0	0	0	0	0	0	0	1	6825	1654	58	5		5	GRSF1	4	71698070	Silent	SNP	T	TCGA-BR-6707-01A-11D-1882-08		71698070	119456206	26	33705											
FRAS1	80144	broad.mit.edu	37	chr4	79229315	79229315	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgagagatggcggctgtGagagcagctgtggaaaaggc	10	7	18	6	1	0	3	0	2	0	2	0	6	0	4	0	4	3	4	0	4	2	0			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr4:79229315G>T	uc003hlb.2	+	15	2070	c.1630G>T	c.(1630-1632)GAG>TAG	p.E544*	FRAS1_uc003hkw.2_Nonsense_Mutation_p.E544*|FRAS1_uc003hky.1_Nonsense_Mutation_p.E248*|FRAS1_uc003hkz.2_Nonsense_Mutation_p.E248*|FRAS1_uc003hla.1_Nonsense_Mutation_p.E55*	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	544	FU 3.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TGGCGGCTGTGAGAGCAGCTG	0.577													5	41					0.000602214	0.000953019	0.000602	1	0		T	79229315	T	T	79229315	4	4	40	1	0	0	0	0	0	1	0	0	6056	1291	45	5	1688	5	FRAS1	4	79229315	Nonsense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	7531245	79229315	111924961	27	33706											
DKK2	27123	broad.mit.edu	37	chr4	107847019	107847019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcgcttcttttttctccGacacaccatgcaggccgatg	7	11	9	14	3	2	0	0	0	2	0	3	2	2	0	3	1	2	3	3	1	0	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr4:107847019G>A	uc003hyi.2	-	2	1015	c.310C>T	c.(310-312)CGG>TGG	p.R104W	DKK2_uc010ilw.1_RNA|DKK2_uc003hyj.1_Missense_Mutation_p.R104W	NM_014421	NP_055236	Q9UBU2	DKK2_HUMAN	dickkopf homolog 2 precursor	104	DKK-type Cys-1.				multicellular organismal development|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular space				ovary(3)|lung(1)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.34e-06)		TTTTTTCTCCGACACACCATG	0.512													44	113					0	0	0.009718	0	0		A	107847019	A	A	107847019	3	1	40	1	0	0	0	0	1	0	0	0	4551	1057	37	1	481	1	DKK2	4	107847019	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	28617704	107847019	83307257	28	33707											
INTU	27152	broad.mit.edu	37	chr4	128628065	128628065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atactacaccggatgcagtaCggaagcaaagagaatctcag	16	6	10	9	2	1	1	1	0	1	1	2	4	1	3	1	2	5	3	1	2	6	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr4:128628065C>T	uc003ifk.1	+	12	2282	c.2212C>T	c.(2212-2214)CGG>TGG	p.R738W	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	738										ovary(1)	1						GGATGCAGTACGGAAGCAAAG	0.473													60	185					0	0	0.01441	0	0		T	128628065	T	T	128628065	3	4	40	1	0	0	0	0	1	0	0	0	7802	527	19	1	2258	1	INTU	4	128628065	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	20781046	128628065	62526211	29	33708											
PRDM9	56979	broad.mit.edu	37	chr5	23521145	23521145	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaaagggaatgcccaaggCgtcattcagtaatgaatcta	15	10	9	7	1	3	1	2	1	1	0	3	2	3	2	1	2	1	1	1	2	7	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr5:23521145C>A	uc003jgo.2	+	6	547	c.365C>A	c.(364-366)GCG>GAG	p.A122E		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	122					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						ATGCCCAAGGCGTCATTCAGT	0.393										HNSCC(3;0.000094)			13	37					0.00136819	0.00214438	0.013537	1	0		A	23521145	A	A	23521145	3	1	40	1	0	0	0	0	1	0	0	0	12485	768	27	5	383	5	PRDM9	5	23521145	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08		23521145	157394115	30	33709											
MAP1B	4131	broad.mit.edu	37	chr5	71495207	71495207	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaccccagctactcttatGaaaccactgagaaaattacc	14	8	7	12	0	1	2	0	2	1	1	1	4	1	3	4	1	4	1	4	1	6	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr5:71495207G>T	uc003kbw.3	+	5	6266	c.6025G>T	c.(6025-6027)GAA>TAA	p.E2009*	MAP1B_uc010iyw.1_Nonsense_Mutation_p.E2026*|MAP1B_uc010iyx.1_Nonsense_Mutation_p.E1883*|MAP1B_uc010iyy.1_Nonsense_Mutation_p.E1883*	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	2009	MAP1B 7.					microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		CTACTCTTATGAAACCACTGA	0.453													60	207					1.72039e-30	3.01531e-30	0.01441	1	0		T	71495207	T	T	71495207	4	4	40	1	0	0	0	0	0	1	0	0	9246	1291	45	5	6043	5	MAP1B	5	71495207	Nonsense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	47974062	71495207	109420053	31	33710											
GPR98	84059	broad.mit.edu	37	chr5	89943437	89943437	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggaaggctactgcaagaGagagagatttcattcctgtt	12	11	12	6	0	1	3	1	0	0	3	2	6	2	4	1	2	2	3	1	2	3	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr5:89943437G>T	uc003kju.2	+	17	3241	c.3145G>T	c.(3145-3147)GAG>TAG	p.E1049*	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1049	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TACTGCAAGAGAGAGAGATTT	0.428													7	144					0.000157383	0.000251505	0.00308	1	0		T	89943437	T	T	89943437	4	4	40	1	0	0	0	0	0	1	0	0	6737	943	33	5	3211	5	GPR98	5	89943437	Nonsense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	18448230	89943437	90971823	32	33711											
PCDHA12	56137	broad.mit.edu	37	chr5	140256419	140256419	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaacgacaatgcgcctgcGttcgcgcagcccgagtacac	9	6	12	14	6	0	1	0	1	0	0	1	3	0	1	2	0	5	3	2	0	3	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr5:140256419G>A	uc003lic.2	+	1	1489	c.1362G>A	c.(1360-1362)GCG>GCA	p.A454A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.A454A	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	454	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGCGCCTGCGTTCGCGCAGC	0.652													34	142					0	0	0.012213	0	0		A	140256419	A	A	140256419	2	1	40	1	0	0	0	0	0	0	0	1	11541	1132	40	1		1	PCDHA12	5	140256419	Silent	SNP	G	TCGA-BR-6707-01A-11D-1882-08	50312982	140256419	40658841	33	33712											
PCDHB7	56129	broad.mit.edu	37	chr5	140553577	140553577	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgtgctccatccaggaCgatgtccccttcatcctgaa	9	10	8	14	1	1	1	1	1	0	0	5	3	5	2	5	1	1	1	5	1	1	1			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr5:140553577C>T	uc003lit.2	+	1	1335	c.1161C>T	c.(1159-1161)GAC>GAT	p.D387D		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	387	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCATCCAGGACGATGTCCCCT	0.473													16	56					0	0	0.00499	0	0		T	140553577	T	T	140553577	2	4	40	1	0	0	0	0	0	0	0	1	11566	535	19	1		1	PCDHB7	5	140553577	Silent	SNP	C	TCGA-BR-6707-01A-11D-1882-08	297158	140553577	40361683	34	33713											
LARP1	23367	broad.mit.edu	37	chr5	154172296	154172296	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaaaaaccaaatcagatGaatcaggggaggaaaagaat	20	5	10	6	0	2	3	2	1	0	2	3	5	3	5	2	3	1	0	2	3	7	0			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr5:154172296G>T	uc003lvp.2	+	4	1108	c.679G>T	c.(679-681)GAA>TAA	p.E227*	LARP1_uc003lvo.2_Nonsense_Mutation_p.E150*|LARP1_uc010jie.1_Nonsense_Mutation_p.E22*	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	227							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CAAATCAGATGAATCAGGGGA	0.522													13	120					3.27435e-08	5.50226e-08	0.00245	1	0		T	154172296	T	T	154172296	4	4	40	1	0	0	0	0	0	1	0	0	8644	1291	45	5	462	5	LARP1	5	154172296	Nonsense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	13618719	154172296	26742964	35	33714											
FGFR4	2264	broad.mit.edu	37	chr5	176517537	176517537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcacctgctggccgtgtaCggggctggaggggccgccta	4	7	18	12	3	0	0	0	0	0	0	0	1	0	1	4	7	2	4	4	7	2	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr5:176517537C>T	uc003mfl.2	+	3	405	c.238C>T	c.(238-240)CGG>TGG	p.R80W	FGFR4_uc003mfm.2_Missense_Mutation_p.R80W|FGFR4_uc011dfu.1_Missense_Mutation_p.R80W|FGFR4_uc011dfv.1_RNA|FGFR4_uc003mfn.1_Missense_Mutation_p.R80W|FGFR4_uc011dfw.1_Missense_Mutation_p.R80W|FGFR4_uc003mfo.2_Missense_Mutation_p.R80W	NM_002011	NP_002002	P22455	FGFR4_HUMAN	fibroblast growth factor receptor 4 isoform 1	80	Ig-like C2-type 1.|Extracellular (Potential).				insulin receptor signaling pathway|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity	p.R80W(2)		lung(11)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|prostate(1)	16	all_cancers(89;5.93e-05)|Renal(175;0.000269)|Lung NSC(126;0.0088)|all_lung(126;0.0142)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Palifermin(DB00039)	TGGCCGTGTACGGGGCTGGAG	0.652										TSP Lung(9;0.080)			15	81					0	0	0.00499	0	0		T	176517537	T	T	176517537	3	4	40	1	0	0	0	0	1	0	0	0	5882	527	19	1	244	1	FGFR4	5	176517537	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	22345241	176517537	4397723	36	33715											
HSPA1L	3305	broad.mit.edu	37	chr6	31779555	31779555	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcatcaaaaacagtgttctgGggattcattgctacctggtt	10	13	10	8	0	3	0	2	0	1	0	3	1	3	1	1	3	3	4	1	3	3	5			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr6:31779555G>A	uc003nxh.2	-	2	378	c.195C>T	c.(193-195)CCC>CCT	p.P65P	HSPA1L_uc010jte.2_Silent_p.P65P	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	65					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						CAGTGTTCTGGGGATTCATTG	0.498													25	126					0	0	0.00278	0	0		A	31779555	A	A	31779555	2	1	40	1	0	0	0	0	0	0	0	1	7426	1219	43	4		4	HSPA1L	6	31779555	Silent	SNP	G	TCGA-BR-6707-01A-11D-1882-08		31779555	139335512	37	33716											
KCNK16	83795	broad.mit.edu	37	chr6	39285601	39285601	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcccatctttcaatggcGgccagatgggcacgcagccc	7	8	10	16	2	2	1	1	0	1	1	4	1	4	1	4	3	1	2	4	3	1	1	rs79043904		TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr6:39285601G>A	uc003ooq.2	-	3	470	c.456C>T	c.(454-456)GCC>GCT	p.A152A	KCNK16_uc003oor.3_Silent_p.A152A|KCNK16_uc010jwy.2_Silent_p.A152A|KCNK16_uc011dtz.1_Silent_p.A152A	NM_032115	NP_115491	Q96T55	KCNKG_HUMAN	potassium channel, subfamily K, member 16	152	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(1)	3						TTTCAATGGCGGCCAGATGGG	0.552													5	28					0	0	0.000602	0	0		A	39285601	A	A	39285601	2	1	40	1	0	0	0	0	0	0	0	1	8079	1103	39	1		1	KCNK16	6	39285601	Silent	SNP	G	TCGA-BR-6707-01A-11D-1882-08	7506046	39285601	131829466	38	33717											
RNF217	154214	broad.mit.edu	37	chr6	125366470	125366470	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactccatcaagtataagtaCttcttggaacttggccgtat	11	13	8	9	1	2	0	1	0	1	0	3	2	3	1	2	2	2	3	2	2	6	7			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr6:125366470C>G	uc003pzs.2	+	4	458	c.120C>G	c.(118-120)TAC>TAG	p.Y40*	RNF217_uc003pzr.2_Nonsense_Mutation_p.Y97*|RNF217_uc003pzt.2_RNA	NM_152553	NP_689766	Q8TC41	RN217_HUMAN	ring finger protein 217	40	IBR-type.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)		AGTATAAGTACTTCTTGGAAC	0.408													3	50					0	0	0.009096	0	0		G	125366470	G	G	125366470	4	3	40	1	0	0	0	0	0	1	0	0	13506	576	20	5	126	5	RNF217	6	125366470	Nonsense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	86080869	125366470	45748597	39	33718											
SLC22A1	6580	broad.mit.edu	37	chr6	160557340	160557340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accacatcgctcaaaagaatGggaagttgcctcctgctgat	12	9	9	11	1	1	2	1	1	0	1	3	3	2	3	3	1	2	3	3	1	4	1			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr6:160557340G>A	uc003qtc.2	+	5	1033	c.928G>A	c.(928-930)GGG>AGG	p.G310R	SLC22A1_uc003qtd.2_Missense_Mutation_p.G310R	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	310	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		TCAAAAGAATGGGAAGTTGCC	0.493													20	77					0	0	0.012319	0	0		A	160557340	A	A	160557340	3	1	40	1	0	0	0	0	1	0	0	0	14465	1348	47	4	946	4	SLC22A1	6	160557340	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	35190870	160557340	10557727	40	33719											
CARD11	84433	broad.mit.edu	37	chr7	2954991	2954991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catccgcttatacttgttctCggacctgctgacgaactgga	8	12	9	12	3	1	1	0	1	1	0	3	4	2	3	2	2	3	3	2	2	3	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr7:2954991C>T	uc003smv.2	-	21	3123	c.2719G>A	c.(2719-2721)GAG>AAG	p.E907K		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	907					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		TACTTGTTCTCGGACCTGCTG	0.607			Mis		DLBCL								17	46					0	0	0.006122	0	0		T	2954991	T	T	2954991	3	4	40	1	0	0	0	0	1	0	0	0	2648	893	31	1	765	1	CARD11	7	2954991	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08		2954991	156183672	41	33720											
DAGLB	221955	broad.mit.edu	37	chr7	6449475	6449475	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtggccctggtcaggccAcgtccacactggagacccct	7	6	11	17	1	1	1	1	0	0	1	2	2	2	1	6	4	0	0	6	4	0	0			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr7:6449475A>G	uc003sqa.2	-	15	2182	c.2012T>C	c.(2011-2013)GTG>GCG	p.V671A	DAGLB_uc003spy.2_Missense_Mutation_p.V217A|DAGLB_uc003spz.2_Missense_Mutation_p.V368A|DAGLB_uc011jwt.1_Missense_Mutation_p.V485A|DAGLB_uc011jwu.1_Missense_Mutation_p.V542A|DAGLB_uc003sqb.2_Missense_Mutation_p.V390A|DAGLB_uc003sqc.2_Missense_Mutation_p.V390A|DAGLB_uc011jwv.1_RNA|DAGLB_uc003sqd.3_Missense_Mutation_p.V630A	NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1	671	Cytoplasmic (Potential).				lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		TGGTCAGGCCACGTCCACACT	0.587													11	29					0	0	0.008291	0	0		G	6449475	G	G	6449475	3	3	40	1	0	0	0	0	1	0	0	0	4230	159	6	3	10	3	DAGLB	7	6449475	Missense_Mutation	SNP	A	TCGA-BR-6707-01A-11D-1882-08	3494484	6449475	152689188	42	33721											
SEPT14	346288	broad.mit.edu	37	chr7	55914311	55914311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccaatcgtagttaaacaaCgaatattattttctttttgc	12	17	5	7	2	1	0	0	0	1	0	3	1	2	0	1	0	3	2	1	0	8	8			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr7:55914311C>T	uc003tqz.2	-	3	191	c.74G>A	c.(73-75)CGT>CAT	p.R25H		NM_207366	NP_997249	Q6ZU15	SEP14_HUMAN	septin 14	25					cell cycle|cell division	septin complex	GTP binding|protein binding				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			AGTTAAACAACGAATATTATT	0.289													24	65					0	0	0.014323	0	0		T	55914311	T	T	55914311	3	4	40	1	0	0	0	0	1	0	0	0	14088	536	19	1	1256	1	SEPT14	7	55914311	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	49464836	55914311	103224352	43	33722											
LAMB4	22798	broad.mit.edu	37	chr7	107677848	107677848	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttactcagctgctttggccTtcaccaaaagcttttgggct	7	14	8	12	0	2	0	2	0	0	0	2	0	2	0	2	2	4	4	2	2	3	5			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr7:107677848T>C	uc010ljo.1	-	30	4748	c.4664A>G	c.(4663-4665)AAG>AGG	p.K1555R	LAMB4_uc003vey.2_Missense_Mutation_p.K1555R|LAMB4_uc010ljp.1_Missense_Mutation_p.K524R	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	1555	Potential.|Domain I.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						TGCTTTGGCCTTCACCAAAAG	0.393													52	163					0	0	0.01441	0	0		C	107677848	C	C	107677848	3	2	40	1	0	0	0	0	1	0	0	0	8629	1609	56	3	641	3	LAMB4	7	107677848	Missense_Mutation	SNP	T	TCGA-BR-6707-01A-11D-1882-08	51763537	107677848	51460815	44	33723											
FLNC	2318	broad.mit.edu	37	chr7	128494220	128494220	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtgtttggggacttccTgggccgggagcgcctgggat	3	11	18	9	2	0	0	0	0	0	0	1	3	1	3	3	5	2	2	3	5	0	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr7:128494220T>C	uc003vnz.3	+	40	6886	c.6677T>C	c.(6676-6678)CTG>CCG	p.L2226P	FLNC_uc003voa.3_Missense_Mutation_p.L2193P	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2226	Intradomain insert.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GGGGACTTCCTGGGCCGGGAG	0.711													9	24					0	0	0.006214	0	0		C	128494220	C	C	128494220	3	2	40	1	0	0	0	0	1	0	0	0	5949	1580	55	3	6835	3	FLNC	7	128494220	Missense_Mutation	SNP	T	TCGA-BR-6707-01A-11D-1882-08	20816372	128494220	30644443	45	33724											
NAT2	10	broad.mit.edu	37	chr8	18258091	18258091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaaaaatatacttatttaCgcttgaacctcgaacaattg	16	12	4	9	2	0	1	0	1	0	0	1	2	0	1	2	0	4	1	2	0	10	7	rs79050330	byFrequency	TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr8:18258091C>T	uc003wyw.1	+	2	685	c.578C>T	c.(577-579)ACG>ATG	p.T193M		NM_000015	NP_000006	P11245	ARY2_HUMAN	N-acetyltransferase 2	193			T -> M.		xenobiotic metabolic process	cytosol	arylamine N-acetyltransferase activity			ovary(1)|skin(1)	2				Colorectal(111;0.0531)|COAD - Colon adenocarcinoma(73;0.21)		TACTTATTTACGCTTGAACCT	0.353									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				60	115					0	0	0.01441	0	0		T	18258091	T	T	18258091	3	4	40	1	0	0	0	0	1	0	0	0	10195	536	19	1	580	1	NAT2	8	18258091	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08		18258091	128105931	46	33725											
ENTPD4	9583	broad.mit.edu	37	chr8	23291882	23291882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggctccaagggtccactgaaCctccttgtcgtaaacttgca	9	10	9	13	1	0	1	0	1	0	0	4	1	3	1	4	2	3	3	4	2	4	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr8:23291882C>T	uc003xdl.2	-	12	1734	c.1570G>A	c.(1570-1572)GTT>ATT	p.V524I	ENTPD4_uc011kzu.1_Missense_Mutation_p.V516I|ENTPD4_uc003xdm.2_Missense_Mutation_p.V516I|ENTPD4_uc011kzv.1_Missense_Mutation_p.V524I	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	524	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		GTCCACTGAACCTCCTTGTCG	0.453													18	124					0	0	0.007413	0	0		T	23291882	T	T	23291882	3	4	40	1	0	0	0	0	1	0	0	0	5149	507	18	4	288	4	ENTPD4	8	23291882	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	5033791	23291882	123072140	47	33726											
TRIM35	23087	broad.mit.edu	37	chr8	27156046	27156046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggccttggccttctcccGcagtgcatgctccatgttcc	5	11	10	15	1	1	0	0	0	1	0	4	1	3	0	5	2	2	4	5	2	1	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr8:27156046G>A	uc003xfl.1	-	2	548	c.466C>T	c.(466-468)CGG>TGG	p.R156W	TRIM35_uc010lup.1_Intron|TRIM35_uc003xfm.1_RNA	NM_171982	NP_741983	Q9UPQ4	TRI35_HUMAN	tripartite motif-containing 35 isoform 2	156					apoptosis|induction of apoptosis|negative regulation of mitotic cell cycle	cytoplasm|nucleus	zinc ion binding				0		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|Epithelial(17;9.34e-10)|Colorectal(74;0.141)		GCCTTCTCCCGCAGTGCATGC	0.602													65	125					0	0	0.01441	0	0		A	27156046	A	A	27156046	3	1	40	1	0	0	0	0	1	0	0	0	16535	1086	38	1	1035	1	TRIM35	8	27156046	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	3864164	27156046	119207976	48	33727											
SNTG1	54212	broad.mit.edu	37	chr8	51664620	51664620	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcagatgatggcaagagCaaaatcaaatttttgtttca	14	14	7	6	0	4	3	3	1	1	2	4	3	4	3	0	1	1	3	0	1	4	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr8:51664620C>A	uc010lxy.1	+	19	1715	c.1344C>A	c.(1342-1344)AGC>AGA	p.S448R	SNTG1_uc003xqs.1_Missense_Mutation_p.S448R|SNTG1_uc010lxz.1_Intron|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	448					cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				ATGGCAAGAGCAAAATCAAAT	0.358													46	155					1.22102e-19	2.11729e-19	0.01441	1	0		A	51664620	A	A	51664620	3	1	40	1	0	0	0	0	1	0	0	0	14899	709	25	5	1406	5	SNTG1	8	51664620	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	24508574	51664620	94699402	49	33728											
RIMS2	9699	broad.mit.edu	37	chr8	105105703	105105703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatctgtgttaacagtatcGatcaggatgggatcctcata	12	12	9	8	1	3	0	2	0	1	0	5	3	4	2	1	2	1	2	1	2	4	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr8:105105703G>A	uc003yls.2	+	21	2967	c.2726G>A	c.(2725-2727)CGA>CAA	p.R909Q	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Missense_Mutation_p.R982Q|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	365					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TAACAGTATCGATCAGGATGG	0.383										HNSCC(12;0.0054)			44	239					0	0	0.01441	0	0		A	105105703	A	A	105105703	3	1	40	1	0	0	0	0	1	0	0	0	13393	1073	37	1		1	RIMS2	8	105105703	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	53441083	105105703	41258319	50	33729											
MUSK	4593	broad.mit.edu	37	chr9	113563100	113563100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgaggaggtcatttactaCgtgcgagatggcaacatcct	11	10	11	9	2	1	2	1	1	0	1	2	4	2	3	1	3	4	1	1	3	3	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr9:113563100C>T	uc004bey.2	+	14	2540	c.2442C>T	c.(2440-2442)TAC>TAT	p.Y814Y	MUSK_uc004bez.1_Silent_p.Y394Y	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	814	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						TCATTTACTACGTGCGAGATG	0.562													14	52					0	0	0.00245	0	0		T	113563100	T	T	113563100	2	4	40	1	0	0	0	0	0	0	0	1	10007	547	19	1		1	MUSK	9	113563100	Silent	SNP	C	TCGA-BR-6707-01A-11D-1882-08		113563100	27650331	51	33730											
GOLGA2	2801	broad.mit.edu	37	chr9	131024860	131024860	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgttgaagcaggagttcCgtcatctctaacttcttttg	7	15	9	10	1	3	1	1	1	2	0	5	2	4	2	2	1	2	3	2	1	2	6			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr9:131024860C>T	uc011maw.1	-	13	1048	c.1035G>A	c.(1033-1035)ACG>ACA	p.T345T	GOLGA2_uc010mxw.2_Intron|GOLGA2_uc004buh.2_5'Flank|GOLGA2_uc004bul.1_Silent_p.T246T|uc004bun.2_5'Flank	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	345	Potential.					Golgi cisterna membrane	protein binding			ovary(1)	1						GCAGGAGTTCCGTCATCTCTA	0.532													6	131					0	0	0.001984	0	0		T	131024860	T	T	131024860	2	4	40	1	0	0	0	0	0	0	0	1	6567	639	23	1		1	GOLGA2	9	131024860	Silent	SNP	C	TCGA-BR-6707-01A-11D-1882-08	17461760	131024860	10188571	52	33731											
NET1	10276	broad.mit.edu	37	chr10	5498109	5498109	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcggcccgtcacacggaaCgaacggcactcttaccaggt	10	6	10	15	5	2	0	1	0	1	0	3	2	2	1	2	4	3	1	2	4	3	1			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr10:5498109C>T	uc001iia.2	+	11	1395	c.1257C>T	c.(1255-1257)AAC>AAT	p.N419N	NET1_uc010qar.1_Silent_p.N238N|NET1_uc001iib.2_Silent_p.N365N|NET1_uc010qas.1_Silent_p.N238N	NM_001047160	NP_001040625	Q7Z628	ARHG8_HUMAN	neuroepithelial cell transforming gene 1 isoform	419	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1						TCACACGGAACGAACGGCACT	0.483													19	77					0	0	0.008871	0	0		T	5498109	T	T	5498109	2	4	40	1	0	0	0	0	0	0	0	1	10357	535	19	1		1	NET1	10	5498109	Silent	SNP	C	TCGA-BR-6707-01A-11D-1882-08		5498109	130036638	53	33732											
PTEN	5728	broad.mit.edu	37	chr10	89692905	89692905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtaaagctggaaagggacGaactggtgtaatgatatgtg	13	10	14	4	1	0	1	0	1	0	0	0	4	0	3	0	3	2	3	0	3	6	3	rs121913292		TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr10:89692905G>A	uc001kfb.2	+	6	1420	c.389G>A	c.(388-390)CGA>CAA	p.R130Q		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	130	Phosphatase tensin-type.		R -> L (in CD and endometrial hyperplasia; loss of phosphatase activity towards Ins(1,3,4,5)P4; retains ability to bind phospholipid membranes).|R -> Q (in CD; loss of phosphatase activity towards Ins(1,3,4,5)P4; retains ability to bind phospholipid membranes).|R -> G (loss of phosphatase activity towards Ins(1,3,4,5)P4 and PtdIns(3,4,5)P3).	R->M: Does not affect the ability to inhibit AKT/PKB activation.	activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.R130G(65)|p.R130*(61)|p.R130Q(43)|p.R130fs*4(12)|p.R130L(7)|p.R55fs*1(4)|p.R130P(4)|p.K128_R130del(3)|p.Y27_N212>Y(2)|p.?(2)|p.Y27fs*1(2)|p.R130R(1)|p.K128fs*47(1)|p.A121_F145del(1)|p.R130fs*2(1)|p.T131fs*50(1)|p.F56fs*2(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		GGAAAGGGACGAACTGGTGTA	0.403	R130Q(MDAPCA2B_PROSTATE)|R130Q(MFE296_ENDOMETRIUM)|R130fs*4(AN3CA_ENDOMETRIUM)|R130Q(JHUEM1_ENDOMETRIUM)	31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			28	76					0	0	0.008361	0	0		A	89692905	A	A	89692905	3	1	40	1	0	0	0	0	1	0	0	0	12760	1058	37	1	407	1	PTEN	10	89692905	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	84194796	89692905	45841842	54	33733											
PDCD11	22984	broad.mit.edu	37	chr10	105202030	105202030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagagaaggaactgtccCgcattgaggaggcgctgatg	11	6	16	8	2	0	3	0	2	0	1	1	6	1	5	1	4	1	3	1	4	2	1			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr10:105202030C>T	uc001kwy.1	+	32	4855	c.4768C>T	c.(4768-4770)CGC>TGC	p.R1590C		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1590					mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		GGAACTGTCCCGCATTGAGGA	0.537													68	84					0	0	0.01441	0	0		T	105202030	T	T	105202030	3	4	40	1	0	0	0	0	1	0	0	0	11636	652	23	1	4890	1	PDCD11	10	105202030	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	15509125	105202030	30332717	55	33734											
DENND5A	23258	broad.mit.edu	37	chr11	9167339	9167339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccagcttcttgcttggtaCgatcagaatgtggtacggga	8	11	12	10	2	2	1	1	0	1	1	2	3	2	2	2	3	4	4	2	3	3	5			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr11:9167339C>T	uc001mhl.2	-	17	3136	c.2881G>A	c.(2881-2883)GTA>ATA	p.V961I	DENND5A_uc001mhk.2_Missense_Mutation_p.V304I|DENND5A_uc010rbw.1_Missense_Mutation_p.V961I|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	961	PLAT.									liver(1)	1						TTGCTTGGTACGATCAGAATG	0.488													67	295					0	0	0.01441	0	0		T	9167339	T	T	9167339	3	4	40	1	0	0	0	0	1	0	0	0	4442	536	19	1	1010	1	DENND5A	11	9167339	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08		9167339	125839177	56	33735											
ANO3	63982	broad.mit.edu	37	chr11	26619976	26619976	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctatacttgggaccttatCgaatgggaagaagaggaggt	13	9	13	6	1	0	2	0	0	0	2	1	6	0	5	2	4	1	0	2	4	6	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr11:26619976C>T	uc001mqt.3	+	15	1657	c.1512C>T	c.(1510-1512)ATC>ATT	p.I504I	ANO3_uc010rdr.1_Silent_p.I488I|ANO3_uc010rds.1_Silent_p.I343I|ANO3_uc010rdt.1_Silent_p.I358I	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	504	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GGGACCTTATCGAATGGGAAG	0.393													29	64					0	0	0.003271	0	0		T	26619976	T	T	26619976	2	4	40	1	0	0	0	0	0	0	0	1	698	874	31	1		1	ANO3	11	26619976	Silent	SNP	C	TCGA-BR-6707-01A-11D-1882-08	17452637	26619976	108386540	57	33736											
ADAMTS8	11095	broad.mit.edu	37	chr11	130284575	130284575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtggcaccaaagctgggCgcagacgtcctgagcagagg	10	5	16	10	2	0	3	0	1	0	2	1	3	1	3	2	3	2	4	2	3	1	0			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr11:130284575C>T	uc001qgg.3	-	5	1775	c.1417G>A	c.(1417-1419)GCC>ACC	p.A473T	ADAMTS8_uc001qgf.2_5'Flank	NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	473	Disintegrin.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		CAAAGCTGGGCGCAGACGTCC	0.677													5	103					0	0	0.000602	0	0		T	130284575	T	T	130284575	3	4	40	1	0	0	0	0	1	0	0	0	272	768	27	1	1272	1	ADAMTS8	11	130284575	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	103664599	130284575	4721941	58	33737											
TAS2R7	50837	broad.mit.edu	37	chr12	10954759	10954759	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataaacacagagagaaccacGcaccccagtagaatccagga	18	3	8	12	1	0	3	0	0	0	3	1	5	1	4	4	1	2	2	4	1	5	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr12:10954759G>A	uc001qyv.2	-	1	468	c.411C>T	c.(409-411)TGC>TGT	p.C137C		NM_023919	NP_076408	Q9NYW3	TA2R7_HUMAN	taste receptor, type 2, member 7	137	Helical; Name=4; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			skin(1)	1						AGAGAACCACGCACCCCAGTA	0.413													7	17					0	0	0.001984	0	0		A	10954759	A	A	10954759	2	1	40	1	0	0	0	0	0	0	0	1	15611	1079	38	1		1	TAS2R7	12	10954759	Silent	SNP	G	TCGA-BR-6707-01A-11D-1882-08		10954759	122897136	59	33738											
SLCO1B3	28234	broad.mit.edu	37	chr12	21068976	21068976	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctatagctttaagattccCagcacttgttttatatattg	11	18	5	7	0	1	1	0	0	1	1	2	1	2	1	1	0	2	3	1	0	6	11			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr12:21068976C>A	uc001rek.2	+	15	2030	c.1904C>A	c.(1903-1905)CCA>CAA	p.P635Q	SLCO1B3_uc001rel.2_Missense_Mutation_p.P635Q|SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Intron	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	635	Helical; Name=12; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TTAAGATTCCCAGCACTTGTT	0.294													10	33					0.00621372	0.00937811	0.006214	1	0		A	21068976	A	A	21068976	3	1	40	1	0	0	0	0	1	0	0	0	14749	594	21	5	1958	5	SLCO1B3	12	21068976	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	10114217	21068976	112782919	60	33739											
TIMELESS	8914	broad.mit.edu	37	chr12	56824049	56824049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcggctgctttcccaaatctGaactgtagtttcgtagctgg	7	14	10	10	2	1	1	0	1	1	0	4	1	2	1	1	2	3	6	1	2	4	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr12:56824049G>A	uc001slf.2	-	10	1094	c.926C>T	c.(925-927)TCA>TTA	p.S309L	TIMELESS_uc001slg.2_Missense_Mutation_p.S308L	NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	309					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						TCCCAAATCTGAACTGTAGTT	0.512													20	59					0	0	0.008871	0	0		A	56824049	A	A	56824049	3	1	40	1	0	0	0	0	1	0	0	0	15929	1294	45	4	2780	4	TIMELESS	12	56824049	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	35755073	56824049	77027846	61	33740											
RASSF9	9182	broad.mit.edu	37	chr12	86199380	86199380	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctcccacaatttttctgtGttttgcactaatttggcttc	7	18	6	10	0	1	0	0	0	1	0	3	0	2	0	1	1	2	4	1	1	2	7			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr12:86199380G>A	uc001taf.1	-	2	747	c.408C>T	c.(406-408)AAC>AAT	p.N136N		NM_005447	NP_005438	O75901	RASF9_HUMAN	Ras association (RalGDS/AF-6) domain family	136					endosome transport|protein targeting|signal transduction	cytosol|endosome|trans-Golgi network transport vesicle membrane	protein binding|transporter activity			ovary(1)	1						ATTTTTCTGTGTTTTGCACTA	0.423													81	229					0	0	0.01441	0	0		A	86199380	A	A	86199380	2	1	40	1	0	0	0	0	0	0	0	1	13118	1368	48	4		4	RASSF9	12	86199380	Silent	SNP	G	TCGA-BR-6707-01A-11D-1882-08	29375331	86199380	47652515	62	33741											
N4BP2L2	10443	broad.mit.edu	37	chr13	33109952	33109952	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcagacctcttaaaagaaTaagtaacttctgcaatttat	16	12	6	7	0	2	2	0	0	2	2	2	2	2	2	1	1	2	3	1	1	7	6			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr13:33109952T>A	uc001uuk.3	-	2	1391	c.1213A>T	c.(1213-1215)ATT>TTT	p.I405F	N4BP2L2_uc010abe.1_Intron|N4BP2L2_uc010tdz.1_Intron|N4BP2L2_uc001uul.1_Missense_Mutation_p.I405F|N4BP2L2_uc001uum.2_RNA	NM_014887	NP_055702	Q92802	N42L2_HUMAN	phosphonoformate immuno-associated protein 5	405											0		Lung SC(185;0.0262)		all cancers(112;9.5e-07)|Epithelial(112;5.07e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00196)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.243)		CTTAAAAGAATAAGTAACTTC	0.338													6	68					0	0	0.001168	0	0		A	33109952	A	A	33109952	3	1	40	1	0	0	0	0	1	0	0	0	10130	1406	49	5	2419	5	N4BP2L2	13	33109952	Missense_Mutation	SNP	T	TCGA-BR-6707-01A-11D-1882-08		33109952	82059926	63	33742											
KL	9365	broad.mit.edu	37	chr13	33591098	33591098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaggggctgcgctactacCggcgcctgctggagcggctg	4	6	18	13	5	0	0	0	0	0	0	0	2	0	1	2	5	5	4	2	5	2	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr13:33591098C>T	uc001uus.2	+	1	528	c.520C>T	c.(520-522)CGG>TGG	p.R174W	KL_uc001uur.1_Intron	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	174	Glycosyl hydrolase-1 1.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		GCGCTACTACCGGCGCCTGCT	0.721													8	19					0	0	0.00308	0	0		T	33591098	T	T	33591098	3	4	40	1	0	0	0	0	1	0	0	0	8347	643	23	1	522	1	KL	13	33591098	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	481146	33591098	81578780	64	33743											
THBS1	7057	broad.mit.edu	37	chr15	39877765	39877765	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgctgtcctcgctgttggcGtaagtttctcaaatggcata	8	14	10	9	2	1	0	1	0	1	0	4	0	2	0	1	2	1	6	1	2	3	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr15:39877765G>A	uc001zkh.2	+	7	1299	c.1120_splice	c.e7+1	p.P374_splice		NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor						activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	CGCTGTTGGCGTAAGTTTCTC	0.507													15	29					0	0	0.003163	0	0		A	39877765	A	A	39877765	5	1	40	1	0	0	0	0	0	0	1	0	15878	1159	40	1	1143	1	THBS1	15	39877765	Splice_Site	SNP	G	TCGA-BR-6707-01A-11D-1882-08		39877765	62653627	65	33744											
AP3B2	8120	broad.mit.edu	37	chr15	83346895	83346895	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaggaatgttggtctcatTggccaggttggtcagcactt	8	13	13	7	0	2	0	2	0	1	0	3	1	2	1	1	5	1	4	1	5	2	5			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr15:83346895T>C	uc010uoh.1	-	11	1384	c.1207A>G	c.(1207-1209)AAT>GAT	p.N403D	AP3B2_uc010uoi.1_Missense_Mutation_p.N403D|AP3B2_uc010uoj.1_Missense_Mutation_p.N371D|AP3B2_uc010uog.1_Missense_Mutation_p.N39D	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	403					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			TTGGTCTCATTGGCCAGGTTG	0.562													8	33					0	0	0.004482	0	0		C	83346895	C	C	83346895	3	2	40	1	0	0	0	0	1	0	0	0	745	1812	63	3	2105	3	AP3B2	15	83346895	Missense_Mutation	SNP	T	TCGA-BR-6707-01A-11D-1882-08	43469130	83346895	19184497	66	33745											
PLCG2	5336	broad.mit.edu	37	chr16	81916924	81916924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttacctgcatgacttccagaGgtttctcatacatgaacagc	11	12	7	11	0	1	3	1	2	1	1	3	3	2	3	2	1	5	2	2	1	3	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr16:81916924G>A	uc002fgt.2	+	9	895	c.743G>A	c.(742-744)AGG>AAG	p.R248K	PLCG2_uc010chg.1_Missense_Mutation_p.R248K	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	248					intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						GACTTCCAGAGGTTTCTCATA	0.562													24	37					0	0	0.00632	0	0		A	81916924	A	A	81916924	3	1	40	1	0	0	0	0	1	0	0	0	12055	1000	35	4	773	4	PLCG2	16	81916924	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08		81916924	8437829	67	33746											
MYH2	4620	broad.mit.edu	37	chr17	10424715	10424715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagctcatgctggagcttgCggaatttagctagattggtg	8	12	13	8	1	1	1	1	0	0	1	1	3	1	3	1	3	5	4	1	3	3	5			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr17:10424715C>T	uc010coi.2	-	40	5836	c.5708G>A	c.(5707-5709)CGC>CAC	p.R1903H	uc002gml.1_Intron|MYH1_uc002gmo.2_5'Flank|MYH2_uc002gmp.3_Missense_Mutation_p.R1903H|MYH2_uc010coj.2_Missense_Mutation_p.R670H	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1903	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTGGAGCTTGCGGAATTTAGC	0.468													46	128					0	0	0.013114	0	0		T	10424715	T	T	10424715	3	4	40	1	0	0	0	0	1	0	0	0	10053	768	27	1	121	1	MYH2	17	10424715	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08		10424715	70770495	68	33747											
SLC46A1	113235	broad.mit.edu	37	chr17	26731940	26731940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctggacttctctggggCgggagccacatagagctgga	7	10	14	10	1	1	1	0	0	1	1	3	4	2	4	2	5	2	1	2	5	1	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr17:26731940C>T	uc002hbf.1	-	2	871	c.775G>A	c.(775-777)GCC>ACC	p.A259T	SLC46A1_uc002hbg.1_Missense_Mutation_p.A259T|SLC46A1_uc010wak.1_Missense_Mutation_p.A259T	NM_080669	NP_542400	Q96NT5	PCFT_HUMAN	proton-coupled folate transporter	259					cellular iron ion homeostasis|folic acid metabolic process	apical plasma membrane|cytoplasm|integral to membrane	folic acid binding|folic acid transporter activity|heme transporter activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Folic Acid(DB00158)	TTCTCTGGGGCGGGAGCCACA	0.532													35	135					0	0	0.005524	0	0		T	26731940	T	T	26731940	3	4	40	1	0	0	0	0	1	0	0	0	14669	768	27	1	621	1	SLC46A1	17	26731940	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	16307225	26731940	54463270	69	33748											
GRB2	2885	broad.mit.edu	37	chr17	73317845	73317845	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagaattgaacttcaccacCcagaggaagtacttcccggc	14	7	8	12	1	1	3	1	1	0	2	2	4	2	4	3	2	2	1	3	2	5	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr17:73317845C>A	uc002jnx.3	-	5	720	c.363G>T	c.(361-363)TGG>TGT	p.W121C	GRB2_uc002jny.3_Missense_Mutation_p.W80C	NM_002086	NP_002077	P62993	GRB2_HUMAN	growth factor receptor-bound protein 2 isoform	121	SH2.				axon guidance|blood coagulation|cell junction assembly|cell-cell signaling|cellular response to ionizing radiation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of reactive oxygen species metabolic process|Ras protein signal transduction|receptor internalization|signal transduction in response to DNA damage|T cell costimulation	cytosol|Golgi apparatus	epidermal growth factor receptor binding|insulin receptor substrate binding|SH3/SH2 adaptor activity			ovary(3)	3	all_cancers(13;5.44e-09)|all_epithelial(9;1.1e-09)|Breast(9;1.85e-09)|all_lung(278;0.222)		all cancers(21;1.09e-07)|Epithelial(20;1.23e-06)|Lung(188;0.185)		Pegademase bovine(DB00061)	ACTTCACCACCCAGAGGAAGT	0.502													4	68					1.23904e-05	1.99964e-05	0.000602	1	0		A	73317845	A	A	73317845	3	1	40	1	0	0	0	0	1	0	0	0	6774	624	22	5	298	5	GRB2	17	73317845	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	46585905	73317845	7877365	70	33749											
ZNF569	148266	broad.mit.edu	37	chr19	37904164	37904164	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccacattccttacatatatAgggtttttccccagtatgaa	11	14	5	11	0	0	1	0	1	0	0	2	1	2	1	4	1	1	2	4	1	6	8			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr19:37904164A>G	uc002ogi.2	-	6	1954	c.1396T>C	c.(1396-1398)TAT>CAT	p.Y466H	ZNF569_uc002ogh.2_Missense_Mutation_p.Y307H|ZNF569_uc002ogj.2_Missense_Mutation_p.Y490H	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	466	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTACATATATAGGGTTTTTCC	0.358													15	48					0	0	0.004007	0	0		G	37904164	G	G	37904164	3	3	40	1	0	0	0	0	1	0	0	0	18025	420	15	3	668	3	ZNF569	19	37904164	Missense_Mutation	SNP	A	TCGA-BR-6707-01A-11D-1882-08		37904164	21224819	71	33750											
PSG11	5680	broad.mit.edu	37	chr19	43519445	43519445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctggtgggttagagtttgCgaagcaggacaagtcgaggt	9	10	17	5	2	0	1	0	0	0	1	1	4	0	2	0	4	3	4	0	4	3	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr19:43519445C>T	uc002ovm.1	-	4	894	c.787G>A	c.(787-789)GCA>ACA	p.A263T	PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG11_uc002ovn.1_Missense_Mutation_p.A269T|PSG11_uc002ovo.1_Missense_Mutation_p.A141T|PSG11_uc002ovp.1_Missense_Mutation_p.A141T	NM_002785	NP_002776	Q9UQ72	PSG11_HUMAN	pregnancy specific beta-1-glycoprotein 11	263	Ig-like C2-type 2.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				TTAGAGTTTGCGAAGCAGGAC	0.443													21	216					0	0	0.010504	0	0		T	43519445	T	T	43519445	3	4	40	1	0	0	0	0	1	0	0	0	12676	768	27	1	228	1	PSG11	19	43519445	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	5615281	43519445	15609538	72	33751											
ZNF235	9310	broad.mit.edu	37	chr19	44791904	44791904	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctccggtgtggactctctGatgattgtgaagattcaagc	8	13	11	9	1	3	4	1	3	2	1	5	5	3	5	1	2	1	0	1	2	2	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr19:44791904G>A	uc002oza.3	-	5	1787	c.1684C>T	c.(1684-1686)CAG>TAG	p.Q562*	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF235_uc002ozb.3_Nonsense_Mutation_p.Q558*|ZNF235_uc010xwx.1_Nonsense_Mutation_p.Q476*	NM_004234	NP_004225	Q14590	ZN235_HUMAN	zinc finger protein 93 homolog	562	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)	3		Prostate(69;0.0352)|all_neural(266;0.116)				TGGACTCTCTGATGATTGTGA	0.458													16	77					0	0	0.00499	0	0		A	44791904	A	A	44791904	4	1	40	1	0	0	0	0	0	1	0	0	17813	1299	45	4	536	4	ZNF235	19	44791904	Nonsense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	1272459	44791904	14337079	73	33752											
SCRT2	85508	broad.mit.edu	37	chr20	644940	644940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagctgtcggtcactgccGcctcccctcggaagtagcgc	6	8	12	15	4	1	0	1	0	0	0	4	1	2	1	4	2	3	3	4	2	3	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr20:644940G>A	uc002wec.2	-	2	877	c.299C>T	c.(298-300)GCG>GTG	p.A100V	SRXN1_uc002web.2_Intron	NM_033129	NP_149120	Q9NQ03	SCRT2_HUMAN	scratch 2 protein	100					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGTCACTGCCGCCTCCCCTCG	0.567													7	16					0	0	0.006214	0	0		A	644940	A	A	644940	3	1	40	1	0	0	0	0	1	0	0	0	13967	1087	38	1	628	1	SCRT2	20	644940	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08		644940	62380580	74	33753											
MAVS	57506	broad.mit.edu	37	chr20	3838418	3838418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgagctagttgatctcgCggacgaagtggcctctgtct	6	12	13	10	3	3	2	0	2	3	0	4	4	3	3	1	2	1	2	1	2	2	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr20:3838418C>T	uc002wjw.3	+	3	423	c.254C>T	c.(253-255)GCG>GTG	p.A85V	MAVS_uc002wjv.2_Missense_Mutation_p.A85V|MAVS_uc010zqn.1_Missense_Mutation_p.A85V|MAVS_uc002wjx.3_Intron|MAVS_uc002wjy.3_5'UTR	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	85	Cytoplasmic (Probable).				activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0						GTTGATCTCGCGGACGAAGTG	0.637													7	215					0	0	0.004482	0	0		T	3838418	T	T	3838418	3	4	40	1	0	0	0	0	1	0	0	0	9356	768	27	1	260	1	MAVS	20	3838418	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	3193478	3838418	59187102	75	33754											
TSHZ2	128553	broad.mit.edu	37	chr20	51872642	51872642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatctgggcccacaagagcGtatgcaaatctctaagttta	12	11	9	9	1	2	2	0	1	2	1	3	2	2	2	1	1	2	3	1	1	5	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr20:51872642G>A	uc002xwo.2	+	2	3601	c.2645G>A	c.(2644-2646)CGT>CAT	p.R882H		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	882	Homeobox; atypical.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CCACAAGAGCGTATGCAAATC	0.493													21	87					0	0	0.010504	0	0		A	51872642	A	A	51872642	3	1	40	1	0	0	0	0	1	0	0	0	16650	1145	40	1	2651	1	TSHZ2	20	51872642	Missense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	48034224	51872642	11152878	76	33755											
PRAME	23532	broad.mit.edu	37	chr22	22892267	22892267	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atatactgctcttccttctcCggggaaatgtaggaagatgc	10	12	10	9	1	2	1	0	0	2	1	4	3	3	3	2	3	3	2	2	3	5	5	rs34866162		TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chr22:22892267C>T	uc002zwf.2	-	4	990	c.834G>A	c.(832-834)CCG>CCA	p.P278P	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Silent_p.P262P|PRAME_uc010gtr.2_Silent_p.P278P|PRAME_uc002zwg.2_Silent_p.P278P|PRAME_uc002zwh.2_Silent_p.P278P|PRAME_uc002zwi.2_Silent_p.P278P|PRAME_uc002zwj.2_Silent_p.P278P|PRAME_uc002zwk.2_Silent_p.P278P	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	278					apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		CTTCCTTCTCCGGGGAAATGT	0.502													28	96					0	0	0.012213	0	0		T	22892267	T	T	22892267	2	4	40	1	0	0	0	0	0	0	0	1	12446	639	23	1		1	PRAME	22	22892267	Silent	SNP	C	TCGA-BR-6707-01A-11D-1882-08		22892267	28412299	77	33756											
NLGN4X	57502	broad.mit.edu	37	chrX	5821174	5821174	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggcgctgagcatgacgtcGttcttggaaaagttacaact	11	10	11	9	4	1	2	0	2	1	0	2	3	1	3	0	2	3	4	0	2	4	3			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chrX:5821174G>A	uc010ndh.2	-	5	2046	c.1545C>T	c.(1543-1545)AAC>AAT	p.N515N	NLGN4X_uc004crp.2_Silent_p.N535N|NLGN4X_uc004crq.2_Silent_p.N515N|NLGN4X_uc010ndi.2_Silent_p.N552N|NLGN4X_uc004crr.2_Silent_p.N515N|NLGN4X_uc010ndj.2_Silent_p.N515N	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	515	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						GCATGACGTCGTTCTTGGAAA	0.542													22	22					0	0	0.014323	0	0		A	5821174	A	A	5821174	2	1	40	1	0	0	0	0	0	0	0	1	10483	1136	40	1		1	NLGN4X	23	5821174	Silent	SNP	G	TCGA-BR-6707-01A-11D-1882-08		5821174	149449386	78	33757											
WWC3	55841	broad.mit.edu	37	chrX	10058913	10058913	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaggccatttgcacaggCgagaaggagaggcgggacct	13	4	16	8	2	0	3	0	0	0	3	0	6	0	4	2	5	1	1	2	5	3	1			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chrX:10058913C>T	uc004csx.3	+	6	678	c.480C>T	c.(478-480)GGC>GGT	p.G160G	WWC3_uc010nds.2_5'UTR|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	160										ovary(4)	4						TTTGCACAGGCGAGAAGGAGA	0.443													4	48					0	0	0.000602	0	0		T	10058913	T	T	10058913	2	4	40	1	0	0	0	0	0	0	0	1	17439	755	27	1		1	WWC3	23	10058913	Silent	SNP	C	TCGA-BR-6707-01A-11D-1882-08	4237739	10058913	145211647	79	33758											
BCOR	54880	broad.mit.edu	37	chrX	39923059	39923059	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgacacctgctgctcccatcGttctctaaggtgcagcaagt	8	10	9	14	2	1	0	0	0	1	0	4	1	2	0	2	1	4	5	2	1	2	2			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chrX:39923059G>A	uc004den.3	-	8	3941	c.3649C>T	c.(3649-3651)CGA>TGA	p.R1217*	BCOR_uc004dep.3_Nonsense_Mutation_p.R1183*|BCOR_uc004deo.3_Nonsense_Mutation_p.R1165*|BCOR_uc010nhb.2_5'Flank|BCOR_uc004dem.3_Nonsense_Mutation_p.R1183*	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	1217					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						TGCTCCCATCGTTCTCTAAGG	0.542													38	32					0	0	0.006999	0	0		A	39923059	A	A	39923059	4	1	40	1	0	0	0	0	0	1	0	0	1387	1153	40	1	1650	1	BCOR	23	39923059	Nonsense_Mutation	SNP	G	TCGA-BR-6707-01A-11D-1882-08	29864146	39923059	115347501	80	33759											
MAGED2	10916	broad.mit.edu	37	chrX	54836552	54836552	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaggctgcaccctctcaggCcccagcagatgaacctgagc	9	6	11	15	0	1	4	1	3	1	1	2	4	1	4	4	2	4	3	4	2	1	0			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chrX:54836552C>G	uc004dtk.1	+	3	537	c.443C>G	c.(442-444)GCC>GGC	p.A148G	MAGED2_uc004dtl.1_Missense_Mutation_p.A148G|MAGED2_uc004dtm.1_Missense_Mutation_p.A110G|MAGED2_uc010nkc.1_Missense_Mutation_p.A148G|MAGED2_uc004dtn.1_Missense_Mutation_p.A148G|MAGED2_uc004dto.1_Missense_Mutation_p.A122G	NM_177433	NP_803182	Q9UNF1	MAGD2_HUMAN	melanoma antigen family D, 2	148										ovary(2)|breast(1)	3						CCCTCTCAGGCCCCAGCAGAT	0.542													5	5					0	0	0.001168	0	0		G	54836552	G	G	54836552	3	3	40	1	0	0	0	0	1	0	0	0	9202	739	26	5	449	5	MAGED2	23	54836552	Missense_Mutation	SNP	C	TCGA-BR-6707-01A-11D-1882-08	14913493	54836552	100434008	81	33760											
SLITRK2	84631	broad.mit.edu	37	chrX	144905746	144905746	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatacagacacacctcggtcGcttagtgtgtctcctagttc	9	12	8	12	2	1	1	0	0	1	1	5	1	1	1	2	1	1	2	2	1	4	4			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	g.chrX:144905746G>T	uc004fcd.2	+	5	2793	c.1803G>T	c.(1801-1803)TCG>TCT	p.S601S	SLITRK2_uc010nsp.2_Silent_p.S601S|SLITRK2_uc010nso.2_Silent_p.S601S|SLITRK2_uc011mwq.1_Silent_p.S601S|SLITRK2_uc011mwr.1_Silent_p.S601S|SLITRK2_uc011mws.1_Silent_p.S601S|SLITRK2_uc004fcg.2_Silent_p.S601S|SLITRK2_uc011mwt.1_Silent_p.S601S	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	601	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					CACCTCGGTCGCTTAGTGTGT	0.438													3	57					0.004672	0.00711716	0.004672	1	0		T	144905746	T	T	144905746	2	4	40	1	0	0	0	0	0	0	0	1	14768	1074	38	5		5	SLITRK2	23	144905746	Silent	SNP	G	TCGA-BR-6707-01A-11D-1882-08	90069194	144905746	10364814	82	33761											
ASAP3	55616	broad.mit.edu	37	chr1	23763702	23763702	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagctttgtgaggtcgtgCggctccccatcatggccggc	5	9	14	13	3	1	1	1	1	0	0	3	1	2	1	3	4	3	3	3	4	0	1			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr1:23763702C>T	uc001bha.2	-	14	1387	c.1263G>A	c.(1261-1263)CCG>CCA	p.P421P	ASAP3_uc001bgy.1_5'Flank|ASAP3_uc001bgz.1_5'Flank|ASAP3_uc010odz.1_Silent_p.P290P|ASAP3_uc010oea.1_Silent_p.P412P|ASAP3_uc001bhb.2_5'UTR	NM_017707	NP_060177	Q8TDY4	ASAP3_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	421					regulation of ARF GTPase activity	cytoplasm	ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						TGAGGTCGTGCGGCTCCCCAT	0.701													8	3					0	0	0.004482	0	0		T	23763702	T	T	23763702	2	4	42	1	0	0	0	0	0	0	0	1	1013	755	27	1		1	ASAP3	1	23763702	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08		23763702	225486919	1	33762											
COL9A2	1298	broad.mit.edu	37	chr1	40775783	40775783	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagcaaaaagaggcttacCggtggcccagtggcaccgat	11	5	15	10	2	0	1	0	0	0	1	0	3	0	2	3	5	2	3	3	5	3	1			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr1:40775783C>T	uc001cfh.1	-	15	862	c.792G>A	c.(790-792)CCG>CCA	p.P264P	COL9A2_uc001cfi.1_Silent_p.P83P	NM_001852	NP_001843	Q14055	CO9A2_HUMAN	alpha 2 type IX collagen precursor	264	Triple-helical region 3 (COL3).				axon guidance|skeletal system development	collagen type IX				ovary(2)	2	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.08e-17)			AGAGGCTTACCGGTGGCCCAG	0.612													69	69					0	0	0.01441	0	0		T	40775783	T	T	40775783	2	4	42	1	0	0	0	0	0	0	0	1	3711	666	23	1		1	COL9A2	1	40775783	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08	17012081	40775783	208474838	2	33763											
SMG5	23381	broad.mit.edu	37	chr1	156235937	156235937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caccttcaagactcttgtcaGagccactgtctgagccctca	9	10	7	15	0	5	3	3	1	2	2	5	3	5	3	3	0	2	0	3	0	1	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr1:156235937G>A	uc001foc.3	-	12	1639	c.1490C>T	c.(1489-1491)TCT>TTT	p.S497F	SMG5_uc009wrv.2_5'UTR	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	497					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					ACTCTTGTCAGAGCCACTGTC	0.532													70	52					0	0	0.01441	0	0		A	156235937	A	A	156235937	3	1	42	1	0	0	0	0	1	0	0	0	14821	942	33	4	1604	4	SMG5	1	156235937	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08	115460154	156235937	93014684	3	33764											
SPTA1	6708	broad.mit.edu	37	chr1	158651377	158651377	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acatactgctggaacttcagGgcccgcagcaactggtcacc	10	7	10	14	1	2	0	2	0	0	0	2	1	2	1	2	3	5	3	2	3	3	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr1:158651377G>A	uc001fst.1	-	4	670	c.471C>T	c.(469-471)GCC>GCT	p.A157A		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	157					actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					GGAACTTCAGGGCCCGCAGCA	0.527													128	74					0	0	0.01441	0	0		A	158651377	A	A	158651377	2	1	42	1	0	0	0	0	0	0	0	1	15141	1219	43	4		4	SPTA1	1	158651377	Silent	SNP	G	TCGA-BR-6801-01A-11D-1882-08	2415440	158651377	90599244	4	33765											
ESRRG	2104	broad.mit.edu	37	chr1	216896692	216896692	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctataaatcaaagtttcCttgacagagcacagtgcaat	15	10	7	9	0	1	2	1	1	0	1	2	2	2	2	1	0	3	4	1	0	5	4			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr1:216896692C>A	uc001hkw.1	-	1	116	c.-50G>T	c.(-52--48)AAGGA>AATGA		ESRRG_uc001hky.1_Intron|ESRRG_uc009xdp.1_Intron|ESRRG_uc001hkz.1_Intron|ESRRG_uc010puc.1_Intron|ESRRG_uc001hla.1_Intron|ESRRG_uc001hlb.1_Intron|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Intron|ESRRG_uc001hld.1_Intron|ESRRG_uc001hkx.1_Translation_Start_Site|ESRRG_uc009xdo.1_Translation_Start_Site|ESRRG_uc001hle.1_5'Flank	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1						positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	TCAAAGTTTCCTTGACAGAGC	0.458													15	16					0.000219431	0.000399243	0.00245	1	0		A	216896692	A	A	216896692	1	1	42	1	0	0	0	0	0	0	0	0	5270	696	24	5		5	ESRRG	1	216896692	Translation_Start_Site	SNP	C	TCGA-BR-6801-01A-11D-1882-08	58245315	216896692	32353929	5	33766											
OBSCN	84033	broad.mit.edu	37	chr1	228479801	228479801	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcctggccatggcggaCgccggggagtacttgtgtgt	4	10	18	9	3	0	0	0	0	0	0	0	2	0	2	3	6	1	1	3	6	1	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr1:228479801C>T	uc009xez.1	+	39	10586	c.10542C>T	c.(10540-10542)GAC>GAT	p.D3514D	OBSCN_uc001hsn.2_Silent_p.D3514D|OBSCN_uc001hsq.1_Silent_p.D770D	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3514	Ig-like 35.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCATGGCGGACGCCGGGGAGT	0.622													78	49					0	0	0.01441	0	0		T	228479801	T	T	228479801	2	4	42	1	0	0	0	0	0	0	0	1	10831	535	19	1		1	OBSCN	1	228479801	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08	11583109	228479801	20770820	6	33767											
LRP1B	53353	broad.mit.edu	37	chr2	141299517	141299517	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acagccaaactgaggaaagtCcctggcccagatttaactat	14	8	8	11	0	0	2	0	1	0	1	1	3	1	3	3	2	3	0	3	2	4	3			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr2:141299517C>T	uc002tvj.1	-	44	8190	c.7218G>A	c.(7216-7218)GGG>GGA	p.G2406G		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2406	Extracellular (Potential).|LDL-receptor class B 26.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TGAGGAAAGTCCCTGGCCCAG	0.363										TSP Lung(27;0.18)			3	29					0	0	0.004672	0	0		T	141299517	T	T	141299517	2	4	42	1	0	0	0	0	0	0	0	1	8973	842	30	4		4	LRP1B	2	141299517	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08		141299517	101899856	7	33768											
NEB	4703	broad.mit.edu	37	chr2	152486101	152486101	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccacgatggggatggcGtcacttcgcaagtcgtagcc	8	7	14	12	4	1	0	1	0	0	0	3	2	1	1	2	3	2	3	2	3	2	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr2:152486101G>A	uc010fnx.2	-	64	9245	c.9054C>T	c.(9052-9054)GAC>GAT	p.D3018D	NEB_uc002txu.2_Silent_p.D365D	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3018	Nebulin 82.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGGGGATGGCGTCACTTCGCA	0.458													68	58					0	0	0.01441	0	0		A	152486101	A	A	152486101	2	1	42	1	0	0	0	0	0	0	0	1	10321	1136	40	1		1	NEB	2	152486101	Silent	SNP	G	TCGA-BR-6801-01A-11D-1882-08	11186584	152486101	90713272	8	33769											
NR4A2	4929	broad.mit.edu	37	chr2	157186116	157186116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggacgtgcaggggcccgtCgaagcgcatctggcaactag	8	5	17	11	4	1	0	0	0	1	0	2	2	1	1	1	5	3	3	1	5	3	1			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr2:157186116C>T	uc002tyz.3	-	3	1005	c.583G>A	c.(583-585)GAC>AAC	p.D195N	NR4A2_uc002tyx.3_Missense_Mutation_p.D132N|NR4A2_uc010zcf.1_Missense_Mutation_p.D195N|NR4A2_uc010zcg.1_5'Flank	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	195	Pro-rich.				cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						AGGGGCCCGTCGAAGCGCATC	0.657													68	48					0	0	0.01441	0	0		T	157186116	T	T	157186116	3	4	42	1	0	0	0	0	1	0	0	0	10652	884	31	1	1237	1	NR4A2	2	157186116	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08	4700015	157186116	86013257	9	33770											
TRANK1	9881	broad.mit.edu	37	chr3	36869827	36869827	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggccgaagctcaccaaagTcttcaacttcattttcataa	13	12	5	11	1	5	0	4	0	1	0	5	1	5	0	2	1	2	1	2	1	5	6			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr3:36869827T>A	uc003cgj.2	-	14	7369	c.7067A>T	c.(7066-7068)GAC>GTC	p.D2356V		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2906					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						CTCACCAAAGTCTTCAACTTC	0.313													21	14					0	0	0.00333	0	0		A	36869827	A	A	36869827	3	1	42	1	0	0	0	0	1	0	0	0	16480	1667	58	5	64	5	TRANK1	3	36869827	Missense_Mutation	SNP	T	TCGA-BR-6801-01A-11D-1882-08		36869827	161152603	10	33771											
SCN10A	6336	broad.mit.edu	37	chr3	38739967	38739967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggatcagtctgaggatgcGgccaattcgggccaggcgga	8	7	16	10	4	2	1	1	1	1	0	4	4	2	4	2	6	1	0	2	6	1	1			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr3:38739967G>A	uc003ciq.2	-	27	4744	c.4744C>T	c.(4744-4746)CGC>TGC	p.R1582C		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1582	IV.|Helical; Voltage-sensor; Name=S4 of repeat IV; (Potential).				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CTGAGGATGCGGCCAATTCGG	0.517													50	44					0	0	0.01441	0	0		A	38739967	A	A	38739967	3	1	42	1	0	0	0	0	1	0	0	0	13937	1116	39	1	1130	1	SCN10A	3	38739967	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08	1870140	38739967	159282463	11	33772											
KIAA1524	57650	broad.mit.edu	37	chr3	108273290	108273290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatttgtttattcagagaatCacatgtgatctgtaaatctt	13	17	6	5	0	4	2	2	1	2	1	4	3	4	2	0	0	0	2	0	0	5	6			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr3:108273290C>T	uc003dxb.3	-	18	2526	c.2257G>A	c.(2257-2259)GAT>AAT	p.D753N		NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	753	Potential.					cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						TTCAGAGAATCACATGTGATC	0.303													3	13					0	0	0.009096	0	0		T	108273290	T	T	108273290	3	4	42	1	0	0	0	0	1	0	0	0	8255	826	29	4	476	4	KIAA1524	3	108273290	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08	69533323	108273290	89749140	12	33773											
C4orf44	345222	broad.mit.edu	37	chr4	3251150	3251150	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcttcgacgagctcaagcaGaccaagcgcaacgccaaggt	12	6	10	13	4	2	1	1	0	1	1	3	3	2	1	2	1	4	3	2	1	4	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr4:3251150G>C	uc003ggs.2	+	1	384	c.201G>C	c.(199-201)CAG>CAC	p.Q67H	C4orf44_uc003ggt.2_Missense_Mutation_p.Q67H	NM_001042690	NP_001036155	Q6ZTZ1	CD044_HUMAN	hypothetical protein LOC345222 isoform a	67											0						AGCTCAAGCAGACCAAGCGCA	0.632													11	10					0	0	0.008291	0	0		C	3251150	C	C	3251150	3	2	42	1	0	0	0	0	1	0	0	0	2275	933	33	5	203	5	C4orf44	4	3251150	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08		3251150	187903126	13	33774											
GRID2	2895	broad.mit.edu	37	chr4	94344114	94344114	+	Frame_Shift_Del	DEL	T	-	-																															gcttggtaggagaacttgtcTttaaggtaagaattacttta																										TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr4:94344114delT	uc011cdt.1	+	10	1798	c.1540delT	c.(1540-1542)TTTfs	p.F514fs	GRID2_uc011cdu.1_Frame_Shift_Del_p.F419fs	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	514	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	AGAACTTGTCTTTAAGGTAAG	0.373													23	17	---	---	---	---						.	-	94344114	-	-	94344114	7	5	42	1	0	1	0	1	0	0	0	0	6788	1609	56	0	1578	0	GRID2	4	94344114	Frame_Shift_Del	DEL	T	TCGA-BR-6801-01A-11D-1882-08	91092964	94344114	96810162	14	33775											
ADH1C	126	broad.mit.edu	37	chr4	100268233	100268236	+	Frame_Shift_Del	DEL	AGGA	-	-																															gcctcatggcctaaaatcacAggaaggggggtcaccaggtt																										TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr4:100268233_100268236delAGGA	uc003huu.2	-	3	271_274	c.186_189delTCCT	c.(184-189)CTTCCTfs	p.L62fs		NM_000669	NP_000660	P00326	ADH1G_HUMAN	class I alcohol dehydrogenase, gamma subunit	62_63					ethanol oxidation|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(123;1.08e-07)	Fomepizole(DB01213)|NADH(DB00157)	CTAAAATCACAGGAAGGGGGGTCA	0.485									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				123	122	---	---	---	---						.	-	100268236	-	-	100268233	7	5	42	1	0	1	0	1	0	0	0	0	309	175	7	0	966	0	ADH1C	4	100268233	Frame_Shift_Del	DEL	AGGA	TCGA-BR-6801-01A-11D-1882-08	5924119	100268233	90886043	15	33776											
ADCY2	108	broad.mit.edu	37	chr5	7695884	7695884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatcttatacgctgacatcGttggctttacccggctggca	7	12	10	12	3	1	1	0	1	1	0	2	1	1	1	1	3	2	6	1	3	3	5			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr5:7695884G>A	uc003jdz.1	+	6	956	c.889G>A	c.(889-891)GTT>ATT	p.V297I	ADCY2_uc011cmo.1_Missense_Mutation_p.V117I	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	297	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CGCTGACATCGTTGGCTTTAC	0.408													18	23					0	0	0.008871	0	0		A	7695884	A	A	7695884	3	1	42	1	0	0	0	0	1	0	0	0	294	1145	40	1	911	1	ADCY2	5	7695884	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08		7695884	173219376	16	33777											
CDC5L	988	broad.mit.edu	37	chr6	44392169	44392169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctacaggaaagagaatcccGagaacatctccgtttagggt	13	9	10	9	2	2	2	0	0	2	2	4	5	3	3	2	2	2	1	2	2	5	3			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr6:44392169G>A	uc003oxl.2	+	11	1677	c.1418G>A	c.(1417-1419)CGA>CAA	p.R473Q		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	473	Interaction with PPP1R8.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			AGAGAATCCCGAGAACATCTC	0.378													40	30					0	0	0.013114	0	0		A	44392169	A	A	44392169	3	1	42	1	0	0	0	0	1	0	0	0	3085	1058	37	1	1460	1	CDC5L	6	44392169	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08		44392169	126722898	17	33778											
LANCL2	55915	broad.mit.edu	37	chr7	55492979	55492979	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagtacttgaaagaggcCatggagtgtagcgatgtgat	13	9	15	4	1	0	4	0	2	0	2	0	7	0	5	1	2	2	2	1	2	4	3			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr7:55492979C>G	uc003tqp.2	+	7	1619	c.1041C>G	c.(1039-1041)GCC>GCG	p.A347A		NM_018697	NP_061167	Q9NS86	LANC2_HUMAN	LanC lantibiotic synthetase component C-like 2	347					negative regulation of transcription, DNA-dependent|positive regulation of abscisic acid mediated signaling pathway	cortical actin cytoskeleton|cytosol|nucleus|plasma membrane	ATP binding|catalytic activity|GTP binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding			ovary(1)|skin(1)	2	Breast(14;0.0379)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00128)|Epithelial(13;0.0706)			TGAAAGAGGCCATGGAGTGTA	0.468													36	94					0	0	0.004878	0	0		G	55492979	G	G	55492979	2	3	42	1	0	0	0	0	0	0	0	1	8637	581	21	5		5	LANCL2	7	55492979	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08		55492979	103645684	18	33779											
ZNF679	168417	broad.mit.edu	37	chr7	63720697	63720697	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatatagagatgtgatgttAgagaactacagaaacctggt	15	12	10	4	0	0	4	0	1	0	3	0	6	0	4	1	1	3	1	1	1	7	5			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr7:63720697A>G	uc003tsx.2	+	3	407	c.138A>G	c.(136-138)TTA>TTG	p.L46L		NM_153363	NP_699194	Q8IYX0	ZN679_HUMAN	zinc finger protein 679	46	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						ATGTGATGTTAGAGAACTACA	0.378													4	203					0	0	0.009096	0	0		G	63720697	G	G	63720697	2	3	42	1	0	0	0	0	0	0	0	1	18111	417	15	3		3	ZNF679	7	63720697	Silent	SNP	A	TCGA-BR-6801-01A-11D-1882-08	8227718	63720697	95417966	19	33780											
AKAP9	10142	broad.mit.edu	37	chr7	91682266	91682266	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagccataagtgaaactagCagtcaggtaacctccttata	15	9	8	9	0	1	1	1	1	0	0	2	2	2	1	3	1	4	2	3	1	7	5			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr7:91682266C>T	uc003ulg.2	+	22	5820	c.5595C>T	c.(5593-5595)AGC>AGT	p.S1865S	AKAP9_uc003ulf.2_Silent_p.S1865S|AKAP9_uc003uli.2_Silent_p.S1488S	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1877	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GTGAAACTAGCAGTCAGGTAA	0.368			T	BRAF	papillary thyroid								13	21					0	0	0.00499	0	0		T	91682266	T	T	91682266	2	4	42	1	0	0	0	0	0	0	0	1	459	709	25	2		2	AKAP9	7	91682266	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08	27961569	91682266	67456397	20	33781											
C7orf33	202865	broad.mit.edu	37	chr7	148311189	148311189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaatttattgctcctgtatCagctcccaccaaatctggtg	9	13	8	11	0	2	0	1	0	1	0	4	1	4	1	3	2	2	3	3	2	4	4			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr7:148311189C>T	uc003wew.2	+	2	621	c.260C>T	c.(259-261)TCA>TTA	p.S87L		NM_145304	NP_660347	Q8WU49	CG033_HUMAN	hypothetical protein LOC202865	87										central_nervous_system(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GCTCCTGTATCAGCTCCCACC	0.493													16	127					0	0	0.006122	0	0		T	148311189	T	T	148311189	3	4	42	1	0	0	0	0	1	0	0	0	2391	838	29	4	266	4	C7orf33	7	148311189	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08	56628923	148311189	10827474	21	33782											
GPR124	25960	broad.mit.edu	37	chr8	37691340	37691340	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaaatttttgggttatgtCgaccagatcaaagaggtgag	13	11	12	5	1	1	4	1	1	0	3	2	5	1	4	1	2	0	1	1	2	3	3			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr8:37691340C>T	uc003xkj.2	+	10	1794	c.1431C>T	c.(1429-1431)GTC>GTT	p.V477V	GPR124_uc010lvy.2_Silent_p.V477V	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	477	Extracellular (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			TGGGTTATGTCGACCAGATCA	0.527													58	39					0	0	0.01441	0	0		T	37691340	T	T	37691340	2	4	42	1	0	0	0	0	0	0	0	1	6653	871	31	1		1	GPR124	8	37691340	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08		37691340	108672682	22	33783											
NBN	4683	broad.mit.edu	37	chr8	90965531	90965531	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agtgtcatttgtttctatatCcatccttggcctttttctaa	7	20	5	9	0	3	0	1	0	2	0	5	0	5	0	3	1	0	1	3	1	3	8			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr8:90965531C>T	uc003yej.1	-	11	1896	c.1786G>A	c.(1786-1788)GAT>AAT	p.D596N	NBN_uc003yei.1_Missense_Mutation_p.D514N|NBN_uc011lgb.1_Missense_Mutation_p.D596N	NM_002485	NP_002476	O60934	NBN_HUMAN	nibrin	596					cell cycle arrest|DNA damage response, signal transduction by p53 class mediator|DNA duplex unwinding|double-strand break repair via homologous recombination|meiosis|mitotic cell cycle G1/S transition checkpoint|mitotic cell cycle G2/M transition DNA damage checkpoint|positive regulation of kinase activity|positive regulation of protein autophosphorylation|regulation of DNA-dependent DNA replication initiation|telomere maintenance	Mre11 complex|nuclear chromosome, telomeric region|nuclear inclusion body|nucleolus|nucleoplasm	protein N-terminus binding|transcription factor binding			central_nervous_system(3)|kidney(3)|lung(1)	7			BRCA - Breast invasive adenocarcinoma(11;0.0344)			GTTTCTATATCCATCCTTGGC	0.338								Direct_reversal_of_damage|Homologous_recombination	Nijmegen_Breakage_syndrome				162	58					0	0	0.01441	0	0		T	90965531	T	T	90965531	3	4	42	1	0	0	0	0	1	0	0	0	10209	855	30	4	502	4	NBN	8	90965531	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08	53274191	90965531	55398491	23	33784											
TLN1	7094	broad.mit.edu	37	chr9	35714789	35714789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagcaggggctgggggcCggcagaggccttgggggtag	6	4	21	10	1	0	1	0	0	0	1	0	1	0	1	3	8	1	4	3	8	1	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr9:35714789C>T	uc003zxt.2	-	22	3193	c.2839G>A	c.(2839-2841)GGC>AGC	p.G947S		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	947					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GGCTGGGGGCCGGCAGAGGCC	0.587													74	48					0	0	0.01441	0	0		T	35714789	T	T	35714789	3	4	42	1	0	0	0	0	1	0	0	0	15972	652	23	1	4930	1	TLN1	9	35714789	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08		35714789	105498642	24	33785											
ZNF658	26149	broad.mit.edu	37	chr9	40772474	40772474	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tacattcgtagggtttctccCccgtatgaactctctgatgt	7	15	8	11	2	2	2	0	2	2	0	5	2	2	2	2	1	2	3	2	1	4	5			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr9:40772474C>T	uc004abs.2	-	5	2953	c.2801G>A	c.(2800-2802)GGG>GAG	p.G934E	ZNF658_uc010mmm.1_Intron|ZNF658_uc010mmn.1_Missense_Mutation_p.G934E	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	934					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		GGGTTTCTCCCCCGTATGAAC	0.438													129	99					0	0	0.01441	0	0		T	40772474	T	T	40772474	3	4	42	1	0	0	0	0	1	0	0	0	18094	623	22	4	382	4	ZNF658	9	40772474	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08	5057685	40772474	100440957	25	33786											
ZBTB43	23099	broad.mit.edu	37	chr9	129594921	129594921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtccaaggccacattttcCgggcacacaaagccgttctt	9	11	8	13	2	1	0	0	0	1	0	3	0	3	0	4	2	1	2	4	2	2	5			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr9:129594921C>T	uc004bql.2	+	3	406	c.133C>T	c.(133-135)CGG>TGG	p.R45W	ZBTB43_uc010mxf.2_Missense_Mutation_p.R45W	NM_014007	NP_054726	O43298	ZBT43_HUMAN	zinc finger and BTB domain containing 43	45	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCACATTTTCCGGGCACACAA	0.473													48	28					0	0	0.01441	0	0		T	129594921	T	T	129594921	3	4	42	1	0	0	0	0	1	0	0	0	17569	643	23	1	135	1	ZBTB43	9	129594921	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08	88822447	129594921	11618510	26	33787											
MUC6	4588	broad.mit.edu	37	chr11	1016198	1016200	+	In_Frame_Del	DEL	AGA	-	-																															atggtagtagaggcagctggAgaagaaggaaaaagaggaga																										TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr11:1016198_1016200delAGA	uc001lsw.2	-	31	6652_6654	c.6601_6603delTCT	c.(6601-6603)TCTdel	p.S2201del		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2201	Ser-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGGCAGCTGGAGAAGAAGGAAAA	0.557													10	13	---	---	---	---						.	-	1016200	-	-	1016198	7	5	42	1	0	1	0	1	0	0	0	0	9998	291	11	0	728	0	MUC6	11	1016198	In_Frame_Del	DEL	AGA	TCGA-BR-6801-01A-11D-1882-08		1016198	133990318	27	33788											
PGR	5241	broad.mit.edu	37	chr11	100999115	100999115	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcggacccgcagactcctcGgactcagagccatcctcctc	8	6	9	18	3	1	2	1	0	0	2	6	4	4	4	5	2	2	1	5	2	0	0			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr11:100999115G>A	uc001pgh.2	-	1	1430	c.687C>T	c.(685-687)TCC>TCT	p.S229S	PGR_uc001pgi.2_Silent_p.S229S|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	229	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	CAGACTCCTCGGACTCAGAGC	0.721													28	7					0	0	0.00632	0	0		A	100999115	A	A	100999115	2	1	42	1	0	0	0	0	0	0	0	1	11824	1103	39	1		1	PGR	11	100999115	Silent	SNP	G	TCGA-BR-6801-01A-11D-1882-08	99982917	100999115	34007401	28	33789											
HOXC11	3227	broad.mit.edu	37	chr12	54367430	54367430	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccgcacgcaacccccgcCggcttctactcctcagtcaa	7	6	7	21	4	3	0	2	0	1	0	4	0	4	0	6	1	2	3	6	1	3	2	rs139414813		TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr12:54367430C>T	uc001sem.2	+	1	521	c.405C>T	c.(403-405)GCC>GCT	p.A135A		NM_014212	NP_055027	O43248	HXC11_HUMAN	homeobox C11	135					endoderm development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CAACCCCCGCCGGCTTCTACT	0.657			T	NUP98	AML								136	112					0	0	0.01441	0	0		T	54367430	T	T	54367430	2	4	42	1	0	0	0	0	0	0	0	1	7326	639	23	1		1	HOXC11	12	54367430	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08		54367430	79484465	29	33790											
GTSF1	121355	broad.mit.edu	37	chr12	54858935	54858935	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcattgcaatagcttctcAgggtccagggagtcggctga	8	9	15	9	1	1	1	1	1	1	0	4	2	2	2	1	4	2	4	1	4	2	3			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr12:54858935A>G	uc001sgb.2	-	3	119	c.33T>C	c.(31-33)CCT>CCC	p.P11P		NM_144594	NP_653195	Q8WW33	GTSF1_HUMAN	gametocyte specific factor 1	11							metal ion binding				0		Myeloproliferative disorder(1001;0.00452)				ATAGCTTCTCAGGGTCCAGGG	0.428													3	103					0	0	0.004672	0	0		G	54858935	G	G	54858935	2	3	42	1	0	0	0	0	0	0	0	1	6902	175	7	3		3	GTSF1	12	54858935	Silent	SNP	A	TCGA-BR-6801-01A-11D-1882-08	491505	54858935	78992960	30	33791											
ATP2A2	488	broad.mit.edu	37	chr12	110783130	110783130	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctttgaatccccataccCgatgacaatggcgctctctg	10	11	7	13	2	2	2	0	2	2	0	4	3	3	2	3	1	1	1	3	1	4	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr12:110783130C>A	uc001tqk.3	+	18	3247	c.2684C>A	c.(2683-2685)CCG>CAG	p.P895Q	ATP2A2_uc001tql.3_Missense_Mutation_p.P895Q|ATP2A2_uc010sxy.1_Missense_Mutation_p.P868Q|ATP2A2_uc001tqn.3_5'Flank|ATP2A2_uc009zvn.2_5'Flank	NM_170665	NP_733765	P16615	AT2A2_HUMAN	ATPase, Ca++ transporting, slow twitch 2 isoform	895	Lumenal (By similarity).				ATP biosynthetic process|cell adhesion|epidermis development|platelet activation|sarcoplasmic reticulum calcium ion transport	integral to plasma membrane|microsome|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|protein C-terminus binding|S100 alpha binding			ovary(3)|skin(1)	4						TCCCCATACCCGATGACAATG	0.473													4	147					0.000602214	0.00105187	0.000602	1	0		A	110783130	A	A	110783130	3	1	42	1	0	0	0	0	1	0	0	0	1138	652	23	5	2754	5	ATP2A2	12	110783130	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08	55924195	110783130	23068765	31	33792											
DDX54	79039	broad.mit.edu	37	chr12	113603453	113603453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccggccccactcaccgccCgggagcggtagttctttatg	6	8	11	16	4	2	0	1	0	1	0	2	1	2	1	5	3	1	2	5	3	2	4	rs58401684	byFrequency	TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr12:113603453C>T	uc001tup.2	-	14	1743	c.1715G>A	c.(1714-1716)CGG>CAG	p.R572Q	DDX54_uc001tuq.3_Missense_Mutation_p.R572Q	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	572					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						ACTCACCGCCCGGGAGCGGTA	0.468													3	19					0	0	0.000602	0	0		T	113603453	T	T	113603453	3	4	42	1	0	0	0	0	1	0	0	0	4375	652	23	1	961	1	DDX54	12	113603453	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08	2820323	113603453	20248442	32	33793											
FBXL3	26224	broad.mit.edu	37	chr13	77595766	77595766	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagttcaaattcaaaacatCtccacaagtcaggcatgtga	15	10	6	10	0	5	1	4	1	1	0	6	1	5	1	1	1	1	2	1	1	4	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr13:77595766C>A	uc001vkd.2	-	2	601	c.230G>T	c.(229-231)AGA>ATA	p.R77I		NM_012158	NP_036290	Q9UKT7	FBXL3_HUMAN	F-box and leucine-rich repeat protein 3	77	F-box.				regulation of circadian rhythm|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.218)		GBM - Glioblastoma multiforme(99;0.0521)		TTCAAAACATCTCCACAAGTC	0.393													8	183					0.000442599	0.000794254	0.006214	1	0		A	77595766	A	A	77595766	3	1	42	1	0	0	0	0	1	0	0	0	5734	913	32	5	1072	5	FBXL3	13	77595766	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08		77595766	37574112	33	33794											
CEBPE	1053	broad.mit.edu	37	chr14	23587828	23587828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggccgggtgctgccagaGttgggggcaggtgcatggct	4	8	20	9	1	0	1	0	0	0	1	0	1	0	1	2	6	3	6	2	6	0	1			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr14:23587828G>A	uc001wiv.1	-	1	647	c.473C>T	c.(472-474)ACT>ATT	p.T158I		NM_001805	NP_001796	Q15744	CEBPE_HUMAN	CCAAT/enhancer binding protein epsilon	158						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	all_cancers(95;4.6e-05)			GBM - Glioblastoma multiforme(265;0.0064)		TGCTGCCAGAGTTGGGGGCAG	0.682													26	10					0	0	0.009535	0	0		A	23587828	A	A	23587828	3	1	42	1	0	0	0	0	1	0	0	0	3205	1029	36	4	380	4	CEBPE	14	23587828	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08		23587828	83761712	34	33795											
FOXG1	2290	broad.mit.edu	37	chr14	29237757	29237757	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccccacgtcccgcacccGtcaatgacttcgcagagcag	8	7	8	18	4	1	2	1	1	0	1	4	2	3	2	4	0	1	3	4	0	1	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr14:29237757G>A	uc001wqe.2	+	1	1471	c.1272G>A	c.(1270-1272)CCG>CCA	p.P424P		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	424					axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		TCCCGCACCCGTCAATGACTT	0.657													27	23					0	0	0.00632	0	0		A	29237757	A	A	29237757	2	1	42	1	0	0	0	0	0	0	0	1	6021	1132	40	1		1	FOXG1	14	29237757	Silent	SNP	G	TCGA-BR-6801-01A-11D-1882-08	5649929	29237757	78111783	35	33796											
SIPA1L1	26037	broad.mit.edu	37	chr14	72055091	72055091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcccccagaaaagctcttCgcagaatacgccagcgaagc	12	5	9	15	3	1	2	0	0	1	2	3	3	2	2	3	0	4	3	3	0	5	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr14:72055091C>T	uc001xms.2	+	2	850	c.502C>T	c.(502-504)CGC>TGC	p.R168C	SIPA1L1_uc001xmt.2_Missense_Mutation_p.R168C|SIPA1L1_uc001xmu.2_Missense_Mutation_p.R168C|SIPA1L1_uc001xmv.2_Missense_Mutation_p.R168C	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	168					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		AAAAGCTCTTCGCAGAATACG	0.468													34	24					0	0	0.012213	0	0		T	72055091	T	T	72055091	3	4	42	1	0	0	0	0	1	0	0	0	14354	884	31	1	504	1	SIPA1L1	14	72055091	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08	42817334	72055091	35294449	36	33797											
DUOX1	53905	broad.mit.edu	37	chr15	45433241	45433241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggctacgggatggtgaccGctactggtttgagaacacca	9	8	14	10	3	0	2	0	2	0	1	0	4	0	3	2	4	3	3	2	4	3	3			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr15:45433241G>A	uc001zus.1	+	14	1884	c.1538G>A	c.(1537-1539)CGC>CAC	p.R513H	DUOX1_uc001zut.1_Missense_Mutation_p.R513H|DUOX1_uc010bee.1_5'UTR	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	513	Peroxidase-like; mediates peroxidase activity.|Extracellular (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		GATGGTGACCGCTACTGGTTT	0.617													75	70					0	0	0.01441	0	0		A	45433241	A	A	45433241	3	1	42	1	0	0	0	0	1	0	0	0	4806	1087	38	1	1584	1	DUOX1	15	45433241	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08		45433241	57098151	37	33798											
ATP8B4	79895	broad.mit.edu	37	chr15	50189583	50189583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcataagaatttgcacattCggaaataagaccaccttcca	16	9	6	10	1	0	2	0	0	0	2	2	3	1	3	3	1	2	2	3	1	4	5			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr15:50189583C>T	uc001zxu.2	-	23	2745	c.2603G>A	c.(2602-2604)CGA>CAA	p.R868Q	ATP8B4_uc010ber.2_Missense_Mutation_p.R741Q|ATP8B4_uc010ufd.1_Missense_Mutation_p.R678Q|ATP8B4_uc010ufe.1_RNA|ATP8B4_uc001zxv.1_Missense_Mutation_p.R166Q	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	868	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		TTTGCACATTCGGAAATAAGA	0.403													161	116					0	0	0.01441	0	0		T	50189583	T	T	50189583	3	4	42	1	0	0	0	0	1	0	0	0	1198	884	31	1	999	1	ATP8B4	15	50189583	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08	4756342	50189583	52341809	38	33799											
VPS13C	54832	broad.mit.edu	37	chr15	62237921	62237921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttaaaaacttaccaaaagaGacatgaagaatttatgaaca	21	10	5	5	0	0	4	0	2	0	2	0	5	0	4	1	0	3	0	1	0	10	5			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr15:62237921G>A	uc002agz.2	-	45	5215	c.5141C>T	c.(5140-5142)TCT>TTT	p.S1714F	VPS13C_uc002aha.2_Missense_Mutation_p.S1671F|VPS13C_uc002ahb.1_Missense_Mutation_p.S1714F|VPS13C_uc002ahc.1_Missense_Mutation_p.S1671F	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	1714					protein localization					ovary(2)	2						TACCAAAAGAGACATGAAGAA	0.323													50	50					0	0	0.01441	0	0		A	62237921	A	A	62237921	3	1	42	1	0	0	0	0	1	0	0	0	17217	942	33	4	6312	4	VPS13C	15	62237921	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08	12048338	62237921	40293471	39	33800											
IGDCC3	9543	broad.mit.edu	37	chr15	65621886	65621886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agggtccctctggctccgggGaccctgtggaggggacagct	5	7	17	12	1	1	0	0	0	1	0	3	3	3	3	3	7	1	2	3	7	0	0			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr15:65621886G>A	uc002aos.2	-	13	2299	c.2047C>T	c.(2047-2049)CCC>TCC	p.P683S	IGDCC3_uc002aor.1_5'UTR	NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	683	Cytoplasmic (Potential).									ovary(3)	3						TGGCTCCGGGGACCCTGTGGA	0.597													8	96					0	0	0.004482	0	0		A	65621886	A	A	65621886	3	1	42	1	0	0	0	0	1	0	0	0	7584	1174	41	4	405	4	IGDCC3	15	65621886	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08	3383965	65621886	36909506	40	33801											
ISLR2	57611	broad.mit.edu	37	chr15	74425927	74425927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggcaacttcagatccccGgtggcaccgtagtcttagag	10	9	11	11	2	2	2	1	0	1	2	3	2	3	2	3	3	1	3	3	3	4	3			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr15:74425927G>A	uc002axd.2	+	4	1601	c.832G>A	c.(832-834)GGT>AGT	p.G278S	ISLR2_uc002axe.2_Missense_Mutation_p.G278S|ISLR2_uc010bjg.2_Missense_Mutation_p.G278S|ISLR2_uc010bjf.2_Missense_Mutation_p.G278S	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	278	Ig-like.|Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						TCAGATCCCCGGTGGCACCGT	0.468													30	22					0	0	0.012213	0	0		A	74425927	A	A	74425927	3	1	42	1	0	0	0	0	1	0	0	0	7875	1116	39	1	834	1	ISLR2	15	74425927	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08	8804041	74425927	28105465	41	33802											
DNAJA2	10294	broad.mit.edu	37	chr16	47005450	47005450	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actcacgcttctcaggatttGatagtacttcatatgcaaaa	13	13	6	9	1	3	1	3	1	1	0	4	2	3	2	0	1	2	3	0	1	5	6			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr16:47005450G>C	uc002eeo.2	-	3	315	c.173C>G	c.(172-174)TCA>TGA	p.S58*	DNAJA2_uc002eep.2_Translation_Start_Site	NM_005880	NP_005871	O60884	DNJA2_HUMAN	DnaJ subfamily A member 2	58	J.				positive regulation of cell proliferation|protein folding|response to heat	membrane	ATP binding|heat shock protein binding|metal ion binding|unfolded protein binding			lung(1)	1		all_cancers(37;0.00125)|all_lung(18;0.00338)|all_epithelial(9;0.00358)|Lung NSC(13;0.0309)|Breast(268;0.116)				CTCAGGATTTGATAGTACTTC	0.383													12	159					0	0	0.00245	0	0		C	47005450	C	C	47005450	4	2	42	1	0	0	0	0	0	1	0	0	4618	1294	45	5	1093	5	DNAJA2	16	47005450	Nonsense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08		47005450	43349303	42	33803											
SPG7	6687	broad.mit.edu	37	chr16	89611154	89611154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccgactggaccggcacGtcttcattgatctccccacg	7	8	10	16	4	3	1	1	1	2	0	4	3	3	2	4	3	0	1	4	3	0	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr16:89611154G>A	uc002fnj.2	+	10	1444	c.1423G>A	c.(1423-1425)GTC>ATC	p.V475I	SPG7_uc002fnk.1_RNA	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1	475	Mitochondrial matrix (Potential).				cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		GGACCGGCACGTCTTCATTGA	0.627													61	38					0	0	0.01441	0	0		A	89611154	A	A	89611154	3	1	42	1	0	0	0	0	1	0	0	0	15069	1145	40	1	1611	1	SPG7	16	89611154	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08	42605704	89611154	743599	43	33804											
PELP1	27043	broad.mit.edu	37	chr17	4576196	4576196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggaggtccagggcgtgccGagggcacagggcctgctgag	6	5	20	10	2	0	1	0	1	0	0	1	3	1	2	3	5	2	2	3	5	0	0			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr17:4576196G>A	uc002fyi.3	-	16	2316	c.2090C>T	c.(2089-2091)TCG>TTG	p.S697L	PELP1_uc010vsf.1_Missense_Mutation_p.S550L	NM_014389	NP_055204	Q8IZL8	PELP1_HUMAN	proline, glutamic acid and leucine rich protein	697	Pro-rich.				transcription, DNA-dependent	cytoplasm|MLL1 complex	protein binding			ovary(1)|central_nervous_system(1)	2						AGGGCGTGCCGAGGGCACAGG	0.677													33	32					0	0	0.012213	0	0		A	4576196	A	A	4576196	3	1	42	1	0	0	0	0	1	0	0	0	11744	1059	37	1	1310	1	PELP1	17	4576196	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08		4576196	76619014	44	33805											
TRIM16	10626	broad.mit.edu	37	chr17	15539380	15539380	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacagtgttgctgatggcCgccatcctctccagctcctg	5	11	11	14	1	1	1	0	1	1	0	4	2	3	2	5	2	2	3	5	2	0	1			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr17:15539380C>T	uc002gox.2	-	6	1376	c.819G>A	c.(817-819)GCG>GCA	p.A273A	TRIM16_uc002gor.1_Silent_p.A273A|TRIM16_uc002gow.2_Silent_p.A57A|TRIM16_uc002goy.2_Silent_p.A143A	NM_006470	NP_006461	O95361	TRI16_HUMAN	tripartite motif-containing 16	273	Potential.				histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		TGCTGATGGCCGCCATCCTCT	0.607													23	19					0	0	0.007835	0	0		T	15539380	T	T	15539380	2	4	42	1	0	0	0	0	0	0	0	1	16517	639	23	1		1	TRIM16	17	15539380	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08	10963184	15539380	65655830	45	33806											
TRIM16L	147166	broad.mit.edu	37	chr17	18631041	18631041	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggagctggagacgatggcGgccatcagcaacactgtcca	11	5	13	12	2	1	1	1	0	0	1	2	4	2	2	2	4	3	2	2	4	1	0	rs146869541	byFrequency	TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr17:18631041G>A	uc002gug.1	+	7	858	c.171G>A	c.(169-171)GCG>GCA	p.A57A	TRIM16L_uc010vyf.1_Silent_p.A111A|TRIM16L_uc002guh.1_Silent_p.A57A|TRIM16L_uc010cqg.1_Silent_p.A159A|TRIM16L_uc002gui.1_Silent_p.A57A|TRIM16L_uc010vyg.1_Silent_p.A57A|TRIM16L_uc010vyh.1_Silent_p.A57A	NM_001037330	NP_001032407	Q309B1	TR16L_HUMAN	tripartite motif-containing 16-like	57						cytoplasm					0						AGACGATGGCGGCCATCAGCA	0.592													8	124					0	0	0.00333	0	0		A	18631041	A	A	18631041	2	1	42	1	0	0	0	0	0	0	0	1	16518	1103	39	1		1	TRIM16L	17	18631041	Silent	SNP	G	TCGA-BR-6801-01A-11D-1882-08	3091661	18631041	62564169	46	33807											
NPEPPS	9520	broad.mit.edu	37	chr17	45668182	45668182	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtatgatatttggactcagTttgtttctgctgattacacc	9	17	8	7	0	2	2	1	2	1	0	2	3	2	3	1	1	2	4	1	1	3	6			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr17:45668182T>C	uc002ilr.3	+	10	1418	c.1195T>C	c.(1195-1197)TTT>CTT	p.F399L	NPEPPS_uc010wkt.1_Missense_Mutation_p.F395L|NPEPPS_uc010wku.1_Missense_Mutation_p.F363L|NPEPPS_uc010wkv.1_5'UTR	NM_006310	NP_006301	P55786	PSA_HUMAN	aminopeptidase puromycin sensitive	399					proteolysis	cytosol|nucleus	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0						TTGGACTCAGTTTGTTTCTGC	0.438													23	130					0	0	0.004878	0	0		C	45668182	C	C	45668182	3	2	42	1	0	0	0	0	1	0	0	0	10594	1725	60	3	1233	3	NPEPPS	17	45668182	Missense_Mutation	SNP	T	TCGA-BR-6801-01A-11D-1882-08	27037141	45668182	35527028	47	33808											
DNAH17	8632	broad.mit.edu	37	chr17	76457765	76457765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctcagcctcctgaatcGccaacttggctttcaaatca	10	11	7	13	1	3	2	3	2	0	0	5	2	4	2	3	1	3	2	3	1	3	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr17:76457765G>A	uc010dhp.1	-	3	422	c.200C>T	c.(199-201)GCG>GTG	p.A67V	DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			CTCCTGAATCGCCAACTTGGC	0.577													26	17					0	0	0.010818	0	0		A	76457765	A	A	76457765	3	1	42	1	0	0	0	0	1	0	0	0	4607	1087	38	1	4284	1	DNAH17	17	76457765	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08	30789583	76457765	4737445	48	33809											
LAMA1	284217	broad.mit.edu	37	chr18	6974963	6974963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtctggaaactccaagcGtgtggacccggagcccaggt	11	6	13	11	2	1	0	0	0	1	0	2	3	2	3	3	4	3	0	3	4	3	0			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr18:6974963G>A	uc002knm.2	-	46	6656	c.6562C>T	c.(6562-6564)CGC>TGC	p.R2188C	LAMA1_uc010wzj.1_Missense_Mutation_p.R1664C	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2188	Laminin G-like 1.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AACTCCAAGCGTGTGGACCCG	0.532													32	18					0	0	0.010818	0	0		A	6974963	A	A	6974963	3	1	42	1	0	0	0	0	1	0	0	0	8621	1145	40	1	2737	1	LAMA1	18	6974963	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08		6974963	71102285	49	33810											
FBN3	84467	broad.mit.edu	37	chr19	8156417	8156417	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactggaagctcccagggCtgttggtacaggtgccaaag	9	7	15	10	0	0	0	0	0	0	0	1	1	1	1	2	5	3	5	2	5	3	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr19:8156417C>G	uc002mjf.2	-	47	5984	c.5963G>C	c.(5962-5964)AGC>ACC	p.S1988T	FBN3_uc002mje.2_5'Flank	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1988	EGF-like 32; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GCTCCCAGGGCTGTTGGTACA	0.592													3	106					0	0	0.004672	0	0		G	8156417	G	G	8156417	3	3	42	1	0	0	0	0	1	0	0	0	5718	797	28	5	2534	5	FBN3	19	8156417	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08		8156417	50972566	50	33811											
C19orf57	79173	broad.mit.edu	37	chr19	14000238	14000238	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagcacaacagaggcttgCggggacacacggaacccctc	11	4	11	15	2	0	1	0	0	0	1	2	3	1	3	3	4	4	2	3	4	2	1			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr19:14000238C>T	uc002mxl.1	-	6	1490	c.1431G>A	c.(1429-1431)CCG>CCA	p.P477P	C19orf57_uc002mxk.1_Silent_p.P359P|C19orf57_uc002mxm.1_Intron	NM_024323	NP_077299	Q0VDD7	CS057_HUMAN	hypothetical protein LOC79173	477					multicellular organismal development		protein binding			ovary(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			CAGAGGCTTGCGGGGACACAC	0.597													63	44					0	0	0.01441	0	0		T	14000238	T	T	14000238	2	4	42	1	0	0	0	0	0	0	0	1	1942	755	27	1		1	C19orf57	19	14000238	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08	5843821	14000238	45128745	51	33812											
PTPRH	5794	broad.mit.edu	37	chr19	55697282	55697282	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctccatcacttcctcacctAccagggttacccgcaggtgc	7	10	7	17	1	3	0	2	0	1	0	5	0	4	0	5	2	3	2	5	2	2	3			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr19:55697282A>G	uc002qjq.2	-	17	2922	c.2849T>C	c.(2848-2850)GTA>GCA	p.V950A	PTPRH_uc010esv.2_Missense_Mutation_p.V772A	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	950	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		TTCCTCACCTACCAGGGTTAC	0.627													48	63					0	0	0.01441	0	0		G	55697282	G	G	55697282	3	3	42	1	0	0	0	0	1	0	0	0	12828	391	14	3	514	3	PTPRH	19	55697282	Missense_Mutation	SNP	A	TCGA-BR-6801-01A-11D-1882-08	41697044	55697282	3431701	52	33813											
FIZ1	84922	broad.mit.edu	37	chr19	56108964	56108964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcagcaggccggtggagtCgcggaaccccttggggcagg	6	5	19	11	3	0	0	0	0	0	0	1	2	0	2	3	7	3	3	3	7	1	1			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr19:56108964C>T	uc002qli.3	-	2	358	c.268G>A	c.(268-270)GAC>AAC	p.D90N	FIZ1_uc002qlj.3_Missense_Mutation_p.D90N|ZNF524_uc002qlk.1_5'Flank	NM_032836	NP_116225	Q96SL8	FIZ1_HUMAN	FLT3-interacting zinc finger 1	90	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein kinase binding|receptor binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		CCGGTGGAGTCGCGGAACCCC	0.682													6	28					0	0	0.001984	0	0		T	56108964	T	T	56108964	3	4	42	1	0	0	0	0	1	0	0	0	5914	884	31	1	1230	1	FIZ1	19	56108964	Missense_Mutation	SNP	C	TCGA-BR-6801-01A-11D-1882-08	411682	56108964	3020019	53	33814											
ZNF470	388566	broad.mit.edu	37	chr19	57088681	57088681	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgggaaagccttcagccAgaatgctcatcttgttcaac	11	11	9	10	0	4	1	3	0	1	1	4	2	4	2	2	1	4	2	2	1	3	3			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr19:57088681A>G	uc002qnl.3	+	6	1560	c.884A>G	c.(883-885)CAG>CGG	p.Q295R	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	295	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		GCCTTCAGCCAGAATGCTCAT	0.448													41	40					0	0	0.007835	0	0		G	57088681	G	G	57088681	3	3	42	1	0	0	0	0	1	0	0	0	17954	188	7	3	898	3	ZNF470	19	57088681	Missense_Mutation	SNP	A	TCGA-BR-6801-01A-11D-1882-08	979717	57088681	2040302	54	33815											
SERINC3	10955	broad.mit.edu	37	chr20	43135528	43135528	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caaaggatcaggttaatactGatgaagaacttgttttctgt	13	14	9	5	0	2	3	1	2	1	1	2	4	2	4	0	2	2	2	0	2	5	5			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr20:43135528G>C	uc002xme.2	-	6	857	c.723C>G	c.(721-723)ATC>ATG	p.I241M	SERINC3_uc002xmf.1_Missense_Mutation_p.I241M|SERINC3_uc010ggs.1_Missense_Mutation_p.I234M|SERINC3_uc010zwp.1_Missense_Mutation_p.I186M	NM_198941	NP_945179	Q13530	SERC3_HUMAN	tumor differentially expressed protein 1	241	Helical; (Potential).					integral to membrane|plasma membrane	protein binding			skin(3)	3		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.000291)|COAD - Colon adenocarcinoma(18;0.00189)			GGTTAATACTGATGAAGAACT	0.393													24	55					0	0	0.003954	0	0		C	43135528	C	C	43135528	3	2	42	1	0	0	0	0	1	0	0	0	14106	1280	45	5	718	5	SERINC3	20	43135528	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08		43135528	19889992	55	33816											
BCAS1	8537	broad.mit.edu	37	chr20	52645436	52645436	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattctttccgttggcatccGcaacagcacttatctccgtt	7	14	7	13	3	2	0	0	0	2	0	5	1	4	0	3	1	2	5	3	1	2	5			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr20:52645436G>T	uc002xws.2	-	4	556	c.218C>A	c.(217-219)GCG>GAG	p.A73E	BCAS1_uc010zzb.1_5'UTR|BCAS1_uc010gim.2_5'UTR|BCAS1_uc002xwt.2_Missense_Mutation_p.A73E|BCAS1_uc010gil.1_Missense_Mutation_p.A73E|BCAS1_uc010zzc.1_5'UTR	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	73						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			GTTGGCATCCGCAACAGCACT	0.493													28	46					1.39806e-14	2.61636e-14	0.008361	1	0		T	52645436	T	T	52645436	3	4	42	1	0	0	0	0	1	0	0	0	1351	1087	38	5	1572	5	BCAS1	20	52645436	Missense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08	9509908	52645436	10380084	56	33817											
ZNF831	128611	broad.mit.edu	37	chr20	57767259	57767259	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcccggggcgcgagaagcCggcctggagctggagaagaa	10	2	19	10	4	0	3	0	0	0	3	0	7	0	4	3	5	3	1	3	5	3	0			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr20:57767259C>T	uc002yan.2	+	1	1185	c.1185C>T	c.(1183-1185)GCC>GCT	p.A395A		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	395	Potential.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					cgcgAGAAGCCGGCCTGGAGC	0.502													4	15					0	0	0.000602	0	0		T	57767259	T	T	57767259	2	4	42	1	0	0	0	0	0	0	0	1	18210	639	23	1		1	ZNF831	20	57767259	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08	5121823	57767259	5258261	57	33818											
TRIOBP	11078	broad.mit.edu	37	chr22	38130723	38130723	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgggccctgggggctggtgGggatgtggagagcccagcct	4	7	20	10	0	0	1	0	0	0	1	0	3	0	2	3	7	2	1	3	7	0	0			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr22:38130723G>A	uc003atr.2	+	9	4651	c.4380G>A	c.(4378-4380)TGG>TGA	p.W1460*	TRIOBP_uc003atu.2_Nonsense_Mutation_p.W1288*	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1460					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GGGGCTGGTGGGGATGTGGAG	0.687													8	6					0	0	0.00308	0	0		A	38130723	A	A	38130723	4	1	42	1	0	0	0	0	0	1	0	0	16579	1241	43	4	4406	4	TRIOBP	22	38130723	Nonsense_Mutation	SNP	G	TCGA-BR-6801-01A-11D-1882-08		38130723	13173843	58	33819											
XRCC6	2547	broad.mit.edu	37	chr22	42033616	42033616	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttacccttgcaacaggcatCttccttgacttgatgcacct	8	14	6	13	0	1	2	0	2	1	0	2	2	2	2	3	1	4	3	3	1	2	6			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chr22:42033616C>T	uc003bao.1	+	6	664	c.594C>T	c.(592-594)ATC>ATT	p.I198I	XRCC6_uc003bap.1_Silent_p.I157I|XRCC6_uc011apc.1_Silent_p.I148I|XRCC6_uc003baq.1_Silent_p.I198I|XRCC6_uc003bar.1_Silent_p.I198I|XRCC6_uc003bas.1_Silent_p.I148I	NM_001469	NP_001460	P12956	XRCC6_HUMAN	ATP-dependent DNA helicase II, 70 kDa subunit	198					DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5						CAACAGGCATCTTCCTTGACT	0.418								Direct_reversal_of_damage|NHEJ					9	7					0	0	0.008291	0	0		T	42033616	T	T	42033616	2	4	42	1	0	0	0	0	0	0	0	1	17483	903	32	4		4	XRCC6	22	42033616	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08	3902893	42033616	9270950	59	33820											
HCFC1	3054	broad.mit.edu	37	chrX	153225353	153225353	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcgggggcagcctggggCaggagcgtgatgcctacttg	5	7	20	9	2	0	1	0	1	0	0	0	2	0	2	2	6	5	2	2	6	1	2			TCGA-BR-6801-01A-11D-1882-08	TCGA-BR-6801-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	cee38c82-b415-4da9-adfe-664814ddbfd3	35f087a6-294f-42a2-a031-dc3109fe692d	g.chrX:153225353C>T	uc004fjp.2	-	8	1872	c.1344G>A	c.(1342-1344)CTG>CTA	p.L448L		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	448					cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CAGCCTGGGGCAGGAGCGTGA	0.672													65	20					0	0	0.01441	0	0		T	153225353	T	T	153225353	2	4	42	1	0	0	0	0	0	0	0	1	7007	697	25	2		2	HCFC1	23	153225353	Silent	SNP	C	TCGA-BR-6801-01A-11D-1882-08		153225353	2045207	60	33821											
AGRN	375790	broad.mit.edu	37	chr1	979010	979010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtggctttggcccagcccGtgtgtggctccgacgggcac	3	8	16	14	4	0	0	0	0	0	0	1	1	1	0	3	4	1	3	3	4	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:979010G>A	uc001ack.1	+	9	1746	c.1696G>A	c.(1696-1698)GTG>ATG	p.V566M		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	566	Kazal-like 6.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		GGCCCAGCCCGTGTGTGGCTC	0.692													16	74					0	0	0.00499	0	0		A	979010	A	A	979010	3	1	43	1	0	0	0	0	1	0	0	0	397	1145	40	1	1730	1	AGRN	1	979010	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08		979010	248271611	1	33822											
PER3	8863	broad.mit.edu	37	chr1	7887631	7887631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatgtccattcctgggggCgacagcctcttctgcgatat	6	11	11	13	2	2	0	0	0	2	0	4	2	4	0	4	2	2	0	4	2	1	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:7887631C>T	uc001aoo.2	+	17	2793	c.2618C>T	c.(2617-2619)GCG>GTG	p.A873V	PER3_uc009vmg.1_Missense_Mutation_p.A881V|PER3_uc009vmh.1_Missense_Mutation_p.A874V|PER3_uc001aop.2_Missense_Mutation_p.A881V|PER3_uc010nzw.1_Missense_Mutation_p.A562V	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	873	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		TTCCTGGGGGCGACAGCCTCT	0.527													25	268					0	0	0.00333	0	0		T	7887631	T	T	7887631	3	4	43	1	0	0	0	0	1	0	0	0	11750	768	27	1	2684	1	PER3	1	7887631	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	6908621	7887631	241362990	2	33823											
TNFRSF9	3604	broad.mit.edu	37	chr1	7995117	7995117	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtcacagaggatgctcccGgagagaggtcggctggagat	9	6	18	8	2	1	3	1	0	0	3	3	7	2	5	1	6	1	2	1	6	0	0	rs145966863	byFrequency	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:7995117G>A	uc001aot.2	-	6	628	c.500C>T	c.(499-501)CCG>CTG	p.P167L		NM_001561	NP_001552	Q07011	TNR9_HUMAN	tumor necrosis factor receptor superfamily,	167	Extracellular (Potential).				induction of apoptosis|negative regulation of cell proliferation	integral to plasma membrane	binding|receptor activity			large_intestine(1)|lung(1)|ovary(1)|skin(1)	4	Ovarian(185;0.0634)|all_lung(157;0.151)	all_epithelial(116;9.63e-21)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.000625)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.93e-71)|GBM - Glioblastoma multiforme(8;3.72e-37)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;7.71e-06)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000419)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00103)|READ - Rectum adenocarcinoma(331;0.0649)		GGATGCTCCCGGAGAGAGGTC	0.542													10	67					0	0	0.010729	0	0		A	7995117	A	A	7995117	3	1	43	1	0	0	0	0	1	0	0	0	16325	1116	39	1	279	1	TNFRSF9	1	7995117	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	107486	7995117	241255504	3	33824											
ARHGEF10L	55160	broad.mit.edu	37	chr1	17952451	17952451	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggaaccttgtctccaccagCgacggcaggtgtgcagccca	8	6	12	15	3	1	0	0	0	1	0	2	2	1	1	4	3	4	2	4	3	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:17952451C>T	uc001ban.2	+	14	1477	c.1318C>T	c.(1318-1320)CGA>TGA	p.R440*	ARHGEF10L_uc009vpe.1_Nonsense_Mutation_p.R401*|ARHGEF10L_uc001bao.2_Nonsense_Mutation_p.R401*|ARHGEF10L_uc001bap.2_Nonsense_Mutation_p.R401*|ARHGEF10L_uc010ocr.1_Nonsense_Mutation_p.R198*|ARHGEF10L_uc001baq.2_Nonsense_Mutation_p.R206*|ARHGEF10L_uc010ocs.1_Nonsense_Mutation_p.R218*|ARHGEF10L_uc001bar.2_Intron|ARHGEF10L_uc009vpf.2_RNA	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	440	DH.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		TCTCCACCAGCGACGGCAGGT	0.617													26	114					0	0	0.009535	0	0		T	17952451	T	T	17952451	4	4	43	1	0	0	0	0	0	1	0	0	895	782	27	1	1368	1	ARHGEF10L	1	17952451	Nonsense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	9957334	17952451	231298170	4	33825											
MRTO4	51154	broad.mit.edu	37	chr1	19583994	19583994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtctcctgttcaccaaccGcacaaaggaggaggtgaatg	11	7	13	10	1	2	1	1	1	1	0	3	3	2	3	3	4	1	2	3	4	3	1	rs114437725	byFrequency	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:19583994G>A	uc001bbs.2	+	5	575	c.320G>A	c.(319-321)CGC>CAC	p.R107H		NM_016183	NP_057267	Q9UKD2	MRT4_HUMAN	mRNA turnover 4 homolog	107					ribosome biogenesis	nuclear membrane|nucleolus					0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.87e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|GBM - Glioblastoma multiforme(114;0.00301)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		TTCACCAACCGCACAAAGGAG	0.488													5	204					0	0	0.001984	0	0		A	19583994	A	A	19583994	3	1	43	1	0	0	0	0	1	0	0	0	9870	1087	38	1	338	1	MRTO4	1	19583994	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1631543	19583994	229666627	5	33826											
HSPG2	3339	broad.mit.edu	37	chr1	22160079	22160079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcatgttgttctccaggCggctgtcaggtggcaggctg	5	11	15	10	1	3	0	2	0	1	0	4	0	3	0	1	5	1	6	1	5	0	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:22160079C>T	uc001bfj.2	-	79	10899	c.10859G>A	c.(10858-10860)CGC>CAC	p.R3620H	HSPG2_uc001bfi.2_5'Flank|HSPG2_uc009vqd.2_Missense_Mutation_p.R3621H	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3620	Ig-like C2-type 22.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GTTCTCCAGGCGGCTGTCAGG	0.637													4	54					0	0	0.001168	0	0		T	22160079	T	T	22160079	3	4	43	1	0	0	0	0	1	0	0	0	7446	768	27	1	2392	1	HSPG2	1	22160079	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2576085	22160079	227090542	6	33827											
ZBTB40	9923	broad.mit.edu	37	chr1	22848916	22848916	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaggagctcttccccacGccagccttgctgcaggttca	7	10	10	14	1	2	0	1	0	1	0	3	1	3	1	4	2	4	5	4	2	1	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:22848916G>A	uc001bft.2	+	17	3769	c.3258G>A	c.(3256-3258)ACG>ACA	p.T1086T	ZBTB40_uc001bfu.2_Silent_p.T1086T|ZBTB40_uc009vqi.1_Silent_p.T974T	NM_001083621	NP_001077090	Q9NUA8	ZBT40_HUMAN	zinc finger and BTB domain containing 40	1086	C2H2-type 10.				bone mineralization|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.86e-26)|Colorectal(126;8.55e-08)|COAD - Colon adenocarcinoma(152;4.1e-06)|GBM - Glioblastoma multiforme(114;1.39e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000712)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.216)		TCTTCCCCACGCCAGCCTTGC	0.403													53	229					0	0	0.01441	0	0		A	22848916	A	A	22848916	2	1	43	1	0	0	0	0	0	0	0	1	17567	1074	38	1		1	ZBTB40	1	22848916	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	688837	22848916	226401705	7	33828											
EXTL1	2134	broad.mit.edu	37	chr1	26360246	26360246	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatggtgggcttcctgacGtcgagccatttctgggacga	6	10	15	10	4	1	1	0	1	1	0	3	5	2	3	2	4	1	1	2	4	0	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:26360246G>A	uc001blf.2	+	9	2445	c.1578G>A	c.(1576-1578)ACG>ACA	p.T526T		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	526	Lumenal (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		GCTTCCTGACGTCGAGCCATT	0.582													24	103					0	0	0.003954	0	0		A	26360246	A	A	26360246	2	1	43	1	0	0	0	0	0	0	0	1	5333	1132	40	1		1	EXTL1	1	26360246	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3511330	26360246	222890375	8	33829											
CATSPER4	378807	broad.mit.edu	37	chr1	26524487	26524487	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtgcatggcggtggagccCctcgcccggatcatccgcgt	4	8	15	14	5	1	0	1	0	0	0	3	2	2	2	4	4	2	1	4	4	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:26524487C>A	uc010oez.1	+	5	597	c.597C>A	c.(595-597)CCC>CCA	p.P199P	CATSPER4_uc010oey.1_Silent_p.P21P|CATSPER4_uc009vsf.2_RNA	NM_198137	NP_937770	Q7RTX7	CTSR4_HUMAN	cation channel, sperm associated 4	199	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_cancers(24;2.05e-18)|Colorectal(325;0.000147)|Renal(390;0.00211)|all_lung(284;0.00218)|Lung NSC(340;0.00239)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-26)|Colorectal(126;1.34e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|BRCA - Breast invasive adenocarcinoma(304;0.000995)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00878)|READ - Rectum adenocarcinoma(331;0.0649)		CGGTGGAGCCCCTCGCCCGGA	0.637													34	144					5.8336e-16	6.57307e-16	0.003271	1	0		A	26524487	A	A	26524487	2	1	43	1	0	0	0	0	0	0	0	1	2693	610	22	5		5	CATSPER4	1	26524487	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	164241	26524487	222726134	9	33830											
ARID1A	8289	broad.mit.edu	37	chr1	27099008	27099008	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcgggatcaggatctatgCaggggccccagactccccag	9	5	13	14	1	2	1	1	0	1	1	3	3	3	3	4	4	2	1	4	4	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:27099008C>T	uc001bmv.1	+	13	3797	c.3424C>T	c.(3424-3426)CAG>TAG	p.Q1142*	ARID1A_uc001bmt.1_Nonsense_Mutation_p.Q1142*|ARID1A_uc001bmu.1_Nonsense_Mutation_p.Q1142*|ARID1A_uc001bmw.1_Nonsense_Mutation_p.Q759*|ARID1A_uc001bmx.1_5'UTR|ARID1A_uc009vsm.1_5'Flank|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1142					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		AGGATCTATGCAGGGGCCCCA	0.527			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								8	67					0	0	0.004482	0	0		T	27099008	T	T	27099008	4	4	43	1	0	0	0	0	0	1	0	0	913	711	25	2	3474	2	ARID1A	1	27099008	Nonsense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	574521	27099008	222151613	10	33831											
ARID1A	8289	broad.mit.edu	37	chr1	27106861	27106861	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgcgcttcctcagtgacCgaaagaacccggtgtgccgg	7	8	14	12	4	1	2	1	1	0	1	2	3	2	2	4	3	3	1	4	3	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:27106861C>T	uc001bmv.1	+	20	6845	c.6472C>T	c.(6472-6474)CGA>TGA	p.R2158*	ARID1A_uc001bmu.1_Nonsense_Mutation_p.R1941*|ARID1A_uc001bmx.1_Nonsense_Mutation_p.R1004*|ARID1A_uc009vsm.1_Nonsense_Mutation_p.R486*|ARID1A_uc009vsn.1_Nonsense_Mutation_p.R400*	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2158					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.R2158*(1)		ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CCTCAGTGACCGAAAGAACCC	0.597			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								14	111					0	0	0.003163	0	0		T	27106861	T	T	27106861	4	4	43	1	0	0	0	0	0	1	0	0	913	644	23	1	6550	1	ARID1A	1	27106861	Nonsense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	7853	27106861	222143760	11	33832											
FAM46B	115572	broad.mit.edu	37	chr1	27332693	27332693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagtgtcaccaggcaggcGtaacggcgggctgcatctgc	7	7	15	12	3	2	0	1	0	1	0	2	0	2	0	1	4	4	5	1	4	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:27332693G>A	uc010ofj.1	-	2	1192	c.1020C>T	c.(1018-1020)TAC>TAT	p.Y340Y		NM_052943	NP_443175	Q96A09	FA46B_HUMAN	hypothetical protein LOC115572	340										central_nervous_system(1)	1		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;7.71e-51)|OV - Ovarian serous cystadenocarcinoma(117;1.11e-29)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000272)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|STAD - Stomach adenocarcinoma(196;0.00114)|READ - Rectum adenocarcinoma(331;0.0419)		CCAGGCAGGCGTAACGGCGGG	0.662													10	19					0	0	0.013537	0	0		A	27332693	A	A	27332693	2	1	43	1	0	0	0	0	0	0	0	1	5580	1140	40	1		1	FAM46B	1	27332693	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	225832	27332693	221917928	12	33833											
TAF12	6883	broad.mit.edu	37	chr1	28948573	28948573	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggagaggttgattagggcTgaggggccaaactggttcat	9	11	16	5	0	1	3	1	2	0	1	1	4	1	3	1	6	1	3	1	6	2	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:28948573T>C	uc001bqw.2	-	1	114	c.21A>G	c.(19-21)TCA>TCG	p.S7S	TAF12_uc001bqx.2_Silent_p.S7S|TAF12_uc001bqy.2_Silent_p.S7S|TAF12_uc009vti.2_Silent_p.S7S	NM_005644	NP_005635	Q16514	TAF12_HUMAN	TAF12 RNA polymerase II, TATA box binding	7					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	PCAF complex|STAGA complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000451)|all_lung(284;0.00063)|Renal(390;0.00121)|Breast(348;0.00502)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)		Colorectal(126;3.21e-08)|COAD - Colon adenocarcinoma(152;1.74e-06)|STAD - Stomach adenocarcinoma(196;0.00303)|KIRC - Kidney renal clear cell carcinoma(1967;0.0109)|BRCA - Breast invasive adenocarcinoma(304;0.0228)|READ - Rectum adenocarcinoma(331;0.0649)		TGATTAGGGCTGAGGGGCCAA	0.493													18	126					0	0	0.007413	0	0		C	28948573	C	C	28948573	2	2	43	1	0	0	0	0	0	0	0	1	15541	1567	55	3		3	TAF12	1	28948573	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	1615880	28948573	220302048	13	33834											
NKAIN1	79570	broad.mit.edu	37	chr1	31655387	31655387	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttactcacagctgtcctcCtcctccaggaacactttgct	7	12	5	17	0	1	0	1	0	0	0	5	1	5	1	5	1	4	2	5	1	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:31655387C>A	uc010ogd.1	-	5	528	c.522G>T	c.(520-522)GAG>GAT	p.E174D	NKAIN1_uc001bsn.2_Missense_Mutation_p.E130D|NKAIN1_uc010ogc.1_Missense_Mutation_p.E103D	NM_024522	NP_078798	Q4KMZ8	NKAI1_HUMAN	Na+/K+ transporting ATPase interacting 1	174	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)|Breast(348;0.141)|all_neural(195;0.146)|Medulloblastoma(700;0.151)		STAD - Stomach adenocarcinoma(196;0.0184)|READ - Rectum adenocarcinoma(331;0.148)		AGCTGTCCTCCTCCTCCAGGA	0.632													13	84					0.000219431	0.000232126	0.00245	1	0		A	31655387	A	A	31655387	3	1	43	1	0	0	0	0	1	0	0	0	10454	680	24	5	113	5	NKAIN1	1	31655387	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2706814	31655387	217595234	14	33835											
RNF19B	127544	broad.mit.edu	37	chr1	33411121	33411121	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgactagcttaccaacacTaactgcagcaataactgggg	13	8	8	12	0	0	1	0	1	0	0	0	1	0	1	2	2	7	3	2	2	6	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:33411121T>C	uc010oho.1	-	5	1258	c.1258A>G	c.(1258-1260)AGT>GGT	p.S420G	RNF19B_uc001bwm.3_Missense_Mutation_p.S419G|RNF19B_uc010ohp.1_Missense_Mutation_p.S419G	NM_153341	NP_699172	Q6ZMZ0	RN19B_HUMAN	ring finger protein 19B isoform a	420	Helical; (Potential).					integral to membrane	ligase activity|protein binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				TTACCAACACTAACTGCAGCA	0.463													18	82					0	0	0.014323	0	0		C	33411121	C	C	33411121	3	2	43	1	0	0	0	0	1	0	0	0	13496	1522	53	3	986	3	RNF19B	1	33411121	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	1755734	33411121	215839500	15	33836											
CSMD2	114784	broad.mit.edu	37	chr1	34554619	34554619	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtggaccatcaaacacCgacaggacatcaaagtcctc	13	6	10	12	1	2	0	2	0	0	0	4	3	3	2	3	4	1	0	3	4	2	0	rs141030168		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:34554619C>T	uc001bxn.1	-	2	272	c.243G>A	c.(241-243)TCG>TCA	p.S81S	CSMD2_uc001bxm.1_Silent_p.S121S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	81	CUB 1.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CATCAAACACCGACAGGACAT	0.552													9	44					0	0	0.006214	0	0		T	34554619	T	T	34554619	2	4	43	1	0	0	0	0	0	0	0	1	3948	639	23	1		1	CSMD2	1	34554619	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1143498	34554619	214696002	16	33837											
CCDC30	728621	broad.mit.edu	37	chr1	43119565	43119565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaagtcaaaagaagcaatgGcaagttcaaagtcccctgaa	17	7	8	9	0	3	2	3	1	0	1	4	2	4	2	2	1	1	3	2	1	8	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:43119565G>A	uc009vwk.1	+	16	2328	c.2218G>A	c.(2218-2220)GCA>ACA	p.A740T	CCDC30_uc001chm.2_Missense_Mutation_p.A438T|CCDC30_uc001chn.2_Missense_Mutation_p.A529T	NM_001080850	NP_001074319	Q5VVM6	CCD30_HUMAN	coiled-coil domain containing 30	740											0						AGAAGCAATGGCAAGTTCAAA	0.413													10	55					0	0	0.008291	0	0		A	43119565	A	A	43119565	3	1	43	1	0	0	0	0	1	0	0	0	2808	1203	42	2	2276	2	CCDC30	1	43119565	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	8564946	43119565	206131056	17	33838											
IPO13	9670	broad.mit.edu	37	chr1	44426892	44426892	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcccccaattgaggccctcTtcctgctcgtcacctccgtc	4	12	6	19	2	2	1	1	1	1	0	7	1	5	1	6	1	1	1	6	1	1	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:44426892T>A	uc001ckx.2	+	14	3097	c.2302T>A	c.(2302-2304)TTC>ATC	p.F768I		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	768					protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				TGAGGCCCTCTTCCTGCTCGT	0.592													68	406					0	0	0.01441	0	0		A	44426892	A	A	44426892	3	1	43	1	0	0	0	0	1	0	0	0	7810	1609	56	5	2356	5	IPO13	1	44426892	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	1307327	44426892	204823729	18	33839											
CYP4Z1	199974	broad.mit.edu	37	chr1	47560306	47560306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatactactcagaaaaggCgctgggattttctggacata	14	10	10	7	1	2	2	1	0	1	2	2	4	2	4	0	3	2	1	0	3	6	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:47560306C>T	uc001cqu.1	+	7	844	c.841C>T	c.(841-843)CGC>TGC	p.R281C		NM_178134	NP_835235	Q86W10	CP4Z1_HUMAN	cytochrome P450 4Z1	281	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			skin(1)	1						TCAGAAAAGGCGCTGGGATTT	0.318													13	81					0	0	0.001855	0	0		T	47560306	T	T	47560306	3	4	43	1	0	0	0	0	1	0	0	0	4197	768	27	1	867	1	CYP4Z1	1	47560306	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	3133414	47560306	201690315	19	33840											
MYSM1	114803	broad.mit.edu	37	chr1	59132821	59132821	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaacagccaaggtttctgaGgcctgtgtttgtgatacagg	9	12	12	8	0	1	2	0	2	1	0	1	2	1	2	2	3	3	2	2	3	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:59132821G>T	uc009wab.1	-	16	1943	c.1920C>A	c.(1918-1920)GCC>GCA	p.A640A	MYSM1_uc009waa.1_Silent_p.A46A|MYSM1_uc001czc.2_RNA	NM_001085487	NP_001078956	Q5VVJ2	MYSM1_HUMAN	Myb-like, SWIRM and MPN domains 1	640	MPN.				histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin remodeling complex	DNA binding|histone binding|metal ion binding|metallopeptidase activity|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(1)	1	all_cancers(7;9.36e-06)					AGGTTTCTGAGGCCTGTGTTT	0.428													11	51					0.00010058	0.000106751	0.013537	1	0		T	59132821	T	T	59132821	2	4	43	1	0	0	0	0	0	0	0	1	10119	987	35	5		5	MYSM1	1	59132821	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	11572515	59132821	190117800	20	33841											
DNAJC6	9829	broad.mit.edu	37	chr1	65851439	65851439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggcagacaagccctaccGccctcacttcaagcctctca	10	7	6	18	1	3	1	3	0	1	1	4	1	3	1	4	1	3	1	4	1	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:65851439G>A	uc001dcd.1	+	7	838	c.674G>A	c.(673-675)CGC>CAC	p.R225H	DNAJC6_uc001dcc.1_Missense_Mutation_p.R256H|DNAJC6_uc010opc.1_Missense_Mutation_p.R212H|DNAJC6_uc001dce.1_Missense_Mutation_p.R282H	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	225					cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						AAGCCCTACCGCCCTCACTTC	0.488													12	83					0	0	0.00245	0	0		A	65851439	A	A	65851439	3	1	43	1	0	0	0	0	1	0	0	0	4659	1087	38	1	700	1	DNAJC6	1	65851439	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	6718618	65851439	183399182	21	33842											
WDR78	79819	broad.mit.edu	37	chr1	67313177	67313177	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaaataccttttaaaacAggaagctgacgataagctgc	15	12	7	7	1	0	1	0	1	0	0	0	3	0	2	1	1	5	2	1	1	7	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:67313177A>G	uc001dcx.2	-	8	1337	c.1281T>C	c.(1279-1281)CCT>CCC	p.P427P	WDR78_uc001dcy.2_Silent_p.P427P|WDR78_uc009waw.2_Silent_p.P173P|WDR78_uc009wax.2_RNA	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	427										ovary(2)	2						CTTTTAAAACAGGAAGCTGAC	0.204													9	48					0	0	0.006214	0	0		G	67313177	G	G	67313177	2	3	43	1	0	0	0	0	0	0	0	1	17354	175	7	3		3	WDR78	1	67313177	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	1461738	67313177	181937444	22	33843											
ABCA4	24	broad.mit.edu	37	chr1	94480241	94480241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacatcatgggaatgaccGcccatctgtgtgaaatgaga	12	9	12	8	1	2	3	1	3	1	1	2	5	2	4	2	2	1	1	2	2	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:94480241G>A	uc001dqh.2	-	38	5422	c.5318C>T	c.(5317-5319)GCG>GTG	p.A1773V	ABCA4_uc009wdp.1_Missense_Mutation_p.A41V	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1773	Helical; (Potential).				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		GGGAATGACCGCCCATCTGTG	0.478													25	140					0	0	0.00278	0	0		A	94480241	A	A	94480241	3	1	43	1	0	0	0	0	1	0	0	0	34	1087	38	1	1555	1	ABCA4	1	94480241	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	27167064	94480241	154770380	23	33844											
NTNG1	22854	broad.mit.edu	37	chr1	107867388	107867388	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgcaatatggcttccctctAcggacagctggatacaacca	12	8	8	13	2	1	0	0	0	1	0	2	2	2	2	2	3	4	3	2	3	5	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:107867388A>G	uc001dvh.3	+	3	1449	c.731A>G	c.(730-732)TAC>TGC	p.Y244C	NTNG1_uc001dvf.3_Missense_Mutation_p.Y244C|NTNG1_uc010out.1_Missense_Mutation_p.Y244C|NTNG1_uc001dvc.3_Missense_Mutation_p.Y244C|NTNG1_uc001dvd.1_Missense_Mutation_p.Y244C	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	244	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		GCTTCCCTCTACGGACAGCTG	0.428													16	73					0	0	0.004007	0	0		G	107867388	G	G	107867388	3	3	43	1	0	0	0	0	1	0	0	0	10723	391	14	3	737	3	NTNG1	1	107867388	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	13387147	107867388	141383233	24	33845											
VAV3	10451	broad.mit.edu	37	chr1	108417623	108417623	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtgagaaatgtccttatgTtcttcaaacagagaaactga	14	11	8	8	1	2	3	1	2	1	2	3	5	3	3	2	0	2	1	2	0	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:108417623T>C	uc001dvk.1	-	2	275	c.221A>G	c.(220-222)AAC>AGC	p.N74S	VAV3_uc010ouw.1_Missense_Mutation_p.N74S|VAV3_uc001dvl.1_5'UTR|VAV3_uc010oux.1_Missense_Mutation_p.N74S	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	74	CH.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		TGTCCTTATGTTCTTCAAACA	0.393													9	71					0	0	0.006214	0	0		C	108417623	C	C	108417623	3	2	43	1	0	0	0	0	1	0	0	0	17159	1725	60	3	2451	3	VAV3	1	108417623	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	550235	108417623	140832998	25	33846											
AMPD2	271	broad.mit.edu	37	chr1	110168017	110168017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacttcccgctcgacctgCgcacgtctatggatggcaaa	9	8	10	14	4	1	0	0	0	1	0	3	2	2	1	2	2	2	4	2	2	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:110168017C>T	uc009wfh.1	+	3	888	c.346C>T	c.(346-348)CGC>TGC	p.R116C	AMPD2_uc009wfg.1_RNA|AMPD2_uc001dyb.1_Missense_Mutation_p.R35C|AMPD2_uc001dyc.1_Missense_Mutation_p.R116C|AMPD2_uc010ovr.1_Intron|AMPD2_uc010ovs.1_5'UTR|AMPD2_uc001dyd.1_5'Flank	NM_004037	NP_004028	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2 (isoform L)	116					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|breast(1)	3		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		GCTCGACCTGCGCACGTCTAT	0.687													29	125					0	0	0.00632	0	0		T	110168017	T	T	110168017	3	4	43	1	0	0	0	0	1	0	0	0	586	768	27	1	366	1	AMPD2	1	110168017	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1750394	110168017	139082604	26	33847											
KCND3	3752	broad.mit.edu	37	chr1	112318756	112318756	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaggaatgttcgtgttgggGcctgggctggcagggggtgg	5	9	22	5	1	0	0	0	0	0	0	1	2	0	1	1	8	0	4	1	8	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:112318756G>A	uc001ebu.1	-	8	2391	c.1911C>T	c.(1909-1911)GGC>GGT	p.G637G	KCND3_uc001ebv.1_Silent_p.G618G	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	637	Cytoplasmic (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		TCGTGTTGGGGCCTGGGCTGG	0.582													23	99					0	0	0.007291	0	0		A	112318756	A	A	112318756	2	1	43	1	0	0	0	0	0	0	0	1	8036	1190	42	2		2	KCND3	1	112318756	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2150739	112318756	136931865	27	33848											
PTGFRN	5738	broad.mit.edu	37	chr1	117509774	117509774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcatcacgggtggatggCgttgttttagaaaaagtgca	11	11	14	5	2	1	1	1	0	0	1	1	3	1	2	0	3	2	4	0	3	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:117509774C>T	uc001egv.1	+	6	2018	c.1881C>T	c.(1879-1881)GGC>GGT	p.G627G		NM_020440	NP_065173	Q9P2B2	FPRP_HUMAN	prostaglandin F2 receptor negative regulator	627	Ig-like C2-type 5.|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	protein binding			liver(1)	1	Lung SC(450;0.225)	all_cancers(81;0.00104)|all_lung(203;8.97e-05)|all_epithelial(167;0.000139)|Lung NSC(69;0.000446)		Lung(183;0.0704)|LUSC - Lung squamous cell carcinoma(189;0.227)|Colorectal(144;0.248)		GGGTGGATGGCGTTGTTTTAG	0.522													16	192					0	0	0.010504	0	0		T	117509774	T	T	117509774	2	4	43	1	0	0	0	0	0	0	0	1	12773	755	27	1		1	PTGFRN	1	117509774	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	5191018	117509774	131740847	28	33849											
MAN1A2	10905	broad.mit.edu	37	chr1	117944904	117944904	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagtcaagagaggaaatTcgagcagaaattcagacaga	20	5	11	5	1	2	5	2	0	0	5	3	8	2	6	0	1	1	1	0	1	4	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:117944904T>C	uc001ehd.1	+	2	1120	c.399T>C	c.(397-399)ATT>ATC	p.I133I	MAN1A2_uc009whg.1_Intron	NM_006699	NP_006690	O60476	MA1A2_HUMAN	mannosidase, alpha, class 1A, member 2	133	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity				0	Lung SC(450;0.225)	all_cancers(81;7.9e-06)|all_epithelial(167;7.39e-07)|all_lung(203;2.84e-06)|Lung NSC(69;1.99e-05)		Lung(183;0.0688)|Kidney(133;0.114)|LUSC - Lung squamous cell carcinoma(189;0.223)|KIRC - Kidney renal clear cell carcinoma(1967;0.237)|Colorectal(144;0.243)		GAGAGGAAATTCGAGCAGAAA	0.398													9	70					0	0	0.004482	0	0		C	117944904	C	C	117944904	2	2	43	1	0	0	0	0	0	0	0	1	9229	1771	62	3		3	MAN1A2	1	117944904	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	435130	117944904	131305717	29	33850											
THEM4	117145	broad.mit.edu	37	chr1	151849482	151849482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccagcttcttacttgtcGcctctgagtatagggtcttc	7	14	9	11	1	3	2	0	1	3	1	5	2	3	2	2	1	2	2	2	1	3	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:151849482G>A	uc001ezj.1	-	5	856	c.677C>T	c.(676-678)GCG>GTG	p.A226V	THEM4_uc001ezk.1_RNA	NM_053055	NP_444283	Q5T1C6	THEM4_HUMAN	thioesterase superfamily member 4	226					insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|ruffle membrane					0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			CTTACTTGTCGCCTCTGAGTA	0.353													33	193					0	0	0.004878	0	0		A	151849482	A	A	151849482	3	1	43	1	0	0	0	0	1	0	0	0	15883	1087	38	1	53	1	THEM4	1	151849482	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	33904578	151849482	97401139	30	33851											
FLG	2312	broad.mit.edu	37	chr1	152283959	152283959	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgtccagtgctggtccTggtccgcccatgggcagact	4	11	12	14	2	1	1	0	0	1	1	5	1	4	1	4	3	1	2	4	3	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:152283959T>C	uc001ezu.1	-	3	3439	c.3403A>G	c.(3403-3405)AGG>GGG	p.R1135G	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1135	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTGCTGGTCCTGGTCCGCCCA	0.597									Ichthyosis				72	392					0	0	0.01441	0	0		C	152283959	C	C	152283959	3	2	43	1	0	0	0	0	1	0	0	0	5936	1579	55	3	8786	3	FLG	1	152283959	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	434477	152283959	96966662	31	33852											
FLG	2312	broad.mit.edu	37	chr1	152284170	152284170	+	Nonsense_Mutation	SNP	C	T	T																															gcctgactaccactggacccCcagtgtccactgtctctgac																										TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:152284170C>T	uc001ezu.1	-	3	3228	c.3192G>A	c.(3190-3192)TGG>TGA	p.W1064*	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1064	Filaggrin 6.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CACTGGACCCCCAGTGTCCAC	0.572									Ichthyosis				145	741					0	0	0.01441	0	0		T	152284170	T	T	152284170	4	4	43	1	0	0	0	0	0	1	0	0	5936	624	22	4	8997	4	FLG	1	152284170	Nonsense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	211	152284170	96966451	32	33853	69	2									
FLG	2312	broad.mit.edu	37	chr1	152284172	152284172	+	Missense_Mutation	SNP	A	G	G																															ctgactaccactggacccccAgtgtccactgtctctgactg																										TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:152284172A>G	uc001ezu.1	-	3	3226	c.3190T>C	c.(3190-3192)TGG>CGG	p.W1064R	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1064	Filaggrin 6.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGGACCCCCAGTGTCCACTG	0.572									Ichthyosis				144	733					0	0	0.01441	0	0		G	152284172	G	G	152284172	3	3	43	1	0	0	0	0	1	0	0	0	5936	188	7	3	8999	3	FLG	1	152284172	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	2	152284172	96966449	33	33854	69	2									
FCRL5	83416	broad.mit.edu	37	chr1	157497672	157497672	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accctgagggtgaggatgggGcgagacactggaactgagag	11	5	18	7	1	0	4	0	3	0	2	0	8	0	6	1	5	1	0	1	5	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:157497672G>A	uc001fqu.2	-	9	1853	c.1695C>T	c.(1693-1695)CGC>CGT	p.R565R	FCRL5_uc009wsm.2_Silent_p.R565R|FCRL5_uc010phv.1_Silent_p.R565R|FCRL5_uc010phw.1_Silent_p.R480R	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	565	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity	p.R565H(1)		ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				TGAGGATGGGGCGAGACACTG	0.458													15	100					0	0	0.004007	0	0		A	157497672	A	A	157497672	2	1	43	1	0	0	0	0	0	0	0	1	5812	1190	42	2		2	FCRL5	1	157497672	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	5213500	157497672	91752949	34	33855											
OR10Z1	128368	broad.mit.edu	37	chr1	158576516	158576516	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctatctcctatgtgggCtgtgctgcccagatgttctt	5	14	11	11	0	2	1	0	0	2	1	3	1	2	1	2	2	2	4	2	2	2	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:158576516C>T	uc010pio.1	+	1	288	c.288C>T	c.(286-288)GGC>GGT	p.G96G		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					CCTATGTGGGCTGTGCTGCCC	0.542													10	292					0	0	0.008291	0	0		T	158576516	T	T	158576516	2	4	43	1	0	0	0	0	0	0	0	1	10942	784	28	2		2	OR10Z1	1	158576516	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1078844	158576516	90674105	35	33856											
ADAMTS4	9507	broad.mit.edu	37	chr1	161163166	161163166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagcacactgctcctcgCggaaggtcagggctggaggg	8	5	17	11	2	1	0	1	0	0	0	3	2	2	2	1	6	2	4	1	6	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:161163166C>T	uc001fyt.3	-	7	2176	c.1748G>A	c.(1747-1749)CGC>CAC	p.R583H		NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	583	Cys-rich.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CTGCTCCTCGCGGAAGGTCAG	0.617													15	58					0	0	0.003163	0	0		T	161163166	T	T	161163166	3	4	43	1	0	0	0	0	1	0	0	0	268	768	27	1	777	1	ADAMTS4	1	161163166	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2586650	161163166	88087455	36	33857											
RASAL2	9462	broad.mit.edu	37	chr1	178411966	178411966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagacaatattttctggggcGaacattttgaattcttcagc	11	14	8	8	1	3	2	1	1	2	1	3	3	3	2	0	2	2	0	0	2	4	7			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:178411966G>A	uc001glr.2	+	6	765	c.640G>A	c.(640-642)GAA>AAA	p.E214K	RASAL2_uc001glq.2_Missense_Mutation_p.E362K	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	214	C2.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						TTTCTGGGGCGAACATTTTGA	0.383													11	94					0	0	0.008291	0	0		A	178411966	A	A	178411966	3	1	43	1	0	0	0	0	1	0	0	0	13089	1059	37	1	1131	1	RASAL2	1	178411966	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	17248800	178411966	70838655	37	33858											
QSOX1	5768	broad.mit.edu	37	chr1	180135652	180135652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggccctgtatctcgccGccctggactgtgctgaggag	4	8	15	14	3	1	1	0	1	1	0	2	3	1	3	4	4	1	2	4	4	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:180135652G>A	uc001gnz.2	+	2	367	c.292G>A	c.(292-294)GCC>ACC	p.A98T	QSOX1_uc001gny.2_Missense_Mutation_p.A98T|QSOX1_uc001goa.2_Missense_Mutation_p.A98T	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	98	Thioredoxin.				cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						GTATCTCGCCGCCCTGGACTG	0.597													22	104					0	0	0.004656	0	0		A	180135652	A	A	180135652	3	1	43	1	0	0	0	0	1	0	0	0	12908	1087	38	1	298	1	QSOX1	1	180135652	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1723686	180135652	69114969	38	33859											
PRG4	10216	broad.mit.edu	37	chr1	186280649	186280649	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcaaaggatttggaggActaactggacaaatagtggc	14	11	11	5	0	1	0	1	0	0	0	1	4	1	4	0	5	1	0	0	5	4	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:186280649A>T	uc001gru.3	+	10	3765	c.3714A>T	c.(3712-3714)GGA>GGT	p.G1238G	PRG4_uc001grt.3_Silent_p.G1197G|PRG4_uc009wyl.2_Silent_p.G1145G|PRG4_uc009wym.2_Silent_p.G1104G|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	1238	Hemopexin-like 2.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GATTTGGAGGACTAACTGGAC	0.358													13	134					0	0	0.001855	0	0		T	186280649	T	T	186280649	2	4	43	1	0	0	0	0	0	0	0	1	12503	262	10	5		5	PRG4	1	186280649	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	6144997	186280649	62969972	39	33860											
F13B	2165	broad.mit.edu	37	chr1	197009701	197009701	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taactgccctctgtcacattGcattctaagtatagatccag	11	13	6	11	0	3	1	1	0	2	1	4	1	4	1	2	0	3	2	2	0	4	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:197009701G>A	uc001gtt.1	-	11	1947	c.1903C>T	c.(1903-1905)CAA>TAA	p.Q635*		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	635	Sushi 10.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CTGTCACATTGCATTCTAAGT	0.308													11	75					0	0	0.013537	0	0		A	197009701	A	A	197009701	4	1	43	1	0	0	0	0	0	1	0	0	5349	1328	46	2	90	2	F13B	1	197009701	Nonsense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	10729052	197009701	52240920	40	33861											
PPFIA4	8497	broad.mit.edu	37	chr1	203026010	203026010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcatcaagtcgtccattgGccgcctgtttgggaagaagg	8	9	15	9	2	1	1	1	0	0	1	3	2	2	2	3	4	0	2	3	4	3	2	rs142427146	by1000genomes	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:203026010G>A	uc001gyz.2	+	6	1414	c.821G>A	c.(820-822)GGC>GAC	p.G274D	PPFIA4_uc009xaj.2_Missense_Mutation_p.G905D|PPFIA4_uc010pqf.1_Missense_Mutation_p.G487D|PPFIA4_uc001gza.2_Missense_Mutation_p.G274D|PPFIA4_uc001gzb.1_5'UTR	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	274					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						TCGTCCATTGGCCGCCTGTTT	0.622													8	76					0	0	0.006214	0	0		A	203026010	A	A	203026010	3	1	43	1	0	0	0	0	1	0	0	0	12331	1203	42	2	843	2	PPFIA4	1	203026010	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	6016309	203026010	46224611	41	33862											
ZC3H11A	9877	broad.mit.edu	37	chr1	203798733	203798733	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaatgttcctagccccacGcatccaccagttgtaattaa	13	10	6	12	1	0	0	0	0	0	0	2	1	2	0	5	0	1	4	5	0	5	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:203798733G>A	uc001hac.2	+	8	1069	c.453G>A	c.(451-453)ACG>ACA	p.T151T	ZC3H11A_uc001had.2_Silent_p.T151T|ZC3H11A_uc001hae.2_Silent_p.T151T|ZC3H11A_uc001haf.2_Silent_p.T151T|ZC3H11A_uc010pqm.1_Silent_p.T97T|ZC3H11A_uc001hag.1_Silent_p.T151T	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	151							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			CTAGCCCCACGCATCCACCAG	0.433													17	191					0	0	0.006122	0	0		A	203798733	A	A	203798733	2	1	43	1	0	0	0	0	0	0	0	1	17585	1074	38	1		1	ZC3H11A	1	203798733	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	772723	203798733	45451888	42	33863											
CR1	1378	broad.mit.edu	37	chr1	207737304	207737304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagtgttctacagctgtgagCccggctatgacctcagaggg	9	9	13	10	1	2	3	1	2	1	1	2	3	2	3	2	2	3	3	2	2	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:207737304C>T	uc001hfy.2	+	14	2472	c.2332C>T	c.(2332-2334)CCC>TCC	p.P778S	CR1_uc009xcl.1_Intron|CR1_uc001hfx.2_Missense_Mutation_p.P1228S|CR1_uc009xck.1_Intron	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	778	Sushi 12.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						CAGCTGTGAGCCCGGCTATGA	0.582													26	220					0	0	0.00632	0	0		T	207737304	T	T	207737304	3	4	43	1	0	0	0	0	1	0	0	0	3843	739	26	2	3768	2	CR1	1	207737304	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	3938571	207737304	41513317	43	33864											
SERTAD4	56256	broad.mit.edu	37	chr1	210415495	210415495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgacaccaacagagatggtgGccccctcagccacgaacctg	11	5	10	15	1	1	2	1	1	0	1	1	4	1	2	5	2	3	0	5	2	2	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:210415495G>A	uc001hhy.2	+	4	1063	c.884G>A	c.(883-885)GGC>GAC	p.G295D	SERTAD4_uc009xcw.2_Missense_Mutation_p.G295D	NM_019605	NP_062551	Q9NUC0	SRTD4_HUMAN	SERTA domain containing 4	295							protein binding			ovary(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0237)|all cancers(67;0.127)		AGAGATGGTGGCCCCCTCAGC	0.403													11	48					0	0	0.008291	0	0		A	210415495	A	A	210415495	3	1	43	1	0	0	0	0	1	0	0	0	14148	1203	42	2	894	2	SERTAD4	1	210415495	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2678191	210415495	38835126	44	33865											
DTL	51514	broad.mit.edu	37	chr1	212220516	212220516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggctcactggaatgccGtctttgacctggcctgggtt	5	12	14	10	1	2	1	1	1	1	0	2	3	2	3	3	5	1	2	3	5	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:212220516G>A	uc009xdc.2	+	4	615	c.301G>A	c.(301-303)GTC>ATC	p.V101I	DTL_uc010ptb.1_Missense_Mutation_p.V59I|DTL_uc001hiz.3_5'UTR	NM_016448	NP_057532	Q9NZJ0	DTL_HUMAN	denticleless homolog	101	WD 2.				DNA replication|G2/M transition DNA damage checkpoint|protein monoubiquitination|protein polyubiquitination|response to UV|translesion synthesis|ubiquitin-dependent protein catabolic process	centrosome|Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|nuclear membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00796)|all cancers(67;0.0385)|Epithelial(68;0.102)		CTGGAATGCCGTCTTTGACCT	0.353													5	100					0	0	0.001168	0	0		A	212220516	A	A	212220516	3	1	43	1	0	0	0	0	1	0	0	0	4793	1145	40	1	315	1	DTL	1	212220516	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1805021	212220516	37030105	45	33866											
RYR2	6262	broad.mit.edu	37	chr1	237608710	237608710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttcttacaggctattatgCatcatgaaggccacatggat	11	13	8	9	0	2	1	1	1	1	0	2	2	2	2	1	3	2	2	1	3	4	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:237608710C>T	uc001hyl.1	+	14	1300	c.1180C>T	c.(1180-1182)CAT>TAT	p.H394Y		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	394	Cytoplasmic (By similarity).|MIR 5.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GGCTATTATGCATCATGAAGG	0.443													5	138					0	0	0.000602	0	0		T	237608710	T	T	237608710	3	4	43	1	0	0	0	0	1	0	0	0	13794	710	25	2	1234	2	RYR2	1	237608710	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	25388194	237608710	11641911	46	33867											
RYR2	6262	broad.mit.edu	37	chr1	237804199	237804199	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaacattcatgaaagtgAcacagaggaggaggaagatg	17	7	13	4	0	1	5	1	3	0	2	1	8	1	8	0	3	1	0	0	3	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:237804199A>G	uc001hyl.1	+	47	7238	c.7118A>G	c.(7117-7119)GAC>GGC	p.D2373G		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2373	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CATGAAAGTGACACAGAGGAG	0.428													3	31					0	0	0.004672	0	0		G	237804199	G	G	237804199	3	3	43	1	0	0	0	0	1	0	0	0	13794	275	10	3	7304	3	RYR2	1	237804199	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	195489	237804199	11446422	47	33868											
OR2T12	127064	broad.mit.edu	37	chr1	248458331	248458331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgtcagcacaagccaaacGcaccaacacgggggcctcgc	12	3	11	15	3	1	0	1	0	0	0	2	0	1	0	3	2	4	2	3	2	3	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:248458331G>A	uc010pzj.1	-	1	550	c.550C>T	c.(550-552)CGT>TGT	p.R184C		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	184	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			CAAGCCAAACGCACCAACACG	0.552													17	135					0	0	0.006122	0	0		A	248458331	A	A	248458331	3	1	43	1	0	0	0	0	1	0	0	0	11038	1087	38	1	415	1	OR2T12	1	248458331	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	10654132	248458331	792290	48	33869											
OR2T34	127068	broad.mit.edu	37	chr1	248737709	248737709	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatggcagccaggaggaaaAcctcagctccagccagggtc	11	4	12	14	0	1	0	1	0	0	0	3	2	2	2	5	4	4	2	5	4	2	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr1:248737709A>C	uc001iep.1	-	1	350	c.350T>G	c.(349-351)GTT>GGT	p.V117G		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CAGGAGGAAAACCTCAGCTCC	0.567													7	25					0	0	0.004482	0	0		C	248737709	C	C	248737709	3	2	43	1	0	0	0	0	1	0	0	0	11044	43	2	5	610	5	OR2T34	1	248737709	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	279378	248737709	512912	49	33870											
PQLC3	130814	broad.mit.edu	37	chr2	11315100	11315100	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttttcttttacagcaagaaTaatcacaaccttaatgacca	15	13	4	9	0	2	2	1	1	1	1	2	2	2	2	2	0	3	2	2	0	6	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:11315100T>C	uc002rbc.2	+	6	615	c.482T>C	c.(481-483)ATA>ACA	p.I161T	PQLC3_uc010yjk.1_Intron	NM_152391	NP_689604	Q8N755	PQLC3_HUMAN	PQ loop repeat containing 3 precursor	161						integral to membrane					0	all_hematologic(175;0.0797)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.0978)|OV - Ovarian serous cystadenocarcinoma(76;0.132)		ACAGCAAGAATAATCACAACC	0.333													15	90					0	0	0.010504	0	0		C	11315100	C	C	11315100	3	2	43	1	0	0	0	0	1	0	0	0	12442	1406	49	3	504	3	PQLC3	2	11315100	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08		11315100	231884273	50	33871											
GREB1	9687	broad.mit.edu	37	chr2	11742628	11742628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctccccttgctcagatacGatagctcctttgaggccatg	7	11	9	14	1	1	2	1	1	0	1	3	3	3	2	5	1	3	2	5	1	2	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:11742628G>A	uc002rbk.1	+	17	2926	c.2626G>A	c.(2626-2628)GAT>AAT	p.D876N	GREB1_uc002rbo.1_Missense_Mutation_p.D510N	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	876						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GCTCAGATACGATAGCTCCTT	0.438													48	385					0	0	0.01441	0	0		A	11742628	A	A	11742628	3	1	43	1	0	0	0	0	1	0	0	0	6776	1058	37	1	2796	1	GREB1	2	11742628	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	427528	11742628	231456745	51	33872											
FBXO11	80204	broad.mit.edu	37	chr2	48046138	48046138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttctcagtactggagtgCtgccagttgtcacccagact	7	13	9	12	0	3	1	2	0	2	1	4	2	3	2	2	1	3	3	2	1	1	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:48046138C>T	uc010fbl.2	-	15	1739	c.1625G>A	c.(1624-1626)AGC>AAC	p.S542N	FBXO11_uc002rwe.2_Missense_Mutation_p.S542N|FBXO11_uc002rwf.2_Missense_Mutation_p.S542N|FBXO11_uc002rwg.1_Missense_Mutation_p.S542N|FBXO11_uc010fbk.2_Missense_Mutation_p.S50N	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	626	PbH1 11.				ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TACTGGAGTGCTGCCAGTTGT	0.428													17	139					0	0	0.008871	0	0		T	48046138	T	T	48046138	3	4	43	1	0	0	0	0	1	0	0	0	5741	797	28	2	1032	2	FBXO11	2	48046138	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	36303510	48046138	195153235	52	33873											
HSPC159	29094	broad.mit.edu	37	chr2	64683599	64683599	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attccagaccagccattcagGgtgagtacctcgagtgcctc	9	9	10	13	1	1	2	1	1	0	1	4	3	2	2	5	1	3	1	5	1	1	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:64683599G>T	uc002scy.3	+	4	728	c.375G>T	c.(373-375)AGG>AGT	p.R125S		NM_014181	NP_054900	Q3ZCW2	LEGL_HUMAN	galectin-related protein	125	Galectin.					intracellular	sugar binding				0						AGCCATTCAGGGTGAGTACCT	0.502													28	207					5.45727e-16	6.15988e-16	0.008361	1	0		T	64683599	T	T	64683599	3	4	43	1	0	0	0	0	1	0	0	0	7443	1246	43	5	389	5	HSPC159	2	64683599	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	16637461	64683599	178515774	53	33874											
ARHGAP25	9938	broad.mit.edu	37	chr2	69002356	69002356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgttcctctctatagctcGgtcaaggagtgtgatgactg	7	14	11	9	1	3	2	1	2	2	0	6	3	4	3	1	2	1	2	1	2	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:69002356G>A	uc002seu.2	+	2	429	c.65G>A	c.(64-66)CGG>CAG	p.R22Q	ARHGAP25_uc010yqk.1_5'UTR|ARHGAP25_uc010fdg.2_Missense_Mutation_p.R22Q|ARHGAP25_uc010yql.1_Missense_Mutation_p.R22Q|ARHGAP25_uc002sev.2_Missense_Mutation_p.R15Q|ARHGAP25_uc002sew.2_Missense_Mutation_p.R15Q|ARHGAP25_uc002sex.2_Missense_Mutation_p.R15Q|ARHGAP25_uc010fdh.1_RNA	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	22					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						TCTATAGCTCGGTCAAGGAGT	0.607													7	342					0	0	0.00308	0	0		A	69002356	A	A	69002356	3	1	43	1	0	0	0	0	1	0	0	0	874	1116	39	1	111	1	ARHGAP25	2	69002356	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	4318757	69002356	174197017	54	33875											
FBXO41	150726	broad.mit.edu	37	chr2	73491512	73491512	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcagcatgcagcagtgtgCgcgtgtccaggtaggtgaag	8	7	17	9	3	0	1	0	1	0	0	1	1	1	1	1	3	4	5	1	3	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:73491512C>A	uc002sjb.1	-	6	1883	c.1883G>T	c.(1882-1884)CGC>CTC	p.R628L		NM_001080410	NP_001073879	Q8TF61	FBX41_HUMAN	F-box protein 41	567						intracellular	protein binding|zinc ion binding			breast(2)|pancreas(1)	3						CAGCAGTGTGCGCGTGTCCAG	0.632													11	151					9.31168e-06	1.00159e-05	0.001855	1	0		A	73491512	A	A	73491512	3	1	43	1	0	0	0	0	1	0	0	0	5764	768	27	5	959	5	FBXO41	2	73491512	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4489156	73491512	169707861	55	33876											
MOGS	7841	broad.mit.edu	37	chr2	74689823	74689823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgctctctaaagccttcagCatggctctccagggcctggg	6	9	12	14	1	3	0	1	0	2	0	5	0	3	0	3	3	2	3	3	3	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:74689823C>T	uc010ffj.2	-	4	1256	c.1093G>A	c.(1093-1095)GCT>ACT	p.A365T	MOGS_uc010ffh.2_Missense_Mutation_p.A90T|MOGS_uc010yrt.1_Missense_Mutation_p.A246T|MOGS_uc010ffi.2_Missense_Mutation_p.A259T	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	365	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						AAGCCTTCAGCATGGCTCTCC	0.577													11	163					0	0	0.008291	0	0		T	74689823	T	T	74689823	3	4	43	1	0	0	0	0	1	0	0	0	9715	710	25	2	1424	2	MOGS	2	74689823	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1198311	74689823	168509550	56	33877											
HTRA2	27429	broad.mit.edu	37	chr2	74760069	74760069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgcagatccggcggggacGagaaacactgaccttatatg	12	7	13	9	3	0	3	0	1	0	2	1	5	1	4	2	3	2	1	2	3	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:74760069G>A	uc002smi.1	+	8	1936	c.1334G>A	c.(1333-1335)CGA>CAA	p.R445Q	HTRA2_uc002smj.1_Missense_Mutation_p.R348Q|HTRA2_uc002smk.1_Missense_Mutation_p.R423Q|HTRA2_uc002sml.1_Missense_Mutation_p.R413Q|HTRA2_uc002smm.1_Missense_Mutation_p.R186Q|HTRA2_uc002smn.1_Missense_Mutation_p.R186Q|LOXL3_uc002smo.1_3'UTR|LOXL3_uc010ffm.1_3'UTR|LOXL3_uc002smp.1_3'UTR|LOXL3_uc002smq.1_3'UTR	NM_013247	NP_037379	O43464	HTRA2_HUMAN	HtrA serine peptidase 2 isoform 1 preproprotein	445	PDZ.				apoptosis|proteolysis|response to stress	CD40 receptor complex|endoplasmic reticulum membrane|internal side of plasma membrane|mitochondrial intermembrane space|mitochondrial membrane|nucleus	serine-type endopeptidase activity|unfolded protein binding			ovary(1)	1						CGGCGGGGACGAGAAACACTG	0.493													23	149					0	0	0.003954	0	0		A	74760069	A	A	74760069	3	1	43	1	0	0	0	0	1	0	0	0	7470	1058	37	1	1364	1	HTRA2	2	74760069	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	70246	74760069	168439304	57	33878											
PROM2	150696	broad.mit.edu	37	chr2	95954315	95954315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagacctccaaatacttcCgtcctatccggaaacgcctc	11	9	5	16	3	1	1	1	0	0	1	6	2	5	2	6	1	2	0	6	1	5	3	rs35884217	byFrequency	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:95954315C>T	uc002suh.1	+	22	2552	c.2419C>T	c.(2419-2421)CGT>TGT	p.R807C	PROM2_uc002sui.2_Missense_Mutation_p.R807C|PROM2_uc002suj.2_Missense_Mutation_p.R461C|PROM2_uc002suk.2_Missense_Mutation_p.R807C|PROM2_uc002sul.2_Missense_Mutation_p.R333C|PROM2_uc002sum.2_RNA	NM_144707	NP_653308	Q8N271	PROM2_HUMAN	prominin 2 precursor	807	Cytoplasmic (Potential).					apical plasma membrane|basolateral plasma membrane|cilium membrane|integral to membrane|microvillus membrane				ovary(1)	1						CAAATACTTCCGTCCTATCCG	0.597													12	92					0	0	0.010729	0	0		T	95954315	T	T	95954315	3	4	43	1	0	0	0	0	1	0	0	0	12578	652	23	1	2505	1	PROM2	2	95954315	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	21194246	95954315	147245058	58	33879											
ANKRD36	375248	broad.mit.edu	37	chr2	97784159	97784159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaatattacggatttctttGgaaggactgctctgcactac	11	13	8	9	1	2	0	0	0	2	0	2	3	2	3	0	3	4	2	0	3	5	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:97784159G>A	uc010yva.1	+	3	635	c.391G>A	c.(391-393)GGA>AGA	p.G131R	ANKRD36_uc002sxn.2_Missense_Mutation_p.G131R|ANKRD36_uc010yuz.1_RNA|ANKRD36_uc010fic.2_5'UTR|ANKRD36_uc002sxo.2_Missense_Mutation_p.G131R|ANKRD36_uc002sxp.3_RNA	NM_001164315	NP_001157787	A6QL64	AN36A_HUMAN	ankyrin repeat domain 36	131	ANK 4.										0						GGATTTCTTTGGAAGGACTGC	0.413													10	91					0	0	0.010729	0	0		A	97784159	A	A	97784159	3	1	43	1	0	0	0	0	1	0	0	0	665	1349	47	4	401	4	ANKRD36	2	97784159	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1829844	97784159	145415214	59	33880											
GPR45	11250	broad.mit.edu	37	chr2	105858611	105858611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtcaccctcatcaccgtgcGctggcactttggggaccact	6	9	10	16	3	3	0	3	0	0	0	3	1	3	1	3	3	1	2	3	3	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:105858611G>A	uc002tco.1	+	1	412	c.296G>A	c.(295-297)CGC>CAC	p.R99H		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	99	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						ATCACCGTGCGCTGGCACTTT	0.632													9	159					0	0	0.008291	0	0		A	105858611	A	A	105858611	3	1	43	1	0	0	0	0	1	0	0	0	6711	1087	38	1	298	1	GPR45	2	105858611	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	8074452	105858611	137340762	60	33881											
TGFBRAP1	9392	broad.mit.edu	37	chr2	105886050	105886050	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggcagtagtcctcggcCgctgcaaagtcctgcagctc	8	7	11	15	2	0	0	0	0	0	0	4	0	2	0	3	2	3	6	3	2	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:105886050C>T	uc002tcq.2	-	11	2169	c.2085G>A	c.(2083-2085)GCG>GCA	p.A695A	TGFBRAP1_uc010fjc.2_Silent_p.A464A|TGFBRAP1_uc002tcr.3_Silent_p.A695A	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	695					regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						AGTCCTCGGCCGCTGCAAAGT	0.652													5	18					0	0	0.001168	0	0		T	105886050	T	T	105886050	2	4	43	1	0	0	0	0	0	0	0	1	15849	639	23	1		1	TGFBRAP1	2	105886050	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	27439	105886050	137313323	61	33882											
C2orf40	84417	broad.mit.edu	37	chr2	106694342	106694342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggtccccggagcccctacgGctttaggcatggagccagcg	6	7	14	14	3	0	0	0	0	0	0	1	2	1	2	5	5	4	2	5	5	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:106694342G>A	uc010fjf.2	+	4	515	c.407G>A	c.(406-408)GGC>GAC	p.G136D		NM_032411	NP_115787	Q9H1Z8	AUGN_HUMAN	esophageal cancer related gene 4 protein	136						extracellular region|transport vesicle					0						AGCCCCTACGGCTTTAGGCAT	0.458													5	49					0	0	0.000602	0	0		A	106694342	A	A	106694342	3	1	43	1	0	0	0	0	1	0	0	0	2168	1203	42	2	421	2	C2orf40	2	106694342	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	808292	106694342	136505031	62	33883											
TTL	150465	broad.mit.edu	37	chr2	113277874	113277874	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cataggaactgcctcctgagCgtggagcctgccattagcac	9	8	11	13	1	0	1	0	1	0	0	1	3	1	3	4	2	6	1	4	2	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:113277874C>T	uc002thu.2	+	6	1070	c.891C>T	c.(889-891)AGC>AGT	p.S297S	TTL_uc010fkm.1_Intron	NM_153712	NP_714923	Q8NG68	TTL_HUMAN	tubulin tyrosine ligase	297	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)		GCCTCCTGAGCGTGGAGCCTG	0.512			T	ETV6	ALL								23	127					0	0	0.014323	0	0		T	113277874	T	T	113277874	2	4	43	1	0	0	0	0	0	0	0	1	16747	767	27	1		1	TTL	2	113277874	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	6583532	113277874	129921499	63	33884											
YSK4	80122	broad.mit.edu	37	chr2	135738842	135738842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaacaccatctcaggcaatgGcccaaaacggtttataatac	15	8	7	11	1	1	0	1	0	1	0	2	1	1	0	2	3	3	2	2	3	7	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:135738842G>A	uc002tue.1	-	9	3500	c.3469C>T	c.(3469-3471)CCA>TCA	p.P1157S	YSK4_uc002tuf.1_Missense_Mutation_p.P339S|YSK4_uc010fnc.1_Missense_Mutation_p.P291S|YSK4_uc010fnd.1_Missense_Mutation_p.P1044S|YSK4_uc010zbg.1_Missense_Mutation_p.P289S|YSK4_uc002tuh.3_Missense_Mutation_p.P885S|YSK4_uc002tui.3_3'UTR	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	1157	Protein kinase.						ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TCAGGCAATGGCCCAAAACGG	0.418													13	109					0	0	0.001855	0	0		A	135738842	A	A	135738842	3	1	43	1	0	0	0	0	1	0	0	0	17521	1203	42	2	525	2	YSK4	2	135738842	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	22460968	135738842	107460531	64	33885											
R3HDM1	23518	broad.mit.edu	37	chr2	136473119	136473119	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgacgtattgtaattgcaGcacagccctcaactcagtag	11	11	8	11	1	2	1	2	1	0	0	2	1	2	1	1	0	4	5	1	0	4	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:136473119G>T	uc002tuo.2	+	23	3002	c.2632_splice	c.e23-1	p.H878_splice	R3HDM1_uc010fni.2_Splice_Site_p.H877_splice|R3HDM1_uc002tup.2_Splice_Site_p.H823_splice|R3HDM1_uc010zbh.1_Splice_Site_p.H626_splice	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1								nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		TGTAATTGCAGCACAGCCCTC	0.443													16	145					2.48551e-13	2.79074e-13	0.00499	1	0		T	136473119	T	T	136473119	5	4	43	1	0	0	0	0	0	0	1	0	12912	985	34	5	2713	5	R3HDM1	2	136473119	Splice_Site	SNP	G	TCGA-BR-6802-01A-11D-1882-08	734277	136473119	106726254	65	33886											
HNMT	3176	broad.mit.edu	37	chr2	138771371	138771371	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggctgggacaagctgtggAaaaagtacggatcacgcttt	11	9	14	7	2	1	0	1	0	0	0	1	3	1	3	0	4	2	4	0	4	4	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:138771371A>G	uc002tvc.2	+	7	698	c.550A>G	c.(550-552)AAA>GAA	p.K184E	HNMT_uc002tvf.2_Missense_Mutation_p.K184E	NM_006895	NP_008826	P50135	HNMT_HUMAN	histamine N-methyltransferase isoform 1	184					respiratory gaseous exchange	cytoplasm	histamine N-methyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.125)	Amodiaquine(DB00613)|Histamine Phosphate(DB00667)|Quinacrine(DB01103)	CAAGCTGTGGAAAAAGTACGG	0.408													6	40					0	0	0.001168	0	0		G	138771371	G	G	138771371	3	3	43	1	0	0	0	0	1	0	0	0	7271	247	9	3	790	3	HNMT	2	138771371	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	2298252	138771371	104428002	66	33887											
MBD5	55777	broad.mit.edu	37	chr2	149247519	149247519	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaaagccccagaggggagCgaaacaggtggaagtacgag	15	2	16	8	2	0	1	0	0	0	1	0	5	0	3	2	4	5	2	2	4	4	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:149247519C>T	uc002twm.3	+	12	4607	c.3619C>T	c.(3619-3621)CGA>TGA	p.R1207*	MBD5_uc010zbs.1_Intron|MBD5_uc010fns.2_Nonsense_Mutation_p.R1207*|MBD5_uc002two.2_Nonsense_Mutation_p.R465*|MBD5_uc002twp.2_Nonsense_Mutation_p.R257*	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1207						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		CAGAGGGGAGCGAAACAGGTG	0.463													5	183					0	0	0.000602	0	0		T	149247519	T	T	149247519	4	4	43	1	0	0	0	0	0	1	0	0	9365	760	27	1	3645	1	MBD5	2	149247519	Nonsense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	10476148	149247519	93951854	67	33888											
GALNT13	114805	broad.mit.edu	37	chr2	154996962	154996962	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatcaatcagtttaacctTatggccagtgatttgattgc	13	14	7	7	0	2	2	2	2	0	0	2	2	2	2	2	1	2	1	2	1	5	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:154996962T>C	uc002tyr.3	+	4	822	c.255T>C	c.(253-255)CTT>CTC	p.L85L	GALNT13_uc002tyt.3_Silent_p.L85L|GALNT13_uc010foc.1_5'UTR	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	85	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						AGTTTAACCTTATGGCCAGTG	0.358													11	66					0	0	0.00245	0	0		C	154996962	C	C	154996962	2	2	43	1	0	0	0	0	0	0	0	1	6226	1741	61	3		3	GALNT13	2	154996962	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	5749443	154996962	88202411	68	33889											
LRP2	4036	broad.mit.edu	37	chr2	170101424	170101424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catggccacaggtgaacgccGaagatgaacaggtattatct	13	8	11	9	2	1	3	0	2	1	1	1	4	1	3	2	3	2	1	2	3	5	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:170101424G>A	uc002ues.2	-	22	3422	c.3209C>T	c.(3208-3210)TCG>TTG	p.S1070L	LRP2_uc010zdf.1_Missense_Mutation_p.S933L	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1070	LDL-receptor class A 9.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GGTGAACGCCGAAGATGAACA	0.468													9	85					0	0	0.006214	0	0		A	170101424	A	A	170101424	3	1	43	1	0	0	0	0	1	0	0	0	8974	1059	37	1	10990	1	LRP2	2	170101424	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	15104462	170101424	73097949	69	33890											
TTC30A	92104	broad.mit.edu	37	chr2	178482139	178482139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagattccagtagatttttgCctgagccatcaacacaggaa	14	10	8	9	0	1	3	1	1	0	2	2	4	2	4	3	1	3	1	3	1	4	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:178482139C>T	uc002ulo.2	-	1	1556	c.1291G>A	c.(1291-1293)GCA>ACA	p.A431T		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	431	TPR 6.				cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			TAGATTTTTGCCTGAGCCATC	0.393													19	184					0	0	0.006122	0	0		T	178482139	T	T	178482139	3	4	43	1	0	0	0	0	1	0	0	0	16724	739	26	2	710	2	TTC30A	2	178482139	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	8380715	178482139	64717234	70	33891											
TTC30A	92104	broad.mit.edu	37	chr2	178483032	178483032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgctccaccaggctcCtggaccctggcagatcgccc	6	6	11	18	1	0	1	0	0	0	1	3	2	2	2	5	3	2	5	5	3	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:178483032C>T	uc002ulo.2	-	1	663	c.398G>A	c.(397-399)AGG>AAG	p.R133K		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	133					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			CACCAGGCTCCTGGACCCTGG	0.612													23	158					0	0	0.004656	0	0		T	178483032	T	T	178483032	3	4	43	1	0	0	0	0	1	0	0	0	16724	681	24	4	1603	4	TTC30A	2	178483032	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	893	178483032	64716341	71	33892											
TTN	7273	broad.mit.edu	37	chr2	179423360	179423360	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtttttcaggtgggcttggTttttctaagaaaacaaagca	12	14	10	5	0	2	1	1	0	1	1	2	1	2	1	0	3	2	4	0	3	4	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:179423360T>G	uc010zfg.1	-	276	79346	c.79122A>C	c.(79120-79122)AAA>AAC	p.K26374N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K20069N|TTN_uc010zfi.1_Missense_Mutation_p.K20002N|TTN_uc010zfj.1_Missense_Mutation_p.K19877N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27301							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTGGGCTTGGTTTTTCTAAGA	0.358													9	47					0	0	0.004482	0	0		G	179423360	G	G	179423360	3	3	43	1	0	0	0	0	1	0	0	0	16761	1722	60	5	21297	5	TTN	2	179423360	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	940328	179423360	63776013	72	33893											
TTN	7273	broad.mit.edu	37	chr2	179439680	179439680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggtccagtaggtggccctgGgatatcatggacttgaatgg	8	11	15	7	0	1	1	1	1	0	0	2	3	2	3	2	6	0	1	2	6	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:179439680G>A	uc010zfg.1	-	275	63699	c.63475C>T	c.(63475-63477)CCA>TCA	p.P21159S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P14854S|TTN_uc010zfi.1_Missense_Mutation_p.P14787S|TTN_uc010zfj.1_Missense_Mutation_p.P14662S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22086							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGTGGCCCTGGGATATCATGG	0.448													7	36					0	0	0.001984	0	0		A	179439680	A	A	179439680	3	1	43	1	0	0	0	0	1	0	0	0	16761	1232	43	4	36948	4	TTN	2	179439680	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	16320	179439680	63759693	73	33894											
TTN	7273	broad.mit.edu	37	chr2	179447097	179447097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttattttcagcacaaataCggaactgatactcatggccc	13	12	6	10	1	2	1	2	1	0	0	2	2	2	2	1	2	4	1	1	2	5	6	rs72646868		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:179447097C>T	uc010zfg.1	-	263	58606	c.58382G>A	c.(58381-58383)CGT>CAT	p.R19461H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R13156H|TTN_uc010zfi.1_Missense_Mutation_p.R13089H|TTN_uc010zfj.1_Missense_Mutation_p.R12964H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20388							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGCACAAATACGGAACTGATA	0.473													5	51					0	0	0.000602	0	0		T	179447097	T	T	179447097	3	4	43	1	0	0	0	0	1	0	0	0	16761	536	19	1	42089	1	TTN	2	179447097	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	7417	179447097	63752276	74	33895											
TTN	7273	broad.mit.edu	37	chr2	179499969	179499969	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagatttctgcatcaaagcTtgcactttctttctcataaa	11	16	5	9	0	4	1	2	1	3	1	5	2	4	1	0	0	3	3	0	0	3	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:179499969T>C	uc010zfg.1	-	177	34467	c.34243A>G	c.(34243-34245)AGC>GGC	p.S11415G	TTN_uc010zfh.1_Missense_Mutation_p.S5110G|TTN_uc010zfi.1_Missense_Mutation_p.S5043G|TTN_uc010zfj.1_Missense_Mutation_p.S4918G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12342							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCATCAAAGCTTGCACTTTCT	0.393													20	97					0	0	0.008871	0	0		C	179499969	C	C	179499969	3	2	43	1	0	0	0	0	1	0	0	0	16761	1609	56	3	66286	3	TTN	2	179499969	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	52872	179499969	63699404	75	33896											
PLCL1	5334	broad.mit.edu	37	chr2	198950517	198950517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagatacacggaattccagCggattgttcggaacaaagaa	16	7	11	7	3	0	2	0	0	0	2	2	6	1	5	1	3	3	1	1	3	5	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:198950517C>T	uc010fsp.2	+	2	2567	c.2276C>T	c.(2275-2277)GCG>GTG	p.A759V	PLCL1_uc002uuv.3_Missense_Mutation_p.A680V	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	759	C2.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	GGAATTCCAGCGGATTGTTCG	0.418													19	99					0	0	0.006122	0	0		T	198950517	T	T	198950517	3	4	43	1	0	0	0	0	1	0	0	0	12058	768	27	1	2282	1	PLCL1	2	198950517	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	19450548	198950517	44248856	76	33897											
ALS2	57679	broad.mit.edu	37	chr2	202587823	202587823	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatagatagtatcatcttcGgaaagcaaaaccccatttcc	14	11	5	11	1	3	1	2	0	1	1	5	2	4	2	3	1	2	2	3	1	6	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:202587823G>A	uc002uyo.2	-	23	4001	c.3645C>T	c.(3643-3645)TCC>TCT	p.S1215S	ALS2_uc002uyp.3_Silent_p.S1215S|ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	1215	MORN 7.				cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						TATCATCTTCGGAAAGCAAAA	0.353													19	158					0	0	0.00278	0	0		A	202587823	A	A	202587823	2	1	43	1	0	0	0	0	0	0	0	1	550	1103	39	1		1	ALS2	2	202587823	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3637306	202587823	40611550	77	33898											
ABI2	10152	broad.mit.edu	37	chr2	204267383	204267383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctcgttgccctatagacGccctccttccattacttcac	6	12	7	16	2	1	1	1	0	0	1	4	1	3	1	4	1	2	2	4	1	3	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:204267383G>A	uc002vaa.2	+	9	1353	c.1118G>A	c.(1117-1119)CGC>CAC	p.R373H	ABI2_uc002uzz.2_Missense_Mutation_p.R306H|ABI2_uc010zih.1_Missense_Mutation_p.R21H|ABI2_uc010zii.1_Missense_Mutation_p.R367H|ABI2_uc010zij.1_Missense_Mutation_p.R250H|ABI2_uc002vab.2_Missense_Mutation_p.R261H|ABI2_uc010zik.1_Missense_Mutation_p.R98H|ABI2_uc010zil.1_Missense_Mutation_p.R208H|ABI2_uc010zim.1_Missense_Mutation_p.R159H|ABI2_uc002vac.2_Missense_Mutation_p.R159H|ABI2_uc010zin.1_Missense_Mutation_p.R21H	NM_005759	NP_005750	Q9NYB9	ABI2_HUMAN	abl interactor 2	373	Pro-rich.				actin polymerization or depolymerization|cell migration|peptidyl-tyrosine phosphorylation	cytoskeleton|cytosol|filopodium|lamellipodium	cytoskeletal adaptor activity|DNA binding|kinase binding|proline-rich region binding|SH3 domain binding|ubiquitin protein ligase binding				0						CCCTATAGACGCCCTCCTTCC	0.443													5	83					0	0	0.001984	0	0		A	204267383	A	A	204267383	3	1	43	1	0	0	0	0	1	0	0	0	89	1087	38	1	943	1	ABI2	2	204267383	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1679560	204267383	38931990	78	33899											
FASTKD2	22868	broad.mit.edu	37	chr2	207651571	207651571	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaattactttcccctggcTccttttaatcagcttctgca	8	16	5	12	0	2	1	1	1	1	0	4	1	4	1	3	1	3	3	3	1	3	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:207651571T>A	uc002vbu.2	+	8	1952	c.1542T>A	c.(1540-1542)GCT>GCA	p.A514A	FASTKD2_uc002vbv.2_Silent_p.A514A|FASTKD2_uc002vbx.2_Silent_p.A514A|FASTKD2_uc002vbw.1_Silent_p.A514A	NM_001136193	NP_001129665	Q9NYY8	FAKD2_HUMAN	FAST kinase domains 2	514					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|skin(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0718)|Epithelial(149;0.119)|Lung(261;0.138)		TTCCCCTGGCTCCTTTTAATC	0.398													12	102					0	0	0.013537	0	0		A	207651571	A	A	207651571	2	1	43	1	0	0	0	0	0	0	0	1	5700	1538	54	5		5	FASTKD2	2	207651571	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	3384188	207651571	35547802	79	33900											
CPS1	1373	broad.mit.edu	37	chr2	211512675	211512675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaatggtgtcaagatcatggGcacaagccccctgcagatcg	11	7	12	11	1	2	2	2	0	0	2	3	3	2	2	2	2	2	2	2	2	3	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:211512675G>A	uc002vee.3	+	26	3362	c.3230G>A	c.(3229-3231)GGC>GAC	p.G1077D	CPS1_uc010fur.2_Missense_Mutation_p.G1083D|CPS1_uc010fus.2_Missense_Mutation_p.G626D	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1077					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		AAGATCATGGGCACAAGCCCC	0.507													5	103					0	0	0.001168	0	0		A	211512675	A	A	211512675	3	1	43	1	0	0	0	0	1	0	0	0	3826	1203	42	2	3354	2	CPS1	2	211512675	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3861104	211512675	31686698	80	33901											
MREG	55686	broad.mit.edu	37	chr2	216809668	216809668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggcttcttggggtaagttCgacgagcaagcttaaagaac	12	9	12	8	2	1	1	0	0	1	1	2	3	1	1	0	3	3	5	0	3	5	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:216809668C>T	uc002vfo.2	-	5	859	c.563G>A	c.(562-564)CGA>CAA	p.R188Q	MREG_uc002vfq.2_RNA	NM_018000	NP_060470	Q8N565	MREG_HUMAN	whn-dependent transcript 2	188						apical plasma membrane					0		Renal(323;0.0328)		Epithelial(149;4.64e-07)|all cancers(144;5.56e-05)|LUSC - Lung squamous cell carcinoma(224;0.00832)|Lung(261;0.0111)		GGGGTAAGTTCGACGAGCAAG	0.498													5	30					0	0	0.000602	0	0		T	216809668	T	T	216809668	3	4	43	1	0	0	0	0	1	0	0	0	9778	884	31	1	85	1	MREG	2	216809668	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	5296993	216809668	26389705	81	33902											
TMEM169	92691	broad.mit.edu	37	chr2	216964784	216964784	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaccaaacctaaagagtCatcaagggaaacgacgcctg	16	5	9	11	2	2	2	2	1	0	1	2	4	2	3	3	1	2	0	3	1	5	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:216964784C>A	uc010zjr.1	+	4	739	c.413C>A	c.(412-414)TCA>TAA	p.S138*	TMEM169_uc010zjs.1_Nonsense_Mutation_p.S138*|TMEM169_uc002vfw.2_Nonsense_Mutation_p.S138*|TMEM169_uc002vfv.3_Nonsense_Mutation_p.S138*	NM_001142310	NP_001135782	Q96HH4	TM169_HUMAN	transmembrane protein 169	138	Extracellular (Potential).					integral to membrane				ovary(1)	1		Renal(323;0.0651)		Epithelial(149;6.44e-06)|all cancers(144;0.000398)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCTAAAGAGTCATCAAGGGAA	0.542													17	81					3.52763e-06	3.82011e-06	0.00499	1	0		A	216964784	A	A	216964784	4	1	43	1	0	0	0	0	0	1	0	0	16109	838	29	5	419	5	TMEM169	2	216964784	Nonsense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	155116	216964784	26234589	82	33903											
TNS1	7145	broad.mit.edu	37	chr2	218683363	218683363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agctctggtagtttctctggGcagacgggctgggctgtccc	4	11	15	11	1	2	1	0	0	2	1	4	1	3	1	1	4	1	6	1	4	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:218683363G>A	uc002vgt.2	-	24	3778	c.3380C>T	c.(3379-3381)GCC>GTC	p.A1127V	TNS1_uc002vgr.2_Missense_Mutation_p.A1114V|TNS1_uc002vgs.2_Missense_Mutation_p.A1106V|TNS1_uc010zjv.1_Missense_Mutation_p.A1106V	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1127	Ser-rich.					cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GTTTCTCTGGGCAGACGGGCT	0.632													7	69					0	0	0.001984	0	0		A	218683363	A	A	218683363	3	1	43	1	0	0	0	0	1	0	0	0	16368	1203	42	2	1867	2	TNS1	2	218683363	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1718579	218683363	24516010	83	33904											
TTLL4	9654	broad.mit.edu	37	chr2	219603187	219603187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtactggagactgtgcacCgcagcctgttgaccataagg	9	8	14	10	1	0	2	0	1	0	1	0	3	0	2	3	3	3	4	3	3	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:219603187C>T	uc002viy.2	+	3	1158	c.788C>T	c.(787-789)CCG>CTG	p.P263L	TTLL4_uc010zkl.1_Missense_Mutation_p.P98L|TTLL4_uc010fvx.2_Missense_Mutation_p.P263L	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	263					protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		GACTGTGCACCGCAGCCTGTT	0.572													16	137					0	0	0.004007	0	0		T	219603187	T	T	219603187	3	4	43	1	0	0	0	0	1	0	0	0	16755	652	23	1	790	1	TTLL4	2	219603187	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	919824	219603187	23596186	84	33905											
TRIP12	9320	broad.mit.edu	37	chr2	230672480	230672480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaggccccgatcatcacGccactgccatatcgcaccat	10	6	7	18	3	2	1	2	0	0	1	3	2	2	1	6	1	1	1	6	1	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:230672480G>A	uc002vpw.1	-	16	2405	c.2296C>T	c.(2296-2298)CGT>TGT	p.R766C	TRIP12_uc002vpx.1_Missense_Mutation_p.R814C|TRIP12_uc002vpy.1_Missense_Mutation_p.R469C|TRIP12_uc010zlz.1_Intron|TRIP12_uc010fxh.1_Missense_Mutation_p.R772C	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	766	WWE.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		CGATCATCACGCCACTGCCAT	0.433													11	54					0	0	0.013537	0	0		A	230672480	A	A	230672480	3	1	43	1	0	0	0	0	1	0	0	0	16582	1087	38	1	3786	1	TRIP12	2	230672480	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	11069293	230672480	12526893	85	33906											
ECEL1	9427	broad.mit.edu	37	chr2	233350780	233350780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatgggtcgcgggcccagtCgctcgatctcgcgcatgtcg	4	8	15	14	7	1	0	0	0	1	0	6	1	1	0	1	2	0	3	1	2	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:233350780C>T	uc002vsv.2	-	2	789	c.584G>A	c.(583-585)CGA>CAA	p.R195Q	ECEL1_uc010fya.1_Missense_Mutation_p.R195Q|ECEL1_uc010fyb.1_5'UTR	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	195	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		CGGGCCCAGTCGCTCGATCTC	0.602													4	14					0	0	0.009096	0	0		T	233350780	T	T	233350780	3	4	43	1	0	0	0	0	1	0	0	0	4897	884	31	1	1811	1	ECEL1	2	233350780	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2678300	233350780	9848593	86	33907											
CHRNG	1146	broad.mit.edu	37	chr2	233407735	233407735	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacgtcatcaacatcatcGccccctgtgtgctcatctcc	7	12	5	17	2	6	0	4	0	2	0	8	0	6	0	3	0	3	1	3	0	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:233407735G>A	uc002vsx.1	+	7	769	c.748G>A	c.(748-750)GCC>ACC	p.A250T	CHRNG_uc010fye.1_Missense_Mutation_p.A198T	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	250	Helical; (Potential).				muscle contraction	cell junction|postsynaptic membrane	acetylcholine receptor activity				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;6.39e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00079)|LUSC - Lung squamous cell carcinoma(224;0.00757)|Lung(119;0.0086)		CAACATCATCGCCCCCTGTGT	0.607													33	209					0	0	0.003271	0	0		A	233407735	A	A	233407735	3	1	43	1	0	0	0	0	1	0	0	0	3399	1087	38	1	774	1	CHRNG	2	233407735	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	56955	233407735	9791638	87	33908											
GIGYF2	26058	broad.mit.edu	37	chr2	233652024	233652024	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggatggagagaggtggCgacctcacagtcctggtaag	10	6	18	7	1	1	1	1	0	0	1	2	6	2	4	2	6	0	1	2	6	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr2:233652024C>T	uc002vti.3	+	11	1034	c.697C>T	c.(697-699)CGA>TGA	p.R233*	GIGYF2_uc010zmj.1_Nonsense_Mutation_p.R233*|GIGYF2_uc002vtg.2_Nonsense_Mutation_p.R233*|GIGYF2_uc002vtj.3_Nonsense_Mutation_p.R255*|GIGYF2_uc002vtk.3_Nonsense_Mutation_p.R233*|GIGYF2_uc002vth.3_Nonsense_Mutation_p.R233*|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Nonsense_Mutation_p.R64*	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	233	Arg-rich.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		AGAGAGGTGGCGACCTCACAG	0.428													4	49					0	0	0.000602	0	0		T	233652024	T	T	233652024	4	4	43	1	0	0	0	0	0	1	0	0	6393	760	27	1	793	1	GIGYF2	2	233652024	Nonsense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	244289	233652024	9547349	88	33909											
CAMK1	8536	broad.mit.edu	37	chr3	9802450	9802450	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagggagggtaaccgcagAgcctgggcagggagaaactc	13	3	17	8	1	0	3	0	0	0	3	1	5	0	4	2	4	3	3	2	4	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:9802450A>G	uc003bst.2	-	8	813	c.635T>C	c.(634-636)CTC>CCC	p.L212P	OGG1_uc003bsk.2_Intron|OGG1_uc003bsl.2_Intron|OGG1_uc003bsm.2_Intron|OGG1_uc003bsn.2_Intron|OGG1_uc003bso.2_Intron|CAMK1_uc003bsu.2_RNA|CAMK1_uc003bss.2_5'Flank|uc003bsv.1_RNA	NM_003656	NP_003647	Q14012	KCC1A_HUMAN	calcium/calmodulin-dependent protein kinase I	212	Protein kinase.				cell differentiation|nervous system development|positive regulation of muscle cell differentiation|signal transduction	cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|skin(1)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.0475)		GTAACCGCAGAGCCTGGGCAG	0.557													9	50					0	0	0.004482	0	0		G	9802450	G	G	9802450	3	3	43	1	0	0	0	0	1	0	0	0	2599	304	11	3	497	3	CAMK1	3	9802450	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08		9802450	188219980	89	33910											
CAND2	23066	broad.mit.edu	37	chr3	12858445	12858445	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgggctttgcgactggccAcactggcagccctggacgcc	6	6	14	15	3	0	0	0	0	0	0	0	2	0	1	3	4	3	2	3	4	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:12858445A>G	uc003bxk.2	+	10	2063	c.2014A>G	c.(2014-2016)ACA>GCA	p.T672A	CAND2_uc003bxj.2_Missense_Mutation_p.T579A	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	672	HEAT 14.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						GCGACTGGCCACACTGGCAGC	0.662													9	62					0	0	0.004482	0	0		G	12858445	G	G	12858445	3	3	43	1	0	0	0	0	1	0	0	0	2619	159	6	3	2052	3	CAND2	3	12858445	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	3055995	12858445	185163985	90	33911											
NUP210	23225	broad.mit.edu	37	chr3	13372104	13372104	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accttttcgggtccatccagGacgcggtagctcagagaggc	8	8	13	12	3	1	1	1	0	0	1	4	3	3	2	3	4	1	2	3	4	1	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:13372104G>T	uc003bxv.1	-	30	4049	c.3966C>A	c.(3964-3966)GTC>GTA	p.V1322V		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1322	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					GTCCATCCAGGACGCGGTAGC	0.512													5	139					0.00116845	0.0012239	0.001168	1	0		T	13372104	T	T	13372104	2	4	43	1	0	0	0	0	0	0	0	1	10779	1161	41	5		5	NUP210	3	13372104	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	513659	13372104	184650326	91	33912											
C3orf20	84077	broad.mit.edu	37	chr3	14744719	14744719	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaacagcctggagttcagCgacccctgccctgaggcccg	7	5	12	17	2	1	1	1	1	0	0	1	3	1	2	6	2	4	1	6	2	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:14744719C>T	uc003byy.2	+	6	1232	c.828C>T	c.(826-828)AGC>AGT	p.S276S	C3orf20_uc003byz.2_Silent_p.S154S|C3orf20_uc003bza.2_Silent_p.S154S|C3orf20_uc003byx.1_Silent_p.S276S	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	276						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						TGGAGTTCAGCGACCCCTGCC	0.597													28	245					0	0	0.013726	0	0		T	14744719	T	T	14744719	2	4	43	1	0	0	0	0	0	0	0	1	2216	767	27	1		1	C3orf20	3	14744719	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1372615	14744719	183277711	92	33913											
GALNTL2	117248	broad.mit.edu	37	chr3	16237382	16237382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acagcatcctcgacacagtgCccagggccttcctgaaggag	10	6	11	14	1	0	1	0	1	0	0	3	3	2	2	4	2	2	1	4	2	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:16237382C>T	uc003car.3	+	2	1130	c.655C>T	c.(655-657)CCC>TCC	p.P219S	GALNTL2_uc003caq.3_5'UTR	NM_054110	NP_473451	Q8N3T1	GLTL2_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	219	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1						CGACACAGTGCCCAGGGCCTT	0.617													8	69					0	0	0.004482	0	0		T	16237382	T	T	16237382	3	4	43	1	0	0	0	0	1	0	0	0	6237	739	26	2	661	2	GALNTL2	3	16237382	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1492663	16237382	181785048	93	33914											
KAT2B	8850	broad.mit.edu	37	chr3	20113953	20113953	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgtagccatgccctaggTgagttcctaaatcttcaagg	10	12	10	9	0	2	1	1	1	1	0	3	1	3	1	3	2	2	3	3	2	5	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:20113953T>C	uc003cbq.2	+	2	876	c.430_splice	c.e2+2	p.A144_splice		NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B						cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						ATGCCCTAGGTGAGTTCCTAA	0.458													33	176					0	0	0.012213	0	0		C	20113953	C	C	20113953	5	2	43	1	0	0	0	0	0	0	1	0	7998	1710	59	3	438	3	KAT2B	3	20113953	Splice_Site	SNP	T	TCGA-BR-6802-01A-11D-1882-08	3876571	20113953	177908477	94	33915											
GPD1L	23171	broad.mit.edu	37	chr3	32181857	32181857	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagttctgtgagaccaccatCggtaagcactgcctgggagg	10	8	13	10	1	1	1	0	1	1	1	2	3	1	2	3	3	2	3	3	3	2	2	rs139369157	by1000genomes	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:32181857C>T	uc003cew.2	+	4	564	c.504C>T	c.(502-504)ATC>ATT	p.I168I		NM_015141	NP_055956	Q8N335	GPD1L_HUMAN	glycerol-3-phosphate dehydrogenase 1-like	168					glycerol-3-phosphate catabolic process	glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|NAD binding|protein homodimerization activity				0						AGACCACCATCGGTAAGCACT	0.473													16	139					0	0	0.006122	0	0		T	32181857	T	T	32181857	2	4	43	1	0	0	0	0	0	0	0	1	6620	898	31	1		1	GPD1L	3	32181857	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	12067904	32181857	165840573	95	33916											
XIRP1	165904	broad.mit.edu	37	chr3	39227701	39227701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagtggctgttggggtggggCcctgcttgtgcttgttcaga	4	13	17	7	0	1	1	1	0	0	1	1	1	1	1	1	5	2	5	1	5	1	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:39227701C>T	uc003cjk.1	-	2	3457	c.3236G>A	c.(3235-3237)GGC>GAC	p.G1079D	XIRP1_uc003cji.2_Missense_Mutation_p.G1079D|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	1079							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		TGGGGTGGGGCCCTGCTTGTG	0.627													6	93					0	0	0.001984	0	0		T	39227701	T	T	39227701	3	4	43	1	0	0	0	0	1	0	0	0	17455	739	26	2	2299	2	XIRP1	3	39227701	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	7045844	39227701	158794729	96	33917											
RPL14	9045	broad.mit.edu	37	chr3	40499484	40499484	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttattgatcagaacagggTaagtgtcacaactttttact	12	15	8	6	0	2	2	2	1	0	1	2	2	2	2	0	1	3	2	0	1	5	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:40499484T>C	uc003ckg.2	+	2	156	c.105_splice	c.e2+2	p.R35_splice	RPL14_uc003ckh.2_Splice_Site_p.R35_splice|RPL14_uc003cki.2_Splice_Site	NM_003973	NP_003964	P50914	RL14_HUMAN	ribosomal protein L14						endocrine pancreas development|ribosomal large subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CAGAACAGGGTAAGTGTCACA	0.483													17	87					0	0	0.004007	0	0		C	40499484	C	C	40499484	5	2	43	1	0	0	0	0	0	0	1	0	13586	1652	57	3	120	3	RPL14	3	40499484	Splice_Site	SNP	T	TCGA-BR-6802-01A-11D-1882-08	1271783	40499484	157522946	97	33918											
EXOSC7	23016	broad.mit.edu	37	chr3	45038710	45038710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccctctgcattagtcctcGggagcactgctgggttctct	5	12	11	13	1	2	0	0	0	2	0	5	2	3	1	2	2	3	4	2	2	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:45038710G>A	uc003coi.2	+	4	415	c.386G>A	c.(385-387)CGG>CAG	p.R129Q	EXOSC7_uc003coh.1_Missense_Mutation_p.R64Q|EXOSC7_uc011bae.1_Missense_Mutation_p.R129Q|EXOSC7_uc010his.1_Missense_Mutation_p.R48Q|EXOSC7_uc003coj.2_Missense_Mutation_p.R129Q	NM_015004	NP_055819	Q15024	EXOS7_HUMAN	exosome component 7	129					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	3'-5'-exoribonuclease activity|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00911)|KIRC - Kidney renal clear cell carcinoma(197;0.0509)|Kidney(197;0.064)		ATTAGTCCTCGGGAGCACTGC	0.473													13	104					0	0	0.001855	0	0		A	45038710	A	A	45038710	3	1	43	1	0	0	0	0	1	0	0	0	5327	1116	39	1	400	1	EXOSC7	3	45038710	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	4539226	45038710	152983720	98	33919											
CCR2	729230	broad.mit.edu	37	chr3	46399668	46399668	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtcctgccgctgctcaTcatggtcatctgctactcgg	4	12	11	14	2	4	0	3	0	1	0	6	0	5	0	2	3	4	4	2	3	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:46399668T>A	uc003cpn.3	+	2	1135	c.650T>A	c.(649-651)ATC>AAC	p.I217N	CCR2_uc003cpm.3_Missense_Mutation_p.I217N	NM_001123041	NP_001116513	P41597	CCR2_HUMAN	chemokine (C-C motif) receptor 2 isoform A	217	Helical; Name=5; (Potential).				astrocyte cell migration|blood vessel remodeling|cellular defense response|chemokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response|interspecies interaction between organisms|JAK-STAT cascade|monocyte extravasation|negative regulation of adenylate cyclase activity|negative regulation of angiogenesis|negative regulation of eosinophil degranulation|negative regulation of type 2 immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of immune complex clearance by monocytes and macrophages|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-2 production|positive regulation of monocyte chemotaxis|positive regulation of T cell chemotaxis|positive regulation of T cell extravasation|positive regulation of T-helper 1 type immune response|positive regulation of tumor necrosis factor biosynthetic process|regulation of vascular endothelial growth factor production|T-helper 17 cell chemotaxis	cytosol|dendrite|integral to plasma membrane|perikaryon|perinuclear region of cytoplasm|soluble fraction	C-C chemokine receptor activity|CCR2 chemokine receptor binding|protein homodimerization activity			lung(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0174)|Kidney(197;0.0206)		CCGCTGCTCATCATGGTCATC	0.468													9	620					0	0	0.010729	0	0		A	46399668	A	A	46399668	3	1	43	1	0	0	0	0	1	0	0	0	2944	1435	50	5	652	5	CCR2	3	46399668	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	1360958	46399668	151622762	99	33920											
COL7A1	1294	broad.mit.edu	37	chr3	48602300	48602300	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggttggcattccctccacAgccaccatagacaaaagggt	12	7	9	13	1	0	1	0	0	0	1	2	1	2	1	4	3	1	2	4	3	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:48602300A>G	uc003ctz.2	-	117	8735	c.8734T>C	c.(8734-8736)TGT>CGT	p.C2912R	UCN2_uc003cty.1_5'Flank	NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2912	Nonhelical region (NC2).|BPTI/Kunitz inhibitor.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TTCCCTCCACAGCCACCATAG	0.657													12	96					0	0	0.013537	0	0		G	48602300	G	G	48602300	3	3	43	1	0	0	0	0	1	0	0	0	3707	188	7	3	108	3	COL7A1	3	48602300	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	2202632	48602300	149420130	100	33921											
RHOA	387	broad.mit.edu	37	chr3	49412922	49412922	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcaaacactgtgggcacaTacacctctgggaactggtcc	10	9	9	13	0	2	0	1	0	2	0	4	1	3	1	2	3	3	1	2	3	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:49412922T>C	uc003cwu.2	-	2	377	c.101A>G	c.(100-102)TAT>TGT	p.Y34C	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	34	Effector region (Potential).			Y->F: Abolishes AMPylation by Haemophilus IbpA.|Y->A: Abolishes interaction with DGKQ.	axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	TGTGGGCACATACACCTCTGG	0.463													83	175					0	0	0.01441	0	0		C	49412922	C	C	49412922	3	2	43	1	0	0	0	0	1	0	0	0	13356	1406	49	3	496	3	RHOA	3	49412922	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	810622	49412922	148609508	101	33922											
CDHR4	389118	broad.mit.edu	37	chr3	49836453	49836453	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaaattgaccagcacacTggatatggctaaggtcccgc	11	8	11	11	1	0	1	0	1	0	0	1	2	1	2	2	4	1	3	2	4	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:49836453T>C	uc010hkz.2	-	3	386	c.377A>G	c.(376-378)CAG>CGG	p.Q126R	CDHR4_uc003cxp.2_Missense_Mutation_p.Q126R|CDHR4_uc011bcw.1_Missense_Mutation_p.Q126R	NM_001007540	NP_001007541	A6H8M9	CDHR4_HUMAN	cadherin-like 29 precursor	126	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						ACCAGCACACTGGATATGGCT	0.602													4	17					0	0	0.009096	0	0		C	49836453	C	C	49836453	3	2	43	1	0	0	0	0	1	0	0	0	3124	1580	55	3	2057	3	CDHR4	3	49836453	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	423531	49836453	148185977	102	33923											
DOCK3	1795	broad.mit.edu	37	chr3	51196730	51196730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatcgttgcccatgtgatccGaataggtactgttcacctta	9	14	8	10	2	1	1	1	1	0	0	3	2	2	1	3	1	2	3	3	1	5	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:51196730G>A	uc011bds.1	+	11	907	c.884G>A	c.(883-885)CGA>CAA	p.R295Q		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	295						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		CATGTGATCCGAATAGGTACT	0.388													19	131					0	0	0.008871	0	0		A	51196730	A	A	51196730	3	1	43	1	0	0	0	0	1	0	0	0	4694	1058	37	1	926	1	DOCK3	3	51196730	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1360277	51196730	146825700	103	33924											
PBRM1	55193	broad.mit.edu	37	chr3	52649388	52649388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagcttgagtttgggagaagCcatgtcatcatcatcaggca	11	10	11	9	0	4	2	4	1	0	1	4	3	4	2	1	2	2	3	1	2	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:52649388C>T	uc003des.2	-	15	1915	c.1903G>A	c.(1903-1905)GCT>ACT	p.A635T	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.A635T|PBRM1_uc003der.2_Missense_Mutation_p.A603T|PBRM1_uc003det.2_Missense_Mutation_p.A650T|PBRM1_uc003deu.2_Missense_Mutation_p.A650T|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.A635T|PBRM1_uc010hmk.1_Missense_Mutation_p.A635T|PBRM1_uc003dey.2_Missense_Mutation_p.A635T|PBRM1_uc003dez.1_Missense_Mutation_p.A635T|PBRM1_uc003dfb.1_Missense_Mutation_p.A548T|PBRM1_uc003dfc.2_Missense_Mutation_p.A2T	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	635					chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TTGGGAGAAGCCATGTCATCA	0.373			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								12	88					0	0	0.010729	0	0		T	52649388	T	T	52649388	3	4	43	1	0	0	0	0	1	0	0	0	11510	739	26	2	3061	2	PBRM1	3	52649388	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1452658	52649388	145373042	104	33925											
TMEM110	375346	broad.mit.edu	37	chr3	52883877	52883877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgacggcgcgcacccccaCgtagatgagcagcatgccca	9	4	12	16	4	0	3	0	2	0	1	0	3	0	3	3	1	3	5	3	1	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:52883877C>T	uc003dge.2	-	4	439	c.358G>A	c.(358-360)GTG>ATG	p.V120M	TMEM110_uc003dgc.3_Missense_Mutation_p.V120M	NM_198563	NP_940965	Q86TL2	TM110_HUMAN	transmembrane protein 110	120	Helical; (Potential).					integral to membrane				large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.72e-05)|Kidney(197;0.000777)|KIRC - Kidney renal clear cell carcinoma(197;0.000915)|OV - Ovarian serous cystadenocarcinoma(275;0.0541)		CGCACCCCCACGTAGATGAGC	0.622													10	54					0	0	0.008291	0	0		T	52883877	T	T	52883877	3	4	43	1	0	0	0	0	1	0	0	0	16052	536	19	1	546	1	TMEM110	3	52883877	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	234489	52883877	145138553	105	33926											
CACNA1D	776	broad.mit.edu	37	chr3	53700399	53700399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggacccagctccatgtgCgttctcagggaatggacgcc	9	7	13	12	2	1	1	1	0	1	1	3	4	2	4	3	3	2	2	3	3	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:53700399C>T	uc003dgv.3	+	7	1116	c.953C>T	c.(952-954)GCG>GTG	p.A318V	CACNA1D_uc003dgu.3_Missense_Mutation_p.A318V|CACNA1D_uc003dgy.3_Missense_Mutation_p.A318V|CACNA1D_uc003dgw.3_5'UTR	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	318	Extracellular (Potential).|I.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	GCTCCATGTGCGTTCTCAGGG	0.537													41	240					0	0	0.00874	0	0		T	53700399	T	T	53700399	3	4	43	1	0	0	0	0	1	0	0	0	2544	768	27	1	979	1	CACNA1D	3	53700399	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	816522	53700399	144322031	106	33927											
ERC2	26059	broad.mit.edu	37	chr3	56044541	56044541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaggtctttgttctcttttCggaaggattctatctcttct	5	20	7	9	1	6	0	1	0	5	0	9	2	6	2	0	3	0	1	0	3	2	7			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:56044541C>T	uc003dhr.1	-	9	2112	c.1856G>A	c.(1855-1857)CGA>CAA	p.R619Q	ERC2_uc003dht.1_Missense_Mutation_p.R90Q	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	619	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		GTTCTCTTTTCGGAAGGATTC	0.393													30	194					0	0	0.007291	0	0		T	56044541	T	T	56044541	3	4	43	1	0	0	0	0	1	0	0	0	5219	884	31	1	1043	1	ERC2	3	56044541	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2344142	56044541	141977889	107	33928											
ATXN7	6314	broad.mit.edu	37	chr3	63965643	63965643	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccgttcctcccacttcAgtattttccttcttcccttc	3	18	4	16	1	2	0	1	0	1	0	7	0	6	0	5	1	0	2	5	1	1	9			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:63965643A>G	uc003dlw.3	+	6	1105	c.552A>G	c.(550-552)TCA>TCG	p.S184S	ATXN7_uc003dlv.2_Silent_p.S184S|ATXN7_uc010hnv.2_Silent_p.S184S|ATXN7_uc010hnw.2_Silent_p.S39S|ATXN7_uc011bfn.1_Silent_p.S39S	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	184	Ser-rich.				cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		CTCCCACTTCAGTATTTTCCT	0.458													18	98					0	0	0.008871	0	0		G	63965643	G	G	63965643	2	3	43	1	0	0	0	0	0	0	0	1	1216	175	7	3		3	ATXN7	3	63965643	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	7921102	63965643	134056787	108	33929											
PDZRN3	23024	broad.mit.edu	37	chr3	73433966	73433966	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccattgttctcttgctccGagctctcgtcattacgggtg	4	14	10	13	4	3	0	1	0	2	0	6	1	4	0	2	1	3	3	2	1	1	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:73433966G>T	uc003dpl.1	-	10	1847	c.1751C>A	c.(1750-1752)TCG>TAG	p.S584*	PDZRN3_uc011bgh.1_Nonsense_Mutation_p.S241*|PDZRN3_uc010hoe.1_Nonsense_Mutation_p.S282*|PDZRN3_uc011bgf.1_Nonsense_Mutation_p.S301*|PDZRN3_uc011bgg.1_Nonsense_Mutation_p.S304*	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	584							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		CTCTTGCTCCGAGCTCTCGTC	0.642													6	51					0.00116845	0.0012239	0.001168	1	0		T	73433966	T	T	73433966	4	4	43	1	0	0	0	0	0	1	0	0	11728	1059	37	5	1453	5	PDZRN3	3	73433966	Nonsense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	9468323	73433966	124588464	109	33930											
CNTN3	5067	broad.mit.edu	37	chr3	74474047	74474047	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaactccctggccttcacGcacagacactgtactcctca	10	8	5	18	1	2	1	2	0	0	1	4	1	4	1	3	1	2	2	3	1	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:74474047G>A	uc003dpm.1	-	4	483	c.403C>T	c.(403-405)CGT>TGT	p.R135C		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	135	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		TGGCCTTCACGCACAGACACT	0.398													6	48					0	0	0.00308	0	0		A	74474047	A	A	74474047	3	1	43	1	0	0	0	0	1	0	0	0	3645	1087	38	1	2759	1	CNTN3	3	74474047	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1040081	74474047	123548383	110	33931											
ROBO1	6091	broad.mit.edu	37	chr3	78649287	78649287	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcttcattattatcttcTcctctttcatatcctccaag	9	19	1	12	0	6	0	2	0	4	0	9	0	8	0	3	0	0	0	3	0	5	7			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:78649287T>C	uc003dqe.2	-	30	5125	c.4917A>G	c.(4915-4917)GGA>GGG	p.G1639G	ROBO1_uc003dqb.2_Silent_p.G1600G|ROBO1_uc003dqc.2_Silent_p.G1539G|ROBO1_uc003dqd.2_Silent_p.G1594G|ROBO1_uc010hoh.2_Silent_p.G831G	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1639	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TATTATCTTCTCCTCTTTCAT	0.363													22	75					0	0	0.014323	0	0		C	78649287	C	C	78649287	2	2	43	1	0	0	0	0	0	0	0	1	13538	1538	54	3		3	ROBO1	3	78649287	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	4175240	78649287	119373143	111	33932											
EPHA6	285220	broad.mit.edu	37	chr3	96962894	96962894	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acacaggagggagaaaagatCtcacatacagtgtaatctgt	16	8	10	7	0	2	2	1	0	2	2	3	4	2	3	0	2	1	1	0	2	4	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:96962894C>G	uc010how.1	+	5	1412	c.1369C>G	c.(1369-1371)CTC>GTC	p.L457V	EPHA6_uc003drp.1_Missense_Mutation_p.L457V	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	362	Fibronectin type-III 1.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						GAGAAAAGATCTCACATACAG	0.478													5	60					0	0	0.000602	0	0		G	96962894	G	G	96962894	3	3	43	1	0	0	0	0	1	0	0	0	5179	913	32	5	1387	5	EPHA6	3	96962894	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	18313607	96962894	101059536	112	33933											
OR5AC2	81050	broad.mit.edu	37	chr3	97806749	97806749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccttctccacatgcggcGcccatctgctttctgtctca	6	12	7	16	2	4	0	1	0	4	0	6	0	4	0	3	1	3	1	3	1	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:97806749G>A	uc011bgs.1	+	1	733	c.733G>A	c.(733-735)GCC>ACC	p.A245T		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CACATGCGGCGCCCATCTGCT	0.423													11	85					0	0	0.010729	0	0		A	97806749	A	A	97806749	3	1	43	1	0	0	0	0	1	0	0	0	11160	1087	38	1	735	1	OR5AC2	3	97806749	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	843855	97806749	100215681	113	33934											
HHLA2	11148	broad.mit.edu	37	chr3	108072517	108072517	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatgagattcaaaatgggaAtgcgtcgctatttttcagaa	14	13	9	5	2	2	2	2	1	0	2	3	4	2	3	0	1	1	1	0	1	6	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:108072517A>G	uc003dwy.3	+	4	475	c.308A>G	c.(307-309)AAT>AGT	p.N103S	HHLA2_uc011bhl.1_Intron|HHLA2_uc010hpu.2_Missense_Mutation_p.N103S|HHLA2_uc003dwz.2_Missense_Mutation_p.N103S	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	103	Ig-like V-type 1.					integral to membrane				ovary(1)	1						CAAAATGGGAATGCGTCGCTA	0.403													6	103					0	0	0.001168	0	0		G	108072517	G	G	108072517	3	3	43	1	0	0	0	0	1	0	0	0	7111	101	4	3	314	3	HHLA2	3	108072517	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	10265768	108072517	89949913	114	33935											
KIAA1524	57650	broad.mit.edu	37	chr3	108298166	108298166	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttaggattcttaaggagAtccatcagtaggtcaactga	13	13	9	6	0	3	2	2	1	1	1	4	4	4	3	1	3	1	1	1	3	4	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:108298166A>T	uc003dxb.3	-	7	1049	c.780T>A	c.(778-780)GAT>GAA	p.D260E	KIAA1524_uc003dxc.1_Missense_Mutation_p.D101E|KIAA1524_uc010hpw.1_Missense_Mutation_p.D101E	NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	260						cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						TCTTAAGGAGATCCATCAGTA	0.323													27	207					0	0	0.009535	0	0		T	108298166	T	T	108298166	3	4	43	1	0	0	0	0	1	0	0	0	8255	330	12	5	1997	5	KIAA1524	3	108298166	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	225649	108298166	89724264	115	33936											
CCDC80	151887	broad.mit.edu	37	chr3	112324517	112324517	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccgtcttttccgactagaAgcatggagaagtactccggg	9	11	11	10	3	1	2	0	0	1	2	4	4	4	2	3	2	2	2	3	2	4	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:112324517A>C	uc003dzf.2	-	8	2818	c.2600T>G	c.(2599-2601)CTT>CGT	p.L867R	CCDC80_uc011bhv.1_Missense_Mutation_p.L840R|CCDC80_uc003dzg.2_Missense_Mutation_p.L867R	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	867										ovary(2)	2						TCCGACTAGAAGCATGGAGAA	0.448													16	97					0	0	0.004007	0	0		C	112324517	C	C	112324517	3	2	43	1	0	0	0	0	1	0	0	0	2857	72	3	5	256	5	CCDC80	3	112324517	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	4026351	112324517	85697913	116	33937											
SIDT1	54847	broad.mit.edu	37	chr3	113320434	113320434	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcttcactttttttaacaGgctctggaaatatggtggca	9	15	8	9	0	3	0	1	0	2	0	3	1	3	1	1	4	1	2	1	4	3	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:113320434G>T	uc003eak.2	+	11	1697	c.1046_splice	c.e11-1	p.G349_splice	SIDT1_uc011bif.1_Splice_Site|SIDT1_uc003eaj.1_Splice_Site_p.G349_splice|SIDT1_uc011big.1_Splice_Site_p.G102_splice|SIDT1_uc011bih.1_5'Flank	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor							integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						TTTTTTAACAGGCTCTGGAAA	0.413													7	58					1.6384e-10	1.82998e-10	0.001984	1	0		T	113320434	T	T	113320434	5	4	43	1	0	0	0	0	0	0	1	0	14327	1014	35	5	1087	5	SIDT1	3	113320434	Splice_Site	SNP	G	TCGA-BR-6802-01A-11D-1882-08	995917	113320434	84701996	117	33938											
SLC12A8	84561	broad.mit.edu	37	chr3	124829094	124829094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcaatgcactgcaggatgCggggagctccataaagtcct	10	7	14	10	1	0	0	0	0	0	0	2	2	2	2	2	4	4	4	2	4	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:124829094C>T	uc003ehv.3	-	9	1109	c.998G>A	c.(997-999)CGC>CAC	p.R333H	SLC12A8_uc003ehw.3_Missense_Mutation_p.R362H|SLC12A8_uc003eht.3_Missense_Mutation_p.R134H|SLC12A8_uc003ehu.3_Missense_Mutation_p.R86H|SLC12A8_uc010hry.2_Missense_Mutation_p.R86H	NM_024628	NP_078904	A0AV02	S12A8_HUMAN	solute carrier family 12, member 8	333					potassium ion transport	integral to membrane	symporter activity				0						CTGCAGGATGCGGGGAGCTCC	0.507													21	92					0	0	0.008871	0	0		T	124829094	T	T	124829094	3	4	43	1	0	0	0	0	1	0	0	0	14414	768	27	1	1170	1	SLC12A8	3	124829094	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	11508660	124829094	73193336	118	33939											
TF	7018	broad.mit.edu	37	chr3	133486949	133486949	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagctgtgtatgggctcaggCctaaacctgtgtgaacccaa	11	9	11	10	0	1	1	1	1	0	0	1	1	1	1	3	2	3	3	3	2	6	2	rs34657694		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:133486949C>T	uc003epu.1	+	18	3291	c.1563C>T	c.(1561-1563)GGC>GGT	p.G521G	TF_uc011blt.1_Silent_p.G394G|TF_uc003epw.1_Intron|TF_uc003epv.1_Silent_p.G521G	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	521	Transferrin-like 2.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	TGGGCTCAGGCCTAAACCTGT	0.448													23	78					0	0	0.012319	0	0		T	133486949	T	T	133486949	2	4	43	1	0	0	0	0	0	0	0	1	15810	726	26	2		2	TF	3	133486949	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	8657855	133486949	64535481	119	33940											
CHST2	9435	broad.mit.edu	37	chr3	142840554	142840554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggagtgccgcaagtaccGcacactagtcataaagggtg	12	6	14	9	2	1	0	1	0	0	0	1	2	1	2	2	3	2	3	2	3	5	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:142840554G>A	uc003evm.2	+	2	1785	c.896G>A	c.(895-897)CGC>CAC	p.R299H		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	299	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						CGCAAGTACCGCACACTAGTC	0.647													5	11					0	0	0.000602	0	0		A	142840554	A	A	142840554	3	1	43	1	0	0	0	0	1	0	0	0	3407	1087	38	1	898	1	CHST2	3	142840554	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	9353605	142840554	55181876	120	33941											
WWTR1	25937	broad.mit.edu	37	chr3	149290705	149290705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcactggtgtggaactgaCggcagggtggaggttcatat	9	9	17	6	1	1	1	1	1	0	0	1	3	1	3	0	7	1	3	0	7	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:149290705C>T	uc003exe.2	-	2	530	c.514G>A	c.(514-516)GTC>ATC	p.V172I	WWTR1_uc003exf.2_Missense_Mutation_p.V172I|WWTR1_uc011bns.1_Missense_Mutation_p.V172I|WWTR1_uc003exh.2_Missense_Mutation_p.V172I	NM_015472	NP_056287	Q9GZV5	WWTR1_HUMAN	WW domain containing transcription regulator 1	172					hippo signaling cascade|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of protein kinase activity|negative regulation of protein phosphorylation|positive regulation of cell proliferation|positive regulation of epithelial to mesenchymal transition|regulation of SMAD protein import into nucleus|stem cell division|transcription, DNA-dependent	cytoplasm	transcription coactivator activity			breast(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			GTGGAACTGACGGCAGGGTGG	0.413													8	82					0	0	0.004482	0	0		T	149290705	T	T	149290705	3	4	43	1	0	0	0	0	1	0	0	0	17443	536	19	1	708	1	WWTR1	3	149290705	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	6450151	149290705	48731725	121	33942											
FAM194A	131831	broad.mit.edu	37	chr3	150403619	150403619	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacgttcttagagaaggctcGaacagtgttatgaagtcttc	12	12	10	7	2	2	2	0	1	2	1	4	4	2	2	0	1	2	3	0	1	6	4	rs149996868		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:150403619G>A	uc003eyg.2	-	6	750	c.693C>T	c.(691-693)TTC>TTT	p.F231F	FAM194A_uc003eyh.2_Silent_p.F85F	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	231										skin(2)|ovary(1)	3						GAGAAGGCTCGAACAGTGTTA	0.383													9	91					0	0	0.006214	0	0		A	150403619	A	A	150403619	2	1	43	1	0	0	0	0	0	0	0	1	5537	1049	37	1		1	FAM194A	3	150403619	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1112914	150403619	47618811	122	33943											
PLCH1	23007	broad.mit.edu	37	chr3	155199080	155199080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcacgactagcaatattgcGcactctgctctgacttctgg	8	11	10	12	2	3	1	0	1	3	0	3	2	3	1	0	2	3	4	0	2	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:155199080G>A	uc011bok.1	-	23	5036	c.4759C>T	c.(4759-4761)CGC>TGC	p.R1587C	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.R1549C	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1587					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GCAATATTGCGCACTCTGCTC	0.512													7	188					0	0	0.00308	0	0		A	155199080	A	A	155199080	3	1	43	1	0	0	0	0	1	0	0	0	12056	1087	38	1	326	1	PLCH1	3	155199080	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	4795461	155199080	42823350	123	33944											
PLCH1	23007	broad.mit.edu	37	chr3	155203278	155203278	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtggtcctcctcagcacGccatcttgatctcttgtggc	4	13	10	14	2	3	1	1	1	2	0	6	1	5	1	3	2	1	1	3	2	0	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:155203278G>A	uc011bok.1	-	22	3142	c.2865C>T	c.(2863-2865)GGC>GGT	p.G955G	PLCH1_uc011boj.1_Silent_p.G955G|PLCH1_uc011bol.1_Silent_p.G917G	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	955					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TCCTCAGCACGCCATCTTGAT	0.522													18	148					0	0	0.007413	0	0		A	155203278	A	A	155203278	2	1	43	1	0	0	0	0	0	0	0	1	12056	1074	38	1		1	PLCH1	3	155203278	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	4198	155203278	42819152	124	33945											
TNFSF10	8743	broad.mit.edu	37	chr3	172241098	172241098	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccacacagagagactgcAggagcactgtgaagatcacg	14	4	12	11	1	1	4	1	1	0	3	1	6	1	5	1	1	3	2	1	1	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:172241098A>C	uc003fid.2	-	1	172	c.77T>G	c.(76-78)CTG>CGG	p.L26R	TNFSF10_uc003fie.2_Missense_Mutation_p.L26R|TNFSF10_uc010hwu.1_RNA	NM_003810	NP_003801	P50591	TNF10_HUMAN	tumor necrosis factor (ligand) superfamily,	26	Helical; Signal-anchor for type II membrane protein; (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of apoptosis by extracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane|soluble fraction	cytokine activity|metal ion binding|tumor necrosis factor receptor binding			skin(4)|lung(1)	5	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.67e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			GAGAGACTGCAGGAGCACTGT	0.547													17	140					0	0	0.010504	0	0		C	172241098	C	C	172241098	3	2	43	1	0	0	0	0	1	0	0	0	16326	188	7	5	788	5	TNFSF10	3	172241098	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	17037820	172241098	25781332	125	33946											
PIK3CA	5290	broad.mit.edu	37	chr3	178936092	178936092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctctctgaaatcactgAgcaggagaaagattttctat	12	13	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs121913274		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:178936092A>G	uc003fjk.2	+	10	1791	c.1634A>G	c.(1633-1635)GAG>GGG	p.E545G		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GAAATCACTGAGCAGGAGAAA	0.353	E545G(KCL22_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545A(AGS_STOMACH)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			12	84					0	0	0.001855	0	0		G	178936092	G	G	178936092	3	3	43	1	0	0	0	0	1	0	0	0	11932	304	11	3	1668	3	PIK3CA	3	178936092	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	6694994	178936092	19086338	126	33947											
USP13	8975	broad.mit.edu	37	chr3	179478997	179478997	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttcactggaaatatgggCgccgaggtggccttcaactg	9	10	12	10	2	2	0	2	0	0	0	2	2	2	1	2	4	2	0	2	4	4	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:179478997C>T	uc003fkh.2	+	17	2127	c.2046C>T	c.(2044-2046)GGC>GGT	p.G682G		NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	682	UBA 1.				ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			GAAATATGGGCGCCGAGGTGG	0.522													14	122					0	0	0.003163	0	0		T	179478997	T	T	179478997	2	4	43	1	0	0	0	0	0	0	0	1	17070	755	27	1		1	USP13	3	179478997	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	542905	179478997	18543433	127	33948											
EIF4G1	1981	broad.mit.edu	37	chr3	184038434	184038434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatccgaattcgagatcCaaaccaaggaggaaaggata	17	5	10	9	2	0	2	0	0	0	2	3	7	2	5	4	3	1	0	4	3	5	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:184038434C>T	uc003fnp.2	+	8	752	c.554C>T	c.(553-555)CCA>CTA	p.P185L	EIF4G1_uc003fno.1_Missense_Mutation_p.P126L|EIF4G1_uc010hxw.1_Missense_Mutation_p.P21L|EIF4G1_uc003fnt.2_5'UTR|EIF4G1_uc003fnq.2_Missense_Mutation_p.P98L|EIF4G1_uc003fnr.2_Missense_Mutation_p.P21L|EIF4G1_uc010hxx.2_Missense_Mutation_p.P192L|EIF4G1_uc003fns.2_Missense_Mutation_p.P145L|EIF4G1_uc010hxy.2_Missense_Mutation_p.P192L|EIF4G1_uc010hxz.1_Missense_Mutation_p.P98L|EIF4G1_uc003fnv.3_Missense_Mutation_p.P185L|EIF4G1_uc003fnu.3_Missense_Mutation_p.P185L|EIF4G1_uc003fnw.2_Missense_Mutation_p.P192L|EIF4G1_uc003fnx.2_5'UTR|EIF4G1_uc003fny.3_5'UTR	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	185	PABPC1-binding.			DPNQ->AAAA: Loss of PABPC1 binding; when associated with 174-AAAAA-178.	insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ATTCGAGATCCAAACCAAGGA	0.537													16	114					0	0	0.007413	0	0		T	184038434	T	T	184038434	3	4	43	1	0	0	0	0	1	0	0	0	5044	594	21	4	576	4	EIF4G1	3	184038434	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4559437	184038434	13983996	128	33949											
EIF4G1	1981	broad.mit.edu	37	chr3	184044360	184044360	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctttgcacctggagggCgactgagctggggcaagggc	7	7	17	10	1	1	1	0	1	1	0	1	3	1	2	1	5	3	4	1	5	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:184044360C>T	uc003fnp.2	+	22	3466	c.3268C>T	c.(3268-3270)CGA>TGA	p.R1090*	EIF4G1_uc003fnt.2_Nonsense_Mutation_p.R801*|EIF4G1_uc003fnq.2_Nonsense_Mutation_p.R1003*|EIF4G1_uc003fnr.2_Nonsense_Mutation_p.R926*|EIF4G1_uc010hxx.2_Nonsense_Mutation_p.R1097*|EIF4G1_uc003fns.2_Nonsense_Mutation_p.R1050*|EIF4G1_uc010hxy.2_Nonsense_Mutation_p.R1097*|EIF4G1_uc003fnv.3_Nonsense_Mutation_p.R1091*|EIF4G1_uc003fnu.3_Nonsense_Mutation_p.R1090*|EIF4G1_uc003fnw.2_Nonsense_Mutation_p.R1097*|EIF4G1_uc003fnx.2_Nonsense_Mutation_p.R895*|EIF4G1_uc003fny.3_Nonsense_Mutation_p.R894*|EIF4G1_uc003foa.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1090					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ACCTGGAGGGCGACTGAGCTG	0.597													21	121					0	0	0.012319	0	0		T	184044360	T	T	184044360	4	4	43	1	0	0	0	0	0	1	0	0	5044	760	27	1	3346	1	EIF4G1	3	184044360	Nonsense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	5926	184044360	13978070	129	33950											
EPHB3	2049	broad.mit.edu	37	chr3	184297328	184297328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaccctaatgaggctgttcGggagtttgccaaggagatcg	9	9	15	8	2	0	2	0	1	0	1	2	5	0	4	2	4	1	3	2	4	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:184297328G>A	uc003foz.2	+	10	2302	c.1865G>A	c.(1864-1866)CGG>CAG	p.R622Q		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	622	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			GAGGCTGTTCGGGAGTTTGCC	0.552													11	122					0	0	0.013537	0	0		A	184297328	A	A	184297328	3	1	43	1	0	0	0	0	1	0	0	0	5184	1116	39	1	1903	1	EPHB3	3	184297328	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	252968	184297328	13725102	130	33951											
TP63	8626	broad.mit.edu	37	chr3	189604248	189604248	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaacaaaatgaacagcaTgaacaagctgccttctgtga	15	9	8	9	0	2	4	0	4	2	0	2	4	2	4	1	0	6	2	1	0	6	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:189604248T>C	uc003fry.2	+	11	1504	c.1415T>C	c.(1414-1416)ATG>ACG	p.M472T	TP63_uc003frz.2_Missense_Mutation_p.M472T|TP63_uc010hzc.1_Missense_Mutation_p.M472T|TP63_uc003fsc.2_Missense_Mutation_p.M378T|TP63_uc003fsd.2_Missense_Mutation_p.M378T|TP63_uc010hzd.1_Missense_Mutation_p.M293T	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	472					anti-apoptosis|cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		ATGAACAGCATGAACAAGCTG	0.488									Hay-Wells_syndrome	HNSCC(45;0.13)			23	91					0	0	0.014323	0	0		C	189604248	C	C	189604248	3	2	43	1	0	0	0	0	1	0	0	0	16418	1464	51	3	1622	3	TP63	3	189604248	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	5306920	189604248	8418182	131	33952											
LRRC15	131578	broad.mit.edu	37	chr3	194081221	194081221	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgggtgagatgtgggtgagGctattcttgcccagattgag	7	12	16	6	0	1	4	0	3	1	2	1	5	1	4	1	3	1	1	1	3	1	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:194081221G>A	uc003ftu.2	-	2	638	c.552C>T	c.(550-552)AGC>AGT	p.S184S	LRRC15_uc003ftt.2_Silent_p.S190S	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	184	Extracellular (Potential).|LRR 6.					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		TGTGGGTGAGGCTATTCTTGC	0.572													38	293					0	0	0.007835	0	0		A	194081221	A	A	194081221	2	1	43	1	0	0	0	0	0	0	0	1	8988	1194	42	2		2	LRRC15	3	194081221	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	4476973	194081221	3941209	132	33953											
MUC4	4585	broad.mit.edu	37	chr3	195480005	195480005	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcaggtgcacatgggcTgacagcccagagtctgggag	8	5	19	9	0	1	2	0	1	1	1	1	3	1	3	1	5	2	3	1	5	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr3:195480005T>C	uc011bto.1	-	21	15501	c.15041A>G	c.(15040-15042)CAG>CGG	p.Q5014R	MUC4_uc010hzq.2_5'UTR|MUC4_uc003fuz.2_Missense_Mutation_p.Q740R|MUC4_uc003fva.2_Missense_Mutation_p.Q622R|MUC4_uc003fvb.2_Missense_Mutation_p.Q658R|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.Q658R|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.Q622R|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.Q706R|MUC4_uc011bti.1_Missense_Mutation_p.Q706R|MUC4_uc011btj.1_Missense_Mutation_p.Q883R|MUC4_uc011btk.1_Missense_Mutation_p.Q622R|MUC4_uc011btl.1_Missense_Mutation_p.Q651R|MUC4_uc011btm.1_Missense_Mutation_p.Q831R|MUC4_uc011btn.1_Missense_Mutation_p.Q622R|MUC4_uc003fvo.2_Missense_Mutation_p.Q906R|MUC4_uc003fvp.2_Missense_Mutation_p.Q855R	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1899	EGF-like 1.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GCACATGGGCTGACAGCCCAG	0.582													11	190					0	0	0.010729	0	0		C	195480005	C	C	195480005	3	2	43	1	0	0	0	0	1	0	0	0	9996	1580	55	3	837	3	MUC4	3	195480005	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	1398784	195480005	2542425	133	33954											
KIAA1530	57654	broad.mit.edu	37	chr4	1343557	1343557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgaggcaggcgaccacccGggccgtggaagggtggaatg	8	4	19	10	3	0	1	0	1	0	0	0	4	0	3	3	6	0	2	3	6	2	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:1343557G>A	uc003gde.3	+	3	791	c.344G>A	c.(343-345)CGG>CAG	p.R115Q		NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	115											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			GCGACCACCCGGGCCGTGGAA	0.622													4	45					0	0	0.009096	0	0		A	1343557	A	A	1343557	3	1	43	1	0	0	0	0	1	0	0	0	8257	1116	39	1	350	1	KIAA1530	4	1343557	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08		1343557	189810719	134	33955											
JAKMIP1	152789	broad.mit.edu	37	chr4	6080672	6080672	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgcaggctcaccttgggCggtttcagacttttccctcg	5	12	10	14	3	2	1	2	0	0	1	5	1	3	1	2	3	0	3	2	3	0	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:6080672C>T	uc003giu.3	-	8	1572	c.1296G>A	c.(1294-1296)CCG>CCA	p.P432P	JAKMIP1_uc010idb.1_Silent_p.P432P|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Silent_p.P432P|JAKMIP1_uc011bwc.1_Silent_p.P267P|JAKMIP1_uc003giv.3_Silent_p.P432P|JAKMIP1_uc010ide.2_Silent_p.P432P	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	432	Mediates interaction with TYK2 and GABBR1.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TCACCTTGGGCGGTTTCAGAC	0.577													9	69					0	0	0.004482	0	0		T	6080672	T	T	6080672	2	4	43	1	0	0	0	0	0	0	0	1	7956	755	27	1		1	JAKMIP1	4	6080672	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4737115	6080672	185073604	135	33956											
CPZ	8532	broad.mit.edu	37	chr4	8613861	8613861	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagagggggagcatcatcaaCggggcggactggtacagctt	11	6	16	8	2	2	1	2	0	0	1	2	3	2	3	0	6	4	3	0	6	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:8613861C>T	uc003glm.2	+	8	1461	c.1335C>T	c.(1333-1335)AAC>AAT	p.N445N	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Silent_p.N308N|CPZ_uc003glo.2_Silent_p.N434N|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	445					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						GCATCATCAACGGGGCGGACT	0.413													4	29					0	0	0.000602	0	0		T	8613861	T	T	8613861	2	4	43	1	0	0	0	0	0	0	0	1	3842	535	19	1		1	CPZ	4	8613861	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2533189	8613861	182540415	136	33957											
SEL1L3	23231	broad.mit.edu	37	chr4	25849011	25849011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgatgatctttgaaagggCgttcaaaaggcgggatggtc	10	11	14	6	2	2	3	1	3	1	0	3	4	2	4	0	4	0	1	0	4	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:25849011C>T	uc003gru.3	-	2	790	c.638G>A	c.(637-639)CGC>CAC	p.R213H		NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	213						integral to membrane	binding				0						TTTGAAAGGGCGTTCAAAAGG	0.458													20	98					0	0	0.012319	0	0		T	25849011	T	T	25849011	3	4	43	1	0	0	0	0	1	0	0	0	14037	768	27	1	2852	1	SEL1L3	4	25849011	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	17235150	25849011	165305265	137	33958											
CHRNA9	55584	broad.mit.edu	37	chr4	40351422	40351422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgccggcctcagaaaatgtgCccctgataggtgagtccaag	10	8	12	11	1	1	3	1	2	0	1	2	3	2	3	5	2	2	0	5	2	4	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:40351422C>T	uc003gva.1	+	4	905	c.889C>T	c.(889-891)CCC>TCC	p.P297S		NM_017581	NP_060051	Q9UGM1	ACHA9_HUMAN	cholinergic receptor, nicotinic, alpha 9	297					elevation of cytosolic calcium ion concentration|synaptic transmission	cell junction|postsynaptic membrane	calcium channel activity|receptor activity			breast(3)|skin(3)|central_nervous_system(1)	7					Nicotine(DB00184)	AGAAAATGTGCCCCTGATAGG	0.498													4	143					0	0	0.009096	0	0		T	40351422	T	T	40351422	3	4	43	1	0	0	0	0	1	0	0	0	3392	739	26	2	903	2	CHRNA9	4	40351422	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	14502411	40351422	150802854	138	33959											
GRXCR1	389207	broad.mit.edu	37	chr4	42965093	42965093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagttagacgaacgatgccGacgagtttctgaagctcctt	11	10	11	9	4	1	3	0	1	1	2	2	7	2	3	2	0	3	3	2	0	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:42965093G>A	uc003gwt.2	+	2	569	c.569G>A	c.(568-570)CGA>CAA	p.R190Q		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	190	Glutaredoxin.				cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						GAACGATGCCGACGAGTTTCT	0.428													34	512					0	0	0.004289	0	0		A	42965093	A	A	42965093	3	1	43	1	0	0	0	0	1	0	0	0	6828	1058	37	1	575	1	GRXCR1	4	42965093	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2613671	42965093	148189183	139	33960											
ATP10D	57205	broad.mit.edu	37	chr4	47593216	47593216	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaaagtatgctaaccaaTcagctggcaagtcaggaaga	16	7	9	9	0	3	1	3	0	0	1	3	2	3	2	1	2	3	4	1	2	6	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:47593216T>A	uc003gxk.1	+	23	4263	c.4099T>A	c.(4099-4101)TCA>ACA	p.S1367T	ATP10D_uc003gxl.1_Missense_Mutation_p.S615T	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	1367	Cytoplasmic (Potential).|ATP (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						TGCTAACCAATCAGCTGGCAA	0.463													22	142					0	0	0.00278	0	0		A	47593216	A	A	47593216	3	1	43	1	0	0	0	0	1	0	0	0	1119	1435	50	5	4185	5	ATP10D	4	47593216	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	4628123	47593216	143561060	140	33961											
FRYL	285527	broad.mit.edu	37	chr4	48545898	48545898	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agaaagtgtagttgcagtgaGaggctgctttagggccctga	10	10	15	6	0	0	3	0	2	0	2	0	4	0	3	1	2	2	5	1	2	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:48545898G>C	uc003gyh.1	-	44	6123	c.5518C>G	c.(5518-5520)CTC>GTC	p.L1840V	FRYL_uc003gyg.1_Missense_Mutation_p.L536V|FRYL_uc003gyi.1_Missense_Mutation_p.L728V|FRYL_uc003gyj.1_Missense_Mutation_p.L135V	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	1840					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						GTTGCAGTGAGAGGCTGCTTT	0.443													8	65					0	0	0.00308	0	0		C	48545898	C	C	48545898	3	2	43	1	0	0	0	0	1	0	0	0	6078	942	33	5	3607	5	FRYL	4	48545898	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	952682	48545898	142608378	141	33962											
SRD5A3	79644	broad.mit.edu	37	chr4	56233814	56233814	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttccatattcttgggatgAtgatgttcatctggtcatct	7	17	10	7	0	5	2	2	2	3	0	6	3	6	3	1	3	0	2	1	3	1	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:56233814A>G	uc003hau.2	+	4	717	c.622A>G	c.(622-624)ATG>GTG	p.M208V	uc003hav.1_Intron|uc003haw.1_Intron	NM_024592	NP_078868	Q9H8P0	PORED_HUMAN	steroid 5 alpha-reductase 3	208	Helical; (Potential).				androgen biosynthetic process|dolichol metabolic process|dolichol-linked oligosaccharide biosynthetic process|polyprenol catabolic process	endoplasmic reticulum membrane|integral to membrane	3-oxo-5-alpha-steroid 4-dehydrogenase activity|oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor				0	all_cancers(7;0.0308)|all_lung(4;0.00195)|Lung NSC(11;0.00431)|all_epithelial(27;0.0425)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.0179)			TCTTGGGATGATGATGTTCAT	0.408													19	75					0	0	0.010504	0	0		G	56233814	G	G	56233814	3	3	43	1	0	0	0	0	1	0	0	0	15165	333	12	3	636	3	SRD5A3	4	56233814	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	7687916	56233814	134920462	142	33963											
LPHN3	23284	broad.mit.edu	37	chr4	62845287	62845287	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgtgtttccagcacagtGatgcggtccatgacctcctt	7	13	9	12	1	0	2	0	2	0	0	3	2	3	2	4	1	2	2	4	1	0	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:62845287G>T	uc010ihh.2	+	15	2781	c.2608G>T	c.(2608-2610)GAT>TAT	p.D870Y	LPHN3_uc003hcq.3_Missense_Mutation_p.D870Y|LPHN3_uc003hct.2_Missense_Mutation_p.D263Y	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	857	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						CCAGCACAGTGATGCGGTCCA	0.418													44	289					8.01111e-26	9.13923e-26	0.010771	1	0		T	62845287	T	T	62845287	3	4	43	1	0	0	0	0	1	0	0	0	8935	1290	45	5	2666	5	LPHN3	4	62845287	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	6611473	62845287	128308989	143	33964											
BMP2K	55589	broad.mit.edu	37	chr4	79832739	79832739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactttgaagcctacctatcGcactccagagagggctcgca	10	8	10	13	2	0	2	0	1	0	1	3	4	1	2	3	1	2	3	3	1	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:79832739G>A	uc003hlk.2	+	16	3204	c.3038G>A	c.(3037-3039)CGC>CAC	p.R1013H	PAQR3_uc003hlm.2_Intron|PAQR3_uc003hln.2_Intron|uc010ijm.1_5'Flank	NM_198892	NP_942595	Q9NSY1	BMP2K_HUMAN	BMP-2 inducible kinase isoform a	1013						nucleus	ATP binding|protein serine/threonine kinase activity			lung(1)	1						CCTACCTATCGCACTCCAGAG	0.488													11	70					0	0	0.008291	0	0		A	79832739	A	A	79832739	3	1	43	1	0	0	0	0	1	0	0	0	1461	1087	38	1	3138	1	BMP2K	4	79832739	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	16987452	79832739	111321537	144	33965											
AFF1	4299	broad.mit.edu	37	chr4	88035905	88035905	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggcttcttccctatggCtcccgagaccagacttccaa	8	9	8	16	1	1	2	0	0	1	2	4	3	4	2	5	2	0	2	5	2	2	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:88035905C>T	uc003hqj.3	+	11	2306	c.1899C>T	c.(1897-1899)GGC>GGT	p.G633G	AFF1_uc011ccz.1_Silent_p.G640G|AFF1_uc003hqk.3_Silent_p.G633G|AFF1_uc011cda.1_Silent_p.G271G	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	633						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		TTCCCTATGGCTCCCGAGACC	0.612													17	89					0	0	0.008871	0	0		T	88035905	T	T	88035905	2	4	43	1	0	0	0	0	0	0	0	1	356	784	28	2		2	AFF1	4	88035905	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	8203166	88035905	103118371	145	33966											
DSPP	1834	broad.mit.edu	37	chr4	88535421	88535421	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtaacaatgggaatgatgAcaatgacaaatcagacagtg	17	8	11	5	0	1	4	1	3	0	1	1	5	1	5	0	2	1	1	0	2	5	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:88535421A>G	uc003hqu.2	+	5	1727	c.1607A>G	c.(1606-1608)GAC>GGC	p.D536G		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	536	Asp/Ser-rich.				biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		GGGAATGATGACAATGACAAA	0.264													10	31					0	0	0.006214	0	0		G	88535421	G	G	88535421	3	3	43	1	0	0	0	0	1	0	0	0	4788	275	10	3	1621	3	DSPP	4	88535421	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	499516	88535421	102618855	146	33967											
NDST3	9348	broad.mit.edu	37	chr4	119176867	119176867	+	Nonstop_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctgcagaaagtaagataGcactgagagaaaacttgaga	18	6	12	5	0	0	5	0	2	0	4	0	8	0	5	0	0	4	4	0	0	5	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:119176867G>T	uc003ibx.2	+	14	3025	c.2622G>T	c.(2620-2622)TAG>TAT	p.*874Y		NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	874						Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						AAGTAAGATAGCACTGAGAGA	0.458													4	41					0.00909568	0.00937397	0.009096	1	0		T	119176867	T	T	119176867	4	4	43	1	0	0	0	0	0	0	0	0	10276	966	34	5	2672	5	NDST3	4	119176867	Nonstop_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	30641446	119176867	71977409	147	33968											
KIAA1109	84162	broad.mit.edu	37	chr4	123229133	123229133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggctgaattataaggccGcctatgacaactggaatgaa	13	11	10	7	1	0	3	0	3	0	0	0	4	0	4	2	3	1	1	2	3	7	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:123229133G>A	uc003ieh.2	+	56	9916	c.9871G>A	c.(9871-9873)GCC>ACC	p.A3291T	KIAA1109_uc003iel.1_Missense_Mutation_p.A1226T	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3291					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TTATAAGGCCGCCTATGACAA	0.353													11	243					0	0	0.008291	0	0		A	123229133	A	A	123229133	3	1	43	1	0	0	0	0	1	0	0	0	8224	1087	38	1	10093	1	KIAA1109	4	123229133	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	4052266	123229133	67925143	148	33969											
FAT4	79633	broad.mit.edu	37	chr4	126389938	126389938	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagaaggtgtcagatggAcattttcacactgtgattgc	12	12	11	6	0	2	4	2	2	0	2	2	5	2	5	0	2	1	0	0	2	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:126389938A>T	uc003ifj.3	+	11	12171	c.12171A>T	c.(12169-12171)GGA>GGT	p.G4057G	FAT4_uc011cgp.1_Silent_p.G2320G|FAT4_uc003ifi.1_Silent_p.G1535G	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4057	Laminin G-like 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGTCAGATGGACATTTTCACA	0.368													16	120					0	0	0.007413	0	0		T	126389938	T	T	126389938	2	4	43	1	0	0	0	0	0	0	0	1	5706	262	10	5		5	FAT4	4	126389938	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	3160805	126389938	64764338	149	33970											
POU4F2	5458	broad.mit.edu	37	chr4	147561536	147561536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagcgcttcaagcagcgacGcatcaagctgggggtgaccc	9	5	14	13	4	2	1	2	1	0	0	2	3	2	1	1	2	4	4	1	2	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:147561536G>A	uc003ikv.2	+	2	1054	c.806G>A	c.(805-807)CGC>CAC	p.R269H		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	269	POU-specific.				estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					AAGCAGCGACGCATCAAGCTG	0.687													4	45					0	0	0.001168	0	0		A	147561536	A	A	147561536	3	1	43	1	0	0	0	0	1	0	0	0	12298	1087	38	1	812	1	POU4F2	4	147561536	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	21171598	147561536	43592740	150	33971											
SFRP2	6423	broad.mit.edu	37	chr4	154709838	154709838	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttctggtattcgatgccgtgGcacagctgcaggttggcagg	6	11	15	9	2	1	0	0	0	1	0	2	1	1	0	1	5	3	6	1	5	1	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:154709838G>A	uc003inv.1	-	1	391	c.150C>T	c.(148-150)TGC>TGT	p.C50C		NM_003013	NP_003004	Q96HF1	SFRP2_HUMAN	secreted frizzled-related protein 2 precursor	50	FZ.				brain development|cardiac left ventricle morphogenesis|cell-cell signaling|dermatome development|hemopoietic stem cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|negative regulation of cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of transcription, DNA-dependent|outflow tract morphogenesis|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell adhesion mediated by integrin|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of fat cell differentiation|positive regulation of peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter|regulation of stem cell division|sclerotome development	cytoplasm|extracellular matrix|extracellular space|plasma membrane	fibronectin binding|integrin binding|PDZ domain binding|receptor agonist activity|Wnt receptor activity|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.093)	Renal(120;0.117)				CGATGCCGTGGCACAGCTGCA	0.647													8	116					0	0	0.010729	0	0		A	154709838	A	A	154709838	2	1	43	1	0	0	0	0	0	0	0	1	14187	1195	42	2		2	SFRP2	4	154709838	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	7148302	154709838	36444438	151	33972											
DDX60	55601	broad.mit.edu	37	chr4	169227857	169227857	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttcagggaagttgaaataCgcatactcggcatcctgtgg	11	10	12	8	2	1	1	1	1	0	0	3	2	2	2	1	3	2	4	1	3	4	4	rs140161501		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:169227857C>T	uc003irp.2	-	5	571	c.279G>A	c.(277-279)GCG>GCA	p.A93A		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	93							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		AGTTGAAATACGCATACTCGG	0.363													9	57					0	0	0.006214	0	0		T	169227857	T	T	169227857	2	4	43	1	0	0	0	0	0	0	0	1	4381	523	19	1		1	DDX60	4	169227857	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	14518019	169227857	21926419	152	33973											
C4orf41	60684	broad.mit.edu	37	chr4	184622881	184622881	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggagagagtgctagtgaAtgcttttgtcttcaatgccc	9	13	11	8	0	2	2	1	1	1	1	2	4	2	3	1	1	3	2	1	1	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr4:184622881A>G	uc003ivx.2	+	26	3059	c.2883A>G	c.(2881-2883)GAA>GAG	p.E961E	C4orf41_uc003ivw.2_Silent_p.E961E|C4orf41_uc010isc.2_Silent_p.E305E|C4orf41_uc003ivy.2_Silent_p.E567E	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	961											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		GTGCTAGTGAATGCTTTTGTC	0.378													19	46					0	0	0.012319	0	0		G	184622881	G	G	184622881	2	3	43	1	0	0	0	0	0	0	0	1	2273	98	4	3		3	C4orf41	4	184622881	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	15395024	184622881	6531395	153	33974											
LPCAT1	79888	broad.mit.edu	37	chr5	1489881	1489881	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggccactttccgttggActgcgcccgtctcttgattt	3	15	10	13	3	1	1	0	1	1	0	3	2	2	2	3	2	1	1	3	2	0	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:1489881A>G	uc003jcm.2	-	4	703	c.586T>C	c.(586-588)TCC>CCC	p.S196P		NM_024830	NP_079106	Q8NF37	PCAT1_HUMAN	lysophosphatidylcholine acyltransferase 1	196	Lumenal (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(19;0.0274)|all cancers(22;0.0534)	GBM - Glioblastoma multiforme(108;0.156)		TTTCCGTTGGACTGCGCCCGT	0.502													40	263					0	0	0.006999	0	0		G	1489881	G	G	1489881	3	3	43	1	0	0	0	0	1	0	0	0	8928	275	10	3	1062	3	LPCAT1	5	1489881	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08		1489881	179425379	154	33975											
CDH18	1016	broad.mit.edu	37	chr5	19571802	19571802	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggcatggaaaatagtggtGgttcatctacatccccaaca	14	9	9	9	0	2	0	1	0	1	0	3	1	3	1	2	4	2	2	2	4	6	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:19571802G>C	uc003jgc.2	-	7	1516	c.1139C>G	c.(1138-1140)CCA>CGA	p.P380R	CDH18_uc003jgd.2_Missense_Mutation_p.P380R|CDH18_uc011cnm.1_Missense_Mutation_p.P380R	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	380	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					AAATAGTGGTGGTTCATCTAC	0.423													6	66					0	0	0.00308	0	0		C	19571802	C	C	19571802	3	2	43	1	0	0	0	0	1	0	0	0	3106	1348	47	5	1257	5	CDH18	5	19571802	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	18081921	19571802	161343458	155	33976											
RXFP3	51289	broad.mit.edu	37	chr5	33938026	33938026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctactgcctcgtgcgccGcgagttccgcaaggcgctca	5	8	11	17	6	2	0	1	0	1	0	4	1	3	0	4	1	3	3	4	1	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:33938026G>A	uc003jic.1	+	1	1538	c.1181G>A	c.(1180-1182)CGC>CAC	p.R394H		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	394	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CTCGTGCGCCGCGAGTTCCGC	0.632													11	110					0	0	0.013537	0	0		A	33938026	A	A	33938026	3	1	43	1	0	0	0	0	1	0	0	0	13786	1087	38	1	1183	1	RXFP3	5	33938026	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	14366224	33938026	146977234	156	33977											
UGT3A2	167127	broad.mit.edu	37	chr5	36049272	36049272	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgatcagtcagcaaggaacGgaatactggaacataagaca	17	6	11	7	1	2	2	2	1	0	1	2	5	2	5	0	3	4	1	0	3	6	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:36049272G>A	uc003jjz.1	-	4	655	c.562C>T	c.(562-564)CGT>TGT	p.R188C	UGT3A2_uc011cos.1_Missense_Mutation_p.R154C|UGT3A2_uc011cot.1_Intron	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	188	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AGCAAGGAACGGAATACTGGA	0.463													7	96					0	0	0.00308	0	0		A	36049272	A	A	36049272	3	1	43	1	0	0	0	0	1	0	0	0	16990	1116	39	1	1025	1	UGT3A2	5	36049272	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2111246	36049272	144865988	157	33978											
NIPBL	25836	broad.mit.edu	37	chr5	37006531	37006531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagttacaaaatcagcggatGcttgtcttacaactatcaac	14	11	7	9	1	3	0	2	0	1	0	3	2	3	1	0	1	6	2	0	1	7	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:37006531G>A	uc003jkl.3	+	17	4427	c.3928G>A	c.(3928-3930)GCT>ACT	p.A1310T	NIPBL_uc003jkk.3_Missense_Mutation_p.A1310T	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1310					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			ATCAGCGGATGCTTGTCTTAC	0.343													15	58					0	0	0.004007	0	0		A	37006531	A	A	37006531	3	1	43	1	0	0	0	0	1	0	0	0	10447	1319	46	2	3990	2	NIPBL	5	37006531	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	957259	37006531	143908729	158	33979											
NUP155	9631	broad.mit.edu	37	chr5	37314427	37314427	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcttttcacttagttgaGcctctaatgagaaaacaaaa	17	12	5	7	0	3	2	1	2	2	1	3	3	3	2	1	0	2	1	1	0	7	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:37314427G>T	uc003jku.1	-	22	2427	c.2309C>A	c.(2308-2310)GCT>GAT	p.A770D	NUP155_uc003jkt.1_Missense_Mutation_p.A711D|NUP155_uc010iuz.1_Missense_Mutation_p.A770D	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	770					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ACTTAGTTGAGCCTCTAATGA	0.308													6	32					3.59834e-05	3.85106e-05	0.001168	1	0		T	37314427	T	T	37314427	3	4	43	1	0	0	0	0	1	0	0	0	10775	971	34	5	1922	5	NUP155	5	37314427	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	307896	37314427	143600833	159	33980											
RGNEF	64283	broad.mit.edu	37	chr5	73205302	73205302	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttctccagcagcaggagggCctgtctctcggccactctat	6	10	11	14	1	3	0	0	0	3	0	6	1	3	1	3	3	2	3	3	3	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:73205302C>T	uc011csq.1	+	33	4238	c.4227C>T	c.(4225-4227)GGC>GGT	p.G1409G	RGNEF_uc003kcx.2_Silent_p.G1409G|RGNEF_uc010izf.2_Silent_p.G1409G|RGNEF_uc011csr.1_Silent_p.G1096G|RGNEF_uc003kcz.3_Silent_p.G373G|RGNEF_uc003kda.3_Silent_p.G329G	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	1409					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		AGCAGGAGGGCCTGTCTCTCG	0.602													8	33					0	0	0.00308	0	0		T	73205302	T	T	73205302	2	4	43	1	0	0	0	0	0	0	0	1	13308	726	26	2		2	RGNEF	5	73205302	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	35890875	73205302	107709958	160	33981											
F2RL2	2151	broad.mit.edu	37	chr5	75914009	75914009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggagcagtacatgttgcCatagaagatgactgtggtgg	12	10	14	5	0	0	3	0	1	0	2	0	4	0	4	1	3	3	3	1	3	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:75914009C>T	uc003kem.2	-	2	708	c.523G>A	c.(523-525)GGC>AGC	p.G175S	IQGAP2_uc003kek.2_Intron|IQGAP2_uc010izv.2_Intron|IQGAP2_uc011csv.1_Intron|IQGAP2_uc003kel.2_Intron|F2RL2_uc011csw.1_Missense_Mutation_p.G153S	NM_004101	NP_004092	O00254	PAR3_HUMAN	coagulation factor II (thrombin) receptor-like 2	175	Helical; Name=3; (Potential).				platelet activation	extracellular region|integral to plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|thrombin receptor activity			skin(2)|ovary(1)	3		all_lung(232;0.000462)|Lung NSC(167;0.00124)|Prostate(461;0.00955)|Ovarian(174;0.0129)		all cancers(79;4.43e-43)		TACATGTTGCCATAGAAGATG	0.512													19	63					0	0	0.014323	0	0		T	75914009	T	T	75914009	3	4	43	1	0	0	0	0	1	0	0	0	5353	594	21	4	605	4	F2RL2	5	75914009	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2708707	75914009	105001251	161	33982											
VCAN	1462	broad.mit.edu	37	chr5	82837780	82837780	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttctgccacctatggggtCgaggcaggtgtggtgccttg	4	11	16	10	1	1	0	0	0	1	0	2	1	1	0	3	5	2	2	3	5	1	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:82837780C>T	uc003kii.3	+	8	9314	c.8958C>T	c.(8956-8958)GTC>GTT	p.V2986V	VCAN_uc003kij.3_Silent_p.V1999V|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Silent_p.V1650V	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2986	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CCTATGGGGTCGAGGCAGGTG	0.488													4	89					0	0	0.009096	0	0		T	82837780	T	T	82837780	2	4	43	1	0	0	0	0	0	0	0	1	17164	871	31	1		1	VCAN	5	82837780	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	6923771	82837780	98077480	162	33983											
GPR98	84059	broad.mit.edu	37	chr5	90074728	90074728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagattttggccatgtgcGactctggtacaagacgatga	10	11	13	7	2	1	3	0	1	1	2	1	6	1	3	1	3	2	1	1	3	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:90074728G>A	uc003kju.2	+	64	12992	c.12896G>A	c.(12895-12897)CGA>CAA	p.R4299Q	GPR98_uc003kjt.2_Missense_Mutation_p.R2005Q|GPR98_uc003kjw.2_5'Flank	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	4299	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GGCCATGTGCGACTCTGGTAC	0.453													24	174					0	0	0.003954	0	0		A	90074728	A	A	90074728	3	1	43	1	0	0	0	0	1	0	0	0	6737	1058	37	1	13150	1	GPR98	5	90074728	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	7236948	90074728	90840532	163	33984											
NR2F1	7025	broad.mit.edu	37	chr5	92921019	92921019	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaagtcgagcggcaagcActacggccaattcacctgcg	11	5	12	13	4	1	0	1	0	0	0	2	2	1	1	2	3	4	2	2	3	4	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:92921019A>G	uc003kkj.2	+	1	1977	c.290A>G	c.(289-291)CAC>CGC	p.H97R		NM_005654	NP_005645	P10589	COT1_HUMAN	nuclear receptor subfamily 2, group F, member 1	97	NR C4-type.|Nuclear receptor.				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			urinary_tract(1)|ovary(1)|lung(1)	3		all_cancers(142;1.62e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0416)|all cancers(79;9.57e-18)		AGCGGCAAGCACTACGGCCAA	0.632													4	20					0	0	0.009096	0	0		G	92921019	G	G	92921019	3	3	43	1	0	0	0	0	1	0	0	0	10646	159	6	3	292	3	NR2F1	5	92921019	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	2846291	92921019	87994241	164	33985											
LNPEP	4012	broad.mit.edu	37	chr5	96341852	96341852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggatttcctttagtgactGttcaaaagaaaggaaaggaa	17	10	10	4	0	1	2	1	1	0	1	2	5	2	5	1	3	0	1	1	3	7	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:96341852G>A	uc003kmv.1	+	10	2375	c.1861G>A	c.(1861-1863)GTT>ATT	p.V621I	LNPEP_uc003kmw.1_Missense_Mutation_p.V607I	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1	621	Extracellular (Potential).				cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		TTTAGTGACTGTTCAAAAGAA	0.328													8	79					0	0	0.004482	0	0		A	96341852	A	A	96341852	3	1	43	1	0	0	0	0	1	0	0	0	8881	1377	48	4	1899	4	LNPEP	5	96341852	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3420833	96341852	84573408	165	33986											
AQPEP	206338	broad.mit.edu	37	chr5	115339034	115339034	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagagttaattatgataaatTaggttggaagaaactaaatc	18	13	8	2	0	0	3	0	1	0	2	1	4	0	4	0	2	1	2	0	2	10	7			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:115339034T>C	uc003kro.2	+	12	2158	c.1994T>C	c.(1993-1995)TTA>TCA	p.L665S	AQPEP_uc003krp.2_RNA|AQPEP_uc003krq.2_RNA|AQPEP_uc003krr.2_RNA|AQPEP_uc003krs.2_RNA	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	665	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						TATGATAAATTAGGTTGGAAG	0.289													13	95					0	0	0.00245	0	0		C	115339034	C	C	115339034	3	2	43	1	0	0	0	0	1	0	0	0	834	1764	61	3	2040	3	AQPEP	5	115339034	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	18997182	115339034	65576226	166	33987											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139905707	139905707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatgtggtgacaactcccaGcaccaatcggaaaaataaga	17	6	8	10	1	0	2	0	1	0	1	2	3	1	3	2	2	2	1	2	2	6	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:139905707G>A	uc003lfs.1	+	26	4743	c.4619G>A	c.(4618-4620)AGC>AAC	p.S1540N	ANKHD1_uc003lfr.2_Missense_Mutation_p.S1540N|ANKHD1_uc003lfu.1_Missense_Mutation_p.S1020N|ANKHD1-EIF4EBP3_uc011czh.1_Missense_Mutation_p.S279N|ANKHD1_uc003lfw.2_Missense_Mutation_p.S178N|ANKHD1_uc010jfl.2_5'UTR|ANKHD1-EIF4EBP3_uc003lfx.1_5'Flank	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1540						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAACTCCCAGCACCAATCGG	0.413													23	213					0	0	0.00333	0	0		A	139905707	A	A	139905707	3	1	43	1	0	0	0	0	1	0	0	0	629	971	34	2	4721	2	ANKHD1-EIF4EBP3	5	139905707	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	24566673	139905707	41009553	167	33988											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139909045	139909045	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttactttaacaccacctcaaGgcccaccagctgcagtgcag	11	8	7	15	0	1	0	1	0	0	0	1	0	1	0	4	1	5	3	4	1	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:139909045G>T	uc003lfs.1	+	29	6638	c.6514G>T	c.(6514-6516)GGC>TGC	p.G2172C	ANKHD1_uc003lfr.2_Missense_Mutation_p.G2172C|ANKHD1-EIF4EBP3_uc011czh.1_Missense_Mutation_p.G911C|ANKHD1_uc003lfw.2_Missense_Mutation_p.G810C|ANKHD1_uc010jfl.2_Missense_Mutation_p.G607C|ANKHD1-EIF4EBP3_uc003lfx.1_Missense_Mutation_p.G309C	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	2172						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCACCTCAAGGCCCACCAGC	0.443													28	214					7.41945e-09	8.24383e-09	0.005443	1	0		T	139909045	T	T	139909045	3	4	43	1	0	0	0	0	1	0	0	0	629	1000	35	5	6628	5	ANKHD1-EIF4EBP3	5	139909045	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3338	139909045	41006215	168	33989											
IK	3550	broad.mit.edu	37	chr5	140039372	140039372	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaggagttgatcaagtcCatcaatgaaaagtttgctgg	14	10	10	7	0	2	2	2	2	0	0	3	3	3	3	2	2	1	3	2	2	5	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:140039372C>A	uc003lgq.2	+	14	1337	c.1227C>A	c.(1225-1227)TCC>TCA	p.S409S		NM_006083	NP_006074	Q13123	RED_HUMAN	RED protein	409					cell-cell signaling|immune response	extracellular space|nucleus|soluble fraction				large_intestine(1)	1		all_hematologic(541;4.8e-07)|all_lung(500;0.000434)|Lung NSC(810;0.00161)|Breast(839;0.128)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGATCAAGTCCATCAATGAAA	0.468													3	15					2.56e-06	2.77695e-06	0.009096	1	0		A	140039372	A	A	140039372	2	1	43	1	0	0	0	0	0	0	0	1	7624	581	21	5		5	IK	5	140039372	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	130327	140039372	40875888	169	33990											
PCDHB6	56130	broad.mit.edu	37	chr5	140531705	140531705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcgcacaatggcgaggtgCgcaccgccaggctgctgagc	7	4	17	13	4	0	1	0	1	0	0	0	2	0	1	2	4	3	4	2	4	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:140531705C>T	uc003lir.2	+	1	1867	c.1867C>T	c.(1867-1869)CGC>TGC	p.R623C	PCDHB6_uc011dah.1_Missense_Mutation_p.R487C	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	623	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGCGAGGTGCGCACCGCCAG	0.687													16	80					0	0	0.007413	0	0		T	140531705	T	T	140531705	3	4	43	1	0	0	0	0	1	0	0	0	11565	768	27	1	1869	1	PCDHB6	5	140531705	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	492333	140531705	40383555	170	33991											
FBXO38	81545	broad.mit.edu	37	chr5	147803681	147803681	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgttgatgaggaacaagcagGtaatcatgtgatccatccca	13	10	10	8	0	1	3	1	3	0	0	3	4	3	4	2	2	2	3	2	2	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:147803681G>A	uc003lpf.1	+	13	1858	c.1738_splice	c.e13+1	p.G580_splice	FBXO38_uc003lpg.1_Splice_Site_p.G580_splice|FBXO38_uc003lph.2_Splice_Site_p.G580_splice	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b							cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAACAAGCAGGTAATCATGTG	0.448													13	64					0	0	0.003163	0	0		A	147803681	A	A	147803681	5	1	43	1	0	0	0	0	0	0	1	0	5760	1275	44	4	1785	4	FBXO38	5	147803681	Splice_Site	SNP	G	TCGA-BR-6802-01A-11D-1882-08	7271976	147803681	33111579	171	33992											
FABP6	2172	broad.mit.edu	37	chr5	159659135	159659135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgatgtaatcgaaaaggcccGcaacttcaagatcgtcacgg	13	7	10	11	5	2	1	2	0	0	1	4	3	2	1	1	2	1	2	1	2	5	2	rs17856662		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:159659135G>A	uc003lya.1	+	2	226	c.98G>A	c.(97-99)CGC>CAC	p.R33H	FABP6_uc003lxx.1_Missense_Mutation_p.R82H|FABP6_uc003lxz.1_Missense_Mutation_p.R82H	NM_001445	NP_001436	P51161	FABP6_HUMAN	gastrotropin isoform 2	33					bile acid and bile salt transport|bile acid metabolic process|negative regulation of cell proliferation	cytosol	transporter activity				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAAAAGGCCCGCAACTTCAAG	0.537													4	50					0	0	0.009096	0	0		A	159659135	A	A	159659135	3	1	43	1	0	0	0	0	1	0	0	0	5372	1087	38	1	259	1	FABP6	5	159659135	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	11855454	159659135	21256125	172	33993											
GABRA6	2559	broad.mit.edu	37	chr5	161128599	161128599	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataaagtgctcacgagagcGcccatcttacaatcaacacc	15	7	6	13	2	3	1	2	0	1	1	3	2	3	1	2	0	4	1	2	0	6	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:161128599G>A	uc003lyu.2	+	9	1520	c.1182G>A	c.(1180-1182)GCG>GCA	p.A394A	GABRA6_uc003lyv.2_Silent_p.A165A	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	394	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TCACGAGAGCGCCCATCTTAC	0.473										TCGA Ovarian(5;0.080)			4	103					0	0	0.000602	0	0		A	161128599	A	A	161128599	2	1	43	1	0	0	0	0	0	0	0	1	6179	1074	38	1		1	GABRA6	5	161128599	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1469464	161128599	19786661	173	33994											
DOCK2	1794	broad.mit.edu	37	chr5	169174437	169174437	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagatggagtttgaagaaTccatgagacggctctttgaa	14	10	11	6	1	1	5	0	3	1	3	2	7	2	6	1	2	1	2	1	2	4	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:169174437T>A	uc003maf.2	+	23	2385	c.2305T>A	c.(2305-2307)TCC>ACC	p.S769T	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.S261T	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	769					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GTTTGAAGAATCCATGAGACG	0.358													9	43					0	0	0.010729	0	0		A	169174437	A	A	169174437	3	1	43	1	0	0	0	0	1	0	0	0	4693	1435	50	5	2395	5	DOCK2	5	169174437	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	8045838	169174437	11740823	174	33995											
UIMC1	51720	broad.mit.edu	37	chr5	176333041	176333041	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtttctgaagacttgatGtctgcatctgtgatataaaa	11	15	8	7	0	3	4	0	3	3	1	3	4	3	4	1	0	1	2	1	0	4	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr5:176333041G>A	uc011dfp.1	-	14	2087	c.1920C>T	c.(1918-1920)GAC>GAT	p.D640D	UIMC1_uc003mfc.1_Silent_p.D517D|UIMC1_uc003mfd.1_Silent_p.D270D	NM_016290	NP_057374	Q96RL1	UIMC1_HUMAN	ubiquitin interaction motif containing 1	640					double-strand break repair|G2/M transition DNA damage checkpoint|histone H2A K63-linked deubiquitination|negative regulation of transcription, DNA-dependent|positive regulation of DNA repair|response to ionizing radiation|transcription, DNA-dependent	BRCA1-A complex	histone binding|K63-linked polyubiquitin binding			ovary(3)|skin(1)	4	all_cancers(89;7.96e-05)|Renal(175;0.000269)|Lung NSC(126;0.00476)|all_lung(126;0.00806)	Medulloblastoma(196;0.0145)|all_neural(177;0.0325)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAGACTTGATGTCTGCATCTG	0.418													4	53					0	0	0.009096	0	0		A	176333041	A	A	176333041	2	1	43	1	0	0	0	0	0	0	0	1	16997	1368	48	4		4	UIMC1	5	176333041	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	7158604	176333041	4582219	175	33996											
F13A1	2162	broad.mit.edu	37	chr6	6266932	6266932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaagactggatggacagccGcacagacctgtcctctctca	10	7	11	13	1	2	2	1	0	1	2	4	5	3	5	3	3	1	1	3	3	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:6266932G>A	uc003mwv.2	-	4	553	c.430C>T	c.(430-432)CGG>TGG	p.R144W	F13A1_uc011dib.1_Missense_Mutation_p.R81W	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	144					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	ATGGACAGCCGCACAGACCTG	0.512													13	73					0	0	0.001855	0	0		A	6266932	A	A	6266932	3	1	43	1	0	0	0	0	1	0	0	0	5348	1086	38	1	1816	1	F13A1	6	6266932	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08		6266932	164848135	176	33997											
HIVEP1	3096	broad.mit.edu	37	chr6	12122709	12122709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccagagtgggcatccccGtacacttgtgagacaagcag	10	6	12	13	1	0	2	0	1	0	2	1	3	1	2	4	1	2	3	4	1	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:12122709G>A	uc003nac.2	+	4	2860	c.2681G>A	c.(2680-2682)CGT>CAT	p.R894H	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	894					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				GGGCATCCCCGTACACTTGTG	0.478													19	121					0	0	0.008871	0	0		A	12122709	A	A	12122709	3	1	43	1	0	0	0	0	1	0	0	0	7202	1145	40	1	2691	1	HIVEP1	6	12122709	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	5855777	12122709	158992358	177	33998											
GFOD1	54438	broad.mit.edu	37	chr6	13486905	13486905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatctgtctggtgaggggcGgcggcaggttaatgcacacc	7	8	16	10	3	2	1	0	1	2	0	2	2	2	1	1	6	1	3	1	6	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:13486905G>A	uc003nat.1	-	1	883	c.218C>T	c.(217-219)CCG>CTG	p.P73L	GFOD1_uc003nas.1_5'Flank|C6orf114_uc003nav.2_5'Flank	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	73						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			GGTGAGGGGCGGCGGCAGGTT	0.592													6	74					0	0	0.001168	0	0		A	13486905	A	A	13486905	3	1	43	1	0	0	0	0	1	0	0	0	6358	1116	39	1	962	1	GFOD1	6	13486905	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1364196	13486905	157628162	178	33999											
TRIM26	7726	broad.mit.edu	37	chr6	30166571	30166571	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcagcttctctcggtgtcGctcgcacaactttgcatcct	5	13	9	14	3	1	0	0	0	1	0	6	0	2	0	1	1	4	5	1	1	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:30166571G>A	uc003npr.2	-	3	519	c.310C>T	c.(310-312)CGA>TGA	p.R104*	TRIM26_uc003nps.2_Nonsense_Mutation_p.R104*|TRIM26_uc010jry.2_5'UTR|TRIM26_uc003npt.2_Nonsense_Mutation_p.R104*|TRIM26_uc003npu.1_Nonsense_Mutation_p.R104*	NM_003449	NP_003440	Q12899	TRI26_HUMAN	tripartite motif-containing 26	104	B box-type.						DNA binding|zinc ion binding			ovary(2)|lung(1)	3						TCTCGGTGTCGCTCGCACAAC	0.642													20	80					0	0	0.014323	0	0		A	30166571	A	A	30166571	4	1	43	1	0	0	0	0	0	1	0	0	16526	1095	38	1	1337	1	TRIM26	6	30166571	Nonsense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	16679666	30166571	140948496	179	34000											
MDC1	9656	broad.mit.edu	37	chr6	30670948	30670948	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacaggaacttgactgtcCggcggatgcgatcagtgacc	10	7	12	12	3	1	2	1	2	0	0	2	5	2	4	2	3	2	0	2	3	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:30670948C>T	uc003nrg.3	-	12	6238	c.5798G>A	c.(5797-5799)CGG>CAG	p.R1933Q	MDC1_uc003nrf.3_Missense_Mutation_p.R564Q	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1933	BRCT 1.|Required for nuclear localization (NLS2).				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						CTTGACTGTCCGGCGGATGCG	0.627								Other_conserved_DNA_damage_response_genes					11	45					0	0	0.010729	0	0		T	30670948	T	T	30670948	3	4	43	1	0	0	0	0	1	0	0	0	9421	652	23	1	487	1	MDC1	6	30670948	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	504377	30670948	140444119	180	34001											
HLA-DRA	3122	broad.mit.edu	37	chr6	32410444	32410444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggaaatcatgacaaagcGctccaactatactccgatca	14	8	6	13	2	2	1	2	1	0	0	4	3	4	2	3	1	3	1	3	1	5	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:32410444G>A	uc003obh.2	+	2	383	c.302G>A	c.(301-303)CGC>CAC	p.R101H	HLA-DRA_uc003obi.2_Missense_Mutation_p.R101H	NM_019111	NP_061984	P01903	DRA_HUMAN	major histocompatibility complex, class II, DR	101	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|Golgi apparatus|integral to plasma membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity			ovary(1)|skin(1)	2						ATGACAAAGCGCTCCAACTAT	0.483									T-cell_Lymphoma_(Cutaneous)__Familial_Clustering_of|Kaposi_Sarcoma_Familial_Clustering_of				6	183					0	0	0.001984	0	0		A	32410444	A	A	32410444	3	1	43	1	0	0	0	0	1	0	0	0	7223	1087	38	1	308	1	HLA-DRA	6	32410444	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1739496	32410444	138704623	181	34002											
HLA-DPB1	3115	broad.mit.edu	37	chr6	33052994	33052994	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagcctggatagtcctgTcaccgtggagtggagtgagt	8	9	14	10	1	1	1	1	1	0	0	2	4	2	4	4	3	1	0	4	3	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:33052994T>C	uc003ocu.1	+	3	691	c.632T>C	c.(631-633)GTC>GCC	p.V211A	HLA-DPB1_uc011dqo.1_RNA|HLA-DPB1_uc011dqp.1_Missense_Mutation_p.V210A|HLA-DPB1_uc011dqq.1_Missense_Mutation_p.V107A	NM_002121	NP_002112	P04440	DPB1_HUMAN	major histocompatibility complex, class II, DP	211	Beta-2.|Ig-like C1-type.|Extracellular (Potential).				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to membrane|lysosomal membrane|MHC class II protein complex				ovary(1)	1						GATAGTCCTGTCACCGTGGAG	0.567													9	66					0	0	0.008291	0	0		C	33052994	C	C	33052994	3	2	43	1	0	0	0	0	1	0	0	0	7219	1667	58	3	642	3	HLA-DPB1	6	33052994	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	642550	33052994	138062073	182	34003											
ZBTB22	9278	broad.mit.edu	37	chr6	33283621	33283621	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagggtacggacatcacttAtgctgagggtagcctcaggc	9	9	13	10	1	3	1	3	1	0	0	3	2	3	2	1	4	3	3	1	4	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:33283621A>G	uc003oeb.2	-	2	1225	c.1073T>C	c.(1072-1074)ATA>ACA	p.I358T	TAPBP_uc003odx.1_5'Flank|TAPBP_uc010jus.1_5'Flank|TAPBP_uc003ody.2_5'Flank|TAPBP_uc003odz.2_5'Flank|TAPBP_uc010jut.1_5'Flank|TAPBP_uc011drc.1_5'Flank|ZBTB22_uc010juu.2_Missense_Mutation_p.I358T	NM_005453	NP_005444	O15209	ZBT22_HUMAN	zinc finger and BTB domain containing 22	358					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GACATCACTTATGCTGAGGGT	0.567													20	89					0	0	0.008871	0	0		G	33283621	G	G	33283621	3	3	43	1	0	0	0	0	1	0	0	0	17555	449	16	3	835	3	ZBTB22	6	33283621	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	230627	33283621	137831446	183	34004											
SYNGAP1	8831	broad.mit.edu	37	chr6	33411173	33411173	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcggccatggagggggCggtggccatggcccaccttc	5	5	17	14	2	0	0	0	0	0	0	1	1	0	1	5	8	0	0	5	8	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:33411173C>T	uc011dri.1	+	15	3039	c.2844C>T	c.(2842-2844)GGC>GGT	p.G948G	SYNGAP1_uc010juy.2_Silent_p.G919G|SYNGAP1_uc010juz.2_Silent_p.G660G	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	948					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						ATGGAGGGGGCGGTGGCCATG	0.557													34	185					0	0	0.013726	0	0		T	33411173	T	T	33411173	2	4	43	1	0	0	0	0	0	0	0	1	15472	755	27	1		1	SYNGAP1	6	33411173	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	127552	33411173	137703894	184	34005											
ITPR3	3710	broad.mit.edu	37	chr6	33631536	33631536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacagggccgcacaggcCgcaggaatgctggggagaag	10	2	19	10	2	0	1	0	0	0	1	0	3	0	2	2	6	1	4	2	6	2	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:33631536C>T	uc011drk.1	+	11	1246	c.1027C>T	c.(1027-1029)CGC>TGC	p.R343C		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	343	MIR 4.|Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CCGCACAGGCCGCAGGAATGC	0.592													7	52					0	0	0.001984	0	0		T	33631536	T	T	33631536	3	4	43	1	0	0	0	0	1	0	0	0	7938	652	23	1	1069	1	ITPR3	6	33631536	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	220363	33631536	137483531	185	34006											
PPARD	5467	broad.mit.edu	37	chr6	35392202	35392202	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctccctacaaggagatcAgcgtgcacgtcttctaccgc	8	9	9	15	3	3	1	1	0	2	1	4	2	4	1	3	1	5	1	3	1	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:35392202A>G	uc003okm.2	+	7	1033	c.724A>G	c.(724-726)AGC>GGC	p.S242G	PPARD_uc003okl.2_Missense_Mutation_p.S242G|PPARD_uc003okn.2_Missense_Mutation_p.S242G|PPARD_uc011dtb.1_Missense_Mutation_p.S203G|PPARD_uc011dtc.1_Missense_Mutation_p.S144G	NM_006238	NP_006229	Q03181	PPARD_HUMAN	peroxisome proliferative activated receptor,	242					apoptosis|axon ensheathment|cholesterol metabolic process|decidualization|embryo implantation|fatty acid beta-oxidation|fatty acid transport|generation of precursor metabolites and energy|glucose metabolic process|glucose transport|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fat cell differentiation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|linoleic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1					Icosapent(DB00159)|Sulindac(DB00605)|Treprostinil(DB00374)	CAAGGAGATCAGCGTGCACGT	0.587													3	63					0	0	0.004672	0	0		G	35392202	G	G	35392202	3	3	43	1	0	0	0	0	1	0	0	0	12317	188	7	3	759	3	PPARD	6	35392202	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	1760666	35392202	135722865	186	34007											
FGD2	221472	broad.mit.edu	37	chr6	36982747	36982747	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacccctctaacaccctgcTccgtgagggcccggtcctca	7	7	9	18	2	2	2	1	1	1	1	4	2	4	2	6	2	2	1	6	2	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:36982747T>A	uc010jwp.1	+	8	1133	c.962T>A	c.(961-963)CTC>CAC	p.L321H	FGD2_uc003ong.2_Missense_Mutation_p.L43H|FGD2_uc011dtv.1_5'UTR|FGD2_uc003oni.1_Missense_Mutation_p.L127H	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	321	PH 1.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3						AACACCCTGCTCCGTGAGGGC	0.632													11	49					0	0	0.013537	0	0		A	36982747	A	A	36982747	3	1	43	1	0	0	0	0	1	0	0	0	5847	1551	54	5	992	5	FGD2	6	36982747	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	1590545	36982747	134132320	187	34008											
TRERF1	55809	broad.mit.edu	37	chr6	42204045	42204045	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacggggacgggtggtggCtccggggacttcggcacctc	5	6	19	11	4	0	0	0	0	0	0	3	3	1	3	2	9	0	2	2	9	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:42204045C>A	uc003osd.2	-	16	3527	c.2964G>T	c.(2962-2964)GAG>GAT	p.E988D	TRERF1_uc011duq.1_Missense_Mutation_p.E905D|TRERF1_uc003osb.2_Missense_Mutation_p.E744D|TRERF1_uc003osc.2_Missense_Mutation_p.E744D|TRERF1_uc003ose.2_Missense_Mutation_p.E1008D	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	988	Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CGGGTGGTGGCTCCGGGGACT	0.547													4	26					0.00909568	0.00937397	0.009096	1	0		A	42204045	A	A	42204045	3	1	43	1	0	0	0	0	1	0	0	0	16501	796	28	5	650	5	TRERF1	6	42204045	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	5221298	42204045	128911022	188	34009											
KLHDC3	116138	broad.mit.edu	37	chr6	42985306	42985306	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgaagtctgccatccgtggGcaagctcctgtggtacccta	7	10	12	12	1	1	1	0	1	1	0	3	1	3	1	4	2	3	3	4	2	4	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:42985306G>A	uc003otl.2	+	3	373	c.204G>A	c.(202-204)GGG>GGA	p.G68G	KLHDC3_uc003otm.2_RNA|KLHDC3_uc010jyf.2_Silent_p.G68G|KLHDC3_uc003otn.2_5'UTR|KLHDC3_uc003oto.2_Intron	NM_057161	NP_476502	Q9BQ90	KLDC3_HUMAN	kelch domain containing 3	68	Kelch 1.				reciprocal meiotic recombination	cytoplasm|nuclear chromatin	chromatin binding|protein binding			upper_aerodigestive_tract(1)	1			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			CCATCCGTGGGCAAGCTCCTG	0.622													17	55					0	0	0.004007	0	0		A	42985306	A	A	42985306	2	1	43	1	0	0	0	0	0	0	0	1	8373	1190	42	2		2	KLHDC3	6	42985306	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	781261	42985306	128129761	189	34010											
CLIC5	53405	broad.mit.edu	37	chr6	45917038	45917038	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaactcctcgatcttattgAcgtctgtcttcacgtccccg	6	13	8	14	4	4	1	1	1	3	0	7	3	6	2	3	1	1	0	3	1	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:45917038A>G	uc003oxv.3	-	3	837	c.731T>C	c.(730-732)GTC>GCC	p.V244A	CLIC5_uc003oxu.3_Missense_Mutation_p.V85A|CLIC5_uc003oxx.2_Missense_Mutation_p.V85A	NM_001114086	NP_001107558	Q9NZA1	CLIC5_HUMAN	chloride intracellular channel 5 isoform a	244					female pregnancy	actin cytoskeleton|cell cortex|chloride channel complex|Golgi apparatus|Golgi apparatus|insoluble fraction|microtubule organizing center	protein binding|voltage-gated chloride channel activity			ovary(1)|skin(1)	2						GATCTTATTGACGTCTGTCTT	0.537													29	176					0	0	0.00632	0	0		G	45917038	G	G	45917038	3	3	43	1	0	0	0	0	1	0	0	0	3532	275	10	3	517	3	CLIC5	6	45917038	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	2931732	45917038	125198029	190	34011											
GPR116	221395	broad.mit.edu	37	chr6	46828548	46828548	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggagaagagctgatttcAtgttccgctttgtctatgct	8	14	10	9	1	2	3	1	1	1	2	3	4	3	3	2	1	2	4	2	1	2	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:46828548A>G	uc003oyo.3	-	16	2572	c.2283T>C	c.(2281-2283)CAT>CAC	p.H761H	GPR116_uc011dwj.1_Silent_p.H316H|GPR116_uc011dwk.1_Silent_p.H190H|GPR116_uc003oyp.3_Silent_p.H619H|GPR116_uc003oyq.3_Silent_p.H761H|GPR116_uc010jzi.1_Silent_p.H433H	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	761	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			AGCTGATTTCATGTTCCGCTT	0.438													7	72					0	0	0.001984	0	0		G	46828548	G	G	46828548	2	3	43	1	0	0	0	0	0	0	0	1	6648	214	8	3		3	GPR116	6	46828548	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	911510	46828548	124286519	191	34012											
GPR110	266977	broad.mit.edu	37	chr6	46977701	46977701	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttttggaaacgggtagAatgttccccagagtcaacga	12	10	10	9	2	1	2	1	0	0	2	2	4	2	3	3	2	2	2	3	2	4	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:46977701A>C	uc003oyt.2	-	11	1669	c.1470T>G	c.(1468-1470)ATT>ATG	p.I490M	GPR110_uc011dwl.1_Missense_Mutation_p.I178M	NM_153840	NP_722582	Q5T601	GP110_HUMAN	G-protein coupled receptor 110 isoform 1	490	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|pancreas(1)	3						AAACGGGTAGAATGTTCCCCA	0.418													15	97					0	0	0.003163	0	0		C	46977701	C	C	46977701	3	2	43	1	0	0	0	0	1	0	0	0	6642	242	9	5	1282	5	GPR110	6	46977701	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	149153	46977701	124137366	192	34013											
TINAG	27283	broad.mit.edu	37	chr6	54212228	54212228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggccaatctatcccctcAgaatttgatctcttgctgtg	8	13	7	13	1	3	2	1	1	2	1	5	2	4	2	3	1	1	1	3	1	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:54212228A>G	uc003pcj.2	+	6	958	c.812A>G	c.(811-813)CAG>CGG	p.Q271R	TINAG_uc010jzt.2_Intron	NM_014464	NP_055279	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	271					cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			CTATCCCCTCAGAATTTGATC	0.433													5	62					0	0	0.001168	0	0		G	54212228	G	G	54212228	3	3	43	1	0	0	0	0	1	0	0	0	15946	188	7	3	834	3	TINAG	6	54212228	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	7234527	54212228	116902839	193	34014											
DST	667	broad.mit.edu	37	chr6	56328469	56328469	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtgatgatggccgggatCttcggcctcggggtcggaaa	6	9	16	10	5	1	2	0	2	1	0	5	4	1	4	2	6	0	0	2	6	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:56328469C>A	uc003pdf.2	-	94	16452	c.16424G>T	c.(16423-16425)AGA>ATA	p.R5475I	DST_uc003pcz.3_Missense_Mutation_p.R5297I|DST_uc011dxj.1_Missense_Mutation_p.R5326I|DST_uc011dxk.1_Missense_Mutation_p.R5337I|DST_uc003pcy.3_Missense_Mutation_p.R4971I|DST_uc003pcv.3_Missense_Mutation_p.R93I|DST_uc003pcw.3_Missense_Mutation_p.R54I|DST_uc003pcx.3_Missense_Mutation_p.R54I	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	7407					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TGGCCGGGATCTTCGGCCTCG	0.592													5	187					1.23904e-05	1.32828e-05	0.000602	1	0		A	56328469	A	A	56328469	3	1	43	1	0	0	0	0	1	0	0	0	4789	913	32	5	619	5	DST	6	56328469	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2116241	56328469	114786598	194	34015											
IBTK	25998	broad.mit.edu	37	chr6	82936995	82936995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttctgagacagaaacaCggagtgaaatttacaaagca	16	8	8	9	1	1	3	0	2	1	2	1	5	1	4	1	1	3	1	1	1	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:82936995C>T	uc003pjl.1	-	5	1095	c.568G>A	c.(568-570)GTG>ATG	p.V190M	IBTK_uc011dyv.1_Missense_Mutation_p.V190M|IBTK_uc011dyw.1_Missense_Mutation_p.V190M|IBTK_uc010kbi.1_Translation_Start_Site|IBTK_uc003pjm.2_Missense_Mutation_p.V190M	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	190	RCC1 1.				negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		GACAGAAACACGGAGTGAAAT	0.363													15	114					0	0	0.004007	0	0		T	82936995	T	T	82936995	3	4	43	1	0	0	0	0	1	0	0	0	7492	536	19	1	3593	1	IBTK	6	82936995	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	26608526	82936995	88178072	195	34016											
ZNF292	23036	broad.mit.edu	37	chr6	87953265	87953265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgagggtgatgaaaaaagcGctcttgttttatgtactgcg	10	13	12	6	2	1	3	0	3	1	0	1	3	1	3	0	1	3	3	0	1	5	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:87953265G>A	uc003plm.3	+	6	855	c.814G>A	c.(814-816)GCT>ACT	p.A272T		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	272					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		TGAAAAAAGCGCTCTTGTTTT	0.353													3	7					0	0	0.004672	0	0		A	87953265	A	A	87953265	3	1	43	1	0	0	0	0	1	0	0	0	17851	1087	38	1	836	1	ZNF292	6	87953265	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	5016270	87953265	83161802	196	34017											
FUT9	10690	broad.mit.edu	37	chr6	96651800	96651800	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggattacatcacggaaaagCtatacaatgcttttctggct	13	12	8	8	1	2	0	1	0	1	0	2	2	2	2	0	3	4	3	0	3	6	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:96651800C>A	uc003pop.3	+	3	1110	c.769C>A	c.(769-771)CTA>ATA	p.L257I		NM_006581	NP_006572	Q9Y231	FUT9_HUMAN	fucosyltransferase 9 (alpha (1,3)	257	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			skin(4)|ovary(1)	5		all_cancers(76;4.77e-07)|Acute lymphoblastic leukemia(125;4.01e-09)|all_hematologic(75;1.25e-06)|all_epithelial(107;0.00279)|Colorectal(196;0.0356)		BRCA - Breast invasive adenocarcinoma(108;0.08)		CACGGAAAAGCTATACAATGC	0.343													12	43					4.36969e-10	4.87213e-10	0.001855	1	0		A	96651800	A	A	96651800	3	1	43	1	0	0	0	0	1	0	0	0	6125	796	28	5	771	5	FUT9	6	96651800	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	8698535	96651800	74463267	197	34018											
PRDM13	59336	broad.mit.edu	37	chr6	100062155	100062155	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactcggggacgttgccaccGgccgtcgcggcggcgggagg	4	4	20	13	8	0	0	0	0	0	0	2	3	0	2	3	7	1	1	3	7	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:100062155G>A	uc003pqg.1	+	4	1905	c.1644G>A	c.(1642-1644)CCG>CCA	p.P548P		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	548					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		CGTTGCCACcggccgtcgcgg	0.468													4	22					0	0	0.009096	0	0		A	100062155	A	A	100062155	2	1	43	1	0	0	0	0	0	0	0	1	12476	1103	39	1		1	PRDM13	6	100062155	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3410355	100062155	71052912	198	34019											
RNF217	154214	broad.mit.edu	37	chr6	125366443	125366443	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgttgtctataacttaacGcatgaagactccatcaagta	14	12	6	9	1	2	2	1	1	1	1	3	2	3	2	1	0	2	3	1	0	6	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:125366443G>A	uc003pzs.2	+	4	431	c.93G>A	c.(91-93)ACG>ACA	p.T31T	RNF217_uc003pzr.2_Silent_p.T88T|RNF217_uc003pzt.2_RNA	NM_152553	NP_689766	Q8TC41	RN217_HUMAN	ring finger protein 217	31					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)		ATAACTTAACGCATGAAGACT	0.418													7	74					0	0	0.001984	0	0		A	125366443	A	A	125366443	2	1	43	1	0	0	0	0	0	0	0	1	13506	1074	38	1		1	RNF217	6	125366443	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	25304288	125366443	45748624	199	34020											
KIAA1244	57221	broad.mit.edu	37	chr6	138618006	138618006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgttccgcctggggaatGccatgctgaggattgtgcgg	6	10	15	10	2	0	1	0	1	0	0	1	3	1	3	4	4	3	2	4	4	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:138618006G>A	uc003qhu.2	+	21	3562	c.3562G>A	c.(3562-3564)GCC>ACC	p.A1188T		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1188					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CCTGGGGAATGCCATGCTGAG	0.562													5	178					0	0	0.000602	0	0		A	138618006	A	A	138618006	3	1	43	1	0	0	0	0	1	0	0	0	8233	1319	46	2	3644	2	KIAA1244	6	138618006	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	13251563	138618006	32497061	200	34021											
HECA	51696	broad.mit.edu	37	chr6	139487653	139487653	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatgtggacaaagaagggCtacgacctggccttccgctt	11	8	11	11	2	0	1	0	0	0	1	1	3	1	2	3	3	2	2	3	3	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:139487653C>T	uc003qin.2	+	2	789	c.504C>T	c.(502-504)GGC>GGT	p.G168G		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	168					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		CAAAGAAGGGCTACGACCTGG	0.587													4	144					0	0	0.000602	0	0		T	139487653	T	T	139487653	2	4	43	1	0	0	0	0	0	0	0	1	7054	784	28	2		2	HECA	6	139487653	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	869647	139487653	31627414	201	34022											
HECA	51696	broad.mit.edu	37	chr6	139487805	139487805	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcctcctggtgaggcggCggaggaggcaaaaaagtgca	11	4	18	8	2	0	1	0	1	0	0	1	4	1	3	2	7	1	2	2	7	3	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:139487805C>A	uc003qin.2	+	2	941	c.656C>A	c.(655-657)GCG>GAG	p.A219E		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	219					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		GGTGAGGCGGCGGAGGAGGCA	0.592													3	46					0.004672	0.00486984	0.004672	1	0		A	139487805	A	A	139487805	3	1	43	1	0	0	0	0	1	0	0	0	7054	768	27	5	662	5	HECA	6	139487805	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	152	139487805	31627262	202	34023											
UTRN	7402	broad.mit.edu	37	chr6	144812155	144812155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggactgcaagcgtgtgctgGatggcgtgaaagcagaactt	10	9	15	7	2	0	2	0	1	0	1	0	4	0	4	0	3	5	3	0	3	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:144812155G>A	uc003qkt.2	+	31	4446	c.4354G>A	c.(4354-4356)GAT>AAT	p.D1452N		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1452	Spectrin 10.|Interaction with SYNM.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GCGTGTGCTGGATGGCGTGAA	0.527													14	120					0	0	0.001855	0	0		A	144812155	A	A	144812155	3	1	43	1	0	0	0	0	1	0	0	0	17129	1174	41	4	4476	4	UTRN	6	144812155	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	5324350	144812155	26302912	203	34024											
SNX9	51429	broad.mit.edu	37	chr6	158349643	158349643	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccacagagagcagaagtgCgaggctgtggggaagttcac	12	5	15	9	1	1	2	1	0	0	2	1	5	1	3	1	3	2	3	1	3	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:158349643C>T	uc003qqv.1	+	12	1370	c.1197C>T	c.(1195-1197)TGC>TGT	p.C399C		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	399	BAR.				cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)		AGCAGAAGTGCGAGGCTGTGG	0.587													3	12					0	0	0.009096	0	0		T	158349643	T	T	158349643	2	4	43	1	0	0	0	0	0	0	0	1	14934	776	27	1		1	SNX9	6	158349643	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	13537488	158349643	12765424	204	34025											
SLC22A1	6580	broad.mit.edu	37	chr6	160543054	160543054	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcttatgcctgctgtcGgctgcctttgcgcccatctg	3	14	9	15	2	3	0	1	0	2	0	4	0	3	0	3	1	4	2	3	1	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:160543054G>A	uc003qtc.2	+	1	192	c.87G>A	c.(85-87)TCG>TCA	p.S29S	SLC22A1_uc003qtd.2_Silent_p.S29S	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	29	Helical; (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		GCCTGCTGTCGGCTGCCTTTG	0.597													29	157					0	0	0.00632	0	0		A	160543054	A	A	160543054	2	1	43	1	0	0	0	0	0	0	0	1	14465	1103	39	1		1	SLC22A1	6	160543054	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2193411	160543054	10572013	205	34026											
RPS6KA2	6196	broad.mit.edu	37	chr6	166844007	166844007	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcactggcttcgcgctcCgagaagtatctctgccggag	7	9	12	13	5	2	1	1	0	1	1	5	3	3	2	2	2	1	3	2	2	2	2	rs140163975		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:166844007C>T	uc003qvb.1	-	16	1734	c.1515G>A	c.(1513-1515)TCG>TCA	p.S505S	RPS6KA2_uc011ego.1_Silent_p.S416S|RPS6KA2_uc010kkl.1_Silent_p.S416S|RPS6KA2_uc003qvc.1_Silent_p.S513S|RPS6KA2_uc003qvd.1_Silent_p.S530S	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	505	Protein kinase 2.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		CTTCGCGCTCCGAGAAGTATC	0.602													14	68					0	0	0.001855	0	0		T	166844007	T	T	166844007	2	4	43	1	0	0	0	0	0	0	0	1	13676	639	23	1		1	RPS6KA2	6	166844007	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	6300953	166844007	4271060	206	34027											
MLLT4	4301	broad.mit.edu	37	chr6	168281130	168281130	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacagatcctgcagactttgCtgtggctgaagctttagaga	10	12	11	8	0	0	4	0	1	0	3	1	5	1	4	1	1	4	4	1	1	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr6:168281130C>A	uc003qwd.2	+	6	969	c.827C>A	c.(826-828)GCT>GAT	p.A276D	MLLT4_uc003qwb.1_Missense_Mutation_p.A276D|MLLT4_uc003qwc.1_Missense_Mutation_p.A277D|MLLT4_uc003qwf.2_Translation_Start_Site	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	277	Ras-associating 2.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		GCAGACTTTGCTGTGGCTGAA	0.393			T	MLL	AL								10	330					0.000442599	0.000465894	0.006214	1	0		A	168281130	A	A	168281130	3	1	43	1	0	0	0	0	1	0	0	0	9647	797	28	5	852	5	MLLT4	6	168281130	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1437123	168281130	2833937	207	34028											
PAPOLB	56903	broad.mit.edu	37	chr7	4900547	4900547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tactcttgggtcccatacagGcaaattaagattccgttctt	10	14	7	10	1	2	1	0	0	2	1	4	1	4	1	2	2	2	2	2	2	4	7			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:4900547G>A	uc003snk.2	-	1	1079	c.895C>T	c.(895-897)CCT>TCT	p.P299S	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	298					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		TCCCATACAGGCAAATTAAGA	0.443													19	134					0	0	0.008871	0	0		A	4900547	A	A	4900547	3	1	43	1	0	0	0	0	1	0	0	0	11449	1203	42	2	1022	2	PAPOLB	7	4900547	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08		4900547	154238116	208	34029											
RNF216	54476	broad.mit.edu	37	chr7	5752387	5752387	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgccgcaacctcctcctcGgcttttcgctcatagtactt	5	13	7	16	3	1	0	1	0	0	0	5	0	3	0	4	1	3	5	4	1	3	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:5752387G>A	uc003soy.1	-	12	1960	c.1770C>T	c.(1768-1770)GCC>GCT	p.A590A	RNF216_uc010ksz.1_Silent_p.A212A|RNF216_uc010kta.1_Silent_p.A212A|RNF216_uc011jwj.1_Silent_p.A212A|RNF216_uc003sox.1_Silent_p.A647A	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	590	IBR-type.				apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		CCTCCTCCTCGGCTTTTCGCT	0.562													9	35					0	0	0.010729	0	0		A	5752387	A	A	5752387	2	1	43	1	0	0	0	0	0	0	0	1	13505	1103	39	1		1	RNF216	7	5752387	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	851840	5752387	153386276	209	34030											
AIMP2	7965	broad.mit.edu	37	chr7	6057478	6057478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaagacatcgtgatcaacGcaaacccggcctcccctccc	11	6	7	17	3	1	3	1	2	0	1	4	3	3	3	5	1	2	1	5	1	3	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:6057478G>A	uc003spo.2	+	3	489	c.376G>A	c.(376-378)GCA>ACA	p.A126T		NM_006303	NP_006294	Q13155	AIMP2_HUMAN	aminoacyl tRNA synthetase complex-interacting	126	Interaction with PARK2.				apoptosis|cell differentiation|multicellular organismal development|tRNA aminoacylation for protein translation	cytosol|nucleus	protein binding			ovary(1)	1						CGTGATCAACGCAAACCCGGC	0.532													5	22					0	0	0.000602	0	0		A	6057478	A	A	6057478	3	1	43	1	0	0	0	0	1	0	0	0	434	1087	38	1	386	1	AIMP2	7	6057478	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	305091	6057478	153081185	210	34031											
MACC1	346389	broad.mit.edu	37	chr7	20201455	20201455	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttgtgcaattcttcctgAccgaaaatgttttctttcag	9	17	6	9	1	3	1	1	1	2	0	4	2	4	1	2	0	1	2	2	0	3	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:20201455A>G	uc003sus.3	-	4	340	c.31T>C	c.(31-33)TCA>CCA	p.S11P	MACC1_uc010kug.2_Missense_Mutation_p.S11P	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	11					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						ATTCTTCCTGACCGAAAATGT	0.323													19	139					0	0	0.008871	0	0		G	20201455	G	G	20201455	3	3	43	1	0	0	0	0	1	0	0	0	9161	275	10	3	2543	3	MACC1	7	20201455	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	14143977	20201455	138937208	211	34032											
COL1A2	1278	broad.mit.edu	37	chr7	94056959	94056959	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcccccctggtccccctggCcctcctggacctccaggtgt	2	8	11	20	0	0	0	0	0	0	0	3	1	3	1	9	5	0	0	9	5	0	0	rs149097024		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:94056959C>T	uc003ung.1	+	49	3759	c.3288C>T	c.(3286-3288)GGC>GGT	p.G1096G	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1096			Missing (in OI4).|G -> A (in OI3).		axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GTCCCCCTGGCCCTCCTGGAC	0.532										HNSCC(75;0.22)			17	143					0	0	0.006122	0	0		T	94056959	T	T	94056959	2	4	43	1	0	0	0	0	0	0	0	1	3681	726	26	2		2	COL1A2	7	94056959	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	73855504	94056959	65081704	212	34033											
PTCD1	26024	broad.mit.edu	37	chr7	99017660	99017660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccccctggggcttggtcCggaacttctgccaggggtgc	3	9	16	13	1	1	0	0	0	1	0	3	1	3	1	4	7	3	1	4	7	1	2	rs150466149		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:99017660C>T	uc003uqh.2	-	8	2164	c.2033G>A	c.(2032-2034)CGG>CAG	p.R678Q	PTCD1_uc011kiw.1_Missense_Mutation_p.R727Q	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	678										ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			GGGCTTGGTCCGGAACTTCTG	0.612													33	182					0	0	0.003271	0	0		T	99017660	T	T	99017660	3	4	43	1	0	0	0	0	1	0	0	0	12749	652	23	1	73	1	PTCD1	7	99017660	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4960701	99017660	60121003	213	34034											
MUC17	140453	broad.mit.edu	37	chr7	100682329	100682329	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctgttgactccaacagTcctgtggtcacttctactga	8	13	7	13	0	2	2	1	2	1	0	5	2	5	2	3	1	2	1	3	1	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:100682329T>C	uc003uxp.1	+	3	7685	c.7632T>C	c.(7630-7632)AGT>AGC	p.S2544S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2544	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|41.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ACTCCAACAGTCCTGTGGTCA	0.473													76	463					0	0	0.01441	0	0		C	100682329	C	C	100682329	2	2	43	1	0	0	0	0	0	0	0	1	9992	1664	58	3		3	MUC17	7	100682329	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	1664669	100682329	58456334	214	34035											
SPDYE6	729597	broad.mit.edu	37	chr7	101989028	101989028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	accaacgcttacggagcaagGgtatgcgagagcggttcttc	10	8	13	10	4	1	1	0	0	1	1	2	3	1	2	1	3	5	4	1	3	4	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:101989028G>A	uc011kkp.1	-	6	1266	c.845C>T	c.(844-846)CCC>CTC	p.P282L	SPDYE6_uc003uzb.2_Missense_Mutation_p.P138L	NM_001146210	NP_001139682	P0CI01	SPDE6_HUMAN	speedy homolog E6	282	Arg-rich.										0						ACGGAGCAAGGGTATGCGAGA	0.547													38	759					0	0	0.01441	0	0		A	101989028	A	A	101989028	3	1	43	1	0	0	0	0	1	0	0	0	15058	1232	43	4	371	4	SPDYE6	7	101989028	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1306699	101989028	57149635	215	34036											
DNAJC2	27000	broad.mit.edu	37	chr7	102953432	102953432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtccttctttgtcctgccagGcaccgcttctgctatttttt	3	18	7	13	1	2	0	0	0	2	0	4	0	4	0	4	1	2	3	4	1	1	7			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:102953432G>A	uc003vbo.2	-	16	2004	c.1753C>T	c.(1753-1755)CCT>TCT	p.P585S	PMPCB_uc003vbl.2_3'UTR|PMPCB_uc003vbm.2_3'UTR|PMPCB_uc010liv.2_3'UTR|PMPCB_uc010liw.2_3'UTR|PMPCB_uc011kll.1_Intron|DNAJC2_uc003vbn.2_Missense_Mutation_p.P210S|DNAJC2_uc010lix.2_Missense_Mutation_p.P532S|DNAJC2_uc003vbp.2_Missense_Mutation_p.P210S	NM_014377	NP_055192	Q99543	DNJC2_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 2	585	SANT 2.				'de novo' cotranslational protein folding|chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane	chromatin binding|DNA binding|histone binding|Hsp70 protein binding|ubiquitin binding			kidney(1)	1						GTCCTGCCAGGCACCGCTTCT	0.408													39	225					0	0	0.006999	0	0		A	102953432	A	A	102953432	3	1	43	1	0	0	0	0	1	0	0	0	4645	1203	42	2	120	2	DNAJC2	7	102953432	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	964404	102953432	56185231	216	34037											
LAMB1	3912	broad.mit.edu	37	chr7	107577640	107577640	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagaatccagttctttggCtgtgctgttgctttgggaag	7	15	13	6	0	1	1	0	0	1	1	2	3	2	2	1	2	2	5	1	2	3	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:107577640C>T	uc003vew.2	-	26	4179	c.3844G>A	c.(3844-3846)GCC>ACC	p.A1282T	LAMB1_uc003vev.2_Missense_Mutation_p.A1306T	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1282	Potential.|Domain II.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGTTCTTTGGCTGTGCTGTTG	0.378													32	161					0	0	0.008361	0	0		T	107577640	T	T	107577640	3	4	43	1	0	0	0	0	1	0	0	0	8626	797	28	2	1552	2	LAMB1	7	107577640	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4624208	107577640	51561023	217	34038											
TMEM168	64418	broad.mit.edu	37	chr7	112423832	112423832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaatcaagcaaaaatggCgcatccctttggatgccatg	13	9	9	10	1	1	1	1	1	0	0	2	2	2	2	2	2	2	2	2	2	4	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:112423832C>T	uc003vgn.2	-	2	1441	c.1049G>A	c.(1048-1050)CGC>CAC	p.R350H	TMEM168_uc010lju.2_Missense_Mutation_p.R350H|TMEM168_uc011kmr.1_Intron	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	350						integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						GCAAAAATGGCGCATCCCTTT	0.408													21	261					0	0	0.014323	0	0		T	112423832	T	T	112423832	3	4	43	1	0	0	0	0	1	0	0	0	16108	768	27	1	1060	1	TMEM168	7	112423832	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4846192	112423832	46714831	218	34039											
SPAM1	6677	broad.mit.edu	37	chr7	123593630	123593630	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattactctttacaatgggAgtgctaaaattcaagcacat	14	13	6	8	0	3	0	2	0	1	0	3	1	3	1	0	1	4	2	0	1	6	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:123593630A>T	uc003vld.2	+	4	408	c.6A>T	c.(4-6)GGA>GGT	p.G2G	SPAM1_uc003vle.2_Silent_p.G2G|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Silent_p.G2G|SPAM1_uc010lku.2_Silent_p.G2G	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	2					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	TTACAATGGGAGTGCTAAAAT	0.363													9	36					0	0	0.004482	0	0		T	123593630	T	T	123593630	2	4	43	1	0	0	0	0	0	0	0	1	15011	291	11	5		5	SPAM1	7	123593630	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	11169798	123593630	35545033	219	34040											
PLXNA4	91584	broad.mit.edu	37	chr7	131866253	131866253	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttgaggatgagcagggActggacgttgtccaggatga	9	10	16	6	1	0	3	0	3	0	0	1	7	1	7	1	4	1	3	1	4	0	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:131866253A>G	uc003vra.3	-	18	3608	c.3379T>C	c.(3379-3381)TCC>CCC	p.S1127P		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1127	Extracellular (Potential).|IPT/TIG 3.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						ATGAGCAGGGACTGGACGTTG	0.602													9	179					0	0	0.004482	0	0		G	131866253	G	G	131866253	3	3	43	1	0	0	0	0	1	0	0	0	12141	275	10	3	2365	3	PLXNA4	7	131866253	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	8272623	131866253	27272410	220	34041											
BPGM	669	broad.mit.edu	37	chr7	134346677	134346677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagaaatctacaacgacCggaggtataaagtatgcgat	17	7	9	8	3	1	1	0	0	1	1	1	4	1	2	2	2	3	2	2	2	8	4	rs141221644	by1000genomes	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:134346677C>T	uc003vrv.2	+	3	959	c.418C>T	c.(418-420)CGG>TGG	p.R140W	BPGM_uc003vrw.2_Missense_Mutation_p.R140W|BPGM_uc003vrx.2_Missense_Mutation_p.R140W	NM_199186	NP_954655	P07738	PMGE_HUMAN	bisphosphoglycerate mutase	140					glycolysis|respiratory gaseous exchange		2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity|phosphoglycerate mutase activity				0						CTACAACGACCGGAGGTATAA	0.473													17	75					0	0	0.00499	0	0		T	134346677	T	T	134346677	3	4	43	1	0	0	0	0	1	0	0	0	1491	643	23	1	420	1	BPGM	7	134346677	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2480424	134346677	24791986	221	34042											
CNOT4	4850	broad.mit.edu	37	chr7	135079001	135079001	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttctgaagagatgtgggCgaaagggaaggttggtcttg	10	10	18	3	1	2	2	0	1	2	1	2	6	2	3	0	4	0	2	0	4	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:135079001C>T	uc003vsv.1	-	10	1603	c.1296G>A	c.(1294-1296)TCG>TCA	p.S432S	CNOT4_uc003vss.2_Silent_p.S429S|CNOT4_uc011kpz.1_Silent_p.S429S|CNOT4_uc003vst.2_Silent_p.S432S|CNOT4_uc003vsu.1_Silent_p.S429S|CNOT4_uc011kpy.1_Silent_p.S432S	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	432					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						GAGATGTGGGCGAAAGGGAAG	0.498													13	139					0	0	0.001855	0	0		T	135079001	T	T	135079001	2	4	43	1	0	0	0	0	0	0	0	1	3624	755	27	1		1	CNOT4	7	135079001	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	732324	135079001	24059662	222	34043											
SVOPL	136306	broad.mit.edu	37	chr7	138312915	138312915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacttacaagcaatttcacCgatggtgctgatgatcatgg	12	11	9	9	1	2	2	2	2	0	0	2	3	2	2	1	2	3	2	1	2	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:138312915C>T	uc011kqh.1	-	10	1057	c.1057G>A	c.(1057-1059)GGT>AGT	p.G353S	SVOPL_uc003vue.2_Missense_Mutation_p.G201S	NM_001139456	NP_001132928	Q8N434	SVOPL_HUMAN	SVOP-like isoform 1	353	Helical; (Potential).					integral to membrane	transmembrane transporter activity				0						GCAATTTCACCGATGGTGCTG	0.552													21	127					0	0	0.014323	0	0		T	138312915	T	T	138312915	3	4	43	1	0	0	0	0	1	0	0	0	15449	652	23	1	445	1	SVOPL	7	138312915	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	3233914	138312915	20825748	223	34044											
ATP6V0A4	50617	broad.mit.edu	37	chr7	138437555	138437555	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcctgcagcaggcgctGgcggtgagactctgtttgtg	4	11	16	10	2	1	1	0	1	1	1	2	2	2	1	1	4	2	5	1	4	0	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:138437555G>A	uc003vuf.2	-	10	1082	c.844C>T	c.(844-846)CAG>TAG	p.Q282*	ATP6V0A4_uc003vug.2_Nonsense_Mutation_p.Q282*|ATP6V0A4_uc003vuh.2_Nonsense_Mutation_p.Q282*	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	282	Cytoplasmic (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						AGCAGGCGCTGGCGGTGAGAC	0.488													13	74					0	0	0.001855	0	0		A	138437555	A	A	138437555	4	1	43	1	0	0	0	0	0	1	0	0	1171	1357	47	4	1726	4	ATP6V0A4	7	138437555	Nonsense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	124640	138437555	20701108	224	34045											
TTC26	79989	broad.mit.edu	37	chr7	138833067	138833067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaattcctgatagtaccatcGcactcaatcttaaagcctgt	13	12	5	11	1	2	1	1	1	1	0	4	1	3	1	3	0	2	2	3	0	6	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:138833067G>A	uc003vus.2	+	7	775	c.661G>A	c.(661-663)GCA>ACA	p.A221T	TTC26_uc003vuq.2_Missense_Mutation_p.A221T|TTC26_uc011kqm.1_Intron|TTC26_uc003vur.3_Missense_Mutation_p.A221T|TTC26_uc011kqn.1_Missense_Mutation_p.A221T|TTC26_uc011kqo.1_Missense_Mutation_p.A190T|TTC26_uc011kqp.1_Missense_Mutation_p.A116T|TTC26_uc003vut.2_Missense_Mutation_p.A81T|TTC26_uc011kqq.1_Intron	NM_024926	NP_079202	A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26 isoform 1	221							binding			ovary(1)	1						TAGTACCATCGCACTCAATCT	0.388													6	178					0	0	0.001168	0	0		A	138833067	A	A	138833067	3	1	43	1	0	0	0	0	1	0	0	0	16720	1087	38	1	687	1	TTC26	7	138833067	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	395512	138833067	20305596	225	34046											
EPHB6	2051	broad.mit.edu	37	chr7	142566336	142566336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccctgtgggccgggggcGccgaaagcctgcagatgacc	7	4	17	13	3	0	2	0	1	0	1	0	3	0	2	5	4	2	1	5	4	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:142566336G>A	uc011kst.1	+	15	2912	c.2125G>A	c.(2125-2127)GCC>ACC	p.A709T	EPHB6_uc011ksu.1_Missense_Mutation_p.A709T|EPHB6_uc003wbs.2_Missense_Mutation_p.A417T|EPHB6_uc003wbt.2_Missense_Mutation_p.A183T|EPHB6_uc003wbu.2_Missense_Mutation_p.A417T|EPHB6_uc003wbv.2_Missense_Mutation_p.A93T	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	709	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					GGCCGGGGGCGCCGAAAGCCT	0.677													5	34					0	0	0.000602	0	0		A	142566336	A	A	142566336	3	1	43	1	0	0	0	0	1	0	0	0	5186	1087	38	1	2167	1	EPHB6	7	142566336	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3733269	142566336	16572327	226	34047											
ZNF425	155054	broad.mit.edu	37	chr7	148802270	148802270	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcgtccgcctgagttcGgacttccctctggacgagtt	4	12	11	14	4	2	1	0	1	2	0	5	4	4	3	3	2	1	2	3	2	0	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:148802270G>T	uc003wfj.2	-	4	766	c.693C>A	c.(691-693)TCC>TCA	p.S231S		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	231					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			GCCTGAGTTCGGACTTCCCTC	0.532													14	71					4.3838e-07	4.79595e-07	0.001855	1	0		T	148802270	T	T	148802270	2	4	43	1	0	0	0	0	0	0	0	1	17924	1103	39	5		5	ZNF425	7	148802270	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	6235934	148802270	10336393	227	34048											
KRBA1	84626	broad.mit.edu	37	chr7	149416733	149416733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttctaccgagacgtgatgCgggagaactacgagacgctg	11	7	14	9	5	1	4	0	1	1	3	1	7	1	4	1	1	4	2	1	1	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:149416733C>T	uc003wfz.2	+	2	403	c.4C>T	c.(4-6)CGG>TGG	p.R2W	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_5'Flank	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	2										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AGACGTGATGCGGGAGAACTA	0.652													7	37					0	0	0.001984	0	0		T	149416733	T	T	149416733	3	4	43	1	0	0	0	0	1	0	0	0	8455	759	27	1	6	1	KRBA1	7	149416733	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	614463	149416733	9721930	228	34049											
ZNF862	643641	broad.mit.edu	37	chr7	149547305	149547305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggtgtttgaggagctgcCggtggtgttcgaggatgtgg	4	13	20	4	2	0	1	0	1	0	0	1	4	0	3	1	6	2	3	1	6	0	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:149547305C>T	uc010lpn.2	+	5	1187	c.995C>T	c.(994-996)CCG>CTG	p.P332L	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	332					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						GAGGAGCTGCCGGTGGTGTTC	0.607													5	13					0	0	0.000602	0	0		T	149547305	T	T	149547305	3	4	43	1	0	0	0	0	1	0	0	0	18220	652	23	1	1013	1	ZNF862	7	149547305	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	130572	149547305	9591358	229	34050											
RNF32	140545	broad.mit.edu	37	chr7	156468498	156468498	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcgaagtgttcttcagcagTtggaagaaaaatgtggccat	13	11	11	6	1	2	1	1	0	1	1	3	3	2	2	1	2	1	3	1	2	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:156468498T>C	uc003wmo.2	+	8	975	c.793T>C	c.(793-795)TTG>CTG	p.L265L	RNF32_uc010lqm.2_Silent_p.L265L|RNF32_uc003wmq.2_Silent_p.L265L|RNF32_uc003wmr.2_Silent_p.L265L|RNF32_uc003wmu.2_RNA	NM_030936	NP_112198	Q9H0A6	RNF32_HUMAN	ring finger protein 32	265						aggresome|endosome	protein binding|zinc ion binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00291)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		TCTTCAGCAGTTGGAAGAAAA	0.483													3	126					0	0	0.009096	0	0		C	156468498	C	C	156468498	2	2	43	1	0	0	0	0	0	0	0	1	13513	1722	60	3		3	RNF32	7	156468498	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	6921193	156468498	2670165	230	34051											
ESYT2	57488	broad.mit.edu	37	chr7	158560362	158560362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctttggtacaggaaaccGcaactgagctatttgaactt	12	12	8	9	1	0	2	0	2	0	0	0	3	0	3	2	2	6	3	2	2	6	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr7:158560362G>A	uc003wob.1	-	8	1117	c.1051C>T	c.(1051-1053)CGG>TGG	p.R351W	ESYT2_uc003woc.1_Missense_Mutation_p.R175W|ESYT2_uc003wod.1_Missense_Mutation_p.R351W	NM_020728	NP_065779	A0FGR8	ESYT2_HUMAN	family with sequence similarity 62 (C2 domain	379	C2 1.					integral to membrane|plasma membrane				central_nervous_system(2)|kidney(1)	3						ACAGGAAACCGCAACTGAGCT	0.448													18	94					0	0	0.007413	0	0		A	158560362	A	A	158560362	3	1	43	1	0	0	0	0	1	0	0	0	5273	1086	38	1	1690	1	ESYT2	7	158560362	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2091864	158560362	578301	231	34052											
MYOM2	9172	broad.mit.edu	37	chr8	2092718	2092718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccaagtacgtcagcatgaCcatcaaaggcgtgacctccg	11	6	11	13	3	2	2	2	2	0	0	3	2	3	2	4	2	2	2	4	2	3	1	rs147501499	byFrequency	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:2092718C>T	uc003wpx.3	+	37	4349	c.4211C>T	c.(4210-4212)ACC>ATC	p.T1404I	MYOM2_uc011kwi.1_Missense_Mutation_p.T829I	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1404	Ig-like C2-type 5.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		GTCAGCATGACCATCAAAGGC	0.532													13	123					0	0	0.001855	0	0		T	2092718	T	T	2092718	3	4	43	1	0	0	0	0	1	0	0	0	10110	507	18	4	4353	4	MYOM2	8	2092718	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08		2092718	144271304	232	34053											
CSMD1	64478	broad.mit.edu	37	chr8	3087599	3087599	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctggttgccaaaagaaccgGttattcagctgcacacaggt	11	10	10	10	1	2	1	1	0	1	1	2	1	2	1	2	3	4	4	2	3	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:3087599G>A	uc011kwk.1	-	27	4701	c.4311C>T	c.(4309-4311)AAC>AAT	p.N1437N	CSMD1_uc011kwj.1_Silent_p.N829N|CSMD1_uc003wqe.2_Silent_p.N593N	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1437	Extracellular (Potential).|Sushi 8.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		AAAAGAACCGGTTATTCAGCT	0.463													11	89					0	0	0.013537	0	0		A	3087599	A	A	3087599	2	1	43	1	0	0	0	0	0	0	0	1	3947	1252	44	4		4	CSMD1	8	3087599	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	994881	3087599	143276423	233	34054											
TUSC3	7991	broad.mit.edu	37	chr8	15519705	15519705	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caactactctggtaccattgCtttggccctgttagtgtcgc	6	14	9	12	1	1	0	0	0	1	0	2	0	1	0	2	2	4	3	2	2	4	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:15519705C>A	uc003wwt.2	+	5	818	c.608C>A	c.(607-609)GCT>GAT	p.A203D	TUSC3_uc003wwr.2_Missense_Mutation_p.A203D|TUSC3_uc003wws.2_Missense_Mutation_p.A203D|TUSC3_uc003wwu.2_Missense_Mutation_p.A203D|TUSC3_uc003wwv.2_Missense_Mutation_p.A203D|TUSC3_uc003www.2_Missense_Mutation_p.A203D|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.A203D	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	203	Helical; (Potential).				cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		GGTACCATTGCTTTGGCCCTG	0.383													18	153					8.10497e-08	8.94342e-08	0.010504	1	0		A	15519705	A	A	15519705	3	1	43	1	0	0	0	0	1	0	0	0	16804	797	28	5	626	5	TUSC3	8	15519705	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	12432106	15519705	130844317	234	34055											
ATP6V1B2	526	broad.mit.edu	37	chr8	20075767	20075767	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacttggaatttctgcagaAgtttgagaggaacttcattg	11	14	10	6	0	2	2	1	1	1	2	2	5	2	4	0	2	3	2	0	2	4	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:20075767A>C	uc003wzp.2	+	13	1584	c.1370A>C	c.(1369-1371)AAG>ACG	p.K457T	ATP6V1B2_uc003wzq.1_5'Flank	NM_001693	NP_001684	P21281	VATB2_HUMAN	vacuolar H+ATPase B2	457					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|endomembrane system|Golgi apparatus|melanosome|plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0				Colorectal(74;0.0535)|COAD - Colon adenocarcinoma(73;0.211)		TTTCTGCAGAAGTTTGAGAGG	0.413													5	139					0	0	0.000602	0	0		C	20075767	C	C	20075767	3	2	43	1	0	0	0	0	1	0	0	0	1180	72	3	5	1420	5	ATP6V1B2	8	20075767	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	4556062	20075767	126288255	235	34056											
DOK2	9046	broad.mit.edu	37	chr8	21767139	21767139	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagttcttccccaaggaacGggccaccgcatcgaagggca	11	5	12	13	3	1	0	0	0	1	0	3	3	2	1	4	3	1	3	4	3	4	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:21767139G>T	uc003wzy.1	-	5	1015	c.922C>A	c.(922-924)CGT>AGT	p.R308S	DOK2_uc003wzx.1_Missense_Mutation_p.R308S|DOK2_uc003wzz.1_Missense_Mutation_p.R154S|DOK2_uc010lth.1_Missense_Mutation_p.R154S	NM_003974	NP_003965	O60496	DOK2_HUMAN	docking protein 2	308					blood coagulation|leukocyte migration	cytosol	identical protein binding|insulin receptor binding				0				Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		CCCAAGGAACGGGCCACCGCA	0.667													12	108					5.50884e-06	5.93545e-06	0.013537	1	0		T	21767139	T	T	21767139	3	4	43	1	0	0	0	0	1	0	0	0	4703	1116	39	5	320	5	DOK2	8	21767139	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1691372	21767139	124596883	236	34057											
LOXL2	4017	broad.mit.edu	37	chr8	23167240	23167240	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgggccggaagtcggactgGccattgttgtggatctggga	6	11	17	7	2	1	0	0	0	1	0	2	4	1	4	2	6	0	1	2	6	1	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:23167240G>A	uc003xdh.1	-	10	2160	c.1821C>T	c.(1819-1821)GGC>GGT	p.G607G	LOXL2_uc010lty.1_Silent_p.G146G	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	607	Lysyl-oxidase like.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		AGTCGGACTGGCCATTGTTGT	0.682													4	44					0	0	0.009096	0	0		A	23167240	A	A	23167240	2	1	43	1	0	0	0	0	0	0	0	1	8918	1190	42	2		2	LOXL2	8	23167240	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1400101	23167240	123196782	237	34058											
DPYSL2	1808	broad.mit.edu	37	chr8	26492331	26492331	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaatcgtgccatcaccatCgccaaccagaccaactgccc	11	6	7	17	2	1	2	1	1	0	1	3	2	1	2	6	0	4	0	6	0	3	0	rs35621323	byFrequency	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:26492331C>T	uc003xfb.1	+	8	1076	c.726C>T	c.(724-726)ATC>ATT	p.I242I	DPYSL2_uc003xfa.2_Silent_p.I347I|DPYSL2_uc011lag.1_Silent_p.I242I|DPYSL2_uc010luk.1_RNA|DPYSL2_uc011lah.1_Silent_p.I206I	NM_001386	NP_001377	Q16555	DPYL2_HUMAN	dihydropyrimidinase-like 2	242					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	dihydropyrimidinase activity|protein binding			large_intestine(1)	1		all_cancers(63;0.121)|Ovarian(32;2.68e-05)|all_epithelial(46;0.116)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;3.33e-10)|Colorectal(74;0.183)		CCATCACCATCGCCAACCAGA	0.582													9	145					0	0	0.004482	0	0		T	26492331	T	T	26492331	2	4	43	1	0	0	0	0	0	0	0	1	4753	874	31	1		1	DPYSL2	8	26492331	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	3325091	26492331	119871691	238	34059											
RNF122	79845	broad.mit.edu	37	chr8	33416240	33416240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggaaactgatgggtggCatcgagcaggacttgttggt	8	11	15	7	1	0	1	0	1	0	0	2	4	1	3	1	5	2	3	1	5	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:33416240C>T	uc003xjo.1	-	2	477	c.75G>A	c.(73-75)ATG>ATA	p.M25I		NM_024787	NP_079063	Q9H9V4	RN122_HUMAN	ring finger protein 122	25						endoplasmic reticulum|Golgi apparatus|integral to membrane	zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(67;0.0966)|Kidney(114;0.116)		TGATGGGTGGCATCGAGCAGG	0.478													5	100					0	0	0.001984	0	0		T	33416240	T	T	33416240	3	4	43	1	0	0	0	0	1	0	0	0	13457	710	25	2	412	2	RNF122	8	33416240	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	6923909	33416240	112947782	239	34060											
TACC1	6867	broad.mit.edu	37	chr8	38699879	38699879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggagaaggaacaggccctgGctgaccttaactctgtggaa	11	8	13	9	0	1	2	0	1	1	1	1	5	1	4	2	5	2	1	2	5	4	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:38699879G>A	uc010lwp.2	+	10	2414	c.2035G>A	c.(2035-2037)GCT>ACT	p.A679T	TACC1_uc003xma.2_Missense_Mutation_p.A117T|TACC1_uc003xlz.2_Missense_Mutation_p.A484T|TACC1_uc003xmc.3_Missense_Mutation_p.A483T|TACC1_uc011lbz.1_Missense_Mutation_p.A666T|TACC1_uc003xmb.3_Missense_Mutation_p.A605T|TACC1_uc003xmf.3_Missense_Mutation_p.A269T|TACC1_uc011lca.1_Missense_Mutation_p.A662T|TACC1_uc011lcb.1_Missense_Mutation_p.A455T|TACC1_uc011lcd.1_RNA|TACC1_uc003xmh.3_Missense_Mutation_p.A496T|TACC1_uc010lwq.2_Missense_Mutation_p.A495T	NM_006283	NP_006274	O75410	TACC1_HUMAN	transforming, acidic coiled-coil containing	679					cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)			ACAGGCCCTGGCTGACCTTAA	0.453													23	182					0	0	0.00333	0	0		A	38699879	A	A	38699879	3	1	43	1	0	0	0	0	1	0	0	0	15526	1203	42	2	2073	2	TACC1	8	38699879	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	5283639	38699879	107664143	240	34061											
C8orf40	114926	broad.mit.edu	37	chr8	42407698	42407698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgaatagcaagaaagtacGactatcagcagccacaaaac	18	6	8	9	1	1	2	1	1	0	1	1	3	1	2	1	0	5	3	1	0	8	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:42407698G>A	uc011lcv.1	+	4	320	c.271G>A	c.(271-273)GAC>AAC	p.D91N	C8orf40_uc003xph.2_Missense_Mutation_p.D91N|C8orf40_uc003xpg.2_Missense_Mutation_p.D91N|C8orf40_uc010lxo.2_Missense_Mutation_p.D91N	NM_001135676	NP_001129148	Q96E16	CH040_HUMAN	hypothetical protein LOC114926	91						cytoplasm|integral to membrane|nucleolus					0	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			AAGAAAGTACGACTATCAGCA	0.338													7	68					0	0	0.001984	0	0		A	42407698	A	A	42407698	3	1	43	1	0	0	0	0	1	0	0	0	2429	1058	37	1	281	1	C8orf40	8	42407698	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3707819	42407698	103956324	241	34062											
KIAA0146	23514	broad.mit.edu	37	chr8	48625354	48625354	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgtggcccccttgtgtgTgctgggctctgaagtcctgg	3	13	14	11	0	1	1	0	1	1	0	2	1	2	1	3	3	1	2	3	3	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:48625354T>C	uc003xqd.2	+	15	2117	c.2108T>C	c.(2107-2109)GTG>GCG	p.V703A	KIAA0146_uc011ldb.1_Missense_Mutation_p.V703A|KIAA0146_uc010lxs.2_Missense_Mutation_p.V178A|KIAA0146_uc011ldc.1_Missense_Mutation_p.V633A|KIAA0146_uc011ldd.1_Missense_Mutation_p.V643A|KIAA0146_uc003xqe.2_Missense_Mutation_p.V178A|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc011lde.1_Missense_Mutation_p.V392A|KIAA0146_uc010lxt.2_Missense_Mutation_p.V392A|KIAA0146_uc011ldf.1_Missense_Mutation_p.V208A|KIAA0146_uc011ldg.1_Missense_Mutation_p.V193A|KIAA0146_uc003xqg.1_5'Flank	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	703											0		Lung NSC(58;0.175)				CCCTTGTGTGTGCTGGGCTCT	0.607													16	170					0	0	0.006122	0	0		C	48625354	C	C	48625354	3	2	43	1	0	0	0	0	1	0	0	0	8173	1696	59	3	2166	3	KIAA0146	8	48625354	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	6217656	48625354	97738668	242	34063											
DNAJC5B	85479	broad.mit.edu	37	chr8	66988980	66988980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaaatcaacaacgcccacGcaatacttaccgacatttca	17	7	4	13	3	2	1	2	0	0	1	2	2	2	1	2	0	4	1	2	0	7	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:66988980G>A	uc003xvs.1	+	4	496	c.205G>A	c.(205-207)GCA>ACA	p.A69T	DNAJC5B_uc003xvt.1_RNA	NM_033105	NP_149096	Q9UF47	DNJ5B_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	69	J.				protein folding	membrane	heat shock protein binding|unfolded protein binding				0		Lung NSC(129;0.114)|all_lung(136;0.188)	Epithelial(68;0.0213)|all cancers(69;0.0839)|BRCA - Breast invasive adenocarcinoma(89;0.0886)|OV - Ovarian serous cystadenocarcinoma(28;0.112)			CAACGCCCACGCAATACTTAC	0.428													27	192					0	0	0.004656	0	0		A	66988980	A	A	66988980	3	1	43	1	0	0	0	0	1	0	0	0	4657	1087	38	1	211	1	DNAJC5B	8	66988980	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	18363626	66988980	79375042	243	34064											
NCOA2	10499	broad.mit.edu	37	chr8	71071833	71071833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttgtgcagcaacaagagtgCcatcagacaaggaaaaacga	17	6	10	8	1	1	2	1	0	0	2	1	4	1	3	1	1	5	2	1	1	5	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:71071833C>T	uc003xyn.1	-	10	1193	c.1031G>A	c.(1030-1032)GGC>GAC	p.G344D		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	344					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			AACAAGAGTGCCATCAGACAA	0.398			T	RUNXBP2	AML								15	153					0	0	0.003163	0	0		T	71071833	T	T	71071833	3	4	43	1	0	0	0	0	1	0	0	0	10248	739	26	2	3419	2	NCOA2	8	71071833	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4082853	71071833	75292189	244	34065											
LRRCC1	85444	broad.mit.edu	37	chr8	86042248	86042248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcgagaaagagaacaagCgcaacaacttcatcaacttc	17	7	6	11	2	3	2	3	0	0	2	5	4	3	2	0	0	5	1	0	0	6	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:86042248C>T	uc003ycw.2	+	11	1875	c.1721C>T	c.(1720-1722)GCG>GTG	p.A574V	LRRCC1_uc010lzz.1_RNA|LRRCC1_uc010maa.1_Missense_Mutation_p.A275V|LRRCC1_uc003ycx.2_Missense_Mutation_p.A481V|LRRCC1_uc003ycy.2_Missense_Mutation_p.A554V	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	574	Potential.				cell division|mitosis	centriole|nucleus					0						AGAGAACAAGCGCAACAACTT	0.368													16	133					0	0	0.003163	0	0		T	86042248	T	T	86042248	3	4	43	1	0	0	0	0	1	0	0	0	9044	768	27	1	1763	1	LRRCC1	8	86042248	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	14970415	86042248	60321774	245	34066											
DCAF4L2	138009	broad.mit.edu	37	chr8	88885339	88885339	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagttccagtcatgtctgaTgacaccaggaattggccatc	11	11	9	10	0	2	2	1	2	1	0	4	3	3	3	3	2	0	1	3	2	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:88885339T>C	uc003ydz.2	-	1	958	c.861A>G	c.(859-861)TCA>TCG	p.S287S		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	287	WD 1.									ovary(1)	1						TCATGTCTGATGACACCAGGA	0.507													10	73					0	0	0.008291	0	0		C	88885339	C	C	88885339	2	2	43	1	0	0	0	0	0	0	0	1	4275	1451	51	3		3	DCAF4L2	8	88885339	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	2843091	88885339	57478683	246	34067											
KIAA1429	25962	broad.mit.edu	37	chr8	95500956	95500956	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtgtaaaggagcgtacaTgacgacctctaccactgcct	11	9	9	12	3	1	1	0	1	1	0	2	3	1	2	3	1	4	2	3	1	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:95500956T>C	uc003ygo.1	-	24	5430	c.5417A>G	c.(5416-5418)CAT>CGT	p.H1806R	KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1806					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			GGAGCGTACATGACGACCTCT	0.443													26	209					0	0	0.004656	0	0		C	95500956	C	C	95500956	3	2	43	1	0	0	0	0	1	0	0	0	8247	1464	51	3	25	3	KIAA1429	8	95500956	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	6615617	95500956	50863066	247	34068											
RGS22	26166	broad.mit.edu	37	chr8	101011627	101011627	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatgaagaatcttcccccAgccaccacttaaatgcatta	13	10	4	14	0	2	2	1	1	1	1	3	2	3	2	4	0	2	1	4	0	5	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:101011627A>C	uc003yjb.1	-	19	3007	c.2812T>G	c.(2812-2814)TGG>GGG	p.W938G	RGS22_uc003yja.1_Missense_Mutation_p.W757G|RGS22_uc003yjc.1_Missense_Mutation_p.W926G	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	938	RGS 1.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			ATCTTCCCCCAGCCACCACTT	0.363													5	69					0	0	0.001168	0	0		C	101011627	C	C	101011627	3	2	43	1	0	0	0	0	1	0	0	0	13330	188	7	5	1018	5	RGS22	8	101011627	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	5510671	101011627	45352395	248	34069											
SYBU	55638	broad.mit.edu	37	chr8	110587336	110587336	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagtactgcctcacgacGcccccgcgagccagtgggat	7	6	11	17	4	1	0	1	0	0	0	2	3	2	1	5	1	3	1	5	1	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:110587336G>A	uc003ynj.3	-	7	1954	c.1791C>T	c.(1789-1791)GGC>GGT	p.G597G	SYBU_uc003yni.3_Silent_p.G594G|SYBU_uc003ynk.3_Silent_p.G478G|SYBU_uc010mco.2_Silent_p.G596G|SYBU_uc003ynl.3_Silent_p.G596G|SYBU_uc010mcp.2_Silent_p.G597G|SYBU_uc010mcq.2_Silent_p.G597G|SYBU_uc003yno.3_Silent_p.G478G|SYBU_uc010mcr.2_Silent_p.G597G|SYBU_uc003ynm.3_Silent_p.G596G|SYBU_uc003ynn.3_Silent_p.G596G|SYBU_uc010mcs.2_Silent_p.G478G|SYBU_uc010mct.2_Silent_p.G597G|SYBU_uc010mcu.2_Silent_p.G596G|SYBU_uc003ynp.3_Silent_p.G529G|SYBU_uc010mcv.2_Silent_p.G597G|SYBU_uc003ynh.3_Silent_p.G391G|SYBU_uc011lhw.1_Silent_p.G467G	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	597						cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						GCCTCACGACGCCCCCGCGAG	0.597													7	68					0	0	0.00308	0	0		A	110587336	A	A	110587336	2	1	43	1	0	0	0	0	0	0	0	1	15452	1074	38	1		1	SYBU	8	110587336	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	9575709	110587336	35776686	249	34070											
MTSS1	9788	broad.mit.edu	37	chr8	125565501	125565501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagggttaacggaagcttggCcgctccacattgaggagggc	9	7	16	9	2	0	1	0	1	0	0	1	4	1	3	2	5	2	3	2	5	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:125565501C>T	uc003yrk.2	-	14	2534	c.2000G>A	c.(1999-2001)GGC>GAC	p.G667D	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_Missense_Mutation_p.G316D|MTSS1_uc011lin.1_Missense_Mutation_p.G441D|MTSS1_uc011lio.1_Missense_Mutation_p.G557D|MTSS1_uc003yri.2_Missense_Mutation_p.G385D|MTSS1_uc003yrj.2_Missense_Mutation_p.G642D|MTSS1_uc003yrl.2_Missense_Mutation_p.G671D	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	667	Pro-rich.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			GGAAGCTTGGCCGCTCCACAT	0.612													10	152					0	0	0.008291	0	0		T	125565501	T	T	125565501	3	4	43	1	0	0	0	0	1	0	0	0	9980	739	26	2	271	2	MTSS1	8	125565501	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	14978165	125565501	20798521	250	34071											
FAM135B	51059	broad.mit.edu	37	chr8	139163507	139163507	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaactccaaaggatcccaAaggctgatgggtgatgggaa	15	6	12	8	0	0	2	0	2	0	0	2	4	2	4	2	4	2	1	2	4	5	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:139163507A>G	uc003yuy.2	-	13	3382	c.3211T>C	c.(3211-3213)TTG>CTG	p.L1071L	FAM135B_uc003yux.2_Silent_p.L972L|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Silent_p.L633L|FAM135B_uc003yvb.2_Silent_p.L633L	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1071										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			AAGGATCCCAAAGGCTGATGG	0.532										HNSCC(54;0.14)			5	64					0	0	0.001984	0	0		G	139163507	G	G	139163507	2	3	43	1	0	0	0	0	0	0	0	1	5460	11	1	3		3	FAM135B	8	139163507	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	13598006	139163507	7200515	251	34072											
FLJ43860	389690	broad.mit.edu	37	chr8	142500233	142500233	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccgctggaggacaggacGcccatcacgtagaggaggct	11	5	14	11	3	1	1	1	0	0	1	1	5	1	5	2	5	1	3	2	5	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:142500233G>A	uc003ywi.2	-	5	762	c.681C>T	c.(679-681)GGC>GGT	p.G227G	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	227							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			AGGACAGGACGCCCATCACGT	0.637													4	31					0	0	0.000602	0	0		A	142500233	A	A	142500233	2	1	43	1	0	0	0	0	0	0	0	1	5944	1074	38	1		1	FLJ43860	8	142500233	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3336726	142500233	3863789	252	34073											
RHPN1	114822	broad.mit.edu	37	chr8	144462879	144462879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatctcccagacgctgcagcGctcactggccaagtatgcgg	8	7	12	14	3	2	1	1	0	1	1	3	2	2	1	2	2	3	4	2	2	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr8:144462879G>A	uc003yyb.2	+	11	1470	c.1337G>A	c.(1336-1338)CGC>CAC	p.R446H		NM_052924	NP_443156	Q8TCX5	RHPN1_HUMAN	rhophilin 1	471	BRO1.				signal transduction	intracellular				large_intestine(1)	1	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.156)			ACGCTGCAGCGCTCACTGGCC	0.687													3	9					0	0	0.009096	0	0		A	144462879	A	A	144462879	3	1	43	1	0	0	0	0	1	0	0	0	13375	1087	38	1	1379	1	RHPN1	8	144462879	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1962646	144462879	1901143	253	34074											
AK3	50808	broad.mit.edu	37	chr9	4719182	4719182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatagactcggccactggCgggatgaatccagcgagcag	10	7	14	10	3	0	2	0	1	0	1	2	4	1	3	2	3	2	2	2	3	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:4719182C>T	uc003ziq.1	-	3	537	c.397G>A	c.(397-399)GCC>ACC	p.A133T	AK3_uc003zip.1_RNA|AK3_uc011lma.1_Missense_Mutation_p.A93T|AK3_uc003zir.1_Missense_Mutation_p.A63T	NM_016282	NP_057366	Q9UIJ7	KAD3_HUMAN	adenylate kinase 3	133					blood coagulation	mitochondrial matrix	ATP binding|GTP binding|nucleoside triphosphate adenylate kinase activity			ovary(2)	2	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0302)		CGGCCACTGGCGGGATGAATC	0.473													12	106					0	0	0.010729	0	0		T	4719182	T	T	4719182	3	4	43	1	0	0	0	0	1	0	0	0	441	768	27	1	298	1	AK3	9	4719182	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08		4719182	136494249	254	34075											
KDM4C	23081	broad.mit.edu	37	chr9	6888045	6888045	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcagtattgaagaaataTggtattccctttgacaaggt	13	13	8	7	0	1	3	1	2	0	1	2	3	2	3	2	2	0	2	2	2	6	6	rs35244873	byFrequency	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:6888045T>C	uc003zkh.2	+	7	1345	c.765T>C	c.(763-765)TAT>TAC	p.Y255Y	KDM4C_uc010mhu.2_Silent_p.Y277Y|KDM4C_uc010mhw.2_Silent_p.Y255Y|KDM4C_uc011lmi.1_Silent_p.Y255Y|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Silent_p.Y255Y|KDM4C_uc011lmk.1_Silent_p.Y74Y	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	255	JmjC.				positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						TGAAGAAATATGGTATTCCCT	0.333													25	75					0	0	0.005443	0	0		C	6888045	C	C	6888045	2	2	43	1	0	0	0	0	0	0	0	1	8146	1471	51	3		3	KDM4C	9	6888045	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	2168863	6888045	134325386	255	34076											
MPDZ	8777	broad.mit.edu	37	chr9	13143471	13143471	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcattatccaaccttgtcGgcgttgatttgtagagagtc	8	13	12	8	2	0	2	0	1	0	1	3	3	1	2	2	2	1	3	2	2	3	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:13143471G>A	uc010mia.1	-	26	3891	c.3834C>T	c.(3832-3834)GCC>GCT	p.A1278A	MPDZ_uc010mhx.2_Intron|MPDZ_uc011lmm.1_Intron|MPDZ_uc003zkz.3_Intron|MPDZ_uc010mhy.2_Silent_p.A1278A|MPDZ_uc010mhz.2_Intron|MPDZ_uc011lmn.1_Intron|MPDZ_uc003zlb.3_Silent_p.A1278A	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1278					interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		CAACCTTGTCGGCGTTGATTT	0.428													17	121					0	0	0.00499	0	0		A	13143471	A	A	13143471	2	1	43	1	0	0	0	0	0	0	0	1	9740	1103	39	1		1	MPDZ	9	13143471	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	6255426	13143471	128069960	256	34077											
FREM1	158326	broad.mit.edu	37	chr9	14805124	14805124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacatagttaatgtgaaaagCgttcatgtctttccactgaa	13	13	7	8	1	2	2	1	2	1	0	3	2	3	2	1	0	1	2	1	0	5	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:14805124C>T	uc003zlm.2	-	19	3891	c.3301G>A	c.(3301-3303)GCT>ACT	p.A1101T	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1101	CSPG 7.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		ATGTGAAAAGCGTTCATGTCT	0.413													32	146					0	0	0.005524	0	0		T	14805124	T	T	14805124	3	4	43	1	0	0	0	0	1	0	0	0	6058	768	27	1	3364	1	FREM1	9	14805124	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1661653	14805124	126408307	257	34078											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18574213	18574213	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacctaaggtcttagatggTacgcgttgctatacagaatc	11	11	10	9	2	1	2	0	0	1	2	2	2	1	2	1	2	3	4	1	2	6	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:18574213T>C	uc003zne.3	+	4	550	c.423T>C	c.(421-423)GGT>GGC	p.G141G	ADAMTSL1_uc003znb.2_Silent_p.G141G|ADAMTSL1_uc003znc.3_Silent_p.G141G	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	141						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		TCTTAGATGGTACGCGTTGCT	0.448													35	214					0	0	0.004289	0	0		C	18574213	C	C	18574213	2	2	43	1	0	0	0	0	0	0	0	1	274	1625	57	3		3	ADAMTSL1	9	18574213	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	3769089	18574213	122639218	258	34079											
KIAA1797	54914	broad.mit.edu	37	chr9	20874757	20874757	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggatctttcagttcctggCtcttgctatctcaaactgtt	6	17	8	10	0	4	0	2	0	3	0	6	1	5	1	1	2	2	4	1	2	2	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:20874757C>T	uc003zog.1	+	21	2631	c.2268C>T	c.(2266-2268)GGC>GGT	p.G756G	KIAA1797_uc003zoh.1_Silent_p.G192G	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	756						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		CAGTTCCTGGCTCTTGCTATC	0.408													32	148					0	0	0.003271	0	0		T	20874757	T	T	20874757	2	4	43	1	0	0	0	0	0	0	0	1	8274	784	28	2		2	KIAA1797	9	20874757	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2300544	20874757	120338674	259	34080											
IFNA7	3444	broad.mit.edu	37	chr9	21202157	21202157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcagtaaagaaaaggacCgggccattgggattttgcaa	14	8	11	8	1	1	1	1	0	0	1	1	3	1	3	3	3	1	2	3	3	5	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:21202157C>T	uc003zop.1	-	1	48	c.8G>A	c.(7-9)CGG>CAG	p.R3Q	IFNA14_uc003zoo.1_Intron	NM_021057	NP_066401	P01567	IFNA7_HUMAN	interferon, alpha 7 precursor	3					blood coagulation|cell-cell signaling|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				GBM - Glioblastoma multiforme(5;4.75e-197)|Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		AGAAAAGGACCGGGCCATTGG	0.507													10	86					0	0	0.013537	0	0		T	21202157	T	T	21202157	3	4	43	1	0	0	0	0	1	0	0	0	7558	652	23	1	565	1	IFNA7	9	21202157	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	327400	21202157	120011274	260	34081											
UNC13B	10497	broad.mit.edu	37	chr9	35382432	35382432	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accttactggccaacatcaaCgcctactatgcccacacaac	13	7	4	17	1	1	0	1	0	0	0	1	0	1	0	4	1	6	0	4	1	6	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:35382432C>T	uc003zwq.2	+	20	2779	c.2487C>T	c.(2485-2487)AAC>AAT	p.N829N	UNC13B_uc003zwr.2_Silent_p.N829N	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	829					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			CCAACATCAACGCCTACTATG	0.483													26	136					0	0	0.003954	0	0		T	35382432	T	T	35382432	2	4	43	1	0	0	0	0	0	0	0	1	17011	535	19	1		1	UNC13B	9	35382432	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	14180275	35382432	105830999	261	34082											
FAM122A	116224	broad.mit.edu	37	chr9	71395740	71395740	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagagatttttccagggCatcaccaacatgctttcttc	11	12	6	12	0	2	1	1	0	1	1	4	2	3	1	3	1	2	2	3	1	2	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:71395740C>T	uc004agw.1	+	1	777	c.660C>T	c.(658-660)GGC>GGT	p.G220G	PIP5K1B_uc004agu.2_Intron|PIP5K1B_uc011lrq.1_Intron|PIP5K1B_uc004agv.2_Intron	NM_138333	NP_612206	Q96E09	F122A_HUMAN	hypothetical protein LOC116224	220											0						TTTTCCAGGGCATCACCAACA	0.453													15	99					0	0	0.003163	0	0		T	71395740	T	T	71395740	2	4	43	1	0	0	0	0	0	0	0	1	5430	697	25	2		2	FAM122A	9	71395740	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	36013308	71395740	69817691	262	34083											
TLE4	7091	broad.mit.edu	37	chr9	82323671	82323671	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgctgccgccgccgcTgctgctgctgcctatgggag	3	8	15	15	3	0	0	0	0	0	0	0	1	0	1	4	1	7	7	4	1	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:82323671T>C	uc004ald.2	+	14	2157	c.1308T>C	c.(1306-1308)GCT>GCC	p.A436A	TLE4_uc004alc.2_Silent_p.A411A|TLE4_uc010mpr.2_Silent_p.A290A|TLE4_uc004ale.2_Silent_p.A48A|TLE4_uc011lsq.1_Silent_p.A379A|TLE4_uc010mps.2_Silent_p.A335A|TLE4_uc004alf.2_Silent_p.A350A	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						ccgccgccgctgctgctgctg	0.433													11	58					0	0	0.008291	0	0		C	82323671	C	C	82323671	2	2	43	1	0	0	0	0	0	0	0	1	15966	1567	55	3		3	TLE4	9	82323671	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	10927931	82323671	58889760	263	34084											
PTPDC1	138639	broad.mit.edu	37	chr9	96859844	96859844	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catctgcttcatggttatgaGgcacgacttctgaaacacgt	10	12	9	10	2	3	2	1	2	2	0	3	3	3	2	0	2	2	3	0	2	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:96859844G>T	uc004auf.1	+	7	1174	c.834G>T	c.(832-834)GAG>GAT	p.E278D	PTPDC1_uc004aug.1_Missense_Mutation_p.E278D|PTPDC1_uc004auh.1_Missense_Mutation_p.E330D|PTPDC1_uc010mrj.1_Missense_Mutation_p.E332D|PTPDC1_uc010mri.1_Missense_Mutation_p.E330D	NM_177995	NP_818931	A2A3K4	PTPC1_HUMAN	protein tyrosine phosphatase domain containing 1	278							protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1						ATGGTTATGAGGCACGACTTC	0.468													8	125					0.000442599	0.000465894	0.006214	1	0		T	96859844	T	T	96859844	3	4	43	1	0	0	0	0	1	0	0	0	12796	991	35	5	1098	5	PTPDC1	9	96859844	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	14536173	96859844	44353587	264	34085											
ZNF462	58499	broad.mit.edu	37	chr9	109687613	109687613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagctgtctacaaatgtgacGaatgtccgtttacttgcaag	11	12	9	9	2	1	1	0	1	1	0	2	2	2	1	1	0	4	3	1	0	5	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:109687613G>A	uc004bcz.2	+	3	1709	c.1420G>A	c.(1420-1422)GAA>AAA	p.E474K	ZNF462_uc010mto.2_Missense_Mutation_p.E322K|ZNF462_uc004bda.2_Missense_Mutation_p.E322K	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	474	C2H2-type 5.				transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						CAAATGTGACGAATGTCCGTT	0.473													30	81					0	0	0.00632	0	0		A	109687613	A	A	109687613	3	1	43	1	0	0	0	0	1	0	0	0	17951	1059	37	1	1426	1	ZNF462	9	109687613	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	12827769	109687613	31525818	265	34086											
MUSK	4593	broad.mit.edu	37	chr9	113550073	113550073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggactttcagagggaggcaGccctcatggcagaatttgac	10	8	13	10	1	2	3	2	1	0	2	2	5	2	5	1	4	1	2	1	4	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:113550073G>A	uc004bey.2	+	13	1980	c.1882G>A	c.(1882-1884)GCC>ACC	p.A628T	MUSK_uc004bez.1_Missense_Mutation_p.A208T	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	628	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						GAGGGAGGCAGCCCTCATGGC	0.438													7	26					0	0	0.001984	0	0		A	113550073	A	A	113550073	3	1	43	1	0	0	0	0	1	0	0	0	10007	971	34	2	1968	2	MUSK	9	113550073	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3862460	113550073	27663358	266	34087											
DAB2IP	153090	broad.mit.edu	37	chr9	124530798	124530798	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcttcctgctggagatCtccaaccccgagaccctctc	7	8	8	18	2	2	2	0	0	2	2	5	4	3	2	5	1	3	2	5	1	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:124530798C>A	uc004bln.2	+	10	1770	c.1701C>A	c.(1699-1701)ATC>ATA	p.I567I	DAB2IP_uc004blo.2_Silent_p.I471I|DAB2IP_uc004blp.2_Silent_p.I22I	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	595					activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						TGCTGGAGATCTCCAACCCCG	0.587													22	135					1.9806e-07	2.17798e-07	0.014323	1	0		A	124530798	A	A	124530798	2	1	43	1	0	0	0	0	0	0	0	1	4222	903	32	5		5	DAB2IP	9	124530798	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	10980725	124530798	16682633	267	34088											
NEK6	10783	broad.mit.edu	37	chr9	127089652	127089652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgtgttcatcacagccacgGgcgtcgtgaagctcggtgac	8	8	13	12	5	2	2	2	2	0	0	4	2	2	2	1	2	2	2	1	2	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:127089652G>A	uc004bog.2	+	7	699	c.550G>A	c.(550-552)GGC>AGC	p.G184S	NEK6_uc004bof.2_Missense_Mutation_p.G202S|NEK6_uc004boh.2_Missense_Mutation_p.G218S|NEK6_uc010mwj.2_Missense_Mutation_p.G137S|NEK6_uc010mwk.2_Missense_Mutation_p.G184S|NEK6_uc004boi.2_Missense_Mutation_p.G184S	NM_014397	NP_055212	Q9HC98	NEK6_HUMAN	NIMA-related kinase 6 isoform 2	184	Protein kinase.				apoptosis|cell division|chromosome segregation|mitosis|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of mitotic metaphase/anaphase transition	cytoplasm|nucleus	ATP binding|kinesin binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|kidney(1)	3						CACAGCCACGGGCGTCGTGAA	0.627													36	224					0	0	0.007835	0	0		A	127089652	A	A	127089652	3	1	43	1	0	0	0	0	1	0	0	0	10347	1232	43	4	757	4	NEK6	9	127089652	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2558854	127089652	14123779	268	34089											
GOLGA1	2800	broad.mit.edu	37	chr9	127644063	127644063	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacctcaaaagccctttacCtcggattcgcgacaagacat	13	8	6	14	3	1	1	1	0	0	1	3	3	1	2	3	1	2	0	3	1	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:127644063C>A	uc004bpc.2	-	21	2478	c.2136G>T	c.(2134-2136)GAG>GAT	p.E712D	GOLGA1_uc010mws.2_RNA	NM_002077	NP_002068	Q92805	GOGA1_HUMAN	golgin 97	712	GRIP.					Golgi cisterna membrane				ovary(1)	1						AGCCCTTTACCTCGGATTCGC	0.502													15	121					5.35267e-07	5.84592e-07	0.007413	1	0		A	127644063	A	A	127644063	3	1	43	1	0	0	0	0	1	0	0	0	6566	695	24	5	179	5	GOLGA1	9	127644063	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	554411	127644063	13569368	269	34090											
C9orf119	375757	broad.mit.edu	37	chr9	131038469	131038469	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtggcgtcacaacaaaagCtgcgcacgcaaccgctgtcc	10	6	10	15	4	1	0	1	0	0	0	2	0	2	0	2	1	4	4	2	1	4	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:131038469C>A	uc004bup.2	+	1	45	c.45C>A	c.(43-45)AGC>AGA	p.S15R	GOLGA2_uc011maw.1_5'Flank|GOLGA2_uc010mxw.2_5'Flank|GOLGA2_uc004bul.1_5'Flank|C9orf119_uc010mxx.1_Missense_Mutation_p.S15R	NM_001040011	NP_001035100	Q1ZZU3	SWI5_HUMAN	hypothetical protein LOC375757	15					double-strand break repair via homologous recombination	Swi5-Sfr1 complex	protein binding				0						ACAACAAAAGCTGCGCACGCA	0.632													19	83					0.00074312	0.000780947	0.006122	1	0		A	131038469	A	A	131038469	3	1	43	1	0	0	0	0	1	0	0	0	2455	796	28	5	47	5	C9orf119	9	131038469	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	3394406	131038469	10174962	270	34091											
RAPGEF1	2889	broad.mit.edu	37	chr9	134459791	134459791	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagttgaagttattcagcttCcgcaagtgctgccgagagag	10	10	13	8	2	1	2	1	1	0	1	2	5	2	2	2	0	3	5	2	0	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:134459791C>T	uc004cbc.2	-	21	2893	c.2763G>A	c.(2761-2763)CGG>CGA	p.R921R	RAPGEF1_uc004cbb.2_Silent_p.R939R	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	921	Ras-GEF.				activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		TATTCAGCTTCCGCAAGTGCT	0.642													6	37					0	0	0.001168	0	0		T	134459791	T	T	134459791	2	4	43	1	0	0	0	0	0	0	0	1	13068	842	30	4		4	RAPGEF1	9	134459791	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	3421322	134459791	6753640	271	34092											
BARHL1	56751	broad.mit.edu	37	chr9	135458453	135458453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcagccccggcccagtcgcGcaccgtcacctcctcctttc	4	8	7	22	4	2	0	2	0	0	0	6	0	4	0	7	1	1	1	7	1	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:135458453G>A	uc004cbp.1	+	1	461	c.269G>A	c.(268-270)CGC>CAC	p.R90H		NM_020064	NP_064448	Q9BZE3	BARH1_HUMAN	BarH-like homeobox 1	90						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;1.79e-06)|Epithelial(140;3.12e-05)		GCCCAGTCGCGCACCGTCACC	0.687													6	293					0	0	0.001168	0	0		A	135458453	A	A	135458453	3	1	43	1	0	0	0	0	1	0	0	0	1314	1087	38	1	271	1	BARHL1	9	135458453	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	998662	135458453	5754978	272	34093											
RALGDS	5900	broad.mit.edu	37	chr9	135977061	135977061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtgtggcagccacgggcGtggtggaggctgaggaggac	6	6	21	8	3	0	1	0	1	0	0	0	4	0	4	1	7	2	2	1	7	0	0	rs143871051	byFrequency	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:135977061G>A	uc004cco.2	-	16	2320	c.2300C>T	c.(2299-2301)ACG>ATG	p.T767M	RALGDS_uc004cct.1_5'Flank|RALGDS_uc004ccn.2_Translation_Start_Site|RALGDS_uc004ccp.2_RNA|RALGDS_uc004ccq.2_Missense_Mutation_p.T755M|RALGDS_uc004ccr.2_Missense_Mutation_p.T766M|RALGDS_uc011mcv.1_Missense_Mutation_p.T738M|RALGDS_uc004ccs.2_Missense_Mutation_p.T712M|RALGDS_uc011mcw.1_Missense_Mutation_p.T838M|RALGDS_uc004ccv.1_Silent_p.H594H|RALGDS_uc004ccu.1_Missense_Mutation_p.T536M	NM_006266	NP_006257	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	767					nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		AGCCACGGGCGTGGTGGAGGC	0.652			T	CIITA	PMBL|Hodgkin Lymphona|								9	46					0	0	0.004482	0	0		A	135977061	A	A	135977061	3	1	43	1	0	0	0	0	1	0	0	0	13041	1145	40	1	456	1	RALGDS	9	135977061	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	518608	135977061	5236370	273	34094											
KCNT1	57582	broad.mit.edu	37	chr9	138650317	138650317	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgttcaaccaggtcctcAtcctcttctgcaccctgctg	6	12	6	17	0	4	0	2	0	2	0	6	0	6	0	5	1	3	3	5	1	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr9:138650317A>G	uc011mdq.1	+	10	891	c.817A>G	c.(817-819)ATC>GTC	p.I273V	KCNT1_uc011mdr.1_Missense_Mutation_p.I100V|KCNT1_uc010nbf.2_Missense_Mutation_p.I225V|KCNT1_uc004cgo.1_Missense_Mutation_p.I22V	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	273						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		CCAGGTCCTCATCCTCTTCTG	0.627													10	70					0	0	0.010729	0	0		G	138650317	G	G	138650317	3	3	43	1	0	0	0	0	1	0	0	0	8107	217	8	3	855	3	KCNT1	9	138650317	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	2673256	138650317	2563114	274	34095											
DIP2C	22982	broad.mit.edu	37	chr10	435950	435950	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttccgtgtagccacacgcCtgcgtcagggcctggcagtg	5	8	13	15	3	1	0	1	0	0	0	2	0	2	0	5	2	2	2	5	2	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:435950C>A	uc001ifp.2	-	13	1668	c.1578G>T	c.(1576-1578)CAG>CAT	p.Q526H	DIP2C_uc009xhj.1_Missense_Mutation_p.Q222H	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	526						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		AGCCACACGCCTGCGTCAGGG	0.607													18	68					1.2644e-06	1.37622e-06	0.010504	1	0		A	435950	A	A	435950	3	1	43	1	0	0	0	0	1	0	0	0	4535	680	24	5	3192	5	DIP2C	10	435950	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08		435950	135098797	275	34096											
WDR37	22884	broad.mit.edu	37	chr10	1170951	1170951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcctggcgcggcttccccGgagcagccgacaggtaacag	7	4	15	15	5	0	0	0	0	0	0	1	2	1	1	4	4	3	3	4	4	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:1170951G>A	uc001igf.1	+	13	1513	c.1340G>A	c.(1339-1341)CGG>CAG	p.R447Q	WDR37_uc009xhm.1_Missense_Mutation_p.R448Q|WDR37_uc009xhn.1_RNA|WDR37_uc001igg.1_RNA	NM_014023	NP_054742	Q9Y2I8	WDR37_HUMAN	WD repeat domain 37	447											0		all_epithelial(10;0.0449)|Colorectal(49;0.142)		Epithelial(11;0.134)		CGGCTTCCCCGGAGCAGCCGA	0.507													10	40					0	0	0.010729	0	0		A	1170951	A	A	1170951	3	1	43	1	0	0	0	0	1	0	0	0	17317	1116	39	1	1386	1	WDR37	10	1170951	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	735001	1170951	134363796	276	34097											
ITIH5	80760	broad.mit.edu	37	chr10	7608006	7608006	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcctacccagcagtccgtgGcagttgctggaaaggccctc	7	9	11	14	1	0	0	0	0	0	0	3	1	2	1	4	3	3	4	4	3	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:7608006G>A	uc001ijq.2	-	13	2593	c.2514C>T	c.(2512-2514)TGC>TGT	p.C838C	ITIH5_uc001ijp.2_Silent_p.C624C	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	838					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						GCAGTCCGTGGCAGTTGCTGG	0.547													6	126					0	0	0.001984	0	0		A	7608006	A	A	7608006	2	1	43	1	0	0	0	0	0	0	0	1	7923	1195	42	2		2	ITIH5	10	7608006	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	6437055	7608006	127926741	277	34098											
TAF3	83860	broad.mit.edu	37	chr10	8055710	8055710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcagatccgagatgagtgggGcaatcagatctggatctgcc	10	9	13	9	1	4	4	2	1	2	3	5	6	5	5	2	3	1	1	2	3	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:8055710G>A	uc010qbd.1	+	6	2585	c.2585G>A	c.(2584-2586)GGC>GAC	p.G862D		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	862					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						GATGAGTGGGGCAATCAGATC	0.493													13	133					0	0	0.013537	0	0		A	8055710	A	A	8055710	3	1	43	1	0	0	0	0	1	0	0	0	15550	1203	42	2	2607	2	TAF3	10	8055710	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	447704	8055710	127479037	278	34099											
ITGA8	8516	broad.mit.edu	37	chr10	15726071	15726071	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacatagcaggtgccaactGggtccttttctggtgtcggt	6	13	12	10	1	1	0	0	0	1	0	3	0	2	0	2	4	4	1	2	4	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:15726071G>T	uc001ioc.1	-	4	500	c.500C>A	c.(499-501)CCA>CAA	p.P167Q	ITGA8_uc010qcb.1_Missense_Mutation_p.P167Q	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	167	Extracellular (Potential).|FG-GAP 2.				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						GGTGCCAACTGGGTCCTTTTC	0.418													14	66					1.3612e-06	1.47907e-06	0.003163	1	0		T	15726071	T	T	15726071	3	4	43	1	0	0	0	0	1	0	0	0	7898	1348	47	5	2799	5	ITGA8	10	15726071	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	7670361	15726071	119808676	279	34100											
CUBN	8029	broad.mit.edu	37	chr10	16867001	16867001	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccaagttaatcggaatgcGgatggacgccgtgcataatc	11	9	11	10	4	0	0	0	0	0	0	3	3	1	3	2	3	2	2	2	3	4	2	rs146137990		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:16867001G>A	uc001ioo.2	-	67	10897	c.10845C>T	c.(10843-10845)TCC>TCT	p.S3615S		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3615	CUB 27.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	ATCGGAATGCGGATGGACGCC	0.468													7	51					0	0	0.004482	0	0		A	16867001	A	A	16867001	2	1	43	1	0	0	0	0	0	0	0	1	4054	1103	39	1		1	CUBN	10	16867001	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1140930	16867001	118667746	280	34101											
CUBN	8029	broad.mit.edu	37	chr10	16911739	16911739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcttcacatttggtgggCgcttggaaccgcagaatttg	7	13	12	9	2	2	1	1	0	1	1	2	2	2	2	1	3	2	3	1	3	2	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:16911739C>T	uc001ioo.2	-	59	9402	c.9350G>A	c.(9349-9351)CGC>CAC	p.R3117H	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Missense_Mutation_p.R473H	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3117	CUB 23.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	ATTTGGTGGGCGCTTGGAACC	0.498													22	220					0	0	0.012319	0	0		T	16911739	T	T	16911739	3	4	43	1	0	0	0	0	1	0	0	0	4054	768	27	1	1557	1	CUBN	10	16911739	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	44738	16911739	118623008	281	34102											
ARMC3	219681	broad.mit.edu	37	chr10	23244766	23244766	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaacaaccctccttgaacTtggagctgtggaacctttaa	13	11	7	10	0	0	1	0	1	0	0	1	3	1	3	3	2	5	1	3	2	6	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:23244766T>G	uc001irm.3	+	4	280	c.197T>G	c.(196-198)CTT>CGT	p.L66R	ARMC3_uc010qcv.1_Missense_Mutation_p.L66R|ARMC3_uc010qcw.1_5'UTR|ARMC3_uc001irn.1_5'UTR	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	66	ARM 2.						binding				0						CTCCTTGAACTTGGAGCTGTG	0.388													9	56					0	0	0.004482	0	0		G	23244766	G	G	23244766	3	3	43	1	0	0	0	0	1	0	0	0	953	1609	56	5	207	5	ARMC3	10	23244766	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	6333027	23244766	112289981	282	34103											
MPP7	143098	broad.mit.edu	37	chr10	28378673	28378673	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcttcgtatgtgggtacGtcagctgtgtcgtactgatc	6	15	11	9	3	2	1	1	1	1	0	5	1	2	1	0	1	3	4	0	1	3	5	rs150334793		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:28378673G>A	uc001iua.1	-	14	1454	c.1050C>T	c.(1048-1050)GAC>GAT	p.D350D	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Silent_p.D350D|MPP7_uc009xla.2_Silent_p.D350D|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	350					establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						ATGTGGGTACGTCAGCTGTGT	0.383													42	180					0	0	0.011902	0	0		A	28378673	A	A	28378673	2	1	43	1	0	0	0	0	0	0	0	1	9757	1136	40	1		1	MPP7	10	28378673	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	5133907	28378673	107156074	283	34104											
ITGB1	3688	broad.mit.edu	37	chr10	33209310	33209310	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaatgacttctgaggaaaGggactaaaagaatgcctaat	18	8	9	6	0	1	3	0	2	1	1	1	5	1	5	1	2	1	0	1	2	7	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:33209310G>T	uc001iws.3	-	10	1268	c.1132C>A	c.(1132-1134)CTT>ATT	p.L378I	ITGB1_uc001iwp.3_Missense_Mutation_p.L378I|ITGB1_uc001iwq.3_Missense_Mutation_p.L378I|ITGB1_uc001iwr.3_Missense_Mutation_p.L378I|ITGB1_uc001iwt.3_Missense_Mutation_p.L378I|ITGB1_uc001iwu.1_Missense_Mutation_p.L378I	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	378	Extracellular (Potential).|VWFA.				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				TCTGAGGAAAGGGACTAAAAG	0.353													13	59					4.3838e-07	4.79595e-07	0.001855	1	0		T	33209310	T	T	33209310	3	4	43	1	0	0	0	0	1	0	0	0	7906	1000	35	5	1530	5	ITGB1	10	33209310	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	4830637	33209310	102325437	284	34105											
NRP1	8829	broad.mit.edu	37	chr10	33475246	33475246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagctgatcgtactcctctgGcttctggtagcgcagtttga	6	13	11	11	2	2	2	0	2	2	0	4	2	3	2	1	2	3	6	1	2	2	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:33475246G>A	uc001iwx.3	-	14	2756	c.2233C>T	c.(2233-2235)CCA>TCA	p.P745S	NRP1_uc001iwv.3_Missense_Mutation_p.P745S|NRP1_uc009xlz.2_Missense_Mutation_p.P739S|NRP1_uc001iww.3_Missense_Mutation_p.P557S|NRP1_uc001iwy.3_Missense_Mutation_p.P738S	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	745	Extracellular (Potential).|MAM.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	TACTCCTCTGGCTTCTGGTAG	0.532													4	74					0	0	0.000602	0	0		A	33475246	A	A	33475246	3	1	43	1	0	0	0	0	1	0	0	0	10679	1203	42	2	554	2	NRP1	10	33475246	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	265936	33475246	102059501	285	34106											
BMS1	9790	broad.mit.edu	37	chr10	43292065	43292065	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagatgacgggttggaaaAcggctctagtgatgaggaag	13	8	16	4	2	1	5	0	4	1	1	1	7	1	7	0	4	1	2	0	4	5	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:43292065A>C	uc001jaj.2	+	10	1731	c.1373A>C	c.(1372-1374)AAC>ACC	p.N458T		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	458					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						GGGTTGGAAAACGGCTCTAGT	0.443													8	58					0	0	0.004482	0	0		C	43292065	C	C	43292065	3	2	43	1	0	0	0	0	1	0	0	0	1473	43	2	5	1407	5	BMS1	10	43292065	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	9816819	43292065	92242682	286	34107											
ZNF32	7580	broad.mit.edu	37	chr10	44139887	44139887	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggacagcgagactacctcGttgactgaagcttttcccac	9	10	10	12	2	0	3	0	2	0	1	2	5	1	4	2	1	3	2	2	1	2	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:44139887G>A	uc001jbb.2	-	3	622	c.433C>T	c.(433-435)CGA>TGA	p.R145*	uc001jba.2_Intron|ZNF32_uc001jbc.2_Nonsense_Mutation_p.R145*	NM_001005368	NP_001005368	P17041	ZNF32_HUMAN	zinc finger protein 32	145	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		all_neural(218;0.0182)|Ovarian(717;0.0443)|Renal(717;0.157)		Lung(62;0.179)		AGACTACCTCGTTGACTGAAG	0.483													17	91					0	0	0.006122	0	0		A	44139887	A	A	44139887	4	1	43	1	0	0	0	0	0	1	0	0	17863	1153	40	1	392	1	ZNF32	10	44139887	Nonsense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	847822	44139887	91394860	287	34108											
GDF2	2658	broad.mit.edu	37	chr10	48416403	48416403	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtagtcgacttatcggaCgtgtacctgttgtacaggtc	7	12	13	9	4	0	0	0	0	0	0	3	2	0	1	1	3	2	4	1	3	4	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:48416403C>T	uc001jfa.1	-	1	454	c.291G>A	c.(289-291)ACG>ACA	p.T97T		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	97					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						ACTTATCGGACGTGTACCTGT	0.582													19	73					0	0	0.010504	0	0		T	48416403	T	T	48416403	2	4	43	1	0	0	0	0	0	0	0	1	6329	523	19	1		1	GDF2	10	48416403	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4276516	48416403	87118344	288	34109											
ANK3	288	broad.mit.edu	37	chr10	61833987	61833987	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actggctttcatttgaaatgCtttaaccttttctttaatac	10	19	4	8	0	2	1	1	1	1	0	2	1	2	1	1	1	3	2	1	1	4	9			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:61833987C>A	uc001jky.2	-	37	6844	c.6652G>T	c.(6652-6654)GCA>TCA	p.A2218S	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2218					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						ATTTGAAATGCTTTAACCTTT	0.433													4	152					0.00909568	0.00937397	0.009096	1	0		A	61833987	A	A	61833987	3	1	43	1	0	0	0	0	1	0	0	0	622	797	28	5	6822	5	ANK3	10	61833987	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	13417584	61833987	73700760	289	34110											
LRIT2	340745	broad.mit.edu	37	chr10	85981787	85981787	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggagccatccttggactgCggggctgcaggggtgcagct	7	7	17	10	1	0	0	0	0	0	0	1	2	1	2	2	6	5	4	2	6	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:85981787C>T	uc001kcy.2	-	3	1550	c.1542G>A	c.(1540-1542)CCG>CCA	p.P514P	LRIT2_uc010qmc.1_Silent_p.P524P	NM_001017924	NP_001017924	A6NDA9	LRIT2_HUMAN	leucine rich repeat containing 22 precursor	514						integral to membrane				ovary(2)	2						CCTTGGACTGCGGGGCTGCAG	0.617													26	148					0	0	0.005443	0	0		T	85981787	T	T	85981787	2	4	43	1	0	0	0	0	0	0	0	1	8966	755	27	1		1	LRIT2	10	85981787	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	24147800	85981787	49552960	290	34111											
WAPAL	23063	broad.mit.edu	37	chr10	88230820	88230820	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtgctctcaggtgcattcGaaaactgggcatggcacatt	10	11	11	9	1	1	0	1	0	1	0	3	1	1	0	0	3	3	4	0	3	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:88230820G>A	uc001kdo.2	-	8	2513	c.2071C>T	c.(2071-2073)CGA>TGA	p.R691*	WAPAL_uc009xsv.2_Nonsense_Mutation_p.R5*|WAPAL_uc001kdn.2_Nonsense_Mutation_p.R728*|WAPAL_uc009xsw.2_Nonsense_Mutation_p.R685*	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	691	WAPL.				cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						AGGTGCATTCGAAAACTGGGC	0.418													14	93					0	0	0.00245	0	0		A	88230820	A	A	88230820	4	1	43	1	0	0	0	0	0	1	0	0	17274	1066	37	1	1549	1	WAPAL	10	88230820	Nonsense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2249033	88230820	47303927	291	34112											
CYP2C19	1557	broad.mit.edu	37	chr10	96484237	96484237	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacctcctccccaccaacCtgccccatgcagtgacctgt	7	9	6	19	0	0	2	0	2	0	0	2	2	2	2	9	0	3	1	9	0	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:96484237C>A	uc010qny.1	+	5	765	c.-93C>A	c.(-95--91)ACCTG>ACATG		CYP2C18_uc001kjv.3_Missense_Mutation_p.L366M|CYP2C18_uc001kjw.3_Missense_Mutation_p.L307M|CYP2C19_uc009xus.1_Intron	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,						exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	CCCCACCAACCTGCCCCATGC	0.512													31	215					1.74807e-11	1.95931e-11	0.010818	1	0		A	96484237	A	A	96484237	1	1	43	1	0	0	0	0	0	0	0	0	4169	680	24	5		5	CYP2C19	10	96484237	Translation_Start_Site	SNP	C	TCGA-BR-6802-01A-11D-1882-08	8253417	96484237	39050510	292	34113											
C10orf12	26148	broad.mit.edu	37	chr10	98742860	98742860	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccacacggaaactctggaGgacacagaaaagccaagtgt	15	6	10	10	1	1	1	0	0	1	1	2	4	2	4	2	3	2	0	2	3	4	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:98742860G>T	uc001kmv.2	+	1	1820	c.1713G>T	c.(1711-1713)GAG>GAT	p.E571D		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	571										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		AAACTCTGGAGGACACAGAAA	0.502													10	79					3.86212e-05	4.12647e-05	0.008291	1	0		T	98742860	T	T	98742860	3	4	43	1	0	0	0	0	1	0	0	0	1592	991	35	5	1715	5	C10orf12	10	98742860	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2258623	98742860	36791887	293	34114											
ENTPD7	57089	broad.mit.edu	37	chr10	101458568	101458568	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgtacagaggatgtgttgCgcattggtggccgctaccat	8	12	13	8	2	0	1	0	0	0	1	0	2	0	2	2	3	3	4	2	3	2	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:101458568C>T	uc001kqa.3	+	10	1466	c.1288C>T	c.(1288-1290)CGC>TGC	p.R430C	ENTPD7_uc009xwl.2_Missense_Mutation_p.R432C	NM_020354	NP_065087	Q9NQZ7	ENTP7_HUMAN	ectonucleoside triphosphate diphosphohydrolase	430	Vesicular (Potential).					cytoplasmic vesicle membrane|integral to membrane	hydrolase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)		GGATGTGTTGCGCATTGGTGG	0.413													12	67					0	0	0.001855	0	0		T	101458568	T	T	101458568	3	4	43	1	0	0	0	0	1	0	0	0	5152	768	27	1	1322	1	ENTPD7	10	101458568	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2715708	101458568	34076179	294	34115											
SUFU	51684	broad.mit.edu	37	chr10	104264032	104264032	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacgccatctacggagagtgCcgccgcctttaccctgacca	8	7	9	17	4	1	2	0	1	1	1	1	3	1	2	6	1	3	0	6	1	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:104264032C>T	uc001kvy.1	+	1	269	c.123C>T	c.(121-123)TGC>TGT	p.C41C	SUFU_uc001kvw.1_Silent_p.C41C|SUFU_uc001kvx.2_Silent_p.C41C|ACTR1A_uc001kvv.2_5'Flank|ACTR1A_uc010qqn.1_5'Flank|ACTR1A_uc010qqo.1_5'Flank	NM_016169	NP_057253	Q9UMX1	SUFU_HUMAN	suppressor of fused	41					negative regulation of transcription from RNA polymerase II promoter|proteolysis|skeletal system development	cytoplasm|nucleus	identical protein binding|protein binding|signal transducer activity|transcription corepressor activity|transcription factor binding			central_nervous_system(4)|skin(2)|breast(1)	7		Colorectal(252;0.207)		Epithelial(162;1.36e-08)|all cancers(201;3.81e-07)|BRCA - Breast invasive adenocarcinoma(275;0.242)		ACGGAGAGTGCCGCCGCCTTT	0.483			D|F|S		medulloblastoma	medulloblastoma			Medulloblastoma_associated_with_Germline_SUFU_Mutation				5	31					0	0	0.001168	0	0		T	104264032	T	T	104264032	2	4	43	1	0	0	0	0	0	0	0	1	15393	747	26	2		2	SUFU	10	104264032	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2805464	104264032	31270715	295	34116											
WDR11	55717	broad.mit.edu	37	chr10	122625206	122625206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatggttgtataactttacGtgttcgaagatcttataata	14	16	7	4	2	1	1	0	0	1	1	2	2	1	1	0	1	2	3	0	1	8	9			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:122625206G>A	uc010qtf.1	+	7	1182	c.944G>A	c.(943-945)CGT>CAT	p.R315H	WDR11_uc010qte.1_Intron|WDR11_uc001lfd.1_Translation_Start_Site	NM_018117	NP_060587	Q9BZH6	WDR11_HUMAN	bromodomain and WD repeat domain containing 2	315						integral to membrane					0						ATAACTTTACGTGTTCGAAGA	0.274													8	55					0	0	0.004482	0	0		A	122625206	A	A	122625206	3	1	43	1	0	0	0	0	1	0	0	0	17299	1145	40	1	970	1	WDR11	10	122625206	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	18361174	122625206	12909541	296	34117											
HTRA1	5654	broad.mit.edu	37	chr10	124273729	124273729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtctcaaggaaaacgacGtcataatcagcatcaatgga	15	8	10	8	2	4	0	4	0	1	0	5	3	4	2	0	3	2	1	0	3	5	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:124273729G>A	uc001lgj.2	+	9	1425	c.1297G>A	c.(1297-1299)GTC>ATC	p.V433I		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	433	PDZ.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				GGAAAACGACGTCATAATCAG	0.493													6	393					0	0	0.001168	0	0		A	124273729	A	A	124273729	3	1	43	1	0	0	0	0	1	0	0	0	7469	1145	40	1	1331	1	HTRA1	10	124273729	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1648523	124273729	11261018	297	34118											
HMX2	3167	broad.mit.edu	37	chr10	124908090	124908090	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggaaggcgcccgcctgcTtctgcccagaccagcacggc	6	5	13	17	3	1	1	0	0	1	1	1	2	1	2	4	3	3	3	4	3	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:124908090T>G	uc001lhc.1	+	1	453	c.196T>G	c.(196-198)TTC>GTC	p.F66V		NM_005519	NP_005510	A2RU54	HMX2_HUMAN	H6 family homeobox 2	66					cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_neural(114;0.169)|Colorectal(57;0.207)|Glioma(114;0.222)		Colorectal(40;0.123)|COAD - Colon adenocarcinoma(40;0.141)		GCCCGCCTGCTTCTGCCCAGA	0.697													6	31					0	0	0.00308	0	0		G	124908090	G	G	124908090	3	3	43	1	0	0	0	0	1	0	0	0	7263	1609	56	5	198	5	HMX2	10	124908090	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	634361	124908090	10626657	298	34119											
BUB3	9184	broad.mit.edu	37	chr10	124921806	124921806	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttgagtatttggacccaAgccctgaggtacagaagaag	13	8	12	8	0	0	4	0	2	0	2	0	5	0	5	2	2	2	3	2	2	5	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr10:124921806A>C	uc001lhe.2	+	6	873	c.631A>C	c.(631-633)AGC>CGC	p.S211R	BUB3_uc009yah.2_Missense_Mutation_p.S163R|BUB3_uc001lhf.3_Missense_Mutation_p.S211R|BUB3_uc001lhd.2_Missense_Mutation_p.S211R|BUB3_uc010qud.1_Missense_Mutation_p.S131R	NM_004725	NP_004716	O43684	BUB3_HUMAN	budding uninhibited by benzimidazoles 3 isoform	211					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|attachment of spindle microtubules to kinetochore|cell division|meiosis|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	condensed chromosome kinetochore|cytosol|nucleus	protein binding			ovary(1)	1		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)				TTTGGACCCAAGCCCTGAGGT	0.403													27	338					0	0	0.005443	0	0		C	124921806	C	C	124921806	3	2	43	1	0	0	0	0	1	0	0	0	1575	72	3	5	649	5	BUB3	10	124921806	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	13716	124921806	10612941	299	34120											
B4GALNT4	338707	broad.mit.edu	37	chr11	373264	373264	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacgagagccctgctgcTgcccagcttgtggcctttgt	4	11	13	13	1	0	1	0	0	0	1	0	3	0	2	3	2	5	3	3	2	0	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:373264T>C	uc001lpb.2	+	6	618	c.609T>C	c.(607-609)GCT>GCC	p.A203A		NM_178537	NP_848632	Q76KP1	B4GN4_HUMAN	beta	203	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			pancreas(1)	1		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GCCCTGCTGCTGCCCAGCTTG	0.632													7	46					0	0	0.001984	0	0		C	373264	C	C	373264	2	2	43	1	0	0	0	0	0	0	0	1	1270	1567	55	3		3	B4GALNT4	11	373264	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08		373264	134633252	300	34121											
PKP3	11187	broad.mit.edu	37	chr11	399184	399184	+	Frame_Shift_Del	DEL	A	-	-																															agcaggatgatgagcttcgcAaaaatgtcacaggtgctgcc																										TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:399184delA	uc001lpc.2	+	5	1337	c.1261delA	c.(1261-1263)AAAfs	p.K421fs		NM_007183	NP_009114	Q9Y446	PKP3_HUMAN	plakophilin 3	421	ARM 3.				cell adhesion	desmosome|nucleus	binding			skin(1)	1		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGAGCTTCGCAAAAATGTCAC	0.353													5	10	---	---	---	---						.	-	399184	-	-	399184	7	5	43	1	0	1	0	1	0	0	0	0	12005	131	5	0	1279	0	PKP3	11	399184	Frame_Shift_Del	DEL	A	TCGA-BR-6802-01A-11D-1882-08	25920	399184	134607332	301	34122											
MUC5B	727897	broad.mit.edu	37	chr11	1267503	1267503	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctcctccactccggggacGacctggatcctcacagagct	7	7	9	18	2	1	1	1	0	0	1	5	4	5	3	6	3	1	1	6	3	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:1267503G>A	uc009ycr.1	+	49	11268	c.11142G>A	c.(11140-11142)ACG>ACA	p.T3714T	MUC5B_uc001ltb.2_Silent_p.T3134T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3131	7 X Cys-rich subdomain repeats.|Thr-rich.|17 X approximate tandem repeats, Ser/Thr- rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTCCGGGGACGACCTGGATCC	0.657													26	171					0	0	0.005443	0	0		A	1267503	A	A	1267503	2	1	43	1	0	0	0	0	0	0	0	1	9997	1045	37	1		1	MUC5B	11	1267503	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	868319	1267503	133739013	302	34123											
TRPM5	29850	broad.mit.edu	37	chr11	2428999	2428999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagtcacctgaacatggCgatgagcaggttcatgagca	11	8	14	8	1	2	3	2	3	0	0	2	5	2	4	1	3	3	3	1	3	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:2428999C>T	uc001lwm.3	-	19	2935	c.2926G>A	c.(2926-2928)GCC>ACC	p.A976T	TRPM5_uc010qxl.1_Missense_Mutation_p.A976T|TRPM5_uc009ydn.2_Missense_Mutation_p.A978T	NM_014555	NP_055370	Q9NZQ8	TRPM5_HUMAN	transient receptor potential cation channel,	976	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity|voltage-gated ion channel activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Medulloblastoma(188;0.0049)|Breast(177;0.00586)|all_epithelial(84;0.0075)|Ovarian(85;0.0256)|all_neural(188;0.0311)		BRCA - Breast invasive adenocarcinoma(625;0.00147)|LUSC - Lung squamous cell carcinoma(625;0.191)		CTGAACATGGCGATGAGCAGG	0.602													11	88					0	0	0.010729	0	0		T	2428999	T	T	2428999	3	4	43	1	0	0	0	0	1	0	0	0	16615	768	27	1	595	1	TRPM5	11	2428999	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1161496	2428999	132577517	303	34124											
OR52I2	143502	broad.mit.edu	37	chr11	4608096	4608096	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcatacatcatttgtgcatTaacaggaaaaaagtctcact	15	12	5	9	0	3	0	3	0	1	0	4	1	3	1	0	1	3	1	0	1	5	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:4608096T>C	uc010qyh.1	+	1	54	c.54T>C	c.(52-54)ATT>ATC	p.I18I		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATTTGTGCATTAACAGGAAAA	0.448													16	113					0	0	0.004007	0	0		C	4608096	C	C	4608096	2	2	43	1	0	0	0	0	0	0	0	1	11140	1742	61	3		3	OR52I2	11	4608096	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	2179097	4608096	130398420	304	34125											
OR51F2	119694	broad.mit.edu	37	chr11	4843262	4843262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcatccttggtctgtttgCgcttttgtccactacagggt	5	15	10	11	1	1	0	0	0	1	0	3	0	3	0	2	2	3	3	2	2	1	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:4843262C>T	uc010qyn.1	+	1	647	c.647C>T	c.(646-648)GCG>GTG	p.A216V		NM_001004753	NP_001004753	Q8NH61	O51F2_HUMAN	olfactory receptor, family 51, subfamily F,	216	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGTCTGTTTGCGCTTTTGTCC	0.478													25	141					0	0	0.00333	0	0		T	4843262	T	T	4843262	3	4	43	1	0	0	0	0	1	0	0	0	11116	768	27	1	649	1	OR51F2	11	4843262	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	235166	4843262	130163254	305	34126											
UBQLN3	50613	broad.mit.edu	37	chr11	5529610	5529610	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gactcctcggggagaggctgGcctgacccaggctcctgaga	7	6	15	13	1	0	3	0	2	0	2	3	6	2	3	4	5	0	2	4	5	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:5529610G>A	uc001may.1	-	2	1265	c.1179C>T	c.(1177-1179)GGC>GGT	p.G393G	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	393										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGAGAGGCTGGCCTGACCCAG	0.577													12	199					0	0	0.013537	0	0		A	5529610	A	A	5529610	2	1	43	1	0	0	0	0	0	0	0	1	16924	1190	42	2		2	UBQLN3	11	5529610	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	686348	5529610	129476906	306	34127											
OR56A4	120793	broad.mit.edu	37	chr11	6023985	6023985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggaccttggggatgaCggtgaggcagagcacgatgt	9	6	18	8	2	0	3	0	2	0	1	0	6	0	5	2	6	1	2	2	6	0	1	rs146498967		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:6023985C>T	uc010qzv.1	-	1	394	c.394G>A	c.(394-396)GTC>ATC	p.V132I		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	80	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTGGGGATGACGGTGAGGCAG	0.567													4	94					0	0	0.000602	0	0		T	6023985	T	T	6023985	3	4	43	1	0	0	0	0	1	0	0	0	11154	536	19	1	705	1	OR56A4	11	6023985	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	494375	6023985	128982531	307	34128											
OR2AG1	144125	broad.mit.edu	37	chr11	6806831	6806831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccacacttgctgaaggtggCctgtgctgatacctccagat	8	10	10	13	0	0	3	0	2	0	1	1	3	1	3	4	2	3	2	4	2	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:6806831C>T	uc001mer.1	+	1	563	c.563C>T	c.(562-564)GCC>GTC	p.A188V		NM_001004489	NP_001004489	Q9H205	O2AG1_HUMAN	olfactory receptor, family 2, subfamily AG,	188	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.19e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CTGAAGGTGGCCTGTGCTGAT	0.488													6	111					0	0	0.001168	0	0		T	6806831	T	T	6806831	3	4	43	1	0	0	0	0	1	0	0	0	11003	739	26	2	565	2	OR2AG1	11	6806831	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	782846	6806831	128199685	308	34129											
ZNF214	7761	broad.mit.edu	37	chr11	7021534	7021534	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctgtatggactctctgAtgaatgcgaagatctgagct	9	12	10	10	1	2	4	0	3	2	1	4	6	3	5	2	1	2	2	2	1	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:7021534A>G	uc001mfa.2	-	3	1683	c.1380T>C	c.(1378-1380)CAT>CAC	p.H460H	ZNF214_uc010ray.1_Silent_p.H460H|ZNF214_uc009yfh.1_Silent_p.H460H	NM_013249	NP_037381	Q9UL59	ZN214_HUMAN	zinc finger protein 214	460	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				Epithelial(150;3.87e-08)|BRCA - Breast invasive adenocarcinoma(625;0.081)		GGACTCTCTGATGAATGCGAA	0.418													21	127					0	0	0.014323	0	0		G	7021534	G	G	7021534	2	3	43	1	0	0	0	0	0	0	0	1	17795	330	12	3		3	ZNF214	11	7021534	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	214703	7021534	127984982	309	34130											
ARNTL	406	broad.mit.edu	37	chr11	13393740	13393740	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcttctgcacaatccacaGcacaggctatttgaaaagct	14	9	7	11	0	1	1	0	1	1	0	2	1	2	1	1	1	4	5	1	1	5	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:13393740G>T	uc001mkr.2	+	13	1259	c.851G>T	c.(850-852)AGC>ATC	p.S284I	ARNTL_uc001mko.2_Missense_Mutation_p.S240I|ARNTL_uc001mkp.2_Missense_Mutation_p.S283I|ARNTL_uc001mkq.2_Missense_Mutation_p.S283I|ARNTL_uc001mks.2_Missense_Mutation_p.S241I|ARNTL_uc001mkt.2_Missense_Mutation_p.S284I|ARNTL_uc001mku.2_RNA|ARNTL_uc009ygm.1_Intron|ARNTL_uc001mkv.1_Missense_Mutation_p.S241I|ARNTL_uc001mkw.2_Missense_Mutation_p.S241I|ARNTL_uc001mkx.2_Missense_Mutation_p.S282I	NM_001178	NP_001169	O00327	BMAL1_HUMAN	aryl hydrocarbon receptor nuclear	284					circadian rhythm|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	aryl hydrocarbon receptor binding|DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0				Epithelial(150;0.0243)		ACAATCCACAGCACAGGCTAT	0.512													28	146					3.73808e-20	4.2418e-20	0.005443	1	0		T	13393740	T	T	13393740	3	4	43	1	0	0	0	0	1	0	0	0	968	971	34	5	897	5	ARNTL	11	13393740	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	6372206	13393740	121612776	310	34131											
PIK3C2A	5286	broad.mit.edu	37	chr11	17190440	17190440	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggtctaatacctccacAttatccaccttaggcttact	10	14	4	13	0	2	0	1	0	1	0	4	0	4	0	4	2	2	1	4	2	5	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:17190440A>G	uc001mmq.3	-	1	915	c.849T>C	c.(847-849)AAT>AAC	p.N283N	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Intron|PIK3C2A_uc001mmr.3_RNA|PIK3C2A_uc010rcx.1_Silent_p.N283N|PIK3C2A_uc009ygv.1_Silent_p.N283N	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	283					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	ATACCTCCACATTATCCACCT	0.393													11	107					0	0	0.013537	0	0		G	17190440	G	G	17190440	2	3	43	1	0	0	0	0	0	0	0	1	11928	214	8	3		3	PIK3C2A	11	17190440	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	3796700	17190440	117816076	311	34132											
E2F8	79733	broad.mit.edu	37	chr11	19251862	19251862	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggaagggtgcagaattCtgagaactctcagctggtaa	11	10	13	7	0	2	2	1	1	2	2	3	4	2	3	0	3	3	3	0	3	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:19251862C>A	uc001mpm.2	-	9	1806	c.1284G>T	c.(1282-1284)CAG>CAT	p.Q428H	E2F8_uc009yhv.2_Intron|E2F8_uc001mpn.3_Missense_Mutation_p.Q428H	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	428					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						GTGCAGAATTCTGAGAACTCT	0.418													11	91					5.50884e-06	5.93545e-06	0.013537	1	0		A	19251862	A	A	19251862	3	1	43	1	0	0	0	0	1	0	0	0	4879	912	32	5	1339	5	E2F8	11	19251862	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2061422	19251862	115754654	312	34133											
NELL1	4745	broad.mit.edu	37	chr11	20907060	20907060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaatttatggcttggccagCgcaaccaaaagcatggctta	12	10	9	10	1	1	0	1	0	0	0	1	0	1	0	2	3	3	4	2	3	6	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:20907060C>T	uc001mqe.2	+	5	730	c.577C>T	c.(577-579)CGC>TGC	p.R193C	NELL1_uc001mqf.2_Missense_Mutation_p.R193C|NELL1_uc009yid.2_Missense_Mutation_p.R221C|NELL1_uc010rdo.1_Missense_Mutation_p.R136C|NELL1_uc010rdp.1_Intron	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	193	TSP N-terminal.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						GCTTGGCCAGCGCAACCAAAA	0.398													14	55					0	0	0.001855	0	0		T	20907060	T	T	20907060	3	4	43	1	0	0	0	0	1	0	0	0	10352	768	27	1	595	1	NELL1	11	20907060	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1655198	20907060	114099456	313	34134											
SLC17A6	57084	broad.mit.edu	37	chr11	22387116	22387116	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttggaatggtctggtacAtgttttggcttttggtgtct	4	19	13	5	0	2	0	0	0	2	0	2	1	2	1	0	5	1	4	0	5	2	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:22387116A>G	uc001mqk.2	+	7	1185	c.772A>G	c.(772-774)ATG>GTG	p.M258V		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	258	Helical; (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						GGTCTGGTACATGTTTTGGCT	0.403													14	107					0	0	0.004007	0	0		G	22387116	G	G	22387116	3	3	43	1	0	0	0	0	1	0	0	0	14446	217	8	3	798	3	SLC17A6	11	22387116	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	1480056	22387116	112619400	314	34135											
NAT10	55226	broad.mit.edu	37	chr11	34133754	34133754	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatcctgggcaataccttcgGcatgtgtgtgctgcaggtgg	6	11	15	9	1	0	0	0	0	0	0	2	1	1	0	2	4	3	4	2	4	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:34133754G>C	uc001mvk.2	+	4	600	c.356G>C	c.(355-357)GGC>GCC	p.G119A	NAT10_uc010ren.1_Missense_Mutation_p.G47A	NM_024662	NP_078938	Q9H0A0	NAT10_HUMAN	N-acetyltransferase 10 isoform a	119						nucleolus	ATP binding|N-acetyltransferase activity|protein binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0119)|all_hematologic(20;0.0231)				AATACCTTCGGCATGTGTGTG	0.512													14	69					0	0	0.004007	0	0		C	34133754	C	C	34133754	3	2	43	1	0	0	0	0	1	0	0	0	10192	1203	42	5	366	5	NAT10	11	34133754	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	11746638	34133754	100872762	315	34136											
TRAF6	7189	broad.mit.edu	37	chr11	36520142	36520142	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattgtctggaaatagttgAttttccagcagtatttcatt	12	17	7	5	0	2	1	1	1	1	0	3	2	3	2	1	1	1	3	1	1	4	8			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:36520142A>T	uc001mwr.1	-	4	685	c.345T>A	c.(343-345)AAT>AAA	p.N115K	TRAF6_uc001mws.1_Missense_Mutation_p.N115K	NM_145803	NP_665802	Q9Y4K3	TRAF6_HUMAN	TNF receptor-associated factor 6	115	Interaction with TAX1BP1.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|ossification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell cytokine production|protein autoubiquitination|protein K63-linked ubiquitination|response to interleukin-1|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cell cortex|cytosol|endosome membrane|internal side of plasma membrane|nuclear membrane	histone deacetylase binding|mitogen-activated protein kinase kinase kinase binding|protein kinase B binding|protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				GAAATAGTTGATTTTCCAGCA	0.353													4	75					0	0	0.009096	0	0		T	36520142	T	T	36520142	3	4	43	1	0	0	0	0	1	0	0	0	16471	330	12	5	1243	5	TRAF6	11	36520142	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	2386388	36520142	98486374	316	34137											
MED19	219541	broad.mit.edu	37	chr11	57472562	57472562	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgttatcatgggaaccAggcagatcaatcatccctgg	10	10	10	11	0	3	1	3	0	0	1	4	2	4	2	2	3	2	3	2	3	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:57472562A>G	uc001nla.1	-	2	379	c.357T>C	c.(355-357)CCT>CCC	p.P119P	MED19_uc001nlb.2_Silent_p.P119P	NM_153450	NP_703151	A0JLT2	MED19_HUMAN	mediator complex subunit 19	119					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex		p.P119L(1)		ovary(2)	2						CATGGGAACCAGGCAGATCAA	0.493													12	88					0	0	0.013537	0	0		G	57472562	G	G	57472562	2	3	43	1	0	0	0	0	0	0	0	1	9455	175	7	3		3	MED19	11	57472562	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	20952420	57472562	77533954	317	34138											
TMEM132A	54972	broad.mit.edu	37	chr11	60697990	60697990	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttccccaggatcaaggTgaagaaggggctgcatgtga	10	9	13	9	0	2	3	1	2	1	1	4	4	3	4	2	4	1	2	2	4	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:60697990T>C	uc001nqj.2	+	5	1068	c.875T>C	c.(874-876)GTG>GCG	p.V292A	TMEM132A_uc001nqi.2_Missense_Mutation_p.V292A|TMEM132A_uc001nqk.2_Missense_Mutation_p.V305A|TMEM132A_uc001nql.1_Missense_Mutation_p.V305A	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	292	Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						AGGATCAAGGTGAAGAAGGGG	0.592													38	237					0	0	0.006999	0	0		C	60697990	C	C	60697990	3	2	43	1	0	0	0	0	1	0	0	0	16070	1696	59	3	893	3	TMEM132A	11	60697990	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	3225428	60697990	74308526	318	34139											
DDB1	1642	broad.mit.edu	37	chr11	61071397	61071397	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcactgagcgcataaggtcGcccaccaggatgaagtcgcc	11	5	12	13	3	0	2	0	2	0	0	2	3	0	3	3	2	2	2	3	2	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:61071397G>A	uc001nrc.3	-	22	2998	c.2772C>T	c.(2770-2772)GGC>GGT	p.G924G	DDB1_uc010rle.1_Silent_p.G235G|DDB1_uc010rlf.1_Silent_p.G924G	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	924	Interaction with CDT1 and CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						GCATAAGGTCGCCCACCAGGA	0.542								NER					8	128					0	0	0.004482	0	0		A	61071397	A	A	61071397	2	1	43	1	0	0	0	0	0	0	0	1	4326	1074	38	1		1	DDB1	11	61071397	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	373407	61071397	73935119	319	34140											
DAK	26007	broad.mit.edu	37	chr11	61106764	61106764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaagaactacactggggatCggctcaacttcggcctggcc	9	8	12	12	2	1	2	1	1	0	1	3	3	1	3	2	5	3	1	2	5	4	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:61106764C>T	uc001nre.2	+	5	600	c.343C>T	c.(343-345)CGG>TGG	p.R115W	DDB1_uc010rlf.1_Intron|DAK_uc009ynm.1_Missense_Mutation_p.R45W	NM_015533	NP_056348	Q3LXA3	DHAK_HUMAN	dihydroxyacetone kinase 2	115	DhaK.				glycerol metabolic process	cytosol	ATP binding|FAD-AMP lyase (cyclizing) activity|glycerone kinase activity|metal ion binding				0						CACTGGGGATCGGCTCAACTT	0.642													4	115					0	0	0.009096	0	0		T	61106764	T	T	61106764	3	4	43	1	0	0	0	0	1	0	0	0	4231	875	31	1	357	1	DAK	11	61106764	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	35367	61106764	73899752	320	34141											
FLRT1	23769	broad.mit.edu	37	chr11	63884259	63884259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattgaggaggacgccttcGccgacagcaaacagctcaag	12	5	12	12	3	1	1	1	1	0	0	2	4	1	3	2	2	3	3	2	2	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:63884259G>A	uc001nyi.1	+	2	861	c.520G>A	c.(520-522)GCC>ACC	p.A174T	MACROD1_uc001nyh.2_Intron	NM_013280	NP_037412	Q9NZU1	FLRT1_HUMAN	fibronectin leucine rich transmembrane protein	146	Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity				0						GGACGCCTTCGCCGACAGCAA	0.642													10	40					0	0	0.008291	0	0		A	63884259	A	A	63884259	3	1	43	1	0	0	0	0	1	0	0	0	5952	1087	38	1	522	1	FLRT1	11	63884259	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2777495	63884259	71122257	321	34142											
NRXN2	9379	broad.mit.edu	37	chr11	64428414	64428414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccggaggtctcggctacGcccatctatgaagaggtccc	7	7	12	15	3	2	2	0	1	2	1	4	3	3	3	4	4	1	1	4	4	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:64428414G>A	uc001oar.2	-	11	2435	c.1996C>T	c.(1996-1998)CGT>TGT	p.R666C	NRXN2_uc001oas.2_Missense_Mutation_p.R635C|NRXN2_uc001oaq.2_Missense_Mutation_p.R333C	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:Variant_position_missing_in_P58401_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						TCTCGGCTACGCCCATCTATG	0.692													9	54					0	0	0.006214	0	0		A	64428414	A	A	64428414	3	1	43	1	0	0	0	0	1	0	0	0	10685	1087	38	1	3467	1	NRXN2	11	64428414	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	544155	64428414	70578102	322	34143											
TIGD3	220359	broad.mit.edu	37	chr11	65124144	65124144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagctcttgcctctggccGcctctagcaccacgcctccc	5	9	8	19	2	3	1	0	1	3	0	4	1	4	1	6	1	3	2	6	1	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:65124144G>A	uc001odo.3	+	2	1028	c.865G>A	c.(865-867)GCC>ACC	p.A289T		NM_145719	NP_663771	Q6B0B8	TIGD3_HUMAN	tigger transposable element derived 3	289	DDE.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						GCCTCTGGCCGCCTCTAGCAC	0.652													10	55					0	0	0.008291	0	0		A	65124144	A	A	65124144	3	1	43	1	0	0	0	0	1	0	0	0	15922	1087	38	1	867	1	TIGD3	11	65124144	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	695730	65124144	69882372	323	34144											
EFEMP2	30008	broad.mit.edu	37	chr11	65637592	65637592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcccagcccagcctcacCaacacaggagcggttgttag	9	6	11	15	1	1	0	1	0	0	0	1	1	1	1	4	3	4	2	4	3	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:65637592C>T	uc001ofy.3	-	6	801	c.607G>A	c.(607-609)GAT>AAT	p.D203N	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Missense_Mutation_p.D203N	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	203	EGF-like 4; calcium-binding (Potential).				blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		CCAGCCTCACCAACACAGGAG	0.682													6	47					0	0	0.001168	0	0		T	65637592	T	T	65637592	3	4	43	1	0	0	0	0	1	0	0	0	4948	608	21	4	748	4	EFEMP2	11	65637592	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	513448	65637592	69368924	324	34145											
CTSF	8722	broad.mit.edu	37	chr11	66332220	66332220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctagggcctcacctgcatgCcaaaggcattgatggccacg	9	7	12	13	1	1	1	1	1	0	0	1	1	1	1	4	3	2	3	4	3	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:66332220C>T	uc001oip.2	-	10	1313	c.1223G>A	c.(1222-1224)GGC>GAC	p.G408D		NM_003793	NP_003784	Q9UBX1	CATF_HUMAN	cathepsin F precursor	408					proteolysis	lysosome	cysteine-type endopeptidase activity				0						CACCTGCATGCCAAAGGCATT	0.632													9	43					0	0	0.006214	0	0		T	66332220	T	T	66332220	3	4	43	1	0	0	0	0	1	0	0	0	4037	739	26	2	247	2	CTSF	11	66332220	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	694628	66332220	68674296	325	34146											
RCE1	9986	broad.mit.edu	37	chr11	66613485	66613485	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctgctccagcccctcacGgaccccaagctctacggcag	7	7	8	19	2	3	0	1	0	2	0	4	1	4	1	5	2	4	3	5	2	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:66613485G>A	uc001ojk.1	+	8	953	c.909G>A	c.(907-909)ACG>ACA	p.T303T	RCE1_uc001ojl.1_Silent_p.T199T	NM_005133	NP_005124	Q9Y256	FACE2_HUMAN	prenyl protein peptidase RCE1 isoform 1	303	Helical; (Potential).				proteolysis	endoplasmic reticulum membrane|integral to plasma membrane	metalloendopeptidase activity			ovary(1)|breast(1)	2						AGCCCCTCACGGACCCCAAGC	0.647													24	132					0	0	0.004656	0	0		A	66613485	A	A	66613485	2	1	43	1	0	0	0	0	0	0	0	1	13201	1103	39	1		1	RCE1	11	66613485	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	281265	66613485	68393031	326	34147											
RHOD	29984	broad.mit.edu	37	chr11	66834258	66834258	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgttctaccctgacgccagCgtcctgctgctttgcttcga	4	13	9	15	3	1	1	0	1	1	0	3	2	2	1	3	0	5	4	3	0	1	4	rs144971798	by1000genomes	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:66834258C>T	uc001ojv.2	+	3	355	c.270C>T	c.(268-270)AGC>AGT	p.S90S		NM_014578	NP_055393	O00212	RHOD_HUMAN	ras homolog D precursor	90					regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0						CTGACGCCAGCGTCCTGCTGC	0.612													6	182					0	0	0.004482	0	0		T	66834258	T	T	66834258	2	4	43	1	0	0	0	0	0	0	0	1	13362	767	27	1		1	RHOD	11	66834258	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	220773	66834258	68172258	327	34148											
RHOD	29984	broad.mit.edu	37	chr11	66838974	66838974	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggctcggctccatgacaaCgtccacgccgtcttccagga	7	8	10	16	5	1	1	0	1	1	0	6	2	4	2	4	3	1	2	4	3	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:66838974C>T	uc001ojv.2	+	5	619	c.534C>T	c.(532-534)AAC>AAT	p.N178N		NM_014578	NP_055393	O00212	RHOD_HUMAN	ras homolog D precursor	178					regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0						TCCATGACAACGTCCACGCCG	0.677													7	30					0	0	0.001984	0	0		T	66838974	T	T	66838974	2	4	43	1	0	0	0	0	0	0	0	1	13362	535	19	1		1	RHOD	11	66838974	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4716	66838974	68167542	328	34149											
CARNS1	57571	broad.mit.edu	37	chr11	67187277	67187277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaatctgtgctgtggtgtgtCggacacagggtgataggcca	8	10	16	7	1	1	1	0	1	1	0	2	3	1	2	1	4	1	1	1	4	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:67187277C>T	uc009yrp.2	+	6	1164	c.712C>T	c.(712-714)CGG>TGG	p.R238W	PPP1CA_uc001okx.1_Intron|CARNS1_uc010rpr.1_Missense_Mutation_p.R361W|CARNS1_uc001olc.3_Missense_Mutation_p.R377W	NM_020811	NP_065862	A5YM72	CRNS1_HUMAN	ATP-grasp domain containing 1	238					carnosine biosynthetic process		ATP binding|carnosine synthase activity|metal ion binding				0						TGTGGTGTGTCGGACACAGGG	0.652													4	3					0	0	0.001168	0	0		T	67187277	T	T	67187277	3	4	43	1	0	0	0	0	1	0	0	0	2659	875	31	1	1103	1	CARNS1	11	67187277	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	348303	67187277	67819239	329	34150											
PPFIA1	8500	broad.mit.edu	37	chr11	70189942	70189942	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagcgggcaggccgacgcGcacacactagccatgatgct	9	4	12	16	4	0	1	0	1	0	0	0	2	0	1	3	2	3	3	3	2	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:70189942G>A	uc001opo.2	+	15	2073	c.1875G>A	c.(1873-1875)GCG>GCA	p.A625A	PPFIA1_uc001opn.1_Silent_p.A625A|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	625	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			AGGCCGACGCGCACACACTAG	0.562													15	33					0	0	0.004007	0	0		A	70189942	A	A	70189942	2	1	43	1	0	0	0	0	0	0	0	1	12328	1074	38	1		1	PPFIA1	11	70189942	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3002665	70189942	64816574	330	34151											
FOLH1B	219595	broad.mit.edu	37	chr11	89424639	89424639	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttttttctgcagtaaaaaAttttacagaaattgcttcca	14	16	4	7	0	1	1	0	0	1	1	2	1	2	1	1	0	3	3	1	0	5	8			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:89424639A>C	uc001pda.2	+	12	1515	c.989A>C	c.(988-990)AAT>ACT	p.N330T		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	330					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						GCAGTAAAAAATTTTACAGAA	0.274													11	69					0	0	0.001855	0	0		C	89424639	C	C	89424639	3	2	43	1	0	0	0	0	1	0	0	0	5994	101	4	5	1027	5	FOLH1B	11	89424639	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	19234697	89424639	45581877	331	34152											
KIAA1826	84437	broad.mit.edu	37	chr11	105880396	105880396	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccagttgcaagcgttctcGctcaagttttaacttctctg	7	16	7	11	2	3	0	1	0	2	0	6	0	4	0	1	0	3	5	1	0	3	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:105880396G>A	uc001piy.2	-	3	1077	c.904C>T	c.(904-906)CGA>TGA	p.R302*	KIAA1826_uc001piz.2_Nonsense_Mutation_p.R302*	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	302	Potential.					nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		AAGCGTTCTCGCTCAAGTTTT	0.413													12	170					0	0	0.013537	0	0		A	105880396	A	A	105880396	4	1	43	1	0	0	0	0	0	1	0	0	8276	1095	38	1	137	1	KIAA1826	11	105880396	Nonsense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	16455757	105880396	29126120	332	34153											
ATM	472	broad.mit.edu	37	chr11	108164110	108164110	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctctatatcacgattaagcTtttagatccttttcctgacc	9	16	4	12	1	2	2	1	1	1	1	4	3	4	2	4	0	1	1	4	0	4	7			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:108164110T>C	uc001pkb.1	+	31	5067	c.4682T>C	c.(4681-4683)CTT>CCT	p.L1561P	ATM_uc009yxr.1_Missense_Mutation_p.L1561P|ATM_uc001pke.1_Missense_Mutation_p.L213P|ATM_uc001pkf.2_Intron	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1561					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		ACGATTAAGCTTTTAGATCCT	0.289			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			23	103					0	0	0.014323	0	0		C	108164110	C	C	108164110	3	2	43	1	0	0	0	0	1	0	0	0	1110	1609	56	3	4800	3	ATM	11	108164110	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	2283714	108164110	26842406	333	34154											
PHLDB1	23187	broad.mit.edu	37	chr11	118516454	118516454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccccttctctccccagcGcgagtggtctggacatgggg	4	10	12	15	2	2	0	0	0	2	0	5	2	4	1	4	4	1	0	4	4	0	2	rs137998974		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:118516454G>A	uc001ptr.1	+	18	3771	c.3418G>A	c.(3418-3420)GCG>ACG	p.A1140T	PHLDB1_uc001pts.2_Missense_Mutation_p.A1140T|PHLDB1_uc001ptt.2_Missense_Mutation_p.A1093T|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Missense_Mutation_p.A955T|PHLDB1_uc001ptw.1_Missense_Mutation_p.A495T|PHLDB1_uc009zai.1_Missense_Mutation_p.A176T|PHLDB1_uc001ptx.1_Missense_Mutation_p.A176T|PHLDB1_uc010ryi.1_3'UTR	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	1140											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		TCTCCCCAGCGCGAGTGGTCT	0.597													18	125					0	0	0.00499	0	0		A	118516454	A	A	118516454	3	1	43	1	0	0	0	0	1	0	0	0	11870	1101	38	1	3480	1	PHLDB1	11	118516454	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	10352344	118516454	16490062	334	34155											
POU2F3	25833	broad.mit.edu	37	chr11	120176450	120176450	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacctgagcttcaagaacaTgtgcaagctcaagcccctgc	12	7	8	14	0	2	2	2	1	0	1	2	2	2	2	3	0	7	3	3	0	5	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:120176450T>C	uc001pxc.2	+	8	827	c.725T>C	c.(724-726)ATG>ACG	p.M242T	POU2F3_uc010rzk.1_Missense_Mutation_p.M196T|POU2F3_uc010rzl.1_Missense_Mutation_p.M172T|POU2F3_uc001pxe.1_Missense_Mutation_p.M27T	NM_014352	NP_055167	Q9UKI9	PO2F3_HUMAN	POU transcription factor	242	POU-specific.				negative regulation by host of viral transcription	cytoplasm	sequence-specific DNA binding			ovary(1)|skin(1)	2		Breast(109;0.0011)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;6.85e-06)		TTCAAGAACATGTGCAAGCTC	0.582													22	88					0	0	0.00333	0	0		C	120176450	C	C	120176450	3	2	43	1	0	0	0	0	1	0	0	0	12292	1464	51	3	755	3	POU2F3	11	120176450	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	1659996	120176450	14830066	335	34156											
GRIK4	2900	broad.mit.edu	37	chr11	120833350	120833350	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacctcactcagattgggggCctgctggacaccaagggcta	10	7	12	12	0	2	1	2	0	0	1	2	2	2	2	3	4	2	2	3	4	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:120833350C>T	uc001pxn.2	+	18	2513	c.2226C>T	c.(2224-2226)GGC>GGT	p.G742G	GRIK4_uc009zav.1_Silent_p.G742G|GRIK4_uc009zaw.1_Silent_p.G742G|GRIK4_uc009zax.1_Silent_p.G742G	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	742	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	AGATTGGGGGCCTGCTGGACA	0.557													9	88					0	0	0.006214	0	0		T	120833350	T	T	120833350	2	4	43	1	0	0	0	0	0	0	0	1	6792	726	26	2		2	GRIK4	11	120833350	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	656900	120833350	14173166	336	34157											
TECTA	7007	broad.mit.edu	37	chr11	120976660	120976660	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcttctttggcgttccttAccgcactgtctatgtaagtg	5	18	8	10	2	3	0	0	0	3	0	4	0	4	0	2	1	1	3	2	1	3	7			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:120976660A>G	uc010rzo.1	+	2	185	c.185A>G	c.(184-186)TAC>TGC	p.Y62C		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	62					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GGCGTTCCTTACCGCACTGTC	0.428													29	264					0	0	0.008361	0	0		G	120976660	G	G	120976660	3	3	43	1	0	0	0	0	1	0	0	0	15772	391	14	3	191	3	TECTA	11	120976660	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	143310	120976660	14029856	337	34158											
SORL1	6653	broad.mit.edu	37	chr11	121448108	121448108	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgatgaagccaactgtacCggtcagtacttcctggactc	9	11	9	12	1	2	2	1	2	1	0	4	3	3	3	3	2	4	2	3	2	4	3	rs138407235		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:121448108C>T	uc001pxx.2	+	25	3659	c.3579C>T	c.(3577-3579)ACC>ACT	p.T1193T	SORL1_uc010rzp.1_Silent_p.T39T	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1193	Extracellular (Potential).|LDL-receptor class A 3.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		CCAACTGTACCGGTCAGTACT	0.502													16	119					0	0	0.006122	0	0		T	121448108	T	T	121448108	2	4	43	1	0	0	0	0	0	0	0	1	14959	666	23	1		1	SORL1	11	121448108	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	471448	121448108	13558408	338	34159											
OR10G8	219869	broad.mit.edu	37	chr11	123900532	123900532	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaacctgtcgttcattgAcatgtggttctccactgtca	8	13	7	13	1	3	1	2	1	1	0	5	1	3	1	3	1	1	2	3	1	1	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:123900532A>G	uc001pzp.1	+	1	203	c.203A>G	c.(202-204)GAC>GGC	p.D68G		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		TCGTTCATTGACATGTGGTTC	0.532													4	190					0	0	0.009096	0	0		G	123900532	G	G	123900532	3	3	43	1	0	0	0	0	1	0	0	0	10922	275	10	3	205	3	OR10G8	11	123900532	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	2452424	123900532	11105984	339	34160											
KIRREL3	84623	broad.mit.edu	37	chr11	126294613	126294613	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagccatcctgcttgccgctGctgctgacgctgctgtcaca	5	11	10	15	2	1	1	1	1	0	0	2	1	2	1	3	0	6	6	3	0	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:126294613G>A	uc001qea.2	-	17	2560	c.2199C>T	c.(2197-2199)AGC>AGT	p.S733S	KIRREL3_uc001qeb.2_Silent_p.S721S|ST3GAL4_uc001qdx.1_Intron	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	733	Cytoplasmic (Potential).|Ser-rich.				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		GCTTGCCGCTGCTGCTGACGC	0.612													14	90					0	0	0.003163	0	0		A	126294613	A	A	126294613	2	1	43	1	0	0	0	0	0	0	0	1	8342	1310	46	2		2	KIRREL3	11	126294613	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2394081	126294613	8711903	340	34161											
ACAD8	27034	broad.mit.edu	37	chr11	134131749	134131749	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcagtggccttgtgctccAtggccaagctctttgctaca	7	12	10	12	0	1	0	0	0	1	0	2	0	2	0	3	2	5	4	3	2	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr11:134131749A>G	uc001qhk.2	+	9	1118	c.1057A>G	c.(1057-1059)ATG>GTG	p.M353V	ACAD8_uc010scp.1_RNA|ACAD8_uc010scq.1_Missense_Mutation_p.M276V|ACAD8_uc001qhl.2_Missense_Mutation_p.M226V	NM_014384	NP_055199	Q9UKU7	ACAD8_HUMAN	acyl-Coenzyme A dehydrogenase family, member 8	353					branched chain family amino acid catabolic process|lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding				0	all_hematologic(175;0.127)	all_cancers(12;8e-23)|all_epithelial(12;2.59e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|all_neural(223;0.0189)|Medulloblastoma(222;0.0245)|Esophageal squamous(93;0.0559)		Epithelial(10;1.92e-10)|all cancers(11;2.26e-09)|BRCA - Breast invasive adenocarcinoma(10;8.73e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00154)|Lung(977;0.21)		CTTGTGCTCCATGGCCAAGCT	0.587													4	49					0	0	0.009096	0	0		G	134131749	G	G	134131749	3	3	43	1	0	0	0	0	1	0	0	0	110	217	8	3	1091	3	ACAD8	11	134131749	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	7837136	134131749	874767	341	34162											
WNK1	65125	broad.mit.edu	37	chr12	1005427	1005427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcagatgtgccagagagtgCccacaaaactactgcctcag	12	8	9	12	0	2	2	2	0	0	2	2	3	2	2	3	0	5	0	3	0	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:1005427C>T	uc001qio.3	+	24	6281	c.5774C>T	c.(5773-5775)GCC>GTC	p.A1925V	WNK1_uc001qip.3_Missense_Mutation_p.A1677V|WNK1_uc001qir.3_Missense_Mutation_p.A1098V	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1925					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CCAGAGAGTGCCCACAAAACT	0.498													18	68					0	0	0.00499	0	0		T	1005427	T	T	1005427	3	4	43	1	0	0	0	0	1	0	0	0	17403	739	26	2	7370	2	WNK1	12	1005427	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08		1005427	132846468	342	34163											
NTF3	4908	broad.mit.edu	37	chr12	5603459	5603459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acatggatcaaaggagtttgCcagaagactcgctcaattcc	13	9	9	10	1	2	2	2	0	0	2	4	4	3	4	2	2	1	2	2	2	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:5603459C>T	uc001qnl.3	+	1	162	c.79C>T	c.(79-81)CCA>TCA	p.P27S	NTF3_uc001qnk.3_Missense_Mutation_p.P40S	NM_002527	NP_002518	P20783	NTF3_HUMAN	neurotrophin 3 isoform 2 preproprotein	27					signal transduction	extracellular region	growth factor activity|neurotrophin receptor binding			pancreas(1)	1						AAGGAGTTTGCCAGAAGACTC	0.413													15	95					0	0	0.004007	0	0		T	5603459	T	T	5603459	3	4	43	1	0	0	0	0	1	0	0	0	10715	739	26	2	124	2	NTF3	12	5603459	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4598032	5603459	128248436	343	34164											
NTF3	4908	broad.mit.edu	37	chr12	5603725	5603725	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacccccttggagcccccGcccttgtatctcatggagga	7	8	10	16	1	1	0	1	0	1	0	2	3	1	3	5	3	2	2	5	3	1	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:5603725G>A	uc001qnl.3	+	1	428	c.345G>A	c.(343-345)CCG>CCA	p.P115P	NTF3_uc001qnk.3_Silent_p.P128P	NM_002527	NP_002518	P20783	NTF3_HUMAN	neurotrophin 3 isoform 2 preproprotein	115					signal transduction	extracellular region	growth factor activity|neurotrophin receptor binding			pancreas(1)	1						TGGAGCCCCCGCCCTTGTATC	0.612													9	101					0	0	0.004482	0	0		A	5603725	A	A	5603725	2	1	43	1	0	0	0	0	0	0	0	1	10715	1074	38	1		1	NTF3	12	5603725	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	266	5603725	128248170	344	34165											
CD4	920	broad.mit.edu	37	chr12	6925311	6925311	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttacagttgaaaagctgAcgggcagtggcgagctgtgg	9	9	15	8	2	0	2	0	2	0	0	0	3	0	2	1	3	3	4	1	3	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:6925311A>T	uc001qqv.1	+	6	942	c.697A>T	c.(697-699)ACG>TCG	p.T233S	CD4_uc009zez.1_3'UTR|CD4_uc009zfa.1_RNA|CD4_uc009zfb.1_RNA|CD4_uc010sfj.1_5'UTR|CD4_uc009zfc.1_Missense_Mutation_p.T54S|CD4_uc010sfk.1_5'UTR|CD4_uc010sfl.1_5'UTR|CD4_uc010sfm.1_5'UTR	NM_000616	NP_000607	P01730	CD4_HUMAN	CD4 antigen precursor	233	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|entry into host cell|immune response|induction by virus of host cell-cell fusion|initiation of viral infection|maintenance of protein location in cell|positive regulation of interleukin-2 biosynthetic process|positive regulation of protein kinase activity|protein palmitoleylation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|T cell selection|transmembrane receptor protein tyrosine kinase signaling pathway	early endosome|endoplasmic reticulum membrane|integral to membrane|T cell receptor complex	coreceptor activity|extracellular matrix structural constituent|glycoprotein binding|MHC class II protein binding|protein homodimerization activity|protein kinase binding|transmembrane receptor activity|zinc ion binding				0		Myeloproliferative disorder(1001;0.0122)				TGAAAAGCTGACGGGCAGTGG	0.542													34	147					0	0	0.003271	0	0		T	6925311	T	T	6925311	3	4	43	1	0	0	0	0	1	0	0	0	3017	275	10	5	715	5	CD4	12	6925311	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	1321586	6925311	126926584	345	34166											
CD163L1	283316	broad.mit.edu	37	chr12	7527225	7527225	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccacagcccagcttttgAcacaccacgtgggcatcgct	9	8	8	16	2	0	1	0	1	0	0	2	1	1	1	3	1	2	3	3	1	0	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:7527225A>G	uc001qsy.2	-	13	3248	c.3222T>C	c.(3220-3222)TGT>TGC	p.C1074C	CD163L1_uc010sge.1_Silent_p.C1084C	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	1074	SRCR 10.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						CCAGCTTTTGACACACCACGT	0.607											OREG0021653	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	79					0	0	0.000602	0	0		G	7527225	G	G	7527225	2	3	43	1	0	0	0	0	0	0	0	1	2971	273	10	3		3	CD163L1	12	7527225	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	601914	7527225	126324670	346	34167											
CD163L1	283316	broad.mit.edu	37	chr12	7531592	7531592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgagcagatcaaacttgCttccatatttaaatgacacg	14	11	6	10	1	1	3	1	2	0	1	2	3	2	3	2	0	3	2	2	0	4	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:7531592C>T	uc001qsy.2	-	9	2379	c.2353G>A	c.(2353-2355)GCA>ACA	p.A785T	CD163L1_uc010sge.1_Missense_Mutation_p.A795T	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	785	SRCR 7.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						ATCAAACTTGCTTCCATATTT	0.318													9	143					0	0	0.004482	0	0		T	7531592	T	T	7531592	3	4	43	1	0	0	0	0	1	0	0	0	2971	797	28	2	2052	2	CD163L1	12	7531592	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4367	7531592	126320303	347	34168											
SLC2A14	144195	broad.mit.edu	37	chr12	7981304	7981304	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaaagatactcactccgCgtagcattctcctctttttt	9	15	6	11	2	3	2	1	1	2	1	5	2	4	2	2	0	2	2	2	0	3	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:7981304C>T	uc001qtk.2	-	11	1534	c.741G>A	c.(739-741)ACG>ACA	p.T247T	SLC2A14_uc001qtl.2_Silent_p.T224T|SLC2A14_uc001qtm.2_Silent_p.T224T|SLC2A14_uc010sgg.1_Silent_p.T138T|SLC2A14_uc001qtn.2_Silent_p.T247T|SLC2A14_uc001qto.2_Intron|SLC2A14_uc010sgh.1_Silent_p.T262T	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14	247	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		ACTCACTCCGCGTAGCATTCT	0.423													22	93					0	0	0.00333	0	0		T	7981304	T	T	7981304	2	4	43	1	0	0	0	0	0	0	0	1	14568	755	27	1		1	SLC2A14	12	7981304	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	449712	7981304	125870591	348	34169											
GOLT1B	51026	broad.mit.edu	37	chr12	21665273	21665273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttattagaagagtgccagTccttggatccctcctaaatt	10	14	7	10	0	0	2	0	0	0	2	3	3	3	3	4	1	1	0	4	1	5	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:21665273T>C	uc001rez.2	+	4	500	c.341T>C	c.(340-342)GTC>GCC	p.V114A	GOLT1B_uc009zis.2_RNA|GOLT1B_uc009zit.2_RNA|GOLT1B_uc009ziu.2_RNA	NM_016072	NP_057156	Q9Y3E0	GOT1B_HUMAN	golgi transport 1 homolog B	114	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade|protein transport|vesicle-mediated transport	endoplasmic reticulum|Golgi membrane|integral to membrane	signal transducer activity				0						AGAGTGCCAGTCCTTGGATCC	0.338													28	219					0	0	0.012213	0	0		C	21665273	C	C	21665273	3	2	43	1	0	0	0	0	1	0	0	0	6586	1667	58	3	355	3	GOLT1B	12	21665273	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	13683969	21665273	112186622	349	34170											
ABCC9	10060	broad.mit.edu	37	chr12	22035726	22035726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaatgtcctctgtttctgCgggacgtagacgccgtgttg	5	13	13	10	4	2	1	0	0	2	1	3	2	3	2	2	1	2	4	2	1	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:22035726C>T	uc001rfi.1	-	14	2013	c.1993G>A	c.(1993-1995)GCA>ACA	p.A665T	ABCC9_uc001rfh.2_Missense_Mutation_p.A665T|ABCC9_uc001rfj.1_Intron	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	665	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TCTGTTTCTGCGGGACGTAGA	0.378													23	131					0	0	0.004656	0	0		T	22035726	T	T	22035726	3	4	43	1	0	0	0	0	1	0	0	0	59	768	27	1	2898	1	ABCC9	12	22035726	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	370453	22035726	111816169	350	34171											
KRAS	3845	broad.mit.edu	37	chr12	25398285	25398285	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactcttgcctacgccacCagctccaactaccacaagtt	10	8	6	17	1	1	0	0	0	1	0	2	0	2	0	5	1	5	3	5	1	4	4	rs121913530		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:25398285C>A	uc001rgp.1	-	2	215	c.34G>T	c.(34-36)GGT>TGT	p.G12C	KRAS_uc001rgq.1_Missense_Mutation_p.G12C|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12G(6)|p.G12N(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CCTACGCCACCAGCTCCAACT	0.348	G12C(UMUC3_URINARY_TRACT)|G12R(CAL62_THYROID)|G12C(CALU1_LUNG)|G12C(NCIH2030_LUNG)|G12C(LU99_LUNG)|G12C(NCIH1792_LUNG)|G12R(KP2_PANCREAS)|G12C(KHM1B_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12C(NCIH2122_LUNG)|G12C(NCIH358_LUNG)|G12R(PSN1_PANCREAS)|G12C(KYSE410_OESOPHAGUS)|G12S(A549_LUNG)|G12R(HUPT3_PANCREAS)|G12R(TCCPAN2_PANCREAS)|G12C(HCC44_LUNG)|G12S(KMS20_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12C(SW1463_LARGE_INTESTINE)|G12C(NCIH23_LUNG)|G12C(LU65_LUNG)|G12C(NCIH1373_LUNG)|G12C(MIAPACA2_PANCREAS)|G12R(HS274T_BREAST)|G12S(LS123_LARGE_INTESTINE)|G12C(SW1573_LUNG)|G12C(SW837_LARGE_INTESTINE)|G12C(OV56_OVARY)|G12C(IALM_LUNG)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			4	17					1.23904e-05	1.32828e-05	0.000602	1	0		A	25398285	A	A	25398285	3	1	43	1	0	0	0	0	1	0	0	0	8454	594	21	5	672	5	KRAS	12	25398285	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	3362559	25398285	108453610	351	34172											
ITPR2	3709	broad.mit.edu	37	chr12	26784907	26784907	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggtggcacatccggcacGctcatggggaagatggagcc	8	6	16	11	2	1	1	1	0	0	1	2	3	2	3	2	6	1	3	2	6	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:26784907G>A	uc001rhg.2	-	22	3243	c.2826C>T	c.(2824-2826)AGC>AGT	p.S942S		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	942	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					CATCCGGCACGCTCATGGGGA	0.537													29	172					0	0	0.010818	0	0		A	26784907	A	A	26784907	2	1	43	1	0	0	0	0	0	0	0	1	7937	1078	38	1		1	ITPR2	12	26784907	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1386622	26784907	107066988	352	34173											
ITPR2	3709	broad.mit.edu	37	chr12	26839488	26839488	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgcaatgtcattgccatgCgggactgaaaccaaagtata	14	9	10	8	1	1	1	1	1	0	0	1	3	1	2	2	1	4	2	2	1	5	3	rs117349764	by1000genomes	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:26839488C>T	uc001rhg.2	-	11	1491	c.1074G>A	c.(1072-1074)CCG>CCA	p.P358P		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	358	Cytoplasmic (Potential).|MIR 4.				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					CATTGCCATGCGGGACTGAAA	0.423													22	137					0	0	0.010504	0	0		T	26839488	T	T	26839488	2	4	43	1	0	0	0	0	0	0	0	1	7937	755	27	1		1	ITPR2	12	26839488	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	54581	26839488	107012407	353	34174											
MED21	9412	broad.mit.edu	37	chr12	27181274	27181274	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgctacatgtctggaGgatgttgtttatcgaggaga	10	12	14	5	1	1	1	0	0	1	1	2	6	1	3	0	3	3	4	0	3	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:27181274G>T	uc001rhp.1	+	4	345	c.315G>T	c.(313-315)GAG>GAT	p.E105D	MED21_uc009zjh.1_RNA	NM_004264	NP_004255	Q13503	MED21_HUMAN	mediator complex subunit 21	105					positive regulation of transcription from RNA polymerase II promoter	mediator complex	DNA-directed RNA polymerase activity|transcription coactivator activity				0	Colorectal(261;0.0847)					CATGTCTGGAGGATGTTGTTT	0.403													28	188					2.2171e-23	2.52033e-23	0.009535	1	0		T	27181274	T	T	27181274	3	4	43	1	0	0	0	0	1	0	0	0	9457	991	35	5	329	5	MED21	12	27181274	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	341786	27181274	106670621	354	34175											
SYT10	341359	broad.mit.edu	37	chr12	33579288	33579288	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaggagcacttgaaatgctCtgtggaagcgtagtgatgtt	10	12	14	5	1	1	2	0	2	1	0	1	4	1	4	0	2	3	5	0	2	4	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:33579288C>T	uc001rll.1	-	2	591	c.294G>A	c.(292-294)CAG>CAA	p.Q98Q	SYT10_uc009zju.1_5'UTR	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	98	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					TTGAAATGCTCTGTGGAAGCG	0.423													9	68					0	0	0.004482	0	0		T	33579288	T	T	33579288	2	4	43	1	0	0	0	0	0	0	0	1	15491	912	32	4		4	SYT10	12	33579288	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	6398014	33579288	100272607	355	34176											
LRRK2	120892	broad.mit.edu	37	chr12	40672043	40672043	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgccaatcaagcaaaggagGgatcttctttaatttgtcag	13	12	9	7	0	4	0	2	0	2	0	4	2	4	2	1	2	2	1	1	2	4	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:40672043G>T	uc001rmg.3	+	18	2342	c.2221G>T	c.(2221-2223)GGA>TGA	p.G741*	LRRK2_uc001rmh.1_Nonsense_Mutation_p.G363*	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	741					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				AGCAAAGGAGGGATCTTCTTT	0.393													22	120					3.7963e-18	4.30024e-18	0.00333	1	0		T	40672043	T	T	40672043	4	4	43	1	0	0	0	0	0	1	0	0	9051	1233	43	5	2291	5	LRRK2	12	40672043	Nonsense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	7092755	40672043	93179852	356	34177											
PDZRN4	29951	broad.mit.edu	37	chr12	41967251	41967251	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcccaagatggaatggaaGgtgaaaattaggagcgacgg	15	5	16	5	2	0	2	0	1	0	1	0	7	0	5	1	5	2	0	1	5	6	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:41967251G>A	uc010skn.1	+	10	2141	c.2073G>A	c.(2071-2073)AAG>AAA	p.K691K	PDZRN4_uc001rmq.3_Silent_p.K632K|PDZRN4_uc009zjz.2_Silent_p.K630K|PDZRN4_uc001rmr.2_Silent_p.K517K	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	890							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				TGGAATGGAAGGTGAAAATTA	0.502													13	135					0	0	0.001855	0	0		A	41967251	A	A	41967251	2	1	43	1	0	0	0	0	0	0	0	1	11729	991	35	4		4	PDZRN4	12	41967251	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1295208	41967251	91884644	357	34178											
GXYLT1	283464	broad.mit.edu	37	chr12	42491296	42491296	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggttgcttatcgtcatggTaaacacctctgttcccatga	8	14	8	11	1	2	1	1	1	1	0	4	1	3	1	2	2	2	4	2	2	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:42491296T>C	uc001rms.3	-	7	1334	c.1109A>G	c.(1108-1110)TAC>TGC	p.Y370C	GXYLT1_uc001rmt.3_Missense_Mutation_p.Y339C	NM_173601	NP_775872	Q4G148	GXLT1_HUMAN	glycosyltransferase 8 domain containing 3	370	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						ATCGTCATGGTAAACACCTCT	0.333													21	164					0	0	0.012319	0	0		C	42491296	C	C	42491296	3	2	43	1	0	0	0	0	1	0	0	0	6919	1638	57	3	221	3	GXYLT1	12	42491296	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	524045	42491296	91360599	358	34179											
ARID2	196528	broad.mit.edu	37	chr12	46246350	46246350	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctctgttatacagggacatCaaatcatagcagttcccgac	12	10	7	12	1	3	0	2	0	1	0	4	2	4	1	2	1	2	3	2	1	4	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:46246350C>T	uc001ros.1	+	15	4444	c.4444C>T	c.(4444-4446)CAA>TAA	p.Q1482*	ARID2_uc001ror.2_Nonsense_Mutation_p.Q1482*|ARID2_uc009zkg.1_Nonsense_Mutation_p.Q938*|ARID2_uc009zkh.1_Nonsense_Mutation_p.Q1109*|ARID2_uc001rou.1_Nonsense_Mutation_p.Q816*	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1482					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		ACAGGGACATCAAATCATAGC	0.448													17	142					0	0	0.004007	0	0		T	46246350	T	T	46246350	4	4	43	1	0	0	0	0	0	1	0	0	915	827	29	4	4502	4	ARID2	12	46246350	Nonsense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	3755054	46246350	87605545	359	34180											
CCNT1	904	broad.mit.edu	37	chr12	49087792	49087792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctccagttgcctcttctggGcagccaattcttctgcatgc	5	14	8	14	0	5	0	0	0	5	0	6	0	5	0	3	1	4	3	3	1	1	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:49087792G>A	uc001rse.1	-	9	1528	c.1205C>T	c.(1204-1206)GCC>GTC	p.A402V	LOC144438_uc001rsd.3_5'Flank|CCNT1_uc009zkz.1_Missense_Mutation_p.A117V	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	402	Potential.				cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						CCTCTTCTGGGCAGCCAATTC	0.443													62	322					0	0	0.01441	0	0		A	49087792	A	A	49087792	3	1	43	1	0	0	0	0	1	0	0	0	2937	1203	42	2	979	2	CCNT1	12	49087792	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2841442	49087792	84764103	360	34181											
PRPF40B	25766	broad.mit.edu	37	chr12	50029022	50029022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcctggagcagcatgaacGcatgacctccaccacccgct	9	8	8	16	2	0	2	0	2	0	0	2	3	2	3	5	1	3	4	5	1	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:50029022G>A	uc001rur.1	+	12	1140	c.1076G>A	c.(1075-1077)CGC>CAC	p.R359H	PRPF40B_uc001rup.1_Missense_Mutation_p.R381H|PRPF40B_uc001ruq.1_Missense_Mutation_p.R353H|PRPF40B_uc001rus.1_Missense_Mutation_p.R302H	NM_001031698	NP_001026868	Q6NWY9	PR40B_HUMAN	Huntingtin interacting protein C isoform 1	359					mRNA processing|RNA splicing	nuclear speck				skin(2)|ovary(1)|pancreas(1)|kidney(1)	5						CAGCATGAACGCATGACCTCC	0.622													13	71					0	0	0.013537	0	0		A	50029022	A	A	50029022	3	1	43	1	0	0	0	0	1	0	0	0	12594	1087	38	1	1122	1	PRPF40B	12	50029022	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	941230	50029022	83822873	361	34182											
KRT1	3848	broad.mit.edu	37	chr12	53069130	53069130	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccagagctgccgccgccGccgcctccagagccacctct	5	4	10	22	5	1	2	0	0	1	2	2	2	2	2	10	0	3	1	10	0	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:53069130G>A	uc001sau.1	-	9	1841	c.1782C>T	c.(1780-1782)GGC>GGT	p.G594G	KRT1_uc001sav.1_Silent_p.G587G	NM_006121	NP_006112	P04264	K2C1_HUMAN	keratin 1	594	Gly/Ser-rich.|Tail.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding			ovary(1)|skin(1)	2						tgccgccgccgccgcctccag	0.274													6	34					0	0	0.00308	0	0		A	53069130	A	A	53069130	2	1	43	1	0	0	0	0	0	0	0	1	8463	1074	38	1		1	KRT1	12	53069130	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3040108	53069130	80782765	362	34183											
AVPR1A	552	broad.mit.edu	37	chr12	63544484	63544484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagctcctcgttgcgcaCgtccctcggtgggccgttgc	2	9	14	16	5	0	0	0	0	0	0	4	0	2	0	4	3	3	4	4	3	0	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:63544484C>T	uc001sro.1	-	1	2107	c.133G>A	c.(133-135)GTG>ATG	p.V45M		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	45	Extracellular (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	TCGTTGCGCACGTCCCTCGGT	0.697													10	52					0	0	0.008291	0	0		T	63544484	T	T	63544484	3	4	43	1	0	0	0	0	1	0	0	0	1232	536	19	1	1131	1	AVPR1A	12	63544484	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	10475354	63544484	70307411	363	34184											
LEMD3	23592	broad.mit.edu	37	chr12	65609822	65609822	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgattggcacagcttgcAggtaattgttttaactttta	10	16	9	6	1	0	0	0	0	0	0	1	2	0	0	0	2	3	5	0	2	3	8			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:65609822A>G	uc001ssl.1	+	3	1632	c.1626A>G	c.(1624-1626)GCA>GCG	p.A542A	LEMD3_uc009zqo.1_Silent_p.A541A	NM_014319	NP_055134	Q9Y2U8	MAN1_HUMAN	LEM domain containing 3	542					negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway	integral to nuclear inner membrane|membrane fraction	DNA binding|nucleotide binding|protein binding			central_nervous_system(3)|ovary(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0104)		CACAGCTTGCAGGTAATTGTT	0.274													6	66					0	0	0.00308	0	0		G	65609822	G	G	65609822	2	3	43	1	0	0	0	0	0	0	0	1	8737	202	7	3		3	LEMD3	12	65609822	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	2065338	65609822	68242073	364	34185											
ELK3	2004	broad.mit.edu	37	chr12	96641453	96641453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgacatcggctccatcGccctcaacagcccagccctc	8	5	7	21	3	1	0	1	0	0	0	5	1	2	0	5	1	3	2	5	1	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:96641453G>A	uc001teo.1	+	3	1222	c.943G>A	c.(943-945)GCC>ACC	p.A315T		NM_005230	NP_005221	P41970	ELK3_HUMAN	ELK3 protein	315					negative regulation of transcription, DNA-dependent|signal transduction	mitochondrion	protein binding|purine-rich negative regulatory element binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	all_cancers(2;0.00173)					CGGCTCCATCGCCCTCAACAG	0.597													6	15					0	0	0.001168	0	0		A	96641453	A	A	96641453	3	1	43	1	0	0	0	0	1	0	0	0	5068	1087	38	1	949	1	ELK3	12	96641453	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	31031631	96641453	37210442	365	34186											
ANKS1B	56899	broad.mit.edu	37	chr12	100200253	100200253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggccattgcgcgcagcaaGgtgaagtggcgtgtgcttgc	6	9	17	9	3	0	1	0	1	0	0	0	1	0	1	1	3	4	3	1	3	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:100200253G>A	uc001tge.1	-	4	1015	c.598C>T	c.(598-600)CTT>TTT	p.L200F	ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Missense_Mutation_p.L200F	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	200	ANK 6.					Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		CGCGCAGCAAGGTGAAGTGGC	0.507													4	55					0	0	0.009096	0	0		A	100200253	A	A	100200253	3	1	43	1	0	0	0	0	1	0	0	0	689	1000	35	4	3528	4	ANKS1B	12	100200253	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3558800	100200253	33651642	366	34187											
FICD	11153	broad.mit.edu	37	chr12	108912784	108912784	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgggctacgtggacccCgtggaagccggcaggtttcg	5	8	17	11	4	0	0	0	0	0	0	1	2	0	2	3	5	3	4	3	5	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:108912784C>T	uc001tmx.1	+	3	1055	c.909C>T	c.(907-909)CCC>CCT	p.P303P		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	303	Fido.				negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0						ACGTGGACCCCGTGGAAGCCG	0.592													7	44					0	0	0.001984	0	0		T	108912784	T	T	108912784	2	4	43	1	0	0	0	0	0	0	0	1	5901	639	23	1		1	FICD	12	108912784	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	8712531	108912784	24939111	367	34188											
TPCN1	53373	broad.mit.edu	37	chr12	113733856	113733856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagcccccaggcagccGccagcgctcccagaccgtta	8	3	10	20	3	0	1	0	0	0	1	1	1	1	1	7	1	4	4	7	1	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:113733856G>A	uc001tuw.2	+	28	2723	c.2426G>A	c.(2425-2427)CGC>CAC	p.R809H	TPCN1_uc001tux.2_Missense_Mutation_p.R881H|TPCN1_uc010syu.1_RNA	NM_017901	NP_060371	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1 isoform 2	809	Cytoplasmic (Potential).					endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated ion channel activity			skin(2)|ovary(1)	3						CCAGGCAGCCGCCAGCGCTCC	0.602													8	84					0	0	0.004482	0	0		A	113733856	A	A	113733856	3	1	43	1	0	0	0	0	1	0	0	0	16421	1087	38	1	2752	1	TPCN1	12	113733856	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	4821072	113733856	20118039	368	34189											
RPLP0	6175	broad.mit.edu	37	chr12	120636391	120636391	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcagagtttcctctgtgAtatcaagcacttcagggttg	10	13	10	8	0	3	2	2	1	1	1	4	2	4	2	1	1	2	4	1	1	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:120636391A>G	uc001txp.2	-	6	854	c.617T>C	c.(616-618)ATC>ACC	p.I206T	RPLP0_uc001txq.2_Missense_Mutation_p.I206T|RPLP0_uc001txr.2_Intron|uc001txs.1_5'Flank	NM_053275	NP_444505	P05388	RLA0_HUMAN	ribosomal protein P0	206					endocrine pancreas development|interspecies interaction between organisms|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleus	protein binding|RNA binding|structural constituent of ribosome			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TTCCTCTGTGATATCAAGCAC	0.512													10	70					0	0	0.001855	0	0		G	120636391	G	G	120636391	3	3	43	1	0	0	0	0	1	0	0	0	13629	333	12	3	348	3	RPLP0	12	120636391	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	6902535	120636391	13215504	369	34190											
GPR133	283383	broad.mit.edu	37	chr12	131476867	131476867	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccggagtgatactgagttAcctccaaaatgtatccctca	11	11	7	12	1	1	2	1	2	0	0	4	3	4	3	4	1	2	2	4	1	5	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:131476867A>G	uc001uit.3	+	8	1455	c.896A>G	c.(895-897)TAC>TGC	p.Y299C	GPR133_uc010tbm.1_Missense_Mutation_p.Y331C	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	299	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		ATACTGAGTTACCTCCAAAAT	0.478													12	186					0	0	0.013537	0	0		G	131476867	G	G	131476867	3	3	43	1	0	0	0	0	1	0	0	0	6658	391	14	3	926	3	GPR133	12	131476867	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	10840476	131476867	2375028	370	34191											
POLE	5426	broad.mit.edu	37	chr12	133254218	133254218	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtagggaacatcgtactcGcgcatgtccacaatgttgtc	9	11	11	10	3	0	0	0	0	0	0	4	1	1	1	1	2	2	4	1	2	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr12:133254218G>A	uc001uks.1	-	7	710	c.666C>T	c.(664-666)CGC>CGT	p.R222R	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Silent_p.R195R	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	222					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CATCGTACTCGCGCATGTCCA	0.502								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					5	45					0	0	0.000602	0	0		A	133254218	A	A	133254218	2	1	43	1	0	0	0	0	0	0	0	1	12215	1074	38	1		1	POLE	12	133254218	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1777351	133254218	597677	371	34192											
ATP8A2	51761	broad.mit.edu	37	chr13	26411318	26411318	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattttcaccgctttgccGcccttcactctgggaatctt	6	14	7	14	2	4	1	2	0	2	1	4	2	4	2	3	1	1	1	3	1	1	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr13:26411318G>A	uc001uqk.2	+	29	2914	c.2772G>A	c.(2770-2772)CCG>CCA	p.P924P	ATP8A2_uc010tdi.1_Silent_p.P859P|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Silent_p.P474P	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	884	Helical; (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		CCGCTTTGCCGCCCTTCACTC	0.498													5	161					0	0	0.000602	0	0		A	26411318	A	A	26411318	2	1	43	1	0	0	0	0	0	0	0	1	1194	1074	38	1		1	ATP8A2	13	26411318	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08		26411318	88758560	372	34193											
KL	9365	broad.mit.edu	37	chr13	33591184	33591184	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccccagcgcctgcaggaCgcctacggcggctgggccaa	6	4	14	17	4	0	0	0	0	0	0	0	1	0	1	5	4	4	2	5	4	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr13:33591184C>T	uc001uus.2	+	1	614	c.606C>T	c.(604-606)GAC>GAT	p.D202D	KL_uc001uur.1_Intron	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	202	Glycosyl hydrolase-1 1.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		GCCTGCAGGACGCCTACGGCG	0.697													3	20					0	0	0.009096	0	0		T	33591184	T	T	33591184	2	4	43	1	0	0	0	0	0	0	0	1	8347	535	19	1		1	KL	13	33591184	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	7179866	33591184	81578694	373	34194											
ENOX1	55068	broad.mit.edu	37	chr13	43918697	43918697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagtgagaatcccagttaagGcatttttaaaattctccttg	12	14	8	7	0	1	1	0	1	1	1	3	3	2	1	2	1	0	2	2	1	4	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr13:43918697G>A	uc001uza.3	-	9	1313	c.1013C>T	c.(1012-1014)GCC>GTC	p.A338V	ENOX1_uc001uzb.3_Missense_Mutation_p.A338V|ENOX1_uc001uzc.3_Missense_Mutation_p.A338V|ENOX1_uc001uyz.3_5'UTR|ENOX1_uc010tfm.1_Missense_Mutation_p.A151V	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	338	Potential.				electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		CCCAGTTAAGGCATTTTTAAA	0.403													6	94					0	0	0.001984	0	0		A	43918697	A	A	43918697	3	1	43	1	0	0	0	0	1	0	0	0	5134	1203	42	2	954	2	ENOX1	13	43918697	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	10327513	43918697	71251181	374	34195											
RNF219	79596	broad.mit.edu	37	chr13	79191059	79191059	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgcctttgctccctttGccatctgcagaaagtgctgt	6	14	8	13	0	2	1	1	0	1	1	3	1	3	1	3	0	5	3	3	0	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr13:79191059G>A	uc001vkw.1	-	6	896	c.837C>T	c.(835-837)GGC>GGT	p.G279G	uc001vku.1_RNA|RNF219_uc010afb.1_Silent_p.G89G|RNF219_uc010afc.2_Intron	NM_024546	NP_078822	Q5W0B1	RN219_HUMAN	ring finger protein 219	279							zinc ion binding			large_intestine(2)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.0414)		TGCTCCCTTTGCCATCTGCAG	0.453													16	108					0	0	0.004007	0	0		A	79191059	A	A	79191059	2	1	43	1	0	0	0	0	0	0	0	1	13507	1306	46	2		2	RNF219	13	79191059	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	35272362	79191059	35978819	375	34196											
DOCK9	23348	broad.mit.edu	37	chr13	99449686	99449686	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactttattgtcaggatatcGctttgtgtttgtatcatcta	8	19	7	7	1	3	0	2	0	1	0	4	1	3	1	0	1	0	3	0	1	4	8			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr13:99449686G>A	uc001vnt.2	-	53	6074	c.6019C>T	c.(6019-6021)CGA>TGA	p.R2007*	DOCK9_uc001vnw.2_Nonsense_Mutation_p.R2006*|DOCK9_uc001vnq.2_Nonsense_Mutation_p.R554*|DOCK9_uc001vnr.2_Nonsense_Mutation_p.R636*|DOCK9_uc010tin.1_Nonsense_Mutation_p.R625*|DOCK9_uc001vns.2_Nonsense_Mutation_p.R542*|DOCK9_uc010tio.1_Nonsense_Mutation_p.R662*|DOCK9_uc010tip.1_Nonsense_Mutation_p.R703*	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	2007	DHR-2.				blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TCAGGATATCGCTTTGTGTTT	0.388													9	36					0	0	0.010729	0	0		A	99449686	A	A	99449686	4	1	43	1	0	0	0	0	0	1	0	0	4700	1095	38	1	206	1	DOCK9	13	99449686	Nonsense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	20258627	99449686	15720192	376	34197											
KDELC1	79070	broad.mit.edu	37	chr13	103443452	103443452	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctttcccagggaggaccCgtgttagcttgcacggacat	7	11	12	11	2	0	0	0	0	0	0	1	3	1	3	2	3	3	4	2	3	1	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr13:103443452C>T	uc001vpq.3	-	6	1266	c.882G>A	c.(880-882)ACG>ACA	p.T294T	KDELC1_uc001vpr.3_Silent_p.T75T	NM_024089	NP_076994	Q6UW63	KDEL1_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 1 precursor	294						endoplasmic reticulum lumen				ovary(1)	1	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AGGGAGGACCCGTGTTAGCTT	0.478													14	119					0	0	0.003163	0	0		T	103443452	T	T	103443452	2	4	43	1	0	0	0	0	0	0	0	1	8133	639	23	1		1	KDELC1	13	103443452	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	3993766	103443452	11726426	377	34198											
F7	2155	broad.mit.edu	37	chr13	113771902	113771902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactggaggaacctgatcgCggtgctgggtgggtaccact	8	8	16	9	2	0	1	0	1	0	0	1	4	0	3	2	5	4	2	2	5	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr13:113771902C>T	uc001vsv.2	+	8	848	c.797C>T	c.(796-798)GCG>GTG	p.A266V	F7_uc001vsw.2_Missense_Mutation_p.A244V|F7_uc010tjt.1_Missense_Mutation_p.A197V	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	266	Peptidase S1.		A -> T (in FA7D).		anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	AACCTGATCGCGGTGCTGGGT	0.632													27	165					0	0	0.008361	0	0		T	113771902	T	T	113771902	3	4	43	1	0	0	0	0	1	0	0	0	5357	768	27	1	827	1	F7	13	113771902	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	10328450	113771902	1397976	378	34199											
LRRC16B	90668	broad.mit.edu	37	chr14	24532580	24532580	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caactggggaatctggggatCccccctggctggttctcagg	6	9	14	12	0	2	0	1	0	2	0	4	2	3	2	3	7	1	2	3	7	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr14:24532580C>T	uc001wlj.2	+	31	2974	c.2817C>T	c.(2815-2817)ATC>ATT	p.I939I	LRRC16B_uc001wlk.2_Silent_p.I35I	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	939										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		ATCTGGGGATCCCCCCTGGCT	0.582													18	83					0	0	0.006122	0	0		T	24532580	T	T	24532580	2	4	43	1	0	0	0	0	0	0	0	1	8990	845	30	4		4	LRRC16B	14	24532580	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08		24532580	82816960	379	34200											
RALGAPA1	253959	broad.mit.edu	37	chr14	36159176	36159176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaaaaatgtctgactctaGttgagcggggaagtatttga	12	12	13	4	1	2	4	0	4	2	0	2	5	2	5	0	2	1	2	0	2	5	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr14:36159176G>A	uc001wti.2	-	17	2691	c.2300C>T	c.(2299-2301)ACT>ATT	p.T767I	RALGAPA1_uc001wtj.2_Missense_Mutation_p.T767I|RALGAPA1_uc010tpv.1_Missense_Mutation_p.T767I|RALGAPA1_uc010tpw.1_Missense_Mutation_p.T814I|RALGAPA1_uc001wtk.1_Missense_Mutation_p.T665I	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	767					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						TCTGACTCTAGTTGAGCGGGG	0.333													15	109					0	0	0.007413	0	0		A	36159176	A	A	36159176	3	1	43	1	0	0	0	0	1	0	0	0	13038	1029	36	4	4059	4	RALGAPA1	14	36159176	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	11626596	36159176	71190364	380	34201											
RALGAPA1	253959	broad.mit.edu	37	chr14	36194349	36194349	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactctgagcaacacaagcaGcatctgttcccttaaaataa	15	9	6	11	0	2	1	0	1	2	0	3	2	3	1	1	0	4	4	1	0	5	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr14:36194349G>A	uc001wti.2	-	14	2138	c.1747C>T	c.(1747-1749)CTG>TTG	p.L583L	RALGAPA1_uc001wtj.2_Silent_p.L583L|RALGAPA1_uc010tpv.1_Silent_p.L583L|RALGAPA1_uc010tpw.1_Silent_p.L583L|RALGAPA1_uc001wtk.1_Silent_p.L434L	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	583					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						AACACAAGCAGCATCTGTTCC	0.353													8	90					0	0	0.004482	0	0		A	36194349	A	A	36194349	2	1	43	1	0	0	0	0	0	0	0	1	13038	962	34	2		2	RALGAPA1	14	36194349	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	35173	36194349	71155191	381	34202											
SSTR1	6751	broad.mit.edu	37	chr14	38679601	38679601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcaagcgctctttccaacGcatcctatgcctcagctgga	8	11	7	15	2	3	0	2	0	1	0	5	1	5	1	3	1	4	3	3	1	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr14:38679601G>A	uc001wul.1	+	3	1624	c.1007G>A	c.(1006-1008)CGC>CAC	p.R336H	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	336	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	TCTTTCCAACGCATCCTATGC	0.572													12	149					0	0	0.003163	0	0		A	38679601	A	A	38679601	3	1	43	1	0	0	0	0	1	0	0	0	15222	1087	38	1	1009	1	SSTR1	14	38679601	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2485252	38679601	68669939	382	34203											
SYNE2	23224	broad.mit.edu	37	chr14	64630227	64630227	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcacccacatgctcctcccGggccccctgcactctctcca	6	7	6	22	1	1	0	0	0	1	0	5	0	4	0	6	1	3	3	6	1	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr14:64630227G>A	uc001xgm.2	+	89	16637	c.16407G>A	c.(16405-16407)CCG>CCA	p.P5469P	SYNE2_uc001xgl.2_Silent_p.P5469P|SYNE2_uc010apy.2_Silent_p.P1854P|SYNE2_uc001xgn.2_Silent_p.P431P|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_5'UTR	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5469	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TGCTCCTCCCGGGCCCCCTGC	0.478													21	88					0	0	0.012319	0	0		A	64630227	A	A	64630227	2	1	43	1	0	0	0	0	0	0	0	1	15471	1103	39	1		1	SYNE2	14	64630227	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	25950626	64630227	42719313	383	34204											
SIPA1L1	26037	broad.mit.edu	37	chr14	72054698	72054698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acactgatgatttctacatgCggcgcttccggtcccaaaat	10	11	8	12	3	1	2	0	2	1	0	3	2	3	2	2	2	2	1	2	2	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr14:72054698C>T	uc001xms.2	+	2	457	c.109C>T	c.(109-111)CGG>TGG	p.R37W	SIPA1L1_uc001xmt.2_Missense_Mutation_p.R37W|SIPA1L1_uc001xmu.2_Missense_Mutation_p.R37W|SIPA1L1_uc001xmv.2_Missense_Mutation_p.R37W	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	37					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TTTCTACATGCGGCGCTTCCG	0.547													34	151					0	0	0.003755	0	0		T	72054698	T	T	72054698	3	4	43	1	0	0	0	0	1	0	0	0	14354	759	27	1	111	1	SIPA1L1	14	72054698	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	7424471	72054698	35294842	384	34205											
RGS6	9628	broad.mit.edu	37	chr14	73029132	73029132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctctctgcagggaaagtCgctggcgggcaagcgcctca	7	8	14	12	3	3	0	1	0	2	0	5	1	3	1	1	3	2	3	1	3	2	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr14:73029132C>T	uc001xna.3	+	17	1899	c.1376C>T	c.(1375-1377)TCG>TTG	p.S459L	RGS6_uc010ttn.1_Missense_Mutation_p.S477L|RGS6_uc001xmx.3_Missense_Mutation_p.S459L|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.S477L|RGS6_uc001xmz.1_Intron	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	459					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		CAGGGAAAGTCGCTGGCGGGC	0.647													7	53					0	0	0.001984	0	0		T	73029132	T	T	73029132	3	4	43	1	0	0	0	0	1	0	0	0	13334	893	31	1	1438	1	RGS6	14	73029132	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	974434	73029132	34320408	385	34206											
PAPLN	89932	broad.mit.edu	37	chr14	73718470	73718470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaccatcctgcattacgagCggggtgctgagggggacctg	7	7	16	11	2	0	1	0	1	0	0	1	3	1	2	3	4	4	3	3	4	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr14:73718470C>T	uc010ttx.1	+	8	932	c.769C>T	c.(769-771)CGG>TGG	p.R257W	PAPLN_uc001xnw.3_Missense_Mutation_p.R230W|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.R257W	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	257						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GCATTACGAGCGGGGTGCTGA	0.657													18	78					0	0	0.006122	0	0		T	73718470	T	T	73718470	3	4	43	1	0	0	0	0	1	0	0	0	11447	759	27	1	714	1	PAPLN	14	73718470	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	689338	73718470	33631070	386	34207											
C14orf43	91748	broad.mit.edu	37	chr14	74205491	74205491	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccccatcaggcagtagctgCgactccctcagctccagcgg	7	7	10	17	2	2	0	2	0	0	0	5	1	5	0	4	2	4	4	4	2	1	1	rs142510283		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr14:74205491C>T	uc001xot.2	-	2	2004	c.1221G>A	c.(1219-1221)TCG>TCA	p.S407S	C14orf43_uc001xou.2_Silent_p.S407S|C14orf43_uc010tud.1_Silent_p.S407S|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	407					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		GCAGTAGCTGCGACTCCCTCA	0.662													8	28					0	0	0.006214	0	0		T	74205491	T	T	74205491	2	4	43	1	0	0	0	0	0	0	0	1	1777	755	27	1		1	C14orf43	14	74205491	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	487021	74205491	33144049	387	34208											
TMED8	283578	broad.mit.edu	37	chr14	77808279	77808279	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatgacctccccatagcgAccccgcaaggagctcctgga	9	5	11	16	2	0	1	0	1	0	0	2	4	2	3	6	3	2	3	6	3	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr14:77808279A>T	uc001xto.1	-	6	813	c.813T>A	c.(811-813)GGT>GGA	p.G271G	TMED8_uc010ast.1_RNA|TMED8_uc001xtn.1_Silent_p.G115G	NM_213601	NP_998766	Q6PL24	TMED8_HUMAN	transmembrane emp24 protein transport domain	271	GOLD.				transport	integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		CCCCATAGCGACCCCGCAAGG	0.602													10	45					0	0	0.013537	0	0		T	77808279	T	T	77808279	2	4	43	1	0	0	0	0	0	0	0	1	16036	262	10	5		5	TMED8	14	77808279	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	3602788	77808279	29541261	388	34209											
FAM181A	90050	broad.mit.edu	37	chr14	94395003	94395003	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatccagaagctgcccaGcctggccaggtgcccatgag	9	5	12	15	0	0	2	0	1	0	1	1	2	1	2	5	2	5	2	5	2	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr14:94395003G>A	uc001ybz.1	+	3	865	c.558G>A	c.(556-558)CAG>CAA	p.Q186Q	C14orf86_uc001yby.2_5'Flank|FAM181A_uc010aus.1_Silent_p.Q124Q|FAM181A_uc001yca.1_Silent_p.Q124Q	NM_138344	NP_612353	Q8N9Y4	F181A_HUMAN	hypothetical protein LOC90050	186											0						AAGCTGCCCAGCCTGGCCAGG	0.632													9	51					0	0	0.006214	0	0		A	94395003	A	A	94395003	2	1	43	1	0	0	0	0	0	0	0	1	5519	962	34	2		2	FAM181A	14	94395003	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	16586724	94395003	12954537	389	34210											
AHNAK2	113146	broad.mit.edu	37	chr14	105411774	105411774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggctcacgtcggcctcCgccttcggcgcagacacatc	6	6	13	16	5	1	1	1	0	0	1	5	2	2	2	3	4	0	2	3	4	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr14:105411774C>T	uc010axc.1	-	7	10134	c.10014G>A	c.(10012-10014)GCG>GCA	p.A3338A	AHNAK2_uc001ypx.2_Silent_p.A3238A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3338						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CGTCGGCCTCCGCCTTCGGCG	0.617													41	328					0	0	0.007835	0	0		T	105411774	T	T	105411774	2	4	43	1	0	0	0	0	0	0	0	1	415	639	23	1		1	AHNAK2	14	105411774	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	11016771	105411774	1937766	390	34211											
RYR3	6263	broad.mit.edu	37	chr15	33873841	33873841	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaacctcctctacaaattgCtgggtaagtacacatacagt	13	11	7	10	0	1	1	0	1	1	0	2	1	2	1	2	1	5	3	2	1	6	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:33873841C>T	uc001zhi.2	+	14	1640	c.1570C>T	c.(1570-1572)CTG>TTG	p.L524L	RYR3_uc010bar.2_Silent_p.L524L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	524	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CTACAAATTGCTGGGTAAGTA	0.458													10	122					0	0	0.006214	0	0		T	33873841	T	T	33873841	2	4	43	1	0	0	0	0	0	0	0	1	13795	796	28	2		2	RYR3	15	33873841	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08		33873841	68657551	391	34212											
TP53BP1	7158	broad.mit.edu	37	chr15	43714236	43714236	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggagaaggagctgataTcccccaggtcacctgaggag	11	6	15	9	0	1	3	1	2	0	1	2	7	2	6	3	5	1	1	3	5	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:43714236T>G	uc001zrs.2	-	19	4050	c.3902A>C	c.(3901-3903)GAT>GCT	p.D1301A	TP53BP1_uc010udp.1_Missense_Mutation_p.D1301A|TP53BP1_uc001zrq.3_Missense_Mutation_p.D1306A|TP53BP1_uc001zrr.3_Missense_Mutation_p.D1306A|TP53BP1_uc010udq.1_Missense_Mutation_p.D1306A	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	1301					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		GGAGCTGATATCCCCCAGGTC	0.532								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					27	96					0	0	0.007291	0	0		G	43714236	G	G	43714236	3	3	43	1	0	0	0	0	1	0	0	0	16409	1435	50	5	2056	5	TP53BP1	15	43714236	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	9840395	43714236	58817156	392	34213											
FGF7	2252	broad.mit.edu	37	chr15	49776672	49776672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagaaagaacaaaaaacaGcccactttcttcctatggca	17	7	6	11	1	1	2	0	0	1	2	2	3	2	2	2	1	3	1	2	1	7	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:49776672G>A	uc001zxn.2	+	4	1085	c.556G>A	c.(556-558)GCC>ACC	p.A186T	C15orf33_uc001zxl.2_Intron|C15orf33_uc001zxm.2_Intron	NM_002009	NP_002000	P21781	FGF7_HUMAN	fibroblast growth factor 7 precursor	186					actin cytoskeleton reorganization|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|mesenchymal cell proliferation|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|protein localization at cell surface|secretion by lung epithelial cell involved in lung growth		chemoattractant activity|growth factor activity				0		all_lung(180;0.00391)		all cancers(107;3.61e-08)|GBM - Glioblastoma multiforme(94;4.06e-05)	Palifermin(DB00039)	ACAAAAAACAGCCCACTTTCT	0.373													6	20					0	0	0.001984	0	0		A	49776672	A	A	49776672	3	1	43	1	0	0	0	0	1	0	0	0	5871	971	34	2	566	2	FGF7	15	49776672	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	6062436	49776672	52754720	393	34214											
CYP19A1	1588	broad.mit.edu	37	chr15	51514616	51514616	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgcagaagggtcaacacGtccacatagcccgattcatt	12	7	9	13	4	2	1	2	0	0	1	3	3	3	1	2	1	2	1	2	1	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:51514616G>A	uc001zyz.3	-	6	809	c.558C>T	c.(556-558)GAC>GAT	p.D186D	CYP19A1_uc001zza.3_Silent_p.D186D|CYP19A1_uc001zzb.2_Silent_p.D186D|CYP19A1_uc001zzd.2_Silent_p.D186D|CYP19A1_uc010bey.1_Silent_p.D186D	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	186					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	GGGTCAACACGTCCACATAGC	0.517													9	83					0	0	0.004482	0	0		A	51514616	A	A	51514616	2	1	43	1	0	0	0	0	0	0	0	1	4151	1136	40	1		1	CYP19A1	15	51514616	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1737944	51514616	51016776	394	34215											
TLN2	83660	broad.mit.edu	37	chr15	63069014	63069014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccagttgatgaaggaaGccgtggatgacatcatggtg	10	8	14	9	2	1	3	1	3	0	0	1	5	1	5	3	3	1	1	3	3	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:63069014G>A	uc002alb.3	+	40	5419	c.5419G>A	c.(5419-5421)GCC>ACC	p.A1807T	TLN2_uc002alc.3_Missense_Mutation_p.A200T|TLN2_uc002ald.2_Missense_Mutation_p.A200T	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1807					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GATGAAGGAAGCCGTGGATGA	0.557													6	70					0	0	0.001984	0	0		A	63069014	A	A	63069014	3	1	43	1	0	0	0	0	1	0	0	0	15973	971	34	2	5577	2	TLN2	15	63069014	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	11554398	63069014	39462378	395	34216											
CILP	8483	broad.mit.edu	37	chr15	65489719	65489719	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccccatgttgcgggatcGcacattcacttccagtggcc	6	9	10	16	2	1	0	1	0	0	0	3	1	2	1	5	2	1	2	5	2	0	3	rs150946463		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:65489719G>A	uc002aon.2	-	9	3086	c.2905C>T	c.(2905-2907)CGA>TGA	p.R969*		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	969					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						TTGCGGGATCGCACATTCACT	0.562													23	87					0	0	0.012319	0	0		A	65489719	A	A	65489719	4	1	43	1	0	0	0	0	0	1	0	0	3432	1095	38	1	653	1	CILP	15	65489719	Nonsense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2420705	65489719	37041673	396	34217											
C15orf44	81556	broad.mit.edu	37	chr15	65871779	65871779	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgctcccagagaagtcCgtgtgcaaaggtgtgatgtt	8	11	14	8	1	0	2	0	1	0	1	2	3	2	2	2	1	3	4	2	1	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:65871779C>T	uc002apd.2	-	12	1860	c.1524G>A	c.(1522-1524)ACG>ACA	p.T508T	C15orf44_uc010uix.1_Silent_p.T544T|C15orf44_uc010uiz.1_Silent_p.T472T|C15orf44_uc010uja.1_Silent_p.T458T|C15orf44_uc010ujb.1_Silent_p.T429T|C15orf44_uc002ape.3_Silent_p.T508T|C15orf44_uc010uiy.1_Silent_p.T429T	NM_030800	NP_110427	Q96SY0	CO044_HUMAN	hypothetical protein LOC81556 isoform 2	508										ovary(1)	1						CAGAGAAGTCCGTGTGCAAAG	0.473													25	149					0	0	0.005443	0	0		T	65871779	T	T	65871779	2	4	43	1	0	0	0	0	0	0	0	1	1801	639	23	1		1	C15orf44	15	65871779	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	382060	65871779	36659613	397	34218											
C15orf44	81556	broad.mit.edu	37	chr15	65891302	65891302	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaatctatgagacgttcaagGcattccaaggaatcggtgct	13	10	10	8	2	2	1	1	1	1	1	4	3	3	2	1	3	1	3	1	3	5	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:65891302G>A	uc002apd.2	-	5	849	c.513C>T	c.(511-513)TGC>TGT	p.C171C	C15orf44_uc010uix.1_Silent_p.C207C|C15orf44_uc010uiz.1_Silent_p.C135C|C15orf44_uc010uja.1_Silent_p.C122C|C15orf44_uc010ujb.1_Silent_p.C92C|C15orf44_uc002ape.3_Silent_p.C171C|C15orf44_uc010uiy.1_Silent_p.C92C	NM_030800	NP_110427	Q96SY0	CO044_HUMAN	hypothetical protein LOC81556 isoform 2	171	VWFA.									ovary(1)	1						GACGTTCAAGGCATTCCAAGG	0.428													15	64					0	0	0.003163	0	0		A	65891302	A	A	65891302	2	1	43	1	0	0	0	0	0	0	0	1	1801	1195	42	2		2	C15orf44	15	65891302	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	19523	65891302	36640090	398	34219											
FEM1B	10116	broad.mit.edu	37	chr15	68582994	68582994	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatatttcagatgctgatgTccacaatgctatggacaatt	14	13	7	7	0	1	2	1	1	0	1	2	3	2	3	1	1	2	2	1	1	5	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:68582994T>C	uc002arg.2	+	2	1913	c.1298T>C	c.(1297-1299)GTC>GCC	p.V433A	FEM1B_uc002arh.2_Missense_Mutation_p.V353A	NM_015322	NP_056137	Q9UK73	FEM1B_HUMAN	fem-1 homolog b	433					apoptosis|induction of apoptosis|regulation of DNA damage checkpoint|regulation of ubiquitin-protein ligase activity	cytoplasm|nucleus	death receptor binding|ubiquitin-protein ligase activity				0						GATGCTGATGTCCACAATGCT	0.373													22	90					0	0	0.010504	0	0		C	68582994	C	C	68582994	3	2	43	1	0	0	0	0	1	0	0	0	5824	1667	58	3	1304	3	FEM1B	15	68582994	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	2691692	68582994	33948398	399	34220											
THSD4	79875	broad.mit.edu	37	chr15	72020961	72020961	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaccaggaaaatacgagggCggagggaccatgttcaccta	13	5	13	10	3	1	0	1	0	0	0	1	5	1	3	3	4	1	1	3	4	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:72020961C>T	uc002atb.1	+	8	1510	c.1431C>T	c.(1429-1431)GGC>GGT	p.G477G	THSD4_uc002atd.1_Silent_p.G151G|THSD4_uc010ukg.1_Silent_p.G117G|THSD4_uc002ate.2_Silent_p.G117G	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	477						proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						AATACGAGGGCGGAGGGACCA	0.502													22	172					0	0	0.010504	0	0		T	72020961	T	T	72020961	2	4	43	1	0	0	0	0	0	0	0	1	15903	755	27	1		1	THSD4	15	72020961	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	3437967	72020961	30510431	400	34221											
GOLGA6B	55889	broad.mit.edu	37	chr15	72956779	72956779	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtttcccgtccccttaggaGcacctagaagctgccagcca	8	9	9	15	1	0	1	0	0	0	1	2	2	2	2	6	1	4	3	6	1	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:72956779G>A	uc010uks.1	+	13	1469	c.1428G>A	c.(1426-1428)GAG>GAA	p.E476E	uc002aux.1_5'Flank	NM_018652	NP_061122	A6NDN3	GOG6B_HUMAN	golgi autoantigen, golgin subfamily a, 6B	476	Potential.										0						CCCCTTAGGAGCACCTAGAAG	0.622													5	63					0	0	0.000602	0	0		A	72956779	A	A	72956779	2	1	43	1	0	0	0	0	0	0	0	1	6573	962	34	2		2	GOLGA6B	15	72956779	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	935818	72956779	29574613	401	34222											
PML	5371	broad.mit.edu	37	chr15	74315644	74315644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaggcgctctgccgcctgCgccaggaggagccccagagc	6	3	15	17	3	1	1	0	0	1	1	1	3	1	3	6	3	4	1	6	3	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:74315644C>T	uc002awv.2	+	3	1218	c.1078C>T	c.(1078-1080)CGC>TGC	p.R360C	PML_uc002awm.2_Missense_Mutation_p.R360C|PML_uc002awl.2_Missense_Mutation_p.R360C|PML_uc002awj.1_Missense_Mutation_p.R360C|PML_uc002awk.2_Missense_Mutation_p.R360C|PML_uc002awn.2_Missense_Mutation_p.R360C|PML_uc002awo.2_Missense_Mutation_p.R360C|PML_uc002awp.2_Missense_Mutation_p.R360C|PML_uc002awq.2_Missense_Mutation_p.R360C|PML_uc002awr.2_Missense_Mutation_p.R360C|PML_uc002aws.2_Missense_Mutation_p.R360C|PML_uc002awt.2_Missense_Mutation_p.R360C|PML_uc002awu.2_Missense_Mutation_p.R360C|PML_uc010ule.1_Intron|PML_uc002aww.1_Missense_Mutation_p.R275C|PML_uc002awx.2_Missense_Mutation_p.R118C|PML_uc002awy.2_5'Flank	NM_033238	NP_150241	P29590	PML_HUMAN	promyelocytic leukemia protein isoform 1	360					cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction resulting in induction of apoptosis|endoplasmic reticulum calcium ion homeostasis|induction of apoptosis|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|maintenance of protein location in nucleus|negative regulation of angiogenesis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of mitotic cell cycle|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of telomerase activity|negative regulation of telomere maintenance via telomerase|negative regulation of transcription, DNA-dependent|negative regulation of translation in response to oxidative stress|PML body organization|PML body organization|positive regulation of defense response to virus by host|positive regulation of histone deacetylation|protein complex assembly|protein stabilization|protein targeting|regulation of calcium ion transport into cytosol|regulation of protein phosphorylation|response to hypoxia|response to virus|transcription, DNA-dependent	cytoplasm|cytosol|early endosome membrane|extrinsic to endoplasmic reticulum membrane|insoluble fraction|nuclear matrix|nuclear membrane|nucleolus|nucleus|PML body	cobalt ion binding|DNA binding|protein binding|protein binding|protein heterodimerization activity|protein homodimerization activity|SUMO binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding|zinc ion binding			central_nervous_system(2)|kidney(2)|breast(1)	5						CTGCCGCCTGCGCCAGGAGGA	0.677			T	RARA|PAX5	APL|ALL								10	40					0	0	0.008291	0	0		T	74315644	T	T	74315644	3	4	43	1	0	0	0	0	1	0	0	0	12154	768	27	1	1088	1	PML	15	74315644	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1358865	74315644	28215748	402	34223											
SIN3A	25942	broad.mit.edu	37	chr15	75693198	75693198	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaatgccctctgtggctCgctcctttggataagtttcc	6	14	9	12	1	1	0	0	0	1	0	4	1	3	1	3	2	2	4	3	2	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:75693198C>A	uc002bai.2	-	11	1869	c.1610G>T	c.(1609-1611)CGA>CTA	p.R537L	SIN3A_uc002baj.2_Missense_Mutation_p.R537L|SIN3A_uc010uml.1_Missense_Mutation_p.R537L	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	537	Interactions with SUDS3 and SAP130.|Interaction with NCOR1 (By similarity).				blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						CTCTGTGGCTCGCTCCTTTGG	0.428													3	67					0.00909568	0.00937397	0.009096	1	0		A	75693198	A	A	75693198	3	1	43	1	0	0	0	0	1	0	0	0	14350	884	31	5	2255	5	SIN3A	15	75693198	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1377554	75693198	26838194	403	34224											
AKAP13	11214	broad.mit.edu	37	chr15	86261259	86261259	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaggtacagacatgaatgAaggacaactactgggagact	16	7	12	6	0	0	4	0	2	0	2	0	6	0	5	0	3	3	2	0	3	6	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:86261259A>G	uc002blv.1	+	22	6040	c.5870A>G	c.(5869-5871)GAA>GGA	p.E1957G	AKAP13_uc002blu.1_Missense_Mutation_p.E1961G|AKAP13_uc010bnf.1_Missense_Mutation_p.E578G|AKAP13_uc002blw.1_Missense_Mutation_p.E422G|AKAP13_uc002blx.1_Missense_Mutation_p.E202G	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1957	Interaction with ESR1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						GACATGAATGAAGGACAACTA	0.383													7	58					0	0	0.00308	0	0		G	86261259	G	G	86261259	3	3	43	1	0	0	0	0	1	0	0	0	449	246	9	3	6022	3	AKAP13	15	86261259	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	10568061	86261259	16270133	404	34225											
HAPLN3	145864	broad.mit.edu	37	chr15	89424594	89424594	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgttagcatctcaccccgcaGctccagctccaccagaccgc	8	6	7	20	3	1	1	1	0	1	1	4	1	3	1	6	0	3	5	6	0	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:89424594G>T	uc002bnc.2	-	3	615	c.487C>A	c.(487-489)CTG>ATG	p.L163M	HAPLN3_uc002bne.2_RNA|HAPLN3_uc002bnd.2_Missense_Mutation_p.L225M	NM_178232	NP_839946	Q96S86	HPLN3_HUMAN	hyaluronan and proteoglycan link protein 3	163	Ig-like V-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	Lung NSC(78;0.0392)|all_lung(78;0.077)					TCACCCCGCAGCTCCAGCTCC	0.557													9	105					1.11149e-13	1.25018e-13	0.008291	1	0		T	89424594	T	T	89424594	3	4	43	1	0	0	0	0	1	0	0	0	6972	962	34	5	607	5	HAPLN3	15	89424594	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3163335	89424594	13106798	405	34226											
C15orf42	90381	broad.mit.edu	37	chr15	90125982	90125982	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctccaccacggaggtggCactgtcttgccatctgaatc	7	10	10	14	1	2	1	0	1	2	0	4	2	3	2	3	3	2	2	3	3	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:90125982C>T	uc002boe.2	+	2	720	c.720C>T	c.(718-720)GGC>GGT	p.G240G		NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	240					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			ACGGAGGTGGCACTGTCTTGC	0.463													19	111					0	0	0.007413	0	0		T	90125982	T	T	90125982	2	4	43	1	0	0	0	0	0	0	0	1	1799	697	25	2		2	C15orf42	15	90125982	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	701388	90125982	12405410	406	34227											
MAN2A2	4122	broad.mit.edu	37	chr15	91454123	91454123	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggtcatcattcatgcaGcccactatctggtgctgggg	8	10	12	11	0	4	0	3	0	1	0	4	0	4	0	1	4	4	3	1	4	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr15:91454123G>T	uc010bnz.2	+	12	1922	c.1807G>T	c.(1807-1809)GCC>TCC	p.A603S	MAN2A2_uc010boa.2_Missense_Mutation_p.A645S|MAN2A2_uc002bqc.2_Missense_Mutation_p.A603S|MAN2A2_uc010uql.1_Missense_Mutation_p.A265S|MAN2A2_uc010uqm.1_Missense_Mutation_p.A182S|MAN2A2_uc010uqn.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	603	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			CATTCATGCAGCCCACTATCT	0.592													14	71					0.000422831	0.000446555	0.004007	1	0		T	91454123	T	T	91454123	3	4	43	1	0	0	0	0	1	0	0	0	9233	971	34	5	1849	5	MAN2A2	15	91454123	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1328141	91454123	11077269	407	34228											
RPUSD1	113000	broad.mit.edu	37	chr16	836929	836929	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctttgggttctcacaacCtggggcgcagaaggcaggtg	7	9	16	9	1	1	1	1	0	1	1	2	1	1	1	1	6	1	4	1	6	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:836929C>A	uc002cka.2	-	4	644	c.410_splice	c.e4-1	p.G137_splice	RPUSD1_uc002ckb.2_Splice_Site_p.G137_splice|RPUSD1_uc002ckc.2_Splice_Site_p.G8_splice|RPUSD1_uc002ckd.2_Splice_Site_p.V103_splice|CHTF18_uc010uus.1_5'Flank|CHTF18_uc010bre.1_5'Flank|CHTF18_uc002cke.3_5'Flank|CHTF18_uc002ckf.3_5'Flank|CHTF18_uc010brf.2_5'Flank|CHTF18_uc002ckg.3_5'Flank	NM_058192	NP_478072	Q9UJJ7	RUSD1_HUMAN	RNA pseudouridylate synthase domain containing						pseudouridine synthesis		pseudouridine synthase activity|RNA binding				0		Hepatocellular(780;0.00335)				TTCTCACAACCTGGGGCGCAG	0.652													10	72					2.27111e-07	2.49316e-07	0.013537	1	0		A	836929	A	A	836929	5	1	43	1	0	0	0	0	0	0	1	0	13691	695	24	5	537	5	RPUSD1	16	836929	Splice_Site	SNP	C	TCGA-BR-6802-01A-11D-1882-08		836929	89517824	408	34229											
CCNF	899	broad.mit.edu	37	chr16	2499405	2499405	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaccagcctgtccgcctaCgccccagcccgcctggctgc	5	5	9	22	3	0	0	0	0	0	0	1	0	1	0	8	1	4	1	8	1	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:2499405C>T	uc002cqd.1	+	12	1429	c.1341C>T	c.(1339-1341)TAC>TAT	p.Y447Y	CCNF_uc002cqe.1_Silent_p.Y139Y	NM_001761	NP_001752	P41002	CCNF_HUMAN	cyclin F	447					cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)				TGTCCGCCTACGCCCCAGCCC	0.672													12	70					0	0	0.010729	0	0		T	2499405	T	T	2499405	2	4	43	1	0	0	0	0	0	0	0	1	2925	547	19	1		1	CCNF	16	2499405	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1662476	2499405	87855348	409	34230											
CPPED1	55313	broad.mit.edu	37	chr16	12875064	12875064	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatggcgtggatgaggtcGccgcacagaacgaagaattt	11	7	15	8	4	0	3	0	1	0	2	1	5	0	4	1	4	1	2	1	4	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:12875064G>A	uc002dca.3	-	2	378	c.267C>T	c.(265-267)GGC>GGT	p.G89G	CPPED1_uc002dcb.3_Silent_p.G89G	NM_018340	NP_060810	Q9BRF8	CPPED_HUMAN	calcineurin-like phosphoesterase domain	89							hydrolase activity|metal ion binding				0						GGATGAGGTCGCCGCACAGAA	0.527													8	22					0	0	0.00308	0	0		A	12875064	A	A	12875064	2	1	43	1	0	0	0	0	0	0	0	1	3825	1074	38	1		1	CPPED1	16	12875064	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	10375659	12875064	77479689	410	34231											
ABCC1	4363	broad.mit.edu	37	chr16	16218650	16218650	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtcttggcgcaggtggCtggccgtgcggctggagtgt	2	11	20	8	3	1	0	0	0	1	0	1	1	1	1	1	6	1	3	1	6	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:16218650C>T	uc010bvi.2	+	25	3770	c.3595C>T	c.(3595-3597)CTG>TTG	p.L1199L	ABCC1_uc010bvj.2_Silent_p.L1140L|ABCC1_uc010bvk.2_Silent_p.L1143L|ABCC1_uc010bvl.2_Silent_p.L1199L|ABCC1_uc010bvm.2_Silent_p.L1084L|ABCC1_uc002del.3_Silent_p.L1093L	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1199	Cytoplasmic.|ABC transmembrane type-1 2.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GCGCAGGTGGCTGGCCGTGCG	0.582													10	66					0	0	0.008291	0	0		T	16218650	T	T	16218650	2	4	43	1	0	0	0	0	0	0	0	1	49	796	28	2		2	ABCC1	16	16218650	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	3343586	16218650	74136103	411	34232											
VWA3A	146177	broad.mit.edu	37	chr16	22144335	22144335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaccccctgcccgctatGccagtcacactgacacagcc	9	5	6	21	1	1	1	1	1	0	0	1	1	1	1	6	0	3	1	6	0	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:22144335G>A	uc010vbq.1	+	20	2083	c.1987G>A	c.(1987-1989)GCC>ACC	p.A663T	VWA3A_uc010bxd.2_RNA|VWA3A_uc010bxc.2_Missense_Mutation_p.A671T	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	663	VWFA 1.					extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		TGCCCGCTATGCCAGTCACAC	0.612													8	27					0	0	0.004482	0	0		A	22144335	A	A	22144335	3	1	43	1	0	0	0	0	1	0	0	0	17266	1319	46	2	2065	2	VWA3A	16	22144335	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	5925685	22144335	68210418	412	34233											
TNRC6A	27327	broad.mit.edu	37	chr16	24802619	24802619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagtgacaggtccgtttccGgttggaacgaacttggtaaa	11	10	12	8	3	0	1	0	1	0	0	2	3	2	2	2	4	2	3	2	4	4	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:24802619G>A	uc002dmm.2	+	6	2770	c.2656G>A	c.(2656-2658)GGT>AGT	p.G886S	TNRC6A_uc010bxs.2_Missense_Mutation_p.G633S|TNRC6A_uc010vcc.1_Missense_Mutation_p.G633S|TNRC6A_uc002dmn.2_Missense_Mutation_p.G633S|TNRC6A_uc002dmo.2_Missense_Mutation_p.G633S	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	886	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		GTCCGTTTCCGGTTGGAACGA	0.433													13	59					0	0	0.001855	0	0		A	24802619	A	A	24802619	3	1	43	1	0	0	0	0	1	0	0	0	16365	1116	39	1	2678	1	TNRC6A	16	24802619	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2658284	24802619	65552134	413	34234											
ZNF629	23361	broad.mit.edu	37	chr16	30794465	30794465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggccgctcgcccgtgtgcGtgcgctggtgccgcagcaac	4	6	16	15	6	0	0	0	0	0	0	1	0	0	0	3	2	5	4	3	2	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:30794465G>A	uc002dzs.1	-	3	1392	c.1184C>T	c.(1183-1185)ACG>ATG	p.T395M		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	395	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			GCCCGTGTGCGTGCGCTGGTG	0.662													7	49					0	0	0.004482	0	0		A	30794465	A	A	30794465	3	1	43	1	0	0	0	0	1	0	0	0	18078	1145	40	1	1429	1	ZNF629	16	30794465	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	5991846	30794465	59560288	414	34235											
N4BP1	9683	broad.mit.edu	37	chr16	48594880	48594880	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attggtggagaaagggttgaGcaatttggcttagaatgagg	12	11	16	2	0	0	4	0	2	0	2	0	5	0	4	0	5	1	3	0	5	4	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:48594880G>A	uc002efp.2	-	2	1911	c.1674C>T	c.(1672-1674)TGC>TGT	p.C558C		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	558					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				AAAGGGTTGAGCAATTTGGCT	0.453													25	171					0	0	0.005443	0	0		A	48594880	A	A	48594880	2	1	43	1	0	0	0	0	0	0	0	1	10127	963	34	2		2	N4BP1	16	48594880	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	17800415	48594880	41759873	415	34236											
CBLN1	869	broad.mit.edu	37	chr16	49315161	49315161	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactcatctcggacggctcGtggttggtgctcctgatggc	4	13	13	11	3	2	1	1	1	1	0	5	2	3	2	1	5	2	3	1	5	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:49315161G>A	uc002efq.2	-	1	555	c.216C>T	c.(214-216)CAC>CAT	p.H72H		NM_004352	NP_004343	P23435	CBLN1_HUMAN	cerebellin 1 precursor	72	C1q.|Necessary for interaction with CBLN3, and homotrimerization (By similarity).				nervous system development|synaptic transmission	cell junction|extracellular region|synapse					0		all_cancers(37;0.0766)|all_lung(18;0.24)				CGGACGGCTCGTGGTTGGTGC	0.612													7	68					0	0	0.00308	0	0		A	49315161	A	A	49315161	2	1	43	1	0	0	0	0	0	0	0	1	2707	1136	40	1		1	CBLN1	16	49315161	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	720281	49315161	41039592	416	34237											
CHD9	80205	broad.mit.edu	37	chr16	53191220	53191220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattcacaggacttgaccccGaggacctccttcaggagggt	9	8	11	13	1	2	1	2	1	0	0	3	5	3	4	4	4	0	0	4	4	0	3	rs147266259	by1000genomes	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:53191220G>A	uc002ehb.2	+	1	1383	c.1219G>A	c.(1219-1221)GAG>AAG	p.E407K	CHD9_uc002egy.2_Missense_Mutation_p.E407K|CHD9_uc002egz.1_Missense_Mutation_p.E407K|CHD9_uc002eha.1_Missense_Mutation_p.E407K|CHD9_uc002ehc.2_Missense_Mutation_p.E407K	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	407					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				ACTTGACCCCGAGGACCTCCT	0.403													10	26					0	0	0.006214	0	0		A	53191220	A	A	53191220	3	1	43	1	0	0	0	0	1	0	0	0	3335	1059	37	1	1221	1	CHD9	16	53191220	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3876059	53191220	37163533	417	34238											
C16orf80	29105	broad.mit.edu	37	chr16	58149340	58149340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttgcccgaaagcgacgacGcacattcttgtcatctagta	11	10	8	12	4	3	0	1	0	2	0	3	3	3	0	1	0	2	2	1	0	3	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:58149340G>A	uc002enb.1	-	4	575	c.298C>T	c.(298-300)CGT>TGT	p.R100C		NM_013242	NP_037374	Q9Y6A4	CP080_HUMAN	transcription factor IIB	100					multicellular organismal development						0						AAGCGACGACGCACATTCTTG	0.512													5	62					0	0	0.000602	0	0		A	58149340	A	A	58149340	3	1	43	1	0	0	0	0	1	0	0	0	1840	1087	38	1	295	1	C16orf80	16	58149340	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	4958120	58149340	32205413	418	34239											
DPEP3	64180	broad.mit.edu	37	chr16	68013621	68013621	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcgcaggttaacatcctgaAgcacattcttgtaacgctgt	10	13	8	10	2	1	1	0	1	1	0	3	1	2	1	1	1	3	5	1	1	3	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:68013621A>G	uc002evc.3	-	2	504	c.410T>C	c.(409-411)CTT>CCT	p.L137P	DPEP3_uc010cex.2_Missense_Mutation_p.L137P	NM_022357	NP_071752	Q9H4B8	DPEP3_HUMAN	dipeptidase 3 isoform a	112					meiosis	anchored to membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			breast(3)	3		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0117)|Epithelial(162;0.0481)|all cancers(182;0.236)		AACATCCTGAAGCACATTCTT	0.557													6	37					0	0	0.001168	0	0		G	68013621	G	G	68013621	3	3	43	1	0	0	0	0	1	0	0	0	4721	72	3	3	1167	3	DPEP3	16	68013621	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	9864281	68013621	22341132	419	34240											
DUS2L	54920	broad.mit.edu	37	chr16	68110548	68110548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaggagagcatacccaGcccagatcacccctaagatg	12	5	8	16	0	1	3	1	0	0	3	2	4	2	3	6	1	3	1	6	1	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:68110548G>A	uc002evi.2	+	15	1245	c.1096G>A	c.(1096-1098)GCC>ACC	p.A366T	DUS2L_uc002evj.2_Missense_Mutation_p.A366T|DUS2L_uc010vkk.1_Missense_Mutation_p.A331T|DUS2L_uc010cez.2_Missense_Mutation_p.A279T	NM_017803	NP_060273	Q9NX74	DUS2L_HUMAN	dihydrouridine synthase 2-like, SMM1 homolog	366					tRNA processing	endoplasmic reticulum	double-stranded RNA binding|flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0131)|Epithelial(162;0.0564)		AGCATACCCAGCCCAGATCAC	0.597													21	99					0	0	0.014323	0	0		A	68110548	A	A	68110548	3	1	43	1	0	0	0	0	1	0	0	0	4812	971	34	2	1146	2	DUS2L	16	68110548	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	96927	68110548	22244205	420	34241											
WWP2	11060	broad.mit.edu	37	chr16	69964094	69964094	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatacaccagcgagggggtgCgatactttgtggaccacaat	12	8	12	9	2	0	0	0	0	0	0	0	3	0	1	2	3	4	0	2	3	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:69964094C>T	uc002exu.1	+	14	1467	c.1378C>T	c.(1378-1380)CGA>TGA	p.R460*	WWP2_uc002exv.1_Nonsense_Mutation_p.R460*|WWP2_uc010vlm.1_Nonsense_Mutation_p.R344*|WWP2_uc010vln.1_Nonsense_Mutation_p.R78*|WWP2_uc002exw.1_Nonsense_Mutation_p.R21*|uc002exx.1_5'Flank|MIR140_hsa-mir-140|MI0000456_5'Flank	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	460	WW 4.				entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						CGAGGGGGTGCGATACTTTGT	0.572											OREG0023910	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	49					0	0	0.010504	0	0		T	69964094	T	T	69964094	4	4	43	1	0	0	0	0	0	1	0	0	17442	760	27	1	1428	1	WWP2	16	69964094	Nonsense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1853546	69964094	20390659	421	34242											
MTSS1L	92154	broad.mit.edu	37	chr16	70708342	70708342	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggctgcgccaggctgcggTagcgacaggtggaactgggt	6	7	18	10	3	0	0	0	0	0	0	0	2	0	1	1	6	4	3	1	6	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:70708342T>C	uc002ezj.2	-	11	1180	c.920A>G	c.(919-921)TAC>TGC	p.Y307C		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	307	Ser-rich.				filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						CAGGCTGCGGTAGCGACAGGT	0.662													6	43					0	0	0.001168	0	0		C	70708342	C	C	70708342	3	2	43	1	0	0	0	0	1	0	0	0	9981	1638	57	3	1343	3	MTSS1L	16	70708342	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	744248	70708342	19646411	422	34243											
PMFBP1	83449	broad.mit.edu	37	chr16	72158677	72158677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catgcccacctccttatcgtCctcaaggaggttctctttta	7	14	6	14	1	2	0	1	0	1	0	6	1	4	1	4	2	1	1	4	2	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:72158677C>T	uc002fcc.3	-	17	2765	c.2593G>A	c.(2593-2595)GAC>AAC	p.D865N	PMFBP1_uc002fcd.2_Missense_Mutation_p.D860N|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.D715N|PMFBP1_uc010cgo.1_Missense_Mutation_p.D156N	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	865	Potential.									ovary(2)	2		Ovarian(137;0.179)				TCCTTATCGTCCTCAAGGAGG	0.572											OREG0023927	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	108					0	0	0.014323	0	0		T	72158677	T	T	72158677	3	4	43	1	0	0	0	0	1	0	0	0	12153	855	30	4	525	4	PMFBP1	16	72158677	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1450335	72158677	18196076	423	34244											
MLYCD	23417	broad.mit.edu	37	chr16	83933108	83933108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagcagcgggaggcggCggtgctgctgcaggccgagg	6	3	20	12	4	0	0	0	0	0	0	0	2	0	1	2	6	6	5	2	6	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:83933108C>T	uc002fgz.2	+	1	379	c.359C>T	c.(358-360)GCG>GTG	p.A120V		NM_012213	NP_036345	O95822	DCMC_HUMAN	malonyl-CoA decarboxylase precursor	120					acyl-CoA metabolic process|fatty acid biosynthetic process	mitochondrion|peroxisome	malonyl-CoA decarboxylase activity|methylmalonyl-CoA decarboxylase activity				0						CGGGAGGCGGCGGTGCTGCTG	0.746													4	14					0	0	0.009096	0	0		T	83933108	T	T	83933108	3	4	43	1	0	0	0	0	1	0	0	0	9656	768	27	1	361	1	MLYCD	16	83933108	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	11774431	83933108	6421645	424	34245											
SLC38A8	146167	broad.mit.edu	37	chr16	84050219	84050219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgccatggcgagcgtcacgGtgacccacaggatggtcagc	8	5	15	13	4	2	1	2	1	0	0	2	3	2	2	2	4	2	0	2	4	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:84050219G>A	uc002fhg.1	-	8	1067	c.1067C>T	c.(1066-1068)ACC>ATC	p.T356I		NM_001080442	NP_001073911	A6NNN8	S38A8_HUMAN	solute carrier family 38, member 8	356	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane					0						GAGCGTCACGGTGACCCACAG	0.627													10	56					0	0	0.008291	0	0		A	84050219	A	A	84050219	3	1	43	1	0	0	0	0	1	0	0	0	14635	1261	44	4	252	4	SLC38A8	16	84050219	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	117111	84050219	6304534	425	34246											
ATP2C2	9914	broad.mit.edu	37	chr16	84485577	84485577	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggctgacgtttctcggtCttgtgggcatcattgacccc	4	12	13	12	3	3	2	1	2	2	0	4	2	3	2	2	4	0	3	2	4	0	3	rs146513346	by1000genomes	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:84485577C>A	uc002fhx.2	+	18	1800	c.1711C>A	c.(1711-1713)CTT>ATT	p.L571I	ATP2C2_uc010chj.2_Missense_Mutation_p.L571I|ATP2C2_uc002fhy.2_Missense_Mutation_p.L588I|ATP2C2_uc002fhz.2_Missense_Mutation_p.L420I	NM_014861	NP_055676	O75185	AT2C2_HUMAN	ATPase, Ca++ transporting, type 2C, member 2	571	Extracellular (Potential).				ATP biosynthetic process	Golgi membrane|integral to membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			breast(1)|central_nervous_system(1)	2						GTTTCTCGGTCTTGTGGGCAT	0.627													25	163					2.48779e-11	2.78355e-11	0.005443	1	0		A	84485577	A	A	84485577	3	1	43	1	0	0	0	0	1	0	0	0	1145	913	32	5	1781	5	ATP2C2	16	84485577	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	435358	84485577	5869176	426	34247											
KLHL36	79786	broad.mit.edu	37	chr16	84691319	84691319	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctgctgtttgtgggcggCgaggtctccgagcggtgtct	2	11	17	11	5	2	0	0	0	2	0	3	2	2	0	2	4	2	2	2	4	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:84691319C>T	uc002fig.2	+	3	1047	c.906C>T	c.(904-906)GGC>GGT	p.G302G	KLHL36_uc010chl.2_Silent_p.G301G	NM_024731	NP_079007	Q8N4N3	KLH36_HUMAN	kelch-like 36	302	Kelch 1.									skin(2)	2						TTGTGGGCGGCGAGGTCTCCG	0.682													3	22					0	0	0.004672	0	0		T	84691319	T	T	84691319	2	4	43	1	0	0	0	0	0	0	0	1	8405	755	27	1		1	KLHL36	16	84691319	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	205742	84691319	5663434	427	34248											
COX4I1	1327	broad.mit.edu	37	chr16	85839401	85839401	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggctcgaacgagtggaagAcggttgtgggcggtgccatg	7	7	20	7	4	0	1	0	0	0	1	1	4	0	2	1	6	2	2	1	6	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:85839401A>G	uc002fje.2	+	4	468	c.304A>G	c.(304-306)ACG>GCG	p.T102A	COX4I1_uc002fjf.2_3'UTR|COX4I1_uc002fjg.1_Missense_Mutation_p.T102A|COX4I1_uc010vom.1_Missense_Mutation_p.T69A	NM_001861	NP_001852	P13073	COX41_HUMAN	cytochrome c oxidase subunit IV isoform 1	102					respiratory electron transport chain	mitochondrial inner membrane|nucleus	cytochrome-c oxidase activity|protein binding			lung(1)	1		Renal(780;0.228)				CGAGTGGAAGACGGTTGTGGG	0.547													9	117					0	0	0.004482	0	0		G	85839401	G	G	85839401	3	3	43	1	0	0	0	0	1	0	0	0	3772	275	10	3	314	3	COX4I1	16	85839401	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	1148082	85839401	4515352	428	34249											
ANKRD11	29123	broad.mit.edu	37	chr16	89350965	89350965	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacttctgcttggagtccTcatattcgtaagtaaaactt	10	15	7	9	1	2	1	1	1	1	0	4	2	3	2	1	1	2	3	1	1	4	7			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr16:89350965T>C	uc002fmx.1	-	9	2446	c.1985A>G	c.(1984-1986)GAG>GGG	p.E662G	ANKRD11_uc002fmy.1_Missense_Mutation_p.E662G|ANKRD11_uc002fnc.1_Missense_Mutation_p.E662G|ANKRD11_uc002fnb.1_Missense_Mutation_p.E619G	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	662	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CTTGGAGTCCTCATATTCGTA	0.373													3	214					0	0	0.009096	0	0		C	89350965	C	C	89350965	3	2	43	1	0	0	0	0	1	0	0	0	639	1551	54	3	6026	3	ANKRD11	16	89350965	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	3511564	89350965	1003788	429	34250											
RPA1	6117	broad.mit.edu	37	chr17	1783866	1783866	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgatggttctagacagccCgtgttggctatcaaaggagc	9	12	12	8	1	2	2	1	1	1	1	2	3	2	3	1	3	2	3	1	3	3	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:1783866C>T	uc002fto.2	+	12	1237	c.1122C>T	c.(1120-1122)CCC>CCT	p.P374P		NM_002945	NP_002936	P27694	RFA1_HUMAN	replication protein A1	374					cell cycle checkpoint|DNA recombinase assembly|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	actin cytoskeleton|cytoplasm|DNA replication factor A complex|PML body	metal ion binding|protein binding|single-stranded DNA binding				0						CTAGACAGCCCGTGTTGGCTA	0.453								NER					17	71					0	0	0.00499	0	0		T	1783866	T	T	1783866	2	4	43	1	0	0	0	0	0	0	0	1	13561	639	23	1		1	RPA1	17	1783866	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08		1783866	79411344	430	34251											
PITPNM3	83394	broad.mit.edu	37	chr17	6376029	6376029	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacctctggtagcgaggcacGctgacaggcggcaccaggtg	9	5	15	12	3	1	1	0	1	1	0	1	2	1	1	2	5	2	4	2	5	2	1	rs143785279		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:6376029G>A	uc002gdd.3	-	11	1528	c.1377C>T	c.(1375-1377)AGC>AGT	p.S459S	PITPNM3_uc010cln.2_Silent_p.S423S|PITPNM3_uc010clm.2_5'UTR|PITPNM3_uc002gdc.3_Silent_p.S50S	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	459	DDHD.				phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		AGCGAGGCACGCTGACAGGCG	0.652													6	29					0	0	0.001984	0	0		A	6376029	A	A	6376029	2	1	43	1	0	0	0	0	0	0	0	1	11971	1078	38	1		1	PITPNM3	17	6376029	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	4592163	6376029	74819181	431	34252											
DNAH2	146754	broad.mit.edu	37	chr17	7707688	7707688	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgtcgttggagctggaGgatgccaagaagaaggtggc	10	8	18	5	1	0	3	0	1	0	2	1	6	0	6	1	5	2	2	1	5	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:7707688G>T	uc002giu.1	+	58	9101	c.9087G>T	c.(9085-9087)GAG>GAT	p.E3029D	DNAH2_uc010cnm.1_Missense_Mutation_p.E6D	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3029	Potential.|Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TGGAGCTGGAGGATGCCAAGA	0.542													13	77					7.03913e-09	7.83485e-09	0.013537	1	0		T	7707688	T	T	7707688	3	4	43	1	0	0	0	0	1	0	0	0	4608	991	35	5	9317	5	DNAH2	17	7707688	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1331659	7707688	73487522	432	34253											
KDM6B	23135	broad.mit.edu	37	chr17	7753402	7753402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctcagctggagagcaaaCgggatgccttctcacctgtc	8	10	11	12	1	2	1	2	0	2	1	5	3	2	2	2	2	4	2	2	2	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:7753402C>T	uc002giw.1	+	13	3956	c.3580C>T	c.(3580-3582)CGG>TGG	p.R1194W	KDM6B_uc002gix.2_Missense_Mutation_p.R496W	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	1194					inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						GGAGAGCAAACGGGATGCCTT	0.607													6	55					0	0	0.001168	0	0		T	7753402	T	T	7753402	3	4	43	1	0	0	0	0	1	0	0	0	8154	527	19	1	3618	1	KDM6B	17	7753402	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	45714	7753402	73441808	433	34254											
ARHGEF15	22899	broad.mit.edu	37	chr17	8216372	8216372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcgggcctccccgctgcGgacctctcgctcccgccccc	1	6	10	24	6	1	0	0	0	1	0	5	1	3	1	8	2	1	2	8	2	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:8216372G>A	uc002glc.2	+	3	855	c.734G>A	c.(733-735)CGG>CAG	p.R245Q	ARHGEF15_uc002glb.1_3'UTR|ARHGEF15_uc002gld.2_Missense_Mutation_p.R245Q|ARHGEF15_uc010vuw.1_Intron	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	245					negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						TCCCCGCTGCGGACCTCTCGC	0.687													32	126					0	0	0.003755	0	0		A	8216372	A	A	8216372	3	1	43	1	0	0	0	0	1	0	0	0	898	1116	39	1	740	1	ARHGEF15	17	8216372	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	462970	8216372	72978838	434	34255											
ARHGEF15	22899	broad.mit.edu	37	chr17	8218457	8218457	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgggtgaggatgggagtccTtctccagcaaatgctggaga	9	9	16	7	0	1	2	0	1	1	1	3	5	2	4	2	4	2	2	2	4	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:8218457T>G	uc002glc.2	+	6	1243	c.1122T>G	c.(1120-1122)CCT>CCG	p.P374P	ARHGEF15_uc002gld.2_Silent_p.P374P|ARHGEF15_uc010vuw.1_Silent_p.P263P	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	374					negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						ATGGGAGTCCTTCTCCAGCAA	0.612													8	54					0	0	0.00308	0	0		G	8218457	G	G	8218457	2	3	43	1	0	0	0	0	0	0	0	1	898	1596	56	5		5	ARHGEF15	17	8218457	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	2085	8218457	72976753	435	34256											
MFSD6L	162387	broad.mit.edu	37	chr17	8701217	8701217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccccagcaagctgagggCgaccgagaaacccatgacca	12	4	10	15	2	0	3	0	2	0	1	1	5	1	3	5	1	3	2	5	1	2	1	rs143056359	byFrequency	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:8701217C>T	uc002glp.1	-	1	1370	c.1222G>A	c.(1222-1224)GCC>ACC	p.A408T		NM_152599	NP_689812	Q8IWD5	MFS6L_HUMAN	major facilitator superfamily domain containing	408	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						AAGCTGAGGGCGACCGAGAAA	0.562													13	136					0	0	0.001855	0	0		T	8701217	T	T	8701217	3	4	43	1	0	0	0	0	1	0	0	0	9554	768	27	1	542	1	MFSD6L	17	8701217	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	482760	8701217	72493993	436	34257											
CDRT15	146822	broad.mit.edu	37	chr17	14139301	14139301	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggaactcttcttcccaGccttcttttaatgctctccg	5	16	6	14	1	4	0	0	0	4	0	6	1	5	1	3	1	4	2	3	1	2	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:14139301G>A	uc010vvu.1	-	3	439	c.439C>T	c.(439-441)CTG>TTG	p.L147L	CDRT15_uc010coq.2_RNA	NM_001007530	NP_001007531	Q96T59	CDRTF_HUMAN	CMT1A duplicated region transcript 15	147											0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)		CTTCTTCCCAGCCTTCTTTTA	0.567													4	29					0	0	0.009096	0	0		A	14139301	A	A	14139301	2	1	43	1	0	0	0	0	0	0	0	1	3178	962	34	2		2	CDRT15	17	14139301	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	5438084	14139301	67055909	437	34258											
SSH2	85464	broad.mit.edu	37	chr17	27958581	27958581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctaattaaacttaggtctgCgctacttagctgggagtcct	9	13	10	9	1	1	0	0	0	1	0	2	1	2	1	1	2	4	3	1	2	6	5	rs144293105	by1000genomes	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:27958581C>T	uc002heo.1	-	15	3550	c.3550G>A	c.(3550-3552)GCA>ACA	p.A1184T	SSH2_uc010wbh.1_Missense_Mutation_p.A1211T	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1184					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						CTTAGGTCTGCGCTACTTAGC	0.507													22	144					0	0	0.012319	0	0		T	27958581	T	T	27958581	3	4	43	1	0	0	0	0	1	0	0	0	15210	768	27	1	725	1	SSH2	17	27958581	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	13819280	27958581	53236629	438	34259											
MMP28	79148	broad.mit.edu	37	chr17	34094866	34094866	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctgcagtggacggggcTctgagacgttgccatcagct	6	11	13	11	2	2	1	1	1	1	1	3	3	3	2	2	3	3	4	2	3	0	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:34094866T>A	uc002hjy.1	-	9	1332	c.1073A>T	c.(1072-1074)GAG>GTG	p.E358V	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	358	Hemopexin-like 1.				proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		TGGACGGGGCTCTGAGACGTT	0.522													3	31					0	0	0.009096	0	0		A	34094866	A	A	34094866	3	1	43	1	0	0	0	0	1	0	0	0	9683	1551	54	5	497	5	MMP28	17	34094866	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	6136285	34094866	47100344	439	34260											
CCL23	6368	broad.mit.edu	37	chr17	34340329	34340329	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggttggcacagaaacgtcGccccttcttggtgaggaagc	8	8	15	10	2	1	2	0	1	1	1	2	3	1	3	2	5	2	2	2	5	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:34340329G>A	uc002hkt.1	-	4	342	c.271C>T	c.(271-273)CGA>TGA	p.R91*	CCL23_uc002hks.1_Nonsense_Mutation_p.R108*	NM_145898	NP_665905	P55773	CCL23_HUMAN	small inducible cytokine A23 isoform CKbeta8	91					cell-cell signaling|cellular calcium ion homeostasis|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|inflammatory response|negative regulation of cell proliferation	extracellular space	chemokine activity|heparin binding				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)	Treprostinil(DB00374)	CAGAAACGTCGCCCCTTCTTG	0.532													5	31					0	0	0.000602	0	0		A	34340329	A	A	34340329	4	1	43	1	0	0	0	0	0	1	0	0	2898	1095	38	1	95	1	CCL23	17	34340329	Nonsense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	245463	34340329	46854881	440	34261											
ERBB2	2064	broad.mit.edu	37	chr17	37879658	37879658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggatcctcatcaagcgacGgcagcagaagatccggaagt	12	6	13	10	3	2	2	2	0	0	2	4	5	4	4	2	3	2	2	2	3	3	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:37879658G>A	uc002hso.2	+	17	2271	c.2033G>A	c.(2032-2034)CGG>CAG	p.R678Q	ERBB2_uc002hsm.2_Missense_Mutation_p.R648Q|ERBB2_uc010cwa.2_Missense_Mutation_p.R663Q|ERBB2_uc002hsp.2_Missense_Mutation_p.R481Q|ERBB2_uc010cwb.2_Missense_Mutation_p.R678Q|ERBB2_uc010wek.1_Missense_Mutation_p.R402Q	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	678	Cytoplasmic (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	ATCAAGCGACGGCAGCAGAAG	0.637		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			13	85					0	0	0.00245	0	0		A	37879658	A	A	37879658	3	1	43	1	0	0	0	0	1	0	0	0	5214	1116	39	1	2099	1	ERBB2	17	37879658	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3539329	37879658	43315552	441	34262											
KRT32	3882	broad.mit.edu	37	chr17	39623484	39623484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggcacagctcaggccGgcagttcacgccgctggaac	8	4	13	16	3	2	0	2	0	0	0	2	1	2	1	3	4	2	5	3	4	1	1	rs149170177	by1000genomes	TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:39623484G>A	uc002hwr.2	-	1	155	c.94C>T	c.(94-96)CGG>TGG	p.R32W		NM_002278	NP_002269	Q14532	K1H2_HUMAN	keratin 32	32	Head.				epidermis development	intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000812)				AGCTCAGGCCGGCAGTTCACG	0.632													9	63					0	0	0.004482	0	0		A	39623484	A	A	39623484	3	1	43	1	0	0	0	0	1	0	0	0	8484	1115	39	1	1280	1	KRT32	17	39623484	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1743826	39623484	41571726	442	34263											
SOST	50964	broad.mit.edu	37	chr17	41832889	41832889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcgcaccttgcgcgcgcGcggcgcctcaccaccgggac	5	3	14	19	8	1	0	1	0	0	0	1	1	1	1	4	3	1	1	4	3	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:41832889G>A	uc002iec.1	-	2	510	c.463C>T	c.(463-465)CGC>TGC	p.R155C		NM_025237	NP_079513	Q9BQB4	SOST_HUMAN	sclerostin precursor	155	CTCK.				negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of ossification|negative regulation of protein complex assembly|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway		heparin binding|protein binding				0		Breast(137;0.00725)		UCEC - Uterine corpus endometrioid carcinoma (308;0.177)|BRCA - Breast invasive adenocarcinoma(366;0.0741)		TTGCGCGCGCGCGGCGCCTCA	0.711													4	33					0	0	0.009096	0	0		A	41832889	A	A	41832889	3	1	43	1	0	0	0	0	1	0	0	0	14963	1087	38	1	182	1	SOST	17	41832889	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2209405	41832889	39362321	443	34264											
HOXB9	3219	broad.mit.edu	37	chr17	46703515	46703515	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggtgctccgcgtggccCggctgccgcgagctcgcgta	3	7	15	16	7	0	0	0	0	0	0	3	1	2	0	4	3	3	4	4	3	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:46703515C>T	uc002inx.2	-	1	321	c.117G>A	c.(115-117)CCG>CCA	p.P39P		NM_024017	NP_076922	P17482	HXB9_HUMAN	homeobox B9	39					canonical Wnt receptor signaling pathway|cell chemotaxis	mitochondrion|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CCGCGTGGCCCGGCTGCCGCG	0.662													5	29					0	0	0.000602	0	0		T	46703515	T	T	46703515	2	4	43	1	0	0	0	0	0	0	0	1	7324	639	23	1		1	HOXB9	17	46703515	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4870626	46703515	34491695	444	34265											
MYCBPAP	84073	broad.mit.edu	37	chr17	48603504	48603504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggaccaagagtcctcagcGgaagagcatcatggaggaga	13	4	16	8	1	2	3	2	0	0	3	3	7	3	6	2	5	2	1	2	5	2	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:48603504G>A	uc010wmr.1	+	14	2336	c.2174G>A	c.(2173-2175)CGG>CAG	p.R725Q	MYCBPAP_uc002iqz.2_RNA	NM_032133	NP_115509	Q8TBZ2	MYBPP_HUMAN	Myc-binding protein-associated protein	688					cell differentiation|multicellular organismal development|spermatogenesis|synaptic transmission	cytoplasm|membrane	protein binding			urinary_tract(2)|skin(2)|ovary(1)|pancreas(1)	6	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;1.23e-09)			AGTCCTCAGCGGAAGAGCATC	0.627													17	116					0	0	0.007413	0	0		A	48603504	A	A	48603504	3	1	43	1	0	0	0	0	1	0	0	0	10037	1116	39	1	2228	1	MYCBPAP	17	48603504	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1899989	48603504	32591706	445	34266											
FTSJ3	117246	broad.mit.edu	37	chr17	61899365	61899365	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttggtcccttagacccTgatgtcccctgactcctgcc	4	13	8	16	0	0	3	0	2	0	1	3	3	3	3	6	1	1	1	6	1	1	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr17:61899365T>C	uc002jbz.2	-	13	1532	c.1454A>G	c.(1453-1455)CAG>CGG	p.Q485R	FTSJ3_uc002jca.2_Missense_Mutation_p.Q485R	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	485					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						CCTTAGACCCTGATGTCCCCT	0.537													4	178					0	0	0.009096	0	0		C	61899365	C	C	61899365	3	2	43	1	0	0	0	0	1	0	0	0	6103	1580	55	3	1121	3	FTSJ3	17	61899365	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	13295861	61899365	19295845	446	34267											
APCDD1	147495	broad.mit.edu	37	chr18	10487790	10487790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacaggatgcccgggggCgctatctgctgttcaacggt	7	9	15	10	3	2	0	1	0	1	0	2	2	2	2	1	5	4	3	1	5	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr18:10487790C>T	uc002kom.3	+	5	1654	c.1300C>T	c.(1300-1302)CGC>TGC	p.R434C		NM_153000	NP_694545	Q8J025	APCD1_HUMAN	adenomatosis polyposis coli down-regulated 1	434	Extracellular (Potential).				hair follicle development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to plasma membrane	Wnt-protein binding				0				READ - Rectum adenocarcinoma(15;0.08)		TGCCCGGGGGCGCTATCTGCT	0.602													5	129					0	0	0.001168	0	0		T	10487790	T	T	10487790	3	4	43	1	0	0	0	0	1	0	0	0	765	768	27	1	1318	1	APCDD1	18	10487790	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08		10487790	67589458	447	34268											
CEP192	55125	broad.mit.edu	37	chr18	13069103	13069103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccagacgatgcatttcttgGccaaagtggcttcctcaaga	10	11	9	11	1	2	2	1	0	1	2	4	3	4	2	3	2	1	2	3	2	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr18:13069103G>A	uc010xac.1	+	26	5058	c.4978G>A	c.(4978-4980)GCC>ACC	p.A1660T	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.A1185T|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Missense_Mutation_p.A82T|CEP192_uc002krw.2_5'Flank	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1660										ovary(4)|pancreas(1)	5						GCATTTCTTGGCCAAAGTGGC	0.438													17	194					0	0	0.007413	0	0		A	13069103	A	A	13069103	3	1	43	1	0	0	0	0	1	0	0	0	3254	1203	42	2	5076	2	CEP192	18	13069103	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	2581313	13069103	65008145	448	34269											
C18orf19	125228	broad.mit.edu	37	chr18	13671878	13671878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccttaaacaaggcatatgCtgtgagggcatttccactct	11	11	8	11	0	1	1	0	1	1	0	2	1	2	1	2	2	2	3	2	2	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr18:13671878C>T	uc010dlh.2	-	4	1000	c.568G>A	c.(568-570)GCA>ACA	p.A190T	C18orf19_uc010dlg.2_Intron|C18orf19_uc010dli.2_Missense_Mutation_p.A190T|C18orf19_uc002ksj.3_Missense_Mutation_p.A190T|C18orf19_uc010dlj.2_Intron	NM_001098801	NP_001092271	Q96ND0	CR019_HUMAN	hypothetical protein LOC125228	190	DUF1279.					integral to membrane				breast(2)	2						AAGGCATATGCTGTGAGGGCA	0.458													12	108					0	0	0.013537	0	0		T	13671878	T	T	13671878	3	4	43	1	0	0	0	0	1	0	0	0	1899	797	28	2	258	2	C18orf19	18	13671878	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	602775	13671878	64405370	449	34270											
KCTD1	284252	broad.mit.edu	37	chr18	24035755	24035755	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacggagggtacacggggCgtccgcctcagttcccgccg	6	6	15	14	6	1	1	1	1	0	0	3	2	3	2	4	4	1	2	4	4	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr18:24035755C>T	uc002kvw.2	-	5	1286	c.726G>A	c.(724-726)ACG>ACA	p.T242T	KCTD1_uc010xbj.1_Silent_p.T850T|KCTD1_uc010xbk.1_Silent_p.T242T|KCTD1_uc002kvy.2_3'UTR	NM_001136205	NP_001129677	Q719H9	KCTD1_HUMAN	potassium channel tetramerisation domain	242					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)			GTACACGGGGCGTCCGCCTCA	0.507													10	121					0	0	0.006214	0	0		T	24035755	T	T	24035755	2	4	43	1	0	0	0	0	0	0	0	1	8112	755	27	1		1	KCTD1	18	24035755	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	10363877	24035755	54041493	450	34271											
CDH2	1000	broad.mit.edu	37	chr18	25572682	25572682	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatggcgaaccgtccagtAggatctccgccactgattct	8	10	11	12	3	2	1	0	1	2	0	4	4	3	3	4	3	1	1	4	3	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr18:25572682A>G	uc002kwg.2	-	9	1740	c.1281T>C	c.(1279-1281)CCT>CCC	p.P427P	CDH2_uc010xbn.1_Silent_p.P396P	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	427	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						ACCGTCCAGTAGGATCTCCGC	0.522													14	107					0	0	0.006122	0	0		G	25572682	G	G	25572682	2	3	43	1	0	0	0	0	0	0	0	1	3108	407	15	3		3	CDH2	18	25572682	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	1536927	25572682	52504566	451	34272											
C18orf34	374864	broad.mit.edu	37	chr18	30554568	30554568	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctgtctggaagttggccagCctcatctggctgaagaggac	8	10	13	10	0	4	2	1	1	3	1	4	4	4	4	2	4	1	2	2	4	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr18:30554568C>T	uc002kxn.2	-	21	2608	c.2466G>A	c.(2464-2466)AGG>AGA	p.R822R	C18orf34_uc010xbq.1_RNA|C18orf34_uc010dme.1_Silent_p.R286R|C18orf34_uc010xbr.1_Silent_p.R846R|C18orf34_uc010dmf.1_Silent_p.R142R|C18orf34_uc002kxo.2_Silent_p.R784R|C18orf34_uc002kxp.2_Silent_p.R822R	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	822										ovary(1)	1						AGTTGGCCAGCCTCATCTGGC	0.498													20	76					0	0	0.010504	0	0		T	30554568	T	T	30554568	2	4	43	1	0	0	0	0	0	0	0	1	1905	738	26	2		2	C18orf34	18	30554568	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4981886	30554568	47522680	452	34273											
SLC14A2	8170	broad.mit.edu	37	chr18	43262295	43262295	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccagtttggattgccGccctgcacttggcccttctg	3	14	9	15	1	2	0	0	0	2	0	4	1	3	1	4	2	2	2	4	2	0	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr18:43262295G>A	uc010dnj.2	+	21	2895	c.2574G>A	c.(2572-2574)CCG>CCA	p.P858P	SLC14A2_uc002lbe.2_Silent_p.P858P	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	858	Helical; (Potential).					apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						TTGGATTGCCGCCCTGCACTT	0.532													28	406					0	0	0.010818	0	0		A	43262295	A	A	43262295	2	1	43	1	0	0	0	0	0	0	0	1	14422	1074	38	1		1	SLC14A2	18	43262295	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	12707727	43262295	34814953	453	34274											
DOK6	220164	broad.mit.edu	37	chr18	67425047	67425047	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaatcaatatctcttcctcGcagcgcgtactggcatcaca	11	10	6	14	3	3	0	2	0	1	0	6	0	4	0	1	1	2	3	1	1	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr18:67425047G>A	uc002lkl.2	+	7	984	c.794G>A	c.(793-795)CGC>CAC	p.R265H		NM_152721	NP_689934	Q6PKX4	DOK6_HUMAN	docking protein 6	265	DKFBH motif.						insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)				TCTCTTCCTCGCAGCGCGTAC	0.398													11	105					0	0	0.008291	0	0		A	67425047	A	A	67425047	3	1	43	1	0	0	0	0	1	0	0	0	4707	1087	38	1	820	1	DOK6	18	67425047	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	24162752	67425047	10652201	454	34275											
GALR1	2587	broad.mit.edu	37	chr18	74963015	74963015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgccatggcctcgcccgtgGcctaccaccagggcctcttc	4	9	10	18	2	1	0	0	0	1	0	3	0	1	0	7	3	2	0	7	3	1	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr18:74963015G>A	uc002lms.3	+	1	1008	c.511G>A	c.(511-513)GCC>ACC	p.A171T		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	171	Helical; Name=4; (Potential).				digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		CTCGCCCGTGGCCTACCACCA	0.697													12	59					0	0	0.010729	0	0		A	74963015	A	A	74963015	3	1	43	1	0	0	0	0	1	0	0	0	6242	1203	42	2	513	2	GALR1	18	74963015	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	7537968	74963015	3114233	455	34276											
SALL3	27164	broad.mit.edu	37	chr18	76757125	76757125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatctccgtcatccagaacGgcggcatcccccagctcccc	8	6	8	19	3	2	2	1	0	1	2	6	2	5	2	6	2	2	2	6	2	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr18:76757125G>A	uc002lmt.2	+	3	3706	c.3706G>A	c.(3706-3708)GGC>AGC	p.G1236S	SALL3_uc010dra.2_Missense_Mutation_p.G771S	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1236					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CATCCAGAACGGCGGCATCCC	0.617													22	169					0	0	0.003954	0	0		A	76757125	A	A	76757125	3	1	43	1	0	0	0	0	1	0	0	0	13837	1116	39	1	3716	1	SALL3	18	76757125	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1794110	76757125	1320123	456	34277											
ATP9B	374868	broad.mit.edu	37	chr18	76870408	76870408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagaaagagctgaaagctcGcacagtatggcttggatgtc	14	8	12	7	1	0	3	0	1	0	2	2	4	0	4	0	2	2	5	0	2	4	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr18:76870408G>A	uc002lmx.2	+	3	361	c.347G>A	c.(346-348)CGC>CAC	p.R116H	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Missense_Mutation_p.R116H|ATP9B_uc002lmy.1_RNA|ATP9B_uc002lmz.1_5'Flank|ATP9B_uc002lmu.2_Missense_Mutation_p.R116H	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	116	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		CTGAAAGCTCGCACAGTATGG	0.338													5	59					0	0	0.000602	0	0		A	76870408	A	A	76870408	3	1	43	1	0	0	0	0	1	0	0	0	1200	1087	38	1	357	1	ATP9B	18	76870408	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	113283	76870408	1206840	457	34278											
C19orf28	126321	broad.mit.edu	37	chr19	3546376	3546376	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtccctccgccagcgccacCcaggcggcaaaggccaggat	9	3	12	17	3	0	0	0	0	0	0	2	1	2	1	6	4	1	1	6	4	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:3546376C>A	uc002lxz.2	-	7	1241	c.1071G>T	c.(1069-1071)TGG>TGT	p.W357C	C19orf28_uc002lxw.2_Missense_Mutation_p.W357C|C19orf28_uc002lxx.2_Missense_Mutation_p.W357C|C19orf28_uc002lxy.2_Missense_Mutation_p.W348C	NM_174983	NP_778148	Q6NUT3	CS028_HUMAN	hypothetical protein LOC126321 isoform c	357	Helical; (Potential).				transmembrane transport	integral to membrane				breast(1)|pancreas(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00251)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGCGCCACCCAGGCGGCAA	0.687													8	16					0.000157383	0.000166764	0.00308	1	0		A	3546376	A	A	3546376	3	1	43	1	0	0	0	0	1	0	0	0	1920	624	22	5	594	5	C19orf28	19	3546376	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08		3546376	55582607	458	34279											
PLIN4	729359	broad.mit.edu	37	chr19	4504766	4504766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgccggagaaggccgCagaccctggacagaaccccg	10	2	14	15	3	0	3	0	0	0	3	0	5	0	4	5	3	3	3	5	3	2	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:4504766C>T	uc002mar.1	-	6	3779	c.3779G>A	c.(3778-3780)TGC>TAC	p.C1260Y	PLIN4_uc010dub.1_Missense_Mutation_p.C284Y	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	1260						lipid particle|plasma membrane					0						GAGAAGGCCGCAGACCCTGGA	0.721													4	18					0	0	0.009096	0	0		T	4504766	T	T	4504766	3	4	43	1	0	0	0	0	1	0	0	0	12111	710	25	2	298	2	PLIN4	19	4504766	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	958390	4504766	54624217	459	34280											
PTPRS	5802	broad.mit.edu	37	chr19	5240270	5240270	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgatactctcctgccgCggggggctccaggacagcgt	6	9	14	12	3	1	2	0	2	1	0	3	3	2	3	3	4	3	1	3	4	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:5240270C>T	uc002mbv.2	-	12	1878	c.1644G>A	c.(1642-1644)CCG>CCA	p.P548P	PTPRS_uc002mbu.1_Silent_p.P535P|PTPRS_uc010xin.1_Silent_p.P535P|PTPRS_uc002mbw.2_Silent_p.P535P|PTPRS_uc002mbx.2_Silent_p.P539P|PTPRS_uc002mby.2_Silent_p.P535P	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	548	Extracellular (Potential).|Fibronectin type-III 3.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		TCTCCTGCCGCGGGGGGCTCC	0.697													4	19					0	0	0.009096	0	0		T	5240270	T	T	5240270	2	4	43	1	0	0	0	0	0	0	0	1	12836	755	27	1		1	PTPRS	19	5240270	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	735504	5240270	53888713	460	34281											
SH2D3A	10045	broad.mit.edu	37	chr19	6760769	6760769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggcctgggacagtgggCgcctgcctgtcatataactg	6	10	14	11	1	1	0	1	0	0	0	1	1	1	1	3	3	2	0	3	3	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:6760769C>T	uc002mft.2	-	3	493	c.299G>A	c.(298-300)CGC>CAC	p.R100H	SH2D3A_uc010xjg.1_Intron	NM_005490	NP_005481	Q9BRG2	SH23A_HUMAN	SH2 domain containing 3A	100	SH2.				JNK cascade|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			breast(2)	2						GGACAGTGGGCGCCTGCCTGT	0.632													4	84					0	0	0.001984	0	0		T	6760769	T	T	6760769	3	4	43	1	0	0	0	0	1	0	0	0	14258	768	27	1	1463	1	SH2D3A	19	6760769	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1520499	6760769	52368214	461	34282											
EMR1	2015	broad.mit.edu	37	chr19	6924840	6924840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgtgtgtctcctcttggCgaagactctcttcctcgccg	3	13	10	15	4	3	1	0	0	3	1	7	2	4	1	3	1	1	0	3	1	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:6924840C>T	uc002mfw.2	+	15	1981	c.1943C>T	c.(1942-1944)GCG>GTG	p.A648V	EMR1_uc010dvc.2_Intron|EMR1_uc010dvb.2_Missense_Mutation_p.A596V|EMR1_uc010xji.1_Missense_Mutation_p.A507V|EMR1_uc010xjj.1_Missense_Mutation_p.A471V	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	648	Helical; Name=2; (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					CTCCTCTTGGCGAAGACTCTC	0.493													19	85					0	0	0.012319	0	0		T	6924840	T	T	6924840	3	4	43	1	0	0	0	0	1	0	0	0	5112	768	27	1	2001	1	EMR1	19	6924840	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	164071	6924840	52204143	462	34283											
PNPLA6	10908	broad.mit.edu	37	chr19	7607530	7607530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcaggaagaggcctccGgggggtccctggcagccccc	5	4	15	17	1	0	1	0	0	0	1	2	2	2	2	6	6	2	2	6	6	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:7607530G>A	uc010xjq.1	+	13	1558	c.1363G>A	c.(1363-1365)GGG>AGG	p.G455R	PNPLA6_uc002mgq.1_Missense_Mutation_p.G407R|PNPLA6_uc010xjp.1_Missense_Mutation_p.G407R|PNPLA6_uc002mgr.1_Missense_Mutation_p.G407R|PNPLA6_uc002mgs.2_Missense_Mutation_p.G446R	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	446	Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						AGAGGCCTCCGGGGGGTCCCT	0.706													7	41					0	0	0.004482	0	0		A	7607530	A	A	7607530	3	1	43	1	0	0	0	0	1	0	0	0	12188	1116	39	1	1409	1	PNPLA6	19	7607530	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	682690	7607530	51521453	463	34284											
MUC16	94025	broad.mit.edu	37	chr19	9085173	9085173	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgggatgcttgtttctgtAttagtagttggatgggaccc	7	15	13	6	0	1	0	0	0	1	0	1	3	1	3	1	3	1	5	1	3	3	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:9085173A>G	uc002mkp.2	-	1	6846	c.6642T>C	c.(6640-6642)AAT>AAC	p.N2214N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2214	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTGTTTCTGTATTAGTAGTTG	0.473													15	60					0	0	0.003163	0	0		G	9085173	G	G	9085173	2	3	43	1	0	0	0	0	0	0	0	1	9991	446	16	3		3	MUC16	19	9085173	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	1477643	9085173	50043810	464	34285											
MUC16	94025	broad.mit.edu	37	chr19	9090794	9090794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattgtgcttctgaccctttCggcacttgtttctgcattgc	5	17	8	11	1	2	1	0	1	2	0	3	1	2	1	1	1	3	4	1	1	1	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:9090794C>T	uc002mkp.2	-	1	1225	c.1021G>A	c.(1021-1023)GAA>AAA	p.E341K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	341	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGACCCTTTCGGCACTTGTT	0.522													18	70					0	0	0.00499	0	0		T	9090794	T	T	9090794	3	4	43	1	0	0	0	0	1	0	0	0	9991	893	31	1	42838	1	MUC16	19	9090794	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	5621	9090794	50038189	465	34286											
LPPR2	64748	broad.mit.edu	37	chr19	11468409	11468409	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcatcccctgctttgtcttCgtggaggtgaggacccccgt	5	12	11	13	2	2	1	1	1	1	0	4	3	3	3	4	3	1	1	4	3	0	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:11468409C>T	uc002mre.1	+	3	397	c.60C>T	c.(58-60)TTC>TTT	p.F20F	LPPR2_uc002mrf.1_Silent_p.F20F|LPPR2_uc010dxy.1_5'Flank	NM_022737	NP_073574	Q96GM1	LPPR2_HUMAN	lipid phosphate phosphatase-related protein type	20	Helical; (Potential).					integral to membrane	phosphatidate phosphatase activity			large_intestine(1)	1						GCTTTGTCTTCGTGGAGGTGA	0.582													11	37					0	0	0.010729	0	0		T	11468409	T	T	11468409	2	4	43	1	0	0	0	0	0	0	0	1	8943	883	31	1		1	LPPR2	19	11468409	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2377615	11468409	47660574	466	34287											
BRD4	23476	broad.mit.edu	37	chr19	15383896	15383896	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaatctcgtcccagggccGctctccgcagacatgctagt	7	9	9	16	3	3	1	1	0	2	1	6	1	4	1	3	1	1	3	3	1	2	1	rs147477529		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:15383896G>A	uc002nar.2	-	2	237	c.15C>T	c.(13-15)AGC>AGT	p.S5S	BRD4_uc002nas.2_Silent_p.S5S|BRD4_uc002nat.3_Silent_p.S5S|BRD4_uc002nau.3_Silent_p.S5S	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	5					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			TCCCAGGGCCGCTCTCCGCAG	0.547			T	NUT|C15orf55	lethal midline carcinoma of young people								4	145					0	0	0.000602	0	0		A	15383896	A	A	15383896	2	1	43	1	0	0	0	0	0	0	0	1	1507	1078	38	1		1	BRD4	19	15383896	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	3915487	15383896	43745087	467	34288											
CIB3	117286	broad.mit.edu	37	chr19	16284237	16284237	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcctgcccccctctaccTgatacgcttccagctgctcg	5	10	6	20	2	1	1	0	1	1	0	4	1	3	1	7	0	5	3	7	0	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:16284237T>C	uc002nds.2	-	1	50	c.50A>G	c.(49-51)CAG>CGG	p.Q17R	CIB3_uc010eae.2_5'UTR|CIB3_uc010eaf.2_RNA|CIB3_uc010eag.2_Missense_Mutation_p.Q17R	NM_054113	NP_473454	Q96Q77	CIB3_HUMAN	DNA-dependent protein kinase catalytic	17							calcium ion binding			ovary(1)	1						CCCCTCTACCTGATACGCTTC	0.567													14	137					0	0	0.003163	0	0		C	16284237	C	C	16284237	3	2	43	1	0	0	0	0	1	0	0	0	3425	1594	55	3	537	3	CIB3	19	16284237	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	900341	16284237	42844746	468	34289											
PIK3R2	5296	broad.mit.edu	37	chr19	18273240	18273240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggtgaacgagaaactcCgggacactcccgatggcacc	12	4	13	12	3	0	2	0	1	0	1	2	6	2	4	3	4	2	1	3	4	2	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:18273240C>T	uc002nia.1	+	9	1545	c.1033C>T	c.(1033-1035)CGG>TGG	p.R345W	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	345	SH2 1.				fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						CGAGAAACTCCGGGACACTCC	0.612													5	45					0	0	0.000602	0	0		T	18273240	T	T	18273240	3	4	43	1	0	0	0	0	1	0	0	0	11938	643	23	1	1063	1	PIK3R2	19	18273240	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1989003	18273240	40855743	469	34290											
NCAN	1463	broad.mit.edu	37	chr19	19337381	19337381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcagcagaggggcccccaGttagagaactggagcccacc	10	5	13	13	0	1	2	1	0	0	2	1	4	1	3	4	3	3	2	4	3	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:19337381G>A	uc002nlz.2	+	7	1258	c.1159G>A	c.(1159-1161)GTT>ATT	p.V387I	NCAN_uc010ecc.1_5'UTR	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	387					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GGGGCCCCCAGTTAGAGAACT	0.582													9	60					0	0	0.004482	0	0		A	19337381	A	A	19337381	3	1	43	1	0	0	0	0	1	0	0	0	10223	1029	36	4	1181	4	NCAN	19	19337381	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1064141	19337381	39791602	470	34291											
CILP2	148113	broad.mit.edu	37	chr19	19656302	19656302	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgtgcgagaccccgagcGtccgggcacctcggcagcct	6	5	15	15	5	0	1	0	0	0	1	2	4	1	1	5	2	3	2	5	2	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:19656302G>A	uc002nmv.3	+	8	3033	c.2948G>A	c.(2947-2949)CGT>CAT	p.R983H	CILP2_uc002nmw.3_Missense_Mutation_p.R989H	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	983						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						GACCCCGAGCGTCCGGGCACC	0.677													3	29					0	0	0.004672	0	0		A	19656302	A	A	19656302	3	1	43	1	0	0	0	0	1	0	0	0	3433	1145	40	1	2978	1	CILP2	19	19656302	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	318921	19656302	39472681	471	34292											
GMIP	51291	broad.mit.edu	37	chr19	19746260	19746260	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgctgaccatgaaggcttcGcactcgcggcacttggctgg	6	8	13	14	4	0	2	0	2	0	0	2	2	0	2	2	4	0	5	2	4	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:19746260G>A	uc002nnd.2	-	15	1641	c.1524C>T	c.(1522-1524)TGC>TGT	p.C508C	GMIP_uc010xrb.1_Silent_p.C482C|GMIP_uc010xrc.1_Silent_p.C479C	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	508	Phorbol-ester/DAG-type.				negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						TGAAGGCTTCGCACTCGCGGC	0.622													4	80					0	0	0.000602	0	0		A	19746260	A	A	19746260	2	1	43	1	0	0	0	0	0	0	0	1	6506	1079	38	1		1	GMIP	19	19746260	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	89958	19746260	39382723	472	34293											
ZNF85	7639	broad.mit.edu	37	chr19	21117776	21117776	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattactgtttctaagccagAcctgatcacttgtctggagc	9	14	8	10	0	3	2	1	1	2	1	3	3	3	3	2	1	3	1	2	1	3	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:21117776A>C	uc002npg.3	+	3	279	c.152A>C	c.(151-153)GAC>GCC	p.D51A	ZNF85_uc002npf.2_RNA|ZNF85_uc002nph.1_RNA|ZNF85_uc010ecn.2_Intron|ZNF85_uc010eco.2_5'Flank|ZNF85_uc002npi.2_5'Flank	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	51	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						TCTAAGCCAGACCTGATCACT	0.368													7	37					0	0	0.001984	0	0		C	21117776	C	C	21117776	3	2	43	1	0	0	0	0	1	0	0	0	18218	275	10	5	162	5	ZNF85	19	21117776	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	1371516	21117776	38011207	473	34294											
GAPDHS	26330	broad.mit.edu	37	chr19	36033284	36033284	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtggtggagtccacaggCgtgtacctctccatacaggc	8	9	12	12	2	1	0	0	0	1	0	3	1	2	1	3	4	3	1	3	4	3	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:36033284C>T	uc002oaf.1	+	5	629	c.513C>T	c.(511-513)GGC>GGT	p.G171G	uc010eec.1_Intron|uc002oag.2_Intron	NM_014364	NP_055179	O14556	G3PT_HUMAN	glyceraldehyde-3-phosphate dehydrogenase,	171					gluconeogenesis|glycolysis|positive regulation of glycolysis|sperm motility	cytosol	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity|NAD binding|protein binding				0	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		NADH(DB00157)	AGTCCACAGGCGTGTACCTCT	0.637													4	41					0	0	0.009096	0	0		T	36033284	T	T	36033284	2	4	43	1	0	0	0	0	0	0	0	1	6252	755	27	1		1	GAPDHS	19	36033284	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	14915508	36033284	23095699	474	34295											
ZNF567	163081	broad.mit.edu	37	chr19	37211245	37211245	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtttgtaatgaatgtgggaAgtcctttcgccagaaagcaa	12	12	11	6	1	0	2	0	1	0	1	2	3	1	3	2	1	1	3	2	1	5	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:37211245A>G	uc010xtl.1	+	6	1841	c.1619A>G	c.(1618-1620)AAG>AGG	p.K540R	ZNF567_uc002oeo.1_Missense_Mutation_p.K540R|ZNF567_uc010xtk.1_Missense_Mutation_p.K540R|ZNF567_uc002oep.3_Missense_Mutation_p.K509R|ZNF567_uc002oeq.1_Missense_Mutation_p.K509R	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	540	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GAATGTGGGAAGTCCTTTCGC	0.408													4	64					0	0	0.000602	0	0		G	37211245	G	G	37211245	3	3	43	1	0	0	0	0	1	0	0	0	18023	72	3	3	1536	3	ZNF567	19	37211245	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	1177961	37211245	21917738	475	34296											
LGALS14	56891	broad.mit.edu	37	chr19	40197860	40197860	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttctacactgggatggaTgaggactcagatattgcttt	11	14	10	6	0	2	2	1	1	1	1	2	5	2	5	0	3	2	1	0	3	3	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:40197860T>C	uc002omg.2	+	3	358	c.135T>C	c.(133-135)GAT>GAC	p.D45D	LGALS14_uc002omf.2_Silent_p.D74D	NM_020129	NP_064514	Q8TCE9	PPL13_HUMAN	lectin, galactoside-binding, soluble, 14 isoform	45	Galectin.					nucleus	sugar binding			ovary(1)|skin(1)	2	all_cancers(60;4.39e-06)|all_lung(34;6.76e-08)|Lung NSC(34;7.98e-08)|Ovarian(47;0.06)	Myeloproliferative disorder(2;0.0741)	Epithelial(26;1.08e-24)|OV - Ovarian serous cystadenocarcinoma(5;1.92e-24)|all cancers(26;4.12e-22)			CTGGGATGGATGAGGACTCAG	0.488													15	87					0	0	0.003163	0	0		C	40197860	C	C	40197860	2	2	43	1	0	0	0	0	0	0	0	1	8757	1461	51	3		3	LGALS14	19	40197860	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	2986615	40197860	18931123	476	34297											
FCGBP	8857	broad.mit.edu	37	chr19	40434210	40434210	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgaagcctcctgggtcAatcctggttgagaaaataca	12	9	9	11	0	1	2	1	2	0	1	3	3	3	2	4	2	2	1	4	2	5	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:40434210A>G	uc002omp.3	-	2	67	c.59T>C	c.(58-60)TTG>TCG	p.L20S		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	20						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CTCCTGGGTCAATCCTGGTTG	0.507													13	60					0	0	0.001855	0	0		G	40434210	G	G	40434210	3	3	43	1	0	0	0	0	1	0	0	0	5792	131	5	3	16298	3	FCGBP	19	40434210	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	236350	40434210	18694773	477	34298											
DMRTC2	63946	broad.mit.edu	37	chr19	42352907	42352907	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatcccccggaagcctcGcccttgtcctggactccggt	5	8	10	18	3	0	0	0	0	0	0	4	2	3	2	7	3	2	0	7	3	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:42352907G>A	uc002ors.2	+	5	575	c.492G>A	c.(490-492)TCG>TCA	p.S164S	DMRTC2_uc002orr.1_Silent_p.S41S|DMRTC2_uc010xwe.1_Silent_p.S164S	NM_001040283	NP_001035373	Q8IXT2	DMRTD_HUMAN	DMRT-like family C2	164	Pro-rich.				cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0						CGGAAGCCTCGCCCTTGTCCT	0.647													5	173					0	0	0.000602	0	0		A	42352907	A	A	42352907	2	1	43	1	0	0	0	0	0	0	0	1	4597	1074	38	1		1	DMRTC2	19	42352907	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1918697	42352907	16776076	478	34299											
CIC	23152	broad.mit.edu	37	chr19	42791717	42791717	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggagaaggaccacatccgGcggcccatgaatgccttcat	10	6	12	13	3	1	2	1	1	0	1	2	4	2	3	4	4	1	0	4	4	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:42791717G>A	uc002otf.1	+	5	643	c.603G>A	c.(601-603)CGG>CGA	p.R201R		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	201	HMG box.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				ACCACATCCGGCGGCCCATGA	0.622			T	DUX4	soft tissue sarcoma								16	85					0	0	0.003163	0	0		A	42791717	A	A	42791717	2	1	43	1	0	0	0	0	0	0	0	1	3427	1190	42	2		2	CIC	19	42791717	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	438810	42791717	16337266	479	34300											
BCAM	4059	broad.mit.edu	37	chr19	45317997	45317997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgtgcagctctccaagaCgctggagctgcgcgtggcct	6	8	14	13	4	1	2	0	1	1	1	2	3	1	3	2	2	4	4	2	2	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:45317997C>T	uc002ozu.2	+	8	1102	c.1058C>T	c.(1057-1059)ACG>ATG	p.T353M	BCAM_uc002ozt.1_Missense_Mutation_p.T353M	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	353	Extracellular (Potential).|Ig-like C2-type 1.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				CTCTCCAAGACGCTGGAGCTG	0.672													11	68					0	0	0.008291	0	0		T	45317997	T	T	45317997	3	4	43	1	0	0	0	0	1	0	0	0	1345	536	19	1	1088	1	BCAM	19	45317997	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2526280	45317997	13810986	480	34301											
GEMIN7	79760	broad.mit.edu	37	chr19	45593386	45593386	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagacaatgcaaactccagTgaacattcccgtgcctgtgc	12	8	8	13	1	0	2	0	1	0	1	2	2	2	2	3	0	5	1	3	0	4	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:45593386T>C	uc002pap.1	+	3	165	c.14T>C	c.(13-15)GTG>GCG	p.V5A	uc002pas.2_5'Flank|GEMIN7_uc002paq.1_Missense_Mutation_p.V5A|GEMIN7_uc002par.1_Missense_Mutation_p.V5A	NM_001007270	NP_001007271	Q9H840	GEMI7_HUMAN	gemin 7	5					ncRNA metabolic process|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0131)		CAAACTCCAGTGAACATTCCC	0.572													37	185					0	0	0.00623	0	0		C	45593386	C	C	45593386	3	2	43	1	0	0	0	0	1	0	0	0	6348	1696	59	3	16	3	GEMIN7	19	45593386	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	275389	45593386	13535597	481	34302											
CGB7	94027	broad.mit.edu	37	chr19	49558135	49558135	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcacagatggtggtgttgAcggtgatgcacacggggcag	8	7	18	8	3	0	3	0	2	0	1	0	3	0	3	0	6	1	4	0	6	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:49558135A>G	uc002pmd.2	-	2	511	c.146T>C	c.(145-147)GTC>GCC	p.V49A	CGB_uc010yad.1_Intron|CGB8_uc002pmc.2_Intron|CGB7_uc002pme.2_Missense_Mutation_p.V49A	NM_033142	NP_149133	P01233	CGHB_HUMAN	chorionic gonadotropin, beta polypeptide 7	49					apoptosis|cell-cell signaling|cellular nitrogen compound metabolic process|female gamete generation|hormone biosynthetic process|peptide hormone processing|signal transduction	extracellular region|soluble fraction	hormone activity				0		all_epithelial(76;9.62e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)	Choriogonadotropin alfa(DB00097)	GGTGGTGTTGACGGTGATGCA	0.692													7	57					0	0	0.004482	0	0		G	49558135	G	G	49558135	3	3	43	1	0	0	0	0	1	0	0	0	3303	275	10	3	359	3	CGB7	19	49558135	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	3964749	49558135	9570848	482	34303											
TRPM4	54795	broad.mit.edu	37	chr19	49713591	49713591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcgtcatctcccacttgcGcctcctgctcaggcaattgt	6	13	7	15	2	3	0	2	0	1	0	6	0	4	0	3	1	2	2	3	1	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:49713591G>A	uc002pmw.2	+	21	3329	c.3257G>A	c.(3256-3258)CGC>CAC	p.R1086H	TRPM4_uc010emu.2_Missense_Mutation_p.R941H|TRPM4_uc010yak.1_Missense_Mutation_p.R550H|TRPM4_uc002pmx.2_Missense_Mutation_p.R912H|TRPM4_uc010emv.2_Missense_Mutation_p.R971H|TRPM4_uc010yal.1_Missense_Mutation_p.R732H|TRPM4_uc002pmy.2_Missense_Mutation_p.R428H	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	1086	Cytoplasmic (Potential).|Calmodulin-binding.				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		TCCCACTTGCGCCTCCTGCTC	0.622													12	92					0	0	0.001855	0	0		A	49713591	A	A	49713591	3	1	43	1	0	0	0	0	1	0	0	0	16614	1087	38	1	3339	1	TRPM4	19	49713591	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	155456	49713591	9415392	483	34304											
PRMT1	3276	broad.mit.edu	37	chr19	50185189	50185189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgctgaaggacgaggtgcGcaccctcacttaccgcaact	10	7	11	13	3	1	1	1	1	0	0	1	4	1	2	2	2	4	3	2	2	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:50185189G>A	uc010enf.1	+	4	257	c.215G>A	c.(214-216)CGC>CAC	p.R72H	PRMT1_uc002ppc.1_RNA|PRMT1_uc002ppd.2_Missense_Mutation_p.R48H|PRMT1_uc002ppe.2_Missense_Mutation_p.R54H|PRMT1_uc002ppf.2_RNA|PRMT1_uc002ppg.2_Missense_Mutation_p.R19H|PRMT1_uc010yba.1_RNA	NM_001536	NP_001527	Q8WUW5	Q8WUW5_HUMAN	HMT1 hnRNP methyltransferase-like 2 isoform 1	53						cytoplasm	protein methyltransferase activity			ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00103)|GBM - Glioblastoma multiforme(134;0.012)		GACGAGGTGCGCACCCTCACT	0.597													5	48					0	0	0.000602	0	0		A	50185189	A	A	50185189	3	1	43	1	0	0	0	0	1	0	0	0	12557	1087	38	1	229	1	PRMT1	19	50185189	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	471598	50185189	8943794	484	34305											
TSKS	60385	broad.mit.edu	37	chr19	50266392	50266392	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggcccggctggtcaccCtccggggagcctctgggact	3	8	14	16	2	2	0	1	0	1	0	3	2	3	2	5	6	1	1	5	6	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:50266392C>A	uc002ppm.2	-	1	124	c.113G>T	c.(112-114)AGG>ATG	p.R38M		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	38							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		GCTGGTCACCCTCCGGGGAGC	0.622													20	120					1.2644e-06	1.37622e-06	0.010504	1	0		A	50266392	A	A	50266392	3	1	43	1	0	0	0	0	1	0	0	0	16652	681	24	5	1709	5	TSKS	19	50266392	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	81203	50266392	8862591	485	34306											
PTOV1	53635	broad.mit.edu	37	chr19	50360277	50360277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccccctgtgaggtgcgcGtgctcatgctcctgtactcg	3	12	11	15	3	2	1	1	1	1	0	5	1	3	1	3	1	4	3	3	1	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:50360277G>A	uc002pqf.1	+	6	774	c.604G>A	c.(604-606)GTG>ATG	p.V202M	PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Missense_Mutation_p.V170M|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	202	Interaction with FLOT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		TGAGGTGCGCGTGCTCATGCT	0.657													37	181					0	0	0.004289	0	0		A	50360277	A	A	50360277	3	1	43	1	0	0	0	0	1	0	0	0	12792	1145	40	1	626	1	PTOV1	19	50360277	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	93885	50360277	8768706	486	34307											
NR1H2	7376	broad.mit.edu	37	chr19	50882274	50882274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagccctggcccctgggcGcagacccccagtcccgagat	6	4	11	20	2	0	2	0	0	0	2	1	3	1	2	7	2	1	1	7	2	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:50882274G>A	uc010enw.2	+	8	1042	c.766G>A	c.(766-768)GCA>ACA	p.A256T	NR1H2_uc002prv.3_Intron|NR1H2_uc002prz.3_Intron|NR1H2_uc002psa.3_Missense_Mutation_p.A158T	NM_007121	NP_009052	P55055	NR1H2_HUMAN	nuclear receptor subfamily 1, group H, member 2	255	Ligand-binding (Potential).				negative regulation of cholesterol storage|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of pinocytosis|negative regulation of transcription, DNA-dependent|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		GCCCCTGGGCGCAGACCCCCA	0.632													19	125					0	0	0.00278	0	0		A	50882274	A	A	50882274	3	1	43	1	0	0	0	0	1	0	0	0	10636	1087	38	1	781	1	NR1H2	19	50882274	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	521997	50882274	8246709	487	34308											
POLD1	5424	broad.mit.edu	37	chr19	50905604	50905604	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgcccagcttcgcgccctaCgaggccaacgtcgactttga	8	7	10	16	6	0	1	0	1	0	0	2	3	0	1	3	1	3	1	3	1	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:50905604C>T	uc002psb.3	+	6	788	c.732C>T	c.(730-732)TAC>TAT	p.Y244Y	POLD1_uc002psc.3_Silent_p.Y244Y|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Silent_p.Y244Y	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	244					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		TCGCGCCCTACGAGGCCAACG	0.711								DNA_polymerases_(catalytic_subunits)					4	49					0	0	0.009096	0	0		T	50905604	T	T	50905604	2	4	43	1	0	0	0	0	0	0	0	1	12209	547	19	1		1	POLD1	19	50905604	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	23330	50905604	8223379	488	34309											
IGLON5	402665	broad.mit.edu	37	chr19	51826934	51826934	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcttcatcgacgagcaCgtgacccgcgtggcctggct	6	8	13	14	5	1	1	1	1	0	0	2	3	1	1	2	2	3	4	2	2	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:51826934C>T	uc002pwc.2	+	3	177	c.177C>T	c.(175-177)CAC>CAT	p.H59H		NM_001101372	NP_001094842	A6NGN9	IGLO5_HUMAN	IgLON family member 5 precursor	59	Ig-like C2-type 1.					extracellular region					0						TCGACGAGCACGTGACCCGCG	0.652													6	36					0	0	0.001984	0	0		T	51826934	T	T	51826934	2	4	43	1	0	0	0	0	0	0	0	1	7611	535	19	1		1	IGLON5	19	51826934	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	921330	51826934	7302049	489	34310											
ZNF480	147657	broad.mit.edu	37	chr19	52825647	52825647	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatgtggaaaggtctttattCaaaattcgcacctagcacaa	15	11	7	8	1	2	0	1	0	1	0	3	1	2	1	1	2	1	2	1	2	7	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:52825647C>T	uc010ydl.1	+	5	1214	c.1144C>T	c.(1144-1146)CAA>TAA	p.Q382*	ZNF480_uc002pyv.2_Nonsense_Mutation_p.Q305*|ZNF480_uc010ydm.1_Nonsense_Mutation_p.Q339*|ZNF480_uc010epn.2_Nonsense_Mutation_p.Q213*|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	382	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		GGTCTTTATTCAAAATTCGCA	0.363													17	82					0	0	0.006122	0	0		T	52825647	T	T	52825647	4	4	43	1	0	0	0	0	0	1	0	0	17960	827	29	4	1158	4	ZNF480	19	52825647	Nonsense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	998713	52825647	6303336	490	34311											
EPN1	29924	broad.mit.edu	37	chr19	56203248	56203248	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacctcggacccctggggCggcccccctgtccctccagc	3	5	10	23	2	0	0	0	0	0	0	3	1	2	1	9	4	1	0	9	4	0	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:56203248C>T	uc002qlw.2	+	7	1233	c.891C>T	c.(889-891)GGC>GGT	p.G297G	EPN1_uc002qlv.2_Silent_p.G272G|EPN1_uc010etd.2_Silent_p.G297G|EPN1_uc002qlx.2_Silent_p.G383G	NM_001130072	NP_001123544	Q9Y6I3	EPN1_HUMAN	epsin 1 isoform b	297	Ala/Gly/Pro-rich.|8 X 3 AA repeats of [ED]-P-W.				endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|cytoplasm|nucleus|plasma membrane	lipid binding				0		Colorectal(82;0.00244)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.112)		ACCCCTGGGGCGGCCCCCCTG	0.761													5	31					0	0	0.000602	0	0		T	56203248	T	T	56203248	2	4	43	1	0	0	0	0	0	0	0	1	5193	755	27	1		1	EPN1	19	56203248	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	3377601	56203248	2925735	491	34312											
NLRP5	126206	broad.mit.edu	37	chr19	56539649	56539649	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccaccaccccaggagacAccctggacgccttccactgt	9	6	8	18	1	0	1	0	0	0	1	1	3	1	2	7	2	1	0	7	2	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:56539649A>C	uc002qmj.2	+	7	2050	c.2050A>C	c.(2050-2052)ACC>CCC	p.T684P	NLRP5_uc002qmi.2_Missense_Mutation_p.T665P	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	684						mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		CCCAGGAGACACCCTGGACGC	0.547													23	132					0	0	0.007291	0	0		C	56539649	C	C	56539649	3	2	43	1	0	0	0	0	1	0	0	0	10499	159	6	5	2076	5	NLRP5	19	56539649	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	336401	56539649	2589334	492	34313											
ZNF583	147949	broad.mit.edu	37	chr19	56935314	56935314	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgatcaacatcagagggtTcatactggagagaaacccta	14	9	9	9	0	3	3	3	1	0	2	3	5	3	4	1	2	3	1	1	2	4	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:56935314T>G	uc010ygl.1	+	5	1452	c.1287T>G	c.(1285-1287)GTT>GTG	p.V429V	ZNF583_uc002qnc.2_Silent_p.V429V|ZNF583_uc010ygm.1_Silent_p.V429V	NM_001159860	NP_001153332	Q96ND8	ZN583_HUMAN	zinc finger protein 583	429	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0564)		ATCAGAGGGTTCATACTGGAG	0.393													9	57					0	0	0.004482	0	0		G	56935314	G	G	56935314	2	3	43	1	0	0	0	0	0	0	0	1	18040	1770	62	5		5	ZNF583	19	56935314	Silent	SNP	T	TCGA-BR-6802-01A-11D-1882-08	395665	56935314	2193669	493	34314											
ZNF8	7554	broad.mit.edu	37	chr19	58806559	58806559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaagatgagaggactcaccGaagcgacagacccttcaaat	15	6	9	11	2	3	3	3	1	0	3	3	7	3	4	2	1	1	0	2	1	3	1	rs145443903		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr19:58806559G>A	uc002qry.1	+	4	1515	c.1385G>A	c.(1384-1386)CGA>CAA	p.R462Q	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	462					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		AGGACTCACCGAAGCGACAGA	0.527													15	243					0	0	0.003163	0	0		A	58806559	A	A	58806559	3	1	43	1	0	0	0	0	1	0	0	0	18192	1058	37	1	1399	1	ZNF8	19	58806559	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1871245	58806559	322424	494	34315											
GPCPD1	56261	broad.mit.edu	37	chr20	5574004	5574004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaagtaccctttgaagtagCgatactgaactgatactcct	14	11	7	9	1	0	3	0	3	0	0	1	4	1	3	2	0	5	2	2	0	8	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr20:5574004C>T	uc002wme.3	-	4	413	c.200G>A	c.(199-201)CGC>CAC	p.R67H		NM_019593	NP_062539	Q9NPB8	GPCP1_HUMAN	hypothetical protein LOC56261	67	CBM20.				glycerol metabolic process|lipid metabolic process		carbohydrate binding|glycerophosphodiester phosphodiesterase activity				0						TTTGAAGTAGCGATACTGAAC	0.353													31	188					0	0	0.010818	0	0		T	5574004	T	T	5574004	3	4	43	1	0	0	0	0	1	0	0	0	6618	768	27	1	1886	1	GPCPD1	20	5574004	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08		5574004	57451516	495	34316											
KIF16B	55614	broad.mit.edu	37	chr20	16488691	16488691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtccggttgatattgcccGcatccataagttcttctacg	7	14	9	11	3	2	1	0	1	2	0	4	1	4	1	3	2	2	3	3	2	3	7			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr20:16488691G>A	uc002wpg.1	-	7	769	c.611C>T	c.(610-612)GCG>GTG	p.A204V	KIF16B_uc010gch.1_Missense_Mutation_p.A204V|KIF16B_uc010gci.1_Missense_Mutation_p.A204V|KIF16B_uc010gcj.1_Missense_Mutation_p.A204V	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	204	Kinesin-motor.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						GATATTGCCCGCATCCATAAG	0.448													9	275					0	0	0.010729	0	0		A	16488691	A	A	16488691	3	1	43	1	0	0	0	0	1	0	0	0	8294	1087	38	1	3422	1	KIF16B	20	16488691	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	10914687	16488691	46536829	496	34317											
RRBP1	6238	broad.mit.edu	37	chr20	17599388	17599388	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggagaaaaccagtccccGtgagttagcgccgaaacata	16	5	10	10	3	0	2	0	1	0	1	1	4	1	2	4	1	3	1	4	1	6	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr20:17599388G>A	uc010zrp.1	-	1	1075	c.-168C>T	c.(-170--166)CACGG>CATGG		RRBP1_uc002wpt.1_Intron|RRBP1_uc002wpu.2_Intron|RRBP1_uc002wpv.1_Intron|RRBP1_uc002wpw.1_Intron|RRBP1_uc010gcl.1_Intron			Q9P2E9	RRBP1_HUMAN	Homo sapiens mRNA for KIAA1398 protein, partial cds.						protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						ACCAGTCCCCGTGAGTTAGCG	0.527													6	10					0	0	0.001168	0	0		A	17599388	A	A	17599388	1	1	43	1	0	0	0	0	0	0	0	0	13703	1160	40	1		1	RRBP1	20	17599388	Translation_Start_Site	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1110697	17599388	45426132	497	34318											
DLGAP4	22839	broad.mit.edu	37	chr20	35060650	35060650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagggtggcatggaggacgGcaagggccggagggccaaaa	12	2	20	7	2	0	0	0	0	0	0	0	4	0	3	2	8	0	2	2	8	4	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr20:35060650G>A	uc002xff.2	+	3	965	c.530G>A	c.(529-531)GGC>GAC	p.G177D	DLGAP4_uc010zvp.1_Missense_Mutation_p.G177D	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	177					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				ATGGAGGACGGCAAGGGCCGG	0.642													10	42					0	0	0.008291	0	0		A	35060650	A	A	35060650	3	1	43	1	0	0	0	0	1	0	0	0	4568	1203	42	2	532	2	DLGAP4	20	35060650	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	17461262	35060650	27964870	498	34319											
TTPAL	79183	broad.mit.edu	37	chr20	43108886	43108886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgacgatgccttcctgctgCgcttcctccgagcccgcaag	5	9	10	17	5	0	0	0	0	0	0	4	3	3	0	5	0	4	3	5	0	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr20:43108886C>T	uc002xmc.1	+	3	371	c.247C>T	c.(247-249)CGC>TGC	p.R83C	TTPAL_uc002xmd.1_Missense_Mutation_p.R83C|TTPAL_uc010ggr.1_5'UTR	NM_024331	NP_077307	Q9BTX7	TTPAL_HUMAN	tocopherol (alpha) transfer protein-like	83						intracellular	transporter activity			breast(1)	1						CTTCCTGCTGCGCTTCCTCCG	0.567													4	44					0	0	0.009096	0	0		T	43108886	T	T	43108886	3	4	43	1	0	0	0	0	1	0	0	0	16763	768	27	1	249	1	TTPAL	20	43108886	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	8048236	43108886	19916634	499	34320											
ELMO2	63916	broad.mit.edu	37	chr20	45004410	45004410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctcagttttgatggggCggttccctcggatcacatgc	6	12	11	12	2	2	1	2	1	1	0	5	2	3	2	2	4	1	2	2	4	0	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr20:45004410C>T	uc002xrt.1	-	12	1037	c.827G>A	c.(826-828)CGC>CAC	p.R276H	ELMO2_uc010zxq.1_Missense_Mutation_p.R8H|ELMO2_uc002xrs.1_Missense_Mutation_p.R23H|ELMO2_uc002xru.1_Missense_Mutation_p.R276H|ELMO2_uc010zxr.1_Missense_Mutation_p.R288H|ELMO2_uc010zxs.1_Missense_Mutation_p.R93H|ELMO2_uc002xrv.1_5'UTR|ELMO2_uc002xrw.2_Missense_Mutation_p.R93H|ELMO2_uc002xrx.1_Missense_Mutation_p.R276H	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2	276					apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				TTTGATGGGGCGGTTCCCTCG	0.478													13	63					0	0	0.00245	0	0		T	45004410	T	T	45004410	3	4	43	1	0	0	0	0	1	0	0	0	5074	768	27	1	1379	1	ELMO2	20	45004410	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1895524	45004410	18021110	500	34321											
ARFGEF2	10564	broad.mit.edu	37	chr20	47639665	47639665	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaccattgacaacattgtgTtctaccctgcgacgagcaaa	13	9	8	11	2	1	2	0	1	1	1	1	4	1	2	2	0	4	2	2	0	3	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr20:47639665T>C	uc002xtx.3	+	35	4854	c.4702T>C	c.(4702-4704)TTC>CTC	p.F1568L	ARFGEF2_uc010zyf.1_Missense_Mutation_p.F861L	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1568					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			CAACATTGTGTTCTACCCTGC	0.478													4	98					0	0	0.009096	0	0		C	47639665	C	C	47639665	3	2	43	1	0	0	0	0	1	0	0	0	853	1725	60	3	4840	3	ARFGEF2	20	47639665	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	2635255	47639665	15385855	501	34322											
TAF4	6874	broad.mit.edu	37	chr20	60578327	60578327	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacggcgggtttcaccacaGggactacaaaacaaacacac	16	4	8	13	2	1	0	1	0	0	0	1	1	1	1	1	3	3	1	1	3	4	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr20:60578327G>T	uc002ybs.2	-	9	2375	c.2375C>A	c.(2374-2376)CCT>CAT	p.P792H		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	792					interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			TTTCACCACAGGGACTACAAA	0.493													4	110					0.00909568	0.00937397	0.009096	1	0		T	60578327	T	T	60578327	3	4	43	1	0	0	0	0	1	0	0	0	15551	1000	35	5	910	5	TAF4	20	60578327	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	12938662	60578327	2447193	502	34323											
SLC17A9	63910	broad.mit.edu	37	chr20	61598711	61598711	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtgggtgtgtgtctaggCggctacttgatggagaccac	6	11	16	8	2	1	2	0	1	1	1	2	3	1	2	1	4	1	1	1	4	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr20:61598711C>T	uc002yea.3	+	13	1354	c.1170C>T	c.(1168-1170)GGC>GGT	p.G390G	SLC17A9_uc002ydz.3_Silent_p.G384G|SLC17A9_uc011aap.1_3'UTR	NM_022082	NP_071365	Q9BYT1	S17A9_HUMAN	vesicular nucleotide transporter SLC17A9	390					exocytosis|transmembrane transport	integral to membrane	transporter activity			ovary(1)|skin(1)	2						TGTGTCTAGGCGGCTACTTGA	0.637													24	218					0	0	0.00278	0	0		T	61598711	T	T	61598711	2	4	43	1	0	0	0	0	0	0	0	1	14449	755	27	1		1	SLC17A9	20	61598711	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1020384	61598711	1426809	503	34324											
KRTAP21-1	337977	broad.mit.edu	37	chr21	32127620	32127620	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttccatagccacagccaCagccagagccagagccatag	13	4	9	15	0	0	2	0	0	0	2	1	2	1	2	6	0	5	1	6	0	2	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr21:32127620C>G	uc011adi.1	-	1	77	c.77G>C	c.(76-78)TGT>TCT	p.C26S		NM_181619	NP_853650	Q3LI58	KR211_HUMAN	keratin associated protein 21-1	26						intermediate filament				breast(1)	1						gccacagccacagccagagcc	0.109													21	164					0	0	0.010504	0	0		G	32127620	G	G	32127620	3	3	43	1	0	0	0	0	1	0	0	0	8554	478	17	5	164	5	KRTAP21-1	21	32127620	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08		32127620	16002275	504	34325											
C21orf45	54069	broad.mit.edu	37	chr21	33651281	33651281	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcgccgcactcacagccGccagcgcatcctctgctaca	7	8	8	18	4	2	0	1	0	1	0	4	0	3	0	4	0	4	3	4	0	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr21:33651281G>A	uc002ypi.2	-	1	96	c.45C>T	c.(43-45)GGC>GGT	p.G15G	C21orf45_uc011adn.1_Silent_p.G15G	NM_018944	NP_061817	Q9NYP9	MS18A_HUMAN	chromosome 21 open reading frame 45	15					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm					0						ACTCACAGCCGCCAGCGCATC	0.617													12	64					0	0	0.001855	0	0		A	33651281	A	A	33651281	2	1	43	1	0	0	0	0	0	0	0	1	2129	1074	38	1		1	C21orf45	21	33651281	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1523661	33651281	14478614	505	34326											
MRAP	56246	broad.mit.edu	37	chr21	33679016	33679016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgctcttcctcatcttgCtctacatgtcctggtccgcc	3	15	7	16	1	4	0	1	0	3	0	7	0	7	0	4	1	4	3	4	1	1	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr21:33679016C>T	uc002ypj.2	+	4	359	c.172C>T	c.(172-174)CTC>TTC	p.L58F	MRAP_uc002ypk.2_Missense_Mutation_p.L58F|MRAP_uc011ado.1_5'UTR|MRAP_uc002ypl.2_Missense_Mutation_p.L58F|uc002ypm.2_RNA	NM_178817	NP_848932	Q8TCY5	MRAP_HUMAN	melanocortin 2 receptor accessory protein	58	Helical; (Potential).				positive regulation of cAMP biosynthetic process|protein localization at cell surface	endoplasmic reticulum|integral to membrane|perinuclear region of cytoplasm|plasma membrane	corticotropin hormone receptor binding|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding|type 5 melanocortin receptor binding				0						CCTCATCTTGCTCTACATGTC	0.562													13	67					0	0	0.003163	0	0		T	33679016	T	T	33679016	3	4	43	1	0	0	0	0	1	0	0	0	9771	797	28	2	178	2	MRAP	21	33679016	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	27735	33679016	14450879	506	34327											
DOPEY2	9980	broad.mit.edu	37	chr21	37665815	37665815	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagatagcccaaggatcttAaaacaactggaagaatgcat	18	7	8	8	0	1	2	0	0	1	2	1	4	1	4	1	2	4	1	1	2	7	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr21:37665815A>T	uc002yvg.2	+	37	6922	c.6843A>T	c.(6841-6843)TTA>TTT	p.L2281F	DOPEY2_uc011aeb.1_Missense_Mutation_p.L2230F	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	2281					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						CAAGGATCTTAAAACAACTGG	0.408													12	111					0	0	0.010729	0	0		T	37665815	T	T	37665815	3	4	43	1	0	0	0	0	1	0	0	0	4714	359	13	5	6985	5	DOPEY2	21	37665815	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	3986799	37665815	10464080	507	34328											
DYRK1A	1859	broad.mit.edu	37	chr21	38862544	38862544	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttgaaatgctgtcctacaaCctctatgacttgctgagaaa	12	13	7	9	0	1	3	0	3	1	1	2	4	2	3	2	0	4	2	2	0	5	4	rs1049784		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr21:38862544C>G	uc002ywk.2	+	6	807	c.732C>G	c.(730-732)AAC>AAG	p.N244K	DYRK1A_uc002ywi.2_Missense_Mutation_p.N244K|DYRK1A_uc002ywj.2_Missense_Mutation_p.N235K|DYRK1A_uc002ywl.2_Missense_Mutation_p.N244K|DYRK1A_uc002ywm.2_Missense_Mutation_p.N244K|DYRK1A_uc011aei.1_Missense_Mutation_p.N5K	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	244	Protein kinase.				nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						TGTCCTACAACCTCTATGACT	0.393													15	77					0	0	0.00499	0	0		G	38862544	G	G	38862544	3	3	43	1	0	0	0	0	1	0	0	0	4860	506	18	5	754	5	DYRK1A	21	38862544	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1196729	38862544	9267351	508	34329											
UBASH3A	53347	broad.mit.edu	37	chr21	43833294	43833294	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagacgtcatccgggaattCgccatgaccttcgccacgga	9	7	11	14	5	1	2	1	1	0	1	4	4	2	4	4	2	0	1	4	2	1	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr21:43833294C>T	uc002zbe.2	+	4	552	c.516C>T	c.(514-516)TTC>TTT	p.F172F	UBASH3A_uc002zbf.2_Silent_p.F172F|UBASH3A_uc010gpc.2_RNA|UBASH3A_uc010gpd.2_RNA|UBASH3A_uc010gpe.2_Silent_p.F172F	NM_018961	NP_061834	P57075	UBS3A_HUMAN	ubiquitin associated and SH3 domain containing,	172						cytosol|nucleus				ovary(3)	3						TCCGGGAATTCGCCATGACCT	0.622													17	74					0	0	0.007413	0	0		T	43833294	T	T	43833294	2	4	43	1	0	0	0	0	0	0	0	1	16865	883	31	1		1	UBASH3A	21	43833294	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	4970750	43833294	4296601	509	34330											
RSPH1	89765	broad.mit.edu	37	chr21	43906511	43906511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaaccactctccagtgtagGtgtcattattgatgtagtag	11	13	9	8	0	2	1	1	1	1	0	3	1	2	1	2	1	1	3	2	1	5	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr21:43906511G>A	uc002zbg.2	-	4	440	c.335C>T	c.(334-336)ACC>ATC	p.T112I		NM_080860	NP_543136	Q8WYR4	RSPH1_HUMAN	testis-specific gene A2	112	MORN 4.				meiosis	cytosol|nucleus				ovary(1)	1						TCCAGTGTAGGTGTCATTATT	0.453													24	151					0	0	0.00333	0	0		A	43906511	A	A	43906511	3	1	43	1	0	0	0	0	1	0	0	0	13727	1261	44	4	618	4	RSPH1	21	43906511	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	73217	43906511	4223384	510	34331											
ITGB2	3689	broad.mit.edu	37	chr21	46308725	46308725	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctgcccttcacggggtTgttcgacagctgcaggcccg	4	9	14	14	3	1	0	1	0	0	0	3	1	2	0	3	4	3	4	3	4	0	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr21:46308725T>G	uc002zgd.2	-	13	2007	c.1963A>C	c.(1963-1965)AAC>CAC	p.N655H	ITGB2_uc002zge.2_Missense_Mutation_p.N655H|ITGB2_uc002zgf.3_Missense_Mutation_p.N655H|ITGB2_uc011afl.1_Missense_Mutation_p.N577H|ITGB2_uc010gpw.2_Missense_Mutation_p.N598H|ITGB2_uc002zgg.2_Missense_Mutation_p.N655H	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	655	Extracellular (Potential).				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	TTCACGGGGTTGTTCGACAGC	0.652													11	58					0	0	0.010729	0	0		G	46308725	G	G	46308725	3	3	43	1	0	0	0	0	1	0	0	0	7910	1812	63	5	358	5	ITGB2	21	46308725	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	2402214	46308725	1821170	511	34332											
COL6A1	1291	broad.mit.edu	37	chr21	47423388	47423388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaactttgacaccaccaagCgcttcgccaagcgcctggcc	10	6	8	17	3	0	1	0	1	0	0	1	1	0	1	5	1	3	1	5	1	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr21:47423388C>T	uc002zhu.1	+	35	2650	c.2548C>T	c.(2548-2550)CGC>TGC	p.R850C	COL6A1_uc010gqd.1_Missense_Mutation_p.R181C|COL6A1_uc002zhv.1_Missense_Mutation_p.R181C|COL6A1_uc002zhw.1_5'UTR	NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	850	C-terminal globular domain.|VWFA 3.				axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	CACCACCAAGCGCTTCGCCAA	0.706													5	22					0	0	0.000602	0	0		T	47423388	T	T	47423388	3	4	43	1	0	0	0	0	1	0	0	0	3702	768	27	1	2686	1	COL6A1	21	47423388	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1114663	47423388	706507	512	34333											
CHEK2	11200	broad.mit.edu	37	chr22	29121017	29121017	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaattgttattcaaaggacgGcgttttcctttccctacaag	10	14	8	9	2	1	0	1	0	0	0	3	2	3	1	2	2	1	2	2	2	5	7			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr22:29121017G>T	uc003adu.1	-	4	612	c.540C>A	c.(538-540)CGC>CGA	p.R180R	CHEK2_uc003ads.1_Intron|CHEK2_uc010gvh.1_Intron|CHEK2_uc010gvi.1_Silent_p.R180R|CHEK2_uc010gvj.1_Intron|CHEK2_uc003adr.1_RNA|CHEK2_uc010gvk.1_RNA|CHEK2_uc003adt.1_Silent_p.R223R|CHEK2_uc003adv.1_Silent_p.R180R|CHEK2_uc003adw.1_Silent_p.R180R|CHEK2_uc003adx.1_5'UTR|CHEK2_uc003ady.1_Silent_p.R180R|CHEK2_uc003adz.1_Intron	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a	180			R -> C (in prostate cancer; somatic mutation).|R -> H (in prostate cancer; somatic mutation).		cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						TCAAAGGACGGCGTTTTCCTT	0.348			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				15	94					6.31663e-08	6.98211e-08	0.003163	1	0		T	29121017	T	T	29121017	2	4	43	1	0	0	0	0	0	0	0	1	3338	1190	42	5		5	CHEK2	22	29121017	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08		29121017	22183549	513	34334											
ZNRF3	84133	broad.mit.edu	37	chr22	29444405	29444405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcatcccctgtactcaccGgtttcacaggaagtgcgtgg	7	10	12	12	2	3	0	3	0	0	0	4	1	4	1	3	4	2	2	3	4	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr22:29444405G>A	uc003aeg.2	+	7	806	c.641G>A	c.(640-642)CGG>CAG	p.R214Q	ZNRF3_uc003aeh.1_Missense_Mutation_p.R214Q	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	314	RING-type; atypical.|Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						TGTACTCACCGGTTTCACAGG	0.607													12	68					0	0	0.001855	0	0		A	29444405	A	A	29444405	3	1	43	1	0	0	0	0	1	0	0	0	18238	1116	39	1	663	1	ZNRF3	22	29444405	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	323388	29444405	21860161	514	34335											
ASCC2	84164	broad.mit.edu	37	chr22	30218382	30218382	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagagcacgcagaggtccagGatctttggaatgtcaaagag	14	7	13	7	1	2	3	1	0	1	3	3	5	3	5	1	3	1	2	1	3	3	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr22:30218382G>A	uc003agr.2	-	5	588	c.483C>T	c.(481-483)ATC>ATT	p.I161I	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Silent_p.I161I|ASCC2_uc011akr.1_Silent_p.I85I	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	161					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			AGAGGTCCAGGATCTTTGGAA	0.473													11	175					0	0	0.008291	0	0		A	30218382	A	A	30218382	2	1	43	1	0	0	0	0	0	0	0	1	1033	1164	41	4		4	ASCC2	22	30218382	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	773977	30218382	21086184	515	34336											
MPST	4357	broad.mit.edu	37	chr22	37420785	37420785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagaacctggaatcccggCgcttccaggtggtggactcc	8	7	14	12	2	0	1	0	0	0	1	3	4	3	3	4	6	1	1	4	6	2	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr22:37420785C>T	uc003aqj.2	+	3	941	c.529C>T	c.(529-531)CGC>TGC	p.R177C	MPST_uc003aqi.1_Missense_Mutation_p.R177C|MPST_uc003aqm.2_Missense_Mutation_p.R177C|MPST_uc011amu.1_Missense_Mutation_p.R197C|MPST_uc003aql.2_Missense_Mutation_p.R177C|MPST_uc003aqn.2_Missense_Mutation_p.R177C|MPST_uc003aqo.2_Missense_Mutation_p.R177C	NM_001130517	NP_001123989	P25325	THTM_HUMAN	mercaptopyruvate sulfurtransferase isoform 2	177	Rhodanese 2.				cyanate catabolic process|response to toxin		3-mercaptopyruvate sulfurtransferase activity|thiosulfate sulfurtransferase activity				0						GGAATCCCGGCGCTTCCAGGT	0.682													5	34					0	0	0.001168	0	0		T	37420785	T	T	37420785	3	4	43	1	0	0	0	0	1	0	0	0	9762	768	27	1	595	1	MPST	22	37420785	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	7202403	37420785	13883781	516	34337											
TRIOBP	11078	broad.mit.edu	37	chr22	38120242	38120242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcccagcgggacaatcccaGagcctccagaacctcctctc	9	6	8	18	1	1	2	0	0	1	2	5	3	4	3	6	1	4	0	6	1	2	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr22:38120242G>A	uc003atr.2	+	7	1950	c.1679G>A	c.(1678-1680)AGA>AAA	p.R560K	TRIOBP_uc003atu.2_Missense_Mutation_p.R388K|TRIOBP_uc003atq.1_Missense_Mutation_p.R560K|TRIOBP_uc003ats.1_Missense_Mutation_p.R388K	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	560					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GACAATCCCAGAGCCTCCAGA	0.592													6	299					0	0	0.008291	0	0		A	38120242	A	A	38120242	3	1	43	1	0	0	0	0	1	0	0	0	16579	942	33	4	1697	4	TRIOBP	22	38120242	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	699457	38120242	13184324	517	34338											
RANGAP1	5905	broad.mit.edu	37	chr22	41676938	41676938	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacttccagaaactcaccAtcttctgcagtgttgagttt	11	13	6	11	0	3	2	1	1	2	1	4	2	4	2	2	0	3	3	2	0	2	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr22:41676938A>G	uc003azs.2	-	1	1581	c.111T>C	c.(109-111)GAT>GAC	p.D37D	RANGAP1_uc003azt.2_Silent_p.D37D|RANGAP1_uc003azu.2_Silent_p.D37D|RANGAP1_uc011aoz.1_5'Flank	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	37					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						GAAACTCACCATCTTCTGCAG	0.413													7	109					0	0	0.001984	0	0		G	41676938	G	G	41676938	2	3	43	1	0	0	0	0	0	0	0	1	13058	231	8	3		3	RANGAP1	22	41676938	Silent	SNP	A	TCGA-BR-6802-01A-11D-1882-08	3556696	41676938	9627628	518	34339											
PARVB	29780	broad.mit.edu	37	chr22	44514998	44514998	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggaagacctgtatgacggCcaggtgctgcagaagctctt	10	8	14	9	1	1	3	0	1	1	2	1	5	1	4	2	3	3	4	2	3	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr22:44514998C>T	uc003ben.2	+	4	406	c.354C>T	c.(352-354)GGC>GGT	p.G118G	PARVB_uc003bem.2_Silent_p.G151G|PARVB_uc010gzn.2_Silent_p.G66G|PARVB_uc003beo.2_Silent_p.G81G	NM_013327	NP_037459	Q9HBI1	PARVB_HUMAN	parvin, beta isoform b	118	CH 1.				cell adhesion|cell junction assembly	cytoskeleton|cytosol|focal adhesion	actin binding				0		Ovarian(80;0.0246)|all_neural(38;0.0423)				TGTATGACGGCCAGGTGCTGC	0.597													16	126					0	0	0.010504	0	0		T	44514998	T	T	44514998	2	4	43	1	0	0	0	0	0	0	0	1	11488	726	26	2		2	PARVB	22	44514998	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	2838060	44514998	6789568	519	34340											
PLXNB2	23654	broad.mit.edu	37	chr22	50726198	50726198	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctggcctcctcggcccgCggacactcggccttccgggt	2	8	14	17	5	0	0	0	0	0	0	4	1	2	1	5	6	0	1	5	6	0	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr22:50726198C>T	uc003bkv.3	-	7	1612	c.1506G>A	c.(1504-1506)CCG>CCA	p.P502P		NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	502	Extracellular (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CCTCGGCCCGCGGACACTCGG	0.716													6	16					0	0	0.001168	0	0		T	50726198	T	T	50726198	2	4	43	1	0	0	0	0	0	0	0	1	12143	755	27	1		1	PLXNB2	22	50726198	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	6211200	50726198	578368	520	34341											
LMF2	91289	broad.mit.edu	37	chr22	50944598	50944598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtggtgtgcgaaccaggCggcgggcgtgggcaggcact	6	5	20	10	4	0	0	0	0	0	0	0	1	0	0	1	7	2	2	1	7	1	0			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chr22:50944598C>T	uc003blp.2	-	5	671	c.640G>A	c.(640-642)GCC>ACC	p.A214T	LMF2_uc010hba.2_Missense_Mutation_p.A36T|LMF2_uc003blo.2_Missense_Mutation_p.A189T|NCAPH2_uc003blq.3_5'Flank|NCAPH2_uc003blv.2_5'Flank|NCAPH2_uc003blr.3_5'Flank|NCAPH2_uc010hbb.2_5'Flank|NCAPH2_uc003blu.3_5'Flank|NCAPH2_uc003bls.3_5'Flank|NCAPH2_uc003blt.3_5'Flank|NCAPH2_uc003blw.3_5'Flank|NCAPH2_uc003blx.3_5'Flank|NCAPH2_uc003bly.3_5'Flank	NM_033200	NP_149977	Q9BU23	LMF2_HUMAN	lipase maturation factor 2	214						endoplasmic reticulum membrane|integral to membrane				breast(1)	1		all_cancers(38;1.31e-09)|all_epithelial(38;1.81e-08)|all_lung(38;0.000817)|Breast(42;0.00387)|Lung NSC(38;0.0124)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GCGAACCAGGCGGCGGGCGTG	0.672													6	10					0	0	0.001168	0	0		T	50944598	T	T	50944598	3	4	43	1	0	0	0	0	1	0	0	0	8863	768	27	1	1523	1	LMF2	22	50944598	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	218400	50944598	359968	521	34342											
PPP2R3B	28227	broad.mit.edu	37	chrX	295141	295141	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtccccgcatgcgtactcGtacaggtccacggcgcccag	6	7	11	17	6	0	0	0	0	0	0	4	0	2	0	4	2	3	3	4	2	2	2	rs144810281		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:295141G>A	uc004cpg.2	-	13	1890	c.1689C>T	c.(1687-1689)TAC>TAT	p.Y563Y	PPP2R3B_uc004cpf.2_Silent_p.Y164Y	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	563					cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ATGCGTACTCGTACAGGTCCA	0.741													4	34					0	0	0.009096	0	0		A	295141	A	A	295141	2	1	43	1	0	0	0	0	0	0	0	1	12411	1140	40	1		1	PPP2R3B	23	295141	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08		295141	154975419	522	34343											
PIGA	5277	broad.mit.edu	37	chrX	15349629	15349629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagccccattgtcttggCgtggaagagagcatcatggg	9	9	14	9	1	2	2	1	1	1	1	2	4	2	3	2	3	2	1	2	3	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:15349629C>T	uc004cwr.2	-	2	524	c.424G>A	c.(424-426)GCC>ACC	p.A142T	PIGA_uc004cwq.2_Intron|PIGA_uc010nev.2_Intron|PIGA_uc004cws.2_Intron|PIGA_uc011miq.1_Intron|PIGA_uc010new.1_Intron	NM_002641	NP_002632	P37287	PIGA_HUMAN	phosphatidylinositol	142	Cytoplasmic (Potential).				C-terminal protein lipidation|positive regulation of metabolic process|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity|protein binding				0	Hepatocellular(33;0.183)					ATTGTCTTGGCGTGGAAGAGA	0.468													7	56					0	0	0.001984	0	0		T	15349629	T	T	15349629	3	4	43	1	0	0	0	0	1	0	0	0	11903	768	27	1	1050	1	PIGA	23	15349629	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	15054488	15349629	139920931	523	34344											
MAGEB16	139604	broad.mit.edu	37	chrX	35821242	35821242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctttcccatctcagtatgCggaagctctgaaagaggaag	11	11	10	9	1	3	2	1	1	3	1	5	4	4	4	1	2	2	2	1	2	4	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:35821242C>T	uc010ngt.1	+	2	1208	c.929C>T	c.(928-930)GCG>GTG	p.A310V		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	310	MAGE.									lung(3)|ovary(2)|breast(1)|skin(1)	7						TCTCAGTATGCGGAAGCTCTG	0.498													3	14					0	0	0.004672	0	0		T	35821242	T	T	35821242	3	4	43	1	0	0	0	0	1	0	0	0	9192	768	27	1	931	1	MAGEB16	23	35821242	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	20471613	35821242	119449318	524	34345											
CASK	8573	broad.mit.edu	37	chrX	41379720	41379720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtggggctgtgcacacgaGctcaacagcttcctccagat	8	9	11	13	1	1	1	1	0	0	1	3	2	3	1	2	2	4	4	2	2	1	1			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:41379720G>A	uc004dfl.3	-	27	2765	c.2719C>T	c.(2719-2721)CTC>TTC	p.L907F	CASK_uc004dfj.3_Missense_Mutation_p.L452F|CASK_uc004dfk.3_Missense_Mutation_p.L727F|CASK_uc004dfm.3_Missense_Mutation_p.L884F|CASK_uc004dfn.3_Missense_Mutation_p.L883F	NM_003688	NP_003679	O14936	CSKP_HUMAN	calcium/calmodulin-dependent serine protein	912					cell adhesion	actin cytoskeleton|cytoplasm|nucleus|plasma membrane	ATP binding|calmodulin binding|guanylate kinase activity|protein serine/threonine kinase activity			ovary(3)|lung(2)|stomach(1)	6						GTGCACACGAGCTCAACAGCT	0.473													16	17					0	0	0.004007	0	0		A	41379720	A	A	41379720	3	1	43	1	0	0	0	0	1	0	0	0	2668	971	34	2	50	2	CASK	23	41379720	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	5558478	41379720	113890840	525	34346											
SUV39H1	6839	broad.mit.edu	37	chrX	48564698	48564698	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggcggggccagatctacGaccgtcagggcgccacctac	8	4	14	15	5	2	1	1	0	1	1	2	2	2	1	4	4	3	0	4	4	2	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:48564698G>T	uc004dkn.2	+	4	916	c.871G>T	c.(871-873)GAC>TAC	p.D291Y	SUV39H1_uc011mmf.1_Missense_Mutation_p.D302Y|SUV39H1_uc011mmg.1_RNA	NM_003173	NP_003164	O43463	SUV91_HUMAN	suppressor of variegation 3-9 homolog 1	291	Mediates interaction with MECOM (By similarity).|SET.				cell cycle|cell differentiation|chromatin silencing at rDNA|interspecies interaction between organisms|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|chromosome, centromeric region|condensed nuclear chromosome|rDNA heterochromatin	chromatin binding|histone methyltransferase activity (H3-K9 specific)|protein N-terminus binding|zinc ion binding				0						CCAGATCTACGACCGTCAGGG	0.587													26	39					9.86323e-18	1.11528e-17	0.003954	1	0		T	48564698	T	T	48564698	3	4	43	1	0	0	0	0	1	0	0	0	15437	1058	37	5	885	5	SUV39H1	23	48564698	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	7184978	48564698	106705862	526	34347											
HDAC6	10013	broad.mit.edu	37	chrX	48681900	48681901	+	Frame_Shift_Ins	INS	-	C	C																															ctcgagcacagaccaccagaINScccccccaacctcacctgtg																										TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:48681900_48681901insC	uc011mmi.1	+	25	3186_3187	c.3091_3092insC	c.(3091-3093)ACCfs	p.T1031fs	HDAC6_uc004dks.1_Frame_Shift_Ins_p.T1031fs|HDAC6_uc010nig.1_Frame_Shift_Ins_p.T879fs|HDAC6_uc004dkt.1_Frame_Shift_Ins_p.T1031fs|HDAC6_uc011mmk.1_Frame_Shift_Ins_p.T1012fs|HDAC6_uc004dkv.1_Frame_Shift_Ins_p.T679fs|HDAC6_uc004dkw.1_Frame_Shift_Ins_p.T679fs|HDAC6_uc004dkx.1_Frame_Shift_Ins_p.T394fs	NM_006044	NP_006035	Q9UBN7	HDAC6_HUMAN	histone deacetylase 6	1031					aggresome assembly|cellular response to hydrogen peroxide|Hsp90 deacetylation|lysosome localization|macroautophagy|misfolded or incompletely synthesized protein catabolic process|negative regulation of proteolysis|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|polyubiquitinated misfolded protein transport|positive regulation of apoptosis|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of epithelial cell migration|positive regulation of receptor biosynthetic process|positive regulation of signal transduction|regulation of androgen receptor signaling pathway|regulation of receptor activity|response to growth factor stimulus|response to toxin|transcription, DNA-dependent|tubulin deacetylation	aggresome|caveola|cell leading edge|cytosol|histone deacetylase complex|microtubule associated complex|perinuclear region of cytoplasm	actin binding|alpha-tubulin binding|beta-catenin binding|dynein complex binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|Hsp90 protein binding|microtubule binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|polyubiquitin binding|tau protein binding|tubulin deacetylase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4					Vorinostat(DB02546)	AGACCACCAGACCCCCCCAACC	0.589													6	13	---	---	---	---						.	C	48681901	C	C	48681900	7	5	43	1	0	1	1	0	0	0	0	0	7027	275	10	0	3185	0	HDAC6	23	48681900	Frame_Shift_Ins	INS	-	TCGA-BR-6802-01A-11D-1882-08	117202	48681900	106588660	527	34348											
WNK3	65267	broad.mit.edu	37	chrX	54276024	54276024	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggattattttctatagtgagCaatgtgtcccgtgatatttc	9	17	9	6	1	1	2	0	2	1	0	3	3	2	3	1	1	1	1	1	1	5	7			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:54276024C>A	uc004dtd.1	-	17	3196	c.2757G>T	c.(2755-2757)TTG>TTT	p.L919F	WNK3_uc004dtc.1_Missense_Mutation_p.L919F	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	919					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						CTATAGTGAGCAATGTGTCCC	0.398													11	113					6.40141e-05	6.82817e-05	0.010729	1	0		A	54276024	A	A	54276024	3	1	43	1	0	0	0	0	1	0	0	0	17405	709	25	5	2677	5	WNK3	23	54276024	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	5594124	54276024	100994536	528	34349											
UBQLN2	29978	broad.mit.edu	37	chrX	56591820	56591820	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccccataggccctatagTcccttttacccccataggcc	8	9	7	17	0	0	0	0	0	0	0	1	0	1	0	7	3	1	0	7	3	5	6			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:56591820T>C	uc004dus.2	+	1	1749	c.1514T>C	c.(1513-1515)GTC>GCC	p.V505A	UBQLN2_uc011moq.1_Intron	NM_013444	NP_038472	Q9UHD9	UBQL2_HUMAN	ubiquilin 2	505	5.|12 X 3 AA tandem repeats of P-X-X.					cytoplasm|nucleus|plasma membrane	binding			ovary(1)|skin(1)	2						GGCCCTATAGTCCCTTTTACC	0.662													3	2					0	0	0.009096	0	0		C	56591820	C	C	56591820	3	2	43	1	0	0	0	0	1	0	0	0	16923	1667	58	3	1516	3	UBQLN2	23	56591820	Missense_Mutation	SNP	T	TCGA-BR-6802-01A-11D-1882-08	2315796	56591820	98678740	529	34350											
RGAG4	340526	broad.mit.edu	37	chrX	71351350	71351350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgcgcagggccacattcGccatgcggaggctgttgaga	7	8	14	12	4	0	1	0	1	0	1	2	3	0	2	2	3	1	3	2	3	0	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:71351350G>A	uc010nlh.1	-	1	402	c.41C>T	c.(40-42)GCG>GTG	p.A14V	NHSL2_uc011mqa.1_Intron|RGAG4_uc004eaj.1_RNA|NHSL2_uc004eak.1_5'Flank|NHSL2_uc010nli.2_5'Flank	NM_001024455	NP_001019626	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	14										ovary(2)|skin(1)	3	Renal(35;0.156)					GGCCACATTCGCCATGCGGAG	0.612													3	24					0	0	0.009096	0	0		A	71351350	A	A	71351350	3	1	43	1	0	0	0	0	1	0	0	0	13300	1087	38	1	1672	1	RGAG4	23	71351350	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	14759530	71351350	83919210	530	34351											
ERCC6L	54821	broad.mit.edu	37	chrX	71427426	71427426	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcagccaaaggtgagcgCgtctccattagcaactcctt	10	9	9	13	2	2	1	1	1	1	0	4	1	3	1	3	1	5	2	3	1	3	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:71427426C>T	uc004eaq.1	-	2	1288	c.1191G>A	c.(1189-1191)ACG>ACA	p.T397T	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Silent_p.T274T	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	397					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					AAGGTGAGCGCGTCTCCATTA	0.403													23	81					0	0	0.014323	0	0		T	71427426	T	T	71427426	2	4	43	1	0	0	0	0	0	0	0	1	5226	755	27	1		1	ERCC6L	23	71427426	Silent	SNP	C	TCGA-BR-6802-01A-11D-1882-08	76076	71427426	83843134	531	34352											
CDX4	1046	broad.mit.edu	37	chrX	72674374	72674374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaccacaccatctgctgttCgtggatttcaacctattgag	9	13	7	12	1	3	1	2	1	1	0	4	2	3	2	3	1	2	2	3	1	2	4			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:72674374C>T	uc011mqk.1	+	3	808	c.808C>T	c.(808-810)CGT>TGT	p.R270C		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	270						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(35;0.156)					ATCTGCTGTTCGTGGATTTCA	0.433													15	7					0	0	0.003163	0	0		T	72674374	T	T	72674374	3	4	43	1	0	0	0	0	1	0	0	0	3187	884	31	1	818	1	CDX4	23	72674374	Missense_Mutation	SNP	C	TCGA-BR-6802-01A-11D-1882-08	1246948	72674374	82596186	532	34353											
SATL1	340562	broad.mit.edu	37	chrX	84363384	84363384	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgcctggttgttgcacGcctggttgccacatgcctgg	4	12	13	12	1	0	1	0	1	0	0	0	1	0	1	4	3	4	4	4	3	0	3			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:84363384G>A	uc011mqx.1	-	1	591	c.591C>T	c.(589-591)GGC>GGT	p.G197G	SATL1_uc004een.2_Silent_p.G197G	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	10	Gln-rich.						N-acetyltransferase activity			breast(2)	2						GTTGTTGCACGCCTGGTTGCC	0.572													18	65					0	0	0.006122	0	0		A	84363384	A	A	84363384	2	1	43	1	0	0	0	0	0	0	0	1	13880	1074	38	1		1	SATL1	23	84363384	Silent	SNP	G	TCGA-BR-6802-01A-11D-1882-08	11689010	84363384	70907176	533	34354											
TRMT2B	79979	broad.mit.edu	37	chrX	100274338	100274338	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttcctttgactttagcAgccctggcaaaatcttctct	8	15	5	13	0	3	1	0	1	3	0	5	1	4	1	2	1	2	2	2	1	3	5			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:100274338A>G	uc004egq.2	-	11	1522	c.1223T>C	c.(1222-1224)CTG>CCG	p.L408P	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Missense_Mutation_p.L408P|TRMT2B_uc004egs.2_Missense_Mutation_p.L408P|TRMT2B_uc004egt.2_Missense_Mutation_p.L408P|TRMT2B_uc004egu.2_Missense_Mutation_p.L289P|TRMT2B_uc004egv.2_Missense_Mutation_p.L363P	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	408							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						TGACTTTAGCAGCCCTGGCAA	0.483													40	41					0	0	0.005524	0	0		G	100274338	G	G	100274338	3	3	43	1	0	0	0	0	1	0	0	0	16592	188	7	3	303	3	TRMT2B	23	100274338	Missense_Mutation	SNP	A	TCGA-BR-6802-01A-11D-1882-08	15910954	100274338	54996222	534	34355											
TCEAL6	158931	broad.mit.edu	37	chrX	101396155	101396155	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcacctggctctccctcaGcctttcgctttccctcgcat	4	13	5	19	2	3	0	2	0	1	0	7	0	4	0	4	1	1	3	4	1	0	2			TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:101396155G>T	uc004eiq.2	-	3	310	c.149C>A	c.(148-150)GCT>GAT	p.A50D		NM_001006938	NP_001006939	Q6IPX3	TCAL6_HUMAN	transcription elongation factor A (SII)-like 6	50	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						ctctccctcagcctttcgctt	0.214													16	70					6.31663e-08	6.98211e-08	0.003163	1	0		T	101396155	T	T	101396155	3	4	43	1	0	0	0	0	1	0	0	0	15700	971	34	5	406	5	TCEAL6	23	101396155	Missense_Mutation	SNP	G	TCGA-BR-6802-01A-11D-1882-08	1121817	101396155	53874405	535	34356											
BCORL1	63035	broad.mit.edu	37	chrX	129190011	129190011	+	Frame_Shift_Del	DEL	C	-	-																															tggaggcttggacgacagatCccccccaggctcctctgaga																								rs137862942		TCGA-BR-6802-01A-11D-1882-08	TCGA-BR-6802-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3725a6f-6ed6-4b8d-8d69-091058167abd	327b3bca-336c-4807-a67c-6132bf9fa61e	g.chrX:129190011delC	uc004evb.1	+	13	5150	c.5036delC	c.(5035-5037)TCCfs	p.S1679fs	BCORL1_uc004evc.1_Frame_Shift_Del_p.S515fs	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1679					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GACGACAGATCCCCCCCAGGC	0.602													44	54	---	---	---	---						.	-	129190011	-	-	129190011	7	5	43	1	0	1	0	1	0	0	0	0	1388	855	30	0	5308	0	BCORL1	23	129190011	Frame_Shift_Del	DEL	C	TCGA-BR-6802-01A-11D-1882-08	27793856	129190011	26080549	536	34357											
ANKRD36	375248	broad.mit.edu	37	chr2	97911228	97911228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcataccattgtagactgaAtgctgctcgatgtgatcatg	11	13	9	8	1	2	3	2	2	0	1	3	4	2	3	1	0	3	3	1	0	3	3			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr2:97911228A>G	uc010yva.1	+	71	5148	c.4904A>G	c.(4903-4905)AAT>AGT	p.N1635S	ANKRD36_uc002sxr.1_Missense_Mutation_p.N459S|ANKRD36_uc002sxt.1_RNA	NM_001164315	NP_001157787	A6QL64	AN36A_HUMAN	ankyrin repeat domain 36	1635	Potential.										0						TGTAGACTGAATGCTGCTCGA	0.428													10	146					0	0	0.008291	0	0		G	97911228	G	G	97911228	3	3	44	1	0	0	0	0	1	0	0	0	665	101	4	3	5186	3	ANKRD36	2	97911228	Missense_Mutation	SNP	A	TCGA-BR-6803-01A-11D-1882-08		97911228	145288145	1	34358											
PSD4	23550	broad.mit.edu	37	chr2	113955401	113955401	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgtgggggtgcaccactcGctggccacccccgccacgca	5	4	12	20	4	0	0	0	0	0	0	1	0	0	0	6	3	1	3	6	3	0	0			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr2:113955401G>A	uc002tjc.2	+	14	2718	c.2535G>A	c.(2533-2535)TCG>TCA	p.S845S	PSD4_uc002tjd.2_Silent_p.S465S|PSD4_uc002tje.2_Silent_p.S815S|PSD4_uc002tjf.2_Silent_p.S466S|PSD4_uc002tjg.2_Silent_p.S11S|PSD4_uc010yxs.1_Silent_p.S75S|PSD4_uc002tjh.2_5'Flank	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	845	PH.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						TGCACCACTCGCTGGCCACCC	0.647													11	60					0	0	0.008291	0	0		A	113955401	A	A	113955401	2	1	44	1	0	0	0	0	0	0	0	1	12671	1074	38	1		1	PSD4	2	113955401	Silent	SNP	G	TCGA-BR-6803-01A-11D-1882-08	16044173	113955401	129243972	2	34359											
GPR155	151556	broad.mit.edu	37	chr2	175304637	175304637	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttgcttaccttctttctttGacaatgtttcggatacagag	8	18	7	8	1	2	2	0	1	2	1	3	3	2	3	1	1	3	2	1	1	3	7			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr2:175304637G>C	uc002uit.2	-	16	2692	c.2301C>G	c.(2299-2301)GTC>GTG	p.V767V	GPR155_uc002uiu.2_Silent_p.V767V|GPR155_uc002uiv.2_Silent_p.V767V|GPR155_uc010fqs.2_Silent_p.V739V	NM_001033045	NP_001028217	Q7Z3F1	GP155_HUMAN	G protein-coupled receptor 155 isoform 9	767	DEP.				intracellular signal transduction|transmembrane transport	integral to membrane				ovary(1)	1						TTCTTTCTTTGACAATGTTTC	0.348													4	53					0	0	0.001984	0	0		C	175304637	C	C	175304637	2	2	44	1	0	0	0	0	0	0	0	1	6675	1277	45	5		5	GPR155	2	175304637	Silent	SNP	G	TCGA-BR-6803-01A-11D-1882-08	61349236	175304637	67894736	3	34360											
ZNF860	344787	broad.mit.edu	37	chr3	32032150	32032150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaacaagcaacccttgcaCgtcatcatagacttcatact	14	10	4	13	1	4	1	4	0	0	1	4	1	4	1	1	0	5	2	1	0	5	4			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr3:32032150C>T	uc011axg.1	+	2	2128	c.1579C>T	c.(1579-1581)CGT>TGT	p.R527C		NM_001137674	NP_001131146	A6NHJ4	ZN860_HUMAN	zinc finger protein 860	527	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AACCCTTGCACGTCATCATAG	0.378													10	79					0	0	0.008291	0	0		T	32032150	T	T	32032150	3	4	44	1	0	0	0	0	1	0	0	0	18219	536	19	1	1581	1	ZNF860	3	32032150	Missense_Mutation	SNP	C	TCGA-BR-6803-01A-11D-1882-08		32032150	165990280	4	34361											
PCDHGA8	9708	broad.mit.edu	37	chr5	140773225	140773225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaagtggcatacaaattccGgaaaattaatgaaaaacaaa	23	7	6	5	1	0	1	0	1	0	0	1	2	1	2	1	2	2	1	1	2	10	3	rs141295392	by1000genomes	TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr5:140773225G>A	uc003lkd.1	+	1	1743	c.845G>A	c.(844-846)CGG>CAG	p.R282Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.R282Q	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	282	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TACAAATTCCGGAAAATTAAT	0.408													18	118					0	0	0.00499	0	0		A	140773225	A	A	140773225	3	1	44	1	0	0	0	0	1	0	0	0	11579	1116	39	1	847	1	PCDHGA8	5	140773225	Missense_Mutation	SNP	G	TCGA-BR-6803-01A-11D-1882-08		140773225	40142035	5	34362											
FAT2	2196	broad.mit.edu	37	chr5	150924600	150924600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgagtgtcctgctgctcccGgtcaaacgccacacctcttg	7	10	9	15	2	2	1	1	1	1	0	4	1	4	1	4	1	3	2	4	1	1	1			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr5:150924600G>A	uc003lue.3	-	9	6101	c.6088C>T	c.(6088-6090)CGG>TGG	p.R2030W	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	2030	Extracellular (Potential).|Cadherin 17.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGCTGCTCCCGGTCAAACGCC	0.507													4	153					0	0	0.009096	0	0		A	150924600	A	A	150924600	3	1	44	1	0	0	0	0	1	0	0	0	5704	1115	39	1	7021	1	FAT2	5	150924600	Missense_Mutation	SNP	G	TCGA-BR-6803-01A-11D-1882-08	10151375	150924600	29990660	6	34363											
AK3	50808	broad.mit.edu	37	chr9	4713048	4713048	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagcatatacatagggccaAatcttgttggtttctgttcc	11	14	8	8	0	2	0	0	0	2	0	3	0	3	0	2	2	2	4	2	2	5	7			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr9:4713048A>C	uc003ziq.1	-	5	752	c.612T>G	c.(610-612)ATT>ATG	p.I204M	AK3_uc003zip.1_RNA|AK3_uc011lma.1_Missense_Mutation_p.I164M|AK3_uc003zir.1_Missense_Mutation_p.I134M	NM_016282	NP_057366	Q9UIJ7	KAD3_HUMAN	adenylate kinase 3	204					blood coagulation	mitochondrial matrix	ATP binding|GTP binding|nucleoside triphosphate adenylate kinase activity			ovary(2)	2	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0302)		CATAGGGCCAAATCTTGTTGG	0.378													14	80					0	0	0.001855	0	0		C	4713048	C	C	4713048	3	2	44	1	0	0	0	0	1	0	0	0	441	10	1	5	75	5	AK3	9	4713048	Missense_Mutation	SNP	A	TCGA-BR-6803-01A-11D-1882-08		4713048	136500383	7	34364											
SVIL	6840	broad.mit.edu	37	chr10	29759247	29759247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtccttccgacctccttcGtgtgggcctgggctttgcat	2	13	12	14	3	0	0	0	0	0	0	4	1	3	0	5	3	1	2	5	3	0	3			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr10:29759247G>A	uc001iut.1	-	32	6554	c.5801C>T	c.(5800-5802)ACG>ATG	p.T1934M	LOC387647_uc001iup.2_Intron|LOC387647_uc001iuq.1_Intron|SVIL_uc010qdw.1_Missense_Mutation_p.T848M|SVIL_uc001iuu.1_Missense_Mutation_p.T1508M	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1934	Gelsolin-like 4.				cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				GACCTCCTTCGTGTGGGCCTG	0.597													20	124					0	0	0.00333	0	0		A	29759247	A	A	29759247	3	1	44	1	0	0	0	0	1	0	0	0	15446	1145	40	1	871	1	SVIL	10	29759247	Missense_Mutation	SNP	G	TCGA-BR-6803-01A-11D-1882-08		29759247	105775500	8	34365											
DOCK1	1793	broad.mit.edu	37	chr10	128851029	128851029	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtacaaagccatgaaagcGctagaatccatcttcaagtt	14	10	7	10	1	2	2	1	1	1	1	3	2	3	2	2	0	3	3	2	0	6	4			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr10:128851029G>T	uc001ljt.2	+	22	2287	c.2223G>T	c.(2221-2223)GCG>GCT	p.A741A	DOCK1_uc010qun.1_Silent_p.A762A	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	741					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		CCATGAAAGCGCTAGAATCCA	0.502													11	47					1.08611e-07	1.52055e-07	0.010729	1	0		T	128851029	T	T	128851029	2	4	44	1	0	0	0	0	0	0	0	1	4690	1074	38	5		5	DOCK1	10	128851029	Silent	SNP	G	TCGA-BR-6803-01A-11D-1882-08	99091782	128851029	6683718	9	34366											
CHID1	66005	broad.mit.edu	37	chr11	902239	902239	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgacctcaaacatctcaCggccacgtctcttcagctgc	8	9	7	17	3	4	1	3	1	2	0	6	1	4	1	3	1	3	1	3	1	1	1			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr11:902239C>A	uc001lsl.2	-	4	514	c.353G>T	c.(352-354)CGT>CTT	p.R118L	CHID1_uc010qwu.1_Missense_Mutation_p.R148L|CHID1_uc010qwv.1_Missense_Mutation_p.R179L|CHID1_uc001lsn.2_Missense_Mutation_p.R143L|CHID1_uc001lsm.2_Missense_Mutation_p.R118L|CHID1_uc001lso.2_Missense_Mutation_p.R118L|CHID1_uc001lsp.2_Missense_Mutation_p.R118L|CHID1_uc010qww.1_Missense_Mutation_p.R118L	NM_023947	NP_076436	Q9BWS9	CHID1_HUMAN	chitinase domain containing 1 isoform a	118					chitin catabolic process|innate immune response	extracellular region|lysosome	cation binding|chitinase activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.48e-25)|Epithelial(43;3.75e-24)|BRCA - Breast invasive adenocarcinoma(625;4.65e-05)|Lung(200;0.0624)|LUSC - Lung squamous cell carcinoma(625;0.0735)		AAACATCTCACGGCCACGTCT	0.557													11	77					6.42651e-13	9.30736e-13	0.010729	1	0		A	902239	A	A	902239	3	1	44	1	0	0	0	0	1	0	0	0	3348	536	19	5	868	5	CHID1	11	902239	Missense_Mutation	SNP	C	TCGA-BR-6803-01A-11D-1882-08		902239	134104277	10	34367											
MTUS2	23281	broad.mit.edu	37	chr13	29600602	29600602	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcccccaaagtgcctgaCaagaacacttgccccagtgg	11	6	9	15	1	0	2	0	1	0	1	1	2	1	2	5	1	3	0	5	1	3	1			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr13:29600602C>G	uc001usl.3	+	1	1855	c.1797C>G	c.(1795-1797)GAC>GAG	p.D599E		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	589						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						AAGTGCCTGACAAGAACACTT	0.532													3	61					0	0	0.004672	0	0		G	29600602	G	G	29600602	3	3	44	1	0	0	0	0	1	0	0	0	9984	477	17	5	1799	5	MTUS2	13	29600602	Missense_Mutation	SNP	C	TCGA-BR-6803-01A-11D-1882-08		29600602	85569276	11	34368											
TTLL5	23093	broad.mit.edu	37	chr14	76241900	76241900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggatggtattacccagtcGacgattggcacttctggaac	10	10	12	9	2	1	0	0	0	1	0	2	5	1	2	1	4	2	2	1	4	3	4			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr14:76241900G>A	uc001xrx.2	+	22	2415	c.2210G>A	c.(2209-2211)CGA>CAA	p.R737Q	TTLL5_uc010ask.1_Missense_Mutation_p.R751Q|TTLL5_uc001xrz.2_Missense_Mutation_p.R312Q|TTLL5_uc001xry.1_RNA	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	737					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		TTACCCAGTCGACGATTGGCA	0.448													8	164					0	0	0.00308	0	0		A	76241900	A	A	76241900	3	1	44	1	0	0	0	0	1	0	0	0	16756	1058	37	1	2292	1	TTLL5	14	76241900	Missense_Mutation	SNP	G	TCGA-BR-6803-01A-11D-1882-08		76241900	31107640	12	34369											
TLN2	83660	broad.mit.edu	37	chr15	63084979	63084979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaatgcgcccgtgccgtcaCggaaaaggtaaggagcagcc	11	4	14	12	5	1	0	1	0	0	0	1	3	1	2	3	3	4	2	3	3	4	1	rs140861754	byFrequency	TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr15:63084979C>T	uc002alb.3	+	43	5876	c.5876C>T	c.(5875-5877)ACG>ATG	p.T1959M	TLN2_uc002alc.3_Missense_Mutation_p.T352M	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1959					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						CGTGCCGTCACGGAAAAGGTA	0.567													6	31					0	0	0.001984	0	0		T	63084979	T	T	63084979	3	4	44	1	0	0	0	0	1	0	0	0	15973	536	19	1	6046	1	TLN2	15	63084979	Missense_Mutation	SNP	C	TCGA-BR-6803-01A-11D-1882-08		63084979	39446413	13	34370											
CDH1	999	broad.mit.edu	37	chr16	68844172	68844172	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattttgatcacggtaaccGatcagaatgacaacaagccc	15	8	8	10	2	2	4	2	2	0	2	2	5	2	4	2	1	3	1	2	1	4	3			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr16:68844172G>T	uc002ewg.1	+	6	884	c.760G>T	c.(760-762)GAT>TAT	p.D254Y	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.D254Y	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	254	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.?(2)|p.D254fs*9(1)|p.D254H(1)|p.D254Y(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		CACGGTAACCGATCAGAATGA	0.468			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				56	155					1.87469e-40	2.91619e-40	0.00361	1	0		T	68844172	T	T	68844172	3	4	44	1	0	0	0	0	1	0	0	0	3098	1058	37	5	782	5	CDH1	16	68844172	Missense_Mutation	SNP	G	TCGA-BR-6803-01A-11D-1882-08		68844172	21510581	14	34371											
TP53	7157	broad.mit.edu	37	chr17	7578542	7578542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggcaaaacatcttgttgaGggcaggggagtactgtagga	11	10	15	5	0	1	1	0	1	1	0	1	3	1	3	0	5	2	5	0	5	4	5			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr17:7578542G>A	uc002gim.2	-	5	582	c.388C>T	c.(388-390)CTC>TTC	p.L130F	TP53_uc002gig.1_Missense_Mutation_p.L130F|TP53_uc002gih.2_Missense_Mutation_p.L130F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'UTR|TP53_uc010cng.1_5'UTR|TP53_uc002gii.1_5'UTR|TP53_uc010cnh.1_Missense_Mutation_p.L130F|TP53_uc010cni.1_Missense_Mutation_p.L130F|TP53_uc002gij.2_Missense_Mutation_p.L130F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.L37F|TP53_uc002gio.2_5'UTR|TP53_uc010vug.1_Missense_Mutation_p.L91F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	130	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		L -> H (in sporadic cancers; somatic mutation).|L -> F (in sporadic cancers; somatic mutation).|L -> I (in a sporadic cancer; somatic mutation).|L -> R (in sporadic cancers; somatic mutation).|L -> V (in sporadic cancers; somatic mutation).|L -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.L130V(11)|p.L130F(7)|p.L130R(7)|p.0?(7)|p.Y126_K132delYSPALNK(6)|p.L130L(4)|p.L130H(3)|p.Y126_N131delYSPALN(3)|p.L130fs*19(2)|p.L130fs*41(2)|p.Y126fs*11(1)|p.S127_Q136del10(1)|p.A129_L130insXX(1)|p.A129_N131delALN(1)|p.L130P(1)|p.V73fs*9(1)|p.Y126fs*18(1)|p.L130fs*39(1)|p.L130fs*16(1)|p.A129_K132delALNK(1)|p.L130_M133delLNKM(1)|p.N131fs*27(1)|p.P13fs*18(1)|p.S127fs*36(1)|p.L130del(1)|p.L130fs*40(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ATCTTGTTGAGGGCAGGGGAG	0.552		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			6	47					0	0	0.001168	0	0		A	7578542	A	A	7578542	3	1	44	1	0	0	0	0	1	0	0	0	16407	1000	35	4	910	4	TP53	17	7578542	Missense_Mutation	SNP	G	TCGA-BR-6803-01A-11D-1882-08		7578542	73616668	15	34372											
SPDYE4	388333	broad.mit.edu	37	chr17	8656508	8656508	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgctctgggtcataaGcctggatctggaaaaacaca	12	8	10	11	0	3	0	1	0	2	0	3	2	3	2	2	3	3	1	2	3	3	1			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr17:8656508G>T	uc010cnz.1	-	6	839	c.662C>A	c.(661-663)GCT>GAT	p.A221D		NM_001128076	NP_001121548	A6NLX3	SPDE4_HUMAN	speedy homolog E4	221											0						TGGGTCATAAGCCTGGATCTG	0.617													5	67					0.00307968	0.00404208	0.00308	1	0		T	8656508	T	T	8656508	3	4	44	1	0	0	0	0	1	0	0	0	15056	971	34	5	55	5	SPDYE4	17	8656508	Missense_Mutation	SNP	G	TCGA-BR-6803-01A-11D-1882-08	1077966	8656508	72538702	16	34373											
SPAG5	10615	broad.mit.edu	37	chr17	26905534	26905534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcgggtaaggtgggtcacctCctctctaaggctctgggaat	7	10	14	10	1	3	0	1	0	2	0	5	1	4	1	2	5	0	2	2	5	3	2			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr17:26905534C>T	uc002hbq.2	-	21	3303	c.3211G>A	c.(3211-3213)GAG>AAG	p.E1071K	ALDOC_uc002hbp.2_5'Flank|ALDOC_uc010cro.2_5'Flank	NM_006461	NP_006452	Q96R06	SPAG5_HUMAN	sperm associated antigen 5	1071	Potential.				cell division|mitosis|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytoplasm|spindle pole	protein binding			central_nervous_system(1)	1	Lung NSC(42;0.00431)					TGGGTCACCTCCTCTCTAAGG	0.532													20	116					0	0	0.002299	0	0		T	26905534	T	T	26905534	3	4	44	1	0	0	0	0	1	0	0	0	15006	864	30	4	386	4	SPAG5	17	26905534	Missense_Mutation	SNP	C	TCGA-BR-6803-01A-11D-1882-08	18249026	26905534	54289676	17	34374											
SIRT6	51548	broad.mit.edu	37	chr19	4174643	4174643	+	Frame_Shift_Del	DEL	T	-	-																															gaccgccttggccttcacccTtttggggggtctgtgggggg																										TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr19:4174643delT	uc002lzo.2	-	8	1099	c.1039delA	c.(1039-1041)AGGfs	p.R347fs	SIRT6_uc002lzn.2_3'UTR|SIRT6_uc002lzp.2_3'UTR|SIRT6_uc010xid.1_Frame_Shift_Del_p.R275fs|SIRT6_uc002lzq.2_Frame_Shift_Del_p.R320fs|SIRT6_uc002lzr.2_Frame_Shift_Del_p.R248fs	NM_016539	NP_057623	Q8N6T7	SIRT6_HUMAN	sirtuin 6	347					chromatin silencing|protein ADP-ribosylation	nuclear telomeric heterochromatin|nucleoplasm	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity|NAD+ binding|NAD-dependent histone deacetylase activity (H3-K9 specific)|protein binding|zinc ion binding			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.023)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCTTCACCCTTTTGGGGGGT	0.647													2	4	---	---	---	---						.	-	4174643	-	-	4174643	7	5	44	1	0	1	0	1	0	0	0	0	14367	1608	56	0	32	0	SIRT6	19	4174643	Frame_Shift_Del	DEL	T	TCGA-BR-6803-01A-11D-1882-08		4174643	54954340	18	34375											
CTSA	5476	broad.mit.edu	37	chr20	44521890	44521890	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcaatggactctcctcctAtgagcagaatgacaactccc	11	8	9	13	0	1	3	0	2	1	1	4	4	3	4	3	2	2	2	3	2	4	1			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr20:44521890A>G	uc002xqj.3	+	7	1106	c.632A>G	c.(631-633)TAT>TGT	p.Y211C	NEURL2_uc002xqg.1_5'Flank|CTSA_uc002xqh.2_Missense_Mutation_p.Y229C|CTSA_uc002xqi.2_RNA|CTSA_uc010zxi.1_Missense_Mutation_p.Y212C|CTSA_uc002xqk.3_Missense_Mutation_p.Y211C	NM_001127695	NP_001121167	P10619	PPGB_HUMAN	cathepsin A isoform b precursor	211					intracellular protein transport|proteolysis	endoplasmic reticulum|lysosome|nucleus	enzyme activator activity|protein binding|serine-type carboxypeptidase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CTCTCCTCCTATGAGCAGAAT	0.567													3	113					0	0	0.004672	0	0		G	44521890	G	G	44521890	3	3	44	1	0	0	0	0	1	0	0	0	4032	449	16	3	712	3	CTSA	20	44521890	Missense_Mutation	SNP	A	TCGA-BR-6803-01A-11D-1882-08		44521890	18503630	19	34376											
NRIP1	8204	broad.mit.edu	37	chr21	16339654	16339654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcttgatttgcattttgcGtttttaaagcgtgttctcga	6	19	9	7	3	1	1	0	1	1	0	2	2	1	1	0	0	4	4	0	0	2	8	rs150993445		TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr21:16339654G>A	uc002yjx.2	-	4	1458	c.860C>T	c.(859-861)ACG>ATG	p.T287M		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	287	Repression domain 1.				androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		TGCATTTTGCGTTTTTAAAGC	0.458													12	68					0	0	0.001368	0	0		A	16339654	A	A	16339654	3	1	44	1	0	0	0	0	1	0	0	0	10671	1145	40	1	2620	1	NRIP1	21	16339654	Missense_Mutation	SNP	G	TCGA-BR-6803-01A-11D-1882-08		16339654	31790241	20	34377											
C22orf33	339669	broad.mit.edu	37	chr22	37395899	37395899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctcgaaacaagtttgaccGcatgttgtagccgaggtcat	11	10	10	10	3	1	1	1	1	0	0	2	3	1	1	3	1	2	4	3	1	3	3			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chr22:37395899G>A	uc003aqf.2	-	4	762	c.616C>T	c.(616-618)CGG>TGG	p.R206W	C22orf33_uc003aqe.2_Missense_Mutation_p.R121W	NM_001163857	NP_001157329	O43247	EAN57_HUMAN	hypothetical protein LOC339669 isoform 1	206											0						AAGTTTGACCGCATGTTGTAG	0.567													4	122					0	0	0.009096	0	0		A	37395899	A	A	37395899	3	1	44	1	0	0	0	0	1	0	0	0	2148	1086	38	1	238	1	C22orf33	22	37395899	Missense_Mutation	SNP	G	TCGA-BR-6803-01A-11D-1882-08		37395899	13908667	21	34378											
MAGEB1	4112	broad.mit.edu	37	chrX	30269600	30269600	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgtcgcactactgccacGacttttagagcgcgttctag	8	10	11	12	5	1	1	0	0	1	1	2	2	1	1	1	1	3	2	1	1	3	5			TCGA-BR-6803-01A-11D-1882-08	TCGA-BR-6803-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2275270e-2d72-4999-9b99-b5c2269ac152	d0480e71-0454-44a5-936e-632da9b69470	g.chrX:30269600G>T	uc004dcc.2	+	4	1310	c.990G>T	c.(988-990)ACG>ACT	p.T330T	MAGEB1_uc004dcd.2_Silent_p.T330T|MAGEB1_uc004dce.2_Silent_p.T330T	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	330											0						CTACTGCCACGACTTTTAGAG	0.527													16	111					2.48551e-13	3.72826e-13	0.00499	1	0		T	30269600	T	T	30269600	2	4	44	1	0	0	0	0	0	0	0	1	9190	1045	37	5		5	MAGEB1	23	30269600	Silent	SNP	G	TCGA-BR-6803-01A-11D-1882-08		30269600	125000960	22	34379											
SAMD11	148398	broad.mit.edu	37	chr1	879452	879452	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggggccacgcccttgcCggtcaaacttcacccaagca	9	5	12	15	2	2	0	2	0	0	0	2	1	2	1	4	4	3	1	4	4	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:879452C>T	uc001abw.1	+	14	2045	c.1965C>T	c.(1963-1965)GCC>GCT	p.A655A	SAMD11_uc001abx.1_Silent_p.A518A	NM_152486	NP_689699	Q96NU1	SAM11_HUMAN	sterile alpha motif domain containing 11	655						nucleus					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.74e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.93e-23)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000472)|Kidney(185;0.0023)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.199)		ACGCCCTTGCCGGTCAAACTT	0.672													30	124					0	0	0.010818	0	0		T	879452	T	T	879452	2	4	45	1	0	0	0	0	0	0	0	1	13841	639	23	1		1	SAMD11	1	879452	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08		879452	248371169	1	34380											
AGRN	375790	broad.mit.edu	37	chr1	980635	980635	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatcaccgcagcccggggCgtgggcctggctggctgccc	5	6	15	15	3	1	0	1	0	0	0	1	0	1	0	4	5	2	3	4	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:980635C>T	uc001ack.1	+	13	2399	c.2349C>T	c.(2347-2349)GGC>GGT	p.G783G		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	783					axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		CAGCCCGGGGCGTGGGCCTGG	0.711													3	16					0	0	0.004672	0	0		T	980635	T	T	980635	2	4	45	1	0	0	0	0	0	0	0	1	397	755	27	1		1	AGRN	1	980635	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	101183	980635	248269986	2	34381											
ATAD3C	219293	broad.mit.edu	37	chr1	1397981	1397981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggaactccttccccaggCgtctgaagctggcccagttt	6	11	11	13	1	1	1	0	1	1	0	3	2	3	2	4	3	2	2	4	3	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:1397981C>T	uc001aft.2	+	11	1977	c.982C>T	c.(982-984)CGT>TGT	p.R328C		NM_001039211	NP_001034300	Q5T2N8	ATD3C_HUMAN	ATPase family, AAA domain containing 3C	328							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		CTTCCCCAGGCGTCTGAAGCT	0.637													3	20					0	0	0.009096	0	0		T	1397981	T	T	1397981	3	4	45	1	0	0	0	0	1	0	0	0	1076	782	27	1	1024	1	ATAD3C	1	1397981	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	417346	1397981	247852640	3	34382											
PRDM16	63976	broad.mit.edu	37	chr1	3322154	3322154	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgcgggaagaccttcgcCacgtcctccggcctcaagca	8	6	11	16	4	1	1	1	0	0	1	4	3	3	2	5	2	2	1	5	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:3322154C>T	uc001akf.2	+	8	1208	c.1128C>T	c.(1126-1128)GCC>GCT	p.A376A	PRDM16_uc001akc.2_Silent_p.A376A|PRDM16_uc001akd.2_Silent_p.A376A|PRDM16_uc001ake.2_Silent_p.A376A|PRDM16_uc009vlh.2_Silent_p.A77A	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	376	C2H2-type 5.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		AGACCTTCGCCACGTCCTCCG	0.677			T	EVI1	MDS|AML								14	53					0	0	0.003163	0	0		T	3322154	T	T	3322154	2	4	45	1	0	0	0	0	0	0	0	1	12479	581	21	4		4	PRDM16	1	3322154	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1924173	3322154	245928467	4	34383											
GPR153	387509	broad.mit.edu	37	chr1	6314182	6314182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatacccatgactgtgtgcaCcgcctgcttcttggcattgc	6	12	10	13	1	1	1	0	1	1	0	1	2	1	1	3	1	4	3	3	1	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:6314182C>T	uc001amp.1	-	3	642	c.382G>A	c.(382-384)GTG>ATG	p.V128M		NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	128	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		ACTGTGTGCACCGCCTGCTTC	0.632													14	64					0	0	0.00245	0	0		T	6314182	T	T	6314182	3	4	45	1	0	0	0	0	1	0	0	0	6674	507	18	4	1463	4	GPR153	1	6314182	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2992028	6314182	242936439	5	34384											
RERE	473	broad.mit.edu	37	chr1	8419854	8419854	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcctcgcgctcccgctcTcgctcccgctcccgctcctt	0	11	7	23	6	2	0	0	0	2	0	8	0	6	0	5	0	1	5	5	0	0	1	rs149634880	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:8419854T>C	uc001ape.2	-	20	4398	c.3588A>G	c.(3586-3588)CGA>CGG	p.R1196R	RERE_uc001apf.2_Silent_p.R1196R|RERE_uc001apd.2_Silent_p.R642R	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1196	Arg/Glu-rich (mixed charge).|Potential.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		gctcccgctctcgctcccgct	0.537													8	35					0	0	0.004482	0	0		C	8419854	C	C	8419854	2	2	45	1	0	0	0	0	0	0	0	1	13256	1538	54	3		3	RERE	1	8419854	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2105672	8419854	240830767	6	34385											
TMEM201	199953	broad.mit.edu	37	chr1	9655959	9655959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtccacaggatgaagccaaCgcacacgatggtcaactgct	12	6	11	12	2	1	1	1	1	0	0	2	3	2	2	2	3	4	2	2	3	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:9655959C>T	uc001apz.2	+	2	137	c.125C>T	c.(124-126)ACG>ATG	p.T42M	TMEM201_uc001apy.2_Missense_Mutation_p.T42M	NM_001130924	NP_001124396	Q5SNT2	TM201_HUMAN	transmembrane protein 201 isoform 1	42						integral to membrane|nuclear inner membrane					0	all_lung(157;0.222)	all_epithelial(116;2.09e-14)|Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|STAD - Stomach adenocarcinoma(132;0.00345)|READ - Rectum adenocarcinoma(331;0.0419)		ATGAAGCCAACGCACACGATG	0.627													5	31					0	0	0.000602	0	0		T	9655959	T	T	9655959	3	4	45	1	0	0	0	0	1	0	0	0	16151	536	19	1	131	1	TMEM201	1	9655959	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1236105	9655959	239594662	7	34386											
MTOR	2475	broad.mit.edu	37	chr1	11184566	11184566	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tctgaatacctgaggtttttCcgaagagatgttgggtcatt	9	15	11	6	1	2	3	1	2	1	1	3	5	3	3	2	2	1	2	2	2	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:11184566C>G	uc001asd.2	-	47	6772	c.6651G>C	c.(6649-6651)CGG>CGC	p.R2217R	MTOR_uc001asc.2_Silent_p.R422R	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	2217	PI3K/PI4K.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TGAGGTTTTTCCGAAGAGATG	0.433													10	53					0	0	0.001855	0	0		G	11184566	G	G	11184566	2	3	45	1	0	0	0	0	0	0	0	1	9972	842	30	5		5	MTOR	1	11184566	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1528607	11184566	238066055	8	34387											
MFN2	9927	broad.mit.edu	37	chr1	12052744	12052744	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catgaaagtggctttttttgGccggtaagtccttgaggcac	8	13	12	8	1	0	2	0	2	0	0	1	2	1	2	2	4	0	3	2	4	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:12052744G>T	uc001atn.3	+	4	761	c.308G>T	c.(307-309)GGC>GTC	p.G103V	MFN2_uc009vni.2_Missense_Mutation_p.G103V	NM_014874	NP_055689	O95140	MFN2_HUMAN	mitofusin 2	103	Cytoplasmic (Potential).|GTP (Probable).				blood coagulation|mitochondrial fusion|mitochondrial membrane organization|mitochondrion localization|negative regulation of Ras protein signal transduction|negative regulation of smooth muscle cell proliferation|protein targeting to mitochondrion	cytosol|integral to membrane|intrinsic to mitochondrial outer membrane	GTP binding|GTPase activity|ubiquitin protein ligase binding			ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.25e-06)|COAD - Colon adenocarcinoma(227;0.000302)|BRCA - Breast invasive adenocarcinoma(304;0.000329)|Kidney(185;0.000896)|KIRC - Kidney renal clear cell carcinoma(229;0.00274)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		GCTTTTTTTGGCCGGTAAGTC	0.532													32	184					6.00712e-18	6.86388e-18	0.012213	1	0		T	12052744	T	T	12052744	3	4	45	1	0	0	0	0	1	0	0	0	9542	1203	42	5	314	5	MFN2	1	12052744	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	868178	12052744	237197877	9	34388											
VPS13D	55187	broad.mit.edu	37	chr1	12328778	12328778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttagctgcagatccagatgGccccgtttttgagatgctgt	7	14	11	9	1	0	3	0	1	0	3	1	4	1	3	3	1	3	4	3	1	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:12328778G>A	uc001atv.2	+	16	1958	c.1817G>A	c.(1816-1818)GGC>GAC	p.G606D	VPS13D_uc001atw.2_Missense_Mutation_p.G606D	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	606					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		GATCCAGATGGCCCCGTTTTT	0.463													47	302					0	0	0.01441	0	0		A	12328778	A	A	12328778	3	1	45	1	0	0	0	0	1	0	0	0	17218	1203	42	2	1875	2	VPS13D	1	12328778	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	276034	12328778	236921843	10	34389											
KAZ	23254	broad.mit.edu	37	chr1	15370596	15370596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaccacgccacggcactgCgctcccagctggacctcaag	9	4	10	18	3	1	1	1	0	0	1	2	2	2	2	4	2	2	3	4	2	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:15370596C>T	uc001avm.3	+	4	948	c.667C>T	c.(667-669)CGC>TGC	p.R223C	KAZ_uc009vog.1_Missense_Mutation_p.R223C|KAZ_uc010obj.1_Missense_Mutation_p.R223C|KAZ_uc001avo.2_Missense_Mutation_p.R217C|KAZ_uc001avp.2_Missense_Mutation_p.R129C|KAZ_uc001avq.2_Missense_Mutation_p.R129C|KAZ_uc001avr.2_Missense_Mutation_p.R126C	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	223	Interaction with PPL.|Potential.				keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						CACGGCACTGCGCTCCCAGCT	0.657													24	57					0	0	0.003954	0	0		T	15370596	T	T	15370596	3	4	45	1	0	0	0	0	1	0	0	0	8004	768	27	1	893	1	KAZ	1	15370596	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3041818	15370596	233880025	11	34390											
FBLIM1	54751	broad.mit.edu	37	chr1	16091512	16091512	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagaagagggtggcatcgTctgtctttatcaccctggca	8	11	12	10	1	3	2	1	1	2	2	4	3	3	2	1	3	0	2	1	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:16091512T>C	uc001axd.1	+	4	477	c.34T>C	c.(34-36)TCT>CCT	p.S12P	FBLIM1_uc001axe.1_Missense_Mutation_p.S12P|FBLIM1_uc001axf.2_RNA|FBLIM1_uc001axg.1_Missense_Mutation_p.S12P|FBLIM1_uc001axh.1_Missense_Mutation_p.S12P|FBLIM1_uc001axi.1_Missense_Mutation_p.S12P	NM_017556	NP_060026	Q8WUP2	FBLI1_HUMAN	filamin-binding LIM protein-1 isoform a	12	Filamin-binding.				cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytoskeleton|cytosol|focal adhesion|intracellular membrane-bounded organelle	zinc ion binding			skin(1)	1		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.56e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|READ - Rectum adenocarcinoma(331;0.0649)|STAD - Stomach adenocarcinoma(313;0.138)		GGTGGCATCGTCTGTCTTTAT	0.647													9	175					0	0	0.004482	0	0		C	16091512	C	C	16091512	3	2	45	1	0	0	0	0	1	0	0	0	5711	1667	58	3	36	3	FBLIM1	1	16091512	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	720916	16091512	233159109	12	34391											
SPEN	23013	broad.mit.edu	37	chr1	16265849	16265849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgagagtcacctgtcccGcctggcccctgacctccttg	4	10	9	18	1	2	2	1	2	1	1	4	3	4	2	7	1	0	0	7	1	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:16265849G>A	uc001axk.1	+	15	11126	c.10922G>A	c.(10921-10923)CGC>CAC	p.R3641H	SPEN_uc010obp.1_Missense_Mutation_p.R3600H	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	3641	SPOC.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CACCTGTCCCGCCTGGCCCCT	0.567													57	214					0	0	0.01441	0	0		A	16265849	A	A	16265849	3	1	45	1	0	0	0	0	1	0	0	0	15063	1087	38	1	10980	1	SPEN	1	16265849	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	174337	16265849	232984772	13	34392											
ARHGEF10L	55160	broad.mit.edu	37	chr1	18014124	18014124	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgacacacatggtgaaggcGggcagcggcgtctggatggc	8	6	18	9	3	1	2	0	2	1	0	1	3	1	3	0	6	1	1	0	6	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:18014124G>A	uc001ban.2	+	27	3225	c.3066G>A	c.(3064-3066)GCG>GCA	p.A1022A	ARHGEF10L_uc009vpe.1_Silent_p.A983A|ARHGEF10L_uc001bao.2_Silent_p.A983A|ARHGEF10L_uc001bap.2_Silent_p.A978A|ARHGEF10L_uc001baq.2_Silent_p.A783A|ARHGEF10L_uc010ocs.1_Silent_p.A795A|ARHGEF10L_uc001bar.2_Silent_p.A725A|ARHGEF10L_uc009vpf.2_RNA	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	1022					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		TGGTGAAGGCGGGCAGCGGCG	0.617													17	59					0	0	0.008871	0	0		A	18014124	A	A	18014124	2	1	45	1	0	0	0	0	0	0	0	1	895	1103	39	1		1	ARHGEF10L	1	18014124	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1748275	18014124	231236497	14	34393											
PAX7	5081	broad.mit.edu	37	chr1	19062291	19062291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acagcctgcccacctcccagGcctactgcccacccacctac	8	5	5	23	0	0	0	0	0	0	0	1	0	1	0	8	1	5	0	8	1	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:19062291G>A	uc001bay.2	+	8	1919	c.1321G>A	c.(1321-1323)GCC>ACC	p.A441T	PAX7_uc001baz.2_Missense_Mutation_p.A439T|PAX7_uc010oct.1_Missense_Mutation_p.A441T	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	441					anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		CACCTCCCAGGCCTACTGCCC	0.687			T	FOXO1A	alveolar rhabdomyosarcoma								5	150					0	0	0.000602	0	0		A	19062291	A	A	19062291	3	1	45	1	0	0	0	0	1	0	0	0	11503	1203	42	2	1351	2	PAX7	1	19062291	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1048167	19062291	230188330	15	34394											
UBR4	23352	broad.mit.edu	37	chr1	19404515	19404515	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgagggcccaaaagagaagGgaagaacggtaagcggaata	18	2	15	6	3	0	2	0	0	0	2	0	6	0	4	1	4	2	1	1	4	8	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:19404515G>A	uc001bbi.2	-	104	15283	c.15279C>T	c.(15277-15279)TCC>TCT	p.S5093S	UBR4_uc001bbe.1_5'Flank|UBR4_uc001bbf.2_5'UTR|UBR4_uc010ocv.1_Silent_p.S616S|UBR4_uc009vph.2_Silent_p.S727S|UBR4_uc010ocw.1_Silent_p.S757S|UBR4_uc001bbg.2_Silent_p.S804S|UBR4_uc001bbh.2_Silent_p.S802S	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	5093					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		AAAAGAGAAGGGAAGAACGGT	0.468													9	38					0	0	0.006214	0	0		A	19404515	A	A	19404515	2	1	45	1	0	0	0	0	0	0	0	1	16930	1219	43	4		4	UBR4	1	19404515	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	342224	19404515	229846106	16	34395											
KIF17	57576	broad.mit.edu	37	chr1	20998683	20998683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttgatctccacctctgctgCccgaagctgaaagcaaagga	11	9	9	12	1	2	2	0	2	2	0	3	4	2	3	3	1	4	3	3	1	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:20998683C>T	uc001bdr.3	-	12	2588	c.2470G>A	c.(2470-2472)GCA>ACA	p.A824T	KIF17_uc001bdp.3_Missense_Mutation_p.A102T|KIF17_uc001bdq.3_Missense_Mutation_p.A102T|KIF17_uc009vpx.2_Missense_Mutation_p.A194T|KIF17_uc001bds.3_Missense_Mutation_p.A824T	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	824	Potential.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		ACCTCTGCTGCCCGAAGCTGA	0.557													6	46					0	0	0.00308	0	0		T	20998683	T	T	20998683	3	4	45	1	0	0	0	0	1	0	0	0	8295	739	26	2	635	2	KIF17	1	20998683	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1594168	20998683	228251938	17	34396											
RAP1GAP	5909	broad.mit.edu	37	chr1	21929337	21929337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgttctcgatgccaatggCgctgctgcggcgggagccga	6	9	15	11	5	1	0	0	0	1	0	2	3	1	1	2	3	4	3	2	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:21929337C>T	uc001bex.2	-	19	1756	c.1498G>A	c.(1498-1500)GCC>ACC	p.A500T	RAP1GAP_uc001bev.2_Missense_Mutation_p.A585T|RAP1GAP_uc001bew.2_Missense_Mutation_p.A564T|RAP1GAP_uc001bey.2_Missense_Mutation_p.A526T	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	500					regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		ATGCCAATGGCGCTGCTGCGG	0.642													5	67					0	0	0.001984	0	0		T	21929337	T	T	21929337	3	4	45	1	0	0	0	0	1	0	0	0	13062	768	27	1	517	1	RAP1GAP	1	21929337	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	930654	21929337	227321284	18	34397											
GRHL3	57822	broad.mit.edu	37	chr1	24663276	24663276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggggtgccgcccacacagCgctggcagccagacagcacc	9	3	13	16	2	0	1	0	0	0	1	0	1	0	1	4	3	4	3	4	3	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:24663276C>T	uc001biy.2	+	4	632	c.586C>T	c.(586-588)CGC>TGC	p.R196C	GRHL3_uc001bix.2_Missense_Mutation_p.R191C|GRHL3_uc001biz.2_Missense_Mutation_p.R98C	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	191					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		GCCCACACAGCGCTGGCAGCC	0.537													23	118					0	0	0.00278	0	0		T	24663276	T	T	24663276	3	4	45	1	0	0	0	0	1	0	0	0	6781	768	27	1	621	1	GRHL3	1	24663276	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2733939	24663276	224587345	19	34398											
SRRM1	10250	broad.mit.edu	37	chr1	24995891	24995891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caagccgctctacccgggagGcccgatcaccacaaccaaac	12	3	8	18	3	2	0	1	0	1	0	2	2	2	1	5	2	4	1	5	2	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:24995891G>A	uc001bjm.2	+	14	2241	c.2017G>A	c.(2017-2019)GCC>ACC	p.A673T	SRRM1_uc010oel.1_Missense_Mutation_p.A685T|SRRM1_uc009vrh.1_Missense_Mutation_p.A646T|SRRM1_uc009vri.1_Missense_Mutation_p.A602T	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	673	Pro-rich.|Necessary for speckles and matrix localization.|Arg-rich.|Ser-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		TACCCGGGAGGCCCGATCACC	0.572													7	46					0	0	0.00308	0	0		A	24995891	A	A	24995891	3	1	45	1	0	0	0	0	1	0	0	0	15193	1203	42	2	2071	2	SRRM1	1	24995891	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	332615	24995891	224254730	20	34399											
SLC9A1	6548	broad.mit.edu	37	chr1	27436018	27436018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgcacgcagactcacGccatgatgcctgacaggtgg	8	7	12	14	2	1	3	1	2	0	1	1	3	1	3	3	2	3	3	3	2	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:27436018G>A	uc001bnm.2	-	3	1690	c.1064C>T	c.(1063-1065)GCG>GTG	p.A355V	SLC9A1_uc010ofk.1_Missense_Mutation_p.A16V|SLC9A1_uc001bnn.2_Missense_Mutation_p.A355V	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	355	Helical; Name=M9; (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	GCAGACTCACGCCATGATGCC	0.637													26	96					0	0	0.004656	0	0		A	27436018	A	A	27436018	3	1	45	1	0	0	0	0	1	0	0	0	14734	1101	38	1	1423	1	SLC9A1	1	27436018	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2440127	27436018	221814603	21	34400											
WDTC1	23038	broad.mit.edu	37	chr1	27614178	27614178	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatagttcctgcctcacgCtggggaccgcatcttgatca	8	12	9	12	2	3	1	2	1	1	0	4	2	4	2	3	2	1	3	3	2	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:27614178C>G	uc009vst.2	+	6	840	c.305C>G	c.(304-306)GCT>GGT	p.A102G	WDTC1_uc001bno.2_Missense_Mutation_p.A102G|WDTC1_uc001bnp.1_RNA	NM_015023	NP_055838	Q8N5D0	WDTC1_HUMAN	WD and tetratricopeptide repeats 1	102	WD 2.						protein binding			ovary(1)|central_nervous_system(1)	2		all_cancers(24;3.12e-19)|all_epithelial(13;4.18e-18)|Colorectal(325;0.000147)|all_lung(284;0.000366)|Lung NSC(340;0.000548)|Renal(390;0.00211)|Breast(348;0.00257)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0443)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;1.02e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00201)|STAD - Stomach adenocarcinoma(196;0.00321)|READ - Rectum adenocarcinoma(331;0.0476)		CTGCCTCACGCTGGGGACCGC	0.542													4	31					0	0	0.000602	0	0		G	27614178	G	G	27614178	3	3	45	1	0	0	0	0	1	0	0	0	17368	797	28	5	323	5	WDTC1	1	27614178	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	178160	27614178	221636443	22	34401											
RNF19B	127544	broad.mit.edu	37	chr1	33402626	33402626	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcactgcggatgctttcAggctgggccaggctgatgtc	6	10	15	10	1	2	1	2	1	0	0	3	2	2	2	1	5	2	3	1	5	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:33402626A>G	uc010oho.1	-	9	1980	c.1980T>C	c.(1978-1980)CCT>CCC	p.P660P	RNF19B_uc001bwm.3_3'UTR|RNF19B_uc010ohp.1_Silent_p.P659P	NM_153341	NP_699172	Q6ZMZ0	RN19B_HUMAN	ring finger protein 19B isoform a	660						integral to membrane	ligase activity|protein binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				GGATGCTTTCAGGCTGGGCCA	0.582													10	126					0	0	0.008291	0	0		G	33402626	G	G	33402626	2	3	45	1	0	0	0	0	0	0	0	1	13496	175	7	3		3	RNF19B	1	33402626	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	5788448	33402626	215847995	23	34402											
CSMD2	114784	broad.mit.edu	37	chr1	34076667	34076667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actccagcttgaatcctggcCgattctgggagtggtcgctg	6	11	13	11	2	1	1	0	1	1	0	4	3	3	2	3	3	1	2	3	3	1	2	rs142970674	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:34076667C>T	uc001bxn.1	-	41	6226	c.6197G>A	c.(6196-6198)CGG>CAG	p.R2066Q	CSMD2_uc001bxm.1_Missense_Mutation_p.R2106Q|CSMD2_uc001bxo.1_Missense_Mutation_p.R979Q	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2066	CUB 12.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GAATCCTGGCCGATTCTGGGA	0.572													7	54					0	0	0.006214	0	0		T	34076667	T	T	34076667	3	4	45	1	0	0	0	0	1	0	0	0	3948	652	23	1	4382	1	CSMD2	1	34076667	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	674041	34076667	215173954	24	34403											
TFAP2E	339488	broad.mit.edu	37	chr1	36040586	36040586	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgagcctcctagaccagTccgtgatcaagaaaggtaag	14	7	11	9	1	1	4	1	2	0	2	3	5	3	4	4	1	1	1	4	1	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:36040586T>A	uc010ohy.1	+	3	755	c.547T>A	c.(547-549)TCC>ACC	p.S183T	PSMB2_uc001bzd.1_Intron	NM_178548	NP_848643	Q6VUC0	AP2E_HUMAN	transcription factor AP-2 epsilon (activating	183						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.196)				CCTAGACCAGTCCGTGATCAA	0.592													25	97					0	0	0.00632	0	0		A	36040586	A	A	36040586	3	1	45	1	0	0	0	0	1	0	0	0	15816	1667	58	5	557	5	TFAP2E	1	36040586	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1963919	36040586	213210035	25	34404											
OSCP1	127700	broad.mit.edu	37	chr1	36915870	36915870	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctctcacctttgcgggccTtgtctcccgggatgttctgg	2	13	12	14	2	3	0	1	0	3	0	5	1	3	1	4	3	1	1	4	3	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:36915870T>G	uc001cap.2	-	1	183	c.101A>C	c.(100-102)AAG>ACG	p.K34T	OSCP1_uc001caq.2_Missense_Mutation_p.K34T|OSCP1_uc001car.2_Missense_Mutation_p.K34T	NM_145047	NP_659484	Q8WVF1	OSCP1_HUMAN	oxidored-nitro domain-containing protein isoform	34					transport	basal plasma membrane				ovary(2)|central_nervous_system(1)|pancreas(1)	4						TTTGCGGGCCTTGTCTCCCGG	0.662											OREG0013369	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	65					0	0	0.004482	0	0		G	36915870	G	G	36915870	3	3	45	1	0	0	0	0	1	0	0	0	11305	1609	56	5	1238	5	OSCP1	1	36915870	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	875284	36915870	212334751	26	34405											
RHBDL2	54933	broad.mit.edu	37	chr1	39358878	39358878	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctgaaaattccaaaggcagGaatcatttcttgaaaattct	15	13	6	7	0	4	2	1	2	3	0	5	3	5	3	1	2	0	1	1	2	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:39358878G>T	uc001ccu.1	-	6	856	c.628C>A	c.(628-630)CCT>ACT	p.P210T	RHBDL2_uc010oin.1_Missense_Mutation_p.P210T|RHBDL2_uc010oio.1_Missense_Mutation_p.P290T	NM_017821	NP_060291	Q9NX52	RHBL2_HUMAN	rhomboid protease 2	210					proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity				0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			CCAAAGGCAGGAATCATTTCT	0.274													5	34					3.59834e-05	3.79599e-05	0.001168	1	0		T	39358878	T	T	39358878	3	4	45	1	0	0	0	0	1	0	0	0	13347	1174	41	5	295	5	RHBDL2	1	39358878	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2443008	39358878	209891743	27	34406											
MACF1	23499	broad.mit.edu	37	chr1	39785384	39785385	+	Frame_Shift_Ins	INS	-	A	A																															gacaaaactggatcaatgtcINSaaaaattttcccagcagtac																								rs146466275		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:39785384_39785385insA	uc010ois.1	+	32	4214_4215	c.4009_4010insA	c.(4009-4011)CAAfs	p.Q1337fs	MACF1_uc001cda.1_Frame_Shift_Ins_p.Q1245fs|MACF1_uc001cdc.1_Frame_Shift_Ins_p.Q424fs|MACF1_uc009vvq.1_Frame_Shift_Ins_p.Q394fs|MACF1_uc001cdb.1_Frame_Shift_Ins_p.Q424fs	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1337					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GGATCAATGTCAAAAATTTTCC	0.366													20	43	---	---	---	---						.	A	39785385	A	A	39785384	7	5	45	1	0	1	1	0	0	0	0	0	9162	827	29	0	4127	0	MACF1	1	39785384	Frame_Shift_Ins	INS	-	TCGA-BR-6852-01A-11D-1882-08	426506	39785384	209465237	28	34407											
MACF1	23499	broad.mit.edu	37	chr1	39823348	39823348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcataagggaggcagcaGccccgagacccttccctccc	9	5	10	17	1	0	1	0	0	0	1	2	3	2	2	5	2	3	3	5	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:39823348G>A	uc010oiu.1	+	9	7177	c.7046G>A	c.(7045-7047)AGC>AAC	p.S2349N	MACF1_uc010ois.1_Missense_Mutation_p.S1847N|MACF1_uc001cda.1_Missense_Mutation_p.S1755N|MACF1_uc001cdc.1_Missense_Mutation_p.S934N|MACF1_uc001cdb.1_Missense_Mutation_p.S934N	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3914	Spectrin 1.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GGAGGCAGCAGCCCCGAGACC	0.493													15	64					0	0	0.00245	0	0		A	39823348	A	A	39823348	3	1	45	1	0	0	0	0	1	0	0	0	9162	971	34	2	11849	2	MACF1	1	39823348	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	37964	39823348	209427273	29	34408											
MACF1	23499	broad.mit.edu	37	chr1	39919406	39919406	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagaaagtagaagaaaagCgagtggacgttaactcagca	18	6	12	5	2	1	4	1	1	0	3	1	6	1	5	0	1	3	3	0	1	7	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:39919406C>T	uc010oiu.1	+	53	16230	c.16099C>T	c.(16099-16101)CGA>TGA	p.R5367*	MACF1_uc010ois.1_Nonsense_Mutation_p.R4865*	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AGAAGAAAAGCGAGTGGACGT	0.428													47	158					0	0	0.01441	0	0		T	39919406	T	T	39919406	4	4	45	1	0	0	0	0	0	1	0	0	9162	760	27	1	21078	1	MACF1	1	39919406	Nonsense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	96058	39919406	209331215	30	34409											
DEM1	64789	broad.mit.edu	37	chr1	40980785	40980785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctgcactatacagccaaggGggaactggagctggcggaac	11	5	15	10	1	0	0	0	0	0	0	0	3	0	3	1	5	6	3	1	5	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:40980785G>A	uc001cfp.2	+	3	774	c.569G>A	c.(568-570)GGG>GAG	p.G190E	DEM1_uc001cfq.2_Missense_Mutation_p.G190E|DEM1_uc001cfr.2_Missense_Mutation_p.G190E|DEM1_uc001cfs.2_Missense_Mutation_p.G190E	NM_022774	NP_073611	Q9H790	EXO5_HUMAN	defects in morphology 1 homolog	190							DNA binding|exonuclease activity				0						ACAGCCAAGGGGGAACTGGAG	0.507													21	106					0	0	0.014323	0	0		A	40980785	A	A	40980785	3	1	45	1	0	0	0	0	1	0	0	0	4431	1232	43	4	571	4	DEM1	1	40980785	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1061379	40980785	208269836	31	34410											
HIVEP3	59269	broad.mit.edu	37	chr1	41979370	41979370	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaactggtgctcctccacaGcctctgaaccctctcgtcct	8	10	6	17	1	2	1	0	1	2	0	6	1	5	1	5	1	4	1	5	1	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:41979370G>T	uc001cgz.3	-	8	6735	c.5522C>A	c.(5521-5523)GCT>GAT	p.A1841D	HIVEP3_uc001cha.3_Missense_Mutation_p.A1841D|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1841	Acidic 3.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CTCCTCCACAGCCTCTGAACC	0.587													11	31					1.61879e-10	1.7998e-10	0.013537	1	0		T	41979370	T	T	41979370	3	4	45	1	0	0	0	0	1	0	0	0	7204	971	34	5	1706	5	HIVEP3	1	41979370	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	998585	41979370	207271251	32	34411											
ST3GAL3	6487	broad.mit.edu	37	chr1	44303981	44303981	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgatgacggccatcttcccCcggtaagtgctcctgtttcc	5	13	9	14	2	1	2	0	2	1	0	4	2	4	2	5	2	1	3	5	2	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:44303981C>T	uc001ckc.2	+	5	477	c.300C>T	c.(298-300)CCC>CCT	p.P100P	ST3GAL3_uc009vwu.1_RNA|ST3GAL3_uc010okj.1_RNA|ST3GAL3_uc001cjz.2_Silent_p.P115P|ST3GAL3_uc001cka.2_Silent_p.P84P|ST3GAL3_uc001ckb.2_Silent_p.P169P|ST3GAL3_uc001ckd.2_Silent_p.P154P|ST3GAL3_uc001cke.2_Silent_p.P84P|ST3GAL3_uc001ckf.2_Silent_p.P138P|ST3GAL3_uc001ckg.2_Silent_p.P100P|ST3GAL3_uc001ckh.2_Silent_p.P115P|ST3GAL3_uc001cki.2_Silent_p.P100P|ST3GAL3_uc009vwv.2_Silent_p.P100P|ST3GAL3_uc001ckj.2_RNA|ST3GAL3_uc009vww.2_RNA|ST3GAL3_uc001ckk.2_Intron|ST3GAL3_uc009vwy.2_Silent_p.P6P|ST3GAL3_uc009vwx.2_RNA|ST3GAL3_uc001ckm.2_Silent_p.P99P|ST3GAL3_uc001ckl.2_Silent_p.P100P|ST3GAL3_uc009vwz.2_5'UTR|ST3GAL3_uc001ckn.2_RNA|ST3GAL3_uc001ckp.2_Silent_p.P99P|ST3GAL3_uc001cko.2_Silent_p.P84P|ST3GAL3_uc009vxa.2_Intron|ST3GAL3_uc001ckq.2_Silent_p.P84P|ST3GAL3_uc001ckr.2_Intron|ST3GAL3_uc009vxb.2_Silent_p.P84P	NM_006279	NP_006270	Q11203	SIAT6_HUMAN	sialyltransferase 6 isoform j	100	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	N-acetyllactosaminide alpha-2,3-sialyltransferase activity			ovary(3)	3	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0518)				CCATCTTCCCCCGGTAAGTGC	0.547													6	184					0	0	0.001168	0	0		T	44303981	T	T	44303981	2	4	45	1	0	0	0	0	0	0	0	1	15241	610	22	4		4	ST3GAL3	1	44303981	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2324611	44303981	204946640	33	34412											
POMGNT1	55624	broad.mit.edu	37	chr1	46661685	46661685	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacccctagaaactcaccGtggcctggttgaggacaatg	10	7	10	14	1	1	2	1	1	0	1	1	3	1	3	5	3	1	1	5	3	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:46661685G>A	uc001cpe.2	-	5	583	c.419C>T	c.(418-420)ACG>ATG	p.T140M	POMGNT1_uc010olx.1_Missense_Mutation_p.T118M|POMGNT1_uc010oly.1_RNA|POMGNT1_uc010olz.1_Translation_Start_Site|POMGNT1_uc001cpg.2_Missense_Mutation_p.T140M|POMGNT1_uc001cpf.2_Translation_Start_Site|POMGNT1_uc001cpj.2_Missense_Mutation_p.T124M	NM_017739	NP_060209	Q8WZA1	PMGT1_HUMAN	O-linked mannose	140	Lumenal (Potential).				protein N-linked glycosylation|protein O-linked glycosylation	Golgi membrane|integral to membrane|microsome	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GAAACTCACCGTGGCCTGGTT	0.592													15	65					0	0	0.003163	0	0		A	46661685	A	A	46661685	3	1	45	1	0	0	0	0	1	0	0	0	12262	1159	40	1	1635	1	POMGNT1	1	46661685	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2357704	46661685	202588936	34	34413											
CYP4A11	1579	broad.mit.edu	37	chr1	47401267	47401267	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggtcatcaaggagacgTgctgaaagacctccagaggg	12	5	14	10	1	2	4	2	1	0	3	3	5	3	4	3	3	1	1	3	3	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:47401267T>C	uc001cqp.3	-	5	614	c.563A>G	c.(562-564)CAC>CGC	p.H188R	CYP4A11_uc001cqq.2_Missense_Mutation_p.H188R|CYP4A11_uc010omm.1_RNA	NM_000778	NP_000769	Q02928	CP4AB_HUMAN	cytochrome P450, family 4, subfamily A,	188					long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|oxygen binding			ovary(2)|skin(2)	4					NADH(DB00157)	CAAGGAGACGTGCTGAAAGAC	0.562													14	51					0	0	0.006122	0	0		C	47401267	C	C	47401267	3	2	45	1	0	0	0	0	1	0	0	0	4186	1696	59	3	1028	3	CYP4A11	1	47401267	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	739582	47401267	201849354	35	34414											
CYP4X1	260293	broad.mit.edu	37	chr1	47512186	47512186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaatgtgcatcaaggagaCgtgccgattgattcctgcag	11	9	11	10	2	1	2	1	1	0	1	2	4	2	2	2	1	3	2	2	1	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:47512186C>T	uc001cqt.2	+	9	1371	c.1121C>T	c.(1120-1122)ACG>ATG	p.T374M	CYP4X1_uc001cqr.2_Missense_Mutation_p.T373M|CYP4X1_uc001cqs.2_Missense_Mutation_p.T309M	NM_178033	NP_828847	Q8N118	CP4X1_HUMAN	cytochrome P450, family 4, subfamily X,	374						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2						ATCAAGGAGACGTGCCGATTG	0.493													23	79					0	0	0.00278	0	0		T	47512186	T	T	47512186	3	4	45	1	0	0	0	0	1	0	0	0	4196	536	19	1	1155	1	CYP4X1	1	47512186	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	110919	47512186	201738435	36	34415											
ECHDC2	55268	broad.mit.edu	37	chr1	53364883	53364883	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctactttgcccagccgcAcggcaatgggggcctaggga	7	7	15	12	2	0	0	0	0	0	0	0	1	0	1	3	5	3	3	3	5	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:53364883A>G	uc001cup.3	-	8	962	c.716T>C	c.(715-717)GTG>GCG	p.V239A	ECHDC2_uc001cun.2_Missense_Mutation_p.V162A|ECHDC2_uc001cuo.3_Missense_Mutation_p.V208A|ECHDC2_uc010onk.1_Missense_Mutation_p.V193A	NM_018281	NP_060751	Q86YB7	ECHD2_HUMAN	enoyl Coenzyme A hydratase domain containing 2	239					fatty acid metabolic process	mitochondrion	lyase activity			central_nervous_system(1)	1						GCCCAGCCGCACGGCAATGGG	0.547													11	63					0	0	0.013537	0	0		G	53364883	G	G	53364883	3	3	45	1	0	0	0	0	1	0	0	0	4900	159	6	3	174	3	ECHDC2	1	53364883	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	5852697	53364883	195885738	37	34416											
ECHDC2	55268	broad.mit.edu	37	chr1	53377251	53377251	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctacctgcacagaacacGcccttcactccacttctgaa	12	8	4	17	1	2	2	1	1	1	1	3	2	3	2	4	0	4	1	4	0	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:53377251G>A	uc001cup.3	-	3	510	c.264C>T	c.(262-264)GGC>GGT	p.G88G	ECHDC2_uc001cun.2_Silent_p.G42G|ECHDC2_uc001cuo.3_Silent_p.G88G|ECHDC2_uc010onk.1_Silent_p.G42G|ECHDC2_uc010onl.1_Silent_p.G42G|ECHDC2_uc010onm.1_Silent_p.G42G|ECHDC2_uc010onn.1_Silent_p.G42G	NM_018281	NP_060751	Q86YB7	ECHD2_HUMAN	enoyl Coenzyme A hydratase domain containing 2	88					fatty acid metabolic process	mitochondrion	lyase activity			central_nervous_system(1)	1						CACAGAACACGCCCTTCACTC	0.592													12	75					0	0	0.001855	0	0		A	53377251	A	A	53377251	2	1	45	1	0	0	0	0	0	0	0	1	4900	1074	38	1		1	ECHDC2	1	53377251	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	12368	53377251	195873370	38	34417											
C1orf177	163747	broad.mit.edu	37	chr1	55277501	55277501	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctggaaattatggggagaAgggtaacccatacaccaagc	14	6	11	10	0	0	1	0	0	0	1	0	3	0	2	3	4	3	1	3	4	6	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:55277501A>C	uc001cyb.3	+	5	569	c.515A>C	c.(514-516)AAG>ACG	p.K172T	C1orf177_uc001cya.3_Missense_Mutation_p.K172T	NM_001110533	NP_001104003	Q3ZCV2	CA177_HUMAN	hypothetical protein LOC163747 isoform 2	172											0						TATGGGGAGAAGGGTAACCCA	0.582													12	49					0	0	0.010729	0	0		C	55277501	C	C	55277501	3	2	45	1	0	0	0	0	1	0	0	0	2020	72	3	5	533	5	C1orf177	1	55277501	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1900250	55277501	193973120	39	34418											
PCSK9	255738	broad.mit.edu	37	chr1	55512210	55512210	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcaggccttgaagttgccCcatgtcgactacatcgagga	9	9	11	12	2	0	1	0	1	0	0	2	4	0	2	3	2	3	2	3	2	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:55512210C>A	uc001cyf.1	+	3	705	c.414C>A	c.(412-414)CCC>CCA	p.P138P	PCSK9_uc010ool.1_RNA|PCSK9_uc010oom.1_Intron	NM_174936	NP_777596	Q8NBP7	PCSK9_HUMAN	proprotein convertase subtilisin/kexin type 9	138					cellular response to insulin stimulus|cellular response to starvation|cholesterol homeostasis|cholesterol metabolic process|kidney development|liver development|low-density lipoprotein particle receptor catabolic process|lysosomal transport|negative regulation of catalytic activity|negative regulation of low-density lipoprotein particle clearance|negative regulation of receptor recycling|neuron differentiation|positive regulation of neuron apoptosis|positive regulation of receptor internalization|protein autoprocessing|regulation of receptor activity	extracellular space|late endosome|lysosome|perinuclear region of cytoplasm	apolipoprotein receptor binding|identical protein binding|low-density lipoprotein particle receptor binding|serine-type endopeptidase activity|very-low-density lipoprotein particle receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4						TGAAGTTGCCCCATGTCGACT	0.582													7	95					0.00307968	0.00315622	0.00308	1	0		A	55512210	A	A	55512210	2	1	45	1	0	0	0	0	0	0	0	1	11625	610	22	5		5	PCSK9	1	55512210	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	234709	55512210	193738411	40	34419											
PRKAA2	5563	broad.mit.edu	37	chr1	57158050	57158050	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttgaagagatggaagccaGgcggctctttcagcagattc	10	9	14	8	1	2	3	1	1	1	2	3	5	2	4	1	4	2	3	1	4	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:57158050G>T	uc001cyk.3	+	4	421	c.350G>T	c.(349-351)AGG>ATG	p.R117M		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	117	Protein kinase.				carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						ATGGAAGCCAGGCGGCTCTTT	0.353													5	143					1.23904e-05	1.31701e-05	0.000602	1	0		T	57158050	T	T	57158050	3	4	45	1	0	0	0	0	1	0	0	0	12516	1000	35	5	364	5	PRKAA2	1	57158050	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1645840	57158050	192092571	41	34420											
DAB1	1600	broad.mit.edu	37	chr1	57489218	57489218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttacctgagggtacagcaGcagtgccgaaaggtacagaa	13	6	13	9	1	0	2	0	1	0	1	0	3	0	2	2	2	6	5	2	2	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:57489218G>A	uc001cys.1	-	13	1555	c.881C>T	c.(880-882)GCT>GTT	p.A294V	DAB1_uc001cyt.1_Missense_Mutation_p.A292V|DAB1_uc001cyq.1_Missense_Mutation_p.A292V|DAB1_uc001cyr.1_Missense_Mutation_p.A208V|DAB1_uc009vzw.1_Missense_Mutation_p.A276V|DAB1_uc009vzx.1_Missense_Mutation_p.A294V	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	327					cell differentiation|nervous system development					skin(2)|ovary(1)	3						GGGTACAGCAGCAGTGCCGAA	0.507													3	24					0	0	0.004672	0	0		A	57489218	A	A	57489218	3	1	45	1	0	0	0	0	1	0	0	0	4220	971	34	2	802	2	DAB1	1	57489218	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	331168	57489218	191761403	42	34421											
PDE4B	5142	broad.mit.edu	37	chr1	66833502	66833502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatctcaccaagaagcagcGtcagacactcaggaagatgg	15	5	11	10	1	3	3	3	0	1	3	4	5	3	4	1	2	2	1	1	2	4	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:66833502G>A	uc001dcn.2	+	14	1699	c.1508G>A	c.(1507-1509)CGT>CAT	p.R503H	PDE4B_uc009war.2_Missense_Mutation_p.R411H|PDE4B_uc001dco.2_Missense_Mutation_p.R503H|PDE4B_uc001dcp.2_Missense_Mutation_p.R488H|PDE4B_uc001dcq.2_Missense_Mutation_p.R331H|PDE4B_uc009was.2_Missense_Mutation_p.R270H	NM_001037341	NP_001032418	Q07343	PDE4B_HUMAN	phosphodiesterase 4B isoform 1	503					signal transduction	cytosol|insoluble fraction|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Adenosine monophosphate(DB00131)|Amrinone(DB01427)|Caffeine(DB00201)|Cilostazol(DB01166)|Dyphylline(DB00651)|Enprofylline(DB00824)|Papaverine(DB01113)|Pentoxifylline(DB00806)|Theophylline(DB00277)	AAGAAGCAGCGTCAGACACTC	0.408													17	89					0	0	0.007413	0	0		A	66833502	A	A	66833502	3	1	45	1	0	0	0	0	1	0	0	0	11659	1145	40	1	1916	1	PDE4B	1	66833502	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	9344284	66833502	182417119	43	34422											
WDR78	79819	broad.mit.edu	37	chr1	67306239	67306239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaagtcgttccaagttggcGggtattgttgattcttctgc	7	15	11	8	2	2	1	0	1	2	0	4	1	3	1	1	2	1	4	1	2	3	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:67306239G>A	uc001dcx.2	-	9	1463	c.1407C>T	c.(1405-1407)CCC>CCT	p.P469P	WDR78_uc001dcy.2_Silent_p.P469P|WDR78_uc009waw.2_Silent_p.P215P|WDR78_uc009wax.2_RNA	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	469										ovary(2)	2						CCAAGTTGGCGGGTATTGTTG	0.403													16	81					0	0	0.004007	0	0		A	67306239	A	A	67306239	2	1	45	1	0	0	0	0	0	0	0	1	17354	1103	39	1		1	WDR78	1	67306239	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	472737	67306239	181944382	44	34423											
FPGT	8790	broad.mit.edu	37	chr1	74670742	74670742	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagaaatgaggcagagaatAtttcatcttcttaaaggaac	16	11	9	5	0	3	3	1	1	2	2	3	5	3	4	0	2	1	2	0	2	7	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:74670742A>G	uc001dgb.1	+	4	1048	c.1011A>G	c.(1009-1011)ATA>ATG	p.I337M	TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron|FPGT_uc010oqt.1_Intron|FPGT_uc010oqu.1_Intron|FPGT_uc010oqv.1_Intron	NM_003838	NP_003829	O14772	FPGT_HUMAN	fucose-1-phosphate guanyltransferase	337					fucose metabolic process	cytoplasm	fucose-1-phosphate guanylyltransferase activity|GTP binding			skin(1)	1						GGCAGAGAATATTTCATCTTC	0.358													8	62					0	0	0.00308	0	0		G	74670742	G	G	74670742	3	3	45	1	0	0	0	0	1	0	0	0	6051	439	16	3	1025	3	FPGT	1	74670742	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	7364503	74670742	174579879	45	34424											
TNNI3K	51086	broad.mit.edu	37	chr1	74835236	74835236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactcaatacatatcaggggGttctctgttctccctccttc	7	14	6	14	0	4	0	2	0	2	0	8	0	5	0	2	2	1	2	2	2	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:74835236G>A	uc001dgf.1	+	16	1685	c.1634G>A	c.(1633-1635)GGT>GAT	p.G545D	TNNI3K_uc001dgc.1_Missense_Mutation_p.G646D|TNNI3K_uc001dgd.2_Missense_Mutation_p.G646D|TNNI3K_uc001dge.1_Missense_Mutation_p.G646D	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	545	Protein kinase.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						ATATCAGGGGGTTCTCTGTTC	0.448													32	212					0	0	0.004878	0	0		A	74835236	A	A	74835236	3	1	45	1	0	0	0	0	1	0	0	0	16354	1261	44	4	2051	4	TNNI3K	1	74835236	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	164494	74835236	174415385	46	34425											
SPATA1	64173	broad.mit.edu	37	chr1	84981989	84981989	+	Frame_Shift_Del	DEL	A	-	-																															ctacttaaatgaagaaagatAaaaaaagaaacaaaattcca																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:84981989delA	uc001djz.1	+	2	212	c.13delA	c.(13-15)AAAfs	p.K5fs	SPATA1_uc001djx.2_Frame_Shift_Del_p.K5fs|SPATA1_uc001djy.1_RNA	NM_001081472	NP_001074941			spermatogenesis associated 1											central_nervous_system(1)	1				Epithelial(280;4.36e-10)|all cancers(265;7.1e-09)|BRCA - Breast invasive adenocarcinoma(282;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(397;0.00286)|KIRC - Kidney renal clear cell carcinoma(1967;0.0111)		GAAGAAAGATAAAAAAAGAAA	0.294													4	6	---	---	---	---						.	-	84981989	-	-	84981989	7	5	45	1	0	1	0	1	0	0	0	0	15023	363	13	0	15	0	SPATA1	1	84981989	Frame_Shift_Del	DEL	A	TCGA-BR-6852-01A-11D-1882-08	10146753	84981989	164268632	47	34426											
ABCA4	24	broad.mit.edu	37	chr1	94564484	94564484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggctgaagatgatgaagcGctccaggagggcctcgctgc	8	7	15	11	2	0	4	0	3	0	1	2	5	1	5	2	3	2	3	2	3	2	0	rs61750200		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:94564484G>A	uc001dqh.2	-	6	738	c.634C>T	c.(634-636)CGC>TGC	p.R212C	ABCA4_uc010otn.1_Missense_Mutation_p.R212C	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	212	Extracellular.		R -> C (in STGD1 and CORD3; common mutation in southern Europe; reduced ATP- binding capacity).		phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		ATGATGAAGCGCTCCAGGAGG	0.602													10	45					0	0	0.010729	0	0		A	94564484	A	A	94564484	3	1	45	1	0	0	0	0	1	0	0	0	34	1087	38	1	6367	1	ABCA4	1	94564484	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	9582495	94564484	154686137	48	34427											
SLC35A3	23443	broad.mit.edu	37	chr1	100483314	100483314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggatttgcaacctctttatCgataatattatcaacattga	14	15	5	7	1	2	1	1	1	1	0	3	3	2	2	1	1	3	1	1	1	6	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:100483314C>T	uc001dsp.1	+	7	1027	c.830C>T	c.(829-831)TCG>TTG	p.S277L	SLC35A3_uc001dsq.1_Missense_Mutation_p.S277L|SLC35A3_uc009wdy.1_Intron|SLC35A3_uc001dsr.1_Missense_Mutation_p.S319L|SLC35A3_uc001dss.1_Missense_Mutation_p.S196L	NM_012243	NP_036375	Q9Y2D2	S35A3_HUMAN	solute carrier family 35 member 3A	277	Helical; (Potential).				UDP-N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	sugar:hydrogen symporter activity|UDP-N-acetylglucosamine transmembrane transporter activity				0		all_epithelial(167;0.000686)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.124)|all cancers(265;0.198)|Lung(183;0.199)		ACCTCTTTATCGATAATATTA	0.294													5	50					0	0	0.000602	0	0		T	100483314	T	T	100483314	3	4	45	1	0	0	0	0	1	0	0	0	14597	893	31	1	852	1	SLC35A3	1	100483314	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	5918830	100483314	148767307	49	34428											
CELSR2	1952	broad.mit.edu	37	chr1	109811843	109811843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggtgaggctgtggccaGcgtcatcatctaccgcaccc	7	7	12	15	2	3	1	2	1	1	0	3	1	3	1	4	3	2	2	4	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:109811843G>A	uc001dxa.3	+	20	6804	c.6743G>A	c.(6742-6744)AGC>AAC	p.S2248N		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2248	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		GCTGTGGCCAGCGTCATCATC	0.672													3	46					0	0	0.009096	0	0		A	109811843	A	A	109811843	3	1	45	1	0	0	0	0	1	0	0	0	3225	971	34	2	6821	2	CELSR2	1	109811843	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	9328529	109811843	139438778	50	34429											
CYB561D1	284613	broad.mit.edu	37	chr1	110038475	110038475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggatccggctccactgggCagggcagaccctagccatcc	8	5	12	16	2	0	1	0	0	0	1	3	2	3	2	5	4	1	3	5	4	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:110038475C>T	uc010ovn.1	+	3	345	c.284C>T	c.(283-285)GCA>GTA	p.A95V	CYB561D1_uc010ovl.1_Missense_Mutation_p.A38V|CYB561D1_uc010ovm.1_Missense_Mutation_p.A37V|CYB561D1_uc001dxu.2_Nonsense_Mutation_p.Q130*|CYB561D1_uc001dxw.2_3'UTR|CYB561D1_uc010ovo.1_Missense_Mutation_p.A117V|CYB561D1_uc009wfd.2_Missense_Mutation_p.A44V|CYB561D1_uc010ovp.1_Missense_Mutation_p.A29V	NM_182580	NP_872386	Q8N8Q1	C56D1_HUMAN	cytochrome b-561 domain containing 1 isoform 2	95	Cytochrome b561.|Helical; (Potential).				electron transport chain|transport	integral to membrane	metal ion binding				0		all_epithelial(167;0.00197)|all_lung(203;0.00291)|Lung NSC(277;0.00453)		Colorectal(144;0.0129)|Lung(183;0.0422)|Epithelial(280;0.0655)|all cancers(265;0.0685)|READ - Rectum adenocarcinoma(129;0.0689)|LUSC - Lung squamous cell carcinoma(189;0.227)		CTCCACTGGGCAGGGCAGACC	0.597													43	222					0	0	0.01441	0	0		T	110038475	T	T	110038475	3	4	45	1	0	0	0	0	1	0	0	0	4123	711	25	2	479	2	CYB561D1	1	110038475	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	226632	110038475	139212146	51	34430											
KCNA3	3738	broad.mit.edu	37	chr1	111216271	111216271	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacgccttcagcgtttgcccGaggatctgcagccccttgga	6	9	12	14	3	2	0	1	0	1	0	2	4	2	2	4	2	4	2	4	2	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:111216271G>A	uc001dzv.1	-	1	1385	c.1161C>T	c.(1159-1161)CTC>CTT	p.L387L		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	387						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCGTTTGCCCGAGGATCTGCA	0.587													19	113					0	0	0.010504	0	0		A	111216271	A	A	111216271	2	1	45	1	0	0	0	0	0	0	0	1	8020	1045	37	1		1	KCNA3	1	111216271	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1177796	111216271	138034350	52	34431											
WNT2B	7482	broad.mit.edu	37	chr1	113059876	113059876	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgacgctatgatggggCtgtgcaggtgatggccaccc	6	7	17	11	3	0	2	0	2	0	0	0	3	0	2	2	5	1	3	2	5	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:113059876C>A	uc001ecb.2	+	4	1330	c.815C>A	c.(814-816)GCT>GAT	p.A272D	WNT2B_uc001eca.2_Missense_Mutation_p.A253D|WNT2B_uc009wgg.2_Missense_Mutation_p.A180D	NM_024494	NP_078613	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family,	272					chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity	p.A272S(1)		ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TATGATGGGGCTGTGCAGGTG	0.597													10	55					6.40141e-05	6.72772e-05	0.010729	1	0		A	113059876	A	A	113059876	3	1	45	1	0	0	0	0	1	0	0	0	17413	797	28	5	962	5	WNT2B	1	113059876	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1843605	113059876	136190745	53	34432											
MOV10	4343	broad.mit.edu	37	chr1	113232051	113232051	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagggctgagtatcttcAtgggaaacatggtgtggatg	9	10	14	8	0	2	1	1	1	1	0	2	3	2	3	2	4	1	2	2	4	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:113232051A>G	uc001eck.2	+	4	626	c.356A>G	c.(355-357)CAT>CGT	p.H119R	MOV10_uc001ecl.2_Missense_Mutation_p.H119R|MOV10_uc001ecn.2_Missense_Mutation_p.H119R|MOV10_uc001ecm.2_Missense_Mutation_p.H59R|MOV10_uc009wgj.1_Missense_Mutation_p.H59R	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	119					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		GAGTATCTTCATGGGAAACAT	0.597													6	99					0	0	0.001984	0	0		G	113232051	G	G	113232051	3	3	45	1	0	0	0	0	1	0	0	0	9736	217	8	3	366	3	MOV10	1	113232051	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	172175	113232051	136018570	54	34433											
HRNR	388697	broad.mit.edu	37	chr1	152188455	152188455	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccagatccatgctgagtgtAaccagaggactgccatgagc	11	7	12	11	0	0	4	0	2	0	2	1	5	1	5	4	1	4	2	4	1	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:152188455A>G	uc001ezt.1	-	3	5726	c.5650T>C	c.(5650-5652)TAC>CAC	p.Y1884H		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1884	20.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGCTGAGTGTAACCAGAGGAC	0.552													34	798					0	0	0.010771	0	0		G	152188455	G	G	152188455	3	3	45	1	0	0	0	0	1	0	0	0	7375	362	13	3	2906	3	HRNR	1	152188455	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	38956404	152188455	97062166	55	34434											
FLG	2312	broad.mit.edu	37	chr1	152283879	152283879	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcacgaatggtgtcctgAccctcttgggacgctgagtg	6	11	14	10	2	1	2	0	2	1	0	2	4	2	3	2	2	1	2	2	2	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:152283879A>G	uc001ezu.1	-	3	3519	c.3483T>C	c.(3481-3483)GGT>GGC	p.G1161G	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1161	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGGTGTCCTGACCCTCTTGGG	0.607									Ichthyosis				90	597					0	0	0.01441	0	0		G	152283879	G	G	152283879	2	3	45	1	0	0	0	0	0	0	0	1	5936	262	10	3		3	FLG	1	152283879	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	95424	152283879	96966742	56	34435											
FLG2	388698	broad.mit.edu	37	chr1	152329960	152329960	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcggtgaccacgcctatgcTtctttgaccctgaagctttg	6	13	10	12	2	1	3	0	3	1	0	2	3	1	3	3	1	2	2	3	1	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:152329960T>C	uc001ezw.3	-	3	375	c.302A>G	c.(301-303)AAG>AGG	p.K101R	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	101							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACGCCTATGCTTCTTTGACCC	0.428													19	73					0	0	0.006122	0	0		C	152329960	C	C	152329960	3	2	45	1	0	0	0	0	1	0	0	0	5937	1609	56	3	6877	3	FLG2	1	152329960	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	46081	152329960	96920661	57	34436											
CRNN	49860	broad.mit.edu	37	chr1	152382638	152382638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgcttcctgtctggtggCtgctgtcctgctccacggtc	1	14	13	13	1	1	0	0	0	1	0	5	0	4	0	3	4	3	4	3	4	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:152382638C>T	uc001ezx.2	-	3	994	c.920G>A	c.(919-921)AGC>AAC	p.S307N		NM_016190	NP_057274	Q9UBG3	CRNN_HUMAN	cornulin	307	Gln-rich.				cell-cell adhesion|response to heat	cytoplasm|membrane	calcium ion binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTCTGGTGGCTGCTGTCCTG	0.622													15	407					0	0	0.003163	0	0		T	152382638	T	T	152382638	3	4	45	1	0	0	0	0	1	0	0	0	3895	797	28	2	571	2	CRNN	1	152382638	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	52678	152382638	96867983	58	34437											
EFNA1	1942	broad.mit.edu	37	chr1	155103820	155103820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgtgtccccaggttccGgaatgaggactacaccatac	9	10	11	11	1	0	1	0	1	0	0	2	3	2	3	4	3	2	1	4	3	3	3	rs144975407		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:155103820G>A	uc001fhh.2	+	2	203	c.98G>A	c.(97-99)CGG>CAG	p.R33Q	EFNA1_uc001fhi.2_Missense_Mutation_p.R33Q|EFNA1_uc009wpd.1_5'Flank	NM_004428	NP_004419	P20827	EFNA1_HUMAN	ephrin A1 isoform a precursor	33					angiogenesis|aortic valve morphogenesis|cell migration|cell-cell signaling|endocardial cushion to mesenchymal transition involved in heart valve formation|ephrin receptor signaling pathway|mitral valve morphogenesis|negative regulation of epithelial to mesenchymal transition|negative regulation of transcription from RNA polymerase II promoter|positive regulation of peptidyl-tyrosine phosphorylation|regulation of cell adhesion mediated by integrin|substrate adhesion-dependent cell spreading	extracellular region|integral to plasma membrane	ephrin receptor binding				0	all_epithelial(22;4.71e-30)|all_lung(78;3.15e-27)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;2.28e-10)|all cancers(21;6.16e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000395)|LUSC - Lung squamous cell carcinoma(543;0.193)			CCCAGGTTCCGGAATGAGGAC	0.522													6	71					0	0	0.001168	0	0		A	155103820	A	A	155103820	3	1	45	1	0	0	0	0	1	0	0	0	4956	1116	39	1	104	1	EFNA1	1	155103820	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2721182	155103820	94146801	59	34438											
PKLR	5313	broad.mit.edu	37	chr1	155263247	155263247	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgcatgctgcatcttcacCgcttccacagggaagttgcc	8	9	9	15	2	2	0	1	0	1	0	3	1	3	1	4	1	3	5	4	1	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:155263247C>T	uc001fkb.3	-	8	1290	c.1251G>A	c.(1249-1251)GCG>GCA	p.A417A	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Silent_p.A386A	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	417					endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	GCATCTTCACCGCTTCCACAG	0.562													10	44					0	0	0.008291	0	0		T	155263247	T	T	155263247	2	4	45	1	0	0	0	0	0	0	0	1	11995	639	23	1		1	PKLR	1	155263247	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	159427	155263247	93987374	60	34439											
FCRL3	115352	broad.mit.edu	37	chr1	157667456	157667456	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctagccattaccttgaacTtggatatttaggggttttga	10	16	9	6	0	1	2	0	2	1	0	1	3	1	3	2	3	3	1	2	3	5	9			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:157667456T>G	uc001frb.2	-	5	844	c.552A>C	c.(550-552)CAA>CAC	p.Q184H	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.Q184H|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_5'UTR|FCRL3_uc001frc.1_Missense_Mutation_p.Q184H	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	184	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					TACCTTGAACTTGGATATTTA	0.368													17	79					0	0	0.006122	0	0		G	157667456	G	G	157667456	3	3	45	1	0	0	0	0	1	0	0	0	5810	1606	56	5	1696	5	FCRL3	1	157667456	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2404209	157667456	91583165	61	34440											
CD1D	912	broad.mit.edu	37	chr1	158151478	158151478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagcttcaccagggacGtgaaggaattcgccaaaatg	14	6	12	9	2	1	1	1	1	0	0	2	4	1	3	2	2	2	2	2	2	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:158151478G>A	uc001frr.2	+	3	794	c.295G>A	c.(295-297)GTG>ATG	p.V99M	CD1D_uc009wsr.1_Missense_Mutation_p.V99M|CD1D_uc009wss.2_Missense_Mutation_p.V99M|CD1D_uc009wst.1_Translation_Start_Site	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	99	Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					CACCAGGGACGTGAAGGAATT	0.557													16	68					0	0	0.007413	0	0		A	158151478	A	A	158151478	3	1	45	1	0	0	0	0	1	0	0	0	2980	1145	40	1	301	1	CD1D	1	158151478	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	484022	158151478	91099143	62	34441											
CCDC19	25790	broad.mit.edu	37	chr1	159857704	159857704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaggaggttctgggccCgttccttggccacctcctcc	3	11	11	16	1	2	0	0	0	2	0	5	1	5	1	6	4	1	3	6	4	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:159857704C>T	uc001fui.2	-	5	533	c.515G>A	c.(514-516)CGG>CAG	p.R172Q	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.R87Q|CCDC19_uc001ful.2_Missense_Mutation_p.R87Q|CCDC19_uc009wtc.1_Missense_Mutation_p.R172Q	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	172	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			GTTCTGGGCCCGTTCCTTGGC	0.547													47	174					0	0	0.01441	0	0		T	159857704	T	T	159857704	3	4	45	1	0	0	0	0	1	0	0	0	2798	652	23	1	1172	1	CCDC19	1	159857704	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1706226	159857704	89392917	63	34442											
ATP1A4	480	broad.mit.edu	37	chr1	160137172	160137172	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaccccaaggtggcagaGattccctttaattctaccaa	15	9	6	11	0	1	1	0	0	1	1	2	2	2	1	4	2	2	1	4	2	6	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:160137172G>T	uc001fve.3	+	10	1940	c.1461G>T	c.(1459-1461)GAG>GAT	p.E487D	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_5'UTR	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	487	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AGGTGGCAGAGATTCCCTTTA	0.512													10	173					2.80697e-09	3.08415e-09	0.010729	1	0		T	160137172	T	T	160137172	3	4	45	1	0	0	0	0	1	0	0	0	1132	933	33	5	1499	5	ATP1A4	1	160137172	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	279468	160137172	89113449	64	34443											
SLAMF1	6504	broad.mit.edu	37	chr1	160607007	160607007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcaactgcaggcaaaagCgctgaactgaaacatttttc	13	9	8	11	1	1	2	1	2	0	0	2	2	1	2	1	1	5	3	1	1	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:160607007C>T	uc001fwl.3	-	2	735	c.389G>A	c.(388-390)CGC>CAC	p.R130H	SLAMF1_uc010pjk.1_RNA|SLAMF1_uc010pjl.1_RNA|SLAMF1_uc010pjm.1_RNA|SLAMF1_uc001fwm.2_Missense_Mutation_p.R130H	NM_003037	NP_003028	Q13291	SLAF1_HUMAN	signaling lymphocytic activation molecule family	130	Extracellular (Potential).				interspecies interaction between organisms|lymphocyte activation|positive regulation of cell proliferation	integral to membrane	antigen binding|transmembrane receptor activity			ovary(1)|breast(1)	2	all_cancers(52;4.94e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			CAGGCAAAAGCGCTGAACTGA	0.478													19	100					0	0	0.007413	0	0		T	160607007	T	T	160607007	3	4	45	1	0	0	0	0	1	0	0	0	14392	768	27	1	642	1	SLAMF1	1	160607007	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	469835	160607007	88643614	65	34444											
USP21	27005	broad.mit.edu	37	chr1	161133376	161133376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagccaacctaatgtggaaaCgttacctggagcgagaggac	13	6	13	9	2	0	1	0	0	0	1	0	6	0	4	3	3	5	1	3	3	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:161133376C>T	uc010pke.1	+	8	1458	c.1081C>T	c.(1081-1083)CGT>TGT	p.R361C	USP21_uc010pkc.1_Missense_Mutation_p.R361C|USP21_uc010pkd.1_Missense_Mutation_p.R361C|USP21_uc010pkf.1_Missense_Mutation_p.R361C|PPOX_uc001fyj.2_5'Flank|PPOX_uc001fyn.2_5'Flank|PPOX_uc001fyg.2_5'Flank|PPOX_uc001fyl.2_5'Flank|PPOX_uc001fym.2_5'Flank|PPOX_uc001fyk.2_5'Flank|PPOX_uc001fyh.2_5'Flank|PPOX_uc010pkg.1_5'Flank|PPOX_uc009wuc.1_5'Flank|PPOX_uc010pkh.1_5'Flank|PPOX_uc001fyi.2_5'Flank	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	361					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			AATGTGGAAACGTTACCTGGA	0.532													5	66					0	0	0.001168	0	0		T	161133376	T	T	161133376	3	4	45	1	0	0	0	0	1	0	0	0	17079	536	19	1	1103	1	USP21	1	161133376	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	526369	161133376	88117245	66	34445											
TOMM40L	84134	broad.mit.edu	37	chr1	161198233	161198233	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacagctgtacactgggtagCtacattgaatgtgggatcag	11	11	12	7	0	1	1	1	1	0	0	1	2	1	2	0	2	5	4	0	2	5	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:161198233C>A	uc001fzd.2	+	8	852	c.623C>A	c.(622-624)GCT>GAT	p.A208D	TOMM40L_uc010pkl.1_Missense_Mutation_p.A174D|TOMM40L_uc009wue.2_Missense_Mutation_p.A90D|TOMM40L_uc009wuf.1_RNA|TOMM40L_uc001fze.2_Missense_Mutation_p.A208D	NM_032174	NP_115550	Q969M1	TM40L_HUMAN	translocase of outer mitochondrial membrane 40	208					protein transport	mitochondrial outer membrane|pore complex	porin activity|voltage-gated anion channel activity			large_intestine(1)	1	all_cancers(52;1.86e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			CACTGGGTAGCTACATTGAAT	0.498													7	67					0.000274275	0.000286965	0.004482	1	0		A	161198233	A	A	161198233	3	1	45	1	0	0	0	0	1	0	0	0	16384	797	28	5	649	5	TOMM40L	1	161198233	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	64857	161198233	88052388	67	34446											
HSPA6	3310	broad.mit.edu	37	chr1	161495324	161495324	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagactccctgttcgagggCgtggacttctacacgtccat	8	11	10	12	3	1	1	0	0	1	1	4	3	3	2	2	2	1	1	2	2	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:161495324C>T	uc001gap.2	+	2	1536	c.876C>T	c.(874-876)GGC>GGT	p.G292G	HSPA6_uc001gaq.2_Silent_p.G292G	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	292					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			TGTTCGAGGGCGTGGACTTCT	0.657													9	26					0	0	0.006214	0	0		T	161495324	T	T	161495324	2	4	45	1	0	0	0	0	0	0	0	1	7431	755	27	1		1	HSPA6	1	161495324	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	297091	161495324	87755297	68	34447											
DNM3	26052	broad.mit.edu	37	chr1	172002361	172002361	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccggcttacagacatatcGctgaccgaatgggaacccca	12	6	9	14	3	0	2	0	1	0	1	1	4	0	3	4	2	2	2	4	2	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:172002361G>A	uc001gie.2	+	6	981	c.805G>A	c.(805-807)GCT>ACT	p.A269T	DNM3_uc001gid.3_Missense_Mutation_p.A269T|DNM3_uc009wwb.2_Missense_Mutation_p.A269T|DNM3_uc001gif.2_Missense_Mutation_p.A269T	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	269					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						CAGACATATCGCTGACCGAAT	0.448													4	19					0	0	0.009096	0	0		A	172002361	A	A	172002361	3	1	45	1	0	0	0	0	1	0	0	0	4679	1087	38	1	827	1	DNM3	1	172002361	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	10507037	172002361	77248260	69	34448											
C1orf105	92346	broad.mit.edu	37	chr1	172431363	172431363	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagatgatccaaaagcatccTttgagaattgtatgagttat	14	13	8	6	0	0	4	0	3	0	2	2	5	2	4	2	0	1	3	2	0	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:172431363T>G	uc001gik.2	+	5	515	c.319T>G	c.(319-321)TTT>GTT	p.F107V		NM_139240	NP_640333	O95561	CA105_HUMAN	hypothetical protein LOC92346	107										skin(1)	1						AAAAGCATCCTTTGAGAATTG	0.358													6	19					0	0	0.00308	0	0		G	172431363	G	G	172431363	3	3	45	1	0	0	0	0	1	0	0	0	1982	1609	56	5	337	5	C1orf105	1	172431363	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	429002	172431363	76819258	70	34449											
NPHS2	7827	broad.mit.edu	37	chr1	179526176	179526176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtacctttgcatcttgggCgatgctcttcctctctagaa	8	14	8	11	1	3	1	0	0	3	1	5	2	4	1	2	1	3	3	2	1	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:179526176C>T	uc001gmq.3	-	5	809	c.724G>A	c.(724-726)GCC>ACC	p.A242T	NPHS2_uc009wxi.2_Intron	NM_014625	NP_055440	Q9NP85	PODO_HUMAN	podocin	242	Cytoplasmic (Potential).				excretion	integral to plasma membrane	protein binding				0						GCATCTTGGGCGATGCTCTTC	0.368													7	30					0	0	0.006214	0	0		T	179526176	T	T	179526176	3	4	45	1	0	0	0	0	1	0	0	0	10602	768	27	1	443	1	NPHS2	1	179526176	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	7094813	179526176	69724445	71	34450											
CACNA1E	777	broad.mit.edu	37	chr1	181701981	181701981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacaggcagagccaacggcGcagccggcatcgccgcgtca	9	2	14	16	6	1	1	1	0	0	1	2	1	1	1	3	3	3	4	3	3	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:181701981G>A	uc001gow.2	+	20	2924	c.2759G>A	c.(2758-2760)CGC>CAC	p.R920H	CACNA1E_uc009wxs.2_Missense_Mutation_p.R808H|CACNA1E_uc001gox.1_Missense_Mutation_p.R146H|CACNA1E_uc009wxt.2_Missense_Mutation_p.R146H	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	920	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						AGCCAACGGCGCAGCCGGCAT	0.652													11	108					0	0	0.010729	0	0		A	181701981	A	A	181701981	3	1	45	1	0	0	0	0	1	0	0	0	2545	1087	38	1	2837	1	CACNA1E	1	181701981	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2175805	181701981	67548640	72	34451											
TPR	7175	broad.mit.edu	37	chr1	186302450	186302450	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagatagaaggctggacattAggactagtagaacgaacgga	16	6	14	5	2	0	3	0	0	0	3	0	8	0	6	0	4	2	2	0	4	7	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:186302450A>C	uc001grv.2	-	37	5556	c.5259T>G	c.(5257-5259)CCT>CCG	p.P1753P		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1753					carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		GCTGGACATTAGGACTAGTAG	0.423			T	NTRK1	papillary thyroid								16	79					0	0	0.004007	0	0		C	186302450	C	C	186302450	2	2	45	1	0	0	0	0	0	0	0	1	16442	407	15	5		5	TPR	1	186302450	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	4600469	186302450	62948171	73	34452											
F13B	2165	broad.mit.edu	37	chr1	197032103	197032103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgacaattttttgtctatgCtcattggaaagtaaaagctt	13	16	7	5	0	2	1	1	1	1	0	2	2	2	2	0	1	2	3	0	1	5	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:197032103C>T	uc001gtt.1	-	2	193	c.149G>A	c.(148-150)AGC>AAC	p.S50N		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	50	Sushi 1.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TTTGTCTATGCTCATTGGAAA	0.378													28	168					0	0	0.004656	0	0		T	197032103	T	T	197032103	3	4	45	1	0	0	0	0	1	0	0	0	5349	797	28	2	1880	2	F13B	1	197032103	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	10729653	197032103	52218518	74	34453											
DENND1B	163486	broad.mit.edu	37	chr1	197621390	197621390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatttacaggagtatttGcctttggtactgggtggtta	9	16	11	5	0	1	0	1	0	0	0	1	1	1	1	1	4	3	3	1	4	5	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:197621390G>A	uc001guf.3	-	7	760	c.422C>T	c.(421-423)GCA>GTA	p.A141V	DENND1B_uc010ppe.1_Missense_Mutation_p.A141V|DENND1B_uc010ppf.1_RNA|DENND1B_uc001gue.3_Missense_Mutation_p.A131V|DENND1B_uc001gug.3_5'UTR	NM_144977	NP_659414	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 2	141	DENN.					clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						AGGAGTATTTGCCTTTGGTAC	0.338													5	41					0	0	0.001168	0	0		A	197621390	A	A	197621390	3	1	45	1	0	0	0	0	1	0	0	0	4433	1319	46	2	2014	2	DENND1B	1	197621390	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	589287	197621390	51629231	75	34454											
PTPRC	5788	broad.mit.edu	37	chr1	198711490	198711490	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagatgcctgatggttcaAgtagaggtatgttctaacct	11	12	11	7	0	2	3	1	1	1	2	2	4	2	3	2	2	2	4	2	2	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:198711490A>C	uc001gur.1	+	25	2865	c.2685A>C	c.(2683-2685)CAA>CAC	p.Q895H	PTPRC_uc001gus.1_Missense_Mutation_p.Q847H|PTPRC_uc001gut.1_Missense_Mutation_p.Q734H	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	895	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.	Substrate (By similarity).			axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TGATGGTTCAAGTAGAGGTAT	0.363													21	101					0	0	0.00278	0	0		C	198711490	C	C	198711490	3	2	45	1	0	0	0	0	1	0	0	0	12822	69	3	5	2790	5	PTPRC	1	198711490	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1090100	198711490	50539131	76	34455											
TNNI1	7135	broad.mit.edu	37	chr1	201398381	201398381	+	RNA	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtccatggtggggccattgCaggacgcagcatctgtcttg	6	10	15	10	1	2	0	0	0	2	0	3	1	3	1	2	5	2	3	2	5	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:201398381C>T	uc001gwo.1	-	2		c.190G>A						P19237	TNNI1_HUMAN	Homo sapiens mRNA for troponin I (TNNI1 gene), alternative termination.						muscle filament sliding|regulation of striated muscle contraction	cytosol|troponin complex	actin binding|tropomyosin binding				0						GGGGCCATTGCAGGACGCAGC	0.468													5	27					0	0	0.000602	0	0		T	201398381	T	T	201398381	1	4	45	0	1	0	0	0	0	0	0	0	16351	725	25	2		2	TNNI1	1	201398381	RNA	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2686891	201398381	47852240	77	34456											
ELF3	1999	broad.mit.edu	37	chr1	201983058	201983058	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaatcggcatgaaggcgtcTtcaagttcctgcgctccgag	9	9	12	11	4	2	2	1	1	1	1	5	3	4	2	2	2	1	3	2	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:201983058T>A	uc001gxg.3	+	7	4099	c.907T>A	c.(907-909)TTC>ATC	p.F303I	ELF3_uc001gxi.3_Missense_Mutation_p.F303I|ELF3_uc001gxh.3_Missense_Mutation_p.F303I	NM_004433	NP_004424	P78545	ELF3_HUMAN	E74-like factor 3 (ets domain transcription	303	ETS.				epidermis development|epithelial cell differentiation|inflammatory response|mammary gland involution|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0						TGAAGGCGTCTTCAAGTTCCT	0.587													8	31					0	0	0.00308	0	0		A	201983058	A	A	201983058	3	1	45	1	0	0	0	0	1	0	0	0	5063	1609	56	5	933	5	ELF3	1	201983058	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	584677	201983058	47267563	78	34457											
KDM5B	10765	broad.mit.edu	37	chr1	202702738	202702738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgaagggaggcgagcagggGcagaattttctctaatggag	11	8	16	6	1	1	2	0	1	1	1	2	5	1	4	0	5	1	2	0	5	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:202702738G>A	uc001gyf.2	-	23	3816	c.3700C>T	c.(3700-3702)CCC>TCC	p.P1234S	KDM5B_uc009xag.2_Missense_Mutation_p.P1270S|KDM5B_uc001gyg.1_Missense_Mutation_p.P1076S	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1234					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						GCGAGCAGGGGCAGAATTTTC	0.532													16	67					0	0	0.003163	0	0		A	202702738	A	A	202702738	3	1	45	1	0	0	0	0	1	0	0	0	8150	1203	42	2	954	2	KDM5B	1	202702738	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	719680	202702738	46547883	79	34458											
ATP2B4	493	broad.mit.edu	37	chr1	203669950	203669950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccatgtcatggaaggttctgGccggatggtggtgacagctg	7	10	16	8	1	2	1	1	1	1	0	2	3	2	3	2	6	1	2	2	6	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:203669950G>A	uc001gzw.2	+	6	1684	c.800G>A	c.(799-801)GGC>GAC	p.G267D	ATP2B4_uc001gzv.2_Missense_Mutation_p.G267D|ATP2B4_uc009xaq.2_Missense_Mutation_p.G267D	NM_001684	NP_001675	P23634	AT2B4_HUMAN	plasma membrane calcium ATPase 4 isoform 4b	267	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|skin(1)	3	all_cancers(21;0.071)|all_epithelial(62;0.228)		BRCA - Breast invasive adenocarcinoma(75;0.109)			GAAGGTTCTGGCCGGATGGTG	0.458													16	94					0	0	0.006122	0	0		A	203669950	A	A	203669950	3	1	45	1	0	0	0	0	1	0	0	0	1143	1203	42	2	818	2	ATP2B4	1	203669950	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	967212	203669950	45580671	80	34459											
MDM4	4194	broad.mit.edu	37	chr1	204506617	204506617	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatattccaagtcaagacCaactgaaggtaaaatcacca	17	8	7	9	0	2	2	2	1	0	1	3	3	3	3	3	2	1	1	3	2	7	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:204506617C>A	uc001hba.2	+	6	565	c.403C>A	c.(403-405)CAA>AAA	p.Q135K	MDM4_uc001hbd.1_RNA|MDM4_uc010pqw.1_Intron|MDM4_uc010pqx.1_Missense_Mutation_p.Q8K|MDM4_uc001hay.1_Missense_Mutation_p.Q135K|MDM4_uc001hbb.2_Missense_Mutation_p.Q8K|MDM4_uc010pqy.1_Intron|MDM4_uc001hbc.2_Intron|MDM4_uc009xbe.1_RNA	NM_002393	NP_002384	O15151	MDM4_HUMAN	mouse double minute 4 homolog	135					apoptosis|cell proliferation|cellular response to hypoxia|G0 to G1 transition|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of protein catabolic process|negative regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization	nucleus	enzyme binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(21;0.00146)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.112)|all_epithelial(62;0.118)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;3.15e-47)|all cancers(3;3.56e-32)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|Epithelial(59;0.143)|BRCA - Breast invasive adenocarcinoma(75;0.143)			AAGTCAAGACCAACTGAAGGT	0.458			A		GBM|bladder|retinoblastoma								31	111					1.90571e-15	2.16516e-15	0.004289	1	0		A	204506617	A	A	204506617	3	1	45	1	0	0	0	0	1	0	0	0	9432	595	21	5	421	5	MDM4	1	204506617	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	836667	204506617	44744004	81	34460											
LRRN2	10446	broad.mit.edu	37	chr1	204588433	204588433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcccctccagggcatagtCggagatctcccgcaggttca	8	7	11	15	2	2	1	1	0	1	1	5	2	3	1	4	3	1	3	4	3	1	2	rs139753603		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:204588433C>T	uc001hbe.1	-	3	1076	c.688G>A	c.(688-690)GAC>AAC	p.D230N	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Missense_Mutation_p.D230N|LRRN2_uc009xbf.1_Missense_Mutation_p.D230N|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	230	LRR 7.|Extracellular (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			AGGGCATAGTCGGAGATCTCC	0.637													12	63					0	0	0.010729	0	0		T	204588433	T	T	204588433	3	4	45	1	0	0	0	0	1	0	0	0	9053	884	31	1	1457	1	LRRN2	1	204588433	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	81816	204588433	44662188	82	34461											
SLC41A1	254428	broad.mit.edu	37	chr1	205764510	205764510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaaggactgggacagcggCgaggagcttgctcagagttc	10	7	15	9	2	1	1	1	0	0	1	2	5	1	4	0	4	4	3	0	4	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:205764510C>T	uc001hdh.1	-	9	2041	c.1169G>A	c.(1168-1170)CGC>CAC	p.R390H	SLC41A1_uc001hdg.1_Missense_Mutation_p.R11H	NM_173854	NP_776253	Q8IVJ1	S41A1_HUMAN	solute carrier family 41 member 1	390						integral to membrane|plasma membrane	magnesium ion transmembrane transporter activity			skin(2)	2	Breast(84;0.0799)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			GGGACAGCGGCGAGGAGCTTG	0.612													11	40					0	0	0.001855	0	0		T	205764510	T	T	205764510	3	4	45	1	0	0	0	0	1	0	0	0	14654	768	27	1	384	1	SLC41A1	1	205764510	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1176077	205764510	43486111	83	34462											
AVPR1B	553	broad.mit.edu	37	chr1	206225358	206225358	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtccagatgtggtccgtgtgGgacaagaatgcccctgatga	9	9	14	9	1	0	4	0	2	0	2	2	5	2	5	4	2	1	0	4	2	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:206225358G>A	uc001hds.2	+	1	1076	c.918G>A	c.(916-918)TGG>TGA	p.W306*		NM_000707	NP_000698	P47901	V1BR_HUMAN	arginine vasopressin receptor 1B	306	Extracellular (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity			ovary(2)|large_intestine(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.0312)		Desmopressin(DB00035)|Terlipressin(DB02638)|Vasopressin(DB00067)	GGTCCGTGTGGGACAAGAATG	0.552													21	87					0	0	0.014323	0	0		A	206225358	A	A	206225358	4	1	45	1	0	0	0	0	0	1	0	0	1233	1241	43	4	920	4	AVPR1B	1	206225358	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	460848	206225358	43025263	84	34463											
PFKFB2	5208	broad.mit.edu	37	chr1	207240864	207240864	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctttctttcatcaaggTgataaacgtgggccagcgat	10	12	11	8	2	4	1	2	1	2	0	4	3	4	2	1	3	2	0	1	3	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:207240864T>C	uc001hfg.2	+	9	762	c.653T>C	c.(652-654)GTG>GCG	p.V218A	PFKFB2_uc010psc.1_Missense_Mutation_p.V120A|PFKFB2_uc001hfh.2_Missense_Mutation_p.V218A|PFKFB2_uc009xcc.2_Missense_Mutation_p.V176A|PFKFB2_uc010psd.1_Missense_Mutation_p.V32A	NM_006212	NP_006203	O60825	F262_HUMAN	6-phosphofructo-2-kinase/fructose-2,	218	6-phosphofructo-2-kinase.				fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity			ovary(1)	1	Prostate(682;0.19)					TTCATCAAGGTGATAAACGTG	0.433													6	95					0	0	0.001984	0	0		C	207240864	C	C	207240864	3	2	45	1	0	0	0	0	1	0	0	0	11780	1696	59	3	683	3	PFKFB2	1	207240864	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1015506	207240864	42009757	85	34464											
C1orf58	148362	broad.mit.edu	37	chr1	222889118	222889118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttactatggtgtagtcactgGcccttctgcttcaaaaatat	10	15	7	9	0	3	0	2	0	1	0	3	0	3	0	1	2	2	2	1	2	6	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:222889118G>A	uc001hnq.1	+	2	472	c.77G>A	c.(76-78)GGC>GAC	p.G26D	AIDA_uc010pus.1_5'Flank|C1orf58_uc010put.1_Missense_Mutation_p.G26D|C1orf58_uc010puu.1_Missense_Mutation_p.G26D|C1orf58_uc010puv.1_Missense_Mutation_p.G26D	NM_144695	NP_653296	Q5VW32	BROX_HUMAN	Bro1-domain-containing protein	26						membrane					0				GBM - Glioblastoma multiforme(131;0.0667)		GTAGTCACTGGCCCTTCTGCT	0.368													16	60					0	0	0.006122	0	0		A	222889118	A	A	222889118	3	1	45	1	0	0	0	0	1	0	0	0	2053	1203	42	2	79	2	C1orf58	1	222889118	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	15648254	222889118	26361503	86	34465											
C1orf58	148362	broad.mit.edu	37	chr1	222898880	222898880	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatacgttattcaatgtcAggctgaagctcaagaaggta	14	10	10	7	1	3	2	3	1	0	1	3	2	3	2	0	2	3	5	0	2	7	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:222898880A>G	uc001hnq.1	+	7	958	c.563A>G	c.(562-564)CAG>CGG	p.Q188R	C1orf58_uc010put.1_Missense_Mutation_p.Q156R|C1orf58_uc010puu.1_Missense_Mutation_p.Q188R|C1orf58_uc010puv.1_Missense_Mutation_p.Q156R	NM_144695	NP_653296	Q5VW32	BROX_HUMAN	Bro1-domain-containing protein	188	BRO1.					membrane					0				GBM - Glioblastoma multiforme(131;0.0667)		ATTCAATGTCAGGCTGAAGCT	0.328													3	22					0	0	0.009096	0	0		G	222898880	G	G	222898880	3	3	45	1	0	0	0	0	1	0	0	0	2053	188	7	3	585	3	C1orf58	1	222898880	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	9762	222898880	26351741	87	34466											
DISP1	84976	broad.mit.edu	37	chr1	223177973	223177973	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatcttctctctgagtcgCgtgggctctgcgatggccat	4	13	13	11	3	4	2	0	2	4	0	6	3	4	2	1	2	1	1	1	2	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:223177973C>T	uc001hnu.1	+	8	3381	c.3234C>T	c.(3232-3234)CGC>CGT	p.R1078R		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1078					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		CTCTGAGTCGCGTGGGCTCTG	0.592													7	73					0	0	0.001984	0	0		T	223177973	T	T	223177973	2	4	45	1	0	0	0	0	0	0	0	1	4545	755	27	1		1	DISP1	1	223177973	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	279093	223177973	26072648	88	34467											
CNIH3	149111	broad.mit.edu	37	chr1	224922304	224922304	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatagctcagaactagcctaCgacccaccggtggtcatgaa	12	7	10	12	2	2	2	2	1	0	1	2	4	2	2	3	2	4	1	3	2	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:224922304C>T	uc001hos.1	+	5	1049	c.351C>T	c.(349-351)TAC>TAT	p.Y117Y		NM_152495	NP_689708	Q8TBE1	CNIH3_HUMAN	cornichon homolog 3	117	Cytoplasmic (Potential).				intracellular signal transduction|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic shaft|postsynaptic membrane					0	Breast(184;0.218)			GBM - Glioblastoma multiforme(131;0.073)		AACTAGCCTACGACCCACCGG	0.517													14	88					0	0	0.001855	0	0		T	224922304	T	T	224922304	2	4	45	1	0	0	0	0	0	0	0	1	3607	547	19	1		1	CNIH3	1	224922304	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1744331	224922304	24328317	89	34468											
GJC2	57165	broad.mit.edu	37	chr1	228345675	228345675	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgctatgacgccttcgcGcccctgtcgcacgtgcgctt	3	11	11	16	6	1	1	0	1	1	0	3	1	1	1	3	0	2	3	3	0	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:228345675G>A	uc001hsk.2	+	2	391	c.216G>A	c.(214-216)GCG>GCA	p.A72A		NM_020435	NP_065168	Q5T442	CXG2_HUMAN	gap junction protein, gamma 2, 47kDa	72	Extracellular (Potential).				cell death	connexon complex|integral to membrane					0		Prostate(94;0.0405)				ACGCCTTCGCGCCCCTGTCGC	0.657													12	28					0	0	0.013537	0	0		A	228345675	A	A	228345675	2	1	45	1	0	0	0	0	0	0	0	1	6430	1074	38	1		1	GJC2	1	228345675	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3423371	228345675	20904946	90	34469											
PCNXL2	80003	broad.mit.edu	37	chr1	233397834	233397834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggttatgctttgccctctgGagctgcagcggaggggaggc	6	9	17	9	1	1	0	0	0	1	0	1	3	1	3	1	6	5	4	1	6	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:233397834G>A	uc001hvl.2	-	3	672	c.437C>T	c.(436-438)TCC>TTC	p.S146F	PCNXL2_uc009xfu.2_5'Flank|PCNXL2_uc009xfv.1_5'Flank	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	146						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				TTGCCCTCTGGAGCTGCAGCG	0.483													28	144					0	0	0.00632	0	0		A	233397834	A	A	233397834	3	1	45	1	0	0	0	0	1	0	0	0	11611	1174	41	4	6104	4	PCNXL2	1	233397834	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5052159	233397834	15852787	91	34470											
TARBP1	6894	broad.mit.edu	37	chr1	234569180	234569180	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgtccatctcttgaagAtgctgaatggatgcattttt	9	15	8	9	0	1	3	0	2	1	1	3	4	2	4	2	1	2	2	2	1	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:234569180A>T	uc001hwd.2	-	14	2370	c.2370T>A	c.(2368-2370)CAT>CAA	p.H790Q		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	790					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			TCTCTTGAAGATGCTGAATGG	0.378													18	48					0	0	0.008871	0	0		T	234569180	T	T	234569180	3	4	45	1	0	0	0	0	1	0	0	0	15580	330	12	5	2563	5	TARBP1	1	234569180	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1171346	234569180	14681441	92	34471											
NID1	4811	broad.mit.edu	37	chr1	236189263	236189263	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctcctggttgtacaggacGaacacgctgtccaccgagag	9	8	11	13	3	0	1	0	0	0	1	3	4	3	2	4	2	2	3	4	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:236189263G>A	uc001hxo.2	-	8	2019	c.1917C>T	c.(1915-1917)TTC>TTT	p.F639F	NID1_uc009xgd.2_Silent_p.F639F	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	639	Nidogen G2 beta-barrel.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	TGTACAGGACGAACACGCTGT	0.602													37	177					0	0	0.005524	0	0		A	236189263	A	A	236189263	2	1	45	1	0	0	0	0	0	0	0	1	10433	1049	37	1		1	NID1	1	236189263	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1620083	236189263	13061358	93	34472											
HEATR1	55127	broad.mit.edu	37	chr1	236766615	236766615	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgctagctgactgaacaaCggtgcttcaaactgctcaaa	12	11	8	10	1	2	2	2	2	0	0	2	2	2	2	0	1	7	4	0	1	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:236766615C>T	uc001hyd.1	-	3	329	c.204G>A	c.(202-204)CCG>CCA	p.P68P	HEATR1_uc001hye.1_Silent_p.P68P	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	68					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			GACTGAACAACGGTGCTTCAA	0.383													10	91					0	0	0.010729	0	0		T	236766615	T	T	236766615	2	4	45	1	0	0	0	0	0	0	0	1	7043	523	19	1		1	HEATR1	1	236766615	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	577352	236766615	12484006	94	34473											
FMN2	56776	broad.mit.edu	37	chr1	240555815	240555815	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcttgcactttcagccaaAattgaccaagaggcagagga	13	10	9	9	0	2	3	1	1	1	2	2	4	2	4	2	2	2	2	2	2	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:240555815A>C	uc010pyd.1	+	15	5088	c.4863A>C	c.(4861-4863)AAA>AAC	p.K1621N	FMN2_uc010pye.1_Missense_Mutation_p.K1625N|FMN2_uc010pyf.1_Missense_Mutation_p.K236N|FMN2_uc010pyg.1_Missense_Mutation_p.K217N	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1621	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TTTCAGCCAAAATTGACCAAG	0.333													4	109					0	0	0.009096	0	0		C	240555815	C	C	240555815	3	2	45	1	0	0	0	0	1	0	0	0	5964	11	1	5	4921	5	FMN2	1	240555815	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	3789200	240555815	8694806	95	34474											
EXO1	9156	broad.mit.edu	37	chr1	242035442	242035442	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgagcttttctgaagtgtTtgtgcctgacctggtaaatg	8	16	11	6	0	1	3	0	3	1	0	1	3	1	3	2	1	2	3	2	1	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:242035442T>C	uc001hzh.2	+	12	1916	c.1376T>C	c.(1375-1377)TTT>TCT	p.F459S	EXO1_uc001hzi.2_Missense_Mutation_p.F459S|EXO1_uc001hzj.2_Missense_Mutation_p.F459S|EXO1_uc009xgq.2_Missense_Mutation_p.F458S	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	459	Interaction with MLH1.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			TCTGAAGTGTTTGTGCCTGAC	0.363								Direct_reversal_of_damage|Editing_and_processing_nucleases					12	32					0	0	0.013537	0	0		C	242035442	C	C	242035442	3	2	45	1	0	0	0	0	1	0	0	0	5308	1841	64	3	1410	3	EXO1	1	242035442	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1479627	242035442	7215179	96	34475											
KIF26B	55083	broad.mit.edu	37	chr1	245850169	245850169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgagggtgagcagtcgtGccacagtttcatagcccaga	10	8	13	10	1	1	3	1	2	0	1	2	3	1	3	2	1	3	2	2	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:245850169G>A	uc001ibf.1	+	12	4324	c.3884G>A	c.(3883-3885)TGC>TAC	p.C1295Y	KIF26B_uc001ibg.1_Missense_Mutation_p.C913Y|KIF26B_uc001ibh.1_Missense_Mutation_p.C537Y	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1295					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			GAGCAGTCGTGCCACAGTTTC	0.612													4	29					0	0	0.000602	0	0		A	245850169	A	A	245850169	3	1	45	1	0	0	0	0	1	0	0	0	8311	1319	46	2	3930	2	KIF26B	1	245850169	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3814727	245850169	3400452	97	34476											
OR2W5	441932	broad.mit.edu	37	chr1	247654805	247654805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatgaccgctatgtggccGtctgccggtccctgcactac	5	9	10	17	3	1	1	0	1	1	0	2	1	2	1	5	2	3	2	5	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:247654805G>A	uc001icz.1	+	1	376	c.376G>A	c.(376-378)GTC>ATC	p.V126I		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	126					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CTATGTGGCCGTCTGCCGGTC	0.587													19	63					0	0	0.007413	0	0		A	247654805	A	A	247654805	3	1	45	1	0	0	0	0	1	0	0	0	11053	1145	40	1	378	1	OR2W5	1	247654805	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1804636	247654805	1595816	98	34477											
OR2G3	81469	broad.mit.edu	37	chr1	247769135	247769135	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgctcctcagaccttagTtaacttgcaaagaccaaaga	13	10	6	12	0	1	3	1	0	0	3	2	3	2	3	4	0	3	3	4	0	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:247769135T>G	uc010pyz.1	+	1	248	c.248T>G	c.(247-249)GTT>GGT	p.V83G		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	83	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			CAGACCTTAGTTAACTTGCAA	0.463													6	358					0	0	0.001168	0	0		G	247769135	G	G	247769135	3	3	45	1	0	0	0	0	1	0	0	0	11018	1725	60	5	250	5	OR2G3	1	247769135	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	114330	247769135	1481486	99	34478											
OR2L8	391190	broad.mit.edu	37	chr1	248112658	248112658	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatatgtactccatattcctTattgccgatccagggccatc	9	14	6	12	1	0	0	0	0	0	0	4	1	3	0	5	1	2	1	5	1	5	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:248112658T>C	uc001idt.1	+	1	499	c.499T>C	c.(499-501)TAT>CAT	p.Y167H	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			CCATATTCCTTATTGCCGATC	0.478													17	115					0	0	0.004007	0	0		C	248112658	C	C	248112658	3	2	45	1	0	0	0	0	1	0	0	0	11028	1754	61	3	501	3	OR2L8	1	248112658	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	343523	248112658	1137963	100	34479											
OR2L3	391192	broad.mit.edu	37	chr1	248224482	248224482	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatatgtactccatattcctTattgccaatccagggccatc	10	14	5	12	0	0	0	0	0	0	0	4	0	3	0	5	1	2	1	5	1	6	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:248224482T>C	uc001idx.1	+	1	499	c.499T>C	c.(499-501)TAT>CAT	p.Y167H	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			CCATATTCCTTATTGCCAATC	0.468													5	209					0	0	0.001168	0	0		C	248224482	C	C	248224482	3	2	45	1	0	0	0	0	1	0	0	0	11027	1754	61	3	501	3	OR2L3	1	248224482	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	111824	248224482	1026139	101	34480											
OR2M5	127059	broad.mit.edu	37	chr1	248309379	248309379	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttaggaaagggcaagtgTggagagtgagtactttgtaa	12	11	16	2	0	0	2	0	1	0	1	0	4	0	3	0	3	1	4	0	3	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:248309379T>C	uc010pze.1	+	1	930	c.930T>C	c.(928-930)TGT>TGC	p.C310C		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			AGGGCAAGTGTGGAGAGTGAG	0.428													18	47					0	0	0.010504	0	0		C	248309379	C	C	248309379	2	2	45	1	0	0	0	0	0	0	0	1	11032	1702	59	3		3	OR2M5	1	248309379	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	84897	248309379	941242	102	34481											
OR2T33	391195	broad.mit.edu	37	chr1	248436684	248436684	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacccaggagccaacacgAcatggtcatcctcaggcaca	12	5	9	15	1	2	0	2	0	0	0	3	2	3	1	3	3	3	2	3	3	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr1:248436684A>G	uc010pzi.1	-	1	433	c.433T>C	c.(433-435)TCG>CCG	p.S145P		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AGCCAACACGACATGGTCATC	0.577													21	234					0	0	0.012319	0	0		G	248436684	G	G	248436684	3	3	45	1	0	0	0	0	1	0	0	0	11043	275	10	3	532	3	OR2T33	1	248436684	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	127305	248436684	813937	103	34482											
ALLC	55821	broad.mit.edu	37	chr2	3743890	3743890	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcggggcaaagtctatggcGgatggttgggaaactgcaag	10	7	18	6	2	1	0	0	0	1	0	1	2	1	2	0	7	2	3	0	7	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:3743890G>A	uc010ewt.2	+	9	854	c.693G>A	c.(691-693)GCG>GCA	p.A231A	ALLC_uc002qyf.2_Silent_p.A2A	NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	250							allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)		AGTCTATGGCGGATGGTTGGG	0.348										HNSCC(21;0.051)			8	45					0	0	0.008291	0	0		A	3743890	A	A	3743890	2	1	45	1	0	0	0	0	0	0	0	1	534	1103	39	1		1	ALLC	2	3743890	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08		3743890	239455483	104	34483											
ASAP2	8853	broad.mit.edu	37	chr2	9515014	9515014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgagagatatttttggattgCtccaagcttatgctgatggt	9	15	11	6	1	0	2	0	1	0	1	1	5	1	3	1	2	3	3	1	2	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:9515014C>T	uc002qzh.2	+	17	2027	c.1687C>T	c.(1687-1689)CTC>TTC	p.L563F	ASAP2_uc002qzi.2_Missense_Mutation_p.L563F	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	563					regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						TTTTGGATTGCTCCAAGCTTA	0.448													5	145					0	0	0.001168	0	0		T	9515014	T	T	9515014	3	4	45	1	0	0	0	0	1	0	0	0	1012	797	28	2	1753	2	ASAP2	2	9515014	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	5771124	9515014	233684359	105	34484											
TAF1B	9014	broad.mit.edu	37	chr2	10022916	10022916	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattatatggacgtgacagAggaatctttggtatagaggt	14	12	12	3	1	1	3	0	1	1	2	1	5	1	5	0	4	0	1	0	4	6	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:10022916A>G	uc002qzz.2	+	8	889	c.789A>G	c.(787-789)AGA>AGG	p.R263R	TAF1B_uc010exc.2_Silent_p.R263R|TAF1B_uc002qzy.3_Silent_p.R263R|TAF1B_uc010yja.1_Silent_p.R8R|TAF1B_uc010exd.2_Silent_p.R8R	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	263					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GACGTGACAGAGGAATCTTTG	0.313													15	57					0	0	0.00499	0	0		G	10022916	G	G	10022916	2	3	45	1	0	0	0	0	0	0	0	1	15545	301	11	3		3	TAF1B	2	10022916	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	507902	10022916	233176457	106	34485											
DNMT3A	1788	broad.mit.edu	37	chr2	25505567	25505567	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcagggtcctttggcgtgTcaccgctttccacctgcaaa	6	10	10	15	3	1	0	1	0	0	0	3	0	3	0	5	2	1	3	5	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:25505567T>G	uc002rgc.2	-	4	448	c.191A>C	c.(190-192)GAC>GCC	p.D64A	DNMT3A_uc002rgd.2_Missense_Mutation_p.D64A|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rge.2_Missense_Mutation_p.D61A|DNMT3A_uc002rgf.2_Missense_Mutation_p.D64A	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	64					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTTGGCGTGTCACCGCTTTC	0.413			Mis|F|N|S		AML								4	115					0	0	0.000602	0	0		G	25505567	G	G	25505567	3	3	45	1	0	0	0	0	1	0	0	0	4682	1667	58	5	2760	5	DNMT3A	2	25505567	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	15482651	25505567	217693806	107	34486											
ASXL2	55252	broad.mit.edu	37	chr2	25965810	25965810	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctaaagctctctgagccccgGccgtaggtagaaatattcag	11	9	10	11	2	2	2	1	1	1	1	3	2	2	2	3	2	2	3	3	2	6	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:25965810G>A	uc002rgs.2	-	12	3617	c.3396C>T	c.(3394-3396)GGC>GGT	p.G1132G	ASXL2_uc002rgt.1_Silent_p.G615G	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1132					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGAGCCCCGGCCGTAGGTAG	0.488													33	151					0	0	0.009535	0	0		A	25965810	A	A	25965810	2	1	45	1	0	0	0	0	0	0	0	1	1068	1190	42	2		2	ASXL2	2	25965810	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	460243	25965810	217233563	108	34487											
GALNT14	79623	broad.mit.edu	37	chr2	31360851	31360851	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctgcacttcaggtcccgtCggcacctccaacttcctctt	5	12	7	17	2	3	0	1	0	2	0	7	0	6	0	4	2	2	2	4	2	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:31360851C>T	uc002rnr.2	-	1	721	c.102G>A	c.(100-102)CCG>CCA	p.P34P	GALNT14_uc002rns.2_Silent_p.P34P|GALNT14_uc010ymr.1_5'UTR|GALNT14_uc010ezo.1_Silent_p.P34P|GALNT14_uc010ezp.1_Intron	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	34	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					CAGGTCCCGTCGGCACCTCCA	0.672													8	30					0	0	0.00308	0	0		T	31360851	T	T	31360851	2	4	45	1	0	0	0	0	0	0	0	1	6227	871	31	1		1	GALNT14	2	31360851	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	5395041	31360851	211838522	109	34488											
TMEM178	130733	broad.mit.edu	37	chr2	39893185	39893185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctggggctgctcgtcaCggccatcttcaccgaccact	5	9	9	18	3	3	0	2	0	1	0	5	1	4	0	4	3	1	2	4	3	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:39893185C>T	uc002rrt.2	+	1	96	c.71C>T	c.(70-72)ACG>ATG	p.T24M	TMEM178_uc010fam.1_Missense_Mutation_p.T24M	NM_152390	NP_689603	Q8NBL3	TM178_HUMAN	transmembrane protein 178 precursor	24						integral to membrane					0		all_hematologic(82;0.248)				CTGCTCGTCACGGCCATCTTC	0.632													5	22					0	0	0.001168	0	0		T	39893185	T	T	39893185	3	4	45	1	0	0	0	0	1	0	0	0	16120	536	19	1	73	1	TMEM178	2	39893185	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	8532334	39893185	203306188	110	34489											
SLC8A1	6546	broad.mit.edu	37	chr2	40657279	40657279	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaatatgatccagtacattCaccagtttcatttccttctc	10	16	4	11	0	3	1	2	1	1	0	6	1	5	1	3	0	1	3	3	0	3	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:40657279C>A	uc002rrx.2	-	1	166	c.142G>T	c.(142-144)GAA>TAA	p.E48*	SLC8A1_uc002rry.2_Nonsense_Mutation_p.E48*|SLC8A1_uc002rrz.2_Nonsense_Mutation_p.E48*|SLC8A1_uc002rsa.2_Nonsense_Mutation_p.E48*|SLC8A1_uc002rsd.3_Nonsense_Mutation_p.E48*|SLC8A1_uc002rsb.1_Nonsense_Mutation_p.E48*|SLC8A1_uc010fan.1_Nonsense_Mutation_p.E48*|SLC8A1_uc002rsc.1_Nonsense_Mutation_p.E48*	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	48	Extracellular (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CCAGTACATTCACCAGTTTCA	0.408													16	108					6.94344e-10	7.68327e-10	0.006122	1	0		A	40657279	A	A	40657279	4	1	45	1	0	0	0	0	0	1	0	0	14731	835	29	5	2927	5	SLC8A1	2	40657279	Nonsense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	764094	40657279	202542094	111	34490											
ABCG5	64240	broad.mit.edu	37	chr2	44051074	44051074	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattcacagcgttcagcatGcctgtgtacggggtggcgcc	7	9	14	11	3	2	1	2	0	0	1	2	1	2	1	2	3	4	3	2	3	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:44051074G>A	uc002rtn.2	-	9	1442	c.1302C>T	c.(1300-1302)GGC>GGT	p.G434G	ABCG5_uc002rtm.2_Silent_p.G39G|ABCG5_uc002rto.2_Silent_p.G263G|ABCG5_uc002rtp.2_Silent_p.G39G	NM_022436	NP_071881	Q9H222	ABCG5_HUMAN	ATP-binding cassette sub-family G member 5	434	Helical; Name=2; (Potential).|ABC transmembrane type-2.				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			ovary(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CGTTCAGCATGCCTGTGTACG	0.527													9	46					0	0	0.006214	0	0		A	44051074	A	A	44051074	2	1	45	1	0	0	0	0	0	0	0	1	71	1306	46	2		2	ABCG5	2	44051074	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3393795	44051074	199148299	112	34491											
SIX2	10736	broad.mit.edu	37	chr2	45235980	45235980	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccgcctcgatgtagtgTgccttgagccacagctgctg	5	12	11	13	2	1	1	0	1	1	0	3	2	1	1	4	0	4	3	4	0	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:45235980T>C	uc002ruo.2	-	1	563	c.270A>G	c.(268-270)GCA>GCG	p.A90A	SIX2_uc002rup.2_Silent_p.A90A	NM_016932	NP_058628	Q9NPC8	SIX2_HUMAN	SIX homeobox 2	90						nucleus	sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CGATGTAGTGTGCCTTGAGCC	0.662													14	76					0	0	0.003163	0	0		C	45235980	C	C	45235980	2	2	45	1	0	0	0	0	0	0	0	1	14372	1683	59	3		3	SIX2	2	45235980	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1184906	45235980	197963393	113	34492											
EPAS1	2034	broad.mit.edu	37	chr2	46583304	46583304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccagtttgctctgaaaacGagtccgaagccgaagctgac	11	9	10	11	3	1	2	0	2	1	0	3	5	3	2	3	0	4	3	3	0	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:46583304G>A	uc002ruv.2	+	3	720	c.232G>A	c.(232-234)GAG>AAG	p.E78K		NM_001430	NP_001421	Q99814	EPAS1_HUMAN	endothelial PAS domain protein 1	78					angiogenesis|myoblast cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|response to hypoxia	transcription factor complex	histone acetyltransferase binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription coactivator activity|transcription factor binding			ovary(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	LUSC - Lung squamous cell carcinoma(58;0.151)			CTCTGAAAACGAGTCCGAAGC	0.527													14	65					0	0	0.001855	0	0		A	46583304	A	A	46583304	3	1	45	1	0	0	0	0	1	0	0	0	5158	1059	37	1	242	1	EPAS1	2	46583304	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1347324	46583304	196616069	114	34493											
FBXO11	80204	broad.mit.edu	37	chr2	48066832	48066832	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcggcaaaagagttttTctacgaagttggtatggact	10	15	10	6	2	1	1	0	0	1	1	2	3	1	2	0	3	1	4	0	3	5	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:48066832T>C	uc010fbl.2	-	2	171	c.57A>G	c.(55-57)AGA>AGG	p.R19R	FBXO11_uc002rwe.2_Silent_p.R19R|FBXO11_uc002rwf.2_Silent_p.R19R|FBXO11_uc002rwg.1_Silent_p.R19R	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	103					ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AAAGAGTTTTTCTACGAAGTT	0.368													12	72					0	0	0.013537	0	0		C	48066832	C	C	48066832	2	2	45	1	0	0	0	0	0	0	0	1	5741	1780	62	3		3	FBXO11	2	48066832	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1483528	48066832	195132541	115	34494											
MTIF2	4528	broad.mit.edu	37	chr2	55490842	55490842	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcacatctgttggccagggCcaggcacacagttgagctgt	9	8	13	11	0	1	1	0	1	1	0	1	1	1	1	2	3	2	5	2	3	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:55490842C>T	uc002ryn.2	-	5	890	c.153G>A	c.(151-153)TGG>TGA	p.W51*	MTIF2_uc010yox.1_5'UTR|MTIF2_uc002ryo.2_Nonsense_Mutation_p.W51*|MTIF2_uc002ryp.1_RNA	NM_001005369	NP_001005369	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	51					regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1						TTGGCCAGGGCCAGGCACACA	0.423													11	81					0	0	0.008291	0	0		T	55490842	T	T	55490842	4	4	45	1	0	0	0	0	0	1	0	0	9952	740	26	2	2082	2	MTIF2	2	55490842	Nonsense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	7424010	55490842	187708531	116	34495											
BCL11A	53335	broad.mit.edu	37	chr2	60688703	60688703	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcgctggtgccgggttcCggggagctggcggtggagag	5	7	21	8	4	0	1	0	0	0	1	2	3	1	2	2	7	2	3	2	7	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:60688703C>T	uc002sae.1	-	4	1572	c.1344G>A	c.(1342-1344)CCG>CCA	p.P448P	BCL11A_uc002sab.2_Silent_p.P448P|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Silent_p.P117P|BCL11A_uc010ypj.1_Silent_p.P414P|BCL11A_uc002sad.1_Silent_p.P296P|BCL11A_uc002saf.1_Silent_p.P414P	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	448					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			TGCCGGGTTCCGGGGAGCTGG	0.627			T	IGH@	B-CLL								11	52					0	0	0.010729	0	0		T	60688703	T	T	60688703	2	4	45	1	0	0	0	0	0	0	0	1	1364	639	23	1		1	BCL11A	2	60688703	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	5197861	60688703	182510670	117	34496											
SPRED2	200734	broad.mit.edu	37	chr2	65571937	65571937	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaccttacagaccccgacGcgactgatcccgcctccttc	8	8	7	18	4	0	3	0	2	0	1	3	5	2	3	6	0	1	0	6	0	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:65571937G>A	uc002sdr.3	-	2	655	c.120C>T	c.(118-120)CGC>CGT	p.R40R	SPRED2_uc010fcw.2_Silent_p.R37R|SPRED2_uc010fcx.1_RNA	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	40	WH1.				inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						AGACCCCGACGCGACTGATCC	0.532													6	30					0	0	0.001168	0	0		A	65571937	A	A	65571937	2	1	45	1	0	0	0	0	0	0	0	1	15118	1074	38	1		1	SPRED2	2	65571937	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4883234	65571937	177627436	118	34497											
AAK1	22848	broad.mit.edu	37	chr2	69748037	69748037	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggctggatgggaaggattCctgggttcggctgagtctgc	5	11	17	8	1	1	1	0	1	1	0	3	4	2	4	1	6	1	3	1	6	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:69748037C>A	uc002sfp.2	-	11	1644	c.1139G>T	c.(1138-1140)GGA>GTA	p.G380V	AAK1_uc010fdk.2_Missense_Mutation_p.G380V|AAK1_uc010yqm.1_Missense_Mutation_p.G380V|SNORA36C_uc010fdl.2_5'Flank	NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	380						coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0						GGGAAGGATTCCTGGGTTCGG	0.552													35	128					4.3181e-19	4.9501e-19	0.013726	1	0		A	69748037	A	A	69748037	3	1	45	1	0	0	0	0	1	0	0	0	16	855	30	5	1794	5	AAK1	2	69748037	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4176100	69748037	173451336	119	34498											
MPHOSPH10	10199	broad.mit.edu	37	chr2	71365669	71365669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttgttagaaaaaaagcCgtggcagcttcagggggaag	14	7	15	5	1	1	2	1	0	0	2	1	3	1	3	1	3	2	4	1	3	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:71365669C>T	uc002sht.1	+	5	1500	c.1148C>T	c.(1147-1149)CCG>CTG	p.P383L	MPHOSPH10_uc010feb.1_Missense_Mutation_p.P383L	NM_005791	NP_005782	O00566	MPP10_HUMAN	M-phase phosphoprotein 10	383					RNA splicing, via transesterification reactions|rRNA processing	chromosome|nucleolus|small nucleolar ribonucleoprotein complex	protein binding			skin(2)|ovary(1)	3						GAAAAAAAGCCGTGGCAGCTT	0.398													9	32					0	0	0.010729	0	0		T	71365669	T	T	71365669	3	4	45	1	0	0	0	0	1	0	0	0	9743	652	23	1	1166	1	MPHOSPH10	2	71365669	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1617632	71365669	171833704	120	34499											
DQX1	165545	broad.mit.edu	37	chr2	74749707	74749707	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacagcagcgatttatacCtgtgagcatggcagccaggg	10	10	12	9	1	0	1	0	1	0	0	0	2	0	1	2	2	6	3	2	2	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:74749707C>A	uc010yrw.1	-	8	1660	c.1495G>T	c.(1495-1497)GCT>TCT	p.A499S	DQX1_uc002smc.2_Missense_Mutation_p.A60S	NM_133637	NP_598376	Q8TE96	DQX1_HUMAN	DEAQ box polypeptide 1 (RNA-dependent ATPase)	499						nucleus	ATP binding|helicase activity|nucleic acid binding			ovary(2)	2						CGATTTATACCTGTGAGCATG	0.438													16	84					6.72482e-11	7.4827e-11	0.003163	1	0		A	74749707	A	A	74749707	3	1	45	1	0	0	0	0	1	0	0	0	4757	695	24	5	678	5	DQX1	2	74749707	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3384038	74749707	168449666	121	34500											
LRRTM4	80059	broad.mit.edu	37	chr2	77746748	77746748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatataagctggttaaggcCggcaaactgattggatttga	12	11	11	7	1	0	2	0	2	0	0	0	3	0	3	2	4	2	3	2	4	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:77746748C>T	uc002snr.2	-	3	662	c.247G>A	c.(247-249)GGC>AGC	p.G83S	LRRTM4_uc002snq.2_Missense_Mutation_p.G83S|LRRTM4_uc002sns.2_Missense_Mutation_p.G83S|LRRTM4_uc002snt.2_Missense_Mutation_p.G84S	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	83	LRR 1.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TGGTTAAGGCCGGCAAACTGA	0.403													18	77					0	0	0.006122	0	0		T	77746748	T	T	77746748	3	4	45	1	0	0	0	0	1	0	0	0	9060	652	23	1	1539	1	LRRTM4	2	77746748	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2997041	77746748	165452625	122	34501											
RETSAT	54884	broad.mit.edu	37	chr2	85581587	85581587	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtaaactttgcagaggacgGccagcagcagcacagccagg	13	4	13	11	1	0	1	0	0	0	1	0	2	0	2	2	3	6	5	2	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:85581587G>T	uc002spd.2	-	1	235	c.44C>A	c.(43-45)GCC>GAC	p.A15D	ELMOD3_uc010fgg.2_5'Flank|ELMOD3_uc002spf.3_5'Flank|ELMOD3_uc002spg.3_5'Flank|ELMOD3_uc002sph.3_5'Flank|ELMOD3_uc010ysn.1_5'Flank|ELMOD3_uc010yso.1_5'Flank|ELMOD3_uc010ysp.1_5'Flank|RETSAT_uc010ysm.1_Missense_Mutation_p.A15D|RETSAT_uc010fgf.2_Missense_Mutation_p.A15D	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	15					retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(2)	2					Vitamin A(DB00162)	GCAGAGGACGGCCAGCAGCAG	0.607													25	117					4.87955e-14	5.5126e-14	0.005443	1	0		T	85581587	T	T	85581587	3	4	45	1	0	0	0	0	1	0	0	0	13263	1203	42	5	1832	5	RETSAT	2	85581587	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	7834839	85581587	157617786	123	34502											
ELMOD3	84173	broad.mit.edu	37	chr2	85604483	85604483	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggagcgaatccagccacAgacctgagaggcgcaggctt	12	4	13	12	2	0	2	0	1	0	2	1	5	1	3	3	3	2	2	3	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:85604483A>G	uc002spf.3	+	12	1289	c.624A>G	c.(622-624)ACA>ACG	p.T208T	ELMOD3_uc010fgg.2_RNA|ELMOD3_uc002spg.3_Silent_p.T208T|ELMOD3_uc002sph.3_Silent_p.T208T|ELMOD3_uc010ysn.1_Silent_p.T208T|ELMOD3_uc010yso.1_RNA|ELMOD3_uc010ysp.1_RNA	NM_001135021	NP_001128493	Q96FG2	ELMD3_HUMAN	ELMO/CED-12 domain containing 3 isoform b	208	ELMO.				phagocytosis	cytoskeleton				ovary(2)	2						ATCCAGCCACAGACCTGAGAG	0.587													6	52					0	0	0.001984	0	0		G	85604483	G	G	85604483	2	3	45	1	0	0	0	0	0	0	0	1	5078	175	7	3		3	ELMOD3	2	85604483	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	22896	85604483	157594890	124	34503											
KDM3A	55818	broad.mit.edu	37	chr2	86712114	86712114	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgttgaaacttaaggactgGccaccaggagaagattttag	13	10	12	6	0	0	3	0	1	0	2	0	5	0	4	2	3	1	1	2	3	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:86712114G>A	uc002sri.3	+	20	3471	c.3144G>A	c.(3142-3144)TGG>TGA	p.W1048*	KDM3A_uc010ytj.1_Nonsense_Mutation_p.W1048*|KDM3A_uc010ytk.1_Nonsense_Mutation_p.W996*	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	1048					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						TTAAGGACTGGCCACCAGGAG	0.358													3	36					0	0	0.000602	0	0		A	86712114	A	A	86712114	4	1	45	1	0	0	0	0	0	1	0	0	8142	1212	42	2	3218	2	KDM3A	2	86712114	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1107631	86712114	156487259	125	34504											
ACTR1B	10120	broad.mit.edu	37	chr2	98274469	98274469	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgtccggcgcaggtccaTgtcggacttgtgtatggcga	6	9	15	11	5	0	0	0	0	0	0	3	2	2	1	2	4	1	2	2	4	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:98274469T>C	uc002syb.2	-	8	1070	c.862A>G	c.(862-864)ATG>GTG	p.M288V		NM_005735	NP_005726	P42025	ACTY_HUMAN	ARP1 actin-related protein 1 homolog B,	288						centrosome|dynactin complex	ATP binding|protein binding			skin(1)	1						CGCAGGTCCATGTCGGACTTG	0.607													4	90					0	0	0.000602	0	0		C	98274469	C	C	98274469	3	2	45	1	0	0	0	0	1	0	0	0	210	1464	51	3	284	3	ACTR1B	2	98274469	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	11562355	98274469	144924904	126	34505											
IL1R2	7850	broad.mit.edu	37	chr2	102625045	102625045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgtcaggagcaatgttgcGcttgtacgtgttggtaatgg	7	14	15	5	2	1	0	1	0	0	0	1	1	1	1	0	3	3	7	0	3	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:102625045G>A	uc002tbm.2	+	2	237	c.8G>A	c.(7-9)CGC>CAC	p.R3H	IL1R2_uc002tbn.2_Missense_Mutation_p.R3H|IL1R2_uc002tbo.1_Missense_Mutation_p.R3H	NM_004633	NP_004624	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II precursor	3					immune response	integral to membrane|plasma membrane	interleukin-1, Type II, blocking receptor activity			ovary(1)|breast(1)	2					Anakinra(DB00026)	GCAATGTTGCGCTTGTACGTG	0.532													8	241					0	0	0.00308	0	0		A	102625045	A	A	102625045	3	1	45	1	0	0	0	0	1	0	0	0	7675	1087	38	1	10	1	IL1R2	2	102625045	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4350576	102625045	140574328	127	34506											
SLC9A4	389015	broad.mit.edu	37	chr2	103130652	103130652	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagctggaaatgaagcaaGccatcgagatggtggagact	15	6	14	6	1	0	4	0	1	0	3	1	7	0	5	1	3	3	2	1	3	4	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:103130652G>T	uc002tbz.3	+	8	2120	c.1663G>T	c.(1663-1665)GCC>TCC	p.A555S		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	555	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						AATGAAGCAAGCCATCGAGAT	0.234													22	97					1.64293e-13	1.84863e-13	0.00333	1	0		T	103130652	T	T	103130652	3	4	45	1	0	0	0	0	1	0	0	0	14741	971	34	5	1693	5	SLC9A4	2	103130652	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	505607	103130652	140068721	128	34507											
ACOXL	55289	broad.mit.edu	37	chr2	111562961	111562961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgtggctttccaagctatgGgtgccatgaaggtaattgac	9	12	12	8	0	0	2	0	2	0	0	1	2	1	2	2	3	2	3	2	3	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:111562961G>A	uc002tgr.3	+	9	966	c.742G>A	c.(742-744)GGT>AGT	p.G248S	ACOXL_uc010fkc.2_Missense_Mutation_p.G248S|ACOXL_uc010yxk.1_Missense_Mutation_p.G248S	NM_001105516	NP_001098986	Q9NUZ1	ACOXL_HUMAN	acyl-Coenzyme A oxidase-like 2	248					fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0						CCAAGCTATGGGTGCCATGAA	0.453													13	102					0	0	0.003163	0	0		A	111562961	A	A	111562961	3	1	45	1	0	0	0	0	1	0	0	0	161	1232	43	4	772	4	ACOXL	2	111562961	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	8432309	111562961	131636412	129	34508											
ZC3H6	376940	broad.mit.edu	37	chr2	113069467	113069467	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaagaacgtgggggaagaAccaataaagggcctaatgtg	17	5	14	5	1	0	2	0	0	0	2	0	4	0	3	2	3	2	0	2	3	9	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:113069467A>C	uc002thq.1	+	5	1094	c.700A>C	c.(700-702)ACC>CCC	p.T234P		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	234							nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						TGGGGGAAGAACCAATAAAGG	0.368													9	43					0	0	0.004482	0	0		C	113069467	C	C	113069467	3	2	45	1	0	0	0	0	1	0	0	0	17596	43	2	5	718	5	ZC3H6	2	113069467	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1506506	113069467	130129906	130	34509											
RGPD5	84220	broad.mit.edu	37	chr2	113146043	113146043	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatttcttctaatacagcTacagcaattttgccacatgg	11	14	7	9	0	2	1	0	1	2	0	2	1	2	1	1	1	5	2	1	1	4	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:113146043T>C	uc002ths.1	-	20	4556	c.4479A>G	c.(4477-4479)GTA>GTG	p.V1493V	RGPD8_uc010fkk.1_Silent_p.V1353V|RGPD5_uc002tht.1_Silent_p.V744V	NM_005054	NP_005045	Q99666	RGPD5_HUMAN	RANBP2-like and GRIP domain containing 5 isoform	1493					intracellular transport	cytoplasm	binding				0						CTAATACAGCTACAGCAATTT	0.418													25	215					0	0	0.007291	0	0		C	113146043	C	C	113146043	2	2	45	1	0	0	0	0	0	0	0	1	13314	1509	53	3		3	RGPD5	2	113146043	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	76576	113146043	130053330	131	34510											
INHBB	3625	broad.mit.edu	37	chr2	121106806	121106806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcctggagaagggcagcCggcggaaggtgcgggtcaaa	10	4	18	9	4	1	1	1	0	0	1	2	3	2	2	2	6	2	1	2	6	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:121106806C>T	uc002tmn.2	+	2	626	c.580C>T	c.(580-582)CGG>TGG	p.R194W		NM_002193	NP_002184	P09529	INHBB_HUMAN	inhibin beta B subunit preproprotein	194					activin receptor signaling pathway|cellular response to insulin stimulus|cellular response to starvation|defense response|fat cell differentiation|growth|negative regulation of follicle-stimulating hormone secretion|negative regulation of hepatocyte growth factor biosynthetic process|negative regulation of insulin secretion|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation	extracellular region|perinuclear region of cytoplasm	cytokine activity|growth factor activity|hormone activity|host cell surface receptor binding|protein homodimerization activity			pancreas(2)|skin(1)	3		Prostate(154;0.122)				GAAGGGCAGCCGGCGGAAGGT	0.597													13	76					0	0	0.013537	0	0		T	121106806	T	T	121106806	3	4	45	1	0	0	0	0	1	0	0	0	7758	643	23	1	586	1	INHBB	2	121106806	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	7960763	121106806	122092567	132	34511											
GLI2	2736	broad.mit.edu	37	chr2	121746625	121746625	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtggcggcaggagtggaCggcgcggggcccgaggccga	5	2	22	12	7	0	0	0	0	0	0	0	4	0	2	3	8	0	1	3	8	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:121746625C>T	uc010flp.2	+	13	3165	c.3135C>T	c.(3133-3135)GAC>GAT	p.D1045D	GLI2_uc002tmq.1_Silent_p.D717D|GLI2_uc002tmr.1_Silent_p.D700D|GLI2_uc002tmt.3_Silent_p.D717D|GLI2_uc002tmu.3_Silent_p.D700D	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	1045					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				CAGGAGTGGACGGCGCGGGGC	0.736													11	28					0	0	0.013537	0	0		T	121746625	T	T	121746625	2	4	45	1	0	0	0	0	0	0	0	1	6453	535	19	1		1	GLI2	2	121746625	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	639819	121746625	121452748	133	34512											
HS6ST1	9394	broad.mit.edu	37	chr2	129025949	129025949	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacagctgcatgtccaggtcGttgagctcctcgatgcgccg	6	10	12	13	4	0	1	0	1	0	0	4	2	2	1	3	1	5	4	3	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:129025949G>A	uc002tpt.3	-	2	1057	c.1023C>T	c.(1021-1023)AAC>AAT	p.N341N		NM_004807	NP_004798	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	341	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	integral to plasma membrane	sulfotransferase activity			pancreas(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		TGTCCAGGTCGTTGAGCTCCT	0.622													10	56					0	0	0.010729	0	0		A	129025949	A	A	129025949	2	1	45	1	0	0	0	0	0	0	0	1	7386	1136	40	1		1	HS6ST1	2	129025949	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	7279324	129025949	114173424	134	34513											
ARHGEF4	50649	broad.mit.edu	37	chr2	131688588	131688588	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctctcacagtcagaaggcgTtccacatggagcctgcccag	9	7	11	14	1	2	1	2	0	1	1	4	2	3	2	3	2	2	2	3	2	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:131688588T>C	uc002tsa.1	+	3	578	c.58T>C	c.(58-60)TTC>CTC	p.F20L	ARHGEF4_uc010fmw.1_Missense_Mutation_p.F666L|ARHGEF4_uc002tsb.1_Missense_Mutation_p.F20L|ARHGEF4_uc010fmx.1_Missense_Mutation_p.F20L|ARHGEF4_uc002trz.1_Missense_Mutation_p.F666L	NM_015320	NP_056135	Q9NR80	ARHG4_HUMAN	Rho guanine nucleotide exchange factor 4 isoform	20					apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|lamellipodium assembly|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|ruffle membrane	protein domain specific binding|Rac guanyl-nucleotide exchange factor activity			breast(3)|ovary(2)|skin(1)	6		Prostate(154;0.055)		BRCA - Breast invasive adenocarcinoma(221;0.097)		TCAGAAGGCGTTCCACATGGA	0.597													13	61					0	0	0.001855	0	0		C	131688588	C	C	131688588	3	2	45	1	0	0	0	0	1	0	0	0	908	1725	60	3	60	3	ARHGEF4	2	131688588	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2662639	131688588	111510785	135	34514											
ACMSD	130013	broad.mit.edu	37	chr2	135628620	135628620	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaaactgaaagtgtgtttCgcacatggtggtaagaccct	11	10	10	10	1	0	2	0	1	0	1	1	2	0	2	2	2	1	3	2	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:135628620C>T	uc002ttz.2	+	7	733	c.666C>T	c.(664-666)TTC>TTT	p.F222F	ACMSD_uc002tua.2_Silent_p.F164F|uc010zbe.1_Intron	NM_138326	NP_612199	Q8TDX5	ACMSD_HUMAN	aminocarboxymuconate semialdehyde decarboxylase	222					quinolinate metabolic process|tryptophan catabolic process	cytosol	aminocarboxymuconate-semialdehyde decarboxylase activity|metal ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.115)		AAGTGTGTTTCGCACATGGTG	0.279													5	36					0	0	0.000602	0	0		T	135628620	T	T	135628620	2	4	45	1	0	0	0	0	0	0	0	1	144	883	31	1		1	ACMSD	2	135628620	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3940032	135628620	107570753	136	34515											
ACMSD	130013	broad.mit.edu	37	chr2	135630090	135630090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccatggattcagcatgcGcccagatctgtgtgcccagg	7	9	11	14	1	2	1	1	0	1	1	3	2	3	2	3	2	3	1	3	2	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:135630090G>A	uc002ttz.2	+	8	795	c.728G>A	c.(727-729)CGC>CAC	p.R243H	ACMSD_uc002tua.2_Missense_Mutation_p.R185H|uc010zbe.1_Intron	NM_138326	NP_612199	Q8TDX5	ACMSD_HUMAN	aminocarboxymuconate semialdehyde decarboxylase	243					quinolinate metabolic process|tryptophan catabolic process	cytosol	aminocarboxymuconate-semialdehyde decarboxylase activity|metal ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.115)		TTCAGCATGCGCCCAGATCTG	0.493													8	43					0	0	0.004482	0	0		A	135630090	A	A	135630090	3	1	45	1	0	0	0	0	1	0	0	0	144	1087	38	1	758	1	ACMSD	2	135630090	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1470	135630090	107569283	137	34516											
RAB3GAP1	22930	broad.mit.edu	37	chr2	135848570	135848570	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttattggtacatatagggTatatttacttctggcacatg	10	18	8	5	0	1	0	0	0	1	0	1	0	1	0	0	3	2	3	0	3	7	11			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:135848570T>C	uc002tuj.2	+	4	178	c.153T>C	c.(151-153)GGT>GGC	p.G51G	RAB3GAP1_uc010fnf.2_Silent_p.G51G|RAB3GAP1_uc010fng.2_5'UTR|RAB3GAP1_uc010fnh.1_RNA	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein	51						centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		ACATATAGGGTATATTTACTT	0.343													18	86					0	0	0.014323	0	0		C	135848570	C	C	135848570	2	2	45	1	0	0	0	0	0	0	0	1	12960	1625	57	3		3	RAB3GAP1	2	135848570	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	218480	135848570	107350803	138	34517											
KYNU	8942	broad.mit.edu	37	chr2	143718341	143718341	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagctggacaagcgaaggTatgcacgccatttacttctt	13	10	9	9	2	1	0	0	0	1	0	1	2	1	1	1	2	4	3	1	2	6	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:143718341T>C	uc002tvl.2	+	8	859	c.729_splice	c.e8+2	p.K243_splice	KYNU_uc002tvk.2_Splice_Site_p.K243_splice|KYNU_uc010fnm.2_Splice_Site_p.K243_splice	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a						anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	CAAGCGAAGGTATGCACGCCA	0.428													21	93					0	0	0.00333	0	0		C	143718341	C	C	143718341	5	2	45	1	0	0	0	0	0	0	1	0	8603	1652	57	3	757	3	KYNU	2	143718341	Splice_Site	SNP	T	TCGA-BR-6852-01A-11D-1882-08	7869771	143718341	99481032	139	34518											
NEB	4703	broad.mit.edu	37	chr2	152374867	152374867	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtggcctcttttaggtgaaGctgctccagattatcgggta	7	14	12	8	1	1	2	0	1	1	1	3	2	2	2	2	3	2	3	2	3	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:152374867G>T	uc010fnx.2	-	128	17853	c.17662C>A	c.(17662-17664)CTT>ATT	p.L5888I	NEB_uc002txr.2_Missense_Mutation_p.L2311I|NEB_uc002txt.3_Missense_Mutation_p.L393I	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	5888	Nebulin 161.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TTTAGGTGAAGCTGCTCCAGA	0.438													62	344					3.19358e-47	3.68813e-47	0.01441	1	0		T	152374867	T	T	152374867	3	4	45	1	0	0	0	0	1	0	0	0	10321	971	34	5	2920	5	NEB	2	152374867	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	8656526	152374867	90824506	140	34519											
NEB	4703	broad.mit.edu	37	chr2	152427010	152427010	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttaaaaaaggccactcaCgtcactggcaatctccctgg	13	8	8	12	1	3	0	2	0	1	0	4	0	3	0	2	3	0	2	2	3	5	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:152427010C>T	uc010fnx.2	-	80	12206	c.12015_splice	c.e80+1	p.D4005_splice	NEB_uc002txr.2_Splice_Site_p.D428_splice	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3						muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		AGGCCACTCACGTCACTGGCA	0.517													3	19					0	0	0.004672	0	0		T	152427010	T	T	152427010	5	4	45	1	0	0	0	0	0	0	1	0	10321	550	19	1	8867	1	NEB	2	152427010	Splice_Site	SNP	C	TCGA-BR-6852-01A-11D-1882-08	52143	152427010	90772363	141	34520											
RPRM	56475	broad.mit.edu	37	chr2	154334943	154334943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtacaggctacgctcgtccGggcctccctccgcgaagccg	5	7	12	17	6	0	0	0	0	0	0	4	1	3	0	5	2	3	3	5	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:154334943G>A	uc002tyq.1	-	1	380	c.137C>T	c.(136-138)CCG>CTG	p.P46L		NM_019845	NP_062819	Q9NS64	RPRM_HUMAN	reprimo, TP53 dependant G2 arrest mediator	46					cell cycle arrest	cytoplasm|integral to membrane	protein binding				0						ACGCTCGTCCGGGCCTCCCTC	0.657													10	46					0	0	0.010729	0	0		A	154334943	A	A	154334943	3	1	45	1	0	0	0	0	1	0	0	0	13643	1116	39	1	196	1	RPRM	2	154334943	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1907933	154334943	88864430	142	34521											
KCNJ3	3760	broad.mit.edu	37	chr2	155555820	155555820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtggacgccttcctcatcgGctgcatgttcatcaagatgt	7	12	10	12	3	3	1	3	0	0	1	5	2	4	2	2	2	1	3	2	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:155555820G>A	uc002tyv.1	+	1	728	c.533G>A	c.(532-534)GGC>GAC	p.G178D	KCNJ3_uc010zce.1_Missense_Mutation_p.G178D	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	178	Helical; Name=M2; (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	TTCCTCATCGGCTGCATGTTC	0.577													14	53					0	0	0.004007	0	0		A	155555820	A	A	155555820	3	1	45	1	0	0	0	0	1	0	0	0	8068	1203	42	2	535	2	KCNJ3	2	155555820	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1220877	155555820	87643553	143	34522											
ITGB6	3694	broad.mit.edu	37	chr2	161029225	161029225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtggagggagtcattcCgccagccaattttttcctac	8	11	12	10	1	1	0	1	0	0	0	3	3	3	3	4	4	2	0	4	4	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:161029225C>T	uc002ubh.2	-	6	792	c.776G>A	c.(775-777)CGG>CAG	p.R259Q	ITGB6_uc010fow.1_RNA|ITGB6_uc010fou.2_Missense_Mutation_p.R259Q|ITGB6_uc010zcq.1_Missense_Mutation_p.R217Q|ITGB6_uc010fov.1_Missense_Mutation_p.R259Q	NM_000888	NP_000879	P18564	ITB6_HUMAN	integrin, beta 6 precursor	259	Extracellular (Potential).|VWFA.				cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|multicellular organismal development	integrin complex	receptor activity			ovary(1)|lung(1)|skin(1)	3						GGAGTCATTCCGCCAGCCAAT	0.448													27	151					0	0	0.007291	0	0		T	161029225	T	T	161029225	3	4	45	1	0	0	0	0	1	0	0	0	7915	652	23	1	1630	1	ITGB6	2	161029225	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	5473405	161029225	82170148	144	34523											
SCN2A	6326	broad.mit.edu	37	chr2	166243339	166243339	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcctcatctgccttaacatGgtcaccatgatggtggaaac	11	11	8	11	0	3	1	2	1	1	0	4	2	4	2	3	3	3	0	3	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:166243339G>T	uc002udc.2	+	26	4925	c.4635G>T	c.(4633-4635)ATG>ATT	p.M1545I	SCN2A_uc002udd.2_Missense_Mutation_p.M1545I|SCN2A_uc002ude.2_Missense_Mutation_p.M1545I	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1545	IV.|Helical; Name=S1 of repeat IV; (Potential).				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	GCCTTAACATGGTCACCATGA	0.378													13	48					9.05144e-12	1.01036e-11	0.001855	1	0		T	166243339	T	T	166243339	3	4	45	1	0	0	0	0	1	0	0	0	13941	1348	47	5	4829	5	SCN2A	2	166243339	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5214114	166243339	76956034	145	34524											
WIPF1	7456	broad.mit.edu	37	chr2	175436475	175436475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggaggaagaggacctgaaCgtcctggcgaaggtaacggg	11	4	19	7	3	0	2	0	1	0	1	1	6	1	5	2	7	2	1	2	7	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:175436475C>T	uc002uiy.2	-	6	1390	c.1058G>A	c.(1057-1059)CGT>CAT	p.R353H	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Missense_Mutation_p.R353H|WIPF1_uc010fqt.1_Missense_Mutation_p.R353H|WIPF1_uc002ujc.1_Missense_Mutation_p.R353H|WIPF1_uc002uiz.2_Missense_Mutation_p.R353H|WIPF1_uc002ujb.1_Missense_Mutation_p.R353H|WIPF1_uc010zep.1_Missense_Mutation_p.R353H	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	353	XRSGPXPPXP motif 1.|Pro-rich.				actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						AGGACCTGAACGTCCTGGCGA	0.617													13	116					0	0	0.001855	0	0		T	175436475	T	T	175436475	3	4	45	1	0	0	0	0	1	0	0	0	17393	536	19	1	469	1	WIPF1	2	175436475	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	9193136	175436475	67762898	146	34525											
CHN1	1123	broad.mit.edu	37	chr2	175666460	175666460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagatgtgccatgaggtaccGgagggtttcgcagtgagcag	9	9	16	7	2	0	3	0	2	0	1	1	4	0	4	2	3	3	4	2	3	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:175666460G>A	uc002uji.2	-	12	1713	c.1183C>T	c.(1183-1185)CGG>TGG	p.R395W	CHN1_uc010zeq.1_Missense_Mutation_p.R369W|CHN1_uc002ujj.2_Missense_Mutation_p.R170W|CHN1_uc002ujg.2_Missense_Mutation_p.R270W	NM_001822	NP_001813	P15882	CHIN_HUMAN	chimerin (chimaerin) 1 isoform a	395	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity	p.R395Q(1)		ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.226)			ATGAGGTACCGGAGGGTTTCG	0.413			T	TAF15	extraskeletal myxoid chondrosarcoma								21	121					0	0	0.00278	0	0		A	175666460	A	A	175666460	3	1	45	1	0	0	0	0	1	0	0	0	3365	1115	39	1	204	1	CHN1	2	175666460	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	229985	175666460	67532913	147	34526											
CHN1	1123	broad.mit.edu	37	chr2	175677082	175677082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtctaccaccattggccGcttagtggtatgtgctttca	7	14	9	11	1	2	0	1	0	1	0	2	0	2	0	3	2	2	3	3	2	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:175677082G>A	uc002uji.2	-	9	1371	c.841C>T	c.(841-843)CGG>TGG	p.R281W	CHN1_uc010zeq.1_Missense_Mutation_p.R255W|CHN1_uc002ujj.2_Missense_Mutation_p.R56W|CHN1_uc002ujg.2_Missense_Mutation_p.R156W	NM_001822	NP_001813	P15882	CHIN_HUMAN	chimerin (chimaerin) 1 isoform a	281	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.226)			ACCATTGGCCGCTTAGTGGTA	0.498			T	TAF15	extraskeletal myxoid chondrosarcoma								31	123					0	0	0.012213	0	0		A	175677082	A	A	175677082	3	1	45	1	0	0	0	0	1	0	0	0	3365	1086	38	1	558	1	CHN1	2	175677082	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	10622	175677082	67522291	148	34527											
HOXD1	3231	broad.mit.edu	37	chr2	177054043	177054043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgtctcaaagcgtcagccGacggccaccctggtgctttc	6	10	10	15	3	2	0	2	0	1	0	4	1	2	0	3	2	3	1	3	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:177054043G>A	uc002ukv.3	+	1	737	c.514G>A	c.(514-516)GAC>AAC	p.D172N	HOXD1_uc010fqy.2_Missense_Mutation_p.D172N|HOXD1_uc010zez.1_Missense_Mutation_p.D172N	NM_024501	NP_078777	Q9GZZ0	HXD1_HUMAN	homeobox D1	172						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.0226)		AGCGTCAGCCGACGGCCACCC	0.682													6	26					0	0	0.001168	0	0		A	177054043	A	A	177054043	3	1	45	1	0	0	0	0	1	0	0	0	7334	1058	37	1	516	1	HOXD1	2	177054043	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1376961	177054043	66145330	149	34528											
PLEKHA3	65977	broad.mit.edu	37	chr2	179350390	179350390	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcagcctcgttggtttgtTttagataatggaatcttatc	8	17	10	6	1	1	1	0	0	1	1	3	2	1	2	1	3	1	4	1	3	4	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:179350390T>G	uc002umn.2	+	2	461	c.63T>G	c.(61-63)GTT>GTG	p.V21V		NM_019091	NP_061964	Q9HB20	PKHA3_HUMAN	pleckstrin homology domain containing, family A	21	PH.					cytoplasm|membrane				ovary(1)|kidney(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.0266)|all cancers(119;0.0865)			GTTGGTTTGTTTTAGATAATG	0.353													25	93					0	0	0.00333	0	0		G	179350390	G	G	179350390	2	3	45	1	0	0	0	0	0	0	0	1	12076	1828	64	5		5	PLEKHA3	2	179350390	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2296347	179350390	63848983	150	34529											
TTN	7273	broad.mit.edu	37	chr2	179479312	179479312	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgtggatttcttagggAcattttcaatggtaattctt	9	18	8	6	0	4	0	2	0	2	0	4	2	4	2	0	3	0	1	0	3	3	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:179479312A>T	uc010zfg.1	-	210	41449	c.41225T>A	c.(41224-41226)GTC>GAC	p.V13742D	uc002ump.1_RNA|TTN_uc010zfh.1_Missense_Mutation_p.V7437D|TTN_uc010zfi.1_Missense_Mutation_p.V7370D|TTN_uc010zfj.1_Missense_Mutation_p.V7245D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14669							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTCTTAGGGACATTTTCAAT	0.433													8	57					0	0	0.00308	0	0		T	179479312	T	T	179479312	3	4	45	1	0	0	0	0	1	0	0	0	16761	275	10	5	59172	5	TTN	2	179479312	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	128922	179479312	63720061	151	34530											
TTN	7273	broad.mit.edu	37	chr2	179501146	179501146	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctacaacaagtttagccgTggaggtcttttctttgtttc	7	18	8	8	1	3	0	0	0	3	0	4	1	3	1	1	2	3	2	1	2	4	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:179501146T>C	uc010zfg.1	-	174	33828	c.33604A>G	c.(33604-33606)ACG>GCG	p.T11202A	TTN_uc010zfh.1_Missense_Mutation_p.T4897A|TTN_uc010zfi.1_Missense_Mutation_p.T4830A|TTN_uc010zfj.1_Missense_Mutation_p.T4705A|TTN_uc010fre.1_Missense_Mutation_p.T1063A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12129							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGTTTAGCCGTGGAGGTCTTT	0.353													11	42					0	0	0.010729	0	0		C	179501146	C	C	179501146	3	2	45	1	0	0	0	0	1	0	0	0	16761	1696	59	3	66937	3	TTN	2	179501146	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	21834	179501146	63698227	152	34531											
TTN	7273	broad.mit.edu	37	chr2	179594876	179594876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatcattgcttagttggCaaatgtaggttccagaatcg	12	12	9	8	1	1	1	1	0	0	1	3	1	2	1	1	2	2	5	1	2	5	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:179594876C>T	uc010zfg.1	-	59	14743	c.14519G>A	c.(14518-14520)TGC>TAC	p.C4840Y	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.C1501Y	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5767							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCTTAGTTGGCAAATGTAGGT	0.468													9	34					0	0	0.008291	0	0		T	179594876	T	T	179594876	3	4	45	1	0	0	0	0	1	0	0	0	16761	710	25	2	86482	2	TTN	2	179594876	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	93730	179594876	63604497	153	34532											
TTN	7273	broad.mit.edu	37	chr2	179605699	179605699	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagatagttgctggttttcTtctgtaattaaagcagcttt	10	18	8	5	0	2	1	0	0	2	1	2	1	2	1	0	1	3	6	0	1	5	9			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:179605699T>G	uc010zfh.1	-	46	11972	c.11748A>C	c.(11746-11748)GAA>GAC	p.E3916D	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.E3849D|TTN_uc010zfj.1_Missense_Mutation_p.E3724D|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	3853							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCTGGTTTTCTTCTGTAATTA	0.418													18	107					0	0	0.006122	0	0		G	179605699	G	G	179605699	3	3	45	1	0	0	0	0	1	0	0	0	16761	1606	56	5	92528	5	TTN	2	179605699	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	10823	179605699	63593674	154	34533											
TTN	7273	broad.mit.edu	37	chr2	179641123	179641123	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaagtgcaccttcatgaGccattctctctaattcttca	9	15	5	12	0	5	1	2	1	3	0	6	1	5	1	2	0	2	2	2	0	2	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:179641123G>T	uc010zfg.1	-	28	5692	c.5468C>A	c.(5467-5469)GCT>GAT	p.A1823D	TTN_uc010zfh.1_Missense_Mutation_p.A1777D|TTN_uc010zfi.1_Missense_Mutation_p.A1777D|TTN_uc010zfj.1_Missense_Mutation_p.A1777D|TTN_uc002unb.2_Missense_Mutation_p.A1823D|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1823							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACCTTCATGAGCCATTCTCTC	0.428													26	137					9.39395e-14	1.05871e-13	0.00632	1	0		T	179641123	T	T	179641123	3	4	45	1	0	0	0	0	1	0	0	0	16761	971	34	5	105860	5	TTN	2	179641123	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	35424	179641123	63558250	155	34534											
STAT1	6772	broad.mit.edu	37	chr2	191874714	191874714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagtcaagctgctgaagttCgtaccactgagacatcctat	11	11	9	10	1	1	3	1	3	0	1	3	4	2	3	2	0	3	4	2	0	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:191874714C>T	uc002usj.2	-	3	404	c.16G>A	c.(16-18)GAA>AAA	p.E6K	STAT1_uc010fse.1_Missense_Mutation_p.E6K|STAT1_uc002usk.2_Missense_Mutation_p.E6K|STAT1_uc002usl.2_Missense_Mutation_p.E8K|STAT1_uc010fsf.1_5'UTR	NM_007315	NP_009330	P42224	STAT1_HUMAN	signal transducer and activator of transcription	6					activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)	TGCTGAAGTTCGTACCACTGA	0.418													17	63					0	0	0.00499	0	0		T	191874714	T	T	191874714	3	4	45	1	0	0	0	0	1	0	0	0	15289	893	31	1	2332	1	STAT1	2	191874714	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	12233591	191874714	51324659	156	34535											
DNAH7	56171	broad.mit.edu	37	chr2	196749503	196749503	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctgtacaagaagcaccaaCggaccagatcaatgaaaaca	19	5	7	10	1	2	3	1	1	1	2	2	4	2	4	2	1	4	2	2	1	7	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:196749503C>A	uc002utj.3	-	35	5670	c.5569G>T	c.(5569-5571)GTT>TTT	p.V1857F		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1857					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GAAGCACCAACGGACCAGATC	0.333													7	24					5.4927e-09	6.02564e-09	0.004482	1	0		A	196749503	A	A	196749503	3	1	45	1	0	0	0	0	1	0	0	0	4612	536	19	5	6629	5	DNAH7	2	196749503	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4874789	196749503	46449870	157	34536											
ANKRD44	91526	broad.mit.edu	37	chr2	197986170	197986170	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttattgtttggctggttcacGttagcaccgtagtcaatcaa	9	15	9	8	2	3	0	3	0	0	0	3	0	3	0	1	2	1	6	1	2	5	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:197986170G>A	uc002uuc.2	-	8	959	c.792C>T	c.(790-792)AAC>AAT	p.N264N	ANKRD44_uc002utz.3_Translation_Start_Site|ANKRD44_uc002uua.1_Silent_p.N239N|ANKRD44_uc002uub.2_Silent_p.N264N|ANKRD44_uc010zgw.1_Silent_p.N192N	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	264	ANK 8.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GCTGGTTCACGTTAGCACCGT	0.453													12	43					0	0	0.013537	0	0		A	197986170	A	A	197986170	2	1	45	1	0	0	0	0	0	0	0	1	672	1136	40	1		1	ANKRD44	2	197986170	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1236667	197986170	45213203	158	34537											
AOX1	316	broad.mit.edu	37	chr2	201477345	201477345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttcagtgggaatttgtgtCagccttccgacaagcccagc	8	11	10	12	1	2	0	2	0	0	0	3	2	3	1	3	1	3	0	3	1	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:201477345C>T	uc002uvx.2	+	14	1378	c.1277C>T	c.(1276-1278)TCA>TTA	p.S426L	AOX1_uc010zhf.1_5'UTR|AOX1_uc010fsu.2_5'UTR	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	426					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	GAATTTGTGTCAGCCTTCCGA	0.458													5	151					0	0	0.001168	0	0		T	201477345	T	T	201477345	3	4	45	1	0	0	0	0	1	0	0	0	729	838	29	4	1331	4	AOX1	2	201477345	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3491175	201477345	41722028	159	34538											
AOX1	316	broad.mit.edu	37	chr2	201501758	201501758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcagccgtcactgcatttgCcgcaaacaagtaagtggaga	12	8	11	10	2	1	1	1	0	0	1	1	2	1	1	2	1	5	4	2	1	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:201501758C>T	uc002uvx.2	+	22	2572	c.2471C>T	c.(2470-2472)GCC>GTC	p.A824V	AOX1_uc010zhf.1_Missense_Mutation_p.A380V|AOX1_uc010fsu.2_Missense_Mutation_p.A190V	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	824					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	ACTGCATTTGCCGCAAACAAG	0.453													3	50					0	0	0.009096	0	0		T	201501758	T	T	201501758	3	4	45	1	0	0	0	0	1	0	0	0	729	739	26	2	2557	2	AOX1	2	201501758	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	24413	201501758	41697615	160	34539											
CASP8	841	broad.mit.edu	37	chr2	202136270	202136270	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagatttcagaagaagtgAgcagatcagaattgaggtct	15	10	11	5	0	4	7	3	2	1	5	4	7	4	7	0	1	1	1	0	1	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:202136270A>C	uc002uxr.1	+	4	546	c.337A>C	c.(337-339)AGC>CGC	p.S113R	CASP8_uc010ftc.1_Missense_Mutation_p.S113R|CASP8_uc002uxo.1_Missense_Mutation_p.S113R|CASP8_uc002uxp.1_Missense_Mutation_p.S145R|CASP8_uc002uxq.1_Missense_Mutation_p.S113R|CASP8_uc002uxs.1_Missense_Mutation_p.S113R|CASP8_uc002uxt.1_Missense_Mutation_p.S172R|CASP8_uc002uxu.1_RNA|CASP8_uc010ftd.1_Missense_Mutation_p.S10R|CASP8_uc002uxv.1_Missense_Mutation_p.S113R|CASP8_uc002uxw.1_Missense_Mutation_p.S113R|CASP8_uc002uxy.1_Missense_Mutation_p.S113R|CASP8_uc002uxx.1_Missense_Mutation_p.S113R|CASP8_uc010ftf.2_Missense_Mutation_p.S113R|CASP8_uc010fte.1_Missense_Mutation_p.S10R	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	113	DED 2.				activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						AGAAGAAGTGAGCAGATCAGA	0.378										HNSCC(4;0.00038)			16	47					0	0	0.003163	0	0		C	202136270	C	C	202136270	3	2	45	1	0	0	0	0	1	0	0	0	2680	304	11	5	624	5	CASP8	2	202136270	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	634512	202136270	41063103	161	34540											
ALS2CR11	151254	broad.mit.edu	37	chr2	202483778	202483778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgcaatagcggggtggCggacaggacttggacctgcc	7	7	15	12	2	1	0	0	0	1	0	1	3	1	3	3	6	3	1	3	6	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:202483778C>T	uc002uye.2	-	1	124	c.76G>A	c.(76-78)GCC>ACC	p.A26T	ALS2CR11_uc002uyf.2_Missense_Mutation_p.A26T|ALS2CR11_uc010fti.2_Missense_Mutation_p.A26T	NM_152525	NP_689738	Q53TS8	AL2SA_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	26										large_intestine(1)|ovary(1)|skin(1)	3						AGCGGGGTGGCGGACAGGACT	0.577													6	149					0	0	0.001168	0	0		T	202483778	T	T	202483778	3	4	45	1	0	0	0	0	1	0	0	0	552	768	27	1	5597	1	ALS2CR11	2	202483778	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	347508	202483778	40715595	162	34541											
BMPR2	659	broad.mit.edu	37	chr2	203329571	203329571	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatgtgcgtttaaagatcCgtatcagcaagaccttggga	11	11	11	8	2	1	2	1	0	0	2	2	3	2	3	2	1	2	4	2	1	5	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:203329571C>T	uc002uzf.3	+	2	1264	c.116C>T	c.(115-117)CCG>CTG	p.P39L	BMPR2_uc010ftr.2_Missense_Mutation_p.P39L|BMPR2_uc002uze.2_Missense_Mutation_p.P39L	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	39	Extracellular (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						TTTAAAGATCCGTATCAGCAA	0.343													4	65					0	0	0.000602	0	0		T	203329571	T	T	203329571	3	4	45	1	0	0	0	0	1	0	0	0	1472	652	23	1	122	1	BMPR2	2	203329571	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	845793	203329571	39869802	163	34542											
RAPH1	65059	broad.mit.edu	37	chr2	204354393	204354393	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagagtccatgctggaggCtgcggaagtgatgctggaat	11	8	15	7	1	0	2	0	1	0	1	1	5	1	5	1	4	3	3	1	4	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:204354393C>A	uc002vad.2	-	4	871	c.646G>T	c.(646-648)GCC>TCC	p.A216S	RAPH1_uc002vae.2_Missense_Mutation_p.A216S|RAPH1_uc002vaf.2_Missense_Mutation_p.A216S	NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	216					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10						ATGCTGGAGGCTGCGGAAGTG	0.453													11	145					3.07112e-06	3.2868e-06	0.010729	1	0		A	204354393	A	A	204354393	3	1	45	1	0	0	0	0	1	0	0	0	13075	797	28	5	3321	5	RAPH1	2	204354393	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1024822	204354393	38844980	164	34543											
ZDBF2	57683	broad.mit.edu	37	chr2	207172264	207172264	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaaacaagtttagattcTggtgtccctcattattcagt	12	15	6	8	0	4	1	3	0	1	1	5	1	5	1	1	1	1	1	1	1	5	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:207172264T>C	uc002vbp.2	+	5	3262	c.3012T>C	c.(3010-3012)TCT>TCC	p.S1004S		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1004							nucleic acid binding|zinc ion binding			ovary(3)	3						GTTTAGATTCTGGTGTCCCTC	0.343													18	90					0	0	0.008871	0	0		C	207172264	C	C	207172264	2	2	45	1	0	0	0	0	0	0	0	1	17624	1567	55	3		3	ZDBF2	2	207172264	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2817871	207172264	36027109	165	34544											
ABCA12	26154	broad.mit.edu	37	chr2	215884381	215884381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcggtgcccagctctgccGcttcgaggagttgcagatca	6	11	12	12	3	2	1	1	0	1	1	4	3	2	2	2	2	4	4	2	2	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:215884381G>A	uc002vew.2	-	12	1647	c.1427C>T	c.(1426-1428)GCG>GTG	p.A476V	ABCA12_uc002vev.2_Missense_Mutation_p.A158V|ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	476			A -> V (in a pancreatic ductal adenocarcinoma sample; somatic mutation).		cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity	p.A476V(1)		ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		CAGCTCTGCCGCTTCGAGGAG	0.443													13	52					0	0	0.003163	0	0		A	215884381	A	A	215884381	3	1	45	1	0	0	0	0	1	0	0	0	30	1087	38	1	6528	1	ABCA12	2	215884381	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	8712117	215884381	27314992	166	34545											
BCS1L	617	broad.mit.edu	37	chr2	219527931	219527931	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactgctcacactggcagcTgacccagatgttccagaggt	9	9	10	13	0	1	3	1	1	0	2	2	3	2	3	2	2	3	4	2	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:219527931T>C	uc002vio.2	+	8	1500	c.1082T>C	c.(1081-1083)CTG>CCG	p.L361P	BCS1L_uc002vip.2_Missense_Mutation_p.L361P|BCS1L_uc002viq.2_Missense_Mutation_p.L361P|BCS1L_uc010fvu.2_Missense_Mutation_p.L361P|BCS1L_uc010fvv.2_Missense_Mutation_p.L361P|BCS1L_uc002vir.2_Missense_Mutation_p.L361P|BCS1L_uc002vis.2_Missense_Mutation_p.L361P	NM_004328	NP_004319	Q9Y276	BCS1_HUMAN	BCS1-like	361	Mitochondrial matrix (Potential).				mitochondrial respiratory chain complex I assembly|mitochondrial respiratory chain complex III assembly|mitochondrial respiratory chain complex IV assembly	integral to membrane|mitochondrial respiratory chain complex III	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Renal(207;0.0474)		Epithelial(149;7.12e-07)|all cancers(144;0.000131)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CACTGGCAGCTGACCCAGATG	0.572													17	93					0	0	0.004007	0	0		C	219527931	C	C	219527931	3	2	45	1	0	0	0	0	1	0	0	0	1390	1580	55	3	1108	3	BCS1L	2	219527931	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	3643550	219527931	23671442	167	34546											
CDK5R2	8941	broad.mit.edu	37	chr2	219825256	219825256	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcctgcaaacctggtgttCgtgtacctgctgtgccgcga	6	10	12	13	4	0	0	0	0	0	0	1	1	0	0	4	1	5	4	4	1	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:219825256C>T	uc002vjf.2	+	1	859	c.714C>T	c.(712-714)TTC>TTT	p.F238F		NM_003936	NP_003927	Q13319	CD5R2_HUMAN	cyclin-dependent kinase 5, regulatory subunit 2	238					regulation of cyclin-dependent protein kinase activity	cyclin-dependent protein kinase 5 holoenzyme complex	cyclin-dependent protein kinase 5 activator activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;9.77e-07)|all cancers(144;0.000167)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACCTGGTGTTCGTGTACCTGC	0.687													31	132					0	0	0.010818	0	0		T	219825256	T	T	219825256	2	4	45	1	0	0	0	0	0	0	0	1	3147	883	31	1		1	CDK5R2	2	219825256	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	297325	219825256	23374117	168	34547											
SPEG	10290	broad.mit.edu	37	chr2	220348470	220348470	+	Frame_Shift_Del	DEL	G	-	-																															ggtcccctgctggagagcctGgggggccgtgctcgggaccc																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:220348470delG	uc010fwg.2	+	30	6285	c.6285delG	c.(6283-6285)CTGfs	p.L2095fs		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2095					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		TGGAGAGCCTGGGGGGCCGTG	0.726													2	4	---	---	---	---						.	-	220348470	-	-	220348470	7	5	45	1	0	1	0	1	0	0	0	0	15061	1335	47	0	6415	0	SPEG	2	220348470	Frame_Shift_Del	DEL	G	TCGA-BR-6852-01A-11D-1882-08	523214	220348470	22850903	169	34548											
CHPF	79586	broad.mit.edu	37	chr2	220404687	220404687	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgcacactgagccatggCacccgggcaccggggaaacg	9	4	14	14	3	1	1	0	1	1	0	1	2	1	2	3	4	3	3	3	4	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:220404687C>T	uc002vmc.3	-	4	1973	c.1746G>A	c.(1744-1746)GTG>GTA	p.V582V	CHPF_uc010zlh.1_Silent_p.V420V	NM_024536	NP_078812	Q8IZ52	CHSS2_HUMAN	chondroitin polymerizing factor	582	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity|protein binding				0		Renal(207;0.0183)		Epithelial(149;3.02e-08)|all cancers(144;3.41e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		TGAGCCATGGCACCCGGGCAC	0.667													13	67					0	0	0.00245	0	0		T	220404687	T	T	220404687	2	4	45	1	0	0	0	0	0	0	0	1	3371	697	25	2		2	CHPF	2	220404687	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	56217	220404687	22794686	170	34549											
KIAA1486	57624	broad.mit.edu	37	chr2	226446717	226446717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagattcctcctcccaaacCgaagcgaaatccgaacactc	14	6	6	15	3	0	1	0	0	0	1	5	5	4	1	5	0	3	0	5	0	5	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:226446717C>T	uc002voe.2	+	4	759	c.584C>T	c.(583-585)CCG>CTG	p.P195L	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_5'UTR	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	195										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		CCTCCCAAACCGAAGCGAAAT	0.483													38	184					0	0	0.011902	0	0		T	226446717	T	T	226446717	3	4	45	1	0	0	0	0	1	0	0	0	8253	652	23	1	594	1	KIAA1486	2	226446717	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6042030	226446717	16752656	171	34550											
IRS1	3667	broad.mit.edu	37	chr2	227663080	227663080	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctcccgccccgagggcCgcagctccgtcgtggtggcc	3	5	13	20	5	0	0	0	0	0	0	3	1	2	0	8	3	1	2	8	3	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:227663080C>T	uc002voh.3	-	1	427	c.375G>A	c.(373-375)GCG>GCA	p.A125A		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	125	Mediates interaction with PHIP (By similarity).				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		CCCCGAGGGCCGCAGCTCCGT	0.692											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	86					0	0	0.001855	0	0		T	227663080	T	T	227663080	2	4	45	1	0	0	0	0	0	0	0	1	7856	639	23	1		1	IRS1	2	227663080	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1216363	227663080	15536293	172	34551											
COL4A4	1286	broad.mit.edu	37	chr2	227919390	227919390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctccctttgcgccaggacatCcctctgcaccaggctttcct	5	11	7	18	1	1	0	0	0	1	0	4	1	4	1	5	2	2	2	5	2	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:227919390C>T	uc010zlt.1	-	31	3434	c.2780G>A	c.(2779-2781)GGA>GAA	p.G927E		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	927	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		GCCAGGACATCCCTCTGCACC	0.532													11	63					0	0	0.010729	0	0		T	227919390	T	T	227919390	3	4	45	1	0	0	0	0	1	0	0	0	3696	855	30	4	2364	4	COL4A4	2	227919390	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	256310	227919390	15279983	173	34552											
TRIP12	9320	broad.mit.edu	37	chr2	230650558	230650558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgtttcagcagctcctctCggttcacagtacgctacaaa	9	11	7	14	2	3	0	2	0	1	0	5	0	4	0	2	1	4	6	2	1	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:230650558C>T	uc002vpw.1	-	33	4893	c.4784G>A	c.(4783-4785)CGA>CAA	p.R1595Q	TRIP12_uc002vpx.1_Missense_Mutation_p.R1643Q|TRIP12_uc002vpy.1_Missense_Mutation_p.R1325Q	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1595					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		CAGCTCCTCTCGGTTCACAGT	0.453													20	113					0	0	0.010504	0	0		T	230650558	T	T	230650558	3	4	45	1	0	0	0	0	1	0	0	0	16582	884	31	1	1230	1	TRIP12	2	230650558	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2731168	230650558	12548815	174	34553											
SP110	3431	broad.mit.edu	37	chr2	231042289	231042289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagggtcattccttcacaacGtatattccgtttccagttct	8	16	6	11	2	3	0	2	0	1	0	6	0	6	0	3	1	1	3	3	1	4	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:231042289G>A	uc002vqh.3	-	14	1795	c.1555C>T	c.(1555-1557)CGT>TGT	p.R519C	SP110_uc002vqg.3_Missense_Mutation_p.R519C|SP110_uc002vqi.3_Missense_Mutation_p.R519C|SP110_uc010fxk.2_Missense_Mutation_p.R517C|SP110_uc010fxj.2_Missense_Mutation_p.R162C	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	519	SAND.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		CCTTCACAACGTATATTCCGT	0.423													12	325					0	0	0.013537	0	0		A	231042289	A	A	231042289	3	1	45	1	0	0	0	0	1	0	0	0	14986	1145	40	1	674	1	SP110	2	231042289	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	391731	231042289	12157084	175	34554											
SP140	11262	broad.mit.edu	37	chr2	231134619	231134619	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttctcagaagaggtgccAggaagcccagaagcaaggac	13	6	13	9	0	1	3	1	0	1	3	2	5	1	5	2	3	3	2	2	3	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:231134619A>G	uc002vql.2	+	14	1510	c.1395A>G	c.(1393-1395)CCA>CCG	p.P465P	SP140_uc010zma.1_RNA|SP140_uc002vqn.2_Silent_p.P351P|SP140_uc002vqm.2_Silent_p.P405P|SP140_uc010fxl.2_Silent_p.P438P	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	465					defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		AAGAGGTGCCAGGAAGCCCAG	0.527													5	75					0	0	0.001168	0	0		G	231134619	G	G	231134619	2	3	45	1	0	0	0	0	0	0	0	1	14987	175	7	3		3	SP140	2	231134619	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	92330	231134619	12064754	176	34555											
CHRND	1144	broad.mit.edu	37	chr2	233398812	233398812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttcgagaagcagtcagagCggcatgggctggccaggcgc	8	6	17	10	3	1	2	1	0	0	2	2	3	1	2	1	4	2	4	1	4	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:233398812C>T	uc002vsw.2	+	10	1223	c.1219C>T	c.(1219-1221)CGG>TGG	p.R407W	CHRND_uc010zmg.1_Missense_Mutation_p.R392W|CHRND_uc010fyc.2_Missense_Mutation_p.R280W|CHRND_uc010zmh.1_Missense_Mutation_p.R213W	NM_000751	NP_000742	Q07001	ACHD_HUMAN	nicotinic acetylcholine receptor delta	407	Cytoplasmic (Potential).				muscle contraction|musculoskeletal movement|neuromuscular process|skeletal muscle tissue growth|synaptic transmission	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)|breast(1)|skin(1)	3		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.89e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00078)|Lung(119;0.00579)|LUSC - Lung squamous cell carcinoma(224;0.00754)		GCAGTCAGAGCGGCATGGGCT	0.637													20	86					0	0	0.00278	0	0		T	233398812	T	T	233398812	3	4	45	1	0	0	0	0	1	0	0	0	3397	759	27	1	1257	1	CHRND	2	233398812	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2264193	233398812	9800561	177	34556											
GIGYF2	26058	broad.mit.edu	37	chr2	233684582	233684582	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaagaaattgcattaaggCgacagcgagaagaggaagaa	19	4	13	5	2	0	4	0	0	0	4	0	7	0	5	0	2	3	2	0	2	6	2	rs13002284		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:233684582C>T	uc002vti.3	+	23	2753	c.2416C>T	c.(2416-2418)CGA>TGA	p.R806*	GIGYF2_uc002vtg.2_Nonsense_Mutation_p.R800*|GIGYF2_uc002vtj.3_Nonsense_Mutation_p.R827*|GIGYF2_uc002vtk.3_Nonsense_Mutation_p.R806*|GIGYF2_uc002vth.3_Nonsense_Mutation_p.R800*|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Nonsense_Mutation_p.R637*|GIGYF2_uc002vtq.3_Nonsense_Mutation_p.R139*	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	806	Gln-rich.|Glu-rich.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		TGCATTAAGGCGACAGCGAGA	0.512													5	34					0	0	0.001984	0	0		T	233684582	T	T	233684582	4	4	45	1	0	0	0	0	0	1	0	0	6393	760	27	1	2560	1	GIGYF2	2	233684582	Nonsense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	285770	233684582	9514791	178	34557											
COL6A3	1293	broad.mit.edu	37	chr2	238285718	238285718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaaaaatgtacctctgtgCatagtccagcgcgtagccca	12	8	8	13	2	1	0	0	0	1	0	2	0	2	0	3	0	4	3	3	0	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:238285718C>T	uc002vwl.2	-	7	3052	c.2767G>A	c.(2767-2769)GCA>ACA	p.A923T	COL6A3_uc002vwo.2_Missense_Mutation_p.A717T|COL6A3_uc010znj.1_Missense_Mutation_p.A316T|COL6A3_uc002vwq.2_Missense_Mutation_p.A717T|COL6A3_uc002vwr.2_Missense_Mutation_p.A516T|COL6A3_uc010znk.1_Missense_Mutation_p.A723T	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	923	Nonhelical region.|VWFA 5.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TACCTCTGTGCATAGTCCAGC	0.522													14	76					0	0	0.00245	0	0		T	238285718	T	T	238285718	3	4	45	1	0	0	0	0	1	0	0	0	3704	710	25	2	6965	2	COL6A3	2	238285718	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4601136	238285718	4913655	179	34558											
COL6A3	1293	broad.mit.edu	37	chr2	238287277	238287277	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccggcaacaggggaggtttAcctggctgagcgagtggtac	8	7	16	10	2	0	1	0	1	0	0	0	3	0	2	2	6	4	4	2	6	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:238287277A>G	uc002vwl.2	-	6	2782	c.2497_splice	c.e6+1	p.E833_splice	COL6A3_uc002vwo.2_Splice_Site_p.E627_splice|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwq.2_Splice_Site_p.E627_splice|COL6A3_uc002vwr.2_Splice_Site_p.E426_splice|COL6A3_uc010znk.1_Intron	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor						axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GGGGAGGTTTACCTGGCTGAG	0.542													32	190					0	0	0.004878	0	0		G	238287277	G	G	238287277	5	3	45	1	0	0	0	0	0	0	1	0	3704	405	14	3	7237	3	COL6A3	2	238287277	Splice_Site	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1559	238287277	4912096	180	34559											
TRAF3IP1	26146	broad.mit.edu	37	chr2	239306240	239306240	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggactacatccaggaagaCgtggatgccatgcagaatga	14	7	12	8	1	0	3	0	1	0	2	1	6	1	6	2	3	3	1	2	3	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:239306240C>T	uc002vye.2	+	16	1949	c.1830C>T	c.(1828-1830)GAC>GAT	p.D610D	TRAF3IP1_uc002vyf.2_Silent_p.D544D	NM_015650	NP_056465	Q8TDR0	MIPT3_HUMAN	TNF receptor-associated factor 3 interacting	610	Potential.|DISC1-interaction domain.					cytoplasm|cytoskeleton	protein binding			ovary(1)	1		all_epithelial(40;3.22e-10)|Breast(86;0.000523)|Renal(207;0.00571)|Ovarian(221;0.156)|all_hematologic(139;0.182)		Epithelial(121;9.92e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.85e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.01e-07)|BRCA - Breast invasive adenocarcinoma(100;7.72e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0184)		TCCAGGAAGACGTGGATGCCA	0.582													12	97					0	0	0.013537	0	0		T	239306240	T	T	239306240	2	4	45	1	0	0	0	0	0	0	0	1	16466	535	19	1		1	TRAF3IP1	2	239306240	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1018963	239306240	3893133	181	34560											
PASK	23178	broad.mit.edu	37	chr2	242076594	242076594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccggtggtcgcctcctcgCtgctgggttgggatttcagc	3	11	14	13	3	1	0	1	0	0	0	4	1	2	1	3	4	2	3	3	4	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:242076594C>T	uc002wao.1	-	7	1054	c.962G>A	c.(961-963)AGC>AAC	p.S321N	PASK_uc010zol.1_Missense_Mutation_p.S135N|PASK_uc010zom.1_Missense_Mutation_p.S286N|PASK_uc010fzl.1_Missense_Mutation_p.S321N|PASK_uc010zon.1_Missense_Mutation_p.S102N|PASK_uc002wap.2_5'Flank|PASK_uc002waq.2_Missense_Mutation_p.S321N	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	321					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CGCCTCCTCGCTGCTGGGTTG	0.582													19	72					0	0	0.006122	0	0		T	242076594	T	T	242076594	3	4	45	1	0	0	0	0	1	0	0	0	11491	797	28	2	3057	2	PASK	2	242076594	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2770354	242076594	1122779	182	34561											
ANO7	50636	broad.mit.edu	37	chr2	242163549	242163549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acccttcacggttcccaaggCcagccagctgcagcagtgac	9	6	10	16	1	1	1	1	1	0	0	2	1	2	1	4	2	4	4	4	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:242163549C>T	uc002wax.2	+	25	2886	c.2783C>T	c.(2782-2784)GCC>GTC	p.A928V		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	928	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						GTTCCCAAGGCCAGCCAGCTG	0.642													7	61					0	0	0.00308	0	0		T	242163549	T	T	242163549	3	4	45	1	0	0	0	0	1	0	0	0	702	739	26	2	2953	2	ANO7	2	242163549	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	86955	242163549	1035824	183	34562											
HDLBP	3069	broad.mit.edu	37	chr2	242170236	242170236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaatgatgcgggcgtgaaCgcggtggtccagcgggacgt	8	6	17	10	6	0	2	0	2	0	0	1	3	1	3	2	4	3	0	2	4	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:242170236C>T	uc002waz.2	-	25	3640	c.3412G>A	c.(3412-3414)GTT>ATT	p.V1138I	HDLBP_uc002wba.2_Missense_Mutation_p.V1138I|HDLBP_uc002wbb.2_Missense_Mutation_p.V1090I	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	1138	KH 14.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		CGGGCGTGAACGCGGTGGTCC	0.547													9	55					0	0	0.004482	0	0		T	242170236	T	T	242170236	3	4	45	1	0	0	0	0	1	0	0	0	7041	536	19	1	410	1	HDLBP	2	242170236	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6687	242170236	1029137	184	34563											
FARP2	9855	broad.mit.edu	37	chr2	242432348	242432348	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctttattgacagaaccAgctttcaggatatctgctaa	11	15	6	9	0	2	2	1	1	1	1	3	3	3	3	2	1	3	2	2	1	4	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr2:242432348A>G	uc002wbi.1	+	25	2909	c.2792A>G	c.(2791-2793)CAG>CGG	p.Q931R		NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	931	PH 2.				axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		TGACAGAACCAGCTTTCAGGA	0.458													4	46					0	0	0.000602	0	0		G	242432348	G	G	242432348	3	3	45	1	0	0	0	0	1	0	0	0	5691	188	7	3	2886	3	FARP2	2	242432348	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	262112	242432348	767025	185	34564											
LMCD1	29995	broad.mit.edu	37	chr3	8590329	8590329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgccttttaccgccgcCgccagctcatgcaccagctc	6	8	10	17	3	1	0	1	0	0	0	2	0	1	0	6	1	5	3	6	1	1	2	rs145385804	by1000genomes	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:8590329C>T	uc003bqq.2	+	4	577	c.463C>T	c.(463-465)CGC>TGC	p.R155C	LMCD1_uc011atd.1_Missense_Mutation_p.R82C|LMCD1_uc011ate.1_Missense_Mutation_p.R43C|LMCD1_uc011atf.1_Missense_Mutation_p.R82C	NM_014583	NP_055398	Q9NZU5	LMCD1_HUMAN	LIM and cysteine-rich domains 1	155	PET.				positive regulation of calcineurin-NFAT signaling pathway|regulation of cardiac muscle hypertrophy|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus	transcription corepressor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(96;0.124)		TTACCGCCGCCGCCAGCTCAT	0.562													8	125					0	0	0.004482	0	0		T	8590329	T	T	8590329	3	4	45	1	0	0	0	0	1	0	0	0	8861	652	23	1	477	1	LMCD1	3	8590329	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08		8590329	189432101	186	34565											
BRPF1	7862	broad.mit.edu	37	chr3	9776020	9776020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagcacaagaaaaaggggCgccagtcacgcccagccaac	15	1	11	14	2	1	1	1	0	0	1	1	1	1	1	3	2	3	2	3	2	5	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:9776020C>T	uc003bse.2	+	2	595	c.196C>T	c.(196-198)CGC>TGC	p.R66C	BRPF1_uc003bsf.2_Missense_Mutation_p.R66C|BRPF1_uc003bsg.2_Missense_Mutation_p.R66C|BRPF1_uc011ati.1_Missense_Mutation_p.R66C	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	66	Interaction with MYST3 and MYST4.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					GAAAAAGGGGCGCCAGTCACG	0.572													28	135					0	0	0.008361	0	0		T	9776020	T	T	9776020	3	4	45	1	0	0	0	0	1	0	0	0	1523	768	27	1	198	1	BRPF1	3	9776020	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1185691	9776020	188246410	187	34566											
BRPF1	7862	broad.mit.edu	37	chr3	9776143	9776143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggacttgcatggccgcGtccaccgcatcagcatcttt	7	10	11	13	3	2	0	1	0	1	0	3	1	3	1	3	3	2	3	3	3	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:9776143G>A	uc003bse.2	+	2	718	c.319G>A	c.(319-321)GTC>ATC	p.V107I	BRPF1_uc003bsf.2_Missense_Mutation_p.V107I|BRPF1_uc003bsg.2_Missense_Mutation_p.V107I|BRPF1_uc011ati.1_Missense_Mutation_p.V107I	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	107	Interaction with MYST3 and MYST4.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					GCATGGCCGCGTCCACCGCAT	0.602													17	95					0	0	0.007413	0	0		A	9776143	A	A	9776143	3	1	45	1	0	0	0	0	1	0	0	0	1523	1145	40	1	321	1	BRPF1	3	9776143	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	123	9776143	188246287	188	34567											
PPARG	5468	broad.mit.edu	37	chr3	12458573	12458573	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttatggagcccaagtttgAgtttgctgtgaagttcaatg	9	15	11	6	0	1	2	1	2	0	0	1	3	1	3	1	1	2	4	1	1	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:12458573A>G	uc003bwx.2	+	6	1281	c.1190A>G	c.(1189-1191)GAG>GGG	p.E397G	PPARG_uc003bwr.2_Missense_Mutation_p.E369G|PPARG_uc003bws.2_Missense_Mutation_p.E369G|PPARG_uc003bwu.2_Missense_Mutation_p.E369G|PPARG_uc003bwv.2_Intron|PPARG_uc010hea.1_RNA	NM_015869	NP_056953	P37231	PPARG_HUMAN	peroxisome proliferative activated receptor	397	Ligand-binding.				activation of caspase activity|cell fate commitment|cell maturation|cellular response to insulin stimulus|epithelial cell differentiation|glucose homeostasis|induction of apoptosis|innate immune response|lipid homeostasis|lipoprotein transport|long-chain fatty acid transport|low-density lipoprotein particle receptor biosynthetic process|monocyte differentiation|negative regulation of cholesterol storage|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of macrophage derived foam cell differentiation|negative regulation of receptor biosynthetic process|negative regulation of sequestering of triglyceride|negative regulation of transcription from RNA polymerase II promoter|placenta development|positive regulation of fat cell differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to lipid|response to low-density lipoprotein particle stimulus|white fat cell differentiation	cytosol|nucleoplasm	activating transcription factor binding|arachidonic acid binding|drug binding|enzyme binding|prostaglandin receptor activity|retinoid X receptor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|kidney(1)	2					Atorvastatin(DB01076)|Icosapent(DB00159)|Pioglitazone(DB01132)|Rosiglitazone(DB00412)|Troglitazone(DB00197)	CCCAAGTTTGAGTTTGCTGTG	0.428			T	PAX8	follicular thyroid		Insulin resistance ; lipodystrophy|familial partial L;diabetes mellitus|insulin-resistantI|with acanthosis nigricans and hypertension						13	42					0	0	0.003163	0	0		G	12458573	G	G	12458573	3	3	45	1	0	0	0	0	1	0	0	0	12318	304	11	3	1212	3	PPARG	3	12458573	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2682430	12458573	185563857	189	34568											
NR2C2	7182	broad.mit.edu	37	chr3	15045441	15045441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgaccagcccctccccacGcatccagataatctccaccg	10	6	6	19	2	1	2	0	1	1	1	4	3	3	2	8	0	1	1	8	0	1	1	rs146761800		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:15045441G>A	uc003bzj.3	+	2	237	c.20G>A	c.(19-21)CGC>CAC	p.R7H	NR2C2_uc003bzi.2_Missense_Mutation_p.R7H	NM_003298	NP_003289	P49116	NR2C2_HUMAN	nuclear receptor subfamily 2, group C, member 2	7					cell differentiation|nervous system development|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						CCCTCCCCACGCATCCAGATA	0.562													8	43					0	0	0.004482	0	0		A	15045441	A	A	15045441	3	1	45	1	0	0	0	0	1	0	0	0	10642	1087	38	1	22	1	NR2C2	3	15045441	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2586868	15045441	182976989	190	34569											
ANKRD28	23243	broad.mit.edu	37	chr3	15755084	15755084	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgttgatcagcagctcatgGccataccgtgctgctatgtg	7	12	12	10	1	2	1	2	1	0	0	2	1	2	1	2	1	5	5	2	1	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:15755084G>A	uc003caj.1	-	10	1193	c.1050C>T	c.(1048-1050)GGC>GGT	p.G350G	ANKRD28_uc003cai.1_Silent_p.G196G|ANKRD28_uc011avz.1_Silent_p.G196G|ANKRD28_uc003cak.1_RNA|ANKRD28_uc011awa.1_RNA|ANKRD28_uc003cal.1_Silent_p.G380G|ANKRD28_uc003cam.2_Silent_p.G383G	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28	350	ANK 10.					nucleoplasm	protein binding			breast(1)	1						GCAGCTCATGGCCATACCGTG	0.453													27	164					0	0	0.007291	0	0		A	15755084	A	A	15755084	2	1	45	1	0	0	0	0	0	0	0	1	656	1190	42	2		2	ANKRD28	3	15755084	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	709643	15755084	182267346	191	34570											
DYNC1LI1	51143	broad.mit.edu	37	chr3	32612352	32612352	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcggcgggaacccggatatgGggcgttcagcgcacgggagc	7	4	19	11	6	1	0	1	0	0	0	1	3	1	3	1	6	3	2	1	6	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:32612352G>T	uc003cfb.3	-	1	1	c.-87_splice	c.e1-1		DYNC1LI1_uc011axh.1_Splice_Site	NM_016141	NP_057225	Q9Y6G9	DC1L1_HUMAN	dynein, cytoplasmic 1, light intermediate chain						cell division|interspecies interaction between organisms|mitosis|positive regulation of mitotic cell cycle spindle assembly checkpoint|transport	centrosome|condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|plasma membrane|spindle pole	ATP binding|motor activity			ovary(1)	1						CCCGGATATGGGGCGTTCAGC	0.537													6	7					3.59834e-05	3.79599e-05	0.001168	1	0		T	32612352	T	T	32612352	5	4	45	1	0	0	0	0	0	0	1	0	4850	1247	43	5		5	DYNC1LI1	3	32612352	Splice_Site	SNP	G	TCGA-BR-6852-01A-11D-1882-08	16857268	32612352	165410078	192	34571											
PLCD1	5333	broad.mit.edu	37	chr3	38052911	38052911	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caatctcctcgtcctccaggGagtctgtctgggagtggtca	6	11	12	12	1	4	0	1	0	3	0	8	2	6	2	3	3	0	0	3	3	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:38052911G>T	uc003chn.2	-	5	708	c.584C>A	c.(583-585)TCC>TAC	p.S195Y	PLCD1_uc003chm.2_Missense_Mutation_p.S216Y	NM_006225	NP_006216	P51178	PLCD1_HUMAN	phospholipase C, delta 1 isoform 2	195	2 (Potential).|EF-hand 2.				intracellular signal transduction|lipid catabolic process|phospholipid metabolic process	cytoplasm	calcium ion binding|GTPase activating protein binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		GTCCTCCAGGGAGTCTGTCTG	0.662													16	38					1.15088e-07	1.24597e-07	0.004007	1	0		T	38052911	T	T	38052911	3	4	45	1	0	0	0	0	1	0	0	0	12050	1174	41	5	1730	5	PLCD1	3	38052911	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5440559	38052911	159969519	193	34572											
XYLB	9942	broad.mit.edu	37	chr3	38404473	38404473	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaggcttcgggcttcgacTtctctcaagtcctagccttg	6	13	10	12	2	2	1	1	1	1	0	6	2	3	1	2	2	1	2	2	2	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:38404473T>A	uc003cic.2	+	4	365	c.256T>A	c.(256-258)TTC>ATC	p.F86I	XYLB_uc011ayp.1_Intron|XYLB_uc003cid.1_Missense_Mutation_p.F8I	NM_005108	NP_005099	O75191	XYLB_HUMAN	xylulokinase	86					D-xylose metabolic process|generation of precursor metabolites and energy|xylulose catabolic process		ATP binding|xylulokinase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.00372)|Kidney(284;0.00405)		GGGCTTCGACTTCTCTCAAGT	0.527													22	94					0	0	0.00278	0	0		A	38404473	A	A	38404473	3	1	45	1	0	0	0	0	1	0	0	0	17488	1609	56	5	270	5	XYLB	3	38404473	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	351562	38404473	159617957	194	34573											
TTC21A	199223	broad.mit.edu	37	chr3	39174572	39174572	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagtctcggatactgaaGcgagttccactggagcaacc	10	8	10	13	2	1	1	0	1	1	0	4	4	3	3	3	2	4	2	3	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:39174572G>A	uc003cjc.2	+	20	2790	c.2613G>A	c.(2611-2613)AAG>AAA	p.K871K	TTC21A_uc003cje.2_Silent_p.K872K|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Silent_p.K823K|TTC21A_uc011ayy.1_5'UTR|TTC21A_uc003cjf.2_5'UTR	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	871							binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		GGATACTGAAGCGAGTTCCAC	0.498													13	58					0	0	0.001855	0	0		A	39174572	A	A	39174572	2	1	45	1	0	0	0	0	0	0	0	1	16713	962	34	2		2	TTC21A	3	39174572	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	770099	39174572	158847858	195	34574											
TRAK1	22906	broad.mit.edu	37	chr3	42264629	42264629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcatttctgctgccgtgtaCgacccccagagctgggacag	7	8	13	13	2	1	1	0	0	1	1	1	3	1	2	3	2	4	4	3	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:42264629C>T	uc003cky.2	+	16	2478	c.2262C>T	c.(2260-2262)TAC>TAT	p.Y754Y	TRAK1_uc011azi.1_Silent_p.Y733Y	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	754					endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						CTGCCGTGTACGACCCCCAGA	0.637													9	30					0	0	0.004482	0	0		T	42264629	T	T	42264629	2	4	45	1	0	0	0	0	0	0	0	1	16475	547	19	1		1	TRAK1	3	42264629	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3090057	42264629	155757801	196	34575											
ZBTB47	92999	broad.mit.edu	37	chr3	42701286	42701286	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggagagcgagctgctgcTgcacaggcagacagactgcg	9	5	16	11	2	0	3	0	0	0	3	0	5	0	3	0	2	6	6	0	2	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:42701286T>A	uc003clu.1	+	1	413	c.311T>A	c.(310-312)CTG>CAG	p.L104Q		NM_145166	NP_660149	Q9UFB7	ZBT47_HUMAN	zinc finger protein 651	104	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.216)		GAGCTGCTGCTGCACAGGCAG	0.632													5	22					0	0	0.001168	0	0		A	42701286	A	A	42701286	3	1	45	1	0	0	0	0	1	0	0	0	17573	1580	55	5	1441	5	ZBTB47	3	42701286	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	436657	42701286	155321144	197	34576											
CCDC13	152206	broad.mit.edu	37	chr3	42777197	42777197	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgccagtgccctactcAcgtgcacattgagttgtccg	6	10	11	14	3	1	1	1	1	0	0	2	1	2	1	3	0	4	3	3	0	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:42777197A>G	uc003cly.3	-	10	1455	c.1371_splice	c.e10+1	p.H457_splice		NM_144719	NP_653320	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13											ovary(1)	1						TGCCCTACTCACGTGCACATT	0.582													32	129					0	0	0.012213	0	0		G	42777197	G	G	42777197	5	3	45	1	0	0	0	0	0	0	1	0	2768	173	6	3	802	3	CCDC13	3	42777197	Splice_Site	SNP	A	TCGA-BR-6852-01A-11D-1882-08	75911	42777197	155245233	198	34577											
ZNF167	55888	broad.mit.edu	37	chr3	44598765	44598765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaagcattgagccggcttCgggagctctgccgctggtgg	6	8	17	10	3	1	1	0	1	1	0	2	3	1	3	2	5	4	4	2	5	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:44598765C>T	uc010hin.2	+	2	614	c.226C>T	c.(226-228)CGG>TGG	p.R76W	ZNF167_uc003cnh.2_RNA|ZNF167_uc003cni.2_Missense_Mutation_p.R76W|ZNF167_uc010hio.2_Intron|ZNF167_uc003cnj.2_Missense_Mutation_p.R76W|ZNF167_uc003cnk.2_Missense_Mutation_p.R76W	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	76	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		GAGCCGGCTTCGGGAGCTCTG	0.582													16	48					0	0	0.003163	0	0		T	44598765	T	T	44598765	3	4	45	1	0	0	0	0	1	0	0	0	17766	875	31	1	228	1	ZNF167	3	44598765	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1821568	44598765	153423665	199	34578											
KIF15	56992	broad.mit.edu	37	chr3	44816853	44816853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatctgtgctgtcctccaCgagtctccggctgcactcca	5	12	8	16	2	2	0	0	0	2	0	6	1	5	0	4	1	2	3	4	1	1	1	rs147576633		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:44816853C>T	uc003cnx.3	+	3	319	c.170C>T	c.(169-171)ACG>ATG	p.T57M	KIF15_uc010hiq.2_Translation_Start_Site	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	57	Kinesin-motor.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		CTGTCCTCCACGAGTCTCCGG	0.473													18	60					0	0	0.006122	0	0		T	44816853	T	T	44816853	3	4	45	1	0	0	0	0	1	0	0	0	8293	536	19	1	180	1	KIF15	3	44816853	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	218088	44816853	153205577	200	34579											
FYCO1	79443	broad.mit.edu	37	chr3	45972679	45972679	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcctcggccacagtgaTggggatcaggctgtaggtgc	6	8	16	11	1	1	1	1	1	0	0	2	2	1	2	3	5	2	2	3	5	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:45972679T>C	uc003cpb.3	-	16	4341	c.4135A>G	c.(4135-4137)ATC>GTC	p.I1379V	FYCO1_uc011bal.1_Missense_Mutation_p.I1399V	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	1379	GOLD.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GCCACAGTGATGGGGATCAGG	0.582													4	64					0	0	0.009096	0	0		C	45972679	C	C	45972679	3	2	45	1	0	0	0	0	1	0	0	0	6139	1464	51	3	313	3	FYCO1	3	45972679	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1155826	45972679	152049751	201	34580											
FYCO1	79443	broad.mit.edu	37	chr3	46008021	46008021	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaggctgcctctttggcGtcctggagctcctggacagc	4	11	13	13	1	1	1	0	1	1	0	3	3	3	3	3	4	3	2	3	4	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:46008021G>A	uc003cpb.3	-	8	3011	c.2805C>T	c.(2803-2805)GAC>GAT	p.D935D	FYCO1_uc011bal.1_Silent_p.D935D	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	935	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		CCTCTTTGGCGTCCTGGAGCT	0.622													16	55					0	0	0.004007	0	0		A	46008021	A	A	46008021	2	1	45	1	0	0	0	0	0	0	0	1	6139	1136	40	1		1	FYCO1	3	46008021	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	35342	46008021	152014409	202	34581											
PTPN23	25930	broad.mit.edu	37	chr3	47453286	47453286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcagcaaaaagtggcacGctacttccccaccgagaggg	11	5	10	15	2	1	1	1	0	0	1	2	2	2	1	4	2	2	3	4	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:47453286G>A	uc003crf.1	+	21	3998	c.3902G>A	c.(3901-3903)CGC>CAC	p.R1301H	PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.R1171H|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1301	Tyrosine-protein phosphatase.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		AAAGTGGCACGCTACTTCCCC	0.647													8	104					0	0	0.004482	0	0		A	47453286	A	A	47453286	3	1	45	1	0	0	0	0	1	0	0	0	12813	1087	38	1	3984	1	PTPN23	3	47453286	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1445265	47453286	150569144	203	34582											
SCAP	22937	broad.mit.edu	37	chr3	47460866	47460866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagagcgtcggccagtggCggaaggacaatttcctccaa	11	7	13	10	3	0	2	0	1	0	1	3	4	2	4	3	4	1	0	3	4	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:47460866C>T	uc003crh.1	-	13	2147	c.1892G>A	c.(1891-1893)CGC>CAC	p.R631H	SCAP_uc011baz.1_Missense_Mutation_p.R376H|SCAP_uc003crg.2_Missense_Mutation_p.R239H	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	631	Lumenal (By similarity).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		CGGCCAGTGGCGGAAGGACAA	0.582													19	72					0	0	0.010504	0	0		T	47460866	T	T	47460866	3	4	45	1	0	0	0	0	1	0	0	0	13902	768	27	1	1991	1	SCAP	3	47460866	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	7580	47460866	150561564	204	34583											
USP4	7375	broad.mit.edu	37	chr3	49321537	49321537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ataggtcaaacttttttgtgGcctgttgatgcttcttacag	8	17	9	7	0	2	1	1	1	1	0	2	1	2	1	1	2	3	2	1	2	3	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:49321537G>A	uc003cwq.2	-	19	2502	c.2423C>T	c.(2422-2424)GCC>GTC	p.A808V	USP4_uc003cwo.2_Missense_Mutation_p.A520V|USP4_uc003cwp.2_Missense_Mutation_p.A538V|USP4_uc003cwr.2_Missense_Mutation_p.A761V	NM_003363	NP_003354	Q13107	UBP4_HUMAN	ubiquitin specific protease 4 isoform a	808					negative regulation of protein ubiquitination|protein deubiquitination|protein localization at cell surface|regulation of protein stability|ubiquitin-dependent protein catabolic process	lysosome|nucleus	adenosine receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|urinary_tract(1)|lung(1)	4		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)		CTTTTTTGTGGCCTGTTGATG	0.512													17	92					0	0	0.006122	0	0		A	49321537	A	A	49321537	3	1	45	1	0	0	0	0	1	0	0	0	17097	1203	42	2	484	2	USP4	3	49321537	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1860671	49321537	148700893	205	34584											
BSN	8927	broad.mit.edu	37	chr3	49689135	49689135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acagtgcaggggtgacagggCcacatccacccagcccctcc	9	4	11	17	0	0	1	0	1	0	0	2	1	2	1	6	3	2	1	6	3	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:49689135C>T	uc003cxe.3	+	5	2260	c.2146C>T	c.(2146-2148)CCA>TCA	p.P716S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	716					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		GGTGACAGGGCCACATCCACC	0.632													20	72					0	0	0.010504	0	0		T	49689135	T	T	49689135	3	4	45	1	0	0	0	0	1	0	0	0	1533	739	26	2	2164	2	BSN	3	49689135	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	367598	49689135	148333295	206	34585											
UBA7	7318	broad.mit.edu	37	chr3	49850959	49850959	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtggggatcatgcagagTgaggctgcccacacccatca	9	6	15	11	0	2	2	2	1	0	1	2	3	2	3	2	5	2	2	2	5	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:49850959T>C	uc003cxr.2	-	2	349	c.178A>G	c.(178-180)ACT>GCT	p.T60A		NM_003335	NP_003326	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7	60	2 approximate repeats.|1-1.				ISG15-protein conjugation|negative regulation of type I interferon production	cytosol	ATP binding|ISG15 activating enzyme activity|ligase activity			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		TCATGCAGAGTGAGGCTGCCC	0.662													17	82					0	0	0.004007	0	0		C	49850959	C	C	49850959	3	2	45	1	0	0	0	0	1	0	0	0	16859	1696	59	3	2952	3	UBA7	3	49850959	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	161824	49850959	148171471	207	34586											
CAMKV	79012	broad.mit.edu	37	chr3	49898646	49898646	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcccacagggctccttgaTgaggccattttctagcttag	7	12	11	11	0	1	2	0	2	1	0	3	2	3	2	3	3	1	2	3	3	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:49898646T>C	uc003cxt.1	-	6	722	c.529A>G	c.(529-531)ATC>GTC	p.I177V	CAMKV_uc011bcy.1_Missense_Mutation_p.I102V|CAMKV_uc003cxv.1_Missense_Mutation_p.I177V|CAMKV_uc003cxw.1_5'UTR|CAMKV_uc003cxx.1_5'UTR|CAMKV_uc003cxu.2_Missense_Mutation_p.I177V|CAMKV_uc011bcz.1_Missense_Mutation_p.I140V|CAMKV_uc011bda.1_Missense_Mutation_p.I134V|CAMKV_uc011bdb.1_RNA	NM_024046	NP_076951	Q8NCB2	CAMKV_HUMAN	CaM kinase-like vesicle-associated	177	Protein kinase.					cytoplasmic vesicle membrane|plasma membrane	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|large_intestine(2)|central_nervous_system(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		GGCTCCTTGATGAGGCCATTT	0.577													4	57					0	0	0.009096	0	0		C	49898646	C	C	49898646	3	2	45	1	0	0	0	0	1	0	0	0	2611	1464	51	3	1000	3	CAMKV	3	49898646	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	47687	49898646	148123784	208	34587											
RBM6	10180	broad.mit.edu	37	chr3	50005642	50005642	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatttcagaggtagacacCgatctaggactgatcaggat	13	9	11	8	1	3	4	2	1	1	3	3	7	3	6	1	3	0	1	1	3	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:50005642C>T	uc003cyc.2	+	3	917	c.784C>T	c.(784-786)CGA>TGA	p.R262*	RBM6_uc011bdh.1_RNA|RBM6_uc010hlc.1_Intron|RBM6_uc003cyd.2_Intron|RBM6_uc003cye.2_Intron|RBM6_uc011bdi.1_Intron|RBM6_uc010hld.1_Intron|RBM6_uc010hle.1_Intron|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	262					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		AGGTAGACACCGATCTAGGAC	0.448													21	66					0	0	0.014323	0	0		T	50005642	T	T	50005642	4	4	45	1	0	0	0	0	0	1	0	0	13169	644	23	1	790	1	RBM6	3	50005642	Nonsense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	106996	50005642	148016788	209	34588											
DOCK3	1795	broad.mit.edu	37	chr3	51418626	51418626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctcggaggccccacctcGcactgacaccatggactcca	8	6	8	19	2	0	1	0	1	0	0	4	3	2	3	6	3	0	1	6	3	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:51418626G>A	uc011bds.1	+	53	5752	c.5729G>A	c.(5728-5730)CGC>CAC	p.R1910H		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1910						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		GCCCCACCTCGCACTGACACC	0.607													11	57					0	0	0.008291	0	0		A	51418626	A	A	51418626	3	1	45	1	0	0	0	0	1	0	0	0	4694	1087	38	1	5939	1	DOCK3	3	51418626	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1412984	51418626	146603804	210	34589											
TEX264	51368	broad.mit.edu	37	chr3	51708379	51708379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactctcttactgctgctgaCgctgctggcctttgccgggt	3	13	12	13	2	1	1	0	1	1	0	2	2	1	1	2	2	5	4	2	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:51708379C>T	uc010hls.2	+	3	228	c.59C>T	c.(58-60)ACG>ATG	p.T20M	TEX264_uc003dbk.3_Missense_Mutation_p.T20M|TEX264_uc010hlt.2_Intron|TEX264_uc003dbl.3_Missense_Mutation_p.T20M|TEX264_uc003dbm.3_Missense_Mutation_p.T59M	NM_001129884	NP_001123356	Q9Y6I9	TX264_HUMAN	testis expressed 264 precursor	20						extracellular region					0				BRCA - Breast invasive adenocarcinoma(193;8.53e-05)|Kidney(197;0.000594)|KIRC - Kidney renal clear cell carcinoma(197;0.000759)		CTGCTGCTGACGCTGCTGGCC	0.607													20	100					0	0	0.012319	0	0		T	51708379	T	T	51708379	3	4	45	1	0	0	0	0	1	0	0	0	15808	536	19	1	61	1	TEX264	3	51708379	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	289753	51708379	146314051	211	34590											
GRM2	2912	broad.mit.edu	37	chr3	51746637	51746637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccatggctgagattctccGcttcttcaactggacctatg	7	12	10	12	1	3	1	1	1	2	1	4	3	3	2	3	3	1	2	3	3	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:51746637G>A	uc010hlv.2	+	3	838	c.599G>A	c.(598-600)CGC>CAC	p.R200H	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	200	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	GAGATTCTCCGCTTCTTCAAC	0.562													23	103					0	0	0.00278	0	0		A	51746637	A	A	51746637	3	1	45	1	0	0	0	0	1	0	0	0	6813	1087	38	1	605	1	GRM2	3	51746637	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	38258	51746637	146275793	212	34591											
GRM2	2912	broad.mit.edu	37	chr3	51746765	51746765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctcggagaaagtgggcCgtgccatgagccgcgcggcc	7	4	15	15	5	0	2	0	1	0	1	1	3	0	2	6	3	2	0	6	3	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:51746765C>T	uc010hlv.2	+	3	966	c.727C>T	c.(727-729)CGT>TGT	p.R243C	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	243	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	GAAAGTGGGCCGTGCCATGAG	0.647													10	33					0	0	0.006214	0	0		T	51746765	T	T	51746765	3	4	45	1	0	0	0	0	1	0	0	0	6813	652	23	1	733	1	GRM2	3	51746765	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	128	51746765	146275665	213	34592											
SFMBT1	51460	broad.mit.edu	37	chr3	52941085	52941085	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactattttttaaatggtacCtttggtgaaggaggtttatt	11	18	9	3	0	0	1	0	1	0	0	0	2	0	2	1	4	2	2	1	4	7	9			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:52941085C>A	uc003dgf.2	-	20	2900	c.2331G>T	c.(2329-2331)AAG>AAT	p.K777N	SFMBT1_uc010hmr.2_Missense_Mutation_p.K724N|SFMBT1_uc003dgg.2_Missense_Mutation_p.K777N|SFMBT1_uc003dgh.2_Missense_Mutation_p.K777N	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	777					regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		TAAATGGTACCTTTGGTGAAG	0.353													12	77					2.27111e-07	2.45308e-07	0.013537	1	0		A	52941085	A	A	52941085	3	1	45	1	0	0	0	0	1	0	0	0	14182	695	24	5	281	5	SFMBT1	3	52941085	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1194320	52941085	145081345	214	34593											
SLMAP	7871	broad.mit.edu	37	chr3	57913112	57913112	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctggccagagcttctccAtgagagcgttccttgagtcc	6	11	12	12	1	2	3	0	2	2	2	5	4	4	3	4	2	2	2	4	2	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:57913112A>G	uc003dje.1	+	22	2689	c.2484A>G	c.(2482-2484)CCA>CCG	p.P828P	SLMAP_uc003djd.1_Silent_p.P811P|SLMAP_uc003djf.1_Silent_p.P790P|SLMAP_uc003djg.1_3'UTR|SLMAP_uc011bez.1_Silent_p.P296P|SLMAP_uc011bfa.1_Silent_p.P362P|SLMAP_uc003dji.1_3'UTR|SLMAP_uc011bfb.1_Silent_p.P362P|SLMAP_uc011bfc.1_3'UTR	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	828	Extracellular (Potential).				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)		GAGCTTCTCCATGAGAGCGTT	0.542													6	21					0	0	0.001168	0	0		G	57913112	G	G	57913112	2	3	45	1	0	0	0	0	0	0	0	1	14774	204	8	3		3	SLMAP	3	57913112	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	4972027	57913112	140109318	215	34594											
MAGI1	9223	broad.mit.edu	37	chr3	65479197	65479197	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaactcaccttcataggtGccgacttccagaagagtccc	11	9	8	13	1	2	2	2	0	0	2	4	3	4	2	4	1	2	1	4	1	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:65479197G>A	uc003dmn.2	-	3	1066	c.540C>T	c.(538-540)GGC>GGT	p.G180G	MAGI1_uc003dmm.2_Silent_p.G180G|MAGI1_uc003dmo.2_Silent_p.G180G|MAGI1_uc003dmp.2_Silent_p.G180G|MAGI1_uc010hny.2_Silent_p.G64G|MAGI1_uc003dmr.2_Silent_p.G180G	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	180	Guanylate kinase-like.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		CTTCATAGGTGCCGACTTCCA	0.493													4	92					0	0	0.009096	0	0		A	65479197	A	A	65479197	2	1	45	1	0	0	0	0	0	0	0	1	9208	1306	46	2		2	MAGI1	3	65479197	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	7566085	65479197	132543233	216	34595											
FRMD4B	23150	broad.mit.edu	37	chr3	69246143	69246143	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagttagcataccatgtttGcacaaacaagccactttgcc	13	10	7	11	0	0	1	0	0	0	1	0	1	0	1	3	0	6	4	3	0	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:69246143G>A	uc003dnv.2	-	13	1290	c.1000C>T	c.(1000-1002)CAA>TAA	p.Q334*	FRMD4B_uc003dnw.2_Intron|FRMD4B_uc003dnu.2_5'UTR|FRMD4B_uc011bga.1_Nonsense_Mutation_p.Q178*	NM_015123	NP_055938	Q9Y2L6	FRM4B_HUMAN	FERM domain containing 4B	334	FERM.					cytoplasm|cytoskeleton	binding			ovary(3)|central_nervous_system(1)	4		Lung NSC(201;0.0138)|Prostate(884;0.11)		BRCA - Breast invasive adenocarcinoma(55;0.000201)|Epithelial(33;0.00141)|LUSC - Lung squamous cell carcinoma(21;0.00999)|Lung(16;0.0182)		TACCATGTTTGCACAAACAAG	0.408													10	39					0	0	0.008291	0	0		A	69246143	A	A	69246143	4	1	45	1	0	0	0	0	0	1	0	0	6066	1328	46	2	2148	2	FRMD4B	3	69246143	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3766946	69246143	128776287	217	34596											
PDZRN3	23024	broad.mit.edu	37	chr3	73433872	73433872	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctgaagggcaggtcgccGctgcccaaggtgtcctggct	5	9	15	12	2	0	1	0	1	0	0	2	1	1	1	3	4	2	4	3	4	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:73433872G>A	uc003dpl.1	-	10	1941	c.1845C>T	c.(1843-1845)AGC>AGT	p.S615S	PDZRN3_uc011bgh.1_Silent_p.S272S|PDZRN3_uc010hoe.1_Silent_p.S313S|PDZRN3_uc011bgf.1_Silent_p.S332S|PDZRN3_uc011bgg.1_Silent_p.S335S	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	615							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GCAGGTCGCCGCTGCCCAAGG	0.657													17	78					0	0	0.006122	0	0		A	73433872	A	A	73433872	2	1	45	1	0	0	0	0	0	0	0	1	11728	1078	38	1		1	PDZRN3	3	73433872	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4187729	73433872	124588558	218	34597											
IMPG2	50939	broad.mit.edu	37	chr3	100986374	100986374	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcattttccttgggggAcctgaaaacaaaaattaaaa	15	11	7	8	0	1	1	1	1	0	0	2	2	2	2	3	2	1	0	3	2	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:100986374A>G	uc003duq.1	-	9	1092	c.889T>C	c.(889-891)TCC>CCC	p.S297P	IMPG2_uc011bhe.1_Missense_Mutation_p.S160P	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	297	Extracellular (Potential).|SEA 1.				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						TCCTTGGGGGACCTGAAAACA	0.363													11	72					0	0	0.00245	0	0		G	100986374	G	G	100986374	3	3	45	1	0	0	0	0	1	0	0	0	7745	289	10	3	2880	3	IMPG2	3	100986374	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	27552502	100986374	97036056	219	34598											
DPPA2	151871	broad.mit.edu	37	chr3	109027089	109027089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcttggtcactgccttgcGtttcctcgaacatcgctgta	5	15	8	13	3	2	0	1	0	1	0	6	1	3	0	2	1	3	3	2	1	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:109027089G>A	uc003dxo.2	-	6	695	c.448C>T	c.(448-450)CGC>TGC	p.R150C		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	150						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						ACTGCCTTGCGTTTCCTCGAA	0.448													14	70					0	0	0.00245	0	0		A	109027089	A	A	109027089	3	1	45	1	0	0	0	0	1	0	0	0	4740	1145	40	1	460	1	DPPA2	3	109027089	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	8040715	109027089	88995341	220	34599											
ATP6V1A	523	broad.mit.edu	37	chr3	113513964	113513964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atatccagcctatcttggtgCccgtctggcctcgttttatg	5	15	9	12	2	2	0	0	0	2	0	4	0	3	0	4	2	2	1	4	2	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:113513964C>T	uc003eao.2	+	10	1205	c.1139C>T	c.(1138-1140)GCC>GTC	p.A380V	ATP6V1A_uc011bik.1_Missense_Mutation_p.A347V	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	380					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						TATCTTGGTGCCCGTCTGGCC	0.443													4	87					0	0	0.009096	0	0		T	113513964	T	T	113513964	3	4	45	1	0	0	0	0	1	0	0	0	1178	739	26	2	1173	2	ATP6V1A	3	113513964	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4486875	113513964	84508466	221	34600											
DRD3	1814	broad.mit.edu	37	chr3	113850211	113850211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcagatgctgtagtaacGcttcagctccagatgtgccg	8	10	12	11	2	1	2	1	0	0	2	2	2	2	2	2	1	4	6	2	1	2	3	rs149736958	by1000genomes	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:113850211G>A	uc003ebd.2	-	7	1183	c.760C>T	c.(760-762)CGT>TGT	p.R254C	DRD3_uc010hqn.1_Missense_Mutation_p.R254C|DRD3_uc003ebb.1_Missense_Mutation_p.R254C|DRD3_uc003ebc.1_Missense_Mutation_p.R254C	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	254	Cytoplasmic.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding	p.R254H(1)		ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	CTGTAGTAACGCTTCAGCTCC	0.512													20	108					0	0	0.010504	0	0		A	113850211	A	A	113850211	3	1	45	1	0	0	0	0	1	0	0	0	4764	1087	38	1	450	1	DRD3	3	113850211	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	336247	113850211	84172219	222	34601											
NR1I2	8856	broad.mit.edu	37	chr3	119534274	119534274	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgatgcaggccatctccCtcttctccccaggtgaggat	6	11	10	14	0	3	2	0	2	3	0	5	3	3	3	4	3	2	2	4	3	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:119534274C>A	uc003edj.2	+	7	2881	c.1042C>A	c.(1042-1044)CTC>ATC	p.L348I	NR1I2_uc003edi.2_Missense_Mutation_p.L311I|NR1I2_uc003edk.2_Missense_Mutation_p.L387I|NR1I2_uc003edl.2_Missense_Mutation_p.L236I	NM_003889	NP_003880	O75469	NR1I2_HUMAN	nuclear receptor subfamily 1, group I, member 2	348	Ligand-binding.				drug export|exogenous drug catabolic process|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid metabolic process|xenobiotic metabolic process|xenobiotic transport	nucleoplasm	drug binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(114;0.175)	Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Rifampin(DB01045)|Vitamin E(DB00163)	GGCCATCTCCCTCTTCTCCCC	0.572													18	90					1.99824e-07	2.16001e-07	0.00499	1	0		A	119534274	A	A	119534274	3	1	45	1	0	0	0	0	1	0	0	0	10639	681	24	5	1185	5	NR1I2	3	119534274	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	5684063	119534274	78488156	223	34602											
MCM2	4171	broad.mit.edu	37	chr3	127335932	127335932	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctggttctggctgaccgaGgagtgtgtctcattgatgaa	7	12	13	9	1	2	3	1	3	2	0	3	5	2	4	2	3	0	2	2	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:127335932G>T	uc003ejp.2	+	10	1801	c.1744G>T	c.(1744-1746)GGA>TGA	p.G582*	MCM2_uc011bkm.1_Nonsense_Mutation_p.G452*|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Nonsense_Mutation_p.G535*	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	582	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						GGCTGACCGAGGAGTGTGTCT	0.642													36	138					9.62906e-15	1.09223e-14	0.00623	1	0		T	127335932	T	T	127335932	4	4	45	1	0	0	0	0	0	1	0	0	9404	1001	35	5	1782	5	MCM2	3	127335932	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	7801658	127335932	70686498	224	34603											
IFT122	55764	broad.mit.edu	37	chr3	129221612	129221612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgagcccctgctgctgtgcGctacctacctcaagaagctg	7	8	11	15	2	1	1	1	0	0	1	1	2	1	1	4	0	7	4	4	0	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:129221612G>A	uc003emm.2	+	20	2640	c.2434G>A	c.(2434-2436)GCT>ACT	p.A812T	IFT122_uc003eml.2_Missense_Mutation_p.A863T|IFT122_uc003emn.2_Missense_Mutation_p.A753T|IFT122_uc003emo.2_Missense_Mutation_p.A701T|IFT122_uc003emp.2_Missense_Mutation_p.A662T|IFT122_uc010htc.2_Missense_Mutation_p.A804T|IFT122_uc011bky.1_Missense_Mutation_p.A603T|IFT122_uc003emq.2_Missense_Mutation_p.A652T|IFT122_uc003emr.2_Missense_Mutation_p.A564T|IFT122_uc011bla.1_Missense_Mutation_p.A585T|IFT122_uc010hte.2_Missense_Mutation_p.A138T|IFT122_uc003ems.2_Missense_Mutation_p.A193T|IFT122_uc011bkx.1_Missense_Mutation_p.A652T|IFT122_uc010htd.1_Missense_Mutation_p.A291T	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	812					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						GCTGCTGTGCGCTACCTACCT	0.572													6	122					0	0	0.001168	0	0		A	129221612	A	A	129221612	3	1	45	1	0	0	0	0	1	0	0	0	7571	1087	38	1	2669	1	IFT122	3	129221612	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1885680	129221612	68800818	225	34604											
RHO	6010	broad.mit.edu	37	chr3	129249797	129249797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taagcccatgagcaacttccGcttcggggagaaccatgcca	11	7	10	13	2	0	2	0	1	0	1	2	3	1	2	4	2	5	2	4	2	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:129249797G>A	uc003emt.2	+	2	535	c.440G>A	c.(439-441)CGC>CAC	p.R147H		NM_000539	NP_000530	P08100	OPSD_HUMAN	rhodopsin	147	Cytoplasmic.				protein-chromophore linkage|rhodopsin mediated signaling pathway	Golgi apparatus|integral to plasma membrane|photoreceptor inner segment membrane|photoreceptor outer segment membrane	G-protein coupled receptor activity|metal ion binding|photoreceptor activity|protein binding				0		all_neural(597;0.0227)|Myeloproliferative disorder(1037;0.0255)|Prostate(884;0.183)		GBM - Glioblastoma multiforme(114;2.58e-05)|Lung(219;0.0234)	Halothane(DB01159)	AGCAACTTCCGCTTCGGGGAG	0.637													5	204					0	0	0.001168	0	0		A	129249797	A	A	129249797	3	1	45	1	0	0	0	0	1	0	0	0	13355	1087	38	1	446	1	RHO	3	129249797	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	28185	129249797	68772633	226	34605											
ALG1L2	644974	broad.mit.edu	37	chr3	129810159	129810159	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaagaggcacctctggacCtgcagcaccggctcttcatg	9	9	10	13	1	3	1	1	0	2	1	3	2	3	2	3	3	2	4	3	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:129810159C>A	uc011bld.1	+	2	262	c.76C>A	c.(76-78)CTG>ATG	p.L26M	ALG1L2_uc010hth.2_RNA	NM_001136152	NP_001129624	C9J202	AG1L2_HUMAN	asparagine-linked glycosylation 1-like 2	26					biosynthetic process		transferase activity, transferring glycosyl groups				0						ACCTCTGGACCTGCAGCACCG	0.587													9	39					2.74318e-10	3.04749e-10	0.006214	1	0		A	129810159	A	A	129810159	3	1	45	1	0	0	0	0	1	0	0	0	518	680	24	5	82	5	ALG1L2	3	129810159	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	560362	129810159	68212271	227	34606											
COL6A6	131873	broad.mit.edu	37	chr3	130287372	130287372	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgggaggcccgagatggtTttttatgttgagaattttga	9	15	14	3	1	0	3	0	2	0	2	0	6	0	4	1	3	0	2	1	3	2	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:130287372T>C	uc010htl.2	+	5	2356	c.2325T>C	c.(2323-2325)GTT>GTC	p.V775V		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	775	Nonhelical region.|VWFA 4.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CCGAGATGGTTTTTTATGTTG	0.473													26	97					0	0	0.004656	0	0		C	130287372	C	C	130287372	2	2	45	1	0	0	0	0	0	0	0	1	3706	1828	64	3		3	COL6A6	3	130287372	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	477213	130287372	67735058	228	34607											
ACAD11	84129	broad.mit.edu	37	chr3	132322160	132322160	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcgtggcatcacttgaagCtacatcaggttctataaata	13	13	7	8	1	3	1	2	1	1	0	4	1	3	1	0	2	2	3	0	2	6	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:132322160C>A	uc003eov.3	-	13	1914	c.1534G>T	c.(1534-1536)GCT>TCT	p.A512S	ACAD11_uc011blr.1_Missense_Mutation_p.A123S	NM_032169	NP_115545	Q709F0	ACD11_HUMAN	putative acyl-CoA dehydrogenase	512	FAD.|FAD.					peroxisome	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|transferase activity, transferring phosphorus-containing groups			ovary(1)	1						TCACTTGAAGCTACATCAGGT	0.368													14	81					3.27435e-08	3.57527e-08	0.00245	1	0		A	132322160	A	A	132322160	3	1	45	1	0	0	0	0	1	0	0	0	109	797	28	5	840	5	ACAD11	3	132322160	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2034788	132322160	65700270	229	34608											
DZIP1L	199221	broad.mit.edu	37	chr3	137790602	137790602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaaattcagaaaacttccGggccttctgctcccgctgga	10	9	9	13	2	2	2	1	0	1	2	4	3	4	3	3	2	2	2	3	2	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:137790602G>A	uc003erq.2	-	12	1861	c.1498C>T	c.(1498-1500)CGG>TGG	p.R500W	DZIP1L_uc003err.1_Missense_Mutation_p.R500W	NM_173543	NP_775814	Q8IYY4	DZI1L_HUMAN	DAZ interacting protein 1-like	500						intracellular	zinc ion binding			ovary(1)|pancreas(1)	2						GAAAACTTCCGGGCCTTCTGC	0.537													15	69					0	0	0.003163	0	0		A	137790602	A	A	137790602	3	1	45	1	0	0	0	0	1	0	0	0	4870	1115	39	1	834	1	DZIP1L	3	137790602	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5468442	137790602	60231828	230	34609											
TRIM42	287015	broad.mit.edu	37	chr3	140401535	140401535	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctcatctgcccagtgtgCgaccgctcgcactgcatgcc	6	9	9	17	3	2	0	1	0	1	0	4	1	3	0	4	0	4	3	4	0	0	0	rs143917166		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:140401535C>T	uc003eto.1	+	2	764	c.573C>T	c.(571-573)TGC>TGT	p.C191C		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	191	RING-type.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						GCCCAGTGTGCGACCGCTCGC	0.617													5	139					0	0	0.001168	0	0		T	140401535	T	T	140401535	2	4	45	1	0	0	0	0	0	0	0	1	16543	776	27	1		1	TRIM42	3	140401535	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2610933	140401535	57620895	231	34610											
ATR	545	broad.mit.edu	37	chr3	142277486	142277486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatagctatctgaaatcctaCagcttaatgttagaagatta	16	13	6	6	0	1	3	0	1	1	2	2	3	2	3	1	0	3	3	1	0	9	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:142277486C>T	uc003eux.3	-	8	1987	c.1865G>A	c.(1864-1866)TGT>TAT	p.C622Y		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	622					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						TGAAATCCTACAGCTTAATGT	0.294								Other_conserved_DNA_damage_response_genes					10	332					0	0	0.006214	0	0		T	142277486	T	T	142277486	3	4	45	1	0	0	0	0	1	0	0	0	1205	478	17	4	6229	4	ATR	3	142277486	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1875951	142277486	55744944	232	34611											
C3orf58	205428	broad.mit.edu	37	chr3	143708636	143708636	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggcagattccaggctgcaAaagaactgcgtgaataccta	14	8	10	9	1	0	3	0	1	0	2	1	3	1	3	2	2	4	3	2	2	6	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:143708636A>G	uc003evo.2	+	3	1781	c.1246A>G	c.(1246-1248)AAA>GAA	p.K416E	C3orf58_uc011bnl.1_Missense_Mutation_p.K207E	NM_173552	NP_775823	Q8NDZ4	CC058_HUMAN	hypothetical protein LOC205428 isoform a	416						COPI vesicle coat|extracellular region				ovary(1)	1						CCAGGCTGCAAAAGAACTGCG	0.448													4	77					0	0	0.000602	0	0		G	143708636	G	G	143708636	3	3	45	1	0	0	0	0	1	0	0	0	2239	15	1	3	1290	3	C3orf58	3	143708636	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1431150	143708636	54313794	233	34612											
P2RY14	9934	broad.mit.edu	37	chr3	150931269	150931269	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagatagtagcagagtgAattctttcatataccgcaag	14	10	9	8	1	2	3	1	1	1	2	2	3	2	3	1	0	3	4	1	0	6	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:150931269A>G	uc003eyr.1	-	3	1314	c.836T>C	c.(835-837)TTC>TCC	p.F279S	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY14_uc003eys.1_Missense_Mutation_p.F279S	NM_001081455	NP_001074924	Q15391	P2Y14_HUMAN	P2Y14 receptor	279	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled|UDP-activated nucleotide receptor activity			large_intestine(2)|ovary(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TAGCAGAGTGAATTCTTTCAT	0.388													21	86					0	0	0.014323	0	0		G	150931269	G	G	150931269	3	3	45	1	0	0	0	0	1	0	0	0	11370	246	9	3	184	3	P2RY14	3	150931269	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	7222633	150931269	47091161	234	34613											
MBNL1	4154	broad.mit.edu	37	chr3	152165478	152165478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaaaccaacggtgccaccGcagtctttaacactggtatt	14	9	7	11	2	1	0	0	0	1	0	1	0	1	0	3	2	4	2	3	2	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:152165478G>A	uc003ezm.2	+	6	1720	c.931G>A	c.(931-933)GCA>ACA	p.A311T	MBNL1_uc003ezh.2_Missense_Mutation_p.A293T|MBNL1_uc003ezi.2_Missense_Mutation_p.A293T|MBNL1_uc003ezj.2_Missense_Mutation_p.A254T|MBNL1_uc003ezl.2_Missense_Mutation_p.A293T|MBNL1_uc003ezp.2_Intron|MBNL1_uc003ezn.2_Missense_Mutation_p.A225T|MBNL1_uc003ezo.2_Missense_Mutation_p.A225T|MBNL1_uc010hvp.2_Intron	NM_207293	NP_997176	Q9NR56	MBNL1_HUMAN	muscleblind-like 1 isoform c	311					embryonic limb morphogenesis|in utero embryonic development|myoblast differentiation|nervous system development	nucleus|stress granule	double-stranded RNA binding|protein binding|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			CGGTGCCACCGCAGTCTTTAA	0.443													18	117					0	0	0.007413	0	0		A	152165478	A	A	152165478	3	1	45	1	0	0	0	0	1	0	0	0	9371	1087	38	1	953	1	MBNL1	3	152165478	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1234209	152165478	45856952	235	34614											
DHX36	170506	broad.mit.edu	37	chr3	154006670	154006670	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaccagctccatcaggtgTcttatggagagtaacactgc	10	12	9	10	0	2	1	1	0	1	1	3	2	3	1	2	2	4	2	2	2	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:154006670T>C	uc003ezy.3	-	17	2097	c.2016A>G	c.(2014-2016)AGA>AGG	p.R672R	DHX36_uc010hvq.2_Silent_p.R658R|DHX36_uc003ezz.3_Silent_p.R672R	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	672						cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			CCATCAGGTGTCTTATGGAGA	0.348													3	22					0	0	0.004672	0	0		C	154006670	C	C	154006670	2	2	45	1	0	0	0	0	0	0	0	1	4515	1664	58	3		3	DHX36	3	154006670	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1841192	154006670	44015760	236	34615											
BCHE	590	broad.mit.edu	37	chr3	165548072	165548072	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcattaaaggatccactttgCagaatggctctggtgaacaa	13	10	10	8	0	1	2	0	1	1	1	2	3	2	3	1	3	2	3	1	3	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:165548072C>T	uc003fem.3	-	2	910	c.750G>A	c.(748-750)CTG>CTA	p.L250L	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	250					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	ATCCACTTTGCAGAATGGCTC	0.438													13	133					0	0	0.00245	0	0		T	165548072	T	T	165548072	2	4	45	1	0	0	0	0	0	0	0	1	1359	697	25	2		2	BCHE	3	165548072	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	11541402	165548072	32474358	237	34616											
PIK3CA	5290	broad.mit.edu	37	chr3	178928348	178928348	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatttagctattcccacgcaGgactggtaaggcaaatcact	12	10	9	10	1	1	0	1	0	0	0	2	2	2	1	1	3	1	4	1	3	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:178928348G>T	uc003fjk.2	+	9	1691	c.1534G>T	c.(1534-1536)GGA>TGA	p.G512*		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	512					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TTCCCACGCAGGACTGGTAAG	0.398		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			4	62					0.00024832	0.000260198	0.009096	1	0		T	178928348	T	T	178928348	4	4	45	1	0	0	0	0	0	1	0	0	11932	1001	35	5	1564	5	PIK3CA	3	178928348	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	13380276	178928348	19094082	238	34617											
GNB4	59345	broad.mit.edu	37	chr3	179131207	179131207	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctattcacttacactgacaGcattgatatctgagacatgt	12	13	7	9	0	2	3	1	3	1	1	2	4	2	3	0	0	2	2	0	0	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:179131207G>C	uc003fjv.3	-	8	972	c.692C>G	c.(691-693)GCT>GGT	p.A231G	GNB4_uc003fju.3_Missense_Mutation_p.A142G	NM_021629	NP_067642	Q9HAV0	GBB4_HUMAN	guanine nucleotide-binding protein, beta-4	231	WD 5.				cellular response to glucagon stimulus|energy reserve metabolic process	plasma membrane	signal transducer activity			skin(2)	2	all_cancers(143;2.01e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.237)			TACACTGACAGCATTGATATC	0.363													8	37					0	0	0.00308	0	0		C	179131207	C	C	179131207	3	2	45	1	0	0	0	0	1	0	0	0	6535	971	34	5	342	5	GNB4	3	179131207	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	202859	179131207	18891223	239	34618											
YEATS2	55689	broad.mit.edu	37	chr3	183521825	183521825	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttacaagaaatcctggagaaGaatccgagatttcaccacct	15	9	7	10	1	1	4	1	0	0	4	3	6	3	4	4	1	1	0	4	1	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:183521825G>A	uc003fly.2	+	27	3828	c.3633G>A	c.(3631-3633)AAG>AAA	p.K1211K	uc003fma.1_3'UTR	NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	1211					histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TCCTGGAGAAGAATCCGAGAT	0.453													20	86					0	0	0.007413	0	0		A	183521825	A	A	183521825	2	1	45	1	0	0	0	0	0	0	0	1	17498	933	33	4		4	YEATS2	3	183521825	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4390618	183521825	14500605	240	34619											
HTR3C	170572	broad.mit.edu	37	chr3	183778041	183778041	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acccagctaatggagctgtgGgtgcagttcagccacgcgat	9	8	13	11	2	1	0	1	0	0	0	1	2	1	1	2	2	4	4	2	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:183778041G>T	uc003fmk.2	+	9	1279	c.1245G>T	c.(1243-1245)TGG>TGT	p.W415C		NM_130770	NP_570126	Q8WXA8	5HT3C_HUMAN	5-hydroxytryptamine receptor 3 subunit C	415	Cytoplasmic (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(143;2.33e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			TGGAGCTGTGGGTGCAGTTCA	0.587													13	157					1.05317e-09	1.16263e-09	0.00245	1	0		T	183778041	T	T	183778041	3	4	45	1	0	0	0	0	1	0	0	0	7462	1241	43	5	1279	5	HTR3C	3	183778041	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	256216	183778041	14244389	241	34620											
CLCN2	1181	broad.mit.edu	37	chr3	184064539	184064539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagctggcgaggggcggcCggactttcacaccctgtgct	6	7	16	12	3	1	0	1	0	0	0	1	3	1	2	2	6	2	2	2	6	1	1	rs149460784		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:184064539C>T	uc003foi.2	-	24	2676	c.2552G>A	c.(2551-2553)CGG>CAG	p.R851Q	CLCN2_uc003foh.2_Missense_Mutation_p.R340Q|CLCN2_uc010hya.1_Missense_Mutation_p.R834Q|CLCN2_uc011brl.1_Missense_Mutation_p.R822Q|CLCN2_uc011brm.1_Missense_Mutation_p.R807Q	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	851	Cytoplasmic (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	GAGGGGCGGCCGGACTTTCAC	0.637													10	64					0	0	0.008291	0	0		T	184064539	T	T	184064539	3	4	45	1	0	0	0	0	1	0	0	0	3466	652	23	1	148	1	CLCN2	3	184064539	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	286498	184064539	13957891	242	34621											
EPHB3	2049	broad.mit.edu	37	chr3	184290449	184290449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctcaagttcactgtgcGtgactgcaacagcatcccca	10	8	10	13	1	2	1	2	1	0	0	3	2	3	2	2	1	5	4	2	1	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:184290449G>A	uc003foz.2	+	3	778	c.341G>A	c.(340-342)CGT>CAT	p.R114H		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	114	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			TTCACTGTGCGTGACTGCAAC	0.597													4	33					0	0	0.009096	0	0		A	184290449	A	A	184290449	3	1	45	1	0	0	0	0	1	0	0	0	5184	1145	40	1	351	1	EPHB3	3	184290449	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	225910	184290449	13731981	243	34622											
KNG1	3827	broad.mit.edu	37	chr3	186450357	186450357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagatatacccaccaacaGcccagagctggaggagacac	15	3	10	13	0	0	3	0	0	0	3	0	6	0	4	3	2	4	1	3	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:186450357G>A	uc011bsa.1	+	7	1036	c.824G>A	c.(823-825)AGC>AAC	p.S275N	KNG1_uc003fqr.2_Missense_Mutation_p.S275N	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	275	Cystatin 3.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	CCCACCAACAGCCCAGAGCTG	0.438													5	161					0	0	0.000602	0	0		A	186450357	A	A	186450357	3	1	45	1	0	0	0	0	1	0	0	0	8443	971	34	2	850	2	KNG1	3	186450357	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2159908	186450357	11572073	244	34623											
LEPREL1	55214	broad.mit.edu	37	chr3	189689785	189689785	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgactgaggtcatttcttcTatcctgctgacctgccagaa	9	13	8	11	0	3	4	1	3	2	1	4	4	4	4	3	1	2	1	3	1	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:189689785T>C	uc011bsk.1	-	12	2099	c.1711A>G	c.(1711-1713)AGA>GGA	p.R571G	LEPREL1_uc003fsg.2_Missense_Mutation_p.R390G	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	571	Fe2OG dioxygenase.				collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	TCATTTCTTCTATCCTGCTGA	0.478													4	29					0	0	0.000602	0	0		C	189689785	C	C	189689785	3	2	45	1	0	0	0	0	1	0	0	0	8746	1530	53	3	431	3	LEPREL1	3	189689785	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	3239428	189689785	8332645	245	34624											
MUC4	4585	broad.mit.edu	37	chr3	195515860	195515860	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccggggacgatcgaagacGccattcctgtgcttactggg	7	9	14	11	4	0	1	0	0	0	1	2	4	1	2	3	3	3	1	3	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:195515860G>A	uc011bto.1	-	2	3051	c.2591C>T	c.(2590-2592)GCG>GTG	p.A864V	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.A746V	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	869	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GATCGAAGACGCCATTCCTGT	0.582													7	36					0	0	0.001984	0	0		A	195515860	A	A	195515860	3	1	45	1	0	0	0	0	1	0	0	0	9996	1087	38	1		1	MUC4	3	195515860	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5826075	195515860	2506570	246	34625											
PCYT1A	5130	broad.mit.edu	37	chr3	195974240	195974240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtccagtttcttacccGgtgttcggccaggaactcgg	6	12	12	11	3	1	0	0	0	1	0	4	1	2	1	3	4	2	2	3	4	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:195974240G>A	uc003fwg.2	-	6	657	c.484C>T	c.(484-486)CGG>TGG	p.R162W	PCYT1A_uc003fwh.2_Missense_Mutation_p.R162W	NM_005017	NP_005008	P49585	PCY1A_HUMAN	choline phosphate cytidylyltransferase 1 alpha	162	Catalytic (Potential).					cytosol|soluble fraction	choline-phosphate cytidylyltransferase activity				0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.28e-24)|all cancers(36;1.01e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00259)	Choline(DB00122)	TTTCTTACCCGGTGTTCGGCC	0.547													38	158					0	0	0.011902	0	0		A	195974240	A	A	195974240	3	1	45	1	0	0	0	0	1	0	0	0	11629	1115	39	1	639	1	PCYT1A	3	195974240	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	458380	195974240	2048190	247	34626											
LRCH3	84859	broad.mit.edu	37	chr3	197593070	197593070	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccttttccgagcaggtgTcagggcagaaaccaacaaag	12	8	10	11	1	1	1	1	0	0	1	3	2	3	1	3	2	3	2	3	2	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr3:197593070T>G	uc011bul.1	+	17	1858	c.1853T>G	c.(1852-1854)GTC>GGC	p.V618G	LRCH3_uc003fyj.1_Missense_Mutation_p.V618G|LRCH3_uc011bum.1_Missense_Mutation_p.V566G|LRCH3_uc011bun.1_Missense_Mutation_p.V464G|LRCH3_uc003fyk.2_Missense_Mutation_p.V213G	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	618						extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		CGAGCAGGTGTCAGGGCAGAA	0.468													16	77					0	0	0.004007	0	0		G	197593070	G	G	197593070	3	3	45	1	0	0	0	0	1	0	0	0	8952	1667	58	5	1919	5	LRCH3	3	197593070	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1618830	197593070	429360	248	34627											
ZNF718	255403	broad.mit.edu	37	chr4	53308	53308	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgattcagccacagcctctGcctcccgttgctctgtgacc	5	11	9	16	1	3	2	1	2	2	0	4	2	4	2	5	0	4	2	5	0	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:53308G>A	uc003fzt.3	+	3	64	c.-69_splice	c.e3+1		ZNF595_uc003fzu.1_RNA|ZNF595_uc010iay.1_RNA|ZNF595_uc003fzv.1_5'UTR|ZNF595_uc011bus.1_5'UTR|ZNF595_uc011but.1_5'UTR	NM_001039127	NP_001034216	Q3SXZ3	ZN718_HUMAN	zinc finger protein 718						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0681)|Epithelial(2;0.0838)|all cancers(2;0.135)|LUSC - Lung squamous cell carcinoma(95;0.18)		CACAGCCTCTGCCTCCCGTTG	0.607													6	211					0	0	0.001168	0	0		A	53308	A	A	53308	5	1	45	1	0	0	0	0	0	0	1	0	18145	1334	46	2		2	ZNF718	4	53308	Splice_Site	SNP	G	TCGA-BR-6852-01A-11D-1882-08		53308	191100968	249	34628											
CTBP1	1487	broad.mit.edu	37	chr4	1207290	1207290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggctctgcggatctcccGtgccgcctcctctcgcatct	3	11	10	17	4	4	0	0	0	4	0	7	2	5	1	4	2	2	2	4	2	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:1207290G>A	uc003gcv.1	-	7	1162	c.997C>T	c.(997-999)CGG>TGG	p.R333W	uc003gcs.1_Intron|CTBP1_uc003gct.1_Missense_Mutation_p.R314W|CTBP1_uc003gcu.1_Missense_Mutation_p.R322W|CTBP1_uc003gcw.2_Missense_Mutation_p.R7W	NM_001328	NP_001319	Q13363	CTBP1_HUMAN	C-terminal binding protein 1 isoform 1	333	Interaction with GLIS2 2 (By similarity).				interspecies interaction between organisms|negative regulation of cell proliferation|negative regulation of histone H4 acetylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone deacetylation|protein phosphorylation|regulation of cell cycle|regulation of transcription by chromatin organization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|viral genome replication|white fat cell differentiation	cytoplasm|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein C-terminus binding|protein domain specific binding|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00818)	Colorectal(103;0.2)		CGGATCTCCCGTGCCGCCTCC	0.667													18	92					0	0	0.007413	0	0		A	1207290	A	A	1207290	3	1	45	1	0	0	0	0	1	0	0	0	4000	1144	40	1	337	1	CTBP1	4	1207290	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1153982	1207290	189946986	250	34629											
ZFYVE28	57732	broad.mit.edu	37	chr4	2306637	2306637	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtccaggcagctgcaggagCtggtgcccgcgaggctggcc	6	5	17	13	2	0	0	0	0	0	0	1	2	1	1	3	5	4	5	3	5	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:2306637C>A	uc003gex.1	-	8	1749	c.1430G>T	c.(1429-1431)AGC>ATC	p.S477I	ZFYVE28_uc011bvk.1_Missense_Mutation_p.S407I|ZFYVE28_uc011bvl.1_Missense_Mutation_p.S447I|ZFYVE28_uc003gew.1_Missense_Mutation_p.S363I	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	477					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						GCTGCAGGAGCTGGTGCCCGC	0.682													14	85					0.00244969	0.0025161	0.00245	1	0		A	2306637	A	A	2306637	3	1	45	1	0	0	0	0	1	0	0	0	17695	797	28	5	1257	5	ZFYVE28	4	2306637	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1099347	2306637	188847639	251	34630											
AFAP1	60312	broad.mit.edu	37	chr4	7802207	7802207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggccgttgcgcagcagccGgaacgtcagaggatgtttag	8	8	15	10	4	1	1	1	0	0	1	1	3	1	3	2	3	4	4	2	3	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:7802207G>A	uc003gkg.1	-	10	1501	c.1228C>T	c.(1228-1230)CGG>TGG	p.R410W	AFAP1_uc011bwk.1_Missense_Mutation_p.R410W	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	410	PH 2.					actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						CGCAGCAGCCGGAACGTCAGA	0.552													6	37					0	0	0.001168	0	0		A	7802207	A	A	7802207	3	1	45	1	0	0	0	0	1	0	0	0	353	1115	39	1	1252	1	AFAP1	4	7802207	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5495570	7802207	183352069	252	34631											
ACOX3	8310	broad.mit.edu	37	chr4	8398700	8398700	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcactggtatttcctcctcCtctgtgggtccaaactgacg	7	12	9	13	1	1	1	0	1	1	0	5	1	5	1	4	2	2	2	4	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:8398700C>A	uc010idk.2	-	9	1165	c.1020G>T	c.(1018-1020)GAG>GAT	p.E340D	ACOX3_uc003glc.3_Missense_Mutation_p.E340D|ACOX3_uc003gld.3_Missense_Mutation_p.E340D|ACOX3_uc003gle.1_Missense_Mutation_p.E245D	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	340	Poly-Glu.				bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						TTTCCTCCTCCTCTGTGGGTC	0.498													17	90					1.55795e-14	1.76576e-14	0.012319	1	0		A	8398700	A	A	8398700	3	1	45	1	0	0	0	0	1	0	0	0	160	680	24	5	1122	5	ACOX3	4	8398700	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	596493	8398700	182755576	253	34632											
CPEB2	132864	broad.mit.edu	37	chr4	15063798	15063798	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacccaaaaggtgctgggCgagttgctttctccaatcag	11	10	10	10	1	2	0	1	0	1	0	3	1	2	0	2	2	3	3	2	2	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:15063798C>T	uc003gni.1	+	10	1543	c.1456C>T	c.(1456-1458)CGA>TGA	p.R486*	CPEB2_uc003gnj.1_Nonsense_Mutation_p.R456*|CPEB2_uc003gnk.1_Nonsense_Mutation_p.R494*|CPEB2_uc003gnl.1_Nonsense_Mutation_p.R467*|CPEB2_uc003gnm.1_Nonsense_Mutation_p.R464*|CPEB2_uc003gnn.1_Nonsense_Mutation_p.R459*	NM_182485	NP_872291	Q7Z5Q1	CPEB2_HUMAN	cytoplasmic polyadenylation element binding	486	RRM 2.				regulation of translation	cytoplasm	nucleotide binding|RNA binding			skin(1)	1						AGGTGCTGGGCGAGTTGCTTT	0.433													27	153					0	0	0.003954	0	0		T	15063798	T	T	15063798	4	4	45	1	0	0	0	0	0	1	0	0	3804	760	27	1	2842	1	CPEB2	4	15063798	Nonsense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6665098	15063798	176090478	254	34633											
QDPR	5860	broad.mit.edu	37	chr4	17493907	17493907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catgccgctgttcttcccagCcaggctctggcagagctggt	5	10	12	14	1	2	1	0	0	2	1	3	1	3	1	3	3	3	5	3	3	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:17493907C>T	uc003gpd.2	-	5	673	c.493G>A	c.(493-495)GCT>ACT	p.A165T	QDPR_uc003gpe.2_Missense_Mutation_p.A134T|QDPR_uc003gpf.2_Intron	NM_000320	NP_000311	P09417	DHPR_HUMAN	quinoid dihydropteridine reductase	165					dihydrobiopterin metabolic process|L-phenylalanine catabolic process|tetrahydrobiopterin biosynthetic process	cytosol	6,7-dihydropteridine reductase activity|binding|electron carrier activity			ovary(1)	1					NADH(DB00157)	TTCTTCCCAGCCAGGCTCTGG	0.652													12	41					0	0	0.013537	0	0		T	17493907	T	T	17493907	3	4	45	1	0	0	0	0	1	0	0	0	12897	739	26	2	253	2	QDPR	4	17493907	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2430109	17493907	173660369	255	34634											
KLB	152831	broad.mit.edu	37	chr4	39409172	39409172	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgggatttgcctttggcActacaagaaaaatatggggg	12	10	12	7	0	0	1	0	0	0	1	0	2	0	2	1	4	2	1	1	4	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:39409172A>G	uc003gua.2	+	1	700	c.603A>G	c.(601-603)GCA>GCG	p.A201A	KLB_uc011byj.1_Silent_p.A201A	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	201	Extracellular (Potential).|Glycosyl hydrolase-1 1.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						TGCCTTTGGCACTACAAGAAA	0.403													12	82					0	0	0.013537	0	0		G	39409172	G	G	39409172	2	3	45	1	0	0	0	0	0	0	0	1	8348	146	6	3		3	KLB	4	39409172	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	21915265	39409172	151745104	256	34635											
RPL9	6133	broad.mit.edu	37	chr4	39458044	39458044	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggtctcatccgaacccTgcggatatatttttcaccca	9	12	6	14	2	2	0	2	0	1	0	4	2	3	1	4	2	2	0	4	2	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:39458044T>C	uc003gub.2	-	4	521	c.373A>G	c.(373-375)AGG>GGG	p.R125G	RPL9_uc003guc.2_Missense_Mutation_p.R125G|RPL9_uc011byk.1_RNA|RPL9_uc011byl.1_Missense_Mutation_p.R125G|LIAS_uc003gue.3_5'Flank|LIAS_uc011bym.1_5'Flank|LIAS_uc003guf.2_5'Flank|LIAS_uc003gug.2_5'Flank|LIAS_uc003guh.2_5'Flank	NM_001024921	NP_001020092	P32969	RL9_HUMAN	ribosomal protein L9	125					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|nucleolus|ribosome	rRNA binding|structural constituent of ribosome			skin(1)	1						ATCCGAACCCTGCGGATATAT	0.413													13	43					0	0	0.00245	0	0		C	39458044	C	C	39458044	3	2	45	1	0	0	0	0	1	0	0	0	13628	1579	55	3	217	3	RPL9	4	39458044	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	48872	39458044	151696232	257	34636											
KCTD8	386617	broad.mit.edu	37	chr4	44450159	44450159	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcctcgcgcagcagccgctCcttctcggggaagtgctccg	4	7	14	16	5	1	0	0	0	1	0	5	1	3	1	4	3	3	4	4	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:44450159C>A	uc003gwu.2	-	1	666	c.382G>T	c.(382-384)GAG>TAG	p.E128*		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	128						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						AGCAGCCGCTCCTTCTCGGGG	0.612										HNSCC(17;0.042)			6	21					0.00198382	0.00203909	0.001984	1	0		A	44450159	A	A	44450159	4	1	45	1	0	0	0	0	0	1	0	0	8131	864	30	5	1047	5	KCTD8	4	44450159	Nonsense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4992115	44450159	146704117	258	34637											
GUF1	60558	broad.mit.edu	37	chr4	44683221	44683221	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgtggttgatgcaaatgagGtaggtatttttcattttgta	9	19	11	2	0	1	2	1	2	0	0	1	2	1	2	0	3	1	5	0	3	4	9			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:44683221G>A	uc003gww.3	+	4	714	c.507_splice	c.e4+1	p.E169_splice	GUF1_uc010ifz.1_Splice_Site	NM_021927	NP_068746	Q8N442	GUF1_HUMAN	GUF1 GTPase homolog						translation	mitochondrial inner membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)	1						TGCAAATGAGGTAGGTATTTT	0.323													25	199					0	0	0.005443	0	0		A	44683221	A	A	44683221	5	1	45	1	0	0	0	0	0	0	1	0	6915	1275	44	4	522	4	GUF1	4	44683221	Splice_Site	SNP	G	TCGA-BR-6852-01A-11D-1882-08	233062	44683221	146471055	259	34638											
CORIN	10699	broad.mit.edu	37	chr4	47682178	47682178	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagttgacctcgtcagacTtatccacacagtcgtggtca	10	10	9	12	2	2	2	2	1	0	1	5	2	3	2	2	1	1	2	2	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:47682178T>G	uc003gxm.2	-	8	1205	c.1112A>C	c.(1111-1113)AAG>ACG	p.K371T	CORIN_uc011bzf.1_Missense_Mutation_p.K232T|CORIN_uc011bzg.1_Missense_Mutation_p.K304T|CORIN_uc011bzh.1_Intron|CORIN_uc011bzi.1_Intron|CORIN_uc003gxn.3_3'UTR	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	371	Extracellular (Potential).|LDL-receptor class A 3.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						CTCGTCAGACTTATCCACACA	0.507													5	44					0	0	0.001168	0	0		G	47682178	G	G	47682178	3	3	45	1	0	0	0	0	1	0	0	0	3755	1609	56	5	2076	5	CORIN	4	47682178	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2998957	47682178	143472098	260	34639											
TECRL	253017	broad.mit.edu	37	chr4	65170906	65170906	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtgtatatagtggatgAttaatgtagtaggcaatcca	12	13	13	3	0	0	1	0	1	0	0	1	2	1	2	1	4	0	4	1	4	7	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:65170906A>G	uc003hcv.2	-	7	817	c.708T>C	c.(706-708)AAT>AAC	p.N236N	TECRL_uc003hcw.2_Silent_p.N236N	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	236	Helical; (Potential).				lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						ATAGTGGATGATTAATGTAGT	0.299													5	156					0	0	0.001984	0	0		G	65170906	G	G	65170906	2	3	45	1	0	0	0	0	0	0	0	1	15771	330	12	3		3	TECRL	4	65170906	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	17488728	65170906	125983370	261	34640											
UBA6	55236	broad.mit.edu	37	chr4	68536191	68536191	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattaatataatcatacttgCgttatgtttgaaatgaaaat	16	16	5	4	1	1	2	1	2	0	0	1	2	1	2	0	0	2	2	0	0	8	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:68536191C>T	uc003hdg.3	-	8	718	c.666G>A	c.(664-666)ACG>ACA	p.T222T	UBA6_uc003hdi.2_Silent_p.T222T|UBA6_uc003hdj.2_Silent_p.T222T	NM_018227	NP_060697	A0AVT1	UBA6_HUMAN	ubiquitin-activating enzyme E1-like 2	222					protein ubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm	ATP binding|FAT10 activating enzyme activity|ligase activity|protein binding				0						ATCATACTTGCGTTATGTTTG	0.299													7	42					0	0	0.001984	0	0		T	68536191	T	T	68536191	2	4	45	1	0	0	0	0	0	0	0	1	16858	755	27	1		1	UBA6	4	68536191	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3365285	68536191	122618085	262	34641											
YTHDC1	91746	broad.mit.edu	37	chr4	69182091	69182091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgatgtcctgagtaaggggGatgagcttgaggaggtggag	10	9	19	3	0	0	4	0	4	0	0	1	7	1	7	1	5	1	2	1	5	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:69182091G>A	uc003hdx.2	-	16	2253	c.1900C>T	c.(1900-1902)CCC>TCC	p.P634S	YTHDC1_uc003hdy.2_Missense_Mutation_p.P616S	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	634	Pro-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						GAGTAAGGGGGATGAGCTTGA	0.463													6	233					0	0	0.001168	0	0		A	69182091	A	A	69182091	3	1	45	1	0	0	0	0	1	0	0	0	17522	1174	41	4	291	4	YTHDC1	4	69182091	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	645900	69182091	121972185	263	34642											
MUC7	4589	broad.mit.edu	37	chr4	71346631	71346631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctagctcaccagaagcCgttcattagaaagtcctata	13	10	7	11	1	2	2	2	0	0	2	3	2	3	2	3	0	3	3	3	0	6	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:71346631C>T	uc011cat.1	+	4	458	c.170C>T	c.(169-171)CCG>CTG	p.P57L	MUC7_uc011cau.1_Missense_Mutation_p.P57L|MUC7_uc003hfj.2_Missense_Mutation_p.P57L|uc011cav.1_RNA	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	57						extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			CACCAGAAGCCGTTCATTAGA	0.458													9	186					0	0	0.006214	0	0		T	71346631	T	T	71346631	3	4	45	1	0	0	0	0	1	0	0	0	9999	652	23	1	176	1	MUC7	4	71346631	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2164540	71346631	119807645	264	34643											
ADAMTS3	9508	broad.mit.edu	37	chr4	73414328	73414328	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctggttgatggttgttaAtgggatcggttatattccca	7	17	11	6	1	0	1	0	1	0	0	3	2	2	2	2	4	0	4	2	4	3	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:73414328A>G	uc003hgk.1	-	3	408	c.371T>C	c.(370-372)ATT>ACT	p.I124T		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	124					collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			ATGGTTGTTAATGGGATCGGT	0.483													5	228					0	0	0.001168	0	0		G	73414328	G	G	73414328	3	3	45	1	0	0	0	0	1	0	0	0	267	101	4	3	3326	3	ADAMTS3	4	73414328	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2067697	73414328	117739948	265	34644											
FRAS1	80144	broad.mit.edu	37	chr4	79400796	79400796	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaagggtggcgacagccaaGgtgctcattagtggtcccaa	10	7	15	9	1	1	0	1	0	0	0	2	2	2	1	2	5	2	1	2	5	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:79400796G>T	uc003hlb.2	+	56	8807	c.8367G>T	c.(8365-8367)AAG>AAT	p.K2789N		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2784	Calx-beta 3.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						CGACAGCCAAGGTGCTCATTA	0.522													6	54					3.59834e-05	3.79599e-05	0.001168	1	0		T	79400796	T	T	79400796	3	4	45	1	0	0	0	0	1	0	0	0	6056	991	35	5	8664	5	FRAS1	4	79400796	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5986468	79400796	111753480	266	34645											
FAM175A	84142	broad.mit.edu	37	chr4	84391425	84391425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctgttattatacttggtGttaatagcagaaaaacaagg	14	15	8	4	0	1	1	0	0	1	1	1	1	1	1	0	2	3	3	0	2	8	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:84391425G>A	uc003hou.2	-	5	472	c.407C>T	c.(406-408)ACA>ATA	p.T136I	FAM175A_uc003hot.2_5'Flank|FAM175A_uc003hov.2_Missense_Mutation_p.T27I	NM_139076	NP_620775	Q6UWZ7	F175A_HUMAN	coiled-coil domain containing 98	136					chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of DNA repair|response to ionizing radiation	BRCA1-A complex	polyubiquitin binding			kidney(1)	1						TATACTTGGTGTTAATAGCAG	0.393													35	135					0	0	0.003271	0	0		A	84391425	A	A	84391425	3	1	45	1	0	0	0	0	1	0	0	0	5508	1377	48	4	842	4	FAM175A	4	84391425	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4990629	84391425	106762851	267	34646											
FAM13A	10144	broad.mit.edu	37	chr4	89950632	89950632	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgcgtcaaatattccaCtatattccacactactgctg	11	13	5	12	1	1	0	1	0	0	0	3	0	3	0	2	0	4	2	2	0	5	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:89950632C>G	uc003hse.1	-	2	404	c.196G>C	c.(196-198)GTG>CTG	p.V66L	FAM13A_uc003hsf.1_5'UTR|FAM13A_uc003hsh.1_5'UTR|FAM13A_uc003hsi.2_Missense_Mutation_p.V66L|FAM13A_uc003hsj.2_Missense_Mutation_p.V66L	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	66	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						AAATATTCCACTATATTCCAC	0.393													4	199					0	0	0.009096	0	0		G	89950632	G	G	89950632	3	3	45	1	0	0	0	0	1	0	0	0	5463	565	20	5	3000	5	FAM13A	4	89950632	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	5559207	89950632	101203644	268	34647											
GPRIN3	285513	broad.mit.edu	37	chr4	90170138	90170138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcctggggggctagcgtgCtgtcagagagctccagtgtg	6	9	16	10	1	1	1	1	0	0	1	3	2	3	1	2	3	3	3	2	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:90170138C>T	uc003hsm.1	-	2	1643	c.1124G>A	c.(1123-1125)AGC>AAC	p.S375N		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	375										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		GGCTAGCGTGCTGTCAGAGAG	0.562													6	95					0	0	0.001168	0	0		T	90170138	T	T	90170138	3	4	45	1	0	0	0	0	1	0	0	0	6747	797	28	2	1210	2	GPRIN3	4	90170138	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	219506	90170138	100984138	269	34648											
NHEDC1	150159	broad.mit.edu	37	chr4	103866441	103866441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cataaggcatggacctacagCcaatctgaaacaaacgacct	16	6	7	12	1	1	1	0	1	1	0	1	3	1	2	3	2	4	1	3	2	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:103866441C>T	uc003hww.2	-	6	684	c.562G>A	c.(562-564)GCT>ACT	p.A188T	NHEDC1_uc003hwu.2_Missense_Mutation_p.A188T|NHEDC1_uc010ilm.2_Intron|NHEDC1_uc003hwv.2_Intron|NHEDC1_uc011cev.1_Intron	NM_139173	NP_631912	Q4ZJI4	NHDC1_HUMAN	Na+/H+ exchanger domain containing 1 isoform 1	188	Helical; (Potential).					integral to membrane	solute:hydrogen antiporter activity			ovary(1)|skin(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;1.5e-08)		GGACCTACAGCCAATCTGAAA	0.383													19	134					0	0	0.012319	0	0		T	103866441	T	T	103866441	3	4	45	1	0	0	0	0	1	0	0	0	10419	739	26	2	1113	2	NHEDC1	4	103866441	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	13696303	103866441	87287835	270	34649											
NPNT	255743	broad.mit.edu	37	chr4	106888380	106888380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtgtcggcagccaaagccCcagggggaaaagctgcacgc	11	3	14	13	2	0	0	0	0	0	0	1	1	0	1	3	3	4	3	3	3	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:106888380C>T	uc003hya.2	+	11	1586	c.1381C>T	c.(1381-1383)CCA>TCA	p.P461S	NPNT_uc011cfc.1_Missense_Mutation_p.P478S|NPNT_uc011cfd.1_Missense_Mutation_p.P491S|NPNT_uc011cfe.1_Missense_Mutation_p.P462S|NPNT_uc010ilt.1_Missense_Mutation_p.P432S|NPNT_uc011cff.1_Missense_Mutation_p.P432S|NPNT_uc010ilu.1_Intron	NM_001033047	NP_001028219	Q6UXI9	NPNT_HUMAN	nephronectin precursor	461	MAM.				cell differentiation	membrane	calcium ion binding			skin(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.41e-07)		AGCCAAAGCCCCAGGGGGAAA	0.562													12	50					0	0	0.010729	0	0		T	106888380	T	T	106888380	3	4	45	1	0	0	0	0	1	0	0	0	10609	623	22	4	1572	4	NPNT	4	106888380	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3021939	106888380	84265896	271	34650											
ALPK1	80216	broad.mit.edu	37	chr4	113346862	113346862	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagtgacaaggtcctggtgCagtcggtctgtatacagatc	11	10	12	8	1	1	2	0	1	1	1	4	2	2	2	1	3	2	2	1	3	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:113346862C>T	uc003iap.3	+	7	856	c.577C>T	c.(577-579)CAG>TAG	p.Q193*	ALPK1_uc011cfw.1_RNA|ALPK1_uc003ian.3_Nonsense_Mutation_p.Q193*|ALPK1_uc011cfx.1_Nonsense_Mutation_p.Q115*|ALPK1_uc003iao.3_RNA|ALPK1_uc010imo.2_5'UTR	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	193							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		GGTCCTGGTGCAGTCGGTCTG	0.403													14	148					0	0	0.003163	0	0		T	113346862	T	T	113346862	4	4	45	1	0	0	0	0	0	1	0	0	544	711	25	2	595	2	ALPK1	4	113346862	Nonsense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6458482	113346862	77807414	272	34651											
LARP7	51574	broad.mit.edu	37	chr4	113567814	113567814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accaaaggatgaggatgaacGcacagtgtatgtggtaagct	14	8	13	6	1	0	2	0	2	0	0	0	4	0	4	1	3	2	4	1	3	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:113567814G>A	uc003iay.2	+	4	652	c.374G>A	c.(373-375)CGC>CAC	p.R125H	LARP7_uc003iaz.2_Missense_Mutation_p.R132H|LARP7_uc003iba.2_Missense_Mutation_p.R46H|LARP7_uc003ibb.2_Missense_Mutation_p.R125H	NM_016648	NP_057732	Q4G0J3	LARP7_HUMAN	La ribonucleoprotein domain family, member 7	125	RRM.				RNA processing	nucleoplasm|ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(3)	3		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		GAGGATGAACGCACAGTGTAT	0.363													3	23					0	0	0.000602	0	0		A	113567814	A	A	113567814	3	1	45	1	0	0	0	0	1	0	0	0	8649	1087	38	1	384	1	LARP7	4	113567814	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	220952	113567814	77586462	273	34652											
NDST3	9348	broad.mit.edu	37	chr4	119163293	119163293	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctcattataattactcAgaagctttaacgtaagttta	13	16	5	7	1	2	1	2	0	0	1	2	1	2	1	1	0	4	3	1	0	7	9			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:119163293A>C	uc003ibx.2	+	12	2791	c.2388A>C	c.(2386-2388)TCA>TCC	p.S796S		NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	796	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						ATAATTACTCAGAAGCTTTAA	0.338													16	93					0	0	0.006122	0	0		C	119163293	C	C	119163293	2	2	45	1	0	0	0	0	0	0	0	1	10276	175	7	5		5	NDST3	4	119163293	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	5595479	119163293	71990983	274	34653											
TNIP3	79931	broad.mit.edu	37	chr4	122062982	122062982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttacttactgggtgctcccGttgcttctgcacagctccag	5	13	9	14	1	1	0	0	0	1	0	3	0	3	0	2	1	6	5	2	1	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:122062982G>A	uc010ing.2	-	9	1070	c.874C>T	c.(874-876)CGG>TGG	p.R292W	TNIP3_uc010inh.2_Missense_Mutation_p.R292W|TNIP3_uc011cgj.1_Missense_Mutation_p.R350W	NM_024873	NP_079149	Q96KP6	TNIP3_HUMAN	TNFAIP3 interacting protein 3	292										ovary(1)	1						GGGTGCTCCCGTTGCTTCTGC	0.448													13	52					0	0	0.00245	0	0		A	122062982	A	A	122062982	3	1	45	1	0	0	0	0	1	0	0	0	16341	1144	40	1	115	1	TNIP3	4	122062982	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2899689	122062982	69091294	275	34654											
KIAA1109	84162	broad.mit.edu	37	chr4	123107276	123107276	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggatctttatggacgcctTcaagagttgtttggtttgga	7	16	12	6	2	2	1	1	0	1	1	3	4	2	4	1	4	0	3	1	4	2	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:123107276T>C	uc003ieh.2	+	5	489	c.444T>C	c.(442-444)CTT>CTC	p.L148L	KIAA1109_uc003iei.1_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	148					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ATGGACGCCTTCAAGAGTTGT	0.373													14	62					0	0	0.001855	0	0		C	123107276	C	C	123107276	2	2	45	1	0	0	0	0	0	0	0	1	8224	1770	62	3		3	KIAA1109	4	123107276	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1044294	123107276	68047000	276	34655											
KIAA1109	84162	broad.mit.edu	37	chr4	123275094	123275094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caataaccaagataacaaggCgtcgccatgaaaatccaccc	17	5	6	13	2	0	2	0	1	0	1	2	2	1	2	4	1	2	0	4	1	7	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:123275094C>T	uc003ieh.2	+	80	14272	c.14227C>T	c.(14227-14229)CGT>TGT	p.R4743C	KIAA1109_uc003iem.2_Missense_Mutation_p.R1099C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4743					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GATAACAAGGCGTCGCCATGA	0.393													10	34					0	0	0.006214	0	0		T	123275094	T	T	123275094	3	4	45	1	0	0	0	0	1	0	0	0	8224	768	27	1	14545	1	KIAA1109	4	123275094	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	167818	123275094	67879182	277	34656											
SPATA5	166378	broad.mit.edu	37	chr4	123868515	123868515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttcccaatgctcaggaccGgctagatattctccagaaac	12	9	8	12	1	2	2	1	0	1	2	4	3	3	3	3	2	2	3	3	2	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:123868515G>A	uc003iez.3	+	9	1659	c.1586G>A	c.(1585-1587)CGG>CAG	p.R529Q	SPATA5_uc003iey.2_Missense_Mutation_p.R528Q	NM_145207	NP_660208	Q8NB90	SPAT5_HUMAN	spermatogenesis associated 5	529					cell differentiation|multicellular organismal development|spermatogenesis	mitochondrion	ATP binding|nucleoside-triphosphatase activity				0						GCTCAGGACCGGCTAGATATT	0.522													22	81					0	0	0.00333	0	0		A	123868515	A	A	123868515	3	1	45	1	0	0	0	0	1	0	0	0	15036	1116	39	1	1620	1	SPATA5	4	123868515	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	593421	123868515	67285761	278	34657											
PCDH18	54510	broad.mit.edu	37	chr4	138451730	138451730	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctagaataaaactctccaAgatggtgtatgtcacttgcc	12	12	7	10	0	2	2	1	0	1	2	4	2	3	2	3	1	2	1	3	1	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:138451730A>G	uc003ihe.3	-	1	1900	c.1513T>C	c.(1513-1515)TTG>CTG	p.L505L	PCDH18_uc003ihf.3_Silent_p.L498L|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Silent_p.L285L|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	505	Extracellular (Potential).|Cadherin 5.				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					AAACTCTCCAAGATGGTGTAT	0.393													24	119					0	0	0.00333	0	0		G	138451730	G	G	138451730	2	3	45	1	0	0	0	0	0	0	0	1	11532	69	3	3		3	PCDH18	4	138451730	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	14583215	138451730	52702546	279	34658											
POU4F2	5458	broad.mit.edu	37	chr4	147561442	147561442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgctcagcatggcccacGcgcacgggctgccgtcgcac	6	4	13	18	6	1	0	1	0	0	0	2	0	1	0	2	2	3	5	2	2	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:147561442G>A	uc003ikv.2	+	2	960	c.712G>A	c.(712-714)GCG>ACG	p.A238T		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	238					estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					CATGGCCCACGCGCACGGGCT	0.697													3	20					0	0	0.009096	0	0		A	147561442	A	A	147561442	3	1	45	1	0	0	0	0	1	0	0	0	12298	1087	38	1	718	1	POU4F2	4	147561442	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	9109712	147561442	43592834	280	34659											
EDNRA	1909	broad.mit.edu	37	chr4	148461084	148461084	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtataacgagatggacaagaAccgatgtgaattacttaggt	15	10	11	5	2	0	3	0	1	0	2	0	6	0	4	1	2	3	1	1	2	7	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:148461084A>C	uc003iky.2	+	6	1708	c.1016A>C	c.(1015-1017)AAC>ACC	p.N339T	EDNRA_uc011cid.1_Missense_Mutation_p.N114T|EDNRA_uc010ipf.1_RNA|EDNRA_uc010ipg.1_Missense_Mutation_p.N230T	NM_001957	NP_001948	P25101	EDNRA_HUMAN	endothelin receptor type A isoform a precursor	339	Extracellular (Potential).				activation of adenylate cyclase activity|artery smooth muscle contraction|cell proliferation|glucose transport|respiratory gaseous exchange	integral to plasma membrane	endothelin-A receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|breast(1)	2	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.154)	Bosentan(DB00559)	ATGGACAAGAACCGATGTGAA	0.343													3	123					0	0	0.009096	0	0		C	148461084	C	C	148461084	3	2	45	1	0	0	0	0	1	0	0	0	4925	43	2	5	1034	5	EDNRA	4	148461084	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	899642	148461084	42693192	281	34660											
FBXW7	55294	broad.mit.edu	37	chr4	153249385	153249385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatgaagatgcatacaacGcacagtggaagtatgcccat	14	9	9	9	1	1	2	1	1	0	1	1	3	1	3	1	1	4	3	1	1	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:153249385G>A	uc003ims.2	-	9	1542	c.1393C>T	c.(1393-1395)CGT>TGT	p.R465C	FBXW7_uc011cii.1_Missense_Mutation_p.R465C|FBXW7_uc003imt.2_Missense_Mutation_p.R465C|FBXW7_uc011cih.1_Missense_Mutation_p.R289C|FBXW7_uc003imq.2_Missense_Mutation_p.R385C|FBXW7_uc003imr.2_Missense_Mutation_p.R347C	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	465	WD 3.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in a acute lymphoblastic leukemia cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R465C(52)|p.R465H(36)|p.R465L(2)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TGCATACAACGCACAGTGGAA	0.413			Mis|N|D|F		colorectal|endometrial|T-ALL								24	163					0	0	0.00278	0	0		A	153249385	A	A	153249385	3	1	45	1	0	0	0	0	1	0	0	0	5783	1087	38	1	746	1	FBXW7	4	153249385	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4788301	153249385	37904891	282	34661											
TLR2	7097	broad.mit.edu	37	chr4	154625775	154625775	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctccatcccatgtgcgtggCcagcaggttcaggatgtccg	6	10	12	13	2	2	0	1	0	1	0	5	1	4	1	4	3	2	2	4	3	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:154625775C>A	uc003inq.2	+	3	1935	c.1716C>A	c.(1714-1716)GGC>GGA	p.G572G	TLR2_uc003inr.2_Silent_p.G572G|TLR2_uc003ins.2_Silent_p.G572G	NM_003264	NP_003255	O60603	TLR2_HUMAN	toll-like receptor 2 precursor	572	Extracellular (Potential).				cellular response to diacyl bacterial lipopeptide|cellular response to lipoteichoic acid|cellular response to triacyl bacterial lipopeptide|detection of diacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|I-kappaB phosphorylation|induction of apoptosis|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of interferon-beta production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of Wnt receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|integral to plasma membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	Gram-positive bacterial cell surface binding|lipopolysaccharide receptor activity|peptidoglycan binding|protein heterodimerization activity|transmembrane receptor activity|triacyl lipopeptide binding			ovary(1)|lung(1)|breast(1)	3	all_hematologic(180;0.093)	Renal(120;0.117)				ATGTGCGTGGCCAGCAGGTTC	0.552													27	101					2.85442e-18	3.26685e-18	0.010818	1	0		A	154625775	A	A	154625775	2	1	45	1	0	0	0	0	0	0	0	1	15976	726	26	5		5	TLR2	4	154625775	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1376390	154625775	36528501	283	34662											
PLRG1	5356	broad.mit.edu	37	chr4	155458569	155458569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacccaggttgcacagctgCgtgaactctctgaaaattgt	11	10	10	10	1	1	3	0	2	1	1	2	3	1	3	1	1	4	3	1	1	3	2	rs144644967	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:155458569C>T	uc003iny.2	-	14	1417	c.1354G>A	c.(1354-1356)GCA>ACA	p.A452T	PLRG1_uc003inz.2_Missense_Mutation_p.A443T	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	452						catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				TGCACAGCTGCGTGAACTCTC	0.438													20	68					0	0	0.012319	0	0		T	155458569	T	T	155458569	3	4	45	1	0	0	0	0	1	0	0	0	12125	768	27	1	198	1	PLRG1	4	155458569	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	832794	155458569	35695707	284	34663											
PLRG1	5356	broad.mit.edu	37	chr4	155459192	155459192	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattatgaccggaaagatttTgaatgaaacttccatcaggg	14	11	9	7	1	1	4	1	3	0	1	2	5	2	5	2	2	1	0	2	2	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:155459192T>A	uc003iny.2	-	13	1283	c.1220A>T	c.(1219-1221)CAA>CTA	p.Q407L	PLRG1_uc003inz.2_Missense_Mutation_p.Q398L	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	407	WD 5.					catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				GGAAAGATTTTGAATGAAACT	0.303													9	54					0	0	0.008291	0	0		A	155459192	A	A	155459192	3	1	45	1	0	0	0	0	1	0	0	0	12125	1812	63	5	336	5	PLRG1	4	155459192	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	623	155459192	35695084	285	34664											
TLL1	7092	broad.mit.edu	37	chr4	166964495	166964495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattatcctgatgactatcGcccgatgaaagaatgtgtgt	12	12	9	8	2	0	4	0	3	0	1	2	5	1	4	2	0	0	0	2	0	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:166964495G>A	uc003irh.1	+	12	2095	c.1448G>A	c.(1447-1449)CGC>CAC	p.R483H	TLL1_uc011cjn.1_Missense_Mutation_p.R483H|TLL1_uc011cjo.1_Missense_Mutation_p.R307H	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	483	CUB 2.				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		GATGACTATCGCCCGATGAAA	0.418													21	117					0	0	0.010504	0	0		A	166964495	A	A	166964495	3	1	45	1	0	0	0	0	1	0	0	0	15970	1087	38	1	1494	1	TLL1	4	166964495	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	11505303	166964495	24189781	286	34665											
CLCN3	1182	broad.mit.edu	37	chr4	170634343	170634343	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgaagcttcgaagcattCttgacatgagcccttttaca	11	13	7	10	1	1	3	0	3	1	0	2	4	1	3	1	0	4	2	1	0	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:170634343C>A	uc003isi.2	+	12	2772	c.2263C>A	c.(2263-2265)CTT>ATT	p.L755I	CLCN3_uc003ish.2_Missense_Mutation_p.L755I|CLCN3_uc011cjz.1_Missense_Mutation_p.L738I|CLCN3_uc011cka.1_Missense_Mutation_p.L728I|CLCN3_uc003isj.1_Missense_Mutation_p.L728I	NM_001829	NP_001820	P51790	CLCN3_HUMAN	chloride channel 3 isoform b	755	CBS 2.|Cytoplasmic (By similarity).				endosomal lumen acidification	cell surface|early endosome membrane|Golgi membrane|integral to membrane|late endosome membrane|transport vesicle membrane	antiporter activity|ATP binding|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|voltage-gated chloride channel activity			breast(2)|ovary(1)	3		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0233)|LUSC - Lung squamous cell carcinoma(193;0.131)		TCGAAGCATTCTTGACATGAG	0.493													19	69					5.03518e-11	5.60709e-11	0.007413	1	0		A	170634343	A	A	170634343	3	1	45	1	0	0	0	0	1	0	0	0	3467	913	32	5	2305	5	CLCN3	4	170634343	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3669848	170634343	20519933	287	34666											
HELT	391723	broad.mit.edu	37	chr4	185941701	185941701	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgaggccgctgtgttcccGcagggctctggtgccgggcc	2	7	18	14	4	1	0	0	0	1	0	2	1	2	0	4	5	1	4	4	5	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:185941701G>A	uc011ckq.1	+	4	759	c.759G>A	c.(757-759)CCG>CCA	p.P253P	HELT_uc011cko.1_Silent_p.P168P|HELT_uc003ixa.3_Silent_p.P167P|HELT_uc011ckp.1_Silent_p.P111P	NM_001029887	NP_001025058	A6NFD8	HELT_HUMAN	HES/HEY-like transcription factor	253	Pro-rich.						DNA binding				0		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;8.92e-26)|Epithelial(43;3.02e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-11)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		CTGTGTTCCCGCAGGGCTCTG	0.746													4	28					0	0	0.000602	0	0		A	185941701	A	A	185941701	2	1	45	1	0	0	0	0	0	0	0	1	7064	1074	38	1		1	HELT	4	185941701	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	15307358	185941701	5212575	288	34667											
HELT	391723	broad.mit.edu	37	chr4	185941780	185941780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccctacctgcccagcgcgCcagtgccgctcgctagccca	5	6	10	20	4	0	0	0	0	0	0	1	0	0	0	6	0	6	2	6	0	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr4:185941780C>T	uc011ckq.1	+	4	838	c.838C>T	c.(838-840)CCA>TCA	p.P280S	HELT_uc011cko.1_Missense_Mutation_p.P195S|HELT_uc003ixa.3_Missense_Mutation_p.P194S|HELT_uc011ckp.1_Missense_Mutation_p.P138S	NM_001029887	NP_001025058	A6NFD8	HELT_HUMAN	HES/HEY-like transcription factor	280	Pro-rich.						DNA binding				0		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;8.92e-26)|Epithelial(43;3.02e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-11)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		GCCCAGCGCGCCAGTGCCGCT	0.746													7	18					0	0	0.001984	0	0		T	185941780	T	T	185941780	3	4	45	1	0	0	0	0	1	0	0	0	7064	739	26	2	852	2	HELT	4	185941780	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	79	185941780	5212496	289	34668											
PAPD7	11044	broad.mit.edu	37	chr5	6739961	6739961	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaaagtccttgacaaggCtacggtgagtgcctggcttt	9	11	11	10	1	1	2	1	2	0	0	2	2	2	2	2	3	2	2	2	3	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:6739961C>A	uc003jdx.1	+	4	383	c.254C>A	c.(253-255)GCT>GAT	p.A85D	PAPD7_uc011cmn.1_Missense_Mutation_p.A76D	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	85					cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						CTTGACAAGGCTACGGTGAGT	0.582													13	48					1.49906e-05	1.59098e-05	0.00245	1	0		A	6739961	A	A	6739961	3	1	45	1	0	0	0	0	1	0	0	0	11445	797	28	5	264	5	PAPD7	5	6739961	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08		6739961	174175299	290	34669											
CTNND2	1501	broad.mit.edu	37	chr5	11364852	11364852	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgctggcggcagagggTccccctggctctggctgaga	4	9	17	11	1	1	2	0	1	1	2	2	3	2	2	2	5	1	4	2	5	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:11364852T>C	uc003jfa.1	-	8	1473	c.1328A>G	c.(1327-1329)GAC>GGC	p.D443G	CTNND2_uc010itt.2_Missense_Mutation_p.D352G|CTNND2_uc011cmy.1_Missense_Mutation_p.D106G|CTNND2_uc011cmz.1_Missense_Mutation_p.D10G|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.D10G	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	443				D -> V (in Ref. 1; AAC63103).	multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						CGGCAGAGGGTCCCCCTGGCT	0.637													6	60					0	0	0.001984	0	0		C	11364852	C	C	11364852	3	2	45	1	0	0	0	0	1	0	0	0	4023	1667	58	3	2409	3	CTNND2	5	11364852	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	4624891	11364852	169550408	291	34670											
DNAH5	1767	broad.mit.edu	37	chr5	13817727	13817727	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagtcatttgtggcaacGtccagccgaccaaacatctg	10	9	9	13	2	2	0	1	0	1	0	4	1	4	0	4	1	3	1	4	1	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:13817727G>A	uc003jfd.2	-	42	6960	c.6918C>T	c.(6916-6918)GAC>GAT	p.D2306D		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2306	AAA 2 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTGTGGCAACGTCCAGCCGAC	0.393									Kartagener_syndrome				30	85					0	0	0.013726	0	0		A	13817727	A	A	13817727	2	1	45	1	0	0	0	0	0	0	0	1	4610	1136	40	1		1	DNAH5	5	13817727	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2452875	13817727	167097533	292	34671											
DNAH5	1767	broad.mit.edu	37	chr5	13923470	13923470	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accccagtaagagccacatcGtttccctcggtcacgaacac	11	7	7	16	3	1	1	1	0	0	1	4	2	2	1	4	1	2	2	4	1	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:13923470G>A	uc003jfd.2	-	4	399	c.357C>T	c.(355-357)AAC>AAT	p.N119N	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	119	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GAGCCACATCGTTTCCCTCGG	0.453									Kartagener_syndrome				36	178					0	0	0.013726	0	0		A	13923470	A	A	13923470	2	1	45	1	0	0	0	0	0	0	0	1	4610	1136	40	1		1	DNAH5	5	13923470	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	105743	13923470	166991790	293	34672											
FBXL7	23194	broad.mit.edu	37	chr5	15500764	15500764	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatggagtgtcccgggagaCggcgggcatgacggctacag	8	6	17	10	4	0	2	0	1	0	1	1	4	1	3	1	5	1	2	1	5	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:15500764C>T	uc003jfn.1	+	1	460	c.-21C>T	c.(-23--19)GACGG>GATGG			NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7						ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						TCCCGGGAGACGGCGGGCATG	0.687													35	156					0	0	0.00874	0	0		T	15500764	T	T	15500764	1	4	45	1	0	0	0	0	0	0	0	0	5738	551	19	1		1	FBXL7	5	15500764	Translation_Start_Site	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1577294	15500764	165414496	294	34673											
FBXL7	23194	broad.mit.edu	37	chr5	15936751	15936751	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgccgctgcgtccgccTgaccgacgaaggcctgcgct	4	6	13	18	7	0	1	0	1	0	0	1	3	1	1	6	1	3	2	6	1	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:15936751T>C	uc003jfn.1	+	4	1413	c.932T>C	c.(931-933)CTG>CCG	p.L311P		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	311	LRR 6.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						TGCGTCCGCCTGACCGACGAA	0.662													7	36					0	0	0.001984	0	0		C	15936751	C	C	15936751	3	2	45	1	0	0	0	0	1	0	0	0	5738	1580	55	3	946	3	FBXL7	5	15936751	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	435987	15936751	164978509	295	34674											
MYO10	4651	broad.mit.edu	37	chr5	16672919	16672919	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatggccaggcctcggaTcagcttctccaccacctgga	7	8	9	17	1	2	0	1	0	1	0	5	2	3	2	6	4	1	1	6	4	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:16672919T>C	uc003jft.3	-	37	5656	c.5188A>G	c.(5188-5190)ATC>GTC	p.I1730V	MYO10_uc011cnb.1_Missense_Mutation_p.I359V|MYO10_uc011cnc.1_Missense_Mutation_p.I609V|MYO10_uc011cnd.1_Missense_Mutation_p.I1087V|MYO10_uc011cne.1_Missense_Mutation_p.I1087V|MYO10_uc010itx.2_Missense_Mutation_p.I1352V	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1730	FERM.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						AGGCCTCGGATCAGCTTCTCC	0.557													5	21					0	0	0.000602	0	0		C	16672919	C	C	16672919	3	2	45	1	0	0	0	0	1	0	0	0	10080	1435	50	3	1008	3	MYO10	5	16672919	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	736168	16672919	164242341	296	34675											
MYO10	4651	broad.mit.edu	37	chr5	16701393	16701393	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtgggcaccaccgtgtcGttcatgtatgggtcctcctc	4	12	12	13	2	1	0	1	0	0	0	5	0	3	0	4	3	0	3	4	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:16701393G>A	uc003jft.3	-	25	3579	c.3111C>T	c.(3109-3111)AAC>AAT	p.N1037N	MYO10_uc011cnc.1_5'Flank|MYO10_uc011cnd.1_Silent_p.N394N|MYO10_uc011cne.1_Silent_p.N394N|MYO10_uc010itx.2_Silent_p.N660N	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1037					axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CCACCGTGTCGTTCATGTATG	0.637													6	35					0	0	0.001984	0	0		A	16701393	A	A	16701393	2	1	45	1	0	0	0	0	0	0	0	1	10080	1136	40	1		1	MYO10	5	16701393	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	28474	16701393	164213867	297	34676											
CDH10	1008	broad.mit.edu	37	chr5	24509929	24509929	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctctcatagtcgagtggCtgtataaaaaaataaatcat	15	11	8	7	2	2	0	2	0	1	0	4	1	2	0	0	2	0	3	0	2	8	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:24509929C>T	uc003jgr.1	-	7	1335	c.1003_splice	c.e7-1	p.P335_splice	CDH10_uc011cnu.1_Splice_Site	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AGTCGAGTGGCTGTATAAAAA	0.368										HNSCC(23;0.051)			13	38					0	0	0.004007	0	0		T	24509929	T	T	24509929	5	4	45	1	0	0	0	0	0	0	1	0	3099	811	28	2	1388	2	CDH10	5	24509929	Splice_Site	SNP	C	TCGA-BR-6852-01A-11D-1882-08	7808536	24509929	156405331	298	34677											
PDZD2	23037	broad.mit.edu	37	chr5	31983446	31983446	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaaccagaaagtttggggTcatctccaggcctcctgcca	10	8	10	13	1	2	1	1	0	1	1	4	2	3	1	5	3	2	1	5	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:31983446T>C	uc003jhl.2	+	3	1050	c.662T>C	c.(661-663)GTC>GCC	p.V221A	PDZD2_uc003jhm.2_Missense_Mutation_p.V221A|PDZD2_uc011cnx.1_Missense_Mutation_p.V47A	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	221					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						AAGTTTGGGGTCATCTCCAGG	0.567													23	87					0	0	0.003954	0	0		C	31983446	C	C	31983446	3	2	45	1	0	0	0	0	1	0	0	0	11720	1667	58	3	668	3	PDZD2	5	31983446	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	7473517	31983446	148931814	299	34678											
RXFP3	51289	broad.mit.edu	37	chr5	33937788	33937788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagccggaggacgcccgaccGgagccagcgcccggagactg	8	2	16	15	6	0	1	0	0	0	1	0	6	0	4	5	4	3	0	5	4	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:33937788G>A	uc003jic.1	+	1	1300	c.943G>A	c.(943-945)GGA>AGA	p.G315R		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	315	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						ACGCCCGACCGGAGCCAGCGC	0.647													6	8					0	0	0.001984	0	0		A	33937788	A	A	33937788	3	1	45	1	0	0	0	0	1	0	0	0	13786	1117	39	1	945	1	RXFP3	5	33937788	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1954342	33937788	146977472	300	34679											
NIPBL	25836	broad.mit.edu	37	chr5	37045628	37045628	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaccagcacttcttagaTcccttttcaccgttggagca	11	11	6	13	1	2	1	1	0	1	1	3	2	3	2	3	1	3	3	3	1	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:37045628T>A	uc003jkl.3	+	37	6926	c.6427T>A	c.(6427-6429)TCC>ACC	p.S2143T	NIPBL_uc003jkk.3_Missense_Mutation_p.S2143T	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	2143					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			ACTTCTTAGATCCCTTTTCAC	0.348													50	243					0	0	0.01441	0	0		A	37045628	A	A	37045628	3	1	45	1	0	0	0	0	1	0	0	0	10447	1435	50	5	6569	5	NIPBL	5	37045628	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	3107840	37045628	143869632	301	34680											
HEATR7B2	133558	broad.mit.edu	37	chr5	41004956	41004956	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcgttggagtcccaggcacTttgatccatcaagatcagca	10	9	11	11	1	2	2	2	1	0	1	4	3	4	3	2	3	1	3	2	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:41004956T>C	uc003jmj.3	-	36	4421	c.3931A>G	c.(3931-3933)AGT>GGT	p.S1311G	HEATR7B2_uc003jmi.3_Missense_Mutation_p.S866G	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1311							binding			ovary(6)|central_nervous_system(2)	8						TCCCAGGCACTTTGATCCATC	0.512													9	52					0	0	0.006214	0	0		C	41004956	C	C	41004956	3	2	45	1	0	0	0	0	1	0	0	0	7051	1609	56	3	854	3	HEATR7B2	5	41004956	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	3959328	41004956	139910304	302	34681											
HEATR7B2	133558	broad.mit.edu	37	chr5	41018858	41018858	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catggtcttcagaagttttcCtagggcgtccatggatcgtt	7	14	11	9	2	2	1	1	0	1	1	5	2	4	2	2	3	0	2	2	3	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:41018858C>A	uc003jmj.3	-	26	3098	c.2608G>T	c.(2608-2610)GGA>TGA	p.G870*	HEATR7B2_uc003jmi.3_Nonsense_Mutation_p.G425*	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	870							binding			ovary(6)|central_nervous_system(2)	8						AGAAGTTTTCCTAGGGCGTCC	0.448													22	80					3.62473e-10	4.01729e-10	0.012319	1	0		A	41018858	A	A	41018858	4	1	45	1	0	0	0	0	0	1	0	0	7051	690	24	5	2217	5	HEATR7B2	5	41018858	Nonsense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	13902	41018858	139896402	303	34682											
C6	729	broad.mit.edu	37	chr5	41160334	41160334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcagtccctgagagggtggGtcggccattattagggcatg	7	11	15	8	1	1	1	1	1	0	1	3	2	2	1	2	4	0	1	2	4	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:41160334G>A	uc003jmk.2	-	11	1804	c.1594C>T	c.(1594-1596)CCC>TCC	p.P532S	C6_uc003jml.1_Missense_Mutation_p.P532S	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	532	EGF-like.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				GAGAGGGTGGGTCGGCCATTA	0.483													21	120					0	0	0.012319	0	0		A	41160334	A	A	41160334	3	1	45	1	0	0	0	0	1	0	0	0	2318	1261	44	4	1242	4	C6	5	41160334	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	141476	41160334	139754926	304	34683											
HCN1	348980	broad.mit.edu	37	chr5	45303873	45303873	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcagcatggcagtcacaaaAttaggatccgcattagcaaa	15	8	8	10	1	2	0	2	0	0	0	3	1	3	1	1	2	2	4	1	2	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:45303873A>C	uc003jok.2	-	6	1471	c.1446T>G	c.(1444-1446)AAT>AAG	p.N482K		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	482	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CAGTCACAAAATTAGGATCCG	0.383													38	115					0	0	0.00623	0	0		C	45303873	C	C	45303873	3	2	45	1	0	0	0	0	1	0	0	0	7012	98	4	5	1238	5	HCN1	5	45303873	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	4143539	45303873	135611387	305	34684											
CCNO	10309	broad.mit.edu	37	chr5	54527374	54527374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgggccgcgagacccgcagCatgcggtccgccagcgccag	7	2	15	17	7	0	1	0	0	0	1	1	2	1	1	5	2	3	2	5	2	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:54527374C>T	uc003jpw.2	-	3	1039	c.882G>A	c.(880-882)ATG>ATA	p.M294I	CCNO_uc003jpv.2_RNA	NM_021147	NP_066970	P22674	CCNO_HUMAN	cyclin domain containing	294					cell cycle|cell division|depyrimidination|regulation of cyclin-dependent protein kinase activity	nucleoplasm	protein kinase binding|uracil DNA N-glycosylase activity				0		Lung NSC(810;4.08e-05)|Breast(144;0.0735)|Prostate(74;0.183)	LUSC - Lung squamous cell carcinoma(15;0.142)|Lung(15;0.161)			AGACCCGCAGCATGCGGTCCG	0.672													16	47					0	0	0.003163	0	0		T	54527374	T	T	54527374	3	4	45	1	0	0	0	0	1	0	0	0	2936	710	25	2	174	2	CCNO	5	54527374	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	9223501	54527374	126387886	306	34685											
ANKRD55	79722	broad.mit.edu	37	chr5	55471990	55471990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcagtaccaggtaggtggCcaggcataaacttgtgcggc	10	8	14	9	1	1	0	1	0	0	0	1	0	1	0	2	5	3	3	2	5	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:55471990C>T	uc003jqu.2	-	4	453	c.301G>A	c.(301-303)GCC>ACC	p.A101T		NM_024669	NP_078945	Q3KP44	ANR55_HUMAN	ankyrin repeat domain 55 isoform 1	100	ANK 3.									skin(1)	1		Lung NSC(810;8.69e-05)|Prostate(74;0.00634)|Breast(144;0.0334)|Ovarian(174;0.223)				AGGTAGGTGGCCAGGCATAAA	0.532													5	152					0	0	0.001168	0	0		T	55471990	T	T	55471990	3	4	45	1	0	0	0	0	1	0	0	0	681	739	26	2	1579	2	ANKRD55	5	55471990	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	944616	55471990	125443270	307	34686											
MAP3K1	4214	broad.mit.edu	37	chr5	56168713	56168713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctgcacagcagcaaaccGtacagcagcagcctttggct	11	6	11	13	1	0	0	0	0	0	0	0	1	0	0	2	1	9	8	2	1	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:56168713G>A	uc003jqw.3	+	9	2068	c.1567G>A	c.(1567-1569)GTA>ATA	p.V523I		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	523					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		GCAGCAAACCGTACAGCAGCA	0.413													12	82					0	0	0.013537	0	0		A	56168713	A	A	56168713	3	1	45	1	0	0	0	0	1	0	0	0	9261	1145	40	1	1601	1	MAP3K1	5	56168713	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	696723	56168713	124746547	308	34687											
HTR1A	3350	broad.mit.edu	37	chr5	63256881	63256881	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgcggatgcggaagcgCgcagctcggaatatgcgccc	7	7	15	12	6	1	0	0	0	1	0	2	3	1	3	1	3	5	2	1	3	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:63256881C>T	uc011cqt.1	-	1	666	c.666G>A	c.(664-666)GCG>GCA	p.A222A		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	222	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TGCGGAAGCGCGCAGCTCGGA	0.562													31	150					0	0	0.009535	0	0		T	63256881	T	T	63256881	2	4	45	1	0	0	0	0	0	0	0	1	7452	755	27	1		1	HTR1A	5	63256881	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	7088168	63256881	117658379	309	34688											
TMEM171	134285	broad.mit.edu	37	chr5	72419385	72419385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatggtgctcaaggtggCggggcctgcatgtgccgtgg	4	8	17	12	2	1	0	1	0	0	0	1	0	1	0	4	6	3	2	4	6	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:72419385C>T	uc003kcm.2	+	2	389	c.185C>T	c.(184-186)GCG>GTG	p.A62V	TMEM171_uc003kcn.3_Missense_Mutation_p.A62V	NM_173490	NP_775761	Q8WVE6	TM171_HUMAN	transmembrane protein 171 isoform 1	62	Helical; (Potential).					integral to membrane					0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.87e-54)|Lung(70;0.115)		CTCAAGGTGGCGGGGCCTGCA	0.632													5	80					0	0	0.000602	0	0		T	72419385	T	T	72419385	3	4	45	1	0	0	0	0	1	0	0	0	16113	768	27	1	187	1	TMEM171	5	72419385	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	9162504	72419385	108495875	310	34689											
F2RL1	2150	broad.mit.edu	37	chr5	76129543	76129543	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgcactgtaaagcagatgCaagtatccctcacctcaaag	13	8	7	13	1	2	1	2	0	0	1	4	1	4	1	3	0	2	5	3	0	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:76129543C>T	uc003keo.2	+	2	1286	c.1111C>T	c.(1111-1113)CAA>TAA	p.Q371*		NM_005242	NP_005233	P55085	PAR2_HUMAN	coagulation factor II (thrombin) receptor-like 1	371	Cytoplasmic (Potential).				blood coagulation|elevation of cytosolic calcium ion concentration|positive regulation of leukocyte chemotaxis|positive regulation of positive chemotaxis|regulation of blood coagulation	Golgi apparatus|integral to plasma membrane	receptor binding|thrombin receptor activity			central_nervous_system(1)	1		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;7.7e-51)|Epithelial(54;2.77e-45)|all cancers(79;3.47e-41)		AAAGCAGATGCAAGTATCCCT	0.453													8	321					0	0	0.00308	0	0		T	76129543	T	T	76129543	4	4	45	1	0	0	0	0	0	1	0	0	5352	711	25	2	1117	2	F2RL1	5	76129543	Nonsense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3710158	76129543	104785717	311	34690											
XRCC4	7518	broad.mit.edu	37	chr5	82554470	82554470	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacctaaaatggctcctcaGgagaatcagcttcaagaaaa	17	7	8	9	0	3	2	3	0	0	2	4	4	4	2	2	2	2	2	2	2	7	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:82554470G>T	uc003kib.2	+	7	995	c.867G>T	c.(865-867)CAG>CAT	p.Q289H	XRCC4_uc003kia.1_Missense_Mutation_p.Q289H|XRCC4_uc003kid.2_Missense_Mutation_p.Q289H|XRCC4_uc003kic.2_Missense_Mutation_p.Q289H|XRCC4_uc003kie.2_Missense_Mutation_p.Q289H|XRCC4_uc003kif.1_Missense_Mutation_p.Q289H|XRCC4_uc003kig.2_RNA	NM_022406	NP_071801	Q13426	XRCC4_HUMAN	X-ray repair cross complementing protein 4	289					DNA ligation involved in DNA repair|double-strand break repair via nonhomologous end joining|initiation of viral infection|positive regulation of ligase activity|provirus integration|response to X-ray	cytosol|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|nucleoplasm	DNA binding|protein C-terminus binding			skin(3)	3		Lung NSC(167;0.00132)|all_lung(232;0.00154)|Ovarian(174;0.034)		OV - Ovarian serous cystadenocarcinoma(54;1.44e-38)|Epithelial(54;3.72e-33)|all cancers(79;9.22e-28)		TGGCTCCTCAGGAGAATCAGC	0.348								NHEJ					11	49					0.00136819	0.00141045	0.013537	1	0		T	82554470	T	T	82554470	3	4	45	1	0	0	0	0	1	0	0	0	17481	991	35	5	889	5	XRCC4	5	82554470	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	6424927	82554470	98360790	312	34691											
ERAP1	51752	broad.mit.edu	37	chr5	96116805	96116805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttcctcagaaattgccaggCcagtgggtatcctactgggt	8	12	11	10	0	1	1	1	0	0	1	3	1	3	1	4	3	2	1	4	3	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:96116805C>T	uc003kmm.2	-	17	2892	c.2545G>A	c.(2545-2547)GCC>ACC	p.A849T	ERAP1_uc003kml.2_Missense_Mutation_p.A849T|ERAP1_uc010jbm.1_Missense_Mutation_p.A661T|ERAP1_uc003kmn.2_Missense_Mutation_p.A849T	NM_001040458	NP_001035548	Q9NZ08	ERAP1_HUMAN	type 1 tumor necrosis factor receptor shedding	849	Lumenal (Potential).				angiogenesis|antigen processing and presentation of endogenous peptide antigen via MHC class I|fat cell differentiation|membrane protein ectodomain proteolysis|regulation of blood pressure|regulation of innate immune response|response to bacterium	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|integral to membrane	aminopeptidase activity|interleukin-1, Type II receptor binding|interleukin-6 receptor binding|metalloexopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		all_cancers(142;1.75e-06)|all_epithelial(76;3.08e-09)|all_lung(232;0.000435)|Lung NSC(167;0.000601)|Ovarian(225;0.024)|Colorectal(57;0.0432)|Breast(839;0.244)		all cancers(79;7.26e-15)|COAD - Colon adenocarcinoma(37;0.071)		AATTGCCAGGCCAGTGGGTAT	0.333													15	104					0	0	0.007413	0	0		T	96116805	T	T	96116805	3	4	45	1	0	0	0	0	1	0	0	0	5211	739	26	2	325	2	ERAP1	5	96116805	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	13562335	96116805	84798455	313	34692											
RGMB	285704	broad.mit.edu	37	chr5	98115291	98115291	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctttcccataggtgactgCcaacagccagcccaatgtcg	9	10	8	14	1	1	1	0	1	1	0	3	1	2	1	4	1	4	0	4	1	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:98115291C>T	uc003knc.2	+	4	669	c.267C>T	c.(265-267)TGC>TGT	p.C89C	RGMB_uc003knb.2_Silent_p.C89C	NM_001012761	NP_001012779	Q6NW40	RGMB_HUMAN	RGM domain family, member B	48					axon guidance|BMP signaling pathway|cell adhesion|positive regulation of transcription, DNA-dependent	anchored to plasma membrane|ER-Golgi intermediate compartment|membrane raft	identical protein binding				0		all_cancers(142;2.76e-08)|all_epithelial(76;2.98e-11)|all_lung(232;0.000485)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0587)		TAGGTGACTGCCAACAGCCAG	0.443													43	195					0	0	0.013114	0	0		T	98115291	T	T	98115291	2	4	45	1	0	0	0	0	0	0	0	1	13306	747	26	2		2	RGMB	5	98115291	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1998486	98115291	82799969	314	34693											
SLC22A4	6583	broad.mit.edu	37	chr5	131671563	131671563	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaaaatttgggatcacCtctgctttctccatgctgta	8	14	9	10	0	3	0	1	0	2	0	4	2	3	2	2	2	2	3	2	2	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:131671563C>A	uc003kwq.2	+	8	1479	c.1314C>A	c.(1312-1314)ACC>ACA	p.T438T	uc003kwr.3_Intron	NM_003059	NP_003050	Q9H015	S22A4_HUMAN	solute carrier family 22 member 4	438	Helical; Name=10; (Potential).				body fluid secretion|sodium ion transport	apical plasma membrane|integral to plasma membrane|mitochondrion	ATP binding|carnitine transporter activity|cation:cation antiporter activity|PDZ domain binding|secondary active organic cation transmembrane transporter activity|symporter activity				0		all_cancers(142;0.0752)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Carnitine(DB00583)	TTGGGATCACCTCTGCTTTCT	0.488													39	183					2.13384e-23	2.45619e-23	0.01441	1	0		A	131671563	A	A	131671563	2	1	45	1	0	0	0	0	0	0	0	1	14481	668	24	5		5	SLC22A4	5	131671563	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	33556272	131671563	49243697	315	34694											
IRF1	3659	broad.mit.edu	37	chr5	131819656	131819656	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggccctgctacggtgcacagGgaatggcctggatggagggc	7	6	18	10	1	0	0	0	0	0	0	0	3	0	3	2	7	3	2	2	7	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:131819656G>T	uc003kxa.2	-	10	1199	c.965C>A	c.(964-966)CCC>CAC	p.P322H	C5orf56_uc010jds.1_Intron|IRF1_uc003kxd.2_Intron|IRF1_uc003kxb.2_Missense_Mutation_p.P322H	NM_002198	NP_002189	P10914	IRF1_HUMAN	interferon regulatory factor 1	322					blood coagulation|cellular response to mechanical stimulus|interferon-gamma-mediated signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleoplasm					0		all_cancers(142;0.026)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	LUAD - Lung adenocarcinoma(142;0.247)		CGGTGCACAGGGAATGGCCTG	0.587													8	58					1.06961e-07	1.16068e-07	0.00308	1	0		T	131819656	T	T	131819656	3	4	45	1	0	0	0	0	1	0	0	0	7843	1232	43	5	16	5	IRF1	5	131819656	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	148093	131819656	49095604	316	34695											
NEUROG1	4762	broad.mit.edu	37	chr5	134871159	134871159	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggacccgcgtccggccgcgGcgccgccgcctctcctgctc	1	5	13	22	9	1	0	0	0	1	0	4	1	2	1	7	3	1	1	7	3	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:134871159G>C	uc003lax.2	-	1	481	c.222C>G	c.(220-222)CGC>CGG	p.R74R		NM_006161	NP_006152	Q92886	NGN1_HUMAN	neurogenin 1	74					positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter	nucleus	chromatin binding|E-box binding|sequence-specific DNA binding transcription factor activity|transcription factor binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TCCGGCCGCGGCGCCGCCGCC	0.582													5	11					0	0	0.000602	0	0		C	134871159	C	C	134871159	2	2	45	1	0	0	0	0	0	0	0	1	10371	1190	42	5		5	NEUROG1	5	134871159	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3051503	134871159	46044101	317	34696											
REEP2	51308	broad.mit.edu	37	chr5	137777118	137777118	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctttgccttcttcaccacGgccgagacgctcacggatat	7	11	9	14	4	4	1	2	0	2	1	4	3	4	2	3	2	1	1	3	2	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:137777118G>A	uc003lcz.2	+	3	272	c.150G>A	c.(148-150)ACG>ACA	p.T50T	REEP2_uc003lda.2_Silent_p.T50T|REEP2_uc011cyt.1_Silent_p.T11T	NM_016606	NP_057690	Q9BRK0	REEP2_HUMAN	receptor accessory protein 2	50	Helical; (Potential).					integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			TCTTCACCACGGCCGAGACGC	0.622													29	92					0	0	0.009535	0	0		A	137777118	A	A	137777118	2	1	45	1	0	0	0	0	0	0	0	1	13230	1103	39	1		1	REEP2	5	137777118	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2905959	137777118	43138142	318	34697											
PURA	5813	broad.mit.edu	37	chr5	139494404	139494404	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgactacggagtggaggAggagccggccgagctgcccg	8	3	18	12	6	0	0	0	0	0	0	0	7	0	4	3	5	4	1	3	5	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:139494404A>C	uc003lfa.2	+	1	697	c.638A>C	c.(637-639)GAG>GCG	p.E213A		NM_005859	NP_005850	Q00577	PURA_HUMAN	purine-rich element binding protein A	213					DNA unwinding involved in replication|DNA-dependent DNA replication initiation	DNA replication factor A complex	double-stranded telomeric DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|single-stranded DNA binding|transcription factor binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAGTGGAGGAGGAGCCGGCC	0.632													17	40					0	0	0.00499	0	0		C	139494404	C	C	139494404	3	2	45	1	0	0	0	0	1	0	0	0	12852	304	11	5	640	5	PURA	5	139494404	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1717286	139494404	41420856	319	34698											
EIF4EBP3	8637	broad.mit.edu	37	chr5	139928824	139928824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttttctctctccagatgacGcacaatttgaaatggacatc	11	13	6	11	1	2	3	0	2	2	1	5	4	2	4	1	1	0	1	1	1	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:139928824G>A	uc003lfy.1	+	3	352	c.280G>A	c.(280-282)GCA>ACA	p.A94T	ANKHD1-EIF4EBP3_uc003lfs.1_3'UTR|ANKHD1-EIF4EBP3_uc011czh.1_3'UTR|ANKHD1-EIF4EBP3_uc003lfx.1_3'UTR	NM_003732	NP_003723	O60516	4EBP3_HUMAN	eukaryotic translation initiation factor 4E	94					negative regulation of translational initiation	eukaryotic translation initiation factor 4F complex	eukaryotic initiation factor 4E binding|translation repressor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCAGATGACGCACAATTTGA	0.542													8	285					0	0	0.006214	0	0		A	139928824	A	A	139928824	3	1	45	1	0	0	0	0	1	0	0	0	5042	1087	38	1	290	1	EIF4EBP3	5	139928824	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	434420	139928824	40986436	320	34699											
SLC35A4	113829	broad.mit.edu	37	chr5	139946971	139946971	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctcccttctggtaggcTggcaagcatggccccagggg	5	9	13	14	0	2	0	0	0	2	0	3	0	2	0	4	6	1	4	4	6	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:139946971T>C	uc003lgg.1	+	3	945	c.217T>C	c.(217-219)TGG>CGG	p.W73R	APBB3_uc003lgd.1_5'Flank|APBB3_uc003lge.1_5'Flank|APBB3_uc003lgf.1_5'Flank|APBB3_uc010jfp.1_5'Flank|APBB3_uc011czi.1_5'Flank|APBB3_uc010jfr.1_5'Flank|SLC35A4_uc003lgh.1_Missense_Mutation_p.W73R	NM_080670	NP_542401	Q96G79	S35A4_HUMAN	solute carrier family 35, member A4	73	Helical; (Potential).|Leu-rich.					Golgi membrane|integral to membrane	sugar:hydrogen symporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTGGTAGGCTGGCAAGCATG	0.627													13	59					0	0	0.001855	0	0		C	139946971	C	C	139946971	3	2	45	1	0	0	0	0	1	0	0	0	14598	1580	55	3	219	3	SLC35A4	5	139946971	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	18147	139946971	40968289	321	34700											
PCDHA4	56144	broad.mit.edu	37	chr5	140188299	140188299	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgtcgagctacgtttcGgtgcatgcggagagcggcaa	7	8	16	10	6	0	1	0	0	0	1	2	3	0	1	0	3	5	5	0	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:140188299G>A	uc003lhi.2	+	1	1628	c.1527G>A	c.(1525-1527)TCG>TCA	p.S509S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.S509S|PCDHA4_uc011daa.1_Silent_p.S509S	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	509	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTACGTTTCGGTGCATGCGG	0.677													31	135					0	0	0.008361	0	0		A	140188299	A	A	140188299	2	1	45	1	0	0	0	0	0	0	0	1	11545	1103	39	1		1	PCDHA4	5	140188299	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	241328	140188299	40726961	322	34701											
PCDHA6	56142	broad.mit.edu	37	chr5	140209639	140209639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtgctggtgaaagaccacGgtgagccggcgctgacagcg	8	6	17	10	4	0	4	0	3	0	1	0	4	0	4	2	4	3	2	2	4	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:140209639G>A	uc003lho.2	+	1	1990	c.1963G>A	c.(1963-1965)GGT>AGT	p.G655S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Missense_Mutation_p.G655S	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	655	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAAAGACCACGGTGAGCCGGC	0.687													14	70					0	0	0.001855	0	0		A	140209639	A	A	140209639	3	1	45	1	0	0	0	0	1	0	0	0	11547	1116	39	1	1965	1	PCDHA6	5	140209639	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	21340	140209639	40705621	323	34702											
PCDHA13	56136	broad.mit.edu	37	chr5	140263299	140263299	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggtgtctgctcaggacgcGgacgcacaggagaacgcgct	9	5	15	12	6	2	1	1	0	1	1	2	4	2	3	0	4	2	3	0	4	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:140263299G>A	uc003lif.2	+	1	1446	c.1446G>A	c.(1444-1446)GCG>GCA	p.A482A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.A482A|PCDHA13_uc003lid.2_Silent_p.A482A	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	482	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCAGGACGCGGACGCACAGG	0.667													16	115					0	0	0.007413	0	0		A	140263299	A	A	140263299	2	1	45	1	0	0	0	0	0	0	0	1	11542	1103	39	1		1	PCDHA13	5	140263299	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	53660	140263299	40651961	324	34703			1	11		3	3	238	N	G_C	4.337953e-05
PCDHA13	56136	broad.mit.edu	37	chr5	140263504	140263504	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgggcagcaacgtgacgCtgcaggtgttcgtgctggac	6	9	15	11	3	1	1	0	1	1	0	2	2	1	2	0	3	4	6	0	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:140263504C>T	uc003lif.2	+	1	1651	c.1651C>T	c.(1651-1653)CTG>TTG	p.L551L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.L551L|PCDHA13_uc003lid.2_Silent_p.L551L	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	551	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAACGTGACGCTGCAGGTGTT	0.692													25	169					0	0	0.004656	0	0		T	140263504	T	T	140263504	2	4	45	1	0	0	0	0	0	0	0	1	11542	796	28	2		2	PCDHA13	5	140263504	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	205	140263504	40651756	325	34704			1	11		3	3	238	N	G_C	4.337953e-05
PCDHA13	56136	broad.mit.edu	37	chr5	140263536	140263536	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgctggacgagaacgacaaCgctccggcgctgctgacgcc	8	5	14	14	6	0	2	0	1	0	1	1	5	1	3	2	2	4	4	2	2	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:140263536C>T	uc003lif.2	+	1	1683	c.1683C>T	c.(1681-1683)AAC>AAT	p.N561N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.N561N|PCDHA13_uc003lid.2_Silent_p.N561N	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	561	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAACGACAACGCTCCGGCGC	0.697													28	160					0	0	0.004656	0	0		T	140263536	T	T	140263536	2	4	45	1	0	0	0	0	0	0	0	1	11542	535	19	1		1	PCDHA13	5	140263536	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	32	140263536	40651724	326	34705			1	11		3	3	238	N	G_C	4.337953e-05
PCDHAC2	56134	broad.mit.edu	37	chr5	140346519	140346519	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggagcaggcacccggcgcGctcgtgggcaacgtggctcg	6	4	18	13	6	0	0	0	0	0	0	2	2	0	1	1	5	2	5	1	5	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:140346519G>A	uc003lii.2	+	1	408	c.168G>A	c.(166-168)GCG>GCA	p.A56A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Silent_p.A56A	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	56	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACCCGGCGCGCTCGTGGGCA	0.572													4	10					0	0	0.000602	0	0		A	140346519	A	A	140346519	2	1	45	1	0	0	0	0	0	0	0	1	11552	1074	38	1		1	PCDHAC2	5	140346519	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	82983	140346519	40568741	327	34706											
PCDHB12	56124	broad.mit.edu	37	chr5	140590109	140590109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctccccggctttgagcagcGaggcgctggtgcgcgtgctg	3	8	17	13	5	0	1	0	1	0	0	1	2	1	1	2	3	4	5	2	3	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:140590109G>A	uc003liz.2	+	1	1819	c.1630G>A	c.(1630-1632)GAG>AAG	p.E544K	PCDHB12_uc011dak.1_Missense_Mutation_p.E207K	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	544	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTTGAGCAGCGAGGCGCTGGT	0.697													19	87					0	0	0.008871	0	0		A	140590109	A	A	140590109	3	1	45	1	0	0	0	0	1	0	0	0	11556	1059	37	1	1632	1	PCDHB12	5	140590109	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	243590	140590109	40325151	328	34707											
PCDHB15	56121	broad.mit.edu	37	chr5	140626242	140626242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attctccagagacagaagtgGccctgtttaggattagagac	12	10	11	8	0	1	3	0	0	1	3	2	6	1	4	2	2	0	1	2	2	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:140626242G>A	uc003lje.2	+	1	1096	c.1096G>A	c.(1096-1098)GCC>ACC	p.A366T		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	366	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GACAGAAGTGGCCCTGTTTAG	0.418													4	89					0	0	0.009096	0	0		A	140626242	A	A	140626242	3	1	45	1	0	0	0	0	1	0	0	0	11559	1203	42	2	1098	2	PCDHB15	5	140626242	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	36133	140626242	40289018	329	34708											
PCDHGA6	56109	broad.mit.edu	37	chr5	140754749	140754749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctccaggaacagtaatcGccctttttcaagtgttcgat	10	12	7	12	2	1	0	1	0	0	0	4	2	2	1	3	1	1	2	3	1	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:140754749G>A	uc003ljy.1	+	1	1099	c.1099G>A	c.(1099-1101)GCC>ACC	p.A367T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.A367T	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	367	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACAGTAATCGCCCTTTTTCA	0.433													9	130					0	0	0.006214	0	0		A	140754749	A	A	140754749	3	1	45	1	0	0	0	0	1	0	0	0	11577	1087	38	1	1101	1	PCDHGA6	5	140754749	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	128507	140754749	40160511	330	34709											
PCDHGA11	56105	broad.mit.edu	37	chr5	140802774	140802774	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctctcggccaccgtcacGctcaccgtggctgtggccga	4	8	11	18	5	3	0	2	0	1	0	5	1	3	0	5	3	0	2	5	3	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:140802774G>A	uc003lkq.1	+	1	2238	c.1980G>A	c.(1978-1980)ACG>ACA	p.T660T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Silent_p.T660T|PCDHGA11_uc003lkp.1_Intron	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	660	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCACCGTCACGCTCACCGTGG	0.662													5	105					0	0	0.000602	0	0		A	140802774	A	A	140802774	2	1	45	1	0	0	0	0	0	0	0	1	11571	1074	38	1		1	PCDHGA11	5	140802774	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	48025	140802774	40112486	331	34710											
DIAPH1	1729	broad.mit.edu	37	chr5	140903716	140903716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtgcttacttaccttgacGgggccctctcttccgtcgga	5	13	10	13	3	1	1	0	1	1	0	4	2	2	2	3	3	3	1	3	3	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:140903716G>A	uc003llb.3	-	28	3796	c.3655C>T	c.(3655-3657)CGT>TGT	p.R1219C	DIAPH1_uc011dbd.1_Missense_Mutation_p.R113C|DIAPH1_uc003llc.3_Missense_Mutation_p.R1210C	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	1219	DAD.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTACCTTGACGGGGCCCTCTC	0.537													13	106					0	0	0.00245	0	0		A	140903716	A	A	140903716	3	1	45	1	0	0	0	0	1	0	0	0	4524	1116	39	1	171	1	DIAPH1	5	140903716	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	100942	140903716	40011544	332	34711											
GNPDA1	10007	broad.mit.edu	37	chr5	141385765	141385765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctcttcaaaggcatcaCattctgcctgtaggtcgact	8	14	7	12	1	5	0	2	0	3	0	7	1	5	0	1	2	1	2	1	2	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:141385765C>T	uc003lmf.3	-	3	1112	c.353G>A	c.(352-354)TGT>TAT	p.C118Y	GNPDA1_uc003lmg.3_Missense_Mutation_p.C118Y|GNPDA1_uc010jgh.2_Missense_Mutation_p.C118Y|GNPDA1_uc003lmh.3_Missense_Mutation_p.C84Y	NM_005471	NP_005462	P46926	GNPI1_HUMAN	glucosamine-6-phosphate deaminase 1	118					generation of precursor metabolites and energy|glucosamine catabolic process|N-acetylglucosamine metabolic process|single fertilization	cytoplasm	glucosamine-6-phosphate deaminase activity|hydrolase activity				0		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAGGCATCACATTCTGCCTG	0.507													32	110					0	0	0.003755	0	0		T	141385765	T	T	141385765	3	4	45	1	0	0	0	0	1	0	0	0	6557	478	17	4	532	4	GNPDA1	5	141385765	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	482049	141385765	39529495	333	34712											
RPS14	6208	broad.mit.edu	37	chr5	149826448	149826448	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggccacatcctgggcagcCaacatagcagcatatggtga	11	7	12	11	0	0	1	0	1	0	0	1	1	1	1	3	3	4	3	3	3	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:149826448C>A	uc003lsh.2	-	3	501	c.228G>T	c.(226-228)TTG>TTT	p.L76F	uc003lsg.2_5'Flank|RPS14_uc003lsi.2_Missense_Mutation_p.L76F|RPS14_uc003lsj.2_Missense_Mutation_p.L76F	NM_001025071	NP_001020242	P62263	RS14_HUMAN	ribosomal protein S14	76					endocrine pancreas development|erythrocyte differentiation|maturation of SSU-rRNA|negative regulation of transcription from RNA polymerase II promoter|ribosomal small subunit assembly|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	mRNA 5'-UTR binding|protein binding|structural constituent of ribosome|translation regulator activity			central_nervous_system(1)	1		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCTGGGCAGCCAACATAGCAG	0.567													9	77					2.80697e-09	3.08415e-09	0.010729	1	0		A	149826448	A	A	149826448	3	1	45	1	0	0	0	0	1	0	0	0	13649	593	21	5	239	5	RPS14	5	149826448	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	8440683	149826448	31088812	334	34713											
NDST1	3340	broad.mit.edu	37	chr5	149915269	149915269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcctctccctaggagcatgGcattcccacagacatggggt	9	9	10	13	0	1	1	0	0	1	1	4	2	3	2	3	4	1	2	3	4	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:149915269G>A	uc003lsk.3	+	6	1761	c.1259G>A	c.(1258-1260)GGC>GAC	p.G420D	NDST1_uc011dcj.1_Missense_Mutation_p.G420D|NDST1_uc003lsl.2_Missense_Mutation_p.G420D	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	420	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TAGGAGCATGGCATTCCCACA	0.597													5	71					0	0	0.001984	0	0		A	149915269	A	A	149915269	3	1	45	1	0	0	0	0	1	0	0	0	10274	1203	42	2	1277	2	NDST1	5	149915269	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	88821	149915269	30999991	335	34714											
NDST1	3340	broad.mit.edu	37	chr5	149925026	149925026	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctcatcaaccccgcggAccgggcctattcctggtacc	7	8	8	18	3	2	0	2	0	0	0	4	1	4	1	7	3	2	1	7	3	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:149925026A>G	uc003lsk.3	+	11	2625	c.2123A>G	c.(2122-2124)GAC>GGC	p.D708G	NDST1_uc011dcj.1_Missense_Mutation_p.D708G	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	708	Heparan sulfate N-sulfotransferase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AACCCCGCGGACCGGGCCTAT	0.567													7	239					0	0	0.001984	0	0		G	149925026	G	G	149925026	3	3	45	1	0	0	0	0	1	0	0	0	10274	275	10	3	2161	3	NDST1	5	149925026	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	9757	149925026	30990234	336	34715											
TNIP1	10318	broad.mit.edu	37	chr5	150411891	150411891	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagggtccatcacttgggaGctctgatttggatttcgaac	8	12	13	8	1	2	1	1	1	1	0	4	5	3	4	1	4	2	1	1	4	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:150411891G>T	uc003ltf.2	-	17	2422	c.1833C>A	c.(1831-1833)AGC>AGA	p.S611R	TNIP1_uc011dcn.1_Missense_Mutation_p.S129R|TNIP1_uc010jhl.2_RNA|TNIP1_uc010jhm.2_Missense_Mutation_p.S547R|TNIP1_uc010jhn.2_Intron|TNIP1_uc011dco.1_Missense_Mutation_p.A617D|TNIP1_uc003lth.2_RNA|TNIP1_uc003lti.2_Missense_Mutation_p.S611R|TNIP1_uc003ltg.2_Missense_Mutation_p.S558R|TNIP1_uc003ltj.2_Missense_Mutation_p.S611R|TNIP1_uc010jho.1_RNA|TNIP1_uc010jhq.1_Intron|TNIP1_uc010jhp.1_Missense_Mutation_p.S494R|TNIP1_uc010jhr.1_Missense_Mutation_p.S611R|TNIP1_uc003ltk.2_Missense_Mutation_p.S611R	NM_006058	NP_006049	Q15025	TNIP1_HUMAN	TNFAIP3 interacting protein 1	611	Pro-rich.				defense response|glycoprotein biosynthetic process|negative regulation of viral genome replication|translation	cytoplasm|nucleus	protein binding			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.0911)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCACTTGGGAGCTCTGATTTG	0.478													4	41					0.00909568	0.00927429	0.009096	1	0		T	150411891	T	T	150411891	3	4	45	1	0	0	0	0	1	0	0	0	16339	962	34	5	85	5	TNIP1	5	150411891	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	486865	150411891	30503369	337	34716											
G3BP1	10146	broad.mit.edu	37	chr5	151170610	151170610	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagattcatgcaaacgtttgTccttgctcctgaggtatgtg	8	14	11	8	1	1	2	1	1	0	1	3	3	3	2	2	1	3	4	2	1	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:151170610T>C	uc003lun.2	+	4	509	c.338T>C	c.(337-339)GTC>GCC	p.V113A	G3BP1_uc010jhy.1_Missense_Mutation_p.V113A|G3BP1_uc003lum.2_Missense_Mutation_p.V113A|G3BP1_uc011dcu.1_5'UTR|G3BP1_uc010jhz.2_5'UTR	NM_005754	NP_005745	Q13283	G3BP1_HUMAN	Ras-GTPase-activating protein SH3-domain-binding	113	NTF2.				Ras protein signal transduction|transport	cytosol|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|endonuclease activity|protein binding|RNA binding			skin(3)|ovary(1)	4		all_hematologic(541;0.0338)|Medulloblastoma(196;0.091)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)			CAAACGTTTGTCCTTGCTCCT	0.403													40	176					0	0	0.009718	0	0		C	151170610	C	C	151170610	3	2	45	1	0	0	0	0	1	0	0	0	6155	1667	58	3	348	3	G3BP1	5	151170610	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	758719	151170610	29744650	338	34717											
GALNT10	55568	broad.mit.edu	37	chr5	153765901	153765901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggccggtggactgttcGccgtggatcggaagtggttc	5	11	17	8	4	0	1	0	1	0	0	3	4	0	4	2	6	0	2	2	6	1	2	rs139262954	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:153765901G>A	uc003lvh.2	+	7	1099	c.967G>A	c.(967-969)GCC>ACC	p.A323T	GALNT10_uc003lvg.1_Missense_Mutation_p.A323T|GALNT10_uc010jic.2_RNA|GALNT10_uc010jid.2_Missense_Mutation_p.A164T	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	323	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			TGGACTGTTCGCCGTGGATCG	0.567													5	210					0	0	0.001984	0	0		A	153765901	A	A	153765901	3	1	45	1	0	0	0	0	1	0	0	0	6223	1087	38	1	993	1	GALNT10	5	153765901	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2595291	153765901	27149359	339	34718											
HAVCR2	84868	broad.mit.edu	37	chr5	156514218	156514218	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcatatacgttctcttcAatggtatagatgttttcttc	9	19	5	8	1	4	1	2	0	2	1	6	1	4	1	0	1	1	3	0	1	5	10			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:156514218A>G	uc003lwk.1	-	7	945	c.801T>C	c.(799-801)ATT>ATC	p.I267I		NM_032782	NP_116171	Q8TDQ0	HAVR2_HUMAN	T cell immunoglobulin mucin 3 precursor	267	Cytoplasmic (Potential).					integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CGTTCTCTTCAATGGTATAGA	0.468													5	89					0	0	0.000602	0	0		G	156514218	G	G	156514218	2	3	45	1	0	0	0	0	0	0	0	1	6990	126	5	3		3	HAVCR2	5	156514218	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2748317	156514218	24401042	340	34719											
GABRA6	2559	broad.mit.edu	37	chr5	161116141	161116141	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctaataaactcttcagaAtaatgcagaatggaaccatt	16	11	5	9	0	2	2	1	0	1	2	3	3	3	3	2	1	3	1	2	1	7	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:161116141A>G	uc003lyu.2	+	4	750	c.412A>G	c.(412-414)ATA>GTA	p.I138V	GABRA6_uc003lyv.2_5'Flank	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	138	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ACTCTTCAGAATAATGCAGAA	0.373										TCGA Ovarian(5;0.080)			8	40					0	0	0.006214	0	0		G	161116141	G	G	161116141	3	3	45	1	0	0	0	0	1	0	0	0	6179	101	4	3	426	3	GABRA6	5	161116141	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	4601923	161116141	19799119	341	34720											
ODZ2	57451	broad.mit.edu	37	chr5	167589717	167589717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagagggcccggatgcaacGttgccatggaaacttcctgt	9	8	14	10	2	0	1	0	0	0	1	1	4	1	3	3	4	4	2	3	4	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:167589717G>A	uc010jjd.2	+	13	2497	c.2497G>A	c.(2497-2499)GTT>ATT	p.V833I	ODZ2_uc003lzr.3_Missense_Mutation_p.V610I|ODZ2_uc003lzt.3_Missense_Mutation_p.V206I|ODZ2_uc010jje.2_Missense_Mutation_p.V104I|uc003lzs.1_Intron	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		CGGATGCAACGTTGCCATGGA	0.567													14	67					0	0	0.001855	0	0		A	167589717	A	A	167589717	3	1	45	1	0	0	0	0	1	0	0	0	10854	1145	40	1	2547	1	ODZ2	5	167589717	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	6473576	167589717	13325543	342	34721											
CCDC99	54908	broad.mit.edu	37	chr5	169020375	169020375	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagatagaaaaactgaaagtGgaattagatgaagccaggct	18	8	11	4	0	0	5	0	2	0	3	0	6	0	6	1	2	2	1	1	2	8	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:169020375G>A	uc003mae.3	+	4	633	c.354G>A	c.(352-354)GTG>GTA	p.V118V	CCDC99_uc010jjj.2_Silent_p.V47V|CCDC99_uc011deq.1_Intron|CCDC99_uc010jjk.2_5'UTR	NM_017785	NP_060255	Q96EA4	SPDLY_HUMAN	coiled-coil domain containing 99	118	Potential.				cell division|establishment of mitotic spindle orientation|mitotic metaphase plate congression|mitotic prometaphase|protein localization to kinetochore	condensed chromosome outer kinetochore|cytosol|microtubule organizing center|nucleus|spindle pole	kinetochore binding|protein binding			ovary(1)|liver(1)	2	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AACTGAAAGTGGAATTAGATG	0.348													9	22					0	0	0.006214	0	0		A	169020375	A	A	169020375	2	1	45	1	0	0	0	0	0	0	0	1	2879	1335	47	4		4	CCDC99	5	169020375	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1430658	169020375	11894885	343	34722											
CCDC99	54908	broad.mit.edu	37	chr5	169021259	169021259	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaaagaggaaaaagaggaGcgagagaaagaagcagtttc	19	5	13	4	1	0	4	0	0	0	4	1	8	0	6	0	2	2	2	0	2	6	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:169021259G>A	uc003mae.3	+	5	921	c.642G>A	c.(640-642)GAG>GAA	p.E214E	CCDC99_uc010jjj.2_Silent_p.E143E|CCDC99_uc011deq.1_Silent_p.E31E|CCDC99_uc010jjk.2_Intron	NM_017785	NP_060255	Q96EA4	SPDLY_HUMAN	coiled-coil domain containing 99	214	Potential.				cell division|establishment of mitotic spindle orientation|mitotic metaphase plate congression|mitotic prometaphase|protein localization to kinetochore	condensed chromosome outer kinetochore|cytosol|microtubule organizing center|nucleus|spindle pole	kinetochore binding|protein binding			ovary(1)|liver(1)	2	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AAAAAGAGGAGCGAGAGAAAG	0.358													7	36					0	0	0.00308	0	0		A	169021259	A	A	169021259	2	1	45	1	0	0	0	0	0	0	0	1	2879	962	34	2		2	CCDC99	5	169021259	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	884	169021259	11894001	344	34723											
SH3PXD2B	285590	broad.mit.edu	37	chr5	171777412	171777412	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcggccttcaaaccgccCgtccctctggctgctgagca	5	7	12	17	4	2	1	1	1	1	0	3	1	3	1	4	3	3	3	4	3	1	1	rs111492578		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:171777412C>A	uc003mbr.2	-	10	1138	c.967G>T	c.(967-969)GGG>TGG	p.G323W		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	323					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TCAAACCGCCCGTCCCTCTGG	0.612													6	65					0.00307968	0.00315622	0.00308	1	0		A	171777412	A	A	171777412	3	1	45	1	0	0	0	0	1	0	0	0	14282	652	23	5	1784	5	SH3PXD2B	5	171777412	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2756153	171777412	9137848	345	34724											
DRD1	1812	broad.mit.edu	37	chr5	174870015	174870015	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacaggatgagcagcgacaGgaaacaggcagtgaggatac	15	3	16	7	1	0	2	0	2	0	0	0	7	0	6	0	5	4	2	0	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:174870015G>T	uc003mcz.2	-	2	1033	c.88C>A	c.(88-90)CTG>ATG	p.L30M		NM_000794	NP_000785	P21728	DRD1_HUMAN	dopamine receptor D1	30	Helical; Name=1; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|adult walking behavior|cerebral cortex GABAergic interneuron migration|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|mating behavior|positive regulation of cAMP biosynthetic process|positive regulation of cell migration|positive regulation of potassium ion transport|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of synaptic transmission, glutamatergic|prepulse inhibition|response to drug|synapse assembly|visual learning	endoplasmic reticulum membrane|membrane fraction	protein binding			ovary(2)|skin(1)	3	all_cancers(89;0.00895)|Renal(175;0.000159)|Lung NSC(126;0.00625)|all_lung(126;0.0104)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)		Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Carphenazine(DB01038)|Chlorprothixene(DB01239)|Clozapine(DB00363)|Cocaine(DB00907)|Dopamine(DB00988)|Fenoldopam(DB00800)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Methylergonovine(DB00353)|Minaprine(DB00805)|Olanzapine(DB00334)|Pegademase bovine(DB00061)|Pergolide(DB01186)|Perphenazine(DB00850)|Prochlorperazine(DB00433)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Triflupromazine(DB00508)|Zuclopenthixol(DB01624)	AGCAGCGACAGGAAACAGGCA	0.562													20	82					8.10497e-08	8.80866e-08	0.010504	1	0		T	174870015	T	T	174870015	3	4	45	1	0	0	0	0	1	0	0	0	4762	991	35	5	1256	5	DRD1	5	174870015	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3092603	174870015	6045245	346	34725											
HRH2	3274	broad.mit.edu	37	chr5	175110255	175110255	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggcacccaatggcacaGcctcttccttttgcctggac	7	10	10	14	0	1	0	0	0	1	0	2	2	2	2	4	4	2	2	4	4	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:175110255G>T	uc003mdd.2	+	1	1792	c.19G>T	c.(19-21)GCC>TCC	p.A7S	HRH2_uc003mdc.3_Missense_Mutation_p.A7S	NM_022304	NP_071640	P25021	HRH2_HUMAN	histamine receptor H2 isoform 2	7	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|immune response	integral to plasma membrane	histamine receptor activity			ovary(1)	1	all_cancers(89;0.00805)|Renal(175;0.000269)|Lung NSC(126;0.00419)|all_lung(126;0.00711)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Colorectal(1;0.0154)|COAD - Colon adenocarcinoma(1;0.149)	Betazole(DB00272)|Cimetidine(DB00501)|Doxepin(DB01142)|Epinastine(DB00751)|Famotidine(DB00927)|Histamine Phosphate(DB00667)|Nizatidine(DB00585)|Ranitidine(DB00863)	CAATGGCACAGCCTCTTCCTT	0.567													5	233					0.00116845	0.00120542	0.001168	1	0		T	175110255	T	T	175110255	3	4	45	1	0	0	0	0	1	0	0	0	7372	971	34	5	21	5	HRH2	5	175110255	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	240240	175110255	5805005	347	34726											
RNF44	22838	broad.mit.edu	37	chr5	175959004	175959004	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggggatggggttctgcctaCctgctcgtggagatcaacca	8	9	14	10	1	2	1	1	0	1	1	3	3	2	2	3	5	4	2	3	5	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:175959004C>T	uc003mek.1	-	3	822	c.297_splice	c.e3+1	p.Q99_splice	RNF44_uc011dfo.1_Splice_Site_p.Q7_splice|RNF44_uc003mel.1_5'Flank	NM_014901	NP_055716	Q7L0R7	RNF44_HUMAN	ring finger protein 44								zinc ion binding				0	all_cancers(89;0.0029)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTTCTGCCTACCTGCTCGTGG	0.632													4	79					0	0	0.009096	0	0		T	175959004	T	T	175959004	5	4	45	1	0	0	0	0	0	0	1	0	13521	521	18	4	1036	4	RNF44	5	175959004	Splice_Site	SNP	C	TCGA-BR-6852-01A-11D-1882-08	848749	175959004	4956256	348	34727											
RGS14	10636	broad.mit.edu	37	chr5	176797920	176797920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcaggctggagctgacggCgctggagcgcgtggtacgaa	7	6	18	10	6	0	1	0	1	0	0	1	4	0	3	0	5	3	5	0	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:176797920C>T	uc003mgf.2	+	11	1324	c.1142C>T	c.(1141-1143)GCG>GTG	p.A381V	RGS14_uc003mgh.2_Missense_Mutation_p.A229V|RGS14_uc003mgi.2_Missense_Mutation_p.A152V|RGS14_uc003mgj.2_5'Flank	NM_006480	NP_006471	O43566	RGS14_HUMAN	regulator of G-protein signalling 14	381	RBD 2.|Necessary for interaction with RABGEF1 (By similarity).				chromosome segregation|long-term memory|long-term synaptic potentiation|negative regulation of ERK1 and ERK2 cascade|negative regulation of MAP kinase activity|negative regulation of synaptic plasticity|nucleocytoplasmic transport|platelet-derived growth factor receptor signaling pathway|positive regulation of neurogenesis|regulation of DNA-dependent transcription in response to stress|regulation of G-protein coupled receptor protein signaling pathway|response to oxidative stress|spindle organization|visual learning|zygote asymmetric cell division	cell junction|centrosome|dendritic spine|microtubule|PML body|postsynaptic density|postsynaptic membrane|spindle pole	GDP-dissociation inhibitor activity|GTPase activator activity|microtubule binding|receptor signaling complex scaffold activity|receptor signaling protein activity			lung(1)	1	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GAGCTGACGGCGCTGGAGCGC	0.687													6	35					0	0	0.001984	0	0		T	176797920	T	T	176797920	3	4	45	1	0	0	0	0	1	0	0	0	13322	768	27	1	1184	1	RGS14	5	176797920	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	838916	176797920	4117340	349	34728											
CANX	821	broad.mit.edu	37	chr5	179150668	179150668	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttgtttttcagccaggcgTtgtggggcagatgatcgagg	6	13	15	7	2	2	2	1	1	1	1	3	3	2	2	1	4	1	3	1	4	0	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr5:179150668T>C	uc003mkk.2	+	12	1583	c.1406T>C	c.(1405-1407)GTT>GCT	p.V469A	CANX_uc011dgp.1_Missense_Mutation_p.V504A|CANX_uc003mkl.2_Missense_Mutation_p.V469A|CANX_uc011dgq.1_Missense_Mutation_p.V361A	NM_001746	NP_001737	P27824	CALX_HUMAN	calnexin precursor	469	Lumenal (Potential).				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein secretion	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane|melanosome	calcium ion binding|sugar binding|unfolded protein binding				0	all_cancers(89;0.000129)|all_epithelial(37;5.59e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0413)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAGCCAGGCGTTGTGGGGCAG	0.507													22	140					0	0	0.00333	0	0		C	179150668	C	C	179150668	3	2	45	1	0	0	0	0	1	0	0	0	2621	1725	60	3	1448	3	CANX	5	179150668	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2352748	179150668	1764592	350	34729											
FAM50B	26240	broad.mit.edu	37	chr6	3850592	3850592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcgcgagaaagtgaaggacGaggagatggaggtcaccttc	13	5	16	7	3	1	3	1	1	0	2	2	8	1	5	1	4	1	0	1	4	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:3850592G>A	uc003mvu.2	+	2	659	c.547G>A	c.(547-549)GAG>AAG	p.E183K		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	183						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				AGTGAAGGACGAGGAGATGGA	0.667													21	61					0	0	0.014323	0	0		A	3850592	A	A	3850592	3	1	45	1	0	0	0	0	1	0	0	0	5592	1059	37	1	549	1	FAM50B	6	3850592	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08		3850592	167264475	351	34730											
RREB1	6239	broad.mit.edu	37	chr6	7231972	7231972	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtggccggagcccctgccGaccaccatgggcccagtgat	7	5	14	15	2	0	1	0	1	0	0	0	3	0	2	7	4	2	0	7	4	0	0	rs146641651		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:7231972G>A	uc003mxc.2	+	10	4030	c.3640G>A	c.(3640-3642)GAC>AAC	p.D1214N	RREB1_uc003mxb.2_Missense_Mutation_p.D1214N|RREB1_uc010jnx.2_Missense_Mutation_p.D1214N	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1214					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				AGCCCCTGCCGACCACCATGG	0.592													9	36					0	0	0.006214	0	0		A	7231972	A	A	7231972	3	1	45	1	0	0	0	0	1	0	0	0	13704	1058	37	1	3666	1	RREB1	6	7231972	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3381380	7231972	163883095	352	34731											
DSP	1832	broad.mit.edu	37	chr6	7576615	7576615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtggctctatgatgctaaaCgccgccaggattccttagaa	11	10	10	10	2	1	2	0	1	1	1	2	3	2	3	3	2	2	2	3	2	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:7576615C>T	uc003mxp.1	+	19	2998	c.2719C>T	c.(2719-2721)CGC>TGC	p.R907C	DSP_uc003mxq.1_Missense_Mutation_p.R907C	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	907	Globular 1.|Spectrin 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TGATGCTAAACGCCGCCAGGA	0.423													14	82					0	0	0.004007	0	0		T	7576615	T	T	7576615	3	4	45	1	0	0	0	0	1	0	0	0	4787	536	19	1	2793	1	DSP	6	7576615	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	344643	7576615	163538452	353	34732											
HIVEP1	3096	broad.mit.edu	37	chr6	12125503	12125503	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaacctgaaattagtaaTgaggctgttaatttgacaaa	15	13	7	6	0	1	3	1	3	1	0	2	3	1	3	1	1	1	3	1	1	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:12125503T>C	uc003nac.2	+	4	5654	c.5475T>C	c.(5473-5475)AAT>AAC	p.N1825N	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1825					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				AAATTAGTAATGAGGCTGTTA	0.368													25	102					0	0	0.004656	0	0		C	12125503	C	C	12125503	2	2	45	1	0	0	0	0	0	0	0	1	7202	1461	51	3		3	HIVEP1	6	12125503	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	4548888	12125503	158989564	354	34733											
GFOD1	54438	broad.mit.edu	37	chr6	13365634	13365634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcccacggagtgcaggcCgccgccgcccatcaagtcgt	6	5	14	16	5	1	0	1	0	0	0	2	1	1	1	5	3	2	1	5	3	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:13365634C>T	uc003nat.1	-	2	1179	c.514G>A	c.(514-516)GGC>AGC	p.G172S	GFOD1_uc003nas.1_Missense_Mutation_p.G69S	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	172						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			GAGTGCAGGCCGCCGCCGCCC	0.642													4	21					0	0	0.009096	0	0		T	13365634	T	T	13365634	3	4	45	1	0	0	0	0	1	0	0	0	6358	652	23	1	662	1	GFOD1	6	13365634	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1240131	13365634	157749433	355	34734											
JARID2	3720	broad.mit.edu	37	chr6	15496729	15496729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactaaggaggtgggggggCggcagctgcgggagggcctg	6	4	23	8	2	0	0	0	0	0	0	0	2	0	2	1	8	2	3	1	8	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:15496729C>T	uc003nbj.2	+	7	1517	c.1273C>T	c.(1273-1275)CGG>TGG	p.R425W	JARID2_uc011diu.1_Missense_Mutation_p.R289W|JARID2_uc011div.1_Missense_Mutation_p.R253W|JARID2_uc011diw.1_Missense_Mutation_p.R387W	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	425					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				GGTGGGGGGGCGGCAGCTGCG	0.672													4	66					0	0	0.000602	0	0		T	15496729	T	T	15496729	3	4	45	1	0	0	0	0	1	0	0	0	7961	759	27	1	1299	1	JARID2	6	15496729	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2131095	15496729	155618338	356	34735											
JARID2	3720	broad.mit.edu	37	chr6	15520332	15520332	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtctggtcaatcagatctgCggcaaagtgtctggtaaaaa	13	10	11	7	1	5	1	2	0	3	1	5	1	5	1	0	3	1	2	0	3	5	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:15520332C>T	uc003nbj.2	+	18	3835	c.3591C>T	c.(3589-3591)TGC>TGT	p.C1197C	JARID2_uc011div.1_Silent_p.C1025C	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	1197					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				ATCAGATCTGCGGCAAAGTGT	0.498													12	49					0	0	0.013537	0	0		T	15520332	T	T	15520332	2	4	45	1	0	0	0	0	0	0	0	1	7961	776	27	1		1	JARID2	6	15520332	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	23603	15520332	155594735	357	34736											
C6orf62	81688	broad.mit.edu	37	chr6	24714607	24714607	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaacaggagacagacgattTtttcaatatcattccgaggc	15	10	8	8	2	2	2	2	0	0	2	3	5	3	2	1	2	1	0	1	2	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:24714607T>C	uc003nel.2	-	3	875	c.368A>G	c.(367-369)AAA>AGA	p.K123R		NM_030939	NP_112201	Q9GZU0	CF062_HUMAN	hypothetical protein LOC81688	123						intracellular					0						ACAGACGATTTTTTCAATATC	0.338													18	87					0	0	0.007413	0	0		C	24714607	C	C	24714607	3	2	45	1	0	0	0	0	1	0	0	0	2371	1841	64	3	333	3	C6orf62	6	24714607	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	9194275	24714607	146400460	358	34737											
BTN3A3	10384	broad.mit.edu	37	chr6	26452193	26452193	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatactggactatgggcctgActgatgggaataagtatcgg	11	10	14	6	1	0	2	0	2	0	0	1	5	0	4	1	4	1	1	1	4	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:26452193A>G	uc003nhz.2	+	11	1489	c.1309A>G	c.(1309-1311)ACT>GCT	p.T437A	BTN3A3_uc003nia.2_Missense_Mutation_p.T395A|BTN3A3_uc011dkn.1_Missense_Mutation_p.T388A	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	437	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane					0						TATGGGCCTGACTGATGGGAA	0.493													14	85					0	0	0.004007	0	0		G	26452193	G	G	26452193	3	3	45	1	0	0	0	0	1	0	0	0	1567	275	10	3	1343	3	BTN3A3	6	26452193	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1737586	26452193	144662874	359	34738											
BTN1A1	696	broad.mit.edu	37	chr6	26501975	26501975	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtgctggtgcatagggaCgggcgcgagcaggaagccga	8	4	19	10	5	0	0	0	0	0	0	0	4	0	2	2	4	4	3	2	4	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:26501975C>T	uc003nif.3	+	2	257	c.237C>T	c.(235-237)GAC>GAT	p.D79D		NM_001732	NP_001723	Q13410	BT1A1_HUMAN	butyrophilin, subfamily 1, member A1 precursor	79	Extracellular (Potential).|Ig-like V-type 1.					extracellular region|integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2						TGCATAGGGACGGGCGCGAGC	0.692													6	26					0	0	0.001168	0	0		T	26501975	T	T	26501975	2	4	45	1	0	0	0	0	0	0	0	1	1562	535	19	1		1	BTN1A1	6	26501975	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	49782	26501975	144613092	360	34739											
NKAPL	222698	broad.mit.edu	37	chr6	28227433	28227433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacctcgtatagtggatatcGctaccatcgtcactgctatg	9	12	9	11	3	1	0	1	0	0	0	4	2	1	1	2	1	2	3	2	1	5	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:28227433G>A	uc003nkt.2	+	1	336	c.284G>A	c.(283-285)CGC>CAC	p.R95H	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	95										upper_aerodigestive_tract(1)|ovary(1)	2						AGTGGATATCGCTACCATCGT	0.567													18	76					0	0	0.00499	0	0		A	28227433	A	A	28227433	3	1	45	1	0	0	0	0	1	0	0	0	10459	1087	38	1	286	1	NKAPL	6	28227433	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1725458	28227433	142887634	361	34740											
OR5V1	81696	broad.mit.edu	37	chr6	29323689	29323689	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagttgaaccacacaccccAcataagaaatgctttttttc	15	11	4	11	0	0	2	0	1	0	1	1	2	0	2	3	0	2	2	3	0	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:29323689A>G	uc011dlo.1	-	1	366	c.284T>C	c.(283-285)GTG>GCG	p.V95A		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	95	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4						CACACACCCCACATAAGAAAT	0.428													16	80					0	0	0.004007	0	0		G	29323689	G	G	29323689	3	3	45	1	0	0	0	0	1	0	0	0	11203	159	6	3	684	3	OR5V1	6	29323689	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1096256	29323689	141791378	362	34741											
HLA-A	3105	broad.mit.edu	37	chr6	29910672	29910672	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgagccagaggatggagcCgcgggcgccgtggatagagc	8	3	19	11	6	0	2	0	0	0	2	0	6	0	5	3	4	3	0	3	4	1	1	rs41563719		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:29910672C>A	uc003nol.2	+	2	212	c.212C>A	c.(211-213)CCG>CAG	p.P71Q	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_Intron|HLA-A_uc010jrq.2_5'UTR|HLA-A_uc003nok.2_5'UTR|HLA-A_uc003non.2_Missense_Mutation_p.P71Q|HLA-A_uc003noo.2_Missense_Mutation_p.P71Q|HLA-A_uc010jrr.2_Missense_Mutation_p.P71Q|HLA-A_uc003nom.2_5'UTR|HLA-A_uc010klp.2_Missense_Mutation_p.P43Q|HLA-A_uc011dmc.1_5'UTR|HLA-A_uc011dmd.1_5'Flank	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A	71	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2						AGGATGGAGCCGCGGGCGCCG	0.692									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of|Osteosarcoma_Familial_Clustering_of|Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of	Multiple Myeloma(9;0.094)			14	31					3.41278e-10	3.78538e-10	0.00499	1	0		A	29910672	A	A	29910672	3	1	45	1	0	0	0	0	1	0	0	0	7211	652	23	5	218	5	HLA-A	6	29910672	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	586983	29910672	141204395	363	34742											
PPP1R11	6992	broad.mit.edu	37	chr6	30036905	30036905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtatttatgagaaacctcGggcctttggcgagagctcca	9	11	11	10	2	0	2	0	1	0	2	2	4	1	2	3	2	2	2	3	2	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:30036905G>A	uc003npb.2	+	3	459	c.203G>A	c.(202-204)CGG>CAG	p.R68Q	PPP1R11_uc010jrw.2_RNA|PPP1R11_uc003npc.2_RNA	NM_021959	NP_068778	O60927	PP1RB_HUMAN	protein phosphatase 1, regulatory (inhibitor)	68						soluble fraction	protein binding|protein phosphatase inhibitor activity			ovary(1)|lung(1)|skin(1)	3						GAGAAACCTCGGGCCTTTGGC	0.512													18	60					0	0	0.010504	0	0		A	30036905	A	A	30036905	3	1	45	1	0	0	0	0	1	0	0	0	12375	1116	39	1	213	1	PPP1R11	6	30036905	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	126233	30036905	141078162	364	34743											
HLA-B	3106	broad.mit.edu	37	chr6	31323371	31323371	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgtgtctttggggggtcTgatgggaagagtcagaaaat	10	11	16	4	1	3	3	1	1	2	2	3	4	3	4	0	4	0	0	0	4	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:31323371T>G	uc003nth.2	-	4	674	c.620_splice	c.e4-1	p.D207_splice	HLA-C_uc003ntb.2_Splice_Site|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_Splice_Site|HLA-B_uc011dnk.1_Splice_Site|HLA-B_uc003ntf.2_Intron|HLA-B_uc003ntg.1_Splice_Site_p.D86_splice|HLA-B_uc003nti.1_Splice_Site|HLA-B_uc010jsn.1_Intron|HLA-B_uc010jso.2_3'UTR	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B						antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						TTGGGGGGTCTGATGGGAAGA	0.577									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				38	155					0	0	0.01441	0	0		G	31323371	G	G	31323371	5	3	45	1	0	0	0	0	0	0	1	0	7212	1594	55	5	486	5	HLA-B	6	31323371	Splice_Site	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1286466	31323371	139791696	365	34744											
BAT2	7916	broad.mit.edu	37	chr6	31597533	31597533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaatgaactttgatccccGatggatgatgattcctcctt	9	13	7	12	1	0	4	0	4	0	0	3	6	3	5	5	1	1	0	5	1	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:31597533G>A	uc003nvb.3	+	14	2414	c.2165G>A	c.(2164-2166)CGA>CAA	p.R722Q	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.R722Q	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	722	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						TTTGATCCCCGATGGATGATG	0.647													10	60					0	0	0.010729	0	0		A	31597533	A	A	31597533	3	1	45	1	0	0	0	0	1	0	0	0	1320	1058	37	1	2215	1	BAT2	6	31597533	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	274162	31597533	139517534	366	34745											
MSH5	4439	broad.mit.edu	37	chr6	31713067	31713067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtgtacaaagtggccaGtggactgaaggaggggctca	11	7	15	8	0	2	1	2	1	0	0	2	3	2	3	1	5	1	2	1	5	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:31713067G>A	uc003nwv.1	+	9	816	c.737G>A	c.(736-738)AGT>AAT	p.S246N	MSH5_uc003nwt.1_Missense_Mutation_p.S263N|MSH5_uc003nwu.1_Missense_Mutation_p.S246N|MSH5_uc003nww.1_Missense_Mutation_p.S246N|MSH5_uc003nwx.1_Missense_Mutation_p.S263N|MSH5_uc011dof.1_Intron	NM_172166	NP_751898	O43196	MSH5_HUMAN	mutS homolog 5 isoform c	246					chiasma assembly|homologous chromosome segregation|meiotic prophase II|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			ovary(2)|breast(1)	3						AAAGTGGCCAGTGGACTGAAG	0.478								Direct_reversal_of_damage|MMR					15	68					0	0	0.007413	0	0		A	31713067	A	A	31713067	3	1	45	1	0	0	0	0	1	0	0	0	9891	1029	36	4	818	4	MSH5	6	31713067	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	115534	31713067	139402000	367	34746											
VARS	7407	broad.mit.edu	37	chr6	31747238	31747238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgaggttgtagtcggcccGcagggagcgcacggctcgcg	5	6	19	11	6	0	1	0	1	0	0	2	2	0	2	1	5	1	5	1	5	1	2	rs138566905		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:31747238G>A	uc003nxe.2	-	28	3787	c.3364C>T	c.(3364-3366)CGG>TGG	p.R1122W	C6orf27_uc011dog.1_5'Flank|C6orf27_uc003nxd.2_5'Flank|C6orf27_uc011doh.1_5'Flank|VARS_uc003nxf.1_Missense_Mutation_p.R59W	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	1122					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	TAGTCGGCCCGCAGGGAGCGC	0.682													6	40					0	0	0.001984	0	0		A	31747238	A	A	31747238	3	1	45	1	0	0	0	0	1	0	0	0	17149	1086	38	1	442	1	VARS	6	31747238	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	34171	31747238	139367829	368	34747											
VARS	7407	broad.mit.edu	37	chr6	31752430	31752430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttaacaaggcgggtactgCgatagatgatgccttcctcg	10	10	12	9	3	0	2	0	1	0	1	2	3	1	2	2	2	4	2	2	2	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:31752430C>T	uc003nxe.2	-	11	1832	c.1409G>A	c.(1408-1410)CGC>CAC	p.R470H	VARS_uc011doi.1_RNA	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	470					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	GCGGGTACTGCGATAGATGAT	0.577													4	106					0	0	0.009096	0	0		T	31752430	T	T	31752430	3	4	45	1	0	0	0	0	1	0	0	0	17149	768	27	1	2465	1	VARS	6	31752430	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	5192	31752430	139362637	369	34748											
TNXB	7148	broad.mit.edu	37	chr6	32035685	32035685	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatcctgtcactgttagctcCcccaggagcggctcctcagc	6	9	10	16	1	2	0	2	0	0	0	5	2	5	1	4	2	3	3	4	2	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:32035685C>A	uc003nzl.2	-	18	6499	c.6297G>T	c.(6295-6297)GGG>GGT	p.G2099G		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2171	Fibronectin type-III 14.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CTGTTAGCTCCCCCAGGAGCG	0.647													15	94					1.67942e-08	1.83518e-08	0.006122	1	0		A	32035685	A	A	32035685	2	1	45	1	0	0	0	0	0	0	0	1	16371	610	22	5		5	TNXB	6	32035685	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	283255	32035685	139079382	370	34749											
COL11A2	1302	broad.mit.edu	37	chr6	33137233	33137233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggctctcctggctgccccGactctcctttctctccacgt	2	13	7	19	2	3	0	0	0	3	0	7	1	4	0	5	2	1	2	5	2	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:33137233G>A	uc003ocx.1	-	51	3953	c.3725C>T	c.(3724-3726)TCG>TTG	p.S1242L	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Missense_Mutation_p.S1156L|COL11A2_uc003ocz.1_Missense_Mutation_p.S1135L	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1242	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						TGGCTGCCCCGACTCTCCTTT	0.627													9	30					0	0	0.006214	0	0		A	33137233	A	A	33137233	3	1	45	1	0	0	0	0	1	0	0	0	3671	1059	37	1	1549	1	COL11A2	6	33137233	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1101548	33137233	137977834	371	34750											
BAK1	578	broad.mit.edu	37	chr6	33543205	33543205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatggcgagctgccgtcccaCctgccccatggtgctgtagg	5	8	14	14	2	0	0	0	0	0	0	1	2	1	0	5	3	4	3	5	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:33543205C>T	uc003oes.2	-	4	520	c.220G>A	c.(220-222)GTG>ATG	p.V74M	BAK1_uc003oer.2_Missense_Mutation_p.V4M|BAK1_uc003oet.2_RNA|BAK1_uc010jvb.2_Missense_Mutation_p.V74M|BAK1_uc003oeu.2_Missense_Mutation_p.V15M|BAK1_uc011drj.1_Missense_Mutation_p.V74M	NM_001188	NP_001179	Q16611	BAK_HUMAN	BCL2-antagonist/killer 1	74	BH3.				activation of pro-apoptotic gene products|cellular response to mechanical stimulus|cellular response to UV|establishment or maintenance of transmembrane electrochemical gradient|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|release of cytochrome c from mitochondria	integral to mitochondrial outer membrane|pore complex	metal ion binding|protein heterodimerization activity			ovary(1)	1						TGCCGTCCCACCTGCCCCATG	0.627													19	49					0	0	0.012319	0	0		T	33543205	T	T	33543205	3	4	45	1	0	0	0	0	1	0	0	0	1306	507	18	4	427	4	BAK1	6	33543205	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	405972	33543205	137571862	372	34751											
PACSIN1	29993	broad.mit.edu	37	chr6	34497328	34497328	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcaagcaggatgtgcagaAggtgctggcgggcagggatg	9	6	20	6	1	0	1	0	0	0	1	0	3	0	3	0	5	4	5	0	5	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:34497328A>G	uc003ojo.2	+	5	817	c.611A>G	c.(610-612)AAG>AGG	p.K204R	PACSIN1_uc003ojp.2_Missense_Mutation_p.K204R	NM_020804	NP_065855	Q9BY11	PACN1_HUMAN	protein kinase C and casein kinase substrate in	204	Potential.				endocytosis		protein kinase activity				0						GATGTGCAGAAGGTGCTGGCG	0.607													6	53					0	0	0.001984	0	0		G	34497328	G	G	34497328	3	3	45	1	0	0	0	0	1	0	0	0	11393	86	3	3	625	3	PACSIN1	6	34497328	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	954123	34497328	136617739	373	34752											
PPARD	5467	broad.mit.edu	37	chr6	35389648	35389648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagtacgagaagtgtgagCgcagctgcaagattcagaag	13	7	15	6	2	1	4	1	1	0	3	1	6	1	5	0	1	4	4	0	1	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:35389648C>T	uc003okm.2	+	5	646	c.337C>T	c.(337-339)CGC>TGC	p.R113C	PPARD_uc003okl.2_Missense_Mutation_p.R113C|PPARD_uc003okn.2_Missense_Mutation_p.R113C|PPARD_uc011dtb.1_Missense_Mutation_p.R74C|PPARD_uc011dtc.1_Intron|PPARD_uc010jvv.1_RNA	NM_006238	NP_006229	Q03181	PPARD_HUMAN	peroxisome proliferative activated receptor,	113	Nuclear receptor.|NR C4-type.				apoptosis|axon ensheathment|cholesterol metabolic process|decidualization|embryo implantation|fatty acid beta-oxidation|fatty acid transport|generation of precursor metabolites and energy|glucose metabolic process|glucose transport|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fat cell differentiation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|linoleic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1					Icosapent(DB00159)|Sulindac(DB00605)|Treprostinil(DB00374)	GAAGTGTGAGCGCAGCTGCAA	0.567													12	56					0	0	0.010729	0	0		T	35389648	T	T	35389648	3	4	45	1	0	0	0	0	1	0	0	0	12317	768	27	1	364	1	PPARD	6	35389648	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	892320	35389648	135725419	374	34753											
TULP1	7287	broad.mit.edu	37	chr6	35473838	35473838	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgcctcgatccatgcccTttttgtcccgggtcagccgg	5	11	10	15	3	1	0	1	0	0	0	4	1	3	0	5	2	3	0	5	2	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:35473838T>C	uc003okv.3	-	10	953	c.941A>G	c.(940-942)AAG>AGG	p.K314R	TULP1_uc003okw.3_Missense_Mutation_p.K261R	NM_003322	NP_003313	O00294	TULP1_HUMAN	tubby like protein 1	314					dendrite development|eye photoreceptor cell development|phagocytosis|photoreceptor cell maintenance|positive regulation of phagocytosis	cell junction|cytoplasm|extracellular region|photoreceptor inner segment|photoreceptor outer segment|synapse	actin filament binding|phosphatidylinositol-4,5-bisphosphate binding			ovary(2)|central_nervous_system(1)	3						ATCCATGCCCTTTTTGTCCCG	0.672													8	142					0	0	0.00308	0	0		C	35473838	C	C	35473838	3	2	45	1	0	0	0	0	1	0	0	0	16799	1609	56	3	711	3	TULP1	6	35473838	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	84190	35473838	135641229	375	34754											
PPIL1	51645	broad.mit.edu	37	chr6	36842542	36842542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaggaatctgggggaattgCcgccatagcgaagccggcgg	9	5	16	11	4	1	0	0	0	1	0	1	3	1	2	4	5	3	0	4	5	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:36842542C>T	uc003omu.2	-	1	259	c.7G>A	c.(7-9)GCA>ACA	p.A3T	C6orf89_uc003omv.2_Intron	NM_016059	NP_057143	Q9Y3C6	PPIL1_HUMAN	peptidylprolyl isomerase-like 1	3					protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity	p.A3V(1)		ovary(1)	1						GGGGGAATTGCCGCCATAGCG	0.637													4	30					0	0	0.009096	0	0		T	36842542	T	T	36842542	3	4	45	1	0	0	0	0	1	0	0	0	12348	739	26	2	509	2	PPIL1	6	36842542	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1368704	36842542	134272525	376	34755											
DNAH8	1769	broad.mit.edu	37	chr6	38747811	38747811	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atagagcgtattcttcagtaCtatgtggctgaacttgatgc	10	14	10	7	1	2	3	1	2	1	1	2	3	2	3	0	1	4	3	0	1	5	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:38747811C>T	uc003ooe.1	+	13	2058	c.1458C>T	c.(1456-1458)TAC>TAT	p.Y486Y		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTCTTCAGTACTATGTGGCTG	0.328													8	35					0	0	0.006214	0	0		T	38747811	T	T	38747811	2	4	45	1	0	0	0	0	0	0	0	1	4613	576	20	4		4	DNAH8	6	38747811	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1905269	38747811	132367256	377	34756											
LRFN2	57497	broad.mit.edu	37	chr6	40399747	40399747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagacctccaccatggccGtggcctctccggcagcattg	6	8	12	15	2	1	1	0	0	1	1	3	2	2	1	6	4	1	2	6	4	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:40399747G>A	uc003oph.1	-	2	1571	c.1106C>T	c.(1105-1107)ACG>ATG	p.T369M		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	369	Extracellular (Potential).|Ig-like.					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					CACCATGGCCGTGGCCTCTCC	0.607													8	42					0	0	0.006214	0	0		A	40399747	A	A	40399747	3	1	45	1	0	0	0	0	1	0	0	0	8956	1145	40	1	1271	1	LRFN2	6	40399747	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1651936	40399747	130715320	378	34757											
USP49	25862	broad.mit.edu	37	chr6	41773935	41773935	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggaggatggagttcatgtAgcaggtgttgcccaggttgc	7	11	16	7	0	1	0	1	0	0	0	1	3	1	3	1	5	3	5	1	5	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:41773935A>C	uc003ori.2	-	4	1009	c.787T>G	c.(787-789)TAC>GAC	p.Y263D		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	263					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GAGTTCATGTAGCAGGTGTTG	0.607													6	131					0	0	0.001168	0	0		C	41773935	C	C	41773935	3	2	45	1	0	0	0	0	1	0	0	0	17106	420	15	5	1151	5	USP49	6	41773935	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1374188	41773935	129341132	379	34758											
XPO5	57510	broad.mit.edu	37	chr6	43515414	43515414	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctgatctgtacccacataCgcaatgaaagcatcaacatc	14	10	5	12	1	3	2	1	2	2	0	4	2	3	2	1	0	4	3	1	0	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:43515414C>T	uc003ovp.2	-	19	2302	c.2091G>A	c.(2089-2091)GCG>GCA	p.A697A		NM_020750	NP_065801	Q9HAV4	XPO5_HUMAN	exportin 5	697				A -> V (in Ref. 3; BAA86605).	gene silencing by RNA	cytosol|nucleoplasm	protein binding|tRNA binding			skin(2)|breast(1)|kidney(1)	4	all_cancers(18;2.08e-05)|Lung NSC(15;0.000907)|all_lung(25;0.00243)		all cancers(41;0.000321)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0524)			TACCCACATACGCAATGAAAG	0.478													12	50					0	0	0.001855	0	0		T	43515414	T	T	43515414	2	4	45	1	0	0	0	0	0	0	0	1	17473	523	19	1		1	XPO5	6	43515414	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1741479	43515414	127599653	380	34759											
TDRD6	221400	broad.mit.edu	37	chr6	46659451	46659451	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccatgtacagagtatttaAgtaaatcagtagggtacaag	15	11	10	5	0	1	1	1	0	0	1	1	1	1	1	1	1	3	5	1	1	8	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:46659451A>C	uc003oyj.2	+	1	3586	c.3586A>C	c.(3586-3588)AGT>CGT	p.S1196R	TDRD6_uc010jze.2_Missense_Mutation_p.S1190R	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1196					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			AGAGTATTTAAGTAAATCAGT	0.308													12	59					0	0	0.013537	0	0		C	46659451	C	C	46659451	3	2	45	1	0	0	0	0	1	0	0	0	15759	72	3	5	3588	5	TDRD6	6	46659451	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	3144037	46659451	124455616	381	34760											
PLA2G7	7941	broad.mit.edu	37	chr6	46679257	46679257	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatttcgtatatgtgtctcCtcctcttgtttcagggttct	4	20	7	10	1	5	0	2	0	3	0	8	0	6	0	2	1	0	3	2	1	2	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:46679257C>T	uc010jzf.2	-	7	908	c.639G>A	c.(637-639)GAG>GAA	p.E213E	PLA2G7_uc010jzg.1_Silent_p.E213E|PLA2G7_uc011dwd.1_Silent_p.E168E|PLA2G7_uc011dwe.1_Silent_p.E86E	NM_005084	NP_005075	Q13093	PAFA_HUMAN	phospholipase A2, group VII	213					inflammatory response|lipid catabolic process	extracellular space	1-alkyl-2-acetylglycerophosphocholine esterase activity|phospholipid binding				0			Lung(136;0.192)			TATGTGTCTCCTCCTCTTGTT	0.408													33	142					0	0	0.003271	0	0		T	46679257	T	T	46679257	2	4	45	1	0	0	0	0	0	0	0	1	12028	680	24	4		4	PLA2G7	6	46679257	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	19806	46679257	124435810	382	34761											
GPR111	222611	broad.mit.edu	37	chr6	47649996	47649996	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctctgttttcagtgggCtatggatgccctttggccat	5	15	11	10	0	2	0	1	0	1	0	3	1	2	1	2	3	1	3	2	3	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:47649996C>A	uc010jzj.1	+	6	1702	c.1701C>A	c.(1699-1701)GGC>GGA	p.G567G	GPR111_uc010jzk.1_Silent_p.G499G|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	567	Helical; Name=4; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						TTTCAGTGGGCTATGGATGCC	0.507													10	75					7.48243e-07	8.05712e-07	0.006214	1	0		A	47649996	A	A	47649996	2	1	45	1	0	0	0	0	0	0	0	1	6643	784	28	5		5	GPR111	6	47649996	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	970739	47649996	123465071	383	34762											
MCM3	4172	broad.mit.edu	37	chr6	52144285	52144285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagaatgacgtccacagagCgggggagctggccggctggg	8	4	18	11	3	0	3	0	1	0	2	1	4	1	4	3	5	2	2	3	5	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:52144285C>T	uc003pan.1	-	5	754	c.644G>A	c.(643-645)CGC>CAC	p.R215H	MCM3_uc011dwu.1_Missense_Mutation_p.R169H	NM_002388	NP_002379	P25205	MCM3_HUMAN	minichromosome maintenance complex component 3	215					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	alpha DNA polymerase:primase complex|centrosome|MCM complex|perinuclear region of cytoplasm	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)|lung(1)|skin(1)	3	Lung NSC(77;0.0931)					GTCCACAGAGCGGGGGAGCTG	0.562													29	106					0	0	0.008361	0	0		T	52144285	T	T	52144285	3	4	45	1	0	0	0	0	1	0	0	0	9405	768	27	1	1834	1	MCM3	6	52144285	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4494289	52144285	118970782	384	34763											
OOEP	441161	broad.mit.edu	37	chr6	74078937	74078937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaccctcacctcgggcaCgatgttctcggtgaaaccat	11	8	9	13	3	2	2	1	1	1	1	4	3	2	2	3	2	1	2	3	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:74078937C>T	uc003pgu.3	-	2	362	c.362G>A	c.(361-363)CGT>CAT	p.R121H	OOEP_uc003pgv.3_Missense_Mutation_p.R66H	NM_001080507	NP_001073976	A6NGQ2	OOEP_HUMAN	oocyte expressed protein homolog	121						cytoplasm					0						ACCTCGGGCACGATGTTCTCG	0.557													5	48					0	0	0.001984	0	0		T	74078937	T	T	74078937	3	4	45	1	0	0	0	0	1	0	0	0	10889	536	19	1	95	1	OOEP	6	74078937	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	21934652	74078937	97036130	385	34764											
IBTK	25998	broad.mit.edu	37	chr6	82950101	82950101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acaatgactggagagaaaggCcttaatctggttttcgctcc	11	11	10	9	1	1	2	0	1	1	1	3	4	2	3	2	3	0	2	2	3	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:82950101C>T	uc003pjl.1	-	2	630	c.103G>A	c.(103-105)GCC>ACC	p.A35T	IBTK_uc011dyv.1_Missense_Mutation_p.A35T|IBTK_uc011dyw.1_Missense_Mutation_p.A35T|IBTK_uc010kbi.1_5'UTR|IBTK_uc003pjm.2_Missense_Mutation_p.A35T	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	35					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		GAGAGAAAGGCCTTAATCTGG	0.468													32	153					0	0	0.003755	0	0		T	82950101	T	T	82950101	3	4	45	1	0	0	0	0	1	0	0	0	7492	739	26	2	4070	2	IBTK	6	82950101	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	8871164	82950101	88164966	386	34765											
ASCC3	10973	broad.mit.edu	37	chr6	101053556	101053556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactgcggcctcccagcacGccccatcatctggaggacat	9	6	10	16	2	2	0	1	0	1	0	3	3	3	2	4	3	3	1	4	3	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:101053556G>A	uc003pqk.2	-	33	5394	c.5065C>T	c.(5065-5067)CGT>TGT	p.R1689C		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1689	Helicase C-terminal 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CTCCCAGCACGCCCCATCATC	0.383													8	43					0	0	0.006214	0	0		A	101053556	A	A	101053556	3	1	45	1	0	0	0	0	1	0	0	0	1034	1087	38	1	1583	1	ASCC3	6	101053556	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	18103455	101053556	70061511	387	34766											
GRIK2	2898	broad.mit.edu	37	chr6	102266333	102266333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagattccttatccaatcGttctttgattgttaccacca	10	15	4	12	1	1	2	0	1	1	1	4	2	3	2	4	0	1	2	4	0	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:102266333G>A	uc003pqp.3	+	9	1541	c.1292G>A	c.(1291-1293)CGT>CAT	p.R431H	GRIK2_uc003pqn.2_Missense_Mutation_p.R431H|GRIK2_uc003pqo.3_Missense_Mutation_p.R431H|GRIK2_uc010kcw.2_Missense_Mutation_p.R431H	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	431	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	TTATCCAATCGTTCTTTGATT	0.368													7	22					0	0	0.00308	0	0		A	102266333	A	A	102266333	3	1	45	1	0	0	0	0	1	0	0	0	6790	1145	40	1	1326	1	GRIK2	6	102266333	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1212777	102266333	68848734	388	34767											
BEND3	57673	broad.mit.edu	37	chr6	107390838	107390838	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcggcgacccggccgctcGccctcgaagctgtcctccac	5	5	12	19	6	0	0	0	0	0	0	4	3	2	0	5	2	2	2	5	2	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:107390838G>A	uc003prs.2	-	5	2207	c.1557C>T	c.(1555-1557)GGC>GGT	p.G519G		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	519										ovary(3)	3						CCGGCCGCTCGCCCTCGAAGC	0.642													8	30					0	0	0.00308	0	0		A	107390838	A	A	107390838	2	1	45	1	0	0	0	0	0	0	0	1	1400	1074	38	1		1	BEND3	6	107390838	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5124505	107390838	63724229	389	34768											
GPR6	2830	broad.mit.edu	37	chr6	110300547	110300547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtgaatccgtgggacgtgCtcctgtgcgtgtcggggaca	5	9	17	10	5	0	1	0	1	0	0	3	3	2	3	2	4	2	1	2	4	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:110300547C>T	uc011eaw.1	+	2	412	c.232C>T	c.(232-234)CTC>TTC	p.L78F	GPR6_uc011eav.1_Missense_Mutation_p.L93F|GPR6_uc003ptu.2_Missense_Mutation_p.L78F	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	78	Helical; Name=1; (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		GTGGGACGTGCTCCTGTGCGT	0.677													32	137					0	0	0.012213	0	0		T	110300547	T	T	110300547	3	4	45	1	0	0	0	0	1	0	0	0	6716	797	28	2	234	2	GPR6	6	110300547	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2909709	110300547	60814520	390	34769											
KPNA5	3841	broad.mit.edu	37	chr6	117010486	117010486	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttctccttcctttaagatgCcatggctagtccagggaaag	9	13	9	10	0	1	1	0	0	1	1	4	2	3	2	4	2	1	1	4	2	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:117010486C>A	uc003pxh.2	+	2	139	c.8C>A	c.(7-9)GCC>GAC	p.A3D		NM_002269	NP_002260	O15131	IMA5_HUMAN	karyopherin alpha 5	Error:Variant_position_missing_in_O15131_after_alignment					NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding|protein transporter activity			breast(3)|skin(1)	4		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0298)|all cancers(137;0.0461)|OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.212)		CTTTAAGATGCCATGGCTAGT	0.368													33	162					3.62531e-18	4.14574e-18	0.004289	1	0		A	117010486	A	A	117010486	3	1	45	1	0	0	0	0	1	0	0	0	8449	739	26	5	14	5	KPNA5	6	117010486	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6709939	117010486	54104581	391	34770											
GPRC6A	222545	broad.mit.edu	37	chr6	117130556	117130556	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaacctatgacagccttaActcttggcatgtagctggaa	12	10	9	10	0	1	2	0	1	1	1	1	3	1	3	2	2	4	3	2	2	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:117130556A>C	uc003pxj.1	-	2	441	c.419T>G	c.(418-420)GTT>GGT	p.V140G	GPRC6A_uc003pxk.1_Missense_Mutation_p.V140G|GPRC6A_uc003pxl.1_Missense_Mutation_p.V140G	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	140	Extracellular (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		GACAGCCTTAACTCTTGGCAT	0.448													15	69					0	0	0.003163	0	0		C	117130556	C	C	117130556	3	2	45	1	0	0	0	0	1	0	0	0	6744	43	2	5	2381	5	GPRC6A	6	117130556	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	120070	117130556	53984511	392	34771											
RFX6	222546	broad.mit.edu	37	chr6	117248667	117248667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacacaggagctgccagctGccaaggagcaacactgcctc	12	4	10	15	0	0	0	0	0	0	0	1	2	0	2	3	2	8	3	3	2	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:117248667G>A	uc003pxm.2	+	17	2426	c.2363G>A	c.(2362-2364)TGC>TAC	p.C788Y		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	788					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						GCTGCCAGCTGCCAAGGAGCA	0.418													5	61					0	0	0.001168	0	0		A	117248667	A	A	117248667	3	1	45	1	0	0	0	0	1	0	0	0	13292	1319	46	2	2429	2	RFX6	6	117248667	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	118111	117248667	53866400	393	34772											
CLVS2	134829	broad.mit.edu	37	chr6	123319047	123319047	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatatggtcatcaccaggcCggacattggctttctgcgca	8	10	12	11	2	3	0	2	0	1	0	3	2	3	2	2	5	1	2	2	5	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:123319047C>A	uc003pzi.1	+	2	994	c.125C>A	c.(124-126)CCG>CAG	p.P42Q		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	42					lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						ATCACCAGGCCGGACATTGGC	0.567													5	90					0.000602214	0.000624948	0.000602	1	0		A	123319047	A	A	123319047	3	1	45	1	0	0	0	0	1	0	0	0	3575	652	23	5	127	5	CLVS2	6	123319047	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6070380	123319047	47796020	394	34773											
NKAIN2	154215	broad.mit.edu	37	chr6	124676486	124676486	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatttggaggctggggaccTctcaaaggtaatttacatct	10	13	10	8	0	2	0	1	0	2	0	3	2	2	2	1	5	1	2	1	5	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:124676486T>C	uc003pzo.2	+	3	543	c.266T>C	c.(265-267)CTC>CCC	p.L89P	NKAIN2_uc003pzn.1_Missense_Mutation_p.L89P|NKAIN2_uc003pzp.2_Missense_Mutation_p.L88P|NKAIN2_uc010keq.2_Missense_Mutation_p.L89P|NKAIN2_uc010ker.2_5'UTR	NM_001040214	NP_001035304	Q5VXU1	NKAI2_HUMAN	T-cell lymphoma breakpoint-associated target 1	89						integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)		GCTGGGGACCTCTCAAAGGTA	0.438													3	123					0	0	0.000602	0	0		C	124676486	C	C	124676486	3	2	45	1	0	0	0	0	1	0	0	0	10455	1551	54	3	276	3	NKAIN2	6	124676486	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1357439	124676486	46438581	395	34774											
C6orf174	387104	broad.mit.edu	37	chr6	127796581	127796581	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctcgtgctcccggatgcGgctgccgtcgtcctcctcgt	2	10	12	17	6	0	0	0	0	0	0	6	1	3	1	4	2	4	3	4	2	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:127796581G>T	uc003qbd.2	-	6	3455	c.2590C>A	c.(2590-2592)CGC>AGC	p.R864S	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	864						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		TCCCGGATGCGGCTGCCGTCG	0.642													22	95					0.000295444	0.000308653	0.014323	1	0		T	127796581	T	T	127796581	3	4	45	1	0	0	0	0	1	0	0	0	2348	1116	39	5	261	5	C6orf174	6	127796581	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3120095	127796581	43318486	396	34775											
TMEM200A	114801	broad.mit.edu	37	chr6	130761596	130761596	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aactggtggagtgataactgGcctggccgccttgaaaaggc	10	8	14	9	1	0	2	0	2	0	0	0	3	0	3	3	5	2	0	3	5	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:130761596G>T	uc003qca.2	+	3	900	c.29G>T	c.(28-30)GGC>GTC	p.G10V	TMEM200A_uc010kfh.2_Missense_Mutation_p.G10V|TMEM200A_uc010kfi.2_Missense_Mutation_p.G10V|TMEM200A_uc003qcb.2_Missense_Mutation_p.G10V	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	10	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		GTGATAACTGGCCTGGCCGCC	0.488													7	164					2.0095e-06	2.15556e-06	0.001984	1	0		T	130761596	T	T	130761596	3	4	45	1	0	0	0	0	1	0	0	0	16148	1203	42	5	31	5	TMEM200A	6	130761596	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2965015	130761596	40353471	397	34776											
TMEM200A	114801	broad.mit.edu	37	chr6	130762913	130762913	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttgcttgtgccccaagttgCcatcaaaaaggactttacca	11	11	8	11	0	1	0	1	0	0	0	1	1	1	1	4	1	4	3	4	1	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:130762913C>G	uc003qca.2	+	3	2217	c.1346C>G	c.(1345-1347)GCC>GGC	p.A449G	TMEM200A_uc010kfh.2_Missense_Mutation_p.A449G|TMEM200A_uc010kfi.2_Missense_Mutation_p.A449G|TMEM200A_uc003qcb.2_Missense_Mutation_p.A449G	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	449	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		CCCCAAGTTGCCATCAAAAAG	0.393													10	77					0	0	0.010729	0	0		G	130762913	G	G	130762913	3	3	45	1	0	0	0	0	1	0	0	0	16148	739	26	5	1348	5	TMEM200A	6	130762913	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1317	130762913	40352154	398	34777											
ENPP1	5167	broad.mit.edu	37	chr6	132176075	132176075	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattacccaggtttgaaacGcctcctaccctcttattttc	8	15	4	14	1	2	1	1	1	1	0	4	1	3	1	4	1	3	1	4	1	4	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:132176075G>A	uc011ecf.1	+	6	647	c.627G>A	c.(625-627)ACG>ACA	p.T209T		NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	209	Phosphodiesterase.|Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	GGTTTGAAACGCCTCCTACCC	0.393													5	106					0	0	0.000602	0	0		A	132176075	A	A	132176075	2	1	45	1	0	0	0	0	0	0	0	1	5137	1074	38	1		1	ENPP1	6	132176075	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1413162	132176075	38938992	399	34778											
MAP7	9053	broad.mit.edu	37	chr6	136698972	136698972	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcaggagtctgttaacaacGctgctctcccatgggctgag	8	10	12	11	1	3	1	1	1	2	0	4	2	3	2	1	2	3	4	1	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:136698972G>A	uc003qgz.2	-	7	918	c.672C>T	c.(670-672)AGC>AGT	p.S224S	MAP7_uc011edf.1_Silent_p.S209S|MAP7_uc011edg.1_Silent_p.S246S|MAP7_uc010kgu.2_Silent_p.S246S|MAP7_uc011edh.1_Silent_p.S209S|MAP7_uc010kgv.2_Silent_p.S246S|MAP7_uc010kgs.2_Silent_p.S78S|MAP7_uc011edi.1_Silent_p.S78S|MAP7_uc010kgq.1_Silent_p.S130S|MAP7_uc003qha.1_Silent_p.S187S|MAP7_uc010kgr.2_Silent_p.S78S|MAP7_uc010kgt.2_Silent_p.S246S	NM_003980	NP_003971	Q14244	MAP7_HUMAN	microtubule-associated protein 7	224					establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)		TGTTAACAACGCTGCTCTCCC	0.502													14	71					0	0	0.003163	0	0		A	136698972	A	A	136698972	2	1	45	1	0	0	0	0	0	0	0	1	9284	1078	38	1		1	MAP7	6	136698972	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4522897	136698972	34416095	400	34779											
MAP7	9053	broad.mit.edu	37	chr6	136742893	136742893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaaattgcagaggcagggcGgctggaggcatttttcttat	9	12	14	6	1	1	2	0	1	1	1	1	3	1	3	0	5	1	4	0	5	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:136742893G>A	uc003qgz.2	-	2	358	c.112C>T	c.(112-114)CGC>TGC	p.R38C	MAP7_uc011edf.1_Missense_Mutation_p.R23C|MAP7_uc011edg.1_Missense_Mutation_p.R60C|MAP7_uc010kgu.2_Missense_Mutation_p.R60C|MAP7_uc011edh.1_Missense_Mutation_p.R60C|MAP7_uc010kgv.2_Missense_Mutation_p.R60C|MAP7_uc010kgs.2_5'UTR|MAP7_uc011edi.1_5'UTR|MAP7_uc010kgq.1_Missense_Mutation_p.R38C|MAP7_uc003qha.1_Missense_Mutation_p.R38C|MAP7_uc010kgr.2_Intron|MAP7_uc010kgt.2_Missense_Mutation_p.R60C	NM_003980	NP_003971	Q14244	MAP7_HUMAN	microtubule-associated protein 7	38					establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)		GAGGCAGGGCGGCTGGAGGCA	0.378													22	116					0	0	0.004656	0	0		A	136742893	A	A	136742893	3	1	45	1	0	0	0	0	1	0	0	0	9284	1116	39	1	2205	1	MAP7	6	136742893	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	43921	136742893	34372174	401	34780											
TNFAIP3	7128	broad.mit.edu	37	chr6	138202374	138202374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccaagcagcgttgccgggCccccgcctgtgatcattttg	5	9	11	16	3	1	1	1	1	0	0	1	1	1	1	6	1	3	2	6	1	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:138202374C>T	uc003qhr.2	+	9	2357	c.2291C>T	c.(2290-2292)GCC>GTC	p.A764V	TNFAIP3_uc003qhs.2_Missense_Mutation_p.A764V	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	764	Interaction with NAF1 (By similarity).|A20-type 7.				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)|p.A764fs*28(1)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		CGTTGCCGGGCCCCCGCCTGT	0.607			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								24	126					0	0	0.00278	0	0		T	138202374	T	T	138202374	3	4	45	1	0	0	0	0	1	0	0	0	16299	739	26	2	2321	2	TNFAIP3	6	138202374	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1459481	138202374	32912693	402	34781											
GRM1	2911	broad.mit.edu	37	chr6	146351044	146351044	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactctctgatttccattCgagatgagaaggatgggatc	10	11	13	7	1	1	3	0	2	1	2	5	8	2	6	1	3	0	0	1	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:146351044C>A	uc010khw.1	+	2	861	c.391C>A	c.(391-393)CGA>AGA	p.R131R	GRM1_uc010khu.1_Silent_p.R131R|GRM1_uc010khv.1_Silent_p.R131R|GRM1_uc003qll.2_Silent_p.R131R|GRM1_uc011edz.1_Silent_p.R131R|GRM1_uc011eea.1_Silent_p.R131R	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	131	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GATTTCCATTCGAGATGAGAA	0.582													14	62					2.32078e-09	2.55797e-09	0.003163	1	0		A	146351044	A	A	146351044	2	1	45	1	0	0	0	0	0	0	0	1	6812	876	31	5		5	GRM1	6	146351044	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	8148670	146351044	24764023	403	34782											
PLEKHG1	57480	broad.mit.edu	37	chr6	151054849	151054849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatagtgaccgacccgtcaGcttcggttccacatcatcct	8	11	8	14	3	2	2	2	2	0	0	5	3	4	2	4	1	1	2	4	1	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:151054849G>A	uc003qny.1	+	3	344	c.32G>A	c.(31-33)AGC>AAC	p.S11N	PLEKHG1_uc011eel.1_Missense_Mutation_p.S51N|PLEKHG1_uc011eem.1_Missense_Mutation_p.S70N|PLEKHG1_uc003qnz.2_Missense_Mutation_p.S11N	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	11					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		CGACCCGTCAGCTTCGGTTCC	0.527													20	116					0	0	0.010504	0	0		A	151054849	A	A	151054849	3	1	45	1	0	0	0	0	1	0	0	0	12087	971	34	2	34	2	PLEKHG1	6	151054849	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4703805	151054849	20060218	404	34783											
C6orf211	79624	broad.mit.edu	37	chr6	151789994	151789994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatatgctgaactacagaagGcacatttaattttattcaag	15	14	6	6	0	1	2	1	1	0	1	1	2	1	2	0	1	3	2	0	1	8	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:151789994G>A	uc003qok.1	+	5	1334	c.1075G>A	c.(1075-1077)GCA>ACA	p.A359T	C6orf211_uc011ees.1_Missense_Mutation_p.A240T	NM_024573	NP_078849	Q9H993	CF211_HUMAN	hypothetical protein LOC79624	359							protein binding				0			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)		ACTACAGAAGGCACATTTAAT	0.403													18	95					0	0	0.014323	0	0		A	151789994	A	A	151789994	3	1	45	1	0	0	0	0	1	0	0	0	2357	1203	42	2	1093	2	C6orf211	6	151789994	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	735145	151789994	19325073	405	34784											
SYNE1	23345	broad.mit.edu	37	chr6	152734552	152734552	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggtttatctccctgtcaacTtcaggtgcaaaagctacatc	10	12	7	12	1	3	0	2	0	1	0	5	0	3	0	1	2	4	3	1	2	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:152734552T>G	uc010kiw.2	-	42	6767	c.6165A>C	c.(6163-6165)GAA>GAC	p.E2055D	SYNE1_uc003qot.3_Missense_Mutation_p.E2062D|SYNE1_uc003qou.3_Missense_Mutation_p.E2055D|SYNE1_uc010kjb.1_Missense_Mutation_p.E2038D	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2055	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CCCTGTCAACTTCAGGTGCAA	0.403										HNSCC(10;0.0054)			27	118					0	0	0.009535	0	0		G	152734552	G	G	152734552	3	3	45	1	0	0	0	0	1	0	0	0	15470	1606	56	5	20721	5	SYNE1	6	152734552	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	944558	152734552	18380515	406	34785											
TULP4	56995	broad.mit.edu	37	chr6	158900838	158900838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcgaggctgttgatggcatCaggaccagccctgtacgtgg	7	10	14	10	2	1	1	1	1	0	0	2	3	1	2	2	4	2	4	2	4	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:158900838C>T	uc003qrf.2	+	7	2439	c.1082C>T	c.(1081-1083)TCA>TTA	p.S361L	TULP4_uc011efo.1_Missense_Mutation_p.S361L|TULP4_uc003qrg.2_Missense_Mutation_p.S361L	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	361					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		TTGATGGCATCAGGACCAGCC	0.602													12	75					0	0	0.00245	0	0		T	158900838	T	T	158900838	3	4	45	1	0	0	0	0	1	0	0	0	16802	838	29	4	1108	4	TULP4	6	158900838	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6166286	158900838	12214229	407	34786											
AGPAT4	56895	broad.mit.edu	37	chr6	161560486	161560486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggatgaagctggccagcGtcagggaagacccgctcctg	9	5	15	12	3	1	2	1	1	0	1	2	5	2	4	3	3	2	2	3	3	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:161560486G>A	uc003qtr.1	-	8	1237	c.1010C>T	c.(1009-1011)ACG>ATG	p.T337M	AGPAT4_uc003qts.1_Missense_Mutation_p.T197M|AGPAT4_uc011egb.1_Missense_Mutation_p.T175M	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	337					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		GCTGGCCAGCGTCAGGGAAGA	0.622													22	151					0	0	0.012319	0	0		A	161560486	A	A	161560486	3	1	45	1	0	0	0	0	1	0	0	0	389	1145	40	1	134	1	AGPAT4	6	161560486	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2659648	161560486	9554581	408	34787											
C6orf118	168090	broad.mit.edu	37	chr6	165715715	165715715	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagggtcttcactcctggCgtctcgcagtgcttcagatt	6	12	10	13	2	4	1	2	0	2	1	6	1	5	1	1	2	1	2	1	2	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:165715715C>T	uc003qum.3	-	2	132	c.96G>A	c.(94-96)ACG>ACA	p.T32T	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	32											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		TCACTCCTGGCGTCTCGCAGT	0.522													14	104					0	0	0.00245	0	0		T	165715715	T	T	165715715	2	4	45	1	0	0	0	0	0	0	0	1	2326	755	27	1		1	C6orf118	6	165715715	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4155229	165715715	5399352	409	34788											
GPR31	2853	broad.mit.edu	37	chr6	167570859	167570859	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggagttctgggcggccTcagagatgagcaagcccggg	7	7	18	9	2	2	2	1	1	1	1	2	4	2	3	2	5	2	2	2	5	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:167570859T>C	uc011egq.1	-	1	461	c.461A>G	c.(460-462)GAG>GGG	p.E154G		NM_005299	NP_005290	O00270	GPR31_HUMAN	G protein-coupled receptor 31	154	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;4.81e-20)|BRCA - Breast invasive adenocarcinoma(81;4.45e-06)|GBM - Glioblastoma multiforme(31;0.00492)		CTGGGCGGCCTCAGAGATGAG	0.622													15	116					0	0	0.00499	0	0		C	167570859	C	C	167570859	3	2	45	1	0	0	0	0	1	0	0	0	6702	1551	54	3	501	3	GPR31	6	167570859	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1855144	167570859	3544208	410	34789											
MLLT4	4301	broad.mit.edu	37	chr6	168289993	168289993	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttacaaatcttcagggaatgGccaagtgacaaaggtagtaa	16	9	10	6	0	2	1	1	1	1	0	2	2	2	2	1	3	1	2	1	3	7	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:168289993G>A	uc003qwd.2	+	7	1135	c.993G>A	c.(991-993)TGG>TGA	p.W331*	MLLT4_uc003qwb.1_Nonsense_Mutation_p.W331*|MLLT4_uc003qwc.1_Nonsense_Mutation_p.W332*|MLLT4_uc003qwf.2_Nonsense_Mutation_p.W32*	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	332	Ras-associating 2.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		TCAGGGAATGGCCAAGTGACA	0.398			T	MLL	AL								7	145					0	0	0.001984	0	0		A	168289993	A	A	168289993	4	1	45	1	0	0	0	0	0	1	0	0	9647	1212	42	2	1022	2	MLLT4	6	168289993	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	719134	168289993	2825074	411	34790											
TBP	6908	broad.mit.edu	37	chr6	170871040	170871040	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagcagcagcagcagcaAcagcaacagcagcagcagca	16	0	11	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	11	0	0	2	0	rs10592950		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr6:170871040A>G	uc003qxt.2	+	3	448	c.216A>G	c.(214-216)CAA>CAG	p.Q72Q	TBP_uc003qxu.2_Silent_p.Q72Q|TBP_uc011ehf.1_Silent_p.Q52Q|TBP_uc011ehg.1_Silent_p.Q72Q	NM_003194	NP_003185	P20226	TBP_HUMAN	TATA box binding protein	72	Poly-Gln.				cell death|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription from RNA polymerase III promoter|viral reproduction	transcription factor TFIIA complex|transcription factor TFIID complex	repressing transcription factor binding|transcription regulatory region DNA binding	p.Q72del(1)		ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;1.07e-22)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00591)		agcagcagcaacagcaacagc	0.154													3	56					0	0	0.004672	0	0		G	170871040	G	G	170871040	2	3	45	1	0	0	0	0	0	0	0	1	15669	40	2	3		3	TBP	6	170871040	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2581047	170871040	244027	412	34791											
SUN1	23353	broad.mit.edu	37	chr7	883121	883121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccgcggcccccgggcccGtgtcgagagtttattctagg	5	8	13	15	5	1	1	0	0	1	1	2	2	1	1	5	3	0	1	5	3	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:883121G>A	uc011jvp.1	+	6	701	c.622G>A	c.(622-624)GTG>ATG	p.V208M	SUN1_uc010ksa.1_Missense_Mutation_p.V229M|SUN1_uc003sje.1_Missense_Mutation_p.V208M|SUN1_uc003sjf.2_Missense_Mutation_p.V158M|SUN1_uc011jvq.1_Intron|SUN1_uc003sjg.2_Missense_Mutation_p.V19M	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	208	Nuclear.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						CCCCGGGCCCGTGTCGAGAGT	0.542													9	279					0	0	0.008291	0	0		A	883121	A	A	883121	3	1	45	1	0	0	0	0	1	0	0	0	15416	1145	40	1	707	1	SUN1	7	883121	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08		883121	158255542	413	34792											
C7orf50	84310	broad.mit.edu	37	chr7	1037358	1037358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcccgcatcagggcttccGccttctgcaccgtcagctct	4	10	9	18	3	4	0	2	0	2	0	6	0	6	0	4	1	2	5	4	1	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:1037358G>A	uc003sju.2	-	5	558	c.488C>T	c.(487-489)GCG>GTG	p.A163V	C7orf50_uc003sjs.2_RNA|C7orf50_uc011jvt.1_Missense_Mutation_p.A163V|C7orf50_uc011jvu.1_Missense_Mutation_p.A163V	NM_032350	NP_115726	Q9BRJ6	CG050_HUMAN	hypothetical protein LOC84310	163							protein binding				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0216)|OV - Ovarian serous cystadenocarcinoma(56;1.3e-15)		CAGGGCTTCCGCCTTCTGCAC	0.677													4	92					0	0	0.009096	0	0		A	1037358	A	A	1037358	3	1	45	1	0	0	0	0	1	0	0	0	2402	1087	38	1	100	1	C7orf50	7	1037358	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	154237	1037358	158101305	414	34793											
INTS1	26173	broad.mit.edu	37	chr7	1511207	1511207	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagccccatccagctcacCgagaagaagctcaggatctc	11	6	8	16	1	4	2	3	0	1	2	6	4	5	3	4	1	3	2	4	1	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:1511207C>T	uc003skn.2	-	45	6356	c.6255G>A	c.(6253-6255)TCG>TCA	p.S2085S	INTS1_uc003skm.1_Silent_p.S222S	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	2085					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		TCCAGCTCACCGAGAAGAAGC	0.632													15	76					0	0	0.003163	0	0		T	1511207	T	T	1511207	2	4	45	1	0	0	0	0	0	0	0	1	7791	666	23	1		1	INTS1	7	1511207	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	473849	1511207	157627456	415	34794											
CARD11	84433	broad.mit.edu	37	chr7	2984023	2984023	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggttagcagctccacgcgCgtcagcgtcatctgcttctt	7	11	10	13	4	4	0	2	0	2	0	5	0	5	0	1	1	4	4	1	1	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:2984023C>T	uc003smv.2	-	5	911	c.507G>A	c.(505-507)ACG>ACA	p.T169T		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	169	Potential.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GCTCCACGCGCGTCAGCGTCA	0.572			Mis		DLBCL								25	103					0	0	0.00333	0	0		T	2984023	T	T	2984023	2	4	45	1	0	0	0	0	0	0	0	1	2648	755	27	1		1	CARD11	7	2984023	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1472816	2984023	156154640	416	34795											
KIAA0415	9907	broad.mit.edu	37	chr7	4823848	4823848	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagccgggccccgtcacCgaggtggacggggcggtagc	6	3	17	15	5	1	0	1	0	0	0	1	2	1	1	5	6	2	1	5	6	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:4823848C>T	uc003sne.2	+	6	719	c.636C>T	c.(634-636)ACC>ACT	p.T212T	KIAA0415_uc010ksp.2_RNA	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	212					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		GCCCCGTCACCGAGGTGGACG	0.657													4	12					0	0	0.009096	0	0		T	4823848	T	T	4823848	2	4	45	1	0	0	0	0	0	0	0	1	8191	639	23	1		1	KIAA0415	7	4823848	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1839825	4823848	154314815	417	34796											
MIOS	54468	broad.mit.edu	37	chr7	7612723	7612723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccttgctggtatgcatcGtaacctagctatatttgatc	8	16	7	10	1	1	1	0	1	1	0	4	1	1	1	2	1	4	5	2	1	5	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:7612723G>A	uc003srf.2	+	4	925	c.617G>A	c.(616-618)CGT>CAT	p.R206H	MIOS_uc010ktp.1_Missense_Mutation_p.R206H	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	206	WD 3.										0						GGTATGCATCGTAACCTAGCT	0.413													13	42					0	0	0.00245	0	0		A	7612723	A	A	7612723	3	1	45	1	0	0	0	0	1	0	0	0	9607	1145	40	1	619	1	MIOS	7	7612723	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2788875	7612723	151525940	418	34797											
RPA3	6119	broad.mit.edu	37	chr7	7680018	7680018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagcatgccggcgttgatgCgcgacctgggcaagtccatc	7	8	13	13	4	0	1	0	1	0	0	2	2	1	1	3	2	3	3	3	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:7680018C>T	uc003sri.2	-	5	1204	c.32G>A	c.(31-33)CGC>CAC	p.R11H	RPA3_uc003srh.2_5'Flank	NM_002947	NP_002938	P35244	RFA3_HUMAN	replication protein A3, 14kDa	11					cell cycle checkpoint|DNA recombinase assembly|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	cytoplasm|DNA replication factor A complex|nucleoplasm	protein binding|single-stranded DNA binding			large_intestine(1)	1		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.202)		GGCGTTGATGCGCGACCTGGG	0.592								Direct_reversal_of_damage|NER					4	119					0	0	0.000602	0	0		T	7680018	T	T	7680018	3	4	45	1	0	0	0	0	1	0	0	0	13563	768	27	1	349	1	RPA3	7	7680018	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	67295	7680018	151458645	419	34798											
TMEM106B	54664	broad.mit.edu	37	chr7	12263918	12263918	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggattggctgtgtttttcctTttccctcgctctatcgacgt	3	18	9	11	3	1	0	0	0	1	0	5	2	3	1	2	2	0	3	2	2	1	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:12263918T>C	uc011jxk.1	+	5	748	c.348T>C	c.(346-348)CTT>CTC	p.L116L	TMEM106B_uc003ssh.2_Silent_p.L116L	NM_018374	NP_060844	Q9NUM4	T106B_HUMAN	transmembrane protein 106B	116	Helical; (Potential).					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (126;0.185)		TGTTTTTCCTTTTCCCTCGCT	0.378													8	254					0	0	0.004482	0	0		C	12263918	C	C	12263918	2	2	45	1	0	0	0	0	0	0	0	1	16046	1828	64	3		3	TMEM106B	7	12263918	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	4583900	12263918	146874745	420	34799											
DNAH11	8701	broad.mit.edu	37	chr7	21640745	21640745	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagcttgttaaccataattAagaaatggagctggatgttt	13	14	10	4	0	0	2	0	1	0	1	0	4	0	4	1	2	3	4	1	2	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:21640745A>G	uc003svc.2	+	17	3404	c.3373A>G	c.(3373-3375)AAG>GAG	p.K1125E		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1125	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AACCATAATTAAGAAATGGAG	0.348									Kartagener_syndrome				6	85					0	0	0.001984	0	0		G	21640745	G	G	21640745	3	3	45	1	0	0	0	0	1	0	0	0	4605	363	13	3	3439	3	DNAH11	7	21640745	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	9376827	21640745	137497918	421	34800											
SKAP2	8935	broad.mit.edu	37	chr7	26729927	26729927	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtgatggacactatccTgactcatcttcctttgttct	7	16	8	10	0	3	2	1	2	2	0	5	3	5	3	2	2	0	1	2	2	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:26729927T>C	uc003syc.2	-	10	1144	c.851A>G	c.(850-852)CAG>CGG	p.Q284R	SKAP2_uc011jzi.1_Missense_Mutation_p.Q112R|SKAP2_uc011jzj.1_Missense_Mutation_p.Q269R	NM_003930	NP_003921	O75563	SKAP2_HUMAN	src kinase associated phosphoprotein 2	284					B cell activation|cell junction assembly|protein complex assembly|signal transduction	cytosol|plasma membrane	SH3/SH2 adaptor activity			pancreas(1)	1						GACACTATCCTGACTCATCTT	0.393													17	82					0	0	0.012319	0	0		C	26729927	C	C	26729927	3	2	45	1	0	0	0	0	1	0	0	0	14381	1580	55	3	240	3	SKAP2	7	26729927	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	5089182	26729927	132408736	422	34801											
HOXA1	3198	broad.mit.edu	37	chr7	27134370	27134370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggtagtgaagttggtgcGcaccgcgttgggttgaccca	6	11	15	9	3	0	2	0	2	0	0	0	2	0	2	2	3	1	5	2	3	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:27134370G>A	uc003sye.2	-	2	791	c.697C>T	c.(697-699)CGC>TGC	p.R233C	HOXA1_uc003syd.2_3'UTR|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	233	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3						AAGTTGGTGCGCACCGCGTTG	0.537													25	103					0	0	0.008361	0	0		A	27134370	A	A	27134370	3	1	45	1	0	0	0	0	1	0	0	0	7304	1087	38	1	314	1	HOXA1	7	27134370	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	404443	27134370	132004293	423	34802											
ELMO1	9844	broad.mit.edu	37	chr7	37136224	37136224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggaaataagtatacttacGcaactcgcccactttcaaga	14	10	7	10	2	1	1	1	0	0	1	2	2	1	2	1	1	3	2	1	1	7	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:37136224G>A	uc003tfk.1	-	15	1607	c.1300C>T	c.(1300-1302)CCT>TCT	p.P434S	ELMO1_uc011kbc.1_Missense_Mutation_p.P338S|ELMO1_uc010kxg.1_Missense_Mutation_p.P434S	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	434	ELMO.				actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						GTATACTTACGCAACTCGCCC	0.498													4	75					0	0	0.009096	0	0		A	37136224	A	A	37136224	3	1	45	1	0	0	0	0	1	0	0	0	5073	1101	38	1	915	1	ELMO1	7	37136224	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	10001854	37136224	122002439	424	34803											
ADCY1	107	broad.mit.edu	37	chr7	45699707	45699707	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacgaggtagaaccgggttaCggacatgagaggaacagttt	13	8	14	6	3	0	2	0	1	0	2	0	6	0	4	1	4	4	3	1	4	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:45699707C>T	uc003tne.3	+	7	1392	c.1374C>T	c.(1372-1374)TAC>TAT	p.Y458Y	ADCY1_uc003tnd.2_Silent_p.Y233Y	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	458	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	AACCGGGTTACGGACATGAGA	0.493													17	81					0	0	0.007413	0	0		T	45699707	T	T	45699707	2	4	45	1	0	0	0	0	0	0	0	1	292	547	19	1		1	ADCY1	7	45699707	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	8563483	45699707	113438956	425	34804											
ADCY1	107	broad.mit.edu	37	chr7	45725766	45725766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatcctgctctccgggctcaCcacgtcctacatcctcgttc	5	11	7	18	3	2	0	1	0	1	0	8	1	5	0	5	1	2	3	5	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:45725766C>T	uc003tne.3	+	13	2297	c.2279C>T	c.(2278-2280)ACC>ATC	p.T760I		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	760	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TCCGGGCTCACCACGTCCTAC	0.567													7	123					0	0	0.001984	0	0		T	45725766	T	T	45725766	3	4	45	1	0	0	0	0	1	0	0	0	292	507	18	4	2329	4	ADCY1	7	45725766	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	26059	45725766	113412897	426	34805											
ABCA13	154664	broad.mit.edu	37	chr7	48285466	48285466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tattaatcttttagatgttgGcgaagaatgctgtctgcccg	9	15	10	7	2	2	2	0	0	2	2	2	3	2	2	1	1	2	2	1	1	5	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:48285466G>A	uc003toq.2	+	13	1523	c.1498G>A	c.(1498-1500)GCG>ACG	p.A500T	ABCA13_uc010kyr.2_Missense_Mutation_p.A3T	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	500					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TTAGATGTTGGCGAAGAATGC	0.448													4	29					0	0	0.000602	0	0		A	48285466	A	A	48285466	3	1	45	1	0	0	0	0	1	0	0	0	31	1203	42	2	1377	2	ABCA13	7	48285466	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2559700	48285466	110853197	427	34806											
ZNF713	349075	broad.mit.edu	37	chr7	56007318	56007318	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagccttttatatgcaaTggatgtgggaaagccttccg	12	11	11	7	1	0	0	0	0	0	0	1	3	1	2	3	2	3	1	3	2	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:56007318T>C	uc003trc.1	+	4	950	c.912T>C	c.(910-912)AAT>AAC	p.N304N	ZNF713_uc003tra.1_Silent_p.N317N|MRPS17_uc003trb.2_Intron	NM_182633	NP_872439	Q8N859	ZN713_HUMAN	zinc finger protein 713	304	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TTATATGCAATGGATGTGGGA	0.393													3	109					0	0	0.004672	0	0		C	56007318	C	C	56007318	2	2	45	1	0	0	0	0	0	0	0	1	18142	1461	51	3		3	ZNF713	7	56007318	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	7721852	56007318	103131345	428	34807											
ASL	435	broad.mit.edu	37	chr7	65547883	65547883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggagctcattggtgcaaCggcagggaagctgcacacgg	10	5	15	11	2	1	0	1	0	0	0	1	2	1	2	1	5	5	5	1	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:65547883C>T	uc003tuo.2	+	5	419	c.308C>T	c.(307-309)ACG>ATG	p.T103M	ASL_uc011kdu.1_Missense_Mutation_p.T103M|ASL_uc010kzx.1_Missense_Mutation_p.T103M|ASL_uc011kdv.1_Missense_Mutation_p.T103M|ASL_uc003tup.2_Missense_Mutation_p.T103M|ASL_uc003tur.2_Missense_Mutation_p.T103M|ASL_uc003tuq.2_Missense_Mutation_p.T103M	NM_000048	NP_000039	P04424	ARLY_HUMAN	argininosuccinate lyase isoform 1	103					arginine biosynthetic process via ornithine|arginine catabolic process|urea cycle	cytosol	argininosuccinate lyase activity			breast(2)	2					L-Arginine(DB00125)	ATTGGTGCAACGGCAGGGAAG	0.632													7	45					0	0	0.004482	0	0		T	65547883	T	T	65547883	3	4	45	1	0	0	0	0	1	0	0	0	1045	536	19	1	322	1	ASL	7	65547883	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	9540565	65547883	93590780	429	34808											
TBL2	26608	broad.mit.edu	37	chr7	72984992	72984992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggagtgttgtgaaacagccGcaccgcccggtccccacagg	9	5	13	14	3	0	1	0	1	0	0	1	2	1	2	5	3	2	2	5	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:72984992G>A	uc003tyh.2	-	7	1323	c.1189C>T	c.(1189-1191)CGG>TGG	p.R397W	TBL2_uc011kex.1_Missense_Mutation_p.R361W|TBL2_uc010lbg.2_Missense_Mutation_p.R302W|TBL2_uc003tyi.2_Missense_Mutation_p.R232W|TBL2_uc011key.1_Missense_Mutation_p.R268W|TBL2_uc010lbh.2_Missense_Mutation_p.R302W	NM_012453	NP_036585	Q9Y4P3	TBL2_HUMAN	transducin (beta)-like 2	397	WD 7.										0		Lung NSC(55;0.0659)|all_lung(88;0.152)				TGAAACAGCCGCACCGCCCGG	0.632													4	58					0	0	0.009096	0	0		A	72984992	A	A	72984992	3	1	45	1	0	0	0	0	1	0	0	0	15667	1086	38	1	158	1	TBL2	7	72984992	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	7437109	72984992	86153671	430	34809											
LIMK1	3984	broad.mit.edu	37	chr7	73513447	73513447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcccacctgccccacaccGtcaccctggtgtccatccca	6	7	6	22	1	1	0	1	0	0	0	4	0	4	0	8	1	1	1	8	1	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:73513447G>A	uc003uaa.1	+	5	652	c.487G>A	c.(487-489)GTC>ATC	p.V163I	RFC2_uc011kfa.1_Intron|LIMK1_uc010lbl.1_RNA|LIMK1_uc003uab.2_Missense_Mutation_p.V129I|LIMK1_uc003uac.1_5'UTR	NM_002314	NP_002305	P53667	LIMK1_HUMAN	LIM domain kinase 1	163					actin cytoskeleton organization|axon guidance|negative regulation of ubiquitin-protein ligase activity|positive regulation of actin filament bundle assembly|positive regulation of axon extension|Rho protein signal transduction	cytosol|growth cone|nucleus	ATP binding|heat shock protein binding|protein serine/threonine kinase activity|zinc ion binding			stomach(2)|ovary(1)	3		Lung NSC(55;0.137)				GCCCCACACCGTCACCCTGGT	0.657													32	177					0	0	0.009535	0	0		A	73513447	A	A	73513447	3	1	45	1	0	0	0	0	1	0	0	0	8817	1145	40	1	505	1	LIMK1	7	73513447	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	528455	73513447	85625216	431	34810											
POMZP3	22932	broad.mit.edu	37	chr7	76255377	76255377	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagtcactgggctacacAccatcctggagttgcgaggg	9	8	13	11	1	2	1	2	0	0	1	3	3	3	2	2	3	2	2	2	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:76255377A>G	uc003uft.2	-	2	752	c.5T>C	c.(4-6)GTG>GCG	p.V2A	uc003ufs.1_RNA|POMZP3_uc003ufu.2_Missense_Mutation_p.V2A|POMZP3_uc003ufv.2_RNA|POMZP3_uc011kgm.1_RNA	NM_012230	NP_036362	Q6PJE2	POZP3_HUMAN	POMZP3 fusion protein isoform 1	2											0		Myeloproliferative disorder(862;0.204)				TGGGCTACACACCATCCTGGA	0.522													3	52					0	0	0.004672	0	0		G	76255377	G	G	76255377	3	3	45	1	0	0	0	0	1	0	0	0	12266	159	6	3	585	3	POMZP3	7	76255377	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2741930	76255377	82883286	432	34811											
CD36	948	broad.mit.edu	37	chr7	80285858	80285858	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttattttctttttcatagcaAgttgtcctcgaagaaggtac	10	17	7	7	1	2	1	1	0	1	1	4	2	3	1	1	1	2	3	1	1	6	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:80285858A>C	uc003uhc.2	+	7	807	c.123A>C	c.(121-123)CAA>CAC	p.Q41H	CD36_uc003uhd.3_Missense_Mutation_p.Q41H|CD36_uc011kgv.1_5'UTR|CD36_uc003uhe.3_Missense_Mutation_p.Q41H|CD36_uc003uhf.3_Missense_Mutation_p.Q41H|CD36_uc003uhg.3_Missense_Mutation_p.Q41H|CD36_uc003uhh.3_Missense_Mutation_p.Q41H	NM_001127444	NP_001120916	P16671	CD36_HUMAN	CD36 antigen	41	Extracellular (Potential).				cell adhesion|cGMP-mediated signaling|cholesterol transport|lipid metabolic process|lipid storage|lipoprotein transport|low-density lipoprotein particle clearance|nitric oxide mediated signal transduction|plasma membrane long-chain fatty acid transport|platelet activation|platelet degranulation|positive regulation of cell-matrix adhesion|positive regulation of macrophage derived foam cell differentiation	integral to plasma membrane|membrane fraction|platelet alpha granule membrane	lipid binding|low-density lipoprotein receptor activity|thrombospondin receptor activity|transforming growth factor beta binding			ovary(1)	1						TTTCATAGCAAGTTGTCCTCG	0.378													8	50					0	0	0.004482	0	0		C	80285858	C	C	80285858	3	2	45	1	0	0	0	0	1	0	0	0	3010	69	3	5	129	5	CD36	7	80285858	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	4030481	80285858	78852805	433	34812											
ABCB4	5244	broad.mit.edu	37	chr7	87073079	87073079	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctctctgaaaaactgtcaAttttaggattctaaataaaa	16	14	4	7	0	4	1	1	1	3	0	5	2	4	2	0	1	1	0	0	1	8	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:87073079A>T	uc003uiv.1	-	11	1206	c.1130T>A	c.(1129-1131)ATT>AAT	p.I377N	ABCB4_uc003uiw.1_Missense_Mutation_p.I377N|ABCB4_uc003uix.1_Missense_Mutation_p.I377N	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	377	Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					AAAACTGTCAATTTTAGGATT	0.343													7	41					0	0	0.00308	0	0		T	87073079	T	T	87073079	3	4	45	1	0	0	0	0	1	0	0	0	43	101	4	5	2802	5	ABCB4	7	87073079	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	6787221	87073079	72065584	434	34813											
AKAP9	10142	broad.mit.edu	37	chr7	91708403	91708403	+	Frame_Shift_Del	DEL	A	-	-																															taattattaggttattgaagAaaaaaatgaactgataaggg																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:91708403delA	uc003ulg.2	+	31	7181	c.6956delA	c.(6955-6957)GAAfs	p.E2319fs	AKAP9_uc003ulf.2_Frame_Shift_Del_p.E2311fs|AKAP9_uc003uli.2_Frame_Shift_Del_p.E1942fs|AKAP9_uc003ulj.2_Frame_Shift_Del_p.E89fs	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2331	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GTTATTGAAGAAAAAAATGAA	0.284			T	BRAF	papillary thyroid								4	6	---	---	---	---						.	-	91708403	-	-	91708403	7	5	45	1	0	1	0	1	0	0	0	0	459	246	9	0	7078	0	AKAP9	7	91708403	Frame_Shift_Del	DEL	A	TCGA-BR-6852-01A-11D-1882-08	4635324	91708403	67430260	435	34814											
PTCD1	26024	broad.mit.edu	37	chr7	99022445	99022445	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgagaagctgtagaccGtccttcggcctgtggcaccc	6	10	12	13	2	1	2	0	1	1	2	3	3	2	2	4	2	1	3	4	2	2	2	rs142516229		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:99022445G>A	uc003uqh.2	-	6	1841	c.1710C>T	c.(1708-1710)GAC>GAT	p.D570D	PTCD1_uc011kiw.1_Silent_p.D619D	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	570	PPR 8.									ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			GCTGTAGACCGTCCTTCGGCC	0.617													9	38					0	0	0.004482	0	0		A	99022445	A	A	99022445	2	1	45	1	0	0	0	0	0	0	0	1	12749	1136	40	1		1	PTCD1	7	99022445	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	7314042	99022445	60116218	436	34815											
PILRB	29990	broad.mit.edu	37	chr7	99955941	99955941	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccatgggtcggcccctgCtgctgcccctgctgctcctg	2	9	13	17	1	0	0	0	0	0	0	2	0	1	0	6	3	5	4	6	3	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:99955941C>T	uc003uuk.2	+	15	2512	c.16C>T	c.(16-18)CTG>TTG	p.L6L	PILRB_uc003uul.2_Silent_p.L6L|PILRB_uc003uum.1_RNA|PILRB_uc003uun.2_Silent_p.L6L	NM_013440	NP_038468	Q9UKJ0	PILRB_HUMAN	paired immunoglobulin-like type 2 receptor beta	6					activation of transmembrane receptor protein tyrosine kinase activity	integral to plasma membrane	protein binding|receptor activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TCGGCCCCTGCTGCTGCCCCT	0.672													16	106					0	0	0.010504	0	0		T	99955941	T	T	99955941	2	4	45	1	0	0	0	0	0	0	0	1	11945	796	28	2		2	PILRB	7	99955941	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	933496	99955941	59182722	437	34816											
MEPCE	56257	broad.mit.edu	37	chr7	100028470	100028470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accagcagcagcaggcagccGgagggagtgagagtcacccc	11	2	15	13	1	1	1	1	1	0	1	1	4	1	3	4	3	4	4	4	3	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:100028470G>A	uc003uuw.2	+	1	942	c.829G>A	c.(829-831)GGA>AGA	p.G277R	ZCWPW1_uc003uut.2_5'Flank|ZCWPW1_uc011kjr.1_5'Flank|ZCWPW1_uc003uuu.1_5'Flank|ZCWPW1_uc011kjt.1_5'Flank|ZCWPW1_uc011kju.1_5'Flank|MEPCE_uc003uuv.2_5'UTR	NM_019606	NP_062552	Q7L2J0	MEPCE_HUMAN	bin3, bicoid-interacting 3	277							methyltransferase activity			upper_aerodigestive_tract(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GCAGGCAGCCGGAGGGAGTGA	0.662													32	137					0	0	0.012213	0	0		A	100028470	A	A	100028470	3	1	45	1	0	0	0	0	1	0	0	0	9495	1117	39	1	831	1	MEPCE	7	100028470	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	72529	100028470	59110193	438	34817											
C7orf51	222950	broad.mit.edu	37	chr7	100085812	100085812	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccagagggccgagagtccagCcggaaggttcctccgcagaa	10	4	14	13	3	0	3	0	0	0	3	3	5	3	4	6	3	1	2	6	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:100085812C>T	uc003uvd.1	+	4	627	c.468C>T	c.(466-468)AGC>AGT	p.S156S	C7orf51_uc003uve.1_5'UTR	NM_173564	NP_775835	Q6ZVC0	CG051_HUMAN	hypothetical protein FLJ37538	156										skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GAGAGTCCAGCCGGAAGGTTC	0.597													45	194					0	0	0.013114	0	0		T	100085812	T	T	100085812	2	4	45	1	0	0	0	0	0	0	0	1	2403	738	26	2		2	C7orf51	7	100085812	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	57342	100085812	59052851	439	34818											
MUC17	140453	broad.mit.edu	37	chr7	100678887	100678887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctagtgaaggaaccactcCgttaacaagtatacctgtca	13	10	7	11	1	1	1	1	1	0	0	3	2	3	2	4	1	3	2	4	1	7	4	rs141608296		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:100678887C>T	uc003uxp.1	+	3	4243	c.4190C>T	c.(4189-4191)CCG>CTG	p.P1397L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1397	Extracellular (Potential).|59 X approximate tandem repeats.|21.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GGAACCACTCCGTTAACAAGT	0.507													82	515					0	0	0.01441	0	0		T	100678887	T	T	100678887	3	4	45	1	0	0	0	0	1	0	0	0	9992	652	23	1	4200	1	MUC17	7	100678887	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	593075	100678887	58459776	440	34819											
TRIM56	81844	broad.mit.edu	37	chr7	100732016	100732016	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaatttcccgggagcccAgcccagccctggggccgaat	8	6	12	15	2	1	0	1	0	0	0	2	2	2	1	5	3	3	0	5	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:100732016A>C	uc003uxq.2	+	3	1654	c.1423A>C	c.(1423-1425)AGC>CGC	p.S475R	TRIM56_uc003uxr.2_Intron	NM_030961	NP_112223	Q9BRZ2	TRI56_HUMAN	tripartite motif-containing 56	475					defense response to virus|interferon-beta production|protein K63-linked ubiquitination|response to type I interferon	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			kidney(1)|central_nervous_system(1)|skin(1)	3	Lung NSC(181;0.136)|all_lung(186;0.182)					CCGGGAGCCCAGCCCAGCCCT	0.622													25	102					0	0	0.003954	0	0		C	100732016	C	C	100732016	3	2	45	1	0	0	0	0	1	0	0	0	16556	188	7	5	1425	5	TRIM56	7	100732016	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	53129	100732016	58406647	441	34820											
VGF	7425	broad.mit.edu	37	chr7	100807605	100807605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctcctgctggcgcttggCgctacttggactgaaatctc	5	12	11	13	3	2	1	0	1	2	0	4	2	2	2	1	3	2	3	1	3	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:100807605C>T	uc003uxx.3	-	2	738	c.520G>A	c.(520-522)GCC>ACC	p.A174T		NM_003378	NP_003369	O15240	VGF_HUMAN	VGF nerve growth factor inducible precursor	174					response to cAMP	extracellular space|transport vesicle	growth factor activity				0	Lung NSC(181;0.168)|all_lung(186;0.215)					TGGCGCTTGGCGCTACTTGGA	0.662													13	66					0	0	0.00245	0	0		T	100807605	T	T	100807605	3	4	45	1	0	0	0	0	1	0	0	0	17183	768	27	1	1331	1	VGF	7	100807605	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	75589	100807605	58331058	442	34821											
ALKBH4	54784	broad.mit.edu	37	chr7	102098052	102098052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcgggcgggtaaggggatgGccacctccacctcctggcat	7	6	15	13	2	0	0	0	0	0	0	2	1	2	1	5	6	1	2	5	6	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:102098052G>A	uc003uzl.2	-	3	703	c.698C>T	c.(697-699)GCC>GTC	p.A233V	ALKBH4_uc003uzm.2_Missense_Mutation_p.A160V	NM_017621	NP_060091	Q9NXW9	ALKB4_HUMAN	alkB, alkylation repair homolog 4	233						cytoplasm|nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TAAGGGGATGGCCACCTCCAC	0.706													6	19					0	0	0.001168	0	0		A	102098052	A	A	102098052	3	1	45	1	0	0	0	0	1	0	0	0	529	1203	42	2	214	2	ALKBH4	7	102098052	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1290447	102098052	57040611	443	34822											
DNAJC2	27000	broad.mit.edu	37	chr7	102982389	102982389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccacaggttcaacttgaCagagtgtagaggctgtgatt	10	12	11	8	0	1	4	1	2	0	2	2	4	2	4	1	2	1	3	1	2	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:102982389C>T	uc003vbo.2	-	2	328	c.77G>A	c.(76-78)TGT>TAT	p.C26Y	DNAJC2_uc003vbn.2_5'UTR|DNAJC2_uc010lix.2_Missense_Mutation_p.C26Y|DNAJC2_uc003vbp.2_Intron|DNAJC2_uc003vbq.1_RNA|DNAJC2_uc003vbr.1_Missense_Mutation_p.C26Y	NM_014377	NP_055192	Q99543	DNJC2_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 2	26	Epitope (recognized by CD8(+) cytotoxic T-lymphocytes).				'de novo' cotranslational protein folding|chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane	chromatin binding|DNA binding|histone binding|Hsp70 protein binding|ubiquitin binding			kidney(1)	1						TTCAACTTGACAGAGTGTAGA	0.373													12	45					0	0	0.001855	0	0		T	102982389	T	T	102982389	3	4	45	1	0	0	0	0	1	0	0	0	4645	478	17	4	1852	4	DNAJC2	7	102982389	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	884337	102982389	56156274	444	34823											
PSMC2	5701	broad.mit.edu	37	chr7	103004675	103004675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaggcaagacactctgtgCgcgggcagttgctaatcgga	10	8	13	10	3	1	1	0	0	1	1	2	2	1	2	0	3	3	4	0	3	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:103004675C>T	uc003vbs.2	+	8	747	c.677C>T	c.(676-678)GCG>GTG	p.A226V	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011klo.1_Missense_Mutation_p.A89V	NM_002803	NP_002794	P35998	PRS7_HUMAN	proteasome 26S ATPase subunit 2	226					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0						ACACTCTGTGCGCGGGCAGTT	0.498													14	81					0	0	0.003163	0	0		T	103004675	T	T	103004675	3	4	45	1	0	0	0	0	1	0	0	0	12708	768	27	1	707	1	PSMC2	7	103004675	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	22286	103004675	56133988	445	34824											
RELN	5649	broad.mit.edu	37	chr7	103293021	103293021	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccaggctgatgcgttccAcatcccagattgatggaaaa	12	10	9	10	1	0	3	0	2	0	1	2	4	2	4	3	2	2	2	3	2	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:103293021A>G	uc003vca.2	-	14	1900	c.1740T>C	c.(1738-1740)TGT>TGC	p.C580C	RELN_uc010liz.2_Silent_p.C580C	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	580					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		GATGCGTTCCACATCCCAGAT	0.403													11	67					0	0	0.010729	0	0		G	103293021	G	G	103293021	2	3	45	1	0	0	0	0	0	0	0	1	13245	157	6	3		3	RELN	7	103293021	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	288346	103293021	55845642	446	34825											
PUS7	54517	broad.mit.edu	37	chr7	105148756	105148756	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcagaattctttccacctttCccagtactgacagtgtcagg	9	13	7	12	0	3	2	2	1	1	1	5	2	5	2	3	1	1	1	3	1	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:105148756C>T	uc003vcx.2	-	2	423	c.204G>A	c.(202-204)GGG>GGA	p.G68G	PUS7_uc010lji.2_Silent_p.G68G|PUS7_uc003vcy.2_Silent_p.G68G|PUS7_uc003vcz.1_Silent_p.G68G	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog	68					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						TTCCACCTTTCCCAGTACTGA	0.493													27	153					0	0	0.005443	0	0		T	105148756	T	T	105148756	2	4	45	1	0	0	0	0	0	0	0	1	12858	842	30	4		4	PUS7	7	105148756	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1855735	105148756	53989907	447	34826											
LAMB1	3912	broad.mit.edu	37	chr7	107580727	107580727	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagcgtggaccctcaacAccctcaacgcagacacactg	12	5	7	17	2	3	1	3	0	0	1	3	2	3	2	2	1	3	1	2	1	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:107580727A>G	uc003vew.2	-	25	3803	c.3468T>C	c.(3466-3468)GGT>GGC	p.G1156G	LAMB1_uc003vev.2_Silent_p.G1180G	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1156	Laminin EGF-like 13.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GACCCTCAACACCCTCAACGC	0.587													3	64					0	0	0.009096	0	0		G	107580727	G	G	107580727	2	3	45	1	0	0	0	0	0	0	0	1	8626	146	6	3		3	LAMB1	7	107580727	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2431971	107580727	51557936	448	34827											
LAMB4	22798	broad.mit.edu	37	chr7	107738955	107738955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaggcactggccggccacaGaccctaaggcaggatcagag	13	3	13	12	1	1	2	1	0	0	2	1	3	1	3	3	5	0	2	3	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:107738955G>A	uc010ljo.1	-	11	1337	c.1253C>T	c.(1252-1254)TCT>TTT	p.S418F	LAMB4_uc003vey.2_Missense_Mutation_p.S418F	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	418	Laminin EGF-like 3.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						GCCGGCCACAGACCCTAAGGC	0.552													7	76					0	0	0.00308	0	0		A	107738955	A	A	107738955	3	1	45	1	0	0	0	0	1	0	0	0	8629	942	33	4	4128	4	LAMB4	7	107738955	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	158228	107738955	51399708	449	34828											
TMEM168	64418	broad.mit.edu	37	chr7	112423832	112423832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaatcaagcaaaaatggCgcatccctttggatgccatg	13	9	9	10	1	1	1	1	1	0	0	2	2	2	2	2	2	2	2	2	2	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:112423832C>T	uc003vgn.2	-	2	1441	c.1049G>A	c.(1048-1050)CGC>CAC	p.R350H	TMEM168_uc010lju.2_Missense_Mutation_p.R350H|TMEM168_uc011kmr.1_Intron	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	350						integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						GCAAAAATGGCGCATCCCTTT	0.408													12	193					0	0	0.004007	0	0		T	112423832	T	T	112423832	3	4	45	1	0	0	0	0	1	0	0	0	16108	768	27	1	1060	1	TMEM168	7	112423832	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4684877	112423832	46714831	450	34829											
C7orf60	154743	broad.mit.edu	37	chr7	112555379	112555379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctacaacaccattcaataCgaccttcgccctcacaagtt	13	9	3	16	2	2	0	2	0	0	0	3	1	2	0	4	0	3	1	4	0	5	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:112555379C>T	uc003vgo.1	-	2	411	c.284G>A	c.(283-285)CGT>CAT	p.R95H	C7orf60_uc011kms.1_Missense_Mutation_p.R121H	NM_152556	NP_689769	Q1RMZ1	CG060_HUMAN	hypothetical protein LOC154743	95										ovary(2)|skin(1)	3						CCATTCAATACGACCTTCGCC	0.308													15	77					0	0	0.004007	0	0		T	112555379	T	T	112555379	3	4	45	1	0	0	0	0	1	0	0	0	2410	536	19	1	949	1	C7orf60	7	112555379	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	131547	112555379	46583284	451	34830											
PPP1R3A	5506	broad.mit.edu	37	chr7	113558541	113558541	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacatattctgctaaaatgtCataatgtgtctgccagtcat	13	14	6	8	0	4	0	2	0	2	0	4	0	4	0	1	0	3	1	1	0	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:113558541C>G	uc010ljy.1	-	1	542	c.511G>C	c.(511-513)GAC>CAC	p.D171H		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	171	CBM21.				glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						GCTAAAATGTCATAATGTGTC	0.343													8	44					0	0	0.00308	0	0		G	113558541	G	G	113558541	3	3	45	1	0	0	0	0	1	0	0	0	12393	826	29	5	2873	5	PPP1R3A	7	113558541	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1003162	113558541	45580122	452	34831											
ANKRD7	56311	broad.mit.edu	37	chr7	117874902	117874902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaaaaactgcttgaatacGaagctgatcttgaagcgaaa	16	10	9	6	2	1	4	0	4	1	0	1	6	1	4	0	0	5	2	0	0	7	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:117874902G>A	uc003vji.2	+	3	615	c.442G>A	c.(442-444)GAA>AAA	p.E148K		NM_019644	NP_062618	Q92527	ANKR7_HUMAN	ankyrin repeat domain 7	148	ANK 3.				male gonad development						0						GCTTGAATACGAAGCTGATCT	0.333													10	47					0	0	0.006214	0	0		A	117874902	A	A	117874902	3	1	45	1	0	0	0	0	1	0	0	0	686	1059	37	1	452	1	ANKRD7	7	117874902	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4316361	117874902	41263761	453	34832											
PTPRZ1	5803	broad.mit.edu	37	chr7	121679626	121679626	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaattttactctaagaaAcacaaaaataaaaaaggtga	22	8	7	4	0	1	2	0	1	1	1	1	4	1	3	0	2	2	0	0	2	9	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:121679626A>C	uc003vjy.2	+	20	6016	c.5621A>C	c.(5620-5622)AAC>ACC	p.N1874T	PTPRZ1_uc003vjz.2_Missense_Mutation_p.N1007T|PTPRZ1_uc011knt.1_Missense_Mutation_p.N464T	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1874	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						ACTCTAAGAAACACAAAAATA	0.393													6	27					0	0	0.001168	0	0		C	121679626	C	C	121679626	3	2	45	1	0	0	0	0	1	0	0	0	12839	43	2	5	5699	5	PTPRZ1	7	121679626	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	3804724	121679626	37459037	454	34833											
SMO	6608	broad.mit.edu	37	chr7	128850231	128850231	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaatgtgaccatcgggctGcccaccaagcagcccatccc	9	5	9	18	1	0	1	0	1	0	0	2	1	1	1	6	1	3	2	6	1	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:128850231G>A	uc003vor.2	+	9	1774	c.1494G>A	c.(1492-1494)CTG>CTA	p.L498L	SMO_uc003vos.2_Silent_p.L173L	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	498	Extracellular (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						CCATCGGGCTGCCCACCAAGC	0.438			Mis		skin basal cell 						OREG0018305	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	75					0	0	0.013537	0	0		A	128850231	A	A	128850231	2	1	45	1	0	0	0	0	0	0	0	1	14825	1306	46	2		2	SMO	7	128850231	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	7170605	128850231	30288432	455	34834											
PLXNA4	91584	broad.mit.edu	37	chr7	131982977	131982977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccctgggtccatccaccCggatctgtggagaagaagag	9	7	13	12	1	1	3	0	0	1	3	3	5	3	4	5	3	1	0	5	3	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:131982977C>T	uc003vra.3	-	4	1605	c.1376G>A	c.(1375-1377)CGG>CAG	p.R459Q		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	459	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TCCATCCACCCGGATCTGTGG	0.602													10	52					0	0	0.013537	0	0		T	131982977	T	T	131982977	3	4	45	1	0	0	0	0	1	0	0	0	12141	652	23	1	4424	1	PLXNA4	7	131982977	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3132746	131982977	27155686	456	34835											
ZC3HAV1L	92092	broad.mit.edu	37	chr7	138713581	138713581	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcatggataagctgatgggaCcgtttgcaggtctgaagttt	9	12	14	6	1	1	2	0	2	1	0	1	4	1	4	1	3	2	5	1	3	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:138713581C>T	uc003vum.1	-	3	639	c.627G>A	c.(625-627)CGG>CGA	p.R209R		NM_080660	NP_542391	Q96H79	ZCCHL_HUMAN	zinc finger CCCH-type, antiviral 1-like	209											0						GCTGATGGGACCGTTTGCAGG	0.428													11	46					0	0	0.010729	0	0		T	138713581	T	T	138713581	2	4	45	1	0	0	0	0	0	0	0	1	17601	494	18	4		4	ZC3HAV1L	7	138713581	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6730604	138713581	20425082	457	34836											
TBXAS1	6916	broad.mit.edu	37	chr7	139611034	139611034	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcccaggtactatcttGgtcgtcggatgtttattgtt	5	18	9	9	2	1	0	0	0	1	0	5	1	3	1	2	3	1	3	2	3	3	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:139611034G>T	uc011kqv.1	+	4	414	c.250G>T	c.(250-252)GGT>TGT	p.G84C	TBXAS1_uc003vvh.2_Missense_Mutation_p.G84C|TBXAS1_uc010lne.2_Missense_Mutation_p.G16C|TBXAS1_uc011kqu.1_Missense_Mutation_p.G35C|TBXAS1_uc003vvi.2_Missense_Mutation_p.G84C|TBXAS1_uc003vvj.2_Missense_Mutation_p.G84C|TBXAS1_uc011kqw.1_Missense_Mutation_p.G64C|TBXAS1_uc011kqx.1_Missense_Mutation_p.G84C	NM_001130966	NP_001124438	P24557	THAS_HUMAN	thromboxane A synthase 1, platelet isoform	83	Helical; (Potential).				hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|thromboxane-A synthase activity			ovary(2)|breast(1)	3	Melanoma(164;0.0142)					GTACTATCTTGGTCGTCGGAT	0.383													20	118					2.37509e-13	2.67031e-13	0.010504	1	0		T	139611034	T	T	139611034	3	4	45	1	0	0	0	0	1	0	0	0	15689	1348	47	5	264	5	TBXAS1	7	139611034	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	897453	139611034	19527629	458	34837											
NDUFB2	4708	broad.mit.edu	37	chr7	140402766	140402766	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcagcggactcatgtggTtctggattctctggcgcttt	4	16	11	10	2	5	0	2	0	3	0	6	2	5	2	0	4	1	2	0	4	0	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:140402766T>C	uc003vwa.2	+	2	263	c.199T>C	c.(199-201)TTC>CTC	p.F67L	NDUFB2_uc010lnl.2_RNA	NM_004546	NP_004537	O95178	NDUB2_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	67					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.00956)				NADH(DB00157)	ACTCATGTGGTTCTGGATTCT	0.547													44	220					0	0	0.01441	0	0		C	140402766	C	C	140402766	3	2	45	1	0	0	0	0	1	0	0	0	10300	1725	60	3	205	3	NDUFB2	7	140402766	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	791732	140402766	18735897	459	34838											
TAS2R3	50831	broad.mit.edu	37	chr7	141464526	141464526	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgggactctgtggtacCtgcctcccttaattgtgtcc	4	16	9	12	0	2	0	0	0	2	0	4	1	4	1	4	2	2	1	4	2	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:141464526C>T	uc003vwp.1	+	1	630	c.568C>T	c.(568-570)CTG>TTG	p.L190L		NM_016943	NP_058639	Q9NYW6	TA2R3_HUMAN	taste receptor T2R3	190	Helical; Name=5; (Potential).				sensory perception of taste		taste receptor activity			central_nervous_system(1)	1	Melanoma(164;0.0171)					TCTGTGGTACCTGCCTCCCTT	0.502													8	49					0	0	0.00308	0	0		T	141464526	T	T	141464526	2	4	45	1	0	0	0	0	0	0	0	1	15597	680	24	4		4	TAS2R3	7	141464526	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1061760	141464526	17674137	460	34839											
TAS2R4	50832	broad.mit.edu	37	chr7	141478798	141478798	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataacacatcatttaatatCagtgagggcatcttgtcttt	13	15	6	7	0	4	1	2	1	2	0	4	1	4	1	0	1	1	1	0	1	4	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:141478798C>A	uc003vwq.1	+	1	510	c.510C>A	c.(508-510)ATC>ATA	p.I170I		NM_016944	NP_058640	Q9NYW5	TA2R4_HUMAN	taste receptor T2R4	170	Extracellular (Potential).				sensory perception of taste	cilium membrane	taste receptor activity				0	Melanoma(164;0.0171)			BRCA - Breast invasive adenocarcinoma(188;0.196)		CATTTAATATCAGTGAGGGCA	0.418													39	228					2.35958e-20	2.70937e-20	0.009718	1	0		A	141478798	A	A	141478798	2	1	45	1	0	0	0	0	0	0	0	1	15602	816	29	5		5	TAS2R4	7	141478798	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	14272	141478798	17659865	461	34840											
TRPV5	56302	broad.mit.edu	37	chr7	142605706	142605706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atggtagacctcctctccatCcccctcactaaggttcagtc	8	11	6	16	0	3	1	2	0	1	1	7	1	5	1	5	2	0	2	5	2	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:142605706C>T	uc003wby.1	-	15	2428	c.2164G>A	c.(2164-2166)GAT>AAT	p.D722N		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	722	Cytoplasmic (Potential).|Involved in Ca(2+)-dependent inactivation (By similarity).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					TCCTCTCCATCCCCCTCACTA	0.572													13	66					0	0	0.013537	0	0		T	142605706	T	T	142605706	3	4	45	1	0	0	0	0	1	0	0	0	16625	855	30	4	29	4	TRPV5	7	142605706	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1126908	142605706	16532957	462	34841											
KEL	3792	broad.mit.edu	37	chr7	142658099	142658099	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggcccttccacaggcaaAgctgaagaagtcggtgcagg	10	8	13	10	1	0	2	0	1	0	1	2	2	1	2	2	4	2	3	2	4	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:142658099A>C	uc003wcb.2	-	4	526	c.316T>G	c.(316-318)TTT>GTT	p.F106V		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	106	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					CCACAGGCAAAGCTGAAGAAG	0.527													5	162					0	0	0.000602	0	0		C	142658099	C	C	142658099	3	2	45	1	0	0	0	0	1	0	0	0	8158	72	3	5	1946	5	KEL	7	142658099	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	52393	142658099	16480564	463	34842											
GBX1	2636	broad.mit.edu	37	chr7	150846112	150846112	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccctgcagaactgtccAggaaaccgtcatcctcgctg	8	7	10	16	2	1	1	1	0	0	1	4	2	3	2	5	2	3	2	5	2	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:150846112A>G	uc011kvg.1	-	2	888	c.656T>C	c.(655-657)CTG>CCG	p.L219P		NM_001098834	NP_001092304	Q14549	GBX1_HUMAN	gastrulation brain homeo box 1	219						nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGAACTGTCCAGGAAACCGTC	0.622													79	375					0	0	0.01441	0	0		G	150846112	G	G	150846112	3	3	45	1	0	0	0	0	1	0	0	0	6295	188	7	3	438	3	GBX1	7	150846112	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	8188013	150846112	8292551	464	34843											
GALNT11	63917	broad.mit.edu	37	chr7	151800311	151800311	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtgtcatagaccgcacGccagcacacctgcttcatga	11	7	8	15	2	2	2	2	1	0	1	2	2	2	2	3	0	2	3	3	0	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:151800311G>A	uc010lqg.1	+	4	764	c.534G>A	c.(532-534)ACG>ACA	p.T178T	GALNT11_uc011kvm.1_Silent_p.T97T|GALNT11_uc003wku.2_Silent_p.T178T|GALNT11_uc003wkv.1_Silent_p.T178T|GALNT11_uc011kvn.1_RNA	NM_022087	NP_071370	Q8NCW6	GLT11_HUMAN	N-acetylgalactosaminyltransferase 11	178	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.214)	OV - Ovarian serous cystadenocarcinoma(82;0.00168)	UCEC - Uterine corpus endometrioid carcinoma (81;0.177)|BRCA - Breast invasive adenocarcinoma(188;0.0932)		TAGACCGCACGCCAGCACACC	0.488													5	64					0	0	0.001168	0	0		A	151800311	A	A	151800311	2	1	45	1	0	0	0	0	0	0	0	1	6224	1074	38	1		1	GALNT11	7	151800311	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	954199	151800311	7338352	465	34844											
GALNT11	63917	broad.mit.edu	37	chr7	151805218	151805218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgaggaccggcacaccgtgGtgtgcccagtgattgacatc	8	8	14	11	2	0	3	0	3	0	0	1	4	0	4	3	3	1	1	3	3	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:151805218G>A	uc010lqg.1	+	6	1038	c.808G>A	c.(808-810)GTG>ATG	p.V270M	GALNT11_uc011kvm.1_Missense_Mutation_p.V189M|GALNT11_uc003wku.2_Missense_Mutation_p.V270M|GALNT11_uc011kvn.1_RNA|GALNT11_uc003wkw.1_Missense_Mutation_p.V18M	NM_022087	NP_071370	Q8NCW6	GLT11_HUMAN	N-acetylgalactosaminyltransferase 11	270	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.214)	OV - Ovarian serous cystadenocarcinoma(82;0.00168)	UCEC - Uterine corpus endometrioid carcinoma (81;0.177)|BRCA - Breast invasive adenocarcinoma(188;0.0932)		GCACACCGTGGTGTGCCCAGT	0.607													12	50					0	0	0.010729	0	0		A	151805218	A	A	151805218	3	1	45	1	0	0	0	0	1	0	0	0	6224	1261	44	4	826	4	GALNT11	7	151805218	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4907	151805218	7333445	466	34845											
MLL3	58508	broad.mit.edu	37	chr7	151845212	151845212	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatccttctcctcaatggaGcacaggtagcggcagcgcct	8	8	10	15	2	2	0	1	0	1	0	4	1	3	1	4	3	3	3	4	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr7:151845212G>A	uc003wla.2	-	52	14019	c.13800C>T	c.(13798-13800)TGC>TGT	p.C4600C	MLL3_uc003wkz.2_Silent_p.C3718C|MLL3_uc003wkx.2_Silent_p.C758C|MLL3_uc003wky.2_Silent_p.C2164C	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4600	FYR N-terminal.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CCTCAATGGAGCACAGGTAGC	0.527			N		medulloblastoma								11	69					0	0	0.010729	0	0		A	151845212	A	A	151845212	2	1	45	1	0	0	0	0	0	0	0	1	9640	963	34	2		2	MLL3	7	151845212	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	39994	151845212	7293451	467	34846											
CLN8	2055	broad.mit.edu	37	chr8	1728566	1728566	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtatctgcctcatttgAcactgttccttgtcggactg	5	15	9	12	1	2	1	1	1	1	0	4	2	3	2	3	1	1	2	3	1	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:1728566A>C	uc003wpo.3	+	3	999	c.694A>C	c.(694-696)ACA>CCA	p.T232P		NM_018941	NP_061764	Q9UBY8	CLN8_HUMAN	ceroid-lipofuscinosis, neuronal 8	232	TLC.|Helical; (Potential).				cell death|ceramide biosynthetic process|cholesterol metabolic process|lipid transport|negative regulation of proteolysis|phospholipid metabolic process	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(12;0.0563)|Colorectal(14;0.0815)|Hepatocellular(245;0.0831)		BRCA - Breast invasive adenocarcinoma(11;7.67e-05)|READ - Rectum adenocarcinoma(644;0.0913)		GCCTCATTTGACACTGTTCCT	0.502													15	119					0	0	0.004007	0	0		C	1728566	C	C	1728566	3	2	45	1	0	0	0	0	1	0	0	0	3549	275	10	5	700	5	CLN8	8	1728566	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08		1728566	144635456	468	34847											
PPP1R3B	79660	broad.mit.edu	37	chr8	8998807	8998807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctaaagtctaagtaatctgCagagggctgggaaaaatcca	15	9	10	7	0	3	1	0	0	3	1	4	2	4	2	1	2	1	3	1	2	6	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:8998807C>T	uc003wsn.3	-	2	520	c.355G>A	c.(355-357)GCA>ACA	p.A119T	PPP1R3B_uc003wso.3_Missense_Mutation_p.A118T	NM_024607	NP_078883	Q86XI6	PPR3B_HUMAN	protein phosphatase 1, regulatory (inhibitor)	119					glycogen metabolic process					ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(149;0.0717)|READ - Rectum adenocarcinoma(644;0.241)		AAGTAATCTGCAGAGGGCTGG	0.493													10	82					0	0	0.006214	0	0		T	8998807	T	T	8998807	3	4	45	1	0	0	0	0	1	0	0	0	12394	710	25	2	506	2	PPP1R3B	8	8998807	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	7270241	8998807	137365215	469	34848											
RP1L1	94137	broad.mit.edu	37	chr8	10470612	10470612	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cataggagcgtgtcctcgccGaccaggtggaagcggacttt	8	8	14	11	4	0	0	0	0	0	0	2	4	1	3	3	4	2	0	3	4	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:10470612G>A	uc003wtc.2	-	4	1225	c.996C>T	c.(994-996)GTC>GTT	p.V332V		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	332					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TGTCCTCGCCGACCAGGTGGA	0.652													29	137					0	0	0.009535	0	0		A	10470612	A	A	10470612	2	1	45	1	0	0	0	0	0	0	0	1	13558	1045	37	1		1	RP1L1	8	10470612	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1471805	10470612	135893410	470	34849											
RP1L1	94137	broad.mit.edu	37	chr8	10470689	10470689	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccttcttcttcatgtcatCgccagccaccagcgggcccg	6	9	9	17	3	4	0	2	0	2	0	5	1	4	0	5	1	2	0	5	1	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:10470689C>T	uc003wtc.2	-	4	1148	c.919G>A	c.(919-921)GAT>AAT	p.D307N		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	307					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TTCATGTCATCGCCAGCCACC	0.647													5	167					0	0	0.001984	0	0		T	10470689	T	T	10470689	3	4	45	1	0	0	0	0	1	0	0	0	13558	884	31	1	6287	1	RP1L1	8	10470689	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	77	10470689	135893333	471	34850											
USP17L2	377630	broad.mit.edu	37	chr8	11995964	11995964	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatgtagttggcaaggggCggtgtgtatgtcaggcactg	8	10	17	6	1	1	0	1	0	0	0	1	0	1	0	0	5	1	6	0	5	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:11995964C>T	uc003wvc.1	-	1	306	c.306G>A	c.(304-306)CCG>CCA	p.P102P	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	102					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3						TGGCAAGGGGCGGTGTGTATG	0.572													7	312					0	0	0.00308	0	0		T	11995964	T	T	11995964	2	4	45	1	0	0	0	0	0	0	0	1	17074	755	27	1		1	USP17L2	8	11995964	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1525275	11995964	134368058	472	34851											
LONRF1	91694	broad.mit.edu	37	chr8	12594548	12594548	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacactctttttaaacagtcCtctctggcaggcatttctgt	8	15	7	11	0	3	0	0	0	3	0	5	1	4	0	1	2	1	2	1	2	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:12594548C>A	uc003wwd.1	-	5	1278	c.1215G>T	c.(1213-1215)GAG>GAT	p.E405D	LONRF1_uc011kxv.1_Missense_Mutation_p.E5D|LONRF1_uc010lsp.1_Missense_Mutation_p.E5D	NM_152271	NP_689484	Q17RB8	LONF1_HUMAN	LON peptidase N-terminal domain and ring finger	405					proteolysis		ATP-dependent peptidase activity|zinc ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(644;0.236)		TTAAACAGTCCTCTCTGGCAG	0.418													17	99					1.15919e-05	1.23306e-05	0.008871	1	0		A	12594548	A	A	12594548	3	1	45	1	0	0	0	0	1	0	0	0	8912	680	24	5	1138	5	LONRF1	8	12594548	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	598584	12594548	133769474	473	34852											
PCM1	5108	broad.mit.edu	37	chr8	17817868	17817868	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagcagcaacagagagagcTaaaacaattgcaggaagaaa	21	3	10	7	0	0	3	0	0	0	3	0	5	0	4	0	1	6	4	0	1	6	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:17817868T>C	uc003wyi.3	+	15	2659	c.2237T>C	c.(2236-2238)CTA>CCA	p.L746P	PCM1_uc011kyh.1_Missense_Mutation_p.L746P|PCM1_uc003wyj.3_Missense_Mutation_p.L747P	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	746	Potential.				centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		CAGAGAGAGCTAAAACAATTG	0.333			T	RET|JAK2	papillary thyroid|CML|MPD								21	74					0	0	0.012319	0	0		C	17817868	C	C	17817868	3	2	45	1	0	0	0	0	1	0	0	0	11603	1522	53	3	2287	3	PCM1	8	17817868	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	5223320	17817868	128546154	474	34853											
NAT2	10	broad.mit.edu	37	chr8	18257800	18257800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagggtatttttacatccCtccagttaacaaatacagca	14	11	7	9	0	0	0	0	0	0	0	2	1	2	1	2	2	4	3	2	2	5	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:18257800C>T	uc003wyw.1	+	2	394	c.287C>T	c.(286-288)CCT>CTT	p.P96L		NM_000015	NP_000006	P11245	ARY2_HUMAN	N-acetyltransferase 2	96					xenobiotic metabolic process	cytosol	arylamine N-acetyltransferase activity			ovary(1)|skin(1)	2				Colorectal(111;0.0531)|COAD - Colon adenocarcinoma(73;0.21)		TTTTACATCCCTCCAGTTAAC	0.502									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				21	134					0	0	0.010504	0	0		T	18257800	T	T	18257800	3	4	45	1	0	0	0	0	1	0	0	0	10195	681	24	4	289	4	NAT2	8	18257800	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	439932	18257800	128106222	475	34854											
LZTS1	11178	broad.mit.edu	37	chr8	20107417	20107417	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtactgaatcaccttctccTtctcctccttccacacgagc	7	12	5	17	1	3	1	1	1	2	0	7	2	5	1	5	1	2	1	5	1	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:20107417T>G	uc003wzr.2	-	3	1718	c.1607A>C	c.(1606-1608)AAG>ACG	p.K536T	LZTS1_uc010ltg.1_Missense_Mutation_p.K477T	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	536					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		CACCTTCTCCTTCTCCTCCTT	0.637													15	110					0	0	0.003163	0	0		G	20107417	G	G	20107417	3	3	45	1	0	0	0	0	1	0	0	0	9156	1609	56	5	187	5	LZTS1	8	20107417	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1849617	20107417	126256605	476	34855											
LZTS1	11178	broad.mit.edu	37	chr8	20110667	20110667	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctggatgctgcactcgtCcgtggagatgggggagcgga	6	8	17	10	3	0	1	0	0	0	1	3	5	2	4	2	5	3	2	2	5	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:20110667C>A	uc003wzr.2	-	2	886	c.775G>T	c.(775-777)GAC>TAC	p.D259Y	LZTS1_uc010ltg.1_Missense_Mutation_p.D259Y	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	259	Potential.				cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		CTGCACTCGTCCGTGGAGATG	0.632													15	135					3.45872e-05	3.65971e-05	0.004007	1	0		A	20110667	A	A	20110667	3	1	45	1	0	0	0	0	1	0	0	0	9156	855	30	5	1023	5	LZTS1	8	20110667	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3250	20110667	126253355	477	34856											
GFRA2	2675	broad.mit.edu	37	chr8	21608373	21608373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaggagcgcagcttcttgCagttgtcattcaggttgcag	8	11	14	8	1	3	0	2	0	1	0	3	2	3	2	0	3	4	6	0	3	0	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:21608373C>T	uc003wzu.1	-	4	1196	c.521G>A	c.(520-522)TGC>TAC	p.C174Y	GFRA2_uc003wzv.1_Missense_Mutation_p.C69Y|GFRA2_uc003wzw.1_Missense_Mutation_p.C41Y|DOK2_uc003wzx.1_Intron	NM_001495	NP_001486	O00451	GFRA2_HUMAN	GDNF family receptor alpha 2 isoform a	174						anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity				0				Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)		CAGCTTCTTGCAGTTGTCATT	0.617													6	64					0	0	0.001984	0	0		T	21608373	T	T	21608373	3	4	45	1	0	0	0	0	1	0	0	0	6363	710	25	2	897	2	GFRA2	8	21608373	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1497706	21608373	124755649	478	34857											
HR	55806	broad.mit.edu	37	chr8	21978604	21978604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggccggagtgacgggggCgaaggccatgtgtattcgct	7	7	18	9	4	0	1	0	1	0	0	1	3	0	2	2	5	0	2	2	5	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:21978604C>T	uc003xas.2	-	10	3006	c.2341G>A	c.(2341-2343)GCC>ACC	p.A781T	HR_uc003xat.2_Missense_Mutation_p.A781T	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	781							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		GTGACGGGGGCGAAGGCCATG	0.672													5	123					0	0	0.000602	0	0		T	21978604	T	T	21978604	3	4	45	1	0	0	0	0	1	0	0	0	7363	768	27	1	1268	1	HR	8	21978604	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	370231	21978604	124385418	479	34858											
HR	55806	broad.mit.edu	37	chr8	21985114	21985114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaaggcctgggggacaagCgggccaggaggtccagggca	11	2	18	10	1	0	0	0	0	0	0	1	2	1	2	3	7	2	1	3	7	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:21985114C>T	uc003xas.2	-	3	1506	c.841G>A	c.(841-843)GCT>ACT	p.A281T	HR_uc003xat.2_Missense_Mutation_p.A281T	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	281							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		GGGGGACAAGCGGGCCAGGAG	0.642													6	119					0	0	0.001168	0	0		T	21985114	T	T	21985114	3	4	45	1	0	0	0	0	1	0	0	0	7363	768	27	1	2796	1	HR	8	21985114	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6510	21985114	124378908	480	34859											
BMP1	649	broad.mit.edu	37	chr8	22066962	22066962	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttgtcccctacagagtgCgggggccaggtacgggcaga	7	7	15	12	2	1	2	0	0	1	2	2	2	2	2	3	4	3	2	3	4	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:22066962C>T	uc003xbg.2	+	19	2824	c.2580C>T	c.(2578-2580)TGC>TGT	p.C860C	BMP1_uc011kzc.1_Silent_p.C609C|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	860	CUB 5.				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		CTACAGAGTGCGGGGGCCAGG	0.637													21	130					0	0	0.012319	0	0		T	22066962	T	T	22066962	2	4	45	1	0	0	0	0	0	0	0	1	1457	776	27	1		1	BMP1	8	22066962	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	81848	22066962	124297060	481	34860											
KIAA1967	57805	broad.mit.edu	37	chr8	22473348	22473348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctagaacctgctgtcatcGcacgccctggctgtgtaaac	8	9	9	15	2	1	1	1	0	0	1	2	1	1	1	3	1	3	4	3	1	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:22473348G>A	uc003xch.2	+	13	1668	c.1531G>A	c.(1531-1533)GCA>ACA	p.A511T	KIAA1967_uc003xci.2_Missense_Mutation_p.A511T|KIAA1967_uc003xcj.1_Missense_Mutation_p.A180T	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	511					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		TGCTGTCATCGCACGCCCTGG	0.572													20	117					0	0	0.008871	0	0		A	22473348	A	A	22473348	3	1	45	1	0	0	0	0	1	0	0	0	8281	1087	38	1	1577	1	KIAA1967	8	22473348	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	406386	22473348	123890674	482	34861											
LOXL2	4017	broad.mit.edu	37	chr8	23174526	23174526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaggccacgtcctccccGtcgtggcggcagtgcgccag	4	5	16	16	5	0	0	0	0	0	0	3	0	2	0	5	4	1	2	5	4	0	0	rs142665521	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:23174526G>A	uc003xdh.1	-	9	1911	c.1572C>T	c.(1570-1572)GAC>GAT	p.D524D	LOXL2_uc010lty.1_Silent_p.D63D	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	524	SRCR 4.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		CGTCCTCCCCGTCGTGGCGGC	0.652													17	97					0	0	0.004007	0	0		A	23174526	A	A	23174526	2	1	45	1	0	0	0	0	0	0	0	1	8918	1136	40	1		1	LOXL2	8	23174526	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	701178	23174526	123189496	483	34862											
NEFM	4741	broad.mit.edu	37	chr8	24771399	24771399	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgcgtcagcggctccccGtccagtggcttccgctcgca	4	7	12	18	6	1	0	1	0	0	0	5	0	4	0	5	2	2	4	5	2	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:24771399G>A	uc003xed.3	+	1	126	c.93G>A	c.(91-93)CCG>CCA	p.P31P	NEFM_uc011lac.1_Silent_p.P31P|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	31	Head.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		GCGGCTCCCCGTCCAGTGGCT	0.682													5	12					0	0	0.008291	0	0		A	24771399	A	A	24771399	2	1	45	1	0	0	0	0	0	0	0	1	10335	1132	40	1		1	NEFM	8	24771399	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1596873	24771399	121592623	484	34863											
TRIM35	23087	broad.mit.edu	37	chr8	27145310	27145310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggcgacgtggctgggtcCgaggtcacgcagtggtcccc	5	6	18	12	4	1	0	1	0	0	0	3	2	3	0	3	6	0	2	3	6	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:27145310C>T	uc003xfl.1	-	6	1321	c.1239G>A	c.(1237-1239)TCG>TCA	p.S413S	TRIM35_uc010lup.1_3'UTR	NM_171982	NP_741983	Q9UPQ4	TRI35_HUMAN	tripartite motif-containing 35 isoform 2	413	B30.2/SPRY.				apoptosis|induction of apoptosis|negative regulation of mitotic cell cycle	cytoplasm|nucleus	zinc ion binding				0		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|Epithelial(17;9.34e-10)|Colorectal(74;0.141)		TGGCTGGGTCCGAGGTCACGC	0.682													4	24					0	0	0.000602	0	0		T	27145310	T	T	27145310	2	4	45	1	0	0	0	0	0	0	0	1	16535	639	23	1		1	TRIM35	8	27145310	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2373911	27145310	119218712	485	34864											
INTS9	55756	broad.mit.edu	37	chr8	28625830	28625830	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctccaccttaatatcacTgaagccatgctgctccagaa	11	10	6	14	0	1	2	1	1	0	1	4	2	4	2	5	0	3	2	5	0	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:28625830T>C	uc003xha.2	-	17	2109	c.1810A>G	c.(1810-1812)AGT>GGT	p.S604G	INTS9_uc011lav.1_Missense_Mutation_p.S580G|INTS9_uc011law.1_Missense_Mutation_p.S583G|INTS9_uc011lax.1_Missense_Mutation_p.S497G|INTS9_uc010lvc.2_RNA	NM_018250	NP_060720	Q9NV88	INT9_HUMAN	integrator complex subunit 9 isoform 1	604					snRNA processing	integrator complex	protein binding			central_nervous_system(1)|pancreas(1)	2		Ovarian(32;0.0439)		KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.152)		TTAATATCACTGAAGCCATGC	0.498													34	222					0	0	0.003755	0	0		C	28625830	C	C	28625830	3	2	45	1	0	0	0	0	1	0	0	0	7801	1580	55	3	170	3	INTS9	8	28625830	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1480520	28625830	117738192	486	34865											
KIF13B	23303	broad.mit.edu	37	chr8	29005051	29005051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcatacataagcctctggcGctccagtgcagatcgttttt	8	13	8	12	2	2	1	1	0	1	1	4	1	3	1	2	1	3	3	2	1	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:29005051G>A	uc003xhh.3	-	17	1941	c.1882C>T	c.(1882-1884)CGC>TGC	p.R628C	KIF13B_uc003xhj.2_Missense_Mutation_p.R525C	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	628	Potential.				microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		AGCCTCTGGCGCTCCAGTGCA	0.453													6	42					0	0	0.004482	0	0		A	29005051	A	A	29005051	3	1	45	1	0	0	0	0	1	0	0	0	8291	1087	38	1	3694	1	KIF13B	8	29005051	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	379221	29005051	117358971	487	34866											
WRN	7486	broad.mit.edu	37	chr8	30958372	30958372	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttttttacaggtatcacGctcattgctgtggatgaggc	7	16	10	8	1	3	1	2	1	1	0	3	2	3	2	0	3	2	3	0	3	2	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:30958372G>A	uc003xio.3	+	18	2777	c.1989G>A	c.(1987-1989)ACG>ACA	p.T663T	WRN_uc010lvk.2_Silent_p.T130T	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	663	Helicase ATP-binding.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		CAGGTATCACGCTCATTGCTG	0.393			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				11	53					0	0	0.013537	0	0		A	30958372	A	A	30958372	2	1	45	1	0	0	0	0	0	0	0	1	17428	1074	38	1		1	WRN	8	30958372	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1953321	30958372	115405650	488	34867											
UNC5D	137970	broad.mit.edu	37	chr8	35579836	35579836	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacagacggagccagagtgActatggcgtggacgtcattg	10	9	14	8	3	1	3	1	1	0	2	1	5	1	5	1	3	2	0	1	3	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:35579836A>G	uc003xjr.1	+	9	1554	c.1226A>G	c.(1225-1227)GAC>GGC	p.D409G	UNC5D_uc003xjs.1_Missense_Mutation_p.D404G|UNC5D_uc003xju.1_5'Flank|UNC5D_uc003xjt.1_Missense_Mutation_p.D167G	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	409	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		AGCCAGAGTGACTATGGCGTG	0.552													42	261					0	0	0.009718	0	0		G	35579836	G	G	35579836	3	3	45	1	0	0	0	0	1	0	0	0	17021	275	10	3	1260	3	UNC5D	8	35579836	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	4621464	35579836	110784186	489	34868											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37730005	37730005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccatgggaagagggggcGccacttcttcagctgcatcc	7	8	12	14	1	2	1	1	0	1	1	4	2	4	2	3	3	2	2	3	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:37730005G>A	uc003xkm.1	-	4	2359	c.2315C>T	c.(2314-2316)GCG>GTG	p.A772V	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Missense_Mutation_p.A101V|RAB11FIP1_uc003xko.1_Missense_Mutation_p.A101V|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	772					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			AAGAGGGGGCGCCACTTCTTC	0.567													24	117					0	0	0.003954	0	0		A	37730005	A	A	37730005	3	1	45	1	0	0	0	0	1	0	0	0	12918	1087	38	1	1548	1	RAB11FIP1	8	37730005	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2150169	37730005	108634017	490	34869											
IKBKB	3551	broad.mit.edu	37	chr8	42175289	42175289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaagtgtcagctgtatcCgtaagaatttgttatgtttt	10	17	9	5	1	1	2	1	1	0	1	2	2	2	2	1	0	1	5	1	0	5	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:42175289C>T	uc003xow.1	+	12	1417	c.1240C>T	c.(1240-1242)CTT>TTT	p.L414F	IKBKB_uc010lxh.1_Missense_Mutation_p.L309F|IKBKB_uc011lco.1_RNA|IKBKB_uc010lxj.1_Missense_Mutation_p.L191F|IKBKB_uc003xox.1_Missense_Mutation_p.L135F|IKBKB_uc011lcp.1_RNA|IKBKB_uc011lcq.1_Missense_Mutation_p.L412F|IKBKB_uc010lxi.1_RNA|IKBKB_uc011lcr.1_Missense_Mutation_p.L355F	NM_001556	NP_001547	O14920	IKKB_HUMAN	inhibitor of nuclear factor kappa B kinase beta	414					anti-apoptosis|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|membrane raft	ATP binding|identical protein binding|IkappaB kinase activity			breast(3)|ovary(2)|lung(1)|skin(1)	7	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;6.21e-12)|Lung NSC(13;1.04e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;1.37e-10)|Colorectal(10;0.00102)|OV - Ovarian serous cystadenocarcinoma(14;0.00168)|Lung(22;0.00467)|LUSC - Lung squamous cell carcinoma(45;0.024)|COAD - Colon adenocarcinoma(11;0.0264)		Arsenic trioxide(DB01169)|Auranofin(DB00995)	CAGCTGTATCCGTAAGAATTT	0.428													6	92					0	0	0.001984	0	0		T	42175289	T	T	42175289	3	4	45	1	0	0	0	0	1	0	0	0	7627	666	23	1	1282	1	IKBKB	8	42175289	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4445284	42175289	104188733	491	34870											
HOOK3	84376	broad.mit.edu	37	chr8	42837826	42837826	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctagctgcagagattgttAcacctgaaatcaggtaagga	13	10	11	7	0	2	2	1	1	1	1	2	4	2	3	1	2	3	4	1	2	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:42837826A>G	uc003xpr.2	+	14	1620	c.1378A>G	c.(1378-1380)ACA>GCA	p.T460A	HOOK3_uc010lxq.1_Missense_Mutation_p.T460A	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	460					cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			AGAGATTGTTACACCTGAAAT	0.378			T	RET	papillary thyroid								7	63					0	0	0.001984	0	0		G	42837826	G	G	42837826	3	3	45	1	0	0	0	0	1	0	0	0	7300	391	14	3	1432	3	HOOK3	8	42837826	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	662537	42837826	103526196	492	34871											
PRKDC	5591	broad.mit.edu	37	chr8	48733302	48733302	+	Frame_Shift_Del	DEL	T	-	-																															gcataaaactctgaatgccaTtttgaatgtaatatttggct																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:48733302delT	uc003xqi.2	-	67	9371	c.9314delA	c.(9313-9315)AATfs	p.N3105fs	PRKDC_uc003xqj.2_Frame_Shift_Del_p.N3105fs|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3105	KIP-binding.|FAT.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CTGAATGCCATTTTGAATGTA	0.299								NHEJ					3	5	---	---	---	---						.	-	48733302	-	-	48733302	7	5	45	1	0	1	0	1	0	0	0	0	12543	1493	52	0	3156	0	PRKDC	8	48733302	Frame_Shift_Del	DEL	T	TCGA-BR-6852-01A-11D-1882-08	5895476	48733302	97630720	493	34872											
PRKDC	5591	broad.mit.edu	37	chr8	48825009	48825009	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcgaagcagcacaggaaaCgtccgcttatagagctggta	13	7	12	9	3	0	1	0	0	0	1	2	3	1	2	1	2	4	5	1	2	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:48825009C>T	uc003xqi.2	-	25	2952	c.2895G>A	c.(2893-2895)ACG>ACA	p.T965T	PRKDC_uc003xqj.2_Silent_p.T965T|PRKDC_uc011ldh.1_Silent_p.T965T	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	965					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				GCACAGGAAACGTCCGCTTAT	0.443								NHEJ					34	187					0	0	0.003755	0	0		T	48825009	T	T	48825009	2	4	45	1	0	0	0	0	0	0	0	1	12543	523	19	1		1	PRKDC	8	48825009	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	91707	48825009	97539013	494	34873											
PXDNL	137902	broad.mit.edu	37	chr8	52721799	52721799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcatcaagtgcatgcagcGgacggtgctcttaaagcaaa	13	7	11	10	2	2	0	1	0	1	0	2	1	2	1	0	2	6	5	0	2	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:52721799G>A	uc003xqu.3	-	1	207	c.106C>T	c.(106-108)CGC>TGC	p.R36C		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	36	LRRNT.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TGCATGCAGCGGACGGTGCTC	0.572													5	32					0	0	0.000602	0	0		A	52721799	A	A	52721799	3	1	45	1	0	0	0	0	1	0	0	0	12873	1116	39	1	4377	1	PXDNL	8	52721799	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3896790	52721799	93642223	495	34874											
RP1	6101	broad.mit.edu	37	chr8	55540178	55540178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgccagtgaggcatgtGcccctgaagtctgtgttttg	5	13	13	10	0	2	2	0	2	2	0	2	2	2	2	3	1	2	3	3	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:55540178G>A	uc003xsd.1	+	4	3884	c.3736G>A	c.(3736-3738)GCC>ACC	p.A1246T	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1246					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TGAGGCATGTGCCCCTGAAGT	0.458													34	135					0	0	0.003271	0	0		A	55540178	A	A	55540178	3	1	45	1	0	0	0	0	1	0	0	0	13557	1319	46	2	3746	2	RP1	8	55540178	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2818379	55540178	90823844	496	34875											
RP1	6101	broad.mit.edu	37	chr8	55540519	55540519	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgataacttggattcaacTgaagagttagaaagaggtga	16	10	11	4	0	1	6	1	3	0	3	1	7	1	7	0	2	2	1	0	2	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:55540519T>G	uc003xsd.1	+	4	4225	c.4077T>G	c.(4075-4077)ACT>ACG	p.T1359T	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1359					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TGGATTCAACTGAAGAGTTAG	0.338													7	62					0	0	0.00308	0	0		G	55540519	G	G	55540519	2	3	45	1	0	0	0	0	0	0	0	1	13557	1567	55	5		5	RP1	8	55540519	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	341	55540519	90823503	497	34876											
CYP7A1	1581	broad.mit.edu	37	chr8	59409231	59409231	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcgatgcccagaggaccacGaggtgtgtcttggccttctc	6	10	13	12	2	2	1	0	0	2	1	3	4	2	2	3	3	2	0	3	3	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:59409231G>A	uc003xtm.3	-	3	903	c.840C>T	c.(838-840)CTC>CTT	p.L280L		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	280					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				AGAGGACCACGAGGTGTGTCT	0.443									Neonatal_Giant_Cell_Hepatitis				6	206					0	0	0.001984	0	0		A	59409231	A	A	59409231	2	1	45	1	0	0	0	0	0	0	0	1	4199	1045	37	1		1	CYP7A1	8	59409231	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3868712	59409231	86954791	498	34877											
TOX	9760	broad.mit.edu	37	chr8	59728047	59728047	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggaggaggaggggacacAgccatgtttgctatagagac	12	6	17	6	0	0	1	0	0	0	1	0	6	0	5	1	6	2	2	1	6	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:59728047A>C	uc003xtw.1	-	7	1463	c.1242T>G	c.(1240-1242)GCT>GCG	p.A414A		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	414						nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				GAGGGGACACAGCCATGTTTG	0.567													10	63					0	0	0.013537	0	0		C	59728047	C	C	59728047	2	2	45	1	0	0	0	0	0	0	0	1	16403	175	7	5		5	TOX	8	59728047	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	318816	59728047	86635975	499	34878											
CHD7	55636	broad.mit.edu	37	chr8	61765914	61765914	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcaggaatgtgaggcagaGgccagctctgtgaaaaatga	15	6	14	6	0	1	4	0	3	1	1	1	5	1	5	1	3	2	3	1	3	4	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:61765914G>T	uc003xue.2	+	31	7107	c.6630G>T	c.(6628-6630)GAG>GAT	p.E2210D		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2210	Glu-rich.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GTGAGGCAGAGGCCAGCTCTG	0.502													6	35					3.59834e-05	3.79599e-05	0.001168	1	0		T	61765914	T	T	61765914	3	4	45	1	0	0	0	0	1	0	0	0	3333	991	35	5	6748	5	CHD7	8	61765914	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2037867	61765914	84598108	500	34879											
PDE7A	5150	broad.mit.edu	37	chr8	66639191	66639191	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccagtggtgattttccagtActgaggtattctacaacaaa	12	13	8	8	0	1	2	0	2	1	0	3	2	3	2	2	2	3	2	2	2	5	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:66639191A>G	uc003xvq.2	-	9	851	c.839T>C	c.(838-840)GTA>GCA	p.V280A	PDE7A_uc003xvr.2_Missense_Mutation_p.V280A|PDE7A_uc003xvp.2_Missense_Mutation_p.V254A	NM_002604	NP_002595	Q13946	PDE7A_HUMAN	phosphodiesterase 7A isoform b	280	Catalytic (By similarity).					cell fraction|cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding				0			Epithelial(68;0.0509)|BRCA - Breast invasive adenocarcinoma(89;0.111)|all cancers(69;0.168)|OV - Ovarian serous cystadenocarcinoma(28;0.238)		Dyphylline(DB00651)|Ketotifen(DB00920)	ATTTTCCAGTACTGAGGTATT	0.383													22	143					0	0	0.014323	0	0		G	66639191	G	G	66639191	3	3	45	1	0	0	0	0	1	0	0	0	11670	391	14	3	661	3	PDE7A	8	66639191	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	4873277	66639191	79724831	501	34880											
UBE2W	55284	broad.mit.edu	37	chr8	74722818	74722818	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataaacagatatgaccattgCtataaacatgaggatgaaca	19	9	7	6	0	0	4	0	3	0	1	0	5	0	5	1	1	4	1	1	1	7	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:74722818C>A	uc003xzv.2	-	4	310	c.257G>T	c.(256-258)AGC>ATC	p.S86I	UBE2W_uc003xzt.2_Missense_Mutation_p.S86I|UBE2W_uc003xzu.2_Missense_Mutation_p.S97I|UBE2W_uc003xzw.2_RNA	NM_018299	NP_060769	Q96B02	UBE2W_HUMAN	ubiquitin-conjugating enzyme E2W (putative)	86					protein K11-linked ubiquitination|protein monoubiquitination		ATP binding|protein binding|ubiquitin-protein ligase activity				0	Breast(64;0.0311)		Epithelial(68;0.0235)|all cancers(69;0.0687)|BRCA - Breast invasive adenocarcinoma(89;0.069)			ATGACCATTGCTATAAACATG	0.368													14	65					3.45872e-05	3.65971e-05	0.004007	1	0		A	74722818	A	A	74722818	3	1	45	1	0	0	0	0	1	0	0	0	16903	797	28	5	210	5	UBE2W	8	74722818	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	8083627	74722818	71641204	502	34881											
MMP16	4325	broad.mit.edu	37	chr8	89198805	89198805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgtctggtcaggtacacCgcatcggggcttcttcatcc	5	13	10	13	2	5	0	2	0	3	0	7	0	6	0	2	4	1	3	2	4	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:89198805C>T	uc003yeb.3	-	3	586	c.304G>A	c.(304-306)GGT>AGT	p.G102S	MMP16_uc003yec.2_Missense_Mutation_p.G102S	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	102	Cysteine switch (By similarity).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						TCAGGTACACCGCATCGGGGC	0.378													32	185					0	0	0.013726	0	0		T	89198805	T	T	89198805	3	4	45	1	0	0	0	0	1	0	0	0	9673	652	23	1	1707	1	MMP16	8	89198805	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	14475987	89198805	57165217	503	34882											
CALB1	793	broad.mit.edu	37	chr8	91078155	91078155	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatactcggctaattttgTgtcatcaacagtcttgtttg	8	18	8	7	1	3	0	2	0	1	0	4	0	3	0	0	1	2	3	0	1	4	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:91078155T>C	uc003yel.1	-	6	603	c.421A>G	c.(421-423)ACA>GCA	p.T141A	CALB1_uc011lge.1_Missense_Mutation_p.T84A	NM_004929	NP_004920	P05937	CALB1_HUMAN	calbindin 1	141						nucleus	calcium ion binding|vitamin D binding			pancreas(1)	1			BRCA - Breast invasive adenocarcinoma(11;0.00953)			GCTAATTTTGTGTCATCAACA	0.343													11	64					0	0	0.013537	0	0		C	91078155	C	C	91078155	3	2	45	1	0	0	0	0	1	0	0	0	2576	1696	59	3	388	3	CALB1	8	91078155	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1879350	91078155	55285867	504	34883											
GDF6	392255	broad.mit.edu	37	chr8	97157037	97157037	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcctcgtactccaggggCgcgataatccagtcgtccca	8	8	11	14	4	0	0	0	0	0	0	5	1	3	0	4	3	1	1	4	3	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:97157037C>T	uc003yhp.2	-	2	1222	c.1122G>A	c.(1120-1122)GCG>GCA	p.A374A		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	374					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					ACTCCAGGGGCGCGATAATCC	0.622													5	45					0	0	0.001984	0	0		T	97157037	T	T	97157037	2	4	45	1	0	0	0	0	0	0	0	1	6332	755	27	1		1	GDF6	8	97157037	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6078882	97157037	49206985	505	34884											
TSPYL5	85453	broad.mit.edu	37	chr8	98289908	98289908	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccaccccaccccgcgccAgcctgcacctgtgccgcctg	5	4	10	22	3	0	0	0	0	0	0	0	0	0	0	10	1	3	1	10	1	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:98289908A>G	uc003yhy.2	-	1	269	c.165T>C	c.(163-165)GCT>GCC	p.A55A		NM_033512	NP_277047	Q86VY4	TSYL5_HUMAN	TSPY-like 5	55					cellular response to gamma radiation|nucleosome assembly|positive regulation of cell proliferation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|regulation of growth	nucleus	protein binding			large_intestine(1)|ovary(1)	2	Breast(36;2.56e-06)					ACCCCGCGCCAGCCTGCACCT	0.751													5	9					0	0	0.000602	0	0		G	98289908	G	G	98289908	2	3	45	1	0	0	0	0	0	0	0	1	16688	175	7	3		3	TSPYL5	8	98289908	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1132871	98289908	48074114	506	34885											
POP1	10940	broad.mit.edu	37	chr8	99168525	99168525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccatagagcaccccagggagGcagaggaggtaatggatgca	13	4	15	9	0	0	2	0	0	0	2	0	5	0	5	3	5	2	4	3	5	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:99168525G>A	uc003yij.3	+	15	2405	c.2305G>A	c.(2305-2307)GCA>ACA	p.A769T	POP1_uc011lgv.1_Missense_Mutation_p.A769T|POP1_uc003yik.2_Missense_Mutation_p.A769T	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	769					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			CCCCAGGGAGGCAGAGGAGGT	0.537													20	153					0	0	0.014323	0	0		A	99168525	A	A	99168525	3	1	45	1	0	0	0	0	1	0	0	0	12270	1203	42	2	2359	2	POP1	8	99168525	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	878617	99168525	47195497	507	34886											
VPS13B	157680	broad.mit.edu	37	chr8	100523683	100523683	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctttgatttatgtcaacAcaagtgtaatcagaattttt	13	17	5	6	0	2	2	2	1	0	1	2	2	2	2	1	0	2	1	1	0	6	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:100523683A>G	uc003yiv.2	+	29	4762	c.4651A>G	c.(4651-4653)ACA>GCA	p.T1551A	VPS13B_uc003yiw.2_Missense_Mutation_p.T1526A|VPS13B_uc003yix.1_Missense_Mutation_p.T1021A	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1551					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TTATGTCAACACAAGTGTAAT	0.343													6	44					0	0	0.001984	0	0		G	100523683	G	G	100523683	3	3	45	1	0	0	0	0	1	0	0	0	17216	159	6	3	4955	3	VPS13B	8	100523683	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1355158	100523683	45840339	508	34887											
RGS22	26166	broad.mit.edu	37	chr8	101076163	101076163	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttgtagagatacagacAcctcttcttcttctccttct	7	17	5	12	0	6	2	0	0	6	2	7	3	6	2	2	0	1	1	2	0	2	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:101076163A>C	uc003yjb.1	-	8	1028	c.833T>G	c.(832-834)GTG>GGG	p.V278G	RGS22_uc003yja.1_Missense_Mutation_p.V97G|RGS22_uc003yjc.1_Missense_Mutation_p.V266G|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	278					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			AGATACAGACACCtcttcttc	0.333													34	179					0	0	0.012213	0	0		C	101076163	C	C	101076163	3	2	45	1	0	0	0	0	1	0	0	0	13330	159	6	5	3041	5	RGS22	8	101076163	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	552480	101076163	45287859	509	34888											
PABPC1	26986	broad.mit.edu	37	chr8	101733798	101733798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggccatggggtagctggggGcactggggttcatctcggca	6	8	18	9	1	2	0	1	0	1	0	3	0	2	0	1	8	1	5	1	8	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:101733798G>A	uc003yjs.1	-	1	518	c.14C>T	c.(13-15)GCC>GTC	p.A5V	PABPC1_uc011lhc.1_Missense_Mutation_p.A5V|PABPC1_uc011lhd.1_Intron|PABPC1_uc003yjt.1_Missense_Mutation_p.A5V|PABPC1_uc003yju.2_RNA	NM_002568	NP_002559	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	5					mRNA polyadenylation|mRNA stabilization|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|translation	catalytic step 2 spliceosome|cytosol	nucleotide binding|poly(A) RNA binding|protein C-terminus binding|translation activator activity				0	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			GTAGCTGGGGGCACTGGGGTT	0.716													8	31					0	0	0.00308	0	0		A	101733798	A	A	101733798	3	1	45	1	0	0	0	0	1	0	0	0	11382	1203	42	2	1952	2	PABPC1	8	101733798	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	657635	101733798	44630224	510	34889											
NCALD	83988	broad.mit.edu	37	chr8	102731832	102731832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctgcatgacctccgggCgcagcttgctgttctgtttc	4	13	11	13	2	1	1	0	1	1	0	4	1	3	1	3	1	3	6	3	1	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:102731832C>T	uc003yke.2	-	2	395	c.26G>A	c.(25-27)CGC>CAC	p.R9H	NCALD_uc003ykf.2_Missense_Mutation_p.R9H|NCALD_uc003ykg.2_Missense_Mutation_p.R9H|NCALD_uc003ykh.2_Missense_Mutation_p.R9H|NCALD_uc003yki.2_Missense_Mutation_p.R9H|NCALD_uc003ykj.2_Missense_Mutation_p.R9H|NCALD_uc003ykk.2_Missense_Mutation_p.R9H|NCALD_uc003ykl.2_Missense_Mutation_p.R9H	NM_032041	NP_114430	P61601	NCALD_HUMAN	neurocalcin delta	9					synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)			GACCTCCGGGCGCAGCTTGCT	0.478													19	92					0	0	0.008871	0	0		T	102731832	T	T	102731832	3	4	45	1	0	0	0	0	1	0	0	0	10220	768	27	1	567	1	NCALD	8	102731832	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	998034	102731832	43632190	511	34890											
RIMS2	9699	broad.mit.edu	37	chr8	105010452	105010452	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctccagatacagtcagacCattgaccatcatcacaggga	13	7	8	13	1	3	3	3	1	0	2	4	4	4	4	3	1	1	1	3	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:105010452C>A	uc003yls.2	+	16	2659	c.2418C>A	c.(2416-2418)ACC>ACA	p.T806T	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Silent_p.T820T|RIMS2_uc003ylq.2_Silent_p.T820T|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			ACAGTCAGACCATTGACCATC	0.363										HNSCC(12;0.0054)			23	77					1.04121e-07	1.13074e-07	0.005443	1	0		A	105010452	A	A	105010452	2	1	45	1	0	0	0	0	0	0	0	1	13393	581	21	5		5	RIMS2	8	105010452	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2278620	105010452	41353570	512	34891											
NUDCD1	84955	broad.mit.edu	37	chr8	110308619	110308619	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacaaaccctcacctcccaTttttcagaagcgctatttcc	12	11	3	15	1	2	1	2	0	0	1	4	1	4	1	4	0	3	1	4	0	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:110308619T>A	uc003ynb.3	-	3	564	c.453A>T	c.(451-453)AAA>AAT	p.K151N	NUDCD1_uc003yna.2_Missense_Mutation_p.K122N|NUDCD1_uc010mcl.2_Missense_Mutation_p.K64N|NUDCD1_uc010mcm.1_Missense_Mutation_p.K64N	NM_032869	NP_116258	Q96RS6	NUDC1_HUMAN	NudC domain containing 1 isoform 1	151										ovary(1)|breast(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;1.56e-12)			TCACCTCCCATTTTTCAGAAG	0.383													30	120					0	0	0.012213	0	0		A	110308619	A	A	110308619	3	1	45	1	0	0	0	0	1	0	0	0	10741	1490	52	5	1330	5	NUDCD1	8	110308619	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	5298167	110308619	36055403	513	34892											
CSMD3	114788	broad.mit.edu	37	chr8	113657441	113657441	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactaggccctctaacatcTcctccacataatgctgaaat	12	10	4	15	0	2	1	0	1	2	0	4	1	3	1	4	1	2	1	4	1	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:113657441T>G	uc003ynu.2	-	20	3366	c.3207A>C	c.(3205-3207)GGA>GGC	p.G1069G	CSMD3_uc003yns.2_Silent_p.G341G|CSMD3_uc003ynt.2_Silent_p.G1029G|CSMD3_uc011lhx.1_Silent_p.G965G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1069	Extracellular (Potential).|CUB 6.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CTCTAACATCTCCTCCACATA	0.413										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			19	79					0	0	0.012319	0	0		G	113657441	G	G	113657441	2	3	45	1	0	0	0	0	0	0	0	1	3949	1538	54	5		5	CSMD3	8	113657441	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	3348822	113657441	32706581	514	34893											
CSMD3	114788	broad.mit.edu	37	chr8	113966979	113966979	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctagatttaaaatctaTggcctttttcactagttaag	11	17	5	8	0	3	1	1	0	2	1	4	1	4	1	2	1	0	1	2	1	6	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:113966979T>C	uc003ynu.2	-	8	1513	c.1354A>G	c.(1354-1356)ATA>GTA	p.I452V	CSMD3_uc003ynt.2_Missense_Mutation_p.I412V|CSMD3_uc011lhx.1_Missense_Mutation_p.I348V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	452	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TTAAAATCTATGGCCTTTTTC	0.284										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			6	27					0	0	0.001984	0	0		C	113966979	C	C	113966979	3	2	45	1	0	0	0	0	1	0	0	0	3949	1464	51	3	10025	3	CSMD3	8	113966979	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	309538	113966979	32397043	515	34894											
COLEC10	10584	broad.mit.edu	37	chr8	120114599	120114599	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcaggtgacaaaggggAaaaaggtttgcttggaatac	13	12	12	4	0	1	1	1	1	0	0	1	3	1	3	0	5	2	2	0	5	5	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:120114599A>G	uc003yoo.2	+	4	402	c.305A>G	c.(304-306)GAA>GGA	p.E102G		NM_006438	NP_006429	Q9Y6Z7	COL10_HUMAN	collectin sub-family member 10 precursor	102	Collagen-like.					collagen|cytoplasm	mannose binding	p.E102K(1)		ovary(2)|skin(1)	3	all_cancers(13;4.13e-26)|Lung NSC(37;1.36e-07)|Ovarian(258;0.018)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00113)			GACAAAGGGGAAAAAGGTTTG	0.249													10	45					0	0	0.008291	0	0		G	120114599	G	G	120114599	3	3	45	1	0	0	0	0	1	0	0	0	3713	246	9	3	319	3	COLEC10	8	120114599	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	6147620	120114599	26249423	516	34895											
ZHX2	22882	broad.mit.edu	37	chr8	123964734	123964734	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccccagaagaggtggaggaGgcccggaagaagatgttcaa	13	5	15	8	1	1	4	1	0	0	4	2	7	2	7	3	5	0	1	3	5	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:123964734G>T	uc003ypk.1	+	3	1551	c.984G>T	c.(982-984)GAG>GAT	p.E328D		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	328	Required for interaction with NFYA.|Required for homodimerization.|Required for repressor activity.|Required for nuclear localization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			AGGTGGAGGAGGCCCGGAAGA	0.597													5	129					0.000602214	0.000624948	0.000602	1	0		T	123964734	T	T	123964734	3	4	45	1	0	0	0	0	1	0	0	0	17701	991	35	5	986	5	ZHX2	8	123964734	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3850135	123964734	22399288	517	34896											
FBXO32	114907	broad.mit.edu	37	chr8	124544175	124544175	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcttctggaatccagaatgGcagttgagaagtccagtctg	11	11	11	8	0	3	2	0	1	3	2	5	4	5	3	2	2	0	2	2	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:124544175G>A	uc003yqr.2	-	4	527	c.335C>T	c.(334-336)GCC>GTC	p.A112V	FBXO32_uc003yqq.2_5'UTR|FBXO32_uc010mdk.2_Missense_Mutation_p.A112V	NM_058229	NP_478136	Q969P5	FBX32_HUMAN	F-box only protein 32 isoform 1	112										skin(3)|breast(2)|lung(1)	6	Lung NSC(37;1.13e-13)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			ATCCAGAATGGCAGTTGAGAA	0.478													26	109					0	0	0.00632	0	0		A	124544175	A	A	124544175	3	1	45	1	0	0	0	0	1	0	0	0	5756	1203	42	2	756	2	FBXO32	8	124544175	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	579441	124544175	21819847	518	34897											
FAM91A1	157769	broad.mit.edu	37	chr8	124797903	124797903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtattgccgattgggctttgCccataagaagggacaagtaa	12	10	12	7	1	0	1	0	0	0	1	0	3	0	2	2	2	2	3	2	2	5	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:124797903C>T	uc003yqv.2	+	11	945	c.884C>T	c.(883-885)GCC>GTC	p.A295V	FAM91A1_uc011lik.1_Missense_Mutation_p.A295V|FAM91A1_uc011lil.1_Missense_Mutation_p.A53V	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769	295										ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			TTGGGCTTTGCCCATAAGAAG	0.308													5	106					0	0	0.001984	0	0		T	124797903	T	T	124797903	3	4	45	1	0	0	0	0	1	0	0	0	5665	739	26	2	926	2	FAM91A1	8	124797903	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	253728	124797903	21566119	519	34898											
NSMCE2	286053	broad.mit.edu	37	chr8	126114681	126114681	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaagcctgtatcaactctGgtatggacacagcttctagt	10	12	8	11	0	3	0	1	0	2	0	4	1	4	1	2	2	3	3	2	2	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:126114681G>T	uc003yrw.2	+	3	337	c.109G>T	c.(109-111)GGT>TGT	p.G37C	NSMCE2_uc003yrv.2_Missense_Mutation_p.G37C	NM_173685	NP_775956	Q96MF7	NSE2_HUMAN	non-SMC element 2, MMS21 homolog	37					DNA recombination|DNA repair	nucleus	ligase activity|zinc ion binding			breast(1)	1	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)			TATCAACTCTGGTATGGACAC	0.418													17	137					5.3912e-06	5.74352e-06	0.006122	1	0		T	126114681	T	T	126114681	3	4	45	1	0	0	0	0	1	0	0	0	10695	1348	47	5	111	5	NSMCE2	8	126114681	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1316778	126114681	20249341	520	34899											
EFR3A	23167	broad.mit.edu	37	chr8	132952816	132952816	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaacatattccctgaagaTccaaaagtaatttgatctac	16	11	5	9	0	1	3	0	2	1	1	3	4	3	3	2	0	2	1	2	0	7	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:132952816T>C	uc003yte.2	+	2	282	c.81T>C	c.(79-81)GAT>GAC	p.D27D		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	27						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			TCCCTGAAGATCCAAAAGTAA	0.423													4	15					0	0	0.001168	0	0		C	132952816	C	C	132952816	2	2	45	1	0	0	0	0	0	0	0	1	4964	1432	50	3		3	EFR3A	8	132952816	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	6838135	132952816	13411206	521	34900											
PHF20L1	51105	broad.mit.edu	37	chr8	133790097	133790097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtaaaaagcccccaaatcGccctggaatcacttttgaga	14	8	8	11	1	1	1	1	1	0	1	2	4	1	2	3	1	1	1	3	1	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:133790097G>A	uc003ytt.2	+	2	348	c.23G>A	c.(22-24)CGC>CAC	p.R8H	PHF20L1_uc003ytr.2_Missense_Mutation_p.R8H|PHF20L1_uc010mdv.2_Missense_Mutation_p.R8H|PHF20L1_uc003yts.2_Missense_Mutation_p.R8H|PHF20L1_uc011lja.1_Missense_Mutation_p.R8H|PHF20L1_uc003ytu.1_RNA|PHF20L1_uc003ytq.2_Missense_Mutation_p.R8H	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	8							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			CCCCCAAATCGCCCTGGAATC	0.363													5	142					0	0	0.001168	0	0		A	133790097	A	A	133790097	3	1	45	1	0	0	0	0	1	0	0	0	11851	1087	38	1	25	1	PHF20L1	8	133790097	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	837281	133790097	12573925	522	34901											
KHDRBS3	10656	broad.mit.edu	37	chr8	136569807	136569807	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaccttgcgtacaagaggTgtaccagccccagcaataac	12	6	8	15	1	0	1	0	0	0	1	0	1	0	1	5	1	6	3	5	1	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:136569807T>C	uc003yuv.2	+	5	982	c.588T>C	c.(586-588)GGT>GGC	p.G196G	KHDRBS3_uc003yuw.2_Silent_p.G196G	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal	196					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			GTACAAGAGGTGTACCAGCCC	0.428													25	90					0	0	0.005443	0	0		C	136569807	C	C	136569807	2	2	45	1	0	0	0	0	0	0	0	1	8164	1683	59	3		3	KHDRBS3	8	136569807	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2779710	136569807	9794215	523	34902											
DENND3	22898	broad.mit.edu	37	chr8	142199100	142199100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttagaactgcatggtgatgGccgaccagaaccaggtgtgg	10	8	15	8	1	0	3	0	1	0	2	0	4	0	3	3	4	3	2	3	4	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:142199100G>A	uc003yvy.2	+	19	3138	c.2860G>A	c.(2860-2862)GCC>ACC	p.A954T	DENND3_uc010mep.2_Missense_Mutation_p.A915T|DENND3_uc003ywa.1_Missense_Mutation_p.A4T|DENND3_uc003ywb.2_Missense_Mutation_p.A4T	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	954										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			CATGGTGATGGCCGACCAGAA	0.403													9	48					0	0	0.006214	0	0		A	142199100	A	A	142199100	3	1	45	1	0	0	0	0	1	0	0	0	4438	1203	42	2	2930	2	DENND3	8	142199100	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5629293	142199100	4164922	524	34903											
GPR20	2843	broad.mit.edu	37	chr8	142367165	142367165	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccatgcagctgttgaggcTgctgagggtcacggccacgt	6	9	15	11	2	1	2	1	2	0	0	2	2	2	2	2	3	3	5	2	3	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:142367165T>C	uc003ywf.2	-	2	948	c.859A>G	c.(859-861)AGC>GGC	p.S287G		NM_005293	NP_005284	Q99678	GPR20_HUMAN	G protein-coupled receptor 20	287	Helical; Name=7; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(97;4.32e-16)|all_epithelial(106;6.61e-14)|Lung NSC(106;9.4e-06)|all_lung(105;1.35e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0415)			CTGTTGAGGCTGCTGAGGGTC	0.667													14	74					0	0	0.001855	0	0		C	142367165	C	C	142367165	3	2	45	1	0	0	0	0	1	0	0	0	6695	1580	55	3	221	3	GPR20	8	142367165	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	168065	142367165	3996857	525	34904											
LY6D	8581	broad.mit.edu	37	chr8	143867043	143867043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcgagagctggccgggCagaccacagaatgcttgcag	12	4	15	10	2	0	4	0	0	0	4	0	5	0	4	2	2	4	4	2	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:143867043C>T	uc003yxf.1	-	2	189	c.113G>A	c.(112-114)TGC>TAC	p.C38Y		NM_003695	NP_003686	Q14210	LY6D_HUMAN	lymphocyte antigen 6 complex, locus D precursor	38	UPAR/Ly6.				cell adhesion	anchored to membrane|membrane fraction|plasma membrane	protein binding				0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					GCTGGCCGGGCAGACCACAGA	0.647													18	96					0	0	0.007413	0	0		T	143867043	T	T	143867043	3	4	45	1	0	0	0	0	1	0	0	0	9108	710	25	2	281	2	LY6D	8	143867043	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1499878	143867043	2496979	526	34905											
GPIHBP1	338328	broad.mit.edu	37	chr8	144296900	144296900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccccagtgctgctgcggtGctacacctgcaagtccctgc	5	9	11	16	1	0	0	0	0	0	0	2	0	2	0	4	1	7	4	4	1	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:144296900G>A	uc003yxu.1	+	3	269	c.194G>A	c.(193-195)TGC>TAC	p.C65Y		NM_178172	NP_835466	Q8IV16	HDBP1_HUMAN	glycosylphosphatidylinositol anchored high	65	UPAR/Ly6.				cholesterol homeostasis|intracellular protein transport|positive regulation of chylomicron remnant clearance|positive regulation of lipoprotein lipase activity|protein import|protein localization at cell surface|protein stabilization|response to heparin|triglyceride homeostasis	anchored to external side of plasma membrane|apical plasma membrane|basolateral plasma membrane|high-density lipoprotein particle|integral to membrane|intracellular	apolipoprotein binding|chylomicron binding|lipase binding|lipid binding|protein transmembrane transporter activity				0	all_cancers(97;6.49e-11)|all_epithelial(106;2.77e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					CTGCTGCGGTGCTACACCTGC	0.672													4	16					0	0	0.009096	0	0		A	144296900	A	A	144296900	3	1	45	1	0	0	0	0	1	0	0	0	6627	1319	46	2	204	2	GPIHBP1	8	144296900	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	429857	144296900	2067122	527	34906											
ZNF696	79943	broad.mit.edu	37	chr8	144378828	144378828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgcggccactgcgggcGcgcgttccgggcgctgtcgg	2	6	18	15	8	0	0	0	0	0	0	2	0	1	0	3	4	2	2	3	4	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:144378828G>A	uc003yxy.3	+	3	1392	c.983G>A	c.(982-984)CGC>CAC	p.R328H		NM_030895	NP_112157	Q9H7X3	ZN696_HUMAN	zinc finger protein 696	328	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			CACTGCGGGCGCGCGTTCCGG	0.736													3	12					0	0	0.004672	0	0		A	144378828	A	A	144378828	3	1	45	1	0	0	0	0	1	0	0	0	18124	1087	38	1	989	1	ZNF696	8	144378828	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	81928	144378828	1985194	528	34907											
EEF1D	1936	broad.mit.edu	37	chr8	144662275	144662275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctgtagcttccggataccGtagcccacgggcaccagctt	8	9	10	14	3	1	0	0	0	1	0	2	1	2	1	4	2	4	5	4	2	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:144662275G>A	uc011lki.1	-	7	983	c.714C>T	c.(712-714)TAC>TAT	p.Y238Y	NAPRT1_uc003yym.3_5'Flank|NAPRT1_uc003yyn.3_5'Flank|NAPRT1_uc011lkh.1_5'Flank|NAPRT1_uc003yyo.3_5'Flank|EEF1D_uc003yyp.1_Silent_p.Y580Y|EEF1D_uc003yyq.1_Silent_p.Y654Y|EEF1D_uc011lkj.1_Silent_p.Y603Y|EEF1D_uc003yyr.2_Silent_p.Y604Y|EEF1D_uc003yyt.2_Silent_p.Y604Y|EEF1D_uc011lkk.1_Silent_p.Y238Y|EEF1D_uc003yys.2_Silent_p.Y238Y|EEF1D_uc003yyv.2_Silent_p.Y214Y|EEF1D_uc003yyu.2_Silent_p.Y238Y|EEF1D_uc011lkl.1_Silent_p.Y219Y	NM_001130057	NP_001123529	P29692	EF1D_HUMAN	eukaryotic translation elongation factor 1 delta	238					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|signal transducer activity|translation elongation factor activity			ovary(1)|kidney(1)|skin(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			TCCGGATACCGTAGCCCACGG	0.607													12	65					0	0	0.013537	0	0		A	144662275	A	A	144662275	2	1	45	1	0	0	0	0	0	0	0	1	4932	1140	40	1		1	EEF1D	8	144662275	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	283447	144662275	1701747	529	34908											
FAM83H	286077	broad.mit.edu	37	chr8	144808253	144808253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacacgcgcttctccttgcgCatgctctccatgcggcgcag	5	10	10	16	5	2	0	0	0	2	0	4	0	2	0	2	1	4	4	2	1	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:144808253C>T	uc003yzk.2	-	5	3447	c.3378G>A	c.(3376-3378)ATG>ATA	p.M1126I	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	1126					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			TCTCCTTGCGCATGCTCTCCA	0.697													5	20					0	0	0.000602	0	0		T	144808253	T	T	144808253	3	4	45	1	0	0	0	0	1	0	0	0	5654	710	25	2	165	2	FAM83H	8	144808253	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	145978	144808253	1555769	530	34909											
SCRIB	23513	broad.mit.edu	37	chr8	144885649	144885649	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgcaccgcctcgccgtgCgtcaggcccagcaggctctg	5	6	13	17	4	2	0	1	0	1	0	3	0	2	0	4	2	4	4	4	2	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:144885649C>T	uc003yzp.1	-	24	3514	c.3507G>A	c.(3505-3507)ACG>ACA	p.T1169T	SCRIB_uc003yzn.1_5'UTR|SCRIB_uc003yzo.1_Silent_p.T1169T	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	1169	PDZ 4.|Interaction with ARHGEF7.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			CCTCGCCGTGCGTCAGGCCCA	0.701													4	32					0	0	0.001168	0	0		T	144885649	T	T	144885649	2	4	45	1	0	0	0	0	0	0	0	1	13962	755	27	1		1	SCRIB	8	144885649	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	77396	144885649	1478373	531	34910											
SCRIB	23513	broad.mit.edu	37	chr8	144890967	144890967	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccattgtgccagccccCgggagccacagggccctccc	5	4	14	18	1	0	0	0	0	0	0	1	1	1	1	7	4	3	0	7	4	0	1	rs147171813		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:144890967C>A	uc003yzp.1	-	15	1934	c.1927G>T	c.(1927-1929)GGG>TGG	p.G643W	SCRIB_uc003yzo.1_Missense_Mutation_p.G643W	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	643	Sufficient for targeting to adherens junction and to inhibit cell proliferation.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			TGCCAGCCCCCGGGAGCCACA	0.493													11	129					4.68919e-08	5.10819e-08	0.008291	1	0		A	144890967	A	A	144890967	3	1	45	1	0	0	0	0	1	0	0	0	13962	652	23	5	3132	5	SCRIB	8	144890967	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	5318	144890967	1473055	532	34911											
SCRT1	83482	broad.mit.edu	37	chr8	145559733	145559733	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctttatcgtgcagtggCgcgccgaggtcgctgcgggc	4	9	15	13	6	1	0	1	0	0	0	3	1	1	0	2	3	2	2	2	3	1	2	rs142851592	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:145559733C>T	uc003zbw.1	-	1	211	c.99G>A	c.(97-99)GCG>GCA	p.A33A		NM_031309	NP_112599	Q9BWW7	SCRT1_HUMAN	scratch	33						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.35e-39)|all cancers(56;1.37e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			CGTGCAGTGGCGCGCCGAGGT	0.672													4	23					0	0	0.001168	0	0		T	145559733	T	T	145559733	2	4	45	1	0	0	0	0	0	0	0	1	13966	755	27	1		1	SCRT1	8	145559733	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	668766	145559733	804289	533	34912											
SLC39A4	55630	broad.mit.edu	37	chr8	145638044	145638044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcccgtactttcaacatcgCcgggagctgaggagcaagtg	9	8	13	11	3	1	1	1	1	0	0	3	3	2	3	2	2	4	3	2	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:145638044C>T	uc003zcq.2	-	12	1922	c.1822G>A	c.(1822-1824)GCG>ACG	p.A608T	SLC39A4_uc003zcm.1_3'UTR|SLC39A4_uc003zcn.2_Missense_Mutation_p.A110T|SLC39A4_uc003zco.2_Missense_Mutation_p.A332T|SLC39A4_uc003zcp.2_Missense_Mutation_p.A583T	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	608	Cytoplasmic (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|recycling endosome membrane	zinc ion transmembrane transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			TTCAACATCGCCGGGAGCTGA	0.687													7	79					0	0	0.001984	0	0		T	145638044	T	T	145638044	3	4	45	1	0	0	0	0	1	0	0	0	14645	739	26	2	125	2	SLC39A4	8	145638044	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	78311	145638044	725978	534	34913											
SLC39A4	55630	broad.mit.edu	37	chr8	145640473	145640473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccctgcccacccccaggCgctgcatcaaggctgacagc	7	5	9	20	1	1	1	1	1	0	0	2	1	2	1	5	2	3	3	5	2	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr8:145640473C>T	uc003zcq.2	-	4	789	c.689G>A	c.(688-690)CGC>CAC	p.R230H	SLC39A4_uc003zcm.1_5'Flank|SLC39A4_uc003zcn.2_5'Flank|SLC39A4_uc003zco.2_5'UTR|SLC39A4_uc003zcp.2_Missense_Mutation_p.R205H	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	230	Extracellular (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|recycling endosome membrane	zinc ion transmembrane transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			CACCCCCAGGCGCTGCATCAA	0.682													17	84					0	0	0.006122	0	0		T	145640473	T	T	145640473	3	4	45	1	0	0	0	0	1	0	0	0	14645	768	27	1	1290	1	SLC39A4	8	145640473	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2429	145640473	723549	535	34914											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													7	193					0	0	0.00308	0	0		G	164038	G	G	164038	5	3	45	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-6852-01A-11D-1882-08		164038	141049393	536	34915											
DOCK8	81704	broad.mit.edu	37	chr9	429720	429720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtttggagacttactctttGaagaggaggtggaacagtgt	11	12	14	4	0	1	3	0	1	1	2	1	6	1	5	0	4	2	1	0	4	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:429720G>A	uc003zgf.2	+	36	4604	c.4492G>A	c.(4492-4494)GAA>AAA	p.E1498K	DOCK8_uc010mgu.2_Missense_Mutation_p.E800K|DOCK8_uc010mgv.2_Missense_Mutation_p.E1398K|DOCK8_uc003zgk.2_Missense_Mutation_p.E956K	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	1498	DHR-2.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		CTTACTCTTTGAAGAGGAGGT	0.488													13	71					0	0	0.00499	0	0		A	429720	A	A	429720	3	1	45	1	0	0	0	0	1	0	0	0	4699	1291	45	4	4634	4	DOCK8	9	429720	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	265682	429720	140783711	537	34916											
DMRT3	58524	broad.mit.edu	37	chr9	990618	990618	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacgttgaggttttctgcCgactctagcaacgttgtccc	7	12	10	12	3	2	1	0	1	2	0	3	3	3	1	2	1	3	4	2	1	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:990618C>T	uc003zgw.1	+	2	1070	c.1032C>T	c.(1030-1032)GCC>GCT	p.A344A		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	344					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		GGTTTTCTGCCGACTCTAGCA	0.577													5	126					0	0	0.000602	0	0		T	990618	T	T	990618	2	4	45	1	0	0	0	0	0	0	0	1	4593	639	23	1		1	DMRT3	9	990618	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	560898	990618	140222813	538	34917											
KIAA0020	9933	broad.mit.edu	37	chr9	2811383	2811383	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgtccttgccaccaggaTgcagtcctgttgctgccaag	6	10	10	15	1	0	0	0	0	0	0	3	1	3	1	6	1	4	3	6	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:2811383T>C	uc003zhp.1	-	15	1709	c.1613A>G	c.(1612-1614)CAT>CGT	p.H538R	KIAA0020_uc010mhc.1_Missense_Mutation_p.H537R|KIAA0020_uc003zhq.1_Missense_Mutation_p.H537R	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	538						endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		GCCACCAGGATGCAGTCCTGT	0.527													7	169					0	0	0.004482	0	0		C	2811383	C	C	2811383	3	2	45	1	0	0	0	0	1	0	0	0	8168	1464	51	3	349	3	KIAA0020	9	2811383	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1820765	2811383	138402048	539	34918											
ZDHHC21	340481	broad.mit.edu	37	chr9	14674235	14674235	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatagtgaggaaagaggAcaattttgggaattaaaaca	17	10	10	4	0	1	2	1	1	0	1	1	5	1	5	0	3	1	0	0	3	6	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:14674235A>T	uc003zli.2	-	4	574	c.104T>A	c.(103-105)GTC>GAC	p.V35D	ZDHHC21_uc003zlg.1_Intron	NM_178566	NP_848661	Q8IVQ6	ZDH21_HUMAN	zinc finger, DHHC-type containing 21	35	Helical; (Potential).				nitric oxide metabolic process|regulation of nitric-oxide synthase activity	Golgi membrane|integral to membrane	palmitoyltransferase activity|zinc ion binding				0				GBM - Glioblastoma multiforme(50;4.31e-06)		AGGAAAGAGGACAATTTTGGG	0.328													7	79					0	0	0.00308	0	0		T	14674235	T	T	14674235	3	4	45	1	0	0	0	0	1	0	0	0	17637	275	10	5	713	5	ZDHHC21	9	14674235	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	11862852	14674235	126539196	540	34919											
FREM1	158326	broad.mit.edu	37	chr9	14859279	14859279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctggcagccgagttctcGcagtgtccaggctgacggta	6	8	16	11	3	1	1	0	1	1	0	3	2	2	1	2	4	1	6	2	4	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:14859279G>A	uc003zlm.2	-	4	1123	c.533C>T	c.(532-534)GCG>GTG	p.A178V	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	178					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		CCGAGTTCTCGCAGTGTCCAG	0.527													33	134					0	0	0.013726	0	0		A	14859279	A	A	14859279	3	1	45	1	0	0	0	0	1	0	0	0	6058	1087	38	1	6192	1	FREM1	9	14859279	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	185044	14859279	126354152	541	34920											
TTC39B	158219	broad.mit.edu	37	chr9	15214143	15214143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagtaaattaccaggggCgaagcaattctaaggcgtct	15	8	10	8	2	2	0	0	0	2	0	2	1	2	0	1	3	2	2	1	3	7	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:15214143C>T	uc003zlr.1	-	4	399	c.278G>A	c.(277-279)CGC>CAC	p.R93H	TTC39B_uc003zlq.1_Missense_Mutation_p.R62H|TTC39B_uc011lmp.1_5'UTR|TTC39B_uc010mie.1_Missense_Mutation_p.R93H|TTC39B_uc011lmq.1_Missense_Mutation_p.R93H|TTC39B_uc011lmr.1_Intron|TTC39B_uc010mif.1_Missense_Mutation_p.R93H|TTC39B_uc003zls.1_5'UTR|TTC39B_uc010mig.1_Missense_Mutation_p.R62H|TTC39B_uc011lms.1_RNA	NM_152574	NP_689787	Q5VTQ0	TT39B_HUMAN	tetratricopeptide repeat domain 39B	93							binding			ovary(1)	1						TTACCAGGGGCGAAGCAATTC	0.368													8	42					0	0	0.006214	0	0		T	15214143	T	T	15214143	3	4	45	1	0	0	0	0	1	0	0	0	16734	768	27	1	1661	1	TTC39B	9	15214143	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	354864	15214143	125999288	542	34921											
TEK	7010	broad.mit.edu	37	chr9	27204916	27204916	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctgcacagcaccagcGgacctcggaggggggaagat	9	6	14	12	2	1	1	0	0	1	1	3	4	2	4	3	5	3	2	3	5	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:27204916G>A	uc003zqi.3	+	14	2659	c.2217G>A	c.(2215-2217)GCG>GCA	p.A739A	TEK_uc011lno.1_Silent_p.A696A|TEK_uc011lnp.1_Silent_p.A592A|TEK_uc003zqj.1_Silent_p.A673A	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	739	Extracellular (Potential).				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		CAGCACCAGCGGACCTCGGAG	0.502													24	164					0	0	0.003954	0	0		A	27204916	A	A	27204916	2	1	45	1	0	0	0	0	0	0	0	1	15776	1103	39	1		1	TEK	9	27204916	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	11990773	27204916	114008515	543	34922											
IFNK	56832	broad.mit.edu	37	chr9	27524595	27524595	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggacatcaagaaggccttCtatgaaatgtccctacaggc	13	8	10	10	0	2	2	1	1	1	1	3	3	3	3	2	3	1	0	2	3	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:27524595C>A	uc003zqp.2	+	1	284	c.261C>A	c.(259-261)TTC>TTA	p.F87L	MOBKL2B_uc003zqn.2_Intron	NM_020124	NP_064509	Q9P0W0	IFNK_HUMAN	interferon kappa precursor	87					cytokine-mediated signaling pathway|defense response|natural killer cell activation|negative regulation of cell proliferation|positive regulation of innate immune response|regulation of transcription, DNA-dependent|response to virus	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0		all_neural(11;7.9e-11)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.000158)		AGAAGGCCTTCTATGAAATGT	0.423													29	126					9.39395e-14	1.05871e-13	0.00632	1	0		A	27524595	A	A	27524595	3	1	45	1	0	0	0	0	1	0	0	0	7567	912	32	5	263	5	IFNK	9	27524595	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	319679	27524595	113688836	544	34923											
TOPORS	10210	broad.mit.edu	37	chr9	32550787	32550787	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacctcggaggatgccggCgcaggcctggctggggcgct	4	6	17	14	4	1	0	1	0	0	0	2	2	1	2	3	7	1	3	3	7	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:32550787C>T	uc003zrb.2	-	2	350	c.183G>A	c.(181-183)GCG>GCA	p.A61A	TOPORS_uc003zrc.2_Intron|uc003zrd.2_5'Flank	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	61	E3 ubiquitin-protein ligase activity.|Required for DNA-binding.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		AGGATGCCGGCGCAGGCCTGG	0.721													16	64					0	0	0.010504	0	0		T	32550787	T	T	32550787	2	4	45	1	0	0	0	0	0	0	0	1	16396	755	27	1		1	TOPORS	9	32550787	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	5026192	32550787	108662644	545	34924											
UNC13B	10497	broad.mit.edu	37	chr9	35396854	35396854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtggtttgagcagttcGtgctacaatggctggatgag	8	11	16	6	1	0	2	0	2	0	0	1	3	0	3	0	4	3	6	0	4	2	3	rs140663072		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:35396854G>A	uc003zwq.2	+	27	3497	c.3205G>A	c.(3205-3207)GTG>ATG	p.V1069M	UNC13B_uc003zwr.2_Missense_Mutation_p.V1069M	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	1069	MHD1.				excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			TGAGCAGTTCGTGCTACAATG	0.552													62	282					0	0	0.01441	0	0		A	35396854	A	A	35396854	3	1	45	1	0	0	0	0	1	0	0	0	17011	1145	40	1	3311	1	UNC13B	9	35396854	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2846067	35396854	105816577	546	34925											
OR13J1	392309	broad.mit.edu	37	chr9	35869700	35869700	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggagaaggctttgcagcaCctggcggccgagggcaccct	7	6	16	12	2	0	1	0	0	0	1	0	3	0	1	3	5	2	4	3	5	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:35869700C>A	uc011lph.1	-	1	699	c.699G>T	c.(697-699)AGG>AGT	p.R233S		NM_001004487	NP_001004487	Q8NGT2	O13J1_HUMAN	olfactory receptor, family 13, subfamily J,	233	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_epithelial(49;0.169)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00494)|STAD - Stomach adenocarcinoma(86;0.194)			CTTTGCAGCACCTGGCGGCCG	0.582													14	44					0.00185496	0.00191084	0.001855	1	0		A	35869700	A	A	35869700	3	1	45	1	0	0	0	0	1	0	0	0	10963	506	18	5	242	5	OR13J1	9	35869700	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	472846	35869700	105343731	547	34926											
FRMPD1	22844	broad.mit.edu	37	chr9	37740128	37740128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcctctgaggtggactgcGtactcgaacctctctctgac	7	11	10	13	2	3	2	0	2	3	0	6	4	4	3	2	2	3	1	2	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:37740128G>A	uc004aag.1	+	15	1647	c.1603G>A	c.(1603-1605)GTA>ATA	p.V535I	FRMPD1_uc004aah.1_Missense_Mutation_p.V535I|FRMPD1_uc011lqm.1_Missense_Mutation_p.V357I|FRMPD1_uc011lqn.1_Missense_Mutation_p.V404I	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	535						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		GGTGGACTGCGTACTCGAACC	0.557													28	127					0	0	0.007291	0	0		A	37740128	A	A	37740128	3	1	45	1	0	0	0	0	1	0	0	0	6071	1145	40	1	1657	1	FRMPD1	9	37740128	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1870428	37740128	103473303	548	34927											
TJP2	9414	broad.mit.edu	37	chr9	71836320	71836320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaccccgaagccgcagccGcgagcacccgcactcacgga	9	1	13	18	6	1	0	1	0	0	0	1	4	1	2	5	2	3	3	5	2	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:71836320G>A	uc004ahe.2	+	5	1060	c.860G>A	c.(859-861)CGC>CAC	p.R287H	TJP2_uc011lrs.1_Missense_Mutation_p.R264H|TJP2_uc004ahb.1_Missense_Mutation_p.R264H|TJP2_uc011lrt.1_Missense_Mutation_p.R264H|TJP2_uc004ahd.2_Missense_Mutation_p.R287H|TJP2_uc004ahf.2_Missense_Mutation_p.R287H|TJP2_uc011lru.1_Missense_Mutation_p.R291H|TJP2_uc011lrv.1_Missense_Mutation_p.R309H	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)	287					cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						AGCCGCAGCCGCGAGCACCCG	0.721													4	11					0	0	0.009096	0	0		A	71836320	A	A	71836320	3	1	45	1	0	0	0	0	1	0	0	0	15955	1087	38	1	1035	1	TJP2	9	71836320	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	34096192	71836320	69377111	549	34928											
APBA1	320	broad.mit.edu	37	chr9	72046264	72046264	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgtaaacaggctgctcCtgggccgtcagcagcctgta	9	8	12	12	1	1	1	1	0	0	1	2	1	2	1	3	2	4	5	3	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:72046264C>A	uc004ahh.2	-	13	2769	c.2493G>T	c.(2491-2493)CAG>CAT	p.Q831H		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	831					axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						CAGGCTGCTCCTGGGCCGTCA	0.582													33	152					1.56442e-22	1.7978e-22	0.012213	1	0		A	72046264	A	A	72046264	3	1	45	1	0	0	0	0	1	0	0	0	756	680	24	5	24	5	APBA1	9	72046264	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	209944	72046264	69167167	550	34929											
TMEM2	23670	broad.mit.edu	37	chr9	74360375	74360375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acaaggtaattgtcgctttgGatttatagcggcatttttct	9	17	9	6	2	1	0	0	0	1	0	2	1	1	1	0	3	1	3	0	3	4	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:74360375G>A	uc011lsa.1	-	4	1133	c.593C>T	c.(592-594)TCC>TTC	p.S198F	TMEM2_uc010mos.2_Missense_Mutation_p.S198F|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	198	G8.					integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		TGTCGCTTTGGATTTATAGCG	0.428													26	137					0	0	0.007291	0	0		A	74360375	A	A	74360375	3	1	45	1	0	0	0	0	1	0	0	0	16146	1174	41	4	3642	4	TMEM2	9	74360375	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2314111	74360375	66853056	551	34930											
RORB	6096	broad.mit.edu	37	chr9	77275630	77275630	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcagacccacacctatgaAgaaattaaagcatatcaaag	18	7	7	9	0	1	3	1	1	0	2	1	3	1	3	2	1	1	2	2	1	7	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:77275630A>C	uc004aji.2	+	5	817	c.768A>C	c.(766-768)GAA>GAC	p.E256D	RORB_uc004ajh.2_Missense_Mutation_p.E245D	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	256	Ligand-binding (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						ACACCTATGAAGAAATTAAAG	0.383													12	84					0	0	0.013537	0	0		C	77275630	C	C	77275630	3	2	45	1	0	0	0	0	1	0	0	0	13554	69	3	5	753	5	RORB	9	77275630	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2915255	77275630	63937801	552	34931											
TRPM6	140803	broad.mit.edu	37	chr9	77415342	77415342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaacagcgtcatggccatgCgctcattctgcttgaatgcc	8	11	9	13	2	4	1	3	1	1	0	4	1	4	1	2	1	5	2	2	1	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:77415342C>T	uc004ajl.1	-	17	2304	c.2066G>A	c.(2065-2067)CGC>CAC	p.R689H	TRPM6_uc004ajk.1_Missense_Mutation_p.R684H|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_Missense_Mutation_p.R67H	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	689	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						CATGGCCATGCGCTCATTCTG	0.512													6	86					0	0	0.004482	0	0		T	77415342	T	T	77415342	3	4	45	1	0	0	0	0	1	0	0	0	16616	768	27	1	4094	1	TRPM6	9	77415342	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	139712	77415342	63798089	553	34932											
PRUNE2	158471	broad.mit.edu	37	chr9	79469112	79469112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacatggaccttctccaagcGtttgcttcgattctgaaaca	10	12	7	12	2	2	1	0	1	2	0	4	3	2	2	2	1	3	2	2	1	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:79469112G>A	uc010mpk.2	-	2	173	c.49C>T	c.(49-51)CGC>TGC	p.R17C	PRUNE2_uc004akn.2_Missense_Mutation_p.R17C	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	17					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TTCTCCAAGCGTTTGCTTCGA	0.338													4	31					0	0	0.009096	0	0		A	79469112	A	A	79469112	3	1	45	1	0	0	0	0	1	0	0	0	12663	1145	40	1	9289	1	PRUNE2	9	79469112	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2053770	79469112	61744319	554	34933											
FLJ46321	389763	broad.mit.edu	37	chr9	84608351	84608351	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgatcgtcctcaccctgTctcctcacctgtcgtccaag	5	12	6	18	2	3	1	2	1	1	0	8	1	5	1	6	0	0	0	6	0	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:84608351T>G	uc004amn.2	+	4	3013	c.2966T>G	c.(2965-2967)GTC>GGC	p.V989G		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	989						integral to membrane					0						CCTCACCCTGTCTCCTCACCT	0.507													38	211					0	0	0.00623	0	0		G	84608351	G	G	84608351	3	3	45	1	0	0	0	0	1	0	0	0	5946	1667	58	5	2980	5	FLJ46321	9	84608351	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	5139239	84608351	56605080	555	34934											
NFIL3	4783	broad.mit.edu	37	chr9	94172784	94172784	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattatttttccgcctttttTcccaatacatagcatctttc	8	19	2	12	1	1	0	0	0	1	0	4	0	3	0	3	0	2	1	3	0	4	9			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:94172784T>C	uc004arh.2	-	2	628	c.233A>G	c.(232-234)GAA>GGA	p.E78G		NM_005384	NP_005375	Q16649	NFIL3_HUMAN	nuclear factor, interleukin 3 regulated	78	Basic motif.				circadian rhythm|immune response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						CCGCCTTTTTTCCCAATACAT	0.423													15	331					0	0	0.003163	0	0		C	94172784	C	C	94172784	3	2	45	1	0	0	0	0	1	0	0	0	10392	1783	62	3	1159	3	NFIL3	9	94172784	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	9564433	94172784	47040647	556	34935											
ZNF169	169841	broad.mit.edu	37	chr9	97062645	97062645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtgtcctgagtgtgggCgtcggtttagccagaaggcc	6	10	15	10	2	0	2	0	1	0	1	2	2	1	2	4	3	1	1	4	3	2	2	rs10993152		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:97062645C>T	uc004aum.1	+	5	910	c.805C>T	c.(805-807)CGT>TGT	p.R269C		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	269	C2H2-type 2.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				TGAGTGTGGGCGTCGGTTTAG	0.572													22	88					0	0	0.014323	0	0		T	97062645	T	T	97062645	3	4	45	1	0	0	0	0	1	0	0	0	17767	768	27	1	819	1	ZNF169	9	97062645	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2889861	97062645	44150786	557	34936											
FBP2	8789	broad.mit.edu	37	chr9	97349699	97349699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagggaattggatagcacatCcagtttcttcacctcatctc	10	12	7	12	0	4	0	2	0	2	0	6	2	5	2	2	2	1	2	2	2	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:97349699C>T	uc004auv.2	-	2	290	c.223G>A	c.(223-225)GAT>AAT	p.D75N		NM_003837	NP_003828	O00757	F16P2_HUMAN	fructose-1,6-bisphosphatase 2	75					fructose metabolic process|gluconeogenesis	cytosol	fructose 1,6-bisphosphate 1-phosphatase activity|fructose-2,6-bisphosphate 2-phosphatase activity|metal ion binding				0		Acute lymphoblastic leukemia(62;0.136)				GATAGCACATCCAGTTTCTTC	0.488													53	227					0	0	0.01441	0	0		T	97349699	T	T	97349699	3	4	45	1	0	0	0	0	1	0	0	0	5720	855	30	4	820	4	FBP2	9	97349699	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	287054	97349699	43863732	558	34937											
C9orf102	375748	broad.mit.edu	37	chr9	98643499	98643499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaccaaagagaaggaacccGgtttctttatggacactaca	14	9	8	10	1	1	1	0	0	1	1	1	4	1	3	2	3	3	1	2	3	6	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:98643499G>A	uc004avt.3	+	2	816	c.428G>A	c.(427-429)CGG>CAG	p.R143Q	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_5'UTR|C9orf102_uc010mry.1_5'UTR|C9orf102_uc010mrz.2_5'UTR	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	143					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				GAAGGAACCCGGTTTCTTTAT	0.378													12	49					0	0	0.001855	0	0		A	98643499	A	A	98643499	3	1	45	1	0	0	0	0	1	0	0	0	2448	1116	39	1	434	1	C9orf102	9	98643499	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1293800	98643499	42569932	559	34938											
SLC44A1	23446	broad.mit.edu	37	chr9	108136891	108136891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtccagaatgcatacacaGccacagctatcaacagcacc	14	7	6	14	0	1	1	1	0	0	1	2	1	2	1	3	0	6	3	3	0	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:108136891G>A	uc004bcn.2	+	13	1728	c.1507G>A	c.(1507-1509)GCC>ACC	p.A503T	SLC44A1_uc010mtk.1_Missense_Mutation_p.A503T|SLC44A1_uc004bco.1_Missense_Mutation_p.A295T	NM_080546	NP_536856	Q8WWI5	CTL1_HUMAN	CDW92 antigen	503	Mitochondrial intermembrane (Potential).					integral to membrane|mitochondrial outer membrane|plasma membrane	choline transmembrane transporter activity			breast(3)|ovary(1)	4					Choline(DB00122)	TGCATACACAGCCACAGCTAT	0.413													26	106					0	0	0.010818	0	0		A	108136891	A	A	108136891	3	1	45	1	0	0	0	0	1	0	0	0	14660	971	34	2	1557	2	SLC44A1	9	108136891	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	9493392	108136891	33076540	560	34939											
IKBKAP	8518	broad.mit.edu	37	chr9	111674625	111674625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccagtgccaatcataggCgaggtaatgccagccctgac	10	7	11	13	2	1	1	1	1	0	0	2	2	2	1	4	2	3	1	4	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:111674625C>T	uc004bdm.3	-	11	1628	c.1108G>A	c.(1108-1110)GCC>ACC	p.A370T	IKBKAP_uc004bdl.2_Missense_Mutation_p.A21T|IKBKAP_uc011lwc.1_Missense_Mutation_p.A256T|IKBKAP_uc010mtq.2_Missense_Mutation_p.A21T	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	370					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						CAATCATAGGCGAGGTAATGC	0.527													5	77					0	0	0.000602	0	0		T	111674625	T	T	111674625	3	4	45	1	0	0	0	0	1	0	0	0	7626	768	27	1	2998	1	IKBKAP	9	111674625	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3537734	111674625	29538806	561	34940											
MUSK	4593	broad.mit.edu	37	chr9	113445033	113445033	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgtgtgcagtggaatcCtacccccagcctgagatttc	8	12	9	12	0	1	1	1	1	0	1	3	3	2	2	4	1	3	1	4	1	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:113445033C>A	uc004bey.2	+	2	257	c.159C>A	c.(157-159)TCC>TCA	p.S53S	MUSK_uc004bex.2_Silent_p.S53S	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	53	Ig-like 1.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						CAGTGGAATCCTACCCCCAGC	0.343													37	121					4.65686e-17	5.30807e-17	0.003755	1	0		A	113445033	A	A	113445033	2	1	45	1	0	0	0	0	0	0	0	1	10007	668	24	5		5	MUSK	9	113445033	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1770408	113445033	27768398	562	34941											
C9orf84	158401	broad.mit.edu	37	chr9	114484788	114484788	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttccaattagcagtagggaGggtacacaaggatacaaggt	14	9	12	6	0	0	0	0	0	0	0	1	2	1	2	1	4	3	3	1	4	7	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:114484788G>T	uc004bfr.2	-	13	1975	c.1840C>A	c.(1840-1842)CTC>ATC	p.L614I	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Missense_Mutation_p.L575I|C9orf84_uc010mug.2_Missense_Mutation_p.L560I	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	614										ovary(2)	2						GCAGTAGGGAGGGTACACAAG	0.398													6	63					0.00116845	0.00120542	0.001168	1	0		T	114484788	T	T	114484788	3	4	45	1	0	0	0	0	1	0	0	0	2503	1000	35	5	2550	5	C9orf84	9	114484788	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1039755	114484788	26728643	563	34942											
COL27A1	85301	broad.mit.edu	37	chr9	117044798	117044798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggagaccctggaccccCtggcactccaggccctaaag	8	5	10	18	0	0	1	0	0	0	1	1	3	1	2	6	4	0	1	6	4	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:117044798C>T	uc011lxl.1	+	39	3833	c.3833C>T	c.(3832-3834)CCT>CTT	p.P1278L	COL27A1_uc004bii.2_RNA	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1278	Pro-rich.|Collagen-like 11.|Triple-helical region.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						CCTGGACCCCCTGGCACTCCA	0.627													3	13					0	0	0.009096	0	0		T	117044798	T	T	117044798	3	4	45	1	0	0	0	0	1	0	0	0	3688	681	24	4	3987	4	COL27A1	9	117044798	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2560010	117044798	24168633	564	34943											
TNC	3371	broad.mit.edu	37	chr9	117853180	117853180	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttctcttctggcagggTggcgttcaccccactctgtc	3	13	11	14	1	4	0	1	0	3	0	6	0	4	0	2	4	0	3	2	4	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:117853180T>C	uc004bjj.3	-	2	480	c.118A>G	c.(118-120)ACC>GCC	p.T40A	TNC_uc010mvf.2_Missense_Mutation_p.T40A	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	40					cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TCTGGCAGGGTGGCGTTCACC	0.562													20	90					0	0	0.008871	0	0		C	117853180	C	C	117853180	3	2	45	1	0	0	0	0	1	0	0	0	16295	1696	59	3	6595	3	TNC	9	117853180	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	808382	117853180	23360251	565	34944											
ASTN2	23245	broad.mit.edu	37	chr9	120176829	120176829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtcctgcaccgcgatgcGccccggcagctcgttacgca	5	7	12	17	7	0	0	0	0	0	0	3	1	1	0	4	1	4	5	4	1	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:120176829G>A	uc004bjs.1	-	1	489	c.388C>T	c.(388-390)CGC>TGC	p.R130C	ASTN2_uc004bjr.1_Missense_Mutation_p.R130C|ASTN2_uc004bjt.1_Missense_Mutation_p.R130C	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	130	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						ACCGCGATGCGCCCCGGCAGC	0.692													5	59					0	0	0.001168	0	0		A	120176829	A	A	120176829	3	1	45	1	0	0	0	0	1	0	0	0	1066	1087	38	1	3798	1	ASTN2	9	120176829	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2323649	120176829	21036602	566	34945											
FBXW2	26190	broad.mit.edu	37	chr9	123550083	123550083	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctttgtagtaaagtgcatAcactctggcactgtgtccaa	11	13	8	9	0	2	0	0	0	2	0	3	0	3	0	1	1	2	4	1	1	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:123550083A>G	uc004bkl.1	-	3	615	c.454T>C	c.(454-456)TAT>CAT	p.Y152H	FBXW2_uc011lyc.1_Missense_Mutation_p.Y23H|FBXW2_uc004bkn.2_Missense_Mutation_p.Y184H|FBXW2_uc004bkm.1_Missense_Mutation_p.Y152H|FBXW2_uc010mvj.1_Missense_Mutation_p.Y152H	NM_012164	NP_036296	Q9UKT8	FBXW2_HUMAN	F-box and WD repeat domain containing 2	152	WD 1.				proteolysis		protein binding|ubiquitin-protein ligase activity			urinary_tract(1)|ovary(1)|pancreas(1)|skin(1)	4						TAAAGTGCATACACTCTGGCA	0.393													9	55					0	0	0.004482	0	0		G	123550083	G	G	123550083	3	3	45	1	0	0	0	0	1	0	0	0	5780	391	14	3	934	3	FBXW2	9	123550083	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	3373254	123550083	17663348	567	34946											
NR5A1	2516	broad.mit.edu	37	chr9	127262986	127262986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccacccctcatacggtcagCgcgcacggctgtgggcaggg	6	5	15	15	4	2	0	2	0	0	0	2	0	2	0	3	4	2	3	3	4	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:127262986C>T	uc004boo.1	-	4	440	c.253G>A	c.(253-255)GCT>ACT	p.A85T		NM_004959	NP_004950	Q13285	STF1_HUMAN	nuclear receptor subfamily 5, group A, member 1	85	Nuclear receptor.				cell-cell signaling|male gonad development|positive regulation of transcription from RNA polymerase II promoter|primary sex determination|regulation of steroid biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|phospholipid binding|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						ATACGGTCAGCGCGCACGGCT	0.542													17	81					0	0	0.007413	0	0		T	127262986	T	T	127262986	3	4	45	1	0	0	0	0	1	0	0	0	10654	768	27	1	1148	1	NR5A1	9	127262986	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3712903	127262986	13950445	568	34947											
TBC1D13	54662	broad.mit.edu	37	chr9	131559481	131559481	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtggcccggaaccggagTggggtcacaaatgtgagtgc	9	6	17	9	3	1	1	1	1	0	0	1	3	1	3	2	6	2	0	2	6	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:131559481T>G	uc010myj.2	+	7	654	c.531T>G	c.(529-531)AGT>AGG	p.S177R	TBC1D13_uc010myk.2_Missense_Mutation_p.S177R|TBC1D13_uc010myl.2_5'UTR	NM_018201	NP_060671	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	177	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0						GGAACCGGAGTGGGGTCACAA	0.537													14	92					0	0	0.001855	0	0		G	131559481	G	G	131559481	3	3	45	1	0	0	0	0	1	0	0	0	15627	1693	59	5	557	5	TBC1D13	9	131559481	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	4296495	131559481	9653950	569	34948											
CRAT	1384	broad.mit.edu	37	chr9	131857859	131857859	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgtcggggaccacgggcccGaagaacatgacacagtctgt	10	5	13	13	4	1	2	0	1	1	1	2	4	1	3	3	3	1	0	3	3	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:131857859G>A	uc004bxh.2	-	14	1980	c.1698C>T	c.(1696-1698)TTC>TTT	p.F566F	CRAT_uc004bxg.2_Silent_p.F545F|CRAT_uc004bxk.3_Silent_p.F545F	NM_000755	NP_000746	P43155	CACP_HUMAN	carnitine acetyltransferase precursor	566				F->A: Increases the KM for carnitine 18- fold and reduces enzyme activity 100- fold.|F->Y: No effect.	energy derivation by oxidation of organic compounds|fatty acid beta-oxidation using acyl-CoA oxidase|transport	endoplasmic reticulum|mitochondrial inner membrane|peroxisomal matrix	carnitine O-acetyltransferase activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)	L-Carnitine(DB00583)	CCACGGGCCCGAAGAACATGA	0.607													4	26					0	0	0.009096	0	0		A	131857859	A	A	131857859	2	1	45	1	0	0	0	0	0	0	0	1	3850	1049	37	1		1	CRAT	9	131857859	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	298378	131857859	9355572	570	34949											
ASS1	445	broad.mit.edu	37	chr9	133355136	133355136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtgaccaacgtcaaggatgGcaccacccaccagacctcct	11	5	9	16	1	1	2	1	1	0	1	2	3	2	3	6	3	1	1	6	3	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:133355136G>A	uc004bzm.2	+	11	1078	c.722G>A	c.(721-723)GGC>GAC	p.G241D	ASS1_uc004bzn.2_Missense_Mutation_p.G241D|ASS1_uc010mza.2_Missense_Mutation_p.G317D|ASS1_uc004bzo.2_Missense_Mutation_p.G222D|ASS1_uc010mzb.2_Missense_Mutation_p.G279D|ASS1_uc004bzp.2_Missense_Mutation_p.G241D|ASS1_uc010mzc.2_Missense_Mutation_p.G241D	NM_000050	NP_000041	P00966	ASSY_HUMAN	argininosuccinate synthetase 1	241					arginine biosynthetic process|urea cycle	cytosol	argininosuccinate synthase activity|ATP binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000514)	Adenosine triphosphate(DB00171)|L-Arginine(DB00125)|L-Aspartic Acid(DB00128)|L-Citrulline(DB00155)	GTCAAGGATGGCACCACCCAC	0.652													15	90					0	0	0.00499	0	0		A	133355136	A	A	133355136	3	1	45	1	0	0	0	0	1	0	0	0	1062	1203	42	2	756	2	ASS1	9	133355136	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1497277	133355136	7858295	571	34950											
BAT2L1	84726	broad.mit.edu	37	chr9	134354725	134354725	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgtctggagcaaggtgaCgtgaccgtgcctggcagcag	8	9	15	9	2	1	2	0	2	1	0	1	3	1	3	2	3	3	3	2	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:134354725C>T	uc004can.3	+	18	4900	c.4845C>T	c.(4843-4845)GAC>GAT	p.D1615D	BAT2L1_uc004cao.3_Silent_p.D973D	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1615							protein binding				0						AGCAAGGTGACGTGACCGTGC	0.572													5	40					0	0	0.001168	0	0		T	134354725	T	T	134354725	2	4	45	1	0	0	0	0	0	0	0	1	1321	535	19	1		1	BAT2L1	9	134354725	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	999589	134354725	6858706	572	34951											
NTNG2	84628	broad.mit.edu	37	chr9	135073569	135073569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtgatgaccttcgagtacGgccggcccacggtcatggtc	6	9	14	12	4	1	2	1	2	0	0	3	3	1	2	3	5	1	1	3	5	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:135073569G>A	uc004cbh.2	+	3	1206	c.430G>A	c.(430-432)GGC>AGC	p.G144S		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	144	Laminin N-terminal.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		CTTCGAGTACGGCCGGCCCAC	0.632													8	43					0	0	0.004482	0	0		A	135073569	A	A	135073569	3	1	45	1	0	0	0	0	1	0	0	0	10724	1116	39	1	436	1	NTNG2	9	135073569	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	718844	135073569	6139862	573	34952											
BARHL1	56751	broad.mit.edu	37	chr9	135458245	135458245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaccgcgcgggcagccccGcccttcccaagggggacccc	5	2	12	22	4	0	0	0	0	0	0	1	1	1	1	8	3	1	1	8	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:135458245G>A	uc004cbp.1	+	1	253	c.61G>A	c.(61-63)GCC>ACC	p.A21T		NM_020064	NP_064448	Q9BZE3	BARH1_HUMAN	BarH-like homeobox 1	21						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;1.79e-06)|Epithelial(140;3.12e-05)		GGGCAGCCCCGCCCTTCCCAA	0.662													10	123					0	0	0.008291	0	0		A	135458245	A	A	135458245	3	1	45	1	0	0	0	0	1	0	0	0	1314	1087	38	1	63	1	BARHL1	9	135458245	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	384676	135458245	5755186	574	34953											
RALGDS	5900	broad.mit.edu	37	chr9	136031293	136031293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccatgacacctacctgtgCtccagcagcttgggctgagg	7	9	11	14	0	0	2	0	2	0	0	2	2	2	2	4	2	4	4	4	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:136031293C>T	uc011mcw.1	-	5	537	c.256G>A	c.(256-258)GCA>ACA	p.A86T	GBGT1_uc004ccx.2_Silent_p.E26E|GBGT1_uc010nab.2_Silent_p.E73E|GBGT1_uc011mcx.1_Silent_p.E56E|GBGT1_uc004ccw.2_Silent_p.E73E|GBGT1_uc010nac.1_5'UTR|GBGT1_uc004ccy.1_Silent_p.E73E	NM_001042368	NP_001035827	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	Error:Variant_position_missing_in_Q12967_after_alignment					nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		CCTACCTGTGCTCCAGCAGCT	0.557			T	CIITA	PMBL|Hodgkin Lymphona|								24	100					0	0	0.00278	0	0		T	136031293	T	T	136031293	3	4	45	1	0	0	0	0	1	0	0	0	13041	796	28	2		2	RALGDS	9	136031293	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	573048	136031293	5182138	575	34954											
DBH	1621	broad.mit.edu	37	chr9	136501831	136501831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggggacactgcctattttgCggtgagtctctcctccctgc	4	13	11	13	1	1	1	0	1	1	0	4	2	3	2	3	3	3	0	3	3	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:136501831C>T	uc004cel.2	+	1	347	c.338C>T	c.(337-339)GCG>GTG	p.A113V		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	113	DOMON.|Intragranular (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	GCCTATTTTGCGGTGAGTCTC	0.587													7	33					0	0	0.001984	0	0		T	136501831	T	T	136501831	3	4	45	1	0	0	0	0	1	0	0	0	4253	782	27	1	340	1	DBH	9	136501831	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	470538	136501831	4711600	576	34955											
BRD3	8019	broad.mit.edu	37	chr9	136901431	136901431	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcagatgcctgcttgccGcctttcttcagctgtctggg	4	12	13	12	1	3	1	1	0	2	1	3	2	3	1	3	2	4	3	3	2	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:136901431G>A	uc004cew.2	-	10	1847	c.1659C>T	c.(1657-1659)GGC>GGT	p.G553G	BRD3_uc004cex.2_3'UTR	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	553	Lys-rich.					nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		CCTGCTTGCCGCCTTTCTTCA	0.602			T	NUT|C15orf55	lethal midline carcinoma of young people								11	45					0	0	0.013537	0	0		A	136901431	A	A	136901431	2	1	45	1	0	0	0	0	0	0	0	1	1506	1074	38	1		1	BRD3	9	136901431	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	399600	136901431	4312000	577	34956											
COL5A1	1289	broad.mit.edu	37	chr9	137642653	137642653	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttccggtttggaggtggCggcgatgcgggctccaaagg	6	8	18	9	4	0	0	0	0	0	0	2	2	2	1	2	7	1	3	2	7	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:137642653C>T	uc004cfe.2	+	13	1969	c.1587C>T	c.(1585-1587)GGC>GGT	p.G529G		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	529	Interrupted collagenous region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		TTGGAGGTGGCGGCGATGCGG	0.637													9	44					0	0	0.008291	0	0		T	137642653	T	T	137642653	2	4	45	1	0	0	0	0	0	0	0	1	3699	755	27	1		1	COL5A1	9	137642653	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	741222	137642653	3570778	578	34957											
SDCCAG3	10807	broad.mit.edu	37	chr9	139302319	139302319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatcctctttcgagaggcCgaggttcttggtcttcagaa	7	12	12	10	3	4	2	1	0	3	2	6	5	5	3	2	4	0	1	2	4	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:139302319C>T	uc004chi.2	-	4	566	c.361G>A	c.(361-363)GGC>AGC	p.G121S	SDCCAG3_uc004chj.2_Missense_Mutation_p.G98S|SDCCAG3_uc004chk.2_Missense_Mutation_p.G48S|PMPCA_uc011mdy.1_5'Flank|PMPCA_uc010nbk.2_5'Flank|PMPCA_uc004chl.2_5'Flank|PMPCA_uc010nbl.2_5'Flank|PMPCA_uc011mdz.1_5'Flank	NM_001039707	NP_001034796	Q96C92	SDCG3_HUMAN	serologically defined colon cancer antigen 3	121						cytoplasm					0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.18e-06)|Epithelial(140;9.31e-06)		TTCGAGAGGCCGAGGTTCTTG	0.468													5	152					0	0	0.001168	0	0		T	139302319	T	T	139302319	3	4	45	1	0	0	0	0	1	0	0	0	13983	652	23	1	974	1	SDCCAG3	9	139302319	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1659666	139302319	1911112	579	34958											
FAM69B	138311	broad.mit.edu	37	chr9	139616671	139616671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggtcggatgcggccccccGgcgggagctggtactgtttg	3	8	17	13	5	0	0	0	0	0	0	1	2	0	2	4	6	3	3	4	6	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:139616671G>A	uc004cik.2	+	4	495	c.401G>A	c.(400-402)CGG>CAG	p.R134Q	FAM69B_uc004cil.2_Missense_Mutation_p.R47Q|SNHG7_uc004cim.2_RNA	NM_152421	NP_689634	Q5VUD6	FA69B_HUMAN	hypothetical protein LOC138311	134	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.03e-05)|Epithelial(140;0.00013)		GCGGCCCCCCGGCGGGAGCTG	0.622													12	52					0	0	0.013537	0	0		A	139616671	A	A	139616671	3	1	45	1	0	0	0	0	1	0	0	0	5617	1116	39	1	415	1	FAM69B	9	139616671	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	314352	139616671	1596760	580	34959											
LCN6	158062	broad.mit.edu	37	chr9	139641886	139641886	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccactcacccgtgctgagAggacagcgtccgcaggttgt	7	7	13	14	3	1	1	1	1	0	1	2	3	2	2	3	2	2	3	3	2	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:139641886A>C	uc004ciy.2	-	2	265	c.220T>G	c.(220-222)TCT>GCT	p.S74A	LCN10_uc004ciw.2_RNA|uc004ciz.1_RNA	NM_198946	NP_945184	P62502	LCN6_HUMAN	lipocalin 6 precursor	74					single fertilization	extracellular region	binding				0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.32e-06)|Epithelial(140;7.83e-05)		CCGTGCTGAGAGGACAGCGTC	0.627													7	69					0	0	0.001984	0	0		C	139641886	C	C	139641886	3	2	45	1	0	0	0	0	1	0	0	0	8701	304	11	5	287	5	LCN6	9	139641886	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	25215	139641886	1571545	581	34960											
C9orf86	55684	broad.mit.edu	37	chr9	139732066	139732066	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacggcgcagcatcatctctAggctgtttgggacgtcacct	7	10	11	13	3	3	0	2	0	1	0	4	1	3	1	1	3	1	4	1	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:139732066A>G	uc004cji.1	+	9	1346	c.1078A>G	c.(1078-1080)AGG>GGG	p.R360G	C9orf86_uc004cjj.1_Missense_Mutation_p.R361G|C9orf86_uc004cjk.1_RNA|C9orf86_uc010nbr.1_Intron|C9orf86_uc004cjl.1_RNA|C9orf86_uc010nbs.1_Missense_Mutation_p.R245G|C9orf86_uc004cjn.1_Missense_Mutation_p.R154G	NM_024718	NP_078994	Q3YEC7	PARF_HUMAN	Rab-like GTP-binding protein 1 isoform 1	360	Pro-rich.				small GTPase mediated signal transduction	cytoplasm|nucleus	GTP binding|protein binding				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.61e-05)|Epithelial(140;0.000183)		CATCATCTCTAGGCTGTTTGG	0.701													3	10					0	0	0.004672	0	0		G	139732066	G	G	139732066	3	3	45	1	0	0	0	0	1	0	0	0	2505	411	15	3	1359	3	C9orf86	9	139732066	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	90180	139732066	1481365	582	34961											
MAMDC4	158056	broad.mit.edu	37	chr9	139749902	139749902	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtgtccaccctgcagccGctgcctcctgggccccgggc	3	6	14	18	2	0	0	0	0	0	0	2	1	2	0	7	3	3	2	7	3	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:139749902G>A	uc004cjs.2	+	12	1352	c.1302G>A	c.(1300-1302)CCG>CCA	p.P434P	MAMDC4_uc011mej.1_Intron	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	434	Extracellular (Potential).				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		CCCTGCAGCCGCTGCCTCCTG	0.706													7	22					0	0	0.004482	0	0		A	139749902	A	A	139749902	2	1	45	1	0	0	0	0	0	0	0	1	9222	1074	38	1		1	MAMDC4	9	139749902	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	17836	139749902	1463529	583	34962											
EXD3	54932	broad.mit.edu	37	chr9	140289857	140289857	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagctaggaacgaggatCtgcagaaacagacaatcagg	16	4	13	8	1	2	2	1	0	1	2	2	5	2	4	0	4	4	3	0	4	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:140289857C>A	uc004cmp.2	-	2	150	c.-46_splice	c.e2-1		C9orf167_uc011mew.1_Intron|EXD3_uc010ncg.1_Splice_Site|EXD3_uc004cmr.2_Splice_Site|EXD3_uc004cms.2_Splice_Site|EXD3_uc004cmt.3_Splice_Site	NM_017820	NP_060290	Q8N9H8	MUT7_HUMAN	exonuclease 3'-5' domain containing 3						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						GAACGAGGATCTGCAGAAACA	0.662													11	24					6.40141e-05	6.72772e-05	0.010729	1	0		A	140289857	A	A	140289857	5	1	45	1	0	0	0	0	0	0	1	0	5307	927	32	5		5	EXD3	9	140289857	Splice_Site	SNP	C	TCGA-BR-6852-01A-11D-1882-08	539955	140289857	923574	584	34963											
ARRDC1	92714	broad.mit.edu	37	chr9	140508820	140508820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaggtggagggtgcgggcGtcaaggcctggcggcgggcg	4	4	24	9	6	1	0	1	0	0	0	1	2	1	2	1	9	1	0	1	9	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:140508820G>A	uc004cns.2	+	6	762	c.688G>A	c.(688-690)GTC>ATC	p.V230I	ARRDC1_uc004cnt.2_Missense_Mutation_p.V105I|ARRDC1_uc004cnu.2_RNA|ARRDC1_uc004cnv.2_Missense_Mutation_p.V210I|ARRDC1_uc004cnw.2_Missense_Mutation_p.V105I|ARRDC1_uc004cnp.1_Missense_Mutation_p.V230I|ARRDC1_uc004cnq.1_Missense_Mutation_p.V212I|ARRDC1_uc011mfb.1_Missense_Mutation_p.V105I|ARRDC1_uc004cnx.1_Missense_Mutation_p.V105I|ARRDC1_uc004cny.2_RNA	NM_152285	NP_689498	Q8N5I2	ARRD1_HUMAN	arrestin domain containing 1	230											0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000273)|Epithelial(140;0.000464)		GGGTGCGGGCGTCAAGGCCTG	0.657													5	153					0	0	0.001984	0	0		A	140508820	A	A	140508820	3	1	45	1	0	0	0	0	1	0	0	0	983	1145	40	1	710	1	ARRDC1	9	140508820	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	218963	140508820	704611	585	34964											
CACNA1B	774	broad.mit.edu	37	chr9	140777297	140777297	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagggctcttacctgcggaaCggctggaacgtcatggactt	9	9	13	10	3	2	0	1	0	1	0	2	3	2	3	1	5	4	2	1	5	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr9:140777297C>T	uc004cog.2	+	3	637	c.492C>T	c.(490-492)AAC>AAT	p.N164N	uc004cof.1_RNA	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	164	Helical; Name=S3 of repeat I; (Potential).|I.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	ACCTGCGGAACGGCTGGAACG	0.587													34	286					0	0	0.005524	0	0		T	140777297	T	T	140777297	2	4	45	1	0	0	0	0	0	0	0	1	2542	535	19	1		1	CACNA1B	9	140777297	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	268477	140777297	436134	586	34965											
LARP4B	23185	broad.mit.edu	37	chr10	909765	909765	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgctgggtccgactcctgCgggtctggcaatgcggcatt	4	11	14	12	3	2	0	0	0	2	0	4	1	4	0	2	4	3	3	2	4	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:909765C>T	uc001ifs.1	-	4	389	c.348G>A	c.(346-348)CCG>CCA	p.P116P		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	116							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						CCGACTCCTGCGGGTCTGGCA	0.517													22	83					0	0	0.014323	0	0		T	909765	T	T	909765	2	4	45	1	0	0	0	0	0	0	0	1	8647	755	27	1		1	LARP4B	10	909765	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08		909765	134624982	587	34966											
AKR1C3	8644	broad.mit.edu	37	chr10	5141002	5141002	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctatttcagccaggtgaGgaactttcaccaacagatga	12	11	8	10	0	3	3	2	2	1	1	3	4	3	4	2	2	3	0	2	2	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:5141002G>T	uc001ihr.2	+	4	561	c.378G>T	c.(376-378)GAG>GAT	p.E126D	AKR1C3_uc010qap.1_Missense_Mutation_p.E103D|AKR1C3_uc001ihu.2_Missense_Mutation_p.E126D	NM_003739	NP_003730	P42330	AK1C3_HUMAN	aldo-keto reductase family 1, member C3	126					prostaglandin metabolic process	cytoplasm	aldo-keto reductase (NADP) activity|androsterone dehydrogenase (A-specific) activity|indanol dehydrogenase activity|prostaglandin-F synthase activity|testosterone 17-beta-dehydrogenase (NAD+) activity|testosterone 17-beta-dehydrogenase (NADP+) activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity			skin(1)	1					Dimethyl sulfoxide(DB01093)|NADH(DB00157)	AGCCAGGTGAGGAACTTTCAC	0.428													11	47					0.000978159	0.00101284	0.010729	1	0		T	5141002	T	T	5141002	3	4	45	1	0	0	0	0	1	0	0	0	471	991	35	5	392	5	AKR1C3	10	5141002	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4231237	5141002	130393745	588	34967											
C10orf18	54906	broad.mit.edu	37	chr10	5800957	5800957	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctaaaagaagatgaaaggTaaggacttgctgtgtgtatg	15	10	13	3	0	0	3	0	1	0	2	0	4	0	4	0	2	2	4	0	2	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:5800957T>C	uc001iij.2	+	18	7617	c.6992_splice	c.e18+2	p.R2331_splice	C10orf18_uc001iik.2_Splice_Site_p.R1175_splice	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906											ovary(1)|central_nervous_system(1)	2						AGATGAAAGGTAAGGACTTGC	0.448													9	40					0	0	0.004482	0	0		C	5800957	C	C	5800957	5	2	45	1	0	0	0	0	0	0	1	0	1599	1652	57	3	7052	3	C10orf18	10	5800957	Splice_Site	SNP	T	TCGA-BR-6852-01A-11D-1882-08	659955	5800957	129733790	589	34968											
IL15RA	3601	broad.mit.edu	37	chr10	5995102	5995102	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtcttcatctctgctgcTggtcccccaagtcaccggca	7	10	8	16	1	4	0	2	0	2	0	6	0	5	0	3	2	2	3	3	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:5995102T>G	uc001iiv.2	-	7	842	c.760A>C	c.(760-762)AGC>CGC	p.S254R	IL15RA_uc001iiu.2_Intron|IL15RA_uc010qau.1_Missense_Mutation_p.S221R|IL15RA_uc001iiw.2_Missense_Mutation_p.S218R|IL15RA_uc001iix.2_Missense_Mutation_p.S185R|IL15RA_uc001iiy.2_Missense_Mutation_p.S102R	NM_002189	NP_002180	Q13261	I15RA_HUMAN	interleukin 15 receptor, alpha isoform 1	254	Cytoplasmic (Potential).				cell proliferation	cytoplasmic vesicle membrane|endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane|nuclear membrane	cytokine receptor activity				0						TCTCTGCTGCTGGTCCCCCAA	0.547													14	103					0	0	0.00245	0	0		G	5995102	G	G	5995102	3	3	45	1	0	0	0	0	1	0	0	0	7648	1580	55	5	47	5	IL15RA	10	5995102	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	194145	5995102	129539645	590	34969											
PRPF18	8559	broad.mit.edu	37	chr10	13653641	13653641	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagtccttagggaaaggCgatgatcataaagacatgga	15	7	14	5	1	1	3	1	1	0	2	2	7	2	5	1	4	0	0	1	4	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:13653641C>T	uc001imp.2	+	6	685	c.537C>T	c.(535-537)GGC>GGT	p.G179G	PRPF18_uc001imq.2_Intron	NM_003675	NP_003666	Q99633	PRP18_HUMAN	PRP18 pre-mRNA processing factor 18 homolog	179					mRNA processing|RNA splicing	nuclear speck|spliceosomal complex				central_nervous_system(1)	1						TAGGGAAAGGCGATGATCATA	0.408													6	155					0	0	0.00308	0	0		T	13653641	T	T	13653641	2	4	45	1	0	0	0	0	0	0	0	1	12585	755	27	1		1	PRPF18	10	13653641	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	7658539	13653641	121881106	591	34970											
DNAJC1	64215	broad.mit.edu	37	chr10	22048374	22048374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcttccgcctccgaggccGggcatcagtggccccggtct	3	8	14	16	4	2	0	1	0	1	0	4	1	4	0	6	5	0	2	6	5	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:22048374G>A	uc001irc.2	-	11	1608	c.1321C>T	c.(1321-1323)CGG>TGG	p.R441W	DNAJC1_uc001ird.2_Missense_Mutation_p.R327W	NM_022365	NP_071760	Q96KC8	DNJC1_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 1	441	Cytoplasmic (By similarity).				negative regulation of proteolysis|regulation of protein secretion|regulation of transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	ATPase activator activity|DNA binding|heat shock protein binding|unfolded protein binding			lung(1)	1		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)				CTCCGAGGCCGGGCATCAGTG	0.657													15	60					0	0	0.004007	0	0		A	22048374	A	A	22048374	3	1	45	1	0	0	0	0	1	0	0	0	4634	1115	39	1	351	1	DNAJC1	10	22048374	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	8394733	22048374	113486373	592	34971											
GPR158	57512	broad.mit.edu	37	chr10	25886854	25886854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcccagagacagtcagcCggcagtgctctaaagaggac	13	5	12	11	1	2	3	1	0	1	3	3	5	3	4	2	2	2	2	2	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:25886854C>T	uc001isj.2	+	11	2359	c.2299C>T	c.(2299-2301)CGG>TGG	p.R767W	GPR158_uc001isk.2_Missense_Mutation_p.R142W	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	767	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GACAGTCAGCCGGCAGTGCTC	0.572													4	146					0	0	0.009096	0	0		T	25886854	T	T	25886854	3	4	45	1	0	0	0	0	1	0	0	0	6678	643	23	1	2341	1	GPR158	10	25886854	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3838480	25886854	109647893	593	34972											
ANKRD26	22852	broad.mit.edu	37	chr10	27324123	27324123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtcttttctctgagggCatctctcgtgtgatggaact	8	14	10	9	1	3	2	0	2	3	0	6	3	3	3	0	2	1	1	0	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:27324123C>T	uc001ith.2	-	24	3425	c.3253G>A	c.(3253-3255)GCC>ACC	p.A1085T	ANKRD26_uc001itg.2_Missense_Mutation_p.A772T|ANKRD26_uc009xku.1_Missense_Mutation_p.A1086T	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1085	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TCTCTGAGGGCATCTCTCGTG	0.358													8	174					0	0	0.004482	0	0		T	27324123	T	T	27324123	3	4	45	1	0	0	0	0	1	0	0	0	654	710	25	2	1920	2	ANKRD26	10	27324123	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1437269	27324123	108210624	594	34973											
MASTL	84930	broad.mit.edu	37	chr10	27454412	27454412	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcaaggactcgtatgccCtatgtctgtagatcaaaagg	11	12	9	9	1	3	1	2	0	2	1	5	2	3	2	1	2	1	2	1	2	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:27454412C>A	uc001itm.2	+	6	1394	c.755C>A	c.(754-756)CCT>CAT	p.P252H	MASTL_uc001itl.2_Missense_Mutation_p.P252H|MASTL_uc009xkw.1_Missense_Mutation_p.P252H|MASTL_uc009xkx.1_RNA	NM_032844	NP_116233	Q96GX5	GWL_HUMAN	microtubule associated serine/threonine	252	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|mitosis|negative regulation of protein phosphatase type 2A activity|regulation of cell cycle|response to DNA damage stimulus	centrosome|cleavage furrow|nucleus	ATP binding|protein phosphatase 2A binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						CTCGTATGCCCTATGTCTGTA	0.318													21	97					4.72057e-08	5.13839e-08	0.003954	1	0		A	27454412	A	A	27454412	3	1	45	1	0	0	0	0	1	0	0	0	9346	681	24	5	777	5	MASTL	10	27454412	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	130289	27454412	108080335	595	34974											
LYZL1	84569	broad.mit.edu	37	chr10	29581592	29581592	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggagaacaaccactgccAtgtcgcctgctcaggtgagg	11	6	13	11	1	1	2	1	1	0	1	2	4	1	2	3	3	4	1	3	3	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:29581592A>G	uc001iul.2	+	3	479	c.422A>G	c.(421-423)CAT>CGT	p.H141R		NM_032517	NP_115906	Q6UWQ5	LYZL1_HUMAN	lysozyme-like 1	95					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Breast(68;0.203)				AACCACTGCCATGTCGCCTGC	0.547													5	131					0	0	0.000602	0	0		G	29581592	G	G	29581592	3	3	45	1	0	0	0	0	1	0	0	0	9149	217	8	3	432	3	LYZL1	10	29581592	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2127180	29581592	105953155	596	34975											
ZNF438	220929	broad.mit.edu	37	chr10	31134032	31134032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttccgtcccagcatctctGcacaaagcaggcagttaaag	11	9	8	13	1	1	0	0	0	1	0	4	0	3	0	2	1	3	5	2	1	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:31134032G>A	uc010qdz.1	-	8	2780	c.2345C>T	c.(2344-2346)GCA>GTA	p.A782V	ZNF438_uc001ivn.2_Missense_Mutation_p.A733V|ZNF438_uc010qdy.1_Missense_Mutation_p.A772V|ZNF438_uc001ivo.3_Missense_Mutation_p.A346V|ZNF438_uc009xlg.2_Missense_Mutation_p.A782V|ZNF438_uc001ivp.3_Missense_Mutation_p.A772V|ZNF438_uc010qea.1_Missense_Mutation_p.A782V|ZNF438_uc010qeb.1_Missense_Mutation_p.A782V	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	782	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				CAGCATCTCTGCACAAAGCAG	0.542													54	199					0	0	0.01441	0	0		A	31134032	A	A	31134032	3	1	45	1	0	0	0	0	1	0	0	0	17935	1319	46	2	145	2	ZNF438	10	31134032	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1552440	31134032	104400715	597	34976											
KIF5B	3799	broad.mit.edu	37	chr10	32324505	32324505	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcattgtatgatgatggagAgcagcaaattacaatagtgg	14	11	11	5	0	1	3	1	2	0	1	1	4	1	3	0	2	3	3	0	2	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:32324505A>G	uc001iwe.3	-	10	1377	c.907T>C	c.(907-909)TCT>CCT	p.S303P		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	303	Kinesin-motor.				stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				GATGATGGAGAGCAGCAAATT	0.338													4	105					0	0	0.000602	0	0		G	32324505	G	G	32324505	3	3	45	1	0	0	0	0	1	0	0	0	8322	304	11	3	2048	3	KIF5B	10	32324505	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1190473	32324505	103210242	598	34977											
CUL2	8453	broad.mit.edu	37	chr10	35317808	35317808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcctgagtaagaggccacGcaccagcctagaaggaaaaa	16	3	12	10	1	0	3	0	1	0	2	0	5	0	4	4	2	2	2	4	2	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:35317808G>A	uc001ixv.2	-	16	1757	c.1547C>T	c.(1546-1548)GCG>GTG	p.A516V	CUL2_uc009xma.2_Missense_Mutation_p.A385V|CUL2_uc010qer.1_Missense_Mutation_p.A535V|CUL2_uc001ixw.2_Missense_Mutation_p.A516V|CUL2_uc010qes.1_Missense_Mutation_p.A453V	NM_003591	NP_003582	Q13617	CUL2_HUMAN	cullin 2	516					cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding			ovary(3)	3						AAGAGGCCACGCACCAGCCTA	0.318													6	22					0	0	0.001168	0	0		A	35317808	A	A	35317808	3	1	45	1	0	0	0	0	1	0	0	0	4058	1087	38	1	714	1	CUL2	10	35317808	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2993303	35317808	100216939	599	34978											
FRMPD2	143162	broad.mit.edu	37	chr10	49446167	49446167	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctgctcctggaagagcgCtggccaggggttgagaaggg	8	7	18	8	1	1	2	0	1	1	2	2	5	2	3	2	5	2	3	2	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:49446167C>T	uc001jgi.2	-	8	896	c.789_splice	c.e8-1	p.R263_splice	FRMPD2_uc001jgh.2_Splice_Site_p.R232_splice|FRMPD2_uc001jgj.2_Splice_Site_p.R241_splice	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3						tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		TGGAAGAGCGCTGGCCAGGGG	0.627													14	65					0	0	0.00245	0	0		T	49446167	T	T	49446167	5	4	45	1	0	0	0	0	0	0	1	0	6072	811	28	2	3229	2	FRMPD2	10	49446167	Splice_Site	SNP	C	TCGA-BR-6852-01A-11D-1882-08	14128359	49446167	86088580	600	34979											
A1CF	29974	broad.mit.edu	37	chr10	52569700	52569700	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtagccatggtgccatcGcctccatcagtggggatgcc	7	8	13	13	1	1	0	1	0	0	0	3	1	2	1	5	3	3	2	5	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:52569700G>A	uc001jjj.2	-	12	1775	c.1587C>T	c.(1585-1587)GGC>GGT	p.G529G	A1CF_uc010qhn.1_Silent_p.G529G|A1CF_uc001jji.2_Silent_p.G521G|A1CF_uc001jjh.2_Silent_p.G529G|A1CF_uc010qho.1_Silent_p.G537G|A1CF_uc009xov.2_Silent_p.G521G	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	529					cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						TGGTGCCATCGCCTCCATCAG	0.468													4	80					0	0	0.009096	0	0		A	52569700	A	A	52569700	2	1	45	1	0	0	0	0	0	0	0	1	2	1074	38	1		1	A1CF	10	52569700	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3123533	52569700	82965047	601	34980											
PRKG1	5592	broad.mit.edu	37	chr10	53227559	53227559	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagtgtttggggaattggcTattctttacaactgtacccg	10	14	10	7	1	1	0	0	0	1	0	1	1	1	1	1	3	3	3	1	3	6	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:53227559T>C	uc001jjm.2	+	3	704	c.510T>C	c.(508-510)GCT>GCC	p.A170A	PRKG1_uc001jjn.2_Silent_p.A185A|PRKG1_uc001jjo.2_Silent_p.A185A|PRKG1_uc010qhp.1_Silent_p.A170A	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	170	cGMP 1.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		GGGAATTGGCTATTCTTTACA	0.383													10	91					0	0	0.00245	0	0		C	53227559	C	C	53227559	2	2	45	1	0	0	0	0	0	0	0	1	12544	1509	53	3		3	PRKG1	10	53227559	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	657859	53227559	82307188	602	34981											
DKK1	22943	broad.mit.edu	37	chr10	54074759	54074759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacccgcggaggggacgcagGcgtgcaaatctgtctcgcct	7	6	14	14	5	2	0	0	0	2	0	3	2	2	2	2	4	1	2	2	4	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:54074759G>A	uc001jjr.2	+	2	474	c.320G>A	c.(319-321)GGC>GAC	p.G107D	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	107	DKK-type Cys-1.				negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						GGGGACGCAGGCGTGCAAATC	0.617											OREG0020191	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	18					0	0	0.004672	0	0		A	54074759	A	A	54074759	3	1	45	1	0	0	0	0	1	0	0	0	4550	1203	42	2	326	2	DKK1	10	54074759	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	847200	54074759	81459988	603	34982											
BICC1	80114	broad.mit.edu	37	chr10	60553279	60553279	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgttgatgtttgatatgaaGgaagaaattgaagtagatcc	14	13	12	2	0	0	6	0	4	0	2	1	7	1	7	1	1	0	3	1	1	6	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:60553279G>T	uc001jki.1	+	9	1083	c.1083G>T	c.(1081-1083)AAG>AAT	p.K361N	BICC1_uc001jkj.1_Missense_Mutation_p.K2N	NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	361					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						TTGATATGAAGGAAGAAATTG	0.358													9	63					3.86212e-05	4.06814e-05	0.008291	1	0		T	60553279	T	T	60553279	3	4	45	1	0	0	0	0	1	0	0	0	1428	991	35	5	1117	5	BICC1	10	60553279	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	6478520	60553279	74981468	604	34983											
ANK3	288	broad.mit.edu	37	chr10	61815606	61815606	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgctggttcttcaacaTgaccagatccatgtattttt	9	16	8	8	0	2	3	1	2	1	1	3	3	3	3	2	1	2	3	2	1	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:61815606T>C	uc001jky.2	-	42	13067	c.12875A>G	c.(12874-12876)CAT>CGT	p.H4292R	ANK3_uc001jkw.2_Missense_Mutation_p.H916R|ANK3_uc009xpa.2_Missense_Mutation_p.H916R|ANK3_uc001jkx.2_Missense_Mutation_p.H960R|ANK3_uc010qih.1_Missense_Mutation_p.H1783R|ANK3_uc001jkz.3_Missense_Mutation_p.H1776R|ANK3_uc001jkv.2_Missense_Mutation_p.H315R	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	4292					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTCTTCAACATGACCAGATCC	0.398													11	234					0	0	0.010729	0	0		C	61815606	C	C	61815606	3	2	45	1	0	0	0	0	1	0	0	0	622	1464	51	3	266	3	ANK3	10	61815606	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1262327	61815606	73719141	605	34984											
ANK3	288	broad.mit.edu	37	chr10	62023723	62023723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcattctctagcaggagcGaaacgacttggtcgtgacct	9	11	11	10	3	2	1	1	1	1	0	4	4	2	2	1	2	3	1	1	2	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:62023723G>A	uc001jky.2	-	6	761	c.569C>T	c.(568-570)TCG>TTG	p.S190L	ANK3_uc010qih.1_Missense_Mutation_p.S173L|ANK3_uc001jkz.3_Missense_Mutation_p.S184L|ANK3_uc001jlb.1_5'UTR	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	190	ANK 4.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TAGCAGGAGCGAAACGACTTG	0.517													6	41					0	0	0.001984	0	0		A	62023723	A	A	62023723	3	1	45	1	0	0	0	0	1	0	0	0	622	1059	37	1	13049	1	ANK3	10	62023723	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	208117	62023723	73511024	606	34985											
ZNF365	22891	broad.mit.edu	37	chr10	64136602	64136602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agttcagagacgagagcgggCcttaaacagacaggtggacg	13	5	15	8	3	1	3	1	0	0	3	1	6	1	4	1	3	2	1	1	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:64136602C>T	uc001jmc.2	+	2	965	c.650C>T	c.(649-651)GCC>GTC	p.A217V	ZNF365_uc001jly.3_Missense_Mutation_p.A232V|ZNF365_uc001jmb.3_Missense_Mutation_p.A217V|ZNF365_uc001jlz.3_Missense_Mutation_p.A217V|ZNF365_uc001jma.3_Intron	NM_199451	NP_955523	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform C	Error:Variant_position_missing_in_Q70YC4_after_alignment										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					CGAGAGCGGGCCTTAAACAGA	0.512													30	147					0	0	0.008361	0	0		T	64136602	T	T	64136602	3	4	45	1	0	0	0	0	1	0	0	0	17894	739	26	2	652	2	ZNF365	10	64136602	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2112879	64136602	71398145	607	34986											
PBLD	64081	broad.mit.edu	37	chr10	70056045	70056045	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttgtgaaacagcacagcTgcagaagccagggtggcatg	12	8	13	8	0	0	2	0	1	0	1	0	2	0	2	1	2	5	4	1	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:70056045T>C	uc001jns.1	-	4	464	c.261A>G	c.(259-261)GCA>GCG	p.A87A	PBLD_uc001jnr.1_Silent_p.A54A|PBLD_uc001jnt.1_Silent_p.A87A|PBLD_uc001jnu.1_Silent_p.A87A|PBLD_uc001jnv.1_Intron	NM_022129	NP_071412	P30039	PBLD_HUMAN	MAWD binding protein isoform a	87					biosynthetic process		isomerase activity			skin(2)|ovary(1)	3						ACAGCACAGCTGCAGAAGCCA	0.418													13	29					0	0	0.00245	0	0		C	70056045	C	C	70056045	2	2	45	1	0	0	0	0	0	0	0	1	11508	1567	55	3		3	PBLD	10	70056045	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	5919443	70056045	65478702	608	34987											
TSPAN15	23555	broad.mit.edu	37	chr10	71243561	71243561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcctcatcctcctgggcGtcgtcatgttcatggtctcc	4	14	8	15	2	5	0	4	0	1	0	10	0	8	0	4	2	0	1	4	2	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:71243561G>A	uc001jpo.1	+	2	336	c.211G>A	c.(211-213)GTC>ATC	p.V71I		NM_012339	NP_036471	O95858	TSN15_HUMAN	transmembrane 4 superfamily member 15	71	Helical; (Potential).					integral to plasma membrane|membrane fraction					0						CCTCCTGGGCGTCGTCATGTT	0.562													25	60					0	0	0.004656	0	0		A	71243561	A	A	71243561	3	1	45	1	0	0	0	0	1	0	0	0	16665	1145	40	1	217	1	TSPAN15	10	71243561	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1187516	71243561	64291186	609	34988											
TYSND1	219743	broad.mit.edu	37	chr10	71902509	71902509	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtctgcagcattacgggCgtgccattcacctgcaccac	7	9	11	14	2	2	0	1	0	1	0	2	0	2	0	3	2	5	3	3	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:71902509C>T	uc001jqr.2	-	3	1552	c.1398G>A	c.(1396-1398)ACG>ACA	p.T466T	TYSND1_uc001jqq.2_RNA|TYSND1_uc001jqs.2_Intron|TYSND1_uc001jqt.2_Intron	NM_173555	NP_775826	Q2T9J0	TYSD1_HUMAN	trypsin domain containing 1 isoform a	466	Serine protease.				proteolysis	peroxisome	serine-type endopeptidase activity			large_intestine(1)	1						GCATTACGGGCGTGCCATTCA	0.612													5	49					0	0	0.001168	0	0		T	71902509	T	T	71902509	2	4	45	1	0	0	0	0	0	0	0	1	16843	755	27	1		1	TYSND1	10	71902509	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	658948	71902509	63632238	610	34989											
POLR3A	11128	broad.mit.edu	37	chr10	79741970	79741970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgtgtgtggccatgactGcccgcaggttatcaccttcc	6	10	10	15	2	1	1	1	1	0	0	2	1	2	1	5	2	1	2	5	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:79741970G>A	uc001jzn.2	-	28	3795	c.3701C>T	c.(3700-3702)GCA>GTA	p.A1234V		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	1234					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			GGCCATGACTGCCCGCAGGTT	0.562													15	64					0	0	0.003163	0	0		A	79741970	A	A	79741970	3	1	45	1	0	0	0	0	1	0	0	0	12247	1319	46	2	487	2	POLR3A	10	79741970	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	7839461	79741970	55792777	611	34990											
NRG3	10718	broad.mit.edu	37	chr10	84744984	84744984	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctattcatccacaagggccAgttctgtgcccatcatccct	8	11	7	15	0	3	0	2	0	1	0	5	0	5	0	4	1	1	2	4	1	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:84744984A>G	uc001kco.2	+	9	1741	c.1714A>G	c.(1714-1716)AGT>GGT	p.S572G	NRG3_uc010qlz.1_Missense_Mutation_p.S571G|NRG3_uc001kcp.2_Missense_Mutation_p.S375G|NRG3_uc001kcq.2_Missense_Mutation_p.S222G|NRG3_uc001kcr.2_Missense_Mutation_p.S246G	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	596	Cytoplasmic (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		CACAAGGGCCAGTTCTGTGCC	0.438													36	182					0	0	0.00623	0	0		G	84744984	G	G	84744984	3	3	45	1	0	0	0	0	1	0	0	0	10668	188	7	3	1992	3	NRG3	10	84744984	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	5003014	84744984	50789763	612	34991											
WAPAL	23063	broad.mit.edu	37	chr10	88259864	88259864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgaactcatccatgctgCgttccatagtatcctgtatg	9	13	8	11	1	1	1	1	1	0	0	4	1	4	1	3	0	3	4	3	0	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:88259864C>T	uc001kdo.2	-	3	1578	c.1136G>A	c.(1135-1137)CGC>CAC	p.R379H	WAPAL_uc001kdn.2_Missense_Mutation_p.R422H|WAPAL_uc009xsw.2_Missense_Mutation_p.R379H	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	379	Mediates interaction with the cohesin complex.				cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						ATCCATGCTGCGTTCCATAGT	0.428													16	72					0	0	0.006122	0	0		T	88259864	T	T	88259864	3	4	45	1	0	0	0	0	1	0	0	0	17274	768	27	1	2504	1	WAPAL	10	88259864	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3514880	88259864	47274883	613	34992											
CPEB3	22849	broad.mit.edu	37	chr10	93999718	93999718	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagagcatggtcccgttGactggggtgatcccctggaa	8	9	15	9	1	0	3	0	2	0	1	2	5	2	5	3	5	1	2	3	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:93999718G>T	uc001khw.1	-	2	563	c.390C>A	c.(388-390)GTC>GTA	p.V130V	CPEB3_uc001khu.1_Silent_p.V130V|CPEB3_uc001khv.1_Silent_p.V130V|CPEB3_uc010qnn.1_Silent_p.V130V	NM_014912	NP_055727	Q8NE35	CPEB3_HUMAN	cytoplasmic polyadenylation element binding	130	Pro-rich.						nucleotide binding|RNA binding				0		Colorectal(252;0.0869)				TGGTCCCGTTGACTGGGGTGA	0.657													6	40					0.00198382	0.00203909	0.001984	1	0		T	93999718	T	T	93999718	2	4	45	1	0	0	0	0	0	0	0	1	3805	1277	45	5		5	CPEB3	10	93999718	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5739854	93999718	41535029	614	34993											
TMEM20	159371	broad.mit.edu	37	chr10	95660776	95660776	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccatttttgtttggttcCgacacttcggggatggaaga	8	13	11	9	2	0	1	0	0	0	1	2	4	1	3	3	4	0	2	3	4	1	5	rs148915546		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:95660776C>T	uc001kjg.1	+	3	688	c.627C>T	c.(625-627)TCC>TCT	p.S209S	TMEM20_uc001kji.2_Intron|TMEM20_uc001kjf.1_Silent_p.S208S|TMEM20_uc001kjh.2_Intron|TMEM20_uc010qnw.1_Silent_p.S192S|TMEM20_uc001kjj.2_Intron	NM_001134658	NP_001128130	Q2M3R5	TMM20_HUMAN	transmembrane protein 20 isoform 1	209						integral to membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;3.46e-05)|Renal(717;0.018)|Ovarian(717;0.0228)|all_hematologic(284;0.189)		STAD - Stomach adenocarcinoma(243;0.00345)		TGTTTGGTTCCGACACTTCGG	0.448													9	45					0	0	0.004482	0	0		T	95660776	T	T	95660776	2	4	45	1	0	0	0	0	0	0	0	1	16147	639	23	1		1	TMEM20	10	95660776	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1661058	95660776	39873971	615	34994											
SORBS1	10580	broad.mit.edu	37	chr10	97101123	97101123	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatattccaaaacctgcacTggtgtcaactttttgggctg	9	13	8	11	0	1	0	1	0	0	0	2	0	2	0	3	2	3	2	3	2	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:97101123T>C	uc001kkp.2	-	26	2634	c.2589A>G	c.(2587-2589)CCA>CCG	p.P863P	SORBS1_uc001kkk.2_Silent_p.P357P|SORBS1_uc001kkl.2_Silent_p.P465P|SORBS1_uc001kkn.2_Silent_p.P628P|SORBS1_uc001kkm.2_Silent_p.P663P|SORBS1_uc001kko.2_Silent_p.P885P|SORBS1_uc001kkq.2_Silent_p.P714P|SORBS1_uc001kkr.2_Silent_p.P569P|SORBS1_uc001kks.2_Silent_p.P513P|SORBS1_uc001kkt.2_RNA|SORBS1_uc001kku.2_Silent_p.P610P|SORBS1_uc001kkv.2_Silent_p.P645P|SORBS1_uc001kkw.2_Silent_p.P817P|SORBS1_uc010qoe.1_Silent_p.P578P	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	863					focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		AAACCTGCACTGGTGTCAACT	0.264													25	101					0	0	0.00632	0	0		C	97101123	C	C	97101123	2	2	45	1	0	0	0	0	0	0	0	1	14952	1567	55	3		3	SORBS1	10	97101123	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1440347	97101123	38433624	616	34995											
PI4K2A	55361	broad.mit.edu	37	chr10	99361742	99361742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accgcctcattgagccaaacGctgcggtgagccagtggcag	9	6	13	13	3	1	2	1	2	0	0	1	2	1	2	4	2	4	2	4	2	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:99361742G>A	uc010qoy.1	+	2	699	c.340G>A	c.(340-342)GCT>ACT	p.A114T	DHDPSL_uc001kny.2_Missense_Mutation_p.A277T|DHDPSL_uc001knz.2_Missense_Mutation_p.A114T	NM_018425	NP_060895	Q9BTU6	P4K2A_HUMAN	phosphatidylinositol 4-kinase type 2 alpha	Error:Variant_position_missing_in_Q9BTU6_after_alignment					phosphatidylinositol biosynthetic process	cytoplasm|integral to plasma membrane|membrane raft	1-phosphatidylinositol 4-kinase activity|ATP binding|magnesium ion binding			lung(1)|skin(1)	2		Colorectal(252;0.162)		Epithelial(162;1.24e-10)|all cancers(201;1.2e-08)		TGAGCCAAACGCTGCGGTGAG	0.672													9	29					0	0	0.010729	0	0		A	99361742	A	A	99361742	3	1	45	1	0	0	0	0	1	0	0	0	11890	1087	38	1		1	PI4K2A	10	99361742	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2260619	99361742	36173005	617	34996											
HPS1	3257	broad.mit.edu	37	chr10	100185471	100185471	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagggccaggggcgcgcTggggctctgagggtaagggc	7	4	20	10	2	1	1	0	1	1	0	1	1	1	1	2	7	1	3	2	7	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:100185471T>A	uc010qpf.1	-	13	1408	c.1162A>T	c.(1162-1164)AGC>TGC	p.S388C	HPS1_uc001kpi.1_Missense_Mutation_p.S388C|HPS1_uc001kpj.1_Missense_Mutation_p.S295C|HPS1_uc001kpk.1_Missense_Mutation_p.S212C|HPS1_uc010qpg.1_Intron|HPS1_uc009xwb.2_RNA	NM_000195	NP_000186	Q92902	HPS1_HUMAN	Hermansky-Pudlak syndrome 1 protein isoform a	388					lysosome organization|response to stimulus|visual perception	cytoplasmic membrane-bounded vesicle|integral to plasma membrane|lysosome|membrane fraction|soluble fraction	protein dimerization activity			skin(1)	1		Colorectal(252;0.234)		Epithelial(162;3.87e-12)|all cancers(201;5.63e-10)		AGGGGCGCGCTGGGGCTCTGA	0.677									Hermansky-Pudlak_syndrome		OREG0020430	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	39					0	0	0.010729	0	0		A	100185471	A	A	100185471	3	1	45	1	0	0	0	0	1	0	0	0	7355	1580	55	5	972	5	HPS1	10	100185471	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	823729	100185471	35349276	618	34997											
HPSE2	60495	broad.mit.edu	37	chr10	100503680	100503680	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgttgtactttttgctggcGctgtacttcaacagactcag	8	15	9	9	1	2	1	2	0	0	1	2	1	2	1	0	1	4	5	0	1	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:100503680G>A	uc001kpn.1	-	4	804	c.744C>T	c.(742-744)AGC>AGT	p.S248S	HPSE2_uc009xwc.1_Silent_p.S238S|HPSE2_uc001kpo.1_Intron|HPSE2_uc009xwd.1_Intron	NM_021828	NP_068600	Q8WWQ2	HPSE2_HUMAN	heparanase 2	248					carbohydrate metabolic process	intracellular|membrane	cation binding|heparanase activity			ovary(1)	1				Epithelial(162;1.8e-09)|all cancers(201;4.72e-07)		TTTTGCTGGCGCTGTACTTCA	0.418													30	83					0	0	0.004289	0	0		A	100503680	A	A	100503680	2	1	45	1	0	0	0	0	0	0	0	1	7361	1078	38	1		1	HPSE2	10	100503680	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	318209	100503680	35031067	619	34998											
SEMA4G	57715	broad.mit.edu	37	chr10	102743183	102743183	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgggagcatgggcctgagCgatgggcagggtggctaccg	8	6	19	8	2	0	1	0	1	0	0	0	3	0	2	2	5	3	3	2	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:102743183C>T	uc001krw.1	+	14	2211	c.1827C>T	c.(1825-1827)AGC>AGT	p.S609S	SEMA4G_uc001krv.2_RNA|SEMA4G_uc001krx.2_Intron|MRPL43_uc001kry.1_Intron|MRPL43_uc010qpu.1_Intron|MRPL43_uc001krz.1_Intron|MRPL43_uc001ksa.1_Intron|MRPL43_uc001ksb.1_Intron	NM_017893	NP_060363	Q9NTN9	SEM4G_HUMAN	semaphorin 4G	604	Extracellular (Potential).|Ig-like C2-type.				cell differentiation|nervous system development	integral to membrane	receptor activity			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3.71e-09)|all cancers(201;2.1e-07)		TGGGCCTGAGCGATGGGCAGG	0.627													7	30					0	0	0.004482	0	0		T	102743183	T	T	102743183	2	4	45	1	0	0	0	0	0	0	0	1	14061	767	27	1		1	SEMA4G	10	102743183	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2239503	102743183	32791564	620	34999											
C10orf2	56652	broad.mit.edu	37	chr10	102748165	102748165	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atccgccagtatttgcggggGcatgggatccccttccagga	7	9	13	12	2	0	0	0	0	0	0	3	2	3	2	5	4	1	2	5	4	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:102748165G>A	uc001ksf.2	+	1	873	c.198G>A	c.(196-198)GGG>GGA	p.G66G	MRPL43_uc001kry.1_5'Flank|MRPL43_uc010qpu.1_5'Flank|MRPL43_uc001krz.1_5'Flank|MRPL43_uc001ksa.1_5'Flank|MRPL43_uc001ksb.1_5'Flank|MRPL43_uc001ksd.1_5'Flank|MRPL43_uc001ksc.2_5'Flank|MRPL43_uc001kse.2_5'Flank|C10orf2_uc001ksg.2_Silent_p.G66G|C10orf2_uc001ksi.2_Intron|C10orf2_uc010qpv.1_Intron|C10orf2_uc001ksh.2_Intron	NM_021830	NP_068602	Q96RR1	PEO1_HUMAN	twinkle isoform A	66					cell death|mitochondrial DNA replication|protein hexamerization|protein homooligomerization|transcription from mitochondrial promoter	mitochondrial nucleoid	5'-3' DNA helicase activity|ATP binding|protease binding|single-stranded DNA binding			ovary(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)|BRCA - Breast invasive adenocarcinoma(275;0.224)		ATTTGCGGGGGCATGGGATCC	0.562													35	153					0	0	0.012213	0	0		A	102748165	A	A	102748165	2	1	45	1	0	0	0	0	0	0	0	1	1600	1190	42	2		2	C10orf2	10	102748165	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4982	102748165	32786582	621	35000											
C10orf2	56652	broad.mit.edu	37	chr10	102748553	102748553	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactcaagcgtttcagtgtgCgatatctgcgacctgctcgc	7	11	10	13	4	3	0	2	0	1	0	4	2	3	0	1	0	4	2	1	0	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:102748553C>T	uc001ksf.2	+	1	1261	c.586C>T	c.(586-588)CGA>TGA	p.R196*	MRPL43_uc001kry.1_5'Flank|MRPL43_uc010qpu.1_5'Flank|MRPL43_uc001krz.1_5'Flank|MRPL43_uc001ksa.1_5'Flank|MRPL43_uc001ksb.1_5'Flank|MRPL43_uc001ksd.1_5'Flank|MRPL43_uc001ksc.2_5'Flank|MRPL43_uc001kse.2_5'Flank|C10orf2_uc001ksg.2_Nonsense_Mutation_p.R196*|C10orf2_uc001ksi.2_Intron|C10orf2_uc010qpv.1_Intron|C10orf2_uc001ksh.2_Intron	NM_021830	NP_068602	Q96RR1	PEO1_HUMAN	twinkle isoform A	196					cell death|mitochondrial DNA replication|protein hexamerization|protein homooligomerization|transcription from mitochondrial promoter	mitochondrial nucleoid	5'-3' DNA helicase activity|ATP binding|protease binding|single-stranded DNA binding			ovary(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)|BRCA - Breast invasive adenocarcinoma(275;0.224)		TTTCAGTGTGCGATATCTGCG	0.547													7	134					0	0	0.00308	0	0		T	102748553	T	T	102748553	4	4	45	1	0	0	0	0	0	1	0	0	1600	760	27	1	588	1	C10orf2	10	102748553	Nonsense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	388	102748553	32786194	622	35001											
TLX1NB	100038246	broad.mit.edu	37	chr10	102849604	102849604	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttgggaaaggagagagTgctgacttgcccatgccccc	8	8	12	13	0	1	2	0	1	1	1	1	5	1	4	4	2	3	1	4	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:102849604T>G	uc001ksv.2	-	3	1356	c.59A>C	c.(58-60)CAC>CCC	p.H20P		NM_001085398	NP_001078867	P0CAT3	TLXNB_HUMAN	TLX1 divergent	20											0						AAGGAGAGAGTGCTGACTTGC	0.642													3	22					0	0	0.004672	0	0		G	102849604	G	G	102849604	3	3	45	1	0	0	0	0	1	0	0	0	15985	1696	59	5	313	5	TLX1NB	10	102849604	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	101051	102849604	32685143	623	35002											
DPCD	25911	broad.mit.edu	37	chr10	103360573	103360573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggagacccagcgcccctagGagcagggaacctggggcctg	9	3	16	13	1	0	1	0	0	0	1	0	4	0	3	5	5	3	1	5	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:103360573G>A	uc001ktn.2	+	3	229	c.224G>A	c.(223-225)GGA>GAA	p.G75E	hsa-mir-3158-1|MI0014186_5'Flank	NM_015448	NP_056263	Q9BVM2	DPCD_HUMAN	DPCD protein	75							protein binding			skin(1)	1						GCGCCCCTAGGAGCAGGGAAC	0.557													10	80					0	0	0.006214	0	0		A	103360573	A	A	103360573	3	1	45	1	0	0	0	0	1	0	0	0	4717	1174	41	4	234	4	DPCD	10	103360573	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	510969	103360573	32174174	624	35003											
CNNM2	54805	broad.mit.edu	37	chr10	104679834	104679834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaatgacaccaagttggacGctatgctggaagaatttaag	14	10	10	7	1	1	2	1	1	0	1	1	4	1	4	1	2	1	3	1	2	6	4	rs146507239		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:104679834G>A	uc001kwm.2	+	1	1721	c.1597G>A	c.(1597-1599)GCT>ACT	p.A533T	CNNM2_uc001kwn.2_Missense_Mutation_p.A533T|CNNM2_uc001kwl.2_Missense_Mutation_p.A533T	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	533	CBS 2.				ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CAAGTTGGACGCTATGCTGGA	0.463													34	133					0	0	0.003271	0	0		A	104679834	A	A	104679834	3	1	45	1	0	0	0	0	1	0	0	0	3616	1087	38	1	1599	1	CNNM2	10	104679834	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1319261	104679834	30854913	625	35004											
SLK	9748	broad.mit.edu	37	chr10	105761303	105761303	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatggcaaagaggaagaTgaagaggaggaaacagaaaa	22	2	15	2	0	0	6	0	1	0	5	0	10	0	9	0	4	1	1	0	4	7	0	rs139324300		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:105761303T>C	uc001kxo.1	+	8	1000	c.966T>C	c.(964-966)GAT>GAC	p.D322D	SLK_uc001kxp.1_Silent_p.D322D	NM_014720	NP_055535	Q9H2G2	SLK_HUMAN	serine/threonine kinase 2	322	Glu-rich.				apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		aagaggaagatgaagaggagg	0.279													11	32					0	0	0.008291	0	0		C	105761303	C	C	105761303	2	2	45	1	0	0	0	0	0	0	0	1	14773	1461	51	3		3	SLK	10	105761303	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1081469	105761303	29773444	626	35005											
ITPRIP	85450	broad.mit.edu	37	chr10	106075805	106075805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acacgcggaagagccccatgGccatggttggagctttcctg	8	8	13	12	2	0	1	0	0	0	1	1	3	1	3	4	4	2	2	4	4	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:106075805G>A	uc001kye.2	-	2	78	c.5C>T	c.(4-6)GCC>GTC	p.A2V	ITPRIP_uc001kyf.2_Missense_Mutation_p.A2V|ITPRIP_uc001kyg.2_Missense_Mutation_p.A2V	NM_033397	NP_203755	Q8IWB1	IPRI_HUMAN	inositol 1,4,5-triphosphate receptor interacting	2						plasma membrane					0						GAGCCCCATGGCCATGGTTGG	0.627													4	13					0	0	0.009096	0	0		A	106075805	A	A	106075805	3	1	45	1	0	0	0	0	1	0	0	0	7939	1203	42	2	1642	2	ITPRIP	10	106075805	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	314502	106075805	29458942	627	35006											
PDCD4	27250	broad.mit.edu	37	chr10	112647471	112647471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgaaaagtggagtaccaGtgttggcagtatccttagca	14	10	11	6	0	0	1	0	1	0	0	1	2	1	2	2	2	2	5	2	2	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:112647471G>A	uc001kzh.2	+	6	847	c.604G>A	c.(604-606)GTG>ATG	p.V202M	PDCD4_uc001kzg.2_Missense_Mutation_p.V191M|PDCD4_uc010qre.1_Missense_Mutation_p.V188M	NM_014456	NP_055271	Q53EL6	PDCD4_HUMAN	programmed cell death 4 isoform 1	202	MI 1.				apoptosis|cell aging|negative regulation of cell cycle|negative regulation of JUN kinase activity|negative regulation of transcription, DNA-dependent	cytosol|nucleus	protein binding|RNA binding			ovary(1)|breast(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.000526)|all cancers(201;0.00794)|BRCA - Breast invasive adenocarcinoma(275;0.125)		TGGAGTACCAGTGTTGGCAGT	0.353													14	77					0	0	0.006122	0	0		A	112647471	A	A	112647471	3	1	45	1	0	0	0	0	1	0	0	0	11640	1029	36	4	636	4	PDCD4	10	112647471	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	6571666	112647471	22887276	628	35007											
HABP2	3026	broad.mit.edu	37	chr10	115336940	115336940	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcaaggacaacccatgtggCcggggccaatgtctcattac	10	8	11	12	1	1	0	1	0	1	0	2	1	1	1	3	4	3	1	3	4	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:115336940C>T	uc001lai.3	+	5	466	c.363C>T	c.(361-363)GGC>GGT	p.G121G	HABP2_uc010qrz.1_RNA|HABP2_uc010qry.1_Missense_Mutation_p.A110V	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	121	EGF-like 2.				cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		ACCCATGTGGCCGGGGCCAAT	0.488													10	87					0	0	0.006214	0	0		T	115336940	T	T	115336940	2	4	45	1	0	0	0	0	0	0	0	1	6954	726	26	2		2	HABP2	10	115336940	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2689469	115336940	20197807	629	35008											
PNLIP	5406	broad.mit.edu	37	chr10	118306822	118306822	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggaaaagaagtttgctaCgaaagactcggctgcttcag	13	8	12	8	2	1	2	1	0	0	2	2	4	1	3	0	2	3	5	0	2	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:118306822C>T	uc001lcm.2	+	3	106	c.63C>T	c.(61-63)TAC>TAT	p.Y21Y		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	21					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	AAGTTTGCTACGAAAGACTCG	0.428													17	78					0	0	0.007413	0	0		T	118306822	T	T	118306822	2	4	45	1	0	0	0	0	0	0	0	1	12168	547	19	1		1	PNLIP	10	118306822	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2969882	118306822	17227925	630	35009											
HTRA1	5654	broad.mit.edu	37	chr10	124249045	124249045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtggtgaccaacaagcaccGggtcaaagttgagctgaaga	13	6	13	9	2	1	4	1	3	0	1	1	4	1	4	2	2	3	3	2	2	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:124249045G>A	uc001lgj.2	+	3	808	c.680G>A	c.(679-681)CGG>CAG	p.R227Q		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	227	Serine protease.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				AACAAGCACCGGGTCAAAGTT	0.493													26	82					0	0	0.005443	0	0		A	124249045	A	A	124249045	3	1	45	1	0	0	0	0	1	0	0	0	7469	1116	39	1	690	1	HTRA1	10	124249045	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5942223	124249045	11285702	631	35010											
UROS	7390	broad.mit.edu	37	chr10	127477552	127477552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcggccagcgcgcgagccGtagtggggccgatggctgca	5	4	20	12	6	0	0	0	0	0	0	0	2	0	0	3	5	3	3	3	5	1	1	rs121908014		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:127477552G>A	uc001liw.3	-	9	816	c.683C>T	c.(682-684)ACG>ATG	p.T228M	UROS_uc001liv.3_Missense_Mutation_p.T161M|UROS_uc010quh.1_RNA|UROS_uc001lix.3_Missense_Mutation_p.T228M|UROS_uc001liy.3_RNA	NM_000375	NP_000366	P10746	HEM4_HUMAN	uroporphyrinogen III synthase	228			T -> M (in CEP; no detectable activity).	T->A: Impairs enzymatic activity.	heme biosynthetic process|uroporphyrinogen III biosynthetic process	cytosol|mitochondrion	uroporphyrinogen-III synthase activity				0		all_lung(145;0.00756)|Lung NSC(174;0.0116)|Colorectal(57;0.0855)|all_neural(114;0.0937)|Breast(234;0.203)				CGCGCGAGCCGTAGTGGGGCC	0.642													14	63					0	0	0.001855	0	0		A	127477552	A	A	127477552	3	1	45	1	0	0	0	0	1	0	0	0	17056	1145	40	1	118	1	UROS	10	127477552	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3228507	127477552	8057195	632	35011											
MKI67	4288	broad.mit.edu	37	chr10	129901083	129901083	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcagcctcttggttccCgtgacgcttccatctttgcc	4	12	9	16	3	2	1	0	1	2	0	4	1	4	1	4	1	3	3	4	1	0	4	rs141921507	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:129901083C>T	uc001lke.2	-	13	9216	c.9021G>A	c.(9019-9021)ACG>ACA	p.T3007T	MKI67_uc001lkf.2_Silent_p.T2647T|MKI67_uc009yav.1_Silent_p.T2582T|MKI67_uc009yaw.1_Silent_p.T2157T	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	3007					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TCTTGGTTCCCGTGACGCTTC	0.562													4	134					0	0	0.001168	0	0		T	129901083	T	T	129901083	2	4	45	1	0	0	0	0	0	0	0	1	9616	639	23	1		1	MKI67	10	129901083	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2423531	129901083	5633664	633	35012											
MKI67	4288	broad.mit.edu	37	chr10	129902596	129902596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtagtctcccctgatgtcCgtgtgagcttgctgactgct	4	13	12	12	2	1	3	0	3	1	0	3	3	2	3	3	0	3	4	3	0	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr10:129902596C>T	uc001lke.2	-	13	7703	c.7508G>A	c.(7507-7509)CGG>CAG	p.R2503Q	MKI67_uc001lkf.2_Missense_Mutation_p.R2143Q|MKI67_uc009yav.1_Missense_Mutation_p.R2078Q|MKI67_uc009yaw.1_Missense_Mutation_p.R1653Q	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2503	16 X 122 AA approximate repeats.|13.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				CCCTGATGTCCGTGTGAGCTT	0.498													48	218					0	0	0.01441	0	0		T	129902596	T	T	129902596	3	4	45	1	0	0	0	0	1	0	0	0	9616	652	23	1	2274	1	MKI67	10	129902596	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1513	129902596	5632151	634	35013											
ANO9	338440	broad.mit.edu	37	chr11	418560	418560	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtcgggcacgaaccaggcGgcgatgagcttgatgcacaa	11	6	14	10	4	0	2	0	2	0	0	1	4	0	2	1	3	3	3	1	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:418560G>A	uc001lpi.2	-	23	2245	c.2160C>T	c.(2158-2160)GCC>GCT	p.A720A	SIGIRR_uc001lpf.2_5'Flank|SIGIRR_uc001lpe.1_5'Flank|ANO9_uc001lph.2_Silent_p.A413A|ANO9_uc010qvv.1_Silent_p.A576A	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	720	Helical; (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						CGAACCAGGCGGCGATGAGCT	0.622													18	95					0	0	0.007413	0	0		A	418560	A	A	418560	2	1	45	1	0	0	0	0	0	0	0	1	704	1103	39	1		1	ANO9	11	418560	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08		418560	134587956	635	35014											
RNH1	6050	broad.mit.edu	37	chr11	494914	494914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggaggcagcccggctgccGgacgctctccaccagctgca	7	4	13	17	3	1	0	0	0	1	0	2	2	1	2	4	4	4	5	4	4	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:494914G>A	uc001lpk.1	-	8	2675	c.1267C>T	c.(1267-1269)CGG>TGG	p.R423W	RNH1_uc001lpl.1_Missense_Mutation_p.R423W|RNH1_uc001lpm.1_Missense_Mutation_p.R423W|RNH1_uc001lpn.1_Missense_Mutation_p.R423W|RNH1_uc001lpo.1_Missense_Mutation_p.R423W|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Missense_Mutation_p.R423W|RNH1_uc001lpt.1_Missense_Mutation_p.R180W|RNH1_uc001lpq.1_Missense_Mutation_p.R423W|RNH1_uc001lpr.1_Missense_Mutation_p.R423W|RNH1_uc001lps.1_Missense_Mutation_p.R423W	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	423	LRR 15.			RQ -> SE (in Ref. 2; CAA32151/AAA60249).	mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCCGGCTGCCGGACGCTCTCC	0.711													7	12					0	0	0.001984	0	0		A	494914	A	A	494914	3	1	45	1	0	0	0	0	1	0	0	0	13529	1115	39	1	126	1	RNH1	11	494914	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	76354	494914	134511602	636	35015											
RNH1	6050	broad.mit.edu	37	chr11	498841	498841	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacatcacccagcttgttgCtgcccagggccagctcccgc	6	7	9	19	1	1	0	1	0	0	0	2	0	2	0	5	1	4	4	5	1	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:498841C>A	uc001lpk.1	-	5	2115	c.707G>T	c.(706-708)AGC>ATC	p.S236I	RNH1_uc001lpl.1_Missense_Mutation_p.S236I|RNH1_uc001lpm.1_Missense_Mutation_p.S236I|RNH1_uc001lpn.1_Missense_Mutation_p.S236I|RNH1_uc001lpo.1_Missense_Mutation_p.S236I|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Missense_Mutation_p.S236I|RNH1_uc001lpt.1_5'UTR|RNH1_uc001lpq.1_Missense_Mutation_p.S236I|RNH1_uc001lpr.1_Missense_Mutation_p.S236I|RNH1_uc001lps.1_Missense_Mutation_p.S236I	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	236	LRR 8.				mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CAGCTTGTTGCTGCCCAGGGC	0.672													4	33					0.00909568	0.00927429	0.009096	1	0		A	498841	A	A	498841	3	1	45	1	0	0	0	0	1	0	0	0	13529	797	28	5	698	5	RNH1	11	498841	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3927	498841	134507675	637	35016											
RRM1	6240	broad.mit.edu	37	chr11	4144429	4144429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagttatgagaaacaaggtCgtgtccgcaaagttgtaaaa	15	10	10	6	2	1	1	1	1	0	1	3	2	2	1	1	1	1	4	1	1	6	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:4144429C>T	uc001lyw.3	+	12	1454	c.1135C>T	c.(1135-1137)CGT>TGT	p.R379C	RRM1_uc009yej.2_RNA|RRM1_uc009yei.2_Missense_Mutation_p.R339C|RRM1_uc010qyc.1_Missense_Mutation_p.R282C|RRM1_uc010qyd.1_Missense_Mutation_p.R41C	NM_001033	NP_001024	P23921	RIR1_HUMAN	ribonucleoside-diphosphate reductase M1 chain	379					deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion	cytosol|nucleoplasm|ribonucleoside-diphosphate reductase complex	ATP binding|ribonucleoside-diphosphate reductase activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00502)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0848)|LUSC - Lung squamous cell carcinoma(625;0.205)	Clofarabine(DB00631)|Fludarabine(DB01073)|Gemcitabine(DB00441)|Hydroxyurea(DB01005)	GAAACAAGGTCGTGTCCGCAA	0.353													5	69					0	0	0.001984	0	0		T	4144429	T	T	4144429	3	4	45	1	0	0	0	0	1	0	0	0	13706	884	31	1	1181	1	RRM1	11	4144429	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3645588	4144429	130862087	638	35017											
TRIM6	117854	broad.mit.edu	37	chr11	5632556	5632556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaattcctatgaccctgcGtcgtccaagctcttgaatat	9	14	7	11	2	1	2	0	2	1	0	4	2	3	2	3	0	2	2	3	0	5	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:5632556G>A	uc001mbc.1	+	8	1583	c.1451G>A	c.(1450-1452)CGT>CAT	p.R484H	HBG2_uc001mak.1_Intron|TRIM6-TRIM34_uc001mbf.2_Intron|TRIM6_uc009yeo.1_Missense_Mutation_p.R458H|TRIM6_uc010qzj.1_Missense_Mutation_p.R309H|TRIM6_uc001mbe.2_Missense_Mutation_p.R309H|TRIM6_uc010qzk.1_Missense_Mutation_p.R309H|TRIM6_uc010qzl.1_Missense_Mutation_p.R309H|TRIM6_uc001mbd.2_Missense_Mutation_p.R512H|TRIM6_uc001mbg.1_Missense_Mutation_p.R309H|TRIM6_uc009yep.1_3'UTR	NM_058166	NP_477514	Q9C030	TRIM6_HUMAN	tripartite motif-containing 6 isoform 2	484	B30.2/SPRY.				protein trimerization	cytoplasm	zinc ion binding				0		Lung NSC(207;2.23e-07)|all_lung(207;1.81e-06)|Medulloblastoma(188;0.00225)|Breast(177;0.0101)|all_neural(188;0.0212)		Epithelial(150;1.12e-45)|BRCA - Breast invasive adenocarcinoma(625;0.00101)|LUSC - Lung squamous cell carcinoma(625;0.192)		ATGACCCTGCGTCGTCCAAGC	0.413													19	124					0	0	0.010504	0	0		A	5632556	A	A	5632556	3	1	45	1	0	0	0	0	1	0	0	0	16559	1145	40	1	1565	1	TRIM6	11	5632556	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1488127	5632556	129373960	639	35018											
OR52E6	390078	broad.mit.edu	37	chr11	5862873	5862874	+	Missense_Mutation	DNP	GC	TT	TT																															ttgatattgaaccagaagatGcccagcattttgggaatggt																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:5862873_5862874GC>TT	uc010qzq.1	-	1	254_255	c.254_255GC>AA	c.(253-255)GGC>GAA	p.G85E	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACCAGAAGATGCCCAGCATTTT	0.465													29	162					0	0	0.004672	0	0		TT	5862874	TT	TT	5862873	3	4	45	1	0	0	0	0	1	0	0	0	11136	1306	46	5	688	5	OR52E6	11	5862873	Missense_Mutation	DNP	GC	TCGA-BR-6852-01A-11D-1882-08	230317	5862873	129143643	640	35019											
FAM160A2	84067	broad.mit.edu	37	chr11	6238994	6238994	+	Frame_Shift_Del	DEL	C	-	-																															cagctcttcctcctccccttCccccacgttgttcctgtcct																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:6238994delC	uc001mcl.3	-	9	2181	c.1822delG	c.(1822-1824)GAAfs	p.E608fs	FAM160A2_uc001mck.3_Frame_Shift_Del_p.E622fs|FAM160A2_uc001mcm.2_Frame_Shift_Del_p.E608fs	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	608					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						tcctccccttcccccacgttg	0.383													11	17	---	---	---	---						.	-	6238994	-	-	6238994	7	5	45	1	0	1	0	1	0	0	0	0	5480	864	30	0	1112	0	FAM160A2	11	6238994	Frame_Shift_Del	DEL	C	TCGA-BR-6852-01A-11D-1882-08	376121	6238994	128767522	641	35020											
OR10A4	283297	broad.mit.edu	37	chr11	6898314	6898314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acatatcctgtgcccagctgGcagctgcctcttggttctca	6	12	9	14	0	2	0	1	0	2	0	4	0	3	0	3	2	4	4	3	2	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:6898314G>A	uc010rat.1	+	1	436	c.436G>A	c.(436-438)GCA>ACA	p.A146T		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TGCCCAGCTGGCAGCTGCCTC	0.552													15	72					0	0	0.00245	0	0		A	6898314	A	A	6898314	3	1	45	1	0	0	0	0	1	0	0	0	10911	1203	42	2	438	2	OR10A4	11	6898314	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	659320	6898314	128108202	642	35021											
ZNF214	7761	broad.mit.edu	37	chr11	7021712	7021712	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtactaactgatgaattcgaAgatttgagctctggctgaaa	13	12	10	6	1	1	5	0	4	1	1	2	6	1	5	0	1	3	3	0	1	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:7021712A>C	uc001mfa.2	-	3	1505	c.1202T>G	c.(1201-1203)CTT>CGT	p.L401R	ZNF214_uc010ray.1_Missense_Mutation_p.L401R|ZNF214_uc009yfh.1_Missense_Mutation_p.L401R	NM_013249	NP_037381	Q9UL59	ZN214_HUMAN	zinc finger protein 214	401	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				Epithelial(150;3.87e-08)|BRCA - Breast invasive adenocarcinoma(625;0.081)		ATGAATTCGAAGATTTGAGCT	0.408													18	88					0	0	0.010504	0	0		C	7021712	C	C	7021712	3	2	45	1	0	0	0	0	1	0	0	0	17795	72	3	5	622	5	ZNF214	11	7021712	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	123398	7021712	127984804	643	35022											
ZNF214	7761	broad.mit.edu	37	chr11	7022691	7022691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgattctcatacatctgggCgccagcattccaccagcctt	8	11	7	15	1	2	1	1	1	2	0	4	1	3	1	4	1	3	1	4	1	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:7022691C>T	uc001mfa.2	-	3	526	c.223G>A	c.(223-225)GCC>ACC	p.A75T	ZNF214_uc010ray.1_Missense_Mutation_p.A75T|ZNF214_uc009yfh.1_Missense_Mutation_p.A75T	NM_013249	NP_037381	Q9UL59	ZN214_HUMAN	zinc finger protein 214	75	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				Epithelial(150;3.87e-08)|BRCA - Breast invasive adenocarcinoma(625;0.081)		TACATCTGGGCGCCAGCATTC	0.418													12	338					0	0	0.013537	0	0		T	7022691	T	T	7022691	3	4	45	1	0	0	0	0	1	0	0	0	17795	768	27	1	1601	1	ZNF214	11	7022691	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	979	7022691	127983825	644	35023											
RBMXL2	27288	broad.mit.edu	37	chr11	7111338	7111338	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcgacagttacagcagcagTtatggccggagcgaccgcta	10	6	13	12	5	0	0	0	0	0	0	0	3	0	1	2	2	4	5	2	2	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:7111338T>C	uc001mfc.2	+	1	1174	c.987T>C	c.(985-987)AGT>AGC	p.S329S		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	329	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ACAGCAGCAGTTATGGCCGGA	0.672													3	37					0	0	0.009096	0	0		C	7111338	C	C	7111338	2	2	45	1	0	0	0	0	0	0	0	1	13179	1722	60	3		3	RBMXL2	11	7111338	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	88647	7111338	127895178	645	35024											
IPO7	10527	broad.mit.edu	37	chr11	9451349	9451349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaatatagtgaagaagttActcctattgcagtagaaatg	15	12	10	4	0	0	4	0	2	0	2	1	4	1	4	1	0	2	3	1	0	9	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:9451349A>G	uc001mho.2	+	15	1862	c.1720A>G	c.(1720-1722)ACT>GCT	p.T574A		NM_006391	NP_006382	O95373	IPO7_HUMAN	importin 7	574					interspecies interaction between organisms|signal transduction	Golgi apparatus|nuclear pore|soluble fraction	protein transporter activity|Ran GTPase binding|small GTPase regulator activity			lung(1)|breast(1)	2				all cancers(16;8.29e-09)|Epithelial(150;4.76e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0217)		TGAAGAAGTTACTCCTATTGC	0.348													7	55					0	0	0.00308	0	0		G	9451349	G	G	9451349	3	3	45	1	0	0	0	0	1	0	0	0	7813	391	14	3	1778	3	IPO7	11	9451349	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2340011	9451349	125555167	646	35025											
USH1C	10083	broad.mit.edu	37	chr11	17519712	17519712	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggccttattcttaccccGccctgattccaggccttctg	5	12	9	15	1	2	1	0	1	2	0	3	1	3	1	6	3	1	0	6	3	2	5	rs142801489		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:17519712G>A	uc001mnf.2	-	19	1696	c.1587C>T	c.(1585-1587)GGC>GGT	p.G529G	USH1C_uc001mne.2_Silent_p.G829G|USH1C_uc009yhb.2_Silent_p.G510G|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_Silent_p.G493G	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	529	PDZ 3.				equilibrioception|G2/M transition of mitotic cell cycle|photoreceptor cell maintenance|sensory perception of sound	apical part of cell|cytoplasm|stereocilium	protein binding			ovary(1)	1						TTCTTACCCCGCCCTGATTCC	0.577													26	146					0	0	0.004656	0	0		A	17519712	A	A	17519712	2	1	45	1	0	0	0	0	0	0	0	1	17060	1074	38	1		1	USH1C	11	17519712	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	8068363	17519712	117486804	647	35026											
MRGPRX3	117195	broad.mit.edu	37	chr11	18159640	18159640	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagagggctctgcaggaCacgcctgaggtggatgaagg	9	6	16	10	1	1	3	0	2	1	1	2	5	2	5	2	5	1	2	2	5	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:18159640C>T	uc001mnu.2	+	3	1252	c.891C>T	c.(889-891)GAC>GAT	p.D297D		NM_054031	NP_473372	Q96LB0	MRGX3_HUMAN	MAS-related GPR, member X3	297	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						CTCTGCAGGACACGCCTGAGG	0.562													20	73					0	0	0.012319	0	0		T	18159640	T	T	18159640	2	4	45	1	0	0	0	0	0	0	0	1	9786	477	17	4		4	MRGPRX3	11	18159640	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	639928	18159640	116846876	648	35027											
MRGPRX1	259249	broad.mit.edu	37	chr11	18955384	18955384	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgctccaatctgcttccCgacagctccaggatttcctc	7	11	6	17	1	1	0	0	0	1	0	6	2	5	1	4	1	3	3	4	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:18955384C>T	uc001mpg.2	-	1	1166	c.948G>A	c.(946-948)TCG>TCA	p.S316S		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	316	Cytoplasmic (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						ATCTGCTTCCCGACAGCTCCA	0.547													14	65					0	0	0.00245	0	0		T	18955384	T	T	18955384	2	4	45	1	0	0	0	0	0	0	0	1	9784	639	23	1		1	MRGPRX1	11	18955384	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	795744	18955384	116051132	649	35028											
MRGPRX1	259249	broad.mit.edu	37	chr11	18956154	18956154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatgtagatggagaaggCgttcctgcgcatgcggcagc	9	7	17	8	3	0	2	0	0	0	2	1	5	1	3	1	4	3	4	1	4	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:18956154C>T	uc001mpg.2	-	1	396	c.178G>A	c.(178-180)GCC>ACC	p.A60T		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	60	Cytoplasmic (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						ATGGAGAAGGCGTTCCTGCGC	0.567													36	140					0	0	0.003271	0	0		T	18956154	T	T	18956154	3	4	45	1	0	0	0	0	1	0	0	0	9784	768	27	1	794	1	MRGPRX1	11	18956154	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	770	18956154	116050362	650	35029											
ANO3	63982	broad.mit.edu	37	chr11	26558958	26558958	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttctctttgcaggtatcCgtaaacttataaacaatggc	11	15	6	9	1	2	0	0	0	2	0	4	0	3	0	1	2	3	3	1	2	7	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:26558958C>T	uc001mqt.3	+	10	1127	c.982C>T	c.(982-984)CGT>TGT	p.R328C	ANO3_uc010rdr.1_Missense_Mutation_p.R312C|ANO3_uc010rds.1_Missense_Mutation_p.R167C|ANO3_uc010rdt.1_Missense_Mutation_p.R182C	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	328	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity	p.R328H(1)		ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGCAGGTATCCGTAAACTTAT	0.353													4	111					0	0	0.009096	0	0		T	26558958	T	T	26558958	3	4	45	1	0	0	0	0	1	0	0	0	698	652	23	1	1020	1	ANO3	11	26558958	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	7602804	26558958	108447558	651	35030											
ABTB2	25841	broad.mit.edu	37	chr11	34218969	34218969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtagagcgtgtggagggCgtcgggggaccaagtgatgg	8	7	21	5	3	0	2	0	1	0	1	1	4	0	4	1	5	1	2	1	5	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:34218969C>T	uc001mvl.1	-	3	819	c.589G>A	c.(589-591)GCC>ACC	p.A197T		NM_145804	NP_665803	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing	197							DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)				GTGTGGAGGGCGTCGGGGGAC	0.647													11	67					0	0	0.013537	0	0		T	34218969	T	T	34218969	3	4	45	1	0	0	0	0	1	0	0	0	103	768	27	1	1990	1	ABTB2	11	34218969	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	7660011	34218969	100787547	652	35031											
PRR5L	79899	broad.mit.edu	37	chr11	36459025	36459025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaatattttatccagttcAggttagtctcattggggaac	10	14	10	7	0	2	0	2	0	1	0	4	1	3	1	1	4	1	3	1	4	5	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:36459025A>G	uc001mwo.3	+	6	832	c.443A>G	c.(442-444)CAG>CGG	p.Q148R	PRR5L_uc001mwp.2_Missense_Mutation_p.Q148R|PRR5L_uc009ykk.2_Missense_Mutation_p.Q67R|PRR5L_uc010rfc.1_Missense_Mutation_p.Q148R	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	148										ovary(1)	1						TATCCAGTTCAGGTTAGTCTC	0.512													24	104					0	0	0.00278	0	0		G	36459025	G	G	36459025	3	3	45	1	0	0	0	0	1	0	0	0	12624	202	7	3	467	3	PRR5L	11	36459025	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2240056	36459025	98547491	653	35032											
CHST1	8534	broad.mit.edu	37	chr11	45672102	45672102	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcagtcgtagaggctccgCaggaggtcgcggctggcgcc	5	6	17	13	6	0	1	0	0	0	1	4	2	1	2	2	5	0	5	2	5	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:45672102C>T	uc001mys.1	-	4	1043	c.372G>A	c.(370-372)CTG>CTA	p.L124L		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	124	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		AGAGGCTCCGCAGGAGGTCGC	0.677													20	120					0	0	0.010504	0	0		T	45672102	T	T	45672102	2	4	45	1	0	0	0	0	0	0	0	1	3400	697	25	2		2	CHST1	11	45672102	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	9213077	45672102	89334414	654	35033											
GYLTL1B	120071	broad.mit.edu	37	chr11	45949039	45949039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgtgaggggcccctataccCcgtcaaccagcttcgcaacg	8	6	10	17	4	1	1	1	1	0	0	2	1	1	1	6	2	4	2	6	2	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:45949039C>T	uc001nbv.1	+	11	1610	c.1499C>T	c.(1498-1500)CCC>CTC	p.P500L	GYLTL1B_uc001nbw.1_Missense_Mutation_p.P469L|GYLTL1B_uc001nbx.1_Missense_Mutation_p.P500L|GYLTL1B_uc001nby.1_Missense_Mutation_p.P183L|GYLTL1B_uc001nbz.1_5'Flank	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	500	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		CCCCTATACCCCGTCAACCAG	0.597													4	159					0	0	0.009096	0	0		T	45949039	T	T	45949039	3	4	45	1	0	0	0	0	1	0	0	0	6923	623	22	4	1537	4	GYLTL1B	11	45949039	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	276937	45949039	89057477	655	35034											
CHRM4	1132	broad.mit.edu	37	chr11	46406884	46406884	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtccaggtgaggatgaaGgctagcagaatggcaaagat	13	6	16	6	1	0	4	0	2	0	2	1	5	1	5	1	5	1	3	1	5	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:46406884G>T	uc001nct.1	-	1	1224	c.1224C>A	c.(1222-1224)GCC>GCA	p.A408A		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	408	Helical; Name=6; (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	TGAGGATGAAGGCTAGCAGAA	0.592													10	27					3.86212e-05	4.06814e-05	0.008291	1	0		T	46406884	T	T	46406884	2	4	45	1	0	0	0	0	0	0	0	1	3382	987	35	5		5	CHRM4	11	46406884	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	457845	46406884	88599632	656	35035											
SPI1	6688	broad.mit.edu	37	chr11	47399893	47399893	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaacccttccattttgcaCgcctgtaacatccagccggg	9	9	9	14	2	0	0	0	0	0	0	2	1	2	1	5	2	4	2	5	2	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:47399893C>T	uc001nfc.1	-	1	235	c.12G>A	c.(10-12)GCG>GCA	p.A4A	SPI1_uc001nfb.1_Silent_p.A4A|SLC39A13_uc001nfd.2_Intron|SPI1_uc009ylp.1_Translation_Start_Site	NM_003120	NP_003111	P17947	SPI1_HUMAN	hematopoietic transcription factor PU.1 isoform	4					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of erythrocyte differentiation	nucleus	protein binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)	2				Lung(87;0.0967)		CCATTTTGCACGCCTGTAACA	0.677													4	31					0	0	0.000602	0	0		T	47399893	T	T	47399893	2	4	45	1	0	0	0	0	0	0	0	1	15074	523	19	1		1	SPI1	11	47399893	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	993009	47399893	87606623	657	35036											
OR10AG1	282770	broad.mit.edu	37	chr11	55735092	55735092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgatatctttgttcctcAgggtatatataataggattc	11	16	7	7	0	2	1	1	1	1	0	4	2	3	2	2	2	0	2	2	2	6	9			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:55735092A>G	uc010rit.1	-	1	848	c.848T>C	c.(847-849)CTG>CCG	p.L283P		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					TTTGTTCCTCAGGGTATATAT	0.323													15	54					0	0	0.006122	0	0		G	55735092	G	G	55735092	3	3	45	1	0	0	0	0	1	0	0	0	10916	188	7	3	60	3	OR10AG1	11	55735092	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	8335199	55735092	79271424	658	35037											
SSRP1	6749	broad.mit.edu	37	chr11	57099223	57099223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgagtagtagtggtaccaCgagcaaagttgacaaaggag	16	6	13	6	2	0	1	0	1	0	0	0	4	0	2	1	2	3	5	1	2	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:57099223C>T	uc001njt.2	-	9	1409	c.1142G>A	c.(1141-1143)CGT>CAT	p.R381H		NM_003146	NP_003137	Q08945	SSRP1_HUMAN	structure specific recognition protein 1	381					DNA repair|DNA replication|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|cytoplasm|nucleoplasm	DNA binding|protein binding			ovary(2)	2						AGTGGTACCACGAGCAAAGTT	0.522													11	87					0	0	0.010729	0	0		T	57099223	T	T	57099223	3	4	45	1	0	0	0	0	1	0	0	0	15219	536	19	1	1023	1	SSRP1	11	57099223	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1364131	57099223	77907293	659	35038											
SSRP1	6749	broad.mit.edu	37	chr11	57100495	57100495	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcgcacctccatgagagAcacctctgcgtcatcgtttt	9	10	9	13	3	2	2	1	1	1	1	4	4	3	2	3	0	2	2	3	0	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:57100495A>G	uc001njt.2	-	5	742	c.475T>C	c.(475-477)TCT>CCT	p.S159P	SSRP1_uc010rjq.1_Missense_Mutation_p.S159P	NM_003146	NP_003137	Q08945	SSRP1_HUMAN	structure specific recognition protein 1	159					DNA repair|DNA replication|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|cytoplasm|nucleoplasm	DNA binding|protein binding			ovary(2)	2						TCCATGAGAGACACCTCTGCG	0.572													28	126					0	0	0.009535	0	0		G	57100495	G	G	57100495	3	3	45	1	0	0	0	0	1	0	0	0	15219	275	10	3	1706	3	SSRP1	11	57100495	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1272	57100495	77906021	660	35039											
TCN1	6947	broad.mit.edu	37	chr11	59622240	59622240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattctcacagagtaattgaCggagatatatgattgtgagt	13	13	11	4	1	1	5	1	3	1	2	2	7	1	5	0	1	0	1	0	1	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:59622240C>T	uc001noj.2	-	7	1104	c.1006G>A	c.(1006-1008)GTC>ATC	p.V336I		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	336					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GAGTAATTGACGGAGATATAT	0.418													17	97					0	0	0.007413	0	0		T	59622240	T	T	59622240	3	4	45	1	0	0	0	0	1	0	0	0	15731	536	19	1	307	1	TCN1	11	59622240	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2521745	59622240	75384276	661	35040											
MS4A12	54860	broad.mit.edu	37	chr11	60269478	60269478	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tattatctctggctctctctCtgtgtcagcatccaaggagc	7	14	8	12	0	4	0	1	0	3	0	8	1	5	1	1	2	2	2	1	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:60269478C>G	uc001npr.2	+	4	494	c.437C>G	c.(436-438)TCT>TGT	p.S146C		NM_017716	NP_060186	Q9NXJ0	M4A12_HUMAN	membrane-spanning 4-domains, subfamily A, member	146	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						GGCTCTCTCTCTGTGTCAGCA	0.388													35	145					0	0	0.007835	0	0		G	60269478	G	G	60269478	3	3	45	1	0	0	0	0	1	0	0	0	9874	913	32	5	447	5	MS4A12	11	60269478	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	647238	60269478	74737038	662	35041											
DDB1	1642	broad.mit.edu	37	chr11	61097046	61097046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccggtctctgaggggcggCcaatgcggtcctgagaaaca	8	7	15	11	3	1	2	0	2	1	1	3	3	2	2	3	5	3	0	3	5	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:61097046C>T	uc001nrc.3	-	4	564	c.338G>A	c.(337-339)GGC>GAC	p.G113D	DDB1_uc010rle.1_Intron|DDB1_uc010rlf.1_Missense_Mutation_p.G113D|DDB1_uc010rlg.1_5'Flank|DDB1_uc001nrd.2_Missense_Mutation_p.G113D|DDB1_uc009ynl.1_Intron	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	113	Interaction with CDT1.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						TGAGGGGCGGCCAATGCGGTC	0.502								NER					10	20					0	0	0.006214	0	0		T	61097046	T	T	61097046	3	4	45	1	0	0	0	0	1	0	0	0	4326	739	26	2	3180	2	DDB1	11	61097046	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	827568	61097046	73909470	663	35042											
DAGLA	747	broad.mit.edu	37	chr11	61488196	61488196	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcggcctggtctataacccGcacgaggcctgctccctgaa	7	9	10	15	3	1	1	0	1	1	0	3	2	2	1	4	3	2	2	4	3	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:61488196G>A	uc001nsa.2	+	3	252	c.141G>A	c.(139-141)CCG>CCA	p.P47P		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	47	Extracellular (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		TCTATAACCCGCACGAGGCCT	0.622													13	59					0	0	0.013537	0	0		A	61488196	A	A	61488196	2	1	45	1	0	0	0	0	0	0	0	1	4229	1074	38	1		1	DAGLA	11	61488196	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	391150	61488196	73518320	664	35043											
INCENP	3619	broad.mit.edu	37	chr11	61897808	61897808	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggcccacgggactcgcCagcctttccagattctccat	6	9	8	18	2	1	1	0	0	1	1	4	2	2	2	6	2	1	0	6	2	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:61897808C>A	uc001nsw.1	+	4	1011	c.809C>A	c.(808-810)CCA>CAA	p.P270Q	INCENP_uc009ynv.2_Missense_Mutation_p.P270Q|INCENP_uc009ynw.1_Missense_Mutation_p.P270Q|INCENP_uc001nsx.1_Missense_Mutation_p.P270Q	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	270					chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						CGGGACTCGCCAGCCTTTCCA	0.657													32	78					6.53348e-20	7.49585e-20	0.003755	1	0		A	61897808	A	A	61897808	3	1	45	1	0	0	0	0	1	0	0	0	7749	594	21	5	819	5	INCENP	11	61897808	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	409612	61897808	73108708	665	35044											
AHNAK	79026	broad.mit.edu	37	chr11	62292290	62292290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttagggcccttcagtttcGcatctggaccttcaatattc	8	15	7	11	1	3	0	2	0	1	0	5	1	3	1	2	2	0	2	2	2	3	7	rs150337979	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:62292290G>A	uc001ntl.2	-	5	9899	c.9599C>T	c.(9598-9600)GCG>GTG	p.A3200V	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3200					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CTTCAGTTTCGCATCTGGACC	0.468													6	347					0	0	0.001984	0	0		A	62292290	A	A	62292290	3	1	45	1	0	0	0	0	1	0	0	0	414	1087	38	1	8193	1	AHNAK	11	62292290	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	394482	62292290	72714226	666	35045											
TAF6L	10629	broad.mit.edu	37	chr11	62554065	62554065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccaggtggcagggggtGccggcgcctggacgacctgc	4	5	19	13	3	0	0	0	0	0	0	0	2	0	1	4	7	2	1	4	7	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:62554065G>A	uc001nvc.2	+	11	1267	c.1166G>A	c.(1165-1167)TGC>TAC	p.C389Y	TMEM179B_uc001nvd.3_5'Flank	NM_006473	NP_006464	Q9Y6J9	TAF6L_HUMAN	TAF6-like RNA polymerase II	389					chromatin remodeling|histone H3 acetylation|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	histone deacetylase complex|STAGA complex	DNA binding|protein binding|transcription coactivator activity			ovary(3)	3						GGCAGGGGGTGCCGGCGCCTG	0.652											OREG0021030	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	19					0	0	0.009096	0	0		A	62554065	A	A	62554065	3	1	45	1	0	0	0	0	1	0	0	0	15556	1319	46	2	1204	2	TAF6L	11	62554065	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	261775	62554065	72452451	667	35046											
NRXN2	9379	broad.mit.edu	37	chr11	64453271	64453271	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggttgacgtagtcggcCgacttgcctgtatgcagcat	8	10	13	10	3	0	1	0	1	0	0	1	3	0	1	2	2	3	5	2	2	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:64453271C>T	uc001oar.2	-	7	1438	c.999G>A	c.(997-999)TCG>TCA	p.S333S	NRXN2_uc001oas.2_Silent_p.S309S|NRXN2_uc001oaq.2_Silent_p.S7S	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CGTAGTCGGCCGACTTGCCTG	0.592													33	117					0	0	0.006999	0	0		T	64453271	T	T	64453271	2	4	45	1	0	0	0	0	0	0	0	1	10685	639	23	1		1	NRXN2	11	64453271	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1899206	64453271	70553245	668	35047											
MEN1	4221	broad.mit.edu	37	chr11	64575097	64575097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggcacacaccatgaacGccacctccatcttgcggtca	10	8	8	15	2	2	2	1	2	1	0	3	2	3	2	4	2	2	1	4	2	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:64575097G>A	uc001obj.2	-	4	798	c.725C>T	c.(724-726)GCG>GTG	p.A242V	MEN1_uc001obk.2_Missense_Mutation_p.A242V|MEN1_uc001obl.2_Missense_Mutation_p.A202V|MEN1_uc001obm.2_Missense_Mutation_p.A237V|MEN1_uc001obn.2_Missense_Mutation_p.A242V|MEN1_uc001obo.2_Missense_Mutation_p.A242V|MEN1_uc001obp.2_Missense_Mutation_p.A237V|MEN1_uc001obq.2_Missense_Mutation_p.A242V|MEN1_uc001obr.2_Missense_Mutation_p.A242V	NM_130800	NP_570712	O00255	MEN1_HUMAN	menin isoform 1	242	Interaction with FANCD2.				DNA repair|histone lysine methylation|MAPKKK cascade|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of JNK cascade|negative regulation of osteoblast differentiation|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of telomerase activity|negative regulation of transcription from RNA polymerase II promoter|osteoblast development|positive regulation of protein binding|positive regulation of transforming growth factor beta receptor signaling pathway|response to gamma radiation|response to UV|transcription, DNA-dependent	chromatin|cleavage furrow|cytosol|histone methyltransferase complex|nuclear matrix|soluble fraction	double-stranded DNA binding|four-way junction DNA binding|protein binding, bridging|protein N-terminus binding|R-SMAD binding|transcription regulatory region DNA binding|Y-form DNA binding	p.A242_I247del(1)		parathyroid(105)|pancreas(64)|gastrointestinal_tract_(site_indeterminate)(15)|small_intestine(13)|lung(9)|pituitary(7)|NS(7)|adrenal_gland(5)|soft_tissue(4)|central_nervous_system(4)|thymus(2)|stomach(1)|retroperitoneum(1)|skin(1)	238						CACCATGAACGCCACCTCCAT	0.438			D|Mis|N|F|S		parathyroid tumors|Pancreatic neuroendocrine tumors	parathyroid adenoma|pituitary adenoma|pancreatic islet cell|carcinoid			Hyperparathyroidism_Familial_Isolated|Multiple_Endocrine_Neoplasia_type_1				8	118					0	0	0.004482	0	0		A	64575097	A	A	64575097	3	1	45	1	0	0	0	0	1	0	0	0	9490	1087	38	1	1150	1	MEN1	11	64575097	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	121826	64575097	70431419	669	35048											
ATG2A	23130	broad.mit.edu	37	chr11	64676743	64676743	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccagagcccctacttacTggggcaggaagtacttgcgc	9	8	12	12	1	0	1	0	0	0	1	1	2	1	2	3	3	5	2	3	3	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:64676743T>G	uc001obx.2	-	15	2319	c.2204A>C	c.(2203-2205)CAG>CCG	p.Q735P		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	735							protein binding			ovary(1)|central_nervous_system(1)	2						CCCTACTTACTGGGGCAGGAA	0.637													8	59					0	0	0.008291	0	0		G	64676743	G	G	64676743	3	3	45	1	0	0	0	0	1	0	0	0	1094	1594	55	5	3720	5	ATG2A	11	64676743	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	101646	64676743	70329773	670	35049											
KLC2	64837	broad.mit.edu	37	chr11	66033586	66033586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcagtggctccttgaggcGcagcggttcctttgggaaac	6	10	15	10	2	0	1	0	1	0	0	2	2	2	2	2	5	2	4	2	5	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:66033586G>A	uc010rov.1	+	14	1868	c.1625G>A	c.(1624-1626)CGC>CAC	p.R542H	KLC2_uc010row.1_Missense_Mutation_p.R542H|KLC2_uc009yra.2_Intron|KLC2_uc001ohb.2_Missense_Mutation_p.R542H|KLC2_uc010rox.1_Missense_Mutation_p.R465H|KLC2_uc001ohc.2_Missense_Mutation_p.R542H|KLC2_uc001ohd.2_Missense_Mutation_p.R465H|KLC2_uc001ohe.1_Missense_Mutation_p.R403H|RAB1B_uc001ohf.2_5'Flank	NM_001134775	NP_001128247	Q9H0B6	KLC2_HUMAN	kinesin light chain 2 isoform 1	542					blood coagulation	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0						TCCTTGAGGCGCAGCGGTTCC	0.687													9	43					0	0	0.006214	0	0		A	66033586	A	A	66033586	3	1	45	1	0	0	0	0	1	0	0	0	8350	1087	38	1	1675	1	KLC2	11	66033586	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1356843	66033586	68972930	671	35050											
CCDC87	55231	broad.mit.edu	37	chr11	66359936	66359936	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagaggcctgctctgccCtcagcagggcctggaagtcg	6	6	13	16	1	2	1	1	0	1	1	3	2	2	2	5	3	3	2	5	3	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:66359936C>A	uc001oiq.3	-	1	619	c.551G>T	c.(550-552)AGG>ATG	p.R184M	CCS_uc001oir.2_5'Flank	NM_018219	NP_060689	Q9NVE4	CCD87_HUMAN	coiled-coil domain containing 87	184										ovary(1)|skin(1)	2						CTGCTCTGCCCTCAGCAGGGC	0.647													15	40					7.93312e-07	8.52932e-07	0.00245	1	0		A	66359936	A	A	66359936	3	1	45	1	0	0	0	0	1	0	0	0	2865	681	24	5	2002	5	CCDC87	11	66359936	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	326350	66359936	68646580	672	35051											
RBM4	5936	broad.mit.edu	37	chr11	66411194	66411194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagcgctgccgtgctgcccGgtcctatgaggcagtggcag	6	7	15	13	3	0	1	0	1	0	0	1	1	1	1	3	3	4	4	3	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:66411194G>A	uc009yrj.2	+	3	1174	c.686G>A	c.(685-687)CGG>CAG	p.R229Q	RBM4_uc009yrk.2_Missense_Mutation_p.R204Q|RBM4_uc001oiw.1_Missense_Mutation_p.R229Q|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Missense_Mutation_p.R229Q|RBM4_uc001oiz.1_Missense_Mutation_p.R229Q	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	229	Interaction with TNPO3.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		CGTGCTGCCCGGTCCTATGAG	0.567													15	57					0	0	0.003163	0	0		A	66411194	A	A	66411194	3	1	45	1	0	0	0	0	1	0	0	0	13159	1116	39	1	692	1	RBM4	11	66411194	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	51258	66411194	68595322	673	35052											
CHKA	1119	broad.mit.edu	37	chr11	67821508	67821508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcaaaccttgcttgggCgtagtcctaggagacagcaa	11	8	12	10	1	1	1	1	0	0	1	2	2	2	1	2	3	3	4	2	3	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:67821508C>T	uc001onj.2	-	12	1535	c.1321G>A	c.(1321-1323)GCC>ACC	p.A441T	CHKA_uc001onk.2_Missense_Mutation_p.A423T	NM_001277	NP_001268	P35790	CHKA_HUMAN	choline kinase alpha isoform a	441					lipid transport|phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|choline kinase activity|drug binding|ethanolamine kinase activity|signal transducer activity			ovary(1)|central_nervous_system(1)	2					Choline(DB00122)	CTTGCTTGGGCGTAGTCCTAG	0.577													5	27					0	0	0.001168	0	0		T	67821508	T	T	67821508	3	4	45	1	0	0	0	0	1	0	0	0	3350	768	27	1	56	1	CHKA	11	67821508	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1410314	67821508	67185008	674	35053											
NADSYN1	55191	broad.mit.edu	37	chr11	71194025	71194025	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaactcctcccaggagacGtgcacccgggccagagagtt	11	5	12	13	2	0	3	0	0	0	3	2	5	2	3	4	2	2	2	4	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:71194025G>A	uc001oqn.2	+	14	1407	c.1281G>A	c.(1279-1281)ACG>ACA	p.T427T	NADSYN1_uc001oqo.2_Silent_p.T167T|NADSYN1_uc001oqp.2_Silent_p.T56T	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	427	Ligase (By similarity).				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CCCAGGAGACGTGCACCCGGG	0.592													4	99					0	0	0.001168	0	0		A	71194025	A	A	71194025	2	1	45	1	0	0	0	0	0	0	0	1	10156	1132	40	1		1	NADSYN1	11	71194025	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3372517	71194025	63812491	675	35054											
KRTAP5-7	440050	broad.mit.edu	37	chr11	71238426	71238426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtgggggctgtggctctgGctgtgggggatgtggctcca	2	11	20	8	0	1	0	0	0	1	0	2	1	2	1	1	7	0	4	1	7	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:71238426G>A	uc001oqq.1	+	1	114	c.80G>A	c.(79-81)GGC>GAC	p.G27D		NM_001012503	NP_001012521	Q6L8G8	KRA57_HUMAN	keratin associated protein 5-7	27						keratin filament					0						TGTGGCTCTGGCTGTGGGGGA	0.662													8	277					0	0	0.00308	0	0		A	71238426	A	A	71238426	3	1	45	1	0	0	0	0	1	0	0	0	8582	1203	42	2	82	2	KRTAP5-7	11	71238426	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	44401	71238426	63768090	676	35055											
FCHSD2	9873	broad.mit.edu	37	chr11	72553749	72553749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgggaaaactccaatacGcccattgaattccccttccc	11	9	6	15	2	0	1	0	1	0	0	3	3	3	2	5	1	2	0	5	1	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:72553749G>A	uc009ytl.2	-	17	2064	c.1843C>T	c.(1843-1845)CGT>TGT	p.R615C	FCHSD2_uc010rrg.1_Missense_Mutation_p.R479C|FCHSD2_uc001oth.3_Missense_Mutation_p.R559C|ATG16L2_uc009ytj.1_3'UTR	NM_014824	NP_055639	O94868	FCSD2_HUMAN	FCH and double SH3 domains 2	615	SH3 2.						protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(5;3.3e-05)			ACTCCAATACGCCCATTGAAT	0.453													16	108					0	0	0.00499	0	0		A	72553749	A	A	72553749	3	1	45	1	0	0	0	0	1	0	0	0	5804	1087	38	1	395	1	FCHSD2	11	72553749	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1315323	72553749	62452767	677	35056											
RELT	84957	broad.mit.edu	37	chr11	73106270	73106270	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccctgagcagcaggccctGctaggaagtggcggaagccg	8	4	15	14	2	0	1	0	1	0	0	0	3	0	3	4	4	4	3	4	4	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:73106270G>T	uc001otv.2	+	10	1350	c.1185G>T	c.(1183-1185)CTG>CTT	p.L395L	RELT_uc001otw.2_Silent_p.L395L|RELT_uc001otx.2_RNA	NM_152222	NP_689408	Q969Z4	TR19L_HUMAN	RELT tumor necrosis factor receptor precursor	395	Cytoplasmic (Potential).					cytoplasm|integral to membrane|plasma membrane	binding|receptor activity			upper_aerodigestive_tract(1)	1						AGCAGGCCCTGCTAGGAAGTG	0.627													16	36					1.67942e-08	1.83518e-08	0.006122	1	0		T	73106270	T	T	73106270	2	4	45	1	0	0	0	0	0	0	0	1	13246	1306	46	5		5	RELT	11	73106270	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	552521	73106270	61900246	678	35057											
CHRDL2	25884	broad.mit.edu	37	chr11	74421946	74421946	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggaggggaacagctcaTgggcactgaagatctctccg	9	6	16	10	2	2	2	1	1	1	1	4	4	3	4	1	5	2	2	1	5	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:74421946T>C	uc001ovi.2	-	4	633	c.380A>G	c.(379-381)CAT>CGT	p.H127R	CHRDL2_uc001ovg.2_Missense_Mutation_p.H11R|CHRDL2_uc001ovh.2_Missense_Mutation_p.H127R|CHRDL2_uc001ovk.1_Missense_Mutation_p.H127R			Q6WN34	CRDL2_HUMAN	RecName: Full=Chordin-like protein 2; AltName: Full=Chordin-related protein 2; AltName: Full=Breast tumor novel factor 1;          Short=BNF-1; Flags: Precursor;	127	VWFC 2.				cartilage development|cell differentiation|ossification	extracellular region|mitochondrion					0	Hepatocellular(1;0.098)					GAACAGCTCATGGGCACTGAA	0.617													3	61					0	0	0.004672	0	0		C	74421946	C	C	74421946	3	2	45	1	0	0	0	0	1	0	0	0	3377	1464	51	3	1011	3	CHRDL2	11	74421946	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1315676	74421946	60584570	679	35058											
XRRA1	143570	broad.mit.edu	37	chr11	74562191	74562191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taggctttactatcttccttCgaattaagtggattcccagt	9	16	7	9	1	1	0	0	0	1	0	4	2	3	1	2	2	1	1	2	2	5	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:74562191C>T	uc009yub.2	-	14	1630	c.1298G>A	c.(1297-1299)CGA>CAA	p.R433Q	XRRA1_uc001ovm.2_RNA|XRRA1_uc001ovn.2_Missense_Mutation_p.R56Q|XRRA1_uc001ovo.2_Missense_Mutation_p.R41Q|XRRA1_uc001ovq.3_Missense_Mutation_p.R346Q|XRRA1_uc001ovp.3_Missense_Mutation_p.R158Q|XRRA1_uc001ovr.2_Missense_Mutation_p.R56Q|XRRA1_uc001ovs.1_Intron	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	433					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						TATCTTCCTTCGAATTAAGTG	0.473													9	43					0	0	0.008291	0	0		T	74562191	T	T	74562191	3	4	45	1	0	0	0	0	1	0	0	0	17487	884	31	1	1104	1	XRRA1	11	74562191	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	140245	74562191	60444325	680	35059											
NEU3	10825	broad.mit.edu	37	chr11	74716692	74716692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagggacttgactgaggagGtcattggctcagagctgaag	10	9	16	6	0	2	5	2	4	0	1	2	7	2	7	0	4	1	2	0	4	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:74716692G>A	uc001ovw.2	+	3	697	c.541G>A	c.(541-543)GTC>ATC	p.V181I	NEU3_uc001ovv.2_Missense_Mutation_p.V171I|NEU3_uc010rrl.1_Missense_Mutation_p.V72I	NM_006656	NP_006647	A8K327	A8K327_HUMAN	sialidase 3	181										ovary(2)	2						GACTGAGGAGGTCATTGGCTC	0.547													25	99					0	0	0.003954	0	0		A	74716692	A	A	74716692	3	1	45	1	0	0	0	0	1	0	0	0	10362	1261	44	4	551	4	NEU3	11	74716692	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	154501	74716692	60289824	681	35060											
RSF1	51773	broad.mit.edu	37	chr11	77383228	77383228	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttctccttgaccgccttcGccgagtttctacaaaatcat	9	14	5	13	3	3	1	1	1	2	0	5	2	3	1	4	0	1	1	4	0	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:77383228G>A	uc001oyn.2	-	15	3730	c.3610C>T	c.(3610-3612)CGA>TGA	p.R1204*	RSF1_uc001oym.2_Nonsense_Mutation_p.R952*	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	1204	Arg-rich.				CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			GACCGCCTTCGCCGAGTTTCT	0.343													18	105					0	0	0.006122	0	0		A	77383228	A	A	77383228	4	1	45	1	0	0	0	0	0	1	0	0	13724	1095	38	1	723	1	RSF1	11	77383228	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2666536	77383228	57623288	682	35061											
DLG2	1740	broad.mit.edu	37	chr11	83691553	83691553	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggagtcacactcaccattAgtagtctatctcctacttgc	9	13	6	13	0	4	0	2	0	2	0	5	1	4	1	2	1	2	1	2	1	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:83691553A>G	uc001paj.2	-	7	1040	c.737T>C	c.(736-738)CTA>CCA	p.L246P	DLG2_uc001pai.2_Missense_Mutation_p.L195P|DLG2_uc010rsy.1_Missense_Mutation_p.L213P|DLG2_uc010rsz.1_Missense_Mutation_p.L246P|DLG2_uc010rta.1_Missense_Mutation_p.L246P|DLG2_uc001pak.2_Missense_Mutation_p.L351P|DLG2_uc010rtb.1_Missense_Mutation_p.L213P|DLG2_uc001pal.1_Missense_Mutation_p.L246P|DLG2_uc001pam.1_Missense_Mutation_p.L285P	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	246	PDZ 2.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				ACTCACCATTAGTAGTCTATC	0.318													20	89					0	0	0.012319	0	0		G	83691553	G	G	83691553	3	3	45	1	0	0	0	0	1	0	0	0	4561	420	15	3	1993	3	DLG2	11	83691553	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	6308325	83691553	51314963	683	35062											
NAALAD2	10003	broad.mit.edu	37	chr11	89896482	89896482	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acgtattattttccagacagGtatgttattctgggaggtca	10	15	10	6	1	2	1	1	0	1	1	3	2	3	2	1	3	0	3	1	3	4	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:89896482G>A	uc001pdf.3	+	10	1189	c.1080G>A	c.(1078-1080)AGG>AGA	p.R360R	NAALAD2_uc009yvx.2_Silent_p.R327R|NAALAD2_uc009yvy.2_Intron|NAALAD2_uc001pde.2_Silent_p.R267R	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	360	Extracellular (Potential).|NAALADase.				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				TTCCAGACAGGTATGTTATTC	0.363													20	129					0	0	0.008871	0	0		A	89896482	A	A	89896482	2	1	45	1	0	0	0	0	0	0	0	1	10146	1252	44	4		4	NAALAD2	11	89896482	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	6204929	89896482	45110034	684	35063											
FAT3	120114	broad.mit.edu	37	chr11	92564790	92564790	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtctctcccacaggcAtcaataggaaggtcgtgtac	9	10	10	12	1	2	0	1	0	1	0	5	1	3	1	2	3	1	2	2	3	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:92564790A>G	uc001pdj.3	+	13	9501	c.9484A>G	c.(9484-9486)ATC>GTC	p.I3162V		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3162	Cadherin 29.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCCCACAGGCATCAATAGGAA	0.517										TCGA Ovarian(4;0.039)			4	28					0	0	0.000602	0	0		G	92564790	G	G	92564790	3	3	45	1	0	0	0	0	1	0	0	0	5705	217	8	3	9534	3	FAT3	11	92564790	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2668308	92564790	42441726	685	35064											
PIWIL4	143689	broad.mit.edu	37	chr11	94328536	94328536	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtggctgaaaagacacgTctcagtccttcaggccggca	9	8	12	12	2	2	2	2	1	1	1	4	2	3	2	2	3	0	3	2	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:94328536T>C	uc001pfa.2	+	10	1423	c.1212T>C	c.(1210-1212)CGT>CGC	p.R404R	PIWIL4_uc010rue.1_RNA|PIWIL4_uc009ywk.1_RNA	NM_152431	NP_689644	Q7Z3Z4	PIWL4_HUMAN	piwi-like 4	404					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|meiosis|multicellular organismal development|piRNA metabolic process|regulation of translation|spermatogenesis	nucleus|piP-body	piRNA binding			skin(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				AAAAGACACGTCTCAGTCCTT	0.507													12	111					0	0	0.001855	0	0		C	94328536	C	C	94328536	2	2	45	1	0	0	0	0	0	0	0	1	11979	1654	58	3		3	PIWIL4	11	94328536	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1763746	94328536	40677980	686	35065											
PGR	5241	broad.mit.edu	37	chr11	100909916	100909916	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaattgtgcagcaataacTtcagacatcatttctggaaa	14	12	8	7	0	3	1	2	0	1	1	3	2	3	2	0	2	3	3	0	2	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:100909916T>G	uc001pgh.2	-	8	3476	c.2733A>C	c.(2731-2733)GAA>GAC	p.E911D	PGR_uc001pgg.2_Missense_Mutation_p.E292D|PGR_uc001pgi.2_Missense_Mutation_p.E809D|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	911	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	CAGCAATAACTTCAGACATCA	0.363													13	51					0	0	0.001855	0	0		G	100909916	G	G	100909916	3	3	45	1	0	0	0	0	1	0	0	0	11824	1606	56	5	72	5	PGR	11	100909916	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	6581380	100909916	34096600	687	35066											
TRPC6	7225	broad.mit.edu	37	chr11	101375456	101375456	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacatgtatgctggtcctcGattagctaaccttctcccct	9	13	6	13	1	1	0	0	0	1	0	4	1	2	0	4	1	4	3	4	1	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:101375456G>A	uc001pgk.3	-	2	669	c.244C>T	c.(244-246)CGA>TGA	p.R82*	TRPC6_uc009ywy.2_Nonsense_Mutation_p.R82*|TRPC6_uc009ywz.1_Nonsense_Mutation_p.R82*	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	82	Cytoplasmic (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		GCTGGTCCTCGATTAGCTAAC	0.493													30	134					0	0	0.013726	0	0		A	101375456	A	A	101375456	4	1	45	1	0	0	0	0	0	1	0	0	16609	1066	37	1	2599	1	TRPC6	11	101375456	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	465540	101375456	33631060	688	35067											
ANGPTL5	253935	broad.mit.edu	37	chr11	101762047	101762047	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacattcttctaattttcAttgaaacagatttaatcttg	12	19	4	6	0	4	2	1	1	3	1	4	2	4	2	0	0	2	1	0	0	4	10			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:101762047A>G	uc001pgl.2	-	9	1726	c.1130T>C	c.(1129-1131)ATG>ACG	p.M377T		NM_178127	NP_835228	Q86XS5	ANGL5_HUMAN	angiopoietin-like 5 precursor	377	Fibrinogen C-terminal.				signal transduction	extracellular space	receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.043)		BRCA - Breast invasive adenocarcinoma(274;0.0328)		TCTAATTTTCATTGAAACAGA	0.294													17	89					0	0	0.006122	0	0		G	101762047	G	G	101762047	3	3	45	1	0	0	0	0	1	0	0	0	617	217	8	3	40	3	ANGPTL5	11	101762047	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	386591	101762047	33244469	689	35068											
SIK2	23235	broad.mit.edu	37	chr11	111594498	111594498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctccacttccggtccccGggctgctcctcctctgccca	2	9	8	22	2	1	0	0	0	1	0	6	0	6	0	8	2	2	2	8	2	0	1	rs34223841	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:111594498G>A	uc001plt.2	+	15	2544	c.2426G>A	c.(2425-2427)CGG>CAG	p.R809Q		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	809					intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						TCCGGTCCCCGGGCTGCTCCT	0.522													40	171					0	0	0.00623	0	0		A	111594498	A	A	111594498	3	1	45	1	0	0	0	0	1	0	0	0	14343	1116	39	1	2484	1	SIK2	11	111594498	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	9832451	111594498	23412018	690	35069											
DIXDC1	85458	broad.mit.edu	37	chr11	111866267	111866267	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcctgcatgttatggagacGcagaagaaacaagaaagaaa	18	5	11	7	2	0	5	0	0	0	5	0	6	0	5	1	1	2	3	1	1	6	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:111866267G>A	uc001pml.2	+	17	1965	c.1668G>A	c.(1666-1668)ACG>ACA	p.T556T	DIXDC1_uc001pmm.2_Silent_p.T345T|DIXDC1_uc001pmn.2_Silent_p.T262T|DIXDC1_uc010rwq.1_Silent_p.T221T	NM_001037954	NP_001033043	Q155Q3	DIXC1_HUMAN	DIX domain containing 1 isoform a	556					multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytosol|focal adhesion	actin binding|gamma-tubulin binding|signal transducer activity			ovary(1)	1		all_cancers(61;7.58e-15)|all_epithelial(67;5.42e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;2.99e-07)|BRCA - Breast invasive adenocarcinoma(274;6.72e-07)|all cancers(92;6.25e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0548)		TTATGGAGACGCAGAAGAAAC	0.478													17	90					0	0	0.007413	0	0		A	111866267	A	A	111866267	2	1	45	1	0	0	0	0	0	0	0	1	4547	1074	38	1		1	DIXDC1	11	111866267	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	271769	111866267	23140249	691	35070											
HTR3A	3359	broad.mit.edu	37	chr11	113857293	113857293	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcagcctgctactgcccagCatcttcctcatggtcatgga	7	11	9	14	0	4	0	3	0	1	0	5	1	5	1	3	2	5	2	3	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:113857293C>A	uc010rxb.1	+	7	1010	c.777C>A	c.(775-777)AGC>AGA	p.S259R	HTR3A_uc010rxa.1_Missense_Mutation_p.S259R|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Missense_Mutation_p.S238R	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	253	Helical; Name=1; (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	TACTGCCCAGCATCTTCCTCA	0.597													11	114					4.68919e-08	5.10819e-08	0.008291	1	0		A	113857293	A	A	113857293	3	1	45	1	0	0	0	0	1	0	0	0	7460	709	25	5	829	5	HTR3A	11	113857293	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1991026	113857293	21149223	692	35071											
CEP164	22897	broad.mit.edu	37	chr11	117280458	117280458	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaccctcagtcgccgccGccgctcctcgcctccatgcc	4	7	7	23	5	2	0	2	0	0	0	6	0	4	0	8	0	2	1	8	0	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:117280458G>A	uc001prc.2	+	30	4020	c.3873G>A	c.(3871-3873)CCG>CCA	p.P1291P	CEP164_uc001prb.2_Silent_p.P1286P|CEP164_uc001prf.2_Intron|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Silent_p.P716P	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	1291					cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		AGTCGCCGCCGCCGCTCCTCG	0.662													51	202					0	0	0.01441	0	0		A	117280458	A	A	117280458	2	1	45	1	0	0	0	0	0	0	0	1	3252	1074	38	1		1	CEP164	11	117280458	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3423165	117280458	17726058	693	35072											
TMPRSS4	56649	broad.mit.edu	37	chr11	117983990	117983990	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctctacccccaggaaacaTaccgatgtgttcaactggaa	12	9	8	12	1	2	0	1	0	1	0	3	3	2	2	3	2	4	1	3	2	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:117983990T>C	uc010rxo.1	+	9	1041	c.750T>C	c.(748-750)CAT>CAC	p.H250H	TMPRSS4_uc010rxp.1_Silent_p.H245H|TMPRSS4_uc010rxq.1_Silent_p.H103H|TMPRSS4_uc010rxr.1_Silent_p.H225H|TMPRSS4_uc010rxs.1_Silent_p.H210H|TMPRSS4_uc009yzu.2_RNA|TMPRSS4_uc010rxt.1_Silent_p.H225H	NM_019894	NP_063947	Q9NRS4	TMPS4_HUMAN	transmembrane protease, serine 4 isoform 1	250	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0431)|all_hematologic(192;0.164)|Breast(348;0.183)|all_neural(223;0.238)		BRCA - Breast invasive adenocarcinoma(274;4.16e-05)|Epithelial(105;0.00204)		CCAGGAAACATACCGATGTGT	0.577													4	124					0	0	0.009096	0	0		C	117983990	C	C	117983990	2	2	45	1	0	0	0	0	0	0	0	1	16274	1403	49	3		3	TMPRSS4	11	117983990	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	703532	117983990	17022526	694	35073											
MLL	4297	broad.mit.edu	37	chr11	118373724	118373724	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccctctccttcccacacCtccatttgagagggcaaagg	9	8	9	15	0	1	1	0	1	1	1	4	2	3	1	5	3	0	1	5	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:118373724C>A	uc001pta.2	+	27	7131	c.7108C>A	c.(7108-7110)CTC>ATC	p.L2370I	MLL_uc001ptb.2_Missense_Mutation_p.L2373I	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2370					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		CTTCCCACACCTCCATTTGAG	0.438			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								18	71					0.00074312	0.000770602	0.006122	1	0		A	118373724	A	A	118373724	3	1	45	1	0	0	0	0	1	0	0	0	9638	681	24	5	7214	5	MLL	11	118373724	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	389734	118373724	16632792	695	35074											
HYOU1	10525	broad.mit.edu	37	chr11	118919524	118919524	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accattcgccgcttcctggcGggcttctgcttcttctctcc	2	14	8	17	3	3	0	0	0	3	0	7	0	5	0	4	2	1	3	4	2	0	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:118919524G>A	uc001puu.2	-	18	2260	c.2067C>T	c.(2065-2067)CCC>CCT	p.P689P	HYOU1_uc001put.2_Silent_p.P654P|HYOU1_uc010ryu.1_Silent_p.P647P|HYOU1_uc010ryv.1_Silent_p.P578P|HYOU1_uc001pux.3_Silent_p.P689P|HYOU1_uc010ryw.1_RNA	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	689						endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)		GCTTCCTGGCGGGCTTCTGCT	0.607													18	63					0	0	0.007413	0	0		A	118919524	A	A	118919524	2	1	45	1	0	0	0	0	0	0	0	1	7486	1103	39	1		1	HYOU1	11	118919524	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	545800	118919524	16086992	696	35075											
C2CD2L	9854	broad.mit.edu	37	chr11	118983195	118983195	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatccctttccccagccgAactcctaggccaggccacac	8	6	7	20	1	0	0	0	0	0	0	3	1	3	0	8	2	2	0	8	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:118983195A>G	uc001pvo.2	+	9	1447	c.1088A>G	c.(1087-1089)GAA>GGA	p.E363G	C2CD2L_uc001pvn.2_Missense_Mutation_p.E363G	NM_014807	NP_055622	O14523	C2C2L_HUMAN	transmembrane protein 24	363						integral to membrane					0						TCCCCAGCCGAACTCCTAGGC	0.652													13	99					0	0	0.003163	0	0		G	118983195	G	G	118983195	3	3	45	1	0	0	0	0	1	0	0	0	2156	246	9	3	1122	3	C2CD2L	11	118983195	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	63671	118983195	16023321	697	35076											
PVRL1	5818	broad.mit.edu	37	chr11	119535676	119535676	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcgctcgccccctccaccGccctcctcctcctcctcctc	1	10	4	26	3	0	0	0	0	0	0	8	0	6	0	10	0	1	1	10	0	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:119535676G>A	uc001pwv.2	-	6	1507	c.1335C>T	c.(1333-1335)GGC>GGT	p.G445G	PVRL1_uc001pwu.1_Intron	NM_002855	NP_002846	Q15223	PVRL1_HUMAN	poliovirus receptor-related 1 isoform 1	445	Poly-Gly.|Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|entry of virus into host cell|heterophilic cell-cell adhesion|homophilic cell adhesion|immune response	cell-cell adherens junction|extracellular region|integral to membrane	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0		Breast(348;0.037)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.29e-05)		CCCCTCCACCGCcctcctcct	0.582													6	30					0	0	0.001984	0	0		A	119535676	A	A	119535676	2	1	45	1	0	0	0	0	0	0	0	1	12864	1074	38	1		1	PVRL1	11	119535676	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	552481	119535676	15470840	698	35077											
PVRL1	5818	broad.mit.edu	37	chr11	119549297	119549297	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggagccagcacggacacGcccatggatgggttgtagat	10	7	15	9	2	0	1	0	0	0	1	0	4	0	4	2	4	2	3	2	4	2	3	rs150914244		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:119549297G>A	uc001pwv.2	-	2	430	c.258C>T	c.(256-258)GGC>GGT	p.G86G	PVRL1_uc001pwu.1_Silent_p.G86G|PVRL1_uc001pww.2_Silent_p.G86G	NM_002855	NP_002846	Q15223	PVRL1_HUMAN	poliovirus receptor-related 1 isoform 1	86	Extracellular (Potential).|Ig-like V-type.				adherens junction organization|cell junction assembly|entry of virus into host cell|heterophilic cell-cell adhesion|homophilic cell adhesion|immune response	cell-cell adherens junction|extracellular region|integral to membrane	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0		Breast(348;0.037)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.29e-05)		GCACGGACACGCCCATGGATG	0.617													8	29					0	0	0.004482	0	0		A	119549297	A	A	119549297	2	1	45	1	0	0	0	0	0	0	0	1	12864	1074	38	1		1	PVRL1	11	119549297	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	13621	119549297	15457219	699	35078											
OR6M1	390261	broad.mit.edu	37	chr11	123676666	123676666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgctgttcatgatgaccGtgtagtgcagtgggtcgcag	6	11	14	10	2	1	2	1	2	0	0	2	2	1	2	2	1	2	5	2	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:123676666G>A	uc010rzz.1	-	1	392	c.392C>T	c.(391-393)ACG>ATG	p.T131M		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		CATGATGACCGTGTAGTGCAG	0.517													11	42					0	0	0.008291	0	0		A	123676666	A	A	123676666	3	1	45	1	0	0	0	0	1	0	0	0	11224	1145	40	1	552	1	OR6M1	11	123676666	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4127369	123676666	11329850	700	35079											
OR8B8	26493	broad.mit.edu	37	chr11	124310482	124310482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaggttattggcacagaagGtcacacccatcatgcacgct	12	8	9	12	1	2	1	2	0	0	1	2	1	2	1	1	3	1	4	1	3	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:124310482G>A	uc010sal.1	-	1	500	c.500C>T	c.(499-501)ACC>ATC	p.T167I		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GGCACAGAAGGTCACACCCAT	0.512													13	49					0	0	0.001855	0	0		A	124310482	A	A	124310482	3	1	45	1	0	0	0	0	1	0	0	0	11249	1261	44	4	438	4	OR8B8	11	124310482	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	633816	124310482	10696034	701	35080											
SRPR	6734	broad.mit.edu	37	chr11	126136758	126136758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactccgttctcaggacccaCtggaagacctgacttttctg	8	12	8	13	1	2	2	1	1	2	1	4	4	3	4	3	2	1	1	3	2	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:126136758C>T	uc001qdh.2	-	5	637	c.586G>A	c.(586-588)GTG>ATG	p.V196M	SRPR_uc010sbm.1_Missense_Mutation_p.V168M|FOXRED1_uc001qdi.2_5'Flank|FOXRED1_uc010sbn.1_5'Flank|FOXRED1_uc010sbo.1_5'Flank|FOXRED1_uc010sbp.1_5'Flank|FOXRED1_uc010sbq.1_5'Flank|FOXRED1_uc001qdj.2_5'Flank|FOXRED1_uc010sbr.1_5'Flank	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	196					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		TCAGGACCCACTGGAAGACCT	0.493													28	117					0	0	0.005443	0	0		T	126136758	T	T	126136758	3	4	45	1	0	0	0	0	1	0	0	0	15187	565	20	4	1370	4	SRPR	11	126136758	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1826276	126136758	8869758	702	35081											
FOXRED1	55572	broad.mit.edu	37	chr11	126146096	126146096	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagggcaccaagctacCtgtggagccgaggaaaaggt	11	5	14	11	1	0	0	0	0	0	0	0	3	0	2	4	4	4	3	4	4	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:126146096C>A	uc001qdi.2	+	8	1000	c.953C>A	c.(952-954)CCT>CAT	p.P318H	FOXRED1_uc010sbn.1_Missense_Mutation_p.P148H|FOXRED1_uc010sbo.1_RNA|FOXRED1_uc010sbp.1_Missense_Mutation_p.P131H|FOXRED1_uc010sbq.1_Missense_Mutation_p.P185H|FOXRED1_uc001qdj.2_Missense_Mutation_p.P107H|FOXRED1_uc010sbr.1_Missense_Mutation_p.P304H|FOXRED1_uc001qdk.2_Missense_Mutation_p.P107H	NM_017547	NP_060017	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing	318						integral to membrane|mitochondrion	oxidoreductase activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)		ACCAAGCTACCTGTGGAGCCG	0.542													4	17					0.00024832	0.000260198	0.009096	1	0		A	126146096	A	A	126146096	3	1	45	1	0	0	0	0	1	0	0	0	6047	681	24	5	983	5	FOXRED1	11	126146096	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	9338	126146096	8860420	703	35082											
KIRREL3	84623	broad.mit.edu	37	chr11	126314938	126314938	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaccacagcccggcacacGtacttgcccgcgtcctcctg	6	6	10	19	4	0	0	0	0	0	0	2	0	2	0	5	2	3	3	5	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:126314938G>A	uc001qea.2	-	10	1549	c.1188C>T	c.(1186-1188)TAC>TAT	p.Y396Y	KIRREL3_uc001qeb.2_Silent_p.Y396Y|KIRREL3_uc001qec.1_Silent_p.Y396Y	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	396	Extracellular (Potential).|Ig-like C2-type 4.				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		CCCGGCACACGTACTTGCCCG	0.637													13	82					0	0	0.001855	0	0		A	126314938	A	A	126314938	2	1	45	1	0	0	0	0	0	0	0	1	8342	1140	40	1		1	KIRREL3	11	126314938	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	168842	126314938	8691578	704	35083											
NFRKB	4798	broad.mit.edu	37	chr11	129739602	129739602	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcttggcgtgggttgcaacGgtgatggtctggcctgcttt	3	14	16	8	2	1	1	0	1	1	0	1	1	1	1	1	5	4	4	1	5	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr11:129739602G>A	uc001qfi.2	-	24	3519	c.3318C>T	c.(3316-3318)ACC>ACT	p.T1106T	NFRKB_uc001qfg.2_Silent_p.T1131T|NFRKB_uc001qfh.2_Silent_p.T1129T|NFRKB_uc010sbw.1_Silent_p.T1116T|NFRKB_uc009zcr.2_Silent_p.T392T	NM_001143835	NP_001137307	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein	1106					DNA recombination|DNA repair|inflammatory response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Ino80 complex	DNA binding|protease binding			ovary(3)	3	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0167)|Lung(977;0.171)|LUSC - Lung squamous cell carcinoma(976;0.184)		GGGTTGCAACGGTGATGGTCT	0.577													29	133					0	0	0.008361	0	0		A	129739602	A	A	129739602	2	1	45	1	0	0	0	0	0	0	0	1	10403	1103	39	1		1	NFRKB	11	129739602	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3424664	129739602	5266914	705	35084											
FGF6	2251	broad.mit.edu	37	chr12	4554633	4554633	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgcaggcgagggcaccAccatgcccactaggatgcct	8	6	12	15	1	0	0	0	0	0	0	0	2	0	1	5	3	4	2	5	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:4554633A>G	uc001qmr.1	-	1	148	c.104T>C	c.(103-105)GTG>GCG	p.V35A		NM_020996	NP_066276	P10767	FGF6_HUMAN	fibroblast growth factor 6 precursor	35					angiogenesis|cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	growth factor activity			lung(2)|ovary(1)	3			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)			CGAGGGCACCACCATGCCCAC	0.657													19	65					0	0	0.007413	0	0		G	4554633	G	G	4554633	3	3	45	1	0	0	0	0	1	0	0	0	5870	159	6	3	534	3	FGF6	12	4554633	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08		4554633	129297262	706	35085											
KCNA6	3742	broad.mit.edu	37	chr12	4920241	4920241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatcctccgagtcatccGcctggtccgggtgttccgca	4	9	12	16	4	1	0	1	0	0	0	6	1	6	0	7	3	0	2	7	3	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:4920241G>A	uc001qng.2	+	1	1900	c.1034G>A	c.(1033-1035)CGC>CAC	p.R345H		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	345	Helical; Voltage-sensor; Name=Segment S4; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						CGAGTCATCCGCCTGGTCCGG	0.657										HNSCC(72;0.22)			9	39					0	0	0.003163	0	0		A	4920241	A	A	4920241	3	1	45	1	0	0	0	0	1	0	0	0	8023	1087	38	1	1036	1	KCNA6	12	4920241	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	365608	4920241	128931654	707	35086											
PLEKHG6	55200	broad.mit.edu	37	chr12	6435695	6435695	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcccccagcaccaggccCtccacgccttccctggaggg	6	5	11	19	1	0	0	0	0	0	0	3	2	3	1	7	3	1	1	7	3	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:6435695C>A	uc001qnr.2	+	14	1774	c.1626C>A	c.(1624-1626)CCC>CCA	p.P542P	PLEKHG6_uc010sew.1_Silent_p.P542P|PLEKHG6_uc010sex.1_Silent_p.P510P	NM_018173	NP_060643	Q3KR16	PKHG6_HUMAN	pleckstrin homology domain-containing family G	542					regulation of Rho protein signal transduction	cleavage furrow|cytoplasm|spindle pole	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|skin(1)	2						GCACCAGGCCCTCCACGCCTT	0.627													6	41					0.00116845	0.00120542	0.001168	1	0		A	6435695	A	A	6435695	2	1	45	1	0	0	0	0	0	0	0	1	12093	668	24	5		5	PLEKHG6	12	6435695	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1515454	6435695	127416200	708	35087											
NCAPD2	9918	broad.mit.edu	37	chr12	6637928	6637928	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggacatggtgaaggtgaAggggcaggtcagcgagatgg	12	5	19	5	1	1	3	1	2	0	1	1	5	1	4	0	7	1	1	0	7	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:6637928A>G	uc001qoo.2	+	26	3429	c.3383A>G	c.(3382-3384)AAG>AGG	p.K1128R	NCAPD2_uc010sfd.1_Missense_Mutation_p.K1083R	NM_014865	NP_055680	Q15021	CND1_HUMAN	non-SMC condensin I complex, subunit D2	1128					cell division|mitotic chromosome condensation	condensin core heterodimer|cytoplasm	histone binding			ovary(2)|lung(1)|breast(1)|kidney(1)	5						GTGAAGGTGAAGGGGCAGGTC	0.582													15	67					0	0	0.004007	0	0		G	6637928	G	G	6637928	3	3	45	1	0	0	0	0	1	0	0	0	10224	72	3	3	3481	3	NCAPD2	12	6637928	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	202233	6637928	127213967	709	35088											
ZNF384	171017	broad.mit.edu	37	chr12	6781678	6781678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggggcttgatggtctccGtgtgcatcttggagtggatc	4	14	16	7	1	2	1	0	1	2	0	4	3	2	3	1	5	1	2	1	5	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:6781678G>A	uc010sfh.1	-	8	1140	c.932C>T	c.(931-933)ACG>ATG	p.T311M	ZNF384_uc001qpz.2_Intron|ZNF384_uc001qqa.2_Intron|ZNF384_uc001qqb.2_Intron|ZNF384_uc001qqc.2_Intron|ZNF384_uc001qqd.2_Intron|ZNF384_uc001qqe.2_Intron	NM_001135734	NP_001129206	Q8TF68	ZN384_HUMAN	nuclear matrix transcription factor 4 isoform d	311					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/ZNF384(4)	haematopoietic_and_lymphoid_tissue(4)|central_nervous_system(3)|kidney(1)	8						GATGGTCTCCGTGTGCATCTT	0.627			T	EWSR1|TAF15 	ALL								10	54					0	0	0.008291	0	0		A	6781678	A	A	6781678	3	1	45	1	0	0	0	0	1	0	0	0	17900	1145	40	1	817	1	ZNF384	12	6781678	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	143750	6781678	127070217	710	35089											
PEX5	5830	broad.mit.edu	37	chr12	7361095	7361095	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccagacagcactgatggcGctggctgtgagcttcaccaa	11	7	11	12	1	1	3	1	2	0	1	1	3	1	3	2	2	3	4	2	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:7361095G>A	uc009zfu.1	+	14	1804	c.1224G>A	c.(1222-1224)GCG>GCA	p.A408A	PEX5_uc001qsw.2_Silent_p.A408A|PEX5_uc010sgc.1_Silent_p.A423A|PEX5_uc001qsu.2_Silent_p.A371A|PEX5_uc010sgd.1_Silent_p.A429A|PEX5_uc001qsv.2_Silent_p.A400A	NM_001131026	NP_001124498	P50542	PEX5_HUMAN	peroxisomal biogenesis factor 5 isoform d	408	TPR 3.				protein import into peroxisome matrix, translocation|protein targeting to peroxisome|protein tetramerization|protein transport	cytosol|peroxisomal matrix|peroxisomal membrane	peroxisome matrix targeting signal-1 binding|protein C-terminus binding|protein N-terminus binding			ovary(1)	1						CACTGATGGCGCTGGCTGTGA	0.552													12	59					0	0	0.013537	0	0		A	7361095	A	A	7361095	2	1	45	1	0	0	0	0	0	0	0	1	11767	1074	38	1		1	PEX5	12	7361095	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	579417	7361095	126490800	711	35090											
GUCY2C	2984	broad.mit.edu	37	chr12	14796578	14796578	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accattctactgtccactacGcagttggtagatttcagacg	10	12	8	11	2	2	2	1	0	1	2	3	2	3	2	2	1	2	3	2	1	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:14796578G>A	uc001rcd.2	-	17	1997	c.1860C>T	c.(1858-1860)TGC>TGT	p.C620C		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	620	Cytoplasmic (Potential).|Protein kinase.				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TGTCCACTACGCAGTTGGTAG	0.383													28	122					0	0	0.00632	0	0		A	14796578	A	A	14796578	2	1	45	1	0	0	0	0	0	0	0	1	6912	1079	38	1		1	GUCY2C	12	14796578	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	7435483	14796578	119055317	712	35091											
RERG	85004	broad.mit.edu	37	chr12	15262151	15262151	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccggcgacgcacctctcGacacaattcatagaatatct	11	9	6	15	4	3	1	1	0	2	1	5	3	4	1	3	1	0	1	3	1	4	3	rs141738265		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:15262151G>A	uc001rcs.2	-	4	633	c.493C>T	c.(493-495)CGA>TGA	p.R165*	RERG_uc001rct.2_Nonsense_Mutation_p.R165*|RERG_uc010shu.1_Nonsense_Mutation_p.R146*	NM_032918	NP_116307	Q96A58	RERG_HUMAN	RAS-like, estrogen-regulated, growth inhibitor	165					negative regulation of cell growth|negative regulation of cell proliferation|response to hormone stimulus|small GTPase mediated signal transduction	cytosol|membrane|nucleus	estrogen receptor binding|GDP binding|GTP binding|GTPase activity			lung(1)	1						CGCACCTCTCGACACAATTCA	0.522													26	113					0	0	0.003954	0	0		A	15262151	A	A	15262151	4	1	45	1	0	0	0	0	0	1	0	0	13257	1066	37	1	110	1	RERG	12	15262151	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	465573	15262151	118589744	713	35092											
ST8SIA1	6489	broad.mit.edu	37	chr12	22408252	22408252	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctatttgacggccacaGccactcttcttcagaatccc	9	12	5	15	1	5	2	2	1	3	1	6	2	6	2	3	1	1	0	3	1	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:22408252G>A	uc001rfo.3	-	3	935	c.453C>T	c.(451-453)GGC>GGT	p.G151G	ST8SIA1_uc009zix.2_Intron	NM_003034	NP_003025	Q92185	SIA8A_HUMAN	alpha-2,8-sialyltransferase 1	151	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(3)	3						GACGGCCACAGCCACTCTTCT	0.522													16	232					0	0	0.014323	0	0		A	22408252	A	A	22408252	2	1	45	1	0	0	0	0	0	0	0	1	15256	958	34	2		2	ST8SIA1	12	22408252	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	7146101	22408252	111443643	714	35093											
SOX5	6660	broad.mit.edu	37	chr12	23689491	23689491	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accaggcaggtgcgctttggCctgggcttgtacttatagtc	6	12	13	10	1	0	0	0	0	0	0	1	0	0	0	2	4	2	4	2	4	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:23689491C>T	uc001rfw.2	-	14	1986	c.1884G>A	c.(1882-1884)AGG>AGA	p.R628R	SOX5_uc001rfx.2_Silent_p.R615R|SOX5_uc001rfy.2_Silent_p.R507R|SOX5_uc001rfv.2_Silent_p.R242R|SOX5_uc010siv.1_Silent_p.R615R|SOX5_uc010siw.1_RNA	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	628					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TGCGCTTTGGCCTGGGCTTGT	0.512													5	116					0	0	0.000602	0	0		T	23689491	T	T	23689491	2	4	45	1	0	0	0	0	0	0	0	1	14979	738	26	2		2	SOX5	12	23689491	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1281239	23689491	110162404	715	35094											
SLC2A13	114134	broad.mit.edu	37	chr12	40158332	40158332	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattgaaaatccagtttatTccagatgaacatgcatttcc	14	13	5	9	0	0	3	0	2	0	1	3	3	3	3	3	0	2	2	3	0	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:40158332T>A	uc010skm.1	-	9	1701	c.1650A>T	c.(1648-1650)GGA>GGT	p.G550G	C12orf40_uc009zjv.1_Intron	NM_052885	NP_443117	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose	550	Helical; Name=11; (Potential).					integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)				TCCAGTTTATTCCAGATGAAC	0.338										HNSCC(50;0.14)			23	108					0	0	0.003954	0	0		A	40158332	A	A	40158332	2	1	45	1	0	0	0	0	0	0	0	1	14567	1770	62	5		5	SLC2A13	12	40158332	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	16468841	40158332	93693563	716	35095											
LRRK2	120892	broad.mit.edu	37	chr12	40631824	40631824	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatattttcatgttaattTttgatgccatgcactcattt	9	20	6	6	0	2	2	2	2	0	0	2	2	2	2	1	0	2	2	1	0	2	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:40631824T>G	uc001rmg.3	+	5	611	c.490T>G	c.(490-492)TTT>GTT	p.F164V		NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	164					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CATGTTAATTTTTGATGCCAT	0.333													8	98					0	0	0.004482	0	0		G	40631824	G	G	40631824	3	3	45	1	0	0	0	0	1	0	0	0	9051	1841	64	5	508	5	LRRK2	12	40631824	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	473492	40631824	93220071	717	35096											
ADAMTS20	80070	broad.mit.edu	37	chr12	43770328	43770328	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaagtctactacttacaGtcattggcataacatttctt	11	17	5	8	0	3	1	1	1	2	0	3	1	3	1	0	1	4	1	0	1	5	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:43770328G>A	uc010skx.1	-	33	5124	c.5124C>T	c.(5122-5124)GAC>GAT	p.D1708D		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1708	TSP type-1 15.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		ACTACTTACAGTCATTGGCAT	0.323													4	42					0	0	0.009096	0	0		A	43770328	A	A	43770328	2	1	45	1	0	0	0	0	0	0	0	1	266	1043	36	4		4	ADAMTS20	12	43770328	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3138504	43770328	90081567	718	35097											
NELL2	4753	broad.mit.edu	37	chr12	45004675	45004675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagcccggcttgcaaacaCagttgtgtcctccaacagtg	10	10	9	12	1	0	0	0	0	0	0	2	0	2	0	3	1	4	3	3	1	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:45004675C>T	uc001rog.2	-	14	2118	c.1523G>A	c.(1522-1524)TGT>TAT	p.C508Y	NELL2_uc001rof.3_Missense_Mutation_p.C507Y|NELL2_uc001roh.2_Missense_Mutation_p.C508Y|NELL2_uc009zkd.2_Missense_Mutation_p.C507Y|NELL2_uc010skz.1_Missense_Mutation_p.C558Y|NELL2_uc010sla.1_Missense_Mutation_p.C531Y|NELL2_uc001roi.1_Missense_Mutation_p.C508Y|NELL2_uc010slb.1_Missense_Mutation_p.C507Y	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	508	EGF-like 3.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		CTTGCAAACACAGTTGTGTCC	0.363													7	56					0	0	0.008291	0	0		T	45004675	T	T	45004675	3	4	45	1	0	0	0	0	1	0	0	0	10353	478	17	4	955	4	NELL2	12	45004675	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1234347	45004675	88847220	719	35098											
WNT1	7471	broad.mit.edu	37	chr12	49374314	49374314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcctgcacgtgtgactacCggcggcgcggccccgggggc	5	5	16	15	6	0	1	0	1	0	0	1	1	1	1	4	5	2	1	4	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:49374314C>T	uc001rsu.2	+	3	664	c.466C>T	c.(466-468)CGG>TGG	p.R156W		NM_005430	NP_005421	P04628	WNT1_HUMAN	wingless-type MMTV integration site family,	156					brain segmentation|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|central nervous system morphogenesis|cerebellum formation|dermatome development|diencephalon development|embryonic axis specification|forebrain anterior/posterior pattern formation|fourth ventricle development|hemopoietic stem cell proliferation|hepatocyte differentiation|inner ear morphogenesis|mesoderm morphogenesis|midbrain development|midbrain-hindbrain boundary maturation during brain development|negative regulation of cell-cell adhesion|negative regulation of cell-substrate adhesion|negative regulation of DNA damage checkpoint|negative regulation of fat cell differentiation|neuron fate determination|positive regulation of fibroblast proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of lamellipodium assembly|positive regulation of Notch signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to wounding|signal transduction in response to DNA damage|Spemann organizer formation|T cell differentiation in thymus|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled-2 binding|transcription regulatory region DNA binding			kidney(1)	1				BRCA - Breast invasive adenocarcinoma(357;0.244)		GTGTGACTAccggcggcgcgg	0.537													4	27					0	0	0.009096	0	0		T	49374314	T	T	49374314	3	4	45	1	0	0	0	0	1	0	0	0	17407	643	23	1	476	1	WNT1	12	49374314	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4369639	49374314	84477581	720	35099											
FAM186B	84070	broad.mit.edu	37	chr12	49997058	49997058	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtggcaatgagggacagcgGtaacactttctccgtcactt	9	10	12	10	2	2	1	1	1	1	0	3	2	2	2	1	4	2	2	1	4	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:49997058G>C	uc001ruo.2	-	3	588	c.415C>G	c.(415-417)CCG>GCG	p.P139A	FAM186B_uc010smk.1_Missense_Mutation_p.P49A	NM_032130	NP_115506	Q8IYM0	F186B_HUMAN	hypothetical protein LOC84070	139						protein complex				ovary(1)	1						AGGGACAGCGGTAACACTTTC	0.498													3	87					0	0	0.004672	0	0		C	49997058	C	C	49997058	3	2	45	1	0	0	0	0	1	0	0	0	5523	1261	44	5	2286	5	FAM186B	12	49997058	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	622744	49997058	83854837	721	35100											
LIMA1	51474	broad.mit.edu	37	chr12	50571305	50571305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctgataggtggggacaCagtttttgggctcttgacag	7	14	13	7	0	1	2	0	2	1	0	2	3	2	3	1	4	0	2	1	4	1	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:50571305C>T	uc001rwj.3	-	11	1996	c.1822G>A	c.(1822-1824)GTG>ATG	p.V608M	LIMA1_uc001rwg.3_Missense_Mutation_p.V306M|LIMA1_uc001rwh.3_Missense_Mutation_p.V447M|LIMA1_uc001rwi.3_Missense_Mutation_p.V449M|LIMA1_uc001rwk.3_Missense_Mutation_p.V609M|LIMA1_uc010smr.1_RNA|LIMA1_uc010sms.1_RNA	NM_016357	NP_057441	Q9UHB6	LIMA1_HUMAN	LIM domain and actin binding 1 isoform b	608					actin filament bundle assembly|negative regulation of actin filament depolymerization|ruffle organization	cytoplasm|focal adhesion|stress fiber	actin filament binding|actin monomer binding|zinc ion binding			ovary(1)	1						GGTGGGGACACAGTTTTTGGG	0.483													19	333					0	0	0.008871	0	0		T	50571305	T	T	50571305	3	4	45	1	0	0	0	0	1	0	0	0	8812	478	17	4	461	4	LIMA1	12	50571305	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	574247	50571305	83280590	722	35101											
DIP2B	57609	broad.mit.edu	37	chr12	51138372	51138372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgtcattgaaatttcagtgCcgtgttcacatggaccaact	10	14	8	9	1	3	1	3	1	0	0	3	2	3	2	2	1	2	1	2	1	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:51138372C>T	uc001rwv.2	+	38	4637	c.4481C>T	c.(4480-4482)GCC>GTC	p.A1494V	DIP2B_uc009zlt.2_Missense_Mutation_p.A924V	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1494						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						AATTTCAGTGCCGTGTTCACA	0.468													4	82					0	0	0.000602	0	0		T	51138372	T	T	51138372	3	4	45	1	0	0	0	0	1	0	0	0	4534	739	26	2	4631	2	DIP2B	12	51138372	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	567067	51138372	82713523	723	35102											
KRT73	319101	broad.mit.edu	37	chr12	53012094	53012094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggcccggccccggccaaatCcatagcctcctgcccaccca	7	5	8	21	2	0	0	0	0	0	0	2	0	2	0	9	3	2	0	9	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:53012094C>T	uc001sas.2	-	1	250	c.215G>A	c.(214-216)GGA>GAA	p.G72E		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	72	Head.|Gly-rich.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CCGGCCAAATCCATAGCCTCC	0.642													30	169					0	0	0.012213	0	0		T	53012094	T	T	53012094	3	4	45	1	0	0	0	0	1	0	0	0	8502	855	30	4	1443	4	KRT73	12	53012094	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1873722	53012094	80839801	724	35103											
TENC1	23371	broad.mit.edu	37	chr12	53451888	53451888	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaaaggcgatgtcatggTgaggggggtcctgtcaacaa	10	8	14	9	1	3	1	3	1	0	0	4	2	4	1	2	5	1	0	2	5	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:53451888T>C	uc001sbp.2	+	14	1230	c.1095_splice	c.e14+2	p.M365_splice	TENC1_uc001sbl.2_Splice_Site_p.M241_splice|TENC1_uc001sbn.2_Splice_Site_p.M375_splice|TENC1_uc001sbo.1_Splice_Site_p.M365_splice|TENC1_uc001sbq.2_5'Flank|TENC1_uc001sbr.2_5'Flank|TENC1_uc009zmr.2_5'Flank	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase						intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						GATGTCATGGTGAGGGGGGTC	0.577													11	43					0	0	0.013537	0	0		C	53451888	C	C	53451888	5	2	45	1	0	0	0	0	0	0	1	0	15783	1710	59	3	1260	3	TENC1	12	53451888	Splice_Site	SNP	T	TCGA-BR-6852-01A-11D-1882-08	439794	53451888	80400007	725	35104											
SOAT2	8435	broad.mit.edu	37	chr12	53515103	53515103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggactggtggaactcaaCgtccttctccaactactacc	10	9	7	15	1	2	0	1	0	1	0	4	2	3	2	4	3	5	0	4	3	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:53515103C>T	uc001sbv.2	+	12	1242	c.1154C>T	c.(1153-1155)ACG>ATG	p.T385M	SOAT2_uc009zms.2_RNA	NM_003578	NP_003569	O75908	SOAT2_HUMAN	acyl-CoA:cholesterol acyltransferase 2	385					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|macrophage derived foam cell differentiation|very-low-density lipoprotein particle assembly	brush border|endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			ovary(1)	1						TGGAACTCAACGTCCTTCTCC	0.597													15	76					0	0	0.006122	0	0		T	53515103	T	T	53515103	3	4	45	1	0	0	0	0	1	0	0	0	14936	536	19	1	1200	1	SOAT2	12	53515103	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	63215	53515103	80336792	726	35105											
ZNF385A	25946	broad.mit.edu	37	chr12	54765373	54765373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacccccaggcaaggaagccGgggctggagtccccccttca	8	5	12	16	1	1	0	1	0	0	0	2	2	2	2	6	5	2	2	6	5	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:54765373G>A	uc001sfw.1	-	4	671	c.488C>T	c.(487-489)CCG>CTG	p.P163L	ZNF385A_uc001sfv.1_Missense_Mutation_p.P144L|ZNF385A_uc009zno.1_RNA|ZNF385A_uc010sov.1_Intron|ZNF385A_uc001sfx.1_Missense_Mutation_p.P163L|ZNF385A_uc001sfy.3_Missense_Mutation_p.P183L|ZNF385A_uc001sfz.3_Intron	NM_015481	NP_056296	Q96PM9	Z385A_HUMAN	zinc finger protein 385A isoform c	163					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1						CAAGGAAGCCGGGGCTGGAGT	0.622													30	115					0	0	0.013726	0	0		A	54765373	A	A	54765373	3	1	45	1	0	0	0	0	1	0	0	0	17901	1116	39	1	628	1	ZNF385A	12	54765373	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1250270	54765373	79086522	727	35106											
NCKAP1L	3071	broad.mit.edu	37	chr12	54911335	54911335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggctctttttgctttcatgGccctgtccttcattcgtgat	4	18	8	11	1	3	1	2	1	1	0	5	1	4	1	2	2	1	2	2	2	0	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:54911335G>A	uc001sgc.3	+	12	1193	c.1114G>A	c.(1114-1116)GCC>ACC	p.A372T	NCKAP1L_uc010sox.1_5'UTR|NCKAP1L_uc010soy.1_Missense_Mutation_p.A322T	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	372					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						TGCTTTCATGGCCCTGTCCTT	0.423													4	107					0	0	0.009096	0	0		A	54911335	A	A	54911335	3	1	45	1	0	0	0	0	1	0	0	0	10241	1203	42	2	1160	2	NCKAP1L	12	54911335	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	145962	54911335	78940560	728	35107											
KIAA0748	9840	broad.mit.edu	37	chr12	55360194	55360194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagagtttgccattggCggccagtagtgtggctggac	8	9	17	7	1	0	2	0	0	0	2	0	4	0	3	2	5	1	3	2	5	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:55360194C>T	uc001sgn.3	-	6	435	c.325G>A	c.(325-327)GCC>ACC	p.A109T	KIAA0748_uc001sgl.3_5'UTR|KIAA0748_uc001sgm.3_5'UTR|KIAA0748_uc010spb.1_5'UTR|KIAA0748_uc010spc.1_5'UTR|KIAA0748_uc010spd.1_Missense_Mutation_p.A109T|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	109										ovary(1)|central_nervous_system(1)	2						TTGCCATTGGCGGCCAGTAGT	0.323													16	98					0	0	0.00499	0	0		T	55360194	T	T	55360194	3	4	45	1	0	0	0	0	1	0	0	0	8206	768	27	1	1260	1	KIAA0748	12	55360194	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	448859	55360194	78491701	729	35108											
OR9K2	441639	broad.mit.edu	37	chr12	55523916	55523916	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctatctcctttgcaggcTgtgtggcccagctctttctc	4	15	9	13	0	4	0	0	0	4	0	6	0	4	0	2	2	2	3	2	2	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:55523916T>C	uc010spe.1	+	1	364	c.364T>C	c.(364-366)TGT>CGT	p.C122R		NM_001005243	NP_001005243	Q8NGE7	OR9K2_HUMAN	olfactory receptor, family 9, subfamily K,	122	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						CTTTGCAGGCTGTGTGGCCCA	0.468													4	174					0	0	0.009096	0	0		C	55523916	C	C	55523916	3	2	45	1	0	0	0	0	1	0	0	0	11273	1580	55	3	366	3	OR9K2	12	55523916	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	163722	55523916	78327979	730	35109											
OR6C4	341418	broad.mit.edu	37	chr12	55945174	55945174	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actagacccccacctccagaCccccatgtatttcttcctcc	8	10	3	20	0	1	2	0	0	1	2	4	2	4	2	8	0	0	1	8	0	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:55945174C>G	uc010spp.1	+	1	164	c.164C>G	c.(163-165)ACC>AGC	p.T55S		NM_001005494	NP_001005494	Q8NGE1	OR6C4_HUMAN	olfactory receptor, family 6, subfamily C,	55	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CACCTCCAGACCCCCATGTAT	0.408													30	149					0	0	0.003271	0	0		G	55945174	G	G	55945174	3	3	45	1	0	0	0	0	1	0	0	0	11212	507	18	5	166	5	OR6C4	12	55945174	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	421258	55945174	77906721	731	35110											
ITGA7	3679	broad.mit.edu	37	chr12	56082688	56082688	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcacagccgcgcggtcaaaGctgtagagtgggcagctgaa	11	5	15	10	3	1	2	1	1	0	1	1	2	1	2	1	2	4	5	1	2	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:56082688G>T	uc001shh.2	-	22	3130	c.2910C>A	c.(2908-2910)AGC>AGA	p.S970R	ITGA7_uc001shg.2_Missense_Mutation_p.S966R|ITGA7_uc010sps.1_Missense_Mutation_p.S873R|ITGA7_uc001shf.2_5'Flank|ITGA7_uc009znw.2_Missense_Mutation_p.S213R|ITGA7_uc009znx.2_Missense_Mutation_p.S847R	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	1010	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						CGCGGTCAAAGCTGTAGAGTG	0.592													21	74					4.26978e-12	4.77752e-12	0.00333	1	0		T	56082688	T	T	56082688	3	4	45	1	0	0	0	0	1	0	0	0	7897	962	34	5	531	5	ITGA7	12	56082688	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	137514	56082688	77769207	732	35111											
CS	1431	broad.mit.edu	37	chr12	56667564	56667564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttccttagtactgcatggCcatagcctggaacaacctgt	9	12	8	12	0	1	0	0	0	1	0	2	1	2	1	4	2	5	2	4	2	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:56667564C>T	uc001sks.1	-	10	1227	c.1037G>A	c.(1036-1038)GGC>GAC	p.G346D	CS_uc010sql.1_Missense_Mutation_p.G333D|CS_uc001skr.1_Missense_Mutation_p.G280D|CS_uc001skt.1_Missense_Mutation_p.G301D|CS_uc010sqm.1_3'UTR	NM_004077	NP_004068	O75390	CISY_HUMAN	citrate synthase precursor	346					cellular carbohydrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	citrate (Si)-synthase activity				0		Myeloproliferative disorder(1001;0.000374)		BRCA - Breast invasive adenocarcinoma(357;6.17e-07)		TACTGCATGGCCATAGCCTGG	0.348													4	128					0	0	0.000602	0	0		T	56667564	T	T	56667564	3	4	45	1	0	0	0	0	1	0	0	0	3927	739	26	2	371	2	CS	12	56667564	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	584876	56667564	77184331	733	35112											
GPR182	11318	broad.mit.edu	37	chr12	57389029	57389029	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgggggcctggcccctcGgagggggtcaccgcagtgcc	4	5	18	14	2	1	0	1	0	0	0	2	1	1	1	5	6	2	2	5	6	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:57389029G>T	uc001smk.2	+	2	130	c.36G>T	c.(34-36)TCG>TCT	p.S12S	RDH16_uc010sqx.1_Intron	NM_007264	NP_009195	O15218	GP182_HUMAN	G protein-coupled receptor 182	12	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(1)	1						CTGGCCCCTCGGAGGGGGTCA	0.597													26	134					1.5548e-18	1.78091e-18	0.005443	1	0		T	57389029	T	T	57389029	2	4	45	1	0	0	0	0	0	0	0	1	6692	1103	39	5		5	GPR182	12	57389029	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	721465	57389029	76462866	734	35113											
MON2	23041	broad.mit.edu	37	chr12	62926342	62926342	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattgaaggagagctaggaGagcttgaaacagaatgtcaa	16	8	13	4	0	1	6	1	3	0	3	1	8	1	6	0	2	3	2	0	2	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:62926342G>T	uc001sre.2	+	12	1916	c.1525G>T	c.(1525-1527)GAG>TAG	p.E509*	MON2_uc009zqj.2_Nonsense_Mutation_p.E509*|MON2_uc010ssl.1_Nonsense_Mutation_p.E437*|MON2_uc010ssm.1_Nonsense_Mutation_p.E509*|MON2_uc010ssn.1_Nonsense_Mutation_p.E509*|MON2_uc001srf.2_Nonsense_Mutation_p.E272*	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	509					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		AGAGCTAGGAGAGCTTGAAAC	0.443													16	54					3.52763e-06	3.76675e-06	0.00499	1	0		T	62926342	T	T	62926342	4	4	45	1	0	0	0	0	0	1	0	0	9718	943	33	5	1571	5	MON2	12	62926342	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5537313	62926342	70925553	735	35114											
CAND1	55832	broad.mit.edu	37	chr12	67696193	67696193	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgctgtagttagcacaaGgcatgaaatgcttccagaat	13	10	11	7	0	0	2	0	1	0	1	1	3	1	3	1	2	3	6	1	2	5	3	rs4255614		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:67696193G>T	uc001stn.2	+	8	1528	c.1091G>T	c.(1090-1092)AGG>ATG	p.R364M	CAND1_uc001sto.2_Missense_Mutation_p.R42M	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	364	HEAT 8.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		GTTAGCACAAGGCATGAAATG	0.433													20	121					4.96729e-08	5.40275e-08	0.008871	1	0		T	67696193	T	T	67696193	3	4	45	1	0	0	0	0	1	0	0	0	2618	1000	35	5	1121	5	CAND1	12	67696193	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4769851	67696193	66155702	736	35115											
CAND1	55832	broad.mit.edu	37	chr12	67700125	67700125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaaccttcctgaatatctgCcgtttgtcctgcaagaaata	11	12	7	11	1	1	2	0	1	1	1	3	2	3	2	4	0	3	3	4	0	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:67700125C>T	uc001stn.2	+	10	3114	c.2677C>T	c.(2677-2679)CCG>TCG	p.P893S	CAND1_uc001sto.2_Missense_Mutation_p.P403S	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	893	HEAT 21.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		TGAATATCTGCCGTTTGTCCT	0.413													18	84					0	0	0.008871	0	0		T	67700125	T	T	67700125	3	4	45	1	0	0	0	0	1	0	0	0	2618	739	26	2	2715	2	CAND1	12	67700125	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3932	67700125	66151770	737	35116											
LRRIQ1	84125	broad.mit.edu	37	chr12	85445956	85445956	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attattatcatatgttcagcAagaacaggacaagatgaatg	17	11	8	5	0	2	3	2	1	0	2	2	4	2	4	0	1	2	2	0	1	7	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:85445956A>G	uc001tac.2	+	7	791	c.680A>G	c.(679-681)CAA>CGA	p.Q227R	LRRIQ1_uc001tab.1_Missense_Mutation_p.Q227R|LRRIQ1_uc001taa.1_Intron	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	227	Glu-rich.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		TATGTTCAGCAAGAACAGGAC	0.234													24	74					0	0	0.00333	0	0		G	85445956	G	G	85445956	3	3	45	1	0	0	0	0	1	0	0	0	9047	144	5	3	702	3	LRRIQ1	12	85445956	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	17745831	85445956	48405939	738	35117											
ELK3	2004	broad.mit.edu	37	chr12	96641034	96641034	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccgcccgaagacagcccccCcgtggaagaagtcaggactg	10	3	13	15	3	1	2	1	0	0	2	1	5	1	4	5	2	1	0	5	2	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:96641034C>A	uc001teo.1	+	3	803	c.524C>A	c.(523-525)CCC>CAC	p.P175H		NM_005230	NP_005221	P41970	ELK3_HUMAN	ELK3 protein	175					negative regulation of transcription, DNA-dependent|signal transduction	mitochondrion	protein binding|purine-rich negative regulatory element binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	all_cancers(2;0.00173)					GACAGCCCCCCCGTGGAAGAA	0.582													4	71					0.00909568	0.00927429	0.009096	1	0		A	96641034	A	A	96641034	3	1	45	1	0	0	0	0	1	0	0	0	5068	623	22	5	530	5	ELK3	12	96641034	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	11195078	96641034	37210861	739	35118											
TMPO	7112	broad.mit.edu	37	chr12	98938068	98938068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggatcttcaaaaggcggaCctctgcaggcattaactagg	11	9	12	9	1	3	0	1	0	2	0	3	2	3	2	1	5	2	2	1	5	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:98938068C>T	uc001tfj.2	+	5	961	c.724C>T	c.(724-726)CCT>TCT	p.P242S	TMPO_uc001tfk.2_Intron|TMPO_uc001tfl.2_Intron	NM_001032283	NP_001027454	P42167	LAP2B_HUMAN	thymopoietin isoform beta	242	Nucleoplasmic (Potential).|NAKAP95-binding N.					integral to membrane|nuclear inner membrane	DNA binding|lamin binding			ovary(2)	2						AAAAGGCGGACCTCTGCAGGC	0.413													7	58					0	0	0.00308	0	0		T	98938068	T	T	98938068	3	4	45	1	0	0	0	0	1	0	0	0	16262	507	18	4	2266	4	TMPO	12	98938068	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2297034	98938068	34913827	740	35119											
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100444003	100444003	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcctaattggtctggtgTcacctggttcacttgaagac	8	14	10	9	0	3	2	2	1	1	1	3	2	3	2	2	3	1	1	2	3	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:100444003T>C	uc001tgq.2	-	17	3890	c.3661A>G	c.(3661-3663)ACA>GCA	p.T1221A	UHRF1BP1L_uc001tgp.2_Missense_Mutation_p.T871A	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	1221										ovary(2)	2						TGGTCTGGTGTCACCTGGTTC	0.353													3	19					0	0	0.004672	0	0		C	100444003	C	C	100444003	3	2	45	1	0	0	0	0	1	0	0	0	16995	1667	58	3	753	3	UHRF1BP1L	12	100444003	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1505935	100444003	33407892	741	35120											
STAB2	55576	broad.mit.edu	37	chr12	104089412	104089412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgactattccatcttcCggggctacatcattgcaagt	8	13	8	12	1	2	1	1	1	1	0	4	1	4	1	3	2	3	2	3	2	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:104089412C>T	uc001tjw.2	+	32	3646	c.3460C>T	c.(3460-3462)CGG>TGG	p.R1154W		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1154	Extracellular (Potential).|FAS1 4.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						TTCCATCTTCCGGGGCTACAT	0.512													16	93					0	0	0.00499	0	0		T	104089412	T	T	104089412	3	4	45	1	0	0	0	0	1	0	0	0	15263	643	23	1	3586	1	STAB2	12	104089412	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3645409	104089412	29762483	742	35121											
STAB2	55576	broad.mit.edu	37	chr12	104149134	104149134	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaccgggcgggttgcctacCccacagccttcgcctcccag	6	6	11	18	3	0	1	0	0	0	1	2	1	1	1	7	2	3	1	7	2	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:104149134C>A	uc001tjw.2	+	62	6955	c.6769C>A	c.(6769-6771)CCC>ACC	p.P2257T	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2257	Extracellular (Potential).|Link.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GGTTGCCTACCCCACAGCCTT	0.567													26	121					7.92952e-12	8.85832e-12	0.003954	1	0		A	104149134	A	A	104149134	3	1	45	1	0	0	0	0	1	0	0	0	15263	623	22	5	7015	5	STAB2	12	104149134	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	59722	104149134	29702761	743	35122											
RFX4	5992	broad.mit.edu	37	chr12	106977126	106977126	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggttactggaggaacccGacatggattccacaggttag	10	9	14	8	1	0	0	0	0	0	0	1	4	1	3	2	5	2	2	2	5	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:106977126G>T	uc001tlr.2	+	1	94	c.28G>T	c.(28-30)GAC>TAC	p.D10Y		NM_213594	NP_998759	Q33E94	RFX4_HUMAN	regulatory factor X4 isoform c	10					transcription, DNA-dependent	nucleus	DNA binding			upper_aerodigestive_tract(1)	1						GGAGGAACCCGACATGGATTC	0.552													4	105					0.000602214	0.000624948	0.000602	1	0		T	106977126	T	T	106977126	3	4	45	1	0	0	0	0	1	0	0	0	13290	1058	37	5	30	5	RFX4	12	106977126	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2827992	106977126	26874769	744	35123											
WSCD2	9671	broad.mit.edu	37	chr12	108620779	108620779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atccccaggagtacccgctgGcagctcttgcaggcaccgcc	7	6	11	17	2	1	0	0	0	1	0	2	1	2	1	5	3	3	6	5	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:108620779G>A	uc001tms.2	+	6	1561	c.817G>A	c.(817-819)GCA>ACA	p.A273T	WSCD2_uc001tmt.2_Missense_Mutation_p.A273T|WSCD2_uc001tmu.2_Missense_Mutation_p.A21T	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	273	WSC 2.					integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						GTACCCGCTGGCAGCTCTTGC	0.567													18	74					0	0	0.007413	0	0		A	108620779	A	A	108620779	3	1	45	1	0	0	0	0	1	0	0	0	17433	1203	42	2	835	2	WSCD2	12	108620779	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1643653	108620779	25231116	745	35124											
WSCD2	9671	broad.mit.edu	37	chr12	108634185	108634185	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatcaagacgcacgaaagCggccagaaagagatcgaggc	15	3	13	10	4	1	3	1	0	0	3	2	6	1	3	1	2	2	2	1	2	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:108634185C>T	uc001tms.2	+	8	1953	c.1209C>T	c.(1207-1209)AGC>AGT	p.S403S	WSCD2_uc001tmt.2_Silent_p.S403S|WSCD2_uc001tmu.2_Silent_p.S151S	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	403						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						CGCACGAAAGCGGCCAGAAAG	0.607													29	236					0	0	0.013726	0	0		T	108634185	T	T	108634185	2	4	45	1	0	0	0	0	0	0	0	1	17433	767	27	1		1	WSCD2	12	108634185	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	13406	108634185	25217710	746	35125											
DTX1	1840	broad.mit.edu	37	chr12	113515234	113515234	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttcgagtacaggcaccAtgcggcccgtgcggcgcaac	8	6	12	15	5	0	0	0	0	0	0	1	1	0	0	3	3	4	3	3	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:113515234A>G	uc001tuk.1	+	2	601	c.265A>G	c.(265-267)ATG>GTG	p.M89V		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	89	WWE 1.				negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						TACAGGCACCATGCGGCCCGT	0.701													10	46					0	0	0.008291	0	0		G	113515234	G	G	113515234	3	3	45	1	0	0	0	0	1	0	0	0	4799	217	8	3	271	3	DTX1	12	113515234	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	4881049	113515234	20336661	747	35126											
KSR2	283455	broad.mit.edu	37	chr12	118198971	118198971	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttcttcttcctcatgggCggcgtgcccggcggggtcac	2	12	14	13	4	4	0	2	0	2	0	5	0	5	0	2	5	1	1	2	5	0	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:118198971C>T	uc001two.2	-	4	799	c.744G>A	c.(742-744)CCG>CCA	p.P248P		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	277	Pro-rich.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCCTCATGGGCGGCGTGCCCG	0.701													14	344					0	0	0.004007	0	0		T	118198971	T	T	118198971	2	4	45	1	0	0	0	0	0	0	0	1	8598	755	27	1		1	KSR2	12	118198971	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4683737	118198971	15652924	748	35127											
NCOR2	9612	broad.mit.edu	37	chr12	124821593	124821593	+	Frame_Shift_Del	DEL	G	-	-																															ccgctctggccgggcgacccGgggggcctccttgggcagca																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:124821593delG	uc010tay.1	-	40	6007	c.5851delC	c.(5851-5853)CGGfs	p.R1951fs	NCOR2_uc010taz.1_Frame_Shift_Del_p.R1935fs|NCOR2_uc010tax.1_Frame_Shift_Del_p.R62fs	NM_006312	NP_006303	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 1	1952					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		CGGGCGACCCGGGGGGCCTCC	0.726													5	9	---	---	---	---						.	-	124821593	-	-	124821593	7	5	45	1	0	1	0	1	0	0	0	0	10255	1115	39	0	1763	0	NCOR2	12	124821593	Frame_Shift_Del	DEL	G	TCGA-BR-6852-01A-11D-1882-08	6622622	124821593	9030302	749	35128											
TMEM132D	121256	broad.mit.edu	37	chr12	129559129	129559129	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctttcctggcctttcttcTtctgcaggatggacctgtct	3	16	10	12	0	4	0	0	0	4	0	5	2	5	2	3	4	1	2	3	4	0	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:129559129T>G	uc009zyl.1	-	9	2919	c.2591A>C	c.(2590-2592)AAG>ACG	p.K864T	TMEM132D_uc001uia.2_Missense_Mutation_p.K402T	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	864	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GCCTTTCTTCTTCTGCAGGAT	0.572													14	74					0	0	0.00245	0	0		G	129559129	G	G	129559129	3	3	45	1	0	0	0	0	1	0	0	0	16072	1609	56	5	712	5	TMEM132D	12	129559129	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	4737536	129559129	4292766	750	35129											
ULK1	8408	broad.mit.edu	37	chr12	132401007	132401007	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctggccctcctagcccGgcagggcgtggtgatgacgc	4	7	15	15	3	0	2	0	2	0	0	1	2	1	2	4	4	2	2	4	4	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:132401007G>T	uc001uje.2	+	20	2211	c.1943G>T	c.(1942-1944)CGG>CTG	p.R648L		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	648					autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		CTCCTAGCCCGGCAGGGCGTG	0.677													17	97					9.16793e-09	1.00417e-08	0.00499	1	0		T	132401007	T	T	132401007	3	4	45	1	0	0	0	0	1	0	0	0	17001	1116	39	5	2021	5	ULK1	12	132401007	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2841878	132401007	1450888	751	35130											
ULK1	8408	broad.mit.edu	37	chr12	132405868	132405868	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggcaagctgtgcattgagCggagactctcggcgctgctg	7	8	15	11	3	1	2	0	1	1	1	2	3	1	2	0	3	4	5	0	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:132405868C>T	uc001uje.2	+	28	3383	c.3115C>T	c.(3115-3117)CGG>TGG	p.R1039W		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	1039					autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		GTGCATTGAGCGGAGACTCTC	0.667													6	189					0	0	0.001984	0	0		T	132405868	T	T	132405868	3	4	45	1	0	0	0	0	1	0	0	0	17001	759	27	1	3225	1	ULK1	12	132405868	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4861	132405868	1446027	752	35131											
EP400	57634	broad.mit.edu	37	chr12	132502083	132502083	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttctccacgggcagcacTcaggaggccttgaagagcgg	8	8	13	12	2	3	2	1	1	2	1	4	3	3	3	2	4	2	2	2	4	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:132502083T>C	uc001ujn.2	+	19	3962	c.3927T>C	c.(3925-3927)ACT>ACC	p.T1309T	EP400_uc001ujl.2_Silent_p.T1308T|EP400_uc001ujm.2_Silent_p.T1309T	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1345	Interactions with RUVBL1 and RUVBL2.				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CGGGCAGCACTCAGGAGGCCT	0.592													19	107					0	0	0.008871	0	0		C	132502083	C	C	132502083	2	2	45	1	0	0	0	0	0	0	0	1	5157	1538	54	3		3	EP400	12	132502083	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	96215	132502083	1349812	753	35132											
PGAM5	192111	broad.mit.edu	37	chr12	133294630	133294630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccggaactacatccaccgcGcagatgccaggcaggaggag	11	4	13	13	3	0	1	0	0	0	1	2	4	2	4	4	4	3	2	4	4	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:133294630G>A	uc009zyv.2	+	5	670	c.643G>A	c.(643-645)GCA>ACA	p.A215T	PGAM5_uc010tbr.1_RNA|PGAM5_uc001uku.2_Missense_Mutation_p.A215T	NM_138575	NP_612642	Q96HS1	PGAM5_HUMAN	phosphoglycerate mutase family member 5	215						integral to membrane|mitochondrial outer membrane	phosphoprotein phosphatase activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.89e-08)|Epithelial(86;1.14e-07)|all cancers(50;3.57e-06)		CATCCACCGCGCAGATGCCAG	0.622													14	65					0	0	0.004007	0	0		A	133294630	A	A	133294630	3	1	45	1	0	0	0	0	1	0	0	0	11795	1087	38	1	661	1	PGAM5	12	133294630	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	792547	133294630	557265	754	35133											
ANKLE2	23141	broad.mit.edu	37	chr12	133313524	133313524	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctctcagggtcagtacCgggtctctggggctgcctcc	5	9	14	13	1	3	0	2	0	2	0	6	0	4	0	3	5	2	3	3	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr12:133313524C>T	uc001ukx.2	-	8	1615	c.1548G>A	c.(1546-1548)CCG>CCA	p.P516P	ANKLE2_uc009zyw.1_5'Flank|ANKLE2_uc001uky.3_Silent_p.P454P	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	516						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		GGGTCAGTACCGGGTCTCTGG	0.617													13	136					0	0	0.001855	0	0		T	133313524	T	T	133313524	2	4	45	1	0	0	0	0	0	0	0	1	633	639	23	1		1	ANKLE2	12	133313524	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	18894	133313524	538371	755	35134											
CRYL1	51084	broad.mit.edu	37	chr13	21006389	21006389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcgtaggggccgtctccGggtgggggaccagctcaacc	5	7	16	13	3	2	0	1	0	1	0	4	1	2	1	4	5	2	2	4	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:21006389G>A	uc001une.2	-	5	564	c.485C>T	c.(484-486)CCG>CTG	p.P162L	CRYL1_uc001unf.2_Missense_Mutation_p.P140L|CRYL1_uc001ung.2_Missense_Mutation_p.P140L|CRYL1_uc010tcp.1_Missense_Mutation_p.P36L	NM_015974	NP_057058	Q9Y2S2	CRYL1_HUMAN	lambda-crystallin	162					fatty acid metabolic process	cytosol	3-hydroxyacyl-CoA dehydrogenase activity|L-gulonate 3-dehydrogenase activity|NAD+ binding|protein homodimerization activity				0		all_cancers(29;2.27e-23)|all_epithelial(30;1.69e-19)|all_lung(29;8.29e-18)|Lung SC(185;0.0262)|Ovarian(182;0.0827)|Hepatocellular(188;0.244)		all cancers(112;6.6e-05)|Epithelial(112;0.00178)|OV - Ovarian serous cystadenocarcinoma(117;0.0169)|Lung(94;0.0215)|GBM - Glioblastoma multiforme(144;0.0402)|LUSC - Lung squamous cell carcinoma(192;0.061)		GGCCGTCTCCGGGTGGGGGAC	0.592													13	58					0	0	0.001855	0	0		A	21006389	A	A	21006389	3	1	45	1	0	0	0	0	1	0	0	0	3923	1116	39	1	490	1	CRYL1	13	21006389	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08		21006389	94163489	756	35135											
LATS2	26524	broad.mit.edu	37	chr13	21562308	21562308	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctctgctccatgcctgcGcacaggctgtccaggtcgta	6	9	12	14	2	1	0	0	0	1	0	4	0	3	0	3	3	3	5	3	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:21562308G>A	uc009zzs.2	-	4	1976	c.1611C>T	c.(1609-1611)TGC>TGT	p.C537C	LATS2_uc001unr.3_Silent_p.C537C	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	537					cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		CCATGCCTGCGCACAGGCTGT	0.667													19	51					0	0	0.010504	0	0		A	21562308	A	A	21562308	2	1	45	1	0	0	0	0	0	0	0	1	8663	1079	38	1		1	LATS2	13	21562308	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	555919	21562308	93607570	757	35136											
FGF9	2254	broad.mit.edu	37	chr13	22246092	22246092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaactatttcggtgtgcAggatgcggtaccgtttggga	7	12	16	6	3	0	0	0	0	0	0	1	3	0	3	1	5	4	3	1	5	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:22246092A>G	uc001uog.2	+	1	878	c.41A>G	c.(40-42)CAG>CGG	p.Q14R		NM_002010	NP_002001	P31371	FGF9_HUMAN	fibroblast growth factor 9 precursor	14					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|male gonad development|positive regulation of cell division	extracellular space	growth factor activity|heparin binding				0		all_cancers(29;1.23e-20)|all_epithelial(30;9.83e-19)|all_lung(29;9.64e-17)|Lung SC(185;0.0262)|Breast(139;0.106)		all cancers(112;3.92e-05)|Epithelial(112;0.000166)|OV - Ovarian serous cystadenocarcinoma(117;0.00314)|Lung(94;0.163)		TTCGGTGTGCAGGATGCGGTA	0.547													26	146					0	0	0.00632	0	0		G	22246092	G	G	22246092	3	3	45	1	0	0	0	0	1	0	0	0	5873	188	7	3	43	3	FGF9	13	22246092	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	683784	22246092	92923786	758	35137											
SACS	26278	broad.mit.edu	37	chr13	23907766	23907766	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcttacatagcggccacTgatggatttatagcacggaa	13	10	10	8	2	0	1	0	1	0	0	0	3	0	3	1	3	4	2	1	3	6	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:23907766T>G	uc001uon.2	-	10	10838	c.10249A>C	c.(10249-10251)AGT>CGT	p.S3417R	SACS_uc001uoo.2_Missense_Mutation_p.S3270R|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3417					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TAGCGGCCACTGATGGATTTA	0.368													23	104					0	0	0.00333	0	0		G	23907766	G	G	23907766	3	3	45	1	0	0	0	0	1	0	0	0	13829	1580	55	5	3494	5	SACS	13	23907766	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1661674	23907766	91262112	759	35138											
SACS	26278	broad.mit.edu	37	chr13	23911305	23911305	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttgctgcaaacatggttTcaggcttaaaactgttgcct	10	13	9	9	0	1	0	1	0	0	0	1	0	1	0	1	2	5	6	1	2	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:23911305T>C	uc001uon.2	-	10	7299	c.6710A>G	c.(6709-6711)GAA>GGA	p.E2237G	SACS_uc001uoo.2_Missense_Mutation_p.E2090G|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2237					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AAACATGGTTTCAGGCTTAAA	0.368													13	50					0	0	0.001855	0	0		C	23911305	C	C	23911305	3	2	45	1	0	0	0	0	1	0	0	0	13829	1783	62	3	7033	3	SACS	13	23911305	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	3539	23911305	91258573	760	35139											
PARP4	143	broad.mit.edu	37	chr13	25009030	25009030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctggtagtaaagcctccagGatgttgcagtggagcagact	10	9	13	9	0	0	1	0	0	0	1	1	3	1	3	3	3	3	5	3	3	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:25009030G>A	uc001upl.2	-	31	4355	c.4249C>T	c.(4249-4251)CCT>TCT	p.P1417S		NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	1417					cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		AAGCCTCCAGGATGTTGCAGT	0.532													13	40					0	0	0.001855	0	0		A	25009030	A	A	25009030	3	1	45	1	0	0	0	0	1	0	0	0	11482	1174	41	4	941	4	PARP4	13	25009030	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1097725	25009030	90160848	761	35140											
RNF17	56163	broad.mit.edu	37	chr13	25399909	25399909	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtaccgagcaaaagttatCggtaggagaatgcatgctgt	12	10	13	6	2	0	1	0	0	0	1	1	3	0	1	1	3	4	6	1	3	6	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:25399909C>T	uc001upr.2	+	16	2285	c.2244C>T	c.(2242-2244)ATC>ATT	p.I748I	RNF17_uc010tdd.1_Silent_p.I607I|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Silent_p.I748I|RNF17_uc001ups.2_Silent_p.I687I	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	748	Tudor 1.				multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		CAAAAGTTATCGGTAGGAGAA	0.368													12	65					0	0	0.00245	0	0		T	25399909	T	T	25399909	2	4	45	1	0	0	0	0	0	0	0	1	13486	898	31	1		1	RNF17	13	25399909	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	390879	25399909	89769969	762	35141											
CENPJ	55835	broad.mit.edu	37	chr13	25484117	25484117	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtatgtttcttcctgggttgGgtccgggtagacatatgatg	6	15	14	6	1	1	2	0	1	1	1	3	2	3	2	2	3	0	4	2	3	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:25484117G>A	uc001upt.3	-	4	929	c.676C>T	c.(676-678)CCA>TCA	p.P226S	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	226					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		TCCTGGGTTGGGTCCGGGTAG	0.473													29	147					0	0	0.012213	0	0		A	25484117	A	A	25484117	3	1	45	1	0	0	0	0	1	0	0	0	3237	1232	43	4	3396	4	CENPJ	13	25484117	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	84208	25484117	89685761	763	35142											
FRY	10129	broad.mit.edu	37	chr13	32783063	32783063	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctacctgctgccctggctGcacaacatcgagctggtgga	8	8	11	14	1	0	0	0	0	0	0	1	2	0	1	3	3	6	4	3	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:32783063G>A	uc001utx.2	+	32	4588	c.4092G>A	c.(4090-4092)CTG>CTA	p.L1364L	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1364					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		TGCCCTGGCTGCACAACATCG	0.597													15	69					0	0	0.004007	0	0		A	32783063	A	A	32783063	2	1	45	1	0	0	0	0	0	0	0	1	6077	1306	46	2		2	FRY	13	32783063	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	7298946	32783063	82386815	764	35143											
BRCA2	675	broad.mit.edu	37	chr13	32931894	32931894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtagctgtatacgtatggcGtttctaaacattgcataaaa	13	14	8	6	2	1	0	0	0	1	0	1	0	1	0	0	1	4	6	0	1	8	8	rs80358990		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:32931894G>A	uc001uub.1	+	16	7860	c.7633G>A	c.(7633-7635)GTT>ATT	p.V2545I		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2545	Interaction with FANCD2.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TACGTATGGCGTTTCTAAACA	0.289			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			13	55					0	0	0.00245	0	0		A	32931894	A	A	32931894	3	1	45	1	0	0	0	0	1	0	0	0	1502	1145	40	1	7691	1	BRCA2	13	32931894	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	148831	32931894	82237984	765	35144											
RFC3	5983	broad.mit.edu	37	chr13	34404030	34404030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctcagcatgccttgcgaaGaaccatggaaaaatatatgt	14	10	9	8	1	1	1	1	0	0	1	1	3	1	2	2	1	5	2	2	1	6	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:34404030G>A	uc001uuz.2	+	5	559	c.449G>A	c.(448-450)AGA>AAA	p.R150K	RFC3_uc001uva.2_Missense_Mutation_p.R150K|RFC3_uc010ted.1_Missense_Mutation_p.R150K	NM_002915	NP_002906	P40938	RFC3_HUMAN	replication factor C 3 isoform 1	150					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|response to organophosphorus|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding				0		Hepatocellular(188;0.0191)|Lung SC(185;0.0548)		all cancers(112;5.09e-06)|Epithelial(112;6.52e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00107)|OV - Ovarian serous cystadenocarcinoma(117;0.0285)|GBM - Glioblastoma multiforme(144;0.123)		GCCTTGCGAAGAACCATGGAA	0.403													17	80					0	0	0.00499	0	0		A	34404030	A	A	34404030	3	1	45	1	0	0	0	0	1	0	0	0	13271	942	33	4	467	4	RFC3	13	34404030	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1472136	34404030	80765848	766	35145											
NBEA	26960	broad.mit.edu	37	chr13	35923259	35923259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttagattactgtgccatgCtatgaaggaccatatagtcc	11	14	8	8	0	0	2	0	1	0	1	1	3	1	3	3	1	3	1	3	1	6	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:35923259C>T	uc001uvb.2	+	37	6124	c.5918C>T	c.(5917-5919)GCT>GTT	p.A1973V	NBEA_uc010abi.2_Missense_Mutation_p.A629V	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1973						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CTGTGCCATGCTATGAAGGAC	0.338													11	36					0	0	0.010729	0	0		T	35923259	T	T	35923259	3	4	45	1	0	0	0	0	1	0	0	0	10205	797	28	2	6064	2	NBEA	13	35923259	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1519229	35923259	79246619	767	35146											
CCNA1	8900	broad.mit.edu	37	chr13	37012857	37012857	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcgcacgattctggtggActggctggtggaggttgggg	5	10	19	7	2	1	0	0	0	1	0	1	3	1	2	0	8	1	3	0	8	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:37012857A>T	uc001uvr.3	+	5	1096	c.746A>T	c.(745-747)GAC>GTC	p.D249V	CCNA1_uc010teo.1_Missense_Mutation_p.D205V|CCNA1_uc010abq.2_Missense_Mutation_p.D205V|CCNA1_uc010abp.2_Missense_Mutation_p.D205V|CCNA1_uc001uvs.3_Missense_Mutation_p.D248V|CCNA1_uc010abr.2_Intron	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	249					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		ATTCTGGTGGACTGGCTGGTG	0.483													15	50					0	0	0.003163	0	0		T	37012857	T	T	37012857	3	4	45	1	0	0	0	0	1	0	0	0	2912	275	10	5	764	5	CCNA1	13	37012857	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1089598	37012857	78157021	768	35147											
FREM2	341640	broad.mit.edu	37	chr13	39262365	39262365	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaggggctcctgtgggcaGccctgctttgaaacgcgagc	7	7	15	12	3	0	1	0	1	0	0	1	3	1	1	2	3	4	3	2	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:39262365G>T	uc001uwv.2	+	1	1193	c.884G>T	c.(883-885)AGC>ATC	p.S295I		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	295	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		CCTGTGGGCAGCCCTGCTTTG	0.612													9	56					9.70103e-10	1.07262e-09	0.008291	1	0		T	39262365	T	T	39262365	3	4	45	1	0	0	0	0	1	0	0	0	6059	971	34	5	886	5	FREM2	13	39262365	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2249508	39262365	75907513	769	35148											
FREM2	341640	broad.mit.edu	37	chr13	39264188	39264188	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagggccgagtttcctatGcccataatggggacaagtcc	11	8	11	11	1	0	0	0	0	0	0	2	2	2	1	4	3	2	1	4	3	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:39264188G>T	uc001uwv.2	+	1	3016	c.2707G>T	c.(2707-2709)GCC>TCC	p.A903S		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	903	CSPG 5.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		AGTTTCCTATGCCCATAATGG	0.522													7	44					5.18039e-06	5.52312e-06	0.00308	1	0		T	39264188	T	T	39264188	3	4	45	1	0	0	0	0	1	0	0	0	6059	1319	46	5	2709	5	FREM2	13	39264188	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1823	39264188	75905690	770	35149											
KIAA0564	23078	broad.mit.edu	37	chr13	42149928	42149928	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggattttgttcattggaAccagaccaatgttgtagcca	10	13	11	7	0	1	1	1	0	0	1	1	3	1	3	3	3	2	3	3	3	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:42149928A>G	uc001uyj.2	-	43	5388	c.5318T>C	c.(5317-5319)GTT>GCT	p.V1773A		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1773	VWFA.					extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		GTTCATTGGAACCAGACCAAT	0.358													16	64					0	0	0.007413	0	0		G	42149928	G	G	42149928	3	3	45	1	0	0	0	0	1	0	0	0	8201	43	2	3	411	3	KIAA0564	13	42149928	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2885740	42149928	73019950	771	35150											
DNAJC15	29103	broad.mit.edu	37	chr13	43652796	43652796	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaacagaaaatgagtaggCgagaagctggtcttatttta	14	12	11	4	1	1	4	0	2	1	2	1	5	1	4	0	2	2	2	0	2	7	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:43652796C>T	uc001uyy.2	+	4	684	c.283C>T	c.(283-285)CGA>TGA	p.R95*		NM_013238	NP_037370	Q9Y5T4	DJC15_HUMAN	DNAJ domain-containing	95						integral to membrane	heat shock protein binding				0		Lung NSC(96;4.3e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0737)		AATGAGTAGGCGAGAAGCTGG	0.378													8	45					0	0	0.006214	0	0		T	43652796	T	T	43652796	4	4	45	1	0	0	0	0	0	1	0	0	4640	760	27	1	297	1	DNAJC15	13	43652796	Nonsense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1502868	43652796	71517082	772	35151											
SIAH3	283514	broad.mit.edu	37	chr13	46357608	46357608	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagagaagagctgtgccagCgaggtgttgaggacgaggca	11	6	17	7	2	1	3	1	1	0	2	1	7	1	4	1	3	3	3	1	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:46357608C>A	uc001vap.2	-	2	802	c.720G>T	c.(718-720)TCG>TCT	p.S240S		NM_198849	NP_942146	Q8IW03	SIAH3_HUMAN	seven in absentia homolog 3	240					multicellular organismal development|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding			ovary(1)|skin(1)	2						GCTGTGCCAGCGAGGTGTTGA	0.612													17	89					1.15088e-07	1.24597e-07	0.004007	1	0		A	46357608	A	A	46357608	2	1	45	1	0	0	0	0	0	0	0	1	14326	755	27	5		5	SIAH3	13	46357608	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2704812	46357608	68812270	773	35152											
RCBTB2	1102	broad.mit.edu	37	chr13	49084818	49084818	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggttgcttttattgccAgtgcccaactgcccataaga	9	12	9	11	0	0	1	0	0	0	1	0	2	0	1	3	1	5	2	3	1	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:49084818A>G	uc001vch.2	-	10	1244	c.873T>C	c.(871-873)ACT>ACC	p.T291T	RCBTB2_uc010tgg.1_Silent_p.T296T|RCBTB2_uc001vci.2_Silent_p.T267T|RCBTB2_uc010tgh.1_Intron|RCBTB2_uc001vcj.2_Intron|RCBTB2_uc010acv.1_RNA|RCBTB2_uc010tgi.1_Intron	NM_001268	NP_001259	O95199	RCBT2_HUMAN	regulator of chromosome condensation and BTB	291	RCC1 5.						Ran guanyl-nucleotide exchange factor activity			ovary(2)|lung(2)|skin(1)	5		all_cancers(8;4.86e-71)|all_epithelial(8;2.11e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;2.3e-10)|Lung NSC(96;1.07e-07)|Breast(56;1.53e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.00826)|Myeloproliferative disorder(33;0.0179)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(99;1.8e-09)|LUSC - Lung squamous cell carcinoma(3;0.116)		TTTTATTGCCAGTGCCCAACT	0.493													14	114					0	0	0.004007	0	0		G	49084818	G	G	49084818	2	3	45	1	0	0	0	0	0	0	0	1	13197	175	7	3		3	RCBTB2	13	49084818	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2727210	49084818	66085060	774	35153											
THSD1	55901	broad.mit.edu	37	chr13	52951775	52951775	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agttatctttgggggatatgGgagaagactgcttccttgag	9	13	14	5	0	1	3	0	1	1	2	2	5	2	4	1	3	1	2	1	3	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:52951775G>T	uc001vgo.2	-	5	2875	c.2330C>A	c.(2329-2331)CCC>CAC	p.P777H	THSD1_uc001vgp.2_Missense_Mutation_p.P724H|THSD1_uc010tgz.1_Missense_Mutation_p.P398H|THSD1_uc010aea.2_Missense_Mutation_p.P238H	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	777	Cytoplasmic (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		GGGGGATATGGGAGAAGACTG	0.537													36	193					2.6416e-12	2.96045e-12	0.00623	1	0		T	52951775	T	T	52951775	3	4	45	1	0	0	0	0	1	0	0	0	15902	1232	43	5	232	5	THSD1	13	52951775	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3866957	52951775	62218103	775	35154											
PCDH9	5101	broad.mit.edu	37	chr13	66878841	66878841	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgcttgcttataagaCttcagatttgccagaggaat	10	13	8	10	0	1	3	1	0	0	3	2	4	2	4	3	1	3	2	3	1	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:66878841C>T	uc001vik.2	-	5	4352	c.3660G>A	c.(3658-3660)AAG>AAA	p.K1220K	PCDH9_uc010aei.2_RNA|PCDH9_uc001vil.2_Silent_p.K1186K|PCDH9_uc010thl.1_Silent_p.K1178K	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	1220	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GCTTATAAGACTTCAGATTTG	0.433													6	70					0	0	0.001168	0	0		T	66878841	T	T	66878841	2	4	45	1	0	0	0	0	0	0	0	1	11537	564	20	4		4	PCDH9	13	66878841	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	13927066	66878841	48291037	776	35155											
SLITRK1	114798	broad.mit.edu	37	chr13	84453981	84453981	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgtctcacacttgaggtcGctcatcagcacttcggaacc	8	9	10	14	3	3	1	3	1	1	0	6	2	3	2	1	3	2	2	1	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:84453981G>A	uc001vlk.2	-	1	2548	c.1662C>T	c.(1660-1662)AGC>AGT	p.S554S		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	554	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		ACTTGAGGTCGCTCATCAGCA	0.537													12	41					0	0	0.001855	0	0		A	84453981	A	A	84453981	2	1	45	1	0	0	0	0	0	0	0	1	14767	1078	38	1		1	SLITRK1	13	84453981	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	17575140	84453981	30715897	777	35156											
STK24	8428	broad.mit.edu	37	chr13	99134531	99134531	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atacttactagatctagtgcGgagcctccaccaagatattc	12	11	7	11	1	1	2	0	0	1	2	3	3	2	3	3	1	4	0	3	1	6	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:99134531G>T	uc001vnm.1	-	3	589	c.354C>A	c.(352-354)TCC>TCA	p.S118S	STK24_uc001vnn.1_Silent_p.S106S|STK24_uc010tim.1_Intron	NM_003576	NP_003567	Q9Y6E0	STK24_HUMAN	serine/threonine kinase 24 isoform a	118	Protein kinase.				cellular component disassembly involved in apoptosis|signal transduction	cytosol|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			GATCTAGTGCGGAGCCTCCAC	0.318													3	46					0.000602214	0.000624948	0.000602	1	0		T	99134531	T	T	99134531	2	4	45	1	0	0	0	0	0	0	0	1	15318	1103	39	5		5	STK24	13	99134531	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	14680550	99134531	16035347	778	35157											
MYO16	23026	broad.mit.edu	37	chr13	109707413	109707413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttattaaaaaagaaaggaaCttctacatttcttcaaagat	18	13	5	5	0	3	2	1	0	2	2	3	3	3	3	0	1	2	1	0	1	8	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:109707413C>T	uc001vqt.1	+	26	3128	c.3002C>T	c.(3001-3003)ACT>ATT	p.T1001I	MYO16_uc010agk.1_Missense_Mutation_p.T1023I|MYO16_uc001vqu.1_Missense_Mutation_p.T801I|MYO16_uc010tjh.1_Missense_Mutation_p.T513I	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1001	Myosin head-like 2.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			AAGAAAGGAACTTCTACATTT	0.279													8	46					0	0	0.00308	0	0		T	109707413	T	T	109707413	3	4	45	1	0	0	0	0	1	0	0	0	10082	565	20	4	3100	4	MYO16	13	109707413	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	10572882	109707413	5462465	779	35158											
IRS2	8660	broad.mit.edu	37	chr13	110438061	110438061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtccttggtgtagagggCgatcaggtacttgtgcttgg	5	13	15	8	2	1	1	1	0	0	1	3	2	2	1	1	4	2	3	1	4	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:110438061C>T	uc001vqv.2	-	1	854	c.340G>A	c.(340-342)GCC>ACC	p.A114T		NM_003749	NP_003740	Q9Y4H2	IRS2_HUMAN	insulin receptor substrate 2	114	PH.				fibroblast growth factor receptor signaling pathway|glucose metabolic process|insulin receptor signaling pathway|lipid homeostasis|negative regulation of B cell apoptosis|negative regulation of kinase activity|negative regulation of plasma membrane long-chain fatty acid transport|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of B cell proliferation|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|response to glucose stimulus	cytosol|plasma membrane	insulin receptor binding|signal transducer activity			large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)|skin(1)|ovary(1)|kidney(1)	8	all_cancers(4;7.57e-15)|all_epithelial(4;5.91e-09)|all_lung(23;7.64e-07)|Lung NSC(43;0.000183)|Colorectal(4;0.00159)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0155)	Breast(118;0.159)	all cancers(43;0.00815)|BRCA - Breast invasive adenocarcinoma(86;0.11)|Epithelial(84;0.127)|GBM - Glioblastoma multiforme(44;0.147)			GTGTAGAGGGCGATCAGGTAC	0.622													4	30					0	0	0.009096	0	0		T	110438061	T	T	110438061	3	4	45	1	0	0	0	0	1	0	0	0	7857	768	27	1	3684	1	IRS2	13	110438061	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	730648	110438061	4731817	780	35159											
COL4A1	1282	broad.mit.edu	37	chr13	110804777	110804777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgacactcgatgaatggcGcacttctaaactcctccagg	10	9	9	13	3	1	2	0	2	1	0	4	3	3	2	2	2	1	1	2	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:110804777G>A	uc001vqw.3	-	51	4954	c.4832C>T	c.(4831-4833)GCG>GTG	p.A1611V	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1611	Collagen IV NC1.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			GATGAATGGCGCACTTCTAAA	0.582													16	44					0	0	0.004007	0	0		A	110804777	A	A	110804777	3	1	45	1	0	0	0	0	1	0	0	0	3692	1087	38	1	185	1	COL4A1	13	110804777	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	366716	110804777	4365101	781	35160											
CARS2	79587	broad.mit.edu	37	chr13	111329449	111329449	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgacgcttgtcagagtcCgctgcagatgacaaacggta	11	8	12	10	3	1	4	1	2	0	2	2	4	2	4	1	1	2	5	1	1	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:111329449C>T	uc001vrd.2	-	7	697	c.657G>A	c.(655-657)GCG>GCA	p.A219A	CARS2_uc010tjm.1_RNA	NM_024537	NP_078813	Q9HA77	SYCM_HUMAN	cysteinyl-tRNA synthetase 2, mitochondrial	219				LVGVVPGPVGEPADSDK -> IGRRGPWSSPETSGLLTS (in Ref. 4; BAB93499).	cysteinyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|cysteine-tRNA ligase activity|metal ion binding				0	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.163)		L-Cysteine(DB00151)	TGTCAGAGTCCGCTGCAGATG	0.617													18	70					0	0	0.006122	0	0		T	111329449	T	T	111329449	2	4	45	1	0	0	0	0	0	0	0	1	2661	666	23	1		1	CARS2	13	111329449	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	524672	111329449	3840429	782	35161											
MCF2L	23263	broad.mit.edu	37	chr13	113729379	113729379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgggaacaagcactacgCggtagactccatccgcccaa	12	6	9	14	3	0	1	0	0	0	1	2	2	2	2	3	2	3	2	3	2	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:113729379C>T	uc001vsu.2	+	11	1377	c.1355C>T	c.(1354-1356)GCG>GTG	p.A452V	MCF2L_uc001vsq.2_Missense_Mutation_p.A452V|MCF2L_uc010tjr.1_Missense_Mutation_p.A395V|MCF2L_uc001vsr.2_Missense_Mutation_p.A399V|MCF2L_uc001vss.3_Missense_Mutation_p.A393V|MCF2L_uc010tjs.1_Missense_Mutation_p.A393V|MCF2L_uc001vst.1_Missense_Mutation_p.A357V	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	425	Spectrin.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				AAGCACTACGCGGTAGACTCC	0.657													20	109					0	0	0.010504	0	0		T	113729379	T	T	113729379	3	4	45	1	0	0	0	0	1	0	0	0	9397	768	27	1	1492	1	MCF2L	13	113729379	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2399930	113729379	1440499	783	35162											
MCF2L	23263	broad.mit.edu	37	chr13	113748914	113748914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagattaactcgtccgacGcagaggaggacggcgggttg	10	6	16	9	5	0	2	0	0	0	2	2	5	1	4	1	4	2	3	1	4	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:113748914G>A	uc001vsu.2	+	27	3233	c.3211G>A	c.(3211-3213)GCA>ACA	p.A1071T	MCF2L_uc001vsq.2_Missense_Mutation_p.A1071T|MCF2L_uc010tjr.1_Missense_Mutation_p.A1014T|MCF2L_uc001vsr.2_Missense_Mutation_p.A1018T|MCF2L_uc010tjs.1_Missense_Mutation_p.A1012T	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	1044					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				CTCGTCCGACGCAGAGGAGGA	0.622													6	22					0	0	0.001984	0	0		A	113748914	A	A	113748914	3	1	45	1	0	0	0	0	1	0	0	0	9397	1087	38	1	3412	1	MCF2L	13	113748914	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	19535	113748914	1420964	784	35163											
F7	2155	broad.mit.edu	37	chr13	113768258	113768258	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcctccctgccttcgagggCcggaactgtgagacgcgtaa	7	8	13	13	4	0	1	0	1	0	1	2	4	1	2	4	2	3	1	4	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:113768258C>T	uc001vsv.2	+	5	465	c.414C>T	c.(412-414)GGC>GGT	p.G138G	F7_uc010agp.1_Silent_p.G131G|F7_uc001vsw.2_Silent_p.G116G|F7_uc010tjt.1_Silent_p.G69G	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	138	EGF-like 1; calcium-binding (Potential).		G -> D (in FA7D).		anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	CCTTCGAGGGCCGGAACTGTG	0.632													5	67					0	0	0.000602	0	0		T	113768258	T	T	113768258	2	4	45	1	0	0	0	0	0	0	0	1	5357	726	26	2		2	F7	13	113768258	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	19344	113768258	1401620	785	35164											
UPF3A	65110	broad.mit.edu	37	chr13	115048366	115048366	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttaggaatcctgatgaCatccttctttttagagatcg	11	16	7	7	1	1	3	0	2	1	1	4	5	3	4	2	1	0	0	2	1	4	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr13:115048366C>T	uc001vup.2	+	3	406	c.369C>T	c.(367-369)GAC>GAT	p.D123D	UPF3A_uc010tkn.1_Silent_p.D123D|UPF3A_uc001vuq.2_Silent_p.D123D|UPF3A_uc001vus.2_Intron|UPF3A_uc001vur.2_RNA	NM_023011	NP_075387	Q9H1J1	REN3A_HUMAN	UPF3 regulator of nonsense transcripts homolog A	123	Required for interaction with UPF2.				mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation	cytoplasm|nucleus|plasma membrane	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			skin(1)	1	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)	OV - Ovarian serous cystadenocarcinoma(48;0.195)|Epithelial(10;0.2)		ATCCTGATGACATCCTTCTTT	0.303													10	40					0	0	0.010729	0	0		T	115048366	T	T	115048366	2	4	45	1	0	0	0	0	0	0	0	1	17031	477	17	4		4	UPF3A	13	115048366	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1280108	115048366	121512	786	35165											
RPGRIP1	57096	broad.mit.edu	37	chr14	21813344	21813344	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctgaatggacaagatcCtgatcaaggacagtaagcat	15	8	10	8	0	1	3	1	2	0	1	2	5	2	5	1	2	2	3	1	2	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:21813344C>A	uc001wag.2	+	22	3605	c.3605C>A	c.(3604-3606)CCT>CAT	p.P1202H	RPGRIP1_uc001wah.2_Missense_Mutation_p.P844H|RPGRIP1_uc001wai.2_Missense_Mutation_p.P528H|RPGRIP1_uc001wak.2_Missense_Mutation_p.P677H|RPGRIP1_uc010aim.2_Missense_Mutation_p.P585H|RPGRIP1_uc001wal.2_Missense_Mutation_p.P561H|RPGRIP1_uc001wam.2_Missense_Mutation_p.P519H	NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	1202	Interaction with RPGR.				response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		GGACAAGATCCTGATCAAGGA	0.418													12	52					4.3838e-07	4.7314e-07	0.001855	1	0		A	21813344	A	A	21813344	3	1	45	1	0	0	0	0	1	0	0	0	13574	681	24	5	3691	5	RPGRIP1	14	21813344	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08		21813344	85536196	787	35166											
CHD8	57680	broad.mit.edu	37	chr14	21876666	21876666	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcaagaaggcaatggaCtgaatagttttgcccaatcc	12	10	9	10	0	0	2	0	1	0	1	2	3	2	3	3	2	2	3	3	2	6	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:21876666C>T	uc001was.1	-	13	1792	c.1698G>A	c.(1696-1698)CAG>CAA	p.Q566Q	CHD8_uc001war.1_Silent_p.Q462Q|CHD8_uc001wav.1_Silent_p.Q8Q	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	845	Helicase ATP-binding.				ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		AGGCAATGGACTGAATAGTTT	0.418													10	40					0	0	0.008291	0	0		T	21876666	T	T	21876666	2	4	45	1	0	0	0	0	0	0	0	1	3334	564	20	4		4	CHD8	14	21876666	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	63322	21876666	85472874	788	35167											
RBM23	55147	broad.mit.edu	37	chr14	23374320	23374320	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgtgaagcctgtacaaTgataggcactcccagcaacc	12	7	8	14	0	0	2	0	2	0	0	1	2	1	2	4	1	4	3	4	1	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:23374320T>C	uc001whg.2	-	8	908	c.709A>G	c.(709-711)ATT>GTT	p.I237V	RBM23_uc001whh.2_Missense_Mutation_p.I221V|RBM23_uc001whi.2_Missense_Mutation_p.I203V|RBM23_uc010tne.1_Missense_Mutation_p.I67V|RBM23_uc001whj.2_5'UTR|RBM23_uc001whk.1_Missense_Mutation_p.I237V	NM_001077351	NP_001070819	Q86U06	RBM23_HUMAN	RNA binding motif protein 23 isoform 1	237	RRM 1.				mRNA processing	nucleus	nucleotide binding|RNA binding			skin(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.0128)		GCCTGTACAATGATAGGCACT	0.527													16	72					0	0	0.012319	0	0		C	23374320	C	C	23374320	3	2	45	1	0	0	0	0	1	0	0	0	13148	1464	51	3	638	3	RBM23	14	23374320	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1497654	23374320	83975220	789	35168											
HAUS4	54930	broad.mit.edu	37	chr14	23416890	23416890	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agctcggattgagtcttcagCcggtgttcttgaagaagcct	8	12	12	9	2	3	3	1	2	2	1	4	4	3	4	2	2	3	2	2	2	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:23416890C>T	uc001whp.2	-	7	790	c.759G>A	c.(757-759)CGG>CGA	p.R253R	HAUS4_uc001who.2_RNA|HAUS4_uc001whq.2_Silent_p.R127R|HAUS4_uc001whr.2_Silent_p.R253R|HAUS4_uc001whs.2_Silent_p.R208R|HAUS4_uc001wht.2_Silent_p.R253R|HAUS4_uc001whu.2_Silent_p.R208R|HAUS4_uc001whv.2_Silent_p.R129R|HAUS4_uc001whw.2_Silent_p.R253R|HAUS4_uc001whx.2_Silent_p.R208R	NM_017815	NP_060285	Q9H6D7	HAUS4_HUMAN	HAUS augmin-like complex, subunit 4	253					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				ovary(1)	1						GAGTCTTCAGCCGGTGTTCTT	0.517													15	85					0	0	0.003163	0	0		T	23416890	T	T	23416890	2	4	45	1	0	0	0	0	0	0	0	1	6984	726	26	2		2	HAUS4	14	23416890	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	42570	23416890	83932650	790	35169											
MYH6	4624	broad.mit.edu	37	chr14	23868196	23868196	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccttgaaggtcatgtcagtGgccttggggaacatgcactc	8	10	13	10	0	2	1	2	1	0	0	3	2	2	2	2	4	2	1	2	4	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:23868196G>T	uc001wjv.2	-	15	1699	c.1632C>A	c.(1630-1632)GCC>GCA	p.A544A		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	544	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TCATGTCAGTGGCCTTGGGGA	0.557													15	78					4.7546e-09	5.22001e-09	0.004007	1	0		T	23868196	T	T	23868196	2	4	45	1	0	0	0	0	0	0	0	1	10056	1335	47	5		5	MYH6	14	23868196	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	451306	23868196	83481344	791	35170											
MYH7	4625	broad.mit.edu	37	chr14	23897852	23897852	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttctcgttggtgaagtTgatgcagagctgctcaaagc	9	11	12	9	1	2	3	1	2	1	1	3	3	2	3	0	1	5	6	0	1	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:23897852T>C	uc001wjx.2	-	15	1541	c.1435A>G	c.(1435-1437)AAC>GAC	p.N479D		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	479	Myosin head-like.		N -> S (in CMH1).		adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TTGGTGAAGTTGATGCAGAGC	0.547													15	53					0	0	0.004007	0	0		C	23897852	C	C	23897852	3	2	45	1	0	0	0	0	1	0	0	0	10057	1812	63	3	4476	3	MYH7	14	23897852	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	29656	23897852	83451688	792	35171											
GMPR2	51292	broad.mit.edu	37	chr14	24707977	24707977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatccaatcttcagtgaggCgtgctagacctgagcagttc	10	10	11	10	1	2	3	1	2	1	1	4	4	3	3	2	1	2	3	2	1	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:24707977C>T	uc001wnr.2	+	10	1422	c.1040C>T	c.(1039-1041)GCG>GTG	p.A347V	GMPR2_uc001wnv.2_Missense_Mutation_p.A184V|GMPR2_uc001wns.2_Missense_Mutation_p.A347V|GMPR2_uc001wnt.2_Missense_Mutation_p.A314V|GMPR2_uc001wnu.2_Missense_Mutation_p.A372V|GMPR2_uc001wnw.2_Missense_Mutation_p.A347V|GMPR2_uc010all.2_Missense_Mutation_p.A319V|GMPR2_uc001wnx.2_Missense_Mutation_p.A365V|GMPR2_uc010tod.1_Missense_Mutation_p.A314V|GMPR2_uc010alk.1_Missense_Mutation_p.A408V|GMPR2_uc010toe.1_Missense_Mutation_p.A408V	NM_001002001	NP_001002001	Q9P2T1	GMPR2_HUMAN	guanosine monophosphate reductase 2 isoform 2	347					nucleotide metabolic process|purine base metabolic process|purine-containing compound salvage	cytosol	GMP reductase activity|metal ion binding			ovary(3)	3				GBM - Glioblastoma multiforme(265;0.0181)		TTCAGTGAGGCGTGCTAGACC	0.542													7	45					0	0	0.001984	0	0		T	24707977	T	T	24707977	3	4	45	1	0	0	0	0	1	0	0	0	6512	768	27	1	1128	1	GMPR2	14	24707977	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	810125	24707977	82641563	793	35172											
CIDEB	27141	broad.mit.edu	37	chr14	24774855	24774855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccttagtaggaatggaggCggcccttctgctgccactgc	6	9	12	14	1	1	0	0	0	1	0	1	2	1	2	4	4	3	2	4	4	3	3	rs146066890		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:24774855C>T	uc001won.2	-	5	768	c.644G>A	c.(643-645)CGC>CAC	p.R215H	CIDEB_uc001woo.2_Missense_Mutation_p.R215H|CIDEB_uc001wop.2_Missense_Mutation_p.R215H	NM_014430	NP_055245	Q9UHD4	CIDEB_HUMAN	cell death-inducing DFFA-like effector b	215					apoptosis|DNA damage response, signal transduction resulting in induction of apoptosis	cytosol					0				GBM - Glioblastoma multiforme(265;0.0181)		GGAATGGAGGCGGCCCTTCTG	0.562													17	76					0	0	0.004007	0	0		T	24774855	T	T	24774855	3	4	45	1	0	0	0	0	1	0	0	0	3429	768	27	1	19	1	CIDEB	14	24774855	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	66878	24774855	82574685	794	35173											
CBLN3	643866	broad.mit.edu	37	chr14	24897594	24897594	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcccggtcaaagccaccGccctcgttcaccaggacctg	8	5	11	17	3	2	0	2	0	0	0	3	2	2	1	6	3	1	1	6	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:24897594G>A	uc001wpg.3	-	2	789	c.318C>T	c.(316-318)GGC>GGT	p.G106G	KHNYN_uc010tpc.1_5'Flank|KHNYN_uc001wph.3_5'Flank|KHNYN_uc010alw.2_5'Flank	NM_001039771	NP_001034860	Q6UW01	CBLN3_HUMAN	cerebellin 3 precursor	106	Necessary for interaction with CBLN3, and homotrimerization (By similarity).|C1q.					cell junction|extracellular region|synapse				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(265;0.00159)		CAAAGCCACCGCCCTCGTTCA	0.632													5	54					0	0	0.000602	0	0		A	24897594	A	A	24897594	2	1	45	1	0	0	0	0	0	0	0	1	2709	1074	38	1		1	CBLN3	14	24897594	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	122739	24897594	82451946	795	35174											
AKAP6	9472	broad.mit.edu	37	chr14	33293172	33293172	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttccatcaaaaagatgcCgaagattgttcagtacacaa	15	11	7	8	1	2	2	2	0	0	2	3	3	3	2	2	0	2	3	2	0	5	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:33293172C>T	uc001wrq.2	+	13	6323	c.6153C>T	c.(6151-6153)GCC>GCT	p.A2051A		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	2051					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		AAAAAGATGCCGAAGATTGTT	0.418													8	50					0	0	0.004482	0	0		T	33293172	T	T	33293172	2	4	45	1	0	0	0	0	0	0	0	1	455	639	23	1		1	AKAP6	14	33293172	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	8395578	33293172	74056368	796	35175											
PSMA6	5687	broad.mit.edu	37	chr14	35780051	35780051	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgtaaaagaattgccgAtatttctcaggtctacacac	12	12	8	9	1	2	1	1	0	2	1	3	2	2	1	1	1	2	2	1	1	5	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:35780051A>G	uc001wtd.2	+	4	468	c.359A>G	c.(358-360)GAT>GGT	p.D120G	KIAA0391_uc001wta.2_RNA|PSMA6_uc010tpt.1_Missense_Mutation_p.D41G|PSMA6_uc010tpu.1_Missense_Mutation_p.D41G	NM_002791	NP_002782	P60900	PSA6_HUMAN	proteasome alpha 6 subunit	120					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nuclear matrix|polysome|proteasome core complex, alpha-subunit complex|sarcomere	NF-kappaB binding|purine ribonucleoside triphosphate binding|RNA binding|threonine-type endopeptidase activity				0	Breast(36;0.0519)|Hepatocellular(127;0.158)		Lung(238;3.81e-05)|LUAD - Lung adenocarcinoma(48;5.59e-05)|Epithelial(34;0.00342)|all cancers(34;0.00973)	GBM - Glioblastoma multiforme(112;0.0234)		AGAATTGCCGATATTTCTCAG	0.418													3	94					0	0	0.009096	0	0		G	35780051	G	G	35780051	3	3	45	1	0	0	0	0	1	0	0	0	12693	333	12	3	373	3	PSMA6	14	35780051	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2486879	35780051	71569489	797	35176											
MIPOL1	145282	broad.mit.edu	37	chr14	37969313	37969313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acttcaacatgccagagaggCctcccaagtggccaatgaaa	14	6	9	12	0	1	2	1	1	0	1	2	3	2	2	4	2	2	0	4	2	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:37969313C>T	uc001wuc.2	+	13	1735	c.1232C>T	c.(1231-1233)GCC>GTC	p.A411V	MIPOL1_uc010amr.2_RNA|MIPOL1_uc001wub.3_Missense_Mutation_p.A380V|MIPOL1_uc001wud.2_Missense_Mutation_p.A411V|MIPOL1_uc010ams.2_Missense_Mutation_p.A411V|MIPOL1_uc001wue.2_Missense_Mutation_p.A380V|MIPOL1_uc010amt.2_Missense_Mutation_p.A230V	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	411	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		GCCAGAGAGGCCTCCCAAGTG	0.378													14	53					0	0	0.00245	0	0		T	37969313	T	T	37969313	3	4	45	1	0	0	0	0	1	0	0	0	9611	739	26	2	1270	2	MIPOL1	14	37969313	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2189262	37969313	69380227	798	35177											
C14orf106	55320	broad.mit.edu	37	chr14	45693641	45693641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgacagtaagtaagtcacGttcatcgcaatcttccttgt	10	14	8	9	2	3	1	2	1	1	0	5	1	4	1	1	0	0	5	1	0	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:45693641G>A	uc001wwf.2	-	11	2608	c.2149C>T	c.(2149-2151)CGT>TGT	p.R717C		NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	717					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						AGTAAGTCACGTTCATCGCAA	0.348													19	85					0	0	0.010504	0	0		A	45693641	A	A	45693641	3	1	45	1	0	0	0	0	1	0	0	0	1741	1145	40	1	1277	1	C14orf106	14	45693641	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	7724328	45693641	61655899	799	35178											
MGAT2	4247	broad.mit.edu	37	chr14	50088877	50088877	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggacctatagtgccagTcgcagtttctatggcatggc	7	11	13	10	1	1	0	0	0	1	0	2	1	1	1	2	4	1	3	2	4	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:50088877T>A	uc001wwr.2	+	1	1389	c.891T>A	c.(889-891)AGT>AGA	p.S297R	SDCCAG1_uc010anj.1_Intron|RPL36AL_uc001wwq.1_5'Flank	NM_002408	NP_002399	Q10469	MGAT2_HUMAN	mannosyl (alpha-1,6-)-glycoprotein	297	Lumenal (Potential).				oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	alpha-1,6-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity				0	all_epithelial(31;0.0021)|Breast(41;0.0124)					ATAGTGCCAGTCGCAGTTTCT	0.478													22	130					0	0	0.012319	0	0		A	50088877	A	A	50088877	3	1	45	1	0	0	0	0	1	0	0	0	9561	1664	58	5	893	5	MGAT2	14	50088877	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	4395236	50088877	57260663	800	35179											
SDCCAG1	9147	broad.mit.edu	37	chr14	50267299	50267299	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatgagctcctcatttagTtcatctctgccactctgaag	9	14	7	11	0	4	3	2	3	2	0	6	3	5	3	2	0	2	2	2	0	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:50267299T>C	uc001wxc.2	-	23	2279	c.2211A>G	c.(2209-2211)GAA>GAG	p.E737E	SDCCAG1_uc010anj.1_Silent_p.E737E|SDCCAG1_uc001wwz.2_5'Flank|SDCCAG1_uc001wxa.2_Silent_p.E17E|SDCCAG1_uc010tqi.1_Silent_p.E716E|SDCCAG1_uc001wxe.2_Silent_p.E695E|SDCCAG1_uc001wxd.1_Silent_p.E142E	NM_004713	NP_004704	O60524	NEMF_HUMAN	serologically defined colon cancer antigen 1	737						cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)		CCTCATTTAGTTCATCTCTGC	0.418													4	141					0	0	0.000602	0	0		C	50267299	C	C	50267299	2	2	45	1	0	0	0	0	0	0	0	1	13982	1722	60	3		3	SDCCAG1	14	50267299	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	178422	50267299	57082241	801	35180											
MAP4K5	11183	broad.mit.edu	37	chr14	50911877	50911877	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgatgctttttcttcatcCggaaagttgtcttcagggta	7	17	10	7	1	4	1	2	1	2	0	5	2	5	2	1	2	1	4	1	2	2	7	rs75696839	by1000genomes	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:50911877C>T	uc001wya.2	-	18	1541	c.1221G>A	c.(1219-1221)CCG>CCA	p.P407P	MAP4K5_uc001wyb.2_Silent_p.P407P|MAP4K5_uc010anv.1_Silent_p.P407P|MAP4K5_uc001wyc.1_Silent_p.P81P	NM_006575	NP_006566	Q9Y4K4	M4K5_HUMAN	mitogen-activated protein kinase kinase kinase	407					activation of JUN kinase activity	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(1)	1	all_epithelial(31;0.000415)|Breast(41;0.0102)					TTTCTTCATCCGGAAAGTTGT	0.418													7	28					0	0	0.00308	0	0		T	50911877	T	T	50911877	2	4	45	1	0	0	0	0	0	0	0	1	9281	639	23	1		1	MAP4K5	14	50911877	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	644578	50911877	56437663	802	35181											
NIN	51199	broad.mit.edu	37	chr14	51237224	51237224	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggatctgctctctctctTttcggagttcattttttaag	6	18	8	9	1	4	0	1	0	3	0	7	2	4	2	0	2	1	3	0	2	1	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:51237224T>C	uc001wym.2	-	12	1507	c.1316A>G	c.(1315-1317)AAA>AGA	p.K439R	NIN_uc001wyi.2_Missense_Mutation_p.K439R|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.K439R|NIN_uc010tqp.1_Missense_Mutation_p.K445R|NIN_uc001wyo.2_Missense_Mutation_p.K439R|NIN_uc001wyp.1_Missense_Mutation_p.K401R	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	439	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CTCTCTCTCTTTTCGGAGTTC	0.448			T	PDGFRB	MPD								5	108					0	0	0.001984	0	0		C	51237224	C	C	51237224	3	2	45	1	0	0	0	0	1	0	0	0	10436	1841	64	3	5313	3	NIN	14	51237224	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	325347	51237224	56112316	803	35182											
CDKN3	1033	broad.mit.edu	37	chr14	54886793	54886793	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcaagatctgtatcaagAtaaaggaattcaaatagcat	19	10	6	6	0	4	2	3	0	1	2	4	3	4	3	0	1	1	2	0	1	9	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:54886793A>G	uc001xap.2	+	8	750	c.636A>G	c.(634-636)AGA>AGG	p.R212R	CDKN3_uc001xar.2_Silent_p.R172R|CDKN3_uc001xaq.2_Silent_p.R211R|CDKN3_uc001xas.1_RNA|CDKN3_uc010aoj.1_RNA	NM_005192	NP_005183	Q16667	CDKN3_HUMAN	cyclin-dependent kinase inhibitor 3 isoform 1	212					cell cycle arrest|G1/S transition of mitotic cell cycle|negative regulation of cell proliferation|regulation of cyclin-dependent protein kinase activity	perinuclear region of cytoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0						CTGTATCAAGATAAAGGAATT	0.318													24	61					0	0	0.014323	0	0		G	54886793	G	G	54886793	2	3	45	1	0	0	0	0	0	0	0	1	3170	330	12	3		3	CDKN3	14	54886793	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	3649569	54886793	52462747	804	35183											
DAAM1	23002	broad.mit.edu	37	chr14	59821946	59821946	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagcagttgctggaggtggTtttggcatttggaaattata	10	14	13	4	0	0	0	0	0	0	0	0	2	0	2	0	5	2	5	0	5	4	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:59821946T>C	uc001xdz.1	+	21	2575	c.2450T>C	c.(2449-2451)GTT>GCT	p.V817A	DAAM1_uc001xea.1_Missense_Mutation_p.V807A|DAAM1_uc001xec.1_RNA	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of	817	FH2.				actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		CTGGAGGTGGTTTTGGCATTT	0.388													6	149					0	0	0.001984	0	0		C	59821946	C	C	59821946	3	2	45	1	0	0	0	0	1	0	0	0	4218	1725	60	3	2528	3	DAAM1	14	59821946	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	4935153	59821946	47527594	805	35184											
KCNH5	27133	broad.mit.edu	37	chr14	63269228	63269228	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaatcgaaaagcaggatgTtcattaaaaaccttccggtt	14	10	8	9	2	1	0	1	0	0	0	3	2	2	1	3	2	2	3	3	2	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:63269228T>G	uc001xfx.2	-	9	1692	c.1641A>C	c.(1639-1641)GAA>GAC	p.E547D	KCNH5_uc001xfy.2_Missense_Mutation_p.E547D|KCNH5_uc001xfz.1_Missense_Mutation_p.E489D	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	547	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		AAGCAGGATGTTCATTAAAAA	0.488													3	67					0	0	0.009096	0	0		G	63269228	G	G	63269228	3	3	45	1	0	0	0	0	1	0	0	0	8051	1722	60	5	1371	5	KCNH5	14	63269228	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	3447282	63269228	44080312	806	35185											
SYNE2	23224	broad.mit.edu	37	chr14	64519852	64519852	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagtactaaaagctcctgAtagctctccggaaagcagac	14	8	9	10	1	1	2	0	1	1	1	3	3	2	3	2	1	4	5	2	1	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:64519852A>G	uc001xgm.2	+	48	9451	c.9221A>G	c.(9220-9222)GAT>GGT	p.D3074G	SYNE2_uc001xgl.2_Missense_Mutation_p.D3074G|SYNE2_uc010apw.1_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3074	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AAAGCTCCTGATAGCTCTCCG	0.338													15	46					0	0	0.00499	0	0		G	64519852	G	G	64519852	3	3	45	1	0	0	0	0	1	0	0	0	15471	333	12	3	9407	3	SYNE2	14	64519852	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1250624	64519852	42829688	807	35186											
MTHFD1	4522	broad.mit.edu	37	chr14	64908801	64908801	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtttgtccatgctggcccGtttgccaacatcgcacatgg	6	12	11	12	2	0	0	0	0	0	0	2	0	1	0	3	2	3	4	3	2	1	2	rs143959060	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:64908801G>A	uc001xhb.2	+	20	2301	c.1914G>A	c.(1912-1914)CCG>CCA	p.P638P	MTHFD1_uc010aqf.2_Silent_p.P694P	NM_005956	NP_005947	P11586	C1TC_HUMAN	methylenetetrahydrofolate dehydrogenase 1	638	Formyltetrahydrofolate synthetase.				folic acid metabolic process|folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process	cytosol|mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|methylenetetrahydrofolate dehydrogenase|protein binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(108;8.7e-12)|all cancers(60;3.29e-11)|BRCA - Breast invasive adenocarcinoma(234;0.0488)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	ATGCTGGCCCGTTTGCCAACA	0.512													16	61					0	0	0.00499	0	0		A	64908801	A	A	64908801	2	1	45	1	0	0	0	0	0	0	0	1	9945	1132	40	1		1	MTHFD1	14	64908801	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	388949	64908801	42440739	808	35187											
ACTN1	87	broad.mit.edu	37	chr14	69358883	69358883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttctcctgcaccttgggcgGcttgtgcaggcgccggtagt	3	11	14	13	3	1	0	0	0	1	0	2	0	1	0	3	4	2	4	3	4	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:69358883G>A	uc001xkl.2	-	10	1283	c.973C>T	c.(973-975)CCG>TCG	p.P325S	ACTN1_uc010ttb.1_Missense_Mutation_p.P260S|ACTN1_uc001xkm.2_Missense_Mutation_p.P325S|ACTN1_uc001xkn.2_Missense_Mutation_p.P325S|ACTN1_uc001xko.1_Missense_Mutation_p.P260S|ACTN1_uc010ttd.1_Missense_Mutation_p.P304S	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	325	Spectrin 1.|Interaction with DDN.				focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		ACCTTGGGCGGCTTGTGCAGG	0.627													19	77					0	0	0.008871	0	0		A	69358883	A	A	69358883	3	1	45	1	0	0	0	0	1	0	0	0	204	1203	42	2	1823	2	ACTN1	14	69358883	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4450082	69358883	37990657	809	35188											
PCNX	22990	broad.mit.edu	37	chr14	71443908	71443908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggccgcgaggtgtaccacGgacttctagctctgctgtgg	5	9	14	13	4	2	0	0	0	2	0	2	2	2	1	3	4	3	3	3	4	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:71443908G>A	uc001xmo.2	+	6	1300	c.854G>A	c.(853-855)CGG>CAG	p.R285Q	PCNX_uc001xmn.3_Missense_Mutation_p.R285Q|PCNX_uc010are.1_Missense_Mutation_p.R285Q	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	285						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		GGTGTACCACGGACTTCTAGC	0.468													25	122					0	0	0.007291	0	0		A	71443908	A	A	71443908	3	1	45	1	0	0	0	0	1	0	0	0	11610	1116	39	1	876	1	PCNX	14	71443908	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2085025	71443908	35905632	810	35189											
FAM164C	79696	broad.mit.edu	37	chr14	75537988	75537988	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agattctcctgaggggaaagCtgaagaagacagaggaggaa	16	5	15	5	0	1	6	0	2	1	4	2	9	1	9	1	4	1	1	1	4	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:75537988C>T	uc001xri.2	+	2	885	c.712C>T	c.(712-714)CTG>TTG	p.L238L	FAM164C_uc001xrh.2_Silent_p.L238L	NM_001042430	NP_001035895	Q53FD0	F164C_HUMAN	chromosome 14 open reading frame 140 isoform b	238	Potential.									ovary(1)	1						GAGGGGAAAGCTGAAGAAGAC	0.498													13	67					0	0	0.013537	0	0		T	75537988	T	T	75537988	2	4	45	1	0	0	0	0	0	0	0	1	5490	796	28	2		2	FAM164C	14	75537988	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4094080	75537988	31811552	811	35190											
VASH1	22846	broad.mit.edu	37	chr14	77242266	77242266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagcatgcccaccctggagCgcttccccatcagcttcaag	9	7	8	17	1	2	0	2	0	0	0	3	1	3	1	4	1	4	3	4	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:77242266C>T	uc001xst.2	+	5	1492	c.562C>T	c.(562-564)CGC>TGC	p.R188C		NM_014909	NP_055724	Q7L8A9	VASH1_HUMAN	vasohibin 1	188					cell cycle arrest|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of endothelial cell proliferation	endoplasmic reticulum|extracellular space					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0283)		CACCCTGGAGCGCTTCCCCAT	0.632													4	13					0	0	0.009096	0	0		T	77242266	T	T	77242266	3	4	45	1	0	0	0	0	1	0	0	0	17151	768	27	1	580	1	VASH1	14	77242266	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1704278	77242266	30107274	812	35191											
POMT2	29954	broad.mit.edu	37	chr14	77745128	77745128	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggtggaagtagaggaccCggcccatcaggaaaaacggg	13	4	16	8	2	1	1	1	0	0	1	1	4	1	4	2	6	1	1	2	6	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:77745128C>T	uc001xti.2	-	19	2177	c.1976G>A	c.(1975-1977)CGG>CAG	p.R659Q	POMT2_uc001xth.1_Missense_Mutation_p.R357Q	NM_013382	NP_037514	Q9UKY4	POMT2_HUMAN	protein-O-mannosyltransferase 2	659	Helical; (Potential).				protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)		GTAGAGGACCCGGCCCATCAG	0.602													18	74					0	0	0.007413	0	0		T	77745128	T	T	77745128	3	4	45	1	0	0	0	0	1	0	0	0	12265	652	23	1	288	1	POMT2	14	77745128	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	502862	77745128	29604412	813	35192											
CALM1	801	broad.mit.edu	37	chr14	90870757	90870757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcagtgcagcagaactacGtcacgtcatgacaaacttag	14	9	8	10	2	3	2	3	1	0	1	3	2	3	2	0	0	5	2	0	0	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:90870757G>A	uc001xyl.1	+	5	522	c.320G>A	c.(319-321)CGT>CAT	p.R107H	CALM1_uc010atq.1_Missense_Mutation_p.R108H|CALM1_uc010atr.1_RNA|CALM1_uc001xym.1_Missense_Mutation_p.R71H	NM_006888	NP_008819	P62158	CALM_HUMAN	calmodulin 1 isoform 1	107	EF-hand 3.				activation of phospholipase C activity|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen catabolic process|muscle contraction|negative regulation of ryanodine-sensitive calcium-release channel activity|nerve growth factor receptor signaling pathway|nitric oxide metabolic process|platelet activation|platelet degranulation|positive regulation of ryanodine-sensitive calcium-release channel activity|regulation of cytokinesis|regulation of nitric-oxide synthase activity|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to calcium ion|synaptic transmission	centrosome|cytosol|extracellular region|nucleoplasm|plasma membrane|spindle microtubule|spindle pole	calcium ion binding|N-terminal myristoylation domain binding|phospholipase binding|protein domain specific binding|thioesterase binding|titin binding			central_nervous_system(1)	1		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.208)	Aprindine(DB01429)|Bepridil(DB01244)|Dibucaine(DB00527)|Felodipine(DB01023)|Flunarizine(DB04841)|Fluphenazine(DB00623)|Isoflurane(DB00753)|Loperamide(DB00836)|Miconazole(DB01110)|Perphenazine(DB00850)|Phenoxybenzamine(DB00925)|Pimozide(DB01100)|Promethazine(DB01069)	GCAGAACTACGTCACGTCATG	0.393													9	60					0	0	0.008291	0	0		A	90870757	A	A	90870757	3	1	45	1	0	0	0	0	1	0	0	0	2587	1145	40	1	338	1	CALM1	14	90870757	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	13125629	90870757	16478783	814	35193											
GPR68	8111	broad.mit.edu	37	chr14	91700767	91700767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggctccggcgcacggcgcGcaggatgccctggtaggacg	5	5	18	13	6	0	0	0	0	0	0	1	2	1	2	2	6	1	4	2	6	1	1	rs146326486		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:91700767G>A	uc001xzg.2	-	2	969	c.628C>T	c.(628-630)CGC>TGC	p.R210C	GPR68_uc001xzh.2_Missense_Mutation_p.R220C	NM_003485	NP_003476	Q15743	OGR1_HUMAN	G protein-coupled receptor 68	210	Cytoplasmic (Potential).				inflammatory response	integral to plasma membrane	G-protein coupled receptor activity			kidney(1)	1		all_cancers(154;0.0555)		COAD - Colon adenocarcinoma(157;0.21)		CGCACGGCGCGCAGGATGCCC	0.667													4	17					0	0	0.000602	0	0		A	91700767	A	A	91700767	3	1	45	1	0	0	0	0	1	0	0	0	6722	1087	38	1	473	1	GPR68	14	91700767	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	830010	91700767	15648773	815	35194											
FAM181A	90050	broad.mit.edu	37	chr14	94394712	94394712	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaggcagccctggataaGtccgcaccctgccgccgctc	8	6	10	17	3	1	0	1	0	0	0	3	1	2	1	5	2	2	3	5	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:94394712G>A	uc001ybz.1	+	3	574	c.267G>A	c.(265-267)AAG>AAA	p.K89K	C14orf86_uc001yby.2_5'Flank|FAM181A_uc010aus.1_Silent_p.K27K|FAM181A_uc001yca.1_Silent_p.K27K	NM_138344	NP_612353	Q8N9Y4	F181A_HUMAN	hypothetical protein LOC90050	89											0						CCCTGGATAAGTCCGCACCCT	0.622													11	44					0	0	0.008291	0	0		A	94394712	A	A	94394712	2	1	45	1	0	0	0	0	0	0	0	1	5519	1020	36	4		4	FAM181A	14	94394712	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2693945	94394712	12954828	816	35195											
SERPINA9	327657	broad.mit.edu	37	chr14	94933480	94933480	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggctccactttctcagtgTtctggctgacaaggcctgtt	5	14	11	11	0	2	1	1	1	2	0	4	1	3	1	2	3	0	4	2	3	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:94933480T>C	uc001ydf.2	-	3	1083	c.922A>G	c.(922-924)ACA>GCA	p.T308A	SERPINA9_uc001yde.2_Missense_Mutation_p.T208A|SERPINA9_uc010avc.2_Missense_Mutation_p.T159A|SERPINA9_uc001ydg.2_Missense_Mutation_p.T272A|SERPINA9_uc001ydh.1_Missense_Mutation_p.T308A|SERPINA9_uc001ydi.1_Missense_Mutation_p.T272A	NM_175739	NP_783866	Q86WD7	SPA9_HUMAN	serine (or cysteine) proteinase inhibitor, clade	290					regulation of proteolysis	cytoplasm|extracellular region|membrane	serine-type endopeptidase inhibitor activity			lung(1)|central_nervous_system(1)	2		all_cancers(154;0.0691)|all_epithelial(191;0.233)		Epithelial(152;0.144)|COAD - Colon adenocarcinoma(157;0.224)|all cancers(159;0.24)		TTTCTCAGTGTTCTGGCTGAC	0.537													11	70					0	0	0.004007	0	0		C	94933480	C	C	94933480	3	2	45	1	0	0	0	0	1	0	0	0	14120	1725	60	3	397	3	SERPINA9	14	94933480	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	538768	94933480	12416060	817	35196											
GSC	145258	broad.mit.edu	37	chr14	95234924	95234924	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacttctccgcgttctcCgactcctctgatgaggaccg	5	12	8	16	4	3	2	0	2	3	0	7	4	5	3	5	1	0	1	5	1	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:95234924C>A	uc001ydu.2	-	3	825	c.678G>T	c.(676-678)TCG>TCT	p.S226S		NM_173849	NP_776248	P56915	GSC_HUMAN	goosecoid	226					gastrulation|middle ear morphogenesis		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(154;0.0896)|all_epithelial(191;0.219)		COAD - Colon adenocarcinoma(157;0.202)|Epithelial(152;0.239)		CCGCGTTCTCCGACTCCTCTG	0.562													30	156					1.08312e-15	1.23158e-15	0.009535	1	0		A	95234924	A	A	95234924	2	1	45	1	0	0	0	0	0	0	0	1	6830	639	23	5		5	GSC	14	95234924	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	301444	95234924	12114616	818	35197											
KLC1	3831	broad.mit.edu	37	chr14	104135937	104135937	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcaaagatcatcctgcggTttgtatatccagttctttca	9	14	9	9	1	3	1	2	0	1	1	5	1	5	1	2	2	1	4	2	2	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:104135937T>G	uc001yno.2	+	6	1193	c.885_splice	c.e6+2	p.A295_splice	KLC1_uc010tyd.1_Splice_Site_p.A454_splice|KLC1_uc010tye.1_Splice_Site_p.A291_splice|KLC1_uc001ynm.1_Splice_Site_p.A295_splice|KLC1_uc001ynn.1_Splice_Site_p.A289_splice|KLC1_uc010tyf.1_Splice_Site_p.A295_splice	NM_182923	NP_891553	Q07866	KLC1_HUMAN	kinesin light chain 1 isoform 2						blood coagulation|microtubule-based movement|stress granule disassembly	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0		Melanoma(154;0.155)|all_epithelial(191;0.19)				CATCCTGCGGTTTGTATATCC	0.333													14	78					0	0	0.00245	0	0		G	104135937	G	G	104135937	5	3	45	1	0	0	0	0	0	0	1	0	8349	1739	60	5	905	5	KLC1	14	104135937	Splice_Site	SNP	T	TCGA-BR-6852-01A-11D-1882-08	8901013	104135937	3213603	819	35198											
INF2	64423	broad.mit.edu	37	chr14	105169515	105169515	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgtgcatctactctccCgagggccacgtgctgaccct	5	9	10	17	2	2	1	0	1	2	0	3	2	2	1	4	1	3	2	4	1	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:105169515C>T	uc001ypb.2	+	3	608	c.465C>T	c.(463-465)CCC>CCT	p.P155P	INF2_uc010tyi.1_Silent_p.P155P|INF2_uc001ypc.2_Silent_p.P155P|INF2_uc001yoy.3_Silent_p.P155P|INF2_uc001ypa.2_Silent_p.P155P	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	155	GBD/FH3.				actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)		TCTACTCTCCCGAGGGCCACG	0.657													10	61					0	0	0.010729	0	0		T	105169515	T	T	105169515	2	4	45	1	0	0	0	0	0	0	0	1	7750	639	23	1		1	INF2	14	105169515	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1033578	105169515	2180025	820	35199											
AKT1	207	broad.mit.edu	37	chr14	105246551	105246551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccgccaggtcttgatgtactCccctacagacgtgcgggtgg	6	9	13	13	3	1	2	0	1	1	1	2	2	2	2	4	3	3	1	4	3	2	3	rs34409589		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr14:105246551C>T	uc001ypk.2	-	3	603	c.49G>A	c.(49-51)GAG>AAG	p.E17K	INF2_uc010tyi.1_Intron|AKT1_uc001ypl.2_Missense_Mutation_p.E17K|AKT1_uc010axa.2_Missense_Mutation_p.E17K|AKT1_uc001ypm.2_Missense_Mutation_p.E17K|AKT1_uc001ypn.2_Missense_Mutation_p.E17K|AKT1_uc010tyk.1_5'Flank	NM_005163	NP_005154	P31749	AKT1_HUMAN	AKT1 kinase	17	PH.		E -> K (in breast cancer; also detected in colorectal and ovarian cancer; somatic mutation; alters the PH domain conformation; results in activation of the protein; alters the subcellular location of the protein to the plasma membrane).	E->K: Increase in basal ubiquitination, phosphorylation at T-308 and important increase in membrane recruitment. Decrease in ubiquitination, phosphorylation at T-308 as well as impaired association with the membrane; when associated with R-8.	activation of pro-apoptotic gene products|activation-induced cell death of T cells|endocrine pancreas development|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen biosynthetic process|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|mRNA metabolic process|negative regulation of fatty acid beta-oxidation|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|nitric oxide biosynthetic process|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of blood vessel endothelial cell migration|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of establishment of protein localization in plasma membrane|positive regulation of fat cell differentiation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|positive regulation of nitric oxide biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|protein autophosphorylation|protein import into nucleus, translocation|regulation of neuron projection development|regulation of translation|response to fluid shear stress|response to heat|response to UV-A|T cell costimulation	cytosol|nucleoplasm|plasma membrane	enzyme binding|identical protein binding|nitric-oxide synthase regulator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein serine/threonine kinase activity	p.E17K(126)		breast(86)|urinary_tract(12)|thyroid(10)|lung(7)|endometrium(5)|large_intestine(4)|skin(4)|prostate(3)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|NS(1)	134		all_cancers(154;3.77e-06)|all_lung(585;3.24e-07)|all_epithelial(191;3.45e-05)|all_neural(303;0.0459)|Melanoma(154;0.155)	all cancers(16;0.000486)|OV - Ovarian serous cystadenocarcinoma(23;0.00647)|Epithelial(46;0.0153)|GBM - Glioblastoma multiforme(11;0.116)	all cancers(159;0.0107)|OV - Ovarian serous cystadenocarcinoma(161;0.0132)|Epithelial(152;0.243)	Adenosine triphosphate(DB00171)|Arsenic trioxide(DB01169)	TTGATGTACTCCCCTACAGAC	0.612	E17K(KU1919_URINARY_TRACT)	1	Mis		breast|colorectal|ovarian|NSCLC								6	37					0	0	0.001168	0	0		T	105246551	T	T	105246551	3	4	45	1	0	0	0	0	1	0	0	0	478	864	30	4	1441	4	AKT1	14	105246551	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	77036	105246551	2102989	821	35200											
NDN	4692	broad.mit.edu	37	chr15	23931740	23931740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcagcacgttccagacggCgctctctctggcgccgcggc	4	6	14	17	7	2	1	0	0	2	1	4	1	3	1	2	3	1	4	2	3	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:23931740C>T	uc001ywk.2	-	1	711	c.625G>A	c.(625-627)GCC>ACC	p.A209T		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	209	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		TTCCAGACGGCGCTCTCTCTG	0.637									Prader-Willi_syndrome				6	37					0	0	0.001168	0	0		T	23931740	T	T	23931740	3	4	45	1	0	0	0	0	1	0	0	0	10266	768	27	1	344	1	NDN	15	23931740	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08		23931740	78599652	822	35201											
C15orf2	23742	broad.mit.edu	37	chr15	24923868	24923868	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcagagttaacatcaccaTatactgcattgggcacacct	12	11	7	11	0	1	1	1	0	0	1	1	1	1	1	2	1	4	4	2	1	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:24923868T>C	uc001ywo.2	+	1	3328	c.2854T>C	c.(2854-2856)TAT>CAT	p.Y952H		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	952					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		AACATCACCATATACTGCATT	0.483													3	88					0	0	0.004672	0	0		C	24923868	C	C	24923868	3	2	45	1	0	0	0	0	1	0	0	0	1787	1406	49	3	2856	3	C15orf2	15	24923868	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	992128	24923868	77607524	823	35202											
ATP10A	57194	broad.mit.edu	37	chr15	25926148	25926148	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggccaacttaccaggtaaGgaatggaaaagcaaaccagg	16	4	13	8	0	0	0	0	0	0	0	0	2	0	2	3	6	4	2	3	6	7	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:25926148G>T	uc010ayu.2	-	18	3672	c.3566C>A	c.(3565-3567)CCT>CAT	p.P1189H		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1189	Helical; (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TACCAGGTAAGGAATGGAAAA	0.527													9	68					1.12685e-05	1.19958e-05	0.004482	1	0		T	25926148	T	T	25926148	3	4	45	1	0	0	0	0	1	0	0	0	1117	1000	35	5	949	5	ATP10A	15	25926148	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1002280	25926148	76605244	824	35203											
SLC12A6	9990	broad.mit.edu	37	chr15	34543198	34543198	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcctaagacatcagaaGatttggctgaaggcttttcg	11	11	11	8	1	1	4	1	1	0	3	2	4	1	4	1	2	2	3	1	2	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:34543198G>T	uc001zhw.2	-	10	1558	c.1394C>A	c.(1393-1395)TCT>TAT	p.S465Y	SLC12A6_uc001zhv.2_Missense_Mutation_p.S414Y|SLC12A6_uc001zhx.2_Missense_Mutation_p.S450Y|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.S406Y|SLC12A6_uc001zib.2_Missense_Mutation_p.S456Y|SLC12A6_uc001zic.2_Missense_Mutation_p.S465Y|SLC12A6_uc010bau.2_Missense_Mutation_p.S465Y|SLC12A6_uc001zid.2_Missense_Mutation_p.S406Y|SLC12A6_uc001zht.2_5'Flank|SLC12A6_uc001zhu.2_Missense_Mutation_p.S277Y	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	465	Cytoplasmic (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	GACATCAGAAGATTTGGCTGA	0.438													15	68					1.02788e-11	1.14645e-11	0.00499	1	0		T	34543198	T	T	34543198	3	4	45	1	0	0	0	0	1	0	0	0	14412	942	33	5	2122	5	SLC12A6	15	34543198	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	8617050	34543198	67988194	825	35204											
THBS1	7057	broad.mit.edu	37	chr15	39874463	39874463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccgcaaggggtctgggcGccgactggtgaagggccccg	5	4	18	14	5	1	1	0	1	1	0	1	2	1	1	4	5	0	1	4	5	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:39874463G>A	uc001zkh.2	+	3	316	c.137G>A	c.(136-138)CGC>CAC	p.R46H		NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	46	TSP N-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	GGGTCTGGGCGCCGACTGGTG	0.597													12	73					0	0	0.003163	0	0		A	39874463	A	A	39874463	3	1	45	1	0	0	0	0	1	0	0	0	15878	1087	38	1	143	1	THBS1	15	39874463	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5331265	39874463	62656929	826	35205											
GCHFR	2644	broad.mit.edu	37	chr15	41059498	41059498	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggggcttccgtgtgctgaGcatgacgggggtgggccaga	6	7	19	9	2	0	3	0	2	0	1	1	3	1	3	2	5	2	3	2	5	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:41059498G>T	uc001zmr.1	+	3	300	c.206G>T	c.(205-207)AGC>ATC	p.S69I	GCHFR_uc010ucr.1_Missense_Mutation_p.S58I|C15orf62_uc010bby.2_5'Flank	NM_005258	NP_005249	P30047	GFRP_HUMAN	GTP cyclohydrolase I feedback regulatory	69					negative regulation of biosynthetic process|neurotransmitter metabolic process|nitric oxide biosynthetic process	cytosol|dendrite|melanosome|nuclear membrane				ovary(1)	1		all_cancers(109;3.3e-18)|all_epithelial(112;2.33e-15)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;2.58e-05)|COAD - Colon adenocarcinoma(120;0.149)|BRCA - Breast invasive adenocarcinoma(123;0.163)		CGTGTGCTGAGCATGACGGGG	0.602													17	131					1.15088e-07	1.24597e-07	0.004007	1	0		T	41059498	T	T	41059498	3	4	45	1	0	0	0	0	1	0	0	0	6307	971	34	5	216	5	GCHFR	15	41059498	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1185035	41059498	61471894	827	35206											
VPS18	57617	broad.mit.edu	37	chr15	41192607	41192607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccttcctcagcagccccCgccacaaagagtggctcttt	9	8	8	16	1	2	1	1	0	1	1	3	2	3	1	5	1	3	2	5	1	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:41192607C>T	uc001zne.2	+	4	1930	c.1591C>T	c.(1591-1593)CGC>TGC	p.R531C		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	531					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		CAGCAGCCCCCGCCACAAAGA	0.587													36	118					0	0	0.007835	0	0		T	41192607	T	T	41192607	3	4	45	1	0	0	0	0	1	0	0	0	17220	652	23	1	1605	1	VPS18	15	41192607	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	133109	41192607	61338785	828	35207											
RTF1	23168	broad.mit.edu	37	chr15	41769454	41769454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggcagaggccctggaccGccagcggaccaagaacatat	12	3	13	13	3	0	2	0	0	0	2	0	4	0	4	4	4	2	1	4	4	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:41769454G>A	uc001zny.2	+	13	1664	c.1652G>A	c.(1651-1653)CGC>CAC	p.R551H		NM_015138	NP_055953	Q92541	RTF1_HUMAN	Paf1/RNA polymerase II complex component	551	Potential.				histone modification|regulation of transcription, DNA-dependent|transcription initiation, DNA-dependent	nucleoplasm	protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(109;1.79e-19)|all_epithelial(112;8.18e-17)|Lung NSC(122;3.16e-11)|all_lung(180;8.14e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;1.15e-16)|GBM - Glioblastoma multiforme(113;1.81e-06)|BRCA - Breast invasive adenocarcinoma(123;0.119)		GCCCTGGACCGCCAGCGGACC	0.542													5	205					0	0	0.001168	0	0		A	41769454	A	A	41769454	3	1	45	1	0	0	0	0	1	0	0	0	13746	1087	38	1	1702	1	RTF1	15	41769454	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	576847	41769454	60761938	829	35208											
MGA	23269	broad.mit.edu	37	chr15	42040995	42040995	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcggatggtcttgcagccTgttaggagtccaagtggaat	9	11	13	8	1	1	0	0	0	1	0	3	3	2	3	2	4	2	2	2	4	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:42040995T>C	uc010ucy.1	+	16	5554	c.5373T>C	c.(5371-5373)CCT>CCC	p.P1791P	MGA_uc010ucz.1_Silent_p.P1582P|MGA_uc010uda.1_Silent_p.P407P|MGA_uc001zoi.2_Silent_p.P5P	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		TCTTGCAGCCTGTTAGGAGTC	0.498													5	90					0	0	0.000602	0	0		C	42040995	C	C	42040995	2	2	45	1	0	0	0	0	0	0	0	1	9558	1567	55	3		3	MGA	15	42040995	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	271541	42040995	60490397	830	35209											
MGA	23269	broad.mit.edu	37	chr15	42041014	42041014	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgttaggagtccaagtggaAtgaacttattcaggcaccct	11	11	10	9	0	1	1	1	1	0	0	2	3	2	3	2	3	1	2	2	3	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:42041014A>G	uc010ucy.1	+	16	5573	c.5392A>G	c.(5392-5394)ATG>GTG	p.M1798V	MGA_uc010ucz.1_Missense_Mutation_p.M1589V|MGA_uc010uda.1_Missense_Mutation_p.M414V|MGA_uc001zoi.2_Missense_Mutation_p.M12V	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		TCCAAGTGGAATGAACTTATT	0.493													20	78					0	0	0.008871	0	0		G	42041014	G	G	42041014	3	3	45	1	0	0	0	0	1	0	0	0	9558	101	4	3	5450	3	MGA	15	42041014	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	19	42041014	60490378	831	35210											
MAPKBP1	23005	broad.mit.edu	37	chr15	42110261	42110261	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtttaaagggtcacagggTgaggacggcacactcattaa	12	9	12	8	1	2	1	2	1	0	0	2	2	2	2	0	4	0	2	0	4	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:42110261T>C	uc001zok.3	+	18	2263	c.1977T>C	c.(1975-1977)GGT>GGC	p.G659G	MAPKBP1_uc001zoj.3_Silent_p.G653G|MAPKBP1_uc010bcj.2_Silent_p.G160G|MAPKBP1_uc010bci.2_Silent_p.G653G|MAPKBP1_uc010udb.1_Silent_p.G492G|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_Silent_p.G160G	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	659	WD 11.									central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		GGTCACAGGGTGAGGACGGCA	0.527													25	152					0	0	0.005443	0	0		C	42110261	C	C	42110261	2	2	45	1	0	0	0	0	0	0	0	1	9310	1683	59	3		3	MAPKBP1	15	42110261	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	69247	42110261	60421131	832	35211											
PLA2G4D	283748	broad.mit.edu	37	chr15	42364044	42364044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagaactcggagccgaagaGctcaggagggacgaaggccc	13	2	16	10	3	1	2	1	0	0	2	2	8	1	5	2	4	3	1	2	4	4	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:42364044G>A	uc001zox.2	-	15	1596	c.1501C>T	c.(1501-1503)CTC>TTC	p.L501F		NM_178034	NP_828848	Q86XP0	PA24D_HUMAN	phospholipase A2, group IVD	501	PLA2c.				phospholipid catabolic process	cytoplasmic vesicle membrane|cytosol	metal ion binding|phospholipase A2 activity			large_intestine(1)|skin(1)	2		all_cancers(109;6.37e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.019)|Ovarian(310;0.143)|Colorectal(260;0.245)		OV - Ovarian serous cystadenocarcinoma(18;4.9e-17)|GBM - Glioblastoma multiforme(94;1.02e-06)		GAGCCGAAGAGCTCAGGAGGG	0.607													5	59					0	0	0.000602	0	0		A	42364044	A	A	42364044	3	1	45	1	0	0	0	0	1	0	0	0	12023	971	34	2	979	2	PLA2G4D	15	42364044	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	253783	42364044	60167348	833	35212											
TMEM87A	25963	broad.mit.edu	37	chr15	42529648	42529648	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accagattctcctttgtatcGgatattctgaaattccgcat	10	15	6	10	2	2	2	0	1	2	1	5	3	3	3	3	1	0	2	3	1	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:42529648G>A	uc010udd.1	-	9	1009	c.850C>T	c.(850-852)CGA>TGA	p.R284*	TMEM87A_uc001zpf.3_Nonsense_Mutation_p.R223*|TMEM87A_uc010bcu.1_Nonsense_Mutation_p.R223*	NM_015497	NP_056312	Q8NBN3	TM87A_HUMAN	transmembrane protein 87A isoform 1	284						integral to membrane				ovary(1)	1		all_cancers(109;4.28e-16)|all_epithelial(112;1.04e-14)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;1.03e-06)		CCTTTGTATCGGATATTCTGA	0.418													13	57					0	0	0.00245	0	0		A	42529648	A	A	42529648	4	1	45	1	0	0	0	0	0	1	0	0	16235	1124	39	1	865	1	TMEM87A	15	42529648	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	165604	42529648	60001744	834	35213											
CDAN1	146059	broad.mit.edu	37	chr15	43025362	43025362	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggtgatcttcccactctcGcagcacctcataaaacacat	12	10	5	14	1	3	1	1	1	2	0	5	1	4	1	2	1	2	2	2	1	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:43025362G>A	uc001zql.2	-	9	1507	c.1390C>T	c.(1390-1392)CGA>TGA	p.R464*	CDAN1_uc001zqj.2_5'Flank|CDAN1_uc001zqk.2_5'UTR|CDAN1_uc010bcx.1_RNA	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	464						integral to membrane	protein binding			ovary(2)	2		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		TCCCACTCTCGCAGCACCTCA	0.547													20	88					0	0	0.014323	0	0		A	43025362	A	A	43025362	4	1	45	1	0	0	0	0	0	1	0	0	3057	1095	38	1	2373	1	CDAN1	15	43025362	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	495714	43025362	59506030	835	35214											
EPB42	2038	broad.mit.edu	37	chr15	43502556	43502556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacccaacacacgggccaCgtgcaccggctggctccact	8	4	11	18	3	0	0	0	0	0	0	1	0	1	0	4	4	2	4	4	4	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:43502556C>T	uc001zra.3	-	5	931	c.631G>A	c.(631-633)GTG>ATG	p.V211M	EPB42_uc001zqz.3_5'Flank|EPB42_uc010bde.2_Missense_Mutation_p.V56M|EPB42_uc001zrb.3_Missense_Mutation_p.V241M|EPB42_uc010udm.1_Missense_Mutation_p.V133M	NM_001114134	NP_001107606	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2 isoform 2	211					erythrocyte maturation|peptide cross-linking|regulation of cell shape	cytoplasm|cytoskeleton|plasma membrane	ATP binding|protein binding|protein-glutamine gamma-glutamyltransferase activity|structural constituent of cytoskeleton			ovary(2)	2		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		ACACGGGCCACGTGCACCGGC	0.597													6	217					0	0	0.001984	0	0		T	43502556	T	T	43502556	3	4	45	1	0	0	0	0	1	0	0	0	5166	536	19	1	1480	1	EPB42	15	43502556	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	477194	43502556	59028836	836	35215											
ZSCAN29	146050	broad.mit.edu	37	chr15	43662097	43662097	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccattctctcttagagcTgatttggccatcattaatag	9	15	8	9	0	3	2	1	1	2	1	4	2	3	2	2	1	2	1	2	1	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:43662097T>C	uc001zrk.1	-	1	162	c.15A>G	c.(13-15)TCA>TCG	p.S5S	ZSCAN29_uc001zrj.1_5'Flank|ZSCAN29_uc010bdf.1_Silent_p.S4S|ZSCAN29_uc001zrl.1_RNA|ZSCAN29_uc010bdg.1_Silent_p.S4S|ZSCAN29_uc001zrm.2_Silent_p.S4S|TUBGCP4_uc001zrn.2_5'Flank|TUBGCP4_uc001zro.2_5'Flank	NM_152455	NP_689668	Q8IWY8	ZSC29_HUMAN	zinc finger protein 690	5					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.97e-07)		CTCTTAGAGCTGATTTGGCCA	0.522													21	118					0	0	0.012319	0	0		C	43662097	C	C	43662097	2	2	45	1	0	0	0	0	0	0	0	1	18261	1567	55	3		3	ZSCAN29	15	43662097	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	159541	43662097	58869295	837	35216											
MAP1A	4130	broad.mit.edu	37	chr15	43814941	43814941	+	Frame_Shift_Del	DEL	A	-	-																															acaaggagaaaaaagagatcAaaaaggagaggaaagagctc																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:43814941delA	uc001zrt.2	+	4	1737	c.1270delA	c.(1270-1272)AAAfs	p.K424fs		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	424	Lys-rich (basic).|9 X 3 AA repeats of K-K-[DE].			K -> P (in Ref. 1; AAB41132/AAB41133).		cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	aaaagagatcaaaaaggagag	0.174													4	5	---	---	---	---						.	-	43814941	-	-	43814941	7	5	45	1	0	1	0	1	0	0	0	0	9245	131	5	0	1272	0	MAP1A	15	43814941	Frame_Shift_Del	DEL	A	TCGA-BR-6852-01A-11D-1882-08	152844	43814941	58716451	838	35217											
B2M	567	broad.mit.edu	37	chr15	45007851	45007851	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaaaagatgagtatgccTgccgtgtgaaccatgtgact	12	10	11	8	1	0	5	0	4	0	1	0	5	0	5	3	0	3	1	3	0	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:45007851T>G	uc001zuc.2	+	2	358	c.298T>G	c.(298-300)TGC>GGC	p.C100G	B2M_uc010uek.1_Missense_Mutation_p.C100G|B2M_uc010bdx.1_Silent_p.P72P	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor	100	Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding			ovary(2)|skin(1)	3		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		TGAGTATGCCTGCCGTGTGAA	0.418													4	129					0	0	0.001168	0	0		G	45007851	G	G	45007851	3	3	45	1	0	0	0	0	1	0	0	0	1245	1580	55	5	304	5	B2M	15	45007851	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1192910	45007851	57523541	839	35218											
SLC28A2	9153	broad.mit.edu	37	chr15	45556153	45556153	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccaaaggccagagcagcTgatcccctttgcaggaatct	11	7	10	13	0	1	2	0	1	1	1	2	3	2	3	4	2	4	3	4	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:45556153T>C	uc001zva.2	+	6	586	c.521T>C	c.(520-522)CTG>CCG	p.L174P		NM_004212	NP_004203	O43868	S28A2_HUMAN	solute carrier family 28 (sodium-coupled	174	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		CCAGAGCAGCTGATCCCCTTT	0.498													21	92					0	0	0.008871	0	0		C	45556153	C	C	45556153	3	2	45	1	0	0	0	0	1	0	0	0	14557	1580	55	3	539	3	SLC28A2	15	45556153	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	548302	45556153	56975239	840	35219											
SPATA5L1	79029	broad.mit.edu	37	chr15	45706832	45706832	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgggcctgacacaaccaaagGgagttctcctctatgggccc	9	8	11	13	0	2	1	0	1	2	0	3	2	2	2	4	3	1	1	4	3	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:45706832G>T	uc001zve.2	+	4	1607	c.1498G>T	c.(1498-1500)GGA>TGA	p.G500*	SPATA5L1_uc001zvf.2_RNA	NM_024063	NP_076968	Q9BVQ7	SPA5L_HUMAN	spermatogenesis associated 5-like 1	500						cytoplasm	ATP binding|nucleoside-triphosphatase activity			ovary(3)|skin(1)	4		Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;7.31e-17)|GBM - Glioblastoma multiforme(94;6.28e-07)		ACAACCAAAGGGAGTTCTCCT	0.483													18	56					1.67942e-08	1.83518e-08	0.006122	1	0		T	45706832	T	T	45706832	4	4	45	1	0	0	0	0	0	1	0	0	15037	1233	43	5	1512	5	SPATA5L1	15	45706832	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	150679	45706832	56824560	841	35220											
FBN1	2200	broad.mit.edu	37	chr15	48773959	48773959	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggcagatatttggattcAggtcacactcattgacatct	11	14	8	8	0	4	2	3	1	1	1	4	3	4	3	0	3	0	1	0	3	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:48773959A>G	uc001zwx.1	-	32	4185	c.3857T>C	c.(3856-3858)CTG>CCG	p.L1286P		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1286	EGF-like 21; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		ATTTGGATTCAGGTCACACTC	0.378													3	123					0	0	0.004672	0	0		G	48773959	G	G	48773959	3	3	45	1	0	0	0	0	1	0	0	0	5716	188	7	3	4898	3	FBN1	15	48773959	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	3067127	48773959	53757433	842	35221											
CYP19A1	1588	broad.mit.edu	37	chr15	51514600	51514600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgtccagcatgacacgacGcagaagggtcaacacgtcca	12	5	12	12	3	1	2	1	1	0	1	3	3	3	2	2	2	2	2	2	2	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:51514600G>A	uc001zyz.3	-	6	825	c.574C>T	c.(574-576)CGT>TGT	p.R192C	CYP19A1_uc001zza.3_Missense_Mutation_p.R192C|CYP19A1_uc001zzb.2_Missense_Mutation_p.R192C|CYP19A1_uc001zzd.2_Missense_Mutation_p.R192C|CYP19A1_uc010bey.1_Missense_Mutation_p.R192C	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	192					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	ATGACACGACGCAGAAGGGTC	0.493													4	90					0	0	0.009096	0	0		A	51514600	A	A	51514600	3	1	45	1	0	0	0	0	1	0	0	0	4151	1087	38	1	961	1	CYP19A1	15	51514600	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2740641	51514600	51016792	843	35222											
GLDN	342035	broad.mit.edu	37	chr15	51634172	51634172	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaacaagcgcagccacagCggcgagcccgcgccgcatat	10	2	12	17	7	0	0	0	0	0	0	0	1	0	0	3	1	5	3	3	1	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:51634172C>T	uc002aba.2	+	1	460	c.291C>T	c.(289-291)AGC>AGT	p.S97S	GLDN_uc010bez.1_Silent_p.S97S	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	97	Extracellular (Potential).				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		GCAGCCACAGCGGCGAGCCCG	0.701													11	53					0	0	0.008291	0	0		T	51634172	T	T	51634172	2	4	45	1	0	0	0	0	0	0	0	1	6449	767	27	1		1	GLDN	15	51634172	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	119572	51634172	50897220	844	35223											
MAPK6	5597	broad.mit.edu	37	chr15	52356198	52356198	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctctgtccgatgtcacTgatgaagaagaagtacaagt	14	9	11	7	1	2	5	1	2	1	3	3	6	3	5	1	0	2	2	1	0	5	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:52356198T>C	uc002abp.2	+	6	1961	c.1167T>C	c.(1165-1167)ACT>ACC	p.T389T		NM_002748	NP_002739	Q16659	MK06_HUMAN	mitogen-activated protein kinase 6	389					cell cycle		ATP binding|MAP kinase activity			lung(3)|ovary(1)	4				all cancers(107;0.0028)		CCGATGTCACTGATGAAGAAG	0.408													14	69					0	0	0.00245	0	0		C	52356198	C	C	52356198	2	2	45	1	0	0	0	0	0	0	0	1	9299	1567	55	3		3	MAPK6	15	52356198	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	722026	52356198	50175194	845	35224											
MYO5C	55930	broad.mit.edu	37	chr15	52564028	52564028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatagaaaatgtggtaatttCgttcattttccgactgtaag	12	15	9	5	2	1	1	1	0	0	1	3	3	2	1	1	1	0	3	1	1	5	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:52564028C>T	uc010bff.2	-	7	901	c.764G>A	c.(763-765)CGA>CAA	p.R255Q	MYO5C_uc010uga.1_Intron|MYO5C_uc010ugb.1_RNA|MYO5C_uc010ugc.1_Intron	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	255	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		GTGGTAATTTCGTTCATTTTC	0.368													3	27					0	0	0.004672	0	0		T	52564028	T	T	52564028	3	4	45	1	0	0	0	0	1	0	0	0	10098	884	31	1	4604	1	MYO5C	15	52564028	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	207830	52564028	49967364	846	35225											
SLTM	79811	broad.mit.edu	37	chr15	59182562	59182562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcctttcaatttctaggCgctctctctctctctgtaag	5	18	6	12	1	5	0	1	0	4	0	8	0	5	0	1	1	1	2	1	1	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:59182562C>T	uc002afp.2	-	15	2085	c.1997G>A	c.(1996-1998)CGC>CAC	p.R666H	SLTM_uc002afn.2_Missense_Mutation_p.R208H|SLTM_uc002afo.2_Missense_Mutation_p.R648H|SLTM_uc002afq.2_Missense_Mutation_p.R235H|SLTM_uc010bgd.2_Missense_Mutation_p.R235H	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	666	Arg/Glu-rich.|Potential.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						AATTTCTAGGCGCTCTCTCTC	0.468													30	132					0	0	0.009535	0	0		T	59182562	T	T	59182562	3	4	45	1	0	0	0	0	1	0	0	0	14779	768	27	1	1135	1	SLTM	15	59182562	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6618534	59182562	43348830	847	35226											
ZNF609	23060	broad.mit.edu	37	chr15	64967127	64967127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggcttgaccgccacagtgGcacaagccatgcccaacagt	11	5	10	15	1	0	1	0	1	0	0	0	1	0	1	4	2	3	2	4	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:64967127G>A	uc002ann.2	+	4	2074	c.2074G>A	c.(2074-2076)GCA>ACA	p.A692T		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	692						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CGCCACAGTGGCACAAGCCAT	0.582													41	136					0	0	0.007835	0	0		A	64967127	A	A	64967127	3	1	45	1	0	0	0	0	1	0	0	0	18060	1203	42	2	2088	2	ZNF609	15	64967127	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5784565	64967127	37564265	848	35227											
RPL4	6124	broad.mit.edu	37	chr15	66792468	66792468	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagcttcaacatgattctcaAgtttttcagtgggttcttct	8	18	7	8	0	5	1	3	1	3	0	6	1	5	1	0	1	2	3	0	1	3	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:66792468A>G	uc002apv.2	-	9	1020	c.964T>C	c.(964-966)TTG>CTG	p.L322L	SNAPC5_uc002apu.1_5'Flank|RPL4_uc010bhr.2_Silent_p.L228L|RPL4_uc002apw.2_Silent_p.L228L|RPL4_uc002apx.2_Silent_p.L228L	NM_000968	NP_000959	P36578	RL4_HUMAN	ribosomal protein L4	322					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						ATGATTCTCAAGTTTTTCAGT	0.373													8	86					0	0	0.004482	0	0		G	66792468	G	G	66792468	2	3	45	1	0	0	0	0	0	0	0	1	13620	69	3	3		3	RPL4	15	66792468	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1825341	66792468	35738924	849	35228											
LBXCOR1	390598	broad.mit.edu	37	chr15	68118334	68118334	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgcgagggcagttcctcGcccaactccaagcaggagct	8	5	14	14	3	0	0	0	0	0	0	3	2	2	1	3	3	3	4	3	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:68118334G>A	uc002aqy.1	+	2	141	c.141G>A	c.(139-141)TCG>TCA	p.S47S		NM_001031807	NP_001026977	P84550	SKOR1_HUMAN	transcriptional corepressor Corl1	56					negative regulation of BMP signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|dendrite|neuronal cell body|nucleus	nucleotide binding|SMAD binding|transcription repressor activity				0						GCAGTTCCTCGCCCAACTCCA	0.637													11	58					0	0	0.010729	0	0		A	68118334	A	A	68118334	2	1	45	1	0	0	0	0	0	0	0	1	8671	1074	38	1		1	LBXCOR1	15	68118334	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1325866	68118334	34413058	850	35229											
CORO2B	10391	broad.mit.edu	37	chr15	68987583	68987583	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacatcattgcctcgtgctcGgaggacacgtcggtgagcag	9	8	13	11	4	1	1	1	1	0	0	4	3	1	3	1	3	4	2	1	3	1	1	rs140380181		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:68987583G>A	uc002arj.3	+	3	350	c.321G>A	c.(319-321)TCG>TCA	p.S107S	CORO2B_uc010bic.2_Silent_p.S102S	NM_006091	NP_006082	Q9UQ03	COR2B_HUMAN	coronin, actin binding protein, 2B	107	WD 1.				actin cytoskeleton organization	actin cytoskeleton|cytoplasm|membrane	actin filament binding			ovary(3)|skin(2)|large_intestine(1)	6						CCTCGTGCTCGGAGGACACGT	0.612													18	89					0	0	0.012319	0	0		A	68987583	A	A	68987583	2	1	45	1	0	0	0	0	0	0	0	1	3760	1103	39	1		1	CORO2B	15	68987583	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	869249	68987583	33543809	851	35230											
SPESP1	246777	broad.mit.edu	37	chr15	69238906	69238906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagatcaaggagagtcacaGccttattaaaagtttattaa	16	12	8	5	0	2	2	2	0	0	2	2	3	2	2	1	1	1	2	1	1	7	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:69238906G>A	uc002arn.1	+	2	1161	c.1033G>A	c.(1033-1035)GCC>ACC	p.A345T	NOX5_uc002arp.1_Intron|NOX5_uc002arq.1_Intron|NOX5_uc010bid.1_Intron|NOX5_uc002aro.2_Intron	NM_145658	NP_663633	Q6UW49	SPESP_HUMAN	sperm equatorial segment protein 1 precursor	345					multicellular organismal development	acrosomal vesicle					0						GAGAGTCACAGCCttattaaa	0.269													9	34					0	0	0.004482	0	0		A	69238906	A	A	69238906	3	1	45	1	0	0	0	0	1	0	0	0	15065	971	34	2	1039	2	SPESP1	15	69238906	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	251323	69238906	33292486	852	35231											
UACA	55075	broad.mit.edu	37	chr15	70960670	70960670	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtcattttccagtagcaAtttctccatttccaacttct	8	17	4	12	0	3	0	1	0	2	0	6	0	5	0	3	0	2	3	3	0	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:70960670A>T	uc002asr.2	-	16	2457	c.2353T>A	c.(2353-2355)TTG>ATG	p.L785M	UACA_uc010uke.1_Missense_Mutation_p.L676M|UACA_uc002asq.2_Missense_Mutation_p.L772M|UACA_uc010bin.1_Missense_Mutation_p.L760M	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	785	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						TCCAGTAGCAATTTCTCCATT	0.333													14	54					0	0	0.003163	0	0		T	70960670	T	T	70960670	3	4	45	1	0	0	0	0	1	0	0	0	16850	98	4	5	1913	5	UACA	15	70960670	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1721764	70960670	31570722	853	35232											
THSD4	79875	broad.mit.edu	37	chr15	72057527	72057527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagccaaatggtttagcaccGaatggagcatggtaagtcat	13	9	12	7	1	1	0	1	0	0	0	1	3	1	1	2	3	3	4	2	3	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:72057527G>A	uc002atb.1	+	15	2837	c.2758G>A	c.(2758-2760)GAA>AAA	p.E920K	THSD4_uc002ate.2_Missense_Mutation_p.E560K|THSD4_uc002atg.1_Missense_Mutation_p.E123K	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	920	TSP type-1 6.					proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						GTTTAGCACCGAATGGAGCAT	0.547													14	48					0	0	0.004007	0	0		A	72057527	A	A	72057527	3	1	45	1	0	0	0	0	1	0	0	0	15903	1059	37	1	2816	1	THSD4	15	72057527	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1096857	72057527	30473865	854	35233											
CSPG4	1464	broad.mit.edu	37	chr15	75979694	75979694	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgccggaccagcttcagtgGggccagtgggccctctaggg	5	7	17	12	1	2	0	1	0	1	0	2	1	2	1	4	5	2	1	4	5	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:75979694G>T	uc002baw.2	-	3	3805	c.3712C>A	c.(3712-3714)CCA>ACA	p.P1238T		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1238	Interaction with COL5A1 (By similarity).|Extracellular (Potential).|Gly/Ser-rich (glycosaminoglycan attachment domain).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						AGCTTCAGTGGGGCCAGTGGG	0.622													10	100					0.00621372	0.00635422	0.006214	1	0		T	75979694	T	T	75979694	3	4	45	1	0	0	0	0	1	0	0	0	3963	1232	43	5	3288	5	CSPG4	15	75979694	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3922167	75979694	26551698	855	35234											
PSTPIP1	9051	broad.mit.edu	37	chr15	77328231	77328231	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatacagggaaacccggcCtcaccagcccaggagtaccg	12	3	12	14	2	1	1	1	0	0	1	1	4	1	3	5	3	4	1	5	3	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:77328231C>A	uc002bcf.2	+	14	1524	c.1074C>A	c.(1072-1074)GCC>GCA	p.A358A	PSTPIP1_uc010bkt.1_RNA|PSTPIP1_uc010bku.1_Silent_p.A349A|PSTPIP1_uc002bcg.2_Silent_p.A355A|PSTPIP1_uc010bkw.1_Silent_p.A339A|PSTPIP1_uc002bch.1_Silent_p.A119A|PSTPIP1_uc002bci.1_RNA	NM_003978	NP_003969	O43586	PPIP1_HUMAN	proline-serine-threonine phosphatase interacting	358					cell adhesion|signal transduction	cleavage furrow|lamellipodium|perinuclear region of cytoplasm	catalytic activity			ovary(1)	1						GAAACCCGGCCTCACCAGCCC	0.622													4	16					0.00024832	0.000260198	0.009096	1	0		A	77328231	A	A	77328231	2	1	45	1	0	0	0	0	0	0	0	1	12743	668	24	5		5	PSTPIP1	15	77328231	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1348537	77328231	25203161	856	35235											
LINGO1	84894	broad.mit.edu	37	chr15	77907861	77907861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagcgggatgagcttcaggcGgttgctgcggagacccagcg	7	7	17	10	4	1	2	1	1	0	1	1	4	1	3	1	4	5	3	1	4	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:77907861G>A	uc002bct.1	-	2	440	c.388C>T	c.(388-390)CGC>TGC	p.R130C	LINGO1_uc002bcu.1_Missense_Mutation_p.R124C	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	130	Extracellular (Potential).|LRR 3.				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						AGCTTCAGGCGGTTGCTGCGG	0.587													3	39					0	0	0.004672	0	0		A	77907861	A	A	77907861	3	1	45	1	0	0	0	0	1	0	0	0	8831	1116	39	1	1478	1	LINGO1	15	77907861	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	579630	77907861	24623531	857	35236											
ACSBG1	23205	broad.mit.edu	37	chr15	78485962	78485962	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtgtagatgccagtgacGatgccactgtaggagaccca	10	8	14	9	1	0	3	0	1	0	2	0	5	0	3	3	2	2	2	3	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:78485962G>A	uc002bdh.2	-	5	605	c.549C>T	c.(547-549)ATC>ATT	p.I183I	ACSBG1_uc010umw.1_Silent_p.I179I|ACSBG1_uc010umx.1_Intron|ACSBG1_uc010umy.1_Silent_p.I76I	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	183					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						TGCCAGTGACGATGCCACTGT	0.607													12	60					0	0	0.013537	0	0		A	78485962	A	A	78485962	2	1	45	1	0	0	0	0	0	0	0	1	173	1048	37	1		1	ACSBG1	15	78485962	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	578101	78485962	24045430	858	35237											
C15orf26	161502	broad.mit.edu	37	chr15	81428869	81428869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattgtagatgcaactttccGtaactgaagatggctatatt	13	14	8	6	1	0	3	0	1	0	2	1	3	1	3	1	1	3	4	1	1	7	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:81428869G>A	uc002bgb.2	+	3	199	c.172G>A	c.(172-174)GTA>ATA	p.V58I	C15orf26_uc010blp.1_Missense_Mutation_p.V33I	NM_173528	NP_775799	Q6P656	CO026_HUMAN	hypothetical protein LOC161502	58											0						GCAACTTTCCGTAACTGAAGA	0.408													9	50					0	0	0.006214	0	0		A	81428869	A	A	81428869	3	1	45	1	0	0	0	0	1	0	0	0	1790	1145	40	1	182	1	C15orf26	15	81428869	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2942907	81428869	21102523	859	35238											
C15orf42	90381	broad.mit.edu	37	chr15	90159667	90159667	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgactaagagtgtggcCgagactccagtgcataagca	11	8	12	10	1	0	3	0	1	0	2	1	4	1	3	2	1	3	3	2	1	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:90159667C>T	uc002boe.2	+	16	2901	c.2901C>T	c.(2899-2901)GCC>GCT	p.A967A		NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	967					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			AGAGTGTGGCCGAGACTCCAG	0.453													6	46					0	0	0.001168	0	0		T	90159667	T	T	90159667	2	4	45	1	0	0	0	0	0	0	0	1	1799	639	23	1		1	C15orf42	15	90159667	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	8730798	90159667	12371725	860	35239											
PRC1	9055	broad.mit.edu	37	chr15	91527257	91527257	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccacggacctgaaatggCtcaacatgtaactcgctgca	11	8	9	13	2	1	1	1	1	0	0	2	2	1	2	2	2	4	4	2	2	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:91527257C>T	uc002bqm.2	-	3	415	c.258G>A	c.(256-258)GAG>GAA	p.E86E	PRC1_uc002bqn.2_Silent_p.E86E|PRC1_uc002bqo.2_Silent_p.E86E|PRC1_uc010uqs.1_Intron|PRC1_uc010uqt.1_Silent_p.E34E	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	86	Dimerization.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					CCTGAAATGGCTCAACATGTA	0.507													5	299					0	0	0.000602	0	0		T	91527257	T	T	91527257	2	4	45	1	0	0	0	0	0	0	0	1	12468	796	28	2		2	PRC1	15	91527257	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1367590	91527257	11004135	861	35240											
SLCO3A1	28232	broad.mit.edu	37	chr15	92706126	92706126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatgtcagcatcgccatcGcgctcaaatccttcgccttc	7	12	7	15	4	2	0	2	0	0	0	7	0	3	0	3	0	1	3	3	0	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:92706126G>A	uc002bqx.2	+	10	2095	c.1894G>A	c.(1894-1896)GCG>ACG	p.A632T	SLCO3A1_uc002bqy.2_Missense_Mutation_p.A632T|SLCO3A1_uc002bqz.1_Missense_Mutation_p.A574T	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,	632	Helical; Name=12; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			CATCGCCATCGCGCTCAAATC	0.557													19	70					0	0	0.014323	0	0		A	92706126	A	A	92706126	3	1	45	1	0	0	0	0	1	0	0	0	14753	1087	38	1	1932	1	SLCO3A1	15	92706126	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1178869	92706126	9825266	862	35241											
MCTP2	55784	broad.mit.edu	37	chr15	94901754	94901754	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtggcaggaacagtttgActttcactacttctctgaca	10	12	9	10	0	2	2	1	2	1	0	3	3	2	3	0	2	2	3	0	2	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:94901754A>T	uc002btj.2	+	9	1279	c.1214A>T	c.(1213-1215)GAC>GTC	p.D405V	MCTP2_uc010urg.1_Intron|MCTP2_uc002bti.2_Missense_Mutation_p.D405V|MCTP2_uc010boj.2_Missense_Mutation_p.D134V|MCTP2_uc010bok.2_Missense_Mutation_p.D405V|MCTP2_uc002btk.3_Intron|MCTP2_uc002btl.2_Intron	NM_018349	NP_060819	Q6DN12	MCTP2_HUMAN	multiple C2 domains, transmembrane 2 isoform 1	405	C2 2.				calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(78;0.0821)|all_lung(78;0.148)		BRCA - Breast invasive adenocarcinoma(143;0.0323)|OV - Ovarian serous cystadenocarcinoma(32;0.0593)			GAACAGTTTGACTTTCACTAC	0.418													4	56					0	0	0.000602	0	0		T	94901754	T	T	94901754	3	4	45	1	0	0	0	0	1	0	0	0	9419	275	10	5	1248	5	MCTP2	15	94901754	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2195628	94901754	7629638	863	35242											
IGF1R	3480	broad.mit.edu	37	chr15	99454553	99454553	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgccccaggtgaaagtgAcgtcctgcatttcacctcca	8	11	8	14	1	1	2	1	2	0	0	3	2	3	2	5	1	2	1	5	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr15:99454553A>G	uc002bul.2	+	7	1522	c.1472A>G	c.(1471-1473)GAC>GGC	p.D491G	IGF1R_uc010urq.1_Missense_Mutation_p.D491G|IGF1R_uc010bon.2_Missense_Mutation_p.D491G|IGF1R_uc010urr.1_5'UTR	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	491	Fibronectin type-III 1.				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	GGTGAAAGTGACGTCCTGCAT	0.537													3	57					0	0	0.009096	0	0		G	99454553	G	G	99454553	3	3	45	1	0	0	0	0	1	0	0	0	7587	275	10	3	1498	3	IGF1R	15	99454553	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	4552799	99454553	3076839	864	35243											
POLR3K	51728	broad.mit.edu	37	chr16	97531	97531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagctgcatgaagtaagcacGaggatgttcgcatttgggac	12	9	13	7	2	0	1	0	1	0	0	1	4	0	3	0	2	3	6	0	2	3	3	rs144406744	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:97531G>A	uc002cfi.1	-	3	265	c.226C>T	c.(226-228)CGT>TGT	p.R76C		NM_016310	NP_057394	Q9Y2Y1	RPC10_HUMAN	DNA directed RNA polymerase III polypeptide K	76	TFIIS-type.				innate immune response|response to virus|transcription from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|zinc ion binding				0		all_cancers(16;9.01e-08)|all_epithelial(16;7.64e-07)|Hepatocellular(780;0.000325)|Lung NSC(18;0.0104)|all_lung(18;0.0239)				AAGTAAGCACGAGGATGTTCG	0.468													11	47					0	0	0.008291	0	0		A	97531	A	A	97531	3	1	45	1	0	0	0	0	1	0	0	0	12256	1058	37	1	104	1	POLR3K	16	97531	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08		97531	90257222	865	35244											
MRPL28	10573	broad.mit.edu	37	chr16	419103	419103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcgagcccataagcctcatCgatgaggtccagggtccgca	9	7	12	13	3	1	1	1	1	0	0	5	3	3	1	4	2	2	1	4	2	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:419103C>T	uc002cgr.1	-	2	422	c.406G>A	c.(406-408)GAT>AAT	p.D136N	MRPL28_uc010bqu.1_Missense_Mutation_p.D136N|MRPL28_uc002cgs.1_Missense_Mutation_p.D136N|MRPL28_uc002cgt.1_Missense_Mutation_p.D136N	NM_006428	NP_006419	Q13084	RM28_HUMAN	mitochondrial ribosomal protein L28 precursor	136					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0		Hepatocellular(16;0.000105)|Lung NSC(18;0.0324)|all_lung(18;0.064)				TAAGCCTCATCGATGAGGTCC	0.562													10	47					0	0	0.006214	0	0		T	419103	T	T	419103	3	4	45	1	0	0	0	0	1	0	0	0	9810	884	31	1	380	1	MRPL28	16	419103	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	321572	419103	89935650	866	35245											
NARFL	64428	broad.mit.edu	37	chr16	780438	780438	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccaccggatgcccaggccAgtgctggccttctccacggc	6	7	11	17	2	1	0	0	0	1	0	2	1	1	1	6	4	3	1	6	4	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:780438A>G	uc002cjr.2	-	11	1422	c.1410T>C	c.(1408-1410)ACT>ACC	p.T470T	NARFL_uc002cjp.2_Silent_p.T368T|NARFL_uc002cjq.2_Silent_p.T368T|NARFL_uc002cjs.2_Silent_p.T252T	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	470					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				TGCCCAGGCCAGTGCTGGCCT	0.642													14	104					0	0	0.00245	0	0		G	780438	G	G	780438	2	3	45	1	0	0	0	0	0	0	0	1	10186	175	7	3		3	NARFL	16	780438	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	361335	780438	89574315	867	35246											
CRAMP1L	57585	broad.mit.edu	37	chr16	1705981	1705981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagaactgtacactgacacCgctgccgggcgtggctcgcg	7	6	14	14	6	0	2	0	1	0	1	1	3	0	2	2	2	3	3	2	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:1705981C>T	uc010uvh.1	+	9	1223	c.1223C>T	c.(1222-1224)CCG>CTG	p.P408L	CRAMP1L_uc002cmf.2_Intron	NM_020825	NP_065876	Q96RY5	CRML_HUMAN	Crm, cramped-like	408						nucleus	DNA binding				0						ACACTGACACCGCTGCCGGGC	0.642													8	34					0	0	0.00308	0	0		T	1705981	T	T	1705981	3	4	45	1	0	0	0	0	1	0	0	0	3849	652	23	1	1257	1	CRAMP1L	16	1705981	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	925543	1705981	88648772	868	35247											
CEMP1	752014	broad.mit.edu	37	chr16	2581057	2581057	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccagcttgctggctgtcAgtgcttgatgtgcccatcct	4	13	11	13	0	1	1	1	1	0	0	2	1	2	1	3	1	5	4	3	1	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:2581057A>G	uc002cqr.2	-	1	374	c.18T>C	c.(16-18)ACT>ACC	p.T6T		NM_001048212	NP_001041677	Q6PRD7	CEMP1_HUMAN	cementum protein 1	6						cytoplasm				skin(1)	1						GCTGGCTGTCAGTGCTTGATG	0.617													6	43					0	0	0.001984	0	0		G	2581057	G	G	2581057	2	3	45	1	0	0	0	0	0	0	0	1	3227	175	7	3		3	CEMP1	16	2581057	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	875076	2581057	87773696	869	35248											
ZNF200	7752	broad.mit.edu	37	chr16	3274246	3274246	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgattacagtcatagggTttttctccagtgtgggtcct	7	15	11	8	0	2	1	1	1	1	0	4	1	3	1	2	2	1	1	2	2	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:3274246T>G	uc002cuj.2	-	5	1466	c.834A>C	c.(832-834)AAA>AAC	p.K278N	ZNF200_uc002cum.3_Missense_Mutation_p.K277N|ZNF200_uc010bti.2_Missense_Mutation_p.K277N|ZNF200_uc002cuk.2_Missense_Mutation_p.K278N|ZNF200_uc002cui.2_Missense_Mutation_p.K277N|ZNF200_uc002cul.3_Missense_Mutation_p.K277N	NM_003454	NP_003445	P98182	ZN200_HUMAN	zinc finger protein 200 isoform 1	278					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						AGTCATAGGGTTTTTCTCCAG	0.418													3	104					0	0	0.009096	0	0		G	3274246	G	G	3274246	3	3	45	1	0	0	0	0	1	0	0	0	17787	1722	60	5	357	5	ZNF200	16	3274246	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	693189	3274246	87080507	870	35249											
TIGD7	91151	broad.mit.edu	37	chr16	3350127	3350127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagtttctcctctttgattAtcatggacagtttttgtcga	8	18	7	8	1	3	1	1	1	2	0	5	3	3	2	1	1	0	2	1	1	1	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:3350127A>G	uc002cus.2	-	1	1274	c.488T>C	c.(487-489)ATA>ACA	p.I163T	ZNF263_uc002cur.2_3'UTR|TIGD7_uc010btj.1_RNA	NM_033208	NP_149985	Q6NT04	TIGD7_HUMAN	tigger transposable element derived 7	163					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						CTCTTTGATTATCATGGACAG	0.269													28	170					0	0	0.00632	0	0		G	3350127	G	G	3350127	3	3	45	1	0	0	0	0	1	0	0	0	15926	449	16	3	1165	3	TIGD7	16	3350127	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	75881	3350127	87004626	871	35250											
NLRC3	197358	broad.mit.edu	37	chr16	3614999	3614999	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagcccgtaccgtggccctgGccggcctccctgcccgtccg	2	6	13	20	5	0	0	0	0	0	0	2	1	2	0	8	3	3	1	8	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:3614999G>A	uc010btn.2	-	4	450	c.39C>T	c.(37-39)GGC>GGT	p.G13G		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	13					I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						CGTGGCCCTGGCCGGCCTCCC	0.687													14	23					0	0	0.00245	0	0		A	3614999	A	A	3614999	2	1	45	1	0	0	0	0	0	0	0	1	10487	1190	42	2		2	NLRC3	16	3614999	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	264872	3614999	86739754	872	35251											
C16orf71	146562	broad.mit.edu	37	chr16	4786531	4786531	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctcatggcatccaacgatAaaggcatggcaccctcgctg	10	7	9	15	2	1	0	1	0	0	0	3	1	2	0	3	3	1	4	3	3	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:4786531A>G	uc002cxn.2	+	2	478	c.16A>G	c.(16-18)AAA>GAA	p.K6E	ANKS3_uc002cxj.1_5'Flank|ANKS3_uc002cxk.2_5'Flank|ANKS3_uc002cxl.2_5'Flank|ANKS3_uc010uxs.1_5'Flank|ANKS3_uc002cxm.2_5'Flank	NM_139170	NP_631909	Q8IYS4	CP071_HUMAN	hypothetical protein LOC146562	6										central_nervous_system(1)	1						ATCCAACGATAAAGGCATGGC	0.617													6	54					0	0	0.001984	0	0		G	4786531	G	G	4786531	3	3	45	1	0	0	0	0	1	0	0	0	1833	363	13	3	18	3	C16orf71	16	4786531	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1171532	4786531	85568222	873	35252											
PPL	5493	broad.mit.edu	37	chr16	4934623	4934623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaccctttccttcacccGcgagagctcctcctctttcc	5	11	4	21	2	2	1	1	0	1	1	6	2	6	1	7	0	1	1	7	0	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:4934623G>A	uc002cyd.1	-	22	4123	c.4033C>T	c.(4033-4035)CGG>TGG	p.R1345W		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1345	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						TCCTTCACCCGCGAGAGCTCC	0.607													76	281					0	0	0.01441	0	0		A	4934623	A	A	4934623	3	1	45	1	0	0	0	0	1	0	0	0	12356	1086	38	1	1241	1	PPL	16	4934623	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	148092	4934623	85420130	874	35253											
TEKT5	146279	broad.mit.edu	37	chr16	10788315	10788315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcctctggcccaggttcCggcaggtgccctcctgcatc	5	8	11	17	1	1	0	0	0	1	0	4	0	3	0	5	4	3	3	5	4	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:10788315C>T	uc002czz.1	-	1	488	c.416G>A	c.(415-417)CGG>CAG	p.R139Q		NM_144674	NP_653275	Q96M29	TEKT5_HUMAN	tektin 5	139	Potential.				microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2						GCCCAGGTTCCGGCAGGTGCC	0.617													32	199					0	0	0.003755	0	0		T	10788315	T	T	10788315	3	4	45	1	0	0	0	0	1	0	0	0	15781	652	23	1	1069	1	TEKT5	16	10788315	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	5853692	10788315	79566438	875	35254											
CLEC16A	23274	broad.mit.edu	37	chr16	11219940	11219940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcttctacgaccaggggCgccggggcagcagcgacccc	6	4	14	17	5	1	0	0	0	1	0	2	2	2	0	5	4	3	3	5	4	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:11219940C>T	uc002dao.2	+	22	2808	c.2578C>T	c.(2578-2580)CGC>TGC	p.R860C	CLEC16A_uc002dan.3_Missense_Mutation_p.R842C|CLEC16A_uc002dap.2_5'UTR	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	860										ovary(1)|central_nervous_system(1)	2						CGACCAGGGGCGCCGGGGCAG	0.667													11	197					0	0	0.010729	0	0		T	11219940	T	T	11219940	3	4	45	1	0	0	0	0	1	0	0	0	3503	768	27	1	2660	1	CLEC16A	16	11219940	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	431625	11219940	79134813	876	35255											
TXNDC11	51061	broad.mit.edu	37	chr16	11785786	11785786	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgttgcagcagggggaCgctgtgatcgttggcgggtc	6	9	18	8	3	0	1	0	1	0	0	2	2	0	2	0	4	2	5	0	4	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:11785786C>T	uc010buu.1	-	9	1403	c.1341G>A	c.(1339-1341)GCG>GCA	p.A447A	TXNDC11_uc002dbg.1_Silent_p.A420A	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	447					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						AGCAGGGGGACGCTGTGATCG	0.642													13	71					0	0	0.001855	0	0		T	11785786	T	T	11785786	2	4	45	1	0	0	0	0	0	0	0	1	16818	523	19	1		1	TXNDC11	16	11785786	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	565846	11785786	78568967	877	35256											
RSL1D1	26156	broad.mit.edu	37	chr16	11931765	11931765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttttttggagtctgtctcGcatcttttttccccagcgaa	5	17	8	11	2	3	0	0	0	3	0	5	2	4	1	2	1	1	2	2	1	1	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:11931765G>A	uc002dbp.1	-	9	1425	c.1352C>T	c.(1351-1353)GCG>GTG	p.A451V	RSL1D1_uc010buv.1_Missense_Mutation_p.A450V|RSL1D1_uc010uyw.1_Missense_Mutation_p.A231V	NM_015659	NP_056474	O76021	RL1D1_HUMAN	ribosomal L1 domain containing 1	451					regulation of protein localization|translation	large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						agtctgtctcgcatctttttt	0.179													77	408					0	0	0.01441	0	0		A	11931765	A	A	11931765	3	1	45	1	0	0	0	0	1	0	0	0	13725	1087	38	1	124	1	RSL1D1	16	11931765	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	145979	11931765	78422988	878	35257											
CDR2	1039	broad.mit.edu	37	chr16	22359037	22359037	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggctcagctgggcctgcAacattgtcactgtttttttc	6	14	9	12	0	2	0	2	0	0	0	3	0	2	0	2	2	3	4	2	2	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:22359037A>G	uc002dkn.2	-	5	922	c.614T>C	c.(613-615)TTG>TCG	p.L205S		NM_001802	NP_001793	Q01850	CDR2_HUMAN	cerebellar degeneration-related protein 2	205	Potential.					nucleus	protein binding			skin(1)	1				GBM - Glioblastoma multiforme(48;0.0188)		CTGGGCCTGCAACATTGTCAC	0.512													37	168					0	0	0.004878	0	0		G	22359037	G	G	22359037	3	3	45	1	0	0	0	0	1	0	0	0	3175	131	5	3	754	3	CDR2	16	22359037	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	10427272	22359037	67995716	879	35258											
PLK1	5347	broad.mit.edu	37	chr16	23695280	23695280	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaacgagctgcttaatgaCgagttctttacttctggcta	10	15	8	8	2	2	1	0	1	2	0	2	3	2	1	0	1	4	4	0	1	4	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:23695280C>T	uc002dlz.1	+	5	959	c.906C>T	c.(904-906)GAC>GAT	p.D302D		NM_005030	NP_005021	P53350	PLK1_HUMAN	polo-like kinase 1	302	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G2/M transition DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic prophase|negative regulation of cyclin-dependent protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|protein localization to chromatin|protein ubiquitination|regulation of mitotic anaphase|regulation of protein binding	centrosome|condensed nuclear chromosome outer kinetochore|cytosol|nucleoplasm|spindle microtubule|spindle midzone|spindle pole	anaphase-promoting complex binding|ATP binding|polo kinase kinase activity|protein kinase binding			lung(1)|skin(1)	2				GBM - Glioblastoma multiforme(48;0.0156)		TGCTTAATGACGAGTTCTTTA	0.572													52	292					0	0	0.01441	0	0		T	23695280	T	T	23695280	2	4	45	1	0	0	0	0	0	0	0	1	12113	535	19	1		1	PLK1	16	23695280	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1336243	23695280	66659473	880	35259											
CACNG3	10368	broad.mit.edu	37	chr16	24372780	24372780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggttggtccttttatttcGgagccttctctttcatcatc	5	19	7	10	1	3	0	2	0	1	0	7	1	4	1	2	3	1	1	2	3	1	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:24372780G>A	uc002dmf.2	+	4	1744	c.544G>A	c.(544-546)GGA>AGA	p.G182R		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	182	Helical; (Potential).				regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0				GBM - Glioblastoma multiforme(48;0.0809)		CTTTTATTTCGGAGCCTTCTC	0.453													22	169					0	0	0.014323	0	0		A	24372780	A	A	24372780	3	1	45	1	0	0	0	0	1	0	0	0	2561	1117	39	1	558	1	CACNG3	16	24372780	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	677500	24372780	65981973	881	35260											
AQP8	343	broad.mit.edu	37	chr16	25232874	25232874	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactgggtctcacagctgctCggggggatgctcggggctgc	4	9	17	11	2	1	0	1	0	1	0	4	1	1	1	0	6	5	4	0	6	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:25232874C>T	uc002doc.2	+	3	439	c.357C>T	c.(355-357)CTC>CTT	p.L119L		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	119	Helical; (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		CACAGCTGCTCGGGGGGATGC	0.627													18	117					0	0	0.014323	0	0		T	25232874	T	T	25232874	2	4	45	1	0	0	0	0	0	0	0	1	832	871	31	1		1	AQP8	16	25232874	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	860094	25232874	65121879	882	35261											
NSMCE1	197370	broad.mit.edu	37	chr16	27237123	27237123	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactggaagtacttggccacGcagggtaagtgcatcctgat	10	9	13	9	1	0	1	0	1	0	0	1	3	1	2	2	3	2	4	2	3	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:27237123G>A	uc002doi.1	-	7	743	c.645C>T	c.(643-645)TGC>TGT	p.C215C	NSMCE1_uc002doj.1_RNA	NM_145080	NP_659547	Q8WV22	NSE1_HUMAN	non-SMC element 1 homolog	215	NSE1-type.				DNA recombination|DNA repair|intracellular signal transduction	nucleus	zinc ion binding				0						ACTTGGCCACGCAGGGTAAGT	0.587													10	41					0	0	0.00245	0	0		A	27237123	A	A	27237123	2	1	45	1	0	0	0	0	0	0	0	1	10694	1079	38	1		1	NSMCE1	16	27237123	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2004249	27237123	63117630	883	35262											
TUFM	7284	broad.mit.edu	37	chr16	28855798	28855798	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttctccaggtcccgggcGggcactgggatgtaagtgtc	5	9	16	11	2	1	0	0	0	1	0	4	1	2	1	2	5	0	3	2	5	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:28855798G>A	uc002drh.2	-	6	898	c.759C>T	c.(757-759)CCC>CCT	p.P253P	uc010vct.1_Intron|SH2B1_uc002dri.2_5'Flank	NM_003321	NP_003312	P49411	EFTU_HUMAN	Tu translation elongation factor, mitochondrial	250						mitochondrial nucleoid	GTP binding|GTPase activity|protein binding|translation elongation factor activity			ovary(1)	1						GGTCCCGGGCGGGCACTGGGA	0.597													4	81					0	0	0.009096	0	0		A	28855798	A	A	28855798	2	1	45	1	0	0	0	0	0	0	0	1	16797	1103	39	1		1	TUFM	16	28855798	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1618675	28855798	61498955	884	35263											
SH2B1	25970	broad.mit.edu	37	chr16	28877939	28877939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catcctgcagtggcgggggaCcgttgaccctccctcctccg	4	8	12	17	3	0	1	0	1	0	0	4	2	4	2	6	3	1	2	6	3	0	1	rs147094247	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:28877939C>T	uc002dri.2	+	4	963	c.524C>T	c.(523-525)ACC>ATC	p.T175I	uc010vct.1_Intron|SH2B1_uc010vdc.1_Intron|SH2B1_uc002drj.2_Missense_Mutation_p.T175I|SH2B1_uc002drk.2_Missense_Mutation_p.T175I|SH2B1_uc002drl.2_Missense_Mutation_p.T175I|SH2B1_uc010vdd.1_Intron|SH2B1_uc010vde.1_Missense_Mutation_p.T175I|SH2B1_uc002drm.2_Missense_Mutation_p.T175I	NM_001145795	NP_001139267	Q9NRF2	SH2B1_HUMAN	SH2B adaptor protein 1 isoform 1	175	Interaction with JAK2 (low-affinity binding; independent of JAK2 phosphorylation) (By similarity).|Interaction with RAC1 (By similarity).|Required for NGF signaling (By similarity).				blood coagulation|intracellular signal transduction	cytosol|membrane|nucleus	signal transducer activity			ovary(2)	2						TGGCGGGGGACCGTTGACCCT	0.647													11	65					0	0	0.001855	0	0		T	28877939	T	T	28877939	3	4	45	1	0	0	0	0	1	0	0	0	14252	507	18	4	526	4	SH2B1	16	28877939	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	22141	28877939	61476814	885	35264											
PPP4C	5531	broad.mit.edu	37	chr16	30096003	30096003	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagacaccacaggctggggCgtgagcccccgaggagccgg	8	3	16	14	3	1	2	1	1	0	1	1	4	1	3	4	5	2	1	4	5	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:30096003C>T	uc002dwe.2	+	8	765	c.621C>T	c.(619-621)GGC>GGT	p.G207G	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|PPP4C_uc002dwf.2_Silent_p.G207G|PPP4C_uc002dwg.2_RNA|PPP4C_uc002dwh.2_Silent_p.G128G	NM_002720	NP_002711	P60510	PP4C_HUMAN	protein phosphatase 4, catalytic subunit	207					microtubule cytoskeleton organization|regulation of double-strand break repair via homologous recombination	centrosome|nucleus	metal ion binding|NF-kappaB-inducing kinase activity|protein binding|protein serine/threonine phosphatase activity			skin(1)	1						CAGGCTGGGGCGTGAGCCCCC	0.627													18	113					0	0	0.008871	0	0		T	30096003	T	T	30096003	2	4	45	1	0	0	0	0	0	0	0	1	12424	755	27	1		1	PPP4C	16	30096003	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1218064	30096003	60258750	886	35265											
PPP4C	5531	broad.mit.edu	37	chr16	30096284	30096284	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcagccatcttggagctGgacgagcatctccagaaaga	11	7	13	10	1	2	2	0	0	2	2	3	5	2	4	2	3	3	3	2	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:30096284G>A	uc002dwe.2	+	9	969	c.825G>A	c.(823-825)CTG>CTA	p.L275L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|PPP4C_uc002dwf.2_Silent_p.L275L|PPP4C_uc002dwg.2_RNA|PPP4C_uc002dwh.2_Silent_p.L196L	NM_002720	NP_002711	P60510	PP4C_HUMAN	protein phosphatase 4, catalytic subunit	275					microtubule cytoskeleton organization|regulation of double-strand break repair via homologous recombination	centrosome|nucleus	metal ion binding|NF-kappaB-inducing kinase activity|protein binding|protein serine/threonine phosphatase activity			skin(1)	1						TCTTGGAGCTGGACGAGCATC	0.627													22	106					0	0	0.010504	0	0		A	30096284	A	A	30096284	2	1	45	1	0	0	0	0	0	0	0	1	12424	1335	47	4		4	PPP4C	16	30096284	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	281	30096284	60258469	887	35266											
DCTPP1	79077	broad.mit.edu	37	chr16	30435737	30435737	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctagcggcagatccacacgGcagcgggctgctaatgccac	9	5	13	14	3	0	1	0	0	0	1	1	1	1	1	2	3	4	5	2	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:30435737G>A	uc002dyf.2	-	3	402	c.330C>T	c.(328-330)TGC>TGT	p.C110C	ZNF771_uc010bzx.2_Intron	NM_024096	NP_077001	Q9H773	DCTP1_HUMAN	dCTP pyrophosphatase 1	110					nucleoside triphosphate catabolic process	cytosol	dCTP diphosphatase activity|identical protein binding|magnesium ion binding				0						GATCCACACGGCAGCGGGCTG	0.612													12	47					0	0	0.013537	0	0		A	30435737	A	A	30435737	2	1	45	1	0	0	0	0	0	0	0	1	4315	1195	42	2		2	DCTPP1	16	30435737	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	339453	30435737	59919016	888	35267											
ITGAL	3683	broad.mit.edu	37	chr16	30529992	30529992	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccctctccatctccttcaaCagcagcaagcatttccacct	9	11	3	18	0	3	0	1	0	2	0	7	0	5	0	5	0	4	3	5	0	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:30529992C>T	uc002dyi.3	+	29	3356	c.3180C>T	c.(3178-3180)AAC>AAT	p.N1060N	ITGAL_uc002dyj.3_Silent_p.N976N|ITGAL_uc010vev.1_Silent_p.N294N	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	1060	Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	TCTCCTTCAACAGCAGCAAGC	0.607													8	59					0	0	0.004482	0	0		T	30529992	T	T	30529992	2	4	45	1	0	0	0	0	0	0	0	1	7902	477	17	4		4	ITGAL	16	30529992	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	94255	30529992	59824761	889	35268											
PRR14	78994	broad.mit.edu	37	chr16	30663120	30663120	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctttcaccctccagcccGcctggccagccgcgtctgtg	3	10	9	19	3	3	0	1	0	2	0	4	0	4	0	6	1	2	0	6	1	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:30663120G>A	uc002dyy.2	+	3	285	c.27G>A	c.(25-27)CCG>CCA	p.P9P	PRR14_uc002dyz.2_5'UTR|PRR14_uc002dza.2_Silent_p.P9P|PRR14_uc002dzb.1_5'Flank	NM_024031	NP_076936	Q9BWN1	PRR14_HUMAN	proline rich 14	9											0			Colorectal(24;0.103)			CCTCCAGCCCGCCTGGCCAGC	0.682													14	116					0	0	0.006122	0	0		A	30663120	A	A	30663120	2	1	45	1	0	0	0	0	0	0	0	1	12608	1074	38	1		1	PRR14	16	30663120	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	133128	30663120	59691633	890	35269											
ITGAX	3687	broad.mit.edu	37	chr16	31374258	31374258	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggctctgcccttcagatCggctcctacttcggggcctc	4	10	10	17	2	2	1	1	0	1	1	6	1	3	1	4	4	2	2	4	4	1	3	rs147426364		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:31374258C>T	uc002ebu.1	+	13	1429	c.1362C>T	c.(1360-1362)ATC>ATT	p.I454I	ITGAX_uc002ebt.2_Silent_p.I454I|ITGAX_uc010vfk.1_Silent_p.I104I	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	454	FG-GAP 5.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CCCTTCAGATCGGCTCCTACT	0.672													38	129					0	0	0.009718	0	0		T	31374258	T	T	31374258	2	4	45	1	0	0	0	0	0	0	0	1	7905	874	31	1		1	ITGAX	16	31374258	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	711138	31374258	58980495	891	35270											
ORC6L	23594	broad.mit.edu	37	chr16	46723639	46723639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtcggagctgatcgggCgcctagccccgcgcctgggc	3	6	18	14	5	0	1	0	1	0	0	2	2	0	2	4	5	2	1	4	5	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:46723639C>T	uc002eeh.2	+	1	82	c.22C>T	c.(22-24)CGC>TGC	p.R8C	VPS35_uc002eee.2_5'Flank|VPS35_uc002eef.3_5'Flank|ORC6L_uc002eeg.1_Missense_Mutation_p.R8C|ORC6L_uc010cbe.1_5'UTR	NM_014321	NP_055136	Q9Y5N6	ORC6_HUMAN	origin recognition complex subunit 6	8					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA binding|protein binding				0		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				GCTGATCGGGCGCCTAGCCCC	0.711													3	19					0	0	0.000602	0	0		T	46723639	T	T	46723639	3	4	45	1	0	0	0	0	1	0	0	0	11285	768	27	1	24	1	ORC6L	16	46723639	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	15349381	46723639	43631114	892	35271											
ABCC11	85320	broad.mit.edu	37	chr16	48201547	48201547	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctccatgtcaatggaggCtgtggcttcatcgataagga	9	12	12	8	1	3	0	2	0	1	0	5	3	3	2	1	4	0	2	1	4	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:48201547C>A	uc002eff.1	-	28	4266	c.3916G>T	c.(3916-3918)GCC>TCC	p.A1306S	ABCC11_uc002efg.1_Missense_Mutation_p.A1306S|ABCC11_uc002efh.1_Missense_Mutation_p.A1268S|ABCC11_uc010cbg.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	1306	ABC transporter 2.|Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				TCAATGGAGGCTGTGGCTTCA	0.453									Cerumen_Type				27	173					2.61193e-14	2.95794e-14	0.009535	1	0		A	48201547	A	A	48201547	3	1	45	1	0	0	0	0	1	0	0	0	51	797	28	5	240	5	ABCC11	16	48201547	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1477908	48201547	42153206	893	35272											
CHD9	80205	broad.mit.edu	37	chr16	53243646	53243646	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaggaaaagaaaggtagaAggatgaaatccaagccaaag	22	3	12	4	0	0	4	0	1	0	3	1	6	1	6	2	3	1	1	2	3	9	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:53243646A>T	uc002ehb.2	+	2	1869	c.1705A>T	c.(1705-1707)AGG>TGG	p.R569W	CHD9_uc002egy.2_Missense_Mutation_p.R569W|CHD9_uc002egz.1_Missense_Mutation_p.R569W|CHD9_uc002eha.1_Missense_Mutation_p.R569W|CHD9_uc002ehc.2_Missense_Mutation_p.R569W|CHD9_uc002ehd.2_Missense_Mutation_p.R95W	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	569	Lys-rich.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				GAAAGGTAGAAGGATGAAATC	0.368													8	24					0	0	0.00308	0	0		T	53243646	T	T	53243646	3	4	45	1	0	0	0	0	1	0	0	0	3335	63	3	5	1711	5	CHD9	16	53243646	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	5042099	53243646	37111107	894	35273											
FTO	79068	broad.mit.edu	37	chr16	53859941	53859941	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcactccggtatctcgcAtcctcattggtaatccaggc	7	12	8	14	2	3	0	2	0	1	0	7	0	6	0	3	3	1	4	3	3	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:53859941A>G	uc002ehr.2	+	3	511	c.289A>G	c.(289-291)ATC>GTC	p.I97V	FTO_uc010vha.1_Intron	NM_001080432	NP_001073901	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	97	Fe2OG dioxygenase domain.				DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GGTATCTCGCATCCTCATTGG	0.507													21	93					0	0	0.010504	0	0		G	53859941	G	G	53859941	3	3	45	1	0	0	0	0	1	0	0	0	6100	217	8	3	299	3	FTO	16	53859941	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	616295	53859941	36494812	895	35274											
CES1	1066	broad.mit.edu	37	chr16	55857555	55857555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccatcataggttgatgccGcacccaccatcagcccccct	8	7	7	19	1	2	1	2	1	0	0	2	1	2	1	7	1	2	2	7	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:55857555G>A	uc002eim.2	-	4	551	c.443C>T	c.(442-444)GCG>GTG	p.A148V	CES1_uc002eil.2_Missense_Mutation_p.A149V|CES1_uc002ein.2_Missense_Mutation_p.A148V	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	148					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	GGTTGATGCCGCACCCACCAT	0.562													4	70					0	0	0.009096	0	0		A	55857555	A	A	55857555	3	1	45	1	0	0	0	0	1	0	0	0	3272	1087	38	1	1304	1	CES1	16	55857555	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1997614	55857555	34497198	896	35275											
CETP	1071	broad.mit.edu	37	chr16	57007277	57007277	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaatgtctcagaggaccTccccctccccaccttctcgc	8	8	6	19	1	2	2	1	0	2	2	6	3	4	3	6	1	0	0	6	1	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:57007277T>C	uc002eki.2	+	9	842	c.785T>C	c.(784-786)CTC>CCC	p.L262P	CETP_uc002ekj.2_Intron	NM_000078	NP_000069	P11597	CETP_HUMAN	cholesteryl ester transfer protein, plasma	262					cholesterol homeostasis|cholesterol metabolic process|high-density lipoprotein particle remodeling|lipoprotein metabolic process|low-density lipoprotein particle remodeling|phosphatidylcholine metabolic process|phospholipid homeostasis|receptor-mediated endocytosis|regulation of cholesterol efflux|triglyceride homeostasis|triglyceride metabolic process|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle|vesicle	cholesterol binding|cholesterol transporter activity|phosphatidylcholine binding|phospholipid transporter activity|triglyceride binding			central_nervous_system(1)|skin(1)	2						TCAGAGGACCTCCCCCTCCCC	0.597													12	61					0	0	0.001855	0	0		C	57007277	C	C	57007277	3	2	45	1	0	0	0	0	1	0	0	0	3280	1551	54	3	819	3	CETP	16	57007277	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1149722	57007277	33347476	897	35276											
CDH5	1003	broad.mit.edu	37	chr16	66436970	66436970	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctgggcaccgactcatcCgactctgacgtggattacga	8	9	10	14	4	2	1	1	1	1	0	4	5	4	2	3	2	1	1	3	2	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:66436970C>T	uc002eom.3	+	12	2409	c.2253C>T	c.(2251-2253)TCC>TCT	p.S751S		NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	751	Cytoplasmic (Potential).|Ser-rich.				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		CCGACTCATCCGACTCTGACG	0.622													10	20					0	0	0.006214	0	0		T	66436970	T	T	66436970	2	4	45	1	0	0	0	0	0	0	0	1	3116	639	23	1		1	CDH5	16	66436970	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	9429693	66436970	23917783	898	35277											
CES3	23491	broad.mit.edu	37	chr16	66997277	66997277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgcgggatgccagcactgCgcccccaatgtgagtagtgc	7	8	14	12	2	0	1	0	1	0	0	0	2	0	2	3	1	5	2	3	1	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:66997277C>T	uc002eqt.2	+	2	351	c.278C>T	c.(277-279)GCG>GTG	p.A93V	CES3_uc010cdz.2_Missense_Mutation_p.A93V|CES3_uc010cea.2_RNA	NM_024922	NP_079198	Q6UWW8	EST3_HUMAN	carboxylesterase 3 precursor	93						endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity			ovary(3)|central_nervous_system(2)	5		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0488)|Epithelial(162;0.127)		GCCAGCACTGCGCCCCCAATG	0.647													11	71					0	0	0.013537	0	0		T	66997277	T	T	66997277	3	4	45	1	0	0	0	0	1	0	0	0	3274	768	27	1	284	1	CES3	16	66997277	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	560307	66997277	23357476	899	35278											
CES8	283848	broad.mit.edu	37	chr16	67043039	67043039	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacctgagaagcagaggcaAttctaagggtggctatgcag	13	7	14	7	0	1	3	0	1	1	3	1	4	1	3	1	3	2	4	1	3	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:67043039A>G	uc002eqv.2	+	12	1513	c.1470A>G	c.(1468-1470)CAA>CAG	p.Q490Q	CES8_uc010vix.1_3'UTR|CES8_uc002eqw.2_3'UTR|CES8_uc002eqy.2_Silent_p.Q462Q|CES8_uc002eqx.2_Silent_p.Q366Q|CES8_uc010viy.1_3'UTR|CES8_uc010viz.1_Silent_p.Q462Q|CES8_uc002eqz.2_RNA	NM_173815	NP_776176	Q5XG92	EST4A_HUMAN	carboxylesterase 8 (putative)	560						extracellular region	carboxylesterase activity				0						AGCAGAGGCAATTCTAAGGGT	0.522													31	140					0	0	0.012213	0	0		G	67043039	G	G	67043039	2	3	45	1	0	0	0	0	0	0	0	1	3276	98	4	3		3	CES8	16	67043039	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	45762	67043039	23311714	900	35279											
FBXL8	55336	broad.mit.edu	37	chr16	67197591	67197591	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgctgcgcggccctgcgCgaggtgcattgtttctgcgt	2	10	16	13	7	1	0	0	0	1	0	1	1	1	0	1	2	4	3	1	2	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:67197591C>T	uc002erj.1	+	3	1113	c.993C>T	c.(991-993)CGC>CGT	p.R331R	FBXL8_uc002erk.1_Silent_p.R331R|HSF4_uc002erl.1_5'UTR|HSF4_uc002erm.1_5'UTR|HSF4_uc002ern.1_5'Flank|HSF4_uc010cec.1_5'Flank	NM_018378	NP_060848	Q96CD0	FBXL8_HUMAN	F-box and leucine-rich repeat protein 8	331							protein binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0144)|Epithelial(162;0.0338)|all cancers(182;0.185)		CGGCCCTGCGCGAGGTGCATT	0.721													7	7					0	0	0.00308	0	0		T	67197591	T	T	67197591	2	4	45	1	0	0	0	0	0	0	0	1	5739	755	27	1		1	FBXL8	16	67197591	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	154552	67197591	23157162	901	35280											
HSF4	3299	broad.mit.edu	37	chr16	67199648	67199648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcggaaggtggtgagcatcGagcagggcggcctgcttagg	7	8	18	8	3	0	1	0	1	0	0	2	3	0	2	1	6	3	3	1	6	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:67199648G>A	uc002erl.1	+	5	1224	c.259G>A	c.(259-261)GAG>AAG	p.E87K	HSF4_uc002erm.1_Missense_Mutation_p.E87K|HSF4_uc002ern.1_RNA|HSF4_uc010cec.1_RNA	NM_001040667	NP_001035757	Q9ULV5	HSF4_HUMAN	heat shock transcription factor 4 isoform b	87	By similarity.				response to stress	nucleus	sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		GGTGAGCATCGAGCAGGGCGG	0.731													3	35					0	0	0.004672	0	0		A	67199648	A	A	67199648	3	1	45	1	0	0	0	0	1	0	0	0	7414	1059	37	1	269	1	HSF4	16	67199648	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2057	67199648	23155105	902	35281											
FHOD1	29109	broad.mit.edu	37	chr16	67265195	67265195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtagcagtgactgtcgacGcaccgtgtccttcacctctg	6	11	11	13	3	2	1	1	1	1	0	4	2	3	1	3	0	1	3	3	0	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:67265195G>A	uc002esl.2	-	17	2675	c.2563C>T	c.(2563-2565)CGT>TGT	p.R855C	FHOD1_uc002esk.2_5'Flank|FHOD1_uc010ced.2_Missense_Mutation_p.R662C	NM_013241	NP_037373	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	855	FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton|nucleus	actin binding			breast(2)|ovary(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		GACTGTCGACGCACCGTGTCC	0.587													6	52					0	0	0.001168	0	0		A	67265195	A	A	67265195	3	1	45	1	0	0	0	0	1	0	0	0	5896	1087	38	1	955	1	FHOD1	16	67265195	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	65547	67265195	23089558	903	35282											
FHOD1	29109	broad.mit.edu	37	chr16	67271645	67271645	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaaacaccaacagcagcttCagggctgtcttcaccaccaa	14	6	6	15	0	3	0	2	0	1	0	3	0	3	0	3	1	4	3	3	1	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:67271645C>T	uc002esl.2	-	7	781	c.669G>A	c.(667-669)CTG>CTA	p.L223L	FHOD1_uc010ced.2_Silent_p.L30L|FHOD1_uc010vjh.1_5'UTR	NM_013241	NP_037373	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	223	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton|nucleus	actin binding			breast(2)|ovary(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		ACAGCAGCTTCAGGGCTGTCT	0.567													13	61					0	0	0.00499	0	0		T	67271645	T	T	67271645	2	4	45	1	0	0	0	0	0	0	0	1	5896	813	29	4		4	FHOD1	16	67271645	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6450	67271645	23083108	904	35283											
PLEKHG4	25894	broad.mit.edu	37	chr16	67318714	67318714	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgcagctgcactggaccagGcaccctgacttgcctcctgc	6	8	10	17	0	0	1	0	1	0	0	1	2	1	2	4	2	5	4	4	2	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:67318714G>A	uc002eso.3	+	12	4326	c.1791G>A	c.(1789-1791)AGG>AGA	p.R597R	PLEKHG4_uc002esp.3_Silent_p.R404R|PLEKHG4_uc002esq.3_Silent_p.R597R|PLEKHG4_uc010cef.2_Silent_p.R597R|PLEKHG4_uc002ess.3_Silent_p.R597R|PLEKHG4_uc010ceg.2_Silent_p.R516R	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	597					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		ACTGGACCAGGCACCCTGACT	0.682													4	34					0	0	0.001168	0	0		A	67318714	A	A	67318714	2	1	45	1	0	0	0	0	0	0	0	1	12090	1194	42	2		2	PLEKHG4	16	67318714	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	47069	67318714	23036039	905	35284											
MARVELD3	91862	broad.mit.edu	37	chr16	71674810	71674810	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcttctcgtgatcatgtaCggcgccagcgtggtgctggc	4	12	14	11	4	3	1	1	1	2	0	4	1	3	1	1	3	3	2	1	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:71674810C>T	uc002fau.2	+	3	1176	c.1113C>T	c.(1111-1113)TAC>TAT	p.Y371Y	PHLPP2_uc002fav.2_RNA|MARVELD3_uc010cge.2_3'UTR	NM_001017967	NP_001017967	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane				skin(1)	1		Ovarian(137;0.125)				TGATCATGTACGGCGCCAGCG	0.597													9	45					0	0	0.004482	0	0		T	71674810	T	T	71674810	2	4	45	1	0	0	0	0	0	0	0	1	9337	547	19	1		1	MARVELD3	16	71674810	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4356096	71674810	18679943	906	35285											
ZFHX3	463	broad.mit.edu	37	chr16	72845891	72845891	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggaaggagatgcgtttggaGgttgcaggagaatctgtcag	10	9	18	4	1	2	2	1	0	1	2	2	6	2	4	0	5	2	3	0	5	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:72845891G>A	uc002fck.2	-	6	4249	c.3576C>T	c.(3574-3576)ACC>ACT	p.T1192T	ZFHX3_uc002fcl.2_Silent_p.T278T	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1192					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TGCGTTTGGAGGTTGCAGGAG	0.537													23	103					0	0	0.014323	0	0		A	72845891	A	A	72845891	2	1	45	1	0	0	0	0	0	0	0	1	17659	987	35	4		4	ZFHX3	16	72845891	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1171081	72845891	17508862	907	35286											
CHST6	4166	broad.mit.edu	37	chr16	75512732	75512732	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggcagcgcatggcgccagGcctgggagacgttgagcgca	8	4	18	11	4	0	2	0	1	0	1	0	3	0	2	2	4	2	4	2	4	0	1	rs144301922		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:75512732G>T	uc002fef.2	-	3	1175	c.995C>A	c.(994-996)GCC>GAC	p.A332D	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Missense_Mutation_p.A332D	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	332	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						ATGGCGCCAGGCCTGGGAGAC	0.642													16	81					3.99206e-14	4.51724e-14	0.007413	1	0		T	75512732	T	T	75512732	3	4	45	1	0	0	0	0	1	0	0	0	3411	1203	42	5	196	5	CHST6	16	75512732	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2666841	75512732	14842021	908	35287											
CHST5	23563	broad.mit.edu	37	chr16	75563452	75563452	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcggcttgagtgtggcGgcctcggcgatgcgcacgtg	3	8	20	10	6	0	1	0	1	0	0	1	2	0	1	1	6	1	2	1	6	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:75563452G>A	uc002fei.2	-	3	2226	c.831C>T	c.(829-831)GCC>GCT	p.A277A	CHST5_uc002fej.1_Silent_p.A283A	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	277	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						TGAGTGTGGCGGCCTCGGCGA	0.711													15	80					0	0	0.004007	0	0		A	75563452	A	A	75563452	2	1	45	1	0	0	0	0	0	0	0	1	3410	1103	39	1		1	CHST5	16	75563452	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	50720	75563452	14791301	909	35288											
MAF	4094	broad.mit.edu	37	chr16	79633683	79633683	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactggctgatgatgcggtcGgtctccaccggttccttttt	4	14	11	12	3	1	2	0	2	1	0	4	2	2	2	3	4	1	2	3	4	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:79633683G>A	uc002ffn.2	-	1	940	c.117C>T	c.(115-117)ACC>ACT	p.T39T	MAF_uc002ffm.2_Silent_p.T39T	NM_001031804	NP_001026974	O75444	MAF_HUMAN	v-maf musculoaponeurotic fibrosarcoma oncogene	39					transcription from RNA polymerase II promoter	chromatin|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_epithelial(2;0.139)|Lung NSC(2;0.186)|Melanoma(2;0.211)		UCEC - Uterine corpus endometrioid carcinoma (2;0.0178)		TGATGCGGTCGGTCTCCACCG	0.602			T	IGH@	MM								9	44					0	0	0.004482	0	0		A	79633683	A	A	79633683	2	1	45	1	0	0	0	0	0	0	0	1	9173	1103	39	1		1	MAF	16	79633683	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4070231	79633683	10721070	910	35289											
FBXO31	79791	broad.mit.edu	37	chr16	87367566	87367566	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcacgaacggctgcccctgCccacactgggcaggctgctc	7	5	12	17	2	0	0	0	0	0	0	1	1	0	0	3	3	5	5	3	3	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:87367566C>T	uc002fjw.2	-	8	1367	c.1323G>A	c.(1321-1323)GGG>GGA	p.G441G	FBXO31_uc010vot.1_Silent_p.G269G|FBXO31_uc002fjv.2_Silent_p.G333G	NM_024735	NP_079011	Q5XUX0	FBX31_HUMAN	F-box protein 31	441					cell cycle|cyclin catabolic process|mitotic cell cycle G1/S transition DNA damage checkpoint|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	SCF ubiquitin ligase complex	cyclin binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0272)		GCTGCCCCTGCCCACACTGGG	0.692													13	40					0	0	0.00245	0	0		T	87367566	T	T	87367566	2	4	45	1	0	0	0	0	0	0	0	1	5755	726	26	2		2	FBXO31	16	87367566	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	7733883	87367566	2987187	911	35290											
ACSF3	197322	broad.mit.edu	37	chr16	89169086	89169086	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgctcccgctgcaccacgtCcatggtgtggtcaacgcgct	5	9	12	15	4	1	0	1	0	0	0	3	0	3	0	3	2	3	4	3	2	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr16:89169086C>T	uc002fmp.2	+	4	1081	c.741C>T	c.(739-741)GTC>GTT	p.V247V	ACSF3_uc010cig.1_Silent_p.V247V|ACSF3_uc010cih.1_5'UTR|ACSF3_uc002fmq.1_RNA|ACSF3_uc010cii.1_RNA|ACSF3_uc002fmr.1_5'UTR	NM_174917	NP_777577	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3 precursor	247					fatty acid metabolic process	mitochondrion	acid-thiol ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0281)		TGCACCACGTCCATGGTGTGG	0.627													8	56					0	0	0.004482	0	0		T	89169086	T	T	89169086	2	4	45	1	0	0	0	0	0	0	0	1	176	842	30	4		4	ACSF3	16	89169086	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1801520	89169086	1185667	912	35291											
SCARF1	8578	broad.mit.edu	37	chr17	1538416	1538416	+	Missense_Mutation	SNP	C	T	T																															tctggaagctaccaaaatggCggaagacagagcggacaggg																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:1538416C>T	uc002fsz.1	-	11	2179	c.2129G>A	c.(2128-2130)CGC>CAC	p.R710H	SCARF1_uc002fsy.1_3'UTR|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Missense_Mutation_p.R624H	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	710	Gly-rich.|Cytoplasmic (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		ACCAAAATGGCGGAAGACAGA	0.627													4	47					0	0	0.009096	0	0		T	1538416	T	T	1538416	3	4	45	1	0	0	0	0	1	0	0	0	13908	768	27	1	367	1	SCARF1	17	1538416	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08		1538416	79656794	913	35292	70	2									
SCARF1	8578	broad.mit.edu	37	chr17	1538421	1538421	+	Silent	SNP	G	A	A																															aagctaccaaaatggcggaaGacagagcggacagggccttc																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:1538421G>A	uc002fsz.1	-	11	2174	c.2124C>T	c.(2122-2124)GTC>GTT	p.V708V	SCARF1_uc002fsy.1_3'UTR|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Silent_p.V622V	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	708	Gly-rich.|Cytoplasmic (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		AATGGCGGAAGACAGAGCGGA	0.622													8	45					0	0	0.006214	0	0		A	1538421	A	A	1538421	2	1	45	1	0	0	0	0	0	0	0	1	13908	929	33	4		4	SCARF1	17	1538421	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5	1538421	79656789	914	35293	70	2									
SERPINF2	5345	broad.mit.edu	37	chr17	1649113	1649113	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggccttcactgccgacCtgttctccctggtggctcaa	5	12	10	14	1	3	1	2	1	1	0	4	2	3	1	4	3	1	2	4	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:1649113C>A	uc002ftk.1	+	5	354	c.277C>A	c.(277-279)CTG>ATG	p.L93M	SERPINF2_uc010vqr.1_Intron	NM_000934	NP_000925	P08697	A2AP_HUMAN	alpha-2-antiplasmin isoform a precursor	93					acute-phase response|fibrinolysis|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)	Streptokinase(DB00086)	CACTGCCGACCTGTTCTCCCT	0.652													22	105					7.45023e-12	8.32952e-12	0.010504	1	0		A	1649113	A	A	1649113	3	1	45	1	0	0	0	0	1	0	0	0	14140	680	24	5	301	5	SERPINF2	17	1649113	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	110692	1649113	79546097	915	35294											
RTN4RL1	146760	broad.mit.edu	37	chr17	1840945	1840945	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttctgcaggaagacgcgCtcgctgtccacggggatgcc	6	9	14	12	4	1	1	0	0	1	1	3	3	2	3	2	3	2	4	2	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:1840945C>T	uc002ftp.2	-	2	190	c.171G>A	c.(169-171)GAG>GAA	p.E57E		NM_178568	NP_848663	Q86UN2	R4RL1_HUMAN	reticulon 4 receptor-like 1 precursor	57	LRR 1.				axon regeneration	anchored to plasma membrane	receptor activity				0						GGAAGACGCGCTCGCTGTCCA	0.647													7	33					0	0	0.001984	0	0		T	1840945	T	T	1840945	2	4	45	1	0	0	0	0	0	0	0	1	13756	796	28	2		2	RTN4RL1	17	1840945	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	191832	1840945	79354265	916	35295											
ATP2A3	489	broad.mit.edu	37	chr17	3833644	3833644	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgagcacggacaaggccaTggtggtggggaagcgtgact	10	5	17	9	3	0	1	0	1	0	0	0	4	0	3	1	6	2	1	1	6	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:3833644T>C	uc002fxb.1	-	18	2846	c.2695A>G	c.(2695-2697)ATG>GTG	p.M899V	ATP2A3_uc010ckn.1_Missense_Mutation_p.M1V|ATP2A3_uc002fwx.1_Missense_Mutation_p.M899V|ATP2A3_uc002fwy.1_Missense_Mutation_p.M899V|ATP2A3_uc002fwz.1_Missense_Mutation_p.M899V|ATP2A3_uc002fxa.1_Missense_Mutation_p.M899V|ATP2A3_uc002fxc.1_Missense_Mutation_p.M899V|ATP2A3_uc002fxd.1_Missense_Mutation_p.M899V	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	899	Helical; Name=8; (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		GACAAGGCCATGGTGGTGGGG	0.443													7	31					0	0	0.001984	0	0		C	3833644	C	C	3833644	3	2	45	1	0	0	0	0	1	0	0	0	1139	1464	51	3	531	3	ATP2A3	17	3833644	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1992699	3833644	77361566	917	35296											
SPNS3	201305	broad.mit.edu	37	chr17	4337322	4337322	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaggtctgcagggccaGtccccagggccaggcaggca	8	3	16	14	0	1	0	0	0	1	0	2	1	2	1	5	6	1	3	5	6	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:4337322G>T	uc002fxt.2	+	1	104	c.60G>T	c.(58-60)CAG>CAT	p.Q20H	SPNS3_uc002fxu.2_5'UTR	NM_182538	NP_872344	Q6ZMD2	SPNS3_HUMAN	spinster homolog 3	20					lipid transport|transmembrane transport	integral to membrane				large_intestine(1)	1						TGCAGGGCCAGTCCCCAGGGC	0.701													11	50					4.68919e-08	5.10819e-08	0.008291	1	0		T	4337322	T	T	4337322	3	4	45	1	0	0	0	0	1	0	0	0	15101	1020	36	5	62	5	SPNS3	17	4337322	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	503678	4337322	76857888	918	35297											
ARRB2	409	broad.mit.edu	37	chr17	4620985	4620985	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcccctccccgaggcctgCggcgtagactttgagattcg	5	10	11	15	4	1	2	0	1	1	2	4	4	2	2	5	2	1	1	5	2	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:4620985C>T	uc002fyj.2	+	7	651	c.423C>T	c.(421-423)TGC>TGT	p.C141C	ARRB2_uc002fyk.2_Silent_p.C126C|ARRB2_uc002fyl.2_Silent_p.C141C|ARRB2_uc010vsg.1_Silent_p.C162C|ARRB2_uc002fym.2_Silent_p.C126C|ARRB2_uc002fyn.2_5'UTR|ARRB2_uc010ckq.2_5'UTR|ARRB2_uc002fyo.2_5'UTR	NM_004313	NP_004304	P32121	ARRB2_HUMAN	arrestin, beta 2 isoform 1	141					cell chemotaxis|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|G-protein coupled receptor internalization|negative regulation of natural killer cell mediated cytotoxicity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|platelet activation|positive regulation of ERK1 and ERK2 cascade|proteasomal ubiquitin-dependent protein catabolic process|protein transport|protein ubiquitination|transcription from RNA polymerase II promoter|transforming growth factor beta receptor signaling pathway	coated pit|cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	angiotensin receptor binding|ubiquitin protein ligase binding				0						CCGAGGCCTGCGGCGTAGACT	0.567													16	94					0	0	0.00499	0	0		T	4620985	T	T	4620985	2	4	45	1	0	0	0	0	0	0	0	1	982	776	27	1		1	ARRB2	17	4620985	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	283663	4620985	76574225	919	35298											
CAMTA2	23125	broad.mit.edu	37	chr17	4883536	4883536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggcagaaggctcagtgcCtacaaccactgccaaactca	12	6	10	13	0	2	1	2	0	0	1	2	1	2	1	3	3	5	2	3	3	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:4883536C>T	uc002gah.1	-	9	1189	c.1081G>A	c.(1081-1083)GGC>AGC	p.G361S	CAMTA2_uc010cku.1_Missense_Mutation_p.G384S|CAMTA2_uc002gag.1_Missense_Mutation_p.G360S|CAMTA2_uc002gai.1_Missense_Mutation_p.G363S|CAMTA2_uc010ckv.1_Missense_Mutation_p.G8S|CAMTA2_uc010vsu.1_Missense_Mutation_p.G174S	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	361					cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						GGCTCAGTGCCTACAACCACT	0.617													10	47					0	0	0.010729	0	0		T	4883536	T	T	4883536	3	4	45	1	0	0	0	0	1	0	0	0	2617	681	24	4	2637	4	CAMTA2	17	4883536	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	262551	4883536	76311674	920	35299											
NUP88	4927	broad.mit.edu	37	chr17	5292206	5292206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggtttcagccagaacaCggaggggagactctgccact	9	7	14	11	1	2	2	1	0	1	2	2	4	2	3	2	5	3	1	2	5	1	1	rs149123666		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:5292206C>T	uc002gbo.1	-	11	1585	c.1559G>A	c.(1558-1560)CGT>CAT	p.R520H	NUP88_uc002gbn.2_5'Flank|NUP88_uc010vsx.1_Missense_Mutation_p.R520H|NUP88_uc010cle.1_Missense_Mutation_p.R519H|NUP88_uc010vsy.1_Missense_Mutation_p.R520H	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	520					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1						AGCCAGAACACGGAGGGGAGA	0.443													7	38					0	0	0.00308	0	0		T	5292206	T	T	5292206	3	4	45	1	0	0	0	0	1	0	0	0	10790	536	19	1	694	1	NUP88	17	5292206	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	408670	5292206	75903004	921	35300											
NLGN2	57555	broad.mit.edu	37	chr17	7319413	7319413	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgacctactggaccaacTtcgccaagactgggtgaggg	10	8	12	11	1	1	3	1	2	0	1	2	4	1	4	3	3	2	0	3	3	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:7319413T>G	uc002ggt.1	+	6	1694	c.1621T>G	c.(1621-1623)TTC>GTC	p.F541V		NM_020795	NP_065846	Q8NFZ4	NLGN2_HUMAN	neuroligin 2 precursor	541	Extracellular (Potential).				cell-cell junction maintenance|neuron cell-cell adhesion|positive regulation of synaptogenesis|regulation of inhibitory postsynaptic membrane potential|synapse assembly	cell surface|integral to plasma membrane|postsynaptic membrane	neurexin binding|receptor activity			central_nervous_system(1)	1		Prostate(122;0.157)				CTGGACCAACTTCGCCAAGAC	0.512													8	69					0	0	0.004482	0	0		G	7319413	G	G	7319413	3	3	45	1	0	0	0	0	1	0	0	0	10481	1609	56	5	1643	5	NLGN2	17	7319413	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2027207	7319413	73875797	922	35301											
TP53	7157	broad.mit.edu	37	chr17	7577121	7577121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaggacaggcacaaacacGcacctcaaagctgttccgtc	12	5	8	16	2	1	0	1	0	0	0	3	1	2	1	3	2	2	4	3	2	2	1	rs121913343		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:7577121G>A	uc002gim.2	-	8	1011	c.817C>T	c.(817-819)CGT>TGT	p.R273C	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141C|TP53_uc010cng.1_Missense_Mutation_p.R141C|TP53_uc002gii.1_Missense_Mutation_p.R141C|TP53_uc010cnh.1_Missense_Mutation_p.R273C|TP53_uc010cni.1_Missense_Mutation_p.R273C|TP53_uc002gij.2_Missense_Mutation_p.R273C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(467)|p.R273C(396)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.F270fs*72(1)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCACAAACACGCACCTCAAAG	0.542	R273C(SH10TC_STOMACH)|R273C(SUDHL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(8MGBA_CENTRAL_NERVOUS_SYSTEM)|R273C(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273C(BL70_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(SW1710_URINARY_TRACT)|R273C(RH30_SOFT_TISSUE)|R273C(PANC0213_PANCREAS)|R273C(SJRH30_SOFT_TISSUE)|R273C(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(RDES_BONE)|R273C(TT2609C02_THYROID)|R273C(MFE319_ENDOMETRIUM)|R273C(RPMI8402_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(EFO27_OVARY)|R273C(NCIH1048_LUNG)|R273C(KARPAS299_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			4	32					0	0	0.009096	0	0		A	7577121	A	A	7577121	3	1	45	1	0	0	0	0	1	0	0	0	16407	1087	38	1	469	1	TP53	17	7577121	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	257708	7577121	73618089	923	35302											
ARHGEF15	22899	broad.mit.edu	37	chr17	8219453	8219453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagcgcatcacccggctgcGcatgctgctgcaggtacctg	6	7	12	16	3	1	0	1	0	0	0	1	0	1	0	3	2	6	7	3	2	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:8219453G>A	uc002glc.2	+	9	1812	c.1691G>A	c.(1690-1692)CGC>CAC	p.R564H	ARHGEF15_uc002gld.2_Missense_Mutation_p.R564H|ARHGEF15_uc010vuw.1_Missense_Mutation_p.R453H	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	564	DH.				negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						ACCCGGCTGCGCATGCTGCTG	0.662													3	22					0	0	0.004672	0	0		A	8219453	A	A	8219453	3	1	45	1	0	0	0	0	1	0	0	0	898	1087	38	1	1721	1	ARHGEF15	17	8219453	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	642332	8219453	72975757	924	35303											
MYH1	4619	broad.mit.edu	37	chr17	10401084	10401084	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgctttttgtccagggcGgcacaggcagcatttgtcct	5	14	11	11	1	0	0	0	0	0	0	2	0	2	0	2	3	2	4	2	3	0	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:10401084G>A	uc002gmo.2	-	31	4426	c.4332C>T	c.(4330-4332)GCC>GCT	p.A1444A	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1444	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TGTCCAGGGCGGCACAGGCAG	0.443													5	117					0	0	0.001168	0	0		A	10401084	A	A	10401084	2	1	45	1	0	0	0	0	0	0	0	1	10047	1103	39	1		1	MYH1	17	10401084	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2181631	10401084	70794126	925	35304											
TNFRSF13B	23495	broad.mit.edu	37	chr17	16843050	16843050	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcactcagggaagcagaaGctgcaggtctccactggctc	9	7	12	13	0	2	1	1	0	1	1	4	2	2	2	1	3	4	5	1	3	2	0	rs145711865		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:16843050G>T	uc002gqs.1	-	5	706	c.693C>A	c.(691-693)AGC>AGA	p.S231R	TNFRSF13B_uc010vwt.1_RNA|TNFRSF13B_uc002gqt.1_Missense_Mutation_p.S185R	NM_012452	NP_036584	O14836	TR13B_HUMAN	tumor necrosis factor receptor 13B	231	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding|receptor activity			kidney(2)	2						GGAAGCAGAAGCTGCAGGTCT	0.687									IgA_Deficiency_Selective				15	41					8.60227e-14	9.71046e-14	0.004007	1	0		T	16843050	T	T	16843050	3	4	45	1	0	0	0	0	1	0	0	0	16312	962	34	5	192	5	TNFRSF13B	17	16843050	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	6441966	16843050	64352160	926	35305											
RAI1	10743	broad.mit.edu	37	chr17	17698099	17698099	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acctggcctccgagatcctgGggctgcaggaagccatcggt	7	7	14	13	2	0	1	0	0	0	1	3	3	2	2	5	5	2	2	5	5	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:17698099G>T	uc002grm.2	+	3	2306	c.1837G>T	c.(1837-1839)GGG>TGG	p.G613W	RAI1_uc002grn.1_Missense_Mutation_p.G613W	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	613						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CGAGATCCTGGGGCTGCAGGA	0.652													8	60					1.26484e-09	1.39521e-09	0.00308	1	0		T	17698099	T	T	17698099	3	4	45	1	0	0	0	0	1	0	0	0	13032	1232	43	5	1839	5	RAI1	17	17698099	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	855049	17698099	63497111	927	35306											
RAI1	10743	broad.mit.edu	37	chr17	17700556	17700556	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaccgaggccttcacatccCcggaggccctgcagcctggg	8	5	12	16	2	1	0	1	0	0	0	2	2	2	1	6	4	3	1	6	4	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:17700556C>A	uc002grm.2	+	3	4763	c.4294C>A	c.(4294-4296)CCG>ACG	p.P1432T	RAI1_uc002grn.1_Missense_Mutation_p.P1432T	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1432						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CTTCACATCCCCGGAGGCCCT	0.557													8	65					0.00307968	0.00315622	0.00308	1	0		A	17700556	A	A	17700556	3	1	45	1	0	0	0	0	1	0	0	0	13032	623	22	5	4296	5	RAI1	17	17700556	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2457	17700556	63494654	928	35307											
LRRC48	83450	broad.mit.edu	37	chr17	17896209	17896209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtacctggactaccggcGcattgatgaccacacagcaa	12	7	9	13	2	0	2	0	2	0	0	0	3	0	3	3	2	3	3	3	2	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:17896209G>A	uc010vxd.1	+	7	954	c.575G>A	c.(574-576)CGC>CAC	p.R192H	LRRC48_uc002gsa.2_Missense_Mutation_p.R192H|LRRC48_uc010vxc.1_Missense_Mutation_p.R192H|LRRC48_uc002gsb.2_Missense_Mutation_p.R192H	NM_001130090	NP_001123562	Q9H069	LRC48_HUMAN	leucine rich repeat containing 48 isoform a	192	LRRCT.					cytoplasm				pancreas(1)	1	all_neural(463;0.228)					GACTACCGGCGCATTGATGAC	0.537													5	63					0	0	0.001984	0	0		A	17896209	A	A	17896209	3	1	45	1	0	0	0	0	1	0	0	0	9023	1087	38	1	589	1	LRRC48	17	17896209	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	195653	17896209	63299001	929	35308											
MYO15A	51168	broad.mit.edu	37	chr17	18022183	18022183	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggaagaaggcaccggagccGgagaagcccaaacggagcct	13	1	16	11	3	0	2	0	0	0	2	0	6	0	5	4	5	4	1	4	5	4	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:18022183G>A	uc010vxh.1	+	2	407	c.69G>A	c.(67-69)CCG>CCA	p.P23P		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	23	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					caccggagccggagaagCCCA	0.413													8	23					0	0	0.00308	0	0		A	18022183	A	A	18022183	2	1	45	1	0	0	0	0	0	0	0	1	10081	1103	39	1		1	MYO15A	17	18022183	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	125974	18022183	63173027	930	35309											
MAPK7	5598	broad.mit.edu	37	chr17	19284193	19284193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgactgagtatgtggccaCgcgctggtaccgtgcgcccg	6	8	14	13	5	0	2	0	2	0	0	0	2	0	2	3	2	2	3	3	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:19284193C>T	uc002gvn.2	+	4	1057	c.671C>T	c.(670-672)ACG>ATG	p.T224M	B9D1_uc010cqm.1_5'Flank|B9D1_uc002gvl.3_5'Flank|MAPK7_uc002gvo.2_Missense_Mutation_p.T85M|MAPK7_uc002gvq.2_Missense_Mutation_p.T224M|MAPK7_uc002gvp.2_Missense_Mutation_p.T224M	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	224	Necessary for oligomerization (By similarity).|Protein kinase.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					TATGTGGCCACGCGCTGGTAC	0.542													4	23					0	0	0.009096	0	0		T	19284193	T	T	19284193	3	4	45	1	0	0	0	0	1	0	0	0	9300	536	19	1	681	1	MAPK7	17	19284193	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1262010	19284193	61911017	931	35310											
LGALS9	3965	broad.mit.edu	37	chr17	25967679	25967679	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtttgaagatggagggtaCgtggtgtgcaacacgaggca	10	8	17	6	3	0	2	0	1	0	1	0	4	0	3	0	5	3	4	0	5	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:25967679C>T	uc002gzp.2	+	3	331	c.213C>T	c.(211-213)TAC>TAT	p.Y71Y	LGALS9_uc002gzq.2_Silent_p.Y71Y|LGALS9_uc002gzr.2_Silent_p.Y14Y|LGALS9_uc010waa.1_Silent_p.Y14Y|LGALS9_uc002gzs.2_Silent_p.Y71Y	NM_009587	NP_033665	O00182	LEG9_HUMAN	galectin-9 isoform long	71	Galectin 1.				positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|extracellular region	galactose binding|signal transducer activity				0	Lung NSC(42;0.0103)		BRCA - Breast invasive adenocarcinoma(3;0.0141)	UCEC - Uterine corpus endometrioid carcinoma (53;0.155)		ATGGAGGGTACGTGGTGTGCA	0.547													6	160					0	0	0.001168	0	0		T	25967679	T	T	25967679	2	4	45	1	0	0	0	0	0	0	0	1	8764	547	19	1		1	LGALS9	17	25967679	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	6683486	25967679	55227531	932	35311											
SLC13A2	9058	broad.mit.edu	37	chr17	26816239	26816239	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcccacctgcaggaggcctActgcgcgtatgccatcatcc	7	8	9	17	2	1	0	1	0	0	0	3	1	3	1	5	2	4	2	5	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:26816239A>G	uc002hbh.2	+	2	177	c.110A>G	c.(109-111)TAC>TGC	p.Y37C	SLC13A2_uc010wal.1_Intron|SLC13A2_uc010wam.1_5'UTR|SLC13A2_uc010wan.1_Missense_Mutation_p.Y37C|SLC13A2_uc010wao.1_Intron|SLC13A2_uc002hbi.2_5'UTR	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	37						integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	CAGGAGGCCTACTGCGCGTAT	0.597													16	79					0	0	0.006122	0	0		G	26816239	G	G	26816239	3	3	45	1	0	0	0	0	1	0	0	0	14417	391	14	3	116	3	SLC13A2	17	26816239	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	848560	26816239	54378971	933	35312											
ALDOC	230	broad.mit.edu	37	chr17	26900833	26900833	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcattgagtgcagaggcttGcagggcacgcccataggaga	10	6	16	9	1	0	3	0	1	0	2	0	4	0	3	1	4	2	5	1	4	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:26900833G>T	uc002hbp.2	-	8	1064	c.919C>A	c.(919-921)CAA>AAA	p.Q307K	PIGS_uc002hbn.2_5'Flank|PIGS_uc002hbo.2_5'Flank|PIGS_uc010wap.1_5'Flank|ALDOC_uc010cro.2_Missense_Mutation_p.Q279K	NM_005165	NP_005156	P09972	ALDOC_HUMAN	fructose-bisphosphate aldolase C	307					fructose 1,6-bisphosphate metabolic process|gluconeogenesis|glycolysis	cytosol	cytoskeletal protein binding|fructose-bisphosphate aldolase activity			ovary(1)	1	Lung NSC(42;0.00431)					GCAGAGGCTTGCAGGGCACGC	0.612													27	100					6.32553e-13	7.10608e-13	0.004656	1	0		T	26900833	T	T	26900833	3	4	45	1	0	0	0	0	1	0	0	0	509	1328	46	5	183	5	ALDOC	17	26900833	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	84594	26900833	54294377	934	35313											
SUPT6H	6830	broad.mit.edu	37	chr17	27008285	27008285	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttcaggctcaaggatgTccaatcaatggatgagctga	11	12	10	8	0	3	2	3	2	0	0	4	4	4	4	1	3	1	2	1	3	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:27008285T>A	uc002hby.2	+	12	1451	c.1361T>A	c.(1360-1362)GTC>GAC	p.V454D	SUPT6H_uc010crt.2_Missense_Mutation_p.V454D	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	454					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					CTCAAGGATGTCCAATCAATG	0.443													7	114					0	0	0.00308	0	0		A	27008285	A	A	27008285	3	1	45	1	0	0	0	0	1	0	0	0	15425	1667	58	5	1403	5	SUPT6H	17	27008285	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	107452	27008285	54186925	935	35314											
GIT1	28964	broad.mit.edu	37	chr17	27905345	27905345	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctcttcgatccacctcGtcatacacgtccatggcgag	7	13	7	14	4	2	0	1	0	1	0	7	2	4	0	3	1	1	0	3	1	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:27905345G>A	uc002hef.2	-	9	1069	c.855C>T	c.(853-855)GAC>GAT	p.D285D	GIT1_uc002heg.2_Silent_p.D294D|GIT1_uc010wbg.1_Silent_p.D294D|GIT1_uc010csb.1_Silent_p.D285D	NM_014030	NP_054749	Q9Y2X7	GIT1_HUMAN	G protein-coupled receptor kinase interactor 1	285	ARHGEF6-binding (By similarity).|PTK2-binding (By similarity).				regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|focal adhesion	ARF GTPase activator activity|protein binding|zinc ion binding				0				READ - Rectum adenocarcinoma(3;0.0419)|Colorectal(3;0.069)		GATCCACCTCGTCATACACGT	0.582													21	109					0	0	0.00278	0	0		A	27905345	A	A	27905345	2	1	45	1	0	0	0	0	0	0	0	1	6411	1136	40	1		1	GIT1	17	27905345	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	897060	27905345	53289865	936	35315											
CCDC55	84081	broad.mit.edu	37	chr17	28511844	28511844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaggtcatagagacccctGagaatgacttcaagcaccac	16	6	8	11	0	2	3	2	2	0	2	2	5	2	3	3	1	1	1	3	1	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:28511844G>A	uc002heu.2	+	7	857	c.829G>A	c.(829-831)GAG>AAG	p.E277K	CCDC55_uc002hev.2_Missense_Mutation_p.E223K|CCDC55_uc010wbl.1_Missense_Mutation_p.E223K|CCDC55_uc010wbm.1_Missense_Mutation_p.E223K|CCDC55_uc002hex.2_Missense_Mutation_p.E223K	NM_032141	NP_115517	Q9H0G5	NSRP1_HUMAN	coiled-coil domain containing 55 isoform 1	277					developmental process|nucleocytoplasmic transport|regulation of alternative nuclear mRNA splicing, via spliceosome	nuclear speck|ribonucleoprotein complex	mRNA binding|protein binding				0						AGAGACCCCTGAGAATGACTT	0.493													13	33					0	0	0.001855	0	0		A	28511844	A	A	28511844	3	1	45	1	0	0	0	0	1	0	0	0	2828	1291	45	4	855	4	CCDC55	17	28511844	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	606499	28511844	52683366	937	35316											
CDK5R1	8851	broad.mit.edu	37	chr17	30814811	30814811	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaagagaatcgtggccgTgtcggccaagaagaagaact	13	7	14	7	3	0	4	0	0	0	4	2	6	0	5	2	3	1	0	2	3	6	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:30814811T>C	uc002hhn.2	+	2	394	c.173T>C	c.(172-174)GTG>GCG	p.V58A	CDK5R1_uc010wca.1_Missense_Mutation_p.V58A|CDK5R1_uc010ctc.2_5'Flank	NM_003885	NP_003876	Q15078	CD5R1_HUMAN	cyclin-dependent kinase 5, regulatory subunit 1	58					axon guidance|axonal fasciculation|brain development|cell proliferation|embryo development|ionotropic glutamate receptor signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of transcription, DNA-dependent|neuron cell-cell adhesion|neuron migration|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of neuron apoptosis|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation	axon|contractile fiber|cyclin-dependent protein kinase 5 holoenzyme complex|cytosol|dendritic spine|growth cone|neuromuscular junction|neuronal cell body|perinuclear region of cytoplasm|plasma membrane	cadherin binding|calcium ion binding|protein kinase binding			ovary(1)	1		Breast(31;0.159)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.0938)			ATCGTGGCCGTGTCGGCCAAG	0.542													18	95					0	0	0.006122	0	0		C	30814811	C	C	30814811	3	2	45	1	0	0	0	0	1	0	0	0	3146	1696	59	3	175	3	CDK5R1	17	30814811	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2302967	30814811	50380399	938	35317											
UNC45B	146862	broad.mit.edu	37	chr17	33497136	33497136	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccctcctcacttccaggtgGctgtgcaatatgtccataga	8	12	8	13	0	1	1	1	0	0	1	5	1	5	1	4	2	1	2	4	2	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:33497136G>A	uc002hja.2	+	12	1648	c.1551G>A	c.(1549-1551)TGG>TGA	p.W517*	UNC45B_uc002hjb.2_Nonsense_Mutation_p.W517*|UNC45B_uc002hjc.2_Nonsense_Mutation_p.W517*|UNC45B_uc010cto.2_Intron	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	517					cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				CTTCCAGGTGGCTGTGCAATA	0.602													35	123					0	0	0.004289	0	0		A	33497136	A	A	33497136	4	1	45	1	0	0	0	0	0	1	0	0	17015	1212	42	2	1593	2	UNC45B	17	33497136	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2682325	33497136	47698074	939	35318											
TBC1D3B	414059	broad.mit.edu	37	chr17	34493416	34493416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaactttccaagtggaggcCgcagaggcaaggccctgagg	11	5	15	10	1	0	3	0	1	0	2	1	4	1	4	3	5	1	2	3	5	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:34493416C>T	uc002hky.2	-	14	1759	c.1609G>A	c.(1609-1611)GGC>AGC	p.G537S		NM_001001417	NP_001001417	Q8IZP1	TBC3A_HUMAN	TBC1 domain family, member 3B	537						intracellular	Rab GTPase activator activity				0		Breast(25;0.102)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		aagtggaggccgcagaggcaa	0.393													10	200					0	0	0.006214	0	0		T	34493416	T	T	34493416	3	4	45	1	0	0	0	0	1	0	0	0	15645	652	23	1	44	1	TBC1D3B	17	34493416	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	996280	34493416	46701794	940	35319											
SYNRG	11276	broad.mit.edu	37	chr17	35937667	35937667	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttgttcctgcccagatgTacttatatcacaagatacta	13	14	5	9	0	1	2	1	0	0	2	2	2	2	2	2	0	3	2	2	0	7	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:35937667T>C	uc002hoa.2	-	7	717	c.634A>G	c.(634-636)ACA>GCA	p.T212A	SYNRG_uc010wde.1_Intron|SYNRG_uc010wdf.1_Intron|SYNRG_uc002hoc.2_Intron|SYNRG_uc002hoe.2_Intron|SYNRG_uc002hod.2_Intron|SYNRG_uc010wdg.1_Intron|SYNRG_uc002hob.2_Missense_Mutation_p.T212A|SYNRG_uc002hof.2_5'Flank|SYNRG_uc010cvd.1_Intron|SYNRG_uc002hog.1_Missense_Mutation_p.T346A|SYNRG_uc010wdh.1_Missense_Mutation_p.T313A	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	212					endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						TGCCCAGATGTACTTATATCA	0.378													25	151					0	0	0.004656	0	0		C	35937667	C	C	35937667	3	2	45	1	0	0	0	0	1	0	0	0	15485	1638	57	3	3447	3	SYNRG	17	35937667	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1444251	35937667	45257543	941	35320											
PLXDC1	57125	broad.mit.edu	37	chr17	37226124	37226124	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggacctcgatgaagaagagCgcagcattggatgtggggtg	10	7	17	7	3	0	3	0	1	0	2	1	6	0	5	1	4	2	2	1	4	2	1	rs61742536		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:37226124C>T	uc002hrg.2	-	13	1580	c.1368G>A	c.(1366-1368)GCG>GCA	p.A456A	uc002hre.1_Intron|uc002hrf.1_Intron|PLXDC1_uc010cvr.1_Silent_p.A152A|PLXDC1_uc002hrh.2_RNA|PLXDC1_uc002hri.2_RNA|PLXDC1_uc002hrj.1_RNA|PLXDC1_uc002hrk.1_RNA	NM_020405	NP_065138	Q8IUK5	PXDC1_HUMAN	plexin domain containing 1 precursor	456	Cytoplasmic (Potential).				angiogenesis	cytoplasm|extracellular region|integral to membrane|tight junction				ovary(1)|kidney(1)|skin(1)	3						TGAAGAAGAGCGCAGCATTGG	0.612											OREG0024368	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	69					0	0	0.00499	0	0		T	37226124	T	T	37226124	2	4	45	1	0	0	0	0	0	0	0	1	12136	755	27	1		1	PLXDC1	17	37226124	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1288457	37226124	43969086	942	35321											
PLXDC1	57125	broad.mit.edu	37	chr17	37243922	37243922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctggggtccagctctatgCggtgatattcaaagatgctc	8	12	12	9	1	2	2	1	1	1	1	4	2	3	2	1	3	4	3	1	3	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:37243922C>T	uc002hrg.2	-	8	1057	c.845G>A	c.(844-846)CGC>CAC	p.R282H	uc002hrf.1_Intron|PLXDC1_uc010cvr.1_5'UTR|PLXDC1_uc002hrh.2_RNA|PLXDC1_uc002hri.2_RNA|PLXDC1_uc002hrj.1_RNA|PLXDC1_uc002hrk.1_RNA	NM_020405	NP_065138	Q8IUK5	PXDC1_HUMAN	plexin domain containing 1 precursor	282	Extracellular (Potential).				angiogenesis	cytoplasm|extracellular region|integral to membrane|tight junction				ovary(1)|kidney(1)|skin(1)	3						CAGCTCTATGCGGTGATATTC	0.542													10	39					0	0	0.010729	0	0		T	37243922	T	T	37243922	3	4	45	1	0	0	0	0	1	0	0	0	12136	768	27	1	685	1	PLXDC1	17	37243922	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	17798	37243922	43951288	943	35322											
ERBB2	2064	broad.mit.edu	37	chr17	37866359	37866359	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacgcgcactgtctgtgccGgtggctgtgcccgctgcaag	4	9	15	13	4	1	1	0	1	1	0	1	1	1	1	2	2	3	4	2	2	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:37866359G>T	uc002hso.2	+	6	902	c.664G>T	c.(664-666)GGT>TGT	p.G222C	ERBB2_uc002hsm.2_Missense_Mutation_p.G192C|ERBB2_uc010cwa.2_Missense_Mutation_p.G207C|ERBB2_uc002hsp.2_Missense_Mutation_p.G25C|ERBB2_uc010cwb.2_Missense_Mutation_p.G222C|ERBB2_uc010wek.1_Intron|ERBB2_uc002hsl.2_Missense_Mutation_p.G192C|ERBB2_uc002hsn.1_Missense_Mutation_p.G222C	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	222	Extracellular (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	TGTCTGTGCCGGTGGCTGTGC	0.647		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			22	105					1.64293e-13	1.84863e-13	0.00333	1	0		T	37866359	T	T	37866359	3	4	45	1	0	0	0	0	1	0	0	0	5214	1116	39	5	686	5	ERBB2	17	37866359	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	622437	37866359	43328851	944	35323											
GRB7	2886	broad.mit.edu	37	chr17	37902012	37902012	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccgcctcagcctgcccaTgccagcctccggcacgagcc	6	4	9	22	3	1	0	1	0	0	0	2	1	2	0	9	1	5	1	9	1	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:37902012T>C	uc002hsr.2	+	12	1491	c.1241T>C	c.(1240-1242)ATG>ACG	p.M414T	GRB7_uc002hss.2_Missense_Mutation_p.M414T|GRB7_uc010cwc.2_Missense_Mutation_p.M414T|GRB7_uc002hst.2_Missense_Mutation_p.M414T	NM_005310	NP_005301	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	414					blood coagulation|epidermal growth factor receptor signaling pathway|leukocyte migration|negative regulation of translation|positive regulation of cell migration|stress granule assembly	cytosol|focal adhesion|stress granule	phosphatidylinositol binding|protein kinase binding|SH3/SH2 adaptor activity			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			AGCCTGCCCATGCCAGCCTCC	0.637													16	83					0	0	0.006122	0	0		C	37902012	C	C	37902012	3	2	45	1	0	0	0	0	1	0	0	0	6775	1464	51	3	1283	3	GRB7	17	37902012	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	35653	37902012	43293198	945	35324											
GSDMA	284110	broad.mit.edu	37	chr17	38126776	38126776	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctgaaggagatgcaagAtcaaggggagaacctgtatg	14	8	13	6	0	1	4	1	1	0	3	2	6	2	4	2	3	2	2	2	3	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:38126776A>C	uc002htl.1	+	4	552	c.434A>C	c.(433-435)GAT>GCT	p.D145A	GSDMA_uc002htm.1_Missense_Mutation_p.D145A	NM_178171	NP_835465	Q96QA5	GSDMA_HUMAN	gasdermin 1	145					apoptosis|induction of apoptosis	perinuclear region of cytoplasm					0						GAGATGCAAGATCAAGGGGAG	0.587													4	30					0	0	0.001168	0	0		C	38126776	C	C	38126776	3	2	45	1	0	0	0	0	1	0	0	0	6832	333	12	5	444	5	GSDMA	17	38126776	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	224764	38126776	43068434	946	35325											
NR1D1	9572	broad.mit.edu	37	chr17	38252191	38252191	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cggagcagggggtggcgaggGgcccatggggcctggggtgg	4	4	25	8	2	0	0	0	0	0	0	0	2	0	1	2	11	1	1	2	11	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:38252191G>T	uc002htz.1	-	5	1380	c.754C>A	c.(754-756)CCC>ACC	p.P252T	NR1D1_uc010cwq.1_Intron|NR1D1_uc010cwr.1_Intron	NM_021724	NP_068370	P20393	NR1D1_HUMAN	nuclear receptor subfamily 1, group D, member 1	252					cellular response to lipopolysaccharide|negative regulation of receptor biosynthetic process|negative regulation of toll-like receptor 4 signaling pathway|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			skin(1)	1	Colorectal(19;0.000442)					GGTGGCGAGGGGCCCATGGGG	0.657													5	30					0.000602214	0.000624948	0.000602	1	0		T	38252191	T	T	38252191	3	4	45	1	0	0	0	0	1	0	0	0	10634	1232	43	5	1106	5	NR1D1	17	38252191	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	125415	38252191	42943019	947	35326											
KRT24	192666	broad.mit.edu	37	chr17	38859493	38859493	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accttgtctaggtaattggcCaagcggtcattgaggttctg	8	13	12	8	1	3	1	1	1	2	0	3	1	3	1	2	4	1	2	2	4	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:38859493C>A	uc002hvd.2	-	1	510	c.453G>T	c.(451-453)TTG>TTT	p.L151F		NM_019016	NP_061889	Q2M2I5	K1C24_HUMAN	keratin 24	151	Rod.|Coil 1A.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.00526)				GGTAATTGGCCAAGCGGTCAT	0.522													14	305					0.000308642	0.000322201	0.003163	1	0		A	38859493	A	A	38859493	3	1	45	1	0	0	0	0	1	0	0	0	8477	593	21	5	1156	5	KRT24	17	38859493	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	607302	38859493	42335717	948	35327											
KRT13	3860	broad.mit.edu	37	chr17	39661394	39661394	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttcaggtgccagtcacGgatcttcacctccaggtcag	7	10	10	14	1	5	0	4	0	1	0	6	1	6	1	3	3	2	1	3	3	0	2	rs142183272		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:39661394G>A	uc002hwu.1	-	1	472	c.409C>T	c.(409-411)CGT>TGT	p.R137C	KRT13_uc002hwv.1_Missense_Mutation_p.R137C|KRT13_uc002hww.2_Missense_Mutation_p.R30C|KRT13_uc010wfr.1_Missense_Mutation_p.R30C|KRT13_uc010cxo.2_Missense_Mutation_p.R137C|KRT13_uc002hwx.1_Missense_Mutation_p.R125C	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	137	Coil 1A.|Rod.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				TGCCAGTCACGGATCTTCACC	0.597													23	107					0	0	0.004656	0	0		A	39661394	A	A	39661394	3	1	45	1	0	0	0	0	1	0	0	0	8466	1116	39	1	999	1	KRT13	17	39661394	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	801901	39661394	41533816	949	35328											
JUP	3728	broad.mit.edu	37	chr17	39925887	39925887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacatggcctcccgcaccCgtttggccctggctgttgtg	3	10	13	15	2	0	0	0	0	0	0	1	0	1	0	4	4	0	5	4	4	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:39925887C>T	uc002hxq.2	-	3	528	c.251G>A	c.(250-252)CGG>CAG	p.R84Q	JUP_uc010wfs.1_Missense_Mutation_p.R84Q|JUP_uc002hxr.2_Missense_Mutation_p.R84Q|JUP_uc002hxs.2_Missense_Mutation_p.R84Q	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	84					adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		CTCCCGCACCCGTTTGGCCCT	0.667													3	25					0	0	0.004672	0	0		T	39925887	T	T	39925887	3	4	45	1	0	0	0	0	1	0	0	0	7988	652	23	1	2034	1	JUP	17	39925887	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	264493	39925887	41269323	950	35329											
STAT5B	6777	broad.mit.edu	37	chr17	40362289	40362289	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatgagtaggtcatgggcCtgttgcttgtttacaaaccc	9	14	10	8	0	1	1	1	1	0	0	1	1	1	1	2	2	3	4	2	2	4	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:40362289C>A	uc002hzh.2	-	15	1975	c.1806G>T	c.(1804-1806)CAG>CAT	p.Q602H		NM_012448	NP_036580	P51692	STA5B_HUMAN	signal transducer and activator of transcription	602	SH2.				2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|JAK-STAT cascade involved in growth hormone signaling pathway|oxaloacetate metabolic process|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|glucocorticoid receptor binding|sequence-specific DNA binding transcription factor activity			ovary(3)|lung(2)|skin(1)	6		all_cancers(22;4.15e-07)|all_epithelial(22;2.83e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.135)	Dasatinib(DB01254)	GGTCATGGGCCTGTTGCTTGT	0.483													15	83					9.16793e-09	1.00417e-08	0.00499	1	0		A	40362289	A	A	40362289	3	1	45	1	0	0	0	0	1	0	0	0	15294	680	24	5	577	5	STAT5B	17	40362289	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	436402	40362289	40832921	951	35330											
TUBG2	27175	broad.mit.edu	37	chr17	40815443	40815443	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgtttccctaccaggaCgagatgagcgacgtagtggt	9	10	13	9	3	1	2	1	1	0	1	2	5	2	3	2	2	2	2	2	2	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:40815443C>T	uc010wgr.1	+	6	784	c.528C>T	c.(526-528)GAC>GAT	p.D176D	TUBG2_uc002iaq.2_Silent_p.D18D|TUBG2_uc002iar.2_Silent_p.D23D|TUBG2_uc002ias.2_Silent_p.D18D|TUBG2_uc002iap.2_Silent_p.D23D	NM_016437	NP_057521	Q9NRH3	TBG2_HUMAN	tubulin, gamma 2	176					G2/M transition of mitotic cell cycle|microtubule-based process|protein polymerization	cytosol	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.141)		CCTACCAGGACGAGATGAGCG	0.512													8	236					0	0	0.00308	0	0		T	40815443	T	T	40815443	2	4	45	1	0	0	0	0	0	0	0	1	16791	535	19	1		1	TUBG2	17	40815443	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	453154	40815443	40379767	952	35331											
GRN	2896	broad.mit.edu	37	chr17	42430105	42430105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggggtaccaagtgtttgcGcagggaggccccgcgctggg	6	6	18	11	3	0	0	0	0	0	0	0	1	0	1	3	5	2	4	3	5	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:42430105G>A	uc002igp.1	+	13	1940	c.1721G>A	c.(1720-1722)CGC>CAC	p.R574H	GRN_uc002igr.1_3'UTR	NM_002087	NP_002078	P28799	GRN_HUMAN	granulin precursor	574					signal transduction	extracellular space	cytokine activity|growth factor activity			ovary(2)|central_nervous_system(2)|skin(1)	5		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		AAGTGTTTGCGCAGGGAGGCC	0.662													13	51					0	0	0.013537	0	0		A	42430105	A	A	42430105	3	1	45	1	0	0	0	0	1	0	0	0	6820	1087	38	1	1767	1	GRN	17	42430105	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1614662	42430105	38765105	953	35332											
DBF4B	80174	broad.mit.edu	37	chr17	42824762	42824762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctcccccgccggcagcatCttcagagtgcccagcaccgg	6	6	10	19	3	3	1	1	0	2	1	4	1	3	1	5	2	3	3	5	2	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:42824762C>T	uc002ihf.2	+	12	1156	c.943C>T	c.(943-945)CTT>TTT	p.L315F	DBF4B_uc002ihe.2_Missense_Mutation_p.L129F|DBF4B_uc010wjc.1_Missense_Mutation_p.L299F	NM_145663	NP_663696	Q8NFT6	DBF4B_HUMAN	DBF4 homolog B isoform 1	315	DBF4-type.				cell cycle	nucleus	nucleic acid binding|zinc ion binding				0		Prostate(33;0.0322)				CCGGCAGCATCTTCAGAGTGC	0.617													16	70					0	0	0.00499	0	0		T	42824762	T	T	42824762	3	4	45	1	0	0	0	0	1	0	0	0	4252	913	32	4	1034	4	DBF4B	17	42824762	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	394657	42824762	38370448	954	35333											
STH	246744	broad.mit.edu	37	chr17	44076862	44076862	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggaaggtgtgggcaccAtttggcccagttcttacagc	7	11	13	10	0	1	0	0	0	1	0	1	1	1	1	2	4	2	3	2	4	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:44076862A>G	uc002ijy.2	+	1	247	c.217A>G	c.(217-219)ATT>GTT	p.I73V	MAPT_uc010dau.2_Intron|MAPT_uc002ijr.3_Intron|MAPT_uc002ijs.3_Intron|MAPT_uc002ijx.3_Intron|MAPT_uc002ijt.3_Intron|MAPT_uc002iju.3_Intron|MAPT_uc002ijv.3_Intron	NM_001007532	NP_001007533	Q8IWL8	STH_HUMAN	saitohin	73						cytoplasm|nucleus					0						TGTGGGCACCATTTGGCCCAG	0.537													7	31					0	0	0.001984	0	0		G	44076862	G	G	44076862	3	3	45	1	0	0	0	0	1	0	0	0	15306	217	8	3	219	3	STH	17	44076862	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1252100	44076862	37118348	955	35334											
B4GALNT2	124872	broad.mit.edu	37	chr17	47233956	47233956	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaggacccgatgccccCgtctatgaggtgagtccttc	7	11	11	12	2	1	3	0	3	1	0	3	5	2	4	4	2	1	0	4	2	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:47233956C>T	uc002ion.2	+	5	728	c.669C>T	c.(667-669)CCC>CCT	p.P223P	B4GALNT2_uc010wlt.1_Silent_p.P137P|B4GALNT2_uc010wlu.1_Silent_p.P163P	NM_153446	NP_703147	Q8NHY0	B4GN2_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 2	223	Lumenal (Potential).				lipid glycosylation|negative regulation of cell-cell adhesion|UDP-N-acetylgalactosamine metabolic process	integral to Golgi membrane	acetylgalactosaminyltransferase activity			large_intestine(1)|ovary(1)	2			all cancers(6;0.000316)			CCGATGCCCCCGTCTATGAGG	0.572													28	104					0	0	0.010818	0	0		T	47233956	T	T	47233956	2	4	45	1	0	0	0	0	0	0	0	1	1268	639	23	1		1	B4GALNT2	17	47233956	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3157094	47233956	33961254	956	35335											
CACNA1G	8913	broad.mit.edu	37	chr17	48704077	48704077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagatgtgctgagtctctccGgtttatcctctgacccagca	8	12	9	12	1	2	3	0	2	2	1	5	3	4	3	3	1	2	3	3	1	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:48704077G>A	uc002irk.1	+	38	7471	c.7099G>A	c.(7099-7101)GGT>AGT	p.G2367S	CACNA1G_uc002irj.1_Missense_Mutation_p.G2161S|CACNA1G_uc002irl.1_Missense_Mutation_p.G2251S|CACNA1G_uc002irm.1_Missense_Mutation_p.G2288S|CACNA1G_uc002irn.1_Missense_Mutation_p.G2233S|CACNA1G_uc002iro.1_Missense_Mutation_p.G2240S|CACNA1G_uc002irp.1_Missense_Mutation_p.G2322S|CACNA1G_uc002irq.1_Missense_Mutation_p.G2344S|CACNA1G_uc002irr.1_Missense_Mutation_p.G2274S|CACNA1G_uc002irs.1_Missense_Mutation_p.G2311S|CACNA1G_uc002irt.1_Missense_Mutation_p.G2256S|CACNA1G_uc002irv.1_Missense_Mutation_p.G2263S|CACNA1G_uc002irw.1_Missense_Mutation_p.G2296S|CACNA1G_uc002iru.1_Missense_Mutation_p.G2333S|CACNA1G_uc002irx.1_Missense_Mutation_p.G2108S|CACNA1G_uc002iry.1_Missense_Mutation_p.G2097S|CACNA1G_uc002irz.1_Missense_Mutation_p.G2180S|CACNA1G_uc002isa.1_Missense_Mutation_p.G2153S|CACNA1G_uc002isb.1_Missense_Mutation_p.G2194S|CACNA1G_uc002isc.1_Missense_Mutation_p.G2269S|CACNA1G_uc002isd.1_Missense_Mutation_p.G2162S|CACNA1G_uc002ise.1_Missense_Mutation_p.G2190S|CACNA1G_uc002isf.1_Missense_Mutation_p.G2217S|CACNA1G_uc002isg.1_Missense_Mutation_p.G2135S|CACNA1G_uc002ish.1_Missense_Mutation_p.G2142S|CACNA1G_uc002isi.1_Missense_Mutation_p.G2130S	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	2367	Cytoplasmic (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GAGTCTCTCCGGTTTATCCTC	0.622											OREG0024569	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	131					0	0	0.008291	0	0		A	48704077	A	A	48704077	3	1	45	1	0	0	0	0	1	0	0	0	2547	1116	39	1	7516	1	CACNA1G	17	48704077	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1470121	48704077	32491133	957	35336											
CA10	56934	broad.mit.edu	37	chr17	49825029	49825029	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccattgaggaggtgctcCgacccttggctgtcctcact	5	12	11	13	1	1	1	1	1	0	0	4	3	4	2	4	3	1	2	4	3	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:49825029C>T	uc002itw.3	-	4	1415	c.429G>A	c.(427-429)TCG>TCA	p.S143S	CA10_uc002itu.3_Silent_p.S72S|CA10_uc002itv.3_Silent_p.S149S|CA10_uc002itx.3_Silent_p.S143S|CA10_uc002ity.3_Silent_p.S143S|CA10_uc002itz.2_Silent_p.S143S	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	143					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			GGAGGTGCTCCGACCCTTGGC	0.507													37	176					0	0	0.00874	0	0		T	49825029	T	T	49825029	2	4	45	1	0	0	0	0	0	0	0	1	2514	639	23	1		1	CA10	17	49825029	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1120952	49825029	31370181	958	35337											
RPS6KB1	6198	broad.mit.edu	37	chr17	58013600	58013600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaaagaaatgctgcttctCgtctgggagctggtcctggg	8	11	14	8	1	2	2	0	1	2	1	4	3	3	3	1	3	3	3	1	3	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:58013600C>T	uc002ixy.2	+	11	1106	c.1003C>T	c.(1003-1005)CGT>TGT	p.R335C	RPS6KB1_uc010ddj.1_Missense_Mutation_p.R335C|RPS6KB1_uc010wom.1_Missense_Mutation_p.R282C|RPS6KB1_uc010won.1_Missense_Mutation_p.R312C|RPS6KB1_uc010woo.1_Missense_Mutation_p.R270C	NM_003161	NP_003152	P23443	KS6B1_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	335	Protein kinase.				apoptosis|G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|negative regulation of apoptosis|phosphatidylinositol-mediated signaling|positive regulation of mitotic cell cycle|positive regulation of translational initiation|TOR signaling cascade	cell junction|cytoplasm|cytosol|mitochondrial outer membrane|nucleus|nucleus|synapse|synaptosome	ATP binding|protein binding|protein kinase activity			large_intestine(1)	1	all_cancers(5;1.63e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.57e-12)|all cancers(12;6.41e-11)			TGCTGCTTCTCGTCTGGGAGC	0.398													31	123					0	0	0.003271	0	0		T	58013600	T	T	58013600	3	4	45	1	0	0	0	0	1	0	0	0	13681	884	31	1	1045	1	RPS6KB1	17	58013600	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	8188571	58013600	23181610	959	35338											
USP32	84669	broad.mit.edu	37	chr17	58285503	58285503	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcagctgtttttttaaacCtgtgtacttttcatccatat	9	19	4	9	0	2	0	2	0	0	0	3	0	3	0	2	0	3	3	2	0	4	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:58285503C>A	uc002iyo.1	-	24	3128	c.2842G>T	c.(2842-2844)GGT>TGT	p.G948C	USP32_uc002iyn.1_Missense_Mutation_p.G618C	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	948					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			TTTTTTAAACCTGTGTACTTT	0.343													5	108					0.00198382	0.00203909	0.001984	1	0		A	58285503	A	A	58285503	3	1	45	1	0	0	0	0	1	0	0	0	17089	681	24	5	2016	5	USP32	17	58285503	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	271903	58285503	22909707	960	35339											
FTSJ3	117246	broad.mit.edu	37	chr17	61902275	61902275	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagagtgaggtcaccctcAgcatagccttcagccttagg	10	9	11	11	0	3	2	3	1	0	1	3	3	3	2	3	2	3	1	3	2	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:61902275A>G	uc002jbz.2	-	8	804	c.726T>C	c.(724-726)GCT>GCC	p.A242A	FTSJ3_uc002jca.2_Silent_p.A242A|PSMC5_uc002jcb.2_5'Flank|PSMC5_uc010ddy.2_5'Flank|PSMC5_uc010ddz.2_5'Flank|PSMC5_uc002jcc.2_5'Flank|PSMC5_uc002jcd.2_5'Flank	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	242					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						GGTCACCCTCAGCATAGCCTT	0.557													13	52					0	0	0.013537	0	0		G	61902275	G	G	61902275	2	3	45	1	0	0	0	0	0	0	0	1	6103	175	7	3		3	FTSJ3	17	61902275	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	3616772	61902275	19292935	961	35340											
SCN4A	6329	broad.mit.edu	37	chr17	62022940	62022940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcagccagaagatgaggCagacaagcagcacattcatg	16	5	11	9	0	2	5	2	1	0	4	2	5	2	5	1	1	3	3	1	1	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:62022940C>T	uc002jds.1	-	19	3577	c.3500G>A	c.(3499-3501)TGC>TAC	p.C1167Y		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1167	III.|Helical; Name=S5 of repeat III; (Potential).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GAAGATGAGGCAGACAAGCAG	0.577													64	255					0	0	0.01441	0	0		T	62022940	T	T	62022940	3	4	45	1	0	0	0	0	1	0	0	0	13945	710	25	2	2034	2	SCN4A	17	62022940	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	120665	62022940	19172270	962	35341											
SCN4A	6329	broad.mit.edu	37	chr17	62050177	62050177	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagggcccagaggcaccaGggtgcacagagatggtctgg	9	5	16	11	0	2	2	1	0	1	2	2	3	2	2	2	5	1	2	2	5	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:62050177G>T	uc002jds.1	-	1	102	c.25C>A	c.(25-27)CTG>ATG	p.L9M		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	9					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	AGAGGCACCAGGGTGCACAGA	0.687													9	23					0.00829132	0.00847262	0.008291	1	0		T	62050177	T	T	62050177	3	4	45	1	0	0	0	0	1	0	0	0	13945	991	35	5	5581	5	SCN4A	17	62050177	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	27237	62050177	19145033	963	35342											
SMURF2	64750	broad.mit.edu	37	chr17	62594568	62594568	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtagaatggcattgcccAgatccatcaaccaccacctt	11	10	6	14	0	2	2	1	0	1	2	3	2	3	2	5	1	2	2	5	1	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:62594568A>G	uc002jep.1	-	3	520	c.132T>C	c.(130-132)TCT>TCC	p.S44S	SMURF2_uc002jeq.1_5'UTR|SMURF2_uc002jer.1_5'UTR	NM_022739	NP_073576	Q9HAU4	SMUF2_HUMAN	SMAD specific E3 ubiquitin protein ligase 2	44	C2.				BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|membrane raft|nucleus|plasma membrane|ubiquitin ligase complex	identical protein binding|SMAD binding|ubiquitin-protein ligase activity			skin(3)|lung(1)	4	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)			GGCATTGCCCAGATCCATCAA	0.338													18	106					0	0	0.012319	0	0		G	62594568	G	G	62594568	2	3	45	1	0	0	0	0	0	0	0	1	14845	175	7	3		3	SMURF2	17	62594568	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	544391	62594568	18600642	964	35343											
LRRC37A3	374819	broad.mit.edu	37	chr17	62855982	62855982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taagttgaatgcagtcccagCggaatctgcctcaggaggat	11	9	12	9	1	2	1	1	1	1	0	3	4	3	4	2	3	3	2	2	3	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:62855982C>T	uc002jey.2	-	11	4813	c.4282G>A	c.(4282-4284)GCT>ACT	p.A1428T	LRRC37A3_uc010wqg.1_Missense_Mutation_p.A546T|LRRC37A3_uc002jex.1_Missense_Mutation_p.A405T|LRRC37A3_uc010wqf.1_Missense_Mutation_p.A466T|LRRC37A3_uc010dek.1_Missense_Mutation_p.A434T	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1428	Extracellular (Potential).					integral to membrane					0						GCAGTCCCAGCGGAATCTGCC	0.438													19	49					0	0	0.00333	0	0		T	62855982	T	T	62855982	3	4	45	1	0	0	0	0	1	0	0	0	9011	768	27	1	638	1	LRRC37A3	17	62855982	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	261414	62855982	18339228	965	35344											
CCDC46	201134	broad.mit.edu	37	chr17	63923699	63923699	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcatcaaaatgaaagaccaaCctgttgttcataccgctgtc	13	10	7	11	1	2	2	2	1	0	1	3	2	2	2	3	0	2	4	3	0	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:63923699C>T	uc002jfl.2	-	19	2199	c.1980_splice	c.e19+1	p.Q660_splice	CCDC46_uc010deo.2_Splice_Site_p.Q402_splice|CCDC46_uc002jfm.2_Splice_Site_p.Q660_splice|CCDC46_uc010dep.2_Splice_Site_p.Q618_splice	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a							centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			GAAAGACCAACCTGTTGTTCA	0.308													7	46					0	0	0.001984	0	0		T	63923699	T	T	63923699	5	4	45	1	0	0	0	0	0	0	1	0	2820	521	18	4	1088	4	CCDC46	17	63923699	Splice_Site	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1067717	63923699	17271511	966	35345											
KPNA2	3838	broad.mit.edu	37	chr17	66040600	66040600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tattctggttatcctggatgCcatttcaaatatctttcagg	9	17	7	8	0	4	0	2	0	2	0	5	1	5	1	2	3	1	1	2	3	4	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:66040600C>T	uc002jgk.2	+	9	1460	c.1328C>T	c.(1327-1329)GCC>GTC	p.A443V	KPNA2_uc002jgl.2_Missense_Mutation_p.A443V	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	443	ARM 9.				DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			ATCCTGGATGCCATTTCAAAT	0.383													55	374					0	0	0.01441	0	0		T	66040600	T	T	66040600	3	4	45	1	0	0	0	0	1	0	0	0	8446	739	26	2	1358	2	KPNA2	17	66040600	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2116901	66040600	15154610	967	35346											
TMEM104	54868	broad.mit.edu	37	chr17	72832176	72832176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacctgtttggggtgtgcGtctactccttcatgtgccag	5	13	13	10	1	2	0	1	0	1	0	3	1	3	1	3	3	4	1	3	3	2	3	rs142754433	by1000genomes	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:72832176G>A	uc002jls.3	+	10	1003	c.841G>A	c.(841-843)GTC>ATC	p.V281I	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Missense_Mutation_p.V281I	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	281	Helical; (Potential).					integral to membrane					0	all_lung(278;0.23)					TGGGGTGTGCGTCTACTCCTT	0.622													26	85					0	0	0.005443	0	0		A	72832176	A	A	72832176	3	1	45	1	0	0	0	0	1	0	0	0	16043	1145	40	1	875	1	TMEM104	17	72832176	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	6791576	72832176	8363034	968	35347											
GRIN2C	2905	broad.mit.edu	37	chr17	72846360	72846360	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctacctccccaatcatgccGttccatacgccgcgcacccg	7	7	6	21	5	1	0	1	0	0	0	3	0	3	0	8	0	3	2	8	0	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:72846360G>A	uc002jlt.1	-	6	1632	c.1476C>T	c.(1474-1476)AAC>AAT	p.N492N	GRIN2C_uc010wrh.1_RNA|GRIN2C_uc002jlu.1_Silent_p.N492N	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	492	Extracellular (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	CAATCATGCCGTTCCATACGC	0.622													53	59					0	0	0.01441	0	0		A	72846360	A	A	72846360	2	1	45	1	0	0	0	0	0	0	0	1	6797	1136	40	1		1	GRIN2C	17	72846360	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	14184	72846360	8348850	969	35348											
OTOP3	347741	broad.mit.edu	37	chr17	72942899	72942899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgtggaagaacgtgggcCgccacgtggcaccccacatg	9	6	13	13	3	1	1	1	0	0	1	1	2	1	2	4	3	1	1	4	3	2	0	rs147825590	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:72942899C>T	uc010wrr.1	+	6	949	c.949C>T	c.(949-951)CGC>TGC	p.R317C	OTOP3_uc010wrq.1_Missense_Mutation_p.R299C	NM_178233	NP_839947	Q7RTS5	OTOP3_HUMAN	otopetrin 3	317						integral to membrane|intracellular	zinc ion binding			ovary(1)	1	all_lung(278;0.151)|Lung NSC(278;0.185)					GAACGTGGGCCGCCACGTGGC	0.637													36	208					0	0	0.004878	0	0		T	72942899	T	T	72942899	3	4	45	1	0	0	0	0	1	0	0	0	11326	652	23	1	971	1	OTOP3	17	72942899	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	96539	72942899	8252311	970	35349											
CASKIN2	57513	broad.mit.edu	37	chr17	73500034	73500034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttagccagttatgaatggCctgcgcgtcctgcggggtgg	5	10	16	10	3	0	1	0	1	0	0	1	1	1	1	3	4	3	2	3	4	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:73500034C>T	uc002joc.2	-	15	2027	c.1477G>A	c.(1477-1479)GCC>ACC	p.A493T	CASKIN2_uc010wsc.1_Missense_Mutation_p.A411T	NM_020753	NP_065804	Q8WXE0	CSKI2_HUMAN	cask-interacting protein 2 isoform a	493	SAM 1.					cytoplasm				pancreas(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			TTATGAATGGCCTGCGCGTCC	0.632													7	34					0	0	0.00308	0	0		T	73500034	T	T	73500034	3	4	45	1	0	0	0	0	1	0	0	0	2670	739	26	2	2155	2	CASKIN2	17	73500034	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	557135	73500034	7695176	971	35350											
ACOX1	51	broad.mit.edu	37	chr17	73947567	73947567	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataggtctccttcatgtatgCgcccacaaactggaaggcat	11	10	9	11	1	2	0	1	0	1	0	3	1	2	1	2	3	2	2	2	3	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:73947567C>T	uc002jqf.2	-	8	1326	c.1036G>A	c.(1036-1038)GCA>ACA	p.A346T	ACOX1_uc010wsq.1_Missense_Mutation_p.A308T|ACOX1_uc002jqe.2_Missense_Mutation_p.A346T|ACOX1_uc010wsr.1_Missense_Mutation_p.A278T	NM_007292	NP_009223	Q15067	ACOX1_HUMAN	acyl-Coenzyme A oxidase 1 isoform b	346					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1						TTCATGTATGCGCCCACAAAC	0.488													4	114					0	0	0.009096	0	0		T	73947567	T	T	73947567	3	4	45	1	0	0	0	0	1	0	0	0	158	768	27	1	974	1	ACOX1	17	73947567	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	447533	73947567	7247643	972	35351											
EVPL	2125	broad.mit.edu	37	chr17	74005246	74005246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgtacaccgcgtcctccGcggcccgcctcttctgggcc	2	8	11	20	6	2	0	0	0	2	0	5	0	4	0	6	2	1	2	6	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:74005246G>A	uc002jqi.2	-	22	4268	c.4040C>T	c.(4039-4041)GCG>GTG	p.A1347V	EVPL_uc010wss.1_Missense_Mutation_p.A1369V|EVPL_uc010wst.1_Missense_Mutation_p.A817V	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1347	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CGCGTCCTCCGCGGCCCGCCT	0.677													24	108					0	0	0.00278	0	0		A	74005246	A	A	74005246	3	1	45	1	0	0	0	0	1	0	0	0	5300	1087	38	1	2065	1	EVPL	17	74005246	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	57679	74005246	7189964	973	35352											
MGAT5B	146664	broad.mit.edu	37	chr17	74921064	74921064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagtaacttaggggtaccgCcaggccggggaagctgcccg	8	6	15	12	3	1	0	1	0	0	0	1	1	1	1	4	5	4	3	4	5	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:74921064C>T	uc002jti.2	+	8	1178	c.1075C>T	c.(1075-1077)CCA>TCA	p.P359S	MGAT5B_uc002jth.2_Missense_Mutation_p.P348S	NM_198955	NP_945193	Q3V5L5	MGT5B_HUMAN	N-acetylglucosaminyltranferase VB isoform 2	348	Lumenal (Potential).					Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						AGGGGTACCGCCAGGCCGGGG	0.612													5	113					0	0	0.000602	0	0		T	74921064	T	T	74921064	3	4	45	1	0	0	0	0	1	0	0	0	9567	739	26	2	1177	2	MGAT5B	17	74921064	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	915818	74921064	6274146	974	35353											
BIRC5	332	broad.mit.edu	37	chr17	76219627	76219627	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcgagcagctggctgccAtggattgaggcctctggccg	6	8	14	13	2	1	1	0	1	1	0	2	3	1	2	4	4	3	3	4	4	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:76219627A>G	uc002jvg.2	+	4	542	c.421A>G	c.(421-423)ATG>GTG	p.M141V	BIRC5_uc002jvf.2_Missense_Mutation_p.M164V|BIRC5_uc002jvh.2_Silent_p.P101P|BIRC5_uc002jvi.2_RNA|EPR1_uc002jvj.1_RNA	NM_001168	NP_001159	O15392	BIRC5_HUMAN	baculoviral IAP repeat-containing protein 5	141					anti-apoptosis|apoptosis|cell division|chromosome segregation|cytokinesis|establishment of chromosome localization|G2/M transition of mitotic cell cycle|mitosis|mitotic prometaphase|positive regulation of exit from mitosis|positive regulation of mitotic cell cycle|protein complex localization|spindle checkpoint	centriole|chromosome passenger complex|chromosome, centromeric region|cytoplasm|cytoplasmic microtubule|cytosol|interphase microtubule organizing center|midbody|midbody|nuclear chromosome|spindle|spindle microtubule	caspase inhibitor activity|chaperone binding|cobalt ion binding|cofactor binding|cysteine-type endopeptidase inhibitor activity|metal ion binding|microtubule binding|protein heterodimerization activity|protein homodimerization activity|Ran GTPase binding|zinc ion binding			kidney(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.00269)|OV - Ovarian serous cystadenocarcinoma(97;0.153)			GCTGGCTGCCATGGATTGAGG	0.547													5	43					0	0	0.000602	0	0		G	76219627	G	G	76219627	3	3	45	1	0	0	0	0	1	0	0	0	1438	217	8	3	508	3	BIRC5	17	76219627	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1298563	76219627	4975583	975	35354											
PGS1	9489	broad.mit.edu	37	chr17	76400143	76400143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcttcaggagtactggCggaggggctggacgttccac	7	8	15	11	2	1	0	1	0	0	0	3	3	3	3	2	6	2	4	2	6	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:76400143C>T	uc002jvm.2	+	7	1387	c.1375C>T	c.(1375-1377)CGG>TGG	p.R459W	PGS1_uc010wtt.1_RNA|PGS1_uc010dho.2_RNA|PGS1_uc002jvn.2_Missense_Mutation_p.R172W|PGS1_uc002jvo.2_RNA|PGS1_uc002jvp.1_Missense_Mutation_p.R172W	NM_024419	NP_077733	Q32NB8	PGPS1_HUMAN	phosphatidylglycerophosphate synthase 1	459					phospholipid biosynthetic process	endoplasmic reticulum|mitochondrion	ATP binding|CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activity				0			BRCA - Breast invasive adenocarcinoma(99;0.00144)|OV - Ovarian serous cystadenocarcinoma(97;0.031)			GGAGTACTGGCGGAGGGGCTG	0.657													3	13					0	0	0.004672	0	0		T	76400143	T	T	76400143	3	4	45	1	0	0	0	0	1	0	0	0	11827	759	27	1	1401	1	PGS1	17	76400143	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	180516	76400143	4795067	976	35355											
ENPP7	339221	broad.mit.edu	37	chr17	77709383	77709383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtctacaagaaggaggCgttccccgaggccttccact	9	7	10	15	3	1	1	0	0	1	1	3	3	3	2	5	3	1	1	5	3	3	3	rs148221256	by1000genomes	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:77709383C>T	uc002jxa.2	+	3	961	c.941C>T	c.(940-942)GCG>GTG	p.A314V		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	314					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			AAGAAGGAGGCGTTCCCCGAG	0.607													8	65					0	0	0.00308	0	0		T	77709383	T	T	77709383	3	4	45	1	0	0	0	0	1	0	0	0	5143	768	27	1	951	1	ENPP7	17	77709383	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1309240	77709383	3485827	977	35356											
RNF213	57674	broad.mit.edu	37	chr17	78320622	78320622	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcagtgcgcccgctttcaGcaggggaaggacctgcagca	8	5	15	13	3	1	0	1	0	0	0	1	2	1	2	2	4	4	5	2	4	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:78320622G>A	uc002jyh.1	+	4	2929	c.2706G>A	c.(2704-2706)CAG>CAA	p.Q902Q		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			CCCGCTTTCAGCAGGGGAAGG	0.627													12	60					0	0	0.001855	0	0		A	78320622	A	A	78320622	2	1	45	1	0	0	0	0	0	0	0	1	13502	962	34	2		2	RNF213	17	78320622	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	611239	78320622	2874588	978	35357											
BAIAP2	10458	broad.mit.edu	37	chr17	79060288	79060288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaaggagcaaaggcgacGccctggacaagtgtcaggct	13	4	14	10	2	1	0	1	0	0	0	1	3	1	2	1	4	2	3	1	4	3	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:79060288G>A	uc002jzg.2	+	6	505	c.397G>A	c.(397-399)GCC>ACC	p.A133T	BAIAP2_uc002jyz.3_Missense_Mutation_p.A133T|BAIAP2_uc002jza.2_Missense_Mutation_p.A133T|BAIAP2_uc002jzc.2_Missense_Mutation_p.A133T|BAIAP2_uc002jzb.2_5'UTR|BAIAP2_uc002jzd.2_Missense_Mutation_p.A133T|BAIAP2_uc002jzf.2_Missense_Mutation_p.A133T|BAIAP2_uc002jze.2_Missense_Mutation_p.A166T|BAIAP2_uc010wuh.1_Missense_Mutation_p.A55T|BAIAP2_uc002jzh.2_Missense_Mutation_p.A134T	NM_017451	NP_059345	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2 isoform 2	133	IMD.|Potential.				axonogenesis|filopodium assembly|insulin receptor signaling pathway|regulation of actin cytoskeleton organization|response to bacterium	cell junction|cytoskeleton|cytosol|filopodium|nucleus|ruffle	cytoskeletal adaptor activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding				0	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CAAAGGCGACGCCCTGGACAA	0.537													10	140					0	0	0.006214	0	0		A	79060288	A	A	79060288	3	1	45	1	0	0	0	0	1	0	0	0	1302	1087	38	1	419	1	BAIAP2	17	79060288	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	739666	79060288	2134922	979	35358											
BAIAP2	10458	broad.mit.edu	37	chr17	79078359	79078359	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctccatggcagccggccTggagcgcaatggccgtatgc	7	6	15	13	3	0	0	0	0	0	0	1	2	1	1	4	4	4	4	4	4	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:79078359T>C	uc002jzg.2	+	10	1220	c.1112T>C	c.(1111-1113)CTG>CCG	p.L371P	BAIAP2_uc002jyz.3_Missense_Mutation_p.L371P|BAIAP2_uc002jza.2_Missense_Mutation_p.L371P|BAIAP2_uc002jzc.2_Missense_Mutation_p.L372P|BAIAP2_uc002jzb.2_Missense_Mutation_p.L128P|BAIAP2_uc002jzd.2_Missense_Mutation_p.L371P|BAIAP2_uc002jzf.2_Missense_Mutation_p.L371P|BAIAP2_uc002jze.2_Missense_Mutation_p.L404P|BAIAP2_uc010wuh.1_Missense_Mutation_p.L293P|BAIAP2_uc002jzh.2_Missense_Mutation_p.L372P|BAIAP2_uc010wui.1_Missense_Mutation_p.L234P	NM_017451	NP_059345	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2 isoform 2	371					axonogenesis|filopodium assembly|insulin receptor signaling pathway|regulation of actin cytoskeleton organization|response to bacterium	cell junction|cytoskeleton|cytosol|filopodium|nucleus|ruffle	cytoskeletal adaptor activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding				0	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			GCAGCCGGCCTGGAGCGCAAT	0.637													15	89					0	0	0.008871	0	0		C	79078359	C	C	79078359	3	2	45	1	0	0	0	0	1	0	0	0	1302	1580	55	3	1150	3	BAIAP2	17	79078359	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	18071	79078359	2116851	980	35359											
PYCR1	5831	broad.mit.edu	37	chr17	79892203	79892203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagcgcgggggcccaccGtgtgcggatgcaggaggcct	5	4	20	12	4	0	0	0	0	0	0	0	2	0	2	3	6	3	2	3	6	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:79892203G>A	uc002kcr.1	-	6	1074	c.796C>T	c.(796-798)CGG>TGG	p.R266W	PYCR1_uc002kcq.1_Intron|PYCR1_uc002kcp.2_Missense_Mutation_p.R266W|PYCR1_uc002kcs.1_Intron|PYCR1_uc010wvd.1_Missense_Mutation_p.R293W|PYCR1_uc002kct.1_Missense_Mutation_p.R266W|PYCR1_uc002kcu.1_Missense_Mutation_p.R235W|PYCR1_uc010wve.1_Missense_Mutation_p.R187W	NM_006907	NP_008838	P32322	P5CR1_HUMAN	pyrroline-5-carboxylate reductase 1 isoform 1	266			R -> Q (in ARCL2B; may cause skipping of exon 6).		cellular response to oxidative stress|proline biosynthetic process	mitochondrial matrix	binding|pyrroline-5-carboxylate reductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0165)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)		L-Proline(DB00172)|NADH(DB00157)	GGGGCCCACCGTGTGCGGATG	0.632													7	52					0	0	0.004482	0	0		A	79892203	A	A	79892203	3	1	45	1	0	0	0	0	1	0	0	0	12880	1159	40	1	259	1	PYCR1	17	79892203	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	813844	79892203	1303007	981	35360											
DUS1L	64118	broad.mit.edu	37	chr17	80017900	80017900	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttggacaggacctccgtGccaccctcctcttcctccag	5	11	7	18	1	2	0	0	0	2	0	6	2	6	2	7	2	1	0	7	2	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:80017900G>A	uc002kdq.2	-	10	1511	c.1092C>T	c.(1090-1092)GGC>GGT	p.G364G	DUS1L_uc002kdp.2_Silent_p.G233G|DUS1L_uc002kdr.2_Silent_p.G364G|DUS1L_uc002kds.2_RNA|DUS1L_uc002kdt.2_RNA	NM_022156	NP_071439	Q6P1R4	DUS1L_HUMAN	PP3111 protein	364					tRNA processing		flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity			skin(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			GGACCTCCGTGCCACCCTCCT	0.642													20	55					0	0	0.010504	0	0		A	80017900	A	A	80017900	2	1	45	1	0	0	0	0	0	0	0	1	4811	1306	46	2		2	DUS1L	17	80017900	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	125697	80017900	1177310	982	35361											
TBCD	6904	broad.mit.edu	37	chr17	80828180	80828180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccaacgtcagggacgccGcctgctacgtgtgctgggcc	6	6	14	15	4	1	0	1	0	0	0	1	1	1	1	4	2	4	3	4	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr17:80828180G>A	uc002kfz.2	+	14	1529	c.1399G>A	c.(1399-1401)GCC>ACC	p.A467T	TBCD_uc002kfx.1_Missense_Mutation_p.A450T|TBCD_uc002kfy.1_Missense_Mutation_p.A467T	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	467					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			CAGGGACGCCGCCTGCTACGT	0.612													18	59					0	0	0.006122	0	0		A	80828180	A	A	80828180	3	1	45	1	0	0	0	0	1	0	0	0	15658	1087	38	1	1453	1	TBCD	17	80828180	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	810280	80828180	367030	983	35362											
LAMA1	284217	broad.mit.edu	37	chr18	6942108	6942108	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtcccaggacaggaatgaagGaaaactccgtgcagttcgaa	14	6	12	9	2	0	1	0	1	0	0	3	5	2	4	2	3	2	2	2	3	5	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:6942108G>A	uc002knm.2	-	63	9292	c.9198C>T	c.(9196-9198)TTC>TTT	p.F3066F	LAMA1_uc002knk.2_Silent_p.F396F|LAMA1_uc002knl.2_Silent_p.F519F|LAMA1_uc010wzj.1_Silent_p.F2542F	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	3066	Laminin G-like 5.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGGAATGAAGGAAAACTCCGT	0.478													21	118					0	0	0.010504	0	0		A	6942108	A	A	6942108	2	1	45	1	0	0	0	0	0	0	0	1	8621	1165	41	4		4	LAMA1	18	6942108	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08		6942108	71135140	984	35363											
LAMA1	284217	broad.mit.edu	37	chr18	6949117	6949117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacatttccaattttcctggCctggtactgggagggcaggc	7	12	12	10	0	0	0	0	0	0	0	2	1	2	1	3	5	2	2	3	5	3	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:6949117C>T	uc002knm.2	-	59	8633	c.8539G>A	c.(8539-8541)GCC>ACC	p.A2847T	LAMA1_uc002knk.2_Missense_Mutation_p.A177T|LAMA1_uc002knl.2_Missense_Mutation_p.A300T|LAMA1_uc010wzj.1_Missense_Mutation_p.A2323T	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2847	Laminin G-like 4.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATTTTCCTGGCCTGGTACTGG	0.493													4	54					0	0	0.009096	0	0		T	6949117	T	T	6949117	3	4	45	1	0	0	0	0	1	0	0	0	8621	739	26	2	708	2	LAMA1	18	6949117	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	7009	6949117	71128131	985	35364											
LAMA1	284217	broad.mit.edu	37	chr18	6985243	6985243	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtgttcctacctgtacaGaacatctgctagtctctgga	8	12	10	11	1	2	1	0	0	2	1	4	2	3	2	2	2	4	3	2	2	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:6985243G>T	uc002knm.2	-	39	5747	c.5653C>A	c.(5653-5655)CTG>ATG	p.L1885M	LAMA1_uc010wzj.1_Missense_Mutation_p.L1361M	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1885	Domain II and I.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TACCTGTACAGAACATCTGCT	0.488													37	147					4.92203e-23	5.66094e-23	0.00623	1	0		T	6985243	T	T	6985243	3	4	45	1	0	0	0	0	1	0	0	0	8621	933	33	5	3674	5	LAMA1	18	6985243	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	36126	6985243	71092005	986	35365											
LAMA1	284217	broad.mit.edu	37	chr18	7014008	7014008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaatggccggtgaccacatCgcaccgatgatgagtcgacc	10	6	12	13	4	0	3	0	3	0	0	2	5	0	3	4	2	0	2	4	2	1	0	rs141907708		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:7014008C>T	uc002knm.2	-	23	3263	c.3169G>A	c.(3169-3171)GAT>AAT	p.D1057N	LAMA1_uc010wzj.1_Missense_Mutation_p.D533N	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1057	Laminin EGF-like 12.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTGACCACATCGCACCGATGA	0.517													8	15					0	0	0.00308	0	0		T	7014008	T	T	7014008	3	4	45	1	0	0	0	0	1	0	0	0	8621	884	31	1	6222	1	LAMA1	18	7014008	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	28765	7014008	71063240	987	35366											
LAMA1	284217	broad.mit.edu	37	chr18	7049221	7049221	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttgggtgaaagatcgtcAgcgcttggtctgccattgat	9	12	12	8	2	2	3	1	2	1	1	3	3	2	3	1	2	3	1	1	2	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:7049221A>G	uc002knm.2	-	5	718	c.624T>C	c.(622-624)GCT>GCC	p.A208A	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	208	Laminin N-terminal.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAAGATCGTCAGCGCTTGGTC	0.368													15	77					0	0	0.004007	0	0		G	7049221	G	G	7049221	2	3	45	1	0	0	0	0	0	0	0	1	8621	175	7	3		3	LAMA1	18	7049221	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	35213	7049221	71028027	988	35367											
KIAA0802	23255	broad.mit.edu	37	chr18	8718506	8718506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttaccagctgcaggaacttCggcgagaactggaccgcgct	9	8	12	12	4	0	1	0	0	0	1	1	4	0	3	2	3	5	3	2	3	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:8718506C>T	uc002knr.2	+	3	200	c.58C>T	c.(58-60)CGG>TGG	p.R20W	KIAA0802_uc002knq.2_Missense_Mutation_p.R20W	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	371	Potential.										0						GCAGGAACTTCGGCGAGAACT	0.488													15	90					0	0	0.00245	0	0		T	8718506	T	T	8718506	3	4	45	1	0	0	0	0	1	0	0	0	8210	875	31	1	60	1	KIAA0802	18	8718506	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1669285	8718506	69358742	989	35368											
ANKRD12	23253	broad.mit.edu	37	chr18	9258243	9258243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgaaatgaatgcagggatgCcaaaaggaaacctaaatgaa	19	6	11	5	0	0	3	0	3	0	0	0	5	0	5	2	2	3	1	2	2	8	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:9258243C>T	uc002knv.2	+	9	5235	c.4978C>T	c.(4978-4980)CCA>TCA	p.P1660S	ANKRD12_uc002knw.2_Missense_Mutation_p.P1637S|ANKRD12_uc002knx.2_Missense_Mutation_p.P1637S|ANKRD12_uc010dkx.1_Missense_Mutation_p.P1367S	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	1660						nucleus				ovary(2)|central_nervous_system(1)	3						TGCAGGGATGCCAAAAGGAAA	0.348													8	27					0	0	0.00308	0	0		T	9258243	T	T	9258243	3	4	45	1	0	0	0	0	1	0	0	0	640	739	26	2	5008	2	ANKRD12	18	9258243	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	539737	9258243	68819005	990	35369											
RALBP1	10928	broad.mit.edu	37	chr18	9517240	9517240	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctgccagccgttttccgTgaatgtatagattacgtaga	9	12	11	9	4	0	3	0	1	0	2	1	3	1	3	3	1	3	4	3	1	5	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:9517240T>C	uc002kob.2	+	3	865	c.642T>C	c.(640-642)CGT>CGC	p.R214R	RALBP1_uc002koc.2_Silent_p.R214R	NM_006788	NP_006779	Q15311	RBP1_HUMAN	ralA binding protein 1	214	Rho-GAP.				chemotaxis|positive regulation of Cdc42 GTPase activity|small GTPase mediated signal transduction|transport	cytosol|membrane	ATPase activity, coupled to movement of substances|Rac GTPase activator activity|Rac GTPase binding|Ral GTPase binding			central_nervous_system(1)	1						CCGTTTTCCGTGAATGTATAG	0.418													3	72					0	0	0.004672	0	0		C	9517240	C	C	9517240	2	2	45	1	0	0	0	0	0	0	0	1	13037	1683	59	3		3	RALBP1	18	9517240	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	258997	9517240	68560008	991	35370											
FAM38B	63895	broad.mit.edu	37	chr18	10677801	10677801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcattttagcgatattctttCgagtaatatttttaagagga	12	18	7	4	2	2	1	1	0	1	1	3	4	2	2	0	1	1	1	0	1	5	10			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:10677801C>T	uc002kor.3	-	11	1696	c.1556G>A	c.(1555-1557)CGA>CAA	p.R519Q	FAM38B_uc002koq.2_Missense_Mutation_p.R354Q	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2562						integral to membrane	ion channel activity			ovary(1)	1						GATATTCTTTCGAGTAATATT	0.323													12	47					0	0	0.010729	0	0		T	10677801	T	T	10677801	3	4	45	1	0	0	0	0	1	0	0	0	5569	884	31	1	589	1	FAM38B	18	10677801	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1160561	10677801	67399447	992	35371											
TUBB6	84617	broad.mit.edu	37	chr18	12325183	12325183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcactgcgactgcctgcaggGcttccagctcacgcactcgc	6	7	11	17	3	1	0	1	0	0	0	3	1	2	0	2	1	4	5	2	1	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:12325183G>A	uc002kqw.2	+	4	440	c.395G>A	c.(394-396)GGC>GAC	p.G132D	TUBB6_uc002kqv.2_Missense_Mutation_p.G60D|TUBB6_uc010dld.2_RNA|TUBB6_uc002kqx.2_Missense_Mutation_p.G95D|TUBB6_uc002kqy.2_Intron	NM_032525	NP_115914	Q9BUF5	TBB6_HUMAN	tubulin, beta 6	132					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0				READ - Rectum adenocarcinoma(1;0.0649)		TGCCTGCAGGGCTTCCAGCTC	0.657													12	65					0	0	0.010729	0	0		A	12325183	A	A	12325183	3	1	45	1	0	0	0	0	1	0	0	0	16786	1203	42	2	409	2	TUBB6	18	12325183	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1647382	12325183	65752065	993	35372											
C18orf19	125228	broad.mit.edu	37	chr18	13682063	13682063	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgagatacagtccgtggtAcattccattgcattttgaag	10	13	10	8	2	0	2	0	1	0	1	3	3	2	2	2	1	3	2	2	1	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:13682063A>G	uc010dlh.2	-	3	446	c.14T>C	c.(13-15)GTA>GCA	p.V5A	C18orf19_uc010dlg.2_Missense_Mutation_p.V5A|C18orf19_uc010dli.2_Missense_Mutation_p.V5A|C18orf19_uc002ksj.3_Missense_Mutation_p.V5A|C18orf19_uc010dlj.2_Intron	NM_001098801	NP_001092271	Q96ND0	CR019_HUMAN	hypothetical protein LOC125228	5						integral to membrane				breast(2)	2						AGTCCGTGGTACATTCCATTG	0.368													3	82					0	0	0.004672	0	0		G	13682063	G	G	13682063	3	3	45	1	0	0	0	0	1	0	0	0	1899	391	14	3	816	3	C18orf19	18	13682063	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1356880	13682063	64395185	994	35373											
POTEC	388468	broad.mit.edu	37	chr18	14542908	14542908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtctccagaagtgcccaCgttgctcgtgccgctccccc	5	9	10	17	3	1	1	0	0	1	1	4	1	2	1	5	1	3	3	5	1	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:14542908C>T	uc010dln.2	-	1	692	c.238G>A	c.(238-240)GTG>ATG	p.V80M	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	80										skin(3)	3						GAAGTGCCCACGTTGCTCGTG	0.587													34	500					0	0	0.013726	0	0		T	14542908	T	T	14542908	3	4	45	1	0	0	0	0	1	0	0	0	12281	536	19	1	1434	1	POTEC	18	14542908	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	860845	14542908	63534340	995	35374											
ZNF521	25925	broad.mit.edu	37	chr18	22669475	22669475	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtggacattgtgtacagTcatagatcttgtcttcttgt	7	18	9	7	0	5	1	1	0	4	1	5	2	5	2	0	1	1	1	0	1	2	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:22669475T>A	uc002kvk.2	-	7	4107	c.3860A>T	c.(3859-3861)GAC>GTC	p.D1287V	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.D1287V|ZNF521_uc002kvl.2_Missense_Mutation_p.D1067V	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	1287	C2H2-type 30.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TTGTGTACAGTCATAGATCTT	0.398			T	PAX5	ALL								6	64					0	0	0.006214	0	0		A	22669475	A	A	22669475	3	1	45	1	0	0	0	0	1	0	0	0	17990	1667	58	5	83	5	ZNF521	18	22669475	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	8126567	22669475	55407773	996	35375											
ZNF521	25925	broad.mit.edu	37	chr18	22806621	22806621	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttttcaggtgaatctgcaGaactgcaagacttgaaaata	15	11	9	6	0	2	4	1	2	1	2	2	4	2	4	0	1	3	3	0	1	6	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:22806621G>T	uc002kvk.2	-	4	1508	c.1261C>A	c.(1261-1263)CTG>ATG	p.L421M	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.L421M|ZNF521_uc002kvl.2_Missense_Mutation_p.L201M	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	421	C2H2-type 9; degenerate.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TGAATCTGCAGAACTGCAAGA	0.413			T	PAX5	ALL								16	83					3.52763e-06	3.76675e-06	0.00499	1	0		T	22806621	T	T	22806621	3	4	45	1	0	0	0	0	1	0	0	0	17990	933	33	5	2694	5	ZNF521	18	22806621	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	137146	22806621	55270627	997	35376											
SLC39A6	25800	broad.mit.edu	37	chr18	33704629	33704629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcggaacctggatgcccatgCcatgagatgtcagtagcttt	9	10	12	10	1	1	1	1	1	0	1	1	4	1	3	3	2	4	2	3	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:33704629C>T	uc010dmy.2	-	3	1114	c.824G>A	c.(823-825)GGC>GAC	p.G275D	SLC39A6_uc002kzj.2_5'UTR	NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	275	Extracellular (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						GATGCCCATGCCATGAGATGT	0.418													12	62					0	0	0.00245	0	0		T	33704629	T	T	33704629	3	4	45	1	0	0	0	0	1	0	0	0	14647	739	26	2	1487	2	SLC39A6	18	33704629	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	10898008	33704629	44372619	998	35377											
MOCOS	55034	broad.mit.edu	37	chr18	33795561	33795561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatttcatttggatacatgtCgacgctggatgatgtccagg	9	13	12	7	2	1	1	1	1	0	0	3	5	2	3	1	3	1	1	1	3	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:33795561C>T	uc002kzq.3	+	8	1441	c.1418C>T	c.(1417-1419)TCG>TTG	p.S473L		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	473					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GGATACATGTCGACGCTGGAT	0.537													11	54					0	0	0.010729	0	0		T	33795561	T	T	33795561	3	4	45	1	0	0	0	0	1	0	0	0	9707	893	31	1	1448	1	MOCOS	18	33795561	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	90932	33795561	44281687	999	35378											
FHOD3	80206	broad.mit.edu	37	chr18	34156416	34156416	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcttgttttctgtagctTtgggccagattatgttgtat	5	21	9	6	0	2	1	0	0	2	1	3	1	2	1	1	1	1	5	1	1	3	9			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:34156416T>C	uc002kzt.1	+	6	611	c.514T>C	c.(514-516)TTG>CTG	p.L172L	FHOD3_uc002kzr.1_Silent_p.L172L|FHOD3_uc002kzs.1_Silent_p.L172L|FHOD3_uc002kzu.1_5'UTR	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	172	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				TTCTGTAGCTTTGGGCCAGAT	0.358													10	29					0	0	0.006214	0	0		C	34156416	C	C	34156416	2	2	45	1	0	0	0	0	0	0	0	1	5897	1838	64	3		3	FHOD3	18	34156416	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	360855	34156416	43920832	1000	35379											
FHOD3	80206	broad.mit.edu	37	chr18	34340622	34340622	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccccaagccagccgcagggtCtgagctatgcggaggacgcg	8	4	15	14	4	1	1	0	1	1	0	1	3	1	3	4	3	4	2	4	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:34340622C>T	uc002kzt.1	+	22	3998	c.3901C>T	c.(3901-3903)CTG>TTG	p.L1301L	FHOD3_uc002kzs.1_Silent_p.L1318L|FHOD3_uc010dmz.1_Silent_p.L1033L|FHOD3_uc010dnb.1_Intron	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	1301					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				GCCGCAGGGTCTGAGCTATGC	0.637													15	87					0	0	0.003163	0	0		T	34340622	T	T	34340622	2	4	45	1	0	0	0	0	0	0	0	1	5897	912	32	4		4	FHOD3	18	34340622	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	184206	34340622	43736626	1001	35380											
CELF4	56853	broad.mit.edu	37	chr18	34833784	34833784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccggcgctcagtacgggCgattggcgtctttgggccgc	3	8	16	14	7	2	0	1	0	1	0	2	1	2	0	3	4	1	2	3	4	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:34833784C>T	uc002lae.2	-	12	1847	c.1451G>A	c.(1450-1452)CGC>CAC	p.R484H	CELF4_uc010dnd.1_Missense_Mutation_p.R482H|CELF4_uc002lag.2_Missense_Mutation_p.R446H|CELF4_uc002laf.2_Missense_Mutation_p.R478H	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	484					embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						TCAGTACGGGCGATTGGCGTC	0.592													11	81					0	0	0.013537	0	0		T	34833784	T	T	34833784	3	4	45	1	0	0	0	0	1	0	0	0	3221	768	27	1	13	1	CELF4	18	34833784	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	493162	34833784	43243464	1002	35381											
KIAA1632	57724	broad.mit.edu	37	chr18	43481065	43481065	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actggcacaggaggcttcgtCgggtgcagagcaaggggagg	9	5	19	8	2	0	1	0	0	0	1	2	3	0	3	0	7	2	4	0	7	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:43481065C>T	uc002lbm.2	-	26	4642	c.4542G>A	c.(4540-4542)CCG>CCA	p.P1514P	KIAA1632_uc010xcq.1_Silent_p.P68P|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Silent_p.P389P	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1514					autophagy						0						GAGGCTTCGTCGGGTGCAGAG	0.498													17	88					0	0	0.00499	0	0		T	43481065	T	T	43481065	2	4	45	1	0	0	0	0	0	0	0	1	8265	871	31	1		1	KIAA1632	18	43481065	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	8647281	43481065	34596183	1003	35382											
CXXC1	30827	broad.mit.edu	37	chr18	47809282	47809282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctcccagcagtaatggCgattgcactggcgcttgggc	6	10	13	12	2	1	0	0	0	1	0	2	1	1	0	1	3	2	5	1	3	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:47809282C>T	uc002leq.3	-	14	2499	c.1766G>A	c.(1765-1767)CGC>CAC	p.R589H	MBD1_uc002leg.2_5'Flank|MBD1_uc010dow.1_5'Flank|MBD1_uc010xdi.1_5'Flank|MBD1_uc002leh.3_5'Flank|MBD1_uc002len.2_5'Flank|MBD1_uc002lei.3_5'Flank|MBD1_uc002lej.3_5'Flank|MBD1_uc002lek.3_5'Flank|MBD1_uc002lel.3_5'Flank|MBD1_uc002lem.3_5'Flank|MBD1_uc010xdj.1_5'Flank|MBD1_uc010xdk.1_5'Flank|MBD1_uc010dox.1_5'Flank|MBD1_uc002leo.2_5'Flank|CXXC1_uc002lep.3_Missense_Mutation_p.R446H|CXXC1_uc002ler.3_Missense_Mutation_p.R593H|CXXC1_uc010doy.2_Missense_Mutation_p.A577T	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	589					histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GCAGTAATGGCGATTGCACTG	0.597													3	36					0	0	0.004672	0	0		T	47809282	T	T	47809282	3	4	45	1	0	0	0	0	1	0	0	0	4100	768	27	1	212	1	CXXC1	18	47809282	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4328217	47809282	30267966	1004	35383											
MRO	83876	broad.mit.edu	37	chr18	48333094	48333094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgtcaggggcttcataggCcatggttcccaagtttctca	7	13	10	11	0	3	0	3	0	1	0	5	0	4	0	2	4	0	3	2	4	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:48333094C>T	uc002lew.3	-	4	520	c.226G>A	c.(226-228)GCC>ACC	p.A76T	MRO_uc010xdn.1_Missense_Mutation_p.A76T|MRO_uc010dpa.2_Missense_Mutation_p.A90T|MRO_uc010dpb.2_Missense_Mutation_p.A90T|MRO_uc010dpc.2_Missense_Mutation_p.A76T|MRO_uc002lex.3_Missense_Mutation_p.A76T	NM_031939	NP_114145	Q9BYG7	MSTRO_HUMAN	maestro isoform a	76						nucleolus	binding				0		Colorectal(6;0.0596)		Colorectal(21;0.082)		GCTTCATAGGCCATGGTTCCC	0.557													31	153					0	0	0.010818	0	0		T	48333094	T	T	48333094	3	4	45	1	0	0	0	0	1	0	0	0	9790	739	26	2	540	2	MRO	18	48333094	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	523812	48333094	29744154	1005	35384											
DCC	1630	broad.mit.edu	37	chr18	51013231	51013231	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccaggaatcctcccgtcTcccacctgtggatatcccca	8	9	6	18	1	1	0	0	0	1	0	5	2	4	2	7	2	1	0	7	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:51013231T>A	uc002lfe.1	+	26	4388	c.3801T>A	c.(3799-3801)TCT>TCA	p.S1267S	DCC_uc010dpf.1_Silent_p.S902S	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1267	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TCCTCCCGTCTCCCACCTGTG	0.547													32	114					0	0	0.013726	0	0		A	51013231	A	A	51013231	2	1	45	1	0	0	0	0	0	0	0	1	4285	1538	54	5		5	DCC	18	51013231	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2680137	51013231	27064017	1006	35385											
CDH20	28316	broad.mit.edu	37	chr18	59206270	59206270	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctttagacaatccctcccaGgttggaagtgttcctgtcac	8	12	8	13	0	1	1	1	0	0	1	4	2	4	2	4	2	0	2	4	2	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:59206270G>T	uc010dps.1	+	8	1434	c.1422G>T	c.(1420-1422)CAG>CAT	p.Q474H	CDH20_uc002lif.2_Missense_Mutation_p.Q468H	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	474	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				ATCCCTCCCAGGTTGGAAGTG	0.408													11	105					2.80697e-09	3.08415e-09	0.010729	1	0		T	59206270	T	T	59206270	3	4	45	1	0	0	0	0	1	0	0	0	3109	991	35	5	1452	5	CDH20	18	59206270	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	8193039	59206270	18870978	1007	35386											
RTTN	25914	broad.mit.edu	37	chr18	67817279	67817279	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgctgtcatcatcaatcgTccctgaagcaggtataacag	13	10	8	10	1	3	1	3	1	0	0	5	1	4	1	1	1	3	3	1	1	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:67817279T>C	uc002lkp.2	-	16	2168	c.2100A>G	c.(2098-2100)GGA>GGG	p.G700G	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	700							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TCATCAATCGTCCCTGAAGCA	0.438													6	73					0	0	0.00308	0	0		C	67817279	C	C	67817279	2	2	45	1	0	0	0	0	0	0	0	1	13762	1654	58	3		3	RTTN	18	67817279	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	8611009	67817279	10259969	1008	35387											
ZNF407	55628	broad.mit.edu	37	chr18	72589255	72589255	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagccgtttaaatgtacctgGcccacgtgccattactcatt	10	12	7	12	2	1	0	1	0	0	0	1	0	1	0	4	1	4	2	4	1	5	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:72589255G>A	uc002llw.2	+	4	5037	c.4980G>A	c.(4978-4980)TGG>TGA	p.W1660*	ZNF407_uc010dqu.1_Nonsense_Mutation_p.W1660*	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1660	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		AATGTACCTGGCCCACGTGCC	0.522													6	132					0	0	0.001984	0	0		A	72589255	A	A	72589255	4	1	45	1	0	0	0	0	0	1	0	0	17912	1212	42	2	5104	2	ZNF407	18	72589255	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4771976	72589255	5487993	1009	35388											
NFATC1	4772	broad.mit.edu	37	chr18	77170867	77170867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactactcgtacccgtacGcgtccccccagacgtcgcca	8	6	7	20	6	0	1	0	0	0	1	3	1	1	1	6	0	4	2	6	0	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr18:77170867G>A	uc010xfg.1	+	2	1045	c.592G>A	c.(592-594)GCG>ACG	p.A198T	NFATC1_uc002lnc.1_Missense_Mutation_p.A198T|NFATC1_uc010xff.1_Missense_Mutation_p.A198T|NFATC1_uc002lnd.2_Missense_Mutation_p.A198T|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Missense_Mutation_p.A198T|NFATC1_uc010xfi.1_Missense_Mutation_p.A185T|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Missense_Mutation_p.A185T|NFATC1_uc002lng.2_Missense_Mutation_p.A185T|NFATC1_uc010xfk.1_Missense_Mutation_p.A185T	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	198	Trans-activation domain A (TAD-A).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		GTACCCGTACGCGTCCCCCCA	0.677													9	116					0	0	0.006214	0	0		A	77170867	A	A	77170867	3	1	45	1	0	0	0	0	1	0	0	0	10380	1087	38	1	690	1	NFATC1	18	77170867	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4581612	77170867	906381	1010	35389											
SHC2	25759	broad.mit.edu	37	chr19	438806	438806	+	Frame_Shift_Del	DEL	C	-	-																															caaagcgaaggttgctcttgCccaggacggacgccagggcc																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:438806delC	uc002loq.3	-	4	632	c.632delG	c.(631-633)GGCfs	p.G211fs	SHC2_uc002lop.3_5'UTR	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	211	PID.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTTGCTCTTGCCCAGGACGGA	0.687													2	4	---	---	---	---						.	-	438806	-	-	438806	7	5	45	1	0	1	0	1	0	0	0	0	14296	739	26	0	1152	0	SHC2	19	438806	Frame_Shift_Del	DEL	C	TCGA-BR-6852-01A-11D-1882-08		438806	58690177	1011	35390											
PTBP1	5725	broad.mit.edu	37	chr19	805056	805056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacgcctgctgcacgctgcGcatcgacttttccaagctca	8	9	8	16	4	1	0	1	0	0	0	3	1	2	0	2	0	5	5	2	0	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:805056G>A	uc002lpr.2	+	8	867	c.761G>A	c.(760-762)CGC>CAC	p.R254H	PTBP1_uc002lpp.2_Missense_Mutation_p.R254H|PTBP1_uc002lpq.2_Missense_Mutation_p.R254H|PTBP1_uc002lps.2_Intron|PTBP1_uc002lpt.2_RNA|PTBP1_uc002lpu.1_Missense_Mutation_p.R224H	NM_031991	NP_114368	P26599	PTBP1_HUMAN	polypyrimidine tract-binding protein 1 isoform	254	RRM 2.				negative regulation of muscle cell differentiation|nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	mRNA binding|nucleotide binding|poly-pyrimidine tract binding|protein binding			kidney(1)|skin(1)	2		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGCACGCTGCGCATCGACTTT	0.647													34	153					0	0	0.013726	0	0		A	805056	A	A	805056	3	1	45	1	0	0	0	0	1	0	0	0	12747	1087	38	1	791	1	PTBP1	19	805056	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	366250	805056	58323927	1012	35391											
PTBP1	5725	broad.mit.edu	37	chr19	808629	808629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagaacgtgcagctgcccCgcgagggccaggaggaccag	10	2	15	14	3	0	1	0	0	0	1	0	4	0	3	5	3	4	2	5	3	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:808629C>T	uc002lpr.2	+	12	1358	c.1252C>T	c.(1252-1254)CGC>TGC	p.R418C	PTBP1_uc002lpp.2_Missense_Mutation_p.R444C|PTBP1_uc002lpq.2_Missense_Mutation_p.R437C|PTBP1_uc002lps.2_Missense_Mutation_p.R84C|PTBP1_uc002lpt.2_RNA|PTBP1_uc002lpu.1_Missense_Mutation_p.R414C	NM_031991	NP_114368	P26599	PTBP1_HUMAN	polypyrimidine tract-binding protein 1 isoform	418					negative regulation of muscle cell differentiation|nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	mRNA binding|nucleotide binding|poly-pyrimidine tract binding|protein binding			kidney(1)|skin(1)	2		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGCTGCCCCGCGAGGGCCA	0.637													4	20					0	0	0.009096	0	0		T	808629	T	T	808629	3	4	45	1	0	0	0	0	1	0	0	0	12747	652	23	1	1380	1	PTBP1	19	808629	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3573	808629	58320354	1013	35392											
SBNO2	22904	broad.mit.edu	37	chr19	1109760	1109760	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctcctcgtagatctcctcGataccgggagcaaggtctag	8	10	10	13	3	3	1	0	0	3	1	7	3	3	2	3	2	2	2	3	2	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:1109760G>A	uc002lrk.3	-	27	3283	c.3045C>T	c.(3043-3045)ATC>ATT	p.I1015I	SBNO2_uc002lri.3_5'Flank|SBNO2_uc002lrj.3_Silent_p.I958I|SBNO2_uc010dse.2_Silent_p.I998I|SBNO2_uc010xgj.1_Intron	NM_014963	NP_055778	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 isoform 1	1015					macrophage activation involved in immune response|negative regulation of transcription, DNA-dependent|regulation of inflammatory response|transcription, DNA-dependent						0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGATCTCCTCGATACCGGGAG	0.677													9	53					0	0	0.008291	0	0		A	1109760	A	A	1109760	2	1	45	1	0	0	0	0	0	0	0	1	13888	1048	37	1		1	SBNO2	19	1109760	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	301131	1109760	58019223	1014	35393											
MIDN	90007	broad.mit.edu	37	chr19	1257102	1257102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaggcccggcgggacgcgcGgggtccgtaccactggtcac	7	4	16	14	6	1	0	1	0	0	0	2	1	2	1	3	6	1	1	3	6	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:1257102G>A	uc002lrp.2	+	8	1753	c.1238G>A	c.(1237-1239)CGG>CAG	p.R413Q		NM_177401	NP_796375	Q504T8	MIDN_HUMAN	midnolin	413						nucleolus					0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGGACGCGCGGGGTCCGTAC	0.711													6	48					0	0	0.001984	0	0		A	1257102	A	A	1257102	3	1	45	1	0	0	0	0	1	0	0	0	9597	1116	39	1	1264	1	MIDN	19	1257102	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	147342	1257102	57871881	1015	35394											
MUM1	84939	broad.mit.edu	37	chr19	1362336	1362336	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgaggagccaccaagagTccttttataccacggtaaga	14	7	10	10	2	0	3	0	0	0	3	1	5	1	4	4	2	2	1	4	2	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:1362336T>C	uc010xgm.1	+	5	1268	c.1199T>C	c.(1198-1200)GTC>GCC	p.V400A	MUM1_uc010dsi.2_Missense_Mutation_p.V332A|MUM1_uc002lrz.2_Missense_Mutation_p.V401A|MUM1_uc002lsb.2_Missense_Mutation_p.V332A			Q2TAK8	MUM1_HUMAN	SubName: Full=MUM1 protein;	400					chromatin organization|DNA repair	nucleus	nucleosome binding|protein binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCACCAAGAGTCCTTTTATAC	0.582													6	31					0	0	0.00308	0	0		C	1362336	C	C	1362336	3	2	45	1	0	0	0	0	1	0	0	0	10003	1667	58	3	1220	3	MUM1	19	1362336	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	105234	1362336	57766647	1016	35395											
DAZAP1	26528	broad.mit.edu	37	chr19	1432615	1432615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacctctggctttcccacCgcctccgtctcaggctgccc	4	9	8	20	2	2	0	1	0	2	0	5	0	4	0	6	2	2	3	6	2	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:1432615C>T	uc002lsn.2	+	11	1163	c.974C>T	c.(973-975)CCG>CTG	p.P325L	DAZAP1_uc002lsm.2_Missense_Mutation_p.P325L|DAZAP1_uc002lso.2_Missense_Mutation_p.P324L|DAZAP1_uc002lsl.1_Missense_Mutation_p.P325L	NM_018959	NP_061832	Q96EP5	DAZP1_HUMAN	DAZ associated protein 1 isoform b	325	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleotide binding|RNA binding			breast(1)	1		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTTTCCCACCGCCTCCGTCT	0.652													30	107					0	0	0.010818	0	0		T	1432615	T	T	1432615	3	4	45	1	0	0	0	0	1	0	0	0	4247	652	23	1	1016	1	DAZAP1	19	1432615	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	70279	1432615	57696368	1017	35396											
DOT1L	84444	broad.mit.edu	37	chr19	2222099	2222099	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggagcctttttgccacCgtggggtcccgcagctccac	4	10	12	15	2	1	0	0	0	1	0	3	1	3	1	5	3	3	2	5	3	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:2222099C>T	uc002lvb.3	+	24	2967	c.2931C>T	c.(2929-2931)ACC>ACT	p.T977T	DOT1L_uc002lvc.1_Silent_p.T271T|DOT1L_uc002lve.1_3'UTR	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	977						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTTTTGCCACCGTGGGGTCCC	0.701													9	34					0	0	0.008291	0	0		T	2222099	T	T	2222099	2	4	45	1	0	0	0	0	0	0	0	1	4715	639	23	1		1	DOT1L	19	2222099	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	789484	2222099	56906884	1018	35397											
PIP5K1C	23396	broad.mit.edu	37	chr19	3653503	3653503	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatgttgttcatgaccaCgacgcggatgttcttgcccc	7	11	11	12	3	2	1	1	1	1	0	2	4	2	3	3	2	1	3	3	2	0	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:3653503C>T	uc002lyj.1	-	7	763	c.706G>A	c.(706-708)GTG>ATG	p.V236M	PIP5K1C_uc010xhq.1_Missense_Mutation_p.V236M|PIP5K1C_uc010xhr.1_Missense_Mutation_p.V236M	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	236	PIPK.				axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		TTCATGACCACGACGCGGATG	0.612													17	92					0	0	0.00499	0	0		T	3653503	T	T	3653503	3	4	45	1	0	0	0	0	1	0	0	0	11960	536	19	1	1348	1	PIP5K1C	19	3653503	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1431404	3653503	55475480	1019	35398											
ITGB1BP3	27231	broad.mit.edu	37	chr19	3941175	3941175	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggccaacggtgtggaagtgGgtaagcccctgagcatgacc	10	6	15	10	1	0	2	0	2	0	0	0	3	0	3	4	4	3	2	4	4	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:3941175G>T	uc002lyz.3	+	7	792	c.502G>T	c.(502-504)GTC>TTC	p.V168F	ITGB1BP3_uc010xia.1_Missense_Mutation_p.V173F	NM_170678	NP_733778	Q9NPI5	NRK2_HUMAN	integrin beta 1 binding protein 3	168					pyridine nucleotide biosynthetic process		ATP binding|metal ion binding|protein binding|ribosylnicotinamide kinase activity			skin(2)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00463)|STAD - Stomach adenocarcinoma(1328;0.18)		TGTGGAAGTGGGTAAGCCCCT	0.562													23	87					2.32416e-17	2.65348e-17	0.014323	1	0		T	3941175	T	T	3941175	3	4	45	1	0	0	0	0	1	0	0	0	7909	1246	43	5	524	5	ITGB1BP3	19	3941175	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	287672	3941175	55187808	1020	35399											
C3	718	broad.mit.edu	37	chr19	6694500	6694500	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccgaacttctcccactgCtccgtttcatccaggtaatg	8	11	8	14	2	2	0	1	0	1	0	5	1	4	0	4	2	2	3	4	2	2	3	rs148698696		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:6694500C>A	uc002mfm.2	-	24	3158	c.3096G>T	c.(3094-3096)GAG>GAT	p.E1032D	C3_uc002mfl.2_5'Flank	NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	1032				E->A: Impaired binding of C3d to CR2.	complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TCTCCCACTGCTCCGTTTCAT	0.617													17	112					2.4624e-09	2.71192e-09	0.008871	1	0		A	6694500	A	A	6694500	3	1	45	1	0	0	0	0	1	0	0	0	2207	796	28	5	1967	5	C3	19	6694500	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2753325	6694500	52434483	1021	35400											
SH2D3A	10045	broad.mit.edu	37	chr19	6754122	6754122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcaaaggccagcgcaGcctccgtgtggctccttcgg	5	8	12	16	3	1	0	1	0	0	0	4	0	3	0	5	3	3	3	5	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:6754122G>A	uc002mft.2	-	8	1519	c.1325C>T	c.(1324-1326)GCT>GTT	p.A442V	SH2D3A_uc010xjg.1_Missense_Mutation_p.A349V	NM_005490	NP_005481	Q9BRG2	SH23A_HUMAN	SH2 domain containing 3A	442					JNK cascade|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			breast(2)	2						GGCCAGCGCAGCCTCCGTGTG	0.647													8	36					0	0	0.006214	0	0		A	6754122	A	A	6754122	3	1	45	1	0	0	0	0	1	0	0	0	14258	971	34	2	417	2	SH2D3A	19	6754122	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	59622	6754122	52374861	1022	35401											
ZNF358	140467	broad.mit.edu	37	chr19	7585732	7585732	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccctgtgtcctgccctgAcccctgttctcccactcgtg	4	11	7	19	1	1	1	0	1	1	0	4	1	2	1	6	0	2	1	6	0	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:7585732A>G	uc002mgn.2	+	2	1774	c.1604A>G	c.(1603-1605)GAC>GGC	p.D535G	MCOLN1_uc010dvh.1_5'Flank|MCOLN1_uc002mgo.2_5'Flank|MCOLN1_uc002mgp.2_5'Flank	NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	535					embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						TCCTGCCCTGACCCCTGTTCT	0.662													18	107					0	0	0.014323	0	0		G	7585732	G	G	7585732	3	3	45	1	0	0	0	0	1	0	0	0	17892	275	10	3	1606	3	ZNF358	19	7585732	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	831610	7585732	51543251	1023	35402											
PNPLA6	10908	broad.mit.edu	37	chr19	7626170	7626170	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggatgaaggggggtccccCgagggcgcaagccccagcac	9	2	17	13	2	0	1	0	1	0	0	1	3	1	2	4	5	2	2	4	5	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:7626170C>T	uc010xjq.1	+	33	4215	c.4020C>T	c.(4018-4020)CCC>CCT	p.P1340P	PNPLA6_uc002mgq.1_Silent_p.P1292P|PNPLA6_uc010xjp.1_Silent_p.P1265P|PNPLA6_uc002mgr.1_Silent_p.P1292P|PNPLA6_uc002mgs.2_Silent_p.P1330P|PNPLA6_uc002mgt.1_RNA	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	1331	Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						GGGGGTCCCCCGAGGGCGCAA	0.647													7	26					0	0	0.004482	0	0		T	7626170	T	T	7626170	2	4	45	1	0	0	0	0	0	0	0	1	12188	639	23	1		1	PNPLA6	19	7626170	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	40438	7626170	51502813	1024	35403											
KIAA1543	57662	broad.mit.edu	37	chr19	7676000	7676000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctcctgtcttcaccttcCgccacccgcttctgtcatct	3	15	5	18	2	6	0	2	0	4	0	8	0	7	0	5	0	0	2	5	0	0	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:7676000C>T	uc002mgv.3	+	9	1170	c.1069C>T	c.(1069-1071)CGC>TGC	p.R357C	KIAA1543_uc002mgu.3_Missense_Mutation_p.R384C	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	357					epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						CTTCACCTTCCGCCACCCGCT	0.652													33	108					0	0	0.004878	0	0		T	7676000	T	T	7676000	3	4	45	1	0	0	0	0	1	0	0	0	8259	652	23	1	1192	1	KIAA1543	19	7676000	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	49830	7676000	51452983	1025	35404											
STXBP2	6813	broad.mit.edu	37	chr19	7709559	7709559	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggactccatgaagctgatCgttccggtgctgctggacgc	8	9	13	11	3	0	2	0	2	0	0	3	4	2	4	2	3	3	4	2	3	2	1	rs139160342	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:7709559C>T	uc002mha.3	+	14	1212	c.1167C>T	c.(1165-1167)ATC>ATT	p.I389I	STXBP2_uc002mhb.3_Silent_p.I386I|STXBP2_uc010dvj.2_RNA|STXBP2_uc010xjr.1_Silent_p.I400I|STXBP2_uc010dvk.2_Silent_p.I357I|STXBP2_uc002mhc.3_Silent_p.I157I|STXBP2_uc002mhe.1_Silent_p.I17I	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a	389					leukocyte mediated cytotoxicity|neutrophil degranulation|protein transport|regulation of mast cell degranulation|vesicle docking involved in exocytosis	azurophil granule|cytolytic granule|cytosol|specific granule|tertiary granule	syntaxin-3 binding			central_nervous_system(1)	1						TGAAGCTGATCGTTCCGGTGC	0.657													6	75					0	0	0.00308	0	0		T	7709559	T	T	7709559	2	4	45	1	0	0	0	0	0	0	0	1	15378	874	31	1		1	STXBP2	19	7709559	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	33559	7709559	51419424	1026	35405											
MUC16	94025	broad.mit.edu	37	chr19	9063005	9063005	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacttcagcagtggcaccAgtgggcactccagaaaggac	12	5	13	11	0	1	2	1	0	0	2	2	4	2	3	2	3	1	3	2	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:9063005A>C	uc002mkp.2	-	3	24645	c.24441T>G	c.(24439-24441)ACT>ACG	p.T8147T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8149	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGTGGCACCAGTGGGCACTC	0.547													22	113					0	0	0.012319	0	0		C	9063005	C	C	9063005	2	2	45	1	0	0	0	0	0	0	0	1	9991	175	7	5		5	MUC16	19	9063005	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1353446	9063005	50065978	1027	35406											
EIF3G	8666	broad.mit.edu	37	chr19	10226702	10226702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtcgcgcaggctcggcGgcacatacttccctgtcttg	4	9	11	17	5	1	0	0	0	1	0	4	0	2	0	3	3	1	3	3	3	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:10226702G>A	uc002mnd.2	-	8	708	c.644C>T	c.(643-645)CCG>CTG	p.P215L		NM_003755	NP_003746	O75821	EIF3G_HUMAN	eukaryotic translation initiation factor 3,	215						cytosol|eukaryotic translation initiation factor 3 complex|nucleus|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0			OV - Ovarian serous cystadenocarcinoma(20;3.53e-09)|Epithelial(33;4.91e-06)|all cancers(31;1.1e-05)			CAGGCTCGGCGGCACATACTT	0.682													5	33					0	0	0.001168	0	0		A	10226702	A	A	10226702	3	1	45	1	0	0	0	0	1	0	0	0	5025	1116	39	1	334	1	EIF3G	19	10226702	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1163697	10226702	48902281	1028	35407											
DNMT1	1786	broad.mit.edu	37	chr19	10260288	10260288	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgcagaaccagtgggcGtgaaacatctgcccgttgct	9	7	12	13	3	1	2	0	1	1	1	1	2	1	2	3	1	5	3	3	1	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:10260288G>A	uc002mng.2	-	25	2559	c.2379C>T	c.(2377-2379)CAC>CAT	p.H793H	DNMT1_uc010xlc.1_Silent_p.H809H|DNMT1_uc002mnh.2_Silent_p.H688H|DNMT1_uc010xld.1_Silent_p.H793H	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	793	BAH 1.				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	ACCAGTGGGCGTGAAACATCT	0.577													10	256					0	0	0.008291	0	0		A	10260288	A	A	10260288	2	1	45	1	0	0	0	0	0	0	0	1	4681	1136	40	1		1	DNMT1	19	10260288	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	33586	10260288	48868695	1029	35408											
RAVER1	125950	broad.mit.edu	37	chr19	10432222	10432222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacctgcaggcagctcccCgaggagggggttggctggct	5	8	17	11	1	0	0	0	0	0	0	1	2	1	1	3	6	3	7	3	6	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:10432222C>T	uc002moa.2	-	7	1377	c.1297G>A	c.(1297-1299)GGG>AGG	p.G433R		NM_133452	NP_597709	Q8IY67	RAVR1_HUMAN	RAVER1	416	Pro-rich.					cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.81e-09)|Epithelial(33;3.65e-06)|all cancers(31;8.35e-06)			GGCAGCTCCCCGAGGAGGGGG	0.552													12	46					0	0	0.001855	0	0		T	10432222	T	T	10432222	3	4	45	1	0	0	0	0	1	0	0	0	13119	652	23	1	1001	1	RAVER1	19	10432222	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	171934	10432222	48696761	1030	35409											
QTRT1	81890	broad.mit.edu	37	chr19	10823277	10823277	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcttggatgtgacatgttCgactgcgtcttccccacacg	6	12	10	13	3	2	1	0	1	2	0	4	3	3	2	2	1	1	2	2	1	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:10823277C>T	uc002mpr.2	+	7	859	c.834C>T	c.(832-834)TTC>TTT	p.F278F	DNM2_uc010dxk.2_5'Flank	NM_031209	NP_112486	Q9BXR0	TGT_HUMAN	queuine tRNA-ribosyltransferase 1	278					queuosine biosynthetic process	mitochondrion|nucleus|ribosome	metal ion binding|queuine tRNA-ribosyltransferase activity			skin(1)	1			Epithelial(33;1.55e-05)|all cancers(31;3.42e-05)			GTGACATGTTCGACTGCGTCT	0.637													11	192					0	0	0.008291	0	0		T	10823277	T	T	10823277	2	4	45	1	0	0	0	0	0	0	0	1	12910	883	31	1		1	QTRT1	19	10823277	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	391055	10823277	48305706	1031	35410											
LDLR	3949	broad.mit.edu	37	chr19	11224051	11224051	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcatccccaacctgaggaaCgtggtcgctctggacacgga	9	7	11	14	3	2	1	1	1	1	0	4	4	3	4	3	4	2	1	3	4	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:11224051C>T	uc002mqk.3	+	9	1452	c.1284C>T	c.(1282-1284)AAC>AAT	p.N428N	LDLR_uc010xlk.1_Silent_p.N428N|LDLR_uc010xll.1_Silent_p.N387N|LDLR_uc010xlm.1_Silent_p.N281N|LDLR_uc010xln.1_Silent_p.N301N|LDLR_uc010xlo.1_Silent_p.N260N	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	428	LDL-receptor class B 1.|Extracellular (Potential).				cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		Lung NSC(9;0.000245)|Renal(1328;0.0007)|Hepatocellular(1079;0.0524)		GBM - Glioblastoma multiforme(1328;1.36e-05)|STAD - Stomach adenocarcinoma(1328;0.000766)|Lung(535;0.197)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	ACCTGAGGAACGTGGTCGCTC	0.602													10	64					0	0	0.008291	0	0		T	11224051	T	T	11224051	2	4	45	1	0	0	0	0	0	0	0	1	8720	535	19	1		1	LDLR	19	11224051	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	400774	11224051	47904932	1032	35411											
ZNF563	147837	broad.mit.edu	37	chr19	12429861	12429861	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagtgtgccttttcatgtgTatctgaaagcttccaagatg	9	14	9	9	0	2	2	1	1	1	1	3	2	3	2	3	0	2	2	3	0	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:12429861T>C	uc002mtp.2	-	4	1216	c.978A>G	c.(976-978)ATA>ATG	p.I326M		NM_145276	NP_660319	Q8TA94	ZN563_HUMAN	zinc finger protein 563	326	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTTCATGTGTATCTGAAAGC	0.423													28	152					0	0	0.00632	0	0		C	12429861	C	C	12429861	3	2	45	1	0	0	0	0	1	0	0	0	18019	1628	57	3	456	3	ZNF563	19	12429861	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1205810	12429861	46699122	1033	35412											
TNPO2	30000	broad.mit.edu	37	chr19	12826219	12826219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagggagctgcacccacCggatcttgggactgcagtgc	7	6	13	15	1	1	0	0	0	1	0	1	3	1	3	4	3	4	3	4	3	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:12826219C>T	uc002muo.2	-	6	751	c.566G>A	c.(565-567)CGG>CAG	p.R189Q	TNPO2_uc002mup.2_Missense_Mutation_p.R281Q|TNPO2_uc002muq.2_Missense_Mutation_p.R189Q|TNPO2_uc002mur.2_Missense_Mutation_p.R189Q	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	189	HEAT 2.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						CTGCACCCACCGGATCTTGGG	0.632													15	74					0	0	0.00499	0	0		T	12826219	T	T	12826219	3	4	45	1	0	0	0	0	1	0	0	0	16361	666	23	1	2203	1	TNPO2	19	12826219	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	396358	12826219	46302764	1034	35413											
MAST1	22983	broad.mit.edu	37	chr19	12985178	12985178	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaggatggcactggcgggAtggccagggctgtggccaag	7	5	20	9	2	0	0	0	0	0	0	0	3	0	3	2	8	0	2	2	8	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:12985178A>T	uc002mvm.2	+	26	4335	c.4207A>T	c.(4207-4209)ATG>TTG	p.M1403L		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1403					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						CACTGGCGGGATGGCCAGGGC	0.736													3	28					0	0	0.009096	0	0		T	12985178	T	T	12985178	3	4	45	1	0	0	0	0	1	0	0	0	9342	333	12	5	4309	5	MAST1	19	12985178	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	158959	12985178	46143805	1035	35414											
NWD1	284434	broad.mit.edu	37	chr19	16860328	16860328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacggccggacaggagttggCgtggctctaccaagagatcc	9	7	14	11	3	1	1	0	0	1	1	2	4	2	3	3	5	2	2	3	5	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:16860328C>T	uc002neu.3	+	6	1297	c.875C>T	c.(874-876)GCG>GTG	p.A292V	NWD1_uc002net.3_Missense_Mutation_p.A157V|NWD1_uc002nev.3_Missense_Mutation_p.A86V			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	292	WD 1.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						CAGGAGTTGGCGTGGCTCTAC	0.627													7	45					0	0	0.00308	0	0		T	16860328	T	T	16860328	3	4	45	1	0	0	0	0	1	0	0	0	10800	768	27	1	476	1	NWD1	19	16860328	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3875150	16860328	42268655	1036	35415											
MYO9B	4650	broad.mit.edu	37	chr19	17213125	17213125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctacaaccccaagtacGtgaagatgtatgagaaccag	15	7	8	11	1	1	3	0	2	1	2	1	4	1	3	4	0	4	2	4	0	7	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:17213125G>A	uc010eak.2	+	2	750	c.598G>A	c.(598-600)GTG>ATG	p.V200M	MYO9B_uc002nfi.2_Missense_Mutation_p.V200M|MYO9B_uc002nfj.1_Missense_Mutation_p.V200M	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	200	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						CCCCAAGTACGTGAAGATGTA	0.567													7	165					0	0	0.00308	0	0		A	17213125	A	A	17213125	3	1	45	1	0	0	0	0	1	0	0	0	10103	1145	40	1	600	1	MYO9B	19	17213125	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	352797	17213125	41915858	1037	35416											
GTPBP3	84705	broad.mit.edu	37	chr19	17449796	17449796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaggcctatatcgatttcGgcgaggatgacaacctggag	10	9	14	8	3	0	1	0	1	0	0	2	6	0	4	2	5	1	0	2	5	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:17449796G>A	uc010eas.2	+	5	690	c.625G>A	c.(625-627)GGC>AGC	p.G209S	GTPBP3_uc010xpo.1_Missense_Mutation_p.G231S|GTPBP3_uc010ear.1_RNA|GTPBP3_uc002ngh.3_Missense_Mutation_p.G209S|GTPBP3_uc002ngg.3_Missense_Mutation_p.G209S|GTPBP3_uc002ngi.3_5'UTR	NM_032620	NP_116009	Q969Y2	GTPB3_HUMAN	GTP binding protein 3 (mitochondrial) isoform V	209					tRNA modification	mitochondrion	GTP binding|GTPase activity			skin(1)	1						TATCGATTTCGGCGAGGATGA	0.612													17	71					0	0	0.00499	0	0		A	17449796	A	A	17449796	3	1	45	1	0	0	0	0	1	0	0	0	6897	1116	39	1	643	1	GTPBP3	19	17449796	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	236671	17449796	41679187	1038	35417											
SLC27A1	376497	broad.mit.edu	37	chr19	17611367	17611367	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcgccgcttcgatggctAtgtcagcgagagcgccacca	7	7	13	14	5	1	1	1	0	0	1	2	3	1	1	3	1	3	3	3	1	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:17611367A>G	uc002ngu.1	+	9	1447	c.1397A>G	c.(1396-1398)TAT>TGT	p.Y466C	SLC27A1_uc010xpp.1_Missense_Mutation_p.Y287C|SLC27A1_uc002ngv.1_Missense_Mutation_p.Y68C	NM_198580	NP_940982	Q6PCB7	S27A1_HUMAN	solute carrier family 27, member 1	466	Sufficient for oligomerization (By similarity).|Cytoplasmic (Potential).				cardiolipin biosynthetic process|fatty acid metabolic process|long-chain fatty acid transport|negative regulation of phospholipid biosynthetic process|phosphatidic acid biosynthetic process|phosphatidylcholine biosynthetic process|phosphatidylethanolamine biosynthetic process|phosphatidylinositol biosynthetic process|phosphatidylserine biosynthetic process|transmembrane transport	endomembrane system|integral to membrane	fatty acid transporter activity|nucleotide binding				0						TTCGATGGCTATGTCAGCGAG	0.642													4	20					0	0	0.009096	0	0		G	17611367	G	G	17611367	3	3	45	1	0	0	0	0	1	0	0	0	14550	449	16	3	1431	3	SLC27A1	19	17611367	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	161571	17611367	41517616	1039	35418											
GLT25D1	79709	broad.mit.edu	37	chr19	17692195	17692195	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaggcactgagccgtgaggCcaagaactcggacgtgctcc	9	5	14	13	3	0	3	0	2	0	1	2	4	1	4	3	3	3	3	3	3	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:17692195C>G	uc002nhc.1	+	12	1823	c.1811C>G	c.(1810-1812)GCC>GGC	p.A604G	GLT25D1_uc010eay.1_Intron	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	604					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0						AGCCGTGAGGCCAAGAACTCG	0.617													10	51					0	0	0.006214	0	0		G	17692195	G	G	17692195	3	3	45	1	0	0	0	0	1	0	0	0	6481	739	26	5	1857	5	GLT25D1	19	17692195	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	80828	17692195	41436788	1040	35419											
FCHO1	23149	broad.mit.edu	37	chr19	17886908	17886908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggctccagcctgcagccccGaggcagcagcggcacagctc	7	3	14	17	2	0	0	0	0	0	0	2	1	1	0	4	3	6	6	4	3	0	0	rs148410831	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:17886908G>A	uc010ebb.2	+	15	1309	c.1120G>A	c.(1120-1122)GAG>AAG	p.E374K	FCHO1_uc002nhg.3_Missense_Mutation_p.E374K|FCHO1_uc002nhh.2_Missense_Mutation_p.E374K|FCHO1_uc010xpw.1_Missense_Mutation_p.E324K|FCHO1_uc002nhi.2_5'Flank|FCHO1_uc002nhj.2_5'Flank	NM_001161358	NP_001154830	O14526	FCHO1_HUMAN	FCH domain only 1 isoform b	374										breast(1)	1						CTGCAGCCCCGAGGCAGCAGC	0.677													28	74					0	0	0.004656	0	0		A	17886908	A	A	17886908	3	1	45	1	0	0	0	0	1	0	0	0	5801	1059	37	1	1170	1	FCHO1	19	17886908	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	194713	17886908	41242075	1041	35420											
B3GNT3	10331	broad.mit.edu	37	chr19	17919127	17919127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctggaggcacagactcacGgagacatcctgcagtgggac	11	5	14	11	1	1	2	1	0	0	2	2	5	2	4	1	4	2	3	1	4	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:17919127G>A	uc002nhk.1	+	2	596	c.511G>A	c.(511-513)GGA>AGA	p.G171R	B3GNT3_uc002nhl.1_Missense_Mutation_p.G171R|B3GNT3_uc010ebd.1_Missense_Mutation_p.G171R|B3GNT3_uc010ebe.1_Missense_Mutation_p.G171R	NM_014256	NP_055071	Q9Y2A9	B3GN3_HUMAN	UDP-GlcNAc:betaGal	171	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to plasma membrane	galactosyltransferase activity			upper_aerodigestive_tract(1)	1						ACAGACTCACGGAGACATCCT	0.637													4	69					0	0	0.000602	0	0		A	17919127	A	A	17919127	3	1	45	1	0	0	0	0	1	0	0	0	1259	1117	39	1	513	1	B3GNT3	19	17919127	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	32219	17919127	41209856	1042	35421											
ATP13A1	57130	broad.mit.edu	37	chr19	19758041	19758041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtagaggacgctctggCtgtaggccaggatgagggca	9	6	17	9	1	1	2	0	1	1	1	1	4	1	4	2	6	0	5	2	6	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:19758041C>T	uc002nnh.3	-	22	3030	c.3002G>A	c.(3001-3003)AGC>AAC	p.S1001N	ATP13A1_uc002nne.2_Missense_Mutation_p.S141N|ATP13A1_uc002nnf.3_Missense_Mutation_p.S369N|ATP13A1_uc002nng.2_Missense_Mutation_p.S883N	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	1001	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						GACGCTCTGGCTGTAGGCCAG	0.612													24	109					0	0	0.003954	0	0		T	19758041	T	T	19758041	3	4	45	1	0	0	0	0	1	0	0	0	1124	797	28	2	632	2	ATP13A1	19	19758041	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1838914	19758041	39370942	1043	35422											
ZNF43	7594	broad.mit.edu	37	chr19	21991137	21991137	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctttgccacattcttcacActtgtagggtttctctccag	7	15	7	12	0	3	0	1	0	2	0	5	0	4	0	2	1	2	3	2	1	1	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:21991137A>C	uc002nqj.2	-	4	1832	c.1702T>G	c.(1702-1704)TGT>GGT	p.C568G	ZNF43_uc010ecv.2_Missense_Mutation_p.C562G|ZNF43_uc002nql.2_Missense_Mutation_p.C562G|ZNF43_uc002nqm.2_Missense_Mutation_p.C562G|ZNF43_uc002nqk.2_Missense_Mutation_p.C498G	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	568	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		CATTCTTCACACTTGTAGGGT	0.368													17	70					0	0	0.006122	0	0		C	21991137	C	C	21991137	3	2	45	1	0	0	0	0	1	0	0	0	17928	159	6	5	731	5	ZNF43	19	21991137	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2233096	21991137	37137846	1044	35423											
C19orf12	83636	broad.mit.edu	37	chr19	30193763	30193763	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactccaggtgcctgatgatGgctgcggcttcgttaaagag	8	10	13	10	2	0	3	0	2	0	1	2	3	1	3	2	3	2	3	2	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:30193763G>A	uc002nsk.2	-	3	713	c.282C>T	c.(280-282)GCC>GCT	p.A94A	C19orf12_uc002nsj.2_Silent_p.A105A|C19orf12_uc002nsl.2_3'UTR|C19orf12_uc002nsm.2_RNA	NM_031448	NP_113636	Q9NSK7	CS012_HUMAN	hypothetical protein LOC83636 isoform 2	94						integral to membrane					0	Ovarian(5;0.000567)|Breast(6;0.0203)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0435)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.183)			GCCTGATGATGGCTGCGGCTT	0.612													15	62					0	0	0.00245	0	0		A	30193763	A	A	30193763	2	1	45	1	0	0	0	0	0	0	0	1	1912	1335	47	4		4	C19orf12	19	30193763	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	8202626	30193763	28935220	1045	35424											
ZNF536	9745	broad.mit.edu	37	chr19	30934972	30934972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactgcgaccacagggcggCgcagaaggggaacctcaaga	12	3	15	11	3	1	2	1	0	0	2	1	4	1	3	2	4	3	2	2	4	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:30934972C>T	uc002nsu.1	+	2	641	c.503C>T	c.(502-504)GCG>GTG	p.A168V	ZNF536_uc010edd.1_Missense_Mutation_p.A168V	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	168	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CACAGGGCGGCGCAGAAGGGG	0.657													5	31					0	0	0.000602	0	0		T	30934972	T	T	30934972	3	4	45	1	0	0	0	0	1	0	0	0	17999	768	27	1	505	1	ZNF536	19	30934972	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	741209	30934972	28194011	1046	35425											
LSM14A	26065	broad.mit.edu	37	chr19	34712518	34712518	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatacagaggcagaggaggtCttggtttccgtggtggcaga	9	9	17	6	1	1	3	0	0	1	3	2	5	2	4	1	6	1	3	1	6	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:34712518C>A	uc002nvb.3	+	9	1439	c.1243C>A	c.(1243-1245)CTT>ATT	p.L415I	LSM14A_uc002nva.3_Missense_Mutation_p.L415I|LSM14A_uc010xru.1_Missense_Mutation_p.L374I|LSM14A_uc002nvc.3_Missense_Mutation_p.L221I	NM_001114093	NP_001107565	Q8ND56	LS14A_HUMAN	LSM14 homolog A isoform a	415					cytoplasmic mRNA processing body assembly|multicellular organismal development|regulation of translation	cytoplasmic mRNA processing body|intracellular membrane-bounded organelle|stress granule				skin(1)	1	Esophageal squamous(110;0.162)					CAGAGGAGGTCTTGGTTTCCG	0.577													14	65					3.45872e-05	3.65971e-05	0.004007	1	0		A	34712518	A	A	34712518	3	1	45	1	0	0	0	0	1	0	0	0	9072	913	32	5	1277	5	LSM14A	19	34712518	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3777546	34712518	24416465	1047	35426											
HPN	3249	broad.mit.edu	37	chr19	35556774	35556774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctctcccctcccagggCgacagcggtggtccctttgt	3	10	10	18	2	1	0	0	0	1	0	5	1	4	0	5	3	1	0	5	3	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:35556774C>T	uc002nxq.1	+	13	1298	c.1053C>T	c.(1051-1053)GGC>GGT	p.G351G	HPN_uc002nxr.1_Silent_p.G351G|HPN_uc002nxs.1_Silent_p.G193G|HPN_uc010xsh.1_Silent_p.G320G|HPN_uc002nxt.1_Silent_p.G235G|LOC100128675_uc010xsi.1_Intron	NM_002151	NP_002142	P05981	HEPS_HUMAN	hepsin	351	Extracellular (Potential).|Peptidase S1.				cell growth|proteolysis	cytoplasm|integral to plasma membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2	all_lung(56;5.38e-08)|Lung NSC(56;8.61e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)		Coagulation factor VIIa(DB00036)	CCTCCCAGGGCGACAGCGGTG	0.657													22	102					0	0	0.003954	0	0		T	35556774	T	T	35556774	2	4	45	1	0	0	0	0	0	0	0	1	7352	755	27	1		1	HPN	19	35556774	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	844256	35556774	23572209	1048	35427											
LSR	51599	broad.mit.edu	37	chr19	35752847	35752847	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggacctcaggggtggcTgagctcttacctggttttca	6	11	15	9	0	3	1	2	1	1	0	3	3	3	3	2	6	2	3	2	6	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:35752847T>C	uc002nyl.2	+	4	961	c.738T>C	c.(736-738)GCT>GCC	p.A246A	LSR_uc002nym.2_Intron|LSR_uc002nyn.2_Intron|LSR_uc002nyo.2_Intron|LSR_uc010xsr.1_Intron|LSR_uc002nyp.2_Silent_p.A209A	NM_205834	NP_991403	Q86X29	LSR_HUMAN	lipolysis stimulated lipoprotein receptor	246	Extracellular (Potential).				embryo development|liver development	chylomicron|integral to membrane|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle	receptor activity				0	all_lung(56;3.91e-09)|Lung NSC(56;5.64e-09)|Esophageal squamous(110;0.162)		Epithelial(14;1.33e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.29e-18)|all cancers(14;7.11e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			CAGGGGTGGCTGAGCTCTTAC	0.602													26	99					0	0	0.00632	0	0		C	35752847	C	C	35752847	2	2	45	1	0	0	0	0	0	0	0	1	9082	1567	55	3		3	LSR	19	35752847	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	196073	35752847	23376136	1049	35428											
MAG	4099	broad.mit.edu	37	chr19	35800926	35800926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagagcgagcgggagttcGtgtactcggagcgcagcggc	8	5	18	10	7	0	1	0	0	0	1	2	5	0	3	0	3	5	3	0	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:35800926G>A	uc002nyy.1	+	8	1530	c.1381G>A	c.(1381-1383)GTG>ATG	p.V461M	MAG_uc002nyx.1_Missense_Mutation_p.V461M|MAG_uc010eds.1_Missense_Mutation_p.V436M|MAG_uc002nyz.1_Missense_Mutation_p.V461M	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	461	Ig-like C2-type 4.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GCGGGAGTTCGTGTACTCGGA	0.677													20	71					0	0	0.012319	0	0		A	35800926	A	A	35800926	3	1	45	1	0	0	0	0	1	0	0	0	9180	1145	40	1	1403	1	MAG	19	35800926	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	48079	35800926	23328057	1050	35429											
FFAR3	2865	broad.mit.edu	37	chr19	35850476	35850476	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggtggcggggctgttggcGgccacgctgctcaacttcct	4	9	16	12	3	1	0	1	0	0	0	2	0	2	0	2	6	2	4	2	6	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:35850476G>A	uc002nzd.2	+	2	759	c.684G>A	c.(682-684)GCG>GCA	p.A228A	FFAR3_uc010xsu.1_Intron	NM_005304	NP_005295	O14843	FFAR3_HUMAN	free fatty acid receptor 3	228	Helical; Name=6; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding				0	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;1.29e-19)|OV - Ovarian serous cystadenocarcinoma(14;4.63e-18)|all cancers(14;5.19e-17)|LUSC - Lung squamous cell carcinoma(66;0.0221)			GGCTGTTGGCGGCCACGCTGC	0.637													10	115					0	0	0.013537	0	0		A	35850476	A	A	35850476	2	1	45	1	0	0	0	0	0	0	0	1	5843	1103	39	1		1	FFAR3	19	35850476	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	49550	35850476	23278507	1051	35430											
MLL4	9757	broad.mit.edu	37	chr19	36211852	36211852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgcctgtggtgagtgccCgctcctcccgtgtcatcaag	5	12	11	13	2	2	1	2	1	0	0	4	1	4	1	4	1	2	1	4	1	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:36211852C>T	uc010eei.2	+	3	1603	c.1603C>T	c.(1603-1605)CGC>TGC	p.R535C		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	535	Pro-rich.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGTGAGTGCCCGCTCCTCCCG	0.597													6	19					0	0	0.001168	0	0		T	36211852	T	T	36211852	3	4	45	1	0	0	0	0	1	0	0	0	9641	652	23	1	1613	1	MLL4	19	36211852	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	361376	36211852	22917131	1052	35431											
ZNF565	147929	broad.mit.edu	37	chr19	36686014	36686014	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttccaggcacttccattcTtccagagagaactctatggc	9	11	9	12	0	2	2	0	0	2	2	5	3	5	2	3	3	1	2	3	3	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:36686014T>A	uc002odn.2	-	3	162	c.54A>T	c.(52-54)GAA>GAT	p.E18D	ZNF565_uc010ees.2_Translation_Start_Site|ZNF565_uc002odo.2_Missense_Mutation_p.E18D|ZNF565_uc002odp.1_Missense_Mutation_p.E18D	NM_152477	NP_689690	Q8N9K5	ZN565_HUMAN	zinc finger protein 565	18					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.206)			ACTTCCATTCTTCCAGAGAGA	0.443													21	106					0	0	0.00278	0	0		A	36686014	A	A	36686014	3	1	45	1	0	0	0	0	1	0	0	0	18021	1606	56	5	1457	5	ZNF565	19	36686014	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	474162	36686014	22442969	1053	35432											
HKR1	284459	broad.mit.edu	37	chr19	37854405	37854405	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcagaagcctaacctgtttAggcacaagagggcacactca	13	6	11	11	0	1	2	1	0	0	2	1	2	1	2	2	3	2	4	2	3	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:37854405A>C	uc002ogb.2	+	6	1977	c.1708A>C	c.(1708-1710)AGG>CGG	p.R570R	HKR1_uc002ofx.2_Silent_p.R286R|HKR1_uc002ofy.2_Silent_p.R286R|HKR1_uc002oga.2_Silent_p.R552R|HKR1_uc010xto.1_Silent_p.R552R|HKR1_uc002ogc.2_Silent_p.R551R|HKR1_uc010xtp.1_Silent_p.R509R|HKR1_uc002ogd.2_Silent_p.R509R	NM_181786	NP_861451	P10072	HKR1_HUMAN	GLI-Kruppel family member HKR1	570	C2H2-type 10.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TAACCTGTTTAGGCACAAGAG	0.507													8	57					0	0	0.00308	0	0		C	37854405	C	C	37854405	2	2	45	1	0	0	0	0	0	0	0	1	7210	411	15	5		5	HKR1	19	37854405	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1168391	37854405	21274578	1054	35433											
PPP1R14A	94274	broad.mit.edu	37	chr19	38742064	38742064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggaggccttgaagctttGccagcagctcctggatgaag	8	10	14	9	0	0	2	0	2	0	0	1	4	1	4	3	3	4	3	3	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:38742064G>A	uc002ohq.2	-	4	531	c.338C>T	c.(337-339)GCA>GTA	p.A113V	PPP1R14A_uc010efv.2_Missense_Mutation_p.A86V	NM_033256	NP_150281	Q96A00	PP14A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	113	Inhibitory.				regulation of phosphorylation	cytoplasm	protein binding|protein phosphatase inhibitor activity				0	all_cancers(60;9.57e-07)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TTGAAGCTTTGCCAGCAGCTC	0.687													7	25					0	0	0.006214	0	0		A	38742064	A	A	38742064	3	1	45	1	0	0	0	0	1	0	0	0	12381	1319	46	2	109	2	PPP1R14A	19	38742064	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	887659	38742064	20386919	1055	35434											
HNRNPL	3191	broad.mit.edu	37	chr19	39329634	39329634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctccaccatggcggcccccgGcttgcttttcatgaatttca	6	12	8	15	2	2	1	2	1	0	0	3	1	3	1	4	3	1	2	4	3	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:39329634G>A	uc010xul.1	-	9	1266	c.1255C>T	c.(1255-1257)CCG>TCG	p.P419S	HNRNPL_uc010ege.1_Intron|HNRNPL_uc002ojj.1_Missense_Mutation_p.P75S|HNRNPL_uc002ojo.1_5'UTR|HNRNPL_uc002ojk.2_Missense_Mutation_p.P75S|HNRNPL_uc002ojl.2_Missense_Mutation_p.P75S|HNRNPL_uc010xum.1_Missense_Mutation_p.P286S|HNRNPL_uc002ojp.1_Missense_Mutation_p.P75S	NM_001533	NP_001524	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	419	RRM 3.				nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			GCGGCCCCCGGCTTGCTTTTC	0.557													7	138					0	0	0.00308	0	0		A	39329634	A	A	39329634	3	1	45	1	0	0	0	0	1	0	0	0	7286	1203	42	2	534	2	HNRNPL	19	39329634	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	587570	39329634	19799349	1056	35435											
IL28B	282617	broad.mit.edu	37	chr19	39735458	39735458	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggccctcttaaaggcctgCagctcctgtggagacaggga	8	9	13	11	0	1	1	0	0	1	1	2	3	2	2	3	4	2	2	3	4	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:39735458C>T	uc010xut.1	-	1	154	c.150G>A	c.(148-150)CTG>CTA	p.L50L	IL28B_uc010xuu.1_Silent_p.L50L	NM_172139	NP_742151	Q8IZI9	IL28B_HUMAN	interleukin 28B	50					response to virus	extracellular space	cytokine activity				0	all_cancers(60;2.81e-07)|all_lung(34;7.81e-08)|Lung NSC(34;9.29e-08)|all_epithelial(25;3.9e-07)|Ovarian(47;0.0315)		Epithelial(26;1.55e-27)|all cancers(26;1.41e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			TAAAGGCCTGCAGCTCCTGTG	0.627													8	43					0	0	0.006214	0	0		T	39735458	T	T	39735458	2	4	45	1	0	0	0	0	0	0	0	1	7699	697	25	2		2	IL28B	19	39735458	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	405824	39735458	19393525	1057	35436											
MAP3K10	4294	broad.mit.edu	37	chr19	40704384	40704384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaagaccaccaagatgaGcgctgcggggacctacgcct	11	4	12	14	3	0	3	0	1	0	2	0	4	0	4	4	2	3	2	4	2	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:40704384G>A	uc002ona.2	+	2	1073	c.785G>A	c.(784-786)AGC>AAC	p.S262N	MAP3K10_uc002onb.2_5'UTR	NM_002446	NP_002437	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase	262	Protein kinase.				activation of JUN kinase activity|induction of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of JNK cascade|protein autophosphorylation|smoothened signaling pathway	cytoplasm	ATP binding|bHLH transcription factor binding|JUN kinase kinase kinase activity|protein homodimerization activity|transcription corepressor activity			ovary(2)|lung(2)|skin(1)|pancreas(1)	6						ACCAAGATGAGCGCTGCGGGG	0.622													8	45					0	0	0.004482	0	0		A	40704384	A	A	40704384	3	1	45	1	0	0	0	0	1	0	0	0	9262	971	34	2	791	2	MAP3K10	19	40704384	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	968926	40704384	18424599	1058	35437											
HIPK4	147746	broad.mit.edu	37	chr19	40886552	40886552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaccatcatgtcggagaccGcattggtgcaggtctcaccc	8	8	12	13	2	2	1	2	0	1	1	4	3	2	2	3	4	1	2	3	4	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:40886552G>A	uc002onp.2	-	3	1631	c.1346C>T	c.(1345-1347)GCG>GTG	p.A449V		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	449						cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			GTCGGAGACCGCATTGGTGCA	0.632													33	121					0	0	0.007835	0	0		A	40886552	A	A	40886552	3	1	45	1	0	0	0	0	1	0	0	0	7135	1087	38	1	512	1	HIPK4	19	40886552	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	182168	40886552	18242431	1059	35438											
C19orf54	284325	broad.mit.edu	37	chr19	41248565	41248565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcccggggagccctcctctgGcagggatggtggttggcagg	4	8	18	11	1	1	0	0	0	1	0	3	2	3	2	3	8	1	3	3	8	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:41248565G>A	uc002oou.1	-	6	949	c.829C>T	c.(829-831)CCA>TCA	p.P277S	C19orf54_uc002oow.1_Missense_Mutation_p.P105S|C19orf54_uc002oox.1_RNA|C19orf54_uc002ooy.1_Intron|C19orf54_uc010xvs.1_RNA	NM_198476	NP_940878	Q5BKX5	CS054_HUMAN	hypothetical protein LOC284325	277											0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			CCCTCCTCTGGCAGGGATGGT	0.652													3	27					0	0	0.009096	0	0		A	41248565	A	A	41248565	3	1	45	1	0	0	0	0	1	0	0	0	1939	1203	42	2	230	2	C19orf54	19	41248565	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	362013	41248565	17880418	1060	35439											
TGFB1	7040	broad.mit.edu	37	chr19	41836966	41836967	+	Frame_Shift_Ins	INS	-	T	T																															gggcgggacctcagctgcacINSttgcaggagcgcacgatcat																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:41836966_41836967insT	uc002oqh.1	-	7	2030_2031	c.1163_1164insA	c.(1162-1164)AAGfs	p.K388fs	CYP2F1_uc010xvw.1_Intron	NM_000660	NP_000651	P01137	TGFB1_HUMAN	transforming growth factor, beta 1 precursor	388					active induction of host immune response by virus|ATP biosynthetic process|cell cycle arrest|cell growth|cell-cell junction organization|chondrocyte differentiation|connective tissue replacement involved in inflammatory response wound healing|epidermal growth factor receptor signaling pathway|evasion of host defenses by virus|hemopoietic progenitor cell differentiation|induction of apoptosis|lymph node development|mitotic cell cycle G1/S transition checkpoint|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of cell-cell adhesion|negative regulation of DNA replication|negative regulation of epithelial cell proliferation|negative regulation of fat cell differentiation|negative regulation of macrophage cytokine production|negative regulation of mitotic cell cycle|negative regulation of protein phosphorylation|ossification involved in bone remodeling|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of collagen biosynthetic process|positive regulation of epithelial to mesenchymal transition|positive regulation of fibroblast migration|positive regulation of interleukin-17 production|positive regulation of isotype switching to IgA isotypes|positive regulation of MAP kinase activity|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of protein dephosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|protein export from nucleus|protein import into nucleus, translocation|receptor catabolic process|regulation of DNA binding|regulation of striated muscle tissue development|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|response to estradiol stimulus|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway|viral infectious cycle	extracellular space|Golgi lumen|nucleus|platelet alpha granule lumen|proteinaceous extracellular matrix	growth factor activity|type II transforming growth factor beta receptor binding				0					Hyaluronidase(DB00070)	CTCAGCTGCACTTGCAGGAGCG	0.465													6	11	---	---	---	---						.	T	41836967	T	T	41836966	7	5	45	1	0	1	1	0	0	0	0	0	15841	564	20	0	12	0	TGFB1	19	41836966	Frame_Shift_Ins	INS	-	TCGA-BR-6852-01A-11D-1882-08	588401	41836966	17292017	1061	35440											
B9D2	80776	broad.mit.edu	37	chr19	41860739	41860739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtccccatgcagcagctgcgGcccaccacccacgaaagccc	9	3	9	20	2	0	0	0	0	0	0	1	1	1	0	6	1	5	3	6	1	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:41860739G>A	uc002oqj.2	-	4	614	c.394C>T	c.(394-396)CCG>TCG	p.P132S	CYP2F1_uc010xvw.1_Intron|TGFB1_uc002oqh.1_5'Flank|TMEM91_uc002oqi.2_Intron	NM_030578	NP_085055	Q9BPU9	B9D2_HUMAN	B9 protein domain 2	132					cilium assembly|mitotic prometaphase	centrosome|cilium axoneme|cytosol|microtubule basal body|nucleus	gamma-tubulin binding			ovary(1)	1						AGCAGCTGCGGCCCACCACCC	0.687													12	49					0	0	0.003163	0	0		A	41860739	A	A	41860739	3	1	45	1	0	0	0	0	1	0	0	0	1279	1203	42	2	137	2	B9D2	19	41860739	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	23773	41860739	17268244	1062	35441											
ZNF526	116115	broad.mit.edu	37	chr19	42729561	42729561	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggcacacatgagtgtacaAcctgctccaaggtcttcaag	11	9	10	11	0	2	1	1	1	1	0	3	1	3	1	2	2	3	3	2	2	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:42729561A>G	uc002osz.1	+	3	1162	c.1006A>G	c.(1006-1008)ACC>GCC	p.T336A		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	336	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				TGAGTGTACAACCTGCTCCAA	0.617													9	53					0	0	0.006214	0	0		G	42729561	G	G	42729561	3	3	45	1	0	0	0	0	1	0	0	0	17992	43	2	3	1008	3	ZNF526	19	42729561	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	868822	42729561	16399422	1063	35442											
ZNF526	116115	broad.mit.edu	37	chr19	42730480	42730480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagacatcccagccactggCgcttgaggacaccctgcagc	9	6	11	15	1	0	2	0	2	0	1	1	4	1	3	3	2	3	2	3	2	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:42730480C>T	uc002osz.1	+	3	2081	c.1925C>T	c.(1924-1926)GCG>GTG	p.A642V		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	642					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				CAGCCACTGGCGCTTGAGGAC	0.617													30	132					0	0	0.003271	0	0		T	42730480	T	T	42730480	3	4	45	1	0	0	0	0	1	0	0	0	17992	768	27	1	1927	1	ZNF526	19	42730480	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	919	42730480	16398503	1064	35443											
MEGF8	1954	broad.mit.edu	37	chr19	42848624	42848624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgcctgggcctgggccGcctcctgggtgactgccagg	3	7	16	15	1	0	1	0	1	0	0	1	1	1	1	6	4	3	1	6	4	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:42848624G>A	uc002otl.3	+	11	2455	c.1820G>A	c.(1819-1821)CGC>CAC	p.R607H	MEGF8_uc002otm.3_Missense_Mutation_p.R148H	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	607	Extracellular (Potential).|PSI 1.					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				GGCCTGGGCCGCCTCCTGGGT	0.672													14	49					0	0	0.00499	0	0		A	42848624	A	A	42848624	3	1	45	1	0	0	0	0	1	0	0	0	9481	1087	38	1	1862	1	MEGF8	19	42848624	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	118144	42848624	16280359	1065	35444											
PSG1	5669	broad.mit.edu	37	chr19	43382143	43382143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtgtaaggtgtaggatcCtgcgtcctcccgggtgacat	7	11	14	9	2	0	1	0	1	0	0	3	3	3	2	3	3	1	2	3	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:43382143C>T	uc002ovb.2	-	2	490	c.352G>A	c.(352-354)GGA>AGA	p.G118R	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Missense_Mutation_p.G118R|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_RNA|PSG1_uc002our.1_Missense_Mutation_p.G118R|PSG1_uc010eio.1_Missense_Mutation_p.G118R|PSG1_uc002oux.1_Missense_Mutation_p.G47R|PSG1_uc002ouy.1_Missense_Mutation_p.G118R|PSG1_uc002ouz.1_Missense_Mutation_p.G118R|PSG1_uc002ova.1_Missense_Mutation_p.G118R|PSG1_uc002ovc.2_Missense_Mutation_p.G118R|PSG1_uc002ovd.1_Missense_Mutation_p.G118R	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	118	Ig-like V-type.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				GTGTAGGATCCTGCGTCCTCC	0.468													23	456					0	0	0.00278	0	0		T	43382143	T	T	43382143	3	4	45	1	0	0	0	0	1	0	0	0	12675	690	24	4	980	4	PSG1	19	43382143	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	533519	43382143	15746840	1066	35445											
ZNF225	7768	broad.mit.edu	37	chr19	44622395	44622395	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgaggaagagctgaggCtgctggaccttgcccagagg	9	7	15	10	0	1	4	1	2	0	2	1	6	1	6	2	4	3	3	2	4	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:44622395C>G	uc002oyj.1	+	3	313	c.70C>G	c.(70-72)CTG>GTG	p.L24V	ZNF225_uc010eje.1_5'UTR|ZNF225_uc010ejf.1_Missense_Mutation_p.L24V	NM_013362	NP_037494	Q9UK10	ZN225_HUMAN	zinc finger protein 225	24	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				AGAGCTGAGGCTGCTGGACCT	0.527													7	245					0	0	0.001984	0	0		G	44622395	G	G	44622395	3	3	45	1	0	0	0	0	1	0	0	0	17804	796	28	5	76	5	ZNF225	19	44622395	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1240252	44622395	14506588	1067	35446											
ZNF235	9310	broad.mit.edu	37	chr19	44792076	44792076	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgtatggaccctctgatgGctctggaaacttgaggctga	8	11	12	10	0	2	3	0	3	2	0	2	5	2	5	2	4	1	3	2	4	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:44792076G>A	uc002oza.3	-	5	1615	c.1512C>T	c.(1510-1512)AGC>AGT	p.S504S	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF235_uc002ozb.3_Silent_p.S500S|ZNF235_uc010xwx.1_Silent_p.S418S	NM_004234	NP_004225	Q14590	ZN235_HUMAN	zinc finger protein 93 homolog	504	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)	3		Prostate(69;0.0352)|all_neural(266;0.116)				CCCTCTGATGGCTCTGGAAAC	0.438													20	111					0	0	0.00278	0	0		A	44792076	A	A	44792076	2	1	45	1	0	0	0	0	0	0	0	1	17813	1194	42	2		2	ZNF235	19	44792076	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	169681	44792076	14336907	1068	35447											
PVRL2	5819	broad.mit.edu	37	chr19	45385524	45385524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcatcgggggcatcatcGccgccatcattgctactgct	7	10	10	14	3	3	0	3	0	0	0	5	0	3	0	2	2	3	4	2	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:45385524G>A	uc002ozw.1	+	6	1489	c.1099G>A	c.(1099-1101)GCC>ACC	p.A367T		NM_001042724	NP_001036189	Q92692	PVRL2_HUMAN	poliovirus receptor related 2 isoform delta	367	Helical; (Potential).				adherens junction organization|adhesion to symbiont|cell junction assembly|homophilic cell adhesion|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|susceptibility to natural killer cell mediated cytotoxicity|susceptibility to T cell mediated cytotoxicity|viral envelope fusion with host membrane|virion attachment, binding of host cell surface coreceptor	cell surface|integral to membrane|zonula adherens	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0	Lung NSC(12;0.00195)|all_lung(12;0.00522)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0143)		GGGCATCATCGCCGCCATCAT	0.652													5	17					0	0	0.000602	0	0		A	45385524	A	A	45385524	3	1	45	1	0	0	0	0	1	0	0	0	12865	1087	38	1	1523	1	PVRL2	19	45385524	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	593448	45385524	13743459	1069	35448											
MARK4	57787	broad.mit.edu	37	chr19	45783878	45783878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctggccctggcacgggtgCgggcgcccagcgacaccacc	5	3	16	17	4	0	0	0	0	0	0	0	1	0	0	4	5	2	2	4	5	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:45783878C>T	uc002pbb.1	+	12	1167	c.1162C>T	c.(1162-1164)CGG>TGG	p.R388W	MARK4_uc002paz.1_3'UTR|MARK4_uc002pba.1_Missense_Mutation_p.R388W|MARK4_uc002pbc.1_Missense_Mutation_p.R254W			Q96L34	MARK4_HUMAN	RecName: Full=MAP/microtubule affinity-regulating kinase 4;          EC=2.7.11.1; AltName: Full=MAP/microtubule affinity-regulating kinase-like 1;	388					microtubule bundle formation|nervous system development|positive regulation of programmed cell death	centrosome|neuron projection	ATP binding|gamma-tubulin binding|microtubule binding|protein serine/threonine kinase activity|tau-protein kinase activity|ubiquitin binding			central_nervous_system(2)|large_intestine(1)	3		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		GGCACGGGTGCGGGCGCCCAG	0.677													12	63					0	0	0.010729	0	0		T	45783878	T	T	45783878	3	4	45	1	0	0	0	0	1	0	0	0	9333	759	27	1	1208	1	MARK4	19	45783878	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	398354	45783878	13345105	1070	35449											
FAM83E	54854	broad.mit.edu	37	chr19	49107020	49107020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggccccgctgcaggccacCtatgaccgagggtttctggg	5	7	15	14	3	1	1	0	1	1	0	1	2	1	1	5	4	1	3	5	4	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:49107020C>T	uc002pjn.2	-	4	972	c.907G>A	c.(907-909)GGT>AGT	p.G303S	SPACA4_uc002pjo.2_5'Flank	NM_017708	NP_060178	Q2M2I3	FA83E_HUMAN	hypothetical protein LOC54854	303										ovary(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		TGCAGGCCACCTATGACCGAG	0.736													4	19					0	0	0.009096	0	0		T	49107020	T	T	49107020	3	4	45	1	0	0	0	0	1	0	0	0	5651	681	24	4	537	4	FAM83E	19	49107020	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3323142	49107020	10021963	1071	35450											
RPL13A	23521	broad.mit.edu	37	chr19	49993758	49993758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctggctttcctccgcaagCggatgaacaccaacccttcc	9	8	7	17	2	0	1	0	1	0	0	3	2	3	2	6	2	3	2	6	2	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:49993758C>T	uc002pny.2	+	4	203	c.181C>T	c.(181-183)CGG>TGG	p.R61W	RPL13A_uc002pnz.2_5'UTR|RPL13A_uc002poa.2_Missense_Mutation_p.R51W|SNORD33_uc010emz.1_5'Flank|SNORD34_uc010ena.1_5'Flank|SNORD35A_uc010enb.1_5'Flank	NM_012423	NP_036555	P40429	RL13A_HUMAN	ribosomal protein L13a	61					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|large ribosomal subunit	structural constituent of ribosome				0		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00154)|GBM - Glioblastoma multiforme(486;0.0246)		CCTCCGCAAGCGGATGAACAC	0.642													5	62					0	0	0.000602	0	0		T	49993758	T	T	49993758	3	4	45	1	0	0	0	0	1	0	0	0	13585	759	27	1	195	1	RPL13A	19	49993758	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	886738	49993758	9135225	1072	35451											
SCAF1	58506	broad.mit.edu	37	chr19	50154616	50154616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagagcccccgcccggacGcgcagcccacacagccgact	9	1	11	20	6	0	1	0	0	0	1	0	4	0	2	5	1	3	1	5	1	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:50154616G>A	uc002poq.2	+	7	1094	c.970G>A	c.(970-972)GCG>ACG	p.A324T		NM_021228	NP_067051	Q9H7N4	SFR19_HUMAN	SR-related CTD-associated factor 1	324					mRNA processing|RNA splicing	nucleus	RNA binding				0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00113)|GBM - Glioblastoma multiforme(134;0.0204)		CCGCCCGGACGCGCAGCCCAC	0.701													10	37					0	0	0.010729	0	0		A	50154616	A	A	50154616	3	1	45	1	0	0	0	0	1	0	0	0	13893	1087	38	1	992	1	SCAF1	19	50154616	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	160858	50154616	8974367	1073	35452											
LRRC4B	94030	broad.mit.edu	37	chr19	51022666	51022666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttgaacgtgtccgtccGgatcacctggggagagggag	7	8	17	9	3	1	2	1	1	0	1	3	5	3	4	3	4	2	1	3	4	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:51022666G>A	uc002pss.2	-	3	441	c.304C>T	c.(304-306)CGG>TGG	p.R102W		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	102	LRR 1.|Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		GTGTCCGTCCGGATCACCTGG	0.652													3	18					0	0	0.004672	0	0		A	51022666	A	A	51022666	3	1	45	1	0	0	0	0	1	0	0	0	9025	1115	39	1	1841	1	LRRC4B	19	51022666	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	868050	51022666	8106317	1074	35453											
KLK8	11202	broad.mit.edu	37	chr19	51503767	51503767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggccctggaacaaggccGcctgccaaggctgcgaatgg	8	5	15	13	2	0	0	0	0	0	0	0	2	0	1	4	5	3	2	4	5	4	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:51503767G>A	uc002pur.1	-	3	322	c.143C>T	c.(142-144)GCG>GTG	p.A48V	KLK9_uc002puw.1_RNA|KLK8_uc002puq.1_Missense_Mutation_p.A93V|KLK8_uc002pus.1_Intron|KLK8_uc002put.1_Intron|KLK8_uc002puu.1_Missense_Mutation_p.A48V|KLK9_uc002puv.1_Intron	NM_007196	NP_009127	O60259	KLK8_HUMAN	kallikrein 8 isoform 1 preproprotein	48	Peptidase S1.				cell death|keratinocyte proliferation|memory|negative regulation of axon regeneration|negative regulation of myelination|neuron projection morphogenesis|proteolysis|regulation of synapse organization|response to wounding	cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(1)	1		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.0033)|GBM - Glioblastoma multiforme(134;0.00888)		GAACAAGGCCGCCTGCCAAGG	0.597													10	100					0	0	0.010729	0	0		A	51503767	A	A	51503767	3	1	45	1	0	0	0	0	1	0	0	0	8426	1087	38	1	655	1	KLK8	19	51503767	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	481101	51503767	7625216	1075	35454											
ZNF600	162966	broad.mit.edu	37	chr19	53269396	53269396	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcaatgaaggtatgacCtctgactgaaggtcttgctg	10	11	13	7	0	2	4	0	4	2	0	2	5	2	4	1	3	1	3	1	3	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:53269396C>A	uc002qab.3	-	3	1899	c.1613G>T	c.(1612-1614)AGG>ATG	p.R538M		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	538	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		AAGGTATGACCTCTGACTGAA	0.463													10	271					4.84862e-15	5.50426e-15	0.010729	1	0		A	53269396	A	A	53269396	3	1	45	1	0	0	0	0	1	0	0	0	18055	681	24	5	559	5	ZNF600	19	53269396	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1765629	53269396	5859587	1076	35455											
ZNF347	84671	broad.mit.edu	37	chr19	53644036	53644036	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgccacattcattacacTggtaaggtttacctccagta	10	14	6	11	0	1	0	1	0	0	0	2	0	2	0	3	2	3	3	3	2	4	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:53644036T>C	uc002qbb.1	-	5	2114	c.2045A>G	c.(2044-2046)CAG>CGG	p.Q682R	ZNF347_uc010eql.1_Missense_Mutation_p.Q683R|ZNF347_uc002qbc.1_Missense_Mutation_p.Q683R	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	682	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		TTCATTACACTGGTAAGGTTT	0.423													29	108					0	0	0.007291	0	0		C	53644036	C	C	53644036	3	2	45	1	0	0	0	0	1	0	0	0	17886	1580	55	3	478	3	ZNF347	19	53644036	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	374640	53644036	5484947	1077	35456											
ZNF677	342926	broad.mit.edu	37	chr19	53741121	53741121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttgtaaggtctctgtcCagagtgaattctctgatgat	10	15	9	7	0	2	4	0	3	2	1	5	4	3	4	1	1	0	1	1	1	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:53741121C>T	uc002qbf.1	-	5	1044	c.859G>A	c.(859-861)GGA>AGA	p.G287R	ZNF677_uc002qbg.1_Missense_Mutation_p.G287R	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	287					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		GGTCTCTGTCCAGAGTGAATT	0.413													27	111					0	0	0.007291	0	0		T	53741121	T	T	53741121	3	4	45	1	0	0	0	0	1	0	0	0	18109	603	21	4	899	4	ZNF677	19	53741121	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	97085	53741121	5387862	1078	35457											
NLRP12	91662	broad.mit.edu	37	chr19	54297338	54297338	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaataaggttttgttactcGaagcgctgccaacctactgt	11	12	8	10	2	0	0	0	0	0	0	1	1	0	0	2	1	5	3	2	1	6	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:54297338G>A	uc002qch.3	-	10	3371	c.3151C>T	c.(3151-3153)CGA>TGA	p.R1051*	NLRP12_uc010eqw.2_Nonsense_Mutation_p.R277*|NLRP12_uc002qci.3_Nonsense_Mutation_p.R994*|NLRP12_uc002qcj.3_Nonsense_Mutation_p.R1052*|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_3'UTR	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	1051					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		TTTGTTACTCGAAGCGCTGCC	0.478													13	74					0	0	0.00245	0	0		A	54297338	A	A	54297338	4	1	45	1	0	0	0	0	0	1	0	0	10493	1066	37	1	38	1	NLRP12	19	54297338	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	556217	54297338	4831645	1079	35458											
MYADM	91663	broad.mit.edu	37	chr19	54376803	54376803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgccagtgacggtaacccGcaccaccatcacaaccacca	13	4	6	18	2	1	1	1	1	0	0	1	1	1	1	6	1	3	2	6	1	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:54376803G>A	uc002qcl.2	+	3	168	c.20G>A	c.(19-21)CGC>CAC	p.R7H	MYADM_uc002qcm.2_Missense_Mutation_p.R7H|MYADM_uc002qcn.2_Missense_Mutation_p.R7H|MYADM_uc002qco.2_Missense_Mutation_p.R7H|MYADM_uc002qcp.2_Missense_Mutation_p.R7H	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	7						integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		ACGGTAACCCGCACCACCATC	0.587											OREG0003650	type=REGULATORY REGION|Gene=MYADM|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	20	78					0	0	0.003954	0	0		A	54376803	A	A	54376803	3	1	45	1	0	0	0	0	1	0	0	0	10024	1087	38	1	22	1	MYADM	19	54376803	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	79465	54376803	4752180	1080	35459											
PRKCG	5582	broad.mit.edu	37	chr19	54401306	54401306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcggggcgagtccaggaCgcctgcacatctccgacttc	6	9	11	15	4	2	0	0	0	2	0	6	3	3	1	3	3	1	1	3	3	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:54401306C>T	uc002qcq.1	+	10	1315	c.1033C>T	c.(1033-1035)CGC>TGC	p.R345C	PRKCG_uc010yef.1_Silent_p.D315D|PRKCG_uc010yeg.1_Missense_Mutation_p.R345C|PRKCG_uc010yeh.1_Missense_Mutation_p.R232C	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	345					activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		GAGTCCAGGACGCCTGCACAT	0.493													15	63					0	0	0.003163	0	0		T	54401306	T	T	54401306	3	4	45	1	0	0	0	0	1	0	0	0	12534	536	19	1	1071	1	PRKCG	19	54401306	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	24503	54401306	4727677	1081	35460											
PRKCG	5582	broad.mit.edu	37	chr19	54403976	54403976	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgacaacccgcaccttctgCgggaccccggactacatagc	10	5	9	17	4	1	0	0	0	1	0	1	3	1	2	4	2	4	1	4	2	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:54403976C>T	uc002qcq.1	+	14	1830	c.1548C>T	c.(1546-1548)TGC>TGT	p.C516C	PRKCG_uc010yeg.1_Silent_p.C516C|PRKCG_uc010yeh.1_Silent_p.C403C	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	516	Protein kinase.				activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		GCACCTTCTGCGGGACCCCGG	0.557													14	423					0	0	0.00245	0	0		T	54403976	T	T	54403976	2	4	45	1	0	0	0	0	0	0	0	1	12534	776	27	1		1	PRKCG	19	54403976	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2670	54403976	4725007	1082	35461											
LENG1	79165	broad.mit.edu	37	chr19	54662025	54662025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgaggccagcttactttctCctgtcgcttttcttcctcgt	3	17	8	13	2	2	1	0	1	2	0	6	1	3	1	3	1	2	2	3	1	1	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:54662025C>T	uc002qdm.2	-	2	320	c.307G>A	c.(307-309)GAG>AAG	p.E103K		NM_024316	NP_077292	Q96BZ8	LENG1_HUMAN	leukocyte receptor cluster (LRC) member 1	103	Potential.									ovary(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CTTACTTTCTCCTGTCGCTTT	0.537													21	132					0	0	0.014323	0	0		T	54662025	T	T	54662025	3	4	45	1	0	0	0	0	1	0	0	0	8739	864	30	4	499	4	LENG1	19	54662025	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	258049	54662025	4466958	1083	35462											
LILRB3	11025	broad.mit.edu	37	chr19	54720971	54720971	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccccccgggctagtggatGgccagagtggcgtagatgct	7	8	15	11	2	0	2	0	0	0	2	0	3	0	3	4	4	2	3	4	4	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:54720971G>A	uc002qef.1	-	13	1998	c.1887C>T	c.(1885-1887)GCC>GCT	p.A629A	LILRB3_uc002qee.1_Silent_p.A630A|LILRB3_uc002qeh.1_Silent_p.A629A|LILRB3_uc002qeg.1_RNA|LILRB3_uc002qei.1_Silent_p.A629A|LILRA6_uc002qek.1_Silent_p.A630A|LILRB3_uc010erh.1_Silent_p.A646A|LILRB3_uc002qej.1_RNA|LILRA6_uc002qel.1_Silent_p.A629A|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Silent_p.A630A|LILRB3_uc002qep.1_Silent_p.A630A|LILRB3_uc002qeq.1_Silent_p.A629A|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Silent_p.A630A	NM_006864	NP_006855	O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor,	629	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	transmembrane receptor activity			skin(2)|ovary(1)	3	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GCTAGTGGATGGCCAGAGTGG	0.632													20	86					0	0	0.014323	0	0		A	54720971	A	A	54720971	2	1	45	1	0	0	0	0	0	0	0	1	8808	1335	47	4		4	LILRB3	19	54720971	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	58946	54720971	4408012	1084	35463											
LILRB2	10288	broad.mit.edu	37	chr19	54780248	54780248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattacctccactgcaggcCtctgtctgtgggctctggcc	5	11	11	14	0	3	0	0	0	3	0	4	1	4	0	4	3	2	2	4	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:54780248C>T	uc002qfb.2	-	11	1812	c.1546G>A	c.(1546-1548)GGC>AGC	p.G516S	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Intron|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Missense_Mutation_p.G515S|LILRB2_uc010yet.1_Missense_Mutation_p.G400S	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	516	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CACTGCAGGCCTCTGTCTGTG	0.617													12	48					0	0	0.001855	0	0		T	54780248	T	T	54780248	3	4	45	1	0	0	0	0	1	0	0	0	8807	681	24	4	266	4	LILRB2	19	54780248	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	59277	54780248	4348735	1085	35464											
PEG3	5178	broad.mit.edu	37	chr19	57328239	57328239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctctagcatgaatcttcCgatgttcagccaaggcggca	11	9	9	12	2	3	1	1	1	2	0	4	2	4	1	3	2	3	3	3	2	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:57328239C>T	uc002qnu.2	-	7	1922	c.1571G>A	c.(1570-1572)CGG>CAG	p.R524Q	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.R495Q|PEG3_uc002qnv.2_Missense_Mutation_p.R524Q|PEG3_uc002qnw.2_Missense_Mutation_p.R400Q|PEG3_uc002qnx.2_Missense_Mutation_p.R398Q|PEG3_uc010etr.2_Missense_Mutation_p.R524Q	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	524	C2H2-type 2.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		ATGAATCTTCCGATGTTCAGC	0.443													5	203					0	0	0.000602	0	0		T	57328239	T	T	57328239	3	4	45	1	0	0	0	0	1	0	0	0	11739	652	23	1	3199	1	PEG3	19	57328239	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2547991	57328239	1800744	1086	35465											
ZNF416	55659	broad.mit.edu	37	chr19	58084147	58084147	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggcttttctcctgtgtgAgttctctggtgtcgaacaag	6	16	11	8	1	2	1	0	1	2	0	5	2	2	1	1	2	1	2	1	2	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:58084147A>C	uc002qpf.2	-	4	1296	c.1125T>G	c.(1123-1125)ACT>ACG	p.T375T	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	375	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		CTCCTGTGTGAGTTCTCTGGT	0.438													15	75					0	0	0.003163	0	0		C	58084147	C	C	58084147	2	2	45	1	0	0	0	0	0	0	0	1	17918	291	11	5		5	ZNF416	19	58084147	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	755908	58084147	1044836	1087	35466											
ZNF417	147687	broad.mit.edu	37	chr19	58420174	58420174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacattcattgcattcatacGgcctttctccagtgtgaatc	9	14	6	12	1	3	1	2	1	1	0	5	1	3	1	2	1	2	1	2	1	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:58420174G>A	uc002qqq.2	-	3	1671	c.1472C>T	c.(1471-1473)CCG>CTG	p.P491L	ZNF417_uc010yhm.1_Missense_Mutation_p.P448L|ZNF417_uc002qqr.2_Missense_Mutation_p.P490L	NM_152475	NP_689688	Q8TAU3	ZN417_HUMAN	zinc finger protein 417	491					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0151)		GCATTCATACGGCCTTTCTCC	0.413													14	97					0	0	0.00245	0	0		A	58420174	A	A	58420174	3	1	45	1	0	0	0	0	1	0	0	0	17919	1116	39	1	259	1	ZNF417	19	58420174	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	336027	58420174	708809	1088	35467											
ZNF497	162968	broad.mit.edu	37	chr19	58868484	58868484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggatgagctgcgagtgcGcgcggaaggccttgccgcac	6	6	18	11	5	0	1	0	1	0	0	0	4	0	3	2	4	4	2	2	4	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:58868484G>A	uc002qsh.1	-	3	707	c.518C>T	c.(517-519)GCG>GTG	p.A173V	A1BG_uc002qsf.1_Intron|ZNF497_uc002qsi.1_Missense_Mutation_p.A173V|uc002qsj.1_5'UTR|uc002qsk.1_5'Flank	NM_198458	NP_940860	Q6ZNH5	ZN497_HUMAN	zinc finger protein 497	173	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0278)		CTGCGAGTGCGCGCGGAAGGC	0.677													5	30					0	0	0.000602	0	0		A	58868484	A	A	58868484	3	1	45	1	0	0	0	0	1	0	0	0	17971	1087	38	1	982	1	ZNF497	19	58868484	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	448310	58868484	260499	1089	35468											
ZBTB45	84878	broad.mit.edu	37	chr19	59028581	59028581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgtgcagccagcaggtggcGcaggcggtgacgcagctgcg	7	4	18	12	5	0	1	0	1	0	0	0	1	0	1	1	4	5	5	1	4	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr19:59028581G>A	uc002qtd.2	-	2	752	c.460C>T	c.(460-462)CGC>TGC	p.R154C	ZBTB45_uc002qte.2_Missense_Mutation_p.R154C|ZBTB45_uc002qtf.2_Missense_Mutation_p.R154C	NM_032792	NP_116181	Q96K62	ZBT45_HUMAN	zinc finger and BTB domain containing 45	154	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0165)|Lung(386;0.18)		AGCAGGTGGCGCAGGCGGTGA	0.751											OREG0025700	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	34					0	0	0.00308	0	0		A	59028581	A	A	59028581	3	1	45	1	0	0	0	0	1	0	0	0	17571	1087	38	1	1083	1	ZBTB45	19	59028581	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	160097	59028581	100402	1090	35469											
SIGLEC1	6614	broad.mit.edu	37	chr20	3683917	3683917	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcacagaagtagaagccAgtatcagccctagtggccaa	14	6	9	12	0	2	2	2	0	0	2	2	2	2	2	4	1	2	2	4	1	6	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:3683917A>G	uc002wja.2	-	5	1155	c.1155T>C	c.(1153-1155)ACT>ACC	p.T385T	SIGLEC1_uc002wiz.3_Silent_p.T385T|SIGLEC1_uc002wjc.2_Silent_p.T296T	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	385	Extracellular (Potential).|Ig-like C2-type 3.				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						AGTAGAAGCCAGTATCAGCCC	0.607													14	56					0	0	0.00245	0	0		G	3683917	G	G	3683917	2	3	45	1	0	0	0	0	0	0	0	1	14330	175	7	3		3	SIGLEC1	20	3683917	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08		3683917	59341603	1091	35470											
C20orf196	149840	broad.mit.edu	37	chr20	5843700	5843700	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaaatatagaacaaaataActcctggaccgctgagaact	17	9	6	9	1	0	2	0	1	0	2	1	4	1	3	2	1	3	1	2	1	9	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:5843700A>C	uc002wmf.2	+	3	296	c.209A>C	c.(208-210)AAC>ACC	p.N70T		NM_152504	NP_689717	Q8IYI0	CT196_HUMAN	hypothetical protein LOC149840	70											0						GAACAAAATAACTCCTGGACC	0.423													11	63					0	0	0.010729	0	0		C	5843700	C	C	5843700	3	2	45	1	0	0	0	0	1	0	0	0	2104	43	2	5	215	5	C20orf196	20	5843700	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	2159783	5843700	57181820	1092	35471											
BMP2	650	broad.mit.edu	37	chr20	6759223	6759223	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacacgccaaccatggattCgtggtggaagtggcccactt	9	8	13	11	2	0	0	0	0	0	0	1	3	0	3	3	5	1	0	3	5	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:6759223C>T	uc002wmu.1	+	3	1463	c.678C>T	c.(676-678)TTC>TTT	p.F226F		NM_001200	NP_001191	P12643	BMP2_HUMAN	bone morphogenetic protein 2 preproprotein	226					BMP signaling pathway involved in heart induction|bone mineralization involved in bone maturation|cardiac cell differentiation|cardiac epithelial to mesenchymal transition|cartilage development|growth|negative regulation of cell cycle|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|pathway-restricted SMAD protein phosphorylation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cartilage development|positive regulation of endothelial cell proliferation|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of phosphatase activity|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	activin receptor activity, type II|BMP receptor binding|cytokine activity|growth factor activity|phosphatase activator activity|protein heterodimerization activity|SMAD binding|transforming growth factor beta receptor binding			ovary(1)|breast(1)	2					Simvastatin(DB00641)	ACCATGGATTCGTGGTGGAAG	0.522													7	26					0	0	0.001984	0	0		T	6759223	T	T	6759223	2	4	45	1	0	0	0	0	0	0	0	1	1460	883	31	1		1	BMP2	20	6759223	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	915523	6759223	56266297	1093	35472											
SLC24A3	57419	broad.mit.edu	37	chr20	19662610	19662610	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgacagcagcaactgcgaCgcaactgtggtgctacttaa	12	8	11	10	2	0	1	0	1	0	0	0	3	0	1	0	1	7	4	0	1	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:19662610C>T	uc002wrl.2	+	10	1073	c.876C>T	c.(874-876)GAC>GAT	p.D292D		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	292	Cytoplasmic (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						GCAACTGCGACGCAACTGTGG	0.333													4	127					0	0	0.000602	0	0		T	19662610	T	T	19662610	2	4	45	1	0	0	0	0	0	0	0	1	14492	535	19	1		1	SLC24A3	20	19662610	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	12903387	19662610	43362910	1094	35473											
C20orf26	26074	broad.mit.edu	37	chr20	20258008	20258008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcactatgtaccgggatgCgatcctggcccagtggaatg	9	9	13	10	2	1	0	1	0	0	0	2	3	2	2	3	3	2	1	3	3	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:20258008C>T	uc002wru.2	+	22	2778	c.2702C>T	c.(2701-2703)GCG>GTG	p.A901V	C20orf26_uc010zse.1_Missense_Mutation_p.A881V|C20orf26_uc002wrw.2_RNA	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	901										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TACCGGGATGCGATCCTGGCC	0.632													4	114					0	0	0.009096	0	0		T	20258008	T	T	20258008	3	4	45	1	0	0	0	0	1	0	0	0	2109	768	27	1	2816	1	C20orf26	20	20258008	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	595398	20258008	42767512	1095	35474											
ZNF337	26152	broad.mit.edu	37	chr20	25656021	25656021	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccttccagttgaagcctcGcccacactccttgcatacaa	9	10	5	17	1	0	1	0	1	0	0	4	1	3	1	5	0	3	2	5	0	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:25656021G>A	uc002wva.2	-	4	2425	c.1903C>T	c.(1903-1905)CGA>TGA	p.R635*	uc002wuz.2_RNA|ZNF337_uc010ztg.1_Nonsense_Mutation_p.R603*|ZNF337_uc002wvb.2_Nonsense_Mutation_p.R635*|ZNF337_uc002wvc.2_Nonsense_Mutation_p.R635*	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	635	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTGAAGCCTCGCCCACACTCC	0.502													11	102					0	0	0.001855	0	0		A	25656021	A	A	25656021	4	1	45	1	0	0	0	0	0	1	0	0	17878	1095	38	1	356	1	ZNF337	20	25656021	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5398013	25656021	37369499	1096	35475											
ZNF337	26152	broad.mit.edu	37	chr20	25657112	25657112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgacttactggtatagcctCgtccacacaccttgcacaga	11	10	7	13	1	0	2	0	1	0	1	2	2	1	2	3	1	3	2	3	1	3	4	rs147339647	by1000genomes	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:25657112C>T	uc002wva.2	-	4	1334	c.812G>A	c.(811-813)CGA>CAA	p.R271Q	uc002wuz.2_RNA|ZNF337_uc010ztg.1_Missense_Mutation_p.R239Q|ZNF337_uc002wvb.2_Missense_Mutation_p.R271Q|ZNF337_uc002wvc.2_Missense_Mutation_p.R271Q	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	271	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGTATAGCCTCGTCCACACAC	0.522													51	193					0	0	0.01441	0	0		T	25657112	T	T	25657112	3	4	45	1	0	0	0	0	1	0	0	0	17878	884	31	1	1447	1	ZNF337	20	25657112	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1091	25657112	37368408	1097	35476											
E2F1	1869	broad.mit.edu	37	chr20	32264963	32264963	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgtggtgagggatgagggGggagatgatggtggtggtga	7	10	23	1	0	1	5	0	4	1	1	1	7	1	6	0	8	0	0	0	8	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:32264963G>T	uc002wzu.3	-	6	1154	c.1014C>A	c.(1012-1014)CCC>CCA	p.P338P	NECAB3_uc002wzm.3_5'Flank|NECAB3_uc002wzn.3_5'Flank|NECAB3_uc002wzo.3_5'Flank|NECAB3_uc002wzp.3_5'Flank|NECAB3_uc002wzq.3_5'Flank|NECAB3_uc002wzr.3_5'Flank|NECAB3_uc010geo.2_5'Flank	NM_005225	NP_005216	Q01094	E2F1_HUMAN	E2F transcription factor 1	338	Required for interaction with TRIM28.				apoptosis|cell proliferation|G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|mRNA stabilization|negative regulation of transcription involved in G1/S phase of mitotic cell cycle|positive regulation of fibroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle	mitochondrion|Rb-E2F complex	sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription factor binding				0						GGGATGAGGGGGGAGATGATG	0.622													11	61					1.49906e-05	1.59098e-05	0.00245	1	0		T	32264963	T	T	32264963	2	4	45	1	0	0	0	0	0	0	0	1	4872	1219	43	5		5	E2F1	20	32264963	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	6607851	32264963	30760557	1098	35477											
RALY	22913	broad.mit.edu	37	chr20	32664892	32664892	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcggcggtggtggtggcagCggtggcggtggcagtggtgg	2	7	26	6	4	0	0	0	0	0	0	0	0	0	0	0	12	1	2	0	12	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:32664892C>A	uc002xab.2	+	8	1015	c.717C>A	c.(715-717)AGC>AGA	p.S239R	RALY_uc002xac.2_Missense_Mutation_p.S223R|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Missense_Mutation_p.S239R	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	239	Epitope (recognized by BKRF1 antibodies).|Poly-Gly.					catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1						gtggtggcagcggtggcggtg	0.368													4	16					0.00116845	0.00120542	0.001168	1	0		A	32664892	A	A	32664892	3	1	45	1	0	0	0	0	1	0	0	0	13044	767	27	5	739	5	RALY	20	32664892	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	399929	32664892	30360628	1099	35478											
PPP1R16B	26051	broad.mit.edu	37	chr20	37464809	37464809	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcctcgctgaggaacgacGccgaggaaggtaggcccctc	9	4	15	13	4	0	1	0	1	0	0	2	5	0	3	4	5	1	2	4	5	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:37464809G>A	uc002xje.2	+	2	430	c.241G>A	c.(241-243)GCC>ACC	p.A81T	PPP1R16B_uc010ggc.2_Missense_Mutation_p.A81T	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	81					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GAGGAACGACGCCGAGGAAGG	0.647													7	39					0	0	0.00308	0	0		A	37464809	A	A	37464809	3	1	45	1	0	0	0	0	1	0	0	0	12388	1087	38	1	243	1	PPP1R16B	20	37464809	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4799917	37464809	25560711	1100	35479											
PTPRT	11122	broad.mit.edu	37	chr20	40743943	40743943	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgtcatctggccagtatcGcacacatttcacctgtggcc	7	11	9	14	2	3	0	2	0	1	0	4	0	3	0	3	2	0	2	3	2	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:40743943G>A	uc002xkg.2	-	22	3179	c.2995C>T	c.(2995-2997)CGA>TGA	p.R999*	PTPRT_uc010ggj.2_Nonsense_Mutation_p.R1018*|PTPRT_uc010ggi.2_Nonsense_Mutation_p.R202*	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	999	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GGCCAGTATCGCACACATTTC	0.438													13	60					0	0	0.001855	0	0		A	40743943	A	A	40743943	4	1	45	1	0	0	0	0	0	1	0	0	12837	1095	38	1	1370	1	PTPRT	20	40743943	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3279134	40743943	22281577	1101	35480											
PTPRT	11122	broad.mit.edu	37	chr20	40864897	40864897	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagtaggaataagcatttcTtctatatattgatgggcagt	12	14	11	4	0	2	1	0	1	2	0	2	3	2	3	0	3	1	3	0	3	6	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:40864897T>G	uc002xkg.2	-	15	2498	c.2314A>C	c.(2314-2316)AGA>CGA	p.R772R	PTPRT_uc010ggj.2_Silent_p.R791R	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	772	Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TAAGCATTTCTTCTATATATT	0.373													16	85					0	0	0.007413	0	0		G	40864897	G	G	40864897	2	3	45	1	0	0	0	0	0	0	0	1	12837	1623	56	5		5	PTPRT	20	40864897	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	120954	40864897	22160623	1102	35481											
PTPRT	11122	broad.mit.edu	37	chr20	40980816	40980816	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaataggtggtccctgggTacagacccacaaagaggtgg	12	6	15	8	0	0	2	0	0	0	2	1	3	1	3	2	6	1	1	2	6	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:40980816T>C	uc002xkg.2	-	10	1854	c.1670A>G	c.(1669-1671)TAC>TGC	p.Y557C	PTPRT_uc010ggj.2_Missense_Mutation_p.Y557C	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	557	Extracellular (Potential).|Fibronectin type-III 3.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GGTCCCTGGGTACAGACCCAC	0.562													22	90					0	0	0.014323	0	0		C	40980816	C	C	40980816	3	2	45	1	0	0	0	0	1	0	0	0	12837	1638	57	3	2804	3	PTPRT	20	40980816	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	115919	40980816	22044704	1103	35482											
NEURL2	140825	broad.mit.edu	37	chr20	44519036	44519036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcatgtcggccgtgccatCggggcgcgggcaaaagagga	8	5	18	10	5	0	1	0	0	0	1	2	2	0	2	2	5	2	2	2	5	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:44519036C>T	uc002xqg.1	-	1	866	c.595G>A	c.(595-597)GAT>AAT	p.D199N	C20orf165_uc002xqf.2_5'Flank|CTSA_uc002xqh.2_5'Flank|CTSA_uc002xqj.3_5'Flank|CTSA_uc002xqi.2_5'Flank|CTSA_uc010zxi.1_5'Flank|CTSA_uc002xqk.3_5'Flank	NM_080749	NP_542787	Q9BR09	NEUL2_HUMAN	neuralized-like protein 2	199	NHR.				intracellular signal transduction						0		Myeloproliferative disorder(115;0.0122)				GCCGTGCCATCGGGGCGCGGG	0.672											OREG0025985	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	58					0	0	0.001855	0	0		T	44519036	T	T	44519036	3	4	45	1	0	0	0	0	1	0	0	0	10365	884	31	1	270	1	NEURL2	20	44519036	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3538220	44519036	18506484	1104	35483											
ZNF334	55713	broad.mit.edu	37	chr20	45131154	45131154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgaggcttgtcttcacaCgaaaagttttcctacaatca	12	12	8	9	1	3	1	2	1	1	0	4	3	4	1	1	1	1	2	1	1	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:45131154C>T	uc002xsc.2	-	5	1008	c.824G>A	c.(823-825)CGT>CAT	p.R275H	ZNF334_uc002xsa.2_Missense_Mutation_p.R298H|ZNF334_uc002xsb.2_Missense_Mutation_p.R237H|ZNF334_uc002xsd.2_Missense_Mutation_p.R237H|ZNF334_uc010ghl.2_Missense_Mutation_p.R274H	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	275	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				TGTCTTCACACGAAAAGTTTT	0.413													16	119					0	0	0.008871	0	0		T	45131154	T	T	45131154	3	4	45	1	0	0	0	0	1	0	0	0	17876	536	19	1	1222	1	ZNF334	20	45131154	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	612118	45131154	17894366	1105	35484											
NCOA3	8202	broad.mit.edu	37	chr20	46267789	46267789	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgcagtctattcgtccTccatataaccgagcagtgtc	8	13	8	12	2	2	0	0	0	2	0	6	1	4	0	3	0	3	2	3	0	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:46267789T>A	uc002xtk.2	+	14	2755	c.2550T>A	c.(2548-2550)CCT>CCA	p.P850P	NCOA3_uc010ght.1_Silent_p.P860P|NCOA3_uc002xtl.2_Silent_p.P850P|NCOA3_uc002xtm.2_Silent_p.P850P|NCOA3_uc002xtn.2_Silent_p.P850P|NCOA3_uc010zyc.1_Silent_p.P645P	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	850					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						CTATTCGTCCTCCATATAACC	0.378													7	98					0	0	0.00308	0	0		A	46267789	A	A	46267789	2	1	45	1	0	0	0	0	0	0	0	1	10249	1538	54	5		5	NCOA3	20	46267789	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1136635	46267789	16757731	1106	35485											
ARFGEF2	10564	broad.mit.edu	37	chr20	47591403	47591403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgaatcccaaccaccagaCcagcctcggtgagacagcat	12	6	9	14	1	0	3	0	2	0	2	2	4	1	3	5	1	3	1	5	1	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:47591403C>T	uc002xtx.3	+	13	1918	c.1766C>T	c.(1765-1767)ACC>ATC	p.T589I		NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	589					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			AACCACCAGACCAGCCTCGGT	0.507													4	23					0	0	0.000602	0	0		T	47591403	T	T	47591403	3	4	45	1	0	0	0	0	1	0	0	0	853	507	18	4	1816	4	ARFGEF2	20	47591403	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1323614	47591403	15434117	1107	35486											
MOCS3	27304	broad.mit.edu	37	chr20	49575694	49575694	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtacttggcagcggccggCgtgggccgccttggccttgt	3	9	16	13	4	0	0	0	0	0	0	0	0	0	0	4	5	2	2	4	5	1	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:49575694C>T	uc002xvy.1	+	1	332	c.315C>T	c.(313-315)GGC>GGT	p.G105G	DPM1_uc002xvw.1_5'Flank|DPM1_uc002xvx.1_5'Flank	NM_014484	NP_055299	O95396	MOCS3_HUMAN	molybdenum cofactor synthesis 3	105					enzyme active site formation via L-cysteine persulfide|Mo-molybdopterin cofactor biosynthetic process|tRNA thio-modification|tRNA wobble uridine modification|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|nucleotidyltransferase activity|protein binding|thiosulfate sulfurtransferase activity|URM1 activating enzyme activity			skin(2)|ovary(1)	3						CAGCGGCCGGCGTGGGCCGCC	0.682													21	108					0	0	0.010504	0	0		T	49575694	T	T	49575694	2	4	45	1	0	0	0	0	0	0	0	1	9710	755	27	1		1	MOCS3	20	49575694	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1984291	49575694	13449826	1108	35487											
ZFP64	55734	broad.mit.edu	37	chr20	50705100	50705100	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacttgtgtggcttcacactGgtgtggcaccgcatgtgcat	6	12	12	11	1	1	0	1	0	0	0	1	0	1	0	1	3	1	4	1	3	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:50705100G>T	uc002xwk.2	-	8	1408	c.1059C>A	c.(1057-1059)ACC>ACA	p.T353T	ZFP64_uc002xwj.2_Silent_p.T134T	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GCTTCACACTGGTGTGGCACC	0.547													19	131					5.03518e-11	5.60709e-11	0.007413	1	0		T	50705100	T	T	50705100	2	4	45	1	0	0	0	0	0	0	0	1	17677	1335	47	5		5	ZFP64	20	50705100	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1129406	50705100	12320420	1109	35488											
TSHZ2	128553	broad.mit.edu	37	chr20	51873029	51873029	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaaacatgcggtaaaacTccacctaagcaaaacgcaca	18	4	7	12	2	0	0	0	0	0	0	1	1	1	0	2	1	6	4	2	1	6	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:51873029T>G	uc002xwo.2	+	2	3988	c.3032T>G	c.(3031-3033)CTC>CGC	p.L1011R		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	1011	C2H2-type 5.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GCGGTAAAACTCCACCTAAGC	0.468													28	129					0	0	0.00632	0	0		G	51873029	G	G	51873029	3	3	45	1	0	0	0	0	1	0	0	0	16650	1551	54	5	3038	5	TSHZ2	20	51873029	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1167929	51873029	11152491	1110	35489											
CASS4	57091	broad.mit.edu	37	chr20	55012497	55012497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtgcccactctaccccGccctcccactccaggccccg	5	6	7	23	2	2	0	1	0	1	0	4	0	4	0	8	2	2	0	8	2	1	1	rs142769327		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:55012497G>A	uc002xxp.2	+	3	539	c.314G>A	c.(313-315)CGC>CAC	p.R105H	CASS4_uc002xxq.3_Missense_Mutation_p.R105H|CASS4_uc002xxr.2_Missense_Mutation_p.R105H|CASS4_uc010zze.1_Intron|CASS4_uc010gio.2_Missense_Mutation_p.R105H	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	105					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						ACTCTACCCCGCCCTCCCACT	0.647													5	101					0	0	0.001168	0	0		A	55012497	A	A	55012497	3	1	45	1	0	0	0	0	1	0	0	0	2686	1087	38	1	320	1	CASS4	20	55012497	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3139468	55012497	8013023	1111	35490											
C20orf43	51507	broad.mit.edu	37	chr20	55059247	55059247	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggaagtttgccacacggTgagttcctgacatgtaccat	10	10	11	10	2	0	2	0	2	0	0	1	3	1	3	3	2	3	3	3	2	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:55059247T>C	uc002xxt.2	+	5	584	c.477_splice	c.e5+2	p.T159_splice	C20orf43_uc010zzf.1_Splice_Site_p.T189_splice|C20orf43_uc002xxu.2_Splice_Site_p.T159_splice|C20orf43_uc002xxv.2_Splice_Site_p.T159_splice	NM_016407	NP_057491	Q9BY42	CT043_HUMAN	hypothetical protein LOC51507											ovary(1)	1			Colorectal(105;0.202)			TGCCACACGGTGAGTTCCTGA	0.473													31	149					0	0	0.012213	0	0		C	55059247	C	C	55059247	5	2	45	1	0	0	0	0	0	0	1	0	2115	1710	59	3	497	3	C20orf43	20	55059247	Splice_Site	SNP	T	TCGA-BR-6852-01A-11D-1882-08	46750	55059247	7966273	1112	35491											
PMEPA1	56937	broad.mit.edu	37	chr20	56234599	56234599	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggatggcggggcacttacTgaggacagggcatcttctct	7	10	15	9	1	2	1	0	1	2	0	3	3	2	3	0	6	1	2	0	6	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:56234599T>C	uc002xyq.2	-	2	657	c.264A>G	c.(262-264)TCA>TCG	p.S88S	PMEPA1_uc002xyr.2_Silent_p.S38S|PMEPA1_uc002xys.2_Silent_p.S53S|PMEPA1_uc002xyt.2_Silent_p.S38S	NM_020182	NP_064567	Q969W9	PMEPA_HUMAN	transmembrane prostate androgen-induced protein	88	Cytoplasmic (Potential).				androgen receptor signaling pathway	integral to membrane|plasma membrane	WW domain binding			pancreas(1)	1						GGGCACTTACTGAGGACAGGG	0.577													8	24					0	0	0.004482	0	0		C	56234599	C	C	56234599	2	2	45	1	0	0	0	0	0	0	0	1	12151	1594	55	3		3	PMEPA1	20	56234599	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1175352	56234599	6790921	1113	35492											
CDH26	60437	broad.mit.edu	37	chr20	58562650	58562651	+	Missense_Mutation	DNP	CG	TA	TA																															agaggggcattttgacatttCgactgaccctgagaccaacg																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:58562650_58562651CG>TA	uc002ybe.2	+	8	1280_1281	c.980_981CG>TA	c.(979-981)TCG>TTA	p.S327L	CDH26_uc002ybf.1_5'Flank|CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	327	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			TTTGACATTTCGACTGACCCTG	0.45													5	78					0	0	0.004672	0	0		TA	58562651	TA	TA	58562650	3	4	45	1	0	0	0	0	1	0	0	0	3113	893	31	1	1010	1	CDH26	20	58562650	Missense_Mutation	DNP	CG	TCGA-BR-6852-01A-11D-1882-08	2328051	58562650	4462870	1114	35493											
CDH4	1002	broad.mit.edu	37	chr20	60448911	60448911	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatatgttcaccatcaacagCgagactggagatatcgtcac	14	9	8	10	2	3	2	3	0	0	2	4	4	3	2	1	1	2	1	1	1	4	3	rs148871297	by1000genomes	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:60448911C>T	uc002ybn.1	+	7	1019	c.1005C>T	c.(1003-1005)AGC>AGT	p.S335S	CDH4_uc002ybp.1_Silent_p.S261S	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	335	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			CCATCAACAGCGAGACTGGAG	0.647													25	150					0	0	0.00632	0	0		T	60448911	T	T	60448911	2	4	45	1	0	0	0	0	0	0	0	1	3115	767	27	1		1	CDH4	20	60448911	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1886261	60448911	2576609	1115	35494											
LAMA5	3911	broad.mit.edu	37	chr20	60893940	60893940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcctcagctgctgcctgcGgggcccccaggtcccgggcc	3	5	14	19	2	1	0	1	0	0	0	2	0	2	0	6	4	5	2	6	4	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:60893940G>A	uc002ycq.2	-	52	7068	c.7001C>T	c.(7000-7002)CCG>CTG	p.P2334L		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2334	Domain II and I.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGCTGCCTGCGGGGCCCCCAG	0.687													3	23					0	0	0.009096	0	0		A	60893940	A	A	60893940	3	1	45	1	0	0	0	0	1	0	0	0	8625	1116	39	1	4202	1	LAMA5	20	60893940	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	445029	60893940	2131580	1116	35495											
DIDO1	11083	broad.mit.edu	37	chr20	61512757	61512757	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggagacatcaaggcgtcCgacaccgagaagtgggccat	11	5	15	10	3	1	2	1	0	0	2	2	5	2	2	3	4	0	0	3	4	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:61512757C>A	uc002ydr.1	-	16	4815	c.4551G>T	c.(4549-4551)TCG>TCT	p.S1517S	DIDO1_uc002yds.1_Silent_p.S1517S	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1517					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					TCAAGGCGTCCGACACCGAGA	0.617													25	158					2.79863e-10	3.10664e-10	0.004656	1	0		A	61512757	A	A	61512757	2	1	45	1	0	0	0	0	0	0	0	1	4528	639	23	5		5	DIDO1	20	61512757	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	618817	61512757	1512763	1117	35496											
YTHDF1	54915	broad.mit.edu	37	chr20	61834968	61834968	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttgttccccaggcccccAggctgcccaaaaacagcatc	10	7	8	16	0	0	0	0	0	0	0	2	0	1	0	5	2	3	4	5	2	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:61834968A>G	uc002yeh.2	-	4	618	c.324T>C	c.(322-324)CCT>CCC	p.P108P	YTHDF1_uc011aaq.1_Silent_p.P58P	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	108										ovary(2)	2						CCAGGCCCCCAGGCTGCCCAA	0.532													27	122					0	0	0.008361	0	0		G	61834968	G	G	61834968	2	3	45	1	0	0	0	0	0	0	0	1	17524	175	7	3		3	YTHDF1	20	61834968	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	322211	61834968	1190552	1118	35497											
SLC2A4RG	56731	broad.mit.edu	37	chr20	62373369	62373369	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccactgccccccgaggcagCccactttctgtttggggagc	5	8	11	17	1	1	0	0	0	1	0	1	2	1	1	5	3	3	2	5	3	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:62373369C>T	uc002ygq.2	+	4	594	c.539C>T	c.(538-540)GCC>GTC	p.A180V	SLC2A4RG_uc002ygr.2_Missense_Mutation_p.A75V|SLC2A4RG_uc011abj.1_Missense_Mutation_p.A75V|SLC2A4RG_uc002ygs.2_Intron|SLC2A4RG_uc002ygt.2_5'UTR	NM_020062	NP_064446	Q9NR83	S2A4R_HUMAN	SLC2A4 regulator	180						cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					CCCGAGGCAGCCCACTTTCTG	0.677													4	67					0	0	0.001168	0	0		T	62373369	T	T	62373369	3	4	45	1	0	0	0	0	1	0	0	0	14572	739	26	2	553	2	SLC2A4RG	20	62373369	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	538401	62373369	652151	1119	35498											
ZBTB46	140685	broad.mit.edu	37	chr20	62384092	62384092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaacttcttcccgcagatctCgcaggggtagggccgctctc	6	9	12	14	3	3	1	0	0	3	1	6	2	4	1	2	3	1	4	2	3	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:62384092C>T	uc002ygv.1	-	4	1546	c.1345G>A	c.(1345-1347)GAG>AAG	p.E449K	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	449	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					CCGCAGATCTCGCAGGGGTAG	0.657													3	44					0	0	0.004672	0	0		T	62384092	T	T	62384092	3	4	45	1	0	0	0	0	1	0	0	0	17572	893	31	1	432	1	ZBTB46	20	62384092	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	10723	62384092	641428	1120	35499											
ZNF512B	57473	broad.mit.edu	37	chr20	62592694	62592694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaggatgtggtatttgaCgccactctcagaactgaact	10	12	9	10	1	2	3	2	2	1	1	3	4	2	4	1	2	2	1	1	2	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:62592694C>T	uc002yhl.1	-	16	2449	c.2395G>A	c.(2395-2397)GTC>ATC	p.V799I		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	799	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					TGGTATTTGACGCCACTCTCA	0.647													14	74					0	0	0.00245	0	0		T	62592694	T	T	62592694	3	4	45	1	0	0	0	0	1	0	0	0	17982	536	19	1	291	1	ZNF512B	20	62592694	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	208602	62592694	432826	1121	35500											
ZNF512B	57473	broad.mit.edu	37	chr20	62595228	62595228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcagacggcttccccgcGctcatggatggccctctgcc	4	7	14	16	3	2	1	1	0	1	1	3	2	3	2	4	5	1	3	4	5	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr20:62595228G>A	uc002yhl.1	-	9	1573	c.1519C>T	c.(1519-1521)CGC>TGC	p.R507C		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	507					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					GCTTCCCCGCGCTCATGGATG	0.652													18	128					0	0	0.007413	0	0		A	62595228	A	A	62595228	3	1	45	1	0	0	0	0	1	0	0	0	17982	1087	38	1	1195	1	ZNF512B	20	62595228	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2534	62595228	430292	1122	35501											
LIPI	149998	broad.mit.edu	37	chr21	15579144	15579144	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagagattacctgatctcAggcacacaactagaagccac	17	6	7	11	0	1	3	1	1	1	2	2	4	1	3	2	1	3	1	2	1	6	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr21:15579144A>G	uc002yjm.2	-	1	111	c.101T>C	c.(100-102)CTG>CCG	p.L34P		NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		acctgatctcaggcacacaac	0.239													8	35					0	0	0.00308	0	0		G	15579144	G	G	15579144	3	3	45	1	0	0	0	0	1	0	0	0	8842	188	7	3	1384	3	LIPI	21	15579144	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08		15579144	32550751	1123	35502											
CHODL	140578	broad.mit.edu	37	chr21	19628904	19628904	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaactgtccagccgagtgaGctttcaggaggcacgcctgg	8	8	14	11	2	1	2	1	2	0	0	2	4	2	3	3	3	3	2	3	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr21:19628904G>T	uc002ykv.2	+	2	549	c.158G>T	c.(157-159)AGC>ATC	p.S53I	CHODL_uc002ykr.2_Missense_Mutation_p.S12I|CHODL_uc002yks.2_Missense_Mutation_p.S12I|CHODL_uc002ykt.2_Missense_Mutation_p.S12I|CHODL_uc002yku.2_Missense_Mutation_p.S12I	NM_024944	NP_079220	Q9H9P2	CHODL_HUMAN	chondrolectin precursor	53	Extracellular (Potential).|C-type lectin.				muscle organ development	integral to membrane|perinuclear region of cytoplasm	sugar binding			upper_aerodigestive_tract(1)	1		all_epithelial(11;0.21)		Epithelial(23;0.000191)|all cancers(11;0.000827)|LUSC - Lung squamous cell carcinoma(23;0.00646)|Lung(58;0.0129)|OV - Ovarian serous cystadenocarcinoma(11;0.017)|COAD - Colon adenocarcinoma(22;0.03)|Colorectal(24;0.0917)		AGCCGAGTGAGCTTTCAGGAG	0.473													13	68					1.52009e-12	1.7063e-12	0.003163	1	0		T	19628904	T	T	19628904	3	4	45	1	0	0	0	0	1	0	0	0	3367	971	34	5	164	5	CHODL	21	19628904	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	4049760	19628904	28500991	1124	35503											
KRTAP6-1	337966	broad.mit.edu	37	chr21	31986107	31986107	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtctgcggaagccacaGccacagcaggagccatagcc	11	3	11	16	1	1	0	0	0	1	0	1	2	1	2	5	2	6	1	5	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr21:31986107G>A	uc002yop.2	-	1	117	c.117C>T	c.(115-117)GGC>GGT	p.G39G	KRTAP20-1_uc011ade.1_5'Flank	NM_181602	NP_853633	Q3LI64	KRA61_HUMAN	keratin associated protein 6-1	39						cytosol|intermediate filament					0						GGAAGCCACAGCCACAGCAGG	0.592													5	202					0	0	0.001984	0	0		A	31986107	A	A	31986107	2	1	45	1	0	0	0	0	0	0	0	1	8585	958	34	2		2	KRTAP6-1	21	31986107	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	12357203	31986107	16143788	1125	35504											
TIAM1	7074	broad.mit.edu	37	chr21	32492823	32492823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgtgccatgcgggacgCgtgactatccagggttttcc	6	10	14	11	3	0	1	0	1	0	0	2	3	2	2	3	2	3	2	3	2	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr21:32492823C>T	uc002yow.1	-	29	5111	c.4639G>A	c.(4639-4641)GCG>ACG	p.A1547T	TIAM1_uc011adk.1_3'UTR|TIAM1_uc011adl.1_Missense_Mutation_p.A1487T	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1547					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						ATGCGGGACGCGTGACTATCC	0.602													13	83					0	0	0.001855	0	0		T	32492823	T	T	32492823	3	4	45	1	0	0	0	0	1	0	0	0	15915	768	27	1	140	1	TIAM1	21	32492823	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	506716	32492823	15637072	1126	35505											
TIAM1	7074	broad.mit.edu	37	chr21	32590005	32590005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcactccagtttcaccagtgCgtgctgccacctgaggatgg	7	10	11	13	1	2	1	2	1	0	0	3	2	3	2	4	2	3	2	4	2	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr21:32590005C>T	uc002yow.1	-	10	2478	c.2006G>A	c.(2005-2007)CGC>CAC	p.R669H	TIAM1_uc011adk.1_Missense_Mutation_p.R669H|TIAM1_uc011adl.1_Missense_Mutation_p.R669H|TIAM1_uc002yox.1_Missense_Mutation_p.R277H	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	669					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TTCACCAGTGCGTGCTGCCAC	0.562													7	84					0	0	0.001984	0	0		T	32590005	T	T	32590005	3	4	45	1	0	0	0	0	1	0	0	0	15915	768	27	1	2849	1	TIAM1	21	32590005	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	97182	32590005	15539890	1127	35506											
OLIG2	10215	broad.mit.edu	37	chr21	34399407	34399407	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggcttcaagtcatcctcGtccagcacctcgtcgtctac	7	11	8	15	3	3	0	2	0	1	0	8	0	5	0	3	1	2	2	3	1	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr21:34399407G>A	uc002yqx.1	+	2	395	c.237G>A	c.(235-237)TCG>TCA	p.S79S		NM_005806	NP_005797	Q13516	OLIG2_HUMAN	oligodendrocyte lineage transcription factor 2	79	Poly-Ser.					cytoplasm|nucleus|plasma membrane	DNA binding			central_nervous_system(2)	2						AGTCATCCTCGTCCAGCACCT	0.647			T	TRA@	T-ALL								4	20					0	0	0.009096	0	0		A	34399407	A	A	34399407	2	1	45	1	0	0	0	0	0	0	0	1	10880	1132	40	1		1	OLIG2	21	34399407	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1809402	34399407	13730488	1128	35507											
MX1	4599	broad.mit.edu	37	chr21	42811630	42811630	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcttttctagcccagaatgCcatcgccggggaaggaatgg	9	9	12	11	2	2	1	0	0	2	1	3	3	2	3	3	4	2	0	3	4	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr21:42811630C>T	uc002yzh.2	+	10	1393	c.446C>T	c.(445-447)GCC>GTC	p.A149V	MX1_uc002yzi.2_Missense_Mutation_p.A149V|MX1_uc010goq.2_Missense_Mutation_p.A149V	NM_001144925	NP_001138397	P20591	MX1_HUMAN	myxovirus resistance protein 1	149					induction of apoptosis|response to virus|type I interferon-mediated signaling pathway	cytosol	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(19;3.18e-07)|all_epithelial(19;0.0277)				GCCCAGAATGCCATCGCCGGG	0.478													6	161					0	0	0.001168	0	0		T	42811630	T	T	42811630	3	4	45	1	0	0	0	0	1	0	0	0	10015	739	26	2	460	2	MX1	21	42811630	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	8412223	42811630	5318265	1129	35508											
PRDM15	63977	broad.mit.edu	37	chr21	43274836	43274836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgtcaggttctggtgctcgGcctccgccgctggccgcacc	2	8	13	18	5	2	0	1	0	1	0	4	0	3	0	6	4	1	4	6	4	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr21:43274836G>A	uc002yzq.1	-	12	1586	c.1475C>T	c.(1474-1476)GCC>GTC	p.A492V	PRDM15_uc002yzo.2_Missense_Mutation_p.A163V|PRDM15_uc002yzp.2_Missense_Mutation_p.A163V|PRDM15_uc002yzr.1_Missense_Mutation_p.A163V	NM_022115	NP_071398	P57071	PRD15_HUMAN	PR domain containing 15 isoform 1	492	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTGGTGCTCGGCCTCCGCCGC	0.642													10	51					0	0	0.010729	0	0		A	43274836	A	A	43274836	3	1	45	1	0	0	0	0	1	0	0	0	12478	1203	42	2	3128	2	PRDM15	21	43274836	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	463206	43274836	4855059	1130	35509											
RSPH1	89765	broad.mit.edu	37	chr21	43906550	43906550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatacgccatggccgtgcCgcaggtcatttgcccactct	7	10	10	14	3	2	0	1	0	1	0	2	0	2	0	4	2	3	2	4	2	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr21:43906550C>T	uc002zbg.2	-	4	401	c.296G>A	c.(295-297)CGG>CAG	p.R99Q		NM_080860	NP_543136	Q8WYR4	RSPH1_HUMAN	testis-specific gene A2	99	MORN 4.				meiosis	cytosol|nucleus				ovary(1)	1						ATGGCCGTGCCGCAGGTCATT	0.478													23	142					0	0	0.003954	0	0		T	43906550	T	T	43906550	3	4	45	1	0	0	0	0	1	0	0	0	13727	652	23	1	657	1	RSPH1	21	43906550	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	631714	43906550	4223345	1131	35510											
TRAPPC10	7109	broad.mit.edu	37	chr21	45494326	45494326	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaacattgcccacactgtggGgctatggagctatgccacag	11	8	11	11	0	0	0	0	0	0	0	0	1	0	1	2	3	4	2	2	3	3	3	rs148635981		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr21:45494326G>T	uc002zea.2	+	8	1329	c.1160G>T	c.(1159-1161)GGG>GTG	p.G387V	TRAPPC10_uc010gpo.2_Missense_Mutation_p.G98V	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	387					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						CACACTGTGGGGCTATGGAGC	0.572													16	74					3.52763e-06	3.76675e-06	0.00499	1	0		T	45494326	T	T	45494326	3	4	45	1	0	0	0	0	1	0	0	0	16483	1232	43	5	1190	5	TRAPPC10	21	45494326	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1587776	45494326	2635569	1132	35511											
ITGB2	3689	broad.mit.edu	37	chr21	46320303	46320303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgttgggggtcaggatggCgcccagcttcccgtcgcccg	3	8	16	14	5	1	0	1	0	0	0	4	1	2	1	3	4	1	2	3	4	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr21:46320303C>T	uc002zgd.2	-	6	873	c.829G>A	c.(829-831)GCC>ACC	p.A277T	ITGB2_uc002zge.2_Missense_Mutation_p.A277T|ITGB2_uc002zgf.3_Missense_Mutation_p.A277T|ITGB2_uc011afl.1_Missense_Mutation_p.A199T|ITGB2_uc010gpw.2_Missense_Mutation_p.A220T|ITGB2_uc002zgg.2_Missense_Mutation_p.A277T	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	277	Extracellular (Potential).|VWFA.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	GTCAGGATGGCGCCCAGCTTC	0.627													12	65					0	0	0.013537	0	0		T	46320303	T	T	46320303	3	4	45	1	0	0	0	0	1	0	0	0	7910	768	27	1	1520	1	ITGB2	21	46320303	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	825977	46320303	1809592	1133	35512											
PCNT	5116	broad.mit.edu	37	chr21	47832899	47832899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgcctgagtctggaggacgGcggcaaggtgtggggagggg	6	5	23	7	3	1	1	0	1	1	0	1	4	1	4	1	9	0	1	1	9	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr21:47832899G>A	uc002zji.3	+	29	6250	c.6143G>A	c.(6142-6144)GGC>GAC	p.G2048D	PCNT_uc002zjj.2_Missense_Mutation_p.G1930D	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2048					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					CTGGAGGACGGCGGCAAGGTG	0.657													12	52					0	0	0.010729	0	0		A	47832899	A	A	47832899	3	1	45	1	0	0	0	0	1	0	0	0	11609	1203	42	2	6257	2	PCNT	21	47832899	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1512596	47832899	296996	1134	35513											
ARVCF	421	broad.mit.edu	37	chr22	19967605	19967605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcagggtcccgccagcgcgGctccttgcgggcgctatcca	4	7	13	17	5	1	0	1	0	0	0	4	0	4	0	4	3	2	2	4	3	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:19967605G>A	uc002zqz.2	-	6	1328	c.1057C>T	c.(1057-1059)CCG>TCG	p.P353S	ARVCF_uc002zqy.2_5'Flank|ARVCF_uc002zra.2_3'UTR	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	353	ARM 1.				cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					CGCCAGCGCGGCTCCTTGCGG	0.716													3	11					0	0	0.004672	0	0		A	19967605	A	A	19967605	3	1	45	1	0	0	0	0	1	0	0	0	1004	1203	42	2	1887	2	ARVCF	22	19967605	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08		19967605	31336961	1135	35514											
MED15	51586	broad.mit.edu	37	chr22	20918760	20918760	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctgcagctccagcaggtgGcgctgcagcagcagcagcaa	10	4	14	13	1	0	0	0	0	0	0	1	0	1	0	1	2	9	10	1	2	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:20918760G>T	uc002zsp.2	+	6	555	c.475G>T	c.(475-477)GCG>TCG	p.A159S	MED15_uc002zsn.1_Missense_Mutation_p.A78S|MED15_uc002zso.2_Missense_Mutation_p.A88S|MED15_uc002zsq.2_Missense_Mutation_p.A159S|MED15_uc010gso.2_Missense_Mutation_p.A159S|MED15_uc002zsr.2_Missense_Mutation_p.A133S|MED15_uc011ahs.1_Missense_Mutation_p.A133S|MED15_uc011aht.1_Missense_Mutation_p.A133S|MED15_uc002zss.2_Missense_Mutation_p.A78S|MED15_uc011ahu.1_5'Flank	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	159					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			CCAGCAGGTGGCGCTgcagca	0.323											OREG0026319	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	46					1.58986e-06	1.70804e-06	0.008291	1	0		T	20918760	T	T	20918760	3	4	45	1	0	0	0	0	1	0	0	0	9451	1203	42	5	497	5	MED15	22	20918760	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	951155	20918760	30385806	1136	35515											
AIFM3	150209	broad.mit.edu	37	chr22	21329105	21329105	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccgtcccaagctcagcaaGgtacagggggtggggcaagt	10	5	16	10	1	1	0	1	0	0	0	2	1	2	0	2	5	3	4	2	5	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:21329105G>T	uc002ztj.2	+	8	938	c.720G>T	c.(718-720)AAG>AAT	p.K240N	AIFM3_uc002ztk.2_Missense_Mutation_p.K240N|AIFM3_uc002ztl.2_Missense_Mutation_p.K246N|AIFM3_uc011ahx.1_Missense_Mutation_p.K228N|AIFM3_uc002ztm.1_Missense_Mutation_p.K52N	NM_144704	NP_653305	Q96NN9	AIFM3_HUMAN	apoptosis-inducing factor,	240		FAD (Potential).			activation of caspase activity by cytochrome c|cell redox homeostasis|electron transport chain|induction of apoptosis|mitochondrial depolarization|transport	endoplasmic reticulum|mitochondrial inner membrane	2 iron, 2 sulfur cluster binding|caspase activator activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity|protein binding			ovary(2)|lung(2)	4	all_cancers(11;3.71e-26)|all_epithelial(7;1.59e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0367)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			AGCTCAGCAAGGTACAGGGGG	0.632													10	65					3.07112e-06	3.2868e-06	0.010729	1	0		T	21329105	T	T	21329105	3	4	45	1	0	0	0	0	1	0	0	0	428	1014	35	5	764	5	AIFM3	22	21329105	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	410345	21329105	29975461	1137	35516											
TOP3B	8940	broad.mit.edu	37	chr22	22313552	22313552	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccacagcgtgagaggggCttgcctgtggccgccagggg	5	7	17	12	2	0	1	0	1	0	1	1	2	1	1	4	5	2	1	4	5	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:22313552C>T	uc002zvs.2	-	16	2292	c.1857G>A	c.(1855-1857)AAG>AAA	p.K619K	TOP3B_uc010gtm.1_Silent_p.K164K|TOP3B_uc002zvr.2_Silent_p.K344K|TOP3B_uc010gtl.2_Silent_p.K619K|TOP3B_uc002zvt.3_Silent_p.K619K	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	619					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		GTGAGAGGGGCTTGCCTGTGG	0.507													10	105					0	0	0.010729	0	0		T	22313552	T	T	22313552	2	4	45	1	0	0	0	0	0	0	0	1	16394	796	28	2		2	TOP3B	22	22313552	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	984447	22313552	28991014	1138	35517											
LRP5L	91355	broad.mit.edu	37	chr22	25756037	25756037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccacacctcgtcatccGtccagtagacgtggccctcc	6	8	9	18	3	1	1	1	0	0	1	5	1	4	1	6	2	0	1	6	2	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:25756037G>A	uc003abs.2	-	1	2488	c.23C>T	c.(22-24)ACG>ATG	p.T8M	LRP5L_uc011ajz.1_Missense_Mutation_p.T8M|LRP5L_uc010guw.1_Missense_Mutation_p.T8M	NM_182492	NP_872298	A4QPB2	LRP5L_HUMAN	low density lipoprotein receptor-related protein	8	LDL-receptor class B 1.										0						CTCGTCATCCGTCCAGTAGAC	0.597													10	31					0	0	0.006214	0	0		A	25756037	A	A	25756037	3	1	45	1	0	0	0	0	1	0	0	0	8979	1145	40	1	751	1	LRP5L	22	25756037	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	3442485	25756037	25548529	1139	35518											
MYO18B	84700	broad.mit.edu	37	chr22	26423135	26423135	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatgcgggctgtccagacCttggaaaggagccgcttgtt	8	9	14	10	3	0	1	0	0	0	1	1	4	1	3	3	3	2	3	3	3	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:26423135C>A	uc003abz.1	+	43	7445	c.7195C>A	c.(7195-7197)CTT>ATT	p.L2399I	MYO18B_uc003aca.1_Missense_Mutation_p.L2280I|MYO18B_uc010guy.1_Missense_Mutation_p.L2281I|MYO18B_uc010guz.1_Missense_Mutation_p.L2279I|MYO18B_uc011aka.1_Missense_Mutation_p.L1553I|MYO18B_uc011akb.1_Missense_Mutation_p.L1912I|MYO18B_uc010gva.1_Missense_Mutation_p.L382I|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2399						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CTGTCCAGACCTTGGAAAGGA	0.602													18	79					1.99824e-07	2.16001e-07	0.00499	1	0		A	26423135	A	A	26423135	3	1	45	1	0	0	0	0	1	0	0	0	10084	681	24	5	7361	5	MYO18B	22	26423135	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	667098	26423135	24881431	1140	35519											
CRYBB1	1414	broad.mit.edu	37	chr22	27012154	27012154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggcgctggtaataggcaCggttgttggggccagggtag	6	10	18	7	2	0	0	0	0	0	0	0	0	0	0	1	7	0	6	1	7	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:27012154C>T	uc003acy.1	-	2	200	c.130G>A	c.(130-132)GTG>ATG	p.V44M		NM_001887	NP_001878	P53674	CRBB1_HUMAN	crystallin, beta B1	44	N-terminal arm.				visual perception		structural constituent of eye lens			ovary(1)	1						GTAATAGGCACGGTTGTTGGG	0.647													16	95					0	0	0.004007	0	0		T	27012154	T	T	27012154	3	4	45	1	0	0	0	0	1	0	0	0	3913	536	19	1	648	1	CRYBB1	22	27012154	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	589019	27012154	24292412	1141	35520											
ZNRF3	84133	broad.mit.edu	37	chr22	29444461	29444461	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaccacacctgcccccacTgtcggcacaacatcataggt	11	6	7	17	1	1	0	1	0	0	0	2	0	1	0	4	2	3	2	4	2	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:29444461T>C	uc003aeg.2	+	7	862	c.697T>C	c.(697-699)TGT>CGT	p.C233R	ZNRF3_uc003aeh.1_Missense_Mutation_p.C233R	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	333	RING-type; atypical.|Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						CTGCCCCCACTGTCGGCACAA	0.592													12	75					0	0	0.001855	0	0		C	29444461	C	C	29444461	3	2	45	1	0	0	0	0	1	0	0	0	18238	1580	55	3	719	3	ZNRF3	22	29444461	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2432307	29444461	21860105	1142	35521											
CCDC157	550631	broad.mit.edu	37	chr22	30762081	30762081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtagacgtcttctcccGcgccgggcctgtgcgcttcc	3	10	11	17	6	2	1	0	0	2	1	5	1	3	1	4	1	1	2	4	1	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:30762081G>A	uc011aku.1	+	3	752	c.92G>A	c.(91-93)CGC>CAC	p.R31H	CCDC157_uc011akv.1_Missense_Mutation_p.R31H	NM_001017437	NP_001017437	Q569K6	CC157_HUMAN	coiled-coil domain containing 157	31										central_nervous_system(1)	1						GTCTTCTCCCGCGCCGGGCCT	0.652													18	81					0	0	0.00499	0	0		A	30762081	A	A	30762081	3	1	45	1	0	0	0	0	1	0	0	0	2792	1087	38	1	94	1	CCDC157	22	30762081	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1317620	30762081	20542485	1143	35522											
OSBP2	23762	broad.mit.edu	37	chr22	31285560	31285560	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccaacaagcccaactacagCcttaacctctggagcatcat	13	7	5	16	0	2	0	1	0	1	0	2	1	2	1	4	1	7	1	4	1	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:31285560C>T	uc003aiy.1	+	7	1664	c.1560C>T	c.(1558-1560)AGC>AGT	p.S520S	OSBP2_uc011ala.1_Silent_p.S354S|OSBP2_uc010gwc.1_Silent_p.S347S|OSBP2_uc011alb.1_Intron|OSBP2_uc003aiz.1_Silent_p.S519S|OSBP2_uc003aja.1_Silent_p.S153S|OSBP2_uc011alc.1_Silent_p.S262S|OSBP2_uc003ajb.2_Silent_p.S65S|OSBP2_uc011ald.1_Silent_p.S64S|OSBP2_uc010gwd.1_Silent_p.S65S	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	520					lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						CCAACTACAGCCTTAACCTCT	0.607													10	203					0	0	0.008291	0	0		T	31285560	T	T	31285560	2	4	45	1	0	0	0	0	0	0	0	1	11293	738	26	2		2	OSBP2	22	31285560	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	523479	31285560	20019006	1144	35523											
OSBP2	23762	broad.mit.edu	37	chr22	31302253	31302253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccgctgaccggggagatggCctgtgtgtacaagggcggct	6	8	17	10	3	0	2	0	1	0	1	1	3	1	2	3	5	1	3	3	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:31302253C>T	uc003aiy.1	+	14	2782	c.2678C>T	c.(2677-2679)GCC>GTC	p.A893V	OSBP2_uc011ala.1_Missense_Mutation_p.A727V|OSBP2_uc010gwc.1_Missense_Mutation_p.A720V|OSBP2_uc011alb.1_3'UTR|OSBP2_uc003aiz.1_Missense_Mutation_p.A892V|OSBP2_uc003aja.1_Missense_Mutation_p.A526V|OSBP2_uc011alc.1_Missense_Mutation_p.A636V|OSBP2_uc003ajb.2_Missense_Mutation_p.A438V|OSBP2_uc011ald.1_Missense_Mutation_p.A437V|OSBP2_uc010gwd.1_3'UTR	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	893					lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						GGGGAGATGGCCTGTGTGTAC	0.602													18	110					0	0	0.010504	0	0		T	31302253	T	T	31302253	3	4	45	1	0	0	0	0	1	0	0	0	11293	739	26	2	2732	2	OSBP2	22	31302253	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	16693	31302253	20002313	1145	35524											
SMTN	6525	broad.mit.edu	37	chr22	31495154	31495154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actggtgtcgagccaagactCgcggctacgaggtgagcccc	8	6	14	13	4	0	2	0	1	0	1	2	4	0	2	3	3	3	1	3	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:31495154C>T	uc003ajl.1	+	18	2658	c.2440C>T	c.(2440-2442)CGC>TGC	p.R814C	SMTN_uc003ajk.1_Missense_Mutation_p.R814C|SMTN_uc003ajm.1_Missense_Mutation_p.R814C|SMTN_uc011ale.1_Missense_Mutation_p.R899C|SMTN_uc011alf.1_Missense_Mutation_p.R870C|SMTN_uc003ajn.1_Missense_Mutation_p.R837C|SMTN_uc011alg.1_Missense_Mutation_p.R270C|SMTN_uc003ajo.1_Missense_Mutation_p.R337C|SMTN_uc010gwe.1_Missense_Mutation_p.R194C|SMTN_uc003ajp.1_5'Flank	NM_006932	NP_008863	P53814	SMTN_HUMAN	smoothelin isoform c	814	CH.				muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3						AGCCAAGACTCGCGGCTACGA	0.652													3	30					0	0	0.009096	0	0		T	31495154	T	T	31495154	3	4	45	1	0	0	0	0	1	0	0	0	14839	884	31	1	2506	1	SMTN	22	31495154	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	192901	31495154	19809412	1146	35525											
DEPDC5	9681	broad.mit.edu	37	chr22	32302315	32302315	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagcgggtcggctacaactgGgcctacaacaccatgctcac	10	6	11	14	2	1	0	1	0	0	0	2	1	1	0	2	3	6	2	2	3	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:32302315G>A	uc003als.2	+	42	4693	c.4551G>A	c.(4549-4551)TGG>TGA	p.W1517*	DEPDC5_uc011als.1_Nonsense_Mutation_p.W1448*|DEPDC5_uc011alu.1_Nonsense_Mutation_p.W1548*|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Nonsense_Mutation_p.W1539*|DEPDC5_uc003alu.2_Nonsense_Mutation_p.W966*|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Nonsense_Mutation_p.W815*|DEPDC5_uc011alx.1_Nonsense_Mutation_p.W365*|DEPDC5_uc010gwk.2_Missense_Mutation_p.G553S|DEPDC5_uc011aly.1_Nonsense_Mutation_p.W365*	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1517					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						GCTACAACTGGGCCTACAACA	0.587													5	134					0	0	0.000602	0	0		A	32302315	A	A	32302315	4	1	45	1	0	0	0	0	0	1	0	0	4448	1241	43	4	4801	4	DEPDC5	22	32302315	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	807161	32302315	19002251	1147	35526											
RFPL2	10739	broad.mit.edu	37	chr22	32587176	32587176	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgtccacctcccagcagtgGcggccacaggtaaagcgagg	10	4	13	14	3	0	0	0	0	0	0	2	1	2	0	4	4	2	2	4	4	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:32587176G>A	uc003amg.3	-	5	1656	c.720C>T	c.(718-720)CGC>CGT	p.R240R	RFPL2_uc003ame.3_Silent_p.R179R|RFPL2_uc003amf.3_Silent_p.R150R|RFPL2_uc003amh.3_Silent_p.R150R	NM_001098527	NP_001091997	O75678	RFPL2_HUMAN	ret finger protein-like 2 isoform 2	240	B30.2/SPRY.						zinc ion binding			skin(1)	1						CCCAGCAGTGGCGGCCACAGG	0.592													27	123					0	0	0.007291	0	0		A	32587176	A	A	32587176	2	1	45	1	0	0	0	0	0	0	0	1	13279	1190	42	2		2	RFPL2	22	32587176	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	284861	32587176	18717390	1148	35527											
HMOX1	3162	broad.mit.edu	37	chr22	35783002	35783002	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcccagaaagccctggacCtgcccagctctggcgagggc	7	6	13	15	1	1	1	0	0	1	1	1	3	1	2	4	3	4	1	4	3	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:35783002C>T	uc003ant.1	+	3	549	c.469C>T	c.(469-471)CTG>TTG	p.L157L		NM_002133	NP_002124	P09601	HMOX1_HUMAN	heme oxygenase (decyclizing) 1	157					angiogenesis|anti-apoptosis|cell death|cellular iron ion homeostasis|endothelial cell proliferation|erythrocyte homeostasis|heme catabolic process|heme oxidation|intracellular protein kinase cascade|low-density lipoprotein particle clearance|negative regulation of leukocyte migration|negative regulation of smooth muscle cell proliferation|positive regulation of chemokine biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of smooth muscle cell proliferation|protein homooligomerization|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hydrogen peroxide|response to nicotine|smooth muscle hyperplasia|transmembrane transport|wound healing involved in inflammatory response	endoplasmic reticulum membrane|extracellular space|microsome	enzyme binding|heme binding|heme oxygenase (decyclizing) activity|protein homodimerization activity|signal transducer activity			ovary(1)	1					NADH(DB00157)	AGCCCTGGACCTGCCCAGCTC	0.627													6	78					0	0	0.001168	0	0		T	35783002	T	T	35783002	2	4	45	1	0	0	0	0	0	0	0	1	7259	680	24	4		4	HMOX1	22	35783002	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3195826	35783002	15521564	1149	35528											
CYTH4	27128	broad.mit.edu	37	chr22	37693679	37693679	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacggttcctgtataaaggCgagggcctcaacaagacagc	12	6	12	11	2	1	1	1	0	0	1	2	2	2	1	2	3	2	3	2	3	5	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:37693679C>T	uc003arf.2	+	5	425	c.309C>T	c.(307-309)GGC>GGT	p.G103G	CYTH4_uc003ard.3_Silent_p.G103G|CYTH4_uc003are.2_Silent_p.G103G|CYTH4_uc011amw.1_Silent_p.G46G|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	103	SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						TGTATAAAGGCGAGGGCCTCA	0.542													22	85					0	0	0.014323	0	0		T	37693679	T	T	37693679	2	4	45	1	0	0	0	0	0	0	0	1	4209	755	27	1		1	CYTH4	22	37693679	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1910677	37693679	13610887	1150	35529											
LGALS2	3957	broad.mit.edu	37	chr22	37966699	37966699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgaagcgagggttgaaatGcaggttcagcttgtctgtcc	8	11	14	8	1	2	2	1	2	1	0	3	3	3	2	1	2	3	5	1	2	2	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:37966699G>A	uc003ata.2	-	3	245	c.133C>T	c.(133-135)CAT>TAT	p.H45Y		NM_006498	NP_006489	P05162	LEG2_HUMAN	lectin, galactoside-binding, soluble, 2	45	Galectin.									breast(1)|skin(1)	2	Melanoma(58;0.0574)					GGGTTGAAATGCAGGTTCAGC	0.542													34	116					0	0	0.010818	0	0		A	37966699	A	A	37966699	3	1	45	1	0	0	0	0	1	0	0	0	8758	1319	46	2	273	2	LGALS2	22	37966699	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	273020	37966699	13337867	1151	35530											
PDXP	57026	broad.mit.edu	37	chr22	38055298	38055298	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcacctgcgcgaccccgAgtgcctactcgtggccaccg	5	5	12	19	7	0	0	0	0	0	0	1	2	0	0	6	1	3	1	6	1	1	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:38055298A>C	uc003atm.1	+	1	562	c.509A>C	c.(508-510)GAG>GCG	p.E170A	SH3BP1_uc003atj.1_Intron|uc003atl.1_5'Flank	NM_020315	NP_064711	Q96GD0	PLPP_HUMAN	pyridoxal phosphatase	170					actin rod assembly|cellular response to ATP|positive regulation of actin filament depolymerization|protein dephosphorylation|regulation of cytokinesis|regulation of mitosis	cytosol	heat shock protein binding|metal ion binding|phosphoprotein phosphatase activity|pyridoxal phosphatase activity			ovary(2)	2	Melanoma(58;0.0574)				Pyridoxal(DB00147)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)	CGCGACCCCGAGTGCCTACTC	0.592													6	44					0	0	0.00308	0	0		C	38055298	C	C	38055298	3	2	45	1	0	0	0	0	1	0	0	0	11717	304	11	5	511	5	PDXP	22	38055298	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	88599	38055298	13249268	1152	35531											
TMEM184B	25829	broad.mit.edu	37	chr22	38620838	38620838	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaccttgtaggtgaaggcGtgccgcagggccagggctgc	7	7	17	10	2	0	2	0	1	0	1	0	2	0	2	3	4	2	3	3	4	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:38620838G>A	uc003avf.1	-	8	1160	c.936C>T	c.(934-936)CAC>CAT	p.H312H	TMEM184B_uc003avg.1_Silent_p.H312H|TMEM184B_uc003avh.1_Silent_p.H246H	NM_012264	NP_036396	Q9Y519	T184B_HUMAN	transmembrane protein 184B	312						integral to membrane					0	Melanoma(58;0.045)					AGGTGAAGGCGTGCCGCAGGG	0.637													9	72					0	0	0.008291	0	0		A	38620838	A	A	38620838	2	1	45	1	0	0	0	0	0	0	0	1	16130	1136	40	1		1	TMEM184B	22	38620838	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	565540	38620838	12683728	1153	35532											
SGSM3	27352	broad.mit.edu	37	chr22	40801671	40801671	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtggccgcctgcctcctgCtgttcctggaggaggaggac	5	8	16	12	1	0	0	0	0	0	0	2	4	2	4	5	6	2	2	5	6	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:40801671C>T	uc003ayu.1	+	8	846	c.637C>T	c.(637-639)CTG>TTG	p.L213L	SGSM3_uc010gyc.1_Silent_p.L213L|SGSM3_uc011aos.1_Silent_p.L146L|SGSM3_uc011aot.1_Silent_p.L150L|SGSM3_uc010gyd.1_Silent_p.L213L	NM_015705	NP_056520	Q96HU1	SGSM3_HUMAN	small G protein signaling modulator 3	213	Rab-GAP TBC.				cell cycle arrest|Rap protein signal transduction	cytoplasm	Rab GTPase activator activity|Rab GTPase binding			ovary(2)	2						CTGCCTCCTGCTGTTCCTGGA	0.502													57	260					0	0	0.01441	0	0		T	40801671	T	T	40801671	2	4	45	1	0	0	0	0	0	0	0	1	14249	796	28	2		2	SGSM3	22	40801671	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2180833	40801671	10502895	1154	35533											
EP300	2033	broad.mit.edu	37	chr22	41533773	41533773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatattactcaggatcttcGaaatcatcttgttcacaaac	14	13	5	9	1	5	1	3	0	2	1	6	3	5	2	0	1	2	1	0	1	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:41533773G>A	uc003azl.3	+	8	2134	c.1739G>A	c.(1738-1740)CGA>CAA	p.R580Q		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	580	KIX.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding	p.R580*(1)		haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CAGGATCTTCGAAATCATCTT	0.433			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				12	64					0	0	0.003163	0	0		A	41533773	A	A	41533773	3	1	45	1	0	0	0	0	1	0	0	0	5156	1058	37	1	1769	1	EP300	22	41533773	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	732102	41533773	9770793	1155	35534											
EP300	2033	broad.mit.edu	37	chr22	41545050	41545050	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttttttcagcctatgggCtatgggcctcgtatgcaaca	7	16	9	9	1	1	0	1	0	0	0	2	0	1	0	2	2	3	3	2	2	4	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:41545050C>T	uc003azl.3	+	13	2645	c.2250C>T	c.(2248-2250)GGC>GGT	p.G750G		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	750					apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						AGCCTATGGGCTATGGGCCTC	0.413			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				23	59					0	0	0.00333	0	0		T	41545050	T	T	41545050	2	4	45	1	0	0	0	0	0	0	0	1	5156	784	28	2		2	EP300	22	41545050	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	11277	41545050	9759516	1156	35535											
SCUBE1	80274	broad.mit.edu	37	chr22	43735227	43735227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgtgccctctgagcactcatCcacgtcgactgaccctgtgg	6	10	10	15	2	2	2	1	2	1	0	4	3	3	2	3	1	2	1	3	1	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:43735227C>T	uc003bdt.1	-	2	191	c.103G>A	c.(103-105)GAT>AAT	p.D35N	SCUBE1_uc003bdu.1_Missense_Mutation_p.D35N	NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	35	EGF-like 1; calcium-binding (Potential).				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				GAGCACTCATCCACGTCGACT	0.597													14	54					0	0	0.00245	0	0		T	43735227	T	T	43735227	3	4	45	1	0	0	0	0	1	0	0	0	13969	855	30	4	2947	4	SCUBE1	22	43735227	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2190177	43735227	7569339	1157	35536											
EFCAB6	64800	broad.mit.edu	37	chr22	43926830	43926830	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtaaaaagatggcgtctcCgcgccggcttctttctagac	9	10	11	11	4	3	2	0	0	3	2	4	3	3	2	2	2	0	2	2	2	4	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:43926830C>T	uc003bdy.1	-	31	4463	c.4248G>A	c.(4246-4248)GCG>GCA	p.A1416A	EFCAB6_uc003bdz.1_Silent_p.A1264A|EFCAB6_uc010gzi.1_Silent_p.A1264A	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1416	Interaction with AR.|Interaction with PARK7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				ATGGCGTCTCCGCGCCGGCTT	0.468													5	67					0	0	0.001168	0	0		T	43926830	T	T	43926830	2	4	45	1	0	0	0	0	0	0	0	1	4945	639	23	1		1	EFCAB6	22	43926830	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	191603	43926830	7377736	1158	35537											
FBLN1	2192	broad.mit.edu	37	chr22	45923855	45923855	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtcaagagccaggagacCggagatttggatgtcggggg	9	8	18	6	2	1	3	1	0	0	3	2	6	1	4	2	5	1	0	2	5	1	1	rs141549958		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:45923855C>T	uc003bgj.1	+	4	597	c.450C>T	c.(448-450)ACC>ACT	p.T150T	FBLN1_uc003bgg.1_Silent_p.T150T|FBLN1_uc003bgh.2_Silent_p.T150T|FBLN1_uc010gzz.2_Silent_p.T188T|FBLN1_uc003bgi.1_Silent_p.T150T	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	150					interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GCCAGGAGACCGGAGATTTGG	0.502													30	119					0	0	0.009535	0	0		T	45923855	T	T	45923855	2	4	45	1	0	0	0	0	0	0	0	1	5712	639	23	1		1	FBLN1	22	45923855	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1997025	45923855	5380711	1159	35538											
TTC38	55020	broad.mit.edu	37	chr22	46679905	46679905	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgtcataactattggcaCtgggctttatatctgattga	9	16	9	7	0	2	2	1	2	1	0	2	2	2	2	0	2	1	3	0	2	4	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chr22:46679905C>A	uc003bhi.2	+	8	847	c.771C>A	c.(769-771)CAC>CAA	p.H257Q	TTC38_uc011aqx.1_Missense_Mutation_p.H199Q	NM_017931	NP_060401	Q5R3I4	TTC38_HUMAN	tetratricopeptide repeat domain 38	257	TPR 3.						binding			ovary(1)	1						ACTATTGGCACTGGGCTTTAT	0.358													7	161					5.18039e-06	5.52312e-06	0.00308	1	0		A	46679905	A	A	46679905	3	1	45	1	0	0	0	0	1	0	0	0	16732	564	20	5	801	5	TTC38	22	46679905	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	756050	46679905	4624661	1160	35539											
PPP2R3B	28227	broad.mit.edu	37	chrX	322220	322220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctcgatcttgctgatgaCggcatccacgttgacggagt	7	11	12	11	4	2	3	0	3	2	0	4	5	3	4	1	2	1	4	1	2	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:322220C>T	uc004cpg.2	-	2	631	c.430G>A	c.(430-432)GTC>ATC	p.V144I	PPP2R3B_uc011mha.1_5'UTR	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	144					cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TTGCTGATGACGGCATCCACG	0.632													5	89					0	0	0.001168	0	0		T	322220	T	T	322220	3	4	45	1	0	0	0	0	1	0	0	0	12411	536	19	1	1345	1	PPP2R3B	23	322220	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08		322220	154948340	1161	35540											
CSF2RA	1438	broad.mit.edu	37	chrX	1413263	1413263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaccgtacgttgcaacaCgacgcactgcctcgtacggt	8	9	10	14	6	1	0	1	0	0	0	2	1	1	0	2	1	5	5	2	1	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:1413263C>T	uc010nct.2	+	9	1011	c.689C>T	c.(688-690)ACG>ATG	p.T230M	CSF2RA_uc011mhb.1_Missense_Mutation_p.T230M|CSF2RA_uc004cpq.2_Intron|CSF2RA_uc004cpn.2_Missense_Mutation_p.T230M|CSF2RA_uc004cpo.2_Missense_Mutation_p.T230M|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Missense_Mutation_p.T97M|CSF2RA_uc004cpp.2_Missense_Mutation_p.T230M|CSF2RA_uc010ncv.2_Missense_Mutation_p.T230M|CSF2RA_uc004cpr.2_Missense_Mutation_p.T230M	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	230	Extracellular (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CGTTGCAACACGACGCACTGC	0.572													44	184					0	0	0.013114	0	0		T	1413263	T	T	1413263	3	4	45	1	0	0	0	0	1	0	0	0	3937	536	19	1	711	1	CSF2RA	23	1413263	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1091043	1413263	153857297	1162	35541											
MXRA5	25878	broad.mit.edu	37	chrX	3228137	3228137	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ataggtacccctgtcaaacaCcgaggcctcacgaaccgtga	12	6	9	14	3	2	1	2	1	0	0	2	3	2	1	5	2	3	1	5	2	4	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:3228137C>T	uc004crg.3	-	7	8264	c.8107G>A	c.(8107-8109)GTG>ATG	p.V2703M		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2703	Ig-like C2-type 11.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				CTGTCAAACACCGAGGCCTCA	0.602													11	68					0	0	0.001855	0	0		T	3228137	T	T	3228137	3	4	45	1	0	0	0	0	1	0	0	0	10021	507	18	4	383	4	MXRA5	23	3228137	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1814874	3228137	152042423	1163	35542											
MXRA5	25878	broad.mit.edu	37	chrX	3242753	3242753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcaccatgttcccgtgctCgtcggtcatattcaaagaga	9	12	9	11	3	3	1	3	0	0	1	6	2	4	1	2	1	1	3	2	1	2	4	rs148104868		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:3242753C>T	uc004crg.3	-	5	1130	c.973G>A	c.(973-975)GAG>AAG	p.E325K		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	325						extracellular region		p.E325D(1)		ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TTCCCGTGCTCGTCGGTCATA	0.468													13	62					0	0	0.00245	0	0		T	3242753	T	T	3242753	3	4	45	1	0	0	0	0	1	0	0	0	10021	893	31	1	7525	1	MXRA5	23	3242753	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	14616	3242753	152027807	1164	35543											
NLGN4X	57502	broad.mit.edu	37	chrX	6069136	6069136	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcggtaaaccagatgggCagcatgtcatgcagtaagga	12	8	14	7	1	1	1	1	0	0	1	1	2	1	2	1	4	3	5	1	4	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:6069136C>A	uc010ndh.2	-	2	873	c.372G>T	c.(370-372)CTG>CTT	p.L124L	NLGN4X_uc004crp.2_Silent_p.L124L|NLGN4X_uc004crq.2_Silent_p.L124L|NLGN4X_uc010ndi.2_Silent_p.L124L|NLGN4X_uc004crr.2_Silent_p.L124L|NLGN4X_uc010ndj.2_Silent_p.L124L	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	124	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						ACCAGATGGGCAGCATGTCAT	0.488													34	112					2.42023e-17	2.76092e-17	0.003271	1	0		A	6069136	A	A	6069136	2	1	45	1	0	0	0	0	0	0	0	1	10483	697	25	5		5	NLGN4X	23	6069136	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2826383	6069136	149201424	1165	35544											
KAL1	3730	broad.mit.edu	37	chrX	8522076	8522076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttccagcgggcgagtgggtCgtcgtctttgaaaagggagt	7	10	16	8	4	1	1	0	1	1	0	4	3	2	2	1	3	1	0	1	3	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:8522076C>T	uc004csf.2	-	9	1421	c.1271G>A	c.(1270-1272)CGA>CAA	p.R424Q		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	424					axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						GCGAGTGGGTCGTCGTCTTTG	0.413													8	43					0	0	0.006214	0	0		T	8522076	T	T	8522076	3	4	45	1	0	0	0	0	1	0	0	0	7990	884	31	1	795	1	KAL1	23	8522076	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	2452940	8522076	146748484	1166	35545											
BEND2	139105	broad.mit.edu	37	chrX	18189251	18189251	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatctagccgacaggcttgcGcaagacttagtttttgccaa	10	12	9	10	2	1	1	0	0	1	1	1	2	1	1	2	1	3	3	2	1	5	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:18189251G>A	uc004cyj.3	-	13	2209	c.2055C>T	c.(2053-2055)TGC>TGT	p.C685C	BEND2_uc010nfb.2_Silent_p.C594C	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	685	BEN 2.									ovary(3)|kidney(1)|central_nervous_system(1)	5						ACAGGCTTGCGCAAGACTTAG	0.428													24	134					0	0	0.00278	0	0		A	18189251	A	A	18189251	2	1	45	1	0	0	0	0	0	0	0	1	1399	1079	38	1		1	BEND2	23	18189251	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	9667175	18189251	137081309	1167	35546											
KLHL34	257240	broad.mit.edu	37	chrX	21674964	21674964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caactcttcctcttcttcctCgggctctggggcggcgacct	3	12	10	16	3	4	0	0	0	4	0	7	1	6	0	3	4	1	1	3	4	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:21674964C>T	uc004czz.1	-	1	1485	c.943G>A	c.(943-945)GAG>AAG	p.E315K		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	315	Glu-rich.									ovary(1)	1						tcttcttcctcGGGCTCTGGG	0.532													4	21					0	0	0.000602	0	0		T	21674964	T	T	21674964	3	4	45	1	0	0	0	0	1	0	0	0	8403	893	31	1	995	1	KLHL34	23	21674964	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3485713	21674964	133595596	1168	35547											
ZNF645	158506	broad.mit.edu	37	chrX	22291233	22291233	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaccgttggggggacattaAgataaacatcataggtgaaa	15	10	11	5	1	1	2	1	1	0	1	1	3	1	3	1	4	2	1	1	4	6	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:22291233A>G	uc004dai.1	+	1	174	c.125A>G	c.(124-126)AAG>AGG	p.K42R		NM_152577	NP_689790	Q8N7E2	ZN645_HUMAN	zinc finger protein 645	42						intracellular	zinc ion binding			lung(1)|pancreas(1)	2						GGGGACATTAAGATAAACATC	0.348													4	94					0	0	0.009096	0	0		G	22291233	G	G	22291233	3	3	45	1	0	0	0	0	1	0	0	0	18086	72	3	3	127	3	ZNF645	23	22291233	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	616269	22291233	132979327	1169	35548											
DDX3X	1654	broad.mit.edu	37	chrX	41203054	41203054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttattcagatggtccaggCgaggctttgagggccatgaa	10	11	13	7	1	1	3	1	2	0	1	2	4	2	3	2	4	0	1	2	4	2	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:41203054C>T	uc004dfe.2	+	8	1599	c.744C>T	c.(742-744)GGC>GGT	p.G248G	DDX3X_uc010nhf.1_Silent_p.G232G|DDX3X_uc004dff.2_Silent_p.G248G|DDX3X_uc011mkq.1_Silent_p.G232G|DDX3X_uc011mkr.1_Silent_p.G248G|DDX3X_uc011mks.1_Intron|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_Intron	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	248	Helicase ATP-binding.				interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						ATGGTCCAGGCGAGGCTTTGA	0.408										HNSCC(61;0.18)			9	69					0	0	0.008291	0	0		T	41203054	T	T	41203054	2	4	45	1	0	0	0	0	0	0	0	1	4361	755	27	1		1	DDX3X	23	41203054	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	18911821	41203054	114067506	1170	35549											
ZNF81	347344	broad.mit.edu	37	chrX	47775480	47775480	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagtgactgtgggaaatctTtcccttctaagtcacaactc	10	12	8	11	0	3	1	1	1	2	0	5	2	4	2	1	1	1	1	1	1	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:47775480T>C	uc010nhy.1	+	6	1803	c.1435T>C	c.(1435-1437)TTC>CTC	p.F479L		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	479	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				TGGGAAATCTTTCCCTTCTAA	0.433													3	60					0	0	0.004672	0	0		C	47775480	C	C	47775480	3	2	45	1	0	0	0	0	1	0	0	0	18199	1841	64	3	1449	3	ZNF81	23	47775480	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	6572426	47775480	107495080	1171	35550											
OTUD5	55593	broad.mit.edu	37	chrX	48781133	48781133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcaagtcactgacctggcGcacagggcgaaggaggtttg	9	6	17	9	2	1	1	1	1	0	0	1	3	1	2	1	5	0	3	1	5	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:48781133G>A	uc004dlu.2	-	7	1536	c.1475C>T	c.(1474-1476)GCG>GTG	p.A492V	OTUD5_uc004dlt.3_Missense_Mutation_p.A487V|OTUD5_uc004dlv.2_Missense_Mutation_p.A487V|OTUD5_uc011mmp.1_Missense_Mutation_p.A270V	NM_017602	NP_060072	Q96G74	OTUD5_HUMAN	OTU domain containing 5 isoform a	492					negative regulation of type I interferon production		cysteine-type peptidase activity			pancreas(1)	1						CTGACCTGGCGCACAGGGCGA	0.493													3	37					0	0	0.009096	0	0		A	48781133	A	A	48781133	3	1	45	1	0	0	0	0	1	0	0	0	11334	1087	38	1	252	1	OTUD5	23	48781133	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	1005653	48781133	106489427	1172	35551											
TFE3	7030	broad.mit.edu	37	chrX	48887806	48887806	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacagtcctcccaccacccCctcctcctcctccatcagaa	8	7	3	23	1	1	1	1	0	0	1	7	2	7	1	9	0	0	0	9	0	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:48887806C>G	uc004dmb.3	-	10	1829	c.1591G>C	c.(1591-1593)GGG>CGG	p.G531R	TFE3_uc004dmc.3_Missense_Mutation_p.G426R	NM_006521	NP_006512	P19532	TFE3_HUMAN	transcription factor E3	531					humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding		ASPSCR1/TFE3(161)|PRCC/TFE3(25)|SFPQ/TFE3(6)|NONO/TFE3(2)|CLTC/TFE3(2)	soft_tissue(120)|kidney(76)|central_nervous_system(1)	197						CCCACCACCCCCTCCTCCTCC	0.662			T	SFPQ|ASPSCR1|PRCC|NONO|CLTC	papillary renal|alveolar soft part sarcoma|renal								16	73					0	0	0.006122	0	0		G	48887806	G	G	48887806	3	3	45	1	0	0	0	0	1	0	0	0	15825	623	22	5	140	5	TFE3	23	48887806	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	106673	48887806	106382754	1173	35552											
PPP1R3F	89801	broad.mit.edu	37	chrX	49127204	49127204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctccggatcgcacccgctcCcacacccactgatgccgaag	8	5	9	19	4	0	1	0	1	0	0	3	3	2	2	5	1	1	3	5	1	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:49127204C>T	uc004dnh.1	+	1	888	c.872C>T	c.(871-873)CCC>CTC	p.P291L	PPP1R3F_uc011mnd.1_5'UTR|PPP1R3F_uc004dni.2_Intron	NM_033215	NP_149992	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory (inhibitor)	291	Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	Ovarian(276;0.236)					GCACCCGCTCCCACACCCACT	0.677													4	11					0	0	0.009096	0	0		T	49127204	T	T	49127204	3	4	45	1	0	0	0	0	1	0	0	0	12397	623	22	4	874	4	PPP1R3F	23	49127204	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	239398	49127204	106143356	1174	35553											
HUWE1	10075	broad.mit.edu	37	chrX	53574996	53574996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtggagaggcctcgaggCtgtatggagaggtttccccc	7	8	15	11	1	0	2	0	0	0	2	2	5	1	2	4	5	0	3	4	5	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:53574996C>T	uc004dsp.2	-	68	10676	c.10274G>A	c.(10273-10275)AGC>AAC	p.S3425N	HUWE1_uc004dsn.2_Missense_Mutation_p.S2233N	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3425					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GGCCTCGAGGCTGTATGGAGA	0.542													5	27					0	0	0.000602	0	0		T	53574996	T	T	53574996	3	4	45	1	0	0	0	0	1	0	0	0	7477	797	28	2	2918	2	HUWE1	23	53574996	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	4447792	53574996	101695564	1175	35554											
FAM120C	54954	broad.mit.edu	37	chrX	54107839	54107839	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgccagcccactggcccAcaaccatcccagcaatctcc	9	6	6	20	0	1	0	0	0	1	0	3	0	2	0	6	1	5	2	6	1	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:54107839A>G	uc004dsz.3	-	14	2977	c.2894T>C	c.(2893-2895)GTG>GCG	p.V965A	FAM120C_uc011moh.1_Missense_Mutation_p.W828R	NM_017848	NP_060318	Q9NX05	F120C_HUMAN	hypothetical protein LOC54954	965										ovary(1)|central_nervous_system(1)	2						CCACTGGCCCACAACCATCCC	0.507													15	85					0	0	0.00245	0	0		G	54107839	G	G	54107839	3	3	45	1	0	0	0	0	1	0	0	0	5429	159	6	3	408	3	FAM120C	23	54107839	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	532843	54107839	101162721	1176	35555											
TSR2	90121	broad.mit.edu	37	chrX	54470537	54470537	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcactcagagaaaatgcAaggtcacagccactgcactt	14	7	8	12	0	3	1	3	0	0	1	3	2	3	1	1	1	3	3	1	1	3	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:54470537A>T	uc004dte.2	+	4	363	c.361A>T	c.(361-363)AAG>TAG	p.K121*	TSR2_uc004dtf.2_Nonsense_Mutation_p.K26*	NM_058163	NP_477511	Q969E8	TSR2_HUMAN	TSR2, 20S rRNA accumulation, homolog	121					rRNA processing		protein binding				0						GAGAAAATGCAAGGTCACAGC	0.547													20	129					0	0	0.007413	0	0		T	54470537	T	T	54470537	4	4	45	1	0	0	0	0	0	1	0	0	16691	131	5	5	375	5	TSR2	23	54470537	Nonsense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	362698	54470537	100800023	1177	35556											
ITIH5L	347365	broad.mit.edu	37	chrX	54815025	54815025	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatgtcgggcagtaggtgAttcggacacaggtctctccc	8	9	13	11	2	1	1	0	1	1	0	5	2	2	2	1	4	0	3	1	4	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:54815025A>T	uc004dtj.2	-	5	704	c.674T>A	c.(673-675)ATC>AAC	p.I225N		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	225					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						GCAGTAGGTGATTCGGACACA	0.572													18	49					0	0	0.007413	0	0		T	54815025	T	T	54815025	3	4	45	1	0	0	0	0	1	0	0	0	7924	333	12	5	3303	5	ITIH5L	23	54815025	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	344488	54815025	100455535	1178	35557											
ALAS2	212	broad.mit.edu	37	chrX	55047483	55047483	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgaaagcctactactcActgtgtggcttgcaagacct	9	11	10	11	0	1	2	1	1	0	1	1	2	1	2	2	2	4	3	2	2	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:55047483A>G	uc004dua.3	-	5	776	c.638_splice	c.e5+1	p.Q213_splice	ALAS2_uc004dub.3_Splice_Site_p.Q200_splice|ALAS2_uc004dud.3_Splice_Site_p.Q176_splice	NM_000032	NP_000023	P22557	HEM0_HUMAN	5-aminolevulinate synthase 2 isoform a						cellular iron ion homeostasis|erythrocyte differentiation|heme biosynthetic process|hemoglobin biosynthetic process|oxygen homeostasis|response to hypoxia	mitochondrial inner membrane|mitochondrial matrix	5-aminolevulinate synthase activity|coenzyme binding|glycine binding|protein binding|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(1)	1					Glycine(DB00145)	CCTACTACTCACTGTGTGGCT	0.493													13	51					0	0	0.003163	0	0		G	55047483	G	G	55047483	5	3	45	1	0	0	0	0	0	0	1	0	485	173	6	3	1151	3	ALAS2	23	55047483	Splice_Site	SNP	A	TCGA-BR-6852-01A-11D-1882-08	232458	55047483	100223077	1179	35558											
RRAGB	10325	broad.mit.edu	37	chrX	55757850	55757850	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacgggacaacatcttccGaaatgtggaggttctgattt	11	11	10	9	2	2	1	0	1	2	0	3	4	3	3	2	3	2	1	2	3	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:55757850G>T	uc004dup.2	+	6	1082	c.431G>T	c.(430-432)CGA>CTA	p.R144L	RRAGB_uc004duq.2_Missense_Mutation_p.R116L	NM_016656	NP_057740	Q5VZM2	RRAGB_HUMAN	Ras-related GTP binding B long isoform	144					cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade|signal transduction	Golgi apparatus|lysosome|nucleus	GTP binding|protein binding				0						AACATCTTCCGAAATGTGGAG	0.398													3	31					6.4e-05	6.72772e-05	0.004672	1	0		T	55757850	T	T	55757850	3	4	45	1	0	0	0	0	1	0	0	0	13698	1058	37	5	453	5	RRAGB	23	55757850	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	710367	55757850	99512710	1180	35559											
ZXDA	7789	broad.mit.edu	37	chrX	57936033	57936033	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttggcgaaggtttgcccGcacagcgcctcggggcacag	6	8	14	13	4	1	0	0	0	1	0	2	1	1	0	2	4	2	3	2	4	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:57936033G>A	uc004dve.2	-	1	1035	c.822C>T	c.(820-822)TGC>TGT	p.C274C		NM_007156	NP_009087	P98168	ZXDA_HUMAN	zinc finger, X-linked, duplicated A	274	C2H2-type 1.|Required for interaction with ZXDC.				positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						AGGTTTGCCCGCACAGCGCCT	0.706													7	27					0	0	0.006214	0	0		A	57936033	A	A	57936033	2	1	45	1	0	0	0	0	0	0	0	1	18275	1079	38	1		1	ZXDA	23	57936033	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2178183	57936033	97334527	1181	35560											
MTMR8	55613	broad.mit.edu	37	chrX	63579408	63579408	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaatttcacgttttctacCtgttattggaggaaaaaata	14	14	6	7	1	2	0	1	0	1	0	2	2	2	2	2	2	1	2	2	2	7	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:63579408C>G	uc004dvs.2	-	2	93	c.25_splice	c.e2-1	p.V9_splice	MTMR8_uc011mou.1_Splice_Site_p.V9_splice|MTMR8_uc004dvt.1_Splice_Site_p.V9_splice	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8							nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						CGTTTTCTACCTGTTATTGGA	0.393													11	61					0	0	0.013537	0	0		G	63579408	G	G	63579408	5	3	45	1	0	0	0	0	0	0	1	0	9967	695	24	5	2142	5	MTMR8	23	63579408	Splice_Site	SNP	C	TCGA-BR-6852-01A-11D-1882-08	5643375	63579408	91691152	1182	35561											
AR	367	broad.mit.edu	37	chrX	66765161	66765161	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccagtttgctgctgctgcAgcagcagcagcagcagcagc	8	6	13	14	1	0	0	0	0	0	0	0	0	0	0	1	0	11	11	1	0	0	1	rs5902610		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:66765161A>T	uc004dwu.1	+	1	1288	c.173A>T	c.(172-174)CAG>CTG	p.Q58L	AR_uc011mpd.1_Missense_Mutation_p.Q58L|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.Q58L	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	58	Modulating.|Poly-Gln.|Gln-rich.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	CTGCTGCTgcagcagcagcag	0.328									Androgen_Insensitivity_Syndrome				5	30					0	0	0.000602	0	0		T	66765161	T	T	66765161	3	4	45	1	0	0	0	0	1	0	0	0	836	188	7	5	175	5	AR	23	66765161	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	3185753	66765161	88505399	1183	35562											
AR	367	broad.mit.edu	37	chrX	66943587	66943587	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaagtcacacatggtgagCgtggactttccggaaatgat	12	10	11	8	2	2	2	2	2	0	0	3	4	3	4	1	3	1	0	1	3	2	1	rs137852594		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:66943587C>T	uc004dwu.1	+	8	3782	c.2667C>T	c.(2665-2667)AGC>AGT	p.S889S	AR_uc004dwv.1_Silent_p.S357S	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	888	Ligand-binding.|Interaction with MYST2.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	ACATGGTGAGCGTGGACTTTC	0.473									Androgen_Insensitivity_Syndrome				5	230					0	0	0.000602	0	0		T	66943587	T	T	66943587	2	4	45	1	0	0	0	0	0	0	0	1	836	767	27	1		1	AR	23	66943587	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	178426	66943587	88326973	1184	35563											
OPHN1	4983	broad.mit.edu	37	chrX	67430049	67430049	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgtcctggaagtttgcAtgtctggggagcttctttca	5	15	13	8	0	3	0	1	0	2	0	4	2	4	2	1	4	2	4	1	4	1	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:67430049A>G	uc004dww.3	-	9	1072	c.778T>C	c.(778-780)TGC>CGC	p.C260R	OPHN1_uc011mpg.1_Missense_Mutation_p.C260R|OPHN1_uc004dwx.2_Missense_Mutation_p.C260R	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	260					axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						GGAAGTTTGCATGTCTGGGGA	0.403													25	91					0	0	0.00333	0	0		G	67430049	G	G	67430049	3	3	45	1	0	0	0	0	1	0	0	0	10894	217	8	3	1694	3	OPHN1	23	67430049	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	486462	67430049	87840511	1185	35564											
IGBP1	3476	broad.mit.edu	37	chrX	69354476	69354476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaagtcaaccccagcaagCgtctagatcatttgcagcgg	13	7	9	12	2	3	1	2	0	1	1	3	1	3	1	2	1	6	2	2	1	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:69354476C>T	uc004dxv.2	+	2	791	c.292C>T	c.(292-294)CGT>TGT	p.R98C	IGBP1_uc004dxw.2_Missense_Mutation_p.R98C	NM_001551	NP_001542	P78318	IGBP1_HUMAN	immunoglobulin binding protein 1	98					B cell activation|negative regulation of caspase activity|negative regulation of stress-activated MAPK cascade|negative regulation of transcription from RNA polymerase II promoter|regulation of microtubule-based movement|response to interleukin-1|response to tumor necrosis factor|signal transduction	cytoplasm	protein phosphatase type 2A regulator activity			kidney(1)|pancreas(1)	2						CCCCAGCAAGCGTCTAGATCA	0.463													14	90					0	0	0.003163	0	0		T	69354476	T	T	69354476	3	4	45	1	0	0	0	0	1	0	0	0	7583	768	27	1	298	1	IGBP1	23	69354476	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1924427	69354476	85916084	1186	35565											
ZDHHC15	158866	broad.mit.edu	37	chrX	74641702	74641702	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtaatatttactcacctgGaaccaataggtattaaccag	14	12	7	8	0	1	0	1	0	0	0	1	1	1	1	3	3	3	2	3	3	8	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:74641702G>T	uc004ecg.2	-	9	1338	c.860C>A	c.(859-861)TCC>TAC	p.S287Y	ZDHHC15_uc004ech.2_Missense_Mutation_p.S278Y|ZDHHC15_uc011mqo.1_RNA	NM_144969	NP_659406	Q96MV8	ZDH15_HUMAN	zinc finger, DHHC-type containing 15 isoform 1	287						integral to membrane	zinc ion binding			ovary(2)	2						TACTCACCTGGAACCAATAGG	0.418													18	87					1.40151e-16	1.5962e-16	0.010504	1	0		T	74641702	T	T	74641702	3	4	45	1	0	0	0	0	1	0	0	0	17630	1174	41	5	165	5	ZDHHC15	23	74641702	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5287226	74641702	80628858	1187	35566											
ATRX	546	broad.mit.edu	37	chrX	76938509	76938509	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagtatctgaagaagaacTgtgactcatcctgctcacct	12	11	7	11	0	4	4	3	2	1	2	5	4	5	4	2	0	2	2	2	0	4	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:76938509T>C	uc004ecp.3	-	9	2471	c.2239A>G	c.(2239-2241)AGT>GGT	p.S747G	ATRX_uc004ecq.3_Missense_Mutation_p.S709G|ATRX_uc004eco.3_Missense_Mutation_p.S532G|ATRX_uc004ecr.2_Missense_Mutation_p.S679G|ATRX_uc010nlx.1_Missense_Mutation_p.S718G|ATRX_uc010nly.1_Missense_Mutation_p.S692G	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	747	Poly-Ser.				DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	GAAGAAGAACTGTGACTCATC	0.348			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						63	263					0	0	0.01441	0	0		C	76938509	C	C	76938509	3	2	45	1	0	0	0	0	1	0	0	0	1209	1580	55	3	5347	3	ATRX	23	76938509	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	2296807	76938509	78332051	1188	35567											
PCDH19	57526	broad.mit.edu	37	chrX	99551740	99551740	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcagcagtagcttcaatAgacagcgcgatgatgttcct	11	10	10	10	2	2	2	2	1	0	1	3	3	3	2	1	0	4	5	1	0	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:99551740A>G	uc010nmz.2	-	6	4658	c.2982T>C	c.(2980-2982)TCT>TCC	p.S994S	PCDH19_uc004efw.3_Silent_p.S946S|PCDH19_uc004efx.3_Silent_p.S947S	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	994	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						TAGCTTCAATAGACAGCGCGA	0.582													22	96					0	0	0.00333	0	0		G	99551740	G	G	99551740	2	3	45	1	0	0	0	0	0	0	0	1	11533	407	15	3		3	PCDH19	23	99551740	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	22613231	99551740	55718820	1189	35568											
PCDH19	57526	broad.mit.edu	37	chrX	99662844	99662844	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgggtgtgttgggaggcGagttttctggcacgctcacc	5	11	16	9	3	2	1	1	1	1	0	2	3	2	2	1	4	0	4	1	4	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:99662844G>T	uc010nmz.2	-	1	2428	c.752C>A	c.(751-753)TCG>TAG	p.S251*	PCDH19_uc004efw.3_Nonsense_Mutation_p.S251*|PCDH19_uc004efx.3_Nonsense_Mutation_p.S251*	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	251	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						GTTGGGAGGCGAGTTTTCTGG	0.602													28	182					4.87955e-14	5.5126e-14	0.005443	1	0		T	99662844	T	T	99662844	4	4	45	1	0	0	0	0	0	1	0	0	11533	1059	37	5	2718	5	PCDH19	23	99662844	Nonsense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	111104	99662844	55607716	1190	35569											
CSTF2	1478	broad.mit.edu	37	chrX	100078882	100078882	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatcttctcagctctgtgTccagaatagtccccaggagg	8	12	9	12	0	3	1	1	0	3	1	6	2	5	2	3	2	1	1	3	2	3	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:100078882T>C	uc004egh.2	+	5	510	c.452T>C	c.(451-453)GTC>GCC	p.V151A	CSTF2_uc010nnd.2_Missense_Mutation_p.V151A|CSTF2_uc004egi.2_Missense_Mutation_p.V151A	NM_001325	NP_001316	P33240	CSTF2_HUMAN	cleavage stimulation factor subunit 2	151	Interactions with CSTF3 and SYMPK.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cleavage body|mRNA cleavage and polyadenylation specificity factor complex	nucleotide binding|protein binding|protein binding|RNA binding			skin(1)	1						CAGCTCTGTGTCCAGAATAGT	0.428													17	91					0	0	0.006122	0	0		C	100078882	C	C	100078882	3	2	45	1	0	0	0	0	1	0	0	0	3987	1667	58	3	470	3	CSTF2	23	100078882	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	416038	100078882	55191678	1191	35570											
DRP2	1821	broad.mit.edu	37	chrX	100515504	100515504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgatgtggggtcaaagaGccaggatgtcagcctgtgct	10	9	15	7	0	2	3	2	1	0	2	2	4	2	4	2	3	3	1	2	3	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:100515504G>A	uc004egz.2	+	24	3137	c.2768G>A	c.(2767-2769)AGC>AAC	p.S923N	DRP2_uc011mrh.1_Missense_Mutation_p.S845N	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	923					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						GGGTCAAAGAGCCAGGATGTC	0.507													36	155					0	0	0.003755	0	0		A	100515504	A	A	100515504	3	1	45	1	0	0	0	0	1	0	0	0	4770	971	34	2	2854	2	DRP2	23	100515504	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	436622	100515504	54755056	1192	35571											
NXF2B	728343	broad.mit.edu	37	chrX	101623733	101623733	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatctccatttggcctggcTtcaacttattcttcacagag	8	14	7	12	0	4	1	2	0	2	1	5	1	4	1	2	2	1	2	2	2	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:101623733T>G	uc004ejb.3	-	19	2501	c.629A>C	c.(628-630)AAG>ACG	p.K210T	NXF2B_uc004eiz.3_Missense_Mutation_p.K122T|NXF2B_uc004eja.3_Missense_Mutation_p.K210T|NXF2_uc004eiy.3_Missense_Mutation_p.K210T	NM_001099686	NP_001093156	Q9GZY0	NXF2_HUMAN	nuclear RNA export factor 2B	210					mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|RNA binding			ovary(1)	1						TTGGCCTGGCTTCAACTTATT	0.478													6	137					0	0	0.00308	0	0		G	101623733	G	G	101623733	3	3	45	1	0	0	0	0	1	0	0	0	10803	1609	56	5	3280	5	NXF2B	23	101623733	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	1108229	101623733	53646827	1193	35572											
GPRASP2	114928	broad.mit.edu	37	chrX	101969892	101969892	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgagagagagaatgatgTccctctggtggtcagaccca	10	8	13	10	0	2	5	1	2	1	3	3	7	3	5	3	2	0	0	3	2	1	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:101969892T>C	uc004ejk.2	+	4	1429	c.95T>C	c.(94-96)GTC>GCC	p.V32A	GPRASP2_uc004ejl.2_Missense_Mutation_p.V32A|GPRASP2_uc004ejm.2_Missense_Mutation_p.V32A|GPRASP2_uc011mrp.1_5'Flank	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	32						cytoplasm	protein binding			ovary(1)	1						GAGAATGATGTCCCTCTGGTG	0.542													28	154					0	0	0.00632	0	0		C	101969892	C	C	101969892	3	2	45	1	0	0	0	0	1	0	0	0	6739	1667	58	3	97	3	GPRASP2	23	101969892	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	346159	101969892	53300668	1194	35573											
NRK	203447	broad.mit.edu	37	chrX	105178281	105178281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggaaatgaggcctcaaatgCcattgactcaggtgctgcac	11	9	11	10	0	2	2	2	2	0	0	2	3	2	3	2	3	3	2	2	3	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:105178281C>T	uc004emd.2	+	20	3647	c.3344C>T	c.(3343-3345)GCC>GTC	p.A1115V	NRK_uc010npc.1_Missense_Mutation_p.A783V	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1115							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						GCCTCAAATGCCATTGACTCA	0.413										HNSCC(51;0.14)			19	87					0	0	0.010504	0	0		T	105178281	T	T	105178281	3	4	45	1	0	0	0	0	1	0	0	0	10674	739	26	2	3422	2	NRK	23	105178281	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	3208389	105178281	50092279	1195	35574											
NRK	203447	broad.mit.edu	37	chrX	105179301	105179301	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagttcacttctgagatctgCtgtggttctttgtggggtga	5	16	14	6	0	4	2	1	2	3	1	4	4	4	2	0	3	1	3	0	3	0	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:105179301C>T	uc004emd.2	+	21	3942	c.3639C>T	c.(3637-3639)TGC>TGT	p.C1213C	NRK_uc010npc.1_Silent_p.C881C	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1213	CNH.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						CTGAGATCTGCTGTGGTTCTT	0.353										HNSCC(51;0.14)			6	37					0	0	0.001168	0	0		T	105179301	T	T	105179301	2	4	45	1	0	0	0	0	0	0	0	1	10674	805	28	2		2	NRK	23	105179301	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1020	105179301	50091259	1196	35575											
MUM1L1	139221	broad.mit.edu	37	chrX	105451074	105451074	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggatgaaggctgctcgggAccgagccaacaagaacctgg	11	4	14	12	3	0	2	0	1	0	1	1	5	0	4	4	4	4	2	4	4	4	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:105451074A>G	uc004emf.1	+	4	2298	c.1649A>G	c.(1648-1650)GAC>GGC	p.D550G	MUM1L1_uc004emg.1_Missense_Mutation_p.D550G	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	550										ovary(2)|pancreas(1)|skin(1)	4						GCTGCTCGGGACCGAGCCAAC	0.488													7	17					0	0	0.00308	0	0		G	105451074	G	G	105451074	3	3	45	1	0	0	0	0	1	0	0	0	10004	275	10	3	1651	3	MUM1L1	23	105451074	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	271773	105451074	49819486	1197	35576											
TBC1D8B	54885	broad.mit.edu	37	chrX	106070528	106070528	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaaactcaggctcagatgCggagcagcttcaactcaata	14	7	9	11	1	4	1	4	0	0	1	4	2	4	2	0	2	5	4	0	2	5	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:106070528C>T	uc004emo.2	+	7	1329	c.1164C>T	c.(1162-1164)TGC>TGT	p.C388C	MORC4_uc004emp.3_Intron|TBC1D8B_uc004emm.2_Silent_p.C388C|TBC1D8B_uc004emn.2_Silent_p.C388C	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	388						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GGCTCAGATGCGGAGCAGCTT	0.378													21	126					0	0	0.00278	0	0		T	106070528	T	T	106070528	2	4	45	1	0	0	0	0	0	0	0	1	15651	776	27	1		1	TBC1D8B	23	106070528	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	619454	106070528	49200032	1198	35577											
MORC4	79710	broad.mit.edu	37	chrX	106236537	106236537	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaagatttattcttgacCtcctcaacatctataaagac	16	12	3	10	0	3	3	1	1	2	2	4	3	4	3	2	0	2	0	2	0	7	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:106236537C>A	uc004emu.3	-	3	474	c.231G>T	c.(229-231)GAG>GAT	p.E77D	MORC4_uc004emp.3_Translation_Start_Site|MORC4_uc004emv.3_Missense_Mutation_p.E77D|MORC4_uc004emw.3_Translation_Start_Site	NM_024657	NP_078933	Q8TE76	MORC4_HUMAN	zinc finger, CW type with coiled-coil domain 2	77							ATP binding|zinc ion binding			ovary(1)	1						TATTCTTGACCTCCTCAACAT	0.393													16	53					5.35267e-07	5.77264e-07	0.007413	1	0		A	106236537	A	A	106236537	3	1	45	1	0	0	0	0	1	0	0	0	9722	680	24	5	2642	5	MORC4	23	106236537	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	166009	106236537	49034023	1199	35578											
COL4A6	1288	broad.mit.edu	37	chrX	107448667	107448667	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtattttttaaaagctgtttAccttgactcctttctctcct	7	20	4	10	0	1	1	0	1	1	0	4	1	3	1	3	0	2	3	3	0	4	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:107448667A>G	uc004enw.3	-	11	793	c.690_splice	c.e11+1	p.K230_splice	COL4A6_uc004env.3_Splice_Site_p.K229_splice|COL4A6_uc011msn.1_Splice_Site_p.K229_splice|COL4A6_uc010npk.2_Splice_Site_p.K229_splice	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor						cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						AAAGCTGTTTACCTTGACTCC	0.403									Alport_syndrome_with_Diffuse_Leiomyomatosis				33	289					0	0	0.004878	0	0		G	107448667	G	G	107448667	5	3	45	1	0	0	0	0	0	0	1	0	3698	405	14	3	4523	3	COL4A6	23	107448667	Splice_Site	SNP	A	TCGA-BR-6852-01A-11D-1882-08	1212130	107448667	47821893	1200	35579											
CAPN6	827	broad.mit.edu	37	chrX	110494317	110494317	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaaagttgcggcaaaagTcctccaagctcatcctgaat	12	10	9	10	1	1	2	1	2	0	0	4	2	4	2	3	1	2	3	3	1	5	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:110494317T>G	uc004epc.1	-	8	1154	c.986A>C	c.(985-987)GAC>GCC	p.D329A	CAPN6_uc011msu.1_Missense_Mutation_p.D74A	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	329	Calpain catalytic.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						GCGGCAAAAGTCCTCCAAGCT	0.443													50	443					0	0	0.01441	0	0		G	110494317	G	G	110494317	3	3	45	1	0	0	0	0	1	0	0	0	2633	1667	58	5	963	5	CAPN6	23	110494317	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	3045650	110494317	44776243	1201	35580											
CXorf56	63932	broad.mit.edu	37	chrX	118694234	118694234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcatcaacctcttacctcCgcagatacatagtctcctca	11	10	5	15	1	4	1	2	0	2	1	6	2	5	1	4	0	4	2	4	0	4	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:118694234C>T	uc004erk.1	-	2	285	c.239G>A	c.(238-240)CGG>CAG	p.R80Q	CXorf56_uc004erj.1_Missense_Mutation_p.R31Q|CXorf56_uc011mtu.1_Missense_Mutation_p.R80Q	NM_022101	NP_071384	Q9H5V9	CX056_HUMAN	hypothetical protein LOC63932	80							protein binding				0						CTCTTACCTCCGCAGATACAT	0.438													31	158					0	0	0.013726	0	0		T	118694234	T	T	118694234	3	4	45	1	0	0	0	0	1	0	0	0	4115	652	23	1	453	1	CXorf56	23	118694234	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	8199917	118694234	36576326	1202	35581											
AKAP14	158798	broad.mit.edu	37	chrX	119048691	119048691	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaaaaaatgctgggcacaTggcgtagagtttgtagagag	13	10	13	5	1	1	2	0	0	1	2	1	3	1	2	0	2	1	5	0	2	5	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:119048691T>C	uc004ese.2	+	5	429	c.291T>C	c.(289-291)CAT>CAC	p.H97H	AKAP14_uc004esf.2_Intron	NM_178813	NP_848928	Q86UN6	AKA28_HUMAN	A kinase (PRKA) anchor protein 14 isoform a	97						cytoplasm					0						GCTGGGCACATGGCGTAGAGT	0.398													5	132					0	0	0.000602	0	0		C	119048691	C	C	119048691	2	2	45	1	0	0	0	0	0	0	0	1	450	1461	51	3		3	AKAP14	23	119048691	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	354457	119048691	36221869	1203	35582											
C1GALT1C1	29071	broad.mit.edu	37	chrX	119760212	119760212	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaacagccatatctgaacaAcagccttctactacctggtt	12	11	6	12	0	2	1	0	1	2	0	2	1	2	1	3	1	7	2	3	1	6	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:119760212A>C	uc004esy.2	-	3	1157	c.810T>G	c.(808-810)TGT>TGG	p.C270W	C1GALT1C1_uc004esz.2_Missense_Mutation_p.C270W	NM_152692	NP_689905	Q96EU7	C1GLC_HUMAN	C1GALT1-specific chaperone 1	270	Lumenal (Potential).					integral to membrane					0						TATCTGAACAACAGCCTTCTA	0.403													22	118					0	0	0.00278	0	0		C	119760212	C	C	119760212	3	2	45	1	0	0	0	0	1	0	0	0	1956	41	2	5	150	5	C1GALT1C1	23	119760212	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	711521	119760212	35510348	1204	35583											
CT47B1	643311	broad.mit.edu	37	chrX	120009089	120009089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcaggcggctgaggtgacGgttcgctatctggatgtggt	6	11	16	8	3	2	2	1	2	1	0	3	3	2	3	0	6	0	3	0	6	1	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:120009089G>A	uc011muc.1	-	1	691	c.436C>T	c.(436-438)CGT>TGT	p.R146C		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	146											0						CTGAGGTGACGGTTCGCTATC	0.662													23	156					0	0	0.00333	0	0		A	120009089	A	A	120009089	3	1	45	1	0	0	0	0	1	0	0	0	3992	1116	39	1	471	1	CT47B1	23	120009089	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	248877	120009089	35261471	1205	35584											
GLUD2	2747	broad.mit.edu	37	chrX	120182522	120182522	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttttggtgctaaatgtatTgctgttggtgagtctgatgg	6	17	14	4	1	1	2	0	2	1	0	1	2	1	2	0	3	2	5	0	3	3	6			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:120182522T>C	uc004eto.2	+	1	1061	c.984T>C	c.(982-984)ATT>ATC	p.I328I		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	328					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	CTAAATGTATTGCTGTTGGTG	0.418													57	237					0	0	0.01441	0	0		C	120182522	C	C	120182522	2	2	45	1	0	0	0	0	0	0	0	1	6492	1800	63	3		3	GLUD2	23	120182522	Silent	SNP	T	TCGA-BR-6852-01A-11D-1882-08	173433	120182522	35088038	1206	35585											
STAG2	10735	broad.mit.edu	37	chrX	123196831	123196831	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgccgtggcccttcctcAgttattagcaaaagtaagtt	9	15	8	9	1	1	0	1	0	0	0	2	0	2	0	3	1	2	4	3	1	5	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:123196831A>G	uc004etz.3	+	17	2057	c.1718A>G	c.(1717-1719)CAG>CGG	p.Q573R	STAG2_uc004eua.2_Missense_Mutation_p.Q573R|STAG2_uc004eub.2_Missense_Mutation_p.Q573R|STAG2_uc004euc.2_Missense_Mutation_p.Q573R|STAG2_uc004eud.2_Missense_Mutation_p.Q573R|STAG2_uc004eue.2_Missense_Mutation_p.Q573R	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	573					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						GCCCTTCCTCAGTTATTAGCA	0.358													10	50					0	0	0.010729	0	0		G	123196831	G	G	123196831	3	3	45	1	0	0	0	0	1	0	0	0	15268	188	7	3	1780	3	STAG2	23	123196831	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	3014309	123196831	32073729	1207	35586											
STAG2	10735	broad.mit.edu	37	chrX	123217382	123217382	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttctaaactacttcgAcaagacaaaagaacagtgta	16	12	5	8	1	2	2	0	0	2	2	3	3	2	2	0	0	3	1	0	0	8	7			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:123217382A>G	uc004etz.3	+	28	3375	c.3036A>G	c.(3034-3036)CGA>CGG	p.R1012R	STAG2_uc004eua.2_Silent_p.R1012R|STAG2_uc004eub.2_Silent_p.R1012R|STAG2_uc004euc.2_Silent_p.R1012R|STAG2_uc004eud.2_Silent_p.R1012R|STAG2_uc004eue.2_Silent_p.R1012R	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	1012					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						AACTACTTCGACAAGACAAAA	0.343													10	91					0	0	0.010729	0	0		G	123217382	G	G	123217382	2	3	45	1	0	0	0	0	0	0	0	1	15268	262	10	3		3	STAG2	23	123217382	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	20551	123217382	32053178	1208	35587											
ODZ1	10178	broad.mit.edu	37	chrX	123775719	123775719	+	Missense_Mutation	SNP	A	T	T																															aagaaaagttccgtgtcctgAgcactgctcttgacatacag																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:123775719A>T	uc004euj.2	-	11	2063	c.1999T>A	c.(1999-2001)TCA>ACA	p.S667T	ODZ1_uc011muj.1_Missense_Mutation_p.S666T|ODZ1_uc010nqy.2_Missense_Mutation_p.S667T	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	667	EGF-like 5.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CCGTGTCCTGAGCACTGCTCT	0.478													34	284					0	0	0.004289	0	0		T	123775719	T	T	123775719	3	4	45	1	0	0	0	0	1	0	0	0	10853	304	11	5	6287	5	ODZ1	23	123775719	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	558337	123775719	31494841	1209	35588	71	2									
ODZ1	10178	broad.mit.edu	37	chrX	123775729	123775729	+	Missense_Mutation	SNP	T	G	G																															ccgtgtcctgagcactgctcTtgacatacaggaagtggtgt																										TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:123775729T>G	uc004euj.2	-	11	2053	c.1989A>C	c.(1987-1989)CAA>CAC	p.Q663H	ODZ1_uc011muj.1_Missense_Mutation_p.Q662H|ODZ1_uc010nqy.2_Missense_Mutation_p.Q663H	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	663	EGF-like 5.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						AGCACTGCTCTTGACATACAG	0.493													35	304					0	0	0.004878	0	0		G	123775729	G	G	123775729	3	3	45	1	0	0	0	0	1	0	0	0	10853	1606	56	5	6297	5	ODZ1	23	123775729	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	10	123775729	31494831	1210	35589	71	2									
ZDHHC9	51114	broad.mit.edu	37	chrX	128944952	128944952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acttccactttcctccagtgGcaaaataccccttcgatcca	10	11	4	16	1	0	0	0	0	0	0	5	1	4	0	6	1	1	1	6	1	3	4			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:128944952G>A	uc004euv.2	-	9	1276	c.907C>T	c.(907-909)CCA>TCA	p.P303S	ZDHHC9_uc004euw.2_Missense_Mutation_p.P303S	NM_001008222	NP_001008223	Q9Y397	ZDHC9_HUMAN	zinc finger, DHHC domain containing 9	303	Cytoplasmic (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1						TCCTCCAGTGGCAAAATACCC	0.527													21	91					0	0	0.012319	0	0		A	128944952	A	A	128944952	3	1	45	1	0	0	0	0	1	0	0	0	17647	1203	42	2	195	2	ZDHHC9	23	128944952	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	5169223	128944952	26325608	1211	35590											
ZNF280C	55609	broad.mit.edu	37	chrX	129380885	129380885	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaaagatcagttcatcGtcatcctcatcctgagtttc	11	12	5	13	1	4	2	4	1	0	1	8	2	6	2	3	0	1	2	3	0	2	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:129380885G>A	uc004evm.2	-	3	280	c.126C>T	c.(124-126)GAC>GAT	p.D42D	ZNF280C_uc010nrf.1_Silent_p.D42D	NM_017666	NP_060136	Q8ND82	Z280C_HUMAN	zinc finger protein 280C	42					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)	3						TCAGTTCATCGTCATCCTCAT	0.368													60	265					0	0	0.01441	0	0		A	129380885	A	A	129380885	2	1	45	1	0	0	0	0	0	0	0	1	17841	1136	40	1		1	ZNF280C	23	129380885	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	435933	129380885	25889675	1212	35591											
DDX26B	203522	broad.mit.edu	37	chrX	134703344	134703344	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttaaaaactctgcctccAtactacctattagtatgtat	13	15	3	10	0	1	0	0	0	1	0	2	0	2	0	3	0	5	2	3	0	10	8			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:134703344A>G	uc004eyw.3	+	10	1638	c.1275A>G	c.(1273-1275)CCA>CCG	p.P425P	DDX26B_uc004eyx.3_5'UTR	NM_182540	NP_872346	Q5JSJ4	DX26B_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	425											0	Acute lymphoblastic leukemia(192;6.56e-05)					CTCTGCCTCCATACTACCTAT	0.318													16	110					0	0	0.004007	0	0		G	134703344	G	G	134703344	2	3	45	1	0	0	0	0	0	0	0	1	4356	204	8	3		3	DDX26B	23	134703344	Silent	SNP	A	TCGA-BR-6852-01A-11D-1882-08	5322459	134703344	20567216	1213	35592											
MAP7D3	79649	broad.mit.edu	37	chrX	135314039	135314039	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctcaactcgggggatgcGtccatgctcatctcagaatc	9	10	10	12	2	3	1	3	0	1	1	7	2	4	2	1	2	4	2	1	2	2	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:135314039G>A	uc004ezt.2	-	8	1168	c.1077C>T	c.(1075-1077)GAC>GAT	p.D359D	MAP7D3_uc004ezs.2_Silent_p.D323D|MAP7D3_uc011mwc.1_Silent_p.D341D|MAP7D3_uc010nsa.1_Silent_p.D317D	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	359						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					CGGGGGATGCGTCCATGCTCA	0.587													22	136					0	0	0.012319	0	0		A	135314039	A	A	135314039	2	1	45	1	0	0	0	0	0	0	0	1	9287	1136	40	1		1	MAP7D3	23	135314039	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	610695	135314039	19956521	1214	35593											
FGF13	2258	broad.mit.edu	37	chrX	137715071	137715071	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcacgccagagacacttctGctcttggttggggtcccgct	6	10	12	13	2	2	1	0	0	2	1	3	2	3	1	2	3	2	4	2	3	0	3			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:137715071G>T	uc004fam.2	-	5	1340	c.678C>A	c.(676-678)AGC>AGA	p.S226R	FGF13_uc004fan.2_Missense_Mutation_p.S173R|FGF13_uc011mwi.1_Missense_Mutation_p.S207R|FGF13_uc004faq.2_Missense_Mutation_p.S236R|FGF13_uc004far.2_Missense_Mutation_p.S207R|FGF13_uc011mwj.1_Missense_Mutation_p.S236R|FGF13_uc011mwk.1_Missense_Mutation_p.S180R	NM_004114	NP_004105	Q92913	FGF13_HUMAN	fibroblast growth factor 13 isoform 1	226					cell-cell signaling|MAPKKK cascade|nervous system development	cytoplasm|nucleus	growth factor activity|protein kinase activator activity			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AGACACTTCTGCTCTTGGTTG	0.522													37	170					4.3949e-29	5.06714e-29	0.004289	1	0		T	137715071	T	T	137715071	3	4	45	1	0	0	0	0	1	0	0	0	5856	1310	46	5	63	5	FGF13	23	137715071	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	2401032	137715071	17555489	1215	35594											
SOX3	6658	broad.mit.edu	37	chrX	139586596	139586596	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtcttggtcttgcggcgCggtcggtacttgtagtccgg	3	12	16	10	6	2	0	0	0	2	0	4	0	3	0	1	5	3	2	1	5	2	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:139586596C>T	uc004fbd.1	-	1	630	c.630G>A	c.(628-630)CCG>CCA	p.P210P		NM_005634	NP_005625	P41225	SOX3_HUMAN	SRY (sex determining region Y)-box 3	210					face development|hypothalamus development|negative regulation of neuron differentiation|pituitary gland development|regulation of transcription, DNA-dependent|sensory organ development|sex determination|transcription, DNA-dependent	nucleus	DNA binding			pancreas(1)	1	Acute lymphoblastic leukemia(192;7.65e-05)					TCTTGCGGCGCGGTCGGTACT	0.512													22	60					0	0	0.014323	0	0		T	139586596	T	T	139586596	2	4	45	1	0	0	0	0	0	0	0	1	14976	755	27	1		1	SOX3	23	139586596	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1871525	139586596	15683964	1216	35595											
MAGEC3	139081	broad.mit.edu	37	chrX	140953283	140953283	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaggccacagataaggaCtattctgcctttcatcttgg	13	11	8	9	0	3	1	1	0	2	1	3	2	3	2	2	3	1	0	2	3	4	5			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:140953283C>A	uc011mwp.1	+	2	150	c.150C>A	c.(148-150)GAC>GAA	p.D50E		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	50								p.D50N(1)		skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CAGATAAGGACTATTCTGCCT	0.507													17	119					6.94344e-10	7.68327e-10	0.006122	1	0		A	140953283	A	A	140953283	3	1	45	1	0	0	0	0	1	0	0	0	9200	564	20	5	156	5	MAGEC3	23	140953283	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	1366687	140953283	14317277	1217	35596											
MAGEA3	4102	broad.mit.edu	37	chrX	151935622	151935622	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatcgtaggagaggcccAggcaggtggcaaagatgtac	11	5	16	9	1	0	2	0	0	0	2	1	3	0	2	2	6	1	4	2	6	3	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:151935622A>G	uc004fgp.2	-	3	754	c.545T>C	c.(544-546)CTG>CCG	p.L182P		NM_005362	NP_005353	P43357	MAGA3_HUMAN	melanoma antigen family A, 3	182	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					GGAGAGGCCCAGGCAGGTGGC	0.557													44	62					0	0	0.010771	0	0		G	151935622	G	G	151935622	3	3	45	1	0	0	0	0	1	0	0	0	9185	188	7	3	403	3	MAGEA3	23	151935622	Missense_Mutation	SNP	A	TCGA-BR-6852-01A-11D-1882-08	10982339	151935622	3334938	1218	35597											
NSDHL	50814	broad.mit.edu	37	chrX	152018835	152018835	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcacagtgatcggtggCtctggattcctggggcagca	8	9	15	9	1	1	2	0	1	1	1	3	3	2	3	1	5	2	4	1	5	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:152018835C>A	uc004fgt.1	+	4	396	c.135C>A	c.(133-135)GGC>GGA	p.G45G	NSDHL_uc004fgs.1_Silent_p.G45G	NM_001129765	NP_001123237	Q15738	NSDHL_HUMAN	NAD(P) dependent steroid dehydrogenase-like	45					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity|sterol-4-alpha-carboxylate 3-dehydrogenase (decarboxylating) activity				0	Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	TGATCGGTGGCTCTGGATTCC	0.517													43	218					1.76056e-25	2.02818e-25	0.011902	1	0		A	152018835	A	A	152018835	2	1	45	1	0	0	0	0	0	0	0	1	10689	784	28	5		5	NSDHL	23	152018835	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	83213	152018835	3251725	1219	35598											
ZNF275	10838	broad.mit.edu	37	chrX	152612686	152612686	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagagggaggcaaagcccttCgagtgcgaggagtgcggaaa	12	4	18	7	3	0	1	0	0	0	1	1	7	0	4	1	4	3	1	1	4	2	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:152612686C>T	uc004fhg.1	+	4	720	c.543C>T	c.(541-543)TTC>TTT	p.F181F	ZNF275_uc011mym.1_Silent_p.F181F|ZNF275_uc011myn.1_Silent_p.F118F			A6NFS0	A6NFS0_HUMAN	SubName: Full=cDNA FLJ16723 fis, clone UTERU3004418, highly similar to Zinc finger protein 275; SubName: Full=Putative uncharacterized protein ZNF275;	181						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CAAAGCCCTTCGAGTGCGAGG	0.602													11	79					0	0	0.013537	0	0		T	152612686	T	T	152612686	2	4	45	1	0	0	0	0	0	0	0	1	17835	883	31	1		1	ZNF275	23	152612686	Silent	SNP	C	TCGA-BR-6852-01A-11D-1882-08	593851	152612686	2657874	1220	35599											
BGN	633	broad.mit.edu	37	chrX	152770093	152770093	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaggtccatccgccatgTggcccctgtggcgcctcgtg	3	8	12	18	3	0	0	0	0	0	0	3	0	2	0	8	3	0	0	8	3	0	0			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:152770093T>C	uc004fhr.1	+	2	176	c.4T>C	c.(4-6)TGG>CGG	p.W2R	BGN_uc004fhq.1_RNA	NM_001711	NP_001702	P21810	PGS1_HUMAN	biglycan preproprotein	2						proteinaceous extracellular matrix|transport vesicle	extracellular matrix structural constituent			breast(2)	2	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ATCCGCCATGTGGCCCCTGTG	0.647													7	52					0	0	0.001984	0	0		C	152770093	C	C	152770093	3	2	45	1	0	0	0	0	1	0	0	0	1419	1696	59	3	6	3	BGN	23	152770093	Missense_Mutation	SNP	T	TCGA-BR-6852-01A-11D-1882-08	157407	152770093	2500467	1221	35600											
PDZD4	57595	broad.mit.edu	37	chrX	153073995	153073995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggggctccttggaggagCgcagggcctgcagagtttgc	6	7	17	11	1	0	1	0	0	0	1	1	3	1	3	3	5	3	4	3	5	0	2			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:153073995C>T	uc004fiz.1	-	2	366	c.116G>A	c.(115-117)CGC>CAC	p.R39H	PDZD4_uc004fiy.1_5'UTR|PDZD4_uc004fix.2_5'UTR|PDZD4_uc004fja.1_Missense_Mutation_p.R39H|PDZD4_uc011mze.1_Intron	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	39			R -> C (in a breast cancer sample; somatic mutation).			cell cortex		p.R39C(1)		breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTTGGAGGAGCGCAGGGCCTG	0.642													5	24					0	0	0.001168	0	0		T	153073995	T	T	153073995	3	4	45	1	0	0	0	0	1	0	0	0	11722	768	27	1	2221	1	PDZD4	23	153073995	Missense_Mutation	SNP	C	TCGA-BR-6852-01A-11D-1882-08	303902	153073995	2196565	1222	35601											
ARHGAP4	393	broad.mit.edu	37	chrX	153174968	153174968	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagtctgcagccctgcGcccaccacctgcttctccgt	4	9	8	20	2	2	0	0	0	2	0	3	0	2	0	6	0	5	3	6	0	0	1	rs61749033	byFrequency	TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:153174968G>A	uc004fjk.1	-	20	2478	c.2436C>T	c.(2434-2436)GGC>GGT	p.G812G	ARHGAP4_uc004fjj.1_Silent_p.G163G|ARHGAP4_uc011mzf.1_Silent_p.G789G|ARHGAP4_uc004fjl.1_Silent_p.G852G|ARHGAP4_uc010nup.1_RNA	NM_001666	NP_001657	P98171	RHG04_HUMAN	Rho GTPase activating protein 4 isoform 2	812					apoptosis|cytoskeleton organization|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|Rho protein signal transduction	cytosol|focal adhesion|nucleus	Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			central_nervous_system(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCAGCCCTGCGCCCACCACCT	0.577													5	27					0	0	0.001168	0	0		A	153174968	A	A	153174968	2	1	45	1	0	0	0	0	0	0	0	1	885	1074	38	1		1	ARHGAP4	23	153174968	Silent	SNP	G	TCGA-BR-6852-01A-11D-1882-08	100973	153174968	2095592	1223	35602											
FLNA	2316	broad.mit.edu	37	chrX	153596212	153596212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctctgcgccccctcacccGgggcacagctgtccaccagg	5	5	11	20	2	2	0	1	0	1	0	3	0	3	0	6	3	2	2	6	3	0	0	rs28935469		TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:153596212G>A	uc004fkk.2	-	3	869	c.620C>T	c.(619-621)CCG>CTG	p.P207L	FLNA_uc010nuu.1_Missense_Mutation_p.P207L	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	207	CH 2.|Actin-binding.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCCCTCACCCGGGGCACAGCT	0.706													10	41					0	0	0.010729	0	0		A	153596212	A	A	153596212	3	1	45	1	0	0	0	0	1	0	0	0	5947	1116	39	1	7507	1	FLNA	23	153596212	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	421244	153596212	1674348	1224	35603											
TAZ	6901	broad.mit.edu	37	chrX	153640245	153640245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctggaccctggccagcaGcgtcgtcatgggcttggtgg	5	8	15	13	2	1	0	1	0	0	0	2	1	1	1	3	5	2	2	3	5	0	1			TCGA-BR-6852-01A-11D-1882-08	TCGA-BR-6852-11A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f6202ce-fb91-4f83-9730-d202b75ea0ec	a7d54f14-ba5f-4a0d-9e09-65a16af9d30e	g.chrX:153640245G>A	uc004fkx.2	+	1	369	c.65G>A	c.(64-66)AGC>AAC	p.S22N	DNASE1L1_uc004fks.1_5'Flank|DNASE1L1_uc004fkt.1_5'Flank|DNASE1L1_uc004fku.1_5'UTR|DNASE1L1_uc004fkv.1_5'UTR|DNASE1L1_uc004fkw.1_5'UTR|TAZ_uc004fky.2_Missense_Mutation_p.S22N|TAZ_uc004fkz.2_RNA|TAZ_uc004fla.2_Missense_Mutation_p.S22N|TAZ_uc004flb.2_Missense_Mutation_p.S22N|TAZ_uc010nuy.2_Missense_Mutation_p.S22N|TAZ_uc004flc.3_Missense_Mutation_p.S22N	NM_000116	NP_000107	Q16635	TAZ_HUMAN	tafazzin isoform 1	22	Helical; Signal-anchor; (Potential).				cardiac muscle contraction|cardiac muscle tissue development|cardiolipin biosynthetic process|cristae formation|hemopoiesis|mitochondrial ATP synthesis coupled electron transport|mitochondrial respiratory chain complex I assembly|skeletal muscle tissue development	integral to membrane|mitochondrion	1-acylglycerophosphocholine O-acyltransferase activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTGGCCAGCAGCGTCGTCATG	0.602													8	27					0	0	0.010729	0	0		A	153640245	A	A	153640245	3	1	45	1	0	0	0	0	1	0	0	0	15621	971	34	2	67	2	TAZ	23	153640245	Missense_Mutation	SNP	G	TCGA-BR-6852-01A-11D-1882-08	44033	153640245	1630315	1225	35604											
TAS1R3	83756	broad.mit.edu	37	chr1	1268156	1268156	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagtgcaacgcctcaggctgCcccgcgcaggaccccgtgaa	8	4	12	17	4	1	1	1	1	0	0	1	2	1	2	5	2	3	3	5	2	2	0			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr1:1268156C>T	uc010nyk.1	+	3	1245	c.1245C>T	c.(1243-1245)TGC>TGT	p.C415C		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	415	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)	Aspartame(DB00168)	CCTCAGGCTGCCCCGCGCAGG	0.657													4	45					0	0	0.001984	0	0		T	1268156	T	T	1268156	2	4	46	1	0	0	0	0	0	0	0	1	15589	747	26	2		2	TAS1R3	1	1268156	Silent	SNP	C	TCGA-BR-7196-01A-11D-2053-08		1268156	247982465	1	35605											
PLEKHM2	23207	broad.mit.edu	37	chr1	16059105	16059105	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgggggcctggctctccctAggagttctcccaggacagcc	5	7	13	16	1	2	0	0	0	2	0	4	2	2	2	5	5	1	2	5	5	1	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr1:16059105A>C	uc010obo.1	+	19	3033	c.2806_splice	c.e19-2	p.E936_splice		NM_015164	NP_055979	Q8IWE5	PKHM2_HUMAN	pleckstrin homology domain containing, family M						Golgi organization	cytoplasm	kinesin binding			ovary(1)	1		Colorectal(325;0.000259)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00057)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		GGCTCTCCCTAGGAGTTCTCC	0.622													3	16					0	0	0.009096	0	0		C	16059105	C	C	16059105	5	2	46	1	0	0	0	0	0	0	1	0	12100	434	15	5	2878	5	PLEKHM2	1	16059105	Splice_Site	SNP	A	TCGA-BR-7196-01A-11D-2053-08	14790949	16059105	233191516	2	35606											
USP48	84196	broad.mit.edu	37	chr1	22030758	22030758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaatatgaaaacttactggGctcagaaatatactgtgttt	14	13	8	6	0	1	2	1	1	0	1	1	2	1	2	0	1	3	3	0	1	8	5			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr1:22030758G>A	uc001bfb.2	-	20	2750	c.2512C>T	c.(2512-2514)CCC>TCC	p.P838S	USP48_uc001bfa.2_Missense_Mutation_p.P376S|USP48_uc010odq.1_Missense_Mutation_p.P850S|USP48_uc009vqc.2_Missense_Mutation_p.P772S|USP48_uc001bfc.2_Missense_Mutation_p.P838S|USP48_uc001bfd.1_5'UTR	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	838					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		AACTTACTGGGCTCAGAAATA	0.353													9	52					0	0	0.008291	0	0		A	22030758	A	A	22030758	3	1	46	1	0	0	0	0	1	0	0	0	17105	1203	42	2	627	2	USP48	1	22030758	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	5971653	22030758	227219863	3	35607											
ARID1A	8289	broad.mit.edu	37	chr1	27097694	27097694	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgccagctccttgaaaaagCagtatatccagtgtctctat	11	12	7	11	0	1	1	0	1	1	0	4	1	3	1	3	0	3	3	3	0	5	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr1:27097694C>T	uc001bmv.1	+	12	3656	c.3283C>T	c.(3283-3285)CAG>TAG	p.Q1095*	ARID1A_uc001bmt.1_Nonsense_Mutation_p.Q1095*|ARID1A_uc001bmu.1_Nonsense_Mutation_p.Q1095*|ARID1A_uc001bmw.1_Nonsense_Mutation_p.Q712*|ARID1A_uc001bmx.1_5'UTR|ARID1A_uc009vsm.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1095	ARID.				androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CTTGAAAAAGCAGTATATCCA	0.483			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								8	61					0	0	0.006214	0	0		T	27097694	T	T	27097694	4	4	46	1	0	0	0	0	0	1	0	0	913	711	25	2	3329	2	ARID1A	1	27097694	Nonsense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	5066936	27097694	222152927	4	35608											
LRRC7	57554	broad.mit.edu	37	chr1	70503977	70503977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgctgaggaaaccacaGccgagaatgccaacagtaat	14	8	10	9	1	0	2	0	1	0	1	0	4	0	3	3	1	5	3	3	1	4	3			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr1:70503977G>A	uc001dep.2	+	19	2386	c.2356G>A	c.(2356-2358)GCC>ACC	p.A786T	LRRC7_uc009wbg.2_Missense_Mutation_p.A70T|LRRC7_uc001deq.2_Missense_Mutation_p.A27T	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	786						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GGAAACCACAGCCGAGAATGC	0.493													4	174					0	0	0.009096	0	0		A	70503977	A	A	70503977	3	1	46	1	0	0	0	0	1	0	0	0	9038	971	34	2	2430	2	LRRC7	1	70503977	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	43406283	70503977	178746644	5	35609											
EXO1	9156	broad.mit.edu	37	chr1	242045261	242045261	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgacagtcaaagtgaccAgacctccaagctacgtttat	13	10	7	11	1	1	3	1	2	0	1	2	3	2	3	3	0	2	2	3	0	4	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr1:242045261A>T	uc001hzh.2	+	14	2693	c.2153A>T	c.(2152-2154)CAG>CTG	p.Q718L	EXO1_uc001hzi.2_Missense_Mutation_p.Q718L|EXO1_uc001hzj.2_Missense_Mutation_p.Q718L|EXO1_uc009xgq.2_Missense_Mutation_p.Q717L	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	718	Interaction with MSH2.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			CAAAGTGACCAGACCTCCAAG	0.294								Direct_reversal_of_damage|Editing_and_processing_nucleases					7	50					0	0	0.00308	0	0		T	242045261	T	T	242045261	3	4	46	1	0	0	0	0	1	0	0	0	5308	188	7	5	2195	5	EXO1	1	242045261	Missense_Mutation	SNP	A	TCGA-BR-7196-01A-11D-2053-08	171541284	242045261	7205360	6	35610											
C2orf86	51057	broad.mit.edu	37	chr2	63631623	63631623	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgactttagtggtattctgGtgactgacacacactggatt	9	15	10	7	0	1	3	0	3	1	0	1	4	1	4	0	3	0	1	0	3	2	6			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr2:63631623G>C	uc002sch.2	-	10	1441	c.995C>G	c.(994-996)ACC>AGC	p.T332S	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Missense_Mutation_p.T173S|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Missense_Mutation_p.T140S|C2orf86_uc002sci.1_Missense_Mutation_p.T308S|C2orf86_uc010fcr.1_Missense_Mutation_p.T222S	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	332	WD 1.				cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						TGGTATTCTGGTGACTGACAC	0.443													7	120					0	0	0.00308	0	0		C	63631623	C	C	63631623	3	2	46	1	0	0	0	0	1	0	0	0	2204	1261	44	5	1281	5	C2orf86	2	63631623	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08		63631623	179567750	7	35611											
TUBA3E	112714	broad.mit.edu	37	chr2	130951688	130951688	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcagggccccatcaaatcGcagggaggccgtgatggagg	10	6	15	10	2	2	1	2	1	0	0	3	3	2	3	3	5	0	1	3	5	1	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr2:130951688G>A	uc002tqv.2	-	4	828	c.727C>T	c.(727-729)CGA>TGA	p.R243*		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	243					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					CCATCAAATCGCAGGGAGGCC	0.582													23	151					0	0	0.005443	0	0		A	130951688	A	A	130951688	4	1	46	1	0	0	0	0	0	1	0	0	16774	1095	38	1	633	1	TUBA3E	2	130951688	Nonsense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	67320065	130951688	112247685	8	35612											
FAM123C	205147	broad.mit.edu	37	chr2	131520836	131520836	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctcgccaggacttgaggaGgacaagaaggaagctgagag	13	6	15	7	1	1	3	0	2	1	2	2	8	1	7	1	4	1	1	1	4	3	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr2:131520836G>C	uc002trw.2	+	2	1381	c.1191G>C	c.(1189-1191)GAG>GAC	p.E397D	FAM123C_uc010fmv.2_Missense_Mutation_p.E397D|FAM123C_uc010fms.1_Missense_Mutation_p.E397D|FAM123C_uc010fmt.1_Missense_Mutation_p.E397D|FAM123C_uc010fmu.1_Missense_Mutation_p.E397D	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	397										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GACTTGAGGAGGACAAGAAGG	0.622													12	50					0	0	0.016723	0	0		C	131520836	C	C	131520836	3	2	46	1	0	0	0	0	1	0	0	0	5435	991	35	5	1193	5	FAM123C	2	131520836	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	569148	131520836	111678537	9	35613											
RAPGEF4	11069	broad.mit.edu	37	chr2	173898667	173898667	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaagcaagttcaagaagtTctatgcggagtttgaaagtt	13	11	11	6	1	2	2	1	1	1	1	2	3	2	3	1	1	2	5	1	1	6	5			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr2:173898667T>A	uc002uhv.3	+	27	2862	c.2675T>A	c.(2674-2676)TTC>TAC	p.F892Y	RAPGEF4_uc002uhw.3_Missense_Mutation_p.F748Y	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	892	Ras-GEF.				blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			TTCAAGAAGTTCTATGCGGAG	0.348													13	59					0	0	0.00499	0	0		A	173898667	A	A	173898667	3	1	46	1	0	0	0	0	1	0	0	0	13071	1783	62	5	2797	5	RAPGEF4	2	173898667	Missense_Mutation	SNP	T	TCGA-BR-7196-01A-11D-2053-08	42377831	173898667	69300706	10	35614											
VWC2L	402117	broad.mit.edu	37	chr2	215278974	215278974	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggtcatccctggattggtCacctctgctgctatcagtca	6	14	9	12	0	5	0	4	0	1	0	6	1	6	1	2	3	2	2	2	3	1	3			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr2:215278974C>T	uc002vet.2	+	2	187	c.57C>T	c.(55-57)GTC>GTT	p.V19V	VWC2L_uc010zjl.1_Silent_p.V19V	NM_001080500	NP_001073969	B2RUY7	VWC2L_HUMAN	von Willebrand factor C domain-containing	19						extracellular region					0						CTGGATTGGTCACCTCTGCTG	0.433													6	93					0	0	0.00308	0	0		T	215278974	T	T	215278974	2	4	46	1	0	0	0	0	0	0	0	1	17270	813	29	4		4	VWC2L	2	215278974	Silent	SNP	C	TCGA-BR-7196-01A-11D-2053-08	41380307	215278974	27920399	11	35615											
ARPC2	10109	broad.mit.edu	37	chr2	219110154	219110154	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttggcaggagttcaaagaAggacgcagagccagccacac	13	5	12	11	1	2	2	1	0	1	2	2	4	2	4	2	3	2	3	2	3	2	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr2:219110154A>G	uc002vhd.2	+	8	673	c.561A>G	c.(559-561)GAA>GAG	p.E187E	ARPC2_uc002vhe.2_Silent_p.E187E|ARPC2_uc002vhf.2_Silent_p.E73E	NM_152862	NP_690601	O15144	ARPC2_HUMAN	actin related protein 2/3 complex subunit 2	187					cellular component movement	Arp2/3 protein complex|cell projection|Golgi apparatus	actin binding|structural constituent of cytoskeleton			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;1.21e-06)|all cancers(144;0.000212)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0103)		AGTTCAAAGAAGGACGCAGAG	0.517													10	120					0	0	0.008291	0	0		G	219110154	G	G	219110154	2	3	46	1	0	0	0	0	0	0	0	1	972	69	3	3		3	ARPC2	2	219110154	Silent	SNP	A	TCGA-BR-7196-01A-11D-2053-08	3831180	219110154	24089219	12	35616											
MYRIP	25924	broad.mit.edu	37	chr3	40251427	40251427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacaccacagaggagaaacGgagaaacaggctgtacgagt	17	3	13	8	2	0	4	0	0	0	4	0	7	0	4	1	3	3	2	1	3	3	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr3:40251427G>A	uc003cka.2	+	11	1883	c.1748G>A	c.(1747-1749)CGG>CAG	p.R583Q	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Missense_Mutation_p.R583Q|MYRIP_uc010hhw.2_Missense_Mutation_p.R494Q|MYRIP_uc011ayz.1_Missense_Mutation_p.R396Q|uc003ckb.2_Intron	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	583	Actin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		GAGGAGAAACGGAGAAACAGG	0.478													5	71					0	0	0.014758	0	0		A	40251427	A	A	40251427	3	1	46	1	0	0	0	0	1	0	0	0	10118	1116	39	1	1786	1	MYRIP	3	40251427	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08		40251427	157771003	13	35617											
ZPLD1	131368	broad.mit.edu	37	chr3	102171950	102171950	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatttttatcatcaatctCagcaccttggagggctgtgg	8	14	10	9	0	4	0	4	0	1	0	5	1	4	1	1	3	1	2	1	3	2	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr3:102171950C>A	uc003dvs.1	+	10	1176	c.294C>A	c.(292-294)CTC>CTA	p.L98L	ZPLD1_uc003dvt.1_Silent_p.L114L|ZPLD1_uc011bhg.1_Silent_p.L98L	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	98	ZP.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						TCATCAATCTCAGCACCTTGG	0.448													3	65					0.00024832	0.00026624	0.009096	1	0		A	102171950	A	A	102171950	2	1	46	1	0	0	0	0	0	0	0	1	18246	813	29	5		5	ZPLD1	3	102171950	Silent	SNP	C	TCGA-BR-7196-01A-11D-2053-08	61920523	102171950	95850480	14	35618											
MYLK	4638	broad.mit.edu	37	chr3	123419688	123419688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctgcctcgtctccacgCgcctcttcagcacccctcgc	3	10	8	20	4	3	0	1	0	2	0	6	0	3	0	5	0	3	2	5	0	0	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr3:123419688C>T	uc003ego.2	-	18	2909	c.2627G>A	c.(2626-2628)CGC>CAC	p.R876H	MYLK_uc011bjw.1_Missense_Mutation_p.R876H|MYLK_uc003egp.2_Missense_Mutation_p.R807H|MYLK_uc003egq.2_Missense_Mutation_p.R876H|MYLK_uc003egr.2_Missense_Mutation_p.R807H|MYLK_uc003egs.2_Missense_Mutation_p.R700H|MYLK_uc003egt.2_Missense_Mutation_p.R67H	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	876	5 X 28 AA approximate tandem repeats.|1-1.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CGTCTCCACGCGCCTCTTCAG	0.642													26	95					0	0	0.013726	0	0		T	123419688	T	T	123419688	3	4	46	1	0	0	0	0	1	0	0	0	10074	768	27	1	3185	1	MYLK	3	123419688	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	21247738	123419688	74602742	15	35619											
PIK3CA	5290	broad.mit.edu	37	chr3	178921553	178921553	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtgcaacctacgtgaaTgtaaatattcgagacattga	13	13	8	7	2	0	3	0	2	0	1	1	4	0	3	1	0	3	2	1	0	6	6	rs121913284		TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr3:178921553T>A	uc003fjk.2	+	5	1192	c.1035T>A	c.(1033-1035)AAT>AAA	p.N345K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	345					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.N345K(29)|p.N345I(2)|p.N345S(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			CCTACGTGAATGTAAATATTC	0.308		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			10	72					0	0	0.020292	0	0		A	178921553	A	A	178921553	3	1	46	1	0	0	0	0	1	0	0	0	11932	1461	51	5	1049	5	PIK3CA	3	178921553	Missense_Mutation	SNP	T	TCGA-BR-7196-01A-11D-2053-08	55501865	178921553	19100877	16	35620											
LEPREL1	55214	broad.mit.edu	37	chr3	189690711	189690711	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtataggaaaaatacagagTtgagttcagcataaaataag	19	10	9	3	0	1	2	1	1	0	1	1	3	1	3	0	1	2	4	0	1	8	7			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr3:189690711T>G	uc011bsk.1	-	11	2039	c.1651A>C	c.(1651-1653)ACT>CCT	p.T551P	LEPREL1_uc003fsg.2_Missense_Mutation_p.T370P	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	551					collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	AAATACAGAGTTGAGTTCAGC	0.433													17	53					0	0	0.010504	0	0		G	189690711	G	G	189690711	3	3	46	1	0	0	0	0	1	0	0	0	8746	1725	60	5	495	5	LEPREL1	3	189690711	Missense_Mutation	SNP	T	TCGA-BR-7196-01A-11D-2053-08	10769158	189690711	8331719	17	35621											
BDH1	622	broad.mit.edu	37	chr3	197238850	197238850	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caccagtagtagtccatgggGtggtagcgggtgtagggggt	7	9	19	6	1	0	0	0	0	0	0	1	0	1	0	2	6	1	4	2	6	4	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr3:197238850G>A	uc003fxr.2	-	8	1350	c.948C>T	c.(946-948)CAC>CAT	p.H316H	BDH1_uc003fxs.2_Silent_p.H316H|BDH1_uc003fxt.2_Silent_p.H229H|BDH1_uc003fxu.2_Silent_p.H316H	NM_203314	NP_976059	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1	316					cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			ovary(1)	1	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	AGTCCATGGGGTGGTAGCGGG	0.592													53	166					0	0	0.01441	0	0		A	197238850	A	A	197238850	2	1	46	1	0	0	0	0	0	0	0	1	1391	1252	44	4		4	BDH1	3	197238850	Silent	SNP	G	TCGA-BR-7196-01A-11D-2053-08	7548139	197238850	783580	18	35622											
GABRA2	2555	broad.mit.edu	37	chr4	46264078	46264078	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtccatggcagttgcataAgccactttggggagagaatt	11	10	12	8	0	0	1	0	0	0	1	1	3	1	2	2	3	2	3	2	3	2	4	rs35058221	byFrequency	TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr4:46264078A>G	uc003gxc.3	-	8	1597	c.924T>C	c.(922-924)GCT>GCC	p.A308A	GABRA2_uc010igc.2_Silent_p.A308A|GABRA2_uc011bzc.1_Silent_p.A253A|GABRA2_uc003gxe.2_Silent_p.A308A	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	308					gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CAGTTGCATAAGCCACTTTGG	0.393													9	104					0	0	0.008291	0	0		G	46264078	G	G	46264078	2	3	46	1	0	0	0	0	0	0	0	1	6175	59	3	3		3	GABRA2	4	46264078	Silent	SNP	A	TCGA-BR-7196-01A-11D-2053-08		46264078	144890198	19	35623											
PPAT	5471	broad.mit.edu	37	chr4	57301585	57301585	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctgcgtgggccactctcctGaggcgatgcacccgaacacg	7	6	13	15	4	1	1	0	1	1	0	2	3	1	1	3	2	3	2	3	2	1	0			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr4:57301585G>C	uc003hbr.2	-	1	261	c.59C>G	c.(58-60)TCA>TGA	p.S20*	PAICS_uc003hbs.1_5'Flank|PAICS_uc011cac.1_5'Flank|PAICS_uc003hbt.1_5'Flank|PAICS_uc003hbu.1_5'Flank|PAICS_uc010ihd.1_5'Flank	NM_002703	NP_002694	Q06203	PUR1_HUMAN	phosphoribosyl pyrophosphate amidotransferase	20	Glutamine amidotransferase type-2.				glutamine metabolic process|nucleoside metabolic process|purine base biosynthetic process|purine ribonucleoside monophosphate biosynthetic process	cytosol	4 iron, 4 sulfur cluster binding|amidophosphoribosyltransferase activity|metal ion binding				0	Glioma(25;0.08)|all_neural(26;0.101)				L-Glutamine(DB00130)|Thioguanine(DB00352)	CCACTCTCCTGAGGCGATGCA	0.662													23	142					0	0	0.014323	0	0		C	57301585	C	C	57301585	4	2	46	1	0	0	0	0	0	1	0	0	12321	1294	45	5	1538	5	PPAT	4	57301585	Nonsense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	11037507	57301585	133852691	20	35624											
TRPC3	7222	broad.mit.edu	37	chr4	122801003	122801003	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaagttcataacgaaggctgGagatatcttgcttgatttct	12	14	9	6	1	3	2	1	1	2	1	3	4	3	2	0	2	2	3	0	2	4	6			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr4:122801003G>T	uc003ieg.2	-	12	2728	c.2654C>A	c.(2653-2655)TCC>TAC	p.S885Y	TRPC3_uc010inr.2_Missense_Mutation_p.S757Y|TRPC3_uc003ief.2_Missense_Mutation_p.S812Y|TRPC3_uc011cgl.1_Missense_Mutation_p.S549Y	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	800	Extracellular (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						ACGAAGGCTGGAGATATCTTG	0.333													7	58					3.09899e-07	3.5417e-07	0.004482	1	0		T	122801003	T	T	122801003	3	4	46	1	0	0	0	0	1	0	0	0	16605	1174	41	5	115	5	TRPC3	4	122801003	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	65499418	122801003	68353273	21	35625											
LRBA	987	broad.mit.edu	37	chr4	151836804	151836804	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatctctccataggaagccaGctcaccattcacataacatc	13	10	4	14	0	3	0	2	0	1	0	6	1	4	1	3	1	3	1	3	1	4	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr4:151836804G>A	uc010ipj.2	-	8	1444	c.970C>T	c.(970-972)CTG>TTG	p.L324L	LRBA_uc003ilu.3_Silent_p.L324L|LRBA_uc010ipk.1_Silent_p.L243L	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	324						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TAGGAAGCCAGCTCACCATTC	0.353													3	51					0	0	0.009096	0	0		A	151836804	A	A	151836804	2	1	46	1	0	0	0	0	0	0	0	1	8949	962	34	2		2	LRBA	4	151836804	Silent	SNP	G	TCGA-BR-7196-01A-11D-2053-08	29035801	151836804	39317472	22	35626											
PLRG1	5356	broad.mit.edu	37	chr4	155461124	155461124	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtaataatttgtggttctgCagcctgacatctcactgtag	9	15	9	8	0	2	1	1	1	2	0	3	1	2	1	1	1	2	4	1	1	3	5			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr4:155461124C>A	uc003iny.2	-	11	1084	c.1021G>T	c.(1021-1023)GCA>TCA	p.A341S	PLRG1_uc003inz.2_Missense_Mutation_p.A332S	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	341	WD 4.					catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				TGTGGTTCTGCAGCCTGACAT	0.333													19	122					7.16444e-05	7.84318e-05	0.021523	1	0		A	155461124	A	A	155461124	3	1	46	1	0	0	0	0	1	0	0	0	12125	710	25	5	543	5	PLRG1	4	155461124	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	3624320	155461124	35693152	23	35627											
GUCY1A3	2982	broad.mit.edu	37	chr4	156638314	156638314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaatatattatgtctaggtgGagaccattggcgatgcctat	12	13	10	6	1	1	1	0	0	1	1	1	3	1	1	2	3	1	0	2	3	6	6			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr4:156638314G>A	uc003iov.2	+	9	2112	c.1576G>A	c.(1576-1578)GAG>AAG	p.E526K	GUCY1A3_uc010iqc.2_Missense_Mutation_p.E526K|GUCY1A3_uc003iow.2_Missense_Mutation_p.E526K|GUCY1A3_uc010iqd.2_Missense_Mutation_p.E525K|GUCY1A3_uc003iox.2_Missense_Mutation_p.E526K|GUCY1A3_uc003ioz.2_Missense_Mutation_p.E291K|GUCY1A3_uc003ioy.2_Missense_Mutation_p.E526K|GUCY1A3_uc010iqe.2_Missense_Mutation_p.E291K|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.E526K	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	526	Guanylate cyclase.				blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		TGTCTAGGTGGAGACCATTGG	0.408													17	98					0	0	0.01892	0	0		A	156638314	A	A	156638314	3	1	46	1	0	0	0	0	1	0	0	0	6910	1175	41	4	1613	4	GUCY1A3	4	156638314	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	1177190	156638314	34515962	24	35628											
TRIML2	205860	broad.mit.edu	37	chr4	189012674	189012674	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaattgtaaatgagggaCatctcggtcacattgtagaa	15	10	11	5	1	2	3	1	1	1	2	3	5	2	4	0	2	0	2	0	2	5	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr4:189012674C>A	uc003izl.2	-	7	1053	c.1017G>T	c.(1015-1017)ATG>ATT	p.M339I	TRIML2_uc003izj.1_Missense_Mutation_p.M167I|TRIML2_uc003izk.1_Missense_Mutation_p.M147I|TRIML2_uc011cle.1_Missense_Mutation_p.M414I	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	339	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		AAATGAGGGACATCTCGGTCA	0.493													9	123					1.08611e-07	1.25506e-07	0.010729	1	0		A	189012674	A	A	189012674	3	1	46	1	0	0	0	0	1	0	0	0	16577	478	17	5	150	5	TRIML2	4	189012674	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	32374360	189012674	2141602	25	35629											
PTGER4	5734	broad.mit.edu	37	chr5	40692250	40692250	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatggccttggaggcaggAatttgcttccaggtgtgcct	9	11	13	8	0	0	0	0	0	0	0	1	2	1	2	3	5	2	2	3	5	3	3			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr5:40692250A>C	uc003jlz.2	+	3	1829	c.1237A>C	c.(1237-1239)AAT>CAT	p.N413H		NM_000958	NP_000949	P35408	PE2R4_HUMAN	prostaglandin E receptor 4, subtype EP4	413	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|immune response	integral to membrane|plasma membrane	prostaglandin E receptor activity			lung(2)	2						TGGAGGCAGGAATTTGCTTCC	0.557													16	49					0	0	0.004007	0	0		C	40692250	C	C	40692250	3	2	46	1	0	0	0	0	1	0	0	0	12768	246	9	5	1243	5	PTGER4	5	40692250	Missense_Mutation	SNP	A	TCGA-BR-7196-01A-11D-2053-08		40692250	140223010	26	35630											
HCN1	348980	broad.mit.edu	37	chr5	45695943	45695943	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactgccgccggggcccctCggcgtcttcgaagccccccg	3	6	13	19	6	1	0	0	0	1	0	3	1	1	0	7	3	3	1	7	3	2	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr5:45695943C>A	uc003jok.2	-	1	278	c.253G>T	c.(253-255)GAG>TAG	p.E85*		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	85	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CGGGGCCCCTCGGCGTCTTCG	0.502													5	29					1.024e-07	1.19658e-07	0.014758	1	0		A	45695943	A	A	45695943	4	1	46	1	0	0	0	0	0	1	0	0	7012	893	31	5	2451	5	HCN1	5	45695943	Nonsense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	5003693	45695943	135219317	27	35631											
IPO11	51194	broad.mit.edu	37	chr5	61857028	61857028	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggacaacattacccagccTgaaagaagaaaactttcagc	17	7	7	10	0	1	3	1	1	0	2	1	4	1	4	2	1	5	0	2	1	6	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr5:61857028T>A	uc003jtc.2	+	27	2716	c.2526T>A	c.(2524-2526)CCT>CCA	p.P842P	IPO11_uc011cqr.1_Silent_p.P882P|IPO11_uc003jtd.1_RNA|IPO11_uc010iwr.2_Silent_p.P107P	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	842	HEAT 13.					cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		TTACCCAGCCTGAAAGAAGAA	0.383													11	30					0	0	0.010729	0	0		A	61857028	A	A	61857028	2	1	46	1	0	0	0	0	0	0	0	1	7809	1567	55	5		5	IPO11	5	61857028	Silent	SNP	T	TCGA-BR-7196-01A-11D-2053-08	16161085	61857028	119058232	28	35632											
TTBK1	84630	broad.mit.edu	37	chr6	43251528	43251528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacaaactcactgcccaatgGcccggcccttgcagacgggc	9	5	10	17	2	1	1	1	0	0	1	1	1	1	1	3	3	3	1	3	3	2	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr6:43251528G>A	uc003ouq.1	+	14	3329	c.3050G>A	c.(3049-3051)GGC>GAC	p.G1017D		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	1017						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			CTGCCCAATGGCCCGGCCCTT	0.667													10	59					0	0	0.013537	0	0		A	43251528	A	A	43251528	3	1	46	1	0	0	0	0	1	0	0	0	16702	1203	42	2	3100	2	TTBK1	6	43251528	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08		43251528	127863539	29	35633											
LRRC1	55227	broad.mit.edu	37	chr6	53785539	53785539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatttgtggaggatgagaaaGatgaagaagacaatgagacg	17	7	15	2	1	0	6	0	3	0	5	0	11	0	8	0	2	0	0	0	2	4	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr6:53785539G>A	uc003pcd.1	+	13	1673	c.1396G>A	c.(1396-1398)GAT>AAT	p.D466N		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	466						cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		GGATGAGAAAGATGAAGAAGA	0.418													8	58					0	0	0.006214	0	0		A	53785539	A	A	53785539	3	1	46	1	0	0	0	0	1	0	0	0	8984	942	33	4	1446	4	LRRC1	6	53785539	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	10534011	53785539	117329528	30	35634											
PRDM1	639	broad.mit.edu	37	chr6	106553508	106553508	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaggtgcttgtcccggcGccccacagtgccttctcctt	4	10	12	15	2	1	0	0	0	1	0	3	1	2	1	5	3	2	1	5	3	0	3			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr6:106553508G>A	uc003prd.2	+	5	1707	c.1473G>A	c.(1471-1473)GCG>GCA	p.A491A	PRDM1_uc003pre.2_Silent_p.A357A	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	491					negative regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(54)|ovary(1)|skin(1)	56	Breast(9;0.022)	all_cancers(87;2.2e-31)|all_epithelial(87;2.03e-21)|Acute lymphoblastic leukemia(125;4.99e-11)|all_lung(197;7.55e-09)|all_hematologic(75;5.82e-08)|Lung NSC(302;1.28e-06)|Colorectal(196;0.0112)|Ovarian(999;0.0365)		all cancers(137;1.83e-46)|Epithelial(106;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(136;1.99e-20)|GBM - Glioblastoma multiforme(226;3.72e-11)|BRCA - Breast invasive adenocarcinoma(108;1.38e-05)		TTGTCCCGGCGCCCCACAGTG	0.682			D|N|Mis|F|S		DLBCL								9	48					0	0	0.008291	0	0		A	106553508	A	A	106553508	2	1	46	1	0	0	0	0	0	0	0	1	12472	1074	38	1		1	PRDM1	6	106553508	Silent	SNP	G	TCGA-BR-7196-01A-11D-2053-08	52767969	106553508	64561559	31	35635											
ROS1	6098	broad.mit.edu	37	chr6	117641088	117641088	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagatgtccactgctgttccTtcatacacttctccaaaggc	10	12	6	13	0	2	1	1	0	1	1	5	1	4	1	3	1	2	2	3	1	3	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr6:117641088T>C	uc003pxp.1	-	36	6082	c.5883A>G	c.(5881-5883)GAA>GAG	p.E1961E	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Silent_p.E287E	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1961	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		CTGCTGTTCCTTCATACACTT	0.448			T	GOPC|ROS1	glioblastoma|NSCLC								10	111					0	0	0.016723	0	0		C	117641088	C	C	117641088	2	2	46	1	0	0	0	0	0	0	0	1	13556	1606	56	3		3	ROS1	6	117641088	Silent	SNP	T	TCGA-BR-7196-01A-11D-2053-08	11087580	117641088	53473979	32	35636											
ESR1	2099	broad.mit.edu	37	chr6	152420094	152420094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagagggtttccctgccaCggtctgagagctccctggct	5	9	14	13	1	1	2	0	1	1	2	3	3	3	2	3	4	2	4	3	4	0	1	rs138891155	byFrequency	TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr6:152420094C>T	uc003qom.3	+	10	2151	c.1781C>T	c.(1780-1782)ACG>ATG	p.T594M	ESR1_uc010kin.2_Missense_Mutation_p.T594M|ESR1_uc010kio.2_Missense_Mutation_p.T596M|ESR1_uc010kip.2_Missense_Mutation_p.T593M|ESR1_uc003qon.3_Missense_Mutation_p.T594M|ESR1_uc003qoo.3_Missense_Mutation_p.T594M|ESR1_uc010kiq.2_Missense_Mutation_p.T192M|ESR1_uc010kir.2_Missense_Mutation_p.T333M|ESR1_uc011eet.1_RNA|ESR1_uc011eeu.1_RNA|ESR1_uc011eev.1_Missense_Mutation_p.T179M|ESR1_uc011eew.1_3'UTR|ESR1_uc011eex.1_Missense_Mutation_p.T269M|ESR1_uc011eey.1_3'UTR	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	594	Interaction with AKAP13.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	TTCCCTGCCACGGTCTGAGAG	0.537													11	33					0	0	0.016723	0	0		T	152420094	T	T	152420094	3	4	46	1	0	0	0	0	1	0	0	0	5264	536	19	1	1811	1	ESR1	6	152420094	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	34779006	152420094	18694973	33	35637											
FNDC1	84624	broad.mit.edu	37	chr6	159636057	159636057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgttgcgtggaaggcaccaCgcctgtctggagccaagagt	8	7	14	12	3	1	1	0	0	1	1	1	3	1	3	4	3	2	2	4	3	2	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr6:159636057C>T	uc010kjv.2	+	5	741	c.541C>T	c.(541-543)CGC>TGC	p.R181C	FNDC1_uc010kjw.1_Missense_Mutation_p.R129C	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	181	Fibronectin type-III 2.					extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		GAAGGCACCACGCCTGTCTGG	0.562													8	66					0	0	0.004482	0	0		T	159636057	T	T	159636057	3	4	46	1	0	0	0	0	1	0	0	0	5982	536	19	1	559	1	FNDC1	6	159636057	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	7215963	159636057	11479010	34	35638											
ZMIZ2	83637	broad.mit.edu	37	chr7	44797586	44797586	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcccccttggctatgaaccCcacccgggcagcaggaatga	9	6	10	16	1	0	2	0	2	0	0	1	3	1	3	5	3	2	3	5	3	3	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr7:44797586C>G	uc003tlr.2	+	6	815	c.692C>G	c.(691-693)CCC>CGC	p.P231R	ZMIZ2_uc003tlq.2_Missense_Mutation_p.P199R|ZMIZ2_uc003tls.2_Missense_Mutation_p.P231R|ZMIZ2_uc003tlt.2_5'Flank|ZMIZ2_uc010kyj.2_5'Flank	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	231	Pro-rich.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						GCTATGAACCCCACCCGGGCA	0.667													4	73					0	0	0.001168	0	0		G	44797586	G	G	44797586	3	3	46	1	0	0	0	0	1	0	0	0	17722	623	22	5	710	5	ZMIZ2	7	44797586	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08		44797586	114341077	35	35639											
OR2F2	135948	broad.mit.edu	37	chr7	143632812	143632812	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgtgcagactgctatcAcctttcagctgcccatgtgc	6	13	8	14	0	3	1	2	0	1	1	3	1	3	1	2	0	5	3	2	0	1	3			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr7:143632812A>C	uc011ktv.1	+	1	487	c.487A>C	c.(487-489)ACC>CCC	p.T163P		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	163	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					GACTGCTATCACCTTTCAGCT	0.522													6	114					0	0	0.004482	0	0		C	143632812	C	C	143632812	3	2	46	1	0	0	0	0	1	0	0	0	11016	159	6	5	489	5	OR2F2	7	143632812	Missense_Mutation	SNP	A	TCGA-BR-7196-01A-11D-2053-08	98835226	143632812	15505851	36	35640											
MYC	4609	broad.mit.edu	37	chr8	128753034	128753034	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcgtgaccagatcccggagTtggaaaacaatgaaaaggcc	14	6	12	9	2	0	3	0	2	0	1	1	5	1	5	3	3	2	1	3	3	5	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr8:128753034T>G	uc003ysi.2	+	3	1720	c.1195T>G	c.(1195-1197)TTG>GTG	p.L399V		NM_002467	NP_002458	P01106	MYC_HUMAN	myc proto-oncogene protein	384	Helix-loop-helix motif.				branching involved in ureteric bud morphogenesis|cell cycle arrest|cell proliferation|cellular iron ion homeostasis|positive regulation of metanephric cap mesenchymal cell proliferation|positive regulation of transcription, DNA-dependent|regulation of telomere maintenance|regulation of transcription from RNA polymerase II promoter|response to drug	nucleolus|nucleoplasm	E-box binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(3)|ovary(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(1;6.19e-134)|all_epithelial(1;1.75e-119)|all_lung(1;5.66e-51)|Breast(1;1.08e-22)|all_neural(1;4.45e-21)|Medulloblastoma(1;1.88e-20)|Colorectal(1;1.92e-09)|Lung SC(1;4.52e-07)|Ovarian(5;0.000122)|Esophageal squamous(12;0.000995)|Renal(1;0.0921)|Hepatocellular(40;0.108)|Myeloproliferative disorder(2;0.135)|Melanoma(291;0.185)	Myeloproliferative disorder(644;0.0255)|Ovarian(118;0.0654)|Breast(495;0.212)|Acute lymphoblastic leukemia(644;0.22)	Epithelial(1;1.63e-94)|all cancers(1;5.82e-87)|OV - Ovarian serous cystadenocarcinoma(1;2.12e-71)|BRCA - Breast invasive adenocarcinoma(1;4.3e-14)|Lung(2;0.000381)|Colorectal(2;0.0102)|LUAD - Lung adenocarcinoma(14;0.0172)|READ - Rectum adenocarcinoma(2;0.0723)|LUSC - Lung squamous cell carcinoma(258;0.151)	KIRC - Kidney renal clear cell carcinoma(542;0.248)		GATCCCGGAGTTGGAAAACAA	0.498		3	A|T	IGK@|BCL5|BCL7A |BTG1|TRA@|IGH@	Burkitt lymphoma| amplified in other cancers|B-CLL								7	185					0	0	0.00308	0	0		G	128753034	G	G	128753034	3	3	46	1	0	0	0	0	1	0	0	0	10034	1722	60	5	1205	5	MYC	8	128753034	Missense_Mutation	SNP	T	TCGA-BR-7196-01A-11D-2053-08		128753034	17610988	37	35641											
C9orf93	203238	broad.mit.edu	37	chr9	15920398	15920398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcacacagcttgtttacGtgaaaatgcaagtttacaat	14	13	6	8	1	1	1	1	1	0	0	1	1	1	1	0	0	4	4	0	0	6	6			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr9:15920398G>A	uc003zmd.2	+	25	4046	c.3731G>A	c.(3730-3732)CGT>CAT	p.R1244H	C9orf93_uc003zme.2_Missense_Mutation_p.R1159H|C9orf93_uc011lmu.1_Missense_Mutation_p.R1252H	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	1244											0				GBM - Glioblastoma multiforme(50;4.84e-07)		GCTTGTTTACGTGAAAATGCA	0.328													10	83					0	0	0.010729	0	0		A	15920398	A	A	15920398	3	1	46	1	0	0	0	0	1	0	0	0	2509	1145	40	1	3825	1	C9orf93	9	15920398	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08		15920398	125293033	38	35642											
PPP6C	5537	broad.mit.edu	37	chr9	127920613	127920613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttagcctttaatgcaagaaGgtaagtgaaggtctccaaac	14	11	9	7	0	1	2	0	1	1	1	2	2	1	2	2	2	3	2	2	2	7	5			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr9:127920613G>A	uc004bpg.3	-	4	507	c.286C>T	c.(286-288)CTT>TTT	p.L96F	PPP6C_uc010mwv.2_Missense_Mutation_p.L133F|PPP6C_uc010mww.2_Missense_Mutation_p.L74F|PPP6C_uc011lzr.1_Intron	NM_002721	NP_002712	O00743	PPP6_HUMAN	protein phosphatase 6, catalytic subunit isoform	96					G1/S transition of mitotic cell cycle|protein dephosphorylation	cytosol	metal ion binding|protein binding|protein serine/threonine phosphatase activity			ovary(1)|skin(1)	2						AATGCAAGAAGGTAAGTGAAG	0.358													17	144					0	0	0.007413	0	0		A	127920613	A	A	127920613	3	1	46	1	0	0	0	0	1	0	0	0	12429	1000	35	4	647	4	PPP6C	9	127920613	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	112000215	127920613	13292818	39	35643											
MYO3A	53904	broad.mit.edu	37	chr10	26482184	26482184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagacccccaagacgacccCggaaacccaaaacattaaat	17	4	6	14	2	0	2	0	1	0	2	0	5	0	3	5	1	2	0	5	1	6	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr10:26482184C>T	uc001isn.2	+	32	4849	c.4489C>T	c.(4489-4491)CGG>TGG	p.R1497W	MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1497					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						AAGACGACCCCGGAAACCCAA	0.378													6	36					0	0	0.00308	0	0		T	26482184	T	T	26482184	3	4	46	1	0	0	0	0	1	0	0	0	10094	643	23	1	4607	1	MYO3A	10	26482184	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08		26482184	109052563	40	35644											
PANK1	53354	broad.mit.edu	37	chr10	91371722	91371722	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttctccacttcctcttgctCctcttcggctgtaatatcct	4	17	5	15	1	3	0	0	0	3	0	8	0	6	0	4	1	1	4	4	1	2	6			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr10:91371722C>A	uc001kgp.1	-	2	943	c.787G>T	c.(787-789)GAG>TAG	p.E263*	PANK1_uc001kgn.1_Nonsense_Mutation_p.E38*|PANK1_uc001kgo.1_Nonsense_Mutation_p.E38*|PANK1_uc009xtu.1_Nonsense_Mutation_p.E65*	NM_148977	NP_683878	Q8TE04	PANK1_HUMAN	pantothenate kinase 1 isoform alpha	263					coenzyme A biosynthetic process|pantothenate metabolic process	cytosol|nucleus	ATP binding|pantothenate kinase activity				0					Bezafibrate(DB01393)	TCCTCTTGCTCCTCTTCGGCT	0.468													9	93					3.86212e-05	4.31893e-05	0.008291	1	0		A	91371722	A	A	91371722	4	1	46	1	0	0	0	0	0	1	0	0	11435	864	30	5	1033	5	PANK1	10	91371722	Nonsense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	64889538	91371722	44163025	41	35645											
CTNND1	1500	broad.mit.edu	37	chr11	57575682	57575682	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggttcggatatacatctCacttcttaaggagagcaaga	12	11	11	7	1	2	2	1	0	2	2	4	4	2	3	0	4	2	2	0	4	4	5			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr11:57575682C>A	uc001nmc.3	+	13	2580	c.2009C>A	c.(2008-2010)TCA>TAA	p.S670*	CTNND1_uc001nlh.1_Nonsense_Mutation_p.S670*|CTNND1_uc001nlu.3_Nonsense_Mutation_p.S563*|CTNND1_uc001nlt.3_Nonsense_Mutation_p.S563*|CTNND1_uc001nls.3_Nonsense_Mutation_p.S563*|CTNND1_uc001nlw.3_Nonsense_Mutation_p.S563*|CTNND1_uc001nmf.3_Nonsense_Mutation_p.S670*|CTNND1_uc001nmd.3_Nonsense_Mutation_p.S616*|CTNND1_uc001nlk.3_Nonsense_Mutation_p.S616*|CTNND1_uc001nme.3_Nonsense_Mutation_p.S664*|CTNND1_uc001nll.3_Nonsense_Mutation_p.S610*|CTNND1_uc001nmg.3_Nonsense_Mutation_p.S610*|CTNND1_uc001nlj.3_Nonsense_Mutation_p.S610*|CTNND1_uc001nlr.3_Nonsense_Mutation_p.S610*|CTNND1_uc001nlp.3_Nonsense_Mutation_p.S610*|CTNND1_uc001nlx.3_Nonsense_Mutation_p.S347*|CTNND1_uc001nlz.3_Nonsense_Mutation_p.S347*|CTNND1_uc009ymn.2_Nonsense_Mutation_p.S341*|CTNND1_uc001nlm.3_Nonsense_Mutation_p.S664*|CTNND1_uc001nly.3_Nonsense_Mutation_p.S341*|CTNND1_uc001nmb.3_Nonsense_Mutation_p.S341*|CTNND1_uc001nma.3_Nonsense_Mutation_p.S341*|CTNND1_uc001nmi.3_Nonsense_Mutation_p.S569*|CTNND1_uc001nmh.3_Nonsense_Mutation_p.S664*|CTNND1_uc001nlq.3_Nonsense_Mutation_p.S569*|CTNND1_uc001nln.3_Nonsense_Mutation_p.S664*|CTNND1_uc001nli.3_Nonsense_Mutation_p.S664*|CTNND1_uc001nlo.3_Nonsense_Mutation_p.S563*|CTNND1_uc001nlv.3_Nonsense_Mutation_p.S563*	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	670	ARM 7.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				ATATACATCTCACTTCTTAAG	0.483													4	30					3.59834e-05	4.06768e-05	0.001168	1	0		A	57575682	A	A	57575682	4	1	46	1	0	0	0	0	0	1	0	0	4022	838	29	5	2051	5	CTNND1	11	57575682	Nonsense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08		57575682	77430834	42	35646											
WNK1	65125	broad.mit.edu	37	chr12	939261	939261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggatgtgcatgcttgagatgGctacatctgaatatccttac	10	13	10	8	0	1	2	0	2	1	1	2	4	2	3	1	2	4	3	1	2	4	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr12:939261G>A	uc001qio.3	+	4	1753	c.1246G>A	c.(1246-1248)GCT>ACT	p.A416T	WNK1_uc001qip.3_Missense_Mutation_p.A416T	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	416	Protein kinase.				intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GCTTGAGATGGCTACATCTGA	0.458													13	56					0	0	0.003163	0	0		A	939261	A	A	939261	3	1	46	1	0	0	0	0	1	0	0	0	17403	1203	42	2	1260	2	WNK1	12	939261	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08		939261	132912634	43	35647											
CD163	9332	broad.mit.edu	37	chr12	7651576	7651576	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgcatataagatcatcaaaCcagattggtccagagccttc	13	11	7	10	0	2	3	2	0	0	3	4	3	3	3	3	1	3	1	3	1	3	5			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr12:7651576C>G	uc001qsz.3	-	4	794	c.666G>C	c.(664-666)TGG>TGC	p.W222C	CD163_uc001qta.3_Missense_Mutation_p.W222C|CD163_uc009zfw.2_Missense_Mutation_p.W222C	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	222	SRCR 2.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						GATCATCAAACCAGATTGGTC	0.428													14	160					0	0	0.004007	0	0		G	7651576	G	G	7651576	3	3	46	1	0	0	0	0	1	0	0	0	2970	508	18	5	2856	5	CD163	12	7651576	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	6712315	7651576	126200319	44	35648											
ADAMTS20	80070	broad.mit.edu	37	chr12	43771289	43771289	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggccgaagtcgatggagcTtatgtttcttagtagatggg	9	13	14	5	2	1	1	0	0	1	1	2	4	1	2	1	3	1	3	1	3	5	5			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr12:43771289T>G	uc010skx.1	-	32	4874	c.4874A>C	c.(4873-4875)AAG>ACG	p.K1625T		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1625	TSP type-1 14.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TCGATGGAGCTTATGTTTCTT	0.403													5	35					0	0	0.014758	0	0		G	43771289	G	G	43771289	3	3	46	1	0	0	0	0	1	0	0	0	266	1609	56	5	889	5	ADAMTS20	12	43771289	Missense_Mutation	SNP	T	TCGA-BR-7196-01A-11D-2053-08	36119713	43771289	90080606	45	35649											
MON2	23041	broad.mit.edu	37	chr12	62943575	62943575	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctttggcctccataaccaaGaactcaatattagtttaact	13	13	5	10	0	1	1	1	0	0	1	2	1	2	1	3	1	3	2	3	1	7	6			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr12:62943575G>C	uc001sre.2	+	23	3272	c.2881G>C	c.(2881-2883)GAA>CAA	p.E961Q	MON2_uc009zqj.2_Missense_Mutation_p.E961Q|MON2_uc010ssl.1_Missense_Mutation_p.E889Q|MON2_uc010ssm.1_Missense_Mutation_p.E938Q|MON2_uc010ssn.1_Missense_Mutation_p.E961Q|MON2_uc001srf.2_Missense_Mutation_p.E724Q	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	962					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		CCATAACCAAGAACTCAATAT	0.343													5	58					0	0	0.014758	0	0		C	62943575	C	C	62943575	3	2	46	1	0	0	0	0	1	0	0	0	9718	943	33	5	2971	5	MON2	12	62943575	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	19172286	62943575	70908320	46	35650											
BTBD11	121551	broad.mit.edu	37	chr12	108010928	108010928	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggcgaggagaactactcGgaaacacccctccagctggc	11	5	11	14	2	0	1	0	0	0	1	2	4	1	2	3	4	4	1	3	4	3	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr12:108010928G>A	uc001tmk.1	+	8	2585	c.2064G>A	c.(2062-2064)TCG>TCA	p.S688S	BTBD11_uc009zut.1_Silent_p.S688S|BTBD11_uc001tmj.2_Silent_p.S688S|BTBD11_uc001tml.1_Silent_p.S225S	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	688	ANK 3.					integral to membrane	DNA binding			skin(2)|ovary(1)	3						AGAACTACTCGGAAACACCCC	0.617													13	77					0	0	0.020292	0	0		A	108010928	A	A	108010928	2	1	46	1	0	0	0	0	0	0	0	1	1542	1103	39	1		1	BTBD11	12	108010928	Silent	SNP	G	TCGA-BR-7196-01A-11D-2053-08	45067353	108010928	25840967	47	35651											
CCDC60	160777	broad.mit.edu	37	chr12	119926657	119926657	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgaagcctgtgatcacCtgctggaacccaaagtatgc	12	8	9	12	0	1	2	1	2	0	0	1	3	1	3	4	1	4	2	4	1	4	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr12:119926657C>T	uc001txe.2	+	5	1008	c.543C>T	c.(541-543)ACC>ACT	p.T181T	uc001txf.2_Intron	NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60	181										ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		CTGTGATCACCTGCTGGAACC	0.547													19	92					0	0	0.014323	0	0		T	119926657	T	T	119926657	2	4	46	1	0	0	0	0	0	0	0	1	2834	668	24	4		4	CCDC60	12	119926657	Silent	SNP	C	TCGA-BR-7196-01A-11D-2053-08	11915729	119926657	13925238	48	35652											
HNF1A	6927	broad.mit.edu	37	chr12	121435302	121435302	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccacgcaggcacagagTgtgccggtcatcaacagcat	10	6	11	14	2	2	1	2	0	0	1	3	1	3	1	3	2	3	3	3	2	1	0			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr12:121435302T>G	uc001tzg.2	+	7	1358	c.1335T>G	c.(1333-1335)AGT>AGG	p.S445R	HNF1A_uc001tzf.2_Missense_Mutation_p.S445R|HNF1A_uc010szn.1_Missense_Mutation_p.S445R	NM_000545	NP_000536	P20823	HNF1A_HUMAN	hepatic nuclear factor-1-alpha	445					glucose homeostasis|glucose import|insulin secretion|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|renal glucose absorption	cytoplasm|nucleus|protein complex	DNA binding|protein dimerization activity|protein heterodimerization activity|protein homodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			liver(92)|large_intestine(15)|endometrium(6)|breast(2)|lung(1)	116	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					AGGCACAGAGTGTGCCGGTCA	0.662									Hepatic_Adenoma_Familial_Clustering_of				3	39					0	0	0.014758	0	0		G	121435302	G	G	121435302	3	3	46	1	0	0	0	0	1	0	0	0	7267	1693	59	5	1361	5	HNF1A	12	121435302	Missense_Mutation	SNP	T	TCGA-BR-7196-01A-11D-2053-08	1508645	121435302	12416593	49	35653											
FRY	10129	broad.mit.edu	37	chr13	32653026	32653026	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttccacctgcttctggcacGcacagggagaaagggccgcc	8	6	13	14	2	1	1	0	0	1	1	2	2	2	1	4	3	1	4	4	3	1	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr13:32653026G>A	uc001utx.2	+	2	622	c.126G>A	c.(124-126)ACG>ACA	p.T42T	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	42					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CTTCTGGCACGCACAGGGAGA	0.478													4	275					0	0	0.014758	0	0		A	32653026	A	A	32653026	2	1	46	1	0	0	0	0	0	0	0	1	6077	1074	38	1		1	FRY	13	32653026	Silent	SNP	G	TCGA-BR-7196-01A-11D-2053-08		32653026	82516852	50	35654											
SLITRK5	26050	broad.mit.edu	37	chr13	88328641	88328641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccctttgaagccccctaaggGgactcgccaacccaacaagc	11	5	8	17	1	0	1	0	1	0	0	1	2	0	2	5	2	4	0	5	2	5	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr13:88328641G>A	uc001vln.2	+	2	1217	c.998G>A	c.(997-999)GGG>GAG	p.G333E	SLITRK5_uc010tic.1_Missense_Mutation_p.G92E	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	333	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CCCCCTAAGGGGACTCGCCAA	0.587													10	98					0	0	0.020292	0	0		A	88328641	A	A	88328641	3	1	46	1	0	0	0	0	1	0	0	0	14771	1232	43	4	1000	4	SLITRK5	13	88328641	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	55675615	88328641	26841237	51	35655											
TEP1	7011	broad.mit.edu	37	chr14	20852247	20852247	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccgtcaccaggctcagccTtccgtggggcagcatcagcc	6	6	11	18	2	3	0	3	0	0	0	4	0	4	0	6	3	3	3	6	3	0	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr14:20852247T>C	uc001vxe.2	-	24	3524	c.3484A>G	c.(3484-3486)AGG>GGG	p.R1162G	TEP1_uc010ahk.2_Missense_Mutation_p.R512G|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.R1054G|TEP1_uc010tlh.1_5'Flank	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1162	NACHT.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		AGGCTCAGCCTTCCGTGGGGC	0.652													10	50					0	0	0.010729	0	0		C	20852247	C	C	20852247	3	2	46	1	0	0	0	0	1	0	0	0	15784	1608	56	3	4527	3	TEP1	14	20852247	Missense_Mutation	SNP	T	TCGA-BR-7196-01A-11D-2053-08		20852247	86497293	52	35656											
CLEC14A	161198	broad.mit.edu	37	chr14	38724436	38724436	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcaaagcctcccaagtcGtctaggcagttagggagctc	10	7	12	12	1	1	0	0	0	1	0	4	1	2	1	2	3	2	4	2	3	4	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr14:38724436G>A	uc001wum.1	-	1	1139	c.792C>T	c.(790-792)GAC>GAT	p.D264D		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	264	Extracellular (Potential).|EGF-like.					integral to membrane	sugar binding			ovary(3)|skin(1)	4	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00439)		CTCCCAAGTCGTCTAGGCAGT	0.637													10	161					0	0	0.010729	0	0		A	38724436	A	A	38724436	2	1	46	1	0	0	0	0	0	0	0	1	3502	1136	40	1		1	CLEC14A	14	38724436	Silent	SNP	G	TCGA-BR-7196-01A-11D-2053-08	17872189	38724436	68625104	53	35657											
HSP90AA1	3320	broad.mit.edu	37	chr14	102551035	102551035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caccttcactgccaagtgatCttcccagtcattggtcaagc	9	11	7	14	0	4	1	3	1	1	0	5	1	5	1	3	1	2	0	3	1	2	3			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr14:102551035C>T	uc001yku.3	-	5	1154	c.964G>A	c.(964-966)GAT>AAT	p.D322N	HSP90AA1_uc001ykv.3_Missense_Mutation_p.D444N|HSP90AA1_uc001ykw.1_Missense_Mutation_p.D143N|HSP90AA1_uc001ykx.1_Missense_Mutation_p.D311N	NM_005348	NP_005339	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 2	322					axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	GCCAAGTGATCTTCCCAGTCA	0.428													10	135					0	0	0.013537	0	0		T	102551035	T	T	102551035	3	4	46	1	0	0	0	0	1	0	0	0	7417	913	32	4	1262	4	HSP90AA1	14	102551035	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	63826599	102551035	4798505	54	35658											
AHNAK2	113146	broad.mit.edu	37	chr14	105415147	105415147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcacgtccacctggccaGcctggaccttcacgtcggcg	5	9	11	16	4	2	0	2	0	0	0	4	1	3	1	5	3	1	1	5	3	0	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr14:105415147G>A	uc010axc.1	-	7	6761	c.6641C>T	c.(6640-6642)GCT>GTT	p.A2214V	AHNAK2_uc001ypx.2_Missense_Mutation_p.A2114V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2214						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CACCTGGCCAGCCTGGACCTT	0.637													10	105					0	0	0.008291	0	0		A	105415147	A	A	105415147	3	1	46	1	0	0	0	0	1	0	0	0	415	971	34	2	10750	2	AHNAK2	14	105415147	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	2864112	105415147	1934393	55	35659											
ABCA3	21	broad.mit.edu	37	chr16	2326738	2326738	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaggaagacctgttccagCgagatctggctcacggagta	10	8	12	11	2	3	2	2	0	1	2	4	5	4	4	2	3	1	3	2	3	2	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr16:2326738C>T	uc002cpy.1	-	33	5764	c.5052G>A	c.(5050-5052)TCG>TCA	p.S1684S	ABCA3_uc010bsk.1_Silent_p.S1626S	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1684					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				CCTGTTCCAGCGAGATCTGGC	0.597													3	63					0	0	0.004672	0	0		T	2326738	T	T	2326738	2	4	46	1	0	0	0	0	0	0	0	1	33	755	27	1		1	ABCA3	16	2326738	Silent	SNP	C	TCGA-BR-7196-01A-11D-2053-08		2326738	88028015	56	35660											
ABCA3	21	broad.mit.edu	37	chr16	2331442	2331442	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagtccggactgggggccagGatgcgggtcctctcgtccgc	4	7	17	13	4	1	0	0	0	1	0	5	3	4	2	4	5	1	0	4	5	0	0			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr16:2331442G>A	uc002cpy.1	-	27	4816	c.4104C>T	c.(4102-4104)ATC>ATT	p.I1368I	ABCA3_uc010bsk.1_Silent_p.I1310I	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1368					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				TGGGGGCCAGGATGCGGGTCC	0.567													6	89					0	0	0.00308	0	0		A	2331442	A	A	2331442	2	1	46	1	0	0	0	0	0	0	0	1	33	1164	41	4		4	ABCA3	16	2331442	Silent	SNP	G	TCGA-BR-7196-01A-11D-2053-08	4704	2331442	88023311	57	35661											
BCL7C	9274	broad.mit.edu	37	chr16	30903924	30903924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctctctcttggcccagcCgtgggggctgagcctcctca	4	10	11	16	1	3	1	1	1	2	0	5	1	4	1	5	3	3	1	5	3	1	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr16:30903924C>T	uc002dzv.2	-	4	559	c.425G>A	c.(424-426)CGG>CAG	p.R142Q	BCL7C_uc002dzt.1_Missense_Mutation_p.R142Q|uc002dzu.2_Intron|MIR762_hsa-mir-762|MI0003892_5'Flank	NM_004765	NP_004756	Q8WUZ0	BCL7C_HUMAN	B-cell CLL/lymphoma 7C	142	Pro-rich.				apoptosis						0			Colorectal(24;0.198)			TTGGCCCAGCCGTGGGGGCTG	0.642													4	25					0	0	0.014758	0	0		T	30903924	T	T	30903924	3	4	46	1	0	0	0	0	1	0	0	0	1381	652	23	1	240	1	BCL7C	16	30903924	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	28572482	30903924	59450829	58	35662											
ARMC5	79798	broad.mit.edu	37	chr16	31476027	31476027	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaccggcgcaccgggcccGcccagcccacgtgcactgcg	5	3	14	19	6	0	1	0	1	0	0	0	1	0	1	5	2	3	2	5	2	0	0			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr16:31476027G>A	uc002ecc.2	+	4	2212	c.1683G>A	c.(1681-1683)CCG>CCA	p.P561P	ARMC5_uc010vfn.1_Silent_p.P656P|ARMC5_uc010vfo.1_Silent_p.P593P|ARMC5_uc002eca.3_Silent_p.P561P|ARMC5_uc010vfp.1_Silent_p.P369P|ARMC5_uc002ecb.2_Silent_p.P561P	NM_001105247	NP_001098717	Q96C12	ARMC5_HUMAN	armadillo repeat containing 5 isoform a	561							binding			pancreas(1)	1						CACCGGGCCCGCCCAGCCCAC	0.701													8	26					0	0	0.006214	0	0		A	31476027	A	A	31476027	2	1	46	1	0	0	0	0	0	0	0	1	955	1074	38	1		1	ARMC5	16	31476027	Silent	SNP	G	TCGA-BR-7196-01A-11D-2053-08	572103	31476027	58878726	59	35663											
COX4I1	1327	broad.mit.edu	37	chr16	85839345	85839345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctctgcccccagtgtatcGcattaagttcaaggagagct	9	11	9	12	1	2	1	1	0	1	1	4	2	2	1	2	1	2	4	2	1	3	3			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr16:85839345G>A	uc002fje.2	+	4	412	c.248G>A	c.(247-249)CGC>CAC	p.R83H	COX4I1_uc002fjf.2_3'UTR|COX4I1_uc002fjg.1_Missense_Mutation_p.R83H|COX4I1_uc010vom.1_Missense_Mutation_p.R50H	NM_001861	NP_001852	P13073	COX41_HUMAN	cytochrome c oxidase subunit IV isoform 1	83					respiratory electron transport chain	mitochondrial inner membrane|nucleus	cytochrome-c oxidase activity|protein binding			lung(1)	1		Renal(780;0.228)				CCAGTGTATCGCATTAAGTTC	0.537													3	73					0	0	0.009096	0	0		A	85839345	A	A	85839345	3	1	46	1	0	0	0	0	1	0	0	0	3772	1087	38	1	258	1	COX4I1	16	85839345	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	54363318	85839345	4515408	60	35664											
CAMKK1	84254	broad.mit.edu	37	chr17	3787704	3787704	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcactctgcagcttgtactgGttcagctgcacgcagtcctg	6	12	10	13	1	3	0	2	0	1	0	4	0	4	0	1	1	5	7	1	1	1	3			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr17:3787704G>A	uc002fwt.2	-	3	472	c.378C>T	c.(376-378)AAC>AAT	p.N126N	CAMKK1_uc002fwu.2_Silent_p.N126N|CAMKK1_uc002fwv.2_Silent_p.N126N	NM_172206	NP_757343	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase 1	126					synaptic transmission	cytosol|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity	p.N126N(1)		ovary(1)	1				LUAD - Lung adenocarcinoma(2;2.11e-05)|Lung(3;0.0176)		GCTTGTACTGGTTCAGCTGCA	0.612													13	178					0	0	0.016723	0	0		A	3787704	A	A	3787704	2	1	46	1	0	0	0	0	0	0	0	1	2609	1252	44	4		4	CAMKK1	17	3787704	Silent	SNP	G	TCGA-BR-7196-01A-11D-2053-08		3787704	77407506	61	35665											
RNF167	26001	broad.mit.edu	37	chr17	4848302	4848302	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cctccctcttcccctgttatCctggtctaataaccccccac	6	12	3	20	0	2	0	0	0	2	0	5	0	5	0	8	1	1	1	8	1	3	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr17:4848302C>G	uc002fzq.2	+	11	1460	c.1044C>G	c.(1042-1044)ATC>ATG	p.I348M	RNF167_uc002fzr.2_Missense_Mutation_p.I348M|RNF167_uc002fzs.2_Missense_Mutation_p.I348M|RNF167_uc002fzt.2_Missense_Mutation_p.I348M|RNF167_uc002fzu.2_Missense_Mutation_p.I347M|RNF167_uc002fzv.2_Missense_Mutation_p.I313M|RNF167_uc002fzx.2_Missense_Mutation_p.I312M|RNF167_uc002fzy.2_Missense_Mutation_p.I147M	NM_015528	NP_056343	Q9H6Y7	RN167_HUMAN	ring finger protein 167 precursor	348					negative regulation of cell cycle|protein polyubiquitination	cytoplasm|endomembrane system|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						CCCCTGTTATCCTGGTCTAAT	0.552													11	188					0	0	0.016723	0	0		G	4848302	G	G	4848302	3	3	46	1	0	0	0	0	1	0	0	0	13483	845	30	5	1078	5	RNF167	17	4848302	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	1060598	4848302	76346908	62	35666											
CCR7	1236	broad.mit.edu	37	chr17	38711207	38711207	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaggctgtaggtgacgtcGtaggcgatgttgagttgctt	6	12	16	7	3	0	2	0	2	0	0	1	3	0	2	1	3	1	6	1	3	2	5	rs116263918	byFrequency	TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr17:38711207G>A	uc002huw.2	-	3	987	c.924C>T	c.(922-924)TAC>TAT	p.Y308Y		NM_001838	NP_001829	P32248	CCR7_HUMAN	chemokine (C-C motif) receptor 7 precursor	308	Extracellular (Potential).				cell maturation|immunological synapse formation|inflammatory response|interleukin-12 secretion|lymphocyte migration into lymph node|positive regulation of dendritic cell antigen processing and presentation|positive regulation of glycoprotein biosynthetic process|positive regulation of humoral immune response|positive regulation of hypersensitivity|positive regulation of interleukin-12 production|positive regulation of neutrophil chemotaxis|regulation of interferon-gamma production|regulation of interleukin-1 beta secretion|T cell costimulation	integral to membrane|intracellular	C-C chemokine receptor activity|chemokine (C-C motif) ligand 19 binding|chemokine (C-C motif) ligand 21 binding			breast(1)	1		Breast(137;0.000496)				AGGTGACGTCGTAGGCGATGT	0.567													15	50					0	0	0.00499	0	0		A	38711207	A	A	38711207	2	1	46	1	0	0	0	0	0	0	0	1	2949	1140	40	1		1	CCR7	17	38711207	Silent	SNP	G	TCGA-BR-7196-01A-11D-2053-08	33862905	38711207	42484003	63	35667											
BCAS3	54828	broad.mit.edu	37	chr17	59155713	59155713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgaaattgtaacacacaCtggaccccatagacgtctgt	12	10	9	10	1	1	2	0	1	1	1	1	3	1	3	2	2	1	2	2	2	3	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr17:59155713C>T	uc002iyv.3	+	22	2304	c.2195C>T	c.(2194-2196)ACT>ATT	p.T732I	BCAS3_uc002iyu.3_Missense_Mutation_p.T717I|BCAS3_uc002iyw.3_Missense_Mutation_p.T713I|BCAS3_uc002iyy.3_Missense_Mutation_p.T488I|BCAS3_uc002iyz.3_Missense_Mutation_p.T286I|BCAS3_uc002iza.3_Missense_Mutation_p.T271I	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	732						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			GTAACACACACTGGACCCCAT	0.443													13	45					0	0	0.003163	0	0		T	59155713	T	T	59155713	3	4	46	1	0	0	0	0	1	0	0	0	1353	565	20	4	2277	4	BCAS3	17	59155713	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	20444506	59155713	22039497	64	35668											
MIB1	57534	broad.mit.edu	37	chr18	19444574	19444574	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctgtggagaccgcatgAgtgaatgtcctatctgtcgc	9	11	11	10	2	2	3	0	2	2	1	4	4	3	3	2	1	1	1	2	1	3	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr18:19444574A>T	uc002ktq.2	+	21	2968	c.2968A>T	c.(2968-2970)AGT>TGT	p.S990C	MIB1_uc002ktp.2_Missense_Mutation_p.S629C	NM_020774	NP_065825	Q86YT6	MIB1_HUMAN	mindbomb homolog 1	990	RING-type 3.				Notch signaling pathway	centrosome|nuclear membrane|plasma membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(4)	4			STAD - Stomach adenocarcinoma(5;0.212)			AGACCGCATGAGTGAATGTCC	0.408													14	108					0	0	0.00499	0	0		T	19444574	T	T	19444574	3	4	46	1	0	0	0	0	1	0	0	0	9584	304	11	5	3050	5	MIB1	18	19444574	Missense_Mutation	SNP	A	TCGA-BR-7196-01A-11D-2053-08		19444574	58632674	65	35669											
FHOD3	80206	broad.mit.edu	37	chr18	34340633	34340633	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcagggtctgagctatgcGgaggacgcggctgagcacga	8	5	17	11	5	1	2	0	2	1	0	1	5	1	4	1	4	3	4	1	4	1	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr18:34340633G>A	uc002kzt.1	+	22	4009	c.3912G>A	c.(3910-3912)GCG>GCA	p.A1304A	FHOD3_uc002kzs.1_Silent_p.A1321A|FHOD3_uc010dmz.1_Silent_p.A1036A|FHOD3_uc010dnb.1_Intron	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	1304					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				TGAGCTATGCGGAGGACGCGG	0.652													10	61					0	0	0.006214	0	0		A	34340633	A	A	34340633	2	1	46	1	0	0	0	0	0	0	0	1	5897	1103	39	1		1	FHOD3	18	34340633	Silent	SNP	G	TCGA-BR-7196-01A-11D-2053-08	14896059	34340633	43736615	66	35670											
SBNO2	22904	broad.mit.edu	37	chr19	1119967	1119967	+	Frame_Shift_Del	DEL	T	-	-																															tctgcaggtctagcacagccTtgcccatcttggtggagccg																										TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr19:1119967delT	uc002lrk.3	-	12	1443	c.1205delA	c.(1204-1206)AAGfs	p.K402fs	SBNO2_uc002lrj.3_Frame_Shift_Del_p.K345fs|SBNO2_uc010dse.2_Frame_Shift_Del_p.K395fs|SBNO2_uc010xgj.1_Frame_Shift_Del_p.K345fs|SBNO2_uc010dsf.2_Frame_Shift_Del_p.K345fs	NM_014963	NP_055778	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 isoform 1	402					macrophage activation involved in immune response|negative regulation of transcription, DNA-dependent|regulation of inflammatory response|transcription, DNA-dependent						0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TAGCACAGCCTTGCCCATCTT	0.627													2	4	---	---	---	---						.	-	1119967	-	-	1119967	7	5	46	1	0	1	0	1	0	0	0	0	13888	1609	56	0	2979	0	SBNO2	19	1119967	Frame_Shift_Del	DEL	T	TCGA-BR-7196-01A-11D-2053-08		1119967	58009016	67	35671											
UHRF1	29128	broad.mit.edu	37	chr19	4929291	4929291	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgaatgacaccatccagCtcctggtccgccagagcctc	8	7	9	17	1	0	3	0	2	0	1	4	3	3	3	7	1	2	1	7	1	1	0			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr19:4929291C>A	uc002mbo.2	+	3	379	c.211C>A	c.(211-213)CTC>ATC	p.L71I	UHRF1_uc010xik.1_Intron|UHRF1_uc010duf.2_RNA|UHRF1_uc002mbp.2_Missense_Mutation_p.L84I	NM_001048201	NP_001041666	Q96T88	UHRF1_HUMAN	ubiquitin-like with PHD and ring finger domains	71	Ubiquitin-like.				cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)		CACCATCCAGCTCCTGGTCCG	0.637													7	68					0.000157383	0.000170499	0.00308	1	0		A	4929291	A	A	4929291	3	1	46	1	0	0	0	0	1	0	0	0	16993	797	28	5	256	5	UHRF1	19	4929291	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	3809324	4929291	54199692	68	35672											
DHPS	1725	broad.mit.edu	37	chr19	12790510	12790510	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaacttgcagtaattctcaTtgggcaccagcaggtttccg	10	11	9	11	1	1	0	1	0	1	0	3	0	2	0	2	2	3	5	2	2	2	5			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr19:12790510T>A	uc002muh.1	-	4	615	c.518A>T	c.(517-519)AAT>ATT	p.N173I	DHPS_uc002muf.1_Missense_Mutation_p.N50I|DHPS_uc002mug.1_Missense_Mutation_p.N131I|DHPS_uc002mui.1_Missense_Mutation_p.N173I|DHPS_uc002muj.1_Missense_Mutation_p.N173I|DHPS_uc002muk.1_RNA|DHPS_uc010xmn.1_RNA	NM_001930	NP_001921	P49366	DHYS_HUMAN	deoxyhypusine synthase isoform a	173					peptidyl-lysine modification to hypusine|positive regulation of cell proliferation|post-translational protein modification|spermidine catabolic process to deoxyhypusine, using deoxyhypusine synthase|translation	cytosol	deoxyhypusine synthase activity|protein binding			central_nervous_system(1)	1					Sulfadoxine(DB01299)	GTAATTCTCATTGGGCACCAG	0.592													38	155					0	0	0.00874	0	0		A	12790510	A	A	12790510	3	1	46	1	0	0	0	0	1	0	0	0	4491	1493	52	5	615	5	DHPS	19	12790510	Missense_Mutation	SNP	T	TCGA-BR-7196-01A-11D-2053-08	7861219	12790510	46338473	69	35673											
ZNF737	100129842	broad.mit.edu	37	chr19	20728254	20728254	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgtagggtttctctccaCtatgaattatcttatgtgca	9	18	7	7	0	2	1	0	1	2	0	4	1	3	1	1	1	1	3	1	1	5	6			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr19:20728254C>G	uc002npa.2	-	4	935	c.755G>C	c.(754-756)AGT>ACT	p.S252T		NM_001159293	NP_001152765	C9JHM3	C9JHM3_HUMAN	zinc finger protein 737	252					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						TTTCTCTCCACTATGAATTAT	0.403													3	40					0	0	0.004672	0	0		G	20728254	G	G	20728254	3	3	46	1	0	0	0	0	1	0	0	0	18151	565	20	5	859	5	ZNF737	19	20728254	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	7937744	20728254	38400729	70	35674											
ZNF626	199777	broad.mit.edu	37	chr19	20807184	20807184	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctccagtatgattctcTcatgtgtagtaaggattgag	9	16	9	7	0	3	2	1	2	2	0	6	3	4	3	1	1	0	3	1	1	3	6	rs71332197		TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr19:20807184T>C	uc002npb.1	-	4	1649	c.1499A>G	c.(1498-1500)GAG>GGG	p.E500G	ZNF626_uc002npc.1_Missense_Mutation_p.E424G	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	500	C2H2-type 12; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TATGATTCTCTCATGTGTAGT	0.398													3	103					0	0	0.004672	0	0		C	20807184	C	C	20807184	3	2	46	1	0	0	0	0	1	0	0	0	18075	1551	54	3	91	3	ZNF626	19	20807184	Missense_Mutation	SNP	T	TCGA-BR-7196-01A-11D-2053-08	78930	20807184	38321799	71	35675											
CYP2S1	29785	broad.mit.edu	37	chr19	41700606	41700606	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctggaagggacttttgAtggccatggtaagtcaaggg	10	10	16	5	0	1	1	1	1	0	0	1	4	1	3	1	5	1	2	1	5	3	3			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr19:41700606A>T	uc002opw.2	+	2	390	c.335A>T	c.(334-336)GAT>GTT	p.D112V	CYP2F1_uc010xvw.1_Intron|CYP2S1_uc010xvx.1_Missense_Mutation_p.M1L	NM_030622	NP_085125	Q96SQ9	CP2S1_HUMAN	cytochrome P450, family 2, subfamily S,	112					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity			skin(1)	1						GGGACTTTTGATGGCCATGGT	0.473													4	53					0	0	0.014758	0	0		T	41700606	T	T	41700606	3	4	46	1	0	0	0	0	1	0	0	0	4177	333	12	5	341	5	CYP2S1	19	41700606	Missense_Mutation	SNP	A	TCGA-BR-7196-01A-11D-2053-08	20893422	41700606	17428377	72	35676											
CEACAM5	1048	broad.mit.edu	37	chr19	42219758	42219758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaataatagtggatcctataCgtgccaagcccataactcag	14	9	8	10	1	1	0	1	0	0	0	2	2	2	1	3	1	4	0	3	1	7	5			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr19:42219758C>T	uc002ork.2	+	4	1014	c.893C>T	c.(892-894)ACG>ATG	p.T298M	CEACAM5_uc010ehz.1_3'UTR|CEACAM5_uc002orj.1_Missense_Mutation_p.T298M|CEACAM5_uc002orl.2_Missense_Mutation_p.T298M	NM_004363	NP_004354	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion	298	Ig-like 3.					anchored to membrane|basolateral plasma membrane|integral to plasma membrane				skin(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		GGATCCTATACGTGCCAAGCC	0.473													25	88					0	0	0.021523	0	0		T	42219758	T	T	42219758	3	4	46	1	0	0	0	0	1	0	0	0	3198	536	19	1	907	1	CEACAM5	19	42219758	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	519152	42219758	16909225	73	35677											
ZNF221	7638	broad.mit.edu	37	chr19	44470470	44470470	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatcagcacttaatgttcaTtgcaaattgcacacaggaga	15	10	8	8	0	2	2	2	0	0	2	2	3	2	2	0	1	3	4	0	1	2	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr19:44470470T>C	uc002oxx.2	+	6	1144	c.816T>C	c.(814-816)CAT>CAC	p.H272H	ZNF221_uc010ejb.1_Silent_p.H272H|ZNF221_uc010xws.1_Silent_p.H272H	NM_013359	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	272	C2H2-type 4; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Prostate(69;0.0352)				TTAATGTTCATTGCAAATTGC	0.413													33	182					0	0	0.019004	0	0		C	44470470	C	C	44470470	2	2	46	1	0	0	0	0	0	0	0	1	17800	1490	52	3		3	ZNF221	19	44470470	Silent	SNP	T	TCGA-BR-7196-01A-11D-2053-08	2250712	44470470	14658513	74	35678											
MYBPC2	4606	broad.mit.edu	37	chr19	50958504	50958504	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgtcttcgccgtcaatgcTataggggtctcccagcccag	6	10	11	14	3	3	0	1	0	2	0	5	0	3	0	3	2	2	1	3	2	3	3			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr19:50958504T>C	uc002psf.2	+	19	2205	c.2154T>C	c.(2152-2154)GCT>GCC	p.A718A		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	718	Fibronectin type-III 1.				cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		CCGTCAATGCTATAGGGGTCT	0.483													33	185					0	0	0.009718	0	0		C	50958504	C	C	50958504	2	2	46	1	0	0	0	0	0	0	0	1	10030	1509	53	3		3	MYBPC2	19	50958504	Silent	SNP	T	TCGA-BR-7196-01A-11D-2053-08	6488034	50958504	8170479	75	35679											
ELMO2	63916	broad.mit.edu	37	chr20	45003173	45003173	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggccagctcccctgcctttAcccggatgtaggtgtcctgg	5	10	12	14	1	0	0	0	0	0	0	2	1	2	1	6	4	3	2	6	4	2	3			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr20:45003173A>T	uc002xrt.1	-	14	1380	c.1170_splice	c.e14+1	p.R390_splice	ELMO2_uc010zxq.1_Splice_Site_p.R122_splice|ELMO2_uc002xrs.1_Splice_Site_p.R137_splice|ELMO2_uc002xru.1_Splice_Site_p.R390_splice|ELMO2_uc010zxr.1_Splice_Site_p.R402_splice|ELMO2_uc010zxs.1_Splice_Site_p.R207_splice|ELMO2_uc002xrv.1_Splice_Site_p.R109_splice|ELMO2_uc002xrw.2_Splice_Site_p.R207_splice	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2						apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CCCTGCCTTTACCCGGATGTA	0.542													4	71					0	0	0.014758	0	0		T	45003173	T	T	45003173	5	4	46	1	0	0	0	0	0	0	1	0	5074	405	14	5	1026	5	ELMO2	20	45003173	Splice_Site	SNP	A	TCGA-BR-7196-01A-11D-2053-08		45003173	18022347	76	35680											
SNAI1	6615	broad.mit.edu	37	chr20	48600433	48600433	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acctccggagatcctcaaccCcaccgcctcgctgccaatgc	8	6	7	20	3	1	1	1	0	0	1	4	2	3	1	8	1	3	1	8	1	2	0			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr20:48600433C>G	uc002xuz.2	+	2	225	c.155C>G	c.(154-156)CCC>CGC	p.P52R		NM_005985	NP_005976	O95863	SNAI1_HUMAN	snail 1 homolog	52					epithelial to mesenchymal transition|mesoderm formation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|zinc ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			ATCCTCAACCCCACCGCCTCG	0.637													5	122					0	0	0.001168	0	0		G	48600433	G	G	48600433	3	3	46	1	0	0	0	0	1	0	0	0	14851	623	22	5	161	5	SNAI1	20	48600433	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	3597260	48600433	14425087	77	35681											
MOCS3	27304	broad.mit.edu	37	chr20	49576176	49576176	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtgctgaaaatcgctgcggGtctgggcccctcttacagtg	7	10	13	11	2	2	1	0	1	2	0	3	1	2	1	2	2	3	2	2	2	3	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr20:49576176G>T	uc002xvy.1	+	1	814	c.797G>T	c.(796-798)GGT>GTT	p.G266V	DPM1_uc002xvw.1_5'Flank|DPM1_uc002xvx.1_5'Flank	NM_014484	NP_055299	O95396	MOCS3_HUMAN	molybdenum cofactor synthesis 3	266					enzyme active site formation via L-cysteine persulfide|Mo-molybdopterin cofactor biosynthetic process|tRNA thio-modification|tRNA wobble uridine modification|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|nucleotidyltransferase activity|protein binding|thiosulfate sulfurtransferase activity|URM1 activating enzyme activity			skin(2)|ovary(1)	3						ATCGCTGCGGGTCTGGGCCCC	0.637													6	66					0.00116845	0.00123998	0.001168	1	0		T	49576176	T	T	49576176	3	4	46	1	0	0	0	0	1	0	0	0	9710	1261	44	5	799	5	MOCS3	20	49576176	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	975743	49576176	13449344	78	35682											
SON	6651	broad.mit.edu	37	chr21	34918589	34918589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaccaggcgggtgatgcaGctgcctctgccaggagtcta	9	7	14	11	1	2	1	0	1	2	0	2	3	2	2	3	3	5	2	3	3	2	1			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr21:34918589G>A	uc002yse.1	+	2	197	c.148G>A	c.(148-150)GCT>ACT	p.A50T	SON_uc002ysb.1_Missense_Mutation_p.A50T|SON_uc002ysc.2_Missense_Mutation_p.A50T|SON_uc002ysd.2_5'UTR|SON_uc002ysf.1_Missense_Mutation_p.A50T	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	50					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						GGGTGATGCAGCTGCCTCTGC	0.428													3	77					0	0	0.009096	0	0		A	34918589	A	A	34918589	3	1	46	1	0	0	0	0	1	0	0	0	14951	971	34	2	154	2	SON	21	34918589	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08		34918589	13211306	79	35683											
DYRK1A	1859	broad.mit.edu	37	chr21	38877823	38877823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacaaatacaagtaatagtGtatctacaagccccgccatg	15	9	7	10	1	1	0	0	0	1	0	1	0	1	0	3	0	4	3	3	0	9	6			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr21:38877823G>A	uc002ywk.2	+	9	1552	c.1477G>A	c.(1477-1479)GTA>ATA	p.V493I	DYRK1A_uc002ywi.2_Missense_Mutation_p.V493I|DYRK1A_uc002ywj.2_Missense_Mutation_p.V484I|DYRK1A_uc002ywl.2_Missense_Mutation_p.V493I|DYRK1A_uc002ywm.2_Missense_Mutation_p.V493I|DYRK1A_uc011aei.1_Missense_Mutation_p.V254I	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	493					nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						AAGTAATAGTGTATCTACAAG	0.468													20	143					0	0	0.01892	0	0		A	38877823	A	A	38877823	3	1	46	1	0	0	0	0	1	0	0	0	4860	1377	48	4	1511	4	DYRK1A	21	38877823	Missense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08	3959234	38877823	9252072	80	35684											
NIPSNAP1	8508	broad.mit.edu	37	chr22	29956772	29956772	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatctgtgagaagaagccGcccactgcctcctggttctc	7	10	9	15	1	2	2	0	1	2	2	4	3	3	2	5	1	2	1	5	1	3	2			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr22:29956772G>A	uc003afx.3	-	8	730	c.657C>T	c.(655-657)GGC>GGT	p.G219G	NIPSNAP1_uc011akp.1_Silent_p.G199G	NM_003634	NP_003625	Q9BPW8	NIPS1_HUMAN	nipsnap homolog 1	219								p.?(1)		skin(1)	1						AGAAGAAGCCGCCCACTGCCT	0.557													19	183					0	0	0.005443	0	0		A	29956772	A	A	29956772	2	1	46	1	0	0	0	0	0	0	0	1	10448	1074	38	1		1	NIPSNAP1	22	29956772	Silent	SNP	G	TCGA-BR-7196-01A-11D-2053-08		29956772	21347794	81	35685											
PKDREJ	10343	broad.mit.edu	37	chr22	46657925	46657925	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtccttccgaatcaccattCtgaagaaatacacgtggtcg	12	10	8	11	3	2	2	1	1	1	1	5	3	4	2	3	1	1	0	3	1	4	3			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chr22:46657925C>G	uc003bhh.2	-	1	1295	c.1295G>C	c.(1294-1296)AGA>ACA	p.R432T		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	432	Extracellular (Potential).|REJ.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		AATCACCATTCTGAAGAAATA	0.502													8	78					0	0	0.008291	0	0		G	46657925	G	G	46657925	3	3	46	1	0	0	0	0	1	0	0	0	11989	913	32	5	5470	5	PKDREJ	22	46657925	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	16701153	46657925	4646641	82	35686											
BCOR	54880	broad.mit.edu	37	chrX	39923604	39923604	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcacctttagagactcgtcGgcgtttggctttcagcagag	7	12	11	11	3	2	2	2	0	0	2	4	3	2	2	1	2	1	3	1	2	1	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chrX:39923604G>A	uc004den.3	-	7	3779	c.3487C>T	c.(3487-3489)CGA>TGA	p.R1163*	BCOR_uc004dep.3_Nonsense_Mutation_p.R1163*|BCOR_uc004deo.3_Nonsense_Mutation_p.R1145*|BCOR_uc010nhb.2_5'Flank|BCOR_uc004dem.3_Nonsense_Mutation_p.R1163*	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	1163					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						GAGACTCGTCGGCGTTTGGCT	0.627													11	29					0	0	0.010729	0	0		A	39923604	A	A	39923604	4	1	46	1	0	0	0	0	0	1	0	0	1387	1124	39	1	1816	1	BCOR	23	39923604	Nonsense_Mutation	SNP	G	TCGA-BR-7196-01A-11D-2053-08		39923604	115346956	83	35687											
ZBTB33	10009	broad.mit.edu	37	chrX	119389023	119389023	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctggggactcaaagctttatCgtttacatccatgcaggtct	9	13	9	10	1	2	0	1	0	1	0	4	1	3	1	1	3	3	3	1	3	3	4			TCGA-BR-7196-01A-11D-2053-08	TCGA-BR-7196-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd3a3c08-528b-44e9-bd44-1b6c48248baa	8627b3c5-c183-425c-96a0-c86a4ac4de83	g.chrX:119389023C>G	uc004esn.1	+	2	1981	c.1753C>G	c.(1753-1755)CGT>GGT	p.R585G	ZBTB33_uc010nqm.1_Missense_Mutation_p.R585G	NM_006777	NP_006768	Q86T24	KAISO_HUMAN	kaiso	585	Interaction with CTNND1 (By similarity).|Required for DNA-binding (By similarity).				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleolus|plasma membrane	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						AAAGCTTTATCGTTTACATCC	0.378													5	55					0	0	0.014758	0	0		G	119389023	G	G	119389023	3	3	46	1	0	0	0	0	1	0	0	0	17561	884	31	5	1755	5	ZBTB33	23	119389023	Missense_Mutation	SNP	C	TCGA-BR-7196-01A-11D-2053-08	79465419	119389023	35881537	84	35688											
CAMTA1	23261	broad.mit.edu	37	chr1	7737720	7737720	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccagatcatctccaactcGgtggtgtttgagtacaaagc	12	10	9	10	1	2	2	1	1	1	1	4	2	2	2	2	2	4	2	2	2	4	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:7737720G>A	uc001aoi.2	+	11	3048	c.2841G>A	c.(2839-2841)TCG>TCA	p.S947S	CAMTA1_uc010nzv.1_Silent_p.S34S|CAMTA1_uc001aok.3_5'Flank	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	947	IPT/TIG.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		TCTCCAACTCGGTGGTGTTTG	0.552													27	55					0	0	0.008361	0	0		A	7737720	A	A	7737720	2	1	47	1	0	0	0	0	0	0	0	1	2616	1103	39	1		1	CAMTA1	1	7737720	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08		7737720	241512901	1	35689											
ZMYM1	79830	broad.mit.edu	37	chr1	35570337	35570337	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaggacagtctcattacttTaatagttcaaagagtattac	15	13	7	6	0	2	1	2	0	1	1	3	3	2	2	0	1	2	2	0	1	7	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:35570337T>G	uc001bym.2	+	7	922	c.774T>G	c.(772-774)TTT>TTG	p.F258L	ZMYM1_uc009vus.1_RNA|ZMYM1_uc001byn.2_Missense_Mutation_p.F258L|ZMYM1_uc010ohu.1_Missense_Mutation_p.F258L|ZMYM1_uc001byo.2_5'UTR|ZMYM1_uc009vut.2_Missense_Mutation_p.F183L	NM_024772	NP_079048	Q5SVZ6	ZMYM1_HUMAN	zinc finger, MYM domain containing 1	258						nucleus	nucleic acid binding|protein dimerization activity|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CTCATTACTTTAATAGTTCAA	0.378													3	42					0	0	0.009096	0	0		G	35570337	G	G	35570337	3	3	47	1	0	0	0	0	1	0	0	0	17724	1751	61	5	792	5	ZMYM1	1	35570337	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	27832617	35570337	213680284	2	35690											
CAP1	10487	broad.mit.edu	37	chr1	40535894	40535894	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaaacaggtggcttacAtatacaagtgtgtcaacacg	14	9	10	8	1	1	1	1	1	0	0	1	1	1	1	0	2	5	2	0	2	6	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:40535894A>T	uc001cfa.3	+	10	1286	c.1057A>T	c.(1057-1059)ATA>TTA	p.I353L	CAP1_uc001cey.3_Missense_Mutation_p.I353L|CAP1_uc001cez.3_Missense_Mutation_p.I353L|CAP1_uc009vvz.2_Missense_Mutation_p.I353L|CAP1_uc010oje.1_Missense_Mutation_p.I270L	NM_006367	NP_006358	Q01518	CAP1_HUMAN	adenylyl cyclase-associated protein	353	C-CAP/cofactor C-like.				activation of adenylate cyclase activity|axon guidance|establishment or maintenance of cell polarity|platelet activation|platelet degranulation|signal transduction	plasma membrane	actin binding			ovary(1)	1	Lung NSC(20;5.03e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;4.63e-18)|Epithelial(16;1.27e-16)|all cancers(16;2.3e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GGTGGCTTACATATACAAGTG	0.458													18	35					0	0	0.010504	0	0		T	40535894	T	T	40535894	3	4	47	1	0	0	0	0	1	0	0	0	2622	217	8	5	1091	5	CAP1	1	40535894	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	4965557	40535894	208714727	3	35691											
INSL5	10022	broad.mit.edu	37	chr1	67266854	67266854	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccttgctccgcacttctgaGatggcaaataggacagagaa	12	9	10	10	1	1	2	0	1	1	2	3	5	3	3	2	2	1	3	2	2	3	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:67266854G>C	uc001dcw.2	-	1	86	c.51C>G	c.(49-51)ATC>ATG	p.I17M		NM_005478	NP_005469	Q9Y5Q6	INSL5_HUMAN	insulin-like 5 precursor	17						extracellular region	hormone activity				0						GCACTTCTGAGATGGCAAATA	0.433													6	35					0	0	0.001984	0	0		C	67266854	C	C	67266854	3	2	47	1	0	0	0	0	1	0	0	0	7785	932	33	5	364	5	INSL5	1	67266854	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	26730960	67266854	181983767	4	35692											
LRRC7	57554	broad.mit.edu	37	chr1	70555456	70555456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccttggatttagtatcaGtggtggaattagtggacaag	10	13	14	4	0	1	0	1	0	0	0	1	3	1	3	1	5	0	1	1	5	5	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:70555456G>A	uc001dep.2	+	23	4415	c.4385G>A	c.(4384-4386)AGT>AAT	p.S1462N	LRRC7_uc009wbg.2_Missense_Mutation_p.S746N|LRRC7_uc001deq.2_Missense_Mutation_p.S656N	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1462	PDZ.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TTTAGTATCAGTGGTGGAATT	0.299													14	39					0	0	0.010504	0	0		A	70555456	A	A	70555456	3	1	47	1	0	0	0	0	1	0	0	0	9038	1029	36	4	4475	4	LRRC7	1	70555456	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	3288602	70555456	178695165	5	35693											
HFM1	164045	broad.mit.edu	37	chr1	91784848	91784848	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccactaatcctgtaacatAcatcttgtaattcgggagcc	12	12	6	11	1	1	0	0	0	1	0	4	1	3	1	3	1	3	2	3	1	4	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:91784848A>G	uc001doa.3	-	24	2780	c.2680_splice	c.e24+1	p.W894_splice	HFM1_uc009wdb.2_Splice_Site|HFM1_uc010osu.1_Splice_Site_p.W573_splice|HFM1_uc001dob.3_Splice_Site_p.C126_splice|HFM1_uc010osv.1_Splice_Site_p.W578_splice	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein								ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		CCTGTAACATACATCTTGTAA	0.333													45	24					0	0	0.01441	0	0		G	91784848	G	G	91784848	5	3	47	1	0	0	0	0	0	0	1	0	7099	405	14	3	1689	3	HFM1	1	91784848	Splice_Site	SNP	A	TCGA-BR-7197-01A-11D-2201-08	21229392	91784848	157465773	6	35694											
TMEM56	148534	broad.mit.edu	37	chr1	95639441	95639441	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttccagcccgtttgtgaatCagcggtatgttactgatatc	8	15	9	9	2	1	2	1	2	0	0	3	2	2	2	2	1	3	3	2	1	4	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:95639441C>T	uc001drb.2	+	6	760	c.469C>T	c.(469-471)CAG>TAG	p.Q157*	RWDD3_uc001drd.3_Nonsense_Mutation_p.Q157*|uc001dre.1_Intron|TMEM56_uc001drc.2_Nonsense_Mutation_p.Q157*	NM_152487	NP_689700	Q96MV1	TMM56_HUMAN	transmembrane protein 56	157	TLC.					integral to membrane					0		all_lung(203;0.0232)|Lung NSC(277;0.0739)		all cancers(265;0.133)		GTTTGTGAATCAGCGGTATGT	0.368													26	49					0	0	0.007291	0	0		T	95639441	T	T	95639441	4	4	47	1	0	0	0	0	0	1	0	0	16208	827	29	4	487	4	TMEM56	1	95639441	Nonsense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	3854593	95639441	153611180	7	35695											
VAV3	10451	broad.mit.edu	37	chr1	108313276	108313276	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accttttctattgactccaaAgtttctgtatatttttcttc	8	21	3	9	0	3	1	0	1	3	0	5	1	4	1	2	0	0	2	2	0	4	10			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:108313276A>C	uc001dvk.1	-	6	684	c.630T>G	c.(628-630)ACT>ACG	p.T210T	VAV3_uc010ouw.1_Silent_p.T210T|VAV3_uc001dvl.1_Silent_p.T34T|VAV3_uc010oux.1_Silent_p.T210T	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	210	DH.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		TTGACTCCAAAGTTTCTGTAT	0.303													24	68					0	0	0.003954	0	0		C	108313276	C	C	108313276	2	2	47	1	0	0	0	0	0	0	0	1	17159	59	3	5		5	VAV3	1	108313276	Silent	SNP	A	TCGA-BR-7197-01A-11D-2201-08	12673835	108313276	140937345	8	35696											
GJA8	2703	broad.mit.edu	37	chr1	147380926	147380926	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcccactatttccccttgAccgaggttgggatggtggag	6	13	12	10	1	0	1	0	1	0	0	2	4	2	3	4	4	0	1	4	4	1	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:147380926A>C	uc001epu.1	+	2	907	c.844A>C	c.(844-846)ACC>CCC	p.T282P		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	282	Cytoplasmic (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					TTTCCCCTTGACCGAGGTTGG	0.547													6	84					0	0	0.001984	0	0		C	147380926	C	C	147380926	3	2	47	1	0	0	0	0	1	0	0	0	6420	275	10	5	846	5	GJA8	1	147380926	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	39067650	147380926	101869695	9	35697											
MCL1	4170	broad.mit.edu	37	chr1	150550743	150550743	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctttgtttaactagccAgtcccgttttgtccttacga	6	16	7	12	2	1	0	0	0	1	0	3	1	3	0	4	0	3	2	4	0	3	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:150550743A>C	uc001euz.2	-	2	1043	c.913T>G	c.(913-915)TGG>GGG	p.W305G	MCL1_uc010pch.1_Missense_Mutation_p.W195G|MCL1_uc001eva.2_Intron	NM_021960	NP_068779	Q07820	MCL1_HUMAN	myeloid cell leukemia sequence 1 isoform 1	305	BH2.				anti-apoptosis|apoptosis|cell fate determination|cellular homeostasis|multicellular organismal development|response to cytokine stimulus	integral to membrane|mitochondrial outer membrane|nucleoplasm	BH3 domain binding|protein binding|protein channel activity|protein heterodimerization activity				0	all_cancers(9;1.69e-53)|all_epithelial(9;1.95e-43)|all_lung(15;1.09e-34)|Lung NSC(24;4.04e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			TTAACTAGCCAGTCCCGTTTT	0.433													41	130					0	0	0.01441	0	0		C	150550743	C	C	150550743	3	2	47	1	0	0	0	0	1	0	0	0	9402	188	7	5	158	5	MCL1	1	150550743	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	3169817	150550743	98699878	10	35698											
POGZ	23126	broad.mit.edu	37	chr1	151378488	151378488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgggaggcctggaaacgtCgaagccaacggcgaatacgt	11	5	14	11	5	0	0	0	0	0	0	1	4	0	2	3	4	4	0	3	4	5	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:151378488C>T	uc001eyd.1	-	19	3329	c.3023G>A	c.(3022-3024)CGA>CAA	p.R1008Q	POGZ_uc001eye.1_Missense_Mutation_p.R955Q|POGZ_uc010pdb.1_Missense_Mutation_p.R999Q|POGZ_uc001eyf.1_Missense_Mutation_p.R964Q|POGZ_uc010pdc.1_Missense_Mutation_p.R946Q|POGZ_uc009wmv.1_Missense_Mutation_p.R913Q|POGZ_uc010pdd.1_Missense_Mutation_p.R499Q	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1008					cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CTGGAAACGTCGAAGCCAACG	0.522													16	40					0	0	0.004007	0	0		T	151378488	T	T	151378488	3	4	47	1	0	0	0	0	1	0	0	0	12205	884	31	1	1213	1	POGZ	1	151378488	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	827745	151378488	97872133	11	35699											
FCGR2A	2212	broad.mit.edu	37	chr1	161480730	161480730	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtggccttgatctactgcagGaaaaagcggatttcaggttt	10	12	12	7	1	2	1	1	1	1	0	2	3	2	3	1	4	3	2	1	4	3	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:161480730G>A	uc001gan.2	+	5	779	c.726G>A	c.(724-726)AGG>AGA	p.R242R	FCGR2A_uc001gam.2_Silent_p.R241R|FCGR2A_uc001gao.2_RNA	NM_001136219	NP_001129691	P12318	FCG2A_HUMAN	Fc fragment of IgG, low affinity IIa, receptor	242	Cytoplasmic (Potential).					integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TCTACTGCAGGAAAAAGCGGA	0.522													104	110					0	0	0.01441	0	0		A	161480730	A	A	161480730	2	1	47	1	0	0	0	0	0	0	0	1	5795	1165	41	4		4	FCGR2A	1	161480730	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	10102242	161480730	87769891	12	35700											
TNN	63923	broad.mit.edu	37	chr1	175067563	175067563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccgccattgacaagtacGtggtgcgctacacctctgct	8	9	11	13	3	1	1	0	1	1	0	1	1	1	1	3	2	4	3	3	2	3	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:175067563G>A	uc001gkl.1	+	9	2064	c.1951G>A	c.(1951-1953)GTG>ATG	p.V651M	TNN_uc010pmx.1_Missense_Mutation_p.V562M	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	651	Fibronectin type-III 5.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		TGACAAGTACGTGGTGCGCTA	0.597													20	74					0	0	0.010504	0	0		A	175067563	A	A	175067563	3	1	47	1	0	0	0	0	1	0	0	0	16348	1145	40	1	1981	1	TNN	1	175067563	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	13586833	175067563	74183058	13	35701											
HMCN1	83872	broad.mit.edu	37	chr1	186056429	186056429	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctatcaatcaagctggcGaaagcaagaaaaagttttcc	16	9	8	8	1	2	1	2	0	0	1	3	2	3	1	1	1	3	4	1	1	8	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:186056429G>T	uc001grq.1	+	59	9356	c.9127G>T	c.(9127-9129)GAA>TAA	p.E3043*		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3043	Ig-like C2-type 28.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TCAAGCTGGCGAAAGCAAGAA	0.353													84	28					9.15355e-43	9.95134e-43	0.01441	1	0		T	186056429	T	T	186056429	4	4	47	1	0	0	0	0	0	1	0	0	7236	1059	37	5	9361	5	HMCN1	1	186056429	Nonsense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	10988866	186056429	63194192	14	35702											
WNT9A	7483	broad.mit.edu	37	chr1	228111927	228111927	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaattccttgacgaacttgCtgctgtacttaaggttgtct	8	15	10	8	1	1	1	0	1	1	0	2	3	2	2	1	2	4	4	1	2	4	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr1:228111927C>A	uc001hri.2	-	3	615	c.527G>T	c.(526-528)AGC>ATC	p.S176I		NM_003395	NP_003386	O14904	WNT9A_HUMAN	wingless-type MMTV integration site family,	176					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|cornea development in camera-type eye|embryonic arm morphogenesis|embryonic skeletal joint morphogenesis|endoderm development|iris morphogenesis|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|neuron differentiation|positive regulation of smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding|signal transducer activity			central_nervous_system(1)|pancreas(1)	2		Prostate(94;0.0405)				GACGAACTTGCTGCTGTACTT	0.592													48	135					7.10676e-39	7.69088e-39	0.01441	1	0		A	228111927	A	A	228111927	3	1	47	1	0	0	0	0	1	0	0	0	17424	797	28	5	578	5	WNT9A	1	228111927	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	42055498	228111927	21138694	15	35703											
TAF1B	9014	broad.mit.edu	37	chr2	10059894	10059894	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgaaagagaaaggccaaTcactgctgactaagaattca	16	8	8	9	0	2	4	2	2	0	2	3	5	3	4	2	1	1	1	2	1	5	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:10059894T>G	uc002qzz.2	+	14	1610	c.1510T>G	c.(1510-1512)TCA>GCA	p.S504A	TAF1B_uc002qzy.3_Missense_Mutation_p.S504A|TAF1B_uc010yja.1_Missense_Mutation_p.S249A|TAF1B_uc010exd.2_Missense_Mutation_p.S249A	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	504					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GAAAGGCCAATCACTGCTGAC	0.388													14	15					0	0	0.006122	0	0		G	10059894	G	G	10059894	3	3	47	1	0	0	0	0	1	0	0	0	15545	1435	50	5	1564	5	TAF1B	2	10059894	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08		10059894	233139479	16	35704											
C2orf16	84226	broad.mit.edu	37	chr2	27801239	27801239	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagggccatcccttcaaatCgtaaaatctgaggagttagc	12	9	9	11	1	2	1	1	1	1	0	4	2	3	2	3	2	1	2	3	2	4	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:27801239C>T	uc002rkz.3	+	1	1851	c.1800C>T	c.(1798-1800)ATC>ATT	p.I600I		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	600										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					CCCTTCAAATCGTAAAATCTG	0.393													3	21					0	0	0.004672	0	0		T	27801239	T	T	27801239	2	4	47	1	0	0	0	0	0	0	0	1	2160	874	31	1		1	C2orf16	2	27801239	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08	17741345	27801239	215398134	17	35705											
DNAH6	1768	broad.mit.edu	37	chr2	84800599	84800599	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataacatttaggaaaccatTcaggccgcatttgaatcagc	14	11	7	9	1	2	1	2	1	0	0	2	2	2	2	2	2	3	1	2	2	5	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:84800599T>G	uc010fgb.2	+	12	1949	c.1812T>G	c.(1810-1812)ATT>ATG	p.I604M	DNAH6_uc002soo.2_Missense_Mutation_p.I183M|DNAH6_uc002sop.2_Missense_Mutation_p.I183M	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	604	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1						AGGAAACCATTCAGGCCGCAT	0.333													9	42					0	0	0.010729	0	0		G	84800599	G	G	84800599	3	3	47	1	0	0	0	0	1	0	0	0	4611	1771	62	5	1854	5	DNAH6	2	84800599	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	56999360	84800599	158398774	18	35706											
TGFBRAP1	9392	broad.mit.edu	37	chr2	105924384	105924384	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccccactcacagggttctcGttcagtgcaaacgtggctgc	7	10	10	14	2	3	0	2	0	1	0	5	0	4	0	2	2	3	4	2	2	1	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:105924384G>A	uc002tcq.2	-	2	459	c.375C>T	c.(373-375)AAC>AAT	p.N125N	TGFBRAP1_uc002tcr.3_Silent_p.N125N	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	125	CNH.				regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						CAGGGTTCTCGTTCAGTGCAA	0.567													37	75					0	0	0.00874	0	0		A	105924384	A	A	105924384	2	1	47	1	0	0	0	0	0	0	0	1	15849	1136	40	1		1	TGFBRAP1	2	105924384	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	21123785	105924384	137274989	19	35707											
C2orf40	84417	broad.mit.edu	37	chr2	106694260	106694260	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctattggcttaacagagatCgaaatggacatgaatactat	15	11	8	7	1	0	2	0	1	0	1	1	5	0	3	1	2	2	1	1	2	6	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:106694260C>T	uc010fjf.2	+	4	433	c.325C>T	c.(325-327)CGA>TGA	p.R109*		NM_032411	NP_115787	Q9H1Z8	AUGN_HUMAN	esophageal cancer related gene 4 protein	109						extracellular region|transport vesicle					0						TAACAGAGATCGAAATGGACA	0.453													23	93					0	0	0.004656	0	0		T	106694260	T	T	106694260	4	4	47	1	0	0	0	0	0	1	0	0	2168	876	31	1	339	1	C2orf40	2	106694260	Nonsense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	769876	106694260	136505113	20	35708											
CNTNAP5	129684	broad.mit.edu	37	chr2	125262112	125262112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgattcagaaaatgacagaaCgcgtagctgaaatcctcaca	16	8	8	9	2	2	5	2	3	0	2	3	5	3	5	1	0	2	2	1	0	5	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:125262112C>T	uc002tno.2	+	8	1667	c.1303C>T	c.(1303-1305)CGC>TGC	p.R435C	CNTNAP5_uc010flu.2_Missense_Mutation_p.R436C	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	435	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		AATGACAGAACGCGTAGCTGA	0.507													11	28					0	0	0.008291	0	0		T	125262112	T	T	125262112	3	4	47	1	0	0	0	0	1	0	0	0	3653	536	19	1	1333	1	CNTNAP5	2	125262112	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	18567852	125262112	117937261	21	35709											
LRP1B	53353	broad.mit.edu	37	chr2	141108422	141108422	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggatccttttgtagaaaaTtccgcctggattaaactgag	12	13	9	7	1	0	2	0	1	0	1	2	4	2	4	3	2	1	1	3	2	5	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:141108422T>C	uc002tvj.1	-	77	12808	c.11836A>G	c.(11836-11838)ATT>GTT	p.I3946V		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3946	Extracellular (Potential).|LDL-receptor class B 33.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTGTAGAAAATTCCGCCTGGA	0.333										TSP Lung(27;0.18)			7	54					0	0	0.00308	0	0		C	141108422	C	C	141108422	3	2	47	1	0	0	0	0	1	0	0	0	8973	1493	52	3	2023	3	LRP1B	2	141108422	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	15846310	141108422	102090951	22	35710											
ZEB2	9839	broad.mit.edu	37	chr2	145156170	145156170	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccttcttgataaaagtcaAgttcagaggctcatctgagt	11	14	8	8	0	5	3	3	2	2	1	6	3	6	3	1	1	0	2	1	1	3	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:145156170A>G	uc002tvu.2	-	8	3064	c.2584T>C	c.(2584-2586)TTG>CTG	p.L862L	ZEB2_uc002tvv.2_Silent_p.L856L|ZEB2_uc010zbm.1_Silent_p.L833L|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Silent_p.L891L	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	862						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		ATAAAAGTCAAGTTCAGAGGC	0.348													18	52					0	0	0.007413	0	0		G	145156170	G	G	145156170	2	3	47	1	0	0	0	0	0	0	0	1	17649	69	3	3		3	ZEB2	2	145156170	Silent	SNP	A	TCGA-BR-7197-01A-11D-2201-08	4047748	145156170	98043203	23	35711											
RBM43	375287	broad.mit.edu	37	chr2	152107515	152107515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcaatgtgtgtcctataaaGgttaatcaggacttcaaggt	12	13	10	6	0	3	0	3	0	0	0	4	1	4	1	1	3	0	1	1	3	6	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:152107515G>A	uc002txh.2	-	4	1127	c.979C>T	c.(979-981)CTT>TTT	p.L327F		NM_198557	NP_940959	Q6ZSC3	RBM43_HUMAN	RNA binding motif protein 43	327							nucleotide binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(221;0.131)		GTCCTATAAAGGTTAATCAGG	0.328													22	65					0	0	0.004656	0	0		A	152107515	A	A	152107515	3	1	47	1	0	0	0	0	1	0	0	0	13162	1000	35	4	98	4	RBM43	2	152107515	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	6951345	152107515	91091858	24	35712											
SCN1A	6323	broad.mit.edu	37	chr2	166901827	166901827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgttctgaggcagttgccGttgctgcctgctatattgaa	8	14	11	8	1	1	2	0	2	1	0	1	2	1	2	2	1	4	6	2	1	4	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:166901827G>A	uc010zcz.1	-	10	1406	c.1388C>T	c.(1387-1389)ACG>ATG	p.T463M	SCN1A_uc002udo.3_Missense_Mutation_p.T332M|SCN1A_uc010fpk.2_Missense_Mutation_p.T332M	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	463						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GGCAGTTGCCGTTGCTGCCTG	0.443													25	47					0	0	0.004656	0	0		A	166901827	A	A	166901827	3	1	47	1	0	0	0	0	1	0	0	0	13939	1145	40	1	4709	1	SCN1A	2	166901827	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	14794312	166901827	76297546	25	35713											
GAD1	2571	broad.mit.edu	37	chr2	171687619	171687619	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaggcatggagggcttcaActtggagctctctgaccacc	9	8	13	11	0	2	1	1	1	1	0	3	4	2	4	2	5	2	3	2	5	2	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:171687619A>C	uc002ugi.2	+	5	886	c.464A>C	c.(463-465)AAC>ACC	p.N155T	GAD1_uc002ugh.2_Missense_Mutation_p.N155T	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	155				N -> T (in Ref. 6; AAB26938).	glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GAGGGCTTCAACTTGGAGCTC	0.542													38	85					0	0	0.007835	0	0		C	171687619	C	C	171687619	3	2	47	1	0	0	0	0	1	0	0	0	6193	43	2	5	478	5	GAD1	2	171687619	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	4785792	171687619	71511754	26	35714											
TTN	7273	broad.mit.edu	37	chr2	179578722	179578722	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcggtgctacattgatgatcTtaaggccggatactttgttg	8	15	11	7	2	1	2	0	2	1	0	2	3	1	3	1	3	3	2	1	3	3	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:179578722T>G	uc010zfg.1	-	89	23155	c.22931A>C	c.(22930-22932)AAG>ACG	p.K7644T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K4305T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8571							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.K7644R(1)		ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATTGATGATCTTAAGGCCGGA	0.443													10	20					0	0	0.00245	0	0		G	179578722	G	G	179578722	3	3	47	1	0	0	0	0	1	0	0	0	16761	1609	56	5	77950	5	TTN	2	179578722	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	7891103	179578722	63620651	27	35715											
TTN	7273	broad.mit.edu	37	chr2	179604456	179604456	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccatttcttcttgcaaacTtgttttggctccttgctgaa	7	18	6	10	0	2	1	0	1	2	0	4	1	4	1	2	1	3	4	2	1	2	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:179604456T>G	uc010zfh.1	-	46	13215	c.12991A>C	c.(12991-12993)AGT>CGT	p.S4331R	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.S4264R|TTN_uc010zfj.1_Missense_Mutation_p.S4139R|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	4256							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTTGCAAACTTGTTTTGGCT	0.388													60	139					0	0	0.01441	0	0		G	179604456	G	G	179604456	3	3	47	1	0	0	0	0	1	0	0	0	16761	1609	56	5	91285	5	TTN	2	179604456	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	25734	179604456	63594917	28	35716											
ITGAV	3685	broad.mit.edu	37	chr2	187466848	187466848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactggtcttctacccgcCggtgccagccaattgaattt	7	12	10	12	2	2	2	0	2	2	0	2	2	2	2	4	2	3	0	4	2	3	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:187466848C>T	uc002upq.2	+	2	562	c.286C>T	c.(286-288)CGG>TGG	p.R96W	ITGAV_uc010frs.2_Missense_Mutation_p.R96W|ITGAV_uc010zfv.1_Missense_Mutation_p.R50W	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	96	FG-GAP 1.|Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		TTCTACCCGCCGGTGCCAGCC	0.433													13	29					0	0	0.00245	0	0		T	187466848	T	T	187466848	3	4	47	1	0	0	0	0	1	0	0	0	7904	643	23	1	343	1	ITGAV	2	187466848	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	7862392	187466848	55732525	29	35717											
AOX1	316	broad.mit.edu	37	chr2	201485953	201485953	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttactgaagctgagaaatTtctggcgacagataaggtac	13	12	10	6	1	1	3	0	2	1	2	1	5	1	3	0	2	3	2	0	2	5	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:201485953T>C	uc002uvx.2	+	18	2086	c.1985T>C	c.(1984-1986)TTT>TCT	p.F662S	AOX1_uc010zhf.1_Missense_Mutation_p.F218S|AOX1_uc010fsu.2_Missense_Mutation_p.F28S	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	662					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	GCTGAGAAATTTCTGGCGACA	0.398													20	57					0	0	0.003954	0	0		C	201485953	C	C	201485953	3	2	47	1	0	0	0	0	1	0	0	0	729	1841	64	3	2055	3	AOX1	2	201485953	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	14019105	201485953	41713420	30	35718											
MAP2	4133	broad.mit.edu	37	chr2	210559838	210559838	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacatgccaagaaaactgaaGaggctggtgatgaaatagaa	19	6	11	5	0	0	6	0	3	0	3	0	6	0	6	1	2	3	1	1	2	8	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:210559838G>C	uc002vde.1	+	7	3192	c.2944G>C	c.(2944-2946)GAG>CAG	p.E982Q	MAP2_uc002vdc.1_Missense_Mutation_p.E982Q|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.E978Q	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	982					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	GAAAACTGAAGAGGCTGGTGA	0.398													16	58					0	0	0.006122	0	0		C	210559838	C	C	210559838	3	2	47	1	0	0	0	0	1	0	0	0	9253	943	33	5	2958	5	MAP2	2	210559838	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	9073885	210559838	32639535	31	35719											
ERBB4	2066	broad.mit.edu	37	chr2	212248599	212248599	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcattgacagtatgttgttcTtcaggtactcagcttttccc	7	16	8	10	0	3	1	2	1	1	0	4	1	4	1	1	1	2	6	1	1	2	8			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:212248599T>G	uc002veg.1	-	28	3766	c.3668A>C	c.(3667-3669)AAG>ACG	p.K1223T	ERBB4_uc002veh.1_Missense_Mutation_p.K1207T|ERBB4_uc010zji.1_Missense_Mutation_p.K1213T|ERBB4_uc010zjj.1_Missense_Mutation_p.K1197T	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1223	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TATGTTGTTCTTCAGGTACTC	0.517										TSP Lung(8;0.080)			55	157					0	0	0.01441	0	0		G	212248599	G	G	212248599	3	3	47	1	0	0	0	0	1	0	0	0	5217	1609	56	5	262	5	ERBB4	2	212248599	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	1688761	212248599	30950774	32	35720											
VWC2L	402117	broad.mit.edu	37	chr2	215440504	215440504	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactggtggaagcctgctcAgtgttcgaaacgtgaatgcc	9	9	14	9	2	1	1	1	1	0	0	2	4	1	3	2	3	4	2	2	3	3	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:215440504A>C	uc002vet.2	+	4	759	c.629A>C	c.(628-630)CAG>CCG	p.Q210P	VWC2L_uc010zjl.1_3'UTR	NM_001080500	NP_001073969	B2RUY7	VWC2L_HUMAN	von Willebrand factor C domain-containing	210						extracellular region					0						AAGCCTGCTCAGTGTTCGAAA	0.478													41	168					0	0	0.01441	0	0		C	215440504	C	C	215440504	3	2	47	1	0	0	0	0	1	0	0	0	17270	188	7	5	639	5	VWC2L	2	215440504	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	3191905	215440504	27758869	33	35721											
DOCK10	55619	broad.mit.edu	37	chr2	225702525	225702525	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagctgctcctcatggcacTtggccacaatgtcggtcaga	8	9	10	14	1	2	1	2	0	0	1	4	1	3	1	3	3	2	3	3	3	1	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:225702525T>A	uc010fwz.1	-	25	3043	c.2804A>T	c.(2803-2805)AAG>ATG	p.K935M	DOCK10_uc002vob.2_Missense_Mutation_p.K929M	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	935							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		CTCATGGCACTTGGCCACAAT	0.468													9	41					0	0	0.008291	0	0		A	225702525	A	A	225702525	3	1	47	1	0	0	0	0	1	0	0	0	4691	1609	56	5	3884	5	DOCK10	2	225702525	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	10262021	225702525	17496848	34	35722											
COL4A4	1286	broad.mit.edu	37	chr2	227896700	227896700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggaggtccctgatctccagGtggacccgggtcaggaatgt	8	8	15	10	1	2	1	1	1	1	0	4	4	3	4	3	6	0	0	3	6	1	0			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr2:227896700G>A	uc010zlt.1	-	40	4432	c.3778C>T	c.(3778-3780)CCT>TCT	p.P1260S		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1260	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		TGATCTCCAGGTGGACCCGGG	0.542													7	10					0	0	0.008291	0	0		A	227896700	A	A	227896700	3	1	47	1	0	0	0	0	1	0	0	0	3696	1261	44	4	1330	4	COL4A4	2	227896700	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	2194175	227896700	15302673	35	35723											
BHLHE40	8553	broad.mit.edu	37	chr3	5025133	5025133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctacctgatcccaccttcagCgactgcctacctgcccatgc	7	9	6	19	1	1	1	1	1	0	0	2	2	2	1	6	0	6	0	6	0	2	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr3:5025133C>T	uc003bqf.2	+	5	1302	c.995C>T	c.(994-996)GCG>GTG	p.A332V	BHLHE40_uc011asw.1_Missense_Mutation_p.A192V	NM_003670	NP_003661	O14503	BHE40_HUMAN	basic helix-loop-helix family, member e40	332						Golgi apparatus|nucleolus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCACCTTCAGCGACTGCCTAC	0.607													21	57					0	0	0.003954	0	0		T	5025133	T	T	5025133	3	4	47	1	0	0	0	0	1	0	0	0	1424	768	27	1	1013	1	BHLHE40	3	5025133	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08		5025133	192997297	36	35724											
ATP2B2	491	broad.mit.edu	37	chr3	10442664	10442664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatggggtccttgtccaCggacttgcgcacctggtcag	6	9	13	13	2	1	0	1	0	0	0	3	1	3	1	3	4	2	2	3	4	0	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr3:10442664C>T	uc003bvt.2	-	5	1193	c.754G>A	c.(754-756)GTG>ATG	p.V252M	ATP2B2_uc003bvv.2_Missense_Mutation_p.V252M|ATP2B2_uc003bvw.2_Missense_Mutation_p.V252M|ATP2B2_uc010hdp.2_Missense_Mutation_p.V252M|ATP2B2_uc010hdo.2_Translation_Start_Site	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	252	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						TCCTTGTCCACGGACTTGCGC	0.587													18	64					0	0	0.007413	0	0		T	10442664	T	T	10442664	3	4	47	1	0	0	0	0	1	0	0	0	1141	536	19	1	3053	1	ATP2B2	3	10442664	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	5417531	10442664	187579766	37	35725											
SLC25A38	54977	broad.mit.edu	37	chr3	39430993	39430993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttatcctgcagttacatcCggtgatcaaggctttcctgt	7	15	8	11	1	2	1	1	1	1	0	5	1	5	1	3	2	2	3	3	2	3	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr3:39430993C>T	uc003cjo.2	+	2	478	c.77C>T	c.(76-78)CCG>CTG	p.P26L		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	26	Solcar 1.				erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		CAGTTACATCCGGTGATCAAG	0.488													6	52					0	0	0.001984	0	0		T	39430993	T	T	39430993	3	4	47	1	0	0	0	0	1	0	0	0	14527	652	23	1	83	1	SLC25A38	3	39430993	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	28988329	39430993	158591437	38	35726											
ST3GAL6	10402	broad.mit.edu	37	chr3	98489735	98489735	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcatagggtggcacctgtGgaaatgaaacggagaaataa	15	8	12	6	1	1	2	1	1	1	1	2	4	1	3	1	4	1	1	1	4	5	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr3:98489735G>A	uc003dsz.2	+	3	338	c.102G>A	c.(100-102)GTG>GTA	p.V34V	ST3GAL6_uc003dsy.2_5'UTR|ST3GAL6_uc003dta.2_5'UTR|ST3GAL6_uc003dtb.2_Intron|ST3GAL6_uc003dtc.2_Silent_p.V34V|ST3GAL6_uc010hpd.2_Silent_p.V87V	NM_006100	NP_006091	Q9Y274	SIA10_HUMAN	alpha2,3-sialyltransferase VI	34	Lumenal (Potential).				amino sugar metabolic process|glycolipid metabolic process|protein glycosylation|protein lipoylation	integral to Golgi membrane	sialyltransferase activity			ovary(1)	1						TGGCACCTGTGGAAATGAAAC	0.448													15	38					0	0	0.010504	0	0		A	98489735	A	A	98489735	2	1	47	1	0	0	0	0	0	0	0	1	15244	1335	47	4		4	ST3GAL6	3	98489735	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	59058742	98489735	99532695	39	35727											
PIK3CB	5291	broad.mit.edu	37	chr3	138461469	138461469	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttatcttctaagttttcaggGatggatggttcatgctctgg	7	17	11	6	0	5	0	2	0	3	0	5	2	5	2	0	4	1	3	0	4	2	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr3:138461469G>A	uc011bmq.1	-	3	552	c.552C>T	c.(550-552)ATC>ATT	p.I184I		NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta	184	PI3K-RBD.				activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						AGTTTTCAGGGATGGATGGTT	0.368													22	69					0	0	0.00333	0	0		A	138461469	A	A	138461469	2	1	47	1	0	0	0	0	0	0	0	1	11933	1164	41	4		4	PIK3CB	3	138461469	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	39971734	138461469	59560961	40	35728											
SLC25A36	55186	broad.mit.edu	37	chr3	140692763	140692763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaaatgatgaagagtctGtgaaagaagcatcagatttt	16	11	11	3	0	2	6	1	3	1	3	2	7	2	7	0	1	1	1	0	1	5	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr3:140692763G>A	uc003etr.2	+	6	893	c.658G>A	c.(658-660)GTG>ATG	p.V220M	SLC25A36_uc003ets.2_Missense_Mutation_p.V220M|SLC25A36_uc003etq.2_Missense_Mutation_p.V63M|SLC25A36_uc011bmz.1_Missense_Mutation_p.V194M	NM_001104647	NP_001098117	Q96CQ1	S2536_HUMAN	solute carrier family 25, member 36 isoform a	220					response to estradiol stimulus|transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0						TGAAGAGTCTGTGAAAGAAGC	0.348													12	28					0	0	0.001855	0	0		A	140692763	A	A	140692763	3	1	47	1	0	0	0	0	1	0	0	0	14525	1377	48	4	680	4	SLC25A36	3	140692763	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	2231294	140692763	57329667	41	35729											
SI	6476	broad.mit.edu	37	chr3	164709261	164709261	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcctctgacgccaatatctTtgccctggaaatgaaaggga	11	10	10	10	1	2	2	0	2	2	0	3	4	3	4	3	2	1	0	3	2	4	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr3:164709261T>G	uc003fei.2	-	44	5050	c.4988A>C	c.(4987-4989)AAA>ACA	p.K1663T		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1663	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	GCCAATATCTTTGCCCTGGAA	0.393										HNSCC(35;0.089)			6	27					0	0	0.004482	0	0		G	164709261	G	G	164709261	3	3	47	1	0	0	0	0	1	0	0	0	14322	1841	64	5	515	5	SI	3	164709261	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	24016498	164709261	33313169	42	35730											
KCNMB2	10242	broad.mit.edu	37	chr3	178546118	178546118	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttcttccggggaaaagcTcctcctctaccacacagaag	11	8	8	14	1	2	1	0	0	2	1	5	3	5	2	4	2	2	1	4	2	4	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr3:178546118T>G	uc003fjd.2	+	4	723	c.380T>G	c.(379-381)CTC>CGC	p.L127R	uc003fjb.1_Intron|uc003fjc.1_Intron|KCNMB2_uc003fje.2_Missense_Mutation_p.L127R|KCNMB2_uc003fjf.2_Missense_Mutation_p.L127R|KCNMB2_uc011bqa.1_Intron|KCNMB2_uc011bqb.1_Intron	NM_181361	NP_852006	Q9Y691	KCMB2_HUMAN	calcium-activated potassium channel beta 2	127	Extracellular (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of vasoconstriction	voltage-gated potassium channel complex	calcium-activated potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(1)	1	all_cancers(143;5.38e-18)|Ovarian(172;0.00769)|Breast(254;0.125)		OV - Ovarian serous cystadenocarcinoma(80;1.32e-27)|GBM - Glioblastoma multiforme(14;0.0321)|BRCA - Breast invasive adenocarcinoma(182;0.0841)			GGGGAAAAGCTCCTCCTCTAC	0.483													7	30					0	0	0.010729	0	0		G	178546118	G	G	178546118	3	3	47	1	0	0	0	0	1	0	0	0	8091	1551	54	5	390	5	KCNMB2	3	178546118	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	13836857	178546118	19476312	43	35731											
ECE2	9718	broad.mit.edu	37	chr3	184009886	184009886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacaccagagagctctcacGaggggctggtgaccgacccc	9	4	13	15	2	1	2	1	1	1	1	2	5	1	2	4	3	1	3	4	3	0	0			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr3:184009886G>A	uc003fni.3	+	19	2550	c.2512G>A	c.(2512-2514)GAG>AAG	p.E838K	ECE2_uc003fnl.3_Missense_Mutation_p.E766K|ECE2_uc003fnm.3_Missense_Mutation_p.E720K|ECE2_uc003fnk.3_Missense_Mutation_p.E691K	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	838	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GAGCTCTCACGAGGGGCTGGT	0.667													10	25					0	0	0.008291	0	0		A	184009886	A	A	184009886	3	1	47	1	0	0	0	0	1	0	0	0	4896	1059	37	1	3150	1	ECE2	3	184009886	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	5463768	184009886	14012544	44	35732											
TMEM44	93109	broad.mit.edu	37	chr3	194331653	194331653	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggccactcacctgctgcaCaggctcgatggtcagctcca	8	8	10	15	1	2	0	2	0	0	0	4	1	3	0	3	3	3	4	3	3	0	0			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr3:194331653C>A	uc010hzn.2	-	9	1319	c.1150G>T	c.(1150-1152)GTG>TTG	p.V384L	TMEM44_uc010hzm.2_Missense_Mutation_p.V69L|TMEM44_uc003fuc.2_Missense_Mutation_p.V69L|TMEM44_uc003fue.2_Missense_Mutation_p.V337L|TMEM44_uc003fud.2_Missense_Mutation_p.V337L|TMEM44_uc003fuf.2_Missense_Mutation_p.V337L|TMEM44_uc011bsv.1_Missense_Mutation_p.V337L|TMEM44_uc003fuh.1_RNA	NM_001011655	NP_001011655	Q2T9K0	TMM44_HUMAN	transmembrane protein 44 isoform b	384	Cytoplasmic (Potential).					integral to membrane					0	all_cancers(143;1.41e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;9.06e-06)		ACCTGCTGCACAGGCTCGATG	0.423													9	14					1.76689e-08	1.86113e-08	0.006214	1	0		A	194331653	A	A	194331653	3	1	47	1	0	0	0	0	1	0	0	0	16193	478	17	5	323	5	TMEM44	3	194331653	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	10321767	194331653	3690777	45	35733											
RGS12	6002	broad.mit.edu	37	chr4	3318204	3318204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaaggcgtcggccgcttcGaatcctgttccagtgatgaa	8	10	12	11	4	0	3	0	3	0	0	4	4	2	3	3	2	0	2	3	2	3	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr4:3318204G>A	uc003ggw.2	+	2	1211	c.307G>A	c.(307-309)GAA>AAA	p.E103K	RGS12_uc003ggu.2_Missense_Mutation_p.E103K|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Missense_Mutation_p.E103K|RGS12_uc003ggx.1_Missense_Mutation_p.E103K	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	103						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CGGCCGCTTCGAATCCTGTTC	0.468													13	19					0	0	0.003163	0	0		A	3318204	A	A	3318204	3	1	47	1	0	0	0	0	1	0	0	0	13320	1059	37	1	309	1	RGS12	4	3318204	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08		3318204	187836072	46	35734											
STK32B	55351	broad.mit.edu	37	chr4	5468557	5468557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcacaaaggacagctgccCgctggtgagtgcttcgtggg	7	8	16	10	2	0	1	0	1	0	0	1	2	0	2	1	4	3	4	1	4	1	1	rs146908689		TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr4:5468557C>T	uc003gih.1	+	10	1101	c.1037C>T	c.(1036-1038)CCG>CTG	p.P346L	STK32B_uc010ida.1_Missense_Mutation_p.P299L	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	346							ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						GACAGCTGCCCGCTGGTGAGT	0.493													3	40					0	0	0.004672	0	0		T	5468557	T	T	5468557	3	4	47	1	0	0	0	0	1	0	0	0	15323	652	23	1	1075	1	STK32B	4	5468557	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	2150353	5468557	185685719	47	35735											
FRYL	285527	broad.mit.edu	37	chr4	48592824	48592824	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgtctgctattacaaggaaGactctgagacctatgttcat	11	13	8	9	0	3	2	1	1	2	2	3	4	3	3	1	1	2	2	1	1	5	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr4:48592824G>A	uc003gyh.1	-	17	1964	c.1359C>T	c.(1357-1359)GTC>GTT	p.V453V	FRYL_uc003gyk.2_Silent_p.V453V	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	453					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TTACAAGGAAGACTCTGAGAC	0.368													8	58					0	0	0.004482	0	0		A	48592824	A	A	48592824	2	1	47	1	0	0	0	0	0	0	0	1	6078	929	33	4		4	FRYL	4	48592824	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	43124267	48592824	142561452	48	35736											
MAPK10	5602	broad.mit.edu	37	chr4	87028500	87028500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaaggacagcatcatacGcggcactgtagagatccaag	13	7	11	10	2	2	1	2	0	0	1	3	3	3	2	1	2	2	3	1	2	4	2	rs143720396		TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr4:87028500G>A	uc003hpq.2	-	4	309	c.242C>T	c.(241-243)GCG>GTG	p.A81V	MAPK10_uc010ikg.2_Missense_Mutation_p.A43V|MAPK10_uc003hpr.2_Missense_Mutation_p.A43V|MAPK10_uc003hps.2_Missense_Mutation_p.A81V|MAPK10_uc003hpt.2_Missense_Mutation_p.A81V|MAPK10_uc003hpu.2_Missense_Mutation_p.A81V|MAPK10_uc003hpv.2_5'UTR|MAPK10_uc010ikh.1_RNA|MAPK10_uc003hpo.2_5'UTR|MAPK10_uc011ccw.1_5'UTR|MAPK10_uc003hpp.2_5'UTR	NM_138982	NP_620448	P53779	MK10_HUMAN	mitogen-activated protein kinase 10 isoform 2	81	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)		AGCATCATACGCGGCACTGTA	0.443													4	24					0	0	0.001168	0	0		A	87028500	A	A	87028500	3	1	47	1	0	0	0	0	1	0	0	0	9290	1087	38	1	1197	1	MAPK10	4	87028500	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	38435676	87028500	104125776	49	35737											
FSTL5	56884	broad.mit.edu	37	chr4	162307513	162307513	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgaggaacgcacttatagtCcttcaagttaattgtcttga	11	14	8	8	1	2	2	1	2	1	0	3	3	3	3	1	1	1	2	1	1	5	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr4:162307513C>A	uc003iqh.2	-	16	2366	c.1930G>T	c.(1930-1932)GAC>TAC	p.D644Y	FSTL5_uc003iqi.2_Missense_Mutation_p.D643Y|FSTL5_uc010iqv.2_Missense_Mutation_p.D634Y|uc010iqu.1_RNA	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	644						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CACTTATAGTCCTTCAAGTTA	0.403													21	26					1.10923e-09	1.17887e-09	0.016522	1	0		A	162307513	A	A	162307513	3	1	47	1	0	0	0	0	1	0	0	0	6094	855	30	5	617	5	FSTL5	4	162307513	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	75279013	162307513	28846763	50	35738											
GALNTL6	442117	broad.mit.edu	37	chr4	173730599	173730599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagagaaggactcatccGgacccgtctcctgggggcat	11	6	13	11	2	2	1	1	0	1	1	4	5	3	3	3	4	0	1	3	4	3	0	rs146548110		TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr4:173730599G>A	uc003isv.2	+	6	1377	c.641G>A	c.(640-642)CGG>CAG	p.R214Q		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	214	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						GGACTCATCCGGACCCGTCTC	0.517													16	28					0	0	0.00499	0	0		A	173730599	A	A	173730599	3	1	47	1	0	0	0	0	1	0	0	0	6240	1116	39	1	659	1	GALNTL6	4	173730599	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	11423086	173730599	17423677	51	35739											
FRG1	2483	broad.mit.edu	37	chr4	190878615	190878615	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaatgaagcaggggacatAgaagcaaaaagtaaaacagc	20	4	11	6	0	0	2	0	1	0	1	0	3	0	3	0	2	5	4	0	2	8	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr4:190878615A>G	uc003izs.2	+	6	686	c.495A>G	c.(493-495)ATA>ATG	p.I165M		NM_004477	NP_004468	Q14331	FRG1_HUMAN	FSHD region gene 1	165					rRNA processing	Cajal body|catalytic step 2 spliceosome|nuclear speck|nucleolus					0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;1.73e-30)|Epithelial(3;5.85e-30)|OV - Ovarian serous cystadenocarcinoma(60;5.56e-15)|BRCA - Breast invasive adenocarcinoma(30;9.14e-06)|Lung(3;3.54e-05)|STAD - Stomach adenocarcinoma(60;8.83e-05)|LUSC - Lung squamous cell carcinoma(40;0.000198)|GBM - Glioblastoma multiforme(59;0.00892)|READ - Rectum adenocarcinoma(43;0.161)		CAGGGGACATAGAAGCAAAAA	0.378													3	52					0	0	0.004482	0	0		G	190878615	G	G	190878615	3	3	47	1	0	0	0	0	1	0	0	0	6060	410	15	3	517	3	FRG1	4	190878615	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	17148016	190878615	275661	52	35740											
TUBB4Q	56604	broad.mit.edu	37	chr4	190905444	190905444	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctggcctgaagacctgcccGaagggccccgagcgcacaga	9	4	13	15	3	1	3	0	1	1	2	1	5	1	3	5	2	2	1	5	2	2	0			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr4:190905444G>A	uc011clg.1	-	3	243	c.240C>T	c.(238-240)TTC>TTT	p.F80F		NM_020040	NP_064424	Q99867	TBB4Q_HUMAN	tubulin, beta polypeptide 4, member Q	81					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;4.1e-31)|Epithelial(3;1.44e-30)|OV - Ovarian serous cystadenocarcinoma(60;2.03e-15)|BRCA - Breast invasive adenocarcinoma(30;8.54e-06)|Lung(3;3.23e-05)|STAD - Stomach adenocarcinoma(60;8.24e-05)|LUSC - Lung squamous cell carcinoma(40;0.000184)|GBM - Glioblastoma multiforme(59;0.00839)|READ - Rectum adenocarcinoma(43;0.155)		AGACCTGCCCGAAGGGCCCCG	0.667													7	41					0	0	0.004482	0	0		A	190905444	A	A	190905444	2	1	47	1	0	0	0	0	0	0	0	1	16785	1049	37	1		1	TUBB4Q	4	190905444	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	26829	190905444	248832	53	35741											
IRX1	79192	broad.mit.edu	37	chr5	3599410	3599410	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcccacacggcgccggcTtattacccctacggccagtt	7	7	10	17	4	0	0	0	0	0	0	0	0	0	0	5	3	3	3	5	3	3	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr5:3599410T>G	uc003jde.2	+	2	400	c.348T>G	c.(346-348)GCT>GCG	p.A116A		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	116						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CGGCGCCGGCTTATTACCCCT	0.652													17	42					0	0	0.007413	0	0		G	3599410	G	G	3599410	2	3	47	1	0	0	0	0	0	0	0	1	7859	1596	56	5		5	IRX1	5	3599410	Silent	SNP	T	TCGA-BR-7197-01A-11D-2201-08		3599410	177315850	54	35742											
ADAMTS16	170690	broad.mit.edu	37	chr5	5239336	5239336	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtgtaacgggaataacTcagcctgcacgattcacagg	11	8	13	9	2	2	0	2	0	0	0	2	2	2	1	1	3	4	2	1	3	3	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr5:5239336T>C	uc003jdl.2	+	15	2365	c.2227T>C	c.(2227-2229)TCA>CCA	p.S743P	ADAMTS16_uc003jdk.1_Missense_Mutation_p.S743P|ADAMTS16_uc010itk.1_RNA	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	743	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CGGGAATAACTCAGCCTGCAC	0.512													118	83					0	0	0.01441	0	0		C	5239336	C	C	5239336	3	2	47	1	0	0	0	0	1	0	0	0	261	1551	54	3	2285	3	ADAMTS16	5	5239336	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	1639926	5239336	175675924	55	35743											
TRIO	7204	broad.mit.edu	37	chr5	14504649	14504649	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccagcaccccctgcttgtCggcctcctcgacacctttga	5	10	7	19	2	0	1	0	1	0	0	4	2	2	1	6	1	2	2	6	1	0	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr5:14504649C>T	uc003jff.2	+	55	8565	c.8559C>T	c.(8557-8559)GTC>GTT	p.V2853V	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2853	Protein kinase.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					CCCTGCTTGTCGGCCTCCTCG	0.587													109	172					0	0	0.01441	0	0		T	14504649	T	T	14504649	2	4	47	1	0	0	0	0	0	0	0	1	16578	871	31	1		1	TRIO	5	14504649	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08	9265313	14504649	166410611	56	35744											
IL7R	3575	broad.mit.edu	37	chr5	35876425	35876425	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtaccaggacctcctgcTtagccttgggactacaaaca	10	10	9	12	0	0	0	0	0	0	0	1	2	1	2	4	2	5	2	4	2	4	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr5:35876425T>G	uc003jjs.2	+	8	1306	c.1217T>G	c.(1216-1218)CTT>CGT	p.L406R	IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	406	Cytoplasmic (Potential).				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			GACCTCCTGCTTAGCCTTGGG	0.532													13	148					0	0	0.004007	0	0		G	35876425	G	G	35876425	3	3	47	1	0	0	0	0	1	0	0	0	7721	1609	56	5	1247	5	IL7R	5	35876425	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	21371776	35876425	145038835	57	35745											
HCN1	348980	broad.mit.edu	37	chr5	45645353	45645353	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacgcaagagactgagaatTtttgtaaacctcacaatgcg	16	9	8	8	2	1	2	1	1	0	2	1	4	1	2	1	0	3	2	1	0	6	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr5:45645353T>G	uc003jok.2	-	2	808	c.783A>C	c.(781-783)AAA>AAC	p.K261N		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	261	Helical; Voltage-sensor; Name=Segment S4; (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GACTGAGAATTTTTGTAAACC	0.343													16	27					0	0	0.010504	0	0		G	45645353	G	G	45645353	3	3	47	1	0	0	0	0	1	0	0	0	7012	1838	64	5	1917	5	HCN1	5	45645353	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	9768928	45645353	135269907	58	35746											
APC	324	broad.mit.edu	37	chr5	112151261	112151261	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagcacacactctgcacctCgaaggctgacaagtcatctg	11	8	9	13	1	3	1	1	1	2	0	4	2	3	1	1	1	2	4	1	1	3	1	rs137854568		TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr5:112151261C>T	uc010jby.2	+	9	1284	c.904C>T	c.(904-906)CGA>TGA	p.R302*	APC_uc011cvt.1_Nonsense_Mutation_p.R284*|APC_uc003kpz.3_Nonsense_Mutation_p.R302*|APC_uc003kpy.3_Nonsense_Mutation_p.R302*|APC_uc010jbz.2_Nonsense_Mutation_p.R19*	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	302	Leu-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.R302*(10)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		CTCTGCACCTCGAAGGCTGAC	0.388		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			11	28					0	0	0.013537	0	0		T	112151261	T	T	112151261	4	4	47	1	0	0	0	0	0	1	0	0	763	876	31	1	934	1	APC	5	112151261	Nonsense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	66505908	112151261	68763999	59	35747											
ZNF474	133923	broad.mit.edu	37	chr5	121488479	121488479	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaccagccactcccacagaAgcctcagccccttccgaatg	10	5	6	20	1	1	1	1	0	0	1	3	2	3	1	8	0	3	0	8	0	2	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr5:121488479A>C	uc003ksv.2	+	2	1170	c.794A>C	c.(793-795)AAG>ACG	p.K265T		NM_207317	NP_997200	Q6S9Z5	ZN474_HUMAN	zinc finger protein 474	265						intracellular	zinc ion binding				0		all_cancers(142;0.229)|Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000197)|Epithelial(69;0.00029)|all cancers(49;0.00415)		CTCCCACAGAAGCCTCAGCCC	0.552													12	19					0	0	0.001855	0	0		C	121488479	C	C	121488479	3	2	47	1	0	0	0	0	1	0	0	0	17957	72	3	5	796	5	ZNF474	5	121488479	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	9337218	121488479	59426781	60	35748											
SLC12A2	6558	broad.mit.edu	37	chr5	127510310	127510310	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatatagtaaaaagtccGatttagatacttccaaacca	17	11	6	7	1	0	1	0	0	0	1	2	3	2	2	3	1	2	1	3	1	9	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr5:127510310G>T	uc003kus.2	+	20	3045	c.2881G>T	c.(2881-2883)GAT>TAT	p.D961Y	SLC12A2_uc010jdf.2_RNA|SLC12A2_uc010jdg.2_Missense_Mutation_p.D961Y	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12	961	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	TAAAAAGTCCGATTTAGATAC	0.308													9	17					1.08611e-07	1.13395e-07	0.010729	1	0		T	127510310	T	T	127510310	3	4	47	1	0	0	0	0	1	0	0	0	14408	1058	37	5	2959	5	SLC12A2	5	127510310	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	6021831	127510310	53404950	61	35749											
F13A1	2162	broad.mit.edu	37	chr6	6145969	6145969	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagacccagggccggcacacTtcttcccactgcacggtgga	8	6	12	15	2	1	1	0	0	1	1	2	3	2	2	3	4	1	2	3	4	0	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:6145969T>G	uc003mwv.2	-	15	2205	c.2082A>C	c.(2080-2082)GAA>GAC	p.E694D	F13A1_uc011dib.1_Missense_Mutation_p.K588T	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	694					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	GCCGGCACACTTCTTCCCACT	0.537													18	97					0	0	0.008871	0	0		G	6145969	G	G	6145969	3	3	47	1	0	0	0	0	1	0	0	0	5348	1606	56	5	120	5	F13A1	6	6145969	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08		6145969	164969098	62	35750											
ABCF1	23	broad.mit.edu	37	chr6	30550930	30550930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggcggagatgtcctccCgccaagccatgttagaaaat	11	7	10	13	2	0	2	0	0	0	2	2	3	2	2	5	2	1	1	5	2	4	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:30550930C>T	uc003nql.2	+	10	975	c.880C>T	c.(880-882)CGC>TGC	p.R294C	ABCF1_uc003nqk.2_Missense_Mutation_p.R295C|ABCF1_uc003nqm.2_Missense_Mutation_p.R256C|ABCF1_uc010jsb.2_Intron|MIR877_hsa-mir-877|MI0005561_5'Flank	NM_001025091	NP_001020262	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F, member 1	294					inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2						GATGTCCTCCCGCCAAGCCAT	0.517													23	60					0	0	0.005443	0	0		T	30550930	T	T	30550930	3	4	47	1	0	0	0	0	1	0	0	0	65	652	23	1	918	1	ABCF1	6	30550930	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	24404961	30550930	140564137	63	35751											
MCCD1	401250	broad.mit.edu	37	chr6	31496954	31496954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaatgggaagatgacgtccCctcccagggtaagtggcacc	11	6	13	11	1	0	2	0	1	0	1	2	4	2	3	4	3	0	2	4	3	3	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:31496954C>T	uc003ntp.1	+	1	216	c.163C>T	c.(163-165)CCT>TCT	p.P55S		NM_001011700	NP_001011700	P59942	MCCD1_HUMAN	mitochondrial coiled-coil domain 1 precursor	55						mitochondrion					0						GATGACGTCCCCTCCCAGGGT	0.567													7	51					0	0	0.004482	0	0		T	31496954	T	T	31496954	3	4	47	1	0	0	0	0	1	0	0	0	9394	623	22	4	165	4	MCCD1	6	31496954	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	946024	31496954	139618113	64	35752											
TNXB	7148	broad.mit.edu	37	chr6	32020588	32020588	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacgcaccacctggggccGcccgtccctgtccttgtact	5	8	10	18	3	0	0	0	0	0	0	2	1	2	0	6	2	1	2	6	2	1	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:32020588G>T	uc003nzl.2	-	26	9170	c.8968C>A	c.(8968-8970)CGG>AGG	p.R2990R		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3037	Fibronectin type-III 22.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						ACCTGGGGCCGCCCGTCCCTG	0.657													11	45					1.5842e-08	1.67614e-08	0.001855	1	0		T	32020588	T	T	32020588	2	4	47	1	0	0	0	0	0	0	0	1	16371	1086	38	5		5	TNXB	6	32020588	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	523634	32020588	139094479	65	35753											
FAM83B	222584	broad.mit.edu	37	chr6	54806564	54806564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcattcaactgatcggcGtgtttacagtcgttttgagc	8	15	9	9	3	2	2	2	2	1	0	5	2	2	2	0	1	3	2	0	1	2	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:54806564G>A	uc003pck.2	+	5	2911	c.2795G>A	c.(2794-2796)CGT>CAT	p.R932H		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	932										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					ACTGATCGGCGTGTTTACAGT	0.428													17	56					0	0	0.004007	0	0		A	54806564	A	A	54806564	3	1	47	1	0	0	0	0	1	0	0	0	5648	1145	40	1	2809	1	FAM83B	6	54806564	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	22785976	54806564	116308503	66	35754											
BAI3	577	broad.mit.edu	37	chr6	70071081	70071081	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaagaaagaatgatggaaAgtgactatattgtgatgccc	15	10	10	6	0	1	5	1	3	0	2	1	6	1	6	1	1	1	0	1	1	6	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:70071081A>C	uc003pev.3	+	29	4364	c.3916A>C	c.(3916-3918)AGT>CGT	p.S1306R	BAI3_uc010kak.2_Missense_Mutation_p.S1306R|BAI3_uc011dxx.1_Missense_Mutation_p.S512R	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1306	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AATGATGGAAAGTGACTATAT	0.393													12	36					0	0	0.010729	0	0		C	70071081	C	C	70071081	3	2	47	1	0	0	0	0	1	0	0	0	1301	72	3	5	4022	5	BAI3	6	70071081	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	15264517	70071081	101043986	67	35755											
LMBRD1	55788	broad.mit.edu	37	chr6	70423647	70423647	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttcttcaaattgttttaAggcgcgtttatcccttgctg	6	18	7	10	2	2	0	1	0	1	0	3	0	3	0	2	1	1	3	2	1	3	8			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:70423647A>C	uc003pfa.2	-	9	920	c.805T>G	c.(805-807)TTA>GTA	p.L269V	LMBRD1_uc003pey.2_Missense_Mutation_p.L65V|LMBRD1_uc003pez.2_Missense_Mutation_p.L196V|LMBRD1_uc010kal.2_Missense_Mutation_p.L196V|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	269	Cytoplasmic (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						AATTGTTTTAAGGCGCGTTTA	0.383													8	46					0	0	0.00308	0	0		C	70423647	C	C	70423647	3	2	47	1	0	0	0	0	1	0	0	0	8859	69	3	5	849	5	LMBRD1	6	70423647	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	352566	70423647	100691420	68	35756											
FILIP1	27145	broad.mit.edu	37	chr6	76063321	76063321	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgtagtcagtgtgtttaTgcttctcgttctctaactcg	6	18	8	9	2	4	0	2	0	2	0	7	0	4	0	0	0	2	4	0	0	3	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:76063321T>A	uc003pia.2	-	4	936	c.563A>T	c.(562-564)CAT>CTT	p.H188L	FILIP1_uc003phy.1_Missense_Mutation_p.H188L|FILIP1_uc003phz.2_Missense_Mutation_p.H89L|FILIP1_uc010kbe.2_Missense_Mutation_p.H191L	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	188										skin(3)|ovary(1)	4						AGTGTGTTTATGCTTCTCGTT	0.517													31	129					0	0	0.010818	0	0		A	76063321	A	A	76063321	3	1	47	1	0	0	0	0	1	0	0	0	5908	1464	51	5	3090	5	FILIP1	6	76063321	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	5639674	76063321	95051746	69	35757											
PHIP	55023	broad.mit.edu	37	chr6	79664656	79664656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaagactgggctctattacGtaatcttcttctaggctgat	9	15	9	8	1	4	2	0	1	4	1	4	2	4	2	0	2	1	4	0	2	5	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:79664656G>A	uc003pir.2	-	35	4154	c.3928C>T	c.(3928-3930)CGT>TGT	p.R1310C	PHIP_uc003piq.2_Missense_Mutation_p.R334C|PHIP_uc011dyp.1_Missense_Mutation_p.R1309C|PHIP_uc003pio.3_Missense_Mutation_p.R196C	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1310					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		GCTCTATTACGTAATCTTCTT	0.328													10	21					0	0	0.001855	0	0		A	79664656	A	A	79664656	3	1	47	1	0	0	0	0	1	0	0	0	11861	1145	40	1	1561	1	PHIP	6	79664656	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	3601335	79664656	91450411	70	35758											
ASCC3	10973	broad.mit.edu	37	chr6	100960674	100960674	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatccatttgttgtcatctcGtttgtctgcagtcagagttg	6	17	10	8	1	4	1	2	0	2	1	6	2	5	1	1	0	1	4	1	0	0	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:100960674G>A	uc003pqk.2	-	40	6525	c.6196C>T	c.(6196-6198)CGA>TGA	p.R2066*		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	2066					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		TTGTCATCTCGTTTGTCTGCA	0.428													15	84					0	0	0.004007	0	0		A	100960674	A	A	100960674	4	1	47	1	0	0	0	0	0	1	0	0	1034	1153	40	1	424	1	ASCC3	6	100960674	Nonsense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	21296018	100960674	70154393	71	35759											
FIG4	9896	broad.mit.edu	37	chr6	110064385	110064385	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgtctttcactgcaggaAgttattcttcatatgtacaa	11	16	7	7	0	4	1	2	1	2	0	4	2	4	2	0	1	2	3	0	1	5	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:110064385A>C	uc003ptt.2	+	9	1164	c.949A>C	c.(949-951)AGT>CGT	p.S317R	FIG4_uc011eau.1_Intron	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	317	SAC.				cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		CACTGCAGGAAGTTATTCTTC	0.398													32	101					0	0	0.015359	0	0		C	110064385	C	C	110064385	3	2	47	1	0	0	0	0	1	0	0	0	5902	72	3	5	983	5	FIG4	6	110064385	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	9103711	110064385	61050682	72	35760											
UTRN	7402	broad.mit.edu	37	chr6	144780063	144780063	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatgagcttgaaaaggtcatCaagacaaaggaggagtgggt	15	7	15	4	0	2	3	2	2	0	1	2	6	2	5	0	4	1	1	0	4	4	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:144780063C>G	uc003qkt.2	+	19	2534	c.2442C>G	c.(2440-2442)ATC>ATG	p.I814M	UTRN_uc010khq.1_Missense_Mutation_p.I814M	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	814	Interaction with SYNM.|Spectrin 6.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		AAAAGGTCATCAAGACAAAGG	0.418													17	14					0	0	0.006122	0	0		G	144780063	G	G	144780063	3	3	47	1	0	0	0	0	1	0	0	0	17129	816	29	5	2516	5	UTRN	6	144780063	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	34715678	144780063	26335004	73	35761											
SYNE1	23345	broad.mit.edu	37	chr6	152671358	152671358	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcttgtctccaggaggTcaggtgccaccagtctgcca	6	9	13	13	0	3	0	1	0	2	0	4	1	3	1	4	4	3	2	4	4	0	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr6:152671358T>A	uc010kiw.2	-	72	12448	c.11846A>T	c.(11845-11847)GAC>GTC	p.D3949V	SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Missense_Mutation_p.D3949V|SYNE1_uc010kja.1_Missense_Mutation_p.D654V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3949	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTCCAGGAGGTCAGGTGCCAC	0.542										HNSCC(10;0.0054)			32	46					0	0	0.004878	0	0		A	152671358	A	A	152671358	3	1	47	1	0	0	0	0	1	0	0	0	15470	1667	58	5	14920	5	SYNE1	6	152671358	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	7891295	152671358	18443709	74	35762											
C7orf27	221927	broad.mit.edu	37	chr7	2578824	2578824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctcctacctgccgggcctCtgcatgctcagggctggtgg	4	9	13	15	1	2	0	1	0	1	0	3	0	3	0	5	4	4	3	5	4	1	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:2578824C>T	uc003smi.2	-	13	1801	c.1759G>A	c.(1759-1761)GAG>AAG	p.E587K	C7orf27_uc003smh.3_Missense_Mutation_p.E19K	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	587					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)		TGCCGGGCCTCTGCATGCTCA	0.672													17	67					0	0	0.010504	0	0		T	2578824	T	T	2578824	3	4	47	1	0	0	0	0	1	0	0	0	2385	922	32	4	714	4	C7orf27	7	2578824	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08		2578824	156559839	75	35763											
DGKB	1607	broad.mit.edu	37	chr7	14724974	14724974	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgccacacgtgctgtccaTcatccttcacgttctgcatg	6	12	8	15	3	3	0	2	0	1	0	6	0	5	0	3	0	2	3	3	0	0	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:14724974T>G	uc003ssz.2	-	9	912	c.725A>C	c.(724-726)GAT>GCT	p.D242A	DGKB_uc011jxt.1_Missense_Mutation_p.D235A|DGKB_uc003sta.2_Missense_Mutation_p.D242A|DGKB_uc011jxu.1_Missense_Mutation_p.D242A|DGKB_uc011jxv.1_Missense_Mutation_p.D242A	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	242					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	GTGCTGTCCATCATCCTTCAC	0.463													10	100					0	0	0.001855	0	0		G	14724974	G	G	14724974	3	3	47	1	0	0	0	0	1	0	0	0	4472	1435	50	5	1772	5	DGKB	7	14724974	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	12146150	14724974	144413689	76	35764											
STK31	56164	broad.mit.edu	37	chr7	23871800	23871800	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagcttgatatgttatagaAgttcaatgactgctgaacaa	14	13	9	5	0	1	4	1	3	0	1	1	4	1	4	0	0	3	5	0	0	8	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:23871800A>C	uc003sws.3	+	24	2942	c.2875A>C	c.(2875-2877)AGT>CGT	p.S959R	STK31_uc003swt.3_Missense_Mutation_p.S936R|STK31_uc011jze.1_Missense_Mutation_p.S936R|STK31_uc010kuq.2_Missense_Mutation_p.S936R|STK31_uc003swv.1_Missense_Mutation_p.S125R	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	959	Protein kinase.						ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						ATGTTATAGAAGTTCAATGAC	0.358													10	63					0	0	0.001855	0	0		C	23871800	C	C	23871800	3	2	47	1	0	0	0	0	1	0	0	0	15321	72	3	5	2969	5	STK31	7	23871800	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	9146826	23871800	135266863	77	35765											
NFE2L3	9603	broad.mit.edu	37	chr7	26224983	26224983	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttctgtagatgaaattgtCggcatgcctgttgattcttt	7	19	9	6	1	2	3	0	2	2	1	3	3	2	3	1	1	1	3	1	1	2	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:26224983C>T	uc003sxq.2	+	4	1937	c.1665C>T	c.(1663-1665)GTC>GTT	p.V555V		NM_004289	NP_004280	Q9Y4A8	NF2L3_HUMAN	nuclear factor erythroid 2-like 3	555					transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			skin(3)|ovary(1)	4						ATGAAATTGTCGGCATGCCTG	0.393													5	81					0	0	0.014758	0	0		T	26224983	T	T	26224983	2	4	47	1	0	0	0	0	0	0	0	1	10388	871	31	1		1	NFE2L3	7	26224983	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08	2353183	26224983	132913680	78	35766											
ABCA13	154664	broad.mit.edu	37	chr7	48559811	48559811	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaactttctgggctggatcTtcgtgcaactggcctcgcag	6	12	12	11	2	2	1	0	1	2	0	4	2	2	2	1	3	3	3	1	3	2	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:48559811T>A	uc003toq.2	+	53	13997	c.13972T>A	c.(13972-13974)TTC>ATC	p.F4658I	ABCA13_uc010kys.1_Missense_Mutation_p.F1733I|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Missense_Mutation_p.F388I	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4658	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GGGCTGGATCTTCGTGCAACT	0.502													8	47					0	0	0.006214	0	0		A	48559811	A	A	48559811	3	1	47	1	0	0	0	0	1	0	0	0	31	1609	56	5	14011	5	ABCA13	7	48559811	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	22334828	48559811	110578852	79	35767											
STX1A	6804	broad.mit.edu	37	chr7	73122931	73122931	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactcactctcatcggggtTgggggatgccaggatggcac	8	8	14	11	1	2	0	2	0	1	0	4	2	2	2	1	6	1	2	1	6	0	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:73122931T>G	uc003tyx.2	-	3	223	c.196A>C	c.(196-198)AAC>CAC	p.N66H	STX1A_uc003tyy.2_Missense_Mutation_p.N66H|STX1A_uc010lbj.1_Missense_Mutation_p.N66H|hsa-mir-4284|MI0015893_5'Flank	NM_004603	NP_004594	Q16623	STX1A_HUMAN	syntaxin 1A isoform 1	66	Cytoplasmic (Potential).				energy reserve metabolic process|glutamate secretion|intracellular protein transport|regulation of insulin secretion	cell junction|extracellular region|integral to membrane|neuron projection|synaptic vesicle membrane|synaptosome	SNAP receptor activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				TCATCGGGGTTGGGGGATGCC	0.637													8	43					0	0	0.006214	0	0		G	73122931	G	G	73122931	3	3	47	1	0	0	0	0	1	0	0	0	15368	1812	63	5	702	5	STX1A	7	73122931	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	24563120	73122931	86015732	80	35768											
PCLO	27445	broad.mit.edu	37	chr7	82544655	82544655	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagaagtcatatagcttgaaTaatcaggttcaaggtctcta	14	13	8	6	0	4	2	3	1	1	1	5	2	4	2	0	2	1	2	0	2	8	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:82544655T>G	uc003uhx.2	-	7	12936	c.12647A>C	c.(12646-12648)TAT>TCT	p.Y4216S	PCLO_uc003uhv.2_Missense_Mutation_p.Y4216S|PCLO_uc010lec.2_Missense_Mutation_p.Y1181S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4147					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ATAGCTTGAATAATCAGGTTC	0.358													3	22					0	0	0.004672	0	0		G	82544655	G	G	82544655	3	3	47	1	0	0	0	0	1	0	0	0	11602	1406	49	5	2874	5	PCLO	7	82544655	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	9421724	82544655	76594008	81	35769											
PCLO	27445	broad.mit.edu	37	chr7	82544697	82544697	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttgaataggtgaaaatTttgacattttagggtcaatt	12	18	8	3	0	2	3	1	3	1	0	2	3	2	3	0	2	0	0	0	2	6	8			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:82544697T>A	uc003uhx.2	-	7	12894	c.12605A>T	c.(12604-12606)AAA>ATA	p.K4202I	PCLO_uc003uhv.2_Missense_Mutation_p.K4202I|PCLO_uc010lec.2_Missense_Mutation_p.K1167I	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4133					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGGTGAAAATTTTGACATTTT	0.383													4	25					0	0	0.009096	0	0		A	82544697	A	A	82544697	3	1	47	1	0	0	0	0	1	0	0	0	11602	1841	64	5	2916	5	PCLO	7	82544697	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	42	82544697	76593966	82	35770											
PCLO	27445	broad.mit.edu	37	chr7	82581838	82581838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctgcacccactaggctttCtgtgcctgtagtgtaacttg	6	15	9	11	0	2	0	0	0	2	0	2	0	2	0	2	1	3	4	2	1	3	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:82581838C>T	uc003uhx.2	-	5	8720	c.8431G>A	c.(8431-8433)GAA>AAA	p.E2811K	PCLO_uc003uhv.2_Missense_Mutation_p.E2811K|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2742					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ACTAGGCTTTCTGTGCCTGTA	0.473													13	56					0	0	0.001855	0	0		T	82581838	T	T	82581838	3	4	47	1	0	0	0	0	1	0	0	0	11602	922	32	4	7098	4	PCLO	7	82581838	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	37141	82581838	76556825	83	35771											
PCLO	27445	broad.mit.edu	37	chr7	82583158	82583158	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtaactgagatgcaggttTttcctgaccaaaggtctctc	9	13	10	9	0	1	2	0	2	1	1	4	3	2	2	2	3	2	3	2	3	2	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:82583158T>A	uc003uhx.2	-	5	7400	c.7111A>T	c.(7111-7113)AAA>TAA	p.K2371*	PCLO_uc003uhv.2_Nonsense_Mutation_p.K2371*|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2302					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GATGCAGGTTTTTCCTGACCA	0.433													3	14					0	0	0.004672	0	0		A	82583158	A	A	82583158	4	1	47	1	0	0	0	0	0	1	0	0	11602	1850	64	5	8418	5	PCLO	7	82583158	Nonsense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	1320	82583158	76555505	84	35772											
SAMD9	54809	broad.mit.edu	37	chr7	92733880	92733880	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttctctttgccaggaacTtggatcaaagggtttatatt	9	17	8	7	0	3	0	1	0	2	0	4	2	3	2	1	3	2	1	1	3	4	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:92733880T>G	uc003umf.2	-	3	1787	c.1531A>C	c.(1531-1533)AGT>CGT	p.S511R	SAMD9_uc003umg.2_Missense_Mutation_p.S511R	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	511						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			TGCCAGGAACTTGGATCAAAG	0.388													17	100					0	0	0.006122	0	0		G	92733880	G	G	92733880	3	3	47	1	0	0	0	0	1	0	0	0	13851	1609	56	5	3242	5	SAMD9	7	92733880	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	10150722	92733880	66404783	85	35773											
SGCE	8910	broad.mit.edu	37	chr7	94257572	94257572	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacccatataggactccaTcactatatggtgtcctttgg	9	12	10	10	0	1	0	1	0	0	0	3	2	3	2	3	4	0	0	3	4	4	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:94257572T>C	uc003unl.2	-	3	443	c.332A>G	c.(331-333)GAT>GGT	p.D111G	SGCE_uc003unm.2_Missense_Mutation_p.D111G|SGCE_uc003unn.2_Missense_Mutation_p.D111G|SGCE_uc011kic.1_Missense_Mutation_p.D70G|SGCE_uc011kid.1_Missense_Mutation_p.D147G	NM_003919	NP_003910	O43556	SGCE_HUMAN	sarcoglycan, epsilon isoform 2	111	Extracellular (Potential).				cell-matrix adhesion|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			TAGGACTCCATCACTATATGG	0.388													9	25					0	0	0.004482	0	0		C	94257572	C	C	94257572	3	2	47	1	0	0	0	0	1	0	0	0	14227	1435	50	3	1169	3	SGCE	7	94257572	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	1523692	94257572	64881091	86	35774											
DYNC1I1	1780	broad.mit.edu	37	chr7	95709704	95709704	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcaagtgtggccattgagggGgcatccgccctaaaccgtgt	8	8	14	11	2	0	1	0	1	0	0	1	1	1	1	4	3	1	2	4	3	3	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:95709704G>A	uc003uoc.3	+	16	2008	c.1731G>A	c.(1729-1731)GGG>GGA	p.G577G	DYNC1I1_uc003uod.3_Silent_p.G560G|DYNC1I1_uc003uob.2_Silent_p.G540G|DYNC1I1_uc003uoe.3_Silent_p.G557G|DYNC1I1_uc010lfl.2_Silent_p.G566G	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	577	WD 7.				vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			CCATTGAGGGGGCATCCGCCC	0.453													27	88					0	0	0.007291	0	0		A	95709704	A	A	95709704	2	1	47	1	0	0	0	0	0	0	0	1	4848	1219	43	4		4	DYNC1I1	7	95709704	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	1452132	95709704	63428959	87	35775											
RELN	5649	broad.mit.edu	37	chr7	103322678	103322678	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttcatttccatggaaatAaatggagttcccatctgact	11	13	7	10	0	2	1	1	1	1	0	4	3	4	3	3	2	0	1	3	2	3	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:103322678A>G	uc003vca.2	-	11	1334	c.1174T>C	c.(1174-1176)TAT>CAT	p.Y392H	RELN_uc010liz.2_Missense_Mutation_p.Y392H	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	392					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCATGGAAATAAATGGAGTTC	0.433													30	71					0	0	0.010818	0	0		G	103322678	G	G	103322678	3	3	47	1	0	0	0	0	1	0	0	0	13245	362	13	3	9428	3	RELN	7	103322678	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	7612974	103322678	55815985	88	35776											
C7orf58	79974	broad.mit.edu	37	chr7	120770266	120770266	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaaatcctggctcagtcCtgacccaatactggtctctt	8	12	9	12	0	2	1	1	1	1	0	5	2	4	2	3	3	1	1	3	3	3	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:120770266C>T	uc003vjq.3	+	12	1942	c.1495C>T	c.(1495-1497)CTG>TTG	p.L499L	C7orf58_uc003vjr.1_Silent_p.L499L|C7orf58_uc003vjs.3_Silent_p.L499L|C7orf58_uc003vjt.3_Silent_p.L279L|C7orf58_uc010lkk.1_Silent_p.L279L	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	499						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					TGGCTCAGTCCTGACCCAATA	0.403													21	82					0	0	0.014323	0	0		T	120770266	T	T	120770266	2	4	47	1	0	0	0	0	0	0	0	1	2408	680	24	4		4	C7orf58	7	120770266	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08	17447588	120770266	38368397	89	35777											
C7orf58	79974	broad.mit.edu	37	chr7	120781020	120781020	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacaattggagtggaaacTcctaagtgtctgtgcaaggt	11	11	13	6	0	1	1	0	1	1	0	2	3	2	3	1	3	2	1	1	3	4	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:120781020T>C	uc003vjq.3	+	15	2286	c.1839T>C	c.(1837-1839)ACT>ACC	p.T613T	C7orf58_uc003vjs.3_Silent_p.T613T|C7orf58_uc003vjt.3_Silent_p.T393T	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	613						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					GAGTGGAAACTCCTAAGTGTC	0.443													8	33					0	0	0.006214	0	0		C	120781020	C	C	120781020	2	2	47	1	0	0	0	0	0	0	0	1	2408	1538	54	3		3	C7orf58	7	120781020	Silent	SNP	T	TCGA-BR-7197-01A-11D-2201-08	10754	120781020	38357643	90	35778											
C7orf58	79974	broad.mit.edu	37	chr7	120876819	120876819	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgggttacagcctattTcttctgactacattgaagcc	8	14	8	11	0	2	2	0	2	2	0	2	2	2	2	3	1	4	1	3	1	4	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:120876819T>C	uc003vjq.3	+	17	2554	c.2107T>C	c.(2107-2109)TCT>CCT	p.S703P	C7orf58_uc003vjs.3_Missense_Mutation_p.S703P|C7orf58_uc003vjt.3_Missense_Mutation_p.S483P	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	703						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					ACAGCCTATTTCTTCTGACTA	0.358													17	61					0	0	0.008871	0	0		C	120876819	C	C	120876819	3	2	47	1	0	0	0	0	1	0	0	0	2408	1783	62	3	2169	3	C7orf58	7	120876819	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	95799	120876819	38261844	91	35779											
ABCF2	10061	broad.mit.edu	37	chr7	150920882	150920882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccctcatctctgccttgtCggcatccagctcctccaggc	4	10	9	18	1	2	0	1	0	1	0	7	0	5	0	5	3	2	2	5	3	0	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:150920882C>T	uc003wjp.2	-	5	715	c.604G>A	c.(604-606)GAC>AAC	p.D202N	ABCF2_uc003wjo.1_Missense_Mutation_p.D202N	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	202	ABC transporter 1.					ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TCTGCCTTGTCGGCATCCAGC	0.592													4	7					0	0	0.009096	0	0		T	150920882	T	T	150920882	3	4	47	1	0	0	0	0	1	0	0	0	66	884	31	1	1352	1	ABCF2	7	150920882	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	30044063	150920882	8217781	92	35780											
UBE3C	9690	broad.mit.edu	37	chr7	157000610	157000610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catacagatggaacagaaaaGatggattcagttatttaagg	17	10	10	4	0	1	3	1	0	0	3	1	5	1	5	0	3	2	1	0	3	6	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr7:157000610G>A	uc010lqs.2	+	13	2102	c.1790G>A	c.(1789-1791)AGA>AAA	p.R597K	UBE3C_uc003wng.2_Missense_Mutation_p.R597K	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	597					protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		GAACAGAAAAGATGGATTCAG	0.328													5	33					0	0	0.001984	0	0		A	157000610	A	A	157000610	3	1	47	1	0	0	0	0	1	0	0	0	16907	942	33	4	1840	4	UBE3C	7	157000610	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	6079728	157000610	2138053	93	35781											
UNC5D	137970	broad.mit.edu	37	chr8	35541239	35541239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctgtcggccactgttgtgGtctacggtaagaccattcca	7	11	11	12	2	1	1	0	0	1	1	3	1	2	1	4	3	1	2	4	3	2	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr8:35541239G>A	uc003xjr.1	+	5	1073	c.745G>A	c.(745-747)GTC>ATC	p.V249I	UNC5D_uc003xjs.1_Missense_Mutation_p.V244I|UNC5D_uc003xjt.1_Missense_Mutation_p.V18I	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	249	Extracellular (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CACTGTTGTGGTCTACGGTAA	0.512													5	18					0	0	0.014758	0	0		A	35541239	A	A	35541239	3	1	47	1	0	0	0	0	1	0	0	0	17021	1261	44	4	763	4	UNC5D	8	35541239	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08		35541239	110822783	94	35782											
IDO2	169355	broad.mit.edu	37	chr8	39871157	39871157	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagagcccctgaaatactccGgcgggagtgcagctcagagc	11	5	13	12	2	1	3	1	1	0	2	2	4	2	4	3	2	5	2	3	2	3	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr8:39871157G>A	uc010lwy.1	+	10	1074	c.832G>A	c.(832-834)GGC>AGC	p.G278S	IDO2_uc003xno.1_RNA|IDO2_uc010lwz.1_Missense_Mutation_p.G19S|IDO2_uc003xnp.1_Missense_Mutation_p.G19S	NM_194294	NP_919270	Q6ZQW0	I23O2_HUMAN	indoleamine-pyrrole 2,3 dioxygenase-like 1	265					tryptophan catabolic process to kynurenine	cytosol	heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			ovary(2)	2						GAAATACTCCGGCGGGAGTGC	0.478													13	32					0	0	0.003163	0	0		A	39871157	A	A	39871157	3	1	47	1	0	0	0	0	1	0	0	0	7518	1116	39	1	870	1	IDO2	8	39871157	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	4329918	39871157	106492865	95	35783											
MYST3	7994	broad.mit.edu	37	chr8	41906165	41906165	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agttgagccaccagactctgCcaagccctcaactgcccgct	9	7	8	17	1	2	2	1	1	1	1	2	2	2	2	5	0	5	2	5	0	2	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr8:41906165C>A	uc010lxb.2	-	3	875	c.331G>T	c.(331-333)GCA>TCA	p.A111S	MYST3_uc010lxc.2_Missense_Mutation_p.A111S|MYST3_uc003xon.3_Missense_Mutation_p.A111S|MYST3_uc010lxd.2_Missense_Mutation_p.A111S	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	111	H15.|Required for activation of RUNX1-1.|Required for nuclear localization.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			CCAGACTCTGCCAAGCCCTCA	0.448													16	120					2.94398e-08	3.08727e-08	0.007413	1	0		A	41906165	A	A	41906165	3	1	47	1	0	0	0	0	1	0	0	0	10122	739	26	5	5747	5	MYST3	8	41906165	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	2035008	41906165	104457857	96	35784											
PXDNL	137902	broad.mit.edu	37	chr8	52384785	52384785	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctcaggtttggggtttccTtccgcccggcaggtgaagta	6	12	13	10	2	1	1	1	1	1	0	4	1	3	1	3	5	0	4	3	5	2	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr8:52384785T>G	uc003xqu.3	-	8	875	c.774A>C	c.(772-774)GAA>GAC	p.E258D		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	258	Ig-like C2-type 1.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TGGGGTTTCCTTCCGCCCGGC	0.443													89	29					0	0	0.01441	0	0		G	52384785	G	G	52384785	3	3	47	1	0	0	0	0	1	0	0	0	12873	1606	56	5	3681	5	PXDNL	8	52384785	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	10478620	52384785	93979237	97	35785											
POP1	10940	broad.mit.edu	37	chr8	99170065	99170065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgatctgtgtcccagccaagGaggacttcctccagctccat	8	10	9	14	0	1	1	0	1	1	0	5	3	5	3	5	2	2	1	5	2	1	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr8:99170065G>A	uc003yij.3	+	16	2741	c.2641G>A	c.(2641-2643)GAG>AAG	p.E881K	POP1_uc011lgv.1_Missense_Mutation_p.E881K|POP1_uc003yik.2_Missense_Mutation_p.E881K	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	881					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			CCCAGCCAAGGAGGACTTCCT	0.552													51	17					0	0	0.01441	0	0		A	99170065	A	A	99170065	3	1	47	1	0	0	0	0	1	0	0	0	12270	1175	41	4	2699	4	POP1	8	99170065	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	46785280	99170065	47193957	98	35786											
TM7SF4	81501	broad.mit.edu	37	chr8	105361682	105361682	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtttttcctccccatacTtatccatctctgcatctggg	5	16	6	14	0	2	0	0	0	2	0	6	0	5	0	4	1	2	3	4	1	2	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr8:105361682T>G	uc003ylx.1	+	2	951	c.902T>G	c.(901-903)CTT>CGT	p.L301R		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	301	Helical; (Potential).				osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CTCCCCATACTTATCCATCTC	0.473													47	162					0	0	0.01441	0	0		G	105361682	G	G	105361682	3	3	47	1	0	0	0	0	1	0	0	0	16001	1609	56	5	904	5	TM7SF4	8	105361682	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	6191617	105361682	41002340	99	35787											
KCNV1	27012	broad.mit.edu	37	chr8	110986309	110986309	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacgcctgcgagctgcggtcGaagaagtactcgttgtccac	9	8	12	12	5	0	1	0	0	0	1	3	3	1	1	2	1	5	3	2	1	4	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr8:110986309G>A	uc003ynr.3	-	1	651	c.309C>T	c.(307-309)TTC>TTT	p.F103F	KCNV1_uc010mcw.2_Silent_p.F103F	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	103	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			AGCTGCGGTCGAAGAAGTACT	0.662													6	13					0	0	0.00308	0	0		A	110986309	A	A	110986309	2	1	47	1	0	0	0	0	0	0	0	1	8110	1049	37	1		1	KCNV1	8	110986309	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	5624627	110986309	35377713	100	35788											
KCNQ3	3786	broad.mit.edu	37	chr8	133187703	133187703	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaaggtagtgactcaccagGccccaccacagggcatctgc	10	5	10	16	0	2	1	1	1	1	0	2	1	2	1	5	3	1	2	5	3	2	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr8:133187703G>A	uc003ytj.2	-	5	1155	c.930C>T	c.(928-930)GGC>GGT	p.G310G	KCNQ3_uc010mdt.2_Silent_p.G310G	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	310			G -> V (in EBN2; about 50% reduction of wild-type heteromeric current; ratio of 1:1; or 20%; ratio of 1:1:2).		axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			GACTCACCAGGCCCCACCACA	0.527													19	94					0	0	0.016522	0	0		A	133187703	A	A	133187703	2	1	47	1	0	0	0	0	0	0	0	1	8100	1190	42	2		2	KCNQ3	8	133187703	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	22201394	133187703	13176319	101	35789											
ARHGAP39	80728	broad.mit.edu	37	chr8	145772550	145772550	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctctggtgaggccaggttGgtctgcacggagacgctctt	5	10	16	10	2	3	2	0	1	3	1	3	3	3	2	1	6	1	4	1	6	0	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr8:145772550G>A	uc003zdt.1	-	6	2475	c.1920C>T	c.(1918-1920)ACC>ACT	p.T640T	ARHGAP39_uc011llk.1_Silent_p.T640T|ARHGAP39_uc003zds.1_Silent_p.T640T	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	640					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						AGGCCAGGTTGGTCTGCACGG	0.657													10	18					0	0	0.010729	0	0		A	145772550	A	A	145772550	2	1	47	1	0	0	0	0	0	0	0	1	884	1335	47	4		4	ARHGAP39	8	145772550	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	12584847	145772550	591472	102	35790											
NPR2	4882	broad.mit.edu	37	chr9	35800105	35800105	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atacaggaaggaggcacccgGgaggatggacttcgaattgt	12	7	15	7	2	0	0	0	0	0	0	1	6	0	5	1	6	1	1	1	6	3	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr9:35800105G>A	uc003zyd.2	+	4	1074	c.1074G>A	c.(1072-1074)CGG>CGA	p.R358R	NPR2_uc010mlb.2_Silent_p.R358R	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	358	Extracellular (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	GAGGCACCCGGGAGGATGGAC	0.512													37	60					0	0	0.01441	0	0		A	35800105	A	A	35800105	2	1	47	1	0	0	0	0	0	0	0	1	10614	1219	43	4		4	NPR2	9	35800105	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08		35800105	105413326	103	35791											
C9orf102	375748	broad.mit.edu	37	chr9	98685633	98685633	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcagcctttgaaacactttCtgaccctaaatacagtggaa	13	11	7	10	0	1	2	0	2	1	0	1	3	1	3	2	1	4	1	2	1	5	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr9:98685633C>G	uc004avt.3	+	9	1926	c.1538C>G	c.(1537-1539)TCT>TGT	p.S513C	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Missense_Mutation_p.S215C|C9orf102_uc010mry.1_Missense_Mutation_p.S215C|C9orf102_uc010mrz.2_Missense_Mutation_p.S324C|C9orf102_uc004avu.2_5'UTR	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	513					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				GAAACACTTTCTGACCCTAAA	0.303													31	54					0	0	0.003755	0	0		G	98685633	G	G	98685633	3	3	47	1	0	0	0	0	1	0	0	0	2448	913	32	5	1572	5	C9orf102	9	98685633	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	62885528	98685633	42527798	104	35792											
GARNL3	84253	broad.mit.edu	37	chr9	130147318	130147318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgcagtctgtgctttccCgtatctcctggccttcacca	4	14	7	16	1	3	0	1	0	2	0	5	0	4	0	5	1	2	3	5	1	1	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr9:130147318C>T	uc011mae.1	+	24	2683	c.2282C>T	c.(2281-2283)CCG>CTG	p.P761L	GARNL3_uc011mad.1_Missense_Mutation_p.P739L|GARNL3_uc010mxi.2_5'UTR	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	761	CNH.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						TGTGCTTTCCCGTATCTCCTG	0.617													27	133					0	0	0.010818	0	0		T	130147318	T	T	130147318	3	4	47	1	0	0	0	0	1	0	0	0	6256	652	23	1	2376	1	GARNL3	9	130147318	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	31461685	130147318	11066113	105	35793											
FUBP3	8939	broad.mit.edu	37	chr9	133498194	133498194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgtgaggattcagtttaaaCcaggtgggtatgatgattta	11	14	13	3	0	1	3	1	3	0	0	1	4	1	4	1	3	1	2	1	3	4	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr9:133498194C>T	uc004bzr.1	+	10	979	c.871C>T	c.(871-873)CCA>TCA	p.P291S	FUBP3_uc010mzd.1_Missense_Mutation_p.P231S|FUBP3_uc004bzs.1_Missense_Mutation_p.P204S	NM_003934	NP_003925	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	291	KH 3.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		TCAGTTTAAACCAGGTGGGTA	0.368													21	60					0	0	0.010504	0	0		T	133498194	T	T	133498194	3	4	47	1	0	0	0	0	1	0	0	0	6107	507	18	4	909	4	FUBP3	9	133498194	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	3350876	133498194	7715237	106	35794											
CAMK1D	57118	broad.mit.edu	37	chr10	12803037	12803037	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatccgccaagtcttggaCgccgtgtactatctccacag	8	10	9	14	3	2	1	0	1	2	0	4	2	3	2	4	1	1	1	4	1	3	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr10:12803037C>T	uc001ilo.2	+	4	625	c.390C>T	c.(388-390)GAC>GAT	p.D130D	CAMK1D_uc001iln.2_Silent_p.D130D	NM_153498	NP_705718	Q8IU85	KCC1D_HUMAN	calcium/calmodulin-dependent protein kinase ID	130	Protein kinase.					calcium- and calmodulin-dependent protein kinase complex|cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|stomach(1)	2				GBM - Glioblastoma multiforme(1;3.16e-05)		AAGTCTTGGACGCCGTGTACT	0.557													18	60					0	0	0.008871	0	0		T	12803037	T	T	12803037	2	4	47	1	0	0	0	0	0	0	0	1	2600	535	19	1		1	CAMK1D	10	12803037	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08		12803037	122731710	107	35795											
CUBN	8029	broad.mit.edu	37	chr10	17126401	17126401	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgagtgaaaggcccagacaActcaggcaagaagagttcac	15	5	12	9	0	2	5	2	2	0	3	2	5	2	5	1	2	1	2	1	2	4	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr10:17126401A>C	uc001ioo.2	-	17	2222	c.2170T>G	c.(2170-2172)TTG>GTG	p.L724V		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	724	CUB 3.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GGCCCAGACAACTCAGGCAAG	0.517													13	27					0	0	0.013537	0	0		C	17126401	C	C	17126401	3	2	47	1	0	0	0	0	1	0	0	0	4054	40	2	5	8905	5	CUBN	10	17126401	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	4323364	17126401	118408346	108	35796											
MYO3A	53904	broad.mit.edu	37	chr10	26463195	26463195	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catgagacagtcaaagagagGcaagttgaaccagtgacaca	17	5	11	8	0	1	4	1	3	0	2	1	6	1	4	1	1	1	2	1	1	3	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr10:26463195G>A	uc001isn.2	+	30	4362	c.4002G>A	c.(4000-4002)AGG>AGA	p.R1334R	MYO3A_uc009xkp.1_Intron|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1334					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						TCAAAGAGAGGCAAGTTGAAC	0.502													23	115					0	0	0.016522	0	0		A	26463195	A	A	26463195	2	1	47	1	0	0	0	0	0	0	0	1	10094	1194	42	2		2	MYO3A	10	26463195	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	9336794	26463195	109071552	109	35797											
SAMD8	142891	broad.mit.edu	37	chr10	76935972	76935972	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaatttctttgtcaccgAatgtaagtatctttttagtg	9	18	8	6	1	3	1	1	1	2	0	3	2	3	1	1	0	0	3	1	0	5	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr10:76935972A>T	uc001jwx.1	+	5	1044	c.941A>T	c.(940-942)GAA>GTA	p.E314V	SAMD8_uc001jwy.1_Missense_Mutation_p.E314V	NM_144660	NP_653261	Q96LT4	SAMD8_HUMAN	sterile alpha motif domain containing 8	314					sphingomyelin biosynthetic process	integral to membrane					0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					TTTGTCACCGAATGTAAGTAT	0.453													39	116					0	0	0.00874	0	0		T	76935972	T	T	76935972	3	4	47	1	0	0	0	0	1	0	0	0	13850	246	9	5	955	5	SAMD8	10	76935972	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	50472777	76935972	58598775	110	35798											
TLL2	7093	broad.mit.edu	37	chr10	98192670	98192670	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagagaaggtcttggctgcGgcatgcaaggtcccagggct	8	7	17	9	1	1	1	0	0	1	1	2	3	2	2	1	6	2	4	1	6	2	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr10:98192670G>A	uc001kml.1	-	4	640	c.414C>T	c.(412-414)GCC>GCT	p.A138A	TLL2_uc009xvf.1_Intron	NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	138					cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		TCTTGGCTGCGGCATGCAAGG	0.552													36	47					0	0	0.00874	0	0		A	98192670	A	A	98192670	2	1	47	1	0	0	0	0	0	0	0	1	15971	1103	39	1		1	TLL2	10	98192670	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	21256698	98192670	37342077	111	35799											
RRP12	23223	broad.mit.edu	37	chr10	99116858	99116858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggccctgggcctcagggtCgacgatcctttctgcggttt	3	11	15	12	3	2	0	1	0	1	0	4	2	3	0	3	5	1	1	3	5	0	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr10:99116858C>T	uc001knf.2	-	34	4026	c.3887G>A	c.(3886-3888)CGA>CAA	p.R1296Q	RRP12_uc001kne.2_Missense_Mutation_p.R311Q|RRP12_uc009xvl.2_Missense_Mutation_p.R413Q|RRP12_uc009xvm.2_Missense_Mutation_p.R1014Q|RRP12_uc010qou.1_Missense_Mutation_p.R1235Q|RRP12_uc009xvn.2_Missense_Mutation_p.R1196Q	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	1296						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		GCCTCAGGGTCGACGATCCTT	0.622													15	47					0	0	0.007413	0	0		T	99116858	T	T	99116858	3	4	47	1	0	0	0	0	1	0	0	0	13711	884	31	1	10	1	RRP12	10	99116858	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	924188	99116858	36417889	112	35800											
RRP12	23223	broad.mit.edu	37	chr10	99133605	99133605	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgccactggagtgtgtcGtagatcttagattccactgt	8	13	10	10	1	1	2	0	0	1	2	3	3	2	3	3	1	1	1	3	1	2	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr10:99133605G>A	uc001knf.2	-	16	1984	c.1845C>T	c.(1843-1845)TAC>TAT	p.Y615Y	RRP12_uc009xvl.2_5'Flank|RRP12_uc009xvm.2_Silent_p.Y333Y|RRP12_uc010qou.1_Silent_p.Y554Y|RRP12_uc009xvn.2_Silent_p.Y515Y	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	615						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		GGAGTGTGTCGTAGATCTTAG	0.607													16	52					0	0	0.00499	0	0		A	99133605	A	A	99133605	2	1	47	1	0	0	0	0	0	0	0	1	13711	1140	40	1		1	RRP12	10	99133605	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	16747	99133605	36401142	113	35801											
PDCD11	22984	broad.mit.edu	37	chr10	105172893	105172893	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgagggcctgcatcctttgCgtccatcctcgaaccagagt	7	10	11	13	2	0	2	0	1	0	1	4	3	3	2	5	1	3	1	5	1	1	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr10:105172893C>T	uc001kwy.1	+	9	1086	c.999C>T	c.(997-999)TGC>TGT	p.C333C		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	333	S1 motif 3.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		GCATCCTTTGCGTCCATCCTC	0.597													25	73					0	0	0.007291	0	0		T	105172893	T	T	105172893	2	4	47	1	0	0	0	0	0	0	0	1	11636	776	27	1		1	PDCD11	10	105172893	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08	6039288	105172893	30361854	114	35802											
GPR26	2849	broad.mit.edu	37	chr10	125426323	125426323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctacacgtggctgcacGcgctcaccttcccagccgcc	5	7	10	19	4	1	0	1	0	0	0	2	0	2	0	5	2	3	3	5	2	1	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr10:125426323G>A	uc001lhh.2	+	1	453	c.400G>A	c.(400-402)GCG>ACG	p.A134T		NM_153442	NP_703143	Q8NDV2	GPR26_HUMAN	G protein-coupled receptor 26	134	Helical; Name=4; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1		Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)				GTGGCTGCACGCGCTCACCTT	0.716													6	11					0	0	0.00308	0	0		A	125426323	A	A	125426323	3	1	47	1	0	0	0	0	1	0	0	0	6699	1087	38	1	402	1	GPR26	10	125426323	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	20253430	125426323	10108424	115	35803											
LRRC27	80313	broad.mit.edu	37	chr10	134165209	134165209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagagccgagcggcggCgctccgagagctccaggaga	10	2	18	11	5	0	3	0	0	0	3	2	8	2	4	3	4	3	2	3	4	1	0			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr10:134165209C>T	uc010quw.1	+	7	1220	c.1025C>T	c.(1024-1026)GCG>GTG	p.A342V	LRRC27_uc001llf.2_Missense_Mutation_p.R374C|LRRC27_uc010quv.1_Missense_Mutation_p.A342V|LRRC27_uc001llg.2_RNA|LRRC27_uc001lli.2_Missense_Mutation_p.A342V|LRRC27_uc001llj.2_Missense_Mutation_p.A280V|LRRC27_uc001llk.3_Missense_Mutation_p.A215V	NM_030626	NP_085129	Q9C0I9	LRC27_HUMAN	leucine rich repeat containing 27 isoform a	342	Potential.									ovary(1)	1		all_cancers(35;6.28e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;9.12e-05)|Epithelial(32;0.000116)|all cancers(32;0.000145)|BRCA - Breast invasive adenocarcinoma(275;0.218)		CGAGCGGCGGCGCTCCGAGAG	0.622													21	67					0	0	0.014323	0	0		T	134165209	T	T	134165209	3	4	47	1	0	0	0	0	1	0	0	0	8999	768	27	1	1146	1	LRRC27	10	134165209	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	8738886	134165209	1369538	116	35804											
PAOX	196743	broad.mit.edu	37	chr10	135204907	135204907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatggagggaggccgaccGcctcctcagtctgtgggccc	5	6	17	13	2	2	0	1	0	1	0	3	4	3	3	5	5	0	0	5	5	0	0			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr10:135204907G>A	uc001lmv.2	+	7	1564	c.1484G>A	c.(1483-1485)CGC>CAC	p.R495H	PAOX_uc001lmw.2_RNA|PAOX_uc001lmx.2_Silent_p.P442P|PAOX_uc001lmy.2_3'UTR|PAOX_uc001lmz.2_RNA|PAOX_uc001lna.2_RNA|PAOX_uc001lnb.2_RNA|PAOX_uc001lnc.2_RNA|MTG1_uc001lnd.2_5'Flank	NM_152911	NP_690875	Q6QHF9	PAOX_HUMAN	polyamine oxidase isoform 1	633					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		GAGGCCGACCGCCTCCTCAGT	0.662													4	120					0	0	0.014758	0	0		A	135204907	A	A	135204907	3	1	47	1	0	0	0	0	1	0	0	0	11442	1087	38	1	1510	1	PAOX	10	135204907	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	1039698	135204907	329840	117	35805											
MUC6	4588	broad.mit.edu	37	chr11	1016831	1016831	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggataggtagtggtggtCtggaaggatgttgcagtcat	8	13	17	3	0	2	0	1	0	1	0	2	3	2	3	0	6	1	4	0	6	3	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr11:1016831C>A	uc001lsw.2	-	31	6021	c.5970G>T	c.(5968-5970)CAG>CAT	p.Q1990H		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1990	Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TAGTGGTGGTCTGGAAGGATG	0.562													10	701					1.49906e-05	1.55823e-05	0.00245	1	0		A	1016831	A	A	1016831	3	1	47	1	0	0	0	0	1	0	0	0	9998	912	32	5	1361	5	MUC6	11	1016831	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08		1016831	133989685	118	35806											
OR51D1	390038	broad.mit.edu	37	chr11	4661487	4661487	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagggtgtactgtggccaAgattggactatctgccctga	9	10	13	9	0	1	2	0	1	1	1	1	4	1	3	2	3	2	1	2	3	3	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr11:4661487A>T	uc010qyk.1	+	1	467	c.467A>T	c.(466-468)AAG>ATG	p.K156M		NM_001004751	NP_001004751	Q8NGF3	O51D1_HUMAN	olfactory receptor, family 51, subfamily D,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;2.74e-13)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|GBM - Glioblastoma multiforme(2;0.0841)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACTGTGGCCAAGATTGGACTA	0.537													57	109					0	0	0.01441	0	0		T	4661487	T	T	4661487	3	4	47	1	0	0	0	0	1	0	0	0	11112	72	3	5	469	5	OR51D1	11	4661487	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	3644656	4661487	130345029	119	35807											
OR52J3	119679	broad.mit.edu	37	chr11	5068233	5068233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcccgttttacttacacttCccatggtctatcttatctac	7	17	4	13	1	3	0	0	0	3	0	5	0	5	0	2	1	3	1	2	1	5	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr11:5068233C>T	uc010qyv.1	+	1	478	c.478C>T	c.(478-480)CCC>TCC	p.P160S		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	160	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACTTACACTTCCCATGGTCTA	0.468													11	38					0	0	0.013537	0	0		T	5068233	T	T	5068233	3	4	47	1	0	0	0	0	1	0	0	0	11141	855	30	4	480	4	OR52J3	11	5068233	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	406746	5068233	129938283	120	35808											
OR52E4	390081	broad.mit.edu	37	chr11	5905690	5905690	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatcaaaactgaacatagTctacaccagcccatgttcta	14	10	6	11	0	3	2	1	2	2	0	3	2	3	2	2	0	4	1	2	0	6	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr11:5905690T>C	uc010qzs.1	+	1	168	c.168T>C	c.(166-168)AGT>AGC	p.S56S	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	56	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTGAACATAGTCTACACCAGC	0.418													57	135					0	0	0.01441	0	0		C	5905690	C	C	5905690	2	2	47	1	0	0	0	0	0	0	0	1	11135	1664	58	3		3	OR52E4	11	5905690	Silent	SNP	T	TCGA-BR-7197-01A-11D-2201-08	837457	5905690	129100826	121	35809											
CNGA4	1262	broad.mit.edu	37	chr11	6265440	6265440	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggatgatctacagaccaAgtttgctcgcctcctggctg	7	11	11	12	1	1	2	0	1	1	1	3	3	2	3	3	2	2	4	3	2	2	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr11:6265440A>C	uc001mco.2	+	6	1636	c.1529A>C	c.(1528-1530)AAG>ACG	p.K510T	CNGA4_uc010raa.1_3'UTR|CNGA4_uc001mcn.2_3'UTR	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	510	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTACAGACCAAGTTTGCTCGC	0.587													13	39					0	0	0.00245	0	0		C	6265440	C	C	6265440	3	2	47	1	0	0	0	0	1	0	0	0	3602	72	3	5	1551	5	CNGA4	11	6265440	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	359750	6265440	128741076	122	35810											
NELL1	4745	broad.mit.edu	37	chr11	21594756	21594756	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggtagattgctggccacTcacttgccccaacttgagct	9	10	10	12	0	1	3	1	1	0	2	1	3	1	3	3	2	4	3	3	2	2	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr11:21594756T>G	uc001mqe.2	+	19	2336	c.2183T>G	c.(2182-2184)CTC>CGC	p.L728R	NELL1_uc001mqf.2_Missense_Mutation_p.L681R|NELL1_uc009yid.2_Missense_Mutation_p.L756R|NELL1_uc010rdo.1_Missense_Mutation_p.L671R|NELL1_uc010rdp.1_Missense_Mutation_p.L441R|NELL1_uc001mqh.2_Missense_Mutation_p.L273R	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	728	VWFC 4.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						TGCTGGCCACTCACTTGCCCC	0.443													8	51					0	0	0.006214	0	0		G	21594756	G	G	21594756	3	3	47	1	0	0	0	0	1	0	0	0	10352	1551	54	5	2257	5	NELL1	11	21594756	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	15329316	21594756	113411760	123	35811											
OR8H3	390152	broad.mit.edu	37	chr11	55890577	55890577	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttctctacttgcgtctcTcatctcttgggagtcaccat	5	16	7	13	1	5	0	2	0	3	0	8	1	5	1	1	1	2	1	1	1	1	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr11:55890577T>C	uc001nii.1	+	1	729	c.729T>C	c.(727-729)TCT>TCC	p.S243S		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CTTGCGTCTCTCATCTCTTGG	0.403													21	32					0	0	0.012319	0	0		C	55890577	C	C	55890577	2	2	47	1	0	0	0	0	0	0	0	1	11258	1538	54	3		3	OR8H3	11	55890577	Silent	SNP	T	TCGA-BR-7197-01A-11D-2201-08	34295821	55890577	79115939	124	35812											
OR10W1	81341	broad.mit.edu	37	chr11	58034972	58034972	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaggagagggtactgcaacGggtggcaaatggccacatag	12	6	16	7	1	0	2	0	1	0	1	0	3	0	2	1	5	3	3	1	5	4	2	rs144496337	byFrequency	TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr11:58034972G>A	uc001nmq.1	-	1	761	c.359C>T	c.(358-360)CCG>CTG	p.P120L		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	120	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				GTACTGCAACGGGTGGCAAAT	0.537													15	23					0	0	0.00245	0	0		A	58034972	A	A	58034972	3	1	47	1	0	0	0	0	1	0	0	0	10940	1116	39	1	562	1	OR10W1	11	58034972	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	2144395	58034972	76971544	125	35813											
ORAOV1	220064	broad.mit.edu	37	chr11	69488060	69488060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaactactgccttcttcaTagccttcccgatacccttcc	8	12	3	18	1	2	0	1	0	1	0	4	1	4	0	6	0	5	0	6	0	4	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr11:69488060T>C	uc001opc.2	-	2	238	c.80A>G	c.(79-81)TAT>TGT	p.Y27C	ORAOV1_uc010rqi.1_Missense_Mutation_p.Y27C|ORAOV1_uc009ysm.2_RNA|ORAOV1_uc001opd.2_Intron|ORAOV1_uc001ope.1_Missense_Mutation_p.Y27C	NM_153451	NP_703152	Q8WV07	ORAV1_HUMAN	oral cancer overexpressed 1	27											0	all_cancers(3;5.53e-114)|all_epithelial(3;1.34e-121)|Breast(3;9.28e-34)|all_lung(4;1.99e-21)|Lung NSC(4;4.65e-21)|Hepatocellular(3;6.15e-15)|Melanoma(5;1.89e-05)|Ovarian(3;0.0348)		Epithelial(3;5.64e-57)|all cancers(3;5.98e-51)|BRCA - Breast invasive adenocarcinoma(2;5.49e-48)|Lung(3;1.13e-16)|LUSC - Lung squamous cell carcinoma(11;3.74e-15)|STAD - Stomach adenocarcinoma(18;0.0278)|LUAD - Lung adenocarcinoma(13;0.0537)			GCCTTCTTCATAGCCTTCCCG	0.493													30	70					0	0	0.004289	0	0		C	69488060	C	C	69488060	3	2	47	1	0	0	0	0	1	0	0	0	11279	1406	49	3	349	3	ORAOV1	11	69488060	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	11453088	69488060	65518456	126	35814											
BIRC2	329	broad.mit.edu	37	chr11	102221160	102221160	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagatttcttacctaccAtatgtggccattaacttttt	10	16	5	10	0	1	1	0	0	1	1	1	1	1	1	4	1	4	0	4	1	4	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr11:102221160A>G	uc001pgy.2	+	2	1974	c.575A>G	c.(574-576)CAT>CGT	p.H192R	BIRC2_uc010ruq.1_Missense_Mutation_p.H143R|BIRC2_uc010rur.1_Missense_Mutation_p.H192R	NM_001166	NP_001157	Q13490	BIRC2_HUMAN	baculoviral IAP repeat-containing protein 2	192	BIR 2.				cell surface receptor linked signaling pathway|cellular component disassembly involved in apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	CD40 receptor complex|cytosol|internal side of plasma membrane	protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3	all_cancers(8;0.00044)|all_epithelial(12;0.00348)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0093)	Lung(13;0.109)|Epithelial(9;0.11)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0144)		CTTACCTACCATATGTGGCCA	0.428													27	61					0	0	0.00632	0	0		G	102221160	G	G	102221160	3	3	47	1	0	0	0	0	1	0	0	0	1436	217	8	3	577	3	BIRC2	11	102221160	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	32733100	102221160	32785356	127	35815											
GRIA4	2893	broad.mit.edu	37	chr11	105795340	105795340	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcagcgtggtcttattcctAgttagtagatttagtccata	9	16	9	7	1	2	1	1	0	1	1	4	1	4	1	2	1	1	2	2	1	6	8			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr11:105795340A>C	uc001pix.2	+	12	2138	c.1692A>C	c.(1690-1692)CTA>CTC	p.L564L	GRIA4_uc001piw.2_Silent_p.L564L	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	564	Helical; (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	TCTTATTCCTAGTTAGTAGAT	0.468													13	27					0	0	0.00245	0	0		C	105795340	C	C	105795340	2	2	47	1	0	0	0	0	0	0	0	1	6786	407	15	5		5	GRIA4	11	105795340	Silent	SNP	A	TCGA-BR-7197-01A-11D-2201-08	3574180	105795340	29211176	128	35816											
OR8D2	283160	broad.mit.edu	37	chr11	124189172	124189172	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttgtcaggatgactgccTtcccctagtcatcttcttca	6	16	6	13	0	6	1	3	1	3	0	7	2	7	2	3	1	1	0	3	1	1	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr11:124189172T>G	uc010sah.1	-	1	922	c.922A>C	c.(922-924)AGG>CGG	p.R308R		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0525)		GATGACTGCCTTCCCCTAGTC	0.398													15	36					0	0	0.004007	0	0		G	124189172	G	G	124189172	2	3	47	1	0	0	0	0	0	0	0	1	11251	1608	56	5		5	OR8D2	11	124189172	Silent	SNP	T	TCGA-BR-7197-01A-11D-2201-08	18393832	124189172	10817344	129	35817											
CLEC2D	29121	broad.mit.edu	37	chr12	9847417	9847417	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaggtgccagtagtgccAggcactacacagagaggaag	15	4	13	9	0	0	1	0	0	0	1	0	3	0	2	2	3	3	2	2	3	4	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr12:9847417A>G	uc001qwg.1	+	5	545	c.523A>G	c.(523-525)AGG>GGG	p.R175G	CLEC2D_uc001qwf.1_3'UTR|CLEC2D_uc009zgs.1_RNA|CLEC2D_uc001qwh.1_RNA|CLEC2D_uc009zgt.1_RNA|CLEC2D_uc009zgu.1_3'UTR	NM_013269	NP_037401	Q9UHP7	CLC2D_HUMAN	osteoclast inhibitory lectin isoform 1	175	Extracellular (Potential).|C-type lectin.				cell surface receptor linked signaling pathway	cell surface|endoplasmic reticulum|integral to plasma membrane|membrane fraction	sugar binding|transmembrane receptor activity				0						CAGTAGTGCCAGGCACTACAC	0.433													15	36					0	0	0.012319	0	0		G	9847417	G	G	9847417	3	3	47	1	0	0	0	0	1	0	0	0	3511	179	7	3	627	3	CLEC2D	12	9847417	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08		9847417	124004478	130	35818											
KLRD1	3824	broad.mit.edu	37	chr12	10462015	10462015	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accactctgtggaggttaatTtctgggaccttagggataat	10	13	11	7	0	2	0	0	0	2	0	2	3	2	3	2	4	0	1	2	4	3	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr12:10462015T>G	uc001qxw.3	+	3	233	c.36T>G	c.(34-36)ATT>ATG	p.I12M	KLRD1_uc001qxx.3_Missense_Mutation_p.I12M|KLRD1_uc001qxy.3_Intron|KLRD1_uc009zhh.2_Missense_Mutation_p.I12M|KLRD1_uc009zhi.2_Missense_Mutation_p.I12M|KLRD1_uc001qxz.3_Missense_Mutation_p.I12M	NM_001114396	NP_001107868	Q13241	KLRD1_HUMAN	killer cell lectin-like receptor subfamily D,	12	Helical; Signal-anchor for type II membrane protein; (Potential).				cell surface receptor linked signaling pathway|regulation of immune response	integral to membrane|plasma membrane	sugar binding|transmembrane receptor activity				0						GGAGGTTAATTTCTGGGACCT	0.363													20	45					0	0	0.00333	0	0		G	10462015	G	G	10462015	3	3	47	1	0	0	0	0	1	0	0	0	8435	1829	64	5	42	5	KLRD1	12	10462015	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	614598	10462015	123389880	131	35819											
PLCZ1	89869	broad.mit.edu	37	chr12	18841074	18841074	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catttgatcatttggaacacCaaaaacttctataattacta	16	14	3	8	0	2	1	1	1	1	0	2	2	2	2	1	1	3	0	1	1	7	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr12:18841074C>A	uc010sid.1	-	13	1731	c.1540G>T	c.(1540-1542)GGT>TGT	p.G514C	PLCZ1_uc001rdv.3_Missense_Mutation_p.G410C|PLCZ1_uc001rdw.3_Missense_Mutation_p.G255C|PLCZ1_uc001rdu.1_Missense_Mutation_p.G296C|PLCZ1_uc009zil.1_RNA	NM_033123	NP_149114	Q86YW0	PLCZ1_HUMAN	phospholipase C, zeta 1	514	C2.				intracellular signal transduction|lipid catabolic process|multicellular organismal development	nucleus|perinuclear region of cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)					TTTGGAACACCAAAAACTTCT	0.333													4	60					0.00909568	0.00921229	0.009096	1	0		A	18841074	A	A	18841074	3	1	47	1	0	0	0	0	1	0	0	0	12063	594	21	5	298	5	PLCZ1	12	18841074	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	8379059	18841074	115010821	132	35820											
CEP290	80184	broad.mit.edu	37	chr12	88530428	88530428	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagtgctttacttgctcatTaactttcttctctttctcca	8	19	3	11	0	4	0	1	0	3	0	6	0	4	0	1	0	4	2	1	0	3	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr12:88530428T>C	uc001tar.2	-	6	777	c.433A>G	c.(433-435)AAT>GAT	p.N145D	CEP290_uc009zsl.1_RNA	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	145	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						ACTTGCTCATTAACTTTCTTC	0.294													24	56					0	0	0.008361	0	0		C	88530428	C	C	88530428	3	2	47	1	0	0	0	0	1	0	0	0	3256	1754	61	3	7202	3	CEP290	12	88530428	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	69689354	88530428	45321467	133	35821											
P2RX2	22953	broad.mit.edu	37	chr12	133196330	133196330	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccagacccagggaacctgCcccgaggtgaggggatcccg	8	4	14	15	2	0	2	0	1	0	1	2	5	2	4	6	4	2	0	6	4	1	0			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr12:133196330C>A	uc001ukj.1	+	3	375	c.375C>A	c.(373-375)TGC>TGA	p.C125*	P2RX2_uc001uki.1_Nonsense_Mutation_p.C125*|P2RX2_uc001ukk.1_Nonsense_Mutation_p.C125*|P2RX2_uc001ukl.1_Intron|P2RX2_uc001ukm.1_Intron|P2RX2_uc001ukn.1_Intron|P2RX2_uc009zyt.1_Nonsense_Mutation_p.C125*|P2RX2_uc001uko.1_Intron	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	125	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		AGGGAACCTGCCCCGAGGTGA	0.721													5	13					8.12818e-05	8.41214e-05	0.001984	1	0		A	133196330	A	A	133196330	4	1	47	1	0	0	0	0	0	1	0	0	11359	747	26	5	385	5	P2RX2	12	133196330	Nonsense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	44665902	133196330	655565	134	35822											
FREM2	341640	broad.mit.edu	37	chr13	39262883	39262883	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcagtggtccgcaaaacTtggtcatcagcgatgaggat	11	8	13	9	2	2	1	2	1	0	0	3	3	3	2	1	4	2	2	1	4	2	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr13:39262883T>C	uc001uwv.2	+	1	1711	c.1402T>C	c.(1402-1404)TTG>CTG	p.L468L		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	468	Extracellular (Potential).|CSPG 2.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TCCGCAAAACTTGGTCATCAG	0.587													10	47					0	0	0.001855	0	0		C	39262883	C	C	39262883	2	2	47	1	0	0	0	0	0	0	0	1	6059	1606	56	3		3	FREM2	13	39262883	Silent	SNP	T	TCGA-BR-7197-01A-11D-2201-08		39262883	75906995	135	35823											
FREM2	341640	broad.mit.edu	37	chr13	39435669	39435669	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactacacaaaccttatcAagctcactgtcacaatgcca	15	8	4	14	0	3	1	3	0	0	1	3	1	3	1	2	0	4	1	2	0	5	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr13:39435669A>C	uc001uwv.2	+	15	7930	c.7621A>C	c.(7621-7623)AAG>CAG	p.K2541Q	FREM2_uc001uww.2_Missense_Mutation_p.K627Q	NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2541	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		AAACCTTATCAAGCTCACTGT	0.473													20	75					0	0	0.014323	0	0		C	39435669	C	C	39435669	3	2	47	1	0	0	0	0	1	0	0	0	6059	131	5	5	7679	5	FREM2	13	39435669	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	172786	39435669	75734209	136	35824											
PCDH17	27253	broad.mit.edu	37	chr13	58208116	58208116	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccaaagggctctacgtgcTtcaggtgcacgagaacaaca	13	6	10	12	2	2	1	1	0	1	1	2	2	2	1	1	2	5	3	1	2	4	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr13:58208116T>C	uc001vhq.1	+	1	2328	c.1436T>C	c.(1435-1437)CTT>CCT	p.L479P	PCDH17_uc010aec.1_Missense_Mutation_p.L479P	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	479	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CTCTACGTGCTTCAGGTGCAC	0.597													5	25					0	0	0.014758	0	0		C	58208116	C	C	58208116	3	2	47	1	0	0	0	0	1	0	0	0	11531	1609	56	3	1438	3	PCDH17	13	58208116	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	18772447	58208116	56961762	137	35825											
CHD8	57680	broad.mit.edu	37	chr14	21861850	21861850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catagtcttgtggggttggtCggctcctggccaccacctcg	4	11	13	13	2	1	0	0	0	1	0	4	0	2	0	4	5	0	2	4	5	1	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr14:21861850C>T	uc001was.1	-	32	5361	c.5267G>A	c.(5266-5268)CGA>CAA	p.R1756Q	CHD8_uc001war.1_Missense_Mutation_p.R1652Q|SNORD9_uc001wat.1_5'Flank	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	2035					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		TGGGGTTGGTCGGCTCCTGGC	0.547													13	24					0	0	0.003163	0	0		T	21861850	T	T	21861850	3	4	47	1	0	0	0	0	1	0	0	0	3334	884	31	1	1669	1	CHD8	14	21861850	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08		21861850	85487690	138	35826											
POMT2	29954	broad.mit.edu	37	chr14	77751348	77751348	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagttgagggtttctttcagGtatggggtgcaagtaacttc	8	14	14	5	0	2	1	1	1	1	0	3	2	2	1	0	4	2	5	0	4	3	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr14:77751348G>A	uc001xti.2	-	14	1722	c.1521C>T	c.(1519-1521)TAC>TAT	p.Y507Y	POMT2_uc001xth.1_Silent_p.Y205Y	NM_013382	NP_037514	Q9UKY4	POMT2_HUMAN	protein-O-mannosyltransferase 2	507	MIR 3.				protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)		TTTCTTTCAGGTATGGGGTGC	0.498													8	26					0	0	0.008291	0	0		A	77751348	A	A	77751348	2	1	47	1	0	0	0	0	0	0	0	1	12265	1256	44	4		4	POMT2	14	77751348	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	55889498	77751348	29598192	139	35827											
NDN	4692	broad.mit.edu	37	chr15	23932080	23932080	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttctgcaccagctgcgcCggggctggcggtgccgggcc	2	6	17	16	4	1	0	0	0	1	0	1	0	1	0	5	5	4	3	5	5	0	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr15:23932080C>T	uc001ywk.2	-	1	371	c.285G>A	c.(283-285)CCG>CCA	p.P95P		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	95					negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		CCAGCTGCGCCGGGGCTGGCG	0.677									Prader-Willi_syndrome				21	26					0	0	0.010504	0	0		T	23932080	T	T	23932080	2	4	47	1	0	0	0	0	0	0	0	1	10266	639	23	1		1	NDN	15	23932080	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08		23932080	78599312	140	35828											
GRAMD2	196996	broad.mit.edu	37	chr15	72455726	72455726	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgcagtgggagagcagttCggcatcttcttagggcaggc	7	11	15	8	1	2	1	0	0	2	1	3	2	2	1	0	4	2	5	0	4	1	4	rs139817220		TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr15:72455726C>T	uc002atq.2	-	10	861	c.837G>A	c.(835-837)CCG>CCA	p.P279P	GRAMD2_uc010bis.2_Silent_p.P279P|GRAMD2_uc010ukh.1_Silent_p.P73P	NM_001012642	NP_001012660	Q8IUY3	GRAM2_HUMAN	GRAM domain containing 2	279						integral to membrane					0						GAGAGCAGTTCGGCATCTTCT	0.572													22	82					0	0	0.016522	0	0		T	72455726	T	T	72455726	2	4	47	1	0	0	0	0	0	0	0	1	6766	871	31	1		1	GRAMD2	15	72455726	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08	48523646	72455726	30075666	141	35829											
GOLGA6D	653643	broad.mit.edu	37	chr15	75580704	75580704	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcagcaggaagaggacaGggtgagtccaaccagctgcc	13	3	14	11	0	0	2	0	1	0	1	1	4	1	4	3	3	5	3	3	3	2	0			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr15:75580704G>C	uc010uma.1	+	7	598	c.563G>C	c.(562-564)AGG>ACG	p.R188T	uc010umb.1_5'Flank	NM_001145224	NP_001138696	P0CG33	GOG6D_HUMAN	golgi autoantigen, golgin subfamily a, 6D	188	Potential.										0						GAAGAGGACAGGGTGAGTCCA	0.572													29	101					0	0	0.010818	0	0		C	75580704	C	C	75580704	3	2	47	1	0	0	0	0	1	0	0	0	6575	1014	35	5	589	5	GOLGA6D	15	75580704	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	3124978	75580704	26950688	142	35830											
SEMA4B	10509	broad.mit.edu	37	chr15	90771576	90771576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttttattcttgctctacCggcaccggaacagcatgaaa	11	11	8	11	2	2	1	0	1	2	0	2	2	2	2	2	2	4	4	2	2	4	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr15:90771576C>T	uc002boy.2	+	15	2498	c.2215C>T	c.(2215-2217)CGG>TGG	p.R739W	SEMA4B_uc002boz.2_Missense_Mutation_p.R739W|SEMA4B_uc010uqd.1_Missense_Mutation_p.R577W|SEMA4B_uc002bpa.2_Missense_Mutation_p.R577W|SEMA4B_uc010bnv.1_Intron	NM_020210	NP_064595			semaphorin 4B precursor											ovary(1)|breast(1)|kidney(1)	3	Melanoma(11;0.00551)|Lung NSC(78;0.0125)|all_lung(78;0.0272)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.217)			CTTGCTCTACCGGCACCGGAA	0.607													4	24					0	0	0.014758	0	0		T	90771576	T	T	90771576	3	4	47	1	0	0	0	0	1	0	0	0	14057	643	23	1	2269	1	SEMA4B	15	90771576	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	15190872	90771576	11759816	143	35831											
ZSCAN10	84891	broad.mit.edu	37	chr16	3139328	3139328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgccgccgcagatgcgCgttgcgccggaagctgcgac	6	5	16	14	7	0	1	0	0	0	1	0	3	0	2	3	2	5	3	3	2	1	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr16:3139328C>T	uc002ctv.1	-	5	2030	c.1942G>A	c.(1942-1944)GCG>ACG	p.A648T	ZSCAN10_uc002cty.1_Missense_Mutation_p.A309T|ZSCAN10_uc002ctw.1_Missense_Mutation_p.A566T|ZSCAN10_uc002ctx.1_Missense_Mutation_p.A576T	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	648	C2H2-type 12.				negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						CGCAGATGCGCGTTGCGCCGG	0.711													16	22					0	0	0.007413	0	0		T	3139328	T	T	3139328	3	4	47	1	0	0	0	0	1	0	0	0	18252	768	27	1	239	1	ZSCAN10	16	3139328	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08		3139328	87215425	144	35832											
ZSCAN10	84891	broad.mit.edu	37	chr16	3140172	3140172	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggagtgggtcagcaggtgCttgctcaggtgcgagctctg	6	9	18	8	1	3	0	2	0	1	0	3	3	3	1	0	4	5	4	0	4	0	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr16:3140172C>G	uc002ctv.1	-	5	1186	c.1098G>C	c.(1096-1098)AAG>AAC	p.K366N	ZSCAN10_uc002cty.1_Missense_Mutation_p.K27N|ZSCAN10_uc002ctw.1_Missense_Mutation_p.K284N|ZSCAN10_uc002ctx.1_Missense_Mutation_p.K294N	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	366	C2H2-type 3.				negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						TCAGCAGGTGCTTGCTCAGGT	0.697													27	35					0	0	0.015359	0	0		G	3140172	G	G	3140172	3	3	47	1	0	0	0	0	1	0	0	0	18252	796	28	5	1083	5	ZSCAN10	16	3140172	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	844	3140172	87214581	145	35833											
CORO7	79585	broad.mit.edu	37	chr16	4411080	4411080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggagcagatcttctccGtgtggcctggaggaaggcag	8	7	17	9	1	2	1	0	0	2	1	3	4	2	4	2	5	1	3	2	5	1	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr16:4411080G>A	uc002cwh.3	-	19	1901	c.1781C>T	c.(1780-1782)ACG>ATG	p.T594M	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Missense_Mutation_p.T594M|CORO7_uc002cwg.3_Missense_Mutation_p.T374M|CORO7_uc010uxh.1_Missense_Mutation_p.T576M|CORO7_uc010uxi.1_Missense_Mutation_p.T509M|CORO7_uc002cwi.1_Missense_Mutation_p.T374M|CORO7_uc010uxj.1_RNA	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	594	WD 6.					cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						GATCTTCTCCGTGTGGCCTGG	0.622													10	41					0	0	0.006214	0	0		A	4411080	A	A	4411080	3	1	47	1	0	0	0	0	1	0	0	0	3762	1145	40	1	1036	1	CORO7	16	4411080	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	1270908	4411080	85943673	146	35834											
XPO6	23214	broad.mit.edu	37	chr16	28112970	28112970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaggacctggagcagcaCgttcacaaactggaacagca	14	4	11	12	1	1	0	1	0	0	0	1	4	1	3	2	3	5	4	2	3	2	1	rs14672		TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr16:28112970C>T	uc002dpa.1	-	23	3586	c.3085G>A	c.(3085-3087)GTG>ATG	p.V1029M	XPO6_uc002dpb.1_Missense_Mutation_p.V1015M|XPO6_uc010vcp.1_Missense_Mutation_p.V1028M	NM_015171	NP_055986	Q96QU8	XPO6_HUMAN	exportin 6	1029					protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2						TGGAGCAGCACGTTCACAAAC	0.577													9	35					0	0	0.006214	0	0		T	28112970	T	T	28112970	3	4	47	1	0	0	0	0	1	0	0	0	17474	536	19	1	300	1	XPO6	16	28112970	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	23701890	28112970	62241783	147	35835											
CES1	1066	broad.mit.edu	37	chr16	55857569	55857569	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgccgcacccaccatcagCccccctccgtggatccacac	8	5	7	21	2	1	0	1	0	0	0	3	2	3	1	8	1	2	1	8	1	0	0			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr16:55857569C>A	uc002eim.2	-	4	537	c.429G>T	c.(427-429)GGG>GGT	p.G143G	CES1_uc002eil.2_Silent_p.G144G|CES1_uc002ein.2_Silent_p.G143G	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	143			G -> E (5.4-fold decrease in activity with p-nitrophenyl acetate as substrate; no change in affinity for p-nitrophenyl acetate; loss of activity with L- or D- methylphenidate as substrate).		response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	CCACCATCAGCCCCCCTCCGT	0.562													6	123					0.00307968	0.00317341	0.00308	1	0		A	55857569	A	A	55857569	2	1	47	1	0	0	0	0	0	0	0	1	3272	726	26	5		5	CES1	16	55857569	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08	27744599	55857569	34497184	148	35836											
CDH8	1006	broad.mit.edu	37	chr16	61761004	61761004	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggagatatttacttggccGggttttccattttcacataa	10	16	8	7	1	1	1	1	0	0	1	2	2	2	1	2	3	1	1	2	3	3	9			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr16:61761004G>A	uc002eog.1	-	9	1782	c.1530C>T	c.(1528-1530)CCC>CCT	p.P510P	CDH8_uc002eoh.2_Silent_p.P279P	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	510	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TTACTTGGCCGGGTTTTCCAT	0.368													87	82					0	0	0.01441	0	0		A	61761004	A	A	61761004	2	1	47	1	0	0	0	0	0	0	0	1	3119	1103	39	1		1	CDH8	16	61761004	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	5903435	61761004	28593749	149	35837											
CDH11	1009	broad.mit.edu	37	chr16	64981820	64981820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggtttgatgtctttgcGggggataaatccattgatac	9	14	11	7	1	2	2	1	2	1	0	3	3	3	3	1	3	2	1	1	3	3	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr16:64981820G>A	uc002eoi.2	-	13	2511	c.2077C>T	c.(2077-2079)CGC>TGC	p.R693C	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_3'UTR|CDH11_uc010vin.1_Missense_Mutation_p.R567C	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	693	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		ATGTCTTTGCGGGGGATAAAT	0.488			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			46	154					0	0	0.01441	0	0		A	64981820	A	A	64981820	3	1	47	1	0	0	0	0	1	0	0	0	3100	1116	39	1	317	1	CDH11	16	64981820	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	3220816	64981820	25372933	150	35838											
GAS8	2622	broad.mit.edu	37	chr16	90099328	90099328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtggtgaagaacctgcGgctggtaggtgtggcggggg	5	8	23	5	2	0	2	0	1	0	1	0	2	0	2	1	9	2	2	1	9	3	1	rs141287302		TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr16:90099328G>A	uc002fqi.1	+	4	613	c.491G>A	c.(490-492)CGG>CAG	p.R164Q	GAS8_uc010vps.1_Missense_Mutation_p.R139Q|GAS8_uc002fqh.2_Missense_Mutation_p.R81Q|GAS8_uc010vpt.1_Missense_Mutation_p.R164Q|GAS8_uc010vpu.1_Missense_Mutation_p.R81Q|GAS8_uc010vpv.1_Missense_Mutation_p.R135Q|GAS8_uc010cjc.1_Missense_Mutation_p.R81Q|GAS8_uc010vpw.1_Missense_Mutation_p.R81Q|GAS8_uc002fqj.1_5'UTR	NM_001481	NP_001472	O95995	GAS8_HUMAN	growth arrest-specific 8	164	Microtubule-binding.				negative regulation of cell proliferation|sperm motility	cilium|Golgi apparatus|microtubule|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.029)		AAGAACCTGCGGCTGGTAGGT	0.448													4	20					0	0	0.014758	0	0		A	90099328	A	A	90099328	3	1	47	1	0	0	0	0	1	0	0	0	6266	1116	39	1	505	1	GAS8	16	90099328	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	25117508	90099328	255425	151	35839											
TP53	7157	broad.mit.edu	37	chr17	7578212	7578212	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcaccaccacactatgtcGaaaagtgtttctgtcatcca	11	10	8	12	1	2	0	1	0	1	0	4	1	3	0	3	1	0	2	3	1	3	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr17:7578212G>A	uc002gim.2	-	6	831	c.637C>T	c.(637-639)CGA>TGA	p.R213*	TP53_uc002gig.1_Nonsense_Mutation_p.R213*|TP53_uc002gih.2_Nonsense_Mutation_p.R213*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R81*|TP53_uc010cng.1_Nonsense_Mutation_p.R81*|TP53_uc002gii.1_Nonsense_Mutation_p.R81*|TP53_uc010cnh.1_Nonsense_Mutation_p.R213*|TP53_uc010cni.1_Nonsense_Mutation_p.R213*|TP53_uc002gij.2_Nonsense_Mutation_p.R213*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.R120*|TP53_uc002gio.2_Nonsense_Mutation_p.R81*|TP53_uc010vug.1_Nonsense_Mutation_p.R174*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	213	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(186)|p.R213L(25)|p.R213Q(22)|p.R213fs*34(10)|p.0?(7)|p.R213P(5)|p.R81*(2)|p.R120*(2)|p.R213G(2)|p.K164_P219del(1)|p.D208_V216delDRNTFRHSV(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R213*33(1)|p.D208fs*1(1)|p.R213>L(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ACACTATGTCGAAAAGTGTTT	0.532		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			13	19					0	0	0.013537	0	0		A	7578212	A	A	7578212	4	1	47	1	0	0	0	0	0	1	0	0	16407	1066	37	1	657	1	TP53	17	7578212	Nonsense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08		7578212	73616998	152	35840											
TNFAIP1	7126	broad.mit.edu	37	chr17	26671447	26671447	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacgtcctactctatgagActccccgcgtccccgacaac	9	8	6	18	4	2	1	1	1	1	1	5	3	5	1	5	0	3	0	5	0	4	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr17:26671447A>T	uc002hax.1	+	7	791	c.772A>T	c.(772-774)ACT>TCT	p.T258S	TNFAIP1_uc002hay.2_Missense_Mutation_p.T258S|TNFAIP1_uc010waf.1_Missense_Mutation_p.T154S	NM_021137	NP_066960	Q13829	BACD2_HUMAN	tumor necrosis factor, alpha-induced protein 1	258					apoptosis|cell migration|DNA replication|embryo development|immune response|negative regulation of Rho protein signal transduction|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|endosome|nucleus|voltage-gated potassium channel complex	GTP-Rho binding|voltage-gated potassium channel activity				0	all_lung(13;0.000294)|Lung NSC(42;0.000964)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		ACTCTATGAGACTCCCCGCGT	0.572													13	35					0	0	0.00245	0	0		T	26671447	T	T	26671447	3	4	47	1	0	0	0	0	1	0	0	0	16297	275	10	5	794	5	TNFAIP1	17	26671447	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	19093235	26671447	54523763	153	35841											
CNTNAP1	8506	broad.mit.edu	37	chr17	40837321	40837321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcctgtgggacgtgttcGccttcagcttcaagaccgag	8	9	13	11	3	2	1	2	0	0	1	3	4	2	2	3	1	2	2	3	1	2	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr17:40837321G>A	uc002iay.2	+	5	814	c.598G>A	c.(598-600)GCC>ACC	p.A200T	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	200	Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		GGACGTGTTCGCCTTCAGCTT	0.642													16	41					0	0	0.006122	0	0		A	40837321	A	A	40837321	3	1	47	1	0	0	0	0	1	0	0	0	3649	1087	38	1	616	1	CNTNAP1	17	40837321	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	14165874	40837321	40357889	154	35842											
ITGB4	3691	broad.mit.edu	37	chr17	73747111	73747112	+	Frame_Shift_Ins	INS	-	T	T																															ctcctccacggtgacccagcINStgagctgggctgagccggct																										TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr17:73747111_73747112insT	uc002jpg.2	+	30	3899_3900	c.3712_3713insT	c.(3712-3714)CTGfs	p.L1238fs	ITGB4_uc002jph.2_Frame_Shift_Ins_p.L1238fs|ITGB4_uc002jpi.3_Frame_Shift_Ins_p.L1238fs|ITGB4_uc002jpj.2_Frame_Shift_Ins_p.L1238fs	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1238	Fibronectin type-III 2.|Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGTGACCCAGCTGAGCTGGGCT	0.594													30	69	---	---	---	---						.	T	73747112	T	T	73747111	7	5	47	1	0	1	1	0	0	0	0	0	7913	796	28	0	3826	0	ITGB4	17	73747111	Frame_Shift_Ins	INS	-	TCGA-BR-7197-01A-11D-2201-08	32909790	73747111	7448099	155	35843											
LAMA1	284217	broad.mit.edu	37	chr18	7043226	7043226	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcaaagaaatactcttacTttgtgtggtctataatatcc	12	15	7	7	0	2	1	0	0	2	1	3	1	3	1	1	2	2	1	1	2	7	6			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr18:7043226T>G	uc002knm.2	-	8	1249	c.1155A>C	c.(1153-1155)AAA>AAC	p.K385N	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	385	Laminin EGF-like 2.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATACTCTTACTTTGTGTGGTC	0.403													42	133					0	0	0.01441	0	0		G	7043226	G	G	7043226	3	3	47	1	0	0	0	0	1	0	0	0	8621	1623	56	5	8296	5	LAMA1	18	7043226	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08		7043226	71034022	156	35844											
DCC	1630	broad.mit.edu	37	chr18	50848502	50848502	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttccaactggtatactgcAgagactccagagaatgatct	12	10	8	11	0	1	3	0	1	1	2	3	5	3	3	3	1	3	2	3	1	4	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr18:50848502A>T	uc002lfe.1	+	14	2726	c.2139A>T	c.(2137-2139)GCA>GCT	p.A713A	DCC_uc010xdr.1_Silent_p.A561A|DCC_uc010dpf.1_Silent_p.A368A	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	713	Extracellular (Potential).|Fibronectin type-III 3.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		GGTATACTGCAGAGACTCCAG	0.403													16	38					0	0	0.006122	0	0		T	50848502	T	T	50848502	2	4	47	1	0	0	0	0	0	0	0	1	4285	175	7	5		5	DCC	18	50848502	Silent	SNP	A	TCGA-BR-7197-01A-11D-2201-08	43805276	50848502	27228746	157	35845											
CDH7	1005	broad.mit.edu	37	chr18	63530059	63530059	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactgtgatgctgacggcgtAgcccagacctgcaatgcaga	10	7	13	11	2	0	4	0	2	0	2	0	5	0	4	2	1	4	4	2	1	2	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr18:63530059A>G	uc002ljz.2	+	11	2095	c.1770A>G	c.(1768-1770)GTA>GTG	p.V590V	CDH7_uc002lka.2_Silent_p.V590V|CDH7_uc002lkb.2_Silent_p.V590V	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	590	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				CTGACGGCGTAGCCCAGACCT	0.527													5	16					0	0	0.014758	0	0		G	63530059	G	G	63530059	2	3	47	1	0	0	0	0	0	0	0	1	3118	407	15	3		3	CDH7	18	63530059	Silent	SNP	A	TCGA-BR-7197-01A-11D-2201-08	12681557	63530059	14547189	158	35846											
ZNF407	55628	broad.mit.edu	37	chr18	72346747	72346747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgacgctcgatggggagCgctcggctgaaagccctgtg	6	8	16	11	4	0	2	0	2	0	0	2	4	0	3	1	3	2	3	1	3	1	0			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr18:72346747C>T	uc002llw.2	+	1	3829	c.3772C>T	c.(3772-3774)CGC>TGC	p.R1258C	ZNF407_uc010xfc.1_Missense_Mutation_p.R1258C|ZNF407_uc010dqu.1_Missense_Mutation_p.R1258C|ZNF407_uc002llu.2_Missense_Mutation_p.R1257C	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1258					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		CGATGGGGAGCGCTCGGCTGA	0.577													6	25					0	0	0.001984	0	0		T	72346747	T	T	72346747	3	4	47	1	0	0	0	0	1	0	0	0	17912	768	27	1	3774	1	ZNF407	18	72346747	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	8816688	72346747	5730501	159	35847											
MUC16	94025	broad.mit.edu	37	chr19	9059857	9059857	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatttgggggtgaactggTttcaggttctgagcttgtgc	7	14	14	6	0	2	2	1	2	1	0	2	2	2	2	0	4	3	3	0	4	2	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:9059857T>A	uc002mkp.2	-	3	27793	c.27589A>T	c.(27589-27591)ACC>TCC	p.T9197S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9199	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTGAACTGGTTTCAGGTTCT	0.498													38	106					0	0	0.013114	0	0		A	9059857	A	A	9059857	3	1	47	1	0	0	0	0	1	0	0	0	9991	1725	60	5	16262	5	MUC16	19	9059857	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08		9059857	50069126	160	35848											
MUC16	94025	broad.mit.edu	37	chr19	9072191	9072191	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcacaggttccaagcgTgtacgtaatatgtctgtaat	10	13	10	8	2	2	0	1	0	1	0	3	0	3	0	1	2	2	4	1	2	5	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:9072191T>G	uc002mkp.2	-	3	15459	c.15255A>C	c.(15253-15255)ACA>ACC	p.T5085T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5087	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTTCCAAGCGTGTACGTAATA	0.433													74	116					0	0	0.01441	0	0		G	9072191	G	G	9072191	2	3	47	1	0	0	0	0	0	0	0	1	9991	1683	59	5		5	MUC16	19	9072191	Silent	SNP	T	TCGA-BR-7197-01A-11D-2201-08	12334	9072191	50056792	161	35849											
MUC16	94025	broad.mit.edu	37	chr19	9073279	9073279	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgacatcattgttcattgCagtggttatttttgagtggg	7	18	11	5	0	2	2	2	2	0	0	2	2	2	2	0	2	1	3	0	2	1	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:9073279C>A	uc002mkp.2	-	3	14371	c.14167G>T	c.(14167-14169)GCA>TCA	p.A4723S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4725	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTGTTCATTGCAGTGGTTATT	0.483													32	138					1.26612e-14	1.36395e-14	0.015359	1	0		A	9073279	A	A	9073279	3	1	47	1	0	0	0	0	1	0	0	0	9991	710	25	5	29684	5	MUC16	19	9073279	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	1088	9073279	50055704	162	35850											
CHERP	10523	broad.mit.edu	37	chr19	16638979	16638979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgtgtggcccggggcccCgggggccggcagctgcagga	3	4	21	13	4	0	0	0	0	0	0	1	1	0	1	4	8	2	3	4	8	0	0			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:16638979C>T	uc002nei.1	-	9	1291	c.1217G>A	c.(1216-1218)CGG>CAG	p.R406Q	MED26_uc002nee.2_Intron|CHERP_uc010xpg.1_5'Flank	NM_006387	NP_006378	Q8IWX8	CHERP_HUMAN	calcium homeostasis endoplasmic reticulum	406	Pro-rich.				cellular calcium ion homeostasis|negative regulation of cell proliferation|nervous system development|RNA processing	endoplasmic reticulum|perinuclear region of cytoplasm	RNA binding			ovary(2)	2						cccggggccccgggggccggc	0.507													38	26					0	0	0.006999	0	0		T	16638979	T	T	16638979	3	4	47	1	0	0	0	0	1	0	0	0	3339	652	23	1	1569	1	CHERP	19	16638979	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	7565700	16638979	42490004	163	35851											
MRPL34	64981	broad.mit.edu	37	chr19	17416747	17416747	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgggccccacgagtaggtcgGcagcgttgctgggtggcagg	5	7	19	10	3	0	0	0	0	0	0	1	1	0	0	2	6	2	5	2	6	1	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:17416747G>C	uc002ngc.1	+	1	271	c.46G>C	c.(46-48)GCA>CCA	p.A16P	ABHD8_uc002ngb.3_5'Flank	NM_023937	NP_076426	Q9BQ48	RM34_HUMAN	mitochondrial ribosomal protein L34 precursor	16					translation		structural constituent of ribosome				0						GAGTAGGTCGGCAGCGTTGCT	0.662													30	26					0	0	0.003755	0	0		C	17416747	C	C	17416747	3	2	47	1	0	0	0	0	1	0	0	0	9815	1203	42	5	48	5	MRPL34	19	17416747	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	777768	17416747	41712236	164	35852											
RPL18A	6142	broad.mit.edu	37	chr19	17972164	17972164	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgccacacgccgcccctCtaccgcatgcgaatctttgc	9	8	7	17	4	2	0	0	0	2	0	2	1	2	0	5	0	4	1	5	0	3	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:17972164C>A	uc002nhp.1	+	2	116	c.81C>A	c.(79-81)CTC>CTA	p.L27L	SNORA68_uc002nhq.1_5'Flank	NM_000980	NP_000971	Q02543	RL18A_HUMAN	ribosomal protein L18a	27					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0						CGCCGCCCCTCTACCGCATGC	0.542													3	23					6.5536e-12	6.99641e-12	0.00308	1	0		A	17972164	A	A	17972164	2	1	47	1	0	0	0	0	0	0	0	1	13590	900	32	5		5	RPL18A	19	17972164	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08	555417	17972164	41156819	165	35853											
CRTC1	23373	broad.mit.edu	37	chr19	18886480	18886480	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaacatgatggagaacgcCatcagctccagcagcctgta	12	8	9	12	1	2	2	2	1	0	1	3	3	3	2	3	1	5	3	3	1	3	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:18886480C>T	uc002nkb.3	+	13	1630	c.1542C>T	c.(1540-1542)GCC>GCT	p.A514A	CRTC1_uc010ebv.2_Silent_p.A530A|CRTC1_uc010ebw.2_Silent_p.A350A|CRTC1_uc002nkc.3_Silent_p.A212A	NM_015321	NP_056136	Q6UUV9	CRTC1_HUMAN	mucoepidermoid carcinoma translocated 1 isoform	514					interspecies interaction between organisms|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	cAMP response element binding protein binding|protein binding		CRTC1/MAML2(516)	salivary_gland(474)|lung(35)|thyroid(4)|breast(3)|skin(2)|ovary(1)	519						TGGAGAACGCCATCAGCTCCA	0.677													5	49					0	0	0.001168	0	0		T	18886480	T	T	18886480	2	4	47	1	0	0	0	0	0	0	0	1	3902	581	21	4		4	CRTC1	19	18886480	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08	914316	18886480	40242503	166	35854											
ZNF493	284443	broad.mit.edu	37	chr19	21606384	21606384	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttaaccaatcttcaacccTtactggacataagataattc	14	14	3	10	0	2	1	1	0	1	1	3	2	2	2	2	1	3	0	2	1	6	7			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:21606384T>A	uc002npx.2	+	2	819	c.539T>A	c.(538-540)CTT>CAT	p.L180H	ZNF493_uc002npw.2_Missense_Mutation_p.L308H|ZNF493_uc002npy.2_Missense_Mutation_p.L180H	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	180	C2H2-type 6; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCTTCAACCCTTACTGGACAT	0.328													17	38					0	0	0.00499	0	0		A	21606384	A	A	21606384	3	1	47	1	0	0	0	0	1	0	0	0	17969	1609	56	5	1000	5	ZNF493	19	21606384	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	2719904	21606384	37522599	167	35855											
ZNF43	7594	broad.mit.edu	37	chr19	22002007	22002007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattctatggccacatccAtaaatgtcaatggtccctaa	14	11	6	10	0	2	1	1	0	1	1	4	1	4	1	3	2	0	0	3	2	6	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:22002007A>G	uc002nqj.2	-	2	150	c.20T>C	c.(19-21)ATG>ACG	p.M7T	ZNF43_uc010ecv.2_Missense_Mutation_p.M1T|ZNF43_uc002nql.2_Missense_Mutation_p.M1T|ZNF43_uc002nqm.2_Missense_Mutation_p.M1T|ZNF43_uc002nqk.2_Intron	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	7	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		GGCCACATCCATAAATGTCAA	0.393													27	47					0	0	0.010818	0	0		G	22002007	G	G	22002007	3	3	47	1	0	0	0	0	1	0	0	0	17928	217	8	3	2421	3	ZNF43	19	22002007	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	395623	22002007	37126976	168	35856											
ZNF208	7757	broad.mit.edu	37	chr19	22156121	22156121	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctacagtatgaattttcTtatgataactaagggttgag	12	16	8	5	0	2	3	0	3	2	0	3	3	2	3	0	1	2	2	0	1	6	8			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:22156121T>G	uc002nqp.2	-	5	1564	c.1415A>C	c.(1414-1416)AAG>ACG	p.K472T	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				ATGAATTTTCTTATGATAACT	0.343													13	16					0	0	0.010504	0	0		G	22156121	G	G	22156121	3	3	47	1	0	0	0	0	1	0	0	0	17791	1609	56	5	2131	5	ZNF208	19	22156121	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	154114	22156121	36972862	169	35857											
TSHZ3	57616	broad.mit.edu	37	chr19	31768179	31768179	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatctgacaaggcattctcGcgtagcggcgagtttgacat	10	11	11	9	4	2	2	0	2	2	0	3	3	2	2	0	2	1	3	0	2	3	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:31768179G>A	uc002nsy.3	-	2	2585	c.2520C>T	c.(2518-2520)CGC>CGT	p.R840R		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	840					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					AGGCATTCTCGCGTAGCGGCG	0.522													54	203					0	0	0.01441	0	0		A	31768179	A	A	31768179	2	1	47	1	0	0	0	0	0	0	0	1	16651	1074	38	1		1	TSHZ3	19	31768179	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	9612058	31768179	27360804	170	35858											
ZNF382	84911	broad.mit.edu	37	chr19	37117123	37117123	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atattcatcaaccacaaaaaActaattaaggagagaagtaa	22	8	5	6	0	2	1	2	0	0	1	2	3	2	2	1	1	2	1	1	1	9	5			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:37117123A>C	uc002oek.2	+	5	437	c.324A>C	c.(322-324)AAA>AAC	p.K108N	ZNF382_uc010efa.2_Missense_Mutation_p.K59N|ZNF382_uc010efb.2_Missense_Mutation_p.K107N|ZNF382_uc002oel.2_Missense_Mutation_p.K107N	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	108	Represses transcription (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			ACCACAAAAAACTAATTAAGG	0.328													13	24					0	0	0.003163	0	0		C	37117123	C	C	37117123	3	2	47	1	0	0	0	0	1	0	0	0	17898	40	2	5	334	5	ZNF382	19	37117123	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	5348944	37117123	22011860	171	35859											
PRX	57716	broad.mit.edu	37	chr19	40902612	40902612	+	Silent	SNP	C	G	G																															agtttcatctctgacactttCggcagctgtacctctggaag																										TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:40902612C>G	uc002onr.2	-	7	1916	c.1647G>C	c.(1645-1647)CCG>CCC	p.P549P	PRX_uc002onq.2_Silent_p.P410P|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	549	55 X 5 AA approximate tandem repeats of [LVMAG]-[PSREQC]-[EDKL]-[LIVMAP]- [AQKHRPE]; that may have a tripeptide spacer of [LV]-P-[KER].|18.				axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding	p.P549P(1)		ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CTGACACTTTCGGCAGCTGTA	0.577													4	176					0	0	0.014758	0	0		G	40902612	G	G	40902612	2	3	47	1	0	0	0	0	0	0	0	1	12664	871	31	5		5	PRX	19	40902612	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08	3785489	40902612	18226371	172	35860	72	2									
PRX	57716	broad.mit.edu	37	chr19	40902620	40902620	+	Missense_Mutation	SNP	G	C	C																															ctctgacactttcggcagctGtacctctggaagccgcacct																										TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:40902620G>C	uc002onr.2	-	7	1908	c.1639C>G	c.(1639-1641)CAG>GAG	p.Q547E	PRX_uc002onq.2_Missense_Mutation_p.Q408E|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	547	55 X 5 AA approximate tandem repeats of [LVMAG]-[PSREQC]-[EDKL]-[LIVMAP]- [AQKHRPE]; that may have a tripeptide spacer of [LV]-P-[KER].|18.				axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TTCGGCAGCTGTACCTCTGGA	0.587													4	171					0	0	0.014758	0	0		C	40902620	C	C	40902620	3	2	47	1	0	0	0	0	1	0	0	0	12664	1386	48	5	2750	5	PRX	19	40902620	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	8	40902620	18226363	173	35861	72	2									
ERF	2077	broad.mit.edu	37	chr19	42753425	42753425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatcgggctcagcgtgggcGagggagtgtaggccaggtgg	7	6	20	8	3	1	0	1	0	0	0	2	2	1	1	1	6	1	2	1	6	1	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:42753425G>A	uc002ote.3	-	4	997	c.839C>T	c.(838-840)TCG>TTG	p.S280L	ERF_uc002otd.3_Missense_Mutation_p.S11L	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	280					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				CAGCGTGGGCGAGGGAGTGTA	0.692													7	3					0	0	0.001984	0	0		A	42753425	A	A	42753425	3	1	47	1	0	0	0	0	1	0	0	0	5229	1059	37	1	811	1	ERF	19	42753425	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	1850805	42753425	16375558	174	35862											
BCAT2	587	broad.mit.edu	37	chr19	49310309	49310309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacacagaagccaagggacaGagagaagctttcgtgcccag	14	4	12	11	1	0	3	0	0	0	3	1	5	0	4	2	1	3	1	2	1	3	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:49310309G>A	uc002pkr.2	-	2	84	c.47C>T	c.(46-48)TCT>TTT	p.S16F	BCAT2_uc002pkp.2_5'UTR|BCAT2_uc002pkq.3_5'UTR|BCAT2_uc002pks.2_5'UTR|BCAT2_uc002pkt.2_Intron|BCAT2_uc010emh.1_Missense_Mutation_p.S16F|BCAT2_uc010emi.1_Intron|BCAT2_uc002pku.1_5'UTR|BCAT2_uc010emj.1_RNA	NM_001190	NP_001181	O15382	BCAT2_HUMAN	branched chain aminotransferase 2, mitochondrial	16						mitochondrial matrix	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			ovary(1)	1		all_epithelial(76;7e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000138)|all cancers(93;0.000366)|Epithelial(262;0.0195)|GBM - Glioblastoma multiforme(486;0.0224)	L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|Pyridoxal Phosphate(DB00114)	CCAAGGGACAGAGAGAAGCTT	0.597													15	30					0	0	0.008871	0	0		A	49310309	A	A	49310309	3	1	47	1	0	0	0	0	1	0	0	0	1356	942	33	4	1171	4	BCAT2	19	49310309	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	6556884	49310309	9818674	175	35863											
KLK4	9622	broad.mit.edu	37	chr19	51411894	51411894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccccgcggtagggcactgcGaagcaatgctgatgctccgg	7	7	14	13	4	0	1	0	1	0	0	2	2	2	1	3	3	4	5	3	3	3	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:51411894G>A	uc002pua.1	-	3	416	c.416C>T	c.(415-417)TCG>TTG	p.S139L	KLK4_uc002pty.1_Missense_Mutation_p.S90L|KLK4_uc002ptz.1_RNA|KLK4_uc002pub.1_Missense_Mutation_p.S44L|KLK4_uc002puc.1_RNA|KLK4_uc010eoi.1_Missense_Mutation_p.S44L|KLK4_uc002pud.1_Missense_Mutation_p.S44L	NM_004917	NP_004908	Q9Y5K2	KLK4_HUMAN	kallikrein-related peptidase 4 preproprotein	139	Peptidase S1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00624)|GBM - Glioblastoma multiforme(134;0.00878)		AGGGCACTGCGAAGCAATGCT	0.587													16	35					0	0	0.00499	0	0		A	51411894	A	A	51411894	3	1	47	1	0	0	0	0	1	0	0	0	8422	1059	37	1	360	1	KLK4	19	51411894	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	2101585	51411894	7717089	176	35864											
SIGLEC10	89790	broad.mit.edu	37	chr19	51920007	51920007	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcggtgttgtggtcctGgggtctgggcgtgaagctga	4	11	20	6	2	1	2	0	2	1	0	3	3	2	2	1	6	1	2	1	6	1	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr19:51920007G>A	uc002pwo.2	-	3	1235	c.619C>T	c.(619-621)CAG>TAG	p.Q207*	SIGLEC10_uc002pwp.2_Nonsense_Mutation_p.Q149*|SIGLEC10_uc002pwq.2_Nonsense_Mutation_p.Q149*|SIGLEC10_uc002pwr.2_Nonsense_Mutation_p.Q207*|SIGLEC10_uc010ycy.1_Nonsense_Mutation_p.Q207*|SIGLEC10_uc010ycz.1_Nonsense_Mutation_p.Q159*|SIGLEC10_uc010eow.2_5'UTR|SIGLEC10_uc002pws.1_Nonsense_Mutation_p.Q133*	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	207	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		TTGTGGTCCTGGGGTCTGGGC	0.617													12	21					0	0	0.010729	0	0		A	51920007	A	A	51920007	4	1	47	1	0	0	0	0	0	1	0	0	14331	1357	47	4	1510	4	SIGLEC10	19	51920007	Nonsense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	508113	51920007	7208976	177	35865											
PTPRA	5786	broad.mit.edu	37	chr20	2988067	2988067	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaatgcttcattcatcaacGtaaggatcgggtgctttccc	9	13	8	11	2	4	0	4	0	0	0	6	1	5	1	1	2	3	3	1	2	3	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr20:2988067G>A	uc010zqd.1	+	10	1256	c.939_splice	c.e10+1	p.N313_splice	PTPRA_uc002whj.2_Splice_Site_p.N302_splice|PTPRA_uc002whk.2_Splice_Site_p.N293_splice|PTPRA_uc002whl.2_Splice_Site_p.N293_splice|PTPRA_uc002whm.2_Splice_Site_p.N69_splice|PTPRA_uc002whn.2_Splice_Site_p.N293_splice|PTPRA_uc002who.2_Splice_Site	NM_002836	NP_002827	P18433	PTPRA_HUMAN	protein tyrosine phosphatase, receptor type, A						axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1						ATTCATCAACGTAAGGATCGG	0.458													26	143					0	0	0.005443	0	0		A	2988067	A	A	2988067	5	1	47	1	0	0	0	0	0	0	1	0	12820	1159	40	1	937	1	PTPRA	20	2988067	Splice_Site	SNP	G	TCGA-BR-7197-01A-11D-2201-08		2988067	60037453	178	35866											
ESF1	51575	broad.mit.edu	37	chr20	13756707	13756707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctcatcttcatcctcctCttcatcttcatcctcctctt	5	18	0	18	0	8	0	4	0	4	0	13	0	13	0	5	0	0	0	5	0	0	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr20:13756707C>T	uc002woj.2	-	3	955	c.847G>A	c.(847-849)GAG>AAG	p.E283K	ESF1_uc002wok.1_Missense_Mutation_p.E283K	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	283	Asp-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						tcatcctcctcttcatcttca	0.234													27	77					0	0	0.004656	0	0		T	13756707	T	T	13756707	3	4	47	1	0	0	0	0	1	0	0	0	5259	922	32	4	1756	4	ESF1	20	13756707	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	10768640	13756707	49268813	179	35867											
MYH7B	57644	broad.mit.edu	37	chr20	33577664	33577664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccaatttccagcagcctcGgcctgacaagaagcgcaagt	12	6	9	14	2	0	2	0	1	0	1	2	2	1	2	4	1	3	2	4	1	4	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr20:33577664G>A	uc002xbi.1	+	18	1927	c.1835G>A	c.(1834-1836)CGG>CAG	p.R612Q	MIR499_hsa-mir-499|MI0003183_5'Flank	NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	570	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			CAGCAGCCTCGGCCTGACAAG	0.632													11	73					0	0	0.010729	0	0		A	33577664	A	A	33577664	3	1	47	1	0	0	0	0	1	0	0	0	10058	1116	39	1	1905	1	MYH7B	20	33577664	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	19820957	33577664	29447856	180	35868											
LPIN3	64900	broad.mit.edu	37	chr20	39977772	39977772	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcactgcagcccaaagacAtctacccctactcggatggc	10	8	7	16	1	2	1	1	0	1	1	3	2	2	2	3	2	4	1	3	2	3	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr20:39977772A>G	uc002xjx.2	+	5	689	c.598A>G	c.(598-600)ATC>GTC	p.I200V	LPIN3_uc010ggh.2_Missense_Mutation_p.I201V|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	200					fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				GCCCAAAGACATCTACCCCTA	0.547													29	205					0	0	0.015359	0	0		G	39977772	G	G	39977772	3	3	47	1	0	0	0	0	1	0	0	0	8938	217	8	3	612	3	LPIN3	20	39977772	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	6400108	39977772	23047748	181	35869											
CSTF1	1477	broad.mit.edu	37	chr20	54970640	54970640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtgggcttgaaggaccGccagcagctctacaagctga	12	6	12	11	1	1	2	0	2	1	0	1	3	1	3	2	2	4	4	2	2	4	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr20:54970640G>A	uc002xxl.1	+	2	232	c.32G>A	c.(31-33)CGC>CAC	p.R11H	CSTF1_uc002xxm.1_Missense_Mutation_p.R11H|CSTF1_uc002xxn.1_Missense_Mutation_p.R11H|CSTF1_uc002xxo.1_5'UTR	NM_001033521	NP_001028693	Q05048	CSTF1_HUMAN	cleavage stimulation factor subunit 1	11					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding			central_nervous_system(1)	1			Colorectal(105;0.202)			TTGAAGGACCGCCAGCAGCTC	0.498													7	45					0	0	0.00308	0	0		A	54970640	A	A	54970640	3	1	47	1	0	0	0	0	1	0	0	0	3986	1087	38	1	34	1	CSTF1	20	54970640	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08	14992868	54970640	8054880	182	35870											
ZNF831	128611	broad.mit.edu	37	chr20	57766527	57766527	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtccgcactgtggtcgCgactgcctgaagcccagtgt	5	10	13	13	3	0	1	0	1	0	0	2	2	1	1	3	1	2	1	3	1	1	0			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr20:57766527C>T	uc002yan.2	+	1	453	c.453C>T	c.(451-453)CGC>CGT	p.R151R		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	151	C2H2-type 1.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					ACTGTGGTCGCGACTGCCTGA	0.657													83	187					0	0	0.01441	0	0		T	57766527	T	T	57766527	2	4	47	1	0	0	0	0	0	0	0	1	18210	755	27	1		1	ZNF831	20	57766527	Silent	SNP	C	TCGA-BR-7197-01A-11D-2201-08	2795887	57766527	5258993	183	35871											
ADAMTS5	11096	broad.mit.edu	37	chr21	28338124	28338124	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctcgaagctgaagcccTcgcgggtgtagacgtgcagg	7	6	17	11	4	0	2	0	1	0	1	2	3	0	2	2	3	3	3	2	3	3	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr21:28338124T>C	uc002ymg.2	-	1	1316	c.587A>G	c.(586-588)GAG>GGG	p.E196G		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	196					proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						GCTGAAGCCCTCGCGGGTGTA	0.697													6	6					0	0	0.00308	0	0		C	28338124	C	C	28338124	3	2	47	1	0	0	0	0	1	0	0	0	269	1551	54	3	2237	3	ADAMTS5	21	28338124	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08		28338124	19791771	184	35872											
SMC1B	27127	broad.mit.edu	37	chr22	45767386	45767386	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaaattctttaattcttcGttgtcgttccttgattcctt	6	22	5	8	2	2	2	0	2	2	0	6	2	4	2	2	0	0	2	2	0	2	11			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chr22:45767386G>A	uc003bgc.2	-	14	2330	c.2278C>T	c.(2278-2280)CGA>TGA	p.R760*	SMC1B_uc003bgd.2_Nonsense_Mutation_p.R760*|SMC1B_uc003bge.1_Nonsense_Mutation_p.R543*	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	760	Potential.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TTAATTCTTCGTTGTCGTTCC	0.299													10	28					0	0	0.006214	0	0		A	45767386	A	A	45767386	4	1	47	1	0	0	0	0	0	1	0	0	14807	1153	40	1	1477	1	SMC1B	22	45767386	Nonsense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08		45767386	5537180	185	35873											
RPS6KA3	6197	broad.mit.edu	37	chrX	20173605	20173605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaactggtgactgattacGgttcaaagcagaatatgtag	15	10	10	6	1	1	3	1	2	0	1	1	3	1	3	0	2	3	3	0	2	7	4			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chrX:20173605G>A	uc004czu.2	-	22	2134	c.2134C>T	c.(2134-2136)CGT>TGT	p.R712C	RPS6KA3_uc011mjk.1_Missense_Mutation_p.R682C|RPS6KA3_uc004czv.2_Missense_Mutation_p.R699C|RPS6KA3_uc011mjl.1_Missense_Mutation_p.R683C|RPS6KA3_uc011mjm.1_Missense_Mutation_p.R684C	NM_004586	NP_004577	P51812	KS6A3_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	712					axon guidance|central nervous system development|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|skeletal system development|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(4)|stomach(1)|ovary(1)|lung(1)|breast(1)	8						GACTGATTACGGTTCAAAGCA	0.433													20	43					0	0	0.003954	0	0		A	20173605	A	A	20173605	3	1	47	1	0	0	0	0	1	0	0	0	13677	1116	39	1	92	1	RPS6KA3	23	20173605	Missense_Mutation	SNP	G	TCGA-BR-7197-01A-11D-2201-08		20173605	135096955	186	35874											
ZNF645	158506	broad.mit.edu	37	chrX	22292314	22292314	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcaccttgtccaccaacGcggagtccacctccttcaac	8	9	6	18	2	2	0	2	0	0	0	5	1	5	1	6	1	2	0	6	1	2	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chrX:22292314G>A	uc004dai.1	+	1	1255	c.1206G>A	c.(1204-1206)ACG>ACA	p.T402T		NM_152577	NP_689790	Q8N7E2	ZN645_HUMAN	zinc finger protein 645	402						intracellular	zinc ion binding			lung(1)|pancreas(1)	2						GTCCACCAACGCGGAGTCCAC	0.458													29	48					0	0	0.010818	0	0		A	22292314	A	A	22292314	2	1	47	1	0	0	0	0	0	0	0	1	18086	1074	38	1		1	ZNF645	23	22292314	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	2118709	22292314	132978246	187	35875											
FAM47C	442444	broad.mit.edu	37	chrX	37028374	37028374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agactggagtgtcccatctcCgcccagagcctcccaagact	9	7	9	16	1	1	3	0	0	1	3	4	4	3	4	5	1	1	0	5	1	1	0	rs140469750	byFrequency	TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chrX:37028374C>T	uc004ddl.1	+	1	1905	c.1891C>T	c.(1891-1893)CGC>TGC	p.R631C		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	631										ovary(3)	3						GTCCCATCTCCGCCCAGAGCC	0.637													21	45					0	0	0.007291	0	0		T	37028374	T	T	37028374	3	4	47	1	0	0	0	0	1	0	0	0	5585	652	23	1	1893	1	FAM47C	23	37028374	Missense_Mutation	SNP	C	TCGA-BR-7197-01A-11D-2201-08	14736060	37028374	118242186	188	35876											
RBM10	8241	broad.mit.edu	37	chrX	47030564	47030564	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatcggaccgagcaaggggaGgaggaggaggaggaggagga	13	2	22	4	2	0	0	0	0	0	0	1	10	0	9	1	10	1	1	1	10	2	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chrX:47030564G>A	uc004dhf.2	+	4	718	c.339G>A	c.(337-339)GAG>GAA	p.E113E	RBM10_uc004dhe.1_Silent_p.E103E|RBM10_uc004dhg.2_Intron|RBM10_uc004dhh.2_Silent_p.E113E|RBM10_uc010nhq.2_Intron|RBM10_uc004dhi.2_Silent_p.E178E	NM_005676	NP_005667	P98175	RBM10_HUMAN	RNA binding motif protein 10 isoform 1	113	Poly-Glu.				mRNA processing|RNA splicing	chromatin remodeling complex	nucleotide binding|RNA binding|zinc ion binding			ovary(1)|large_intestine(1)|prostate(1)|breast(1)|pancreas(1)	5						AGCAAGGggaggaggaggagg	0.522													6	16					0	0	0.00308	0	0		A	47030564	A	A	47030564	2	1	47	1	0	0	0	0	0	0	0	1	13136	991	35	4		4	RBM10	23	47030564	Silent	SNP	G	TCGA-BR-7197-01A-11D-2201-08	10002190	47030564	108239996	189	35877											
ZCCHC16	340595	broad.mit.edu	37	chrX	111698082	111698082	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacactgctaaaaggggccaAgtcatgcctgccctggccac	11	6	10	14	0	1	0	1	0	0	0	1	0	1	0	4	3	4	1	4	3	4	1			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chrX:111698082A>C	uc004epo.1	+	3	567	c.126A>C	c.(124-126)CAA>CAC	p.Q42H		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	42							nucleic acid binding|zinc ion binding			ovary(1)	1						AAAGGGGCCAAGTCATGCCTG	0.522													13	6					0	0	0.013537	0	0		C	111698082	C	C	111698082	3	2	47	1	0	0	0	0	1	0	0	0	17609	69	3	5	128	5	ZCCHC16	23	111698082	Missense_Mutation	SNP	A	TCGA-BR-7197-01A-11D-2201-08	64667518	111698082	43572478	190	35878											
VGLL1	51442	broad.mit.edu	37	chrX	135638646	135638646	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacacctgggaaatactcacTtacaccaccaaaccactggg	14	6	7	14	0	1	0	1	0	0	0	1	2	1	1	4	2	3	0	4	2	4	2			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chrX:135638646T>G	uc004ezy.2	+	5	895	c.725T>G	c.(724-726)CTT>CGT	p.L242R		NM_016267	NP_057351	Q99990	VGLL1_HUMAN	vestigial like 1	242					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	transcription coactivator activity				0	Acute lymphoblastic leukemia(192;0.000127)					AAATACTCACTTACACCACCA	0.478													23	12					0	0	0.008361	0	0		G	135638646	G	G	135638646	3	3	47	1	0	0	0	0	1	0	0	0	17184	1609	56	5	739	5	VGLL1	23	135638646	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	23940564	135638646	19631914	191	35879											
UBE2NL	389898	broad.mit.edu	37	chrX	142967519	142967519	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagatccgcacagttcTgctatcgatccaggccttgt	7	11	9	14	2	1	1	0	0	1	1	4	2	3	1	4	1	2	4	4	1	1	3			TCGA-BR-7197-01A-11D-2201-08	TCGA-BR-7197-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	ce737023-df0f-4b98-a1bf-695c7ef3ea71	1ec4d5df-4e5b-44b3-b46c-78b5f37f4db1	g.chrX:142967519T>C	uc004fca.2	+	1	347	c.317T>C	c.(316-318)CTG>CCG	p.L106P		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	106							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					CGCACAGTTCTGCTATCGATC	0.423													27	20					0	0	0.004656	0	0		C	142967519	C	C	142967519	3	2	47	1	0	0	0	0	1	0	0	0	16893	1580	55	3	319	3	UBE2NL	23	142967519	Missense_Mutation	SNP	T	TCGA-BR-7197-01A-11D-2201-08	7328873	142967519	12303041	192	35880											
SCNN1D	6339	broad.mit.edu	37	chr1	1222953	1222953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcgatggcgtctggacagCtcagcgccccggcatcaccc	6	6	13	16	4	3	0	2	0	1	0	4	2	3	1	3	4	2	2	3	4	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:1222953C>T	uc001adu.1	+	9	1508	c.884C>T	c.(883-885)GCT>GTT	p.A295V	SCNN1D_uc001adt.1_Missense_Mutation_p.A459V|SCNN1D_uc001adw.2_Missense_Mutation_p.A361V|SCNN1D_uc001adx.2_Missense_Mutation_p.L59F|SCNN1D_uc001adv.2_Missense_Mutation_p.A295V	NM_002978	NP_002969			sodium channel, nonvoltage-gated 1, delta												0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;2.46e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.199)		GTCTGGACAGCTCAGCGCCCC	0.667													23	49					0	0	0.014323	0	0		T	1222953	T	T	1222953	3	4	48	1	0	0	0	0	1	0	0	0	13954	797	28	2	1108	2	SCNN1D	1	1222953	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08		1222953	248027668	1	35881											
PLCH2	9651	broad.mit.edu	37	chr1	2436102	2436102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggctggcctccccttccGgcctccctggggctgccttt	1	11	12	17	1	0	0	0	0	0	0	3	1	3	0	7	5	1	2	7	5	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:2436102G>A	uc001aji.1	+	22	3975	c.3701G>A	c.(3700-3702)CGG>CAG	p.R1234Q	PLCH2_uc010nyz.1_3'UTR|PLCH2_uc009vle.1_Missense_Mutation_p.R986Q|PLCH2_uc001ajj.1_3'UTR|PLCH2_uc001ajk.1_3'UTR|PLCH2_uc001ajl.1_Missense_Mutation_p.R86Q	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	1234					intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		CTCCCCTTCCGGCCTCCCTGG	0.662													3	23					0	0	0.004672	0	0		A	2436102	A	A	2436102	3	1	48	1	0	0	0	0	1	0	0	0	12057	1116	39	1	3787	1	PLCH2	1	2436102	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1213149	2436102	246814519	2	35882											
UTS2	10911	broad.mit.edu	37	chr1	7910968	7910968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctccggagttaagcgcgCgtcttcatgaggtgctacag	7	10	12	12	4	2	1	1	1	1	0	4	2	4	2	2	2	3	2	2	2	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:7910968C>T	uc001aor.2	-	2	159	c.118G>A	c.(118-120)GCG>ACG	p.A40T	UTS2_uc001aoq.2_Missense_Mutation_p.A40T|UTS2_uc001aos.2_Missense_Mutation_p.A55T	NM_006786	NP_006777	O95399	UTS2_HUMAN	urotensin 2 isoform b preproprotein	40					muscle contraction|regulation of blood pressure|synaptic transmission	extracellular space	hormone activity				0	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;1.38e-20)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.26e-71)|GBM - Glioblastoma multiforme(8;5.15e-36)|Colorectal(212;1.27e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000386)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|STAD - Stomach adenocarcinoma(132;0.000951)|READ - Rectum adenocarcinoma(331;0.0642)		GTTAAGCGCGCGTCTTCATGA	0.463													16	39					0	0	0.006122	0	0		T	7910968	T	T	7910968	3	4	48	1	0	0	0	0	1	0	0	0	17130	768	27	1	268	1	UTS2	1	7910968	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	5474866	7910968	241339653	3	35883											
AADACL3	126767	broad.mit.edu	37	chr1	12779678	12779678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaccacggtggcgggggcGtcatggggagtttgagtaag	8	8	18	7	3	1	1	1	1	0	0	1	2	1	2	1	6	1	2	1	6	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:12779678G>A	uc009vnn.1	+	2	432	c.199G>A	c.(199-201)GTC>ATC	p.V67I	AADACL3_uc001aug.1_Intron	NM_001103170	NP_001096640	Q5VUY0	ADCL3_HUMAN	arylacetamide deacetylase-like 3 isoform 1	67							hydrolase activity				0	Ovarian(185;0.249)	Lung NSC(185;8.27e-05)|all_lung(284;9.47e-05)|Renal(390;0.000147)|Colorectal(325;0.000583)|Breast(348;0.000596)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		TGGCGGGGGCGTCATGGGGAG	0.527													4	50					0	0	0.009096	0	0		A	12779678	A	A	12779678	3	1	48	1	0	0	0	0	1	0	0	0	12	1145	40	1	209	1	AADACL3	1	12779678	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4868710	12779678	236470943	4	35884											
PRAMEF18	391003	broad.mit.edu	37	chr1	13475053	13475053	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttggagtccccaatcccaCagtccactaagaagagggtc	11	8	10	12	0	0	2	0	0	0	2	4	3	3	3	4	2	0	1	4	2	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:13475053C>A	uc009vnu.1	-	3	1123	c.1076G>T	c.(1075-1077)TGT>TTT	p.C359F		NM_001099850	NP_001093320	Q5VWM3	PRA18_HUMAN	PRAME family member 18	359											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCCAATCCCACAGTCCACTAA	0.547													9	326					2.80697e-09	3.04433e-09	0.010729	1	0		A	13475053	A	A	13475053	3	1	48	1	0	0	0	0	1	0	0	0	12455	478	17	5	367	5	PRAMEF18	1	13475053	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	695375	13475053	235775568	5	35885											
MFAP2	4237	broad.mit.edu	37	chr1	17303033	17303033	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggctccagctctgcattTcctggttctggtgtggagac	4	13	14	10	0	2	1	0	0	2	1	4	2	4	1	2	4	2	4	2	4	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:17303033T>C	uc001azw.2	-	6	382	c.249A>G	c.(247-249)GGA>GGG	p.G83G	MFAP2_uc001azx.2_Silent_p.G82G|MFAP2_uc001azy.2_Silent_p.G83G|MFAP2_uc010ocl.1_Silent_p.G82G	NM_002403	NP_002394	P55001	MFAP2_HUMAN	microfibrillar-associated protein 2 isoform a	83						microfibril					0		Colorectal(325;3.46e-05)|Breast(348;0.000118)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000538)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|COAD - Colon adenocarcinoma(227;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;3.04e-05)|Kidney(64;0.000377)|KIRC - Kidney renal clear cell carcinoma(64;0.00544)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		GCTCTGCATTTCCTGGTTCTG	0.607													10	33					0	0	0.013537	0	0		C	17303033	C	C	17303033	2	2	48	1	0	0	0	0	0	0	0	1	9532	1770	62	3		3	MFAP2	1	17303033	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	3827980	17303033	231947588	6	35886											
PADI3	51702	broad.mit.edu	37	chr1	17609510	17609510	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatgctgcatggggaggTgcactgtggcaccaatgtgt	8	9	14	10	0	0	0	0	0	0	0	0	1	0	1	2	4	3	4	2	4	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:17609510T>C	uc001bai.2	+	16	1971	c.1931T>C	c.(1930-1932)GTG>GCG	p.V644A		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	644					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	CATGGGGAGGTGCACTGTGGC	0.602													14	69					0	0	0.007413	0	0		C	17609510	C	C	17609510	3	2	48	1	0	0	0	0	1	0	0	0	11398	1696	59	3	1993	3	PADI3	1	17609510	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	306477	17609510	231641111	7	35887											
PADI4	23569	broad.mit.edu	37	chr1	17657500	17657500	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcacgtccttcagcatcaaCgcctccccaggggtggtcgt	6	9	11	15	3	2	0	2	0	0	0	5	0	4	0	4	3	3	2	4	3	1	1	rs138052968		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:17657500C>T	uc001baj.2	+	2	157	c.129C>T	c.(127-129)AAC>AAT	p.N43N	PADI4_uc009vpc.2_Silent_p.N43N	NM_012387	NP_036519	Q9UM07	PADI4_HUMAN	peptidyl arginine deiminase, type IV	43					chromatin modification|peptidyl-citrulline biosynthetic process from peptidyl-arginine|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000338)|Lung NSC(340;0.00042)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00537)|BRCA - Breast invasive adenocarcinoma(304;8.54e-06)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(64;0.000223)|KIRC - Kidney renal clear cell carcinoma(64;0.00313)|STAD - Stomach adenocarcinoma(196;0.00707)|READ - Rectum adenocarcinoma(331;0.0689)|Lung(427;0.199)	L-Citrulline(DB00155)	TCAGCATCAACGCCTCCCCAG	0.617													16	50					0	0	0.010504	0	0		T	17657500	T	T	17657500	2	4	48	1	0	0	0	0	0	0	0	1	11399	535	19	1		1	PADI4	1	17657500	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	47990	17657500	231593121	8	35888											
HSPG2	3339	broad.mit.edu	37	chr1	22222727	22222727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaggtacgaatgtgtccagCgcatttggcttgctgtgacg	9	11	13	8	3	0	1	0	1	0	0	1	2	1	1	1	2	3	4	1	2	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:22222727C>T	uc001bfj.2	-	2	180	c.140G>A	c.(139-141)CGC>CAC	p.R47H	HSPG2_uc009vqd.2_Missense_Mutation_p.R47H|HSPG2_uc009vqe.1_Missense_Mutation_p.R2H	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	47					angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	ATGTGTCCAGCGCATTTGGCT	0.562													7	238					0	0	0.00308	0	0		T	22222727	T	T	22222727	3	4	48	1	0	0	0	0	1	0	0	0	7446	768	27	1	13419	1	HSPG2	1	22222727	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4565227	22222727	227027894	9	35889											
HMGN2	3151	broad.mit.edu	37	chr1	26801138	26801138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaataaccctgcagaaaatGgagatgccaaaacagaccag	18	4	10	9	0	0	3	0	0	0	3	0	5	0	4	3	2	4	1	3	2	6	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:26801138G>A	uc001bmp.3	+	5	419	c.217G>A	c.(217-219)GGA>AGA	p.G73R	HMGN2_uc009vsk.2_Missense_Mutation_p.G58R|HMGN2_uc001bmq.3_Missense_Mutation_p.M106I	NM_005517	NP_005508	P05204	HMGN2_HUMAN	high-mobility group nucleosomal binding domain	73					chromatin organization|regulation of transcription, DNA-dependent	chromatin|cytoplasm|nucleus	DNA binding|protein binding				0		all_cancers(24;1.9e-24)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.38e-49)|OV - Ovarian serous cystadenocarcinoma(117;5.38e-28)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000946)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.026)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.153)|LUSC - Lung squamous cell carcinoma(448;0.227)		TGCAGAAAATGGAGATGCCAA	0.398													5	16					0	0	0.001984	0	0		A	26801138	A	A	26801138	3	1	48	1	0	0	0	0	1	0	0	0	7251	1349	47	4	235	4	HMGN2	1	26801138	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4578411	26801138	222449483	10	35890											
WDTC1	23038	broad.mit.edu	37	chr1	27589647	27589647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtttctgtcccctaggagcGgggtgccctgagctttgagc	4	12	14	11	1	1	2	0	2	1	0	2	3	2	3	3	3	4	2	3	3	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:27589647G>A	uc009vst.2	+	3	588	c.53G>A	c.(52-54)CGG>CAG	p.R18Q	WDTC1_uc001bno.2_Missense_Mutation_p.R18Q|WDTC1_uc001bnp.1_RNA	NM_015023	NP_055838	Q8N5D0	WDTC1_HUMAN	WD and tetratricopeptide repeats 1	18							protein binding			ovary(1)|central_nervous_system(1)	2		all_cancers(24;3.12e-19)|all_epithelial(13;4.18e-18)|Colorectal(325;0.000147)|all_lung(284;0.000366)|Lung NSC(340;0.000548)|Renal(390;0.00211)|Breast(348;0.00257)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0443)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;1.02e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00201)|STAD - Stomach adenocarcinoma(196;0.00321)|READ - Rectum adenocarcinoma(331;0.0476)		CCCTAGGAGCGGGGTGCCCTG	0.378													29	63					0	0	0.003755	0	0		A	27589647	A	A	27589647	3	1	48	1	0	0	0	0	1	0	0	0	17368	1116	39	1	59	1	WDTC1	1	27589647	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	788509	27589647	221660974	11	35891											
SMPDL3B	27293	broad.mit.edu	37	chr1	28282576	28282576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgttcgaatatgaccgaGccacactgagcctgaaggtc	10	8	13	10	2	0	3	0	3	0	0	2	5	0	3	3	2	2	1	3	2	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:28282576G>A	uc001bpg.2	+	7	1179	c.988G>A	c.(988-990)GCC>ACC	p.A330T	SMPDL3B_uc001bpf.2_Missense_Mutation_p.A330T|SMPDL3B_uc010ofq.1_Missense_Mutation_p.A124T|SMPDL3B_uc010ofr.1_Missense_Mutation_p.A282T	NM_014474	NP_055289	Q92485	ASM3B_HUMAN	acid sphingomyelinase-like phosphodiesterase 3B	330					sphingomyelin catabolic process	extracellular space	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity			ovary(3)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000414)|Lung NSC(340;0.000431)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;5.68e-24)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00587)|READ - Rectum adenocarcinoma(331;0.055)		ATATGACCGAGCCACACTGAG	0.557													10	42					0	0	0.013537	0	0		A	28282576	A	A	28282576	3	1	48	1	0	0	0	0	1	0	0	0	14834	971	34	2	1014	2	SMPDL3B	1	28282576	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	692929	28282576	220968045	12	35892											
LAPTM5	7805	broad.mit.edu	37	chr1	31206723	31206723	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcccccctctggggtcttCgatggcaaagacagggcttc	6	8	14	13	1	2	1	0	0	2	1	4	2	2	1	3	5	0	2	3	5	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:31206723C>T	uc001bsc.2	-	8	832	c.741G>A	c.(739-741)TCG>TCA	p.S247S		NM_006762	NP_006753	Q13571	LAPM5_HUMAN	lysosomal protein transmembrane 5	247	Pro-rich.				transport	integral to plasma membrane|lysosomal membrane					0		Colorectal(325;0.0199)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0966)|Medulloblastoma(700;0.151)|Ovarian(437;0.192)		STAD - Stomach adenocarcinoma(196;0.0196)|READ - Rectum adenocarcinoma(331;0.0649)		CTGGGGTCTTCGATGGCAAAG	0.612													15	32					0	0	0.010504	0	0		T	31206723	T	T	31206723	2	4	48	1	0	0	0	0	0	0	0	1	8642	871	31	1		1	LAPTM5	1	31206723	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2924147	31206723	218043898	13	35893											
SERINC2	347735	broad.mit.edu	37	chr1	31901827	31901827	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggggtcctcttgccaggaCgcccagcccaactcgggtct	6	7	12	16	2	2	0	0	0	2	0	4	1	3	1	4	4	3	0	4	4	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:31901827C>T	uc010ogh.1	+	7	996	c.795C>T	c.(793-795)GAC>GAT	p.D265D	SERINC2_uc010ogg.1_Silent_p.D262D|SERINC2_uc001bst.2_Silent_p.D261D|SERINC2_uc001bsu.2_Silent_p.D206D|SERINC2_uc001bsv.2_Silent_p.D206D	NM_178865	NP_849196	Q96SA4	SERC2_HUMAN	tumor differentially expressed 2-like	261						integral to membrane					0		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0629)|Breast(348;0.0707)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0541)|READ - Rectum adenocarcinoma(331;0.151)		CTTGCCAGGACGCCCAGCCCA	0.617													46	119					0	0	0.01441	0	0		T	31901827	T	T	31901827	2	4	48	1	0	0	0	0	0	0	0	1	14105	535	19	1		1	SERINC2	1	31901827	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	695104	31901827	217348794	14	35894											
CSMD2	114784	broad.mit.edu	37	chr1	34291301	34291301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggcggacacttacacaCagacgtcttctggctgttgt	7	10	13	11	3	2	1	0	0	2	1	2	2	2	2	0	4	1	2	0	4	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:34291301C>T	uc001bxn.1	-	7	1017	c.988G>A	c.(988-990)GTG>ATG	p.V330M	CSMD2_uc001bxm.1_Missense_Mutation_p.V370M	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	330	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CACTTACACACAGACGTCTTC	0.542													3	20					0	0	0.004672	0	0		T	34291301	T	T	34291301	3	4	48	1	0	0	0	0	1	0	0	0	3948	478	17	4	9727	4	CSMD2	1	34291301	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2389474	34291301	214959320	15	35895											
RSPO1	284654	broad.mit.edu	37	chr1	38078483	38078483	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccttgctgctgctgctgttGctgccccttgcgtcttcgag	1	14	11	15	2	1	0	0	0	1	0	2	1	1	0	3	0	7	6	3	0	0	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:38078483G>A	uc001cbl.1	-	8	1524	c.736C>T	c.(736-738)CAA>TAA	p.Q246*	RSPO1_uc001cbm.1_Nonsense_Mutation_p.Q246*|RSPO1_uc009vvf.1_Nonsense_Mutation_p.Q219*|RSPO1_uc009vvg.1_Nonsense_Mutation_p.Q183*	NM_001038633	NP_001033722	Q2MKA7	RSPO1_HUMAN	R-spondin1 precursor	246					positive regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization		heparin binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TGCTGCTGTTGCTGCCCCTTG	0.642													4	125					0	0	0.001168	0	0		A	38078483	A	A	38078483	4	1	48	1	0	0	0	0	0	1	0	0	13734	1328	46	2	59	2	RSPO1	1	38078483	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3787182	38078483	211172138	16	35896											
EPHA10	284656	broad.mit.edu	37	chr1	38186494	38186494	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccatggctcatgtactcGgtgacaatcatcaaggtgct	9	10	10	12	1	3	1	3	1	0	0	4	1	3	1	2	3	2	3	2	3	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:38186494G>A	uc009vvi.2	-	12	2255	c.2169C>T	c.(2167-2169)ACC>ACT	p.T723T	EPHA10_uc001cbt.2_5'Flank|EPHA10_uc009vvh.1_RNA|EPHA10_uc001cbu.2_RNA|EPHA10_uc001cbv.1_RNA	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	723	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TCATGTACTCGGTGACAATCA	0.592													16	37					0	0	0.00499	0	0		A	38186494	A	A	38186494	2	1	48	1	0	0	0	0	0	0	0	1	5174	1103	39	1		1	EPHA10	1	38186494	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	108011	38186494	211064127	17	35897											
ZMPSTE24	10269	broad.mit.edu	37	chr1	40735792	40735792	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctgttcacattagttgTgtctctggtgagtaaaatct	8	16	10	7	0	3	1	1	1	2	0	4	1	3	1	0	2	0	4	0	2	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:40735792T>C	uc001cfg.2	+	5	831	c.620T>C	c.(619-621)GTG>GCG	p.V207A		NM_005857	NP_005848	O75844	FACE1_HUMAN	zinc metallopeptidase STE24	207	Helical; (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane	metal ion binding|metalloexopeptidase activity				0	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;6.3e-18)			ACATTAGTTGTGTCTCTGGTG	0.338													6	89					0	0	0.004482	0	0		C	40735792	C	C	40735792	3	2	48	1	0	0	0	0	1	0	0	0	17723	1696	59	3	638	3	ZMPSTE24	1	40735792	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	2549298	40735792	208514829	18	35898											
CYP4Z1	199974	broad.mit.edu	37	chr1	47534390	47534390	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccctttacgatgttcttcAgtgtccatgacccagactat	9	13	7	12	1	2	2	1	1	1	1	3	4	3	2	3	0	1	1	3	0	2	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:47534390A>C	uc001cqu.1	+	2	277	c.274A>C	c.(274-276)AGT>CGT	p.S92R		NM_178134	NP_835235	Q86W10	CP4Z1_HUMAN	cytochrome P450 4Z1	92	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			skin(1)	1						GATGTTCTTCAGTGTCCATGA	0.458													9	112					0	0	0.006214	0	0		C	47534390	C	C	47534390	3	2	48	1	0	0	0	0	1	0	0	0	4197	188	7	5	280	5	CYP4Z1	1	47534390	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	6798598	47534390	201716231	19	35899											
TAL1	6886	broad.mit.edu	37	chr1	47691501	47691501	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatgctggcctcggccgcGtcccgtccctctagctgggg	2	8	14	17	4	1	0	0	0	1	0	4	0	3	0	5	4	2	2	5	4	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:47691501G>A	uc001cqx.2	-	2	637	c.60C>T	c.(58-60)GAC>GAT	p.D20D	TAL1_uc009vyq.2_5'Flank|TAL1_uc001cqy.2_Silent_p.D20D|TAL1_uc001cra.1_Intron|TAL1_uc001cqz.1_Intron	NM_003189	NP_003180	P17542	TAL1_HUMAN	T-cell acute lymphocytic leukemia 1	20					basophil differentiation|cell fate commitment|cell proliferation|embryonic hemopoiesis|erythrocyte differentiation|megakaryocyte differentiation|positive regulation of cell division|positive regulation of chromatin assembly or disassembly|positive regulation of erythrocyte differentiation|positive regulation of mitotic cell cycle|positive regulation of protein complex assembly|positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	E-box binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity			lung(1)	1						CCTCGGCCGCGTCCCGTCCCT	0.721			T	TRD@|SIL	lymphoblastic leukemia/biphasic								6	12					0	0	0.001984	0	0		A	47691501	A	A	47691501	2	1	48	1	0	0	0	0	0	0	0	1	15566	1136	40	1		1	TAL1	1	47691501	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	157111	47691501	201559120	20	35900											
FAM159A	348378	broad.mit.edu	37	chr1	53099298	53099298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accacaagtactgctgcgacGacccgcacagcttcttcccc	9	7	7	18	3	1	0	0	0	1	0	2	2	2	0	4	0	4	4	4	0	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:53099298G>A	uc001cuf.2	+	1	233	c.133G>A	c.(133-135)GAC>AAC	p.D45N	FAM159A_uc001cug.1_RNA|FAM159A_uc001cuh.2_RNA	NM_001042693	NP_001036158	Q6UWV7	F159A_HUMAN	hypothetical protein LOC348378	45						integral to membrane					0						CTGCTGCGACGACCCGCACAG	0.537													8	68					0	0	0.006214	0	0		A	53099298	A	A	53099298	3	1	48	1	0	0	0	0	1	0	0	0	5479	1058	37	1	135	1	FAM159A	1	53099298	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5407797	53099298	196151323	21	35901											
PODN	127435	broad.mit.edu	37	chr1	53542968	53542968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctgtccagcaacttcctgCgccacgtgcccaagcacctg	7	8	8	18	2	0	0	0	0	0	0	3	0	3	0	6	0	5	2	6	0	2	1	rs149007009		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:53542968C>T	uc001cuv.2	+	6	839	c.832C>T	c.(832-834)CGC>TGC	p.R278C	PODN_uc001cuw.2_Missense_Mutation_p.R259C|PODN_uc010onr.1_Missense_Mutation_p.R259C|PODN_uc010ons.1_Intron	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	230	LRR 6.				negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding	p.R278H(1)		ovary(1)|pancreas(1)	2						CAACTTCCTGCGCCACGTGCC	0.642													5	139					0	0	0.001984	0	0		T	53542968	T	T	53542968	3	4	48	1	0	0	0	0	1	0	0	0	12197	768	27	1	854	1	PODN	1	53542968	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	443670	53542968	195707653	22	35902											
C1orf175	374977	broad.mit.edu	37	chr1	55119781	55119781	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccgctgggattccccatCtccaaccccgcaggcaagga	8	7	9	17	2	1	0	0	0	1	0	4	2	3	2	6	3	1	3	6	3	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:55119781C>A	uc010ooe.1	+	3	1506	c.1182C>A	c.(1180-1182)ATC>ATA	p.I394I	C1orf175_uc001cxq.2_RNA|C1orf175_uc001cxo.2_Silent_p.I394I|C1orf175_uc010ooc.1_Intron|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Intron|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc010oog.1_Silent_p.I394I|C1orf175_uc010ooh.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	394						integral to membrane	binding				0						GATTCCCCATCTCCAACCCCG	0.602													9	20					3.86212e-05	4.04016e-05	0.008291	1	0		A	55119781	A	A	55119781	2	1	48	1	0	0	0	0	0	0	0	1	2019	903	32	5		5	C1orf175	1	55119781	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1576813	55119781	194130840	23	35903											
ANGPTL3	27329	broad.mit.edu	37	chr1	63068014	63068014	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaaaacttcaatgaaacGtgggagaactacaaatatgg	18	8	8	7	1	2	2	2	1	0	1	2	3	2	2	0	2	4	0	0	2	8	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:63068014G>A	uc001das.1	+	5	945	c.894G>A	c.(892-894)ACG>ACA	p.T298T	DOCK7_uc001dan.2_Intron|DOCK7_uc001dao.2_Intron|DOCK7_uc001dap.2_Intron|DOCK7_uc001daq.2_Intron|DOCK7_uc009wah.1_Intron	NM_014495	NP_055310	Q9Y5C1	ANGL3_HUMAN	angiopoietin-like 3 precursor	298	Fibrinogen C-terminal.				acylglycerol homeostasis|artery morphogenesis|cell-matrix adhesion|cholesterol homeostasis|cholesterol metabolic process|fatty acid metabolic process|glycerol metabolic process|integrin-mediated signaling pathway|lipid storage|negative regulation of lipoprotein lipase activity|negative regulation of phospholipase activity|phospholipid catabolic process|phospholipid homeostasis|positive regulation of angiogenesis|positive regulation of cell migration|positive regulation of lipid catabolic process|triglyceride homeostasis	extracellular space	cell surface binding|growth factor activity|integrin binding|phospholipase inhibitor activity				0						TCAATGAAACGTGGGAGAACT	0.269													25	100					0	0	0.012213	0	0		A	63068014	A	A	63068014	2	1	48	1	0	0	0	0	0	0	0	1	615	1132	40	1		1	ANGPTL3	1	63068014	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	7948233	63068014	186182607	24	35904											
FOXD3	27022	broad.mit.edu	37	chr1	63789968	63789968	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagggggcggcagcacggcGcagtcgtttctgcggccacc	5	6	16	14	5	2	0	1	0	1	0	3	0	2	0	2	5	2	4	2	5	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:63789968G>A	uc001dax.2	+	1	1239	c.1239G>A	c.(1237-1239)GCG>GCA	p.A413A		NM_012183	NP_036315	Q9UJU5	FOXD3_HUMAN	forkhead box D3	413					axon extension involved in axon guidance|branching involved in ureteric bud morphogenesis|cartilage development|embryonic placenta development|enteric nervous system development|iridophore differentiation|kidney development|lateral line nerve glial cell development|melanocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development|trophectodermal cell differentiation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						GCAGCACGGCGCAGTCGTTTC	0.736													3	2					0	0	0.000602	0	0		A	63789968	A	A	63789968	2	1	48	1	0	0	0	0	0	0	0	1	6012	1074	38	1		1	FOXD3	1	63789968	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	721954	63789968	185460653	25	35905											
CACHD1	57685	broad.mit.edu	37	chr1	65143941	65143941	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccccccagaaagaatgcttCggggggattgtgggagccaa	10	6	15	10	1	0	2	0	0	0	2	1	4	0	4	4	4	2	1	4	4	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:65143941C>T	uc001dbo.1	+	23	3144	c.3039C>T	c.(3037-3039)TTC>TTT	p.F1013F	CACHD1_uc001dbp.1_Silent_p.F768F|CACHD1_uc001dbq.1_Silent_p.F768F|CACHD1_uc010opa.1_Silent_p.F257F	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	1064	Extracellular (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						AAGAATGCTTCGGGGGGATTG	0.473													19	47					0	0	0.008871	0	0		T	65143941	T	T	65143941	2	4	48	1	0	0	0	0	0	0	0	1	2540	883	31	1		1	CACHD1	1	65143941	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1353973	65143941	184106680	26	35906											
LHX8	431707	broad.mit.edu	37	chr1	75606736	75606736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaacctccctaggaaggCacaccagctgttatattaaa	14	8	8	11	0	0	1	0	0	0	1	1	2	1	2	3	2	2	4	3	2	7	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:75606736C>T	uc001dgo.2	+	5	998	c.334C>T	c.(334-336)CAC>TAC	p.H112Y	LHX8_uc001dgq.2_Missense_Mutation_p.H51Y	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	112	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CCTAGGAAGGCACACCAGCTG	0.393													46	76					0	0	0.01441	0	0		T	75606736	T	T	75606736	3	4	48	1	0	0	0	0	1	0	0	0	8792	710	25	2	348	2	LHX8	1	75606736	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	10462795	75606736	173643885	27	35907											
ATXN7L2	127002	broad.mit.edu	37	chr1	110031590	110031590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaggagaagagcccagggcGcaaggagcaagttctcgagc	13	3	15	10	2	1	2	0	0	1	2	2	5	1	3	1	3	3	3	1	3	4	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:110031590G>A	uc001dxr.2	+	7	920	c.905G>A	c.(904-906)CGC>CAC	p.R302H	ATXN7L2_uc001dxs.2_5'UTR|ATXN7L2_uc001dxt.2_5'Flank	NM_153340	NP_699171	Q5T6C5	AT7L2_HUMAN	ataxin 7-like 2	302										ovary(2)	2		all_epithelial(167;0.00197)|all_lung(203;0.00291)|Lung NSC(277;0.00453)		Colorectal(144;0.0129)|Lung(183;0.0426)|Epithelial(280;0.0675)|READ - Rectum adenocarcinoma(129;0.0693)|all cancers(265;0.071)|LUSC - Lung squamous cell carcinoma(189;0.228)		AGCCCAGGGCGCAAGGAGCAA	0.647													3	34					0	0	0.009096	0	0		A	110031590	A	A	110031590	3	1	48	1	0	0	0	0	1	0	0	0	1218	1087	38	1	931	1	ATXN7L2	1	110031590	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	34424854	110031590	139219031	28	35908											
GPR61	83873	broad.mit.edu	37	chr1	110086456	110086456	+	Frame_Shift_Del	DEL	C	-	-																															gatggtcaccagctcgggggCcccccagaccaccccacacc																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:110086456delC	uc001dxy.2	+	2	1495	c.812delC	c.(811-813)GCCfs	p.A271fs		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	271	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		AGCTCGGGGGCCCCCCAGACC	0.662													23	45	---	---	---	---						.	-	110086456	-	-	110086456	7	5	48	1	0	1	0	1	0	0	0	0	6717	739	26	0	814	0	GPR61	1	110086456	Frame_Shift_Del	DEL	C	TCGA-BR-7703-01A-11D-2053-08	54866	110086456	139164165	29	35909											
AHCYL1	10768	broad.mit.edu	37	chr1	110559020	110559020	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccggccatgaacgtcaaTgattctgttaccaaacagaa	13	10	8	10	2	2	3	1	2	1	1	3	3	3	3	3	1	3	2	3	1	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:110559020T>C	uc001dyx.2	+	8	1204	c.837T>C	c.(835-837)AAT>AAC	p.N279N	AHCYL1_uc010ovw.1_Silent_p.N232N|AHCYL1_uc001dyy.2_Silent_p.N232N|AHCYL1_uc010ovx.1_Silent_p.N232N	NM_006621	NP_006612	O43865	SAHH2_HUMAN	S-adenosylhomocysteine hydrolase-like 1	279					one-carbon metabolic process	endoplasmic reticulum	adenosylhomocysteinase activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0259)|Colorectal(144;0.123)|all cancers(265;0.134)|Epithelial(280;0.141)|LUSC - Lung squamous cell carcinoma(189;0.143)		TGAACGTCAATGATTCTGTTA	0.413													5	73					0	0	0.001168	0	0		C	110559020	C	C	110559020	2	2	48	1	0	0	0	0	0	0	0	1	410	1461	51	3		3	AHCYL1	1	110559020	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	472564	110559020	138691601	30	35910											
WARS2	10352	broad.mit.edu	37	chr1	119575742	119575742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcatgcccgcgctgcggCgcaccacttcctccacggag	5	8	11	17	5	1	0	1	0	0	0	3	1	3	1	4	2	2	3	4	2	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:119575742C>T	uc001ehn.2	-	6	903	c.875G>A	c.(874-876)CGC>CAC	p.R292H	WARS2_uc010oxf.1_Missense_Mutation_p.R198H|WARS2_uc001ehm.2_3'UTR|WARS2_uc010oxg.1_Missense_Mutation_p.R235H|WARS2_uc010oxh.1_3'UTR	NM_015836	NP_056651	Q9UGM6	SYWM_HUMAN	mitochondrial tryptophanyl tRNA synthetase 2	292					tryptophanyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|tryptophan-tRNA ligase activity				0	all_neural(166;0.187)	all_lung(203;2.48e-06)|Lung NSC(69;1.74e-05)|all_epithelial(167;0.000564)		Lung(183;0.0629)	L-Tryptophan(DB00150)	CGCGCTGCGGCGCACCACTTC	0.602													13	78					0	0	0.013537	0	0		T	119575742	T	T	119575742	3	4	48	1	0	0	0	0	1	0	0	0	17276	768	27	1	211	1	WARS2	1	119575742	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	9016722	119575742	129674879	31	35911											
VPS45	11311	broad.mit.edu	37	chr1	150053479	150053479	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataaacaacaatcggattgAtctttccagagtgccgggaa	14	9	9	9	2	1	2	0	1	1	1	3	4	2	4	2	2	3	0	2	2	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:150053479A>G	uc001etp.2	+	8	1316	c.743A>G	c.(742-744)GAT>GGT	p.D248G	VPS45_uc010pbp.1_RNA|VPS45_uc010pbq.1_Missense_Mutation_p.D212G|VPS45_uc010pbs.1_Missense_Mutation_p.D143G|VPS45_uc001etq.2_Missense_Mutation_p.D68G|VPS45_uc009wlm.1_Missense_Mutation_p.D224G|VPS45_uc010pbr.1_Intron	NM_007259	NP_009190	Q9NRW7	VPS45_HUMAN	vacuolar protein sorting 45A	248					blood coagulation|intracellular protein transport|vesicle docking involved in exocytosis	endosome membrane|Golgi membrane|integral to membrane of membrane fraction				central_nervous_system(1)|skin(1)	2	Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			AATCGGATTGATCTTTCCAGA	0.358													15	44					0	0	0.004007	0	0		G	150053479	G	G	150053479	3	3	48	1	0	0	0	0	1	0	0	0	17237	333	12	3	773	3	VPS45	1	150053479	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	30477737	150053479	99197142	32	35912											
CELF3	11189	broad.mit.edu	37	chr1	151680108	151680108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgagccgctaccagggccGcctgctgctgcatcagctgg	5	8	14	14	2	1	1	1	1	0	0	1	1	1	1	4	2	6	5	4	2	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:151680108G>A	uc001eys.1	-	7	1441	c.647C>T	c.(646-648)GCG>GTG	p.A216V	CELF3_uc010pdh.1_Missense_Mutation_p.A24V|CELF3_uc001eyr.2_Missense_Mutation_p.A215V|CELF3_uc009wmy.2_Missense_Mutation_p.A216V|CELF3_uc009wmx.1_Missense_Mutation_p.A216V|CELF3_uc001eyt.2_Missense_Mutation_p.A139V|C1orf230_uc001eyu.2_5'Flank	NM_007185	NP_009116	Q5SZQ8	CELF3_HUMAN	trinucleotide repeat containing 4	216					nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	mRNA binding|nucleotide binding			ovary(1)|central_nervous_system(1)	2						TACCAGGGCCGCCTGCTGCTG	0.682													7	7					0	0	0.00308	0	0		A	151680108	A	A	151680108	3	1	48	1	0	0	0	0	1	0	0	0	3220	1087	38	1	774	1	CELF3	1	151680108	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1626629	151680108	97570513	33	35913											
NPR1	4881	broad.mit.edu	37	chr1	153658636	153658636	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaacgtgtgaaccgtaaacGcattgagctgacacgaaaag	16	6	11	8	4	0	3	0	3	0	0	0	5	0	3	1	0	4	3	1	0	6	2	rs145787747		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:153658636G>A	uc001fcs.3	+	10	2139	c.1718G>A	c.(1717-1719)CGC>CAC	p.R573H	NPR1_uc010pdz.1_Missense_Mutation_p.R319H|NPR1_uc010pea.1_Intron	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	573	Cytoplasmic (Potential).|Protein kinase.				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	AACCGTAAACGCATTGAGCTG	0.547													11	44					0	0	0.010729	0	0		A	153658636	A	A	153658636	3	1	48	1	0	0	0	0	1	0	0	0	10613	1087	38	1	1756	1	NPR1	1	153658636	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1978528	153658636	95591985	34	35914											
KCNN3	3782	broad.mit.edu	37	chr1	154842106	154842106	+	Frame_Shift_Del	DEL	G	-	-																															tggcggtggagttggacgaaGggggggccctgaaagcggtg																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:154842106delG	uc001ffp.2	-	1	649	c.335delC	c.(334-336)CCTfs	p.P112fs	KCNN3_uc009wox.1_Frame_Shift_Del_p.P112fs	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	117						integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			GTTGGACGAAGGGGGGGCCCT	0.612													7	16	---	---	---	---						.	-	154842106	-	-	154842106	7	5	48	1	0	1	0	1	0	0	0	0	8096	1000	35	0	1914	0	KCNN3	1	154842106	Frame_Shift_Del	DEL	G	TCGA-BR-7703-01A-11D-2053-08	1183470	154842106	94408515	35	35915											
ASH1L	55870	broad.mit.edu	37	chr1	155317682	155317682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctcccaactggggatttaCgcccatagtacttctgaaga	10	11	8	12	1	2	2	0	1	2	1	3	3	2	3	2	2	3	1	2	2	5	5	rs41264231	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:155317682C>T	uc009wqq.2	-	20	8063	c.7583G>A	c.(7582-7584)CGT>CAT	p.R2528H	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.R2523H|MIR555_hsa-mir-555|MI0003561_5'Flank	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2528	Bromo.				cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TGGGGATTTACGCCCATAGTA	0.433													34	70					0	0	0.00874	0	0		T	155317682	T	T	155317682	3	4	48	1	0	0	0	0	1	0	0	0	1042	536	19	1	1362	1	ASH1L	1	155317682	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	475576	155317682	93932939	36	35916											
SEMA4A	64218	broad.mit.edu	37	chr1	156142686	156142686	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcctgatggatgagcaaGtggtggggacgcccctgctg	7	10	15	9	1	0	2	0	2	0	0	1	4	1	4	3	4	2	2	3	4	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:156142686G>C	uc001fnl.2	+	11	1308	c.1204G>C	c.(1204-1206)GTG>CTG	p.V402L	SEMA4A_uc009wrq.2_Missense_Mutation_p.V402L|SEMA4A_uc001fnm.2_Missense_Mutation_p.V402L|SEMA4A_uc001fnn.2_Missense_Mutation_p.V270L|SEMA4A_uc001fno.2_Missense_Mutation_p.V402L	NM_022367	NP_071762	Q9H3S1	SEM4A_HUMAN	semaphorin B precursor	402	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					GGATGAGCAAGTGGTGGGGAC	0.567													32	65					0	0	0.003271	0	0		C	156142686	C	C	156142686	3	2	48	1	0	0	0	0	1	0	0	0	14056	1029	36	5	1242	5	SEMA4A	1	156142686	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	825004	156142686	93107935	37	35917											
RHBG	57127	broad.mit.edu	37	chr1	156339053	156339053	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccaacccatggccgggtctCctagccgcgccgcgggccgg	4	4	14	19	6	1	0	0	0	1	0	2	0	1	0	7	4	2	0	7	4	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:156339053C>A	uc010pho.1	+	1	51	c.13C>A	c.(13-15)CCT>ACT	p.P5T	RHBG_uc010phm.1_Missense_Mutation_p.P5T|RHBG_uc010phn.1_RNA|RHBG_uc001fos.2_5'UTR|RHBG_uc009wrz.2_5'UTR|RHBG_uc001for.2_5'UTR	NM_020407	NP_065140	Q9H310	RHBG_HUMAN	Rhesus blood group, B glycoprotein	5	Cytoplasmic (Potential).				transepithelial ammonium transport	anchored to plasma membrane|basolateral plasma membrane|cytoplasmic vesicle membrane|integral to plasma membrane|spectrin-associated cytoskeleton	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			ovary(2)	2	Hepatocellular(266;0.158)					GGCCGGGTCTCCTAGCCGCGC	0.682													19	24					1.40151e-16	1.56214e-16	0.010504	1	0		A	156339053	A	A	156339053	3	1	48	1	0	0	0	0	1	0	0	0	13349	855	30	5	15	5	RHBG	1	156339053	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	196367	156339053	92911568	38	35918											
SH2D2A	9047	broad.mit.edu	37	chr1	156779466	156779466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaatacctccttctccccgGccccctctttctgcatcggg	4	11	6	20	2	3	0	0	0	3	0	6	0	4	0	7	2	2	1	7	2	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:156779466G>A	uc001fqd.2	-	6	841	c.701C>T	c.(700-702)GCC>GTC	p.A234V	SH2D2A_uc001fqc.1_Missense_Mutation_p.A206V|SH2D2A_uc009wsh.2_Missense_Mutation_p.A244V|SH2D2A_uc001fqe.2_Missense_Mutation_p.A216V|SH2D2A_uc010phs.1_Missense_Mutation_p.A234V	NM_003975	NP_003966	Q9NP31	SH22A_HUMAN	SH2 domain protein 2A isoform 2	234	Pro-rich.				angiogenesis|cell differentiation|signal transduction	cytoplasm|soluble fraction	SH3 domain binding|SH3/SH2 adaptor activity				0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CTTCTCCCCGGCCCCCTCTTT	0.637													27	69					0	0	0.007291	0	0		A	156779466	A	A	156779466	3	1	48	1	0	0	0	0	1	0	0	0	14257	1203	42	2	480	2	SH2D2A	1	156779466	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	440413	156779466	92471155	39	35919											
NTRK1	4914	broad.mit.edu	37	chr1	156843535	156843535	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggctcttcaatggctccGtgctcaatgagaccagcttc	7	11	10	13	1	3	1	2	1	1	1	5	2	4	1	2	2	2	5	2	2	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:156843535G>A	uc001fqh.1	+	8	1017	c.961G>A	c.(961-963)GTG>ATG	p.V321M	NTRK1_uc001fqf.1_Missense_Mutation_p.V291M|NTRK1_uc009wsi.1_Missense_Mutation_p.V26M|NTRK1_uc001fqi.1_Missense_Mutation_p.V321M|NTRK1_uc009wsk.1_Missense_Mutation_p.V321M	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	321	Ig-like C2-type 2.|Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	CAATGGCTCCGTGCTCAATGA	0.627			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			3	12					0	0	0.009096	0	0		A	156843535	A	A	156843535	3	1	48	1	0	0	0	0	1	0	0	0	10725	1145	40	1	1121	1	NTRK1	1	156843535	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	64069	156843535	92407086	40	35920											
SPTA1	6708	broad.mit.edu	37	chr1	158606546	158606546	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggagctcactcgtatcaacTtctccctaaaatcaaggaag	13	9	8	11	1	4	0	3	0	1	0	6	2	4	2	1	2	2	2	1	2	6	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:158606546T>G	uc001fst.1	-	37	5394	c.5195A>C	c.(5194-5196)AAG>ACG	p.K1732T		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1732	Spectrin 17.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCGTATCAACTTCTCCCTAAA	0.473													36	67					0	0	0.00874	0	0		G	158606546	G	G	158606546	3	3	48	1	0	0	0	0	1	0	0	0	15141	1609	56	5	2128	5	SPTA1	1	158606546	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	1763011	158606546	90644075	41	35921											
FCER1A	2205	broad.mit.edu	37	chr1	159275825	159275825	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggtggtgatggagggccagCccctcttcctcaggtgccat	6	9	14	12	0	2	1	1	1	1	0	3	2	3	2	5	5	2	0	5	5	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:159275825C>T	uc001ftq.2	+	5	478	c.379C>T	c.(379-381)CCC>TCC	p.P127S		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	127	Ig-like 2.|Extracellular (Potential).					integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	GGAGGGCCAGCCCCTCTTCCT	0.453													16	47					0	0	0.004007	0	0		T	159275825	T	T	159275825	3	4	48	1	0	0	0	0	1	0	0	0	5788	739	26	2	393	2	FCER1A	1	159275825	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	669279	159275825	89974796	42	35922											
VANGL2	57216	broad.mit.edu	37	chr1	160393967	160393967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctttgcatccatggcccGtgccatgcagaagtaccttc	8	11	8	14	1	1	1	0	0	1	1	3	1	2	1	4	1	4	3	4	1	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:160393967G>A	uc001fwb.1	+	8	1498	c.1199G>A	c.(1198-1200)CGT>CAT	p.R400H	VANGL2_uc001fwc.1_Missense_Mutation_p.R400H	NM_020335	NP_065068	Q9ULK5	VANG2_HUMAN	vang-like 2	400	Cytoplasmic (Potential).				apical protein localization|heart looping|nonmotile primary cilium assembly	apical plasma membrane|integral to membrane				ovary(1)	1	all_cancers(52;1.08e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCCATGGCCCGTGCCATGCAG	0.572													20	58					0	0	0.010504	0	0		A	160393967	A	A	160393967	3	1	48	1	0	0	0	0	1	0	0	0	17146	1145	40	1	1221	1	VANGL2	1	160393967	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1118142	160393967	88856654	43	35923											
ADAMTS4	9507	broad.mit.edu	37	chr1	161166627	161166627	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcggccatcttgtcatctGccaccaccagtgtctccaca	8	10	7	16	1	4	0	1	0	3	0	5	0	4	0	5	1	2	0	5	1	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:161166627G>A	uc001fyt.3	-	2	1105	c.677C>T	c.(676-678)GCA>GTA	p.A226V	ADAMTS4_uc001fyu.2_Missense_Mutation_p.A226V|NDUFS2_uc001fyv.2_5'Flank	NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	226	Peptidase M12B.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CTTGTCATCTGCCACCACCAG	0.552													10	262					0	0	0.010729	0	0		A	161166627	A	A	161166627	3	1	48	1	0	0	0	0	1	0	0	0	268	1319	46	2	1868	2	ADAMTS4	1	161166627	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	772660	161166627	88083994	44	35924											
FCGR2B	2213	broad.mit.edu	37	chr1	161642939	161642939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcccacaagcaaaccacaGtcacagtggtgattaccact	14	7	6	14	0	1	1	1	1	0	0	2	1	2	1	3	1	3	1	3	1	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:161642939G>A	uc001gaz.1	+	4	658	c.566G>A	c.(565-567)AGT>AAT	p.S189N	FCGR2B_uc009wum.1_Missense_Mutation_p.S189N|FCGR2B_uc001gay.1_Missense_Mutation_p.S188N|FCGR2B_uc001gba.1_Missense_Mutation_p.S188N|FCGR2B_uc001gbb.1_Missense_Mutation_p.S189N|FCGR2B_uc009wun.1_Missense_Mutation_p.S182N	NM_004001	NP_003992	P31994	FCG2B_HUMAN	Fc fragment of IgG, low affinity IIb, receptor	189	Ig-like C2-type 2.|Extracellular (Potential).				immune response|interspecies interaction between organisms|regulation of immune response	integral to membrane|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GCAAACCACAGTCACAGTGGT	0.488			T	?	ALL								5	44					0	0	0.00308	0	0		A	161642939	A	A	161642939	3	1	48	1	0	0	0	0	1	0	0	0	5796	1029	36	4	580	4	FCGR2B	1	161642939	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	476312	161642939	87607682	45	35925											
LMX1A	4009	broad.mit.edu	37	chr1	165182925	165182925	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgaggccttgaatgctcGcctctgttgagttgtcaaga	10	12	11	8	1	2	4	1	3	1	1	3	4	2	4	2	1	1	3	2	1	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:165182925G>A	uc001gcy.1	-	4	843	c.622C>T	c.(622-624)CGA>TGA	p.R208*	LMX1A_uc001gcz.1_Nonsense_Mutation_p.R208*|LMX1A_uc001gcw.1_5'Flank|LMX1A_uc001gcx.1_5'Flank	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	208	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					TTGAATGCTCGCCTCTGTTGA	0.557													41	93					0	0	0.010771	0	0		A	165182925	A	A	165182925	4	1	48	1	0	0	0	0	0	1	0	0	8878	1095	38	1	546	1	LMX1A	1	165182925	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3539986	165182925	84067696	46	35926											
TBX19	9095	broad.mit.edu	37	chr1	168262408	168262408	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaattctctgcataaataTgaaccccaggttcacatagt	13	13	6	9	0	2	2	1	2	1	0	3	2	2	2	2	1	2	2	2	1	6	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:168262408T>C	uc001gfl.2	+	3	546	c.495T>C	c.(493-495)TAT>TAC	p.Y165Y	TBX19_uc001gfj.3_Silent_p.Y96Y	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	165	T-box.				anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					TGCATAAATATGAACCCCAGG	0.478													5	72					0	0	0.001168	0	0		C	168262408	C	C	168262408	2	2	48	1	0	0	0	0	0	0	0	1	15679	1471	51	3		3	TBX19	1	168262408	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	3079483	168262408	80988213	47	35927											
SOAT1	6646	broad.mit.edu	37	chr1	179310351	179310351	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggctttcttttcatgaTcttccagattggagttctag	7	17	8	9	0	4	2	1	1	3	1	5	3	5	3	2	2	0	2	2	2	1	7			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:179310351T>C	uc001gml.2	+	7	749	c.686T>C	c.(685-687)ATC>ACC	p.I229T	SOAT1_uc010pni.1_Missense_Mutation_p.I164T|SOAT1_uc001gmm.2_Missense_Mutation_p.I171T|SOAT1_uc010pnj.1_5'UTR|SOAT1_uc010pnk.1_Missense_Mutation_p.I164T	NM_003101	NP_003092	P35610	SOAT1_HUMAN	sterol O-acyltransferase 1	229					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|cholesterol storage|macrophage derived foam cell differentiation|positive regulation of amyloid precursor protein biosynthetic process|very-low-density lipoprotein particle assembly	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			central_nervous_system(1)|skin(1)	2					Ezetimibe(DB00973)|Hesperetin(DB01094)	CTTTTCATGATCTTCCAGATT	0.433													8	148					0	0	0.00308	0	0		C	179310351	C	C	179310351	3	2	48	1	0	0	0	0	1	0	0	0	14935	1435	50	3	708	3	SOAT1	1	179310351	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	11047943	179310351	69940270	48	35928											
CEP350	9857	broad.mit.edu	37	chr1	180062648	180062648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgatgaaaagtaaggagCgcagtgatgtggagcatgaa	15	7	15	4	1	0	4	0	4	0	0	0	6	0	6	0	2	3	4	0	2	4	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:180062648C>T	uc001gnt.2	+	34	7791	c.7408C>T	c.(7408-7410)CGC>TGC	p.R2470C	CEP350_uc009wxl.2_Missense_Mutation_p.R2469C|CEP350_uc001gnv.2_Missense_Mutation_p.R605C|CEP350_uc001gnw.1_Missense_Mutation_p.R227C|CEP350_uc001gnx.1_Missense_Mutation_p.R227C	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	2470						centrosome|nucleus|spindle				ovary(4)	4						AAGTAAGGAGCGCAGTGATGT	0.453													6	9					0	0	0.001168	0	0		T	180062648	T	T	180062648	3	4	48	1	0	0	0	0	1	0	0	0	3257	768	27	1	7538	1	CEP350	1	180062648	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	752297	180062648	69187973	49	35929											
GLUL	2752	broad.mit.edu	37	chr1	182354634	182354634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgatgcaagatgaaacgggCcacccagagatgatctccca	14	5	10	12	2	1	4	0	2	1	2	2	6	1	4	3	1	2	1	3	1	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:182354634C>T	uc001gpa.1	-	6	873	c.661G>A	c.(661-663)GCC>ACC	p.A221T	GLUL_uc010pnt.1_Missense_Mutation_p.A8T|GLUL_uc001gpb.1_Missense_Mutation_p.A221T|GLUL_uc001gpc.1_Missense_Mutation_p.A221T|GLUL_uc001gpd.1_Missense_Mutation_p.A221T	NM_001033056	NP_001028228	P15104	GLNA_HUMAN	glutamine synthetase	221					cell proliferation|glutamine biosynthetic process|neurotransmitter uptake	cytosol|Golgi apparatus|mitochondrion	ATP binding|glutamate decarboxylase activity|glutamate-ammonia ligase activity|identical protein binding				0					Asparaginase(DB00023)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)|L-Methionine(DB00134)	ATGAAACGGGCCACCCAGAGA	0.478													19	60					0	0	0.012319	0	0		T	182354634	T	T	182354634	3	4	48	1	0	0	0	0	1	0	0	0	6493	739	26	2	468	2	GLUL	1	182354634	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2291986	182354634	66895987	50	35930											
GLT25D2	23127	broad.mit.edu	37	chr1	183909828	183909828	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agagagatgacgtagcccagGgtccagtaggaatagtcggc	12	6	15	8	2	0	3	0	1	0	2	2	5	1	4	2	3	1	2	2	3	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:183909828G>A	uc001gqr.2	-	11	1863	c.1491C>T	c.(1489-1491)ACC>ACT	p.T497T	GLT25D2_uc010poj.1_Silent_p.T497T|GLT25D2_uc001gqp.2_Silent_p.T105T|GLT25D2_uc001gqq.2_Silent_p.T234T|GLT25D2_uc001gqs.2_Silent_p.T377T	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	497					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						CGTAGCCCAGGGTCCAGTAGG	0.502													29	74					0	0	0.00632	0	0		A	183909828	A	A	183909828	2	1	48	1	0	0	0	0	0	0	0	1	6482	1219	43	4		4	GLT25D2	1	183909828	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1555194	183909828	65340793	51	35931											
PLA2G4A	5321	broad.mit.edu	37	chr1	186957564	186957564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaagacagaatccatctcGttgctctgtttcccttagta	10	14	7	10	1	2	3	0	0	2	3	5	3	4	3	2	0	1	4	2	0	5	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:186957564G>A	uc001gsc.2	+	18	2379	c.2174G>A	c.(2173-2175)CGT>CAT	p.R725H	PLA2G4A_uc010pos.1_Missense_Mutation_p.R665H	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	725	PLA2c.				phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	AATCCATCTCGTTGCTCTGTT	0.383													4	70					0	0	0.009096	0	0		A	186957564	A	A	186957564	3	1	48	1	0	0	0	0	1	0	0	0	12020	1145	40	1	2240	1	PLA2G4A	1	186957564	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3047736	186957564	62293057	52	35932											
KIF21B	23046	broad.mit.edu	37	chr1	200974695	200974695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgggagtggatgaggCgagaagtgacgccagtggtg	8	7	18	8	2	0	3	0	2	0	1	1	6	1	5	3	4	0	0	3	4	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:200974695C>T	uc001gvs.1	-	4	892	c.575G>A	c.(574-576)CGC>CAC	p.R192H	KIF21B_uc001gvr.1_Missense_Mutation_p.R192H|KIF21B_uc009wzl.1_Missense_Mutation_p.R192H|KIF21B_uc010ppn.1_Missense_Mutation_p.R192H|KIF21B_uc001gvt.1_5'UTR	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	192	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						GTGGATGAGGCGAGAAGTGAC	0.622													9	39					0	0	0.006214	0	0		T	200974695	T	T	200974695	3	4	48	1	0	0	0	0	1	0	0	0	8305	768	27	1	4423	1	KIF21B	1	200974695	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	14017131	200974695	48275926	53	35933											
KDM5B	10765	broad.mit.edu	37	chr1	202710789	202710789	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagctccgcagcactaggcGtttcctcagagagtagtttc	8	10	11	12	2	1	1	1	0	0	1	4	2	3	1	2	1	2	7	2	1	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:202710789G>A	uc001gyf.2	-	19	2767	c.2651C>T	c.(2650-2652)ACG>ATG	p.T884M	KDM5B_uc009xag.2_Missense_Mutation_p.T920M|KDM5B_uc001gyg.1_Missense_Mutation_p.T726M	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	884					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						AGCACTAGGCGTTTCCTCAGA	0.418													15	47					0	0	0.004007	0	0		A	202710789	A	A	202710789	3	1	48	1	0	0	0	0	1	0	0	0	8150	1145	40	1	2019	1	KDM5B	1	202710789	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1736094	202710789	46539832	54	35934											
PPFIA4	8497	broad.mit.edu	37	chr1	203024614	203024614	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcggaggagattgagacGcgtgtaaccagtggcagcat	10	6	16	9	5	0	2	0	1	0	2	0	5	0	3	1	3	2	3	1	3	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:203024614G>A	uc001gyz.2	+	3	959	c.366G>A	c.(364-366)ACG>ACA	p.T122T	PPFIA4_uc009xaj.2_Silent_p.T753T|PPFIA4_uc010pqf.1_Silent_p.T335T|PPFIA4_uc001gza.2_Silent_p.T122T|PPFIA4_uc001gzb.1_5'Flank	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	122	Potential.				cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						AGATTGAGACGCGTGTAACCA	0.612													25	48					0	0	0.004656	0	0		A	203024614	A	A	203024614	2	1	48	1	0	0	0	0	0	0	0	1	12331	1074	38	1		1	PPFIA4	1	203024614	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	313825	203024614	46226007	55	35935											
CDK18	5129	broad.mit.edu	37	chr1	205495220	205495220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccacagtcttcaaagggCgcagcaaactgacggagaac	14	5	11	11	2	2	2	1	1	1	1	2	3	2	2	1	2	4	2	1	2	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:205495220C>T	uc001hcr.2	+	6	793	c.574C>T	c.(574-576)CGC>TGC	p.R192C	CDK18_uc010pri.1_Missense_Mutation_p.A182V|CDK18_uc001hcp.2_Missense_Mutation_p.R162C|CDK18_uc001hcq.2_Missense_Mutation_p.R162C|CDK18_uc010prj.1_Missense_Mutation_p.R73C|CDK18_uc001hcs.2_Missense_Mutation_p.R73C|CDK18_uc009xbm.1_Missense_Mutation_p.R73C	NM_212503	NP_997668	Q07002	CDK18_HUMAN	PCTAIRE protein kinase 3 isoform a	160	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding|signal transducer activity			stomach(2)	2						CTTCAAAGGGCGCAGCAAACT	0.577													3	20					0	0	0.004672	0	0		T	205495220	T	T	205495220	3	4	48	1	0	0	0	0	1	0	0	0	3137	768	27	1	592	1	CDK18	1	205495220	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2470606	205495220	43755401	56	35936											
SLC41A1	254428	broad.mit.edu	37	chr1	205768111	205768111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggaggcaatgaaggctGtggccacgctgctagcacag	10	5	15	11	1	0	1	0	1	0	0	0	2	0	2	2	4	2	5	2	4	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:205768111G>A	uc001hdh.1	-	5	1543	c.671C>T	c.(670-672)ACA>ATA	p.T224I	uc001hdi.1_5'Flank	NM_173854	NP_776253	Q8IVJ1	S41A1_HUMAN	solute carrier family 41 member 1	224	Helical; (Potential).					integral to membrane|plasma membrane	magnesium ion transmembrane transporter activity			skin(2)	2	Breast(84;0.0799)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			AATGAAGGCTGTGGCCACGCT	0.597													14	31					0	0	0.004007	0	0		A	205768111	A	A	205768111	3	1	48	1	0	0	0	0	1	0	0	0	14654	1377	48	4	898	4	SLC41A1	1	205768111	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	272891	205768111	43482510	57	35937											
USH2A	7399	broad.mit.edu	37	chr1	216052348	216052348	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgacttaacactgcggaAgtcacattggttaaagtgat	12	14	9	6	1	1	2	1	2	0	0	1	3	1	3	0	2	2	1	0	2	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:216052348A>C	uc001hku.1	-	42	8703	c.8316T>G	c.(8314-8316)ACT>ACG	p.T2772T		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2772	Fibronectin type-III 14.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACACTGCGGAAGTCACATTGG	0.443										HNSCC(13;0.011)			56	133					0	0	0.01441	0	0		C	216052348	C	C	216052348	2	2	48	1	0	0	0	0	0	0	0	1	17062	59	3	5		5	USH2A	1	216052348	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	10284237	216052348	33198273	58	35938											
USH2A	7399	broad.mit.edu	37	chr1	216172363	216172363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacatatataatacatagcGttccagaatcccacttattt	14	14	4	9	1	0	2	0	1	0	1	2	2	2	2	2	0	2	1	2	0	7	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:216172363G>A	uc001hku.1	-	34	6910	c.6523C>T	c.(6523-6525)CGC>TGC	p.R2175C		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2175	Extracellular (Potential).|Fibronectin type-III 8.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AATACATAGCGTTCCAGAATC	0.313										HNSCC(13;0.011)			19	30					0	0	0.003954	0	0		A	216172363	A	A	216172363	3	1	48	1	0	0	0	0	1	0	0	0	17062	1145	40	1	9241	1	USH2A	1	216172363	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	120015	216172363	33078258	59	35939											
TGFB2	7042	broad.mit.edu	37	chr1	218520238	218520238	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcccgaggaagtccccccGgaggtgatttccatctacaa	10	7	11	13	2	1	1	0	1	1	0	3	5	3	3	5	3	2	0	5	3	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:218520238G>A	uc001hlm.2	+	1	848	c.195G>A	c.(193-195)CCG>CCA	p.P65P	TGFB2_uc001hll.2_Silent_p.P65P|TGFB2_uc001hln.2_Silent_p.P65P|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	65					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		AAGTCCCCCCGGAGGTGATTT	0.627													25	42					0	0	0.003954	0	0		A	218520238	A	A	218520238	2	1	48	1	0	0	0	0	0	0	0	1	15843	1103	39	1		1	TGFB2	1	218520238	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2347875	218520238	30730383	60	35940											
SIPA1L2	57568	broad.mit.edu	37	chr1	232568138	232568138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtccgctgctgtgagacaCgatgtagactttggatgaat	9	13	12	7	2	0	3	0	2	0	2	1	6	1	4	1	1	1	3	1	1	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:232568138C>T	uc001hvg.2	-	14	4269	c.4111G>A	c.(4111-4113)GTG>ATG	p.V1371M	SIPA1L2_uc001hvf.2_Missense_Mutation_p.V445M	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1371	Ser-rich.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				CTGTGAGACACGATGTAGACT	0.493													11	55					0	0	0.00245	0	0		T	232568138	T	T	232568138	3	4	48	1	0	0	0	0	1	0	0	0	14355	536	19	1	1089	1	SIPA1L2	1	232568138	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	14047900	232568138	16682483	61	35941											
PCNXL2	80003	broad.mit.edu	37	chr1	233190017	233190017	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgaagaaattcttacctcGgaattccagtcctcgaagtt	13	12	7	9	2	1	2	0	1	1	1	5	4	3	3	3	1	1	1	3	1	6	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:233190017G>A	uc001hvl.2	-	25	4583	c.4348C>T	c.(4348-4350)CGA>TGA	p.R1450*	PCNXL2_uc001hvk.1_Nonsense_Mutation_p.R102*|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1450						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				TTCTTACCTCGGAATTCCAGT	0.368													6	15					0	0	0.006214	0	0		A	233190017	A	A	233190017	4	1	48	1	0	0	0	0	0	1	0	0	11611	1124	39	1	2105	1	PCNXL2	1	233190017	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	621879	233190017	16060604	62	35942											
KCNK1	3775	broad.mit.edu	37	chr1	233802519	233802519	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggggcttctccaagcaggtGgtggccatcgtccatgccgt	5	10	14	12	2	1	0	0	0	1	0	4	0	2	0	4	5	2	2	4	5	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:233802519G>A	uc010pxo.1	+	2	702	c.534G>A	c.(532-534)GTG>GTA	p.V178V	KCNK1_uc001hvw.2_RNA|KCNK1_uc001hvx.2_RNA	NM_002245	NP_002236	O00180	KCNK1_HUMAN	potassium channel, subfamily K, member 1	178	Helical; (Potential).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			central_nervous_system(1)	1		all_cancers(173;0.00217)|all_epithelial(177;0.121)|Prostate(94;0.122)|Acute lymphoblastic leukemia(190;0.175)			Ibutilide(DB00308)|Quinidine(DB00908)	CCAAGCAGGTGGTGGCCATCG	0.612													16	29					0	0	0.004007	0	0		A	233802519	A	A	233802519	2	1	48	1	0	0	0	0	0	0	0	1	8074	1335	47	4		4	KCNK1	1	233802519	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	612502	233802519	15448102	63	35943											
ACTN2	88	broad.mit.edu	37	chr1	236924372	236924372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccaacgggcaaggcaccGtcaccttccaatccttcatc	10	8	6	17	2	2	0	2	0	0	0	6	0	5	0	5	2	1	2	5	2	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:236924372G>A	uc001hyf.2	+	20	2629	c.2425G>A	c.(2425-2427)GTC>ATC	p.V809I	ACTN2_uc001hyg.2_Missense_Mutation_p.V601I|ACTN2_uc009xgi.1_Missense_Mutation_p.V809I|ACTN2_uc010pxu.1_Missense_Mutation_p.V498I|ACTN2_uc001hyh.2_Missense_Mutation_p.V497I	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	809	2; possibly ancestral.|EF-hand 2.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GCAAGGCACCGTCACCTTCCA	0.542													19	91					0	0	0.012319	0	0		A	236924372	A	A	236924372	3	1	48	1	0	0	0	0	1	0	0	0	205	1145	40	1	2503	1	ACTN2	1	236924372	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3121853	236924372	12326249	64	35944											
MTR	4548	broad.mit.edu	37	chr1	237015832	237015832	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgccaggaaacattaccTggagccagaataagtggagg	13	9	12	7	0	0	1	0	0	0	1	0	4	0	4	3	4	4	0	3	4	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:237015832T>C	uc001hyi.3	+	17	2130	c.1707T>C	c.(1705-1707)CCT>CCC	p.P569P	MTR_uc010pxw.1_Silent_p.P162P|MTR_uc010pxx.1_Silent_p.P569P|MTR_uc010pxy.1_Intron	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	569	Pterin-binding.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	AAACATTACCTGGAGCCAGAA	0.398													9	33					0	0	0.004482	0	0		C	237015832	C	C	237015832	2	2	48	1	0	0	0	0	0	0	0	1	9976	1567	55	3		3	MTR	1	237015832	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	91460	237015832	12234789	65	35945											
FMN2	56776	broad.mit.edu	37	chr1	240256529	240256529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccggaggtgggagaggacGccccgcagaggctgggggaa	8	2	20	11	3	0	2	0	0	0	2	0	6	0	5	4	7	0	2	4	7	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:240256529G>A	uc010pyd.1	+	1	1345	c.1120G>A	c.(1120-1122)GCC>ACC	p.A374T	FMN2_uc010pye.1_Missense_Mutation_p.A374T	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	374					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GGGAGAGGACGCCCCGCAGAG	0.741													3	3					0	0	0.009096	0	0		A	240256529	A	A	240256529	3	1	48	1	0	0	0	0	1	0	0	0	5964	1087	38	1	1122	1	FMN2	1	240256529	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3240697	240256529	8994092	66	35946											
EXO1	9156	broad.mit.edu	37	chr1	242042466	242042466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgattcccccacctctttgCctgagaataatatgtctgat	9	13	7	12	1	2	2	0	2	2	1	3	4	3	2	4	0	1	0	4	0	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:242042466C>T	uc001hzh.2	+	13	2470	c.1930C>T	c.(1930-1932)CCT>TCT	p.P644S	EXO1_uc001hzi.2_Missense_Mutation_p.P644S|EXO1_uc001hzj.2_Missense_Mutation_p.P644S|EXO1_uc009xgq.2_Missense_Mutation_p.P643S	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	644	Interaction with MSH2.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			CACCTCTTTGCCTGAGAATAA	0.502								Direct_reversal_of_damage|Editing_and_processing_nucleases					17	21					0	0	0.007413	0	0		T	242042466	T	T	242042466	3	4	48	1	0	0	0	0	1	0	0	0	5308	739	26	2	1968	2	EXO1	1	242042466	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1785937	242042466	7208155	67	35947											
PLD5	200150	broad.mit.edu	37	chr1	242253167	242253167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcatcatgttatacgttccGgggatcctttccgcctgtgt	5	16	9	11	3	2	0	2	0	0	0	5	1	5	1	4	2	1	2	4	2	2	5	rs140318994		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:242253167G>A	uc001hzn.1	-	10	1727	c.1600C>T	c.(1600-1602)CGG>TGG	p.R534W	PLD5_uc001hzl.3_Missense_Mutation_p.R472W|PLD5_uc001hzm.3_Missense_Mutation_p.R324W|PLD5_uc001hzo.1_Missense_Mutation_p.R442W			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	534						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			TATACGTTCCGGGGATCCTTT	0.428													52	122					0	0	0.01441	0	0		A	242253167	A	A	242253167	3	1	48	1	0	0	0	0	1	0	0	0	12068	1115	39	1	14	1	PLD5	1	242253167	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	210701	242253167	6997454	68	35948											
CEP170	9859	broad.mit.edu	37	chr1	243349684	243349684	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcgcctgtgagccccagcGttctctgaatcactttgcgt	6	11	10	14	3	2	2	1	2	1	0	3	2	2	2	3	0	4	1	3	0	1	2	rs139999949	by1000genomes	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:243349684G>A	uc001hzs.2	-	9	1557	c.1149C>T	c.(1147-1149)AAC>AAT	p.N383N	CEP170_uc001hzt.2_Silent_p.N383N|CEP170_uc001hzu.2_Silent_p.N383N	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	383						centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			GAGCCCCAGCGTTCTCTGAAT	0.428													9	35					0	0	0.001855	0	0		A	243349684	A	A	243349684	2	1	48	1	0	0	0	0	0	0	0	1	3253	1136	40	1		1	CEP170	1	243349684	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1096517	243349684	5900937	69	35949											
OR2T11	127077	broad.mit.edu	37	chr1	248789600	248789600	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattaagcatgggcgtgacaAtggtatagaaggctgacact	13	9	13	6	1	0	3	0	2	0	1	0	4	0	3	0	3	1	3	0	3	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr1:248789600A>G	uc001ier.1	-	1	830	c.830T>C	c.(829-831)ATT>ACT	p.I277T		NM_001001964	NP_001001964	Q8NH01	O2T11_HUMAN	olfactory receptor, family 2, subfamily T,	277	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGGCGTGACAATGGTATAGAA	0.483													7	78					0	0	0.00308	0	0		G	248789600	G	G	248789600	3	3	48	1	0	0	0	0	1	0	0	0	11037	101	4	3	124	3	OR2T11	1	248789600	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	5439916	248789600	461021	70	35950											
PXDN	7837	broad.mit.edu	37	chr2	1647176	1647176	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacccggaggtctacccTggggatctcgtcacagctgc	7	7	11	16	2	3	0	1	0	2	0	4	2	3	2	3	4	3	1	3	4	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:1647176T>C	uc002qxa.2	-	19	3980	c.3916A>G	c.(3916-3918)AGG>GGG	p.R1306G		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1306					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		AGGTCTACCCTGGGGATCTCG	0.612													3	82					0	0	0.004672	0	0		C	1647176	C	C	1647176	3	2	48	1	0	0	0	0	1	0	0	0	12872	1579	55	3	543	3	PXDN	2	1647176	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08		1647176	241552197	71	35951											
MYT1L	23040	broad.mit.edu	37	chr2	1906931	1906931	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgccataagtatggttgtcGtaactgttgtattcaaacga	11	15	9	6	2	1	0	1	0	0	0	2	1	1	0	1	1	3	5	1	1	5	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:1906931G>A	uc002qxe.2	-	14	2780	c.1953C>T	c.(1951-1953)TAC>TAT	p.Y651Y	MYT1L_uc002qxd.2_Silent_p.Y649Y|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	651					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		TATGGTTGTCGTAACTGTTGT	0.478													19	50					0	0	0.008871	0	0		A	1906931	A	A	1906931	2	1	48	1	0	0	0	0	0	0	0	1	10125	1140	40	1		1	MYT1L	2	1906931	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	259755	1906931	241292442	72	35952											
MYT1L	23040	broad.mit.edu	37	chr2	1983518	1983518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacccctttggaccgcgtgCgatgccgcttctcctcggtg	4	10	12	15	5	1	0	0	0	1	0	3	3	1	1	5	2	3	1	5	2	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:1983518C>T	uc002qxe.2	-	6	859	c.32G>A	c.(31-33)CGC>CAC	p.R11H	MYT1L_uc002qxd.2_Missense_Mutation_p.R11H|MYT1L_uc002qxf.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	11					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		GGACCGCGTGCGATGCCGCTT	0.617													7	31					0	0	0.00308	0	0		T	1983518	T	T	1983518	3	4	48	1	0	0	0	0	1	0	0	0	10125	768	27	1	3602	1	MYT1L	2	1983518	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	76587	1983518	241215855	73	35953											
RAD51AP2	729475	broad.mit.edu	37	chr2	17698848	17698848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtcattctttttcttcgCtatttcctttaaatagacag	8	21	4	8	1	3	1	1	0	2	1	5	1	4	1	1	0	0	1	1	0	4	10			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:17698848C>T	uc002rcl.1	-	1	859	c.835G>A	c.(835-837)GCG>ACG	p.A279T	RAD51AP2_uc010exn.1_Missense_Mutation_p.A270T	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	279										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTTTTCTTCGCTATTTCCTTT	0.358													13	28					0	0	0.00245	0	0		T	17698848	T	T	17698848	3	4	48	1	0	0	0	0	1	0	0	0	13012	797	28	2	2656	2	RAD51AP2	2	17698848	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	15715330	17698848	225500525	74	35954											
SMC6	79677	broad.mit.edu	37	chr2	17913083	17913084	+	Frame_Shift_Del	DEL	AC	-	-																															tataagtatagagttaccatAcacactggctttaaaggcat																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:17913083_17913084delAC	uc002rco.2	-	6	701_702	c.405_406delGT	c.(403-408)GTGTATfs	p.V135fs	SMC6_uc010exo.2_Frame_Shift_Del_p.V135fs|SMC6_uc002rcn.2_Frame_Shift_Del_p.V135fs|SMC6_uc002rcp.1_Frame_Shift_Del_p.V161fs|SMC6_uc002rcq.2_Frame_Shift_Del_p.V161fs|SMC6_uc002rcr.1_Frame_Shift_Del_p.V135fs	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	135_136					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GAGTTACCATACACACTGGCTT	0.361													22	51	---	---	---	---						.	-	17913084	-	-	17913083	7	5	48	1	0	1	0	1	0	0	0	0	14812	391	14	0	2961	0	SMC6	2	17913083	Frame_Shift_Del	DEL	AC	TCGA-BR-7703-01A-11D-2053-08	214235	17913083	225286290	75	35955											
MFSD2B	388931	broad.mit.edu	37	chr2	24247037	24247037	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctcaaagtcctcattggCgccgtgcccacctgcatgat	8	9	8	16	2	2	1	2	1	0	0	3	1	3	1	5	1	2	1	5	1	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:24247037C>T	uc002reo.1	+	13	1400	c.1386C>T	c.(1384-1386)GGC>GGT	p.G462G		NM_001080473	NP_001073942	A6NFX1	MFS2B_HUMAN	major facilitator superfamily domain containing	462	Helical; (Potential).				transport	integral to membrane				ovary(2)	2						TCCTCATTGGCGCCGTGCCCA	0.607													8	20					0	0	0.004482	0	0		T	24247037	T	T	24247037	2	4	48	1	0	0	0	0	0	0	0	1	9549	755	27	1		1	MFSD2B	2	24247037	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	6333954	24247037	218952336	76	35956											
SLC5A6	8884	broad.mit.edu	37	chr2	27423328	27423328	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggaggtctcctggaggatGcaggtggagctgctcccctg	6	8	17	10	0	1	0	0	0	1	0	3	4	2	4	3	6	3	3	3	6	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:27423328G>A	uc002rjd.2	-	17	2275	c.1884C>T	c.(1882-1884)TGC>TGT	p.C628C	SLC5A6_uc010eyv.1_Silent_p.C628C	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	628					biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	CCTGGAGGATGCAGGTGGAGC	0.607													13	16					0	0	0.013537	0	0		A	27423328	A	A	27423328	2	1	48	1	0	0	0	0	0	0	0	1	14694	1311	46	2		2	SLC5A6	2	27423328	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3176291	27423328	215776045	77	35957											
ALK	238	broad.mit.edu	37	chr2	29462672	29462672	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttcttcccgcctttcccGccagcagctccgtagcccga	4	10	9	18	4	1	0	0	0	1	0	4	1	4	0	6	0	3	4	6	0	1	4	rs111253753	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:29462672G>A	uc002rmy.2	-	13	3136	c.2229C>T	c.(2227-2229)GGC>GGT	p.G743G		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	743	Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	CGCCTTTCCCGCCAGCAGCTC	0.592			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				18	41					0	0	0.014323	0	0		A	29462672	A	A	29462672	2	1	48	1	0	0	0	0	0	0	0	1	525	1074	38	1		1	ALK	2	29462672	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2039344	29462672	213736701	78	35958											
TTC7A	57217	broad.mit.edu	37	chr2	47256440	47256440	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgccctccacctgctggcActgctcttctctgcccagaa	6	9	7	19	1	2	1	0	0	2	1	4	1	3	1	4	1	3	3	4	1	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:47256440A>G	uc002rvo.2	+	15	2087	c.1719A>G	c.(1717-1719)GCA>GCG	p.A573A	TTC7A_uc002rvm.2_Silent_p.A539A|TTC7A_uc002rvn.1_Silent_p.A454A|TTC7A_uc010fbb.2_Silent_p.A573A|TTC7A_uc010fbc.2_Silent_p.A219A|TTC7A_uc002rvp.2_Silent_p.A454A|TTC7A_uc002rvq.2_Silent_p.A313A|TTC7A_uc002rvr.2_Silent_p.A22A	NM_020458	NP_065191	Q9ULT0	TTC7A_HUMAN	tetratricopeptide repeat domain 7A	573	TPR 6.						binding			breast(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)			ACCTGCTGGCACTGCTCTTCT	0.592													16	59					0	0	0.00499	0	0		G	47256440	G	G	47256440	2	3	48	1	0	0	0	0	0	0	0	1	16738	146	6	3		3	TTC7A	2	47256440	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	17793768	47256440	195942933	79	35959											
SPTBN1	6711	broad.mit.edu	37	chr2	54858256	54858256	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcggagaagctggagtcCgagcaccccgaccaggccca	10	2	15	14	3	0	1	0	0	0	1	1	6	1	2	5	4	2	2	5	4	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:54858256C>T	uc002rxu.2	+	16	3321	c.3072C>T	c.(3070-3072)TCC>TCT	p.S1024S	SPTBN1_uc002rxx.2_Silent_p.S1011S	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1024	Spectrin 7.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			AGCTGGAGTCCGAGCACCCCG	0.637													28	44					0	0	0.007291	0	0		T	54858256	T	T	54858256	2	4	48	1	0	0	0	0	0	0	0	1	15144	639	23	1		1	SPTBN1	2	54858256	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	7601816	54858256	188341117	80	35960											
MTIF2	4528	broad.mit.edu	37	chr2	55464461	55464461	+	Frame_Shift_Del	DEL	T	-	-																															ccattacgggttagtttaaaTtttttttgtttttctaactg																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:55464461delT	uc002ryn.2	-	16	2711	c.1974delA	c.(1972-1974)AAAfs	p.K658fs	MTIF2_uc010yox.1_Frame_Shift_Del_p.K327fs|MTIF2_uc002ryo.2_Frame_Shift_Del_p.K658fs	NM_001005369	NP_001005369	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	658					regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1						TTAGTTTAAATTTTTTTTGTT	0.378													29	51	---	---	---	---						.	-	55464461	-	-	55464461	7	5	48	1	0	1	0	1	0	0	0	0	9952	1490	52	0	217	0	MTIF2	2	55464461	Frame_Shift_Del	DEL	T	TCGA-BR-7703-01A-11D-2053-08	606205	55464461	187734912	81	35961											
USP34	9736	broad.mit.edu	37	chr2	61575984	61575984	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctccactttgatgtgtatcGctattatcactgctttgagg	7	16	8	10	1	1	2	1	2	0	0	3	2	2	2	2	1	1	3	2	1	3	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:61575984G>A	uc002sbe.2	-	14	1603	c.1581C>T	c.(1579-1581)AGC>AGT	p.S527S		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	527					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			GATGTGTATCGCTATTATCAC	0.338													6	40					0	0	0.004482	0	0		A	61575984	A	A	61575984	2	1	48	1	0	0	0	0	0	0	0	1	17091	1078	38	1		1	USP34	2	61575984	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	6111523	61575984	181623389	82	35962											
ADD2	119	broad.mit.edu	37	chr2	70905913	70905913	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgcaggtaggtgttgggcgTattgagccagcgggtcttct	5	11	16	9	3	2	1	0	1	2	0	2	1	2	1	2	4	2	4	2	4	2	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:70905913T>C	uc002sgz.2	-	11	1771	c.1306A>G	c.(1306-1308)ACG>GCG	p.T436A	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Missense_Mutation_p.T436A|ADD2_uc002sha.2_Intron|ADD2_uc002sgx.2_Missense_Mutation_p.T436A|ADD2_uc010fdt.1_Missense_Mutation_p.T436A|ADD2_uc002shc.1_Missense_Mutation_p.T436A|ADD2_uc002shd.1_Intron|ADD2_uc010fdu.1_Missense_Mutation_p.T452A	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	436	Interaction with calmodulin (Potential).				actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						GTGTTGGGCGTATTGAGCCAG	0.647													8	158					0	0	0.004482	0	0		C	70905913	C	C	70905913	3	2	48	1	0	0	0	0	1	0	0	0	305	1638	57	3	1075	3	ADD2	2	70905913	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	9329929	70905913	172293460	83	35963											
C2orf7	84279	broad.mit.edu	37	chr2	73456645	73456645	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaccgttgctgagttccccGcaggcctctggaggttcagc	7	9	12	13	2	2	1	1	1	1	0	3	2	3	2	4	3	3	5	4	3	1	3	rs139180180	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:73456645G>A	uc002siy.2	-	3	290	c.222C>T	c.(220-222)TGC>TGT	p.C74C		NM_032319	NP_115695	Q9BSG0	PADC1_HUMAN	chromosome 2 open reading frame 7 precursor	74						extracellular region					0						TGAGTTCCCCGCAGGCCTCTG	0.537													7	125					0	0	0.00308	0	0		A	73456645	A	A	73456645	2	1	48	1	0	0	0	0	0	0	0	1	2192	1079	38	1		1	C2orf7	2	73456645	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2550732	73456645	169742728	84	35964											
FBXO41	150726	broad.mit.edu	37	chr2	73492583	73492583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagttctggatggcctggCgccgcaggcctgagctgcga	5	7	16	13	3	1	1	0	1	1	0	1	3	1	2	4	4	2	3	4	4	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:73492583C>T	uc002sjb.1	-	5	1574	c.1574G>A	c.(1573-1575)CGC>CAC	p.R525H		NM_001080410	NP_001073879	Q8TF61	FBX41_HUMAN	F-box protein 41	464						intracellular	protein binding|zinc ion binding			breast(2)|pancreas(1)	3						GATGGCCTGGCGCCGCAGGCC	0.701													5	9					0	0	0.000602	0	0		T	73492583	T	T	73492583	3	4	48	1	0	0	0	0	1	0	0	0	5764	768	27	1	1272	1	FBXO41	2	73492583	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	35938	73492583	169706790	85	35965											
ALMS1	7840	broad.mit.edu	37	chr2	73679208	73679208	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctgccctctaattcctacCcacagagagagcactctgtc	9	10	6	16	0	2	2	0	0	2	2	5	3	4	2	4	0	3	1	4	0	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:73679208C>A	uc002sje.1	+	10	5668	c.5557C>A	c.(5557-5559)CCA>ACA	p.P1853T	ALMS1_uc002sjf.1_Missense_Mutation_p.P1809T|ALMS1_uc002sjg.2_Missense_Mutation_p.P1239T|ALMS1_uc002sjh.1_Missense_Mutation_p.P1239T	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1851	28.|34 X 47 AA approximate tandem repeat.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TAATTCCTACCCACAGAGAGA	0.453													14	59					3.27435e-08	3.5296e-08	0.00245	1	0		A	73679208	A	A	73679208	3	1	48	1	0	0	0	0	1	0	0	0	535	623	22	5	5581	5	ALMS1	2	73679208	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	186625	73679208	169520165	86	35966											
DCTN1	1639	broad.mit.edu	37	chr2	74597749	74597749	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgtgggccccttaccCttctcttcaatctcagcctt	5	13	7	16	0	3	0	2	0	2	0	5	0	3	0	4	1	3	2	4	1	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:74597749C>T	uc002skx.2	-	10	1358	c.1047G>A	c.(1045-1047)AAG>AAA	p.K349K	DCTN1_uc002skv.2_Silent_p.K215K|DCTN1_uc002sku.2_Silent_p.K215K|DCTN1_uc002skw.1_Silent_p.K325K|DCTN1_uc010ffd.2_Silent_p.K329K|DCTN1_uc002sky.2_Silent_p.K312K	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	349	Potential.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						GCCCCTTACCCTTCTCTTCAA	0.572													29	76					0	0	0.007291	0	0		T	74597749	T	T	74597749	2	4	48	1	0	0	0	0	0	0	0	1	4309	695	24	4		4	DCTN1	2	74597749	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	918541	74597749	168601624	87	35967											
LRRTM4	80059	broad.mit.edu	37	chr2	77746782	77746782	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatttgagcttctgaatgctGttgaaccttaatgataagcc	11	14	9	7	0	1	4	0	4	1	0	1	5	1	4	2	0	4	3	2	0	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:77746782G>A	uc002snr.2	-	3	628	c.213C>T	c.(211-213)AAC>AAT	p.N71N	LRRTM4_uc002snq.2_Silent_p.N71N|LRRTM4_uc002sns.2_Silent_p.N71N|LRRTM4_uc002snt.2_Silent_p.N72N	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	71	LRR 1.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TCTGAATGCTGTTGAACCTTA	0.418													28	58					0	0	0.010818	0	0		A	77746782	A	A	77746782	2	1	48	1	0	0	0	0	0	0	0	1	9060	1368	48	4		4	LRRTM4	2	77746782	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3149033	77746782	165452591	88	35968											
ZAP70	7535	broad.mit.edu	37	chr2	98354293	98354293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttccgcaagttctccagccGcagcgatgtctggagctatg	7	10	11	13	3	2	0	0	0	2	0	4	2	3	1	3	1	3	4	3	1	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:98354293G>A	uc002syd.1	+	12	1763	c.1556G>A	c.(1555-1557)CGC>CAC	p.R519H	ZAP70_uc002sye.1_Missense_Mutation_p.R409H|ZAP70_uc002syf.1_Missense_Mutation_p.R212H	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	519	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						TTCTCCAGCCGCAGCGATGTC	0.647													45	155					0	0	0.01441	0	0		A	98354293	A	A	98354293	3	1	48	1	0	0	0	0	1	0	0	0	17540	1087	38	1	1594	1	ZAP70	2	98354293	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	20607511	98354293	144845080	89	35969											
SLC9A4	389015	broad.mit.edu	37	chr2	103149045	103149045	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtctggaggggagagtgaGggcaaggcctctttggttga	8	9	19	5	0	2	3	0	2	2	1	2	6	2	4	1	6	0	2	1	6	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:103149045G>T	uc002tbz.3	+	12	2752	c.2295G>T	c.(2293-2295)GAG>GAT	p.E765D		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	765	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						GGGAGAGTGAGGGCAAGGCCT	0.542													10	18					1.08611e-07	1.1651e-07	0.010729	1	0		T	103149045	T	T	103149045	3	4	48	1	0	0	0	0	1	0	0	0	14741	991	35	5	2341	5	SLC9A4	2	103149045	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4794752	103149045	140050328	90	35970											
RGPD3	653489	broad.mit.edu	37	chr2	107039620	107039620	+	Frame_Shift_Del	DEL	T	-	-																															gagttctttgacagttcacaTtttttaggttccactttgct																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:107039620delT	uc010ywi.1	-	20	4860	c.4803delA	c.(4801-4803)AAAfs	p.K1601fs		NM_001144013	NP_001137485	A6NKT7	RGPD3_HUMAN	RANBP2-like and GRIP domain containing 3	1601					intracellular transport		binding			ovary(1)	1						ACAGTTCACATTTTTTAGGTT	0.363													2	4	---	---	---	---						.	-	107039620	-	-	107039620	7	5	48	1	0	1	0	1	0	0	0	0	13312	1490	52	0	489	0	RGPD3	2	107039620	Frame_Shift_Del	DEL	T	TCGA-BR-7703-01A-11D-2053-08	3890575	107039620	136159753	91	35971											
LIMS1	3987	broad.mit.edu	37	chr2	109276116	109276116	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgctgcaagggcggctttGcgcccgctgagaagatcgtg	7	7	16	11	5	0	2	0	1	0	2	1	3	0	2	1	2	3	4	1	2	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:109276116G>T	uc002teg.2	+	2	171	c.52G>T	c.(52-54)GCG>TCG	p.A18S	LIMS1_uc002tef.2_Missense_Mutation_p.A30S|LIMS1_uc002teh.2_Missense_Mutation_p.A18S|LIMS1_uc002tei.2_Missense_Mutation_p.A18S|LIMS1_uc002tej.2_Missense_Mutation_p.A55S|LIMS1_uc002tek.3_Missense_Mutation_p.A80S	NM_004987	NP_004978	P48059	LIMS1_HUMAN	LIM and senescent cell antigen-like domains 1	18	LIM zinc-binding 1.				cell aging|cell junction assembly|cellular response to transforming growth factor beta stimulus|negative regulation of transcription, DNA-dependent	cytosol|focal adhesion|perinuclear region of cytoplasm	protein binding|zinc ion binding				0						GGGCGGCTTTGCGCCCGCTGA	0.577													5	45					1.23904e-05	1.30542e-05	0.000602	1	0		T	109276116	T	T	109276116	3	4	48	1	0	0	0	0	1	0	0	0	8819	1319	46	5	54	5	LIMS1	2	109276116	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2236496	109276116	133923257	92	35972											
ZC3H6	376940	broad.mit.edu	37	chr2	113082135	113082135	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaaagtcctggtgaaatgCagctcaacaccaattatgag	15	8	9	9	0	1	2	1	2	0	0	2	2	2	2	2	1	4	3	2	1	5	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:113082135C>A	uc002thq.1	+	10	2141	c.1747C>A	c.(1747-1749)CAG>AAG	p.Q583K		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	583							nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						TGGTGAAATGCAGCTCAACAC	0.443													6	15					8.12818e-05	8.44301e-05	0.001984	1	0		A	113082135	A	A	113082135	3	1	48	1	0	0	0	0	1	0	0	0	17596	711	25	5	1785	5	ZC3H6	2	113082135	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3806019	113082135	130117238	93	35973											
DPP10	57628	broad.mit.edu	37	chr2	116497367	116497367	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcaccagatggagaaagActtgccttcctgatgataaa	13	10	10	8	0	1	5	1	2	0	3	2	6	2	5	3	2	1	0	3	2	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:116497367A>G	uc002tla.1	+	9	1207	c.750A>G	c.(748-750)AGA>AGG	p.R250R	DPP10_uc002tlb.1_Silent_p.R200R|DPP10_uc002tlc.1_Silent_p.R246R|DPP10_uc002tle.2_Silent_p.R254R|DPP10_uc002tlf.1_Silent_p.R243R	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	250	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						ATGGAGAAAGACTTGCCTTCC	0.463													37	99					0	0	0.00623	0	0		G	116497367	G	G	116497367	2	3	48	1	0	0	0	0	0	0	0	1	4733	272	10	3		3	DPP10	2	116497367	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	3415232	116497367	126702006	94	35974											
MAP3K2	10746	broad.mit.edu	37	chr2	128083333	128083333	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggactatcaagtgatggacaActtcctgagccagaattttc	12	11	9	9	0	1	3	1	2	0	1	3	5	2	5	2	2	2	0	2	2	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:128083333A>G	uc002toj.1	-	8	713	c.648T>C	c.(646-648)AGT>AGC	p.S216S	MAP3K2_uc010flz.1_Silent_p.S216S	NM_006609	NP_006600	Q9Y2U5	M3K2_HUMAN	mitogen-activated protein kinase kinase kinase	216					activation of JUN kinase activity|cellular response to mechanical stimulus	nucleus	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein kinase binding			lung(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0706)		GTGATGGACAACTTCCTGAGC	0.303													7	91					0	0	0.008291	0	0		G	128083333	G	G	128083333	2	3	48	1	0	0	0	0	0	0	0	1	9268	40	2	3		3	MAP3K2	2	128083333	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	11585966	128083333	115116040	95	35975											
AMMECR1L	83607	broad.mit.edu	37	chr2	128628889	128628889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggtcccaatgcagccaCgaagccgcttgtcccgccct	9	6	10	16	3	0	1	0	0	0	1	2	2	2	1	5	1	3	2	5	1	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:128628889C>T	uc002tpl.2	-	4	703	c.452G>A	c.(451-453)CGT>CAT	p.R151H	AMMECR1L_uc002tpm.2_Missense_Mutation_p.R151H	NM_031445	NP_113633	Q6DCA0	AMERL_HUMAN	AMME chromosomal region gene 1-like	151	AMMECR1.									central_nervous_system(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.07)		AATGCAGCCACGAAGCCGCTT	0.443													13	33					0	0	0.003163	0	0		T	128628889	T	T	128628889	3	4	48	1	0	0	0	0	1	0	0	0	579	536	19	1	500	1	AMMECR1L	2	128628889	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	545556	128628889	114570484	96	35976											
SAP130	79595	broad.mit.edu	37	chr2	128767857	128767859	+	In_Frame_Del	DEL	AGT	-	-																															gtatacctaagtgctgaatcAgtagcatgcgccgctgtcgt																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:128767857_128767859delAGT	uc002tpp.2	-	7	1063_1065	c.931_933delACT	c.(931-933)ACTdel	p.T311del	SAP130_uc002tpn.2_In_Frame_Del_p.T72del|SAP130_uc002tpo.2_In_Frame_Del_p.T56del|SAP130_uc010fmd.2_In_Frame_Del_p.T311del|SAP130_uc002tpq.1_In_Frame_Del_p.T285del	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	311					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		GTGCTGAATCAGTAGCATGCGCC	0.463													27	58	---	---	---	---						.	-	128767859	-	-	128767857	7	5	48	1	0	1	0	1	0	0	0	0	13856	175	7	0	2378	0	SAP130	2	128767857	In_Frame_Del	DEL	AGT	TCGA-BR-7703-01A-11D-2053-08	138968	128767857	114431516	97	35977											
ACVR2A	92	broad.mit.edu	37	chr2	148680608	148680608	+	Frame_Shift_Del	DEL	T	-	-																															taaacttccaaagggatgcaTttttgaggatagatatgtat																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:148680608delT	uc002twg.2	+	10	1413	c.1144delT	c.(1144-1146)TTTfs	p.F382fs	ACVR2A_uc010zbn.1_Frame_Shift_Del_p.F274fs|ACVR2A_uc002twh.2_Frame_Shift_Del_p.F382fs	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	382	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		AAGGGATGCATTTTTGAGGAT	0.398													100	216	---	---	---	---						.	-	148680608	-	-	148680608	7	5	48	1	0	1	0	1	0	0	0	0	223	1493	52	0	1178	0	ACVR2A	2	148680608	Frame_Shift_Del	DEL	T	TCGA-BR-7703-01A-11D-2053-08	19912751	148680608	94518765	98	35978											
ATF2	1386	broad.mit.edu	37	chr2	175986257	175986257	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggacagccaaatgatcctcGttggtaaaacgctgtggcaa	12	9	11	9	2	0	1	0	1	0	0	2	2	1	2	2	3	2	4	2	3	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:175986257G>A	uc002ujl.2	-	5	376	c.114C>T	c.(112-114)AAC>AAT	p.N38N	ATF2_uc010fqv.2_Nonsense_Mutation_p.R13*|ATF2_uc002ujv.2_Translation_Start_Site|ATF2_uc002ujm.2_Intron|ATF2_uc002ujn.2_Intron|ATF2_uc002ujo.2_Intron|ATF2_uc002ujp.2_RNA|ATF2_uc002ujq.2_Silent_p.N38N|ATF2_uc002ujr.2_RNA|ATF2_uc010fqu.2_Silent_p.N20N|ATF2_uc002ujs.2_Intron|ATF2_uc002ujt.2_RNA|ATF2_uc002uju.2_Intron|ATF2_uc002ujw.1_Intron|ATF2_uc002ujx.1_RNA|ATF2_uc002ujy.1_Silent_p.N38N	NM_001880	NP_001871	P15336	ATF2_HUMAN	activating transcription factor 2	38	C2H2-type.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nucleoplasm	protein dimerization activity|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(1)|breast(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.125)			AATGATCCTCGTTGGTAAAAC	0.323													15	43					0	0	0.003163	0	0		A	175986257	A	A	175986257	2	1	48	1	0	0	0	0	0	0	0	1	1081	1136	40	1		1	ATF2	2	175986257	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	27305649	175986257	67213116	99	35979											
HOXD13	3239	broad.mit.edu	37	chr2	176958155	176958155	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgagcagcagcgtaccGgccaacgaggtgccagcgcg	8	3	16	14	6	0	0	0	0	0	0	0	2	0	0	3	3	7	3	3	3	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:176958155G>A	uc002ukf.1	+	1	624	c.537G>A	c.(535-537)CCG>CCA	p.P179P		NM_000523	NP_000514	P35453	HXD13_HUMAN	homeobox D13	179					skeletal system development|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0526)|READ - Rectum adenocarcinoma(9;0.0678)		GCAGCGTACCGGCCAACGAGG	0.607			T	NUP98	AML*								24	28					0	0	0.014323	0	0		A	176958155	A	A	176958155	2	1	48	1	0	0	0	0	0	0	0	1	7338	1103	39	1		1	HOXD13	2	176958155	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	971898	176958155	66241218	100	35980											
TTN	7273	broad.mit.edu	37	chr2	179416766	179416766	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcatctttgactagattAggaactttgaaagtcgttct	11	15	8	7	1	3	3	1	2	2	1	4	4	3	4	0	1	2	2	0	1	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:179416766A>T	uc010zfg.1	-	284	83381	c.83157T>A	c.(83155-83157)CCT>CCA	p.P27719P	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.P21414P|TTN_uc010zfi.1_Silent_p.P21347P|TTN_uc010zfj.1_Silent_p.P21222P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28646							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGACTAGATTAGGAACTTTGA	0.428													3	51					0	0	0.000602	0	0		T	179416766	T	T	179416766	2	4	48	1	0	0	0	0	0	0	0	1	16761	407	15	5		5	TTN	2	179416766	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	2458611	179416766	63782607	101	35981											
TTN	7273	broad.mit.edu	37	chr2	179439492	179439492	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctaatccagtagtaaggcgGgtggctttataggtagtacg	10	12	13	6	2	1	0	0	0	1	0	2	0	2	0	1	4	1	5	1	4	7	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:179439492G>A	uc010zfg.1	-	275	63887	c.63663C>T	c.(63661-63663)ACC>ACT	p.T21221T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.T14916T|TTN_uc010zfi.1_Silent_p.T14849T|TTN_uc010zfj.1_Silent_p.T14724T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22148							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAGTAAGGCGGGTGGCTTTAT	0.448													23	50					0	0	0.004656	0	0		A	179439492	A	A	179439492	2	1	48	1	0	0	0	0	0	0	0	1	16761	1219	43	4		4	TTN	2	179439492	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	22726	179439492	63759881	102	35982											
TTN	7273	broad.mit.edu	37	chr2	179481660	179481660	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccttggatagcctgtacTtggaaccaggatcgtgatag	9	11	13	8	1	0	1	0	1	0	0	1	4	0	4	3	4	3	1	3	4	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:179481660T>G	uc010zfg.1	-	205	40476	c.40252A>C	c.(40252-40254)AGT>CGT	p.S13418R	TTN_uc010zfh.1_Missense_Mutation_p.S7113R|TTN_uc010zfi.1_Missense_Mutation_p.S7046R|TTN_uc010zfj.1_Missense_Mutation_p.S6921R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14345							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAGCCTGTACTTGGAACCAGG	0.423													43	105					0	0	0.01441	0	0		G	179481660	G	G	179481660	3	3	48	1	0	0	0	0	1	0	0	0	16761	1609	56	5	60165	5	TTN	2	179481660	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	42168	179481660	63717713	103	35983											
TTN	7273	broad.mit.edu	37	chr2	179604456	179604456	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccatttcttcttgcaaacTtgttttggctccttgctgaa	7	18	6	10	0	2	1	0	1	2	0	4	1	4	1	2	1	3	4	2	1	2	7			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:179604456T>C	uc010zfh.1	-	46	13215	c.12991A>G	c.(12991-12993)AGT>GGT	p.S4331G	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.S4264G|TTN_uc010zfj.1_Missense_Mutation_p.S4139G|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	4256							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTTGCAAACTTGTTTTGGCT	0.388													4	197					0	0	0.009096	0	0		C	179604456	C	C	179604456	3	2	48	1	0	0	0	0	1	0	0	0	16761	1609	56	3	91285	3	TTN	2	179604456	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	122796	179604456	63594917	104	35984											
ASNSD1	54529	broad.mit.edu	37	chr2	190531174	190531174	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctcctgtaagaatgaaTctgagattttgtcactcttc	9	17	6	9	0	3	3	1	2	2	2	6	4	5	3	2	0	0	1	2	0	3	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:190531174T>C	uc002uqt.2	+	4	750	c.316T>C	c.(316-318)TCT>CCT	p.S106P		NM_019048	NP_061921	Q9NWL6	ASND1_HUMAN	asparagine synthetase domain containing 1	106	Glutamine amidotransferase type-2.				asparagine biosynthetic process|glutamine metabolic process		asparagine synthase (glutamine-hydrolyzing) activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0449)|all cancers(119;0.118)			TAAGAATGAATCTGAGATTTT	0.328													13	72					0	0	0.013537	0	0		C	190531174	C	C	190531174	3	2	48	1	0	0	0	0	1	0	0	0	1050	1435	50	3	318	3	ASNSD1	2	190531174	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	10926718	190531174	52668199	105	35985											
DNAH7	56171	broad.mit.edu	37	chr2	196759791	196759791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaatcataaaaccatgaCgcacaatcatcatttcatat	18	10	2	11	1	4	1	4	1	0	0	4	1	4	1	1	0	2	1	1	0	6	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:196759791C>T	uc002utj.3	-	30	4906	c.4805G>A	c.(4804-4806)CGT>CAT	p.R1602H		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1602	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AAAACCATGACGCACAATCAT	0.373													8	28					0	0	0.004482	0	0		T	196759791	T	T	196759791	3	4	48	1	0	0	0	0	1	0	0	0	4612	536	19	1	7413	1	DNAH7	2	196759791	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	6228617	196759791	46439582	106	35986											
ALS2CR11	151254	broad.mit.edu	37	chr2	202436664	202436664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagacttaaaacacttacGtcacgggatctgttctttct	11	13	7	10	3	4	1	1	0	3	1	4	3	4	2	0	1	2	1	0	1	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:202436664G>A	uc002uye.2	-	8	881	c.833C>T	c.(832-834)ACA>ATA	p.T278I	ALS2CR11_uc002uyf.2_Missense_Mutation_p.T278I|ALS2CR11_uc010fti.2_Missense_Mutation_p.T278I	NM_152525	NP_689738	Q53TS8	AL2SA_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	278										large_intestine(1)|ovary(1)|skin(1)	3						AAACACTTACGTCACGGGATC	0.353													15	26					0	0	0.003163	0	0		A	202436664	A	A	202436664	3	1	48	1	0	0	0	0	1	0	0	0	552	1159	40	1	4812	1	ALS2CR11	2	202436664	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5676873	202436664	40762709	107	35987											
ACADL	33	broad.mit.edu	37	chr2	211069401	211069401	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaaagaatagttctgcGgtatcctaagagaccataca	14	11	7	9	1	3	2	1	0	2	2	4	3	4	2	2	1	2	2	2	1	6	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:211069401G>A	uc002vdz.3	-	7	1002	c.774C>T	c.(772-774)ACC>ACT	p.T258T		NM_001608	NP_001599	P28330	ACADL_HUMAN	long-chain acyl-CoA dehydrogenase precursor	258					carnitine catabolic process|carnitine metabolic process, CoA-linked|fatty acid beta-oxidation using acyl-CoA dehydrogenase|negative regulation of fatty acid biosynthetic process|negative regulation of fatty acid oxidation|regulation of cholesterol metabolic process|temperature homeostasis	mitochondrial matrix	long-chain-acyl-CoA dehydrogenase activity|palmitoyl-CoA oxidase activity				0		Renal(323;0.202)		Epithelial(149;0.00631)|Lung(261;0.0438)|LUSC - Lung squamous cell carcinoma(261;0.0466)|all cancers(144;0.0621)		ATAGTTCTGCGGTATCCTAAG	0.279													4	53					0	0	0.000602	0	0		A	211069401	A	A	211069401	2	1	48	1	0	0	0	0	0	0	0	1	112	1103	39	1		1	ACADL	2	211069401	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	8632737	211069401	32129972	108	35988											
ERBB4	2066	broad.mit.edu	37	chr2	212615400	212615400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtgggtccccagcaacGgccagtacaggacttatggc	8	9	12	12	1	1	0	0	0	1	0	2	1	2	1	3	4	3	2	3	4	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:212615400G>A	uc002veg.1	-	5	684	c.586C>T	c.(586-588)CGT>TGT	p.R196C	ERBB4_uc002veh.1_Missense_Mutation_p.R196C|ERBB4_uc010zji.1_Missense_Mutation_p.R196C|ERBB4_uc010zjj.1_Missense_Mutation_p.R196C|ERBB4_uc010fut.1_Missense_Mutation_p.R196C	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	196	Cys-rich.|Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CCCCAGCAACGGCCAGTACAG	0.453										TSP Lung(8;0.080)			18	40					0	0	0.014323	0	0		A	212615400	A	A	212615400	3	1	48	1	0	0	0	0	1	0	0	0	5217	1116	39	1	3436	1	ERBB4	2	212615400	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1545999	212615400	30583973	109	35989											
OBSL1	23363	broad.mit.edu	37	chr2	220430066	220430066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatcagacggtgtttgcGcccatccatcttcaccacca	9	9	8	15	2	3	1	2	0	1	1	4	2	4	2	4	2	1	1	4	2	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:220430066G>A	uc010fwk.2	-	6	2362	c.2305C>T	c.(2305-2307)CGC>TGC	p.R769C	OBSL1_uc010zli.1_5'Flank|OBSL1_uc010fwl.1_Missense_Mutation_p.R244C|OBSL1_uc002vmi.2_Missense_Mutation_p.R769C|OBSL1_uc002vmj.2_Missense_Mutation_p.R356C	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	769	Ig-like 5.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		CGGTGTTTGCGCCCATCCATC	0.587											OREG0003987	type=REGULATORY REGION|Gene=BC061909|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	25	56					0	0	0.00632	0	0		A	220430066	A	A	220430066	3	1	48	1	0	0	0	0	1	0	0	0	10832	1087	38	1	3601	1	OBSL1	2	220430066	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	7814666	220430066	22769307	110	35990											
OBSL1	23363	broad.mit.edu	37	chr2	220434995	220434995	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcccgccgagttgcgcgcGgcgcagacgtagagcccacg	6	4	16	15	8	0	2	0	0	0	2	0	3	0	2	3	2	2	3	3	2	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:220434995G>A	uc010fwk.2	-	1	1017	c.960C>T	c.(958-960)GCC>GCT	p.A320A	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Silent_p.A320A|OBSL1_uc002vmj.2_Intron|INHA_uc002vmk.1_5'Flank	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	320	Ig-like 3.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		AGTTGCGCGCGGCGCAGACGT	0.697													6	8					0	0	0.001168	0	0		A	220434995	A	A	220434995	2	1	48	1	0	0	0	0	0	0	0	1	10832	1103	39	1		1	OBSL1	2	220434995	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4929	220434995	22764378	111	35991											
CHRNG	1146	broad.mit.edu	37	chr2	233409277	233409277	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagggctggtggcggcagcGctggagaagctaggtgagac	9	5	19	8	2	0	2	0	1	0	2	0	4	0	2	0	6	2	4	0	6	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:233409277G>A	uc002vsx.1	+	10	1257	c.1236G>A	c.(1234-1236)GCG>GCA	p.A412A	CHRNG_uc010fye.1_Silent_p.A360A	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	412	Cytoplasmic (Potential).				muscle contraction	cell junction|postsynaptic membrane	acetylcholine receptor activity				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;6.39e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00079)|LUSC - Lung squamous cell carcinoma(224;0.00757)|Lung(119;0.0086)		TGGCGGCAGCGCTGGAGAAGC	0.652													11	18					0	0	0.001855	0	0		A	233409277	A	A	233409277	2	1	48	1	0	0	0	0	0	0	0	1	3399	1074	38	1		1	CHRNG	2	233409277	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	12974282	233409277	9790096	112	35992											
UGT1A1	54658	broad.mit.edu	37	chr2	234669110	234669110	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggggacatgaaatagttgtCctagcacctgacgcctcgtt	10	10	11	10	2	0	2	0	2	0	0	2	3	1	3	3	2	1	3	3	2	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:234669110C>T	uc002vvb.2	+	1	192	c.177C>T	c.(175-177)GTC>GTT	p.V59V	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron|UGT1A9_uc002vva.2_Intron|UGT1A1_uc010znc.1_Silent_p.V59V	NM_000463	NP_000454	P22309	UD11_HUMAN	UDP glycosyltransferase 1 family, polypeptide A1	59					bilirubin conjugation|digestion|estrogen metabolic process|flavone metabolic process|heme catabolic process	endoplasmic reticulum membrane|microsome	enzyme binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding|steroid binding			central_nervous_system(1)|skin(1)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;4.1e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000435)|Lung(119;0.00211)|LUSC - Lung squamous cell carcinoma(224;0.0054)	Abacavir(DB01048)|Adenine(DB00173)|Diclofenac(DB00586)|Estradiol(DB00783)|Ezetimibe(DB00973)|Irinotecan(DB00762)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Propofol(DB00818)|Rifampin(DB01045)|Troglitazone(DB00197)	AAATAGTTGTCCTAGCACCTG	0.522													36	67					0	0	0.003271	0	0		T	234669110	T	T	234669110	2	4	48	1	0	0	0	0	0	0	0	1	16970	842	30	4		4	UGT1A1	2	234669110	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1259833	234669110	8530263	113	35993											
GBX2	2637	broad.mit.edu	37	chr2	237075034	237075034	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccttgcccttcgggtcGtcttccacctttgactcgtc	2	15	7	17	3	1	1	0	1	1	0	8	1	4	1	5	1	1	0	5	1	0	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:237075034G>A	uc002vvw.1	-	2	608	c.570C>T	c.(568-570)GAC>GAT	p.D190D	GBX2_uc010zng.1_Nonsense_Mutation_p.R193*	NM_001485	NP_001476	P52951	GBX2_HUMAN	gastrulation brain homeo box 2	190				LPPAHPHHQIPSLPTGFCSSLAQGMALTSTLMATLPGGFSA SPQHQEAAAARKFAPQPLPGGGNFDKAEALQADAEDGKGFL AKEGSLLAFSAAETVQASLVGAVRGQGKDESKVEDDPKG -> CRPHTLTTRSPACPQASAPAWRRAWRSPLRSWPRSPAA SPRRPSTRRRQRPASSRRSRCPAAVTSTRRRRCRLTRRTAK ASWPKRARCSPSPRPRRCRLRSSGLSEGKGKTSQRWKTTRS (in Ref. 1; AAC03241).		nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Breast(86;0.00235)|Renal(207;0.00339)|all_hematologic(139;0.00357)|all_lung(227;0.0616)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|Lung NSC(271;0.179)		Epithelial(121;4.5e-25)|OV - Ovarian serous cystadenocarcinoma(60;5.16e-11)|BRCA - Breast invasive adenocarcinoma(100;3.4e-05)|Lung(119;0.00195)|LUSC - Lung squamous cell carcinoma(224;0.00471)		CCTTCGGGTCGTCTTCCACCT	0.542													42	71					0	0	0.013114	0	0		A	237075034	A	A	237075034	2	1	48	1	0	0	0	0	0	0	0	1	6296	1136	40	1		1	GBX2	2	237075034	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2405924	237075034	6124339	114	35994											
COL6A3	1293	broad.mit.edu	37	chr2	238274488	238274488	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagtcaaaggcctccacCgggcccgagggcgtgttggc	8	6	14	13	3	2	0	2	0	0	0	3	1	3	0	4	4	0	1	4	4	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr2:238274488C>T	uc002vwl.2	-	12	5976	c.5691G>A	c.(5689-5691)CCG>CCA	p.P1897P	COL6A3_uc002vwo.2_Silent_p.P1691P|COL6A3_uc010znj.1_Silent_p.P1290P	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1897	VWFA 10.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AGGCCTCCACCGGGCCCGAGG	0.627													18	62					0	0	0.010504	0	0		T	238274488	T	T	238274488	2	4	48	1	0	0	0	0	0	0	0	1	3704	639	23	1		1	COL6A3	2	238274488	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1199454	238274488	4924885	115	35995											
ITPR1	3708	broad.mit.edu	37	chr3	4816936	4816936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaattgcagaacttcctccGttgccaaaataacaagacca	15	8	5	13	1	0	2	0	0	0	2	2	2	2	2	5	0	4	2	5	0	6	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:4816936G>A	uc003bqa.2	+	44	6194	c.5846G>A	c.(5845-5847)CGT>CAT	p.R1949H	ITPR1_uc010hca.1_Missense_Mutation_p.R1934H|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.R919H	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1997	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		AACTTCCTCCGTTGCCAAAAT	0.483													9	123					0	0	0.008291	0	0		A	4816936	A	A	4816936	3	1	48	1	0	0	0	0	1	0	0	0	7936	1145	40	1	6168	1	ITPR1	3	4816936	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08		4816936	193205494	116	35996											
THUMPD3	25917	broad.mit.edu	37	chr3	9426229	9426229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgttatctggaatgcgacacGtatggcgaaaggtggataca	12	9	13	7	4	1	0	0	0	1	0	1	4	1	2	0	4	2	2	0	4	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:9426229G>A	uc003bro.3	+	10	1529	c.1381G>A	c.(1381-1383)GTA>ATA	p.V461I	LOC440944_uc003brm.2_Intron|THUMPD3_uc003brn.3_Missense_Mutation_p.V461I	NM_001114092	NP_001107564	Q9BV44	THUM3_HUMAN	THUMP domain containing 3	461							methyltransferase activity|protein binding|RNA binding			ovary(1)	1	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.101)		AATGCGACACGTATGGCGAAA	0.418													77	167					0	0	0.01441	0	0		A	9426229	A	A	9426229	3	1	48	1	0	0	0	0	1	0	0	0	15909	1145	40	1	1415	1	THUMPD3	3	9426229	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4609293	9426229	188596201	117	35997											
NUP210	23225	broad.mit.edu	37	chr3	13438890	13438890	+	Frame_Shift_Del	DEL	G	-	-																															ggcctggatcttcagctccaGgggggagtcctccaggtaga																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:13438890delG	uc003bxv.1	-	3	486	c.403delC	c.(403-405)CTGfs	p.L135fs		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	135	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					TTCAGCTCCAGGGGGGAGTCC	0.602													26	45	---	---	---	---						.	-	13438890	-	-	13438890	7	5	48	1	0	1	0	1	0	0	0	0	10779	991	35	0	5412	0	NUP210	3	13438890	Frame_Shift_Del	DEL	G	TCGA-BR-7703-01A-11D-2053-08	4012661	13438890	184583540	118	35998											
SATB1	6304	broad.mit.edu	37	chr3	18391065	18391065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgctggagaggccaccGtgggttgccgtggggggagc	5	7	19	10	2	1	1	0	0	1	1	1	3	1	2	3	6	3	2	3	6	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:18391065G>A	uc003cbh.2	-	11	3624	c.1889C>T	c.(1888-1890)ACG>ATG	p.T630M	SATB1_uc003cbi.2_Missense_Mutation_p.T662M|SATB1_uc003cbj.2_Missense_Mutation_p.T630M	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	630					cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						AGAGGCCACCGTGGGTTGCCG	0.502													12	26					0	0	0.00245	0	0		A	18391065	A	A	18391065	3	1	48	1	0	0	0	0	1	0	0	0	13878	1145	40	1	406	1	SATB1	3	18391065	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4952175	18391065	179631365	119	35999											
KCNH8	131096	broad.mit.edu	37	chr3	19389429	19389429	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagcacaaccgtcagtgaCattgcagtggagattctttt	10	11	11	9	2	2	2	1	1	1	1	2	4	2	3	1	2	3	2	1	2	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:19389429C>T	uc003cbk.1	+	5	978	c.783C>T	c.(781-783)GAC>GAT	p.D261D	KCNH8_uc011awe.1_Silent_p.D261D|KCNH8_uc010hex.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	261	Helical; Name=Segment S2; (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						CCGTCAGTGACATTGCAGTGG	0.403													22	54					0	0	0.00278	0	0		T	19389429	T	T	19389429	2	4	48	1	0	0	0	0	0	0	0	1	8054	477	17	4		4	KCNH8	3	19389429	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	998364	19389429	178633001	120	36000											
KCNH8	131096	broad.mit.edu	37	chr3	19554720	19554720	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attcccccaaaaccaagcagGaaattgacccccccaaccat	15	5	4	17	0	0	1	0	1	0	0	1	2	1	2	7	1	3	1	7	1	5	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:19554720G>T	uc003cbk.1	+	13	2533	c.2338G>T	c.(2338-2340)GAA>TAA	p.E780*	KCNH8_uc010hex.1_Nonsense_Mutation_p.E241*	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	780	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						AACCAAGCAGGAAATTGACCC	0.478													29	52					5.45727e-16	6.07507e-16	0.008361	1	0		T	19554720	T	T	19554720	4	4	48	1	0	0	0	0	0	1	0	0	8054	1175	41	5	2388	5	KCNH8	3	19554720	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	165291	19554720	178467710	121	36001											
TGFBR2	7048	broad.mit.edu	37	chr3	30713880	30713880	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgactttgggctttcccTgcgtctggaccctactctgt	3	15	11	12	1	2	1	0	1	2	0	3	2	3	2	2	2	2	1	2	2	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:30713880T>C	uc003ceo.2	+	4	1587	c.1205T>C	c.(1204-1206)CTG>CCG	p.L402P	TGFBR2_uc003cen.2_Missense_Mutation_p.L427P	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	402	Protein kinase.|Cytoplasmic (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						GGGCTTTCCCTGCGTCTGGAC	0.562													7	264					0	0	0.008291	0	0		C	30713880	C	C	30713880	3	2	48	1	0	0	0	0	1	0	0	0	15847	1580	55	3	1298	3	TGFBR2	3	30713880	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	11159160	30713880	167308550	122	36002											
CNOT10	25904	broad.mit.edu	37	chr3	32806209	32806209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtgctaccccagttccGtcaactctgccaggactgtg	7	10	9	15	1	3	0	2	0	1	0	4	1	4	1	4	1	4	2	4	1	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:32806209G>A	uc003cfc.1	+	17	2167	c.1912G>A	c.(1912-1914)GTC>ATC	p.V638I	CNOT10_uc003cfd.1_Missense_Mutation_p.V637I|CNOT10_uc003cfe.1_Missense_Mutation_p.V611I|CNOT10_uc010hfv.1_RNA|CNOT10_uc011axj.1_Missense_Mutation_p.V698I|CNOT10_uc010hfw.1_Missense_Mutation_p.V333I	NM_015442	NP_056257	Q9H9A5	CNOTA_HUMAN	CCR4-NOT transcription complex, subunit 10	638					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	protein binding			central_nervous_system(1)|skin(1)	2						CCCCAGTTCCGTCAACTCTGC	0.557													5	163					0	0	0.001168	0	0		A	32806209	A	A	32806209	3	1	48	1	0	0	0	0	1	0	0	0	3621	1145	40	1	1978	1	CNOT10	3	32806209	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2092329	32806209	165216221	123	36003											
VILL	50853	broad.mit.edu	37	chr3	38045884	38045884	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcatgttactggacacctgGcaggaggtaaggtggccatc	10	9	13	9	0	1	0	1	0	0	0	2	2	1	2	2	6	1	3	2	6	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:38045884G>A	uc003chj.2	+	16	2230	c.1944G>A	c.(1942-1944)TGG>TGA	p.W648*	VILL_uc003chl.2_Nonsense_Mutation_p.W648*	NM_015873	NP_056957	O15195	VILL_HUMAN	villin-like protein	648	Gelsolin-like 6.				actin filament capping|cytoskeleton organization	actin cytoskeleton	actin binding|structural constituent of cytoskeleton				0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		TGGACACCTGGCAGGAGGTAA	0.562											OREG0015475	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	34					0	0	0.010729	0	0		A	38045884	A	A	38045884	4	1	48	1	0	0	0	0	0	1	0	0	17191	1212	42	2	2002	2	VILL	3	38045884	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5239675	38045884	159976546	124	36004											
SCN5A	6331	broad.mit.edu	37	chr3	38591857	38591857	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccggagaaggggggaagtcGgcgagatcttcactgtggct	8	8	17	8	3	2	2	1	0	1	2	4	5	3	3	1	6	0	1	1	6	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:38591857G>A	uc003cio.2	-	28	6200	c.6006C>T	c.(6004-6006)GCC>GCT	p.A2002A	SCN5A_uc003cin.2_Silent_p.A2001A|SCN5A_uc003cil.3_Silent_p.A2002A|SCN5A_uc010hhi.2_Silent_p.A1984A|SCN5A_uc010hhk.2_Silent_p.A1969A|SCN5A_uc011ayr.1_Silent_p.A1948A	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	2002					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	GGGGGAAGTCGGCGAGATCTT	0.592													27	78					0	0	0.003271	0	0		A	38591857	A	A	38591857	2	1	48	1	0	0	0	0	0	0	0	1	13947	1103	39	1		1	SCN5A	3	38591857	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	545973	38591857	159430573	125	36005											
WDR48	57599	broad.mit.edu	37	chr3	39135499	39135501	+	In_Frame_Del	DEL	AAG	-	-																															aaaaccaggagaacaggaaaAagaagaagatattgctgtgt																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:39135499_39135501delAAG	uc003cit.2	+	18	1890_1892	c.1880_1882delAAG	c.(1879-1884)AAAGAA>AAA	p.E629del	WDR48_uc011ayt.1_In_Frame_Del_p.E620del|WDR48_uc011ayu.1_In_Frame_Del_p.E547del|WDR48_uc011ayv.1_In_Frame_Del_p.E354del|WDR48_uc003ciu.2_RNA	NM_020839	NP_065890	Q8TAF3	WDR48_HUMAN	WD repeat domain 48	629					interspecies interaction between organisms|protein deubiquitination	lysosome|nucleus	protein binding			ovary(1)|breast(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		GAACAGGAAAAAGAAGAAGATAT	0.389													22	42	---	---	---	---						.	-	39135501	-	-	39135499	7	5	48	1	0	1	0	1	0	0	0	0	17327	14	1	0	1950	0	WDR48	3	39135499	In_Frame_Del	DEL	AAG	TCGA-BR-7703-01A-11D-2053-08	543642	39135499	158886931	126	36006											
GORASP1	64689	broad.mit.edu	37	chr3	39145036	39145038	+	In_Frame_Del	DEL	CTC	-	-																															gcctgctgggctggggagttCtcctgcacctatcccacagc																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:39145036_39145038delCTC	uc003ciw.1	-	2	168_170	c.70_72delGAG	c.(70-72)GAGdel	p.E24del	GORASP1_uc003civ.1_RNA|GORASP1_uc003cix.1_RNA|GORASP1_uc003ciy.1_RNA|GORASP1_uc011ayw.1_Intron|GORASP1_uc003ciz.1_Intron	NM_031899	NP_114105	Q9BQQ3	GORS1_HUMAN	Golgi reassembly stacking protein 1	24	PDZ.				mitotic prophase|protein transport	cytosol|Golgi apparatus|membrane				ovary(2)|central_nervous_system(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		CTGGGGAGTTCTCCTGCACCTAT	0.591													22	46	---	---	---	---						.	-	39145038	-	-	39145036	7	5	48	1	0	1	0	1	0	0	0	0	6590	912	32	0	1282	0	GORASP1	3	39145036	In_Frame_Del	DEL	CTC	TCGA-BR-7703-01A-11D-2053-08	9537	39145036	158877394	127	36007											
NKTR	4820	broad.mit.edu	37	chr3	42674107	42674107	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaagtttttgagaaaaaaAggaagaaaccaactcattca	21	9	6	5	0	2	2	2	1	0	2	2	4	2	3	1	1	2	1	1	1	8	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:42674107A>G	uc003clo.2	+	9	712	c.565A>G	c.(565-567)AGG>GGG	p.R189G	NKTR_uc003clm.1_5'UTR|NKTR_uc003clp.2_5'UTR|NKTR_uc011azp.1_Missense_Mutation_p.R79G|NKTR_uc003clq.1_Missense_Mutation_p.R79G|NKTR_uc003clr.1_5'UTR|NKTR_uc003cls.2_5'UTR	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	189					protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		TGAGAAAAAAAGGAAGAAACC	0.328													5	14					0	0	0.001168	0	0		G	42674107	G	G	42674107	3	3	48	1	0	0	0	0	1	0	0	0	10467	63	3	3	595	3	NKTR	3	42674107	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	3529071	42674107	155348323	128	36008											
CDCP1	64866	broad.mit.edu	37	chr3	45153659	45153659	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtaaggccattttcactcCttcttgcatcttgatccggg	6	15	9	11	1	3	1	1	1	2	0	5	1	5	1	3	2	1	2	3	2	1	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:45153659C>A	uc003com.2	-	3	706	c.571G>T	c.(571-573)GGA>TGA	p.G191*	CDCP1_uc003con.2_Nonsense_Mutation_p.G191*	NM_022842	NP_073753	Q9H5V8	CDCP1_HUMAN	CUB domain-containing protein 1 isoform 1	191	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		ATTTTCACTCCTTCTTGCATC	0.542													7	108					0.000157383	0.000163287	0.00308	1	0		A	45153659	A	A	45153659	4	1	48	1	0	0	0	0	0	1	0	0	3096	690	24	5	1975	5	CDCP1	3	45153659	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2479552	45153659	152868771	129	36009											
LIMD1	8994	broad.mit.edu	37	chr3	45637136	45637136	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtggcattggtggccgcagCagcgagaagccaacaggcct	10	5	15	11	2	0	1	0	0	0	1	0	2	0	1	3	4	4	3	3	4	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:45637136C>T	uc003coq.2	+	1	814	c.765C>T	c.(763-765)AGC>AGT	p.S255S		NM_014240	NP_055055	Q9UGP4	LIMD1_HUMAN	LIM domains containing 1	255					cytoplasmic mRNA processing body assembly|gene silencing by miRNA|multicellular organismal development|negative regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasmic mRNA processing body|nucleus|RNA-induced silencing complex	protein binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.011)|KIRC - Kidney renal clear cell carcinoma(197;0.0264)|Kidney(197;0.0315)		GTGGCCGCAGCAGCGAGAAGC	0.632													12	56					0	0	0.004007	0	0		T	45637136	T	T	45637136	2	4	48	1	0	0	0	0	0	0	0	1	8814	709	25	2		2	LIMD1	3	45637136	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	483477	45637136	152385294	130	36010											
LZTFL1	54585	broad.mit.edu	37	chr3	45877148	45877148	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagcttgtgcaaacagcTgtcgcagaagtaacacattg	12	10	9	10	1	1	1	1	0	1	1	3	1	1	1	0	0	5	5	0	0	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:45877148T>C	uc003cox.1	-	3	395	c.257A>G	c.(256-258)CAG>CGG	p.Q86R	LZTFL1_uc003coy.1_Missense_Mutation_p.Q69R|LZTFL1_uc011bak.1_RNA	NM_020347	NP_065080	Q9NQ48	LZTL1_HUMAN	leucine zipper transcription factor-like 1	86											0				BRCA - Breast invasive adenocarcinoma(193;0.00867)|KIRC - Kidney renal clear cell carcinoma(197;0.0177)|Kidney(197;0.0208)		TGCAAACAGCTGTCGCAGAAG	0.413													5	113					0	0	0.001168	0	0		C	45877148	C	C	45877148	3	2	48	1	0	0	0	0	1	0	0	0	9154	1580	55	3	674	3	LZTFL1	3	45877148	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	240012	45877148	152145282	131	36011											
LTF	4057	broad.mit.edu	37	chr3	46497878	46497878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catcaagggtcacagcatcgGccctgttttcctgaaagtaa	11	10	9	11	1	2	1	2	1	0	0	4	1	3	1	2	2	1	3	2	2	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:46497878G>A	uc003cpq.2	-	3	256	c.218C>T	c.(217-219)GCC>GTC	p.A73V	LTF_uc003fzr.2_Missense_Mutation_p.A29V|LTF_uc010hjh.2_Missense_Mutation_p.A73V|LTF_uc003cpr.2_Missense_Mutation_p.A60V	NM_002343	NP_002334	P02788	TRFL_HUMAN	lactotransferrin precursor	73	Transferrin-like 1.				cellular iron ion homeostasis|defense response to bacterium|humoral immune response|iron ion transport	extracellular region|stored secretory granule	ferric iron binding|heparin binding|protein binding|serine-type endopeptidase activity			central_nervous_system(2)|ovary(1)|lung(1)	4				all cancers(1;7.55e-14)|GBM - Glioblastoma multiforme(1;2.1e-09)|Epithelial(1;9.25e-07)|Colorectal(1;3.81e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00129)|COAD - Colon adenocarcinoma(1;0.00308)|KIRC - Kidney renal clear cell carcinoma(197;0.0205)|Kidney(197;0.0242)|OV - Ovarian serous cystadenocarcinoma(275;0.089)	Pefloxacin(DB00487)	CACAGCATCGGCCCTGTTTTC	0.542													12	36					0	0	0.013537	0	0		A	46497878	A	A	46497878	3	1	48	1	0	0	0	0	1	0	0	0	9097	1203	42	2	1974	2	LTF	3	46497878	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	620730	46497878	151524552	132	36012											
KIF9	64147	broad.mit.edu	37	chr3	47277592	47277592	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctggcttcagtgccatctGcatgtcctcagggatgacaa	8	10	11	12	0	3	1	2	1	1	0	4	2	4	2	3	2	2	2	3	2	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:47277592G>A	uc010hjp.2	-	20	2753	c.2149C>T	c.(2149-2151)CAG>TAG	p.Q717*	KIF9_uc003cqx.2_Nonsense_Mutation_p.Q717*|KIF9_uc003cqy.2_Nonsense_Mutation_p.Q652*|KIF9_uc011bat.1_RNA|uc003cqw.1_RNA	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	717					blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		AGTGCCATCTGCATGTCCTCA	0.567													26	56					0	0	0.013726	0	0		A	47277592	A	A	47277592	4	1	48	1	0	0	0	0	0	1	0	0	8326	1328	46	2	235	2	KIF9	3	47277592	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	779714	47277592	150744838	133	36013											
ZNF589	51385	broad.mit.edu	37	chr3	48310025	48310025	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttatgtctgcggagagtgtGggcgaggctttatagttgag	7	13	16	5	2	1	2	0	1	1	1	1	4	1	2	0	3	1	2	0	3	3	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:48310025G>T	uc003csl.3	+	4	910	c.844G>T	c.(844-846)GGG>TGG	p.G282W	ZNF589_uc010hjt.1_Missense_Mutation_p.G279W|ZNF589_uc003csn.2_RNA|ZNF589_uc011bbg.1_Intron|ZNF589_uc003csm.2_Intron	NM_016089	NP_057173	Q86UQ0	ZN589_HUMAN	zinc finger protein 589	282	C2H2-type 2.				regulation of transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000649)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CGGAGAGTGTGGGCGAGGCTT	0.547													17	62					3.45872e-05	3.62244e-05	0.004007	1	0		T	48310025	T	T	48310025	3	4	48	1	0	0	0	0	1	0	0	0	18046	1348	47	5	858	5	ZNF589	3	48310025	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1032433	48310025	149712405	134	36014											
MAPKAPK3	7867	broad.mit.edu	37	chr3	50683579	50683579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccttcccccagcctttgtgGcttcccacccttctactcca	4	12	4	21	0	1	0	0	0	1	0	4	0	4	0	7	1	2	1	7	1	1	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:50683579G>A	uc003day.1	+	10	1309	c.713G>A	c.(712-714)GGC>GAC	p.G238D	MAPKAPK3_uc003daz.1_Missense_Mutation_p.G238D|MAPKAPK3_uc003dba.1_Missense_Mutation_p.G238D|MAPKAPK3_uc010hlr.1_Missense_Mutation_p.G238D	NM_004635	NP_004626	Q16644	MAPK3_HUMAN	mitogen-activated protein kinase-activated	238	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.0188)|Kidney(197;0.0223)		AGCCTTTGTGGCTTCCCACCC	0.607													9	304					0	0	0.010729	0	0		A	50683579	A	A	50683579	3	1	48	1	0	0	0	0	1	0	0	0	9308	1203	42	2	739	2	MAPKAPK3	3	50683579	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2373554	50683579	147338851	135	36015											
TLR9	54106	broad.mit.edu	37	chr3	52257585	52257585	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggcaatttccgcccacatcGagcacacgcagggcggtcag	9	5	12	15	5	1	0	1	0	0	0	3	1	2	0	2	3	1	3	2	3	1	1	rs140856643	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:52257585G>A	uc003dda.1	-	2	1381	c.747C>T	c.(745-747)CTC>CTT	p.L249L	TLR9_uc003ddb.2_Silent_p.L346L	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	249	LRR 8.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	CGCCCACATCGAGCACACGCA	0.622													8	12					0	0	0.004482	0	0		A	52257585	A	A	52257585	2	1	48	1	0	0	0	0	0	0	0	1	15983	1045	37	1		1	TLR9	3	52257585	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1574006	52257585	145764845	136	36016											
NISCH	11188	broad.mit.edu	37	chr3	52523363	52523363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatacagcaatgaccagcGtccccaggaggtcccagcag	11	4	13	13	1	0	1	0	1	0	0	2	3	2	3	4	3	4	2	4	3	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:52523363G>A	uc011beg.1	+	18	3197	c.3125G>A	c.(3124-3126)CGT>CAT	p.R1042H	NISCH_uc003ded.3_Missense_Mutation_p.R1042H|NISCH_uc003dee.3_Missense_Mutation_p.R531H|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_5'Flank	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	1042					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		AATGACCAGCGTCCCCAGGAG	0.343													16	36					0	0	0.006122	0	0		A	52523363	A	A	52523363	3	1	48	1	0	0	0	0	1	0	0	0	10451	1145	40	1	3191	1	NISCH	3	52523363	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	265778	52523363	145499067	137	36017											
GLT8D1	55830	broad.mit.edu	37	chr3	52730572	52730572	+	Frame_Shift_Del	DEL	C	-	-																															actcacaggtttcatggattCcccctggtcaggatcctcct																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:52730572delC	uc003dfi.3	-	5	572	c.433delG	c.(433-435)GAAfs	p.E145fs	GLT8D1_uc003dfj.2_Frame_Shift_Del_p.E145fs|GLT8D1_uc003dfk.2_Frame_Shift_Del_p.E145fs|GLT8D1_uc003dfl.2_Frame_Shift_Del_p.E145fs|GLT8D1_uc003dfm.2_Frame_Shift_Del_p.E145fs|GLT8D1_uc003dfn.2_Frame_Shift_Del_p.E145fs|GLT8D1_uc003dfo.1_Frame_Shift_Del_p.E145fs	NM_152932	NP_690909	Q68CQ7	GL8D1_HUMAN	glycosyltransferase 8 domain containing 1	145	Lumenal (Potential).					integral to membrane|mitochondrion	transferase activity, transferring glycosyl groups				0				BRCA - Breast invasive adenocarcinoma(193;6.78e-05)|Kidney(197;0.000618)|KIRC - Kidney renal clear cell carcinoma(197;0.000779)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		TTCATGGATTCCCCCTGGTCA	0.418													22	42	---	---	---	---						.	-	52730572	-	-	52730572	7	5	48	1	0	1	0	1	0	0	0	0	6484	864	30	0	706	0	GLT8D1	3	52730572	Frame_Shift_Del	DEL	C	TCGA-BR-7703-01A-11D-2053-08	207209	52730572	145291858	138	36018											
CACNA1D	776	broad.mit.edu	37	chr3	53766961	53766961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccatccctgaagggagcGctttcttcattcttagcaag	8	11	8	14	1	3	1	1	1	2	0	4	2	4	2	3	1	2	2	3	1	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:53766961G>A	uc003dgv.3	+	19	2756	c.2593G>A	c.(2593-2595)GCT>ACT	p.A865T	CACNA1D_uc003dgu.3_Missense_Mutation_p.A885T|CACNA1D_uc003dgy.3_Missense_Mutation_p.A865T|CACNA1D_uc003dgw.3_Missense_Mutation_p.A532T|CACNA1D_uc003dgx.1_Missense_Mutation_p.A13T	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	865	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	TGAAGGGAGCGCTTTCTTCAT	0.507													4	44					0	0	0.000602	0	0		A	53766961	A	A	53766961	3	1	48	1	0	0	0	0	1	0	0	0	2544	1087	38	1	2839	1	CACNA1D	3	53766961	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1036389	53766961	144255469	139	36019											
CCDC66	285331	broad.mit.edu	37	chr3	56651334	56651334	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacaatcggtgtaatgacCagtgtaatcagttcacaaga	17	9	8	7	1	2	2	2	1	0	1	3	2	2	2	1	1	1	3	1	1	6	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:56651334C>T	uc003dhz.2	+	14	2125	c.2038C>T	c.(2038-2040)CAG>TAG	p.Q680*	CCDC66_uc003dhy.2_Nonsense_Mutation_p.Q316*|CCDC66_uc003dhu.2_Nonsense_Mutation_p.Q646*|CCDC66_uc003dhx.2_RNA|CCDC66_uc003dia.2_Nonsense_Mutation_p.Q48*	NM_001141947	NP_001135419	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66 isoform 1	680										breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		GTGTAATGACCAGTGTAATCA	0.353													10	17					0	0	0.008291	0	0		T	56651334	T	T	56651334	4	4	48	1	0	0	0	0	0	1	0	0	2841	595	21	4	2092	4	CCDC66	3	56651334	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2884373	56651334	141371096	140	36020											
FLNB	2317	broad.mit.edu	37	chr3	58121816	58121816	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatatgattggagtcacctaCgggggtgacgacatcccact	10	10	11	10	2	1	2	1	2	0	0	2	4	2	3	2	3	1	0	2	3	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:58121816C>T	uc003djj.2	+	28	4947	c.4782C>T	c.(4780-4782)TAC>TAT	p.Y1594Y	FLNB_uc010hne.2_Silent_p.Y1625Y|FLNB_uc003djk.2_Silent_p.Y1594Y|FLNB_uc010hnf.2_Silent_p.Y1594Y|FLNB_uc003djl.2_Silent_p.Y1425Y|FLNB_uc003djm.2_Silent_p.Y1425Y	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1594	Filamin 14.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		GAGTCACCTACGGGGGTGACG	0.537													15	36					0	0	0.003163	0	0		T	58121816	T	T	58121816	2	4	48	1	0	0	0	0	0	0	0	1	5948	547	19	1		1	FLNB	3	58121816	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1470482	58121816	139900614	141	36021											
CNTN3	5067	broad.mit.edu	37	chr3	74418379	74418379	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggcaacattttttcctcGtgaattctcagcaatgcatt	9	16	6	10	1	2	1	1	1	2	0	5	1	3	1	1	1	3	3	1	1	3	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:74418379G>A	uc003dpm.1	-	7	987	c.907C>T	c.(907-909)CGA>TGA	p.R303*		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	303	Ig-like C2-type 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		TTTTTTCCTCGTGAATTCTCA	0.398													12	24					0	0	0.003163	0	0		A	74418379	A	A	74418379	4	1	48	1	0	0	0	0	0	1	0	0	3645	1153	40	1	2243	1	CNTN3	3	74418379	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	16296563	74418379	123604051	142	36022											
OR5K1	26339	broad.mit.edu	37	chr3	98188635	98188635	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctggctcttgtggattcttGctgtgcctgtgctattaccc	3	17	10	11	0	3	0	0	0	3	0	3	1	3	1	2	2	4	3	2	2	2	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:98188635G>T	uc003dsm.2	+	1	215	c.215G>T	c.(214-216)TGC>TTC	p.C72F		NM_001004736	NP_001004736	Q8NHB7	OR5K1_HUMAN	olfactory receptor, family 5, subfamily K,	72	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)	1						GTGGATTCTTGCTGTGCCTGT	0.418													61	167					5.26073e-25	5.96126e-25	0.01441	1	0		T	98188635	T	T	98188635	3	4	48	1	0	0	0	0	1	0	0	0	11185	1319	46	5	217	5	OR5K1	3	98188635	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	23770256	98188635	99833795	143	36023											
PVRL3	25945	broad.mit.edu	37	chr3	110831167	110831167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaatacatctgcaaagctGttacattcccgcttggaaat	14	11	7	9	1	1	0	0	0	1	0	2	2	2	1	1	1	4	4	1	1	6	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:110831167G>A	uc003dxt.1	+	2	451	c.451G>A	c.(451-453)GTT>ATT	p.V151I	PVRL3_uc003dxu.1_Missense_Mutation_p.V128I	NM_015480	NP_056295	Q9NQS3	PVRL3_HUMAN	poliovirus receptor-related 3 precursor	151	Extracellular (Potential).|Ig-like V-type.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane	cell adhesion molecule binding|protein homodimerization activity			upper_aerodigestive_tract(2)	2						CTGCAAAGCTGTTACATTCCC	0.363													16	60					0	0	0.006122	0	0		A	110831167	A	A	110831167	3	1	48	1	0	0	0	0	1	0	0	0	12866	1377	48	4	457	4	PVRL3	3	110831167	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	12642532	110831167	87191263	144	36024											
ZBTB20	26137	broad.mit.edu	37	chr3	114058003	114058003	+	Frame_Shift_Del	DEL	G	-	-																															cacctgggggtgtgcctgcaGggggggtcccattgctggca																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:114058003delG	uc003ebi.2	-	5	2255	c.2075delC	c.(2074-2076)CCTfs	p.P692fs	ZBTB20_uc003ebj.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc010hqp.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebk.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebl.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebm.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebn.2_Frame_Shift_Del_p.P619fs	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	692					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TGTGCCTGCAGGGGGGGTCCC	0.632													15	34	---	---	---	---						.	-	114058003	-	-	114058003	7	5	48	1	0	1	0	1	0	0	0	0	17554	1000	35	0	154	0	ZBTB20	3	114058003	Frame_Shift_Del	DEL	G	TCGA-BR-7703-01A-11D-2053-08	3226836	114058003	83964427	145	36025											
HCLS1	3059	broad.mit.edu	37	chr3	121350739	121350739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagggaagagtccaaagtggCcatggcaacgtccccgccac	11	4	12	14	2	0	1	0	0	0	1	2	2	2	2	5	3	1	1	5	3	3	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:121350739C>T	uc003eeh.3	-	14	1540	c.1415G>A	c.(1414-1416)GGC>GAC	p.G472D	HCLS1_uc011bjj.1_Missense_Mutation_p.G435D	NM_005335	NP_005326	P14317	HCLS1_HUMAN	hematopoietic cell-specific Lyn substrate 1	472	SH3.				erythrocyte differentiation|intracellular signal transduction|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of STAT protein|response to hormone stimulus	mitochondrion|nucleus|plasma membrane	DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(114;0.0912)		TCCAAAGTGGCCATGGCAACG	0.522													26	53					0	0	0.003954	0	0		T	121350739	T	T	121350739	3	4	48	1	0	0	0	0	1	0	0	0	7011	739	26	2	49	2	HCLS1	3	121350739	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	7292736	121350739	76671691	146	36026											
DTX3L	151636	broad.mit.edu	37	chr3	122284875	122284875	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggtgatatgcatcaacaTgaaggacatattcctaatgc	13	12	8	8	0	2	2	1	2	1	0	3	3	3	3	1	2	3	1	1	2	5	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:122284875T>C	uc003efk.2	+	2	446	c.357T>C	c.(355-357)CAT>CAC	p.H119H	DTX3L_uc010hrj.2_Silent_p.H119H|PARP9_uc003eff.3_5'Flank|PARP9_uc010hri.2_5'Flank|PARP9_uc011bjs.1_5'Flank|PARP9_uc003efg.2_5'Flank|PARP9_uc003efi.2_5'Flank|PARP9_uc003efh.2_5'Flank|PARP9_uc003efj.2_5'Flank	NM_138287	NP_612144	Q8TDB6	DTX3L_HUMAN	deltex 3-like	119					histone monoubiquitination|response to DNA damage stimulus	cytoplasm|nucleus	histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)	4				GBM - Glioblastoma multiforme(114;0.0459)		TGCATCAACATGAAGGACATA	0.458													4	52					0	0	0.009096	0	0		C	122284875	C	C	122284875	2	2	48	1	0	0	0	0	0	0	0	1	4802	1461	51	3		3	DTX3L	3	122284875	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	934136	122284875	75737555	147	36027											
NCK1	4690	broad.mit.edu	37	chr3	136664679	136664679	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttcccttcaaactatgtaActgaagaaggtgacagtcct	12	11	9	9	0	1	3	1	2	0	1	3	3	3	3	2	2	2	2	2	2	5	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:136664679A>G	uc003erh.2	+	3	588	c.481A>G	c.(481-483)ACT>GCT	p.T161A	NCK1_uc011bme.1_Missense_Mutation_p.T97A	NM_006153	NP_006144	P16333	NCK1_HUMAN	NCK adaptor protein 1	161	SH3 2.				axon guidance|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of translation|signal complex assembly|T cell activation|T cell receptor signaling pathway	cytosol|endoplasmic reticulum|nucleus	cytoskeletal adaptor activity|receptor binding|receptor signaling complex scaffold activity			pancreas(1)	1						AAACTATGTAACTGAAGAAGG	0.463													8	176					0	0	0.008291	0	0		G	136664679	G	G	136664679	3	3	48	1	0	0	0	0	1	0	0	0	10238	43	2	3	487	3	NCK1	3	136664679	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	14379804	136664679	61357751	148	36028											
COMMD2	51122	broad.mit.edu	37	chr3	149459487	149459487	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggtttaatctgttgccTgagacttctacttgcaagct	7	16	9	9	0	2	1	0	1	2	1	2	2	2	1	1	1	5	5	1	1	3	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:149459487T>C	uc003exk.2	-	5	468	c.421A>G	c.(421-423)AGG>GGG	p.R141G	COMMD2_uc003exj.1_5'Flank	NM_016094	NP_057178	Q86X83	COMD2_HUMAN	COMM domain containing 2	141	COMM.						protein binding				0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			ATCTGTTGCCTGAGACTTCTA	0.343													30	73					0	0	0.008361	0	0		C	149459487	C	C	149459487	3	2	48	1	0	0	0	0	1	0	0	0	3719	1579	55	3	182	3	COMMD2	3	149459487	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	12794808	149459487	48562943	149	36029											
P2RY1	5028	broad.mit.edu	37	chr3	152554180	152554180	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaaaaccatcacctgttaCgacaccacctcagacgagta	16	6	5	14	2	2	1	2	0	0	1	2	3	2	1	4	0	3	2	4	0	5	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:152554180C>T	uc003ezq.2	+	1	1445	c.609C>T	c.(607-609)TAC>TAT	p.Y203Y		NM_002563	NP_002554	P47900	P2RY1_HUMAN	purinergic receptor P2Y1	203	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			TCACCTGTTACGACACCACCT	0.537													23	89					0	0	0.00278	0	0		T	152554180	T	T	152554180	2	4	48	1	0	0	0	0	0	0	0	1	11365	547	19	1		1	P2RY1	3	152554180	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3094693	152554180	45468250	150	36030											
SLITRK3	22865	broad.mit.edu	37	chr3	164906366	164906366	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcttgtagatggggttgttGcacatttgggtaaccgggtg	6	13	17	5	1	0	1	0	0	0	1	0	1	0	1	1	5	2	6	1	5	2	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:164906366G>A	uc003fej.3	-	2	2697	c.2253C>T	c.(2251-2253)TGC>TGT	p.C751C	SLITRK3_uc003fek.2_Silent_p.C751C	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	751	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						TGGGGTTGTTGCACATTTGGG	0.527										HNSCC(40;0.11)			11	40					0	0	0.010729	0	0		A	164906366	A	A	164906366	2	1	48	1	0	0	0	0	0	0	0	1	14769	1311	46	2		2	SLITRK3	3	164906366	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	12352186	164906366	33116064	151	36031											
BCHE	590	broad.mit.edu	37	chr3	165548346	165548346	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcaacccgagccagaaacTtgccatcataaacatgtaaa	16	9	5	11	1	2	1	2	0	0	1	2	2	2	1	3	0	5	1	3	0	6	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:165548346T>G	uc003fem.3	-	2	636	c.476A>C	c.(475-477)AAG>ACG	p.K159T	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	159					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	AGCCAGAAACTTGCCATCATA	0.428													20	25					0	0	0.010504	0	0		G	165548346	G	G	165548346	3	3	48	1	0	0	0	0	1	0	0	0	1359	1609	56	5	1344	5	BCHE	3	165548346	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	641980	165548346	32474084	152	36032											
MYNN	55892	broad.mit.edu	37	chr3	169497261	169497261	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggcacatgagaatacaTaaaggagtcaaaccttacgt	18	7	9	7	1	1	2	1	1	0	2	1	4	1	3	1	2	3	1	1	2	7	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:169497261T>C	uc003fft.2	+	3	1401	c.972T>C	c.(970-972)CAT>CAC	p.H324H	MYNN_uc011bpm.1_Silent_p.H210H|MYNN_uc003ffu.2_Silent_p.H324H|MYNN_uc003ffv.2_Silent_p.H51H|MYNN_uc010hwo.2_Silent_p.H324H|MYNN_uc003ffw.1_RNA	NM_018657	NP_061127	Q9NPC7	MYNN_HUMAN	myoneurin	324	C2H2-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;2.19e-58)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			TGAGAATACATAAAGGAGTCA	0.448													18	15					0	0	0.008871	0	0		C	169497261	C	C	169497261	2	2	48	1	0	0	0	0	0	0	0	1	10079	1403	49	3		3	MYNN	3	169497261	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	3948915	169497261	28525169	153	36033											
PLD1	5337	broad.mit.edu	37	chr3	171330108	171330108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctcgggcaaaccggccaGcttggtactcttttccatcc	6	11	9	15	2	1	0	0	0	1	0	5	0	4	0	5	3	3	3	5	3	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:171330108G>A	uc003fhs.2	-	25	2959	c.2843C>T	c.(2842-2844)GCT>GTT	p.A948V	PLD1_uc003fht.2_Missense_Mutation_p.A910V|PLD1_uc003fhu.3_Missense_Mutation_p.A242V	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	948					cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	AAACCGGCCAGCTTGGTACTC	0.522													38	39					0	0	0.00623	0	0		A	171330108	A	A	171330108	3	1	48	1	0	0	0	0	1	0	0	0	12064	971	34	2	393	2	PLD1	3	171330108	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1832847	171330108	26692322	154	36034											
ACTL6A	86	broad.mit.edu	37	chr3	179305773	179305773	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgaagaaggagggaagcAgtgtgtagaaagaaaatgcc	18	6	14	3	0	0	4	0	1	0	3	0	6	0	6	1	2	2	2	1	2	8	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:179305773A>C	uc003fjw.2	+	14	1438	c.1265A>C	c.(1264-1266)CAG>CCG	p.Q422P	ACTL6A_uc003fjx.2_Missense_Mutation_p.Q380P|ACTL6A_uc003fjy.2_Missense_Mutation_p.Q380P	NM_004301	NP_004292	O96019	ACL6A_HUMAN	actin-like 6A isoform 1	422					chromatin remodeling|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|nervous system development|regulation of growth|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	Ino80 complex|npBAF complex|NuA4 histone acetyltransferase complex|plasma membrane|SWI/SNF complex	ATP binding|chromatin binding			ovary(1)	1	all_cancers(143;3.94e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)			GGAGGGAAGCAGTGTGTAGAA	0.368													6	20					0	0	0.004482	0	0		C	179305773	C	C	179305773	3	2	48	1	0	0	0	0	1	0	0	0	198	188	7	5	1319	5	ACTL6A	3	179305773	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	7975665	179305773	18716657	155	36035											
KLHL6	89857	broad.mit.edu	37	chr3	183273234	183273234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagatgacatctgtcagagCgttttccattcgcagggttt	9	13	10	9	2	2	3	1	1	1	2	4	3	3	3	1	1	1	3	1	1	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:183273234C>T	uc003flr.2	-	1	266	c.208G>A	c.(208-210)GCT>ACT	p.A70T	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_Missense_Mutation_p.A68T	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	70										haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			TCTGTCAGAGCGTTTTCCATT	0.502													58	90					0	0	0.01441	0	0		T	183273234	T	T	183273234	3	4	48	1	0	0	0	0	1	0	0	0	8409	768	27	1	1685	1	KLHL6	3	183273234	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3967461	183273234	14749196	156	36036											
EHHADH	1962	broad.mit.edu	37	chr3	184922258	184922258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgttttccacgatgctcCggagggagttgaccacttat	7	13	11	10	2	0	1	0	1	0	0	2	4	2	3	3	2	2	4	3	2	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:184922258C>T	uc003fpf.2	-	6	883	c.856G>A	c.(856-858)GGA>AGA	p.G286R	EHHADH_uc011brs.1_Missense_Mutation_p.G190R	NM_001966	NP_001957	Q08426	ECHP_HUMAN	enoyl-Coenzyme A, hydratase/3-hydroxyacyl	286	3-hydroxyacyl-CoA dehydrogenase.					peroxisome	3-hydroxyacyl-CoA dehydrogenase activity|coenzyme binding|dodecenoyl-CoA delta-isomerase activity|enoyl-CoA hydratase activity			ovary(3)	3	all_cancers(143;4.04e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.98e-32)|OV - Ovarian serous cystadenocarcinoma(80;5.55e-21)		NADH(DB00157)	CACGATGCTCCGGAGGGAGTT	0.488													4	92					0	0	0.009096	0	0		T	184922258	T	T	184922258	3	4	48	1	0	0	0	0	1	0	0	0	4988	661	23	1	1323	1	EHHADH	3	184922258	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1649024	184922258	13100172	157	36037											
LPP	4026	broad.mit.edu	37	chr3	188242523	188242523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagattgactccttgaccaGcatcttggctgaccttgagt	8	13	10	10	0	1	5	0	5	1	1	2	6	2	5	3	1	1	2	3	1	0	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:188242523G>A	uc003frs.1	+	5	623	c.377G>A	c.(376-378)AGC>AAC	p.S126N	LPP_uc011bsg.1_Missense_Mutation_p.S126N|LPP_uc011bsi.1_Missense_Mutation_p.S126N|LPP_uc003frt.2_Missense_Mutation_p.S126N	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	126	Pro-rich.				cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		TCCTTGACCAGCATCTTGGCT	0.542			T	HMGA2|MLL|C12orf9	lipoma|leukemia								43	104					0	0	0.01441	0	0		A	188242523	A	A	188242523	3	1	48	1	0	0	0	0	1	0	0	0	8941	971	34	2	387	2	LPP	3	188242523	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3320265	188242523	9779907	158	36038											
CCDC50	152137	broad.mit.edu	37	chr3	191097971	191097971	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagccaagagtgatgaaaGaagctgtatctactccatca	15	9	9	8	0	2	5	1	3	1	2	3	5	3	5	2	0	3	2	2	0	6	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr3:191097971G>T	uc003fsw.2	+	6	1062	c.472G>T	c.(472-474)GAA>TAA	p.E158*	CCDC50_uc003fsv.2_Nonsense_Mutation_p.E334*	NM_174908	NP_777568	Q8IVM0	CCD50_HUMAN	Ymer protein short isoform	158						cytoplasm	protein binding				0	all_cancers(143;8.88e-09)|Ovarian(172;0.103)|Breast(254;0.221)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000136)		AGTGATGAAAGAAGCTGTATC	0.348													9	26					9.70103e-10	1.05472e-09	0.008291	1	0		T	191097971	T	T	191097971	4	4	48	1	0	0	0	0	0	1	0	0	2823	943	33	5	1026	5	CCDC50	3	191097971	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2855448	191097971	6924459	159	36039											
HTT	3064	broad.mit.edu	37	chr4	3230455	3230455	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccttcgtcaccacccacGtctccagtcaactccaggtt	8	9	6	18	2	3	0	2	0	1	0	6	0	4	0	5	1	1	2	5	1	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:3230455G>A	uc011bvq.1	+	59	8113	c.7968G>A	c.(7966-7968)ACG>ACA	p.T2656T		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2654					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		CACCACCCACGTCTCCAGTCA	0.388													10	45					0	0	0.00245	0	0		A	3230455	A	A	3230455	2	1	48	1	0	0	0	0	0	0	0	1	7473	1132	40	1		1	HTT	4	3230455	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08		3230455	187923821	160	36040											
EVC	2121	broad.mit.edu	37	chr4	5733298	5733298	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgcagctcctcatccagCgtccactcggccaccagcga	8	6	9	18	3	1	0	1	0	0	0	5	2	4	0	5	1	4	2	5	1	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:5733298C>T	uc003gil.1	+	4	715	c.531C>T	c.(529-531)AGC>AGT	p.S177S	EVC_uc003gim.1_RNA	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	177					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				CCTCATCCAGCGTCCACTCGG	0.632													22	45					0	0	0.004656	0	0		T	5733298	T	T	5733298	2	4	48	1	0	0	0	0	0	0	0	1	5293	767	27	1		1	EVC	4	5733298	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2502843	5733298	185420978	161	36041											
CPZ	8532	broad.mit.edu	37	chr4	8603164	8603164	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggccctacttccttgacTgccaccgctacttcacgaga	7	10	7	17	2	1	2	1	1	0	1	2	3	2	2	5	1	3	1	5	1	2	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:8603164T>C	uc003glm.2	+	3	562	c.436T>C	c.(436-438)TGC>CGC	p.C146R	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Missense_Mutation_p.C9R|CPZ_uc003glo.2_Missense_Mutation_p.C135R|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	146	FZ.				proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						CTTCCTTGACTGCCACCGCTA	0.657													7	6					0	0	0.00308	0	0		C	8603164	C	C	8603164	3	2	48	1	0	0	0	0	1	0	0	0	3842	1580	55	3	446	3	CPZ	4	8603164	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	2869866	8603164	182551112	162	36042											
DRD5	1816	broad.mit.edu	37	chr4	9783746	9783746	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacgccgtggggggctcggcGggggcaccgccactggggcc	4	3	20	14	5	0	0	0	0	0	0	1	0	0	0	4	8	1	2	4	8	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:9783746G>A	uc003gmb.3	+	1	489	c.93G>A	c.(91-93)GCG>GCA	p.A31A		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	31	Extracellular (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	GGGGCTCGGCGGGGGCACCGC	0.697													5	8					0	0	0.001984	0	0		A	9783746	A	A	9783746	2	1	48	1	0	0	0	0	0	0	0	1	4766	1103	39	1		1	DRD5	4	9783746	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1180582	9783746	181370530	163	36043											
CC2D2A	57545	broad.mit.edu	37	chr4	15569074	15569074	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccccaagcacgtacagccCaacccacaatgctgactacc	12	6	5	18	1	0	1	0	1	0	0	1	1	1	1	5	0	6	3	5	0	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:15569074C>A	uc010idv.2	+	26	3502	c.3257C>A	c.(3256-3258)CCA>CAA	p.P1086Q	CC2D2A_uc003gnx.2_Missense_Mutation_p.P1037Q|CC2D2A_uc003gnz.1_RNA|CC2D2A_uc003goa.1_RNA	NM_001080522	NP_001073991	Q9P2K1	C2D2A_HUMAN	coiled-coil and C2 domain containing 2A isoform	1086	C2.				cell projection organization	cilium|microtubule basal body				pancreas(2)|ovary(1)	3						ACGTACAGCCCAACCCACAAT	0.478													11	31					0.00185496	0.00190666	0.001855	1	0		A	15569074	A	A	15569074	3	1	48	1	0	0	0	0	1	0	0	0	2731	594	21	5	3554	5	CC2D2A	4	15569074	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	5785328	15569074	175585202	164	36044											
TBC1D1	23216	broad.mit.edu	37	chr4	38097694	38097694	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgacatggaaaaaatgcActcggctgttgggcaaggta	12	10	13	6	1	0	1	0	1	0	0	1	2	0	2	0	4	1	6	0	4	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:38097694A>G	uc003gtb.2	+	14	2724	c.2381A>G	c.(2380-2382)CAC>CGC	p.H794R	TBC1D1_uc011byd.1_Missense_Mutation_p.H888R|TBC1D1_uc010ifd.2_Missense_Mutation_p.H581R	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	794						nucleus	Rab GTPase activator activity			ovary(1)	1						GAAAAAATGCACTCGGCTGTT	0.408													4	94					0	0	0.001168	0	0		G	38097694	G	G	38097694	3	3	48	1	0	0	0	0	1	0	0	0	15622	159	6	3	2431	3	TBC1D1	4	38097694	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	22528620	38097694	153056582	165	36045											
EPHA5	2044	broad.mit.edu	37	chr4	66189927	66189927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaagagtcactccaagccGtctcaaatccctgcatgaag	13	7	8	13	1	2	2	2	1	1	1	5	3	4	2	3	0	2	1	3	0	4	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:66189927G>A	uc003hcy.2	-	18	3212	c.3019C>T	c.(3019-3021)CGG>TGG	p.R1007W	EPHA5_uc003hcx.2_Missense_Mutation_p.R939W|EPHA5_uc003hcz.2_Missense_Mutation_p.R985W|EPHA5_uc011cah.1_Missense_Mutation_p.R1008W|EPHA5_uc011cai.1_Missense_Mutation_p.R986W	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	1007	Cytoplasmic (Potential).|SAM.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity	p.R1007Q(1)		lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						ACTCCAAGCCGTCTCAAATCC	0.438										TSP Lung(17;0.13)			24	52					0	0	0.003954	0	0		A	66189927	A	A	66189927	3	1	48	1	0	0	0	0	1	0	0	0	5178	1144	40	1	98	1	EPHA5	4	66189927	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	28092233	66189927	124964349	166	36046											
NPFFR2	10886	broad.mit.edu	37	chr4	73012934	73012934	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatctacaccactgtgcTgtttgccaacatctacctgg	10	11	8	12	0	2	1	0	0	2	1	2	2	2	1	3	1	5	2	3	1	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:73012934T>G	uc003hgg.2	+	4	1072	c.974T>G	c.(973-975)CTG>CGG	p.L325R	NPFFR2_uc010iig.1_Missense_Mutation_p.L107R|NPFFR2_uc003hgi.2_Missense_Mutation_p.L226R|NPFFR2_uc003hgh.2_Missense_Mutation_p.L223R|NPFFR2_uc003hgj.2_RNA	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	325	Helical; Name=5; (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			ACCACTGTGCTGTTTGCCAAC	0.502													15	29					0	0	0.003163	0	0		G	73012934	G	G	73012934	3	3	48	1	0	0	0	0	1	0	0	0	10597	1580	55	5	994	5	NPFFR2	4	73012934	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	6823007	73012934	118141342	167	36047											
EREG	2069	broad.mit.edu	37	chr4	75245185	75245185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttccatcttctacaggcaGtcctcagtacaactgtgatt	9	14	7	11	0	3	1	1	1	2	0	5	1	5	1	2	1	3	3	2	1	3	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:75245185G>A	uc003hie.1	+	2	254	c.88G>A	c.(88-90)GTC>ATC	p.V30I	EREG_uc003hid.2_Missense_Mutation_p.V24I	NM_001432	NP_001423	O14944	EREG_HUMAN	epiregulin preproprotein	30					angiogenesis|cell-cell signaling|cytokine-mediated signaling pathway|epidermal growth factor receptor signaling pathway|female meiosis|keratinocyte differentiation|keratinocyte proliferation|luteinizing hormone signaling pathway|mRNA transcription|negative regulation of epithelial cell proliferation|negative regulation of smooth muscle cell differentiation|negative regulation of transcription, DNA-dependent|oocyte maturation|organ morphogenesis|ovarian cumulus expansion|ovulation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of DNA replication|positive regulation of epidermal growth factor receptor activity|positive regulation of fibroblast proliferation|positive regulation of innate immune response|positive regulation of interleukin-6 biosynthetic process|positive regulation of mitosis|positive regulation of phosphorylation|positive regulation of smooth muscle cell proliferation|primary follicle stage|wound healing	extracellular space|integral to plasma membrane	epidermal growth factor receptor binding|growth factor activity			breast(1)|skin(1)	2			Lung(101;0.196)			TCTACAGGCAGTCCTCAGTAC	0.373													32	84					0	0	0.004878	0	0		A	75245185	A	A	75245185	3	1	48	1	0	0	0	0	1	0	0	0	5228	1029	36	4	94	4	EREG	4	75245185	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2232251	75245185	115909091	168	36048											
USO1	8615	broad.mit.edu	37	chr4	76731599	76731599	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcaggcaaaatcagttgaGgtacaaggagagaccgagac	15	7	12	7	1	2	3	2	1	0	2	2	6	2	4	1	3	1	3	1	3	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:76731599G>T	uc003hiu.2	+	21	2665	c.2490G>T	c.(2488-2490)GAG>GAT	p.E830D	USO1_uc003hiv.2_Missense_Mutation_p.E672D|USO1_uc003hiw.2_Missense_Mutation_p.E665D	NM_003715	NP_003706	O60763	USO1_HUMAN	USO1 homolog, vesicle docking protein	830	Potential.				intracellular protein transport|vesicle fusion with Golgi apparatus	cytosol|Golgi membrane	protein binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			AATCAGTTGAGGTACAAGGAG	0.338													4	10					0.00909568	0.00928452	0.009096	1	0		T	76731599	T	T	76731599	3	4	48	1	0	0	0	0	1	0	0	0	17065	991	35	5	2417	5	USO1	4	76731599	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1486414	76731599	114422677	169	36049											
NAAA	27163	broad.mit.edu	37	chr4	76842262	76842262	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctgcttcgaagttttcCgactcactcagggtctgaac	9	11	9	12	2	3	1	2	1	1	0	5	3	4	1	1	1	3	3	1	1	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:76842262C>T	uc003hjb.2	-	6	745	c.681G>A	c.(679-681)TCG>TCA	p.S227S	NAAA_uc003hja.2_Silent_p.S227S|NAAA_uc003hjc.3_Silent_p.S227S|NAAA_uc003hjd.3_RNA|NAAA_uc011cbq.1_Silent_p.S126S	NM_014435	NP_055250	Q02083	NAAA_HUMAN	N-acylethanolamine acid amidase isoform 1	227					lipid metabolic process	lysosome	hydrolase activity			skin(1)	1						CGAAGTTTTCCGACTCACTCA	0.517													12	23					0	0	0.004007	0	0		T	76842262	T	T	76842262	2	4	48	1	0	0	0	0	0	0	0	1	10145	639	23	1		1	NAAA	4	76842262	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	110663	76842262	114312014	170	36050											
FRAS1	80144	broad.mit.edu	37	chr4	79328882	79328882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgaagggcagcacctgcctGatgggaggacagctaccccc	10	5	13	13	0	0	2	0	2	0	0	0	4	0	4	4	3	4	3	4	3	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:79328882G>A	uc003hlb.2	+	31	4635	c.4195G>A	c.(4195-4197)GAT>AAT	p.D1399N	FRAS1_uc003hkw.2_Missense_Mutation_p.D1399N	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	1398	CSPG 3.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						GCACCTGCCTGATGGGAGGAC	0.587													25	51					0	0	0.005443	0	0		A	79328882	A	A	79328882	3	1	48	1	0	0	0	0	1	0	0	0	6056	1290	45	4	4317	4	FRAS1	4	79328882	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2486620	79328882	111825394	171	36051											
HNRPDL	9987	broad.mit.edu	37	chr4	83347709	83347709	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccactatagttttgatcacCaccataggcactattgtaat	12	13	6	10	0	1	1	1	1	0	0	1	1	1	1	3	1	0	3	3	1	5	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:83347709C>A	uc003hmr.2	-	6	1634	c.1099G>T	c.(1099-1101)GGT>TGT	p.G367C	HNRPDL_uc003hmq.2_RNA|HNRPDL_uc003hms.2_RNA|HNRPDL_uc003hmt.2_Intron	NM_031372	NP_112740	O14979	HNRDL_HUMAN	heterogeneous nuclear ribonucleoprotein D-like	367	Tyr-rich.|Necessary for interaction with TNPO1.|Gly-rich.				regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|heterogeneous nuclear ribonucleoprotein complex	double-stranded DNA binding|nucleotide binding|poly(A) RNA binding|protein binding|single-stranded DNA binding			skin(1)	1		Hepatocellular(203;0.114)				TTTTGATCACCACCATAGGCA	0.383													13	85					1.5842e-08	1.71186e-08	0.001855	1	0		A	83347709	A	A	83347709	3	1	48	1	0	0	0	0	1	0	0	0	7292	594	21	5	171	5	HNRPDL	4	83347709	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4018827	83347709	107806567	172	36052											
ARHGAP24	83478	broad.mit.edu	37	chr4	86915861	86915861	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacaatgaaattcagaagAaagccaccatggggcagtta	18	6	9	8	0	1	3	1	1	0	2	1	3	1	3	2	2	2	2	2	2	6	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:86915861A>G	uc003hpk.2	+	9	1503	c.1054A>G	c.(1054-1056)AAA>GAA	p.K352E	ARHGAP24_uc003hpl.2_Missense_Mutation_p.K257E|ARHGAP24_uc010ikf.2_Missense_Mutation_p.K267E|ARHGAP24_uc003hpm.2_Missense_Mutation_p.K259E	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1	352					angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		AATTCAGAAGAAAGCCACCAT	0.473													21	87					0	0	0.010504	0	0		G	86915861	G	G	86915861	3	3	48	1	0	0	0	0	1	0	0	0	873	247	9	3	1200	3	ARHGAP24	4	86915861	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	3568152	86915861	104238415	173	36053											
IBSP	3381	broad.mit.edu	37	chr4	88733020	88733020	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctactttaaaggacaaggCtacgatggctatgatggtca	13	10	11	7	1	1	1	1	1	0	0	1	3	1	2	0	4	3	3	0	4	6	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:88733020C>T	uc003hqx.3	+	7	1010	c.912C>T	c.(910-912)GGC>GGT	p.G304G		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	304					biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		AAGGACAAGGCTACGATGGCT	0.463													3	100					0	0	0.009096	0	0		T	88733020	T	T	88733020	2	4	48	1	0	0	0	0	0	0	0	1	7491	784	28	2		2	IBSP	4	88733020	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1817159	88733020	102421256	174	36054											
CXXC4	80319	broad.mit.edu	37	chr4	105412446	105412446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctctgggagtcgtttcggtGgtgcatgctggtcctgctgc	2	13	15	11	2	1	0	0	0	1	0	4	1	2	1	2	4	4	4	2	4	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:105412446G>A	uc003hxg.2	-	1	22	c.7C>T	c.(7-9)CAC>TAC	p.H3Y	uc003hxh.1_Intron|CXXC4_uc010ilo.2_Intron	NM_025212	NP_079488	Q9H2H0	CXXC4_HUMAN	CXXC finger 4	3					negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway|zygotic specification of dorsal/ventral axis		DNA binding|PDZ domain binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;3.05e-08)		TCGTTTCGGTGGTGCATGCTG	0.383													38	68					0	0	0.00623	0	0		A	105412446	A	A	105412446	3	1	48	1	0	0	0	0	1	0	0	0	4101	1348	47	4	597	4	CXXC4	4	105412446	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	16679426	105412446	85741830	175	36055											
COL25A1	84570	broad.mit.edu	37	chr4	110223177	110223177	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcttcttcagcagcatcGtggcggggtcggccgtctcg	3	10	15	13	6	3	0	1	0	2	0	6	0	3	0	1	4	3	3	1	4	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:110223177G>A	uc003hze.1	-	2	530	c.-1C>T	c.(-3-1)CACGA>CATGA		COL25A1_uc003hzg.2_Translation_Start_Site|COL25A1_uc003hzh.1_Translation_Start_Site	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1							collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		CAGCAGCATCGTGGCGGGGTC	0.602													14	17					0	0	0.003163	0	0		A	110223177	A	A	110223177	1	1	48	1	0	0	0	0	0	0	0	0	3687	1160	40	1		1	COL25A1	4	110223177	Translation_Start_Site	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4810731	110223177	80931099	176	36056											
FAT4	79633	broad.mit.edu	37	chr4	126370366	126370366	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaagcgttagacctttggAcagggaaaaagtatctcatt	14	11	10	6	1	1	2	1	0	1	2	2	4	1	4	1	2	1	2	1	2	6	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:126370366A>G	uc003ifj.3	+	9	8195	c.8195A>G	c.(8194-8196)GAC>GGC	p.D2732G	FAT4_uc011cgp.1_Missense_Mutation_p.D1030G|FAT4_uc003ifi.1_Missense_Mutation_p.D210G	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2732	Cadherin 26.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AGACCTTTGGACAGGGAAAAA	0.358													20	50					0	0	0.014323	0	0		G	126370366	G	G	126370366	3	3	48	1	0	0	0	0	1	0	0	0	5706	275	10	3	8229	3	FAT4	4	126370366	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	16147189	126370366	64783910	177	36057											
FAT4	79633	broad.mit.edu	37	chr4	126412392	126412392	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccctagaaacccaagtatCtgcagtgcagaccatgggag	12	6	11	12	1	1	2	0	0	1	2	1	3	1	3	3	1	3	3	3	1	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:126412392C>A	uc003ifj.3	+	17	14415	c.14415C>A	c.(14413-14415)ATC>ATA	p.I4805I	FAT4_uc011cgp.1_Silent_p.I3046I|FAT4_uc003ifi.1_Silent_p.I2282I	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4805	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACCCAAGTATCTGCAGTGCAG	0.522													18	40					1.99824e-07	2.1358e-07	0.00499	1	0		A	126412392	A	A	126412392	2	1	48	1	0	0	0	0	0	0	0	1	5706	903	32	5		5	FAT4	4	126412392	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	42026	126412392	64741884	178	36058											
PCDH10	57575	broad.mit.edu	37	chr4	134071731	134071731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgcttccccttggagagcGcattcgacccagacgtgggc	6	8	12	15	4	0	2	0	0	0	2	3	4	1	2	3	2	1	2	3	2	0	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:134071731G>A	uc003iha.2	+	1	1262	c.436G>A	c.(436-438)GCA>ACA	p.A146T	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.A146T	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	146	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CTTGGAGAGCGCATTCGACCC	0.617													32	60					0	0	0.009535	0	0		A	134071731	A	A	134071731	3	1	48	1	0	0	0	0	1	0	0	0	11526	1087	38	1	438	1	PCDH10	4	134071731	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	7659339	134071731	57082545	179	36059											
GAB1	2549	broad.mit.edu	37	chr4	144359520	144359520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taatacttatcagattccacGaacatttccagaaggaacct	15	11	5	10	1	1	2	1	0	0	2	3	4	3	3	3	1	3	0	3	1	6	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:144359520G>A	uc003ije.2	+	4	1321	c.962G>A	c.(961-963)CGA>CAA	p.R321Q	GAB1_uc003ijd.2_Missense_Mutation_p.R321Q|GAB1_uc011chq.1_Missense_Mutation_p.R218Q	NM_002039	NP_002030	Q13480	GAB1_HUMAN	GRB2-associated binding protein 1 isoform b	321					cell proliferation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			breast(2)|lung(1)|skin(1)	4	all_hematologic(180;0.158)					CAGATTCCACGAACATTTCCA	0.453													20	84					0	0	0.00333	0	0		A	144359520	A	A	144359520	3	1	48	1	0	0	0	0	1	0	0	0	6162	1058	37	1	976	1	GAB1	4	144359520	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	10287789	144359520	46794756	180	36060											
LRBA	987	broad.mit.edu	37	chr4	151408925	151408925	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttccaacgccaacacgAggtagatagttaaccacttt	12	11	7	11	2	0	1	0	0	0	1	1	2	1	1	3	1	3	3	3	1	5	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:151408925A>C	uc010ipj.2	-	43	7017	c.6543T>G	c.(6541-6543)CCT>CCG	p.P2181P	LRBA_uc003ils.3_Silent_p.P71P|LRBA_uc003ilt.3_Silent_p.P829P|LRBA_uc003ilu.3_Silent_p.P2170P	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2181						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					CGCCAACACGAGGTAGATAGT	0.343													5	112					0	0	0.000602	0	0		C	151408925	C	C	151408925	2	2	48	1	0	0	0	0	0	0	0	1	8949	291	11	5		5	LRBA	4	151408925	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	7049405	151408925	39745351	181	36061											
ETFDH	2110	broad.mit.edu	37	chr4	159624651	159624651	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgaatgttcccaagatcaAaggtactcacacagcaatga	16	9	7	9	0	2	3	2	2	0	1	3	3	3	3	1	1	2	3	1	1	6	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:159624651A>G	uc003iqb.2	+	10	1525	c.1193A>G	c.(1192-1194)AAA>AGA	p.K398R	ETFDH_uc011cjg.1_Missense_Mutation_p.K351R|ETFDH_uc010iqr.2_5'UTR|ETFDH_uc011cjh.1_Missense_Mutation_p.K337R|ETFDH_uc010iqs.2_Missense_Mutation_p.K320R	NM_004453	NP_004444	Q16134	ETFD_HUMAN	electron-transferring-flavoprotein dehydrogenase	398					fatty acid beta-oxidation using acyl-CoA dehydrogenase|respiratory electron transport chain|response to oxidative stress|transport	integral to mitochondrial inner membrane|mitochondrial matrix	4 iron, 4 sulfur cluster binding|electron carrier activity|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity, oxidizing metal ions with flavin as acceptor|ubiquinone binding			large_intestine(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0172)		CCCAAGATCAAAGGTACTCAC	0.343													3	93					0	0	0.009096	0	0		G	159624651	G	G	159624651	3	3	48	1	0	0	0	0	1	0	0	0	5279	14	1	3	1231	3	ETFDH	4	159624651	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	8215726	159624651	31529625	182	36062											
NPY5R	4889	broad.mit.edu	37	chr4	164272323	164272323	+	Missense_Mutation	SNP	C	A	A																															cagcatgtgtgttacctgctCcagaaagaccttctcaagag																								rs74555158		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:164272323C>A	uc003iqn.2	+	4	1080	c.898C>A	c.(898-900)CCA>ACA	p.P300T		NM_006174	NP_006165	Q15761	NPY5R_HUMAN	neuropeptide Y receptor Y5	300	Cytoplasmic (Potential).				cardiac left ventricle morphogenesis|outflow tract morphogenesis	integral to plasma membrane				lung(6)|skin(1)	7	all_hematologic(180;0.166)	Prostate(90;0.109)				GTTACCTGCTCCAGAAAGACC	0.428													17	48					1.99824e-07	2.1358e-07	0.00499	1	0		A	164272323	A	A	164272323	3	1	48	1	0	0	0	0	1	0	0	0	10629	855	30	5	900	5	NPY5R	4	164272323	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4647672	164272323	26881953	183	36063	73	2									
NPY5R	4889	broad.mit.edu	37	chr4	164272327	164272327	+	Missense_Mutation	SNP	A	G	G																															atgtgtgttacctgctccagAaagaccttctcaagagaacc																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:164272327A>G	uc003iqn.2	+	4	1084	c.902A>G	c.(901-903)GAA>GGA	p.E301G		NM_006174	NP_006165	Q15761	NPY5R_HUMAN	neuropeptide Y receptor Y5	301	Cytoplasmic (Potential).				cardiac left ventricle morphogenesis|outflow tract morphogenesis	integral to plasma membrane				lung(6)|skin(1)	7	all_hematologic(180;0.166)	Prostate(90;0.109)				CCTGCTCCAGAAAGACCTTCT	0.433													17	47					0	0	0.00499	0	0		G	164272327	G	G	164272327	3	3	48	1	0	0	0	0	1	0	0	0	10629	246	9	3	904	3	NPY5R	4	164272327	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	4	164272327	26881949	184	36064	73	2									
SH3RF1	57630	broad.mit.edu	37	chr4	170057513	170057513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagacagctcgctgatccGtgcagcagcagtggggttgc	7	7	14	13	2	0	2	0	1	0	1	2	2	1	2	2	2	5	6	2	2	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:170057513G>A	uc003isa.1	-	5	1359	c.1024C>T	c.(1024-1026)CGG>TGG	p.R342W	SH3RF1_uc010irc.1_Missense_Mutation_p.T64M	NM_020870	NP_065921	Q7Z6J0	SH3R1_HUMAN	SH3 domain containing ring finger 1	342						Golgi apparatus|lamellipodium|perinuclear region of cytoplasm	ligase activity|zinc ion binding			breast(2)|lung(1)	3		Prostate(90;0.00267)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)		TCGCTGATCCGTGCAGCAGCA	0.542													8	271					0	0	0.004482	0	0		A	170057513	A	A	170057513	3	1	48	1	0	0	0	0	1	0	0	0	14283	1144	40	1	1674	1	SH3RF1	4	170057513	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5785186	170057513	21096763	185	36065											
TRIML1	339976	broad.mit.edu	37	chr4	189060920	189060920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcatttccagtcaaacgagCgtctggggaggctggccagc	8	7	14	12	3	2	0	1	0	1	0	3	2	3	1	2	4	3	2	2	4	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr4:189060920C>T	uc003izm.1	+	1	323	c.208C>T	c.(208-210)CGT>TGT	p.R70C		NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	70					multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		GTCAAACGAGCGTCTGGGGAG	0.612													3	70					0	0	0.009096	0	0		T	189060920	T	T	189060920	3	4	48	1	0	0	0	0	1	0	0	0	16576	768	27	1	210	1	TRIML1	4	189060920	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	19003407	189060920	2093356	186	36066											
AHRR	57491	broad.mit.edu	37	chr5	433983	433983	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagggacagggaggaggaGcagcacaggatgctgagcag	12	3	19	7	0	0	1	0	1	0	0	0	6	0	6	0	5	5	5	0	5	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:433983G>A	uc003jav.2	+	12	1238	c.1194G>A	c.(1192-1194)GAG>GAA	p.E398E	AHRR_uc003jaw.2_Silent_p.E376E|AHRR_uc010isy.2_Silent_p.E226E|AHRR_uc010isz.2_Silent_p.E376E|AHRR_uc003jax.2_Silent_p.E139E|AHRR_uc003jay.2_Silent_p.E236E|AHRR_uc003jaz.2_5'UTR	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	380					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			GGGAGGAGGAGCAGCACAGGA	0.632													7	9					0	0	0.001984	0	0		A	433983	A	A	433983	2	1	48	1	0	0	0	0	0	0	0	1	417	962	34	2		2	AHRR	5	433983	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08		433983	180481277	187	36067											
LPCAT1	79888	broad.mit.edu	37	chr5	1501615	1501615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgctcgggttccttctccGcagagcccagggatgcgaca	6	8	13	14	3	1	1	0	0	1	1	4	3	2	2	3	2	3	4	3	2	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:1501615G>A	uc003jcm.2	-	2	356	c.239C>T	c.(238-240)GCG>GTG	p.A80V		NM_024830	NP_079106	Q8NF37	PCAT1_HUMAN	lysophosphatidylcholine acyltransferase 1	80	Lumenal (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(19;0.0274)|all cancers(22;0.0534)	GBM - Glioblastoma multiforme(108;0.156)		TTCCTTCTCCGCAGAGCCCAG	0.677													14	24					0	0	0.003163	0	0		A	1501615	A	A	1501615	3	1	48	1	0	0	0	0	1	0	0	0	8928	1087	38	1	1417	1	LPCAT1	5	1501615	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1067632	1501615	179413645	188	36068											
IRX2	153572	broad.mit.edu	37	chr5	2748541	2748541	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttgcccgcgtcgctggcCgcctttggcgcggtgtgcag	1	9	16	15	6	0	0	0	0	0	0	1	0	0	0	4	3	2	2	4	3	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:2748541C>T	uc003jda.2	-	3	1523	c.1281G>A	c.(1279-1281)GCG>GCA	p.A427A	IRX2_uc003jdb.2_Silent_p.A427A	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	427						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		CGTCGCTGGCCGCCTTTGGCG	0.677													4	2					0	0	0.000602	0	0		T	2748541	T	T	2748541	2	4	48	1	0	0	0	0	0	0	0	1	7860	639	23	1		1	IRX2	5	2748541	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1246926	2748541	178166719	189	36069											
IRX1	79192	broad.mit.edu	37	chr5	3600194	3600194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccaactggaccaacagcGcattcctcgcacagggctcc	9	7	8	17	2	1	0	0	0	1	0	5	1	3	1	4	2	3	3	4	2	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:3600194G>A	uc003jde.2	+	2	1184	c.1132G>A	c.(1132-1134)GCA>ACA	p.A378T		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	378						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GACCAACAGCGCATTCCTCGC	0.577													16	16					0	0	0.006122	0	0		A	3600194	A	A	3600194	3	1	48	1	0	0	0	0	1	0	0	0	7859	1087	38	1	1138	1	IRX1	5	3600194	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	851653	3600194	177315066	190	36070											
TRIO	7204	broad.mit.edu	37	chr5	14485239	14485239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtaaatttgctctgacatCgaggacgggtgacgtggtag	9	11	14	7	3	1	2	0	2	1	0	2	4	1	3	0	3	1	3	0	3	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:14485239C>T	uc003jff.2	+	47	6725	c.6719C>T	c.(6718-6720)TCG>TTG	p.S2240L	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Missense_Mutation_p.S1889L	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2240	PH 2.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GCTCTGACATCGAGGACGGGT	0.358													30	70					0	0	0.003755	0	0		T	14485239	T	T	14485239	3	4	48	1	0	0	0	0	1	0	0	0	16578	893	31	1	6905	1	TRIO	5	14485239	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	10885045	14485239	166430021	191	36071											
TRIO	7204	broad.mit.edu	37	chr5	14504593	14504593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaagaagttgatgaagcgcGaccaggtcacccatgagctt	13	7	11	10	2	1	4	1	3	0	1	1	5	1	4	2	1	2	2	2	1	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:14504593G>A	uc003jff.2	+	55	8509	c.8503G>A	c.(8503-8505)GAC>AAC	p.D2835N	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2835	Protein kinase.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GATGAAGCGCGACCAGGTCAC	0.532													67	197					0	0	0.01441	0	0		A	14504593	A	A	14504593	3	1	48	1	0	0	0	0	1	0	0	0	16578	1058	37	1	8721	1	TRIO	5	14504593	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	19354	14504593	166410667	192	36072											
RXFP3	51289	broad.mit.edu	37	chr5	33937043	33937043	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgccaggacatcccccGggcagcggcggggcagagag	7	1	18	15	5	0	1	0	0	0	1	1	3	1	2	4	5	1	2	4	5	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:33937043G>A	uc003jic.1	+	1	555	c.198G>A	c.(196-198)CCG>CCA	p.P66P		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	66	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						GACATCCCCCGGGCAGCGGCG	0.706													20	44					0	0	0.012319	0	0		A	33937043	A	A	33937043	2	1	48	1	0	0	0	0	0	0	0	1	13786	1103	39	1		1	RXFP3	5	33937043	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	19432450	33937043	146978217	193	36073											
FYB	2533	broad.mit.edu	37	chr5	39153610	39153610	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgggactggtggttgtgatGggtgagatgctggcaatggt	6	13	19	3	0	0	2	0	2	0	1	0	4	0	3	0	6	1	3	0	6	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:39153610G>T	uc003jls.2	-	2	1299	c.1232C>A	c.(1231-1233)CCA>CAA	p.P411Q	FYB_uc003jlt.2_Missense_Mutation_p.P411Q|FYB_uc003jlu.2_Missense_Mutation_p.P411Q|FYB_uc011cpl.1_Missense_Mutation_p.P421Q	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	411	Interaction with SKAP1.				cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			TGGTTGTGATGGGTGAGATGC	0.493													4	177					2.56e-06	2.71005e-06	0.009096	1	0		T	39153610	T	T	39153610	3	4	48	1	0	0	0	0	1	0	0	0	6138	1348	47	5	1325	5	FYB	5	39153610	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5216567	39153610	141761650	194	36074											
DAB2	1601	broad.mit.edu	37	chr5	39377057	39377057	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccaggagagaggagtgcAtggatgggggctgagtggac	10	6	20	5	0	0	3	0	2	0	1	0	8	0	7	1	6	1	2	1	6	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:39377057A>G	uc003jlx.2	-	12	2363	c.1832T>C	c.(1831-1833)ATG>ACG	p.M611T	DAB2_uc003jlw.2_Missense_Mutation_p.M590T	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	611					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			AGAGGAGTGCATGGATGGGGG	0.557											OREG0016586	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	54	129					0	0	0.01441	0	0		G	39377057	G	G	39377057	3	3	48	1	0	0	0	0	1	0	0	0	4221	217	8	3	492	3	DAB2	5	39377057	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	223447	39377057	141538203	195	36075											
NNT	23530	broad.mit.edu	37	chr5	43659360	43659360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcaggctgggccctgtgtGcagagggcttcctgctcaac	6	9	13	13	0	2	1	2	0	0	1	3	1	3	1	2	3	3	4	2	3	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:43659360G>A	uc003joe.2	+	17	2797	c.2542G>A	c.(2542-2544)GCA>ACA	p.A848T	NNT_uc003jof.2_Missense_Mutation_p.A848T	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	848	Helical; (Potential).				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	GGCCCTGTGTGCAGAGGGCTT	0.517													4	137					0	0	0.001168	0	0		A	43659360	A	A	43659360	3	1	48	1	0	0	0	0	1	0	0	0	10529	1319	46	2	2604	2	NNT	5	43659360	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4282303	43659360	137255900	196	36076											
HTR1A	3350	broad.mit.edu	37	chr5	63257457	63257457	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggtagctgacggtcacGtcggagataccagtagtgtt	9	11	13	8	3	1	2	1	1	0	1	2	3	1	2	1	3	2	4	1	3	3	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:63257457G>A	uc011cqt.1	-	1	90	c.90C>T	c.(88-90)GAC>GAT	p.D30D		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	30	Extracellular (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TGACGGTCACGTCGGAGATAC	0.627													32	59					0	0	0.003755	0	0		A	63257457	A	A	63257457	2	1	48	1	0	0	0	0	0	0	0	1	7452	1136	40	1		1	HTR1A	5	63257457	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	19598097	63257457	117657803	197	36077											
CCNB1	891	broad.mit.edu	37	chr5	68470196	68470196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attcaggttgttgcaggagaCcatgtacatgactgtctcca	10	12	10	9	0	2	2	1	1	1	1	3	3	2	2	2	2	2	4	2	2	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:68470196C>T	uc003jvm.2	+	5	842	c.665C>T	c.(664-666)ACC>ATC	p.T222I	CCNB1_uc011crd.1_Missense_Mutation_p.T222I|CCNB1_uc010ixb.2_Missense_Mutation_p.T222I	NM_031966	NP_114172	P14635	CCNB1_HUMAN	cyclin B1	222					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitotic cell cycle spindle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|mitotic spindle stabilization|positive regulation of attachment of spindle microtubules to kinetochore|positive regulation of mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	condensed nuclear chromosome outer kinetochore|cytosol|microtubule organizing center|nucleoplasm|spindle pole					0		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		TTGCAGGAGACCATGTACATG	0.438													7	170					0	0	0.004482	0	0		T	68470196	T	T	68470196	3	4	48	1	0	0	0	0	1	0	0	0	2914	507	18	4	683	4	CCNB1	5	68470196	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	5212739	68470196	112445064	198	36078											
ANKRA2	57763	broad.mit.edu	37	chr5	72857049	72857049	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgagaaatgctttgttgtAgagggggtgtagacatgcct	9	12	16	4	0	0	3	0	1	0	3	0	4	0	3	1	3	2	4	1	3	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:72857049A>G	uc003kcu.1	-	3	1000	c.354T>C	c.(352-354)TCT>TCC	p.S118S	ANKRA2_uc003kcv.2_Silent_p.S118S	NM_023039	NP_075526	Q9H9E1	ANRA2_HUMAN	ankyrin repeat, family A (RFXANK-like), 2	118						cytoskeleton|cytosol|membrane	low-density lipoprotein particle binding				0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)		OV - Ovarian serous cystadenocarcinoma(47;3.71e-54)		GCTTTGTTGTAGAGGGGGTGT	0.388													26	38					0	0	0.00333	0	0		G	72857049	G	G	72857049	2	3	48	1	0	0	0	0	0	0	0	1	636	407	15	3		3	ANKRA2	5	72857049	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	4386853	72857049	108058211	199	36079											
DMGDH	29958	broad.mit.edu	37	chr5	78328527	78328527	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacctgtactgagtgtcctgGcctggtttgtagaaccagtg	7	12	12	10	0	0	2	0	1	0	1	1	2	1	2	4	2	2	3	4	2	3	3	rs112410293		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:78328527G>A	uc003kfs.2	-	9	1506	c.1500C>T	c.(1498-1500)GGC>GGT	p.G500G	DMGDH_uc011cte.1_Silent_p.G350G|DMGDH_uc011ctf.1_Silent_p.G299G|DMGDH_uc011ctg.1_Silent_p.G120G	NM_013391	NP_037523	Q9UI17	M2GD_HUMAN	dimethylglycine dehydrogenase precursor	500					choline metabolic process|glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|dimethylglycine dehydrogenase activity|electron carrier activity			ovary(2)|liver(1)|skin(1)	4		all_lung(232;0.000638)|Lung NSC(167;0.00173)|Ovarian(174;0.0262)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;6.52e-45)|Epithelial(54;5.96e-40)|all cancers(79;3.56e-35)		GAGTGTCCTGGCCTGGTTTGT	0.547													8	263					0	0	0.00308	0	0		A	78328527	A	A	78328527	2	1	48	1	0	0	0	0	0	0	0	1	4587	1190	42	2		2	DMGDH	5	78328527	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5471478	78328527	102586733	200	36080											
HOMER1	9456	broad.mit.edu	37	chr5	78693429	78693429	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgagtatgtactgcatttGcttggctactaacacattca	11	15	7	8	0	1	1	1	1	0	0	1	1	1	1	0	1	5	5	0	1	5	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:78693429G>T	uc003kfy.2	-	7	1819	c.716C>A	c.(715-717)GCA>GAA	p.A239E	HOMER1_uc010jab.2_Intron|HOMER1_uc010jac.2_Missense_Mutation_p.A109E|HOMER1_uc010jad.2_Missense_Mutation_p.A65E	NM_004272	NP_004263	Q86YM7	HOME1_HUMAN	homer 1	239	Potential.				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic density|postsynaptic membrane					0		Lung NSC(167;0.00131)|all_lung(232;0.00151)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.87e-44)|Epithelial(54;7.07e-41)|all cancers(79;5.5e-36)		TACTGCATTTGCTTGGCTACT	0.328													22	69					7.87624e-14	8.7131e-14	0.00278	1	0		T	78693429	T	T	78693429	3	4	48	1	0	0	0	0	1	0	0	0	7294	1319	46	5	360	5	HOMER1	5	78693429	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	364902	78693429	102221831	201	36081											
VCAN	1462	broad.mit.edu	37	chr5	82835533	82835533	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaagtacaaaacattttccGaaaggcatgagaccaacaat	19	7	7	8	1	0	1	0	1	0	1	1	4	1	1	2	1	3	2	2	1	7	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:82835533G>A	uc003kii.3	+	8	7067	c.6711G>A	c.(6709-6711)CCG>CCA	p.P2237P	VCAN_uc003kij.3_Silent_p.P1250P|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Silent_p.P901P	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2237	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		AACATTTTCCGAAAGGCATGA	0.383													18	38					0	0	0.00499	0	0		A	82835533	A	A	82835533	2	1	48	1	0	0	0	0	0	0	0	1	17164	1045	37	1		1	VCAN	5	82835533	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4142104	82835533	98079727	202	36082											
CCNH	902	broad.mit.edu	37	chr5	86695286	86695286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaacagcaacttcttcagatCtgggtggttcatacttcttt	9	15	8	9	0	5	1	2	0	3	1	5	2	5	1	0	2	4	2	0	2	3	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:86695286C>T	uc003kjb.2	-	7	1029	c.797G>A	c.(796-798)AGA>AAA	p.R266K	CCNH_uc003kiy.1_RNA|CCNH_uc003kiz.1_Missense_Mutation_p.R213K|CCNH_uc003kja.2_Missense_Mutation_p.R213K	NM_001239	NP_001230	P51946	CCNH_HUMAN	cyclin H	266					G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	cyclin-dependent protein kinase activating kinase holoenzyme complex|holo TFIIH complex	protein kinase binding			ovary(2)|kidney(1)	3		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;9.01e-39)|Epithelial(54;5.08e-33)|all cancers(79;4.28e-28)		TTCTTCAGATCTGGGTGGTTC	0.383								Direct_reversal_of_damage|NER					47	121					0	0	0.01441	0	0		T	86695286	T	T	86695286	3	4	48	1	0	0	0	0	1	0	0	0	2928	913	32	4	186	4	CCNH	5	86695286	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3859753	86695286	94219974	203	36083											
CAMK4	814	broad.mit.edu	37	chr5	110809009	110809009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattttcactttttctgcagCacctgaaattcttagaggtt	10	17	6	8	0	3	2	1	1	2	1	3	2	3	2	1	1	2	3	1	1	3	7			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:110809009C>T	uc011cvj.1	+	9	725	c.626C>T	c.(625-627)GCA>GTA	p.A209V	CAMK4_uc003kpf.2_Missense_Mutation_p.A209V|CAMK4_uc010jbv.2_Missense_Mutation_p.A12V	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	209	Protein kinase.				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		TTTTCTGCAGCACCTGAAATT	0.318													12	66					0	0	0.001855	0	0		T	110809009	T	T	110809009	3	4	48	1	0	0	0	0	1	0	0	0	2608	724	25	2	656	2	CAMK4	5	110809009	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	24113723	110809009	70106251	204	36084											
APC	324	broad.mit.edu	37	chr5	112162834	112162834	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccattgcagaattattgCaagtggactgtgaaatgtat	13	12	11	5	0	0	2	0	1	0	1	0	3	0	3	1	2	2	3	1	2	5	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:112162834C>T	uc010jby.2	+	12	1818	c.1438C>T	c.(1438-1440)CAA>TAA	p.Q480*	APC_uc011cvt.1_Nonsense_Mutation_p.Q462*|APC_uc003kpz.3_Nonsense_Mutation_p.Q480*|APC_uc003kpy.3_Nonsense_Mutation_p.Q480*|APC_uc010jbz.2_Nonsense_Mutation_p.Q197*|APC_uc010jca.2_Intron	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	480	Leu-rich.|ARM 1.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		AGAATTATTGCAAGTGGACTG	0.378		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			19	35					0	0	0.010504	0	0		T	112162834	T	T	112162834	4	4	48	1	0	0	0	0	0	1	0	0	763	711	25	2	1480	2	APC	5	112162834	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1353825	112162834	68752426	205	36085											
PGGT1B	5229	broad.mit.edu	37	chr5	114588851	114588851	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtcttctgtgggaaggAcctgcagggaataaatccac	11	9	11	10	0	2	0	0	0	2	0	3	3	3	3	2	3	1	1	2	3	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:114588851A>G	uc003kqw.3	-	2	263	c.242T>C	c.(241-243)GTC>GCC	p.V81A	PGGT1B_uc003kqx.3_5'UTR|PGGT1B_uc010jch.2_Missense_Mutation_p.V81A	NM_005023	NP_005014	P53609	PGTB1_HUMAN	geranylgeranyltransferase type 1 beta	81					protein geranylgeranylation	CAAX-protein geranylgeranyltransferase complex	CAAX-protein geranylgeranyltransferase activity				0		all_cancers(142;0.000523)|all_epithelial(76;6.45e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		Epithelial(69;2.95e-08)|OV - Ovarian serous cystadenocarcinoma(64;4.98e-08)|all cancers(49;3.1e-06)	Pravastatin(DB00175)	TGTGGGAAGGACCTGCAGGGA	0.294													4	68					0	0	0.000602	0	0		G	114588851	G	G	114588851	3	3	48	1	0	0	0	0	1	0	0	0	11808	275	10	3	923	3	PGGT1B	5	114588851	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	2426017	114588851	66326409	206	36086											
ADAMTS19	171019	broad.mit.edu	37	chr5	128984551	128984551	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatacagaatatgtgagaaTccaccttgtcctgcaggttt	12	12	8	9	0	0	2	0	1	0	2	2	3	2	2	3	1	2	2	3	1	5	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:128984551T>A	uc003kvb.1	+	13	2046	c.2046T>A	c.(2044-2046)AAT>AAA	p.N682K	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	682	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		TATGTGAGAATCCACCTTGTC	0.393													31	80					0	0	0.004289	0	0		A	128984551	A	A	128984551	3	1	48	1	0	0	0	0	1	0	0	0	264	1432	50	5	2096	5	ADAMTS19	5	128984551	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	14395700	128984551	51930709	207	36087											
CHSY3	337876	broad.mit.edu	37	chr5	129243994	129243994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacacgactcatgaggatGtggaagtaggaagatgcgtt	12	10	14	5	2	1	2	1	1	0	1	1	6	1	5	0	3	2	3	0	3	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:129243994G>A	uc003kvd.2	+	2	1027	c.1027G>A	c.(1027-1029)GTG>ATG	p.V343M		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	343	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		TCATGAGGATGTGGAAGTAGG	0.468													12	53					0	0	0.003163	0	0		A	129243994	A	A	129243994	3	1	48	1	0	0	0	0	1	0	0	0	3416	1377	48	4	1033	4	CHSY3	5	129243994	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	259443	129243994	51671266	208	36088											
P4HA2	8974	broad.mit.edu	37	chr5	131539797	131539797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggaaacccggtagctggCgacagtgaggactcctgtct	8	10	13	10	2	1	1	0	1	1	0	2	4	2	3	2	4	2	2	2	4	2	2	rs147398523	by1000genomes	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:131539797C>T	uc003kwh.2	-	9	1693	c.1129G>A	c.(1129-1131)GCC>ACC	p.A377T	P4HA2_uc003kwg.2_Missense_Mutation_p.A377T|P4HA2_uc003kwi.2_Missense_Mutation_p.A377T|P4HA2_uc003kwk.2_Missense_Mutation_p.A377T|P4HA2_uc003kwl.2_Missense_Mutation_p.A377T|P4HA2_uc003kwj.2_Missense_Mutation_p.A377T	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	377						endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	CGGTAGCTGGCGACAGTGAGG	0.527													4	103					0	0	0.000602	0	0		T	131539797	T	T	131539797	3	4	48	1	0	0	0	0	1	0	0	0	11376	768	27	1	570	1	P4HA2	5	131539797	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2295803	131539797	49375463	209	36089											
TIFAB	497189	broad.mit.edu	37	chr5	134785283	134785283	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagggatgtgccttcttctAcgcgaaccagcatctggatg	8	10	11	12	2	3	0	0	0	3	0	3	3	3	2	3	2	4	1	3	2	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:134785283A>G	uc003law.3	-	2	548	c.347T>C	c.(346-348)GTA>GCA	p.V116A	C5orf20_uc003lav.2_5'Flank	NM_001099221	NP_001092691	Q6ZNK6	TIFAB_HUMAN	TIFA-related protein TIFAB	116											0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GCCTTCTTCTACGCGAACCAG	0.552													32	61					0	0	0.013726	0	0		G	134785283	G	G	134785283	3	3	48	1	0	0	0	0	1	0	0	0	15920	391	14	3	142	3	TIFAB	5	134785283	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	3245486	134785283	46129977	210	36090											
PCDHA10	56139	broad.mit.edu	37	chr5	140237829	140237829	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgagggcgcatgtgggccGgtgaagcccacgctggtgtg	6	6	18	11	4	0	1	0	1	0	0	0	2	0	1	3	4	1	2	3	4	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:140237829G>A	uc003lhx.2	+	1	2196	c.2196G>A	c.(2194-2196)CCG>CCA	p.P732P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc011dad.1_Silent_p.P732P	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	732	PXXP 1.|6 X 4 AA repeats of P-X-X-P.|Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CATGTGGGCCGGTGAAGCCCA	0.682													10	17					0	0	0.010729	0	0		A	140237829	A	A	140237829	2	1	48	1	0	0	0	0	0	0	0	1	11539	1103	39	1		1	PCDHA10	5	140237829	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5452546	140237829	40677431	211	36091											
PCDHA11	56138	broad.mit.edu	37	chr5	140248933	140248933	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaggtaaatctgcagaatgGcattttgtttgtgaattctc	10	15	11	5	0	2	2	0	1	2	1	3	3	2	3	0	3	1	4	0	3	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:140248933G>A	uc003lia.2	+	1	1103	c.245G>A	c.(244-246)GGC>GAC	p.G82D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.G82D	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	82	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCAGAATGGCATTTTGTTT	0.622													7	336					0	0	0.001984	0	0		A	140248933	A	A	140248933	3	1	48	1	0	0	0	0	1	0	0	0	11540	1203	42	2	247	2	PCDHA11	5	140248933	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	11104	140248933	40666327	212	36092											
PCDHB16	57717	broad.mit.edu	37	chr5	140563551	140563551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccctgcacatcggcagcGtcagcgccacagacagagac	10	3	11	17	4	1	2	1	0	0	2	2	3	1	2	3	1	3	2	3	1	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:140563551G>A	uc003liv.2	+	1	2572	c.1417G>A	c.(1417-1419)GTC>ATC	p.V473I	PCDHB16_uc010jfw.1_Missense_Mutation_p.V145I	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	473	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CATCGGCAGCGTCAGCGCCAC	0.627													11	191					0	0	0.008291	0	0		A	140563551	A	A	140563551	3	1	48	1	0	0	0	0	1	0	0	0	11560	1145	40	1	1419	1	PCDHB16	5	140563551	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	314618	140563551	40351709	213	36093											
PCDHB10	56126	broad.mit.edu	37	chr5	140573542	140573542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccctgcacatcggcagcGtcagcgccacagacagagac	10	3	11	17	4	1	2	1	0	0	2	2	3	1	2	3	1	3	2	3	1	0	0	rs17844566		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:140573542G>A	uc003lix.2	+	1	1591	c.1417G>A	c.(1417-1419)GTC>ATC	p.V473I		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	473	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CATCGGCAGCGTCAGCGCCAC	0.662													5	153					0	0	0.00308	0	0		A	140573542	A	A	140573542	3	1	48	1	0	0	0	0	1	0	0	0	11554	1145	40	1	1419	1	PCDHB10	5	140573542	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	9991	140573542	40341718	214	36094											
PCDHGB7	56099	broad.mit.edu	37	chr5	140799030	140799030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctcacgctgcaggcccGcgaccagggctcgcccgcgc	5	3	14	19	7	1	0	1	0	0	0	2	2	1	0	3	2	2	4	3	2	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:140799030G>A	uc003lkn.1	+	1	1749	c.1604G>A	c.(1603-1605)CGC>CAC	p.R535H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.R535H|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	535	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCAGGCCCGCGACCAGGGC	0.701													14	30					0	0	0.00245	0	0		A	140799030	A	A	140799030	3	1	48	1	0	0	0	0	1	0	0	0	11587	1087	38	1	1606	1	PCDHGB7	5	140799030	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	225488	140799030	40116230	215	36095											
PCDH1	5097	broad.mit.edu	37	chr5	141243291	141243291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcacaagaaccgccagggCgatgagcaaggccacggcca	12	1	14	14	4	0	2	0	1	0	1	0	3	0	2	4	3	2	2	4	3	3	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:141243291C>T	uc003llq.2	-	3	2722	c.2605G>A	c.(2605-2607)GCC>ACC	p.A869T	PCDH1_uc003llp.2_Missense_Mutation_p.A869T|PCDH1_uc011dbf.1_Missense_Mutation_p.A847T	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	869	Helical; (Potential).				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		ACCGCCAGGGCGATGAGCAAG	0.577													99	205					0	0	0.01441	0	0		T	141243291	T	T	141243291	3	4	48	1	0	0	0	0	1	0	0	0	11525	768	27	1	1204	1	PCDH1	5	141243291	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	444261	141243291	39671969	216	36096											
TCERG1	10915	broad.mit.edu	37	chr5	145878172	145878172	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caattgaaaagatgaaagacCgagaagccttgtttaatgag	17	9	10	5	1	0	6	0	3	0	3	0	7	0	6	2	0	1	1	2	0	6	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:145878172C>A	uc003lob.2	+	16	2345	c.2305C>A	c.(2305-2307)CGA>AGA	p.R769R	TCERG1_uc003loc.2_Silent_p.R748R	NM_006706	NP_006697	O14776	TCRG1_HUMAN	transcription elongation regulator 1 isoform 1	769	FF 2.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			ovary(1)|skin(1)	2		Lung NSC(249;0.00188)|all_lung(500;0.00307)|all_neural(839;0.0424)|Breast(839;0.0743)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GATGAAAGACCGAGAAGCCTT	0.393													3	30					6.4e-05	6.665e-05	0.004672	1	0		A	145878172	A	A	145878172	2	1	48	1	0	0	0	0	0	0	0	1	15710	644	23	5		5	TCERG1	5	145878172	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4634881	145878172	35037088	217	36097											
GPR151	134391	broad.mit.edu	37	chr5	145895064	145895064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatgccaggagtgggtagaGcttaccaaacatcgacataa	16	7	10	8	1	0	1	0	0	0	1	1	3	0	2	2	2	4	2	2	2	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:145895064G>A	uc003lod.1	-	1	613	c.613C>T	c.(613-615)CTC>TTC	p.L205F		NM_194251	NP_919227	Q8TDV0	GP151_HUMAN	G protein-coupled receptor 151	205	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGTGGGTAGAGCTTACCAAAC	0.433													10	20					0	0	0.008291	0	0		A	145895064	A	A	145895064	3	1	48	1	0	0	0	0	1	0	0	0	6672	971	34	2	650	2	GPR151	5	145895064	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	16892	145895064	35020196	218	36098											
PDE6A	5145	broad.mit.edu	37	chr5	149274815	149274815	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgtggtaggtgatcttgcgGtagcccttactcagggagta	7	13	14	7	1	2	1	1	1	1	0	2	2	2	2	1	4	3	3	1	4	4	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:149274815G>A	uc003lrg.3	-	13	1779	c.1659C>T	c.(1657-1659)TAC>TAT	p.Y553Y		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	553					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TGATCTTGCGGTAGCCCTTAC	0.592													41	75					0	0	0.013114	0	0		A	149274815	A	A	149274815	2	1	48	1	0	0	0	0	0	0	0	1	11664	1256	44	4		4	PDE6A	5	149274815	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3379751	149274815	31640445	219	36099											
SLC6A7	6534	broad.mit.edu	37	chr5	149581986	149581986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcctcacctttgcctcctAcaacacgtttcaccagaaca	10	10	4	17	1	2	1	2	0	0	1	4	1	4	1	5	0	4	2	5	0	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:149581986A>G	uc003lrr.2	+	7	1306	c.935A>G	c.(934-936)TAC>TGC	p.Y312C		NM_014228	NP_055043	Q99884	SC6A7_HUMAN	solute carrier family 6, member 7	312	Helical; Name=6; (Potential).					integral to plasma membrane|membrane fraction	neurotransmitter:sodium symporter activity|proline:sodium symporter activity				0		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Proline(DB00172)	TTTGCCTCCTACAACACGTTT	0.587													4	130					0	0	0.001984	0	0		G	149581986	G	G	149581986	3	3	48	1	0	0	0	0	1	0	0	0	14714	391	14	3	961	3	SLC6A7	5	149581986	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	307171	149581986	31333274	220	36100											
FAT2	2196	broad.mit.edu	37	chr5	150892047	150892047	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccatcaggcgaatggaagCgtccatctcctccaccagga	12	6	9	14	2	2	0	1	0	1	0	5	3	4	2	5	3	2	0	5	3	3	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:150892047C>T	uc003lue.3	-	20	11597	c.11584G>A	c.(11584-11586)GCT>ACT	p.A3862T	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3862	Extracellular (Potential).|Laminin G-like.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CGAATGGAAGCGTCCATCTCC	0.582													29	54					0	0	0.009535	0	0		T	150892047	T	T	150892047	3	4	48	1	0	0	0	0	1	0	0	0	5704	768	27	1	1481	1	FAT2	5	150892047	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1310061	150892047	30023213	221	36101											
FAT2	2196	broad.mit.edu	37	chr5	150948063	150948063	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagagaagagaggcttcaGgtcattctggtccaggatgt	10	10	15	6	0	3	2	2	0	1	2	4	6	4	4	1	5	0	1	1	5	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:150948063G>T	uc003lue.3	-	1	443	c.430C>A	c.(430-432)CTG>ATG	p.L144M	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.L144M	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	144	Extracellular (Potential).|Cadherin 1.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGAGGCTTCAGGTCATTCTGG	0.547													37	85					2.19489e-29	2.49035e-29	0.00623	1	0		T	150948063	T	T	150948063	3	4	48	1	0	0	0	0	1	0	0	0	5704	991	35	5	12711	5	FAT2	5	150948063	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	56016	150948063	29967197	222	36102											
MAT2B	27430	broad.mit.edu	37	chr5	162945228	162945228	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccctgtcctaggagcacaAcgtccgagaaatgctcagct	11	7	10	13	2	1	1	1	0	0	1	3	3	3	2	3	1	5	3	3	1	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:162945228A>G	uc003lzk.2	+	7	972	c.864A>G	c.(862-864)CAA>CAG	p.Q288Q	MAT2B_uc003lzj.2_Silent_p.Q277Q|MAT2B_uc003lzl.1_3'UTR|MAT2B_uc003lzm.2_Silent_p.Q28Q	NM_013283	NP_037415	Q9NZL9	MAT2B_HUMAN	methionine adenosyltransferase II, beta isoform	288					extracellular polysaccharide biosynthetic process|methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol|methionine adenosyltransferase complex|nucleus	dTDP-4-dehydrorhamnose reductase activity|methionine adenosyltransferase regulator activity|protein binding			upper_aerodigestive_tract(1)	1	Renal(175;0.000281)	Medulloblastoma(196;0.0208)|all_neural(177;0.0765)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.027)|OV - Ovarian serous cystadenocarcinoma(192;0.0406)|Epithelial(171;0.0797)	L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	TAGGAGCACAACGTCCGAGAA	0.423													10	23					0	0	0.010729	0	0		G	162945228	G	G	162945228	2	3	48	1	0	0	0	0	0	0	0	1	9349	40	2	3		3	MAT2B	5	162945228	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	11997165	162945228	17970032	223	36103											
ODZ2	57451	broad.mit.edu	37	chr5	167673928	167673928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgcctgaaagcaatgcttCggtcatctttgactacagtg	9	11	9	12	2	2	2	1	2	1	0	3	2	2	2	2	1	3	2	2	1	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:167673928C>T	uc010jjd.2	+	27	5957	c.5957C>T	c.(5956-5958)TCG>TTG	p.S1986L	ODZ2_uc003lzr.3_Missense_Mutation_p.S1756L|ODZ2_uc003lzt.3_Missense_Mutation_p.S1359L|ODZ2_uc010jje.2_Missense_Mutation_p.S1250L	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		AGCAATGCTTCGGTCATCTTT	0.537													16	57					0	0	0.003163	0	0		T	167673928	T	T	167673928	3	4	48	1	0	0	0	0	1	0	0	0	10854	893	31	1	6063	1	ODZ2	5	167673928	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4728700	167673928	13241332	224	36104											
RARS	5917	broad.mit.edu	37	chr5	167937620	167937620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgttcgggtgaaacagtgCgcctcatggatcttctggga	8	10	13	10	3	3	1	1	1	2	0	4	3	3	3	1	3	2	1	1	3	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:167937620C>T	uc003lzx.2	+	12	1422	c.1381C>T	c.(1381-1383)CGC>TGC	p.R461C	RARS_uc011deo.1_Missense_Mutation_p.R255C	NM_002887	NP_002878	P54136	SYRC_HUMAN	arginyl-tRNA synthetase	461					arginyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|skin(1)	3	Renal(175;0.000159)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0208)|all_neural(177;0.0227)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0693)|Epithelial(171;0.131)|OV - Ovarian serous cystadenocarcinoma(192;0.156)		TGAAACAGTGCGCCTCATGGA	0.363													3	33					0	0	0.004672	0	0		T	167937620	T	T	167937620	3	4	48	1	0	0	0	0	1	0	0	0	13083	768	27	1	1427	1	RARS	5	167937620	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	263692	167937620	12977640	225	36105											
DOCK2	1794	broad.mit.edu	37	chr5	169267846	169267846	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaccatgggccgggatcAcattctgattgtgagtggat	9	11	12	9	1	3	2	2	2	1	0	3	4	3	4	2	3	0	0	2	3	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:169267846A>G	uc003maf.2	+	27	2869	c.2789A>G	c.(2788-2790)CAC>CGC	p.H930R	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.H422R	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	930					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGCCGGGATCACATTCTGATT	0.463													9	33					0	0	0.004482	0	0		G	169267846	G	G	169267846	3	3	48	1	0	0	0	0	1	0	0	0	4693	159	6	3	2895	3	DOCK2	5	169267846	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	1330226	169267846	11647414	226	36106											
GRK6	2870	broad.mit.edu	37	chr5	176861093	176861093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggacctgcaccgggagcGcatcgtgtacaggtggggag	8	5	19	9	3	0	0	0	0	0	0	1	4	0	4	2	6	3	3	2	6	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:176861093G>A	uc011dfz.1	+	9	1077	c.917G>A	c.(916-918)CGC>CAC	p.R306H	GRK6_uc003mgp.2_Missense_Mutation_p.R306H|GRK6_uc003mgq.2_Missense_Mutation_p.R306H|GRK6_uc003mgs.1_Missense_Mutation_p.R276H	NM_002082	NP_002073	P43250	GRK6_HUMAN	G protein-coupled receptor kinase 6 isoform B	306	Protein kinase.				regulation of G-protein coupled receptor protein signaling pathway	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)|stomach(1)|breast(1)	3	all_cancers(89;1.15e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CACCGGGAGCGCATCGTGTAC	0.687													6	13					0	0	0.001984	0	0		A	176861093	A	A	176861093	3	1	48	1	0	0	0	0	1	0	0	0	6809	1087	38	1	951	1	GRK6	5	176861093	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	7593247	176861093	4054167	227	36107											
FLT4	2324	broad.mit.edu	37	chr5	180048836	180048836	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcggcttggcagctcaGgagcaccggctggccctcta	5	8	14	14	2	2	0	1	0	1	0	3	1	2	1	2	5	2	6	2	5	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:180048836G>T	uc003mma.3	-	13	1805	c.1726C>A	c.(1726-1728)CTG>ATG	p.L576M	FLT4_uc003mlz.3_Missense_Mutation_p.L576M|FLT4_uc003mmb.1_Missense_Mutation_p.L109M|FLT4_uc011dgy.1_Missense_Mutation_p.L576M	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	576	Ig-like C2-type 6.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	TGGCAGCTCAGGAGCACCGGC	0.627									Congenital_Hereditary_Lymphedema				24	83					9.04072e-19	1.00896e-18	0.003271	1	0		T	180048836	T	T	180048836	3	4	48	1	0	0	0	0	1	0	0	0	5958	991	35	5	2445	5	FLT4	5	180048836	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3187743	180048836	866424	228	36108											
FLT4	2324	broad.mit.edu	37	chr5	180056346	180056346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggtcgtgctggctgaCgttgtggatggtcaggatgc	5	10	17	9	2	1	1	1	1	0	0	2	3	1	3	1	5	2	3	1	5	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:180056346C>T	uc003mma.3	-	7	977	c.898G>A	c.(898-900)GTC>ATC	p.V300I	FLT4_uc003mlz.3_Missense_Mutation_p.V300I|FLT4_uc003mmb.1_5'UTR|FLT4_uc011dgy.1_Missense_Mutation_p.V300I|FLT4_uc011dgz.1_Intron	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	300	Ig-like C2-type 3.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	TGCTGGCTGACGTTGTGGATG	0.622									Congenital_Hereditary_Lymphedema				20	43					0	0	0.014323	0	0		T	180056346	T	T	180056346	3	4	48	1	0	0	0	0	1	0	0	0	5958	536	19	1	3297	1	FLT4	5	180056346	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	7510	180056346	858914	229	36109											
TRIM7	81786	broad.mit.edu	37	chr5	180630566	180630566	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagctccttgctctccttCttttccgtggaccggaacac	6	12	8	15	2	2	0	0	0	2	0	5	2	4	2	4	2	4	3	4	2	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr5:180630566C>A	uc003mmz.1	-	2	664	c.597G>T	c.(595-597)AAG>AAT	p.K199N	TRIM7_uc003mmv.1_5'Flank|TRIM7_uc003mmw.1_5'UTR|TRIM7_uc003mmx.1_5'UTR|TRIM7_uc003mmy.1_5'UTR|TRIM7_uc003mna.2_Missense_Mutation_p.K199N	NM_203293	NP_976038	Q9C029	TRIM7_HUMAN	tripartite motif-containing 7 isoform 1	199	Potential.					cytoplasm|nucleus	zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;6.03e-06)|all_epithelial(37;7.1e-07)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000172)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;2e-06)|Epithelial(171;1.35e-05)|OV - Ovarian serous cystadenocarcinoma(192;0.000128)|Kidney(146;0.0674)|GBM - Glioblastoma multiforme(465;0.0802)		TGCTCTCCTTCTTTTCCGTGG	0.577													23	36					3.28513e-13	3.62511e-13	0.003954	1	0		A	180630566	A	A	180630566	3	1	48	1	0	0	0	0	1	0	0	0	16569	912	32	5	1082	5	TRIM7	5	180630566	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	574220	180630566	284694	230	36110											
PRPF4B	8899	broad.mit.edu	37	chr6	4056600	4056600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agctttgcgattttgggtcgGcttcacatgttgcggataat	7	15	12	7	3	1	0	1	0	0	0	2	2	1	1	0	3	3	3	0	3	1	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:4056600G>A	uc003mvv.2	+	12	2603	c.2512G>A	c.(2512-2514)GCT>ACT	p.A838T	PRPF4B_uc003mvw.2_RNA|C6orf146_uc010jnq.1_Intron|PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	838	Protein kinase.					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				TTTTGGGTCGGCTTCACATGT	0.343													33	76					0	0	0.011902	0	0		A	4056600	A	A	4056600	3	1	48	1	0	0	0	0	1	0	0	0	12595	1203	42	2	2558	2	PRPF4B	6	4056600	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08		4056600	167058467	231	36111											
FARS2	10667	broad.mit.edu	37	chr6	5369396	5369396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagctggaggccgtgcGgctcttctccaagcatgagg	7	7	13	14	2	2	1	0	1	2	0	3	2	2	2	4	4	3	3	4	4	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:5369396G>A	uc010jnv.1	+	2	929	c.593G>A	c.(592-594)CGG>CAG	p.R198Q	FARS2_uc003mwr.2_Missense_Mutation_p.R198Q|FARS2_uc003mws.1_Missense_Mutation_p.R198Q	NM_006567	NP_006558	O95363	SYFM_HUMAN	phenylalanyl-tRNA synthetase 2 precursor	198					phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)	GAGGCCGTGCGGCTCTTCTCC	0.517													11	25					0	0	0.010729	0	0		A	5369396	A	A	5369396	3	1	48	1	0	0	0	0	1	0	0	0	5692	1116	39	1	595	1	FARS2	6	5369396	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1312796	5369396	165745671	232	36112											
TBC1D7	51256	broad.mit.edu	37	chr6	13316875	13316875	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgggtgatccagtaacagtcGacactatcttccaccatttc	10	11	7	13	2	1	1	0	1	1	0	5	2	3	1	3	1	1	1	3	1	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:13316875G>A	uc003naj.2	-	5	538	c.447C>T	c.(445-447)GTC>GTT	p.V149V	TBC1D7_uc011dis.1_RNA|TBC1D7_uc003nan.2_Silent_p.V149V|TBC1D7_uc003nal.2_Silent_p.V149V|TBC1D7_uc003nam.2_Silent_p.V149V|TBC1D7_uc003nao.2_Silent_p.V122V|TBC1D7_uc010jpd.2_Intron|TBC1D7_uc003nap.2_Silent_p.V122V	NM_016495	NP_057579	Q9P0N9	TBCD7_HUMAN	TBC1 domain family, member 7 isoform a	149	Rab-GAP TBC.				positive regulation of protein ubiquitination	cytoplasmic membrane-bounded vesicle	protein binding|Rab GTPase activator activity			ovary(1)	1	Breast(50;0.0296)|Ovarian(93;0.0339)	all_hematologic(90;0.135)	Epithelial(50;0.0784)|BRCA - Breast invasive adenocarcinoma(129;0.13)|all cancers(50;0.21)			AGTAACAGTCGACACTATCTT	0.423													5	184					0	0	0.001168	0	0		A	13316875	A	A	13316875	2	1	48	1	0	0	0	0	0	0	0	1	15649	1045	37	1		1	TBC1D7	6	13316875	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	7947479	13316875	157798192	233	36113											
MRS2	57380	broad.mit.edu	37	chr6	24418358	24418358	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcagaagagatggagttgCtgttggaaaactactaccga	14	9	12	6	1	0	2	0	0	0	2	0	6	0	4	1	2	5	4	1	2	5	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:24418358C>T	uc003neb.2	+	8	1005	c.883C>T	c.(883-885)CTG>TTG	p.L295L	MRS2_uc003nea.2_Silent_p.L295L|MRS2_uc011djl.1_Silent_p.L298L|MRS2_uc011djm.1_RNA|MRS2_uc011djn.1_Silent_p.L245L|MRS2_uc003nec.2_Silent_p.L172L	NM_020662	NP_065713	Q9HD23	MRS2_HUMAN	MRS2-like, magnesium homeostasis factor	295	Mitochondrial matrix (Potential).				ion transport	integral to membrane|mitochondrial inner membrane					0						GATGGAGTTGCTGTTGGAAAA	0.383													34	92					0	0	0.009718	0	0		T	24418358	T	T	24418358	2	4	48	1	0	0	0	0	0	0	0	1	9869	796	28	2		2	MRS2	6	24418358	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	11101483	24418358	146696709	234	36114											
ZNF322A	79692	broad.mit.edu	37	chr6	26638628	26638628	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagctaagttttcacagaAgttttgcttgcattcaaggc	12	13	9	7	0	2	2	2	0	0	2	2	2	2	2	0	1	3	5	0	1	4	7			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:26638628A>C	uc003nil.3	-	4	783	c.154T>G	c.(154-156)TTC>GTC	p.F52V	ZNF322A_uc003nij.2_5'Flank	NM_024639	NP_078915	Q6U7Q0	Z322A_HUMAN	zinc finger protein 322A	52	C2H2-type 1; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0						TTTTCACAGAAGTTTTGCTTG	0.363													74	230					0	0	0.01441	0	0		C	26638628	C	C	26638628	3	2	48	1	0	0	0	0	1	0	0	0	17866	72	3	5	1058	5	ZNF322A	6	26638628	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	2220270	26638628	144476439	235	36115											
HIST1H1B	3009	broad.mit.edu	37	chr6	27835239	27835241	+	In_Frame_Del	DEL	CTT	-	-																															ccggcagccttcttagttgcCttcttcttagccggggattt																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:27835239_27835241delCTT	uc003njx.2	-	1	119_121	c.67_69delAAG	c.(67-69)AAGdel	p.K23del		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	23					nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						TCTTAGTTGCCTTCTTCTTAGCC	0.606													11	24	---	---	---	---						.	-	27835241	-	-	27835239	7	5	48	1	0	1	0	1	0	0	0	0	7139	680	24	0	615	0	HIST1H1B	6	27835239	In_Frame_Del	DEL	CTT	TCGA-BR-7703-01A-11D-2053-08	1196611	27835239	143279828	236	36116											
OR2J2	26707	broad.mit.edu	37	chr6	29141713	29141713	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtatgctggttgcatggttCaactttactttgttcttgca	6	18	9	8	1	2	0	1	0	1	0	2	0	2	0	0	2	5	7	0	2	3	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:29141713C>A	uc011dlm.1	+	1	403	c.301C>A	c.(301-303)CAA>AAA	p.Q101K		NM_030905	NP_112167	O76002	OR2J2_HUMAN	olfactory receptor, family 2, subfamily J,	101	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTGCATGGTTCAACTTTACTT	0.478													43	106					8.28887e-21	9.28563e-21	0.01441	1	0		A	29141713	A	A	29141713	3	1	48	1	0	0	0	0	1	0	0	0	11022	827	29	5	303	5	OR2J2	6	29141713	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1306474	29141713	141973354	237	36117											
KIAA1949	170954	broad.mit.edu	37	chr6	30647115	30647115	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagtaccgaactctcggAggggtattggtacgtggtct	7	11	13	10	3	2	0	0	0	2	0	4	2	3	1	2	5	3	3	2	5	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:30647115A>G	uc003nra.2	-	3	1894	c.1663T>C	c.(1663-1665)TCC>CCC	p.S555P	KIAA1949_uc003nrb.3_Missense_Mutation_p.S555P	NM_001134870	NP_001128342	Q6NYC8	PHTNS_HUMAN	phostensin	555						cytoplasm|cytoskeleton	actin binding				0						GAACTCTCGGAGGGGTATTGG	0.612													3	55					0	0	0.000602	0	0		G	30647115	G	G	30647115	3	3	48	1	0	0	0	0	1	0	0	0	8279	304	11	3	186	3	KIAA1949	6	30647115	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	1505402	30647115	140467952	238	36118											
MDC1	9656	broad.mit.edu	37	chr6	30672422	30672422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcttcccctagtggtcCgagatgtgggctcagaggtg	5	14	13	9	1	2	2	1	0	1	2	4	3	4	2	3	3	0	1	3	3	1	4	rs148973631		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:30672422C>T	uc003nrg.3	-	10	4978	c.4538G>A	c.(4537-4539)CGG>CAG	p.R1513Q	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Missense_Mutation_p.R1120Q	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1513	Interaction with the PRKDC complex.				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						CCTAGTGGTCCGAGATGTGGG	0.577								Other_conserved_DNA_damage_response_genes					51	124					0	0	0.01441	0	0		T	30672422	T	T	30672422	3	4	48	1	0	0	0	0	1	0	0	0	9421	652	23	1	1755	1	MDC1	6	30672422	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	25307	30672422	140442645	239	36119											
C6orf27	80737	broad.mit.edu	37	chr6	31734483	31734483	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagaaatgcggctgaggatcCccaggattggctctggaacc	10	7	14	10	1	1	2	0	1	1	1	2	6	2	5	3	5	2	2	3	5	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:31734483C>T	uc011dog.1	-	14	2179	c.1941G>A	c.(1939-1941)GGG>GGA	p.G647G	C6orf27_uc003nxd.2_Silent_p.G322G	NM_025258	NP_079534	Q9Y334	G7C_HUMAN	G7c protein precursor	647						extracellular region				ovary(3)	3						GCTGAGGATCCCCAGGATTGG	0.622													5	92					0	0	0.000602	0	0		T	31734483	T	T	31734483	2	4	48	1	0	0	0	0	0	0	0	1	2365	610	22	4		4	C6orf27	6	31734483	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1062061	31734483	139380584	240	36120											
EHMT2	10919	broad.mit.edu	37	chr6	31857080	31857080	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccatgggctgtcttttcGccatttcttcttggccttgc	3	16	8	14	1	3	0	0	0	3	0	4	0	3	0	3	2	1	1	3	2	0	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:31857080G>A	uc003nxz.1	-	9	1049	c.1039C>T	c.(1039-1041)CGA>TGA	p.R347*	EHMT2_uc003nxy.1_Nonsense_Mutation_p.R138*|EHMT2_uc011don.1_Nonsense_Mutation_p.R404*|EHMT2_uc003nya.1_Nonsense_Mutation_p.R347*	NM_006709	NP_006700	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	347					DNA methylation|peptidyl-lysine dimethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			ovary(1)	1						CTGTCTTTTCGCCATTTCTTC	0.647													7	21					0	0	0.00308	0	0		A	31857080	A	A	31857080	4	1	48	1	0	0	0	0	0	1	0	0	4990	1095	38	1	2673	1	EHMT2	6	31857080	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	122597	31857080	139257987	241	36121											
SKIV2L	6499	broad.mit.edu	37	chr6	31931727	31931727	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccctcctggcctccctccGcacacgtgcccagttgcccg	3	8	9	21	3	0	0	0	0	0	0	4	0	4	0	7	1	2	2	7	1	0	1	rs147878364	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:31931727G>A	uc003nyn.1	+	16	2074	c.1685G>A	c.(1684-1686)CGC>CAC	p.R562H	SKIV2L_uc011dou.1_Missense_Mutation_p.R404H|SKIV2L_uc011dov.1_Missense_Mutation_p.R369H	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	562						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						GCCTCCCTCCGCACACGTGCC	0.632													79	204					0	0	0.01441	0	0		A	31931727	A	A	31931727	3	1	48	1	0	0	0	0	1	0	0	0	14384	1087	38	1	1747	1	SKIV2L	6	31931727	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	74647	31931727	139183340	242	36122											
TNXB	7148	broad.mit.edu	37	chr6	31977539	31977539	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatgtcccaaaacacgtTcaggggccgctcccggttgc	7	8	10	16	3	1	0	1	0	0	0	4	0	4	0	4	3	2	3	4	3	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:31977539T>C	uc011dpc.1	-	12	2365	c.1456A>G	c.(1456-1458)AAC>GAC	p.N486D		NM_032470	NP_115859	P22105	TENX_HUMAN	tenascin XB isoform 2	4102	Fibrinogen C-terminal.			N -> I (in Ref. 5; AAI25115).	actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CAAAACACGTTCAGGGGCCGC	0.667													7	11					0	0	0.004482	0	0		C	31977539	C	C	31977539	3	2	48	1	0	0	0	0	1	0	0	0	16371	1783	62	3	585	3	TNXB	6	31977539	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	45812	31977539	139137528	243	36123											
TNXB	7148	broad.mit.edu	37	chr6	32036744	32036744	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaccatttggagttgcccGtctctatctgtgtactggat	6	14	11	10	2	2	0	0	0	2	0	3	3	2	3	2	3	2	2	2	3	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:32036744G>A	uc003nzl.2	-	16	5959	c.5757C>T	c.(5755-5757)GAC>GAT	p.D1919D		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2001	Fibronectin type-III 12.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GGAGTTGCCCGTCTCTATCTG	0.532													51	104					0	0	0.01441	0	0		A	32036744	A	A	32036744	2	1	48	1	0	0	0	0	0	0	0	1	16371	1136	40	1		1	TNXB	6	32036744	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	59205	32036744	139078323	244	36124											
HLA-DMB	3109	broad.mit.edu	37	chr6	32903313	32903313	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagttcagcgagtcactcacTagagtggccagctctccgcc	8	8	11	14	2	4	1	3	0	1	1	5	3	4	1	3	1	2	2	3	1	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:32903313T>C	uc003ocl.1	-	4	972	c.739A>G	c.(739-741)AGT>GGT	p.S247G	HLA-DMB_uc003ocj.1_3'UTR|HLA-DMB_uc003ock.1_RNA|HLA-DMB_uc010jud.1_Missense_Mutation_p.R116G|HLA-DMB_uc010jue.1_Intron|HLA-DMB_uc010juf.1_Intron	NM_002118	NP_002109	P28068	DMB_HUMAN	major histocompatibility complex, class II, DM	247	Cytoplasmic (Potential).				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0						AGTCACTCACTAGAGTGGCCA	0.517													49	106					0	0	0.01441	0	0		C	32903313	C	C	32903313	3	2	48	1	0	0	0	0	1	0	0	0	7215	1536	53	3	64	3	HLA-DMB	6	32903313	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	866569	32903313	138211754	245	36125											
TAPBP	6892	broad.mit.edu	37	chr6	33281220	33281220	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgggggcgccccggggataCcgcctgaaggcagcctggag	6	3	19	13	4	0	1	0	1	0	0	0	3	0	3	5	6	2	1	5	6	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:33281220C>G	uc003odx.1	-	3	414	c.243G>C	c.(241-243)CGG>CGC	p.R81R	TAPBP_uc010jus.1_Silent_p.R81R|TAPBP_uc003ody.2_Silent_p.R81R|TAPBP_uc003odz.2_Silent_p.R81R|TAPBP_uc010jut.1_Intron|TAPBP_uc011drc.1_Silent_p.R81R	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	81	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1						CCCGGGGATACCGCCTGAAGG	0.687													5	12					0	0	0.000602	0	0		G	33281220	G	G	33281220	2	3	48	1	0	0	0	0	0	0	0	1	15577	494	18	5		5	TAPBP	6	33281220	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	377907	33281220	137833847	246	36126											
GRM4	2914	broad.mit.edu	37	chr6	34101144	34101144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgatgtccccatctatgcGgatggaattcatgtgagggt	8	13	13	7	1	2	2	1	2	1	0	3	4	3	4	2	3	1	0	2	3	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:34101144G>A	uc003oir.3	-	1	300	c.130C>T	c.(130-132)CGC>TGC	p.R44C	GRM4_uc011dsn.1_Missense_Mutation_p.R44C|GRM4_uc010jvh.2_Missense_Mutation_p.R44C|GRM4_uc010jvi.2_5'UTR|GRM4_uc010jvk.1_Intron	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	44	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity	p.R44C(2)		lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	CCATCTATGCGGATGGAATTC	0.612													3	33					0	0	0.004672	0	0		A	34101144	A	A	34101144	3	1	48	1	0	0	0	0	1	0	0	0	6815	1116	39	1	2648	1	GRM4	6	34101144	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	819924	34101144	137013923	247	36127											
STK38	11329	broad.mit.edu	37	chr6	36465583	36465583	+	Frame_Shift_Del	DEL	A	-	-																															tgttcccagtcaacgccttcAaaaaaagagttactttttat																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:36465583delA	uc003omg.2	-	11	1734	c.1146delT	c.(1144-1146)TTTfs	p.F382fs	STK38_uc003omh.2_Frame_Shift_Del_p.F382fs|STK38_uc003omi.2_Frame_Shift_Del_p.F382fs	NM_007271	NP_009202	Q15208	STK38_HUMAN	serine/threonine kinase 38	382	Protein kinase.				intracellular protein kinase cascade|negative regulation of MAP kinase activity	cytoplasm|MLL5-L complex	ATP binding|magnesium ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6						CAACGCCTTCAAAAAAAGAGT	0.368													17	31	---	---	---	---						.	-	36465583	-	-	36465583	7	5	48	1	0	1	0	1	0	0	0	0	15328	127	5	0	263	0	STK38	6	36465583	Frame_Shift_Del	DEL	A	TCGA-BR-7703-01A-11D-2053-08	2364439	36465583	134649484	248	36128											
MTCH1	23787	broad.mit.edu	37	chr6	36946316	36946316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagtcacagtagagagggCgttggacatcagccggggac	10	5	16	10	3	2	1	2	0	0	1	2	5	2	3	2	4	1	2	2	4	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:36946316C>T	uc003ond.1	-	3	478	c.478G>A	c.(478-480)GCC>ACC	p.A160T	MTCH1_uc003onc.1_Missense_Mutation_p.A160T|MTCH1_uc010jwo.1_RNA|MTCH1_uc003one.3_Missense_Mutation_p.A160T|MTCH1_uc011dtt.1_5'UTR	NM_014341	NP_055156	Q9NZJ7	MTCH1_HUMAN	mitochondrial carrier homolog 1	160	Solcar 1.				activation of caspase activity|neuronal ion channel clustering|positive regulation of apoptosis|regulation of signal transduction|transport	integral to membrane|mitochondrial inner membrane	protein binding				0						GTAGAGAGGGCGTTGGACATC	0.567													33	101					0	0	0.010771	0	0		T	36946316	T	T	36946316	3	4	48	1	0	0	0	0	1	0	0	0	9931	768	27	1	680	1	MTCH1	6	36946316	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	480733	36946316	134168751	249	36129											
MOCS1	4337	broad.mit.edu	37	chr6	39881119	39881119	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggccctcagtcaaggcCgcaaagtccaggagttcatc	10	6	13	12	1	3	0	3	0	0	0	5	2	4	2	3	4	0	2	3	4	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:39881119C>T	uc003opb.2	-	5	837	c.699G>A	c.(697-699)GCG>GCA	p.A233A	MOCS1_uc003opa.2_Silent_p.A233A|MOCS1_uc003opc.2_Silent_p.A233A|MOCS1_uc003opd.2_Silent_p.A233A|MOCS1_uc003ope.2_Silent_p.A146A	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	233	Molybdenum cofactor biosynthesis protein A.			A -> V (in Ref. 3; BAG51799/BAG62053).	Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding			ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CAGTCAAGGCCGCAAAGTCCA	0.577													23	55					0	0	0.004656	0	0		T	39881119	T	T	39881119	2	4	48	1	0	0	0	0	0	0	0	1	9708	639	23	1		1	MOCS1	6	39881119	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2934803	39881119	131233948	250	36130											
TREM1	54210	broad.mit.edu	37	chr6	41243898	41243898	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcagcgtgacagcaaacaGgacagagaagaccaggctct	14	4	11	12	1	2	3	1	1	1	2	2	5	2	4	2	2	3	2	2	2	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:41243898G>T	uc003oqf.1	-	4	734	c.670C>A	c.(670-672)CTG>ATG	p.L224M	TREM1_uc003oqg.1_3'UTR	NM_018643	NP_061113	Q9NP99	TREM1_HUMAN	triggering receptor expressed on myeloid cells 1	224	Helical; (Potential).				blood coagulation|humoral immune response|intracellular signal transduction|leukocyte migration	extracellular region|integral to membrane|intracellular|plasma membrane	receptor activity			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)				Glutathione(DB00143)	ACAGCAAACAGGACAGAGAAG	0.547													19	63					1.87028e-06	1.98703e-06	0.012319	1	0		T	41243898	T	T	41243898	3	4	48	1	0	0	0	0	1	0	0	0	16496	991	35	5	38	5	TREM1	6	41243898	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1362779	41243898	129871169	251	36131											
NCR2	9436	broad.mit.edu	37	chr6	41309825	41309825	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcccccattgccctggtGcctgtgttctgtggactcct	3	12	11	15	0	1	0	0	0	1	0	2	1	2	1	5	2	3	2	5	2	0	2	rs138366454	by1000genomes	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:41309825G>A	uc003oqh.2	+	4	669	c.582G>A	c.(580-582)GTG>GTA	p.V194V	NCR2_uc003oqi.2_Silent_p.V206V|NCR2_uc003oqj.2_Silent_p.V194V	NM_004828	NP_004819	O95944	NCTR2_HUMAN	natural cytotoxicity triggering receptor 2	194	Helical; (Potential).				cellular defense response	integral to plasma membrane	transmembrane receptor activity			ovary(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					TTGCCCTGGTGCCTGTGTTCT	0.637													47	104					0	0	0.01441	0	0		A	41309825	A	A	41309825	2	1	48	1	0	0	0	0	0	0	0	1	10257	1306	46	2		2	NCR2	6	41309825	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	65927	41309825	129805242	252	36132											
GUCA1A	2978	broad.mit.edu	37	chr6	42146094	42146094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggtggaacagaagctccGctggtacttcaagctctatg	11	9	12	9	1	2	1	1	0	1	1	3	3	3	2	1	3	4	4	1	3	6	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:42146094G>A	uc003orx.2	+	4	923	c.278G>A	c.(277-279)CGC>CAC	p.R93H	GUCA1A_uc011duo.1_RNA|GUCA1A_uc010jxt.2_Missense_Mutation_p.R93H	NM_000409	NP_000400	P43080	GUC1A_HUMAN	guanylate cyclase activator 1A (retina)	93	EF-hand 3.				signal transduction|visual perception	membrane	calcium ion binding|calcium sensitive guanylate cyclase activator activity				0	Colorectal(47;0.196)		STAD - Stomach adenocarcinoma(11;5.54e-05)|Epithelial(12;0.000167)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CAGAAGCTCCGCTGGTACTTC	0.617													5	146					0	0	0.001984	0	0		A	42146094	A	A	42146094	3	1	48	1	0	0	0	0	1	0	0	0	6904	1087	38	1	284	1	GUCA1A	6	42146094	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	836269	42146094	128968973	253	36133											
CYP39A1	51302	broad.mit.edu	37	chr6	46607365	46607365	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttcaacataatatagagTttttcatgcagtgctaaaaa	15	14	5	7	0	2	1	2	0	0	1	2	1	2	1	1	0	3	3	1	0	7	7			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:46607365T>A	uc003oyf.1	-	3	558	c.354A>T	c.(352-354)AAA>AAT	p.K118N	CYP39A1_uc011dwa.1_Intron|CYP39A1_uc010jzd.1_Intron	NM_016593	NP_057677	Q9NYL5	CP39A_HUMAN	cytochrome P450, family 39, subfamily A,	118					bile acid biosynthetic process|bile acid catabolic process|digestion|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	24-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(1)	1						TAATATAGAGTTTTTCATGCA	0.348													10	24					0	0	0.010729	0	0		A	46607365	A	A	46607365	3	1	48	1	0	0	0	0	1	0	0	0	4180	1722	60	5	1095	5	CYP39A1	6	46607365	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	4461271	46607365	124507702	254	36134											
FILIP1	27145	broad.mit.edu	37	chr6	76024734	76024734	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttccctcagcttctgagTaagatcctgtactttctggc	6	16	7	12	0	4	2	1	1	3	1	6	2	6	2	2	1	2	3	2	1	2	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:76024734T>C	uc003pia.2	-	5	1187	c.814A>G	c.(814-816)ACT>GCT	p.T272A	FILIP1_uc003phy.1_Missense_Mutation_p.T272A|FILIP1_uc003phz.2_Missense_Mutation_p.T173A|FILIP1_uc010kbe.2_Missense_Mutation_p.T275A|FILIP1_uc003pib.1_Missense_Mutation_p.T24A	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	272	Potential.									skin(3)|ovary(1)	4						AGCTTCTGAGTAAGATCCTGT	0.413													40	68					0	0	0.011902	0	0		C	76024734	C	C	76024734	3	2	48	1	0	0	0	0	1	0	0	0	5908	1638	57	3	2835	3	FILIP1	6	76024734	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	29417369	76024734	95090333	255	36135											
LCA5	167691	broad.mit.edu	37	chr6	80223368	80223368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taacaagatcagtatctttcCgaagtggctctctattgagg	11	13	9	8	1	3	2	1	1	2	1	5	3	4	2	1	2	1	2	1	2	5	5	rs34531407	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:80223368C>T	uc003pix.2	-	3	716	c.281G>A	c.(280-282)CGG>CAG	p.R94Q	LCA5_uc003piy.2_Missense_Mutation_p.R94Q|LCA5_uc011dyq.1_RNA|LCA5_uc011dyr.1_Missense_Mutation_p.R94Q	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	94					protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		AGTATCTTTCCGAAGTGGCTC	0.453													53	141					0	0	0.01441	0	0		T	80223368	T	T	80223368	3	4	48	1	0	0	0	0	1	0	0	0	8672	652	23	1	1836	1	LCA5	6	80223368	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4198634	80223368	90891699	256	36136											
BCKDHB	594	broad.mit.edu	37	chr6	80881109	80881109	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atactttacagggcagcaggTaaagattttctttattttat	12	17	7	5	0	1	1	0	0	1	1	1	1	1	1	0	2	3	3	0	2	6	10			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:80881109T>C	uc003pjd.2	+	6	809	c.742_splice	c.e6+2	p.A248_splice	BCKDHB_uc003pje.2_Splice_Site_p.A248_splice	NM_000056	NP_000047	P21953	ODBB_HUMAN	branched chain keto acid dehydrogenase E1 beta						branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|carboxy-lyase activity|protein binding				0		all_cancers(76;1.38e-05)|Acute lymphoblastic leukemia(125;1.15e-05)|all_hematologic(105;0.00118)|all_epithelial(107;0.0149)		BRCA - Breast invasive adenocarcinoma(397;0.0291)		GGGCAGCAGGTAAAGATTTTC	0.279													5	10					0	0	0.001168	0	0		C	80881109	C	C	80881109	5	2	48	1	0	0	0	0	0	0	1	0	1361	1652	57	3	766	3	BCKDHB	6	80881109	Splice_Site	SNP	T	TCGA-BR-7703-01A-11D-2053-08	657741	80881109	90233958	257	36137											
SNX14	57231	broad.mit.edu	37	chr6	86256893	86256893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcagaaagttcataaaacGaaataaaagatcttgttgct	17	13	6	5	1	3	2	2	0	1	2	3	3	3	2	0	0	2	3	0	0	6	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:86256893G>A	uc003pkr.2	-	12	1238	c.1045C>T	c.(1045-1047)CGT>TGT	p.R349C	SNX14_uc003pkp.2_Missense_Mutation_p.R212C|SNX14_uc003pkq.2_5'UTR|SNX14_uc011dzg.1_Missense_Mutation_p.R297C|SNX14_uc003pks.2_Missense_Mutation_p.R305C|SNX14_uc003pkt.2_Missense_Mutation_p.R349C	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a	349	RGS.				cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		TTCATAAAACGAAATAAAAGA	0.338													7	30					0	0	0.00308	0	0		A	86256893	A	A	86256893	3	1	48	1	0	0	0	0	1	0	0	0	14910	1058	37	1	1867	1	SNX14	6	86256893	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5375784	86256893	84858174	258	36138											
SNX14	57231	broad.mit.edu	37	chr6	86283982	86283982	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacataattttaccttgggTttgtattttattgtgaagaa	12	18	7	4	0	0	2	0	1	0	1	0	2	0	2	1	1	1	2	1	1	6	9			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:86283982T>C	uc003pkr.2	-	2	448	c.255A>G	c.(253-255)AAA>AAG	p.K85K	SNX14_uc003pkq.2_5'UTR|SNX14_uc011dzg.1_Silent_p.K33K|SNX14_uc003pks.2_Silent_p.K85K|SNX14_uc003pkt.2_Silent_p.K85K	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a	85					cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		TTACCTTGGGTTTGTATTTTA	0.313													19	45					0	0	0.012319	0	0		C	86283982	C	C	86283982	2	2	48	1	0	0	0	0	0	0	0	1	14910	1722	60	3		3	SNX14	6	86283982	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	27089	86283982	84831085	259	36139											
EPHA7	2045	broad.mit.edu	37	chr6	93982022	93982022	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttagcacttactttctcGtaatacttgatttcatattc	9	19	3	10	1	3	1	1	1	2	0	5	1	3	1	0	0	3	2	0	0	5	9			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:93982022G>A	uc003poe.2	-	6	1684	c.1443C>T	c.(1441-1443)TAC>TAT	p.Y481Y	EPHA7_uc003pof.2_Silent_p.Y481Y|EPHA7_uc011eac.1_Silent_p.Y481Y	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	481	Extracellular (Potential).|Fibronectin type-III 2.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		TTACTTTCTCGTAATACTTGA	0.423													55	139					0	0	0.01441	0	0		A	93982022	A	A	93982022	2	1	48	1	0	0	0	0	0	0	0	1	5180	1140	40	1		1	EPHA7	6	93982022	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	7698040	93982022	77133045	260	36140											
SOBP	55084	broad.mit.edu	37	chr6	107955431	107955431	+	Frame_Shift_Del	DEL	C	-	-																															atgctatcgccccacatccaCcccccgagcacccccaccat																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:107955431delC	uc003prx.2	+	6	1887	c.1383delC	c.(1381-1383)CACfs	p.H461fs		NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	461	Pro-rich.						metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)		CCCACATCCACCCCCCGAGCA	0.746													7	15	---	---	---	---						.	-	107955431	-	-	107955431	7	5	48	1	0	1	0	1	0	0	0	0	14937	506	18	0	1405	0	SOBP	6	107955431	Frame_Shift_Del	DEL	C	TCGA-BR-7703-01A-11D-2053-08	13973409	107955431	63159636	261	36141											
HDDC2	51020	broad.mit.edu	37	chr6	125619888	125619888	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctatgtttttcttctttgGggatgttatctgctggtgct	3	20	11	7	0	3	0	0	0	3	0	3	1	3	1	1	3	2	4	1	3	2	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:125619888G>T	uc003qaa.1	-	3	485	c.281C>A	c.(280-282)CCC>CAC	p.P94H	HDDC2_uc003qab.1_Intron	NM_016063	NP_057147	Q7Z4H3	HDDC2_HUMAN	HD domain containing 2	94	HD.						metal ion binding|phosphoric diester hydrolase activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0186)		TTCTTCTTTGGGGATGTTATC	0.308													24	53					1.32181e-22	1.49019e-22	0.007291	1	0		T	125619888	T	T	125619888	3	4	48	1	0	0	0	0	1	0	0	0	7032	1232	43	5	349	5	HDDC2	6	125619888	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	17664457	125619888	45495179	262	36142											
TMEM200A	114801	broad.mit.edu	37	chr6	130762378	130762378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caactgatgataagaccagcGgctctaagaaatgtgaaacc	16	7	9	9	1	1	5	0	3	1	2	1	5	1	5	2	1	3	1	2	1	5	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:130762378G>A	uc003qca.2	+	3	1682	c.811G>A	c.(811-813)GGC>AGC	p.G271S	TMEM200A_uc010kfh.2_Missense_Mutation_p.G271S|TMEM200A_uc010kfi.2_Missense_Mutation_p.G271S|TMEM200A_uc003qcb.2_Missense_Mutation_p.G271S	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	271	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		TAAGACCAGCGGCTCTAAGAA	0.453													31	83					0	0	0.005524	0	0		A	130762378	A	A	130762378	3	1	48	1	0	0	0	0	1	0	0	0	16148	1116	39	1	813	1	TMEM200A	6	130762378	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5142490	130762378	40352689	263	36143											
MOXD1	26002	broad.mit.edu	37	chr6	132643931	132643931	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcgaaaatgacgcagccTgatgcctctgccagccaggt	9	10	10	12	2	1	2	0	2	1	0	2	3	1	2	4	1	4	1	4	1	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:132643931T>C	uc003qdf.2	-	8	1291	c.1192A>G	c.(1192-1194)AGG>GGG	p.R398G	MOXD1_uc003qde.2_Missense_Mutation_p.R330G	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	398	Lumenal (Potential).				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		TGACGCAGCCTGATGCCTCTG	0.448													17	43					0	0	0.006122	0	0		C	132643931	C	C	132643931	3	2	48	1	0	0	0	0	1	0	0	0	9738	1579	55	3	669	3	MOXD1	6	132643931	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	1881553	132643931	38471136	264	36144											
HIVEP2	3097	broad.mit.edu	37	chr6	143093193	143093193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaggtttatcaggctcctCggtcactcgaatctcaggaa	9	11	9	12	2	4	0	4	0	1	0	8	2	5	1	1	4	0	2	1	4	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:143093193C>T	uc003qjd.2	-	5	3426	c.2683G>A	c.(2683-2685)GAG>AAG	p.E895K		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	895					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		TCAGGCTCCTCGGTCACTCGA	0.537													11	32					0	0	0.003163	0	0		T	143093193	T	T	143093193	3	4	48	1	0	0	0	0	1	0	0	0	7203	893	31	1	4681	1	HIVEP2	6	143093193	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	10449262	143093193	28021874	265	36145											
UTRN	7402	broad.mit.edu	37	chr6	144780470	144780470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagaggctgtagaggatcGtcaacaacatctagagaatg	16	7	11	7	1	2	3	1	0	1	3	3	5	2	4	0	2	2	2	0	2	6	2	rs115273171	by1000genomes	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:144780470G>A	uc003qkt.2	+	20	2779	c.2687G>A	c.(2686-2688)CGT>CAT	p.R896H	UTRN_uc010khq.1_Missense_Mutation_p.R896H	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	896	Interaction with SYNM.|Spectrin 6.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GTAGAGGATCGTCAACAACAT	0.463													18	51					0	0	0.014323	0	0		A	144780470	A	A	144780470	3	1	48	1	0	0	0	0	1	0	0	0	17129	1145	40	1	2765	1	UTRN	6	144780470	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1687277	144780470	26334597	266	36146											
SYNE1	23345	broad.mit.edu	37	chr6	152476161	152476161	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaatttctgccacaatcGccacgtctcttcgattctgg	9	12	7	13	3	3	1	0	0	3	1	6	2	3	1	2	1	1	0	2	1	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:152476161G>A	uc010kiw.2	-	133	24597	c.23995C>T	c.(23995-23997)CGA>TGA	p.R7999*	SYNE1_uc010kiv.2_Nonsense_Mutation_p.R2523*|SYNE1_uc003qos.3_Nonsense_Mutation_p.R2523*|SYNE1_uc003qot.3_Nonsense_Mutation_p.R7928*|SYNE1_uc003qou.3_Nonsense_Mutation_p.R7999*|SYNE1_uc003qop.3_Nonsense_Mutation_p.R161*|SYNE1_uc011eez.1_Nonsense_Mutation_p.R201*|SYNE1_uc003qoq.3_Nonsense_Mutation_p.R201*|SYNE1_uc003qor.3_Nonsense_Mutation_p.R899*	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7999	Spectrin 29.|Cytoplasmic (Potential).|HAT 12.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TGCCACAATCGCCACGTCTCT	0.473										HNSCC(10;0.0054)			25	92					0	0	0.00632	0	0		A	152476161	A	A	152476161	4	1	48	1	0	0	0	0	0	1	0	0	15470	1095	38	1	2527	1	SYNE1	6	152476161	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	7695691	152476161	18638906	267	36147											
FRMD1	79981	broad.mit.edu	37	chr6	168461723	168461723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgctgatataggactcccGgtagtgctgcttctctgtgg	6	13	12	10	2	1	1	0	1	1	0	4	2	2	2	1	3	2	4	1	3	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:168461723G>A	uc003qwo.3	-	9	1125	c.1060C>T	c.(1060-1062)CGG>TGG	p.R354W	FRMD1_uc003qwm.3_Missense_Mutation_p.R148W|FRMD1_uc011egs.1_Missense_Mutation_p.R125W|FRMD1_uc011egt.1_Missense_Mutation_p.R289W|FRMD1_uc003qwn.3_Missense_Mutation_p.R286W	NM_024919	NP_079195	Q8N878	FRMD1_HUMAN	FERM domain containing 1 isoform 1	354	FERM.					cytoskeleton	binding			ovary(1)	1		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		TAGGACTCCCGGTAGTGCTGC	0.642													7	9					0	0	0.004482	0	0		A	168461723	A	A	168461723	3	1	48	1	0	0	0	0	1	0	0	0	6063	1115	39	1	601	1	FRMD1	6	168461723	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	15985562	168461723	2653344	268	36148											
DLL1	28514	broad.mit.edu	37	chr6	170592538	170592538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggtgttcttgatctgcGtggccccgatgatgctgact	4	15	13	9	2	2	3	0	3	2	0	2	4	2	3	2	2	2	3	2	2	0	3	rs139409566	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr6:170592538G>A	uc003qxm.2	-	9	2299	c.1829C>T	c.(1828-1830)ACG>ATG	p.T610M		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	610	Cytoplasmic (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		CTTGATCTGCGTGGCCCCGAT	0.622													5	128					0	0	0.001168	0	0		A	170592538	A	A	170592538	3	1	48	1	0	0	0	0	1	0	0	0	4572	1145	40	1	354	1	DLL1	6	170592538	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2130815	170592538	522529	269	36149											
SDK1	221935	broad.mit.edu	37	chr7	4188998	4188998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacggggcctcccccatcCggtacttcaccatgcaggtg	6	7	12	16	3	1	0	1	0	0	0	3	1	3	0	5	4	2	2	5	4	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:4188998C>T	uc003smx.2	+	30	4667	c.4528C>T	c.(4528-4530)CGG>TGG	p.R1510W	SDK1_uc010kso.2_Missense_Mutation_p.R786W|SDK1_uc003smy.2_5'UTR	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1510	Fibronectin type-III 9.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CTCCCCCATCCGGTACTTCAC	0.677													4	7					0	0	0.000602	0	0		T	4188998	T	T	4188998	3	4	48	1	0	0	0	0	1	0	0	0	13993	643	23	1	4646	1	SDK1	7	4188998	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08		4188998	154949665	270	36150											
THSD7A	221981	broad.mit.edu	37	chr7	11675852	11675852	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttgttctcttgtctgttCtgcctgtttctgtttctctt	1	25	6	9	0	5	0	0	0	5	0	7	0	5	0	1	0	1	4	1	0	1	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:11675852C>A	uc003ssf.3	-	2	1179	c.927G>T	c.(925-927)CAG>CAT	p.Q309H		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	309	Extracellular (Potential).|Potential.					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		CTTGTCTGTTCTGCCTGTTTC	0.443										HNSCC(18;0.044)			35	65					4.4194e-11	4.84056e-11	0.013726	1	0		A	11675852	A	A	11675852	3	1	48	1	0	0	0	0	1	0	0	0	15904	912	32	5	4150	5	THSD7A	7	11675852	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	7486854	11675852	147462811	271	36151											
DFNA5	1687	broad.mit.edu	37	chr7	24784260	24784260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatgaagactggctctctaCgcggctgctgccccccaggt	8	8	11	14	2	1	2	0	1	1	1	2	2	1	2	3	3	3	3	3	3	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:24784260C>T	uc010kus.1	-	3	413	c.325G>A	c.(325-327)GTA>ATA	p.V109I	DFNA5_uc003swz.2_5'UTR|DFNA5_uc003sxa.1_Missense_Mutation_p.V109I|DFNA5_uc010kut.1_5'UTR|DFNA5_uc003sxb.2_Missense_Mutation_p.V109I|DFNA5_uc003sxc.2_Missense_Mutation_p.V109I	NM_001127453	NP_001120925	O60443	DFNA5_HUMAN	deafness, autosomal dominant 5 protein isoform	109					sensory perception of sound					ovary(1)	1						TGGCTCTCTACGCGGCTGCTG	0.547													23	32					0	0	0.00333	0	0		T	24784260	T	T	24784260	3	4	48	1	0	0	0	0	1	0	0	0	4460	536	19	1	1197	1	DFNA5	7	24784260	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	13108408	24784260	134354403	272	36152											
WIPF3	644150	broad.mit.edu	37	chr7	29915533	29915533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagcaaggaactcgcctgCgcaaagtcacgcagatcaac	13	5	9	14	3	2	1	2	0	0	1	4	2	3	2	2	1	4	3	2	1	4	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:29915533C>T	uc003taj.1	+	2	178	c.178C>T	c.(178-180)CGC>TGC	p.R60C		NM_001080529	NP_001073998	A6NGB9	WIPF3_HUMAN	WAS/WASL interacting protein family, member 3	60										ovary(1)	1						AACTCGCCTGCGCAAAGTCAC	0.592													5	52					0	0	0.000602	0	0		T	29915533	T	T	29915533	3	4	48	1	0	0	0	0	1	0	0	0	17395	768	27	1	184	1	WIPF3	7	29915533	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	5131273	29915533	129223130	273	36153											
C7orf41	222166	broad.mit.edu	37	chr7	30197086	30197086	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggatgcagatgacgatgcGtttgaagagtacagtgctga	11	9	14	7	3	0	5	0	3	0	2	0	7	0	6	1	1	4	4	1	1	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:30197086G>A	uc011kab.1	+	3	519	c.318G>A	c.(316-318)GCG>GCA	p.A106A	C7orf41_uc010kvr.1_RNA|C7orf41_uc003tar.1_Silent_p.A106A	NM_152793	NP_690006	Q8N3F0	CG041_HUMAN	hypothetical protein LOC222166	106											0						ATGACGATGCGTTTGAAGAGT	0.567													65	146					0	0	0.01441	0	0		A	30197086	A	A	30197086	2	1	48	1	0	0	0	0	0	0	0	1	2394	1132	40	1		1	C7orf41	7	30197086	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	281553	30197086	128941577	274	36154											
KIAA0895	23366	broad.mit.edu	37	chr7	36396613	36396613	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgtaggtatagtcagatttGaagaatctcagtttttcttt	10	19	8	4	0	3	3	2	1	2	2	4	3	3	3	0	1	0	3	0	1	5	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:36396613G>C	uc003tfd.2	-	3	816	c.765C>G	c.(763-765)TTC>TTG	p.F255L	KIAA0895_uc003tfc.2_Missense_Mutation_p.F242L|KIAA0895_uc011kaw.1_Missense_Mutation_p.F104L|KIAA0895_uc003tfb.2_Missense_Mutation_p.F204L|KIAA0895_uc011kax.1_Missense_Mutation_p.F204L|KIAA0895_uc003tfe.2_Missense_Mutation_p.F242L|KIAA0895_uc011kay.1_Missense_Mutation_p.F204L	NM_001100425	NP_001093895	Q8NCT3	K0895_HUMAN	hypothetical protein LOC23366 isoform 1	255											0						AGTCAGATTTGAAGAATCTCA	0.393													25	46					0	0	0.004656	0	0		C	36396613	C	C	36396613	3	2	48	1	0	0	0	0	1	0	0	0	8213	1281	45	5	817	5	KIAA0895	7	36396613	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	6199527	36396613	122742050	275	36155											
KIAA0895	23366	broad.mit.edu	37	chr7	36397160	36397160	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatcttctgcatttagaataGacttcttagcaagttcttgc	11	16	6	8	0	4	2	0	0	4	2	4	2	4	2	0	0	3	3	0	0	6	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:36397160G>C	uc003tfd.2	-	3	269	c.218C>G	c.(217-219)TCT>TGT	p.S73C	KIAA0895_uc003tfc.2_Missense_Mutation_p.S60C|KIAA0895_uc011kaw.1_5'UTR|KIAA0895_uc003tfb.2_Missense_Mutation_p.S22C|KIAA0895_uc011kax.1_Missense_Mutation_p.S22C|KIAA0895_uc003tfe.2_Missense_Mutation_p.S60C|KIAA0895_uc011kay.1_Missense_Mutation_p.S22C	NM_001100425	NP_001093895	Q8NCT3	K0895_HUMAN	hypothetical protein LOC23366 isoform 1	73											0						ATTTAGAATAGACTTCTTAGC	0.353													14	26					0	0	0.006122	0	0		C	36397160	C	C	36397160	3	2	48	1	0	0	0	0	1	0	0	0	8213	942	33	5	1364	5	KIAA0895	7	36397160	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	547	36397160	122741503	276	36156											
TXNDC3	51314	broad.mit.edu	37	chr7	37901736	37901736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgcagcaggtgaaatggCtcgacctcaggtaatacttt	12	11	10	8	1	1	1	1	1	0	0	2	2	1	1	1	3	3	4	1	3	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:37901736C>T	uc003tfn.2	+	7	749	c.377C>T	c.(376-378)GCT>GTT	p.A126V		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	126					cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						GGTGAAATGGCTCGACCTCAG	0.358									Kartagener_syndrome				9	29					0	0	0.00245	0	0		T	37901736	T	T	37901736	3	4	48	1	0	0	0	0	1	0	0	0	16824	797	28	2	395	2	TXNDC3	7	37901736	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1504576	37901736	121236927	277	36157											
CCM2	83605	broad.mit.edu	37	chr7	45115406	45115406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatccctgagaaggacaGccagcacttcgagaacttcc	11	8	8	14	1	1	2	1	1	0	2	4	5	3	3	3	1	3	1	3	1	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:45115406G>A	uc003tmo.2	+	10	1231	c.1085G>A	c.(1084-1086)AGC>AAC	p.S362N	CCM2_uc003tmn.2_RNA|CCM2_uc003tmp.2_Missense_Mutation_p.S304N|CCM2_uc003tmq.2_RNA|CCM2_uc003tmr.2_Missense_Mutation_p.S271N|CCM2_uc003tms.2_Missense_Mutation_p.S383N	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2	362					endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						GAGAAGGACAGCCAGCACTTC	0.607									Familial_Cerebral_Cavernous_Angioma				15	51					0	0	0.006122	0	0		A	45115406	A	A	45115406	3	1	48	1	0	0	0	0	1	0	0	0	2911	971	34	2	1220	2	CCM2	7	45115406	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	7213670	45115406	114023257	278	36158											
C7orf42	55069	broad.mit.edu	37	chr7	66413644	66413644	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtattcacagcctgcatgAccctcacggccagccctggg	7	8	11	15	1	2	1	2	1	0	0	2	1	2	1	4	3	3	2	4	3	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:66413644A>G	uc003tvk.2	+	4	823	c.559A>G	c.(559-561)ACC>GCC	p.T187A	C7orf42_uc010lah.2_RNA|C7orf42_uc003tvl.2_Missense_Mutation_p.T187A	NM_017994	NP_060464	Q9NWD8	CG042_HUMAN	hypothetical protein LOC55069	187	Helical; (Potential).					integral to membrane				ovary(1)	1						AGCCTGCATGACCCTCACGGC	0.592													3	52					0	0	0.004672	0	0		G	66413644	G	G	66413644	3	3	48	1	0	0	0	0	1	0	0	0	2395	275	10	3	569	3	C7orf42	7	66413644	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	21298238	66413644	92725019	279	36159											
EIF4H	7458	broad.mit.edu	37	chr7	73601945	73601945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtctcccctcctaggtccCgcggcagtgctggtggccat	3	11	12	15	2	1	0	0	0	1	0	4	0	3	0	5	4	1	2	5	4	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:73601945C>T	uc003uad.1	+	2	72	c.64C>T	c.(64-66)CGC>TGC	p.R22C	RFC2_uc011kfa.1_Intron|EIF4H_uc011kfg.1_Missense_Mutation_p.R22C|EIF4H_uc010lbm.2_Missense_Mutation_p.R22C|EIF4H_uc003uae.1_Missense_Mutation_p.R22C|EIF4H_uc003uaf.1_Intron	NM_022170	NP_071496	Q15056	IF4H_HUMAN	eukaryotic translation initiation factor 4H	22					interspecies interaction between organisms|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0						TCCTAGGTCCCGCGGCAGTGC	0.562													4	135					0	0	0.009096	0	0		T	73601945	T	T	73601945	3	4	48	1	0	0	0	0	1	0	0	0	5047	652	23	1	70	1	EIF4H	7	73601945	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	7188301	73601945	85536718	280	36160											
LAT2	7462	broad.mit.edu	37	chr7	73638506	73638506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatccatccatcagtggCgcgagtccaggaaggtcatg	10	7	12	12	2	2	0	2	0	0	0	5	2	5	1	3	3	1	1	3	3	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:73638506C>T	uc003uag.2	+	12	1157	c.607C>T	c.(607-609)CGC>TGC	p.R203C	RFC2_uc011kfa.1_Intron|LAT2_uc003uah.2_Missense_Mutation_p.R203C|LAT2_uc003uai.2_Missense_Mutation_p.R203C|LAT2_uc010lbo.2_RNA	NM_032464	NP_115853	Q9GZY6	NTAL_HUMAN	linker for activation of T cells family member	203	Cytoplasmic (Potential).				B cell activation|B cell receptor signaling pathway|calcium-mediated signaling|mast cell degranulation	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding				0						CCATCAGTGGCGCGAGTCCAG	0.587													5	120					0	0	0.001168	0	0		T	73638506	T	T	73638506	3	4	48	1	0	0	0	0	1	0	0	0	8661	768	27	1	645	1	LAT2	7	73638506	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	36561	73638506	85500157	281	36161											
HIP1	3092	broad.mit.edu	37	chr7	75168711	75168711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctctcccagtttttgaCgctccttctgcaattcattt	7	16	6	12	1	3	1	1	1	2	0	5	2	4	1	2	0	2	4	2	0	2	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:75168711C>T	uc003uds.1	-	30	3034	c.2993G>A	c.(2992-2994)CGT>CAT	p.R998H	HIP1_uc011kfz.1_Missense_Mutation_p.R824H	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	998	I/LWEQ.				activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						CAGTTTTTGACGCTCCTTCTG	0.453			T	PDGFRB	CMML								58	190					0	0	0.01441	0	0		T	75168711	T	T	75168711	3	4	48	1	0	0	0	0	1	0	0	0	7130	536	19	1	128	1	HIP1	7	75168711	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1530205	75168711	83969952	282	36162											
MAGI2	9863	broad.mit.edu	37	chr7	77814969	77814969	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggaatccattcgaaaactgGtcctgggtggcacttgttct	9	12	11	9	1	1	0	0	0	1	0	4	2	3	1	2	4	1	2	2	4	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:77814969G>T	uc003ugx.2	-	13	2542	c.2288C>A	c.(2287-2289)ACC>AAC	p.T763N	MAGI2_uc003ugy.2_Intron|MAGI2_uc010ldx.1_Intron|MAGI2_uc010ldy.1_Missense_Mutation_p.T372N	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	763						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TCGAAAACTGGTCCTGGGTGG	0.358													27	74					4.11147e-13	4.53133e-13	0.003755	1	0		T	77814969	T	T	77814969	3	4	48	1	0	0	0	0	1	0	0	0	9209	1261	44	5	2119	5	MAGI2	7	77814969	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2646258	77814969	81323694	283	36163											
GRM3	2913	broad.mit.edu	37	chr7	86468840	86468840	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactgcattgcccgcatcttCgatggggtcaagaatggcgc	9	9	12	11	3	2	1	1	0	1	1	3	2	2	1	1	3	3	2	1	3	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:86468840C>T	uc003uid.2	+	4	3109	c.2010C>T	c.(2008-2010)TTC>TTT	p.F670F	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Silent_p.F542F|GRM3_uc010leh.2_Silent_p.F262F	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	670	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	CCCGCATCTTCGATGGGGTCA	0.537													8	113					0	0	0.00308	0	0		T	86468840	T	T	86468840	2	4	48	1	0	0	0	0	0	0	0	1	6814	883	31	1		1	GRM3	7	86468840	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	8653871	86468840	72669823	284	36164											
ABCB4	5244	broad.mit.edu	37	chr7	87076415	87076415	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatccataccagaaggccaGtgcatatgatgcatatatta	14	10	9	8	0	0	2	0	1	0	1	1	3	1	3	3	2	3	2	3	2	6	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:87076415G>T	uc003uiv.1	-	9	1016	c.940C>A	c.(940-942)CTG>ATG	p.L314M	ABCB4_uc003uiw.1_Missense_Mutation_p.L314M|ABCB4_uc003uix.1_Missense_Mutation_p.L314M	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	314	Helical; (By similarity).|ABC transmembrane type-1 1.				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CAGAAGGCCAGTGCATATGAT	0.333													3	34					2.56e-06	2.71005e-06	0.009096	1	0		T	87076415	T	T	87076415	3	4	48	1	0	0	0	0	1	0	0	0	43	1020	36	5	3000	5	ABCB4	7	87076415	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	607575	87076415	72062248	285	36165											
SLC25A13	10165	broad.mit.edu	37	chr7	95906629	95906629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggacatgaaaaattcacCgtttttctcaatgcttgcat	11	13	9	8	1	2	1	2	1	1	0	3	2	2	2	1	2	2	3	1	2	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:95906629C>T	uc003uof.3	-	3	282	c.91G>A	c.(91-93)GGT>AGT	p.G31S	SLC25A13_uc003uog.3_Missense_Mutation_p.G31S|SLC25A13_uc011kik.1_5'UTR	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	31					ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	AAAAATTCACCGTTTTTCTCA	0.318													8	27					0	0	0.008291	0	0		T	95906629	T	T	95906629	3	4	48	1	0	0	0	0	1	0	0	0	14500	652	23	1	2003	1	SLC25A13	7	95906629	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	8830214	95906629	63232034	286	36166											
C7orf59	389541	broad.mit.edu	37	chr7	99751060	99751060	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgatgagcaggcagccaGtgccatctctgagctggtca	10	8	13	10	0	2	3	1	3	1	0	3	4	2	3	2	2	4	3	2	2	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:99751060G>T	uc003utq.2	+	3	188	c.122G>T	c.(121-123)AGT>ATT	p.S41I		NM_001008395	NP_001008396	Q0VGL1	CG059_HUMAN	hypothetical protein LOC389541	41											0						CAGGCAGCCAGTGCCATCTCT	0.557													4	240					0.000602214	0.00062189	0.000602	1	0		T	99751060	T	T	99751060	3	4	48	1	0	0	0	0	1	0	0	0	2409	1029	36	5	132	5	C7orf59	7	99751060	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3844431	99751060	59387603	287	36167											
TSC22D4	81628	broad.mit.edu	37	chr7	100064674	100064674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccgggctggccagggcgcGcagcagcccattctcctgct	4	7	13	17	3	1	0	0	0	1	0	3	0	2	0	4	3	3	4	4	3	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:100064674G>A	uc003uva.2	-	5	1851	c.1096C>T	c.(1096-1098)CGC>TGC	p.R366C	C7orf61_uc003uuz.1_5'Flank|TSC22D4_uc003uvb.2_Missense_Mutation_p.R127C|TSC22D4_uc011kjv.1_Missense_Mutation_p.R127C|TSC22D4_uc010lgx.2_Missense_Mutation_p.R366C	NM_030935	NP_112197	Q9Y3Q8	T22D4_HUMAN	TSC22 domain family, member 4	366					negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding transcription factor activity			breast(2)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GCCAGGGCGCGCAGCAGCCCA	0.701													11	17					0	0	0.010729	0	0		A	100064674	A	A	100064674	3	1	48	1	0	0	0	0	1	0	0	0	16636	1087	38	1	95	1	TSC22D4	7	100064674	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	313614	100064674	59073989	288	36168											
CUX1	1523	broad.mit.edu	37	chr7	101870917	101870917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctacggcataaccaagcGggtgaaggaggtgctgacgg	11	5	15	10	3	0	2	0	2	0	0	0	3	0	3	2	5	4	2	2	5	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:101870917G>A	uc003uyx.3	+	21	3439	c.3401G>A	c.(3400-3402)CGG>CAG	p.R1134Q	CUX1_uc003uys.3_Missense_Mutation_p.R1145Q|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	1134	CUT 3.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						ATAACCAAGCGGGTGAAGGAG	0.612													24	38					0	0	0.008361	0	0		A	101870917	A	A	101870917	3	1	48	1	0	0	0	0	1	0	0	0	4067	1116	39	1	3550	1	CUX1	7	101870917	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1806243	101870917	57267746	289	36169											
ORAI2	80228	broad.mit.edu	37	chr7	102087196	102087196	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcctggggcttctccacCgtgcttggcatcctactctt	3	13	10	15	1	2	0	0	0	2	0	4	0	3	0	4	4	2	3	4	4	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:102087196C>T	uc010lhz.1	+	4	697	c.462C>T	c.(460-462)ACC>ACT	p.T154T	ORAI2_uc003uzj.2_Silent_p.T154T|ORAI2_uc003uzk.2_Silent_p.T154T|ORAI2_uc011kks.1_Silent_p.T77T	NM_001126340	NP_001119812	Q96SN7	ORAI2_HUMAN	ORAI calcium release-activated calcium modulator	154	Helical; (Potential).					integral to membrane	protein binding			ovary(1)|kidney(1)	2						GCTTCTCCACCGTGCTTGGCA	0.647													35	170					0	0	0.007835	0	0		T	102087196	T	T	102087196	2	4	48	1	0	0	0	0	0	0	0	1	11277	639	23	1		1	ORAI2	7	102087196	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	216279	102087196	57051467	290	36170											
PMPCB	9512	broad.mit.edu	37	chr7	102948086	102948086	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacttagcaaagtttcatttCggtgactctttatgcacaca	11	14	7	9	1	2	1	1	1	1	0	3	2	2	1	0	1	2	3	0	1	3	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:102948086C>T	uc003vbl.2	+	7	814	c.780C>T	c.(778-780)TTC>TTT	p.F260F	PMPCB_uc010liu.1_Silent_p.F260F|PMPCB_uc003vbk.1_Silent_p.F260F|PMPCB_uc003vbm.2_Silent_p.F169F|PMPCB_uc010liv.2_Silent_p.F166F|PMPCB_uc010liw.2_Silent_p.F169F|PMPCB_uc011kll.1_Silent_p.F155F|PMPCB_uc011klm.1_Silent_p.F135F	NM_004279	NP_004270	O75439	MPPB_HUMAN	mitochondrial processing peptidase beta subunit	260					proteolysis	mitochondrial matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)	4						AGTTTCATTTCGGTGACTCTT	0.388													19	38					0	0	0.003954	0	0		T	102948086	T	T	102948086	2	4	48	1	0	0	0	0	0	0	0	1	12160	883	31	1		1	PMPCB	7	102948086	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	860890	102948086	56190577	291	36171											
RELN	5649	broad.mit.edu	37	chr7	103113285	103113285	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcgcctaagtgaccttcGtcttctgttgtagaaatgtc	8	15	9	9	2	2	2	0	1	2	1	5	2	2	2	2	0	0	3	2	0	4	6	rs139326865		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:103113285G>A	uc003vca.2	-	66	10517	c.10357C>T	c.(10357-10359)CGA>TGA	p.R3453*	RELN_uc010liz.2_Nonsense_Mutation_p.R3451*	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3453	Arg-rich (basic).				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		AGTGACCTTCGTCTTCTGTTG	0.378													27	50					0	0	0.013726	0	0		A	103113285	A	A	103113285	4	1	48	1	0	0	0	0	0	1	0	0	13245	1153	40	1	29	1	RELN	7	103113285	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	165199	103113285	56025378	292	36172											
RELN	5649	broad.mit.edu	37	chr7	103124242	103124242	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggggccactcaggtcacTgttgcagctgtccgtctgcg	4	10	15	12	2	3	0	2	0	1	0	4	0	4	0	2	3	3	3	2	3	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:103124242T>C	uc003vca.2	-	62	10199	c.10039A>G	c.(10039-10041)AGT>GGT	p.S3347G	RELN_uc010liz.2_Missense_Mutation_p.S3347G	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3347					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CTCAGGTCACTGTTGCAGCTG	0.468													40	75					0	0	0.01441	0	0		C	103124242	C	C	103124242	3	2	48	1	0	0	0	0	1	0	0	0	13245	1580	55	3	359	3	RELN	7	103124242	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	10957	103124242	56014421	293	36173											
MLL5	55904	broad.mit.edu	37	chr7	104753200	104753200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatgcggtcacccctgggtCgcatattcattctcaaactg	8	12	8	13	2	4	0	4	0	1	0	6	0	4	0	2	2	2	1	2	2	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:104753200C>T	uc003vcm.2	+	27	5531	c.4997C>T	c.(4996-4998)TCG>TTG	p.S1666L	MLL5_uc010ljc.2_Missense_Mutation_p.S1666L|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Missense_Mutation_p.S400L	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1666	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						ACCCCTGGGTCGCATATTCAT	0.582													4	91					0	0	0.000602	0	0		T	104753200	T	T	104753200	3	4	48	1	0	0	0	0	1	0	0	0	9642	893	31	1	5095	1	MLL5	7	104753200	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1628958	104753200	54385463	294	36174											
ATXN7L1	222255	broad.mit.edu	37	chr7	105429099	105429099	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgacctggttacaggcactGcacactacgagatagaagtc	13	7	10	11	2	0	2	0	0	0	2	1	4	0	2	1	2	3	3	1	2	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:105429099G>A	uc003vde.2	-	3	333	c.306C>T	c.(304-306)TGC>TGT	p.C102C	ATXN7L1_uc003vdi.2_Silent_p.C102C	NM_020725	NP_065776	Q9ULK2	AT7L1_HUMAN	ataxin 7-like 1 isoform 1	102											0						TACAGGCACTGCACACTACGA	0.517													22	51					0	0	0.010504	0	0		A	105429099	A	A	105429099	2	1	48	1	0	0	0	0	0	0	0	1	1217	1311	46	2		2	ATXN7L1	7	105429099	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	675899	105429099	53709564	295	36175											
LRRN3	54674	broad.mit.edu	37	chr7	110764026	110764026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cactgttttgcgtggacccaCctgaattccaaggtcagaat	10	11	9	11	1	1	2	1	1	0	1	2	3	2	3	3	2	1	1	3	2	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:110764026C>T	uc003vft.3	+	4	2244	c.1198C>T	c.(1198-1200)CCT>TCT	p.P400S	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.P400S|LRRN3_uc003vfs.3_Missense_Mutation_p.P400S	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	400	Extracellular (Potential).|LRRCT.					integral to membrane		p.P399fs*16(1)		skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		CGTGGACCCACCTGAATTCCA	0.448													24	52					0	0	0.007291	0	0		T	110764026	T	T	110764026	3	4	48	1	0	0	0	0	1	0	0	0	9054	507	18	4	1200	4	LRRN3	7	110764026	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	5334927	110764026	48374637	296	36176											
GRM8	2918	broad.mit.edu	37	chr7	126173502	126173502	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcggaaggagcatatgattGtatctggtgctgcaatcatt	10	13	12	6	1	2	1	1	1	1	0	3	3	2	3	0	3	3	4	0	3	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:126173502G>T	uc003vlr.2	-	8	2245	c.1934C>A	c.(1933-1935)ACA>AAA	p.T645K	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.T645K|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	645	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	GCATATGATTGTATCTGGTGC	0.458										HNSCC(24;0.065)			18	38					2.35188e-11	2.5824e-11	0.006122	1	0		T	126173502	T	T	126173502	3	4	48	1	0	0	0	0	1	0	0	0	6819	1377	48	5	854	5	GRM8	7	126173502	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	15409476	126173502	32965161	297	36177											
FSCN3	29999	broad.mit.edu	37	chr7	127235874	127235874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcttttcacatgcaagtgCggcctggagggcttgtggca	7	10	14	10	1	1	0	1	0	0	0	1	1	1	1	1	4	3	4	1	4	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:127235874C>T	uc003vmd.1	+	2	877	c.658C>T	c.(658-660)CGG>TGG	p.R220W	FSCN3_uc003vmc.1_Missense_Mutation_p.R175W|FSCN3_uc011kog.1_RNA|FSCN3_uc011koh.1_Missense_Mutation_p.R86W|FSCN3_uc010llc.1_Missense_Mutation_p.R220W	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	220						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						CATGCAAGTGCGGCCTGGAGG	0.562													5	88					0	0	0.000602	0	0		T	127235874	T	T	127235874	3	4	48	1	0	0	0	0	1	0	0	0	6083	759	27	1	664	1	FSCN3	7	127235874	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1062372	127235874	31902789	298	36178											
DGKI	9162	broad.mit.edu	37	chr7	137304599	137304599	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaccttaatgatccaagTgggcgggacaataacagcag	13	8	10	10	1	1	1	1	1	0	0	2	2	2	2	2	2	2	1	2	2	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:137304599T>A	uc003vtt.2	-	8	965	c.964A>T	c.(964-966)ACT>TCT	p.T322S	DGKI_uc003vtu.2_Missense_Mutation_p.T22S	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	322					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						ATGATCCAAGTGGGCGGGACA	0.498													5	116					0	0	0.000602	0	0		A	137304599	A	A	137304599	3	1	48	1	0	0	0	0	1	0	0	0	4477	1696	59	5	2341	5	DGKI	7	137304599	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	10068725	137304599	21834064	299	36179											
HIPK2	28996	broad.mit.edu	37	chr7	139281492	139281492	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgtttctgttcctcctcCtcgtccgtgtcactgctgat	2	16	9	14	3	2	1	1	1	1	0	7	1	6	1	4	0	1	3	4	0	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:139281492C>G	uc003vvf.3	-	12	2862	c.2688G>C	c.(2686-2688)GAG>GAC	p.E896D	HIPK2_uc003vvd.3_Missense_Mutation_p.E869D	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	896	Interaction with TP53 and TP73.|Required for localization to nuclear speckles (By similarity).|Interaction with UBE2I (By similarity).|SUMO interaction motifs (SIM); required for nuclear localization and kinase activity.|Interaction with HMGA1 (By similarity).|Interaction with POU4F1 (By similarity).			DTDEEEE->NFNQQQQ: Loss of SUMO and CBX4 interaction, and impaired nuclear and PML-nuclear bodies localization.	apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					GTTCCTCCTCCTCGTCCGTGT	0.612													5	171					0	0	0.000602	0	0		G	139281492	G	G	139281492	3	3	48	1	0	0	0	0	1	0	0	0	7133	680	24	5	924	5	HIPK2	7	139281492	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1976893	139281492	19857171	300	36180											
CNTNAP2	26047	broad.mit.edu	37	chr7	146741062	146741062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattacagcatccgattattGcccgctatgtgcgcatagtg	10	12	9	10	3	0	0	0	0	0	0	1	1	1	0	2	0	4	3	2	0	5	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:146741062G>A	uc003weu.1	+	4	982	c.466G>A	c.(466-468)GCC>ACC	p.A156T		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	156	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TCCGATTATTGCCCGCTATGT	0.428										HNSCC(39;0.1)			45	127					0	0	0.01441	0	0		A	146741062	A	A	146741062	3	1	48	1	0	0	0	0	1	0	0	0	3650	1319	46	2	480	2	CNTNAP2	7	146741062	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	7459570	146741062	12397601	301	36181											
CNTNAP2	26047	broad.mit.edu	37	chr7	147844772	147844772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaacagaaggccacacccGcctggagctctacagccagt	11	4	9	17	1	1	1	0	0	1	1	1	2	1	2	5	2	4	1	5	2	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:147844772G>A	uc003weu.1	+	17	3260	c.2744G>A	c.(2743-2745)CGC>CAC	p.R915H		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	915	Laminin G-like 3.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GGCCACACCCGCCTGGAGCTC	0.522										HNSCC(39;0.1)			16	42					0	0	0.007413	0	0		A	147844772	A	A	147844772	3	1	48	1	0	0	0	0	1	0	0	0	3650	1087	38	1	2810	1	CNTNAP2	7	147844772	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1103710	147844772	11293891	302	36182											
SSPO	23145	broad.mit.edu	37	chr7	149500830	149500830	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggggctgccccctgccctgCggctggtcagcctggtcctc	1	8	15	17	1	1	0	1	0	0	0	3	0	2	0	5	5	4	2	5	5	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:149500830C>T	uc010lpk.2	+	56	8148	c.8148C>T	c.(8146-8148)TGC>TGT	p.C2716C		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2716	TSP type-1 6.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCCTGCCCTGCGGCTGGTCAG	0.687													5	5					0	0	0.000602	0	0		T	149500830	T	T	149500830	2	4	48	1	0	0	0	0	0	0	0	1	15214	776	27	1		1	SSPO	7	149500830	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1656058	149500830	9637833	303	36183											
GIMAP7	168537	broad.mit.edu	37	chr7	150217082	150217082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catggctgagagtgaggaccGctccctgaggatcgttctgg	7	9	15	10	2	1	3	0	3	1	1	3	6	2	5	2	4	0	3	2	4	0	1	rs145339506		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:150217082G>A	uc003whk.2	+	2	150	c.20G>A	c.(19-21)CGC>CAC	p.R7H		NM_153236	NP_694968	Q8NHV1	GIMA7_HUMAN	GTPase, IMAP family member 7	7							GTP binding			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGTGAGGACCGCTCCCTGAGG	0.493													25	36					0	0	0.010818	0	0		A	150217082	A	A	150217082	3	1	48	1	0	0	0	0	1	0	0	0	6399	1087	38	1	22	1	GIMAP7	7	150217082	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	716252	150217082	8921581	304	36184											
ASB10	136371	broad.mit.edu	37	chr7	150883931	150883931	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgttgaagcggaaatccCtccatcgctctgggtcgctg	7	10	13	11	3	1	1	0	1	1	0	5	3	3	3	2	3	1	3	2	3	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:150883931C>G	uc003wjm.1	-	1	548	c.422G>C	c.(421-423)AGG>ACG	p.R141T	ASB10_uc003wjl.1_Missense_Mutation_p.R141T|ASB10_uc003wjn.1_Intron	NM_001142459	NP_001135931	Q8WXI3	ASB10_HUMAN	ankyrin repeat and SOCS box-containing 10	96					intracellular signal transduction						0			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCGGAAATCCCTCCATCGCTC	0.642													5	20					0	0	0.00308	0	0		G	150883931	G	G	150883931	3	3	48	1	0	0	0	0	1	0	0	0	1015	681	24	5	1136	5	ASB10	7	150883931	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	666849	150883931	8254732	305	36185											
NUB1	51667	broad.mit.edu	37	chr7	151065014	151065014	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagggatccgaaactatcAcagtggaaatgatgtagagg	15	8	12	6	1	2	2	2	1	0	1	3	5	3	4	1	3	1	1	1	3	5	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:151065014A>G	uc003wjx.2	+	10	1132	c.1127A>G	c.(1126-1128)CAC>CGC	p.H376R	NUB1_uc003wjw.2_Missense_Mutation_p.H352R|NUB1_uc010lqc.2_RNA|uc003wjz.1_RNA	NM_016118	NP_057202	Q9Y5A7	NUB1_HUMAN	NEDD8 ultimate buster-1	352					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|response to interferon-gamma|response to tumor necrosis factor|ubiquitin-dependent protein catabolic process	nucleus	protein binding				0			OV - Ovarian serous cystadenocarcinoma(82;0.00569)	UCEC - Uterine corpus endometrioid carcinoma (81;0.172)		CGAAACTATCACAGTGGAAAT	0.328											OREG0018452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	2	4					0	0	0.009096	0	0		G	151065014	G	G	151065014	3	3	48	1	0	0	0	0	1	0	0	0	10733	159	6	3	1089	3	NUB1	7	151065014	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	181083	151065014	8073649	306	36186											
PRKAG2	51422	broad.mit.edu	37	chr7	151329217	151329217	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtcccagggccgccgccAgcgccgcctgagggggagga	5	2	19	15	5	0	1	0	1	0	0	1	3	1	3	6	5	1	0	6	5	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:151329217A>C	uc003wkk.2	-	5	1303	c.692T>G	c.(691-693)CTG>CGG	p.L231R	PRKAG2_uc003wki.2_5'UTR|PRKAG2_uc011kvl.1_Missense_Mutation_p.L107R|PRKAG2_uc003wkj.2_Missense_Mutation_p.L187R|PRKAG2_uc010lqe.1_Intron	NM_016203	NP_057287	Q9UGJ0	AAKG2_HUMAN	AMP-activated protein kinase gamma2 subunit	231					ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)		GGCCGCCGCCAGCGCCGCCTG	0.423													6	16					0	0	0.004482	0	0		C	151329217	C	C	151329217	3	2	48	1	0	0	0	0	1	0	0	0	12523	188	7	5	1065	5	PRKAG2	7	151329217	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	264203	151329217	7809446	307	36187											
MLL3	58508	broad.mit.edu	37	chr7	151962133	151962133	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaaacttacttgcagttctGgcacactttgcactcaggac	11	11	8	11	0	2	0	1	0	1	0	2	2	2	1	0	2	4	4	0	2	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr7:151962133G>A	uc003wla.2	-	8	1393	c.1174C>T	c.(1174-1176)CAG>TAG	p.Q392*		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	392	PHD-type 2.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTGCAGTTCTGGCACACTTTG	0.408			N		medulloblastoma								20	390					0	0	0.005443	0	0		A	151962133	A	A	151962133	4	1	48	1	0	0	0	0	0	1	0	0	9640	1357	47	4	13769	4	MLL3	7	151962133	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	632916	151962133	7176530	308	36188											
CTSB	1508	broad.mit.edu	37	chr8	11703216	11703216	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagttggcaaccagccagtaGggtgtgccattctccactcc	8	9	11	13	0	1	0	0	0	1	0	3	1	2	0	5	2	3	3	5	2	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:11703216G>T	uc003wum.2	-	11	1200	c.876C>A	c.(874-876)CCC>CCA	p.P292P	CTSB_uc003wul.2_Silent_p.P229P|CTSB_uc011kxl.1_Silent_p.P213P|CTSB_uc003wun.2_Silent_p.P292P|CTSB_uc003wuo.2_Silent_p.P292P|CTSB_uc003wup.2_Silent_p.P292P|CTSB_uc003wuq.2_Silent_p.P292P|CTSB_uc010lsc.2_Silent_p.P168P|CTSB_uc003wur.2_Silent_p.P292P|CTSB_uc003wus.1_Silent_p.P292P|CTSB_uc003wut.1_Silent_p.P292P|CTSB_uc003wuu.2_3'UTR	NM_147780	NP_680090	P07858	CATB_HUMAN	cathepsin B preproprotein	292					proteolysis|regulation of apoptosis|regulation of catalytic activity	lysosome|melanosome	cysteine-type endopeptidase activity				0	all_epithelial(15;0.205)		STAD - Stomach adenocarcinoma(15;0.00546)	COAD - Colon adenocarcinoma(149;0.184)		CCAGCCAGTAGGGTGTGCCAT	0.577													18	38					3.62473e-10	3.9506e-10	0.012319	1	0		T	11703216	T	T	11703216	2	4	48	1	0	0	0	0	0	0	0	1	4033	987	35	5		5	CTSB	8	11703216	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08		11703216	134660806	309	36189											
TUSC3	7991	broad.mit.edu	37	chr8	15601103	15601103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcagcaacttcgaaaggcGatgttggaaaaagacggagt	16	6	13	6	3	0	1	0	0	0	1	1	5	0	3	0	3	3	3	0	3	5	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:15601103G>A	uc003wwt.2	+	8	1129	c.919G>A	c.(919-921)GAT>AAT	p.D307N	TUSC3_uc003wwu.2_Missense_Mutation_p.D307N|TUSC3_uc003wwv.2_Missense_Mutation_p.D307N|TUSC3_uc003www.2_Missense_Mutation_p.D307N|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_3'UTR	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	307					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		TTCGAAAGGCGATGTTGGAAA	0.393													36	78					0	0	0.006999	0	0		A	15601103	A	A	15601103	3	1	48	1	0	0	0	0	1	0	0	0	16804	1058	37	1	949	1	TUSC3	8	15601103	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3897887	15601103	130762919	310	36190											
NAT2	10	broad.mit.edu	37	chr8	18258064	18258064	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctcatctcctgccaaagaAgaaacaccaaaaaatatact	18	9	3	11	0	2	2	1	0	2	2	4	2	2	2	3	0	3	0	3	0	8	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:18258064A>C	uc003wyw.1	+	2	658	c.551A>C	c.(550-552)AAG>ACG	p.K184T		NM_000015	NP_000006	P11245	ARY2_HUMAN	N-acetyltransferase 2	184					xenobiotic metabolic process	cytosol	arylamine N-acetyltransferase activity			ovary(1)|skin(1)	2				Colorectal(111;0.0531)|COAD - Colon adenocarcinoma(73;0.21)		CTGCCAAAGAAGAAACACCAA	0.368									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				19	22					0	0	0.006122	0	0		C	18258064	C	C	18258064	3	2	48	1	0	0	0	0	1	0	0	0	10195	72	3	5	553	5	NAT2	8	18258064	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	2656961	18258064	128105958	311	36191											
ATP6V1B2	526	broad.mit.edu	37	chr8	20072357	20072357	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agccagggaagaggtacctgGtcgacgaggttttccaggtt	9	9	15	8	2	0	1	0	0	0	1	2	4	1	2	3	5	2	3	3	5	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:20072357G>C	uc003wzp.2	+	10	1170	c.956G>C	c.(955-957)GGT>GCT	p.G319A		NM_001693	NP_001684	P21281	VATB2_HUMAN	vacuolar H+ATPase B2	319					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|endomembrane system|Golgi apparatus|melanosome|plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0				Colorectal(74;0.0535)|COAD - Colon adenocarcinoma(73;0.211)		GAGGTACCTGGTCGACGAGGT	0.468													8	60					0	0	0.004482	0	0		C	20072357	C	C	20072357	3	2	48	1	0	0	0	0	1	0	0	0	1180	1261	44	5	994	5	ATP6V1B2	8	20072357	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1814293	20072357	126291665	312	36192											
NEFM	4741	broad.mit.edu	37	chr8	24771944	24771944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcaaagacatcgaggaggCgtcgctggtcaaggtggagc	10	5	17	9	4	1	1	1	0	0	1	3	4	1	3	0	5	1	2	0	5	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:24771944C>T	uc003xed.3	+	1	671	c.638C>T	c.(637-639)GCG>GTG	p.A213V	NEFM_uc011lac.1_Missense_Mutation_p.A213V|NEFM_uc010lue.2_5'Flank|uc010luc.1_Missense_Mutation_p.A42T	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	213	Rod.|Coil 1B.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		ATCGAGGAGGCGTCGCTGGTC	0.647													9	13					0	0	0.006214	0	0		T	24771944	T	T	24771944	3	4	48	1	0	0	0	0	1	0	0	0	10335	768	27	1	640	1	NEFM	8	24771944	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4699587	24771944	121592078	313	36193											
KIF13B	23303	broad.mit.edu	37	chr8	28976394	28976394	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttccttacctccccatcAtgctgcttcacaatctgcaa	8	13	4	16	0	3	0	2	0	1	0	5	0	5	0	4	0	4	4	4	0	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:28976394A>G	uc003xhh.3	-	30	3710	c.3651T>C	c.(3649-3651)CAT>CAC	p.H1217H	uc003xhi.1_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1217					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		CCTCCCCATCATGCTGCTTCA	0.463													14	101					0	0	0.00245	0	0		G	28976394	G	G	28976394	2	3	48	1	0	0	0	0	0	0	0	1	8291	214	8	3		3	KIF13B	8	28976394	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	4204450	28976394	117387628	314	36194											
MYST3	7994	broad.mit.edu	37	chr8	41836217	41836217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctattggattagtatagcgcCgttttatctgtgctgccttc	6	17	9	9	2	1	0	0	0	1	0	2	1	1	1	2	1	3	3	2	1	5	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:41836217C>T	uc010lxb.2	-	7	1530	c.986G>A	c.(985-987)CGG>CAG	p.R329Q	MYST3_uc010lxc.2_Missense_Mutation_p.R329Q|MYST3_uc003xon.3_Missense_Mutation_p.R329Q|MYST3_uc010lxd.2_Missense_Mutation_p.R329Q	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	329	Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			AGTATAGCGCCGTTTTATCTG	0.388													55	148					0	0	0.01441	0	0		T	41836217	T	T	41836217	3	4	48	1	0	0	0	0	1	0	0	0	10122	652	23	1	5076	1	MYST3	8	41836217	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	12859823	41836217	104527805	315	36195											
MYST3	7994	broad.mit.edu	37	chr8	41839431	41839431	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaccgtaaggccttcactcGaaccgttagttcaggggaaa	11	8	10	12	3	2	0	2	0	0	0	3	2	2	1	4	3	1	3	4	3	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:41839431G>A	uc010lxb.2	-	5	1295	c.751C>T	c.(751-753)CGA>TGA	p.R251*	MYST3_uc010lxc.2_Nonsense_Mutation_p.R251*|MYST3_uc003xon.3_Nonsense_Mutation_p.R251*|MYST3_uc010lxd.2_Nonsense_Mutation_p.R251*	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	251	PHD-type 1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			GCCTTCACTCGAACCGTTAGT	0.428													8	40					0	0	0.010729	0	0		A	41839431	A	A	41839431	4	1	48	1	0	0	0	0	0	1	0	0	10122	1066	37	1	5319	1	MYST3	8	41839431	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3214	41839431	104524591	316	36196											
PLAG1	5324	broad.mit.edu	37	chr8	57080658	57080658	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttgtagggcctctctccTgtgtgagagtaggagtgaac	8	11	13	9	0	1	2	0	2	1	1	3	4	2	3	2	2	1	2	2	2	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:57080658T>C	uc003xsq.3	-	2	622	c.171A>G	c.(169-171)ACA>ACG	p.T57T	PLAG1_uc003xsr.3_Silent_p.T57T|PLAG1_uc010lyi.2_Silent_p.T57T|PLAG1_uc010lyj.2_Intron	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	57	Interacts with KPNA2.|Decreased nuclear import with localization in the nucleus but also in the cytoplasm.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			GCCTCTCTCCTGTGTGAGAGT	0.398			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								11	32					0	0	0.013537	0	0		C	57080658	C	C	57080658	2	2	48	1	0	0	0	0	0	0	0	1	12037	1567	55	3		3	PLAG1	8	57080658	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	15241227	57080658	89283364	317	36197											
CYP7B1	9420	broad.mit.edu	37	chr8	65527633	65527633	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtgaggtggatgggaaatCcagaccctttcttttgacct	8	13	12	8	0	1	3	0	2	1	1	2	5	2	5	3	4	0	0	3	4	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:65527633C>A	uc003xvj.2	-	4	1211	c.1007G>T	c.(1006-1008)GGA>GTA	p.G336V		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	336					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				GATGGGAAATCCAGACCCTTT	0.448													28	66					5.8336e-16	6.48585e-16	0.003271	1	0		A	65527633	A	A	65527633	3	1	48	1	0	0	0	0	1	0	0	0	4200	855	30	5	525	5	CYP7B1	8	65527633	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	8446975	65527633	80836389	318	36198											
PREX2	80243	broad.mit.edu	37	chr8	69030870	69030870	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtatttccacagtgatgaaAtggactcaggtgtgttcgtt	9	14	11	7	2	1	2	1	2	0	0	3	3	2	3	1	2	0	3	1	2	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:69030870A>T	uc003xxv.1	+	27	3439	c.3412A>T	c.(3412-3414)ATG>TTG	p.M1138L		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1138					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CAGTGATGAAATGGACTCAGG	0.433													4	92					0	0	0.009096	0	0		T	69030870	T	T	69030870	3	4	48	1	0	0	0	0	1	0	0	0	12499	101	4	5	3747	5	PREX2	8	69030870	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	3503237	69030870	77333152	319	36199											
SULF1	23213	broad.mit.edu	37	chr8	70476305	70476305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagatccccgaggttcagagGacggatacagcaggaacgaa	14	4	13	10	3	1	2	1	0	0	2	2	7	2	5	2	4	3	2	2	4	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:70476305G>A	uc010lza.1	+	5	812	c.95G>A	c.(94-96)GGA>GAA	p.G32E	SULF1_uc003xyd.2_Missense_Mutation_p.G32E|SULF1_uc003xye.2_Missense_Mutation_p.G32E|SULF1_uc003xyf.2_Missense_Mutation_p.G32E|SULF1_uc003xyg.2_Missense_Mutation_p.G32E	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	32					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			AGGTTCAGAGGACGGATACAG	0.483													6	81					0	0	0.001168	0	0		A	70476305	A	A	70476305	3	1	48	1	0	0	0	0	1	0	0	0	15395	1174	41	4	97	4	SULF1	8	70476305	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1445435	70476305	75887717	320	36200											
STAU2	27067	broad.mit.edu	37	chr8	74515987	74515987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacaaattctcgacgtcgagGcattcctctttctgaaagca	11	11	7	12	3	3	1	0	1	3	0	6	3	4	1	1	1	1	2	1	1	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:74515987G>A	uc003xzm.2	-	10	1239	c.1003C>T	c.(1003-1005)CCT>TCT	p.P335S	STAU2_uc011lfg.1_Missense_Mutation_p.P163S|STAU2_uc003xzn.2_Missense_Mutation_p.P303S|STAU2_uc011lfh.1_Missense_Mutation_p.P231S|STAU2_uc003xzo.2_Missense_Mutation_p.P335S|STAU2_uc003xzp.2_Missense_Mutation_p.P303S|STAU2_uc011lfi.1_Missense_Mutation_p.P297S|STAU2_uc003xzq.2_Missense_Mutation_p.P115S|STAU2_uc010lzk.2_Missense_Mutation_p.P303S|STAU2_uc010lzl.1_Missense_Mutation_p.P163S	NM_014393	NP_055208	Q9NUL3	STAU2_HUMAN	staufen homolog 2 isoform e	335	DRBM 4.				transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)			CGACGTCGAGGCATTCCTCTT	0.433													18	55					0	0	0.008871	0	0		A	74515987	A	A	74515987	3	1	48	1	0	0	0	0	1	0	0	0	15298	1203	42	2	857	2	STAU2	8	74515987	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4039682	74515987	71848035	321	36201											
DPY19L4	286148	broad.mit.edu	37	chr8	95751977	95751977	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggcttatgagtggaacatgGctagcaggaatgcttactgt	10	12	13	6	0	0	1	0	1	0	0	0	3	0	3	0	4	4	4	0	4	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:95751977G>A	uc003ygx.2	+	6	694	c.570G>A	c.(568-570)TGG>TGA	p.W190*	DPY19L4_uc003ygy.2_Nonsense_Mutation_p.W127*	NM_181787	NP_861452	Q7Z388	D19L4_HUMAN	dpy-19-like 4	190	Helical; (Potential).					integral to membrane				ovary(2)	2	Breast(36;3.85e-06)					GTGGAACATGGCTAGCAGGAA	0.343													53	179					0	0	0.01441	0	0		A	95751977	A	A	95751977	4	1	48	1	0	0	0	0	0	1	0	0	4749	1212	42	2	592	2	DPY19L4	8	95751977	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	21235990	95751977	50612045	322	36202											
RIMS2	9699	broad.mit.edu	37	chr8	105161049	105161049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggtctgtcacggaaaagtCgcagtgcttctcagctcagc	8	11	11	11	2	4	0	3	0	2	0	6	1	4	1	0	2	3	3	0	2	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:105161049C>T	uc003yls.2	+	23	3602	c.3361C>T	c.(3361-3363)CGC>TGC	p.R1121C	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Missense_Mutation_p.R1110C|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1160					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			ACGGAAAAGTCGCAGTGCTTC	0.453										HNSCC(12;0.0054)			20	68					0	0	0.00333	0	0		T	105161049	T	T	105161049	3	4	48	1	0	0	0	0	1	0	0	0	13393	899	31	1		1	RIMS2	8	105161049	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	9409072	105161049	41202973	323	36203											
TM7SF4	81501	broad.mit.edu	37	chr8	105361503	105361503	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgggcccttgtggttggaaGtatgaaaacatctacatcac	11	12	10	8	0	2	1	1	1	1	0	2	2	2	2	1	3	2	2	1	3	5	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:105361503G>T	uc003ylx.1	+	2	772	c.723G>T	c.(721-723)AAG>AAT	p.K241N		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	241					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GTGGTTGGAAGTATGAAAACA	0.502													16	44					0.00400662	0.00410876	0.004007	1	0		T	105361503	T	T	105361503	3	4	48	1	0	0	0	0	1	0	0	0	16001	1020	36	5	725	5	TM7SF4	8	105361503	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	200454	105361503	41002519	324	36204											
ZHX1	11244	broad.mit.edu	37	chr8	124265762	124265762	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgacctgctcatagcccaTatgtgatttgttaacaagtt	10	15	7	9	0	2	2	1	2	1	0	2	2	2	2	2	0	3	3	2	0	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:124265762T>C	uc003yqe.2	-	3	2855	c.2425A>G	c.(2425-2427)ATG>GTG	p.M809V	C8orf76_uc003yqd.2_Intron|ZHX1_uc003yqf.2_Missense_Mutation_p.M809V|ZHX1_uc003yqg.2_Intron|ZHX1_uc010mdi.2_Missense_Mutation_p.M809V	NM_007222	NP_009153	Q9UKY1	ZHX1_HUMAN	zinc fingers and homeoboxes 1	809	Homeobox 5.				negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			TCATAGCCCATATGTGATTTG	0.348													3	137					0	0	0.000602	0	0		C	124265762	C	C	124265762	3	2	48	1	0	0	0	0	1	0	0	0	17700	1406	49	3	200	3	ZHX1	8	124265762	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	18904259	124265762	22098260	325	36205											
FER1L6	654463	broad.mit.edu	37	chr8	125083798	125083798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attctagctctgaggacagcGggcagctgagaatccagcaa	12	7	12	10	1	2	2	0	2	2	1	3	4	3	3	1	2	4	4	1	2	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:125083798G>A	uc003yqw.2	+	31	4224	c.4018G>A	c.(4018-4020)GGG>AGG	p.G1340R	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1340	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TGAGGACAGCGGGCAGCTGAG	0.517													27	47					0	0	0.007291	0	0		A	125083798	A	A	125083798	3	1	48	1	0	0	0	0	1	0	0	0	5829	1116	39	1	4136	1	FER1L6	8	125083798	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	818036	125083798	21280224	326	36206											
TG	7038	broad.mit.edu	37	chr8	133898733	133898733	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgaaaggcagcaggccttGtccagactctactttgggac	9	9	11	12	1	1	1	0	0	1	1	3	3	3	2	3	3	2	2	3	3	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:133898733G>A	uc003ytw.2	+	9	1157	c.1116G>A	c.(1114-1116)TTG>TTA	p.L372L		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	372					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AGCAGGCCTTGTCCAGACTCT	0.502													47	89					0	0	0.01441	0	0		A	133898733	A	A	133898733	2	1	48	1	0	0	0	0	0	0	0	1	15838	1368	48	4		4	TG	8	133898733	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	8814935	133898733	12465289	327	36207											
WISP1	8840	broad.mit.edu	37	chr8	134239730	134239730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgggctgcatcagcacacGctcctatcaacccaagtact	10	8	8	15	2	2	0	2	0	0	0	3	0	3	0	2	1	5	5	2	1	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:134239730G>A	uc003yub.2	+	5	957	c.881G>A	c.(880-882)CGC>CAC	p.R294H	WISP1_uc003yuc.2_Missense_Mutation_p.R207H|WISP1_uc010meb.2_Missense_Mutation_p.R122H|WISP1_uc010mec.2_Silent_p.T142T|WISP1_uc010med.2_Missense_Mutation_p.R49H|WISP1_uc003yud.2_RNA	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	294	CTCK.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			ATCAGCACACGCTCCTATCAA	0.522													8	86					0	0	0.004482	0	0		A	134239730	A	A	134239730	3	1	48	1	0	0	0	0	1	0	0	0	17398	1087	38	1	899	1	WISP1	8	134239730	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	340997	134239730	12124292	328	36208											
KCNK9	51305	broad.mit.edu	37	chr8	140631311	140631311	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatgcagaaggccttgccCgcatcggtgccaggtgcagc	9	6	13	13	2	0	1	0	0	0	1	1	1	0	1	3	3	6	3	3	3	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:140631311C>T	uc003yvf.1	-	2	379	c.315G>A	c.(313-315)GCG>GCA	p.A105A	KCNK9_uc003yvg.1_Silent_p.A105A|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	105	Extracellular (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			AGGCCTTGCCCGCATCGGTGC	0.612													11	19					0	0	0.010729	0	0		T	140631311	T	T	140631311	2	4	48	1	0	0	0	0	0	0	0	1	8088	639	23	1		1	KCNK9	8	140631311	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	6391581	140631311	5732711	329	36209											
FLJ43860	389690	broad.mit.edu	37	chr8	142500242	142500242	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggacaggacgcccatcacGtagaggaggcttctgtgtgg	9	7	16	9	2	2	1	1	0	1	1	2	5	2	4	1	5	0	2	1	5	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:142500242G>A	uc003ywi.2	-	5	753	c.672C>T	c.(670-672)TAC>TAT	p.Y224Y	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	224							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CGCCCATCACGTAGAGGAGGC	0.637													8	18					0	0	0.006214	0	0		A	142500242	A	A	142500242	2	1	48	1	0	0	0	0	0	0	0	1	5944	1140	40	1		1	FLJ43860	8	142500242	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1868931	142500242	3863780	330	36210											
EPPK1	83481	broad.mit.edu	37	chr8	144941378	144941378	+	Frame_Shift_Del	DEL	C	-	-																															ggtgctgtgggtcgatgacaCcccccgtggccacctgcacc																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:144941378delC	uc003zaa.1	-	1	6057	c.6044delG	c.(6043-6045)GGTfs	p.G2015fs		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	2015	Plectin 34.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GTCGATGACACCCCCCGTGGC	0.622													16	20	---	---	---	---						.	-	144941378	-	-	144941378	7	5	48	1	0	1	0	1	0	0	0	0	5198	507	18	0	1222	0	EPPK1	8	144941378	Frame_Shift_Del	DEL	C	TCGA-BR-7703-01A-11D-2053-08	2441136	144941378	1422644	331	36211											
OPLAH	26873	broad.mit.edu	37	chr8	145113719	145113720	+	Frame_Shift_Del	DEL	GA	-	-																															agccaggctgcggatgcctcGagatagcagcccctccagct																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:145113719_145113720delGA	uc003zar.3	-	5	625_626	c.543_544delTC	c.(541-546)TCTCGAfs	p.S181fs	OPLAH_uc003zat.1_5'Flank	NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	181_182							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	CGGATGCCTCGAGATAGCAGCC	0.678													6	7	---	---	---	---						.	-	145113720	-	-	145113719	7	5	48	1	0	1	0	1	0	0	0	0	10895	1066	37	0	3416	0	OPLAH	8	145113719	Frame_Shift_Del	DEL	GA	TCGA-BR-7703-01A-11D-2053-08	172341	145113719	1250303	332	36212											
SCRT1	83482	broad.mit.edu	37	chr8	145557213	145557213	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggacacgtacaccttgccGcacgtcgggcagcgccgcgc	7	5	13	16	7	0	0	0	0	0	0	1	1	0	1	3	2	3	3	3	2	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr8:145557213G>A	uc003zbw.1	-	2	793	c.681C>T	c.(679-681)TGC>TGT	p.C227C		NM_031309	NP_112599	Q9BWW7	SCRT1_HUMAN	scratch	227	C2H2-type 2.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.35e-39)|all cancers(56;1.37e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			ACACCTTGCCGCACGTCGGGC	0.682													10	8					0	0	0.008291	0	0		A	145557213	A	A	145557213	2	1	48	1	0	0	0	0	0	0	0	1	13966	1079	38	1		1	SCRT1	8	145557213	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	443494	145557213	806809	333	36213											
DOCK8	81704	broad.mit.edu	37	chr9	332438	332438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagagattggagactgtgCagagccctacacggttatca	11	8	14	8	1	1	3	1	0	0	3	1	6	1	4	1	3	3	2	1	3	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:332438C>T	uc003zgf.2	+	10	1197	c.1085C>T	c.(1084-1086)GCA>GTA	p.A362V	DOCK8_uc011lls.1_Missense_Mutation_p.A362V|DOCK8_uc010mgu.2_5'UTR|DOCK8_uc010mgv.2_Missense_Mutation_p.A294V|DOCK8_uc003zgg.2_Missense_Mutation_p.A294V|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	362	DHR-1.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		GGAGACTGTGCAGAGCCCTAC	0.328													3	51					0	0	0.009096	0	0		T	332438	T	T	332438	3	4	48	1	0	0	0	0	1	0	0	0	4699	710	25	2	1123	2	DOCK8	9	332438	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08		332438	140880993	334	36214											
DDX58	23586	broad.mit.edu	37	chr9	32526164	32526164	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcgctgctcggtggtcaTgccggcctctgcttgcagct	2	11	14	14	4	2	0	1	0	1	0	4	0	2	0	2	3	5	5	2	3	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:32526164T>C	uc003zra.2	-	1	159	c.1A>G	c.(1-3)ATG>GTG	p.M1V	DDX58_uc010mjj.2_RNA|DDX58_uc010mjk.1_Missense_Mutation_p.M1V|DDX58_uc011lnr.1_5'UTR	NM_014314	NP_055129	O95786	DDX58_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	1	CARD 1.				detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		TCGGTGGTCATGCCGGCCTCT	0.612													13	22					0	0	0.00245	0	0		C	32526164	C	C	32526164	3	2	48	1	0	0	0	0	1	0	0	0	4378	1464	51	3	2848	3	DDX58	9	32526164	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	32193726	32526164	108687267	335	36215											
ZBTB5	9925	broad.mit.edu	37	chr9	37440593	37440593	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttatacaggtggctggaCtgactaaacctcttgccaca	10	11	9	11	0	1	1	0	1	1	0	1	2	1	2	2	3	4	2	2	3	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:37440593C>G	uc003zzx.2	-	2	2156	c.1956G>C	c.(1954-1956)CAG>CAC	p.Q652H		NM_014872	NP_055687	O15062	ZBTB5_HUMAN	zinc finger and BTB domain containing 5	652	C2H2-type 2; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(29;0.00733)|Lung(182;0.226)		GGTGGCTGGACTGACTAAACC	0.488													19	44					0	0	0.007413	0	0		G	37440593	G	G	37440593	3	3	48	1	0	0	0	0	1	0	0	0	17576	564	20	5	81	5	ZBTB5	9	37440593	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4914429	37440593	103772838	336	36216											
TMC1	117531	broad.mit.edu	37	chr9	75387335	75387335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgttggatttcagggtttgGcacaatattccgttctcttt	6	19	9	7	1	2	0	1	0	1	0	4	1	3	1	1	3	0	4	1	3	2	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:75387335G>A	uc004aiz.1	+	13	1288	c.748G>A	c.(748-750)GCA>ACA	p.A250T	TMC1_uc010moz.1_Missense_Mutation_p.A208T|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Missense_Mutation_p.A104T|TMC1_uc010mpa.1_Missense_Mutation_p.A104T	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	250	Extracellular (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						TCAGGGTTTGGCACAATATTC	0.368													6	217					0	0	0.001984	0	0		A	75387335	A	A	75387335	3	1	48	1	0	0	0	0	1	0	0	0	16009	1203	42	2	782	2	TMC1	9	75387335	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	37946742	75387335	65826096	337	36217											
TLE4	7091	broad.mit.edu	37	chr9	82323572	82323572	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actccatttgggattgtgccCcatgctggaatgaacggaga	10	10	12	9	1	0	2	0	1	0	1	1	5	1	4	3	3	3	1	3	3	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:82323572C>A	uc004ald.2	+	14	2058	c.1209C>A	c.(1207-1209)CCC>CCA	p.P403P	TLE4_uc004alc.2_Silent_p.P378P|TLE4_uc010mpr.2_Silent_p.P257P|TLE4_uc004ale.2_Silent_p.P15P|TLE4_uc011lsq.1_Silent_p.P346P|TLE4_uc010mps.2_Silent_p.P302P|TLE4_uc004alf.2_Silent_p.P317P	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						GGATTGTGCCCCATGCTGGAA	0.488													32	90					3.21399e-22	3.61881e-22	0.004878	1	0		A	82323572	A	A	82323572	2	1	48	1	0	0	0	0	0	0	0	1	15966	610	22	5		5	TLE4	9	82323572	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	6936237	82323572	58889859	338	36218											
AGTPBP1	23287	broad.mit.edu	37	chr9	88190328	88190328	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggtcagtcttttcaaacgTaaaagaccaacacaaaattt	17	10	6	8	1	3	1	2	0	1	1	3	2	3	1	1	1	2	1	1	1	6	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:88190328T>C	uc011ltd.1	-	24	3438	c.3405A>G	c.(3403-3405)TTA>TTG	p.L1135L	AGTPBP1_uc004aod.3_Silent_p.L761L|AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Silent_p.L1095L|AGTPBP1_uc011lte.1_Silent_p.L1147L	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	1135					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						TTTTCAAACGTAAAAGACCAA	0.358													22	58					0	0	0.00278	0	0		C	88190328	C	C	88190328	2	2	48	1	0	0	0	0	0	0	0	1	400	1635	57	3		3	AGTPBP1	9	88190328	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	5866756	88190328	53023103	339	36219											
ROR2	4920	broad.mit.edu	37	chr9	94493197	94493197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagagaatacatactacacGagggtacgtcacacagttcc	15	7	9	10	2	1	2	1	0	0	2	2	4	2	2	1	1	4	2	1	1	5	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:94493197G>A	uc004arj.1	-	7	1377	c.1178C>T	c.(1177-1179)TCG>TTG	p.S393L	ROR2_uc004ari.1_Missense_Mutation_p.S253L|ROR2_uc004ark.2_Intron	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	393	Extracellular (Potential).|Kringle.				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						CATACTACACGAGGGTACGTC	0.532													36	74					0	0	0.007835	0	0		A	94493197	A	A	94493197	3	1	48	1	0	0	0	0	1	0	0	0	13552	1059	37	1	1665	1	ROR2	9	94493197	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	6302869	94493197	46720234	340	36220											
ASPN	54829	broad.mit.edu	37	chr9	95219673	95219673	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgggttgttgaataaacttAttgcactgtataaagatttc	12	15	8	6	1	0	2	0	1	0	1	1	2	0	2	1	1	2	4	1	1	7	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:95219673A>G	uc004ase.1	-	8	1284	c.1040T>C	c.(1039-1041)ATA>ACA	p.I347T	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ASPN_uc010mqy.1_3'UTR	NM_017680	NP_060150	Q9BXN1	ASPN_HUMAN	asporin precursor	347	LRR 10.				bone mineralization|negative regulation of tooth mineralization|negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	calcium ion binding				0						GAATAAACTTATTGCACTGTA	0.388													13	61					0	0	0.00499	0	0		G	95219673	G	G	95219673	3	3	48	1	0	0	0	0	1	0	0	0	1058	449	16	3	106	3	ASPN	9	95219673	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	726476	95219673	45993758	341	36221											
ZNF484	83744	broad.mit.edu	37	chr9	95609710	95609710	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgatgcacatggagttgTgattttttaataaaggattt	11	16	10	4	1	0	2	0	2	0	0	0	4	0	4	0	2	1	3	0	2	3	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:95609710T>C	uc004asu.1	-	5	1508	c.1359A>G	c.(1357-1359)TCA>TCG	p.S453S	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Silent_p.S455S|ZNF484_uc010mrb.1_Silent_p.S417S|ZNF484_uc004asv.1_Silent_p.S417S	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	453	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CATGGAGTTGTGATTTTTTAA	0.383													13	41					0	0	0.013537	0	0		C	95609710	C	C	95609710	2	2	48	1	0	0	0	0	0	0	0	1	17962	1683	59	3		3	ZNF484	9	95609710	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	390037	95609710	45603721	342	36222											
SUSD3	203328	broad.mit.edu	37	chr9	95838255	95838255	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggtccccagtgtgcaaacGtaaggacccctctctcagct	9	8	10	14	1	2	0	1	0	1	0	4	1	3	1	4	2	3	3	4	2	2	1	rs141762113	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:95838255G>A	uc004atb.2	+	2	313	c.277_splice	c.e2+1	p.L93_splice	SUSD3_uc004atc.2_Splice_Site_p.L80_splice	NM_145006	NP_659443	Q96L08	SUSD3_HUMAN	sushi domain containing 3							integral to membrane				breast(2)|skin(2)|ovary(1)|lung(1)	6						GTGTGCAAACGTAAGGACCCC	0.637													4	47					0	0	0.009096	0	0		A	95838255	A	A	95838255	5	1	48	1	0	0	0	0	0	0	1	0	15434	1159	40	1	284	1	SUSD3	9	95838255	Splice_Site	SNP	G	TCGA-BR-7703-01A-11D-2053-08	228545	95838255	45375176	343	36223											
PTCH1	5727	broad.mit.edu	37	chr9	98244469	98244469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctgatttgtaacacaaatGttccaatttccactgcctaa	12	14	4	11	0	0	1	0	1	0	0	3	1	3	1	4	0	2	2	4	0	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:98244469G>A	uc004avk.3	-	4	789	c.601C>T	c.(601-603)CAT>TAT	p.H201Y	PTCH1_uc010mro.2_Missense_Mutation_p.H50Y|PTCH1_uc010mrp.2_Missense_Mutation_p.H50Y|PTCH1_uc010mrq.2_Missense_Mutation_p.H50Y|PTCH1_uc004avl.3_Missense_Mutation_p.H50Y|PTCH1_uc010mrr.2_Missense_Mutation_p.H135Y|PTCH1_uc004avm.3_Missense_Mutation_p.H200Y|PTCH1_uc010mrs.1_5'Flank|PTCH1_uc010mrt.1_RNA|PTCH1_uc010mru.1_Intron|PTCH1_uc004avo.2_Missense_Mutation_p.H135Y|PTCH1_uc010mrv.1_RNA	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	201	Extracellular (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				TAACACAAATGTTCCAATTTC	0.284									Basal_Cell_Nevus_syndrome				11	15					0	0	0.001855	0	0		A	98244469	A	A	98244469	3	1	48	1	0	0	0	0	1	0	0	0	12752	1377	48	4	3822	4	PTCH1	9	98244469	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2406214	98244469	42968962	344	36224											
C9orf156	51531	broad.mit.edu	37	chr9	100678467	100678467	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacatgagaaaactgttctAggcccatcaaggaatgttca	16	9	8	8	0	3	1	2	1	1	1	3	3	3	2	1	2	2	2	1	2	6	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:100678467A>G	uc004axv.1	-	2	307	c.230T>C	c.(229-231)CTA>CCA	p.L77P	C9orf156_uc004axw.1_5'UTR|C9orf156_uc004axx.1_5'UTR|C9orf156_uc010msq.1_5'UTR	NM_016481	NP_057565	Q9BU70	NAP1_HUMAN	Nef associated protein 1	77					interspecies interaction between organisms		hydrolase activity				0		Acute lymphoblastic leukemia(62;0.158)				AAACTGTTCTAGGCCCATCAA	0.408													4	28					0	0	0.000602	0	0		G	100678467	G	G	100678467	3	3	48	1	0	0	0	0	1	0	0	0	2468	420	15	3	1111	3	C9orf156	9	100678467	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	2433998	100678467	40534964	345	36225											
ANKS6	203286	broad.mit.edu	37	chr9	101547146	101547146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catggaaaatatcaggtcgcCttttctcctcatctgggtaa	10	13	8	10	1	4	0	2	0	2	0	6	1	4	1	2	3	0	1	2	3	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:101547146C>T	uc004ayu.2	-	3	896	c.875G>A	c.(874-876)AGG>AAG	p.R292K	ANKS6_uc004ayt.2_5'UTR|ANKS6_uc004ayx.1_5'Flank|ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	292	ANK 8.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				ATCAGGTCGCCTTTTCTCCTC	0.353													15	38					0	0	0.00499	0	0		T	101547146	T	T	101547146	3	4	48	1	0	0	0	0	1	0	0	0	692	681	24	4	1792	4	ANKS6	9	101547146	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	868679	101547146	39666285	346	36226											
COL15A1	1306	broad.mit.edu	37	chr9	101747954	101747954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttcccggcctacagtttcGggcctggtgccaatgttggc	4	11	13	13	2	0	0	0	0	0	0	2	0	1	0	4	4	2	3	4	4	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:101747954G>A	uc004azb.1	+	3	414	c.208G>A	c.(208-210)GGG>AGG	p.G70R	COL15A1_uc004aza.2_Missense_Mutation_p.G70R	NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	70	TSP N-terminal.				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				CTACAGTTTCGGGCCTGGTGC	0.627													17	41					0	0	0.006122	0	0		A	101747954	A	A	101747954	3	1	48	1	0	0	0	0	1	0	0	0	3675	1116	39	1	218	1	COL15A1	9	101747954	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	200808	101747954	39465477	347	36227											
ABCA1	19	broad.mit.edu	37	chr9	107589231	107589231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggccagaggtactcacagCgaagatcttgagtgtgaagc	13	7	13	8	1	2	4	1	2	1	2	2	5	2	4	1	2	3	1	1	2	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:107589231C>T	uc004bcl.2	-	16	2648	c.2335G>A	c.(2335-2337)GCT>ACT	p.A779T		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	779	Helical; (Potential).				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GTACTCACAGCGAAGATCTTG	0.522													15	43					0	0	0.003163	0	0		T	107589231	T	T	107589231	3	4	48	1	0	0	0	0	1	0	0	0	28	768	27	1	4590	1	ABCA1	9	107589231	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	5841277	107589231	33624200	348	36228											
ACTL7A	10881	broad.mit.edu	37	chr9	111625036	111625036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcatcgtggactgggataCagtgcaggatatctgggaat	11	10	13	7	1	2	0	1	0	1	0	3	4	2	4	0	4	2	1	0	4	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:111625036C>T	uc004bdj.1	+	1	434	c.434C>T	c.(433-435)ACA>ATA	p.T145I		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	145						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						GACTGGGATACAGTGCAGGAT	0.532													20	40					0	0	0.008871	0	0		T	111625036	T	T	111625036	3	4	48	1	0	0	0	0	1	0	0	0	200	478	17	4	436	4	ACTL7A	9	111625036	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4035805	111625036	29588395	349	36229											
PTPN3	5774	broad.mit.edu	37	chr9	112207536	112207536	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacattgtacggcataggaCgctagaaccactgctgagtt	11	11	10	9	2	0	2	0	1	0	1	0	3	0	3	1	2	4	5	1	2	5	6	rs150667989	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:112207536C>T	uc004bed.2	-	7	562	c.450G>A	c.(448-450)GCG>GCA	p.A150A	PTPN3_uc004beb.2_Silent_p.A19A|PTPN3_uc004bec.2_Silent_p.A19A|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Silent_p.A150A|PTPN3_uc011lwh.1_Silent_p.A41A	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	150	FERM.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						CGGCATAGGACGCTAGAACCA	0.453													14	44					0	0	0.00245	0	0		T	112207536	T	T	112207536	2	4	48	1	0	0	0	0	0	0	0	1	12814	523	19	1		1	PTPN3	9	112207536	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	582500	112207536	29005895	350	36230											
SVEP1	79987	broad.mit.edu	37	chr9	113245948	113245948	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgggaggtggagatctgcaCcagtctatgacaggtggttc	9	9	15	8	1	2	2	0	1	2	1	3	4	2	3	1	5	1	2	1	5	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:113245948C>A	uc010mtz.2	-	10	2293	c.1956G>T	c.(1954-1956)TGG>TGT	p.W652C	SVEP1_uc010mua.1_Missense_Mutation_p.W652C|SVEP1_uc004beu.2_Missense_Mutation_p.W652C	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	652	HYR 2.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GAGATCTGCACCAGTCTATGA	0.483													14	15					1.52009e-12	1.67323e-12	0.003163	1	0		A	113245948	A	A	113245948	3	1	48	1	0	0	0	0	1	0	0	0	15445	508	18	5	8915	5	SVEP1	9	113245948	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1038412	113245948	27967483	351	36231											
PTGR1	22949	broad.mit.edu	37	chr9	114345823	114345823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attaaccatcactgtttctcCacccttcacaccacagattt	11	13	2	15	0	3	1	2	0	1	1	4	1	3	1	4	0	1	1	4	0	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:114345823C>T	uc004bfh.2	-	6	527	c.424G>A	c.(424-426)GGA>AGA	p.G142R	PTGR1_uc011lwr.1_Missense_Mutation_p.G142R|PTGR1_uc004bfi.3_Missense_Mutation_p.G142R|PTGR1_uc004bfj.3_Missense_Mutation_p.G19R|PTGR1_uc010mue.2_Missense_Mutation_p.G142R	NM_012212	NP_036344	Q14914	PTGR1_HUMAN	prostaglandin reductase 1 isoform 1	142					leukotriene metabolic process	cytoplasm	15-oxoprostaglandin 13-oxidase activity|2-alkenal reductase activity|alcohol dehydrogenase (NAD) activity|zinc ion binding				0						ACTGTTTCTCCACCCTTCACA	0.448													9	157					0	0	0.008291	0	0		T	114345823	T	T	114345823	3	4	48	1	0	0	0	0	1	0	0	0	12776	603	21	4	616	4	PTGR1	9	114345823	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1099875	114345823	26867608	352	36232											
ZNF618	114991	broad.mit.edu	37	chr9	116750765	116750765	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatctggcagggcgaggccaAggaggagaagaaggcggtca	12	3	19	7	2	2	2	1	0	1	2	2	6	2	3	1	7	0	1	1	7	3	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:116750765A>G	uc004bid.2	+	3	341	c.242A>G	c.(241-243)AAG>AGG	p.K81R	ZNF618_uc004bib.1_Missense_Mutation_p.K81R|ZNF618_uc004bic.2_Missense_Mutation_p.K81R|ZNF618_uc011lxi.1_Missense_Mutation_p.K81R|ZNF618_uc011lxj.1_Missense_Mutation_p.K81R	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	81					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGCGAGGCCAAGGAGGAGAAG	0.627													11	21					0	0	0.013537	0	0		G	116750765	G	G	116750765	3	3	48	1	0	0	0	0	1	0	0	0	18067	72	3	3	252	3	ZNF618	9	116750765	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	2404942	116750765	24462666	353	36233											
PAPPA	5069	broad.mit.edu	37	chr9	119130012	119130012	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgcgtgacatcccccactgGctgaaccccacacgggtaga	9	6	11	15	2	0	3	0	2	0	1	1	3	1	3	4	2	2	2	4	2	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:119130012G>A	uc004bjn.2	+	19	4965	c.4584G>A	c.(4582-4584)TGG>TGA	p.W1528*	PAPPA_uc011lxq.1_Nonsense_Mutation_p.W903*	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1528	Sushi 5.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						TCCCCCACTGGCTGAACCCCA	0.512													13	40					0	0	0.00245	0	0		A	119130012	A	A	119130012	4	1	48	1	0	0	0	0	0	1	0	0	11451	1212	42	2	4658	2	PAPPA	9	119130012	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2379247	119130012	22083419	354	36234											
DAB2IP	153090	broad.mit.edu	37	chr9	124532938	124532938	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgacctggcctccacaccGggctctggcagcagcagcat	9	6	11	15	1	1	1	0	1	1	0	2	1	2	1	4	3	3	5	4	3	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:124532938G>A	uc004bln.2	+	11	1998	c.1929G>A	c.(1927-1929)CCG>CCA	p.P643P	DAB2IP_uc004blo.2_Silent_p.P547P|DAB2IP_uc004blp.2_Silent_p.P98P	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	671					activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						CCTCCACACCGGGCTCTGGCA	0.622													15	30					0	0	0.004007	0	0		A	124532938	A	A	124532938	2	1	48	1	0	0	0	0	0	0	0	1	4222	1103	39	1		1	DAB2IP	9	124532938	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5402926	124532938	16680493	355	36235											
ZBTB6	10773	broad.mit.edu	37	chr9	125673938	125673938	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactgacacaggtcagtgtgTtggttgttgtttttcataga	8	16	12	5	0	2	2	2	1	0	1	2	3	2	2	0	2	0	4	0	2	1	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:125673938T>C	uc004bnh.2	-	2	503	c.414A>G	c.(412-414)CAA>CAG	p.Q138Q		NM_006626	NP_006617	Q15916	ZBTB6_HUMAN	zinc finger and BTB domain containing 6	138					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGTCAGTGTGTTGGTTGTTGT	0.373													4	56					0	0	0.009096	0	0		C	125673938	C	C	125673938	2	2	48	1	0	0	0	0	0	0	0	1	17577	1722	60	3		3	ZBTB6	9	125673938	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	1141000	125673938	15539493	356	36236											
TBC1D13	54662	broad.mit.edu	37	chr9	131568559	131568559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccgggagcagttgctggaagGggacttcactgtgaatatgc	9	9	15	8	1	1	1	1	1	0	0	1	4	1	4	1	4	3	3	1	4	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:131568559G>A	uc010myj.2	+	11	1229	c.1106G>A	c.(1105-1107)GGG>GAG	p.G369E	TBC1D13_uc010myk.2_Missense_Mutation_p.G244E|TBC1D13_uc010myl.2_Missense_Mutation_p.G188E	NM_018201	NP_060671	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	369						intracellular	Rab GTPase activator activity				0						TTGCTGGAAGGGGACTTCACT	0.627													15	55					0	0	0.007413	0	0		A	131568559	A	A	131568559	3	1	48	1	0	0	0	0	1	0	0	0	15627	1232	43	4	1148	4	TBC1D13	9	131568559	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5894621	131568559	9644872	357	36237											
BAT2L1	84726	broad.mit.edu	37	chr9	134322525	134322525	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtggaacgaggctctttTccccttcctcagctccgcct	6	11	8	16	2	2	0	1	0	1	0	5	2	5	1	5	2	2	2	5	2	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:134322525T>C	uc004can.3	+	7	964	c.909T>C	c.(907-909)TTT>TTC	p.F303F	BAT2L1_uc010mzj.1_5'Flank|BAT2L1_uc004cam.1_Silent_p.F303F	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	303							protein binding				0						GAGGCTCTTTTCCCCTTCCTC	0.473													19	28					0	0	0.012319	0	0		C	134322525	C	C	134322525	2	2	48	1	0	0	0	0	0	0	0	1	1321	1780	62	3		3	BAT2L1	9	134322525	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	2753966	134322525	6890906	358	36238											
GFI1B	8328	broad.mit.edu	37	chr9	135862760	135862760	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaacctcaaacgagagccGgagctggagcaggaccagaa	15	2	12	12	2	1	2	1	0	0	2	1	6	1	5	4	3	5	2	4	3	3	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:135862760G>A	uc004ccg.2	+	3	343	c.192G>A	c.(190-192)CCG>CCA	p.P64P	GFI1B_uc010mzy.2_Silent_p.P64P	NM_004188	NP_004179	Q5VTD9	GFI1B_HUMAN	growth factor independent 1B transcription	64					cell proliferation|chromatin modification|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;9.04e-07)|Epithelial(140;1.17e-05)		AACGAGAGCCGGAGCTGGAGC	0.617													14	44					0	0	0.003163	0	0		A	135862760	A	A	135862760	2	1	48	1	0	0	0	0	0	0	0	1	6355	1103	39	1		1	GFI1B	9	135862760	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1540235	135862760	5350671	359	36239											
SARDH	1757	broad.mit.edu	37	chr9	136597638	136597638	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgtgtagtcccgtctcCtcctccagctcccggctcac	3	10	8	20	3	2	0	1	0	1	0	7	0	6	0	6	1	1	3	6	1	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:136597638C>A	uc004cep.3	-	3	551	c.417G>T	c.(415-417)GAG>GAT	p.E139D	SARDH_uc004ceo.2_Missense_Mutation_p.E139D|SARDH_uc011mdn.1_Missense_Mutation_p.E139D|SARDH_uc011mdo.1_Translation_Start_Site	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	139					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		GTCCCGTCTCCTCCTCCAGCT	0.672													48	153					8.28887e-21	9.28563e-21	0.01441	1	0		A	136597638	A	A	136597638	3	1	48	1	0	0	0	0	1	0	0	0	13866	680	24	5	2415	5	SARDH	9	136597638	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	734878	136597638	4615793	360	36240											
RXRA	6256	broad.mit.edu	37	chr9	137328340	137328340	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagctcttgctccgcctgccGgctctgcgctccatcgggct	3	10	11	17	4	2	0	0	0	2	0	5	0	4	0	4	2	4	5	4	2	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:137328340G>A	uc004cfb.2	+	10	1431	c.1269G>A	c.(1267-1269)CCG>CCA	p.P423P	RXRA_uc004cfc.1_Silent_p.P326P	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	423	Ligand-binding.				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)	TCCGCCTGCCGGCTCTGCGCT	0.607													6	67					0	0	0.001168	0	0		A	137328340	A	A	137328340	2	1	48	1	0	0	0	0	0	0	0	1	13788	1103	39	1		1	RXRA	9	137328340	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	730702	137328340	3885091	361	36241											
CAMSAP1	157922	broad.mit.edu	37	chr9	138713536	138713536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagctcgtgcagagccaCagggtcttttgctttatgtt	6	14	10	11	1	1	1	0	0	1	1	3	1	2	1	2	1	4	4	2	1	1	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:138713536C>T	uc004cgr.3	-	11	2971	c.2971G>A	c.(2971-2973)GTG>ATG	p.V991M	CAMSAP1_uc004cgq.3_Missense_Mutation_p.V881M|CAMSAP1_uc010nbg.2_Missense_Mutation_p.V713M	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	991						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		TGCAGAGCCACAGGGTCTTTT	0.537													11	15					0	0	0.010729	0	0		T	138713536	T	T	138713536	3	4	48	1	0	0	0	0	1	0	0	0	2614	478	17	4	1865	4	CAMSAP1	9	138713536	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1385196	138713536	2499895	362	36242											
SLC34A3	142680	broad.mit.edu	37	chr9	140127502	140127502	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcatcatgggtgtcaacgtAggcacatccatcaccagcac	12	8	8	13	1	4	0	4	0	0	0	5	0	5	0	2	2	2	3	2	2	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr9:140127502A>G	uc004cmf.1	+	6	681	c.495A>G	c.(493-495)GTA>GTG	p.V165V	SLC34A3_uc004cmc.1_Silent_p.V22V|SLC34A3_uc004cmd.1_Silent_p.V165V|SLC34A3_uc011met.1_Silent_p.V165V	NM_080877	NP_543153	Q8N130	NPT2C_HUMAN	solute carrier family 34 (sodium phosphate),	165	Cytoplasmic (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|integral to membrane	sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GTGTCAACGTAGGCACATCCA	0.647													4	24					0	0	0.000602	0	0		G	140127502	G	G	140127502	2	3	48	1	0	0	0	0	0	0	0	1	14594	407	15	3		3	SLC34A3	9	140127502	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	1413966	140127502	1085929	363	36243											
SFMBT2	57713	broad.mit.edu	37	chr10	7262416	7262416	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccccttcacactcacaacGgaggccacacacagttctcc	10	6	6	19	2	3	0	2	0	1	0	4	1	3	1	4	2	1	1	4	2	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:7262416G>A	uc009xio.1	-	11	1378	c.1287C>T	c.(1285-1287)TCC>TCT	p.S429S	SFMBT2_uc001ijn.1_Silent_p.S429S|SFMBT2_uc010qay.1_Intron	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	429	MBT 4.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						CACTCACAACGGAGGCCACAC	0.517													5	228					0	0	0.000602	0	0		A	7262416	A	A	7262416	2	1	48	1	0	0	0	0	0	0	0	1	14183	1103	39	1		1	SFMBT2	10	7262416	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08		7262416	128272331	364	36244											
GATA3	2625	broad.mit.edu	37	chr10	8100351	8100351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgggcagccaccacaccGcctccccctggaatctcagc	7	5	8	21	1	1	0	1	0	1	0	3	1	2	1	7	2	2	1	7	2	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:8100351G>A	uc001ika.2	+	3	882	c.325G>A	c.(325-327)GCC>ACC	p.A109T	GATA3_uc001ijz.2_Missense_Mutation_p.A109T	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	109					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						CCACCACACCGCCTCCCCCTG	0.697			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						25	105					0	0	0.00632	0	0		A	8100351	A	A	8100351	3	1	48	1	0	0	0	0	1	0	0	0	6270	1087	38	1	331	1	GATA3	10	8100351	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	837935	8100351	127434396	365	36245											
GATA3	2625	broad.mit.edu	37	chr10	8115975	8115975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccctccagcatggtcaccGccatgggttagagccctgct	7	8	10	16	1	1	1	1	0	0	1	2	1	2	1	6	2	3	3	6	2	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:8115975G>A	uc001ika.2	+	6	1878	c.1321G>A	c.(1321-1323)GCC>ACC	p.A441T	GATA3_uc001ijz.2_Missense_Mutation_p.A442T	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	441				A -> G (in Ref. 4; AAA35870).	aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						CATGGTCACCGCCATGGGTTA	0.617			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						5	61					0	0	0.001168	0	0		A	8115975	A	A	8115975	3	1	48	1	0	0	0	0	1	0	0	0	6270	1087	38	1	1342	1	GATA3	10	8115975	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	15624	8115975	127418772	366	36246											
UPF2	26019	broad.mit.edu	37	chr10	11971928	11971928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatgttggtagcgaggccGcctctcacgattggtgtttg	5	12	15	9	4	1	0	1	0	1	0	2	3	1	1	2	4	1	3	2	4	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:11971928G>A	uc001ila.2	-	20	4219	c.3745C>T	c.(3745-3747)CGG>TGG	p.R1249W	UPF2_uc001ilb.2_Missense_Mutation_p.R1249W|UPF2_uc001ilc.2_Missense_Mutation_p.R1249W	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	1249	Sufficient for interaction with UPF1 C- terminus.|Sufficient for interaction with EIF4A1 and EIF1.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				TAGCGAGGCCGCCTCTCACGA	0.458													7	80					0	0	0.001984	0	0		A	11971928	A	A	11971928	3	1	48	1	0	0	0	0	1	0	0	0	17030	1086	38	1	81	1	UPF2	10	11971928	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3855953	11971928	123562819	367	36247											
MCM10	55388	broad.mit.edu	37	chr10	13228168	13228168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaccttttcttacaggtgtGtttatctatcgatcatcctc	7	17	5	12	1	3	0	1	0	2	0	6	1	4	0	3	1	1	1	3	1	3	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:13228168G>A	uc001ima.2	+	9	1207	c.1106G>A	c.(1105-1107)TGT>TAT	p.C369Y	MCM10_uc001imb.2_Missense_Mutation_p.C368Y|MCM10_uc001imc.2_Missense_Mutation_p.C368Y	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	369					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						TTACAGGTGTGTTTATCTATC	0.428													56	80					0	0	0.01441	0	0		A	13228168	A	A	13228168	3	1	48	1	0	0	0	0	1	0	0	0	9403	1377	48	4	1136	4	MCM10	10	13228168	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1256240	13228168	122306579	368	36248											
VIM	7431	broad.mit.edu	37	chr10	17271610	17271610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggcggcgtgtatgccacGcgctcctctgccgtgcgcct	2	8	14	17	7	1	0	0	0	1	0	2	0	2	0	5	2	3	2	5	2	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:17271610G>A	uc001iou.2	+	2	602	c.189G>A	c.(187-189)ACG>ACA	p.T63T	uc001iot.1_RNA|VIM_uc001iov.1_Silent_p.T63T|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Silent_p.T63T|VIM_uc001ioy.1_Silent_p.T63T|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Silent_p.T63T|VIM_uc001ipc.1_Silent_p.T63T	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	63	Head.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						TGTATGCCACGCGCTCCTCTG	0.711													4	9					0	0	0.009096	0	0		A	17271610	A	A	17271610	2	1	48	1	0	0	0	0	0	0	0	1	17192	1074	38	1		1	VIM	10	17271610	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4043442	17271610	118263137	369	36249											
ENKUR	219670	broad.mit.edu	37	chr10	25284784	25284784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggctttttgggcacgttccGatcaaagtttttttctgtta	7	18	9	7	2	2	0	1	0	1	0	3	1	3	0	1	2	0	5	1	2	2	7			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:25284784G>A	uc001isg.1	-	3	403	c.238C>T	c.(238-240)CGG>TGG	p.R80W	ENKUR_uc001ish.1_Missense_Mutation_p.R18W	NM_145010	NP_659447	Q8TC29	ENKUR_HUMAN	enkurin	80						cilium|flagellum	calmodulin binding|SH3 domain binding				0						GGCACGTTCCGATCAAAGTTT	0.328													19	45					0	0	0.010504	0	0		A	25284784	A	A	25284784	3	1	48	1	0	0	0	0	1	0	0	0	5128	1057	37	1	548	1	ENKUR	10	25284784	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	8013174	25284784	110249963	370	36250											
MPP7	143098	broad.mit.edu	37	chr10	28409129	28409129	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccagcagctcacctttccTggaaatgctttgaggggatc	9	11	10	11	0	1	1	1	1	0	0	3	3	2	3	3	3	4	3	3	3	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:28409129T>A	uc001iua.1	-	12	1285	c.881A>T	c.(880-882)CAG>CTG	p.Q294L	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Missense_Mutation_p.Q294L|MPP7_uc009xla.2_Missense_Mutation_p.Q294L|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	294	SH3.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						TCACCTTTCCTGGAAATGCTT	0.438													18	32					0	0	0.012319	0	0		A	28409129	A	A	28409129	3	1	48	1	0	0	0	0	1	0	0	0	9757	1580	55	5	881	5	MPP7	10	28409129	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	3124345	28409129	107125618	371	36251											
ZNF438	220929	broad.mit.edu	37	chr10	31137596	31137596	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagatggccaaaatagactcGgatgtggccaaacacttttg	13	9	10	9	1	0	2	0	0	0	2	1	3	0	3	2	3	1	0	2	3	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:31137596G>A	uc010qdz.1	-	7	2173	c.1738C>T	c.(1738-1740)CGA>TGA	p.R580*	ZNF438_uc001ivn.2_Nonsense_Mutation_p.R531*|ZNF438_uc010qdy.1_Nonsense_Mutation_p.R570*|ZNF438_uc001ivo.3_Nonsense_Mutation_p.R144*|ZNF438_uc009xlg.2_Nonsense_Mutation_p.R580*|ZNF438_uc001ivp.3_Nonsense_Mutation_p.R570*|ZNF438_uc010qea.1_Nonsense_Mutation_p.R580*|ZNF438_uc010qeb.1_Nonsense_Mutation_p.R580*|ZNF438_uc010qec.1_Nonsense_Mutation_p.R144*	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	580	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				AAATAGACTCGGATGTGGCCA	0.483													25	63					0	0	0.005443	0	0		A	31137596	A	A	31137596	4	1	48	1	0	0	0	0	0	1	0	0	17935	1124	39	1	756	1	ZNF438	10	31137596	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2728467	31137596	104397151	372	36252											
ANKRD30A	91074	broad.mit.edu	37	chr10	37430700	37430700	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccttggcggaaagaacacCtgacacagctgaaagcttgg	13	6	11	11	1	0	3	0	2	0	1	0	4	0	4	2	3	3	2	2	3	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:37430700C>A	uc001iza.1	+	7	806	c.707C>A	c.(706-708)CCT>CAT	p.P236H		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	292						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GAAAGAACACCTGACACAGCT	0.443													12	41					1.5842e-08	1.71186e-08	0.001855	1	0		A	37430700	A	A	37430700	3	1	48	1	0	0	0	0	1	0	0	0	658	681	24	5	733	5	ANKRD30A	10	37430700	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	6293104	37430700	98104047	373	36253											
ZNF248	57209	broad.mit.edu	37	chr10	38120778	38120778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgaggtttgacttcacaCagaaggattttccacattca	13	12	7	9	0	2	3	2	2	0	1	3	4	3	4	1	2	0	1	1	2	2	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:38120778C>T	uc001izd.1	-	6	2004	c.1505G>A	c.(1504-1506)TGT>TAT	p.C502Y	ZNF248_uc009xmc.2_Intron|ZNF248_uc001izb.2_Intron|ZNF248_uc001izc.2_Intron|ZNF248_uc010qeu.1_Missense_Mutation_p.C502Y	NM_021045	NP_066383	Q8NDW4	ZN248_HUMAN	zinc finger protein 248	502	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGACTTCACACAGAAGGATTT	0.423													22	77					0	0	0.003954	0	0		T	38120778	T	T	38120778	3	4	48	1	0	0	0	0	1	0	0	0	17818	478	17	4	238	4	ZNF248	10	38120778	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	690078	38120778	97413969	374	36254											
SYT15	83849	broad.mit.edu	37	chr10	46967470	46967470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgggttggaggttttgcGtttggtcttggattggagga	4	15	18	4	2	1	0	0	0	1	0	1	4	1	4	0	7	2	3	0	7	0	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:46967470G>A	uc001jea.2	-	4	760	c.607C>T	c.(607-609)CGC>TGC	p.R203C	SYT15_uc001jdz.2_Missense_Mutation_p.R203C|SYT15_uc001jeb.2_Missense_Mutation_p.R81C|SYT15_uc010qfp.1_RNA	NM_031912	NP_114118	Q9BQS2	SYT15_HUMAN	synaptotagmin XV isoform a	203	Cytoplasmic (Potential).|C2 1.					integral to membrane|plasma membrane					0						GAGGTTTTGCGTTTGGTCTTG	0.612													17	92					0	0	0.00499	0	0		A	46967470	A	A	46967470	3	1	48	1	0	0	0	0	1	0	0	0	15496	1145	40	1	732	1	SYT15	10	46967470	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	8846692	46967470	88567277	375	36255											
PHYHIPL	84457	broad.mit.edu	37	chr10	60994193	60994193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggattcaaaatcaaaggatcGcattacacactattttattg	15	13	6	7	1	2	0	2	0	0	0	3	2	2	2	0	2	1	1	0	2	6	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:60994193G>A	uc001jkk.3	+	2	502	c.236G>A	c.(235-237)CGC>CAC	p.R79H	PHYHIPL_uc001jkl.3_Missense_Mutation_p.R33H|PHYHIPL_uc001jkm.3_Missense_Mutation_p.R53H	NM_032439	NP_115815	Q96FC7	PHIPL_HUMAN	phytanoyl-CoA 2-hydroxylase interacting	79	Fibronectin type-III.										0						TCAAAGGATCGCATTACACAC	0.323													14	40					0	0	0.003163	0	0		A	60994193	A	A	60994193	3	1	48	1	0	0	0	0	1	0	0	0	11886	1087	38	1	274	1	PHYHIPL	10	60994193	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	14026723	60994193	74540554	376	36256											
DDX50	79009	broad.mit.edu	37	chr10	70673882	70673882	+	Frame_Shift_Del	DEL	A	-	-																															cagtgggtatacaaagttgcAaaaaaatacatgaaatccag																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:70673882delA	uc001jou.2	+	7	1118	c.1011delA	c.(1009-1011)GCAfs	p.A337fs	DDX50_uc001jot.2_Frame_Shift_Del_p.A337fs|DDX50_uc010qjc.1_Frame_Shift_Del_p.A337fs	NM_024045	NP_076950	Q9BQ39	DDX50_HUMAN	nucleolar protein GU2	337	Helicase ATP-binding.					nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1						ACAAAGTTGCAAAAAAATACA	0.343													16	31	---	---	---	---						.	-	70673882	-	-	70673882	7	5	48	1	0	1	0	1	0	0	0	0	4371	117	5	0	1037	0	DDX50	10	70673882	Frame_Shift_Del	DEL	A	TCGA-BR-7703-01A-11D-2053-08	9679689	70673882	64860865	377	36257											
CDH23	64072	broad.mit.edu	37	chr10	73270932	73270932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaatgacaacgcgcccaCatttcacaatcagccctaca	13	8	6	14	2	2	2	2	2	0	0	2	2	2	2	2	0	3	0	2	0	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:73270932C>T	uc001jrx.3	+	6	769	c.392C>T	c.(391-393)ACA>ATA	p.T131I	CDH23_uc001jrw.3_Missense_Mutation_p.T131I|CDH23_uc001jrv.2_Missense_Mutation_p.T126I|CDH23_uc009xql.2_Missense_Mutation_p.T176I	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	131	Cadherin 1.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						AACGCGCCCACATTTCACAAT	0.582													24	100					0	0	0.00632	0	0		T	73270932	T	T	73270932	3	4	48	1	0	0	0	0	1	0	0	0	3111	478	17	4	410	4	CDH23	10	73270932	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2597050	73270932	62263815	378	36258											
C10orf54	64115	broad.mit.edu	37	chr10	73511467	73511467	+	Frame_Shift_Del	DEL	G	-	-																															tccggggcctggaggagacaGgggggtgctgggctccgaaa																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:73511467delG	uc001jsd.2	-	6	997	c.856delC	c.(856-858)CTGfs	p.L286fs	CDH23_uc001jrx.3_Intron|C10orf54_uc001jse.2_Frame_Shift_Del_p.L154fs|C10orf54_uc009xqm.2_Frame_Shift_Del_p.L124fs	NM_022153	NP_071436	Q9H7M9	GI24_HUMAN	platelet receptor Gi24 precursor	286	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)|central_nervous_system(1)	3						GGAGGAGACAGGGGGGTGCTG	0.617													12	21	---	---	---	---						.	-	73511467	-	-	73511467	7	5	48	1	0	1	0	1	0	0	0	0	1610	991	35	0	87	0	C10orf54	10	73511467	Frame_Shift_Del	DEL	G	TCGA-BR-7703-01A-11D-2053-08	240535	73511467	62023280	379	36259											
VCL	7414	broad.mit.edu	37	chr10	75868773	75868773	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccacctctgcctgaaggTgaggtccctccacctaggcc	9	7	9	16	0	1	2	0	2	1	0	3	2	3	2	7	3	2	0	7	3	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:75868773T>C	uc001jwd.2	+	18	2698	c.2604T>C	c.(2602-2604)GGT>GGC	p.G868G	VCL_uc009xrr.2_Silent_p.G617G|VCL_uc010qky.1_Silent_p.G775G|VCL_uc001jwe.2_Silent_p.G868G|VCL_uc010qkz.1_Intron	NM_014000	NP_054706	P18206	VINC_HUMAN	vinculin isoform meta-VCL	868	Linker (Pro-rich).|Pro-rich.				adherens junction assembly|apical junction assembly|cell-matrix adhesion|cellular component movement|epithelial cell-cell adhesion|lamellipodium assembly|morphogenesis of an epithelium|muscle contraction|negative regulation of cell migration|platelet activation|platelet degranulation|protein localization at cell surface	costamere|cytosol|extracellular region|focal adhesion	actin binding|alpha-catenin binding|beta-catenin binding|beta-dystroglycan binding|cadherin binding|structural molecule activity		VCL/ALK(4)	kidney(4)|ovary(1)|central_nervous_system(1)	6	Prostate(51;0.0112)					TGCCTGAAGGTGAGGTCCCTC	0.502													23	60					0	0	0.00333	0	0		C	75868773	C	C	75868773	2	2	48	1	0	0	0	0	0	0	0	1	17165	1683	59	3		3	VCL	10	75868773	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	2357306	75868773	59665974	380	36260											
RPS24	6229	broad.mit.edu	37	chr10	79795304	79795304	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccccgggaaggcgacagtGcctaagacagaaattcggga	13	4	13	11	3	0	2	0	0	0	2	1	5	0	4	3	3	1	0	3	3	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:79795304G>A	uc001jzq.2	+	3	247	c.105G>A	c.(103-105)GTG>GTA	p.V35V	RPS24_uc001jzo.2_Silent_p.V35V|RPS24_uc010qlo.1_Silent_p.V35V|RPS24_uc001jzp.2_Silent_p.V35V|RPS24_uc001jzs.2_Silent_p.V35V|RPS24_uc001jzt.2_RNA	NM_001026	NP_001017	P62847	RS24_HUMAN	ribosomal protein S24 isoform c	35					endocrine pancreas development|erythrocyte homeostasis|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	nucleotide binding|structural constituent of ribosome|translation initiation factor binding			skin(1)	1	all_cancers(46;0.0343)|all_epithelial(25;0.000959)|Breast(12;0.00113)|Prostate(51;0.0095)		Epithelial(14;0.00128)|OV - Ovarian serous cystadenocarcinoma(4;0.00248)|all cancers(16;0.00428)			AGGCGACAGTGCCTAAGACAG	0.398													18	32					0	0	0.007413	0	0		A	79795304	A	A	79795304	2	1	48	1	0	0	0	0	0	0	0	1	13660	1306	46	2		2	RPS24	10	79795304	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3926531	79795304	55739443	381	36261											
PANK1	53354	broad.mit.edu	37	chr10	91353063	91353063	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctcgcttttctttactcAtcatgttgccaaagctatgt	9	17	5	10	1	4	0	2	0	2	0	5	0	4	0	1	0	3	3	1	0	4	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:91353063A>G	uc001kgp.1	-	5	1658	c.1502T>C	c.(1501-1503)ATG>ACG	p.M501T	PANK1_uc001kgn.1_Missense_Mutation_p.M276T|PANK1_uc001kgo.1_Missense_Mutation_p.M217T|PANK1_uc009xtu.1_Missense_Mutation_p.M303T|uc001kgq.1_5'Flank|MIR107_hsa-mir-107|MI0000114_5'Flank	NM_148977	NP_683878	Q8TE04	PANK1_HUMAN	pantothenate kinase 1 isoform alpha	501					coenzyme A biosynthetic process|pantothenate metabolic process	cytosol|nucleus	ATP binding|pantothenate kinase activity				0					Bezafibrate(DB01393)	TTCTTTACTCATCATGTTGCC	0.507													11	26					0	0	0.010729	0	0		G	91353063	G	G	91353063	3	3	48	1	0	0	0	0	1	0	0	0	11435	217	8	3	306	3	PANK1	10	91353063	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	11557759	91353063	44181684	382	36262											
PIK3AP1	118788	broad.mit.edu	37	chr10	98386589	98386589	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcctcatcgtcatccacCgtgtgataaacatcttcttc	10	12	6	13	2	4	1	2	1	2	0	7	1	5	1	3	1	1	0	3	1	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:98386589C>T	uc001kmq.2	-	10	1673	c.1545G>A	c.(1543-1545)ACG>ACA	p.T515T	PIK3AP1_uc001kmo.2_Silent_p.T114T|PIK3AP1_uc001kmp.2_Silent_p.T337T	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	515						cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		CGTCATCCACCGTGTGATAAA	0.552													19	71					0	0	0.008871	0	0		T	98386589	T	T	98386589	2	4	48	1	0	0	0	0	0	0	0	1	11927	639	23	1		1	PIK3AP1	10	98386589	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	7033526	98386589	37148158	383	36263											
RRP12	23223	broad.mit.edu	37	chr10	99125892	99125892	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcctcttcctccatctTgttgccgtctgcctcctccc	2	15	4	20	1	3	0	0	0	3	0	8	0	8	0	8	0	2	1	8	0	0	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:99125892T>C	uc001knf.2	-	29	3629	c.3490A>G	c.(3490-3492)AAG>GAG	p.K1164E	RRP12_uc001kne.2_Missense_Mutation_p.K179E|RRP12_uc009xvl.2_Missense_Mutation_p.K281E|RRP12_uc009xvm.2_Missense_Mutation_p.K882E|RRP12_uc010qou.1_Missense_Mutation_p.K1103E|RRP12_uc009xvn.2_Missense_Mutation_p.K1064E	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	1164						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		TCCTCCATCTTGTTGCCGTCT	0.597													4	183					0	0	0.000602	0	0		C	99125892	C	C	99125892	3	2	48	1	0	0	0	0	1	0	0	0	13711	1821	63	3	427	3	RRP12	10	99125892	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	739303	99125892	36408855	384	36264											
DNMBP	23268	broad.mit.edu	37	chr10	101639817	101639817	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtctgggtctgaagggcaTctggaaggactactctctga	9	10	14	8	0	4	2	0	2	4	0	5	5	4	4	0	4	1	1	0	4	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:101639817T>C	uc001kqj.2	-	16	4391	c.4299A>G	c.(4297-4299)AGA>AGG	p.R1433R	DNMBP_uc010qpl.1_Silent_p.R369R|DNMBP_uc001kqg.2_Silent_p.R721R|DNMBP_uc001kqh.2_Silent_p.R1065R	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	1433	Ser-rich.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		CTGAAGGGCATCTGGAAGGAC	0.532													3	102					0	0	0.009096	0	0		C	101639817	C	C	101639817	2	2	48	1	0	0	0	0	0	0	0	1	4680	1432	50	3		3	DNMBP	10	101639817	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	2513925	101639817	33894930	385	36265											
SFXN3	81855	broad.mit.edu	37	chr10	102795417	102795417	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactggctgcatgctcacaTtctacaggcaggtcttgtcc	7	12	9	13	0	4	0	2	0	2	0	5	0	5	0	1	3	3	4	1	3	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:102795417T>C	uc001ksp.2	+	4	793	c.337T>C	c.(337-339)TTC>CTC	p.F113L	SFXN3_uc001ksq.2_Missense_Mutation_p.F113L|SFXN3_uc010qpx.1_Intron	NM_030971	NP_112233	Q9BWM7	SFXN3_HUMAN	sideroflexin 3	113					iron ion homeostasis	integral to membrane|mitochondrial membrane	cation transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		CATGCTCACATTCTACAGGCA	0.572													4	34					0	0	0.000602	0	0		C	102795417	C	C	102795417	3	2	48	1	0	0	0	0	1	0	0	0	14221	1493	52	3	347	3	SFXN3	10	102795417	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	1155600	102795417	32739330	386	36266											
LBX1	10660	broad.mit.edu	37	chr10	102987488	102987488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggttggtgaaggccgtgcGcgactttcgccgcttcttag	4	12	15	10	5	1	1	0	1	1	0	2	2	1	1	2	3	1	2	2	3	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:102987488G>A	uc001ksx.2	-	2	530	c.385C>T	c.(385-387)CGC>TGC	p.R129C	uc010qpy.1_5'Flank	NM_006562	NP_006553	P52954	LBX1_HUMAN	ladybird homeobox 1	129	Homeobox.				muscle organ development		sequence-specific DNA binding				0		Colorectal(252;0.234)		Epithelial(162;3.22e-09)|all cancers(201;1.79e-07)		AAGGCCGTGCGCGACTTTCGC	0.587													4	70					0	0	0.009096	0	0		A	102987488	A	A	102987488	3	1	48	1	0	0	0	0	1	0	0	0	8669	1087	38	1	464	1	LBX1	10	102987488	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	192071	102987488	32547259	387	36267											
NPM3	10360	broad.mit.edu	37	chr10	103541521	103541521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcccccctgctttttggcaGgaaggatggggcacagctca	7	9	13	12	0	1	0	1	0	0	0	1	2	1	2	3	5	3	4	3	5	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:103541521G>A	uc001ktt.2	-	5	532	c.509C>T	c.(508-510)CCT>CTT	p.P170L		NM_006993	NP_008924	O75607	NPM3_HUMAN	nucleophosmin/nucleoplasmin 3	170							nucleic acid binding				0		Colorectal(252;0.122)		Epithelial(162;3.94e-09)|all cancers(201;2.13e-07)		CTTTTTGGCAGGAAGGATGGG	0.438											OREG0020469	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	70	185					0	0	0.01441	0	0		A	103541521	A	A	103541521	3	1	48	1	0	0	0	0	1	0	0	0	10608	1000	35	4	31	4	NPM3	10	103541521	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	554033	103541521	31993226	388	36268											
LDB1	8861	broad.mit.edu	37	chr10	103871259	103871259	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgccgttcgggggctccttCggcgagtacagcttgaatga	6	11	14	10	4	0	2	0	2	0	0	3	3	1	2	2	3	3	4	2	3	2	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:103871259C>T	uc009xwz.2	-	2	403	c.60G>A	c.(58-60)CCG>CCA	p.P20P	LDB1_uc001kuk.3_5'UTR|LDB1_uc001kul.3_5'UTR	NM_001113407	NP_001106878	Q86U70	LDB1_HUMAN	LIM domain binding 1 isoform 1	20					histone H3-K4 acetylation|negative regulation of erythrocyte differentiation|negative regulation of transcription, DNA-dependent|positive regulation of hemoglobin biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription elongation, DNA-dependent|transcription, DNA-dependent|transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery	nuclear chromatin|protein complex	LIM domain binding|protein homodimerization activity|transcription corepressor activity			large_intestine(1)	1		Colorectal(252;0.122)		Epithelial(162;1.11e-07)|all cancers(201;1.82e-06)		GGGGCTCCTTCGGCGAGTACA	0.433													6	28					0	0	0.001984	0	0		T	103871259	T	T	103871259	2	4	48	1	0	0	0	0	0	0	0	1	8711	871	31	1		1	LDB1	10	103871259	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	329738	103871259	31663488	389	36269											
GBF1	8729	broad.mit.edu	37	chr10	104119976	104119976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatggtcttccctgcatcCgcgagctcttccgcttcctc	3	13	7	18	3	2	0	0	0	2	0	7	1	6	0	5	1	2	3	5	1	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:104119976C>T	uc001kux.1	+	12	1453	c.1213C>T	c.(1213-1215)CGC>TGC	p.R405C	GBF1_uc001kuw.2_3'UTR|GBF1_uc001kuy.1_Missense_Mutation_p.R405C|GBF1_uc001kuz.1_Missense_Mutation_p.R406C	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	405					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		TCCCTGCATCCGCGAGCTCTT	0.547													28	439					0	0	0.00632	0	0		T	104119976	T	T	104119976	3	4	48	1	0	0	0	0	1	0	0	0	6286	652	23	1	1255	1	GBF1	10	104119976	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	248717	104119976	31414771	390	36270											
PSD	5662	broad.mit.edu	37	chr10	104176197	104176197	+	Frame_Shift_Del	DEL	G	-	-																															agagtgtggccaggcgctcaGgggggccccccagcccattg																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:104176197delG	uc001kvg.1	-	2	1126	c.599delC	c.(598-600)CCTfs	p.P200fs	PSD_uc001kvh.1_5'UTR|PSD_uc009xxd.1_Frame_Shift_Del_p.P200fs|PSD_uc001kvi.1_Frame_Shift_Del_p.P200fs|FBXL15_uc001kvj.1_5'Flank	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	200					regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		CAGGCGCTCAGGGGGGCCCCC	0.652													4	8	---	---	---	---						.	-	104176197	-	-	104176197	7	5	48	1	0	1	0	1	0	0	0	0	12668	1000	35	0	2539	0	PSD	10	104176197	Frame_Shift_Del	DEL	G	TCGA-BR-7703-01A-11D-2053-08	56221	104176197	31358550	391	36271											
C10orf79	80217	broad.mit.edu	37	chr10	105956617	105956617	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaagtatacttactagggtAttcagataaatcttgcttac	13	15	6	7	0	3	1	2	0	1	1	3	1	3	1	0	1	4	3	0	1	9	9			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:105956617A>T	uc001kxw.2	-	10	1403	c.1287T>A	c.(1285-1287)AAT>AAA	p.N429K	C10orf79_uc001kxx.3_Missense_Mutation_p.N430K|C10orf79_uc001kxy.1_Missense_Mutation_p.N430K	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	429	WD 7.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TTACTAGGGTATTCAGATAAA	0.303													3	52					0	0	0.009096	0	0		T	105956617	T	T	105956617	3	4	48	1	0	0	0	0	1	0	0	0	1621	446	16	5	3826	5	C10orf79	10	105956617	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	1780420	105956617	29578130	392	36272											
SORCS1	114815	broad.mit.edu	37	chr10	108923921	108923921	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggggctccgactcgcgccctCtccccgttctgccttctcct	1	11	9	20	4	3	0	0	0	3	0	7	1	4	0	6	2	1	2	6	2	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:108923921C>G	uc001kym.2	-	1	372	c.364G>C	c.(364-366)GAG>CAG	p.E122Q	SORCS1_uc001kyl.2_Missense_Mutation_p.E122Q|SORCS1_uc009xxs.2_Missense_Mutation_p.E122Q|SORCS1_uc001kyn.1_Missense_Mutation_p.E122Q|SORCS1_uc001kyo.2_Missense_Mutation_p.E122Q	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	122	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CTCGCGCCCTCTCCCCGTTCT	0.706													14	42					0	0	0.003163	0	0		G	108923921	G	G	108923921	3	3	48	1	0	0	0	0	1	0	0	0	14955	922	32	5	3480	5	SORCS1	10	108923921	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2967304	108923921	26610826	393	36273											
SHOC2	8036	broad.mit.edu	37	chr10	112724378	112724378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctagaaaaaaatccagcaatGcagaggtgattaaagagctc	18	7	9	7	0	0	4	0	1	0	3	2	4	1	4	1	1	3	3	1	1	7	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:112724378G>A	uc001kzl.3	+	2	611	c.262G>A	c.(262-264)GCA>ACA	p.A88T	SHOC2_uc009xxx.2_Missense_Mutation_p.A88T|SHOC2_uc010qrg.1_Intron|SHOC2_uc001kzn.2_Missense_Mutation_p.A88T	NM_007373	NP_031399	Q9UQ13	SHOC2_HUMAN	soc-2 suppressor of clear homolog	88					fibroblast growth factor receptor signaling pathway|positive regulation of Ras protein signal transduction|Ras protein signal transduction	nucleus|protein phosphatase type 1 complex	protein phosphatase binding|protein phosphatase regulator activity			ovary(1)|skin(1)	2				Epithelial(162;0.000796)|all cancers(201;0.011)|BRCA - Breast invasive adenocarcinoma(275;0.126)		ATCCAGCAATGCAGAGGTGAT	0.448													28	68					0	0	0.00632	0	0		A	112724378	A	A	112724378	3	1	48	1	0	0	0	0	1	0	0	0	14312	1319	46	2	264	2	SHOC2	10	112724378	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3800457	112724378	22810369	394	36274											
TECTB	6975	broad.mit.edu	37	chr10	114057846	114057846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccccacggatgaaaccGtcctcgtgcatgagaatggg	9	7	13	12	3	0	2	0	2	0	1	2	4	1	3	4	2	3	2	4	2	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:114057846G>A	uc001kzr.1	+	7	691	c.691G>A	c.(691-693)GTC>ATC	p.V231I		NM_058222	NP_478129	Q96PL2	TECTB_HUMAN	tectorin beta precursor	231	ZP.					anchored to membrane|plasma membrane|proteinaceous extracellular matrix					0		Colorectal(252;0.198)		Epithelial(162;0.0143)|all cancers(201;0.0242)		GGATGAAACCGTCCTCGTGCA	0.517													4	121					0	0	0.001168	0	0		A	114057846	A	A	114057846	3	1	48	1	0	0	0	0	1	0	0	0	15773	1145	40	1	717	1	TECTB	10	114057846	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1333468	114057846	21476901	395	36275											
TCF7L2	6934	broad.mit.edu	37	chr10	114912188	114912188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaccccggctggtccgcgCgggataactatgtaggtgga	7	9	15	10	4	0	0	0	0	0	0	1	2	1	2	3	5	2	3	3	5	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:114912188C>T	uc001lae.3	+	11	1765	c.1258C>T	c.(1258-1260)CGG>TGG	p.R420W	TCF7L2_uc001lac.3_Missense_Mutation_p.R397W|TCF7L2_uc010qrk.1_Missense_Mutation_p.R397W|TCF7L2_uc010qrl.1_Missense_Mutation_p.R397W|TCF7L2_uc010qrm.1_Missense_Mutation_p.R420W|TCF7L2_uc010qrn.1_Missense_Mutation_p.R363W|TCF7L2_uc001lad.3_Missense_Mutation_p.R393W|TCF7L2_uc001lag.3_Missense_Mutation_p.R444W|TCF7L2_uc001laf.3_Missense_Mutation_p.R397W|TCF7L2_uc010qro.1_Missense_Mutation_p.R397W|TCF7L2_uc001lah.2_Missense_Mutation_p.R402W|TCF7L2_uc010qrp.1_Missense_Mutation_p.R397W|TCF7L2_uc010qrq.1_Missense_Mutation_p.R393W|TCF7L2_uc010qrr.1_Missense_Mutation_p.R335W|TCF7L2_uc010qrs.1_Missense_Mutation_p.R291W|TCF7L2_uc010qrt.1_Missense_Mutation_p.R291W|TCF7L2_uc010qru.1_Missense_Mutation_p.R319W|TCF7L2_uc010qrv.1_Missense_Mutation_p.R237W|TCF7L2_uc010qrw.1_Missense_Mutation_p.R124W|TCF7L2_uc010qrx.1_Missense_Mutation_p.R277W	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	420					anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		CTGGTCCGCGCGGGATAACTA	0.527													50	104					0	0	0.01441	0	0		T	114912188	T	T	114912188	3	4	48	1	0	0	0	0	1	0	0	0	15723	759	27	1	1445	1	TCF7L2	10	114912188	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	854342	114912188	20622559	396	36276											
HSPA12A	259217	broad.mit.edu	37	chr10	118434447	118434447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtccctgtgagatccaggcGgagcgtgccacacttcttca	7	9	12	13	2	2	1	1	1	1	1	4	3	4	2	3	3	2	0	3	3	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:118434447G>A	uc001lct.2	-	12	1978	c.1873C>T	c.(1873-1875)CGC>TGC	p.R625C	HSPA12A_uc001lcu.2_Missense_Mutation_p.R542C	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	625							ATP binding			ovary(1)	1				all cancers(201;0.0158)		AGATCCAGGCGGAGCGTGCCA	0.592													34	55					0	0	0.004289	0	0		A	118434447	A	A	118434447	3	1	48	1	0	0	0	0	1	0	0	0	7420	1116	39	1	158	1	HSPA12A	10	118434447	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3522259	118434447	17100300	397	36277											
KIAA1598	57698	broad.mit.edu	37	chr10	118713647	118713647	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcaatgtttatctcttcAgttattacatctggtcccag	9	17	5	10	0	5	0	3	0	2	0	7	0	6	0	1	1	1	2	1	1	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:118713647A>G	uc009xyw.2	-	5	840	c.342T>C	c.(340-342)ACT>ACC	p.T114T	KIAA1598_uc001lcz.3_Silent_p.T114T|KIAA1598_uc010qso.1_Silent_p.T54T|KIAA1598_uc010qsp.1_Silent_p.T114T|KIAA1598_uc010qsq.1_Silent_p.T54T|KIAA1598_uc001lcy.3_Silent_p.T84T	NM_001127211	NP_001120683	A0MZ66	SHOT1_HUMAN	shootin1 isoform a	114	Potential.				axon guidance	axon					0				all cancers(201;0.00494)		TTATCTCTTCAGTTATTACAT	0.368													16	35					0	0	0.004007	0	0		G	118713647	G	G	118713647	2	3	48	1	0	0	0	0	0	0	0	1	8262	175	7	3		3	KIAA1598	10	118713647	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	279200	118713647	16821100	398	36278											
PRLHR	2834	broad.mit.edu	37	chr10	120354648	120354648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgcgccagccaccgaccCgttgcccgccgaggcctctg	4	5	12	20	6	1	0	0	0	1	0	2	2	2	0	8	1	2	1	8	1	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:120354648C>T	uc001ldp.1	-	2	248	c.109G>A	c.(109-111)GGG>AGG	p.G37R		NM_004248	NP_004239	P49683	PRLHR_HUMAN	G protein-coupled receptor 10	37	Extracellular (Potential).				female pregnancy	integral to plasma membrane	neuropeptide Y receptor activity				0		Colorectal(252;0.0429)|Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0166)		GCCACCGACCCGTTGCCCGCC	0.667													11	28					0	0	0.008291	0	0		T	120354648	T	T	120354648	3	4	48	1	0	0	0	0	1	0	0	0	12552	652	23	1	1007	1	PRLHR	10	120354648	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1641001	120354648	15180099	399	36279											
INPP5F	22876	broad.mit.edu	37	chr10	121567499	121567499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attacctgtgaaatgtaatcGcatctaccagataatgtggg	13	12	9	7	1	1	2	0	1	1	1	2	2	1	2	2	1	2	2	2	1	5	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:121567499G>A	uc001leo.2	+	13	1662	c.1496G>A	c.(1495-1497)CGC>CAC	p.R499H		NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	499	SAC.						phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		AAATGTAATCGCATCTACCAG	0.443													4	103					0	0	0.000602	0	0		A	121567499	A	A	121567499	3	1	48	1	0	0	0	0	1	0	0	0	7774	1087	38	1	1546	1	INPP5F	10	121567499	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1212851	121567499	13967248	400	36280											
GPR123	84435	broad.mit.edu	37	chr10	134916258	134916258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtggataggagtgaccGccaggaacatctacaagcag	12	7	13	9	1	1	1	0	1	1	0	1	4	1	4	2	3	4	2	2	3	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:134916258G>A	uc001llx.3	+	5	749	c.313G>A	c.(313-315)GCC>ACC	p.A105T	GPR123_uc001llw.2_Missense_Mutation_p.A825T	NM_001083909	NP_001077378	Q86SQ6	GP123_HUMAN	G protein-coupled receptor 123	105	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		AGGAGTGACCGCCAGGAACAT	0.622													6	13					0	0	0.004482	0	0		A	134916258	A	A	134916258	3	1	48	1	0	0	0	0	1	0	0	0	6652	1087	38	1	327	1	GPR123	10	134916258	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	13348759	134916258	618489	401	36281											
ADAM8	101	broad.mit.edu	37	chr10	135083962	135083962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacgatgcagatggcacGccccaggggctgctgcccac	8	5	12	16	2	0	1	0	0	0	1	1	2	1	1	4	3	3	4	4	3	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr10:135083962G>A	uc010qva.1	-	15	1621	c.1570C>T	c.(1570-1572)CGT>TGT	p.R524C	ADAM8_uc010quz.1_Missense_Mutation_p.R563C|ADAM8_uc009ybi.2_Missense_Mutation_p.R563C			P78325	ADAM8_HUMAN	SubName: Full=cDNA FLJ50704, highly similar to ADAM 8 (EC 3.4.24.-) (A disintegrinand metalloproteinase domain 8);	524					integrin-mediated signaling pathway|proteolysis		metalloendopeptidase activity			large_intestine(2)|central_nervous_system(1)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;7.72e-06)|OV - Ovarian serous cystadenocarcinoma(35;8.23e-06)|Epithelial(32;1.02e-05)		CAGATGGCACGCCCCAGGGGC	0.647													35	54					0	0	0.00623	0	0		A	135083962	A	A	135083962	3	1	48	1	0	0	0	0	1	0	0	0	252	1087	38	1	737	1	ADAM8	10	135083962	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	167704	135083962	450785	402	36282											
DRD4	1815	broad.mit.edu	37	chr11	639781	639781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgcggcctcaacgacgtgCgcggccgcgaccccgccgtg	4	5	15	17	9	1	0	1	0	0	0	1	2	1	0	5	2	3	0	5	2	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:639781C>T	uc001lqp.1	+	3	532	c.532C>T	c.(532-534)CGC>TGC	p.R178C		NM_000797	NP_000788	P21917	DRD4_HUMAN	dopamine receptor D4	178	Extracellular (Potential).				activation of MAPK activity|adult locomotory behavior|arachidonic acid secretion|behavioral fear response|behavioral response to cocaine|behavioral response to ethanol|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cAMP biosynthetic process|negative regulation of protein secretion|positive regulation of sodium:hydrogen antiporter activity|regulation of dopamine metabolic process|regulation of inhibitory postsynaptic membrane potential|response to amphetamine|response to histamine|social behavior	integral to plasma membrane	dopamine D4 receptor activity|drug binding|potassium channel regulator activity|SH3 domain binding				0		all_cancers(49;1.69e-08)|all_epithelial(84;1.65e-05)|Breast(177;0.000231)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.36e-28)|Epithelial(43;2.59e-27)|OV - Ovarian serous cystadenocarcinoma(40;3.53e-21)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Apomorphine(DB00714)|Clozapine(DB00363)|Olanzapine(DB00334)|Pramipexole(DB00413)|Promazine(DB00420)|Propiomazine(DB00777)|Ropinirole(DB00268)|Thiethylperazine(DB00372)|Ziprasidone(DB00246)	CAACGACGTGCGCGGCCGCGA	0.726													4	13					0	0	0.009096	0	0		T	639781	T	T	639781	3	4	48	1	0	0	0	0	1	0	0	0	4765	768	27	1	542	1	DRD4	11	639781	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08		639781	134366735	403	36283											
PDDC1	347862	broad.mit.edu	37	chr11	771381	771381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagtcctccaccacgagcgGcaggcgggcgaagccggggg	8	2	18	13	5	0	0	0	0	0	0	2	3	2	0	4	5	2	1	4	5	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:771381G>A	uc001lrc.2	-	6	521	c.496C>T	c.(496-498)CCG>TCG	p.P166S	PDDC1_uc010qwm.1_Missense_Mutation_p.P116S|PDDC1_uc001lrd.2_Missense_Mutation_p.P166S|PDDC1_uc001lrf.1_Silent_p.C143C|PDDC1_uc001lrg.1_RNA|PDDC1_uc009ycg.2_Missense_Mutation_p.P116S|PDDC1_uc010qwn.1_RNA|PDDC1_uc010qwo.1_RNA|PDDC1_uc010qwp.1_Missense_Mutation_p.P130S|PDDC1_uc010qwq.1_Missense_Mutation_p.P80S|PDDC1_uc010qwr.1_Missense_Mutation_p.P166S|PDDC1_uc010qws.1_Missense_Mutation_p.P116S	NM_182612	NP_872418	Q8NB37	PDDC1_HUMAN	Parkinson disease 7 domain containing 1	166						extracellular region					0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;3.66e-26)|Epithelial(43;2.43e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-19)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		ACCACGAGCGGCAGGCGGGCG	0.706													5	13					0	0	0.00308	0	0		A	771381	A	A	771381	3	1	48	1	0	0	0	0	1	0	0	0	11648	1203	42	2	178	2	PDDC1	11	771381	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	131600	771381	134235135	404	36284											
MUC6	4588	broad.mit.edu	37	chr11	1016092	1016092	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaggctaggtggctggatgGggtgggagacacggtaacag	9	6	21	5	1	0	1	0	0	0	1	0	4	0	3	0	9	1	3	0	9	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:1016092G>T	uc001lsw.2	-	31	6760	c.6709C>A	c.(6709-6711)CCA>ACA	p.P2237T		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2237	Ser-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGGCTGGATGGGGTGGGAGAC	0.602													32	72					3.67414e-24	4.15807e-24	0.012213	1	0		T	1016092	T	T	1016092	3	4	48	1	0	0	0	0	1	0	0	0	9998	1232	43	5	622	5	MUC6	11	1016092	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	244711	1016092	133990424	405	36285											
MUC5B	727897	broad.mit.edu	37	chr11	1272413	1272413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggaccgtcccagcacagaCcaccacacccatgtccacca	11	4	7	19	1	0	1	0	0	0	1	2	2	2	2	7	1	1	1	7	1	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:1272413C>T	uc009ycr.1	+	52	15395	c.15269C>T	c.(15268-15270)ACC>ATC	p.T5090I	MUC5B_uc001ltb.2_Missense_Mutation_p.T4771I	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4693	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCAGCACAGACCACCACACCC	0.582													4	90					0	0	0.009096	0	0		T	1272413	T	T	1272413	3	4	48	1	0	0	0	0	1	0	0	0	9997	507	18	4	14434	4	MUC5B	11	1272413	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	256321	1272413	133734103	406	36286											
NUP98	4928	broad.mit.edu	37	chr11	3726529	3726529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaggcaggcgactgaagcGttgatccagtgccatatcta	11	8	13	9	2	1	2	0	2	1	0	2	4	2	3	2	3	2	2	2	3	4	3	rs144100440		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:3726529G>A	uc001lyh.2	-	22	3274	c.2983C>T	c.(2983-2985)CGC>TGC	p.R995C	NUP98_uc001lyi.2_Missense_Mutation_p.R995C|NUP98_uc001lyg.2_Missense_Mutation_p.R63C	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1012					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		CGACTGAAGCGTTGATCCAGT	0.433			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								13	66					0	0	0.00499	0	0		A	3726529	A	A	3726529	3	1	48	1	0	0	0	0	1	0	0	0	10792	1145	40	1	2467	1	NUP98	11	3726529	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2454116	3726529	131279987	407	36287											
OR56A1	120796	broad.mit.edu	37	chr11	6048430	6048430	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaatggagcagggaagtgaGgataggaatgggtgcagtaa	14	7	18	2	0	0	1	0	1	0	0	0	5	0	5	0	5	2	4	0	5	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:6048430G>T	uc010qzw.1	-	1	505	c.505C>A	c.(505-507)CTC>ATC	p.L169I		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGGGAAGTGAGGATAGGAATG	0.478													29	88					3.69857e-22	4.15912e-22	0.008361	1	0		T	6048430	T	T	6048430	3	4	48	1	0	0	0	0	1	0	0	0	11152	1000	35	5	455	5	OR56A1	11	6048430	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2321901	6048430	128958086	408	36288											
ARFIP2	23647	broad.mit.edu	37	chr11	6499032	6499032	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgggcctggaaagtggcCtgggcactctcaagtcgacc	8	7	14	12	2	1	0	1	0	1	0	3	3	1	1	3	4	0	1	3	4	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:6499032C>A	uc001mdk.2	-	7	923	c.786G>T	c.(784-786)CAG>CAT	p.Q262H	ARFIP2_uc001mdl.2_Missense_Mutation_p.Q262H|ARFIP2_uc010ral.1_Missense_Mutation_p.Q224H|ARFIP2_uc010ram.1_Missense_Mutation_p.Q168H|ARFIP2_uc010ran.1_Missense_Mutation_p.Q295H|ARFIP2_uc001mdm.2_RNA	NM_012402	NP_036534	P53365	ARFP2_HUMAN	ADP-ribosylation factor interacting protein 2	262	AH.				actin cytoskeleton organization|cellular component movement|lamellipodium assembly|ruffle organization|small GTPase mediated signal transduction	cell cortex|plasma membrane|ruffle	GTP binding|GTP-dependent protein binding|Rac GTPase binding				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;3.41e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGAAAGTGGCCTGGGCACTCT	0.587													22	45					0.000229342	0.000237667	0.012319	1	0		A	6499032	A	A	6499032	3	1	48	1	0	0	0	0	1	0	0	0	855	680	24	5	247	5	ARFIP2	11	6499032	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	450602	6499032	128507484	409	36289											
OR2D3	120775	broad.mit.edu	37	chr11	6942990	6942991	+	Frame_Shift_Ins	INS	-	T	T																															ggggaagggagactcaaggcINStttttccacctgtggctccc																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:6942990_6942991insT	uc010rav.1	+	1	758_759	c.758_759insT	c.(757-759)GCTfs	p.A253fs		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		AGACTCAAGGCTTTTTCCACCT	0.465													13	26	---	---	---	---						.	T	6942991	T	T	6942990	7	5	48	1	0	1	1	0	0	0	0	0	11014	797	28	0	760	0	OR2D3	11	6942990	Frame_Shift_Ins	INS	-	TCGA-BR-7703-01A-11D-2053-08	443958	6942990	128063526	410	36290											
SBF2	81846	broad.mit.edu	37	chr11	9878031	9878031	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgacaatgctgttgcttccGctctcccagtcacctggcgc	5	11	10	15	2	2	1	1	1	1	0	4	1	3	1	3	1	2	4	3	1	1	2	rs140730386	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:9878031G>A	uc001mib.2	-	19	2475	c.2337C>T	c.(2335-2337)AGC>AGT	p.S779S	SBF2_uc001mif.3_Silent_p.S535S|uc001mig.2_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	779					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		TGTTGCTTCCGCTCTCCCAGT	0.473													4	145					0	0	0.009096	0	0		A	9878031	A	A	9878031	2	1	48	1	0	0	0	0	0	0	0	1	13884	1078	38	1		1	SBF2	11	9878031	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2935041	9878031	125128485	411	36291											
AMPD3	272	broad.mit.edu	37	chr11	10524329	10524329	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattgccatgtctcctcttaGcaacaacagtttgttcctcg	8	14	6	13	1	2	0	0	0	2	0	5	0	3	0	3	0	4	3	3	0	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:10524329G>T	uc001mio.1	+	13	2239	c.1904G>T	c.(1903-1905)AGC>ATC	p.S635I	AMPD3_uc010rbz.1_Missense_Mutation_p.S476I|AMPD3_uc001min.1_Missense_Mutation_p.S644I|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.S642I|AMPD3_uc009yfy.2_Missense_Mutation_p.S635I	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	635					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		TCTCCTCTTAGCAACAACAGT	0.473													50	145					7.91745e-34	9.00635e-34	0.01441	1	0		T	10524329	T	T	10524329	3	4	48	1	0	0	0	0	1	0	0	0	587	971	34	5	2001	5	AMPD3	11	10524329	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	646298	10524329	124482187	412	36292											
EIF4G2	1982	broad.mit.edu	37	chr11	10826480	10826480	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcagtatgacccctttaaGgatgagtttagactctacac	12	11	8	10	0	1	3	0	2	1	1	1	4	1	4	2	1	2	3	2	1	4	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:10826480G>T	uc001mjc.2	-	5	748	c.331C>A	c.(331-333)CTT>ATT	p.L111I	EIF4G2_uc001mjb.2_5'UTR|EIF4G2_uc009ygf.2_5'UTR|EIF4G2_uc001mjd.2_Missense_Mutation_p.L111I|EIF4G2_uc001mjf.1_5'UTR	NM_001418	NP_001409	P78344	IF4G2_HUMAN	eukaryotic translation initiation factor 4	111	MIF4G.				cell cycle arrest|cell death|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		ACCCCTTTAAGGATGAGTTTA	0.373													27	49					6.84511e-11	7.48816e-11	0.003271	1	0		T	10826480	T	T	10826480	3	4	48	1	0	0	0	0	1	0	0	0	5045	1000	35	5	2464	5	EIF4G2	11	10826480	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	302151	10826480	124180036	413	36293											
MRGPRX3	117195	broad.mit.edu	37	chr11	18158959	18158959	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacatcctcaacctggtcgcGgccgacttcctcttccttag	6	12	7	16	3	2	0	1	0	1	0	6	1	5	0	5	2	2	0	5	2	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:18158959G>A	uc001mnu.2	+	3	571	c.210G>A	c.(208-210)GCG>GCA	p.A70A		NM_054031	NP_473372	Q96LB0	MRGX3_HUMAN	MAS-related GPR, member X3	70	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						ACCTGGTCGCGGCCGACTTCC	0.562													23	61					0	0	0.003954	0	0		A	18158959	A	A	18158959	2	1	48	1	0	0	0	0	0	0	0	1	9786	1103	39	1		1	MRGPRX3	11	18158959	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	7332479	18158959	116847557	414	36294											
IGSF22	283284	broad.mit.edu	37	chr11	18736149	18736149	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtgcacgtcggacatcccGctcttcactgtggccagacg	6	8	12	15	5	2	1	1	0	1	1	4	2	3	2	2	2	1	2	2	2	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:18736149G>A	uc009yht.2	-	12	1744	c.1554C>T	c.(1552-1554)AGC>AGT	p.S518S	IGSF22_uc001mpa.2_RNA	NM_173588	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	518										ovary(4)|large_intestine(2)|kidney(1)	7						CGGACATCCCGCTCTTCACTG	0.607													23	50					0	0	0.00278	0	0		A	18736149	A	A	18736149	2	1	48	1	0	0	0	0	0	0	0	1	7616	1078	38	1		1	IGSF22	11	18736149	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	577190	18736149	116270367	415	36295											
ANO5	203859	broad.mit.edu	37	chr11	22301182	22301182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcaagagagaaaagttaatGactatcaagattctccatga	18	10	7	6	0	3	5	2	2	1	3	4	6	3	5	1	0	0	1	1	0	6	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:22301182G>A	uc001mqi.2	+	22	2930	c.2613G>A	c.(2611-2613)ATG>ATA	p.M871I	ANO5_uc001mqj.2_Missense_Mutation_p.M870I	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	871	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						AAAAGTTAATGACTATCAAGA	0.343													3	51					0	0	0.009096	0	0		A	22301182	A	A	22301182	3	1	48	1	0	0	0	0	1	0	0	0	700	1290	45	4	2699	4	ANO5	11	22301182	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3565033	22301182	112705334	416	36296											
SLC17A6	57084	broad.mit.edu	37	chr11	22396404	22396404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagcagattctttcaactaCgacagtgagaaagatcatga	16	9	8	8	1	3	4	2	2	1	3	3	6	3	4	0	0	3	1	0	0	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:22396404C>T	uc001mqk.2	+	9	1558	c.1145C>T	c.(1144-1146)ACG>ATG	p.T382M		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	382	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						CTTTCAACTACGACAGTGAGA	0.373													6	182					0	0	0.00308	0	0		T	22396404	T	T	22396404	3	4	48	1	0	0	0	0	1	0	0	0	14446	536	19	1	1179	1	SLC17A6	11	22396404	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	95222	22396404	112610112	417	36297											
GAS2	2620	broad.mit.edu	37	chr11	22833350	22833350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttttcatttcagatgctgCacaacaaacatgtcatggtc	11	15	6	9	0	3	1	3	0	0	1	4	1	3	1	0	1	4	2	0	1	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:22833350C>T	uc009yie.2	+	8	1036	c.730C>T	c.(730-732)CAC>TAC	p.H244Y	GAS2_uc001mqm.2_Missense_Mutation_p.H244Y|GAS2_uc001mqn.2_RNA|GAS2_uc001mqo.2_Missense_Mutation_p.H244Y	NM_001143830	NP_001137302	O43903	GAS2_HUMAN	growth arrest-specific 2	244	GAR.				cell cycle arrest|cellular component disassembly involved in apoptosis|regulation of cell shape	actin filament|cytosol|membrane				ovary(1)|skin(1)	2						TCAGATGCTGCACAACAAACA	0.428													25	75					0	0	0.008361	0	0		T	22833350	T	T	22833350	3	4	48	1	0	0	0	0	1	0	0	0	6260	710	25	2	756	2	GAS2	11	22833350	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	436946	22833350	112173166	418	36298											
DCDC1	341019	broad.mit.edu	37	chr11	31327839	31327839	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagatccatttttgtaagcTgttactttaatcactcttgg	9	18	6	8	0	2	1	1	0	1	1	3	1	3	1	1	1	2	3	1	1	4	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:31327839T>C	uc001msv.2	-	5	733	c.531A>G	c.(529-531)ACA>ACG	p.T177T	DCDC1_uc001msu.1_5'UTR	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	177	Doublecortin.				intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					TTTTGTAAGCTGTTACTTTAA	0.373													5	48					0	0	0.001168	0	0		C	31327839	C	C	31327839	2	2	48	1	0	0	0	0	0	0	0	1	4287	1567	55	3		3	DCDC1	11	31327839	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	8494489	31327839	103678677	419	36299											
CD59	966	broad.mit.edu	37	chr11	33731873	33731873	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctcaaacttccaacacttGttatacacttgtaaccctgt	11	14	4	12	0	1	0	1	0	0	0	2	0	2	0	2	0	5	3	2	0	5	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:33731873G>A	uc001mus.3	-	3	468	c.186C>T	c.(184-186)AAC>AAT	p.N62N	CD59_uc009yjx.2_Silent_p.N62N|CD59_uc009yjy.2_Silent_p.N62N|CD59_uc009yjz.2_Silent_p.N62N|CD59_uc001mut.3_Silent_p.N62N|CD59_uc009yka.2_Silent_p.N62N|CD59_uc001muu.3_Silent_p.N62N|CD59_uc001muv.3_Silent_p.N62N|CD59_uc001mux.3_Missense_Mutation_p.T103I	NM_001127223	NP_001120695	P13987	CD59_HUMAN	CD59 antigen preproprotein	62	UPAR/Ly6.				blood coagulation|cell surface receptor linked signaling pathway	anchored to external side of plasma membrane|extracellular region|membrane fraction					0						TCCAACACTTGTTATACACTT	0.428													29	40					0	0	0.003755	0	0		A	33731873	A	A	33731873	2	1	48	1	0	0	0	0	0	0	0	1	3029	1368	48	4		4	CD59	11	33731873	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2404034	33731873	101274643	420	36300											
ACCS	84680	broad.mit.edu	37	chr11	44098843	44098843	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccagaggctttcctgatcCccaccccttactatggcgct	6	10	7	18	1	0	2	0	1	0	1	2	2	2	2	7	2	1	2	7	2	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:44098843C>A	uc009yks.1	+	7	715	c.571C>A	c.(571-573)CCC>ACC	p.P191T	EXT2_uc010rfo.1_Intron|ACCS_uc010rfm.1_Intron|ACCS_uc010rfn.1_3'UTR|ACCS_uc001mxx.2_Missense_Mutation_p.P191T	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	191							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						TTTCCTGATCCCCACCCCTTA	0.582													6	262					0.00116845	0.00120241	0.001168	1	0		A	44098843	A	A	44098843	3	1	48	1	0	0	0	0	1	0	0	0	133	623	22	5	593	5	ACCS	11	44098843	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	10366970	44098843	90907673	421	36301											
ZNF408	79797	broad.mit.edu	37	chr11	46726219	46726219	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccagagcaaagaccccAgagcctggagcccagcagtc	12	2	10	17	0	0	3	0	0	0	3	1	4	0	4	6	1	4	2	6	1	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:46726219A>G	uc001nde.1	+	5	1199	c.969A>G	c.(967-969)CCA>CCG	p.P323P	ZNF408_uc010rgw.1_Silent_p.P315P	NM_024741	NP_079017	Q9H9D4	ZN408_HUMAN	zinc finger protein 408	323					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding				0						CAAAGACCCCAGAGCCTGGAG	0.637													4	61					0	0	0.009096	0	0		G	46726219	G	G	46726219	2	3	48	1	0	0	0	0	0	0	0	1	17913	175	7	3		3	ZNF408	11	46726219	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	2627376	46726219	88280297	422	36302											
MADD	8567	broad.mit.edu	37	chr11	47312235	47312235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatcctggcctagctgggCggggggacccaaaggctatg	8	6	17	10	1	0	0	0	0	0	0	1	2	1	2	3	7	1	2	3	7	3	2	rs143064159		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:47312235C>T	uc001ner.1	+	20	3420	c.3229C>T	c.(3229-3231)CGG>TGG	p.R1077W	MADD_uc001neq.2_Missense_Mutation_p.R1057W|MADD_uc001nev.1_Missense_Mutation_p.R1014W|MADD_uc001nes.1_Missense_Mutation_p.R1034W|MADD_uc001net.1_Missense_Mutation_p.R1077W|MADD_uc009yln.1_Missense_Mutation_p.R1014W|MADD_uc001neu.1_Missense_Mutation_p.R1014W|MADD_uc001nex.2_Missense_Mutation_p.R1077W|MADD_uc001nez.2_Missense_Mutation_p.R1014W|MADD_uc001new.2_Missense_Mutation_p.R1057W|MADD_uc009ylo.2_5'UTR	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	1077					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		CCTAGCTGGGCGGGGGGACCC	0.532													6	55					0	0	0.001984	0	0		T	47312235	T	T	47312235	3	4	48	1	0	0	0	0	1	0	0	0	9170	759	27	1	3303	1	MADD	11	47312235	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	586016	47312235	87694281	423	36303											
OR4C11	219429	broad.mit.edu	37	chr11	55371101	55371101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatatatgaatatacatgggCcaaagaataagatgactaca	19	10	7	5	0	0	4	0	2	0	2	0	4	0	4	1	1	2	0	1	1	10	7			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:55371101C>T	uc010rii.1	-	1	749	c.749G>A	c.(748-750)GGC>GAC	p.G250D		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	250	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TATACATGGGCCAAAGAATAA	0.438													18	44					0	0	0.006122	0	0		T	55371101	T	T	55371101	3	4	48	1	0	0	0	0	1	0	0	0	11064	739	26	2	185	2	OR4C11	11	55371101	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	8058866	55371101	79635415	424	36304											
OR4S2	219431	broad.mit.edu	37	chr11	55418792	55418792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccatcatgaaccgggagaCatgcaataaaatgttattag	16	9	9	7	1	1	2	1	1	0	1	1	4	1	2	2	1	2	2	2	1	6	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:55418792C>T	uc001nhs.1	+	1	413	c.413C>T	c.(412-414)ACA>ATA	p.T138I		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	138	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				AACCGGGAGACATGCAATAAA	0.438													43	152					0	0	0.01441	0	0		T	55418792	T	T	55418792	3	4	48	1	0	0	0	0	1	0	0	0	11102	478	17	4	415	4	OR4S2	11	55418792	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	47691	55418792	79587724	425	36305											
OR10AG1	282770	broad.mit.edu	37	chr11	55735148	55735148	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atggtgtagaaaagagaaatCagtttccccatcctttgaaa	15	11	8	7	0	1	3	1	1	0	2	3	4	3	3	3	1	0	2	3	1	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:55735148C>T	uc010rit.1	-	1	792	c.792G>A	c.(790-792)CTG>CTA	p.L264L		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	264	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					AAAGAGAAATCAGTTTCCCCA	0.368													3	25					0	0	0.004672	0	0		T	55735148	T	T	55735148	2	4	48	1	0	0	0	0	0	0	0	1	10916	813	29	4		4	OR10AG1	11	55735148	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	316356	55735148	79271368	426	36306											
CTNND1	1500	broad.mit.edu	37	chr11	57571140	57571140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaatcaaaatggagattGtggaccatgcactgcatgcc	13	9	9	10	0	2	1	2	0	0	1	2	3	2	2	2	2	3	2	2	2	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:57571140G>A	uc001nmc.3	+	8	2039	c.1468G>A	c.(1468-1470)GTG>ATG	p.V490M	CTNND1_uc001nlh.1_Missense_Mutation_p.V490M|CTNND1_uc001nlu.3_Missense_Mutation_p.V389M|CTNND1_uc001nlt.3_Missense_Mutation_p.V389M|CTNND1_uc001nls.3_Missense_Mutation_p.V389M|CTNND1_uc001nlw.3_Missense_Mutation_p.V389M|CTNND1_uc001nmf.3_Missense_Mutation_p.V490M|CTNND1_uc001nmd.3_Missense_Mutation_p.V436M|CTNND1_uc001nlk.3_Missense_Mutation_p.V436M|CTNND1_uc001nme.3_Missense_Mutation_p.V490M|CTNND1_uc001nll.3_Missense_Mutation_p.V436M|CTNND1_uc001nmg.3_Missense_Mutation_p.V436M|CTNND1_uc001nlj.3_Missense_Mutation_p.V436M|CTNND1_uc001nlr.3_Missense_Mutation_p.V436M|CTNND1_uc001nlp.3_Missense_Mutation_p.V436M|CTNND1_uc001nlx.3_Missense_Mutation_p.V167M|CTNND1_uc001nlz.3_Missense_Mutation_p.V167M|CTNND1_uc009ymn.2_Missense_Mutation_p.V167M|CTNND1_uc001nlm.3_Missense_Mutation_p.V490M|CTNND1_uc001nly.3_Missense_Mutation_p.V167M|CTNND1_uc001nmb.3_Missense_Mutation_p.V167M|CTNND1_uc001nma.3_Missense_Mutation_p.V167M|CTNND1_uc001nmi.3_Missense_Mutation_p.V389M|CTNND1_uc001nmh.3_Missense_Mutation_p.V490M|CTNND1_uc001nlq.3_Missense_Mutation_p.V389M|CTNND1_uc001nln.3_Missense_Mutation_p.V490M|CTNND1_uc001nli.3_Missense_Mutation_p.V490M|CTNND1_uc001nlo.3_Missense_Mutation_p.V389M|CTNND1_uc001nlv.3_Missense_Mutation_p.V389M	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	490	ARM 4.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				AATGGAGATTGTGGACCATGC	0.458													7	10					0	0	0.006214	0	0		A	57571140	A	A	57571140	3	1	48	1	0	0	0	0	1	0	0	0	4022	1377	48	4	1490	4	CTNND1	11	57571140	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1835992	57571140	77435376	427	36307											
ZFP91	80829	broad.mit.edu	37	chr11	58384917	58384917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactaacccagagtccctgaCgcagccttcagatggtcagg	10	7	10	14	1	2	3	2	1	0	2	3	3	3	3	3	2	2	1	3	2	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:58384917C>T	uc001nmx.3	+	11	1619	c.1451C>T	c.(1450-1452)ACG>ATG	p.T484M	ZFP91_uc001nmy.3_Missense_Mutation_p.T483M|ZFP91-CNTF_uc010rkm.1_RNA	NM_053023	NP_444251	Q96JP5	ZFP91_HUMAN	zinc finger protein 91	484					activation of NF-kappaB-inducing kinase activity|protein K63-linked ubiquitination	nucleus	nucleic acid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				GAGTCCCTGACGCAGCCTTCA	0.542													15	26					0	0	0.006122	0	0		T	58384917	T	T	58384917	3	4	48	1	0	0	0	0	1	0	0	0	17680	536	19	1	1493	1	ZFP91	11	58384917	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	813777	58384917	76621599	428	36308											
NAA40	79829	broad.mit.edu	37	chr11	63719910	63719910	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagtggggctggaaggacCgagagaaacgggaggaaatg	13	3	20	5	3	0	1	0	0	0	1	0	8	0	5	1	6	1	1	1	6	3	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:63719910C>T	uc009yoz.2	+	5	410	c.283C>T	c.(283-285)CGA>TGA	p.R95*	NAA40_uc010rmw.1_Nonsense_Mutation_p.R55*|NAA40_uc010rmx.1_Nonsense_Mutation_p.R74*|NAA40_uc010rmy.1_5'Flank	NM_024771	NP_079047	Q86UY6	NAA40_HUMAN	N-acetyltransferase 11	95	N-acetyltransferase.						N-acetyltransferase activity				0						CTGGAAGGACCGAGAGAAACG	0.572													27	74					0	0	0.013726	0	0		T	63719910	T	T	63719910	4	4	48	1	0	0	0	0	0	1	0	0	10143	644	23	1	301	1	NAA40	11	63719910	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	5334993	63719910	71286606	429	36309											
CCDC88B	283234	broad.mit.edu	37	chr11	64111563	64111563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttcgaccacagccctcaggGcttggttcagaaggcaaggg	9	7	13	12	1	2	1	2	0	0	1	3	2	2	1	2	4	1	3	2	4	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:64111563G>A	uc001nzy.2	+	14	1594	c.1550G>A	c.(1549-1551)GGC>GAC	p.G517D	CCDC88B_uc009ypo.1_Missense_Mutation_p.G514D|CCDC88B_uc001nzz.1_Missense_Mutation_p.G166D	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	517					microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						AGCCCTCAGGGCTTGGTTCAG	0.642													20	40					0	0	0.014323	0	0		A	64111563	A	A	64111563	3	1	48	1	0	0	0	0	1	0	0	0	2867	1203	42	2	1604	2	CCDC88B	11	64111563	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	391653	64111563	70894953	430	36310											
SLC22A11	55867	broad.mit.edu	37	chr11	64337280	64337280	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgtgctgttcttcctcccGgagacccagggacttccgct	4	12	11	14	2	1	1	0	0	1	1	4	3	4	2	4	2	1	4	4	2	0	4	rs34836439		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:64337280G>A	uc001oai.2	+	9	1913	c.1539G>A	c.(1537-1539)CCG>CCA	p.P513P	SLC22A11_uc001oaj.2_Intron|SLC22A11_uc009ypq.2_Silent_p.P405P	NM_018484	NP_060954	Q9NSA0	S22AB_HUMAN	solute carrier family 22 member 11	513	Cytoplasmic (Potential).				urate metabolic process	apical plasma membrane|external side of plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium-independent organic anion transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2					Probenecid(DB01032)	TCTTCCTCCCGGAGACCCAGG	0.622													35	67					0	0	0.00623	0	0		A	64337280	A	A	64337280	2	1	48	1	0	0	0	0	0	0	0	1	14467	1103	39	1		1	SLC22A11	11	64337280	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	225717	64337280	70669236	431	36311											
ATG2A	23130	broad.mit.edu	37	chr11	64677303	64677303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggggtccggctcaggccGcaggtcggcaatggggaagc	7	4	18	12	3	1	0	1	0	0	0	3	1	2	1	3	8	1	3	3	8	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:64677303G>A	uc001obx.2	-	14	2072	c.1957C>T	c.(1957-1959)CGG>TGG	p.R653W		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	653							protein binding			ovary(1)|central_nervous_system(1)	2						GGCTCAGGCCGCAGGTCGGCA	0.706													11	28					0	0	0.00245	0	0		A	64677303	A	A	64677303	3	1	48	1	0	0	0	0	1	0	0	0	1094	1086	38	1	3971	1	ATG2A	11	64677303	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	340023	64677303	70329213	432	36312											
NPAS4	266743	broad.mit.edu	37	chr11	66189603	66189603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctacaggcactcctctggCgggccccacggggcttctct	4	8	11	18	2	2	0	0	0	2	0	4	0	3	0	4	5	1	2	4	5	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:66189603C>T	uc001ohx.1	+	2	364	c.188C>T	c.(187-189)GCG>GTG	p.A63V	NPAS4_uc010rpc.1_5'UTR	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	63					transcription, DNA-dependent		DNA binding|signal transducer activity				0						ACTCCTCTGGCGGGCCCCACG	0.567													23	30					0	0	0.014323	0	0		T	66189603	T	T	66189603	3	4	48	1	0	0	0	0	1	0	0	0	10584	768	27	1	194	1	NPAS4	11	66189603	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1512300	66189603	68816913	433	36313											
RBM4	5936	broad.mit.edu	37	chr11	66407528	66407528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtgaaagattatgccttcGtacacatggagcgggcagag	11	9	13	8	3	0	3	0	1	0	2	2	4	0	4	1	2	3	2	1	2	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:66407528G>A	uc009yrj.2	+	2	834	c.346G>A	c.(346-348)GTA>ATA	p.V116I	RBM4_uc009yrk.2_Intron|RBM4_uc001oiv.2_Missense_Mutation_p.V116I|RBM4_uc001oiw.1_Missense_Mutation_p.V116I|RBM4_uc001oix.1_Missense_Mutation_p.V116I|RBM4_uc010rpj.1_Missense_Mutation_p.V116I|RBM4_uc001oiy.1_Missense_Mutation_p.V116I|RBM4_uc001oiz.1_Missense_Mutation_p.V116I	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	116	RRM 2.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		TTATGCCTTCGTACACATGGA	0.527													29	96					0	0	0.003271	0	0		A	66407528	A	A	66407528	3	1	48	1	0	0	0	0	1	0	0	0	13159	1145	40	1	348	1	RBM4	11	66407528	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	217925	66407528	68598988	434	36314											
ALDH3B2	222	broad.mit.edu	37	chr11	67432885	67432885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggggagctctgggggtcgtCgccatagaaacgggtgatgg	7	8	19	7	3	1	2	0	1	1	1	3	3	1	3	1	6	2	1	1	6	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:67432885C>T	uc001omr.2	-	7	1016	c.577G>A	c.(577-579)GAC>AAC	p.D193N	ALDH3B2_uc001oms.2_Missense_Mutation_p.D193N|ALDH3B2_uc009ysa.1_Missense_Mutation_p.D193N	NM_000695	NP_000686	P48448	AL3B2_HUMAN	aldehyde dehydrogenase 3B2	193					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase			lung(1)|kidney(1)	2					NADH(DB00157)	TGGGGGTCGTCGCCATAGAAA	0.662													22	62					0	0	0.00278	0	0		T	67432885	T	T	67432885	3	4	48	1	0	0	0	0	1	0	0	0	500	884	31	1	596	1	ALDH3B2	11	67432885	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1025357	67432885	67573631	435	36315											
ALDH3B1	221	broad.mit.edu	37	chr11	67789211	67789211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatcacccgtttctatggcGacgacccccagagctcccca	8	7	7	19	3	2	1	1	0	1	1	3	3	3	1	6	1	1	2	6	1	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:67789211G>A	uc010rpy.1	+	8	936	c.820G>A	c.(820-822)GAC>AAC	p.D274N	ALDH3B1_uc001omz.2_Missense_Mutation_p.D274N|ALDH3B1_uc001ona.2_Missense_Mutation_p.D237N|ALDH3B1_uc001onb.2_RNA	NM_001161473	NP_001154945	P43353	AL3B1_HUMAN	aldehyde dehydrogenase 3B1 isoform a	274					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase				0					NADH(DB00157)	TTTCTATGGCGACGACCCCCA	0.657											OREG0021141	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	124					0	0	0.008291	0	0		A	67789211	A	A	67789211	3	1	48	1	0	0	0	0	1	0	0	0	499	1058	37	1	841	1	ALDH3B1	11	67789211	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	356326	67789211	67217305	436	36316											
LRP5	4041	broad.mit.edu	37	chr11	68201267	68201267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctgcgctgcgacggcgagGcagactgtcaggaccgctca	7	5	15	14	5	2	1	2	0	0	1	2	4	2	2	2	3	2	3	2	3	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:68201267G>A	uc001ont.2	+	18	4036	c.3961G>A	c.(3961-3963)GCA>ACA	p.A1321T	LRP5_uc009ysg.2_Missense_Mutation_p.A731T	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1321	LDL-receptor class A 2.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CGACGGCGAGGCAGACTGTCA	0.706													13	26					0	0	0.00245	0	0		A	68201267	A	A	68201267	3	1	48	1	0	0	0	0	1	0	0	0	8978	1203	42	2	4031	2	LRP5	11	68201267	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	412056	68201267	66805249	437	36317											
MTL5	9633	broad.mit.edu	37	chr11	68478438	68478438	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtagtttggcatgctcAttagtgtctttcgttctggg	5	17	12	7	1	3	0	1	0	2	0	4	0	3	0	0	2	1	6	0	2	2	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:68478438A>G	uc001ooc.2	-	9	1378	c.1238T>C	c.(1237-1239)ATG>ACG	p.M413T		NM_004923	NP_004914	Q9Y4I5	MTL5_HUMAN	metallothionein-like 5, testis-specific isoform	413					cell differentiation|cellular metal ion homeostasis|multicellular organismal development|response to metal ion|spermatogenesis	cytoplasm|nucleus|soluble fraction	metal ion binding			ovary(2)|breast(1)	3	Esophageal squamous(3;4.37e-12)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.185)			TGGCATGCTCATTAGTGTCTT	0.408													11	31					0	0	0.010729	0	0		G	68478438	G	G	68478438	3	3	48	1	0	0	0	0	1	0	0	0	9954	217	8	3	296	3	MTL5	11	68478438	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	277171	68478438	66528078	438	36318											
IGHMBP2	3508	broad.mit.edu	37	chr11	68704522	68704522	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcagcaggcctcagggcaGcagaaacttccagaaaagaa	16	3	12	10	0	1	3	1	0	0	3	2	4	2	3	2	2	4	4	2	2	4	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:68704522G>A	uc001ook.1	+	13	2676	c.2574G>A	c.(2572-2574)CAG>CAA	p.Q858Q	IGHMBP2_uc001ool.1_Silent_p.Q482Q|IGHMBP2_uc001oom.1_Silent_p.Q436Q	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	858	Gln/Pro-rich.				cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CCTCAGGGCAGCAGAAACTTC	0.577													4	30					0	0	0.009096	0	0		A	68704522	A	A	68704522	2	1	48	1	0	0	0	0	0	0	0	1	7607	962	34	2		2	IGHMBP2	11	68704522	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	226084	68704522	66301994	439	36319											
PHOX2A	401	broad.mit.edu	37	chr11	71952153	71952153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatacacgcacctgcacgCgagcctcagtgaggtcgatc	9	7	11	14	4	1	1	1	1	0	0	3	3	1	1	2	1	4	3	2	1	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:71952153C>T	uc001osh.3	-	2	570	c.398G>A	c.(397-399)CGC>CAC	p.R133H		NM_005169	NP_005160	O14813	PHX2A_HUMAN	paired-like homeobox 2a	133	Homeobox.				noradrenergic neuron differentiation|positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CACCTGCACGCGAGCCTCAGT	0.587													5	39					0	0	0.001984	0	0		T	71952153	T	T	71952153	3	4	48	1	0	0	0	0	1	0	0	0	11877	768	27	1	464	1	PHOX2A	11	71952153	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3247631	71952153	63054363	440	36320											
FAT3	120114	broad.mit.edu	37	chr11	92569759	92569759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagaagatgtagacagccagCccaacggacagattcatttt	14	8	9	10	1	1	4	1	0	0	4	1	5	1	5	2	1	3	1	2	1	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:92569759C>T	uc001pdj.3	+	15	10131	c.10114C>T	c.(10114-10116)CCC>TCC	p.P3372S		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3372	Extracellular (Potential).|Cadherin 31.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGACAGCCAGCCCAACGGACA	0.408										TCGA Ovarian(4;0.039)			18	59					0	0	0.00333	0	0		T	92569759	T	T	92569759	3	4	48	1	0	0	0	0	1	0	0	0	5705	739	26	2	10172	2	FAT3	11	92569759	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	20617606	92569759	42436757	441	36321											
PGR	5241	broad.mit.edu	37	chr11	100933287	100933287	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttttgtgttgtcatgtccTgcatagatcacatctggttc	6	17	10	8	0	3	1	2	0	1	1	5	1	4	1	1	2	1	4	1	2	1	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:100933287T>C	uc001pgh.2	-	4	2846	c.2103A>G	c.(2101-2103)GCA>GCG	p.A701A	PGR_uc001pgg.2_Silent_p.A82A|PGR_uc001pgi.2_Intron|PGR_uc009yww.1_Intron|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	701	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	TGTCATGTCCTGCATAGATCA	0.428													8	263					0	0	0.006214	0	0		C	100933287	C	C	100933287	2	2	48	1	0	0	0	0	0	0	0	1	11824	1567	55	3		3	PGR	11	100933287	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	8363528	100933287	34073229	442	36322											
PGR	5241	broad.mit.edu	37	chr11	100999479	100999479	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacactgtccagcagtccgCtgtccttttctgggggacta	7	11	11	12	1	1	1	0	0	1	1	4	2	4	2	3	2	1	2	3	2	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:100999479C>A	uc001pgh.2	-	1	1066	c.323G>T	c.(322-324)AGC>ATC	p.S108I	PGR_uc001pgi.2_Missense_Mutation_p.S108I|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	108	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	CAGCAGTCCGCTGTCCTTTTC	0.632													9	25					2.17888e-05	2.29015e-05	0.006214	1	0		A	100999479	A	A	100999479	3	1	48	1	0	0	0	0	1	0	0	0	11824	797	28	5	2510	5	PGR	11	100999479	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	66192	100999479	34007037	443	36323											
C11orf88	399949	broad.mit.edu	37	chr11	111385697	111385697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcagagacagcagtcagcGtctgccggtggcgcggccca	7	4	16	14	5	2	1	1	0	1	1	2	2	2	1	2	3	3	2	2	3	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:111385697G>A	uc001pln.3	+	1	188	c.188G>A	c.(187-189)CGT>CAT	p.R63H	BTG4_uc001plj.2_5'Flank|BTG4_uc001plk.2_5'Flank|C11orf88_uc009yyd.2_Missense_Mutation_p.R63H|C11orf88_uc001plo.1_Missense_Mutation_p.R63H	NM_001100388	NP_001093858	Q6PI97	CK088_HUMAN	hypothetical protein LOC399949 isoform 2	63											0						AGCAGTCAGCGTCTGCCGGTG	0.592											OREG0021329	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	42					0	0	0.010504	0	0		A	111385697	A	A	111385697	3	1	48	1	0	0	0	0	1	0	0	0	1673	1145	40	1	190	1	C11orf88	11	111385697	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	10386218	111385697	23620819	444	36324											
LAYN	143903	broad.mit.edu	37	chr11	111431078	111431078	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtttgtgactctggtgagCgtggagagtggatttgtgac	6	13	18	4	1	1	4	0	3	1	1	1	6	1	5	0	4	1	1	0	4	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:111431078C>T	uc001plr.1	+	8	1380	c.1044C>T	c.(1042-1044)AGC>AGT	p.S348S	LAYN_uc001plp.1_Silent_p.S340S|LAYN_uc001plq.1_3'UTR|LAYN_uc001pls.1_3'UTR|LAYN_uc010rwg.1_Silent_p.S195S|LAYN_uc010rwh.1_Silent_p.S196S	NM_178834	NP_849156	Q6UX15	LAYN_HUMAN	layilin	348	Cytoplasmic (Potential).|3 X 5 AA repeats of E-S-G-X-V.|Interaction with NF2 (By similarity).|Interaction with TLN1 (By similarity).					cell surface|integral to membrane|ruffle	hyaluronic acid binding|sugar binding				0		all_cancers(61;9.06e-10)|all_epithelial(67;1.34e-05)|Melanoma(852;1.74e-05)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.086)		Epithelial(105;1.5e-06)|BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|all cancers(92;2.45e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0476)		CTCTGGTGAGCGTGGAGAGTG	0.478													24	79					0	0	0.007291	0	0		T	111431078	T	T	111431078	2	4	48	1	0	0	0	0	0	0	0	1	8665	767	27	1		1	LAYN	11	111431078	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	45381	111431078	23575438	445	36325											
FAM55A	120400	broad.mit.edu	37	chr11	114401086	114401086	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacattcagtgaagacaTgagaggtgccattaacaaat	15	8	10	8	0	1	3	1	2	0	2	1	4	1	3	2	2	2	0	2	2	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:114401086T>C	uc001ppa.2	-	3	635	c.218A>G	c.(217-219)CAT>CGT	p.H73R	FAM55A_uc010rxd.1_5'UTR|FAM55A_uc001ppb.1_Missense_Mutation_p.H215R	NM_152315	NP_689528	Q8N323	FA55A_HUMAN	hypothetical protein LOC120400	215						extracellular region					0		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;3.02e-06)|Epithelial(105;0.000144)|all cancers(92;0.00106)		AGTGAAGACATGAGAGGTGCC	0.453													21	51					0	0	0.014323	0	0		C	114401086	C	C	114401086	3	2	48	1	0	0	0	0	1	0	0	0	5598	1464	51	3	1015	3	FAM55A	11	114401086	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	2970008	114401086	20605430	446	36326											
FAM55D	54827	broad.mit.edu	37	chr11	114442042	114442042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagttctgtcaatggccCgggtgaggtactccatctct	6	12	10	13	1	3	1	1	1	2	0	6	1	5	1	3	3	1	2	3	3	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:114442042C>T	uc001ppc.2	-	6	1434	c.1253G>A	c.(1252-1254)CGG>CAG	p.R418Q	FAM55D_uc001ppd.2_Missense_Mutation_p.R134Q	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	418						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		GTCAATGGCCCGGGTGAGGTA	0.433													5	222					0	0	0.000602	0	0		T	114442042	T	T	114442042	3	4	48	1	0	0	0	0	1	0	0	0	5601	652	23	1	385	1	FAM55D	11	114442042	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	40956	114442042	20564474	447	36327											
CBL	867	broad.mit.edu	37	chr11	119146846	119146846	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcttcagggaaggcttgTgagtacctactgcataccat	10	11	11	9	0	1	1	1	1	0	0	1	2	1	2	2	3	4	4	2	3	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:119146846T>C	uc001pwe.2	+	6	1145	c.1007_splice	c.e6+2	p.F336_splice		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral						epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		GGAAGGCTTGTGAGTACCTAC	0.443									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome				22	54					0	0	0.00632	0	0		C	119146846	C	C	119146846	5	2	48	1	0	0	0	0	0	0	1	0	2703	1710	59	3	1031	3	CBL	11	119146846	Splice_Site	SNP	T	TCGA-BR-7703-01A-11D-2053-08	4704804	119146846	15859670	448	36328											
OR4D5	219875	broad.mit.edu	37	chr11	123811133	123811133	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acattccccatggacaaggcCgtctctgtgctatacacaat	11	10	7	13	1	1	0	0	0	1	0	3	1	2	1	3	2	2	1	3	2	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:123811133C>T	uc001pzk.1	+	1	810	c.810C>T	c.(808-810)GCC>GCT	p.A270A		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	270	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		TGGACAAGGCCGTCTCTGTGC	0.488													5	111					0	0	0.000602	0	0		T	123811133	T	T	123811133	2	4	48	1	0	0	0	0	0	0	0	1	11076	639	23	1		1	OR4D5	11	123811133	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4664287	123811133	11195383	449	36329											
OR8D2	283160	broad.mit.edu	37	chr11	124189676	124189676	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccatcattatggaacagaCcctgtgggacatgacaatat	14	9	9	9	0	1	2	1	1	0	1	1	4	1	4	2	2	2	0	2	2	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:124189676C>A	uc010sah.1	-	1	418	c.418G>T	c.(418-420)GTC>TTC	p.V140F		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0525)		ATGGAACAGACCCTGTGGGAC	0.458													14	60					2.48551e-13	2.74616e-13	0.00499	1	0		A	124189676	A	A	124189676	3	1	48	1	0	0	0	0	1	0	0	0	11251	507	18	5	520	5	OR8D2	11	124189676	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	378543	124189676	10816840	450	36330											
ACRV1	56	broad.mit.edu	37	chr11	125548009	125548009	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagtgtgctcggccacaGtgtgcttgcttgaaccatgc	8	10	12	11	1	0	2	0	1	0	1	1	2	0	2	2	1	5	3	2	1	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:125548009G>T	uc001qcs.2	-	2	503	c.236C>A	c.(235-237)ACT>AAT	p.T79N	ACRV1_uc001qck.2_Intron|ACRV1_uc001qcl.2_Intron|ACRV1_uc001qcm.2_Intron|ACRV1_uc001qcn.2_Intron|ACRV1_uc001qco.2_Intron|ACRV1_uc001qcp.2_Intron|ACRV1_uc001qcq.2_Intron|ACRV1_uc001qcr.2_Missense_Mutation_p.T79N	NM_001612	NP_001603	P26436	ASPX_HUMAN	acrosomal vesicle protein 1 isoform a precursor	79	3 X 5 AA repeats of S-E-H-[GA]-S.				multicellular organismal development	acrosomal vesicle					0	all_hematologic(175;0.177)	Breast(109;0.0021)|all_lung(97;0.0179)|Lung NSC(97;0.0185)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0713)		CTCGGCCACAGTGTGCTTGCT	0.502													10	45					1.58986e-06	1.69114e-06	0.008291	1	0		T	125548009	T	T	125548009	3	4	48	1	0	0	0	0	1	0	0	0	172	1029	36	5	573	5	ACRV1	11	125548009	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1358333	125548009	9458507	451	36331											
TIRAP	114609	broad.mit.edu	37	chr11	126162737	126162737	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtagtcactgccgggtgCtgctcatcacgccgggcttc	5	9	13	14	3	3	0	3	0	0	0	4	0	3	0	2	2	3	5	2	2	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:126162737C>T	uc001qdm.1	+	5	885	c.433C>T	c.(433-435)CTG>TTG	p.L145L	TIRAP_uc001qdl.1_Silent_p.L145L|TIRAP_uc009zcb.1_Silent_p.L145L|TIRAP_uc001qdn.1_Silent_p.L145L|TIRAP_uc001qdo.1_Silent_p.L145L	NM_001039661	NP_001034750	P58753	TIRAP_HUMAN	Toll-interleukin 1 receptor domain-containing	145	TIR.				3'-UTR-mediated mRNA stabilization|cellular response to bacterial lipopeptide|cellular response to lipoteichoic acid|defense response to Gram-positive bacterium|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|myeloid cell differentiation|negative regulation of growth of symbiont in host|positive regulation of B cell proliferation|positive regulation of chemokine (C-X-C motif) ligand 1 production|positive regulation of chemokine (C-X-C motif) ligand 2 production|positive regulation of ERK1 and ERK2 cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-12 production|positive regulation of interleukin-15 production|positive regulation of interleukin-6 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of JNK cascade|positive regulation of neutrophil chemotaxis|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein homodimerization activity|positive regulation of toll-like receptor 2 signaling pathway|positive regulation of toll-like receptor 3 signaling pathway|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of tumor necrosis factor production|regulation of interferon-beta production|response to lipopolysaccharide|TIRAP-dependent toll-like receptor 4 signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway	endocytic vesicle|intrinsic to membrane|ruffle membrane	phosphatidylinositol-4,5-bisphosphate binding|protein binding, bridging|protein heterodimerization activity|protein homodimerization activity|protein kinase C delta binding|Toll-like receptor 2 binding|Toll-like receptor 4 binding|transmembrane receptor activity			ovary(1)	1	all_hematologic(175;0.145)	Breast(109;0.00156)|Lung NSC(97;0.00948)|all_lung(97;0.0101)|Medulloblastoma(222;0.0425)|all_neural(223;0.0604)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0739)		CTGCCGGGTGCTGCTCATCAC	0.662													4	11					0	0	0.009096	0	0		T	126162737	T	T	126162737	2	4	48	1	0	0	0	0	0	0	0	1	15952	796	28	2		2	TIRAP	11	126162737	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	614728	126162737	8843779	452	36332											
ST14	6768	broad.mit.edu	37	chr11	130069878	130069878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcattcacgagacaggctCgtgttgttgggggcacggat	7	10	16	8	3	2	1	2	0	0	1	3	3	2	2	0	5	0	4	0	5	0	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:130069878C>T	uc001qfw.2	+	16	2033	c.1840C>T	c.(1840-1842)CGT>TGT	p.R614C		NM_021978	NP_068813	Q9Y5Y6	ST14_HUMAN	matriptase	614	Extracellular (Potential).				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(2)|skin(2)|central_nervous_system(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000602)|Breast(109;0.000962)|all_lung(97;0.00126)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0183)|Lung(977;0.228)	Urokinase(DB00013)	GAGACAGGCTCGTGTTGTTGG	0.612													36	54					0	0	0.01441	0	0		T	130069878	T	T	130069878	3	4	48	1	0	0	0	0	1	0	0	0	15236	884	31	1	1902	1	ST14	11	130069878	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3907141	130069878	4936638	453	36333											
IGSF9B	22997	broad.mit.edu	37	chr11	133791120	133791120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggcctctgccttggccaCgctgtacttcttgctgctga	3	13	10	15	2	2	1	0	1	2	0	3	1	2	1	3	2	4	4	3	2	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr11:133791120C>T	uc001qgx.3	-	18	2731	c.2500G>A	c.(2500-2502)GTG>ATG	p.V834M		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	834	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		GCCTTGGCCACGCTGTACTTC	0.657													8	42					0	0	0.013537	0	0		T	133791120	T	T	133791120	3	4	48	1	0	0	0	0	1	0	0	0	7622	536	19	1	1557	1	IGSF9B	11	133791120	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3721242	133791120	1215396	454	36334											
IQSEC3	440073	broad.mit.edu	37	chr12	274932	274932	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acactggtgaccccgctctcGggctccgagaagaagcaggt	9	6	13	13	3	1	3	0	1	1	2	3	4	2	3	3	3	1	3	3	3	2	0	rs115184339	by1000genomes	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:274932G>A	uc001qhw.1	+	8	1944	c.1938G>A	c.(1936-1938)TCG>TCA	p.S646S	IQSEC3_uc001qhu.1_Silent_p.S646S	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	949	PH.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		CCCCGCTCTCGGGCTCCGAGA	0.617													15	41					0	0	0.004007	0	0		A	274932	A	A	274932	2	1	48	1	0	0	0	0	0	0	0	1	7835	1103	39	1		1	IQSEC3	12	274932	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08		274932	133576963	455	36335											
DCP1B	196513	broad.mit.edu	37	chr12	2062122	2062122	+	Frame_Shift_Del	DEL	A	-	-																															cctggctggacaggtcctgtAaaaaattctcccgcagaatg																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:2062122delA	uc001qjx.1	-	7	1064	c.984delT	c.(982-984)TTTfs	p.F328fs	DCP1B_uc010sdy.1_Frame_Shift_Del_p.F226fs	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	328					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			CAGGTCCTGTAAAAAATTCTC	0.493													29	62	---	---	---	---						.	-	2062122	-	-	2062122	7	5	48	1	0	1	0	1	0	0	0	0	4302	359	13	0	881	0	DCP1B	12	2062122	Frame_Shift_Del	DEL	A	TCGA-BR-7703-01A-11D-2053-08	1787190	2062122	131789773	456	36336											
C12orf5	57103	broad.mit.edu	37	chr12	4460522	4460522	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctgtgtttacaccgccCggaggagagacgctggacca	8	7	13	13	3	0	1	0	0	0	1	0	5	0	4	4	3	2	2	4	3	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:4460522C>T	uc001qmp.2	+	5	439	c.360C>T	c.(358-360)CCC>CCT	p.P120P		NM_020375	NP_065108	Q9NQ88	TIGAR_HUMAN	TP53-induced glycolysis and apoptosis regulator	120						intracellular	fructose-2,6-bisphosphate 2-phosphatase activity			skin(1)	1			all cancers(3;1.15e-07)|Colorectal(7;0.00165)|OV - Ovarian serous cystadenocarcinoma(31;0.00596)|COAD - Colon adenocarcinoma(12;0.0229)|GBM - Glioblastoma multiforme(3;0.0266)|STAD - Stomach adenocarcinoma(119;0.206)			TTACACCGCCCGGAGGAGAGA	0.498													20	30					0	0	0.00278	0	0		T	4460522	T	T	4460522	2	4	48	1	0	0	0	0	0	0	0	1	1697	639	23	1		1	C12orf5	12	4460522	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2398400	4460522	129391373	457	36337											
GPR162	27239	broad.mit.edu	37	chr12	6936082	6936082	+	Frame_Shift_Del	DEL	C	-	-																															ttctggggtcaggtgggggaCccccacggggtcctggcttc																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:6936082delC	uc001qqw.1	+	5	2015	c.1480delC	c.(1480-1482)CCCfs	p.P494fs	LEPREL2_uc001qqz.1_5'Flank|LEPREL2_uc001qra.1_5'Flank|LEPREL2_uc001qrb.1_5'Flank|GPR162_uc001qqx.1_Frame_Shift_Del_p.P210fs|GPR162_uc009zfd.1_Frame_Shift_Del_p.P190fs|GPR162_uc001qqy.1_Intron	NM_019858	NP_062832	Q16538	GP162_HUMAN	G protein-coupled receptor 162 isoform 2	494	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AGGTGGGGGACCCCCACGGGG	0.637													32	67	---	---	---	---						.	-	6936082	-	-	6936082	7	5	48	1	0	1	0	1	0	0	0	0	6681	507	18	0	1513	0	GPR162	12	6936082	Frame_Shift_Del	DEL	C	TCGA-BR-7703-01A-11D-2053-08	2475560	6936082	126915813	458	36338											
A2ML1	144568	broad.mit.edu	37	chr12	9001489	9001489	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctcgttctctgaaggcacGgaccttttcagctttttccg	5	14	8	14	3	2	1	1	1	1	0	5	2	3	2	3	2	1	3	3	2	1	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:9001489G>A	uc001quz.3	+	16	2105	c.2007G>A	c.(2005-2007)ACG>ACA	p.T669T	A2ML1_uc001qva.1_Silent_p.T249T|A2ML1_uc010sgm.1_Silent_p.T169T	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	513						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						CTGAAGGCACGGACCTTTTCA	0.507													45	107					0	0	0.01441	0	0		A	9001489	A	A	9001489	2	1	48	1	0	0	0	0	0	0	0	1	5	1103	39	1		1	A2ML1	12	9001489	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2065407	9001489	124850406	459	36339											
TAS2R43	259289	broad.mit.edu	37	chr12	11244134	11244134	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacataacaagaggaaggagAtcacagtttgcaaagctttt	16	9	9	7	0	1	2	1	0	0	2	1	4	1	3	0	2	3	3	0	2	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:11244134A>G	uc001qzq.1	-	1	779	c.695T>C	c.(694-696)ATC>ACC	p.I232T	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176884	NP_795365	P59537	T2R43_HUMAN	taste receptor, type 2, member 43	232	Helical; Name=6; (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	cilium membrane|motile cilium	bitter taste receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.0344)	BRCA - Breast invasive adenocarcinoma(232;0.196)		GAGGAAGGAGATCACAGTTTG	0.398													4	94					0	0	0.009096	0	0		G	11244134	G	G	11244134	3	3	48	1	0	0	0	0	1	0	0	0	15606	333	12	3	238	3	TAS2R43	12	11244134	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	2242645	11244134	122607761	460	36340											
PTPRO	5800	broad.mit.edu	37	chr12	15636953	15636953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaagatgataataacatcGttgtctcattagaagcttca	14	13	6	8	1	2	3	2	1	1	2	5	3	3	3	1	0	2	2	1	0	5	5	rs141750255		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:15636953G>A	uc001rcv.1	+	2	295	c.121G>A	c.(121-123)GTT>ATT	p.V41I	PTPRO_uc001rcw.1_Missense_Mutation_p.V41I|PTPRO_uc001rcu.1_Missense_Mutation_p.V41I	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	41	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)				TAATAACATCGTTGTCTCATT	0.348													10	43					0	0	0.008291	0	0		A	15636953	A	A	15636953	3	1	48	1	0	0	0	0	1	0	0	0	12834	1145	40	1	127	1	PTPRO	12	15636953	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4392819	15636953	118214942	461	36341											
SLCO1B1	10599	broad.mit.edu	37	chr12	21325709	21325709	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttgttggttttattgaCggaagctttgaaattggtaa	9	18	10	4	1	1	2	0	2	1	0	2	3	1	3	0	3	1	4	0	3	4	8	rs148697674		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:21325709C>T	uc001req.3	+	3	314	c.210C>T	c.(208-210)GAC>GAT	p.D70D		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	70	Helical; Name=2; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	GTTTTATTGACGGAAGCTTTG	0.264													3	14					0	0	0.004672	0	0		T	21325709	T	T	21325709	2	4	48	1	0	0	0	0	0	0	0	1	14748	535	19	1		1	SLCO1B1	12	21325709	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	5688756	21325709	112526186	462	36342											
GYS2	2998	broad.mit.edu	37	chr12	21712082	21712082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatctcgatctaaaatatcGttcaggtcaggaatttctcc	11	14	6	10	2	6	0	3	0	3	0	9	2	6	1	1	2	0	1	1	2	4	4	rs139882761	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:21712082G>A	uc001rfb.2	-	10	1506	c.1251C>T	c.(1249-1251)AAC>AAT	p.N417N		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	417					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						CTAAAATATCGTTCAGGTCAG	0.328													3	16					0	0	0.004672	0	0		A	21712082	A	A	21712082	2	1	48	1	0	0	0	0	0	0	0	1	6929	1136	40	1		1	GYS2	12	21712082	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	386373	21712082	112139813	463	36343											
KRAS	3845	broad.mit.edu	37	chr12	25398284	25398284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcactcttgcctacgccaCcagctccaactaccacaagt	11	7	6	17	1	1	0	0	0	1	0	2	0	2	0	5	1	5	2	5	1	4	3	rs121913529		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:25398284C>T	uc001rgp.1	-	2	216	c.35G>A	c.(34-36)GGT>GAT	p.G12D	KRAS_uc001rgq.1_Missense_Mutation_p.G12D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12N(6)|p.G12G(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			GCCTACGCCACCAGCTCCAAC	0.348	G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			5	15					0	0	0.001168	0	0		T	25398284	T	T	25398284	3	4	48	1	0	0	0	0	1	0	0	0	8454	507	18	4	671	4	KRAS	12	25398284	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3686202	25398284	108453611	464	36344											
IPO8	10526	broad.mit.edu	37	chr12	30816463	30816463	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagactgaagagcaagggcAgcttcaactttgacaggcat	15	7	11	8	0	1	4	1	2	0	2	1	4	1	4	0	2	3	4	0	2	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:30816463A>G	uc001rjd.2	-	14	1724	c.1554T>C	c.(1552-1554)GCT>GCC	p.A518A	IPO8_uc001rje.1_Silent_p.A7A|IPO8_uc010sjt.1_Silent_p.A313A	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	518					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					GAGCAAGGGCAGCTTCAACTT	0.358													3	49					0	0	0.004672	0	0		G	30816463	G	G	30816463	2	3	48	1	0	0	0	0	0	0	0	1	7814	175	7	3		3	IPO8	12	30816463	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	5418179	30816463	103035432	465	36345											
TSPAN11	441631	broad.mit.edu	37	chr12	31135587	31135587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacagtggtggtgcgctgcGgccagcgggcccacccctcc	5	5	15	16	3	0	1	0	0	0	1	1	1	1	1	5	4	3	1	5	4	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:31135587G>A	uc010sju.1	+	6	957	c.577G>A	c.(577-579)GGC>AGC	p.G193S	TSPAN11_uc001rjp.2_Missense_Mutation_p.G193S|TSPAN11_uc010sjv.1_Missense_Mutation_p.G183S	NM_001080509	NP_001073978	A1L157	TSN11_HUMAN	tetraspanin 11	193						integral to membrane					0	all_lung(12;3.11e-10)|Lung NSC(12;5.24e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					GGTGCGCTGCGGCCAGCGGGC	0.672													4	6					0	0	0.009096	0	0		A	31135587	A	A	31135587	3	1	48	1	0	0	0	0	1	0	0	0	16661	1116	39	1	595	1	TSPAN11	12	31135587	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	319124	31135587	102716308	466	36346											
C12orf72	254013	broad.mit.edu	37	chr12	31820818	31820818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccagttcagtggacacaGcattcagcatcacctgcaca	11	7	8	15	0	3	0	3	0	0	0	3	1	3	1	3	1	3	4	3	1	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:31820818G>A	uc009zjr.2	+	4	892	c.683G>A	c.(682-684)AGC>AAC	p.S228N	C12orf72_uc001rkl.2_Missense_Mutation_p.S228N|C12orf72_uc001rkm.2_Missense_Mutation_p.S228N	NM_001135864	NP_001129336	Q8IXQ9	MET20_HUMAN	hypothetical protein LOC254013	228						cytoplasm	protein methyltransferase activity				0						AGTGGACACAGCATTCAGCAT	0.488													6	83					0	0	0.00308	0	0		A	31820818	A	A	31820818	3	1	48	1	0	0	0	0	1	0	0	0	1716	971	34	2	693	2	C12orf72	12	31820818	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	685231	31820818	102031077	467	36347											
PKP2	5318	broad.mit.edu	37	chr12	32974415	32974415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgccacagccactccaCgcccttggggttgctctttt	6	11	10	14	1	1	0	0	0	1	0	2	1	2	1	4	3	3	2	4	3	1	4	rs143038626		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:32974415C>T	uc001rlj.3	-	10	2135	c.2020G>A	c.(2020-2022)GTG>ATG	p.V674M	PKP2_uc001rlk.3_Missense_Mutation_p.V630M|PKP2_uc010skj.1_Missense_Mutation_p.V627M	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	674	ARM 5.				cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					AGCCACTCCACGCCCTTGGGG	0.493													21	45					0	0	0.012319	0	0		T	32974415	T	T	32974415	3	4	48	1	0	0	0	0	1	0	0	0	12004	536	19	1	645	1	PKP2	12	32974415	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1153597	32974415	100877480	468	36348											
ABCD2	225	broad.mit.edu	37	chr12	39997743	39997745	+	In_Frame_Del	DEL	CTC	-	-																															tagcctggaagccaccacttCtcctgctggtgtaattatgg																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:39997743_39997745delCTC	uc001rmb.2	-	5	1895_1897	c.1469_1471delGAG	c.(1468-1473)GGAGAA>GAA	p.G490del		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	490	ABC transporter.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						GCCACCACTTCTCCTGCTGGTGT	0.34													32	55	---	---	---	---						.	-	39997745	-	-	39997743	7	5	48	1	0	1	0	1	0	0	0	0	61	922	32	0	775	0	ABCD2	12	39997743	In_Frame_Del	DEL	CTC	TCGA-BR-7703-01A-11D-2053-08	7023328	39997743	93854152	469	36349											
CACNB3	784	broad.mit.edu	37	chr12	49220259	49220259	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacagctggccaagacctcGctggcccccatcatcgtctt	7	8	9	17	2	2	1	1	0	1	1	4	1	2	1	4	2	1	3	4	2	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:49220259G>A	uc001rsl.1	+	10	1053	c.852G>A	c.(850-852)TCG>TCA	p.S284S	CACNB3_uc010sly.1_Silent_p.S271S|CACNB3_uc010slz.1_Silent_p.S283S|CACNB3_uc001rsk.1_Silent_p.S131S	NM_000725	NP_000716	P54284	CACB3_HUMAN	calcium channel, voltage-dependent, beta 3	284					axon guidance|membrane depolarization|synaptic transmission	cytosol|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0					Verapamil(DB00661)	CCAAGACCTCGCTGGCCCCCA	0.547													10	14					0	0	0.006214	0	0		A	49220259	A	A	49220259	2	1	48	1	0	0	0	0	0	0	0	1	2557	1074	38	1		1	CACNB3	12	49220259	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	9222516	49220259	84631636	470	36350											
SMARCD1	6602	broad.mit.edu	37	chr12	50481152	50481152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgccttcctcagcaaaaaCggaagctgcgaattttcatt	11	12	7	11	2	3	0	2	0	1	0	4	2	4	1	2	1	5	2	2	1	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:50481152C>T	uc001rvx.3	+	5	708	c.538C>T	c.(538-540)CGG>TGG	p.R180W	SMARCD1_uc010smo.1_Missense_Mutation_p.R180W|SMARCD1_uc001rvy.3_Missense_Mutation_p.R180W|SMARCD1_uc009zlp.2_Intron	NM_003076	NP_003067	Q96GM5	SMRD1_HUMAN	SWI/SNF-related matrix-associated	180	Necessary for GR/NR3C1-mediated remodeling and transcription from chromatin; required for GR/NR3C1 interaction with the BRG1/SMARCA4 complex in vivo.|Interaction with SMARCC1 and SMARCC2.				chromatin-mediated maintenance of transcription|nervous system development|regulation of transcription from RNA polymerase II promoter	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	protein complex scaffold|transcription coactivator activity			ovary(1)	1						TCAGCAAAAACGGAAGCTGCG	0.502													10	144					0	0	0.010729	0	0		T	50481152	T	T	50481152	3	4	48	1	0	0	0	0	1	0	0	0	14802	527	19	1	556	1	SMARCD1	12	50481152	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1260893	50481152	83370743	471	36351											
TMPRSS12	283471	broad.mit.edu	37	chr12	51279034	51279034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attttttgttaacaggtaacGctacaaatattttacaagat	15	16	5	5	1	0	1	0	0	0	1	0	1	0	1	0	1	4	3	0	1	7	9			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:51279034G>A	uc001rwx.3	+	4	705	c.658G>A	c.(658-660)GCT>ACT	p.A220T	TMPRSS12_uc001rwy.2_Missense_Mutation_p.A220T	NM_182559	NP_872365	Q86WS5	TMPSC_HUMAN	transmembrane protease, serine 12 precursor	220	Peptidase S1.|Extracellular (Potential).				proteolysis	integral to membrane	serine-type endopeptidase activity				0						AACAGGTAACGCTACAAATAT	0.323													10	16					0	0	0.006214	0	0		A	51279034	A	A	51279034	3	1	48	1	0	0	0	0	1	0	0	0	16269	1087	38	1	672	1	TMPRSS12	12	51279034	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	797882	51279034	82572861	472	36352											
SCN8A	6334	broad.mit.edu	37	chr12	52200233	52200233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgccctgttcaacatcGgccttctgctcttcctggtc	3	14	8	16	1	3	0	1	0	2	0	6	0	4	0	4	2	4	2	4	2	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:52200233G>A	uc001ryw.2	+	27	5141	c.4963G>A	c.(4963-4965)GGC>AGC	p.G1655S		NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	1655	IV.|Helical; Name=S5 of repeat IV; (Potential).				axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	GTTCAACATCGGCCTTCTGCT	0.493													3	58					0	0	0.000602	0	0		A	52200233	A	A	52200233	3	1	48	1	0	0	0	0	1	0	0	0	13949	1116	39	1	5065	1	SCN8A	12	52200233	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	921199	52200233	81651662	473	36353											
ACVR1B	91	broad.mit.edu	37	chr12	52385715	52385715	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccttccattgaggaaatgCgaaaggttgtatgtgatcag	12	11	11	7	1	1	2	1	2	0	0	2	4	2	3	2	2	1	2	2	2	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:52385715C>T	uc001rzn.2	+	8	1372	c.1330C>T	c.(1330-1332)CGA>TGA	p.R444*	ACVR1B_uc001rzm.2_Nonsense_Mutation_p.R444*|ACVR1B_uc010snn.1_Nonsense_Mutation_p.R485*	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	444	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding	p.R485*(1)		pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	TGAGGAAATGCGAAAGGTTGT	0.488													37	49					0	0	0.007835	0	0		T	52385715	T	T	52385715	4	4	48	1	0	0	0	0	0	1	0	0	221	760	27	1	1487	1	ACVR1B	12	52385715	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	185482	52385715	81466180	474	36354											
SOAT2	8435	broad.mit.edu	37	chr12	53516883	53516883	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccttggtgcccgggccCgaggggtagccatgctgggt	4	8	17	12	2	0	0	0	0	0	0	1	1	1	0	4	5	4	3	4	5	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:53516883C>T	uc001sbv.2	+	13	1343	c.1255C>T	c.(1255-1257)CGA>TGA	p.R419*	SOAT2_uc009zms.2_RNA	NM_003578	NP_003569	O75908	SOAT2_HUMAN	acyl-CoA:cholesterol acyltransferase 2	419					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|macrophage derived foam cell differentiation|very-low-density lipoprotein particle assembly	brush border|endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			ovary(1)	1						TGCCCGGGCCCGAGGGGTAGC	0.542													4	7					0	0	0.009096	0	0		T	53516883	T	T	53516883	4	4	48	1	0	0	0	0	0	1	0	0	14936	644	23	1	1305	1	SOAT2	12	53516883	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1131168	53516883	80335012	475	36355											
HOXC12	3228	broad.mit.edu	37	chr12	54348881	54348881	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgctccctgtcctggccGtcggcggagccgtgcaatgg	3	9	16	13	4	0	0	0	0	0	0	3	1	2	1	4	4	3	2	4	4	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:54348881G>A	uc010soq.1	+	1	168	c.168G>A	c.(166-168)CCG>CCA	p.P56P		NM_173860	NP_776272	P31275	HXC12_HUMAN	homeobox C12	56					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						TGTCCTGGCCGTCGGCGGAGC	0.701													8	15					0	0	0.00308	0	0		A	54348881	A	A	54348881	2	1	48	1	0	0	0	0	0	0	0	1	7327	1132	40	1		1	HOXC12	12	54348881	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	831998	54348881	79503014	476	36356											
HOXC5	3222	broad.mit.edu	37	chr12	54428224	54428224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagatctggttccagaaccGcaggatgaagtggaagaaag	15	6	13	7	1	1	4	0	1	1	3	2	6	2	6	2	3	1	2	2	3	5	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:54428224G>A	uc001sew.2	+	2	692	c.617G>A	c.(616-618)CGC>CAC	p.R206H	HOXC5_uc001set.2_RNA|HOXC4_uc001seu.2_Intron	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	206	Homeobox.				regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TTCCAGAACCGCAGGATGAAG	0.537													12	37					0	0	0.003163	0	0		A	54428224	A	A	54428224	3	1	48	1	0	0	0	0	1	0	0	0	7330	1087	38	1	623	1	HOXC5	12	54428224	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	79343	54428224	79423671	477	36357											
ZNF385A	25946	broad.mit.edu	37	chr12	54764440	54764440	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcgcccctagacttcttGtgacggctcagtagtgggtt	5	11	13	12	3	2	2	1	1	1	1	2	2	2	2	3	3	0	3	3	3	2	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:54764440G>C	uc001sfw.1	-	6	1023	c.840C>G	c.(838-840)CAC>CAG	p.H280Q	ZNF385A_uc001sfv.1_Missense_Mutation_p.H261Q|ZNF385A_uc009zno.1_RNA|ZNF385A_uc010sov.1_Missense_Mutation_p.H199Q|ZNF385A_uc001sfx.1_Missense_Mutation_p.H280Q|ZNF385A_uc001sfy.3_Missense_Mutation_p.H300Q|ZNF385A_uc001sfz.3_Missense_Mutation_p.H219Q	NM_015481	NP_056296	Q96PM9	Z385A_HUMAN	zinc finger protein 385A isoform c	280					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1						TAGACTTCTTGTGACGGCTCA	0.697											OREG0021894	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	6					0	0	0.001168	0	0		C	54764440	C	C	54764440	3	2	48	1	0	0	0	0	1	0	0	0	17901	1368	48	5	268	5	ZNF385A	12	54764440	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	336216	54764440	79087455	478	36358			1	12		5	5	869	G		1.023955e-08
ZNF385A	25946	broad.mit.edu	37	chr12	54764723	54764723	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agacccacctgtttcagttgGacctccgagttgaccttgac	8	11	9	13	1	1	3	1	2	0	1	2	5	2	4	5	1	0	3	5	1	0	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:54764723G>C	uc001sfw.1	-	5	945	c.762C>G	c.(760-762)GTC>GTG	p.V254V	ZNF385A_uc001sfv.1_Silent_p.V235V|ZNF385A_uc009zno.1_RNA|ZNF385A_uc010sov.1_Silent_p.V173V|ZNF385A_uc001sfx.1_Silent_p.V254V|ZNF385A_uc001sfy.3_Silent_p.V274V|ZNF385A_uc001sfz.3_Silent_p.V193V	NM_015481	NP_056296	Q96PM9	Z385A_HUMAN	zinc finger protein 385A isoform c	254	Matrin-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1						GTTTCAGTTGGACCTCCGAGT	0.602											OREG0021894	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	35					0	0	0.004289	0	0		C	54764723	C	C	54764723	2	2	48	1	0	0	0	0	0	0	0	1	17901	1161	41	5		5	ZNF385A	12	54764723	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	283	54764723	79087172	479	36359			1	12		5	5	869	G		1.023955e-08
ZNF385A	25946	broad.mit.edu	37	chr12	54764782	54764782	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaaagttcggtcctgggcagGagcctctggttcccccgggg	5	8	16	12	2	1	0	0	0	1	0	4	2	3	1	4	6	1	3	4	6	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:54764782G>A	uc001sfw.1	-	5	886	c.703C>T	c.(703-705)CCT>TCT	p.P235S	ZNF385A_uc001sfv.1_Missense_Mutation_p.P216S|ZNF385A_uc009zno.1_RNA|ZNF385A_uc010sov.1_Missense_Mutation_p.P154S|ZNF385A_uc001sfx.1_Missense_Mutation_p.P235S|ZNF385A_uc001sfy.3_Missense_Mutation_p.P255S|ZNF385A_uc001sfz.3_Missense_Mutation_p.P174S	NM_015481	NP_056296	Q96PM9	Z385A_HUMAN	zinc finger protein 385A isoform c	235					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1						TCCTGGGCAGGAGCCTCTGGT	0.582													30	29					0	0	0.004289	0	0		A	54764782	A	A	54764782	3	1	48	1	0	0	0	0	1	0	0	0	17901	1174	41	4	409	4	ZNF385A	12	54764782	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	59	54764782	79087113	480	36360			1	12		5	5	869	G		1.023955e-08
ZNF385A	25946	broad.mit.edu	37	chr12	54764831	54764831	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccagccgagggtaagctttGatgggcccgagcccacttcg	7	7	13	14	3	0	1	0	1	0	0	1	3	0	1	4	2	3	2	4	2	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:54764831G>C	uc001sfw.1	-	5	837	c.654C>G	c.(652-654)ATC>ATG	p.I218M	ZNF385A_uc001sfv.1_Missense_Mutation_p.I199M|ZNF385A_uc009zno.1_RNA|ZNF385A_uc010sov.1_Missense_Mutation_p.I137M|ZNF385A_uc001sfx.1_Missense_Mutation_p.I218M|ZNF385A_uc001sfy.3_Missense_Mutation_p.I238M|ZNF385A_uc001sfz.3_Missense_Mutation_p.I157M	NM_015481	NP_056296	Q96PM9	Z385A_HUMAN	zinc finger protein 385A isoform c	218					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1						GGTAAGCTTTGATGGGCCCGA	0.582													19	32					0	0	0.010504	0	0		C	54764831	C	C	54764831	3	2	48	1	0	0	0	0	1	0	0	0	17901	1280	45	5	458	5	ZNF385A	12	54764831	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	49	54764831	79087064	481	36361			1	12		5	5	869	G		1.023955e-08
ZNF385A	25946	broad.mit.edu	37	chr12	54765308	54765308	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttcacagccaccttgcacaGagcacagtagagcagccgct	11	6	10	14	1	1	2	1	0	0	2	1	2	1	2	3	0	5	6	3	0	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:54765308G>C	uc001sfw.1	-	4	736	c.553C>G	c.(553-555)CTG>GTG	p.L185V	ZNF385A_uc001sfv.1_Missense_Mutation_p.L166V|ZNF385A_uc009zno.1_RNA|ZNF385A_uc010sov.1_Intron|ZNF385A_uc001sfx.1_Missense_Mutation_p.L185V|ZNF385A_uc001sfy.3_Missense_Mutation_p.L205V|ZNF385A_uc001sfz.3_Intron	NM_015481	NP_056296	Q96PM9	Z385A_HUMAN	zinc finger protein 385A isoform c	185	Matrin-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1						ACCTTGCACAGAGCACAGTAG	0.612													32	40					0	0	0.013726	0	0		C	54765308	C	C	54765308	3	2	48	1	0	0	0	0	1	0	0	0	17901	933	33	5	563	5	ZNF385A	12	54765308	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	477	54765308	79086587	482	36362			1	12		5	5	869	G		1.023955e-08
DCD	117159	broad.mit.edu	37	chr12	55038966	55038966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatactcacctttacccaCgctttctagatcttcgactg	9	14	4	14	2	3	1	1	0	2	1	4	2	3	1	2	0	2	1	2	0	4	7			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:55038966C>T	uc001sgj.2	-	4	342	c.280G>A	c.(280-282)GTG>ATG	p.V94M	DCD_uc009znt.2_Missense_Mutation_p.V94M|DCD_uc009znu.2_RNA	NM_053283	NP_444513	P81605	DCD_HUMAN	dermcidin preproprotein	94					defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular region	protein binding			ovary(1)	1		Myeloproliferative disorder(1001;0.0255)				CCTTTACCCACGCTTTCTAGA	0.512													10	34					0	0	0.013537	0	0		T	55038966	T	T	55038966	3	4	48	1	0	0	0	0	1	0	0	0	4286	536	19	1	60	1	DCD	12	55038966	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	273658	55038966	78812929	483	36363											
TIMELESS	8914	broad.mit.edu	37	chr12	56815753	56815753	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgatctgcttgcgtgttcGaggaacagtattcaggtggg	8	12	15	6	2	2	1	1	1	1	0	3	4	2	2	0	3	3	3	0	3	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:56815753G>A	uc001slf.2	-	21	2740	c.2572C>T	c.(2572-2574)CGA>TGA	p.R858*		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	858					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						TTGCGTGTTCGAGGAACAGTA	0.547													4	94					0	0	0.009096	0	0		A	56815753	A	A	56815753	4	1	48	1	0	0	0	0	0	1	0	0	15929	1066	37	1	1090	1	TIMELESS	12	56815753	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1776787	56815753	77036142	484	36364											
LRP1	4035	broad.mit.edu	37	chr12	57569406	57569406	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaaatgcagccaaaagtgCgaccagaacaagttcagcgt	15	6	9	11	2	2	1	2	0	0	1	2	2	2	1	2	0	5	2	2	0	5	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:57569406C>T	uc001snd.2	+	23	4177	c.3711C>T	c.(3709-3711)TGC>TGT	p.C1237C		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1237	Extracellular (Potential).|EGF-like 6.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GCCAAAAGTGCGACCAGAACA	0.592											OREG0021937	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	71					0	0	0.007413	0	0		T	57569406	T	T	57569406	2	4	48	1	0	0	0	0	0	0	0	1	8969	776	27	1		1	LRP1	12	57569406	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	753653	57569406	76282489	485	36365											
SLC6A15	55117	broad.mit.edu	37	chr12	85279797	85279797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagagttccaagaaaaaaaGgggaatacctattaccataa	20	7	8	6	0	0	2	0	0	0	2	1	4	1	3	3	2	2	1	3	2	9	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:85279797G>A	uc001szv.2	-	3	833	c.340C>T	c.(340-342)CTT>TTT	p.L114F	SLC6A15_uc010sul.1_Missense_Mutation_p.L7F|SLC6A15_uc001szy.2_Missense_Mutation_p.L114F	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	114	Helical; Name=2; (Potential).				cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						AAGAAAAAAAGGGGAATACCT	0.353													23	21					0	0	0.004656	0	0		A	85279797	A	A	85279797	3	1	48	1	0	0	0	0	1	0	0	0	14703	1000	35	4	2006	4	SLC6A15	12	85279797	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	27710391	85279797	48572098	486	36366											
DCN	1634	broad.mit.edu	37	chr12	91550892	91550892	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggtatcagcaatgcggatGtaggagagcttcttcattcc	9	13	11	8	1	3	1	2	0	1	1	4	3	4	2	1	3	3	4	1	3	3	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:91550892G>A	uc001tbs.2	-	4	706	c.612C>T	c.(610-612)TAC>TAT	p.Y204Y	DCN_uc001tbo.2_Silent_p.Y95Y|DCN_uc001tbp.2_Intron|DCN_uc001tbq.2_Intron|DCN_uc001tbr.2_Intron|DCN_uc001tbt.2_Silent_p.Y204Y|DCN_uc001tbu.2_Silent_p.Y204Y	NM_133503	NP_598010	P07585	PGS2_HUMAN	decorin isoform a preproprotein	204	LRR 6.				organ morphogenesis	extracellular space				central_nervous_system(2)|ovary(1)|lung(1)	4						CAATGCGGATGTAGGAGAGCT	0.383													11	82					0	0	0.001855	0	0		A	91550892	A	A	91550892	2	1	48	1	0	0	0	0	0	0	0	1	4300	1372	48	4		4	DCN	12	91550892	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	6271095	91550892	42301003	487	36367											
CDK17	5128	broad.mit.edu	37	chr12	96682999	96682999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaagcacatcaggtggcCggtaccatagtgtgacaact	13	7	11	10	1	1	2	1	1	0	1	1	2	1	2	2	3	3	2	2	3	5	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:96682999C>T	uc001tep.1	-	11	1553	c.1064G>A	c.(1063-1065)CGG>CAG	p.R355Q	CDK17_uc009ztk.2_Missense_Mutation_p.R355Q|CDK17_uc010svb.1_Missense_Mutation_p.R302Q	NM_002595	NP_002586	Q00537	CDK17_HUMAN	PCTAIRE protein kinase 2	355	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity			ovary(3)|lung(2)|kidney(1)|central_nervous_system(1)	7						ATCAGGTGGCCGGTACCATAG	0.403													3	109					0	0	0.009096	0	0		T	96682999	T	T	96682999	3	4	48	1	0	0	0	0	1	0	0	0	3136	652	23	1	573	1	CDK17	12	96682999	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	5132107	96682999	37168896	488	36368											
UTP20	27340	broad.mit.edu	37	chr12	101767445	101767445	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgactctgccacgtgcaaaaAgatggcatccatgacaatca	14	8	8	11	1	2	3	1	2	1	1	3	3	3	3	2	1	2	2	2	1	3	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:101767445A>G	uc001tia.1	+	54	7187	c.7031A>G	c.(7030-7032)AAG>AGG	p.K2344R		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	2344					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						ACGTGCAAAAAGATGGCATCC	0.428													15	45					0	0	0.004007	0	0		G	101767445	G	G	101767445	3	3	48	1	0	0	0	0	1	0	0	0	17125	72	3	3	7245	3	UTP20	12	101767445	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	5084446	101767445	32084450	489	36369											
CHPT1	56994	broad.mit.edu	37	chr12	102091823	102091823	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtggatcccgctctggatgGcccccaactccatcaccctg	7	8	9	17	1	2	0	1	0	1	0	4	2	4	2	5	3	1	1	5	3	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:102091823G>C	uc001tin.2	+	1	407	c.184G>C	c.(184-186)GCC>CCC	p.A62P	CHPT1_uc001tio.2_RNA|CHPT1_uc001tip.1_Missense_Mutation_p.A62P	NM_020244	NP_064629	Q8WUD6	CHPT1_HUMAN	choline phosphotransferase 1	62					platelet activating factor biosynthetic process|regulation of cell growth	Golgi membrane|integral to membrane|microsome	diacylglycerol binding|diacylglycerol cholinephosphotransferase activity|metal ion binding				0						GCTCTGGATGGCCCCCAACTC	0.677													3	9					0	0	0.009096	0	0		C	102091823	C	C	102091823	3	2	48	1	0	0	0	0	1	0	0	0	3373	1203	42	5	186	5	CHPT1	12	102091823	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	324378	102091823	31760072	490	36370											
TMEM119	338773	broad.mit.edu	37	chr12	108985723	108985723	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcactgaaggcccgggggCccccggcccggtcactctgg	4	5	14	18	3	3	1	2	1	1	0	3	1	3	1	5	6	0	0	5	6	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:108985723C>G	uc001tng.2	-	2	600	c.437G>C	c.(436-438)GGC>GCC	p.G146A	TMEM119_uc001tnf.2_RNA	NM_181724	NP_859075	Q4V9L6	TM119_HUMAN	transmembrane protein 119 precursor	146	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						ggcccgggggcccccggcccg	0.567													4	7					0	0	0.009096	0	0		G	108985723	G	G	108985723	3	3	48	1	0	0	0	0	1	0	0	0	16057	739	26	5	418	5	TMEM119	12	108985723	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	6893900	108985723	24866172	491	36371											
ALDH2	217	broad.mit.edu	37	chr12	112237855	112237855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcccaggccctccaggCgggcactgtgtggtaagagc	6	7	14	14	1	0	1	0	0	0	1	2	1	2	1	4	4	1	2	4	4	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:112237855C>T	uc001tst.2	+	11	1835	c.1394C>T	c.(1393-1395)GCG>GTG	p.A465V	ALDH2_uc010syi.1_Missense_Mutation_p.A418V|ALDH2_uc009zvy.2_Missense_Mutation_p.A389V	NM_000690	NP_000681	P05091	ALDH2_HUMAN	mitochondrial aldehyde dehydrogenase 2	465					carbohydrate metabolic process|ethanol oxidation|neurotransmitter biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase|electron carrier activity			skin(2)|ovary(1)|central_nervous_system(1)	4					Disulfiram(DB00822)|Guanidine(DB00536)|NADH(DB00157)|Nitroglycerin(DB00727)	GCCCTCCAGGCGGGCACTGTG	0.572			T	HMGA2	leiomyoma								9	18					0	0	0.010729	0	0		T	112237855	T	T	112237855	3	4	48	1	0	0	0	0	1	0	0	0	496	768	27	1	1436	1	ALDH2	12	112237855	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3252132	112237855	21614040	492	36372											
OAS3	4940	broad.mit.edu	37	chr12	113382430	113382430	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagttgaagaacctaatcTtgctggtgaagcactggtac	12	10	10	9	0	1	3	0	2	1	1	1	3	1	3	2	2	4	4	2	2	6	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:113382430T>G	uc001tug.2	+	3	697	c.610T>G	c.(610-612)TTG>GTG	p.L204V	OAS3_uc001tuf.2_Missense_Mutation_p.L204V	NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	204	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						GAACCTAATCTTGCTGGTGAA	0.517													4	76					0	0	0.000602	0	0		G	113382430	G	G	113382430	3	3	48	1	0	0	0	0	1	0	0	0	10820	1606	56	5	620	5	OAS3	12	113382430	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	1144575	113382430	20469465	493	36373											
LHX5	64211	broad.mit.edu	37	chr12	113907091	113907091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agactttgctccgggccttgCgcaccaggtcgctgggcgag	5	8	15	13	4	0	1	0	0	0	1	2	2	1	1	3	3	2	3	3	3	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:113907091C>T	uc001tvj.1	-	2	807	c.233G>A	c.(232-234)CGC>CAC	p.R78H		NM_022363	NP_071758	Q9H2C1	LHX5_HUMAN	LIM homeobox protein 5	78	LIM zinc-binding 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCGGGCCTTGCGCACCAGGTC	0.597													11	88					0	0	0.004007	0	0		T	113907091	T	T	113907091	3	4	48	1	0	0	0	0	1	0	0	0	8790	768	27	1	991	1	LHX5	12	113907091	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	524661	113907091	19944804	494	36374											
TBX3	6926	broad.mit.edu	37	chr12	115120667	115120667	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccgcttgtgaaactgatcCcaaagttctttagcctccag	9	11	7	14	1	1	2	0	2	1	0	3	2	3	2	5	0	2	2	5	0	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:115120667C>T	uc001tvt.1	-	1	1303	c.339G>A	c.(337-339)TGG>TGA	p.W113*	TBX3_uc001tvu.1_Nonsense_Mutation_p.W113*|TBX3_uc010syw.1_Nonsense_Mutation_p.W113*	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	113	T-box; first part.				anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		GAAACTGATCCCAAAGTTCTT	0.582													17	53					0	0	0.006122	0	0		T	115120667	T	T	115120667	4	4	48	1	0	0	0	0	0	1	0	0	15684	624	22	4	1924	4	TBX3	12	115120667	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1213576	115120667	18731228	495	36375											
WSB2	55884	broad.mit.edu	37	chr12	118474278	118474278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgatggccctctagcttcCgaattaacgtgtaggacctc	8	13	9	11	2	1	1	0	1	1	0	3	3	2	2	3	2	2	2	3	2	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:118474278C>T	uc001twr.2	-	6	796	c.698G>A	c.(697-699)CGG>CAG	p.R233Q	WSB2_uc010sza.1_Missense_Mutation_p.R8Q|WSB2_uc010szb.1_Missense_Mutation_p.R23Q|WSB2_uc009zws.1_Missense_Mutation_p.R233Q	NM_018639	NP_061109	Q9NYS7	WSB2_HUMAN	WD SOCS-box protein 2	233	WD 3.				intracellular signal transduction					ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTCTAGCTTCCGAATTAACGT	0.498													34	62					0	0	0.006999	0	0		T	118474278	T	T	118474278	3	4	48	1	0	0	0	0	1	0	0	0	17431	652	23	1	532	1	WSB2	12	118474278	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3353611	118474278	15377617	496	36376											
TAOK3	51347	broad.mit.edu	37	chr12	118682752	118682752	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaattgccaccacctcacTggtgtgagcatttgtagcct	8	13	8	12	0	1	1	1	1	0	0	1	1	1	1	4	1	3	2	4	1	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:118682752T>C	uc001twx.2	-	4	434	c.139A>G	c.(139-141)AGT>GGT	p.S47G	TAOK3_uc001twy.3_Missense_Mutation_p.S47G	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	47	Protein kinase.				MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ACCACCTCACTGGTGTGAGCA	0.368													27	57					0	0	0.003271	0	0		C	118682752	C	C	118682752	3	2	48	1	0	0	0	0	1	0	0	0	15574	1580	55	3	2629	3	TAOK3	12	118682752	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	208474	118682752	15169143	497	36377											
CIT	11113	broad.mit.edu	37	chr12	120148366	120148366	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtcactgaagggcagcgtGcagttcatgtctagacggtc	8	10	14	9	2	3	2	2	1	1	1	4	2	3	2	0	3	2	3	0	3	2	2	rs144367821		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:120148366G>A	uc001txi.1	-	37	4841	c.4788C>T	c.(4786-4788)TGC>TGT	p.C1596C	CIT_uc001txh.1_Silent_p.C1115C|CIT_uc001txj.1_Silent_p.C1638C	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1596	CNH.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		AGGGCAGCGTGCAGTTCATGT	0.502													4	124					0	0	0.000602	0	0		A	120148366	A	A	120148366	2	1	48	1	0	0	0	0	0	0	0	1	3441	1311	46	2		2	CIT	12	120148366	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1465614	120148366	13703529	498	36378											
GCN1L1	10985	broad.mit.edu	37	chr12	120589077	120589077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccataggcggcccctttgCgctctgcgtacttgtctgac	4	11	12	14	3	2	1	0	1	2	0	2	1	2	1	3	3	3	2	3	3	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:120589077C>T	uc001txo.2	-	34	4194	c.4181G>A	c.(4180-4182)CGC>CAC	p.R1394H		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	1394					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GGCCCCTTTGCGCTCTGCGTA	0.607													6	32					0	0	0.001984	0	0		T	120589077	T	T	120589077	3	4	48	1	0	0	0	0	1	0	0	0	6314	768	27	1	3934	1	GCN1L1	12	120589077	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	440711	120589077	13262818	499	36379											
ACADS	35	broad.mit.edu	37	chr12	121176396	121176396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgggcattgcccagaccGccctcgattgtgctgtgaac	6	9	11	15	2	0	2	0	1	0	1	1	3	0	2	4	1	3	2	4	1	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:121176396G>A	uc001tza.3	+	7	974	c.856G>A	c.(856-858)GCC>ACC	p.A286T	ACADS_uc010szl.1_Missense_Mutation_p.A282T|ACADS_uc001tzb.3_Intron	NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	286						mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)	TGCCCAGACCGCCCTCGATTG	0.662													42	62					0	0	0.009718	0	0		A	121176396	A	A	121176396	3	1	48	1	0	0	0	0	1	0	0	0	114	1087	38	1	882	1	ACADS	12	121176396	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	587319	121176396	12675499	500	36380											
MPHOSPH9	10198	broad.mit.edu	37	chr12	123705999	123705999	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattcaccaggagaaatggaTacatcttcctttaaagacac	16	10	6	9	0	2	2	1	0	1	2	3	4	3	3	2	2	1	0	2	2	5	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:123705999T>A	uc001uel.2	-	1	443	c.336A>T	c.(334-336)GTA>GTT	p.V112V	MPHOSPH9_uc010tal.1_5'UTR|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_5'UTR	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	112					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		GAGAAATGGATACATCTTCCT	0.363													12	29					0	0	0.013537	0	0		A	123705999	A	A	123705999	2	1	48	1	0	0	0	0	0	0	0	1	9746	1393	49	5		5	MPHOSPH9	12	123705999	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	2529603	123705999	10145896	501	36381											
GPR133	283383	broad.mit.edu	37	chr12	131476850	131476850	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaaccttccaaagtccCggagtgatactgagttacct	14	9	8	10	1	0	3	0	2	0	1	2	4	2	4	4	1	3	1	4	1	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:131476850C>T	uc001uit.3	+	8	1438	c.879C>T	c.(877-879)CCC>CCT	p.P293P	GPR133_uc010tbm.1_Silent_p.P325P	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	293	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		TCCAAAGTCCCGGAGTGATAC	0.458													4	153					0	0	0.000602	0	0		T	131476850	T	T	131476850	2	4	48	1	0	0	0	0	0	0	0	1	6658	639	23	1		1	GPR133	12	131476850	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	7770851	131476850	2375045	502	36382											
GPR133	283383	broad.mit.edu	37	chr12	131487801	131487801	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtatcctccaacctgcaCggcagcacgccccaggtcac	9	6	8	18	2	1	0	1	0	0	0	3	0	3	0	5	2	3	4	5	2	2	1	rs148751019		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:131487801C>T	uc001uit.3	+	10	1657	c.1098C>T	c.(1096-1098)CAC>CAT	p.H366H	GPR133_uc010tbm.1_Silent_p.H398H	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	366	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		CCAACCTGCACGGCAGCACGC	0.627													4	79					0	0	0.000602	0	0		T	131487801	T	T	131487801	2	4	48	1	0	0	0	0	0	0	0	1	6658	535	19	1		1	GPR133	12	131487801	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	10951	131487801	2364094	503	36383											
ULK1	8408	broad.mit.edu	37	chr12	132395332	132395332	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagctccacctcccaccTggcctccccgccggtgagtt	5	7	9	20	2	0	1	0	1	0	0	3	1	3	1	8	2	2	3	8	2	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:132395332T>C	uc001uje.2	+	12	1203	c.935T>C	c.(934-936)CTG>CCG	p.L312P		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	312	Interaction with GABARAP and GABARAPL2.				autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		ACCTCCCACCTGGCCTCCCCG	0.692													18	38					0	0	0.012319	0	0		C	132395332	C	C	132395332	3	2	48	1	0	0	0	0	1	0	0	0	17001	1580	55	3	981	3	ULK1	12	132395332	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	907531	132395332	1456563	504	36384											
ANKLE2	23141	broad.mit.edu	37	chr12	133304695	133304695	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaactgatgggggtcgacGtctgcacattcaagagcggc	9	7	16	9	3	2	2	1	1	1	1	3	4	2	3	0	4	3	1	0	4	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr12:133304695G>A	uc001ukx.2	-	12	2605	c.2538C>T	c.(2536-2538)GAC>GAT	p.D846D	ANKLE2_uc009zyw.1_Silent_p.D201D	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	846						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		GGGGGTCGACGTCTGCACATT	0.512													56	122					0	0	0.01441	0	0		A	133304695	A	A	133304695	2	1	48	1	0	0	0	0	0	0	0	1	633	1136	40	1		1	ANKLE2	12	133304695	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	909363	133304695	547200	505	36385											
C1QTNF9B	387911	broad.mit.edu	37	chr13	24465898	24465898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttccagcctcttattccccGgactcctggctcaccctggg	4	12	8	17	1	2	0	1	0	1	0	5	1	5	1	6	3	1	1	6	3	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:24465898G>A	uc010tcw.1	-	3	532	c.532C>T	c.(532-534)CGG>TGG	p.R178W	MIPEP_uc001uox.3_5'Flank|PCOTH_uc001uoy.2_Missense_Mutation_p.R51Q|PCOTH_uc009zzx.2_Missense_Mutation_p.R60Q|C1QTNF9B_uc010tcv.1_Intron|C1QTNF9B_uc001uoz.1_Intron|C1QTNF9B_uc010tcx.1_Missense_Mutation_p.R178W	NM_001007537	NP_001007538	B2RNN3	C1T9B_HUMAN	C1q and tumor necrosis factor related protein 9B	178	Collagen-like 3.					collagen					0						CTTATTCCCCGGACTCCTGGC	0.582													7	39					0	0	0.00308	0	0		A	24465898	A	A	24465898	3	1	48	1	0	0	0	0	1	0	0	0	1974	1116	39	1	472	1	C1QTNF9B	13	24465898	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08		24465898	90703980	506	36386											
FAM123A	219287	broad.mit.edu	37	chr13	25745468	25745468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctcaccagccccgtcGgacccgagcttttcccgtcc	4	9	8	20	4	1	0	1	0	0	0	5	2	4	1	7	1	3	2	7	1	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:25745468G>A	uc001uqb.2	-	1	390	c.290C>T	c.(289-291)CCG>CTG	p.P97L	FAM123A_uc001uqa.2_Missense_Mutation_p.P97L|FAM123A_uc001uqc.2_Missense_Mutation_p.P97L	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	97	Gly-rich.									ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		CAGCCCCGTCGGACCCGAGCT	0.517													16	29					0	0	0.00499	0	0		A	25745468	A	A	25745468	3	1	48	1	0	0	0	0	1	0	0	0	5433	1116	39	1	1729	1	FAM123A	13	25745468	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1279570	25745468	89424410	507	36387											
N4BP2L2	10443	broad.mit.edu	37	chr13	33017425	33017425	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatcatttgaatccattGccccctgctgtcaggaccag	10	10	9	12	0	2	2	2	1	0	1	3	4	3	3	4	1	2	1	4	1	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:33017425G>A	uc010abe.1	-	7	1271	c.1249C>T	c.(1249-1251)CAA>TAA	p.Q417*	N4BP2L2_uc001uug.2_Nonsense_Mutation_p.Q300*|N4BP2L2_uc010abd.1_Nonsense_Mutation_p.Q330*|N4BP2L2_uc001uuh.2_Nonsense_Mutation_p.Q248*|N4BP2L2_uc001uuj.2_Intron|N4BP2L2_uc010tdz.1_Nonsense_Mutation_p.Q402*	NM_033111	NP_149102	Q92802	N42L2_HUMAN	phosphonoformate immuno-associated protein 5	Error:Variant_position_missing_in_Q92802_after_alignment											0		Lung SC(185;0.0262)		all cancers(112;9.5e-07)|Epithelial(112;5.07e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00196)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.243)		TGAATCCATTGCCCCCTGCTG	0.423													29	70					0	0	0.009535	0	0		A	33017425	A	A	33017425	4	1	48	1	0	0	0	0	0	1	0	0	10130	1328	46	2	1021	2	N4BP2L2	13	33017425	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	7271957	33017425	82152453	508	36388											
KIAA0564	23078	broad.mit.edu	37	chr13	42189137	42189137	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccagcccaagtgttgccGcccacgtgaggcatgttgtc	6	8	12	15	3	0	1	0	1	0	0	1	1	0	1	5	1	2	3	5	1	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:42189137G>A	uc001uyj.2	-	38	4765	c.4695C>T	c.(4693-4695)GGC>GGT	p.G1565G		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1565						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		AAGTGTTGCCGCCCACGTGAG	0.537													23	60					0	0	0.004656	0	0		A	42189137	A	A	42189137	2	1	48	1	0	0	0	0	0	0	0	1	8201	1074	38	1		1	KIAA0564	13	42189137	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	9171712	42189137	72980741	509	36389											
LCP1	3936	broad.mit.edu	37	chr13	46705004	46705004	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctgtcttcagaaggtcatAgttaatggaacctggttgga	10	14	11	6	0	4	1	2	0	2	1	4	3	4	3	1	4	1	2	1	4	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:46705004A>G	uc001vaz.3	-	15	1822	c.1696T>C	c.(1696-1698)TAT>CAT	p.Y566H	LCP1_uc010ack.2_Missense_Mutation_p.Y135H|LCP1_uc001vay.3_Missense_Mutation_p.Y163H|LCP1_uc001vba.3_Missense_Mutation_p.Y566H	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	566	Actin-binding 2.|CH 4.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		AGAAGGTCATAGTTAATGGAA	0.428			T	BCL6	NHL 								4	124					0	0	0.009096	0	0		G	46705004	G	G	46705004	3	3	48	1	0	0	0	0	1	0	0	0	8707	420	15	3	195	3	LCP1	13	46705004	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	4515867	46705004	68464874	510	36390											
LRCH1	23143	broad.mit.edu	37	chr13	47315868	47315868	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctggcactcggggagaaagCcccaccaccaacttctgccc	9	5	10	17	1	1	1	0	0	1	1	2	2	1	1	5	3	3	2	5	3	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:47315868C>T	uc001vbj.2	+	19	2308	c.2072C>T	c.(2071-2073)GCC>GTC	p.A691V	LRCH1_uc001vbk.2_Missense_Mutation_p.A726V|LRCH1_uc001vbl.3_Intron	NM_015116	NP_055931	Q9Y2L9	LRCH1_HUMAN	leucine-rich repeats and calponin homology (CH)	691										ovary(1)|central_nervous_system(1)	2		all_lung(13;5.61e-07)|Lung NSC(96;0.000117)|Breast(56;0.000141)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000123)		GGGGAGAAAGCCCCACCACCA	0.502													135	321					0	0	0.01441	0	0		T	47315868	T	T	47315868	3	4	48	1	0	0	0	0	1	0	0	0	8950	739	26	2	2255	2	LRCH1	13	47315868	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	610864	47315868	67854010	511	36391											
PCDH9	5101	broad.mit.edu	37	chr13	67801679	67801679	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaaagagtcttttggtTgcaggggcgacctgggcacc	10	8	14	9	1	1	1	0	0	1	1	1	2	1	1	2	4	2	4	2	4	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:67801679T>C	uc001vik.2	-	2	1586	c.894A>G	c.(892-894)GCA>GCG	p.A298A	PCDH9_uc001vil.2_Silent_p.A298A|PCDH9_uc010thl.1_Silent_p.A298A|PCDH9_uc001vin.3_Silent_p.A298A	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	298	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GTCTTTTGGTTGCAGGGGCGA	0.468													31	65					0	0	0.010818	0	0		C	67801679	C	C	67801679	2	2	48	1	0	0	0	0	0	0	0	1	11537	1799	63	3		3	PCDH9	13	67801679	Silent	SNP	T	TCGA-BR-7703-01A-11D-2053-08	20485811	67801679	47368199	512	36392											
KLF5	688	broad.mit.edu	37	chr13	73636730	73636730	+	Frame_Shift_Del	DEL	A	-	-																															cctccatcctatgctgctacAattgcttctaaactggcaat																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:73636730delA	uc001vje.2	+	2	1317	c.993delA	c.(991-993)ACAfs	p.T331fs	KLF5_uc001vjd.2_Frame_Shift_Del_p.T240fs	NM_001730	NP_001721	Q13887	KLF5_HUMAN	Kruppel-like factor 5	331					transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|pancreas(1)	3		Prostate(6;0.00187)|Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.0011)		ATGCTGCTACAATTGCTTCTA	0.463													62	120	---	---	---	---						.	-	73636730	-	-	73636730	7	5	48	1	0	1	0	1	0	0	0	0	8365	117	5	0	999	0	KLF5	13	73636730	Frame_Shift_Del	DEL	A	TCGA-BR-7703-01A-11D-2053-08	5835051	73636730	41533148	513	36393											
MYCBP2	23077	broad.mit.edu	37	chr13	77754337	77754337	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caggtgttagagacgaggtgGgaggagaagagttcattttc	11	10	16	4	1	1	3	1	0	0	3	2	7	1	4	0	4	0	2	0	4	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:77754337G>T	uc001vkf.2	-	35	5035	c.4944C>A	c.(4942-4944)TCC>TCA	p.S1648S	MYCBP2_uc010aev.2_Silent_p.S1052S	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1648					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AGACGAGGTGGGAGGAGAAGA	0.483													6	121					8.12818e-05	8.44301e-05	0.001984	1	0		T	77754337	T	T	77754337	2	4	48	1	0	0	0	0	0	0	0	1	10036	1219	43	5		5	MYCBP2	13	77754337	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4117607	77754337	37415541	514	36394											
CLYBL	171425	broad.mit.edu	37	chr13	100543659	100543660	+	Frame_Shift_Ins	INS	-	A	A																															gcttgccacctccatcaaggINSaaaaatgatctgttaaatga																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:100543659_100543660insA	uc001vok.2	+	8	1029_1030	c.1015_1016insA	c.(1015-1017)GAAfs	p.E339fs		NM_206808	NP_996531	Q8N0X4	CLYBL_HUMAN	citrate lyase beta like precursor	339					cellular aromatic compound metabolic process	citrate lyase complex|mitochondrion	citrate (pro-3S)-lyase activity|metal ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CTCCATCAAGGAAAAATGATCT	0.45													22	45	---	---	---	---						.	A	100543660	A	A	100543659	7	5	48	1	0	1	1	0	0	0	0	0	3576	1175	41	0	1045	0	CLYBL	13	100543659	Frame_Shift_Ins	INS	-	TCGA-BR-7703-01A-11D-2053-08	22789322	100543659	14626219	515	36395											
C13orf39	196541	broad.mit.edu	37	chr13	103339401	103339401	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccaagtattgacacaaagCcatagcctaaaaaataatta	19	9	4	9	0	0	1	0	1	0	0	1	1	1	1	3	0	2	1	3	0	9	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:103339401C>A	uc001vpj.2	-	3	295	c.289G>T	c.(289-291)GCT>TCT	p.A97S	C13orf39_uc001vpk.2_Missense_Mutation_p.A97S	NM_001010977	NP_001010977	Q5VZV1	MT21C_HUMAN	hypothetical protein LOC196541	97							methyltransferase activity				0						TGACACAAAGCCATAGCCTAA	0.393													14	32					5.35267e-07	5.70049e-07	0.007413	1	0		A	103339401	A	A	103339401	3	1	48	1	0	0	0	0	1	0	0	0	1735	739	26	5	513	5	C13orf39	13	103339401	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2795742	103339401	11830477	516	36396											
SLC10A2	6555	broad.mit.edu	37	chr13	103703660	103703660	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaccccagggagtaaccCgccacaggaaatattgttcc	14	6	9	12	1	0	1	0	0	0	1	1	3	1	3	5	2	2	2	5	2	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:103703660C>T	uc001vpy.3	-	4	1305	c.708G>A	c.(706-708)GCG>GCA	p.A236A		NM_000452	NP_000443	Q12908	NTCP2_HUMAN	solute carrier family 10 (sodium/bile acid	236	Helical; (Potential).				bile acid metabolic process|organic anion transport	integral to plasma membrane	bile acid:sodium symporter activity			ovary(3)|skin(1)	4	all_neural(89;0.0662)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					GGGAGTAACCCGCCACAGGAA	0.433													32	71					0	0	0.005524	0	0		T	103703660	T	T	103703660	2	4	48	1	0	0	0	0	0	0	0	1	14399	639	23	1		1	SLC10A2	13	103703660	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	364259	103703660	11466218	517	36397											
FAM155A	728215	broad.mit.edu	37	chr13	107822911	107822911	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctcagtccggctgtgttCtgtgctgccgaggctgtgag	5	11	15	10	2	2	1	1	1	1	0	3	2	3	1	2	2	3	5	2	2	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:107822911C>A	uc001vql.2	-	3	1827	c.1311G>T	c.(1309-1311)CAG>CAT	p.Q437H		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	437	Helical; (Potential).					integral to membrane	binding			skin(1)	1						CGGCTGTGTTCTGTGCTGCCG	0.517													22	49					2.27525e-19	2.54242e-19	0.003954	1	0		A	107822911	A	A	107822911	3	1	48	1	0	0	0	0	1	0	0	0	5476	912	32	5	69	5	FAM155A	13	107822911	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4119251	107822911	7346967	518	36398											
MYO16	23026	broad.mit.edu	37	chr13	109661297	109661297	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccactatatcaatgaagtgcTttttctccacgagcaagtgg	11	12	8	10	1	2	1	1	1	1	0	3	2	2	1	2	1	2	2	2	1	5	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr13:109661297T>C	uc001vqt.1	+	22	2555	c.2429T>C	c.(2428-2430)CTT>CCT	p.L810P	MYO16_uc010agk.1_Missense_Mutation_p.L832P|MYO16_uc001vqu.1_Missense_Mutation_p.L610P|MYO16_uc010tjh.1_Missense_Mutation_p.L322P	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	810	Myosin head-like 1.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			AATGAAGTGCTTTTTCTCCAC	0.378													17	47					0	0	0.00499	0	0		C	109661297	C	C	109661297	3	2	48	1	0	0	0	0	1	0	0	0	10082	1609	56	3	2511	3	MYO16	13	109661297	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	1838386	109661297	5508581	519	36399											
SLC39A2	29986	broad.mit.edu	37	chr14	21469346	21469346	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctttcactcagtgtttgaaGggctagctgtggggctgcag	6	12	14	9	0	2	1	2	1	0	0	2	1	2	1	1	3	2	5	1	3	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:21469346G>T	uc001vyr.2	+	4	725	c.538G>T	c.(538-540)GGG>TGG	p.G180W	SLC39A2_uc001vys.2_Missense_Mutation_p.G81W	NM_014579	NP_055394	Q9NP94	S39A2_HUMAN	solute carrier family 39 (zinc transporter),	180	Helical; (Potential).					cytoplasmic membrane-bounded vesicle|integral to plasma membrane	zinc ion transmembrane transporter activity			ovary(2)|central_nervous_system(1)	3	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0187)		AGTGTTTGAAGGGCTAGCTGT	0.567													23	51					8.24728e-16	9.1579e-16	0.004656	1	0		T	21469346	T	T	21469346	3	4	48	1	0	0	0	0	1	0	0	0	14643	1000	35	5	552	5	SLC39A2	14	21469346	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08		21469346	85880194	520	36400											
HNRNPC	3183	broad.mit.edu	37	chr14	21681143	21681143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagacttggaagatccccGctgtccactcttagaattga	10	11	8	12	1	1	4	0	1	1	3	4	5	4	5	4	1	0	1	4	1	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:21681143G>A	uc001vzy.2	-	6	782	c.538C>T	c.(538-540)CGG>TGG	p.R180W	HNRNPC_uc001vzw.2_Missense_Mutation_p.R167W|HNRNPC_uc001wad.2_Missense_Mutation_p.R100W|HNRNPC_uc001vzx.2_Intron|HNRNPC_uc001vzz.2_Missense_Mutation_p.R167W|HNRNPC_uc001waa.2_Missense_Mutation_p.R180W|HNRNPC_uc010ail.2_Missense_Mutation_p.R180W|HNRNPC_uc010tlq.1_RNA|HNRNPC_uc001wab.2_Missense_Mutation_p.R167W|HNRNPC_uc001wac.2_Intron|HNRNPC_uc010tlr.1_Missense_Mutation_p.R45W|HNRNPC_uc001waf.2_Missense_Mutation_p.R167W|HNRNPC_uc001wae.2_Missense_Mutation_p.R167W	NM_031314	NP_112604	P07910	HNRPC_HUMAN	heterogeneous nuclear ribonucleoprotein C	180						catalytic step 2 spliceosome|nucleoplasm	identical protein binding|nucleotide binding|RNA binding				0	all_cancers(95;0.00176)		Epithelial(56;1.08e-06)|all cancers(55;8.95e-06)	GBM - Glioblastoma multiforme(265;0.00783)		GAAGATCCCCGCTGTCCACTC	0.428													53	156					0	0	0.01441	0	0		A	21681143	A	A	21681143	3	1	48	1	0	0	0	0	1	0	0	0	7278	1086	38	1	398	1	HNRNPC	14	21681143	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	211797	21681143	85668397	521	36401											
MYH6	4624	broad.mit.edu	37	chr14	23853917	23853917	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcagctcctctgccaTcatggcggcctgtgtgcagg	4	12	11	14	1	4	0	2	0	2	0	5	0	5	0	3	3	3	2	3	3	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:23853917T>C	uc001wjv.2	-	36	5366	c.5299A>G	c.(5299-5301)ATG>GTG	p.M1767V		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1767	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TCCTCTGCCATCATGGCGGCC	0.612													11	74					0	0	0.001855	0	0		C	23853917	C	C	23853917	3	2	48	1	0	0	0	0	1	0	0	0	10056	1435	50	3	536	3	MYH6	14	23853917	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	2172774	23853917	83495623	522	36402											
MYH6	4624	broad.mit.edu	37	chr14	23858161	23858161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggccttggacaggacgCgctgcagctcggccttggcc	5	8	15	13	3	0	0	0	0	0	0	1	2	0	2	3	5	2	4	3	5	0	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:23858161C>T	uc001wjv.2	-	29	4149	c.4082G>A	c.(4081-4083)CGC>CAC	p.R1361H	uc010tnn.1_5'Flank|MIR208A_hsa-mir-208a|MI0000251_5'Flank	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1361	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GGACAGGACGCGCTGCAGCTC	0.642													21	47					0	0	0.00278	0	0		T	23858161	T	T	23858161	3	4	48	1	0	0	0	0	1	0	0	0	10056	768	27	1	1781	1	MYH6	14	23858161	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4244	23858161	83491379	523	36403											
PCK2	5106	broad.mit.edu	37	chr14	24567477	24567479	+	In_Frame_Del	DEL	CTT	-	-																															caagacggtgattgtaactcCttctcagcgggacacggtac																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:24567477_24567479delCTT	uc001wlt.2	+	3	473_475	c.341_343delCTT	c.(340-345)CCTTCT>CCT	p.S115del	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_In_Frame_Del_p.S127del|PCK2_uc001wls.2_In_Frame_Del_p.S115del|PCK2_uc010tnw.1_5'UTR|PCK2_uc010ald.2_5'UTR|PCK2_uc010ale.2_5'UTR|PCK2_uc010tnx.1_5'UTR|PCK2_uc001wlu.3_5'UTR	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	115					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		ATTGTAACTCCTTCTCAGCGGGA	0.616													28	54	---	---	---	---						.	-	24567479	-	-	24567477	7	5	48	1	0	1	0	1	0	0	0	0	11601	681	24	0	351	0	PCK2	14	24567477	In_Frame_Del	DEL	CTT	TCGA-BR-7703-01A-11D-2053-08	709316	24567477	82782063	524	36404											
PSME1	5720	broad.mit.edu	37	chr14	24606965	24606965	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgtggtccttctgcagcgcTtgaagcctgagatcaaggat	8	11	12	10	2	2	2	1	2	1	1	4	4	3	3	2	2	3	2	2	2	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:24606965T>G	uc001wmg.2	+	6	443	c.349T>G	c.(349-351)TTG>GTG	p.L117V	PSME1_uc001wmh.2_Missense_Mutation_p.L117V	NM_006263	NP_006254	Q06323	PSME1_HUMAN	proteasome activator subunit 1 isoform 1	117					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|proteasome activator complex				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00831)		TCTGCAGCGCTTGAAGCCTGA	0.517													6	89					0	0	0.001984	0	0		G	24606965	G	G	24606965	3	3	48	1	0	0	0	0	1	0	0	0	12728	1606	56	5	371	5	PSME1	14	24606965	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	39488	24606965	82742575	525	36405											
FOXG1	2290	broad.mit.edu	37	chr14	29237784	29237784	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcgcagagcagcacgtcCatgagcgccagggccgcgtc	8	5	13	15	5	0	2	0	1	0	1	3	2	1	2	3	1	3	3	3	1	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:29237784C>A	uc001wqe.2	+	1	1498	c.1299C>A	c.(1297-1299)TCC>TCA	p.S433S		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	433					axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		GCAGCACGTCCATGAGCGCCA	0.632													10	28					1.5739e-10	1.71963e-10	0.004007	1	0		A	29237784	A	A	29237784	2	1	48	1	0	0	0	0	0	0	0	1	6021	581	21	5		5	FOXG1	14	29237784	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4630819	29237784	78111756	526	36406											
FAM179B	23116	broad.mit.edu	37	chr14	45432820	45432820	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttggcttcattagtttgcTatataatttgttagacgatt	9	20	8	4	1	1	1	1	0	0	1	1	2	1	1	0	1	1	5	0	1	5	10			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:45432820T>C	uc001wvv.2	+	1	1405	c.1196T>C	c.(1195-1197)CTA>CCA	p.L399P	FAM179B_uc001wvw.2_Missense_Mutation_p.L399P|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvq.2_5'Flank|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Missense_Mutation_p.L399P|FAM179B_uc001wvu.2_Missense_Mutation_p.L399P	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	399	HEAT 2.						binding			skin(2)|upper_aerodigestive_tract(1)	3						ATTAGTTTGCTATATAATTTG	0.438													14	51					0	0	0.003163	0	0		C	45432820	C	C	45432820	3	2	48	1	0	0	0	0	1	0	0	0	5517	1522	53	3	1198	3	FAM179B	14	45432820	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	16195036	45432820	61916720	527	36407											
DACT1	51339	broad.mit.edu	37	chr14	59112499	59112499	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccgggcggtgtctcacaGggcaacagtgtgaaccttaa	9	7	13	12	2	1	1	1	1	1	0	2	1	1	1	3	3	2	1	3	3	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:59112499G>T	uc001xdw.2	+	4	1322	c.1158G>T	c.(1156-1158)CAG>CAT	p.Q386H	DACT1_uc010trv.1_Missense_Mutation_p.Q105H|DACT1_uc001xdx.2_Missense_Mutation_p.Q349H|DACT1_uc010trw.1_Missense_Mutation_p.Q105H	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	386					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						GTGTCTCACAGGGCAACAGTG	0.557													16	54					5.01169e-05	5.23654e-05	0.00499	1	0		T	59112499	T	T	59112499	3	4	48	1	0	0	0	0	1	0	0	0	4225	991	35	5	1172	5	DACT1	14	59112499	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	13679679	59112499	48237041	528	36408											
SIX1	6495	broad.mit.edu	37	chr14	61115476	61115476	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgatgggtagggattgtgCgcgtaccactcccgcaggac	7	7	16	11	4	0	0	0	0	0	0	1	3	1	2	2	4	2	3	2	4	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:61115476C>T	uc001xfb.3	-	1	680	c.432G>A	c.(430-432)GCG>GCA	p.A144A		NM_005982	NP_005973	Q15475	SIX1_HUMAN	SIX homeobox 1	144	Homeobox.				branching involved in ureteric bud morphogenesis|embryonic cranial skeleton morphogenesis|epithelial cell differentiation|inner ear morphogenesis|mesonephric tubule formation|metanephric mesenchyme development|myoblast migration|negative regulation of neuron apoptosis|organ induction|pattern specification process|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|protein localization to nucleus|regulation of branch elongation involved in ureteric bud branching|regulation of neuron differentiation|skeletal muscle tissue development|thymus development|thyroid gland development	nucleolus|transcription factor complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.0201)		AGGGATTGTGCGCGTACCACT	0.627													18	53					0	0	0.008871	0	0		T	61115476	T	T	61115476	2	4	48	1	0	0	0	0	0	0	0	1	14371	755	27	1		1	SIX1	14	61115476	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2002977	61115476	46234064	529	36409											
SYNE2	23224	broad.mit.edu	37	chr14	64465745	64465745	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgtctgcaggctaaacTgacagatctacaggtaatta	12	13	8	8	0	3	2	0	1	3	1	3	2	3	2	0	2	3	3	0	2	5	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:64465745T>C	uc001xgm.2	+	27	3697	c.3467T>C	c.(3466-3468)CTG>CCG	p.L1156P	SYNE2_uc001xgl.2_Missense_Mutation_p.L1156P	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	1156	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CAGGCTAAACTGACAGATCTA	0.363													5	44					0	0	0.001984	0	0		C	64465745	C	C	64465745	3	2	48	1	0	0	0	0	1	0	0	0	15471	1580	55	3	3569	3	SYNE2	14	64465745	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	3350269	64465745	42883795	530	36410											
SYNE2	23224	broad.mit.edu	37	chr14	64644169	64644169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcctcttccagagcttcacGaggacctccataacgaaaaa	14	8	6	13	2	2	1	1	0	1	1	5	4	5	2	4	1	2	1	4	1	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:64644169G>A	uc001xgm.2	+	96	17754	c.17524G>A	c.(17524-17526)GAG>AAG	p.E5842K	SYNE2_uc001xgl.2_Missense_Mutation_p.E5842K|SYNE2_uc010apy.2_Missense_Mutation_p.E2227K|SYNE2_uc001xgn.2_Missense_Mutation_p.E804K|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_5'UTR|SYNE2_uc001xgq.2_Missense_Mutation_p.E207K	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5842	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AGAGCTTCACGAGGACCTCCA	0.408													20	67					0	0	0.010504	0	0		A	64644169	A	A	64644169	3	1	48	1	0	0	0	0	1	0	0	0	15471	1059	37	1	17902	1	SYNE2	14	64644169	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	178424	64644169	42705371	531	36411											
SYNE2	23224	broad.mit.edu	37	chr14	64692078	64692078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcgctccttcctctcaaGggtggtccgggcagccctac	6	8	11	16	2	1	0	1	0	1	0	5	0	4	0	4	3	3	2	4	3	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:64692078G>A	uc001xgm.2	+	115	20722	c.20492G>A	c.(20491-20493)AGG>AAG	p.R6831K	SYNE2_uc001xgl.2_Missense_Mutation_p.R6853K|SYNE2_uc010apy.2_Missense_Mutation_p.R3216K|SYNE2_uc001xgn.2_Missense_Mutation_p.R1792K|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.R801K|SYNE2_uc001xgq.2_Missense_Mutation_p.R1210K|SYNE2_uc001xgr.2_Missense_Mutation_p.R614K|SYNE2_uc010tsi.1_Missense_Mutation_p.R488K|SYNE2_uc001xgs.2_Missense_Mutation_p.R502K|SYNE2_uc001xgt.2_Missense_Mutation_p.R375K	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6831	Cytoplasmic (Potential).|KASH.				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TTCCTCTCAAGGGTGGTCCGG	0.483													12	43					0	0	0.001855	0	0		A	64692078	A	A	64692078	3	1	48	1	0	0	0	0	1	0	0	0	15471	1000	35	4	21061	4	SYNE2	14	64692078	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	47909	64692078	42657462	532	36412											
SPTB	6710	broad.mit.edu	37	chr14	65252572	65252572	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactcaagaccttatcccggTtgttctccatagaccccaag	10	10	7	14	1	2	2	1	0	1	2	4	3	3	2	5	1	0	2	5	1	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:65252572T>C	uc001xht.2	-	16	3713	c.3659A>G	c.(3658-3660)AAC>AGC	p.N1220S	SPTB_uc001xhr.2_Missense_Mutation_p.N1220S|SPTB_uc001xhs.2_Missense_Mutation_p.N1220S|SPTB_uc001xhu.2_Missense_Mutation_p.N1220S	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1220	Spectrin 9.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		CTTATCCCGGTTGTTCTCCAT	0.522													53	154					0	0	0.01441	0	0		C	65252572	C	C	65252572	3	2	48	1	0	0	0	0	1	0	0	0	15143	1725	60	3	3476	3	SPTB	14	65252572	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	560494	65252572	42096968	533	36413											
FUT8	2530	broad.mit.edu	37	chr14	66136109	66136109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggaatctcagaattggcGctatgctactggtggatggg	8	12	14	7	1	1	1	1	0	1	1	2	3	1	3	0	5	2	2	0	5	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:66136109G>A	uc001xin.2	+	7	1943	c.746G>A	c.(745-747)CGC>CAC	p.R249H	FUT8_uc001xio.2_Missense_Mutation_p.R249H|FUT8_uc010tsp.1_Missense_Mutation_p.R86H|FUT8_uc001xir.3_RNA|FUT8_uc001xip.2_Missense_Mutation_p.R249H|FUT8_uc001xiq.2_Missense_Mutation_p.R120H|FUT8_uc001xis.2_5'Flank	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a	249	Lumenal (Potential).				in utero embryonic development|L-fucose catabolic process|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in Golgi|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	glycoprotein 6-alpha-L-fucosyltransferase activity|SH3 domain binding			ovary(1)	1				all cancers(60;0.00109)|OV - Ovarian serous cystadenocarcinoma(108;0.00242)|BRCA - Breast invasive adenocarcinoma(234;0.0114)		CAGAATTGGCGCTATGCTACT	0.498													22	57					0	0	0.00278	0	0		A	66136109	A	A	66136109	3	1	48	1	0	0	0	0	1	0	0	0	6124	1087	38	1	863	1	FUT8	14	66136109	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	883537	66136109	41213431	534	36414											
GPHN	10243	broad.mit.edu	37	chr14	67576930	67576930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aataccctgcggtgctgatgCagtagtacaagtggaagata	13	9	12	7	1	0	2	0	1	0	1	0	3	0	3	1	2	5	4	1	2	7	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:67576930C>T	uc001xiy.2	+	13	2389	c.1268C>T	c.(1267-1269)GCA>GTA	p.A423V	GPHN_uc001xix.2_Missense_Mutation_p.A456V|GPHN_uc010tss.1_Missense_Mutation_p.A469V|GPHN_uc010tst.1_Missense_Mutation_p.A392V|GPHN_uc010tsu.1_Missense_Mutation_p.A346V	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	423	MPT adenylyltransferase.				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		GGTGCTGATGCAGTAGTACAA	0.443			T	MLL	AL								61	119					0	0	0.01441	0	0		T	67576930	T	T	67576930	3	4	48	1	0	0	0	0	1	0	0	0	6625	710	25	2	1421	2	GPHN	14	67576930	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1440821	67576930	39772610	535	36415											
RGS6	9628	broad.mit.edu	37	chr14	72976872	72976872	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccccaaagcaaagagcccAgccaacagcgagtaaaaaga	19	1	8	13	1	0	2	0	0	0	2	0	3	0	2	4	0	5	2	4	0	6	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:72976872A>G	uc001xna.3	+	14	1499	c.976A>G	c.(976-978)AGC>GGC	p.S326G	RGS6_uc010ttn.1_Missense_Mutation_p.S326G|RGS6_uc001xmx.3_Missense_Mutation_p.S326G|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.S326G|RGS6_uc010ttp.1_Missense_Mutation_p.S257G|RGS6_uc001xmz.1_Missense_Mutation_p.S187G	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	326	G protein gamma.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		CAAAGAGCCCAGCCAACAGCG	0.463													16	99					0	0	0.007413	0	0		G	72976872	G	G	72976872	3	3	48	1	0	0	0	0	1	0	0	0	13334	188	7	3	1026	3	RGS6	14	72976872	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	5399942	72976872	34372668	536	36416											
FLRT2	23768	broad.mit.edu	37	chr14	86089465	86089465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagcagacgacgtcccacaGcatgggctccccctttctgc	7	8	10	16	2	1	2	0	1	1	1	3	3	3	2	3	1	3	3	3	1	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:86089465G>A	uc001xvr.2	+	2	2374	c.1607G>A	c.(1606-1608)AGC>AAC	p.S536N	FLRT2_uc010atd.2_Missense_Mutation_p.S536N	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	536	Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		ACGTCCCACAGCATGGGCTCC	0.572													31	70					0	0	0.006999	0	0		A	86089465	A	A	86089465	3	1	48	1	0	0	0	0	1	0	0	0	5953	971	34	2	1609	2	FLRT2	14	86089465	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	13112593	86089465	21260075	537	36417											
KCNK13	56659	broad.mit.edu	37	chr14	90651177	90651177	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatctccatgaaggacttgCtggcagccaacaaggcctcg	10	8	11	12	1	1	2	0	2	1	0	3	3	1	3	3	3	3	2	3	3	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:90651177C>T	uc001xye.1	+	2	1499	c.1057C>T	c.(1057-1059)CTG>TTG	p.L353L		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	353	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				GAAGGACTTGCTGGCAGCCAA	0.617													13	47					0	0	0.004007	0	0		T	90651177	T	T	90651177	2	4	48	1	0	0	0	0	0	0	0	1	8077	796	28	2		2	KCNK13	14	90651177	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4561712	90651177	16698363	538	36418											
CCDC88C	440193	broad.mit.edu	37	chr14	91770229	91770229	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgctgcctctgcaggctttCgttctccgtctccttggccg	1	14	10	16	3	3	0	0	0	3	0	6	0	3	0	4	2	3	4	4	2	0	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:91770229C>T	uc010aty.2	-	20	3550	c.3451G>A	c.(3451-3453)GAA>AAA	p.E1151K		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	1151	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				TGCAGGCTTTCGTTCTCCGTC	0.652													9	36					0	0	0.008291	0	0		T	91770229	T	T	91770229	3	4	48	1	0	0	0	0	1	0	0	0	2868	893	31	1	2679	1	CCDC88C	14	91770229	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1119052	91770229	15579311	539	36419											
CCDC88C	440193	broad.mit.edu	37	chr14	91779971	91779971	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcacgctccagctgctggTtctccctctccatctgtgcc	3	13	7	18	1	4	0	1	0	4	0	8	0	5	0	4	1	3	4	4	1	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:91779971T>C	uc010aty.2	-	15	2288	c.2189A>G	c.(2188-2190)AAC>AGC	p.N730S		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	730	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				CAGCTGCTGGTTCTCCCTCTC	0.607													3	66					0	0	0.009096	0	0		C	91779971	C	C	91779971	3	2	48	1	0	0	0	0	1	0	0	0	2868	1725	60	3	3961	3	CCDC88C	14	91779971	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	9742	91779971	15569569	540	36420											
TRIP11	9321	broad.mit.edu	37	chr14	92472038	92472038	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtttaattaaatgctcaTgttccagctgtaaggcagag	12	13	10	6	0	1	2	1	1	0	1	2	2	2	2	1	1	2	6	1	1	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:92472038T>C	uc001xzy.2	-	11	3070	c.2282A>G	c.(2281-2283)CAT>CGT	p.H761R	TRIP11_uc010auf.1_Missense_Mutation_p.H497R	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	761	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		TAAATGCTCATGTTCCAGCTG	0.348			T	PDGFRB	AML								28	138					0	0	0.008361	0	0		C	92472038	C	C	92472038	3	2	48	1	0	0	0	0	1	0	0	0	16581	1464	51	3	3701	3	TRIP11	14	92472038	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	692067	92472038	14877502	541	36421											
ITPK1	3705	broad.mit.edu	37	chr14	93424683	93424683	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtggctggatggcgttcAggccctcctggttgaacacg	6	9	16	10	2	1	1	1	1	0	0	2	2	2	2	2	6	1	3	2	6	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:93424683A>C	uc001ybg.2	-	8	822	c.533T>G	c.(532-534)CTG>CGG	p.L178R	ITPK1_uc001ybe.2_Missense_Mutation_p.L178R|ITPK1_uc001ybf.2_Missense_Mutation_p.L59R|ITPK1_uc001ybh.2_Missense_Mutation_p.L178R	NM_014216	NP_055031	Q13572	ITPK1_HUMAN	inositol 1,3,4-triphosphate 5/6 kinase isoform	178	ATP-grasp.				blood coagulation|inositol trisphosphate metabolic process|signal transduction	cytosol	ATP binding|hydrolase activity|inositol tetrakisphosphate 1-kinase activity|inositol-1,3,4-trisphosphate 5/6-kinase activity|isomerase activity|ligase activity|magnesium ion binding				0		all_cancers(154;0.077)|all_epithelial(191;0.247)		Epithelial(152;0.124)|all cancers(159;0.169)		GATGGCGTTCAGGCCCTCCTG	0.557													19	49					0	0	0.00278	0	0		C	93424683	C	C	93424683	3	2	48	1	0	0	0	0	1	0	0	0	7932	188	7	5	775	5	ITPK1	14	93424683	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	952645	93424683	13924857	542	36422											
FAM181A	90050	broad.mit.edu	37	chr14	94395175	94395175	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcccctgggacctgagactAccctggtgtccatgtctcca	7	9	10	15	0	1	1	0	1	1	1	3	3	2	2	6	2	2	0	6	2	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:94395175A>G	uc001ybz.1	+	3	1037	c.730A>G	c.(730-732)ACC>GCC	p.T244A	C14orf86_uc001yby.2_5'Flank|FAM181A_uc010aus.1_Missense_Mutation_p.T182A|FAM181A_uc001yca.1_Missense_Mutation_p.T182A	NM_138344	NP_612353	Q8N9Y4	F181A_HUMAN	hypothetical protein LOC90050	244											0						ACCTGAGACTACCCTGGTGTC	0.627													13	19					0	0	0.006122	0	0		G	94395175	G	G	94395175	3	3	48	1	0	0	0	0	1	0	0	0	5519	391	14	3	736	3	FAM181A	14	94395175	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	970492	94395175	12954365	543	36423											
C14orf49	161176	broad.mit.edu	37	chr14	95922000	95922000	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtgttccgaatgacacccGcagactgctcctccagcgtc	8	8	10	15	3	0	2	0	1	0	1	4	3	3	2	4	1	2	3	4	1	1	1	rs143391386		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:95922000G>A	uc001yei.3	-	5	866	c.851C>T	c.(850-852)GCG>GTG	p.A284V	C14orf49_uc010avi.2_Missense_Mutation_p.A284V|C14orf49_uc001yej.1_Missense_Mutation_p.A284V	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	284	Spectrin 1.|Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		AATGACACCCGCAGACTGCTC	0.567													26	116					0	0	0.008361	0	0		A	95922000	A	A	95922000	3	1	48	1	0	0	0	0	1	0	0	0	1779	1087	38	1	2128	1	C14orf49	14	95922000	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1526825	95922000	11427540	544	36424											
EML1	2009	broad.mit.edu	37	chr14	100363543	100363543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttccgacgggagagaccGtctacttcatcgcatccgtg	7	10	11	13	5	2	1	1	0	1	1	5	4	4	2	3	1	2	2	3	1	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:100363543G>A	uc001ygs.2	+	7	808	c.739G>A	c.(739-741)GTC>ATC	p.V247I	EML1_uc010avt.1_Missense_Mutation_p.V234I|EML1_uc010tww.1_Missense_Mutation_p.V235I|EML1_uc001ygq.2_Missense_Mutation_p.V266I|EML1_uc001ygr.2_Missense_Mutation_p.V266I	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	247						cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				GGGAGAGACCGTCTACTTCAT	0.488													31	48					0	0	0.012213	0	0		A	100363543	A	A	100363543	3	1	48	1	0	0	0	0	1	0	0	0	5104	1145	40	1	826	1	EML1	14	100363543	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4441543	100363543	6985997	545	36425											
CDC42BPB	9578	broad.mit.edu	37	chr14	103430922	103430922	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatctccgcctccagggcCgactgcagctccagccgcgc	5	5	12	19	5	1	0	0	0	1	0	4	2	3	1	6	2	3	2	6	2	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr14:103430922C>T	uc001ymi.1	-	19	2875	c.2643G>A	c.(2641-2643)TCG>TCA	p.S881S	CDC42BPB_uc001ymj.1_Silent_p.S9S	NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	881	Potential.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		CCTCCAGGGCCGACTGCAGCT	0.607													10	26					0	0	0.006214	0	0		T	103430922	T	T	103430922	2	4	48	1	0	0	0	0	0	0	0	1	3076	639	23	1		1	CDC42BPB	14	103430922	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3067379	103430922	3918618	546	36426											
OR4N4	283694	broad.mit.edu	37	chr15	22382800	22382800	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttgcacttccttggaggaGgggagggattactccttgtt	6	14	13	8	0	1	0	0	0	1	0	3	4	3	4	2	5	2	2	2	5	1	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:22382800G>T	uc001yuc.1	+	7	1309	c.328G>T	c.(328-330)GGG>TGG	p.G110W	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.G110W	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CCTTGGAGGAGGGGAGGGATT	0.522													4	176					0.00621372	0.00635739	0.006214	1	0		T	22382800	T	T	22382800	3	4	48	1	0	0	0	0	1	0	0	0	11097	1000	35	5	330	5	OR4N4	15	22382800	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08		22382800	80148592	547	36427											
HERC2	8924	broad.mit.edu	37	chr15	28408263	28408263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtaggcggtccccatgcCggaaagcaccgcggagagca	9	4	16	12	4	0	1	0	0	0	1	1	3	1	2	4	5	3	3	4	5	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:28408263C>T	uc001zbj.2	-	69	10829	c.10723G>A	c.(10723-10725)GGC>AGC	p.G3575S		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3575					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GTCCCCATGCCGGAAAGCACC	0.647													26	69					0	0	0.009535	0	0		T	28408263	T	T	28408263	3	4	48	1	0	0	0	0	1	0	0	0	7074	652	23	1	3881	1	HERC2	15	28408263	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	6025463	28408263	74123129	548	36428											
HERC2	8924	broad.mit.edu	37	chr15	28437159	28437159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgctgccgtcaatgagaCgggatgcctggttcacggag	7	8	15	11	4	2	1	2	1	0	1	3	4	2	3	2	3	2	3	2	3	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:28437159C>T	uc001zbj.2	-	53	8505	c.8399G>A	c.(8398-8400)CGT>CAT	p.R2800H	HERC2_uc001zbk.1_Missense_Mutation_p.R335H	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2800	DOC.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GTCAATGAGACGGGATGCCTG	0.597											OREG0022997	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	53	115					0	0	0.01441	0	0		T	28437159	T	T	28437159	3	4	48	1	0	0	0	0	1	0	0	0	7074	536	19	1	6269	1	HERC2	15	28437159	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	28896	28437159	74094233	549	36429											
CHRNA7	1139	broad.mit.edu	37	chr15	32460269	32460269	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtgtggagatgagcgcCgtggcgccgccgcccgccag	5	4	17	15	6	0	2	0	1	0	1	0	3	0	2	6	2	1	0	6	2	0	0	rs150888391		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:32460269C>T	uc001zft.2	+	10	1191	c.1119C>T	c.(1117-1119)GCC>GCT	p.A373A	uc001zfv.1_Intron|CHRNA7_uc010baf.2_Silent_p.A192A|CHRNA7_uc010bak.2_Silent_p.A288A	NM_000746	NP_000737	P36544	ACHA7_HUMAN	cholinergic receptor, nicotinic, alpha 7	373	Cytoplasmic (Potential).				activation of MAPK activity|calcium ion transport|cellular calcium ion homeostasis|memory|negative regulation of tumor necrosis factor production|positive regulation of angiogenesis|positive regulation of cell proliferation|response to hypoxia|response to nicotine	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|beta-amyloid binding|chloride channel regulator activity|nicotinic acetylcholine-activated cation-selective channel activity|protein homodimerization activity|toxin binding			ovary(1)	1		all_lung(180;6.35e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)	Nicotine(DB00184)|Varenicline(DB01273)	AGATGAGCGCCGTGGCGCCGC	0.701													9	47					0	0	0.006214	0	0		T	32460269	T	T	32460269	2	4	48	1	0	0	0	0	0	0	0	1	3391	639	23	1		1	CHRNA7	15	32460269	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4023110	32460269	70071123	550	36430											
MEIS2	4212	broad.mit.edu	37	chr15	37184485	37184485	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgggtagggggtcctccGtgcatcatcatggctgggtg	4	10	19	8	1	2	0	2	0	0	0	4	0	4	0	2	6	1	3	2	6	1	1	rs139991974		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:37184485G>A	uc001zjr.2	-	12	2360	c.1323C>T	c.(1321-1323)CAC>CAT	p.H441H	MEIS2_uc001zjl.2_3'UTR|MEIS2_uc010ucj.1_Silent_p.H421H|MEIS2_uc001zjm.2_3'UTR|MEIS2_uc001zjn.2_3'UTR|MEIS2_uc001zjo.2_3'UTR|MEIS2_uc001zjp.2_3'UTR|MEIS2_uc001zjs.2_Silent_p.H434H|MEIS2_uc001zju.2_3'UTR|MEIS2_uc001zjt.2_Silent_p.H434H|MEIS2_uc001zjj.2_Silent_p.H137H|MEIS2_uc001zjk.2_Silent_p.H130H	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	441					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		GGGGTCCTCCGTGCATCATCA	0.522													108	269					0	0	0.01441	0	0		A	37184485	A	A	37184485	2	1	48	1	0	0	0	0	0	0	0	1	9486	1136	40	1		1	MEIS2	15	37184485	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4724216	37184485	65346907	551	36431											
SPRED1	161742	broad.mit.edu	37	chr15	38614539	38614539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacaagaagtttggtcttaCgtttcaaagtcctgctgatg	10	14	10	7	1	2	3	1	2	1	1	3	3	3	3	1	1	2	3	1	1	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:38614539C>T	uc001zka.3	+	3	640	c.305C>T	c.(304-306)ACG>ATG	p.T102M		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	102	WH1.				inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		TTTGGTCTTACGTTTCAAAGT	0.368									Legius_syndrome				19	79					0	0	0.00278	0	0		T	38614539	T	T	38614539	3	4	48	1	0	0	0	0	1	0	0	0	15117	536	19	1	315	1	SPRED1	15	38614539	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1430054	38614539	63916853	552	36432											
EIF2AK4	440275	broad.mit.edu	37	chr15	40322596	40322596	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagcaacagtggttcccaTtgtgagtgtgctagccccgg	7	10	14	10	1	0	1	0	1	0	0	1	2	1	2	3	3	4	3	3	3	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:40322596T>C	uc001zkm.1	+	35	4648	c.4598T>C	c.(4597-4599)ATT>ACT	p.I1533T	EIF2AK4_uc010bbj.1_Missense_Mutation_p.I1234T|EIF2AK4_uc001zkn.1_Missense_Mutation_p.I633T|EIF2AK4_uc001zko.1_Missense_Mutation_p.I414T|EIF2AK4_uc010bbk.1_RNA	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	1533					translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		GTGGTTCCCATTGTGAGTGTG	0.468											OREG0023054	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	22					0	0	0.00308	0	0		C	40322596	C	C	40322596	3	2	48	1	0	0	0	0	1	0	0	0	5005	1493	52	3	4736	3	EIF2AK4	15	40322596	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	1708057	40322596	62208796	553	36433											
CASC5	57082	broad.mit.edu	37	chr15	40937929	40937929	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaaagtcttcactcaccaaGgaaaagtggctctgtatggc	12	10	9	10	0	4	0	2	0	2	0	4	1	4	1	1	3	0	2	1	3	6	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:40937929G>T	uc010bbs.1	+	17	6204	c.6043G>T	c.(6043-6045)GGA>TGA	p.G2015*	CASC5_uc010bbt.1_Nonsense_Mutation_p.G1989*	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	2015	Necessary for kinetochore localization and for interaction with NSL1 and DSN1.|Potential.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		CACTCACCAAGGAAAAGTGGC	0.363													4	20					0.00909568	0.00928452	0.009096	1	0		T	40937929	T	T	40937929	4	4	48	1	0	0	0	0	0	1	0	0	2666	1001	35	5	6105	5	CASC5	15	40937929	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	615333	40937929	61593463	554	36434											
MAPKBP1	23005	broad.mit.edu	37	chr15	42106789	42106789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaatgccaggtatccagacaCcattgccttgacctttgatc	10	11	8	12	0	0	3	0	2	0	1	2	4	1	3	5	1	2	1	5	1	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:42106789C>T	uc001zok.3	+	11	1326	c.1040C>T	c.(1039-1041)ACC>ATC	p.T347I	MAPKBP1_uc001zoj.3_Missense_Mutation_p.T341I|MAPKBP1_uc010bcj.2_Intron|MAPKBP1_uc010bci.2_Missense_Mutation_p.T341I|MAPKBP1_uc010udb.1_Missense_Mutation_p.T229I|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_Intron	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	347	WD 5.									central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		TATCCAGACACCATTGCCTTG	0.498													43	129					0	0	0.01441	0	0		T	42106789	T	T	42106789	3	4	48	1	0	0	0	0	1	0	0	0	9310	507	18	4	1078	4	MAPKBP1	15	42106789	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1168860	42106789	60424603	555	36435											
MAPKBP1	23005	broad.mit.edu	37	chr15	42111819	42111819	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccagcccagctttgcccCgaagcctgtcccactgggag	6	7	10	18	1	0	0	0	0	0	0	2	2	2	1	7	1	4	1	7	1	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:42111819C>T	uc001zok.3	+	23	2756	c.2470C>T	c.(2470-2472)CGA>TGA	p.R824*	MAPKBP1_uc001zoj.3_Nonsense_Mutation_p.R818*|MAPKBP1_uc010bcj.2_Nonsense_Mutation_p.R325*|MAPKBP1_uc010bci.2_Nonsense_Mutation_p.R818*|MAPKBP1_uc010udb.1_Nonsense_Mutation_p.R657*|MAPKBP1_uc010bck.2_Nonsense_Mutation_p.R35*|MAPKBP1_uc010bcl.2_Nonsense_Mutation_p.R325*	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	824										central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		AGCTTTGCCCCGAAGCCTGTC	0.612													6	123					0	0	0.00308	0	0		T	42111819	T	T	42111819	4	4	48	1	0	0	0	0	0	1	0	0	9310	644	23	1	2556	1	MAPKBP1	15	42111819	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	5030	42111819	60419573	556	36436											
SPTBN5	51332	broad.mit.edu	37	chr15	42150833	42150833	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgttggtgcatgctcgcGtccagctccgcctggaaatt	5	12	12	12	3	0	0	0	0	0	0	3	1	2	1	3	2	4	5	3	2	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:42150833G>A	uc001zos.2	-	49	8421	c.8088C>T	c.(8086-8088)GAC>GAT	p.D2696D		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	2731	Spectrin 24.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		GCATGCTCGCGTCCAGCTCCG	0.617													4	21					0	0	0.001168	0	0		A	42150833	A	A	42150833	2	1	48	1	0	0	0	0	0	0	0	1	15147	1136	40	1		1	SPTBN5	15	42150833	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	39014	42150833	60380559	557	36437											
UBR1	197131	broad.mit.edu	37	chr15	43317086	43317086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctattgcccgctcaaataCggtcctgagaatgtacatca	11	11	8	11	2	3	1	2	1	1	1	4	2	4	1	2	1	3	2	2	1	5	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:43317086C>T	uc001zqq.2	-	25	2746	c.2680G>A	c.(2680-2682)GTA>ATA	p.V894I	UBR1_uc010udk.1_Missense_Mutation_p.V894I	NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	894					cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			lung(1)	1		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		CGCTCAAATACGGTCCTGAGA	0.433													11	174					0	0	0.013537	0	0		T	43317086	T	T	43317086	3	4	48	1	0	0	0	0	1	0	0	0	16927	536	19	1	2661	1	UBR1	15	43317086	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1166253	43317086	59214306	558	36438											
TRPM7	54822	broad.mit.edu	37	chr15	50931657	50931658	+	Frame_Shift_Ins	INS	-	C	C																															catttctgttttcaatcactINSccccatggagctattccgat																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:50931657_50931658insC	uc001zyt.3	-	6	887_888	c.623_624insG	c.(622-624)GGAfs	p.G208fs	TRPM7_uc010bew.1_Frame_Shift_Ins_p.G208fs	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	208	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		TTTCAATCACTCCCCATGGAGC	0.327													38	59	---	---	---	---						.	C	50931658	C	C	50931657	7	5	48	1	0	1	1	0	0	0	0	0	16617	1538	54	0	5109	0	TRPM7	15	50931657	Frame_Shift_Ins	INS	-	TCGA-BR-7703-01A-11D-2053-08	7614571	50931657	51599735	559	36439											
GLDN	342035	broad.mit.edu	37	chr15	51634200	51634200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgcgccgcatatccgcgccGagagccatgacatgctgatg	8	6	12	15	6	0	3	0	2	0	1	1	4	1	3	5	0	2	2	5	0	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:51634200G>A	uc002aba.2	+	1	488	c.319G>A	c.(319-321)GAG>AAG	p.E107K	GLDN_uc010bez.1_Missense_Mutation_p.E107K	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	107	Extracellular (Potential).				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		TATCCGCGCCGAGAGCCATGA	0.721													26	75					0	0	0.012213	0	0		A	51634200	A	A	51634200	3	1	48	1	0	0	0	0	1	0	0	0	6449	1059	37	1	321	1	GLDN	15	51634200	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	702543	51634200	50897192	560	36440											
WDR72	256764	broad.mit.edu	37	chr15	54025291	54025291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatcatgatggcagtgatgCtgtggggaggggccttctgt	6	12	17	6	0	2	3	1	3	1	0	2	4	2	4	1	5	1	2	1	5	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:54025291C>T	uc002acj.2	-	2	98	c.56G>A	c.(55-57)AGC>AAC	p.S19N	WDR72_uc010bfi.1_Missense_Mutation_p.S19N	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	19	WD 1.									lung(1)|skin(1)	2				all cancers(107;0.0511)		GGCAGTGATGCTGTGGGGAGG	0.512													29	91					0	0	0.013726	0	0		T	54025291	T	T	54025291	3	4	48	1	0	0	0	0	1	0	0	0	17348	797	28	2	3328	2	WDR72	15	54025291	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2391091	54025291	48506101	561	36441											
UNC13C	440279	broad.mit.edu	37	chr15	54307129	54307129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catccacccaggaaggttttGattatgaaacaaacagtctt	14	11	7	9	0	1	2	0	2	1	0	2	3	2	3	2	2	2	1	2	2	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:54307129G>A	uc002ack.2	+	1	2029	c.2029G>A	c.(2029-2031)GAT>AAT	p.D677N		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	677					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GGAAGGTTTTGATTATGAAAC	0.403													27	41					0	0	0.00632	0	0		A	54307129	A	A	54307129	3	1	48	1	0	0	0	0	1	0	0	0	17012	1290	45	4	2031	4	UNC13C	15	54307129	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	281838	54307129	48224263	562	36442											
SLTM	79811	broad.mit.edu	37	chr15	59180672	59180672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attaaatctgttctgttggcGagagtagtcggatccatggc	9	13	12	7	2	2	1	0	0	2	1	4	3	3	2	1	3	0	3	1	3	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:59180672G>A	uc002afp.2	-	17	2375	c.2287C>T	c.(2287-2289)CGC>TGC	p.R763C	SLTM_uc002afn.2_Missense_Mutation_p.R305C|SLTM_uc002afo.2_Missense_Mutation_p.R745C|SLTM_uc002afq.2_Missense_Mutation_p.R332C|SLTM_uc010bgd.2_Missense_Mutation_p.R332C	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	763	Arg/Glu-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						TTCTGTTGGCGAGAGTAGTCG	0.428													33	56					0	0	0.004878	0	0		A	59180672	A	A	59180672	3	1	48	1	0	0	0	0	1	0	0	0	14779	1058	37	1	837	1	SLTM	15	59180672	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4873543	59180672	43350720	563	36443											
USP3	9960	broad.mit.edu	37	chr15	63882887	63882887	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggacattacacagcataCgcaactcacgaaggccgctg	12	7	9	13	3	2	0	1	0	1	0	2	2	2	1	1	2	4	3	1	2	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:63882887C>T	uc002amf.2	+	15	1554	c.1425C>T	c.(1423-1425)TAC>TAT	p.Y475Y	USP3_uc002amg.2_Silent_p.Y390Y|USP3_uc002amh.2_Silent_p.Y453Y|USP3_uc010uij.1_Silent_p.Y431Y|USP3_uc010uik.1_Silent_p.Y226Y|USP3_uc010bgs.2_Silent_p.Y458Y|USP3_uc002ami.2_Silent_p.Y306Y|uc002amj.2_Intron|uc002amk.2_Intron|uc002aml.2_Intron	NM_006537	NP_006528	Q9Y6I4	UBP3_HUMAN	ubiquitin thiolesterase 3	475					DNA repair|histone deubiquitination|mitotic cell cycle|regulation of protein stability|ubiquitin-dependent protein catabolic process	nuclear chromatin	histone binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(80;0.0187)		ACACAGCATACGCAACTCACG	0.443													33	77					0	0	0.006999	0	0		T	63882887	T	T	63882887	2	4	48	1	0	0	0	0	0	0	0	1	17086	547	19	1		1	USP3	15	63882887	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4702215	63882887	38648505	564	36444											
DIS3L	115752	broad.mit.edu	37	chr15	66607413	66607413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatccacgggatgaaggctcGaaaccgctcaattcatggag	13	7	11	10	3	2	1	2	1	0	0	4	4	3	3	2	3	1	2	2	3	4	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:66607413G>A	uc010ujm.1	+	7	869	c.854G>A	c.(853-855)CGA>CAA	p.R285Q	DIS3L_uc010ujl.1_5'UTR|DIS3L_uc002app.2_Missense_Mutation_p.R202Q|DIS3L_uc002apq.2_Missense_Mutation_p.R285Q|DIS3L_uc010bho.2_Missense_Mutation_p.R151Q	NM_001143688	NP_001137160	Q8TF46	DI3L1_HUMAN	DIS3 mitotic control homolog (S.	285					rRNA catabolic process	cytoplasm|exosome (RNase complex)	exonuclease activity|protein binding|ribonuclease activity|RNA binding			ovary(2)	2						ATGAAGGCTCGAAACCGCTCA	0.483													5	104					0	0	0.001168	0	0		A	66607413	A	A	66607413	3	1	48	1	0	0	0	0	1	0	0	0	4542	1058	37	1	880	1	DIS3L	15	66607413	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2724526	66607413	35923979	565	36445											
PML	5371	broad.mit.edu	37	chr15	74337044	74337044	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagtgctttgcctccctgCagcccctggtgcaggcagct	4	10	12	15	0	0	0	0	0	0	0	1	0	1	0	4	2	7	6	4	2	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:74337044C>T	uc002awv.2	+	9	2484	c.2344C>T	c.(2344-2346)CAG>TAG	p.Q782*	PML_uc002awu.2_Nonsense_Mutation_p.Q734*|PML_uc010ule.1_Nonsense_Mutation_p.Q343*	NM_033238	NP_150241	P29590	PML_HUMAN	promyelocytic leukemia protein isoform 1	782					cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction resulting in induction of apoptosis|endoplasmic reticulum calcium ion homeostasis|induction of apoptosis|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|maintenance of protein location in nucleus|negative regulation of angiogenesis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of mitotic cell cycle|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of telomerase activity|negative regulation of telomere maintenance via telomerase|negative regulation of transcription, DNA-dependent|negative regulation of translation in response to oxidative stress|PML body organization|PML body organization|positive regulation of defense response to virus by host|positive regulation of histone deacetylation|protein complex assembly|protein stabilization|protein targeting|regulation of calcium ion transport into cytosol|regulation of protein phosphorylation|response to hypoxia|response to virus|transcription, DNA-dependent	cytoplasm|cytosol|early endosome membrane|extrinsic to endoplasmic reticulum membrane|insoluble fraction|nuclear matrix|nuclear membrane|nucleolus|nucleus|PML body	cobalt ion binding|DNA binding|protein binding|protein binding|protein heterodimerization activity|protein homodimerization activity|SUMO binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding|zinc ion binding			central_nervous_system(2)|kidney(2)|breast(1)	5						TGCCTCCCTGCAGCCCCTGGT	0.682			T	RARA|PAX5	APL|ALL								4	26					0	0	0.009096	0	0		T	74337044	T	T	74337044	4	4	48	1	0	0	0	0	0	1	0	0	12154	711	25	2	3395	2	PML	15	74337044	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	7729631	74337044	28194348	566	36446											
KIAA1199	57214	broad.mit.edu	37	chr15	81234667	81234667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacctctggaacgacttcGcttacattgaagtaagtgcc	10	11	8	12	2	1	1	0	1	1	0	3	3	2	2	3	1	3	2	3	1	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:81234667G>A	uc002bfw.1	+	26	3948	c.3688G>A	c.(3688-3690)GCT>ACT	p.A1230T	KIAA1199_uc010unn.1_Missense_Mutation_p.A1230T	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	1230										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GAACGACTTCGCTTACATTGA	0.478													16	44					0	0	0.007413	0	0		A	81234667	A	A	81234667	3	1	48	1	0	0	0	0	1	0	0	0	8229	1087	38	1	3786	1	KIAA1199	15	81234667	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	6897623	81234667	21296725	567	36447											
TMC3	342125	broad.mit.edu	37	chr15	81627235	81627235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgttgttttggggtgtgcccGagtgcgctgaggacagctgg	4	11	18	8	3	0	1	0	1	0	0	0	3	0	2	1	4	3	4	1	4	0	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:81627235G>A	uc002bgo.1	-	21	2285	c.2285C>T	c.(2284-2286)TCG>TTG	p.S762L	TMC3_uc010blr.1_RNA	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	762	Cytoplasmic (Potential).					integral to membrane				ovary(1)|liver(1)	2						GGGTGTGCCCGAGTGCGCTGA	0.587													12	56					0	0	0.001855	0	0		A	81627235	A	A	81627235	3	1	48	1	0	0	0	0	1	0	0	0	16011	1059	37	1	1025	1	TMC3	15	81627235	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	392568	81627235	20904157	568	36448											
AKAP13	11214	broad.mit.edu	37	chr15	86278855	86278855	+	Frame_Shift_Del	DEL	A	-	-																															acggaatcagatagtggcctAaaaaaggtatttctctttaa																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:86278855delA	uc002blv.1	+	32	7676	c.7506delA	c.(7504-7506)CTAfs	p.L2502fs	AKAP13_uc002blu.1_Frame_Shift_Del_p.L2506fs|AKAP13_uc002blw.1_Frame_Shift_Del_p.L967fs|AKAP13_uc002blx.1_Frame_Shift_Del_p.L747fs	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2502	Interaction with ESR1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						ATAGTGGCCTAAAAAAGGTAT	0.358													26	40	---	---	---	---						.	-	86278855	-	-	86278855	7	5	48	1	0	1	0	1	0	0	0	0	449	349	13	0	7698	0	AKAP13	15	86278855	Frame_Shift_Del	DEL	A	TCGA-BR-7703-01A-11D-2053-08	4651620	86278855	16252537	569	36449											
DET1	55070	broad.mit.edu	37	chr15	89074847	89074847	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagtgggtacctgccttGcctgaactgatccgccggcg	5	9	13	14	3	0	2	0	2	0	0	1	2	1	2	6	2	5	1	6	2	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:89074847G>A	uc002bmr.2	-	2	242	c.90C>T	c.(88-90)GGC>GGT	p.G30G	DET1_uc002bmp.3_RNA|DET1_uc010bnk.2_RNA|DET1_uc002bmq.2_Silent_p.G41G	NM_001144074	NP_001137546	Q7L5Y6	DET1_HUMAN	de-etiolated 1 isoform 2	30						nucleus				lung(1)|pancreas(1)	2	Lung NSC(78;0.105)|all_lung(78;0.182)		BRCA - Breast invasive adenocarcinoma(143;0.188)			TACCTGCCTTGCCTGAACTGA	0.478													40	109					0	0	0.01441	0	0		A	89074847	A	A	89074847	2	1	48	1	0	0	0	0	0	0	0	1	4456	1306	46	2		2	DET1	15	89074847	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2795992	89074847	13456545	570	36450											
IQGAP1	8826	broad.mit.edu	37	chr15	91040462	91040462	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacgatgttatctttcaacAggtttaaaaatgttatattt	13	19	5	4	1	2	0	1	0	1	0	2	1	2	0	0	1	2	3	0	1	8	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:91040462A>G	uc002bpl.1	+	37	4853	c.4752_splice	c.e37-2	p.Q1584_splice	IQGAP1_uc010uqg.1_Splice_Site_p.Q205_splice	NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1						energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			ATCTTTCAACAGGTTTAAAAA	0.328													3	19					0	0	0.004672	0	0		G	91040462	G	G	91040462	5	3	48	1	0	0	0	0	0	0	1	0	7830	202	7	3	4896	3	IQGAP1	15	91040462	Splice_Site	SNP	A	TCGA-BR-7703-01A-11D-2053-08	1965615	91040462	11490930	571	36451											
MCTP2	55784	broad.mit.edu	37	chr15	94901733	94901733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgtaagagtgcaaatcCgcagtggcaggaacagtttg	12	9	13	7	1	0	1	0	0	0	1	1	2	1	2	1	2	2	5	1	2	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:94901733C>T	uc002btj.2	+	9	1258	c.1193C>T	c.(1192-1194)CCG>CTG	p.P398L	MCTP2_uc010urg.1_Intron|MCTP2_uc002bti.2_Missense_Mutation_p.P398L|MCTP2_uc010boj.2_Missense_Mutation_p.P127L|MCTP2_uc010bok.2_Missense_Mutation_p.P398L|MCTP2_uc002btk.3_Intron|MCTP2_uc002btl.2_Intron	NM_018349	NP_060819	Q6DN12	MCTP2_HUMAN	multiple C2 domains, transmembrane 2 isoform 1	398	C2 2.				calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(78;0.0821)|all_lung(78;0.148)		BRCA - Breast invasive adenocarcinoma(143;0.0323)|OV - Ovarian serous cystadenocarcinoma(32;0.0593)			AGTGCAAATCCGCAGTGGCAG	0.378													6	65					0	0	0.001168	0	0		T	94901733	T	T	94901733	3	4	48	1	0	0	0	0	1	0	0	0	9419	652	23	1	1227	1	MCTP2	15	94901733	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3861271	94901733	7629659	572	36452											
MEF2A	4205	broad.mit.edu	37	chr15	100250898	100250898	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcaactcgccaggaatgCtgtcgctgggacaggtgtcg	7	9	14	11	3	1	0	1	0	0	0	4	2	1	2	1	3	2	3	1	3	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr15:100250898C>T	uc010urw.1	+	10	1434	c.1075C>T	c.(1075-1077)CTG>TTG	p.L359L	MEF2A_uc010urv.1_Silent_p.L289L|MEF2A_uc010bos.2_Silent_p.L349L|MEF2A_uc002bvf.2_Silent_p.L351L|MEF2A_uc002bve.2_Silent_p.L357L|MEF2A_uc002bvg.2_Silent_p.L349L|MEF2A_uc002bvi.2_Silent_p.L349L|MEF2A_uc010bot.2_Silent_p.L281L	NM_005587	NP_005578	Q02078	MEF2A_HUMAN	myocyte enhancer factor 2A isoform 1	359					apoptosis|BMK cascade|cardiac conduction|cellular response to calcium ion|dendrite morphogenesis|innate immune response|mitochondrial genome maintenance|mitochondrion distribution|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|ventricular cardiac myofibril development	nuclear chromatin|nucleoplasm	activating transcription factor binding|histone acetyltransferase binding|histone deacetylase binding|protein heterodimerization activity|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|SMAD binding			ovary(1)	1	Lung NSC(78;0.00335)|all_lung(78;0.00659)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00085)			GCCAGGAATGCTGTCGCTGGG	0.527													8	18					0	0	0.00308	0	0		T	100250898	T	T	100250898	2	4	48	1	0	0	0	0	0	0	0	1	9473	796	28	2		2	MEF2A	15	100250898	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	5349165	100250898	2280494	573	36453											
RHOT2	89941	broad.mit.edu	37	chr16	720944	720944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctggaggacgtgaagaCggtggtgtgcaggaacgtgg	8	6	20	7	3	0	2	0	1	0	1	0	5	0	5	1	7	2	1	1	7	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:720944C>T	uc002cip.2	+	10	759	c.692C>T	c.(691-693)ACG>ATG	p.T231M	RHOT2_uc002ciq.2_Missense_Mutation_p.T124M|RHOT2_uc010bqy.2_Translation_Start_Site	NM_138769	NP_620124	Q8IXI1	MIRO2_HUMAN	ras homolog gene family, member T2	231	Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			pancreas(1)	1		Hepatocellular(780;0.0218)				GACGTGAAGACGGTGGTGTGC	0.697													5	24					0	0	0.001168	0	0		T	720944	T	T	720944	3	4	48	1	0	0	0	0	1	0	0	0	13369	536	19	1	730	1	RHOT2	16	720944	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08		720944	89633809	574	36454											
CCDC78	124093	broad.mit.edu	37	chr16	773012	773012	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgtgcccgctcccgtTccagctctgcctggcatggg	3	9	13	16	2	1	0	0	0	1	0	3	0	3	0	4	2	4	6	4	2	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:773012T>C	uc002cjg.2	-	13	1313	c.1207A>G	c.(1207-1209)AAC>GAC	p.N403D	CCDC78_uc002cjf.2_Missense_Mutation_p.E253G|CCDC78_uc002cji.3_3'UTR|CCDC78_uc002cjj.3_3'UTR|CCDC78_uc002cjh.2_Missense_Mutation_p.E163G	NM_001031737	NP_001026907	A2IDD5	CCD78_HUMAN	coiled-coil domain containing 78	403										central_nervous_system(1)	1		Hepatocellular(780;0.0218)				CCGCTCCCGTTCCAGCTCTGC	0.647													15	38					0	0	0.00499	0	0		C	773012	C	C	773012	3	2	48	1	0	0	0	0	1	0	0	0	2855	1783	62	3	117	3	CCDC78	16	773012	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	52068	773012	89581741	575	36455											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1817234	1817234	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatggctgttgtgtacgAccgcgtgtggtgtggctaca	5	12	15	9	3	0	0	0	0	0	0	0	1	0	0	1	3	3	5	1	3	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:1817234A>G	uc002cmk.2	+	26	3290	c.3170A>G	c.(3169-3171)GAC>GGC	p.D1057G	MAPK8IP3_uc002cml.2_Missense_Mutation_p.D1051G|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.D1058G	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	1057					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						GTTGTGTACGACCGCGTGTGG	0.632													5	101					0	0	0.000602	0	0		G	1817234	G	G	1817234	3	3	48	1	0	0	0	0	1	0	0	0	9304	275	10	3	3288	3	MAPK8IP3	16	1817234	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	1044222	1817234	88537519	576	36456											
C16orf73	254528	broad.mit.edu	37	chr16	1889367	1889367	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactgagaaagacagatttAaagtccaaggagtttttgtt	16	12	9	4	0	0	3	0	1	0	3	1	5	1	4	1	1	1	2	1	1	5	5	rs145222212		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:1889367A>C	uc002cne.2	-	12	1225	c.1107T>G	c.(1105-1107)TTT>TTG	p.F369L	FAHD1_uc002cnd.2_3'UTR|FAHD1_uc010brz.2_3'UTR|C16orf73_uc010uvq.1_Missense_Mutation_p.F369L|C16orf73_uc010uvr.1_Missense_Mutation_p.F162L	NM_152764	NP_689977	Q8N635	CP073_HUMAN	hypothetical protein LOC254528 isoform 2	369					meiosis	cytoplasm					0						AGACAGATTTAAAGTCCAAGG	0.393													5	33					0	0	0.001168	0	0		C	1889367	C	C	1889367	3	2	48	1	0	0	0	0	1	0	0	0	1835	359	13	5	320	5	C16orf73	16	1889367	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	72133	1889367	88465386	577	36457											
E4F1	1877	broad.mit.edu	37	chr16	2285460	2285460	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggacaagtggcactgaaCaggccactgtgaccatggtg	11	6	14	10	0	0	2	0	2	0	0	0	3	0	3	2	4	1	1	2	4	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:2285460C>T	uc002cpm.2	+	14	2290	c.2242C>T	c.(2242-2244)CAG>TAG	p.Q748*	E4F1_uc010bsi.2_3'UTR|E4F1_uc010bsj.2_Nonsense_Mutation_p.Q571*|DNASE1L2_uc002cpn.2_5'Flank|DNASE1L2_uc002cpo.2_5'Flank|DNASE1L2_uc002cpp.2_5'Flank|DNASE1L2_uc002cpq.2_5'Flank	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	748					cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						TGGCACTGAACAGGCCACTGT	0.657													7	15					0	0	0.001984	0	0		T	2285460	T	T	2285460	4	4	48	1	0	0	0	0	0	1	0	0	4880	479	17	4	2296	4	E4F1	16	2285460	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	396093	2285460	88069293	578	36458											
A2BP1	54715	broad.mit.edu	37	chr16	7645563	7645563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatgcagggatttggtttcGtaactttcgaaaatagtgcc	10	13	11	7	2	0	0	0	0	0	0	2	2	0	1	1	2	3	4	1	2	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:7645563G>A	uc002cys.2	+	8	1469	c.481G>A	c.(481-483)GTA>ATA	p.V161I	A2BP1_uc010buf.1_Missense_Mutation_p.V161I|A2BP1_uc002cyr.1_Missense_Mutation_p.V160I|A2BP1_uc002cyt.2_Missense_Mutation_p.V161I|A2BP1_uc010uxz.1_Missense_Mutation_p.V204I|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Missense_Mutation_p.V161I|A2BP1_uc010uyb.1_Missense_Mutation_p.V161I|A2BP1_uc002cyw.2_Missense_Mutation_p.V181I|A2BP1_uc002cyy.2_Missense_Mutation_p.V181I|A2BP1_uc002cyx.2_Missense_Mutation_p.V181I|A2BP1_uc010uyc.1_Missense_Mutation_p.V181I	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	161	RRM.				mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		ATTTGGTTTCGTAACTTTCGA	0.443													42	98					0	0	0.01441	0	0		A	7645563	A	A	7645563	3	1	48	1	0	0	0	0	1	0	0	0	3	1145	40	1	590	1	A2BP1	16	7645563	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5360103	7645563	82709190	579	36459											
SNX29	92017	broad.mit.edu	37	chr16	12492337	12492338	+	Frame_Shift_Del	DEL	AG	-	-																															gagtcaaacgtccgaagaccAgagtttgtcggattttgaaa																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:12492337_12492338delAG	uc002dby.3	+	10	835_836	c.779_780delAG	c.(778-780)CAGfs	p.Q260fs		NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	260					cell communication		phosphatidylinositol binding			ovary(1)	1						TCCGAAGACCAGAGTTTGTCGG	0.475													34	77	---	---	---	---						.	-	12492338	-	-	12492337	7	5	48	1	0	1	0	1	0	0	0	0	14923	188	7	0	813	0	SNX29	16	12492337	Frame_Shift_Del	DEL	AG	TCGA-BR-7703-01A-11D-2053-08	4846774	12492337	77862416	580	36460											
CPPED1	55313	broad.mit.edu	37	chr16	12798506	12798506	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggatgaacttgtctgccaaCttcttccgagtggacttgct	7	14	10	10	1	2	1	0	1	2	0	3	4	3	3	2	2	4	1	2	2	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:12798506C>A	uc002dca.3	-	3	801	c.690G>T	c.(688-690)AAG>AAT	p.K230N	CPPED1_uc002dcb.3_Intron|CPPED1_uc002dbz.3_RNA	NM_018340	NP_060810	Q9BRF8	CPPED_HUMAN	calcineurin-like phosphoesterase domain	230				K -> E (in Ref. 2; BAA92034).			hydrolase activity|metal ion binding				0						TGTCTGCCAACTTCTTCCGAG	0.567													35	85					3.33393e-15	3.69741e-15	0.004878	1	0		A	12798506	A	A	12798506	3	1	48	1	0	0	0	0	1	0	0	0	3825	564	20	5	262	5	CPPED1	16	12798506	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	306169	12798506	77556247	581	36461											
CDR2	1039	broad.mit.edu	37	chr16	22358554	22358554	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcctgttcctcttggcacTtcttcagcaactcttcatac	7	15	5	14	0	5	0	2	0	3	0	7	0	7	0	2	1	3	3	2	1	2	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:22358554T>G	uc002dkn.2	-	5	1405	c.1097A>C	c.(1096-1098)AAG>ACG	p.K366T		NM_001802	NP_001793	Q01850	CDR2_HUMAN	cerebellar degeneration-related protein 2	366	Potential.					nucleus	protein binding			skin(1)	1				GBM - Glioblastoma multiforme(48;0.0188)		CTCTTGGCACTTCTTCAGCAA	0.572													17	65					0	0	0.006122	0	0		G	22358554	G	G	22358554	3	3	48	1	0	0	0	0	1	0	0	0	3175	1609	56	5	271	5	CDR2	16	22358554	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	9560048	22358554	67996199	582	36462											
HS3ST4	9951	broad.mit.edu	37	chr16	26146979	26146979	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaataaccatggagaagActccaagttactttgtgaca	15	9	9	8	0	0	3	0	1	0	2	1	4	1	3	2	2	2	2	2	2	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:26146979A>G	uc002dof.2	+	2	1173	c.781A>G	c.(781-783)ACT>GCT	p.T261A		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	261	Lumenal (Potential).|Substrate binding (By similarity).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		CATGGAGAAGACTCCAAGTTA	0.473													11	29					0	0	0.010729	0	0		G	26146979	G	G	26146979	3	3	48	1	0	0	0	0	1	0	0	0	7383	275	10	3	787	3	HS3ST4	16	26146979	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	3788425	26146979	64207774	583	36463											
MAZ	4150	broad.mit.edu	37	chr16	29821503	29821503	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggctccctctcgggggCggagggggtgcctgtgagct	2	9	20	10	2	1	1	0	1	1	0	3	2	2	2	2	6	2	2	2	6	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:29821503C>T	uc002dty.2	+	5	1553	c.1385C>T	c.(1384-1386)GCG>GTG	p.A462V	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAZ_uc002dtv.1_Missense_Mutation_p.R98W|MAZ_uc010vdx.1_Missense_Mutation_p.A439V|MAZ_uc002dtw.2_Silent_p.G116G|MAZ_uc002dtx.2_3'UTR|MAZ_uc010bzg.2_Missense_Mutation_p.A157V|MAZ_uc002dtz.1_3'UTR|MAZ_uc002dua.2_3'UTR|MAZ_uc010vdy.1_Missense_Mutation_p.A63V|uc002duc.1_RNA|PRRT2_uc002dud.2_5'Flank|PRRT2_uc002due.3_5'Flank|PRRT2_uc002duf.1_5'Flank	NM_002383	NP_002374	P56270	MAZ_HUMAN	MYC-associated zinc finger protein isoform 1	462					regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription|transcription initiation from RNA polymerase II promoter	nucleus	DNA binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1						CTCTCGGGGGCGGAGGGGGTG	0.473													5	6					0	0	0.000602	0	0		T	29821503	T	T	29821503	3	4	48	1	0	0	0	0	1	0	0	0	9358	768	27	1	1610	1	MAZ	16	29821503	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3674524	29821503	60533250	584	36464											
CORO1A	11151	broad.mit.edu	37	chr16	30198745	30198745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacccggcccgtgcgtgcaGtgttcgtgtcggaggggaag	5	7	19	10	5	0	0	0	0	0	0	2	3	0	3	2	5	2	2	2	5	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:30198745G>A	uc002dww.2	+	6	801	c.679G>A	c.(679-681)GTG>ATG	p.V227M	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|CORO1A_uc010bzq.2_Missense_Mutation_p.V227M|CORO1A_uc010bzr.2_Missense_Mutation_p.V227M|CORO1A_uc002dwx.2_Missense_Mutation_p.V121M|CORO1A_uc002dwy.1_Missense_Mutation_p.V71M|LOC606724_uc002dwz.1_5'Flank	NM_007074	NP_009005	P31146	COR1A_HUMAN	coronin, actin binding protein, 1A	227	WD 5.				cell-substrate adhesion|innate immune response|leukocyte chemotaxis|negative regulation of actin nucleation|phagolysosome assembly|positive chemotaxis|regulation of cell shape|uropod organization	actin filament|cortical actin cytoskeleton|lamellipodium|phagocytic cup|phagocytic vesicle membrane	actin filament binding|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein homodimerization activity				0						CGTGCGTGCAGTGTTCGTGTC	0.642													15	33					0	0	0.006122	0	0		A	30198745	A	A	30198745	3	1	48	1	0	0	0	0	1	0	0	0	3756	1029	36	4	697	4	CORO1A	16	30198745	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	377242	30198745	60156008	585	36465											
ZNF689	115509	broad.mit.edu	37	chr16	30616501	30616501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgccggagtgtgcccgcCggtgactgaccagcagggat	7	6	15	13	4	0	2	0	2	0	0	1	4	0	4	4	3	2	1	4	3	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:30616501C>T	uc002dyx.2	-	3	907	c.587G>A	c.(586-588)CGG>CAG	p.R196Q	ZNF689_uc010bzy.2_5'UTR	NM_138447	NP_612456	Q96CS4	ZN689_HUMAN	zinc finger protein HIT-39	196	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			GTGTGCCCGCCGGTGACTGAC	0.592													16	33					0	0	0.007413	0	0		T	30616501	T	T	30616501	3	4	48	1	0	0	0	0	1	0	0	0	18119	652	23	1	919	1	ZNF689	16	30616501	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	417756	30616501	59738252	586	36466											
RNF40	9810	broad.mit.edu	37	chr16	30777494	30777494	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactccttagtttgagatgcTgaatgcagagttagaggaaa	13	11	11	6	0	0	4	0	2	0	3	1	6	1	5	1	1	2	4	1	1	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:30777494T>A	uc002dzq.2	+	9	1127	c.1004T>A	c.(1003-1005)CTG>CAG	p.L335Q	RNF40_uc010caa.2_Missense_Mutation_p.L335Q|RNF40_uc010cab.2_Intron|RNF40_uc010vfa.1_Intron|RNF40_uc002dzr.2_Missense_Mutation_p.L335Q|RNF40_uc010vfb.1_Intron|RNF40_uc010vfc.1_5'Flank	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	335	Potential.				histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			TTTGAGATGCTGAATGCAGAG	0.587													29	46					0	0	0.004878	0	0		A	30777494	A	A	30777494	3	1	48	1	0	0	0	0	1	0	0	0	13518	1580	55	5	1034	5	RNF40	16	30777494	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	160993	30777494	59577259	587	36467											
ZNF629	23361	broad.mit.edu	37	chr16	30794713	30794713	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtatggcttctcgcccgcGtggatcttctggtgcttgag	3	13	14	11	4	3	1	0	1	3	0	4	2	3	2	1	4	1	3	1	4	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:30794713G>A	uc002dzs.1	-	3	1144	c.936C>T	c.(934-936)CAC>CAT	p.H312H		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	312	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			TCTCGCCCGCGTGGATCTTCT	0.637													5	86					0	0	0.001168	0	0		A	30794713	A	A	30794713	2	1	48	1	0	0	0	0	0	0	0	1	18078	1136	40	1		1	ZNF629	16	30794713	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	17219	30794713	59560040	588	36468											
ZNF629	23361	broad.mit.edu	37	chr16	30795016	30795016	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccagctgaagcacttgccGcagtcggggcacttgtaggg	7	8	14	12	2	0	1	0	1	0	0	2	1	1	1	2	3	3	5	2	3	2	3	rs150923812	by1000genomes	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:30795016G>A	uc002dzs.1	-	3	841	c.633C>T	c.(631-633)TGC>TGT	p.C211C		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	211	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			AGCACTTGCCGCAGTCGGGGC	0.642													8	35					0	0	0.00308	0	0		A	30795016	A	A	30795016	2	1	48	1	0	0	0	0	0	0	0	1	18078	1079	38	1		1	ZNF629	16	30795016	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	303	30795016	59559737	589	36469											
LONP2	83752	broad.mit.edu	37	chr16	48304164	48304164	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggaggagtatgtgatcAgtctgacattcgaggacaca	12	10	12	7	1	2	2	1	2	1	0	3	6	2	5	0	3	0	1	0	3	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:48304164A>G	uc002efi.1	+	7	1309	c.1220A>G	c.(1219-1221)CAG>CGG	p.Q407R	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Missense_Mutation_p.Q363R	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	407					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						GTATGTGATCAGTCTGACATT	0.453													5	111					0	0	0.000602	0	0		G	48304164	G	G	48304164	3	3	48	1	0	0	0	0	1	0	0	0	8911	188	7	3	1246	3	LONP2	16	48304164	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	17509148	48304164	42050589	590	36470											
ZNF423	23090	broad.mit.edu	37	chr16	49670324	49670324	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgagccatcatcctcgccCggccggatattgtggtcccg	5	9	12	15	5	1	1	1	1	0	0	4	2	3	2	5	3	1	0	5	3	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:49670324C>T	uc002efs.2	-	5	3037	c.2739G>A	c.(2737-2739)CCG>CCA	p.P913P	ZNF423_uc010vgn.1_Silent_p.P796P	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	913					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				CATCCTCGCCCGGCCGGATAT	0.592													26	43					0	0	0.007291	0	0		T	49670324	T	T	49670324	2	4	48	1	0	0	0	0	0	0	0	1	17923	639	23	1		1	ZNF423	16	49670324	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1366160	49670324	40684429	591	36471											
ADCY7	113	broad.mit.edu	37	chr16	50338342	50338342	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggccctgaagatgcgggcGtcagtgcgcatgacccggta	7	6	16	12	5	1	3	1	2	0	1	1	3	1	3	2	3	2	2	2	3	2	1	rs139027886		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:50338342G>A	uc002egd.1	+	10	1708	c.1440G>A	c.(1438-1440)GCG>GCA	p.A480A	ADCY7_uc002egb.1_Silent_p.A480A|ADCY7_uc002egc.1_Silent_p.A480A	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	480	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	AGATGCGGGCGTCAGTGCGCA	0.687													7	40					0	0	0.001984	0	0		A	50338342	A	A	50338342	2	1	48	1	0	0	0	0	0	0	0	1	299	1132	40	1		1	ADCY7	16	50338342	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	668018	50338342	40016411	592	36472											
SNX20	124460	broad.mit.edu	37	chr16	50711346	50711346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgggtgcgggaggtcggggCcagtggctggtgcttcctgc	2	9	20	10	2	0	0	0	0	0	0	2	1	1	1	2	7	3	2	2	7	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:50711346C>T	uc002egk.2	-	2	265	c.92G>A	c.(91-93)GGC>GAC	p.G31D	SNX20_uc010vgp.1_Missense_Mutation_p.G31D|SNX20_uc002egi.3_Missense_Mutation_p.G31D	NM_182854	NP_878274	Q7Z614	SNX20_HUMAN	sorting nexin 20 isoform 1	31					cell communication|protein transport	endosome membrane|nucleus|plasma membrane	phosphatidylinositol binding|protein binding			ovary(1)	1						GAGGTCGGGGCCAGTGGCTGG	0.617													13	42					0	0	0.001855	0	0		T	50711346	T	T	50711346	3	4	48	1	0	0	0	0	1	0	0	0	14917	739	26	2	1013	2	SNX20	16	50711346	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	373004	50711346	39643407	593	36473											
GPR56	9289	broad.mit.edu	37	chr16	57690467	57690467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgctgggtgtgagaccGtcaggagagaaacccaaaca	13	5	14	9	1	1	2	1	1	0	2	1	5	1	3	2	2	3	2	2	2	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:57690467G>A	uc002emb.2	+	10	1397	c.1105G>A	c.(1105-1107)GTC>ATC	p.V369I	GPR56_uc002elz.1_Missense_Mutation_p.V199I|GPR56_uc002ema.1_Missense_Mutation_p.V194I|GPR56_uc002emc.2_Missense_Mutation_p.V369I|GPR56_uc002emf.2_Missense_Mutation_p.V369I|GPR56_uc010vhs.1_Missense_Mutation_p.V369I|GPR56_uc002emd.2_Missense_Mutation_p.V369I|GPR56_uc002eme.2_Missense_Mutation_p.V369I|GPR56_uc010vht.1_Missense_Mutation_p.V374I|GPR56_uc002emg.3_Missense_Mutation_p.V369I|GPR56_uc010vhu.1_Missense_Mutation_p.V194I	NM_005682	NP_005673	Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56 isoform a	369	GPS.|Extracellular (Potential).				brain development|cell adhesion|cell-cell signaling|neuropeptide signaling pathway	integral to plasma membrane	G-protein coupled receptor activity				0						GTGTGAGACCGTCAGGAGAGA	0.607													48	73					0	0	0.01441	0	0		A	57690467	A	A	57690467	3	1	48	1	0	0	0	0	1	0	0	0	6715	1145	40	1	1150	1	GPR56	16	57690467	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	6979121	57690467	32664286	594	36474											
GFOD2	81577	broad.mit.edu	37	chr16	67709273	67709273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcccctggaaggactggcGcaaggcctgcaccatgtaga	9	6	13	13	1	0	1	0	0	0	1	0	3	0	3	4	4	2	3	4	4	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:67709273G>A	uc002eub.2	-	3	1238	c.943C>T	c.(943-945)CGC>TGC	p.R315C	GFOD2_uc002eua.1_RNA|GFOD2_uc002euc.2_Missense_Mutation_p.R210C	NM_030819	NP_110446	Q3B7J2	GFOD2_HUMAN	glucose-fructose oxidoreductase domain	315						proteinaceous extracellular matrix	binding|oxidoreductase activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0151)|Epithelial(162;0.0505)|all cancers(182;0.242)		AAGGACTGGCGCAAGGCCTGC	0.677													7	79					0	0	0.004482	0	0		A	67709273	A	A	67709273	3	1	48	1	0	0	0	0	1	0	0	0	6359	1087	38	1	218	1	GFOD2	16	67709273	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	10018806	67709273	22645480	595	36475											
COG4	25839	broad.mit.edu	37	chr16	70542363	70542363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggttgttctgaacatgcCggaactgcaacataccacag	12	9	9	11	1	2	1	1	1	1	0	2	2	2	2	2	2	6	3	2	2	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:70542363C>T	uc002ezc.2	-	8	1018	c.1007G>A	c.(1006-1008)CGG>CAG	p.R336Q	COG4_uc002ezb.2_5'UTR|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Missense_Mutation_p.R336Q|COG4_uc002eze.2_Missense_Mutation_p.R30Q	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	332					Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)				CTGAACATGCCGGAACTGCAA	0.423													13	67					0	0	0.00245	0	0		T	70542363	T	T	70542363	3	4	48	1	0	0	0	0	1	0	0	0	3663	652	23	1	1410	1	COG4	16	70542363	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2833090	70542363	19812390	596	36476											
HYDIN	54768	broad.mit.edu	37	chr16	71054191	71054191	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttctttatggccaagggctgGtaatcaggtttcaggatact	9	14	11	7	0	3	0	2	0	1	0	3	1	3	1	1	5	1	3	1	5	4	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:71054191G>A	uc002ezr.2	-	22	3344	c.3216C>T	c.(3214-3216)TAC>TAT	p.Y1072Y		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	1072										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CCAAGGGCTGGTAATCAGGTT	0.408													13	24					0	0	0.00499	0	0		A	71054191	A	A	71054191	2	1	48	1	0	0	0	0	0	0	0	1	7483	1256	44	4		4	HYDIN	16	71054191	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	511828	71054191	19300562	597	36477											
CALB2	794	broad.mit.edu	37	chr16	71423676	71423676	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatattcaacagctcaccAactacagaaagagcgtcatg	16	8	7	10	1	3	3	3	1	0	2	3	3	3	3	1	0	5	1	1	0	6	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:71423676A>G	uc002faa.3	+	11	794	c.724A>G	c.(724-726)AAC>GAC	p.N242D	CALB2_uc010vme.1_RNA|CALB2_uc002fac.3_3'UTR	NM_001740	NP_001731	P22676	CALB2_HUMAN	calbindin 2 isoform 1	242	EF-hand 6.						calcium ion binding				0		Ovarian(137;0.125)				ACAGCTCACCAACTACAGAAA	0.542													67	134					0	0	0.01441	0	0		G	71423676	G	G	71423676	3	3	48	1	0	0	0	0	1	0	0	0	2577	130	5	3	766	3	CALB2	16	71423676	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	369485	71423676	18931077	598	36478											
PMFBP1	83449	broad.mit.edu	37	chr16	72184645	72184645	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcgatcttgtccccggcCaaggcgagttgctcctgcgc	5	8	14	14	4	1	0	0	0	1	0	3	3	3	0	4	3	2	2	4	3	1	2	rs146046061		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:72184645C>A	uc002fcc.3	-	5	670	c.498G>T	c.(496-498)TTG>TTT	p.L166F	PMFBP1_uc002fcd.2_Missense_Mutation_p.L166F|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.L21F	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	166	Potential.									ovary(2)	2		Ovarian(137;0.179)				TGTCCCCGGCCAAGGCGAGTT	0.493													5	95					1.024e-07	1.09981e-07	0.000602	1	0		A	72184645	A	A	72184645	3	1	48	1	0	0	0	0	1	0	0	0	12153	593	21	5	2653	5	PMFBP1	16	72184645	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	760969	72184645	18170108	599	36479											
ZFHX3	463	broad.mit.edu	37	chr16	72822363	72822363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcagcggggctgagatcGtggctgcagttgccgtgggg	4	8	21	8	3	0	1	0	1	0	1	1	2	0	1	1	6	3	5	1	6	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:72822363G>A	uc002fck.2	-	10	10485	c.9812C>T	c.(9811-9813)ACG>ATG	p.T3271M	ZFHX3_uc002fcl.2_Missense_Mutation_p.T2357M	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3271					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GGCTGAGATCGTGGCTGCAGT	0.602													31	45					0	0	0.010818	0	0		A	72822363	A	A	72822363	3	1	48	1	0	0	0	0	1	0	0	0	17659	1145	40	1	1303	1	ZFHX3	16	72822363	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	637718	72822363	17532390	600	36480											
ADAMTS18	170692	broad.mit.edu	37	chr16	77369762	77369762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtggatgggccggggccCgagctccccaaactttacgc	6	6	14	15	4	0	0	0	0	0	0	1	2	1	1	5	4	3	1	5	4	2	2	rs149189203	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:77369762C>T	uc002ffc.3	-	12	2169	c.1750G>A	c.(1750-1752)GGG>AGG	p.G584R	ADAMTS18_uc010chc.1_Missense_Mutation_p.G172R|ADAMTS18_uc002ffe.1_Missense_Mutation_p.G280R	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	584					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						GGCCGGGGCCCGAGCTCCCCA	0.587													61	78					0	0	0.01441	0	0		T	77369762	T	T	77369762	3	4	48	1	0	0	0	0	1	0	0	0	263	652	23	1	1963	1	ADAMTS18	16	77369762	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4547399	77369762	12984991	601	36481											
KCNG4	93107	broad.mit.edu	37	chr16	84270710	84270710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcaccagcttcccggccgCcaggaagctcacgatcaccc	10	4	9	18	3	2	0	2	0	0	0	3	2	3	1	5	2	3	3	5	2	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:84270710C>T	uc010voc.1	-	2	503	c.382G>A	c.(382-384)GCG>ACG	p.A128T	KCNG4_uc002fhu.1_Missense_Mutation_p.A128T	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	128	Helical; Name=Segment S1; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						TTCCCGGCCGCCAGGAAGCTC	0.637													4	26					0	0	0.000602	0	0		T	84270710	T	T	84270710	3	4	48	1	0	0	0	0	1	0	0	0	8046	739	26	2	1183	2	KCNG4	16	84270710	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	6900948	84270710	6084043	602	36482											
ZFPM1	161882	broad.mit.edu	37	chr16	88600773	88600773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgagcaagaagccgcggCgcccgctccccggagccccg	7	2	13	19	6	0	2	0	1	0	1	1	3	1	3	7	2	3	2	7	2	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:88600773C>T	uc002fkv.2	+	10	2440	c.2407C>T	c.(2407-2409)CGC>TGC	p.R803C		NM_153813	NP_722520	Q8IX07	FOG1_HUMAN	zinc finger protein, multitype 1	803					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|transcription factor binding|zinc ion binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0478)		GAAGCCGCGGCGCCCGCTCCC	0.488													3	7					0	0	0.009096	0	0		T	88600773	T	T	88600773	3	4	48	1	0	0	0	0	1	0	0	0	17682	768	27	1	2445	1	ZFPM1	16	88600773	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4330063	88600773	1753980	603	36483											
CBFA2T3	863	broad.mit.edu	37	chr16	88945788	88945788	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctccgtggtgatgagctCgtgcgctttgcgctccgcgt	3	11	14	13	7	0	2	0	2	0	0	3	2	2	2	2	1	3	4	2	1	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr16:88945788C>A	uc002fmm.1	-	11	1738	c.1552G>T	c.(1552-1554)GAG>TAG	p.E518*	CBFA2T3_uc002fml.1_Nonsense_Mutation_p.E432*|CBFA2T3_uc002fmk.1_Nonsense_Mutation_p.E17*	NM_005187	NP_005178	O75081	MTG16_HUMAN	myeloid translocation gene on chromosome 16	518	Potential.		E -> K (in a colorectal cancer sample; somatic mutation).		cell proliferation|granulocyte differentiation	Golgi membrane|nucleolus|nucleoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.E518K(1)		large_intestine(3)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(80;0.0275)		GTGATGAGCTCGTGCGCTTTG	0.657			T	RUNX1	AML								14	36					2.31682e-05	2.42937e-05	0.003163	1	0		A	88945788	A	A	88945788	4	1	48	1	0	0	0	0	0	1	0	0	2701	893	31	5	417	5	CBFA2T3	16	88945788	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	345015	88945788	1408965	604	36484											
ANKFY1	51479	broad.mit.edu	37	chr17	4082326	4082326	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggctgctgatggccacGtggatgggggttcttccttc	3	14	15	9	1	1	1	0	1	1	0	3	2	2	2	2	5	1	4	2	5	0	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:4082326G>A	uc002fxq.1	-	18	2462	c.2424C>T	c.(2422-2424)CAC>CAT	p.H808H	ANKFY1_uc002fxn.2_Silent_p.H850H|ANKFY1_uc002fxo.2_Silent_p.H809H|ANKFY1_uc002fxp.2_Silent_p.H807H|ANKFY1_uc010ckp.2_Silent_p.H750H	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	808	ANK 14.					endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						TGATGGCCACGTGGATGGGGG	0.448													5	132					0	0	0.000602	0	0		A	4082326	A	A	4082326	2	1	48	1	0	0	0	0	0	0	0	1	626	1136	40	1		1	ANKFY1	17	4082326	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08		4082326	77112884	605	36485											
MYBBP1A	10514	broad.mit.edu	37	chr17	4455891	4455891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcggctttgaggacctccgGcaggatctcctgcaatgtgg	6	10	14	11	2	1	1	0	1	1	0	4	3	2	3	3	5	1	3	3	5	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:4455891G>A	uc002fyb.3	-	6	654	c.592C>T	c.(592-594)CCG>TCG	p.P198S	MYBBP1A_uc002fxz.3_Missense_Mutation_p.P198S	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	198	Interaction with MYB (By similarity).				nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						AGGACCTCCGGCAGGATCTCC	0.552													10	30					0	0	0.003163	0	0		A	4455891	A	A	4455891	3	1	48	1	0	0	0	0	1	0	0	0	10026	1203	42	2	3518	2	MYBBP1A	17	4455891	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	373565	4455891	76739319	606	36486											
RNF167	26001	broad.mit.edu	37	chr17	4844271	4844272	+	Frame_Shift_Ins	INS	-	G	G																															gtggggagcggccccgacccINSgggggctcattcgagcggtg																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:4844271_4844272insG	uc002fzq.2	+	3	483_484	c.67_68insG	c.(67-69)CGGfs	p.R23fs	SLC25A11_uc002fzo.1_5'Flank|SLC25A11_uc002fzp.1_5'Flank|RNF167_uc002fzr.2_Frame_Shift_Ins_p.R23fs|RNF167_uc002fzs.2_Frame_Shift_Ins_p.R23fs|RNF167_uc002fzt.2_Frame_Shift_Ins_p.R23fs|RNF167_uc002fzu.2_Frame_Shift_Ins_p.R23fs|RNF167_uc002fzv.2_5'UTR|RNF167_uc002fzw.1_5'UTR|RNF167_uc002fzx.2_5'UTR|RNF167_uc002fzy.2_5'Flank	NM_015528	NP_056343	Q9H6Y7	RN167_HUMAN	ring finger protein 167 precursor	23					negative regulation of cell cycle|protein polyubiquitination	cytoplasm|endomembrane system|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						GGCCCCGACCCGGGGGCTCATT	0.653													25	34	---	---	---	---						.	G	4844272	G	G	4844271	7	5	48	1	0	1	1	0	0	0	0	0	13483	643	23	0	69	0	RNF167	17	4844271	Frame_Shift_Ins	INS	-	TCGA-BR-7703-01A-11D-2053-08	388380	4844271	76350939	607	36487											
WSCD1	23302	broad.mit.edu	37	chr17	6023799	6023799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtgtctgtgagcgaggagCggctgctctgcgtggagaac	7	8	17	9	4	2	2	0	1	2	1	2	5	2	3	0	3	5	2	0	3	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:6023799C>T	uc010cli.2	+	9	1925	c.1546C>T	c.(1546-1548)CGG>TGG	p.R516W	WSCD1_uc002gcn.2_Missense_Mutation_p.R516W|WSCD1_uc002gco.2_Missense_Mutation_p.R516W|WSCD1_uc010clj.2_Missense_Mutation_p.R207W	NM_015253	NP_056068	Q658N2	WSCD1_HUMAN	WSC domain containing 1	516						integral to membrane	sulfotransferase activity				0						GAGCGAGGAGCGGCTGCTCTG	0.657													17	46					0	0	0.006122	0	0		T	6023799	T	T	6023799	3	4	48	1	0	0	0	0	1	0	0	0	17432	759	27	1	1576	1	WSCD1	17	6023799	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1179528	6023799	75171411	608	36488											
ASGR1	432	broad.mit.edu	37	chr17	7077112	7077112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctcgcctcctccgagccCgtggccgtaccagtcgtccg	3	8	11	19	6	0	0	0	0	0	0	6	1	4	0	8	1	2	1	8	1	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:7077112C>T	uc002ges.3	-	9	1152	c.742G>A	c.(742-744)GGG>AGG	p.G248R	ASGR1_uc010clx.1_3'UTR	NM_001671	NP_001662	P07306	ASGR1_HUMAN	asialoglycoprotein receptor 1	248	Extracellular (Probable).|C-type lectin.				receptor-mediated endocytosis	integral to plasma membrane	asialoglycoprotein receptor activity|metal ion binding|sugar binding			breast(1)|central_nervous_system(1)	2						CCTCCGAGCCCGTGGCCGTAC	0.697													16	52					0	0	0.00278	0	0		T	7077112	T	T	7077112	3	4	48	1	0	0	0	0	1	0	0	0	1040	652	23	1	137	1	ASGR1	17	7077112	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1053313	7077112	74118098	609	36489											
TP53	7157	broad.mit.edu	37	chr17	7577523	7577523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtcttccagtgtgatgatgGtgaggatgggcctccggttc	6	12	15	8	1	1	3	0	3	1	0	4	4	3	4	3	4	0	1	3	4	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:7577523G>A	uc002gim.2	-	7	952	c.758C>T	c.(757-759)ACC>ATC	p.T253I	TP53_uc002gig.1_Missense_Mutation_p.T253I|TP53_uc002gih.2_Missense_Mutation_p.T253I|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.T121I|TP53_uc010cng.1_Missense_Mutation_p.T121I|TP53_uc002gii.1_Missense_Mutation_p.T121I|TP53_uc010cnh.1_Missense_Mutation_p.T253I|TP53_uc010cni.1_Missense_Mutation_p.T253I|TP53_uc002gij.2_Missense_Mutation_p.T253I|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.T160I|TP53_uc002gio.2_Missense_Mutation_p.T121I	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	253	|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		T -> A (in sporadic cancers; somatic mutation).|T -> S (in sporadic cancers; somatic mutation).|T -> I (in sporadic cancers; somatic mutation).|T -> P (in sporadic cancers; somatic mutation).|T -> N (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.T253S(5)|p.I251_T253delILT(4)|p.T253I(3)|p.T253P(3)|p.T253A(3)|p.L252_I254delLTI(3)|p.T253fs*91(2)|p.T253_I255del(2)|p.T253fs*11(2)|p.T253T(2)|p.L252_T253delLT(1)|p.?(1)|p.P250_T253delPILT(1)|p.T253del(1)|p.T253fs*92(1)|p.R249_T256delRPILTIIT(1)|p.I254fs*10(1)|p.T253N(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TGTGATGATGGTGAGGATGGG	0.582		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			35	43					0	0	0.007835	0	0		A	7577523	A	A	7577523	3	1	48	1	0	0	0	0	1	0	0	0	16407	1261	44	4	532	4	TP53	17	7577523	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	500411	7577523	73617687	610	36490											
DNAH2	146754	broad.mit.edu	37	chr17	7681676	7681676	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaggcacaggcaagacCgagaccgtcaaggacctggg	11	3	14	13	2	1	2	1	0	0	2	1	4	1	3	4	4	1	3	4	4	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:7681676C>T	uc002giu.1	+	34	5444	c.5430C>T	c.(5428-5430)ACC>ACT	p.T1810T		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1810	AAA 1 (By similarity).|ATP (Potential).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CAGGCAAGACCGAGACCGTCA	0.572													24	45					0	0	0.004656	0	0		T	7681676	T	T	7681676	2	4	48	1	0	0	0	0	0	0	0	1	4608	639	23	1		1	DNAH2	17	7681676	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	104153	7681676	73513534	611	36491											
GUCY2D	3000	broad.mit.edu	37	chr17	7907470	7907470	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctctgacctcaatctgcAgcaggtagacggtcccggga	8	7	12	14	2	3	2	1	1	2	1	4	3	4	3	3	3	2	3	3	3	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:7907470A>C	uc002gjt.2	+	3	1096	c.1022A>C	c.(1021-1023)CAG>CCG	p.Q341P		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	341	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				CTCAATCTGCAGCAGGTAGAC	0.632													6	17					0	0	0.001984	0	0		C	7907470	C	C	7907470	3	2	48	1	0	0	0	0	1	0	0	0	6913	188	7	5	1028	5	GUCY2D	17	7907470	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	225794	7907470	73287740	612	36492											
PER1	5187	broad.mit.edu	37	chr17	8053891	8053891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaccattgctgttggcatcgGtgtcatcggccaggctgggg	6	10	15	10	2	1	0	1	0	0	0	3	0	1	0	2	6	2	4	2	6	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:8053891G>A	uc002gkd.2	-	2	372	c.134C>T	c.(133-135)ACC>ATC	p.T45I	PER1_uc010vuq.1_RNA|PER1_uc010vur.1_Missense_Mutation_p.T29I|PER1_uc010vus.1_Missense_Mutation_p.T45I	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	45					circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						GTTGGCATCGGTGTCATCGGC	0.647			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					40	71					0	0	0.01441	0	0		A	8053891	A	A	8053891	3	1	48	1	0	0	0	0	1	0	0	0	11748	1261	44	4	3826	4	PER1	17	8053891	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	146421	8053891	73141319	613	36493											
PFAS	5198	broad.mit.edu	37	chr17	8170401	8170401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagcctgttggggagctgcGagccctctgggaggagacga	7	6	19	9	2	1	1	0	0	1	1	1	7	1	4	2	5	4	2	2	5	0	1	rs141025302	by1000genomes	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:8170401G>A	uc002gkr.2	+	24	3164	c.3023G>A	c.(3022-3024)CGA>CAA	p.R1008Q	PFAS_uc010vuv.1_Missense_Mutation_p.R584Q|PFAS_uc002gks.2_Missense_Mutation_p.R87Q	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	1008					'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding	p.R1008R(1)		ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GGGGAGCTGCGAGCCCTCTGG	0.642													11	20					0	0	0.010729	0	0		A	8170401	A	A	8170401	3	1	48	1	0	0	0	0	1	0	0	0	11773	1058	37	1	3113	1	PFAS	17	8170401	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	116510	8170401	73024809	614	36494											
MYH13	8735	broad.mit.edu	37	chr17	10219039	10219039	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttccatttgcctcttaaGctcctccagctgctgggtga	5	15	8	13	0	2	1	0	1	2	0	5	1	5	1	4	1	4	3	4	1	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:10219039G>T	uc002gmk.1	-	29	4045	c.3955C>A	c.(3955-3957)CTT>ATT	p.L1319I		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1319	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TGCCTCTTAAGCTCCTCCAGC	0.507													4	24					0.00116845	0.00120241	0.001168	1	0		T	10219039	T	T	10219039	3	4	48	1	0	0	0	0	1	0	0	0	10050	971	34	5	1913	5	MYH13	17	10219039	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2048638	10219039	70976171	615	36495											
TRPV2	51393	broad.mit.edu	37	chr17	16330184	16330184	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctaccatcagcctacccTgaagaaggcaagggcgtgag	11	6	12	12	1	1	3	1	2	0	1	1	3	1	3	4	2	4	1	4	2	5	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:16330184T>C	uc002gpy.2	+	7	1611	c.1244T>C	c.(1243-1245)CTG>CCG	p.L415P	TRPV2_uc002gpz.2_5'UTR	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	415	Extracellular (Potential).				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CAGCCTACCCTGAAGAAGGCA	0.527													20	46					0	0	0.014323	0	0		C	16330184	C	C	16330184	3	2	48	1	0	0	0	0	1	0	0	0	16622	1580	55	3	1266	3	TRPV2	17	16330184	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	6111145	16330184	64865026	616	36496											
TNFRSF13B	23495	broad.mit.edu	37	chr17	16843774	16843774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacaggcagagccccagcGtgctgtagaccagggccacc	10	3	12	16	1	0	2	0	0	0	2	0	2	0	2	5	2	3	3	5	2	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:16843774G>A	uc002gqs.1	-	4	510	c.497C>T	c.(496-498)ACG>ATG	p.T166M	TNFRSF13B_uc010vwt.1_RNA|TNFRSF13B_uc002gqt.1_Missense_Mutation_p.T120M	NM_012452	NP_036584	O14836	TR13B_HUMAN	tumor necrosis factor receptor 13B	166	Helical; Signal-anchor for type III membrane protein; (Potential).				cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding|receptor activity			kidney(2)	2						GAGCCCCAGCGTGCTGTAGAC	0.642									IgA_Deficiency_Selective				14	26					0	0	0.003163	0	0		A	16843774	A	A	16843774	3	1	48	1	0	0	0	0	1	0	0	0	16312	1145	40	1	392	1	TNFRSF13B	17	16843774	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	513590	16843774	64351436	617	36497											
RAI1	10743	broad.mit.edu	37	chr17	17698668	17698668	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggacccccctggggagaaGgtggcctcgttgcccgggga	6	5	18	12	2	0	1	0	0	0	1	1	5	0	3	5	7	1	1	5	7	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:17698668G>T	uc002grm.2	+	3	2875	c.2406G>T	c.(2404-2406)AAG>AAT	p.K802N	RAI1_uc002grn.1_Missense_Mutation_p.K802N	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	802						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CTGGGGAGAAGGTGGCCTCGT	0.672													8	14					1.26484e-09	1.37348e-09	0.00308	1	0		T	17698668	T	T	17698668	3	4	48	1	0	0	0	0	1	0	0	0	13032	991	35	5	2408	5	RAI1	17	17698668	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	854894	17698668	63496542	618	36498											
FLII	2314	broad.mit.edu	37	chr17	18152659	18152659	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctggtgacatagtgtgtgtCttccacagtgtagaagccac	9	11	11	10	0	1	2	0	1	1	1	2	2	2	2	3	1	1	1	3	1	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:18152659C>G	uc002gsr.1	-	15	1891	c.1840G>C	c.(1840-1842)GAC>CAC	p.D614H	FLII_uc002gsq.1_Missense_Mutation_p.D485H|FLII_uc010cpy.1_Missense_Mutation_p.D603H|FLII_uc010vxn.1_Missense_Mutation_p.D583H|FLII_uc010vxo.1_Missense_Mutation_p.D559H|FLII_uc002gss.1_Missense_Mutation_p.D613H	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	614	Interaction with ACTL6A.				multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					TAGTGTGTGTCTTCCACAGTG	0.552													4	52					0	0	0.000602	0	0		G	18152659	G	G	18152659	3	3	48	1	0	0	0	0	1	0	0	0	5939	913	32	5	2033	5	FLII	17	18152659	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	453991	18152659	63042551	619	36499											
RNF112	7732	broad.mit.edu	37	chr17	19318422	19318422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagtgcggccccccagcacGctaagagccgctgccagggg	7	4	15	15	3	0	2	0	1	0	1	0	2	0	2	5	3	4	3	5	3	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:19318422G>A	uc010vyw.1	+	11	1397	c.1198G>A	c.(1198-1200)GCT>ACT	p.A400T	RNF112_uc010vyv.1_Missense_Mutation_p.A401T|RNF112_uc010vyx.1_Missense_Mutation_p.A283T	NM_007148	NP_009079	Q7Z5V9	Q7Z5V9_HUMAN	ring finger protein 112	400							GTP binding|GTPase activity|zinc ion binding			ovary(2)	2						CCCCCAGCACGCTAAGAGCCG	0.632													10	10					0	0	0.008291	0	0		A	19318422	A	A	19318422	3	1	48	1	0	0	0	0	1	0	0	0	13451	1087	38	1	950	1	RNF112	17	19318422	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1165763	19318422	61876788	620	36500											
CYTSB	92521	broad.mit.edu	37	chr17	20109083	20109083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagtgctgtggagcagaCggcagagagctgcgaagttc	9	6	17	9	2	0	2	0	0	0	2	1	5	0	3	1	3	4	5	1	3	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:20109083C>T	uc002gwq.2	+	4	1866	c.1721C>T	c.(1720-1722)ACG>ATG	p.T574M	CYTSB_uc010cqx.2_Missense_Mutation_p.T574M|CYTSB_uc002gwr.2_Missense_Mutation_p.T574M|CYTSB_uc002gws.2_Missense_Mutation_p.T574M|CYTSB_uc002gwv.2_Missense_Mutation_p.T493M|CYTSB_uc010vzf.1_Intron|CYTSB_uc002gww.2_Missense_Mutation_p.T350M|CYTSB_uc002gwt.2_Missense_Mutation_p.T493M|CYTSB_uc002gwu.2_Missense_Mutation_p.T493M	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	574						nucleus					0						GTGGAGCAGACGGCAGAGAGC	0.463													15	48					0	0	0.00499	0	0		T	20109083	T	T	20109083	3	4	48	1	0	0	0	0	1	0	0	0	4213	536	19	1	1775	1	CYTSB	17	20109083	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	790661	20109083	61086127	621	36501											
KCNJ12	3768	broad.mit.edu	37	chr17	21318767	21318767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcaacggcaaggtgcacaCgcggcgcaggtgccgcaacc	9	2	15	15	6	0	0	0	0	0	0	0	0	0	0	2	5	4	5	2	5	3	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:21318767C>T	uc002gyv.1	+	3	818	c.113C>T	c.(112-114)ACG>ATG	p.T38M		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	38	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	AAGGTGCACACGCGGCGCAGG	0.622										Prostate(3;0.18)			8	55					0	0	0.004482	0	0		T	21318767	T	T	21318767	3	4	48	1	0	0	0	0	1	0	0	0	8062	536	19	1	115	1	KCNJ12	17	21318767	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1209684	21318767	59876443	622	36502											
SLC13A2	9058	broad.mit.edu	37	chr17	26822686	26822686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccacagcgatcgggcctgtCagagtggctgggaaacaagc	10	5	14	12	2	1	1	1	0	0	1	2	3	1	2	2	3	3	1	2	3	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:26822686C>T	uc002hbh.2	+	10	1389	c.1322C>T	c.(1321-1323)TCA>TTA	p.S441L	SLC13A2_uc010wam.1_Missense_Mutation_p.S397L|SLC13A2_uc010wan.1_Missense_Mutation_p.S490L|SLC13A2_uc010wao.1_Missense_Mutation_p.S398L|SLC13A2_uc002hbi.2_Missense_Mutation_p.S370L	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	441						integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	TCGGGCCTGTCAGAGTGGCTG	0.622													24	50					0	0	0.00632	0	0		T	26822686	T	T	26822686	3	4	48	1	0	0	0	0	1	0	0	0	14417	838	29	4	1507	4	SLC13A2	17	26822686	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	5503919	26822686	54372524	623	36503											
NEK8	284086	broad.mit.edu	37	chr17	27067543	27067543	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaggtgcccatgcccccaGgacaggaagctcagcgagtt	10	5	13	13	1	1	0	1	0	0	0	1	3	1	2	3	3	5	3	3	3	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:27067543G>T	uc002hcp.2	+	11	1480	c.1480G>T	c.(1480-1482)GGA>TGA	p.G494*		NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	494	RCC1 3.					cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					CATGCCCCCAGGACAGGAAGC	0.557													4	101					0.00024832	0.000257033	0.009096	1	0		T	27067543	T	T	27067543	4	4	48	1	0	0	0	0	0	1	0	0	10349	1001	35	5	1522	5	NEK8	17	27067543	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	244857	27067543	54127667	624	36504											
ABHD15	116236	broad.mit.edu	37	chr17	27893168	27893168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggccagggcaggccggcctCgaaccactctcggcagcgca	7	3	15	16	4	1	0	0	0	1	0	3	1	1	0	4	5	2	3	4	5	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:27893168C>T	uc002hed.1	-	1	881	c.817G>A	c.(817-819)GAG>AAG	p.E273K	TP53I13_uc002hee.2_5'Flank	NM_198147	NP_937790	Q6UXT9	ABH15_HUMAN	abhydrolase domain containing 15 precursor	273						extracellular region	carboxylesterase activity				0						AGGCCGGCCTCGAACCACTCT	0.677													11	22					0	0	0.010729	0	0		T	27893168	T	T	27893168	3	4	48	1	0	0	0	0	1	0	0	0	81	893	31	1	597	1	ABHD15	17	27893168	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	825625	27893168	53302042	625	36505											
ATAD5	79915	broad.mit.edu	37	chr17	29167732	29167732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaggtgactgaagaaatagCgatacccttaaggcgctcct	14	8	10	9	2	0	3	0	2	0	1	1	4	1	3	2	2	2	1	2	2	6	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:29167732C>T	uc002hfs.1	+	4	2520	c.2174C>T	c.(2173-2175)GCG>GTG	p.A725V	ATAD5_uc002hft.1_Missense_Mutation_p.A622V	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	725					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				GAAGAAATAGCGATACCCTTA	0.343													29	58					0	0	0.013726	0	0		T	29167732	T	T	29167732	3	4	48	1	0	0	0	0	1	0	0	0	1077	768	27	1	2188	1	ATAD5	17	29167732	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1274564	29167732	52027478	626	36506											
ATAD5	79915	broad.mit.edu	37	chr17	29220338	29220338	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcacaatgaaggaagaatgGcataaattcatccagcttct	16	10	7	8	0	3	2	2	1	1	1	4	3	4	3	1	2	1	2	1	2	6	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:29220338G>A	uc002hfs.1	+	21	4813	c.4467G>A	c.(4465-4467)TGG>TGA	p.W1489*		NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	1489					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				AGGAAGAATGGCATAAATTCA	0.303													48	108					0	0	0.01441	0	0		A	29220338	A	A	29220338	4	1	48	1	0	0	0	0	0	1	0	0	1077	1212	42	2	4549	2	ATAD5	17	29220338	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	52606	29220338	51974872	627	36507											
RHBDL3	162494	broad.mit.edu	37	chr17	30615897	30615897	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggccctgctggaggagaaGgggctgagcctctcgcagcg	8	5	17	11	2	1	2	0	1	1	1	2	4	1	3	2	5	3	3	2	5	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:30615897G>A	uc002hhe.1	+	4	395	c.381G>A	c.(379-381)AAG>AAA	p.K127K	RHBDL3_uc010csw.1_Silent_p.K119K|RHBDL3_uc010csx.1_Silent_p.K127K|RHBDL3_uc010csy.1_Silent_p.K29K|RHBDL3_uc002hhf.1_Silent_p.K29K	NM_138328	NP_612201	P58872	RHBL3_HUMAN	rhomboid protease 3	127					proteolysis	integral to membrane	calcium ion binding|serine-type endopeptidase activity			ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)				TGGAGGAGAAGGGGCTGAGCC	0.592													9	21					0	0	0.006214	0	0		A	30615897	A	A	30615897	2	1	48	1	0	0	0	0	0	0	0	1	13348	991	35	4		4	RHBDL3	17	30615897	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1395559	30615897	50579313	628	36508											
ZNF207	7756	broad.mit.edu	37	chr17	30696741	30696741	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgacctccgatgggaaTgagacctcctgtaatgtcgc	8	10	10	13	3	0	1	0	1	0	1	5	5	3	2	5	1	0	1	5	1	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:30696741T>C	uc002hhh.3	+	11	1548	c.1400T>C	c.(1399-1401)ATG>ACG	p.M467T	ZNF207_uc002hhj.3_Missense_Mutation_p.M483T|ZNF207_uc002hhi.3_Missense_Mutation_p.M452T|ZNF207_uc010csz.2_Missense_Mutation_p.M486T|ZNF207_uc002hhk.1_Missense_Mutation_p.M483T|ZNF207_uc002hhl.1_RNA	NM_003457	NP_003448	O43670	ZN207_HUMAN	zinc finger protein 207 isoform a	467						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			CCGATGGGAATGAGACCTCCT	0.527													15	49					0	0	0.007413	0	0		C	30696741	C	C	30696741	3	2	48	1	0	0	0	0	1	0	0	0	17790	1464	51	3	1494	3	ZNF207	17	30696741	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	80844	30696741	50498469	629	36509											
FKBP10	60681	broad.mit.edu	37	chr17	39975526	39975526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgattgacgtgcacaacccGaaggacgctgtccagctaga	11	7	11	12	3	0	3	0	2	0	1	1	5	1	4	2	1	3	3	2	1	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:39975526G>A	uc002hxv.2	+	5	1117	c.792G>A	c.(790-792)CCG>CCA	p.P264P	FKBP10_uc002hxw.1_5'UTR	NM_021939	NP_068758	Q96AY3	FKB10_HUMAN	FK506 binding protein 10 precursor	264					protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Breast(137;0.00122)		BRCA - Breast invasive adenocarcinoma(366;0.148)		TGCACAACCCGAAGGACGCTG	0.612													23	79					0	0	0.004656	0	0		A	39975526	A	A	39975526	2	1	48	1	0	0	0	0	0	0	0	1	5916	1045	37	1		1	FKBP10	17	39975526	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	9278785	39975526	41219684	630	36510											
NAGLU	4669	broad.mit.edu	37	chr17	40690415	40690415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagttctttactggtcctgCcttcctggcctgggggcgaa	4	13	13	11	1	1	1	0	1	1	0	3	2	3	1	4	4	2	1	4	4	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:40690415C>T	uc002hzv.2	+	3	930	c.590C>T	c.(589-591)GCC>GTC	p.A197V		NM_000263	NP_000254	P54802	ANAG_HUMAN	alpha-N-acetylglucosaminidase precursor	197						lysosome	alpha-N-acetylglucosaminidase activity				0		all_cancers(22;1.58e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)	N-Acetyl-D-glucosamine(DB00141)	ACTGGTCCTGCCTTCCTGGCC	0.542													48	106					0	0	0.01441	0	0		T	40690415	T	T	40690415	3	4	48	1	0	0	0	0	1	0	0	0	10161	739	26	2	600	2	NAGLU	17	40690415	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	714889	40690415	40504795	631	36511											
BECN1	8678	broad.mit.edu	37	chr17	40966560	40966560	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctctgaaatttcagacccAtcttattggccagagcatgg	11	11	8	11	0	3	3	1	1	2	2	3	3	3	3	3	2	1	1	3	2	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:40966560A>G	uc002ibo.3	-	9	1097	c.962T>C	c.(961-963)ATG>ACG	p.M321T	BECN1_uc010whb.1_Missense_Mutation_p.M234T|BECN1_uc010whc.1_Missense_Mutation_p.M245T|BECN1_uc002ibn.2_Missense_Mutation_p.M321T	NM_003766	NP_003757	Q14457	BECN1_HUMAN	beclin 1	321					anti-apoptosis|cell cycle|cellular defense response|cytokinesis|response to virus	membrane	protein binding			ovary(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0745)		TTTCAGACCCATCTTATTGGC	0.498													32	87					0	0	0.004289	0	0		G	40966560	G	G	40966560	3	3	48	1	0	0	0	0	1	0	0	0	1397	217	8	3	406	3	BECN1	17	40966560	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	276145	40966560	40228650	632	36512											
NBR1	4077	broad.mit.edu	37	chr17	41352288	41352290	+	In_Frame_Del	DEL	GAG	-	-																															aggaggaggatgaggaggatGaggaggaggaggatgagctc																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:41352288_41352290delGAG	uc010czd.2	+	17	2271_2273	c.2131_2133delGAG	c.(2131-2133)GAGdel	p.E714del	NBR1_uc010diz.2_In_Frame_Del_p.E714del|NBR1_uc010whu.1_In_Frame_Del_p.E714del|NBR1_uc010whv.1_In_Frame_Del_p.E714del|NBR1_uc010whw.1_In_Frame_Del_p.E693del	NM_031862	NP_114068	Q14596	NBR1_HUMAN	neighbor of BRCA1 gene 1	714	Poly-Glu.				macroautophagy|protein oligomerization	autophagic vacuole|cytoplasmic vesicle|cytosol|late endosome|lysosome|sarcomere	ubiquitin binding|zinc ion binding			skin(1)	1		Breast(137;0.00086)		BRCA - Breast invasive adenocarcinoma(366;0.0934)		tgaggaggatgaggaggaggagg	0.369													2	4	---	---	---	---						.	-	41352290	-	-	41352288	7	5	48	1	0	1	0	1	0	0	0	0	10219	1291	45	0	2193	0	NBR1	17	41352288	In_Frame_Del	DEL	GAG	TCGA-BR-7703-01A-11D-2053-08	385728	41352288	39842922	633	36513											
TMEM106A	113277	broad.mit.edu	37	chr17	41368528	41368528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtgacacagctgaccctcGaggttctgcacctgtccctc	6	10	10	15	1	1	2	0	2	1	0	4	3	2	2	3	2	2	3	3	2	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:41368528G>A	uc002idn.1	+	6	727	c.490G>A	c.(490-492)GAG>AAG	p.E164K	TMEM106A_uc010why.1_Missense_Mutation_p.E116K|TMEM106A_uc010cze.1_Missense_Mutation_p.E164K|TMEM106A_uc010whz.1_Intron	NM_145041	NP_659478	Q96A25	T106A_HUMAN	transmembrane protein 106A	164						integral to membrane					0		Breast(137;0.0164)		BRCA - Breast invasive adenocarcinoma(366;0.0917)		GCTGACCCTCGAGGTTCTGCA	0.542													89	196					0	0	0.01441	0	0		A	41368528	A	A	41368528	3	1	48	1	0	0	0	0	1	0	0	0	16045	1059	37	1	504	1	TMEM106A	17	41368528	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	16240	41368528	39826682	634	36514											
MAPT	4137	broad.mit.edu	37	chr17	44101486	44101486	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggtagactcgccccagctCgccacgctagctgacgaggt	8	7	12	14	4	0	2	0	1	0	1	2	3	0	2	3	2	2	4	3	2	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:44101486C>T	uc002ijr.3	+	14	2546	c.2226C>T	c.(2224-2226)CTC>CTT	p.L742L	MAPT_uc010dau.2_Silent_p.L760L|MAPT_uc002ijs.3_Silent_p.L425L|MAPT_uc002ijx.3_Silent_p.L396L|MAPT_uc002ijt.3_Silent_p.L367L|MAPT_uc002iju.3_Silent_p.L336L|MAPT_uc002ijv.3_Silent_p.L343L	NM_016835	NP_058519	P10636	TAU_HUMAN	microtubule-associated protein tau isoform 1	742					cellular component disassembly involved in apoptosis|microtubule cytoskeleton organization|negative regulation of microtubule depolymerization|positive regulation of axon extension|positive regulation of microtubule polymerization|regulation of autophagy	axon|cytosol|growth cone|microtubule|microtubule associated complex|nuclear periphery|plasma membrane|tubulin complex	apolipoprotein E binding|enzyme binding|identical protein binding|lipoprotein particle binding|microtubule binding|protein binding|SH3 domain binding|structural constituent of cytoskeleton			pancreas(1)	1		Melanoma(429;0.216)				CGCCCCAGCTCGCCACGCTAG	0.597													34	91					0	0	0.004878	0	0		T	44101486	T	T	44101486	2	4	48	1	0	0	0	0	0	0	0	1	9315	871	31	1		1	MAPT	17	44101486	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2732958	44101486	37093724	635	36515											
OR4D2	124538	broad.mit.edu	37	chr17	56247325	56247325	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcatgggtcagatcttcttCttccactttttgggaggtgc	5	16	11	9	0	4	1	1	0	3	1	5	2	5	2	1	3	2	1	1	3	0	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:56247325C>T	uc010wnp.1	+	1	309	c.309C>T	c.(307-309)TTC>TTT	p.F103F		NM_001004707	NP_001004707	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						AGATCTTCTTCTTCCACTTTT	0.522													21	54					0	0	0.00278	0	0		T	56247325	T	T	56247325	2	4	48	1	0	0	0	0	0	0	0	1	11075	912	32	4		4	OR4D2	17	56247325	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	12145839	56247325	24947885	636	36516											
HSF5	124535	broad.mit.edu	37	chr17	56557589	56557589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtaaggagacaaactatctCgacgaaatgaccggtgaaat	17	7	10	7	3	1	3	0	2	1	1	2	6	1	3	1	2	1	1	1	2	5	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:56557589C>T	uc002iwi.1	-	2	714	c.590G>A	c.(589-591)CGA>CAA	p.R197Q		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	197	By similarity.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CAAACTATCTCGACGAAATGA	0.428													22	53					0	0	0.00278	0	0		T	56557589	T	T	56557589	3	4	48	1	0	0	0	0	1	0	0	0	7415	884	31	1	1220	1	HSF5	17	56557589	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	310264	56557589	24637621	637	36517											
C17orf71	55181	broad.mit.edu	37	chr17	57290847	57290847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agccctaaatagtgacatgcCcttatatattctgtcatcct	11	14	5	11	0	2	1	1	1	1	0	3	1	3	1	3	0	2	0	3	0	6	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:57290847C>T	uc002ixi.2	+	3	2705	c.2663C>T	c.(2662-2664)CCC>CTC	p.P888L		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	888					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					AGTGACATGCCCTTATATATT	0.438													4	84					0	0	0.009096	0	0		T	57290847	T	T	57290847	3	4	48	1	0	0	0	0	1	0	0	0	1881	623	22	4	2673	4	C17orf71	17	57290847	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	733258	57290847	23904363	638	36518											
SMARCD2	6603	broad.mit.edu	37	chr17	61911083	61911083	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggtcgttagggtcgacaCtgcaggcagcacatggggag	8	8	16	9	2	1	0	0	0	1	0	3	2	1	1	0	5	2	4	0	5	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:61911083C>T	uc010deb.1	-	10	1499	c.1182_splice	c.e10-1	p.S394_splice	SMARCD2_uc010wpt.1_Splice_Site_p.S346_splice|SMARCD2_uc010dea.1_Splice_Site_p.S319_splice|SMARCD2_uc010dec.1_Splice_Site_p.S373_splice	NM_001098426	NP_001091896	Q92925	SMRD2_HUMAN	SWI/SNF-related matrix-associated						chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	SWI/SNF complex	protein binding|transcription coactivator activity				0						AGGGTCGACACTGCAGGCAGC	0.552													20	45					0	0	0.004656	0	0		T	61911083	T	T	61911083	5	4	48	1	0	0	0	0	0	0	1	0	14803	579	20	4	430	4	SMARCD2	17	61911083	Splice_Site	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4620236	61911083	19284127	639	36519											
SCN4A	6329	broad.mit.edu	37	chr17	62045681	62045681	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatccgacagctttttcacCgactggatcagggcccccac	9	8	8	16	2	2	0	2	0	0	0	3	3	3	1	4	2	1	1	4	2	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:62045681C>T	uc002jds.1	-	6	815	c.738G>A	c.(736-738)TCG>TCA	p.S246S		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	246	I.		S -> L.		muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GCTTTTTCACCGACTGGATCA	0.592													25	67					0	0	0.008361	0	0		T	62045681	T	T	62045681	2	4	48	1	0	0	0	0	0	0	0	1	13945	639	23	1		1	SCN4A	17	62045681	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	134598	62045681	19149529	640	36520											
ERN1	2081	broad.mit.edu	37	chr17	62144207	62144207	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggccaccacaggggaggcGtagttttggatccacaggac	11	6	14	10	1	0	0	0	0	0	0	1	3	1	3	3	6	0	2	3	6	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:62144207G>A	uc002jdz.2	-	8	779	c.666C>T	c.(664-666)TAC>TAT	p.Y222Y		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	222	Lumenal (Potential).				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						CAGGGGAGGCGTAGTTTTGGA	0.537													12	22					0	0	0.00245	0	0		A	62144207	A	A	62144207	2	1	48	1	0	0	0	0	0	0	0	1	5245	1140	40	1		1	ERN1	17	62144207	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	98526	62144207	19051003	641	36521											
ABCA9	10350	broad.mit.edu	37	chr17	67024767	67024767	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcagtgatctggccttcAtatatgtcaaacaccacacc	12	9	8	12	0	3	1	2	1	1	0	3	1	3	1	3	2	1	1	3	2	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:67024767A>G	uc002jhu.2	-	12	1667	c.1524T>C	c.(1522-1524)TAT>TAC	p.Y508Y	ABCA9_uc010dez.2_Silent_p.Y508Y	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	508	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					TCTGGCCTTCATATATGTCAA	0.393													6	73					0	0	0.001168	0	0		G	67024767	G	G	67024767	2	3	48	1	0	0	0	0	0	0	0	1	39	224	8	3		3	ABCA9	17	67024767	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	4880560	67024767	14170443	642	36522											
ABCA5	23461	broad.mit.edu	37	chr17	67251897	67251897	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcacacagaaagagatgTatttagttgccactttcttt	11	17	6	7	0	2	2	1	0	1	2	2	3	2	2	1	0	1	2	1	0	3	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:67251897T>C	uc002jif.2	-	29	5171	c.3953A>G	c.(3952-3954)TAC>TGC	p.Y1318C	ABCA5_uc002jib.2_Missense_Mutation_p.Y284C|ABCA5_uc002jic.2_Missense_Mutation_p.Y541C|ABCA5_uc002jid.2_Missense_Mutation_p.Y235C|ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.Y1318C	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	1318	ABC transporter 2.				cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					GAAAGAGATGTATTTAGTTGC	0.274													5	6					0	0	0.001168	0	0		C	67251897	C	C	67251897	3	2	48	1	0	0	0	0	1	0	0	0	35	1638	57	3	1015	3	ABCA5	17	67251897	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	227130	67251897	13943313	643	36523											
ABCA5	23461	broad.mit.edu	37	chr17	67270228	67270228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagtgatgaaccaaaaacAtaaaaatctgaactgtgaaa	22	7	7	5	0	1	5	0	4	1	1	1	5	1	5	1	0	3	0	1	0	9	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:67270228A>G	uc002jif.2	-	19	3854	c.2636T>C	c.(2635-2637)ATG>ACG	p.M879T	ABCA5_uc002jic.2_Missense_Mutation_p.M102T|ABCA5_uc002jid.2_5'UTR|ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.M879T|ABCA5_uc002jih.2_Missense_Mutation_p.M879T|ABCA5_uc010dfe.2_Missense_Mutation_p.M879T	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	879	Helical; (Potential).				cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					AACCAAAAACATAAAAATCTG	0.308													5	20					0	0	0.001984	0	0		G	67270228	G	G	67270228	3	3	48	1	0	0	0	0	1	0	0	0	35	217	8	3	2372	3	ABCA5	17	67270228	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	18331	67270228	13924982	644	36524											
KCNJ16	3773	broad.mit.edu	37	chr17	68128892	68128892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttagagcccaacttctcCgctatacagaagacagtgaa	14	8	8	11	1	1	4	0	1	1	3	2	4	1	4	2	0	3	2	2	0	6	4	rs148765286		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:68128892C>T	uc002jin.2	+	5	1150	c.664C>T	c.(664-666)CGC>TGC	p.R222C	KCNJ16_uc002jio.2_Missense_Mutation_p.R222C|KCNJ16_uc002jip.2_Missense_Mutation_p.R222C|KCNJ16_uc002jiq.2_Missense_Mutation_p.R254C	NM_018658	NP_061128	Q9NPI9	IRK16_HUMAN	potassium inwardly-rectifying channel J16	222	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Breast(10;2.96e-09)					CCAACTTCTCCGCTATACAGA	0.468													19	28					0	0	0.007413	0	0		T	68128892	T	T	68128892	3	4	48	1	0	0	0	0	1	0	0	0	8066	652	23	1	666	1	KCNJ16	17	68128892	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	858664	68128892	13066318	645	36525											
OTOP2	92736	broad.mit.edu	37	chr17	72926834	72926834	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccccacgcgcactctggaCgtggccctgctgatgggtgc	6	7	13	15	3	1	1	0	1	1	0	1	2	1	2	3	3	3	2	3	3	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:72926834C>T	uc010wrp.1	+	7	1193	c.1104C>T	c.(1102-1104)GAC>GAT	p.D368D		NM_178160	NP_835454	Q7RTS6	OTOP2_HUMAN	otopetrin 2	368						integral to membrane				ovary(3)|large_intestine(1)	4	all_lung(278;0.172)|Lung NSC(278;0.207)					GCACTCTGGACGTGGCCCTGC	0.642													25	42					0	0	0.005443	0	0		T	72926834	T	T	72926834	2	4	48	1	0	0	0	0	0	0	0	1	11325	535	19	1		1	OTOP2	17	72926834	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4797942	72926834	8268376	646	36526											
EVPL	2125	broad.mit.edu	37	chr17	74003904	74003904	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcggggacttggagatgatAgagccgatggagagtgagga	12	6	19	4	2	0	5	0	2	0	3	0	10	0	7	1	5	2	0	1	5	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:74003904A>G	uc002jqi.2	-	22	5610	c.5382T>C	c.(5380-5382)TCT>TCC	p.S1794S	EVPL_uc010wss.1_Silent_p.S1816S|EVPL_uc010wst.1_Silent_p.S1264S	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1794	Globular 2.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						TGGAGATGATAGAGCCGATGG	0.602													16	42					0	0	0.003163	0	0		G	74003904	G	G	74003904	2	3	48	1	0	0	0	0	0	0	0	1	5300	407	15	3		3	EVPL	17	74003904	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	1077070	74003904	7191306	647	36527											
RPTOR	57521	broad.mit.edu	37	chr17	78867514	78867514	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtctcgggcagctggtggCgcggtggcgttctcccccgg	1	8	18	14	6	2	0	0	0	2	0	4	0	2	0	2	6	1	3	2	6	0	1	rs115028103	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:78867514C>T	uc002jyt.1	+	20	3055	c.2250C>T	c.(2248-2250)GGC>GGT	p.G750G	RPTOR_uc010wug.1_Silent_p.G592G	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	750					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						CAGCTGGTGGCGCGGTGGCGT	0.597													16	40					0	0	0.003163	0	0		T	78867514	T	T	78867514	2	4	48	1	0	0	0	0	0	0	0	1	13690	755	27	1		1	RPTOR	17	78867514	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4863610	78867514	2327696	648	36528											
AATK	9625	broad.mit.edu	37	chr17	79095065	79095065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctgcttctgcagagagcGgaaggctggcaccacatccg	9	6	12	14	2	1	1	0	0	1	1	2	3	2	2	3	3	3	4	3	3	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:79095065G>A	uc010dia.2	-	11	2751	c.2671C>T	c.(2671-2673)CGC>TGC	p.R891C	AATK_uc010dhz.2_RNA	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	891						integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			TGCAGAGAGCGGAAGGCTGGC	0.662													7	9					0	0	0.004482	0	0		A	79095065	A	A	79095065	3	1	48	1	0	0	0	0	1	0	0	0	26	1116	39	1	1469	1	AATK	17	79095065	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	227551	79095065	2100145	649	36529											
GPS1	2873	broad.mit.edu	37	chr17	80014952	80014952	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccagagaagggagccaGggggagctgactccagccaa	11	2	15	13	1	0	2	0	1	0	1	1	5	1	4	5	3	3	1	5	3	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr17:80014952G>A	uc002kdl.1	+	13	1470	c.1425G>A	c.(1423-1425)CAG>CAA	p.Q475Q	GPS1_uc002kdk.1_Silent_p.Q511Q|GPS1_uc010dij.1_Silent_p.Q510Q|GPS1_uc002kdm.1_Silent_p.Q455Q|GPS1_uc002kdn.1_Silent_p.Q471Q|GPS1_uc002kdo.1_Silent_p.Q474Q|GPS1_uc010wvh.1_Silent_p.Q467Q	NM_004127	NP_004118	Q13098	CSN1_HUMAN	G protein pathway suppressor 1 isoform 2	475					cell cycle|cullin deneddylation|inactivation of MAPK activity|JNK cascade	cytoplasm|signalosome	GTPase inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			AAGGGAGCCAGGGGGAGCTGA	0.677													24	54					0	0	0.013726	0	0		A	80014952	A	A	80014952	2	1	48	1	0	0	0	0	0	0	0	1	6748	991	35	4		4	GPS1	17	80014952	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	919887	80014952	1180258	650	36530											
ELP2	55250	broad.mit.edu	37	chr18	33726216	33726216	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctgttattgtacaggttCgagtaggtgaagtaggtggg	8	14	16	3	1	1	1	0	1	1	0	2	2	1	1	0	4	1	5	0	4	5	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr18:33726216C>T	uc002kzk.1	+	11	1007	c.997C>T	c.(997-999)CGA>TGA	p.R333*	ELP2_uc010xcg.1_Nonsense_Mutation_p.R398*|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Nonsense_Mutation_p.R307*|ELP2_uc010xch.1_Intron|ELP2_uc002kzn.1_Intron|ELP2_uc002kzo.1_Nonsense_Mutation_p.R263*	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	333					regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						TGTACAGGTTCGAGTAGGTGA	0.393													11	197					0	0	0.013537	0	0		T	33726216	T	T	33726216	4	4	48	1	0	0	0	0	0	1	0	0	5088	876	31	1	1039	1	ELP2	18	33726216	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08		33726216	44351032	651	36531											
KIAA1328	57536	broad.mit.edu	37	chr18	34753044	34753044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attacagcacaccacctcccGgtaagcttcagagattcttt	11	11	6	13	1	2	1	1	0	1	1	3	2	3	1	3	1	3	3	3	1	2	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr18:34753044G>A	uc002kzz.2	+	9	1545	c.1523G>A	c.(1522-1524)CGG>CAG	p.R508Q	KIAA1328_uc002lab.2_Missense_Mutation_p.R260H|KIAA1328_uc002lac.1_Missense_Mutation_p.R367Q|KIAA1328_uc010dnc.1_RNA	NM_020776	NP_065827	Q86T90	K1328_HUMAN	hypothetical protein LOC57536	508										central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)		ACCACCTCCCGGTAAGCTTCA	0.388													29	56					0	0	0.010818	0	0		A	34753044	A	A	34753044	3	1	48	1	0	0	0	0	1	0	0	0	8241	1130	39	1	1557	1	KIAA1328	18	34753044	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1026828	34753044	43324204	652	36532											
CELF4	56853	broad.mit.edu	37	chr18	35145354	35145354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaacctgtccttcagaaccGtaagctcgtagattttgcca	10	12	8	11	2	1	3	1	1	0	2	3	3	2	3	4	0	4	3	4	0	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr18:35145354G>A	uc002lae.2	-	1	647	c.251C>T	c.(250-252)ACG>ATG	p.T84M	CELF4_uc010dnd.1_Missense_Mutation_p.T84M|CELF4_uc002lag.2_Missense_Mutation_p.T84M|CELF4_uc002laf.2_Missense_Mutation_p.T80M|CELF4_uc002lai.2_Missense_Mutation_p.T80M	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	84	RRM 1.|Sufficient for RNA-binding and MSE- dependent splicing activity.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						CTTCAGAACCGTAAGCTCGTA	0.587													34	67					0	0	0.010771	0	0		A	35145354	A	A	35145354	3	1	48	1	0	0	0	0	1	0	0	0	3221	1145	40	1	1257	1	CELF4	18	35145354	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	392310	35145354	42931894	653	36533											
SETBP1	26040	broad.mit.edu	37	chr18	42531385	42531385	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgttgctctgaaggcaaaaGctcccccagagaccagccct	10	6	10	15	1	1	2	0	1	1	1	2	3	2	2	4	1	3	4	4	1	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr18:42531385G>T	uc010dni.2	+	4	2376	c.2080G>T	c.(2080-2082)GCT>TCT	p.A694S		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	694						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GAAGGCAAAAGCTCCCCCAGA	0.478									Schinzel-Giedion_syndrome				26	39					4.59853e-10	5.00578e-10	0.005443	1	0		T	42531385	T	T	42531385	3	4	48	1	0	0	0	0	1	0	0	0	14154	971	34	5	2283	5	SETBP1	18	42531385	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	7386031	42531385	35545863	654	36534											
TCEB3C	162699	broad.mit.edu	37	chr18	44555126	44555126	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccttccagaacgggttcaAgaaccgagtaggggacccct	11	6	11	13	2	1	2	1	0	0	2	2	4	2	3	5	3	2	2	5	3	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr18:44555126A>G	uc010xdb.1	-	1	1324	c.1088T>C	c.(1087-1089)CTT>CCT	p.L363P	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	363	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						AACGGGTTCAAGAACCGAGTA	0.607													17	728					0	0	0.008871	0	0		G	44555126	G	G	44555126	3	3	48	1	0	0	0	0	1	0	0	0	15708	72	3	3	2199	3	TCEB3C	18	44555126	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	2023741	44555126	33522122	655	36535											
TCEB3B	51224	broad.mit.edu	37	chr18	44561456	44561456	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggcaaagtcgcccacgtgCtggtgcttccgcaggcgctt	5	9	13	14	4	0	0	0	0	0	0	2	0	1	0	2	3	2	5	2	3	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr18:44561456C>T	uc002lcr.1	-	1	533	c.180G>A	c.(178-180)CAG>CAA	p.Q60Q	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	60	TFIIS N-terminal.				regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						CGCCCACGTGCTGGTGCTTCC	0.602													3	12					0	0	0.009096	0	0		T	44561456	T	T	44561456	2	4	48	1	0	0	0	0	0	0	0	1	15707	796	28	2		2	TCEB3B	18	44561456	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	6330	44561456	33515792	656	36536											
WDR7	23335	broad.mit.edu	37	chr18	54446705	54446705	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cactgtgttatgctgccagaCctactgggattggataaatt	10	13	10	8	0	0	1	0	0	0	1	0	3	0	3	2	2	3	2	2	2	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr18:54446705C>A	uc002lgk.1	+	18	3202	c.2991C>A	c.(2989-2991)GAC>GAA	p.D997E	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.D964E	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	997										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		TGCTGCCAGACCTACTGGGAT	0.423													34	80					9.17885e-22	1.03087e-21	0.003271	1	0		A	54446705	A	A	54446705	3	1	48	1	0	0	0	0	1	0	0	0	17346	506	18	5	3057	5	WDR7	18	54446705	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	9885249	54446705	23630543	657	36537											
ZCCHC2	54877	broad.mit.edu	37	chr18	60241471	60241471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcagcatatttcttttatGccaacgttacactgtgtcat	10	17	5	9	1	3	0	2	0	1	0	3	0	3	0	1	0	4	2	1	0	5	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr18:60241471G>A	uc002lip.3	+	13	2157	c.2157G>A	c.(2155-2157)ATG>ATA	p.M719I	ZCCHC2_uc002lio.2_RNA|ZCCHC2_uc002liq.2_Missense_Mutation_p.M189I	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	719					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding			lung(1)|prostate(1)	2						TTTCTTTTATGCCAACGTTAC	0.443													36	100					0	0	0.007835	0	0		A	60241471	A	A	60241471	3	1	48	1	0	0	0	0	1	0	0	0	17612	1319	46	2	2207	2	ZCCHC2	18	60241471	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5794766	60241471	17835777	658	36538											
SERPINB8	5271	broad.mit.edu	37	chr18	61654276	61654276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgcttttgacgaagccaagGcagacttttctggaatgtca	11	12	10	8	1	2	2	1	1	1	1	2	4	2	3	1	2	2	2	1	2	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr18:61654276G>A	uc002ljv.2	+	7	1058	c.889G>A	c.(889-891)GCA>ACA	p.A297T	SERPINB8_uc002lju.2_Missense_Mutation_p.A297T|SERPINB8_uc010xex.1_Missense_Mutation_p.A115T	NM_198833	NP_942130	P50452	SPB8_HUMAN	serine (or cysteine) proteinase inhibitor, clade	297					regulation of proteolysis	cytosol	protein binding|serine-type endopeptidase inhibitor activity			skin(1)	1		Esophageal squamous(42;0.129)				CGAAGCCAAGGCAGACTTTTC	0.488													19	29					0	0	0.010504	0	0		A	61654276	A	A	61654276	3	1	48	1	0	0	0	0	1	0	0	0	14132	1203	42	2	924	2	SERPINB8	18	61654276	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1412805	61654276	16422972	659	36539											
TSHZ1	10194	broad.mit.edu	37	chr18	73000281	73000281	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcctgttttcttttgcaaCgattgtgcctctcagttcag	6	17	7	11	1	3	0	2	0	2	0	5	1	4	0	2	0	3	3	2	0	1	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr18:73000281C>T	uc002lly.2	+	2	3347	c.2784C>T	c.(2782-2784)AAC>AAT	p.N928N		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	973	C2H2-type 4.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		TCTTTTGCAACGATTGTGCCT	0.488													11	31					0	0	0.013537	0	0		T	73000281	T	T	73000281	2	4	48	1	0	0	0	0	0	0	0	1	16649	535	19	1		1	TSHZ1	18	73000281	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	11346005	73000281	5076967	660	36540											
ADNP2	22850	broad.mit.edu	37	chr18	77893766	77893766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtgataagtttcacatGtctaaaatgtaacttttcaa	14	15	6	6	1	3	1	2	1	1	0	3	2	3	1	0	0	1	2	0	0	5	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr18:77893766G>A	uc002lnw.2	+	4	925	c.470G>A	c.(469-471)TGT>TAT	p.C157Y		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	157					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		AGTTTCACATGTCTAAAATGT	0.378													10	34					0	0	0.006214	0	0		A	77893766	A	A	77893766	3	1	48	1	0	0	0	0	1	0	0	0	324	1377	48	4	480	4	ADNP2	18	77893766	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4893485	77893766	183482	661	36541											
CDC34	997	broad.mit.edu	37	chr19	537097	537097	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacgcctccgtgatgtacagGaagtggaaagagagcaaggg	13	5	16	7	2	0	2	0	1	0	1	1	6	1	4	2	3	2	2	2	3	4	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:537097G>A	uc002lov.2	+	4	646	c.447G>A	c.(445-447)AGG>AGA	p.R149R		NM_004359	NP_004350	P49427	UB2R1_HUMAN	ubiquitin-conjugating enzyme Cdc34	149				R->A: Inhibits polyubiquitination of NFKBIA; when associated with A-147; A- 147; A-150 and A-153.	DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|negative regulation of cAMP-mediated signaling|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination	cytoplasm|nucleus	ATP binding|protein binding|ubiquitin-protein ligase activity				0		all_cancers(10;1.94e-35)|all_epithelial(18;5.94e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGATGTACAGGAAGTGGAAAG	0.617													6	41					0	0	0.001168	0	0		A	537097	A	A	537097	2	1	48	1	0	0	0	0	0	0	0	1	3070	1165	41	4		4	CDC34	19	537097	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08		537097	58591886	662	36542											
APC2	10297	broad.mit.edu	37	chr19	1460308	1460308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaacctcacctttggggacGttgccaacaaggtgcccggg	8	7	12	14	2	1	0	1	0	0	0	1	1	1	1	5	4	4	1	5	4	3	2	rs150518571	by1000genomes	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:1460308G>A	uc002lsr.1	+	11	1640	c.1432G>A	c.(1432-1434)GTT>ATT	p.V478I	APC2_uc002lss.1_Missense_Mutation_p.V60I|APC2_uc002lst.1_Missense_Mutation_p.V478I|APC2_uc002lsu.1_Missense_Mutation_p.V477I|uc002lsv.2_5'Flank	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	478					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTTGGGGACGTTGCCAACAA	0.562													7	77					0	0	0.004482	0	0		A	1460308	A	A	1460308	3	1	48	1	0	0	0	0	1	0	0	0	764	1145	40	1	1470	1	APC2	19	1460308	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	923211	1460308	57668675	663	36543											
APC2	10297	broad.mit.edu	37	chr19	1466430	1466430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaaggttcccgagaagctgGcggctgccccgctgtctgtg	5	8	15	13	3	1	1	0	0	1	1	2	2	2	1	3	3	2	5	3	3	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:1466430G>A	uc002lsr.1	+	15	3338	c.3130G>A	c.(3130-3132)GCG>ACG	p.A1044T	APC2_uc002lss.1_Missense_Mutation_p.A626T|APC2_uc002lst.1_Missense_Mutation_p.A1044T|APC2_uc002lsu.1_Missense_Mutation_p.A1043T|C19orf25_uc010xgn.1_Intron	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	1044					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGAGAAGCTGGCGGCTGCCCC	0.692													9	8					0	0	0.013537	0	0		A	1466430	A	A	1466430	3	1	48	1	0	0	0	0	1	0	0	0	764	1203	42	2	3184	2	APC2	19	1466430	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	6122	1466430	57662553	664	36544											
TCF3	6929	broad.mit.edu	37	chr19	1615385	1615385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaggtgcagttggcacatgCgccccagctccttaaaggcc	8	8	12	13	1	0	1	0	1	0	0	1	1	1	1	4	3	3	4	4	3	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:1615385C>T	uc002ltr.2	-	18	1788	c.1721G>A	c.(1720-1722)CGC>CAC	p.R574H	TCF3_uc002ltn.2_Intron|TCF3_uc002lto.2_Missense_Mutation_p.R335H|TCF3_uc002ltt.3_Intron|TCF3_uc002ltq.2_Missense_Mutation_p.R578H|TCF3_uc002lts.1_Intron	NM_003200	NP_003191	P15923	TFE2_HUMAN	transcription factor 3 isoform E12	574	Helix-loop-helix motif.				B cell lineage commitment|B cell lineage commitment|G1 phase of mitotic cell cycle|immunoglobulin V(D)J recombination|muscle cell differentiation|positive regulation of B cell proliferation|positive regulation of cell cycle|positive regulation of muscle cell differentiation|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus|protein complex|transcription factor complex	bHLH transcription factor binding|DNA binding|E-box binding|identical protein binding|mitogen-activated protein kinase kinase kinase binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|vitamin D response element binding			lung(2)|breast(2)|ovary(1)|large_intestine(1)|skin(1)	7		Acute lymphoblastic leukemia(61;5.94e-12)|all_hematologic(61;1.27e-07)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTGGCACATGCGCCCCAGCTC	0.627			T	PBX1|HLF|TFPT	pre B-ALL								25	74					0	0	0.007291	0	0		T	1615385	T	T	1615385	3	4	48	1	0	0	0	0	1	0	0	0	15719	768	27	1	482	1	TCF3	19	1615385	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	148955	1615385	57513598	665	36545											
SLC39A3	29985	broad.mit.edu	37	chr19	2733057	2733057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctgatgcccagggccaCggccaccagtgtctcgtgga	7	7	13	14	2	1	1	0	1	1	0	2	2	1	2	4	3	2	1	4	3	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:2733057C>T	uc002lwg.2	-	3	891	c.637G>A	c.(637-639)GTG>ATG	p.V213M	SLC39A3_uc010xgy.1_Missense_Mutation_p.V213M	NM_144564	NP_653165	Q9BRY0	S39A3_HUMAN	solute carrier family 39 (zinc transporter),	213	Helical; (Potential).					integral to membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCAGGGCCACGGCCACCAGT	0.697													28	40					0	0	0.004289	0	0		T	2733057	T	T	2733057	3	4	48	1	0	0	0	0	1	0	0	0	14644	536	19	1	311	1	SLC39A3	19	2733057	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1117672	2733057	56395926	666	36546											
TLE2	7089	broad.mit.edu	37	chr19	3013795	3013796	+	Frame_Shift_Ins	INS	-	G	G																															cagggggtggtagccgggctINSggggggctctgagggttggt																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:3013795_3013796insG	uc002lww.2	-	11	1007_1008	c.744_745insC	c.(742-747)CCCAGCfs	p.P248fs	TLE2_uc010xhb.1_5'UTR|TLE2_uc010dth.2_Frame_Shift_Ins_p.P249fs|TLE2_uc010xhc.1_Frame_Shift_Ins_p.P126fs|TLE2_uc010dti.2_Frame_Shift_Ins_p.P262fs|TLE2_uc010xhd.1_Frame_Shift_Ins_p.P156fs	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1	248_249	CCN domain.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTAGCCGGGCTGGGGGGCTCTG	0.609													32	64	---	---	---	---						.	G	3013796	G	G	3013795	7	5	48	1	0	1	1	0	0	0	0	0	15964	1580	55	0	1526	0	TLE2	19	3013795	Frame_Shift_Ins	INS	-	TCGA-BR-7703-01A-11D-2053-08	280738	3013795	56115188	667	36547											
GIPC3	126326	broad.mit.edu	37	chr19	3589552	3589552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgccacagtggaggaagCggtgagtgaaggggaggggc	9	4	22	6	1	0	2	0	2	0	0	0	5	0	5	1	8	2	1	1	8	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:3589552C>T	uc002lyd.3	+	4	731	c.704C>T	c.(703-705)GCG>GTG	p.A235V		NM_133261	NP_573568	Q8TF64	GIPC3_HUMAN	GIPC PDZ domain containing family, member 3	235										breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0025)|STAD - Stomach adenocarcinoma(1328;0.18)		gtggaggaagcggtgagtgaa	0.279													17	23					0	0	0.007413	0	0		T	3589552	T	T	3589552	3	4	48	1	0	0	0	0	1	0	0	0	6409	782	27	1	718	1	GIPC3	19	3589552	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	575757	3589552	55539431	668	36548											
TMIGD2	126259	broad.mit.edu	37	chr19	4292666	4292666	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttggtctaggagagaccCtgaccatagagacggggtgg	9	7	17	8	1	1	3	0	1	1	2	1	6	1	4	2	6	0	1	2	6	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:4292666C>T	uc002lzx.1	-	5	825	c.779G>A	c.(778-780)AGG>AAG	p.R260K	TMIGD2_uc010dtv.1_Missense_Mutation_p.R256K	NM_144615	NP_653216	Q96BF3	TMIG2_HUMAN	transmembrane and immunoglobulin domain	260	Pro-rich.|Cytoplasmic (Potential).					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGAGAGACCCTGACCATAGA	0.507													21	57					0	0	0.004656	0	0		T	4292666	T	T	4292666	3	4	48	1	0	0	0	0	1	0	0	0	16256	681	24	4	73	4	TMIGD2	19	4292666	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	703114	4292666	54836317	669	36549											
SEMA6B	10501	broad.mit.edu	37	chr19	4557220	4557220	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggggctccagctctacGcggtagaggttgtccctggg	4	9	18	10	2	1	1	0	0	1	1	3	1	3	1	2	6	2	4	2	6	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:4557220G>A	uc010duc.1	-	3	299	c.261C>T	c.(259-261)CGC>CGT	p.R87R	SEMA6B_uc010dud.2_Silent_p.R87R|SEMA6B_uc010xih.1_Silent_p.R87R	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	87	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGCTCTACGCGGTAGAGGT	0.662													6	15					0	0	0.006214	0	0		A	4557220	A	A	4557220	2	1	48	1	0	0	0	0	0	0	0	1	14065	1074	38	1		1	SEMA6B	19	4557220	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	264554	4557220	54571763	670	36550											
TUBB4	10382	broad.mit.edu	37	chr19	6496189	6496189	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccagctctgcgccctcCgtgtagtgcccctttgccca	4	10	8	19	2	1	0	0	0	1	0	3	0	3	0	7	0	4	2	7	0	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:6496189C>T	uc002mfg.1	-	4	428	c.321G>A	c.(319-321)ACG>ACA	p.T107T	TUBB4_uc002mff.1_Silent_p.T35T	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	107					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		CTGCGCCCTCCGTGTAGTGCC	0.647													17	71					0	0	0.010504	0	0		T	6496189	T	T	6496189	2	4	48	1	0	0	0	0	0	0	0	1	16784	639	23	1		1	TUBB4	19	6496189	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1938969	6496189	52632794	671	36551											
SNAPC2	6618	broad.mit.edu	37	chr19	7987008	7987008	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggaaagcctttgctccTgagcgcccctggaggacagg	7	7	14	13	2	0	1	0	1	0	0	1	4	1	4	5	4	3	1	5	4	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:7987008T>C	uc002miw.1	+	4	484	c.461T>C	c.(460-462)CTG>CCG	p.L154P	SNAPC2_uc002mix.1_RNA	NM_003083	NP_003074	Q13487	SNPC2_HUMAN	small nuclear RNA activating complex,	154					snRNA transcription|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	sequence-specific DNA binding transcription factor activity				0						CCTTTGCTCCTGAGCGCCCCT	0.672													37	86					0	0	0.00623	0	0		C	7987008	C	C	7987008	3	2	48	1	0	0	0	0	1	0	0	0	14860	1580	55	3	475	3	SNAPC2	19	7987008	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	1490819	7987008	51141975	672	36552											
LASS4	79603	broad.mit.edu	37	chr19	8326868	8326868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagactccagtgaggaggcgGcggcggcccaggaacctctg	8	4	16	13	3	1	2	0	1	1	1	2	4	2	4	3	6	1	0	3	6	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:8326868G>A	uc002mjg.2	+	12	1380	c.1060G>A	c.(1060-1062)GCG>ACG	p.A354T	LASS4_uc002mjh.2_Missense_Mutation_p.A303T|LASS4_uc002mji.2_Missense_Mutation_p.A190T|LASS4_uc010dvz.2_Missense_Mutation_p.A266T	NM_024552	NP_078828	Q9HA82	CERS4_HUMAN	LAG1 homolog, ceramide synthase 4	354						endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(1)	1						TGAGGAGGCGGCGGCGGCCCA	0.637													11	26					0	0	0.008291	0	0		A	8326868	A	A	8326868	3	1	48	1	0	0	0	0	1	0	0	0	8657	1203	42	2	1098	2	LASS4	19	8326868	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	339860	8326868	50802115	673	36553											
MUC16	94025	broad.mit.edu	37	chr19	9067365	9067365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggatgttcttctagaagagGcaacttctgtcctagaggtc	9	13	11	8	0	3	3	0	0	3	3	5	4	4	4	1	3	1	2	1	3	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:9067365G>A	uc002mkp.2	-	3	20285	c.20081C>T	c.(20080-20082)GCC>GTC	p.A6694V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6696	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTAGAAGAGGCAACTTCTGT	0.522													53	138					0	0	0.01441	0	0		A	9067365	A	A	9067365	3	1	48	1	0	0	0	0	1	0	0	0	9991	1203	42	2	23770	2	MUC16	19	9067365	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	740497	9067365	50061618	674	36554											
ZNF560	147741	broad.mit.edu	37	chr19	9578460	9578460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgttcaagaaagcctgacGgcacagtgaaggttttgcca	12	9	11	9	1	1	3	1	2	0	1	1	3	1	3	2	2	2	3	2	2	3	3	rs146030501	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:9578460G>A	uc002mlp.1	-	10	1373	c.1163C>T	c.(1162-1164)CCG>CTG	p.P388L	ZNF560_uc010dwr.1_Missense_Mutation_p.P282L	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	388	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						AAAGCCTGACGGCACAGTGAA	0.423													28	76					0	0	0.013726	0	0		A	9578460	A	A	9578460	3	1	48	1	0	0	0	0	1	0	0	0	18016	1116	39	1	1213	1	ZNF560	19	9578460	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	511095	9578460	49550523	675	36555											
COL5A3	50509	broad.mit.edu	37	chr19	10081693	10081693	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcccttctcccctggggaAccatctatgccctgcatggg	5	11	9	16	0	3	0	0	0	3	0	5	1	3	1	5	3	3	1	5	3	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:10081693A>G	uc002mmq.1	-	53	3926	c.3840T>C	c.(3838-3840)GGT>GGC	p.G1280G		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1280	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			CCCCTGGGGAACCATCTATGC	0.577													3	97					0	0	0.009096	0	0		G	10081693	G	G	10081693	2	3	48	1	0	0	0	0	0	0	0	1	3701	30	2	3		3	COL5A3	19	10081693	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	503233	10081693	49047290	676	36556											
CDKN2D	1032	broad.mit.edu	37	chr19	10677827	10677827	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggtgtgagacccctggcGtccctgcgatggagatcaga	9	7	15	10	2	1	3	1	1	0	3	2	6	2	3	3	3	1	0	3	3	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:10677827G>A	uc002mpa.2	-	2	710	c.408C>T	c.(406-408)GAC>GAT	p.D136D	KRI1_uc002mox.1_5'Flank|KRI1_uc002moy.1_5'Flank|CDKN2D_uc002mpb.2_Silent_p.D136D	NM_001800	NP_001791	P55273	CDN2D_HUMAN	cyclin-dependent kinase inhibitor 2D	136					anti-apoptosis|autophagic cell death|cell cycle arrest|DNA synthesis involved in DNA repair|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|negative regulation of caspase activity|negative regulation of cell growth|negative regulation of cell proliferation|regulation of cyclin-dependent protein kinase activity|response to retinoic acid|response to UV|response to vitamin D	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|protein kinase binding				0			Epithelial(33;1.58e-05)|all cancers(31;6.36e-05)			GACCCCTGGCGTCCCTGCGAT	0.617									Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System				23	69					0	0	0.00333	0	0		A	10677827	A	A	10677827	2	1	48	1	0	0	0	0	0	0	0	1	3169	1136	40	1		1	CDKN2D	19	10677827	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	596134	10677827	48451156	677	36557											
BEST2	54831	broad.mit.edu	37	chr19	12866954	12866954	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtgtttgcacccgtaGgtgtccatgctggcagtgga	5	12	14	10	1	0	0	0	0	0	0	1	1	1	1	3	3	2	5	3	3	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:12866954G>T	uc002mux.2	+	8	949	c.949_splice	c.e8-1	p.V317_splice		NM_017682	NP_060152	Q8NFU1	BEST2_HUMAN	vitelliform macular dystrophy 2-like 1						membrane depolarization|sensory perception of smell	chloride channel complex|cilium|plasma membrane	chloride channel activity			ovary(1)|pancreas(1)	2						TGCACCCGTAGGTGTCCATGC	0.632													16	134					1.15088e-07	1.23308e-07	0.004007	1	0		T	12866954	T	T	12866954	5	4	48	1	0	0	0	0	0	0	1	0	1406	1014	35	5	978	5	BEST2	19	12866954	Splice_Site	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2189127	12866954	46262029	678	36558											
HOOK2	29911	broad.mit.edu	37	chr19	12874211	12874211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggcatgggcaggcgccCgctcctccccagctcgctgc	4	6	13	18	3	0	0	0	0	0	0	3	0	2	0	4	3	2	5	4	3	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:12874211C>T	uc002muy.2	-	23	2216	c.2045G>A	c.(2044-2046)CGG>CAG	p.R682Q	HOOK2_uc010xmq.1_Missense_Mutation_p.R87Q|HOOK2_uc002muz.2_Missense_Mutation_p.R680Q	NM_013312	NP_037444	Q96ED9	HOOK2_HUMAN	hook homolog 2 isoform 1	682	Sufficient for interaction with CEP110.|Required for localization to the centrosome and induction of aggresome formation.				early endosome to late endosome transport|endocytosis|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|protein transport	centrosome|FHF complex|microtubule	identical protein binding|microtubule binding			ovary(1)|breast(1)|skin(1)	3						GGCAGGCGCCCGCTCCTCCCC	0.642													4	60					0	0	0.009096	0	0		T	12874211	T	T	12874211	3	4	48	1	0	0	0	0	1	0	0	0	7299	652	23	1	118	1	HOOK2	19	12874211	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	7257	12874211	46254772	679	36559											
CALR3	125972	broad.mit.edu	37	chr19	16593516	16593516	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcttctggagcatcggCgctggccagtccccatccag	5	7	15	14	2	1	0	0	0	1	0	4	1	3	1	4	5	1	3	4	5	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:16593516C>T	uc002ned.2	-	6	822	c.759G>A	c.(757-759)GCG>GCA	p.A253A	MED26_uc002nee.2_RNA	NM_145046	NP_659483	Q96L12	CALR3_HUMAN	calreticulin 3 precursor	253	3 X approximate repeats.|P-domain.|2-1.				protein folding	endoplasmic reticulum lumen	calcium ion binding|sugar binding|unfolded protein binding				0						GGAGCATCGGCGCTGGCCAGT	0.597													8	24					0	0	0.006214	0	0		T	16593516	T	T	16593516	2	4	48	1	0	0	0	0	0	0	0	1	2596	755	27	1		1	CALR3	19	16593516	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3719305	16593516	42535467	680	36560											
ZNF536	9745	broad.mit.edu	37	chr19	30935847	30935847	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcaagggcgagctgcccAtgaaggagaaggaagcgctg	12	4	17	8	2	0	2	0	1	0	1	0	5	0	3	1	4	3	3	1	4	4	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:30935847A>G	uc002nsu.1	+	2	1516	c.1378A>G	c.(1378-1380)ATG>GTG	p.M460V	ZNF536_uc010edd.1_Missense_Mutation_p.M460V	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	460					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CGAGCTGCCCATGAAGGAGAA	0.642													16	30					0	0	0.010504	0	0		G	30935847	G	G	30935847	3	3	48	1	0	0	0	0	1	0	0	0	17999	217	8	3	1380	3	ZNF536	19	30935847	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	14342331	30935847	28193136	681	36561											
TSHZ3	57616	broad.mit.edu	37	chr19	31768896	31768896	+	Frame_Shift_Del	DEL	G	-	-																															tgaaagtttgtcttgggcatGggggacgtctggctgctggg																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:31768896delG	uc002nsy.3	-	2	1868	c.1803delC	c.(1801-1803)CCCfs	p.P601fs		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	601					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TCTTGGGCATGGGGGACGTCT	0.547													49	111	---	---	---	---						.	-	31768896	-	-	31768896	7	5	48	1	0	1	0	1	0	0	0	0	16651	1335	47	0	1446	0	TSHZ3	19	31768896	Frame_Shift_Del	DEL	G	TCGA-BR-7703-01A-11D-2053-08	833049	31768896	27360087	682	36562											
CHST8	64377	broad.mit.edu	37	chr19	34263386	34263386	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaccgtccactatggcagCgctctcaagcgcctggacac	10	6	9	16	3	1	0	1	0	1	0	3	1	2	1	3	2	3	2	3	2	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:34263386C>T	uc002nus.3	+	5	1198	c.693C>T	c.(691-693)AGC>AGT	p.S231S	CHST8_uc002nut.3_Silent_p.S231S|CHST8_uc002nuu.2_Silent_p.S231S	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	231	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)					ACTATGGCAGCGCTCTCAAGC	0.632													28	49					0	0	0.008361	0	0		T	34263386	T	T	34263386	2	4	48	1	0	0	0	0	0	0	0	1	3413	767	27	1		1	CHST8	19	34263386	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2494490	34263386	24865597	683	36563											
KIAA0355	9710	broad.mit.edu	37	chr19	34832706	34832706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggctttctcatggagaggCgtgagaacttcctgcatgga	9	11	13	8	1	1	2	1	1	1	2	3	5	2	3	1	4	2	2	1	4	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:34832706C>T	uc002nvd.3	+	10	2726	c.1867C>T	c.(1867-1869)CGT>TGT	p.R623C		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	623										ovary(1)	1	Esophageal squamous(110;0.162)					CATGGAGAGGCGTGAGAACTT	0.458													14	42					0	0	0.00245	0	0		T	34832706	T	T	34832706	3	4	48	1	0	0	0	0	1	0	0	0	8186	768	27	1	1901	1	KIAA0355	19	34832706	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	569320	34832706	24296277	684	36564											
CD22	933	broad.mit.edu	37	chr19	35831914	35831914	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgaatggaaaccccatggCgcctgggaggagccatcgct	10	7	13	11	2	0	1	0	1	0	0	1	4	0	4	4	4	2	1	4	4	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:35831914C>T	uc010edt.2	+	7	1457	c.1380C>T	c.(1378-1380)GGC>GGT	p.G460G	CD22_uc010xst.1_Silent_p.G288G|CD22_uc010edu.2_Silent_p.G372G|CD22_uc010edv.2_Silent_p.G460G|CD22_uc002nzb.3_Silent_p.G283G|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	460	Extracellular (Potential).|Ig-like C2-type 4.				cell adhesion		protein binding|sugar binding			ovary(5)|lung(3)|breast(1)	9	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.83e-19)|OV - Ovarian serous cystadenocarcinoma(14;3.19e-18)|all cancers(14;3.41e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)		OspA lipoprotein(DB00045)	AACCCCATGGCGCCTGGGAGG	0.537													20	24					0	0	0.012319	0	0		T	35831914	T	T	35831914	2	4	48	1	0	0	0	0	0	0	0	1	2988	755	27	1		1	CD22	19	35831914	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	999208	35831914	23297069	685	36565											
KRTDAP	388533	broad.mit.edu	37	chr19	35979569	35979569	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaagcgtactcacagatcGcaatttgtcgatgttcagga	12	10	11	8	3	2	2	2	0	0	2	4	5	2	3	0	1	2	3	0	1	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:35979569G>A	uc002nzh.2	-	3	175	c.163C>T	c.(163-165)CGA>TGA	p.R55*		NM_207392	NP_997275	P60985	KTDAP_HUMAN	keratinocyte differentiation-associated protein	55					cell differentiation	extracellular region					0	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CTCACAGATCGCAATTTGTCG	0.507													46	96					0	0	0.01441	0	0		A	35979569	A	A	35979569	4	1	48	1	0	0	0	0	0	1	0	0	8596	1095	38	1	152	1	KRTDAP	19	35979569	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	147655	35979569	23149414	686	36566											
ZNF566	84924	broad.mit.edu	37	chr19	36940763	36940763	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctttcttaaactgccgatTacattcccaatcatctctga	10	16	3	12	1	4	1	1	1	3	0	6	2	5	1	2	0	3	0	2	0	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:36940763T>C	uc002oea.3	-	5	455	c.373A>G	c.(373-375)AAT>GAT	p.N125D	ZNF566_uc010xte.1_Missense_Mutation_p.N125D|ZNF566_uc010xtf.1_Missense_Mutation_p.N126D|ZNF566_uc002oeb.3_Missense_Mutation_p.N125D|ZNF566_uc002oec.3_Missense_Mutation_p.N21D|ZNF566_uc010xtg.1_Missense_Mutation_p.N21D	NM_032838	NP_116227	Q969W8	ZN566_HUMAN	zinc finger protein 566 isoform 1	125					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					AACTGCCGATTACATTCCCAA	0.403													8	229					0	0	0.004482	0	0		C	36940763	C	C	36940763	3	2	48	1	0	0	0	0	1	0	0	0	18022	1754	61	3	887	3	ZNF566	19	36940763	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	961194	36940763	22188220	687	36567											
HKR1	284459	broad.mit.edu	37	chr19	37854373	37854373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttttatgtgcagggagtgtgGcagaaggtttcggcagaagc	9	11	16	5	1	0	2	0	0	0	2	1	3	0	3	0	4	2	4	0	4	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:37854373G>A	uc002ogb.2	+	6	1945	c.1676G>A	c.(1675-1677)GGC>GAC	p.G559D	HKR1_uc002ofx.2_Missense_Mutation_p.G275D|HKR1_uc002ofy.2_Missense_Mutation_p.G275D|HKR1_uc002oga.2_Missense_Mutation_p.G541D|HKR1_uc010xto.1_Missense_Mutation_p.G541D|HKR1_uc002ogc.2_Missense_Mutation_p.G540D|HKR1_uc010xtp.1_Missense_Mutation_p.G498D|HKR1_uc002ogd.2_Missense_Mutation_p.G498D	NM_181786	NP_861451	P10072	HKR1_HUMAN	GLI-Kruppel family member HKR1	559	C2H2-type 10.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGGGAGTGTGGCAGAAGGTTT	0.502													4	32					0	0	0.000602	0	0		A	37854373	A	A	37854373	3	1	48	1	0	0	0	0	1	0	0	0	7210	1203	42	2	1690	2	HKR1	19	37854373	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	913610	37854373	21274610	688	36568											
GGN	199720	broad.mit.edu	37	chr19	38876233	38876233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccctccaccactgctgtcagGcacggtagctgtagctcgtt	6	10	10	15	2	1	0	1	0	0	0	3	0	2	0	3	2	3	7	3	2	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:38876233G>A	uc002oij.1	-	3	1804	c.1669C>T	c.(1669-1671)CCT>TCT	p.P557S	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Intron	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	557	Interactions with ZNF403/GGNBP2 and OAZ3 (By similarity).				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CTGCTGTCAGGCACGGTAGCT	0.672													10	57					0	0	0.010729	0	0		A	38876233	A	A	38876233	3	1	48	1	0	0	0	0	1	0	0	0	6373	1203	42	2	297	2	GGN	19	38876233	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1021860	38876233	20252750	689	36569											
ZNF780B	163131	broad.mit.edu	37	chr19	40540359	40540359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaagggtttctcacctgtaCaagtttttgatgcagagaaa	13	12	9	7	0	1	2	1	1	1	1	2	3	1	2	1	1	2	4	1	1	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:40540359C>T	uc002omu.2	-	5	2472	c.2407G>A	c.(2407-2409)GTA>ATA	p.V803I	ZNF780B_uc002omv.2_Missense_Mutation_p.V655I	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	803	C2H2-type 23; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					CTCACCTGTACAAGTTTTTGA	0.403													8	46					0	0	0.006214	0	0		T	40540359	T	T	40540359	3	4	48	1	0	0	0	0	1	0	0	0	18178	478	17	4	98	4	ZNF780B	19	40540359	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1664126	40540359	18588624	690	36570											
AKT2	208	broad.mit.edu	37	chr19	40762934	40762934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcttcagcaggaagtacCgtggcctccaggtcttgatg	7	10	12	12	2	3	1	1	1	2	0	4	2	4	2	3	3	2	3	3	3	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:40762934C>T	uc002onf.2	-	3	336	c.74G>A	c.(73-75)CGG>CAG	p.R25Q	AKT2_uc010egs.2_Missense_Mutation_p.R25Q|AKT2_uc010egt.2_5'UTR|AKT2_uc010xvj.1_5'UTR|AKT2_uc010egu.1_5'UTR|AKT2_uc010xvk.1_Missense_Mutation_p.R25Q	NM_001626	NP_001617	P31751	AKT2_HUMAN	AKT2 kinase	25	PH.				insulin receptor signaling pathway|negative regulation of plasma membrane long-chain fatty acid transport|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2			Lung(22;0.000499)			CAGGAAGTACCGTGGCCTCCA	0.562			A		ovarian|pancreatic 								13	53					0	0	0.001855	0	0		T	40762934	T	T	40762934	3	4	48	1	0	0	0	0	1	0	0	0	480	652	23	1	1419	1	AKT2	19	40762934	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	222575	40762934	18366049	691	36571											
PRX	57716	broad.mit.edu	37	chr19	40900690	40900690	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggcagagacagggtcAcctggggcacctgaaccctg	9	5	13	14	0	1	2	1	1	0	1	2	3	2	2	4	4	1	2	4	4	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:40900690A>G	uc002onr.2	-	7	3838	c.3569T>C	c.(3568-3570)GTG>GCG	p.V1190A	PRX_uc002onq.2_Missense_Mutation_p.V1051A|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	1190	Glu-rich (acidic).				axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AGACAGGGTCACCTGGGGCAC	0.632													8	157					0	0	0.006214	0	0		G	40900690	G	G	40900690	3	3	48	1	0	0	0	0	1	0	0	0	12664	159	6	3	820	3	PRX	19	40900690	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	137756	40900690	18228293	692	36572											
PSG2	5670	broad.mit.edu	37	chr19	43579693	43579693	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccactggtagcttgtgtcCggagtctcaggatcacaggt	8	10	12	11	1	2	0	2	0	1	0	4	2	3	2	2	4	1	2	2	4	1	2	rs146429644		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:43579693C>T	uc002ovr.2	-	3	615	c.522G>A	c.(520-522)CCG>CCA	p.P174P	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Silent_p.P174P|PSG2_uc010eiq.1_Silent_p.P174P|PSG2_uc002ovs.3_Silent_p.P174P|PSG2_uc002ovt.3_Silent_p.P174P	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	174	Ig-like C2-type 1.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				AGCTTGTGTCCGGAGTCTCAG	0.517													84	171					0	0	0.01441	0	0		T	43579693	T	T	43579693	2	4	48	1	0	0	0	0	0	0	0	1	12677	639	23	1		1	PSG2	19	43579693	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2679003	43579693	15549290	693	36573											
IRGQ	126298	broad.mit.edu	37	chr19	44097037	44097037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccttctcccagacactccGgatcctcgccctcgccgtct	4	10	7	20	4	2	1	0	0	2	1	7	2	4	2	6	1	1	0	6	1	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:44097037G>A	uc002oww.2	-	2	1131	c.1013C>T	c.(1012-1014)CCG>CTG	p.P338L	IRGQ_uc010eiv.2_Missense_Mutation_p.P338L	NM_001007561	NP_001007562	Q8WZA9	IRGQ_HUMAN	immunity-related GTPase family, Q	338							protein binding			ovary(1)|pancreas(1)	2		Prostate(69;0.0199)				CAGACACTCCGGATCCTCGCC	0.617													52	91					0	0	0.01441	0	0		A	44097037	A	A	44097037	3	1	48	1	0	0	0	0	1	0	0	0	7855	1116	39	1	862	1	IRGQ	19	44097037	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	517344	44097037	15031946	694	36574											
RSPH6A	81492	broad.mit.edu	37	chr19	46313976	46313976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcggggtcgtcccgcagcGtgtccagcttggggtggaac	4	9	16	12	4	1	0	0	0	1	0	5	1	3	1	2	5	3	2	2	5	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:46313976G>A	uc002pdm.2	-	2	916	c.773C>T	c.(772-774)ACG>ATG	p.T258M	RSPH6A_uc002pdl.2_Translation_Start_Site	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	258						intracellular				ovary(1)|central_nervous_system(1)	2						GTCCCGCAGCGTGTCCAGCTT	0.627													28	30					0	0	0.00632	0	0		A	46313976	A	A	46313976	3	1	48	1	0	0	0	0	1	0	0	0	13732	1145	40	1	1400	1	RSPH6A	19	46313976	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2216939	46313976	12815007	695	36575											
PNMAL2	57469	broad.mit.edu	37	chr19	46997563	46997563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctcttccaccttcacgCgggtcccgttagtgtccttg	3	12	9	17	4	2	0	1	0	1	0	5	0	5	0	6	1	0	1	6	1	1	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:46997563C>T	uc002pes.2	-	1	1607	c.1160G>A	c.(1159-1161)CGC>CAC	p.R387H	uc002peu.1_5'Flank	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	387										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		CACCTTCACGCGGGTCCCGTT	0.647													4	18					0	0	0.000602	0	0		T	46997563	T	T	46997563	3	4	48	1	0	0	0	0	1	0	0	0	12177	768	27	1	751	1	PNMAL2	19	46997563	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	683587	46997563	12131420	696	36576											
LIG1	3978	broad.mit.edu	37	chr19	48646810	48646810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cattagttaccgagcagacaCctcctcgatcttctcaaacg	11	10	6	14	3	2	1	1	0	2	1	5	3	3	1	3	0	3	2	3	0	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:48646810C>T	uc002pia.1	-	11	1024	c.904G>A	c.(904-906)GTG>ATG	p.V302M	LIG1_uc010xze.1_Translation_Start_Site|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.V234M|LIG1_uc010xzg.1_Missense_Mutation_p.V271M|LIG1_uc010xzh.1_RNA	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	302					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	CGAGCAGACACCTCCTCGATC	0.587								NER					34	76					0	0	0.012213	0	0		T	48646810	T	T	48646810	3	4	48	1	0	0	0	0	1	0	0	0	8797	507	18	4	1927	4	LIG1	19	48646810	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1649247	48646810	10482173	697	36577											
GRIN2D	2906	broad.mit.edu	37	chr19	48919394	48919394	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcagcaatggcacggtgTccccctcggccttcctcggt	4	8	12	17	5	0	0	0	0	0	0	4	0	2	0	4	4	1	3	4	4	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:48919394T>C	uc002pjc.3	+	7	1805	c.1717T>C	c.(1717-1719)TCC>CCC	p.S573P		NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	573	Extracellular (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		all_epithelial(76;1.11e-06)|all_lung(116;5.79e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		all cancers(93;0.00014)|OV - Ovarian serous cystadenocarcinoma(262;0.000233)|Epithelial(262;0.0112)|GBM - Glioblastoma multiforme(486;0.0161)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	TGGCACGGTGTCCCCCTCGGC	0.577													3	45					0	0	0.004672	0	0		C	48919394	C	C	48919394	3	2	48	1	0	0	0	0	1	0	0	0	6798	1667	58	3	1739	3	GRIN2D	19	48919394	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	272584	48919394	10209589	698	36578											
TULP2	7288	broad.mit.edu	37	chr19	49391323	49391323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgcccgggagcgctggccGcagcacgtaggcttccatgt	5	7	16	13	4	0	0	0	0	0	0	1	1	1	1	3	4	3	5	3	4	1	2	rs17847566		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:49391323G>A	uc002pkz.2	-	8	983	c.832C>T	c.(832-834)CGG>TGG	p.R278W		NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	278					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		AGCGCTGGCCGCAGCACGTAG	0.642													12	17					0	0	0.00245	0	0		A	49391323	A	A	49391323	3	1	48	1	0	0	0	0	1	0	0	0	16800	1086	38	1	754	1	TULP2	19	49391323	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	471929	49391323	9737660	699	36579											
PPFIA3	8541	broad.mit.edu	37	chr19	49632105	49632105	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccatgccgtgtgcttgcagCtgctcctggaacacctggag	6	9	12	14	1	0	0	0	0	0	0	1	2	1	2	4	2	6	4	4	2	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:49632105C>T	uc002pmr.2	+	4	675	c.343C>T	c.(343-345)CTG>TTG	p.L115L	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_Silent_p.L39L|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_5'UTR	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	115	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		GTGCTTGCAGCTGCTCCTGGA	0.602													13	56					0	0	0.006122	0	0		T	49632105	T	T	49632105	2	4	48	1	0	0	0	0	0	0	0	1	12330	811	28	2		2	PPFIA3	19	49632105	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	240782	49632105	9496878	700	36580											
TEAD2	8463	broad.mit.edu	37	chr19	49863251	49863251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagccccctcactgccgcCggtaccctcctcactgcctt	4	8	6	23	2	2	0	2	0	0	0	3	0	3	0	8	1	4	1	8	1	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:49863251C>T	uc002pnj.2	-	2	173	c.82G>A	c.(82-84)GGC>AGC	p.G28S	TEAD2_uc002png.2_Missense_Mutation_p.G28S|TEAD2_uc002pnh.2_Missense_Mutation_p.G28S|TEAD2_uc002pni.2_Missense_Mutation_p.G28S|TEAD2_uc010yao.1_Intron|TEAD2_uc010emw.2_Missense_Mutation_p.G28S	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	28					hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		TCACTGCCGCCGGTACCCTCC	0.697													26	44					0	0	0.010818	0	0		T	49863251	T	T	49863251	3	4	48	1	0	0	0	0	1	0	0	0	15764	652	23	1	1305	1	TEAD2	19	49863251	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	231146	49863251	9265732	701	36581											
SLC17A7	57030	broad.mit.edu	37	chr19	49934335	49934335	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgacagtgtgcccacgccGttggagatgcccatgaggat	8	7	13	13	3	0	2	0	1	0	1	0	5	0	3	4	2	2	1	4	2	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:49934335G>A	uc002pnp.2	-	11	1498	c.1326C>T	c.(1324-1326)AAC>AAT	p.N442N	SLC17A7_uc002pno.2_Silent_p.N104N	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	442	Helical; (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		TGCCCACGCCGTTGGAGATGC	0.622													17	26					0	0	0.008871	0	0		A	49934335	A	A	49934335	2	1	48	1	0	0	0	0	0	0	0	1	14447	1136	40	1		1	SLC17A7	19	49934335	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	71084	49934335	9194648	702	36582											
TSKS	60385	broad.mit.edu	37	chr19	50250722	50250722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaccgggtcaccttccagCagttctcctgggtcagacac	8	8	10	15	1	3	2	2	0	1	2	5	2	4	2	4	2	1	2	4	2	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:50250722C>T	uc002ppm.2	-	5	598	c.587G>A	c.(586-588)TGC>TAC	p.C196Y		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	196							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		CACCTTCCAGCAGTTCTCCTG	0.582													4	75					0	0	0.009096	0	0		T	50250722	T	T	50250722	3	4	48	1	0	0	0	0	1	0	0	0	16652	710	25	2	1219	2	TSKS	19	50250722	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	316387	50250722	8878261	703	36583											
C19orf41	126123	broad.mit.edu	37	chr19	50666287	50666287	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctccatgcccatcagcacGgccccggcgcgcgcctgcag	5	4	11	21	5	1	0	1	0	0	0	2	0	2	0	6	2	3	2	6	2	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:50666287G>A	uc002prp.1	-	1	252	c.165C>T	c.(163-165)GCC>GCT	p.A55A		NM_152358	NP_689571	Q6UXV1	IZUM2_HUMAN	hypothetical protein LOC126123 precursor	55	Extracellular (Potential).					integral to membrane					0		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00364)|OV - Ovarian serous cystadenocarcinoma(262;0.0052)		CCATCAGCACGGCCCCGGCGC	0.667													14	40					0	0	0.00245	0	0		A	50666287	A	A	50666287	2	1	48	1	0	0	0	0	0	0	0	1	1927	1103	39	1		1	C19orf41	19	50666287	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	415565	50666287	8462696	704	36584											
C19orf63	284361	broad.mit.edu	37	chr19	50983973	50983973	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaggacgtggacctggagCtgttcaacacctcggtgcag	8	8	15	10	2	1	0	1	0	0	0	2	4	1	4	2	5	3	3	2	5	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:50983973C>T	uc002psl.2	+	5	604	c.538C>T	c.(538-540)CTG>TTG	p.L180L	C19orf63_uc002psj.2_Silent_p.L180L|C19orf63_uc002psk.2_Silent_p.L180L	NM_206538	NP_996261	Q5UCC4	INM02_HUMAN	hematopoietic signal peptide-containing isoform	180	Extracellular (Potential).					extracellular region|integral to membrane					0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00733)|GBM - Glioblastoma multiforme(134;0.0252)		GGACCTGGAGCTGTTCAACAC	0.711													3	7					0	0	0.004672	0	0		T	50983973	T	T	50983973	2	4	48	1	0	0	0	0	0	0	0	1	1948	796	28	2		2	C19orf63	19	50983973	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	317686	50983973	8145010	705	36585											
SYT3	84258	broad.mit.edu	37	chr19	51140615	51140615	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacccgcgcacagaggtcCgagaccaggatgagtgcccg	9	3	15	14	5	0	3	0	1	0	2	1	6	1	5	4	3	1	1	4	3	0	0	rs143593640		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:51140615C>T	uc002pst.2	-	1	688	c.54G>A	c.(52-54)TCG>TCA	p.S18S	SYT3_uc002psv.2_Silent_p.S18S|SYT3_uc010ycd.1_Silent_p.S18S	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	18	Vesicular (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		CACAGAGGTCCGAGACCAGGA	0.632													3	64					0	0	0.009096	0	0		T	51140615	T	T	51140615	2	4	48	1	0	0	0	0	0	0	0	1	15500	639	23	1		1	SYT3	19	51140615	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	156642	51140615	7988368	706	36586											
CLEC11A	6320	broad.mit.edu	37	chr19	51228606	51228606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgccgcatccgctcagccCggaccagcccaacggtggca	7	4	11	19	5	1	0	1	0	0	0	3	1	2	1	5	3	3	3	5	3	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:51228606C>T	uc002psy.2	+	4	1032	c.854C>T	c.(853-855)CCG>CTG	p.P285L		NM_002975	NP_002966	Q9Y240	CLC11_HUMAN	stem cell growth factor precursor	285	C-type lectin.				positive regulation of cell proliferation	cytoplasm|extracellular region	growth factor activity|sugar binding			ovary(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		CCGCTCAGCCCGGACCAGCCC	0.701													4	12					0	0	0.000602	0	0		T	51228606	T	T	51228606	3	4	48	1	0	0	0	0	1	0	0	0	3499	652	23	1	868	1	CLEC11A	19	51228606	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	87991	51228606	7900377	707	36587											
SIGLEC10	89790	broad.mit.edu	37	chr19	51914462	51914462	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcataatggagctcctctTggctctcctgggattctggg	5	13	13	10	0	3	0	0	0	3	0	5	2	4	2	2	5	1	3	2	5	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:51914462T>A	uc002pwo.2	-	11	2601	c.1985A>T	c.(1984-1986)CAA>CTA	p.Q662L	SIGLEC10_uc002pwp.2_Missense_Mutation_p.Q604L|SIGLEC10_uc002pwq.2_Missense_Mutation_p.Q509L|SIGLEC10_uc002pwr.2_Missense_Mutation_p.Q567L|SIGLEC10_uc010ycy.1_Missense_Mutation_p.Q477L|SIGLEC10_uc010ycz.1_Missense_Mutation_p.Q519L|SIGLEC10_uc010eow.2_Missense_Mutation_p.Q379L	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	662	Cytoplasmic (Potential).				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GAGCTCCTCTTGGCTCTCCTG	0.557													5	97					0	0	0.001168	0	0		A	51914462	A	A	51914462	3	1	48	1	0	0	0	0	1	0	0	0	14331	1812	63	5	112	5	SIGLEC10	19	51914462	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	685856	51914462	7214521	708	36588											
SIGLEC12	89858	broad.mit.edu	37	chr19	51994931	51994931	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctcggagtactcatagccGatggcctcctgttcctgtgg	6	12	11	12	2	2	0	1	0	1	0	5	2	4	1	4	3	2	2	4	3	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:51994931G>A	uc002pwx.1	-	8	1808	c.1752C>T	c.(1750-1752)ATC>ATT	p.I584I	SIGLEC12_uc002pww.1_Silent_p.I466I|SIGLEC12_uc010eoy.1_Silent_p.I311I	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	584	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		ACTCATAGCCGATGGCCTCCT	0.582													34	87					0	0	0.005524	0	0		A	51994931	A	A	51994931	2	1	48	1	0	0	0	0	0	0	0	1	14333	1048	37	1		1	SIGLEC12	19	51994931	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	80469	51994931	7134052	709	36589											
SIGLEC12	89858	broad.mit.edu	37	chr19	52002839	52002839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggggtccagggaggacaCggaggcccccatccaggtga	9	4	17	11	1	0	1	0	1	0	0	2	4	2	4	4	7	0	0	4	7	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:52002839C>T	uc002pwx.1	-	3	996	c.940G>A	c.(940-942)GTG>ATG	p.V314M	SIGLEC12_uc002pww.1_Missense_Mutation_p.V196M|SIGLEC12_uc010eoy.1_Missense_Mutation_p.V41M	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	314	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		AGGGAGGACACGGAGGCCCCC	0.667													14	38					0	0	0.00245	0	0		T	52002839	T	T	52002839	3	4	48	1	0	0	0	0	1	0	0	0	14333	536	19	1	871	1	SIGLEC12	19	52002839	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	7908	52002839	7126144	710	36590											
ZNF808	388558	broad.mit.edu	37	chr19	53058467	53058467	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaaaccttacaagtgtaaCgactgtggcaataccttccg	13	9	9	10	2	0	1	0	0	0	1	1	3	1	1	3	1	4	2	3	1	6	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:53058467C>T	uc010epq.1	+	5	2475	c.2298C>T	c.(2296-2298)AAC>AAT	p.N766N	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	766	C2H2-type 20.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		ACAAGTGTAACGACTGTGGCA	0.443													72	133					0	0	0.01441	0	0		T	53058467	T	T	53058467	2	4	48	1	0	0	0	0	0	0	0	1	18198	535	19	1		1	ZNF808	19	53058467	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1055628	53058467	6070516	711	36591											
ZNF320	162967	broad.mit.edu	37	chr19	53384108	53384108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctttcaaggtgtgatttgCgaatgtaaactttgtcacat	10	16	9	6	1	3	1	2	1	1	0	3	2	3	1	0	1	2	1	0	1	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:53384108C>T	uc002qag.2	-	4	1462	c.1271G>A	c.(1270-1272)CGC>CAC	p.R424H	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.R370H|ZNF320_uc002qai.2_Missense_Mutation_p.R424H	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	424	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		GTGTGATTTGCGAATGTAAAC	0.388													15	51					0	0	0.00245	0	0		T	53384108	T	T	53384108	3	4	48	1	0	0	0	0	1	0	0	0	17864	768	27	1	262	1	ZNF320	19	53384108	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	325641	53384108	5744875	712	36592											
ZNF816A	125893	broad.mit.edu	37	chr19	53454224	53454224	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatatacaatgtattgcttCtgattaaagatcttgccaca	13	15	6	7	0	2	3	0	2	2	1	2	3	2	3	1	0	3	2	1	0	6	7			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:53454224C>A	uc002qal.1	-	5	1105	c.804G>T	c.(802-804)CAG>CAT	p.Q268H	ZNF321_uc010eqj.2_Intron|ZNF321_uc002qak.1_Intron|ZNF816A_uc002qam.1_Missense_Mutation_p.Q252H	NM_001031665	NP_001026835	Q0VGE8	ZN816_HUMAN	zinc finger protein 816A	268	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0313)		TGTATTGCTTCTGATTAAAGA	0.373													47	67					1.22102e-19	1.36612e-19	0.01441	1	0		A	53454224	A	A	53454224	3	1	48	1	0	0	0	0	1	0	0	0	18202	912	32	5	1155	5	ZNF816A	19	53454224	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	70116	53454224	5674759	713	36593											
KIR2DL1	3802	broad.mit.edu	37	chr19	55285048	55285048	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactccccctatcaggtgTcagctcccagtgaccctctg	6	10	7	18	0	4	1	3	1	1	0	6	1	6	1	4	1	1	1	4	1	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:55285048T>C	uc002qhb.1	+	3	372	c.334T>C	c.(334-336)TCA>CCA	p.S112P	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_Intron|KIR3DP1_uc010yfi.1_Intron|KIR2DL1_uc010erz.1_Missense_Mutation_p.S112P	NM_014218	NP_055033	P43626	KI2L1_HUMAN	killer cell immunoglobulin-like receptor, two	112	Extracellular (Potential).				immune response|natural killer cell inhibitory signaling pathway	integral to plasma membrane	protein binding|receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		CTATCAGGTGTCAGCTCCCAG	0.522													8	207					0	0	0.010729	0	0		C	55285048	C	C	55285048	3	2	48	1	0	0	0	0	1	0	0	0	8332	1667	58	3	344	3	KIR2DL1	19	55285048	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	1830824	55285048	3843935	714	36594											
PPP1R12C	54776	broad.mit.edu	37	chr19	55607456	55607456	+	Frame_Shift_Del	DEL	G	-	-																															ccctcatcctcgtcctggatGgggggccccccagccccacc																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:55607456delG	uc002qix.2	-	8	1132	c.1116delC	c.(1114-1116)CCCfs	p.P372fs	PPP1R12C_uc010yfs.1_Frame_Shift_Del_p.P298fs|PPP1R12C_uc002qiy.2_Frame_Shift_Del_p.P372fs	NM_017607	NP_060077	Q9BZL4	PP12C_HUMAN	protein phosphatase 1, regulatory subunit 12C	372						cytoplasm				ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		CGTCCTGGATGGGGGGCCCCC	0.642													20	38	---	---	---	---						.	-	55607456	-	-	55607456	7	5	48	1	0	1	0	1	0	0	0	0	12378	1335	47	0	1292	0	PPP1R12C	19	55607456	Frame_Shift_Del	DEL	G	TCGA-BR-7703-01A-11D-2053-08	322408	55607456	3521527	715	36595											
SAPS1	22870	broad.mit.edu	37	chr19	55758396	55758396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcttcctcgtccagcagctCgggcaggctcaggtcctccc	4	9	11	17	2	2	0	1	0	1	0	8	0	6	0	4	3	2	4	4	3	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:55758396C>T	uc002qjw.3	-	2	318	c.76G>A	c.(76-78)GAG>AAG	p.E26K	SAPS1_uc002qjv.2_Missense_Mutation_p.E88K	NM_014931	NP_055746	Q9UPN7	PP6R1_HUMAN	SAPS domain family, member 1	26	Interaction with PPP6C.				regulation of phosphoprotein phosphatase activity	cytoplasm	protein phosphatase binding				0		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		TCCAGCAGCTCGGGCAGGCTC	0.617													28	79					0	0	0.007291	0	0		T	55758396	T	T	55758396	3	4	48	1	0	0	0	0	1	0	0	0	13861	893	31	1	2661	1	SAPS1	19	55758396	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	150940	55758396	3370587	716	36596											
FIZ1	84922	broad.mit.edu	37	chr19	56104137	56104137	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tccctttcccgggcggcggtCgccgcctcctccccgccgcc	0	7	11	23	7	0	0	0	0	0	0	5	0	4	0	9	3	0	0	9	3	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:56104137C>G	uc002qli.3	-	3	1260	c.1170G>C	c.(1168-1170)GCG>GCC	p.A390A	FIZ1_uc002qlj.3_Silent_p.A390A	NM_032836	NP_116225	Q96SL8	FIZ1_HUMAN	FLT3-interacting zinc finger 1	390					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein kinase binding|receptor binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		GGGCGGCGGTCGCCGCCTCCT	0.741													4	6					0	0	0.000602	0	0		G	56104137	G	G	56104137	2	3	48	1	0	0	0	0	0	0	0	1	5914	871	31	5		5	FIZ1	19	56104137	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	345741	56104137	3024846	717	36597											
NLRP11	204801	broad.mit.edu	37	chr19	56303726	56303726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacgtcacatgcaacactccGtaattttttaagcgattcac	13	12	5	11	3	2	0	2	0	0	0	3	1	3	0	1	0	4	2	1	0	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:56303726G>A	uc010ygf.1	-	9	3165	c.2454C>T	c.(2452-2454)TAC>TAT	p.Y818Y	NLRP11_uc002qlz.2_Silent_p.Y665Y|NLRP11_uc002qmb.2_Silent_p.Y719Y|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	818	LRR 4.						ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		GCAACACTCCGTAATTTTTTA	0.468													41	83					0	0	0.013114	0	0		A	56303726	A	A	56303726	2	1	48	1	0	0	0	0	0	0	0	1	10492	1140	40	1		1	NLRP11	19	56303726	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	199589	56303726	2825257	718	36598											
ZNF417	147687	broad.mit.edu	37	chr19	58420742	58420742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgactaaaagatttccCgcactcctcacagggataag	12	10	7	12	1	2	2	1	1	1	1	4	3	4	3	2	1	0	1	2	1	3	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:58420742C>T	uc002qqq.2	-	3	1103	c.904G>A	c.(904-906)GGG>AGG	p.G302R	ZNF417_uc010yhm.1_Missense_Mutation_p.G259R|ZNF417_uc002qqr.2_Missense_Mutation_p.G301R	NM_152475	NP_689688	Q8TAU3	ZN417_HUMAN	zinc finger protein 417	302	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0151)		AAAGATTTCCCGCACTCCTCA	0.453													4	108					0	0	0.004482	0	0		T	58420742	T	T	58420742	3	4	48	1	0	0	0	0	1	0	0	0	17919	652	23	1	827	1	ZNF417	19	58420742	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2117016	58420742	708241	719	36599											
ZSCAN18	65982	broad.mit.edu	37	chr19	58596096	58596096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggagcctcgccctccaCgctctctgggggaccgcccg	3	5	16	17	4	1	0	0	0	1	0	4	2	2	2	5	5	1	1	5	5	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:58596096C>T	uc002qri.2	-	7	1798	c.1489G>A	c.(1489-1491)GTG>ATG	p.V497M	ZSCAN18_uc002qrj.3_Missense_Mutation_p.V496M|ZSCAN18_uc010yhs.1_Missense_Mutation_p.V361M|ZSCAN18_uc002qrh.2_Missense_Mutation_p.V497M|ZSCAN18_uc010yht.1_Missense_Mutation_p.V553M|ZSCAN18_uc002qrk.1_3'UTR|ZSCAN18_uc002qrl.2_3'UTR	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	497					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TCGCCCTCCACGCTCTCTGGG	0.746													3	7					0	0	0.004672	0	0		T	58596096	T	T	58596096	3	4	48	1	0	0	0	0	1	0	0	0	18255	536	19	1	47	1	ZSCAN18	19	58596096	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	175354	58596096	532887	720	36600											
ZSCAN18	65982	broad.mit.edu	37	chr19	58596141	58596141	+	Frame_Shift_Del	DEL	G	-	-																															agcccccgcctgggcttcgcGggtggacggttgggggcccc																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:58596141delG	uc002qri.2	-	7	1753	c.1444delC	c.(1444-1446)CGCfs	p.R482fs	ZSCAN18_uc002qrj.3_Frame_Shift_Del_p.R481fs|ZSCAN18_uc010yhs.1_Frame_Shift_Del_p.R346fs|ZSCAN18_uc002qrh.2_Frame_Shift_Del_p.R482fs|ZSCAN18_uc010yht.1_Frame_Shift_Del_p.R538fs|ZSCAN18_uc002qrk.1_3'UTR|ZSCAN18_uc002qrl.2_3'UTR	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	482					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TGGGCTTCGCGGGTGGACGGT	0.726													4	7	---	---	---	---						.	-	58596141	-	-	58596141	7	5	48	1	0	1	0	1	0	0	0	0	18255	1116	39	0	92	0	ZSCAN18	19	58596141	Frame_Shift_Del	DEL	G	TCGA-BR-7703-01A-11D-2053-08	45	58596141	532842	721	36601											
ZNF497	162968	broad.mit.edu	37	chr19	58867569	58867569	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttgcaacggtggctgaaaGgcttcccgcactcgccgcaa	8	7	13	13	4	0	1	0	1	0	0	2	1	1	1	2	4	2	6	2	4	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:58867569G>T	uc002qsh.1	-	3	1622	c.1433C>A	c.(1432-1434)CCT>CAT	p.P478H	A1BG_uc002qsd.3_5'Flank|A1BG_uc002qsf.1_Intron|ZNF497_uc002qsi.1_Missense_Mutation_p.P478H|uc002qsj.1_5'Flank|uc002qsk.1_5'Flank	NM_198458	NP_940860	Q6ZNH5	ZN497_HUMAN	zinc finger protein 497	478	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0278)		GTGGCTGAAAGGCTTCCCGCA	0.697													8	23					1.12685e-05	1.19005e-05	0.004482	1	0		T	58867569	T	T	58867569	3	4	48	1	0	0	0	0	1	0	0	0	17971	1000	35	5	67	5	ZNF497	19	58867569	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	271428	58867569	261414	722	36602											
ZNF324	25799	broad.mit.edu	37	chr19	58983065	58983065	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccttcgtgtgcgcgctctgCggtgctgccttcagccaggg	2	10	14	15	4	2	0	1	0	1	0	3	0	2	0	3	2	5	2	3	2	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr19:58983065C>T	uc002qsw.1	+	4	1300	c.1206C>T	c.(1204-1206)TGC>TGT	p.C402C	ZNF324_uc002qsx.1_Silent_p.C179C	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	402	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		GCGCGCTCTGCGGTGCTGCCT	0.662													10	21					0	0	0.006214	0	0		T	58983065	T	T	58983065	2	4	48	1	0	0	0	0	0	0	0	1	17869	776	27	1		1	ZNF324	19	58983065	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	115496	58983065	145918	723	36603											
TMC2	117532	broad.mit.edu	37	chr20	2575544	2575544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcgggtggctgaggtaccGgctgcctatggcttacttta	6	12	13	10	2	0	1	0	1	0	0	1	1	0	1	2	5	3	4	2	5	4	5	rs138292313	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:2575544G>A	uc002wgf.1	+	9	1022	c.1007G>A	c.(1006-1008)CGG>CAG	p.R336Q	TMC2_uc002wgg.1_Missense_Mutation_p.R320Q|TMC2_uc010zpw.1_Missense_Mutation_p.R168Q|TMC2_uc010zpx.1_Missense_Mutation_p.R167Q	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	336	Extracellular (Potential).					integral to membrane				ovary(3)	3						CTGAGGTACCGGCTGCCTATG	0.517													6	82					0	0	0.00308	0	0		A	2575544	A	A	2575544	3	1	48	1	0	0	0	0	1	0	0	0	16010	1116	39	1	1041	1	TMC2	20	2575544	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08		2575544	60449976	724	36604											
PTPRA	5786	broad.mit.edu	37	chr20	3001963	3001963	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttctttccagtgcaagtgCgcccagtactggccagacca	8	11	9	13	1	1	1	0	0	1	1	2	1	2	1	4	1	3	2	4	1	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:3001963C>T	uc010zqd.1	+	13	1400	c.1083C>T	c.(1081-1083)TGC>TGT	p.C361C	PTPRA_uc002whj.2_Silent_p.C350C|PTPRA_uc002whk.2_Silent_p.C341C|PTPRA_uc002whl.2_Silent_p.C341C|PTPRA_uc002whm.2_Silent_p.C117C|PTPRA_uc002whn.2_Silent_p.C341C|PTPRA_uc002who.2_Silent_p.C13C	NM_002836	NP_002827	P18433	PTPRA_HUMAN	protein tyrosine phosphatase, receptor type, A	350	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1						AGTGCAAGTGCGCCCAGTACT	0.532													16	63					0	0	0.008871	0	0		T	3001963	T	T	3001963	2	4	48	1	0	0	0	0	0	0	0	1	12820	776	27	1		1	PTPRA	20	3001963	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	426419	3001963	60023557	725	36605											
SLC4A11	83959	broad.mit.edu	37	chr20	3215425	3215425	+	Frame_Shift_Del	DEL	A	-	-																															atctcaaggttgacattgacAaaaaaacggatactctcgcc																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:3215425delA	uc002wig.2	-	2	300	c.252delT	c.(250-252)TTTfs	p.F84fs	SLC4A11_uc010zqe.1_Frame_Shift_Del_p.F111fs|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Frame_Shift_Del_p.F68fs	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	84	Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						TGACATTGACAAAAAAACGGA	0.587													22	41	---	---	---	---						.	-	3215425	-	-	3215425	7	5	48	1	0	1	0	1	0	0	0	0	14677	127	5	0	2495	0	SLC4A11	20	3215425	Frame_Shift_Del	DEL	A	TCGA-BR-7703-01A-11D-2053-08	213462	3215425	59810095	726	36606											
ATRN	8455	broad.mit.edu	37	chr20	3557644	3557644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggagtgcattgccctgcccGgtaggccttgcagggtcatc	6	9	14	12	1	1	0	1	0	0	0	2	1	1	1	3	4	4	3	3	4	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:3557644G>A	uc002wim.2	+	14	2443	c.2353G>A	c.(2353-2355)GAA>AAA	p.E785K	ATRN_uc002wil.2_Missense_Mutation_p.E785K	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	785	Extracellular (Potential).|PSI 2.				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						TGCCCTGCCCGGTAGGCCTTG	0.577													20	46					0	0	0.012319	0	0		A	3557644	A	A	3557644	3	1	48	1	0	0	0	0	1	0	0	0	1207	1130	39	1	2407	1	ATRN	20	3557644	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	342219	3557644	59467876	727	36607											
ATRN	8455	broad.mit.edu	37	chr20	3562942	3562942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttatcagaacccagtactcGgggactgaaggctgcaacct	11	9	10	11	1	1	2	1	1	0	1	2	3	1	3	2	3	4	3	2	3	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:3562942G>A	uc002wim.2	+	16	2795	c.2705G>A	c.(2704-2706)CGG>CAG	p.R902Q	ATRN_uc002wil.2_Missense_Mutation_p.R902Q	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	902	Extracellular (Potential).|C-type lectin.				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						CCCAGTACTCGGGGACTGAAG	0.458													31	62					0	0	0.004289	0	0		A	3562942	A	A	3562942	3	1	48	1	0	0	0	0	1	0	0	0	1207	1116	39	1	2767	1	ATRN	20	3562942	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5298	3562942	59462578	728	36608											
PLCB1	23236	broad.mit.edu	37	chr20	8639224	8639224	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcttaccgttgatcagatGatggattttatcaaccttaa	12	16	6	7	1	3	3	2	2	1	1	3	4	3	4	2	1	2	1	2	1	5	6			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:8639224G>T	uc002wnb.2	+	9	738	c.735G>T	c.(733-735)ATG>ATT	p.M245I	PLCB1_uc010zrb.1_Missense_Mutation_p.M144I|PLCB1_uc002wna.2_Missense_Mutation_p.M245I|PLCB1_uc002wnc.1_Missense_Mutation_p.M144I	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	245					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TTGATCAGATGATGGATTTTA	0.323													18	50					1.15919e-05	1.22274e-05	0.008871	1	0		T	8639224	T	T	8639224	3	4	48	1	0	0	0	0	1	0	0	0	12046	1290	45	5	769	5	PLCB1	20	8639224	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5076282	8639224	54386296	729	36609											
ESF1	51575	broad.mit.edu	37	chr20	13763472	13763472	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaactagattttttgaatcGatttcttttttagtctgggt	8	21	7	5	1	3	2	1	1	2	1	4	3	3	2	0	1	1	0	0	1	4	8			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:13763472G>A	uc002woj.2	-	2	423	c.315C>T	c.(313-315)ATC>ATT	p.I105I	ESF1_uc002wok.1_Silent_p.I105I|C20orf7_uc002wol.1_5'Flank|C20orf7_uc002wom.2_5'Flank|C20orf7_uc002won.2_5'Flank|C20orf7_uc002woo.2_5'Flank	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	105	Lys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						TTTTTGAATCGATTTCTTTTT	0.303													3	4					0	0	0.004672	0	0		A	13763472	A	A	13763472	2	1	48	1	0	0	0	0	0	0	0	1	5259	1048	37	1		1	ESF1	20	13763472	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	5124248	13763472	49262048	730	36610											
NAA20	51126	broad.mit.edu	37	chr20	20007472	20007472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagctagggaagaatggcacGggcacgtcacagctctgtct	10	8	13	10	2	3	1	1	0	2	1	3	2	3	2	0	3	2	4	0	3	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:20007472G>A	uc002wrp.2	+	4	318	c.214G>A	c.(214-216)GGG>AGG	p.G72R	NAA20_uc002wrq.2_Missense_Mutation_p.G72R|NAA20_uc002wrr.2_Missense_Mutation_p.G60R	NM_016100	NP_057184	P61599	NAA20_HUMAN	N-acetyltransferase 5 isoform a	72	N-acetyltransferase.					cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity				0						AGAATGGCACGGGCACGTCAC	0.433													33	106					0	0	0.004289	0	0		A	20007472	A	A	20007472	3	1	48	1	0	0	0	0	1	0	0	0	10138	1116	39	1	249	1	NAA20	20	20007472	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	6244000	20007472	43018048	731	36611											
GZF1	64412	broad.mit.edu	37	chr20	23345920	23345920	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagcagggccggaggaggaAgaggaggaggaggaggagga	15	0	23	3	1	0	1	0	0	0	1	0	10	0	10	1	10	1	1	1	10	2	0	rs146870841		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:23345920A>G	uc010gdb.2	+	3	1074	c.900A>G	c.(898-900)GAA>GAG	p.E300E	GZF1_uc002wsy.2_Silent_p.E300E|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Silent_p.E300E	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	300					transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					Cggaggaggaagaggaggagg	0.378													8	25					0	0	0.008291	0	0		G	23345920	G	G	23345920	2	3	48	1	0	0	0	0	0	0	0	1	6930	69	3	3		3	GZF1	20	23345920	Silent	SNP	A	TCGA-BR-7703-01A-11D-2053-08	3338448	23345920	39679600	732	36612											
CBFA2T2	9139	broad.mit.edu	37	chr20	32232360	32232360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtccgccgactgcagcGtgcccagcccagccctcgac	6	4	11	20	4	0	0	0	0	0	0	2	2	1	0	6	1	5	1	6	1	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:32232360G>A	uc002wzg.1	+	12	2260	c.1723G>A	c.(1723-1725)GTG>ATG	p.V575M	CBFA2T2_uc010zug.1_Missense_Mutation_p.V349M|CBFA2T2_uc002wze.1_Missense_Mutation_p.V566M|CBFA2T2_uc002wzf.1_RNA|CBFA2T2_uc002wzh.1_Missense_Mutation_p.V546M|CBFA2T2_uc002wzi.1_RNA|CBFA2T2_uc002wzj.1_RNA|CBFA2T2_uc002wzk.1_Missense_Mutation_p.V123M	NM_005093	NP_005084	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit	575						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2						CGACTGCAGCGTGCCCAGCCC	0.662													5	88					0	0	0.001168	0	0		A	32232360	A	A	32232360	3	1	48	1	0	0	0	0	1	0	0	0	2700	1145	40	1	1803	1	CBFA2T2	20	32232360	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	8886440	32232360	30793160	733	36613											
CEP250	11190	broad.mit.edu	37	chr20	34067839	34067839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggaactggacactgaaCggagtcaggcagagcaggag	13	4	16	8	1	1	2	1	1	0	1	1	6	1	6	0	5	4	3	0	5	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:34067839C>T	uc002xcm.2	+	21	3126	c.2455C>T	c.(2455-2457)CGG>TGG	p.R819W	CEP250_uc010zve.1_Missense_Mutation_p.R187W	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	819	Gln/Glu-rich.|Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			GGACACTGAACGGAGTCAGGC	0.582													25	60					0	0	0.007291	0	0		T	34067839	T	T	34067839	3	4	48	1	0	0	0	0	1	0	0	0	3255	527	19	1	2521	1	CEP250	20	34067839	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1835479	34067839	28957681	734	36614											
SRC	6714	broad.mit.edu	37	chr20	36024669	36024669	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcttctacatcacctccCgcacccagttcaacagcctg	8	8	7	18	2	3	0	2	0	1	0	4	0	4	0	4	1	3	3	4	1	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:36024669C>A	uc002xgx.2	+	8	1107	c.658C>A	c.(658-660)CGC>AGC	p.R220S	SRC_uc002xgy.2_Missense_Mutation_p.R220S	NM_005417	NP_005408	P12931	SRC_HUMAN	proto-oncogene tyrosine-protein kinase SRC	220	SH2.				axon guidance|bone resorption|cell junction assembly|cellular membrane organization|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular protein kinase cascade|leukocyte migration|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of integrin activation|Ras protein signal transduction|regulation of bone resorption|regulation of vascular permeability|response to interleukin-1|signal complex assembly|T cell costimulation	caveola|cytosol|mitochondrial inner membrane	ATP binding|heme binding|integrin binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|SH3/SH2 adaptor activity			large_intestine(10)|lung(1)|central_nervous_system(1)|endometrium(1)	13		Myeloproliferative disorder(115;0.00878)			Dasatinib(DB01254)	CATCACCTCCCGCACCCAGTT	0.622													28	58					4.4194e-11	4.84056e-11	0.013726	1	0		A	36024669	A	A	36024669	3	1	48	1	0	0	0	0	1	0	0	0	15159	652	23	5	676	5	SRC	20	36024669	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1956830	36024669	27000851	735	36615											
ACTR5	79913	broad.mit.edu	37	chr20	37384640	37384640	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcagaaaatcctccaagcGgaagtcaacctcgaggtgga	15	5	11	10	2	1	1	1	0	0	1	4	4	3	3	3	3	3	1	3	3	6	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:37384640G>A	uc002xjd.2	+	5	1159	c.1134G>A	c.(1132-1134)GCG>GCA	p.A378A		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	378	Potential.				DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)				TCCTCCAAGCGGAAGTCAACC	0.537													10	23					0	0	0.006214	0	0		A	37384640	A	A	37384640	2	1	48	1	0	0	0	0	0	0	0	1	215	1103	39	1		1	ACTR5	20	37384640	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1359971	37384640	25640880	736	36616											
PLCG1	5335	broad.mit.edu	37	chr20	39794988	39794988	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgtaatgagtttgagatgCgactttcagagcctgtccca	9	12	11	9	1	1	3	1	2	0	2	2	5	2	3	2	0	2	3	2	0	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:39794988C>T	uc002xjp.1	+	17	2075	c.1954C>T	c.(1954-1956)CGA>TGA	p.R652*	PLCG1_uc002xjo.1_Nonsense_Mutation_p.R652*|PLCG1_uc010zwe.1_Nonsense_Mutation_p.R278*|PLCG1_uc010ggf.2_Nonsense_Mutation_p.R2*	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	652	SH2 1.				activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				GTTTGAGATGCGACTTTCAGA	0.587													4	79					0	0	0.000602	0	0		T	39794988	T	T	39794988	4	4	48	1	0	0	0	0	0	1	0	0	12054	760	27	1	2020	1	PLCG1	20	39794988	Nonsense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2410348	39794988	23230532	737	36617											
CHD6	84181	broad.mit.edu	37	chr20	40112160	40112160	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaattttctcctctgctcCtgaaaaggaatggaacaaaa	15	11	7	8	0	2	2	0	1	2	1	4	4	3	4	2	2	2	1	2	2	8	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:40112160C>A	uc002xka.1	-	16	2436	c.2258_splice	c.e16-1	p.G753_splice	CHD6_uc002xkd.2_Splice_Site_p.G731_splice	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6						chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TCCTCTGCTCCTGAAAAGGAA	0.433													5	9					0.000602214	0.00062189	0.000602	1	0		A	40112160	A	A	40112160	5	1	48	1	0	0	0	0	0	0	1	0	3332	695	24	5	5978	5	CHD6	20	40112160	Splice_Site	SNP	C	TCGA-BR-7703-01A-11D-2053-08	317172	40112160	22913360	738	36618											
SEMG2	6407	broad.mit.edu	37	chr20	43850895	43850895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagtagttaacaaacaacaaCgtgagactaaaaattctcat	19	10	5	7	1	1	1	1	1	1	1	2	2	1	1	0	0	4	2	0	0	9	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:43850895C>T	uc010ggz.2	+	2	679	c.622C>T	c.(622-624)CGT>TGT	p.R208C	SEMG2_uc002xnk.2_Missense_Mutation_p.R208C|SEMG2_uc002xnl.2_Missense_Mutation_p.R208C	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	208	2-2.|Repeat-rich region.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				CAAACAACAACGTGAGACTAA	0.398													18	43					0	0	0.00499	0	0		T	43850895	T	T	43850895	3	4	48	1	0	0	0	0	1	0	0	0	14070	536	19	1	628	1	SEMG2	20	43850895	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	3738735	43850895	19174625	739	36619											
MATN4	8785	broad.mit.edu	37	chr20	43926884	43926884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgaagaccaggccaacaCgaggcacgttaagggcacgg	12	3	14	12	4	0	2	0	1	0	1	0	3	0	2	3	4	1	3	3	4	3	1	rs142628816		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:43926884C>T	uc002xnn.2	-	7	1539	c.1352G>A	c.(1351-1353)CGT>CAT	p.R451H	MATN4_uc002xno.2_Missense_Mutation_p.R410H|MATN4_uc002xnp.2_Missense_Mutation_p.R369H|MATN4_uc010zwr.1_Missense_Mutation_p.R399H|MATN4_uc002xnr.1_Missense_Mutation_p.R451H	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	492	VWFA 2.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				CAGGCCAACACGAGGCACGTT	0.662													5	65					0	0	0.001984	0	0		T	43926884	T	T	43926884	3	4	48	1	0	0	0	0	1	0	0	0	9354	536	19	1	409	1	MATN4	20	43926884	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	75989	43926884	19098636	740	36620											
SLC2A10	81031	broad.mit.edu	37	chr20	45354113	45354113	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcaggcatcaccgtgggCatcctgctctcctatgccct	6	9	11	15	1	2	0	1	0	1	0	4	1	3	0	4	3	2	4	4	3	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:45354113C>T	uc002xsl.2	+	2	535	c.438C>T	c.(436-438)GGC>GGT	p.G146G		NM_030777	NP_110404	O95528	GTR10_HUMAN	solute carrier family 2 member 10	146	Helical; Name=5; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				TCACCGTGGGCATCCTGCTCT	0.627													4	102					0	0	0.009096	0	0		T	45354113	T	T	45354113	2	4	48	1	0	0	0	0	0	0	0	1	14564	697	25	2		2	SLC2A10	20	45354113	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1427229	45354113	17671407	741	36621											
PREX1	57580	broad.mit.edu	37	chr20	47253137	47253137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagcggtagcccagggccGccagcagctgcttggagaag	8	6	16	11	2	0	1	0	0	0	1	0	2	0	1	3	3	5	5	3	3	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:47253137G>A	uc002xtw.1	-	32	4054	c.4031C>T	c.(4030-4032)GCG>GTG	p.A1344V	PREX1_uc002xtv.1_Missense_Mutation_p.A641V	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1344					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GCCCAGGGCCGCCAGCAGCTG	0.687													7	15					0	0	0.00308	0	0		A	47253137	A	A	47253137	3	1	48	1	0	0	0	0	1	0	0	0	12498	1087	38	1	984	1	PREX1	20	47253137	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1899024	47253137	15772383	742	36622											
STAU1	6780	broad.mit.edu	37	chr20	47741116	47741116	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgtggggtgggccactctcCcgggccacctgtttcagagg	5	9	15	12	1	2	1	1	0	1	1	3	1	2	1	4	5	0	1	4	5	0	1	rs139881819		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:47741116C>A	uc002xud.2	-	7	1029	c.618G>T	c.(616-618)CGG>CGT	p.R206R	STAU1_uc002xua.2_Silent_p.R125R|STAU1_uc002xub.2_Silent_p.R131R|STAU1_uc002xuc.2_Silent_p.R125R|STAU1_uc002xue.2_Silent_p.R125R|STAU1_uc002xuf.2_Silent_p.R131R|STAU1_uc002xug.2_Silent_p.R206R	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	206	DRBM 2.					microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			GGCCACTCTCCCGGGCCACCT	0.507													22	42					3.01185e-09	3.26253e-09	0.003954	1	0		A	47741116	A	A	47741116	2	1	48	1	0	0	0	0	0	0	0	1	15297	610	22	5		5	STAU1	20	47741116	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	487979	47741116	15284404	743	36623											
ZNF217	7764	broad.mit.edu	37	chr20	52193262	52193262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	taaaggtttttcgtgacaatCcacacttggcctgtatctgc	9	14	8	10	1	1	1	0	1	1	0	3	1	2	1	2	2	1	2	2	2	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:52193262C>T	uc002xwq.3	-	3	2312	c.2041G>A	c.(2041-2043)GAT>AAT	p.D681N	ZNF217_uc010gij.1_Missense_Mutation_p.D673N	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	681					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			TCGTGACAATCCACACTTGGC	0.468													48	137					0	0	0.01441	0	0		T	52193262	T	T	52193262	3	4	48	1	0	0	0	0	1	0	0	0	17797	855	30	4	1113	4	ZNF217	20	52193262	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	4452146	52193262	10832258	744	36624											
TFAP2C	7022	broad.mit.edu	37	chr20	55206438	55206438	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcccagtcggccgaccccTactcgcatctgggggaagcg	7	6	12	16	4	1	0	0	0	1	0	4	2	2	1	4	3	2	1	4	3	2	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:55206438T>C	uc002xya.2	+	2	469	c.226T>C	c.(226-228)TAC>CAC	p.Y76H	TFAP2C_uc010zzi.1_5'UTR	NM_003222	NP_003213	Q92754	AP2C_HUMAN	transcription factor AP-2 gamma	76	Gln/Pro-rich (transactivation domain).				cell-cell signaling|male gonad development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Colorectal(105;0.229)			GGCCGACCCCTACTCGCATCT	0.706													3	22					0	0	0.004672	0	0		C	55206438	C	C	55206438	3	2	48	1	0	0	0	0	1	0	0	0	15814	1522	53	3	232	3	TFAP2C	20	55206438	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	3013176	55206438	7819082	745	36625											
GTPBP5	26164	broad.mit.edu	37	chr20	60770930	60770931	+	Frame_Shift_Del	DEL	CA	-	-																															gcgctggggcaagctgcttcCacagtgagccccgcaaggag																								rs11700220	byFrequency	TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:60770930_60770931delCA	uc002yce.3	+	3	315_316	c.277_278delCA	c.(277-279)CACfs	p.H93fs	GTPBP5_uc011aab.1_5'UTR|GTPBP5_uc011aac.1_5'UTR|GTPBP5_uc011aad.1_5'UTR|GTPBP5_uc011aae.1_5'UTR|GTPBP5_uc011aaf.1_Frame_Shift_Del_p.H93fs|GTPBP5_uc011aag.1_Frame_Shift_Del_p.H93fs	NM_015666	NP_056481	Q9H4K7	GTPB5_HUMAN	GTP binding protein 5	93	Localized in the mitocondria.|Not localized in the mitocondria.				ribosome biogenesis	mitochondrion	GTP binding|GTPase activity|magnesium ion binding				0	Breast(26;3.52e-09)		BRCA - Breast invasive adenocarcinoma(19;2.5e-08)			AAGCTGCTTCCACAGTGAGCCC	0.584													18	36	---	---	---	---						.	-	60770931	-	-	60770930	7	5	48	1	0	1	0	1	0	0	0	0	6899	594	21	0	283	0	GTPBP5	20	60770930	Frame_Shift_Del	DEL	CA	TCGA-BR-7703-01A-11D-2053-08	5564492	60770930	2254590	746	36626											
LAMA5	3911	broad.mit.edu	37	chr20	60913608	60913608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgcacagacagcgtcccaCccttgggtccttccggcagg	6	9	11	15	2	0	1	0	0	0	1	3	1	3	1	4	3	2	2	4	3	0	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:60913608C>T	uc002ycq.2	-	12	1601	c.1534G>A	c.(1534-1536)GTG>ATG	p.V512M		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	512	Laminin EGF-like 4.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAGCGTCCCACCCTTGGGTCC	0.662													6	12					0	0	0.004482	0	0		T	60913608	T	T	60913608	3	4	48	1	0	0	0	0	1	0	0	0	8625	507	18	4	9829	4	LAMA5	20	60913608	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	142678	60913608	2111912	747	36627											
TPD52L2	7165	broad.mit.edu	37	chr20	62500698	62500698	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgtctgactccatgacGgatgttcctgtcgacacagg	7	11	11	12	2	1	2	0	2	1	0	4	4	3	3	2	2	1	2	2	2	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:62500698G>A	uc002yhc.2	+	2	198	c.69G>A	c.(67-69)ACG>ACA	p.T23T	TPD52L2_uc002ygy.2_Silent_p.T23T|TPD52L2_uc002ygz.2_Silent_p.T23T|TPD52L2_uc002yha.2_Silent_p.T23T|TPD52L2_uc002yhb.2_Silent_p.T23T|TPD52L2_uc002yhd.2_Silent_p.T23T|TPD52L2_uc011abk.1_5'UTR|TPD52L2_uc011abl.1_Intron	NM_003288	NP_003279	O43399	TPD54_HUMAN	tumor protein D52-like 2 isoform e	23					regulation of cell proliferation	perinuclear region of cytoplasm	protein binding|protein homodimerization activity			ovary(1)|skin(1)	2	all_cancers(38;1.3e-12)|all_epithelial(29;2.23e-14)|Lung NSC(23;5.92e-10)|all_lung(23;2.08e-09)					ACTCCATGACGGATGTTCCTG	0.517													29	78					0	0	0.008361	0	0		A	62500698	A	A	62500698	2	1	48	1	0	0	0	0	0	0	0	1	16425	1103	39	1		1	TPD52L2	20	62500698	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1587090	62500698	524822	748	36628											
MYT1	4661	broad.mit.edu	37	chr20	62848507	62848507	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacacccagggccaacttGgccaaggagctggagaagtt	11	5	13	12	0	0	1	0	0	0	1	0	3	0	2	4	4	2	2	4	4	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr20:62848507G>A	uc002yii.2	+	11	2083	c.1719G>A	c.(1717-1719)TTG>TTA	p.L573L	MYT1_uc002yih.2_Silent_p.L275L|MYT1_uc002yij.2_Silent_p.L205L	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	573				ATPRANLA -> RHTQGQLG (in Ref. 5; AAA59897).	cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					GGGCCAACTTGGCCAAGGAGC	0.577													29	42					0	0	0.004289	0	0		A	62848507	A	A	62848507	2	1	48	1	0	0	0	0	0	0	0	1	10124	1339	47	4		4	MYT1	20	62848507	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	347809	62848507	177013	749	36629											
SAMSN1	64092	broad.mit.edu	37	chr21	15882784	15882784	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagcttgttatgccaccTgatgaaagcagaagttcaca	14	9	9	9	0	1	3	1	2	0	1	1	4	1	3	2	0	4	4	2	0	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr21:15882784T>C	uc002yju.1	-	5	492	c.410_splice	c.e5-1	p.S137_splice	SAMSN1_uc010gky.1_Intron|SAMSN1_uc002yjv.1_Splice_Site_p.S205_splice	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization						negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		TTATGCCACCTGATGAAAGCA	0.463													21	59					0	0	0.012319	0	0		C	15882784	C	C	15882784	5	2	48	1	0	0	0	0	0	0	1	0	13855	1594	55	3	729	3	SAMSN1	21	15882784	Splice_Site	SNP	T	TCGA-BR-7703-01A-11D-2053-08		15882784	32247111	750	36630											
GABPA	2551	broad.mit.edu	37	chr21	27137089	27137089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactatgagaaactcagtcGtgcattaaggtaagccttta	14	11	9	7	1	1	1	1	1	0	1	2	3	1	1	1	1	4	2	1	1	6	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr21:27137089G>A	uc002ylx.3	+	9	1654	c.1127G>A	c.(1126-1128)CGT>CAT	p.R376H	GABPA_uc002yly.3_Missense_Mutation_p.R376H	NM_002040	NP_002031	Q06546	GABPA_HUMAN	GA binding protein transcription factor, alpha	376	ETS.				positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding			ovary(1)|central_nervous_system(1)	2						AAACTCAGTCGTGCATTAAGG	0.328													15	29					0	0	0.00499	0	0		A	27137089	A	A	27137089	3	1	48	1	0	0	0	0	1	0	0	0	6171	1145	40	1	1157	1	GABPA	21	27137089	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	11254305	27137089	20992806	751	36631											
RNF160	26046	broad.mit.edu	37	chr21	30325581	30325581	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcccgacgtattaccaagtAcacgtaagttatcatacgta	13	10	8	10	4	1	0	1	0	0	0	1	1	1	0	2	1	3	5	2	1	8	7			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr21:30325581A>G	uc002ymr.2	-	17	3348	c.3335T>C	c.(3334-3336)GTA>GCA	p.V1112A		NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	1066							ligase activity|zinc ion binding				0						ATTACCAAGTACACGTAAGTT	0.328													17	44					0	0	0.008871	0	0		G	30325581	G	G	30325581	3	3	48	1	0	0	0	0	1	0	0	0	13480	391	14	3	2159	3	RNF160	21	30325581	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	3188492	30325581	17804314	752	36632											
BRWD1	54014	broad.mit.edu	37	chr21	40587277	40587277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctgacttcccaaactaacGcagacagcctccttcaaaat	14	9	4	14	1	2	2	1	1	1	1	4	2	4	2	3	0	3	1	3	0	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr21:40587277G>A	uc002yxk.1	-	32	3810	c.3671C>T	c.(3670-3672)GCG>GTG	p.A1224V	BRWD1_uc010goc.1_5'UTR|BRWD1_uc002yxl.2_Missense_Mutation_p.A1224V|BRWD1_uc010god.1_Missense_Mutation_p.A190V	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1224	Bromo 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				CCAAACTAACGCAGACAGCCT	0.353													3	29					0	0	0.004672	0	0		A	40587277	A	A	40587277	3	1	48	1	0	0	0	0	1	0	0	0	1528	1087	38	1	3574	1	BRWD1	21	40587277	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	10261696	40587277	7542618	753	36633											
CBS	875	broad.mit.edu	37	chr21	44488617	44488617	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaaagccagggcactcAcagagctcacacttcaggcc	11	6	8	16	0	4	1	3	0	1	1	5	1	4	1	3	2	2	2	3	2	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr21:44488617A>G	uc002zcu.2	-	4	561	c.316_splice	c.e4+1	p.L106_splice	CBS_uc002zcs.1_5'Flank|CBS_uc002zct.2_Splice_Site_p.L106_splice|CBS_uc002zcw.3_Splice_Site_p.L106_splice|CBS_uc002zcv.2_Splice_Site_p.L106_splice	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase						cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	CAGGGCACTCACAGAGCTCAC	0.458													17	34					0	0	0.008871	0	0		G	44488617	G	G	44488617	5	3	48	1	0	0	0	0	0	0	1	0	2714	173	6	3	1393	3	CBS	21	44488617	Splice_Site	SNP	A	TCGA-BR-7703-01A-11D-2053-08	3901340	44488617	3641278	754	36634											
ICOSLG	23308	broad.mit.edu	37	chr21	45657063	45657063	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcagctgagctccacgtcGctgcctaccatcgctctgac	6	8	10	17	4	1	2	0	2	1	0	4	2	2	2	3	0	4	5	3	0	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr21:45657063G>A	uc002zee.2	-	3	227	c.93C>T	c.(91-93)AGC>AGT	p.S31S	ICOSLG_uc011afc.1_Intron|ICOSLG_uc002zef.2_Intron|ICOSLG_uc010gpp.1_Silent_p.S31S	NM_015259	NP_056074	O75144	ICOSL_HUMAN	inducible T-cell co-stimulator ligand precursor	31	Ig-like V-type.|Extracellular (Potential).				B cell activation|defense response|hyperosmotic response|positive regulation of activated T cell proliferation|signal transduction|T cell activation|T cell costimulation		receptor binding				0				Colorectal(79;0.0163)|READ - Rectum adenocarcinoma(84;0.0772)		GCTCCACGTCGCTGCCTACCA	0.502													20	41					0	0	0.003954	0	0		A	45657063	A	A	45657063	2	1	48	1	0	0	0	0	0	0	0	1	7503	1078	38	1		1	ICOSLG	21	45657063	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1168446	45657063	2472832	755	36635											
DIP2A	23181	broad.mit.edu	37	chr21	47987520	47987520	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagctggaccccatctatgtCgcctacaacatgtgagcgca	10	8	9	14	2	1	1	0	1	1	0	2	2	1	2	3	1	4	2	3	1	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr21:47987520C>T	uc002zjo.2	+	38	4884	c.4701C>T	c.(4699-4701)GTC>GTT	p.V1567V	DIP2A_uc011afz.1_Silent_p.V1563V|DIP2A_uc002zjs.2_Silent_p.V247V|DIP2A_uc002zjt.2_RNA	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1567					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		CCATCTATGTCGCCTACAACA	0.617													20	69					0	0	0.014323	0	0		T	47987520	T	T	47987520	2	4	48	1	0	0	0	0	0	0	0	1	4533	871	31	1		1	DIP2A	21	47987520	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	2330457	47987520	142375	756	36636											
SCARF2	91179	broad.mit.edu	37	chr22	20783851	20783851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggtccttgccgcggcaagCgcagcagcagccgagcagcg	8	3	16	14	5	0	0	0	0	0	0	1	1	1	0	3	2	7	5	3	2	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:20783851C>T	uc002zsj.1	-	8	1501	c.1396G>A	c.(1396-1398)GCT>ACT	p.A466T	SCARF2_uc002zsk.1_Missense_Mutation_p.A466T	NM_153334	NP_699165	Q96GP6	SREC2_HUMAN	scavenger receptor class F, member 2 isoform 1	466	Cytoplasmic (Potential).				cell adhesion	integral to membrane	protein binding|receptor activity			breast(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CCGCGGCAAGCGCAGCAGCAG	0.697													11	26					0	0	0.010729	0	0		T	20783851	T	T	20783851	3	4	48	1	0	0	0	0	1	0	0	0	13909	768	27	1	1232	1	SCARF2	22	20783851	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08		20783851	30520715	757	36637											
PPIL2	23759	broad.mit.edu	37	chr22	22035655	22035655	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacatcgtggctgtgaggacGaccggcaacgtctacgccta	9	7	12	13	5	1	1	0	1	1	0	2	3	1	2	2	3	2	2	2	3	3	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:22035655G>A	uc010gtj.1	+	7	479	c.363G>A	c.(361-363)ACG>ACA	p.T121T	PPIL2_uc002zvh.3_Silent_p.T121T|PPIL2_uc002zvi.3_Silent_p.T121T|PPIL2_uc002zvg.3_Silent_p.T121T|PPIL2_uc011aij.1_Silent_p.T100T	NM_148175	NP_680480	Q13356	PPIL2_HUMAN	peptidylprolyl isomerase-like 2 isoform a	121					blood coagulation|leukocyte migration|protein folding|protein polyubiquitination	Golgi lumen|nucleus|ubiquitin ligase complex	peptidyl-prolyl cis-trans isomerase activity|ubiquitin-ubiquitin ligase activity			ovary(2)	2	Colorectal(54;0.105)					CTGTGAGGACGACCGGCAACG	0.587													24	50					0	0	0.005443	0	0		A	22035655	A	A	22035655	2	1	48	1	0	0	0	0	0	0	0	1	12349	1045	37	1		1	PPIL2	22	22035655	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1251804	22035655	29268911	758	36638											
CABIN1	23523	broad.mit.edu	37	chr22	24563190	24563190	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacacttctgttggatgcctAccgtgtgtggcagcagggcc	6	10	14	11	1	1	0	0	0	1	0	1	2	1	1	3	3	3	3	3	3	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:24563190A>G	uc002zzi.1	+	32	5718	c.5591A>G	c.(5590-5592)TAC>TGC	p.Y1864C	CABIN1_uc002zzj.1_Missense_Mutation_p.Y1785C|CABIN1_uc002zzl.1_Missense_Mutation_p.Y1864C|CABIN1_uc002zzm.1_Missense_Mutation_p.Y289C	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1864					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						TTGGATGCCTACCGTGTGTGG	0.632													6	24					0	0	0.001984	0	0		G	24563190	G	G	24563190	3	3	48	1	0	0	0	0	1	0	0	0	2531	391	14	3	5713	3	CABIN1	22	24563190	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	2527535	24563190	26741376	759	36639											
SEZ6L	23544	broad.mit.edu	37	chr22	26743798	26743798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacctaccagtgtgaccccGgctatgacatcgtggggagt	8	9	12	12	2	1	2	1	2	0	0	2	3	1	3	4	3	1	1	4	3	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:26743798G>A	uc003acb.2	+	11	2482	c.2326G>A	c.(2326-2328)GGC>AGC	p.G776S	SEZ6L_uc003acc.2_Missense_Mutation_p.G776S|SEZ6L_uc011akc.1_Missense_Mutation_p.G776S|SEZ6L_uc003acd.2_Missense_Mutation_p.G776S|SEZ6L_uc011akd.1_Missense_Mutation_p.G776S|SEZ6L_uc003ace.2_Missense_Mutation_p.G776S|SEZ6L_uc003acf.1_Missense_Mutation_p.G549S|SEZ6L_uc010gvc.1_Missense_Mutation_p.G549S|SEZ6L_uc011ake.1_RNA	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	776	Sushi 3.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						GTGTGACCCCGGCTATGACAT	0.557													28	62					0	0	0.010818	0	0		A	26743798	A	A	26743798	3	1	48	1	0	0	0	0	1	0	0	0	14168	1116	39	1	2368	1	SEZ6L	22	26743798	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2180608	26743798	24560768	760	36640											
KREMEN1	83999	broad.mit.edu	37	chr22	29534746	29534746	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcatcaccaccagccccAgccacccacctcagactgtc	10	6	5	20	0	3	1	3	0	0	1	4	1	3	1	7	0	2	0	7	0	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:29534746A>G	uc011akm.1	+	7	1112	c.1099A>G	c.(1099-1101)AGC>GGC	p.S367G	KREMEN1_uc003ael.2_Missense_Mutation_p.S367G|KREMEN1_uc011akn.1_Missense_Mutation_p.S250G	NM_032045	NP_114434	Q96MU8	KREM1_HUMAN	kringle-containing transmembrane protein 1	365	Extracellular (Potential).				cell communication|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane|membrane fraction	protein binding			ovary(3)|lung(2)	5						CACCAGCCCCAGCCACCCACC	0.592													7	85					0	0	0.004482	0	0		G	29534746	G	G	29534746	3	3	48	1	0	0	0	0	1	0	0	0	8458	188	7	3	1125	3	KREMEN1	22	29534746	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	2790948	29534746	21769820	761	36641											
THOC5	8563	broad.mit.edu	37	chr22	29940500	29940500	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatctcagccatcagcctCtgtagctcctggcaggtgta	7	11	11	12	0	3	0	2	0	2	0	5	1	4	1	3	3	3	4	3	3	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:29940500C>A	uc003afr.2	-	4	524	c.189G>T	c.(187-189)CAG>CAT	p.Q63H	THOC5_uc003afs.2_Missense_Mutation_p.Q63H|THOC5_uc003aft.2_Missense_Mutation_p.Q63H|THOC5_uc003afu.2_Missense_Mutation_p.Q63H|THOC5_uc010gvo.2_5'UTR|THOC5_uc003afv.1_Missense_Mutation_p.Q63H|THOC5_uc003afw.1_5'Flank	NM_001002878	NP_001002878	Q13769	THOC5_HUMAN	THO complex 5	63	Interaction with THOC7.|Interaction with CSF1R (By similarity).				intronless viral mRNA export from host nucleus|monocyte differentiation|mRNA processing|primitive hemopoiesis|RNA splicing	cytoplasm|intermediate filament cytoskeleton|THO complex part of transcription export complex	protein binding|RNA binding			breast(3)	3						CCATCAGCCTCTGTAGCTCCT	0.542													48	82					9.86064e-34	1.12024e-33	0.01441	1	0		A	29940500	A	A	29940500	3	1	48	1	0	0	0	0	1	0	0	0	15893	912	32	5	1934	5	THOC5	22	29940500	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	405754	29940500	21364066	762	36642											
C22orf42	150297	broad.mit.edu	37	chr22	32546324	32546324	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accatctccggtgtcatgagGtcttcaagagagacagatag	12	9	11	9	1	4	4	2	1	2	3	5	5	4	4	2	2	0	0	2	2	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:32546324G>A	uc003amd.2	-	7	677	c.636C>T	c.(634-636)GAC>GAT	p.D212D		NM_001010859	NP_001010859	Q6IC83	CV042_HUMAN	chromosome 22 open reading frame 42	212										ovary(1)|skin(1)	2						GTGTCATGAGGTCTTCAAGAG	0.398													39	95					0	0	0.01441	0	0		A	32546324	A	A	32546324	2	1	48	1	0	0	0	0	0	0	0	1	2152	1252	44	4		4	C22orf42	22	32546324	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2605824	32546324	18758242	763	36643											
MYH9	4627	broad.mit.edu	37	chr22	36684413	36684413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgggcggccactgccatcGagcgctgcttcctctcgtcc	3	9	11	18	5	1	0	0	0	1	0	6	1	4	0	5	2	3	2	5	2	0	1	rs145319741		TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:36684413G>A	uc003apg.2	-	34	5048	c.4817C>T	c.(4816-4818)TCG>TTG	p.S1606L		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1606	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CACTGCCATCGAGCGCTGCTT	0.617			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				25	60					0	0	0.00632	0	0		A	36684413	A	A	36684413	3	1	48	1	0	0	0	0	1	0	0	0	10060	1059	37	1	1097	1	MYH9	22	36684413	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4138089	36684413	14620153	764	36644											
MYH9	4627	broad.mit.edu	37	chr22	36693034	36693034	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcttctccagctcctgtcGctgcttctcctccctgcgga	2	13	9	17	2	3	0	0	0	3	0	8	1	5	1	4	2	3	3	4	2	0	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:36693034G>A	uc003apg.2	-	25	3358	c.3127C>T	c.(3127-3129)CGA>TGA	p.R1043*		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1043	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						AGCTCCTGTCGCTGCTTCTCC	0.597			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				20	30					0	0	0.014323	0	0		A	36693034	A	A	36693034	4	1	48	1	0	0	0	0	0	1	0	0	10060	1095	38	1	2823	1	MYH9	22	36693034	Nonsense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	8621	36693034	14611532	765	36645											
CSF2RB	1439	broad.mit.edu	37	chr22	37332596	37332596	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctctgctcttgcagaacggGagcgcagagctttggccccc	6	9	12	14	2	2	2	0	0	2	2	3	3	2	3	2	2	5	4	2	2	1	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:37332596G>T	uc003aqa.3	+	13	1687	c.1470G>T	c.(1468-1470)GGG>GGT	p.G490G	CSF2RB_uc003aqc.3_Silent_p.G496G	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	490	Cytoplasmic (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	TGCAGAACGGGAGCGCAGAGC	0.667													14	32					6.31663e-08	6.80075e-08	0.003163	1	0		T	37332596	T	T	37332596	2	4	48	1	0	0	0	0	0	0	0	1	3938	1161	41	5		5	CSF2RB	22	37332596	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	639562	37332596	13971970	766	36646											
IL2RB	3560	broad.mit.edu	37	chr22	37524250	37524250	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccccctgcccaggaggcctGgaccaggggaaactgactcc	8	5	12	16	0	0	1	0	1	0	0	2	4	2	4	6	5	2	0	6	5	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:37524250G>T	uc003aqv.1	-	10	1673	c.1542C>A	c.(1540-1542)TCC>TCA	p.S514S		NM_000878	NP_000869	P14784	IL2RB_HUMAN	interleukin 2 receptor beta precursor	514	Cytoplasmic (Potential).				interspecies interaction between organisms|positive regulation of survival gene product expression|protein complex assembly	external side of plasma membrane|integral to plasma membrane	interleukin-2 receptor activity				0					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	CAGGAGGCCTGGACCAGGGGA	0.637													11	41					6.40141e-05	6.665e-05	0.010729	1	0		T	37524250	T	T	37524250	2	4	48	1	0	0	0	0	0	0	0	1	7703	1335	47	5		5	IL2RB	22	37524250	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	191654	37524250	13780316	767	36647											
NPTXR	23467	broad.mit.edu	37	chr22	39222674	39222674	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctcgggcagagccttcCgcacgcgggcgtacatgtag	8	6	15	12	5	0	2	0	0	0	2	2	2	1	2	2	2	3	5	2	2	2	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:39222674C>T	uc003awk.2	-	3	1083	c.929G>A	c.(928-930)CGG>CAG	p.R310Q		NM_014293	NP_055108	O95502	NPTXR_HUMAN	neuronal pentraxin receptor	310	Pentaxin.|Extracellular (Potential).					integral to membrane	metal ion binding			central_nervous_system(2)|skin(1)	3	Melanoma(58;0.04)					CAGAGCCTTCCGCACGCGGGC	0.632													21	37					0	0	0.012319	0	0		T	39222674	T	T	39222674	3	4	48	1	0	0	0	0	1	0	0	0	10623	652	23	1	585	1	NPTXR	22	39222674	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1698424	39222674	12081892	768	36648											
APOBEC3B	9582	broad.mit.edu	37	chr22	39387494	39387494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgtgccggggaagtgcGtgcgttccttcaggagaaca	7	8	17	9	3	1	1	1	0	0	1	2	3	2	2	2	4	4	2	2	4	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:39387494G>A	uc003awo.1	+	6	935	c.881G>A	c.(880-882)CGT>CAT	p.R294H	APOBEC3A_uc011aoc.1_Intron|APOBEC3B_uc003awp.1_Missense_Mutation_p.R269H|APOBEC3B_uc003awq.1_RNA|APOBEC3D_uc011aod.1_Intron|APOBEC3D_uc011aoe.1_Intron|APOBEC3D_uc011aof.1_Intron	NM_004900	NP_004891	Q9UH17	ABC3B_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	294					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(58;0.04)					GGGGAAGTGCGTGCGTTCCTT	0.582													4	186					0	0	0.000602	0	0		A	39387494	A	A	39387494	3	1	48	1	0	0	0	0	1	0	0	0	790	1145	40	1	903	1	APOBEC3B	22	39387494	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	164820	39387494	11917072	769	36649											
PDGFB	5155	broad.mit.edu	37	chr22	39621798	39621798	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atttccggtgcttgcccttgGggggccggcggactcgcacc	3	9	15	14	4	0	0	0	0	0	0	2	1	1	1	4	6	2	2	4	6	0	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:39621798G>T	uc003axf.2	-	6	1645	c.656C>A	c.(655-657)CCC>CAC	p.P219H	PDGFB_uc003axe.2_Missense_Mutation_p.P204H	NM_002608	NP_002599	P01127	PDGFB_HUMAN	platelet-derived growth factor beta isoform 1	219					activation of protein kinase B activity|cellular response to mycophenolic acid|embryonic placenta development|heart development|hemopoiesis|metanephric glomerular mesangial cell development|monocyte chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|negative regulation of transcription, DNA-dependent|paracrine signaling|peptidyl-serine phosphorylation|peptidyl-tyrosine phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of calcium ion import|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of cyclin-dependent protein kinase activity|positive regulation of DNA biosynthetic process|positive regulation of DNA replication|positive regulation of endothelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of glomerular filtration|positive regulation of glomerular mesangial cell proliferation|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent|reactive oxygen species metabolic process|transforming growth factor beta receptor signaling pathway	basolateral plasma membrane|cell surface|endoplasmic reticulum lumen|extracellular region|Golgi membrane|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|superoxide-generating NADPH oxidase activator activity	p.P219P(1)	COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(1)	373	Melanoma(58;0.04)				Becaplermin(DB00102)	CTTGCCCTTGGGGGGCCGGCG	0.597			T	COL1A1	DFSP								12	12					2.27111e-07	2.42161e-07	0.013537	1	0		T	39621798	T	T	39621798	3	4	48	1	0	0	0	0	1	0	0	0	11677	1232	43	5	73	5	PDGFB	22	39621798	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	234304	39621798	11682768	770	36650											
PDGFB	5155	broad.mit.edu	37	chr22	39631827	39631827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttggagatcatcaaaggagCggatcgagtggtcactcagc	11	8	14	8	2	4	1	4	0	0	1	5	5	4	3	0	4	2	1	0	4	1	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:39631827C>T	uc003axf.2	-	2	1105	c.116G>A	c.(115-117)CGC>CAC	p.R39H	PDGFB_uc003axe.2_Missense_Mutation_p.R24H	NM_002608	NP_002599	P01127	PDGFB_HUMAN	platelet-derived growth factor beta isoform 1	39					activation of protein kinase B activity|cellular response to mycophenolic acid|embryonic placenta development|heart development|hemopoiesis|metanephric glomerular mesangial cell development|monocyte chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|negative regulation of transcription, DNA-dependent|paracrine signaling|peptidyl-serine phosphorylation|peptidyl-tyrosine phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of calcium ion import|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of cyclin-dependent protein kinase activity|positive regulation of DNA biosynthetic process|positive regulation of DNA replication|positive regulation of endothelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of glomerular filtration|positive regulation of glomerular mesangial cell proliferation|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent|reactive oxygen species metabolic process|transforming growth factor beta receptor signaling pathway	basolateral plasma membrane|cell surface|endoplasmic reticulum lumen|extracellular region|Golgi membrane|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|superoxide-generating NADPH oxidase activator activity		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(1)	373	Melanoma(58;0.04)				Becaplermin(DB00102)	ATCAAAGGAGCGGATCGAGTG	0.602			T	COL1A1	DFSP								10	28					0	0	0.013537	0	0		T	39631827	T	T	39631827	3	4	48	1	0	0	0	0	1	0	0	0	11677	768	27	1	629	1	PDGFB	22	39631827	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	10029	39631827	11672739	771	36651											
ENTHD1	150350	broad.mit.edu	37	chr22	40140075	40140075	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctctacatcagaagacActgggcccctagaagcaaag	13	8	8	12	0	2	3	1	0	1	3	3	3	3	3	3	1	2	1	3	1	5	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:40140075A>G	uc003ayg.2	-	7	1684	c.1433T>C	c.(1432-1434)GTG>GCG	p.V478A		NM_152512	NP_689725	Q8IYW4	ENTD1_HUMAN	ENTH domain containing 1	478										ovary(2)|skin(1)	3	Melanoma(58;0.0749)					ATCAGAAGACACTGGGCCCCT	0.408													4	48					0	0	0.000602	0	0		G	40140075	G	G	40140075	3	3	48	1	0	0	0	0	1	0	0	0	5145	159	6	3	394	3	ENTHD1	22	40140075	Missense_Mutation	SNP	A	TCGA-BR-7703-01A-11D-2053-08	508248	40140075	11164491	772	36652											
TTLL1	25809	broad.mit.edu	37	chr22	43442449	43442449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccgaggacttccttaggtGgcgacttgttccatttgcag	6	13	12	10	2	0	0	0	0	0	0	2	3	2	1	3	3	2	2	3	3	1	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:43442449G>A	uc003bdi.2	-	10	1350	c.1109C>T	c.(1108-1110)CCA>CTA	p.P370L	TTLL1_uc010gzh.2_Missense_Mutation_p.P341L|TTLL1_uc003bdj.2_Missense_Mutation_p.P256L|TTLL1_uc003bdh.2_Missense_Mutation_p.P332L	NM_012263	NP_036395	O95922	TTLL1_HUMAN	tubulin tyrosine ligase-like family, member 1	370					protein polyglutamylation	cytoplasm|microtubule	ATP binding|tubulin-glutamic acid ligase activity|tubulin-tyrosine ligase activity			skin(1)	1		Ovarian(80;0.0694)		BRCA - Breast invasive adenocarcinoma(115;0.00461)		TTCCTTAGGTGGCGACTTGTT	0.502													21	218					0	0	0.00278	0	0		A	43442449	A	A	43442449	3	1	48	1	0	0	0	0	1	0	0	0	16748	1348	47	4	170	4	TTLL1	22	43442449	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3302374	43442449	7862117	773	36653											
PRR5-ARHGAP8	553158	broad.mit.edu	37	chr22	45127647	45127649	+	In_Frame_Del	DEL	CTT	-	-																															tcactggcagagacctgggaCttcttcttcagtgacgtgct																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:45127647_45127649delCTT	uc003bfd.2	+	5	632_634	c.360_362delCTT	c.(358-363)GACTTC>GAC	p.F123del	PRR5_uc003bew.1_In_Frame_Del_p.F114del|PRR5_uc003bex.1_In_Frame_Del_p.F28del|PRR5_uc010gzt.1_In_Frame_Del_p.F146del|PRR5_uc010gzu.1_In_Frame_Del_p.F87del|PRR5_uc003bey.1_In_Frame_Del_p.F114del|PRR5_uc003bez.1_In_Frame_Del_p.F28del|PRR5-ARHGAP8_uc003bfc.2_Intron|PRR5-ARHGAP8_uc011aqi.1_Intron|PRR5-ARHGAP8_uc011aqj.1_Intron|PRR5_uc003bfa.1_In_Frame_Del_p.F16del|PRR5_uc003bfb.1_In_Frame_Del_p.F123del|PRR5_uc003bfe.1_RNA|PRR5-ARHGAP8_uc003bfg.1_Intron|PRR5_uc003bfh.1_In_Frame_Del_p.F22del	NM_181335	NP_851852			Rho GTPase activating protein 8 isoform 2											skin(2)	2						AGACCTGGGACTTCTTCTTCAGT	0.66													27	48	---	---	---	---						.	-	45127649	-	-	45127647	7	5	48	1	0	1	0	1	0	0	0	0	12623	564	20	0		0	PRR5-ARHGAP8	22	45127647	In_Frame_Del	DEL	CTT	TCGA-BR-7703-01A-11D-2053-08	1685198	45127647	6176919	774	36654											
PKDREJ	10343	broad.mit.edu	37	chr22	46657156	46657156	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcaatgaacttggtccCacggtgaaactgagtaactg	13	8	11	9	1	0	3	0	3	0	0	1	4	1	3	1	2	4	2	1	2	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:46657156C>A	uc003bhh.2	-	1	2064	c.2064G>T	c.(2062-2064)GTG>GTT	p.V688V		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	688	Extracellular (Potential).|REJ.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		AACTTGGTCCCACGGTGAAAC	0.398													15	90					3.52763e-06	3.72993e-06	0.00499	1	0		A	46657156	A	A	46657156	2	1	48	1	0	0	0	0	0	0	0	1	11989	581	21	5		5	PKDREJ	22	46657156	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	1529509	46657156	4647410	775	36655											
CELSR1	9620	broad.mit.edu	37	chr22	46760632	46760632	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acgtggttggccacagcgtcCcctgaggcacgagagcggtg	7	6	16	12	4	0	2	0	1	0	1	1	3	1	2	3	4	2	2	3	4	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:46760632C>T	uc003bhw.1	-	33	8556	c.8556G>A	c.(8554-8556)GGG>GGA	p.G2852G		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2852	Cytoplasmic (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CCACAGCGTCCCCTGAGGCAC	0.677													4	22					0	0	0.009096	0	0		T	46760632	T	T	46760632	2	4	48	1	0	0	0	0	0	0	0	1	3224	637	22	4		4	CELSR1	22	46760632	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	103476	46760632	4543934	776	36656											
TUBGCP6	85378	broad.mit.edu	37	chr22	50660233	50660233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccagccatcccaggcaggcGagtgttgctctgcagaccca	8	7	11	15	1	1	1	0	0	1	1	3	2	3	1	4	2	3	4	4	2	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:50660233G>A	uc003bkb.1	-	16	3067	c.2555C>T	c.(2554-2556)TCG>TTG	p.S852L	TUBGCP6_uc003bka.1_5'UTR|TUBGCP6_uc010har.1_Missense_Mutation_p.S844L|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hat.1_Missense_Mutation_p.S48L	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	852					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CCAGGCAGGCGAGTGTTGCTC	0.647													16	30					0	0	0.00499	0	0		A	50660233	A	A	50660233	3	1	48	1	0	0	0	0	1	0	0	0	16796	1059	37	1	2944	1	TUBGCP6	22	50660233	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	3899601	50660233	644333	777	36657											
TUBGCP6	85378	broad.mit.edu	37	chr22	50662832	50662832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgggcatccaaggccatccGttctgacatctgccggtcta	7	9	10	15	3	3	1	0	1	3	0	5	1	5	1	5	3	1	2	5	3	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:50662832G>A	uc003bkb.1	-	12	2595	c.2083C>T	c.(2083-2085)CGG>TGG	p.R695W	TUBGCP6_uc003bka.1_5'Flank|TUBGCP6_uc010har.1_Missense_Mutation_p.R695W|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hat.1_Translation_Start_Site|TUBGCP6_uc003bkd.1_Missense_Mutation_p.R49W	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	695					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		AAGGCCATCCGTTCTGACATC	0.602													4	154					0	0	0.009096	0	0		A	50662832	A	A	50662832	3	1	48	1	0	0	0	0	1	0	0	0	16796	1144	40	1	3432	1	TUBGCP6	22	50662832	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2599	50662832	641734	778	36658											
TUBGCP6	85378	broad.mit.edu	37	chr22	50664481	50664481	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatgagcccctcctcacccGggggcagcagagcttcagca	9	5	11	16	1	2	2	2	1	0	1	3	2	3	2	4	2	4	4	4	2	0	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chr22:50664481G>A	uc003bkb.1	-	9	2343	c.1831C>T	c.(1831-1833)CGG>TGG	p.R611W	TUBGCP6_uc010har.1_Missense_Mutation_p.R611W|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hat.1_5'Flank|TUBGCP6_uc003bkd.1_5'UTR	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	611					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CTCCTCACCCGGGGGCAGCAG	0.597													4	140					0	0	0.009096	0	0		A	50664481	A	A	50664481	3	1	48	1	0	0	0	0	1	0	0	0	16796	1115	39	1	3696	1	TUBGCP6	22	50664481	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1649	50664481	640085	779	36659											
P2RY8	286530	broad.mit.edu	37	chrX	1584882	1584882	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atggtgaagaggaacacggcCcacatggccacgctggggag	11	4	16	10	2	0	2	0	1	0	1	0	4	0	4	2	6	1	1	2	6	2	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:1584882C>A	uc004cpz.2	-	2	818	c.570G>T	c.(568-570)TGG>TGT	p.W190C		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	190	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GGAACACGGCCCACATGGCCA	0.617			T	CRLF2	B-ALL|Downs associated ALL								4	52					1.024e-07	1.09981e-07	0.000602	1	0		A	1584882	A	A	1584882	3	1	48	1	0	0	0	0	1	0	0	0	11374	624	22	5	513	5	P2RY8	23	1584882	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08		1584882	153685678	780	36660											
CNKSR2	22866	broad.mit.edu	37	chrX	21609256	21609256	+	Frame_Shift_Del	DEL	A	-	-																															gttacttttcacagaaatggAaaaaatattggtttgtccta																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:21609256delA	uc004czx.1	+	15	1810	c.1774delA	c.(1774-1776)AAAfs	p.K592fs	CNKSR2_uc004czw.2_Frame_Shift_Del_p.K592fs|CNKSR2_uc011mjn.1_Frame_Shift_Del_p.K543fs|CNKSR2_uc011mjo.1_Frame_Shift_Del_p.K562fs|CNKSR2_uc004czy.2_Frame_Shift_Del_p.K184fs	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	592	PH.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						ACAGAAATGGAAAAAATATTG	0.378													22	14	---	---	---	---						.	-	21609256	-	-	21609256	7	5	48	1	0	1	0	1	0	0	0	0	3610	247	9	0	1832	0	CNKSR2	23	21609256	Frame_Shift_Del	DEL	A	TCGA-BR-7703-01A-11D-2053-08	20024374	21609256	133661304	781	36661											
PCYT1B	9468	broad.mit.edu	37	chrX	24608251	24608251	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcggcttcattcatcacGgtgaaacctttgaatttgtg	8	15	8	10	2	4	2	3	2	1	0	5	2	4	2	1	2	1	1	1	2	2	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:24608251G>A	uc004dbi.2	-	4	608	c.375C>T	c.(373-375)ACC>ACT	p.T125T	PCYT1B_uc004dbk.3_Silent_p.T125T|PCYT1B_uc004dbj.2_Silent_p.T107T	NM_004845	NP_004836	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	125	Catalytic (Potential).					endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)	CATTCATCACGGTGAAACCTT	0.493													21	7					0	0	0.003954	0	0		A	24608251	A	A	24608251	2	1	48	1	0	0	0	0	0	0	0	1	11630	1103	39	1		1	PCYT1B	23	24608251	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2998995	24608251	130662309	782	36662											
FAM47B	170062	broad.mit.edu	37	chrX	34962029	34962029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaagctggaagacgcaCgggctcgttgtgagggccag	11	5	17	8	3	0	4	0	1	0	3	1	5	0	5	1	3	1	4	1	3	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:34962029C>T	uc004ddi.1	+	1	1099	c.1081C>T	c.(1081-1083)CGG>TGG	p.R361W		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	361										ovary(3)|breast(1)	4						GGAAGACGCACGGGCTCGTTG	0.532													12	11					0	0	0.00245	0	0		T	34962029	T	T	34962029	3	4	48	1	0	0	0	0	1	0	0	0	5584	527	19	1	1083	1	FAM47B	23	34962029	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	10353778	34962029	120308531	783	36663											
DDX3X	1654	broad.mit.edu	37	chrX	41201759	41201759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgttcaggtttgatgatcGtggacggagtgattacgatg	8	13	15	5	3	1	3	1	3	0	0	2	6	1	5	0	3	1	3	0	3	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:41201759G>A	uc004dfe.2	+	5	1151	c.296G>A	c.(295-297)CGT>CAT	p.R99H	DDX3X_uc010nhf.1_Missense_Mutation_p.R83H|DDX3X_uc004dff.2_Missense_Mutation_p.R99H|DDX3X_uc011mkq.1_Missense_Mutation_p.R83H|DDX3X_uc011mkr.1_Missense_Mutation_p.R99H|DDX3X_uc011mks.1_Missense_Mutation_p.R99H|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	99					interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						TTTGATGATCGTGGACGGAGT	0.423										HNSCC(61;0.18)			3	43					0	0	0.009096	0	0		A	41201759	A	A	41201759	3	1	48	1	0	0	0	0	1	0	0	0	4361	1145	40	1	314	1	DDX3X	23	41201759	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	6239730	41201759	114068801	784	36664											
AR	367	broad.mit.edu	37	chrX	66765081	66765081	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctgttccagagcgtgcgCgaagtgatccagaacccggg	10	7	13	11	4	1	3	0	1	1	2	3	4	3	3	3	1	3	1	3	1	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:66765081C>T	uc004dwu.1	+	1	1208	c.93C>T	c.(91-93)CGC>CGT	p.R31R	AR_uc011mpd.1_Silent_p.R31R|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Silent_p.R31R	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	31	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	AGAGCGTGCGCGAAGTGATCC	0.572									Androgen_Insensitivity_Syndrome				18	9					0	0	0.003954	0	0		T	66765081	T	T	66765081	2	4	48	1	0	0	0	0	0	0	0	1	836	755	27	1		1	AR	23	66765081	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	25563322	66765081	88505479	785	36665											
FAM155B	27112	broad.mit.edu	37	chrX	68725612	68725613	+	Frame_Shift_Ins	INS	-	C	C																															tttcgaaccgactactccggINSccccccctctgcggccccct																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:68725612_68725613insC	uc004dxk.2	+	1	535_536	c.487_488insC	c.(487-489)GCCfs	p.A163fs		NM_015686	NP_056501	O75949	F155B_HUMAN	transmembrane protein 28	163						integral to membrane				ovary(1)|breast(1)	2						GACTACTCCGGCCCCCCCTCTG	0.624													21	17	---	---	---	---						.	C	68725613	C	C	68725612	7	5	48	1	0	1	1	0	0	0	0	0	5477	1203	42	0	489	0	FAM155B	23	68725612	Frame_Shift_Ins	INS	-	TCGA-BR-7703-01A-11D-2053-08	1960531	68725612	86544948	786	36666											
ERCC6L	54821	broad.mit.edu	37	chrX	71426804	71426808	+	Frame_Shift_Del	DEL	TTAAT	-	-																															ttcaccagtagtttgtcttaTtaatgagtccttgaaaacct																										TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:71426804_71426808delTTAAT	uc004eaq.1	-	2	1906_1910	c.1809_1813delATTAA	c.(1807-1815)TCATTAATAfs	p.S603fs	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Frame_Shift_Del_p.S480fs	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	603_605	Helicase C-terminal.				cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					GTTTGTCTTATTAATGAGTCCTTGA	0.346													9	14	---	---	---	---						.	-	71426808	-	-	71426804	7	5	48	1	0	1	0	1	0	0	0	0	5226	1493	52	0	1943	0	ERCC6L	23	71426804	Frame_Shift_Del	DEL	TTAAT	TCGA-BR-7703-01A-11D-2053-08	2701192	71426804	83843756	787	36667											
RPS6KA6	27330	broad.mit.edu	37	chrX	83403075	83403075	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaggctttttttaacacCttcattgcatagagctgccc	11	13	7	10	0	1	2	1	0	0	2	1	2	1	2	2	1	4	3	2	1	3	7			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:83403075C>A	uc004eej.1	-	4	392	c.315G>T	c.(313-315)AAG>AAT	p.K105N	RPS6KA6_uc011mqt.1_Missense_Mutation_p.K105N|RPS6KA6_uc011mqu.1_Missense_Mutation_p.K2N|RPS6KA6_uc010nmo.1_RNA	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	105	Protein kinase 1.	ATP (By similarity).			axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TTTTTAACACCTTCATTGCAT	0.299													8	5					0.00448238	0.00459133	0.004482	1	0		A	83403075	A	A	83403075	3	1	48	1	0	0	0	0	1	0	0	0	13680	680	24	5	1998	5	RPS6KA6	23	83403075	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	11976271	83403075	71867485	788	36668											
PCDH11X	27328	broad.mit.edu	37	chrX	91133952	91133952	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatggaaacagagtcacaCtagaccttcctattgatcta	13	11	8	9	0	2	4	1	2	1	2	3	5	3	5	2	1	1	0	2	1	4	5			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:91133952C>T	uc004efk.1	+	2	3558	c.2713C>T	c.(2713-2715)CTA>TTA	p.L905L	PCDH11X_uc004efl.1_Silent_p.L905L|PCDH11X_uc004efo.1_Silent_p.L905L|PCDH11X_uc010nmv.1_Silent_p.L905L|PCDH11X_uc004efm.1_Silent_p.L905L|PCDH11X_uc004efn.1_Silent_p.L905L|PCDH11X_uc004efh.1_Silent_p.L905L|PCDH11X_uc004efj.1_Silent_p.L905L	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	905	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CAGAGTCACACTAGACCTTCC	0.398													5	64					0	0	0.001168	0	0		T	91133952	T	T	91133952	2	4	48	1	0	0	0	0	0	0	0	1	11527	564	20	4		4	PCDH11X	23	91133952	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	7730877	91133952	64136608	789	36669											
PCDH11X	27328	broad.mit.edu	37	chrX	91873424	91873424	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctatgccacagcccaccaCtgtcacaggcctctactcag	9	8	6	18	0	4	0	2	0	2	0	4	0	4	0	4	1	3	0	4	1	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:91873424C>T	uc004efk.1	+	7	4374	c.3529C>T	c.(3529-3531)CTG>TTG	p.L1177L	PCDH11X_uc004efl.1_Silent_p.L1167L|PCDH11X_uc004efo.1_Silent_p.L1140L|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Silent_p.L1169L|PCDH11X_uc004efn.1_Silent_p.L1159L	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1177	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CAGCCCACCACTGTCACAGGC	0.572													34	40					0	0	0.004289	0	0		T	91873424	T	T	91873424	2	4	48	1	0	0	0	0	0	0	0	1	11527	564	20	4		4	PCDH11X	23	91873424	Silent	SNP	C	TCGA-BR-7703-01A-11D-2053-08	739472	91873424	63397136	790	36670											
CSTF2	1478	broad.mit.edu	37	chrX	100077380	100077380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acttcgagtggacaatgctgCcagtgaaaagaacaaagaag	17	6	11	7	1	0	3	0	1	0	2	1	5	0	4	1	1	3	1	1	1	6	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:100077380C>T	uc004egh.2	+	3	336	c.278C>T	c.(277-279)GCC>GTC	p.A93V	CSTF2_uc010nnd.2_Missense_Mutation_p.A93V|CSTF2_uc004egi.2_Missense_Mutation_p.A93V	NM_001325	NP_001316	P33240	CSTF2_HUMAN	cleavage stimulation factor subunit 2	93	RRM.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cleavage body|mRNA cleavage and polyadenylation specificity factor complex	nucleotide binding|protein binding|protein binding|RNA binding			skin(1)	1						GACAATGCTGCCAGTGAAAAG	0.443													10	34					0	0	0.001855	0	0		T	100077380	T	T	100077380	3	4	48	1	0	0	0	0	1	0	0	0	3987	739	26	2	288	2	CSTF2	23	100077380	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	8203956	100077380	55193180	791	36671											
DCAF12L1	139170	broad.mit.edu	37	chrX	125685490	125685490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagcagggagccctgacCggtgcccacagtgatgatgt	10	6	15	10	1	0	4	0	3	0	1	0	6	0	5	3	2	3	1	3	2	1	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:125685490C>T	uc004eul.2	-	1	1353	c.1102G>A	c.(1102-1104)GGT>AGT	p.G368S		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	368	WD 4.									skin(3)|ovary(1)	4						GAGCCCTGACCGGTGCCCACA	0.632													5	20					0	0	0.000602	0	0		T	125685490	T	T	125685490	3	4	48	1	0	0	0	0	1	0	0	0	4267	652	23	1	293	1	DCAF12L1	23	125685490	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	25608110	125685490	29585070	792	36672											
IGSF1	3547	broad.mit.edu	37	chrX	130408768	130408768	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaattcaacacctggcagggGtcctcggcactgaagggtga	11	7	13	10	1	1	2	1	2	0	0	3	2	2	2	2	5	1	2	2	5	3	1			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:130408768G>T	uc004ewd.2	-	18	3794	c.3556C>A	c.(3556-3558)CCC>ACC	p.P1186T	IGSF1_uc004ewe.3_Missense_Mutation_p.P1180T|IGSF1_uc004ewf.2_Missense_Mutation_p.P1166T	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	1186	Extracellular (Potential).|Ig-like C2-type 12.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						CCTGGCAGGGGTCCTCGGCAC	0.502													9	82					2.74318e-10	2.99348e-10	0.006214	1	0		T	130408768	T	T	130408768	3	4	48	1	0	0	0	0	1	0	0	0	7612	1261	44	5	466	5	IGSF1	23	130408768	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	4723278	130408768	24861792	793	36673											
LDOC1	23641	broad.mit.edu	37	chrX	140271020	140271020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgataaactcggggagccGggagctctcgccattaaacg	11	6	12	12	5	1	0	0	0	1	0	3	3	1	2	2	3	4	1	2	3	4	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:140271020G>A	uc004fbj.2	-	1	291	c.187C>T	c.(187-189)CGG>TGG	p.R63W		NM_012317	NP_036449	O95751	LDOC1_HUMAN	leucine zipper, down-regulated in cancer 1	63					negative regulation of cell proliferation	nucleus	protein binding				0	Acute lymphoblastic leukemia(192;7.65e-05)					TCGGGGAGCCGGGAGCTCTCG	0.622													18	7					0	0	0.010504	0	0		A	140271020	A	A	140271020	3	1	48	1	0	0	0	0	1	0	0	0	8725	1115	39	1	257	1	LDOC1	23	140271020	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	9862252	140271020	14999540	794	36674											
CXorf40B	541578	broad.mit.edu	37	chrX	149101879	149101879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacttttcccctttcctgaGcaaggcctgaatctgagcag	10	11	8	12	0	1	3	0	3	1	0	3	3	3	3	4	1	3	2	4	1	3	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:149101879G>A	uc004fdy.2	-	4	730	c.214C>T	c.(214-216)CTC>TTC	p.L72F	CXorf40B_uc011mxs.1_RNA	NM_001013845	NP_001013867	Q96DE9	CX04B_HUMAN	hypothetical protein LOC541578	72											0	Acute lymphoblastic leukemia(192;6.56e-05)					CCTTTCCTGAGCAAGGCCTGA	0.562													42	55					0	0	0.01441	0	0		A	149101879	A	A	149101879	3	1	48	1	0	0	0	0	1	0	0	0	4112	971	34	2	270	2	CXorf40B	23	149101879	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	8830859	149101879	6168681	795	36675											
CXorf40B	541578	broad.mit.edu	37	chrX	149101975	149101975	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgagcaatgtggacggCgatggtacagttccgctggc	7	9	15	10	3	0	1	0	1	0	0	1	3	1	2	2	4	2	4	2	4	2	2			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:149101975C>T	uc004fdy.2	-	4	634	c.118G>A	c.(118-120)GCC>ACC	p.A40T	CXorf40B_uc011mxs.1_RNA	NM_001013845	NP_001013867	Q96DE9	CX04B_HUMAN	hypothetical protein LOC541578	40											0	Acute lymphoblastic leukemia(192;6.56e-05)					ATGTGGACGGCGATGGTACAG	0.587													24	10					0	0	0.004656	0	0		T	149101975	T	T	149101975	3	4	48	1	0	0	0	0	1	0	0	0	4112	768	27	1	366	1	CXorf40B	23	149101975	Missense_Mutation	SNP	C	TCGA-BR-7703-01A-11D-2053-08	96	149101975	6168585	796	36676											
ZNF185	7739	broad.mit.edu	37	chrX	152085675	152085675	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccccttcttctcttcggcagGcctccgagcacaagggctcc	5	9	9	18	2	2	0	0	0	2	0	6	1	4	0	5	3	1	3	5	3	1	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:152085675G>A	uc010ntv.1	+	4	262	c.225G>A	c.(223-225)AGG>AGA	p.R75R	ZNF185_uc011myg.1_Silent_p.R75R|ZNF185_uc011myh.1_Silent_p.R75R|ZNF185_uc011myi.1_Silent_p.R75R|ZNF185_uc011myj.1_Silent_p.R75R|ZNF185_uc011myk.1_Silent_p.R75R|ZNF185_uc004fgw.3_5'Flank|ZNF185_uc004fgu.2_5'Flank	NM_007150	NP_009081	O15231	ZN185_HUMAN	zinc finger protein 185	75						cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TCTTCGGCAGGCCTCCGAGCA	0.572													10	34					0	0	0.010729	0	0		A	152085675	A	A	152085675	2	1	48	1	0	0	0	0	0	0	0	1	17777	1217	42	2		2	ZNF185	23	152085675	Silent	SNP	G	TCGA-BR-7703-01A-11D-2053-08	2983700	152085675	3184885	797	36677											
CTAG2	30848	broad.mit.edu	37	chrX	153881608	153881608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccgccatgcggaccccgcGgggcgcctcctctcggcccc	3	4	12	22	6	1	0	0	0	1	0	3	1	2	1	8	4	1	0	8	4	0	0			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:153881608G>A	uc004fmi.1	-	1	235	c.182C>T	c.(181-183)CCG>CTG	p.P61L	CTAG2_uc004fmh.1_Missense_Mutation_p.P61L	NM_020994	NP_066274	O75638	CTAG2_HUMAN	cancer/testis antigen 2 isoform LAGE-1b	61	Gly-rich.					centrosome				pancreas(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CGGACCCCGCGGGGCGCCTCC	0.746													5	2					0	0	0.001168	0	0		A	153881608	A	A	153881608	3	1	48	1	0	0	0	0	1	0	0	0	3994	1116	39	1	597	1	CTAG2	23	153881608	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08	1795933	153881608	1388952	798	36678											
BRCC3	79184	broad.mit.edu	37	chrX	154305518	154305518	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgataagaggaaggaccgagTagaaatttctccagagcagc	15	7	12	7	1	1	4	0	1	1	3	2	7	1	6	2	2	2	2	2	2	4	3			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrX:154305518T>C	uc004fna.2	+	4	362	c.269T>C	c.(268-270)GTA>GCA	p.V90A	BRCC3_uc011mzy.1_Missense_Mutation_p.V91A|BRCC3_uc011mzz.1_RNA|BRCC3_uc004fnb.2_Missense_Mutation_p.V90A	NM_024332	NP_077308	P46736	BRCC3_HUMAN	BRCA1/BRCA2-containing complex, subunit 3	90					double-strand break repair|G2/M transition DNA damage checkpoint|histone H2A K63-linked deubiquitination|positive regulation of DNA repair|response to X-ray	BRCA1-A complex|BRISC complex|nuclear ubiquitin ligase complex	enzyme regulator activity|metal ion binding|metallopeptidase activity|polyubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(3)|ovary(1)|large_intestine(1)|breast(1)	6	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					AAGGACCGAGTAGAAATTTCT	0.448													25	19					0	0	0.00632	0	0		C	154305518	C	C	154305518	3	2	48	1	0	0	0	0	1	0	0	0	1503	1638	57	3	283	3	BRCC3	23	154305518	Missense_Mutation	SNP	T	TCGA-BR-7703-01A-11D-2053-08	423910	154305518	965042	799	36679											
USP9Y	8287	broad.mit.edu	37	chrY	14951943	14951943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggatatgggaccttacacaGtagcaggtgttgcaaacctg	11	10	12	8	0	0	0	0	0	0	0	0	2	0	2	2	3	4	4	2	3	4	4			TCGA-BR-7703-01A-11D-2053-08	TCGA-BR-7703-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	12b64874-014c-4891-baf0-ad25f27d871f	d973646a-9002-40db-bbf0-5ec566f1883f	g.chrY:14951943G>A	uc004fst.1	+	36	6436	c.5491G>A	c.(5491-5493)GTA>ATA	p.V1831I	USP9Y_uc010nwu.1_RNA	NM_004654	NP_004645	O00507	USP9Y_HUMAN	ubiquitin specific protease 9, Y-linked	1831					BMP signaling pathway|protein deubiquitination|spermatogenesis|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						ACCTTACACAGTAGCAGGTGT	0.393													37	15					0	0	0.00874	0	0		A	14951943	A	A	14951943	3	1	48	1	0	0	0	0	1	0	0	0	17117	1029	36	4	5625	4	USP9Y	24	14951943	Missense_Mutation	SNP	G	TCGA-BR-7703-01A-11D-2053-08		14951943	44421623	800	36680											
PLCH2	9651	broad.mit.edu	37	chr1	2430597	2430597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcgctggtccgcttcctcGtctgggaccacgatcccatc	4	10	10	17	5	1	0	0	0	1	0	7	2	4	1	4	2	0	2	4	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:2430597G>A	uc001aji.1	+	19	2783	c.2509G>A	c.(2509-2511)GTC>ATC	p.V837I	PLCH2_uc010nyz.1_Missense_Mutation_p.V625I|PLCH2_uc009vle.1_Missense_Mutation_p.V589I|PLCH2_uc001ajj.1_Missense_Mutation_p.V625I|PLCH2_uc001ajk.1_Missense_Mutation_p.V625I|PLCH2_uc001ajl.1_5'UTR	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	837	C2.				intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		CCGCTTCCTCGTCTGGGACCA	0.647													3	30					0	0	1	0	0		A	2430597	A	A	2430597	3	1	49	1	0	0	0	0	1	0	0	0	12057	1145	40	1	2583	1	PLCH2	1	2430597	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08		2430597	246820024	1	36681											
PRDM16	63976	broad.mit.edu	37	chr1	3102980	3102980	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggaagccggggagaggcTgggcccctgcgtggtggtgc	5	6	21	9	2	0	1	0	0	0	1	0	4	0	2	3	7	3	1	3	7	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:3102980T>C	uc001akf.2	+	2	409	c.329T>C	c.(328-330)CTG>CCG	p.L110P	PRDM16_uc001akc.2_Missense_Mutation_p.L110P|PRDM16_uc001akd.2_Missense_Mutation_p.L110P|PRDM16_uc001ake.2_Missense_Mutation_p.L110P|PRDM16_uc009vlh.2_5'UTR	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	110	SET.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		GGGGAGAGGCTGGGCCCCTGC	0.637			T	EVI1	MDS|AML								18	31					0	0	1	0	0		C	3102980	C	C	3102980	3	2	49	1	0	0	0	0	1	0	0	0	12479	1580	55	3	335	3	PRDM16	1	3102980	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	672383	3102980	246147641	2	36682											
DFFB	1677	broad.mit.edu	37	chr1	3800085	3800085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcagaatagaaaagaaacGcaccatcattcctacactgg	16	8	7	10	1	1	3	1	0	0	3	2	3	2	3	2	1	3	2	2	1	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:3800085G>A	uc001alc.2	+	7	1120	c.797G>A	c.(796-798)CGC>CAC	p.R266H	DFFB_uc001ale.2_RNA|DFFB_uc009vlp.2_RNA|DFFB_uc001alb.2_RNA|DFFB_uc010nzn.1_Missense_Mutation_p.R290H|DFFB_uc009vlq.2_RNA|DFFB_uc009vlr.2_Missense_Mutation_p.R217H|DFFB_uc001ald.2_Missense_Mutation_p.R202H	NM_004402	NP_004393	O76075	DFFB_HUMAN	DNA fragmentation factor, 40 kD, beta	266					apoptotic chromosome condensation|DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction	cytosol|nucleoplasm	deoxyribonuclease activity|enzyme binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;2.05e-30)|all_epithelial(116;6.22e-21)|all_lung(118;2.65e-08)|Lung NSC(185;6.25e-06)|Breast(487;0.000659)|Renal(390;0.00121)|all_neural(13;0.0019)|Hepatocellular(190;0.00705)|Colorectal(325;0.0113)|all_hematologic(16;0.0194)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0548)|Medulloblastoma(700;0.211)		Epithelial(90;1.18e-39)|OV - Ovarian serous cystadenocarcinoma(86;7.28e-23)|GBM - Glioblastoma multiforme(42;2.95e-17)|Colorectal(212;1.23e-05)|COAD - Colon adenocarcinoma(227;5.94e-05)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00038)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		GAAAAGAAACGCACCATCATT	0.433													5	45					0	0	1	0	0		A	3800085	A	A	3800085	3	1	49	1	0	0	0	0	1	0	0	0	4459	1087	38	1	823	1	DFFB	1	3800085	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	697105	3800085	245450536	3	36683											
CHD5	26038	broad.mit.edu	37	chr1	6188970	6188970	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcctgcttggtcatggAccccgacttggagccgaggc	6	8	13	14	2	1	0	1	0	0	0	2	4	2	2	4	4	3	2	4	4	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:6188970A>G	uc001amb.1	-	23	3647	c.3547T>C	c.(3547-3549)TCC>CCC	p.S1183P	CHD5_uc001alz.1_Missense_Mutation_p.S40P|CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA|CHD5_uc009vlx.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1183	Helicase C-terminal.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		TTGGTCATGGACCCCGACTTG	0.657													13	43					0	0	1	0	0		G	6188970	G	G	6188970	3	3	49	1	0	0	0	0	1	0	0	0	3331	275	10	3	2393	3	CHD5	1	6188970	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2388885	6188970	243061651	4	36684											
ESPN	83715	broad.mit.edu	37	chr1	6520165	6520165	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaagctggcgccctggcagCgacaggtcatcctgaagaag	10	5	14	12	2	1	2	1	1	0	1	2	3	2	2	2	3	2	3	2	3	3	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:6520165C>T	uc001amy.2	+	13	2692	c.2524C>T	c.(2524-2526)CGA>TGA	p.R842*	ESPN_uc001amz.2_Nonsense_Mutation_p.R276*	NM_031475	NP_113663	B1AK53	ESPN_HUMAN	espin	842					sensory perception of sound	brush border|cytoplasm|filamentous actin|stereocilium	actin filament binding|SH3 domain binding				0	Ovarian(185;0.0386)|all_lung(157;0.154)	all_cancers(23;3.6e-37)|all_epithelial(116;2.56e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|all_hematologic(16;6.92e-06)|Colorectal(325;4.47e-05)|Acute lymphoblastic leukemia(12;4.92e-05)|Breast(487;7.61e-05)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)		Epithelial(90;1.82e-35)|GBM - Glioblastoma multiforme(13;3e-28)|Kidney(185;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(229;5.63e-08)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;1.41e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000109)|STAD - Stomach adenocarcinoma(132;0.00167)|Lung(427;0.0108)|LUSC - Lung squamous cell carcinoma(448;0.0253)|READ - Rectum adenocarcinoma(331;0.0419)		GCCCTGGCAGCGACAGGTCAT	0.657													6	47					0	0	1	0	0		T	6520165	T	T	6520165	4	4	49	1	0	0	0	0	0	1	0	0	5262	760	27	1	2574	1	ESPN	1	6520165	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	331195	6520165	242730456	5	36685											
NOL9	79707	broad.mit.edu	37	chr1	6589186	6589186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatagtatatgggtaggggCgacatcagagtgggtaatcc	12	10	14	5	1	1	1	1	0	0	1	2	2	2	1	1	4	0	3	1	4	6	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:6589186C>T	uc001ans.2	-	10	1712	c.1693G>A	c.(1693-1695)GCC>ACC	p.A565T	NOL9_uc010nzs.1_RNA	NM_024654	NP_078930	Q5SY16	NOL9_HUMAN	nucleolar protein 9	565					maturation of 5.8S rRNA	nucleolus	ATP binding|polynucleotide 5'-hydroxyl-kinase activity|RNA binding			skin(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;2.46e-35)|all_epithelial(116;1.41e-22)|all_lung(118;7.59e-07)|Lung NSC(185;4.28e-06)|Colorectal(325;4.52e-05)|Breast(487;0.000353)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.47e-07)|COAD - Colon adenocarcinoma(227;1.47e-05)|Kidney(185;5.27e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|BRCA - Breast invasive adenocarcinoma(365;0.00113)|STAD - Stomach adenocarcinoma(132;0.0017)|READ - Rectum adenocarcinoma(331;0.0649)		TGGGTAGGGGCGACATCAGAG	0.483													17	38					0	0	1	0	0		T	6589186	T	T	6589186	3	4	49	1	0	0	0	0	1	0	0	0	10547	768	27	1	427	1	NOL9	1	6589186	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	69021	6589186	242661435	6	36686											
TNFRSF9	3604	broad.mit.edu	37	chr1	7995165	7995165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccacgtccctctccttcGtcccattcacaagcacagac	10	8	5	18	2	2	2	1	0	1	2	6	2	4	2	4	0	1	1	4	0	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:7995165G>A	uc001aot.2	-	6	580	c.452C>T	c.(451-453)ACG>ATG	p.T151M		NM_001561	NP_001552	Q07011	TNR9_HUMAN	tumor necrosis factor receptor superfamily,	151	Extracellular (Potential).|TNFR-Cys 4.				induction of apoptosis|negative regulation of cell proliferation	integral to plasma membrane	binding|receptor activity			large_intestine(1)|lung(1)|ovary(1)|skin(1)	4	Ovarian(185;0.0634)|all_lung(157;0.151)	all_epithelial(116;9.63e-21)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.000625)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.93e-71)|GBM - Glioblastoma multiforme(8;3.72e-37)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;7.71e-06)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000419)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00103)|READ - Rectum adenocarcinoma(331;0.0649)		CCTCTCCTTCGTCCCATTCAC	0.493													29	43					0	0	1	0	0		A	7995165	A	A	7995165	3	1	49	1	0	0	0	0	1	0	0	0	16325	1145	40	1	327	1	TNFRSF9	1	7995165	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1405979	7995165	241255456	7	36687											
MTHFR	4524	broad.mit.edu	37	chr1	11852364	11852364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacaaggtggtaattaacccGgagctcgtacttcttcagca	11	10	10	10	2	2	0	1	0	1	0	3	2	2	1	1	3	4	4	1	3	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:11852364G>A	uc001atc.1	-	10	1787	c.1603C>T	c.(1603-1605)CGG>TGG	p.R535W	MTHFR_uc001atb.1_Missense_Mutation_p.R558W	NM_005957	NP_005948	P42898	MTHR_HUMAN	5,10-methylenetetrahydrofolate reductase	535					blood circulation|folic acid metabolic process	cytosol	methylenetetrahydrofolate reductase (NADPH) activity|protein binding				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)	Benazepril(DB00542)|Cyanocobalamin(DB00115)|Folic Acid(DB00158)|L-Methionine(DB00134)|Menadione(DB00170)|Methotrexate(DB00563)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|Raltitrexed(DB00293)|Riboflavin(DB00140)|S-Adenosylmethionine(DB00118)|Tetrahydrofolic acid(DB00116)	TAATTAACCCGGAGCTCGTAC	0.468													42	108					0	0	1	0	0		A	11852364	A	A	11852364	3	1	49	1	0	0	0	0	1	0	0	0	9949	1115	39	1	379	1	MTHFR	1	11852364	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3857199	11852364	237398257	8	36688											
CLCN6	1185	broad.mit.edu	37	chr1	11898430	11898430	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcctatgccgagatggcCgaggactacccgcggtaccc	7	7	11	16	4	1	1	0	0	1	1	2	4	1	2	5	3	3	1	5	3	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:11898430C>T	uc001ate.3	+	21	2447	c.2334C>T	c.(2332-2334)GCC>GCT	p.A778A	CLCN6_uc010oat.1_Silent_p.A494A|CLCN6_uc010oau.1_Silent_p.A756A|CLCN6_uc010oav.1_5'Flank|CLCN6_uc010oaw.1_5'Flank|CLCN6_uc010oax.1_5'Flank|CLCN6_uc010oay.1_5'Flank|CLCN6_uc010oaz.1_5'Flank|CLCN6_uc010oba.1_5'Flank	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	778	Cytoplasmic (By similarity).				cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		CCGAGATGGCCGAGGACTACC	0.657											OREG0013104	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	64					0	0	1	0	0		T	11898430	T	T	11898430	2	4	49	1	0	0	0	0	0	0	0	1	3470	639	23	1		1	CLCN6	1	11898430	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	46066	11898430	237352191	9	36689											
MFN2	9927	broad.mit.edu	37	chr1	12052705	12052705	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtgagaggcatcagtgAggtgctggctcggaggcaca	11	6	16	8	1	1	2	1	2	0	1	2	4	1	3	0	5	1	4	0	5	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:12052705A>G	uc001atn.3	+	4	722	c.269A>G	c.(268-270)GAG>GGG	p.E90G	MFN2_uc009vni.2_Missense_Mutation_p.E90G	NM_014874	NP_055689	O95140	MFN2_HUMAN	mitofusin 2	90	Cytoplasmic (Potential).				blood coagulation|mitochondrial fusion|mitochondrial membrane organization|mitochondrion localization|negative regulation of Ras protein signal transduction|negative regulation of smooth muscle cell proliferation|protein targeting to mitochondrion	cytosol|integral to membrane|intrinsic to mitochondrial outer membrane	GTP binding|GTPase activity|ubiquitin protein ligase binding			ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.25e-06)|COAD - Colon adenocarcinoma(227;0.000302)|BRCA - Breast invasive adenocarcinoma(304;0.000329)|Kidney(185;0.000896)|KIRC - Kidney renal clear cell carcinoma(229;0.00274)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		GGCATCAGTGAGGTGCTGGCT	0.537													48	194					0	0	1	0	0		G	12052705	G	G	12052705	3	3	49	1	0	0	0	0	1	0	0	0	9542	304	11	3	275	3	MFN2	1	12052705	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	154275	12052705	237197916	10	36690											
LOC440563	440563	broad.mit.edu	37	chr1	13183487	13183487	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaggaggaggaggtacaCgtgctgggaaactgtacatc	11	7	17	6	1	0	0	0	0	0	0	1	5	0	5	0	6	4	3	0	6	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:13183487C>T	uc010obg.1	-	1	481	c.386G>A	c.(385-387)CGT>CAT	p.R129H		NM_001136561	NP_001130033	B2RXH8	B2RXH8_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	129						ribonucleoprotein complex	nucleic acid binding|nucleotide binding				0						AGGAGGTACACGTGCTGGGAA	0.512													13	155					0	0	1	0	0		T	13183487	T	T	13183487	3	4	49	1	0	0	0	0	1	0	0	0	8897	536	19	1	499	1	LOC440563	1	13183487	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1130782	13183487	236067134	11	36691											
SPEN	23013	broad.mit.edu	37	chr1	16260928	16260928	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaatgccgctgcgagtgcAgtgaatgccacagcaagtgc	10	7	13	11	2	1	1	1	1	0	0	1	2	1	1	2	0	6	3	2	0	3	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:16260928A>G	uc001axk.1	+	11	8397	c.8193A>G	c.(8191-8193)GCA>GCG	p.A2731A	SPEN_uc010obp.1_Silent_p.A2690A	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2731	Interaction with RBPSUH (By similarity).				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CTGCGAGTGCAGTGAATGCCA	0.597													8	79					0	0	1	0	0		G	16260928	G	G	16260928	2	3	49	1	0	0	0	0	0	0	0	1	15063	175	7	3		3	SPEN	1	16260928	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3077441	16260928	232989693	12	36692											
ATP13A2	23400	broad.mit.edu	37	chr1	17318354	17318354	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctccttccacagtgtccCtggagggtgggcagacctgg	5	9	15	12	0	1	1	0	0	1	1	4	2	3	2	4	5	0	1	4	5	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:17318354C>A	uc001baa.2	-	20	2317	c.2127_splice	c.e20-1	p.R709_splice	ATP13A2_uc001azz.1_5'Flank|ATP13A2_uc001bab.2_Splice_Site_p.R704_splice|ATP13A2_uc001bac.2_Splice_Site_p.R704_splice	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1						ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		CACAGTGTCCCTGGAGGGTGG	0.632													9	60					0.000978159	0.00100216	1	1	0		A	17318354	A	A	17318354	5	1	49	1	0	0	0	0	0	0	1	0	1125	695	24	5	1692	5	ATP13A2	1	17318354	Splice_Site	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1057426	17318354	231932267	13	36693											
AKR7L	246181	broad.mit.edu	37	chr1	19595104	19595104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtacatccaccggagggcggCcgaggtcatgctgggagcgc	7	5	17	12	4	1	0	1	0	0	0	2	3	2	2	3	5	3	2	3	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:19595104C>T	uc010ocx.1	-	7	796	c.796G>A	c.(796-798)GCC>ACC	p.A266T	AKR7L_uc010ocy.1_Missense_Mutation_p.G200D	NM_201252	NP_957704			aflatoxin B1 aldehyde reductase 3 isoform 1												0						CGGAGGGCGGCCGAGGTCATG	0.617													5	97					0	0	1	0	0		T	19595104	T	T	19595104	3	4	49	1	0	0	0	0	1	0	0	0	477	739	26	2	207	2	AKR7L	1	19595104	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2276750	19595104	229655517	14	36694											
HSPG2	3339	broad.mit.edu	37	chr1	22191813	22191813	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcgtagctcctcctctcagGgccctgcagcgctggctggg	3	9	13	16	2	1	0	1	0	1	0	5	0	3	0	3	3	3	5	3	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:22191813G>T	uc001bfj.2	-	35	4400	c.4360C>A	c.(4360-4362)CCT>ACT	p.P1454T	HSPG2_uc009vqd.2_Missense_Mutation_p.P1455T	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	1454	Laminin IV type A 3.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CTCCTCTCAGGGCCCTGCAGC	0.632													5	123					3.59834e-05	3.74717e-05	1	1	0		T	22191813	T	T	22191813	3	4	49	1	0	0	0	0	1	0	0	0	7446	1232	43	5	9067	5	HSPG2	1	22191813	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2596709	22191813	227058808	15	36695											
EPHA8	2046	broad.mit.edu	37	chr1	22902838	22902838	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgagacggcgcccggcgCgtctatgctgagatcaagtt	7	7	13	14	6	2	2	1	1	1	2	2	4	2	2	3	2	1	2	3	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:22902838C>T	uc001bfx.1	+	3	413	c.288C>T	c.(286-288)CGC>CGT	p.R96R	EPHA8_uc001bfw.2_Silent_p.R96R	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	96	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GCGCCCGGCGCGTCTATGCTG	0.612													23	47					0	0	1	0	0		T	22902838	T	T	22902838	2	4	49	1	0	0	0	0	0	0	0	1	5181	755	27	1		1	EPHA8	1	22902838	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	711025	22902838	226347783	16	36696											
HNRNPR	10236	broad.mit.edu	37	chr1	23645142	23645142	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccccgattcttctttttgTcatcgggttgatgatagaga	8	15	9	9	2	3	3	1	2	2	1	4	5	3	3	2	1	0	1	2	1	1	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:23645142T>C	uc001bgr.3	-	8	1010	c.851A>G	c.(850-852)GAC>GGC	p.D284G	HNRNPR_uc001bgp.3_Missense_Mutation_p.D287G|HNRNPR_uc009vqk.2_Missense_Mutation_p.D186G|HNRNPR_uc001bgs.3_Missense_Mutation_p.D183G|HNRNPR_uc010odw.1_Missense_Mutation_p.D246G|HNRNPR_uc010odx.1_Missense_Mutation_p.D124G|HNRNPR_uc009vql.2_Missense_Mutation_p.D145G	NM_005826	NP_005817	O43390	HNRPR_HUMAN	heterogeneous nuclear ribonucleoprotein R	284	RRM 2.					catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00394)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;6.83e-27)|Colorectal(126;6.01e-08)|COAD - Colon adenocarcinoma(152;3.32e-06)|GBM - Glioblastoma multiforme(114;6.69e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00357)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0875)|LUSC - Lung squamous cell carcinoma(448;0.19)		CTTCTTTTTGTCATCGGGTTG	0.458													7	35					0	0	1	0	0		C	23645142	C	C	23645142	3	2	49	1	0	0	0	0	1	0	0	0	7288	1667	58	3	1066	3	HNRNPR	1	23645142	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	742304	23645142	225605479	17	36697											
SYF2	25949	broad.mit.edu	37	chr1	25549889	25549889	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcatcatcattataaggAcgtctccggctatatttgtc	9	15	7	10	2	4	0	2	0	2	0	6	1	4	1	1	2	1	2	1	2	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:25549889A>G	uc001bjt.1	-	7	655	c.600T>C	c.(598-600)CGT>CGC	p.R200R	SYF2_uc001bju.1_Silent_p.R158R	NM_015484	NP_056299	O95926	SYF2_HUMAN	SYF2 homolog, RNA splicing factor isoform 1	200						catalytic step 2 spliceosome					0		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.5e-26)|Colorectal(126;2.54e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000455)|STAD - Stomach adenocarcinoma(196;0.000766)|KIRC - Kidney renal clear cell carcinoma(1967;0.00145)|GBM - Glioblastoma multiforme(114;0.00443)|READ - Rectum adenocarcinoma(331;0.0936)|Lung(427;0.201)		CATTATAAGGACGTCTCCGGC	0.333													5	117					0	0	1	0	0		G	25549889	G	G	25549889	2	3	49	1	0	0	0	0	0	0	0	1	15462	262	10	3		3	SYF2	1	25549889	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1904747	25549889	223700732	18	36698											
DHDDS	79947	broad.mit.edu	37	chr1	26759476	26759476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagagctgtcactttgggagCggttctgtgccaacatcata	9	11	12	9	1	3	1	2	0	1	1	3	3	3	2	1	2	4	2	1	2	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:26759476C>T	uc001bml.2	+	2	161	c.40C>T	c.(40-42)CGG>TGG	p.R14W	DHDDS_uc001bmk.2_Missense_Mutation_p.R14W|DHDDS_uc001bmm.2_5'UTR|DHDDS_uc001bmn.2_Missense_Mutation_p.R14W|DHDDS_uc010ofd.1_Missense_Mutation_p.R14W	NM_205861	NP_995583	Q86SQ9	DHDDS_HUMAN	dehydrodolichyl diphosphate synthase isoform b	14							protein binding|transferase activity, transferring alkyl or aryl (other than methyl) groups			breast(3)	3		all_cancers(24;2.04e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.11e-27)|Colorectal(126;1.61e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.0161)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.166)|LUSC - Lung squamous cell carcinoma(448;0.239)		ACTTTGGGAGCGGTTCTGTGC	0.448													28	71					0	0	1	0	0		T	26759476	T	T	26759476	3	4	49	1	0	0	0	0	1	0	0	0	4484	759	27	1	42	1	DHDDS	1	26759476	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1209587	26759476	222491145	19	36699											
RPS6KA1	6195	broad.mit.edu	37	chr1	26883500	26883500	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgcagaagctataccgTcgtgagatcaagccaccctt	11	9	9	12	2	1	2	1	1	0	2	2	3	1	2	3	0	4	2	3	0	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:26883500T>C	uc001bmr.1	+	13	1156	c.993T>C	c.(991-993)CGT>CGC	p.R331R	RPS6KA1_uc010ofe.1_Silent_p.R239R|RPS6KA1_uc010off.1_Silent_p.R315R|RPS6KA1_uc001bms.1_Silent_p.R340R|RPS6KA1_uc009vsl.1_Silent_p.R174R	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	331	AGC-kinase C-terminal.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		AGCTATACCGTCGTGAGATCA	0.602													5	93					0	0	1	0	0		C	26883500	C	C	26883500	2	2	49	1	0	0	0	0	0	0	0	1	13675	1654	58	3		3	RPS6KA1	1	26883500	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	124024	26883500	222367121	20	36700											
GPR3	2827	broad.mit.edu	37	chr1	27720612	27720612	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgctgtcttctgcatcGgctcagcggagatgagcctg	5	12	13	11	2	3	2	1	1	2	1	4	3	3	2	1	2	5	4	1	2	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:27720612G>T	uc001bod.2	+	2	405	c.310G>T	c.(310-312)GGC>TGC	p.G104C		NM_005281	NP_005272	P46089	GPR3_HUMAN	G protein-coupled receptor 3	104	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane				ovary(1)	1		Breast(348;1.53e-05)|Ovarian(437;0.0606)|all_lung(284;0.157)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;2.81e-26)|Colorectal(126;1.24e-08)|KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;4.45e-06)|Lung(427;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|LUSC - Lung squamous cell carcinoma(448;0.008)|READ - Rectum adenocarcinoma(331;0.0419)		CTTCTGCATCGGCTCAGCGGA	0.637													3	55					3.59834e-05	3.74717e-05	1	1	0		T	27720612	T	T	27720612	3	4	49	1	0	0	0	0	1	0	0	0	6701	1116	39	5	312	5	GPR3	1	27720612	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	837112	27720612	221530009	21	36701											
SPOCD1	90853	broad.mit.edu	37	chr1	32280324	32280324	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccatttctttcttaccCtcacagggactgggtctggt	5	15	8	13	0	4	0	1	0	3	0	6	1	6	1	3	3	1	0	3	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:32280324C>A	uc001bts.1	-	2	669	c.611G>T	c.(610-612)AGG>ATG	p.R204M	SPOCD1_uc001btu.2_Missense_Mutation_p.R204M|SPOCD1_uc001btv.2_Intron	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	204					transcription, DNA-dependent					ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)		CTTTCTTACCCTCACAGGGAC	0.577													7	108					0.00307968	0.00313834	1	1	0		A	32280324	A	A	32280324	3	1	49	1	0	0	0	0	1	0	0	0	15103	681	24	5	3099	5	SPOCD1	1	32280324	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4559712	32280324	216970297	22	36702											
LCK	3932	broad.mit.edu	37	chr1	32745341	32745341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaaactcctggacatggCagcccaagtaaggagactgg	14	5	11	11	0	0	1	0	0	0	1	1	3	1	2	2	4	3	2	2	4	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:32745341C>T	uc001bux.2	+	10	1172	c.1034C>T	c.(1033-1035)GCA>GTA	p.A345V	LCK_uc001buy.2_Missense_Mutation_p.A345V|LCK_uc001buz.2_Missense_Mutation_p.A375V|LCK_uc010ohc.1_Missense_Mutation_p.A389V|LCK_uc001bva.2_Missense_Mutation_p.A352V	NM_005356	NP_005347	P06239	LCK_HUMAN	lymphocyte-specific protein tyrosine kinase	345	Protein kinase.				activation of caspase activity|cellular zinc ion homeostasis|induction of apoptosis|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of T cell receptor signaling pathway|regulation of defense response to virus by virus|release of sequestered calcium ion into cytosol|response to drug|T cell costimulation|T cell differentiation|T cell receptor signaling pathway|viral reproduction	cytosol|Golgi apparatus|membrane raft|pericentriolar material|plasma membrane	ATP binding|ATPase binding|CD4 receptor binding|CD8 receptor binding|glycoprotein binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein kinase binding|protein serine/threonine phosphatase activity|SH2 domain binding			lung(3)|central_nervous_system(2)|ovary(1)	6		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)			Dasatinib(DB01254)	CTGGACATGGCAGCCCAAGTA	0.557			T	TRB@	T-ALL								59	131					0	0	1	0	0		T	32745341	T	T	32745341	3	4	49	1	0	0	0	0	1	0	0	0	8692	710	25	2	1068	2	LCK	1	32745341	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	465017	32745341	216505280	23	36703											
MARCKSL1	65108	broad.mit.edu	37	chr1	32800476	32800476	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccgatttctcttgaaggAcaggccgctcaatttgaaag	10	12	9	10	2	2	2	1	2	1	0	4	4	3	3	2	2	0	1	2	2	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:32800476A>G	uc001bvd.2	-	2	510	c.310T>C	c.(310-312)TCC>CCC	p.S104P		NM_023009	NP_075385	P49006	MRP_HUMAN	MARCKS-like 1	104						plasma membrane	calmodulin binding			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CTCTTGAAGGACAGGCCGCTC	0.572													10	46					0	0	1	0	0		G	32800476	G	G	32800476	3	3	49	1	0	0	0	0	1	0	0	0	9328	275	10	3	281	3	MARCKSL1	1	32800476	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	55135	32800476	216450145	24	36704											
TRIM62	55223	broad.mit.edu	37	chr1	33613190	33613190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcttcagaacccagcaccGacacctccacatcgaagcgc	12	4	8	17	3	1	1	1	0	0	1	3	3	2	1	4	1	3	2	4	1	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:33613190G>A	uc001bxb.2	-	5	1654	c.1016C>T	c.(1015-1017)TCG>TTG	p.S339L		NM_018207	NP_060677	Q9BVG3	TRI62_HUMAN	tripartite motif-containing 62	339	B30.2/SPRY.					intracellular	zinc ion binding				0		Myeloproliferative disorder(586;0.0393)				ACCCAGCACCGACACCTCCAC	0.617													17	59					0	0	1	0	0		A	33613190	A	A	33613190	3	1	49	1	0	0	0	0	1	0	0	0	16563	1059	37	1	415	1	TRIM62	1	33613190	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	812714	33613190	215637431	25	36705											
TRIM62	55223	broad.mit.edu	37	chr1	33625397	33625397	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgcgcagctgctggctgTagcgctggactttctgctcg	3	12	13	13	3	1	0	0	0	1	0	2	1	1	1	1	2	5	7	1	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:33625397T>C	uc001bxb.2	-	3	1291	c.653A>G	c.(652-654)TAC>TGC	p.Y218C		NM_018207	NP_060677	Q9BVG3	TRI62_HUMAN	tripartite motif-containing 62	218	Potential.					intracellular	zinc ion binding				0		Myeloproliferative disorder(586;0.0393)				CTGCTGGCTGTAGCGCTGGAC	0.667													5	90					0	0	1	0	0		C	33625397	C	C	33625397	3	2	49	1	0	0	0	0	1	0	0	0	16563	1638	57	3	786	3	TRIM62	1	33625397	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	12207	33625397	215625224	26	36706											
CSMD2	114784	broad.mit.edu	37	chr1	34011774	34011774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agctgtcccccaaacggatgCcatgagccgggatcccaggg	9	5	13	14	2	0	1	0	1	0	0	2	3	2	3	5	3	4	1	5	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:34011774C>T	uc001bxn.1	-	56	8560	c.8531G>A	c.(8530-8532)GGC>GAC	p.G2844D	CSMD2_uc001bxm.1_Missense_Mutation_p.G2988D	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2844	Extracellular (Potential).|Sushi 20.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CAAACGGATGCCATGAGCCGG	0.572													12	20					0	0	1	0	0		T	34011774	T	T	34011774	3	4	49	1	0	0	0	0	1	0	0	0	3948	739	26	2	1988	2	CSMD2	1	34011774	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	386377	34011774	215238847	27	36707											
ZMYM4	9202	broad.mit.edu	37	chr1	35873680	35873680	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagtttgggcttatgccagTttatccaagaggtgcggaga	9	12	14	6	1	0	3	0	1	0	2	1	4	1	3	2	3	2	3	2	3	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:35873680T>C	uc001byt.2	+	26	3948	c.3868T>C	c.(3868-3870)TTT>CTT	p.F1290L	ZMYM4_uc009vuu.2_Missense_Mutation_p.F1258L|ZMYM4_uc001byu.2_Missense_Mutation_p.F966L|ZMYM4_uc009vuv.2_Missense_Mutation_p.F1029L	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	1290					multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CTTATGCCAGTTTATCCAAGA	0.393													12	138					0	0	1	0	0		C	35873680	C	C	35873680	3	2	49	1	0	0	0	0	1	0	0	0	17727	1725	60	3	3970	3	ZMYM4	1	35873680	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1861906	35873680	213376941	28	36708											
ZC3H12A	80149	broad.mit.edu	37	chr1	37947230	37947231	+	Frame_Shift_Ins	INS	-	A	A																															tcctgcgggaactggagaagINSaagaagatcctggtgttcac																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:37947230_37947231insA	uc001cbb.3	+	4	762_763	c.612_613insA	c.(610-615)AAGAAGfs	p.K204fs	ZC3H12A_uc001cbc.1_5'UTR	NM_025079	NP_079355	Q5D1E8	ZC12A_HUMAN	zinc finger CCCH-type containing 12A	204_205					angiogenesis|apoptosis|cell differentiation	cytoplasm|nucleus|plasma membrane	endonuclease activity|metal ion binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				AACTGGAGAAGAAGAAGATCCT	0.604													46	93	---	---	---	---						.	A	37947231	A	A	37947230	7	5	49	1	0	1	1	0	0	0	0	0	17586	933	33	0	622	0	ZC3H12A	1	37947230	Frame_Shift_Ins	INS	-	TCGA-BR-7707-01A-11D-2053-08	2073550	37947230	211303391	29	36709											
ZC3H12A	80149	broad.mit.edu	37	chr1	37948555	37948555	+	Frame_Shift_Del	DEL	G	-	-																															agcctggatgggaagaagctGggggcccaggcatccccagg																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:37948555delG	uc001cbb.3	+	6	1293	c.1143delG	c.(1141-1143)CTGfs	p.L381fs	ZC3H12A_uc001cbc.1_Frame_Shift_Del_p.L176fs	NM_025079	NP_079355	Q5D1E8	ZC12A_HUMAN	zinc finger CCCH-type containing 12A	381					angiogenesis|apoptosis|cell differentiation	cytoplasm|nucleus|plasma membrane	endonuclease activity|metal ion binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GGAAGAAGCTGGGGGCCCAGG	0.627													7	14	---	---	---	---						.	-	37948555	-	-	37948555	7	5	49	1	0	1	0	1	0	0	0	0	17586	1335	47	0	1161	0	ZC3H12A	1	37948555	Frame_Shift_Del	DEL	G	TCGA-BR-7707-01A-11D-2053-08	1325	37948555	211302066	30	36710											
MTF1	4520	broad.mit.edu	37	chr1	38305654	38305654	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactcaaatggcttctccttCgtgtgcactcgcacgtggat	7	12	9	13	3	2	0	1	0	1	0	5	1	2	1	1	2	1	3	1	2	1	2	rs143831879		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:38305654C>T	uc001cce.1	-	3	726	c.585G>A	c.(583-585)ACG>ACA	p.T195T	MTF1_uc009vvj.1_5'UTR	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	195						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GCTTCTCCTTCGTGTGCACTC	0.537													23	64					0	0	1	0	0		T	38305654	T	T	38305654	2	4	49	1	0	0	0	0	0	0	0	1	9940	871	31	1		1	MTF1	1	38305654	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	357099	38305654	210944967	31	36711											
MFSD2A	84879	broad.mit.edu	37	chr1	40430970	40430970	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacggccagacctattggtaCctgcttttctattgcctctt	6	15	7	13	1	2	1	0	0	2	1	2	1	2	1	4	2	3	2	4	2	3	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:40430970C>T	uc001cev.2	+	4	661	c.480C>T	c.(478-480)TAC>TAT	p.Y160Y	MFSD2A_uc010ojb.1_Silent_p.Y110Y|MFSD2A_uc001ceu.2_Silent_p.Y147Y|MFSD2A_uc010ojc.1_5'UTR|MFSD2A_uc009vvy.2_RNA|MFSD2A_uc001cex.2_5'Flank	NM_001136493	NP_001129965	Q8NA29	MFS2A_HUMAN	major facilitator superfamily domain containing	160					transmembrane transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)|pancreas(1)	2						CCTATTGGTACCTGCTTTTCT	0.587													12	66					0	0	1	0	0		T	40430970	T	T	40430970	2	4	49	1	0	0	0	0	0	0	0	1	9548	518	18	4		4	MFSD2A	1	40430970	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2125316	40430970	208819651	32	36712											
CAP1	10487	broad.mit.edu	37	chr1	40529914	40529914	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctagaataagctttccgatTtgttggcacccatctcagag	10	12	8	11	1	1	2	1	0	1	2	3	3	2	2	3	1	1	3	3	1	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:40529914T>A	uc001cfa.3	+	5	539	c.310T>A	c.(310-312)TTG>ATG	p.L104M	CAP1_uc001cey.3_Missense_Mutation_p.L104M|CAP1_uc001cez.3_Missense_Mutation_p.L104M|CAP1_uc009vvz.2_Missense_Mutation_p.L104M|CAP1_uc010oje.1_Intron	NM_006367	NP_006358	Q01518	CAP1_HUMAN	adenylyl cyclase-associated protein	104					activation of adenylate cyclase activity|axon guidance|establishment or maintenance of cell polarity|platelet activation|platelet degranulation|signal transduction	plasma membrane	actin binding			ovary(1)	1	Lung NSC(20;5.03e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;4.63e-18)|Epithelial(16;1.27e-16)|all cancers(16;2.3e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GCTTTCCGATTTGTTGGCACC	0.428													6	83					0	0	1	0	0		A	40529914	A	A	40529914	3	1	49	1	0	0	0	0	1	0	0	0	2622	1838	64	5	324	5	CAP1	1	40529914	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	98944	40529914	208720707	33	36713											
PPT1	5538	broad.mit.edu	37	chr1	40546070	40546070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggtttgggtgcttaccCgctcctgatttatatctgcc	4	14	10	13	2	1	1	0	1	1	0	2	1	2	1	4	2	3	3	4	2	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:40546070C>T	uc001cfb.2	-	6	858	c.626G>A	c.(625-627)CGG>CAG	p.R209Q	PPT1_uc010ojf.1_Missense_Mutation_p.R159Q|PPT1_uc010ojg.1_Missense_Mutation_p.R106Q|PPT1_uc009vwa.2_RNA	NM_000310	NP_000301	P50897	PPT1_HUMAN	palmitoyl-protein thioesterase 1 isoform 1	209					brain development|cofactor metabolic process|cofactor transport|DNA fragmentation involved in apoptotic nuclear change|lysosomal lumen acidification|membrane raft organization|negative regulation of cell growth|negative regulation of neuron apoptosis|neuron development|pinocytosis|positive regulation of pinocytosis|positive regulation of receptor-mediated endocytosis|protein depalmitoylation|protein transport|receptor-mediated endocytosis|regulation of synapse structure and activity|sphingolipid catabolic process|visual perception	axon|cytosol|Golgi apparatus|lysosome|membrane fraction|membrane raft|nucleus|synaptic vesicle	palmitoyl-(protein) hydrolase activity|palmitoyl-CoA hydrolase activity	p.R209Q(1)		ovary(1)	1	Lung NSC(20;3.43e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1e-18)|Epithelial(16;3.6e-17)|all cancers(16;1.1e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GGTGCTTACCCGCTCCTGATT	0.478													76	193					0	0	1	0	0		T	40546070	T	T	40546070	3	4	49	1	0	0	0	0	1	0	0	0	12433	666	23	1	310	1	PPT1	1	40546070	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	16156	40546070	208704551	34	36714											
PPT1	5538	broad.mit.edu	37	chr1	40555088	40555088	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaccatacataccgttccTgaacaactttggagtacgcc	12	10	6	13	2	0	1	0	1	0	0	1	2	1	2	4	1	6	2	4	1	6	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:40555088T>C	uc001cfb.2	-	5	762	c.530A>G	c.(529-531)CAG>CGG	p.Q177R	PPT1_uc010ojf.1_Missense_Mutation_p.Q127R|PPT1_uc010ojg.1_Missense_Mutation_p.Q74R|PPT1_uc009vwa.2_RNA	NM_000310	NP_000301	P50897	PPT1_HUMAN	palmitoyl-protein thioesterase 1 isoform 1	177			Q -> E (in CLN1).		brain development|cofactor metabolic process|cofactor transport|DNA fragmentation involved in apoptotic nuclear change|lysosomal lumen acidification|membrane raft organization|negative regulation of cell growth|negative regulation of neuron apoptosis|neuron development|pinocytosis|positive regulation of pinocytosis|positive regulation of receptor-mediated endocytosis|protein depalmitoylation|protein transport|receptor-mediated endocytosis|regulation of synapse structure and activity|sphingolipid catabolic process|visual perception	axon|cytosol|Golgi apparatus|lysosome|membrane fraction|membrane raft|nucleus|synaptic vesicle	palmitoyl-(protein) hydrolase activity|palmitoyl-CoA hydrolase activity			ovary(1)	1	Lung NSC(20;3.43e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1e-18)|Epithelial(16;3.6e-17)|all cancers(16;1.1e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			ATACCGTTCCTGAACAACTTT	0.463													5	93					0	0	1	0	0		C	40555088	C	C	40555088	3	2	49	1	0	0	0	0	1	0	0	0	12433	1580	55	3	410	3	PPT1	1	40555088	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	9018	40555088	208695533	35	36715											
ZNF642	339559	broad.mit.edu	37	chr1	40945120	40945120	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaggccgtggagggggcGcccctgtgggaggatgtgac	8	5	20	8	2	0	2	0	1	0	1	0	5	0	5	3	6	0	0	3	6	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:40945120G>A	uc001cfo.2	+	2	381	c.87G>A	c.(85-87)GCG>GCA	p.A29A	ZNF642_uc009vwb.2_Silent_p.A29A|ZNF642_uc010ojk.1_Silent_p.A29A	NM_198494	NP_940896	Q49AA0	ZN642_HUMAN	zinc finger protein 642	29	SCAN box.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.81e-19)			TGGAGGGGGCGCCCCTGTGGG	0.547													7	25					0	0	1	0	0		A	40945120	A	A	40945120	2	1	49	1	0	0	0	0	0	0	0	1	18083	1074	38	1		1	ZNF642	1	40945120	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	390032	40945120	208305501	36	36716											
FOXJ3	22887	broad.mit.edu	37	chr1	42645440	42645440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctggaggcagggaacgccGcatctggaaggcttgggaag	10	6	17	8	2	2	0	0	0	2	0	2	4	2	4	1	6	1	3	1	6	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:42645440G>A	uc001che.2	-	15	2122	c.1810C>T	c.(1810-1812)CGG>TGG	p.R604W	FOXJ3_uc001chf.2_Missense_Mutation_p.R604W|FOXJ3_uc001chg.2_Missense_Mutation_p.R604W	NM_014947	NP_055762	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	604					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)	2	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				AGGGAACGCCGCATCTGGAAG	0.507													14	151					0	0	1	0	0		A	42645440	A	A	42645440	3	1	49	1	0	0	0	0	1	0	0	0	6027	1086	38	1	62	1	FOXJ3	1	42645440	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1700320	42645440	206605181	37	36717											
EBNA1BP2	10969	broad.mit.edu	37	chr1	43636531	43636531	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtaagactgcaagcactgCggcctgggcttggcgatagc	8	7	16	10	2	0	1	0	0	0	1	0	2	0	1	1	4	4	4	1	4	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:43636531C>T	uc001cin.2	-	4	540	c.343G>A	c.(343-345)GCA>ACA	p.A115T	EBNA1BP2_uc001cio.2_Missense_Mutation_p.A170T|WDR65_uc010ojz.1_5'Flank|WDR65_uc001cip.1_5'Flank|WDR65_uc001ciq.1_5'Flank|EBNA1BP2_uc001cim.2_Missense_Mutation_p.A10T|EBNA1BP2_uc010ojx.1_Missense_Mutation_p.A170T	NM_006824	NP_006815	Q99848	EBP2_HUMAN	EBNA1 binding protein 2 isoform 2	115					ribosome biogenesis	membrane fraction|nucleolus	protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GCAAGCACTGCGGCCTGGGCT	0.507													49	160					0	0	1	0	0		T	43636531	T	T	43636531	3	4	49	1	0	0	0	0	1	0	0	0	4891	768	27	1	601	1	EBNA1BP2	1	43636531	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	991091	43636531	205614090	38	36718											
ZSWIM5	57643	broad.mit.edu	37	chr1	45484249	45484249	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcaggaaggtctcccgAgccttgcttagaaactcaat	11	8	11	11	1	2	1	1	0	1	1	3	3	2	2	2	3	4	3	2	3	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:45484249A>G	uc001cnd.2	-	14	3663	c.3435T>C	c.(3433-3435)GCT>GCC	p.A1145A		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	1145							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					AGGTCTCCCGAGCCTTGCTTA	0.502											OREG0013450	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	131					0	0	1	0	0		G	45484249	G	G	45484249	2	3	49	1	0	0	0	0	0	0	0	1	18269	291	11	3		3	ZSWIM5	1	45484249	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1847718	45484249	203766372	39	36719											
MUTYH	4595	broad.mit.edu	37	chr1	45797709	45797709	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaccacactcctccacgTcaggactgcccgacaggctc	8	6	8	19	2	2	0	2	0	0	0	5	2	4	1	4	2	1	2	4	2	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:45797709T>C	uc001cnm.2	-	11	1190	c.974A>G	c.(973-975)GAC>GGC	p.D325G	MUTYH_uc009vxn.2_Missense_Mutation_p.D150G|MUTYH_uc001cnf.2_Missense_Mutation_p.D300G|MUTYH_uc009vxo.2_Missense_Mutation_p.D300G|MUTYH_uc001cng.2_Missense_Mutation_p.D311G|MUTYH_uc001cnj.2_Missense_Mutation_p.D208G|MUTYH_uc001cni.2_Missense_Mutation_p.D300G|MUTYH_uc001cnh.2_Missense_Mutation_p.D301G|MUTYH_uc001cno.2_Missense_Mutation_p.D208G|MUTYH_uc001cnk.2_Missense_Mutation_p.D185G|MUTYH_uc010oll.1_Intron|MUTYH_uc001cnl.2_Missense_Mutation_p.D314G|MUTYH_uc009vxp.2_Missense_Mutation_p.D328G|MUTYH_uc001cnn.2_Missense_Mutation_p.D315G	NM_012222	NP_036354	Q9UIF7	MUTYH_HUMAN	mutY homolog isoform 1	325					depurination|mismatch repair	nucleoplasm	4 iron, 4 sulfur cluster binding|DNA N-glycosylase activity|endonuclease activity|metal ion binding|MutSalpha complex binding				0	Acute lymphoblastic leukemia(166;0.155)					CTCCTCCACGTCAGGACTGCC	0.572			Mis			colorectal		BER_DNA_glycosylases	MUTYH-associated_polyposis				6	84					0	0	1	0	0		C	45797709	C	C	45797709	3	2	49	1	0	0	0	0	1	0	0	0	10011	1667	58	3	690	3	MUTYH	1	45797709	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	313460	45797709	203452912	40	36720											
AKR1A1	10327	broad.mit.edu	37	chr1	46033700	46033700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgctgatgggactatatgcTacgactccacccactacaag	12	9	8	12	1	0	1	0	1	0	0	1	3	1	2	2	1	4	2	2	1	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:46033700T>C	uc001cod.2	+	6	867	c.403T>C	c.(403-405)TAC>CAC	p.Y135H	AKR1A1_uc009vxw.2_3'UTR|AKR1A1_uc001coe.2_Missense_Mutation_p.Y135H|AKR1A1_uc001cof.2_Silent_p.A7A|AKR1A1_uc001cog.2_RNA	NM_006066	NP_006057	P14550	AK1A1_HUMAN	aldo-keto reductase family 1, member A1	135					glucose metabolic process		alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					GACTATATGCTACGACTCCAC	0.582													4	35					0	0	1	0	0		C	46033700	C	C	46033700	3	2	49	1	0	0	0	0	1	0	0	0	465	1522	53	3	417	3	AKR1A1	1	46033700	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	235991	46033700	203216921	41	36721											
DMBX1	127343	broad.mit.edu	37	chr1	46977911	46977911	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgctgctgcagcggcGgctgctgctgtgccctacct	2	9	13	17	2	0	0	0	0	0	0	0	0	0	0	4	2	8	6	4	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:46977911G>T	uc001cpx.2	+	4	909	c.894G>T	c.(892-894)GCG>GCT	p.A298A	DMBX1_uc001cpw.2_Silent_p.A293A	NM_147192	NP_671725	Q8NFW5	DMBX1_HUMAN	diencephalon/mesencephalon homeobox 1 isoform b	298					brain development|developmental growth|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CTGCAGCGGCGGCTGCTGCTG	0.662													4	31					0.150653	0.151361	1	1	0		T	46977911	T	T	46977911	2	4	49	1	0	0	0	0	0	0	0	1	4584	1103	39	5		5	DMBX1	1	46977911	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	944211	46977911	202272710	42	36722											
CYP4X1	260293	broad.mit.edu	37	chr1	47512210	47512210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgattgattcctgcagtccCgtccatttccagagatctca	8	12	7	14	2	1	2	1	1	1	1	6	4	5	2	5	0	1	1	5	0	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:47512210C>T	uc001cqt.2	+	9	1395	c.1145C>T	c.(1144-1146)CCG>CTG	p.P382L	CYP4X1_uc001cqr.2_Missense_Mutation_p.P381L|CYP4X1_uc001cqs.2_Missense_Mutation_p.P317L	NM_178033	NP_828847	Q8N118	CP4X1_HUMAN	cytochrome P450, family 4, subfamily X,	382						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2						CCTGCAGTCCCGTCCATTTCC	0.512													14	56					0	0	1	0	0		T	47512210	T	T	47512210	3	4	49	1	0	0	0	0	1	0	0	0	4196	652	23	1	1179	1	CYP4X1	1	47512210	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	534299	47512210	201738411	43	36723											
ZFYVE9	9372	broad.mit.edu	37	chr1	52805802	52805802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgcctctattttagtgtcGtaagtcctatagatgggaag	9	16	10	6	1	1	1	0	0	1	1	3	2	2	2	2	1	1	1	2	1	6	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:52805802G>A	uc001cto.2	+	17	4010	c.3838G>A	c.(3838-3840)GTA>ATA	p.V1280I	ZFYVE9_uc001ctp.2_Missense_Mutation_p.V1221I	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	1280					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						TTTTAGTGTCGTAAGTCCTAT	0.368													15	37					0	0	1	0	0		A	52805802	A	A	52805802	3	1	49	1	0	0	0	0	1	0	0	0	17696	1145	40	1	3907	1	ZFYVE9	1	52805802	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5293592	52805802	196444819	44	36724											
ZCCHC11	23318	broad.mit.edu	37	chr1	52940630	52940630	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagaggtagcagatgtgtcGgtgcacacactctgatgtga	11	9	13	8	1	1	4	0	2	1	2	2	4	1	4	0	2	2	3	0	2	2	1	rs150767107	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:52940630G>A	uc001ctx.2	-	13	2835	c.2601C>T	c.(2599-2601)ACC>ACT	p.T867T	ZCCHC11_uc001cty.2_Silent_p.T867T|ZCCHC11_uc001ctz.2_Silent_p.T867T|ZCCHC11_uc009vze.1_Silent_p.T867T|ZCCHC11_uc009vzf.1_Silent_p.T626T|ZCCHC11_uc001cub.2_Silent_p.T867T	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	867					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						CAGATGTGTCGGTGCACACAC	0.423													24	48					0	0	1	0	0		A	52940630	A	A	52940630	2	1	49	1	0	0	0	0	0	0	0	1	17605	1103	39	1		1	ZCCHC11	1	52940630	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	134828	52940630	196309991	45	36725											
ZYG11B	79699	broad.mit.edu	37	chr1	53237431	53237431	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactctgaattcctcacaggCgaaggacatttgaaggttag	12	11	10	8	1	2	2	1	2	1	0	3	4	3	3	1	3	1	1	1	3	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:53237431C>T	uc001cuj.2	+	3	1131	c.936C>T	c.(934-936)GGC>GGT	p.G312G	ZYG11B_uc009vzg.2_RNA|ZYG11B_uc010onj.1_Silent_p.G303G	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B	312							protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						TCCTCACAGGCGAAGGACATT	0.373													30	96					0	0	1	0	0		T	53237431	T	T	53237431	2	4	49	1	0	0	0	0	0	0	0	1	18278	755	27	1		1	ZYG11B	1	53237431	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	296801	53237431	196013190	46	36726											
TMEM59	9528	broad.mit.edu	37	chr1	54509118	54509118	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggttatgaagctctgtgcGgagtccatcatgtcactcca	9	11	11	10	1	3	1	2	1	1	0	5	3	5	2	2	2	2	2	2	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:54509118G>A	uc001cwp.2	-	4	721	c.471C>T	c.(469-471)TCC>TCT	p.S157S	TMEM59_uc001cwn.2_Silent_p.S20S|TMEM59_uc001cwo.2_Silent_p.S20S|TMEM59_uc001cwq.2_Silent_p.S157S|TMEM59_uc001cwr.2_Silent_p.S90S|TMEM59_uc001cws.1_Silent_p.S168S	NM_004872	NP_004863	Q9BXS4	TMM59_HUMAN	thymic dendritic cell-derived factor 1	157	Extracellular (Potential).					Golgi membrane|integral to membrane					0						AGCTCTGTGCGGAGTCCATCA	0.393													5	64					0	0	1	0	0		A	54509118	A	A	54509118	2	1	49	1	0	0	0	0	0	0	0	1	16210	1103	39	1		1	TMEM59	1	54509118	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1271687	54509118	194741503	47	36727											
ACOT11	26027	broad.mit.edu	37	chr1	55064971	55064971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacccctgcctcctcagccGgctctgccgtgcccacccta	4	7	7	23	2	2	0	1	0	1	0	3	0	3	0	9	1	4	1	9	1	1	1	rs141264387		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:55064971G>A	uc001cxm.1	+	8	849	c.767G>A	c.(766-768)CGG>CAG	p.R256Q	ACOT11_uc001cxj.1_Missense_Mutation_p.R134Q|ACOT11_uc001cxl.1_Missense_Mutation_p.R256Q	NM_015547	NP_056362	Q8WXI4	ACO11_HUMAN	thioesterase, adipose associated isoform BFIT1	256	Acyl coenzyme A hydrolase 2.				fatty acid metabolic process|intracellular signal transduction|response to cold		acyl-CoA thioesterase activity|carboxylesterase activity			central_nervous_system(1)	1						CTCCTCAGCCGGCTCTGCCGT	0.527													5	106					0	0	1	0	0		A	55064971	A	A	55064971	3	1	49	1	0	0	0	0	1	0	0	0	149	1116	39	1	797	1	ACOT11	1	55064971	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	555853	55064971	194185650	48	36728											
ACOT11	26027	broad.mit.edu	37	chr1	55073633	55073633	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggacccctatgtcatcgcGctgaggtcggtcacgctgcc	6	8	13	14	4	2	1	2	1	0	0	4	2	2	2	3	3	1	2	3	3	1	1	rs142120798		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:55073633G>A	uc001cxm.1	+	15	1603	c.1521G>A	c.(1519-1521)GCG>GCA	p.A507A	ACOT11_uc001cxj.1_Silent_p.A385A|ACOT11_uc001cxl.1_Silent_p.A507A	NM_015547	NP_056362	Q8WXI4	ACO11_HUMAN	thioesterase, adipose associated isoform BFIT1	507	START.				fatty acid metabolic process|intracellular signal transduction|response to cold		acyl-CoA thioesterase activity|carboxylesterase activity			central_nervous_system(1)	1						ATGTCATCGCGCTGAGGTCGG	0.637													19	79					0	0	1	0	0		A	55073633	A	A	55073633	2	1	49	1	0	0	0	0	0	0	0	1	149	1074	38	1		1	ACOT11	1	55073633	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8662	55073633	194176988	49	36729											
FGGY	55277	broad.mit.edu	37	chr1	59812011	59812011	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagcacagtgtcctccagTacgtcgggggggtgatgtct	7	9	14	11	2	1	1	0	1	1	0	4	1	3	1	3	3	2	2	3	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:59812011T>C	uc001czi.3	+	4	618	c.406T>C	c.(406-408)TAC>CAC	p.Y136H	FGGY_uc001czg.2_Missense_Mutation_p.Y24H|FGGY_uc001czh.2_RNA|FGGY_uc009wac.2_Missense_Mutation_p.Y136H|FGGY_uc001czj.3_Missense_Mutation_p.Y136H|FGGY_uc001czk.3_Missense_Mutation_p.Y24H|FGGY_uc001czl.3_Intron	NM_018291	NP_060761	Q96C11	FGGY_HUMAN	FGGY carbohydrate kinase domain containing	136					carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)					TGTCCTCCAGTACGTCGGGGG	0.507													7	42					0	0	1	0	0		C	59812011	C	C	59812011	3	2	49	1	0	0	0	0	1	0	0	0	5885	1638	57	3	416	3	FGGY	1	59812011	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	4738378	59812011	189438610	50	36730											
ANGPTL3	27329	broad.mit.edu	37	chr1	63064448	63064448	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataaacaattaaaccaacagCatagtcaaataaaagaaata	25	7	3	6	0	1	1	1	0	0	1	1	1	1	1	1	0	4	1	1	0	12	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:63064448C>A	uc001das.1	+	2	628	c.577C>A	c.(577-579)CAT>AAT	p.H193N	DOCK7_uc001dan.2_Intron|DOCK7_uc001dao.2_Intron|DOCK7_uc001dap.2_Intron|DOCK7_uc001daq.2_Intron|DOCK7_uc009wah.1_Intron	NM_014495	NP_055310	Q9Y5C1	ANGL3_HUMAN	angiopoietin-like 3 precursor	193	Potential.				acylglycerol homeostasis|artery morphogenesis|cell-matrix adhesion|cholesterol homeostasis|cholesterol metabolic process|fatty acid metabolic process|glycerol metabolic process|integrin-mediated signaling pathway|lipid storage|negative regulation of lipoprotein lipase activity|negative regulation of phospholipase activity|phospholipid catabolic process|phospholipid homeostasis|positive regulation of angiogenesis|positive regulation of cell migration|positive regulation of lipid catabolic process|triglyceride homeostasis	extracellular space	cell surface binding|growth factor activity|integrin binding|phospholipase inhibitor activity				0						AAACCAACAGCATAGTCAAAT	0.328													18	43					1.33834e-09	1.43292e-09	1	1	0		A	63064448	A	A	63064448	3	1	49	1	0	0	0	0	1	0	0	0	615	710	25	5	583	5	ANGPTL3	1	63064448	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3252437	63064448	186186173	51	36731											
ITGB3BP	23421	broad.mit.edu	37	chr1	63920100	63920100	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaagaaatgtgatgcacaGgagattccaatgagattttc	14	13	9	5	0	0	4	0	2	0	3	2	6	1	4	1	1	1	1	1	1	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:63920100G>T	uc001dba.1	-	6	409	c.378C>A	c.(376-378)TCC>TCA	p.S126S	ITGB3BP_uc001dbb.1_Silent_p.S165S|ITGB3BP_uc001dbc.1_RNA|ITGB3BP_uc001dbd.1_RNA|ITGB3BP_uc009wak.1_Silent_p.S148S|ITGB3BP_uc001dbe.1_Silent_p.S39S	NM_014288	NP_055103	Q13352	CENPR_HUMAN	integrin beta 3 binding protein	126					apoptosis|cell adhesion|CenH3-containing nucleosome assembly at centromere|induction of apoptosis by extracellular signals|mitotic prometaphase|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome, centromeric region|cytosol|membrane fraction|nucleoplasm	protein C-terminus binding|signal transducer activity				0						GTGATGCACAGGAGATTCCAA	0.333													7	48					1.12685e-05	1.18209e-05	1	1	0		T	63920100	T	T	63920100	2	4	49	1	0	0	0	0	0	0	0	1	7912	987	35	5		5	ITGB3BP	1	63920100	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	855652	63920100	185330521	52	36732											
ROR1	4919	broad.mit.edu	37	chr1	64624767	64624767	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttactcttcttcttcatttgCgtctgtcggaataaccagaa	9	16	6	10	2	5	1	1	0	4	1	6	2	5	2	1	1	3	0	1	1	4	6	rs149862457	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:64624767C>T	uc001dbj.2	+	8	1677	c.1278C>T	c.(1276-1278)TGC>TGT	p.C426C	uc001dbl.2_Intron	NM_005012	NP_005003	Q01973	ROR1_HUMAN	receptor tyrosine kinase-like orphan receptor 1	426	Helical; (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19						TCTTCATTTGCGTCTGTCGGA	0.443													14	107					0	0	1	0	0		T	64624767	T	T	64624767	2	4	49	1	0	0	0	0	0	0	0	1	13551	776	27	1		1	ROR1	1	64624767	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	704667	64624767	184625854	53	36733											
JAK1	3716	broad.mit.edu	37	chr1	65310493	65310493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cactgagcttgatgaatgggCcacactcactgtcgatgccc	9	9	10	13	1	1	3	1	3	0	0	2	4	1	3	2	1	2	1	2	1	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:65310493C>T	uc001dbu.1	-	16	2444	c.2195G>A	c.(2194-2196)GGC>GAC	p.G732D	JAK1_uc009wam.1_Missense_Mutation_p.G720D|JAK1_uc009wal.1_5'UTR	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	732	Protein kinase 1.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		GATGAATGGGCCACACTCACT	0.562			Mis		ALL								9	79					0	0	1	0	0		T	65310493	T	T	65310493	3	4	49	1	0	0	0	0	1	0	0	0	7953	739	26	2	1309	2	JAK1	1	65310493	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	685726	65310493	183940128	54	36734											
JAK1	3716	broad.mit.edu	37	chr1	65310571	65310571	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggaccaggtctttatccTcctgcagagtaaaaaggtca	12	10	9	10	0	2	1	1	0	1	1	4	2	4	2	3	3	1	2	3	3	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:65310571T>G	uc001dbu.1	-	16	2366	c.2117A>C	c.(2116-2118)GAG>GCG	p.E706A	JAK1_uc009wam.1_Missense_Mutation_p.E694A|JAK1_uc009wal.1_5'UTR	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	706	Protein kinase 1.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		GTCTTTATCCTCCTGCAGAGT	0.502			Mis		ALL								4	55					0	0	1	0	0		G	65310571	G	G	65310571	3	3	49	1	0	0	0	0	1	0	0	0	7953	1565	54	5	1387	5	JAK1	1	65310571	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	78	65310571	183940050	55	36735											
LRRC7	57554	broad.mit.edu	37	chr1	70488956	70488956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccagaatgacccacagctgGcatggggttgtataagtggc	10	8	13	10	0	0	2	0	1	0	1	0	2	0	2	2	4	1	4	2	4	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:70488956G>A	uc001dep.2	+	15	1609	c.1579G>A	c.(1579-1581)GCA>ACA	p.A527T	LRRC7_uc009wbg.2_Intron	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	527						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CCCACAGCTGGCATGGGGTTG	0.552													12	101					0	0	1	0	0		A	70488956	A	A	70488956	3	1	49	1	0	0	0	0	1	0	0	0	9038	1203	42	2	1637	2	LRRC7	1	70488956	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5178385	70488956	178761665	56	36736											
TNNI3K	51086	broad.mit.edu	37	chr1	74716398	74716398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttatgttgaaagggctccGcccatctcgactgacaagaa	11	10	9	11	2	2	3	0	2	2	1	4	4	3	3	2	1	0	2	2	1	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:74716398G>A	uc001dgf.1	+	4	329	c.278G>A	c.(277-279)CGC>CAC	p.R93H	TNNI3K_uc001dgc.1_Missense_Mutation_p.R194H|TNNI3K_uc001dgd.2_Missense_Mutation_p.R194H|TNNI3K_uc001dge.1_Missense_Mutation_p.R194H	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	93	ANK 1.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						AAAGGGCTCCGCCCATCTCGA	0.398													20	40					0	0	1	0	0		A	74716398	A	A	74716398	3	1	49	1	0	0	0	0	1	0	0	0	16354	1087	38	1	647	1	TNNI3K	1	74716398	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4227442	74716398	174534223	57	36737											
NEXN	91624	broad.mit.edu	37	chr1	78392295	78392295	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtgtctttcattagttaTggtaaatttttgtttgtttg	9	22	8	2	0	2	0	1	0	1	0	2	0	2	0	0	1	0	4	0	1	5	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:78392295T>C	uc001dic.3	+	7	983	c.686T>C	c.(685-687)ATG>ACG	p.M229T	NEXN_uc001dia.3_Missense_Mutation_p.M215T|NEXN_uc009wcb.1_Missense_Mutation_p.M151T|NEXN_uc001dib.3_Missense_Mutation_p.M165T|NEXN_uc001did.1_Missense_Mutation_p.M139T|NEXN_uc001dif.1_Missense_Mutation_p.M121T	NM_144573	NP_653174	Q0ZGT2	NEXN_HUMAN	nexilin (F actin binding protein)	229	Glu-rich.				regulation of cell migration|regulation of cytoskeleton organization	cytoskeleton|Z disc	actin filament binding|structural constituent of muscle			ovary(2)	2				Colorectal(170;0.114)		TCATTAGTTATGGTAAATTTT	0.328													5	78					0	0	1	0	0		C	78392295	C	C	78392295	3	2	49	1	0	0	0	0	1	0	0	0	10374	1478	51	3	708	3	NEXN	1	78392295	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3675897	78392295	170858326	58	36738											
IFI44L	10964	broad.mit.edu	37	chr1	79107475	79107475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaggtgcaattgagagagCgttacagccctgcatttgag	10	11	12	8	1	1	3	1	2	0	1	1	4	1	3	1	1	5	3	1	1	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:79107475C>T	uc010oro.1	+	9	1519	c.1340C>T	c.(1339-1341)GCG>GTG	p.A447V	IFI44L_uc010orp.1_Missense_Mutation_p.A184V|IFI44L_uc010orq.1_Missense_Mutation_p.A184V	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	447						cytoplasm					0						ATTGAGAGAGCGTTACAGCCC	0.468													68	196					0	0	1	0	0		T	79107475	T	T	79107475	3	4	49	1	0	0	0	0	1	0	0	0	7534	768	27	1	1370	1	IFI44L	1	79107475	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	715180	79107475	170143146	59	36739											
ELTD1	64123	broad.mit.edu	37	chr1	79356867	79356867	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatccaaaacaacaggggAcatttttgaacaatctgtaa	18	9	6	8	0	1	1	0	1	1	0	2	2	2	2	1	2	4	1	1	2	7	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:79356867A>T	uc001diq.3	-	15	2201	c.2045T>A	c.(2044-2046)GTC>GAC	p.V682D		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	682	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		ACAACAGGGGACATTTTTGAA	0.274													9	37					0	0	1	0	0		T	79356867	T	T	79356867	3	4	49	1	0	0	0	0	1	0	0	0	5092	275	10	5	31	5	ELTD1	1	79356867	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	249392	79356867	169893754	60	36740											
WDR63	126820	broad.mit.edu	37	chr1	85560140	85560140	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagctgtgtcggtagccgtgCgactttcttttgaagacaga	8	13	12	8	3	1	3	0	1	1	2	2	4	1	3	1	1	3	2	1	1	3	5	rs141494762	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:85560140C>T	uc001dkt.2	+	10	1266	c.1075C>T	c.(1075-1077)CGA>TGA	p.R359*	WDR63_uc009wcl.2_Nonsense_Mutation_p.R320*	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	359										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		GGTAGCCGTGCGACTTTCTTT	0.418													24	308					0	0	1	0	0		T	85560140	T	T	85560140	4	4	49	1	0	0	0	0	0	1	0	0	17340	760	27	1	1109	1	WDR63	1	85560140	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	6203273	85560140	163690481	61	36741											
CYR61	3491	broad.mit.edu	37	chr1	86047684	86047684	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagtttccagcccaactgTaaacatcagtgcacatgtat	14	10	7	10	0	1	0	1	0	0	0	2	1	2	0	2	0	4	4	2	0	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:86047684T>C	uc001dle.2	+	3	575	c.351T>C	c.(349-351)TGT>TGC	p.C117C	CYR61_uc001dlg.2_5'UTR|CYR61_uc009wcp.1_5'Flank	NM_001554	NP_001545	O00622	CYR61_HUMAN	cysteine-rich, angiogenic inducer, 61 precursor	117	VWFC.				cell proliferation|chemotaxis|positive regulation of BMP signaling pathway|positive regulation of cell migration|positive regulation of osteoblast differentiation|positive regulation of osteoblast proliferation|positive regulation of protein kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell growth|regulation of ERK1 and ERK2 cascade|wound healing, spreading of cells	extracellular region	heparin binding|insulin-like growth factor binding			central_nervous_system(1)	1				all cancers(265;0.0216)|Epithelial(280;0.0441)		AGCCCAACTGTAAACATCAGT	0.512											OREG0013583	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	110					0	0	1	0	0		C	86047684	C	C	86047684	2	2	49	1	0	0	0	0	0	0	0	1	4202	1644	57	3		3	CYR61	1	86047684	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	487544	86047684	163202937	62	36742											
CLCA2	9635	broad.mit.edu	37	chr1	86909554	86909554	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atactgtgggcaacgacactAtgtttctagttacgtggcag	10	12	11	8	2	1	0	0	0	1	0	1	1	1	0	0	2	3	4	0	2	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:86909554A>G	uc001dlr.3	+	10	1735	c.1573A>G	c.(1573-1575)ATG>GTG	p.M525V		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor	525	Extracellular (Potential).				cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		CAACGACACTATGTTTCTAGT	0.378													4	114					0	0	1	0	0		G	86909554	G	G	86909554	3	3	49	1	0	0	0	0	1	0	0	0	3461	449	16	3	1611	3	CLCA2	1	86909554	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	861870	86909554	162341067	63	36743											
GBP1	2633	broad.mit.edu	37	chr1	89525072	89525072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtgctgctcaggaggacgGccagggcgaagatccaggag	10	4	18	9	2	1	1	1	0	0	1	2	5	2	4	2	6	2	2	2	6	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:89525072G>A	uc001dmx.2	-	4	576	c.356C>T	c.(355-357)GCC>GTC	p.A119V		NM_002053	NP_002044	P32455	GBP1_HUMAN	guanylate binding protein 1,	119					interferon-gamma-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0156)|Epithelial(280;0.0291)		CAGGAGGACGGCCAGGGCGAA	0.507													8	167					0	0	1	0	0		A	89525072	A	A	89525072	3	1	49	1	0	0	0	0	1	0	0	0	6288	1203	42	2	1454	2	GBP1	1	89525072	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2615518	89525072	159725549	64	36744											
SLC44A3	126969	broad.mit.edu	37	chr1	95323005	95323005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactagtgaattcatccttgCgtgccagcaaatgactatag	12	11	9	9	1	1	2	1	2	0	0	2	3	2	2	2	0	3	1	2	0	5	5	rs148388726		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:95323005C>T	uc001dqv.3	+	10	1294	c.1187C>T	c.(1186-1188)GCG>GTG	p.A396V	SLC44A3_uc001dqx.3_Missense_Mutation_p.A396V|SLC44A3_uc010otq.1_Missense_Mutation_p.A328V|SLC44A3_uc010otr.1_Missense_Mutation_p.A360V|SLC44A3_uc001dqw.3_Missense_Mutation_p.A348V|SLC44A3_uc010ots.1_Missense_Mutation_p.A316V|SLC44A3_uc009wds.2_Missense_Mutation_p.A299V|SLC44A3_uc010ott.1_Missense_Mutation_p.A316V|SLC44A3_uc010otu.1_RNA	NM_001114106	NP_001107578	Q8N4M1	CTL3_HUMAN	solute carrier family 44, member 3 isoform 1	396	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			kidney(1)	1		all_lung(203;0.000712)|Lung NSC(277;0.00316)		all cancers(265;0.039)|Epithelial(280;0.124)	Choline(DB00122)	TTCATCCTTGCGTGCCAGCAA	0.438													38	86					0	0	1	0	0		T	95323005	T	T	95323005	3	4	49	1	0	0	0	0	1	0	0	0	14662	768	27	1	1225	1	SLC44A3	1	95323005	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5797933	95323005	153927616	65	36745											
AGL	178	broad.mit.edu	37	chr1	100379236	100379236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacaaagatagttatggagCttcaagtccttggtgtgact	12	13	10	6	0	1	2	1	1	0	1	2	3	2	3	1	2	2	2	1	2	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:100379236C>T	uc001dsi.1	+	30	4503	c.4103C>T	c.(4102-4104)GCT>GTT	p.A1368V	AGL_uc001dsj.1_Missense_Mutation_p.A1368V|AGL_uc001dsk.1_Missense_Mutation_p.A1368V|AGL_uc001dsl.1_Missense_Mutation_p.A1368V|AGL_uc001dsm.1_Missense_Mutation_p.A1352V|AGL_uc001dsn.1_Missense_Mutation_p.A1351V	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	1368	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		AGTTATGGAGCTTCAAGTCCT	0.368													48	83					0	0	1	0	0		T	100379236	T	T	100379236	3	4	49	1	0	0	0	0	1	0	0	0	384	797	28	2	4286	2	AGL	1	100379236	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5056231	100379236	148871385	66	36746											
S1PR1	1901	broad.mit.edu	37	chr1	101704655	101704655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaaagctgaatatcagcGcggacaaggagaacagcatt	15	5	13	8	3	1	2	1	1	0	1	1	5	1	4	0	3	4	2	0	3	5	2	rs140298731		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:101704655G>A	uc001dud.2	+	2	629	c.115G>A	c.(115-117)GCG>ACG	p.A39T	S1PR1_uc009weg.2_Missense_Mutation_p.A39T	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	39	Extracellular (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						GAATATCAGCGCGGACAAGGA	0.498											OREG0013620	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	69					0	0	1	0	0		A	101704655	A	A	101704655	3	1	49	1	0	0	0	0	1	0	0	0	13818	1087	38	1	117	1	S1PR1	1	101704655	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1325419	101704655	147545966	67	36747											
VAV3	10451	broad.mit.edu	37	chr1	108417568	108417568	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtcaaatgcctcgaaaagTtcacttttcctcattccaaa	14	12	4	11	1	3	0	3	0	0	0	6	1	5	0	3	0	1	1	3	0	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:108417568T>G	uc001dvk.1	-	2	330	c.276A>C	c.(274-276)GAA>GAC	p.E92D	VAV3_uc010ouw.1_Missense_Mutation_p.E92D|VAV3_uc001dvl.1_5'UTR|VAV3_uc010oux.1_Missense_Mutation_p.E92D	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	92	CH.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		CCTCGAAAAGTTCACTTTTCC	0.358													8	57					0	0	1	0	0		G	108417568	G	G	108417568	3	3	49	1	0	0	0	0	1	0	0	0	17159	1722	60	5	2396	5	VAV3	1	108417568	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	6712913	108417568	140833053	68	36748											
AKNAD1	254268	broad.mit.edu	37	chr1	109359778	109359778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcagggtctgagctgtaggtCatgaaagcctgaagtttttt	9	13	13	6	0	2	3	1	3	1	0	2	3	2	3	1	2	2	4	1	2	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:109359778C>T	uc001dwa.2	-	15	2540	c.2271G>A	c.(2269-2271)ATG>ATA	p.M757I	AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	757										ovary(3)	3						AGCTGTAGGTCATGAAAGCCT	0.458													12	19					0	0	1	0	0		T	109359778	T	T	109359778	3	4	49	1	0	0	0	0	1	0	0	0	464	826	29	4	247	4	AKNAD1	1	109359778	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	942210	109359778	139890843	69	36749											
AKNAD1	254268	broad.mit.edu	37	chr1	109369904	109369904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttgatccttccgtggcccTttttctccacgttttgcttc	3	18	7	13	2	1	1	0	1	1	0	5	1	3	1	4	1	1	3	4	1	0	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:109369904T>C	uc001dwa.2	-	11	2128	c.1859A>G	c.(1858-1860)AAG>AGG	p.K620R	AKNAD1_uc010ovb.1_Missense_Mutation_p.K327R|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	620										ovary(3)	3						TCCGTGGCCCTTTTTCTCCAC	0.413													5	152					0	0	1	0	0		C	109369904	C	C	109369904	3	2	49	1	0	0	0	0	1	0	0	0	464	1609	56	3	675	3	AKNAD1	1	109369904	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	10126	109369904	139880717	70	36750											
AHCYL1	10768	broad.mit.edu	37	chr1	110561031	110561031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacacgggagcacttggatcGcatgaaaaacagttgtatcg	13	8	12	8	3	0	1	0	1	0	0	2	4	0	3	0	2	2	4	0	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:110561031G>A	uc001dyx.2	+	12	1527	c.1160G>A	c.(1159-1161)CGC>CAC	p.R387H	AHCYL1_uc010ovw.1_Missense_Mutation_p.R340H|AHCYL1_uc001dyy.2_Missense_Mutation_p.R340H|AHCYL1_uc010ovx.1_Missense_Mutation_p.R340H	NM_006621	NP_006612	O43865	SAHH2_HUMAN	S-adenosylhomocysteine hydrolase-like 1	387	NAD binding (By similarity).				one-carbon metabolic process	endoplasmic reticulum	adenosylhomocysteinase activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0259)|Colorectal(144;0.123)|all cancers(265;0.134)|Epithelial(280;0.141)|LUSC - Lung squamous cell carcinoma(189;0.143)		CACTTGGATCGCATGAAAAAC	0.443													17	40					0	0	1	0	0		A	110561031	A	A	110561031	3	1	49	1	0	0	0	0	1	0	0	0	410	1087	38	1	1206	1	AHCYL1	1	110561031	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1191127	110561031	138689590	71	36751											
KCNC4	3749	broad.mit.edu	37	chr1	110754251	110754251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatcatcatcaacgtgggcGgcacgcgacatgagacctac	12	6	11	12	4	3	2	3	1	0	2	3	4	3	2	1	2	2	1	1	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:110754251G>A	uc001dzh.2	+	1	187	c.130G>A	c.(130-132)GGC>AGC	p.G44S	KCNC4_uc001dzf.2_Missense_Mutation_p.G44S|KCNC4_uc009wfr.2_Missense_Mutation_p.G44S|KCNC4_uc001dzg.2_Missense_Mutation_p.G44S|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	44	Cytoplasmic (Potential).				synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		all_cancers(81;9.88e-06)|all_epithelial(167;3.23e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0238)|all cancers(265;0.0693)|Epithelial(280;0.0748)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.135)		CAACGTGGGCGGCACGCGACA	0.677													5	54					0	0	1	0	0		A	110754251	A	A	110754251	3	1	49	1	0	0	0	0	1	0	0	0	8033	1116	39	1	132	1	KCNC4	1	110754251	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	193220	110754251	138496370	72	36752											
DENND2D	79961	broad.mit.edu	37	chr1	111734909	111734909	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaggggtagagcagtgcGgcagcagcatggatgcactg	10	6	17	8	1	0	2	0	1	0	1	0	3	0	3	0	4	5	6	0	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:111734909G>A	uc001eak.1	-	8	1025	c.825C>T	c.(823-825)GCC>GCT	p.A275A	DENND2D_uc001eal.1_Silent_p.A272A	NM_024901	NP_079177	Q9H6A0	DEN2D_HUMAN	DENN/MADD domain containing 2D	275	DENN.									ovary(1)	1		all_cancers(81;0.00198)|all_epithelial(167;0.000686)|all_lung(203;0.00318)|Lung NSC(277;0.00499)		Lung(183;0.0162)|Colorectal(144;0.069)|all cancers(265;0.0757)|LUSC - Lung squamous cell carcinoma(189;0.0845)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.14)		AGAGCAGTGCGGCAGCAGCAT	0.627													10	31					0	0	1	0	0		A	111734909	A	A	111734909	2	1	49	1	0	0	0	0	0	0	0	1	4437	1103	39	1		1	DENND2D	1	111734909	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	980658	111734909	137515712	73	36753											
ATP5F1	515	broad.mit.edu	37	chr1	112002112	112002112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctttggaagttacttacCgggaacgactgtatagagta	11	12	12	6	2	0	1	0	0	0	1	0	4	0	3	1	3	3	4	1	3	7	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:112002112C>T	uc001ebc.2	+	6	968	c.547C>T	c.(547-549)CGG>TGG	p.R183W	ATP5F1_uc009wgf.1_Missense_Mutation_p.R330W|ATP5F1_uc001ebd.3_RNA	NM_001688	NP_001679	P24539	AT5F1_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	183					ATP catabolic process|respiratory electron transport chain	mitochondrial matrix|mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transporting ATP synthase activity, rotational mechanism|protein binding				0		all_cancers(81;8.16e-06)|all_epithelial(167;5.63e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|Colorectal(144;0.0296)|all cancers(265;0.0488)|Epithelial(280;0.0732)|COAD - Colon adenocarcinoma(174;0.114)|LUSC - Lung squamous cell carcinoma(189;0.135)		AGTTACTTACCGGGAACGACT	0.358													6	79					0	0	1	0	0		T	112002112	T	T	112002112	3	4	49	1	0	0	0	0	1	0	0	0	1153	643	23	1	569	1	ATP5F1	1	112002112	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	267203	112002112	137248509	74	36754											
SLC16A1	6566	broad.mit.edu	37	chr1	113460046	113460046	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcaaagaaatactgaattcGaggtcttattggctttgtgt	11	14	10	6	2	1	2	0	1	1	1	2	3	1	2	0	2	1	2	0	2	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:113460046G>A	uc001ecx.2	-	4	1814	c.982C>T	c.(982-984)CGA>TGA	p.R328*	SLC16A1_uc001ecy.2_Nonsense_Mutation_p.R328*|SLC16A1_uc001ecz.2_Nonsense_Mutation_p.R328*	NM_003051	NP_003042	P53985	MOT1_HUMAN	solute carrier family 16, member 1	328	Cytoplasmic (Potential).				blood coagulation|leukocyte migration|organic anion transport|pyruvate metabolic process	integral to membrane|membrane fraction|plasma membrane	mevalonate transmembrane transporter activity|protein binding|secondary active monocarboxylate transmembrane transporter activity|symporter activity			central_nervous_system(1)	1	Lung SC(450;0.246)	all_cancers(81;7.6e-08)|all_epithelial(167;3.82e-07)|all_lung(203;3.07e-05)|Lung NSC(69;5.51e-05)|Prostate(1639;0.00232)		Epithelial(280;7.31e-13)|all cancers(265;5.1e-10)|Kidney(133;5.29e-07)|KIRC - Kidney renal clear cell carcinoma(1967;8.63e-06)|OV - Ovarian serous cystadenocarcinoma(397;1.48e-05)|BRCA - Breast invasive adenocarcinoma(282;0.003)|LUSC - Lung squamous cell carcinoma(189;0.008)|Lung(183;0.00948)|Colorectal(144;0.0325)|COAD - Colon adenocarcinoma(174;0.0643)	Pyruvic acid(DB00119)	TACTGAATTCGAGGTCTTATT	0.453													11	19					0	0	1	0	0		A	113460046	A	A	113460046	4	1	49	1	0	0	0	0	0	1	0	0	14427	1066	37	1	528	1	SLC16A1	1	113460046	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1457934	113460046	135790575	75	36755											
MAGI3	260425	broad.mit.edu	37	chr1	114196613	114196613	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttggctttgtcatcctcAcctccaaaaacaaaccacct	12	11	4	14	0	2	0	2	0	0	0	4	1	4	0	5	1	2	1	5	1	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:114196613A>G	uc001edk.2	+	15	2783	c.2602A>G	c.(2602-2604)ACC>GCC	p.T868A	MAGI3_uc001edh.3_Missense_Mutation_p.T893A|MAGI3_uc001edi.3_Missense_Mutation_p.T868A|MAGI3_uc010owm.1_Missense_Mutation_p.T893A|MAGI3_uc001edj.2_Missense_Mutation_p.T589A	NM_001142782	NP_001136254	Q5TCQ9	MAGI3_HUMAN	membrane-associated guanylate kinase-related  3	893	Interaction with LPAR2 and GRIN2B.|PDZ 5.				apoptosis|interspecies interaction between organisms|intracellular signal transduction	nucleus|tight junction	ATP binding|guanylate kinase activity|protein binding			lung(3)|ovary(2)|central_nervous_system(1)	6	Lung SC(450;0.184)	all_cancers(81;2.34e-09)|all_epithelial(167;7.41e-09)|all_lung(203;7.13e-06)|Lung NSC(69;1.2e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGTCATCCTCACCTCCAAAAA	0.498													13	198					0	0	1	0	0		G	114196613	G	G	114196613	3	3	49	1	0	0	0	0	1	0	0	0	9210	159	6	3	2660	3	MAGI3	1	114196613	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	736567	114196613	135054008	76	36756											
PTPN22	26191	broad.mit.edu	37	chr1	114380697	114380697	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggtccgtgttattggcAcctttgaattaaaatatctt	10	18	7	6	1	1	1	0	1	1	0	2	1	2	1	2	2	0	2	2	2	5	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:114380697A>G	uc001eds.2	-	13	1455	c.1325T>C	c.(1324-1326)GTG>GCG	p.V442A	PTPN22_uc009wgq.2_Missense_Mutation_p.V387A|PTPN22_uc010owo.1_Missense_Mutation_p.V198A|PTPN22_uc001edt.2_Intron|PTPN22_uc009wgr.2_Missense_Mutation_p.V442A|PTPN22_uc009wgs.2_Missense_Mutation_p.V315A|PTPN22_uc001edu.2_Missense_Mutation_p.V442A	NM_015967	NP_057051	Q9Y2R2	PTN22_HUMAN	protein tyrosine phosphatase, non-receptor type	442					negative regulation of T cell activation|negative regulation of T cell receptor signaling pathway|phosphoanandamide dephosphorylation|regulation of B cell receptor signaling pathway|regulation of natural killer cell proliferation|T cell differentiation	internal side of plasma membrane|nucleus|perinuclear region of cytoplasm	kinase binding|protein tyrosine phosphatase activity|SH3 domain binding			kidney(2)|lung(1)|skin(1)	4	Lung SC(450;0.184)	all_cancers(81;1.93e-08)|all_epithelial(167;4.37e-08)|all_lung(203;5.22e-06)|Lung NSC(69;8.94e-06)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGTTATTGGCACCTTTGAATT	0.378													10	71					0	0	1	0	0		G	114380697	G	G	114380697	3	3	49	1	0	0	0	0	1	0	0	0	12812	159	6	3	1157	3	PTPN22	1	114380697	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	184084	114380697	134869924	77	36757											
AP4B1	10717	broad.mit.edu	37	chr1	114438057	114438057	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gattggggactagcatgaggGctccagaatcagggagttct	10	9	15	7	0	2	2	1	1	1	1	3	5	3	4	1	4	1	3	1	4	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:114438057G>T	uc001eeb.2	-	10	1993	c.1850C>A	c.(1849-1851)GCC>GAC	p.A617D	uc001edv.1_Intron|AP4B1_uc001eec.2_Missense_Mutation_p.A449D|AP4B1_uc001eed.2_Missense_Mutation_p.A617D|AP4B1_uc010owp.1_Missense_Mutation_p.A518D|AP4B1_uc001eea.1_3'UTR|AP4B1_uc001eee.1_3'UTR	NM_006594	NP_006585	Q9Y6B7	AP4B1_HUMAN	adaptor-related protein complex 4, beta 1	617					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|soluble fraction|trans-Golgi network	protein binding|protein transporter activity			ovary(3)|central_nervous_system(1)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.1e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TAGCATGAGGGCTCCAGAATC	0.453													28	71					3.62531e-18	3.97345e-18	1	1	0		T	114438057	T	T	114438057	3	4	49	1	0	0	0	0	1	0	0	0	751	1203	42	5	373	5	AP4B1	1	114438057	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	57360	114438057	134812564	78	36758											
PTGFRN	5738	broad.mit.edu	37	chr1	117487474	117487474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccaggcggagcgtcctcGccctgacccacgagggcagg	6	3	16	16	5	0	1	0	1	0	0	2	3	1	2	4	5	1	1	4	5	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:117487474G>A	uc001egv.1	+	3	729	c.592G>A	c.(592-594)GCC>ACC	p.A198T		NM_020440	NP_065173	Q9P2B2	FPRP_HUMAN	prostaglandin F2 receptor negative regulator	198	Ig-like C2-type 2.|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	protein binding			liver(1)	1	Lung SC(450;0.225)	all_cancers(81;0.00104)|all_lung(203;8.97e-05)|all_epithelial(167;0.000139)|Lung NSC(69;0.000446)		Lung(183;0.0704)|LUSC - Lung squamous cell carcinoma(189;0.227)|Colorectal(144;0.248)		GAGCGTCCTCGCCCTGACCCA	0.746													5	11					0	0	1	0	0		A	117487474	A	A	117487474	3	1	49	1	0	0	0	0	1	0	0	0	12773	1087	38	1	602	1	PTGFRN	1	117487474	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3049417	117487474	131763147	79	36759											
CD101	9398	broad.mit.edu	37	chr1	117552499	117552499	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcattggccagagagaagTaacagttcagaaaggaccac	16	5	11	9	0	1	3	1	0	0	3	1	5	1	4	2	2	2	3	2	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:117552499T>C	uc010oxb.1	+	2	129	c.71T>C	c.(70-72)GTA>GCA	p.V24A	CD101_uc009whd.2_Missense_Mutation_p.V24A|CD101_uc010oxc.1_Missense_Mutation_p.V24A|CD101_uc010oxd.1_Missense_Mutation_p.V24A	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	24	Extracellular (Potential).|Ig-like C2-type 1.				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CAGAGAGAAGTAACAGTTCAG	0.458													8	112					0	0	1	0	0		C	117552499	C	C	117552499	3	2	49	1	0	0	0	0	1	0	0	0	2965	1638	57	3	77	3	CD101	1	117552499	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	65025	117552499	131698122	80	36760											
ZNF697	90874	broad.mit.edu	37	chr1	120165879	120165879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggtgcgaacggcgcaCgaagcccttgccgcactccc	7	4	13	17	5	0	0	0	0	0	0	1	2	1	0	4	3	4	2	4	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:120165879C>T	uc001ehy.1	-	3	1201	c.1087G>A	c.(1087-1089)GTG>ATG	p.V363M		NM_001080470	NP_001073939	Q5TEC3	ZN697_HUMAN	zinc finger protein 697	363	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_neural(166;0.219)	all_lung(203;3.66e-05)|Lung NSC(69;0.000202)|all_epithelial(167;0.0266)		Lung(183;0.011)|LUSC - Lung squamous cell carcinoma(189;0.0577)		GAACGGCGCACGAAGCCCTTG	0.502													3	2					0	0	1	0	0		T	120165879	T	T	120165879	3	4	49	1	0	0	0	0	1	0	0	0	18125	536	19	1	554	1	ZNF697	1	120165879	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2613380	120165879	129084742	81	36761											
HMGCS2	3158	broad.mit.edu	37	chr1	120295184	120295184	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcttacccttatggtagaAttgctctctttggttcatta	7	20	6	8	0	3	1	1	0	2	1	4	1	3	1	1	2	2	3	1	2	5	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:120295184A>C	uc001eid.2	-	8	1459	c.1408T>G	c.(1408-1410)TTC>GTC	p.F470V	HMGCS2_uc010oxj.1_Missense_Mutation_p.F428V|HMGCS2_uc001eie.2_Missense_Mutation_p.F378V	NM_005518	NP_005509	P54868	HMCS2_HUMAN	hydroxymethylglutaryl-CoA synthase 2 isoform 1	470					acetoacetic acid biosynthetic process|cholesterol biosynthetic process|isoprenoid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA synthase activity			ovary(2)	2	all_cancers(5;6.38e-10)|all_epithelial(5;1.1e-10)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;1.29e-06)|Lung NSC(69;9.35e-06)|all_epithelial(167;0.00124)		Lung(183;0.0112)|LUSC - Lung squamous cell carcinoma(189;0.0595)		TTATGGTAGAATTGCTCTCTT	0.458													4	97					0	0	1	0	0		C	120295184	C	C	120295184	3	2	49	1	0	0	0	0	1	0	0	0	7249	101	4	5	126	5	HMGCS2	1	120295184	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	129305	120295184	128955437	82	36762											
NBPF9	400818	broad.mit.edu	37	chr1	144618165	144618165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaagggagagatgcctcccGctcattgaatgagcatctcc	10	8	12	11	1	2	3	1	2	1	1	4	6	3	5	3	2	2	2	3	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:144618165G>A	uc009wig.1	+	6	438	c.362G>A	c.(361-363)CGC>CAC	p.R121H	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Intron|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Missense_Mutation_p.R52H|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Missense_Mutation_p.R52H|NBPF9_uc010oyg.1_Missense_Mutation_p.R86H|NBPF9_uc009wii.1_5'UTR	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	121	Potential.					cytoplasm					0						GATGCCTCCCGCTCATTGAAT	0.547													12	259					0	0	1	0	0		A	144618165	A	A	144618165	3	1	49	1	0	0	0	0	1	0	0	0	10218	1087	38	1	370	1	NBPF9	1	144618165	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	24322981	144618165	104632456	83	36763											
BCL9	607	broad.mit.edu	37	chr1	147091769	147091769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccaaaaatcccagatggtcGaaattttcctcctggccagg	11	9	9	12	1	0	1	0	0	0	1	4	2	3	1	5	3	0	0	5	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:147091769G>A	uc001epq.2	+	8	2548	c.1808G>A	c.(1807-1809)CGA>CAA	p.R603Q	BCL9_uc010ozr.1_Missense_Mutation_p.R529Q	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	603	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					CCAGATGGTCGAAATTTTCCT	0.532			T	IGH@|IGL@	B-ALL								18	65					0	0	1	0	0		A	147091769	A	A	147091769	3	1	49	1	0	0	0	0	1	0	0	0	1382	1058	37	1	1826	1	BCL9	1	147091769	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2473604	147091769	102158852	84	36764											
PI4KB	5298	broad.mit.edu	37	chr1	151266555	151266555	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtttccgagcggcaatcagCccttgcagcatcagcatctt	8	11	9	13	2	3	0	2	0	1	0	4	1	4	0	2	1	5	5	2	1	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:151266555C>T	uc001ext.2	-	11	2623	c.2208G>A	c.(2206-2208)GGG>GGA	p.G736G	PI4KB_uc001exr.2_Silent_p.G748G|PI4KB_uc001exs.2_Silent_p.G721G|PI4KB_uc001exu.2_Silent_p.G721G|PI4KB_uc010pcw.1_Silent_p.G404G	NM_002651	NP_002642	Q9UBF8	PI4KB_HUMAN	catalytic phosphatidylinositol 4-kinase beta	736	PI3K/PI4K.				phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|receptor-mediated endocytosis	endosome|Golgi apparatus|mitochondrial outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum membrane	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			ovary(2)|skin(2)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CGGCAATCAGCCCTTGCAGCA	0.557													17	61					0	0	1	0	0		T	151266555	T	T	151266555	2	4	49	1	0	0	0	0	0	0	0	1	11893	726	26	2		2	PI4KB	1	151266555	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4174786	151266555	97984066	85	36765											
RFX5	5993	broad.mit.edu	37	chr1	151316207	151316207	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtgcagatcgggcagagAtgagatgctgctgtagcagg	10	8	16	7	1	0	3	0	1	0	3	1	5	0	3	0	2	4	6	0	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:151316207A>G	uc001exv.1	-	9	921	c.707T>C	c.(706-708)ATC>ACC	p.I236T	RFX5_uc001exw.1_Missense_Mutation_p.I236T|RFX5_uc009wmr.1_Missense_Mutation_p.I236T|RFX5_uc010pcx.1_Missense_Mutation_p.I196T	NM_001025603	NP_001020774	P48382	RFX5_HUMAN	regulatory factor X, 5	236						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TCGGGCAGAGATGAGATGCTG	0.577													4	49					0	0	1	0	0		G	151316207	G	G	151316207	3	3	49	1	0	0	0	0	1	0	0	0	13291	333	12	3	1155	3	RFX5	1	151316207	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	49652	151316207	97934414	86	36766											
TUFT1	7286	broad.mit.edu	37	chr1	151546762	151546762	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaggtcacactcagccggtAccagagggaagcagaacaaa	15	5	11	10	1	2	2	2	0	0	2	2	3	2	3	2	3	4	2	2	3	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:151546762A>G	uc001eyl.2	+	8	673	c.611A>G	c.(610-612)TAC>TGC	p.Y204C	TUFT1_uc001eym.2_Missense_Mutation_p.Y179C|TUFT1_uc010pdf.1_Missense_Mutation_p.Y223C|TUFT1_uc010pdg.1_Missense_Mutation_p.Y152C	NM_020127	NP_064512	Q9NNX1	TUFT1_HUMAN	tuftelin 1 isoform 1	204	Potential.				bone mineralization|odontogenesis	cytoplasm|extracellular region	structural constituent of tooth enamel				0	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			CTCAGCCGGTACCAGAGGGAA	0.483											OREG0003906	type=REGULATORY REGION|Gene=TUFT1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	10	62					0	0	1	0	0		G	151546762	G	G	151546762	3	3	49	1	0	0	0	0	1	0	0	0	16798	391	14	3	641	3	TUFT1	1	151546762	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	230555	151546762	97703859	87	36767											
LINGO4	339398	broad.mit.edu	37	chr1	151774279	151774279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggcgtagctcctggagcCgcaccagggggctgagcctt	7	6	15	13	2	0	1	0	1	0	0	1	2	1	2	4	4	3	4	4	4	1	2	rs143989839		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:151774279C>T	uc001ezf.1	-	2	1092	c.902G>A	c.(901-903)CGG>CAG	p.R301Q		NM_001004432	NP_001004432	Q6UY18	LIGO4_HUMAN	leucine rich repeat and Ig domain containing 4	301	Extracellular (Potential).|LRR 10.					integral to membrane				large_intestine(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			CTCCTGGAGCCGCACCAGGGG	0.612													22	41					0	0	1	0	0		T	151774279	T	T	151774279	3	4	49	1	0	0	0	0	1	0	0	0	8834	652	23	1	883	1	LINGO4	1	151774279	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	227517	151774279	97476342	88	36768											
FLG	2312	broad.mit.edu	37	chr1	152282031	152282031	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccctgtgcgtccatgggcGgactcagactgttcatgagt	6	10	14	11	2	2	2	2	1	0	1	3	3	3	3	2	3	1	1	2	3	0	1	rs145158439	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:152282031G>A	uc001ezu.1	-	3	5367	c.5331C>T	c.(5329-5331)TCC>TCT	p.S1777S		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1777	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTCCATGGGCGGACTCAGACT	0.607									Ichthyosis				80	200					0	0	1	0	0		A	152282031	A	A	152282031	2	1	49	1	0	0	0	0	0	0	0	1	5936	1103	39	1		1	FLG	1	152282031	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	507752	152282031	96968590	89	36769											
CRCT1	54544	broad.mit.edu	37	chr1	152487940	152487940	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgctccgtgtcccgccccGgcgcccaccccggcgcccgc	1	3	11	26	8	0	0	0	0	0	0	2	0	2	0	9	2	0	1	9	2	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:152487940G>A	uc001ezz.2	+	2	154	c.81G>A	c.(79-81)CCG>CCA	p.P27P		NM_019060	NP_061933	Q9UGL9	CRCT1_HUMAN	cysteine-rich C-terminal 1	27											0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			gtcccgccccggcgcccaccc	0.478													6	14					0	0	1	0	0		A	152487940	A	A	152487940	2	1	49	1	0	0	0	0	0	0	0	1	3856	1103	39	1		1	CRCT1	1	152487940	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	205909	152487940	96762681	90	36770											
LCE2D	353141	broad.mit.edu	37	chr1	152636751	152636751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagctctgggagctgctgtgGtcccagctctgggggctgct	3	10	16	12	0	2	0	0	0	2	0	3	1	3	1	1	4	5	6	1	4	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:152636751G>A	uc001fag.2	+	2	225	c.170G>A	c.(169-171)GGT>GAT	p.G57D		NM_178430	NP_848517	Q5TA82	LCE2D_HUMAN	late cornified envelope 2D	57	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGCTGCTGTGGTCCCAGCTCT	0.667													6	122					0	0	1	0	0		A	152636751	A	A	152636751	3	1	49	1	0	0	0	0	1	0	0	0	8684	1261	44	4	172	4	LCE2D	1	152636751	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	148811	152636751	96613870	91	36771											
SMCP	4184	broad.mit.edu	37	chr1	152857092	152857092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccagccaaaacccccatGctgcattcaggccaggtgct	9	7	9	16	0	1	0	1	0	0	0	1	0	1	0	5	2	6	3	5	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:152857092G>A	uc001fat.2	+	2	339	c.194G>A	c.(193-195)TGC>TAC	p.C65Y		NM_030663	NP_109588	P49901	MCSP_HUMAN	sperm mitochondria-associated cysteine-rich	65	7.|7 X 7 (OR 8) AA approximate repeats.				penetration of zona pellucida|sperm motility	mitochondrial membrane					0	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			AAACCCCCATGCTGCATTCAG	0.542													25	166					0	0	1	0	0		A	152857092	A	A	152857092	3	1	49	1	0	0	0	0	1	0	0	0	14814	1319	46	2	196	2	SMCP	1	152857092	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	220341	152857092	96393529	92	36772											
PGLYRP3	114771	broad.mit.edu	37	chr1	153279700	153279700	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagggccctgcaggcgagCggtcttgccccccactcctt	5	7	12	17	2	1	0	0	0	1	0	2	1	2	0	5	3	4	2	5	3	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:153279700C>T	uc001fbn.1	-	2	152	c.99G>A	c.(97-99)CCG>CCA	p.P33P		NM_052891	NP_443123	Q96LB9	PGRP3_HUMAN	peptidoglycan recognition protein 3 precursor	33					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4	all_lung(78;3.35e-32)|Lung NSC(65;1.22e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGCAGGCGAGCGGTCTTGCCC	0.622													4	13					0	0	1	0	0		T	153279700	T	T	153279700	2	4	49	1	0	0	0	0	0	0	0	1	11814	755	27	1		1	PGLYRP3	1	153279700	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	422608	153279700	95970921	93	36773											
GBA	2629	broad.mit.edu	37	chr1	155207185	155207185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcatccagcatgagtaggcGgacattgtggtgagtactgt	9	11	14	7	1	1	2	1	2	0	0	2	3	2	3	1	3	2	3	1	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:155207185G>A	uc001fjh.2	-	7	1096	c.946C>T	c.(946-948)CGC>TGC	p.R316C	RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Missense_Mutation_p.R203C|GBA_uc010pfx.1_Missense_Mutation_p.R267C|GBA_uc001fji.2_Missense_Mutation_p.R316C|GBA_uc001fjj.2_Missense_Mutation_p.R316C|GBA_uc001fjk.2_Missense_Mutation_p.R316C|GBA_uc001fjl.2_Missense_Mutation_p.R316C|GBA_uc010pfy.1_Missense_Mutation_p.R229C|GBA_uc009wqk.1_Missense_Mutation_p.R229C	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor	316					carbohydrate metabolic process|cell death|cellular response to tumor necrosis factor|ceramide biosynthetic process|glucosylceramide catabolic process|lysosome organization|negative regulation of interleukin-6 production|negative regulation of MAP kinase activity|positive regulation of protein dephosphorylation|sphingosine biosynthetic process|termination of signal transduction	lysosomal lumen|lysosomal membrane	cation binding|glucosylceramidase activity|receptor binding			ovary(1)|skin(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)		Alglucerase(DB00088)|Imiglucerase(DB00053)	ATGAGTAGGCGGACATTGTGG	0.572									Gaucher_disease_type_I				11	68					0	0	1	0	0		A	155207185	A	A	155207185	3	1	49	1	0	0	0	0	1	0	0	0	6281	1116	39	1	684	1	GBA	1	155207185	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1927485	155207185	94043436	94	36774											
ASH1L	55870	broad.mit.edu	37	chr1	155327459	155327459	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatgggctggctgttttTgctgctggtgagtccattca	4	14	14	9	0	1	1	1	1	0	0	2	1	2	1	2	4	2	5	2	4	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:155327459T>C	uc009wqq.2	-	14	7372	c.6892A>G	c.(6892-6894)AAA>GAA	p.K2298E	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.K2293E	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2298					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TGGCTGTTTTTGCTGCTGGTG	0.433													14	117					0	0	1	0	0		C	155327459	C	C	155327459	3	2	49	1	0	0	0	0	1	0	0	0	1042	1821	63	3	2077	3	ASH1L	1	155327459	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	120274	155327459	93923162	95	36775											
DAP3	7818	broad.mit.edu	37	chr1	155691377	155691377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggatttggagactgtatttCcccatggccttcctcctcgc	6	13	9	13	1	0	1	0	0	0	1	4	3	3	2	5	3	0	1	5	3	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:155691377C>T	uc001flq.2	+	4	407	c.238C>T	c.(238-240)CCC>TCC	p.P80S	DAP3_uc001flr.2_Missense_Mutation_p.P80S|DAP3_uc001fls.2_Missense_Mutation_p.P80S|DAP3_uc010pgl.1_Missense_Mutation_p.P39S|DAP3_uc001flt.2_Intron|DAP3_uc001flu.2_Missense_Mutation_p.P80S|DAP3_uc010pgm.1_Intron	NM_033657	NP_387506	P51398	RT29_HUMAN	death-associated protein 3	80					induction of apoptosis by extracellular signals	mitochondrial ribosome|nucleolus|small ribosomal subunit	protein binding			ovary(1)	1	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					GACTGTATTTCCCCATGGCCT	0.527													32	66					0	0	1	0	0		T	155691377	T	T	155691377	3	4	49	1	0	0	0	0	1	0	0	0	4237	855	30	4	248	4	DAP3	1	155691377	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	363918	155691377	93559244	96	36776											
RXFP4	339403	broad.mit.edu	37	chr1	155912164	155912164	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccttgggcgtcatcaccAccagctacctgctgctgctg	5	10	10	16	1	2	0	2	0	0	0	2	0	2	0	4	1	6	4	4	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:155912164A>G	uc010pgs.1	+	1	685	c.664A>G	c.(664-666)ACC>GCC	p.T222A		NM_181885	NP_871001	Q8TDU9	RL3R2_HUMAN	relaxin 3 receptor 2	222	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	angiotensin type II receptor activity				0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					CGTCATCACCACCAGCTACCT	0.672													7	44					0	0	1	0	0		G	155912164	G	G	155912164	3	3	49	1	0	0	0	0	1	0	0	0	13787	159	6	3	666	3	RXFP4	1	155912164	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	220787	155912164	93338457	97	36777											
ARHGEF2	9181	broad.mit.edu	37	chr1	155920622	155920622	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgcaggccaccttacctGtggggggttgaaactcaagt	9	9	12	11	0	1	1	1	1	0	0	1	1	1	1	3	4	3	2	3	4	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:155920622G>A	uc001fmt.2	-	20	2819	c.2701C>T	c.(2701-2703)CAG>TAG	p.Q901*	ARHGEF2_uc001fmq.2_Nonsense_Mutation_p.Q139*|ARHGEF2_uc001fmr.2_Nonsense_Mutation_p.Q873*|ARHGEF2_uc001fms.2_Nonsense_Mutation_p.Q900*|ARHGEF2_uc001fmu.2_Nonsense_Mutation_p.Q945*	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	901					actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					CACCTTACCTGTGGGGGGTTG	0.622													5	112					0	0	1	0	0		A	155920622	A	A	155920622	4	1	49	1	0	0	0	0	0	1	0	0	903	1386	48	4	271	4	ARHGEF2	1	155920622	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8458	155920622	93329999	98	36778											
SLC25A44	9673	broad.mit.edu	37	chr1	156170176	156170176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgcaggctgatggacttCgcggcttctatcgaggctat	6	12	12	11	3	1	1	0	1	1	0	4	3	2	2	1	4	1	4	1	4	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:156170176C>T	uc001fnp.2	+	2	860	c.538C>T	c.(538-540)CGC>TGC	p.R180C	SLC25A44_uc010phc.1_Missense_Mutation_p.R71C|SLC25A44_uc009wrr.2_Missense_Mutation_p.R180C|SLC25A44_uc010phd.1_Intron|SLC25A44_uc010phe.1_Intron	NM_014655	NP_055470	Q96H78	S2544_HUMAN	solute carrier family 25, member 44	180	Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			ovary(1)	1	Hepatocellular(266;0.158)					TGATGGACTTCGCGGCTTCTA	0.562													31	75					0	0	1	0	0		T	156170176	T	T	156170176	3	4	49	1	0	0	0	0	1	0	0	0	14534	884	31	1	540	1	SLC25A44	1	156170176	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	249554	156170176	93080445	99	36779											
BGLAP	632	broad.mit.edu	37	chr1	156212601	156212601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtagtgaagagacccaggcGctacctgtatcaatggctgg	10	8	14	9	1	1	2	1	1	0	1	1	3	1	2	2	4	1	4	2	4	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:156212601G>A	uc001fnt.2	+	3	224	c.152G>A	c.(151-153)CGC>CAC	p.R51H	BGLAP_uc001fns.1_Silent_p.A152A	NM_199173	NP_954642	P02818	OSTCN_HUMAN	osteocalcin preproprotein	51					bone mineralization|cell adhesion|odontogenesis|regulation of bone mineralization|regulation of bone resorption|regulation of osteoclast differentiation		calcium ion binding|hydroxyapatite binding|structural constituent of bone				0	Hepatocellular(266;0.158)				Phytonadione(DB01022)	AGACCCAGGCGCTACCTGTAT	0.627													9	38					0	0	1	0	0		A	156212601	A	A	156212601	3	1	49	1	0	0	0	0	1	0	0	0	1418	1087	38	1	162	1	BGLAP	1	156212601	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	42425	156212601	93038020	100	36780											
NTRK1	4914	broad.mit.edu	37	chr1	156837916	156837916	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctgtcggggaaccctcTgcactgttcttgtgccctgc	3	12	12	14	1	2	0	0	0	2	0	4	1	3	1	3	3	4	2	3	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:156837916T>C	uc001fqh.1	+	5	505	c.449T>C	c.(448-450)CTG>CCG	p.L150P	NTRK1_uc001fqf.1_Missense_Mutation_p.L120P|NTRK1_uc009wsi.1_5'UTR|NTRK1_uc001fqi.1_Missense_Mutation_p.L150P|NTRK1_uc009wsk.1_Missense_Mutation_p.L150P	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	150	LRRCT.|Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	GGGAACCCTCTGCACTGTTCT	0.632			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			8	80					0	0	1	0	0		C	156837916	C	C	156837916	3	2	49	1	0	0	0	0	1	0	0	0	10725	1580	55	3	597	3	NTRK1	1	156837916	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	625315	156837916	92412705	101	36781											
KIRREL	55243	broad.mit.edu	37	chr1	158064555	158064555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacggccgcccctcatcccGtctctcccactccagcggct	4	7	8	22	5	2	0	1	0	1	0	6	1	5	0	6	2	1	1	6	2	0	0	rs138458053		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:158064555G>A	uc001frn.3	+	15	2323	c.1919G>A	c.(1918-1920)CGT>CAT	p.R640H	KIRREL_uc010pib.1_Missense_Mutation_p.R540H|KIRREL_uc009wsq.2_Missense_Mutation_p.R476H|KIRREL_uc001fro.3_Missense_Mutation_p.R454H|uc001frp.2_5'Flank	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	640	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					CCCTCATCCCGTCTCTCCCAC	0.677													17	35					0	0	1	0	0		A	158064555	A	A	158064555	3	1	49	1	0	0	0	0	1	0	0	0	8340	1145	40	1	1977	1	KIRREL	1	158064555	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1226639	158064555	91186066	102	36782											
OR10X1	128367	broad.mit.edu	37	chr1	158549198	158549198	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaagaagcctgcagtgcaAgcagaggccacaagttgtcc	14	6	11	10	0	0	2	0	0	0	2	1	2	1	2	3	1	4	4	3	1	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:158549198A>G	uc010pin.1	-	1	492	c.492T>C	c.(490-492)GCT>GCC	p.A164A		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	164	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					CTGCAGTGCAAGCAGAGGCCA	0.463													8	18					0	0	1	0	0		G	158549198	G	G	158549198	2	3	49	1	0	0	0	0	0	0	0	1	10941	59	3	3		3	OR10X1	1	158549198	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	484643	158549198	90701423	103	36783											
VANGL2	57216	broad.mit.edu	37	chr1	160385688	160385688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggccactcccgcagctccCgcaagcacaggtgggcaggc	7	3	14	17	3	0	0	0	0	0	0	2	0	2	0	3	4	2	5	3	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:160385688C>T	uc001fwb.1	+	3	360	c.61C>T	c.(61-63)CGC>TGC	p.R21C	VANGL2_uc001fwc.1_Missense_Mutation_p.R21C	NM_020335	NP_065068	Q9ULK5	VANG2_HUMAN	vang-like 2	21	Cytoplasmic (Potential).				apical protein localization|heart looping|nonmotile primary cilium assembly	apical plasma membrane|integral to membrane				ovary(1)	1	all_cancers(52;1.08e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CCGCAGCTCCCGCAAGCACAG	0.657													12	20					0	0	1	0	0		T	160385688	T	T	160385688	3	4	49	1	0	0	0	0	1	0	0	0	17146	652	23	1	63	1	VANGL2	1	160385688	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1836490	160385688	88864933	104	36784											
PVRL4	81607	broad.mit.edu	37	chr1	161049561	161049561	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgggctcacatgaagcccGtatttggagtgcagtagcgc	8	8	14	11	3	1	1	1	1	0	0	1	2	1	2	2	2	3	4	2	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:161049561G>A	uc001fxo.2	-	2	557	c.258C>T	c.(256-258)TAC>TAT	p.Y86Y		NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	86	Ig-like V-type 1.|Extracellular (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			CATGAAGCCCGTATTTGGAGT	0.687													18	40					0	0	1	0	0		A	161049561	A	A	161049561	2	1	49	1	0	0	0	0	0	0	0	1	12867	1140	40	1		1	PVRL4	1	161049561	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	663873	161049561	88201060	105	36785											
FCGR2A	2212	broad.mit.edu	37	chr1	161476213	161476213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctgacatgccagggggctCgcagccctgagagcgactcc	7	6	13	15	2	1	2	0	2	1	1	3	4	2	2	3	2	3	2	3	2	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:161476213C>T	uc001gan.2	+	3	249	c.196C>T	c.(196-198)CGC>TGC	p.R66C	FCGR2A_uc001gam.2_Missense_Mutation_p.R65C|FCGR2A_uc001gao.2_RNA	NM_001136219	NP_001129691	P12318	FCG2A_HUMAN	Fc fragment of IgG, low affinity IIa, receptor	66	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCAGGGGGCTCGCAGCCCTGA	0.587													13	48					0	0	1	0	0		T	161476213	T	T	161476213	3	4	49	1	0	0	0	0	1	0	0	0	5795	884	31	1	206	1	FCGR2A	1	161476213	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	426652	161476213	87774408	106	36786											
ATF6	22926	broad.mit.edu	37	chr1	161736162	161736162	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttgtgaaatgggggagccGgctggggttgccggcaccat	7	8	17	9	2	0	1	0	1	0	0	0	2	0	2	3	6	2	3	3	6	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:161736162G>T	uc001gbr.2	+	1	79	c.12G>T	c.(10-12)CCG>CCT	p.P4P	ATF6_uc001gbq.1_Silent_p.P4P	NM_007348	NP_031374	P18850	ATF6A_HUMAN	activating transcription factor 6	4	Cytoplasmic (Potential).|Transcription activation.				positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response|protein folding	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|skin(1)	3	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.00953)			TGGGGGAGCCGGCTGGGGTTG	0.567													3	60					1.23904e-05	1.29739e-05	1	1	0		T	161736162	T	T	161736162	2	4	49	1	0	0	0	0	0	0	0	1	1085	1103	39	5		5	ATF6	1	161736162	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	259949	161736162	87514459	107	36787											
RCSD1	92241	broad.mit.edu	37	chr1	167659290	167659290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgatttgctccatagaaatCaccacccaatgcgagccacc	12	9	6	14	1	1	2	1	1	0	1	2	3	2	2	5	0	3	1	5	0	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:167659290C>T	uc001gem.2	+	4	390	c.203C>T	c.(202-204)TCA>TTA	p.S68L	RCSD1_uc010pli.1_Missense_Mutation_p.S38L	NM_052862	NP_443094	Q6JBY9	CPZIP_HUMAN	RCSD domain containing 1	68										ovary(2)|central_nervous_system(2)|skin(1)	5	all_hematologic(923;0.215)					CCATAGAAATCACCACCCAAT	0.458													6	100					0	0	1	0	0		T	167659290	T	T	167659290	3	4	49	1	0	0	0	0	1	0	0	0	13210	838	29	4	217	4	RCSD1	1	167659290	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5923128	167659290	81591331	108	36788											
TBX19	9095	broad.mit.edu	37	chr1	168266967	168266967	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtaaatgcaagataacGgctctcaaaatcaagtacaa	17	10	6	8	1	2	1	2	0	1	1	3	1	2	1	0	1	3	4	0	1	9	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:168266967G>A	uc001gfl.2	+	4	660	c.609G>A	c.(607-609)ACG>ACA	p.T203T	TBX19_uc001gfj.3_Silent_p.T134T|TBX19_uc001gfm.2_5'UTR	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	203	T-box.				anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					GCAAGATAACGGCTCTCAAAA	0.348													10	22					0	0	1	0	0		A	168266967	A	A	168266967	2	1	49	1	0	0	0	0	0	0	0	1	15679	1103	39	1		1	TBX19	1	168266967	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	607677	168266967	80983654	109	36789											
C1orf114	57821	broad.mit.edu	37	chr1	169394074	169394074	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgctggcatcactttttTcattttcattaattaaccac	10	19	3	9	0	3	0	3	0	0	0	3	0	3	0	1	1	2	2	1	1	3	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:169394074T>C	uc001gga.1	-	2	260	c.92A>G	c.(91-93)GAA>GGA	p.E31G	C1orf114_uc001gfz.1_Missense_Mutation_p.E31G|C1orf114_uc009wvq.1_Missense_Mutation_p.E31G|C1orf114_uc001ggb.2_Missense_Mutation_p.E31G|C1orf114_uc001ggc.1_Missense_Mutation_p.E31G	NM_021179	NP_067002	Q5TID7	CA114_HUMAN	hypothetical protein LOC57821	31											0	all_hematologic(923;0.208)					ATCACTTTTTTCATTTTCATT	0.229													23	45					0	0	1	0	0		C	169394074	C	C	169394074	3	2	49	1	0	0	0	0	1	0	0	0	1990	1783	62	3	1454	3	C1orf114	1	169394074	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1127107	169394074	79856547	110	36790											
C1orf129	80133	broad.mit.edu	37	chr1	170967338	170967338	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtttccggagaccctgAgttatctctataagctctca	10	12	7	12	1	2	2	1	1	2	1	5	3	3	2	2	1	1	3	2	1	3	4	rs74760081		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:170967338A>C	uc001ghg.2	+	15	1649	c.1519A>C	c.(1519-1521)AGT>CGT	p.S507R	C1orf129_uc009wvy.2_Missense_Mutation_p.S314R|C1orf129_uc010plz.1_Missense_Mutation_p.S507R	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	507							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GGAGACCCTGAGTTATCTCTA	0.393													11	83					0	0	1	0	0		C	170967338	C	C	170967338	3	2	49	1	0	0	0	0	1	0	0	0	1999	304	11	5	1573	5	C1orf129	1	170967338	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1573264	170967338	78283283	111	36791											
DNM3	26052	broad.mit.edu	37	chr1	171956852	171956852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttacagattttgatgaagttCgccttgagattgaagcagaa	13	13	10	5	1	0	6	0	4	0	3	1	7	0	6	1	0	2	2	1	0	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:171956852C>T	uc001gie.2	+	3	468	c.292C>T	c.(292-294)CGC>TGC	p.R98C	DNM3_uc001gid.3_Missense_Mutation_p.R98C|DNM3_uc009wwb.2_Missense_Mutation_p.R98C|DNM3_uc001gif.2_Missense_Mutation_p.R98C	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	98					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						TGATGAAGTTCGCCTTGAGAT	0.358													41	118					0	0	1	0	0		T	171956852	T	T	171956852	3	4	49	1	0	0	0	0	1	0	0	0	4679	884	31	1	302	1	DNM3	1	171956852	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	989514	171956852	77293769	112	36792											
SERPINC1	462	broad.mit.edu	37	chr1	173878804	173878804	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcatgtggaccaccagcaTcatctcctccaattcatcca	10	9	7	15	0	3	0	2	0	1	0	6	1	5	1	5	2	1	2	5	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:173878804T>C	uc001gjt.2	-	5	1158	c.1039A>G	c.(1039-1041)ATG>GTG	p.M347V		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	347					blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	ACCACCAGCATCATCTCCTCC	0.557													19	165					0	0	1	0	0		C	173878804	C	C	173878804	3	2	49	1	0	0	0	0	1	0	0	0	14134	1435	50	3	367	3	SERPINC1	1	173878804	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1921952	173878804	75371817	113	36793											
TNR	7143	broad.mit.edu	37	chr1	175355252	175355252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgtatcgggagccaggccGcagggcctgcactgagtatt	7	8	14	12	3	0	1	0	1	0	0	2	2	0	2	3	3	2	4	3	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:175355252G>A	uc001gkp.1	-	6	1774	c.1693C>T	c.(1693-1695)CGG>TGG	p.R565W	TNR_uc009wwu.1_Missense_Mutation_p.R565W	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	565	Fibronectin type-III 3.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GAGCCAGGCCGCAGGGCCTGC	0.607													4	91					0	0	1	0	0		A	175355252	A	A	175355252	3	1	49	1	0	0	0	0	1	0	0	0	16363	1086	38	1	2447	1	TNR	1	175355252	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1476448	175355252	73895369	114	36794											
FAM5B	57795	broad.mit.edu	37	chr1	177225078	177225078	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttgcccgttggaaggtgaAcaacttggctctggaaagga	10	10	14	7	1	1	1	0	1	1	0	1	4	1	4	1	5	3	3	1	5	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:177225078A>G	uc001glf.2	+	3	605	c.293A>G	c.(292-294)AAC>AGC	p.N98S	FAM5B_uc010pna.1_5'UTR|FAM5B_uc001glg.2_5'Flank	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	98						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TGGAAGGTGAACAACTTGGCT	0.493											OREG0014006	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	75					0	0	1	0	0		G	177225078	G	G	177225078	3	3	49	1	0	0	0	0	1	0	0	0	5607	43	2	3	299	3	FAM5B	1	177225078	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1869826	177225078	72025543	115	36795											
QSOX1	5768	broad.mit.edu	37	chr1	180155277	180155277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggtcctggaagggcagcGcctggtggccctgaaaaagt	8	6	15	12	2	0	1	0	1	0	0	1	2	1	2	4	5	1	1	4	5	3	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:180155277G>A	uc001gnz.2	+	8	1052	c.977G>A	c.(976-978)CGC>CAC	p.R326H	QSOX1_uc001gny.2_Missense_Mutation_p.R326H|QSOX1_uc001goa.2_Missense_Mutation_p.R326H	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	326					cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						GAAGGGCAGCGCCTGGTGGCC	0.577													7	40					0	0	1	0	0		A	180155277	A	A	180155277	3	1	49	1	0	0	0	0	1	0	0	0	12908	1087	38	1	1007	1	QSOX1	1	180155277	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2930199	180155277	69095344	116	36796											
C1orf14	81626	broad.mit.edu	37	chr1	182921962	182921962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gactgggggcaggggctgcgCctcctcttcatcctcaggca	5	8	14	14	1	3	0	2	0	1	0	5	1	5	0	3	5	1	3	3	5	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:182921962C>T	uc001gpu.2	-	1	592	c.307G>A	c.(307-309)GCG>ACG	p.A103T	C1orf14_uc001gpv.2_5'UTR|C1orf14_uc010pnz.1_5'UTR|C1orf14_uc001gpw.2_5'UTR	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	175											0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		AGGGGCTGCGCCTCCTCTTCA	0.597													13	20					0	0	1	0	0		T	182921962	T	T	182921962	3	4	49	1	0	0	0	0	1	0	0	0	2003	739	26	2	1694	2	C1orf14	1	182921962	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2766685	182921962	66328659	117	36797											
LAMC2	3918	broad.mit.edu	37	chr1	183197579	183197579	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacatggcccagtgaggccTtgtcagccctgtcaatgcaa	10	8	11	12	0	2	1	2	1	0	0	2	2	2	1	3	2	3	1	3	2	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:183197579T>C	uc001gqa.2	+	11	1853	c.1539T>C	c.(1537-1539)CCT>CCC	p.P513P	LAMC2_uc001gpz.3_Silent_p.P513P|LAMC2_uc010poa.1_Silent_p.P213P	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	513	Laminin EGF-like 6.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						CAGTGAGGCCTTGTCAGCCCT	0.557											OREG0014041	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	53					0	0	1	0	0		C	183197579	C	C	183197579	2	2	49	1	0	0	0	0	0	0	0	1	8631	1596	56	3		3	LAMC2	1	183197579	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	275617	183197579	66053042	118	36798											
KCNT2	343450	broad.mit.edu	37	chr1	196288662	196288662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccattggaaaccaacagattGcatccagaaaatgcatatct	16	9	6	10	0	1	2	0	0	1	2	2	3	2	3	3	1	4	2	3	1	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:196288662G>A	uc001gtd.1	-	20	2360	c.2300C>T	c.(2299-2301)GCA>GTA	p.A767V	KCNT2_uc009wyt.1_Intron|KCNT2_uc001gte.1_Intron|KCNT2_uc001gtf.1_Intron|KCNT2_uc001gtg.1_Intron|KCNT2_uc009wyu.2_Intron|KCNT2_uc001gth.1_Intron	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	767	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						CCAACAGATTGCATCCAGAAA	0.413													5	84					0	0	1	0	0		A	196288662	A	A	196288662	3	1	49	1	0	0	0	0	1	0	0	0	8108	1319	46	2	1143	2	KCNT2	1	196288662	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	13091083	196288662	52961959	119	36799											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200818250	200818250	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagacagaaaatgggaaggAcagcattccttactgtagtg	15	8	12	6	0	0	2	0	0	0	2	1	5	1	4	1	2	2	2	1	2	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:200818250A>G	uc001gvl.2	+	12	2656	c.2386A>G	c.(2386-2388)ACA>GCA	p.T796A	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.T785A|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.T769A	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	796						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						AATGGGAAGGACAGCATTCCT	0.438													5	80					0	0	1	0	0		G	200818250	G	G	200818250	3	3	49	1	0	0	0	0	1	0	0	0	2615	275	10	3	2395	3	CAMSAP1L1	1	200818250	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4529588	200818250	48432371	120	36800											
KIF21B	23046	broad.mit.edu	37	chr1	200968582	200968582	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcacagccactctcgtctcGctcttcctcctcctgggcac	4	11	6	20	2	4	0	1	0	3	0	9	0	7	0	4	1	1	2	4	1	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:200968582G>A	uc001gvs.1	-	13	2097	c.1780C>T	c.(1780-1782)CGA>TGA	p.R594*	KIF21B_uc001gvr.1_Nonsense_Mutation_p.R594*|KIF21B_uc009wzl.1_Nonsense_Mutation_p.R594*|KIF21B_uc010ppn.1_Nonsense_Mutation_p.R594*	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	594	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						CTCTCGTCTCGCTCTTCCTCC	0.627													5	72					0	0	1	0	0		A	200968582	A	A	200968582	4	1	49	1	0	0	0	0	0	1	0	0	8305	1095	38	1	3182	1	KIF21B	1	200968582	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	150332	200968582	48282039	121	36801											
PPP1R15B	84919	broad.mit.edu	37	chr1	204378728	204378728	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgcaccttacaagaaagTaaggtgtgacactcagaaat	16	8	9	8	0	1	3	1	1	0	2	1	3	1	3	1	1	3	3	1	1	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:204378728T>C	uc001hav.3	-	1	2217	c.1812A>G	c.(1810-1812)TTA>TTG	p.L604L		NM_032833	NP_116222	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	604					regulation of translation					ovary(1)|pancreas(1)	2	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			TACAAGAAAGTAAGGTGTGAC	0.468													5	59					0	0	1	0	0		C	204378728	C	C	204378728	2	2	49	1	0	0	0	0	0	0	0	1	12386	1635	57	3		3	PPP1R15B	1	204378728	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3410146	204378728	44871893	122	36802											
C4BPA	722	broad.mit.edu	37	chr1	207300065	207300065	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgattctttagaaatcacCtgtcgcaagccagatgtttc	11	13	7	10	1	2	3	1	1	1	2	4	3	2	3	2	0	1	2	2	0	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:207300065C>A	uc001hfo.2	+	7	908	c.714C>A	c.(712-714)ACC>ACA	p.T238T		NM_000715	NP_000706	P04003	C4BPA_HUMAN	complement component 4 binding protein, alpha	238	Sushi 4.				complement activation, classical pathway|innate immune response	extracellular region	protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						TAGAAATCACCTGTCGCAAGC	0.373													22	61					1.2476e-16	1.36217e-16	1	1	0		A	207300065	A	A	207300065	2	1	49	1	0	0	0	0	0	0	0	1	2252	668	24	5		5	C4BPA	1	207300065	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2921337	207300065	41950556	123	36803											
CR1	1378	broad.mit.edu	37	chr1	207758095	207758095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaatatcttacacatgtgacCcccacccagacagagggatg	14	7	8	12	0	1	3	0	1	1	2	1	4	1	4	3	1	1	0	3	1	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:207758095C>T	uc001hfy.2	+	25	4194	c.4054C>T	c.(4054-4056)CCC>TCC	p.P1352S	CR1_uc009xcl.1_Missense_Mutation_p.P902S|CR1_uc001hfx.2_Missense_Mutation_p.P1802S	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1352	Extracellular (Potential).|Sushi 21.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						CACATGTGACCCCCACCCAGA	0.512													21	147					0	0	1	0	0		T	207758095	T	T	207758095	3	4	49	1	0	0	0	0	1	0	0	0	3843	623	22	4	5534	4	CR1	1	207758095	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	458030	207758095	41492526	124	36804											
LAMB3	3914	broad.mit.edu	37	chr1	209804065	209804065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtgttgtgctggcagaCacagacatcgtggacctggg	8	8	16	9	1	0	2	0	0	0	2	1	3	0	3	1	4	1	4	1	4	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:209804065C>T	uc001hhg.2	-	8	1228	c.838G>A	c.(838-840)GTC>ATC	p.V280I	LAMB3_uc009xco.2_Missense_Mutation_p.V280I|LAMB3_uc001hhh.2_Missense_Mutation_p.V280I|LAMB3_uc010psl.1_RNA|LAMB3_uc009xcp.1_Missense_Mutation_p.V216I	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	280	Laminin EGF-like 1.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		TGCTGGCAGACACAGACATCG	0.582													9	27					0	0	1	0	0		T	209804065	T	T	209804065	3	4	49	1	0	0	0	0	1	0	0	0	8628	478	17	4	2740	4	LAMB3	1	209804065	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2045970	209804065	39446556	125	36805											
USH2A	7399	broad.mit.edu	37	chr1	215956157	215956157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggtccacgtagggggaCtcactccttgaggcacatct	7	12	11	11	1	2	1	1	1	1	0	4	2	4	2	2	4	0	2	2	4	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:215956157C>T	uc001hku.1	-	53	10895	c.10508G>A	c.(10507-10509)AGT>AAT	p.S3503N		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3503	Extracellular (Potential).|Fibronectin type-III 20.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CGTAGGGGGACTCACTCCTTG	0.413										HNSCC(13;0.011)			7	81					0	0	1	0	0		T	215956157	T	T	215956157	3	4	49	1	0	0	0	0	1	0	0	0	17062	565	20	4	5180	4	USH2A	1	215956157	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	6152092	215956157	33294464	126	36806											
EPRS	2058	broad.mit.edu	37	chr1	220152906	220152906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatctttggatcttcaaaaaCgatttcaaacattttggaaa	15	15	5	6	1	4	0	2	0	2	0	4	3	4	2	0	2	2	0	0	2	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:220152906C>T	uc001hly.1	-	27	4033	c.3763G>A	c.(3763-3765)GTT>ATT	p.V1255I		NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	1255	Prolyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	TCTTCAAAAACGATTTCAAAC	0.368													5	62					0	0	1	0	0		T	220152906	T	T	220152906	3	4	49	1	0	0	0	0	1	0	0	0	5199	536	19	1	799	1	EPRS	1	220152906	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4196749	220152906	29097715	127	36807											
DUSP10	11221	broad.mit.edu	37	chr1	221875832	221875832	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtttaggtcttcctcgaaCtctagcaactgccccatgaa	9	13	7	12	1	2	1	0	1	2	0	4	2	3	1	3	1	4	2	3	1	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:221875832C>T	uc001hmy.1	-	4	1553	c.1371G>A	c.(1369-1371)GAG>GAA	p.E457E	DUSP10_uc001hmx.1_Silent_p.E115E|DUSP10_uc001hmz.1_Silent_p.E115E	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	457					inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		CTTCCTCGAACTCTAGCAACT	0.468													10	164					0	0	1	0	0		T	221875832	T	T	221875832	2	4	49	1	0	0	0	0	0	0	0	1	4816	564	20	4		4	DUSP10	1	221875832	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1722926	221875832	27374789	128	36808											
DUSP10	11221	broad.mit.edu	37	chr1	221912540	221912540	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggatgtgactcttgttgtActccatgaagggcctgcagt	7	14	12	8	0	1	2	0	2	1	0	2	3	2	3	2	2	2	3	2	2	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:221912540A>G	uc001hmy.1	-	2	729	c.547T>C	c.(547-549)TAC>CAC	p.Y183H	DUSP10_uc001hmx.1_5'Flank|DUSP10_uc001hmz.1_Intron	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	183	Rhodanese.				inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		CTCTTGTTGTACTCCATGAAG	0.512													30	71					0	0	1	0	0		G	221912540	G	G	221912540	3	3	49	1	0	0	0	0	1	0	0	0	4816	391	14	3	913	3	DUSP10	1	221912540	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	36708	221912540	27338081	129	36809											
HHIPL2	79802	broad.mit.edu	37	chr1	222696078	222696078	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttctttgtaccaggcccTcgcaatgtattcttgctgct	5	17	7	12	1	3	0	0	0	3	0	4	0	3	0	2	1	3	5	2	1	3	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:222696078T>C	uc001hnh.1	-	9	2098	c.2040A>G	c.(2038-2040)CGA>CGG	p.R680R		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	680					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		TACCAGGCCCTCGCAATGTAT	0.567													21	239					0	0	1	0	0		C	222696078	C	C	222696078	2	2	49	1	0	0	0	0	0	0	0	1	7110	1538	54	3		3	HHIPL2	1	222696078	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	783538	222696078	26554543	130	36810											
MIA3	375056	broad.mit.edu	37	chr1	222801804	222801804	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaggaagaaaaagaagaTgatgatgatgcattagtccc	17	8	11	5	0	1	7	1	3	0	4	2	8	2	8	1	1	1	1	1	1	5	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:222801804T>A	uc001hnl.2	+	4	1251	c.1242T>A	c.(1240-1242)GAT>GAA	p.D414E	MIA3_uc009xea.1_Missense_Mutation_p.D250E	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	414	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		AAAAAGAAGATGATGATGATG	0.418													9	72					0	0	1	0	0		A	222801804	A	A	222801804	3	1	49	1	0	0	0	0	1	0	0	0	9583	1461	51	5	1256	5	MIA3	1	222801804	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	105726	222801804	26448817	131	36811											
DISP1	84976	broad.mit.edu	37	chr1	223177005	223177005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatccgagttccaggtgttcCggtcgtcccatccttttgag	5	14	10	12	3	0	1	0	1	0	0	6	2	5	1	5	2	0	2	5	2	1	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:223177005C>T	uc001hnu.1	+	8	2413	c.2266C>T	c.(2266-2268)CGG>TGG	p.R756W		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	756					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		CCAGGTGTTCCGGTCGTCCCA	0.463													20	59					0	0	1	0	0		T	223177005	T	T	223177005	3	4	49	1	0	0	0	0	1	0	0	0	4545	643	23	1	2292	1	DISP1	1	223177005	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	375201	223177005	26073616	132	36812											
MIXL1	83881	broad.mit.edu	37	chr1	226413384	226413384	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccgaaccaaacggggtTggagggggcatctctgactc	8	7	14	12	2	1	1	0	1	1	0	3	3	1	2	2	5	3	2	2	5	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:226413384T>C	uc010pvm.1	+	2	570	c.570T>C	c.(568-570)GTT>GTC	p.V190V		NM_031944	NP_114150	Q9H2W2	MIXL1_HUMAN	Mix-like homeobox protein 1	190					cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.109)		CAAACGGGGTTGGAGGGGGCA	0.517													5	70					0	0	1	0	0		C	226413384	C	C	226413384	2	2	49	1	0	0	0	0	0	0	0	1	9615	1799	63	3		3	MIXL1	1	226413384	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3236379	226413384	22837237	133	36813											
ITPKB	3707	broad.mit.edu	37	chr1	226924682	226924682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcggggcgcttgaatggCggagctctgtgcctggatgt	4	10	18	9	3	1	1	0	1	1	0	1	3	1	3	1	5	3	3	1	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:226924682C>T	uc010pvo.1	-	2	818	c.478G>A	c.(478-480)GCC>ACC	p.A160T	ITPKB_uc001hqh.2_Missense_Mutation_p.A160T	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	160							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				GCTTGAATGGCGGAGCTCTGT	0.652													14	104					0	0	1	0	0		T	226924682	T	T	226924682	3	4	49	1	0	0	0	0	1	0	0	0	7934	768	27	1	2390	1	ITPKB	1	226924682	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	511298	226924682	22325939	134	36814											
CDC42BPA	8476	broad.mit.edu	37	chr1	227300012	227300012	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaatgtgaagtcaaaagataCcttcagtccctccaattcat	15	11	5	10	0	3	2	3	1	0	1	5	2	5	2	3	0	1	0	3	0	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:227300012C>T	uc001hqr.2	-	14	2944	c.2001_splice	c.e14+1	p.K667_splice	CDC42BPA_uc001hqs.2_Splice_Site_p.K586_splice|CDC42BPA_uc009xes.2_Splice_Site_p.K667_splice|CDC42BPA_uc010pvs.1_Splice_Site_p.K667_splice	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B						actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TCAAAAGATACCTTCAGTCCC	0.393													4	111					0	0	1	0	0		T	227300012	T	T	227300012	5	4	49	1	0	0	0	0	0	0	1	0	3075	521	18	4	3249	4	CDC42BPA	1	227300012	Splice_Site	SNP	C	TCGA-BR-7707-01A-11D-2053-08	375330	227300012	21950609	135	36815											
SNAP47	116841	broad.mit.edu	37	chr1	227954678	227954678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcatctgggctgatgggccGtaccctgcaccgtgagccac	7	7	13	14	2	1	2	0	2	1	0	1	2	1	2	4	2	4	4	4	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:227954678G>A	uc001hrf.2	+	4	1556	c.1142G>A	c.(1141-1143)CGT>CAT	p.R381H	SNAP47_uc001hqz.2_Missense_Mutation_p.R336H|SNAP47_uc001hra.2_Missense_Mutation_p.R139H|SNAP47_uc001hrd.2_Missense_Mutation_p.R381H|SNAP47_uc001hre.2_Missense_Mutation_p.R139H	NM_053052	NP_444280	Q5SQN1	SNP47_HUMAN	synaptosomal-associated protein, 47kDa	381						endomembrane system|membrane|perinuclear region of cytoplasm				ovary(1)	1						CTGATGGGCCGTACCCTGCAC	0.607													12	44					0	0	1	0	0		A	227954678	A	A	227954678	3	1	49	1	0	0	0	0	1	0	0	0	14857	1145	40	1	1156	1	SNAP47	1	227954678	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	654666	227954678	21295943	136	36816											
OBSCN	84033	broad.mit.edu	37	chr1	228437865	228437865	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggaggctggtggtgcagcaGgcatgccaggcggacaccgg	7	4	19	11	3	0	0	0	0	0	0	0	2	0	2	2	8	3	4	2	8	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:228437865G>T	uc009xez.1	+	14	4277	c.4233G>T	c.(4231-4233)CAG>CAT	p.Q1411H	OBSCN_uc001hsn.2_Missense_Mutation_p.Q1411H	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1411	Ig-like 14.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TGGTGCAGCAGGCATGCCAGG	0.642													11	107					2.27111e-07	2.40752e-07	1	1	0		T	228437865	T	T	228437865	3	4	49	1	0	0	0	0	1	0	0	0	10831	991	35	5	4283	5	OBSCN	1	228437865	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	483187	228437865	20812756	137	36817											
OBSCN	84033	broad.mit.edu	37	chr1	228495858	228495858	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggttgatgcggaggtgacGgccgatgaggatgttgagtt	7	11	18	5	3	0	4	0	4	0	0	0	7	0	6	1	5	1	3	1	5	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:228495858G>A	uc009xez.1	+	47	12557	c.12513G>A	c.(12511-12513)ACG>ACA	p.T4171T	OBSCN_uc001hsn.2_Silent_p.T4171T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4171	Ig-like 43.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CGGAGGTGACGGCCGATGAGG	0.597													16	56					0	0	1	0	0		A	228495858	A	A	228495858	2	1	49	1	0	0	0	0	0	0	0	1	10831	1103	39	1		1	OBSCN	1	228495858	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	57993	228495858	20754763	138	36818											
SIPA1L2	57568	broad.mit.edu	37	chr1	232581355	232581355	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggagcagctgttggcaCggcagccggtcgggcgtgcc	4	7	18	12	4	0	0	0	0	0	0	1	1	0	1	2	5	5	6	2	5	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:232581355C>T	uc001hvg.2	-	9	3431	c.3273G>A	c.(3271-3273)CCG>CCA	p.P1091P	SIPA1L2_uc001hvf.2_Silent_p.P165P	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1091					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GCTGTTGGCACGGCAGCCGGT	0.672													14	45					0	0	1	0	0		T	232581355	T	T	232581355	2	4	49	1	0	0	0	0	0	0	0	1	14355	523	19	1		1	SIPA1L2	1	232581355	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4085497	232581355	16669266	139	36819											
TARBP1	6894	broad.mit.edu	37	chr1	234553890	234553890	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatttatgaagaatcaatatAataatccattctataaaata	21	14	2	4	0	2	2	1	1	1	1	3	2	3	2	1	0	0	0	1	0	12	9			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:234553890A>G	uc001hwd.2	-	22	3645	c.3645T>C	c.(3643-3645)ATT>ATC	p.I1215I		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	1215					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			GAATCAATATAATAATCCATT	0.264													3	34					0	0	1	0	0		G	234553890	G	G	234553890	2	3	49	1	0	0	0	0	0	0	0	1	15580	358	13	3		3	TARBP1	1	234553890	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1972535	234553890	14696731	140	36820											
EDARADD	128178	broad.mit.edu	37	chr1	236557807	236557807	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcctggtcaccaagagggTatgtaggcatttgctgtctt	7	13	12	9	0	2	1	1	0	1	1	3	1	3	1	2	3	1	5	2	3	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:236557807T>C	uc001hxu.1	+	1	126	c.61_splice	c.e1+2	p.D21_splice	EDARADD_uc001hxv.1_5'Flank	NM_145861	NP_665860	Q8WWZ3	EDAD_HUMAN	EDAR-associated death domain isoform A						cell differentiation|signal transduction	cytoplasm					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.0232)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			ACCAAGAGGGTATGTAGGCAT	0.428													7	81					0	0	1	0	0		C	236557807	C	C	236557807	5	2	49	1	0	0	0	0	0	0	1	0	4912	1652	57	3	65	3	EDARADD	1	236557807	Splice_Site	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2003917	236557807	12692814	141	36821											
EDARADD	128178	broad.mit.edu	37	chr1	236590728	236590728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattactttgaactgcccacGaaattcagatatgaaaaatc	17	11	5	8	1	1	3	1	2	0	1	2	4	1	3	1	0	3	0	1	0	7	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:236590728G>A	uc001hxu.1	+	4	262	c.197G>A	c.(196-198)CGA>CAA	p.R66Q	EDARADD_uc001hxv.1_Missense_Mutation_p.R56Q	NM_145861	NP_665860	Q8WWZ3	EDAD_HUMAN	EDAR-associated death domain isoform A	66					cell differentiation|signal transduction	cytoplasm					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.0232)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			AACTGCCCACGAAATTCAGAT	0.249													15	37					0	0	1	0	0		A	236590728	A	A	236590728	3	1	49	1	0	0	0	0	1	0	0	0	4912	1058	37	1	246	1	EDARADD	1	236590728	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	32921	236590728	12659893	142	36822											
MTR	4548	broad.mit.edu	37	chr1	237024537	237024537	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgaatggaatgaaaattgTtggtgatctttttggagctg	11	15	13	2	0	1	3	0	3	1	0	1	6	1	5	0	3	1	2	0	3	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:237024537T>C	uc001hyi.3	+	20	2579	c.2156T>C	c.(2155-2157)GTT>GCT	p.V719A	MTR_uc010pxw.1_Missense_Mutation_p.V312A|MTR_uc010pxx.1_Intron|MTR_uc010pxy.1_Missense_Mutation_p.V573A	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	719	B12-binding N-terminal.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	ATGAAAATTGTTGGTGATCTT	0.348													14	103					0	0	1	0	0		C	237024537	C	C	237024537	3	2	49	1	0	0	0	0	1	0	0	0	9976	1725	60	3	2234	3	MTR	1	237024537	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	433809	237024537	12226084	143	36823											
RYR2	6262	broad.mit.edu	37	chr1	237778123	237778123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcctgctccaaatgaaactgCcagagccagttaaattgcag	13	8	9	11	0	0	2	0	1	0	1	1	2	1	2	4	0	5	3	4	0	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:237778123C>T	uc001hyl.1	+	37	5815	c.5695C>T	c.(5695-5697)CCA>TCA	p.P1899S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1899	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AATGAAACTGCCAGAGCCAGT	0.468													9	21					0	0	1	0	0		T	237778123	T	T	237778123	3	4	49	1	0	0	0	0	1	0	0	0	13794	739	26	2	5841	2	RYR2	1	237778123	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	753586	237778123	11472498	144	36824											
CHRM3	1131	broad.mit.edu	37	chr1	240072331	240072331	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catacccaaaaccttttggaAtctgggctactggctgtgct	9	12	9	11	0	1	0	0	0	1	0	1	1	1	1	2	3	4	3	2	3	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:240072331A>C	uc001hyp.2	+	5	2359	c.1580A>C	c.(1579-1581)AAT>ACT	p.N527T		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	527	Extracellular (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	ACCTTTTGGAATCTGGGCTAC	0.483													8	79					0	0	1	0	0		C	240072331	C	C	240072331	3	2	49	1	0	0	0	0	1	0	0	0	3381	101	4	5	1582	5	CHRM3	1	240072331	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2294208	240072331	9178290	145	36825											
FMN2	56776	broad.mit.edu	37	chr1	240370282	240370282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcaggcgatgtctgtctcGaagctctcaggttagaagaa	10	10	11	10	2	4	2	2	0	3	2	6	4	4	2	1	2	1	2	1	2	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:240370282G>A	uc010pyd.1	+	5	2395	c.2170G>A	c.(2170-2172)GAA>AAA	p.E724K	FMN2_uc010pye.1_Missense_Mutation_p.E728K	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	724					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TGTCTGTCTCGAAGCTCTCAG	0.532													10	32					0	0	1	0	0		A	240370282	A	A	240370282	3	1	49	1	0	0	0	0	1	0	0	0	5964	1059	37	1	2188	1	FMN2	1	240370282	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	297951	240370282	8880339	146	36826											
EXO1	9156	broad.mit.edu	37	chr1	242035457	242035457	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgtttgtgcctgacctggTaaatggacctactaacaaaa	13	11	9	8	0	0	1	0	1	0	0	0	2	0	2	3	2	3	2	3	2	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:242035457T>C	uc001hzh.2	+	12	1931	c.1391T>C	c.(1390-1392)GTA>GCA	p.V464A	EXO1_uc001hzi.2_Missense_Mutation_p.V464A|EXO1_uc001hzj.2_Missense_Mutation_p.V464A|EXO1_uc009xgq.2_Missense_Mutation_p.V463A	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	464	Interaction with MLH1.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			CCTGACCTGGTAAATGGACCT	0.363								Direct_reversal_of_damage|Editing_and_processing_nucleases					3	43					0	0	1	0	0		C	242035457	C	C	242035457	3	2	49	1	0	0	0	0	1	0	0	0	5308	1638	57	3	1425	3	EXO1	1	242035457	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1665175	242035457	7215164	147	36827											
ZNF238	10472	broad.mit.edu	37	chr1	244217371	244217371	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagggaaactccagttcAaagacttgcccattgaagac	15	8	9	9	0	1	4	1	2	0	2	2	5	2	5	2	1	2	1	2	1	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:244217371A>G	uc001iae.2	+	1	790	c.268A>G	c.(268-270)AAA>GAA	p.K90E	ZNF238_uc001iad.3_Missense_Mutation_p.K99E|ZNF238_uc001iaf.1_Missense_Mutation_p.K90E	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	90	BTB.				negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			ACTCCAGTTCAAAGACTTGCC	0.458													5	37					0	0	1	0	0		G	244217371	G	G	244217371	3	3	49	1	0	0	0	0	1	0	0	0	17815	131	5	3	301	3	ZNF238	1	244217371	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2181914	244217371	5033250	148	36828											
ZNF238	10472	broad.mit.edu	37	chr1	244218475	244218475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacctgagccgccatgccGtggtgcacacccgcgagaag	10	4	12	15	4	0	2	0	1	0	1	0	3	0	2	5	1	4	1	5	1	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:244218475G>A	uc001iae.2	+	1	1894	c.1372G>A	c.(1372-1374)GTG>ATG	p.V458M	ZNF238_uc001iad.3_Missense_Mutation_p.V467M|ZNF238_uc001iaf.1_3'UTR	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	458	C2H2-type 3.				negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			CCGCCATGCCGTGGTGCACAC	0.627													6	37					0	0	1	0	0		A	244218475	A	A	244218475	3	1	49	1	0	0	0	0	1	0	0	0	17815	1145	40	1	1405	1	ZNF238	1	244218475	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1104	244218475	5032146	149	36829											
ZNF124	7678	broad.mit.edu	37	chr1	247320205	247320205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagacaactgaaagctttgCcacattccatgcacacataa	15	9	6	11	0	0	2	0	2	0	1	1	3	1	2	2	0	4	2	2	0	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:247320205C>T	uc001ick.2	-	4	858	c.719G>A	c.(718-720)GGC>GAC	p.G240D	ZNF124_uc001ici.2_Intron|ZNF124_uc001icj.1_Missense_Mutation_p.G178D	NM_003431	NP_003422	Q15973	ZN124_HUMAN	zinc finger protein 124	240	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	all_cancers(71;5.07e-05)|all_epithelial(71;8.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00739)			GAAAGCTTTGCCACATTCCAT	0.443													10	95					0	0	1	0	0		T	247320205	T	T	247320205	3	4	49	1	0	0	0	0	1	0	0	0	17745	739	26	2	340	2	ZNF124	1	247320205	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3101730	247320205	1930416	150	36830											
NLRP3	114548	broad.mit.edu	37	chr1	247587740	247587740	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcggggagacattctccTgagcagcctcatcagaaaga	12	6	12	11	2	3	4	2	1	1	3	4	6	3	4	2	2	3	1	2	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:247587740T>C	uc001icr.2	+	5	1133	c.995T>C	c.(994-996)CTG>CCG	p.L332P	NLRP3_uc001ics.2_Missense_Mutation_p.L332P|NLRP3_uc001icu.2_Missense_Mutation_p.L332P|NLRP3_uc001icw.2_Missense_Mutation_p.L332P|NLRP3_uc001icv.2_Missense_Mutation_p.L332P|NLRP3_uc010pyw.1_Missense_Mutation_p.L330P|NLRP3_uc001ict.1_Missense_Mutation_p.L330P	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	332	NACHT.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			GACATTCTCCTGAGCAGCCTC	0.582													19	48					0	0	1	0	0		C	247587740	C	C	247587740	3	2	49	1	0	0	0	0	1	0	0	0	10497	1580	55	3	1005	3	NLRP3	1	247587740	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	267535	247587740	1662881	151	36831											
OR11L1	391189	broad.mit.edu	37	chr1	248005009	248005009	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccagaaaggagagatgctGgaggaacatgtacatagggg	14	6	15	6	0	0	2	0	0	0	2	1	6	1	5	1	5	3	2	1	5	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:248005009G>A	uc001idn.1	-	1	190	c.190C>T	c.(190-192)CAG>TAG	p.Q64*		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GAGAGATGCTGGAGGAACATG	0.557													3	37					0	0	1	0	0		A	248005009	A	A	248005009	4	1	49	1	0	0	0	0	0	1	0	0	10949	1357	47	4	782	4	OR11L1	1	248005009	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	417269	248005009	1245612	152	36832											
OR2L3	391192	broad.mit.edu	37	chr1	248223987	248223987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagcacacgaatgccccatgGaaaattacaatcaaacatca	18	6	6	11	1	2	0	2	0	0	0	2	3	2	1	2	1	4	1	2	1	6	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:248223987G>A	uc001idx.1	+	1	4	c.4G>A	c.(4-6)GAA>AAA	p.E2K	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	2	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			ATGCCCCATGGAAAATTACAA	0.303													22	185					0	0	1	0	0		A	248223987	A	A	248223987	3	1	49	1	0	0	0	0	1	0	0	0	11027	1175	41	4	6	4	OR2L3	1	248223987	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	218978	248223987	1026634	153	36833											
OR2M5	127059	broad.mit.edu	37	chr1	248308959	248308959	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttccttctcctactgtggGtctcgggaaatagcccactt	6	15	8	12	1	2	0	0	0	2	0	5	1	3	1	3	2	2	0	3	2	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr1:248308959G>A	uc010pze.1	+	1	510	c.510G>A	c.(508-510)GGG>GGA	p.G170G		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			CCTACTGTGGGTCTCGGGAAA	0.443													24	283					0	0	1	0	0		A	248308959	A	A	248308959	2	1	49	1	0	0	0	0	0	0	0	1	11032	1248	44	4		4	OR2M5	1	248308959	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	84972	248308959	941662	154	36834											
TMEM18	129787	broad.mit.edu	37	chr2	675583	675583	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggagcacgcagagcgcGtggaaggtggccagccccat	9	4	17	11	3	0	2	0	1	0	1	0	4	0	4	3	4	3	2	3	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:675583G>A	uc002qwl.2	-	2	199	c.105C>T	c.(103-105)CAC>CAT	p.H35H	TMEM18_uc002qwk.2_RNA|uc002qwm.1_5'Flank	NM_152834	NP_690047	Q96B42	TMM18_HUMAN	transmembrane protein 18	35	Helical; (Potential).				cell migration	integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;5.27e-05)|all_epithelial(98;2.11e-06)|Ovarian(717;0.0253)		all cancers(51;1.95e-21)|Epithelial(75;9.47e-21)|OV - Ovarian serous cystadenocarcinoma(76;8.15e-18)|GBM - Glioblastoma multiforme(21;0.0285)		CGCAGAGCGCGTGGAAGGTGG	0.572													23	47					0	0	1	0	0		A	675583	A	A	675583	2	1	49	1	0	0	0	0	0	0	0	1	16123	1136	40	1		1	TMEM18	2	675583	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08		675583	242523790	155	36835											
RNF144A	9781	broad.mit.edu	37	chr2	7164594	7164594	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaaggctgcgcgcagatgAtgtgcaagaactgcaagcac	13	5	13	10	3	0	3	0	1	0	2	0	4	0	3	0	1	5	5	0	1	4	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:7164594A>G	uc002qys.2	+	7	1046	c.604A>G	c.(604-606)ATG>GTG	p.M202V	RNF144A_uc002qyt.2_Missense_Mutation_p.M51V	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	202	RING-type 2; degenerate.					Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		CGCGCAGATGATGTGCAAGAA	0.547													25	51					0	0	1	0	0		G	7164594	G	G	7164594	3	3	49	1	0	0	0	0	1	0	0	0	13470	333	12	3	622	3	RNF144A	2	7164594	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	6489011	7164594	236034779	156	36836											
KIDINS220	57498	broad.mit.edu	37	chr2	8957838	8957838	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gatgcagatataagtgctgtCcaattatccttgaacatata	14	13	7	7	0	0	2	0	1	0	1	2	3	2	2	2	0	3	2	2	0	7	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:8957838C>T	uc002qzc.2	-	4	398	c.216G>A	c.(214-216)TGG>TGA	p.W72*	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Nonsense_Mutation_p.W30*|KIDINS220_uc010yiw.1_Nonsense_Mutation_p.W72*	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	72	Cytoplasmic (Potential).|ANK 3.				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TAAGTGCTGTCCAATTATCCT	0.353													8	120					0	0	1	0	0		T	8957838	T	T	8957838	4	4	49	1	0	0	0	0	0	1	0	0	8287	856	30	4	5207	4	KIDINS220	2	8957838	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1793244	8957838	234241535	157	36837											
E2F6	1876	broad.mit.edu	37	chr2	11587798	11587798	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctcagatgaagaggtccCgacaccttcagaccttttgt	9	11	9	12	1	2	4	2	1	1	3	4	5	3	4	3	1	0	1	3	1	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:11587798C>A	uc002rbh.2	-	6	1046	c.754G>T	c.(754-756)GGG>TGG	p.G252W	E2F6_uc002rbe.2_Missense_Mutation_p.G177W|E2F6_uc002rbf.2_Missense_Mutation_p.G220W|E2F6_uc002rbg.2_Missense_Mutation_p.G177W|E2F6_uc002rbi.2_Missense_Mutation_p.G177W|E2F6_uc010yjl.1_RNA	NM_198256	NP_937987	O75461	E2F6_HUMAN	E2F transcription factor 6	252	Transcription repression.				negative regulation of transcription from RNA polymerase II promoter	MLL1 complex|transcription factor complex	DNA binding|transcription corepressor activity			skin(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.114)|OV - Ovarian serous cystadenocarcinoma(76;0.168)		GAAGAGGTCCCGACACCTTCA	0.433													7	138					2.74318e-10	2.94995e-10	1	1	0		A	11587798	A	A	11587798	3	1	49	1	0	0	0	0	1	0	0	0	4877	652	23	5	99	5	E2F6	2	11587798	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2629960	11587798	231611575	158	36838											
GREB1	9687	broad.mit.edu	37	chr2	11706636	11706636	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccgggaaggacctgcgccTtgtctccatttccaacgagc	7	8	12	14	3	1	0	0	0	1	0	3	3	2	2	5	3	3	0	5	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:11706636T>G	uc002rbk.1	+	4	608	c.308T>G	c.(307-309)CTT>CGT	p.L103R	GREB1_uc002rbl.2_Missense_Mutation_p.L103R|GREB1_uc002rbm.2_5'UTR|GREB1_uc002rbn.1_Missense_Mutation_p.L103R	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	103						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GACCTGCGCCTTGTCTCCATT	0.647													5	57					0	0	1	0	0		G	11706636	G	G	11706636	3	3	49	1	0	0	0	0	1	0	0	0	6776	1609	56	5	318	5	GREB1	2	11706636	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	118838	11706636	231492737	159	36839											
GREB1	9687	broad.mit.edu	37	chr2	11774326	11774326	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatcgaggcggcccccgaCatcatgcactacgccctgct	8	6	9	18	4	1	0	1	0	0	0	2	2	1	0	3	2	3	2	3	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:11774326C>T	uc002rbk.1	+	29	5361	c.5061C>T	c.(5059-5061)GAC>GAT	p.D1687D	GREB1_uc002rbp.1_Silent_p.D685D	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1687						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		CGGCCCCCGACATCATGCACT	0.617													28	82					0	0	1	0	0		T	11774326	T	T	11774326	2	4	49	1	0	0	0	0	0	0	0	1	6776	477	17	4		4	GREB1	2	11774326	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	67690	11774326	231425047	160	36840											
RAD51AP2	729475	broad.mit.edu	37	chr2	17698737	17698737	+	Frame_Shift_Del	DEL	T	-	-																															aatgttttccgcttctacagTttttttatcattctgtaact																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:17698737delT	uc002rcl.1	-	1	970	c.946delA	c.(946-948)ACTfs	p.T316fs	RAD51AP2_uc010exn.1_Frame_Shift_Del_p.T307fs	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	316										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GCTTCTACAGTTTTTTTATCA	0.328													17	29	---	---	---	---						.	-	17698737	-	-	17698737	7	5	49	1	0	1	0	1	0	0	0	0	13012	1725	60	0	2545	0	RAD51AP2	2	17698737	Frame_Shift_Del	DEL	T	TCGA-BR-7707-01A-11D-2053-08	5924411	17698737	225500636	161	36841											
LAPTM4A	9741	broad.mit.edu	37	chr2	20251253	20251253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgtagaaccggtcactgCggttccgcttgaaactcatg	8	11	11	11	3	2	2	2	1	0	1	3	2	3	2	2	2	4	4	2	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:20251253C>T	uc002rdm.2	-	1	537	c.29G>A	c.(28-30)CGC>CAC	p.R10H	LAPTM4A_uc002rdn.2_5'UTR|LAPTM4A_uc010yjx.1_Missense_Mutation_p.R10H	NM_014713	NP_055528	Q15012	LAP4A_HUMAN	lysosomal protein transmembrane 4 alpha	10					transport	endomembrane system|Golgi apparatus|integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCGGTCACTGCGGTTCCGCTT	0.627													6	6					0	0	1	0	0		T	20251253	T	T	20251253	3	4	49	1	0	0	0	0	1	0	0	0	8640	768	27	1	700	1	LAPTM4A	2	20251253	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2552516	20251253	222948120	162	36842											
GDF7	151449	broad.mit.edu	37	chr2	20871149	20871149	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacgttgtctacaagcaataCgaggacatggtggtggaggc	12	8	14	7	2	1	0	0	0	1	0	1	3	1	2	0	5	4	2	0	5	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:20871149C>T	uc002rdz.1	+	2	1893	c.1317C>T	c.(1315-1317)TAC>TAT	p.Y439Y		NM_182828	NP_878248	Q7Z4P5	GDF7_HUMAN	growth differentiation factor 7 preproprotein	439					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACAAGCAATACGAGGACATGG	0.687													8	32					0	0	1	0	0		T	20871149	T	T	20871149	2	4	49	1	0	0	0	0	0	0	0	1	6333	547	19	1		1	GDF7	2	20871149	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	619896	20871149	222328224	163	36843											
APOB	338	broad.mit.edu	37	chr2	21228086	21228086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagagtctacctcaaagcgtGcagtcagtgcttgaaaggaa	13	8	12	8	1	3	2	2	1	1	1	3	4	3	3	1	1	4	2	1	1	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:21228086G>A	uc002red.2	-	26	11782	c.11654C>T	c.(11653-11655)GCA>GTA	p.A3885V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3885					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CTCAAAGCGTGCAGTCAGTGC	0.468													20	69					0	0	1	0	0		A	21228086	A	A	21228086	3	1	49	1	0	0	0	0	1	0	0	0	785	1319	46	2	2053	2	APOB	2	21228086	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	356937	21228086	221971287	164	36844											
APOB	338	broad.mit.edu	37	chr2	21232835	21232835	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttcaaatgaaattgtagttCccaattgatctaaaagcact	15	14	5	7	0	2	2	1	2	1	0	3	2	3	2	1	0	1	3	1	0	6	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:21232835C>A	uc002red.2	-	26	7033	c.6905G>T	c.(6904-6906)GGA>GTA	p.G2302V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2302					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AATTGTAGTTCCCAATTGATC	0.328													7	148					0.307466	0.307826	1	1	0		A	21232835	A	A	21232835	3	1	49	1	0	0	0	0	1	0	0	0	785	855	30	5	6802	5	APOB	2	21232835	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4749	21232835	221966538	165	36845											
APOB	338	broad.mit.edu	37	chr2	21233839	21233839	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagtaagcagggcactgacTttgtgttcaagagctgcact	10	10	13	8	0	1	2	1	1	0	1	1	3	1	3	0	2	3	6	0	2	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:21233839T>G	uc002red.2	-	26	6029	c.5901A>C	c.(5899-5901)AAA>AAC	p.K1967N		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1967					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GGGCACTGACTTTGTGTTCAA	0.453													13	65					0	0	1	0	0		G	21233839	G	G	21233839	3	3	49	1	0	0	0	0	1	0	0	0	785	1606	56	5	7806	5	APOB	2	21233839	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1004	21233839	221965534	166	36846											
MFSD2B	388931	broad.mit.edu	37	chr2	24244805	24244805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acccaccctacctgaagctgGtgatctccttcctgttcatc	7	12	6	16	0	2	2	1	2	1	0	5	2	3	2	5	1	2	2	5	1	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:24244805G>A	uc002reo.1	+	8	873	c.859G>A	c.(859-861)GTG>ATG	p.V287M		NM_001080473	NP_001073942	A6NFX1	MFS2B_HUMAN	major facilitator superfamily domain containing	287	Helical; (Potential).				transport	integral to membrane				ovary(2)	2						CCTGAAGCTGGTGATCTCCTT	0.617													13	142					0	0	1	0	0		A	24244805	A	A	24244805	3	1	49	1	0	0	0	0	1	0	0	0	9549	1261	44	4	889	4	MFSD2B	2	24244805	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3010966	24244805	218954568	167	36847											
HADHA	3030	broad.mit.edu	37	chr2	26414471	26414471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaaatcttgtcaccaggCggaactggatgtcttcgtct	9	12	9	11	2	5	0	2	0	3	0	6	2	5	2	1	3	1	0	1	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:26414471C>T	uc002rgy.2	-	19	2157	c.2027G>A	c.(2026-2028)CGC>CAC	p.R676H	HADHA_uc010yks.1_Missense_Mutation_p.R589H	NM_000182	NP_000173	P40939	ECHA_HUMAN	mitochondrial trifunctional protein, alpha	676					fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)	TGTCACCAGGCGGAACTGGAT	0.532													9	50					0	0	1	0	0		T	26414471	T	T	26414471	3	4	49	1	0	0	0	0	1	0	0	0	6959	768	27	1	272	1	HADHA	2	26414471	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2169666	26414471	216784902	168	36848											
OTOF	9381	broad.mit.edu	37	chr2	26684998	26684998	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctgtgaagaagtcgtcGtcctccaagaccacctcatc	9	9	7	16	2	1	3	1	1	0	2	7	3	4	3	6	0	0	0	6	0	3	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:26684998G>A	uc002rhk.2	-	42	5371	c.5244C>T	c.(5242-5244)GAC>GAT	p.D1748D	OTOF_uc010yla.1_Silent_p.D478D|OTOF_uc002rhh.2_Silent_p.D981D|OTOF_uc002rhi.2_Silent_p.D1058D|OTOF_uc002rhj.2_Silent_p.D981D	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1748	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGAAGTCGTCGTCCTCCAAGA	0.607													82	231					0	0	1	0	0		A	26684998	A	A	26684998	2	1	49	1	0	0	0	0	0	0	0	1	11322	1136	40	1		1	OTOF	2	26684998	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	270527	26684998	216514375	169	36849											
C2orf70	339778	broad.mit.edu	37	chr2	26802284	26802284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagcggaaaaagagagactGctactttgagttcagagcat	14	8	13	6	1	1	4	1	1	0	3	1	7	1	6	0	2	4	3	0	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:26802284G>A	uc010eyn.2	+	4	584	c.584G>A	c.(583-585)TGC>TAC	p.C195Y		NM_001105519	NP_001098989	A6NJV1	CB070_HUMAN	hypothetical protein LOC339778	195										skin(1)	1						AAGAGAGACTGCTACTTTGAG	0.502													28	62					0	0	1	0	0		A	26802284	A	A	26802284	3	1	49	1	0	0	0	0	1	0	0	0	2193	1319	46	2	598	2	C2orf70	2	26802284	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	117286	26802284	216397089	170	36850											
AGBL5	60509	broad.mit.edu	37	chr2	27276774	27276774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcttcagatgacagagaCgcagtttgtgttatcctttg	8	15	10	8	1	2	3	1	1	1	2	3	4	3	3	1	0	1	4	1	0	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:27276774C>T	uc002rie.2	+	4	615	c.398C>T	c.(397-399)ACG>ATG	p.T133M	AGBL5_uc002ric.2_Missense_Mutation_p.T133M|AGBL5_uc002rid.2_Missense_Mutation_p.T133M|AGBL5_uc002rif.2_RNA	NM_021831	NP_068603	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5 isoform 1	133					protein branching point deglutamylation|proteolysis	cytosol|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATGACAGAGACGCAGTTTGTG	0.552													6	75					0	0	1	0	0		T	27276774	T	T	27276774	3	4	49	1	0	0	0	0	1	0	0	0	378	536	19	1	408	1	AGBL5	2	27276774	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	474490	27276774	215922599	171	36851											
EMILIN1	11117	broad.mit.edu	37	chr2	27307392	27307392	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcaagagggccccatcggGccaccaggtatgtgcactga	9	5	15	12	1	0	2	0	1	0	1	1	2	0	2	4	4	1	3	4	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:27307392G>A	uc002rii.3	+	5	2978	c.2550G>A	c.(2548-2550)GGG>GGA	p.G850G	EMILIN1_uc002rik.3_Silent_p.G85G|KHK_uc002ril.2_5'Flank|KHK_uc002rim.2_5'Flank|KHK_uc002rin.2_5'Flank|KHK_uc002rio.2_5'Flank	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	850	Collagen-like.|Potential.				cell adhesion	collagen		p.G850R(1)		pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCCCCATCGGGCCACCAGGTA	0.687													4	38					0	0	1	0	0		A	27307392	A	A	27307392	2	1	49	1	0	0	0	0	0	0	0	1	5101	1190	42	2		2	EMILIN1	2	27307392	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	30618	27307392	215891981	172	36852											
GTF3C2	2976	broad.mit.edu	37	chr2	27566379	27566379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcatgttccccacggggcCggcctcccccagggcaacat	7	6	11	17	2	1	0	1	0	0	0	3	0	3	0	6	4	1	2	6	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:27566379C>T	uc002rjv.1	-	3	406	c.43G>A	c.(43-45)GGC>AGC	p.G15S	GTF3C2_uc002rju.1_Missense_Mutation_p.G26S|GTF3C2_uc002rjw.1_Missense_Mutation_p.G15S|GTF3C2_uc010eyz.1_Missense_Mutation_p.G15S	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	15						transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCACGGGGCCGGCCTCCCCC	0.557													9	103					0	0	1	0	0		T	27566379	T	T	27566379	3	4	49	1	0	0	0	0	1	0	0	0	6889	652	23	1	2764	1	GTF3C2	2	27566379	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	258987	27566379	215632994	173	36853											
IFT172	26160	broad.mit.edu	37	chr2	27702965	27702965	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattggtaatctccttgggCtttgcctcttcccagatgct	7	15	8	11	0	2	1	0	0	2	1	4	1	3	1	3	2	2	3	3	2	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:27702965C>T	uc002rku.2	-	9	888	c.837G>A	c.(835-837)AAG>AAA	p.K279K	IFT172_uc002rkw.2_Silent_p.K279K|IFT172_uc010yls.1_Silent_p.K258K|IFT172_uc010ezc.2_Silent_p.K279K|IFT172_uc002rkv.2_Silent_p.K279K	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	279					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					TCTCCTTGGGCTTTGCCTCTT	0.478													3	50					0	0	1	0	0		T	27702965	T	T	27702965	2	4	49	1	0	0	0	0	0	0	0	1	7573	796	28	2		2	IFT172	2	27702965	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	136586	27702965	215496408	174	36854											
CCDC121	79635	broad.mit.edu	37	chr2	27850186	27850186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttcccagtagcctcctgtCtggctcgctcagttgtttct	3	16	8	14	1	3	0	1	0	2	0	6	0	5	0	3	1	1	5	3	1	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:27850186C>T	uc002rle.2	-	2	662	c.481G>A	c.(481-483)GAC>AAC	p.D161N	ZNF512_uc010yly.1_Intron|CCDC121_uc010eze.2_Missense_Mutation_p.D325N|CCDC121_uc002rld.2_Missense_Mutation_p.D323N|GPN1_uc010ezf.2_5'Flank|GPN1_uc010yma.1_5'Flank|GPN1_uc010ymb.1_5'Flank|GPN1_uc010ymc.1_5'Flank|GPN1_uc010ymd.1_5'Flank|GPN1_uc010yme.1_5'Flank|GPN1_uc010ezg.1_5'Flank	NM_024584	NP_078860	Q6ZUS5	CC121_HUMAN	coiled-coil domain containing 121 isoform 3	161	Potential.										0	Acute lymphoblastic leukemia(172;0.155)					AGCCTCCTGTCTGGCTCGCTC	0.478													6	53					0	0	1	0	0		T	27850186	T	T	27850186	3	4	49	1	0	0	0	0	1	0	0	0	2760	913	32	4	359	4	CCDC121	2	27850186	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	147221	27850186	215349187	175	36855											
FOSL2	2355	broad.mit.edu	37	chr2	28627100	28627100	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctccatgtccaacccatacCctcgctcgcacccctacagc	8	7	4	22	2	0	0	0	0	0	0	4	0	2	0	7	0	4	2	7	0	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:28627100C>A	uc002rma.2	+	2	1038	c.229C>A	c.(229-231)CCT>ACT	p.P77T	FOSL2_uc010ymi.1_Missense_Mutation_p.P38T	NM_005253	NP_005244	P15408	FOSL2_HUMAN	FOS-like antigen 2	77					cell death|regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(172;0.155)					CAACCCATACCCTCGCTCGCA	0.627													11	145					1.05317e-09	1.1283e-09	1	1	0		A	28627100	A	A	28627100	3	1	49	1	0	0	0	0	1	0	0	0	6002	623	22	5	235	5	FOSL2	2	28627100	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	776914	28627100	214572273	176	36856											
C2orf71	388939	broad.mit.edu	37	chr2	29296745	29296745	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactctcatctccagaaaagTctgccccttgtgatccatgg	9	11	7	14	0	3	2	1	1	3	1	6	2	4	2	4	1	1	0	4	1	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:29296745T>C	uc002rmt.1	-	1	383	c.383A>G	c.(382-384)GAC>GGC	p.D128G		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	128					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						TCCAGAAAAGTCTGCCCCTTG	0.468													11	113					0	0	1	0	0		C	29296745	C	C	29296745	3	2	49	1	0	0	0	0	1	0	0	0	2194	1667	58	3	3491	3	C2orf71	2	29296745	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	669645	29296745	213902628	177	36857											
CLIP4	79745	broad.mit.edu	37	chr2	29379233	29379233	+	Frame_Shift_Del	DEL	A	-	-																															gtccaaggattaatgacatcAaaaaaagatagtgcttctga																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:29379233delA	uc002rmv.2	+	10	1418	c.1179delA	c.(1177-1179)TCAfs	p.S393fs	CLIP4_uc002rmu.2_Frame_Shift_Del_p.S393fs|CLIP4_uc010ezm.1_Frame_Shift_Del_p.S393fs|CLIP4_uc002rmw.2_RNA|CLIP4_uc010ymn.1_Frame_Shift_Del_p.S375fs	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	393										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TAATGACATCAAAAAAAGATA	0.274													19	35	---	---	---	---						.	-	29379233	-	-	29379233	7	5	49	1	0	1	0	1	0	0	0	0	3538	117	5	0	1213	0	CLIP4	2	29379233	Frame_Shift_Del	DEL	A	TCGA-BR-7707-01A-11D-2053-08	82488	29379233	213820140	178	36858											
FEZ2	9637	broad.mit.edu	37	chr2	36818143	36818143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcccataattatctgtcaggGcattccaaatccttaaaaag	14	12	5	10	0	2	0	1	0	1	0	5	0	5	0	3	1	0	1	3	1	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:36818143G>A	uc002rph.2	-	2	325	c.278C>T	c.(277-279)GCC>GTC	p.A93V	FEZ2_uc002rpf.2_5'UTR|FEZ2_uc002rpg.2_Missense_Mutation_p.A93V|FEZ2_uc002rpi.2_Intron|FEZ2_uc002rpj.2_Missense_Mutation_p.A93V	NM_005102	NP_005093	Q9UHY8	FEZ2_HUMAN	zygin 2 isoform 1	93					axon guidance|signal transduction		protein binding			ovary(1)	1		all_hematologic(82;0.21)				ATCTGTCAGGGCATTCCAAAT	0.368													7	18					0	0	1	0	0		A	36818143	A	A	36818143	3	1	49	1	0	0	0	0	1	0	0	0	5838	1203	42	2	896	2	FEZ2	2	36818143	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	7438910	36818143	206381230	179	36859											
PRKD3	23683	broad.mit.edu	37	chr2	37483955	37483955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaccacatatctagggaacGgttgtaacctttgctccgga	10	11	10	10	2	1	1	0	1	1	0	2	3	2	3	3	3	3	3	3	3	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:37483955G>A	uc002rqd.2	-	16	2818	c.2263C>T	c.(2263-2265)CGT>TGT	p.R755C	PRKD3_uc002rqe.1_Missense_Mutation_p.R355C	NM_005813	NP_005804	O94806	KPCD3_HUMAN	protein kinase D3	755	Protein kinase.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(2)|ovary(1)|central_nervous_system(1)	4		all_hematologic(82;0.21)				TCTAGGGAACGGTTGTAACCT	0.433													41	97					0	0	1	0	0		A	37483955	A	A	37483955	3	1	49	1	0	0	0	0	1	0	0	0	12542	1116	39	1	421	1	PRKD3	2	37483955	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	665812	37483955	205715418	180	36860											
DHX57	90957	broad.mit.edu	37	chr2	39070156	39070156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcatgttacctttatagcGggccaggagctgcttaaaat	11	11	11	8	1	0	0	0	0	0	0	0	1	0	1	2	3	4	4	2	3	5	5	rs145590165		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:39070156G>A	uc002rrf.2	-	12	2515	c.2416C>T	c.(2416-2418)CGC>TGC	p.R806C	DHX57_uc002rrd.3_Missense_Mutation_p.R190C|DHX57_uc002rre.2_Missense_Mutation_p.R239C	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	806							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				CCTTTATAGCGGGCCAGGAGC	0.408													12	35					0	0	1	0	0		A	39070156	A	A	39070156	3	1	49	1	0	0	0	0	1	0	0	0	4519	1116	39	1	1796	1	DHX57	2	39070156	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1586201	39070156	204129217	181	36861											
PPM1B	5495	broad.mit.edu	37	chr2	44428909	44428909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggcagcgtgatgatacaaCgtgttaatggttcattagca	12	11	12	6	2	1	2	1	2	0	0	1	3	1	2	0	2	4	4	0	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:44428909C>T	uc002rtt.2	+	2	999	c.571C>T	c.(571-573)CGT>TGT	p.R191C	PPM1B_uc002rts.2_Missense_Mutation_p.R191C|PPM1B_uc002rtu.2_Missense_Mutation_p.R191C|PPM1B_uc002rtv.2_Intron|PPM1B_uc002rtw.2_Missense_Mutation_p.R191C|PPM1B_uc002rtx.2_Missense_Mutation_p.R191C	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	191					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GATGATACAACGTGTTAATGG	0.468													24	70					0	0	1	0	0		T	44428909	T	T	44428909	3	4	49	1	0	0	0	0	1	0	0	0	12358	536	19	1	573	1	PPM1B	2	44428909	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5358753	44428909	198770464	182	36862											
SLC3A1	6519	broad.mit.edu	37	chr2	44528255	44528255	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaatacagcacggagccCggcagatacaggttgaccac	13	4	11	13	2	0	2	0	1	0	1	0	4	0	3	3	3	4	3	3	3	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:44528255C>T	uc002ruc.3	+	6	1203	c.1125C>T	c.(1123-1125)CCC>CCT	p.P375P	SLC3A1_uc002rty.2_Silent_p.P375P|SLC3A1_uc002rtz.2_Silent_p.P375P|SLC3A1_uc002rua.2_Silent_p.P375P|SLC3A1_uc002rub.2_Silent_p.P375P|SLC3A1_uc002rud.3_Silent_p.P97P|SLC3A1_uc002rue.3_5'Flank	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	375	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	GCACGGAGCCCGGCAGATACA	0.527													13	37					0	0	1	0	0		T	44528255	T	T	44528255	2	4	49	1	0	0	0	0	0	0	0	1	14651	639	23	1		1	SLC3A1	2	44528255	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	99346	44528255	198671118	183	36863											
KLRAQ1	129285	broad.mit.edu	37	chr2	48692092	48692092	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagaatatagtcagtacaaCgctctgaacgttccactcca	13	10	7	11	2	2	2	1	1	1	1	4	2	4	2	2	0	3	4	2	0	7	5	rs140345835	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:48692092C>T	uc002rwm.2	+	8	896	c.711C>T	c.(709-711)AAC>AAT	p.N237N	KLRAQ1_uc002rwi.1_Silent_p.N237N|KLRAQ1_uc002rwj.2_Silent_p.N237N|KLRAQ1_uc002rwl.2_Silent_p.N191N|KLRAQ1_uc002rwk.2_Silent_p.N237N|KLRAQ1_uc010yok.1_Silent_p.N237N	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	237										ovary(1)	1						GTCAGTACAACGCTCTGAACG	0.323													6	52					0	0	1	0	0		T	48692092	T	T	48692092	2	4	49	1	0	0	0	0	0	0	0	1	8429	535	19	1		1	KLRAQ1	2	48692092	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4163837	48692092	194507281	184	36864											
NRXN1	9378	broad.mit.edu	37	chr2	50170901	50170901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcatcgctgggacactctGctgaggccacaaggatgtca	10	8	11	12	1	3	1	2	1	1	0	4	3	3	3	1	3	1	2	1	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:50170901G>A	uc010fbp.2	-	5	1769	c.962C>T	c.(961-963)GCA>GTA	p.A321V	NRXN1_uc002rxb.3_Missense_Mutation_p.A1058V|NRXN1_uc010fbq.2_Missense_Mutation_p.A1426V|NRXN1_uc002rxe.3_Missense_Mutation_p.A1356V|NRXN1_uc010yon.1_Missense_Mutation_p.A21V|NRXN1_uc002rxa.3_Missense_Mutation_p.A21V	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	321	Extracellular (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GGGACACTCTGCTGAGGCCAC	0.438													4	28					0	0	1	0	0		A	50170901	A	A	50170901	3	1	49	1	0	0	0	0	1	0	0	0	10684	1319	46	2	374	2	NRXN1	2	50170901	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1478809	50170901	193028472	185	36865											
NRXN1	9378	broad.mit.edu	37	chr2	50464107	50464107	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaagatatatgtcgtcccAgctggaaaacaaaaaccaaa	19	7	6	9	1	0	1	0	0	0	1	2	2	1	2	2	1	3	1	2	1	9	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:50464107A>G	uc010fbp.2	-	2	1068	c.261T>C	c.(259-261)GCT>GCC	p.A87A	NRXN1_uc002rxb.3_Silent_p.P794P|NRXN1_uc010fbq.2_Silent_p.P1162P|NRXN1_uc002rxe.3_Silent_p.P1122P|NRXN1_uc002rxc.1_RNA	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	87	Extracellular (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			ATGTCGTCCCAGCTGGAAAAC	0.408													15	56					0	0	1	0	0		G	50464107	G	G	50464107	2	3	49	1	0	0	0	0	0	0	0	1	10684	202	7	3		3	NRXN1	2	50464107	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	293206	50464107	192735266	186	36866											
BCL11A	53335	broad.mit.edu	37	chr2	60688092	60688092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcgagtacacgttctccGtgttgggcatcgcggccggg	5	9	15	12	6	1	0	0	0	1	0	3	1	1	0	2	3	2	4	2	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:60688092G>A	uc002sae.1	-	4	2183	c.1955C>T	c.(1954-1956)ACG>ATG	p.T652M	BCL11A_uc002sab.2_Missense_Mutation_p.T652M|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.T321M|BCL11A_uc010ypj.1_Missense_Mutation_p.T618M|BCL11A_uc002sad.1_Missense_Mutation_p.T500M|BCL11A_uc002saf.1_Missense_Mutation_p.T618M	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	652					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			CACGTTCTCCGTGTTGGGCAT	0.617			T	IGH@	B-CLL								11	43					0	0	1	0	0		A	60688092	A	A	60688092	3	1	49	1	0	0	0	0	1	0	0	0	1364	1145	40	1	662	1	BCL11A	2	60688092	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	10223985	60688092	182511281	187	36867											
EHBP1	23301	broad.mit.edu	37	chr2	63206338	63206338	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttagcagcaagatgaagagCgacgtcggcagctgagagag	13	5	15	8	3	0	5	0	2	0	3	1	7	0	5	0	1	4	4	0	1	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:63206338C>T	uc002sby.2	+	16	3063	c.2581C>T	c.(2581-2583)CGA>TGA	p.R861*	EHBP1_uc010fcp.2_Nonsense_Mutation_p.R826*|EHBP1_uc002sbz.2_Nonsense_Mutation_p.R826*|EHBP1_uc002scb.2_Nonsense_Mutation_p.R826*	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	861	Potential.					cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			AGATGAAGAGCGACGTCGGCA	0.433									Hereditary_Prostate_Cancer				4	79					0	0	1	0	0		T	63206338	T	T	63206338	4	4	49	1	0	0	0	0	0	1	0	0	4981	760	27	1	2639	1	EHBP1	2	63206338	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2518246	63206338	179993035	188	36868											
GKN2	200504	broad.mit.edu	37	chr2	69174390	69174390	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctggatgcaatgtagccCtgaggcagcaagagtacagt	12	7	12	10	0	0	2	0	1	0	1	0	3	0	3	2	2	4	5	2	2	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:69174390C>T	uc002sfa.2	-	4	314	c.205_splice	c.e4-1	p.G69_splice	GKN2_uc002sfb.3_Splice_Site_p.G69_splice	NM_182536	NP_872342	Q86XP6	GKN2_HUMAN	trefoil factor interactions(z) 1 precursor							extracellular region					0						CAATGTAGCCCTGAGGCAGCA	0.488													21	47					0	0	1	0	0		T	69174390	T	T	69174390	5	4	49	1	0	0	0	0	0	0	1	0	6440	695	24	4	362	4	GKN2	2	69174390	Splice_Site	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5968052	69174390	174024983	189	36869											
ATP6V1B1	525	broad.mit.edu	37	chr2	71163176	71163176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacatgcaggcggtcacccGaaactacatcacccaccccc	12	4	6	19	2	2	0	2	0	0	0	2	1	2	0	4	2	3	1	4	2	2	1	rs143516810		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:71163176G>A	uc002shj.2	+	1	179	c.92G>A	c.(91-93)CGA>CAA	p.R31Q	ATP6V1B1_uc002shi.1_Missense_Mutation_p.R31Q|ATP6V1B1_uc010fdv.2_Missense_Mutation_p.R31Q|ATP6V1B1_uc010fdw.2_RNA	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	31					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						GCGGTCACCCGAAACTACATC	0.667													31	71					0	0	1	0	0		A	71163176	A	A	71163176	3	1	49	1	0	0	0	0	1	0	0	0	1179	1058	37	1	94	1	ATP6V1B1	2	71163176	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1988786	71163176	172036197	190	36870											
ATP6V1B1	525	broad.mit.edu	37	chr2	71190412	71190412	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggggaggatccatcacaCagatccccatcctcaccatg	10	7	9	15	1	2	1	2	0	0	1	6	3	5	3	5	3	0	0	5	3	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:71190412C>T	uc002shj.2	+	10	1117	c.1030C>T	c.(1030-1032)CAG>TAG	p.Q344*	ATP6V1B1_uc010fdv.2_Intron|ATP6V1B1_uc010fdw.2_RNA|ATP6V1B1_uc010fdx.2_Nonsense_Mutation_p.Q302*	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	344					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						ATCCATCACACAGATCCCCAT	0.612													5	68					0	0	1	0	0		T	71190412	T	T	71190412	4	4	49	1	0	0	0	0	0	1	0	0	1179	479	17	4	1068	4	ATP6V1B1	2	71190412	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	27236	71190412	172008961	191	36871											
ZNF638	27332	broad.mit.edu	37	chr2	71577059	71577059	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttagccagacaatgagtcaAtctctgattcctccatctat	11	13	6	11	0	3	3	1	2	2	1	6	3	5	3	3	0	1	1	3	0	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:71577059A>T	uc002shx.2	+	2	1294	c.975A>T	c.(973-975)CAA>CAT	p.Q325H	ZNF638_uc010fec.2_Missense_Mutation_p.Q431H|ZNF638_uc010yqw.1_Intron|ZNF638_uc002shw.2_Missense_Mutation_p.Q325H|ZNF638_uc002shy.2_Missense_Mutation_p.Q325H|ZNF638_uc002shz.2_Missense_Mutation_p.Q325H|ZNF638_uc002sia.2_Missense_Mutation_p.Q325H|ZNF638_uc002sib.1_Missense_Mutation_p.Q325H	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	325					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						CAATGAGTCAATCTCTGATTC	0.423													18	153					0	0	1	0	0		T	71577059	T	T	71577059	3	4	49	1	0	0	0	0	1	0	0	0	18080	98	4	5	977	5	ZNF638	2	71577059	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	386647	71577059	171622314	192	36872											
DYSF	8291	broad.mit.edu	37	chr2	71762412	71762412	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcagtttccctccatgtgCgaaaaaatgaggattcgtat	11	12	8	10	2	1	1	1	1	0	0	4	3	3	2	3	1	1	2	3	1	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:71762412C>T	uc002sie.2	+	15	1744	c.1368C>T	c.(1366-1368)TGC>TGT	p.C456C	DYSF_uc010feg.2_Silent_p.C487C|DYSF_uc010feh.2_Silent_p.C456C|DYSF_uc002sig.3_Silent_p.C456C|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.C456C|DYSF_uc010fef.2_Silent_p.C487C|DYSF_uc010fei.2_Silent_p.C487C|DYSF_uc010fek.2_Silent_p.C488C|DYSF_uc010fej.2_Silent_p.C457C|DYSF_uc010fel.2_Silent_p.C457C|DYSF_uc010feo.2_Silent_p.C488C|DYSF_uc010fem.2_Silent_p.C457C|DYSF_uc010fen.2_Silent_p.C488C|DYSF_uc002sif.2_Silent_p.C457C	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	456	Cytoplasmic (Potential).|C2 3.		C -> W (in MMD1).			cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CCTCCATGTGCGAAAAAATGA	0.522													31	85					0	0	1	0	0		T	71762412	T	T	71762412	2	4	49	1	0	0	0	0	0	0	0	1	4865	776	27	1		1	DYSF	2	71762412	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	185353	71762412	171436961	193	36873											
SFXN5	94097	broad.mit.edu	37	chr2	73198729	73198729	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgatcttggaggagcccacGaggttgccatcgctgtccag	7	8	14	12	3	1	0	0	0	1	0	3	4	2	2	3	3	2	2	3	3	0	2	rs148361418	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:73198729G>A	uc002siq.2	-	11	842	c.711C>T	c.(709-711)CTC>CTT	p.L237L	SFXN5_uc002sio.2_Silent_p.L129L|SFXN5_uc010yrc.1_Silent_p.L86L|SFXN5_uc002sip.2_Intron|SFXN5_uc010fet.2_Intron|SFXN5_uc010fer.2_RNA|SFXN5_uc010feq.2_Silent_p.L19L|SFXN5_uc010fes.2_Silent_p.L19L	NM_144579	NP_653180	Q8TD22	SFXN5_HUMAN	sideroflexin 5	237					iron ion homeostasis	integral to membrane	cation transmembrane transporter activity			ovary(1)	1						AGGAGCCCACGAGGTTGCCAT	0.612													17	40					0	0	1	0	0		A	73198729	A	A	73198729	2	1	49	1	0	0	0	0	0	0	0	1	14223	1045	37	1		1	SFXN5	2	73198729	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1436317	73198729	170000644	194	36874											
ALMS1	7840	broad.mit.edu	37	chr2	73747133	73747133	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaggttactttttctcgCggcacagatggtaagagaat	12	11	10	8	2	1	2	0	0	1	2	2	3	1	2	0	3	2	3	0	3	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:73747133C>T	uc002sje.1	+	13	9885	c.9774C>T	c.(9772-9774)CGC>CGT	p.R3258R	ALMS1_uc002sjf.1_Silent_p.R3214R|ALMS1_uc002sjg.2_Silent_p.R2644R|ALMS1_uc002sjh.1_Silent_p.R2644R|ALMS1_uc010fev.1_Silent_p.R73R	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3256					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CTTTTTCTCGCGGCACAGATG	0.403													15	166					0	0	1	0	0		T	73747133	T	T	73747133	2	4	49	1	0	0	0	0	0	0	0	1	535	755	27	1		1	ALMS1	2	73747133	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	548404	73747133	169452240	195	36875											
TPRKB	51002	broad.mit.edu	37	chr2	73957738	73957738	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagatttttcagagaaacCtgatgaccttctacttgaga	13	12	9	7	0	2	5	1	3	1	3	2	8	2	6	2	1	2	0	2	1	3	5	rs144417465	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:73957738C>A	uc002sjn.2	-	4	501	c.390G>T	c.(388-390)CAG>CAT	p.Q130H	TPRKB_uc002sjm.2_Missense_Mutation_p.Q169H|TPRKB_uc002sjl.2_Missense_Mutation_p.Q97H|TPRKB_uc002sjo.2_Missense_Mutation_p.Q130H|TPRKB_uc010yrm.1_Missense_Mutation_p.Q97H	NM_016058	NP_057142	Q9Y3C4	TPRKB_HUMAN	TP53RK binding protein	130					protein catabolic process	cytosol|nucleus	protein kinase binding			ovary(1)|skin(1)	2						TCAGAGAAACCTGATGACCTT	0.313													4	50					0.00024832	0.000256562	1	1	0		A	73957738	A	A	73957738	3	1	49	1	0	0	0	0	1	0	0	0	16446	680	24	5	145	5	TPRKB	2	73957738	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	210605	73957738	169241635	196	36876											
TET3	200424	broad.mit.edu	37	chr2	74275076	74275076	+	Frame_Shift_Del	DEL	C	-	-																															cctccagggacagcctgctgCcccctactcaggaaatgagg																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:74275076delC	uc002skb.3	+	1	1627	c.1627delC	c.(1627-1629)CCCfs	p.P543fs	TET3_uc010fez.1_Frame_Shift_Del_p.P543fs	NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	543							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CAGCCTGCTGCCCCCTACTCA	0.637													16	33	---	---	---	---						.	-	74275076	-	-	74275076	7	5	49	1	0	1	0	1	0	0	0	0	15796	739	26	0	1629	0	TET3	2	74275076	Frame_Shift_Del	DEL	C	TCGA-BR-7707-01A-11D-2053-08	317338	74275076	168924297	197	36877											
TET3	200424	broad.mit.edu	37	chr2	74317124	74317124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaacggctgcaagtatgctCggagcaagacacctcgcaag	12	6	11	12	3	1	1	1	0	0	1	3	2	1	2	1	2	4	6	1	2	5	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:74317124C>T	uc002skb.3	+	5	2584	c.2584C>T	c.(2584-2586)CGG>TGG	p.R862W		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	862							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CAAGTATGCTCGGAGCAAGAC	0.607													15	130					0	0	1	0	0		T	74317124	T	T	74317124	3	4	49	1	0	0	0	0	1	0	0	0	15796	875	31	1	2602	1	TET3	2	74317124	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	42048	74317124	168882249	198	36878											
SEMA4F	10505	broad.mit.edu	37	chr2	74906809	74906809	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctcagcatgggcatccTgtgtgtggcaccagcccagt	8	8	12	13	0	1	0	1	0	0	0	2	0	2	0	3	2	3	4	3	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:74906809T>C	uc002sna.1	+	14	1897	c.1786T>C	c.(1786-1788)TGT>CGT	p.C596R	SEMA4F_uc010ffr.1_Missense_Mutation_p.C208R|SEMA4F_uc002snb.1_Missense_Mutation_p.C208R|SEMA4F_uc002snc.1_Missense_Mutation_p.C441R	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	596	Ig-like C2-type.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						ATGGGCATCCTGTGTGTGGCA	0.592													53	94					0	0	1	0	0		C	74906809	C	C	74906809	3	2	49	1	0	0	0	0	1	0	0	0	14060	1580	55	3	1840	3	SEMA4F	2	74906809	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	589685	74906809	168292564	199	36879											
LRRTM4	80059	broad.mit.edu	37	chr2	77746704	77746704	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatcttcatccactgagctAatgtaattatggtcaagata	13	13	7	8	0	3	2	2	1	1	1	4	2	4	2	1	1	1	3	1	1	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:77746704A>G	uc002snr.2	-	3	706	c.291T>C	c.(289-291)ATT>ATC	p.I97I	LRRTM4_uc002snq.2_Silent_p.I97I|LRRTM4_uc002sns.2_Silent_p.I97I|LRRTM4_uc002snt.2_Silent_p.I98I	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	97	LRR 2.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		CCACTGAGCTAATGTAATTAT	0.368													9	58					0	0	1	0	0		G	77746704	G	G	77746704	2	3	49	1	0	0	0	0	0	0	0	1	9060	358	13	3		3	LRRTM4	2	77746704	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2839895	77746704	165452669	200	36880											
CTNNA2	1496	broad.mit.edu	37	chr2	80874797	80874797	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcatcctatgtggcctcaAccaaataccagaaggtctat	14	9	7	11	0	2	1	1	0	1	1	3	1	3	1	4	2	3	1	4	2	7	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:80874797A>G	uc010ysh.1	+	18	2667	c.2662A>G	c.(2662-2664)ACC>GCC	p.T888A	CTNNA2_uc010yse.1_Missense_Mutation_p.T840A|CTNNA2_uc010ysf.1_Missense_Mutation_p.T840A|CTNNA2_uc010ysg.1_Missense_Mutation_p.T795A|CTNNA2_uc010ysi.1_Missense_Mutation_p.T472A|CTNNA2_uc010ysj.1_Missense_Mutation_p.T169A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	888					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TGTGGCCTCAACCAAATACCA	0.483													5	127					0	0	1	0	0		G	80874797	G	G	80874797	3	3	49	1	0	0	0	0	1	0	0	0	4016	43	2	3	2376	3	CTNNA2	2	80874797	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3128093	80874797	162324576	201	36881											
TCF7L1	83439	broad.mit.edu	37	chr2	85532493	85532493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatcgtcaagcaggaacCggcaccccccagcctgagcc	9	3	9	20	2	1	1	1	1	0	0	2	2	1	2	8	2	4	2	8	2	2	0	rs138614113	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:85532493C>T	uc002soy.2	+	8	1030	c.956C>T	c.(955-957)CCG>CTG	p.P319L		NM_031283	NP_112573	Q9HCS4	TF7L1_HUMAN	HMG-box transcription factor TCF-3	319	Pro-rich.				chromatin organization|regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)|central_nervous_system(1)	3						AAGCAGGAACCGGCACCCCCC	0.662													5	49					0	0	1	0	0		T	85532493	T	T	85532493	3	4	49	1	0	0	0	0	1	0	0	0	15722	652	23	1	986	1	TCF7L1	2	85532493	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4657696	85532493	157666880	202	36882											
RNF103	7844	broad.mit.edu	37	chr2	86831536	86831536	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggtgaagccaaaggtcAgggaaagctaagcgctccaa	15	4	14	8	1	1	2	1	1	0	1	2	3	2	3	2	3	3	2	2	3	5	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:86831536A>G	uc002srn.2	-	4	2457	c.1488T>C	c.(1486-1488)CCT>CCC	p.P496P	VPS24_uc010ytl.1_Intron|RNF103_uc002srm.2_Silent_p.P357P|uc002sro.2_Intron	NM_005667	NP_005658	O00237	RN103_HUMAN	ring finger protein 103	496					central nervous system development|ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(1)	1						GCCAAAGGTCAGGGAAAGCTA	0.443													9	77					0	0	1	0	0		G	86831536	G	G	86831536	2	3	49	1	0	0	0	0	0	0	0	1	13448	175	7	3		3	RNF103	2	86831536	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1299043	86831536	156367837	203	36883											
CD8A	925	broad.mit.edu	37	chr2	87017603	87017603	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagaaccgctgggtgtccAgcccctcggccgccttgggc	4	6	14	17	4	0	1	0	0	0	1	2	2	1	1	7	3	2	1	7	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:87017603A>G	uc002srt.2	-	2	1140	c.251T>C	c.(250-252)CTG>CCG	p.L84P	RMND5A_uc002srs.3_Intron|CD8A_uc002srv.2_Missense_Mutation_p.L84P|CD8A_uc010ytn.1_Missense_Mutation_p.L125P|CD8A_uc002sru.2_Missense_Mutation_p.L84P	NM_001768	NP_001759	P01732	CD8A_HUMAN	CD8 antigen alpha polypeptide isoform 1	84	Ig-like V-type.|Extracellular (Potential).				antigen processing and presentation|regulation of immune response|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			ovary(1)	1						CTGGGTGTCCAGCCCCTCGGC	0.662													11	100					0	0	1	0	0		G	87017603	G	G	87017603	3	3	49	1	0	0	0	0	1	0	0	0	3047	188	7	3	476	3	CD8A	2	87017603	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	186067	87017603	156181770	204	36884											
RPIA	22934	broad.mit.edu	37	chr2	89034099	89034099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatcgatggtgctgatgaaGtagatgctgatctcaatctc	10	12	10	9	1	2	4	1	3	2	1	5	5	2	4	1	1	2	3	1	1	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:89034099G>A	uc002ste.2	+	5	534	c.493G>A	c.(493-495)GTA>ATA	p.V165I		NM_144563	NP_653164	P49247	RPIA_HUMAN	ribose 5-phosphate isomerase A	165					pentose-phosphate shunt, non-oxidative branch	cytosol	ribose-5-phosphate isomerase activity			ovary(1)	1		Acute lymphoblastic leukemia(2;0.000456)|all_hematologic(2;0.00287)				TGCTGATGAAGTAGATGCTGA	0.428													9	83					0	0	1	0	0		A	89034099	A	A	89034099	3	1	49	1	0	0	0	0	1	0	0	0	13578	1029	36	4	511	4	RPIA	2	89034099	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2016496	89034099	154165274	205	36885											
ZNF2	7549	broad.mit.edu	37	chr2	95847304	95847304	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccttctttgaccgttcgtCcctaactgtccatcagcgaa	8	12	7	14	3	2	1	1	1	1	0	5	2	4	1	4	0	3	1	4	0	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:95847304C>A	uc002suf.2	+	6	1190	c.728C>A	c.(727-729)TCC>TAC	p.S243Y	ZNF2_uc002sug.2_Missense_Mutation_p.S201Y|ZNF2_uc010yue.1_Missense_Mutation_p.S206Y|ZNF2_uc010fhs.2_Missense_Mutation_p.S164Y	NM_021088	NP_066574	Q9BSG1	ZNF2_HUMAN	zinc finger protein 2 isoform a	243	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(717;0.00768)		READ - Rectum adenocarcinoma(193;0.0222)		GACCGTTCGTCCCTAACTGTC	0.517													11	136					0.00010058	0.000104233	1	1	0		A	95847304	A	A	95847304	3	1	49	1	0	0	0	0	1	0	0	0	17785	855	30	5	745	5	ZNF2	2	95847304	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	6813205	95847304	147352069	206	36886											
INPP4A	3631	broad.mit.edu	37	chr2	99172076	99172076	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcattcagcgtgtggacaagCtgctgcagaaggagcggctg	9	8	15	9	2	2	1	2	0	0	1	2	3	2	3	0	3	5	4	0	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:99172076C>T	uc002syy.2	+	17	2035	c.1642C>T	c.(1642-1644)CTG>TTG	p.L548L	INPP4A_uc010yvj.1_Silent_p.L548L|INPP4A_uc010yvk.1_Silent_p.L548L|INPP4A_uc002syx.2_Silent_p.L543L|INPP4A_uc010fik.2_Intron	NM_001134224	NP_001127696	Q96PE3	INP4A_HUMAN	inositol polyphosphate-4-phosphatase, type 1	548					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			kidney(1)	1						TGTGGACAAGCTGCTGCAGAA	0.582													15	38					0	0	1	0	0		T	99172076	T	T	99172076	2	4	49	1	0	0	0	0	0	0	0	1	7768	796	28	2		2	INPP4A	2	99172076	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3324772	99172076	144027297	207	36887											
INPP4A	3631	broad.mit.edu	37	chr2	99204042	99204042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagcattacaggcctcccGaagggacttacggaaaagtt	13	7	10	11	2	0	0	0	0	0	0	1	3	1	2	3	3	3	2	3	3	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:99204042G>A	uc002syy.2	+	26	3298	c.2905G>A	c.(2905-2907)GAA>AAA	p.E969K	INPP4A_uc010yvk.1_Missense_Mutation_p.E930K|INPP4A_uc002syx.2_Missense_Mutation_p.E964K|INPP4A_uc010fik.2_Missense_Mutation_p.E298K	NM_001134224	NP_001127696	Q96PE3	INP4A_HUMAN	inositol polyphosphate-4-phosphatase, type 1	969					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			kidney(1)	1						CAGGCCTCCCGAAGGGACTTA	0.413													28	60					0	0	1	0	0		A	99204042	A	A	99204042	3	1	49	1	0	0	0	0	1	0	0	0	7768	1059	37	1	3184	1	INPP4A	2	99204042	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	31966	99204042	143995331	208	36888											
TBC1D8	11138	broad.mit.edu	37	chr2	101644825	101644825	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtagggctcctggtcgtcGgagaaaaaggcatggtggct	8	8	18	7	2	0	1	0	0	0	1	3	2	1	1	1	7	0	4	1	7	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:101644825G>A	uc010fiv.2	-	13	2378	c.2247C>T	c.(2245-2247)TCC>TCT	p.S749S	TBC1D8_uc002tau.3_Silent_p.S506S	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8	749					blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						CCTGGTCGTCGGAGAAAAAGG	0.587													3	57					0	0	1	0	0		A	101644825	A	A	101644825	2	1	49	1	0	0	0	0	0	0	0	1	15650	1103	39	1		1	TBC1D8	2	101644825	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2440783	101644825	141554548	209	36889											
NCK2	8440	broad.mit.edu	37	chr2	106498353	106498353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccctgcaccctgcgcacGccccacagataagctacacc	9	5	7	20	2	0	1	0	0	0	1	0	1	0	1	5	0	5	3	5	0	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:106498353G>A	uc002tdg.2	+	4	1238	c.796G>A	c.(796-798)GCC>ACC	p.A266T	NCK2_uc002tdh.2_Intron|NCK2_uc002tdi.2_Missense_Mutation_p.A266T	NM_003581	NP_003572	O43639	NCK2_HUMAN	NCK adaptor protein 2 isoform A	266					axon guidance|epidermal growth factor receptor signaling pathway|negative regulation of cell proliferation|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of epidermal growth factor receptor activity|regulation of translation|signal complex assembly|T cell activation	cytosol|endoplasmic reticulum	cytoskeletal adaptor activity|receptor signaling complex scaffold activity			ovary(1)|lung(1)	2						CCCTGCGCACGCCCCACAGAT	0.667													6	28					0	0	1	0	0		A	106498353	A	A	106498353	3	1	49	1	0	0	0	0	1	0	0	0	10239	1087	38	1	802	1	NCK2	2	106498353	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4853528	106498353	136701020	210	36890											
RANBP2	5903	broad.mit.edu	37	chr2	109400128	109400128	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgaagatgaaaattttgAtgtgaaacatactggtcctg	14	14	9	4	0	0	5	0	4	0	1	1	5	1	5	1	1	2	0	1	1	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:109400128A>T	uc002tem.3	+	29	9572	c.9446A>T	c.(9445-9447)GAT>GTT	p.D3149V		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	3149	PPIase cyclophilin-type.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GAAAATTTTGATGTGAAACAT	0.343													5	115					0	0	1	0	0		T	109400128	T	T	109400128	3	4	49	1	0	0	0	0	1	0	0	0	13053	333	12	5	9560	5	RANBP2	2	109400128	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2901775	109400128	133799245	211	36891											
POLR1B	84172	broad.mit.edu	37	chr2	113332680	113332680	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcccgcatgaccattgggAtgttaattgagagtatggcc	10	11	11	9	1	0	2	0	2	0	1	1	4	1	3	3	2	0	3	3	2	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:113332680A>G	uc002thw.2	+	15	3362	c.2782A>G	c.(2782-2784)ATG>GTG	p.M928V	POLR1B_uc010fkn.2_Missense_Mutation_p.M872V|POLR1B_uc002thx.2_Missense_Mutation_p.M789V|POLR1B_uc010fko.2_Missense_Mutation_p.M745V|POLR1B_uc010fkp.2_Missense_Mutation_p.M367V|POLR1B_uc010yxn.1_Missense_Mutation_p.M966V|POLR1B_uc002thy.2_Missense_Mutation_p.M789V|POLR1B_uc010yxo.1_Missense_Mutation_p.M705V	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	928					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1						GACCATTGGGATGTTAATTGA	0.502													13	127					0	0	1	0	0		G	113332680	G	G	113332680	3	3	49	1	0	0	0	0	1	0	0	0	12229	333	12	3	2840	3	POLR1B	2	113332680	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3932552	113332680	129866693	212	36892											
TFCP2L1	29842	broad.mit.edu	37	chr2	121997199	121997199	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacggggcgctgttcacctgGtaggccacgtcgggccatgg	5	7	17	12	4	1	0	1	0	0	0	2	1	1	0	3	6	0	3	3	6	1	2	rs143023699	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:121997199G>A	uc002tmx.2	-	8	888	c.795C>T	c.(793-795)TAC>TAT	p.Y265Y	TFCP2L1_uc010flr.2_Silent_p.Y265Y	NM_014553	NP_055368	Q9NZI6	TF2L1_HUMAN	LBP-9	265					female pregnancy|steroid biosynthetic process	mitochondrion|nucleolus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			pancreas(2)|ovary(1)	3	Renal(3;0.01)					TGTTCACCTGGTAGGCCACGT	0.627													8	59					0	0	1	0	0		A	121997199	A	A	121997199	2	1	49	1	0	0	0	0	0	0	0	1	15821	1256	44	4		4	TFCP2L1	2	121997199	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8664519	121997199	121202174	213	36893											
CLASP1	23332	broad.mit.edu	37	chr2	122215303	122215303	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggtacagttgcttgttaTgacaggtattaacctaggga	12	12	12	5	0	0	2	0	1	0	1	0	3	0	3	1	3	3	5	1	3	5	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:122215303T>C	uc002tnc.2	-	14	1735	c.1345A>G	c.(1345-1347)ATA>GTA	p.I449V	CLASP1_uc002tna.2_5'UTR|CLASP1_uc010yyw.1_RNA|CLASP1_uc002tnb.2_RNA|CLASP1_uc010yyx.1_RNA|CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Missense_Mutation_p.I449V|CLASP1_uc010yza.1_Missense_Mutation_p.I449V|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_RNA|CLASP1_uc002tng.1_Missense_Mutation_p.I449V	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	449	HEAT 4.				axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					TTGCTTGTTATGACAGGTATT	0.323													5	58					0	0	1	0	0		C	122215303	C	C	122215303	3	2	49	1	0	0	0	0	1	0	0	0	3457	1464	51	3	3431	3	CLASP1	2	122215303	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	218104	122215303	120984070	214	36894											
POTEF	728378	broad.mit.edu	37	chr2	130832416	130832416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcccagccaggtctaggcGcagggtggcatgggggaggg	6	4	20	11	2	1	0	0	0	1	0	1	1	1	1	3	7	1	2	3	7	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:130832416G>A	uc010fmh.2	-	17	3029	c.2629C>T	c.(2629-2631)CGC>TGC	p.R877C		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	877	Actin-like.					cell cortex	ATP binding			skin(3)|ovary(2)	5						AGGTCTAGGCGCAGGGTGGCA	0.612													9	45					0	0	1	0	0		A	130832416	A	A	130832416	3	1	49	1	0	0	0	0	1	0	0	0	12284	1087	38	1	602	1	POTEF	2	130832416	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8617113	130832416	112366957	215	36895											
POTEF	728378	broad.mit.edu	37	chr2	130877790	130877790	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagcagtggcagcaccacTtgcccatcttgttcctgagt	8	10	11	12	0	1	1	0	1	1	0	2	2	2	2	3	2	3	4	3	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:130877790T>G	uc010fmh.2	-	3	699	c.299A>C	c.(298-300)AAG>ACG	p.K100T		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	100						cell cortex	ATP binding	p.K100N(1)		skin(3)|ovary(2)	5						GCAGCACCACTTGCCCATCTT	0.607													9	271					0	0	1	0	0		G	130877790	G	G	130877790	3	3	49	1	0	0	0	0	1	0	0	0	12284	1609	56	5	2988	5	POTEF	2	130877790	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	45374	130877790	112321583	216	36896											
POTEE	445582	broad.mit.edu	37	chr2	131976274	131976274	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcaggaacaagatggggaAgtggtgctgccactgcttcc	10	8	13	10	0	1	1	1	0	0	1	2	3	2	3	2	4	4	2	2	4	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:131976274A>C	uc002tsn.2	+	1	351	c.299A>C	c.(298-300)AAG>ACG	p.K100T	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	100							ATP binding				0						AAGATGGGGAAGTGGTGCTGC	0.617													4	47					0	0	1	0	0		C	131976274	C	C	131976274	3	2	49	1	0	0	0	0	1	0	0	0	12283	72	3	5	301	5	POTEE	2	131976274	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1098484	131976274	111223099	217	36897											
GPR39	2863	broad.mit.edu	37	chr2	133403128	133403128	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctagagcccaactcaggcgcGaaaccagccaattctgctgc	11	6	9	15	2	2	1	1	0	1	1	2	2	2	1	3	1	6	1	3	1	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:133403128G>A	uc002ttl.2	+	2	1780	c.1311G>A	c.(1309-1311)GCG>GCA	p.A437A	LYPD1_uc002ttm.3_3'UTR|LYPD1_uc002ttn.2_3'UTR|LYPD1_uc002tto.2_3'UTR	NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	437						integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						ACTCAGGCGCGAAACCAGCCA	0.517													6	82					0	0	1	0	0		A	133403128	A	A	133403128	2	1	49	1	0	0	0	0	0	0	0	1	6708	1045	37	1		1	GPR39	2	133403128	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1426854	133403128	109796245	218	36898											
LCT	3938	broad.mit.edu	37	chr2	136566490	136566490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactgcagcattcggtcagCggcttccacatctctgggga	8	9	12	12	2	2	0	1	0	1	0	5	2	3	1	1	4	4	3	1	4	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:136566490C>T	uc002tuu.1	-	8	3438	c.3427G>A	c.(3427-3429)GCT>ACT	p.A1143T		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1143	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		ATTCGGTCAGCGGCTTCCACA	0.557													16	49					0	0	1	0	0		T	136566490	T	T	136566490	3	4	49	1	0	0	0	0	1	0	0	0	8709	768	27	1	2396	1	LCT	2	136566490	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3163362	136566490	106632883	219	36899											
KYNU	8942	broad.mit.edu	37	chr2	143715236	143715236	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgagtcacaactacaactTcacggacttaacattgaaga	16	10	6	9	1	2	3	2	2	0	1	2	4	2	4	0	1	4	0	0	1	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:143715236T>C	uc002tvl.2	+	7	664	c.534T>C	c.(532-534)CTT>CTC	p.L178L	KYNU_uc002tvk.2_Silent_p.L178L|KYNU_uc010fnm.2_Silent_p.L178L	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	178					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	AACTACAACTTCACGGACTTA	0.303													24	56					0	0	1	0	0		C	143715236	C	C	143715236	2	2	49	1	0	0	0	0	0	0	0	1	8603	1770	62	3		3	KYNU	2	143715236	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	7148746	143715236	99484137	220	36900											
ZEB2	9839	broad.mit.edu	37	chr2	145157300	145157300	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgtgataacctttcaacTttgaaatttcttcagccttg	10	17	5	9	0	4	2	3	2	1	0	4	2	4	2	2	0	3	0	2	0	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:145157300T>G	uc002tvu.2	-	8	1934	c.1454A>C	c.(1453-1455)AAG>ACG	p.K485T	ZEB2_uc002tvv.2_Missense_Mutation_p.K479T|ZEB2_uc010zbm.1_Missense_Mutation_p.K456T|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.K514T	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	485	SMAD-MH2 binding domain (By similarity).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		ACCTTTCAACTTTGAAATTTC	0.408													9	80					0	0	1	0	0		G	145157300	G	G	145157300	3	3	49	1	0	0	0	0	1	0	0	0	17649	1609	56	5	2202	5	ZEB2	2	145157300	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1442064	145157300	98042073	221	36901											
RIF1	55183	broad.mit.edu	37	chr2	152324542	152324542	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctcctttgcagatccaaTataccaagcaggattggcag	11	11	9	10	0	1	1	0	0	1	1	3	2	2	2	3	2	3	3	3	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:152324542T>C	uc002txm.2	+	31	6759	c.6629T>C	c.(6628-6630)ATA>ACA	p.I2210T	RIF1_uc002txl.2_Missense_Mutation_p.I2210T|RIF1_uc002txn.2_Missense_Mutation_p.I2210T|RIF1_uc002txo.2_Missense_Mutation_p.I2210T|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	2210	Interaction with condensed chromosomes in telophase.				cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		GCAGATCCAATATACCAAGCA	0.353													10	90					0	0	1	0	0		C	152324542	C	C	152324542	3	2	49	1	0	0	0	0	1	0	0	0	13384	1406	49	3	6747	3	RIF1	2	152324542	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	7167242	152324542	90874831	222	36902											
NR4A2	4929	broad.mit.edu	37	chr2	157182339	157182339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatttcaggtagaaaatgcGctgtagcccctgtgtgcaaa	12	10	10	9	1	1	1	1	0	0	1	1	1	1	1	2	1	3	4	2	1	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:157182339G>A	uc002tyz.3	-	8	2136	c.1714C>T	c.(1714-1716)CGC>TGC	p.R572C	NR4A2_uc002tyx.3_Missense_Mutation_p.R509C|NR4A2_uc010zcf.1_Missense_Mutation_p.R572C	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	572					cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						TAGAAAATGCGCTGTAGCCCC	0.488													22	76					0	0	1	0	0		A	157182339	A	A	157182339	3	1	49	1	0	0	0	0	1	0	0	0	10652	1087	38	1	86	1	NR4A2	2	157182339	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4857797	157182339	86017034	223	36903											
FIGN	55137	broad.mit.edu	37	chr2	164467599	164467599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggatagctagcagacGgatagctgtaactggagagg	13	6	17	5	1	0	2	0	0	0	2	0	7	0	5	0	5	4	4	0	5	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:164467599G>A	uc002uck.1	-	3	1054	c.743C>T	c.(742-744)CCG>CTG	p.P248L		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	248	Pro-rich.					nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						GCTAGCAGACGGATAGCTGTA	0.607													3	33					0	0	1	0	0		A	164467599	A	A	164467599	3	1	49	1	0	0	0	0	1	0	0	0	5905	1116	39	1	1540	1	FIGN	2	164467599	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	7285260	164467599	78731774	224	36904											
CSRNP3	80034	broad.mit.edu	37	chr2	166535234	166535234	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcgtatgtctttcccatgCggctgcactaaagaaggatg	10	11	11	9	2	1	1	0	0	1	1	3	3	2	2	1	2	2	3	1	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:166535234C>T	uc002udf.2	+	7	1105	c.729C>T	c.(727-729)TGC>TGT	p.C243C	CSRNP3_uc002udg.2_Silent_p.C243C	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	243	Cys-rich.				apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						CTTTCCCATGCGGCTGCACTA	0.403													7	66					0	0	1	0	0		T	166535234	T	T	166535234	2	4	49	1	0	0	0	0	0	0	0	1	3968	776	27	1		1	CSRNP3	2	166535234	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2067635	166535234	76664139	225	36905											
SCN7A	6332	broad.mit.edu	37	chr2	167262882	167262882	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagcatactgttgccaaaGgtttcaaaattagacacatc	15	10	7	9	0	1	2	1	0	0	2	2	2	1	2	1	1	3	3	1	1	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:167262882G>T	uc002udu.1	-	25	4384	c.4257C>A	c.(4255-4257)ACC>ACA	p.T1419T		NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	1419					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TGTTGCCAAAGGTTTCAAAAT	0.363													7	185					4.84862e-15	5.28043e-15	1	1	0		T	167262882	T	T	167262882	2	4	49	1	0	0	0	0	0	0	0	1	13948	987	35	5		5	SCN7A	2	167262882	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	727648	167262882	75936491	226	36906											
XIRP2	129446	broad.mit.edu	37	chr2	168105930	168105930	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatcagcttgcgaaattaaAcaaagtcaccaagaatgtag	19	8	7	7	1	2	1	2	0	0	1	2	2	2	1	1	0	3	2	1	0	8	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:168105930A>G	uc002udx.2	+	8	8046	c.8028A>G	c.(8026-8028)AAA>AAG	p.K2676K	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.K2501K|XIRP2_uc010fpq.2_Silent_p.K2454K|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Silent_p.K22K	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2501					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GCGAAATTAAACAAAGTCACC	0.378													5	56					0	0	1	0	0		G	168105930	G	G	168105930	2	3	49	1	0	0	0	0	0	0	0	1	17456	40	2	3		3	XIRP2	2	168105930	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	843048	168105930	75093443	227	36907											
LRP2	4036	broad.mit.edu	37	chr2	170063685	170063685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgactttaagaagaacaCggcggtaagtagtattgatc	13	11	11	6	2	0	4	0	2	0	2	1	4	0	4	0	2	1	3	0	2	6	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:170063685C>T	uc002ues.2	-	39	6758	c.6545G>A	c.(6544-6546)CGT>CAT	p.R2182H		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2182	LDL-receptor class B 21.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AAGAAGAACACGGCGGTAAGT	0.418													7	79					0	0	1	0	0		T	170063685	T	T	170063685	3	4	49	1	0	0	0	0	1	0	0	0	8974	536	19	1	7586	1	LRP2	2	170063685	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1957755	170063685	73135688	228	36908											
LRP2	4036	broad.mit.edu	37	chr2	170103435	170103435	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgctggaaatttggcacCgggaagcagaagtggctgca	11	7	14	9	2	0	1	0	0	0	1	1	3	0	3	1	4	2	5	1	4	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:170103435C>T	uc002ues.2	-	21	3183	c.2970G>A	c.(2968-2970)CCG>CCA	p.P990P	LRP2_uc010zdf.1_Silent_p.P853P	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	990	EGF-like 4.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AATTTGGCACCGGGAAGCAGA	0.542													6	57					0	0	1	0	0		T	170103435	T	T	170103435	2	4	49	1	0	0	0	0	0	0	0	1	8974	639	23	1		1	LRP2	2	170103435	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	39750	170103435	73095938	229	36909											
GORASP2	26003	broad.mit.edu	37	chr2	171807902	171807902	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgaaactgtatgtgtacaAcacagacactgataactgtc	15	11	7	8	0	0	3	0	2	0	1	1	3	0	3	0	0	4	2	0	0	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:171807902A>G	uc002ugk.2	+	5	640	c.500A>G	c.(499-501)AAC>AGC	p.N167S	GORASP2_uc002ugj.2_Missense_Mutation_p.N99S|GORASP2_uc010zdl.1_Missense_Mutation_p.N179S|GORASP2_uc010zdm.1_Missense_Mutation_p.N123S|GORASP2_uc002ugl.2_Missense_Mutation_p.N99S	NM_015530	NP_056345	Q9H8Y8	GORS2_HUMAN	golgi reassembly stacking protein 2	167						Golgi membrane				breast(1)|central_nervous_system(1)	2						TATGTGTACAACACAGACACT	0.388													8	74					0	0	1	0	0		G	171807902	G	G	171807902	3	3	49	1	0	0	0	0	1	0	0	0	6591	43	2	3	518	3	GORASP2	2	171807902	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1704467	171807902	71391471	230	36910											
HAT1	8520	broad.mit.edu	37	chr2	172844276	172844276	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agactaattagcccatataaGgtaggactttcaagaatctt	15	12	7	7	0	2	2	1	0	1	2	2	3	2	3	1	2	1	1	1	2	7	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:172844276G>T	uc002uhi.2	+	10	1168	c.1092G>T	c.(1090-1092)AAG>AAT	p.K364N	HAT1_uc010fqi.2_Missense_Mutation_p.K199N|HAT1_uc002uhj.2_Missense_Mutation_p.K279N	NM_003642	NP_003633	O14929	HAT1_HUMAN	histone acetyltransferase 1	364					chromatin silencing at telomere|DNA packaging	cytoplasm|nuclear matrix|nucleoplasm	histone acetyltransferase activity|protein binding			large_intestine(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.216)			GCCCATATAAGGTAGGACTTT	0.338													5	47					3.59834e-05	3.74717e-05	1	1	0		T	172844276	T	T	172844276	3	4	49	1	0	0	0	0	1	0	0	0	6980	1014	35	5	1130	5	HAT1	2	172844276	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1036374	172844276	70355097	231	36911											
SCRN3	79634	broad.mit.edu	37	chr2	175263039	175263039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttcctgtgacactttcGtggcattacctccagcaaca	8	14	6	13	1	0	1	0	1	0	0	3	1	2	1	3	1	3	2	3	1	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:175263039G>A	uc002uiq.2	+	2	116	c.28G>A	c.(28-30)GTG>ATG	p.V10M	CIR1_uc002uim.2_5'Flank|CIR1_uc002uin.2_5'Flank|CIR1_uc002uio.2_5'Flank|CIR1_uc002uip.2_5'Flank|SCRN3_uc010zen.1_Intron|SCRN3_uc010zeo.1_Translation_Start_Site|SCRN3_uc002uir.1_RNA	NM_024583	NP_078859	Q0VDG4	SCRN3_HUMAN	secernin 3	10					proteolysis		dipeptidase activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.229)			TGACACTTTCGTGGCATTACC	0.294													8	75					0	0	1	0	0		A	175263039	A	A	175263039	3	1	49	1	0	0	0	0	1	0	0	0	13965	1145	40	1	30	1	SCRN3	2	175263039	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2418763	175263039	67936334	232	36912											
EVX2	344191	broad.mit.edu	37	chr2	176945561	176945561	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcatgcgccggttctggaaCcacacctgcggggagagacg	8	7	14	12	4	2	1	1	0	1	1	2	4	2	3	3	4	3	1	3	4	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:176945561C>T	uc010zeu.1	-	3	891	c.705G>A	c.(703-705)TGG>TGA	p.W235*		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	235	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		GGTTCTGGAACCACACCTGCG	0.672													3	21					0	0	1	0	0		T	176945561	T	T	176945561	4	4	49	1	0	0	0	0	0	1	0	0	5303	508	18	4	727	4	EVX2	2	176945561	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1682522	176945561	66253812	233	36913											
HOXD3	3232	broad.mit.edu	37	chr2	177036780	177036780	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcccggtgtacgtgggCggcaacttcgtcgagtccat	6	8	15	12	5	0	0	0	0	0	0	3	1	1	0	2	4	3	3	2	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:177036780C>T	uc002ukt.1	+	3	1253	c.1077C>T	c.(1075-1077)GGC>GGT	p.G359G		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	359					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		TGTACGTGGGCGGCAACTTCG	0.697													6	11					0	0	1	0	0		T	177036780	T	T	177036780	2	4	49	1	0	0	0	0	0	0	0	1	7339	755	27	1		1	HOXD3	2	177036780	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	91219	177036780	66162593	234	36914											
HOXD1	3231	broad.mit.edu	37	chr2	177054563	177054563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgagtatggggccgctaGcccctccagcgcgatccgca	6	5	13	17	6	0	0	0	0	0	0	2	2	2	0	6	2	2	3	6	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:177054563G>A	uc002ukv.3	+	2	903	c.680G>A	c.(679-681)AGC>AAC	p.S227N	HOXD1_uc010fqy.2_Silent_p.*271*|HOXD1_uc010zez.1_Missense_Mutation_p.S227N	NM_024501	NP_078777	Q9GZZ0	HXD1_HUMAN	homeobox D1	227						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.0226)		GGGGCCGCTAGCCCCTCCAGC	0.557													8	119					0	0	1	0	0		A	177054563	A	A	177054563	3	1	49	1	0	0	0	0	1	0	0	0	7334	971	34	2	686	2	HOXD1	2	177054563	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	17783	177054563	66144810	235	36915											
TTN	7273	broad.mit.edu	37	chr2	179430621	179430621	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taaatggctccttctgtaagGttttccactttaaaacttgt	10	17	6	8	0	1	0	0	0	1	0	3	0	3	0	2	2	1	3	2	2	5	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:179430621G>A	uc010zfg.1	-	275	72758	c.72534C>T	c.(72532-72534)AAC>AAT	p.N24178N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.N17873N|TTN_uc010zfi.1_Silent_p.N17806N|TTN_uc010zfj.1_Silent_p.N17681N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25105							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTCTGTAAGGTTTTCCACTT	0.398													11	127					0	0	1	0	0		A	179430621	A	A	179430621	2	1	49	1	0	0	0	0	0	0	0	1	16761	1252	44	4		4	TTN	2	179430621	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2376058	179430621	63768752	236	36916											
TTN	7273	broad.mit.edu	37	chr2	179438533	179438533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaaaatgtgtttagcaaagCcaccaggattagtcgctgta	13	11	10	7	1	0	1	0	1	0	0	1	2	0	2	2	1	2	4	2	1	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:179438533C>T	uc010zfg.1	-	275	64846	c.64622G>A	c.(64621-64623)GGC>GAC	p.G21541D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G15236D|TTN_uc010zfi.1_Missense_Mutation_p.G15169D|TTN_uc010zfj.1_Missense_Mutation_p.G15044D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22468							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTAGCAAAGCCACCAGGATT	0.398													17	39					0	0	1	0	0		T	179438533	T	T	179438533	3	4	49	1	0	0	0	0	1	0	0	0	16761	739	26	2	35801	2	TTN	2	179438533	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	7912	179438533	63760840	237	36917											
TTN	7273	broad.mit.edu	37	chr2	179440424	179440424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtggaataagatttccGtgttgcttcacgtttctcta	7	16	10	8	2	2	1	1	0	1	1	4	2	3	2	1	2	1	4	1	2	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:179440424G>A	uc010zfg.1	-	275	62955	c.62731C>T	c.(62731-62733)CGG>TGG	p.R20911W	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R14606W|TTN_uc010zfi.1_Missense_Mutation_p.R14539W|TTN_uc010zfj.1_Missense_Mutation_p.R14414W	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21838							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAAGATTTCCGTGTTGCTTCA	0.448													15	41					0	0	1	0	0		A	179440424	A	A	179440424	3	1	49	1	0	0	0	0	1	0	0	0	16761	1144	40	1	37692	1	TTN	2	179440424	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1891	179440424	63758949	238	36918											
TTN	7273	broad.mit.edu	37	chr2	179452031	179452031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgcctcacgtttctccaCgatataatgtgtcacttggc	7	14	8	12	2	4	0	2	0	2	0	5	1	4	0	2	1	1	1	2	1	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:179452031C>T	uc010zfg.1	-	256	56427	c.56203G>A	c.(56203-56205)GTG>ATG	p.V18735M	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V12430M|TTN_uc010zfi.1_Missense_Mutation_p.V12363M|TTN_uc010zfj.1_Missense_Mutation_p.V12238M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19662							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CGTTTCTCCACGATATAATGT	0.458													4	22					0	0	1	0	0		T	179452031	T	T	179452031	3	4	49	1	0	0	0	0	1	0	0	0	16761	536	19	1	44296	1	TTN	2	179452031	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	11607	179452031	63747342	239	36919											
TTN	7273	broad.mit.edu	37	chr2	179516199	179516199	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttagcaggtggggcttcTggctttttgggaaccaccag	6	12	13	10	0	1	0	0	0	1	0	1	1	1	1	3	5	2	3	3	5	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:179516199T>C	uc010zfg.1	-	161	32450	c.32226A>G	c.(32224-32226)CCA>CCG	p.P10742P	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc010fre.1_Intron|TTN_uc002umw.1_RNA|TTN_uc002umx.1_5'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11669							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTGGGGCTTCTGGCTTTTTGG	0.478													8	39					0	0	1	0	0		C	179516199	C	C	179516199	2	2	49	1	0	0	0	0	0	0	0	1	16761	1567	55	3		3	TTN	2	179516199	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	64168	179516199	63683174	240	36920											
TTN	7273	broad.mit.edu	37	chr2	179596108	179596108	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagacatatttcccatcatgCttgacttcaatgccactgag	11	12	6	12	0	2	3	2	2	0	1	3	3	3	3	2	0	2	1	2	0	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:179596108C>A	uc010zfg.1	-	56	13877	c.13653G>T	c.(13651-13653)AAG>AAT	p.K4551N	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K1212N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5478							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCCCATCATGCTTGACTTCAA	0.408													18	267					1.01871e-10	1.09895e-10	1	1	0		A	179596108	A	A	179596108	3	1	49	1	0	0	0	0	1	0	0	0	16761	796	28	5	87360	5	TTN	2	179596108	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	79909	179596108	63603265	241	36921											
TTN	7273	broad.mit.edu	37	chr2	179606044	179606044	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaagctgcttgttttctttGaaccatgtaacagtaggggc	10	13	10	8	0	1	1	0	1	1	0	1	1	1	1	1	2	4	5	1	2	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:179606044G>A	uc010zfh.1	-	46	11627	c.11403C>T	c.(11401-11403)TTC>TTT	p.F3801F	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Silent_p.F3734F|TTN_uc010zfj.1_Silent_p.F3609F|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGTTTTCTTTGAACCATGTAA	0.443													15	136					0	0	1	0	0		A	179606044	A	A	179606044	2	1	49	1	0	0	0	0	0	0	0	1	16761	1281	45	4		4	TTN	2	179606044	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	9936	179606044	63593329	242	36922											
CCDC141	285025	broad.mit.edu	37	chr2	179732925	179732925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctcttgatttgatgagaCgtcccagctacaatttaggg	9	13	10	9	1	1	3	0	3	1	1	3	4	2	3	1	1	2	2	1	1	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:179732925C>T	uc002unf.1	-	6	734	c.677G>A	c.(676-678)CGT>CAT	p.R226H		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	226							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			TTTGATGAGACGTCCCAGCTA	0.418													25	40					0	0	1	0	0		T	179732925	T	T	179732925	3	4	49	1	0	0	0	0	1	0	0	0	2778	536	19	1	1982	1	CCDC141	2	179732925	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	126881	179732925	63466448	243	36923											
CERKL	375298	broad.mit.edu	37	chr2	182423344	182423344	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgacaggagtcaggattcGgtctgtttccatcccagcat	8	12	10	11	1	3	1	1	1	2	0	6	3	5	3	2	3	1	2	2	3	0	2	rs121909398	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:182423344G>A	uc002unx.2	-	6	948	c.847C>T	c.(847-849)CGA>TGA	p.R283*	CERKL_uc002uny.2_Nonsense_Mutation_p.R257*|CERKL_uc010zfm.1_Nonsense_Mutation_p.R239*|CERKL_uc002unz.2_Nonsense_Mutation_p.R5*|CERKL_uc002uoa.2_Intron|CERKL_uc002uob.2_Nonsense_Mutation_p.R5*|CERKL_uc002uoc.2_Intron|CERKL_uc010frk.2_RNA|CERKL_uc002uod.1_Nonsense_Mutation_p.R52*|CERKL_uc002uoe.2_Nonsense_Mutation_p.R257*	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	283	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			GTCAGGATTCGGTCTGTTTCC	0.483													4	74					0	0	1	0	0		A	182423344	A	A	182423344	4	1	49	1	0	0	0	0	0	1	0	0	3271	1124	39	1	865	1	CERKL	2	182423344	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2690419	182423344	60776029	244	36924											
NEUROD1	4760	broad.mit.edu	37	chr2	182542664	182542664	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggctttgggcccctgcCagtgtcgctgcaggatagtg	4	10	15	12	2	0	0	0	0	0	0	1	1	0	1	4	3	2	3	4	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:182542664C>T	uc002uof.2	-	2	1160	c.924G>A	c.(922-924)CTG>CTA	p.L308L	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	308					amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			GGGCCCCTGCCAGTGTCGCTG	0.522													8	51					0	0	1	0	0		T	182542664	T	T	182542664	2	4	49	1	0	0	0	0	0	0	0	1	10367	581	21	4		4	NEUROD1	2	182542664	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	119320	182542664	60656709	245	36925											
NCKAP1	10787	broad.mit.edu	37	chr2	183902820	183902820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgggctgcagcactgagCgcgacatggtggtgctggtg	6	8	18	9	2	0	1	0	1	0	0	0	3	0	1	0	4	4	4	0	4	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:183902820C>T	uc002upc.2	-	1	410	c.8G>A	c.(7-9)CGC>CAC	p.R3H	NCKAP1_uc002upb.2_Missense_Mutation_p.R3H	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	3					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			CAGCACTGAGCGCGACATGGT	0.557													4	14					0	0	1	0	0		T	183902820	T	T	183902820	3	4	49	1	0	0	0	0	1	0	0	0	10240	768	27	1	3524	1	NCKAP1	2	183902820	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1360156	183902820	59296553	246	36926											
FAM171B	165215	broad.mit.edu	37	chr2	187605049	187605049	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgtttgtaaactacacgaaGacaaattccacagtaactaa	17	10	6	8	1	0	1	0	0	0	1	1	2	1	1	1	0	3	3	1	0	7	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:187605049G>A	uc002ups.2	+	2	445	c.333G>A	c.(331-333)AAG>AAA	p.K111K	FAM171B_uc002upr.1_Silent_p.K111K	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	111	Extracellular (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						ACTACACGAAGACAAATTCCA	0.388													4	58					0	0	1	0	0		A	187605049	A	A	187605049	2	1	49	1	0	0	0	0	0	0	0	1	5502	933	33	4		4	FAM171B	2	187605049	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3702229	187605049	55594324	247	36927											
FAM171B	165215	broad.mit.edu	37	chr2	187615864	187615864	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtcttcttttataggttTtgaaaacattgaattgactc	11	18	6	6	0	2	3	0	3	2	0	3	3	2	3	0	1	1	1	0	1	5	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:187615864T>C	uc002ups.2	+	5	840	c.728T>C	c.(727-729)TTT>TCT	p.F243S	FAM171B_uc002upr.1_Missense_Mutation_p.F243S	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	243	Extracellular (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						TTTATAGGTTTTGAAAACATT	0.308													9	97					0	0	1	0	0		C	187615864	C	C	187615864	3	2	49	1	0	0	0	0	1	0	0	0	5502	1841	64	3	746	3	FAM171B	2	187615864	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	10815	187615864	55583509	248	36928											
COL5A2	1290	broad.mit.edu	37	chr2	189927974	189927974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagcctggaggacctggaCggccatcttcccctggcgca	6	7	14	14	2	1	0	0	0	1	0	2	4	2	4	5	6	1	1	5	6	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:189927974C>T	uc002uqk.2	-	27	2068	c.1793G>A	c.(1792-1794)CGT>CAT	p.R598H	COL5A2_uc010frx.2_Missense_Mutation_p.R174H	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	598					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			AGGACCTGGACGGCCATCTTC	0.512													4	84					0	0	1	0	0		T	189927974	T	T	189927974	3	4	49	1	0	0	0	0	1	0	0	0	3700	536	19	1	2818	1	COL5A2	2	189927974	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2312110	189927974	53271399	249	36929											
STAT4	6775	broad.mit.edu	37	chr2	191897688	191897688	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacagaaaaacctaaccttcGcaaggctgagagctgtagtg	15	7	10	9	1	0	2	0	1	0	2	1	3	0	2	2	1	4	4	2	1	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:191897688G>A	uc002usm.1	-	21	2294	c.2040C>T	c.(2038-2040)TGC>TGT	p.C680C	STAT4_uc002usn.1_Silent_p.C680C|STAT4_uc010zgk.1_Silent_p.C525C|STAT4_uc002uso.2_Silent_p.C680C	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	680					JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			CCTAACCTTCGCAAGGCTGAG	0.363													9	59					0	0	1	0	0		A	191897688	A	A	191897688	2	1	49	1	0	0	0	0	0	0	0	1	15292	1079	38	1		1	STAT4	2	191897688	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1969714	191897688	51301685	250	36930											
SDPR	8436	broad.mit.edu	37	chr2	192701019	192701019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcatggctttctccctctCggactttcttccgcccgaaa	5	13	7	16	3	3	0	0	0	3	0	6	2	4	1	3	2	1	2	3	2	1	3	rs146564406		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:192701019C>T	uc002utb.2	-	2	1238	c.908G>A	c.(907-909)CGA>CAA	p.R303Q		NM_004657	NP_004648	O95810	SDPR_HUMAN	serum deprivation response protein	303						caveola|cytosol	phosphatidylserine binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0647)		Phosphatidylserine(DB00144)	TTCTCCCTCTCGGACTTTCTT	0.483													34	74					0	0	1	0	0		T	192701019	T	T	192701019	3	4	49	1	0	0	0	0	1	0	0	0	13995	884	31	1	373	1	SDPR	2	192701019	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	803331	192701019	50498354	251	36931											
MOBKL3	25843	broad.mit.edu	37	chr2	198415089	198415089	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catgcttattttcatcatcgGcagatatttgatgaatatga	12	16	7	6	1	2	4	2	3	0	1	3	4	2	4	0	1	1	2	0	1	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:198415089G>A	uc002uun.3	+	7	565	c.525G>A	c.(523-525)CGG>CGA	p.R175R	MOBKL3_uc002uum.3_Silent_p.R143R|MOBKL3_uc010fsn.2_Silent_p.R154R|MOBKL3_uc010fso.2_Silent_p.R76R|MOBKL3_uc010zgz.1_Silent_p.R76R	NM_015387	NP_056202	Q9Y3A3	MOBL3_HUMAN	Mps One Binder kinase activator-like 3 isoform	175					transport	Golgi cisterna membrane|perinuclear region of cytoplasm	metal ion binding|protein binding				0			Epithelial(96;0.225)			TTCATCATCGGCAGATATTTG	0.313													6	21					0	0	1	0	0		A	198415089	A	A	198415089	2	1	49	1	0	0	0	0	0	0	0	1	9705	1190	42	2		2	MOBKL3	2	198415089	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5714070	198415089	44784284	252	36932											
CLK1	1195	broad.mit.edu	37	chr2	201718647	201718647	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagaggtttacagcgtctTgaaacatatctgccggcaga	11	11	10	9	2	3	3	1	1	2	2	3	3	3	3	1	2	4	2	1	2	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:201718647T>C	uc002uwe.2	-	12	1471	c.1290A>G	c.(1288-1290)TCA>TCG	p.S430S	CLK1_uc002uwd.2_Silent_p.S253S|CLK1_uc010zhi.1_Silent_p.S472S|CLK1_uc002uwf.2_Silent_p.S204S|CLK1_uc002uwg.2_Silent_p.S279S|CLK1_uc010fsv.2_RNA	NM_004071	NP_004062	P49759	CLK1_HUMAN	CDC-like kinase 1 isoform 1	430	Protein kinase.				cell proliferation	nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			pancreas(2)	2						TACAGCGTCTTGAAACATATC	0.303													14	105					0	0	1	0	0		C	201718647	C	C	201718647	2	2	49	1	0	0	0	0	0	0	0	1	3539	1799	63	3		3	CLK1	2	201718647	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3303558	201718647	41480726	253	36933											
CASP10	843	broad.mit.edu	37	chr2	202074183	202074183	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccgaggctgacttcctacTtggtctggccactgtcccag	5	11	11	14	1	1	1	0	1	1	0	3	2	3	1	4	3	2	1	4	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:202074183T>G	uc002uxl.1	+	9	1731	c.1313T>G	c.(1312-1314)CTT>CGT	p.L438R	CASP10_uc002uxj.1_Missense_Mutation_p.L438R|CASP10_uc002uxk.1_Missense_Mutation_p.L395R|CASP10_uc010fta.1_Missense_Mutation_p.L371R|CASP10_uc002uxm.1_Missense_Mutation_p.L395R|CASP10_uc010ftb.1_RNA	NM_032974	NP_116756	Q92851	CASPA_HUMAN	caspase 10 isoform b preproprotein	438					apoptosis|induction of apoptosis by extracellular signals|proteolysis	cytosol|plasma membrane	cysteine-type endopeptidase activity|identical protein binding|protein binding			skin(3)|ovary(1)|pancreas(1)|breast(1)	6						GACTTCCTACTTGGTCTGGCC	0.522													25	135					0	0	1	0	0		G	202074183	G	G	202074183	3	3	49	1	0	0	0	0	1	0	0	0	2672	1609	56	5	1343	5	CASP10	2	202074183	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	355536	202074183	41125190	254	36934											
ALS2CR4	65062	broad.mit.edu	37	chr2	202496815	202496815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcctacaggctggctaatgCcagtgggtgcagtgaataca	10	9	13	9	0	0	1	0	1	0	0	0	1	0	1	2	3	5	3	2	3	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:202496815C>T	uc002uyh.1	-	8	613	c.512G>A	c.(511-513)GGC>GAC	p.G171D	ALS2CR4_uc002uyg.1_Missense_Mutation_p.G163D|ALS2CR4_uc010zho.1_5'UTR|ALS2CR4_uc010zhp.1_RNA	NM_001044385	NP_001037850	Q96Q45	TM237_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	195						integral to membrane	protein binding				0						CTGGCTAATGCCAGTGGGTGC	0.398													43	73					0	0	1	0	0		T	202496815	T	T	202496815	3	4	49	1	0	0	0	0	1	0	0	0	554	739	26	2	742	2	ALS2CR4	2	202496815	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	422632	202496815	40702558	255	36935											
NBEAL1	65065	broad.mit.edu	37	chr2	204037566	204037566	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaaaaaaacgccaaagctAtgagagaaaagtaagtgctt	20	7	9	5	1	0	3	0	2	0	1	0	4	0	3	1	0	3	3	1	0	8	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:204037566A>G	uc002uzt.3	+	40	6559	c.6226A>G	c.(6226-6228)ATG>GTG	p.M2076V	NBEAL1_uc002uzs.3_Missense_Mutation_p.M786V	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	2076	BEACH.						binding			ovary(1)|skin(1)	2						CGCCAAAGCTATGAGAGAAAA	0.313													16	38					0	0	1	0	0		G	204037566	G	G	204037566	3	3	49	1	0	0	0	0	1	0	0	0	10206	449	16	3	6380	3	NBEAL1	2	204037566	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1540751	204037566	39161807	256	36936											
NBEAL1	65065	broad.mit.edu	37	chr2	204073415	204073415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagattctttatggacacaCcaacgaggtactgagtgtcg	11	11	10	9	2	2	2	1	1	1	1	3	4	2	3	1	2	2	1	1	2	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:204073415C>T	uc002uzt.3	+	51	7808	c.7475C>T	c.(7474-7476)ACC>ATC	p.T2492I	NBEAL1_uc002uzs.3_Missense_Mutation_p.T1133I|NBEAL1_uc002uzu.2_5'UTR	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	2492	WD 2.						binding			ovary(1)|skin(1)	2						TATGGACACACCAACGAGGTA	0.403													10	81					0	0	1	0	0		T	204073415	T	T	204073415	3	4	49	1	0	0	0	0	1	0	0	0	10206	507	18	4	7673	4	NBEAL1	2	204073415	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	35849	204073415	39125958	257	36937											
PARD3B	117583	broad.mit.edu	37	chr2	205983664	205983664	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattctaggactcttcatcCgaggcattgaagacaacagc	12	9	10	10	1	3	2	1	1	2	1	4	5	4	4	1	3	2	1	1	3	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:205983664C>T	uc002var.1	+	7	907	c.700C>T	c.(700-702)CGA>TGA	p.R234*	PARD3B_uc010fub.1_Nonsense_Mutation_p.R234*|PARD3B_uc002vao.1_Nonsense_Mutation_p.R234*|PARD3B_uc002vap.1_Nonsense_Mutation_p.R234*|PARD3B_uc002vaq.1_Nonsense_Mutation_p.R234*	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	234	PDZ 1.				cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		ACTCTTCATCCGAGGCATTGA	0.338													16	36					0	0	1	0	0		T	205983664	T	T	205983664	4	4	49	1	0	0	0	0	0	1	0	0	11463	644	23	1	726	1	PARD3B	2	205983664	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1910249	205983664	37215709	258	36938											
NDUFS1	4719	broad.mit.edu	37	chr2	207006782	207006782	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattaagaagataattggaaCgcaaatctgtgctagaaata	18	11	8	4	1	1	3	0	0	1	3	1	4	1	4	0	1	2	2	0	1	9	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:207006782C>T	uc002vbe.2	-	12	1272	c.1145G>A	c.(1144-1146)CGT>CAT	p.R382H	NDUFS1_uc010ziq.1_Missense_Mutation_p.R396H|NDUFS1_uc010zir.1_Missense_Mutation_p.R346H|NDUFS1_uc010zis.1_Missense_Mutation_p.R325H|NDUFS1_uc010zit.1_Missense_Mutation_p.R271H|NDUFS1_uc010ziu.1_Missense_Mutation_p.R266H	NM_005006	NP_004997	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1,	382					apoptosis|ATP metabolic process|mitochondrial electron transport, NADH to ubiquinone|reactive oxygen species metabolic process|regulation of mitochondrial membrane potential|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	ATAATTGGAACGCAAATCTGT	0.338													3	48					0	0	1	0	0		T	207006782	T	T	207006782	3	4	49	1	0	0	0	0	1	0	0	0	10310	536	19	1	1070	1	NDUFS1	2	207006782	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1023118	207006782	36192591	259	36939											
GPR1	2825	broad.mit.edu	37	chr2	207041587	207041587	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtccaggctgatcactgTcaggaaaaaaacactggcaa	14	7	11	9	0	2	1	2	1	0	0	3	2	3	2	1	4	1	2	1	4	4	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:207041587T>C	uc002vbl.3	-	3	771	c.385A>G	c.(385-387)ACA>GCA	p.T129A	GPR1_uc010fue.2_Missense_Mutation_p.T129A|GPR1_uc010fuf.2_Missense_Mutation_p.T129A	NM_005279	NP_005270	P46091	GPR1_HUMAN	G protein-coupled receptor 1	129	Helical; Name=3; (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0		Lung NSC(271;7.93e-06)|Renal(323;0.000147)|Hepatocellular(293;0.000888)		UCEC - Uterine corpus endometrioid carcinoma (47;0.000241)|Epithelial(149;1.91e-37)|STAD - Stomach adenocarcinoma(1183;0.00178)|Lung(261;0.111)|LUSC - Lung squamous cell carcinoma(261;0.184)		CTGATCACTGTCAGGAAAAAA	0.458													6	96					0	0	1	0	0		C	207041587	C	C	207041587	3	2	49	1	0	0	0	0	1	0	0	0	6636	1667	58	3	686	3	GPR1	2	207041587	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	34805	207041587	36157786	260	36940											
ZDBF2	57683	broad.mit.edu	37	chr2	207171520	207171520	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacttttgattctgacccGcctcttctgtcagttactga	6	17	7	11	1	4	4	1	4	3	0	4	4	4	4	2	0	1	1	2	0	1	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:207171520G>A	uc002vbp.2	+	5	2518	c.2268G>A	c.(2266-2268)CCG>CCA	p.P756P		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	756							nucleic acid binding|zinc ion binding			ovary(3)	3						ATTCTGACCCGCCTCTTCTGT	0.418													21	217					0	0	1	0	0		A	207171520	A	A	207171520	2	1	49	1	0	0	0	0	0	0	0	1	17624	1074	38	1		1	ZDBF2	2	207171520	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	129933	207171520	36027853	261	36941											
CRYGC	1420	broad.mit.edu	37	chr2	208994365	208994365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggcagtcagtggtggtttCgtagctgcggccctggaagg	5	9	19	8	2	1	0	1	0	0	0	2	1	1	1	1	7	2	4	1	7	2	2	rs145041511		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:208994365C>T	uc002vco.3	-	2	90	c.52G>A	c.(52-54)GAA>AAA	p.E18K		NM_020989	NP_066269	P07315	CRGC_HUMAN	crystallin, gamma C	18	Beta/gamma crystallin 'Greek key' 1.				visual perception	cytoplasm|nucleus	protein binding|structural constituent of eye lens				0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.0858)|Lung(261;0.133)		GTGGTGGTTTCGTAGCTGCGG	0.522													58	143					0	0	1	0	0		T	208994365	T	T	208994365	3	4	49	1	0	0	0	0	1	0	0	0	3919	893	31	1	480	1	CRYGC	2	208994365	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1822845	208994365	34205008	262	36942											
PIKFYVE	200576	broad.mit.edu	37	chr2	209138324	209138324	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acagagagagcagaaggaggCcagggagaacagcagccttt	15	3	15	8	0	0	4	0	0	0	4	0	7	0	5	2	3	4	2	2	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:209138324C>T	uc002vcz.2	+	3	347	c.189C>T	c.(187-189)GGC>GGT	p.G63G	PIKFYVE_uc010fun.1_5'UTR|PIKFYVE_uc002vcy.1_Silent_p.G63G|PIKFYVE_uc002vcv.2_Silent_p.G63G|PIKFYVE_uc002vcw.2_Silent_p.G63G|PIKFYVE_uc002vcx.2_Silent_p.G63G	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	63					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						CAGAAGGAGGCCAGGGAGAAC	0.473													7	64					0	0	1	0	0		T	209138324	T	T	209138324	2	4	49	1	0	0	0	0	0	0	0	1	11943	726	26	2		2	PIKFYVE	2	209138324	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	143959	209138324	34061049	263	36943											
PIKFYVE	200576	broad.mit.edu	37	chr2	209209854	209209854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtaaagaataccgaaatGccttagaggaattgtctaaa	16	11	9	5	1	1	2	0	0	1	2	1	4	1	3	2	1	2	2	2	1	9	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:209209854G>A	uc002vcz.2	+	33	5205	c.5047G>A	c.(5047-5049)GCC>ACC	p.A1683T		NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1683					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						ATACCGAAATGCCTTAGAGGA	0.338													5	50					0	0	1	0	0		A	209209854	A	A	209209854	3	1	49	1	0	0	0	0	1	0	0	0	11943	1319	46	2	5184	2	PIKFYVE	2	209209854	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	71530	209209854	33989519	264	36944											
C2orf67	151050	broad.mit.edu	37	chr2	210887888	210887888	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcagtggaaaagcccgtcGttcccaccacaaagactgaa	13	7	8	13	2	1	2	1	1	0	1	3	3	2	3	3	1	1	1	3	1	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:210887888G>A	uc002vds.2	-	15	2957	c.2749C>T	c.(2749-2751)CGA>TGA	p.R917*	C2orf67_uc002vdt.2_Nonsense_Mutation_p.R875*	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	917										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		AAAGCCCGTCGTTCCCACCAC	0.378													10	25					0	0	1	0	0		A	210887888	A	A	210887888	4	1	49	1	0	0	0	0	0	1	0	0	2189	1153	40	1	218	1	C2orf67	2	210887888	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1678034	210887888	32311485	265	36945											
MYL1	4632	broad.mit.edu	37	chr2	211179636	211179636	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttcatccatttagttaccTtaatggcagagaggtcaatt	12	14	8	7	0	2	1	2	0	0	1	3	2	3	1	2	2	1	3	2	2	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:211179636T>G	uc002vec.2	-	1	260	c.131A>C	c.(130-132)AAG>ACG	p.K44T		NM_079420	NP_524144	P05976	MYL1_HUMAN	fast skeletal myosin alkali light chain 1	44					muscle filament sliding|muscle organ development	cytosol|muscle myosin complex|sarcomere	calcium ion binding|structural constituent of muscle			ovary(1)	1				Epithelial(149;0.00573)|Lung(261;0.0422)|LUSC - Lung squamous cell carcinoma(261;0.0444)|all cancers(144;0.057)		TTTAGTTACCTTAATGGCAGA	0.318													25	153					0	0	1	0	0		G	211179636	G	G	211179636	3	3	49	1	0	0	0	0	1	0	0	0	10061	1623	56	5	513	5	MYL1	2	211179636	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	291748	211179636	32019737	266	36946											
CPS1	1373	broad.mit.edu	37	chr2	211442163	211442163	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtttcaggtttgctggtgCtggattatagtaaagactac	10	14	12	5	0	1	1	1	0	0	1	1	2	1	2	0	4	3	5	0	4	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:211442163C>T	uc002vee.3	+	4	532	c.400C>T	c.(400-402)CTG>TTG	p.L134L	CPS1_uc010fur.2_Silent_p.L140L	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	134	Anthranilate phosphoribosyltransferase homolog.				carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		TTTGCTGGTGCTGGATTATAG	0.383													37	100					0	0	1	0	0		T	211442163	T	T	211442163	2	4	49	1	0	0	0	0	0	0	0	1	3826	796	28	2		2	CPS1	2	211442163	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	262527	211442163	31757210	267	36947											
SMARCAL1	50485	broad.mit.edu	37	chr2	217285159	217285159	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttcatttgtcaaagggCgatgcatgctcatctccagg	8	12	9	12	1	4	0	3	0	1	0	5	1	4	0	2	2	2	2	2	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:217285159C>T	uc002vgc.3	+	5	1330	c.1000C>T	c.(1000-1002)CGA>TGA	p.R334*	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Nonsense_Mutation_p.R334*|SMARCAL1_uc010fvg.2_Nonsense_Mutation_p.R334*	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	334					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		TGTCAAAGGGCGATGCATGCT	0.527									Schimke_Immuno-Osseous_Dysplasia				9	54					0	0	1	0	0		T	217285159	T	T	217285159	4	4	49	1	0	0	0	0	0	1	0	0	14798	760	27	1	1010	1	SMARCAL1	2	217285159	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5842996	217285159	25914214	268	36948											
CXCR2	3579	broad.mit.edu	37	chr2	219000083	219000083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttacttttccgaaggaccGtctactcatccaatgttagc	9	14	6	12	2	3	0	1	0	2	0	5	2	5	1	3	1	3	1	3	1	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:219000083G>A	uc002vgz.1	+	4	784	c.559G>A	c.(559-561)GTC>ATC	p.V187I	CXCR2_uc002vha.1_Missense_Mutation_p.V187I|CXCR2_uc002vhb.1_Missense_Mutation_p.V187I	NM_001557	NP_001548	P25025	CXCR2_HUMAN	interleukin 8 receptor beta	187	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cellular defense response|dendritic cell chemotaxis|inflammatory response|neutrophil activation|neutrophil chemotaxis|positive regulation of cell proliferation	cell surface|integral to plasma membrane|mast cell granule	interleukin-8 receptor activity			lung(1)|breast(1)	2						CCGAAGGACCGTCTACTCATC	0.527													10	77					0	0	1	0	0		A	219000083	A	A	219000083	3	1	49	1	0	0	0	0	1	0	0	0	4094	1145	40	1	561	1	CXCR2	2	219000083	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1714924	219000083	24199290	269	36949											
TTLL4	9654	broad.mit.edu	37	chr2	219614016	219614016	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgctcaagatgtatgtgCgacggccctatagctgccat	8	10	11	12	2	1	1	1	0	0	1	1	2	1	1	3	1	4	3	3	1	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:219614016C>T	uc002viy.2	+	14	3011	c.2641C>T	c.(2641-2643)CGA>TGA	p.R881*	TTLL4_uc010zkl.1_Nonsense_Mutation_p.R716*|TTLL4_uc010fvx.2_Nonsense_Mutation_p.R817*|TTLL4_uc010zkm.1_Nonsense_Mutation_p.R84*	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	881	TTL.				protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		GATGTATGTGCGACGGCCCTA	0.527													20	76					0	0	1	0	0		T	219614016	T	T	219614016	4	4	49	1	0	0	0	0	0	1	0	0	16755	760	27	1	2687	1	TTLL4	2	219614016	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	613933	219614016	23585357	270	36950											
TTLL4	9654	broad.mit.edu	37	chr2	219617636	219617636	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcttttttgagcagccaCgatatttcaacattctcacc	9	14	5	13	2	2	1	2	1	1	0	4	2	3	1	3	0	3	2	3	0	2	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:219617636C>T	uc002viy.2	+	17	3497	c.3127C>T	c.(3127-3129)CGA>TGA	p.R1043*	TTLL4_uc010zkl.1_Nonsense_Mutation_p.R878*|TTLL4_uc010fvx.2_Nonsense_Mutation_p.R979*|TTLL4_uc010zkm.1_Nonsense_Mutation_p.R246*	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	1043					protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		TGAGCAGCCACGATATTTCAA	0.458													22	82					0	0	1	0	0		T	219617636	T	T	219617636	4	4	49	1	0	0	0	0	0	1	0	0	16755	528	19	1	3185	1	TTLL4	2	219617636	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3620	219617636	23581737	271	36951											
CYP27A1	1593	broad.mit.edu	37	chr2	219679346	219679346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaagcttccagccccacCgctggctgagaaacagccag	11	5	10	15	1	0	2	0	2	0	1	1	3	1	2	5	1	4	3	5	1	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:219679346C>T	uc002viz.3	+	8	1776	c.1342C>T	c.(1342-1344)CGC>TGC	p.R448C		NM_000784	NP_000775	Q02318	CP27A_HUMAN	cytochrome P450, family 27, subfamily A,	448					bile acid biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	cholestanetriol 26-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;9.48e-07)|all cancers(144;0.000171)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00981)	Cholecalciferol(DB00169)	CCAGCCCCACCGCTGGCTGAG	0.607													3	54					0	0	1	0	0		T	219679346	T	T	219679346	3	4	49	1	0	0	0	0	1	0	0	0	4161	652	23	1	1372	1	CYP27A1	2	219679346	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	61710	219679346	23520027	272	36952											
SPEG	10290	broad.mit.edu	37	chr2	220347929	220347929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagaaggccaccccccaGtggggggctctcatcctcct	6	6	11	18	0	1	1	1	0	1	1	4	1	3	1	7	4	0	1	7	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:220347929G>A	uc010fwg.2	+	30	5744	c.5744G>A	c.(5743-5745)AGT>AAT	p.S1915N		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1915					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CCACCCCCCAGTGGGGGGCTC	0.672													3	15					0	0	1	0	0		A	220347929	A	A	220347929	3	1	49	1	0	0	0	0	1	0	0	0	15061	1029	36	4	5874	4	SPEG	2	220347929	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	668583	220347929	22851444	273	36953											
SPEG	10290	broad.mit.edu	37	chr2	220355154	220355154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgctttggtgttgtgcgagCgtgccgggagaatgccacgg	5	9	17	10	5	0	1	0	0	0	1	0	3	0	1	3	3	4	2	3	3	1	2	rs77554911	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:220355154C>T	uc010fwg.2	+	37	8945	c.8945C>T	c.(8944-8946)GCG>GTG	p.A2982V		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2982	Protein kinase 2.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GTTGTGCGAGCGTGCCGGGAG	0.662													19	43					0	0	1	0	0		T	220355154	T	T	220355154	3	4	49	1	0	0	0	0	1	0	0	0	15061	768	27	1	9103	1	SPEG	2	220355154	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	7225	220355154	22844219	274	36954											
GMPPA	29926	broad.mit.edu	37	chr2	220370455	220370455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaatgtgtacatccaccCgaccgccaaggtggccccct	9	6	11	15	2	0	0	0	0	0	0	1	2	1	1	6	3	1	1	6	3	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:220370455C>T	uc002vlr.2	+	10	940	c.872C>T	c.(871-873)CCG>CTG	p.P291L	GMPPA_uc002vls.2_Missense_Mutation_p.P291L|GMPPA_uc002vlt.2_Missense_Mutation_p.P344L|GMPPA_uc002vlu.2_Missense_Mutation_p.P344L|GMPPA_uc002vlv.2_Missense_Mutation_p.P291L|GMPPA_uc002vlw.2_RNA|GMPPA_uc002vlx.2_Missense_Mutation_p.P291L	NM_013335	NP_037467	Q96IJ6	GMPPA_HUMAN	GDP-mannose pyrophosphorylase A	291					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0		Renal(207;0.0183)		Epithelial(149;3.82e-10)|all cancers(144;6.25e-08)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00807)|READ - Rectum adenocarcinoma(5;0.148)		TACATCCACCCGACCGCCAAG	0.602													15	45					0	0	1	0	0		T	220370455	T	T	220370455	3	4	49	1	0	0	0	0	1	0	0	0	6509	652	23	1	906	1	GMPPA	2	220370455	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	15301	220370455	22828918	275	36955											
OBSL1	23363	broad.mit.edu	37	chr2	220432656	220432656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcattctctccttccaggaCgtcgagcttccggggcaggc	6	9	12	14	3	1	0	0	0	1	0	6	2	4	1	3	4	2	3	3	4	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:220432656C>T	uc010fwk.2	-	3	1375	c.1318G>A	c.(1318-1320)GTC>ATC	p.V440I	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Missense_Mutation_p.V440I|OBSL1_uc002vmj.2_Missense_Mutation_p.V27I	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	440					cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		CCTTCCAGGACGTCGAGCTTC	0.632													12	22					0	0	1	0	0		T	220432656	T	T	220432656	3	4	49	1	0	0	0	0	1	0	0	0	10832	536	19	1	4600	1	OBSL1	2	220432656	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	62201	220432656	22766717	276	36956											
KCNE4	23704	broad.mit.edu	37	chr2	223917920	223917920	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttccatggaaggggacagCgtgagctccgagtcctcctc	7	9	13	12	2	0	1	0	1	0	0	5	4	4	3	4	3	2	2	4	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:223917920C>T	uc002vnl.3	+	2	526	c.372C>T	c.(370-372)AGC>AGT	p.S124S		NM_080671	NP_542402	Q8WWG9	KCNE4_HUMAN	potassium voltage-gated channel, Isk-related	124	Cytoplasmic (Potential).					integral to membrane	voltage-gated potassium channel activity			ovary(1)	1		Renal(207;0.0183)|Lung NSC(271;0.137)|all_lung(227;0.175)		Epithelial(121;4.48e-11)|all cancers(144;2.88e-08)|Lung(261;0.00688)|LUSC - Lung squamous cell carcinoma(224;0.008)		AAGGGGACAGCGTGAGCTCCG	0.662													8	47					0	0	1	0	0		T	223917920	T	T	223917920	2	4	49	1	0	0	0	0	0	0	0	1	8041	767	27	1		1	KCNE4	2	223917920	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3485264	223917920	19281453	277	36957											
CUL3	8452	broad.mit.edu	37	chr2	225367719	225367719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgcctgaattcatccatcGttgtgtttgagatgctcata	8	16	9	8	1	2	2	2	2	0	1	4	3	3	2	2	0	2	4	2	0	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:225367719G>A	uc002vny.2	-	10	1832	c.1448C>T	c.(1447-1449)ACG>ATG	p.T483M	CUL3_uc010zls.1_Missense_Mutation_p.T417M|CUL3_uc010fwy.1_Missense_Mutation_p.T489M|CUL3_uc002vnz.1_5'Flank	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	483					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		TTCATCCATCGTTGTGTTTGA	0.363													87	223					0	0	1	0	0		A	225367719	A	A	225367719	3	1	49	1	0	0	0	0	1	0	0	0	4059	1145	40	1	886	1	CUL3	2	225367719	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1449799	225367719	17831654	278	36958											
IRS1	3667	broad.mit.edu	37	chr2	227663053	227663053	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggagctgccgctgcagctGcccccaccacctcccgcccc	4	4	9	24	3	0	0	0	0	0	0	1	1	1	1	9	1	5	4	9	1	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:227663053G>A	uc002voh.3	-	1	454	c.402C>T	c.(400-402)GGC>GGT	p.G134G		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	134	Poly-Gly.|Mediates interaction with PHIP (By similarity).			G -> GG (in Ref. 2; AAB21608).	fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		CGCTGCAGCTGCCCCCACCAC	0.667											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	41					0	0	1	0	0		A	227663053	A	A	227663053	2	1	49	1	0	0	0	0	0	0	0	1	7856	1306	46	2		2	IRS1	2	227663053	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2295334	227663053	15536320	279	36959											
COL4A3	1285	broad.mit.edu	37	chr2	228175562	228175562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctgcctggaagaattccGagccagcccatttctagaat	10	10	8	13	1	1	2	0	0	1	2	3	4	3	3	5	1	3	0	5	1	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:228175562G>A	uc002vom.1	+	51	4988	c.4826G>A	c.(4825-4827)CGA>CAA	p.R1609Q	COL4A3_uc002von.1_Intron|COL4A3_uc002voo.1_Intron|COL4A3_uc002vop.1_Intron|uc002voq.1_Intron|uc002vor.1_Intron|COL4A3_uc010fxf.1_Missense_Mutation_p.R25Q	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	1609	Collagen IV NC1.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		GAAGAATTCCGAGCCAGCCCA	0.463													18	67					0	0	1	0	0		A	228175562	A	A	228175562	3	1	49	1	0	0	0	0	1	0	0	0	3694	1058	37	1	5028	1	COL4A3	2	228175562	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	512509	228175562	15023811	280	36960											
SP110	3431	broad.mit.edu	37	chr2	231042313	231042313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attccgtttccagttctttgCgttccttccttttccttcga	3	20	5	13	3	1	0	0	0	1	0	7	1	6	0	5	0	1	3	5	0	0	9			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:231042313C>T	uc002vqh.3	-	14	1771	c.1531G>A	c.(1531-1533)GCA>ACA	p.A511T	SP110_uc002vqg.3_Missense_Mutation_p.A511T|SP110_uc002vqi.3_Missense_Mutation_p.A511T|SP110_uc010fxk.2_Missense_Mutation_p.A509T|SP110_uc010fxj.2_Missense_Mutation_p.A154T	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	511	SAND.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		CAGTTCTTTGCGTTCCTTCCT	0.428													97	214					0	0	1	0	0		T	231042313	T	T	231042313	3	4	49	1	0	0	0	0	1	0	0	0	14986	768	27	1	698	1	SP110	2	231042313	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2866751	231042313	12157060	281	36961											
HDAC4	9759	broad.mit.edu	37	chr2	240056289	240056289	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcgatgtgtagaggggAagtggagcggccgagccttc	8	7	19	7	3	0	1	0	0	0	1	1	6	0	3	2	5	2	1	2	5	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:240056289A>G	uc002vyk.3	-	10	1821	c.1029T>C	c.(1027-1029)CTT>CTC	p.L343L	HDAC4_uc010fyz.1_Silent_p.L338L|HDAC4_uc010zoa.1_Silent_p.L338L|HDAC4_uc010fza.2_Silent_p.L343L|HDAC4_uc010fyy.2_Silent_p.L295L|HDAC4_uc010znz.1_Silent_p.L226L|HDAC4_uc010fzb.1_RNA	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	343					B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		TGTAGAGGGGAAGTGGAGCGG	0.627													15	59					0	0	1	0	0		G	240056289	G	G	240056289	2	3	49	1	0	0	0	0	0	0	0	1	7025	233	9	3		3	HDAC4	2	240056289	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	9013976	240056289	3143084	282	36962											
ANKMY1	51281	broad.mit.edu	37	chr2	241463640	241463640	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggaagtggccgccctcGtggctgcctgagacgcgtgg	4	8	16	13	4	0	1	0	1	0	1	2	3	1	2	4	4	1	1	4	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:241463640G>A	uc002vyz.1	-	7	1456	c.1227C>T	c.(1225-1227)CAC>CAT	p.H409H	ANKMY1_uc002vza.1_Silent_p.H268H|ANKMY1_uc010fzd.1_Silent_p.H498H|ANKMY1_uc002vzb.1_Intron|ANKMY1_uc002vzc.1_Silent_p.H268H|ANKMY1_uc002vzd.1_Silent_p.H268H|ANKMY1_uc010fze.1_Silent_p.H78H|ANKMY1_uc002vze.2_Silent_p.H170H	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	409							zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		GGCCGCCCTCGTGGCTGCCTG	0.637													16	38					0	0	1	0	0		A	241463640	A	A	241463640	2	1	49	1	0	0	0	0	0	0	0	1	634	1136	40	1		1	ANKMY1	2	241463640	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1407351	241463640	1735733	283	36963											
CAPN10	11132	broad.mit.edu	37	chr2	241533462	241533462	+	Frame_Shift_Del	DEL	G	-	-																															tggcaggggctctggagagaGgggtgagtgctggggcctgg																								rs150113284	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:241533462delG	uc002vzk.1	+	5	1012	c.828delG	c.(826-828)GAGfs	p.E276fs	CAPN10_uc010zoh.1_Frame_Shift_Del_p.E276fs|CAPN10_uc002vzl.1_Frame_Shift_Del_p.E276fs|CAPN10_uc002vzm.1_Intron|CAPN10_uc002vzn.1_Frame_Shift_Del_p.E148fs|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_RNA|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	276	Calpain catalytic.		E -> G (in a colorectal cancer sample; somatic mutation).		actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding	p.E276G(1)|p.E276fs*3(1)		ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		TCTGGAGAGAGGGGTGAGTGC	0.687													16	37	---	---	---	---						.	-	241533462	-	-	241533462	7	5	49	1	0	1	0	1	0	0	0	0	2626	991	35	0	846	0	CAPN10	2	241533462	Frame_Shift_Del	DEL	G	TCGA-BR-7707-01A-11D-2053-08	69822	241533462	1665911	284	36964											
ANO7	50636	broad.mit.edu	37	chr2	242142788	242142788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggcccgcaggctccacGcctcaaccagcgccaagtcc	9	3	11	18	3	1	1	1	0	0	1	3	1	3	1	6	2	2	2	6	2	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:242142788G>A	uc002wax.2	+	9	1029	c.926G>A	c.(925-927)CGC>CAC	p.R309H		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	309	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						CAGGCTCCACGCCTCAACCAG	0.682													3	8					0	0	1	0	0		A	242142788	A	A	242142788	3	1	49	1	0	0	0	0	1	0	0	0	702	1087	38	1	1032	1	ANO7	2	242142788	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	609326	242142788	1056585	285	36965											
THAP4	51078	broad.mit.edu	37	chr2	242572343	242572343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtactgaccgcggctgggcGacagcaggctacttggatag	8	7	16	10	3	0	1	0	1	0	0	0	3	0	2	1	5	3	4	1	5	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr2:242572343G>A	uc002wbt.2	-	2	1452	c.1229C>T	c.(1228-1230)TCG>TTG	p.S410L		NM_015963	NP_057047	Q8WY91	THAP4_HUMAN	THAP domain containing 4 isoform 1	410							DNA binding|metal ion binding				0		all_cancers(19;2.09e-34)|all_epithelial(40;2.09e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Ovarian(221;0.069)|Lung NSC(271;0.0886)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.2)		Epithelial(32;2.3e-33)|all cancers(36;8.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.68e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.65e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0844)		GCGGCTGGGCGACAGCAGGCT	0.632													8	18					0	0	1	0	0		A	242572343	A	A	242572343	3	1	49	1	0	0	0	0	1	0	0	0	15871	1059	37	1	532	1	THAP4	2	242572343	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	429555	242572343	627030	286	36966											
LRRN1	57633	broad.mit.edu	37	chr3	3887325	3887325	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatccaccgcttggctttcCgaagtgtccctgctctggaa	7	11	9	14	2	1	0	0	0	1	0	4	2	4	1	4	2	1	3	4	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:3887325C>T	uc003bpt.3	+	2	1761	c.1000C>T	c.(1000-1002)CGA>TGA	p.R334*	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	334	LRR 10.|Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		CTTGGCTTTCCGAAGTGTCCC	0.493													13	29					0	0	1	0	0		T	3887325	T	T	3887325	4	4	49	1	0	0	0	0	0	1	0	0	9052	644	23	1	1002	1	LRRN1	3	3887325	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08		3887325	194135105	287	36967											
SUMF1	285362	broad.mit.edu	37	chr3	4418024	4418024	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgacttaccctatggcacAtgtaggatccacctttcttc	9	13	6	13	0	1	1	0	1	1	0	3	2	2	2	3	2	1	2	3	2	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:4418024A>G	uc003bpz.1	-	8	1029	c.1004T>C	c.(1003-1005)ATG>ACG	p.M335T	SUMF1_uc003bps.1_RNA|SUMF1_uc011ass.1_Missense_Mutation_p.M310T|SUMF1_uc010hby.1_Intron|SUMF1_uc011ast.1_Missense_Mutation_p.M203T	NM_182760	NP_877437	Q8NBK3	SUMF1_HUMAN	sulfatase modifying factor 1 isoform 1	335						endoplasmic reticulum lumen	metal ion binding|oxidoreductase activity			upper_aerodigestive_tract(1)	1		Melanoma(143;0.068)|Colorectal(144;0.233)		Epithelial(13;0.0147)|OV - Ovarian serous cystadenocarcinoma(96;0.0444)|all cancers(10;0.0549)		CCTATGGCACATGTAGGATCC	0.438													15	190					0	0	1	0	0		G	4418024	G	G	4418024	3	3	49	1	0	0	0	0	1	0	0	0	15410	217	8	3	128	3	SUMF1	3	4418024	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	530699	4418024	193604406	288	36968											
LMCD1	29995	broad.mit.edu	37	chr3	8590348	8590348	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccagctcatgcaccagcTccccatctatgaccaggatc	9	7	7	18	1	2	1	1	1	1	0	4	2	3	2	6	1	3	3	6	1	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:8590348T>C	uc003bqq.2	+	4	596	c.482T>C	c.(481-483)CTC>CCC	p.L161P	LMCD1_uc011atd.1_Missense_Mutation_p.L88P|LMCD1_uc011ate.1_Missense_Mutation_p.L49P|LMCD1_uc011atf.1_Missense_Mutation_p.L88P	NM_014583	NP_055398	Q9NZU5	LMCD1_HUMAN	LIM and cysteine-rich domains 1	161	PET.				positive regulation of calcineurin-NFAT signaling pathway|regulation of cardiac muscle hypertrophy|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus	transcription corepressor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(96;0.124)		ATGCACCAGCTCCCCATCTAT	0.557													14	144					0	0	1	0	0		C	8590348	C	C	8590348	3	2	49	1	0	0	0	0	1	0	0	0	8861	1551	54	3	496	3	LMCD1	3	8590348	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	4172324	8590348	189432082	289	36969											
SETD5	55209	broad.mit.edu	37	chr3	9517751	9517751	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccactgcaagggtcaggagtCaagactcagacgggactttc	11	7	12	11	1	3	2	3	0	0	2	4	4	3	4	1	3	1	1	1	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:9517751C>T	uc003brt.2	+	23	4740	c.4305C>T	c.(4303-4305)GTC>GTT	p.V1435V	SETD5_uc003bru.2_Silent_p.V1337V|SETD5_uc003brv.2_Silent_p.V1324V|SETD5_uc010hck.2_Silent_p.V917V|SETD5_uc003brx.2_Silent_p.V1104V	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	1435										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		GGTCAGGAGTCAAGACTCAGA	0.572													7	9					0	0	1	0	0		T	9517751	T	T	9517751	2	4	49	1	0	0	0	0	0	0	0	1	14159	813	29	4		4	SETD5	3	9517751	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	927403	9517751	188504679	290	36970											
ATP2B2	491	broad.mit.edu	37	chr3	10444026	10444026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccccaccctgggccgtcGcacatcctgaaagaccagat	9	6	9	17	2	0	3	0	1	0	2	2	3	1	3	6	1	1	1	6	1	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:10444026G>A	uc003bvt.2	-	4	843	c.404C>T	c.(403-405)GCG>GTG	p.A135V	ATP2B2_uc003bvv.2_Missense_Mutation_p.A135V|ATP2B2_uc003bvw.2_Missense_Mutation_p.A135V|ATP2B2_uc010hdp.2_Missense_Mutation_p.A135V|ATP2B2_uc010hdo.2_5'UTR	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	135	Extracellular (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CTGGGCCGTCGCACATCCTGA	0.572													40	89					0	0	1	0	0		A	10444026	A	A	10444026	3	1	49	1	0	0	0	0	1	0	0	0	1141	1087	38	1	3407	1	ATP2B2	3	10444026	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	926275	10444026	187578404	291	36971											
ZFYVE20	64145	broad.mit.edu	37	chr3	15116196	15116196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggttctcctgcagagtgCgcacttcatccatgcggccc	6	9	11	15	2	2	1	1	0	1	1	4	1	3	1	3	2	3	4	3	2	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:15116196C>T	uc003bzm.1	-	14	2062	c.1448G>A	c.(1447-1449)CGC>CAC	p.R483H	ZFYVE20_uc010hek.1_Missense_Mutation_p.R483H	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	483	Necessary for the interaction with RAB4A.|Potential.|Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						CTGCAGAGTGCGCACTTCATC	0.622													23	82					0	0	1	0	0		T	15116196	T	T	15116196	3	4	49	1	0	0	0	0	1	0	0	0	17691	768	27	1	910	1	ZFYVE20	3	15116196	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4672170	15116196	182906234	292	36972											
SCN5A	6331	broad.mit.edu	37	chr3	38595862	38595862	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagcttgacaatacacTcgcctgtgaagatggccaca	12	7	9	13	1	0	3	0	2	0	1	1	3	0	3	3	1	3	1	3	1	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:38595862T>C	uc003cio.2	-	27	4915	c.4721A>G	c.(4720-4722)GAG>GGG	p.E1574G	SCN5A_uc003cin.2_Missense_Mutation_p.E1573G|SCN5A_uc003cil.3_Missense_Mutation_p.E1574G|SCN5A_uc010hhi.2_Missense_Mutation_p.E1556G|SCN5A_uc010hhk.2_Intron|SCN5A_uc011ayr.1_Missense_Mutation_p.E1520G	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1574	Helical; Name=S2 of repeat IV; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	GACAATACACTCGCCTGTGAA	0.493													14	90					0	0	1	0	0		C	38595862	C	C	38595862	3	2	49	1	0	0	0	0	1	0	0	0	13947	1551	54	3	1337	3	SCN5A	3	38595862	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	23479666	38595862	159426568	293	36973											
C3orf39	84892	broad.mit.edu	37	chr3	43121611	43121611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagccactcggggttcCggcaacagagatgccgtggg	9	5	17	10	3	0	2	0	0	0	2	2	4	1	3	3	5	3	2	3	5	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:43121611C>T	uc003cmq.1	-	2	1454	c.1313G>A	c.(1312-1314)CGG>CAG	p.R438Q	C3orf39_uc003cmr.1_Missense_Mutation_p.R438Q	NM_032806	NP_116195	Q8NAT1	AGO61_HUMAN	glycosyltransferase precursor	438						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)|skin(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0571)|Kidney(284;0.0718)		CTCGGGGTTCCGGCAACAGAG	0.637													11	21					0	0	1	0	0		T	43121611	T	T	43121611	3	4	49	1	0	0	0	0	1	0	0	0	2232	652	23	1	433	1	C3orf39	3	43121611	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4525749	43121611	154900819	294	36974											
MAP4	4134	broad.mit.edu	37	chr3	47958085	47958085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctctatttctgagagtaatAccaaatccttggctgggact	10	13	8	10	0	2	1	0	1	2	1	3	3	3	2	3	2	1	2	3	2	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:47958085A>G	uc003csb.2	-	7	1758	c.1232T>C	c.(1231-1233)GTA>GCA	p.V411A	MAP4_uc003csc.3_Missense_Mutation_p.V411A|MAP4_uc011bbf.1_Missense_Mutation_p.V388A|MAP4_uc003csf.3_Missense_Mutation_p.V428A	NM_002375	NP_002366	P27816	MAP4_HUMAN	microtubule-associated protein 4 isoform 1	411	17 X 14 AA tandem repeats.|9.				negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000721)|KIRC - Kidney renal clear cell carcinoma(197;0.00641)|Kidney(197;0.00736)		TGAGAGTAATACCAAATCCTT	0.438													19	183					0	0	1	0	0		G	47958085	G	G	47958085	3	3	49	1	0	0	0	0	1	0	0	0	9276	391	14	3	3637	3	MAP4	3	47958085	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4836474	47958085	150064345	295	36975											
COL7A1	1294	broad.mit.edu	37	chr3	48629343	48629343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgaccagtctcacgccGccattccaaccggtagccac	9	6	8	18	3	1	1	1	1	1	0	3	1	2	1	6	1	2	2	6	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:48629343G>A	uc003ctz.2	-	10	1346	c.1345C>T	c.(1345-1347)CGG>TGG	p.R449W		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	449	Nonhelical region (NC1).|Fibronectin type-III 3.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GTCTCACGCCGCCATTCCAAC	0.627													30	68					0	0	1	0	0		A	48629343	A	A	48629343	3	1	49	1	0	0	0	0	1	0	0	0	3707	1086	38	1	7925	1	COL7A1	3	48629343	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	671258	48629343	149393087	296	36976											
WDR6	11180	broad.mit.edu	37	chr3	49050093	49050093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccctgtatctctatgacGtcgaggtcaagtgctgggag	7	10	15	9	2	2	1	1	1	1	0	4	3	2	2	1	3	1	2	1	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:49050093G>A	uc003cvj.2	+	2	1354	c.1216G>A	c.(1216-1218)GTC>ATC	p.V406I	WDR6_uc011bbx.1_Missense_Mutation_p.V277I|WDR6_uc011bby.1_Intron|WDR6_uc010hkn.2_Missense_Mutation_p.V350I|WDR6_uc011bbz.1_Missense_Mutation_p.V325I	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	376	WD 6.				cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		TCTCTATGACGTCGAGGTCAA	0.577													16	32					0	0	1	0	0		A	49050093	A	A	49050093	3	1	49	1	0	0	0	0	1	0	0	0	17336	1145	40	1	1222	1	WDR6	3	49050093	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	420750	49050093	148972337	297	36977											
WDR6	11180	broad.mit.edu	37	chr3	49050138	49050138	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctagaggataaacatttcCagtcctactgcctgctggag	10	11	10	10	0	0	1	0	0	0	1	2	3	2	3	3	2	5	2	3	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:49050138C>A	uc003cvj.2	+	2	1399	c.1261C>A	c.(1261-1263)CAG>AAG	p.Q421K	WDR6_uc011bbx.1_Missense_Mutation_p.Q292K|WDR6_uc011bby.1_Intron|WDR6_uc010hkn.2_Missense_Mutation_p.Q365K|WDR6_uc011bbz.1_Missense_Mutation_p.Q340K	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	391					cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		TAAACATTTCCAGTCCTACTG	0.567													4	38					0.00909568	0.00923047	1	1	0		A	49050138	A	A	49050138	3	1	49	1	0	0	0	0	1	0	0	0	17336	595	21	5	1267	5	WDR6	3	49050138	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	45	49050138	148972292	298	36978											
USP19	10869	broad.mit.edu	37	chr3	49153200	49153200	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttggggttacatgctccatgGgtgtgcgggttgccacactg	5	12	15	9	1	0	0	0	0	0	0	1	0	1	0	2	4	4	3	2	4	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:49153200G>T	uc003cwd.1	-	10	1501	c.1340C>A	c.(1339-1341)CCC>CAC	p.P447H	USP19_uc003cwa.2_Missense_Mutation_p.P255H|USP19_uc003cvz.3_Missense_Mutation_p.P550H|USP19_uc011bcg.1_Missense_Mutation_p.P538H|USP19_uc003cwb.2_Missense_Mutation_p.P533H|USP19_uc003cwc.1_Missense_Mutation_p.P205H|USP19_uc011bch.1_Missense_Mutation_p.P548H|USP19_uc011bci.1_Missense_Mutation_p.P535H	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	447	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		ATGCTCCATGGGTGTGCGGGT	0.597													9	68					1.76689e-08	1.88469e-08	1	1	0		T	49153200	T	T	49153200	3	4	49	1	0	0	0	0	1	0	0	0	17076	1232	43	5	2684	5	USP19	3	49153200	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	103062	49153200	148869230	299	36979											
LAMB2	3913	broad.mit.edu	37	chr3	49159273	49159273	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctcagtgcccgctctgcAcctgccatcctctcctgtac	5	10	8	18	1	3	0	1	0	2	0	5	1	4	0	5	0	5	4	5	0	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:49159273A>G	uc003cwe.2	-	30	5243	c.4944T>C	c.(4942-4944)GGT>GGC	p.G1648G	USP19_uc003cvz.3_5'Flank|USP19_uc011bcg.1_5'Flank|USP19_uc003cwb.2_5'Flank|USP19_uc003cwd.1_5'Flank|USP19_uc011bch.1_5'Flank|USP19_uc011bci.1_5'Flank	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1648	Potential.|Domain I.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CCCGCTCTGCACCTGCCATCC	0.552													4	48					0	0	1	0	0		G	49159273	G	G	49159273	2	3	49	1	0	0	0	0	0	0	0	1	8627	146	6	3		3	LAMB2	3	49159273	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	6073	49159273	148863157	300	36980											
GPX1	2876	broad.mit.edu	37	chr3	49394982	49394982	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacacaccggagaccaggTgatgagcttggggtcggtca	9	6	16	10	3	1	3	1	2	0	1	2	5	1	3	2	5	1	1	2	5	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:49394982T>C	uc011bcl.1	-	3	531	c.451A>G	c.(451-453)ACC>GCC	p.T151A	GPX1_uc011bcm.1_3'UTR	NM_000581	NP_000572	P07203	GPX1_HUMAN	glutathione peroxidase 1 isoform 1	151					anti-apoptosis|cell redox homeostasis|glutathione metabolic process|heart contraction|hydrogen peroxide catabolic process|negative regulation of caspase activity|purine base metabolic process|purine nucleotide catabolic process|regulation of gene expression, epigenetic|regulation of mammary gland epithelial cell proliferation|regulation of proteasomal protein catabolic process|release of cytochrome c from mitochondria|response to selenium ion|UV protection	cytosol|mitochondrion	endopeptidase inhibitor activity|glutathione peroxidase activity|SH3 domain binding			large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	Glutathione(DB00143)	GGAGACCAGGTGATGAGCTTG	0.657													10	61					0	0	1	0	0		C	49394982	C	C	49394982	3	2	49	1	0	0	0	0	1	0	0	0	6755	1696	59	3	164	3	GPX1	3	49394982	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	235709	49394982	148627448	301	36981											
GMPPB	29925	broad.mit.edu	37	chr3	49759315	49759315	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcacgttctccatgcgtAcctccaggagaggataggcc	8	9	11	13	2	2	1	1	0	1	1	4	3	3	2	4	3	2	2	4	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:49759315A>G	uc003cxk.1	-	9	1178	c.953T>C	c.(952-954)GTA>GCA	p.V318A	AMIGO3_uc003cxj.2_5'Flank|GMPPB_uc003cxl.1_Missense_Mutation_p.V345A	NM_021971	NP_068806	Q9Y5P6	GMPPB_HUMAN	GDP-mannose pyrophosphorylase B isoform 2	318					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CTCCATGCGTACCTCCAGGAG	0.617													7	64					0	0	1	0	0		G	49759315	G	G	49759315	3	3	49	1	0	0	0	0	1	0	0	0	6510	405	14	3	133	3	GMPPB	3	49759315	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	364333	49759315	148263115	302	36982											
TRAIP	10293	broad.mit.edu	37	chr3	49879890	49879890	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagctccaaactcactgctCcatggtcttcatcttgctcc	7	12	5	17	0	4	0	2	0	2	0	7	0	7	0	4	1	4	3	4	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:49879890C>A	uc003cxs.1	-	6	605	c.499G>T	c.(499-501)GAG>TAG	p.E167*	TRAIP_uc010hla.1_Intron	NM_005879	NP_005870	Q9BWF2	TRAIP_HUMAN	TRAF interacting protein	167	Potential.				cell proliferation|induction of apoptosis	perinuclear region of cytoplasm	protein binding|zinc ion binding			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		ACTCACTGCTCCATGGTCTTC	0.557													5	90					0.00198382	0.00202401	1	1	0		A	49879890	A	A	49879890	4	1	49	1	0	0	0	0	0	1	0	0	16474	864	30	5	950	5	TRAIP	3	49879890	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	120575	49879890	148142540	303	36983											
CAMKV	79012	broad.mit.edu	37	chr3	49898891	49898891	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgagattcctgtgcacgAtcttgagtgagtgcaaatag	10	12	11	8	1	1	3	0	3	1	1	2	5	2	3	2	0	2	2	2	0	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:49898891A>G	uc003cxt.1	-	5	615	c.422T>C	c.(421-423)ATC>ACC	p.I141T	CAMKV_uc011bcy.1_Missense_Mutation_p.I66T|CAMKV_uc003cxv.1_Missense_Mutation_p.I141T|CAMKV_uc003cxw.1_5'UTR|CAMKV_uc003cxx.1_5'UTR|CAMKV_uc003cxu.2_Missense_Mutation_p.I141T|CAMKV_uc011bcz.1_Missense_Mutation_p.I104T|CAMKV_uc011bda.1_Intron|CAMKV_uc011bdb.1_RNA	NM_024046	NP_076951	Q8NCB2	CAMKV_HUMAN	CaM kinase-like vesicle-associated	141	Protein kinase.					cytoplasmic vesicle membrane|plasma membrane	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|large_intestine(2)|central_nervous_system(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		CCTGTGCACGATCTTGAGTGA	0.592													4	54					0	0	1	0	0		G	49898891	G	G	49898891	3	3	49	1	0	0	0	0	1	0	0	0	2611	333	12	3	1111	3	CAMKV	3	49898891	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	19001	49898891	148123539	304	36984											
NPRL2	10641	broad.mit.edu	37	chr3	50385556	50385556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaaattctcctctgaccGttcatcaacatgctgcagct	10	11	6	14	1	4	1	2	1	2	0	5	1	4	1	2	0	5	5	2	0	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:50385556G>A	uc003daj.1	-	9	1334	c.931C>T	c.(931-933)CGG>TGG	p.R311W	ZMYND10_uc003dag.1_5'Flank|ZMYND10_uc010hll.1_5'Flank|ZMYND10_uc003dah.1_5'Flank|ZMYND10_uc010hlm.1_5'Flank|NPRL2_uc003dai.1_Missense_Mutation_p.R191W|CYB561D2_uc003dak.2_5'Flank|CYB561D2_uc003dal.2_5'Flank|CYB561D2_uc003dam.2_5'Flank	NM_006545	NP_006536	Q8WTW4	NPRL2_HUMAN	tumor suppressor candidate 4	311					negative regulation of kinase activity		protein binding|protein kinase activity			lung(1)	1						TCCTCTGACCGTTCATCAACA	0.572													21	73					0	0	1	0	0		A	50385556	A	A	50385556	3	1	49	1	0	0	0	0	1	0	0	0	10616	1159	40	1	223	1	NPRL2	3	50385556	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	486665	50385556	147636874	305	36985											
C3orf18	51161	broad.mit.edu	37	chr3	50603087	50603087	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactcagaggtgggtgggCggctgctgaaccagccccta	8	6	15	12	1	1	3	1	1	0	2	1	3	1	3	3	4	3	2	3	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:50603087C>T	uc003das.2	-	2	495	c.44G>A	c.(43-45)CGC>CAC	p.R15H	C3orf18_uc003dar.2_Missense_Mutation_p.R15H|C3orf18_uc011bdr.1_Intron|C3orf18_uc010hlo.2_Missense_Mutation_p.R15H|C3orf18_uc010hlp.2_Intron|C3orf18_uc003dat.2_Missense_Mutation_p.R15H	NM_016210	NP_057294	Q9UK00	CC018_HUMAN	hypothetical protein LOC51161	15						integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.0175)|Kidney(197;0.0207)		GGTGGGTGGGCGGCTGCTGAA	0.627													13	29					0	0	1	0	0		T	50603087	T	T	50603087	3	4	49	1	0	0	0	0	1	0	0	0	2214	768	27	1	460	1	C3orf18	3	50603087	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	217531	50603087	147419343	306	36986											
RAD54L2	23132	broad.mit.edu	37	chr3	51667644	51667644	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtggagtctctggagaggTttaagaccagcagtggcttt	9	12	14	6	0	1	2	0	0	1	2	2	4	1	3	1	4	1	3	1	4	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:51667644T>G	uc011bdt.1	+	7	1002	c.877T>G	c.(877-879)TTT>GTT	p.F293V	RAD54L2_uc003dbh.2_5'UTR|RAD54L2_uc011bdu.1_5'UTR|RAD54L2_uc003dbj.2_5'UTR	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	293	Helicase ATP-binding.					nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		TCTGGAGAGGTTTAAGACCAG	0.517													9	88					0	0	1	0	0		G	51667644	G	G	51667644	3	3	49	1	0	0	0	0	1	0	0	0	13019	1725	60	5	899	5	RAD54L2	3	51667644	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1064557	51667644	146354786	307	36987											
RAD54L2	23132	broad.mit.edu	37	chr3	51669679	51669679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgtgctgctgatggggtacGagatgtacagactcctcact	8	10	13	10	2	1	3	1	1	0	2	2	4	2	3	1	2	4	4	1	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:51669679G>A	uc011bdt.1	+	9	1338	c.1213G>A	c.(1213-1215)GAG>AAG	p.E405K	RAD54L2_uc003dbh.2_5'UTR|RAD54L2_uc011bdu.1_Missense_Mutation_p.E99K|RAD54L2_uc003dbj.2_5'UTR	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	405	Helicase ATP-binding.					nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		GATGGGGTACGAGATGTACAG	0.483													12	31					0	0	1	0	0		A	51669679	A	A	51669679	3	1	49	1	0	0	0	0	1	0	0	0	13019	1059	37	1	1243	1	RAD54L2	3	51669679	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2035	51669679	146352751	308	36988											
TLR9	54106	broad.mit.edu	37	chr3	52257056	52257056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccgaagctccgctgatgcGgttgtccgacaggtccacgt	6	9	12	14	5	0	1	0	1	0	0	4	3	4	1	4	2	2	3	4	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:52257056G>A	uc003dda.1	-	2	1910	c.1276C>T	c.(1276-1278)CGC>TGC	p.R426C	TLR9_uc003ddb.2_Missense_Mutation_p.R523C	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	426	LRR 14.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	CCGCTGATGCGGTTGTCCGAC	0.642													24	118					0	0	1	0	0		A	52257056	A	A	52257056	3	1	49	1	0	0	0	0	1	0	0	0	15983	1116	39	1	1826	1	TLR9	3	52257056	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	587377	52257056	145765374	309	36989											
DNAH1	25981	broad.mit.edu	37	chr3	52400778	52400778	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctggcagctgccatgacGtcactgaaagggcagccatc	9	7	12	13	1	1	2	1	2	0	0	3	2	2	2	3	2	3	3	3	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:52400778G>A	uc011bef.1	+	36	5901	c.5640G>A	c.(5638-5640)ACG>ACA	p.T1880T		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1880	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CTGCCATGACGTCACTGAAAG	0.612													21	74					0	0	1	0	0		A	52400778	A	A	52400778	2	1	49	1	0	0	0	0	0	0	0	1	4603	1132	40	1		1	DNAH1	3	52400778	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	143722	52400778	145621652	310	36990											
NT5DC2	64943	broad.mit.edu	37	chr3	52568610	52568610	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgtggtcttttctagcaaCgtcgacaggctttccaacaa	9	12	9	11	2	2	0	0	0	2	0	4	1	3	0	1	2	3	3	1	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:52568610C>T	uc003deo.2	-	1	484	c.60G>A	c.(58-60)ACG>ACA	p.T20T	NT5DC2_uc003den.2_5'Flank|NT5DC2_uc010hmi.2_5'Flank|NT5DC2_uc010hmj.2_5'UTR|LOC440957_uc003dep.2_5'Flank	NM_022908	NP_075059	Q9H857	NT5D2_HUMAN	5'-nucleotidase domain containing 2 isoform 2	20							hydrolase activity|metal ion binding				0				BRCA - Breast invasive adenocarcinoma(193;1.7e-05)|Kidney(197;0.00177)|KIRC - Kidney renal clear cell carcinoma(197;0.002)|OV - Ovarian serous cystadenocarcinoma(275;0.0476)		TTTCTAGCAACGTCGACAGGC	0.592													39	109					0	0	1	0	0		T	52568610	T	T	52568610	2	4	49	1	0	0	0	0	0	0	0	1	10710	523	19	1		1	NT5DC2	3	52568610	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	167832	52568610	145453820	311	36991											
ERC2	26059	broad.mit.edu	37	chr3	55922525	55922525	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggaggcgaggcgtgctttgGtggcatccagttcctgtctg	4	12	16	9	2	1	0	0	0	1	0	3	2	3	1	2	5	1	3	2	5	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:55922525G>T	uc003dhr.1	-	14	2712	c.2456C>A	c.(2455-2457)ACC>AAC	p.T819N	ERC2_uc003dhq.1_RNA|ERC2_uc003dht.1_Missense_Mutation_p.T298N	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	819	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		GCGTGCTTTGGTGGCATCCAG	0.522													13	127					1.56452e-12	1.70061e-12	1	1	0		T	55922525	T	T	55922525	3	4	49	1	0	0	0	0	1	0	0	0	5219	1261	44	5	433	5	ERC2	3	55922525	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3353915	55922525	142099905	312	36992											
PDE12	201626	broad.mit.edu	37	chr3	57543266	57543266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcctggccactttctaccGaaagtctaagttcagccttc	9	11	8	13	1	3	0	1	0	2	0	4	1	3	0	4	2	2	1	4	2	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:57543266G>A	uc003diw.3	+	1	1286	c.1160G>A	c.(1159-1161)CGA>CAA	p.R387Q	PDE12_uc003div.2_Missense_Mutation_p.R387Q	NM_177966	NP_808881	Q6L8Q7	PDE12_HUMAN	phosphodiesterase 12	387							hydrolase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.011)|Kidney(284;0.0127)		ACTTTCTACCGAAAGTCTAAG	0.527													8	34					0	0	1	0	0		A	57543266	A	A	57543266	3	1	49	1	0	0	0	0	1	0	0	0	11651	1058	37	1	1162	1	PDE12	3	57543266	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1620741	57543266	140479164	313	36993											
SLMAP	7871	broad.mit.edu	37	chr3	57743556	57743556	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaccacgctctcgtctggTttgatcacaagacgggcaag	10	8	12	11	3	3	2	1	1	2	1	4	3	3	3	1	3	1	3	1	3	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:57743556T>G	uc003dje.1	+	1	383	c.178T>G	c.(178-180)TTT>GTT	p.F60V	SLMAP_uc003djc.1_Missense_Mutation_p.F60V|SLMAP_uc003djd.1_Missense_Mutation_p.F60V|SLMAP_uc003djf.1_Missense_Mutation_p.F60V	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	60	Necessary for targeting to centrosomes (By similarity).|Cytoplasmic (Potential).|FHA.				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)		TCTCGTCTGGTTTGATCACAA	0.493													4	43					0	0	1	0	0		G	57743556	G	G	57743556	3	3	49	1	0	0	0	0	1	0	0	0	14774	1725	60	5	180	5	SLMAP	3	57743556	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	200290	57743556	140278874	314	36994											
PRICKLE2	166336	broad.mit.edu	37	chr3	64138947	64138947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccctccttcatgatgtagCgctggccgcccagcactgtc	5	11	9	16	2	1	1	1	1	0	0	4	1	3	1	4	1	2	3	4	1	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:64138947C>T	uc003dmf.2	-	6	1284	c.698G>A	c.(697-699)CGC>CAC	p.R233H		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	233	LIM zinc-binding 2.					cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		CATGATGTAGCGCTGGCCGCC	0.507													13	138					0	0	1	0	0		T	64138947	T	T	64138947	3	4	49	1	0	0	0	0	1	0	0	0	12509	768	27	1	1848	1	PRICKLE2	3	64138947	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	6395391	64138947	133883483	315	36995											
SHQ1	55164	broad.mit.edu	37	chr3	72799562	72799562	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caagctcctctatcagaggcCcagacactccaagaggccag	12	5	9	15	0	2	3	1	0	1	3	4	3	4	3	4	2	1	1	4	2	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:72799562C>A	uc003dpf.2	-	11	1714	c.1607G>T	c.(1606-1608)GGG>GTG	p.G536V	SHQ1_uc010hod.2_Missense_Mutation_p.G447V	NM_018130	NP_060600	Q6PI26	SHQ1_HUMAN	SHQ1 homolog	536					ribonucleoprotein complex assembly	cytosol|nucleoplasm	protein binding			ovary(2)|large_intestine(1)	3		Prostate(10;0.00482)|Lung NSC(201;0.0339)|Myeloproliferative disorder(1037;0.204)		BRCA - Breast invasive adenocarcinoma(55;9.68e-05)|Epithelial(33;0.000563)|LUSC - Lung squamous cell carcinoma(21;0.00229)|Lung(16;0.00688)|KIRC - Kidney renal clear cell carcinoma(39;0.018)|Kidney(39;0.0213)		TATCAGAGGCCCAGACACTCC	0.517													22	65					3.73808e-20	4.10231e-20	1	1	0		A	72799562	A	A	72799562	3	1	49	1	0	0	0	0	1	0	0	0	14317	623	22	5	130	5	SHQ1	3	72799562	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	8660615	72799562	125222868	316	36996											
PDZRN3	23024	broad.mit.edu	37	chr3	73453461	73453461	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttggtgttcttctcaacAcctgcaccactatgggctcc	6	13	7	15	0	2	0	1	0	2	0	5	0	4	0	4	2	2	3	4	2	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:73453461A>G	uc003dpl.1	-	4	1100	c.1004T>C	c.(1003-1005)GTG>GCG	p.V335A	PDZRN3_uc011bgh.1_5'UTR|PDZRN3_uc010hoe.1_Missense_Mutation_p.V33A|PDZRN3_uc011bgf.1_Missense_Mutation_p.V52A|PDZRN3_uc011bgg.1_Missense_Mutation_p.V55A	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	335	PDZ 1.						ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		TCTTCTCAACACCTGCACCAC	0.493													6	56					0	0	1	0	0		G	73453461	G	G	73453461	3	3	49	1	0	0	0	0	1	0	0	0	11728	159	6	3	2224	3	PDZRN3	3	73453461	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	653899	73453461	124568969	317	36997											
ROBO2	6092	broad.mit.edu	37	chr3	77651597	77651597	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagcaaaaaacagatctgAtgggatttggttattctcta	13	14	8	6	0	3	2	1	1	2	1	4	3	3	3	0	2	2	2	0	2	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:77651597A>T	uc003dpy.3	+	20	3734	c.3091A>T	c.(3091-3093)ATG>TTG	p.M1031L	ROBO2_uc003dpz.2_Missense_Mutation_p.M1035L|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.M1035L|ROBO2_uc003dqa.2_Missense_Mutation_p.M158L	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1031	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		AACAGATCTGATGGGATTTGG	0.418													7	116					0	0	1	0	0		T	77651597	T	T	77651597	3	4	49	1	0	0	0	0	1	0	0	0	13539	333	12	5	3171	5	ROBO2	3	77651597	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4198136	77651597	120370833	318	36998											
LNP1	348801	broad.mit.edu	37	chr3	100170683	100170683	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaatactcagaggatgggTcattcaaggagccactggaa	15	7	12	7	0	3	1	3	0	0	1	3	5	3	4	1	4	2	0	1	4	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:100170683T>C	uc003dtx.3	+	3	1557	c.277T>C	c.(277-279)TCA>CCA	p.S93P	LNP1_uc003dty.3_RNA|LNP1_uc011bhb.1_RNA	NM_001085451	NP_001078920	A1A4G5	LNP1_HUMAN	leukemia NUP98 fusion partner 1	93											0						AGAGGATGGGTCATTCAAGGA	0.448													3	88					0	0	1	0	0		C	100170683	C	C	100170683	3	2	49	1	0	0	0	0	1	0	0	0	8880	1667	58	3	283	3	LNP1	3	100170683	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	22519086	100170683	97851747	319	36999											
ZBTB11	27107	broad.mit.edu	37	chr3	101370285	101370285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaagatgctaacagcatGtgccacttgagttccttggt	9	14	10	8	0	0	2	0	1	0	1	1	2	1	2	2	1	4	4	2	1	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:101370285G>A	uc003dve.3	-	11	3117	c.2887C>T	c.(2887-2889)CAT>TAT	p.H963Y		NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	963					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CTAACAGCATGTGCCACTTGA	0.433													15	122					0	0	1	0	0		A	101370285	A	A	101370285	3	1	49	1	0	0	0	0	1	0	0	0	17549	1377	48	4	278	4	ZBTB11	3	101370285	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1199602	101370285	96652145	320	37000											
MORC1	27136	broad.mit.edu	37	chr3	108773717	108773717	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattaacaattccaaccacGcctgcgccaagtctgagaaa	15	8	6	12	2	1	1	0	1	1	1	2	2	2	1	4	0	3	0	4	0	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:108773717G>A	uc003dxl.2	-	14	1275	c.1188C>T	c.(1186-1188)GGC>GGT	p.G396G	MORC1_uc011bhn.1_Silent_p.G396G	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	396					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						TTCCAACCACGCCTGCGCCAA	0.308													13	35					0	0	1	0	0		A	108773717	A	A	108773717	2	1	49	1	0	0	0	0	0	0	0	1	9719	1074	38	1		1	MORC1	3	108773717	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	7403432	108773717	89248713	321	37001											
C3orf17	25871	broad.mit.edu	37	chr3	112724472	112724472	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatttatttgcatcaccgTccacgaatcagtttcatttt	9	19	4	9	2	3	0	3	0	0	0	4	1	4	0	2	0	1	2	2	0	3	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:112724472T>C	uc003dzr.2	-	9	1676	c.1615A>G	c.(1615-1617)ACG>GCG	p.T539A	GTPBP8_uc011bhy.1_Intron|C3orf17_uc003dzq.2_Missense_Mutation_p.T164A|C3orf17_uc011bhz.1_Missense_Mutation_p.T164A|C3orf17_uc010hqh.2_Missense_Mutation_p.T164A|C3orf17_uc003dzt.2_Missense_Mutation_p.T442A|C3orf17_uc003dzs.2_Missense_Mutation_p.T403A|C3orf17_uc010hqg.2_Missense_Mutation_p.T364A|C3orf17_uc011bia.1_Missense_Mutation_p.T336A|C3orf17_uc003dzu.2_Missense_Mutation_p.T468A|C3orf17_uc011bib.1_Missense_Mutation_p.T428A|C3orf17_uc011bic.1_Missense_Mutation_p.T372A|C3orf17_uc011bid.1_RNA	NM_015412	NP_056227	Q6NW34	CC017_HUMAN	hypothetical protein LOC25871	539						integral to membrane					0						TGCATCACCGTCCACGAATCA	0.353													6	87					0	0	1	0	0		C	112724472	C	C	112724472	3	2	49	1	0	0	0	0	1	0	0	0	2213	1667	58	3	92	3	C3orf17	3	112724472	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3950755	112724472	85297958	322	37002											
NAA50	80218	broad.mit.edu	37	chr3	113440776	113440776	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccgactcattgctgatcTggacatgcctgagatataag	10	12	10	9	1	2	2	1	2	1	1	2	5	2	3	2	1	3	1	2	1	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:113440776T>G	uc003ean.1	-	5	641	c.341A>C	c.(340-342)CAG>CCG	p.Q114P	NAA50_uc010hqm.1_Missense_Mutation_p.Q40P|NAA50_uc011bij.1_Missense_Mutation_p.Q40P	NM_025146	NP_079422	Q9GZZ1	NAA50_HUMAN	N-acetyltransferase 13	114	N-acetyltransferase.				N-terminal protein amino acid acetylation	cytoplasm	N-acetyltransferase activity|protein binding				0						ATTGCTGATCTGGACATGCCT	0.373													8	21					0	0	1	0	0		G	113440776	G	G	113440776	3	3	49	1	0	0	0	0	1	0	0	0	10144	1580	55	5	172	5	NAA50	3	113440776	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	716304	113440776	84581654	323	37003											
ZBTB20	26137	broad.mit.edu	37	chr3	114069855	114069855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcctggtctgtgtcttccGtgcactcctcggattcgttg	2	14	12	13	4	2	0	0	0	2	0	6	1	4	1	3	3	1	2	3	3	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:114069855G>A	uc003ebi.2	-	4	1250	c.1070C>T	c.(1069-1071)ACG>ATG	p.T357M	ZBTB20_uc003ebj.2_Missense_Mutation_p.T284M|ZBTB20_uc010hqp.2_Missense_Mutation_p.T284M|ZBTB20_uc003ebk.2_Missense_Mutation_p.T284M|ZBTB20_uc003ebl.2_Missense_Mutation_p.T284M|ZBTB20_uc003ebm.2_Missense_Mutation_p.T284M|ZBTB20_uc003ebn.2_Missense_Mutation_p.T284M|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	357					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TGTGTCTTCCGTGCACTCCTC	0.592													22	32					0	0	1	0	0		A	114069855	A	A	114069855	3	1	49	1	0	0	0	0	1	0	0	0	17554	1145	40	1	1163	1	ZBTB20	3	114069855	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	629079	114069855	83952575	324	37004											
PLA1A	51365	broad.mit.edu	37	chr3	119316796	119316796	+	Frame_Shift_Del	DEL	G	-	-																															tgggagagctgcttctgggtGgggggcctcattttgtggct																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:119316796delG	uc003ecu.2	+	1	75	c.36delG	c.(34-36)GTGfs	p.V12fs	PLA1A_uc003ecv.2_Frame_Shift_Del_p.V12fs|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_5'UTR	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	12					lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						GCTTCTGGGTGGGGGGCCTCA	0.512													4	5	---	---	---	---						.	-	119316796	-	-	119316796	7	5	49	1	0	1	0	1	0	0	0	0	12007	1335	47	0	38	0	PLA1A	3	119316796	Frame_Shift_Del	DEL	G	TCGA-BR-7707-01A-11D-2053-08	5246941	119316796	78705634	325	37005											
NR1I2	8856	broad.mit.edu	37	chr3	119528957	119528957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgccccttccggaagggcGcctgcgagatcacccggaag	7	5	15	14	4	1	1	1	0	0	1	2	4	2	3	5	4	2	0	5	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:119528957G>A	uc003edj.2	+	3	2086	c.247G>A	c.(247-249)GCC>ACC	p.A83T	NR1I2_uc003edi.2_Missense_Mutation_p.A83T|NR1I2_uc003edk.2_Missense_Mutation_p.A122T|NR1I2_uc003edl.2_5'Flank	NM_003889	NP_003880	O75469	NR1I2_HUMAN	nuclear receptor subfamily 1, group I, member 2	83	Nuclear receptor.|Bipartite nuclear localization signal.|NR C4-type.				drug export|exogenous drug catabolic process|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid metabolic process|xenobiotic metabolic process|xenobiotic transport	nucleoplasm	drug binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(114;0.175)	Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Rifampin(DB01045)|Vitamin E(DB00163)	CCGGAAGGGCGCCTGCGAGAT	0.652													11	21					0	0	1	0	0		A	119528957	A	A	119528957	3	1	49	1	0	0	0	0	1	0	0	0	10639	1087	38	1	374	1	NR1I2	3	119528957	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	212161	119528957	78493473	326	37006											
POLQ	10721	broad.mit.edu	37	chr3	121207489	121207489	+	Frame_Shift_Del	DEL	A	-	-																															cagaaacttcattcttttttAaaaaaagaccattttcctcc																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:121207489delA	uc003eee.3	-	16	4418	c.4289delT	c.(4288-4290)TTAfs	p.L1430fs	POLQ_uc003eed.2_Frame_Shift_Del_p.L602fs	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1430					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		ATTCTTTTTTAAAAAAAGACC	0.338								DNA_polymerases_(catalytic_subunits)					10	17	---	---	---	---						.	-	121207489	-	-	121207489	7	5	49	1	0	1	0	1	0	0	0	0	12227	372	13	0	3543	0	POLQ	3	121207489	Frame_Shift_Del	DEL	A	TCGA-BR-7707-01A-11D-2053-08	1678532	121207489	76814941	327	37007											
CASR	846	broad.mit.edu	37	chr3	121976124	121976124	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attctttgaaccttgatgagTtctgcaactgctcagagcac	10	13	8	10	0	3	4	1	3	2	1	3	4	3	4	1	0	5	4	1	0	2	4	rs104893696		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:121976124T>C	uc003eev.3	+	3	754	c.382T>C	c.(382-384)TTC>CTC	p.F128L	CASR_uc003eew.3_Missense_Mutation_p.F128L	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	128	Extracellular (Potential).		F -> L (in FIH; there is a shift in the dose-response curve so that the extracellular calcium concentration needed to produce half-maximal increase in total inositol phosphate in the cells is significantly lower than the one required for the wild-type receptor).		anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	CCTTGATGAGTTCTGCAACTG	0.483													9	90					0	0	1	0	0		C	121976124	C	C	121976124	3	2	49	1	0	0	0	0	1	0	0	0	2685	1725	60	3	388	3	CASR	3	121976124	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	768635	121976124	76046306	328	37008											
DIRC2	84925	broad.mit.edu	37	chr3	122591386	122591386	+	Frame_Shift_Del	DEL	T	-	-																															attacttgtggagttgtcacTtttttaagtaatatgtttat																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:122591386delT	uc003efw.3	+	8	1402	c.1263delT	c.(1261-1263)ACTfs	p.T421fs	DIRC2_uc010hrl.2_RNA|DIRC2_uc010hrm.2_Frame_Shift_Del_p.T259fs	NM_032839	NP_116228	Q96SL1	DIRC2_HUMAN	disrupted in renal carcinoma 2	421	Helical; (Potential).				transport	integral to membrane					0				GBM - Glioblastoma multiforme(114;0.0614)		GAGTTGTCACTTTTTTAAGTA	0.318													24	55	---	---	---	---						.	-	122591386	-	-	122591386	7	5	49	1	0	1	0	1	0	0	0	0	4540	1596	56	0	1293	0	DIRC2	3	122591386	Frame_Shift_Del	DEL	T	TCGA-BR-7707-01A-11D-2053-08	615262	122591386	75431044	329	37009											
KALRN	8997	broad.mit.edu	37	chr3	124053260	124053260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgttacatcaccagcgacGgctggagagcatctggcagc	9	7	14	11	2	2	1	1	0	1	1	2	3	2	1	1	4	4	4	1	4	1	1	rs35057827		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:124053260G>A	uc003ehg.2	+	9	1686	c.1559G>A	c.(1558-1560)CGG>CAG	p.R520Q	KALRN_uc010hrv.1_Missense_Mutation_p.R520Q|KALRN_uc003ehf.1_Missense_Mutation_p.R520Q|KALRN_uc011bjy.1_Missense_Mutation_p.R520Q	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	520					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						CACCAGCGACGGCTGGAGAGC	0.622													11	47					0	0	1	0	0		A	124053260	A	A	124053260	3	1	49	1	0	0	0	0	1	0	0	0	7991	1116	39	1	1593	1	KALRN	3	124053260	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1461874	124053260	73969170	330	37010											
PLXNA1	5361	broad.mit.edu	37	chr3	126723974	126723974	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcctgacctctcagctggCgtcaactgctccttcgagga	6	10	11	14	2	2	1	2	1	1	0	5	3	3	2	3	2	4	2	3	2	1	1	rs145552902		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:126723974C>T	uc003ejg.2	+	6	1720	c.1716C>T	c.(1714-1716)GGC>GGT	p.G572G		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	595	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TCTCAGCTGGCGTCAACTGCT	0.657													10	25					0	0	1	0	0		T	126723974	T	T	126723974	2	4	49	1	0	0	0	0	0	0	0	1	12138	755	27	1		1	PLXNA1	3	126723974	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2670714	126723974	71298456	331	37011											
C3orf37	56941	broad.mit.edu	37	chr3	129007805	129007805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttcaatactaccaactgtCgtagtgataccgtaatggag	13	11	9	8	2	1	1	1	1	0	0	2	2	1	2	2	1	4	3	2	1	7	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:129007805C>T	uc003elt.2	+	3	380	c.292C>T	c.(292-294)CGT>TGT	p.R98C	C3orf37_uc003elu.2_Missense_Mutation_p.R98C|C3orf37_uc003elv.2_Missense_Mutation_p.R98C|C3orf37_uc003elw.2_Missense_Mutation_p.R98C	NM_020187	NP_064572	Q96FZ2	CC037_HUMAN	hypothetical protein LOC56941	98										ovary(1)	1						TACCAACTGTCGTAGTGATAC	0.473													4	63					0	0	1	0	0		T	129007805	T	T	129007805	3	4	49	1	0	0	0	0	1	0	0	0	2230	884	31	1	298	1	C3orf37	3	129007805	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2283831	129007805	69014625	332	37012											
ATP2C1	27032	broad.mit.edu	37	chr3	130735042	130735042	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagctggttgagatacatcCccatctggagacaggactgc	10	8	12	11	0	1	2	0	1	1	2	2	5	2	3	2	3	3	3	2	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:130735042C>A	uc011bli.1	+	28	3093	c.2873C>A	c.(2872-2874)CCC>CAC	p.P958H	ATP2C1_uc011blh.1_Missense_Mutation_p.P929H|ATP2C1_uc003enm.2_3'UTR|ATP2C1_uc003enn.2_Missense_Mutation_p.P908H|ATP2C1_uc003enp.2_3'UTR|ATP2C1_uc003enr.2_3'UTR|ATP2C1_uc003ens.2_Missense_Mutation_p.P934H|ATP2C1_uc003ent.2_Missense_Mutation_p.P924H|ASTE1_uc010htm.1_Missense_Mutation_p.G552V|ASTE1_uc003env.1_Missense_Mutation_p.G552V|ASTE1_uc011blj.1_RNA	NM_001001487	NP_001001487	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1b	Error:Variant_position_missing_in_P98194_after_alignment					actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	GAGATACATCCCCATCTGGAG	0.522									Hailey-Hailey_disease				6	71					0.0293803	0.029675	1	1	0		A	130735042	A	A	130735042	3	1	49	1	0	0	0	0	1	0	0	0	1144	623	22	5	2917	5	ATP2C1	3	130735042	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1727237	130735042	67287388	333	37013											
MRPL3	11222	broad.mit.edu	37	chr3	131208833	131208833	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctcaaattacctggtttaAttgcagcattatctgttata	12	16	5	8	0	2	0	1	0	1	0	2	0	2	0	2	1	3	4	2	1	6	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:131208833A>T	uc003eoh.2	-	5	724	c.560T>A	c.(559-561)ATT>AAT	p.I187N	MRPL3_uc011blo.1_Missense_Mutation_p.I82N|MRPL3_uc011blp.1_Missense_Mutation_p.I214N	NM_007208	NP_009139	P09001	RM03_HUMAN	mitochondrial ribosomal protein L3	187					translation	mitochondrial large ribosomal subunit	RNA binding|structural constituent of ribosome				0						ACCTGGTTTAATTGCAGCATT	0.363													12	23					0	0	1	0	0		T	131208833	T	T	131208833	3	4	49	1	0	0	0	0	1	0	0	0	9811	101	4	5	510	5	MRPL3	3	131208833	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	473791	131208833	66813597	334	37014											
COPB2	9276	broad.mit.edu	37	chr3	139085492	139085492	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcagccatgctaaagtccCtccgcatgacagctgtctgg	9	10	9	13	1	2	1	1	1	1	0	4	1	4	1	3	1	3	3	3	1	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:139085492C>A	uc003etf.3	-	15	1932	c.1802G>T	c.(1801-1803)AGG>ATG	p.R601M	COPB2_uc011bmv.1_Missense_Mutation_p.R572M|COPB2_uc010hui.2_Missense_Mutation_p.R572M	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	601					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						GCTAAAGTCCCTCCGCATGAC	0.438													7	62					0.000274275	0.000283037	1	1	0		A	139085492	A	A	139085492	3	1	49	1	0	0	0	0	1	0	0	0	3732	681	24	5	950	5	COPB2	3	139085492	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	7876659	139085492	58936938	335	37015											
SPSB4	92369	broad.mit.edu	37	chr3	140785534	140785534	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcatcgtggatggccagtaCctgggcgtggccttccgagg	5	10	15	11	3	1	0	1	0	0	0	3	2	2	1	4	5	1	1	4	5	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:140785534C>T	uc003ett.2	+	2	842	c.588C>T	c.(586-588)TAC>TAT	p.Y196Y	SPSB4_uc010hum.2_Silent_p.Y196Y	NM_080862	NP_543138	Q96A44	SPSB4_HUMAN	splA/ryanodine receptor domain and SOCS box	196	B30.2/SPRY.				intracellular signal transduction	cytoplasm	protein binding				0						ATGGCCAGTACCTGGGCGTGG	0.632													3	23					0	0	1	0	0		T	140785534	T	T	140785534	2	4	49	1	0	0	0	0	0	0	0	1	15140	518	18	4		4	SPSB4	3	140785534	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1700042	140785534	57236896	336	37016											
TFDP2	7029	broad.mit.edu	37	chr3	141688962	141688962	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccgcttctgctttatccgttCtatccgcctctgcttctcta	3	17	5	16	3	4	0	0	0	4	0	7	0	6	0	4	0	2	4	4	0	3	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:141688962C>G	uc003eun.3	-	9	1064	c.685G>C	c.(685-687)GAA>CAA	p.E229Q	TFDP2_uc003euk.3_Missense_Mutation_p.E142Q|TFDP2_uc010hur.2_Missense_Mutation_p.E169Q|TFDP2_uc003eul.3_Missense_Mutation_p.E169Q|TFDP2_uc011bnf.1_Missense_Mutation_p.E132Q|TFDP2_uc011bng.1_Missense_Mutation_p.E93Q|TFDP2_uc003eum.3_Missense_Mutation_p.E169Q	NM_006286	NP_006277	Q14188	TFDP2_HUMAN	transcription factor Dp-2 (E2F dimerization	229	Dimerization (Potential).|DCB1.				cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1						TTTATCCGTTCTATCCGCCTC	0.413													7	90					0	0	1	0	0		G	141688962	G	G	141688962	3	3	49	1	0	0	0	0	1	0	0	0	15823	922	32	5	675	5	TFDP2	3	141688962	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	903428	141688962	56333468	337	37017											
P2RY14	9934	broad.mit.edu	37	chr3	150931878	150931878	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtcaccaaggatcttgAaaggaaaagtcaggctcatc	14	8	10	9	0	4	2	3	2	1	0	5	4	4	4	1	3	0	1	1	3	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:150931878A>G	uc003eyr.1	-	3	705	c.227T>C	c.(226-228)TTC>TCC	p.F76S	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY14_uc003eys.1_Missense_Mutation_p.F76S	NM_001081455	NP_001074924	Q15391	P2Y14_HUMAN	P2Y14 receptor	76	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled|UDP-activated nucleotide receptor activity			large_intestine(2)|ovary(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AAGGATCTTGAAAGGAAAAGT	0.463													17	34					0	0	1	0	0		G	150931878	G	G	150931878	3	3	49	1	0	0	0	0	1	0	0	0	11370	246	9	3	793	3	P2RY14	3	150931878	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	9242916	150931878	47090552	338	37018											
MED12L	116931	broad.mit.edu	37	chr3	151134107	151134107	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctctttccagatgcagcAgccccagcagccccagcccc	8	5	7	21	0	1	1	0	0	1	1	2	1	2	1	8	0	6	3	8	0	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:151134107A>G	uc003eyp.2	+	41	6238	c.6200A>G	c.(6199-6201)CAG>CGG	p.Q2067R	MED12L_uc011bnz.1_Intron	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	2067	Gln-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CAGATGcagcagccccagcag	0.333													4	35					0	0	1	0	0		G	151134107	G	G	151134107	3	3	49	1	0	0	0	0	1	0	0	0	9447	188	7	3	6362	3	MED12L	3	151134107	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	202229	151134107	46888323	339	37019											
IGSF10	285313	broad.mit.edu	37	chr3	151155816	151155816	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaaatcatgtcattggaaGgcagcaaccaaaatattttt	16	11	8	6	0	2	0	2	0	0	0	2	2	2	2	1	3	2	2	1	3	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:151155816G>T	uc011bod.1	-	6	6533	c.6533C>A	c.(6532-6534)CCT>CAT	p.P2178H	IGSF10_uc011bob.1_Missense_Mutation_p.P205H|IGSF10_uc011boc.1_Missense_Mutation_p.P157H	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	2178	Ig-like C2-type 8.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GTCATTGGAAGGCAGCAACCA	0.433													4	92					0.000602214	0.000618842	1	1	0		T	151155816	T	T	151155816	3	4	49	1	0	0	0	0	1	0	0	0	7613	1000	35	5	1342	5	IGSF10	3	151155816	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	21709	151155816	46866614	340	37020											
DHX36	170506	broad.mit.edu	37	chr3	154017707	154017707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcagaaagaccagtatcGcaccatcctatatgaagggg	13	7	11	10	1	0	3	0	1	0	2	2	3	1	3	3	3	0	3	3	3	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:154017707G>A	uc003ezy.3	-	12	1550	c.1469C>T	c.(1468-1470)GCG>GTG	p.A490V	DHX36_uc010hvq.2_Missense_Mutation_p.A490V|DHX36_uc003ezz.3_Missense_Mutation_p.A490V	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	490	Helicase C-terminal.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			GACCAGTATCGCACCATCCTA	0.358													8	95					0	0	1	0	0		A	154017707	A	A	154017707	3	1	49	1	0	0	0	0	1	0	0	0	4515	1087	38	1	1613	1	DHX36	3	154017707	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2861891	154017707	44004723	341	37021											
DHX36	170506	broad.mit.edu	37	chr3	154032899	154032899	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttccaataatttttggtctAaagttccatctggttcattt	9	19	5	8	0	3	0	1	0	2	0	5	0	5	0	2	2	0	2	2	2	4	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:154032899A>G	uc003ezy.3	-	3	620	c.539T>C	c.(538-540)TTA>TCA	p.L180S	DHX36_uc010hvq.2_Missense_Mutation_p.L180S|DHX36_uc003ezz.3_Missense_Mutation_p.L180S	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	180						cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TTTTTGGTCTAAAGTTCCATC	0.284													4	31					0	0	1	0	0		G	154032899	G	G	154032899	3	3	49	1	0	0	0	0	1	0	0	0	4515	372	13	3	2579	3	DHX36	3	154032899	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	15192	154032899	43989531	342	37022											
PLCH1	23007	broad.mit.edu	37	chr3	155203168	155203168	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagagttttcttttccttcaAtgtcttttgctgtttcagat	6	21	7	7	0	4	2	2	0	2	2	5	3	5	2	1	0	1	3	1	0	1	8	rs141197506	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:155203168A>T	uc011bok.1	-	22	3252	c.2975T>A	c.(2974-2976)ATT>AAT	p.I992N	PLCH1_uc011boj.1_Missense_Mutation_p.I992N|PLCH1_uc011bol.1_Missense_Mutation_p.I954N	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	992					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TTTTCCTTCAATGTCTTTTGC	0.453													7	55					0	0	1	0	0		T	155203168	T	T	155203168	3	4	49	1	0	0	0	0	1	0	0	0	12056	101	4	5	2129	5	PLCH1	3	155203168	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1170269	155203168	42819262	343	37023											
C3orf33	285315	broad.mit.edu	37	chr3	155481323	155481323	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttcacccttttctacgaaAgtttatgcgacttataagtt	10	17	6	8	2	2	0	1	0	1	0	2	2	2	0	1	0	2	3	1	0	5	9			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:155481323A>C	uc003fal.1	-	6	1009	c.739T>G	c.(739-741)TTT>GTT	p.F247V	C3orf33_uc003fam.1_Missense_Mutation_p.F290V	NM_173657	NP_775928	Q96NB5	Q96NB5_HUMAN	hypothetical protein LOC285315	247							hydrolase activity, acting on ester bonds|nucleic acid binding				0			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TTTCTACGAAAGTTTATGCGA	0.318													6	14					0	0	1	0	0		C	155481323	C	C	155481323	3	2	49	1	0	0	0	0	1	0	0	0	2226	72	3	5	20	5	C3orf33	3	155481323	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	278155	155481323	42541107	344	37024											
VEPH1	79674	broad.mit.edu	37	chr3	157188202	157188202	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccaagcaggagtcccaGagccccacaagggcctttgc	9	7	11	14	0	0	1	0	0	0	1	2	2	2	2	5	2	3	2	5	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:157188202G>T	uc003fbj.1	-	3	572	c.255C>A	c.(253-255)CTC>CTA	p.L85L	VEPH1_uc003fbk.1_Silent_p.L85L|VEPH1_uc010hvu.1_Silent_p.L85L|VEPH1_uc003fbm.2_Silent_p.L85L|VEPH1_uc003fbn.2_Silent_p.L85L	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	85						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			AGGAGTCCCAGAGCCCCACAA	0.463													6	110					0.217242	0.217624	1	1	0		T	157188202	T	T	157188202	2	4	49	1	0	0	0	0	0	0	0	1	17180	929	33	5		5	VEPH1	3	157188202	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1706879	157188202	40834228	345	37025											
GFM1	85476	broad.mit.edu	37	chr3	158369926	158369926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattccagctgaattaagggCggcggccactgaccaccggc	9	6	13	13	3	0	2	0	2	0	0	1	3	1	2	4	4	1	1	4	4	2	2	rs150903461		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:158369926C>T	uc003fce.2	+	6	838	c.731C>T	c.(730-732)GCG>GTG	p.A244V	GFM1_uc003fcd.2_Missense_Mutation_p.A244V|GFM1_uc003fcf.2_RNA|GFM1_uc003fcg.2_Missense_Mutation_p.A175V	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor	244					mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			GAATTAAGGGCGGCGGCCACT	0.408													13	92					0	0	1	0	0		T	158369926	T	T	158369926	3	4	49	1	0	0	0	0	1	0	0	0	6356	768	27	1	753	1	GFM1	3	158369926	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1181724	158369926	39652504	346	37026											
SLC2A2	6514	broad.mit.edu	37	chr3	170725002	170725002	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaagtgctcccctgagagCggttggagcaatttcaccga	9	8	12	12	2	1	1	1	1	0	1	2	4	2	2	4	2	3	3	4	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:170725002C>T	uc003fhe.1	-	5	856	c.547G>A	c.(547-549)GCT>ACT	p.A183T	SLC2A2_uc003fhf.1_Missense_Mutation_p.A10T|SLC2A2_uc011bpu.1_Missense_Mutation_p.A56T	NM_000340	NP_000331	P11168	GTR2_HUMAN	solute carrier family 2 (facilitated glucose	183	Cytoplasmic (Potential).			A -> S (in Ref. 2; BAF83535).	carbohydrate metabolic process|cellular lipid metabolic process|endocrine pancreas development|energy reserve metabolic process|regulation of insulin secretion	integral to plasma membrane|membrane fraction	D-glucose transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2	all_cancers(22;1.41e-19)|all_lung(20;1.59e-15)|Lung NSC(18;7.08e-15)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;1.1e-14)|Lung(28;2.99e-14)			CCCCTGAGAGCGGTTGGAGCA	0.463													13	49					0	0	1	0	0		T	170725002	T	T	170725002	3	4	49	1	0	0	0	0	1	0	0	0	14569	768	27	1	1055	1	SLC2A2	3	170725002	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	12355076	170725002	27297428	347	37027											
FNDC3B	64778	broad.mit.edu	37	chr3	171965347	171965347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagatagtactggagtcCgccgggtggtggtcacaccc	8	9	14	10	2	1	2	1	1	0	1	2	3	2	3	3	4	1	1	3	4	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:171965347C>T	uc003fhy.2	+	5	461	c.289C>T	c.(289-291)CGC>TGC	p.R97C	FNDC3B_uc003fhz.3_Missense_Mutation_p.R97C|FNDC3B_uc003fia.2_Missense_Mutation_p.R28C	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	97						endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		TACTGGAGTCCGCCGGGTGGT	0.458													16	162					0	0	1	0	0		T	171965347	T	T	171965347	3	4	49	1	0	0	0	0	1	0	0	0	5984	652	23	1	303	1	FNDC3B	3	171965347	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1240345	171965347	26057083	348	37028											
CCDC39	339829	broad.mit.edu	37	chr3	180334112	180334112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagatctagagctctgacGactgccttttgtgctagctg	8	12	12	9	1	2	3	0	1	2	2	2	5	2	3	1	1	4	3	1	1	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:180334112G>A	uc010hxe.2	-	19	2741	c.2626C>T	c.(2626-2628)CGT>TGT	p.R876C	CCDC39_uc003fkn.2_RNA|TTC14_uc003fkm.2_Intron	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	876	Ser-rich.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			GAGCTCTGACGACTGCCTTTT	0.383													14	46					0	0	1	0	0		A	180334112	A	A	180334112	3	1	49	1	0	0	0	0	1	0	0	0	2814	1058	37	1	207	1	CCDC39	3	180334112	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8368765	180334112	17688318	349	37029											
EIF2B5	8893	broad.mit.edu	37	chr3	183857942	183857942	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaggtctcttagtgaatgaGgaggtgagaaaagtcttcca	12	10	13	6	1	2	3	0	3	2	1	4	6	3	4	1	3	0	0	1	3	4	2	rs138820746		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:183857942G>T	uc003fmp.2	+	6	1204	c.840G>T	c.(838-840)GAG>GAT	p.E280D	EIF2B5_uc003fmq.2_Translation_Start_Site	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	280					astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			TAGTGAATGAGGAGGTGAGAA	0.428													4	33					3.59834e-05	3.74717e-05	1	1	0		T	183857942	T	T	183857942	3	4	49	1	0	0	0	0	1	0	0	0	5010	991	35	5	862	5	EIF2B5	3	183857942	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3523830	183857942	14164488	350	37030											
MASP1	5648	broad.mit.edu	37	chr3	186978565	186978565	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtgtggaggatgtagcCgaagcggcaggagcagtagt	9	8	18	6	2	1	0	0	0	1	0	1	4	1	3	1	4	3	4	1	4	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:186978565C>T	uc003frh.1	-	4	843	c.511G>A	c.(511-513)GGC>AGC	p.G171S	MASP1_uc003fri.2_Missense_Mutation_p.G171S|MASP1_uc003frj.2_Missense_Mutation_p.G140S|MASP1_uc003frk.1_Missense_Mutation_p.G171S|MASP1_uc011bse.1_Missense_Mutation_p.G145S	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	171	Interaction with FCN2.|Interaction with MBL2.|EGF-like; calcium-binding.|Homodimerization (By similarity).				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		AGGATGTAGCCGAAGCGGCAG	0.522													6	78					0	0	1	0	0		T	186978565	T	T	186978565	3	4	49	1	0	0	0	0	1	0	0	0	9340	652	23	1	2585	1	MASP1	3	186978565	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3120623	186978565	11043865	351	37031											
IL1RAP	3556	broad.mit.edu	37	chr3	190322009	190322009	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgcccactctttgaacacTtcttgaaattcaactacagc	12	12	5	12	0	3	2	1	2	2	0	3	2	3	2	1	0	5	0	1	0	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:190322009T>G	uc003fsm.1	+	4	363	c.157T>G	c.(157-159)TTC>GTC	p.F53V	IL1RAP_uc003fsk.2_Missense_Mutation_p.F53V|IL1RAP_uc003fsl.2_Missense_Mutation_p.F53V|IL1RAP_uc010hzf.2_Intron|IL1RAP_uc010hzg.1_Missense_Mutation_p.F53V|IL1RAP_uc003fsn.1_RNA|IL1RAP_uc003fso.1_Missense_Mutation_p.F53V|IL1RAP_uc003fsp.1_RNA|IL1RAP_uc003fsq.2_Missense_Mutation_p.F53V	NM_002182	NP_002173	Q9NPH3	IL1AP_HUMAN	interleukin 1 receptor accessory protein isoform	53	Ig-like C2-type 1.|Extracellular (Potential).				inflammatory response|innate immune response|protein complex assembly	extracellular region|integral to plasma membrane				ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0733)|Breast(254;0.21)		Lung(62;1.95e-06)|LUSC - Lung squamous cell carcinoma(58;2.05e-06)	GBM - Glioblastoma multiforme(93;0.00851)		CTTTGAACACTTCTTGAAATT	0.498													4	110					0	0	1	0	0		G	190322009	G	G	190322009	3	3	49	1	0	0	0	0	1	0	0	0	7676	1609	56	5	163	5	IL1RAP	3	190322009	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3343444	190322009	7700421	352	37032											
ATP13A4	84239	broad.mit.edu	37	chr3	193158373	193158373	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgaaattcttccaccagActggacttctgcccaggaga	10	11	8	12	0	3	3	0	1	3	2	4	5	4	4	3	2	1	0	3	2	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:193158373A>T	uc003ftd.2	-	21	2601	c.2493T>A	c.(2491-2493)AGT>AGA	p.S831R	ATP13A4_uc003fte.1_Missense_Mutation_p.S831R|ATP13A4_uc011bsr.1_Missense_Mutation_p.S302R|ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	831	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		CTTCCACCAGACTGGACTTCT	0.458													8	61					0	0	1	0	0		T	193158373	T	T	193158373	3	4	49	1	0	0	0	0	1	0	0	0	1127	272	10	5	1137	5	ATP13A4	3	193158373	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2836364	193158373	4864057	353	37033											
MUC4	4585	broad.mit.edu	37	chr3	195486030	195486030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgcagctgtctctgagcGtgaagttggcatcctcagca	7	10	13	11	2	2	2	1	2	1	0	4	2	3	2	1	2	4	5	1	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:195486030G>A	uc011bto.1	-	18	15027	c.14567C>T	c.(14566-14568)ACG>ATG	p.T4856M	MUC4_uc003fuz.2_Missense_Mutation_p.T582M|MUC4_uc003fva.2_Missense_Mutation_p.T464M|MUC4_uc003fvb.2_Missense_Mutation_p.T500M|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.T500M|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.T464M|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.T548M|MUC4_uc011bti.1_Missense_Mutation_p.T548M|MUC4_uc011btj.1_Missense_Mutation_p.T725M|MUC4_uc011btk.1_Missense_Mutation_p.T464M|MUC4_uc011btl.1_Missense_Mutation_p.T493M|MUC4_uc011btm.1_Missense_Mutation_p.T673M|MUC4_uc011btn.1_Missense_Mutation_p.T464M|MUC4_uc003fvo.2_Missense_Mutation_p.T748M|MUC4_uc003fvp.2_Missense_Mutation_p.T697M	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1741					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GTCTCTGAGCGTGAAGTTGGC	0.552													50	409					0	0	1	0	0		A	195486030	A	A	195486030	3	1	49	1	0	0	0	0	1	0	0	0	9996	1145	40	1	1323	1	MUC4	3	195486030	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2327657	195486030	2536400	354	37034											
ZDHHC19	131540	broad.mit.edu	37	chr3	195925221	195925221	+	Frame_Shift_Del	DEL	G	-	-																															gggacccagaggttggggctGgggggttgagagcagagggg																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:195925221delG	uc003fwc.2	-	7	989	c.875delC	c.(874-876)CCAfs	p.P292fs	ZDHHC19_uc010hzz.2_RNA|ZDHHC19_uc010iaa.2_RNA|ZDHHC19_uc010iab.2_Intron	NM_001039617	NP_001034706	Q8WVZ1	ZDH19_HUMAN	zinc finger, DHHC domain containing 19	292						integral to membrane	acyltransferase activity|zinc ion binding			ovary(3)	3	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.89e-25)|all cancers(36;1.46e-23)|OV - Ovarian serous cystadenocarcinoma(49;2.1e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0022)		GGTTGGGGCTGGGGGGTTGAG	0.627													26	53	---	---	---	---						.	-	195925221	-	-	195925221	7	5	49	1	0	1	0	1	0	0	0	0	17634	1348	47	0	58	0	ZDHHC19	3	195925221	Frame_Shift_Del	DEL	G	TCGA-BR-7707-01A-11D-2053-08	439191	195925221	2097209	355	37035											
PAK2	5062	broad.mit.edu	37	chr3	196509660	196509660	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgttccagaagagaaaaAgcccaggcataaaatcatct	16	8	7	10	0	3	2	1	0	2	2	4	3	4	2	2	1	1	2	2	1	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:196509660A>G	uc003fwy.3	+	2	465	c.143A>G	c.(142-144)AAG>AGG	p.K48R		NM_002577	NP_002568	Q13177	PAK2_HUMAN	p21-activated kinase 2	48					axon guidance|cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of apoptosis|regulation of defense response to virus by virus|regulation of growth|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|nucleus|perinuclear region of cytoplasm|plasma membrane	ATP binding|identical protein binding|protein kinase binding|protein serine/threonine kinase activity|protein tyrosine kinase activator activity			ovary(1)|lung(1)	2	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00405)		GAAGAGAAAAAGCCCAGGCAT	0.443													14	143					0	0	1	0	0		G	196509660	G	G	196509660	3	3	49	1	0	0	0	0	1	0	0	0	11420	72	3	3	145	3	PAK2	3	196509660	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	584439	196509660	1512770	356	37036											
MFI2	4241	broad.mit.edu	37	chr3	196735572	196735572	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcctgacgaaggcaacgTcacccgcattctccaccagg	9	7	10	15	3	2	1	1	1	1	0	3	2	2	1	4	2	2	2	4	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr3:196735572T>C	uc003fxk.3	-	13	1819	c.1706A>G	c.(1705-1707)GAC>GGC	p.D569G		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	569	Transferrin-like 2.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		GAAGGCAACGTCACCCGCATT	0.637													5	48					0	0	1	0	0		C	196735572	C	C	196735572	3	2	49	1	0	0	0	0	1	0	0	0	9540	1667	58	3	526	3	MFI2	3	196735572	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	225912	196735572	1286858	357	37037											
ZNF721	170960	broad.mit.edu	37	chr4	436908	436908	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtataaaggctttcccacAttctttacatttgtagggtt	10	17	7	7	0	1	0	0	0	1	0	2	0	2	0	1	2	1	4	1	2	5	9			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:436908A>G	uc003gag.2	-	3	2039	c.1348T>C	c.(1348-1350)TGT>CGT	p.C450R	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.C482R|ZNF721_uc010ibe.2_Missense_Mutation_p.C438R	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	450						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GCTTTCCCACATTCTTTACAT	0.368													6	42					0	0	1	0	0		G	436908	G	G	436908	3	3	49	1	0	0	0	0	1	0	0	0	18147	217	8	3	1427	3	ZNF721	4	436908	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08		436908	190717368	358	37038											
PIGG	54872	broad.mit.edu	37	chr4	501310	501310	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacatttcagggcccaacagCcccctgattgggcagaagct	10	7	10	14	0	1	2	1	1	0	1	1	2	1	2	3	2	3	2	3	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:501310C>T	uc003gak.3	+	4	823	c.687C>T	c.(685-687)AGC>AGT	p.S229S	PIGG_uc003gaj.3_Silent_p.S229S|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Intron|PIGG_uc003gal.3_Silent_p.S140S|PIGG_uc003gai.2_RNA|PIGG_uc011buw.1_Silent_p.S107S|PIGG_uc003gam.2_Silent_p.S140S|PIGG_uc003gan.2_Silent_p.S140S	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	229	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						GGCCCAACAGCCCCCTGATTG	0.537													4	32					0	0	1	0	0		T	501310	T	T	501310	2	4	49	1	0	0	0	0	0	0	0	1	11907	738	26	2		2	PIGG	4	501310	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	64402	501310	190652966	359	37039											
PCGF3	10336	broad.mit.edu	37	chr4	727562	727562	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgacgccaccacggtgacCgagtgtctgcacacctgtac	9	7	10	15	4	1	1	0	1	1	0	2	3	1	1	4	1	2	2	4	1	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:727562C>T	uc011bva.1	+	5	568	c.93C>T	c.(91-93)ACC>ACT	p.T31T	PCGF3_uc003gbc.1_RNA|PCGF3_uc003gbd.1_RNA|PCGF3_uc003gbe.2_Silent_p.T31T|PCGF3_uc010ibh.2_Silent_p.T31T|PCGF3_uc003gbg.1_5'Flank|PCGF3_uc003gbh.2_5'Flank	NM_006315	NP_006306	Q3KNV8	PCGF3_HUMAN	ring finger protein 3	31	RING-type.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	PcG protein complex	zinc ion binding				0						CCACGGTGACCGAGTGTCTGC	0.612													5	65					0	0	1	0	0		T	727562	T	T	727562	2	4	49	1	0	0	0	0	0	0	0	1	11595	639	23	1		1	PCGF3	4	727562	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	226252	727562	190426714	360	37040											
KIAA1530	57654	broad.mit.edu	37	chr4	1348977	1348977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaggctgaattggagctcGtactgagaaaatacaaggag	15	8	13	5	1	0	3	0	3	0	1	1	6	0	5	0	3	3	3	0	3	7	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:1348977G>A	uc003gde.3	+	7	1567	c.1120G>A	c.(1120-1122)GTA>ATA	p.V374I		NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	374											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			ATTGGAGCTCGTACTGAGAAA	0.617													3	22					0	0	1	0	0		A	1348977	A	A	1348977	3	1	49	1	0	0	0	0	1	0	0	0	8257	1145	40	1	1142	1	KIAA1530	4	1348977	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	621415	1348977	189805299	361	37041											
CRIPAK	285464	broad.mit.edu	37	chr4	1389008	1389008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcacacgtgccgatgcGgagtgcccgcctgctcacac	6	7	11	17	4	2	0	2	0	0	0	2	2	2	1	3	1	5	2	3	1	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:1389008G>A	uc003gdf.2	+	1	3669	c.709G>A	c.(709-711)GGA>AGA	p.G237R		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	237	6.				ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			GTGCCGATGCGGAGTGCCCGC	0.677													43	409					0	0	1	0	0		A	1389008	A	A	1389008	3	1	49	1	0	0	0	0	1	0	0	0	3880	1117	39	1	711	1	CRIPAK	4	1389008	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	40031	1389008	189765268	362	37042											
WHSC1	7468	broad.mit.edu	37	chr4	1976611	1976611	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accgtataatagacgctggcCccaaaggaaactactctcga	14	7	8	12	3	1	1	0	0	1	1	2	3	1	2	3	2	2	2	3	2	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:1976611C>A	uc003gdz.3	+	19	3570	c.3394C>A	c.(3394-3396)CCC>ACC	p.P1132T	WHSC1_uc003geb.3_Missense_Mutation_p.P1132T|WHSC1_uc003gec.3_Missense_Mutation_p.P1132T|WHSC1_uc003ged.3_Missense_Mutation_p.P1132T|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gei.3_Missense_Mutation_p.P351T|WHSC1_uc011bvh.1_Missense_Mutation_p.P193T|WHSC1_uc010icf.2_Missense_Mutation_p.P480T	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	1132	SET.				anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		AGACGCTGGCCCCAAAGGAAA	0.453			T	IGH@	MM								12	111					7.93312e-07	8.38364e-07	1	1	0		A	1976611	A	A	1976611	3	1	49	1	0	0	0	0	1	0	0	0	17388	623	22	5	3540	5	WHSC1	4	1976611	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	587603	1976611	189177665	363	37043											
POLN	353497	broad.mit.edu	37	chr4	2082734	2082734	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtgaagacatggatcaTggccagcttgcagaggtcag	11	8	14	8	0	2	3	2	1	0	2	2	4	2	4	1	3	3	3	1	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:2082734T>C	uc003ger.2	-	21	2338	c.2338A>G	c.(2338-2340)ATG>GTG	p.M780V	POLN_uc010icg.1_Missense_Mutation_p.M228V|POLN_uc010ich.1_3'UTR	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	780					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			ACATGGATCATGGCCAGCTTG	0.587								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					8	110					0	0	1	0	0		C	2082734	C	C	2082734	3	2	49	1	0	0	0	0	1	0	0	0	12226	1464	51	3	380	3	POLN	4	2082734	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	106123	2082734	189071542	364	37044											
FAM193A	8603	broad.mit.edu	37	chr4	2701952	2701952	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggccagcagcgagccagcGaggaggcccacagagccccc	11	0	14	16	2	0	1	0	0	0	1	0	4	0	2	5	3	5	1	5	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:2701952G>A	uc010icl.2	+	17	3531	c.3180G>A	c.(3178-3180)GCG>GCA	p.A1060A	FAM193A_uc010ick.2_Silent_p.A1260A|FAM193A_uc003gfd.2_Silent_p.A1060A|FAM193A_uc011bvm.1_Silent_p.A1082A|FAM193A_uc011bvn.1_Silent_p.A1060A|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Silent_p.A914A	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	1060										ovary(3)	3						GCGAGCCAGCGAGGAGGCCCA	0.582													8	21					0	0	1	0	0		A	2701952	A	A	2701952	2	1	49	1	0	0	0	0	0	0	0	1	5535	1045	37	1		1	FAM193A	4	2701952	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	619218	2701952	188452324	365	37045											
NOP14	8602	broad.mit.edu	37	chr4	2948140	2948140	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagactgaactctgcttaccAcatccaaccctggcaatgcc	11	9	6	15	0	1	2	0	1	1	1	2	2	2	2	4	1	5	2	4	1	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:2948140A>G	uc003ggj.1	-	11	1706	c.1634T>C	c.(1633-1635)GTG>GCG	p.V545A	C4orf10_uc003gge.1_Intron|C4orf10_uc003ggh.2_Intron|C4orf10_uc003ggi.1_Intron|NOP14_uc010icp.2_Missense_Mutation_p.V291A|NOP14_uc003ggk.3_Missense_Mutation_p.V545A|NOP14_uc003ggl.2_Missense_Mutation_p.V545A	NM_003703	NP_003694	P78316	NOP14_HUMAN	probable nucleolar complex protein 14	545					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	mitochondrion|Noc4p-Nop14p complex|small-subunit processome	snoRNA binding			pancreas(1)	1						TCTGCTTACCACATCCAACCC	0.522													10	129					0	0	1	0	0		G	2948140	G	G	2948140	3	3	49	1	0	0	0	0	1	0	0	0	10555	173	6	3	971	3	NOP14	4	2948140	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	246188	2948140	188206136	366	37046											
EVC2	132884	broad.mit.edu	37	chr4	5687115	5687115	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccgtgacgagctctgaaaGgtgagttgggcaggaagctt	10	8	15	8	2	1	3	0	3	1	0	1	5	1	4	1	3	2	4	1	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:5687115G>T	uc003gij.2	-	6	852	c.798C>A	c.(796-798)ACC>ACA	p.T266T	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Silent_p.T186T	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	266						integral to membrane				large_intestine(3)|ovary(2)	5						AGCTCTGAAAGGTGAGTTGGG	0.532													8	122					0.00621372	0.00632454	1	1	0		T	5687115	T	T	5687115	2	4	49	1	0	0	0	0	0	0	0	1	5294	987	35	5		5	EVC2	4	5687115	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2738975	5687115	185467161	367	37047											
MAN2B2	23324	broad.mit.edu	37	chr4	6619137	6619137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcccaggctgacctccGccgtgtcctgctgcggctct	4	8	13	16	3	1	1	0	1	1	0	3	2	3	2	5	3	3	3	5	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:6619137G>A	uc003gjf.1	+	17	2768	c.2732G>A	c.(2731-2733)CGC>CAC	p.R911H	MAN2B2_uc003gje.1_Missense_Mutation_p.R911H|MAN2B2_uc011bwf.1_Missense_Mutation_p.R860H	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	911					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						GCTGACCTCCGCCGTGTCCTG	0.597													26	72					0	0	1	0	0		A	6619137	A	A	6619137	3	1	49	1	0	0	0	0	1	0	0	0	9235	1087	38	1	2798	1	MAN2B2	4	6619137	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	932022	6619137	184535139	368	37048											
CCDC96	257236	broad.mit.edu	37	chr4	7043253	7043253	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatgtctcttcctagggcGgcctgggcctcgatttctgc	4	12	13	12	2	2	0	0	0	2	0	5	2	3	1	3	4	1	0	3	4	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:7043253G>A	uc003gjv.2	-	1	1476	c.1413C>T	c.(1411-1413)GCC>GCT	p.A471A	TADA2B_uc003gjw.3_5'Flank|TADA2B_uc010idi.2_5'Flank	NM_153376	NP_699207	Q2M329	CCD96_HUMAN	coiled-coil domain containing 96	471											0						TTCCTAGGGCGGCCTGGGCCT	0.547													70	176					0	0	1	0	0		A	7043253	A	A	7043253	2	1	49	1	0	0	0	0	0	0	0	1	2877	1103	39	1		1	CCDC96	4	7043253	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	424116	7043253	184111023	369	37049											
SH3TC1	54436	broad.mit.edu	37	chr4	8229226	8229226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctgttcctagtggtggCtgtgtacgccaacctggcca	6	10	13	12	1	0	0	0	0	0	0	1	1	1	1	5	4	2	3	5	4	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:8229226C>T	uc003gkv.3	+	12	1906	c.1805C>T	c.(1804-1806)GCT>GTT	p.A602V	SH3TC1_uc003gkw.3_Missense_Mutation_p.A526V|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	602	TPR 2.						binding			large_intestine(2)|pancreas(1)	3						CTAGTGGTGGCTGTGTACGCC	0.637													31	96					0	0	1	0	0		T	8229226	T	T	8229226	3	4	49	1	0	0	0	0	1	0	0	0	14286	797	28	2	1847	2	SH3TC1	4	8229226	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1185973	8229226	182925050	370	37050											
LDB2	9079	broad.mit.edu	37	chr4	16590355	16590355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatggctaggatgcttctcGggactaactctcggtattgt	7	13	12	9	2	2	0	0	0	2	0	4	2	2	2	0	4	2	4	0	4	3	5	rs138524887		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:16590355G>A	uc003goz.2	-	4	825	c.509C>T	c.(508-510)CCG>CTG	p.P170L	LDB2_uc003gpa.2_Missense_Mutation_p.P170L|LDB2_uc003gpb.2_Missense_Mutation_p.P170L|LDB2_uc011bxh.1_Missense_Mutation_p.P170L|LDB2_uc010iee.2_Missense_Mutation_p.P170L|LDB2_uc003goy.2_Missense_Mutation_p.P46L|LDB2_uc011bxi.1_Missense_Mutation_p.P46L	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	170							LIM domain binding|transcription cofactor activity				0						GATGCTTCTCGGGACTAACTC	0.393													9	91					0	0	1	0	0		A	16590355	A	A	16590355	3	1	49	1	0	0	0	0	1	0	0	0	8712	1116	39	1	741	1	LDB2	4	16590355	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8361129	16590355	174563921	371	37051											
LCORL	254251	broad.mit.edu	37	chr4	17964593	17964593	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatagcactaaaacttacActgactgcttctctctgtag	11	14	5	11	0	3	1	1	1	2	0	4	1	3	1	0	0	4	3	0	0	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:17964593A>G	uc003gpq.2	-	3	311	c.300T>C	c.(298-300)AGT>AGC	p.S100S	LCORL_uc011bxk.1_Intron	NM_153686	NP_710153	Q8N3X6	LCORL_HUMAN	ligand dependent nuclear receptor	100					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0						TAAAACTTACACTGACTGCTT	0.313													3	62					0	0	1	0	0		G	17964593	G	G	17964593	2	3	49	1	0	0	0	0	0	0	0	1	8706	173	6	3		3	LCORL	4	17964593	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1374238	17964593	173189683	372	37052											
GPR125	166647	broad.mit.edu	37	chr4	22422539	22422539	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agactcgaaaatgtatttgaAacattgcacttaaagctcag	16	11	7	7	1	1	2	1	1	0	1	2	3	1	2	0	0	3	3	0	0	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:22422539A>G	uc003gqm.1	-	12	2044	c.1779T>C	c.(1777-1779)GTT>GTC	p.V593V	GPR125_uc010ieo.1_Silent_p.V467V|GPR125_uc003gqn.1_Silent_p.V367V|GPR125_uc003gqo.2_Silent_p.V593V	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	593	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				ATGTATTTGAAACATTGCACT	0.418													22	251					0	0	1	0	0		G	22422539	G	G	22422539	2	3	49	1	0	0	0	0	0	0	0	1	6654	1	1	3		3	GPR125	4	22422539	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4457946	22422539	168731737	373	37053											
PPARGC1A	10891	broad.mit.edu	37	chr4	23831131	23831131	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgtgattgtgatttgcAtggttctgggtactgagacc	7	15	12	7	0	1	3	0	3	1	1	2	4	2	3	2	2	2	3	2	2	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:23831131A>G	uc003gqs.2	-	4	627	c.507T>C	c.(505-507)CAT>CAC	p.H169H	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	169					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				TGTGATTTGCATGGTTCTGGG	0.403													6	59					0	0	1	0	0		G	23831131	G	G	23831131	2	3	49	1	0	0	0	0	0	0	0	1	12319	214	8	3		3	PPARGC1A	4	23831131	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1408592	23831131	167323145	374	37054											
KLF3	51274	broad.mit.edu	37	chr4	38696378	38696378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttcacaggaatcacccttCggtcatcgtgcagcctggga	8	10	10	13	2	3	0	3	0	0	0	5	2	3	2	2	3	2	1	2	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:38696378C>T	uc003gth.3	+	5	1039	c.707C>T	c.(706-708)TCG>TTG	p.S236L		NM_016531	NP_057615	P57682	KLF3_HUMAN	Kruppel-like factor 3 (basic)	236	Pro-rich.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						AATCACCCTTCGGTCATCGTG	0.463													9	143					0	0	1	0	0		T	38696378	T	T	38696378	3	4	49	1	0	0	0	0	1	0	0	0	8363	893	31	1	721	1	KLF3	4	38696378	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	14865247	38696378	152457898	375	37055											
TMEM156	80008	broad.mit.edu	37	chr4	38990475	38990475	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagggattatacttactctgCcacttttgcactcttctctg	7	16	6	12	0	3	0	0	0	3	0	4	1	3	1	1	1	4	1	1	1	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:38990475C>T	uc003gto.2	-	4	843	c.735G>A	c.(733-735)TGG>TGA	p.W245*	TMEM156_uc010ifj.2_Nonsense_Mutation_p.W245*	NM_024943	NP_079219	Q8N614	TM156_HUMAN	transmembrane protein 156	245	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						ACTTACTCTGCCACTTTTGCA	0.313													50	146					0	0	1	0	0		T	38990475	T	T	38990475	4	4	49	1	0	0	0	0	0	1	0	0	16098	740	26	2	167	2	TMEM156	4	38990475	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	294097	38990475	152163801	376	37056											
RBM47	54502	broad.mit.edu	37	chr4	40428030	40428030	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcggccgcggctgccgcgTtcttctgtagtgtggcgatc	2	11	16	12	6	2	0	0	0	2	0	3	1	2	0	2	4	1	3	2	4	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:40428030T>C	uc003gvc.2	-	7	2383	c.1673A>G	c.(1672-1674)AAC>AGC	p.N558S	RBM47_uc003gvd.2_Missense_Mutation_p.N489S|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Missense_Mutation_p.N520S	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	558	Ala-rich.					nucleus	nucleotide binding|RNA binding			breast(3)	3						GGCTGCCGCGTTCTTCTGTAG	0.597													7	70					0	0	1	0	0		C	40428030	C	C	40428030	3	2	49	1	0	0	0	0	1	0	0	0	13166	1725	60	3	112	3	RBM47	4	40428030	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1437555	40428030	150726246	377	37057											
LIMCH1	22998	broad.mit.edu	37	chr4	41621389	41621390	+	Frame_Shift_Del	DEL	AG	-	-																															cctctgagaaagaagaaagcAgagagagaggaataccgcaa																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:41621389_41621390delAG	uc003gvu.3	+	8	921_922	c.867_868delAG	c.(865-870)GCAGAGfs	p.A289fs	LIMCH1_uc003gvt.1_Frame_Shift_Del_p.A130fs|LIMCH1_uc003gvv.3_Frame_Shift_Del_p.A289fs|LIMCH1_uc003gvw.3_Frame_Shift_Del_p.A289fs|LIMCH1_uc003gvx.3_Frame_Shift_Del_p.A289fs|LIMCH1_uc003gwe.3_Frame_Shift_Del_p.A289fs|LIMCH1_uc003gvy.3_Frame_Shift_Del_p.A130fs|LIMCH1_uc003gwa.3_Frame_Shift_Del_p.A130fs|LIMCH1_uc003gvz.3_Frame_Shift_Del_p.A130fs|LIMCH1_uc011byu.1_Frame_Shift_Del_p.A135fs|LIMCH1_uc003gwc.3_Frame_Shift_Del_p.A135fs|LIMCH1_uc003gwd.3_Frame_Shift_Del_p.A135fs|LIMCH1_uc011byv.1_Frame_Shift_Del_p.A40fs|LIMCH1_uc003gwb.1_Frame_Shift_Del_p.A137fs	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	289_290					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						AGAAGAAAGCAGAGAGAGAGGA	0.594													18	40	---	---	---	---						.	-	41621390	-	-	41621389	7	5	49	1	0	1	0	1	0	0	0	0	8813	175	7	0	925	0	LIMCH1	4	41621389	Frame_Shift_Del	DEL	AG	TCGA-BR-7707-01A-11D-2053-08	1193359	41621389	149532887	378	37058											
LIMCH1	22998	broad.mit.edu	37	chr4	41694373	41694373	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcgaaatggtctcctgaaCtgtaatgattgctacatgcg	11	13	9	8	2	1	2	0	2	1	0	3	3	1	2	1	1	4	2	1	1	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:41694373C>T	uc003gvu.3	+	26	3252	c.3198C>T	c.(3196-3198)AAC>AAT	p.N1066N	LIMCH1_uc003gvv.3_Silent_p.N1040N|LIMCH1_uc003gvw.3_Silent_p.N1039N|LIMCH1_uc003gvx.3_Silent_p.N1052N|LIMCH1_uc003gwe.3_Silent_p.N963N|LIMCH1_uc003gvy.3_Silent_p.N868N|LIMCH1_uc003gwa.3_Silent_p.N880N|LIMCH1_uc003gvz.3_Silent_p.N1450N|LIMCH1_uc011byu.1_Silent_p.N899N|LIMCH1_uc003gwc.3_Silent_p.N885N|LIMCH1_uc003gwd.3_Silent_p.N873N|LIMCH1_uc011byv.1_Silent_p.N816N|LIMCH1_uc011byw.1_Silent_p.N339N|LIMCH1_uc010ifv.2_5'Flank	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	1066	LIM zinc-binding.				actomyosin structure organization		actin binding|zinc ion binding	p.N1066H(1)		ovary(2)|pancreas(1)|skin(1)	4						GTCTCCTGAACTGTAATGATT	0.438													6	98					0	0	1	0	0		T	41694373	T	T	41694373	2	4	49	1	0	0	0	0	0	0	0	1	8813	564	20	4		4	LIMCH1	4	41694373	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	72984	41694373	149459903	379	37059											
SRP72	6731	broad.mit.edu	37	chr4	57340534	57340534	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccagctgaaccaggccaTgaaaatcctacaaaaagctg	16	5	9	11	0	0	2	0	2	0	0	1	2	1	2	4	2	4	2	4	2	6	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:57340534T>C	uc003hbv.2	+	5	627	c.587T>C	c.(586-588)ATG>ACG	p.M196T	SRP72_uc010ihe.2_Missense_Mutation_p.M196T|SRP72_uc003hbw.1_Missense_Mutation_p.M1T	NM_006947	NP_008878	O76094	SRP72_HUMAN	signal recognition particle 72kDa	196					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|nucleolus|plasma membrane|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding			ovary(1)	1	Glioma(25;0.08)|all_neural(26;0.101)					AACCAGGCCATGAAAATCCTA	0.433													10	62					0	0	1	0	0		C	57340534	C	C	57340534	3	2	49	1	0	0	0	0	1	0	0	0	15182	1464	51	3	605	3	SRP72	4	57340534	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	15646161	57340534	133813742	380	37060											
RUFY3	22902	broad.mit.edu	37	chr4	71588444	71588444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggatgacatctcacttacaCctgacccagagcctacccat	11	9	6	15	0	1	3	1	2	1	1	2	4	1	4	4	1	3	0	4	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:71588444C>T	uc003hfq.2	+	1	749	c.154C>T	c.(154-156)CCT>TCT	p.P52S	RUFY3_uc003hfp.3_Intron|RUFY3_uc011cax.1_Missense_Mutation_p.P52S|RUFY3_uc003hfr.2_Missense_Mutation_p.P52S	NM_014961	NP_055776	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 2	52					negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			CTCACTTACACCTGACCCAGA	0.537													6	100					0	0	1	0	0		T	71588444	T	T	71588444	3	4	49	1	0	0	0	0	1	0	0	0	13765	507	18	4	518	4	RUFY3	4	71588444	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	14247910	71588444	119565832	381	37061											
ANKRD17	26057	broad.mit.edu	37	chr4	73943097	73943097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttaggaaagtccatgtagCctgcaggaacatgctgatgg	11	10	12	8	0	0	1	0	1	0	0	1	3	1	3	2	3	4	3	2	3	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:73943097C>T	uc003hgp.2	-	32	7679	c.7562G>A	c.(7561-7563)GGC>GAC	p.G2521D	ANKRD17_uc003hgo.2_Missense_Mutation_p.G2408D|ANKRD17_uc003hgq.2_Missense_Mutation_p.G2270D|ANKRD17_uc003hgr.2_Missense_Mutation_p.G2520D	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	2521					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GTCCATGTAGCCTGCAGGAAC	0.393													6	104					0	0	1	0	0		T	73943097	T	T	73943097	3	4	49	1	0	0	0	0	1	0	0	0	646	739	26	2	261	2	ANKRD17	4	73943097	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2354653	73943097	117211179	382	37062											
MTHFD2L	441024	broad.mit.edu	37	chr4	75065537	75065537	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgagcgaacaatatgcAatggaattgccccagaaaaa	17	8	9	7	1	0	3	0	2	0	1	0	5	0	4	2	1	4	1	2	1	7	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:75065537A>G	uc003hhn.1	+	7	822	c.304A>G	c.(304-306)AAT>GAT	p.N102D	MTHFD2L_uc011cbj.1_Missense_Mutation_p.N102D|MTHFD2L_uc011cbk.1_Missense_Mutation_p.N160D	NM_001144978	NP_001138450	Q9H903	MTD2L_HUMAN	methylenetetrahydrofolate dehydrogenase 2-like	102					folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process		binding|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NAD+) activity			ovary(1)|central_nervous_system(1)	2			all cancers(17;0.0101)|Lung(101;0.196)			AACAATATGCAATGGAATTGC	0.323													11	88					0	0	1	0	0		G	75065537	G	G	75065537	3	3	49	1	0	0	0	0	1	0	0	0	9948	130	5	3	492	3	MTHFD2L	4	75065537	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1122440	75065537	116088739	383	37063											
KLHL8	57563	broad.mit.edu	37	chr4	88116474	88116474	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacaaaaaaggcaatctcAccttgagtgtgacatcacag	16	8	8	9	0	2	2	2	2	1	0	3	2	2	2	1	1	1	2	1	1	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:88116474A>G	uc011cdb.1	-	2	601	c.216_splice	c.e2+1	p.K72_splice	KLHL8_uc003hql.1_Splice_Site_p.K72_splice|KLHL8_uc003hqm.1_Splice_Site_p.K72_splice|KLHL8_uc003hqn.1_Splice_Site_p.K72_splice|KLHL8_uc010ikj.1_Splice_Site	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8												0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		AGGCAATCTCACCTTGAGTGT	0.353													7	25					0	0	1	0	0		G	88116474	G	G	88116474	5	3	49	1	0	0	0	0	0	0	1	0	8411	173	6	3	1680	3	KLHL8	4	88116474	Splice_Site	SNP	A	TCGA-BR-7707-01A-11D-2053-08	13050937	88116474	103037802	384	37064											
SPARCL1	8404	broad.mit.edu	37	chr4	88403698	88403698	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaatcacttcaaagtccgTacaagtaggaatagctgtta	14	11	8	8	1	2	1	2	1	0	0	3	2	3	2	1	1	2	4	1	1	8	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:88403698T>C	uc010ikm.2	-	9	2118	c.1546A>G	c.(1546-1548)ACG>GCG	p.T516A	SPARCL1_uc011cdc.1_Missense_Mutation_p.T391A|SPARCL1_uc003hqs.3_Missense_Mutation_p.T516A|SPARCL1_uc011cdd.1_Missense_Mutation_p.T391A	NM_001128310	NP_001121782	Q14515	SPRL1_HUMAN	SPARC-like 1 precursor	516					signal transduction	extracellular space|proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00118)		TCAAAGTCCGTACAAGTAGGA	0.413													5	57					0	0	1	0	0		C	88403698	C	C	88403698	3	2	49	1	0	0	0	0	1	0	0	0	15021	1638	57	3	464	3	SPARCL1	4	88403698	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	287224	88403698	102750578	385	37065											
SPARCL1	8404	broad.mit.edu	37	chr4	88411935	88411935	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcaaggggttttgttggagGacaagtcactggatcctggc	9	11	14	7	0	2	0	2	0	0	0	3	3	3	3	1	6	0	2	1	6	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:88411935G>T	uc010ikm.2	-	7	1959	c.1387C>A	c.(1387-1389)CCT>ACT	p.P463T	SPARCL1_uc011cdc.1_Missense_Mutation_p.P338T|SPARCL1_uc003hqs.3_Missense_Mutation_p.P463T|SPARCL1_uc011cdd.1_Missense_Mutation_p.P338T	NM_001128310	NP_001121782	Q14515	SPRL1_HUMAN	SPARC-like 1 precursor	463	Kazal-like.				signal transduction	extracellular space|proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00118)		TTTGTTGGAGGACAAGTCACT	0.408													9	82					1.58986e-06	1.67808e-06	1	1	0		T	88411935	T	T	88411935	3	4	49	1	0	0	0	0	1	0	0	0	15021	1174	41	5	631	5	SPARCL1	4	88411935	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8237	88411935	102742341	386	37066											
FAM190A	401145	broad.mit.edu	37	chr4	91230124	91230124	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtaagagcttcgccatcctGttctgtggatgtaacagaac	11	11	10	9	1	1	2	0	0	1	2	3	3	2	3	2	1	3	4	2	1	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:91230124G>T	uc003hsv.3	+	2	1029	c.689G>T	c.(688-690)TGT>TTT	p.C230F	FAM190A_uc003hsu.3_Missense_Mutation_p.C230F|FAM190A_uc010ikv.2_RNA|FAM190A_uc003hsw.2_Missense_Mutation_p.C230F	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1	230										large_intestine(1)|ovary(1)	2						TCGCCATCCTGTTCTGTGGAT	0.433													11	14					3.86212e-05	4.01942e-05	1	1	0		T	91230124	T	T	91230124	3	4	49	1	0	0	0	0	1	0	0	0	5532	1377	48	5	691	5	FAM190A	4	91230124	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2818189	91230124	99924152	387	37067											
C4orf37	285555	broad.mit.edu	37	chr4	98762072	98762072	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacatcatagctgcctggCgctggaataacctgaaaaaa	15	8	9	9	1	1	2	1	2	0	0	1	3	1	3	2	2	4	2	2	2	7	2	rs149484886	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:98762072C>T	uc003htt.1	-	9	1146	c.1056G>A	c.(1054-1056)GCG>GCA	p.A352A		NM_174952	NP_777612	Q8N412	CD037_HUMAN	hypothetical protein LOC285555	352											0				OV - Ovarian serous cystadenocarcinoma(123;2.27e-08)		AGCTGCCTGGCGCTGGAATAA	0.348													6	45					0	0	1	0	0		T	98762072	T	T	98762072	2	4	49	1	0	0	0	0	0	0	0	1	2270	755	27	1		1	C4orf37	4	98762072	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	7531948	98762072	92392204	388	37068											
ADH4	127	broad.mit.edu	37	chr4	100065369	100065369	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcttactttgcccttggtgCccatttttctttgggaaact	5	18	8	10	0	1	0	0	0	1	0	1	1	1	1	2	2	5	1	2	2	2	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:100065369C>A	uc003hun.2	-	1	81	c.5G>T	c.(4-6)GGC>GTC	p.G2V	uc003hum.1_Intron|ADH4_uc011ced.1_5'UTR	NM_000670	NP_000661	P08319	ADH4_HUMAN	class II alcohol dehydrogenase, pi subunit	2					alcohol catabolic process|cellular aldehyde metabolic process|ethanol oxidation|quinone cofactor metabolic process|retinol metabolic process|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	alcohol dehydrogenase activity, zinc-dependent|all-trans retinal binding|benzaldehyde dehydrogenase activity|NAD binding|NADPH:quinone reductase activity|retinol binding|retinol dehydrogenase activity|zinc ion binding			skin(2)	2				OV - Ovarian serous cystadenocarcinoma(123;4.48e-08)	NADH(DB00157)	GCCCTTGGTGCCCATTTTTCT	0.418													7	77					2.17888e-05	2.27731e-05	1	1	0		A	100065369	A	A	100065369	3	1	49	1	0	0	0	0	1	0	0	0	310	739	26	5	1173	5	ADH4	4	100065369	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1303297	100065369	91088907	389	37069											
PPP3CA	5530	broad.mit.edu	37	chr4	101947156	101947156	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcatcctctcattaattcGgtctaagcccttggcttcct	6	14	7	14	2	2	0	1	0	2	0	6	0	4	0	3	3	1	2	3	3	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:101947156G>A	uc011cen.1	-	14	2107	c.1432C>T	c.(1432-1434)CGA>TGA	p.R478*	PPP3CA_uc003hvu.2_Nonsense_Mutation_p.R468*|PPP3CA_uc010ilj.2_Nonsense_Mutation_p.R426*|PPP3CA_uc003hvt.2_Nonsense_Mutation_p.R455*|PPP3CA_uc003hvs.2_Nonsense_Mutation_p.R411*|PPP3CA_uc010ilk.2_Nonsense_Mutation_p.R246*	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha	478	Inhibitory domain.				protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)		TCATTAATTCGGTCTAAGCCC	0.453													6	80					0	0	1	0	0		A	101947156	A	A	101947156	4	1	49	1	0	0	0	0	0	1	0	0	12419	1124	39	1	137	1	PPP3CA	4	101947156	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1881787	101947156	89207120	390	37070											
PPA2	27068	broad.mit.edu	37	chr4	106367600	106367600	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaagatattcgccacataGcgtagctttccatcctttac	10	12	8	11	2	0	1	0	0	0	1	3	2	2	2	3	1	3	2	3	1	5	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:106367600G>A	uc003hxl.2	-	5	401	c.381C>T	c.(379-381)CGC>CGT	p.R127R	PPA2_uc003hxm.2_Silent_p.R109R|PPA2_uc003hxn.2_Silent_p.R127R|PPA2_uc003hxo.2_Intron|PPA2_uc003hxp.2_Intron|PPA2_uc003hxq.2_Silent_p.R34R|PPA2_uc003hxr.2_Silent_p.R34R|PPA2_uc011cfa.1_Silent_p.R34R	NM_176869	NP_789845	Q9H2U2	IPYR2_HUMAN	inorganic pyrophosphatase 2 isoform 1 precursor	127					diphosphate metabolic process|tRNA aminoacylation for protein translation	mitochondrial matrix	inorganic diphosphatase activity|magnesium ion binding			pancreas(1)	1		Myeloproliferative disorder(5;0.0255)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.03e-07)		TCGCCACATAGCGTAGCTTTC	0.388													38	80					0	0	1	0	0		A	106367600	A	A	106367600	2	1	49	1	0	0	0	0	0	0	0	1	12306	958	34	2		2	PPA2	4	106367600	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4420444	106367600	84786676	391	37071											
TBCK	93627	broad.mit.edu	37	chr4	106967771	106967771	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggaggcctgttggctttaTtttattaatgccaccatcta	9	15	9	8	0	1	0	0	0	1	0	1	2	1	1	3	3	1	2	3	3	4	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:106967771T>C	uc010ilv.2	-	26	3003	c.2638A>G	c.(2638-2640)ATA>GTA	p.I880V	TBCK_uc003hyb.2_Missense_Mutation_p.I623V|TBCK_uc003hye.2_Missense_Mutation_p.I841V|TBCK_uc003hyc.2_Missense_Mutation_p.I817V|TBCK_uc003hyd.2_Missense_Mutation_p.I708V|TBCK_uc003hyf.2_Missense_Mutation_p.I880V	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like	880	Rhodanese.					intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						GTTGGCTTTATTTTATTAATG	0.403													3	57					0	0	1	0	0		C	106967771	C	C	106967771	3	2	49	1	0	0	0	0	1	0	0	0	15661	1493	52	3	47	3	TBCK	4	106967771	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	600171	106967771	84186505	392	37072											
PITX2	5308	broad.mit.edu	37	chr4	111554122	111554122	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttacctaattgcacacaCgccgacaccagtttgcggca	10	10	7	14	3	1	0	0	0	1	0	1	1	1	0	3	1	3	3	3	1	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:111554122C>T	uc003iad.2	-	2	615	c.33G>A	c.(31-33)GCG>GCA	p.A11A	PITX2_uc003iae.2_Silent_p.A11A|PITX2_uc010iml.2_Translation_Start_Site|PITX2_uc003iaf.2_Silent_p.A11A	NM_153426	NP_700475	Q99697	PITX2_HUMAN	paired-like homeodomain transcription factor 2	11					determination of left/right symmetry|organ morphogenesis	transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription factor binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00222)		ATTGCACACACGCCGACACCA	0.632													43	143					0	0	1	0	0		T	111554122	T	T	111554122	2	4	49	1	0	0	0	0	0	0	0	1	11974	523	19	1		1	PITX2	4	111554122	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4586351	111554122	79600154	393	37073											
EXOSC9	5393	broad.mit.edu	37	chr4	122728764	122728764	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatttgtgtcagttttgccTttttccagcaagggtaagcc	7	15	9	10	0	1	0	1	0	0	0	2	0	2	0	4	1	3	3	4	1	2	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:122728764T>G	uc003iea.2	+	6	700	c.592T>G	c.(592-594)TTT>GTT	p.F198V	EXOSC9_uc003idz.2_Missense_Mutation_p.F198V|EXOSC9_uc003ieb.2_Missense_Mutation_p.F182V|EXOSC9_uc010inp.1_RNA	NM_005033	NP_005024	Q06265	EXOS9_HUMAN	exosome component 9 isoform 2	198	ARE binding.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|immune response|nuclear mRNA surveillance|nuclear polyadenylation-dependent rRNA catabolic process|positive regulation of cell growth|rRNA processing	cytosol|nuclear exosome (RNase complex)|nucleolus|nucleolus|nucleus	3'-5'-exoribonuclease activity|AU-rich element binding|protein binding				0						CAGTTTTGCCTTTTTCCAGCA	0.358													12	97					0	0	1	0	0		G	122728764	G	G	122728764	3	3	49	1	0	0	0	0	1	0	0	0	5329	1609	56	5	614	5	EXOSC9	4	122728764	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	11174642	122728764	68425512	394	37074											
BBS7	55212	broad.mit.edu	37	chr4	122782657	122782657	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaagagaacaaaagacatAcatagctttaatgctttcag	19	9	6	7	0	1	2	1	0	0	2	1	3	1	2	0	0	4	2	0	0	8	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:122782657A>G	uc003ied.2	-	4	515	c.341_splice	c.e4+1	p.M114_splice	BBS7_uc003iee.1_Splice_Site_p.M114_splice|BBS7_uc010inq.1_Missense_Mutation_p.Y71H	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a						cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						CAAAAGACATACATAGCTTTA	0.313									Bardet-Biedl_syndrome				15	45					0	0	1	0	0		G	122782657	G	G	122782657	5	3	49	1	0	0	0	0	0	0	1	0	1342	405	14	3	1873	3	BBS7	4	122782657	Splice_Site	SNP	A	TCGA-BR-7707-01A-11D-2053-08	53893	122782657	68371619	395	37075											
KIAA1109	84162	broad.mit.edu	37	chr4	123122208	123122208	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgaatatggaacatgccgcaGacatggcagtgtgaattaga	14	8	12	7	2	0	3	0	1	0	2	0	5	0	4	1	2	2	2	1	2	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:123122208G>A	uc003ieh.2	+	13	1470	c.1425G>A	c.(1423-1425)CAG>CAA	p.Q475Q	KIAA1109_uc003iei.1_Silent_p.Q229Q|KIAA1109_uc010ins.1_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	475					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ACATGCCGCAGACATGGCAGT	0.368													4	80					0	0	1	0	0		A	123122208	A	A	123122208	2	1	49	1	0	0	0	0	0	0	0	1	8224	933	33	4		4	KIAA1109	4	123122208	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	339551	123122208	68032068	396	37076											
FAT4	79633	broad.mit.edu	37	chr4	126242390	126242390	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcaacagaccttgggccTgaaaggaggaaatcgaccac	14	5	11	11	1	1	2	1	1	0	1	2	5	1	4	3	3	2	1	3	3	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:126242390T>C	uc003ifj.3	+	1	4824	c.4824T>C	c.(4822-4824)CCT>CCC	p.P1608P		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1608	Cadherin 15.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACCTTGGGCCTGAAAGGAGGA	0.433													30	76					0	0	1	0	0		C	126242390	C	C	126242390	2	2	49	1	0	0	0	0	0	0	0	1	5706	1567	55	3		3	FAT4	4	126242390	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3120182	126242390	64911886	397	37077											
SLC25A31	83447	broad.mit.edu	37	chr4	128694557	128694557	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagagtggtgaggctaaacGgcaatataaaggaaccttag	16	8	12	5	1	0	2	0	1	0	1	0	3	0	3	1	4	2	2	1	4	9	5	rs139552475	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:128694557G>T	uc003ifl.2	+	6	922	c.776G>T	c.(775-777)CGG>CTG	p.R259L		NM_031291	NP_112581	Q9H0C2	ADT4_HUMAN	solute carrier family 25 (mitochondrial carrier;	259	Solcar 3.				transmembrane transport	cilium|flagellum|integral to membrane|mitochondrial inner membrane	binding|transporter activity				0						GAGGCTAAACGGCAATATAAA	0.373													3	52					0.000602214	0.000618842	1	1	0		T	128694557	T	T	128694557	3	4	49	1	0	0	0	0	1	0	0	0	14520	1116	39	5	798	5	SLC25A31	4	128694557	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2452167	128694557	62459719	398	37078											
C4orf33	132321	broad.mit.edu	37	chr4	130023786	130023786	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggattttaaaattgaacaCacttgggatggttttccagt	12	15	9	5	0	0	1	0	1	0	0	1	3	1	3	1	3	1	1	1	3	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:130023786C>T	uc003igu.3	+	2	385	c.21C>T	c.(19-21)CAC>CAT	p.H7H	C4orf33_uc010ioc.1_Silent_p.H7H|C4orf33_uc010iod.2_Silent_p.H7H	NM_173487	NP_775758	Q8N1A6	CD033_HUMAN	hypothetical protein LOC132321	7										upper_aerodigestive_tract(1)	1						AAATTGAACACACTTGGGATG	0.353													6	87					0	0	1	0	0		T	130023786	T	T	130023786	2	4	49	1	0	0	0	0	0	0	0	1	2266	477	17	4		4	C4orf33	4	130023786	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1329229	130023786	61130490	399	37079											
SLC7A11	23657	broad.mit.edu	37	chr4	139140496	139140496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatctcttcctgaaaaggCgtctttaaagttctgcgttt	9	16	8	8	2	3	2	0	2	3	0	5	2	4	2	1	1	1	2	1	1	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:139140496C>T	uc011chb.1	-	5	950	c.670G>A	c.(670-672)GCC>ACC	p.A224T		NM_014331	NP_055146	Q9UPY5	XCT_HUMAN	solute carrier family 7, (cationic amino acid	224	Extracellular (Potential).				blood coagulation|cellular nitrogen compound metabolic process|leukocyte migration|response to toxin	integral to membrane|plasma membrane	cystine:glutamate antiporter activity|protein binding			skin(1)	1	all_hematologic(180;0.166)				L-Cystine(DB00138)|L-Glutamic Acid(DB00142)|Sulfasalazine(DB00795)	CCTGAAAAGGCGTCTTTAAAG	0.388													4	72					0	0	1	0	0		T	139140496	T	T	139140496	3	4	49	1	0	0	0	0	1	0	0	0	14719	768	27	1	867	1	SLC7A11	4	139140496	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	9116710	139140496	52013780	400	37080											
TBC1D9	23158	broad.mit.edu	37	chr4	141598177	141598177	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagagagtgcagtctgtGtggccatctaatttttcatc	8	14	10	9	0	3	1	1	0	2	1	5	2	4	1	2	1	1	1	2	1	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:141598177G>A	uc010ioj.2	-	6	1202	c.930C>T	c.(928-930)CAC>CAT	p.H310H		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	310	GRAM 2.					intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				TGCAGTCTGTGTGGCCATCTA	0.428													11	111					0	0	1	0	0		A	141598177	A	A	141598177	2	1	49	1	0	0	0	0	0	0	0	1	15652	1368	48	4		4	TBC1D9	4	141598177	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2457681	141598177	49556099	401	37081											
ZNF827	152485	broad.mit.edu	37	chr4	146770621	146770621	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgctgtagccaacattccGgctgggtgatatcgagacat	10	10	12	9	2	0	2	0	1	0	1	2	3	1	2	2	2	3	3	2	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:146770621G>T	uc003ikn.2	-	6	2122	c.2074C>A	c.(2074-2076)CGG>AGG	p.R692R	ZNF827_uc003ikm.2_Silent_p.R692R|ZNF827_uc010iox.2_Silent_p.R342R	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	692					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					CCAACATTCCGGCTGGGTGAT	0.502													3	111					0.150653	0.151361	1	1	0		T	146770621	T	T	146770621	2	4	49	1	0	0	0	0	0	0	0	1	18205	1115	39	5		5	ZNF827	4	146770621	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5172444	146770621	44383655	402	37082											
NR3C2	4306	broad.mit.edu	37	chr4	149356545	149356545	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcttgtttaatacccactgGgaatccgctgccttcacagt	8	14	7	12	1	2	0	1	0	1	0	3	1	3	1	3	1	2	2	3	1	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:149356545G>T	uc003ilj.3	-	2	1802	c.1468C>A	c.(1468-1470)CCA>ACA	p.P490T	NR3C2_uc003ilk.3_Missense_Mutation_p.P490T|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	490	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	ATACCCACTGGGAATCCGCTG	0.458													6	81					2.0095e-06	2.11708e-06	1	1	0		T	149356545	T	T	149356545	3	4	49	1	0	0	0	0	1	0	0	0	10650	1232	43	5	1518	5	NR3C2	4	149356545	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2585924	149356545	41797731	403	37083											
NR3C2	4306	broad.mit.edu	37	chr4	149357244	149357244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgagagaggagagcccaCattgctagcatgtgcagggc	11	7	14	9	0	0	3	0	1	0	2	0	5	0	3	1	2	4	3	1	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:149357244C>T	uc003ilj.3	-	2	1103	c.769G>A	c.(769-771)GTG>ATG	p.V257M	NR3C2_uc003ilk.3_Missense_Mutation_p.V257M|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	257	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	GGAGAGCCCACATTGCTAGCA	0.512													6	89					0	0	1	0	0		T	149357244	T	T	149357244	3	4	49	1	0	0	0	0	1	0	0	0	10650	478	17	4	2217	4	NR3C2	4	149357244	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	699	149357244	41797032	404	37084											
FHDC1	85462	broad.mit.edu	37	chr4	153895835	153895835	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatccctcaggacaaccaCgaccgggaggcgcaggagct	10	4	12	15	3	1	0	1	0	0	0	3	4	3	3	4	4	2	2	4	4	1	0	rs142902459	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:153895835C>T	uc003inf.2	+	11	1467	c.1392C>T	c.(1390-1392)CAC>CAT	p.H464H		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	464	FH2.				actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					AGGACAACCACGACCGGGAGG	0.597													7	28					0	0	1	0	0		T	153895835	T	T	153895835	2	4	49	1	0	0	0	0	0	0	0	1	5890	535	19	1		1	FHDC1	4	153895835	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4538591	153895835	37258441	405	37085											
KIAA0922	23240	broad.mit.edu	37	chr4	154507424	154507424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaatatattttctttgaaaCttgctgttaaagacattgcc	12	16	7	6	0	1	2	0	1	1	1	1	3	1	3	1	1	3	2	1	1	6	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:154507424C>T	uc003inm.3	+	14	1424	c.1372C>T	c.(1372-1374)CTT>TTT	p.L458F	KIAA0922_uc010ipp.2_Missense_Mutation_p.L459F|KIAA0922_uc010ipq.2_Missense_Mutation_p.L311F|KIAA0922_uc010ips.1_Missense_Mutation_p.L70F	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	458	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				TTCTTTGAAACTTGCTGTTAA	0.333													17	55					0	0	1	0	0		T	154507424	T	T	154507424	3	4	49	1	0	0	0	0	1	0	0	0	8217	565	20	4	1429	4	KIAA0922	4	154507424	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	611589	154507424	36646852	406	37086											
GUCY1A3	2982	broad.mit.edu	37	chr4	156651343	156651343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaagaaagatgtggaagatgGcaatgccaattttttaggca	16	10	11	4	0	0	3	0	0	0	3	0	4	0	4	1	3	1	2	1	3	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:156651343G>A	uc003iov.2	+	11	2569	c.2033G>A	c.(2032-2034)GGC>GAC	p.G678D	GUCY1A3_uc003iow.2_Missense_Mutation_p.G678D|GUCY1A3_uc010iqd.2_Missense_Mutation_p.G677D|GUCY1A3_uc003iox.2_Missense_Mutation_p.G678D|GUCY1A3_uc003ioz.2_Missense_Mutation_p.G443D|GUCY1A3_uc003ioy.2_Missense_Mutation_p.G678D|GUCY1A3_uc010iqe.2_Missense_Mutation_p.G443D|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.G678D	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	678				GNANFLGKASGID -> ASQFFRQSIRNRLATYIPIYKSLG FDSLKMCRASESTLGIVDG (in Ref. 1; CAA47145).	blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		GTGGAAGATGGCAATGCCAAT	0.393													9	65					0	0	1	0	0		A	156651343	A	A	156651343	3	1	49	1	0	0	0	0	1	0	0	0	6910	1203	42	2	2082	2	GUCY1A3	4	156651343	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2143919	156651343	34502933	407	37087											
GUCY1B3	2983	broad.mit.edu	37	chr4	156721176	156721176	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggaaatcctcactgacagGctacagctcacgttaagagc	12	8	9	12	1	2	2	2	1	0	1	3	3	3	3	1	2	3	3	1	2	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:156721176G>A	uc003ipc.2	+	9	1292	c.1125G>A	c.(1123-1125)AGG>AGA	p.R375R	GUCY1B3_uc011cio.1_Silent_p.R397R|GUCY1B3_uc011cip.1_Silent_p.R355R|GUCY1B3_uc003ipd.2_Silent_p.R303R|GUCY1B3_uc010iqf.2_Silent_p.R375R|GUCY1B3_uc010iqg.2_Silent_p.R303R|GUCY1B3_uc011ciq.1_Silent_p.R303R	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	375					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		TCACTGACAGGCTACAGCTCA	0.433													5	39					0	0	1	0	0		A	156721176	A	A	156721176	2	1	49	1	0	0	0	0	0	0	0	1	6911	1194	42	2		2	GUCY1B3	4	156721176	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	69833	156721176	34433100	408	37088											
SPOCK3	50859	broad.mit.edu	37	chr4	167675864	167675864	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtccttgcaaattggcaaGatgctggtatcgaatcctaa	12	11	10	8	1	0	1	0	0	0	1	3	3	2	1	2	2	2	4	2	2	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:167675864G>T	uc003iri.1	-	9	876	c.735C>A	c.(733-735)ATC>ATA	p.I245I	SPOCK3_uc011cjp.1_Silent_p.I202I|SPOCK3_uc011cjq.1_Silent_p.I254I|SPOCK3_uc011cjr.1_Silent_p.I125I|SPOCK3_uc003irj.1_Silent_p.I242I|SPOCK3_uc011cjs.1_Silent_p.I194I|SPOCK3_uc011cjt.1_Silent_p.I153I|SPOCK3_uc011cju.1_Silent_p.I138I|SPOCK3_uc011cjv.1_Silent_p.I147I|SPOCK3_uc003irk.3_Silent_p.I242I	NM_016950	NP_058646	Q9BQ16	TICN3_HUMAN	testican 3 isoform 2	245					signal transduction	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase inhibitor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)		AAATTGGCAAGATGCTGGTAT	0.383													29	71					7.63505e-26	8.41674e-26	1	1	0		T	167675864	T	T	167675864	2	4	49	1	0	0	0	0	0	0	0	1	15106	932	33	5		5	SPOCK3	4	167675864	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	10954688	167675864	23478412	409	37089											
DDX60L	91351	broad.mit.edu	37	chr4	169341447	169341448	+	Frame_Shift_Ins	INS	-	A	A																															ttgtgacaataatctcttgtINSaaaagcaccgcatagagttc																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:169341447_169341448insA	uc003irq.3	-	18	2699_2700	c.2478_2479insT	c.(2476-2481)TTTACAfs	p.F826fs	DDX60L_uc003irr.1_Frame_Shift_Ins_p.F826fs|DDX60L_uc003irs.1_Frame_Shift_Ins_p.F553fs	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	826_827	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		TAATCTCTTGTAAAAGCACCGC	0.356													17	39	---	---	---	---						.	A	169341448	A	A	169341447	7	5	49	1	0	1	1	0	0	0	0	0	4382	1638	57	0	2725	0	DDX60L	4	169341447	Frame_Shift_Ins	INS	-	TCGA-BR-7707-01A-11D-2053-08	1665583	169341447	21812829	410	37090											
FBXO8	26269	broad.mit.edu	37	chr4	175160171	175160171	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaggccaagttctcgcattAaatcagggttgcaagcacag	13	9	10	9	1	2	0	1	0	1	0	3	0	2	0	1	2	2	5	1	2	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:175160171A>G	uc003itp.2	-	5	1596	c.746T>C	c.(745-747)TTA>TCA	p.L249S	FBXO8_uc003itq.2_Missense_Mutation_p.L208S	NM_012180	NP_036312	Q9NRD0	FBX8_HUMAN	F-box only protein 8	249	SEC7.				regulation of ARF protein signal transduction|ubiquitin-dependent protein catabolic process	cytoplasm|ubiquitin ligase complex	ARF guanyl-nucleotide exchange factor activity			breast(2)	2		Prostate(90;0.00201)|Melanoma(52;0.012)|Renal(120;0.0183)|all_neural(102;0.0887)|all_hematologic(60;0.107)		all cancers(43;7.29e-18)|Epithelial(43;1.85e-15)|OV - Ovarian serous cystadenocarcinoma(60;5.62e-09)|GBM - Glioblastoma multiforme(59;0.00115)|STAD - Stomach adenocarcinoma(60;0.00299)|LUSC - Lung squamous cell carcinoma(193;0.1)		TTCTCGCATTAAATCAGGGTT	0.378													4	44					0	0	1	0	0		G	175160171	G	G	175160171	3	3	49	1	0	0	0	0	1	0	0	0	5775	372	13	3	221	3	FBXO8	4	175160171	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	5818724	175160171	15994105	411	37091											
KIAA1712	80817	broad.mit.edu	37	chr4	175229932	175229932	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataacagatgttaatgaagcAgttgatgtgtctgacttaaa	15	13	9	4	0	1	4	0	3	1	1	1	4	1	4	0	0	2	3	0	0	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:175229932A>G	uc003itr.2	+	7	1014	c.600A>G	c.(598-600)GCA>GCG	p.A200A	KIAA1712_uc010iro.2_Silent_p.A200A|KIAA1712_uc003its.2_RNA	NM_001040157	NP_001035247	Q9C0F1	CEP44_HUMAN	HBV PreS1-transactivated protein 3 isoform a	200						centrosome|midbody|spindle pole					0		Prostate(90;0.00276)|Melanoma(52;0.0179)|Renal(120;0.0376)|Breast(14;0.0991)|all_hematologic(60;0.124)|all_neural(102;0.196)		all cancers(43;4.06e-18)|Epithelial(43;1.18e-15)|OV - Ovarian serous cystadenocarcinoma(60;4.65e-09)|GBM - Glioblastoma multiforme(59;0.00098)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0949)		TTAATGAAGCAGTTGATGTGT	0.358													6	50					0	0	1	0	0		G	175229932	G	G	175229932	2	3	49	1	0	0	0	0	0	0	0	1	8269	175	7	3		3	KIAA1712	4	175229932	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	69761	175229932	15924344	412	37092											
STOX2	56977	broad.mit.edu	37	chr4	184932048	184932048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctcgtccagcaccatggtgCcgagcccagcagcttggaca	8	6	11	16	2	0	0	0	0	0	0	2	2	1	1	5	2	5	3	5	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:184932048C>T	uc003ivz.1	+	3	3492	c.2057C>T	c.(2056-2058)GCC>GTC	p.A686V	STOX2_uc003iwa.1_Missense_Mutation_p.A375V	NM_020225	NP_064610	Q9P2F5	STOX2_HUMAN	storkhead box 2	686					embryo development|maternal placenta development						0		all_lung(41;1.89e-12)|Lung NSC(41;3.48e-12)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|all_hematologic(60;0.027)|Prostate(90;0.0283)		all cancers(43;2.85e-26)|Epithelial(43;2.27e-22)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-10)|Colorectal(24;8.23e-06)|GBM - Glioblastoma multiforme(59;1.64e-05)|STAD - Stomach adenocarcinoma(60;3.6e-05)|COAD - Colon adenocarcinoma(29;4.37e-05)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.227)		CACCATGGTGCCGAGCCCAGC	0.567													5	19					0	0	1	0	0		T	184932048	T	T	184932048	3	4	49	1	0	0	0	0	1	0	0	0	15345	739	26	2	2067	2	STOX2	4	184932048	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	9702116	184932048	6222228	413	37093											
TLR3	7098	broad.mit.edu	37	chr4	186997812	186997812	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtatctacttttgggggggCcttttgccctttgggatgct	3	17	13	8	0	1	0	0	0	1	0	1	1	1	1	2	4	3	2	2	4	2	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:186997812C>T	uc003iyq.2	+	2	140	c.39C>T	c.(37-39)GGC>GGT	p.G13G		NM_003265	NP_003256	O15455	TLR3_HUMAN	toll-like receptor 3 precursor	13					activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|defense response to bacterium|defense response to virus|detection of virus|hyperosmotic response|I-kappaB phosphorylation|inflammatory response|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of osteoclast differentiation|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|toll-like receptor 3 signaling pathway	endoplasmic reticulum membrane|endosome membrane|integral to plasma membrane	double-stranded RNA binding|transmembrane receptor activity			ovary(2)|prostate(1)|lung(1)|breast(1)	5		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		TTTGGGGGGGCCTTTTGCCCT	0.463													32	54					0	0	1	0	0		T	186997812	T	T	186997812	2	4	49	1	0	0	0	0	0	0	0	1	15977	726	26	2		2	TLR3	4	186997812	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2065764	186997812	4156464	414	37094											
FAM149A	25854	broad.mit.edu	37	chr4	187077174	187077174	+	Frame_Shift_Del	DEL	A	-	-																															tgatgatgaatgtcttgaacAaaaaccagctcagcccggta																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:187077174delA	uc003iyt.3	+	7	983	c.404delA	c.(403-405)CAAfs	p.Q135fs	FAM149A_uc011cla.1_Frame_Shift_Del_p.Q135fs|FAM149A_uc010isj.2_Frame_Shift_Del_p.Q135fs|FAM149A_uc010isk.2_RNA|FAM149A_uc003iyu.3_Frame_Shift_Del_p.Q135fs|FAM149A_uc010isl.2_Frame_Shift_Del_p.Q135fs|FAM149A_uc011clb.1_Frame_Shift_Del_p.Q135fs	NM_015398	NP_056213	A5PLN7	F149A_HUMAN	hypothetical protein LOC25854	426										breast(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.19e-10)|BRCA - Breast invasive adenocarcinoma(30;1.22e-05)|GBM - Glioblastoma multiforme(59;0.000122)|STAD - Stomach adenocarcinoma(60;0.000288)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.166)		TGTCTTGAACAAAAACCAGCT	0.418													20	44	---	---	---	---						.	-	187077174	-	-	187077174	7	5	49	1	0	1	0	1	0	0	0	0	5466	130	5	0	418	0	FAM149A	4	187077174	Frame_Shift_Del	DEL	A	TCGA-BR-7707-01A-11D-2053-08	79362	187077174	4077102	415	37095											
KLKB1	3818	broad.mit.edu	37	chr4	187158011	187158011	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctaaggttagcagtgttgaAgaatgccaaaaaaggtgcac	15	9	11	6	0	1	2	0	1	1	1	1	2	1	2	1	2	3	4	1	2	7	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr4:187158011A>C	uc003iyy.2	+	5	476	c.405A>C	c.(403-405)GAA>GAC	p.E135D	KLKB1_uc011clc.1_5'UTR|KLKB1_uc011cld.1_Missense_Mutation_p.E97D	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	135	Apple 2.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		GCAGTGTTGAAGAATGCCAAA	0.398													8	68					0	0	1	0	0		C	187158011	C	C	187158011	3	2	49	1	0	0	0	0	1	0	0	0	8428	69	3	5	419	5	KLKB1	4	187158011	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	80837	187158011	3996265	416	37096											
SDHA	6389	broad.mit.edu	37	chr5	228384	228384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggagtgccgtggtgtcatcGcactgtgcatagaggacggg	7	8	18	8	3	1	1	1	0	0	1	2	3	1	3	1	4	2	2	1	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:228384G>A	uc003jao.3	+	6	821	c.706G>A	c.(706-708)GCA>ACA	p.A236T	SDHA_uc003jan.2_Missense_Mutation_p.A236T|SDHA_uc011clv.1_Missense_Mutation_p.A236T|SDHA_uc011clw.1_Missense_Mutation_p.A188T|SDHA_uc003jap.3_Missense_Mutation_p.A236T|SDHA_uc003jaq.3_Missense_Mutation_p.A11T|SDHA_uc003jar.3_5'Flank	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	236					nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	TGGTGTCATCGCACTGTGCAT	0.428									Familial_Paragangliomas				5	68					0	0	1	0	0		A	228384	A	A	228384	3	1	49	1	0	0	0	0	1	0	0	0	13988	1087	38	1	728	1	SDHA	5	228384	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08		228384	180686876	417	37097											
SLC6A18	348932	broad.mit.edu	37	chr5	1235625	1235625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagtgccagggcagcagcGccgtgagctacttctggtac	8	7	15	11	2	1	1	0	1	1	0	1	2	1	2	2	3	6	4	2	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:1235625G>A	uc003jby.1	+	4	592	c.469G>A	c.(469-471)GCC>ACC	p.A157T		NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18	157	Extracellular (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GGGCAGCAGCGCCGTGAGCTA	0.607													12	27					0	0	1	0	0		A	1235625	A	A	1235625	3	1	49	1	0	0	0	0	1	0	0	0	14706	1087	38	1	483	1	SLC6A18	5	1235625	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1007241	1235625	179679635	418	37098											
CLPTM1L	81037	broad.mit.edu	37	chr5	1318500	1318500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcagtccgtgtggggcGcccgcgtggccttctcctcg	1	10	14	16	5	2	0	1	0	1	0	5	0	3	0	5	3	0	0	5	3	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:1318500G>A	uc003jch.2	-	17	1647	c.1601C>T	c.(1600-1602)GCG>GTG	p.A534V	CLPTM1L_uc003jcg.2_Missense_Mutation_p.A365V	NM_030782	NP_110409	Q96KA5	CLP1L_HUMAN	CLPTM1-like	534	Cytoplasmic (Potential).				apoptosis	integral to membrane		p.A534A(1)		breast(1)|central_nervous_system(1)	2	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		CGTGTGGGGCGCCCGCGTGGC	0.527													4	66					0	0	1	0	0		A	1318500	A	A	1318500	3	1	49	1	0	0	0	0	1	0	0	0	3558	1087	38	1	19	1	CLPTM1L	5	1318500	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	82875	1318500	179596760	419	37099											
DNAH5	1767	broad.mit.edu	37	chr5	13901461	13901461	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttggcttctgccgtgcttAgcacagctgggtgctgctgg	3	13	15	10	1	1	0	0	0	1	0	1	0	1	0	1	3	6	7	1	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:13901461A>G	uc003jfd.2	-	14	1994	c.1952T>C	c.(1951-1953)CTA>CCA	p.L651P		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	651	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TGCCGTGCTTAGCACAGCTGG	0.557									Kartagener_syndrome				9	29					0	0	1	0	0		G	13901461	G	G	13901461	3	3	49	1	0	0	0	0	1	0	0	0	4610	420	15	3	12186	3	DNAH5	5	13901461	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	12582961	13901461	167013799	420	37100											
MYO10	4651	broad.mit.edu	37	chr5	16670981	16670981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgagaggtgggatggcaGcgtgcagagtataatccccc	9	8	14	10	2	0	2	0	0	0	2	2	4	1	3	2	3	2	3	2	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:16670981G>A	uc003jft.3	-	39	6005	c.5537C>T	c.(5536-5538)GCT>GTT	p.A1846V	MYO10_uc011cnb.1_Missense_Mutation_p.A475V|MYO10_uc011cnc.1_Missense_Mutation_p.A725V|MYO10_uc011cnd.1_Missense_Mutation_p.A1203V|MYO10_uc011cne.1_Missense_Mutation_p.A1203V|MYO10_uc010itx.2_Missense_Mutation_p.A1468V	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1846	FERM.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						TGGGATGGCAGCGTGCAGAGT	0.562													6	30					0	0	1	0	0		A	16670981	A	A	16670981	3	1	49	1	0	0	0	0	1	0	0	0	10080	971	34	2	651	2	MYO10	5	16670981	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2769520	16670981	164244279	421	37101											
CDH10	1008	broad.mit.edu	37	chr5	24509701	24509701	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggctggaaatagaatctggGtcccttgccattacagtacc	10	10	11	10	0	1	1	0	0	1	1	2	2	2	2	3	3	3	2	3	3	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:24509701G>A	uc003jgr.1	-	7	1562	c.1230C>T	c.(1228-1230)GAC>GAT	p.D410D	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	410	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TAGAATCTGGGTCCCTTGCCA	0.308										HNSCC(23;0.051)			15	31					0	0	1	0	0		A	24509701	A	A	24509701	2	1	49	1	0	0	0	0	0	0	0	1	3099	1252	44	4		4	CDH10	5	24509701	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	7838720	24509701	156405559	422	37102											
NIPBL	25836	broad.mit.edu	37	chr5	36985317	36985317	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaaatgaaaatagactgTctgacacaaaaccaaatgac	22	6	5	8	0	1	4	0	3	1	1	1	4	1	4	1	0	2	0	1	0	9	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:36985317T>A	uc003jkl.3	+	10	2534	c.2035T>A	c.(2035-2037)TCT>ACT	p.S679T	NIPBL_uc003jkk.3_Missense_Mutation_p.S679T|NIPBL_uc003jkm.1_Missense_Mutation_p.S558T	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	679					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			AAATAGACTGTCTGACACAAA	0.398													17	42					0	0	1	0	0		A	36985317	A	A	36985317	3	1	49	1	0	0	0	0	1	0	0	0	10447	1667	58	5	2069	5	NIPBL	5	36985317	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	12475616	36985317	143929943	423	37103											
FYB	2533	broad.mit.edu	37	chr5	39203057	39203057	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgccccccgtgttatatttCgccatgagggactttacatc	7	14	8	12	2	0	1	0	1	0	0	2	2	0	2	4	1	2	1	4	1	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:39203057C>T	uc003jls.2	-	1	73	c.6G>A	c.(4-6)GCG>GCA	p.A2A	FYB_uc003jlt.2_Silent_p.A2A|FYB_uc003jlu.2_Silent_p.A2A|FYB_uc011cpl.1_Silent_p.A12A	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	2					cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			TGTTATATTTCGCCATGAGGG	0.433													26	56					0	0	1	0	0		T	39203057	T	T	39203057	2	4	49	1	0	0	0	0	0	0	0	1	6138	871	31	1		1	FYB	5	39203057	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2217740	39203057	141712203	424	37104											
C9	735	broad.mit.edu	37	chr5	39311417	39311417	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgttgtgagcacaacatcGcgatttctcattacaaatct	11	14	7	9	2	2	1	1	1	2	0	4	2	2	1	0	0	3	3	0	0	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:39311417G>A	uc003jlv.3	-	7	1022	c.933C>T	c.(931-933)CGC>CGT	p.R311R		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	311	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			GCACAACATCGCGATTTCTCA	0.368													23	41					0	0	1	0	0		A	39311417	A	A	39311417	2	1	49	1	0	0	0	0	0	0	0	1	2446	1074	38	1		1	C9	5	39311417	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	108360	39311417	141603843	425	37105											
C6	729	broad.mit.edu	37	chr5	41149541	41149541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcgggtgaagtaaagtaatCgttggagtctgtgtcaaaca	13	10	13	5	2	2	1	1	1	1	0	3	2	2	2	0	2	2	3	0	2	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:41149541C>T	uc003jmk.2	-	17	2635	c.2425G>A	c.(2425-2427)GAT>AAT	p.D809N	C6_uc003jml.1_Missense_Mutation_p.D809N	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	809	C5b-binding domain.|Complement control factor I module 1.|Kazal-like 1.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				GTAAAGTAATCGTTGGAGTCT	0.423													45	118					0	0	1	0	0		T	41149541	T	T	41149541	3	4	49	1	0	0	0	0	1	0	0	0	2318	884	31	1	387	1	C6	5	41149541	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1838124	41149541	139765719	426	37106											
PAIP1	10605	broad.mit.edu	37	chr5	43556011	43556011	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattaatacaggagctacaAccacctggggcttagccatt	13	9	8	11	0	0	0	0	0	0	0	0	1	0	1	3	3	5	2	3	3	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:43556011A>G	uc003job.2	-	2	603	c.356T>C	c.(355-357)GTT>GCT	p.V119A	PAIP1_uc003joa.2_Missense_Mutation_p.V40A|PAIP1_uc010ivp.2_Missense_Mutation_p.V40A|PAIP1_uc010ivo.2_RNA|PAIP1_uc003joc.2_Missense_Mutation_p.V7A	NM_006451	NP_006442	Q9H074	PAIP1_HUMAN	poly(A) binding protein interacting protein 1	119	PABPC1-interacting motif-2 (PAM2).				mRNA stabilization|nuclear-transcribed mRNA poly(A) tail shortening|translational initiation	cytosol	protein binding|RNA binding|translation activator activity			ovary(1)	1	Lung NSC(6;2.07e-05)					AGGAGCTACAACCACCTGGGG	0.468													18	255					0	0	1	0	0		G	43556011	G	G	43556011	3	3	49	1	0	0	0	0	1	0	0	0	11415	43	2	3	1123	3	PAIP1	5	43556011	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2406470	43556011	137359249	427	37107											
ITGA1	3672	broad.mit.edu	37	chr5	52227966	52227966	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttggactacagttttacaGgtaggagaaaactacatttt	14	13	9	5	0	0	1	0	0	0	1	0	3	0	2	0	3	4	3	0	3	6	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:52227966G>T	uc003jou.2	+	22	2913	c.2861G>T	c.(2860-2862)AGC>ATC	p.S954I	ITGA1_uc003jov.2_RNA|ITGA1_uc003jow.2_Missense_Mutation_p.S485I	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	954	Extracellular (Potential).				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				CAGTTTTACAGGTAGGAGAAA	0.259													11	17					0.0809354	0.0816989	1	1	0		T	52227966	T	T	52227966	3	4	49	1	0	0	0	0	1	0	0	0	7888	1014	35	5	2947	5	ITGA1	5	52227966	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8671955	52227966	128687294	428	37108											
CCNO	10309	broad.mit.edu	37	chr5	54527333	54527333	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagcgccgcctccgggTggtctcccagtcgcaagtcc	4	7	11	19	4	1	0	0	0	1	0	6	0	4	0	7	2	1	1	7	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:54527333T>C	uc003jpw.2	-	3	1080	c.923A>G	c.(922-924)CAC>CGC	p.H308R	CCNO_uc003jpv.2_RNA	NM_021147	NP_066970	P22674	CCNO_HUMAN	cyclin domain containing	308					cell cycle|cell division|depyrimidination|regulation of cyclin-dependent protein kinase activity	nucleoplasm	protein kinase binding|uracil DNA N-glycosylase activity				0		Lung NSC(810;4.08e-05)|Breast(144;0.0735)|Prostate(74;0.183)	LUSC - Lung squamous cell carcinoma(15;0.142)|Lung(15;0.161)			CGCCTCCGGGTGGTCTCCCAG	0.637													7	59					0	0	1	0	0		C	54527333	C	C	54527333	3	2	49	1	0	0	0	0	1	0	0	0	2936	1696	59	3	133	3	CCNO	5	54527333	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2299367	54527333	126387927	429	37109											
OCLN	4950	broad.mit.edu	37	chr5	68805354	68805354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcatgttggccatggctgCcttttgtttcattgccgcgt	3	17	10	11	2	2	0	2	0	0	0	2	0	2	0	3	2	2	3	3	2	0	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:68805354C>T	uc003jwu.2	+	3	873	c.437C>T	c.(436-438)GCC>GTC	p.A146V	OCLN_uc003jwv.3_Missense_Mutation_p.A146V	NM_002538	NP_002529			occludin												0		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		GCCATGGCTGCCTTTTGTTTC	0.363													6	86					0	0	1	0	0		T	68805354	T	T	68805354	3	4	49	1	0	0	0	0	1	0	0	0	10839	739	26	2	443	2	OCLN	5	68805354	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	14278021	68805354	112109906	430	37110											
MSH3	4437	broad.mit.edu	37	chr5	79968069	79968069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcattttttagattgcaGcccgagagctcaatatttat	10	18	6	7	1	2	2	2	0	0	2	2	3	2	2	1	0	3	2	1	0	4	9			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:79968069G>A	uc003kgz.2	+	5	1052	c.799G>A	c.(799-801)GCC>ACC	p.A267T		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	267	Interaction with EXO1.				maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		ttaGATTGCAGCCCGAGAGCT	0.274								MMR					3	59					0	0	1	0	0		A	79968069	A	A	79968069	3	1	49	1	0	0	0	0	1	0	0	0	9889	971	34	2	817	2	MSH3	5	79968069	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	11162715	79968069	100947191	431	37111											
CKMT2	1160	broad.mit.edu	37	chr5	80548680	80548680	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	accccttcataaagactgtgGgcatggtggctggtgacgag	9	9	14	9	1	1	2	1	1	0	1	1	3	1	2	2	4	0	2	2	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:80548680G>T	uc003khc.3	+	4	561	c.319G>T	c.(319-321)GGC>TGC	p.G107C	RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Missense_Mutation_p.G107C|CKMT2_uc003khd.3_Missense_Mutation_p.G107C|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816	P17540	KCRS_HUMAN	sarcomeric mitochondrial creatine kinase	107	Phosphagen kinase N-terminal.				creatine metabolic process|muscle contraction	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;2.29e-44)|Epithelial(54;1.05e-38)|all cancers(79;4.15e-34)	Creatine(DB00148)	AAAGACTGTGGGCATGGTGGC	0.557													14	138					1.37522e-17	1.50536e-17	1	1	0		T	80548680	T	T	80548680	3	4	49	1	0	0	0	0	1	0	0	0	3454	1232	43	5	325	5	CKMT2	5	80548680	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	580611	80548680	100366580	432	37112											
GPR98	84059	broad.mit.edu	37	chr5	89989724	89989724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagcggagggcactttggtcGgctgttgttgttctacagta	6	14	14	7	2	1	0	0	0	1	0	2	1	1	1	0	4	2	6	0	4	3	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:89989724G>A	uc003kju.2	+	33	7247	c.7151G>A	c.(7150-7152)CGG>CAG	p.R2384Q	GPR98_uc003kjt.2_Missense_Mutation_p.R90Q|GPR98_uc003kjv.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2384	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CACTTTGGTCGGCTGTTGTTG	0.428													3	16					0	0	1	0	0		A	89989724	A	A	89989724	3	1	49	1	0	0	0	0	1	0	0	0	6737	1116	39	1	7281	1	GPR98	5	89989724	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	9441044	89989724	90925536	433	37113											
ANKRD32	84250	broad.mit.edu	37	chr5	94030643	94030643	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctattacaaaaatagaagatAcagtggagaactttcatgca	18	10	7	6	0	1	3	1	0	0	3	1	4	1	3	0	1	4	1	0	1	8	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:94030643A>G	uc003kkr.3	+	21	2883	c.2803A>G	c.(2803-2805)ACA>GCA	p.T935A	ANKRD32_uc003kks.2_Missense_Mutation_p.T299A	NM_032290	NP_115666	Q9BQI6	ANR32_HUMAN	ankyrin repeat domain 32	935										ovary(2)	2		all_cancers(142;1.51e-09)|all_epithelial(76;4.68e-12)|all_lung(232;5.94e-05)|Ovarian(174;0.000953)|Lung NSC(167;0.00105)|Colorectal(57;0.122)|Lung SC(612;0.152)		all cancers(79;3.88e-18)		AATAGAAGATACAGTGGAGAA	0.358													8	74					0	0	1	0	0		G	94030643	G	G	94030643	3	3	49	1	0	0	0	0	1	0	0	0	660	391	14	3	2881	3	ANKRD32	5	94030643	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4040919	94030643	86884617	434	37114											
TTC37	9652	broad.mit.edu	37	chr5	94872520	94872520	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctataataaggaagaaattaCctgattcaattaaatgcaaa	20	11	5	5	0	1	2	1	1	0	1	1	3	1	3	1	1	2	1	1	1	10	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:94872520C>T	uc003klb.2	-	10	1021	c.751_splice	c.e10+1	p.G251_splice	TTC37_uc010jbf.1_Splice_Site_p.G203_splice	NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37								binding			ovary(3)|pancreas(1)	4						GAAGAAATTACCTGATTCAAT	0.343													15	210					0	0	1	0	0		T	94872520	T	T	94872520	5	4	49	1	0	0	0	0	0	0	1	0	16731	521	18	4	4078	4	TTC37	5	94872520	Splice_Site	SNP	C	TCGA-BR-7707-01A-11D-2053-08	841877	94872520	86042740	435	37115											
ERAP2	64167	broad.mit.edu	37	chr5	96224907	96224907	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtgtccatctatgcatccCcagacaaacggaatcaaaca	15	7	7	12	1	2	1	1	0	1	1	4	2	4	2	3	2	3	1	3	2	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:96224907C>A	uc003kmq.2	+	5	1578	c.868C>A	c.(868-870)CCA>ACA	p.P290T	uc003kmo.1_Intron|ERAP2_uc003kmt.2_Missense_Mutation_p.P290T|ERAP2_uc003kmr.2_RNA|ERAP2_uc003kms.2_Missense_Mutation_p.P239T|ERAP2_uc003kmu.2_RNA	NM_022350	NP_071745	Q6P179	ERAP2_HUMAN	endoplasmic reticulum aminopeptidase 2	290	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|proteolysis|regulation of blood pressure	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding				0		all_cancers(142;0.000311)|all_epithelial(76;1.54e-06)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0596)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0703)		CTATGCATCCCCAGACAAACG	0.408													7	63					0.0293803	0.029675	1	1	0		A	96224907	A	A	96224907	3	1	49	1	0	0	0	0	1	0	0	0	5212	623	22	5	882	5	ERAP2	5	96224907	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1352387	96224907	84690353	436	37116											
SLCO4C1	353189	broad.mit.edu	37	chr5	101583012	101583012	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggtaaaaataattacaatAaagaaaatgcaaaggaatat	25	8	6	2	0	0	1	0	0	0	1	0	2	0	2	0	2	2	2	0	2	14	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:101583012A>G	uc003knm.2	-	10	2042	c.1755T>C	c.(1753-1755)TTT>TTC	p.F585F		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	585	Helical; Name=10; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		TAATTACAATAAAGAAAATGC	0.363													9	89					0	0	1	0	0		G	101583012	G	G	101583012	2	3	49	1	0	0	0	0	0	0	0	1	14755	359	13	3		3	SLCO4C1	5	101583012	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	5358105	101583012	79332248	437	37117											
MAN2A1	4124	broad.mit.edu	37	chr5	109103321	109103321	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaaccgtgctggactttcTcacatgcttatccagagagt	10	12	8	11	1	1	1	1	0	1	1	3	3	2	2	2	1	3	2	2	1	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:109103321T>C	uc003kou.1	+	6	1884	c.921T>C	c.(919-921)TCT>TCC	p.S307S		NM_002372	NP_002363	Q16706	MA2A1_HUMAN	mannosidase, alpha, class 2A, member 1	307	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(142;8.66e-07)|all_epithelial(76;7.73e-09)|Prostate(80;0.000303)|Lung NSC(167;0.0186)|all_lung(232;0.0241)|Ovarian(225;0.0444)|Colorectal(57;0.0959)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;2.17e-10)|Epithelial(69;1.37e-09)|COAD - Colon adenocarcinoma(37;0.141)		CTGGACTTTCTCACATGCTTA	0.428													35	126					0	0	1	0	0		C	109103321	C	C	109103321	2	2	49	1	0	0	0	0	0	0	0	1	9232	1538	54	3		3	MAN2A1	5	109103321	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	7520309	109103321	71811939	438	37118											
MCC	4163	broad.mit.edu	37	chr5	112399756	112399756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcaaaggctcccccacagCtgccgtccagcttcatgagc	8	6	10	17	2	1	1	1	1	0	0	3	1	3	1	4	2	4	4	4	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:112399756C>T	uc003kqj.3	-	12	2098	c.1568G>A	c.(1567-1569)AGC>AAC	p.S523N	MCC_uc003kqk.3_RNA|MCC_uc003kql.3_Missense_Mutation_p.S713N|MCC_uc011cwb.1_Missense_Mutation_p.S523N	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2	523					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		TCCCCCACAGCTGCCGTCCAG	0.612													8	60					0	0	1	0	0		T	112399756	T	T	112399756	3	4	49	1	0	0	0	0	1	0	0	0	9391	797	28	2	945	2	MCC	5	112399756	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3296435	112399756	68515504	439	37119											
SEMA6A	57556	broad.mit.edu	37	chr5	115803293	115803293	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttacccttcttgtcttggTgattatgggaagacactgcc	7	14	9	11	0	2	2	0	1	2	1	2	3	2	3	3	2	2	0	3	2	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:115803293T>C	uc010jck.2	-	18	2589	c.1880A>G	c.(1879-1881)CAC>CGC	p.H627R	SEMA6A_uc003krx.3_Missense_Mutation_p.H644R|SEMA6A_uc003krv.3_Missense_Mutation_p.H54R|SEMA6A_uc003krw.3_Intron|SEMA6A_uc010jcj.2_Missense_Mutation_p.H171R	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	627	Extracellular (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		CTTGTCTTGGTGATTATGGGA	0.532													4	30					0	0	1	0	0		C	115803293	C	C	115803293	3	2	49	1	0	0	0	0	1	0	0	0	14064	1696	59	3	1220	3	SEMA6A	5	115803293	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3403537	115803293	65111967	440	37120											
TCF7	6932	broad.mit.edu	37	chr5	133477913	133477913	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgatgctaggttctggtgtaCctggtcacccagcagccatc	7	11	11	12	0	2	1	1	1	1	0	3	1	2	1	3	3	4	4	3	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:133477913C>G	uc003kyt.2	+	6	869	c.673C>G	c.(673-675)CCT>GCT	p.P225A	TCF7_uc003kyu.1_Missense_Mutation_p.P110A|TCF7_uc003kyv.2_Missense_Mutation_p.P110A|TCF7_uc003kyw.2_Missense_Mutation_p.P110A|TCF7_uc003kyx.2_Missense_Mutation_p.P23A|TCF7_uc003kyy.2_Missense_Mutation_p.P110A|TCF7_uc003kyz.2_Missense_Mutation_p.P110A|TCF7_uc003kza.2_Missense_Mutation_p.P110A|TCF7_uc003kzb.2_Missense_Mutation_p.P39A|TCF7_uc010jdu.2_5'Flank	NM_003202	NP_003193	P36402	TCF7_HUMAN	transcription factor 7 (T-cell specific,	225					cellular response to interleukin-4|immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription regulatory region DNA binding				0		Breast(839;0.058)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTCTGGTGTACCTGGTCACCC	0.567													36	72					0	0	1	0	0		G	133477913	G	G	133477913	3	3	49	1	0	0	0	0	1	0	0	0	15721	507	18	5	695	5	TCF7	5	133477913	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	17674620	133477913	47437347	441	37121											
TRPC7	57113	broad.mit.edu	37	chr5	135692494	135692494	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcacttgcagaagtagtcGtggggccgctcgatgcgggc	6	9	16	10	4	0	1	0	0	0	1	2	2	0	1	1	3	3	4	1	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:135692494G>A	uc003lbn.1	-	1	582	c.579C>T	c.(577-579)CAC>CAT	p.H193H	TRPC7_uc010jef.1_Silent_p.H185H|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Silent_p.H185H|TRPC7_uc010jei.1_Silent_p.H185H|TRPC7_uc010jej.1_Translation_Start_Site	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	194	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AGAAGTAGTCGTGGGGCCGCT	0.607													19	48					0	0	1	0	0		A	135692494	A	A	135692494	2	1	49	1	0	0	0	0	0	0	0	1	16610	1136	40	1		1	TRPC7	5	135692494	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2214581	135692494	45222766	442	37122											
KLHL3	26249	broad.mit.edu	37	chr5	137056165	137056165	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagtacctccgcagttcAttcataaccttgaatgcttt	13	13	5	10	1	2	1	2	1	0	0	3	1	3	1	3	0	3	4	3	0	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:137056165A>G	uc010jek.2	-	2	567	c.123T>C	c.(121-123)AAT>AAC	p.N41N	MYOT_uc011cye.1_Intron|KLHL3_uc010jem.1_Intron	NM_017415	NP_059111	Q9UH77	KLHL3_HUMAN	kelch-like 3	41						cytoplasm|cytoskeleton	actin binding|structural molecule activity				0		all_hematologic(541;3.67e-07)|Breast(839;7.61e-05)|Prostate(281;0.000825)|Ovarian(839;0.0481)|all_lung(232;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	GBM - Glioblastoma multiforme(465;0.0223)		TCCGCAGTTCATTCATAACCT	0.488													35	81					0	0	1	0	0		G	137056165	G	G	137056165	2	3	49	1	0	0	0	0	0	0	0	1	8399	214	8	3		3	KLHL3	5	137056165	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1363671	137056165	43859095	443	37123											
KIF20A	10112	broad.mit.edu	37	chr5	137515455	137515455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgtttgagtccacagctgCagatttggggtctgtggtac	7	13	13	8	0	1	2	0	1	1	1	2	2	2	2	1	3	3	4	1	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:137515455C>T	uc003lcj.2	+	2	582	c.86C>T	c.(85-87)GCA>GTA	p.A29V	BRD8_uc003lcc.1_5'Flank|BRD8_uc003lcf.1_5'Flank|BRD8_uc003lcg.2_5'Flank|BRD8_uc003lci.2_5'Flank|BRD8_uc003lch.2_5'Flank|BRD8_uc011cym.1_5'Flank|BRD8_uc010jer.1_5'Flank|BRD8_uc011cyn.1_5'Flank|BRD8_uc010jes.1_5'Flank|KIF20A_uc011cyo.1_Missense_Mutation_p.A29V	NM_005733	NP_005724	O95235	KI20A_HUMAN	kinesin family member 20A	29					cytokinesis|M phase of mitotic cell cycle|microtubule-based movement|protein transport|vesicle-mediated transport	Golgi apparatus|microtubule|nucleoplasm	ATP binding|microtubule motor activity|protein binding|transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TCCACAGCTGCAGATTTGGGG	0.567													8	88					0	0	1	0	0		T	137515455	T	T	137515455	3	4	49	1	0	0	0	0	1	0	0	0	8302	710	25	2	88	2	KIF20A	5	137515455	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	459290	137515455	43399805	444	37124											
REEP2	51308	broad.mit.edu	37	chr5	137781024	137781024	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcctgacggccgcctccgAcccagccctggcagcctcct	5	5	11	20	3	0	1	0	1	0	0	2	2	2	1	8	3	2	1	8	3	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:137781024A>G	uc003lcz.2	+	6	641	c.519A>G	c.(517-519)CGA>CGG	p.R173R	REEP2_uc003lda.2_Silent_p.R175R|REEP2_uc011cyt.1_Silent_p.R134R	NM_016606	NP_057690	Q9BRK0	REEP2_HUMAN	receptor accessory protein 2	173						integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			GCCGCCTCCGACCCAGCCCTG	0.672													12	30					0	0	1	0	0		G	137781024	G	G	137781024	2	3	49	1	0	0	0	0	0	0	0	1	13230	262	10	3		3	REEP2	5	137781024	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	265569	137781024	43134236	445	37125											
SLC4A9	83697	broad.mit.edu	37	chr5	139740369	139740369	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgggagaaatgccctcaaTaacactgtctacccaccttc	12	9	6	14	0	2	1	1	0	1	1	3	2	2	1	3	1	3	0	3	1	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:139740369T>C	uc003lfm.2	+	2	310	c.275T>C	c.(274-276)ATA>ACA	p.I92T	SLC4A9_uc003lfj.2_Intron|SLC4A9_uc011czg.1_Intron|SLC4A9_uc003lfl.2_Intron|SLC4A9_uc003lfk.2_Intron	NM_031467	NP_113655	Q96Q91	B3A4_HUMAN	solute carrier family 4, sodium bicarbonate	92	Cytoplasmic (Potential).					integral to membrane|plasma membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGCCCTCAATAACACTGTCT	0.597													4	15					0	0	1	0	0		C	139740369	C	C	139740369	3	2	49	1	0	0	0	0	1	0	0	0	14685	1421	49	3		3	SLC4A9	5	139740369	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1959345	139740369	41174891	446	37126											
PCDHA2	56146	broad.mit.edu	37	chr5	140176295	140176295	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgagtgagctggtgccGtggtcggtgggtgcagggca	5	8	21	7	2	0	2	0	2	0	0	1	2	0	2	1	5	3	4	1	5	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140176295G>A	uc003lhd.2	+	1	1852	c.1746G>A	c.(1744-1746)CCG>CCA	p.P582P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.P582P|PCDHA2_uc011czy.1_Silent_p.P582P	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	582	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCTGGTGCCGTGGTCGGTGG	0.657													32	57					0	0	1	0	0		A	140176295	A	A	140176295	2	1	49	1	0	0	0	0	0	0	0	1	11543	1132	40	1		1	PCDHA2	5	140176295	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	435926	140176295	40738965	447	37127											
PCDHA3	56145	broad.mit.edu	37	chr5	140182244	140182244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcggacgcgcaggagaacGccctggtgtcctactcgctg	7	6	14	14	6	0	1	0	0	0	1	2	3	1	2	2	3	2	2	2	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140182244G>A	uc003lhf.2	+	1	1462	c.1462G>A	c.(1462-1464)GCC>ACC	p.A488T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.A488T	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	488	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAGGAGAACGCCCTGGTGTC	0.662													10	147					0	0	1	0	0		A	140182244	A	A	140182244	3	1	49	1	0	0	0	0	1	0	0	0	11544	1087	38	1	1464	1	PCDHA3	5	140182244	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5949	140182244	40733016	448	37128											
PCDHA8	56140	broad.mit.edu	37	chr5	140222046	140222046	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaacgacctcgattcaggTgccaacgggcaggtgacctg	9	7	14	11	3	1	2	1	2	0	0	2	4	1	2	3	3	3	1	3	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140222046T>C	uc003lhs.2	+	1	1140	c.1140T>C	c.(1138-1140)GGT>GGC	p.G380G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.G380G	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	380	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGATTCAGGTGCCAACGGGC	0.542													8	173					0	0	1	0	0		C	140222046	C	C	140222046	2	2	49	1	0	0	0	0	0	0	0	1	11549	1683	59	3		3	PCDHA8	5	140222046	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	39802	140222046	40693214	449	37129											
PCDHA8	56140	broad.mit.edu	37	chr5	140223200	140223200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctctggtgaggggccacCgaagacggacctcatggcct	7	7	15	12	2	2	2	1	1	1	1	2	4	2	3	4	5	1	1	4	5	1	0	rs111750019	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140223200C>T	uc003lhs.2	+	1	2294	c.2294C>T	c.(2293-2295)CCG>CTG	p.P765L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.P765L	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	765	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGGGGCCACCGAAGACGGAC	0.587													11	38					0	0	1	0	0		T	140223200	T	T	140223200	3	4	49	1	0	0	0	0	1	0	0	0	11549	652	23	1	2296	1	PCDHA8	5	140223200	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1154	140223200	40692060	450	37130											
PCDHA11	56138	broad.mit.edu	37	chr5	140248772	140248772	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaattctgggaggtggggagCggccagctccactactccgt	7	8	15	11	2	1	0	0	0	1	0	3	3	3	2	3	5	3	1	3	5	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140248772C>T	uc003lia.2	+	1	942	c.84C>T	c.(82-84)AGC>AGT	p.S28S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Silent_p.S28S	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	28					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGTGGGGAGCGGCCAGCTCC	0.622													29	53					0	0	1	0	0		T	140248772	T	T	140248772	2	4	49	1	0	0	0	0	0	0	0	1	11540	767	27	1		1	PCDHA11	5	140248772	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	25572	140248772	40666488	451	37131											
PCDHA13	56136	broad.mit.edu	37	chr5	140262962	140262962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcagcctagcgccattattgCcctaatcagtgtgtccgatc	8	12	8	13	2	2	0	2	0	0	0	4	1	3	0	4	0	3	0	4	0	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140262962C>T	uc003lif.2	+	1	1109	c.1109C>T	c.(1108-1110)GCC>GTC	p.A370V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.A370V|PCDHA13_uc003lid.2_Missense_Mutation_p.A370V	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	370	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCATTATTGCCCTAATCAGT	0.507													11	125					0	0	1	0	0		T	140262962	T	T	140262962	3	4	49	1	0	0	0	0	1	0	0	0	11542	739	26	2	1111	2	PCDHA13	5	140262962	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	14190	140262962	40652298	452	37132											
PCDHA13	56136	broad.mit.edu	37	chr5	140263639	140263639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtggtggcgaaggtgcgcGcggtggacgccgattcgggc	5	6	20	10	8	0	0	0	0	0	0	1	3	0	1	1	6	1	0	1	6	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140263639G>A	uc003lif.2	+	1	1786	c.1786G>A	c.(1786-1788)GCG>ACG	p.A596T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.A596T|PCDHA13_uc003lid.2_Missense_Mutation_p.A596T	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	596	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAAGGTGCGCGCGGTGGACGC	0.706													12	105					0	0	1	0	0		A	140263639	A	A	140263639	3	1	49	1	0	0	0	0	1	0	0	0	11542	1087	38	1	1788	1	PCDHA13	5	140263639	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	677	140263639	40651621	453	37133											
PCDHB5	26167	broad.mit.edu	37	chr5	140515685	140515685	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggggctccgcccaggtcCgggaccaccacaattcgcat	7	6	13	15	3	0	0	0	0	0	0	3	1	2	1	5	5	0	2	5	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140515685C>T	uc003liq.2	+	1	886	c.669C>T	c.(667-669)TCC>TCT	p.S223S		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	223	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCCCAGGTCCGGGACCACCA	0.567													43	104					0	0	1	0	0		T	140515685	T	T	140515685	2	4	49	1	0	0	0	0	0	0	0	1	11564	639	23	1		1	PCDHB5	5	140515685	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	252046	140515685	40399575	454	37134											
PCDHB5	26167	broad.mit.edu	37	chr5	140516972	140516972	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggcgagcctccgcgctcGgccaccgccacgctgcacgt	6	5	12	18	7	0	0	0	0	0	0	2	1	1	0	5	2	2	3	5	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140516972G>A	uc003liq.2	+	1	2173	c.1956G>A	c.(1954-1956)TCG>TCA	p.S652S		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	652	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTCCGCGCTCGGCCACCGCCA	0.726													18	57					0	0	1	0	0		A	140516972	A	A	140516972	2	1	49	1	0	0	0	0	0	0	0	1	11564	1103	39	1		1	PCDHB5	5	140516972	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1287	140516972	40398288	455	37135											
PCDHB5	26167	broad.mit.edu	37	chr5	140517397	140517397	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccggaatagctttggatTaaattagagatctcgtgatg	11	14	10	6	2	1	2	0	1	1	1	3	5	2	4	1	2	1	1	1	2	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140517397T>C	uc003liq.2	+	1	2598	c.2381T>C	c.(2380-2382)TTA>TCA	p.L794S		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	794	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCTTTGGATTAAATTAGAGA	0.433													7	73					0	0	1	0	0		C	140517397	C	C	140517397	3	2	49	1	0	0	0	0	1	0	0	0	11564	1764	61	3	2383	3	PCDHB5	5	140517397	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	425	140517397	40397863	456	37136											
PCDHB7	56129	broad.mit.edu	37	chr5	140554495	140554495	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctggtggtggcgttggcCtcggtgtcttcgctcttcct	1	15	13	12	3	2	0	0	0	2	0	5	0	3	0	3	5	1	2	3	5	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140554495C>T	uc003lit.2	+	1	2253	c.2079C>T	c.(2077-2079)GCC>GCT	p.A693A	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	693	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGCGTTGGCCTCGGTGTCTT	0.706													11	404					0	0	1	0	0		T	140554495	T	T	140554495	2	4	49	1	0	0	0	0	0	0	0	1	11566	668	24	4		4	PCDHB7	5	140554495	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	37098	140554495	40360765	457	37137											
PCDHB8	56128	broad.mit.edu	37	chr5	140559119	140559119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatccgcacctgcccctcGcctccctggtctccatcaac	6	8	7	20	2	2	0	1	0	1	0	6	1	4	1	7	2	2	1	7	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140559119G>A	uc011dai.1	+	1	1690	c.1504G>A	c.(1504-1506)GCC>ACC	p.A502T	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	502	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTGCCCCTCGCCTCCCTGGT	0.672													46	494					0	0	1	0	0		A	140559119	A	A	140559119	3	1	49	1	0	0	0	0	1	0	0	0	11567	1087	38	1	1506	1	PCDHB8	5	140559119	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4624	140559119	40356141	458	37138											
PCDHB16	57717	broad.mit.edu	37	chr5	140562190	140562190	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaagtccttgttttctttgTtttgctgagcttgtctgggg	3	19	12	7	0	2	1	0	1	2	0	3	1	3	1	1	2	2	5	1	2	1	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140562190T>C	uc003liv.2	+	1	1211	c.56T>C	c.(55-57)GTT>GCT	p.V19A	PCDHB16_uc010jfw.1_Intron	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	19					calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTTTTCTTTGTTTTGCTGAGC	0.478													7	97					0	0	1	0	0		C	140562190	C	C	140562190	3	2	49	1	0	0	0	0	1	0	0	0	11560	1725	60	3	58	3	PCDHB16	5	140562190	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3071	140562190	40353070	459	37139											
PCDHB10	56126	broad.mit.edu	37	chr5	140574321	140574321	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgctcggtgcccgagggTccttttccagggcatctggt	3	11	14	13	3	1	0	0	0	1	0	4	1	3	0	3	4	2	3	3	4	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140574321T>C	uc003lix.2	+	1	2370	c.2196T>C	c.(2194-2196)GGT>GGC	p.G732G		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	732	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGCCCGAGGGTCCTTTTCCAG	0.662													11	114					0	0	1	0	0		C	140574321	C	C	140574321	2	2	49	1	0	0	0	0	0	0	0	1	11554	1654	58	3		3	PCDHB10	5	140574321	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	12131	140574321	40340939	460	37140											
PCDHB12	56124	broad.mit.edu	37	chr5	140590121	140590121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagcagcgaggcgctggtgCgcgtgctggtgctggacgcc	4	7	19	11	5	0	1	0	1	0	0	0	3	0	2	1	4	5	4	1	4	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140590121C>T	uc003liz.2	+	1	1831	c.1642C>T	c.(1642-1644)CGC>TGC	p.R548C	PCDHB12_uc011dak.1_Missense_Mutation_p.R211C	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	548	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCGCTGGTGCGCGTGCTGGT	0.706													7	63					0	0	1	0	0		T	140590121	T	T	140590121	3	4	49	1	0	0	0	0	1	0	0	0	11556	768	27	1	1644	1	PCDHB12	5	140590121	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	15800	140590121	40325139	461	37141											
PCDHB14	56122	broad.mit.edu	37	chr5	140603564	140603564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctcaagatttggatgtcGgaagcaacagtctccaaaac	13	9	10	9	1	2	1	1	0	1	1	4	3	2	3	1	2	4	2	1	2	5	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140603564G>A	uc003ljb.2	+	1	487	c.487G>A	c.(487-489)GGA>AGA	p.G163R	PCDHB14_uc011dal.1_Missense_Mutation_p.G10R	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	163	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTTGGATGTCGGAAGCAACAG	0.408													8	82					0	0	1	0	0		A	140603564	A	A	140603564	3	1	49	1	0	0	0	0	1	0	0	0	11558	1117	39	1	489	1	PCDHB14	5	140603564	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	13443	140603564	40311696	462	37142											
PCDHGA4	56111	broad.mit.edu	37	chr5	140737100	140737100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacccagctatgcagacaCgctcatcagccgggagagtt	11	6	10	14	2	2	2	2	0	0	2	2	3	2	2	3	1	4	4	3	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140737100C>T	uc003ljq.1	+	1	2333	c.2333C>T	c.(2332-2334)ACG>ATG	p.T778M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGB2_uc003ljs.1_5'Flank|PCDHGA4_uc003ljp.1_Missense_Mutation_p.T778M|PCDHGB2_uc011dar.1_5'Flank	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	778	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TATGCAGACACGCTCATCAGC	0.527													31	99					0	0	1	0	0		T	140737100	T	T	140737100	3	4	49	1	0	0	0	0	1	0	0	0	11575	536	19	1	2335	1	PCDHGA4	5	140737100	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	133536	140737100	40178160	463	37143											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769364	140769364	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacagggacgccgtccgccAgcgccttctggtcgccgtgc	4	6	14	17	7	1	0	0	0	1	0	3	2	2	1	5	2	2	0	5	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140769364A>C	uc003lkc.1	+	1	1913	c.1913A>C	c.(1912-1914)CAG>CCG	p.Q638P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.Q638P	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	638	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCGTCCGCCAGCGCCTTCTG	0.701													4	25					0	0	1	0	0		C	140769364	C	C	140769364	3	2	49	1	0	0	0	0	1	0	0	0	11584	188	7	5	1915	5	PCDHGB4	5	140769364	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	32264	140769364	40145896	464	37144											
PCDHGB5	56101	broad.mit.edu	37	chr5	140778761	140778761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaatgattctggaaaacgCggtgcctggaacactaattg	13	10	11	7	2	1	2	0	2	1	0	1	4	1	4	1	3	3	0	1	3	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140778761C>T	uc003lkf.1	+	1	1067	c.1067C>T	c.(1066-1068)GCG>GTG	p.A356V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.A356V	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	356	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGAAAACGCGGTGCCTGGA	0.378													11	44					0	0	1	0	0		T	140778761	T	T	140778761	3	4	49	1	0	0	0	0	1	0	0	0	11585	768	27	1	1069	1	PCDHGB5	5	140778761	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	9397	140778761	40136499	465	37145											
PCDHGC4	56098	broad.mit.edu	37	chr5	140864818	140864818	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttttaccacctgggttaCgtttgtgggcagatccgcta	6	14	10	11	2	1	1	0	0	1	1	2	1	2	1	3	2	2	4	3	2	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:140864818C>T	uc003lky.1	+	1	78	c.78C>T	c.(76-78)TAC>TAT	p.Y26Y	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Silent_p.Y26Y	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	26					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCTGGGTTACGTTTGTGGGC	0.537													11	61					0	0	1	0	0		T	140864818	T	T	140864818	2	4	49	1	0	0	0	0	0	0	0	1	11589	547	19	1		1	PCDHGC4	5	140864818	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	86057	140864818	40050442	466	37146											
RBM27	54439	broad.mit.edu	37	chr5	145609441	145609441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaagccgaagtagggggcGcagcaaagaccgggatccaa	14	3	15	9	3	0	2	0	0	0	2	1	4	1	3	3	3	2	3	3	3	6	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:145609441G>A	uc003lnz.3	+	5	723	c.557G>A	c.(556-558)CGC>CAC	p.R186H	RBM27_uc003lny.2_Missense_Mutation_p.R186H	NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	186	Arg-rich.				mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGTAGGGGGCGCAGCAAAGAC	0.418													24	71					0	0	1	0	0		A	145609441	A	A	145609441	3	1	49	1	0	0	0	0	1	0	0	0	13152	1087	38	1	575	1	RBM27	5	145609441	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4744623	145609441	35305819	467	37147											
PPP2R2B	5521	broad.mit.edu	37	chr5	146077585	146077585	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgcattctgctgggggagCcatcttattttattgatttt	6	18	10	7	0	2	1	0	1	2	0	2	2	2	2	1	2	3	3	1	2	2	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:146077585C>T	uc003loe.2	-	3	816	c.291G>A	c.(289-291)TGG>TGA	p.W97*	PPP2R2B_uc010jgm.2_Nonsense_Mutation_p.W86*|PPP2R2B_uc003log.3_Nonsense_Mutation_p.W97*|PPP2R2B_uc003lof.3_Nonsense_Mutation_p.W97*|PPP2R2B_uc003loi.3_Nonsense_Mutation_p.W100*|PPP2R2B_uc003loh.3_Nonsense_Mutation_p.W97*|PPP2R2B_uc003loj.3_Nonsense_Mutation_p.W77*|PPP2R2B_uc003lok.3_Nonsense_Mutation_p.W86*|PPP2R2B_uc011dbu.1_Nonsense_Mutation_p.W103*|PPP2R2B_uc011dbv.1_Nonsense_Mutation_p.W155*	NM_004576	NP_004567	Q00005	2ABB_HUMAN	beta isoform of regulatory subunit B55, protein	97	WD 2.				apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCTGGGGGAGCCATCTTATTT	0.388													6	81					0	0	1	0	0		T	146077585	T	T	146077585	4	4	49	1	0	0	0	0	0	1	0	0	12407	740	26	2	1068	2	PPP2R2B	5	146077585	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	468144	146077585	34837675	468	37148											
DPYSL3	1809	broad.mit.edu	37	chr5	146788353	146788353	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccatttccaacatgcgggTttgctcctgaaatgaaaaaa	13	10	7	11	1	0	2	0	2	0	0	2	2	2	2	4	1	3	2	4	1	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:146788353T>C	uc003lon.1	-	7	738	c.628A>G	c.(628-630)ACC>GCC	p.T210A	DPYSL3_uc003loo.2_Missense_Mutation_p.T324A	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	210					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACATGCGGGTTTGCTCCTGA	0.418													8	45					0	0	1	0	0		C	146788353	C	C	146788353	3	2	49	1	0	0	0	0	1	0	0	0	4754	1725	60	3	1116	3	DPYSL3	5	146788353	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	710768	146788353	34126907	469	37149											
CSNK1A1	1452	broad.mit.edu	37	chr5	148886637	148886637	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatacatgtaatctggggcTtcctcaaagcgtagcccacg	11	9	10	11	2	2	1	1	0	1	1	3	1	3	1	2	2	3	3	2	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:148886637T>G	uc003lqx.1	-	8	1290	c.810A>C	c.(808-810)GAA>GAC	p.E270D	CSNK1A1_uc011dcb.1_Missense_Mutation_p.E179D|CSNK1A1_uc011dcc.1_Missense_Mutation_p.E209D|CSNK1A1_uc003lqv.1_Missense_Mutation_p.E181D|CSNK1A1_uc003lqw.1_Missense_Mutation_p.E298D|CSNK1A1_uc003lqy.1_Missense_Mutation_p.E270D|CSNK1A1_uc010jha.1_Missense_Mutation_p.E270D	NM_001892	NP_001883	P48729	KC1A_HUMAN	casein kinase 1, alpha 1 isoform 2	270	Protein kinase.				cell division|mitosis|Wnt receptor signaling pathway	centrosome|condensed chromosome kinetochore|cytosol|nuclear speck	ATP binding|protein binding|protein binding|protein serine/threonine kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.0407)		AATCTGGGGCTTCCTCAAAGC	0.373													3	33					0	0	1	0	0		G	148886637	G	G	148886637	3	3	49	1	0	0	0	0	1	0	0	0	3953	1606	56	5	215	5	CSNK1A1	5	148886637	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2098284	148886637	32028623	470	37150											
TIGD6	81789	broad.mit.edu	37	chr5	149375905	149375905	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgcttcttgttccccttgtTtgccatttccagggaatgag	6	15	9	11	1	1	1	0	1	1	0	3	2	3	2	4	1	1	3	4	1	1	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:149375905T>C	uc003lri.2	-	2	769	c.7A>G	c.(7-9)AAC>GAC	p.N3D	TIGD6_uc003lrj.2_Missense_Mutation_p.N3D	NM_030953	NP_112215	Q17RP2	TIGD6_HUMAN	hypothetical protein LOC81789	3	HTH psq-type.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TTCCCCTTGTTTGCCATTTCC	0.512													35	83					0	0	1	0	0		C	149375905	C	C	149375905	3	2	49	1	0	0	0	0	1	0	0	0	15925	1841	64	3	1562	3	TIGD6	5	149375905	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	489268	149375905	31539355	471	37151											
CSF1R	1436	broad.mit.edu	37	chr5	149460351	149460351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgacatagaggtggatggCggcgctgcctcccagggggt	6	9	17	9	2	0	2	0	1	0	1	1	3	1	3	2	6	1	1	2	6	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:149460351C>T	uc003lrl.2	-	2	481	c.286G>A	c.(286-288)GCC>ACC	p.A96T	CSF1R_uc011dcd.1_5'UTR|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Missense_Mutation_p.A96T|CSF1R_uc011dce.1_Missense_Mutation_p.A96T|CSF1R_uc011dcf.1_Missense_Mutation_p.A96T	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	96	Ig-like C2-type 1.|Extracellular (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	AGGTGGATGGCGGCGCTGCCT	0.582													8	21					0	0	1	0	0		T	149460351	T	T	149460351	3	4	49	1	0	0	0	0	1	0	0	0	3935	768	27	1	2712	1	CSF1R	5	149460351	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	84446	149460351	31454909	472	37152											
TCOF1	6949	broad.mit.edu	37	chr5	149751643	149751643	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtctccagcaagaaaggcGgccccagcccctgggaaggt	10	4	14	13	1	1	1	0	0	1	1	2	3	1	2	5	4	2	1	5	4	3	0	rs147186583	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:149751643G>A	uc003lry.2	+	7	822	c.714G>A	c.(712-714)GCG>GCA	p.A238A	TCOF1_uc003lrw.2_Silent_p.A238A|TCOF1_uc011dch.1_Silent_p.A238A|TCOF1_uc003lrz.2_Silent_p.A238A|TCOF1_uc003lrx.2_Intron|TCOF1_uc003lsa.2_Intron	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	238					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CAAGAAAGGCGGCCCCAGCCC	0.567													4	30					0	0	1	0	0		A	149751643	A	A	149751643	2	1	49	1	0	0	0	0	0	0	0	1	15733	1103	39	1		1	TCOF1	5	149751643	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	291292	149751643	31163617	473	37153											
FAT2	2196	broad.mit.edu	37	chr5	150887067	150887067	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttatgataatgaacgccacGgccactgtgatgatcagtaa	13	10	9	9	2	1	4	1	4	0	0	1	4	1	4	2	1	1	1	2	1	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:150887067G>A	uc003lue.3	-	22	12178	c.12165C>T	c.(12163-12165)GCC>GCT	p.A4055A	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Silent_p.A662A	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	4055	Helical; (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGAACGCCACGGCCACTGTGA	0.572													7	63					0	0	1	0	0		A	150887067	A	A	150887067	2	1	49	1	0	0	0	0	0	0	0	1	5704	1103	39	1		1	FAT2	5	150887067	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1135424	150887067	30028193	474	37154											
SPARC	6678	broad.mit.edu	37	chr5	151043781	151043781	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacgcagtggagccagctcGgtgtgggagaggtacctgca	8	6	17	10	2	0	1	0	0	0	1	1	3	0	2	2	4	4	5	2	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:151043781G>A	uc003luh.2	-	8	774	c.750C>T	c.(748-750)ACC>ACT	p.T250T	GM2A_uc011dcs.1_Intron|SPARC_uc003lug.2_Silent_p.T84T|SPARC_uc003lui.2_Silent_p.T250T	NM_003118	NP_003109	P09486	SPRC_HUMAN	secreted protein, acidic, cysteine-rich	250					ossification|platelet activation|platelet degranulation|signal transduction	basement membrane|extracellular space|platelet alpha granule lumen	calcium ion binding|collagen binding			central_nervous_system(1)	1		Medulloblastoma(196;0.109)|all_hematologic(541;0.122)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)	OV - Ovarian serous cystadenocarcinoma(192;0.00118)	Becaplermin(DB00102)	GAGCCAGCTCGGTGTGGGAGA	0.622													3	27					0	0	1	0	0		A	151043781	A	A	151043781	2	1	49	1	0	0	0	0	0	0	0	1	15020	1103	39	1		1	SPARC	5	151043781	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	156714	151043781	29871479	475	37155											
LARP1	23367	broad.mit.edu	37	chr5	154181920	154181920	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctactatgagcaggacctGtgggctgaaaagtttgaacc	11	11	11	8	0	1	3	0	3	1	0	1	4	1	4	2	2	3	3	2	2	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:154181920G>A	uc003lvp.2	+	11	2499	c.2070G>A	c.(2068-2070)CTG>CTA	p.L690L	LARP1_uc003lvo.2_Silent_p.L613L|LARP1_uc010jie.1_Silent_p.L485L	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	690							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			AGCAGGACCTGTGGGCTGAAA	0.547													7	48					0	0	1	0	0		A	154181920	A	A	154181920	2	1	49	1	0	0	0	0	0	0	0	1	8644	1364	48	4		4	LARP1	5	154181920	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3138139	154181920	26733340	476	37156											
ADAM19	8728	broad.mit.edu	37	chr5	156915296	156915296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaacgatgcaatttggtgCggggggaattggccggcttg	8	9	18	6	3	0	0	0	0	0	0	0	3	0	2	1	7	3	2	1	7	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:156915296C>T	uc003lwz.2	-	21	2591	c.2527G>A	c.(2527-2529)GCA>ACA	p.A843T	ADAM19_uc003lww.1_Missense_Mutation_p.A576T|ADAM19_uc003lwy.2_Missense_Mutation_p.A442T|ADAM19_uc011ddr.1_Missense_Mutation_p.A774T	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	843	Cytoplasmic (Potential).|SH3-binding (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CAATTTGGTGCGGGGGGAATT	0.562													40	152					0	0	1	0	0		T	156915296	T	T	156915296	3	4	49	1	0	0	0	0	1	0	0	0	240	768	27	1	241	1	ADAM19	5	156915296	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2733376	156915296	23999964	477	37157											
DOCK2	1794	broad.mit.edu	37	chr5	169506070	169506070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgcctgaggtcaagctgCggaggtccaagaagaggaca	11	5	14	11	1	1	3	1	1	0	2	2	5	2	5	3	4	3	1	3	4	3	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:169506070C>T	uc003maf.2	+	49	5166	c.5086C>T	c.(5086-5088)CGG>TGG	p.R1696W	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.R1188W|DOCK2_uc003mah.2_Missense_Mutation_p.R252W	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1696					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGTCAAGCTGCGGAGGTCCAA	0.572													25	53					0	0	1	0	0		T	169506070	T	T	169506070	3	4	49	1	0	0	0	0	1	0	0	0	4693	759	27	1	5280	1	DOCK2	5	169506070	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	12590774	169506070	11409190	478	37158											
STK10	6793	broad.mit.edu	37	chr5	171520517	171520517	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaggctgctgcagtccgAgtccctcttggaaggccctg	6	8	14	13	1	1	1	0	0	1	1	3	3	3	2	3	3	2	4	3	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:171520517A>G	uc003mbo.1	-	9	1753	c.1453T>C	c.(1453-1455)TCG>CCG	p.S485P		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	485							ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CTGCAGTCCGAGTCCCTCTTG	0.607													7	137					0	0	1	0	0		G	171520517	G	G	171520517	3	3	49	1	0	0	0	0	1	0	0	0	15311	304	11	3	1497	3	STK10	5	171520517	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2014447	171520517	9394743	479	37159											
TSPAN17	26262	broad.mit.edu	37	chr5	176079825	176079825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttcaaggactggattcgaGaccagctcaacctcttcatc	10	11	7	13	1	5	1	3	0	2	1	7	4	5	3	2	2	2	1	2	2	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:176079825G>A	uc003met.2	+	4	596	c.367G>A	c.(367-369)GAC>AAC	p.D123N	TSPAN17_uc003mes.3_Missense_Mutation_p.D57N|TSPAN17_uc003meu.2_Missense_Mutation_p.D123N|TSPAN17_uc003mev.2_Missense_Mutation_p.D123N|TSPAN17_uc003mew.2_Missense_Mutation_p.D123N	NM_012171	NP_036303	Q96FV3	TSN17_HUMAN	transmembrane 4 superfamily member 17 isoform a	123	Extracellular (Potential).					integral to membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0	all_cancers(89;0.00141)|Renal(175;0.000269)|Lung NSC(126;0.00814)|all_lung(126;0.0133)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTGGATTCGAGACCAGCTCAA	0.522													19	168					0	0	1	0	0		A	176079825	A	A	176079825	3	1	49	1	0	0	0	0	1	0	0	0	16667	942	33	4	381	4	TSPAN17	5	176079825	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4559308	176079825	4835435	480	37160											
NSD1	64324	broad.mit.edu	37	chr5	176719126	176719126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgcccaaaagtttaccacGcagactgtctcaatctgacc	11	9	7	14	1	2	2	1	1	2	1	3	2	2	2	3	0	2	3	3	0	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:176719126G>A	uc003mfr.3	+	22	6568	c.6430G>A	c.(6430-6432)GCA>ACA	p.A2144T	NSD1_uc003mft.3_Missense_Mutation_p.A1875T|NSD1_uc011dfx.1_Missense_Mutation_p.A1792T	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	2144	PHD-type 4; atypical.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		AGTTTACCACGCAGACTGTCT	0.502			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			6	49					0	0	1	0	0		A	176719126	A	A	176719126	3	1	49	1	0	0	0	0	1	0	0	0	10688	1087	38	1	6512	1	NSD1	5	176719126	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	639301	176719126	4196134	481	37161											
FAM193B	54540	broad.mit.edu	37	chr5	176966091	176966091	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccttcttcccagcctttgcGttcccggtgacacagcaggc	5	10	10	16	2	1	1	0	1	1	0	3	1	3	1	4	2	3	2	4	2	0	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:176966091G>A	uc003mhs.3	-	3	1518	c.-71C>T	c.(-73--69)AACGC>AATGC		FAM193B_uc003mht.2_5'Flank|FAM193B_uc003mhu.2_5'Flank|FAM193B_uc003mhv.2_Translation_Start_Site|FAM193B_uc003mhw.2_RNA	NM_019057	NP_061930	E9PET5	E9PET5_HUMAN	hypothetical protein LOC54540												0						CAGCCTTTGCGTTCCCGGTGA	0.587													3	9					0	0	1	0	0		A	176966091	A	A	176966091	1	1	49	1	0	0	0	0	0	0	0	0	5536	1160	40	1		1	FAM193B	5	176966091	Translation_Start_Site	SNP	G	TCGA-BR-7707-01A-11D-2053-08	246965	176966091	3949169	482	37162											
HNRNPAB	3182	broad.mit.edu	37	chr5	177633848	177633848	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgggggtctgaatcctgaagCcactgaggaaaagatcaggg	12	7	15	7	0	2	4	1	3	1	1	3	5	3	5	2	4	1	0	2	4	4	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:177633848C>A	uc003miu.2	+	4	751	c.494C>A	c.(493-495)GCC>GAC	p.A165D	HNRNPAB_uc003miv.2_Missense_Mutation_p.A165D|HNRNPAB_uc010jks.2_Missense_Mutation_p.A165D|HNRNPAB_uc003miw.2_Missense_Mutation_p.A165D|HNRNPAB_uc003mix.2_Missense_Mutation_p.A165D	NM_031266	NP_112556	Q99729	ROAA_HUMAN	heterogeneous nuclear ribonucleoprotein A/B	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding				0						AATCCTGAAGCCACTGAGGAA	0.537													20	57					7.92952e-12	8.58113e-12	1	1	0		A	177633848	A	A	177633848	3	1	49	1	0	0	0	0	1	0	0	0	7277	739	26	5	504	5	HNRNPAB	5	177633848	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	667757	177633848	3281412	483	37163											
AGXT2L2	85007	broad.mit.edu	37	chr5	177642329	177642329	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgcccgaggagctgcaTcaggaagctgcctacactgg	8	8	13	12	1	1	0	1	0	0	0	1	3	1	2	2	3	7	4	2	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:177642329T>C	uc003miz.2	-	9	1282	c.1030A>G	c.(1030-1032)ATG>GTG	p.M344V	AGXT2L2_uc003miy.2_Missense_Mutation_p.M69V|AGXT2L2_uc003mjc.2_Missense_Mutation_p.M303V|AGXT2L2_uc003mja.2_RNA|AGXT2L2_uc003mjb.2_Missense_Mutation_p.M69V|AGXT2L2_uc003mjd.1_Missense_Mutation_p.M202V	NM_153373	NP_699204	Q8IUZ5	AT2L2_HUMAN	alanine-glyoxylate aminotransferase 2-like 2	344						mitochondrion	pyridoxal phosphate binding|transaminase activity			pancreas(1)	1	all_cancers(89;0.00185)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.181)|all cancers(165;0.235)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	AGGAGCTGCATCAGGAAGCTG	0.617													6	24					0	0	1	0	0		C	177642329	C	C	177642329	3	2	49	1	0	0	0	0	1	0	0	0	407	1435	50	3	338	3	AGXT2L2	5	177642329	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	8481	177642329	3272931	484	37164											
GRM6	2916	broad.mit.edu	37	chr5	178413950	178413950	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccgcccgggcgcatctccGttctcgttgaacatcacagg	7	9	10	15	5	3	1	1	1	2	0	5	1	3	1	3	2	2	3	3	2	2	3	rs139745015		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:178413950G>A	uc003mjr.2	-	7	1568	c.1389C>T	c.(1387-1389)AAC>AAT	p.N463N	GRM6_uc003mjq.2_5'Flank|GRM6_uc010jla.1_Silent_p.N46N|GRM6_uc003mjs.1_Silent_p.N83N	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	463	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		GCGCATCTCCGTTCTCGTTGA	0.657													5	21					0	0	1	0	0		A	178413950	A	A	178413950	2	1	49	1	0	0	0	0	0	0	0	1	6817	1136	40	1		1	GRM6	5	178413950	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	771621	178413950	2501310	485	37165											
RUFY1	80230	broad.mit.edu	37	chr5	178996343	178996343	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttaatgatggaggaagaaGggatggtgattgttggtctg	10	13	16	2	0	1	3	0	2	1	1	1	6	1	6	0	5	0	1	0	5	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:178996343G>T	uc003mka.1	+	5	745	c.745G>T	c.(745-747)GGG>TGG	p.G249W	RUFY1_uc003mkb.1_Missense_Mutation_p.G141W|RUFY1_uc003mkc.1_Missense_Mutation_p.G141W	NM_025158	NP_079434	Q96T51	RUFY1_HUMAN	RUN and FYVE domain-containing 1 isoform a	249	RUN.				endocytosis|protein transport	early endosome membrane	lipid binding|zinc ion binding			ovary(4)|breast(1)	5	all_cancers(89;0.00018)|all_epithelial(37;8.37e-05)|Renal(175;0.000159)|Lung NSC(126;0.00108)|all_lung(126;0.00195)	all_cancers(40;0.0322)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGAGGAAGAAGGGATGGTGAT	0.473										HNSCC(44;0.11)			20	119					4.26978e-12	4.63236e-12	1	1	0		T	178996343	T	T	178996343	3	4	49	1	0	0	0	0	1	0	0	0	13763	1000	35	5	763	5	RUFY1	5	178996343	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	582393	178996343	1918917	486	37166											
BTNL9	153579	broad.mit.edu	37	chr5	180486592	180486592	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccctgcgcgtgcccccGcggcgcctgggcgtcttcct	1	8	12	20	6	2	0	1	0	1	0	3	0	3	0	5	2	2	0	5	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr5:180486592G>A	uc003mmt.2	+	11	1569	c.1338G>A	c.(1336-1338)CCG>CCA	p.P446P		NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	446	Cytoplasmic (Potential).|B30.2/SPRY.					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCGTGCCCCCGCGGCGCCTGG	0.687													14	37					0	0	1	0	0		A	180486592	A	A	180486592	2	1	49	1	0	0	0	0	0	0	0	1	1571	1074	38	1		1	BTNL9	5	180486592	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1490249	180486592	428668	487	37167											
C6orf145	221749	broad.mit.edu	37	chr6	3751713	3751713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggatgccgttcacccagcagCcgcgcacgaacatgttcacg	9	6	11	15	5	2	0	2	0	0	0	2	2	2	1	3	1	4	4	3	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:3751713C>T	uc003mvt.2	-	1	534	c.53G>A	c.(52-54)GGC>GAC	p.G18D		NM_183373	NP_899229	Q5TGL8	CF145_HUMAN	hypothetical protein LOC221749	18	PX.				cell communication		phosphatidylinositol binding			breast(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				CACCCAGCAGCCGCGCACGAA	0.622													4	15					0	0	1	0	0		T	3751713	T	T	3751713	3	4	49	1	0	0	0	0	1	0	0	0	2337	739	26	2	662	2	C6orf145	6	3751713	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08		3751713	167363354	488	37168											
GCNT2	2651	broad.mit.edu	37	chr6	10529926	10529926	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctcatgacatggtgatttActttggcacggcctacgtgg	7	13	11	10	2	1	2	1	2	0	0	2	2	2	2	2	4	2	1	2	4	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:10529926A>G	uc010joo.2	+	3	1333	c.782A>G	c.(781-783)TAC>TGC	p.Y261C	GCNT2_uc010jol.2_Intron|GCNT2_uc010jom.2_Intron|GCNT2_uc010jop.2_Intron|GCNT2_uc003mza.2_Intron|GCNT2_uc003mzc.3_Missense_Mutation_p.Y260C|GCNT2_uc010jon.2_Missense_Mutation_p.Y260C	NM_145649	NP_663624	Q8N0V5	GNT2A_HUMAN	glucosaminyl (N-acetyl) transferase 2,	261	Lumenal (Potential).					Golgi membrane|integral to membrane	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(2)	2	Ovarian(93;0.107)|Breast(50;0.148)	all_hematologic(90;0.107)		KIRC - Kidney renal clear cell carcinoma(1;0.099)|Kidney(1;0.119)		ATGGTGATTTACTTTGGCACG	0.453													5	134					0	0	1	0	0		G	10529926	G	G	10529926	3	3	49	1	0	0	0	0	1	0	0	0	6316	391	14	3	784	3	GCNT2	6	10529926	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	6778213	10529926	160585141	489	37169											
CAP2	10486	broad.mit.edu	37	chr6	17551823	17551823	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaacatacttatccctcaGgatggtgattatgtaagtac	13	13	8	7	0	1	2	1	2	0	0	2	3	2	3	1	2	3	2	1	2	6	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:17551823G>T	uc003ncb.2	+	12	1581	c.1338G>T	c.(1336-1338)CAG>CAT	p.Q446H	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Missense_Mutation_p.Q420H|CAP2_uc011djb.1_Missense_Mutation_p.Q382H|CAP2_uc011djc.1_Missense_Mutation_p.Q334H|CAP2_uc011djd.1_Missense_Mutation_p.Q186H	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	446	C-CAP/cofactor C-like.				activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			TTATCCCTCAGGATGGTGATT	0.383													38	85					5.48756e-27	6.05719e-27	1	1	0		T	17551823	T	T	17551823	3	4	49	1	0	0	0	0	1	0	0	0	2623	991	35	5	1380	5	CAP2	6	17551823	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	7021897	17551823	153563244	490	37170											
NRSN1	140767	broad.mit.edu	37	chr6	24145884	24145884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttggcgaagccgattttgtgGtggtcgacacacatgctgtc	7	12	13	9	3	0	0	0	0	0	0	2	3	0	0	1	3	2	1	1	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:24145884G>A	uc010jpq.1	+	4	535	c.298G>A	c.(298-300)GTG>ATG	p.V100M		NM_080723	NP_542454	Q8IZ57	NRSN1_HUMAN	neurensin 1	100					nervous system development	growth cone|integral to membrane|neuronal cell body|transport vesicle					0						CGATTTTGTGGTGGTCGACAC	0.517													8	65					0	0	1	0	0		A	24145884	A	A	24145884	3	1	49	1	0	0	0	0	1	0	0	0	10681	1261	44	4	304	4	NRSN1	6	24145884	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	6594061	24145884	146969183	491	37171											
ZNF192	7745	broad.mit.edu	37	chr6	28121148	28121148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccttcagttacaggtcaGcccttctttcacatcaggat	10	12	7	12	0	5	0	4	0	1	0	5	1	5	1	2	2	3	1	2	2	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:28121148G>A	uc003nkn.1	+	6	1274	c.1090G>A	c.(1090-1092)GCC>ACC	p.A364T	ZNF192_uc010jqx.1_Missense_Mutation_p.A364T|ZNF192_uc010jqy.1_Missense_Mutation_p.A177T|ZNF192_uc011dkz.1_Missense_Mutation_p.A177T	NM_006298	NP_006289	Q15776	ZN192_HUMAN	zinc finger protein 192	364	C2H2-type 2.				viral reproduction	cytoplasm|nucleolus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTACAGGTCAGCCCTTCTTTC	0.483													98	290					0	0	1	0	0		A	28121148	A	A	28121148	3	1	49	1	0	0	0	0	1	0	0	0	17781	971	34	2	1108	2	ZNF192	6	28121148	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3975264	28121148	142993919	492	37172											
GPX6	257202	broad.mit.edu	37	chr6	28472268	28472268	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagatcagaggtcggagggCaggagttctggagcagagat	13	6	17	5	1	2	3	1	0	1	3	3	7	2	6	0	5	1	3	0	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:28472268C>T	uc011dlj.1	-	6	517	c.467G>A	c.(466-468)TGC>TAC	p.C156Y	GPX6_uc010jrg.1_RNA	NM_182701	NP_874360	P59796	GPX6_HUMAN	glutathione peroxidase 6 precursor	156					response to oxidative stress	extracellular region	glutathione peroxidase activity			ovary(3)|pancreas(1)|skin(1)	5					Glutathione(DB00143)	GGTCGGAGGGCAGGAGTTCTG	0.438													8	31					0	0	1	0	0		T	28472268	T	T	28472268	3	4	49	1	0	0	0	0	1	0	0	0	6760	710	25	2	202	2	GPX6	6	28472268	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	351120	28472268	142642799	493	37173											
SCAND3	114821	broad.mit.edu	37	chr6	28543694	28543694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaactgattcctttttcGccttagctttagcttctttc	6	19	5	11	1	2	1	1	1	1	0	5	1	3	1	2	0	3	2	2	0	3	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:28543694G>A	uc003nlo.2	-	3	1406	c.788C>T	c.(787-789)GCG>GTG	p.A263V		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	263	Potential.				DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TTCCTTTTTCGCCTTAGCTTT	0.358													31	80					0	0	1	0	0		A	28543694	A	A	28543694	3	1	49	1	0	0	0	0	1	0	0	0	13901	1087	38	1	3197	1	SCAND3	6	28543694	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	71426	28543694	142571373	494	37174											
BAT3	7917	broad.mit.edu	37	chr6	31609931	31609931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaagatgttgctggatcCactgaggcgttgtatgaagg	10	11	13	7	1	1	3	1	2	0	1	2	4	2	4	1	3	1	4	1	3	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:31609931C>T	uc003nvg.3	-	15	2517	c.2203G>A	c.(2203-2205)GGA>AGA	p.G735R	BAT3_uc003nvf.3_Missense_Mutation_p.G729R|BAT3_uc003nvh.3_Missense_Mutation_p.G729R|BAT3_uc003nvi.3_Missense_Mutation_p.G729R|BAT3_uc011dnw.1_Missense_Mutation_p.G729R|BAT3_uc011dnx.1_Missense_Mutation_p.G603R	NM_004639	NP_004630	P46379	BAG6_HUMAN	HLA-B associated transcript-3 isoform a	735					apoptosis in response to endoplasmic reticulum stress|brain development|cell differentiation|chromatin modification|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|embryo development|internal peptidyl-lysine acetylation|kidney development|lung development|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|protein stabilization|spermatogenesis|synaptonemal complex assembly|tail-anchored membrane protein insertion into ER membrane|transport|ubiquitin-dependent protein catabolic process	BAT3 complex|nucleus	polyubiquitin binding|proteasome binding|ribosome binding				0						TTGCTGGATCCACTGAGGCGT	0.577													7	105					0	0	1	0	0		T	31609931	T	T	31609931	3	4	49	1	0	0	0	0	1	0	0	0	1323	603	21	4	1239	4	BAT3	6	31609931	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3066237	31609931	139505136	495	37175											
C6orf47	57827	broad.mit.edu	37	chr6	31626870	31626870	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcccgggtctcccctctgCtcctcaccttccctctccaa	3	13	4	21	1	4	0	1	0	3	0	9	0	7	0	7	1	1	1	7	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:31626870C>T	uc003nvm.1	-	1	1680	c.855G>A	c.(853-855)GAG>GAA	p.E285E		NM_021184	NP_067007	O95873	CF047_HUMAN	G4 protein	285										ovary(1)	1						CTCCCCTCTGCTCCTCACCTT	0.617													7	148					0	0	1	0	0		T	31626870	T	T	31626870	2	4	49	1	0	0	0	0	0	0	0	1	2367	796	28	2		2	C6orf47	6	31626870	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	16939	31626870	139488197	496	37176											
SKIV2L	6499	broad.mit.edu	37	chr6	31936512	31936512	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaaggagatggagcggcTgcgcttcctactgtcggatc	9	8	14	10	3	0	2	0	0	0	2	3	5	1	4	1	4	3	2	1	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:31936512T>C	uc003nyn.1	+	25	3508	c.3119T>C	c.(3118-3120)CTG>CCG	p.L1040P	SKIV2L_uc011dou.1_Missense_Mutation_p.L882P|SKIV2L_uc011dov.1_Missense_Mutation_p.L847P|STK19_uc003nyt.2_5'Flank	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	1040						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						ATGGAGCGGCTGCGCTTCCTA	0.612													14	119					0	0	1	0	0		C	31936512	C	C	31936512	3	2	49	1	0	0	0	0	1	0	0	0	14384	1580	55	3	3217	3	SKIV2L	6	31936512	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	309642	31936512	139178555	497	37177											
GPSM3	63940	broad.mit.edu	37	chr6	32159189	32159189	+	Frame_Shift_Del	DEL	C	-	-																															acctttgctcctccattcgaCccccaccctgaactctcagc																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:32159189delC	uc003oay.3	-	4	830	c.437delG	c.(436-438)GGTfs	p.G146fs	PBX2_uc003oav.1_5'Flank|PBX2_uc003oaw.2_5'Flank|GPSM3_uc003oax.3_Frame_Shift_Del_p.G123fs|GPSM3_uc003oaz.2_Frame_Shift_Del_p.G146fs	NM_022107	NP_071390	Q9Y4H4	GPSM3_HUMAN	G-protein signaling modulator 3 (AGS3-like, C.	146	GoLoco 3.				signal transduction	cytoplasm	GTPase activator activity|protein binding				0						CTCCATTCGACCCCCACCCTG	0.652													51	118	---	---	---	---						.	-	32159189	-	-	32159189	7	5	49	1	0	1	0	1	0	0	0	0	6752	507	18	0	49	0	GPSM3	6	32159189	Frame_Shift_Del	DEL	C	TCGA-BR-7707-01A-11D-2053-08	222677	32159189	138955878	498	37178											
NOTCH4	4855	broad.mit.edu	37	chr6	32166763	32166763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggggagctgactgagtcCgaggccgtcgagtgaaacca	9	6	17	9	3	0	3	0	3	0	0	2	6	1	4	3	4	2	1	3	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:32166763C>T	uc003obb.2	-	24	4614	c.4475G>A	c.(4474-4476)CGG>CAG	p.R1492Q	NOTCH4_uc011dpt.1_5'Flank|NOTCH4_uc003oba.2_Missense_Mutation_p.R155Q|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc011dpw.1_5'Flank	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1492	Cytoplasmic (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						TGACTGAGTCCGAGGCCGTCG	0.642													42	92					0	0	1	0	0		T	32166763	T	T	32166763	3	4	49	1	0	0	0	0	1	0	0	0	10570	652	23	1	1564	1	NOTCH4	6	32166763	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	7574	32166763	138948304	499	37179											
BRD2	6046	broad.mit.edu	37	chr6	32942267	32942267	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaagggaatgcagggttgCtggggctgggcccagaagca	9	5	20	7	0	0	1	0	0	0	1	0	3	0	3	1	6	3	5	1	6	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:32942267C>T	uc003ocn.3	+	3	1759	c.58C>T	c.(58-60)CTG>TTG	p.L20L	BRD2_uc003oco.2_RNA|BRD2_uc003ocq.3_Silent_p.L20L|BRD2_uc003ocp.3_5'UTR|BRD2_uc010juh.2_Silent_p.L20L	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	20					spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						TGCAGGGTTGCTGGGGCTGGG	0.527													12	108					0	0	1	0	0		T	32942267	T	T	32942267	2	4	49	1	0	0	0	0	0	0	0	1	1505	796	28	2		2	BRD2	6	32942267	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	775504	32942267	138172800	500	37180											
TAPBP	6892	broad.mit.edu	37	chr6	33272822	33272822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtatggcaggtgtatggtgGccagataggtgccctcctga	7	10	16	8	0	0	2	0	1	0	1	1	2	1	2	3	6	1	3	3	6	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:33272822G>A	uc003odx.1	-	4	983	c.812C>T	c.(811-813)GCC>GTC	p.A271V	TAPBP_uc010jus.1_Missense_Mutation_p.A289V|TAPBP_uc003ody.2_Missense_Mutation_p.A271V|TAPBP_uc003odz.2_Missense_Mutation_p.A271V|TAPBP_uc010jut.1_Missense_Mutation_p.A184V|TAPBP_uc011drc.1_Missense_Mutation_p.A271V	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	271	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1						GTGTATGGTGGCCAGATAGGT	0.577													53	77					0	0	1	0	0		A	33272822	A	A	33272822	3	1	49	1	0	0	0	0	1	0	0	0	15577	1203	42	2	734	2	TAPBP	6	33272822	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	330555	33272822	137842245	501	37181											
ITPR3	3710	broad.mit.edu	37	chr6	33648141	33648141	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaacttcgtgaaccactgCtacgtggacacggaggtgga	10	8	14	9	3	0	2	0	2	0	0	1	5	0	5	1	4	4	1	1	4	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:33648141C>T	uc011drk.1	+	32	4479	c.4260C>T	c.(4258-4260)TGC>TGT	p.C1420C		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1420	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						TGAACCACTGCTACGTGGACA	0.602													6	39					0	0	1	0	0		T	33648141	T	T	33648141	2	4	49	1	0	0	0	0	0	0	0	1	7938	805	28	2		2	ITPR3	6	33648141	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	375319	33648141	137466926	502	37182											
ITPR3	3710	broad.mit.edu	37	chr6	33650343	33650343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctgcagtctaccacaCgcctcctcgagtgtccgtgg	6	9	11	15	3	1	0	0	0	1	0	4	1	3	0	4	1	4	3	4	1	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:33650343C>T	uc011drk.1	+	34	4738	c.4519C>T	c.(4519-4521)CGC>TGC	p.R1507C		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1507	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GTCTACCACACGCCTCCTCGA	0.662													20	62					0	0	1	0	0		T	33650343	T	T	33650343	3	4	49	1	0	0	0	0	1	0	0	0	7938	536	19	1	4653	1	ITPR3	6	33650343	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2202	33650343	137464724	503	37183											
C6orf1	221491	broad.mit.edu	37	chr6	34214513	34214513	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccaggtgacagcaggggAagcagatggcagggccccag	11	2	18	10	0	0	2	0	1	0	1	0	4	0	3	3	5	3	3	3	5	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:34214513A>G	uc003ojf.2	-	5	850	c.258T>C	c.(256-258)CTT>CTC	p.L86L	uc003oje.1_5'Flank|C6orf1_uc003ojg.2_Silent_p.L86L|C6orf1_uc003ojh.2_Silent_p.L86L|C6orf1_uc003oji.2_RNA	NM_178508	NP_848603	Q86T20	CF001_HUMAN	hypothetical protein LOC221491 precursor	86						extracellular region					0		Ovarian(999;0.0228)		BRCA - Breast invasive adenocarcinoma(397;1.11e-10)		ACAGCAGGGGAAGCAGATGGC	0.642											OREG0017364	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	53					0	0	1	0	0		G	34214513	G	G	34214513	2	3	49	1	0	0	0	0	0	0	0	1	2319	233	9	3		3	C6orf1	6	34214513	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	564170	34214513	136900554	504	37184											
DNAH8	1769	broad.mit.edu	37	chr6	38994432	38994432	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccaaggaggagatcacgTcaccccctggggtaggcgtt	10	6	14	11	2	2	2	2	0	0	2	2	4	2	3	3	5	0	2	3	5	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:38994432T>C	uc003ooe.1	+	90	13774	c.13174T>C	c.(13174-13176)TCA>CCA	p.S4392P		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GGAGATCACGTCACCCCCTGG	0.532													3	79					0	0	1	0	0		C	38994432	C	C	38994432	3	2	49	1	0	0	0	0	1	0	0	0	4613	1667	58	3	13524	3	DNAH8	6	38994432	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	4779919	38994432	132120635	505	37185											
KCNK16	83795	broad.mit.edu	37	chr6	39284590	39284590	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaaagccaatggtgctgAgagtgatgaaagcaaagtag	15	6	12	8	0	0	3	0	3	0	1	0	4	0	3	3	1	3	3	3	1	5	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:39284590A>T	uc003ooq.2	-	4	643	c.629T>A	c.(628-630)CTC>CAC	p.L210H	KCNK17_uc003ooo.2_5'Flank|KCNK17_uc003oop.2_5'Flank|KCNK16_uc003oor.3_Missense_Mutation_p.L210H|KCNK16_uc010jwy.2_Missense_Mutation_p.L210H|KCNK16_uc011dtz.1_Missense_Mutation_p.L210H	NM_032115	NP_115491	Q96T55	KCNKG_HUMAN	potassium channel, subfamily K, member 16	210						integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(1)	3						AATGGTGCTGAGAGTGATGAA	0.537													16	233					0	0	1	0	0		T	39284590	T	T	39284590	3	4	49	1	0	0	0	0	1	0	0	0	8079	304	11	5	697	5	KCNK16	6	39284590	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	290158	39284590	131830477	506	37186											
KLHDC3	116138	broad.mit.edu	37	chr6	42985279	42985279	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgcgttggacaaagctGcccccggtgaagtctgccat	7	10	11	13	2	1	1	0	1	1	0	2	2	2	2	4	2	4	2	4	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:42985279G>A	uc003otl.2	+	3	346	c.177G>A	c.(175-177)CTG>CTA	p.L59L	KLHDC3_uc003otm.2_RNA|KLHDC3_uc010jyf.2_Silent_p.L59L|KLHDC3_uc003otn.2_5'UTR|KLHDC3_uc003oto.2_Intron	NM_057161	NP_476502	Q9BQ90	KLDC3_HUMAN	kelch domain containing 3	59	Kelch 1.				reciprocal meiotic recombination	cytoplasm|nuclear chromatin	chromatin binding|protein binding			upper_aerodigestive_tract(1)	1			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GGACAAAGCTGCCCCCGGTGA	0.587													12	65					0	0	1	0	0		A	42985279	A	A	42985279	2	1	49	1	0	0	0	0	0	0	0	1	8373	1306	46	2		2	KLHDC3	6	42985279	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3700689	42985279	128129788	507	37187											
CDC5L	988	broad.mit.edu	37	chr6	44374080	44374081	+	Frame_Shift_Ins	INS	-	A	A																															gaaaaagaaggaagagatagINSaaaaaaagacaaacagcatt																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:44374080_44374081insA	uc003oxl.2	+	7	1038_1039	c.779_780insA	c.(778-780)AGAfs	p.R260fs		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	260	Interaction with PPP1R8.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GGAAGAGATAGAAAAAAAGACA	0.297													20	33	---	---	---	---						.	A	44374081	A	A	44374080	7	5	49	1	0	1	1	0	0	0	0	0	3085	942	33	0	805	0	CDC5L	6	44374080	Frame_Shift_Ins	INS	-	TCGA-BR-7707-01A-11D-2053-08	1388801	44374080	126740987	508	37188											
TDRD6	221400	broad.mit.edu	37	chr6	46658738	46658738	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagaaaagagacttgcaaGaccagtaaaacttcagaagc	18	6	10	7	0	1	4	1	0	0	4	1	5	1	4	1	1	3	3	1	1	7	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:46658738G>T	uc003oyj.2	+	1	2873	c.2873G>T	c.(2872-2874)AGA>ATA	p.R958I	TDRD6_uc010jze.2_Missense_Mutation_p.R952I	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	958					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			AGACTTGCAAGACCAGTAAAA	0.373													7	72					8.12818e-05	8.43872e-05	1	1	0		T	46658738	T	T	46658738	3	4	49	1	0	0	0	0	1	0	0	0	15759	942	33	5	2875	5	TDRD6	6	46658738	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2284658	46658738	124456329	509	37189											
PKHD1	5314	broad.mit.edu	37	chr6	51777171	51777171	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgacactcagtacctcaaagGtgacttaagatagaggtctg	13	10	10	8	0	3	4	2	2	1	2	3	4	3	4	1	2	1	1	1	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:51777171G>T	uc003pah.1	-	38	6601	c.6325C>A	c.(6325-6327)CCT>ACT	p.P2109T	PKHD1_uc010jzn.1_Missense_Mutation_p.P134T|PKHD1_uc003pai.2_Missense_Mutation_p.P2109T	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2109	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TACCTCAAAGGTGACTTAAGA	0.433													5	99					0.000602214	0.000618842	1	1	0		T	51777171	T	T	51777171	3	4	49	1	0	0	0	0	1	0	0	0	11990	1261	44	5	6058	5	PKHD1	6	51777171	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5118433	51777171	119337896	510	37190											
BAI3	577	broad.mit.edu	37	chr6	69653793	69653793	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggtcgaggccaaagaacaAgaacaaggtcatgcacacct	15	5	11	10	1	1	2	1	0	0	2	2	3	1	2	2	3	3	1	2	3	5	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:69653793A>C	uc003pev.3	+	6	1550	c.1102A>C	c.(1102-1104)AGA>CGA	p.R368R	BAI3_uc010kak.2_Silent_p.R368R	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	368	Extracellular (Potential).|TSP type-1 2.				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				CCAAAGAACAAGAACAAGGTC	0.458													12	104					0	0	1	0	0		C	69653793	C	C	69653793	2	2	49	1	0	0	0	0	0	0	0	1	1301	64	3	5		5	BAI3	6	69653793	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	17876622	69653793	101461274	511	37191											
HTR1B	3351	broad.mit.edu	37	chr6	78172393	78172393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgccggtcctgttgggcGtctgtttcaaaatccgggag	5	12	14	10	3	2	0	1	0	1	0	4	1	4	1	3	3	1	3	3	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:78172393G>A	uc003pil.1	-	1	728	c.728C>T	c.(727-729)ACG>ATG	p.T243M		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	243	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	CCTGTTGGGCGTCTGTTTCAA	0.612													18	45					0	0	1	0	0		A	78172393	A	A	78172393	3	1	49	1	0	0	0	0	1	0	0	0	7453	1145	40	1	448	1	HTR1B	6	78172393	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8518600	78172393	92942674	512	37192											
KIAA1009	22832	broad.mit.edu	37	chr6	84913717	84913717	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctgtttgggcacacttatTttttctgatttggaattctc	7	19	7	8	0	2	1	0	1	2	0	3	2	2	2	1	2	0	2	1	2	2	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:84913717T>C	uc010kbp.2	-	7	766	c.669A>G	c.(667-669)AAA>AAG	p.K223K	KIAA1009_uc003pkj.3_Silent_p.K147K|KIAA1009_uc003pkk.2_Silent_p.K223K	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	223					cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		GCACACTTATTTTTTCTGATT	0.343													7	50					0	0	1	0	0		C	84913717	C	C	84913717	2	2	49	1	0	0	0	0	0	0	0	1	8219	1838	64	3		3	KIAA1009	6	84913717	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	6741324	84913717	86201350	513	37193											
TBX18	9096	broad.mit.edu	37	chr6	85453993	85453993	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacctgttgcgcccggaGtctcggaagcctttagcaaa	8	8	11	14	3	1	0	0	0	1	0	2	2	1	2	4	2	3	2	4	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:85453993G>C	uc003pkl.1	-	6	990	c.990C>G	c.(988-990)GAC>GAG	p.D330E	TBX18_uc010kbq.1_Missense_Mutation_p.D172E	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	330	T-box.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TGCGCCCGGAGTCTCGGAAGC	0.348													7	48					0	0	1	0	0		C	85453993	C	C	85453993	3	2	49	1	0	0	0	0	1	0	0	0	15678	1020	36	5	845	5	TBX18	6	85453993	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	540276	85453993	85661074	514	37194											
MDN1	23195	broad.mit.edu	37	chr6	90360519	90360519	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataaccgttgtgaaagaggCgctgttaagatcaggtaact	13	10	11	7	2	1	3	1	1	0	2	1	3	1	3	1	2	2	4	1	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:90360519C>T	uc003pnn.1	-	96	16079	c.15963G>A	c.(15961-15963)GCG>GCA	p.A5321A		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5321					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GTGAAAGAGGCGCTGTTAAGA	0.483													18	55					0	0	1	0	0		T	90360519	T	T	90360519	2	4	49	1	0	0	0	0	0	0	0	1	9433	755	27	1		1	MDN1	6	90360519	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4906526	90360519	80754548	515	37195											
MDN1	23195	broad.mit.edu	37	chr6	90402711	90402711	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgcagaagccgtgtgagCagatcctgaacagcaggggc	10	5	15	11	1	0	4	0	2	0	2	1	4	1	4	3	2	5	3	3	2	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:90402711C>T	uc003pnn.1	-	63	10154	c.10038G>A	c.(10036-10038)CTG>CTA	p.L3346L		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	3346					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GCCGTGTGAGCAGATCCTGAA	0.602													7	27					0	0	1	0	0		T	90402711	T	T	90402711	2	4	49	1	0	0	0	0	0	0	0	1	9433	697	25	2		2	MDN1	6	90402711	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	42192	90402711	80712356	516	37196											
C6orf167	253714	broad.mit.edu	37	chr6	97720928	97720928	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctttgcagtgtagagtTgataccttccctgaaaccaa	10	13	8	10	0	1	3	0	2	1	1	2	3	2	3	3	0	4	4	3	0	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:97720928T>C	uc003ppb.2	-	5	617	c.351A>G	c.(349-351)TCA>TCG	p.S117S	C6orf167_uc011eaf.1_Silent_p.S117S|C6orf167_uc010kcn.1_5'UTR|C6orf167_uc010kco.1_5'UTR|C6orf167_uc003ppc.2_Silent_p.S117S	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	117					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		AGTGTAGAGTTGATACCTTCC	0.284													9	160					0	0	1	0	0		C	97720928	C	C	97720928	2	2	49	1	0	0	0	0	0	0	0	1	2345	1799	63	3		3	C6orf167	6	97720928	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	7318217	97720928	73394139	517	37197											
SIM1	6492	broad.mit.edu	37	chr6	100897247	100897247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctacgcaccttgtagcCgccacaggtgaggccggcgt	7	6	13	15	4	0	1	0	1	0	0	0	1	0	1	5	3	3	3	5	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:100897247C>T	uc003pqj.3	-	5	742	c.535G>A	c.(535-537)GGC>AGC	p.G179S	SIM1_uc010kcu.2_Missense_Mutation_p.G179S	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	179					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		ACCTTGTAGCCGCCACAGGTG	0.617													9	27					0	0	1	0	0		T	100897247	T	T	100897247	3	4	49	1	0	0	0	0	1	0	0	0	14348	652	23	1	1793	1	SIM1	6	100897247	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3176319	100897247	70217820	518	37198											
OSTM1	28962	broad.mit.edu	37	chr6	108366005	108366005	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctcagtttgaattttccTgaatatttgcaaaactggta	11	16	8	6	0	1	2	1	2	1	0	3	2	2	2	1	2	2	3	1	2	6	6	rs142270062		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:108366005T>C	uc003psd.2	-	6	1075	c.989A>G	c.(988-990)CAG>CGG	p.Q330R	OSTM1_uc003pse.1_5'Flank	NM_014028	NP_054747	Q86WC4	OSTM1_HUMAN	osteopetrosis associated transmembrane protein 1	330	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(1)	1		all_cancers(87;3.82e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000195)|Colorectal(196;0.0293)|all_lung(197;0.0938)		BRCA - Breast invasive adenocarcinoma(108;0.0131)|Epithelial(106;0.0438)|OV - Ovarian serous cystadenocarcinoma(136;0.0571)|all cancers(137;0.0581)		TGAATTTTCCTGAATATTTGC	0.299													7	51					0	0	1	0	0		C	108366005	C	C	108366005	3	2	49	1	0	0	0	0	1	0	0	0	11317	1580	55	3	19	3	OSTM1	6	108366005	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	7468758	108366005	62749062	519	37199											
CDC40	51362	broad.mit.edu	37	chr6	110501676	110501676	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgattgcagctctggccgCttcctatggttcgggttcag	4	13	13	11	3	2	0	1	0	1	0	4	1	3	0	2	3	3	5	2	3	1	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:110501676C>T	uc003pua.2	+	1	53	c.29C>T	c.(28-30)GCT>GTT	p.A10V	WASF1_uc003ptv.1_5'Flank|WASF1_uc003ptw.1_5'Flank|WASF1_uc003ptx.1_5'Flank|WASF1_uc003pty.1_5'Flank|WASF1_uc003ptz.1_5'Flank	NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	10					mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		GCTCTGGCCGCTTCCTATGGT	0.597													7	55					0	0	1	0	0		T	110501676	T	T	110501676	3	4	49	1	0	0	0	0	1	0	0	0	3073	797	28	2	31	2	CDC40	6	110501676	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2135671	110501676	60613391	520	37200											
HS3ST5	222537	broad.mit.edu	37	chr6	114379310	114379310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgggaattcagcctgagtgCgggctccacccagtcgacct	7	8	13	13	2	1	1	1	1	0	0	3	3	2	2	4	2	2	1	4	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:114379310C>T	uc003pwg.3	-	2	184	c.152G>A	c.(151-153)CGC>CAC	p.R51H	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.R51H	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	51	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		AGCCTGAGTGCGGGCTCCACC	0.537													6	32					0	0	1	0	0		T	114379310	T	T	114379310	3	4	49	1	0	0	0	0	1	0	0	0	7384	768	27	1	892	1	HS3ST5	6	114379310	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3877634	114379310	56735757	521	37201											
GPRC6A	222545	broad.mit.edu	37	chr6	117113344	117113344	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcgaggcaaagttttagaTacacttgtggcattttccct	9	16	8	8	1	0	1	0	0	0	1	2	2	1	1	1	2	1	3	1	2	3	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:117113344T>C	uc003pxj.1	-	6	2764	c.2742A>G	c.(2740-2742)GTA>GTG	p.V914V	GPRC6A_uc003pxk.1_Silent_p.V739V|GPRC6A_uc003pxl.1_Silent_p.V843V	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	914	Cytoplasmic (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		AAGTTTTAGATACACTTGTGG	0.418													23	170					0	0	1	0	0		C	117113344	C	C	117113344	2	2	49	1	0	0	0	0	0	0	0	1	6744	1393	49	3		3	GPRC6A	6	117113344	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2734034	117113344	54001723	522	37202											
C6orf174	387104	broad.mit.edu	37	chr6	127796642	127796642	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgttggccacgtagatgcgCgcctcggtgatgatggtgct	5	10	15	11	5	0	3	0	2	0	1	1	3	0	3	3	3	2	3	3	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:127796642C>T	uc003qbd.2	-	6	3394	c.2529G>A	c.(2527-2529)GCG>GCA	p.A843A	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	843						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CGTAGATGCGCGCCTCGGTGA	0.657													37	93					0	0	1	0	0		T	127796642	T	T	127796642	2	4	49	1	0	0	0	0	0	0	0	1	2348	755	27	1		1	C6orf174	6	127796642	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	10683298	127796642	43318425	523	37203											
C6orf58	352999	broad.mit.edu	37	chr6	127899903	127899903	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatatgtgcatctctgtggAcagttggtgggctggtatgt	6	15	14	6	0	2	0	1	0	1	0	3	1	2	1	0	4	1	4	0	4	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:127899903A>G	uc003qbh.2	+	2	386	c.374A>G	c.(373-375)GAC>GGC	p.D125G		NM_001010905	NP_001010905	Q6P5S2	CF058_HUMAN	hypothetical protein LOC352999 precursor	125						extracellular region					0				GBM - Glioblastoma multiforme(226;0.0405)|all cancers(137;0.156)		ATCTCTGTGGACAGTTGGTGG	0.438													10	214					0	0	1	0	0		G	127899903	G	G	127899903	3	3	49	1	0	0	0	0	1	0	0	0	2370	275	10	3	380	3	C6orf58	6	127899903	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	103261	127899903	43215164	524	37204											
ENPP3	5169	broad.mit.edu	37	chr6	132014640	132014640	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttacttgcttttcagtgcCgaaaacctgatcagcatttc	10	15	6	10	1	2	1	2	1	0	0	3	2	2	1	2	0	5	2	2	0	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:132014640C>T	uc003qcu.3	+	16	1635	c.1288C>T	c.(1288-1290)CGA>TGA	p.R430*	ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Nonsense_Mutation_p.R430*	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	430	Extracellular (Potential).|Phosphodiesterase.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		TTTTCAGTGCCGAAAACCTGA	0.338													7	82					0	0	1	0	0		T	132014640	T	T	132014640	4	4	49	1	0	0	0	0	0	1	0	0	5139	644	23	1	1346	1	ENPP3	6	132014640	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4114737	132014640	39100427	525	37205											
MOXD1	26002	broad.mit.edu	37	chr6	132722507	132722507	+	Frame_Shift_Del	DEL	C	-	-																															gcggataggttcggcccgagCcccccgccgccgtcccgggg																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:132722507delC	uc003qdf.2	-	1	158	c.59delG	c.(58-60)GGCfs	p.G20fs		NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	20	Lumenal (Potential).				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		TCGGCCCGAGCCCCCCGCCGC	0.746													4	2	---	---	---	---						.	-	132722507	-	-	132722507	7	5	49	1	0	1	0	1	0	0	0	0	9738	739	26	0	1830	0	MOXD1	6	132722507	Frame_Shift_Del	DEL	C	TCGA-BR-7707-01A-11D-2053-08	707867	132722507	38392560	526	37206											
SLC2A12	154091	broad.mit.edu	37	chr6	134350539	134350539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaagagagggagatggagaCccctatggcaatgcgtccca	12	5	15	9	1	0	3	0	0	0	3	1	7	1	4	3	4	1	1	3	4	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:134350539C>T	uc003qem.1	-	2	595	c.424G>A	c.(424-426)GTC>ATC	p.V142I		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	142	Helical; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		GAGATGGAGACCCCTATGGCA	0.478													8	78					0	0	1	0	0		T	134350539	T	T	134350539	3	4	49	1	0	0	0	0	1	0	0	0	14566	507	18	4	1445	4	SLC2A12	6	134350539	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1628032	134350539	36764528	527	37207											
MYB	4602	broad.mit.edu	37	chr6	135515019	135515019	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagcgttacatgtaaataTagtcaatgtccctcagccag	12	12	8	9	1	2	0	2	0	0	0	3	0	3	0	2	0	3	3	2	0	7	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:135515019T>C	uc003qfc.2	+	7	1005	c.806T>C	c.(805-807)ATA>ACA	p.I269T	MYB_uc003qfh.2_Missense_Mutation_p.I269T|MYB_uc003qfi.2_Missense_Mutation_p.I269T|MYB_uc010kgi.2_Missense_Mutation_p.I269T|MYB_uc003qfq.2_Missense_Mutation_p.I269T|MYB_uc010kgj.2_Missense_Mutation_p.I269T|MYB_uc003qfo.2_Missense_Mutation_p.I269T|MYB_uc003qfu.2_Missense_Mutation_p.I269T|MYB_uc003qfl.2_RNA|MYB_uc003qfv.2_RNA|MYB_uc003qfz.2_RNA|MYB_uc003qfx.2_RNA|MYB_uc003qga.2_RNA|MYB_uc003qgb.2_RNA|MYB_uc010kgk.2_RNA|MYB_uc003qfd.2_RNA|MYB_uc003qfe.2_RNA|MYB_uc003qfg.2_RNA|MYB_uc003qff.2_RNA|MYB_uc003qfj.2_RNA|MYB_uc003qfm.2_RNA|MYB_uc003qfp.2_RNA|MYB_uc003qfn.2_RNA|MYB_uc003qfk.2_RNA|MYB_uc003qfr.2_RNA|MYB_uc003qfs.2_5'UTR|MYB_uc003qft.2_RNA|MYB_uc003qfw.2_Missense_Mutation_p.I81T|MYB_uc003qfy.2_RNA|MYB_uc003qgc.2_RNA|MYB_uc003qfb.1_Missense_Mutation_p.I269T|MYB_uc003qgd.1_Missense_Mutation_p.I81T|MYB_uc003qge.1_5'Flank	NM_005375	NP_005366	P10242	MYB_HUMAN	v-myb myeloblastosis viral oncogene homolog	269					blood coagulation|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone H3-K4 methylation|positive regulation of histone H3-K9 methylation|positive regulation of T-helper cell differentiation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear matrix	DNA binding|protein binding			lung(1)	1	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)		CATGTAAATATAGTCAATGTC	0.428			T	NFIB	adenoid cystic carcinoma								30	88					0	0	1	0	0		C	135515019	C	C	135515019	3	2	49	1	0	0	0	0	1	0	0	0	10025	1406	49	3	832	3	MYB	6	135515019	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1164480	135515019	35600048	528	37208											
MAP3K5	4217	broad.mit.edu	37	chr6	136901470	136901470	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtaatggctgtctgtacCgccttccgaatgatactgtc	8	13	10	10	2	1	1	0	1	1	0	3	2	2	1	3	2	2	3	3	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:136901470C>T	uc003qhc.2	-	25	3847	c.3486G>A	c.(3484-3486)GCG>GCA	p.A1162A	MAP3K5_uc011edj.1_Silent_p.A409A|MAP3K5_uc011edk.1_Silent_p.A1008A	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	1162					activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		CTGTCTGTACCGCCTTCCGAA	0.403													5	83					0	0	1	0	0		T	136901470	T	T	136901470	2	4	49	1	0	0	0	0	0	0	0	1	9271	639	23	1		1	MAP3K5	6	136901470	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1386451	136901470	34213597	529	37209											
IL20RA	53832	broad.mit.edu	37	chr6	137325789	137325789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtttctctttgccaacgTggatatatcggtagatggaa	9	14	12	6	2	1	1	0	0	1	1	3	3	1	3	1	4	2	2	1	4	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:137325789T>C	uc003qhj.2	-	6	1266	c.833A>G	c.(832-834)CAC>CGC	p.H278R	IL20RA_uc011edl.1_Missense_Mutation_p.H229R|IL20RA_uc003qhk.2_Missense_Mutation_p.H167R|IL20RA_uc003qhi.2_Missense_Mutation_p.H10R	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	278	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)		TTTGCCAACGTGGATATATCG	0.423													4	126					0	0	1	0	0		C	137325789	C	C	137325789	3	2	49	1	0	0	0	0	1	0	0	0	7684	1696	59	3	836	3	IL20RA	6	137325789	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	424319	137325789	33789278	530	37210											
NMBR	4829	broad.mit.edu	37	chr6	142409703	142409703	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggtcccgtccgaggcCggcaggaaatccctttccca	6	8	13	14	3	0	0	0	0	0	0	4	2	4	1	5	5	0	1	5	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:142409703C>T	uc003qiu.2	-	1	234	c.93G>A	c.(91-93)CCG>CCA	p.P31P		NM_002511	NP_002502	P28336	NMBR_HUMAN	neuromedin B receptor	31	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			central_nervous_system(3)|breast(1)	4	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		CGTCCGAGGCCGGCAGGAAAT	0.607													13	25					0	0	1	0	0		T	142409703	T	T	142409703	2	4	49	1	0	0	0	0	0	0	0	1	10506	639	23	1		1	NMBR	6	142409703	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5083914	142409703	28705364	531	37211											
GPR126	57211	broad.mit.edu	37	chr6	142688974	142688974	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctatcatttaactcaagtgcGaatgagatgcatgtgtcctt	11	14	8	8	1	2	1	2	1	0	1	3	3	3	1	1	0	3	1	1	0	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:142688974G>A	uc010khc.2	+	3	783	c.372G>A	c.(370-372)GCG>GCA	p.A124A	GPR126_uc010khd.2_Silent_p.A124A|GPR126_uc010khe.2_Silent_p.A124A|GPR126_uc010khf.2_Silent_p.A124A|GPR126_uc003qix.2_Silent_p.A124A	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	124	CUB.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		ACTCAAGTGCGAATGAGATGC	0.423													4	59					0	0	1	0	0		A	142688974	A	A	142688974	2	1	49	1	0	0	0	0	0	0	0	1	6655	1045	37	1		1	GPR126	6	142688974	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	279271	142688974	28426093	532	37212											
HIVEP2	3097	broad.mit.edu	37	chr6	143091478	143091478	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctcctccacaatctgtccGtacatcttttcttctttgac	7	16	4	14	1	4	1	0	1	4	0	7	1	7	1	3	0	2	2	3	0	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:143091478G>A	uc003qjd.2	-	5	5141	c.4398C>T	c.(4396-4398)TAC>TAT	p.Y1466Y		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1466					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CAATCTGTCCGTACATCTTTT	0.522													28	50					0	0	1	0	0		A	143091478	A	A	143091478	2	1	49	1	0	0	0	0	0	0	0	1	7203	1140	40	1		1	HIVEP2	6	143091478	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	402504	143091478	28023589	533	37213											
ADAT2	134637	broad.mit.edu	37	chr6	143755071	143755071	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcttgccactttgacgacaCcaatcgaggacctgatcgat	10	10	8	13	3	1	2	0	2	1	0	3	6	1	3	3	1	1	0	3	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:143755071C>G	uc003qjj.2	-	3	295	c.249G>C	c.(247-249)TGG>TGC	p.W83C	ADAT2_uc003qjk.1_RNA	NM_182503	NP_872309	Q7Z6V5	ADAT2_HUMAN	deaminase domain containing 1	83					tRNA processing		hydrolase activity|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(155;5.61e-06)|GBM - Glioblastoma multiforme(68;0.0115)		TTTGACGACACCAATCGAGGA	0.493													9	138					0	0	1	0	0		G	143755071	G	G	143755071	3	3	49	1	0	0	0	0	1	0	0	0	285	508	18	5	342	5	ADAT2	6	143755071	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	663593	143755071	27359996	534	37214											
SHPRH	257218	broad.mit.edu	37	chr6	146262928	146262928	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatttaattctgaacgcagtAcatcataggtaatgataact	16	13	6	6	1	2	2	1	2	1	0	2	2	2	2	0	1	3	3	0	1	7	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:146262928A>G	uc003qlf.2	-	10	2720	c.2321T>C	c.(2320-2322)GTA>GCA	p.V774A	SHPRH_uc003qld.2_Missense_Mutation_p.V774A|SHPRH_uc003qle.2_Missense_Mutation_p.V774A|SHPRH_uc003qlg.1_Missense_Mutation_p.V330A|SHPRH_uc003qlj.1_Missense_Mutation_p.V663A	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	774	Helicase ATP-binding; second part.				DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		TGAACGCAGTACATCATAGGT	0.413													5	70					0	0	1	0	0		G	146262928	G	G	146262928	3	3	49	1	0	0	0	0	1	0	0	0	14316	391	14	3	2858	3	SHPRH	6	146262928	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2507857	146262928	24852139	535	37215											
GRM1	2911	broad.mit.edu	37	chr6	146755562	146755562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacccgcccccgccacctcCgcagcacctgcagatgctgc	6	5	9	21	3	0	1	0	0	0	1	1	1	1	1	7	0	5	5	7	0	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:146755562C>T	uc010khw.1	+	9	3685	c.3215C>T	c.(3214-3216)CCG>CTG	p.P1072L	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	1072	Gln/Pro-rich.|Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CCGCCACCTCCGCAGCACCTG	0.682													12	25					0	0	1	0	0		T	146755562	T	T	146755562	3	4	49	1	0	0	0	0	1	0	0	0	6812	652	23	1	3310	1	GRM1	6	146755562	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	492634	146755562	24359505	536	37216											
UST	10090	broad.mit.edu	37	chr6	149285605	149285605	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaccccgtcaaccggttctTatccaactattttttccgtc	8	14	5	14	3	2	1	1	0	1	1	5	1	4	1	5	1	2	1	5	1	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:149285605T>C	uc003qmg.2	+	5	883	c.587T>C	c.(586-588)TTA>TCA	p.L196S	uc003qmh.1_Intron	NM_005715	NP_005706	Q9Y2C2	UST_HUMAN	uronyl-2-sulfotransferase	196	Lumenal (Potential).				protein sulfation	Golgi membrane|integral to membrane	sulfotransferase activity			ovary(2)	2		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.78e-10)|GBM - Glioblastoma multiforme(68;0.138)		AACCGGTTCTTATCCAACTAT	0.498													5	49					0	0	1	0	0		C	149285605	C	C	149285605	3	2	49	1	0	0	0	0	1	0	0	0	17119	1764	61	3	605	3	UST	6	149285605	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2530043	149285605	21829462	537	37217											
C6orf97	80129	broad.mit.edu	37	chr6	151857473	151857473	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaacttacgatcatctttcGgaagtcccggtcacgcggga	10	9	11	11	5	3	0	2	0	1	0	5	4	4	2	1	3	2	0	1	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:151857473G>A	uc003qol.2	+	2	167	c.78G>A	c.(76-78)TCG>TCA	p.S26S		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	26											0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		ATCATCTTTCGGAAGTCCCGG	0.433													23	69					0	0	1	0	0		A	151857473	A	A	151857473	2	1	49	1	0	0	0	0	0	0	0	1	2377	1103	39	1		1	C6orf97	6	151857473	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2571868	151857473	19257594	538	37218											
SYNE1	23345	broad.mit.edu	37	chr6	152583314	152583314	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcctgggataacacatcAggtttttcgctattagaaga	13	12	8	8	1	1	2	1	0	0	2	3	3	2	3	1	2	2	2	1	2	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:152583314A>G	uc010kiw.2	-	101	19427	c.18825T>C	c.(18823-18825)CCT>CCC	p.P6275P	SYNE1_uc010kiv.2_Silent_p.P799P|SYNE1_uc003qos.3_Silent_p.P799P|SYNE1_uc003qot.3_Silent_p.P6204P|SYNE1_uc003qou.3_Silent_p.P6275P	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6275	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		ATAACACATCAGGTTTTTCGC	0.393										HNSCC(10;0.0054)			5	51					0	0	1	0	0		G	152583314	G	G	152583314	2	3	49	1	0	0	0	0	0	0	0	1	15470	175	7	3		3	SYNE1	6	152583314	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	725841	152583314	18531753	539	37219											
TFB1M	51106	broad.mit.edu	37	chr6	155579107	155579107	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtatacatcacagaggcTcttaaagtgtgagatggaga	13	11	11	6	0	3	3	1	1	2	3	3	5	3	3	0	2	1	2	0	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:155579107T>G	uc003qqj.3	-	7	968	c.904A>C	c.(904-906)AGC>CGC	p.S302R	TFB1M_uc003qqk.2_Intron|uc003qqi.1_5'Flank	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	302					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		TCACAGAGGCTCTTAAAGTGT	0.468													10	130					0	0	1	0	0		G	155579107	G	G	155579107	3	3	49	1	0	0	0	0	1	0	0	0	15818	1551	54	5	140	5	TFB1M	6	155579107	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2995793	155579107	15535960	540	37220											
SLC22A2	6582	broad.mit.edu	37	chr6	160670319	160670319	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctccagtgaggaagtgcGtaagccaccccagctagcac	11	5	10	15	1	0	1	0	1	0	0	1	2	1	2	5	1	4	3	5	1	3	2	rs147817271	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:160670319G>A	uc003qtf.2	-	4	941	c.771C>T	c.(769-771)TAC>TAT	p.Y257Y	SLC22A2_uc003qte.1_Silent_p.Y257Y|SLC22A2_uc003qth.1_3'UTR	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	257	Helical; (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		GAGGAAGTGCGTAAGCCACCC	0.458													13	122					0	0	1	0	0		A	160670319	A	A	160670319	2	1	49	1	0	0	0	0	0	0	0	1	14475	1140	40	1		1	SLC22A2	6	160670319	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5091212	160670319	10444748	541	37221											
LPA	4018	broad.mit.edu	37	chr6	161006078	161006078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctaacatgatagacatacGcatttggatagtataatggg	14	11	11	5	1	0	2	0	1	0	1	0	3	0	3	0	3	2	3	0	3	6	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:161006078G>A	uc003qtl.2	-	27	4409	c.4289C>T	c.(4288-4290)GCT>GTT	p.A1430V		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3938	Kringle 35.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	ATAGACATACGCATTTGGATA	0.433													57	172					0	0	1	0	0		A	161006078	A	A	161006078	3	1	49	1	0	0	0	0	1	0	0	0	8921	1101	38	1	1889	1	LPA	6	161006078	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	335759	161006078	10108989	542	37222											
PDE10A	10846	broad.mit.edu	37	chr6	165846524	165846524	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacagctcgagaataccaaTcaagtcaccaattgcagtga	16	8	7	10	1	2	2	2	1	0	1	3	3	2	2	2	0	4	2	2	0	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:165846524T>A	uc003qun.2	-	8	842	c.601A>T	c.(601-603)ATT>TTT	p.I201F	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.I131F|PDE10A_uc003quo.2_Missense_Mutation_p.I211F	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	201	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	AGAATACCAATCAAGTCACCA	0.438													5	67					0	0	1	0	0		A	165846524	A	A	165846524	3	1	49	1	0	0	0	0	1	0	0	0	11649	1435	50	5	1802	5	PDE10A	6	165846524	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	4840446	165846524	5268543	543	37223											
THBS2	7058	broad.mit.edu	37	chr6	169637338	169637338	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgccccccatctggggCactggggagttgcagagacg	6	9	14	12	1	2	1	0	0	2	1	2	3	2	2	3	4	2	3	3	4	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr6:169637338C>T	uc003qwt.2	-	10	1652	c.1404G>A	c.(1402-1404)GTG>GTA	p.V468V		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	468	TSP type-1 2.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CCATCTGGGGCACTGGGGAGT	0.627													9	21					0	0	1	0	0		T	169637338	T	T	169637338	2	4	49	1	0	0	0	0	0	0	0	1	15879	697	25	2		2	THBS2	6	169637338	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3790814	169637338	1477729	544	37224											
PDGFA	5154	broad.mit.edu	37	chr7	550457	550457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggctcaccttgacgctgcGgtggtggacgcgggagggct	5	7	19	10	4	1	1	1	1	0	0	1	3	1	3	1	6	1	3	1	6	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:550457G>A	uc003sir.2	-	4	1285	c.442C>T	c.(442-444)CGC>TGC	p.R148C	PDGFA_uc003sis.2_Missense_Mutation_p.R148C|PDGFA_uc003sit.1_Missense_Mutation_p.R162C	NM_002607	NP_002598	P04085	PDGFA_HUMAN	platelet-derived growth factor alpha isoform 1	148					actin cytoskeleton organization|angiogenesis|cell projection assembly|embryo development|hair follicle development|lung alveolus development|negative chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|organ morphogenesis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of DNA replication|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of MAP kinase activity|positive regulation of mesenchymal cell proliferation|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein kinase B signaling cascade|regulation of actin cytoskeleton organization|regulation of branching involved in salivary gland morphogenesis by epithelial-mesenchymal signaling|regulation of peptidyl-tyrosine phosphorylation|regulation of smooth muscle cell migration|skin development	cell surface|endoplasmic reticulum lumen|extracellular space|Golgi membrane|microvillus|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity				0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|Epithelial(4;1.1e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.7e-17)|all cancers(6;4.89e-15)		TTGACGCTGCGGTGGTGGACG	0.383													4	10					0	0	1	0	0		A	550457	A	A	550457	3	1	49	1	0	0	0	0	1	0	0	0	11676	1116	39	1	220	1	PDGFA	7	550457	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08		550457	158588206	545	37225											
HEATR2	54919	broad.mit.edu	37	chr7	819634	819634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtccaacgatgtgaggatgGcagccgcctccaccttggtc	7	9	12	13	2	0	1	0	1	0	0	3	3	2	2	5	3	2	1	5	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:819634G>A	uc010krz.1	+	12	2304	c.2284G>A	c.(2284-2286)GCA>ACA	p.A762T	HEATR2_uc003siz.2_Missense_Mutation_p.A630T|HEATR2_uc003sjb.2_Missense_Mutation_p.A142T|HEATR2_uc003sjc.2_Missense_Mutation_p.A187T	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	762	HEAT 9.						protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		TGTGAGGATGGCAGCCGCCTC	0.527													9	18					0	0	1	0	0		A	819634	A	A	819634	3	1	49	1	0	0	0	0	1	0	0	0	7044	1203	42	2	2330	2	HEATR2	7	819634	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	269177	819634	158319029	546	37226											
PSMG3	84262	broad.mit.edu	37	chr7	1607366	1607366	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacacccggatcacctcccTcagcgccttcagcccctcca	7	6	6	22	2	3	0	3	0	0	0	5	1	5	1	7	1	2	1	7	1	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:1607366T>C	uc003skx.2	-	2	991	c.337A>G	c.(337-339)AGG>GGG	p.R113G	PSMG3_uc011jvx.1_Missense_Mutation_p.R113G|KIAA1908_uc003sla.2_5'Flank|KIAA1908_uc003sky.1_5'Flank|KIAA1908_uc003skz.1_5'Flank	NM_032302	NP_115678	Q9BT73	PSMG3_HUMAN	proteasome assembling chaperone 3	113											0		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;5.63e-15)		ATCACCTCCCTCAGCGCCTTC	0.612													8	61					0	0	1	0	0		C	1607366	C	C	1607366	3	2	49	1	0	0	0	0	1	0	0	0	12735	1550	54	3	35	3	PSMG3	7	1607366	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	787732	1607366	157531297	547	37227											
SNX8	29886	broad.mit.edu	37	chr7	2309235	2309235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagttcaggaattcgtcccCgacgcactgtgctgactcct	8	10	9	14	3	1	1	1	1	0	0	4	3	3	2	3	1	1	3	3	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:2309235C>T	uc003slw.2	-	5	623	c.580G>A	c.(580-582)GGG>AGG	p.G194R		NM_013321	NP_037453	Q9Y5X2	SNX8_HUMAN	sorting nexin 8	194					cell communication|early endosome to Golgi transport|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0853)|OV - Ovarian serous cystadenocarcinoma(56;3.79e-14)		AATTCGTCCCCGACGCACTGT	0.368													14	40					0	0	1	0	0		T	2309235	T	T	2309235	3	4	49	1	0	0	0	0	1	0	0	0	14933	652	23	1	845	1	SNX8	7	2309235	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	701869	2309235	156829428	548	37228											
AMZ1	155185	broad.mit.edu	37	chr7	2752320	2752320	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtggacagagccgtggaCgccctcgaccgctgggagat	8	5	16	12	4	0	2	0	0	0	2	1	6	0	4	3	4	1	1	3	4	0	0	rs144828698		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:2752320C>T	uc003smr.1	+	7	1666	c.1305C>T	c.(1303-1305)GAC>GAT	p.D435D	AMZ1_uc003sms.1_3'UTR|AMZ1_uc011jwa.1_Silent_p.D184D	NM_133463	NP_597720	Q400G9	AMZ1_HUMAN	archaelysin family metallopeptidase 1	435							metallopeptidase activity|zinc ion binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;5.03e-14)		GAGCCGTGGACGCCCTCGACC	0.687													11	29					0	0	1	0	0		T	2752320	T	T	2752320	2	4	49	1	0	0	0	0	0	0	0	1	596	535	19	1		1	AMZ1	7	2752320	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	443085	2752320	156386343	549	37229											
CARD11	84433	broad.mit.edu	37	chr7	2976789	2976789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttcttctcctccagctcgCggatctgcttcctgtacttg	3	15	8	15	3	3	0	0	0	3	0	7	1	5	1	3	1	3	4	3	1	1	5	rs79513324	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:2976789C>T	uc003smv.2	-	9	1627	c.1223G>A	c.(1222-1224)CGC>CAC	p.R408H		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	408	Potential.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		CTCCAGCTCGCGGATCTGCTT	0.592			Mis		DLBCL								19	62					0	0	1	0	0		T	2976789	T	T	2976789	3	4	49	1	0	0	0	0	1	0	0	0	2648	768	27	1	2309	1	CARD11	7	2976789	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	224469	2976789	156161874	550	37230											
ACTB	60	broad.mit.edu	37	chr7	5568128	5568128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggtgaagctgtagccgcGctcggtgaggatcttcatga	7	10	16	8	3	2	3	1	3	1	0	3	4	2	4	1	4	2	3	1	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:5568128G>A	uc003sos.3	-	3	622	c.586C>T	c.(586-588)CGC>TGC	p.R196C	ACTB_uc003sor.3_Missense_Mutation_p.R74C|ACTB_uc003sot.3_Missense_Mutation_p.R196C|ACTB_uc003soq.3_Missense_Mutation_p.R74C|ACTB_uc010ksy.2_Missense_Mutation_p.R74C	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	196					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		CTGTAGCCGCGCTCGGTGAGG	0.612													29	75					0	0	1	0	0		A	5568128	A	A	5568128	3	1	49	1	0	0	0	0	1	0	0	0	193	1087	38	1	553	1	ACTB	7	5568128	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2591339	5568128	153570535	551	37231											
EIF2AK1	27102	broad.mit.edu	37	chr7	6066563	6066563	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacggctgaaagagctctagCaggaccacacccaagctgta	14	5	10	12	1	1	2	0	1	1	1	1	3	1	3	2	2	4	5	2	2	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:6066563C>T	uc003spp.2	-	14	1706	c.1560G>A	c.(1558-1560)CTG>CTA	p.L520L	EIF2AK1_uc003spq.2_Silent_p.L519L|EIF2AK1_uc011jwm.1_Silent_p.L396L	NM_014413	NP_055228	Q9BQI3	E2AK1_HUMAN	eukaryotic translation initiation factor 2-alpha	520	Protein kinase.				negative regulation of hemoglobin biosynthetic process|negative regulation of translational initiation by iron|protein autophosphorylation|response to external stimulus|response to stress	cytoplasm	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|heme binding|protein homodimerization activity			upper_aerodigestive_tract(1)|stomach(1)|lung(1)|central_nervous_system(1)	4		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.106)|OV - Ovarian serous cystadenocarcinoma(56;5.22e-14)		AGAGCTCTAGCAGGACCACAC	0.443													20	70					0	0	1	0	0		T	6066563	T	T	6066563	2	4	49	1	0	0	0	0	0	0	0	1	5002	697	25	2		2	EIF2AK1	7	6066563	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	498435	6066563	153072100	552	37232											
C7orf26	79034	broad.mit.edu	37	chr7	6647637	6647637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgcagcagtcgcctcacGccgcgctccccccggggttc	3	6	12	20	6	1	0	1	0	0	0	4	0	2	0	6	2	2	4	6	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:6647637G>A	uc003sqo.1	+	6	1195	c.1195G>A	c.(1195-1197)GCC>ACC	p.A399T	C7orf26_uc003sqp.1_Missense_Mutation_p.A302T|C7orf26_uc003sqq.1_Missense_Mutation_p.A200T	NM_024067	NP_076972	Q96N11	CG026_HUMAN	hypothetical protein LOC79034	399										ovary(1)	1		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)		GTCGCCTCACGCCGCGCTCCC	0.741													18	56					0	0	1	0	0		A	6647637	A	A	6647637	3	1	49	1	0	0	0	0	1	0	0	0	2384	1087	38	1	1217	1	C7orf26	7	6647637	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	581074	6647637	152491026	553	37233											
TSPAN13	27075	broad.mit.edu	37	chr7	16815913	16815913	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtctccgagtggtcggCgtggtcattgcagtgggcat	5	11	15	10	3	2	0	1	0	1	0	5	1	3	0	2	4	1	2	2	4	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:16815913C>T	uc003stq.2	+	2	383	c.141C>T	c.(139-141)GGC>GGT	p.G47G		NM_014399	NP_055214	O95857	TSN13_HUMAN	tetraspan NET-6	47	Helical; (Potential).					integral to plasma membrane|membrane fraction				ovary(1)	1	Lung NSC(10;0.0494)|all_lung(11;0.109)			UCEC - Uterine corpus endometrioid carcinoma (126;0.188)		GAGTGGTCGGCGTGGTCATTG	0.488													17	47					0	0	1	0	0		T	16815913	T	T	16815913	2	4	49	1	0	0	0	0	0	0	0	1	16663	755	27	1		1	TSPAN13	7	16815913	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	10168276	16815913	142322750	554	37234											
TMEM196	256130	broad.mit.edu	37	chr7	19765226	19765226	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggctagtcgacaagtgaGccaggaagagagagtgcagc	13	5	15	8	1	0	3	0	1	0	2	1	6	0	4	1	2	3	2	1	2	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:19765226G>T	uc011jyg.1	-	3	455	c.370C>A	c.(370-372)CTC>ATC	p.L124I	TMEM196_uc003sur.2_RNA	NM_152774	NP_689987	Q5HYL7	TM196_HUMAN	transmembrane protein 196	130						integral to membrane					0						CGACAAGTGAGCCAGGAAGAG	0.517													5	56					0.000602214	0.000618842	1	1	0		T	19765226	T	T	19765226	3	4	49	1	0	0	0	0	1	0	0	0	16143	971	34	5	156	5	TMEM196	7	19765226	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2949313	19765226	139373437	555	37235											
KLHL7	55975	broad.mit.edu	37	chr7	23205486	23205486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattcgaaactgggtcctcCgacacctcgagacagccttg	9	9	10	13	3	0	1	0	0	0	1	4	4	2	1	4	1	2	1	4	1	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:23205486C>T	uc003svs.3	+	8	1399	c.1106C>T	c.(1105-1107)CCG>CTG	p.P369L	KLHL7_uc003svr.3_Missense_Mutation_p.P347L|KLHL7_uc011jys.1_Missense_Mutation_p.P293L|KLHL7_uc011jyt.1_Missense_Mutation_p.P144L|KLHL7_uc003svt.2_Missense_Mutation_p.P321L|KLHL7_uc011jyv.1_Missense_Mutation_p.P144L	NM_001031710	NP_001026880	Q8IXQ5	KLHL7_HUMAN	kelch-like 7 isoform 1	369	Kelch 2.					Golgi apparatus|nucleolus|plasma membrane					0						CTGGGTCCTCCGACACCTCGA	0.433													5	45					0	0	1	0	0		T	23205486	T	T	23205486	3	4	49	1	0	0	0	0	1	0	0	0	8410	652	23	1	1199	1	KLHL7	7	23205486	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3440260	23205486	135933177	556	37236											
C7orf31	136895	broad.mit.edu	37	chr7	25194759	25194759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtggggaacatggcgccgcGacagatgtgtgtgtggtagg	7	8	20	6	3	0	1	0	0	0	1	0	3	0	2	1	6	1	1	1	6	2	1	rs145873141	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:25194759G>A	uc003sxn.1	-	6	1027	c.466C>T	c.(466-468)CGC>TGC	p.R156C	C7orf31_uc003sxm.1_5'UTR	NM_138811	NP_620166	Q8N865	CG031_HUMAN	hypothetical protein LOC136895	156											0						ATGGCGCCGCGACAGATGTGT	0.507													8	72					0	0	1	0	0		A	25194759	A	A	25194759	3	1	49	1	0	0	0	0	1	0	0	0	2390	1058	37	1	1326	1	C7orf31	7	25194759	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1989273	25194759	133943904	557	37237											
FAM188B	84182	broad.mit.edu	37	chr7	30821830	30821830	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaaacaagcaaagccaggTatcttttcccattattatgt	14	12	6	9	0	1	1	0	0	1	1	2	1	2	1	2	1	3	2	2	1	6	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:30821830T>C	uc003tbt.2	+	3	496	c.419_splice	c.e3+2	p.R140_splice	FAM188B_uc010kwe.2_Splice_Site_p.R111_splice	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182												0						CAAAGCCAGGTATCTTTTCCC	0.234													3	22					0	0	1	0	0		C	30821830	C	C	30821830	5	2	49	1	0	0	0	0	0	0	1	0	5526	1652	57	3	431	3	FAM188B	7	30821830	Splice_Site	SNP	T	TCGA-BR-7707-01A-11D-2053-08	5627071	30821830	128316833	558	37238											
CCDC129	223075	broad.mit.edu	37	chr7	31617485	31617485	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgttgtgcaggtcgtttcCgacagctggaaatcctggac	7	12	13	9	2	0	0	0	0	0	0	3	3	2	2	2	3	2	4	2	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:31617485C>T	uc003tcj.1	+	8	1600	c.607C>T	c.(607-609)CGA>TGA	p.R203*	CCDC129_uc011kad.1_Nonsense_Mutation_p.R213*|CCDC129_uc003tci.1_Nonsense_Mutation_p.R202*|CCDC129_uc011kae.1_Nonsense_Mutation_p.R229*|CCDC129_uc003tck.1_Nonsense_Mutation_p.R111*	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	203											0						AGGTCGTTTCCGACAGCTGGA	0.458													3	18					0	0	1	0	0		T	31617485	T	T	31617485	4	4	49	1	0	0	0	0	0	1	0	0	2767	644	23	1	633	1	CCDC129	7	31617485	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	795655	31617485	127521178	559	37239											
KIAA0895	23366	broad.mit.edu	37	chr7	36423468	36423468	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccttcagccaaataacCtgaggtagagaacttgagtt	12	10	10	9	0	1	3	1	2	0	1	1	4	1	3	3	2	3	2	3	2	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:36423468C>A	uc003tfd.2	-	2	229	c.178G>T	c.(178-180)GAA>TAA	p.E60*		NM_001100425	NP_001093895	Q8NCT3	K0895_HUMAN	hypothetical protein LOC23366 isoform 1	60											0						GCCAAATAACCTGAGGTAGAG	0.259													8	40					0.000673444	0.000691623	1	1	0		A	36423468	A	A	36423468	4	1	49	1	0	0	0	0	0	1	0	0	8213	695	24	5	1437	5	KIAA0895	7	36423468	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4805983	36423468	122715195	560	37240											
SFRP4	6424	broad.mit.edu	37	chr7	37951805	37951805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaagaatttgtaatgagcGggacttgagttcgagggatg	13	10	15	3	2	0	4	0	2	0	2	1	7	0	6	0	2	1	2	0	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:37951805G>A	uc003tfo.3	-	4	1093	c.707C>T	c.(706-708)CCG>CTG	p.P236L		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	236	NTR.				brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1						TGTAATGAGCGGGACTTGAGT	0.493													5	129					0	0	1	0	0		A	37951805	A	A	37951805	3	1	49	1	0	0	0	0	1	0	0	0	14188	1116	39	1	345	1	SFRP4	7	37951805	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1528337	37951805	121186858	561	37241											
GLI3	2737	broad.mit.edu	37	chr7	42012169	42012169	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttcacatgtttccggaGggagcttgggtctgtgtaac	6	14	13	8	1	3	0	1	0	2	0	4	2	4	2	1	3	2	3	1	3	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:42012169G>T	uc011kbh.1	-	13	1961	c.1870C>A	c.(1870-1872)CTC>ATC	p.L624I	GLI3_uc011kbg.1_Missense_Mutation_p.L565I	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	624	C2H2-type 5.				negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						TGTTTCCGGAGGGAGCTTGGG	0.537									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				11	38					0.00010058	0.000104233	1	1	0		T	42012169	T	T	42012169	3	4	49	1	0	0	0	0	1	0	0	0	6454	1000	35	5	2884	5	GLI3	7	42012169	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4060364	42012169	117126494	562	37242											
GLI3	2737	broad.mit.edu	37	chr7	42063102	42063102	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggtgtcgaactccctcgCgcagccttcccagtggcagt	5	10	12	14	3	0	0	0	0	0	0	4	1	2	0	3	2	2	2	3	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:42063102C>T	uc011kbh.1	-	10	1553	c.1462G>A	c.(1462-1464)GCG>ACG	p.A488T	GLI3_uc011kbg.1_Missense_Mutation_p.A429T	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	488	C2H2-type 1.				negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						AACTCCCTCGCGCAGCCTTCC	0.532									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				8	57					0	0	1	0	0		T	42063102	T	T	42063102	3	4	49	1	0	0	0	0	1	0	0	0	6454	768	27	1	3304	1	GLI3	7	42063102	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	50933	42063102	117075561	563	37243											
IGFBP1	3484	broad.mit.edu	37	chr7	45928343	45928343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgctccgtggcagtgcgCgccctgctccgccgagaagc	4	5	15	17	7	0	1	0	0	0	1	2	2	2	1	4	2	3	3	4	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:45928343C>T	uc003tnp.2	+	1	385	c.92C>T	c.(91-93)GCG>GTG	p.A31V	IGFBP1_uc003tno.3_Missense_Mutation_p.A31V|IGFBP1_uc010kyn.2_Missense_Mutation_p.A31V	NM_000596	NP_000587	P08833	IBP1_HUMAN	insulin-like growth factor binding protein 1	31	IGFBP N-terminal.					extracellular space	insulin-like growth factor binding			lung(1)	1						TGGCAGTGCGCGCCCTGCTCC	0.721													3	10					0	0	1	0	0		T	45928343	T	T	45928343	3	4	49	1	0	0	0	0	1	0	0	0	7594	768	27	1	94	1	IGFBP1	7	45928343	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3865241	45928343	113210320	564	37244											
TNS3	64759	broad.mit.edu	37	chr7	47385927	47385927	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggctcagcttcctgagtctcCcgcccaggggctgttcagca	5	9	12	15	1	3	1	2	1	1	0	5	1	4	1	3	3	2	5	3	3	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:47385927C>T	uc003tnv.2	-	18	2676	c.2309G>A	c.(2308-2310)GGG>GAG	p.G770E	TNS3_uc003tnw.2_Missense_Mutation_p.G770E	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	770						focal adhesion	protein binding			ovary(4)	4						CCTGAGTCTCCCGCCCAGGGG	0.602													14	49					0	0	1	0	0		T	47385927	T	T	47385927	3	4	49	1	0	0	0	0	1	0	0	0	16369	623	22	4	2084	4	TNS3	7	47385927	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1457584	47385927	111752736	565	37245											
DDC	1644	broad.mit.edu	37	chr7	50607613	50607613	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtgcatccggaccctcacCcaggagaagccgatgcagcc	10	4	12	15	2	1	1	1	0	0	1	2	4	2	2	5	3	4	2	5	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:50607613C>A	uc003tpf.3	-	3	401	c.315G>T	c.(313-315)TGG>TGT	p.W105C	DDC_uc010kza.2_Missense_Mutation_p.W105C|DDC_uc003tpg.3_Missense_Mutation_p.W105C	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	105	1.|2 X approximate tandem repeats.				cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	GGACCCTCACCCAGGAGAAGC	0.647													7	16					0.335167	0.335363	1	1	0		A	50607613	A	A	50607613	3	1	49	1	0	0	0	0	1	0	0	0	4328	637	22	5	1175	5	DDC	7	50607613	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3221686	50607613	108531050	566	37246											
CCT6A	908	broad.mit.edu	37	chr7	56126114	56126114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagagaaaaactcgtgaaagCtgaaagaaaattcattgaag	20	7	10	4	1	1	5	1	3	0	2	2	7	1	5	0	0	2	1	0	0	7	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:56126114C>T	uc003trl.1	+	7	949	c.785C>T	c.(784-786)GCT>GTT	p.A262V	PSPH_uc003trj.2_Intron|CCT6A_uc003trm.1_Missense_Mutation_p.A217V|CCT6A_uc011kcu.1_Missense_Mutation_p.A231V|SNORA15_uc003trn.1_5'Flank	NM_001762	NP_001753	P40227	TCPZ_HUMAN	chaperonin containing TCP1, subunit 6A isoform	262					'de novo' posttranslational protein folding	cytosol	ATP binding|unfolded protein binding			upper_aerodigestive_tract(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CTCGTGAAAGCTGAAAGAAAA	0.308													4	35					0	0	1	0	0		T	56126114	T	T	56126114	3	4	49	1	0	0	0	0	1	0	0	0	2960	797	28	2	811	2	CCT6A	7	56126114	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5518501	56126114	103012549	567	37247											
ZNF479	90827	broad.mit.edu	37	chr7	57188194	57188194	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtggtcagtgagggttgAggatacgctaaaggctttgc	8	12	15	6	1	1	2	1	2	0	0	1	3	1	3	0	4	2	3	0	4	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:57188194A>G	uc010kzo.2	-	5	1199	c.928T>C	c.(928-930)TCA>CCA	p.S310P		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	310	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			GTGAGGGTTGAGGATACGCTA	0.468													4	66					0	0	1	0	0		G	57188194	G	G	57188194	3	3	49	1	0	0	0	0	1	0	0	0	17958	304	11	3	650	3	ZNF479	7	57188194	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1062080	57188194	101950469	568	37248											
ZNF479	90827	broad.mit.edu	37	chr7	57194337	57194337	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagttctctaacatcacaTctctatataaattccgctga	12	15	4	10	1	3	1	1	1	2	0	6	1	4	1	1	0	1	3	1	0	6	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:57194337T>C	uc010kzo.2	-	3	399	c.128A>G	c.(127-129)GAT>GGT	p.D43G		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	43	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TAACATCACATCTCTATATAA	0.383													6	138					0	0	1	0	0		C	57194337	C	C	57194337	3	2	49	1	0	0	0	0	1	0	0	0	17958	1435	50	3	1458	3	ZNF479	7	57194337	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	6143	57194337	101944326	569	37249											
GUSB	2990	broad.mit.edu	37	chr7	65445384	65445384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggaactggcatgtccaCggtggggcctgactgtggag	7	7	19	8	1	0	1	0	1	0	0	1	4	1	4	2	7	1	1	2	7	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:65445384C>T	uc003tun.2	-	2	299	c.223G>A	c.(223-225)GTG>ATG	p.V75M	GUSB_uc011kdt.1_Missense_Mutation_p.V75M|GUSB_uc010kzw.1_Translation_Start_Site	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	75					glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0						GGCATGTCCACGGTGGGGCCT	0.453													8	16					0	0	1	0	0		T	65445384	T	T	65445384	3	4	49	1	0	0	0	0	1	0	0	0	6918	536	19	1	1776	1	GUSB	7	65445384	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	8251047	65445384	93693279	570	37250											
FZD9	8326	broad.mit.edu	37	chr7	72849269	72849269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggagggcctggagaacaCgggctgcacgctggtcttcc	7	6	15	13	2	1	1	0	0	1	1	2	3	2	2	3	5	2	3	3	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:72849269C>T	uc003tyb.2	+	1	1161	c.932C>T	c.(931-933)ACG>ATG	p.T311M		NM_003508	NP_003499	O00144	FZD9_HUMAN	frizzled 9 precursor	311	Extracellular (Potential).				B cell differentiation|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|neuroblast proliferation|vasculature development	cell surface|filopodium membrane|integral to membrane|perinuclear region of cytoplasm	G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				CTGGAGAACACGGGCTGCACG	0.667													31	73					0	0	1	0	0		T	72849269	T	T	72849269	3	4	49	1	0	0	0	0	1	0	0	0	6151	536	19	1	934	1	FZD9	7	72849269	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	7403885	72849269	86289394	571	37251											
MAGI2	9863	broad.mit.edu	37	chr7	78636484	78636484	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaacccttttgaaatcgtaAgttgaggtagtgacgaaggt	13	11	12	5	2	0	4	0	3	0	1	1	5	0	4	1	2	1	3	1	2	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:78636484A>C	uc003ugx.2	-	2	594	c.340T>G	c.(340-342)TTA>GTA	p.L114V	MAGI2_uc003ugy.2_Missense_Mutation_p.L114V	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	114	Guanylate kinase-like.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TGAAATCGTAAGTTGAGGTAG	0.388													4	79					0	0	1	0	0		C	78636484	C	C	78636484	3	2	49	1	0	0	0	0	1	0	0	0	9209	69	3	5	4111	5	MAGI2	7	78636484	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	5787215	78636484	80502179	572	37252											
GRM3	2913	broad.mit.edu	37	chr7	86468905	86468905	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttctcaggttttcatctGcctgggtctgatcctggtgc	4	15	11	11	0	4	1	2	1	3	0	6	1	5	1	2	3	2	2	2	3	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:86468905G>C	uc003uid.2	+	4	3174	c.2075G>C	c.(2074-2076)TGC>TCC	p.C692S	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Missense_Mutation_p.C564S|GRM3_uc010leh.2_Missense_Mutation_p.C284S	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	692	Helical; Name=4; (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GTTTTCATCTGCCTGGGTCTG	0.542													3	38					0	0	1	0	0		C	86468905	C	C	86468905	3	2	49	1	0	0	0	0	1	0	0	0	6814	1319	46	5	2085	5	GRM3	7	86468905	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	7832421	86468905	72669758	573	37253											
ADAM22	53616	broad.mit.edu	37	chr7	87759712	87759712	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgctttcagtttaaaaaaCatcggctttccgttgtacat	10	17	6	8	2	1	0	1	0	0	0	3	0	2	0	1	1	3	5	1	1	4	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:87759712C>A	uc003ujn.2	+	10	842	c.763C>A	c.(763-765)CAT>AAT	p.H255N	ADAM22_uc003ujj.1_Missense_Mutation_p.H255N|ADAM22_uc003ujk.1_Missense_Mutation_p.H255N|ADAM22_uc003ujl.1_Missense_Mutation_p.H255N|ADAM22_uc003ujm.2_Missense_Mutation_p.H255N|ADAM22_uc003ujo.2_Missense_Mutation_p.H255N|ADAM22_uc003ujp.1_Missense_Mutation_p.H307N	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	255	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			GTTTAAAAAACATCGGCTTTC	0.378													7	64					5.18039e-06	5.44768e-06	1	1	0		A	87759712	A	A	87759712	3	1	49	1	0	0	0	0	1	0	0	0	244	478	17	5	801	5	ADAM22	7	87759712	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1290807	87759712	71378951	574	37254											
ASB4	51666	broad.mit.edu	37	chr7	95167036	95167036	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccattgtcattgaaaaagTacttgcttttagagccagag	12	13	8	8	0	1	3	1	1	0	2	2	3	2	3	2	0	3	2	2	0	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:95167036T>C	uc011kij.1	+	5	1246	c.1246T>C	c.(1246-1248)TAC>CAC	p.Y416H		NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	416	SOCS box.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			ATTGAAAAAGTACTTGCTTTT	0.408													6	73					0	0	1	0	0		C	95167036	C	C	95167036	3	2	49	1	0	0	0	0	1	0	0	0	1026	1638	57	3	1336	3	ASB4	7	95167036	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	7407324	95167036	63971627	575	37255											
DLX5	1749	broad.mit.edu	37	chr7	96653686	96653686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggctgggtagctcccggCggagccgttcacgccgtgat	4	10	15	12	5	1	1	1	1	0	0	2	2	2	2	3	4	2	4	3	4	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:96653686C>T	uc003uon.2	-	1	458	c.250G>A	c.(250-252)GCC>ACC	p.A84T	DLX5_uc011kim.1_Missense_Mutation_p.A84T	NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	84					cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					TAGCTCCCGGCGGAGCCGTTC	0.617													13	32					0	0	1	0	0		T	96653686	T	T	96653686	3	4	49	1	0	0	0	0	1	0	0	0	4580	768	27	1	631	1	DLX5	7	96653686	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1486650	96653686	62484977	576	37256											
PTCD1	26024	broad.mit.edu	37	chr7	99027333	99027333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgccggagcttcagggCgctctgtagagctgagtcct	5	10	14	12	2	2	2	1	1	1	1	3	3	3	3	2	2	4	5	2	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:99027333C>T	uc003uqh.2	-	4	822	c.691G>A	c.(691-693)GCC>ACC	p.A231T	PTCD1_uc011kiw.1_Missense_Mutation_p.A280T	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	231	PPR 3.									ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			AGCTTCAGGGCGCTCTGTAGA	0.587													6	33					0	0	1	0	0		T	99027333	T	T	99027333	3	4	49	1	0	0	0	0	1	0	0	0	12749	768	27	1	1431	1	PTCD1	7	99027333	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2373647	99027333	60111330	577	37257											
ZSCAN21	7589	broad.mit.edu	37	chr7	99654893	99654893	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcagatcctggagctactGgtgctggagcagttcctgac	8	9	14	10	0	0	2	0	1	0	1	2	5	2	4	2	3	5	5	2	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:99654893G>A	uc003uso.2	+	2	408	c.264G>A	c.(262-264)CTG>CTA	p.L88L	ZSCAN21_uc011kje.1_Silent_p.L87L|ZSCAN21_uc003usn.1_Silent_p.L87L	NM_145914	NP_666019	Q9Y5A6	ZSC21_HUMAN	zinc finger protein 38	88	SCAN box.				positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			TGGAGCTACTGGTGCTGGAGC	0.637													6	46					0	0	1	0	0		A	99654893	A	A	99654893	2	1	49	1	0	0	0	0	0	0	0	1	18258	1335	47	4		4	ZSCAN21	7	99654893	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	627560	99654893	59483770	578	37258											
LRCH4	4034	broad.mit.edu	37	chr7	100175478	100175478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgcgttctctgggtccccGgggctcccgggccagctctg	1	10	14	16	3	2	0	0	0	2	0	5	0	4	0	4	4	2	3	4	4	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:100175478G>A	uc003uvj.2	-	8	1059	c.1006C>T	c.(1006-1008)CGG>TGG	p.R336W	LRCH4_uc010lgz.2_RNA|LRCH4_uc003uvi.2_RNA|LRCH4_uc011kjw.1_5'UTR|LRCH4_uc011kjx.1_RNA	NM_002319	NP_002310	O75427	LRCH4_HUMAN	leucine-rich repeats and calponin homology (CH)	336					nervous system development	PML body	protein binding			large_intestine(1)|ovary(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CTGGGTCCCCGGGGCTCCCGG	0.607													12	31					0	0	1	0	0		A	100175478	A	A	100175478	3	1	49	1	0	0	0	0	1	0	0	0	8953	1115	39	1	1089	1	LRCH4	7	100175478	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	520585	100175478	58963185	579	37259											
EPHB4	2050	broad.mit.edu	37	chr7	100410487	100410487	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgctcgaactggcccatgAtggaggcctcgctcagaaac	9	7	13	12	2	1	2	1	1	0	1	3	4	1	3	2	4	3	2	2	4	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:100410487A>G	uc003uwn.1	-	12	2491	c.2000T>C	c.(1999-2001)ATC>ACC	p.I667T	EPHB4_uc003uwm.1_Missense_Mutation_p.I574T|EPHB4_uc010lhj.1_Missense_Mutation_p.I667T	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	667	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					CTGGCCCATGATGGAGGCCTC	0.602													7	97					0	0	1	0	0		G	100410487	G	G	100410487	3	3	49	1	0	0	0	0	1	0	0	0	5185	333	12	3	987	3	EPHB4	7	100410487	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	235009	100410487	58728176	580	37260											
MUC17	140453	broad.mit.edu	37	chr7	100678679	100678679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgctgaaggtaccagcatgCcaacctcaacttatagtgaa	13	9	8	11	0	1	2	1	2	0	0	1	2	1	2	3	1	6	3	3	1	7	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:100678679C>T	uc003uxp.1	+	3	4035	c.3982C>T	c.(3982-3984)CCA>TCA	p.P1328S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1328	Extracellular (Potential).|20.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TACCAGCATGCCAACCTCAAC	0.458													76	219					0	0	1	0	0		T	100678679	T	T	100678679	3	4	49	1	0	0	0	0	1	0	0	0	9992	739	26	2	3992	2	MUC17	7	100678679	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	268192	100678679	58459984	581	37261											
MUC17	140453	broad.mit.edu	37	chr7	100680822	100680822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacctcaactcctagtgaacGgaccactccattagcaggta	13	8	7	13	1	1	1	1	1	0	0	3	2	3	2	4	2	4	2	4	2	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:100680822G>A	uc003uxp.1	+	3	6178	c.6125G>A	c.(6124-6126)CGG>CAG	p.R2042Q	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2042	Extracellular (Potential).|32.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CCTAGTGAACGGACCACTCCA	0.507													71	148					0	0	1	0	0		A	100680822	A	A	100680822	3	1	49	1	0	0	0	0	1	0	0	0	9992	1116	39	1	6135	1	MUC17	7	100680822	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2143	100680822	58457841	582	37262											
TRIM56	81844	broad.mit.edu	37	chr7	100732127	100732127	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcggtccccccggatcaccGggctctgtcccttcggtccc	3	8	11	19	4	2	0	1	0	1	0	6	1	5	1	6	4	1	1	6	4	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:100732127G>T	uc003uxq.2	+	3	1765	c.1534G>T	c.(1534-1536)GGG>TGG	p.G512W	TRIM56_uc003uxr.2_Intron	NM_030961	NP_112223	Q9BRZ2	TRI56_HUMAN	tripartite motif-containing 56	512					defense response to virus|interferon-beta production|protein K63-linked ubiquitination|response to type I interferon	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			kidney(1)|central_nervous_system(1)|skin(1)	3	Lung NSC(181;0.136)|all_lung(186;0.182)					CCGGATCACCGGGCTCTGTCC	0.652													11	89					0.00010058	0.000104233	1	1	0		T	100732127	T	T	100732127	3	4	49	1	0	0	0	0	1	0	0	0	16556	1116	39	5	1536	5	TRIM56	7	100732127	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	51305	100732127	58406536	583	37263											
CUX1	1523	broad.mit.edu	37	chr7	101837172	101837172	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgagggcgctgggacacaggTacgtgtctcacctcaatggt	8	8	14	11	3	2	0	2	0	1	0	3	2	2	1	1	4	1	2	1	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:101837172T>C	uc003uyx.3	+	13	1163	c.1125_splice	c.e13+2	p.Q375_splice	CUX1_uc003uys.3_Splice_Site_p.Q386_splice|CUX1_uc003uyt.2_Splice_Site_p.Q386_splice|CUX1_uc011kkn.1_Splice_Site_p.Q347_splice|CUX1_uc003uyw.2_Splice_Site_p.Q340_splice|CUX1_uc003uyv.2_Splice_Site_p.Q370_splice|CUX1_uc003uyu.2_Splice_Site_p.Q384_splice	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a						negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						GGGACACAGGTACGTGTCTCA	0.493													4	30					0	0	1	0	0		C	101837172	C	C	101837172	5	2	49	1	0	0	0	0	0	0	1	0	4067	1652	57	3	1244	3	CUX1	7	101837172	Splice_Site	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1105045	101837172	57301491	584	37264											
FBXL13	222235	broad.mit.edu	37	chr7	102604003	102604003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagatctgaaagttttgggtCggagaagacaaccacgaaaa	16	7	11	7	2	1	4	0	1	1	3	2	6	1	4	1	2	1	1	1	2	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:102604003C>T	uc003vaq.2	-	8	1128	c.701G>A	c.(700-702)CGA>CAA	p.R234Q	FBXL13_uc010liq.1_Missense_Mutation_p.R49Q|FBXL13_uc010lir.1_Missense_Mutation_p.R234Q|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Missense_Mutation_p.R234Q|FBXL13_uc003vav.2_RNA	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	234	LRR 1.										0						AGTTTTGGGTCGGAGAAGACA	0.338													13	59					0	0	1	0	0		T	102604003	T	T	102604003	3	4	49	1	0	0	0	0	1	0	0	0	5723	884	31	1	1558	1	FBXL13	7	102604003	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	766831	102604003	56534660	585	37265											
COG5	10466	broad.mit.edu	37	chr7	106876896	106876896	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtaattcatcaatgtaccTgtgcaaaatcagcagcaagt	15	11	7	8	0	3	0	3	0	0	0	3	0	3	0	1	0	4	5	1	0	7	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:106876896T>G	uc003ved.2	-	17	2645	c.2120A>C	c.(2119-2121)CAG>CCG	p.Q707P	COG5_uc003vec.2_Missense_Mutation_p.Q728P|COG5_uc003vee.2_Missense_Mutation_p.Q728P	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	707					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						TCAATGTACCTGTGCAAAATC	0.378													8	61					0	0	1	0	0		G	106876896	G	G	106876896	3	3	49	1	0	0	0	0	1	0	0	0	3664	1594	55	5	423	5	COG5	7	106876896	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	4272893	106876896	52261767	586	37266											
DOCK4	9732	broad.mit.edu	37	chr7	111368525	111368525	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccgctcgtagacgctgtaCgggggcggagtcttgctctc	4	10	15	12	5	2	1	0	0	2	1	5	2	3	2	1	3	2	5	1	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:111368525C>T	uc003vfx.2	-	52	5975	c.5706G>A	c.(5704-5706)CCG>CCA	p.P1902P	DOCK4_uc011kml.1_Silent_p.P783P|DOCK4_uc011kmm.1_Silent_p.P771P|DOCK4_uc003vfw.2_Silent_p.P1314P|DOCK4_uc003vfy.2_Silent_p.P1947P|DOCK4_uc003vfv.2_Silent_p.P215P	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1902	Pro-rich.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				AGACGCTGTACGGGGGCGGAG	0.716													12	45					0	0	1	0	0		T	111368525	T	T	111368525	2	4	49	1	0	0	0	0	0	0	0	1	4695	523	19	1		1	DOCK4	7	111368525	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4491629	111368525	47770138	587	37267											
FAM3C	10447	broad.mit.edu	37	chr7	121019010	121019010	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttatttcaaatacttgAgaaataacataaaatgtcag	18	15	4	4	0	2	1	2	1	0	1	2	2	2	1	0	0	2	0	0	0	7	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:121019010A>G	uc003vjx.2	-	3	320	c.72T>C	c.(70-72)TCT>TCC	p.S24S	FAM3C_uc010lkm.2_Silent_p.S24S	NM_014888	NP_055703	Q92520	FAM3C_HUMAN	family with sequence similarity 3, member C	24					multicellular organismal development	cytoplasmic membrane-bounded vesicle|extracellular region	cytokine activity				0	all_neural(327;0.117)					CAAATACTTGAGAAATAACAT	0.318													7	67					0	0	1	0	0		G	121019010	G	G	121019010	2	3	49	1	0	0	0	0	0	0	0	1	5572	291	11	3		3	FAM3C	7	121019010	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	9650485	121019010	38119653	588	37268											
CADPS2	93664	broad.mit.edu	37	chr7	122194640	122194640	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctggtttatccattcgcActgccagtttgatttttaag	7	17	9	8	1	0	1	0	1	0	0	2	1	1	1	2	1	2	4	2	1	2	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:122194640A>G	uc010lkp.2	-	8	1602	c.1439T>C	c.(1438-1440)GTG>GCG	p.V480A	CADPS2_uc003vkg.3_Missense_Mutation_p.V180A|CADPS2_uc010lkq.2_Missense_Mutation_p.V480A	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	480					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						ATCCATTCGCACTGCCAGTTT	0.333													6	52					0	0	1	0	0		G	122194640	G	G	122194640	3	3	49	1	0	0	0	0	1	0	0	0	2574	159	6	3	2587	3	CADPS2	7	122194640	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1175630	122194640	36944023	589	37269											
GPR37	2861	broad.mit.edu	37	chr7	124404242	124404242	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacggacagacacatgacCgcgtaggctccataggactc	12	5	10	14	3	0	2	0	1	0	1	2	4	1	4	3	3	0	2	3	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:124404242C>T	uc003vli.2	-	1	1440	c.789G>A	c.(787-789)GCG>GCA	p.A263A		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	263	Extracellular (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						GACACATGACCGCGTAGGCTC	0.602													12	39					0	0	1	0	0		T	124404242	T	T	124404242	2	4	49	1	0	0	0	0	0	0	0	1	6706	639	23	1		1	GPR37	7	124404242	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2209602	124404242	34734421	590	37270											
GCC1	79571	broad.mit.edu	37	chr7	127222705	127222705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccgctccagctcctgcCggtggagctgctgcagccgg	4	6	15	16	3	0	0	0	0	0	0	2	1	2	1	5	4	6	6	5	4	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:127222705C>T	uc003vma.2	-	2	2109	c.1691G>A	c.(1690-1692)CGG>CAG	p.R564Q		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	564	Potential.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						CAGCTCCTGCCGGTGGAGCTG	0.637													9	40					0	0	1	0	0		T	127222705	T	T	127222705	3	4	49	1	0	0	0	0	1	0	0	0	6300	652	23	1	640	1	GCC1	7	127222705	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2818463	127222705	31915958	591	37271											
FSCN3	29999	broad.mit.edu	37	chr7	127235583	127235583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtccaatggcaaggacGtgttttgcacttcccacgtc	8	11	11	11	2	0	0	0	0	0	0	3	2	2	2	2	3	1	3	2	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:127235583G>A	uc003vmd.1	+	2	586	c.367G>A	c.(367-369)GTG>ATG	p.V123M	FSCN3_uc003vmc.1_Missense_Mutation_p.V78M|FSCN3_uc011kog.1_RNA|FSCN3_uc011koh.1_Translation_Start_Site|FSCN3_uc010llc.1_Missense_Mutation_p.V123M	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	123						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						TGGCAAGGACGTGTTTTGCAC	0.567													32	44					0	0	1	0	0		A	127235583	A	A	127235583	3	1	49	1	0	0	0	0	1	0	0	0	6083	1145	40	1	373	1	FSCN3	7	127235583	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	12878	127235583	31903080	592	37272											
PAX4	5078	broad.mit.edu	37	chr7	127255502	127255502	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcattccactgactgctaGccgcacaatctgctgccggg	7	8	10	16	3	1	1	0	1	1	0	2	1	2	1	4	1	4	4	4	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:127255502G>T	uc010lld.1	-	1	279	c.73C>A	c.(73-75)CTA>ATA	p.L25I	PAX4_uc003vmf.2_5'UTR|PAX4_uc003vmg.1_Missense_Mutation_p.L25I|PAX4_uc003vmh.2_5'UTR	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	33	Paired.				cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CTGACTGCTAGCCGCACAATC	0.592													4	96					0.00909568	0.00923047	1	1	0		T	127255502	T	T	127255502	3	4	49	1	0	0	0	0	1	0	0	0	11500	962	34	5	994	5	PAX4	7	127255502	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	19919	127255502	31883161	593	37273											
IMPDH1	3614	broad.mit.edu	37	chr7	128035288	128035288	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgggcatactcagccacCttgtacacagcagtgccctg	8	7	10	16	2	1	0	1	0	0	0	1	0	1	0	4	1	5	3	4	1	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:128035288C>A	uc011kol.1	-	10	1153	c.1047G>T	c.(1045-1047)AAG>AAT	p.K349N	IMPDH1_uc011kom.1_Missense_Mutation_p.K344N|IMPDH1_uc003vmt.2_Missense_Mutation_p.K324N|IMPDH1_uc003vmu.2_Missense_Mutation_p.K434N|IMPDH1_uc003vmw.2_Missense_Mutation_p.K424N|IMPDH1_uc011kon.1_Missense_Mutation_p.K401N|IMPDH1_uc003vmv.2_Missense_Mutation_p.K398N|IMPDH1_uc003vmx.2_Missense_Mutation_p.K357N|IMPDH1_uc003vmy.2_Missense_Mutation_p.K365N|uc011koo.1_5'Flank	NM_001142573	NP_001136045	P20839	IMDH1_HUMAN	inosine monophosphate dehydrogenase 1 isoform e	349					GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	DNA binding|IMP dehydrogenase activity|metal ion binding			skin(2)|lung(1)|central_nervous_system(1)	4					Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)|Ribavirin(DB00811)|Thioguanine(DB00352)	ACTCAGCCACCTTGTACACAG	0.647													9	95					4.68919e-08	4.99247e-08	1	1	0		A	128035288	A	A	128035288	3	1	49	1	0	0	0	0	1	0	0	0	7742	680	24	5	517	5	IMPDH1	7	128035288	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	779786	128035288	31103375	594	37274											
FLNC	2318	broad.mit.edu	37	chr7	128488118	128488118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgaccaggaggtgccaCgcaggtgaggaccagccctg	9	5	15	12	1	0	2	0	2	0	0	0	4	0	4	4	4	3	2	4	4	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:128488118C>T	uc003vnz.3	+	26	4785	c.4576C>T	c.(4576-4578)CGC>TGC	p.R1526C	FLNC_uc003voa.3_Missense_Mutation_p.R1526C	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1526	Filamin 13.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GGAGGTGCCACGCAGGTGAGG	0.652													4	9					0	0	1	0	0		T	128488118	T	T	128488118	3	4	49	1	0	0	0	0	1	0	0	0	5949	536	19	1	4678	1	FLNC	7	128488118	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	452830	128488118	30650545	595	37275											
FLNC	2318	broad.mit.edu	37	chr7	128488733	128488733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagttcaccatcgacgcaCgggacgcgggcgaggggttg	7	6	18	10	6	1	0	1	0	0	0	2	4	1	2	1	5	0	3	1	5	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:128488733C>T	uc003vnz.3	+	27	4908	c.4699C>T	c.(4699-4701)CGG>TGG	p.R1567W	FLNC_uc003voa.3_Missense_Mutation_p.R1567W	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1567	Filamin 14.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CATCGACGCACGGGACGCGGG	0.662													16	76					0	0	1	0	0		T	128488733	T	T	128488733	3	4	49	1	0	0	0	0	1	0	0	0	5949	527	19	1	4805	1	FLNC	7	128488733	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	615	128488733	30649930	596	37276											
DGKI	9162	broad.mit.edu	37	chr7	137304593	137304593	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtttcttcaccttaatgaTccaagtgggcgggacaataa	12	11	10	8	1	2	1	1	1	1	0	3	2	3	2	2	3	0	1	2	3	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:137304593T>C	uc003vtt.2	-	8	971	c.970A>G	c.(970-972)ATC>GTC	p.I324V	DGKI_uc003vtu.2_Missense_Mutation_p.I24V	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	324					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						ACCTTAATGATCCAAGTGGGC	0.512													3	126					0	0	1	0	0		C	137304593	C	C	137304593	3	2	49	1	0	0	0	0	1	0	0	0	4477	1435	50	3	2335	3	DGKI	7	137304593	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	8815860	137304593	21834070	597	37277											
WEE2	494551	broad.mit.edu	37	chr7	141418950	141418950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaaaaaattggggttggcGaatttggtacagtctacaag	13	12	12	4	1	1	1	0	1	1	0	1	2	1	1	0	4	2	2	0	4	7	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:141418950G>A	uc003vwn.2	+	4	1070	c.664G>A	c.(664-666)GAA>AAA	p.E222K	FLJ40852_uc011krh.1_Intron|FLJ40852_uc010lnm.2_Intron|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028	P0C1S8	WEE2_HUMAN	WEE1 homolog 2	222	ATP (By similarity).|Protein kinase.				egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)					TGGGGTTGGCGAATTTGGTAC	0.358													7	97					0	0	1	0	0		A	141418950	A	A	141418950	3	1	49	1	0	0	0	0	1	0	0	0	17371	1059	37	1	678	1	WEE2	7	141418950	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4114357	141418950	17719713	598	37278											
MGAM	8972	broad.mit.edu	37	chr7	141747669	141747669	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctgggataatggggaaacGaagggtgagcacttatacga	13	9	14	5	2	1	1	0	1	1	0	1	5	1	3	0	4	3	1	0	4	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:141747669G>A	uc003vwy.2	+	22	2637	c.2583G>A	c.(2581-2583)ACG>ACA	p.T861T		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	861	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	ATGGGGAAACGAAGGGTGAGC	0.458													9	12					0	0	1	0	0		A	141747669	A	A	141747669	2	1	49	1	0	0	0	0	0	0	0	1	9559	1045	37	1		1	MGAM	7	141747669	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	328719	141747669	17390994	599	37279											
CNTNAP2	26047	broad.mit.edu	37	chr7	146536911	146536911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacccaaggaaggtatagcaGctcagattgggtgacccaat	14	7	11	9	0	1	2	1	1	0	1	1	3	1	3	2	3	3	3	2	3	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:146536911G>A	uc003weu.1	+	3	833	c.317G>A	c.(316-318)AGC>AAC	p.S106N		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	106	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			AGGTATAGCAGCTCAGATTGG	0.493										HNSCC(39;0.1)			4	50					0	0	1	0	0		A	146536911	A	A	146536911	3	1	49	1	0	0	0	0	1	0	0	0	3650	971	34	2	327	2	CNTNAP2	7	146536911	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4789242	146536911	12601752	600	37280											
CUL1	8454	broad.mit.edu	37	chr7	148427309	148427309	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccggcatccagcaggtgtAcacacggcagagcatggcca	11	4	13	13	2	0	1	0	0	0	1	1	1	1	1	3	4	4	5	3	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:148427309A>G	uc010lpg.2	+	2	621	c.95A>G	c.(94-96)TAC>TGC	p.Y32C	CUL1_uc003wey.2_Missense_Mutation_p.Y32C|CUL1_uc003wez.2_5'UTR	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	32					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			CAGCAGGTGTACACACGGCAG	0.537													14	84					0	0	1	0	0		G	148427309	G	G	148427309	3	3	49	1	0	0	0	0	1	0	0	0	4057	391	14	3	97	3	CUL1	7	148427309	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1890398	148427309	10711354	601	37281											
CUL1	8454	broad.mit.edu	37	chr7	148484179	148484179	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagaacagtgcaagtgaCgatgccgaagccagcatgat	14	5	11	11	2	0	3	0	2	0	1	0	5	0	3	3	0	5	2	3	0	3	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:148484179C>T	uc010lpg.2	+	13	1972	c.1446C>T	c.(1444-1446)GAC>GAT	p.D482D	CUL1_uc003wey.2_Silent_p.D482D|CUL1_uc003wez.2_Silent_p.D372D|CUL1_uc003wfa.2_Silent_p.D143D	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	482					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GTGCAAGTGACGATGCCGAAG	0.413													9	58					0	0	1	0	0		T	148484179	T	T	148484179	2	4	49	1	0	0	0	0	0	0	0	1	4057	535	19	1		1	CUL1	7	148484179	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	56870	148484179	10654484	602	37282											
CUL1	8454	broad.mit.edu	37	chr7	148489867	148489867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcagtacaacacggaagatgCctacactgtgcagcagctga	13	7	10	11	1	1	2	1	1	0	1	1	3	1	3	1	1	7	4	1	1	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:148489867C>T	uc010lpg.2	+	17	2382	c.1856C>T	c.(1855-1857)GCC>GTC	p.A619V	CUL1_uc003wey.2_Missense_Mutation_p.A619V|CUL1_uc003wez.2_Missense_Mutation_p.A509V|CUL1_uc003wfa.2_Missense_Mutation_p.A280V	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	619					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			ACGGAAGATGCCTACACTGTG	0.463													11	28					0	0	1	0	0		T	148489867	T	T	148489867	3	4	49	1	0	0	0	0	1	0	0	0	4057	739	26	2	1918	2	CUL1	7	148489867	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5688	148489867	10648796	603	37283											
ABCB8	11194	broad.mit.edu	37	chr7	150742328	150742328	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagctcctgaagaaaggCgggctatacgccgagctcat	12	6	13	10	3	1	3	1	1	0	2	2	5	2	3	2	2	3	3	2	2	5	2	rs144165657	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:150742328C>T	uc003wil.3	+	17	2193	c.2100C>T	c.(2098-2100)GGC>GGT	p.G700G	ABCB8_uc010lpx.2_Silent_p.G658G|ABCB8_uc011kvd.1_Silent_p.G595G|ABCB8_uc003wim.3_Silent_p.G478G|ABCB8_uc003wik.3_Silent_p.G683G	NM_007188	NP_009119	Q9NUT2	ABCB8_HUMAN	ATP-binding cassette, sub-family B, member 8	700	ABC transporter.					ATP-binding cassette (ABC) transporter complex|integral to membrane|membrane fraction|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGAAGAAAGGCGGGCTATACG	0.632													23	45					0	0	1	0	0		T	150742328	T	T	150742328	2	4	49	1	0	0	0	0	0	0	0	1	47	755	27	1		1	ABCB8	7	150742328	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2252461	150742328	8396335	604	37284											
CHPF2	54480	broad.mit.edu	37	chr7	150935141	150935141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacgaggctggcctggctcGctgtgcgagcagaggcccct	5	6	17	13	3	0	1	0	0	0	1	1	4	0	2	3	5	2	4	3	5	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:150935141G>A	uc003wjr.1	+	4	3206	c.1693G>A	c.(1693-1695)GCT>ACT	p.A565T	CHPF2_uc003wjq.1_Missense_Mutation_p.A557T|MIR671_hsa-mir-671|MI0003760_5'Flank	NM_019015	NP_061888	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	565	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(1)	1						GGCCTGGCTCGCTGTGCGAGC	0.617													12	28					0	0	1	0	0		A	150935141	A	A	150935141	3	1	49	1	0	0	0	0	1	0	0	0	3372	1087	38	1	1707	1	CHPF2	7	150935141	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	192813	150935141	8203522	605	37285											
MLL3	58508	broad.mit.edu	37	chr7	151873936	151873936	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacaaggatgcaaagaagTcttttctccatcatttaggt	13	13	7	8	0	4	1	2	0	2	1	5	2	4	2	1	2	1	1	1	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:151873936T>C	uc003wla.2	-	38	8821	c.8602A>G	c.(8602-8604)ACT>GCT	p.T2868A	MLL3_uc003wkz.2_Missense_Mutation_p.T1929A|MLL3_uc003wky.2_Missense_Mutation_p.T377A	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2868					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TGCAAAGAAGTCTTTTCTCCA	0.408			N		medulloblastoma								7	75					0	0	1	0	0		C	151873936	C	C	151873936	3	2	49	1	0	0	0	0	1	0	0	0	9640	1667	58	3	6221	3	MLL3	7	151873936	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	938795	151873936	7264727	606	37286											
MLL3	58508	broad.mit.edu	37	chr7	151874713	151874713	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaccctggggaggtcgtcGcatggggtctgtgtgtctag	5	11	17	8	2	2	1	0	0	2	1	4	2	2	2	1	5	0	1	1	5	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:151874713G>A	uc003wla.2	-	38	8044	c.7825C>T	c.(7825-7827)CGA>TGA	p.R2609*	MLL3_uc003wkz.2_Nonsense_Mutation_p.R1670*|MLL3_uc003wky.2_Nonsense_Mutation_p.R118*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2609	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding	p.R2609*(1)		large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGAGGTCGTCGCATGGGGTCT	0.532			N		medulloblastoma								16	108					0	0	1	0	0		A	151874713	A	A	151874713	4	1	49	1	0	0	0	0	0	1	0	0	9640	1095	38	1	6998	1	MLL3	7	151874713	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	777	151874713	7263950	607	37287											
HTR5A	3361	broad.mit.edu	37	chr7	154862764	154862764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctgggctttctggtggCggcgacgttcgcctggaacc	3	11	15	12	4	1	0	0	0	1	0	2	2	1	1	2	5	2	3	2	5	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:154862764C>T	uc003wlu.1	+	1	219	c.155C>T	c.(154-156)GCG>GTG	p.A52V	uc011kvt.1_Missense_Mutation_p.A84T|uc003wlt.2_Missense_Mutation_p.A84T	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	52	Helical; Name=1; (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		TTTCTGGTGGCGGCGACGTTC	0.647													6	42					0	0	1	0	0		T	154862764	T	T	154862764	3	4	49	1	0	0	0	0	1	0	0	0	7466	768	27	1	157	1	HTR5A	7	154862764	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2988051	154862764	4275899	608	37288											
PTPRN2	5799	broad.mit.edu	37	chr7	157369377	157369377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcaggaagtggaactgcGtcacggtgcgcgtctcgttg	8	9	14	10	5	3	0	2	0	1	0	4	2	3	2	0	3	4	1	0	3	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr7:157369377G>A	uc003wno.2	-	19	2832	c.2711C>T	c.(2710-2712)ACG>ATG	p.T904M	PTPRN2_uc003wnp.2_Missense_Mutation_p.T887M|PTPRN2_uc003wnq.2_Missense_Mutation_p.T875M|PTPRN2_uc003wnr.2_Missense_Mutation_p.T866M|PTPRN2_uc011kwa.1_Missense_Mutation_p.T927M|uc011kwb.1_5'Flank|MIR153-2_hsa-mir-153-2|MI0000464_5'Flank	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	904	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		GTGGAACTGCGTCACGGTGCG	0.607													8	11					0	0	1	0	0		A	157369377	A	A	157369377	3	1	49	1	0	0	0	0	1	0	0	0	12833	1145	40	1	356	1	PTPRN2	7	157369377	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2506613	157369377	1769286	609	37289											
ARHGEF10	9639	broad.mit.edu	37	chr8	1842674	1842674	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactcgctatttcagatcgCgctggccagccgcgtttccg	5	10	10	16	6	1	1	1	0	0	1	4	1	2	1	4	1	1	3	4	1	1	3	rs144726787		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:1842674C>T	uc003wpr.2	+	13	1554	c.1376C>T	c.(1375-1377)GCG>GTG	p.A459V	ARHGEF10_uc003wpq.1_Missense_Mutation_p.A484V|ARHGEF10_uc003wps.2_Missense_Mutation_p.A421V|ARHGEF10_uc003wpt.2_Missense_Mutation_p.A335V|ARHGEF10_uc003wpv.2_Missense_Mutation_p.A192V|ARHGEF10_uc010lre.2_Missense_Mutation_p.A139V	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	484	DH.				centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TTTCAGATCGCGCTGGCCAGC	0.547													9	54					0	0	1	0	0		T	1842674	T	T	1842674	3	4	49	1	0	0	0	0	1	0	0	0	894	768	27	1	1422	1	ARHGEF10	8	1842674	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08		1842674	144521348	610	37290											
RP1L1	94137	broad.mit.edu	37	chr8	10466430	10466430	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggccccagccctccctcAgctccctggacagtcctagt	5	7	8	21	1	1	0	1	0	0	0	4	1	4	1	7	2	2	1	7	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:10466430A>G	uc003wtc.2	-	4	5407	c.5178T>C	c.(5176-5178)GCT>GCC	p.A1726A		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1726					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GCCCTCCCTCAGCTCCCTGGA	0.647													13	162					0	0	1	0	0		G	10466430	G	G	10466430	2	3	49	1	0	0	0	0	0	0	0	1	13558	175	7	3		3	RP1L1	8	10466430	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	8623756	10466430	135897592	611	37291											
RP1L1	94137	broad.mit.edu	37	chr8	10467747	10467747	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagctaactgctccaggttCgagctcgccctctgctcctc	5	11	8	17	2	2	0	1	0	1	0	7	1	4	0	3	1	5	5	3	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:10467747C>T	uc003wtc.2	-	4	4090	c.3861G>A	c.(3859-3861)TCG>TCA	p.S1287S		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1287					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GCTCCAGGTTCGAGCTCGCCC	0.408													12	181					0	0	1	0	0		T	10467747	T	T	10467747	2	4	49	1	0	0	0	0	0	0	0	1	13558	871	31	1		1	RP1L1	8	10467747	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1317	10467747	135896275	612	37292											
EFHA2	286097	broad.mit.edu	37	chr8	16884826	16884826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcttgtggccgccaccccGggtgtctcctccactctgcg	2	10	11	18	3	3	0	0	0	3	0	5	0	4	0	6	2	1	1	6	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:16884826G>A	uc003wxd.2	+	1	80	c.38G>A	c.(37-39)CGG>CAG	p.R13Q		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	13						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		CCGCCACCCCGGGTGTCTCCT	0.657													4	39					0	0	1	0	0		A	16884826	A	A	16884826	3	1	49	1	0	0	0	0	1	0	0	0	4950	1116	39	1	40	1	EFHA2	8	16884826	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	6417079	16884826	129479196	613	37293											
CNOT7	29883	broad.mit.edu	37	chr8	17100550	17100550	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttgaagttcctggagggtAttctccttgctcattcataa	9	15	9	8	0	3	1	2	1	1	0	5	2	4	2	2	2	1	4	2	2	3	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:17100550A>G	uc003wxf.1	-	3	430	c.262T>C	c.(262-264)TAC>CAC	p.Y88H	CNOT7_uc003wxg.1_Missense_Mutation_p.Y88H|CNOT7_uc003wxh.1_Missense_Mutation_p.Y88H|CNOT7_uc003wxi.1_Missense_Mutation_p.Y88H	NM_013354	NP_037486	Q9UIV1	CNOT7_HUMAN	CCR4-NOT transcription complex, subunit 7	88					carbohydrate metabolic process|nuclear-transcribed mRNA poly(A) tail shortening	CCR4-NOT complex|cytoplasmic mRNA processing body|cytosol	nucleic acid binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(1)	1				Colorectal(111;0.0523)|COAD - Colon adenocarcinoma(73;0.209)		CCTGGAGGGTATTCTCCTTGC	0.333													11	121					0	0	1	0	0		G	17100550	G	G	17100550	3	3	49	1	0	0	0	0	1	0	0	0	3627	449	16	3	621	3	CNOT7	8	17100550	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	215724	17100550	129263472	614	37294											
MTMR7	9108	broad.mit.edu	37	chr8	17159727	17159727	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcactgccattaggtaaTctgtaactgactgtcggggc	8	12	10	11	1	2	1	1	1	1	0	3	1	2	1	2	3	2	2	2	3	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:17159727T>A	uc003wxm.2	-	13	1795	c.1556A>T	c.(1555-1557)GAT>GTT	p.D519V	MTMR7_uc003wxn.2_Missense_Mutation_p.D298V|MTMR7_uc011kya.1_Missense_Mutation_p.D153V|MTMR7_uc011kyb.1_Missense_Mutation_p.D110V	NM_004686	NP_004677	Q9Y216	MTMR7_HUMAN	myotubularin related protein 7	519							protein tyrosine phosphatase activity			skin(1)	1				Colorectal(111;0.112)		CATTAGGTAATCTGTAACTGA	0.448													5	139					0	0	1	0	0		A	17159727	A	A	17159727	3	1	49	1	0	0	0	0	1	0	0	0	9966	1435	50	5	434	5	MTMR7	8	17159727	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	59177	17159727	129204295	615	37295											
LZTS1	11178	broad.mit.edu	37	chr8	20110716	20110716	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcccttgtctgccttgttCgagtggcccagcttgctacc	3	12	12	14	1	1	0	0	0	1	0	2	1	1	0	4	2	4	3	4	2	1	5	rs141673059		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:20110716C>T	uc003wzr.2	-	2	837	c.726G>A	c.(724-726)TCG>TCA	p.S242S	LZTS1_uc010ltg.1_Silent_p.S242S	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	242					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		CTGCCTTGTTCGAGTGGCCCA	0.627													29	62					0	0	1	0	0		T	20110716	T	T	20110716	2	4	49	1	0	0	0	0	0	0	0	1	9156	871	31	1		1	LZTS1	8	20110716	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2950989	20110716	126253306	616	37296											
DOK2	9046	broad.mit.edu	37	chr8	21767412	21767412	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgccctctccagagacgcAgcgacggcctgcctcaaagg	8	6	12	15	3	2	1	1	0	1	1	3	3	2	1	4	2	3	2	4	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:21767412A>C	uc003wzy.1	-	5	742	c.649T>G	c.(649-651)TGC>GGC	p.C217G	DOK2_uc003wzx.1_Missense_Mutation_p.C217G|DOK2_uc003wzz.1_Missense_Mutation_p.C63G|DOK2_uc010lth.1_Missense_Mutation_p.C63G	NM_003974	NP_003965	O60496	DOK2_HUMAN	docking protein 2	217	IRS-type PTB.				blood coagulation|leukocyte migration	cytosol	identical protein binding|insulin receptor binding				0				Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		CCAGAGACGCAGCGACGGCCT	0.522													15	43					0	0	1	0	0		C	21767412	C	C	21767412	3	2	49	1	0	0	0	0	1	0	0	0	4703	188	7	5	593	5	DOK2	8	21767412	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1656696	21767412	124596610	617	37297											
HR	55806	broad.mit.edu	37	chr8	21978706	21978706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggggccctcggccagcacGgtcctctgctggggtctcag	4	7	15	15	2	2	0	1	0	2	0	5	0	3	0	3	6	2	2	3	6	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:21978706G>A	uc003xas.2	-	10	2904	c.2239C>T	c.(2239-2241)CGT>TGT	p.R747C	HR_uc003xat.2_Missense_Mutation_p.R747C	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	747							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		CGGCCAGCACGGTCCTCTGCT	0.627													19	211					0	0	1	0	0		A	21978706	A	A	21978706	3	1	49	1	0	0	0	0	1	0	0	0	7363	1116	39	1	1370	1	HR	8	21978706	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	211294	21978706	124385316	618	37298											
PHYHIP	9796	broad.mit.edu	37	chr8	22079025	22079025	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggatgaggtcctgggcGtggcggaagaccagctcccc	7	6	15	13	2	0	2	0	1	0	1	3	4	3	4	5	5	1	1	5	5	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:22079025G>A	uc003xbk.3	-	6	1528	c.834C>T	c.(832-834)CAC>CAT	p.H278H	PHYHIP_uc003xbj.3_Silent_p.H278H	NM_001099335	NP_001092805	Q92561	PHYIP_HUMAN	phytanoyl-CoA 2-hydroxylase interacting protein	278											0				Colorectal(74;0.0152)|COAD - Colon adenocarcinoma(73;0.0629)		GGTCCTGGGCGTGGCGGAAGA	0.632													22	90					0	0	1	0	0		A	22079025	A	A	22079025	2	1	49	1	0	0	0	0	0	0	0	1	11885	1136	40	1		1	PHYHIP	8	22079025	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	100319	22079025	124284997	619	37299											
POLR3D	661	broad.mit.edu	37	chr8	22105999	22105999	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactctctttggcagttcctCgatgaccccggcctgaggaa	7	10	11	13	2	1	2	0	2	1	0	4	5	2	3	4	3	0	2	4	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:22105999C>T	uc003xbl.2	+	6	575	c.492C>T	c.(490-492)CTC>CTT	p.L164L	POLR3D_uc003xbm.2_Silent_p.L164L|POLR3D_uc011kze.1_RNA	NM_001722	NP_001713	P05423	RPC4_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	164					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity				0				Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		GGCAGTTCCTCGATGACCCCG	0.522													15	199					0	0	1	0	0		T	22105999	T	T	22105999	2	4	49	1	0	0	0	0	0	0	0	1	12250	871	31	1		1	POLR3D	8	22105999	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	26974	22105999	124258023	620	37300											
POLR3D	661	broad.mit.edu	37	chr8	22106136	22106136	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccccaaggaagaggacaTggaggtggacatacctgctg	11	6	15	9	0	0	1	0	0	0	1	0	5	0	5	3	6	2	1	3	6	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:22106136T>C	uc003xbl.2	+	6	712	c.629T>C	c.(628-630)ATG>ACG	p.M210T	POLR3D_uc003xbm.2_Missense_Mutation_p.M210T|POLR3D_uc011kze.1_RNA	NM_001722	NP_001713	P05423	RPC4_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	210					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity				0				Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		GAAGAGGACATGGAGGTGGAC	0.527													10	152					0	0	1	0	0		C	22106136	C	C	22106136	3	2	49	1	0	0	0	0	1	0	0	0	12250	1464	51	3	647	3	POLR3D	8	22106136	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	137	22106136	124257886	621	37301											
KIAA1967	57805	broad.mit.edu	37	chr8	22476350	22476350	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctctctaggaaacctggaCctgctgccccctcctgggaa	7	10	9	15	0	2	0	0	0	2	0	4	3	3	3	5	3	3	1	5	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:22476350C>A	uc003xch.2	+	19	2480	c.2343C>A	c.(2341-2343)GAC>GAA	p.D781E	KIAA1967_uc003xci.2_Missense_Mutation_p.D781E|KIAA1967_uc003xcj.1_Missense_Mutation_p.D450E	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	781					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		GAAACCTGGACCTGCTGCCCC	0.607													12	181					2.23348e-06	2.35161e-06	1	1	0		A	22476350	A	A	22476350	3	1	49	1	0	0	0	0	1	0	0	0	8281	506	18	5	2413	5	KIAA1967	8	22476350	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	370214	22476350	123887672	622	37302											
ENTPD4	9583	broad.mit.edu	37	chr8	23294634	23294634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaaggctggatagtctctCgacacaggtcaaagtctcca	12	9	10	10	1	3	1	1	1	2	0	6	3	3	2	1	3	0	1	1	3	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:23294634C>T	uc003xdl.2	-	10	1351	c.1187G>A	c.(1186-1188)CGA>CAA	p.R396Q	ENTPD4_uc011kzu.1_Missense_Mutation_p.R388Q|ENTPD4_uc003xdm.2_Missense_Mutation_p.R388Q|ENTPD4_uc011kzv.1_Missense_Mutation_p.R396Q	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	396	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		GATAGTCTCTCGACACAGGTC	0.468													20	74					0	0	1	0	0		T	23294634	T	T	23294634	3	4	49	1	0	0	0	0	1	0	0	0	5149	884	31	1	679	1	ENTPD4	8	23294634	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	818284	23294634	123069388	623	37303											
ADAM7	8756	broad.mit.edu	37	chr8	24349501	24349501	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccactcgcctgcctgtcCtaaggaccagttcagggtca	7	9	11	14	1	2	0	2	0	0	0	4	1	3	1	5	3	1	1	5	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:24349501C>A	uc003xeb.2	+	14	1555	c.1442C>A	c.(1441-1443)CCT>CAT	p.P481H	ADAM7_uc003xec.2_Missense_Mutation_p.P253H	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	481	Disintegrin.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		CCTGCCTGTCCTAAGGACCAG	0.473													24	87					3.6726e-16	4.00477e-16	1	1	0		A	24349501	A	A	24349501	3	1	49	1	0	0	0	0	1	0	0	0	251	681	24	5	1496	5	ADAM7	8	24349501	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1054867	24349501	122014521	624	37304											
CHRNA2	1135	broad.mit.edu	37	chr8	27320543	27320543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtcggcaatgtagtgcaCaccttccagtgccttctgca	7	11	11	12	1	1	0	0	0	1	0	3	0	2	0	3	2	3	4	3	2	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:27320543C>T	uc010lur.2	-	6	2026	c.1417G>A	c.(1417-1419)GTG>ATG	p.V473M	CHRNA2_uc011lal.1_Missense_Mutation_p.V458M|CHRNA2_uc010lus.2_Missense_Mutation_p.V275M	NM_000742	NP_000733	Q15822	ACHA2_HUMAN	cholinergic receptor, nicotinic, alpha	473	Cytoplasmic.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)	1		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0208)|Epithelial(17;2.77e-10)|Colorectal(74;0.136)	Atracurium(DB00732)|Biperiden(DB00810)|Carbachol(DB00411)|Cisatracurium Besylate(DB00565)|Decamethonium(DB01245)|Dextromethorphan(DB00514)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Gallamine Triethiodide(DB00483)|Levallorphan(DB00504)|Mecamylamine(DB00657)|Metocurine(DB01336)|Metocurine Iodide(DB00416)|Mivacurium(DB01226)|Nicotine(DB00184)|Pancuronium(DB01337)|Pipecuronium(DB01338)|Rocuronium(DB00728)|Tubocurarine(DB01199)	ATGTAGTGCACACCTTCCAGT	0.642													14	169					0	0	1	0	0		T	27320543	T	T	27320543	3	4	49	1	0	0	0	0	1	0	0	0	3386	478	17	4	180	4	CHRNA2	8	27320543	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2971042	27320543	119043479	625	37305											
INTS9	55756	broad.mit.edu	37	chr8	28638343	28638343	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttttttcacttacccgTgaatatgacggtattgagac	10	17	7	7	2	1	3	1	3	0	1	1	4	1	3	1	1	1	1	1	1	5	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:28638343T>C	uc003xha.2	-	12	1566	c.1267A>G	c.(1267-1269)ACG>GCG	p.T423A	INTS9_uc011lav.1_Missense_Mutation_p.T399A|INTS9_uc011law.1_Missense_Mutation_p.T402A|INTS9_uc011lax.1_Missense_Mutation_p.T316A|INTS9_uc010lvc.2_RNA	NM_018250	NP_060720	Q9NV88	INT9_HUMAN	integrator complex subunit 9 isoform 1	423					snRNA processing	integrator complex	protein binding			central_nervous_system(1)|pancreas(1)	2		Ovarian(32;0.0439)		KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.152)		CACTTACCCGTGAATATGACG	0.502													4	65					0	0	1	0	0		C	28638343	C	C	28638343	3	2	49	1	0	0	0	0	1	0	0	0	7801	1696	59	3	733	3	INTS9	8	28638343	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1317800	28638343	117725679	626	37306											
HMBOX1	79618	broad.mit.edu	37	chr8	28906535	28906535	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccactcaaacagtgaTgatgtcgacgggaatgacta	13	7	13	8	2	1	3	1	3	0	0	2	6	1	5	1	3	1	0	1	3	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:28906535T>C	uc003xhd.3	+	9	1437	c.1095T>C	c.(1093-1095)GAT>GAC	p.D365D	HMBOX1_uc010lvd.2_Silent_p.D365D|HMBOX1_uc003xhc.3_Silent_p.D364D|HMBOX1_uc010lve.2_RNA|HMBOX1_uc003xhe.2_Silent_p.D365D|HMBOX1_uc011lay.1_Silent_p.D364D|HMBOX1_uc003xhf.2_Silent_p.D351D|HMBOX1_uc003xhg.2_Silent_p.D352D	NM_001135726	NP_001129198	Q6NT76	HMBX1_HUMAN	homeobox containing 1	365					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(32;0.0192)		KIRC - Kidney renal clear cell carcinoma(542;0.135)|Kidney(114;0.161)		CAAACAGTGATGATGTCGACG	0.517													10	236					0	0	1	0	0		C	28906535	C	C	28906535	2	2	49	1	0	0	0	0	0	0	0	1	7234	1461	51	3		3	HMBOX1	8	28906535	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	268192	28906535	117457487	627	37307											
DCTN6	10671	broad.mit.edu	37	chr8	30032612	30032612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaacaggacctcggacaGtgatccaccctaaagcaaga	14	8	8	11	1	0	2	0	1	0	1	2	4	1	4	3	2	2	1	3	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:30032612G>A	uc003xhy.2	+	3	187	c.100G>A	c.(100-102)GTG>ATG	p.V34M		NM_006571	NP_006562	O00399	DCTN6_HUMAN	dynactin 6	34						centrosome	transferase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.099)|Kidney(114;0.119)		ACCTCGGACAGTGATCCACCC	0.458													5	40					0	0	1	0	0		A	30032612	A	A	30032612	3	1	49	1	0	0	0	0	1	0	0	0	4314	1029	36	4	110	4	DCTN6	8	30032612	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1126077	30032612	116331410	628	37308											
WRN	7486	broad.mit.edu	37	chr8	30969166	30969166	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttactgctactgcaagttcTtcaatccgggaagacattgt	10	13	8	10	1	2	1	1	0	1	1	3	2	3	2	1	1	4	3	1	1	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:30969166T>C	uc003xio.3	+	19	2912	c.2124T>C	c.(2122-2124)TCT>TCC	p.S708S	WRN_uc010lvk.2_Silent_p.S175S	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	708	Helicase ATP-binding.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		CTGCAAGTTCTTCAATCCGGG	0.388			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				17	88					0	0	1	0	0		C	30969166	C	C	30969166	2	2	49	1	0	0	0	0	0	0	0	1	17428	1596	56	3		3	WRN	8	30969166	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	936554	30969166	115394856	629	37309											
WRN	7486	broad.mit.edu	37	chr8	30982058	30982058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaccttcttactgagatacGtaatgagaagtttcgattat	12	14	8	7	2	1	2	0	2	1	2	2	5	1	2	1	0	2	3	1	0	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:30982058G>A	uc003xio.3	+	22	3439	c.2651G>A	c.(2650-2652)CGT>CAT	p.R884H	WRN_uc010lvk.2_Missense_Mutation_p.R351H	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	884	Helicase C-terminal.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		ACTGAGATACGTAATGAGAAG	0.289			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				12	57					0	0	1	0	0		A	30982058	A	A	30982058	3	1	49	1	0	0	0	0	1	0	0	0	17428	1145	40	1	2733	1	WRN	8	30982058	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	12892	30982058	115381964	630	37310											
C8orf41	80185	broad.mit.edu	37	chr8	33369574	33369574	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaggaatcctgccacagaAccgcattcagtaacttgaag	13	9	9	10	1	1	2	1	1	0	1	2	3	2	3	3	1	3	3	3	1	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:33369574A>G	uc003xjl.3	-	1	1083	c.558T>C	c.(556-558)GGT>GGC	p.G186G	C8orf41_uc003xjk.3_Silent_p.G186G|C8orf41_uc010lvv.2_Silent_p.G186G|C8orf41_uc003xjm.3_Silent_p.G186G|C8orf41_uc003xjn.1_Silent_p.G186G	NM_025115	NP_079391	Q6NXR4	CH041_HUMAN	hypothetical protein LOC80185	186							binding				0				KIRC - Kidney renal clear cell carcinoma(67;0.0923)|Kidney(114;0.111)		CTGCCACAGAACCGCATTCAG	0.493													5	327					0	0	1	0	0		G	33369574	G	G	33369574	2	3	49	1	0	0	0	0	0	0	0	1	2430	30	2	3		3	C8orf41	8	33369574	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2387516	33369574	112994448	631	37311											
UNC5D	137970	broad.mit.edu	37	chr8	35606112	35606112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtcctccagacatgatcGtcaccactccctttgcattg	7	12	8	14	1	1	2	1	1	0	1	5	2	4	2	4	1	1	1	4	1	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:35606112G>A	uc003xjr.1	+	12	2162	c.1834G>A	c.(1834-1836)GTC>ATC	p.V612I	UNC5D_uc003xjs.1_Missense_Mutation_p.V607I|UNC5D_uc003xju.1_Missense_Mutation_p.V188I	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	612	ZU5.|Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		AGACATGATCGTCACCACTCC	0.493													30	136					0	0	1	0	0		A	35606112	A	A	35606112	3	1	49	1	0	0	0	0	1	0	0	0	17021	1145	40	1	1880	1	UNC5D	8	35606112	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2236538	35606112	110757910	632	37312											
STAR	6770	broad.mit.edu	37	chr8	38006175	38006175	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttaccgagtagagagctccgCcgccgaacctggttaatcca	10	8	10	13	4	0	1	0	0	0	1	2	4	2	1	6	1	3	3	6	1	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:38006175C>T	uc003xkv.1	-	2	426	c.162G>A	c.(160-162)CGG>CGA	p.R54R	STAR_uc010lwc.1_Intron	NM_001007243	NP_001007244	P49675	STAR_HUMAN	steroidogenic acute regulatory protein isoform	54					C21-steroid hormone biosynthetic process	mitochondrial intermembrane space	cholesterol transporter activity			ovary(1)	1	Colorectal(12;0.000442)	all_lung(54;0.0151)|Lung NSC(58;0.0295)		READ - Rectum adenocarcinoma(644;0.188)		GAGAGCTCCGCCGCCGAACCT	0.647													8	76					0	0	1	0	0		T	38006175	T	T	38006175	2	4	49	1	0	0	0	0	0	0	0	1	15279	726	26	2		2	STAR	8	38006175	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2400063	38006175	108357847	633	37313											
TACC1	6867	broad.mit.edu	37	chr8	38684796	38684796	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagaaatcagctggtgcCgaggtgaaaggtgagccaga	12	6	16	7	1	2	4	2	2	0	2	2	5	2	4	2	4	3	1	2	4	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:38684796C>T	uc010lwp.2	+	5	1942	c.1563C>T	c.(1561-1563)GCC>GCT	p.A521A	TACC1_uc011lby.1_Silent_p.A326A|TACC1_uc003xma.2_5'UTR|TACC1_uc003xlz.2_Silent_p.A326A|TACC1_uc003xmc.3_Silent_p.A325A|TACC1_uc011lbz.1_Silent_p.A537A|TACC1_uc003xmb.3_Silent_p.A476A|TACC1_uc003xme.1_Silent_p.A95A|TACC1_uc003xmd.1_Silent_p.A83A|TACC1_uc010lwo.1_Silent_p.A83A|TACC1_uc003xmf.3_Silent_p.A111A|TACC1_uc011lca.1_Silent_p.A533A|TACC1_uc011lcb.1_Silent_p.A326A|TACC1_uc011lcc.1_Silent_p.A326A|TACC1_uc011lcd.1_RNA|TACC1_uc003xmh.3_Silent_p.A338A|TACC1_uc010lwq.2_Silent_p.A338A	NM_006283	NP_006274	O75410	TACC1_HUMAN	transforming, acidic coiled-coil containing	521					cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)			CAGCTGGTGCCGAGGTGAAAG	0.468													18	90					0	0	1	0	0		T	38684796	T	T	38684796	2	4	49	1	0	0	0	0	0	0	0	1	15526	639	23	1		1	TACC1	8	38684796	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	678621	38684796	107679226	634	37314											
ANK1	286	broad.mit.edu	37	chr8	41572500	41572500	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggttcaaactcacttttccGgcagcattcgggtgtgcgtc	6	12	12	11	3	2	0	2	0	0	0	5	0	3	0	1	3	3	3	1	3	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:41572500G>A	uc003xok.2	-	15	1779	c.1695C>T	c.(1693-1695)GCC>GCT	p.A565A	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Silent_p.A565A|ANK1_uc003xoj.2_Silent_p.A565A|ANK1_uc003xol.2_Silent_p.A565A|ANK1_uc003xom.2_Silent_p.A598A	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	565	89 kDa domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TCACTTTTCCGGCAGCATTCG	0.587													19	78					0	0	1	0	0		A	41572500	A	A	41572500	2	1	49	1	0	0	0	0	0	0	0	1	620	1103	39	1		1	ANK1	8	41572500	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2887704	41572500	104791522	635	37315											
ANK1	286	broad.mit.edu	37	chr8	41573238	41573238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtttccacatggccctcacGggctgcaatgtgcagggggg	6	9	15	11	1	1	0	1	0	0	0	2	0	2	0	2	5	2	4	2	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:41573238G>A	uc003xok.2	-	14	1618	c.1534C>T	c.(1534-1536)CGT>TGT	p.R512C	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Missense_Mutation_p.R512C|ANK1_uc003xoj.2_Missense_Mutation_p.R512C|ANK1_uc003xol.2_Missense_Mutation_p.R512C|ANK1_uc003xom.2_Missense_Mutation_p.R545C	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	512	ANK 15.|89 kDa domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TGGCCCTCACGGGCTGCAATG	0.607													18	75					0	0	1	0	0		A	41573238	A	A	41573238	3	1	49	1	0	0	0	0	1	0	0	0	620	1116	39	1	4581	1	ANK1	8	41573238	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	738	41573238	104790784	636	37316											
MYST3	7994	broad.mit.edu	37	chr8	41834766	41834766	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttctgatgatgatgatgCtgattggctggaaagagtga	10	14	13	4	0	2	7	0	6	2	1	2	8	2	8	0	2	1	2	0	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:41834766C>A	uc010lxb.2	-	8	1667	c.1123G>T	c.(1123-1125)GCA>TCA	p.A375S	MYST3_uc010lxc.2_Missense_Mutation_p.A375S|MYST3_uc003xon.3_Missense_Mutation_p.A375S|MYST3_uc010lxd.2_Missense_Mutation_p.A375S	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	375	Poly-Ser.|Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			GATGATGATGCTGATTGGCTG	0.428													5	145					0.014758	0.0149413	1	1	0		A	41834766	A	A	41834766	3	1	49	1	0	0	0	0	1	0	0	0	10122	797	28	5	4935	5	MYST3	8	41834766	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	261528	41834766	104529256	637	37317											
IKBKB	3551	broad.mit.edu	37	chr8	42173805	42173805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaggggcacggatcccaCgtatgggcccaatggctgct	9	6	14	12	2	0	1	0	0	0	1	1	2	1	2	2	5	1	4	2	5	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:42173805C>T	uc003xow.1	+	10	1055	c.878C>T	c.(877-879)ACG>ATG	p.T293M	IKBKB_uc003xov.2_Missense_Mutation_p.T293M|IKBKB_uc010lxh.1_Missense_Mutation_p.T188M|IKBKB_uc011lco.1_RNA|IKBKB_uc010lxj.1_Missense_Mutation_p.T70M|IKBKB_uc003xox.1_Missense_Mutation_p.T14M|IKBKB_uc011lcp.1_RNA|IKBKB_uc011lcq.1_Missense_Mutation_p.T291M|IKBKB_uc010lxi.1_RNA|IKBKB_uc011lcr.1_Missense_Mutation_p.T234M	NM_001556	NP_001547	O14920	IKKB_HUMAN	inhibitor of nuclear factor kappa B kinase beta	293	Protein kinase.				anti-apoptosis|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|membrane raft	ATP binding|identical protein binding|IkappaB kinase activity			breast(3)|ovary(2)|lung(1)|skin(1)	7	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;6.21e-12)|Lung NSC(13;1.04e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;1.37e-10)|Colorectal(10;0.00102)|OV - Ovarian serous cystadenocarcinoma(14;0.00168)|Lung(22;0.00467)|LUSC - Lung squamous cell carcinoma(45;0.024)|COAD - Colon adenocarcinoma(11;0.0264)		Arsenic trioxide(DB01169)|Auranofin(DB00995)	ACGGATCCCACGTATGGGCCC	0.572													11	49					0	0	1	0	0		T	42173805	T	T	42173805	3	4	49	1	0	0	0	0	1	0	0	0	7627	536	19	1	912	1	IKBKB	8	42173805	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	339039	42173805	104190217	638	37318											
PRKDC	5591	broad.mit.edu	37	chr8	48746928	48746928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgggtcagtgctgctccCggtcagccaatcaaatgagc	9	7	12	13	2	3	1	3	1	0	0	4	1	4	1	2	2	5	2	2	2	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:48746928C>T	uc003xqi.2	-	60	8038	c.7981G>A	c.(7981-7983)GGG>AGG	p.G2661R	PRKDC_uc003xqj.2_Missense_Mutation_p.G2661R|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2661	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				GTGCTGCTCCCGGTCAGCCAA	0.562								NHEJ					7	126					0	0	1	0	0		T	48746928	T	T	48746928	3	4	49	1	0	0	0	0	1	0	0	0	12543	652	23	1	4517	1	PRKDC	8	48746928	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	6573123	48746928	97617094	639	37319											
MCM4	4173	broad.mit.edu	37	chr8	48887453	48887453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaggccaaacgcctccatCgggaagctctgaagcagtct	12	6	11	12	2	2	2	0	1	2	1	4	3	3	3	3	2	3	2	3	2	4	0	rs149597772		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:48887453C>T	uc003xqk.1	+	15	2391	c.2296C>T	c.(2296-2298)CGG>TGG	p.R766W	MCM4_uc003xql.1_Missense_Mutation_p.R766W|MCM4_uc011ldi.1_Missense_Mutation_p.R753W	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	766					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				ACGCCTCCATCGGGAAGCTCT	0.453													9	97					0	0	1	0	0		T	48887453	T	T	48887453	3	4	49	1	0	0	0	0	1	0	0	0	9407	875	31	1	2350	1	MCM4	8	48887453	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	140525	48887453	97476569	640	37320											
NPBWR1	2831	broad.mit.edu	37	chr8	53852656	53852656	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtgctgtacgtgttgctGcgggcgccccgcatgaagac	5	8	15	13	5	0	2	0	1	0	1	0	2	0	2	3	1	4	5	3	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:53852656G>A	uc011ldu.1	+	1	189	c.189G>A	c.(187-189)CTG>CTA	p.L63L		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	63	Cytoplasmic (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				ACGTGTTGCTGCGGGCGCCCC	0.667													5	38					0	0	1	0	0		A	53852656	A	A	53852656	2	1	49	1	0	0	0	0	0	0	0	1	10587	1306	46	2		2	NPBWR1	8	53852656	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4965203	53852656	92511366	641	37321											
OPRK1	4986	broad.mit.edu	37	chr8	54141891	54141891	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcccatcgatgtccctcAggtaagcaggatcctgaact	10	10	8	13	1	2	1	2	1	0	0	6	3	5	2	3	2	2	2	3	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:54141891A>G	uc003xrh.1	-	3	1484	c.1109T>C	c.(1108-1110)CTG>CCG	p.L370P	OPRK1_uc003xri.1_Missense_Mutation_p.L370P|OPRK1_uc010lyc.1_Missense_Mutation_p.L281P	NM_000912	NP_000903	P41145	OPRK_HUMAN	opioid receptor, kappa 1	370	Cytoplasmic (Potential).				behavior|immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception|synaptic transmission|viral genome replication	integral to plasma membrane	kappa-opioid receptor activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Buprenorphine(DB00921)|Butorphanol(DB00611)|Cocaine(DB00907)|Codeine(DB00318)|Dezocine(DB01209)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Meperidine(DB00454)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Tramadol(DB00193)	GATGTCCCTCAGGTAAGCAGG	0.478													10	104					0	0	1	0	0		G	54141891	G	G	54141891	3	3	49	1	0	0	0	0	1	0	0	0	10904	188	7	3	37	3	OPRK1	8	54141891	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	289235	54141891	92222131	642	37322											
MOS	4342	broad.mit.edu	37	chr8	57025820	57025820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggcgcggtgggtgtatgtgCctcctagagggtaagagggt	6	9	20	6	2	0	2	0	0	0	2	1	2	1	2	2	5	1	2	2	5	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:57025820C>T	uc011leb.1	-	1	722	c.722G>A	c.(721-723)GGC>GAC	p.G241D		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	241	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			GGTGTATGTGCCTCCTAGAGG	0.517													11	69					0	0	1	0	0		T	57025820	T	T	57025820	3	4	49	1	0	0	0	0	1	0	0	0	9730	739	26	2	321	2	MOS	8	57025820	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2883929	57025820	89338202	643	37323											
CHD7	55636	broad.mit.edu	37	chr8	61654351	61654351	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatggtggcagtggtggCggtcagatgggtgtctaccc	5	9	16	11	1	2	1	1	0	1	1	2	1	2	1	3	6	1	1	3	6	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:61654351C>T	uc003xue.2	+	2	837	c.360C>T	c.(358-360)GGC>GGT	p.G120G		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	120					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GCAGTGGTGGCGGTCAGATGG	0.607													3	26					0	0	1	0	0		T	61654351	T	T	61654351	2	4	49	1	0	0	0	0	0	0	0	1	3333	755	27	1		1	CHD7	8	61654351	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4628531	61654351	84709671	644	37324											
RRS1	23212	broad.mit.edu	37	chr8	67342063	67342063	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggtctccaccgcctctgtgGggcgctttcaggagcgcctc	4	9	13	15	3	3	0	1	0	2	0	5	1	3	1	4	4	1	1	4	4	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:67342063G>T	uc003xwa.2	+	1	801	c.697G>T	c.(697-699)GGG>TGG	p.G233W	ADHFE1_uc003xwb.3_5'Flank|ADHFE1_uc003xwd.3_5'Flank|ADHFE1_uc003xwc.3_5'Flank|ADHFE1_uc003xwe.3_5'Flank|ADHFE1_uc003xwf.3_5'Flank|ADHFE1_uc011les.1_5'Flank|ADHFE1_uc011leq.1_5'Flank|ADHFE1_uc011ler.1_5'Flank	NM_015169	NP_055984	Q15050	RRS1_HUMAN	homolog of yeast ribosome biogenesis regulatory	233					mitotic metaphase plate congression|ribosome biogenesis	condensed nuclear chromosome|nucleolus					0		Lung NSC(129;0.197)	Epithelial(68;0.0391)|all cancers(69;0.0898)|BRCA - Breast invasive adenocarcinoma(89;0.111)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			CGCCTCTGTGGGGCGCTTTCA	0.642													3	27					0.00909568	0.00923047	1	1	0		T	67342063	T	T	67342063	3	4	49	1	0	0	0	0	1	0	0	0	13717	1232	43	5	699	5	RRS1	8	67342063	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5687712	67342063	79021959	645	37325											
ARFGEF1	10565	broad.mit.edu	37	chr8	68140265	68140265	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttattcttcccatgttgTaatatgatatttctactatt	10	21	3	7	0	3	1	0	1	3	0	4	1	4	1	1	0	1	2	1	0	6	11			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:68140265T>C	uc003xxo.1	-	25	3914	c.3524A>G	c.(3523-3525)TAC>TGC	p.Y1175C	ARFGEF1_uc003xxl.1_Missense_Mutation_p.Y629C|ARFGEF1_uc003xxn.1_Missense_Mutation_p.Y158C	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	1175					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			TCCCATGTTGTAATATGATAT	0.333													9	66					0	0	1	0	0		C	68140265	C	C	68140265	3	2	49	1	0	0	0	0	1	0	0	0	852	1638	57	3	2085	3	ARFGEF1	8	68140265	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	798202	68140265	78223757	646	37326											
PREX2	80243	broad.mit.edu	37	chr8	69033268	69033268	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggactcttgctcagaacatCaggaaatttgttgaaggtca	12	11	10	8	1	4	2	3	1	1	1	4	4	4	4	0	3	2	2	0	3	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:69033268C>T	uc003xxv.1	+	30	3735	c.3708C>T	c.(3706-3708)ATC>ATT	p.I1236I		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1236					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CTCAGAACATCAGGAAATTTG	0.398													16	65					0	0	1	0	0		T	69033268	T	T	69033268	2	4	49	1	0	0	0	0	0	0	0	1	12499	816	29	4		4	PREX2	8	69033268	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	893003	69033268	77330754	647	37327											
TERF1	7013	broad.mit.edu	37	chr8	73934527	73934527	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaatatttggtgatccaaAttctcatatggtaattattt	14	17	6	4	0	1	2	1	1	1	1	3	2	2	2	1	2	0	1	1	2	7	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:73934527A>C	uc003xzd.2	+	4	639	c.614A>C	c.(613-615)AAT>ACT	p.N205T	TERF1_uc003xze.2_Missense_Mutation_p.N205T	NM_017489	NP_059523	P54274	TERF1_HUMAN	telomeric repeat binding factor 1 isoform 1	205	TRFH dimerization.				age-dependent telomere shortening|cell division|G2/M transition of mitotic cell cycle|induction of apoptosis|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of telomere maintenance via semi-conservative replication|negative regulation of telomere maintenance via telomerase|positive regulation of microtubule polymerization|positive regulation of mitosis|positive regulation of mitotic cell cycle|protein homooligomerization|regulation of transcription, DNA-dependent|telomere maintenance via telomerase|telomere maintenance via telomerase|telomere maintenance via telomere shortening	chromosome, telomeric region|cytoplasm|nuclear telomere cap complex|nucleoplasm|nucleus|spindle	caspase activator activity|DNA bending activity|double-stranded telomeric DNA binding|identical protein binding|microtubule binding|protein heterodimerization activity|protein homodimerization activity|telomerase inhibitor activity|telomeric DNA binding			ovary(1)|lung(1)|skin(1)	3	Breast(64;0.218)		Epithelial(68;0.0984)			GGTGATCCAAATTCTCATATG	0.299													12	63					0	0	1	0	0		C	73934527	C	C	73934527	3	2	49	1	0	0	0	0	1	0	0	0	15786	101	4	5	628	5	TERF1	8	73934527	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4901259	73934527	72429495	648	37328											
ZFHX4	79776	broad.mit.edu	37	chr8	77764144	77764144	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctgtaaacagcaaagatAcccatttagatgccaaagaa	18	7	7	9	0	0	3	0	0	0	3	0	3	0	3	2	0	5	3	2	0	7	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:77764144A>G	uc003yav.2	+	10	5239	c.4852A>G	c.(4852-4854)ACC>GCC	p.T1618A	ZFHX4_uc003yau.1_Missense_Mutation_p.T1663A|ZFHX4_uc003yaw.1_Missense_Mutation_p.T1618A	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1618						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CAGCAAAGATACCCATTTAGA	0.448										HNSCC(33;0.089)			3	63					0	0	1	0	0		G	77764144	G	G	77764144	3	3	49	1	0	0	0	0	1	0	0	0	17660	391	14	3	5021	3	ZFHX4	8	77764144	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3829617	77764144	68599878	649	37329											
CNGB3	54714	broad.mit.edu	37	chr8	87683188	87683188	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaccagtttgtgggctggcTtcgggtgaggagagatctcc	6	12	15	8	1	1	2	0	1	1	1	3	4	1	3	2	4	1	3	2	4	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:87683188T>G	uc003ydx.2	-	4	523	c.477A>C	c.(475-477)GAA>GAC	p.E159D	CNGB3_uc010maj.2_Missense_Mutation_p.E21D	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	159	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						GTGGGCTGGCTTCGGGTGAGG	0.453													19	266					0	0	1	0	0		G	87683188	G	G	87683188	3	3	49	1	0	0	0	0	1	0	0	0	3604	1606	56	5	2012	5	CNGB3	8	87683188	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	9919044	87683188	58680834	650	37330											
CNBD1	168975	broad.mit.edu	37	chr8	87951895	87951895	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taacaatatagctgtccatgTtcagagagcacatggtggcc	12	10	10	9	0	1	1	1	0	0	1	2	2	2	1	2	2	3	3	2	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:87951895T>G	uc003ydy.2	+	4	392	c.344T>G	c.(343-345)GTT>GGT	p.V115G		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	115										ovary(3)	3						GCTGTCCATGTTCAGAGAGCA	0.333													4	94					0	0	1	0	0		G	87951895	G	G	87951895	3	3	49	1	0	0	0	0	1	0	0	0	3594	1725	60	5	358	5	CNBD1	8	87951895	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	268707	87951895	58412127	651	37331											
RBM12B	389677	broad.mit.edu	37	chr8	94746270	94746270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctgaaatgctcctgaggcGgccgcctgaaatgctcctgg	7	8	13	13	2	0	3	0	3	0	0	2	3	2	3	5	3	2	2	5	3	2	0	rs17853904		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:94746270G>A	uc003yfz.2	-	3	2562	c.2369C>T	c.(2368-2370)CCG>CTG	p.P790L		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	790							nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			CTCCTGAGGCGGCCGCCTGAA	0.647													13	62					0	0	1	0	0		A	94746270	A	A	94746270	3	1	49	1	0	0	0	0	1	0	0	0	13139	1116	39	1	640	1	RBM12B	8	94746270	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	6794375	94746270	51617752	652	37332											
RAD54B	25788	broad.mit.edu	37	chr8	95419749	95419749	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacttggtttacaaacactTttgaaagggttagagaaaca	16	11	9	5	0	0	2	0	1	0	1	0	4	0	2	0	2	4	2	0	2	6	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:95419749T>G	uc003ygk.2	-	5	797	c.699A>C	c.(697-699)AAA>AAC	p.K233N	RAD54B_uc010may.1_Missense_Mutation_p.K40N|RAD54B_uc003ygl.1_RNA	NM_012415	NP_036547	O95073	FSBP_HUMAN	RAD54 homolog B	Error:Variant_position_missing_in_O95073_after_alignment					double-strand break repair via homologous recombination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA translocase activity|protein binding			kidney(2)|lung(1)|skin(1)	4	Breast(36;4.5e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00217)			TACAAACACTTTTGAAAGGGT	0.393								Direct_reversal_of_damage|Homologous_recombination					7	95					0	0	1	0	0		G	95419749	G	G	95419749	3	3	49	1	0	0	0	0	1	0	0	0	13017	1838	64	5	2077	5	RAD54B	8	95419749	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	673479	95419749	50944273	653	37333											
OSR2	116039	broad.mit.edu	37	chr8	99961546	99961546	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgactttgccaatttggcGgtggctgccacgcaagagga	8	11	13	9	2	0	2	0	1	0	1	0	3	0	3	2	4	2	2	2	4	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:99961546G>A	uc003yir.2	+	2	901	c.366G>A	c.(364-366)GCG>GCA	p.A122A	OSR2_uc010mbn.2_Silent_p.A122A|OSR2_uc003yiq.2_Silent_p.A122A|OSR2_uc011lgx.1_Silent_p.A243A	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	122					bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding			central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			CCAATTTGGCGGTGGCTGCCA	0.607													6	139					0	0	1	0	0		A	99961546	A	A	99961546	2	1	49	1	0	0	0	0	0	0	0	1	11313	1103	39	1		1	OSR2	8	99961546	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4541797	99961546	46402476	654	37334											
VPS13B	157680	broad.mit.edu	37	chr8	100115270	100115270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatgttgaagatgatatcGtcctttccgtcaatatcact	12	15	6	8	2	2	3	2	2	0	1	5	3	4	3	2	0	0	1	2	0	6	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:100115270G>A	uc003yiv.2	+	5	613	c.502G>A	c.(502-504)GTC>ATC	p.V168I	VPS13B_uc003yiw.2_Missense_Mutation_p.V168I|VPS13B_uc003yit.2_Missense_Mutation_p.V168I|VPS13B_uc003yiu.1_Missense_Mutation_p.V168I|VPS13B_uc003yis.2_Missense_Mutation_p.V168I|VPS13B_uc011lgy.1_Missense_Mutation_p.V44I	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	168					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AGATGATATCGTCCTTTCCGT	0.328													37	126					0	0	1	0	0		A	100115270	A	A	100115270	3	1	49	1	0	0	0	0	1	0	0	0	17216	1145	40	1	516	1	VPS13B	8	100115270	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	153724	100115270	46248752	655	37335											
VPS13B	157680	broad.mit.edu	37	chr8	100523354	100523354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aactacaaaacttctagatgGcactcatcagcagcatggat	15	9	7	10	0	3	1	2	0	1	1	3	2	3	2	0	2	5	3	0	2	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:100523354G>A	uc003yiv.2	+	29	4433	c.4322G>A	c.(4321-4323)GGC>GAC	p.G1441D	VPS13B_uc003yiw.2_Missense_Mutation_p.G1416D|VPS13B_uc003yix.1_Missense_Mutation_p.G911D	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1441					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CTTCTAGATGGCACTCATCAG	0.338													7	90					0	0	1	0	0		A	100523354	A	A	100523354	3	1	49	1	0	0	0	0	1	0	0	0	17216	1203	42	2	4626	2	VPS13B	8	100523354	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	408084	100523354	45840668	656	37336											
OXR1	55074	broad.mit.edu	37	chr8	107719362	107719362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	taaaattacatctgctgatgGacacatagaaagtaagtgtt	16	12	8	5	0	1	2	0	1	1	1	1	3	1	3	0	1	2	3	0	1	6	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:107719362G>A	uc011lht.1	+	8	1715	c.1616G>A	c.(1615-1617)GGA>GAA	p.G539E	OXR1_uc003ymf.2_Missense_Mutation_p.G538E|OXR1_uc011lhu.1_Missense_Mutation_p.G531E|OXR1_uc010mcg.2_Intron|OXR1_uc010mch.2_Missense_Mutation_p.G236E|OXR1_uc003ymg.1_Missense_Mutation_p.G471E|OXR1_uc003ymi.1_Missense_Mutation_p.G450E	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	539					cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			TCTGCTGATGGACACATAGAA	0.368													7	40					0	0	1	0	0		A	107719362	A	A	107719362	3	1	49	1	0	0	0	0	1	0	0	0	11353	1174	41	4	1846	4	OXR1	8	107719362	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	7196008	107719362	38644660	657	37337											
PKHD1L1	93035	broad.mit.edu	37	chr8	110474074	110474074	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgaccaatttggaggctgCgttatgtttcatgctcctgt	7	15	11	8	1	1	1	1	1	0	0	2	2	2	2	2	2	2	4	2	2	2	3	rs149284269	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:110474074C>T	uc003yne.2	+	48	7424	c.7320C>T	c.(7318-7320)TGC>TGT	p.C2440C		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2440	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity	p.C2442C(1)		ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTGGAGGCTGCGTTATGTTTC	0.403										HNSCC(38;0.096)			5	24					0	0	1	0	0		T	110474074	T	T	110474074	2	4	49	1	0	0	0	0	0	0	0	1	11991	776	27	1		1	PKHD1L1	8	110474074	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2754712	110474074	35889948	658	37338											
HAS2	3037	broad.mit.edu	37	chr8	122627114	122627114	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaattcttgattgtaccaAtcttccacaaactcatgcaa	15	13	3	10	0	3	1	1	1	2	0	4	1	4	1	2	0	3	2	2	0	6	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:122627114A>C	uc003yph.2	-	4	1432	c.894T>G	c.(892-894)GAT>GAG	p.D298E		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	298	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			GATTGTACCAATCTTCCACAA	0.448													20	206					0	0	1	0	0		C	122627114	C	C	122627114	3	2	49	1	0	0	0	0	1	0	0	0	6978	98	4	5	768	5	HAS2	8	122627114	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	12153040	122627114	23736908	659	37339											
ZHX2	22882	broad.mit.edu	37	chr8	123965292	123965292	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagaccagttggccatcgcGgcctcccgacacggtcgcac	9	5	11	16	5	0	1	0	0	0	1	3	2	1	1	4	3	0	2	4	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:123965292G>A	uc003ypk.1	+	3	2109	c.1542G>A	c.(1540-1542)GCG>GCA	p.A514A		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	514						cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			TGGCCATCGCGGCCTCCCGAC	0.537													4	88					0	0	1	0	0		A	123965292	A	A	123965292	2	1	49	1	0	0	0	0	0	0	0	1	17701	1103	39	1		1	ZHX2	8	123965292	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1338178	123965292	22398730	660	37340											
ANXA13	312	broad.mit.edu	37	chr8	124696861	124696861	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcttacctcggccctggTcacgactatgcgaatcaacg	8	10	10	13	4	3	0	2	0	1	0	4	2	3	0	2	2	3	0	2	2	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:124696861T>C	uc003yqu.2	-	10	893	c.820A>G	c.(820-822)ACC>GCC	p.T274A	ANXA13_uc003yqt.2_Missense_Mutation_p.T315A	NM_004306	NP_004297	P27216	ANX13_HUMAN	annexin A13 isoform a	274	Annexin 4.				cell differentiation	plasma membrane	calcium ion binding|calcium-dependent phospholipid binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(37;2.06e-11)|Ovarian(258;0.00579)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00288)			TCGGCCCTGGTCACGACTATG	0.502													3	104					0	0	1	0	0		C	124696861	C	C	124696861	3	2	49	1	0	0	0	0	1	0	0	0	717	1667	58	3	138	3	ANXA13	8	124696861	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	731569	124696861	21667161	661	37341											
ASAP1	50807	broad.mit.edu	37	chr8	131124486	131124486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgctgaatcctggcagtGccagcttgtcctggggggag	6	9	17	9	0	0	1	0	1	0	0	2	3	2	2	3	4	3	3	3	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:131124486G>A	uc003yta.1	-	23	2283	c.2255C>T	c.(2254-2256)GCA>GTA	p.A752V	ASAP1_uc003ysz.1_Missense_Mutation_p.A563V|ASAP1_uc011liw.1_Missense_Mutation_p.A745V	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	752					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TCCTGGCAGTGCCAGCTTGTC	0.552													10	81					0	0	1	0	0		A	131124486	A	A	131124486	3	1	49	1	0	0	0	0	1	0	0	0	1011	1319	46	2	1162	2	ASAP1	8	131124486	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	6427625	131124486	15239536	662	37342											
KCNQ3	3786	broad.mit.edu	37	chr8	133150155	133150155	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctgaaggtactttatcctGgaaagcatgtcgagatgccc	10	11	11	9	1	1	2	0	1	1	1	3	4	2	3	2	2	3	2	2	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:133150155G>A	uc003ytj.2	-	12	1902	c.1677C>T	c.(1675-1677)TCC>TCT	p.S559S	KCNQ3_uc010mdt.2_Silent_p.S559S	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	559					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			ACTTTATCCTGGAAAGCATGT	0.458													21	95					0	0	1	0	0		A	133150155	A	A	133150155	2	1	49	1	0	0	0	0	0	0	0	1	8100	1335	47	4		4	KCNQ3	8	133150155	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2025669	133150155	13213867	663	37343											
KCNQ3	3786	broad.mit.edu	37	chr8	133192508	133192508	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcgcaggcttcgcagggAggtggccagaacattgcctt	9	7	15	10	2	0	1	0	0	0	1	1	3	0	2	2	4	3	3	2	4	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:133192508A>G	uc003ytj.2	-	4	898	c.673T>C	c.(673-675)TCC>CCC	p.S225P	KCNQ3_uc010mdt.2_Missense_Mutation_p.S225P	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	225					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			CTTCGCAGGGAGGTGGCCAGA	0.597													12	104					0	0	1	0	0		G	133192508	G	G	133192508	3	3	49	1	0	0	0	0	1	0	0	0	8100	304	11	3	1993	3	KCNQ3	8	133192508	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	42353	133192508	13171514	664	37344											
PHF20L1	51105	broad.mit.edu	37	chr8	133836255	133836255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctaacccacaggaatatCgaaaacagaaaaaaaagtga	21	4	6	10	1	0	2	0	1	0	1	1	4	0	3	3	1	2	0	3	1	9	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:133836255C>T	uc003ytt.2	+	13	1911	c.1586C>T	c.(1585-1587)TCG>TTG	p.S529L	PHF20L1_uc003yts.2_Missense_Mutation_p.S529L|PHF20L1_uc011lja.1_Missense_Mutation_p.S503L|PHF20L1_uc003ytu.1_RNA	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	529							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			ACAGGAATATCGAAAACAGAA	0.303													3	63					0	0	1	0	0		T	133836255	T	T	133836255	3	4	49	1	0	0	0	0	1	0	0	0	11851	893	31	1	1638	1	PHF20L1	8	133836255	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	643747	133836255	12527767	665	37345											
TG	7038	broad.mit.edu	37	chr8	133883659	133883659	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctacattaacagcacagacaCctcctacctccctcagtgtc	11	9	4	17	0	1	1	1	0	0	1	4	1	3	1	4	0	4	1	4	0	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:133883659C>G	uc003ytw.2	+	4	382	c.341C>G	c.(340-342)ACC>AGC	p.T114S		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	114	Thyroglobulin type-1 2.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AGCACAGACACCTCCTACCTC	0.517													8	142					0	0	1	0	0		G	133883659	G	G	133883659	3	3	49	1	0	0	0	0	1	0	0	0	15838	507	18	5	355	5	TG	8	133883659	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	47404	133883659	12480363	666	37346											
TG	7038	broad.mit.edu	37	chr8	133953742	133953742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtcttcttgcatgcgacCgtgatctgtgttgcgatggc	4	15	12	10	3	4	1	0	1	4	0	4	3	4	1	1	1	3	2	1	1	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:133953742C>T	uc003ytw.2	+	26	5229	c.5188C>T	c.(5188-5190)CGT>TGT	p.R1730C	TG_uc010mdw.2_Missense_Mutation_p.R489C|TG_uc011ljb.1_Intron	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1730	Type IIIB.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TGCATGCGACCGTGATCTGTG	0.517													24	77					0	0	1	0	0		T	133953742	T	T	133953742	3	4	49	1	0	0	0	0	1	0	0	0	15838	652	23	1	5290	1	TG	8	133953742	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	70083	133953742	12410280	667	37347											
SLA	6503	broad.mit.edu	37	chr8	134050798	134050798	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtaaggtggtgatgagaAgaatgagctctttctcttgc	12	12	12	5	0	2	4	0	3	2	2	3	5	2	4	0	2	2	2	0	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:134050798A>C	uc003ytz.2	-	9	1634	c.802T>G	c.(802-804)TTC>GTC	p.F268V	TG_uc003ytw.2_Intron|TG_uc010mdw.2_Intron|TG_uc011ljb.1_Intron|TG_uc011ljc.1_Intron|SLA_uc011lje.1_Missense_Mutation_p.F285V|SLA_uc011ljf.1_Missense_Mutation_p.F160V|SLA_uc011ljg.1_Missense_Mutation_p.F241V|SLA_uc011ljd.1_Missense_Mutation_p.F308V	NM_001045556	NP_001039021	Q13239	SLAP1_HUMAN	Src-like-adaptor isoform a	268	SLA C-terminal.					endosome	SH3/SH2 adaptor activity			lung(1)|liver(1)	2	all_epithelial(106;3.51e-21)|Lung NSC(106;4.24e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0279)|Breast(495;0.037)	BRCA - Breast invasive adenocarcinoma(115;0.000701)			GGTGATGAGAAGAATGAGCTC	0.463													17	159					0	0	1	0	0		C	134050798	C	C	134050798	3	2	49	1	0	0	0	0	1	0	0	0	14388	72	3	5	32	5	SLA	8	134050798	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	97056	134050798	12313224	668	37348											
ZFAT	57623	broad.mit.edu	37	chr8	135614834	135614834	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttgtcctgtgggtcatgCgcgtctcggatgtgcttgat	3	16	13	9	3	3	1	1	1	2	0	5	2	4	2	1	2	2	1	1	2	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:135614834C>T	uc003yup.2	-	6	1303	c.1128G>A	c.(1126-1128)GCG>GCA	p.A376A	ZFAT_uc003yun.2_Silent_p.A364A|ZFAT_uc003yuo.2_Silent_p.A364A|ZFAT_uc010meh.2_Silent_p.A364A|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Silent_p.A364A|ZFAT_uc010mej.2_Silent_p.A314A|ZFAT_uc003yur.2_Silent_p.A364A	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	376	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			GTGGGTCATGCGCGTCTCGGA	0.552													19	82					0	0	1	0	0		T	135614834	T	T	135614834	2	4	49	1	0	0	0	0	0	0	0	1	17657	755	27	1		1	ZFAT	8	135614834	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1564036	135614834	10749188	669	37349											
COL22A1	169044	broad.mit.edu	37	chr8	139833603	139833603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacagcatctttcatggcacCcacagcgttgtactcgactg	9	10	9	13	2	2	0	1	0	1	0	3	2	2	0	1	1	3	4	1	1	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:139833603C>T	uc003yvd.2	-	7	1468	c.1021G>A	c.(1021-1023)GGT>AGT	p.G341S		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	341	TSP N-terminal.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			TTCATGGCACCCACAGCGTTG	0.577										HNSCC(7;0.00092)			15	149					0	0	1	0	0		T	139833603	T	T	139833603	3	4	49	1	0	0	0	0	1	0	0	0	3684	623	22	4	4095	4	COL22A1	8	139833603	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4218769	139833603	6530419	670	37350											
TSNARE1	203062	broad.mit.edu	37	chr8	143381988	143381988	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatcagccagctcggcAaacggggcctggggactctg	8	7	13	13	2	4	0	3	0	1	0	5	1	4	1	2	5	3	2	2	5	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:143381988A>G	uc003ywk.2	-	10	1267	c.1149T>C	c.(1147-1149)TTT>TTC	p.F383F	TSNARE1_uc011lju.1_Silent_p.F382F|TSNARE1_uc003ywj.2_Silent_p.F384F|TSNARE1_uc003ywl.3_Silent_p.F164F	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	383					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CCAGCTCGGCAAACGGGGCCT	0.562													5	111					0	0	1	0	0		G	143381988	G	G	143381988	2	3	49	1	0	0	0	0	0	0	0	1	16656	127	5	3		3	TSNARE1	8	143381988	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3548385	143381988	2982034	671	37351											
TSNARE1	203062	broad.mit.edu	37	chr8	143425535	143425535	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcaggtccacaacgtcGcggcgacagtagcccagcgc	8	6	12	15	5	1	0	1	0	0	0	3	1	2	0	2	2	4	2	2	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:143425535G>A	uc003ywk.2	-	4	655	c.537C>T	c.(535-537)CGC>CGT	p.R179R	TSNARE1_uc011lju.1_Silent_p.R179R|TSNARE1_uc003ywj.2_Silent_p.R179R|TSNARE1_uc003ywl.3_Intron	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	179					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CCACAACGTCGCGGCGACAGT	0.687													21	70					0	0	1	0	0		A	143425535	A	A	143425535	2	1	49	1	0	0	0	0	0	0	0	1	16656	1074	38	1		1	TSNARE1	8	143425535	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	43547	143425535	2938487	672	37352											
ARC	23237	broad.mit.edu	37	chr8	143694607	143694607	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgagctgctccagggtcttGggcagggggtggcgcaggaa	7	7	19	8	1	1	1	0	1	1	0	2	2	2	2	1	6	2	4	1	6	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:143694607G>T	uc003ywn.1	-	1	1227	c.1026C>A	c.(1024-1026)CCC>CCA	p.P342P		NM_015193	NP_056008	Q7LC44	ARC_HUMAN	activity-regulated cytoskeleton-associated	342					endocytosis	acrosomal vesicle|cell junction|dendritic spine|endosome|postsynaptic density|postsynaptic membrane				breast(1)	1	all_cancers(97;3.55e-12)|all_epithelial(106;1.03e-08)|Lung NSC(106;0.000353)|all_lung(105;0.00092)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.0279)				CCAGGGTCTTGGGCAGGGGGT	0.677													8	44					3.09899e-07	3.28105e-07	1	1	0		T	143694607	T	T	143694607	2	4	49	1	0	0	0	0	0	0	0	1	841	1335	47	5		5	ARC	8	143694607	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	269072	143694607	2669415	673	37353											
EPPK1	83481	broad.mit.edu	37	chr8	144940356	144940356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgtccacgggcacgcGgtggctgtgcacggggtcga	5	5	18	13	6	0	0	0	0	0	0	2	1	1	0	2	6	1	3	2	6	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:144940356G>A	uc003zaa.1	-	2	15089	c.15076C>T	c.(15076-15078)CGC>TGC	p.R5026C		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	5026	Plectin 64.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ACGGGCACGCGGTGGCTGTGC	0.697													12	350					0	0	1	0	0		A	144940356	A	A	144940356	3	1	49	1	0	0	0	0	1	0	0	0	5198	1116	39	1	200	1	EPPK1	8	144940356	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1245749	144940356	1423666	674	37354											
PLEC	5339	broad.mit.edu	37	chr8	144991545	144991545	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacactgacatctccttgccCgtctcggggtccacgatgac	7	10	9	15	3	2	2	0	2	2	0	5	3	3	2	3	2	2	0	3	2	1	2	rs143548638	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:144991545C>A	uc003zaf.1	-	32	13025	c.12855G>T	c.(12853-12855)ACG>ACT	p.T4285T	PLEC_uc003zab.1_Silent_p.T4148T|PLEC_uc003zac.1_Silent_p.T4152T|PLEC_uc003zad.2_Silent_p.T4148T|PLEC_uc003zae.1_Silent_p.T4116T|PLEC_uc003zag.1_Silent_p.T4126T|PLEC_uc003zah.2_Silent_p.T4134T|PLEC_uc003zaj.2_Silent_p.T4175T	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4285	Binding to intermediate filaments (By similarity).|Globular 2.|Plectin 27.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TCTCCTTGCCCGTCTCGGGGT	0.622													17	88					7.45023e-12	8.06754e-12	1	1	0		A	144991545	A	A	144991545	2	1	49	1	0	0	0	0	0	0	0	1	12071	639	23	5		5	PLEC	8	144991545	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	51189	144991545	1372477	675	37355											
PLEC	5339	broad.mit.edu	37	chr8	144993391	144993391	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcaagcccgtctcggggTcctccacgcaccgctccagc	5	5	12	19	5	1	0	0	0	1	0	5	0	4	0	5	3	2	3	5	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:144993391T>C	uc003zaf.1	-	32	11179	c.11009A>G	c.(11008-11010)GAC>GGC	p.D3670G	PLEC_uc003zab.1_Missense_Mutation_p.D3533G|PLEC_uc003zac.1_Missense_Mutation_p.D3537G|PLEC_uc003zad.2_Missense_Mutation_p.D3533G|PLEC_uc003zae.1_Missense_Mutation_p.D3501G|PLEC_uc003zag.1_Missense_Mutation_p.D3511G|PLEC_uc003zah.2_Missense_Mutation_p.D3519G|PLEC_uc003zaj.2_Missense_Mutation_p.D3560G	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3670	Globular 2.|Plectin 16.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CGTCTCGGGGTCCTCCACGCA	0.637													20	172					0	0	1	0	0		C	144993391	C	C	144993391	3	2	49	1	0	0	0	0	1	0	0	0	12071	1667	58	3	3049	3	PLEC	8	144993391	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1846	144993391	1370631	676	37356											
PLEC	5339	broad.mit.edu	37	chr8	144995498	144995498	+	Missense_Mutation	SNP	G	A	A																															ctcgtcgaagtagccgcgccGgtaggccacgtccacgggca																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:144995498G>A	uc003zaf.1	-	32	9072	c.8902C>T	c.(8902-8904)CGG>TGG	p.R2968W	PLEC_uc003zab.1_Missense_Mutation_p.R2831W|PLEC_uc003zac.1_Missense_Mutation_p.R2835W|PLEC_uc003zad.2_Missense_Mutation_p.R2831W|PLEC_uc003zae.1_Missense_Mutation_p.R2799W|PLEC_uc003zag.1_Missense_Mutation_p.R2809W|PLEC_uc003zah.2_Missense_Mutation_p.R2817W|PLEC_uc003zaj.2_Missense_Mutation_p.R2858W	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2968	Plectin 4.|Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TAGCCGCGCCGGTAGGCCACG	0.682													26	108					0	0	1	0	0		A	144995498	A	A	144995498	3	1	49	1	0	0	0	0	1	0	0	0	12071	1115	39	1	5156	1	PLEC	8	144995498	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2107	144995498	1368524	677	37357	74	2									
PLEC	5339	broad.mit.edu	37	chr8	144995508	144995508	+	Silent	SNP	G	A	A																															tagccgcgccggtaggccacGtccacgggcacgcggtggct																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:144995508G>A	uc003zaf.1	-	32	9062	c.8892C>T	c.(8890-8892)GAC>GAT	p.D2964D	PLEC_uc003zab.1_Silent_p.D2827D|PLEC_uc003zac.1_Silent_p.D2831D|PLEC_uc003zad.2_Silent_p.D2827D|PLEC_uc003zae.1_Silent_p.D2795D|PLEC_uc003zag.1_Silent_p.D2805D|PLEC_uc003zah.2_Silent_p.D2813D|PLEC_uc003zaj.2_Silent_p.D2854D	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2964	Plectin 4.|Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GGTAGGCCACGTCCACGGGCA	0.687													12	114					0	0	1	0	0		A	144995508	A	A	144995508	2	1	49	1	0	0	0	0	0	0	0	1	12071	1136	40	1		1	PLEC	8	144995508	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	10	144995508	1368514	678	37358	74	2									
OPLAH	26873	broad.mit.edu	37	chr8	145108223	145108223	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgggcacggaggtccgaCaggttgtcgtgcaggtttct	6	10	15	10	3	1	0	0	0	1	0	3	2	2	1	2	5	1	4	2	5	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:145108223C>T	uc003zar.3	-	20	2842	c.2760G>A	c.(2758-2760)CTG>CTA	p.L920L	OPLAH_uc003zas.1_Missense_Mutation_p.V195I	NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	920							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	GGAGGTCCGACAGGTTGTCGT	0.652													19	51					0	0	1	0	0		T	145108223	T	T	145108223	2	4	49	1	0	0	0	0	0	0	0	1	10895	465	17	4		4	OPLAH	8	145108223	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	112715	145108223	1255799	679	37359											
CPSF1	29894	broad.mit.edu	37	chr8	145626419	145626419	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatggctgcacagcgcccGtcggggtccacccgcactcg	6	5	13	17	5	0	0	0	0	0	0	3	0	1	0	3	3	3	4	3	3	0	0	rs150293361		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr8:145626419G>A	uc003zcj.2	-	6	513	c.438C>T	c.(436-438)GAC>GAT	p.D146D	CPSF1_uc003zck.1_Silent_p.D68D|CPSF1_uc011lle.1_Silent_p.D146D|MIR1234_hsa-mir-1234|MI0006324_5'Flank|CPSF1_uc011llf.1_Silent_p.D146D	NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	146					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			CACAGCGCCCGTCGGGGTCCA	0.692													13	21					0	0	1	0	0		A	145626419	A	A	145626419	2	1	49	1	0	0	0	0	0	0	0	1	3827	1136	40	1		1	CPSF1	8	145626419	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	518196	145626419	737603	680	37360											
FOXD4	2298	broad.mit.edu	37	chr9	116842	116842	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggaactgggcgtgggCgatactaaaaaaactggtga	13	6	15	7	2	0	1	0	1	0	0	0	3	0	2	1	4	3	0	1	4	6	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:116842C>T	uc003zfz.2	-	1	1576	c.1278G>A	c.(1276-1278)TCG>TCA	p.S426S		NM_207305	NP_997188	Q12950	FOXD4_HUMAN	forkhead box D4	426					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	all_lung(41;0.218)	all_cancers(5;0.0395)|Acute lymphoblastic leukemia(5;1.91e-07)|all_hematologic(5;1.95e-06)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		TGGGCGTGGGCGATACTAAAA	0.677													3	33					0	0	1	0	0		T	116842	T	T	116842	2	4	49	1	0	0	0	0	0	0	0	1	6013	755	27	1		1	FOXD4	9	116842	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08		116842	141096589	681	37361											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													11	181					0	0	1	0	0		G	164038	G	G	164038	5	3	49	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-7707-01A-11D-2053-08	47196	164038	141049393	682	37362											
DMRT2	10655	broad.mit.edu	37	chr9	1056535	1056535	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgcagtattcagggtcTgggaatatggaactaatttc	12	12	10	7	0	2	0	1	0	1	0	3	2	2	2	1	3	2	2	1	3	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:1056535T>C	uc003zha.2	+	4	1148	c.948T>C	c.(946-948)TCT>TCC	p.S316S	DMRT2_uc003zgx.3_Silent_p.S83S|DMRT2_uc010mgz.2_Silent_p.S83S|DMRT2_uc003zgy.3_Silent_p.S160S|DMRT2_uc003zhb.3_3'UTR|DMRT2_uc011llt.1_3'UTR|DMRT2_uc011llu.1_3'UTR|DMRT2_uc011llv.1_Silent_p.S316S	NM_181872	NP_870987	Q9Y5R5	DMRT2_HUMAN	doublesex and mab-3 related transcription factor	316					male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0		all_lung(10;1.49e-09)|Lung NSC(10;1.86e-09)		Lung(218;0.0195)|GBM - Glioblastoma multiforme(50;0.0388)		ATTCAGGGTCTGGGAATATGG	0.463													20	76					0	0	1	0	0		C	1056535	C	C	1056535	2	2	49	1	0	0	0	0	0	0	0	1	4592	1567	55	3		3	DMRT2	9	1056535	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	892497	1056535	140156896	683	37363											
SMARCA2	6595	broad.mit.edu	37	chr9	2186173	2186173	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaaagaggaagagagtgaGgatgaaagcaatgaagagga	19	3	16	3	0	0	6	0	3	0	3	0	10	0	9	1	3	1	1	1	3	5	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:2186173G>T	uc003zhc.2	+	32	4638	c.4539G>T	c.(4537-4539)GAG>GAT	p.E1513D	SMARCA2_uc003zhd.2_Missense_Mutation_p.E1495D|SMARCA2_uc010mha.2_Missense_Mutation_p.E1428D|SMARCA2_uc011llw.1_Missense_Mutation_p.E199D|SMARCA2_uc003zhf.2_Missense_Mutation_p.E177D|SMARCA2_uc011llx.1_Missense_Mutation_p.E159D|SMARCA2_uc003zhe.2_Missense_Mutation_p.E201D|SMARCA2_uc003zhg.2_Missense_Mutation_p.E159D|SMARCA2_uc010mhb.2_Missense_Mutation_p.E183D	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1513					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		aagagagtgaggatgaaagca	0.358													7	73					8.12818e-05	8.43872e-05	1	1	0		T	2186173	T	T	2186173	3	4	49	1	0	0	0	0	1	0	0	0	14794	991	35	5	4661	5	SMARCA2	9	2186173	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1129638	2186173	139027258	684	37364											
RFX3	5991	broad.mit.edu	37	chr9	3248157	3248157	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaaagctagcagcactgcGtaaggttaagtcccgaataa	14	7	10	10	2	0	0	0	0	0	0	1	1	1	0	2	1	4	5	2	1	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:3248157G>A	uc003zhr.2	-	16	2155	c.1843C>T	c.(1843-1845)CGC>TGC	p.R615C	RFX3_uc010mhd.2_Missense_Mutation_p.R615C|RFX3_uc003zhs.1_Missense_Mutation_p.R615C	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	615					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		GCAGCACTGCGTAAGGTTAAG	0.418													3	42					0	0	1	0	0		A	3248157	A	A	3248157	3	1	49	1	0	0	0	0	1	0	0	0	13289	1145	40	1	574	1	RFX3	9	3248157	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1061984	3248157	137965274	685	37365											
GLIS3	169792	broad.mit.edu	37	chr9	4117861	4117861	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtatcttcgagggcaaccGgcccagaagcaagtgaagtc	11	8	12	10	2	1	2	0	1	1	1	3	3	1	2	2	2	2	3	2	2	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:4117861G>A	uc003zhw.1	-	3	1346	c.1152C>T	c.(1150-1152)GCC>GCT	p.A384A	GLIS3_uc003zhx.1_Silent_p.A539A|GLIS3_uc003zic.1_Silent_p.A539A|GLIS3_uc003zie.1_Silent_p.A539A|GLIS3_uc010mhh.1_Silent_p.A414A|GLIS3_uc003zid.1_Silent_p.A317A|GLIS3_uc010mhi.1_Silent_p.A346A|GLIS3_uc003zif.1_Silent_p.A317A|GLIS3_uc003zig.1_Silent_p.A383A|GLIS3_uc003zih.1_Silent_p.A317A|GLIS3_uc003zhy.1_Silent_p.A317A|GLIS3_uc003zhz.1_Silent_p.A317A|GLIS3_uc003zib.1_Silent_p.A383A|GLIS3_uc010mhg.1_Silent_p.A317A	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	384	C2H2-type 2; atypical.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		GAGGGCAACCGGCCCAGAAGC	0.577													10	121					0	0	1	0	0		A	4117861	A	A	4117861	2	1	49	1	0	0	0	0	0	0	0	1	6462	1103	39	1		1	GLIS3	9	4117861	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	869704	4117861	137095570	686	37366											
AK3	50808	broad.mit.edu	37	chr9	4719173	4719173	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaattcaatgttatagactcGgccactggcgggatgaatcc	11	10	11	9	2	1	2	1	1	0	1	3	4	2	3	2	3	0	1	2	3	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:4719173G>A	uc003ziq.1	-	3	546	c.406C>T	c.(406-408)CGA>TGA	p.R136*	AK3_uc003zip.1_RNA|AK3_uc011lma.1_Nonsense_Mutation_p.R96*|AK3_uc003zir.1_Nonsense_Mutation_p.R66*	NM_016282	NP_057366	Q9UIJ7	KAD3_HUMAN	adenylate kinase 3	136					blood coagulation	mitochondrial matrix	ATP binding|GTP binding|nucleoside triphosphate adenylate kinase activity			ovary(2)	2	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0302)		TTATAGACTCGGCCACTGGCG	0.473													44	72					0	0	1	0	0		A	4719173	A	A	4719173	4	1	49	1	0	0	0	0	0	1	0	0	441	1124	39	1	289	1	AK3	9	4719173	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	601312	4719173	136494258	687	37367											
C9orf123	90871	broad.mit.edu	37	chr9	7798586	7798586	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtactttcaaacaacgcggTaggccttccctttggggtct	7	12	11	11	2	2	0	1	0	1	0	3	0	3	0	2	5	3	2	2	5	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:7798586T>C	uc003zki.2	-	2	284	c.240A>G	c.(238-240)CTA>CTG	p.L80L	C9orf123_uc003zkj.2_Missense_Mutation_p.Y109C			Q96GE9	CI123_HUMAN	Homo sapiens cDNA FLJ46908 fis, clone FEBRA2004867.	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane					0		all_cancers(3;0.0539)|Lung NSC(3;3.36e-05)|all_lung(3;0.000156)|all_epithelial(3;0.0356)		GBM - Glioblastoma multiforme(50;0.0561)		AACAACGCGGTAGGCCTTCCC	0.408													10	107					0	0	1	0	0		C	7798586	C	C	7798586	2	2	49	1	0	0	0	0	0	0	0	1	2456	1638	57	3		3	C9orf123	9	7798586	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3079413	7798586	133414845	688	37368											
FREM1	158326	broad.mit.edu	37	chr9	14859265	14859265	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaccatctggccatgggctgGcagccgagttctcgcagtgt	7	9	13	12	2	2	0	0	0	2	0	3	1	2	0	3	3	2	4	3	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:14859265G>T	uc003zlm.2	-	4	1137	c.547C>A	c.(547-549)CCA>ACA	p.P183T	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	183					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		CCATGGGCTGGCAGCCGAGTT	0.512													6	104					0.217242	0.217624	1	1	0		T	14859265	T	T	14859265	3	4	49	1	0	0	0	0	1	0	0	0	6058	1203	42	5	6178	5	FREM1	9	14859265	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	7060679	14859265	126354166	689	37369											
CNTLN	54875	broad.mit.edu	37	chr9	17466781	17466781	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaattgaaacagcagcatcTaagcagcttcaagaattagc	17	8	8	8	0	2	2	1	1	1	1	2	3	2	2	0	0	6	4	0	0	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:17466781T>C	uc003zmz.2	+	23	3770	c.3744T>C	c.(3742-3744)TCT>TCC	p.S1248S	CNTLN_uc003zmy.2_Silent_p.S1249S|CNTLN_uc010mio.2_Silent_p.S928S	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	1249	Potential.					centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		CAGCAGCATCTAAGCAGCTTC	0.403													7	84					0	0	1	0	0		C	17466781	C	C	17466781	2	2	49	1	0	0	0	0	0	0	0	1	3642	1509	53	3		3	CNTLN	9	17466781	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2607516	17466781	123746650	690	37370											
FAM154A	158297	broad.mit.edu	37	chr9	18928992	18928992	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaacctgactgatgccggCtggtatttgtgttccagacg	8	12	11	10	2	1	3	1	2	0	1	2	3	2	3	3	2	2	3	3	2	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:18928992C>T	uc003zni.1	-	4	761	c.483G>A	c.(481-483)CAG>CAA	p.Q161Q	FAM154A_uc010mip.1_5'UTR	NM_153707	NP_714918	Q8IYX7	F154A_HUMAN	hypothetical protein LOC158297	161										pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.53e-16)		CTGATGCCGGCTGGTATTTGT	0.438													10	82					0	0	1	0	0		T	18928992	T	T	18928992	2	4	49	1	0	0	0	0	0	0	0	1	5474	796	28	2		2	FAM154A	9	18928992	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1462211	18928992	122284439	691	37371											
DDX58	23586	broad.mit.edu	37	chr9	32492458	32492458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcaagtttcaaagttttggGccagttttccttgtctgatc	8	16	9	8	0	2	1	1	1	1	0	4	1	3	1	2	1	1	4	2	1	2	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:32492458G>A	uc003zra.2	-	4	660	c.502C>T	c.(502-504)CCC>TCC	p.P168S	DDX58_uc010mjj.2_Intron|DDX58_uc010mjk.1_Missense_Mutation_p.P123S|DDX58_uc011lnr.1_Intron|DDX58_uc010mji.2_Missense_Mutation_p.P97S	NM_014314	NP_055129	O95786	DDX58_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	168	CARD 2.				detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		AAAGTTTTGGGCCAGTTTTCC	0.433													6	75					0	0	1	0	0		A	32492458	A	A	32492458	3	1	49	1	0	0	0	0	1	0	0	0	4378	1203	42	2	2335	2	DDX58	9	32492458	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	13563466	32492458	108720973	692	37372											
TAF1L	138474	broad.mit.edu	37	chr9	32632915	32632915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcttcttccgttggtaaaCgaaaatcagacttaagcacc	12	12	6	11	2	3	1	1	0	2	1	5	2	4	1	2	1	2	3	2	1	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:32632915C>T	uc003zrg.1	-	1	2753	c.2663G>A	c.(2662-2664)CGT>CAT	p.R888H	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	888					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CGTTGGTAAACGAAAATCAGA	0.483													34	147					0	0	1	0	0		T	32632915	T	T	32632915	3	4	49	1	0	0	0	0	1	0	0	0	15548	536	19	1	2821	1	TAF1L	9	32632915	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	140457	32632915	108580516	693	37373											
APTX	54840	broad.mit.edu	37	chr9	32984853	32984853	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accacctgctcatctttgtaAacctagcagagggatacaag	13	9	8	11	0	2	1	1	0	1	1	2	2	2	2	3	1	4	3	3	1	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:32984853A>G	uc003zrm.2	-	5	743	c.546T>C	c.(544-546)GTT>GTC	p.V182V	APTX_uc010mjm.2_RNA|APTX_uc003zrj.2_Silent_p.V94V|APTX_uc011lns.1_Silent_p.V3V|APTX_uc003zrl.2_Silent_p.V8V|APTX_uc003zrn.2_Silent_p.V94V|APTX_uc003zro.2_Silent_p.V182V|APTX_uc003zrp.2_Silent_p.V94V|APTX_uc003zrq.2_Silent_p.V94V|APTX_uc003zrr.2_Silent_p.V128V|APTX_uc003zrs.2_Silent_p.V182V|APTX_uc003zrt.2_Silent_p.V94V|APTX_uc003zru.2_Silent_p.V128V|APTX_uc003zrv.2_Silent_p.V196V|APTX_uc003zrw.2_Silent_p.V110V|APTX_uc003zrx.2_Silent_p.V182V|APTX_uc003zry.2_Silent_p.V182V|APTX_uc003zrz.2_Silent_p.V3V|APTX_uc003zsa.1_Silent_p.V128V|APTX_uc003zsb.1_RNA|APTX_uc003zsc.1_RNA	NM_175072	NP_778242	Q7Z2E3	APTX_HUMAN	aprataxin isoform c	196	HIT.				cell death|double-strand break repair|regulation of protein stability|response to hydrogen peroxide|single strand break repair	chromatin|nucleolus|nucleoplasm	chromatin binding|damaged DNA binding|DNA 5'-adenosine monophosphate hydrolase activity|double-stranded DNA binding|double-stranded RNA binding|phosphoglycolate phosphatase activity|phosphoprotein binding|polynucleotide 3'-phosphatase activity|protein N-terminus binding|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0302)	GBM - Glioblastoma multiforme(74;0.105)		CATCTTTGTAAACCTAGCAGA	0.308								Direct_reversal_of_damage|Editing_and_processing_nucleases					8	74					0	0	1	0	0		G	32984853	G	G	32984853	2	3	49	1	0	0	0	0	0	0	0	1	820	1	1	3		3	APTX	9	32984853	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	351938	32984853	108228578	694	37374											
CHMP5	51510	broad.mit.edu	37	chr9	33265075	33265075	+	Translation_Start_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtttcttcgcggctgctcaAgatgaaccgactcttcggga	7	11	12	11	4	3	2	1	1	2	1	5	4	3	3	1	3	2	3	1	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:33265075A>T	uc003zsl.3	+	2	354	c.-1A>T	c.(-3-1)CAAGA>CATGA		SUGT1P1_uc010mjq.1_Intron|BAG1_uc003zsi.2_5'Flank|BAG1_uc003zsj.2_5'Flank|BAG1_uc003zsk.2_5'Flank|CHMP5_uc003zsm.3_Translation_Start_Site|CHMP5_uc011lnv.1_Translation_Start_Site	NM_016410	NP_057494	Q9NZZ3	CHMP5_HUMAN	chromatin modifying protein 5						cellular membrane organization|protein transport	cytosol|endosome membrane	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)			CGGCTGCTCAAGATGAACCGA	0.572													62	216					0	0	1	0	0		T	33265075	T	T	33265075	1	4	49	1	0	0	0	0	0	0	0	0	3362	87	3	5		5	CHMP5	9	33265075	Translation_Start_Site	SNP	A	TCGA-BR-7707-01A-11D-2053-08	280222	33265075	107948356	695	37375											
NFX1	4799	broad.mit.edu	37	chr9	33294870	33294870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agagtgagaaggaagttgtgGgtgcagatcccaggggagca	12	6	18	5	0	0	3	0	1	0	3	1	6	1	5	1	4	2	3	1	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:33294870G>A	uc003zsq.2	+	2	539	c.478G>A	c.(478-480)GGT>AGT	p.G160S	SUGT1P1_uc010mjq.1_Intron|NFX1_uc011lnw.1_Missense_Mutation_p.G160S|NFX1_uc003zso.2_Missense_Mutation_p.G160S|NFX1_uc003zsp.1_Missense_Mutation_p.G160S|NFX1_uc010mjr.1_Missense_Mutation_p.G160S|NFX1_uc003zsr.2_Missense_Mutation_p.G160S	NM_002504	NP_002495	Q12986	NFX1_HUMAN	nuclear transcription factor, X-box binding 1	160					inflammatory response|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|ligase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)	GBM - Glioblastoma multiforme(74;0.224)		GGAAGTTGTGGGTGCAGATCC	0.483													18	86					0	0	1	0	0		A	33294870	A	A	33294870	3	1	49	1	0	0	0	0	1	0	0	0	10406	1232	43	4	484	4	NFX1	9	33294870	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	29795	33294870	107918561	696	37376											
NOL6	65083	broad.mit.edu	37	chr9	33466695	33466695	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctaccagggcctcctcacCtgtgctggaggtctgagagg	6	8	14	13	1	2	1	1	1	1	1	3	3	3	2	4	4	2	2	4	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:33466695C>A	uc003zsz.2	-	16	2064	c.1963G>T	c.(1963-1965)GGT>TGT	p.G655C	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zsy.2_5'Flank|NOL6_uc003zta.2_Intron|NOL6_uc010mjv.2_Missense_Mutation_p.G652C|NOL6_uc011lob.1_Missense_Mutation_p.G603C|NOL6_uc003ztb.1_Missense_Mutation_p.G655C	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	655					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		GCCTCCTCACCTGTGCTGGAG	0.632											OREG0019137	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	66					7.48243e-07	7.91224e-07	1	1	0		A	33466695	A	A	33466695	3	1	49	1	0	0	0	0	1	0	0	0	10544	681	24	5	1521	5	NOL6	9	33466695	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	171825	33466695	107746736	697	37377											
NOL6	65083	broad.mit.edu	37	chr9	33469527	33469527	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaacagtgagggtttcaGgtggcagccatttgtgtagg	9	10	15	7	0	1	1	1	1	0	0	1	1	1	1	1	4	3	4	1	4	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:33469527G>A	uc003zsz.2	-	5	798	c.697C>T	c.(697-699)CTG>TTG	p.L233L	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zta.2_Silent_p.L233L|NOL6_uc010mjv.2_Silent_p.L233L|NOL6_uc011lob.1_Silent_p.L173L|NOL6_uc003ztb.1_Silent_p.L233L	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	233					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		GAGGGTTTCAGGTGGCAGCCA	0.597													8	131					0	0	1	0	0		A	33469527	A	A	33469527	2	1	49	1	0	0	0	0	0	0	0	1	10544	991	35	4		4	NOL6	9	33469527	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2832	33469527	107743904	698	37378											
PRSS3	5646	broad.mit.edu	37	chr9	33797977	33797977	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaactctcctcacctgcCgtcatcaatgcccgcgtgtc	8	10	6	17	3	5	0	4	0	1	0	7	0	5	0	4	0	3	0	4	0	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:33797977C>T	uc003ztj.3	+	3	522	c.522C>T	c.(520-522)GCC>GCT	p.A174A	uc003ztk.1_Intron|PRSS3_uc003zti.3_Silent_p.A131A|PRSS3_uc003ztl.3_Silent_p.A117A	NM_007343	NP_031369	P35030	TRY3_HUMAN	mesotrypsin isoform 1 preproprotein	174	Peptidase S1.				digestion|endothelial cell migration|zymogen activation	extracellular space	calcium ion binding|protein binding|serine-type endopeptidase activity|serine-type peptidase activity				0			LUSC - Lung squamous cell carcinoma(29;0.0176)			CCTCACCTGCCGTCATCAATG	0.557													30	126					0	0	1	0	0		T	33797977	T	T	33797977	2	4	49	1	0	0	0	0	0	0	0	1	12644	639	23	1		1	PRSS3	9	33797977	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	328450	33797977	107415454	699	37379											
KIF24	347240	broad.mit.edu	37	chr9	34256530	34256530	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcctgggacagcatgaccGtttttcacagtgctggtcac	7	12	10	12	1	3	1	2	1	1	0	4	2	3	2	2	2	2	3	2	2	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:34256530G>A	uc003zua.3	-	11	3195	c.3075C>T	c.(3073-3075)AAC>AAT	p.N1025N	KIF24_uc010mkb.2_Intron	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	1025					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			CAGCATGACCGTTTTTCACAG	0.552													42	116					0	0	1	0	0		A	34256530	A	A	34256530	2	1	49	1	0	0	0	0	0	0	0	1	8308	1136	40	1		1	KIF24	9	34256530	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	458553	34256530	106956901	700	37380											
KIF24	347240	broad.mit.edu	37	chr9	34286630	34286630	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attacctctaagaggagctcCacactgtccacctgaagctc	11	9	7	14	0	1	2	0	1	1	1	4	3	3	3	4	1	3	2	4	1	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:34286630C>A	uc003zua.3	-	6	1320	c.1200G>T	c.(1198-1200)GTG>GTT	p.V400V	KIF24_uc010mkb.2_Silent_p.V431V	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	400	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			AGAGGAGCTCCACACTGTCCA	0.438													19	64					2.41591e-17	2.64115e-17	1	1	0		A	34286630	A	A	34286630	2	1	49	1	0	0	0	0	0	0	0	1	8308	581	21	5		5	KIF24	9	34286630	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	30100	34286630	106926801	701	37381											
KIAA1161	57462	broad.mit.edu	37	chr9	34372050	34372050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcttgttgaagtagcgacGcaccatgtacttgtggatgg	8	11	14	8	3	0	1	0	1	0	0	0	3	0	2	1	3	2	5	1	3	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:34372050G>A	uc003zue.3	-	3	1059	c.892C>T	c.(892-894)CGT>TGT	p.R298C		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	298	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		AAGTAGCGACGCACCATGTAC	0.662													11	30					0	0	1	0	0		A	34372050	A	A	34372050	3	1	49	1	0	0	0	0	1	0	0	0	8227	1087	38	1	1256	1	KIAA1161	9	34372050	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	85420	34372050	106841381	702	37382											
UNC13B	10497	broad.mit.edu	37	chr9	35377503	35377503	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaacatggagctgaggacCggacccagaacattatcatg	14	7	11	9	1	1	2	1	1	0	1	1	5	1	5	2	3	3	2	2	3	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:35377503C>T	uc003zwq.2	+	15	1919	c.1627C>T	c.(1627-1629)CGG>TGG	p.R543W	UNC13B_uc003zwr.2_Missense_Mutation_p.R543W	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	543					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			AGCTGAGGACCGGACCCAGAA	0.517													7	100					0	0	1	0	0		T	35377503	T	T	35377503	3	4	49	1	0	0	0	0	1	0	0	0	17011	643	23	1	1685	1	UNC13B	9	35377503	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1005453	35377503	105835928	703	37383											
CA9	768	broad.mit.edu	37	chr9	35680810	35680810	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagcgtcgcgttccttgTgcagatgagaaggcagcaca	10	7	12	12	3	0	2	0	1	0	2	2	3	1	2	2	1	3	4	2	1	1	2	rs151268469		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:35680810T>C	uc003zxo.3	+	10	1340	c.1298T>C	c.(1297-1299)GTG>GCG	p.V433A	CA9_uc003zxp.3_Missense_Mutation_p.V424A	NM_001216	NP_001207	Q16790	CAH9_HUMAN	carbonic anhydrase IX precursor	433	Helical; (Potential).				one-carbon metabolic process	integral to membrane|microvillus membrane|nucleolus	carbonate dehydratase activity|zinc ion binding			ovary(4)|skin(1)	5	all_epithelial(49;0.217)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GCGTTCCTTGTGCAGATGAGA	0.532													16	90					0	0	1	0	0		C	35680810	C	C	35680810	3	2	49	1	0	0	0	0	1	0	0	0	2527	1696	59	3	1336	3	CA9	9	35680810	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	303307	35680810	105532621	704	37384											
CREB3	10488	broad.mit.edu	37	chr9	35736119	35736119	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caaaaccagcagcagcagcaCctgcatcttggtgaggatgg	12	6	12	11	0	1	1	0	1	1	0	1	2	1	2	2	3	6	5	2	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:35736119C>G	uc003zxv.2	+	7	1139	c.686C>G	c.(685-687)ACC>AGC	p.T229S	CREB3_uc010mla.2_Missense_Mutation_p.T148S	NM_006368	NP_006359	O43889	CREB3_HUMAN	cAMP responsive element binding protein 3	253	Cytoplasmic (Potential).				chemotaxis|induction of positive chemotaxis|interspecies interaction between organisms|negative regulation of cell cycle|positive regulation of calcium ion transport|positive regulation of cell migration|positive regulation of transcription, DNA-dependent|reactivation of latent virus|regulation of cell proliferation	cytosol|endoplasmic reticulum|endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|integral to membrane|nucleus|nucleus	cAMP response element binding protein binding|CCR1 chemokine receptor binding|DNA binding|protein dimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity				0	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)	GBM - Glioblastoma multiforme(74;0.0285)		AGCAGCAGCACCTGCATCTTG	0.502											OREG0019176	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	129					0	0	1	0	0		G	35736119	G	G	35736119	3	3	49	1	0	0	0	0	1	0	0	0	3858	507	18	5	712	5	CREB3	9	35736119	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	55309	35736119	105477312	705	37385											
NPR2	4882	broad.mit.edu	37	chr9	35793058	35793058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggccacccacttcatccGggccaacgggcgcagtgagt	8	5	13	15	3	1	1	1	1	0	0	2	1	2	1	4	3	1	2	4	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:35793058G>A	uc003zyd.2	+	1	653	c.653G>A	c.(652-654)CGG>CAG	p.R218Q	NPR2_uc010mlb.2_Missense_Mutation_p.R218Q	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	218	Extracellular (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	CACTTCATCCGGGCCAACGGG	0.632													13	32					0	0	1	0	0		A	35793058	A	A	35793058	3	1	49	1	0	0	0	0	1	0	0	0	10614	1116	39	1	655	1	NPR2	9	35793058	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	56939	35793058	105420373	706	37386											
RECK	8434	broad.mit.edu	37	chr9	36117105	36117105	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtttgtgacacagaccaCatggagcacaacaatctctg	12	9	8	12	0	1	2	0	1	1	1	2	3	1	3	2	1	2	2	2	1	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:36117105C>T	uc003zyv.2	+	17	2270	c.2184C>T	c.(2182-2184)CAC>CAT	p.H728H	RECK_uc003zyw.2_Silent_p.H600H|RECK_uc003zyx.2_RNA	NM_021111	NP_066934	O95980	RECK_HUMAN	RECK protein precursor	728	Kazal-like 2.					anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)			ACACAGACCACATGGAGCACA	0.463													13	57					0	0	1	0	0		T	36117105	T	T	36117105	2	4	49	1	0	0	0	0	0	0	0	1	13225	477	17	4		4	RECK	9	36117105	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	324047	36117105	105096326	707	37387											
CCIN	881	broad.mit.edu	37	chr9	36170316	36170316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagcctgctggtctaccagCggaaaggggccctgcttgat	7	8	14	12	1	1	1	0	1	1	0	1	2	1	2	3	4	5	3	3	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:36170316C>T	uc003zzb.3	+	1	928	c.817C>T	c.(817-819)CGG>TGG	p.R273W		NM_005893	NP_005884	Q13939	CALI_HUMAN	calicin	273					cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			ovary(1)|skin(1)	2			STAD - Stomach adenocarcinoma(86;0.228)			GGTCTACCAGCGGAAAGGGGC	0.572													9	48					0	0	1	0	0		T	36170316	T	T	36170316	3	4	49	1	0	0	0	0	1	0	0	0	2881	759	27	1	819	1	CCIN	9	36170316	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	53211	36170316	105043115	708	37388											
MELK	9833	broad.mit.edu	37	chr9	36657353	36657353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgctgctactccccgaaCatcacaggttcgtcattctt	8	12	8	13	2	3	0	2	0	1	0	5	1	4	0	2	2	4	3	2	2	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:36657353C>T	uc003zzn.2	+	13	1307	c.1169C>T	c.(1168-1170)ACA>ATA	p.T390I	MELK_uc011lpm.1_Missense_Mutation_p.T259I|MELK_uc011lpn.1_Intron|MELK_uc011lpo.1_Missense_Mutation_p.T196I|MELK_uc010mll.2_Missense_Mutation_p.T358I|MELK_uc011lpp.1_Missense_Mutation_p.T342I|MELK_uc010mlm.2_Missense_Mutation_p.T319I|MELK_uc011lpq.1_Missense_Mutation_p.T196I|MELK_uc011lpr.1_Missense_Mutation_p.T319I|MELK_uc011lps.1_Missense_Mutation_p.T310I	NM_014791	NP_055606	Q14680	MELK_HUMAN	maternal embryonic leucine zipper kinase	390						cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		Acute lymphoblastic leukemia(2;1.09e-08)|all_hematologic(2;8.15e-06)	STAD - Stomach adenocarcinoma(86;0.228)			ACTCCCCGAACATCACAGGTT	0.373													5	77					0	0	1	0	0		T	36657353	T	T	36657353	3	4	49	1	0	0	0	0	1	0	0	0	9488	478	17	4	1215	4	MELK	9	36657353	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	487037	36657353	104556078	709	37389											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													17	75					0	0	1	0	0		G	70993145	G	G	70993145	3	3	49	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	34335792	70993145	70220286	710	37390											
APBA1	320	broad.mit.edu	37	chr9	72131597	72131597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagggctcgtcctcaccgCggtggaagagccggtgcgtg	6	7	17	11	5	1	1	1	0	0	1	3	2	2	2	3	4	2	2	3	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:72131597C>T	uc004ahh.2	-	2	806	c.530G>A	c.(529-531)CGC>CAC	p.R177H		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	177					axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						GTCCTCACCGCGGTGGAAGAG	0.667													4	15					0	0	1	0	0		T	72131597	T	T	72131597	3	4	49	1	0	0	0	0	1	0	0	0	756	768	27	1	2031	1	APBA1	9	72131597	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1138452	72131597	69081834	711	37391											
C9orf85	138241	broad.mit.edu	37	chr9	74526630	74526630	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttttgcctgctcccggcgaGgggtggctttgatttcggcg	2	13	15	11	4	0	1	0	1	0	0	2	2	1	1	2	5	2	2	2	5	0	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:74526630G>T	uc004ain.2	+	1	208	c.-20G>T	c.(-22--18)GAGGG>GATGG		C9orf85_uc004aio.2_RNA|C9orf85_uc010mou.2_RNA|C9orf85_uc010mov.2_RNA|FAM108B1_uc004ail.2_5'Flank|FAM108B1_uc004aim.1_5'Flank	NM_182505	NP_872311	Q96MD7	CI085_HUMAN	hypothetical protein LOC138241												0						CTCCCGGCGAGGGGTGGCTTT	0.507													12	210					3.27435e-08	3.4883e-08	1	1	0		T	74526630	T	T	74526630	1	4	49	1	0	0	0	0	0	0	0	0	2504	1015	35	5		5	C9orf85	9	74526630	Translation_Start_Site	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2395033	74526630	66686801	712	37392											
FOXB2	442425	broad.mit.edu	37	chr9	79635083	79635083	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccgccgccgccgcccccGccgccgccgcacatggtaca	4	2	11	24	9	0	0	0	0	0	0	0	0	0	0	10	1	1	2	10	1	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:79635083G>A	uc004ako.1	+	1	513	c.513G>A	c.(511-513)CCG>CCA	p.P171P		NM_001013735	NP_001013757	Q5VYV0	FOXB2_HUMAN	forkhead box B2	171	Poly-Pro.				brain development|embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						cgccgcccccgccgccgccgc	0.318													3	13					0	0	1	0	0		A	79635083	A	A	79635083	2	1	49	1	0	0	0	0	0	0	0	1	6007	1074	38	1		1	FOXB2	9	79635083	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5108453	79635083	61578348	713	37393											
TLE4	7091	broad.mit.edu	37	chr9	82333808	82333808	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccacgagacacgtgtacacGggtgggaagggctgcgtcaa	10	5	15	11	4	1	1	1	0	0	1	1	3	1	2	1	3	2	2	1	3	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:82333808G>A	uc004ald.2	+	16	2436	c.1587G>A	c.(1585-1587)ACG>ACA	p.T529T	TLE4_uc004alc.2_Silent_p.T504T|TLE4_uc010mpr.2_Silent_p.T383T|TLE4_uc004ale.2_Silent_p.T141T|TLE4_uc011lsq.1_Silent_p.T472T|TLE4_uc010mps.2_Silent_p.T428T|TLE4_uc004alf.2_Silent_p.T443T	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						ACGTGTACACGGGTGGGAAGG	0.597													36	120					0	0	1	0	0		A	82333808	A	A	82333808	2	1	49	1	0	0	0	0	0	0	0	1	15966	1103	39	1		1	TLE4	9	82333808	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2698725	82333808	58879623	714	37394											
TLE1	7088	broad.mit.edu	37	chr9	84226773	84226773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtaaactggcgtaggcagCgcctgggctggtcagctcgc	6	8	16	11	3	1	0	1	0	0	0	2	0	1	0	1	4	3	5	1	4	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:84226773C>T	uc004aly.2	-	13	1606	c.1165G>A	c.(1165-1167)GCT>ACT	p.A389T	TLE1_uc004alz.2_Missense_Mutation_p.A399T|TLE1_uc011lsr.1_Missense_Mutation_p.A374T|TLE1_uc004ama.1_Missense_Mutation_p.A388T|TLE1_uc011lss.1_Missense_Mutation_p.A315T	NM_005077	NP_005068	Q04724	TLE1_HUMAN	transducin-like enhancer protein 1	389	Pro/Ser-rich.				negative regulation of Wnt receptor signaling pathway|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway		transcription factor binding			ovary(1)|skin(1)	2						GCGTAGGCAGCGCCTGGGCTG	0.687													10	48					0	0	1	0	0		T	84226773	T	T	84226773	3	4	49	1	0	0	0	0	1	0	0	0	15963	768	27	1	1179	1	TLE1	9	84226773	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1892965	84226773	56986658	715	37395											
FLJ46321	389763	broad.mit.edu	37	chr9	84603827	84603827	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgaccccaacttcatctgcTtgagtgggttggggttgttt	5	15	12	9	1	2	1	1	1	1	0	3	2	2	1	2	3	2	4	2	3	1	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:84603827T>G	uc004amn.2	+	1	141	c.94T>G	c.(94-96)TTG>GTG	p.L32V		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	32	Helical; (Potential).					integral to membrane					0						CTTCATCTGCTTGAGTGGGTT	0.443													4	98					0	0	1	0	0		G	84603827	G	G	84603827	3	3	49	1	0	0	0	0	1	0	0	0	5946	1606	56	5	96	5	FLJ46321	9	84603827	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	377054	84603827	56609604	716	37396											
SLC28A3	64078	broad.mit.edu	37	chr9	86900448	86900448	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagggcatgaagatgtaggAgcagattagctacagaaacc	17	6	12	6	0	0	4	0	1	0	3	0	5	0	5	1	2	4	4	1	2	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:86900448A>C	uc010mpz.2	-	14	1584	c.1459T>G	c.(1459-1461)TCC>GCC	p.S487A	SLC28A3_uc011lsy.1_Missense_Mutation_p.S418A|SLC28A3_uc004anu.1_Missense_Mutation_p.S487A	NM_022127	NP_071410	Q9HAS3	S28A3_HUMAN	concentrative Na+-nucleoside cotransporter	487	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to membrane|plasma membrane	nucleoside binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|skin(1)	4						AAGATGTAGGAGCAGATTAGC	0.423													6	102					0	0	1	0	0		C	86900448	C	C	86900448	3	2	49	1	0	0	0	0	1	0	0	0	14558	304	11	5	636	5	SLC28A3	9	86900448	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2296621	86900448	54312983	717	37397											
DAPK1	1612	broad.mit.edu	37	chr9	90220046	90220046	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaatgtcatcaccctgcaCgaggtctatgagaacaagac	13	7	8	13	1	3	2	2	1	1	2	3	4	3	2	2	1	2	1	2	1	4	1	rs36207429		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:90220046C>T	uc004apc.2	+	3	378	c.240C>T	c.(238-240)CAC>CAT	p.H80H	DAPK1_uc004ape.2_Silent_p.H80H|DAPK1_uc004apd.2_Silent_p.H80H|DAPK1_uc011ltg.1_Silent_p.H80H|DAPK1_uc011lth.1_Translation_Start_Site	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	80	Protein kinase.				apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						TCACCCTGCACGAGGTCTATG	0.622									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				9	128					0	0	1	0	0		T	90220046	T	T	90220046	2	4	49	1	0	0	0	0	0	0	0	1	4238	535	19	1		1	DAPK1	9	90220046	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3319598	90220046	50993385	718	37398											
FAM75C1	441452	broad.mit.edu	37	chr9	90537425	90537425	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgttagtgaatttgagcctgGaatggccacgaagtcagaga	12	10	13	6	1	1	3	1	2	0	1	1	6	1	4	2	2	1	1	2	2	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:90537425G>C	uc010mqi.2	+	4	2632	c.2603G>C	c.(2602-2604)GGA>GCA	p.G868A	FAM75C1_uc004apq.3_Missense_Mutation_p.G851A	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						TTTGAGCCTGGAATGGCCACG	0.527													34	137					0	0	1	0	0		C	90537425	C	C	90537425	3	2	49	1	0	0	0	0	1	0	0	0	5637	1174	41	5	2617	5	FAM75C1	9	90537425	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	317379	90537425	50676006	719	37399											
FAM75C1	441452	broad.mit.edu	37	chr9	90538029	90538029	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcagttggacagataccGgaggagaacatgtcactttg	13	8	12	8	1	1	2	1	0	0	2	1	5	1	4	1	3	3	2	1	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:90538029G>A	uc010mqi.2	+	4	3236	c.3207G>A	c.(3205-3207)CCG>CCA	p.P1069P	FAM75C1_uc004apq.3_Silent_p.P1052P	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						GACAGATACCGGAGGAGAACA	0.512													92	117					0	0	1	0	0		A	90538029	A	A	90538029	2	1	49	1	0	0	0	0	0	0	0	1	5637	1103	39	1		1	FAM75C1	9	90538029	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	604	90538029	50675402	720	37400											
C9orf102	375748	broad.mit.edu	37	chr9	98684626	98684626	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgaaaaccttgtatctcAgttaccttacagtccttcag	11	13	6	11	0	2	1	2	1	1	0	4	1	3	1	3	0	3	2	3	0	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:98684626A>G	uc004avt.3	+	8	1760	c.1372A>G	c.(1372-1374)AGT>GGT	p.S458G	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Missense_Mutation_p.S160G|C9orf102_uc010mry.1_Missense_Mutation_p.S160G|C9orf102_uc010mrz.2_Missense_Mutation_p.S269G|C9orf102_uc004avu.2_5'UTR	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	458					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				CTTGTATCTCAGTTACCTTAC	0.393													7	53					0	0	1	0	0		G	98684626	G	G	98684626	3	3	49	1	0	0	0	0	1	0	0	0	2448	188	7	3	1402	3	C9orf102	9	98684626	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	8146597	98684626	42528805	721	37401											
FAM22G	441457	broad.mit.edu	37	chr9	99694495	99694495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccaggtggcccccatcGtgtccccagggaacgctggg	5	6	14	16	2	0	0	0	0	0	0	2	1	1	1	5	4	2	1	5	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:99694495G>A	uc004awq.1	+	2	1223	c.508G>A	c.(508-510)GTG>ATG	p.V170M		NM_001045477	NP_001038942	Q5VZR2	FA22G_HUMAN	hypothetical protein LOC441457	170										skin(1)	1		Acute lymphoblastic leukemia(62;0.0527)				GGCCCCCATCGTGTCCCCAGG	0.697													6	102					0	0	1	0	0		A	99694495	A	A	99694495	3	1	49	1	0	0	0	0	1	0	0	0	5557	1145	40	1	514	1	FAM22G	9	99694495	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1009869	99694495	41518936	722	37402											
FAM22G	441457	broad.mit.edu	37	chr9	99697671	99697671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctggaggagggactgtggCgggccatgcgggaatggcag	7	5	21	8	3	0	0	0	0	0	0	0	4	0	4	1	7	1	2	1	7	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:99697671C>T	uc004awq.1	+	3	1490	c.775C>T	c.(775-777)CGG>TGG	p.R259W	HIATL2_uc004awr.1_Intron	NM_001045477	NP_001038942	Q5VZR2	FA22G_HUMAN	hypothetical protein LOC441457	259										skin(1)	1		Acute lymphoblastic leukemia(62;0.0527)				GGGACTGTGGCGGGCCATGCG	0.622													45	98					0	0	1	0	0		T	99697671	T	T	99697671	3	4	49	1	0	0	0	0	1	0	0	0	5557	759	27	1	785	1	FAM22G	9	99697671	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3176	99697671	41515760	723	37403											
NR4A3	8013	broad.mit.edu	37	chr9	102590657	102590657	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccaccatcaccagcagcaGcatcagcagccatccattcc	12	5	5	19	0	2	0	2	0	0	0	4	0	4	0	6	0	5	4	6	0	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:102590657G>A	uc004baf.1	+	3	1062	c.333G>A	c.(331-333)CAG>CAA	p.Q111Q	NR4A3_uc004bae.2_Silent_p.Q111Q|NR4A3_uc004bag.1_Silent_p.Q111Q|NR4A3_uc004bai.2_Silent_p.Q122Q	NM_006981	NP_008912	Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	111					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		EWSR1/NR4A3(140)|TAF15/NR4A3(33)	bone(173)	173		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				accaGCAGCAGCATCAGCAGC	0.498			T	EWSR1	extraskeletal myxoid chondrosarcoma								6	82					0	0	1	0	0		A	102590657	A	A	102590657	2	1	49	1	0	0	0	0	0	0	0	1	10653	962	34	2		2	NR4A3	9	102590657	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2892986	102590657	38622774	724	37404											
OR13C5	138799	broad.mit.edu	37	chr9	107361654	107361654	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaccagaaagtcccttcAgaaaaaattccaccagaatg	16	7	8	10	0	1	4	1	1	0	3	3	4	3	4	4	1	0	0	4	1	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:107361654A>G	uc011lvp.1	-	1	41	c.41T>C	c.(40-42)CTG>CCG	p.L14P		NM_001004482	NP_001004482	Q8NGS8	O13C5_HUMAN	olfactory receptor, family 13, subfamily C,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4						AAGTCCCTTCAGAAAAAATTC	0.383													17	91					0	0	1	0	0		G	107361654	G	G	107361654	3	3	49	1	0	0	0	0	1	0	0	0	10956	188	7	3	917	3	OR13C5	9	107361654	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4770997	107361654	33851777	725	37405											
ZNF462	58499	broad.mit.edu	37	chr9	109689883	109689883	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtgatccggcagcatacGgccaccattcgaagcctctg	9	8	11	13	3	1	1	0	1	1	0	3	3	2	1	4	2	3	2	4	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:109689883G>A	uc004bcz.2	+	3	3979	c.3690G>A	c.(3688-3690)ACG>ACA	p.T1230T	ZNF462_uc010mto.2_Silent_p.T1078T|ZNF462_uc004bda.2_Silent_p.T1078T	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1230					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						GGCAGCATACGGCCACCATTC	0.532													27	284					0	0	1	0	0		A	109689883	A	A	109689883	2	1	49	1	0	0	0	0	0	0	0	1	17951	1103	39	1		1	ZNF462	9	109689883	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2328229	109689883	31523548	726	37406											
ZNF462	58499	broad.mit.edu	37	chr9	109691126	109691126	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgggagaggagcccgtgTccacttctcacttctctacc	7	10	11	13	1	2	1	1	0	2	1	5	3	3	2	3	3	2	0	3	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:109691126T>C	uc004bcz.2	+	3	5222	c.4933T>C	c.(4933-4935)TCC>CCC	p.S1645P	ZNF462_uc010mto.2_Missense_Mutation_p.S1493P|ZNF462_uc004bda.2_Missense_Mutation_p.S1493P	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1645					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						GGAGCCCGTGTCCACTTCTCA	0.617													7	111					0	0	1	0	0		C	109691126	C	C	109691126	3	2	49	1	0	0	0	0	1	0	0	0	17951	1667	58	3	4939	3	ZNF462	9	109691126	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1243	109691126	31522305	727	37407											
EPB41L4B	54566	broad.mit.edu	37	chr9	112018740	112018740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcagataggagagttccGcctgggcagggctctttccc	7	11	12	11	1	2	2	1	0	1	2	4	3	4	2	3	3	0	3	3	3	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:112018740G>A	uc004bdz.1	-	8	1068	c.773C>T	c.(772-774)GCG>GTG	p.A258V	EPB41L4B_uc004bea.2_Missense_Mutation_p.A258V	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	258	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						GGAGAGTTCCGCCTGGGCAGG	0.468													35	119					0	0	1	0	0		A	112018740	A	A	112018740	3	1	49	1	0	0	0	0	1	0	0	0	5164	1087	38	1	2157	1	EPB41L4B	9	112018740	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2327614	112018740	29194691	728	37408											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112900596	112900596	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgagctgagaagcacAgcctccctcctggccactca	9	6	10	16	0	1	2	1	2	0	1	3	3	3	2	4	1	4	4	4	1	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:112900596A>G	uc004bei.2	+	9	3660	c.3468A>G	c.(3466-3468)ACA>ACG	p.T1156T	PALM2-AKAP2_uc004bek.3_Silent_p.T924T|PALM2-AKAP2_uc004bej.3_Silent_p.T924T|PALM2-AKAP2_uc004bel.1_Silent_p.T734T|AKAP2_uc011lwi.1_Silent_p.T782T|AKAP2_uc004bem.2_Silent_p.T782T|PALM2-AKAP2_uc010mtw.1_Silent_p.T742T|AKAP2_uc011lwj.1_Silent_p.T693T|PALM2-AKAP2_uc004ben.2_Silent_p.T693T	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	693							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						TGAGAAGCACAGCCTCCCTCC	0.557													4	70					0	0	1	0	0		G	112900596	G	G	112900596	2	3	49	1	0	0	0	0	0	0	0	1	11429	175	7	3		3	PALM2-AKAP2	9	112900596	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	881856	112900596	28312835	729	37409											
HDHD3	81932	broad.mit.edu	37	chr9	116136221	116136221	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggatgccctctagccgtcgGtcaaagttggagatcactgc	9	9	12	11	2	3	1	2	0	1	1	4	3	3	2	2	3	3	1	2	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:116136221G>A	uc004bhi.1	-	2	1198	c.414C>T	c.(412-414)GAC>GAT	p.D138D	HDHD3_uc004bhj.2_Silent_p.D138D|HDHD3_uc004bhk.2_Silent_p.D138D	NM_031219	NP_112496	Q9BSH5	HDHD3_HUMAN	haloacid dehalogenase-like hydrolase domain	138							phosphoglycolate phosphatase activity|protein binding				0						CTAGCCGTCGGTCAAAGTTGG	0.652													93	291					0	0	1	0	0		A	116136221	A	A	116136221	2	1	49	1	0	0	0	0	0	0	0	1	7040	1252	44	4		4	HDHD3	9	116136221	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3235625	116136221	25077210	730	37410											
TLR4	7099	broad.mit.edu	37	chr9	120475714	120475714	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcattccaatttgaaacaAatgagtgagttttcagtatt	14	14	7	6	0	1	3	1	3	0	0	2	3	2	3	1	0	2	3	1	0	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:120475714A>G	uc004bjz.2	+	3	1599	c.1308A>G	c.(1306-1308)CAA>CAG	p.Q436Q	TLR4_uc004bka.2_Silent_p.Q396Q|TLR4_uc004bkb.2_Silent_p.Q236Q	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	436	LRR 13.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						ATTTGAAACAAATGAGTGAGT	0.373													4	93					0	0	1	0	0		G	120475714	G	G	120475714	2	3	49	1	0	0	0	0	0	0	0	1	15978	11	1	3		3	TLR4	9	120475714	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4339493	120475714	20737717	731	37411											
MEGF9	1955	broad.mit.edu	37	chr9	123421695	123421695	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgtggactacagtcacAtggctgacagagcccagaag	12	7	11	11	0	1	3	1	1	0	2	2	4	2	4	2	2	2	1	2	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:123421695A>G	uc004bkj.1	-	4	871	c.871T>C	c.(871-873)TGT>CGT	p.C291R	MEGF9_uc011lyb.1_Missense_Mutation_p.C246R|MEGF9_uc004bkk.3_Missense_Mutation_p.C246R	NM_001080497	NP_001073966	Q9H1U4	MEGF9_HUMAN	multiple EGF-like-domains 9	254	Laminin EGF-like 2.|Extracellular (Potential).					integral to membrane	calcium ion binding				0						CTACAGTCACATGGCTGACAG	0.473													21	57					0	0	1	0	0		G	123421695	G	G	123421695	3	3	49	1	0	0	0	0	1	0	0	0	9482	217	8	3	1068	3	MEGF9	9	123421695	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2945981	123421695	17791736	732	37412											
PHF19	26147	broad.mit.edu	37	chr9	123636883	123636883	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctgtccaccggcacagcAcatactggccctccgtcagt	8	8	8	17	2	2	0	1	0	1	0	4	0	4	0	4	2	2	2	4	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:123636883A>G	uc004bks.1	-	2	390	c.137T>C	c.(136-138)GTG>GCG	p.V46A	PHF19_uc004bkt.2_Missense_Mutation_p.V46A|PHF19_uc010mvk.2_Missense_Mutation_p.V46A	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a	46					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						CCGGCACAGCACATACTGGCC	0.557													6	106					0	0	1	0	0		G	123636883	G	G	123636883	3	3	49	1	0	0	0	0	1	0	0	0	11848	159	6	3	1820	3	PHF19	9	123636883	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	215188	123636883	17576548	733	37413											
C5	727	broad.mit.edu	37	chr9	123787797	123787797	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaatcttctaaactgtagTatgacagttctttgactgct	11	17	6	7	0	3	2	0	2	3	0	3	2	3	2	0	0	2	4	0	0	6	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:123787797T>C	uc004bkv.2	-	9	965	c.935A>G	c.(934-936)TAC>TGC	p.Y312C	C5_uc010mvm.1_Missense_Mutation_p.Y312C|C5_uc010mvn.1_Missense_Mutation_p.Y312C	NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	312					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	TAAACTGTAGTATGACAGTTC	0.279													9	92					0	0	1	0	0		C	123787797	C	C	123787797	3	2	49	1	0	0	0	0	1	0	0	0	2283	1638	57	3	4227	3	C5	9	123787797	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	150914	123787797	17425634	734	37414											
OR1Q1	158131	broad.mit.edu	37	chr9	125377434	125377434	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctatgatcctgactagaatgCtgtgtgtgaagatggtggtc	9	13	13	6	0	0	5	0	3	0	2	2	5	1	5	1	2	1	1	1	2	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:125377434C>T	uc011lyy.1	+	1	418	c.418C>T	c.(418-420)CTG>TTG	p.L140L		NM_012364	NP_036496	Q15612	OR1Q1_HUMAN	olfactory receptor, family 1, subfamily Q,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GACTAGAATGCTGTGTGTGAA	0.488													9	162					0	0	1	0	0		T	125377434	T	T	125377434	2	4	49	1	0	0	0	0	0	0	0	1	10990	796	28	2		2	OR1Q1	9	125377434	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1589637	125377434	15835997	735	37415											
RABGAP1	23637	broad.mit.edu	37	chr9	125746881	125746881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaaggtcacaactggatGgtgaaggagatgggcctctt	12	9	14	6	0	2	3	1	2	1	1	2	5	2	4	1	5	1	0	1	5	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:125746881G>A	uc011lzh.1	+	3	402	c.268G>A	c.(268-270)GGT>AGT	p.G90S	RABGAP1_uc004bnl.3_RNA|RABGAP1_uc004bnm.1_Missense_Mutation_p.G90S	NM_012197	NP_036329	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	90					cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5						ACAACTGGATGGTGAAGGAGA	0.498													16	80					0	0	1	0	0		A	125746881	A	A	125746881	3	1	49	1	0	0	0	0	1	0	0	0	12989	1348	47	4	274	4	RABGAP1	9	125746881	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	369447	125746881	15466550	736	37416											
OLFML2A	169611	broad.mit.edu	37	chr9	127563865	127563865	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagccaagccccgcgcccTggcccagcagcaggctgtga	8	3	12	18	2	0	1	0	1	0	0	0	1	0	1	5	2	4	3	5	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:127563865T>A	uc004bov.2	+	5	955	c.842T>A	c.(841-843)CTG>CAG	p.L281Q	OLFML2A_uc010mwr.1_Missense_Mutation_p.L245Q|OLFML2A_uc004bow.2_Missense_Mutation_p.L67Q	NM_182487	NP_872293	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A precursor	281											0						CCCCGCGCCCTGGCCCAGCAG	0.632													3	48					0	0	1	0	0		A	127563865	A	A	127563865	3	1	49	1	0	0	0	0	1	0	0	0	10876	1580	55	5	860	5	OLFML2A	9	127563865	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1816984	127563865	13649566	737	37417											
PPP6C	5537	broad.mit.edu	37	chr9	127911974	127911974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaggaaatatggcgttgtcGttctgggaggaataacacgt	13	10	13	5	3	1	0	0	0	1	0	2	3	1	3	0	4	1	2	0	4	5	4	rs144776498		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:127911974G>A	uc004bpg.3	-	7	1117	c.896C>T	c.(895-897)ACG>ATG	p.T299M	PPP6C_uc010mwv.2_Missense_Mutation_p.T336M|PPP6C_uc010mww.2_Missense_Mutation_p.T277M|PPP6C_uc011lzr.1_Missense_Mutation_p.T152M	NM_002721	NP_002712	O00743	PPP6_HUMAN	protein phosphatase 6, catalytic subunit isoform	299					G1/S transition of mitotic cell cycle|protein dephosphorylation	cytosol	metal ion binding|protein binding|protein serine/threonine phosphatase activity			ovary(1)|skin(1)	2						TGGCGTTGTCGTTCTGGGAGG	0.428													19	73					0	0	1	0	0		A	127911974	A	A	127911974	3	1	49	1	0	0	0	0	1	0	0	0	12429	1145	40	1	25	1	PPP6C	9	127911974	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	348109	127911974	13301457	738	37418											
FAM125B	89853	broad.mit.edu	37	chr9	129148907	129148907	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggacacactgcctgtgggcTtcatcccaattcaggagacg	10	8	11	12	1	2	1	2	0	0	1	3	3	3	2	2	3	1	1	2	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:129148907T>C	uc004bqh.1	+	4	460	c.379T>C	c.(379-381)TTC>CTC	p.F127L	FAM125B_uc004bqg.1_Missense_Mutation_p.F127L|FAM125B_uc011lzy.1_Missense_Mutation_p.F112L|FAM125B_uc010mxd.2_Missense_Mutation_p.F120L|FAM125B_uc011lzz.1_Missense_Mutation_p.F120L	NM_033446	NP_258257	Q9H7P6	F125B_HUMAN	hypothetical protein LOC89853 isoform 1	127	MABP.				protein transport	late endosome membrane					0						GCCTGTGGGCTTCATCCCAAT	0.433													7	55					0	0	1	0	0		C	129148907	C	C	129148907	3	2	49	1	0	0	0	0	1	0	0	0	5439	1609	56	3	393	3	FAM125B	9	129148907	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1236933	129148907	12064524	739	37419											
SLC2A8	29988	broad.mit.edu	37	chr9	130166038	130166038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtcgggggtcaacgccGtcatgttctatgcagagacc	8	9	13	11	3	3	1	2	0	1	1	4	2	3	1	2	2	3	3	2	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:130166038G>A	uc004bqu.2	+	6	868	c.823G>A	c.(823-825)GTC>ATC	p.V275I	SLC2A8_uc010mxj.2_Missense_Mutation_p.V275I|SLC2A8_uc004bqv.2_5'Flank	NM_014580	NP_055395	Q9NY64	GTR8_HUMAN	solute carrier family 2 (facilitated glucose	275	Helical; Name=7; (Potential).					cytoplasmic vesicle membrane|integral to plasma membrane	D-glucose transmembrane transporter activity			ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2						GGTCAACGCCGTCATGTTCTA	0.597													15	51					0	0	1	0	0		A	130166038	A	A	130166038	3	1	49	1	0	0	0	0	1	0	0	0	14576	1145	40	1	845	1	SLC2A8	9	130166038	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1017131	130166038	11047393	740	37420											
PIP5KL1	138429	broad.mit.edu	37	chr9	130688241	130688241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccagcggctcacctcgCagcctttgatgtcatacctg	7	9	8	17	2	2	1	2	1	0	0	3	1	2	1	5	1	3	2	5	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:130688241C>T	uc011mao.1	-	8	713	c.668G>A	c.(667-669)TGC>TAC	p.C223Y	PIP5KL1_uc004bsu.2_Missense_Mutation_p.C20Y	NM_001135219	NP_001128691	Q5T9C9	PI5L1_HUMAN	phosphatidylinositol-4-phosphate 5-kinase-like 1	223	PIPK.					cytoplasm|membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			lung(1)|kidney(1)	2						GCTCACCTCGCAGCCTTTGAT	0.537													8	49					0	0	1	0	0		T	130688241	T	T	130688241	3	4	49	1	0	0	0	0	1	0	0	0	11961	710	25	2	528	2	PIP5KL1	9	130688241	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	522203	130688241	10525190	741	37421											
LCN2	3934	broad.mit.edu	37	chr9	130911883	130911883	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggactccacctcagacCtgatcccagccccacctctg	8	6	6	21	0	2	2	1	1	1	1	4	3	4	3	8	1	1	0	8	1	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:130911883C>A	uc004bto.1	+	1	152	c.79C>A	c.(79-81)CTG>ATG	p.L27M	LCN2_uc010mxq.1_Missense_Mutation_p.L27M|LCN2_uc011map.1_Missense_Mutation_p.L27M	NM_005564	NP_005555	P80188	NGAL_HUMAN	lipocalin 2 precursor	27					apoptosis|innate immune response|regulation of apoptosis|siderophore transport		iron ion binding|transporter activity				0						CACCTCAGACCTGATCCCAGC	0.642													6	85					3.59834e-05	3.74717e-05	1	1	0		A	130911883	A	A	130911883	3	1	49	1	0	0	0	0	1	0	0	0	8700	680	24	5	81	5	LCN2	9	130911883	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	223642	130911883	10301548	742	37422											
CERCAM	51148	broad.mit.edu	37	chr9	131191243	131191243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggctcgcaggcctgaccGtcgggaacgcatgctcgcct	5	7	13	16	5	0	1	0	1	0	0	3	2	0	2	4	3	2	4	4	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:131191243G>A	uc004buz.3	+	8	1396	c.998G>A	c.(997-999)CGT>CAT	p.R333H	CERCAM_uc004buy.1_Missense_Mutation_p.R255H|CERCAM_uc010mxz.2_Missense_Mutation_p.R255H|CERCAM_uc010mya.1_Missense_Mutation_p.R174H	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	333					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						AGGCCTGACCGTCGGGAACGC	0.672													7	22					0	0	1	0	0		A	131191243	A	A	131191243	3	1	49	1	0	0	0	0	1	0	0	0	3269	1145	40	1	1028	1	CERCAM	9	131191243	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	279360	131191243	10022188	743	37423											
METTL11A	28989	broad.mit.edu	37	chr9	132396585	132396585	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggatccagtgggtgataGgtgagggttccaccgccctt	6	11	14	10	1	1	2	0	2	1	0	3	3	3	3	4	4	0	1	4	4	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:132396585G>T	uc004byd.1	+	3	609	c.415G>T	c.(415-417)GGC>TGC	p.G139C	METTL11A_uc010myw.1_Intron|METTL11A_uc011mbs.1_Intron	NM_014064	NP_054783	Q9BV86	NTM1A_HUMAN	methyltransferase like 11A	139					chromosome segregation|N-terminal peptidyl-proline dimethylation|N-terminal peptidyl-serine dimethylation|N-terminal peptidyl-serine trimethylation|spindle organization	nucleus	protein binding|protein methyltransferase activity				0						GTGGGTGATAGGTGAGGGTTC	0.592													7	115					2.74318e-10	2.94995e-10	1	1	0		T	132396585	T	T	132396585	3	4	49	1	0	0	0	0	1	0	0	0	9513	1014	35	5	421	5	METTL11A	9	132396585	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1205342	132396585	8816846	744	37424											
FNBP1	23048	broad.mit.edu	37	chr9	132741597	132741597	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attttcaatggtaaacatacTtgtattcttcttcctccttc	9	19	3	10	0	3	0	1	0	2	0	6	0	5	0	2	1	2	2	2	1	5	10			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:132741597T>G	uc004byw.1	-	3	416	c.197A>C	c.(196-198)AAG>ACG	p.K66T	FNBP1_uc011mbv.1_Missense_Mutation_p.K66T|FNBP1_uc011mbw.1_Missense_Mutation_p.K66T|FNBP1_uc004bza.2_Missense_Mutation_p.K66T|FNBP1_uc004byz.1_Missense_Mutation_p.K66T|FNBP1_uc004byx.1_5'UTR|FNBP1_uc004byy.1_5'UTR	NM_015033	NP_055848	Q96RU3	FNBP1_HUMAN	formin binding protein 1	66	Interaction with microtubules (By similarity).|Required for self-association and induction of membrane tubulation.|Self-association, lipid-binding and induction of membrane tubulation.				endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|lysosome|plasma membrane	identical protein binding|lipid binding				0		Ovarian(14;0.000536)		GBM - Glioblastoma multiforme(294;0.0378)		GTAAACATACTTGTATTCTTC	0.328			T	MLL	AML								6	68					0	0	1	0	0		G	132741597	G	G	132741597	3	3	49	1	0	0	0	0	1	0	0	0	5979	1623	56	5	1716	5	FNBP1	9	132741597	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	345012	132741597	8471834	745	37425											
GPR107	57720	broad.mit.edu	37	chr9	132866711	132866711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgtaggtcctggcaaatGtagcctacatcatcatagag	11	11	10	9	0	3	1	2	0	1	1	4	1	4	1	2	2	2	3	2	2	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:132866711G>A	uc004bze.2	+	13	1371	c.1144G>A	c.(1144-1146)GTA>ATA	p.V382I	GPR107_uc004bzb.2_Missense_Mutation_p.V193I|GPR107_uc004bzc.3_RNA|GPR107_uc011mbx.1_Missense_Mutation_p.V382I|GPR107_uc004bzd.2_Missense_Mutation_p.V382I	NM_001136557	NP_001130029	Q5VW38	GP107_HUMAN	G protein-coupled receptor 107 isoform 1	382	Helical; Name=4; (Potential).					integral to membrane				upper_aerodigestive_tract(1)	1		Ovarian(14;0.000531)				CCTGGCAAATGTAGCCTACAT	0.522													22	64					0	0	1	0	0		A	132866711	A	A	132866711	3	1	49	1	0	0	0	0	1	0	0	0	6638	1377	48	4	1194	4	GPR107	9	132866711	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	125114	132866711	8346720	746	37426											
POMT1	10585	broad.mit.edu	37	chr9	134397547	134397547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctctaccactacctgcccGcactcaccttccaaatcctt	8	11	2	20	1	2	0	1	0	1	0	5	0	5	0	7	0	3	1	7	0	3	4	rs119462987		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:134397547G>A	uc004cav.2	+	19	2207	c.2005G>A	c.(2005-2007)GCA>ACA	p.A669T	POMT1_uc004cax.2_Missense_Mutation_p.A647T|POMT1_uc011mcj.1_Missense_Mutation_p.A387T|POMT1_uc004cau.2_Missense_Mutation_p.A647T|POMT1_uc004caw.2_Missense_Mutation_p.A593T|POMT1_uc011mck.1_Missense_Mutation_p.A530T|POMT1_uc011mcl.1_Missense_Mutation_p.A495T|POMT1_uc011mcm.1_Missense_Mutation_p.A617T	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	669	Helical; (Potential).		A -> T (in MDDGB1).		multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		CTACCTGCCCGCACTCACCTT	0.627													33	89					0	0	1	0	0		A	134397547	A	A	134397547	3	1	49	1	0	0	0	0	1	0	0	0	12264	1087	38	1	2075	1	POMT1	9	134397547	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1530836	134397547	6815884	747	37427											
C9orf9	11092	broad.mit.edu	37	chr9	135762810	135762810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacagaccggcgggttctgCtcatgttcctggacatctgt	6	11	11	13	2	3	1	1	0	2	1	4	2	4	2	3	3	1	3	3	3	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:135762810C>T	uc004cbx.1	+	3	310	c.199C>T	c.(199-201)CTC>TTC	p.L67F	C9orf9_uc004cby.1_Missense_Mutation_p.L67F|C9orf9_uc004cbz.1_Missense_Mutation_p.L67F	NM_018956	NP_061829	Q96E40	CI009_HUMAN	Rsb-66 protein	67								p.?(1)			0				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|GBM - Glioblastoma multiforme(294;4.84e-07)|Epithelial(140;1.28e-06)		GCGGGTTCTGCTCATGTTCCT	0.582													40	133					0	0	1	0	0		T	135762810	T	T	135762810	3	4	49	1	0	0	0	0	1	0	0	0	2507	797	28	2	205	2	C9orf9	9	135762810	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1365263	135762810	5450621	748	37428											
C9orf96	169436	broad.mit.edu	37	chr9	136265620	136265620	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtcctcgatgtccagctGtgtgcctgctccctgctgct	3	12	12	14	1	0	0	0	0	0	0	4	1	3	0	4	1	5	4	4	1	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:136265620G>A	uc004cdk.2	+	12	1222	c.1161G>A	c.(1159-1161)CTG>CTA	p.L387L	C9orf96_uc004cdl.2_RNA	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	387							ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		ATGTCCAGCTGTGTGCCTGCT	0.682													24	78					0	0	1	0	0		A	136265620	A	A	136265620	2	1	49	1	0	0	0	0	0	0	0	1	2511	1364	48	4		4	C9orf96	9	136265620	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	502810	136265620	4947811	749	37429											
ADAMTS13	11093	broad.mit.edu	37	chr9	136319618	136319619	+	Missense_Mutation	DNP	CG	TA	TA																															tcggtggcctgtgtgcagctCgaccaaggccaggacgtgga																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:136319618_136319619CG>TA	uc004cdv.3	+	24	3570_3571	c.3126_3127CG>TA	c.(3124-3129)CTCGAC>CTTAAC	p.D1043N	ADAMTS13_uc004cdp.3_Missense_Mutation_p.D270N|ADAMTS13_uc004cdt.1_Missense_Mutation_p.D1043N|ADAMTS13_uc004cdu.1_Missense_Mutation_p.D1012N|ADAMTS13_uc004cdw.3_Missense_Mutation_p.D1043N|ADAMTS13_uc004cdx.3_Missense_Mutation_p.D1012N|ADAMTS13_uc004cdz.3_Missense_Mutation_p.D713N|ADAMTS13_uc004cea.1_5'Flank|ADAMTS13_uc004ceb.3_5'Flank	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1043	TSP type-1 7.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		GTGTGCAGCTCGACCAAGGCCA	0.658													20	74					0	0	1	0	0		TA	136319619	TA	TA	136319618	3	4	49	1	0	0	0	0	1	0	0	0	258	871	31	1	3220	1	ADAMTS13	9	136319618	Missense_Mutation	DNP	CG	TCGA-BR-7707-01A-11D-2053-08	53998	136319618	4893813	750	37430											
DBH	1621	broad.mit.edu	37	chr9	136501500	136501500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcaccccagccatgcccGccctcagtcgctgggccagc	6	5	10	20	2	2	0	2	0	0	0	3	0	2	0	6	1	4	2	6	1	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:136501500G>A	uc004cel.2	+	1	16	c.7G>A	c.(7-9)GCC>ACC	p.A3T		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	3	Cytoplasmic (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	AGCCATGCCCGCCCTCAGTCG	0.642													4	75					0	0	1	0	0		A	136501500	A	A	136501500	3	1	49	1	0	0	0	0	1	0	0	0	4253	1087	38	1	9	1	DBH	9	136501500	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	181882	136501500	4711931	751	37431											
SARDH	1757	broad.mit.edu	37	chr9	136595252	136595252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccacacccgcgacccgccGcaccccaaaatcatccgtcc	9	4	5	23	5	1	0	1	0	0	0	4	1	4	0	8	0	0	1	8	0	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:136595252G>A	uc004cep.3	-	5	882	c.748C>T	c.(748-750)CGG>TGG	p.R250W	SARDH_uc004ceo.2_Missense_Mutation_p.R250W|SARDH_uc011mdn.1_Missense_Mutation_p.R250W|SARDH_uc011mdo.1_Missense_Mutation_p.R82W	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	250					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		GCGACCCGCCGCACCCCAAAA	0.577													26	106					0	0	1	0	0		A	136595252	A	A	136595252	3	1	49	1	0	0	0	0	1	0	0	0	13866	1086	38	1	2076	1	SARDH	9	136595252	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	93752	136595252	4618179	752	37432											
SARDH	1757	broad.mit.edu	37	chr9	136597651	136597651	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtctcctcctccagctccCggctcaccacccgccgagtg	4	7	8	22	4	2	0	1	0	1	0	6	1	5	0	8	1	1	2	8	1	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:136597651C>T	uc004cep.3	-	3	538	c.404G>A	c.(403-405)CGG>CAG	p.R135Q	SARDH_uc004ceo.2_Missense_Mutation_p.R135Q|SARDH_uc011mdn.1_Missense_Mutation_p.R135Q|SARDH_uc011mdo.1_5'UTR	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	135					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		CTCCAGCTCCCGGCTCACCAC	0.677													10	255					0	0	1	0	0		T	136597651	T	T	136597651	3	4	49	1	0	0	0	0	1	0	0	0	13866	652	23	1	2428	1	SARDH	9	136597651	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2399	136597651	4615780	753	37433											
SARDH	1757	broad.mit.edu	37	chr9	136599205	136599205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcggctgtggggccagctgCgctggacaggttgcatggcc	4	8	17	12	2	0	0	0	0	0	0	1	1	0	1	2	6	3	5	2	6	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:136599205C>T	uc004cep.3	-	2	225	c.91G>A	c.(91-93)GCA>ACA	p.A31T	SARDH_uc004ceo.2_Missense_Mutation_p.A31T|SARDH_uc011mdn.1_Missense_Mutation_p.A31T|SARDH_uc011mdo.1_Intron	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	31					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		GGGCCAGCTGCGCTGGACAGG	0.697													3	30					0	0	1	0	0		T	136599205	T	T	136599205	3	4	49	1	0	0	0	0	1	0	0	0	13866	768	27	1	2745	1	SARDH	9	136599205	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1554	136599205	4614226	754	37434											
VAV2	7410	broad.mit.edu	37	chr9	136662843	136662843	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacttacctcgactttctGcctgaagtcctcccggctgg	6	11	10	14	2	1	1	0	1	1	0	4	3	3	2	4	3	2	1	4	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:136662843G>A	uc004ces.2	-	10	971	c.925C>T	c.(925-927)CAG>TAG	p.Q309*	VAV2_uc004cer.2_Nonsense_Mutation_p.Q304*	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	309	DH.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		TCGACTTTCTGCCTGAAGTCC	0.617													9	29					0	0	1	0	0		A	136662843	A	A	136662843	4	1	49	1	0	0	0	0	0	1	0	0	17158	1328	46	2	1795	2	VAV2	9	136662843	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	63638	136662843	4550588	755	37435											
OBP2A	29991	broad.mit.edu	37	chr9	138438712	138438712	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtgtccccagtgaaggTgacagccctgggcggtggga	8	6	18	9	1	0	2	0	2	0	0	1	4	1	3	3	5	1	0	3	5	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:138438712T>G	uc004cgb.2	+	2	203	c.161T>G	c.(160-162)GTG>GGG	p.V54G	OBP2A_uc004cgc.2_Missense_Mutation_p.V54G|OBP2A_uc010nau.2_RNA|OBP2A_uc010nav.2_Intron	NM_014582	NP_055397	Q9NY56	OBP2A_HUMAN	odorant binding protein 2A precursor	54					response to stimulus|sensory perception of smell	extracellular region	odorant binding|transporter activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.39e-07)|Epithelial(140;1.11e-06)|all cancers(34;2.04e-05)		CCAGTGAAGGTGACAGCCCTG	0.627													11	45					0	0	1	0	0		G	138438712	G	G	138438712	3	3	49	1	0	0	0	0	1	0	0	0	10829	1696	59	5	167	5	OBP2A	9	138438712	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1775869	138438712	2774719	756	37436											
KCNT1	57582	broad.mit.edu	37	chr9	138656935	138656935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagggggcaactacagccGccaccgtgcgcagacggaga	10	3	15	13	4	1	2	1	0	0	2	1	3	1	2	3	3	4	2	3	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:138656935G>A	uc011mdq.1	+	12	1168	c.1094G>A	c.(1093-1095)CGC>CAC	p.R365H	KCNT1_uc011mdr.1_Missense_Mutation_p.R192H|KCNT1_uc010nbf.2_Missense_Mutation_p.R320H|KCNT1_uc004cgo.1_Missense_Mutation_p.R114H	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	365						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		AACTACAGCCGCCACCGTGCG	0.617													10	42					0	0	1	0	0		A	138656935	A	A	138656935	3	1	49	1	0	0	0	0	1	0	0	0	8107	1087	38	1	1140	1	KCNT1	9	138656935	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	218223	138656935	2556496	757	37437											
GPSM1	26086	broad.mit.edu	37	chr9	139250158	139250158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagcatcccgagggcccCgtcttcggacgaggagtgct	7	6	14	14	4	1	1	0	0	1	1	3	5	2	3	4	3	2	2	4	3	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:139250158C>T	uc004chd.2	+	12	1692	c.1472C>T	c.(1471-1473)CCG>CTG	p.P491L	GPSM1_uc011mdu.1_5'UTR|GPSM1_uc004che.2_5'UTR	NM_001145638	NP_001139110	Q86YR5	GPSM1_HUMAN	G-protein signaling modulator 1 (AGS3-like, C.	491	Mediates association with membranes (By similarity).				cell differentiation|nervous system development|signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|plasma membrane	binding|GTPase activator activity				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.39e-06)|Epithelial(140;3.24e-06)		CCGAGGGCCCCGTCTTCGGAC	0.672													13	85					0	0	1	0	0		T	139250158	T	T	139250158	3	4	49	1	0	0	0	0	1	0	0	0	6750	652	23	1	1685	1	GPSM1	9	139250158	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	593223	139250158	1963273	758	37438											
CARD9	64170	broad.mit.edu	37	chr9	139262099	139262099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcccaccaggacgagcGtctccagctgctgccgcctg	6	5	12	18	3	1	0	0	0	1	0	2	2	1	1	6	2	4	2	6	2	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:139262099G>A	uc004chg.3	-	8	1425	c.1259C>T	c.(1258-1260)ACG>ATG	p.T420M	CARD9_uc011mdw.1_Missense_Mutation_p.T420M|CARD9_uc011mdx.1_Missense_Mutation_p.T316M	NM_052813	NP_434700	Q9H257	CARD9_HUMAN	caspase recruitment domain protein 9 isoform 1	420					positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of JNK cascade|positive regulation of stress-activated MAPK cascade|regulation of apoptosis	cytoplasm	CARD domain binding|protein homodimerization activity			pancreas(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;4.58e-06)|Epithelial(140;5.65e-06)		CAGGACGAGCGTCTCCAGCTG	0.726													5	9					0	0	1	0	0		A	139262099	A	A	139262099	3	1	49	1	0	0	0	0	1	0	0	0	2655	1145	40	1	428	1	CARD9	9	139262099	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	11941	139262099	1951332	759	37439											
PMPCA	23203	broad.mit.edu	37	chr9	139312525	139312525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccccatccccgagctcacGcacatcatggttggactgga	9	7	9	16	2	2	0	2	0	0	0	3	3	3	2	4	3	1	3	4	3	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:139312525G>A	uc004chl.2	+	8	959	c.954G>A	c.(952-954)ACG>ACA	p.T318T	PMPCA_uc010nbl.2_Silent_p.T218T|PMPCA_uc011mdz.1_Silent_p.T187T|PMPCA_uc004chm.1_Silent_p.T68T|PMPCA_uc004chn.1_5'Flank	NM_015160	NP_055975	Q10713	MPPA_HUMAN	peptidase (mitochondrial processing) alpha	318					proteolysis	mitochondrial inner membrane|mitochondrial matrix	metalloendopeptidase activity|zinc ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;9.3e-06)|Epithelial(140;1.15e-05)		CCGAGCTCACGCACATCATGG	0.567													8	235					0	0	1	0	0		A	139312525	A	A	139312525	2	1	49	1	0	0	0	0	0	0	0	1	12159	1074	38	1		1	PMPCA	9	139312525	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	50426	139312525	1900906	760	37440											
SEC16A	9919	broad.mit.edu	37	chr9	139370070	139370070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtgcacagagggtctcCatgttgtctggtggctgctc	4	12	16	9	0	2	1	0	0	2	1	4	1	2	1	1	5	2	4	1	5	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:139370070C>T	uc004chx.2	-	3	2307	c.1998G>A	c.(1996-1998)ATG>ATA	p.M666I	SEC16A_uc004chv.3_Missense_Mutation_p.M293I|SEC16A_uc004chw.2_Missense_Mutation_p.M666I|SEC16A_uc010nbn.2_Missense_Mutation_p.M666I|SEC16A_uc010nbo.1_Missense_Mutation_p.M666I	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	488					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		AGAGGGTCTCCATGTTGTCTG	0.627													3	36					0	0	1	0	0		T	139370070	T	T	139370070	3	4	49	1	0	0	0	0	1	0	0	0	14011	594	21	4	5195	4	SEC16A	9	139370070	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	57545	139370070	1843361	761	37441											
NOTCH1	4851	broad.mit.edu	37	chr9	139393707	139393707	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggctcggttccggatcAggatctgggcaacagggaga	8	8	16	9	2	2	1	1	0	1	1	4	4	3	3	1	6	1	3	1	6	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:139393707A>G	uc004chz.2	-	32	5939	c.5939T>C	c.(5938-5940)CTG>CCG	p.L1980P		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1980	ANK 2.|Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GTTCCGGATCAGGATCTGGGC	0.657			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			4	56					0	0	1	0	0		G	139393707	G	G	139393707	3	3	49	1	0	0	0	0	1	0	0	0	10566	188	7	3	1740	3	NOTCH1	9	139393707	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	23637	139393707	1819724	762	37442											
NOTCH1	4851	broad.mit.edu	37	chr9	139411769	139411769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgatcttgtccaggcagcGgccattgtgcaggcaggggc	7	9	15	10	1	1	1	0	1	1	0	2	1	2	1	2	5	2	3	2	5	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:139411769G>A	uc004chz.2	-	9	1510	c.1510C>T	c.(1510-1512)CGC>TGC	p.R504C		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	504	Extracellular (Potential).|EGF-like 13; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		TCCAGGCAGCGGCCATTGTGC	0.682			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			5	20					0	0	1	0	0		A	139411769	A	A	139411769	3	1	49	1	0	0	0	0	1	0	0	0	10566	1116	39	1	6261	1	NOTCH1	9	139411769	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	18062	139411769	1801662	763	37443											
FAM69B	138311	broad.mit.edu	37	chr9	139616709	139616709	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacaagcccacccggggcAcctccatcaaggaattccgg	10	6	10	15	2	1	1	1	1	0	0	3	2	3	2	5	4	1	1	5	4	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:139616709A>G	uc004cik.2	+	4	533	c.439A>G	c.(439-441)ACC>GCC	p.T147A	FAM69B_uc004cil.2_Missense_Mutation_p.T60A|SNHG7_uc004cim.2_RNA	NM_152421	NP_689634	Q5VUD6	FA69B_HUMAN	hypothetical protein LOC138311	147	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.03e-05)|Epithelial(140;0.00013)		CACCCGGGGCACCTCCATCAA	0.627													3	44					0	0	1	0	0		G	139616709	G	G	139616709	3	3	49	1	0	0	0	0	1	0	0	0	5617	159	6	3	453	3	FAM69B	9	139616709	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	204940	139616709	1596722	764	37444											
C9orf142	286257	broad.mit.edu	37	chr9	139888236	139888236	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaagaaaccagctggtggCgtggacttcgatgagacctg	11	8	14	8	2	0	2	0	1	0	2	1	5	0	3	2	3	2	2	2	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:139888236C>T	uc004cki.2	+	7	620	c.594C>T	c.(592-594)GGC>GGT	p.G198G		NM_183241	NP_899064	Q9BUH6	CI142_HUMAN	hypothetical protein LOC286257	198											0	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0821)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CAGCTGGTGGCGTGGACTTCG	0.617													13	47					0	0	1	0	0		T	139888236	T	T	139888236	2	4	49	1	0	0	0	0	0	0	0	1	2464	755	27	1		1	C9orf142	9	139888236	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	271527	139888236	1325195	765	37445											
ANAPC2	29882	broad.mit.edu	37	chr9	140069716	140069716	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctccttctggtcggcCtgggaggccatgccggagtc	3	10	13	15	2	1	0	0	0	1	0	6	2	4	2	6	5	1	0	6	5	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:140069716C>A	uc004clr.1	-	12	2302	c.2229G>T	c.(2227-2229)CAG>CAT	p.Q743H	ANAPC2_uc004clq.1_Missense_Mutation_p.Q599H	NM_013366	NP_037498	Q9UJX6	ANC2_HUMAN	anaphase-promoting complex subunit 2	743					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cyclin catabolic process|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of synapse maturation|positive regulation of synaptic plasticity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of cyclin-dependent protein kinase activity	anaphase-promoting complex|cytosol|nucleoplasm	ubiquitin protein ligase binding|ubiquitin-protein ligase activity			ovary(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.000858)		TCTGGTCGGCCTGGGAGGCCA	0.701													3	38					0.115264	0.116009	1	1	0		A	140069716	A	A	140069716	3	1	49	1	0	0	0	0	1	0	0	0	603	680	24	5	247	5	ANAPC2	9	140069716	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	181480	140069716	1143715	766	37446											
FAM166A	401565	broad.mit.edu	37	chr9	140139824	140139824	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcctcttccccgtatactgGgtgtcccaagtctctggagt	5	12	11	13	1	2	0	0	0	2	0	5	1	4	1	4	3	1	1	4	3	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:140139824G>T	uc004cmi.1	-	3	512	c.457C>A	c.(457-459)CCA>ACA	p.P153T		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	153										ovary(1)	1						CCGTATACTGGGTGTCCCAAG	0.647													4	94					0.00198382	0.00202401	1	1	0		T	140139824	T	T	140139824	3	4	49	1	0	0	0	0	1	0	0	0	5492	1232	43	5	516	5	FAM166A	9	140139824	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	70108	140139824	1073607	767	37447											
ENTPD8	377841	broad.mit.edu	37	chr9	140329487	140329487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcccgccactgagccggcGcatcggccgggatcatcccg	5	5	13	18	6	1	1	1	1	0	0	3	2	2	2	5	3	2	1	5	3	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr9:140329487G>A	uc004cmw.2	-	10	1551	c.1367C>T	c.(1366-1368)GCG>GTG	p.A456V	C9orf167_uc011mew.1_Intron|ENTPD8_uc004cmx.2_Missense_Mutation_p.A419V	NM_001033113	NP_001028285	Q5MY95	ENTP8_HUMAN	ectonucleoside triphosphate diphosphohydrolase 8	456	Extracellular (Potential).					integral to membrane|plasma membrane	ATP binding			skin(1)	1	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000224)|Epithelial(140;0.000898)		CTGAGCCGGCGCATCGGCCGG	0.682													8	40					0	0	1	0	0		A	140329487	A	A	140329487	3	1	49	1	0	0	0	0	1	0	0	0	5153	1087	38	1	124	1	ENTPD8	9	140329487	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	189663	140329487	883944	768	37448											
LARP4B	23185	broad.mit.edu	37	chr10	890939	890939	+	Frame_Shift_Del	DEL	T	-	-																															agataagcagaattccaatgTttttttaagtacttctcggg																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:890939delT	uc001ifs.1	-	5	528	c.487delA	c.(487-489)ACAfs	p.T163fs		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	163	HTH La-type RNA-binding.						nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						AATTCCAATGTTTTTTTAAGT	0.353													44	78	---	---	---	---						.	-	890939	-	-	890939	7	5	49	1	0	1	0	1	0	0	0	0	8647	1725	60	0	1781	0	LARP4B	10	890939	Frame_Shift_Del	DEL	T	TCGA-BR-7707-01A-11D-2053-08		890939	134643808	769	37449											
IDI2	91734	broad.mit.edu	37	chr10	1070565	1070565	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcaattcctcttggtgtcGgcaccaataaccttatcatt	9	14	7	11	1	2	0	1	0	1	0	4	0	3	0	3	3	1	2	3	3	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:1070565G>T	uc001ifv.1	-	2	164	c.99C>A	c.(97-99)GCC>GCA	p.A33A	C10orf110_uc010qaf.1_Intron|C10orf110_uc001ifx.3_Intron|C10orf110_uc001ifw.3_Intron|C10orf110_uc001ify.3_Intron	NM_033261	NP_150286	Q9BXS1	IDI2_HUMAN	isopentenyl-diphosphate delta isomerase 2	33					carotenoid biosynthetic process|cholesterol biosynthetic process	cytosol|peroxisome	hydrolase activity|isopentenyl-diphosphate delta-isomerase activity|metal ion binding				0		Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.143)	Epithelial(11;0.067)|OV - Ovarian serous cystadenocarcinoma(14;0.169)|all cancers(11;0.192)		TCTTGGTGTCGGCACCAATAA	0.478													18	35					3.32936e-07	3.52278e-07	1	1	0		T	1070565	T	T	1070565	2	4	49	1	0	0	0	0	0	0	0	1	7516	1103	39	5		5	IDI2	10	1070565	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	179626	1070565	134464182	770	37450											
FBXO18	84893	broad.mit.edu	37	chr10	5948257	5948257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggctaccgggaccagcCggtgggatggagtttctaag	9	7	15	10	2	1	0	0	0	1	0	1	3	1	3	4	5	2	2	4	5	2	3	rs150913018		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:5948257C>T	uc001iis.2	+	3	510	c.415C>T	c.(415-417)CGG>TGG	p.R139W	FBXO18_uc001iir.2_Missense_Mutation_p.R65W|FBXO18_uc009xig.2_Missense_Mutation_p.R65W|FBXO18_uc001iit.2_Missense_Mutation_p.R190W	NM_178150	NP_835363	Q8NFZ0	FBX18_HUMAN	F-box only protein, helicase, 18 isoform 2	139	F-box.				DNA repair	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(2)|skin(1)	3						CGGGACCAGCCGGTGGGATGG	0.617													8	20					0	0	1	0	0		T	5948257	T	T	5948257	3	4	49	1	0	0	0	0	1	0	0	0	5745	643	23	1	587	1	FBXO18	10	5948257	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4877692	5948257	129586490	771	37451											
NMT2	9397	broad.mit.edu	37	chr10	15175100	15175100	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcggaacatattgtcatcaTcttctacgtaattctcattt	11	17	4	9	2	5	0	3	0	3	0	7	1	5	1	0	1	2	1	0	1	4	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:15175100T>C	uc001inz.1	-	5	638	c.554A>G	c.(553-555)GAT>GGT	p.D185G	NMT2_uc001ioa.1_Missense_Mutation_p.D172G|NMT2_uc009xjo.1_Missense_Mutation_p.D185G|NMT2_uc010qbz.1_5'UTR	NM_004808	NP_004799	O60551	NMT2_HUMAN	N-myristoyltransferase 2	185					N-terminal protein myristoylation|protein lipoylation	Golgi apparatus|plasma membrane	glycylpeptide N-tetradecanoyltransferase activity			ovary(1)	1						ATTGTCATCATCTTCTACGTA	0.418													9	76					0	0	1	0	0		C	15175100	C	C	15175100	3	2	49	1	0	0	0	0	1	0	0	0	10523	1435	50	3	974	3	NMT2	10	15175100	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	9226843	15175100	120359647	772	37452											
CUBN	8029	broad.mit.edu	37	chr10	17146585	17146585	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacctgagtcacacttacaaAaataaccagagacagtgtcc	17	7	6	11	0	1	2	1	1	0	1	2	3	2	2	3	0	3	0	3	0	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:17146585A>C	uc001ioo.2	-	12	1302	c.1250T>G	c.(1249-1251)TTT>TGT	p.F417C		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	417	EGF-like 6.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	ACACTTACAAAAATAACCAGA	0.373													3	19					0	0	1	0	0		C	17146585	C	C	17146585	3	2	49	1	0	0	0	0	1	0	0	0	4054	14	1	5	9845	5	CUBN	10	17146585	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1971485	17146585	118388162	773	37453											
ST8SIA6	338596	broad.mit.edu	37	chr10	17363172	17363172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccagatctttcaggtacttgGgatggaaaaatagaaccttt	13	12	9	7	0	2	2	1	0	1	2	2	4	2	4	2	3	2	1	2	3	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:17363172G>A	uc001ipd.2	-	8	902	c.902C>T	c.(901-903)CCC>CTC	p.P301L	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	301	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						CAGGTACTTGGGATGGAAAAA	0.468													14	225					0	0	1	0	0		A	17363172	A	A	17363172	3	1	49	1	0	0	0	0	1	0	0	0	15261	1232	43	4	298	4	ST8SIA6	10	17363172	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	216587	17363172	118171575	774	37454											
CACNB2	783	broad.mit.edu	37	chr10	18828510	18828510	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgttcccgggacgtggatCgagagcaggaccacaacgag	11	4	14	12	5	0	1	0	0	0	1	2	6	1	4	3	3	2	2	3	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:18828510C>T	uc001ipr.2	+	14	1900	c.1840C>T	c.(1840-1842)CGA>TGA	p.R614*	CACNB2_uc009xjz.1_Nonsense_Mutation_p.R364*|CACNB2_uc001ips.2_Nonsense_Mutation_p.R590*|CACNB2_uc001ipt.2_Nonsense_Mutation_p.R576*|CACNB2_uc001ipu.2_Nonsense_Mutation_p.R586*|CACNB2_uc001ipv.2_Nonsense_Mutation_p.R562*|CACNB2_uc009xka.1_Nonsense_Mutation_p.R548*|CACNB2_uc001ipw.2_Nonsense_Mutation_p.R521*|CACNB2_uc001ipx.2_Nonsense_Mutation_p.R559*|CACNB2_uc001ipz.2_Nonsense_Mutation_p.R536*|CACNB2_uc001ipy.2_Nonsense_Mutation_p.R560*|CACNB2_uc010qco.1_Nonsense_Mutation_p.R528*|CACNB2_uc001iqa.2_Nonsense_Mutation_p.R566*|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	614					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GGACGTGGATCGAGAGCAGGA	0.552													9	46					0	0	1	0	0		T	18828510	T	T	18828510	4	4	49	1	0	0	0	0	0	1	0	0	2556	876	31	1	2204	1	CACNB2	10	18828510	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1465338	18828510	116706237	775	37455											
PLXDC2	84898	broad.mit.edu	37	chr10	20465998	20465998	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaaattaccaacatttcGgctgtggagatgaccccatt	13	11	7	10	1	1	2	1	1	0	1	2	3	1	2	3	2	2	1	3	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:20465998G>A	uc001iqg.1	+	8	1591	c.954G>A	c.(952-954)TCG>TCA	p.S318S	PLXDC2_uc001iqh.1_Silent_p.S269S|PLXDC2_uc009xkc.1_RNA	NM_032812	NP_116201	Q6UX71	PXDC2_HUMAN	plexin domain containing 2 precursor	318	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4						CCAACATTTCGGCTGTGGAGA	0.323													36	95					0	0	1	0	0		A	20465998	A	A	20465998	2	1	49	1	0	0	0	0	0	0	0	1	12137	1103	39	1		1	PLXDC2	10	20465998	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1637488	20465998	115068749	776	37456											
PIP4K2A	5305	broad.mit.edu	37	chr10	22880634	22880634	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgatgatgtatcttttgTcgtaggaagtgtgaaaacga	11	15	11	4	2	2	3	0	3	2	0	3	5	2	4	0	1	1	2	0	1	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:22880634T>C	uc001irl.3	-	4	664	c.416A>G	c.(415-417)GAC>GGC	p.D139G	PIP4K2A_uc010qcu.1_5'UTR	NM_005028	NP_005019	P48426	PI42A_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	139	PIPK.						1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding			ovary(1)|skin(1)	2						GTATCTTTTGTCGTAGGAAGT	0.498													5	67					0	0	1	0	0		C	22880634	C	C	22880634	3	2	49	1	0	0	0	0	1	0	0	0	11955	1667	58	3	832	3	PIP4K2A	10	22880634	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2414636	22880634	112654113	777	37457											
ARMC3	219681	broad.mit.edu	37	chr10	23319585	23319585	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaagaggttatggtggtAccaaaatttgttggtgaagg	12	11	16	2	0	0	2	0	1	0	1	0	4	0	3	1	6	1	3	1	6	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:23319585A>G	uc001irm.3	+	17	2189	c.2106A>G	c.(2104-2106)GTA>GTG	p.V702V	ARMC3_uc010qcv.1_Silent_p.V695V|ARMC3_uc010qcw.1_Silent_p.V439V	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	702							binding				0						TTATGGTGGTACCAAAATTTG	0.299													5	70					0	0	1	0	0		G	23319585	G	G	23319585	2	3	49	1	0	0	0	0	0	0	0	1	953	378	14	3		3	ARMC3	10	23319585	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	438951	23319585	112215162	778	37458											
KIAA1217	56243	broad.mit.edu	37	chr10	24832970	24832970	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcactcaagccattcgcAccggaactaaaacagggaag	14	6	8	13	2	2	0	2	0	1	0	4	2	2	2	2	2	3	1	2	2	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:24832970A>G	uc001iru.3	+	19	5174	c.4771A>G	c.(4771-4773)ACC>GCC	p.T1591A	KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron|KIAA1217_uc001irw.2_Intron|KIAA1217_uc001irz.2_Intron|KIAA1217_uc001irx.2_Missense_Mutation_p.T1274A|KIAA1217_uc001iry.2_Intron|KIAA1217_uc001isa.1_Missense_Mutation_p.T427A	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	1591					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						AGCCATTCGCACCGGAACTAA	0.483													22	65					0	0	1	0	0		G	24832970	G	G	24832970	3	3	49	1	0	0	0	0	1	0	0	0	8232	159	6	3	4845	3	KIAA1217	10	24832970	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1513385	24832970	110701777	779	37459											
KIAA1217	56243	broad.mit.edu	37	chr10	24834018	24834018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccaaactgcaggatcccCgccaatatcgtcaggtagtt	11	9	9	12	2	1	0	1	0	0	0	4	1	3	1	4	2	2	3	4	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:24834018C>T	uc001iru.3	+	20	5723	c.5320C>T	c.(5320-5322)CGC>TGC	p.R1774C	KIAA1217_uc001irs.2_Missense_Mutation_p.R1095C|KIAA1217_uc001irt.3_Missense_Mutation_p.R1140C|KIAA1217_uc010qcy.1_Missense_Mutation_p.R1205C|KIAA1217_uc010qcz.1_Missense_Mutation_p.R1180C|KIAA1217_uc001irw.2_Missense_Mutation_p.R924C|KIAA1217_uc001irz.2_Missense_Mutation_p.R858C|KIAA1217_uc001irx.2_Missense_Mutation_p.R1457C|KIAA1217_uc001iry.2_Missense_Mutation_p.R898C	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	1774					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						GCAGGATCCCCGCCAATATCG	0.502													4	54					0	0	1	0	0		T	24834018	T	T	24834018	3	4	49	1	0	0	0	0	1	0	0	0	8232	652	23	1	5398	1	KIAA1217	10	24834018	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1048	24834018	110700729	780	37460											
KIAA1217	56243	broad.mit.edu	37	chr10	24835181	24835181	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggaccatccatactcccagCctcaccagctacaaggcaca	13	5	6	17	0	1	0	1	0	0	0	3	1	3	1	5	2	4	2	5	2	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:24835181C>T	uc001iru.3	+	21	6163	c.5760C>T	c.(5758-5760)AGC>AGT	p.S1920S	KIAA1217_uc001irs.2_Silent_p.S1241S|KIAA1217_uc001irt.3_Silent_p.S1286S|KIAA1217_uc010qcy.1_Silent_p.S1351S|KIAA1217_uc010qcz.1_Silent_p.S1326S|KIAA1217_uc001irw.2_3'UTR|KIAA1217_uc001irz.2_3'UTR|KIAA1217_uc001irx.2_3'UTR|KIAA1217_uc001iry.2_3'UTR	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	1920					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						ATACTCCCAGCCTCACCAGCT	0.368													4	57					0	0	1	0	0		T	24835181	T	T	24835181	2	4	49	1	0	0	0	0	0	0	0	1	8232	738	26	2		2	KIAA1217	10	24835181	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1163	24835181	110699566	781	37461											
MYO3A	53904	broad.mit.edu	37	chr10	26455050	26455050	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgcatgagccctgacacCtgtgccaccattttggaaaa	10	8	8	15	1	0	2	0	2	0	0	0	3	0	3	6	1	2	1	6	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:26455050C>A	uc001isn.2	+	27	3414	c.3054C>A	c.(3052-3054)ACC>ACA	p.T1018T	MYO3A_uc009xko.1_Silent_p.T1018T|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1018	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GCCCTGACACCTGTGCCACCA	0.423													26	189					1.88708e-17	2.06434e-17	1	1	0		A	26455050	A	A	26455050	2	1	49	1	0	0	0	0	0	0	0	1	10094	668	24	5		5	MYO3A	10	26455050	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1619869	26455050	109079697	782	37462											
SVIL	6840	broad.mit.edu	37	chr10	29762771	29762772	+	Frame_Shift_Ins	INS	-	C	C																															ctccccaggactcacctgggINScccccctttcctcgtccagc																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:29762771_29762772insC	uc001iut.1	-	30	6277_6278	c.5524_5525insG	c.(5524-5526)GCCfs	p.A1842fs	LOC387647_uc001iup.2_Intron|LOC387647_uc001iuq.1_Intron|SVIL_uc010qdw.1_Frame_Shift_Ins_p.A756fs|SVIL_uc001iuu.1_Frame_Shift_Ins_p.A1416fs	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1842	Gelsolin-like 3.				cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				ACTCACCTGGGCCCCCCTTTCC	0.639													28	57	---	---	---	---						.	C	29762772	C	C	29762771	7	5	49	1	0	1	1	0	0	0	0	0	15446	1203	42	0	1155	0	SVIL	10	29762771	Frame_Shift_Ins	INS	-	TCGA-BR-7707-01A-11D-2053-08	3307721	29762771	105771976	783	37463											
ZNF248	57209	broad.mit.edu	37	chr10	38121220	38121220	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaattactcccattttcatTgtaatcataagactttcccc	12	15	3	11	0	2	1	2	0	0	1	4	2	4	1	3	0	1	1	3	0	4	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:38121220T>C	uc001izd.1	-	6	1562	c.1063A>G	c.(1063-1065)AAT>GAT	p.N355D	ZNF248_uc009xmc.2_Intron|ZNF248_uc001izb.2_Intron|ZNF248_uc001izc.2_Intron|ZNF248_uc010qeu.1_Missense_Mutation_p.N355D	NM_021045	NP_066383	Q8NDW4	ZN248_HUMAN	zinc finger protein 248	355					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCATTTTCATTGTAATCATAA	0.393													5	91					0	0	1	0	0		C	38121220	C	C	38121220	3	2	49	1	0	0	0	0	1	0	0	0	17818	1812	63	3	680	3	ZNF248	10	38121220	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	8358449	38121220	97413527	784	37464											
ZNF37A	7587	broad.mit.edu	37	chr10	38406985	38406985	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaaccctatgaatgtcaTgaatgtgggaagaccttcta	14	10	10	7	0	2	3	1	2	1	1	2	5	2	5	2	2	1	0	2	2	7	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:38406985T>C	uc001izk.2	+	8	1725	c.906T>C	c.(904-906)CAT>CAC	p.H302H	ZNF37A_uc001izl.2_Silent_p.H302H|ZNF37A_uc001izm.2_Silent_p.H302H	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	302	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						ATGAATGTCATGAATGTGGGA	0.413													11	99					0	0	1	0	0		C	38406985	C	C	38406985	2	2	49	1	0	0	0	0	0	0	0	1	17897	1461	51	3		3	ZNF37A	10	38406985	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	285765	38406985	97127762	785	37465											
OGDHL	55753	broad.mit.edu	37	chr10	50946001	50946001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggagactcaccggcttgcGgaagggcagcaggatctgcc	9	5	15	12	3	2	1	1	0	1	1	2	4	2	3	2	5	3	3	2	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:50946001G>A	uc001jie.2	-	19	2651	c.2509C>T	c.(2509-2511)CGC>TGC	p.R837C	OGDHL_uc009xog.2_Missense_Mutation_p.R864C|OGDHL_uc010qgt.1_Missense_Mutation_p.R780C|OGDHL_uc010qgu.1_Missense_Mutation_p.R628C	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	837					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding	p.R837L(1)		pancreas(1)	1						ACCGGCTTGCGGAAGGGCAGC	0.652													47	99					0	0	1	0	0		A	50946001	A	A	50946001	3	1	49	1	0	0	0	0	1	0	0	0	10859	1116	39	1	543	1	OGDHL	10	50946001	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	12539016	50946001	84588746	786	37466											
AGAP6	414189	broad.mit.edu	37	chr10	51769465	51769465	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggatgactggccagttgAgctcaggaaggttatgtcat	9	11	14	7	0	2	2	2	2	0	0	2	4	2	4	1	4	1	4	1	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:51769465A>G	uc001jix.3	+	8	1978	c.1580A>G	c.(1579-1581)GAG>GGG	p.E527G		NM_001077665	NP_001071133	Q5VW22	AGAP6_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	527					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			skin(1)	1						TGGCCAGTTGAGCTCAGGAAG	0.537													31	210					0	0	1	0	0		G	51769465	G	G	51769465	3	3	49	1	0	0	0	0	1	0	0	0	372	304	11	3	1610	3	AGAP6	10	51769465	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	823464	51769465	83765282	787	37467											
DKK1	22943	broad.mit.edu	37	chr10	54074807	54074807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgaaaacgctgcatgcGtcacgctatgtgctgccccg	7	7	12	15	6	1	0	1	0	0	0	1	1	1	0	3	0	5	4	3	0	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:54074807G>A	uc001jjr.2	+	2	522	c.368G>A	c.(367-369)CGT>CAT	p.R123H	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	123	DKK-type Cys-1.				negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						CGCTGCATGCGTCACGCTATG	0.562											OREG0020191	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	37					0	0	1	0	0		A	54074807	A	A	54074807	3	1	49	1	0	0	0	0	1	0	0	0	4550	1145	40	1	374	1	DKK1	10	54074807	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2305342	54074807	81459940	788	37468											
SLC16A9	220963	broad.mit.edu	37	chr10	61412656	61412656	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccagcaggacgcagaaGccactaaaataaaatgcaat	17	5	7	12	1	0	1	0	0	0	1	1	2	1	2	3	1	3	3	3	1	6	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:61412656G>A	uc010qig.1	-	6	1853	c.1404C>T	c.(1402-1404)GGC>GGT	p.G468G		NM_194298	NP_919274	Q7RTY1	MOT9_HUMAN	solute carrier family 16 (monocarboxylic acid	468	Helical; (Potential).				urate metabolic process	integral to membrane|plasma membrane	symporter activity			skin(2)|ovary(1)	3						GGACGCAGAAGCCACTAAAAT	0.433													6	70					0	0	1	0	0		A	61412656	A	A	61412656	2	1	49	1	0	0	0	0	0	0	0	1	14440	958	34	2		2	SLC16A9	10	61412656	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	7337849	61412656	74122091	789	37469											
ANK3	288	broad.mit.edu	37	chr10	61846435	61846435	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagtgacttaaccaaacCtgtaatgctacagagaagac	16	7	8	10	0	0	3	0	1	0	2	0	4	0	3	2	0	5	3	2	0	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:61846435C>A	uc001jky.2	-	30	3940	c.3748G>T	c.(3748-3750)GGG>TGG	p.G1250W	ANK3_uc001jkw.2_Missense_Mutation_p.G384W|ANK3_uc009xpa.2_Missense_Mutation_p.G384W|ANK3_uc001jkx.2_Missense_Mutation_p.G428W|ANK3_uc010qih.1_Missense_Mutation_p.G1251W|ANK3_uc001jkz.3_Missense_Mutation_p.G1244W|ANK3_uc001jla.1_Missense_Mutation_p.G316W|ANK3_uc001jlb.1_Missense_Mutation_p.G768W	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1250					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTAACCAAACCTGTAATGCTA	0.423													12	94					1.61879e-10	1.743e-10	1	1	0		A	61846435	A	A	61846435	3	1	49	1	0	0	0	0	1	0	0	0	622	695	24	5	9754	5	ANK3	10	61846435	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	433779	61846435	73688312	790	37470											
TET1	80312	broad.mit.edu	37	chr10	70426987	70426987	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatacaatgggcaccctacCgacagaagatgcaccctcaa	14	6	7	14	1	2	2	2	0	0	2	2	3	2	2	3	1	3	2	3	1	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:70426987C>T	uc001jok.3	+	7	5152	c.4647C>T	c.(4645-4647)ACC>ACT	p.T1549T		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1549					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						GGCACCCTACCGACAGAAGAT	0.418													4	18					0	0	1	0	0		T	70426987	T	T	70426987	2	4	49	1	0	0	0	0	0	0	0	1	15794	639	23	1		1	TET1	10	70426987	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	8580552	70426987	65107760	791	37471											
TET1	80312	broad.mit.edu	37	chr10	70450635	70450635	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttatcttaaaaagttcAgacaacactaaaacttattc	17	14	2	8	0	2	1	1	0	1	1	3	1	2	1	0	0	2	1	0	0	8	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:70450635A>G	uc001jok.3	+	12	5980	c.5475A>G	c.(5473-5475)TCA>TCG	p.S1825S		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1825					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						TAAAAAGTTCAGACAACACTA	0.458													8	79					0	0	1	0	0		G	70450635	G	G	70450635	2	3	49	1	0	0	0	0	0	0	0	1	15794	175	7	3		3	TET1	10	70450635	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	23648	70450635	65084112	792	37472											
DDX50	79009	broad.mit.edu	37	chr10	70696828	70696828	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcatcaagctttgaaccaCgatctttgatcacctctgat	10	13	7	11	1	4	3	2	3	2	0	4	4	4	3	2	0	3	2	2	0	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:70696828C>T	uc001jou.2	+	12	1839	c.1732C>T	c.(1732-1734)CGA>TGA	p.R578*	DDX50_uc010qjc.1_Nonsense_Mutation_p.R578*	NM_024045	NP_076950	Q9BQ39	DDX50_HUMAN	nucleolar protein GU2	578						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1						CTTTGAACCACGATCTTTGAT	0.398													24	92					0	0	1	0	0		T	70696828	T	T	70696828	4	4	49	1	0	0	0	0	0	1	0	0	4371	528	19	1	1778	1	DDX50	10	70696828	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	246193	70696828	64837919	793	37473											
SUPV3L1	6832	broad.mit.edu	37	chr10	70968476	70968476	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgattaaaatgtctgagacGcataagctgttgaatttgga	13	14	10	4	1	1	3	0	3	1	1	1	5	1	4	0	1	1	3	0	1	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:70968476G>T	uc001jpe.1	+	15	2101	c.2046G>T	c.(2044-2046)ACG>ACT	p.T682T	SUPV3L1_uc010qjd.1_Silent_p.T551T	NM_003171	NP_003162	Q8IYB8	SUV3_HUMAN	suppressor of var1, 3-like 1 precursor	682	Interaction with HBXIP, important for protein stability.				DNA duplex unwinding	mitochondrial nucleoid|nucleus	ATP binding|DNA binding|DNA helicase activity|RNA binding			urinary_tract(1)|ovary(1)	2						TGTCTGAGACGCATAAGCTGT	0.448													14	76					3.27435e-08	3.4883e-08	1	1	0		T	70968476	T	T	70968476	2	4	49	1	0	0	0	0	0	0	0	1	15427	1074	38	5		5	SUPV3L1	10	70968476	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	271648	70968476	64566271	794	37474											
SGPL1	8879	broad.mit.edu	37	chr10	72630885	72630885	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatggtgtaatagatccTgtccctgaagtggccaaggt	9	11	11	10	0	1	2	1	1	0	1	3	2	3	2	4	3	0	1	4	3	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:72630885T>C	uc001jrm.2	+	10	1113	c.891T>C	c.(889-891)CCT>CCC	p.P297P	SGPL1_uc009xqk.2_RNA	NM_003901	NP_003892	O95470	SGPL1_HUMAN	sphingosine-1-phosphate lyase 1	297	Cytoplasmic (Potential).				apoptosis|carboxylic acid metabolic process|ceramide metabolic process|sphingolipid catabolic process	integral to endoplasmic reticulum membrane	carboxy-lyase activity|pyridoxal phosphate binding|sphinganine-1-phosphate aldolase activity				0					Pyridoxal Phosphate(DB00114)	TAATAGATCCTGTCCCTGAAG	0.438													24	46					0	0	1	0	0		C	72630885	C	C	72630885	2	2	49	1	0	0	0	0	0	0	0	1	14243	1567	55	3		3	SGPL1	10	72630885	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1662409	72630885	62903862	795	37475											
CDH23	64072	broad.mit.edu	37	chr10	73567408	73567408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcagctggacacctccccGtggaccctccccaaccctcg	6	6	8	21	3	0	0	0	0	0	0	4	2	2	2	7	2	2	2	7	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:73567408G>A	uc001jrx.3	+	57	8821	c.8444G>A	c.(8443-8445)CGT>CAT	p.R2815H	CDH23_uc001jsg.3_Missense_Mutation_p.R575H|CDH23_uc001jsh.3_Missense_Mutation_p.R575H|CDH23_uc001jsi.3_Missense_Mutation_p.R575H	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	2815	Cadherin 26.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						ACACCTCCCCGTGGACCCTCC	0.622													6	24					0	0	1	0	0		A	73567408	A	A	73567408	3	1	49	1	0	0	0	0	1	0	0	0	3111	1145	40	1	9019	1	CDH23	10	73567408	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	936523	73567408	61967339	796	37476											
OIT3	170392	broad.mit.edu	37	chr10	74658557	74658557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaccacttcacgggcatggCgggagatgccatgcctacct	8	8	12	13	2	1	1	1	0	0	1	1	2	1	1	4	3	4	2	4	3	2	3	rs141122150		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:74658557C>T	uc001jte.1	+	2	415	c.197C>T	c.(196-198)GCG>GTG	p.A66V	OIT3_uc009xqs.1_RNA	NM_152635	NP_689848	Q8WWZ8	OIT3_HUMAN	oncoprotein-induced transcript 3 precursor	66						nuclear envelope	calcium ion binding			ovary(2)	2	Prostate(51;0.0198)					ACGGGCATGGCGGGAGATGCC	0.567													21	42					0	0	1	0	0		T	74658557	T	T	74658557	3	4	49	1	0	0	0	0	1	0	0	0	10868	768	27	1	203	1	OIT3	10	74658557	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1091149	74658557	60876190	797	37477											
AGAP5	729092	broad.mit.edu	37	chr10	75451802	75451802	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttgagtgtttacttacaTggtttgtacagttgcttctt	7	21	8	5	0	1	1	0	1	1	0	1	1	1	1	0	1	4	5	0	1	4	10			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:75451802T>C	uc009xri.2	-	4	436	c.395A>G	c.(394-396)CAT>CGT	p.H132R	AGAP5_uc001juu.3_Missense_Mutation_p.H93R	NM_001144000	NP_001137472	A6NIR3	AGAP5_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	132					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						TTTACTTACATGGTTTGTACA	0.299													3	79					0	0	1	0	0		C	75451802	C	C	75451802	3	2	49	1	0	0	0	0	1	0	0	0	371	1478	51	3	1685	3	AGAP5	10	75451802	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	793245	75451802	60082945	798	37478											
CAMK2G	818	broad.mit.edu	37	chr10	75620588	75620588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatgcccaggcactcacCgatgtttggatgtttcagaa	9	11	9	12	1	2	1	2	0	0	1	3	3	3	2	3	2	1	3	3	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:75620588C>T	uc001jvv.1	-	3	320	c.196G>A	c.(196-198)GTG>ATG	p.V66M	CAMK2G_uc001jvm.1_Missense_Mutation_p.V74M|CAMK2G_uc001jvo.1_Missense_Mutation_p.V74M|CAMK2G_uc001jvq.1_Missense_Mutation_p.V74M|CAMK2G_uc001jvr.1_Missense_Mutation_p.V74M|CAMK2G_uc001jvp.1_Missense_Mutation_p.V74M|CAMK2G_uc001jvs.1_Missense_Mutation_p.V74M|CAMK2G_uc001jvt.1_RNA|CAMK2G_uc001jvu.1_Missense_Mutation_p.V74M|CAMK2G_uc010qkv.1_5'UTR	NM_172171	NP_751911	Q13555	KCC2G_HUMAN	calcium/calmodulin-dependent protein kinase II	74	Protein kinase.				insulin secretion|interferon-gamma-mediated signaling pathway|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calcium-dependent protein serine/threonine phosphatase activity|calmodulin binding|calmodulin-dependent protein kinase activity			lung(1)|stomach(1)	2	Prostate(51;0.0112)					AGGCACTCACCGATGTTTGGA	0.453													8	100					0	0	1	0	0		T	75620588	T	T	75620588	3	4	49	1	0	0	0	0	1	0	0	0	2605	666	23	1	1626	1	CAMK2G	10	75620588	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	168786	75620588	59914159	799	37479											
VCL	7414	broad.mit.edu	37	chr10	75843188	75843188	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaagttggtgaactctgTgcaggcaaagaacgcaggga	14	6	15	6	1	1	2	0	1	1	1	1	4	1	4	0	4	3	4	0	4	5	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:75843188T>C	uc001jwd.2	+	8	1033	c.939T>C	c.(937-939)TGT>TGC	p.C313C	VCL_uc009xrr.2_Silent_p.C62C|VCL_uc010qky.1_Silent_p.C220C|VCL_uc001jwe.2_Silent_p.C313C|VCL_uc010qkz.1_Intron	NM_014000	NP_054706	P18206	VINC_HUMAN	vinculin isoform meta-VCL	313	1.|N-terminal globular head.|3 X 112 AA tandem repeats.				adherens junction assembly|apical junction assembly|cell-matrix adhesion|cellular component movement|epithelial cell-cell adhesion|lamellipodium assembly|morphogenesis of an epithelium|muscle contraction|negative regulation of cell migration|platelet activation|platelet degranulation|protein localization at cell surface	costamere|cytosol|extracellular region|focal adhesion	actin binding|alpha-catenin binding|beta-catenin binding|beta-dystroglycan binding|cadherin binding|structural molecule activity		VCL/ALK(4)	kidney(4)|ovary(1)|central_nervous_system(1)	6	Prostate(51;0.0112)					GTGAACTCTGTGCAGGCAAAG	0.458													4	80					0	0	1	0	0		C	75843188	C	C	75843188	2	2	49	1	0	0	0	0	0	0	0	1	17165	1702	59	3		3	VCL	10	75843188	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	222600	75843188	59691559	800	37480											
ZMIZ1	57178	broad.mit.edu	37	chr10	81051995	81051995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgacttcactcagcccgCggcagccgctgcagcagcgg	6	6	13	16	4	2	1	2	1	0	0	2	1	2	1	2	2	6	5	2	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:81051995C>T	uc001kaf.2	+	11	1411	c.839C>T	c.(838-840)GCG>GTG	p.A280V	ZMIZ1_uc001kag.2_Missense_Mutation_p.A156V|ZMIZ1_uc001kah.1_Missense_Mutation_p.A156V	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	280	Ala-rich.				transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			ACTCAGCCCgcggcagccgct	0.522													5	59					0	0	1	0	0		T	81051995	T	T	81051995	3	4	49	1	0	0	0	0	1	0	0	0	17721	768	27	1	865	1	ZMIZ1	10	81051995	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5208807	81051995	54482752	801	37481											
ZMIZ1	57178	broad.mit.edu	37	chr10	81060696	81060696	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaccgtcacggcctgctgCtgcgtgagtgtggtgggcca	5	9	15	12	3	2	1	2	1	0	0	2	1	2	1	3	3	3	2	3	3	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:81060696C>T	uc001kaf.2	+	17	2588	c.2016C>T	c.(2014-2016)TGC>TGT	p.C672C	ZMIZ1_uc001kag.2_Silent_p.C548C	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	672					transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			CGGCCTGCTGCTGCGTGAGTG	0.647													3	35					0	0	1	0	0		T	81060696	T	T	81060696	2	4	49	1	0	0	0	0	0	0	0	1	17721	805	28	2		2	ZMIZ1	10	81060696	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	8701	81060696	54474051	802	37482											
CDHR1	92211	broad.mit.edu	37	chr10	85973974	85973974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccaccgccaccttctggcGcaacaagaagtctaacaagg	12	6	8	15	2	2	1	0	0	2	1	3	1	3	1	4	2	2	1	4	2	5	2	rs142917517		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:85973974G>A	uc001kcv.2	+	17	2177	c.2177G>A	c.(2176-2178)CGC>CAC	p.R726H	CDHR1_uc001kcw.2_Intron|CDHR1_uc009xst.2_Missense_Mutation_p.R430H|CDHR1_uc001kcx.2_Missense_Mutation_p.R40H	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	726	Cytoplasmic (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						ACCTTCTGGCGCAACAAGAAG	0.642													27	43					0	0	1	0	0		A	85973974	A	A	85973974	3	1	49	1	0	0	0	0	1	0	0	0	3121	1087	38	1	2243	1	CDHR1	10	85973974	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4913278	85973974	49560773	803	37483											
PAPSS2	9060	broad.mit.edu	37	chr10	89487166	89487166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtagctatcttacgagacGctgaattctatgaacacaga	13	10	10	8	2	2	4	0	2	2	2	2	5	2	4	0	1	3	3	0	1	6	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:89487166G>A	uc001kex.2	+	8	1254	c.991G>A	c.(991-993)GCT>ACT	p.A331T	PAPSS2_uc001kew.2_Missense_Mutation_p.A336T|PAPSS2_uc009xtg.1_RNA	NM_004670	NP_004661	O95340	PAPS2_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase 2	331	Adenylyl-sulfate kinase.				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|protein binding|sulfate adenylyltransferase (ATP) activity			central_nervous_system(1)|skin(1)	2		Melanoma(5;0.019)|Colorectal(252;0.123)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00164)|Colorectal(12;0.000323)|COAD - Colon adenocarcinoma(12;0.00124)		CTTACGAGACGCTGAATTCTA	0.493													19	35					0	0	1	0	0		A	89487166	A	A	89487166	3	1	49	1	0	0	0	0	1	0	0	0	11454	1087	38	1	1040	1	PAPSS2	10	89487166	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3513192	89487166	46047581	804	37484											
CH25H	9023	broad.mit.edu	37	chr10	90966256	90966256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgggacagatgcagtcCgcagcgttcccagtattttg	7	10	13	11	3	0	1	0	0	0	1	2	2	2	2	2	1	2	5	2	1	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:90966256C>T	uc001kfz.2	-	1	816	c.794G>A	c.(793-795)CGG>CAG	p.R265Q		NM_003956	NP_003947	O95992	CH25H_HUMAN	cholesterol 25-hydroxylase	265					bile acid biosynthetic process|fatty acid biosynthetic process|sterol biosynthetic process	cytosol|endoplasmic reticulum membrane|integral to membrane	cholesterol 25-hydroxylase activity|iron ion binding				0		Colorectal(252;0.0161)		GBM - Glioblastoma multiforme(2;0.000133)		AGATGCAGTCCGCAGCGTTCC	0.557													6	18					0	0	1	0	0		T	90966256	T	T	90966256	3	4	49	1	0	0	0	0	1	0	0	0	3310	652	23	1	28	1	CH25H	10	90966256	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1479090	90966256	44568491	805	37485											
IFIT5	24138	broad.mit.edu	37	chr10	91177661	91177661	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgcagaagctgaaggggaAaagtatattgaagaaatcct	17	8	11	5	0	0	4	0	2	0	2	1	5	1	5	1	2	2	3	1	2	8	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:91177661A>G	uc010qnh.1	+	2	936	c.705A>G	c.(703-705)GAA>GAG	p.E235E	IFIT5_uc010qng.1_Silent_p.E187E	NM_012420	NP_036552	Q13325	IFIT5_HUMAN	interferon-induced protein with	235							binding				0						CTGAAGGGGAAAAGTATATTG	0.423													26	52					0	0	1	0	0		G	91177661	G	G	91177661	2	3	49	1	0	0	0	0	0	0	0	1	7541	11	1	3		3	IFIT5	10	91177661	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	211405	91177661	44357086	806	37486											
SLC16A12	387700	broad.mit.edu	37	chr10	91192956	91192956	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagattctttggcaatgaaCtgcaactgggtttttctcat	9	16	8	8	0	3	2	2	1	2	1	4	2	3	2	0	2	3	3	0	2	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:91192956C>A	uc001kgm.2	-	8	1717	c.1326G>T	c.(1324-1326)CAG>CAT	p.Q442H	SLC16A12_uc001kgl.2_Missense_Mutation_p.Q114H	NM_213606	NP_998771	Q6ZSM3	MOT12_HUMAN	solute carrier family 16 (monocarboxylic acid	442	Extracellular (Potential).					integral to membrane|plasma membrane	symporter activity			skin(1)	1						TGGCAATGAACTGCAACTGGG	0.423													5	122					0.184627	0.185277	1	1	0		A	91192956	A	A	91192956	3	1	49	1	0	0	0	0	1	0	0	0	14430	564	20	5	138	5	SLC16A12	10	91192956	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	15295	91192956	44341791	807	37487											
MYOF	26509	broad.mit.edu	37	chr10	95157162	95157162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccttgatctgaagattgaCgacctgattccactctgggt	10	12	9	10	1	2	5	0	4	2	1	3	6	3	5	3	1	1	0	3	1	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:95157162C>T	uc001kin.2	-	14	1396	c.1273G>A	c.(1273-1275)GTC>ATC	p.V425I	MYOF_uc001kio.2_Missense_Mutation_p.V425I|MYOF_uc001kip.3_Missense_Mutation_p.V425I|MYOF_uc009xuf.2_Missense_Mutation_p.V407I	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	425	Cytoplasmic (Potential).|C2 3.				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						TGAAGATTGACGACCTGATTC	0.294													17	34					0	0	1	0	0		T	95157162	T	T	95157162	3	4	49	1	0	0	0	0	1	0	0	0	10107	536	19	1	5076	1	MYOF	10	95157162	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3964206	95157162	40377585	808	37488											
ALDH18A1	5832	broad.mit.edu	37	chr10	97402812	97402812	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatcccctcgggtcaccacGgcactgccgagcttcaccac	7	7	8	19	3	3	0	3	0	0	0	5	1	4	0	5	2	2	2	5	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:97402812G>A	uc001kkz.2	-	3	482	c.240C>T	c.(238-240)GCC>GCT	p.A80A	ALDH18A1_uc001kky.2_Silent_p.A80A|ALDH18A1_uc010qog.1_Intron|ALDH18A1_uc010qoh.1_Intron	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	80	Glutamate 5-kinase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)	GGGTCACCACGGCACTGCCGA	0.532													20	37					0	0	1	0	0		A	97402812	A	A	97402812	2	1	49	1	0	0	0	0	0	0	0	1	489	1103	39	1		1	ALDH18A1	10	97402812	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2245650	97402812	38131935	809	37489											
CCNJ	54619	broad.mit.edu	37	chr10	97817760	97817760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgcagtatcgccatcctaCgtcagaacaaccaagctgtc	12	8	7	14	2	1	1	1	0	0	1	4	1	2	1	3	0	5	3	3	0	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:97817760C>T	uc001klm.2	+	6	1240	c.881C>T	c.(880-882)ACG>ATG	p.T294M	uc001klg.1_Intron|uc001klj.1_Intron|uc009xvb.1_Intron|CCNJ_uc010qoq.1_Missense_Mutation_p.T305M|CCNJ_uc001kln.2_Missense_Mutation_p.T293M	NM_019084	NP_061957	Q5T5M9	CCNJ_HUMAN	cyclin J isoform 2	294						nucleus				ovary(1)	1				Epithelial(162;6.1e-08)|all cancers(201;2.32e-06)		CGCCATCCTACGTCAGAACAA	0.507													13	200					0	0	1	0	0		T	97817760	T	T	97817760	3	4	49	1	0	0	0	0	1	0	0	0	2931	536	19	1	932	1	CCNJ	10	97817760	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	414948	97817760	37716987	810	37490											
TM9SF3	56889	broad.mit.edu	37	chr10	98336438	98336438	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attccaattcaaccccttgaAgtgcttctcccagagtttca	10	13	5	13	0	3	2	2	1	1	1	5	2	4	2	4	0	2	2	4	0	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:98336438A>C	uc001kmm.3	-	2	468	c.251T>G	c.(250-252)CTT>CGT	p.L84R	TM9SF3_uc010qot.1_Missense_Mutation_p.L84R	NM_020123	NP_064508	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3 precursor	84						integral to membrane	binding				0		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		AACCCCTTGAAGTGCTTCTCC	0.333													9	143					0	0	1	0	0		C	98336438	C	C	98336438	3	2	49	1	0	0	0	0	1	0	0	0	16004	72	3	5	1574	5	TM9SF3	10	98336438	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	518678	98336438	37198309	811	37491											
SLIT1	6585	broad.mit.edu	37	chr10	98766417	98766417	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccccattctggcactcAgtcccctcacaggggctctt	5	11	9	16	0	4	0	2	0	2	0	5	0	5	0	4	4	0	2	4	4	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:98766417A>G	uc001kmw.2	-	32	3654	c.3402T>C	c.(3400-3402)ACT>ACC	p.T1134T		NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	1134	EGF-like 6.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		TCTGGCACTCAGTCCCCTCAC	0.607													3	21					0	0	1	0	0		G	98766417	G	G	98766417	2	3	49	1	0	0	0	0	0	0	0	1	14764	175	7	3		3	SLIT1	10	98766417	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	429979	98766417	36768330	812	37492											
CRTAC1	55118	broad.mit.edu	37	chr10	99677300	99677300	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagcagccacatctctgagCgccagaatgccccgggagag	10	5	12	14	2	2	3	1	1	1	2	3	4	2	3	4	1	4	1	4	1	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:99677300C>T	uc001kou.1	-	5	1028	c.672G>A	c.(670-672)GCG>GCA	p.A224A	CRTAC1_uc001kov.2_Silent_p.A213A|CRTAC1_uc001kot.1_Silent_p.A14A	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	224						proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		CATCTCTGAGCGCCAGAATGC	0.577													16	30					0	0	1	0	0		T	99677300	T	T	99677300	2	4	49	1	0	0	0	0	0	0	0	1	3899	755	27	1		1	CRTAC1	10	99677300	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	910883	99677300	35857447	813	37493											
COX15	1355	broad.mit.edu	37	chr10	101476115	101476115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtttatacctgtgtatacGccaaagccagcagagtcact	11	11	9	10	1	1	1	1	0	0	1	1	1	1	1	3	1	4	3	3	1	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:101476115G>A	uc001kqb.3	-	8	1708	c.1091C>T	c.(1090-1092)GCG>GTG	p.A364V	COX15_uc001kqc.3_Missense_Mutation_p.A364V|COX15_uc010qpj.1_Missense_Mutation_p.A185V	NM_078470	NP_510870	Q7KZN9	COX15_HUMAN	COX15 homolog isoform 1	364	Helical; (Potential).				heme a biosynthetic process|respiratory chain complex IV assembly|respiratory gaseous exchange	integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;3.08e-10)|all cancers(201;2.43e-08)		CTGTGTATACGCCAAAGCCAG	0.368													6	156					0	0	1	0	0		A	101476115	A	A	101476115	3	1	49	1	0	0	0	0	1	0	0	0	3767	1087	38	1	219	1	COX15	10	101476115	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1798815	101476115	34058632	814	37494											
ABCC2	1244	broad.mit.edu	37	chr10	101591751	101591751	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggtatatttgtgttcataGcacatttctggagtgccttt	8	18	9	6	0	2	0	1	0	1	0	2	1	2	1	1	2	2	3	1	2	4	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:101591751G>T	uc001kqf.2	+	23	3260	c.3121G>T	c.(3121-3123)GCA>TCA	p.A1041S		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	1041	ABC transmembrane type-1 2.|Helical; Name=13; (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TGTGTTCATAGCACATTTCTG	0.433													18	173					9.57634e-11	1.03371e-10	1	1	0		T	101591751	T	T	101591751	3	4	49	1	0	0	0	0	1	0	0	0	53	971	34	5	3211	5	ABCC2	10	101591751	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	115636	101591751	33942996	815	37495											
FAM178A	55719	broad.mit.edu	37	chr10	102676365	102676365	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacaaaaatcaaacatcAaatatggaggaagtagattg	20	7	7	7	0	2	1	2	0	0	1	2	3	2	3	1	2	1	1	1	2	7	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:102676365A>G	uc001krt.3	+	3	765	c.223A>G	c.(223-225)AAA>GAA	p.K75E	FAM178A_uc001krr.1_Missense_Mutation_p.K75E|FAM178A_uc001krs.2_Missense_Mutation_p.K75E|FAM178A_uc001kru.1_Missense_Mutation_p.K11E	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	75											0						ATCAAACATCAAATATGGAGG	0.328													5	53					0	0	1	0	0		G	102676365	G	G	102676365	3	3	49	1	0	0	0	0	1	0	0	0	5514	131	5	3	233	3	FAM178A	10	102676365	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1084614	102676365	32858382	816	37496											
KAZALD1	81621	broad.mit.edu	37	chr10	102822357	102822357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccgctaaccatgctgcCgccgccgcggcccgcagctg	4	6	11	20	6	0	0	0	0	0	0	1	0	1	0	6	1	4	4	6	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:102822357C>T	uc001ksr.2	+	2	933	c.8C>T	c.(7-9)CCG>CTG	p.P3L	KAZALD1_uc001kss.3_RNA|KAZALD1_uc001kst.1_Missense_Mutation_p.P3L	NM_030929	NP_112191	Q96I82	KAZD1_HUMAN	Kazal-type serine peptidase inhibitor domain 1	3					cell differentiation|multicellular organismal development|ossification|regulation of cell growth		insulin-like growth factor binding				0				Epithelial(162;6.21e-09)|all cancers(201;3.14e-07)		ACCAtgctgccgccgccgcgg	0.433													4	11					0	0	1	0	0		T	102822357	T	T	102822357	3	4	49	1	0	0	0	0	1	0	0	0	8005	652	23	1	10	1	KAZALD1	10	102822357	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	145992	102822357	32712390	817	37497											
PSD	5662	broad.mit.edu	37	chr10	104176203	104176203	+	Frame_Shift_Del	DEL	C	-	-																															tggccaggcgctcaggggggCcccccagcccattggggaga																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:104176203delC	uc001kvg.1	-	2	1120	c.593delG	c.(592-594)GGCfs	p.G198fs	PSD_uc001kvh.1_5'UTR|PSD_uc009xxd.1_Frame_Shift_Del_p.G198fs|PSD_uc001kvi.1_Frame_Shift_Del_p.G198fs|FBXL15_uc001kvj.1_5'Flank	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	198					regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		CTCAGGGGGGCCCCCCAGCCC	0.652													7	16	---	---	---	---						.	-	104176203	-	-	104176203	7	5	49	1	0	1	0	1	0	0	0	0	12668	739	26	0	2545	0	PSD	10	104176203	Frame_Shift_Del	DEL	C	TCGA-BR-7707-01A-11D-2053-08	1353846	104176203	31358544	818	37498											
CYP17A1	1586	broad.mit.edu	37	chr10	104592406	104592406	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggctgaaacccacattcTggtcaatctcctcgtagagc	9	10	9	13	2	3	2	1	1	2	1	5	2	3	2	2	2	3	2	2	2	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:104592406T>C	uc001kwg.2	-	6	1173	c.1001A>G	c.(1000-1002)CAG>CGG	p.Q334R		NM_000102	NP_000093	P05093	CP17A_HUMAN	cytochrome P450, family 17	334					androgen biosynthetic process|glucocorticoid biosynthetic process|sex differentiation|xenobiotic metabolic process	endoplasmic reticulum membrane	electron carrier activity|heme binding|oxygen binding|steroid 17-alpha-monooxygenase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)	NADH(DB00157)|Progesterone(DB00396)	ACCCACATTCTGGTCAATCTC	0.557													14	86					0	0	1	0	0		C	104592406	C	C	104592406	3	2	49	1	0	0	0	0	1	0	0	0	4150	1580	55	3	537	3	CYP17A1	10	104592406	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	416203	104592406	30942341	819	37499											
COL17A1	1308	broad.mit.edu	37	chr10	105795035	105795035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctactatgtaagtaagacGagaggtcctccacgctgatg	11	9	10	11	2	0	3	0	1	0	2	2	4	2	3	3	1	1	3	3	1	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:105795035G>A	uc001kxr.2	-	50	3774	c.3605C>T	c.(3604-3606)TCG>TTG	p.S1202L	COL17A1_uc001kxq.2_5'Flank	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	1202	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TAAGTAAGACGAGAGGTCCTC	0.612													6	18					0	0	1	0	0		A	105795035	A	A	105795035	3	1	49	1	0	0	0	0	1	0	0	0	3677	1059	37	1	916	1	COL17A1	10	105795035	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1202629	105795035	29739712	820	37500											
CCDC147	159686	broad.mit.edu	37	chr10	106166475	106166475	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccaatgcatatgagctgaTacagaaaattcacaccctgc	14	8	6	13	0	1	3	1	2	0	1	1	3	1	3	3	0	4	2	3	0	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:106166475T>C	uc001kyh.2	+	15	2314	c.2180T>C	c.(2179-2181)ATA>ACA	p.I727T		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	727	Potential.									ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		TATGAGCTGATACAGAAAATT	0.463													9	164					0	0	1	0	0		C	106166475	C	C	106166475	3	2	49	1	0	0	0	0	1	0	0	0	2784	1406	49	3	2238	3	CCDC147	10	106166475	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	371440	106166475	29368272	821	37501											
XPNPEP1	7511	broad.mit.edu	37	chr10	111624956	111624956	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttattaatgctgtttggAgatgggttgcgtctctctga	7	18	11	5	1	2	2	0	1	2	1	3	3	2	2	0	2	2	3	0	2	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:111624956A>T	uc001kyp.1	-	21	1998	c.1858T>A	c.(1858-1860)TCC>ACC	p.S620T	XPNPEP1_uc009xxt.1_Missense_Mutation_p.S639T|XPNPEP1_uc001kyq.1_Missense_Mutation_p.S549T	NM_020383	NP_065116	Q9NQW7	XPP1_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 1,	620					bradykinin catabolic process|proteolysis		manganese ion binding|metalloaminopeptidase activity|protein homodimerization activity			ovary(3)|pancreas(1)	4		Breast(234;0.174)		Epithelial(162;1.64e-05)|all cancers(201;0.000564)|BRCA - Breast invasive adenocarcinoma(275;0.0721)		TGCTGTTTGGAGATGGGTTGC	0.488													10	90					0	0	1	0	0		T	111624956	T	T	111624956	3	4	49	1	0	0	0	0	1	0	0	0	17468	304	11	5	17	5	XPNPEP1	10	111624956	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	5458481	111624956	23909791	822	37502											
SMC3	9126	broad.mit.edu	37	chr10	112361628	112361628	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttgaaaagtaccagacaCtgagcctcaaacaggttggt	14	9	9	9	0	1	3	1	2	0	1	1	3	1	3	2	2	3	2	2	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:112361628C>T	uc001kze.2	+	24	3004	c.2878C>T	c.(2878-2880)CTG>TTG	p.L960L		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	960	Potential.				cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		GTACCAGACACTGAGCCTCAA	0.328													6	102					0	0	1	0	0		T	112361628	T	T	112361628	2	4	49	1	0	0	0	0	0	0	0	1	14809	564	20	4		4	SMC3	10	112361628	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	736672	112361628	23173119	823	37503											
PNLIPRP3	119548	broad.mit.edu	37	chr10	118196325	118196325	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaccctggtctccagagaAgataaacactcgtttcctgc	10	12	7	12	1	1	2	0	0	1	2	4	3	2	2	3	1	3	1	3	1	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:118196325A>C	uc001lcl.3	+	2	253	c.152A>C	c.(151-153)AAG>ACG	p.K51T		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	51					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		TCTCCAGAGAAGATAAACACT	0.403													14	111					0	0	1	0	0		C	118196325	C	C	118196325	3	2	49	1	0	0	0	0	1	0	0	0	12171	72	3	5	158	5	PNLIPRP3	10	118196325	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	5834697	118196325	17338422	824	37504											
EMX2	2018	broad.mit.edu	37	chr10	119303110	119303110	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacaccccctattcgcctCgcagcagcgggatccgtcca	7	6	9	19	4	0	0	0	0	0	0	4	1	2	1	6	1	2	2	6	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:119303110C>A	uc001ldh.3	+	1	1155	c.332C>A	c.(331-333)TCG>TAG	p.S111*	EMX2OS_uc001ldf.2_5'Flank|EMX2OS_uc001ldg.2_Intron|EMX2_uc001ldi.3_Nonsense_Mutation_p.S111*	NM_004098	NP_004089	Q04743	EMX2_HUMAN	empty spiracles homeobox 2 isoform 1	111						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Colorectal(252;0.109)|Lung NSC(174;0.179)|all_lung(145;0.22)		all cancers(201;0.0133)		CTATTCGCCTCGCAGCAGCGG	0.697													10	175					5.50884e-06	5.78597e-06	1	1	0		A	119303110	A	A	119303110	4	1	49	1	0	0	0	0	0	1	0	0	5116	893	31	5	334	5	EMX2	10	119303110	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1106785	119303110	16231637	825	37505											
CPXM2	119587	broad.mit.edu	37	chr10	125516743	125516743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatacctgctccatgaacaCgatcagagattcccggttat	12	11	7	11	2	1	2	1	1	0	1	3	4	3	2	3	1	3	2	3	1	4	4	rs78179127	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:125516743C>T	uc001lhk.1	-	12	2228	c.1903G>A	c.(1903-1905)GTG>ATG	p.V635M	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	635					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		TCCATGAACACGATCAGAGAT	0.537													42	116					0	0	1	0	0		T	125516743	T	T	125516743	3	4	49	1	0	0	0	0	1	0	0	0	3841	536	19	1	379	1	CPXM2	10	125516743	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	6213633	125516743	10018004	826	37506											
LHPP	64077	broad.mit.edu	37	chr10	126186604	126186604	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtccctctctcttttcccaGtatgcctgtggcatcaaagc	6	14	7	14	0	3	0	1	0	2	0	6	0	5	0	3	1	2	2	3	1	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:126186604G>T	uc001lhs.1	+	5	552	c.532_splice	c.e5-1	p.Y178_splice	LHPP_uc001lht.1_Splice_Site_p.Y178_splice|LHPP_uc009yai.1_Intron	NM_022126	NP_071409	Q9H008	LHPP_HUMAN	phospholysine phosphohistidine inorganic						protein dephosphorylation	cytosol|nucleus	inorganic diphosphatase activity|magnesium ion binding|phosphohistidine phosphatase activity|protein homodimerization activity				0		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.163)|Colorectal(40;0.187)		TCTTTTCCCAGTATGCCTGTG	0.537													15	32					1.15919e-05	1.21526e-05	1	1	0		T	126186604	T	T	126186604	5	4	49	1	0	0	0	0	0	0	1	0	8785	1043	36	5	549	5	LHPP	10	126186604	Splice_Site	SNP	G	TCGA-BR-7707-01A-11D-2053-08	669861	126186604	9348143	827	37507											
MMP21	118856	broad.mit.edu	37	chr10	127462511	127462511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggccagcgccacaatgcGccgctggtcggccacggaca	9	3	14	15	5	0	0	0	0	0	0	1	2	0	1	4	4	2	1	4	4	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:127462511G>A	uc001liu.2	-	2	586	c.586C>T	c.(586-588)CGC>TGC	p.R196C		NM_147191	NP_671724	Q8N119	MMP21_HUMAN	matrix metalloproteinase 21 preproprotein	196					proteolysis	extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GCCACAATGCGCCGCTGGTCG	0.721													7	17					0	0	1	0	0		A	127462511	A	A	127462511	3	1	49	1	0	0	0	0	1	0	0	0	9678	1087	38	1	1147	1	MMP21	10	127462511	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1275907	127462511	8072236	828	37508											
ADAM12	8038	broad.mit.edu	37	chr10	128076637	128076637	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgacttacctcgggcctcGcagggcgcgagcagagcacc	7	4	15	15	5	0	1	0	0	0	1	2	3	0	1	3	3	3	3	3	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:128076637G>A	uc001ljk.2	-	1	491	c.78C>T	c.(76-78)TGC>TGT	p.C26C	ADAM12_uc010qul.1_Silent_p.C26C|ADAM12_uc001ljm.2_Silent_p.C26C|ADAM12_uc001ljn.2_Silent_p.C26C|ADAM12_uc001ljl.3_Silent_p.C26C	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	26					cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		CTCGGGCCTCGCAGGGCGCGA	0.786													8	15					0	0	1	0	0		A	128076637	A	A	128076637	2	1	49	1	0	0	0	0	0	0	0	1	236	1079	38	1		1	ADAM12	10	128076637	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	614126	128076637	7458110	829	37509											
DOCK1	1793	broad.mit.edu	37	chr10	129245732	129245732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcctctcaaaggcagcgtgGcagattacgggaatttgatg	10	10	13	8	2	1	2	1	1	1	1	2	3	1	3	1	3	3	2	1	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:129245732G>A	uc001ljt.2	+	51	5489	c.5425G>A	c.(5425-5427)GCA>ACA	p.A1809T	DOCK1_uc010qun.1_Missense_Mutation_p.A1830T|DOCK1_uc009yaq.2_Missense_Mutation_p.G808D|DOCK1_uc001ljw.1_5'Flank	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	1809	Interaction with NCK2 second and third SH3 domain (minor).				apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		AGGCAGCGTGGCAGATTACGG	0.567													6	23					0	0	1	0	0		A	129245732	A	A	129245732	3	1	49	1	0	0	0	0	1	0	0	0	4690	1203	42	2	5627	2	DOCK1	10	129245732	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1169095	129245732	6289015	830	37510											
PWWP2B	170394	broad.mit.edu	37	chr10	134219544	134219544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgttcttgacatcagtctcGgccagaaggaggacggagag	10	8	15	8	2	3	3	1	1	2	2	4	6	3	5	1	4	0	1	1	4	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:134219544G>A	uc001lll.3	+	2	1569	c.1540G>A	c.(1540-1542)GGC>AGC	p.G514S	PWWP2B_uc009ybe.2_Intron	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	514	PWWP.										0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		CATCAGTCTCGGCCAGAAGGA	0.567													20	52					0	0	1	0	0		A	134219544	A	A	134219544	3	1	49	1	0	0	0	0	1	0	0	0	12871	1116	39	1	1546	1	PWWP2B	10	134219544	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4973812	134219544	1315203	831	37511											
KNDC1	85442	broad.mit.edu	37	chr10	135015215	135015215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcagacgtggaggcagtgaCccgactggccaggtccaaag	10	5	14	12	2	1	2	1	1	0	1	2	4	2	3	3	4	0	1	3	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr10:135015215C>T	uc001llz.1	+	17	3201	c.3200C>T	c.(3199-3201)ACC>ATC	p.T1067I	KNDC1_uc001lma.1_Missense_Mutation_p.T1002I|KNDC1_uc001lmb.1_Missense_Mutation_p.T479I	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1067					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		GAGGCAGTGACCCGACTGGCC	0.692													3	13					0	0	1	0	0		T	135015215	T	T	135015215	3	4	49	1	0	0	0	0	1	0	0	0	8442	507	18	4	3266	4	KNDC1	10	135015215	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	795671	135015215	519532	832	37512											
MUC6	4588	broad.mit.edu	37	chr11	1026404	1026404	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcacatgggcactcctcgggGggcacacactgcccgtcggc	6	6	13	16	3	1	0	1	0	0	0	4	0	2	0	2	5	1	2	2	5	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:1026404G>A	uc001lsw.2	-	20	2520	c.2469C>T	c.(2467-2469)CCC>CCT	p.P823P		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	823					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		ACTCCTCGGGGGGCACACACT	0.642													7	29					0	0	1	0	0		A	1026404	A	A	1026404	2	1	49	1	0	0	0	0	0	0	0	1	9998	1219	43	4		4	MUC6	11	1026404	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08		1026404	133980112	833	37513											
MUC2	4583	broad.mit.edu	37	chr11	1095795	1095795	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacggcctccaacccgtgcgCgtcgaggaccccgacggctg	7	4	13	17	7	0	0	0	0	0	0	2	3	1	1	5	3	3	1	5	3	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:1095795C>T	uc001lsx.1	+	36	13419	c.13392C>T	c.(13390-13392)CGC>CGT	p.R4464R		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4464						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	AACCCGTGCGCGTCGAGGACC	0.687													9	14					0	0	1	0	0		T	1095795	T	T	1095795	2	4	49	1	0	0	0	0	0	0	0	1	9993	755	27	1		1	MUC2	11	1095795	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	69391	1095795	133910721	834	37514											
MUC5B	727897	broad.mit.edu	37	chr11	1265003	1265003	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgcacctcgaccctgctgcCcagcagccccacatcggccc	6	4	8	23	3	0	0	0	0	0	0	2	1	0	0	7	1	4	3	7	1	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:1265003C>A	uc009ycr.1	+	48	8933	c.8807C>A	c.(8806-8808)CCC>CAC	p.P2936H	MUC5B_uc001ltb.2_Missense_Mutation_p.P2301H	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2298	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACCCTGCTGCCCAGCAGCCCC	0.687													11	117					0.000978159	0.00100216	1	1	0		A	1265003	A	A	1265003	3	1	49	1	0	0	0	0	1	0	0	0	9997	623	22	5	7024	5	MUC5B	11	1265003	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	169208	1265003	133741513	835	37515											
MUC5B	727897	broad.mit.edu	37	chr11	1267404	1267404	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacaatccacccctcctcCactccggagaccacccacac	10	5	3	23	1	0	1	0	0	0	1	5	2	5	1	9	1	0	0	9	1	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:1267404C>A	uc009ycr.1	+	49	11169	c.11043C>A	c.(11041-11043)TCC>TCA	p.S3681S	MUC5B_uc001ltb.2_Silent_p.S3101S	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3098	7 X Cys-rich subdomain repeats.|Thr-rich.|17 X approximate tandem repeats, Ser/Thr- rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACCCCTCCTCCACTCCGGAGA	0.637													24	72					1.04121e-07	1.10649e-07	1	1	0		A	1267404	A	A	1267404	2	1	49	1	0	0	0	0	0	0	0	1	9997	581	21	5		5	MUC5B	11	1267404	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2401	1267404	133739112	836	37516											
MUC5B	727897	broad.mit.edu	37	chr11	1275943	1275943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcctgtttgaccaaattcCggtgagcagcggtttcagca	9	11	11	10	2	1	2	1	2	0	0	3	3	3	2	3	2	3	4	3	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:1275943C>T	uc009ycr.1	+	57	16634	c.16508C>T	c.(16507-16509)CCG>CTG	p.P5503L	MUC5B_uc001ltb.2_Missense_Mutation_p.P5169L	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5166	VWFD 4.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GACCAAATTCCGGTGAGCAGC	0.622													7	26					0	0	1	0	0		T	1275943	T	T	1275943	3	4	49	1	0	0	0	0	1	0	0	0	9997	652	23	1	15644	1	MUC5B	11	1275943	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	8539	1275943	133730573	837	37517											
STIM1	6786	broad.mit.edu	37	chr11	4045107	4045107	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttttcccttgcagttccTgagggaagacctcaattacc	9	13	7	12	0	1	2	1	1	0	1	3	3	3	3	4	1	3	2	4	1	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:4045107T>C	uc001lyv.2	+	3	843	c.275T>C	c.(274-276)CTG>CCG	p.L92P	STIM1_uc009yef.2_Missense_Mutation_p.L92P	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	92	EF-hand.|Extracellular (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		TTGCAGTTCCTGAGGGAAGAC	0.507													7	44					0	0	1	0	0		C	4045107	C	C	4045107	3	2	49	1	0	0	0	0	1	0	0	0	15308	1580	55	3	285	3	STIM1	11	4045107	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2769164	4045107	130961409	838	37518											
OR52R1	119695	broad.mit.edu	37	chr11	4825255	4825255	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagtccagggccatagccAtgagcaccccagactccaca	12	4	9	16	0	0	2	0	1	0	1	2	2	2	2	6	1	3	2	6	1	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:4825255A>G	uc010qym.1	-	1	593	c.593T>C	c.(592-594)ATG>ACG	p.M198T		NM_001005177	NP_001005177	Q8NGF1	O52R1_HUMAN	olfactory receptor, family 52, subfamily R,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0184)|all_neural(188;0.0227)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGCCATAGCCATGAGCACCCC	0.532													16	98					0	0	1	0	0		G	4825255	G	G	4825255	3	3	49	1	0	0	0	0	1	0	0	0	11150	217	8	3	594	3	OR52R1	11	4825255	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	780148	4825255	130181261	839	37519											
OR51S1	119692	broad.mit.edu	37	chr11	4870019	4870019	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccattggtgaggagcgctggGtagtggagaggtcggcagat	8	8	19	6	2	0	3	0	1	0	2	1	5	0	4	1	6	1	3	1	6	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:4870019G>C	uc010qyo.1	-	1	420	c.420C>G	c.(418-420)TAC>TAG	p.Y140*		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	140	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGAGCGCTGGGTAGTGGAGAG	0.522													9	92					0	0	1	0	0		C	4870019	C	C	4870019	4	2	49	1	0	0	0	0	0	1	0	0	11124	1256	44	5	554	5	OR51S1	11	4870019	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	44764	4870019	130136497	840	37520											
OR51I1	390063	broad.mit.edu	37	chr11	5462646	5462646	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcatgtagaggatgcaGaaaatcagggcaacccaggt	15	6	13	7	0	2	3	2	0	0	3	2	5	2	4	1	3	2	3	1	3	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:5462646G>T	uc010qze.1	-	1	99	c.99C>A	c.(97-99)TTC>TTA	p.F33L	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005288	NP_001005288	Q9H343	O51I1_HUMAN	olfactory receptor, family 51, subfamily I,	33	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGAGGATGCAGAAAATCAGGG	0.527													23	79					1.22574e-08	1.30908e-08	1	1	0		T	5462646	T	T	5462646	3	4	49	1	0	0	0	0	1	0	0	0	11119	933	33	5	849	5	OR51I1	11	5462646	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	592627	5462646	129543870	841	37521											
OR56A5	390084	broad.mit.edu	37	chr11	5989588	5989588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agatggtgatcagaagggtgGcattggcccccatggccagg	9	7	16	9	0	1	3	1	1	0	2	1	3	1	3	3	6	0	1	3	6	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:5989588G>A	uc010qzu.1	-	1	137	c.137C>T	c.(136-138)GCC>GTC	p.A46V		NM_001146033	NP_001139505	P0C7T3	O56A5_HUMAN	olfactory receptor, family 56, subfamily A,	46	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	olfactory receptor activity				0						CAGAAGGGTGGCATTGGCCCC	0.572													8	27					0	0	1	0	0		A	5989588	A	A	5989588	3	1	49	1	0	0	0	0	1	0	0	0	11155	1203	42	2	806	2	OR56A5	11	5989588	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	526942	5989588	129016928	842	37522											
NLRP14	338323	broad.mit.edu	37	chr11	7065123	7065123	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgtatcttctttctgcctTaagcactgccggtgtttgcg	4	17	9	11	2	3	0	0	0	3	0	3	0	3	0	2	1	4	3	2	1	2	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:7065123T>C	uc001mfb.1	+	4	2189	c.1866T>C	c.(1864-1866)CTT>CTC	p.L622L		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	622					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		CTTTCTGCCTTAAGCACTGCC	0.398													9	100					0	0	1	0	0		C	7065123	C	C	7065123	2	2	49	1	0	0	0	0	0	0	0	1	10495	1741	61	3		3	NLRP14	11	7065123	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1075535	7065123	127941393	843	37523											
PPFIBP2	8495	broad.mit.edu	37	chr11	7586879	7586879	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcccggtgctccatctcAtcgaggacttgaggctggcc	5	10	11	15	2	1	1	1	1	1	0	5	3	3	2	4	4	1	2	4	4	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:7586879A>G	uc001mfj.3	+	3	548	c.160A>G	c.(160-162)ATC>GTC	p.I54V		NM_003621	NP_003612	Q8ND30	LIPB2_HUMAN	PTPRF interacting protein, binding protein 2	54					cell communication|DNA integration	intracellular	DNA binding|integrase activity|protein binding			ovary(2)|breast(2)	4				Epithelial(150;2.01e-07)|BRCA - Breast invasive adenocarcinoma(625;0.236)		GCTCCATCTCATCGAGGACTT	0.572													25	107					0	0	1	0	0		G	7586879	G	G	7586879	3	3	49	1	0	0	0	0	1	0	0	0	12333	217	8	3	166	3	PPFIBP2	11	7586879	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	521756	7586879	127419637	844	37524											
EIF4G2	1982	broad.mit.edu	37	chr11	10824639	10824639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgtcaagaaaagccttgcGaggaacccaatggtgttctc	12	10	10	9	1	2	1	1	0	1	1	3	3	2	2	2	2	3	1	2	2	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:10824639G>A	uc001mjc.2	-	11	1351	c.934C>T	c.(934-936)CGC>TGC	p.R312C	EIF4G2_uc001mjb.2_Missense_Mutation_p.R106C|EIF4G2_uc009ygf.2_Missense_Mutation_p.R106C|EIF4G2_uc001mjd.2_Missense_Mutation_p.R312C|EIF4G2_uc001mjf.1_Missense_Mutation_p.R106C|SNORD97_uc009yge.2_5'Flank	NM_001418	NP_001409	P78344	IF4G2_HUMAN	eukaryotic translation initiation factor 4	312					cell cycle arrest|cell death|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		AAAGCCTTGCGAGGAACCCAA	0.338													10	50					0	0	1	0	0		A	10824639	A	A	10824639	3	1	49	1	0	0	0	0	1	0	0	0	5045	1058	37	1	1837	1	EIF4G2	11	10824639	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3237760	10824639	124181877	845	37525											
SPON1	10418	broad.mit.edu	37	chr11	14063134	14063134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcactgaaagcactccaCggaggaggacccggatccag	12	4	12	13	2	1	1	1	1	0	0	3	5	3	5	3	4	1	1	3	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:14063134C>T	uc001mle.2	+	3	950	c.412C>T	c.(412-414)CGG>TGG	p.R138W		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	138	Reelin.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		AAGCACTCCACGGAGGAGGAC	0.468													38	103					0	0	1	0	0		T	14063134	T	T	14063134	3	4	49	1	0	0	0	0	1	0	0	0	15107	527	19	1	422	1	SPON1	11	14063134	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3238495	14063134	120943382	846	37526											
MRGPRX4	117196	broad.mit.edu	37	chr11	18195721	18195721	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggtggataaaggtgaaggGcagcttcctgaggaaagcct	12	7	16	6	0	0	2	0	2	0	0	1	5	1	4	2	5	2	2	2	5	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:18195721G>C	uc001mnv.1	+	1	1338	c.918G>C	c.(916-918)GGG>GGC	p.G306G		NM_054032	NP_473373	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	306	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						AAGGTGAAGGGCAGCTTCCTG	0.567													12	34					0	0	1	0	0		C	18195721	C	C	18195721	2	2	49	1	0	0	0	0	0	0	0	1	9787	1190	42	5		5	MRGPRX4	11	18195721	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4132587	18195721	116810795	847	37527											
IGSF22	283284	broad.mit.edu	37	chr11	18743459	18743459	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaggcagcaacacacccTcgggcgcggtgaccggttga	9	4	13	15	4	0	2	0	2	0	0	1	2	0	2	3	4	2	3	3	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:18743459T>C	uc009yht.2	-	3	429	c.239A>G	c.(238-240)GAG>GGG	p.E80G	IGSF22_uc001mpa.2_RNA	NM_173588	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	80	Ig-like 1.									ovary(4)|large_intestine(2)|kidney(1)	7						CAACACACCCTCGGGCGCGGT	0.607											OREG0020822	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	97					0	0	1	0	0		C	18743459	C	C	18743459	3	2	49	1	0	0	0	0	1	0	0	0	7616	1551	54	3	3825	3	IGSF22	11	18743459	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	547738	18743459	116263057	848	37528											
MRGPRX2	117194	broad.mit.edu	37	chr11	19077849	19077849	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgaaaaggatcaggaagAccgggatcagggtctccttg	13	7	13	8	1	3	2	2	1	1	1	4	5	3	5	2	4	0	0	2	4	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:19077849A>G	uc001mph.2	-	2	189	c.101T>C	c.(100-102)GTC>GCC	p.V34A		NM_054030	NP_473371	Q96LB1	MRGX2_HUMAN	MAS-related GPR, member X2	34	Helical; Name=1; (Potential).				sensory perception of pain|sleep	plasma membrane	G-protein coupled receptor activity|neuropeptide binding			ovary(1)	1						GATCAGGAAGACCGGGATCAG	0.557													19	198					0	0	1	0	0		G	19077849	G	G	19077849	3	3	49	1	0	0	0	0	1	0	0	0	9785	275	10	3	895	3	MRGPRX2	11	19077849	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	334390	19077849	115928667	849	37529											
SLC17A6	57084	broad.mit.edu	37	chr11	22364897	22364897	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaggctacatcgcgtctcgGctggcagccaacaggtaatg	9	7	14	11	3	1	0	0	0	1	0	3	1	1	1	1	5	3	4	1	5	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:22364897G>A	uc001mqk.2	+	3	857	c.444G>A	c.(442-444)CGG>CGA	p.R148R		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	148	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						TCGCGTCTCGGCTGGCAGCCA	0.597													5	52					0	0	1	0	0		A	22364897	A	A	22364897	2	1	49	1	0	0	0	0	0	0	0	1	14446	1190	42	2		2	SLC17A6	11	22364897	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3287048	22364897	112641619	850	37530											
PAX6	5080	broad.mit.edu	37	chr11	31823241	31823241	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggagtcgctactctcggTttactaccaccgattgccct	6	13	8	14	3	2	0	0	0	2	0	4	2	2	1	3	2	4	2	3	2	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:31823241T>C	uc001mtd.3	-	5	1115	c.225A>G	c.(223-225)AAA>AAG	p.K75K	PAX6_uc001mte.3_Silent_p.K75K|PAX6_uc001mtg.3_Silent_p.K89K|PAX6_uc001mtf.3_Silent_p.K75K|PAX6_uc001mth.3_Silent_p.K75K|PAX6_uc009yjr.2_Silent_p.K75K	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	75	Paired.				blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					CTACTCTCGGTTTACTACCAC	0.512									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				9	68					0	0	1	0	0		C	31823241	C	C	31823241	2	2	49	1	0	0	0	0	0	0	0	1	11502	1722	60	3		3	PAX6	11	31823241	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	9458344	31823241	103183275	851	37531											
CSTF3	1479	broad.mit.edu	37	chr11	33124659	33124659	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggaattccatacctttgcTacacgtctagcattcatata	12	14	5	10	1	2	0	1	0	1	0	3	1	3	1	2	1	4	2	2	1	6	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:33124659T>C	uc001muh.2	-	9	823	c.657A>G	c.(655-657)GTA>GTG	p.V219V	TCP11L1_uc001muf.1_Intron	NM_001326	NP_001317	Q12996	CSTF3_HUMAN	cleavage stimulation factor subunit 3 isoform 1	219					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding				0						ATACCTTTGCTACACGTCTAG	0.299													7	83					0	0	1	0	0		C	33124659	C	C	33124659	2	2	49	1	0	0	0	0	0	0	0	1	3989	1509	53	3		3	CSTF3	11	33124659	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1301418	33124659	101881857	852	37532											
RAG1	5896	broad.mit.edu	37	chr11	36595836	36595836	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagtcatgggcagctatTgtccctcttgccgatatcca	9	12	8	12	1	3	0	2	0	1	0	5	1	5	0	3	1	2	2	3	1	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:36595836T>C	uc001mwu.3	+	2	1106	c.982T>C	c.(982-984)TGT>CGT	p.C328R	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	328	RING-type.	Zinc 3 (By similarity).	C -> Y (in OS).		histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				GGGCAGCTATTGTCCCTCTTG	0.498									Familial_Hemophagocytic_Lymphohistiocytosis				8	68					0	0	1	0	0		C	36595836	C	C	36595836	3	2	49	1	0	0	0	0	1	0	0	0	13028	1812	63	3	984	3	RAG1	11	36595836	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3471177	36595836	98410680	853	37533											
PEX16	9409	broad.mit.edu	37	chr11	45936234	45936234	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccagggctgtggtcaccAtctagcagggatagacagaa	11	8	13	9	0	2	2	1	0	1	2	2	3	2	3	2	3	2	2	2	3	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:45936234A>G	uc001nbu.2	-	6	774	c.462T>C	c.(460-462)GAT>GAC	p.D154D	PEX16_uc001nbt.2_Silent_p.D154D	NM_004813	NP_004804	Q9Y5Y5	PEX16_HUMAN	peroxisomal biogenesis factor 16 isoform 1	154	Cytoplasmic (Potential).				ER-dependent peroxisome organization|peroxisome membrane biogenesis|protein import into peroxisome matrix|protein import into peroxisome membrane	endoplasmic reticulum membrane|integral to peroxisomal membrane	protein C-terminus binding			ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.223)		TGTGGTCACCATCTAGCAGGG	0.572													23	81					0	0	1	0	0		G	45936234	G	G	45936234	2	3	49	1	0	0	0	0	0	0	0	1	11762	231	8	3		3	PEX16	11	45936234	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	9340398	45936234	89070282	854	37534											
CHRM4	1132	broad.mit.edu	37	chr11	46407805	46407805	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggtcgcagaccacggcGcccaggggccagtagccctt	8	4	13	16	3	0	1	0	0	0	1	1	1	0	1	4	4	1	2	4	4	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:46407805G>A	uc001nct.1	-	1	303	c.303C>T	c.(301-303)GGC>GGT	p.G101G		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	101	Extracellular (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	AGACCACGGCGCCCAGGGGCC	0.572													14	24					0	0	1	0	0		A	46407805	A	A	46407805	2	1	49	1	0	0	0	0	0	0	0	1	3382	1074	38	1		1	CHRM4	11	46407805	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	471571	46407805	88598711	855	37535											
ARHGAP1	392	broad.mit.edu	37	chr11	46701278	46701278	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaaggtcttgaggatgActgctggcaggtgcagctca	9	8	17	7	0	2	2	1	2	1	0	2	5	2	5	0	6	3	4	0	6	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:46701278A>T	uc001ndd.2	-	11	1016	c.947T>A	c.(946-948)GTC>GAC	p.V316D		NM_004308	NP_004299	Q07960	RHG01_HUMAN	Rho GTPase activating protein 1	316	Rho-GAP.				Rho protein signal transduction	cytosol|intracellular membrane-bounded organelle	SH3 domain binding|SH3/SH2 adaptor activity			skin(1)	1		Lung NSC(402;1.76e-12)|all_lung(304;1.3e-11)		GBM - Glioblastoma multiforme(35;5.17e-06)|BRCA - Breast invasive adenocarcinoma(625;0.00112)|Lung(87;0.153)		CTTGAGGATGACTGCTGGCAG	0.612													10	78					0	0	1	0	0		T	46701278	T	T	46701278	3	4	49	1	0	0	0	0	1	0	0	0	861	275	10	5	384	5	ARHGAP1	11	46701278	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	293473	46701278	88305238	856	37536											
OR4A5	81318	broad.mit.edu	37	chr11	51412264	51412264	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctggcaataatatccacCacaatgagcaggttccccac	12	7	9	13	0	0	1	0	1	0	0	2	1	2	1	4	3	1	4	4	3	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:51412264C>A	uc001nhi.1	-	1	132	c.132G>T	c.(130-132)GTG>GTT	p.V44V		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	44	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				TAATATCCACCACAATGAGCA	0.453													13	40					0.000308642	0.00031831	1	1	0		A	51412264	A	A	51412264	2	1	49	1	0	0	0	0	0	0	0	1	11062	581	21	5		5	OR4A5	11	51412264	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4710986	51412264	83594252	857	37537											
OR4C15	81309	broad.mit.edu	37	chr11	55322033	55322033	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagtatttgttgtattttTgtttgtctacattgcaactg	9	21	7	4	0	1	0	0	0	1	0	1	0	1	0	0	0	3	5	0	0	6	10			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:55322033T>C	uc010rig.1	+	1	251	c.251T>C	c.(250-252)TTG>TCG	p.L84S		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GTTGTATTTTTGTTTGTCTAC	0.418										HNSCC(20;0.049)			16	143					0	0	1	0	0		C	55322033	C	C	55322033	3	2	49	1	0	0	0	0	1	0	0	0	11067	1821	63	3	253	3	OR4C15	11	55322033	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3909769	55322033	79684483	858	37538											
OR5J2	282775	broad.mit.edu	37	chr11	55944831	55944831	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtgcctctcacctgacTgctgtgaccatattctatgg	7	13	8	13	0	2	2	1	2	2	0	3	2	2	2	4	1	2	1	4	1	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:55944831T>C	uc010rjb.1	+	1	738	c.738T>C	c.(736-738)ACT>ACC	p.T246T		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					CTCACCTGACTGCTGTGACCA	0.448													4	111					0	0	1	0	0		C	55944831	C	C	55944831	2	2	49	1	0	0	0	0	0	0	0	1	11184	1567	55	3		3	OR5J2	11	55944831	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	622798	55944831	79061685	859	37539			1	13		3	3	105	N	T_G_A	1.409782e-05
OR5J2	282775	broad.mit.edu	37	chr11	55944903	55944903	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccagtattttgtggaacaAgagaaagtggtttctatgtt	11	15	10	5	0	1	1	0	0	1	1	2	3	2	2	1	2	1	3	1	2	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:55944903A>G	uc010rjb.1	+	1	810	c.810A>G	c.(808-810)CAA>CAG	p.Q270Q		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	270	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					TTGTGGAACAAGAGAAAGTGG	0.438													8	49					0	0	1	0	0		G	55944903	G	G	55944903	2	3	49	1	0	0	0	0	0	0	0	1	11184	69	3	3		3	OR5J2	11	55944903	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	72	55944903	79061613	860	37540			1	13		3	3	105	N	T_G_A	1.409782e-05
OR5J2	282775	broad.mit.edu	37	chr11	55944935	55944935	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttctatgttctatacgctagGgattcccatgttaaacctgt	9	16	7	9	1	2	0	0	0	2	0	3	1	3	1	2	1	2	3	2	1	6	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:55944935G>T	uc010rjb.1	+	1	842	c.842G>T	c.(841-843)GGG>GTG	p.G281V		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	281	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					TATACGCTAGGGATTCCCATG	0.388													4	31					1.61879e-10	1.743e-10	1	1	0		T	55944935	T	T	55944935	3	4	49	1	0	0	0	0	1	0	0	0	11184	1232	43	5	844	5	OR5J2	11	55944935	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	32	55944935	79061581	861	37541			1	13		3	3	105	N	T_G_A	1.409782e-05
OR5AR1	219493	broad.mit.edu	37	chr11	56431414	56431414	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccccaggatgctggctgacTtcctaacaaatcacaaagtt	12	9	7	13	0	1	1	1	1	0	0	2	2	2	2	3	2	2	3	3	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:56431414T>C	uc010rjm.1	+	1	253	c.253T>C	c.(253-255)TTC>CTC	p.F85L		NM_001004730	NP_001004730	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GCTGGCTGACTTCCTAACAAA	0.488													26	196					0	0	1	0	0		C	56431414	C	C	56431414	3	2	49	1	0	0	0	0	1	0	0	0	11164	1609	56	3	255	3	OR5AR1	11	56431414	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	486479	56431414	78575102	862	37542											
TMX2	51075	broad.mit.edu	37	chr11	57506647	57506647	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaagcaactccctacccTgatcctgttccaaggtggca	10	8	7	16	0	0	1	0	1	0	0	3	1	3	1	5	2	3	3	5	2	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:57506647T>C	uc001nlc.1	+	7	708	c.659T>C	c.(658-660)CTG>CCG	p.L220P	CTNND1_uc001nlf.1_Intron|TMX2_uc001nld.1_Missense_Mutation_p.L126P|TMX2_uc001nle.1_Missense_Mutation_p.L182P|C11orf31_uc010rjx.1_5'Flank	NM_015959	NP_057043	Q9Y320	TMX2_HUMAN	thioredoxin domain containing 14 isoform 1	220	Cytoplasmic (Potential).|Thioredoxin.				cell redox homeostasis	integral to membrane					0						CTCCCTACCCTGATCCTGTTC	0.512													61	118					0	0	1	0	0		C	57506647	C	C	57506647	3	2	49	1	0	0	0	0	1	0	0	0	16292	1580	55	3	685	3	TMX2	11	57506647	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1075233	57506647	77499869	863	37543											
AHNAK	79026	broad.mit.edu	37	chr11	62295967	62295967	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaggcatcttaaacttgggCcctttcaactttgcatcagg	9	13	8	11	0	4	0	3	0	1	0	4	0	4	0	1	3	3	2	1	3	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:62295967C>T	uc001ntl.2	-	5	6222	c.5922G>A	c.(5920-5922)GGG>GGA	p.G1974G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1974					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TAAACTTGGGCCCTTTCAACT	0.507													9	309					0	0	1	0	0		T	62295967	T	T	62295967	2	4	49	1	0	0	0	0	0	0	0	1	414	726	26	2		2	AHNAK	11	62295967	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4789320	62295967	72710549	864	37544											
TAF6L	10629	broad.mit.edu	37	chr11	62543364	62543364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaggtggcggcgctgctcGcagaggacgtgtgctatcgt	6	9	17	9	5	0	2	0	1	0	1	2	3	0	3	0	4	2	4	0	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:62543364G>A	uc001nvc.2	+	2	210	c.109G>A	c.(109-111)GCA>ACA	p.A37T	TAF6L_uc010rmg.1_Missense_Mutation_p.A37T|TAF6L_uc009yof.2_Missense_Mutation_p.A37T	NM_006473	NP_006464	Q9Y6J9	TAF6L_HUMAN	TAF6-like RNA polymerase II	37					chromatin remodeling|histone H3 acetylation|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	histone deacetylase complex|STAGA complex	DNA binding|protein binding|transcription coactivator activity			ovary(3)	3						GGCGCTGCTCGCAGAGGACGT	0.607													13	34					0	0	1	0	0		A	62543364	A	A	62543364	3	1	49	1	0	0	0	0	1	0	0	0	15556	1087	38	1	111	1	TAF6L	11	62543364	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	247397	62543364	72463152	865	37545											
TAF6L	10629	broad.mit.edu	37	chr11	62554095	62554095	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgacctgccatgggacaGccttctctttcaagagtcgt	8	10	11	12	2	2	1	1	0	1	1	4	4	2	3	3	2	2	0	3	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:62554095G>T	uc001nvc.2	+	11	1297	c.1196G>T	c.(1195-1197)AGC>ATC	p.S399I	TMEM179B_uc001nvd.3_5'Flank	NM_006473	NP_006464	Q9Y6J9	TAF6L_HUMAN	TAF6-like RNA polymerase II	399					chromatin remodeling|histone H3 acetylation|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	histone deacetylase complex|STAGA complex	DNA binding|protein binding|transcription coactivator activity			ovary(3)	3						CCATGGGACAGCCTTCTCTTT	0.697											OREG0021030	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	20					1.06961e-07	1.13526e-07	1	1	0		T	62554095	T	T	62554095	3	4	49	1	0	0	0	0	1	0	0	0	15556	971	34	5	1234	5	TAF6L	11	62554095	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	10731	62554095	72452421	866	37546											
NXF1	10482	broad.mit.edu	37	chr11	62569260	62569260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gttcattcagtatagtgtggGgtggagcagaagagttgatg	10	12	16	3	0	2	3	2	1	0	2	2	4	2	4	0	3	1	4	0	3	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:62569260G>A	uc001nvf.1	-	6	726	c.590C>T	c.(589-591)CCC>CTC	p.P197L	NXF1_uc001nvg.1_Missense_Mutation_p.P197L|NXF1_uc009yog.1_Missense_Mutation_p.P240L|NXF1_uc010rmh.1_Missense_Mutation_p.P60L	NM_006362	NP_006353	Q9UBU9	NXF1_HUMAN	nuclear RNA export factor 1 isoform 1	197	Interaction with THOC4.|RRM.				gene expression|interspecies interaction between organisms	cytosol|nuclear speck	nucleotide binding|protein binding			skin(3)	3						TATAGTGTGGGGTGGAGCAGA	0.468													4	138					0	0	1	0	0		A	62569260	A	A	62569260	3	1	49	1	0	0	0	0	1	0	0	0	10801	1232	43	4	1388	4	NXF1	11	62569260	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	15165	62569260	72437256	867	37547											
SLC22A25	387601	broad.mit.edu	37	chr11	62984953	62984953	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgagttatccactctacAactgaaagaaaacacaaaca	18	8	6	9	0	1	3	0	2	1	1	2	3	2	3	1	1	4	1	1	1	7	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:62984953A>G	uc001nwr.1	-	4	663	c.663T>C	c.(661-663)ATT>ATC	p.I221I	SLC22A10_uc010rmo.1_Intron|SLC22A25_uc009yoq.1_RNA|SLC22A25_uc001nws.1_Intron|SLC22A25_uc001nwt.1_Silent_p.I221I	NM_199352	NP_955384	Q6T423	S22AP_HUMAN	putative UST1-like organic anion transporter	221	Helical; Name=4; (Potential).				transmembrane transport	integral to membrane				ovary(3)|skin(1)	4						TCCACTCTACAACTGAAAGAA	0.398													8	44					0	0	1	0	0		G	62984953	G	G	62984953	2	3	49	1	0	0	0	0	0	0	0	1	14479	144	5	3		3	SLC22A25	11	62984953	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	415693	62984953	72021563	868	37548											
GPR137	56834	broad.mit.edu	37	chr11	64054186	64054186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctatcagacggtgttcctgGccctctgtctgctctgggcc	3	12	12	14	1	4	1	1	0	3	1	5	1	5	1	3	3	1	3	3	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:64054186G>A	uc001nzg.1	+	2	498	c.190G>A	c.(190-192)GCC>ACC	p.A64T	BAD_uc001nzd.2_5'Flank|BAD_uc001nzc.2_5'Flank|GPR137_uc009ypj.1_Missense_Mutation_p.A70T|BAD_uc009ypk.2_5'Flank|GPR137_uc010rni.1_Missense_Mutation_p.A122T|GPR137_uc001nze.1_Missense_Mutation_p.A64T|GPR137_uc001nzf.2_Missense_Mutation_p.A64T|GPR137_uc001nzh.1_Missense_Mutation_p.A64T|GPR137_uc001nzi.2_Missense_Mutation_p.A64T|GPR137_uc010rnj.1_Missense_Mutation_p.A64T	NM_020155	NP_064540	Q96N19	G137A_HUMAN	G protein-coupled receptor 137	64	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						GGTGTTCCTGGCCCTCTGTCT	0.612													53	133					0	0	1	0	0		A	64054186	A	A	64054186	3	1	49	1	0	0	0	0	1	0	0	0	6660	1203	42	2	374	2	GPR137	11	64054186	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1069233	64054186	70952330	869	37549											
MRPL49	740	broad.mit.edu	37	chr11	64893062	64893062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggcagatgactgtgatccGgaaagtggaaggggacatct	11	7	15	8	2	1	3	0	2	1	1	2	6	2	6	2	5	0	1	2	5	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:64893062G>A	uc001oda.1	+	3	423	c.332G>A	c.(331-333)CGG>CAG	p.R111Q	MRPL49_uc001ocz.1_RNA	NM_004927	NP_004918	Q13405	RM49_HUMAN	mitochondrial ribosomal protein L49	111					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0						ACTGTGATCCGGAAAGTGGAA	0.572													20	63					0	0	1	0	0		A	64893062	A	A	64893062	3	1	49	1	0	0	0	0	1	0	0	0	9831	1116	39	1	342	1	MRPL49	11	64893062	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	838876	64893062	70113454	870	37550											
CAPN1	823	broad.mit.edu	37	chr11	64972290	64972290	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtcgccgcgagcgccgcttCggccgcgacatggagactat	6	6	14	15	9	0	1	0	0	0	1	2	4	0	1	3	2	1	1	3	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:64972290C>T	uc009yqd.1	+	11	1413	c.1302C>T	c.(1300-1302)TTC>TTT	p.F434F	CAPN1_uc001odf.1_Silent_p.F434F|CAPN1_uc001odg.1_Silent_p.F434F|CAPN1_uc010roa.1_Silent_p.F175F	NM_005186	NP_005177	P07384	CAN1_HUMAN	calpain 1, large subunit	434	Domain III.				positive regulation of cell proliferation|proteolysis	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Lung NSC(402;0.094)|Melanoma(852;0.16)		Lung(977;0.00168)|LUSC - Lung squamous cell carcinoma(976;0.00813)		AGCGCCGCTTCGGCCGCGACA	0.657											OREG0021073	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	31					0	0	1	0	0		T	64972290	T	T	64972290	2	4	49	1	0	0	0	0	0	0	0	1	2625	883	31	1		1	CAPN1	11	64972290	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	79228	64972290	70034226	871	37551											
MAP3K11	4296	broad.mit.edu	37	chr11	65367065	65367065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggggactccccgcgctcgCgtcctgggcctcccggcggc	1	6	15	19	7	0	0	0	0	0	0	5	1	3	1	5	5	0	1	5	5	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:65367065C>T	uc001oew.2	-	9	2499	c.2006G>A	c.(2005-2007)CGC>CAC	p.R669H	MAP3K11_uc001oev.2_Missense_Mutation_p.R85H|MAP3K11_uc010rol.1_Missense_Mutation_p.R412H|MAP3K11_uc001oex.1_Missense_Mutation_p.R176H	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	669	Pro-rich.				activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						CCCGCGCTCGCGTCCTGGGCC	0.761													11	30					0	0	1	0	0		T	65367065	T	T	65367065	3	4	49	1	0	0	0	0	1	0	0	0	9263	768	27	1	545	1	MAP3K11	11	65367065	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	394775	65367065	69639451	872	37552											
DKFZp761E198	91056	broad.mit.edu	37	chr11	65545802	65545802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggcaggagcagagggcggGcagggcggccaggacacagg	10	0	22	9	2	0	1	0	0	0	1	0	4	0	3	1	8	1	3	1	8	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:65545802G>A	uc001ofo.3	-	1	2021	c.1991C>T	c.(1990-1992)GCC>GTC	p.A664V		NM_138368	NP_612377	Q2VPB7	YK046_HUMAN	hypothetical protein LOC91056	664							protein binding				0				READ - Rectum adenocarcinoma(159;0.167)		CAGAGGGCGGGCAGGGCGGCC	0.662													6	16					0	0	1	0	0		A	65545802	A	A	65545802	3	1	49	1	0	0	0	0	1	0	0	0	4549	1203	42	2	478	2	DKFZp761E198	11	65545802	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	178737	65545802	69460714	873	37553											
DKFZp761E198	91056	broad.mit.edu	37	chr11	65546165	65546165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagggtcctccagctgcctgGccagcacctgcagcaagtcg	7	6	12	16	1	0	0	0	0	0	0	3	0	2	0	5	2	5	4	5	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:65546165G>A	uc001ofo.3	-	1	1658	c.1628C>T	c.(1627-1629)GCC>GTC	p.A543V		NM_138368	NP_612377	Q2VPB7	YK046_HUMAN	hypothetical protein LOC91056	543							protein binding				0				READ - Rectum adenocarcinoma(159;0.167)		CAGCTGCCTGGCCAGCACCTG	0.706													4	7					0	0	1	0	0		A	65546165	A	A	65546165	3	1	49	1	0	0	0	0	1	0	0	0	4549	1203	42	2	841	2	DKFZp761E198	11	65546165	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	363	65546165	69460351	874	37554											
CTSW	1521	broad.mit.edu	37	chr11	65650135	65650135	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggtggcttcgtctgggaCgcgttcataactgtcctcaa	7	11	11	12	4	3	0	2	0	1	0	5	1	4	1	1	3	1	2	1	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:65650135C>T	uc001ogc.1	+	6	636	c.594C>T	c.(592-594)GAC>GAT	p.D198D	CTSW_uc001ogb.1_Silent_p.D198D	NM_001335	NP_001326	P56202	CATW_HUMAN	cathepsin W preproprotein	198					immune response|proteolysis		cysteine-type endopeptidase activity			central_nervous_system(1)	1				READ - Rectum adenocarcinoma(159;0.168)		TCGTCTGGGACGCGTTCATAA	0.632													19	54					0	0	1	0	0		T	65650135	T	T	65650135	2	4	49	1	0	0	0	0	0	0	0	1	4045	535	19	1		1	CTSW	11	65650135	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	103970	65650135	69356381	875	37555											
KLC2	64837	broad.mit.edu	37	chr11	66033912	66033912	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttttccctcaggatgaagcGggccagttccctcaacttcc	7	11	8	15	1	2	1	2	1	0	0	5	2	5	2	4	2	2	1	4	2	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:66033912G>A	uc010rov.1	+	15	1979	c.1736G>A	c.(1735-1737)CGG>CAG	p.R579Q	KLC2_uc010row.1_Missense_Mutation_p.R579Q|KLC2_uc009yra.2_Intron|KLC2_uc001ohb.2_Missense_Mutation_p.R579Q|KLC2_uc010rox.1_Missense_Mutation_p.R502Q|KLC2_uc001ohc.2_Missense_Mutation_p.R579Q|KLC2_uc001ohd.2_Missense_Mutation_p.R502Q|KLC2_uc001ohe.1_Missense_Mutation_p.R440Q|RAB1B_uc001ohf.2_5'Flank	NM_001134775	NP_001128247	Q9H0B6	KLC2_HUMAN	kinesin light chain 2 isoform 1	579					blood coagulation	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0						AGGATGAAGCGGGCCAGTTCC	0.642													20	49					0	0	1	0	0		A	66033912	A	A	66033912	3	1	49	1	0	0	0	0	1	0	0	0	8350	1116	39	1	1790	1	KLC2	11	66033912	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	383777	66033912	68972604	876	37556											
SLC29A2	3177	broad.mit.edu	37	chr11	66130984	66130984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaagaaggtcatgagggCgccggccacctccctctcgt	8	6	13	14	3	2	2	1	1	1	1	4	3	3	3	4	4	0	0	4	4	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:66130984C>T	uc001oht.2	-	12	1523	c.1294G>A	c.(1294-1296)GCC>ACC	p.A432T	SLC29A2_uc001ohs.2_Missense_Mutation_p.A312T|SLC29A2_uc010rpb.1_RNA|SLC29A2_uc009yrf.2_Missense_Mutation_p.A312T|SLC29A2_uc001ohu.2_Missense_Mutation_p.A432T|SLC29A2_uc001ohv.2_3'UTR	NM_001532	NP_001523	Q14542	S29A2_HUMAN	solute carrier family 29 (nucleoside	432	Helical; (Potential).				cell proliferation|nucleobase, nucleoside and nucleotide metabolic process	basolateral plasma membrane|integral to plasma membrane|nuclear membrane|nucleolus	nucleoside transmembrane transporter activity			ovary(1)	1						GTCATGAGGGCGCCGGCCACC	0.607													5	16					0	0	1	0	0		T	66130984	T	T	66130984	3	4	49	1	0	0	0	0	1	0	0	0	14560	768	27	1	80	1	SLC29A2	11	66130984	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	97072	66130984	68875532	877	37557											
C11orf80	79703	broad.mit.edu	37	chr11	66610523	66610523	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgccgggcagggcgagcCtcggaagccgcctggaggta	6	4	19	12	5	0	0	0	0	0	0	1	3	0	2	4	6	2	2	4	6	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:66610523C>A	uc001ojf.2	+	16	1958	c.1951C>A	c.(1951-1953)CTC>ATC	p.L651I	C11orf80_uc001ojg.2_Missense_Mutation_p.L418I|C11orf80_uc001ojh.2_Missense_Mutation_p.L419I|C11orf80_uc001oji.2_Missense_Mutation_p.L419I|C11orf80_uc010rpl.1_Missense_Mutation_p.L285I|C11orf80_uc001ojj.2_Missense_Mutation_p.L249I|RCE1_uc001ojk.1_5'Flank|RCE1_uc001ojl.1_5'Flank	NM_024650	NP_078926	Q8N6T0	CK080_HUMAN	hypothetical protein LOC79703	496											0						CAGGGCGAGCCTCGGAAGCCG	0.766													3	6					0.00909568	0.00923047	1	1	0		A	66610523	A	A	66610523	3	1	49	1	0	0	0	0	1	0	0	0	1667	681	24	5	2013	5	C11orf80	11	66610523	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	479539	66610523	68395993	878	37558											
NDUFV1	4723	broad.mit.edu	37	chr11	67377024	67377024	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctgctggaaggctgccTggtggggggccgggccatgg	5	6	20	10	1	0	0	0	0	0	0	0	1	0	1	3	8	3	3	3	8	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:67377024T>G	uc001omj.2	+	4	581	c.428T>G	c.(427-429)CTG>CGG	p.L143R	NDUFV1_uc010rpv.1_Missense_Mutation_p.L42R|NDUFV1_uc001oml.2_Missense_Mutation_p.L136R|NDUFV1_uc001omk.3_Missense_Mutation_p.L134R|NDUFV1_uc009yrz.1_Missense_Mutation_p.L42R|NDUFV1_uc010rpw.1_5'Flank	NM_007103	NP_009034	P49821	NDUV1_HUMAN	NADH dehydrogenase ubiquinone flavoprotein 1	143					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|FMN binding|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity			skin(1)	1					NADH(DB00157)	GAAGGCTGCCTGGTGGGGGGC	0.617													18	161					0	0	1	0	0		G	67377024	G	G	67377024	3	3	49	1	0	0	0	0	1	0	0	0	10318	1580	55	5	442	5	NDUFV1	11	67377024	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	766501	67377024	67629492	879	37559											
SUV420H1	51111	broad.mit.edu	37	chr11	67941281	67941281	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatagttaccactcttttgTtgcaactattttggctccat	9	17	6	9	0	1	0	0	0	1	0	2	1	2	0	2	1	3	4	2	1	5	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:67941281T>C	uc001onm.1	-	6	899	c.643A>G	c.(643-645)ACA>GCA	p.T215A	SUV420H1_uc009yse.1_5'UTR|SUV420H1_uc001onn.1_Missense_Mutation_p.T43A|SUV420H1_uc009ysf.2_5'UTR|SUV420H1_uc001ono.1_Missense_Mutation_p.T215A|SUV420H1_uc001onp.2_Missense_Mutation_p.T215A|SUV420H1_uc010rqa.1_Missense_Mutation_p.T192A|SUV420H1_uc001onq.2_Missense_Mutation_p.T215A	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	215	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						CACTCTTTTGTTGCAACTATT	0.303													11	80					0	0	1	0	0		C	67941281	C	C	67941281	3	2	49	1	0	0	0	0	1	0	0	0	15439	1725	60	3	2046	3	SUV420H1	11	67941281	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	564257	67941281	67065235	880	37560											
CPT1A	1374	broad.mit.edu	37	chr11	68530165	68530165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggagcgcacggtctccGtcctcccctctcggaagagc	6	7	12	16	4	2	1	0	0	2	1	6	3	4	3	4	3	3	2	4	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:68530165G>A	uc001oog.3	-	15	1975	c.1805C>T	c.(1804-1806)ACG>ATG	p.T602M	CPT1A_uc001oof.3_Missense_Mutation_p.T602M|CPT1A_uc009ysj.2_Intron	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	602	Cytoplasmic (Potential).	Carnitine (By similarity).			carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	CACGGTCTCCGTCCTCCCCTC	0.617													10	59					0	0	1	0	0		A	68530165	A	A	68530165	3	1	49	1	0	0	0	0	1	0	0	0	3834	1145	40	1	576	1	CPT1A	11	68530165	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	588884	68530165	66476351	881	37561											
CTTN	2017	broad.mit.edu	37	chr11	70261793	70261793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgtaggctttgaataccagGggaagactgagaagcatgcc	12	8	13	8	0	0	3	0	2	0	2	0	5	0	4	2	3	3	3	2	3	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:70261793G>A	uc001opv.3	+	7	633	c.427G>A	c.(427-429)GGG>AGG	p.G143R	CTTN_uc001opu.2_Missense_Mutation_p.G143R|CTTN_uc001opw.3_Missense_Mutation_p.G143R	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	143	Cortactin 2.					cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		TGAATACCAGGGGAAGACTGA	0.512													19	193					0	0	1	0	0		A	70261793	A	A	70261793	3	1	49	1	0	0	0	0	1	0	0	0	4047	1232	43	4	445	4	CTTN	11	70261793	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1731628	70261793	64744723	882	37562											
INPPL1	3636	broad.mit.edu	37	chr11	71939260	71939260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcatgtgcacacgtatcGcattctgcctgatggagaag	11	9	12	9	2	1	2	0	1	1	1	2	4	1	2	1	1	3	4	1	1	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:71939260G>A	uc001osf.2	+	2	356	c.209G>A	c.(208-210)CGC>CAC	p.R70H	INPPL1_uc001osg.2_5'UTR	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	70	SH2.				actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						CACACGTATCGCATTCTGCCT	0.587													6	73					0	0	1	0	0		A	71939260	A	A	71939260	3	1	49	1	0	0	0	0	1	0	0	0	7777	1087	38	1	215	1	INPPL1	11	71939260	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1677467	71939260	63067256	883	37563											
ARHGEF17	9828	broad.mit.edu	37	chr11	73071483	73071483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggagctgtgcgccactcGgcccgagggcaccgactcct	5	6	14	16	4	0	0	0	0	0	0	2	3	1	1	4	3	2	3	4	3	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:73071483G>A	uc001otu.2	+	11	4346	c.4325G>A	c.(4324-4326)CGG>CAG	p.R1442Q		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1442					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						TGCGCCACTCGGCCCGAGGGC	0.622													11	147					0	0	1	0	0		A	73071483	A	A	73071483	3	1	49	1	0	0	0	0	1	0	0	0	900	1116	39	1	4367	1	ARHGEF17	11	73071483	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1132223	73071483	61935033	884	37564											
ARHGEF17	9828	broad.mit.edu	37	chr11	73071553	73071553	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccttggttttgaacaggcCttcgatgaggccaagaggaa	10	9	13	9	2	0	3	0	2	0	1	1	5	0	4	3	4	1	1	3	4	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:73071553C>A	uc001otu.2	+	11	4416	c.4395C>A	c.(4393-4395)GCC>GCA	p.A1465A		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1465					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						TTGAACAGGCCTTCGATGAGG	0.602													15	84					2.4624e-09	2.63476e-09	1	1	0		A	73071553	A	A	73071553	2	1	49	1	0	0	0	0	0	0	0	1	900	668	24	5		5	ARHGEF17	11	73071553	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	70	73071553	61934963	885	37565											
MAP6	4135	broad.mit.edu	37	chr11	75298476	75298476	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaatcgtgaacctttgcAtgctctgggactacaacatc	11	10	9	11	1	1	2	0	1	1	1	3	3	1	3	1	1	5	3	1	1	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:75298476A>G	uc001owu.2	-	4	2135	c.2070T>C	c.(2068-2070)CAT>CAC	p.H690H		NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	690	Pro-rich.					Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					GAACCTTTGCATGCTCTGGGA	0.483													29	65					0	0	1	0	0		G	75298476	G	G	75298476	2	3	49	1	0	0	0	0	0	0	0	1	9282	214	8	3		3	MAP6	11	75298476	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2226923	75298476	59708040	886	37566											
CCDC83	220047	broad.mit.edu	37	chr11	85593593	85593593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaacagatttggcacatacGgcatctactaaaggaactga	16	8	9	8	1	1	3	0	1	1	2	1	4	1	4	0	3	4	2	0	3	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:85593593G>A	uc001pbh.1	+	4	730	c.218G>A	c.(217-219)CGG>CAG	p.R73Q	CCDC83_uc001pbg.1_Missense_Mutation_p.R73Q|CCDC83_uc001pbi.1_RNA|CCDC83_uc001pbj.1_Missense_Mutation_p.R30Q	NM_173556	NP_775827	Q8IWF9	CCD83_HUMAN	coiled-coil domain containing 83	73	Potential.									skin(1)	1		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				TGGCACATACGGCATCTACTA	0.383													25	67					0	0	1	0	0		A	85593593	A	A	85593593	3	1	49	1	0	0	0	0	1	0	0	0	2860	1116	39	1	228	1	CCDC83	11	85593593	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	10295117	85593593	49412923	887	37567											
MTNR1B	4544	broad.mit.edu	37	chr11	92702976	92702976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgggggctggcagcgcgCggccctccaggacccctcga	4	4	17	16	5	0	0	0	0	0	0	3	2	1	1	4	6	1	2	4	6	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:92702976C>T	uc001pdk.1	+	1	188	c.85C>T	c.(85-87)CGG>TGG	p.R29W		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	29	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	TGGCAGCGCGCGGCCCTCCAG	0.721													5	13					0	0	1	0	0		T	92702976	T	T	92702976	3	4	49	1	0	0	0	0	1	0	0	0	9970	759	27	1	87	1	MTNR1B	11	92702976	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	7109383	92702976	42303540	888	37568											
MMP12	4321	broad.mit.edu	37	chr11	102742539	102742539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacaagttccctacctccaCgggcaaaaaccaccaaaatg	16	6	5	14	1	0	0	0	0	0	0	2	0	2	0	5	1	3	2	5	1	7	3	rs61730845	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:102742539C>T	uc001phk.2	-	3	539	c.494G>A	c.(493-495)CGT>CAT	p.R165H		NM_002426	NP_002417	P39900	MMP12_HUMAN	matrix metalloproteinase 12 preproprotein	165					positive regulation of epithelial cell proliferation involved in wound healing|proteolysis|wound healing, spreading of epidermal cells	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)	CCTACCTCCACGGGCAAAAAC	0.408													15	31					0	0	1	0	0		T	102742539	T	T	102742539	3	4	49	1	0	0	0	0	1	0	0	0	9669	536	19	1	949	1	MMP12	11	102742539	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	10039563	102742539	32263977	889	37569											
CWF19L2	143884	broad.mit.edu	37	chr11	107219755	107219755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcccctcagtaagagaccGtacgttgggtaaacataaat	13	9	10	9	2	1	1	1	0	0	1	1	2	1	1	3	1	3	4	3	1	6	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:107219755G>A	uc010rvp.1	-	14	2140	c.2110C>T	c.(2110-2112)CGG>TGG	p.R704W	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	704							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		GTAAGAGACCGTACGTTGGGT	0.368													17	47					0	0	1	0	0		A	107219755	A	A	107219755	3	1	49	1	0	0	0	0	1	0	0	0	4075	1144	40	1	594	1	CWF19L2	11	107219755	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4477216	107219755	27786761	890	37570											
CUL5	8065	broad.mit.edu	37	chr11	107959318	107959318	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgccaattactgtgacatgTtgctaagaaaaacaccatta	15	12	6	8	0	0	2	0	1	0	1	0	2	0	2	2	0	4	2	2	0	6	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:107959318T>C	uc001pjv.2	+	12	1910	c.1243T>C	c.(1243-1245)TTG>CTG	p.L415L	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	415					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		CTGTGACATGTTGCTAAGAAA	0.333													8	68					0	0	1	0	0		C	107959318	C	C	107959318	2	2	49	1	0	0	0	0	0	0	0	1	4062	1722	60	3		3	CUL5	11	107959318	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	739563	107959318	27047198	891	37571											
ATM	472	broad.mit.edu	37	chr11	108201105	108201105	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attccgactttgttccctctGgcttgaaaattctggagttt	7	17	8	9	1	2	1	0	1	2	0	4	3	4	2	2	2	0	3	2	2	2	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:108201105G>T	uc001pkb.1	+	50	7857	c.7472G>T	c.(7471-7473)TGG>TTG	p.W2491L	ATM_uc009yxr.1_Missense_Mutation_p.W2491L|C11orf65_uc010rvx.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.W1143L|ATM_uc001pkg.1_Missense_Mutation_p.W848L	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2491	FAT.		W -> R (in AT).		cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TGTTCCCTCTGGCTTGAAAAT	0.363			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			39	128					1.59911e-31	1.76853e-31	1	1	0		T	108201105	T	T	108201105	3	4	49	1	0	0	0	0	1	0	0	0	1110	1357	47	5	7666	5	ATM	11	108201105	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	241787	108201105	26805411	892	37572											
C11orf52	91894	broad.mit.edu	37	chr11	111796804	111796804	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgacattcaagtgtgcAgccgtccccatgcccgggaa	9	8	11	13	2	1	1	1	1	0	0	2	2	2	2	4	1	4	2	4	1	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:111796804A>C	uc001pmh.2	+	5	736	c.253A>C	c.(253-255)AGC>CGC	p.S85R	C11orf52_uc001pmi.2_Missense_Mutation_p.S85R	NM_080659	NP_542390	Q96A22	CK052_HUMAN	hypothetical protein LOC91894	85										ovary(1)	1		all_cancers(61;8.8e-15)|all_epithelial(67;6.27e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.63e-07)|BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|all cancers(92;6.7e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0512)		TCAAGTGTGCAGCCGTCCCCA	0.527													8	31					0	0	1	0	0		C	111796804	C	C	111796804	3	2	49	1	0	0	0	0	1	0	0	0	1650	188	7	5	267	5	C11orf52	11	111796804	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3595699	111796804	23209712	893	37573											
DIXDC1	85458	broad.mit.edu	37	chr11	111866190	111866190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaacagcttcagtggccacGatcctcagcaccacactatt	11	8	7	15	1	2	0	2	0	0	0	3	1	3	0	3	1	3	3	3	1	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:111866190G>A	uc001pml.2	+	17	1888	c.1591G>A	c.(1591-1593)GAT>AAT	p.D531N	DIXDC1_uc001pmm.2_Missense_Mutation_p.D320N|DIXDC1_uc001pmn.2_Missense_Mutation_p.D237N|DIXDC1_uc010rwq.1_Missense_Mutation_p.D196N	NM_001037954	NP_001033043	Q155Q3	DIXC1_HUMAN	DIX domain containing 1 isoform a	531					multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytosol|focal adhesion	actin binding|gamma-tubulin binding|signal transducer activity			ovary(1)	1		all_cancers(61;7.58e-15)|all_epithelial(67;5.42e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;2.99e-07)|BRCA - Breast invasive adenocarcinoma(274;6.72e-07)|all cancers(92;6.25e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0548)		CAGTGGCCACGATCCTCAGCA	0.542													19	41					0	0	1	0	0		A	111866190	A	A	111866190	3	1	49	1	0	0	0	0	1	0	0	0	4547	1058	37	1	1679	1	DIXDC1	11	111866190	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	69386	111866190	23140326	894	37574											
ZW10	9183	broad.mit.edu	37	chr11	113639659	113639659	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctaggcaggaattcactgtActtcttgctaatcatattgc	10	14	8	9	0	3	0	2	0	1	0	3	1	3	1	0	2	3	4	0	2	5	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:113639659A>G	uc001poe.2	-	2	173	c.136T>C	c.(136-138)TAC>CAC	p.Y46H	ZW10_uc009yyv.2_RNA	NM_004724	NP_004715	O43264	ZW10_HUMAN	centromere/kinetochore protein zw10	46	Interaction with RINT1.|Interaction with ZWINT.|Potential.				cell division|ER to Golgi vesicle-mediated transport|establishment of mitotic spindle orientation|meiosis|mitotic cell cycle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|protein complex assembly|protein localization to kinetochore|protein transport|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|endoplasmic reticulum membrane|kinetochore microtubule|nucleus|spindle pole	centromeric DNA binding|protein binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.84e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000237)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.94e-06)|Epithelial(105;0.000103)|all cancers(92;0.000786)		AATTCACTGTACTTCTTGCTA	0.393													11	141					0	0	1	0	0		G	113639659	G	G	113639659	3	3	49	1	0	0	0	0	1	0	0	0	18272	391	14	3	2263	3	ZW10	11	113639659	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1773469	113639659	21366857	895	37575											
UBE4A	9354	broad.mit.edu	37	chr11	118252213	118252213	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatgtccttcactttatcAccattttcactggaagcata	11	14	5	11	0	3	0	3	0	0	0	4	1	4	1	2	1	2	2	2	1	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:118252213A>G	uc001psw.2	+	12	2113	c.1984A>G	c.(1984-1986)ACC>GCC	p.T662A	UBE4A_uc001psv.2_Missense_Mutation_p.T669A	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	662					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		TCACTTTATCACCATTTTCAC	0.418													10	127					0	0	1	0	0		G	118252213	G	G	118252213	3	3	49	1	0	0	0	0	1	0	0	0	16908	159	6	3	2047	3	UBE4A	11	118252213	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4612554	118252213	16754303	896	37576											
PHLDB1	23187	broad.mit.edu	37	chr11	118516165	118516165	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagtgggatgcccttcaCggggcagcacccttcccagc	6	7	12	16	1	1	0	1	0	0	0	2	1	2	1	4	3	4	2	4	3	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:118516165C>T	uc001ptr.1	+	17	3566	c.3213C>T	c.(3211-3213)CAC>CAT	p.H1071H	PHLDB1_uc001pts.2_Silent_p.H1071H|PHLDB1_uc001ptt.2_Silent_p.H1024H|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Silent_p.H886H|PHLDB1_uc001ptw.1_Silent_p.H426H|PHLDB1_uc009zai.1_Silent_p.H107H|PHLDB1_uc001ptx.1_Silent_p.H107H|PHLDB1_uc010ryi.1_Silent_p.H214H	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	1071											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		ATGCCCTTCACGGGGCAGCAC	0.657													30	70					0	0	1	0	0		T	118516165	T	T	118516165	2	4	49	1	0	0	0	0	0	0	0	1	11870	535	19	1		1	PHLDB1	11	118516165	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	263952	118516165	16490351	897	37577											
FOXR1	283150	broad.mit.edu	37	chr11	118849724	118849724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaacattgtgtatccccCtggaaagctggaggtctcag	9	10	10	12	0	1	0	1	0	1	0	4	2	3	2	3	3	2	2	3	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:118849724C>T	uc001pui.2	+	3	419	c.194C>T	c.(193-195)CCT>CTT	p.P65L	FOXR1_uc001puj.2_RNA|FOXR1_uc001puk.2_5'UTR	NM_181721	NP_859072	Q6PIV2	FOXR1_HUMAN	forkhead box R1	65					embryo development|organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.62e-05)		GTGTATCCCCCTGGAAAGCTG	0.547													26	190					0	0	1	0	0		T	118849724	T	T	118849724	3	4	49	1	0	0	0	0	1	0	0	0	6045	681	24	4	204	4	FOXR1	11	118849724	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	333559	118849724	16156792	898	37578											
HMBS	3145	broad.mit.edu	37	chr11	118963703	118963703	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatagcatacaagagaccaTgcaggctaccatccatgtcc	14	7	8	12	0	0	2	0	0	0	2	2	3	2	2	4	1	4	3	4	1	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:118963703T>C	uc001puz.1	+	13	1041	c.884T>C	c.(883-885)ATG>ACG	p.M295T	HMBS_uc001pvc.1_Missense_Mutation_p.M240T|HMBS_uc009zap.1_Missense_Mutation_p.M278T|HMBS_uc001pva.1_Missense_Mutation_p.M255T|HMBS_uc001pvb.1_Missense_Mutation_p.M264T|HMBS_uc001pvd.1_Missense_Mutation_p.M278T|HMBS_uc001pve.1_Missense_Mutation_p.M238T|HMBS_uc001pvf.1_Missense_Mutation_p.M278T	NM_000190	NP_000181	P08397	HEM3_HUMAN	hydroxymethylbilane synthase isoform 1	295					peptidyl-pyrromethane cofactor linkage	cytosol	hydroxymethylbilane synthase activity				0	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.72e-05)		CAAGAGACCATGCAGGCTACC	0.522									Porphyria_Acute_Intermittent				3	70					0	0	1	0	0		C	118963703	C	C	118963703	3	2	49	1	0	0	0	0	1	0	0	0	7235	1464	51	3	934	3	HMBS	11	118963703	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	113979	118963703	16042813	899	37579											
ARHGEF12	23365	broad.mit.edu	37	chr11	120317769	120317769	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggacatgtgcagaacagAttgttgccaaaattgaagaa	16	8	11	6	1	0	4	0	1	0	3	0	5	0	5	1	1	4	2	1	1	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:120317769A>T	uc001pxl.1	+	18	1571	c.1564A>T	c.(1564-1566)ATT>TTT	p.I522F	ARHGEF12_uc009zat.2_Missense_Mutation_p.I503F|ARHGEF12_uc010rzn.1_Missense_Mutation_p.I419F|ARHGEF12_uc009zau.1_Missense_Mutation_p.I419F	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	522	RGSL.				apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		TGCAGAACAGATTGTTGCCAA	0.438			T	MLL	AML								13	173					0	0	1	0	0		T	120317769	T	T	120317769	3	4	49	1	0	0	0	0	1	0	0	0	897	333	12	5	1634	5	ARHGEF12	11	120317769	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1354066	120317769	14688747	900	37580											
GRIK4	2900	broad.mit.edu	37	chr11	120776003	120776003	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagttttgctgcaggagaAcccatatttaatgctgaagg	11	11	10	9	0	0	2	0	1	0	1	0	3	0	2	2	2	4	4	2	2	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:120776003A>C	uc001pxn.2	+	13	1564	c.1277A>C	c.(1276-1278)AAC>ACC	p.N426T	GRIK4_uc009zav.1_Missense_Mutation_p.N426T|GRIK4_uc009zaw.1_Missense_Mutation_p.N426T|GRIK4_uc009zax.1_Missense_Mutation_p.N426T	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	426	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	CTGCAGGAGAACCCATATTTA	0.577													11	169					0	0	1	0	0		C	120776003	C	C	120776003	3	2	49	1	0	0	0	0	1	0	0	0	6792	43	2	5	1319	5	GRIK4	11	120776003	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	458234	120776003	14230513	901	37581											
TBCEL	219899	broad.mit.edu	37	chr11	120929174	120929174	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagcgaaggaaattggtaaTagccaggtctgttgtcctga	11	10	14	6	1	1	1	0	1	1	0	2	4	2	3	2	4	2	2	2	4	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:120929174T>A	uc009zay.2	+	6	911	c.833T>A	c.(832-834)ATA>AAA	p.I278K	TBCEL_uc001pxo.2_Missense_Mutation_p.I278K|TBCEL_uc001pxp.2_Missense_Mutation_p.I134K|TBCEL_uc001pxq.2_RNA	NM_001130047	NP_001123519	Q5QJ74	TBCEL_HUMAN	tubulin folding cofactor E-like	278	LRRCT.					cytoplasm|cytoskeleton				skin(1)	1		Breast(109;0.00526)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.89e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.121)		AAATTGGTAATAGCCAGGTCT	0.383													13	176					0	0	1	0	0		A	120929174	A	A	120929174	3	1	49	1	0	0	0	0	1	0	0	0	15660	1406	49	5	851	5	TBCEL	11	120929174	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	153171	120929174	14077342	902	37582											
TECTA	7007	broad.mit.edu	37	chr11	121000699	121000699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagctgctcaagttttatcGaagccgctccaggtgcggca	8	9	13	11	3	1	0	1	0	0	0	3	2	2	1	2	3	4	5	2	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:121000699G>A	uc010rzo.1	+	9	2720	c.2720G>A	c.(2719-2721)CGA>CAA	p.R907Q		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	907	VWFD 2.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		AAGTTTTATCGAAGCCGCTCC	0.557													10	44					0	0	1	0	0		A	121000699	A	A	121000699	3	1	49	1	0	0	0	0	1	0	0	0	15772	1058	37	1	2754	1	TECTA	11	121000699	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	71525	121000699	14005817	903	37583											
GRAMD1B	57476	broad.mit.edu	37	chr11	123483485	123483485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagggtctccacagagctgCgctatcgaaaacagccctgg	10	7	11	13	2	2	1	1	0	1	1	4	2	2	1	2	2	4	2	2	2	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:123483485C>T	uc001pyx.2	+	14	1836	c.1507C>T	c.(1507-1509)CGC>TGC	p.R503C	GRAMD1B_uc001pyw.2_Missense_Mutation_p.R510C|GRAMD1B_uc010rzw.1_Missense_Mutation_p.R463C|GRAMD1B_uc010rzx.1_Missense_Mutation_p.R463C|GRAMD1B_uc001pyy.2_Missense_Mutation_p.R194C	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	503						integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		CACAGAGCTGCGCTATCGAAA	0.537													3	13					0	0	1	0	0		T	123483485	T	T	123483485	3	4	49	1	0	0	0	0	1	0	0	0	6764	768	27	1	1561	1	GRAMD1B	11	123483485	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2482786	123483485	11523031	904	37584											
ACRV1	56	broad.mit.edu	37	chr11	125547803	125547803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctgttcaccggagccatGttcacctgaaggctgttcat	8	11	11	11	1	3	1	3	1	0	0	3	2	3	2	3	3	1	5	3	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:125547803G>A	uc001qcs.2	-	2	709	c.442C>T	c.(442-444)CAT>TAT	p.H148Y	ACRV1_uc001qck.2_Missense_Mutation_p.H78Y|ACRV1_uc001qcl.2_Missense_Mutation_p.H78Y|ACRV1_uc001qcm.2_Intron|ACRV1_uc001qcn.2_Missense_Mutation_p.H93Y|ACRV1_uc001qco.2_Missense_Mutation_p.H53Y|ACRV1_uc001qcp.2_Intron|ACRV1_uc001qcq.2_Missense_Mutation_p.H78Y|ACRV1_uc001qcr.2_Missense_Mutation_p.H148Y	NM_001612	NP_001603	P26436	ASPX_HUMAN	acrosomal vesicle protein 1 isoform a precursor	148	4 X 4 AA repeats of S-G-E-H.|2-3.|9 X 5 AA repeats of [SV]-G-E-Q-[PSA].				multicellular organismal development	acrosomal vesicle					0	all_hematologic(175;0.177)	Breast(109;0.0021)|all_lung(97;0.0179)|Lung NSC(97;0.0185)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0713)		CCGGAGCCATGTTCACCTGAA	0.547													61	173					0	0	1	0	0		A	125547803	A	A	125547803	3	1	49	1	0	0	0	0	1	0	0	0	172	1377	48	4	367	4	ACRV1	11	125547803	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2064318	125547803	9458713	905	37585											
SRPR	6734	broad.mit.edu	37	chr11	126136701	126136701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgcttctgaatgaactcctCgcgcttcctgcggatcagct	7	12	9	13	3	2	2	1	2	1	0	5	3	4	3	2	1	4	3	2	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:126136701C>T	uc001qdh.2	-	5	694	c.643G>A	c.(643-645)GAG>AAG	p.E215K	SRPR_uc010sbm.1_Missense_Mutation_p.E187K|FOXRED1_uc001qdi.2_5'Flank|FOXRED1_uc010sbn.1_5'Flank|FOXRED1_uc010sbo.1_5'Flank|FOXRED1_uc010sbp.1_5'Flank|FOXRED1_uc010sbq.1_5'Flank|FOXRED1_uc001qdj.2_5'Flank|FOXRED1_uc010sbr.1_5'Flank	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	215					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		ATGAACTCCTCGCGCTTCCTG	0.502													62	120					0	0	1	0	0		T	126136701	T	T	126136701	3	4	49	1	0	0	0	0	1	0	0	0	15187	893	31	1	1313	1	SRPR	11	126136701	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	588898	126136701	8869815	906	37586											
KIRREL3	84623	broad.mit.edu	37	chr11	126396494	126396494	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccacagaacgaagccatcGtattcggggatggcgcaaag	13	6	12	10	4	0	1	0	0	0	1	3	3	1	2	2	3	2	2	2	3	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:126396494G>A	uc001qea.2	-	3	583	c.222C>T	c.(220-222)TAC>TAT	p.Y74Y	KIRREL3_uc001qeb.2_Silent_p.Y74Y|KIRREL3_uc001qec.1_Silent_p.Y74Y	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	74	Ig-like C2-type 1.|Extracellular (Potential).				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		CGAAGCCATCGTATTCGGGGA	0.617													8	14					0	0	1	0	0		A	126396494	A	A	126396494	2	1	49	1	0	0	0	0	0	0	0	1	8342	1140	40	1		1	KIRREL3	11	126396494	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	259793	126396494	8610022	907	37587											
NCAPD3	23310	broad.mit.edu	37	chr11	134073985	134073985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagccaggcaatgaacatagCgtattccccacaaggaagtt	15	7	9	10	1	0	1	0	1	0	0	1	2	1	2	3	2	3	3	3	2	7	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:134073985C>T	uc001qhd.1	-	10	1777	c.1171G>A	c.(1171-1173)GCT>ACT	p.A391T	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	391					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		ATGAACATAGCGTATTCCCCA	0.423													3	64					0	0	1	0	0		T	134073985	T	T	134073985	3	4	49	1	0	0	0	0	1	0	0	0	10225	768	27	1	3429	1	NCAPD3	11	134073985	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	7677491	134073985	932531	908	37588											
THYN1	29087	broad.mit.edu	37	chr11	134121181	134121181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagttctcagttttggtgCgttttcctgatagtcccttg	4	18	10	9	1	1	2	1	2	1	0	4	2	3	2	2	1	1	3	2	1	1	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr11:134121181C>T	uc001qhf.2	-	3	167	c.65G>A	c.(64-66)CGC>CAC	p.R22H	THYN1_uc001qhg.2_Missense_Mutation_p.R22H|THYN1_uc001qhh.2_Missense_Mutation_p.R22H|THYN1_uc001qhi.2_Missense_Mutation_p.R22H|THYN1_uc001qhj.2_Missense_Mutation_p.R22H|THYN1_uc009zdb.2_Missense_Mutation_p.R22H|ACAD8_uc009zdc.2_5'Flank|ACAD8_uc010sco.1_5'Flank|ACAD8_uc010scp.1_5'Flank|ACAD8_uc010scq.1_5'Flank|ACAD8_uc001qhk.2_5'Flank|ACAD8_uc001qhl.2_5'Flank	NM_001037305	NP_001032382	Q9P016	THYN1_HUMAN	thymocyte nuclear protein 1 isoform 1	22						nucleus					0	all_hematologic(175;0.127)	all_cancers(12;1.1e-21)|all_epithelial(12;3.77e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;1.68e-10)|all cancers(11;1.95e-09)|BRCA - Breast invasive adenocarcinoma(10;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00148)|Lung(977;0.207)		AGTTTTGGTGCGTTTTCCTGA	0.343													30	284					0	0	1	0	0		T	134121181	T	T	134121181	3	4	49	1	0	0	0	0	1	0	0	0	15911	768	27	1	636	1	THYN1	11	134121181	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	47196	134121181	885335	909	37589											
CACNA1C	775	broad.mit.edu	37	chr12	2786373	2786373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagccctcccagaggaacGcgctgtctctgcaggtgagg	8	6	14	13	2	1	2	0	1	1	1	3	3	2	3	2	3	3	3	2	3	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:2786373G>A	uc009zdu.1	+	42	5399	c.5086G>A	c.(5086-5088)GCG>ACG	p.A1696T	CACNA1C_uc009zdv.1_Missense_Mutation_p.A1645T|CACNA1C_uc001qkb.2_Missense_Mutation_p.A1648T|CACNA1C_uc001qkc.2_Missense_Mutation_p.A1667T|CACNA1C_uc001qke.2_Missense_Mutation_p.A1637T|CACNA1C_uc001qkf.2_Missense_Mutation_p.A1656T|CACNA1C_uc001qjz.2_Missense_Mutation_p.A1648T|CACNA1C_uc001qkd.2_Missense_Mutation_p.A1667T|CACNA1C_uc001qkg.2_Missense_Mutation_p.A1654T|CACNA1C_uc009zdw.1_Missense_Mutation_p.A1689T|CACNA1C_uc001qkh.2_Missense_Mutation_p.A1656T|CACNA1C_uc001qkl.2_Missense_Mutation_p.A1696T|CACNA1C_uc001qkn.2_Missense_Mutation_p.A1648T|CACNA1C_uc001qko.2_Missense_Mutation_p.A1668T|CACNA1C_uc001qkp.2_Missense_Mutation_p.A1648T|CACNA1C_uc001qkr.2_Missense_Mutation_p.A1665T|CACNA1C_uc001qku.2_Missense_Mutation_p.A1648T|CACNA1C_uc001qkq.2_Missense_Mutation_p.A1676T|CACNA1C_uc001qks.2_Missense_Mutation_p.A1648T|CACNA1C_uc001qkt.2_Missense_Mutation_p.A1667T|CACNA1C_uc001qki.1_Missense_Mutation_p.A1384T|CACNA1C_uc001qkj.1_Missense_Mutation_p.A1384T|CACNA1C_uc001qkk.1_Missense_Mutation_p.A1384T|CACNA1C_uc001qkm.1_Missense_Mutation_p.A1373T|CACNA1C_uc010sea.1_Missense_Mutation_p.A339T|uc001qkx.1_RNA|CACNA1C_uc001qky.1_5'Flank	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1696	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CCAGAGGAACGCGCTGTCTCT	0.632													4	15					0	0	1	0	0		A	2786373	A	A	2786373	3	1	49	1	0	0	0	0	1	0	0	0	2543	1087	38	1	5483	1	CACNA1C	12	2786373	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08		2786373	131065522	910	37590											
PRMT8	56341	broad.mit.edu	37	chr12	3701425	3701425	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctccctacacccactggaaGcagaccgtcttctacttgga	9	9	8	15	1	2	1	0	0	2	1	3	3	3	3	3	2	3	2	3	2	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:3701425G>A	uc001qmf.2	+	9	1375	c.1008G>A	c.(1006-1008)AAG>AAA	p.K336K	PRMT8_uc009zed.2_Silent_p.K327K|PRMT8_uc001qmg.2_Silent_p.K150K|PRMT8_uc001qmh.2_RNA	NM_019854	NP_062828	Q9NR22	ANM8_HUMAN	HMT1 hnRNP methyltransferase-like 4	336					regulation of protein binding	cytoplasm|plasma membrane	histone-arginine N-methyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity			ovary(3)|central_nervous_system(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(31;0.0109)|COAD - Colon adenocarcinoma(12;0.0264)			CCCACTGGAAGCAGACCGTCT	0.537													29	202					0	0	1	0	0		A	3701425	A	A	3701425	2	1	49	1	0	0	0	0	0	0	0	1	12564	962	34	2		2	PRMT8	12	3701425	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	915052	3701425	130150470	911	37591											
KCNA5	3741	broad.mit.edu	37	chr12	5154886	5154886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcaactacttctaccacCgggaaacggatcacgaggag	13	7	9	12	3	3	0	2	0	1	0	3	4	3	3	2	3	4	0	2	3	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:5154886C>T	uc001qni.2	+	1	1802	c.1573C>T	c.(1573-1575)CGG>TGG	p.R525W		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	525						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						CTTCTACCACCGGGAAACGGA	0.637													10	32					0	0	1	0	0		T	5154886	T	T	5154886	3	4	49	1	0	0	0	0	1	0	0	0	8022	643	23	1	1575	1	KCNA5	12	5154886	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1453461	5154886	128697009	912	37592											
CHD4	1108	broad.mit.edu	37	chr12	6707121	6707121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatcccatagcgatagaagcGttcctccatctctgcaaatt	11	12	6	12	2	1	1	0	0	1	1	5	2	4	1	3	0	3	2	3	0	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:6707121G>A	uc001qpo.2	-	12	1995	c.1831C>T	c.(1831-1833)CGC>TGC	p.R611C	CHD4_uc001qpn.2_Missense_Mutation_p.R604C|CHD4_uc001qpp.2_Missense_Mutation_p.R608C	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	611					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						CGATAGAAGCGTTCCTCCATC	0.512													50	105					0	0	1	0	0		A	6707121	A	A	6707121	3	1	49	1	0	0	0	0	1	0	0	0	3330	1145	40	1	4023	1	CHD4	12	6707121	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1552235	6707121	127144774	913	37593											
SLC2A14	144195	broad.mit.edu	37	chr12	7970451	7970451	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagaggggaagagcaatccGactaggaagttggaggtcca	13	5	16	7	1	0	2	0	0	0	2	2	6	2	5	2	5	1	3	2	5	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:7970451G>A	uc001qtk.2	-	15	2113	c.1320C>T	c.(1318-1320)GTC>GTT	p.V440V	SLC2A14_uc001qtl.2_Silent_p.V417V|SLC2A14_uc001qtm.2_Silent_p.V417V|SLC2A14_uc010sgg.1_Silent_p.V331V|SLC2A14_uc001qtn.2_Silent_p.V440V|SLC2A14_uc001qto.2_Silent_p.V75V|SLC2A14_uc010sgh.1_Silent_p.V455V	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14	440	Helical; Name=11; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		AGAGCAATCCGACTAGGAAGT	0.413													26	63					0	0	1	0	0		A	7970451	A	A	7970451	2	1	49	1	0	0	0	0	0	0	0	1	14568	1045	37	1		1	SLC2A14	12	7970451	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1263330	7970451	125881444	914	37594											
CLEC1A	51267	broad.mit.edu	37	chr12	10224068	10224068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccattaaggatggccacaCagtctctgcttcttgggctg	7	12	10	12	0	2	0	0	0	2	0	4	1	3	1	2	3	1	2	2	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:10224068C>T	uc001qxb.2	-	6	791	c.707G>A	c.(706-708)TGT>TAT	p.C236Y	CLEC1A_uc009zhf.2_Missense_Mutation_p.C148Y|CLEC1A_uc001qxc.2_Missense_Mutation_p.C148Y|CLEC1A_uc001qxd.2_Missense_Mutation_p.C193Y|CLEC1A_uc010sgx.1_Missense_Mutation_p.C134Y	NM_016511	NP_057595	Q8NC01	CLC1A_HUMAN	C-type lectin-like receptor-1	236	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane|intracellular	sugar binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2						GATGGCCACACAGTCTCTGCT	0.398													42	104					0	0	1	0	0		T	10224068	T	T	10224068	3	4	49	1	0	0	0	0	1	0	0	0	3508	478	17	4	139	4	CLEC1A	12	10224068	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2253617	10224068	123627827	915	37595											
GPR19	2842	broad.mit.edu	37	chr12	12815196	12815196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggctgtggccacttcccCgggtttcagcacatagtgaa	7	10	12	12	1	1	1	1	1	0	0	2	1	2	1	3	3	1	4	3	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:12815196C>T	uc001rar.3	-	2	380	c.187G>A	c.(187-189)GGG>AGG	p.G63R	GPR19_uc001raq.2_Missense_Mutation_p.G63R	NM_006143	NP_006134	Q15760	GPR19_HUMAN	G protein-coupled receptor 19	63	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.048)		GCCACTTCCCCGGGTTTCAGC	0.488													7	92					0	0	1	0	0		T	12815196	T	T	12815196	3	4	49	1	0	0	0	0	1	0	0	0	6694	652	23	1	1064	1	GPR19	12	12815196	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2591128	12815196	121036699	916	37596											
KIAA1467	57613	broad.mit.edu	37	chr12	13232857	13232857	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taatggagggccagatggctCagctacaggagtccaccccc	10	6	12	13	0	1	1	1	0	0	1	2	3	2	3	4	4	2	2	4	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:13232857C>T	uc001rbi.2	+	12	1800	c.1777C>T	c.(1777-1779)CAG>TAG	p.Q593*	KIAA1467_uc009zhx.1_RNA	NM_020853	NP_065904	A2RU67	K1467_HUMAN	hypothetical protein LOC57613	593						integral to membrane				central_nervous_system(2)|skin(1)	3		Prostate(47;0.184)		BRCA - Breast invasive adenocarcinoma(232;0.157)		CCAGATGGCTCAGCTACAGGA	0.562													17	37					0	0	1	0	0		T	13232857	T	T	13232857	4	4	49	1	0	0	0	0	0	1	0	0	8251	827	29	4	1823	4	KIAA1467	12	13232857	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	417661	13232857	120619038	917	37597											
GOLT1B	51026	broad.mit.edu	37	chr12	21665245	21665245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggggcttctttcctgtcGttgttggctttattagaaga	6	16	11	8	1	1	2	0	0	1	2	3	2	2	2	2	3	0	4	2	3	3	7	rs34378602	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:21665245G>A	uc001rez.2	+	4	472	c.313G>A	c.(313-315)GTT>ATT	p.V105I	GOLT1B_uc009zis.2_RNA|GOLT1B_uc009zit.2_RNA|GOLT1B_uc009ziu.2_RNA	NM_016072	NP_057156	Q9Y3E0	GOT1B_HUMAN	golgi transport 1 homolog B	105	Phe-rich.|Helical; Name=4; (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade|protein transport|vesicle-mediated transport	endoplasmic reticulum|Golgi membrane|integral to membrane	signal transducer activity				0						CTTTCCTGTCGTTGTTGGCTT	0.343													6	105					0	0	1	0	0		A	21665245	A	A	21665245	3	1	49	1	0	0	0	0	1	0	0	0	6586	1145	40	1	327	1	GOLT1B	12	21665245	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8432388	21665245	112186650	918	37598											
SOX5	6660	broad.mit.edu	37	chr12	23999035	23999035	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtactagacaaggactcGccactctgtcgcccaccttc	8	9	8	16	2	1	1	0	0	1	1	4	2	1	2	3	1	1	2	3	1	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:23999035G>A	uc001rfw.2	-	3	465	c.363C>T	c.(361-363)GGC>GGT	p.G121G	SOX5_uc001rfx.2_Silent_p.G108G|SOX5_uc001rfy.2_Silent_p.G108G|SOX5_uc010siv.1_Silent_p.G108G|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Silent_p.G73G|SOX5_uc001rga.2_Silent_p.G86G	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	121					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						ACAAGGACTCGCCACTCTGTC	0.493													31	76					0	0	1	0	0		A	23999035	A	A	23999035	2	1	49	1	0	0	0	0	0	0	0	1	14979	1074	38	1		1	SOX5	12	23999035	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2333790	23999035	109852860	919	37599											
KRAS	3845	broad.mit.edu	37	chr12	25398284	25398284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcactcttgcctacgccaCcagctccaactaccacaagt	11	7	6	17	1	1	0	0	0	1	0	2	0	2	0	5	1	5	2	5	1	4	3	rs121913529		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:25398284C>T	uc001rgp.1	-	2	216	c.35G>A	c.(34-36)GGT>GAT	p.G12D	KRAS_uc001rgq.1_Missense_Mutation_p.G12D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12N(6)|p.G12G(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			GCCTACGCCACCAGCTCCAAC	0.348	G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			8	25					0	0	1	0	0		T	25398284	T	T	25398284	3	4	49	1	0	0	0	0	1	0	0	0	8454	507	18	4	671	4	KRAS	12	25398284	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1399249	25398284	108453611	920	37600											
IPO8	10526	broad.mit.edu	37	chr12	30792613	30792613	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacatagtacgaagctcactAgttttgacccctcgagttaa	12	11	7	11	2	1	1	1	1	0	0	2	3	1	1	2	0	2	4	2	0	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:30792613A>G	uc001rjd.2	-	21	2495	c.2325T>C	c.(2323-2325)ACT>ACC	p.T775T	IPO8_uc001rje.1_Silent_p.T264T|IPO8_uc010sjt.1_Silent_p.T570T	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	775					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					GAAGCTCACTAGTTTTGACCC	0.433													8	142					0	0	1	0	0		G	30792613	G	G	30792613	2	3	49	1	0	0	0	0	0	0	0	1	7814	407	15	3		3	IPO8	12	30792613	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	5394329	30792613	103059282	921	37601											
IPO8	10526	broad.mit.edu	37	chr12	30826944	30826944	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctgaatgcccactgcatAggttttcaaaaagaattcag	13	11	8	9	0	2	2	2	1	0	1	2	2	2	2	1	1	3	3	1	1	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:30826944A>G	uc001rjd.2	-	8	1059	c.889T>C	c.(889-891)TAT>CAT	p.Y297H	IPO8_uc010sjt.1_Missense_Mutation_p.Y92H	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	297					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					CCCACTGCATAGGTTTTCAAA	0.323													5	48					0	0	1	0	0		G	30826944	G	G	30826944	3	3	49	1	0	0	0	0	1	0	0	0	7814	420	15	3	2296	3	IPO8	12	30826944	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	34331	30826944	103024951	922	37602											
FAM113B	91523	broad.mit.edu	37	chr12	47629940	47629940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcccctcatcagcccatgCaggtttcttcgtcgaagaca	8	11	8	14	2	3	1	2	0	1	1	6	2	4	1	3	1	2	2	3	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:47629940C>T	uc001rpn.2	+	4	1825	c.1094C>T	c.(1093-1095)GCA>GTA	p.A365V	FAM113B_uc001rpq.2_Missense_Mutation_p.A365V	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	365	Pro-rich.						hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					TCAGCCCATGCAGGTTTCTTC	0.532													27	86					0	0	1	0	0		T	47629940	T	T	47629940	3	4	49	1	0	0	0	0	1	0	0	0	5413	710	25	2	1096	2	FAM113B	12	47629940	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	16802996	47629940	86221955	923	37603											
ZNF641	121274	broad.mit.edu	37	chr12	48737243	48737243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gttgatgcctggcaaggtggGaaccccatacaaactgtttc	10	10	11	10	0	0	1	0	1	0	0	1	2	0	2	3	3	4	3	3	3	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:48737243G>A	uc001rrn.1	-	6	995	c.830C>T	c.(829-831)TCC>TTC	p.S277F	ZNF641_uc001rro.1_Missense_Mutation_p.S263F|ZNF641_uc010sls.1_Missense_Mutation_p.S254F	NM_152320	NP_689533	Q96N77	ZN641_HUMAN	zinc finger protein 641	277	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						GGCAAGGTGGGAACCCCATAC	0.522													6	55					0	0	1	0	0		A	48737243	A	A	48737243	3	1	49	1	0	0	0	0	1	0	0	0	18082	1174	41	4	490	4	ZNF641	12	48737243	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1107303	48737243	85114652	924	37604											
ADCY6	112	broad.mit.edu	37	chr12	49165623	49165623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taacagccacacactcacacGactgatagtagagttcatca	15	8	6	12	1	3	2	3	1	0	1	3	3	3	2	1	0	2	2	1	0	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:49165623G>A	uc001rsh.3	-	18	3581	c.2921C>T	c.(2920-2922)TCG>TTG	p.S974L	ADCY6_uc001rsj.3_Missense_Mutation_p.S974L|ADCY6_uc001rsi.3_Missense_Mutation_p.S921L|ADCY6_uc010slw.1_Missense_Mutation_p.S205L	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	974	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						ACACTCACACGACTGATAGTA	0.562													28	50					0	0	1	0	0		A	49165623	A	A	49165623	3	1	49	1	0	0	0	0	1	0	0	0	298	1059	37	1	601	1	ADCY6	12	49165623	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	428380	49165623	84686272	925	37605											
WNT10B	7480	broad.mit.edu	37	chr12	49361903	49361903	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggcttgagccagggccaggGctgggcagagagtgggggaa	8	4	22	7	0	0	2	0	1	0	1	0	4	0	3	2	6	1	3	2	6	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:49361903G>A	uc001rss.2	-	4	883	c.537C>T	c.(535-537)AGC>AGT	p.S179S	WNT10B_uc001rst.2_Intron	NM_003394	NP_003385	O00744	WN10B_HUMAN	wingless-type MMTV integration site family,	179					axis specification|bone trabecula formation|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|chondrocyte differentiation|female gonad development|hemopoietic stem cell proliferation|midbrain-hindbrain boundary development|myoblast cell differentiation involved in skeletal muscle regeneration|negative regulation of epithelial cell proliferation|negative regulation of fat cell differentiation|neuron differentiation|positive regulation of anagen|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cell proliferation|positive regulation of epithelial cell differentiation|positive regulation of osteoblast differentiation|protein stabilization|regulation of skeletal muscle tissue development|skeletal muscle fiber development|smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			skin(4)|lung(3)	7						cagggccagggctgggCAGAG	0.473													4	33					0	0	1	0	0		A	49361903	A	A	49361903	2	1	49	1	0	0	0	0	0	0	0	1	17409	1194	42	2		2	WNT10B	12	49361903	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	196280	49361903	84489992	926	37606											
MLL2	8085	broad.mit.edu	37	chr12	49425776	49425776	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtagggtggggtctggcGtactgcctgactctgctgca	4	11	16	10	1	2	1	0	1	2	0	2	1	2	1	1	5	4	4	1	5	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:49425776G>A	uc001rta.3	-	39	12712	c.12712C>T	c.(12712-12714)CGC>TGC	p.R4238C		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4238	Gln-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding	p.R3968C(1)		kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GGGGTCTGGCGTACTGCCTGA	0.642			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			11	19					0	0	1	0	0		A	49425776	A	A	49425776	3	1	49	1	0	0	0	0	1	0	0	0	9639	1145	40	1	3965	1	MLL2	12	49425776	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	63873	49425776	84426119	927	37607											
KCNH3	23416	broad.mit.edu	37	chr12	49948156	49948156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggctgtgagctgccccggcGggagcaggtggtaaaggcca	7	5	18	11	3	0	1	0	1	0	0	0	2	0	2	3	6	3	4	3	6	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:49948156G>A	uc001ruh.1	+	11	2215	c.1955G>A	c.(1954-1956)CGG>CAG	p.R652Q	KCNH3_uc010smj.1_Missense_Mutation_p.R592Q	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	652	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						CTGCCCCGGCGGGAGCAGGTG	0.637													13	118					0	0	1	0	0		A	49948156	A	A	49948156	3	1	49	1	0	0	0	0	1	0	0	0	8049	1116	39	1	1997	1	KCNH3	12	49948156	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	522380	49948156	83903739	928	37608											
GPD1	2819	broad.mit.edu	37	chr12	50498451	50498451	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtatttgaggaagacattGgaggcaaaaagctgactgag	14	8	15	4	0	0	4	0	3	0	1	0	6	0	6	0	4	1	3	0	4	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:50498451G>T	uc001rvz.2	+	2	169	c.136G>T	c.(136-138)GGA>TGA	p.G46*	GPD1_uc010smp.1_Nonsense_Mutation_p.G46*|GPD1_uc001rwa.2_Nonsense_Mutation_p.G46*	NM_005276	NP_005267	P21695	GPDA_HUMAN	glycerol-3-phosphate dehydrogenase 1 (soluble)	46					glycerol-3-phosphate catabolic process|triglyceride biosynthetic process	cytosol|glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|protein homodimerization activity				0					NADH(DB00157)	GGAAGACATTGGAGGCAAAAA	0.552													12	139					1.05317e-09	1.1283e-09	1	1	0		T	50498451	T	T	50498451	4	4	49	1	0	0	0	0	0	1	0	0	6619	1349	47	5	142	5	GPD1	12	50498451	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	550295	50498451	83353444	929	37609											
LETMD1	25875	broad.mit.edu	37	chr12	51450008	51450008	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatcctctgggcatgaacCaactccaggctttgcacgtg	9	9	9	14	1	1	1	0	1	1	0	3	1	3	1	4	2	3	3	4	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:51450008C>T	uc001rxm.2	+	6	798	c.742C>T	c.(742-744)CAA>TAA	p.Q248*	LETMD1_uc010smz.1_Nonsense_Mutation_p.Q198*|LETMD1_uc010sna.1_Intron|LETMD1_uc001rxl.2_Nonsense_Mutation_p.Q192*|LETMD1_uc009zlv.2_Intron|LETMD1_uc001rxs.2_Intron|LETMD1_uc009zlw.2_Nonsense_Mutation_p.Q261*|LETMD1_uc001rxn.2_Nonsense_Mutation_p.Q91*|LETMD1_uc001rxo.2_RNA|LETMD1_uc001rxp.2_Nonsense_Mutation_p.Q131*|LETMD1_uc001rxq.2_Intron|LETMD1_uc001rxr.2_Intron|LETMD1_uc001rxt.2_Intron	NM_015416	NP_056231	Q6P1Q0	LTMD1_HUMAN	LETM1 domain containing 1 isoform 1	248	Mitochondrial intermembrane (Potential).|LETM1.					integral to membrane|mitochondrial outer membrane	protein binding			central_nervous_system(2)	2						GGGCATGAACCAACTCCAGGC	0.468													11	119					0	0	1	0	0		T	51450008	T	T	51450008	4	4	49	1	0	0	0	0	0	1	0	0	8752	595	21	4	764	4	LETMD1	12	51450008	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	951557	51450008	82401887	930	37610											
CSRNP2	81566	broad.mit.edu	37	chr12	51461489	51461489	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcctggctgcaggcacaCgcttctgggtcacaatacag	9	7	11	14	1	2	0	1	0	1	0	2	0	2	0	2	3	3	4	2	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:51461489C>T	uc001rxu.1	-	4	973	c.675G>A	c.(673-675)GCG>GCA	p.A225A		NM_030809	NP_110436	Q9H175	CSRN2_HUMAN	TGF-beta induced apoptosis protein 12	225	Cys-rich.				apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						TGCAGGCACACGCTTCTGGGT	0.547													27	87					0	0	1	0	0		T	51461489	T	T	51461489	2	4	49	1	0	0	0	0	0	0	0	1	3967	523	19	1		1	CSRNP2	12	51461489	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	11481	51461489	82390406	931	37611											
CSRNP2	81566	broad.mit.edu	37	chr12	51470194	51470194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacggagcagcttactcacGtgtgaagctggcagtggtag	9	8	16	8	2	1	1	1	1	0	0	1	3	1	3	0	4	4	5	0	4	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:51470194G>A	uc001rxu.1	-	2	449	c.151C>T	c.(151-153)CCC>TCC	p.P51S		NM_030809	NP_110436	Q9H175	CSRN2_HUMAN	TGF-beta induced apoptosis protein 12	51					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GCTTACTCACGTGTGAAGCTG	0.552													7	60					0	0	1	0	0		A	51470194	A	A	51470194	3	1	49	1	0	0	0	0	1	0	0	0	3967	1159	40	1	1496	1	CSRNP2	12	51470194	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8705	51470194	82381701	932	37612											
DAZAP2	9802	broad.mit.edu	37	chr12	51634184	51634184	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggaatccagtataccCtcagaccttgcatcttcctc	8	12	6	15	0	2	1	1	0	1	1	6	2	5	2	5	1	2	2	5	1	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:51634184C>A	uc010snd.1	+	2	255	c.71C>A	c.(70-72)CCT>CAT	p.P24H	DAZAP2_uc001ryb.2_Missense_Mutation_p.P24H|DAZAP2_uc010snc.1_Missense_Mutation_p.P24H|DAZAP2_uc010sne.1_Missense_Mutation_p.P24H|DAZAP2_uc010snf.1_Missense_Mutation_p.P24H	NM_001136266	NP_001129738	Q15038	DAZP2_HUMAN	DAZ associated protein 2 isoform c	24	Pro-rich.						WW domain binding				0						CCAGTATACCCTCAGACCTTG	0.498													24	64					8.24728e-16	8.98749e-16	1	1	0		A	51634184	A	A	51634184	3	1	49	1	0	0	0	0	1	0	0	0	4248	681	24	5	77	5	DAZAP2	12	51634184	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	163990	51634184	82217711	933	37613											
ACVR1B	91	broad.mit.edu	37	chr12	52377793	52377793	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctgcagataatggcacCtggacacagctgtggcttgt	8	12	11	10	0	1	1	0	0	1	1	2	2	1	2	1	3	2	4	1	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:52377793C>A	uc001rzn.2	+	5	864	c.822C>A	c.(820-822)ACC>ACA	p.T274T	ACVR1B_uc001rzl.2_Silent_p.T274T|ACVR1B_uc001rzm.2_Silent_p.T274T|ACVR1B_uc010snn.1_Silent_p.T315T	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	274	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	ATAATGGCACCTGGACACAGC	0.443													4	54					0.00909568	0.00923047	1	1	0		A	52377793	A	A	52377793	2	1	49	1	0	0	0	0	0	0	0	1	221	668	24	5		5	ACVR1B	12	52377793	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	743609	52377793	81474102	934	37614											
KRT80	144501	broad.mit.edu	37	chr12	52567501	52567501	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcagcggctgtccatgccGacggtcaccgacacatcctt	7	8	11	15	4	1	0	1	0	0	0	3	2	3	0	4	3	2	2	4	3	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:52567501G>A	uc001rzx.2	-	5	812	c.714C>T	c.(712-714)GTC>GTT	p.V238V	KRT80_uc001rzw.2_Silent_p.V273V|KRT80_uc001rzy.2_Silent_p.V238V	NM_182507	NP_872313	Q6KB66	K2C80_HUMAN	keratin 80 isoform a	238	Linker 12.|Rod.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.108)		TGTCCATGCCGACGGTCACCG	0.672													19	56					0	0	1	0	0		A	52567501	A	A	52567501	2	1	49	1	0	0	0	0	0	0	0	1	8510	1045	37	1		1	KRT80	12	52567501	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	189708	52567501	81284394	935	37615											
KRT6C	286887	broad.mit.edu	37	chr12	52867410	52867410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcccctggagcgggacaCggagatgctgctgaagccag	9	5	15	12	2	0	2	0	1	0	1	0	5	0	4	3	3	5	2	3	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:52867410C>T	uc001sal.3	-	1	160	c.112G>A	c.(112-114)GTG>ATG	p.V38M		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C	38	Head.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)		GAGCGGGACACGGAGATGCTG	0.657													18	53					0	0	1	0	0		T	52867410	T	T	52867410	3	4	49	1	0	0	0	0	1	0	0	0	8498	536	19	1	1618	1	KRT6C	12	52867410	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	299909	52867410	80984485	936	37616											
KRT79	338785	broad.mit.edu	37	chr12	53217775	53217775	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgtccccatgcttcccagCagtcacctgcagctcctcat	6	11	7	17	0	2	0	2	0	0	0	5	0	5	0	5	0	4	5	5	0	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:53217775C>G	uc001sbb.2	-	6	1075	c.1042G>C	c.(1042-1044)GCT>CCT	p.A348P	KRT79_uc001sba.2_Missense_Mutation_p.A119P	NM_175834	NP_787028	Q5XKE5	K2C79_HUMAN	keratin 6L	348	Rod.|Coil 2.					keratin filament	structural molecule activity			ovary(2)|skin(2)	4						TGCTTCCCAGCAGTCACCTGC	0.597													3	53					0	0	1	0	0		G	53217775	G	G	53217775	3	3	49	1	0	0	0	0	1	0	0	0	8508	710	25	5	581	5	KRT79	12	53217775	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	350365	53217775	80634120	937	37617											
TENC1	23371	broad.mit.edu	37	chr12	53457555	53457555	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtttcgtggccaagaagccGggaagcccctgggagaatgt	9	7	16	9	2	0	2	0	0	0	2	1	4	0	3	4	4	2	1	4	4	4	1	rs148970226		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:53457555G>A	uc001sbp.2	+	29	4254	c.4119G>A	c.(4117-4119)CCG>CCA	p.P1373P	TENC1_uc001sbl.2_Silent_p.P1249P|TENC1_uc001sbn.2_Silent_p.P1383P|TENC1_uc001sbq.2_Silent_p.P771P|TENC1_uc001sbr.2_RNA|TENC1_uc009zmr.2_Silent_p.P866P|TENC1_uc001sbs.2_Silent_p.P192P	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	1373					intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						CCAAGAAGCCGGGAAGCCCCT	0.547													41	133					0	0	1	0	0		A	53457555	A	A	53457555	2	1	49	1	0	0	0	0	0	0	0	1	15783	1103	39	1		1	TENC1	12	53457555	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	239780	53457555	80394340	938	37618											
SOAT2	8435	broad.mit.edu	37	chr12	53517580	53517580	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtgctgatgtggaccatgCtgtttctaggccagggaatc	8	11	13	9	1	1	1	0	1	1	0	2	3	1	3	2	3	2	3	2	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:53517580C>T	uc001sbv.2	+	14	1529	c.1441C>T	c.(1441-1443)CTG>TTG	p.L481L	SOAT2_uc009zms.2_RNA	NM_003578	NP_003569	O75908	SOAT2_HUMAN	acyl-CoA:cholesterol acyltransferase 2	481	Helical; (Potential).				cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|macrophage derived foam cell differentiation|very-low-density lipoprotein particle assembly	brush border|endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			ovary(1)	1						GTGGACCATGCTGTTTCTAGG	0.577													17	83					0	0	1	0	0		T	53517580	T	T	53517580	2	4	49	1	0	0	0	0	0	0	0	1	14936	796	28	2		2	SOAT2	12	53517580	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	60025	53517580	80334315	939	37619											
ESPL1	9700	broad.mit.edu	37	chr12	53686104	53686104	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaaggggtggatccacgaAgtaccttctatgtcctgaac	10	10	11	10	1	2	1	1	1	1	0	4	3	4	2	3	3	2	1	3	3	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:53686104A>C	uc001sck.2	+	28	5930	c.5839A>C	c.(5839-5841)AGT>CGT	p.S1947R	ESPL1_uc001scj.2_Missense_Mutation_p.S1622R	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1947					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						GGATCCACGAAGTACCTTCTA	0.532													29	81					0	0	1	0	0		C	53686104	C	C	53686104	3	2	49	1	0	0	0	0	1	0	0	0	5261	72	3	5	5945	5	ESPL1	12	53686104	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	168524	53686104	80165791	940	37620											
HNRNPA1	3178	broad.mit.edu	37	chr12	54676031	54676031	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgaggcagtggcaagaaaaGgggctttgcctttgtaacct	10	9	13	9	1	0	1	0	0	0	1	0	2	0	1	3	4	2	4	3	4	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:54676031G>T	uc001sfl.2	+	4	541	c.437G>T	c.(436-438)AGG>ATG	p.R146M	CBX5_uc001sfk.3_5'Flank|CBX5_uc001sfi.3_5'Flank|HNRNPA1_uc001sfm.2_Missense_Mutation_p.R146M|HNRNPA1_uc009zng.2_Missense_Mutation_p.R146M|HNRNPA1_uc009znh.2_Missense_Mutation_p.R146M|HNRNPA1_uc009zni.2_Missense_Mutation_p.R146M|HNRNPA1_uc001sfn.2_Missense_Mutation_p.R146M|HNRNPA1_uc001sfo.3_RNA|HNRNPA1_uc001sfp.1_Missense_Mutation_p.R101M|HNRNPA1_uc009znj.1_Missense_Mutation_p.R101M	NM_031157	NP_112420	P09651	ROA1_HUMAN	heterogeneous nuclear ribonucleoprotein A1	146	Globular B domain.|RRM 2.			R -> K (in Ref. 2; CAA29922).	interspecies interaction between organisms|mRNA transport|nuclear import	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	nucleotide binding|protein binding|single-stranded DNA binding			skin(2)|ovary(1)	3						GGCAAGAAAAGGGGCTTTGCC	0.398													21	46					4.22769e-11	4.56644e-11	1	1	0		T	54676031	T	T	54676031	3	4	49	1	0	0	0	0	1	0	0	0	7273	1000	35	5	451	5	HNRNPA1	12	54676031	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	989927	54676031	79175864	941	37621											
NCKAP1L	3071	broad.mit.edu	37	chr12	54930016	54930016	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacccttcttccttttatagCattgagaaggatggtaagta	11	14	9	7	0	1	1	0	1	1	1	2	4	2	2	2	2	1	3	2	2	5	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:54930016C>T	uc001sgc.3	+	28	3139	c.3060C>T	c.(3058-3060)AGC>AGT	p.S1020S	NCKAP1L_uc010sox.1_Silent_p.S562S|NCKAP1L_uc010soy.1_Silent_p.S970S	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	1020					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						CCTTTTATAGCATTGAGAAGG	0.468													5	40					0	0	1	0	0		T	54930016	T	T	54930016	2	4	49	1	0	0	0	0	0	0	0	1	10241	709	25	2		2	NCKAP1L	12	54930016	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	253985	54930016	78921879	942	37622											
SUOX	6821	broad.mit.edu	37	chr12	56397718	56397718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgctgatgatcctgtacGtcacccagccctgaaggtca	9	11	9	12	1	2	3	2	3	0	0	3	3	3	3	3	1	3	2	3	1	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:56397718G>A	uc001six.2	+	6	871	c.545G>A	c.(544-546)CGT>CAT	p.R182H	SUOX_uc001siy.2_Missense_Mutation_p.R182H|SUOX_uc001siz.2_Missense_Mutation_p.R182H|SUOX_uc001sja.2_Missense_Mutation_p.R182H	NM_000456	NP_000447	P51687	SUOX_HUMAN	sulfite oxidase precursor	182	Molybdenum-pterin domain (By similarity).					mitochondrial intermembrane space	electron carrier activity|molybdenum ion binding|sulfite oxidase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.119)			GATCCTGTACGTCACCCAGCC	0.542													5	29					0	0	1	0	0		A	56397718	A	A	56397718	3	1	49	1	0	0	0	0	1	0	0	0	15420	1145	40	1	555	1	SUOX	12	56397718	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1467702	56397718	77454177	943	37623											
SMARCC2	6601	broad.mit.edu	37	chr12	56579984	56579984	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagctgcaagaatgtggCacaaggagcctcccgctttg	10	7	13	11	1	0	1	0	0	0	1	1	2	1	2	2	3	3	5	2	3	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:56579984C>A	uc001skb.2	-	3	378	c.272G>T	c.(271-273)TGC>TTC	p.C91F	SMARCC2_uc001skd.2_Missense_Mutation_p.C91F|SMARCC2_uc001ska.2_Missense_Mutation_p.C91F|SMARCC2_uc001skc.2_Missense_Mutation_p.C91F|SMARCC2_uc010sqf.1_5'UTR	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	91					chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			AAGAATGTGGCACAAGGAGCC	0.398													24	69					5.61819e-17	6.13806e-17	1	1	0		A	56579984	A	A	56579984	3	1	49	1	0	0	0	0	1	0	0	0	14801	710	25	5	3573	5	SMARCC2	12	56579984	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	182266	56579984	77271911	944	37624											
CS	1431	broad.mit.edu	37	chr12	56669893	56669893	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtcaatggccccaataccGctgccttctctgtagagatt	9	11	9	12	1	2	1	1	0	1	1	3	3	2	1	4	1	2	2	4	1	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:56669893G>A	uc001sks.1	-	7	865	c.675C>T	c.(673-675)AGC>AGT	p.S225S	CS_uc010sql.1_Silent_p.S212S|CS_uc001skr.1_Silent_p.S159S|CS_uc001skt.1_Silent_p.S180S|CS_uc010sqm.1_Silent_p.S159S	NM_004077	NP_004068	O75390	CISY_HUMAN	citrate synthase precursor	225					cellular carbohydrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	citrate (Si)-synthase activity				0		Myeloproliferative disorder(1001;0.000374)		BRCA - Breast invasive adenocarcinoma(357;6.17e-07)		CCCCAATACCGCTGCCTTCTC	0.458													16	51					0	0	1	0	0		A	56669893	A	A	56669893	2	1	49	1	0	0	0	0	0	0	0	1	3927	1078	38	1		1	CS	12	56669893	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	89909	56669893	77182002	945	37625											
PAN2	9924	broad.mit.edu	37	chr12	56716264	56716264	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccactgctggtgagtaacGccctatggaaatacaaagaa	15	8	9	9	1	0	2	0	1	0	1	0	3	0	3	2	2	4	2	2	2	7	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:56716264G>A	uc001skx.2	-	19	3025	c.2652C>T	c.(2650-2652)GGC>GGT	p.G884G	PAN2_uc001skw.2_Silent_p.G32G|PAN2_uc001skz.2_Silent_p.G883G|PAN2_uc001sky.2_Silent_p.G880G	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	884					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						GGTGAGTAACGCCCTATGGAA	0.433													13	55					0	0	1	0	0		A	56716264	A	A	56716264	2	1	49	1	0	0	0	0	0	0	0	1	11433	1074	38	1		1	PAN2	12	56716264	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	46371	56716264	77135631	946	37626											
PAN2	9924	broad.mit.edu	37	chr12	56718366	56718366	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtctccaagtactgaccTggcaagggtcaccacgagag	11	7	12	11	1	2	2	1	1	1	1	3	3	2	2	3	2	1	2	3	2	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:56718366T>C	uc001skx.2	-	11	2100	c.1727A>G	c.(1726-1728)CAG>CGG	p.Q576R	PAN2_uc001skw.2_5'Flank|PAN2_uc001skz.2_Missense_Mutation_p.Q576R|PAN2_uc001sky.2_Missense_Mutation_p.Q576R	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	576					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						AGTACTGACCTGGCAAGGGTC	0.463													5	93					0	0	1	0	0		C	56718366	C	C	56718366	3	2	49	1	0	0	0	0	1	0	0	0	11433	1594	55	3	1945	3	PAN2	12	56718366	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2102	56718366	77133529	947	37627											
NACA	4666	broad.mit.edu	37	chr12	57107321	57107321	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagaaaagtttactcacCttggcttccccaaaaactat	14	10	4	13	0	1	1	1	0	0	1	2	1	2	1	4	1	2	2	4	1	7	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:57107321C>T	uc001slz.2	-	5	730	c.381G>A	c.(379-381)AAG>AAA	p.K127K	NACA_uc001sly.2_Silent_p.K127K|NACA_uc009zoy.1_Silent_p.K1990K|NACA_uc001smc.2_Silent_p.K127K|NACA_uc001sma.2_Silent_p.K837K|NACA_uc001smb.2_Silent_p.K127K|NACA_uc010squ.1_RNA	NM_001113201	NP_001106672	Q13765	NACA_HUMAN	nascent polypeptide-associated complex alpha	127	NAC-A/B.				interspecies interaction between organisms|protein transport|transcription, DNA-dependent|translation	nascent polypeptide-associated complex|nucleus	DNA binding			ovary(1)	1						GTTTACTCACCTTGGCTTCCC	0.274			T	BCL6	NHL								10	122					0	0	1	0	0		T	57107321	T	T	57107321	2	4	49	1	0	0	0	0	0	0	0	1	10151	695	24	4		4	NACA	12	57107321	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	388955	57107321	76744574	948	37628											
KIF5A	3798	broad.mit.edu	37	chr12	57963455	57963455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggaggctgagctgagccGgtggcgcaatggttagagag	8	7	19	7	2	0	3	0	2	0	1	0	5	0	4	1	5	2	5	1	5	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:57963455G>A	uc001sor.1	+	11	1314	c.1106G>A	c.(1105-1107)CGG>CAG	p.R369Q	KIF5A_uc010srr.1_Missense_Mutation_p.R280Q	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	369					blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						GAGCTGAGCCGGTGGCGCAAT	0.438													12	25					0	0	1	0	0		A	57963455	A	A	57963455	3	1	49	1	0	0	0	0	1	0	0	0	8321	1116	39	1	1148	1	KIF5A	12	57963455	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	856134	57963455	75888440	949	37629											
MARCH9	92979	broad.mit.edu	37	chr12	58152041	58152041	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggatctgctctttcagAtctgctacggcatgtatggc	8	12	11	10	1	4	1	1	0	3	1	4	3	4	2	0	3	3	4	0	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:58152041A>T	uc001spx.1	+	3	1076	c.664A>T	c.(664-666)ATC>TTC	p.I222F	MARCH9_uc001spy.2_Missense_Mutation_p.I109F	NM_138396	NP_612405	Q86YJ5	MARH9_HUMAN	membrane-associated RING-CH protein IX	222	Helical; (Potential).					Golgi membrane|Golgi stack|integral to membrane|lysosomal membrane|trans-Golgi network	ligase activity|zinc ion binding				0	all_cancers(7;4.96e-69)|Lung NSC(6;5.5e-25)|all_lung(6;3.87e-23)|all_epithelial(6;1.66e-15)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)		GBM - Glioblastoma multiforme(5;4.21e-120)|all cancers(5;3.75e-83)|BRCA - Breast invasive adenocarcinoma(9;0.0294)			GCTCTTTCAGATCTGCTACGG	0.532													5	54					0	0	1	0	0		T	58152041	T	T	58152041	3	4	49	1	0	0	0	0	1	0	0	0	9326	333	12	5	674	5	MARCH9	12	58152041	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	188586	58152041	75699854	950	37630											
LEMD3	23592	broad.mit.edu	37	chr12	65564751	65564751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacttctccagcaatttaaaCgggaggaggtgtccccaaca	13	8	9	11	1	1	0	0	0	1	0	3	2	2	2	3	3	4	1	3	3	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:65564751C>T	uc001ssl.1	+	1	1381	c.1375C>T	c.(1375-1377)CGG>TGG	p.R459W	LEMD3_uc009zqo.1_Missense_Mutation_p.R459W	NM_014319	NP_055134	Q9Y2U8	MAN1_HUMAN	LEM domain containing 3	459					negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway	integral to nuclear inner membrane|membrane fraction	DNA binding|nucleotide binding|protein binding			central_nervous_system(3)|ovary(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0104)		GCAATTTAAACGGGAGGAGGT	0.463													3	68					0	0	1	0	0		T	65564751	T	T	65564751	3	4	49	1	0	0	0	0	1	0	0	0	8737	527	19	1	1377	1	LEMD3	12	65564751	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	7412710	65564751	68287144	951	37631											
HELB	92797	broad.mit.edu	37	chr12	66696454	66696454	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagggatctggtggaggAggacgacgactacctaaacg	12	5	14	10	3	1	0	0	0	1	0	1	6	1	4	2	5	2	0	2	5	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:66696454A>G	uc001sti.2	+	1	99	c.71A>G	c.(70-72)GAG>GGG	p.E24G	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	24					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		CTGGTGGAGGAGGACGACGAC	0.602													3	41					0	0	1	0	0		G	66696454	G	G	66696454	3	3	49	1	0	0	0	0	1	0	0	0	7061	304	11	3	73	3	HELB	12	66696454	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1131703	66696454	67155441	952	37632											
GLIPR1	11010	broad.mit.edu	37	chr12	75884201	75884201	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaggttgtttgggcagatAgttacaaagttggctgcgca	9	13	13	6	1	1	1	1	0	0	1	1	1	1	1	0	3	2	7	0	3	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:75884201A>G	uc001sxs.2	+	3	584	c.436A>G	c.(436-438)AGT>GGT	p.S146G	GLIPR1_uc009zsb.1_Missense_Mutation_p.I169M	NM_006851	NP_006842	P48060	GLIP1_HUMAN	GLI pathogenesis-related 1 precursor	146					cellular lipid metabolic process	extracellular region|integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3						TTGGGCAGATAGTTACAAAGT	0.388													9	28					0	0	1	0	0		G	75884201	G	G	75884201	3	3	49	1	0	0	0	0	1	0	0	0	6456	420	15	3	446	3	GLIPR1	12	75884201	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	9187747	75884201	57967694	953	37633											
MYF5	4617	broad.mit.edu	37	chr12	81111208	81111208	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagaggctgcccaaggtggaGatcctcaggaatgccatccg	10	6	13	12	1	1	2	1	0	0	2	3	4	3	3	4	4	2	1	4	4	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:81111208G>A	uc001szg.2	+	1	501	c.366G>A	c.(364-366)GAG>GAA	p.E122E		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	122	Helix-loop-helix motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						CCAAGGTGGAGATCCTCAGGA	0.592													11	100					0	0	1	0	0		A	81111208	A	A	81111208	2	1	49	1	0	0	0	0	0	0	0	1	10045	933	33	4		4	MYF5	12	81111208	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5227007	81111208	52740687	954	37634											
PPFIA2	8499	broad.mit.edu	37	chr12	81741514	81741514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttcaatttcttcagcaCgcaactctgtagattctttt	9	19	4	9	1	5	1	2	0	3	1	5	1	5	1	0	0	2	3	0	0	4	9			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:81741514C>T	uc001szo.1	-	18	2191	c.2030G>A	c.(2029-2031)CGT>CAT	p.R677H	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	603										ovary(3)|lung(2)|pancreas(1)	6						TTCTTCAGCACGCAACTCTGT	0.398													8	68					0	0	1	0	0		T	81741514	T	T	81741514	3	4	49	1	0	0	0	0	1	0	0	0	12329	536	19	1	1803	1	PPFIA2	12	81741514	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	630306	81741514	52110381	955	37635											
EEA1	8411	broad.mit.edu	37	chr12	93192691	93192691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtaaaacagcaattttaaGctctccttggagtgcttcaa	12	13	7	9	0	2	0	1	0	1	0	3	1	2	1	1	1	4	4	1	1	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:93192691G>A	uc001tck.2	-	21	3209	c.2944C>T	c.(2944-2946)CTT>TTT	p.L982F		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	982	Gln/Glu/Lys-rich.|Potential.				early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						GCAATTTTAAGCTCTCCTTGG	0.303													10	81					0	0	1	0	0		A	93192691	A	A	93192691	3	1	49	1	0	0	0	0	1	0	0	0	4927	971	34	2	1327	2	EEA1	12	93192691	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	11451177	93192691	40659204	956	37636											
CCDC41	51134	broad.mit.edu	37	chr12	94806263	94806263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcggtaaatgtgctgacaaCcatgtaaaaataagttttgg	15	12	9	5	1	0	1	0	1	0	0	1	1	0	1	1	2	2	4	1	2	7	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:94806263C>T	uc001tdd.2	-	3	590	c.4G>A	c.(4-6)GTT>ATT	p.V2I	CCDC41_uc001tde.2_Missense_Mutation_p.V2I|CCDC41_uc009zsw.1_Intron|CCDC41_uc001tdf.2_Missense_Mutation_p.V2I	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen	Error:Variant_position_missing_in_Q9Y592_after_alignment											0						GTGCTGACAACCATGTAAAAA	0.398													11	56					0	0	1	0	0		T	94806263	T	T	94806263	3	4	49	1	0	0	0	0	1	0	0	0	2816	507	18	4	2161	4	CCDC41	12	94806263	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1613572	94806263	39045632	957	37637											
FGD6	55785	broad.mit.edu	37	chr12	95604120	95604120	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctttctgggcttgggagTtggaaattttggggtatatg	6	17	15	3	0	2	0	0	0	2	0	2	2	2	2	0	5	0	3	0	5	3	7	rs74379313		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:95604120T>C	uc001tdp.3	-	2	1164	c.940A>G	c.(940-942)ACT>GCT	p.T314A	FGD6_uc009zsx.2_Intron	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	314					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						GGCTTGGGAGTTGGAAATTTT	0.413													9	103					0	0	1	0	0		C	95604120	C	C	95604120	3	2	49	1	0	0	0	0	1	0	0	0	5851	1725	60	3	3432	3	FGD6	12	95604120	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	797857	95604120	38247775	958	37638											
CCDC38	120935	broad.mit.edu	37	chr12	96260859	96260860	+	Frame_Shift_Ins	INS	-	A	A																															cttactgcttttattcaagtINSaaaaaaatattcttcctctt																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:96260859_96260860insA	uc001tek.1	-	16	1920_1921	c.1686_1687insT	c.(1684-1689)TTTACTfs	p.F562fs		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	562_563										skin(1)	1						TTTATTCAAGTAAAAAAATATT	0.287													14	32	---	---	---	---						.	A	96260860	A	A	96260859	7	5	49	1	0	1	1	0	0	0	0	0	2813	1638	57	0	8	0	CCDC38	12	96260859	Frame_Shift_Ins	INS	-	TCGA-BR-7707-01A-11D-2053-08	656739	96260859	37591036	959	37639											
C12orf63	374467	broad.mit.edu	37	chr12	97043775	97043775	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatcaggttctagtgctaaAgaaaaggaccgaggagcaaa	17	6	11	7	1	2	1	1	0	1	1	2	4	2	3	1	3	2	3	1	3	7	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:97043775A>C	uc001tet.1	+	2	150	c.72A>C	c.(70-72)AAA>AAC	p.K24N		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	24										skin(6)|ovary(1)	7						CTAGTGCTAAAGAAAAGGACC	0.333													12	85					0	0	1	0	0		C	97043775	C	C	97043775	3	2	49	1	0	0	0	0	1	0	0	0	1709	69	3	5	74	5	C12orf63	12	97043775	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	782916	97043775	36808120	960	37640											
SLC5A8	160728	broad.mit.edu	37	chr12	101555808	101555808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaccaaagttccaacagtgCtgaagtacagatatgataaa	17	10	7	7	0	0	3	0	2	0	1	1	3	1	3	2	0	4	3	2	0	8	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:101555808C>T	uc001thz.3	-	13	1964	c.1574G>A	c.(1573-1575)AGC>AAC	p.S525N		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	525	Helical; (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						TCCAACAGTGCTGAAGTACAG	0.348													17	279					0	0	1	0	0		T	101555808	T	T	101555808	3	4	49	1	0	0	0	0	1	0	0	0	14696	797	28	2	270	2	SLC5A8	12	101555808	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4512033	101555808	32296087	961	37641											
SART3	9733	broad.mit.edu	37	chr12	108918245	108918245	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttcatcacagcctgcgaCgcctgggattcattttcata	9	13	7	12	2	5	0	4	0	1	0	5	2	5	1	2	1	2	0	2	1	1	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:108918245C>T	uc001tmz.1	-	18	2797	c.2562G>A	c.(2560-2562)GCG>GCA	p.A854A	SART3_uc001tmy.1_Silent_p.A380A|SART3_uc009zux.1_Silent_p.A466A|SART3_uc010swx.1_Silent_p.A818A	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	854	RRM 2.				RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						CAGCCTGCGACGCCTGGGATT	0.532									Porokeratosis				17	56					0	0	1	0	0		T	108918245	T	T	108918245	2	4	49	1	0	0	0	0	0	0	0	1	13872	523	19	1		1	SART3	12	108918245	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	7362437	108918245	24933650	962	37642											
CUX2	23316	broad.mit.edu	37	chr12	111652089	111652089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatttaattgaactccgccGggaatttaagaaaaatgtac	16	11	7	7	2	0	2	0	1	0	1	1	3	1	3	2	1	2	1	2	1	7	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:111652089G>A	uc001tsa.1	+	2	302	c.149G>A	c.(148-150)CGG>CAG	p.R50Q	CUX2_uc001tsb.1_Missense_Mutation_p.R105Q	NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	50						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						GAACTCCGCCGGGAATTTAAG	0.378													7	55					0	0	1	0	0		A	111652089	A	A	111652089	3	1	49	1	0	0	0	0	1	0	0	0	4068	1116	39	1	155	1	CUX2	12	111652089	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2733844	111652089	22199806	963	37643											
C12orf51	283450	broad.mit.edu	37	chr12	112711506	112711506	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccaagtctctggcagacaTaatggaaggcttgattccca	11	10	9	11	0	1	2	0	1	1	1	4	3	3	3	2	3	0	2	2	3	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:112711506T>G	uc009zwc.2	-	4	617	c.599A>C	c.(598-600)TAT>TCT	p.Y200S	C12orf51_uc010syk.1_Missense_Mutation_p.Y23S|C12orf51_uc001tts.2_Missense_Mutation_p.Y23S|C12orf51_uc001ttt.3_Missense_Mutation_p.Y23S	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CTGGCAGACATAATGGAAGGC	0.453													12	122					0	0	1	0	0		G	112711506	G	G	112711506	3	3	49	1	0	0	0	0	1	0	0	0	1699	1406	49	5	11655	5	C12orf51	12	112711506	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1059417	112711506	21140389	964	37644											
RASAL1	8437	broad.mit.edu	37	chr12	113553825	113553825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgcggtcctcaatcaggcGtaccttcactcgcagggcac	8	7	11	15	4	3	0	3	0	0	0	5	1	4	0	2	3	1	3	2	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:113553825G>A	uc001tum.1	-	10	1056	c.763C>T	c.(763-765)CGC>TGC	p.R255C	RASAL1_uc010syp.1_Missense_Mutation_p.R255C|RASAL1_uc001tul.2_Missense_Mutation_p.R255C|RASAL1_uc001tun.1_Missense_Mutation_p.R255C|RASAL1_uc010syq.1_Missense_Mutation_p.R255C|RASAL1_uc001tuo.3_Missense_Mutation_p.R255C|RASAL1_uc010syr.1_Missense_Mutation_p.R255C	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	255					intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						TCAATCAGGCGTACCTTCACT	0.493													10	49					0	0	1	0	0		A	113553825	A	A	113553825	3	1	49	1	0	0	0	0	1	0	0	0	13088	1145	40	1	1703	1	RASAL1	12	113553825	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	842319	113553825	20298070	965	37645											
LHX5	64211	broad.mit.edu	37	chr12	113907132	113907132	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgccttgcgcgcagccggcGcatttcgtgccaaagcgcct	6	8	12	15	6	0	0	0	0	0	0	1	0	0	0	4	1	5	2	4	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:113907132G>A	uc001tvj.1	-	2	766	c.192C>T	c.(190-192)TGC>TGT	p.C64C		NM_022363	NP_071758	Q9H2C1	LHX5_HUMAN	LIM homeobox protein 5	64	LIM zinc-binding 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CGCAGCCGGCGCATTTCGTGC	0.617													4	47					0	0	1	0	0		A	113907132	A	A	113907132	2	1	49	1	0	0	0	0	0	0	0	1	8790	1079	38	1		1	LHX5	12	113907132	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	353307	113907132	19944763	966	37646											
FBXW8	26259	broad.mit.edu	37	chr12	117365934	117365934	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actaggaagatgtgcacaggTaaggtgtcaccaacagatgt	14	8	12	7	0	1	2	1	0	0	2	1	3	1	3	1	3	2	2	1	3	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:117365934T>C	uc001twg.1	+	2	505	c.423_splice	c.e2+2	p.Q141_splice	FBXW8_uc001twf.1_Splice_Site_p.Q75_splice|FBXW8_uc009zwp.1_Splice_Site	NM_153348	NP_699179	Q8N3Y1	FBXW8_HUMAN	F-box and WD repeat domain containing 8 isoform								protein binding			ovary(2)|pancreas(1)	3	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)		TGTGCACAGGTAAGGTGTCAC	0.373													9	71					0	0	1	0	0		C	117365934	C	C	117365934	5	2	49	1	0	0	0	0	0	0	1	0	5784	1652	57	3	431	3	FBXW8	12	117365934	Splice_Site	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3458802	117365934	16485961	967	37647											
SRRM4	84530	broad.mit.edu	37	chr12	119563220	119563220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaaagtctcaccgccacCgccatcaccgctgcccctcg	7	5	7	22	5	2	0	2	0	1	0	4	1	2	0	8	0	1	1	8	0	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:119563220C>T	uc001txa.1	+	7	842	c.550C>T	c.(550-552)CGC>TGC	p.R184C		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	184	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						TCACCGCCACCGCCATCACCG	0.478													13	47					0	0	1	0	0		T	119563220	T	T	119563220	3	4	49	1	0	0	0	0	1	0	0	0	15196	652	23	1	576	1	SRRM4	12	119563220	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2197286	119563220	14288675	968	37648											
HSPB8	26353	broad.mit.edu	37	chr12	119617314	119617314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggccaggcaccctaaggtCgggcatggtgccccggggcc	5	5	16	15	2	0	0	0	0	0	0	1	0	0	0	5	7	1	2	5	7	1	1	rs140173724		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:119617314C>T	uc001txb.2	+	1	720	c.197C>T	c.(196-198)TCG>TTG	p.S66L	HSPB8_uc001txc.2_Missense_Mutation_p.S66L	NM_014365	NP_055180	Q9UJY1	HSPB8_HUMAN	heat shock 22kDa protein 8	66					cell death|response to heat	cytoplasm|nucleus	identical protein binding|protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ACCCTAAGGTCGGGCATGGTG	0.687													21	48					0	0	1	0	0		T	119617314	T	T	119617314	3	4	49	1	0	0	0	0	1	0	0	0	7439	893	31	1	199	1	HSPB8	12	119617314	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	54094	119617314	14234581	969	37649											
GCN1L1	10985	broad.mit.edu	37	chr12	120569133	120569133	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccagtcaatgccggacacGtccgctgggtggaaggacac	10	6	13	12	3	1	0	1	0	0	0	3	3	3	3	3	4	1	1	3	4	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:120569133G>A	uc001txo.2	-	55	7432	c.7419C>T	c.(7417-7419)GAC>GAT	p.D2473D		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	2473					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGCCGGACACGTCCGCTGGGT	0.612													6	58					0	0	1	0	0		A	120569133	A	A	120569133	2	1	49	1	0	0	0	0	0	0	0	1	6314	1136	40	1		1	GCN1L1	12	120569133	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	951819	120569133	13282762	970	37650											
GCN1L1	10985	broad.mit.edu	37	chr12	120597681	120597681	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcagccaaggacaagaagggGttcttgatcctgggagcagc	11	6	15	9	0	1	2	0	1	1	1	2	4	2	4	2	4	3	3	2	4	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:120597681G>A	uc001txo.2	-	24	2710	c.2697C>T	c.(2695-2697)AAC>AAT	p.N899N		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	899					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ACAAGAAGGGGTTCTTGATCC	0.587													7	44					0	0	1	0	0		A	120597681	A	A	120597681	2	1	49	1	0	0	0	0	0	0	0	1	6314	1252	44	4		4	GCN1L1	12	120597681	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	28548	120597681	13254214	971	37651											
GCN1L1	10985	broad.mit.edu	37	chr12	120615500	120615500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctcaccaacaggtacttcGgaggcttgactttgctcatc	8	11	9	13	2	2	1	2	1	0	0	4	2	2	2	1	3	3	4	1	3	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:120615500G>A	uc001txo.2	-	8	729	c.716C>T	c.(715-717)CCG>CTG	p.P239L		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	239					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CAGGTACTTCGGAGGCTTGAC	0.463													6	267					0	0	1	0	0		A	120615500	A	A	120615500	3	1	49	1	0	0	0	0	1	0	0	0	6314	1116	39	1	7503	1	GCN1L1	12	120615500	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	17819	120615500	13236395	972	37652											
CAMKK2	10645	broad.mit.edu	37	chr12	121678602	121678602	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgcagggactgcctctcAcaagagcacttcctcctccc	8	7	7	19	1	1	1	1	0	1	1	5	2	4	2	5	1	2	2	5	1	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:121678602A>G	uc001tzu.2	-	17	1791	c.1667T>C	c.(1666-1668)GTG>GCG	p.V556A	CAMKK2_uc001tzt.2_Nonstop_Mutation_p.*542R|CAMKK2_uc001tzv.2_Missense_Mutation_p.V556A|CAMKK2_uc001tzw.2_Missense_Mutation_p.V513A|CAMKK2_uc001tzx.2_Nonstop_Mutation_p.*542R|CAMKK2_uc001tzy.2_Nonstop_Mutation_p.*499R|CAMKK2_uc001tzz.1_Intron|CAMKK2_uc001uaa.1_Intron	NM_006549	NP_006540	Q96RR4	KKCC2_HUMAN	calcium/calmodulin-dependent protein kinase	556					calcium-mediated signaling|MAPKKK cascade|positive regulation of transcription, DNA-dependent|protein autophosphorylation|regulation of protein kinase activity	cytoplasm	ATP binding|calcium ion binding|calmodulin binding|calmodulin-dependent protein kinase activity|protein tyrosine kinase activity			lung(1)|large_intestine(1)|stomach(1)	3	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ACTGCCTCTCACAAGAGCACT	0.657													4	66					0	0	1	0	0		G	121678602	G	G	121678602	3	3	49	1	0	0	0	0	1	0	0	0	2610	172	6	3	103	3	CAMKK2	12	121678602	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1063102	121678602	12173293	973	37653											
KDM2B	84678	broad.mit.edu	37	chr12	122018691	122018691	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccctcccccaacattacCtgtgtggccgactcaaattc	9	9	5	18	1	1	0	1	0	0	0	3	1	2	0	6	1	2	0	6	1	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:122018691C>A	uc001uat.2	-	1	230	c.126G>T	c.(124-126)CAG>CAT	p.Q42H	KDM2B_uc001uas.2_5'Flank|KDM2B_uc001uau.2_5'UTR|KDM2B_uc001uav.3_Missense_Mutation_p.Q42H	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	42					embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						CCAACATTACCTGTGTGGCCG	0.507													7	134					0.000442599	0.000456189	1	1	0		A	122018691	A	A	122018691	3	1	49	1	0	0	0	0	1	0	0	0	8141	695	24	5	4065	5	KDM2B	12	122018691	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	340089	122018691	11833204	974	37654											
LRRC43	254050	broad.mit.edu	37	chr12	122684777	122684777	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaagccctgggctgaggTcatcccctgcagttacgaga	9	7	11	14	1	1	2	1	1	0	1	2	3	2	2	4	2	3	3	4	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:122684777T>G	uc009zxm.2	+	8	1416	c.1391T>G	c.(1390-1392)GTC>GGC	p.V464G	LRRC43_uc001ubw.3_Missense_Mutation_p.V279G|LRRC43_uc009zxn.2_Missense_Mutation_p.V225G	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	464											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		TGGGCTGAGGTCATCCCCTGC	0.647													25	101					0	0	1	0	0		G	122684777	G	G	122684777	3	3	49	1	0	0	0	0	1	0	0	0	9019	1667	58	5	1421	5	LRRC43	12	122684777	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	666086	122684777	11167118	975	37655											
PITPNM2	57605	broad.mit.edu	37	chr12	123471271	123471271	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcacagaaggacaccacGccatgggggaagttgtgctg	10	6	14	11	2	1	1	1	0	0	1	1	3	1	3	3	3	1	2	3	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:123471271G>A	uc001uej.1	-	23	3658	c.3519C>T	c.(3517-3519)GGC>GGT	p.G1173G	PITPNM2_uc001uek.1_Silent_p.G1167G	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	1173					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)		AGGACACCACGCCATGGGGGA	0.667													21	52					0	0	1	0	0		A	123471271	A	A	123471271	2	1	49	1	0	0	0	0	0	0	0	1	11970	1074	38	1		1	PITPNM2	12	123471271	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	786494	123471271	10380624	976	37656											
CDK2AP1	8099	broad.mit.edu	37	chr12	123749783	123749783	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcactcttgctccctgcgtaCgtgggtctgatctccttccc	3	13	9	16	2	3	1	0	1	3	0	6	1	5	1	3	1	3	3	3	1	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:123749783C>T	uc001ueq.2	-	3	762	c.240G>A	c.(238-240)ACG>ACA	p.T80T	CDK2AP1_uc001uep.2_RNA	NM_004642	NP_004633	O14519	CDKA1_HUMAN	CDK2-associated protein  1	80					DNA-dependent DNA replication|protein phosphorylation|S phase of mitotic cell cycle	cytoplasm|nucleus	DNA binding|protein binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000554)|Epithelial(86;0.00178)		TCCCTGCGTACGTGGGTCTGA	0.582													13	203					0	0	1	0	0		T	123749783	T	T	123749783	2	4	49	1	0	0	0	0	0	0	0	1	3141	523	19	1		1	CDK2AP1	12	123749783	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	278512	123749783	10102112	977	37657											
DNAH10	196385	broad.mit.edu	37	chr12	124270304	124270304	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtcagaacataacgcaCgggtctggcttccacgtggt	8	10	12	11	3	2	1	1	0	1	1	3	1	3	1	1	4	2	2	1	4	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:124270304C>T	uc001uft.3	+	9	1084	c.1059C>T	c.(1057-1059)CAC>CAT	p.H353H		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	353	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		ACATAACGCACGGGTCTGGCT	0.527													9	64					0	0	1	0	0		T	124270304	T	T	124270304	2	4	49	1	0	0	0	0	0	0	0	1	4604	535	19	1		1	DNAH10	12	124270304	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	520521	124270304	9581591	978	37658											
GPR133	283383	broad.mit.edu	37	chr12	131471729	131471729	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgagcacctctgatccgAgtggaaaagtgtctcgtgac	9	9	11	12	2	2	3	0	3	2	0	4	5	3	4	3	1	1	1	3	1	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:131471729A>G	uc001uit.3	+	6	1139	c.580A>G	c.(580-582)AGT>GGT	p.S194G	GPR133_uc010tbm.1_Missense_Mutation_p.S226G	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	194	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		CTCTGATCCGAGTGGAAAAGT	0.512													8	84					0	0	1	0	0		G	131471729	G	G	131471729	3	3	49	1	0	0	0	0	1	0	0	0	6658	304	11	3	602	3	GPR133	12	131471729	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	7201425	131471729	2380166	979	37659											
MMP17	4326	broad.mit.edu	37	chr12	132325164	132325164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactggggcacgacacggtgCgtgcactcatgtactacgcc	8	7	12	14	4	1	0	1	0	0	0	1	1	1	0	1	3	4	3	1	3	2	2	rs146831311		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr12:132325164C>T	uc001ujc.1	+	4	568	c.469C>T	c.(469-471)CGT>TGT	p.R157C	MMP17_uc001ujd.1_Missense_Mutation_p.R73C	NM_016155	NP_057239	Q9ULZ9	MMP17_HUMAN	matrix metalloproteinase 17 preproprotein	157					proteolysis	anchored to membrane|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.82e-07)|Epithelial(86;1.51e-06)|all cancers(50;2.35e-05)		CGACACGGTGCGTGCACTCAT	0.652													26	89					0	0	1	0	0		T	132325164	T	T	132325164	3	4	49	1	0	0	0	0	1	0	0	0	9674	768	27	1	483	1	MMP17	12	132325164	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	853435	132325164	1526731	980	37660											
EFHA1	221154	broad.mit.edu	37	chr13	22084194	22084194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcctctttttccaaagaaaCgcatctgaagagttgtgtta	11	14	8	8	1	2	3	0	1	2	2	4	3	4	3	2	0	1	3	2	0	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:22084194C>T	uc001uof.2	-	8	732	c.710G>A	c.(709-711)CGT>CAT	p.R237H	EFHA1_uc010tct.1_Missense_Mutation_p.R27H	NM_152726	NP_689939	Q8IYU8	EFHA1_HUMAN	EF-hand domain family, member A1	237	EF-hand 2.						calcium ion binding				0		all_cancers(29;1.24e-15)|all_epithelial(30;5.4e-14)|all_lung(29;2.04e-13)|Lung SC(185;0.0367)		all cancers(112;0.000171)|Epithelial(112;0.000398)|OV - Ovarian serous cystadenocarcinoma(117;0.00641)|Lung(94;0.189)		TCCAAAGAAACGCATCTGAAG	0.229													13	39					0	0	1	0	0		T	22084194	T	T	22084194	3	4	49	1	0	0	0	0	1	0	0	0	4949	536	19	1	614	1	EFHA1	13	22084194	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08		22084194	93085684	981	37661											
SACS	26278	broad.mit.edu	37	chr13	23905259	23905259	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcactgtccctgctttgAgagctttcctcaggtcttga	6	13	11	11	0	2	2	1	2	1	1	4	4	4	3	2	2	3	3	2	2	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:23905259A>G	uc001uon.2	-	10	13345	c.12756T>C	c.(12754-12756)TCT>TCC	p.S4252S	SACS_uc001uoo.2_Silent_p.S4105S|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	4252					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding	p.T4252S(1)		ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CCCTGCTTTGAGAGCTTTCCT	0.433													10	43					0	0	1	0	0		G	23905259	G	G	23905259	2	3	49	1	0	0	0	0	0	0	0	1	13829	291	11	3		3	SACS	13	23905259	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1821065	23905259	91264619	982	37662											
SACS	26278	broad.mit.edu	37	chr13	23928962	23928962	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggcaatctgcttccctgAgctctggaggtagttgagca	7	12	12	10	0	2	2	0	2	2	0	3	3	3	3	1	3	3	6	1	3	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:23928962A>C	uc001uon.2	-	8	2378	c.1789T>G	c.(1789-1791)TCA>GCA	p.S597A	SACS_uc001uoo.2_Missense_Mutation_p.S450A|SACS_uc001uop.1_Missense_Mutation_p.S384A|SACS_uc001uoq.1_Missense_Mutation_p.S450A	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	597					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TGCTTCCCTGAGCTCTGGAGG	0.502													5	60					0	0	1	0	0		C	23928962	C	C	23928962	3	2	49	1	0	0	0	0	1	0	0	0	13829	304	11	5	11962	5	SACS	13	23928962	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	23703	23928962	91240916	983	37663											
PARP4	143	broad.mit.edu	37	chr13	25067820	25067820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaaatcatctctactaaatCgctcacctcttggctcagag	11	11	5	14	1	5	1	3	0	2	1	7	1	5	1	2	1	1	2	2	1	4	3	rs113456081		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:25067820C>T	uc001upl.2	-	8	899	c.793G>A	c.(793-795)GAT>AAT	p.D265N	PARP4_uc010tdc.1_Missense_Mutation_p.D265N	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	265	PARP alpha-helical.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		TCTACTAAATCGCTCACCTCT	0.443													6	56					0	0	1	0	0		T	25067820	T	T	25067820	3	4	49	1	0	0	0	0	1	0	0	0	11482	884	31	1	4489	1	PARP4	13	25067820	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1138858	25067820	90102058	984	37664											
WASF3	10810	broad.mit.edu	37	chr13	27257105	27257105	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgacctcctcgctgctattCgaatgggtaagtggagcccc	7	9	12	13	3	0	0	0	0	0	0	3	3	1	1	4	2	2	3	4	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:27257105C>T	uc001uqv.2	+	9	1570	c.1345C>T	c.(1345-1347)CGA>TGA	p.R449*	WASF3_uc001uqw.2_Nonsense_Mutation_p.R446*	NM_006646	NP_006637	Q9UPY6	WASF3_HUMAN	WAS protein family, member 3	449	WH2.				actin filament polymerization	cytoplasm|cytoskeleton	actin binding			pancreas(1)	1	Colorectal(5;0.000247)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0114)|Epithelial(112;0.046)|OV - Ovarian serous cystadenocarcinoma(117;0.0547)|Lung(94;0.105)|LUSC - Lung squamous cell carcinoma(192;0.155)		CGCTGCTATTCGAATGGGTAA	0.567													21	55					0	0	1	0	0		T	27257105	T	T	27257105	4	4	49	1	0	0	0	0	0	1	0	0	17280	876	31	1	1371	1	WASF3	13	27257105	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2189285	27257105	87912773	985	37665											
NBEA	26960	broad.mit.edu	37	chr13	35733851	35733851	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtacatcttggtgttagTgatgatcttggattgcttgc	8	16	11	6	0	2	2	0	2	2	0	2	3	2	3	0	2	3	3	0	2	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:35733851T>C	uc001uvb.2	+	23	3749	c.3543T>C	c.(3541-3543)AGT>AGC	p.S1181S	NBEA_uc010abi.2_5'Flank	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1181						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TTGGTGTTAGTGATGATCTTG	0.358													8	20					0	0	1	0	0		C	35733851	C	C	35733851	2	2	49	1	0	0	0	0	0	0	0	1	10205	1693	59	3		3	NBEA	13	35733851	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	8476746	35733851	79436027	986	37666											
FREM2	341640	broad.mit.edu	37	chr13	39261570	39261570	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgccaccgccgccccggcTgctgctgctgctgctgcttc	2	8	11	20	4	0	0	0	0	0	0	1	0	0	0	6	1	6	7	6	1	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:39261570T>G	uc001uwv.2	+	1	398	c.89T>G	c.(88-90)CTG>CGG	p.L30R		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	30					cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		CCGCCCCGgctgctgctgctg	0.622													3	10					0	0	1	0	0		G	39261570	G	G	39261570	3	3	49	1	0	0	0	0	1	0	0	0	6059	1580	55	5	91	5	FREM2	13	39261570	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3527719	39261570	75908308	987	37667											
MTRF1	9617	broad.mit.edu	37	chr13	41800599	41800599	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcactttgttgctgacgcTtgtctttctcaataatctgc	7	17	7	10	1	3	1	1	1	3	0	4	1	3	1	0	0	3	4	0	0	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:41800599T>G	uc001uxx.2	-	10	1564	c.1094A>C	c.(1093-1095)AAG>ACG	p.K365T	MTRF1_uc001uxy.2_Missense_Mutation_p.K365T|MTRF1_uc001uxz.2_Missense_Mutation_p.K201T|MTRF1_uc010tff.1_Missense_Mutation_p.K378T|uc001uxv.1_Intron	NM_004294	NP_004285	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	365					regulation of translational termination	mitochondrion	translation release factor activity, codon specific				0		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)		TTGCTGACGCTTGTCTTTCTC	0.348													29	51					0	0	1	0	0		G	41800599	G	G	41800599	3	3	49	1	0	0	0	0	1	0	0	0	9977	1609	56	5	255	5	MTRF1	13	41800599	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2539029	41800599	73369279	988	37668											
SLC25A30	253512	broad.mit.edu	37	chr13	45980093	45980093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgccataggatgcctggcGtaacatcgcgggggcaatcc	8	7	15	11	3	0	0	0	0	0	0	2	1	1	1	3	5	3	2	3	5	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:45980093G>A	uc001vag.2	-	4	369	c.232C>T	c.(232-234)CGC>TGC	p.R78C	SLC25A30_uc010tfs.1_Missense_Mutation_p.R3C|SLC25A30_uc001vah.2_Missense_Mutation_p.R3C|SLC25A30_uc010tft.1_Missense_Mutation_p.R27C|SLC25A30_uc001vaf.2_5'Flank	NM_001010875	NP_001010875	Q5SVS4	KMCP1_HUMAN	solute carrier family 25, member 30	78	Helical; Name=2; (Potential).|Solcar 1.				mitochondrial transport	integral to membrane|mitochondrial inner membrane	binding			breast(1)	1		Lung NSC(96;0.00227)|Prostate(109;0.00578)|Breast(56;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.95e-05)		GATGCCTGGCGTAACATCGCG	0.478													17	44					0	0	1	0	0		A	45980093	A	A	45980093	3	1	49	1	0	0	0	0	1	0	0	0	14519	1145	40	1	671	1	SLC25A30	13	45980093	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4179494	45980093	69189785	989	37669											
COG3	83548	broad.mit.edu	37	chr13	46083848	46083848	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaacagaatccctcaatcCtagaccacagaccacaattt	15	9	3	14	0	2	3	2	0	0	3	4	3	4	3	4	0	1	0	4	0	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:46083848C>A	uc001vak.2	+	15	1717	c.1616C>A	c.(1615-1617)CCT>CAT	p.P539H	COG3_uc001vaj.1_Missense_Mutation_p.P539H|COG3_uc010tfv.1_Missense_Mutation_p.P376H|COG3_uc010aci.2_Missense_Mutation_p.P315H	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3	539					ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)		TCCCTCAATCCTAGACCACAG	0.383													63	180					9.25274e-37	1.02396e-36	1	1	0		A	46083848	A	A	46083848	3	1	49	1	0	0	0	0	1	0	0	0	3662	681	24	5	1674	5	COG3	13	46083848	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	103755	46083848	69086030	990	37670											
PHF11	51131	broad.mit.edu	37	chr13	50095067	50095067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgctcaattcccgatcatcGctcaaagtggtaagtttcta	11	13	7	10	2	4	0	3	0	1	0	6	1	5	0	1	1	1	4	1	1	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:50095067G>A	uc001vdb.2	+	5	833	c.496G>A	c.(496-498)GCT>ACT	p.A166T	PHF11_uc001vdc.2_Missense_Mutation_p.A127T|PHF11_uc001vdd.2_RNA	NM_001040443	NP_001035533	Q9UIL8	PHF11_HUMAN	PHD finger protein 11 isoform a	166					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding				0		Lung NSC(96;2.1e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.38e-09)		CCCGATCATCGCTCAAAGTGG	0.303													5	45					0	0	1	0	0		A	50095067	A	A	50095067	3	1	49	1	0	0	0	0	1	0	0	0	11841	1087	38	1	514	1	PHF11	13	50095067	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4011219	50095067	65074811	991	37671											
HNRNPA1L2	144983	broad.mit.edu	37	chr13	53216743	53216743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccattttgagcaatggggaaCgctcacagactgtgtggtaa	11	10	12	8	1	1	2	1	1	0	1	1	3	1	3	1	3	2	3	1	3	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:53216743C>T	uc001vgx.1	+	7	1189	c.116C>T	c.(115-117)ACG>ATG	p.T39M	HNRNPA1L2_uc001vgy.1_Missense_Mutation_p.T39M|HNRNPA1L2_uc001vgz.1_Missense_Mutation_p.T39M	NM_001011724	NP_001011724	Q32P51	RA1L2_HUMAN	heterogeneous nuclear ribonucleoprotein A1-like	39	Globular A domain.|RRM 1.				mRNA processing|mRNA transport|RNA splicing	cytoplasm|spliceosomal complex	nucleotide binding|RNA binding				0						CAATGGGGAACGCTCACAGAC	0.512													7	20					0	0	1	0	0		T	53216743	T	T	53216743	3	4	49	1	0	0	0	0	1	0	0	0	7274	536	19	1	118	1	HNRNPA1L2	13	53216743	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3121676	53216743	61953135	992	37672											
PCDH17	27253	broad.mit.edu	37	chr13	58207949	58207949	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactacgacaacttctacacGgtggtgactgaccgcccgct	10	8	9	14	4	1	2	0	2	1	0	1	3	1	2	2	2	4	1	2	2	4	3	rs142073852		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:58207949G>A	uc001vhq.1	+	1	2161	c.1269G>A	c.(1267-1269)ACG>ACA	p.T423T	PCDH17_uc010aec.1_Silent_p.T423T	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	423	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		ACTTCTACACGGTGGTGACTG	0.512													10	16					0	0	1	0	0		A	58207949	A	A	58207949	2	1	49	1	0	0	0	0	0	0	0	1	11531	1103	39	1		1	PCDH17	13	58207949	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4991206	58207949	56961929	993	37673											
PCDH17	27253	broad.mit.edu	37	chr13	58208794	58208794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcaccactgggacatgtCgctgccgctcatcgtgactc	7	8	11	15	3	1	1	1	1	0	0	4	2	1	2	2	1	2	4	2	1	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:58208794C>T	uc001vhq.1	+	1	3006	c.2114C>T	c.(2113-2115)TCG>TTG	p.S705L	PCDH17_uc010aec.1_Missense_Mutation_p.S705L	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	705	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TGGGACATGTCGCTGCCGCTC	0.612													14	46					0	0	1	0	0		T	58208794	T	T	58208794	3	4	49	1	0	0	0	0	1	0	0	0	11531	893	31	1	2116	1	PCDH17	13	58208794	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	845	58208794	56961084	994	37674											
KLF5	688	broad.mit.edu	37	chr13	73636260	73636260	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcagccaccagagtgaaAcgactgcccctcctccggcc	8	8	8	17	2	1	2	1	1	0	1	3	3	3	2	7	1	3	0	7	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:73636260A>G	uc001vje.2	+	2	847	c.523A>G	c.(523-525)ACG>GCG	p.T175A	KLF5_uc001vjd.2_Missense_Mutation_p.T84A	NM_001730	NP_001721	Q13887	KLF5_HUMAN	Kruppel-like factor 5	175					transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|pancreas(1)	3		Prostate(6;0.00187)|Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.0011)		CCAGAGTGAAACGACTGCCCC	0.532													12	102					0	0	1	0	0		G	73636260	G	G	73636260	3	3	49	1	0	0	0	0	1	0	0	0	8365	43	2	3	529	3	KLF5	13	73636260	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	15427466	73636260	41533618	995	37675											
TBC1D4	9882	broad.mit.edu	37	chr13	75873705	75873705	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaagggtgagtaggaaacgTccttcctgcagaggaaaaga	14	7	14	6	1	0	3	0	1	0	2	2	5	2	5	2	3	2	3	2	3	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:75873705T>A	uc001vjl.1	-	17	3264	c.2917A>T	c.(2917-2919)ACG>TCG	p.T973S	TBC1D4_uc010tht.1_Missense_Mutation_p.T183S|TBC1D4_uc010thu.1_Missense_Mutation_p.T130S|TBC1D4_uc010aer.2_Missense_Mutation_p.T965S|TBC1D4_uc010aes.2_Missense_Mutation_p.T910S	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	973	Rab-GAP TBC.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		GTAGGAAACGTCCTTCCTGCA	0.433													16	27					0	0	1	0	0		A	75873705	A	A	75873705	3	1	49	1	0	0	0	0	1	0	0	0	15647	1667	58	5	999	5	TBC1D4	13	75873705	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2237445	75873705	39296173	996	37676											
TBC1D4	9882	broad.mit.edu	37	chr13	75901921	75901921	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agactgttggaccgttcaaaActgtccacacttccaagccg	11	9	8	13	2	1	1	1	0	0	1	3	2	3	2	4	1	2	2	4	1	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:75901921A>G	uc001vjl.1	-	9	2120	c.1773T>C	c.(1771-1773)AGT>AGC	p.S591S	TBC1D4_uc010aer.2_Silent_p.S591S|TBC1D4_uc010aes.2_Silent_p.S591S	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	591						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		ACCGTTCAAAACTGTCCACAC	0.378													43	94					0	0	1	0	0		G	75901921	G	G	75901921	2	3	49	1	0	0	0	0	0	0	0	1	15647	40	2	3		3	TBC1D4	13	75901921	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	28216	75901921	39267957	997	37677											
MYCBP2	23077	broad.mit.edu	37	chr13	77671669	77671669	+	Frame_Shift_Del	DEL	T	-	-																															tttcttttttctttttttccTttttggacttcttattctct																								rs149154232		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:77671669delT	uc001vkf.2	-	57	9597	c.9506delA	c.(9505-9507)AAGfs	p.K3169fs	MYCBP2_uc010aev.2_Frame_Shift_Del_p.K2573fs|MYCBP2_uc001vkg.1_Frame_Shift_Del_p.K692fs	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3169	Lys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		ctttttttcctttttggactt	0.313													3	6	---	---	---	---						.	-	77671669	-	-	77671669	7	5	49	1	0	1	0	1	0	0	0	0	10036	1609	56	0	4528	0	MYCBP2	13	77671669	Frame_Shift_Del	DEL	T	TCGA-BR-7707-01A-11D-2053-08	1769748	77671669	37498209	998	37678											
SLITRK1	114798	broad.mit.edu	37	chr13	84454847	84454847	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggagactagaatccactcGgtttttcaaaggacacaagt	13	9	10	9	2	1	2	1	0	0	2	3	4	2	3	1	3	0	1	1	3	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:84454847G>A	uc001vlk.2	-	1	1682	c.796C>T	c.(796-798)CGA>TGA	p.R266*		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	266	Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GAATCCACTCGGTTTTTCAAA	0.557													5	54					0	0	1	0	0		A	84454847	A	A	84454847	4	1	49	1	0	0	0	0	0	1	0	0	14767	1124	39	1	1298	1	SLITRK1	13	84454847	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	6783178	84454847	30715031	999	37679											
DNAJC3	5611	broad.mit.edu	37	chr13	96375615	96375615	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaattgaagatggacttcActgcagtaagtatatctcaa	14	13	7	7	0	3	2	3	1	1	1	4	3	3	3	0	1	1	3	0	1	6	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:96375615A>G	uc001vmq.2	+	3	421	c.313A>G	c.(313-315)ACT>GCT	p.T105A	DNAJC3_uc001vmp.2_Missense_Mutation_p.T105A|DNAJC3_uc001vmr.2_Missense_Mutation_p.T105A	NM_006260	NP_006251	Q13217	DNJC3_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 3	105	TPR 3.				protein folding|response to unfolded protein|response to virus		heat shock protein binding|protein kinase inhibitor activity|unfolded protein binding				0	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.126)			GATGGACTTCACTGCAGTAAG	0.378													12	115					0	0	1	0	0		G	96375615	G	G	96375615	3	3	49	1	0	0	0	0	1	0	0	0	4653	159	6	3	323	3	DNAJC3	13	96375615	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	11920768	96375615	18794263	1000	37680											
IPO5	3843	broad.mit.edu	37	chr13	98645415	98645415	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcttgcccttgaagtgatCgtcaccctctctgagactgc	7	11	9	14	1	2	3	1	3	1	1	4	4	2	3	2	0	3	1	2	0	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:98645415C>T	uc001vnf.1	+	8	914	c.849C>T	c.(847-849)ATC>ATT	p.I283I	IPO5_uc001vne.2_Silent_p.I301I|IPO5_uc010tik.1_Silent_p.I158I|IPO5_uc010til.1_Silent_p.I223I	NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	283					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						TTGAAGTGATCGTCACCCTCT	0.378													11	59					0	0	1	0	0		T	98645415	T	T	98645415	2	4	49	1	0	0	0	0	0	0	0	1	7812	874	31	1		1	IPO5	13	98645415	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2269800	98645415	16524463	1001	37681											
RNF113B	140432	broad.mit.edu	37	chr13	98828582	98828582	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgccatcagttctttggcGgggttaaagatgccgccggt	6	12	13	10	4	2	1	1	0	1	1	3	1	2	1	3	4	1	2	3	4	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:98828582G>A	uc001vnk.2	-	1	940	c.909C>T	c.(907-909)CCC>CCT	p.P303P	FARP1_uc001vnh.2_Intron|FARP1_uc001vni.2_Intron|FARP1_uc001vnj.2_Intron	NM_178861	NP_849192	Q8IZP6	R113B_HUMAN	ring finger protein 113B	303							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.13)			GTTCTTTGGCGGGGTTAAAGA	0.577													32	78					0	0	1	0	0		A	98828582	A	A	98828582	2	1	49	1	0	0	0	0	0	0	0	1	13453	1103	39	1		1	RNF113B	13	98828582	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	183167	98828582	16341296	1002	37682											
FARP1	10160	broad.mit.edu	37	chr13	99092225	99092225	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcccacagattgaggagaGcgaagacgagtggggggtgc	10	6	18	7	2	0	4	0	1	0	3	0	7	0	4	1	4	3	0	1	4	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:99092225G>T	uc001vnj.2	+	22	2780	c.2444G>T	c.(2443-2445)AGC>ATC	p.S815I	FARP1_uc001vnh.2_Missense_Mutation_p.S846I	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	815	PH 1.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			ATTGAGGAGAGCGAAGACGAG	0.617													16	308					1.67942e-08	1.79249e-08	1	1	0		T	99092225	T	T	99092225	3	4	49	1	0	0	0	0	1	0	0	0	5690	971	34	5	2749	5	FARP1	13	99092225	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	263643	99092225	16077653	1003	37683											
DOCK9	23348	broad.mit.edu	37	chr13	99567684	99567684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcttccatttccacttcaCtgtctgctgccaagagataa	10	14	5	12	0	3	1	1	0	2	1	5	2	5	1	3	0	2	1	3	0	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:99567684C>T	uc001vnt.2	-	8	849	c.794G>A	c.(793-795)AGT>AAT	p.S265N	DOCK9_uc001vnw.2_Missense_Mutation_p.S264N|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.S265N|DOCK9_uc010tis.1_Missense_Mutation_p.S264N|DOCK9_uc010tit.1_Missense_Mutation_p.S265N|DOCK9_uc010afu.1_Missense_Mutation_p.S80N	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	265	PH.				blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TTCCACTTCACTGTCTGCTGC	0.403													3	37					0	0	1	0	0		T	99567684	T	T	99567684	3	4	49	1	0	0	0	0	1	0	0	0	4700	565	20	4	5672	4	DOCK9	13	99567684	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	475459	99567684	15602194	1004	37684											
ATP11A	23250	broad.mit.edu	37	chr13	113470405	113470405	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtcctgtaggttggggaCattgtcatggttaaggagga	8	14	15	4	0	1	0	1	0	0	0	2	3	2	3	1	6	0	3	1	6	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:113470405C>T	uc001vsi.3	+	6	538	c.450C>T	c.(448-450)GAC>GAT	p.D150D	ATP11A_uc001vsj.3_Silent_p.D150D|ATP11A_uc001vsm.1_Silent_p.D26D	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	150	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				AGGTTGGGGACATTGTCATGG	0.567													19	58					0	0	1	0	0		T	113470405	T	T	113470405	2	4	49	1	0	0	0	0	0	0	0	1	1120	477	17	4		4	ATP11A	13	113470405	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	13902721	113470405	1699473	1005	37685											
TMCO3	55002	broad.mit.edu	37	chr13	114152698	114152698	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctggcagcagaaaaacaTcaagttgaagcccttaaaaa	17	8	7	9	0	2	2	1	1	1	1	2	2	2	2	1	1	3	3	1	1	7	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:114152698T>C	uc001vtu.3	+	3	847	c.486T>C	c.(484-486)CAT>CAC	p.H162H	TMCO3_uc001vtt.3_Silent_p.H162H	NM_017905	NP_060375	Q6UWJ1	TMCO3_HUMAN	transmembrane and coiled-coil domains 3	162	Potential.					integral to membrane	solute:hydrogen antiporter activity				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0145)|all_epithelial(44;0.00286)|all_lung(25;0.0273)|Breast(118;0.0411)|Lung NSC(25;0.0983)	all cancers(43;0.0317)			CAGAAAAACATCAAGTTGAAG	0.363													5	54					0	0	1	0	0		C	114152698	C	C	114152698	2	2	49	1	0	0	0	0	0	0	0	1	16022	1432	50	3		3	TMCO3	13	114152698	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	682293	114152698	1017180	1006	37686											
RASA3	22821	broad.mit.edu	37	chr13	114780744	114780744	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatgtcacacatgacggtcGggcagctcaccccagactca	11	6	10	14	2	3	3	3	1	0	2	4	3	3	3	2	2	1	2	2	2	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr13:114780744G>C	uc001vui.2	-	14	1477	c.1346C>G	c.(1345-1347)CCG>CGG	p.P449R	RASA3_uc010tkk.1_Missense_Mutation_p.P417R|RASA3_uc001vuj.2_Missense_Mutation_p.P66R	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	449	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			CATGACGGTCGGGCAGCTCAC	0.622													4	92					0	0	1	0	0		C	114780744	C	C	114780744	3	2	49	1	0	0	0	0	1	0	0	0	13087	1116	39	5	1202	5	RASA3	13	114780744	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	628046	114780744	389134	1007	37687											
RNASE9	390443	broad.mit.edu	37	chr14	21024951	21024951	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacccaacggtgtttgtagTaaacattttttcccatgatt	10	15	6	10	1	0	1	0	1	0	0	1	1	1	1	3	1	2	3	3	1	4	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:21024951T>C	uc010aho.2	-	4	437	c.278A>G	c.(277-279)TAC>TGC	p.Y93C	RNASE9_uc001vxq.3_Missense_Mutation_p.Y98C|RNASE9_uc010ahp.2_Missense_Mutation_p.Y98C|RNASE9_uc010ahq.2_Missense_Mutation_p.Y98C|RNASE9_uc010ahr.2_Missense_Mutation_p.Y98C|RNASE9_uc010ahs.2_Missense_Mutation_p.Y93C|RNASE9_uc010aht.2_Missense_Mutation_p.Y93C|RNASE9_uc010ahu.2_Missense_Mutation_p.Y93C	NM_001110357	NP_001103827	P60153	RNAS9_HUMAN	ribonuclease, RNase A family, 9 (non-active)	93						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			ovary(2)	2	all_cancers(95;0.00238)		Epithelial(56;3.32e-06)|all cancers(55;2.46e-05)	GBM - Glioblastoma multiforme(265;0.0141)		GTGTTTGTAGTAAACATTTTT	0.373													14	144					0	0	1	0	0		C	21024951	C	C	21024951	3	2	49	1	0	0	0	0	1	0	0	0	13435	1638	57	3	343	3	RNASE9	14	21024951	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08		21024951	86324589	1008	37688											
RNASE11	122651	broad.mit.edu	37	chr14	21052427	21052427	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaatgtggaagacatatcAtccttggacatgctgaggct	12	11	11	7	0	1	2	1	1	0	1	2	4	2	4	1	3	1	3	1	3	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:21052427A>G	uc010ahv.2	-	2	392	c.207T>C	c.(205-207)GAT>GAC	p.D69D	RNASE11_uc010ahx.2_Silent_p.D69D|RNASE11_uc010ahw.2_Silent_p.D69D|RNASE11_uc001vxs.2_Silent_p.D69D	NM_145250	NP_660293	Q8TAA1	RNS11_HUMAN	ribonuclease, RNase A family, 11 (non-active)	69						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			ovary(3)	3	all_cancers(95;0.00238)	all_lung(585;0.235)	Epithelial(56;1.85e-06)|all cancers(55;1.46e-05)	GBM - Glioblastoma multiforme(265;0.0139)		AAGACATATCATCCTTGGACA	0.388													30	214					0	0	1	0	0		G	21052427	G	G	21052427	2	3	49	1	0	0	0	0	0	0	0	1	13426	214	8	3		3	RNASE11	14	21052427	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	27476	21052427	86297113	1009	37689											
RPGRIP1	57096	broad.mit.edu	37	chr14	21769187	21769187	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgggtcgcggaggaggCggcgccgctctcggagaccg	4	4	19	14	8	1	1	0	0	1	1	3	4	1	3	3	6	1	1	3	6	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:21769187C>A	uc001wag.2	+	3	281	c.281C>A	c.(280-282)GCG>GAG	p.A94E		NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	94					response to stimulus|visual perception	cilium		p.H94Y(1)		ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		GCGGAGGAGGCGGCGCCGCTC	0.677													4	37					0.00024832	0.000256562	1	1	0		A	21769187	A	A	21769187	3	1	49	1	0	0	0	0	1	0	0	0	13574	768	27	5	291	5	RPGRIP1	14	21769187	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	716760	21769187	85580353	1010	37690											
RAB2B	84932	broad.mit.edu	37	chr14	21944741	21944741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atctgtaaactgcaggaggaGacatgacttccccacacctg	12	8	9	12	0	1	2	0	1	1	1	2	4	2	3	3	2	2	2	3	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:21944741G>A	uc010tlt.1	-	2	165	c.64C>T	c.(64-66)CTC>TTC	p.L22F	RAB2B_uc010tls.1_5'UTR|RAB2B_uc001wax.2_5'UTR|RAB2B_uc010ain.2_5'UTR|TOX4_uc001way.2_5'Flank|TOX4_uc001waz.2_5'Flank|TOX4_uc001wba.2_5'Flank|TOX4_uc010tlu.1_5'Flank	NM_032846	NP_116235	Q8WUD1	RAB2B_HUMAN	RAB2B protein isoform 1	22					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane|plasma membrane	GTP binding			ovary(1)	1	all_cancers(95;0.000858)		Epithelial(56;1.53e-06)|all cancers(55;1.44e-05)	GBM - Glioblastoma multiforme(265;0.00391)		TGCAGGAGGAGACATGACTTC	0.517													35	81					0	0	1	0	0		A	21944741	A	A	21944741	3	1	49	1	0	0	0	0	1	0	0	0	12943	942	33	4	614	4	RAB2B	14	21944741	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	175554	21944741	85404799	1011	37691											
LRP10	26020	broad.mit.edu	37	chr14	23345962	23345962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaggcacccccttcctacGggcagctcattgcccagggt	7	7	11	16	1	1	0	1	0	0	0	2	0	2	0	4	3	4	4	4	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:23345962G>A	uc001whd.2	+	6	2042	c.1489G>A	c.(1489-1491)GGG>AGG	p.G497R	LRP10_uc001whe.2_Missense_Mutation_p.G373R	NM_014045	NP_054764	Q7Z4F1	LRP10_HUMAN	low density lipoprotein receptor-related protein	497	Cytoplasmic (Potential).				endocytosis	coated pit|integral to membrane				central_nervous_system(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.00549)		CCCTTCCTACGGGCAGCTCAT	0.552													9	80					0	0	1	0	0		A	23345962	A	A	23345962	3	1	49	1	0	0	0	0	1	0	0	0	8970	1116	39	1	1511	1	LRP10	14	23345962	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1401221	23345962	84003578	1012	37692											
CDH24	64403	broad.mit.edu	37	chr14	23522901	23522901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagataggctgggtcaatgaGcgtgttggtggcctcgacac	8	9	15	9	2	1	2	1	1	0	1	2	3	1	2	1	4	1	2	1	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:23522901G>A	uc001wil.2	-	7	1290	c.1030C>T	c.(1030-1032)CTC>TTC	p.L344F	CDH24_uc010akf.2_Missense_Mutation_p.L344F|CDH24_uc001win.3_Missense_Mutation_p.L344F	NM_022478	NP_071923	Q86UP0	CAD24_HUMAN	cadherin-like 24 isoform 1	344	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|cell-cell adhesion|homophilic cell adhesion	cell-cell junction|cell-cell junction|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|delta-catenin binding			central_nervous_system(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		GGGTCAATGAGCGTGTTGGTG	0.602													4	32					0	0	1	0	0		A	23522901	A	A	23522901	3	1	49	1	0	0	0	0	1	0	0	0	3112	971	34	2	1457	2	CDH24	14	23522901	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	176939	23522901	83826639	1013	37693											
SLC22A17	51310	broad.mit.edu	37	chr14	23818480	23818480	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctgggagggtgccacttaCgcatcaggtagacacccagg	9	8	13	11	1	2	1	1	0	1	1	2	2	2	2	2	4	2	2	2	4	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:23818480C>T	uc001wjl.2	-	3	582	c.526_splice	c.e3+1	p.R176_splice	SLC22A17_uc010akk.2_Splice_Site|SLC22A17_uc001wjn.2_Splice_Site|SLC22A17_uc001wjm.2_Splice_Site_p.R176_splice|SLC22A17_uc010akl.1_Missense_Mutation_p.R176H	NM_020372	NP_065105	Q8WUG5	S22AH_HUMAN	solute carrier family 22, member 17 isoform a						siderophore transport	integral to organelle membrane|integral to plasma membrane|vacuolar membrane	transmembrane receptor activity|transmembrane transporter activity				0	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00643)		GTGCCACTTACGCATCAGGTA	0.617													20	55					0	0	1	0	0		T	23818480	T	T	23818480	5	4	49	1	0	0	0	0	0	0	1	0	14473	550	19	1	1117	1	SLC22A17	14	23818480	Splice_Site	SNP	C	TCGA-BR-7707-01A-11D-2053-08	295579	23818480	83531060	1014	37694											
MYH6	4624	broad.mit.edu	37	chr14	23871975	23871975	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccctgagacacgaaggcGtagtcgtagggattgttggt	8	11	14	8	3	1	1	0	1	1	1	3	4	1	2	1	3	0	3	1	3	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:23871975G>A	uc001wjv.2	-	11	1000	c.933C>T	c.(931-933)TAC>TAT	p.Y311Y	MYH6_uc010akp.1_Silent_p.Y311Y	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	311	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		ACACGAAGGCGTAGTCGTAGG	0.433													15	43					0	0	1	0	0		A	23871975	A	A	23871975	2	1	49	1	0	0	0	0	0	0	0	1	10056	1140	40	1		1	MYH6	14	23871975	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	53495	23871975	83477565	1015	37695											
MYH7	4625	broad.mit.edu	37	chr14	23884267	23884267	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttcaccgactctgcgttGcgcttctgctcggcctccag	3	11	9	18	4	3	0	1	0	2	0	5	1	4	0	4	1	3	3	4	1	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:23884267G>A	uc001wjx.2	-	37	5602	c.5496C>T	c.(5494-5496)CGC>CGT	p.R1832R		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1832	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		ACTCTGCGTTGCGCTTCTGCT	0.652													5	193					0	0	1	0	0		A	23884267	A	A	23884267	2	1	49	1	0	0	0	0	0	0	0	1	10057	1306	46	2		2	MYH7	14	23884267	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	12292	23884267	83465273	1016	37696											
MYH7	4625	broad.mit.edu	37	chr14	23898464	23898464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacattctgccccttggtgaCgtactcattgcccactttca	7	13	7	14	1	3	1	2	1	1	0	3	2	3	1	3	1	3	1	3	1	1	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:23898464C>T	uc001wjx.2	-	13	1337	c.1231G>A	c.(1231-1233)GTC>ATC	p.V411I		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	411	Myosin head-like.		V -> I (in CMH1).		adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CCCTTGGTGACGTACTCATTG	0.567													47	124					0	0	1	0	0		T	23898464	T	T	23898464	3	4	49	1	0	0	0	0	1	0	0	0	10057	536	19	1	4688	1	MYH7	14	23898464	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	14197	23898464	83451076	1017	37697											
LRRC16B	90668	broad.mit.edu	37	chr14	24523312	24523312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggccctgacctcctggCgcctccacctcttcctcctt	3	12	7	19	1	1	1	0	1	1	0	5	1	5	1	8	2	0	1	8	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:24523312C>T	uc001wlj.2	+	3	308	c.151C>T	c.(151-153)CGC>TGC	p.R51C		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	51										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		GACCTCCTGGCGCCTCCACCT	0.617													11	52					0	0	1	0	0		T	24523312	T	T	24523312	3	4	49	1	0	0	0	0	1	0	0	0	8990	768	27	1	161	1	LRRC16B	14	24523312	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	624848	24523312	82826228	1018	37698											
LRRC16B	90668	broad.mit.edu	37	chr14	24532697	24532697	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggcatcaaacacaagggagGccccgcccccccaggaccac	12	1	10	18	1	1	0	1	0	0	0	1	2	1	2	6	4	1	1	6	4	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:24532697G>T	uc001wlj.2	+	31	3091	c.2934G>T	c.(2932-2934)AGG>AGT	p.R978S	LRRC16B_uc001wlk.2_Missense_Mutation_p.R74S	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	978										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		CACAAGGGAGGCCCCGCCCCC	0.597													7	71					1.06961e-07	1.13526e-07	1	1	0		T	24532697	T	T	24532697	3	4	49	1	0	0	0	0	1	0	0	0	8990	1194	42	5	3056	5	LRRC16B	14	24532697	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	9385	24532697	82816843	1019	37699											
LRRC16B	90668	broad.mit.edu	37	chr14	24537831	24537831	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacagctgccagagtcccAgcccagcctcccaagatggg	10	4	10	17	0	0	2	0	0	0	2	2	2	2	2	6	1	4	1	6	1	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:24537831A>G	uc001wlj.2	+	37	3878	c.3721A>G	c.(3721-3723)AGC>GGC	p.S1241G	LRRC16B_uc001wlk.2_Missense_Mutation_p.S294G|CPNE6_uc010tnv.1_5'Flank|CPNE6_uc001wlm.2_5'Flank|CPNE6_uc001wll.2_5'Flank	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	1241										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		CCAGAGTCCCAGCCCAGCCTC	0.582													10	81					0	0	1	0	0		G	24537831	G	G	24537831	3	3	49	1	0	0	0	0	1	0	0	0	8990	188	7	3	3867	3	LRRC16B	14	24537831	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	5134	24537831	82811709	1020	37700											
ADCY4	196883	broad.mit.edu	37	chr14	24791428	24791428	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggcggcagtagtactcAttctggggagggtcacccgg	7	8	15	11	2	3	0	2	0	1	0	4	1	4	1	2	6	1	3	2	6	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:24791428A>G	uc001wov.2	-	20	2436	c.2430T>C	c.(2428-2430)AAT>AAC	p.N810N	ADCY4_uc001wow.2_Silent_p.N810N|ADCY4_uc010toh.1_Silent_p.N496N|ADCY4_uc001wox.2_Silent_p.N810N|ADCY4_uc001woy.2_Silent_p.N810N	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	810	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		AGTAGTACTCATTCTGGGGAG	0.602													10	69					0	0	1	0	0		G	24791428	G	G	24791428	2	3	49	1	0	0	0	0	0	0	0	1	296	214	8	3		3	ADCY4	14	24791428	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	253597	24791428	82558112	1021	37701											
FOXG1	2290	broad.mit.edu	37	chr14	29237305	29237305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggcaccacgggcaagctgCggcgccgctccaccacctcg	6	3	13	19	6	0	0	0	0	0	0	2	0	1	0	5	3	2	4	5	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:29237305C>T	uc001wqe.2	+	1	1019	c.820C>T	c.(820-822)CGG>TGG	p.R274W		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	274	Fork-head.			Missing (in Ref. 1; CAA52240 and 2; CAA55038).	axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		GGGCAAGCTGCGGCGCCGCTC	0.701													12	22					0	0	1	0	0		T	29237305	T	T	29237305	3	4	49	1	0	0	0	0	1	0	0	0	6021	759	27	1	822	1	FOXG1	14	29237305	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4445877	29237305	78112235	1022	37702											
RALGAPA1	253959	broad.mit.edu	37	chr14	36147154	36147154	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatctaattttgaaatattGcctagatcatctggtgtctg	11	17	7	6	0	4	2	1	1	3	1	4	2	4	2	1	1	1	0	1	1	5	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:36147154G>A	uc001wti.2	-	21	3497	c.3106_splice	c.e21+1	p.E1036_splice	RALGAPA1_uc001wtj.2_Splice_Site_p.E1036_splice|RALGAPA1_uc010tpv.1_Splice_Site_p.E1049_splice|RALGAPA1_uc010tpw.1_Splice_Site_p.E1083_splice|RALGAPA1_uc001wtk.1_Silent_p.G934G	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1						activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						TTGAAATATTGCCTAGATCAT	0.368													20	54					0	0	1	0	0		A	36147154	A	A	36147154	5	1	49	1	0	0	0	0	0	0	1	0	13038	1333	46	2	3235	2	RALGAPA1	14	36147154	Splice_Site	SNP	G	TCGA-BR-7707-01A-11D-2053-08	6909849	36147154	71202386	1023	37703											
BRMS1L	84312	broad.mit.edu	37	chr14	36302197	36302197	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttaagactttataaagaaCgattaagtcaggtggatgca	15	12	10	4	1	1	2	1	0	0	2	1	4	1	3	0	2	2	2	0	2	6	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:36302197C>T	uc001wtl.2	+	3	373	c.247C>T	c.(247-249)CGA>TGA	p.R83*	BRMS1L_uc010tpx.1_Nonsense_Mutation_p.R35*	NM_032352	NP_115728	Q5PSV4	BRM1L_HUMAN	breast cancer metastasis-suppressor 1-like	83	Potential.				regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				skin(1)	1	Breast(36;0.137)|Hepatocellular(127;0.158)		Lung(8;1.7e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.00467)|all cancers(34;0.0157)|BRCA - Breast invasive adenocarcinoma(188;0.158)	GBM - Glioblastoma multiforme(112;0.0333)		TTATAAAGAACGATTAAGTCA	0.323													7	42					0	0	1	0	0		T	36302197	T	T	36302197	4	4	49	1	0	0	0	0	0	1	0	0	1520	528	19	1	257	1	BRMS1L	14	36302197	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	155043	36302197	71047343	1024	37704											
PAX9	5083	broad.mit.edu	37	chr14	37132240	37132240	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagccgccagctacgggTctcgcacggctgcgtcagca	7	6	12	16	5	3	0	2	0	1	0	4	0	3	0	2	2	5	4	2	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:37132240T>C	uc001wty.3	+	3	860	c.143T>C	c.(142-144)GTC>GCC	p.V48A	PAX9_uc010amq.2_5'Flank	NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	48	Paired.				multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		CAGCTACGGGTCTCGCACGGC	0.662													6	37					0	0	1	0	0		C	37132240	C	C	37132240	3	2	49	1	0	0	0	0	1	0	0	0	11505	1667	58	3	149	3	PAX9	14	37132240	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	830043	37132240	70217300	1025	37705											
LRFN5	145581	broad.mit.edu	37	chr14	42356964	42356964	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatataattaagctccctcActtactaaatagtacaaacc	16	12	2	11	0	2	0	2	0	0	0	3	0	3	0	2	0	4	2	2	0	9	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:42356964A>G	uc001wvm.2	+	3	2334	c.1136A>G	c.(1135-1137)CAC>CGC	p.H379R	LRFN5_uc010ana.2_Missense_Mutation_p.H379R	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	379	Extracellular (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AAGCTCCCTCACTTACTAAAT	0.398										HNSCC(30;0.082)			9	77					0	0	1	0	0		G	42356964	G	G	42356964	3	3	49	1	0	0	0	0	1	0	0	0	8959	159	6	3	1138	3	LRFN5	14	42356964	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	5224724	42356964	64992576	1026	37706											
KLHL28	54813	broad.mit.edu	37	chr14	45414264	45414264	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaagagtccagatttccCtcctactgcacaaagtactt	12	10	7	12	0	0	2	0	0	0	2	3	2	3	2	3	1	3	3	3	1	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:45414264C>G	uc001wvq.2	-	2	1114	c.868G>C	c.(868-870)GGG>CGG	p.G290R	KLHL28_uc001wvr.2_Missense_Mutation_p.G290R|KLHL28_uc001wvt.3_Missense_Mutation_p.G290R	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	290	Kelch 1.									ovary(1)	1						CCAGATTTCCCTCCTACTGCA	0.403													7	108					0	0	1	0	0		G	45414264	G	G	45414264	3	3	49	1	0	0	0	0	1	0	0	0	8398	681	24	5	863	5	KLHL28	14	45414264	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3057300	45414264	61935276	1027	37707											
FANCM	57697	broad.mit.edu	37	chr14	45645243	45645243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcaaaatgaaaatttagtaCctaacaatcgtgttcaaata	19	12	4	6	1	2	1	2	1	0	0	3	1	2	1	1	0	2	2	1	0	10	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:45645243C>T	uc001wwd.3	+	14	3385	c.3286C>T	c.(3286-3288)CCT>TCT	p.P1096S	FANCM_uc010anf.2_Missense_Mutation_p.P1070S|FANCM_uc001wwe.3_Missense_Mutation_p.P632S|FANCM_uc010ang.2_Missense_Mutation_p.P310S	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1096					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						AAATTTAGTACCTAACAATCG	0.348								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				5	49					0	0	1	0	0		T	45645243	T	T	45645243	3	4	49	1	0	0	0	0	1	0	0	0	5685	507	18	4	3340	4	FANCM	14	45645243	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	230979	45645243	61704297	1028	37708											
MDGA2	161357	broad.mit.edu	37	chr14	47342767	47342767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcgccttccaatctgggtCgtgatgtctcaatgtacata	8	15	8	10	2	2	1	1	1	2	0	6	1	3	1	2	1	1	1	2	1	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:47342767C>T	uc001wwj.3	-	14	2610	c.2414G>A	c.(2413-2415)CGA>CAA	p.R805Q	MDGA2_uc001wwh.3_Missense_Mutation_p.R7Q|MDGA2_uc001wwi.3_Missense_Mutation_p.R576Q|MDGA2_uc010ani.2_Missense_Mutation_p.R365Q	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	805	MAM.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CAATCTGGGTCGTGATGTCTC	0.378													8	76					0	0	1	0	0		T	47342767	T	T	47342767	3	4	49	1	0	0	0	0	1	0	0	0	9425	884	31	1	472	1	MDGA2	14	47342767	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1697524	47342767	60006773	1029	37709											
SOS2	6655	broad.mit.edu	37	chr14	50606660	50606661	+	Frame_Shift_Ins	INS	-	A	A																															tccatatttagtaacttaccINSaaaaaaaggcacacaaggtg																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:50606660_50606661insA	uc001wxs.3	-	17	2882_2883	c.2784_2785insT	c.(2782-2787)TTTGGAfs	p.F928fs	SOS2_uc010tql.1_Frame_Shift_Ins_p.F895fs|SOS2_uc010tqm.1_RNA	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	928_929	Ras-GEF.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					AGTAACTTACCAAAAAAAGGCA	0.188													23	40	---	---	---	---						.	A	50606661	A	A	50606660	7	5	49	1	0	1	1	0	0	0	0	0	14962	608	21	0	1241	0	SOS2	14	50606660	Frame_Shift_Ins	INS	-	TCGA-BR-7707-01A-11D-2053-08	3263893	50606660	56742880	1030	37710											
ABHD12B	145447	broad.mit.edu	37	chr14	51355547	51355547	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctttcatttcaaggatgcCcagttgatgctattgtcttg	7	18	8	8	0	4	1	2	1	2	0	4	2	4	2	1	1	2	2	1	1	2	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:51355547C>A	uc001wys.2	+	9	721	c.706C>A	c.(706-708)CCA>ACA	p.P236T	ABHD12B_uc001wyq.2_Missense_Mutation_p.P129T|ABHD12B_uc001wyr.2_Missense_Mutation_p.P159T|ABHD12B_uc010any.2_RNA	NM_181533	NP_853511	Q7Z5M8	AB12B_HUMAN	abhydrolase domain containing 12B isoform b	236							hydrolase activity			breast(1)	1	all_epithelial(31;0.00481)|Breast(41;0.148)					TCAAGGATGCCCAGTTGATGC	0.353													3	62					6.4e-05	6.65405e-05	1	1	0		A	51355547	A	A	51355547	3	1	49	1	0	0	0	0	1	0	0	0	77	623	22	5	519	5	ABHD12B	14	51355547	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	748887	51355547	55993993	1031	37711											
TRIM9	114088	broad.mit.edu	37	chr14	51561493	51561493	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagtcatagtcggagaccccGgagcccgcggcccgatggct	7	6	14	14	5	1	1	1	0	0	1	2	4	1	2	4	4	1	1	4	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:51561493G>A	uc001wyx.3	-	1	930	c.165C>T	c.(163-165)TCC>TCT	p.S55S	TRIM9_uc001wyy.2_Silent_p.S55S|TRIM9_uc001wyz.3_Silent_p.S55S	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	55					proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					CGGAGACCCCGGAGCCCGCGG	0.642													4	16					0	0	1	0	0		A	51561493	A	A	51561493	2	1	49	1	0	0	0	0	0	0	0	1	16575	1103	39	1		1	TRIM9	14	51561493	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	205946	51561493	55788047	1032	37712											
WDHD1	11169	broad.mit.edu	37	chr14	55429711	55429711	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcttcttcttcttcttcCtcttccacctgggttgctgt	4	19	5	13	0	6	0	0	0	6	0	8	0	8	0	3	1	1	2	3	1	1	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:55429711C>T	uc001xbm.1	-	19	2568	c.2490G>A	c.(2488-2490)GAG>GAA	p.E830E	WDHD1_uc010aom.1_Silent_p.E347E|WDHD1_uc001xbn.1_Silent_p.E707E	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	830	Glu-rich (acidic).					cytoplasm|nucleoplasm	DNA binding			skin(1)	1						cttcttcttcctcttcCACCT	0.333													4	15					0	0	1	0	0		T	55429711	T	T	55429711	2	4	49	1	0	0	0	0	0	0	0	1	17297	680	24	4		4	WDHD1	14	55429711	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3868218	55429711	51919829	1033	37713											
PSMA3	5684	broad.mit.edu	37	chr14	58734211	58734211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaaagaaatgacctgccGtgatatcgttaaagaagttg	15	10	11	5	2	0	5	0	3	0	2	1	6	0	5	2	0	1	2	2	0	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:58734211G>A	uc001xdj.1	+	8	609	c.563G>A	c.(562-564)CGT>CAT	p.R188H	C14orf37_uc010tro.1_Intron|PSMA3_uc001xdk.1_Missense_Mutation_p.R181H|uc001xdl.2_Intron	NM_002788	NP_002779	P25788	PSA3_HUMAN	proteasome alpha 3 subunit isoform 1	188					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	protein binding|threonine-type endopeptidase activity				0						ATGACCTGCCGTGATATCGTT	0.274													11	62					0	0	1	0	0		A	58734211	A	A	58734211	3	1	49	1	0	0	0	0	1	0	0	0	12690	1145	40	1	593	1	PSMA3	14	58734211	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3304500	58734211	48615329	1034	37714											
TOMM20L	387990	broad.mit.edu	37	chr14	58863027	58863027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgttcgcagaaagaagagcaGagcctcaaaaggctgaggag	15	5	14	7	1	1	5	1	1	0	4	2	6	1	6	1	2	2	4	1	2	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:58863027G>A	uc001xdr.1	+	2	180	c.148G>A	c.(148-150)GAG>AAG	p.E50K	TOMM20L_uc010trq.1_RNA	NM_207377	NP_997260	Q6UXN7	TO20L_HUMAN	translocase of outer mitochondrial membrane 20	50	Cytoplasmic (Potential).				protein targeting	integral to membrane|mitochondrial outer membrane translocase complex					0						AAGAAGAGCAGAGCCTCAAAA	0.662													4	39					0	0	1	0	0		A	58863027	A	A	58863027	3	1	49	1	0	0	0	0	1	0	0	0	16380	943	33	4	154	4	TOMM20L	14	58863027	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	128816	58863027	48486513	1035	37715											
WDR89	112840	broad.mit.edu	37	chr14	64066595	64066595	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccaagaaggtaagtgggCtctttggttcctaaggaaca	13	10	11	7	0	1	1	0	0	1	1	2	2	2	2	2	4	2	3	2	4	6	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:64066595C>T	uc001xgh.2	-	3	312	c.66G>A	c.(64-66)GAG>GAA	p.E22E	WDR89_uc001xgi.2_Silent_p.E22E	NM_001008726	NP_001008726	Q96FK6	WDR89_HUMAN	WD repeat domain 89	22	WD 1.										0				OV - Ovarian serous cystadenocarcinoma(108;0.00543)|all cancers(60;0.0181)|BRCA - Breast invasive adenocarcinoma(234;0.101)		GGTAAGTGGGCTCTTTGGTTC	0.383													14	66					0	0	1	0	0		T	64066595	T	T	64066595	2	4	49	1	0	0	0	0	0	0	0	1	17362	796	28	2		2	WDR89	14	64066595	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5203568	64066595	43282945	1036	37716											
SYNE2	23224	broad.mit.edu	37	chr14	64408821	64408821	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattgatggaaacccatccaTtatccttggcctaatttgga	11	13	7	10	0	0	1	0	1	0	0	2	3	2	3	4	3	1	0	4	3	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:64408821T>G	uc001xgm.2	+	6	598	c.368T>G	c.(367-369)ATT>AGT	p.I123S	SYNE2_uc001xgk.2_Missense_Mutation_p.I123S|SYNE2_uc001xgl.2_Missense_Mutation_p.I123S	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	123	CH 1.|Cytoplasmic (Potential).|Actin-binding.				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AACCCATCCATTATCCTTGGC	0.313													7	62					0	0	1	0	0		G	64408821	G	G	64408821	3	3	49	1	0	0	0	0	1	0	0	0	15471	1493	52	5	386	5	SYNE2	14	64408821	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	342226	64408821	42940719	1037	37717											
HSPA2	3306	broad.mit.edu	37	chr14	65008911	65008911	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgcaggtatacgagggCgaacgggccatgaccaagga	11	5	16	9	3	0	1	0	1	0	0	0	4	0	2	2	5	3	2	2	5	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:65008911C>T	uc001xhj.2	+	2	1420	c.1344C>T	c.(1342-1344)GGC>GGT	p.G448G	HSPA2_uc001xhk.3_Silent_p.G448G	NM_021979	NP_068814	P54652	HSP72_HUMAN	heat shock 70kDa protein 2	448					response to unfolded protein|spermatid development	cell surface	ATP binding|unfolded protein binding			skin(1)	1				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)		TATACGAGGGCGAACGGGCCA	0.597													7	101					0	0	1	0	0		T	65008911	T	T	65008911	2	4	49	1	0	0	0	0	0	0	0	1	7427	755	27	1		1	HSPA2	14	65008911	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	600090	65008911	42340629	1038	37718											
SIPA1L1	26037	broad.mit.edu	37	chr14	72152299	72152299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctcctccagaaagagccGccaacatccctcgaagcatc	11	6	7	17	2	0	2	0	0	0	2	5	3	3	2	6	0	4	1	6	0	3	0	rs113469231		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:72152299G>A	uc001xms.2	+	10	3673	c.3325G>A	c.(3325-3327)GCC>ACC	p.A1109T	SIPA1L1_uc001xmt.2_Missense_Mutation_p.A1109T|SIPA1L1_uc001xmu.2_Missense_Mutation_p.A1109T|SIPA1L1_uc001xmv.2_Missense_Mutation_p.A1109T|SIPA1L1_uc010ttm.1_Missense_Mutation_p.A584T	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1109					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		AGAAAGAGCCGCCAACATCCC	0.562													6	62					0	0	1	0	0		A	72152299	A	A	72152299	3	1	49	1	0	0	0	0	1	0	0	0	14354	1087	38	1	3359	1	SIPA1L1	14	72152299	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	7143388	72152299	35197241	1039	37719											
PAPLN	89932	broad.mit.edu	37	chr14	73730973	73730973	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccccctgcaggcagaggaCgcgggcacctacagctgtgg	8	4	14	15	2	0	1	0	0	0	1	0	2	0	2	3	4	3	4	3	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:73730973C>T	uc010ttx.1	+	20	3079	c.2916C>T	c.(2914-2916)GAC>GAT	p.D972D	PAPLN_uc001xnw.3_Silent_p.D945D|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Silent_p.D956D|PAPLN_uc010arm.2_Silent_p.D171D|PAPLN_uc010arn.2_Silent_p.D172D	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	972	Ig-like C2-type 1.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		AGGCAGAGGACGCGGGCACCT	0.647													32	99					0	0	1	0	0		T	73730973	T	T	73730973	2	4	49	1	0	0	0	0	0	0	0	1	11447	535	19	1		1	PAPLN	14	73730973	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1578674	73730973	33618567	1040	37720											
DLST	1743	broad.mit.edu	37	chr14	75361105	75361105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgacaacttttaatgagattGacatgaggtagtgtctctag	12	14	10	5	0	1	4	0	4	1	1	2	5	1	4	0	1	1	1	0	1	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:75361105G>A	uc001xqv.2	+	10	826	c.763G>A	c.(763-765)GAC>AAC	p.D255N	DLST_uc001xqu.2_Missense_Mutation_p.D167N|DLST_uc001xqt.2_Missense_Mutation_p.D171N|DLST_uc010tuw.1_Missense_Mutation_p.D169N|DLST_uc001xqs.2_RNA|DLST_uc010tuv.1_Missense_Mutation_p.D255N	NM_001933	NP_001924	P36957	ODO2_HUMAN	dihydrolipoamide S-succinyltransferase (E2	255					lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	dihydrolipoyllysine-residue succinyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00698)		TAATGAGATTGACATGAGGTA	0.453													12	134					0	0	1	0	0		A	75361105	A	A	75361105	3	1	49	1	0	0	0	0	1	0	0	0	4575	1290	45	4	801	4	DLST	14	75361105	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1630132	75361105	31988435	1041	37721											
ISM2	145501	broad.mit.edu	37	chr14	77942332	77942332	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcgtcctgtaggctcacaGggctgtccatggcctccagt	5	10	12	14	1	1	0	1	0	0	0	5	0	4	0	4	3	0	4	4	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:77942332G>T	uc001xtz.2	-	7	1396	c.1322C>A	c.(1321-1323)CCT>CAT	p.P441H	ISM2_uc001xua.2_3'UTR|ISM2_uc001xty.2_Missense_Mutation_p.P353H|ISM2_uc010tvl.1_Missense_Mutation_p.P360H	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	441	AMOP.					extracellular region				skin(1)	1						TAGGCTCACAGGGCTGTCCAT	0.647													5	53					1	1	1	1	0		T	77942332	T	T	77942332	3	4	49	1	0	0	0	0	1	0	0	0	7877	1000	35	5	397	5	ISM2	14	77942332	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2581227	77942332	29407208	1042	37722											
NRXN3	9369	broad.mit.edu	37	chr14	80328033	80328033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacggagccgggaatcagacGggttccgggggcctcagagg	8	4	18	11	4	2	2	2	0	0	2	3	4	3	4	3	6	1	1	3	6	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:80328033G>A	uc001xun.2	+	17	3403	c.2912G>A	c.(2911-2913)CGG>CAG	p.R971Q	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Missense_Mutation_p.R547Q|NRXN3_uc010asw.2_Missense_Mutation_p.R369Q|NRXN3_uc001xur.3_Missense_Mutation_p.R342Q	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1553	Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GGAATCAGACGGGTTCCGGGG	0.592													14	39					0	0	1	0	0		A	80328033	A	A	80328033	3	1	49	1	0	0	0	0	1	0	0	0	10686	1116	39	1	3324	1	NRXN3	14	80328033	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2385701	80328033	27021507	1043	37723											
DIO2	1734	broad.mit.edu	37	chr14	80669184	80669184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacgttcaaaggctacccCgtaagctatgttggcgttat	10	11	9	11	3	1	0	1	0	0	0	1	0	1	0	2	2	2	6	2	2	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:80669184C>T	uc010tvq.1	-	4	1072	c.670G>A	c.(670-672)GGG>AGG	p.G224R	DIO2_uc010tvp.1_Missense_Mutation_p.G260R|DIO2_uc001xut.2_RNA|DIO2_uc010asx.2_3'UTR|DIO2_uc010tvr.1_Missense_Mutation_p.G224R|DIO2_uc010asy.2_3'UTR	NM_000793	NP_000784	Q92813	IOD2_HUMAN	deiodinase, iodothyronine, type II isoform a	224					hormone biosynthetic process|selenocysteine incorporation|thyroid hormone generation	integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|ubiquitin protein ligase binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0281)		AAGGCTACCCCGTAAGCTATG	0.542													19	45					0	0	1	0	0		T	80669184	T	T	80669184	3	4	49	1	0	0	0	0	1	0	0	0	4531	652	23	1	155	1	DIO2	14	80669184	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	341151	80669184	26680356	1044	37724											
PTPN21	11099	broad.mit.edu	37	chr14	88946663	88946663	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttgtctgagagtgacagTagtatccgttctggttgggc	7	13	14	7	1	2	2	0	2	2	1	3	3	3	2	1	2	1	5	1	2	2	5	rs141723672		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:88946663T>C	uc001xwv.3	-	13	1443	c.1112A>G	c.(1111-1113)TAC>TGC	p.Y371C	PTPN21_uc010twc.1_Missense_Mutation_p.Y167C	NM_007039	NP_008970	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type	371						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			ovary(3)|skin(1)	4						AGAGTGACAGTAGTATCCGTT	0.413													6	72					0	0	1	0	0		C	88946663	C	C	88946663	3	2	49	1	0	0	0	0	1	0	0	0	12811	1638	57	3	2440	3	PTPN21	14	88946663	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	8277479	88946663	18402877	1045	37725											
FOXN3	1112	broad.mit.edu	37	chr14	89878421	89878421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatatccttcactggcaggcGcttggttggagagtcctcga	7	11	13	10	2	1	1	1	0	0	1	4	4	3	1	2	4	0	3	2	4	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:89878421G>A	uc001xxo.3	-	2	537	c.400C>T	c.(400-402)CGC>TGC	p.R134C	FOXN3_uc001xxn.3_Missense_Mutation_p.R134C|FOXN3_uc010atk.2_Missense_Mutation_p.R134C|FOXN3_uc001xxp.2_Missense_Mutation_p.R134C	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1	134	Fork-head.				DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(2)|ovary(1)	3						ACTGGCAGGCGCTTGGTTGGA	0.488													15	107					0	0	1	0	0		A	89878421	A	A	89878421	3	1	49	1	0	0	0	0	1	0	0	0	6035	1087	38	1	1096	1	FOXN3	14	89878421	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	931758	89878421	17471119	1046	37726											
SMEK1	55671	broad.mit.edu	37	chr14	91925133	91925133	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttgctttctttgacaaTggtaacgtatcttccttatc	9	19	5	8	1	2	1	0	1	2	0	4	1	3	1	1	1	2	3	1	1	5	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:91925133T>C	uc001xzn.2	-	15	3294	c.2472A>G	c.(2470-2472)CCA>CCG	p.P824P	SMEK1_uc001xzm.2_Silent_p.P811P|SMEK1_uc001xzo.2_Silent_p.P811P|SMEK1_uc010atz.2_Silent_p.P585P	NM_032560	NP_115949	Q6IN85	P4R3A_HUMAN	SMEK homolog 1, suppressor of mek1	824						microtubule organizing center|nucleus	protein binding				0		all_cancers(154;0.0691)|all_epithelial(191;0.219)		COAD - Colon adenocarcinoma(157;0.221)		TCTTTGACAATGGTAACGTAT	0.343													10	71					0	0	1	0	0		C	91925133	C	C	91925133	2	2	49	1	0	0	0	0	0	0	0	1	14818	1451	51	3		3	SMEK1	14	91925133	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2046712	91925133	15424407	1047	37727											
KIAA1409	57578	broad.mit.edu	37	chr14	94103591	94103591	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcctgggaaacgccagtgtAacgtgccaacgtgcctaaac	12	6	11	12	3	0	0	0	0	0	0	0	1	0	1	4	1	7	1	4	1	5	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:94103591A>G	uc001ybv.1	+	31	5481	c.5398A>G	c.(5398-5400)AAC>GAC	p.N1800D	KIAA1409_uc001ybs.1_Missense_Mutation_p.N1778D	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1955						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		acgccagtgtaacgtgccaac	0.005													6	59					0	0	1	0	0		G	94103591	G	G	94103591	3	3	49	1	0	0	0	0	1	0	0	0	8246	362	13	3	5450	3	KIAA1409	14	94103591	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2178458	94103591	13245949	1048	37728											
DICER1	23405	broad.mit.edu	37	chr14	95562378	95562378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacagaagagcgtgaactggCcacagaagcagcagcacagc	15	3	12	11	1	0	4	0	1	0	3	0	4	0	4	1	1	7	3	1	1	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:95562378C>T	uc001ydw.2	-	24	5061	c.4879G>A	c.(4879-4881)GCC>ACC	p.A1627T	DICER1_uc010avh.1_Missense_Mutation_p.A525T|DICER1_uc001ydv.2_Missense_Mutation_p.A1617T|DICER1_uc001ydx.2_Missense_Mutation_p.A1627T|DICER1_uc001ydy.1_Missense_Mutation_p.A479T	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1627					negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		CGTGAACTGGCCACAGAAGCA	0.438			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				34	278					0	0	1	0	0		T	95562378	T	T	95562378	3	4	49	1	0	0	0	0	1	0	0	0	4527	739	26	2	909	2	DICER1	14	95562378	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1458787	95562378	11787162	1049	37729											
CLMN	79789	broad.mit.edu	37	chr14	95679626	95679626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggtctttcaccgatattgCcacgctcctctctgcagtgg	5	13	9	14	2	3	0	1	0	2	0	5	1	4	0	3	2	2	2	3	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:95679626C>T	uc001yef.2	-	6	654	c.538G>A	c.(538-540)GCA>ACA	p.A180T		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	180	Actin-binding.					integral to membrane	actin binding				0				Epithelial(152;0.193)		ACCGATATTGCCACGCTCCTC	0.577													9	86					0	0	1	0	0		T	95679626	T	T	95679626	3	4	49	1	0	0	0	0	1	0	0	0	3545	739	26	2	2502	2	CLMN	14	95679626	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	117248	95679626	11669914	1050	37730											
SETD3	84193	broad.mit.edu	37	chr14	99872896	99872896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagagccacacactcacagCggtcatcttccaggttgtaa	11	8	9	13	1	3	1	2	0	1	1	4	1	4	1	2	2	2	3	2	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:99872896C>T	uc001ygc.2	-	9	1051	c.881G>A	c.(880-882)CGC>CAC	p.R294H		NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	294	SET.				peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				ACACTCACAGCGGTCATCTTC	0.522													24	52					0	0	1	0	0		T	99872896	T	T	99872896	3	4	49	1	0	0	0	0	1	0	0	0	14157	768	27	1	923	1	SETD3	14	99872896	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4193270	99872896	7476644	1051	37731											
WARS	7453	broad.mit.edu	37	chr14	100801346	100801346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgccttcttgagctcacCggtgagcatggctccgctgg	5	10	14	12	2	2	2	1	2	1	0	3	3	3	2	3	3	3	4	3	3	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:100801346C>T	uc001yhf.1	-	10	1366	c.1282G>A	c.(1282-1284)GGT>AGT	p.G428S	WARS_uc001yhe.1_Missense_Mutation_p.G234S|WARS_uc001yhg.1_Missense_Mutation_p.G428S|WARS_uc001yhh.1_Missense_Mutation_p.G428S|WARS_uc001yhi.1_Missense_Mutation_p.G387S|WARS_uc001yhj.1_Missense_Mutation_p.G387S|WARS_uc001yhk.1_Missense_Mutation_p.G387S|WARS_uc001yhl.1_Missense_Mutation_p.G428S	NM_173701	NP_776049	P23381	SYWC_HUMAN	tryptophanyl-tRNA synthetase isoform a	428					angiogenesis|negative regulation of cell proliferation|regulation of angiogenesis|tryptophanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|protein binding|tryptophan-tRNA ligase activity			breast(1)	1		all_cancers(154;0.00223)|all_lung(585;2.48e-06)|all_epithelial(191;0.000564)|Melanoma(154;0.152)			L-Tryptophan(DB00150)	TTGAGCTCACCGGTGAGCATG	0.597													8	54					0	0	1	0	0		T	100801346	T	T	100801346	3	4	49	1	0	0	0	0	1	0	0	0	17275	652	23	1	137	1	WARS	14	100801346	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	928450	100801346	6548194	1052	37732											
PPP2R5C	5527	broad.mit.edu	37	chr14	102359431	102359431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagtgaaatctctgagtGtctaccatccccaggtaagg	13	9	9	10	0	2	2	0	2	2	0	4	2	3	2	3	2	1	1	3	2	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:102359431G>A	uc001yko.2	+	7	924	c.784G>A	c.(784-786)GTC>ATC	p.V262I	PPP2R5C_uc010txr.1_Missense_Mutation_p.V293I|PPP2R5C_uc001ykk.2_Missense_Mutation_p.V317I|PPP2R5C_uc010txt.1_Missense_Mutation_p.V252I|PPP2R5C_uc001ykn.2_Missense_Mutation_p.V262I|PPP2R5C_uc001ykp.2_Missense_Mutation_p.V262I|PPP2R5C_uc001ykq.2_Missense_Mutation_p.V160I	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	262					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						ATCTCTGAGTGTCTACCATCC	0.423													4	46					0	0	1	0	0		A	102359431	A	A	102359431	3	1	49	1	0	0	0	0	1	0	0	0	12416	1377	48	4	1179	4	PPP2R5C	14	102359431	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1558085	102359431	4990109	1053	37733											
WDR20	91833	broad.mit.edu	37	chr14	102676020	102676020	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttaccaaaaccaaaacggacCctgctaaaactctgggaacg	16	6	7	12	2	1	0	0	0	1	0	1	2	1	2	3	2	6	1	3	2	8	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:102676020C>A	uc001ykz.2	+	3	1562	c.1513C>A	c.(1513-1515)CCT>ACT	p.P505T	WDR20_uc001yky.1_Missense_Mutation_p.P248T|WDR20_uc001yla.2_Missense_Mutation_p.P381T|WDR20_uc001ylb.2_Missense_Mutation_p.P444T|WDR20_uc010txu.1_Missense_Mutation_p.P536T|WDR20_uc001ylc.2_Intron|WDR20_uc001yld.2_Missense_Mutation_p.P505T|WDR20_uc001yle.2_Missense_Mutation_p.P444T|WDR20_uc001ylf.2_Missense_Mutation_p.P517T	NM_144574	NP_653175	Q8TBZ3	WDR20_HUMAN	WD repeat domain 20 isoform 2	505											0						CAAAACGGACCCTGCTAAAAC	0.458											OREG0022939	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	90					0.00198382	0.00202401	1	1	0		A	102676020	A	A	102676020	3	1	49	1	0	0	0	0	1	0	0	0	17306	623	22	5	1540	5	WDR20	14	102676020	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	316589	102676020	4673520	1054	37734											
RAGE	5891	broad.mit.edu	37	chr14	102717229	102717229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcagtgaggagacactcCggggcccggtaccagcgggt	8	5	15	13	3	1	2	1	1	0	1	2	3	2	2	4	5	2	1	4	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:102717229C>T	uc001ylm.2	-	7	736	c.510G>A	c.(508-510)CCG>CCA	p.P170P	RAGE_uc010txv.1_Silent_p.P140P|RAGE_uc001yln.2_5'UTR	NM_014226	NP_055041	Q9UQ07	MOK_HUMAN	MAPK/MAK/MRK overlapping kinase	170	Protein kinase.				signal transduction	Golgi apparatus	ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						GGAGACACTCCGGGGCCCGGT	0.587													9	110					0	0	1	0	0		T	102717229	T	T	102717229	2	4	49	1	0	0	0	0	0	0	0	1	13031	639	23	1		1	RAGE	14	102717229	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	41209	102717229	4632311	1055	37735											
KIAA0284	283638	broad.mit.edu	37	chr14	105350360	105350360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcgacgaggacacaccccGaaagaagcgctcccagtcct	11	5	9	16	4	0	1	0	0	0	1	3	5	2	2	4	1	1	1	4	1	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:105350360G>A	uc010axb.2	+	9	1468	c.1244G>A	c.(1243-1245)CGA>CAA	p.R415Q	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Missense_Mutation_p.R345Q|KIAA0284_uc001yps.2_Missense_Mutation_p.R321Q	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	415						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		GACACACCCCGAAAGAAGCGC	0.652													5	18					0	0	1	0	0		A	105350360	A	A	105350360	3	1	49	1	0	0	0	0	1	0	0	0	8182	1058	37	1	1274	1	KIAA0284	14	105350360	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2633131	105350360	1999180	1056	37736											
JAG2	3714	broad.mit.edu	37	chr14	105622217	105622217	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagttctcgtcgcagcgcacGcggatctgcagctccaggtg	6	9	13	13	5	2	0	0	0	2	0	5	1	3	1	1	2	3	5	1	2	1	2	rs139004148		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:105622217G>A	uc001yqg.2	-	4	989	c.585C>T	c.(583-585)CGC>CGT	p.R195R	JAG2_uc001yqh.2_Silent_p.R195R	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	195	Extracellular (Potential).				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding			lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		CGCAGCGCACGCGGATCTGCA	0.622													5	16					0	0	1	0	0		A	105622217	A	A	105622217	2	1	49	1	0	0	0	0	0	0	0	1	7951	1074	38	1		1	JAG2	14	105622217	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	271857	105622217	1727323	1057	37737											
BRF1	2972	broad.mit.edu	37	chr14	105693007	105693007	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctctgcccagctgtgtaCgagggggggtcgcactcctc	4	10	13	14	2	1	0	0	0	1	0	5	1	3	0	3	3	3	3	3	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr14:105693007C>T	uc001yqp.2	-	8	1242	c.879G>A	c.(877-879)TCG>TCA	p.S293S	BRF1_uc010tyo.1_Silent_p.S178S|BRF1_uc010typ.1_Silent_p.S178S|BRF1_uc001yql.2_Silent_p.S89S|BRF1_uc001yqo.2_Silent_p.S55S|BRF1_uc010axg.1_Silent_p.S266S|BRF1_uc001yqn.2_RNA|BRF1_uc010axh.1_RNA|BRF1_uc010axj.1_RNA	NM_001519	NP_001510	Q92994	TF3B_HUMAN	transcription initiation factor IIIB isoform 1	293					positive regulation of transcription, DNA-dependent|rRNA transcription|transcription initiation from RNA polymerase III promoter|tRNA transcription	transcription factor TFIIIB complex	translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		all_cancers(154;0.0231)|all_epithelial(191;0.0694)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00753)|all cancers(16;0.00925)|Epithelial(46;0.0221)	Epithelial(152;0.14)		CAGCTGTGTACGAGGGGGGGT	0.582													29	75					0	0	1	0	0		T	105693007	T	T	105693007	2	4	49	1	0	0	0	0	0	0	0	1	1513	523	19	1		1	BRF1	14	105693007	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	70790	105693007	1656533	1058	37738											
CYFIP1	23191	broad.mit.edu	37	chr15	22928165	22928165	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggccaagaatatgctgtcAtgctgtacacctggaggagc	11	8	13	9	0	1	1	1	0	0	1	1	3	1	3	2	3	4	3	2	3	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:22928165A>G	uc001yus.2	+	4	348	c.244A>G	c.(244-246)ATG>GTG	p.M82V	CYFIP1_uc001yut.2_Missense_Mutation_p.M82V|CYFIP1_uc010aya.1_Missense_Mutation_p.M110V	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	82					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		ATATGCTGTCATGCTGTACAC	0.612													46	127					0	0	1	0	0		G	22928165	G	G	22928165	3	3	49	1	0	0	0	0	1	0	0	0	4140	217	8	3	254	3	CYFIP1	15	22928165	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08		22928165	79603227	1059	37739											
MAGEL2	54551	broad.mit.edu	37	chr15	23889660	23889660	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggtatcaatttctttcAattgataaccaaaggcacac	13	15	5	8	0	3	1	2	1	1	0	3	1	3	1	1	2	1	2	1	2	5	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:23889660A>G	uc001ywj.3	-	1	1516	c.1421T>C	c.(1420-1422)TTG>TCG	p.L474S		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		AATTTCTTTCAATTGATAACC	0.418													10	24					0	0	1	0	0		G	23889660	G	G	23889660	3	3	49	1	0	0	0	0	1	0	0	0	9207	131	5	3	523	3	MAGEL2	15	23889660	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	961495	23889660	78641732	1060	37740											
NDN	4692	broad.mit.edu	37	chr15	23932112	23932112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgggcccggctgggccgCgctcggggcctggtgggcgc	0	5	21	15	6	0	0	0	0	0	0	1	0	0	0	4	7	1	2	4	7	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:23932112C>T	uc001ywk.2	-	1	339	c.253G>A	c.(253-255)GCG>ACG	p.A85T		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	85					negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		GGCTGGGCCGCGCTCGGGGCC	0.741									Prader-Willi_syndrome				6	7					0	0	1	0	0		T	23932112	T	T	23932112	3	4	49	1	0	0	0	0	1	0	0	0	10266	768	27	1	716	1	NDN	15	23932112	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	42452	23932112	78599280	1061	37741											
ATP10A	57194	broad.mit.edu	37	chr15	25971230	25971230	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagccttggtttcatgtcCtgtcggggaggacaaagaga	10	9	14	8	1	1	2	1	0	0	2	3	5	2	4	2	4	1	1	2	4	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:25971230C>A	uc010ayu.2	-	5	954	c.848_splice	c.e5-1	p.G283_splice		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A						ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GTTTCATGTCCTGTCGGGGAG	0.572													4	55					0.150653	0.151361	1	1	0		A	25971230	A	A	25971230	5	1	49	1	0	0	0	0	0	0	1	0	1117	695	24	5	3720	5	ATP10A	15	25971230	Splice_Site	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2039118	25971230	76560162	1062	37742											
GABRA5	2558	broad.mit.edu	37	chr15	27160004	27160004	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggacttcccgatggatgcGcacgcttgccctctgaaatt	8	10	11	12	3	1	1	0	1	1	0	2	5	2	3	2	2	2	2	2	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:27160004G>A	uc001zbd.1	+	8	891	c.552G>A	c.(550-552)GCG>GCA	p.A184A	GABRB3_uc001zbb.2_Intron	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	184	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CGATGGATGCGCACGCTTGCC	0.438													3	50					0	0	1	0	0		A	27160004	A	A	27160004	2	1	49	1	0	0	0	0	0	0	0	1	6178	1074	38	1		1	GABRA5	15	27160004	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1188774	27160004	75371388	1063	37743											
HERC2	8924	broad.mit.edu	37	chr15	28514464	28514464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatcaggaaacgcttctctGcacaggcaatctgtgtgact	11	10	10	10	1	3	1	1	1	2	0	4	3	3	2	0	2	2	3	0	2	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:28514464G>A	uc001zbj.2	-	11	1482	c.1376C>T	c.(1375-1377)GCA>GTA	p.A459V	HERC2_uc001zbl.1_Missense_Mutation_p.A154V	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	459					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ACGCTTCTCTGCACAGGCAAT	0.522													10	37					0	0	1	0	0		A	28514464	A	A	28514464	3	1	49	1	0	0	0	0	1	0	0	0	7074	1319	46	2	13460	2	HERC2	15	28514464	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1354460	28514464	74016928	1064	37744											
TRPM1	4308	broad.mit.edu	37	chr15	31332410	31332410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgagcaatgaagtcccGgtgtttggctgccacggcca	7	9	15	10	2	0	2	0	2	0	0	1	2	1	2	3	4	2	3	3	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:31332410G>A	uc001zfm.2	-	17	2289	c.2161C>T	c.(2161-2163)CGG>TGG	p.R721W	TRPM1_uc010azy.2_Missense_Mutation_p.R628W|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	721	Cytoplasmic (Potential).		R -> Q (in CSNB1C).		cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		ATGAAGTCCCGGTGTTTGGCT	0.557													26	76					0	0	1	0	0		A	31332410	A	A	31332410	3	1	49	1	0	0	0	0	1	0	0	0	16611	1115	39	1	2694	1	TRPM1	15	31332410	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2817946	31332410	71198982	1065	37745											
RYR3	6263	broad.mit.edu	37	chr15	34123231	34123231	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgaatctggacagcacaAtttttccaaagctctggcag	12	11	9	9	0	2	2	0	2	2	0	3	3	3	3	1	2	2	3	1	2	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:34123231A>T	uc001zhi.2	+	86	11472	c.11402A>T	c.(11401-11403)AAT>ATT	p.N3801I	RYR3_uc010bar.2_Missense_Mutation_p.N3796I	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3801					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGACAGCACAATTTTTCCAAA	0.378													12	38					0	0	1	0	0		T	34123231	T	T	34123231	3	4	49	1	0	0	0	0	1	0	0	0	13795	101	4	5	11744	5	RYR3	15	34123231	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2790821	34123231	68408161	1066	37746											
AVEN	57099	broad.mit.edu	37	chr15	34168182	34168182	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcagcaaaccggaactGtgagaatgagtcccctagga	12	7	10	12	1	1	2	1	2	0	1	3	5	3	4	4	2	3	1	4	2	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:34168182G>A	uc001zhj.2	-	3	516	c.460C>T	c.(460-462)CAG>TAG	p.Q154*		NM_020371	NP_065104	Q9NQS1	AVEN_HUMAN	cell death regulator aven	154					anti-apoptosis|apoptosis	endomembrane system|intracellular|membrane|membrane fraction	protein binding			kidney(1)	1		all_lung(180;1.78e-08)		all cancers(64;1.66e-15)|GBM - Glioblastoma multiforme(113;1.42e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0359)		AACCGGAACTGTGAGAATGAG	0.408													16	35					0	0	1	0	0		A	34168182	A	A	34168182	4	1	49	1	0	0	0	0	0	1	0	0	1227	1386	48	4	644	4	AVEN	15	34168182	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	44951	34168182	68363210	1067	37747											
AVEN	57099	broad.mit.edu	37	chr15	34295366	34295366	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagaataatttccctgttcAtcattctcttctccataggt	9	18	4	10	0	4	1	2	0	2	1	7	1	5	1	2	1	0	1	2	1	4	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:34295366A>G	uc001zhj.2	-	2	368	c.312T>C	c.(310-312)GAT>GAC	p.D104D	CHRM5_uc001zhk.1_Intron	NM_020371	NP_065104	Q9NQS1	AVEN_HUMAN	cell death regulator aven	104					anti-apoptosis|apoptosis	endomembrane system|intracellular|membrane|membrane fraction	protein binding			kidney(1)	1		all_lung(180;1.78e-08)		all cancers(64;1.66e-15)|GBM - Glioblastoma multiforme(113;1.42e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0359)		TTCCCTGTTCATCATTCTCTT	0.383													12	23					0	0	1	0	0		G	34295366	G	G	34295366	2	3	49	1	0	0	0	0	0	0	0	1	1227	214	8	3		3	AVEN	15	34295366	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	127184	34295366	68236026	1068	37748											
ZNF770	54989	broad.mit.edu	37	chr15	35273567	35273567	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggttgcgacaatttacataAccgaatctaaggcaaccact	14	10	7	10	2	1	0	0	0	1	0	1	2	1	0	2	2	4	2	2	2	6	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:35273567A>G	uc001ziw.2	-	3	2380	c.2069T>C	c.(2068-2070)GTT>GCT	p.V690A		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	690					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		AATTTACATAACCGAATCTAA	0.383													4	19					0	0	1	0	0		G	35273567	G	G	35273567	3	3	49	1	0	0	0	0	1	0	0	0	18168	43	2	3	10	3	ZNF770	15	35273567	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	978201	35273567	67257825	1069	37749											
MEIS2	4212	broad.mit.edu	37	chr15	37388529	37388529	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtcctcgttgaaggagtcGgaggagcagacgtctccgcc	8	8	14	11	4	1	2	0	1	1	1	5	5	2	5	3	3	1	2	3	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:37388529G>A	uc001zjr.2	-	3	1385	c.348C>T	c.(346-348)TCC>TCT	p.S116S	MEIS2_uc001zjl.2_Silent_p.S103S|MEIS2_uc010ucj.1_Silent_p.S103S|MEIS2_uc001zjm.2_Silent_p.S28S|MEIS2_uc001zjn.2_Intron|MEIS2_uc001zjo.2_Silent_p.S116S|MEIS2_uc001zjp.2_Silent_p.S116S|MEIS2_uc001zjs.2_Silent_p.S116S|MEIS2_uc001zju.2_Silent_p.S103S|MEIS2_uc001zjt.2_Silent_p.S116S	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	116					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		TGAAGGAGTCGGAGGAGCAGA	0.602													5	24					0	0	1	0	0		A	37388529	A	A	37388529	2	1	49	1	0	0	0	0	0	0	0	1	9486	1103	39	1		1	MEIS2	15	37388529	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2114962	37388529	65142863	1070	37750											
MEIS2	4212	broad.mit.edu	37	chr15	37390178	37390178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagtttacccatagatcgCgtccttgtcccgcttcaagg	7	12	9	13	3	2	1	2	0	0	1	5	1	4	1	3	1	1	2	3	1	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:37390178C>T	uc001zjr.2	-	2	1272	c.235G>A	c.(235-237)GCG>ACG	p.A79T	MEIS2_uc001zjl.2_Missense_Mutation_p.A66T|MEIS2_uc010ucj.1_Missense_Mutation_p.A66T|MEIS2_uc001zjm.2_5'UTR|MEIS2_uc001zjn.2_5'UTR|MEIS2_uc001zjo.2_Missense_Mutation_p.A79T|MEIS2_uc001zjp.2_Missense_Mutation_p.A79T|MEIS2_uc001zjs.2_Missense_Mutation_p.A79T|MEIS2_uc001zju.2_Missense_Mutation_p.A66T|MEIS2_uc001zjt.2_Missense_Mutation_p.A79T	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	79					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		CCATAGATCGCGTCCTTGTCC	0.607													9	37					0	0	1	0	0		T	37390178	T	T	37390178	3	4	49	1	0	0	0	0	1	0	0	0	9486	768	27	1	1305	1	MEIS2	15	37390178	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1649	37390178	65141214	1071	37751											
THBS1	7057	broad.mit.edu	37	chr15	39881276	39881276	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatggcatccagtgcacaGatgttgatgaggtgaggaac	13	8	14	6	0	0	4	0	3	0	1	1	6	1	5	1	3	2	3	1	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:39881276G>T	uc001zkh.2	+	11	1941	c.1762G>T	c.(1762-1764)GAT>TAT	p.D588Y	THBS1_uc010bbi.2_Missense_Mutation_p.D60Y	NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	588	EGF-like 2; calcium-binding (Potential).				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	CCAGTGCACAGATGTTGATGA	0.517													30	73					5.91797e-21	6.49876e-21	1	1	0		T	39881276	T	T	39881276	3	4	49	1	0	0	0	0	1	0	0	0	15878	942	33	5	1800	5	THBS1	15	39881276	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2491098	39881276	62650116	1072	37752											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42126983	42126983	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctacctggacaaacccccaaCtccgctccacttctaccggg	9	7	6	19	2	1	0	0	0	1	0	3	1	3	1	6	2	4	1	6	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:42126983C>G	uc001zoo.3	+	2	150	c.110C>G	c.(109-111)ACT>AGT	p.T37S	JMJD7-PLA2G4B_uc010bcm.1_RNA|JMJD7-PLA2G4B_uc001zom.2_Intron|JMJD7-PLA2G4B_uc001zon.2_Missense_Mutation_p.T37S|JMJD7-PLA2G4B_uc010bcn.2_Missense_Mutation_p.T37S|JMJD7-PLA2G4B_uc001zop.1_5'UTR|JMJD7-PLA2G4B_uc001zoq.3_5'Flank	NM_005090	NP_005081	P0C869	PA24B_HUMAN	JMJD7-PLA2G4B protein	Error:Variant_position_missing_in_P0C869_after_alignment					arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						AAACCCCCAACTCCGCTCCAC	0.617													13	132					0	0	1	0	0		G	42126983	G	G	42126983	3	3	49	1	0	0	0	0	1	0	0	0	7971	565	20	5	116	5	JMJD7-PLA2G4B	15	42126983	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2245707	42126983	60404409	1073	37753											
CDAN1	146059	broad.mit.edu	37	chr15	43020419	43020419	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacggctgccggggtctcctCtggaagcagcgcccgcacag	6	6	14	15	4	2	0	0	0	2	0	3	1	2	1	3	4	4	3	3	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:43020419C>A	uc001zql.2	-	21	2968	c.2851G>T	c.(2851-2853)GAG>TAG	p.E951*	CDAN1_uc001zqj.2_RNA|CDAN1_uc001zqk.2_Nonsense_Mutation_p.E277*	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	951						integral to membrane	protein binding			ovary(2)	2		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		GGGGTCTCCTCTGGAAGCAGC	0.627													11	96					0.000978159	0.00100216	1	1	0		A	43020419	A	A	43020419	4	1	49	1	0	0	0	0	0	1	0	0	3057	922	32	5	864	5	CDAN1	15	43020419	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	893436	43020419	59510973	1074	37754											
TGM7	116179	broad.mit.edu	37	chr15	43585733	43585733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagaagggctggccgcggCgcacagtgagccgcttgacg	7	5	18	11	5	0	3	0	2	0	1	0	3	0	3	2	4	1	4	2	4	2	2	rs150218635	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:43585733C>T	uc001zrf.1	-	2	112	c.107G>A	c.(106-108)CGC>CAC	p.R36H		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	36					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	CTGGCCGCGGCGCACAGTGAG	0.617													61	48					0	0	1	0	0		T	43585733	T	T	43585733	3	4	49	1	0	0	0	0	1	0	0	0	15860	768	27	1	2073	1	TGM7	15	43585733	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	565314	43585733	58945659	1075	37755											
B2M	567	broad.mit.edu	37	chr15	45003812	45003812	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctggaggctatccagcGtgagtctctcctaccctccc	5	10	10	16	1	1	1	0	1	1	0	5	2	4	2	5	3	2	1	5	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:45003812G>A	uc001zuc.2	+	1	127	c.67_splice	c.e1+1	p.R23_splice	B2M_uc010uek.1_Splice_Site_p.R23_splice|B2M_uc010bdx.1_Splice_Site_p.R23_splice	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor						antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding			ovary(2)|skin(1)	3		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		GCTATCCAGCGTGAGTCTCTC	0.617													64	36					0	0	1	0	0		A	45003812	A	A	45003812	5	1	49	1	0	0	0	0	0	0	1	0	1245	1159	40	1	70	1	B2M	15	45003812	Splice_Site	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1418079	45003812	57527580	1076	37756											
DUOX2	50506	broad.mit.edu	37	chr15	45392026	45392026	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctggccgccgtgcctcgTgacaggatgatgcccacgag	7	6	14	14	5	0	2	0	2	0	0	1	4	0	3	4	2	2	1	4	2	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:45392026T>C	uc010bea.2	-	25	3452	c.3249A>G	c.(3247-3249)TCA>TCG	p.S1083S	DUOX2_uc001zun.2_Silent_p.S1083S	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1083	Interaction with TXNDC11 (By similarity).|Helical; (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		CCGTGCCTCGTGACAGGATGA	0.572													9	62					0	0	1	0	0		C	45392026	C	C	45392026	2	2	49	1	0	0	0	0	0	0	0	1	4807	1683	59	3		3	DUOX2	15	45392026	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	388214	45392026	57139366	1077	37757											
SLC30A4	7782	broad.mit.edu	37	chr15	45814242	45814243	+	Frame_Shift_Ins	INS	-	TC	TC																															cacctttctctgcttcagtaINStctctctctgtttgctgcag																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:45814242_45814243insTC	uc001zvj.2	-	2	622_623	c.310_311insGA	c.(310-312)ATAfs	p.I104fs	C15orf21_uc010beg.1_Intron|C15orf21_uc010beh.1_Intron|C15orf21_uc010bei.1_Intron|C15orf21_uc010bej.1_Intron|C15orf21_uc001zvm.1_Intron|C15orf21_uc001zvn.1_Intron	NM_013309	NP_037441	O14863	ZNT4_HUMAN	solute carrier family 30 (zinc transporter),	104	Cytoplasmic (Potential).				regulation of sequestering of zinc ion|response to toxin	endosome membrane|integral to membrane|late endosome	zinc ion transmembrane transporter activity				0		Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.58e-16)|GBM - Glioblastoma multiforme(94;2.15e-06)		CTGCTTCAGTATCTCTCTCTGT	0.475													69	67	---	---	---	---						.	TC	45814243	TC	TC	45814242	7	5	49	1	0	1	1	0	0	0	0	0	14582	449	16	0	1006	0	SLC30A4	15	45814242	Frame_Shift_Ins	INS	-	TCGA-BR-7707-01A-11D-2053-08	422216	45814242	56717150	1078	37758											
GLDN	342035	broad.mit.edu	37	chr15	51692688	51692688	+	Frame_Shift_Del	DEL	T	-	-																															cggatttgggtgacagagcaTttttcaggtacttgcactcg																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:51692688delT	uc002aba.2	+	8	1189	c.1020delT	c.(1018-1020)CATfs	p.H340fs	GLDN_uc002abb.2_Frame_Shift_Del_p.H216fs	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	340	Extracellular (Potential).|Olfactomedin-like.				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		TGACAGAGCATTTTTCAGGTA	0.448													206	149	---	---	---	---						.	-	51692688	-	-	51692688	7	5	49	1	0	1	0	1	0	0	0	0	6449	1490	52	0	1050	0	GLDN	15	51692688	Frame_Shift_Del	DEL	T	TCGA-BR-7707-01A-11D-2053-08	5878446	51692688	50838704	1079	37759											
DMXL2	23312	broad.mit.edu	37	chr15	51773773	51773773	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcaaaggatgagttcgaaGgtagttataaaaactaaatg	18	9	11	3	1	0	1	0	1	0	0	1	4	0	2	0	2	2	4	0	2	9	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:51773773G>T	uc002abf.2	-	24	5755	c.5530C>A	c.(5530-5532)CTT>ATT	p.L1844I	DMXL2_uc002abd.2_5'UTR|DMXL2_uc010ufy.1_Missense_Mutation_p.L1844I|DMXL2_uc010bfa.2_Missense_Mutation_p.L1208I	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	1844						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		TGAGTTCGAAGGTAGTTATAA	0.348													28	24					6.38683e-12	6.9248e-12	1	1	0		T	51773773	T	T	51773773	3	4	49	1	0	0	0	0	1	0	0	0	4601	1000	35	5	3663	5	DMXL2	15	51773773	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	81085	51773773	50757619	1080	37760											
KIAA1370	56204	broad.mit.edu	37	chr15	52897418	52897418	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaattatgttttcgccacAcatttgaatgtttcagtgta	12	16	7	6	1	1	1	1	1	0	0	2	2	1	1	1	0	0	3	1	0	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:52897418A>G	uc002acg.3	-	7	2525	c.2372T>C	c.(2371-2373)GTG>GCG	p.V791A	KIAA1370_uc002ach.3_RNA|KIAA1370_uc010bfg.1_Missense_Mutation_p.V703A|KIAA1370_uc010ugf.1_Missense_Mutation_p.V798A	NM_019600	NP_062546	Q32MH5	K1370_HUMAN	hypothetical protein LOC56204	791											0				all cancers(107;0.0803)		TTTTCGCCACACATTTGAATG	0.333													15	135					0	0	1	0	0		G	52897418	G	G	52897418	3	3	49	1	0	0	0	0	1	0	0	0	8242	159	6	3	886	3	KIAA1370	15	52897418	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1123645	52897418	49633974	1081	37761											
WDR72	256764	broad.mit.edu	37	chr15	53994441	53994441	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagatcacacatgagtccaGgtccccagacaacatccaac	15	5	6	15	0	1	3	1	1	0	2	4	3	4	3	4	1	2	0	4	1	3	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:53994441G>T	uc002acj.2	-	12	1501	c.1459C>A	c.(1459-1461)CTG>ATG	p.L487M	WDR72_uc010bfi.1_Missense_Mutation_p.L487M	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	487	WD 6.							p.L487L(1)		lung(1)|skin(1)	2				all cancers(107;0.0511)		CATGAGTCCAGGTCCCCAGAC	0.398													12	139					0.010729	0.0108751	1	1	0		T	53994441	T	T	53994441	3	4	49	1	0	0	0	0	1	0	0	0	17348	991	35	5	1885	5	WDR72	15	53994441	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1097023	53994441	48536951	1082	37762											
ZNF280D	54816	broad.mit.edu	37	chr15	56959098	56959098	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttagtccttggaggtgaGagctgaagggtagaagcact	10	12	14	5	0	0	3	0	2	0	2	1	5	1	4	1	3	2	3	1	3	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:56959098G>T	uc002adu.2	-	15	1849	c.1632C>A	c.(1630-1632)CTC>CTA	p.L544L	ZNF280D_uc002adv.2_Silent_p.L531L|ZNF280D_uc010bfq.2_Silent_p.L544L|ZNF280D_uc002adw.1_Silent_p.L572L|ZNF280D_uc010bfr.1_RNA|ZNF280D_uc010bfp.2_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	544				L -> P (in Ref. 3; BAA90940).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		TTGGAGGTGAGAGCTGAAGGG	0.383													3	34					0.115264	0.116009	1	1	0		T	56959098	T	T	56959098	2	4	49	1	0	0	0	0	0	0	0	1	17842	929	33	5		5	ZNF280D	15	56959098	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2964657	56959098	45572294	1083	37763											
HERC1	8925	broad.mit.edu	37	chr15	63953190	63953190	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttcatacacactgtcttGcttgccaattagatctggag	10	13	7	11	0	3	1	1	0	2	1	3	2	3	2	2	1	3	1	2	1	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:63953190G>A	uc002amp.2	-	46	9353	c.9205C>T	c.(9205-9207)CAA>TAA	p.Q3069*		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	3069					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						ACACTGTCTTGCTTGCCAATT	0.338													4	68					0	0	1	0	0		A	63953190	A	A	63953190	4	1	49	1	0	0	0	0	0	1	0	0	7073	1328	46	2	5512	2	HERC1	15	63953190	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	6994092	63953190	38578202	1084	37764											
RBPMS2	348093	broad.mit.edu	37	chr15	65040633	65040633	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttacctgagcgtggagggcGgcggcagcggcagtggcagt	6	6	19	10	4	0	1	0	1	0	0	0	2	0	2	1	6	3	3	1	6	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:65040633G>A	uc002anq.2	-	6	804	c.552C>T	c.(550-552)GCC>GCT	p.A184A		NM_194272	NP_919248	Q6ZRY4	RBPS2_HUMAN	RNA binding protein with multiple splicing 2	184							nucleic acid binding|nucleotide binding				0						CGTGGAGGGCGGCGGCAGCGG	0.637													7	60					0	0	1	0	0		A	65040633	A	A	65040633	2	1	49	1	0	0	0	0	0	0	0	1	13189	1103	39	1		1	RBPMS2	15	65040633	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1087443	65040633	37490759	1085	37765											
IGDCC4	57722	broad.mit.edu	37	chr15	65678319	65678319	+	Frame_Shift_Del	DEL	G	-	-																															tcatgggcagctggggggctGggggggccaagccgagctct																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:65678319delG	uc002aou.1	-	18	3240	c.3030delC	c.(3028-3030)CCCfs	p.P1010fs	IGDCC4_uc002aot.1_Frame_Shift_Del_p.P598fs	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	1010	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						CTGGGGGGCTGGGGGGGCCAA	0.662											OREG0023195	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	16	---	---	---	---						.	-	65678319	-	-	65678319	7	5	49	1	0	1	0	1	0	0	0	0	7585	1335	47	0	734	0	IGDCC4	15	65678319	Frame_Shift_Del	DEL	G	TCGA-BR-7707-01A-11D-2053-08	637686	65678319	36853073	1086	37766											
DENND4A	10260	broad.mit.edu	37	chr15	66030118	66030119	+	Frame_Shift_Ins	INS	-	A	A																															agaaacttcctgaatgcatcINSaaaaaaaggccagtgagaaa																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:66030118_66030119insA	uc002aph.2	-	7	1344_1345	c.966_967insT	c.(964-969)TTTGATfs	p.F322fs	DENND4A_uc002api.2_Frame_Shift_Ins_p.F322fs|DENND4A_uc002apj.3_Frame_Shift_Ins_p.F322fs|DENND4A_uc010ujj.1_Frame_Shift_Ins_p.F322fs	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	322_323	DENN.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CTGAATGCATCAAAAAAAGGCC	0.381													9	8	---	---	---	---						.	A	66030119	A	A	66030118	7	5	49	1	0	1	1	0	0	0	0	0	4439	826	29	0	4861	0	DENND4A	15	66030118	Frame_Shift_Ins	INS	-	TCGA-BR-7707-01A-11D-2053-08	351799	66030118	36501274	1087	37767											
UACA	55075	broad.mit.edu	37	chr15	70960242	70960242	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctcatctttgcctcgtgCtctgccaggctgatgtactc	5	13	10	13	1	3	1	1	1	2	0	5	2	3	1	2	1	5	4	2	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:70960242C>T	uc002asr.2	-	16	2885	c.2781G>A	c.(2779-2781)GAG>GAA	p.E927E	UACA_uc010uke.1_Silent_p.E818E|UACA_uc002asq.2_Silent_p.E914E|UACA_uc010bin.1_Silent_p.E902E	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	927	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						TTGCCTCGTGCTCTGCCAGGC	0.388													10	61					0	0	1	0	0		T	70960242	T	T	70960242	2	4	49	1	0	0	0	0	0	0	0	1	16850	796	28	2		2	UACA	15	70960242	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4930124	70960242	31571150	1088	37768											
PKM2	5315	broad.mit.edu	37	chr15	72502688	72502688	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctccgcagaatactcacGcccttgatgagcccagttcg	8	9	9	15	3	2	3	1	2	1	1	4	3	2	3	3	0	2	3	3	0	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:72502688G>A	uc002atx.1	-	4	619	c.378C>T	c.(376-378)GGC>GGT	p.G126G	PKM2_uc002att.1_5'Flank|PKM2_uc002atu.1_5'Flank|PKM2_uc010bit.1_Silent_p.G131G|PKM2_uc010uki.1_Silent_p.G200G|PKM2_uc002atv.1_Silent_p.G161G|PKM2_uc002atw.1_Silent_p.G126G|PKM2_uc002aty.1_Silent_p.G126G|PKM2_uc010ukj.1_Silent_p.G111G|PKM2_uc010ukk.1_Intron|PKM2_uc010biu.1_Silent_p.G147G|PKM2_uc002atz.1_RNA	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	126					glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	GAATACTCACGCCCTTGATGA	0.557													14	224					0	0	1	0	0		A	72502688	A	A	72502688	2	1	49	1	0	0	0	0	0	0	0	1	11996	1101	38	1		1	PKM2	15	72502688	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1542446	72502688	30028704	1089	37769											
ISLR2	57611	broad.mit.edu	37	chr15	74425583	74425583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccggctgcgtacgctggCgcctggcaccttcgacgcgc	5	6	13	17	7	0	0	0	0	0	0	1	1	0	0	3	3	3	4	3	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:74425583C>T	uc002axd.2	+	4	1257	c.488C>T	c.(487-489)GCG>GTG	p.A163V	ISLR2_uc002axe.2_Missense_Mutation_p.A163V|ISLR2_uc010bjg.2_Missense_Mutation_p.A163V|ISLR2_uc010bjf.2_Missense_Mutation_p.A163V	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	163	Extracellular (Potential).|LRR 5.				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CGTACGCTGGCGCCTGGCACC	0.652													5	65					0	0	1	0	0		T	74425583	T	T	74425583	3	4	49	1	0	0	0	0	1	0	0	0	7875	768	27	1	490	1	ISLR2	15	74425583	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1922895	74425583	28105809	1090	37770											
LMAN1L	79748	broad.mit.edu	37	chr15	75117889	75117889	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgggtcctgcaccacacacCcccagggccctggggattct	6	7	11	17	0	1	0	0	0	1	0	2	1	2	1	5	4	1	1	5	4	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:75117889C>A	uc002ayt.1	+	14	1526	c.1524C>A	c.(1522-1524)ACC>ACA	p.T508T	LMAN1L_uc010bke.1_Silent_p.T496T|CPLX3_uc002ayu.1_5'Flank	NM_021819	NP_068591	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like precursor	508	Cytoplasmic (Potential).					ER-Golgi intermediate compartment membrane|integral to membrane	sugar binding				0						CACCACACACCCCCAGGGCCC	0.612													86	53					1.99054e-24	2.19151e-24	1	1	0		A	75117889	A	A	75117889	2	1	49	1	0	0	0	0	0	0	0	1	8854	610	22	5		5	LMAN1L	15	75117889	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	692306	75117889	27413503	1091	37771											
PTPN9	5780	broad.mit.edu	37	chr15	75763086	75763086	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctccacgcctagattggTcactgtgaggaagccaaatc	10	10	10	11	1	2	2	1	1	1	1	4	3	2	3	3	2	1	1	3	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:75763086T>C	uc002bal.2	-	11	1802	c.1294A>G	c.(1294-1296)ACC>GCC	p.T432A		NM_002833	NP_002824	P43378	PTN9_HUMAN	protein tyrosine phosphatase, non-receptor type	432	Tyrosine-protein phosphatase.					cytoplasmic part	non-membrane spanning protein tyrosine phosphatase activity|protein binding			lung(1)|skin(1)	2						CCTAGATTGGTCACTGTGAGG	0.438													12	107					0	0	1	0	0		C	75763086	C	C	75763086	3	2	49	1	0	0	0	0	1	0	0	0	12819	1667	58	3	499	3	PTPN9	15	75763086	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	645197	75763086	26768306	1092	37772											
SNUPN	10073	broad.mit.edu	37	chr15	75890977	75890977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaccaagggagtgcttcCggggctgtagtgggtctgtt	5	10	16	10	1	1	0	0	0	1	0	2	1	2	1	3	4	1	4	3	4	2	3	rs138384328	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:75890977C>T	uc002ban.2	-	9	895	c.805G>A	c.(805-807)GGA>AGA	p.G269R	SNUPN_uc002bao.2_Missense_Mutation_p.G269R|SNUPN_uc002bap.2_Missense_Mutation_p.G311R|SNUPN_uc002baq.2_Missense_Mutation_p.G269R|SNUPN_uc002bar.2_Missense_Mutation_p.G269R|SNUPN_uc002bas.2_Missense_Mutation_p.G269R	NM_005701	NP_005692	O95149	SPN1_HUMAN	snurportin 1	269	Necessary for binding to the m3G-cap structure.				ncRNA metabolic process|protein import into nucleus|spliceosomal snRNP assembly	cytosol|nuclear pore	protein transporter activity|RNA cap binding			pancreas(1)	1						GGAGTGCTTCCGGGGCTGTAG	0.552													14	203					0	0	1	0	0		T	75890977	T	T	75890977	3	4	49	1	0	0	0	0	1	0	0	0	14902	661	23	1	281	1	SNUPN	15	75890977	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	127891	75890977	26640415	1093	37773											
MORF4L1	10933	broad.mit.edu	37	chr15	79170560	79170560	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctccctttacaggtgagCgagtgctgtgctttcatggg	5	15	12	9	1	2	1	1	1	1	0	3	2	2	1	1	2	4	2	1	2	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:79170560C>T	uc002bel.2	+	2	234	c.46C>T	c.(46-48)CGA>TGA	p.R16*	MORF4L1_uc010bli.1_Nonsense_Mutation_p.R16*|MORF4L1_uc010blj.1_Nonsense_Mutation_p.R16*|MORF4L1_uc002bem.2_Nonsense_Mutation_p.R16*|MORF4L1_uc010une.1_5'UTR	NM_206839	NP_996670	Q9UBU8	MO4L1_HUMAN	MORF-related gene 15 isoform 2	16					double-strand break repair via homologous recombination|histone deacetylation|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|Sin3 complex	protein N-terminus binding				0						TACAGGTGAGCGAGTGCTGTG	0.358													37	16					0	0	1	0	0		T	79170560	T	T	79170560	4	4	49	1	0	0	0	0	0	1	0	0	9724	760	27	1	52	1	MORF4L1	15	79170560	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3279583	79170560	23360832	1094	37774											
WHAMM	123720	broad.mit.edu	37	chr15	83481903	83481903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatggtagcattaatgaacGtttaccaagaggaagatgaa	16	9	10	6	1	0	4	0	2	0	2	0	5	0	5	2	2	3	3	2	2	7	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:83481903G>A	uc002bje.2	+	2	1164	c.658G>A	c.(658-660)GTT>ATT	p.V220I		NM_001080435	NP_001073904	Q8TF30	WHAMM_HUMAN	WAS protein homolog associated with actin, golgi	220						cytoplasmic vesicle membrane|ER-Golgi intermediate compartment|Golgi apparatus	actin binding				0						ATTAATGAACGTTTACCAAGA	0.408													11	7					0	0	1	0	0		A	83481903	A	A	83481903	3	1	49	1	0	0	0	0	1	0	0	0	17387	1145	40	1	664	1	WHAMM	15	83481903	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4311343	83481903	19049489	1095	37775											
PDE8A	5151	broad.mit.edu	37	chr15	85634368	85634368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcctataaatgaaaaaaagGctgacttgctcgatactata	16	11	7	7	1	0	2	0	2	0	0	1	3	0	2	1	1	3	2	1	1	9	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:85634368G>A	uc002blh.2	+	8	997	c.808G>A	c.(808-810)GCT>ACT	p.A270T	PDE8A_uc002bli.2_Intron|PDE8A_uc010bnc.2_Missense_Mutation_p.A23T|PDE8A_uc010bnd.2_Missense_Mutation_p.A23T|PDE8A_uc002blj.2_Intron|PDE8A_uc002blk.2_Intron	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	270	PAS.				cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			TGAAAAAAAGGCTGACTTGCT	0.393													9	33					0	0	1	0	0		A	85634368	A	A	85634368	3	1	49	1	0	0	0	0	1	0	0	0	11672	1203	42	2	838	2	PDE8A	15	85634368	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2152465	85634368	16897024	1096	37776											
AGBL1	123624	broad.mit.edu	37	chr15	86813174	86813174	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtatgacttgctggtcaaCgcagatgtgaatagcaccca	12	9	11	9	1	1	3	1	2	0	1	1	4	1	3	1	1	3	4	1	1	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:86813174C>T	uc002blz.1	+	13	1805	c.1725C>T	c.(1723-1725)AAC>AAT	p.N575N	AGBL1_uc002bma.1_Silent_p.N306N|AGBL1_uc002bmb.1_Silent_p.N269N	NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	575					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						TGCTGGTCAACGCAGATGTGA	0.473													7	34					0	0	1	0	0		T	86813174	T	T	86813174	2	4	49	1	0	0	0	0	0	0	0	1	375	535	19	1		1	AGBL1	15	86813174	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1178806	86813174	15718218	1097	37777											
SV2B	9899	broad.mit.edu	37	chr15	91835608	91835608	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttttacagagcaacagcCttcggcattctcaatggatt	10	13	7	11	1	2	1	1	0	2	1	4	2	2	2	1	2	4	2	1	2	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:91835608C>A	uc002bqv.2	+	12	2269	c.1878C>A	c.(1876-1878)GCC>GCA	p.A626A	SV2B_uc010uqv.1_Silent_p.A475A|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	626	Cytoplasmic (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			GAGCAACAGCCTTCGGCATTC	0.443													56	25					3.28615e-30	3.62961e-30	1	1	0		A	91835608	A	A	91835608	2	1	49	1	0	0	0	0	0	0	0	1	15443	668	24	5		5	SV2B	15	91835608	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5022434	91835608	10695784	1098	37778											
PCSK6	5046	broad.mit.edu	37	chr15	101971538	101971538	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttacataatttggggccAggtcagggtgatttctctct	8	14	11	8	0	3	1	1	1	2	0	4	2	3	1	1	4	1	0	1	4	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr15:101971538A>G	uc002bwy.2	-	5	958	c.644T>C	c.(643-645)CTG>CCG	p.L215P	PCSK6_uc010bpd.2_Missense_Mutation_p.L85P|PCSK6_uc010bpe.2_Missense_Mutation_p.L215P|PCSK6_uc002bxa.2_Missense_Mutation_p.L215P|PCSK6_uc002bxb.2_Missense_Mutation_p.L215P|PCSK6_uc002bxc.1_Missense_Mutation_p.L215P|PCSK6_uc002bxd.1_Missense_Mutation_p.L215P|PCSK6_uc002bxe.2_Missense_Mutation_p.L215P|PCSK6_uc002bxg.1_Missense_Mutation_p.L215P	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	215	Catalytic.				glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			ATTTGGGGCCAGGTCAGGGTG	0.448													5	47					0	0	1	0	0		G	101971538	G	G	101971538	3	3	49	1	0	0	0	0	1	0	0	0	11623	188	7	3	2820	3	PCSK6	15	101971538	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	10135930	101971538	559854	1099	37779											
LUC7L	55692	broad.mit.edu	37	chr16	258086	258086	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaagcatacctttgcagaAacttccgcactgatttcctc	10	11	5	15	1	0	2	0	1	0	1	3	2	2	2	4	0	4	3	4	0	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:258086A>G	uc002cgc.1	-	4	468	c.357T>C	c.(355-357)GTT>GTC	p.V119V	LUC7L_uc002cga.1_Silent_p.V119V|LUC7L_uc002cgd.1_RNA|LUC7L_uc002cge.1_Silent_p.V119V|LUC7L_uc002cgb.1_Silent_p.V33V	NM_201412	NP_958815	Q9NQ29	LUC7L_HUMAN	LUC7-like isoform b	119	Potential.						metal ion binding			central_nervous_system(1)	1		all_cancers(16;1.1e-06)|all_epithelial(16;2.71e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.0138)|all_lung(18;0.0306)				CCTTTGCAGAAACTTCCGCAC	0.403													5	68					0	0	1	0	0		G	258086	G	G	258086	2	3	49	1	0	0	0	0	0	0	0	1	9100	1	1	3		3	LUC7L	16	258086	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08		258086	90096667	1100	37780											
RAB40C	57799	broad.mit.edu	37	chr16	676075	676075	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcacggagctatcccgcatCgtgctcatgcggcacggcat	7	9	11	14	5	2	0	2	0	0	0	4	1	3	1	1	3	3	5	1	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:676075C>T	uc002chr.2	+	5	635	c.519C>T	c.(517-519)ATC>ATT	p.I173I	RAB40C_uc002chq.2_Silent_p.I154I	NM_021168	NP_066991	Q96S21	RB40C_HUMAN	RAB40C, member RAS oncogene family	173					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0		Hepatocellular(780;0.0218)				TATCCCGCATCGTGCTCATGC	0.642													9	89					0	0	1	0	0		T	676075	T	T	676075	2	4	49	1	0	0	0	0	0	0	0	1	12967	874	31	1		1	RAB40C	16	676075	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	417989	676075	89678678	1101	37781											
WDR90	197335	broad.mit.edu	37	chr16	702537	702537	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccacggcaccagacaggTgaggctcctgcggctgtgtc	6	6	16	13	2	0	2	0	1	0	1	2	2	1	2	3	5	1	3	3	5	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:702537T>C	uc002cii.1	+	10	1176	c.1122_splice	c.e10+2	p.Q374_splice	WDR90_uc002cig.1_Splice_Site_p.Q374_splice|WDR90_uc002cih.1_Splice_Site_p.Q375_splice|WDR90_uc002cij.1_Splice_Site|WDR90_uc002cik.1_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90											ovary(1)	1		Hepatocellular(780;0.0218)				ACCAGACAGGTGAGGCTCCTG	0.622													17	30					0	0	1	0	0		C	702537	C	C	702537	5	2	49	1	0	0	0	0	0	0	1	0	17363	1710	59	3	1162	3	WDR90	16	702537	Splice_Site	SNP	T	TCGA-BR-7707-01A-11D-2053-08	26462	702537	89652216	1102	37782											
WDR90	197335	broad.mit.edu	37	chr16	715686	715686	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcttcccccaggtgaacgAggtggtcttcagccccgggg	5	7	15	14	3	2	1	1	1	1	0	3	2	3	1	4	6	2	1	4	6	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:715686A>G	uc002cii.1	+	35	4373	c.4319A>G	c.(4318-4320)GAG>GGG	p.E1440G	WDR90_uc002cij.1_Intron|WDR90_uc002cil.1_RNA|WDR90_uc002cin.1_Missense_Mutation_p.E55G|WDR90_uc010uul.1_Missense_Mutation_p.E39G|WDR90_uc002cio.1_Missense_Mutation_p.E39G|WDR90_uc010bqx.1_Missense_Mutation_p.E39G|RHOT2_uc010uum.1_5'Flank|RHOT2_uc002cip.2_5'Flank|RHOT2_uc002ciq.2_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	1440	WD 17.									ovary(1)	1		Hepatocellular(780;0.0218)				CAGGTGAACGAGGTGGTCTTC	0.652													4	83					0	0	1	0	0		G	715686	G	G	715686	3	3	49	1	0	0	0	0	1	0	0	0	17363	304	11	3	4457	3	WDR90	16	715686	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	13149	715686	89639067	1103	37783											
RHOT2	89941	broad.mit.edu	37	chr16	721704	721704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctccctgcaggatccacGtgccccccggctgcagcacg	5	5	12	19	3	0	0	0	0	0	0	2	1	2	1	6	3	4	4	6	3	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:721704G>A	uc002cip.2	+	12	944	c.877G>A	c.(877-879)GTG>ATG	p.V293M	RHOT2_uc002ciq.2_Missense_Mutation_p.V186M|RHOT2_uc010bqy.2_Missense_Mutation_p.V72M	NM_138769	NP_620124	Q8IXI1	MIRO2_HUMAN	ras homolog gene family, member T2	293	Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			pancreas(1)	1		Hepatocellular(780;0.0218)				CAGGATCCACGTGCCCCCCGG	0.617													4	120					0	0	1	0	0		A	721704	A	A	721704	3	1	49	1	0	0	0	0	1	0	0	0	13369	1145	40	1	923	1	RHOT2	16	721704	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	6018	721704	89633049	1104	37784											
SSTR5	6755	broad.mit.edu	37	chr16	1129314	1129314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacccgctgagctcggcccGctggcgccgcccgcgtgtgg	2	5	16	18	7	0	1	0	1	0	0	1	1	0	1	4	3	1	4	4	3	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:1129314G>A	uc002ckq.2	+	1	534	c.446G>A	c.(445-447)CGC>CAC	p.R149H	LOC146336_uc002cko.2_5'Flank|LOC146336_uc002ckp.1_5'Flank	NM_001053	NP_001044	P35346	SSR5_HUMAN	somatostatin receptor 5	149	Cytoplasmic (Potential).				negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			lung(1)	1		Hepatocellular(780;0.00369)			Octreotide(DB00104)	AGCTCGGCCCGCTGGCGCCGC	0.682													5	13					0	0	1	0	0		A	1129314	A	A	1129314	3	1	49	1	0	0	0	0	1	0	0	0	15226	1087	38	1	448	1	SSTR5	16	1129314	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	407610	1129314	89225439	1105	37785											
IFT140	9742	broad.mit.edu	37	chr16	1652450	1652450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtgtgtcaggggcatcGtgtgctgctccttgtcctgc	2	14	14	11	1	1	0	1	0	0	0	4	0	3	0	2	2	3	3	2	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:1652450G>A	uc002cmb.2	-	4	652	c.290C>T	c.(289-291)ACG>ATG	p.T97M		NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	97	WD 2.									ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				CAGGGGCATCGTGTGCTGCTC	0.617													18	47					0	0	1	0	0		A	1652450	A	A	1652450	3	1	49	1	0	0	0	0	1	0	0	0	7572	1145	40	1	4210	1	IFT140	16	1652450	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	523136	1652450	88702303	1106	37786											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1818284	1818284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgacagcagtgacagggCggccagcagcttcatcccct	9	6	12	14	2	1	2	1	2	0	0	2	3	2	2	3	2	3	3	3	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:1818284C>T	uc002cmk.2	+	30	3764	c.3644C>T	c.(3643-3645)GCG>GTG	p.A1215V	MAPK8IP3_uc002cml.2_Missense_Mutation_p.A1209V|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.A1216V	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	1215					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						AGTGACAGGGCGGCCAGCAGC	0.632													40	124					0	0	1	0	0		T	1818284	T	T	1818284	3	4	49	1	0	0	0	0	1	0	0	0	9304	768	27	1	3778	1	MAPK8IP3	16	1818284	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	165834	1818284	88536469	1107	37787											
ZNF598	90850	broad.mit.edu	37	chr16	2052681	2052681	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcggggtcaccctgcatgCgatgccgggccaggtccttg	5	8	14	14	3	1	0	1	0	0	0	3	1	2	0	4	4	3	1	4	4	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:2052681C>A	uc002cof.1	-	6	533	c.518G>T	c.(517-519)CGC>CTC	p.R173L	ZNF598_uc002coe.1_5'Flank	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	173						intracellular	zinc ion binding			lung(1)|breast(1)	2						ACCCTGCATGCGATGCCGGGC	0.617													3	16					0.115264	0.116009	1	1	0		A	2052681	A	A	2052681	3	1	49	1	0	0	0	0	1	0	0	0	18053	768	27	5	2232	5	ZNF598	16	2052681	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	234397	2052681	88302072	1108	37788											
SRRM2	23524	broad.mit.edu	37	chr16	2812472	2812472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggagaagtggcaggtcacGctctagaaccccagctagac	12	5	12	12	1	2	3	1	0	1	3	2	4	2	3	2	3	2	3	2	3	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:2812472G>A	uc002crk.2	+	11	2492	c.1943G>A	c.(1942-1944)CGC>CAC	p.R648H	SRRM2_uc002crj.1_Missense_Mutation_p.R552H|SRRM2_uc002crl.1_Missense_Mutation_p.R648H|SRRM2_uc010bsu.1_Missense_Mutation_p.R552H	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	648	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GGCAGGTCACGCTCTAGAACC	0.607													15	99					0	0	1	0	0		A	2812472	A	A	2812472	3	1	49	1	0	0	0	0	1	0	0	0	15194	1087	38	1	1981	1	SRRM2	16	2812472	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	759791	2812472	87542281	1109	37789											
SRRM2	23524	broad.mit.edu	37	chr16	2813634	2813634	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgccctggatccctctctctCtgtgcaggagtaaaatctag	8	12	9	12	0	3	0	0	0	3	0	6	2	4	2	2	2	2	2	2	2	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:2813634C>G	uc002crk.2	+	11	3654	c.3105C>G	c.(3103-3105)CTC>CTG	p.L1035L	SRRM2_uc002crj.1_Silent_p.L939L|SRRM2_uc002crl.1_Silent_p.L1035L|SRRM2_uc010bsu.1_Silent_p.L939L	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1035	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCCTCTCTCTCTGTGCAGGAG	0.478													11	94					0	0	1	0	0		G	2813634	G	G	2813634	2	3	49	1	0	0	0	0	0	0	0	1	15194	900	32	5		5	SRRM2	16	2813634	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1162	2813634	87541119	1110	37790											
CLDN6	9074	broad.mit.edu	37	chr16	3065718	3065718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccacacaggtggtacacttgGccccagcaaggtagaccagc	11	5	11	14	0	0	1	0	0	0	1	0	1	0	1	4	4	3	3	4	4	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:3065718G>A	uc002csu.3	-	2	365	c.305C>T	c.(304-306)GCC>GTC	p.A102V		NM_021195	NP_067018	P56747	CLD6_HUMAN	claudin 6	102	Helical; (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						GGTACACTTGGCCCCAGCAAG	0.612													5	33					0	0	1	0	0		A	3065718	A	A	3065718	3	1	49	1	0	0	0	0	1	0	0	0	3492	1203	42	2	361	2	CLDN6	16	3065718	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	252084	3065718	87289035	1111	37791											
ZNF597	146434	broad.mit.edu	37	chr16	3487176	3487176	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctcctgaatgaattttctGatgcaaaactaggtatgaat	13	14	7	7	0	2	4	0	4	2	0	3	4	2	4	1	1	2	2	1	1	7	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:3487176G>A	uc002cvd.2	-	4	707	c.523C>T	c.(523-525)CAG>TAG	p.Q175*		NM_152457	NP_689670	Q96LX8	ZN597_HUMAN	zinc finger protein 597	175	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGAATTTTCTGATGCAAAACT	0.403													44	122					0	0	1	0	0		A	3487176	A	A	3487176	4	1	49	1	0	0	0	0	0	1	0	0	18052	1299	45	4	755	4	ZNF597	16	3487176	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	421458	3487176	86867577	1112	37792											
BTBD12	84464	broad.mit.edu	37	chr16	3639789	3639789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgagtcaccgcctgcaCggccagcccgctcctgaggc	5	6	13	17	3	1	2	1	2	0	0	2	2	2	2	5	2	3	3	5	2	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:3639789C>T	uc002cvp.2	-	12	4477	c.3850G>A	c.(3850-3852)GTG>ATG	p.V1284M		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1284	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						ACCGCCTGCACGGCCAGCCCG	0.632								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				5	75					0	0	1	0	0		T	3639789	T	T	3639789	3	4	49	1	0	0	0	0	1	0	0	0	1543	536	19	1	1670	1	BTBD12	16	3639789	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	152613	3639789	86714964	1113	37793											
DNASE1	1773	broad.mit.edu	37	chr16	3705926	3705926	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgtggggaagctgctggAcaacctcaatcagtgggtga	9	8	15	9	1	2	1	2	1	0	0	2	3	2	3	2	4	4	2	2	4	3	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:3705926A>G	uc002cvr.2	+	3	2331	c.224A>G	c.(223-225)GAC>GGC	p.D75G		NM_005223	NP_005214	P24855	DNAS1_HUMAN	deoxyribonuclease I precursor	75					apoptosis|DNA catabolic process	extracellular region|nuclear envelope	actin binding|deoxyribonuclease I activity				0		Ovarian(90;0.0261)		Kidney(780;0.0556)	Dornase Alfa(DB00003)	AAGCTGCTGGACAACCTCAAT	0.627								Direct_reversal_of_damage					8	73					0	0	1	0	0		G	3705926	G	G	3705926	3	3	49	1	0	0	0	0	1	0	0	0	4666	275	10	3	230	3	DNASE1	16	3705926	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	66137	3705926	86648827	1114	37794											
ADCY9	115	broad.mit.edu	37	chr16	4164856	4164856	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccgcgtcctgagacaggCgtcaagacctggaactgcgc	8	6	13	14	5	1	2	1	1	0	2	3	4	2	3	3	2	2	0	3	2	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:4164856C>T	uc002cvx.2	-	2	1127	c.588G>A	c.(586-588)ACG>ACA	p.T196T		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	196	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						CTGAGACAGGCGTCAAGACCT	0.617													4	55					0	0	1	0	0		T	4164856	T	T	4164856	2	4	49	1	0	0	0	0	0	0	0	1	301	755	27	1		1	ADCY9	16	4164856	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	458930	4164856	86189897	1115	37795											
GLYR1	84656	broad.mit.edu	37	chr16	4871450	4871450	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggatggaggtggagccaGtttcctacggacaggaagca	10	7	15	9	1	0	0	0	0	0	0	1	5	1	5	3	6	3	2	3	6	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:4871450G>T	uc002cxx.3	-	9	774	c.737C>A	c.(736-738)ACT>AAT	p.T246N	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Missense_Mutation_p.T160N|GLYR1_uc002cya.2_Missense_Mutation_p.T246N|GLYR1_uc010uxv.1_Missense_Mutation_p.T165N	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	246					pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						GGTGGAGCCAGTTTCCTACGG	0.522													3	41					0.004672	0.00475816	1	1	0		T	4871450	T	T	4871450	3	4	49	1	0	0	0	0	1	0	0	0	6498	1029	36	5	956	5	GLYR1	16	4871450	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	706594	4871450	85483303	1116	37796											
NAGPA	51172	broad.mit.edu	37	chr16	5083687	5083687	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgggggaggcgcgcgcgCgcgcgtggatagggcagtag	5	4	21	11	8	0	0	0	0	0	0	1	2	1	2	1	5	0	2	1	5	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:5083687C>T	uc002cyg.2	-	2	150	c.129G>A	c.(127-129)GCG>GCA	p.A43A	ALG1_uc002cyj.2_5'Flank|NAGPA_uc002cyf.2_5'UTR|NAGPA_uc002cyh.2_RNA|NAGPA_uc002cyi.2_5'UTR|NAGPA_uc010uxx.1_Silent_p.A43A	NM_016256	NP_057340	Q9UK23	NAGPA_HUMAN	N-acetylglucosamine-1-phosphodiester	43	Lumenal (Potential).				carbohydrate metabolic process|lysosome organization|protein modification process|protein targeting to lysosome	Golgi cisterna membrane|integral to membrane	N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase activity				0					N-Acetyl-D-glucosamine(DB00141)	GGCGCGCGCGCGCGCGTGGAT	0.761													5	12					0	0	1	0	0		T	5083687	T	T	5083687	2	4	49	1	0	0	0	0	0	0	0	1	10162	755	27	1		1	NAGPA	16	5083687	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	212237	5083687	85271066	1117	37797											
ALG1	56052	broad.mit.edu	37	chr16	5130946	5130946	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgctcttctctgtgaaGgcaaagggcctctgagggag	7	11	14	9	0	4	2	0	2	4	0	5	3	4	3	1	3	1	2	1	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:5130946G>A	uc002cym.2	+	10	1003	c.962_splice	c.e10-1	p.G321_splice	ALG1_uc002cyj.2_Splice_Site_p.G210_splice|ALG1_uc002cyn.2_Splice_Site_p.G321_splice|ALG1_uc010bue.2_Splice_Site_p.G210_splice|ALG1_uc010uxy.1_Splice_Site_p.G210_splice	NM_019109	NP_061982	Q9BT22	ALG1_HUMAN	beta-1,4-mannosyltransferase						dolichol-linked oligosaccharide biosynthetic process|lipopolysaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	chitobiosyldiphosphodolichol beta-mannosyltransferase activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(90;0.0164)				TCTCTGTGAAGGCAAAGGGCC	0.612													21	62					0	0	1	0	0		A	5130946	A	A	5130946	5	1	49	1	0	0	0	0	0	0	1	0	510	1014	35	4	999	4	ALG1	16	5130946	Splice_Site	SNP	G	TCGA-BR-7707-01A-11D-2053-08	47259	5130946	85223807	1118	37798											
TMEM186	25880	broad.mit.edu	37	chr16	8889867	8889867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacgctctctgtccaggatgCgtccatagcgcagggtgacg	8	8	13	12	4	1	1	0	1	1	0	4	2	3	2	2	2	3	2	2	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:8889867C>T	uc002cze.2	-	2	618	c.584G>A	c.(583-585)CGC>CAC	p.R195H	PMM2_uc002czf.3_5'Flank|PMM2_uc010uyf.1_5'Flank|PMM2_uc010uyg.1_5'Flank|PMM2_uc010uyh.1_5'Flank|PMM2_uc010buj.2_5'Flank|PMM2_uc010uyi.1_5'Flank|PMM2_uc010uye.1_5'Flank	NM_015421	NP_056236	Q96B77	TM186_HUMAN	transmembrane protein 186	195						integral to membrane|mitochondrion				ovary(1)	1						GTCCAGGATGCGTCCATAGCG	0.557													36	104					0	0	1	0	0		T	8889867	T	T	8889867	3	4	49	1	0	0	0	0	1	0	0	0	16133	768	27	1	61	1	TMEM186	16	8889867	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3758921	8889867	81464886	1119	37799											
TMEM186	25880	broad.mit.edu	37	chr16	8890042	8890042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacccgcagcatggtgcCagactcattcagatacagga	11	6	11	13	1	2	2	2	0	0	2	2	3	2	3	3	3	3	2	3	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:8890042C>T	uc002cze.2	-	2	443	c.409G>A	c.(409-411)GGC>AGC	p.G137S	PMM2_uc002czf.3_5'Flank|PMM2_uc010uyf.1_5'Flank|PMM2_uc010uyg.1_5'Flank|PMM2_uc010uyh.1_5'Flank|PMM2_uc010buj.2_5'Flank|PMM2_uc010uyi.1_5'Flank|PMM2_uc010uye.1_5'Flank	NM_015421	NP_056236	Q96B77	TM186_HUMAN	transmembrane protein 186	137						integral to membrane|mitochondrion				ovary(1)	1						AGCATGGTGCCAGACTCATTC	0.552													5	89					0	0	1	0	0		T	8890042	T	T	8890042	3	4	49	1	0	0	0	0	1	0	0	0	16133	594	21	4	236	4	TMEM186	16	8890042	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	175	8890042	81464711	1120	37800											
USP7	7874	broad.mit.edu	37	chr16	8988952	8988952	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctttgtggaaatgcgccActgtgacaagcatctcattc	9	12	8	12	1	2	1	1	1	2	0	4	2	2	2	2	1	2	1	2	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:8988952A>G	uc002czl.2	-	28	3174	c.2975T>C	c.(2974-2976)GTG>GCG	p.V992A	USP7_uc010uyk.1_Missense_Mutation_p.V893A|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.V893A|USP7_uc002czk.2_Missense_Mutation_p.V976A	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	992					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						GAAATGCGCCACTGTGACAAG	0.502													6	309					0	0	1	0	0		G	8988952	G	G	8988952	3	3	49	1	0	0	0	0	1	0	0	0	17114	159	6	3	349	3	USP7	16	8988952	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	98910	8988952	81365801	1121	37801											
ATF7IP2	80063	broad.mit.edu	37	chr16	10525021	10525021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggtgttgttcagatgccaGagtctacagtaaccagtacc	10	11	11	9	0	2	2	1	0	1	2	2	2	2	2	3	1	4	4	3	1	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:10525021G>A	uc002czu.2	+	3	771	c.544G>A	c.(544-546)GAG>AAG	p.E182K	ATF7IP2_uc002czv.2_Missense_Mutation_p.E182K|ATF7IP2_uc010uyo.1_RNA|ATF7IP2_uc010uyp.1_Intron|ATF7IP2_uc002czw.2_Missense_Mutation_p.E182K|ATF7IP2_uc010uyq.1_RNA	NM_024997	NP_079273	Q5U623	MCAF2_HUMAN	activating transcription factor 7 interacting	182					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						TCAGATGCCAGAGTCTACAGT	0.428													4	105					0	0	1	0	0		A	10525021	A	A	10525021	3	1	49	1	0	0	0	0	1	0	0	0	1089	943	33	4	546	4	ATF7IP2	16	10525021	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1536069	10525021	79829732	1122	37802											
CIITA	4261	broad.mit.edu	37	chr16	11000842	11000842	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaccgcgttctgctcatccTagacggcttcgaggagctgg	6	10	13	12	4	2	2	1	1	1	1	4	4	3	3	2	3	2	4	2	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:11000842T>C	uc002dai.3	+	11	1626	c.1493T>C	c.(1492-1494)CTA>CCA	p.L498P	CIITA_uc002daj.3_Missense_Mutation_p.L499P|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Missense_Mutation_p.L498P|CIITA_uc002dah.2_Missense_Mutation_p.L450P|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	498	NACHT.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						CTGCTCATCCTAGACGGCTTC	0.657			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								8	123					0	0	1	0	0		C	11000842	C	C	11000842	3	2	49	1	0	0	0	0	1	0	0	0	3431	1522	53	3	1535	3	CIITA	16	11000842	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	475821	11000842	79353911	1123	37803											
CIITA	4261	broad.mit.edu	37	chr16	11000938	11000938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccctccgggggctgctggCcggccttttccagaagaagc	5	8	13	15	2	0	2	0	0	0	2	3	2	3	2	5	4	2	2	5	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:11000938C>T	uc002dai.3	+	11	1722	c.1589C>T	c.(1588-1590)GCC>GTC	p.A530V	CIITA_uc002daj.3_Missense_Mutation_p.A531V|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Missense_Mutation_p.A530V|CIITA_uc002dah.2_Missense_Mutation_p.A482V|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	530	NACHT.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						GGGCTGCTGGCCGGCCTTTTC	0.692			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								4	33					0	0	1	0	0		T	11000938	T	T	11000938	3	4	49	1	0	0	0	0	1	0	0	0	3431	739	26	2	1631	2	CIITA	16	11000938	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	96	11000938	79353815	1124	37804											
CIITA	4261	broad.mit.edu	37	chr16	11016335	11016335	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcggaggtgtcctcatgTggagacgctggcgtaagtcc	6	10	14	11	3	1	1	1	0	0	1	4	3	3	2	3	4	0	2	3	4	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:11016335T>C	uc002dai.3	+	18	3438	c.3305T>C	c.(3304-3306)GTG>GCG	p.V1102A	CIITA_uc002daj.3_Missense_Mutation_p.V1103A|CIITA_uc002dak.3_Missense_Mutation_p.V518A	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	1102					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						TGTCCTCATGTGGAGACGCTG	0.562			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								4	32					0	0	1	0	0		C	11016335	C	C	11016335	3	2	49	1	0	0	0	0	1	0	0	0	3431	1696	59	3	3375	3	CIITA	16	11016335	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	15397	11016335	79338418	1125	37805											
CLEC16A	23274	broad.mit.edu	37	chr16	11118742	11118742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgattaccatgccctgttcGtgctctgcctcctctatgcc	5	14	7	15	1	2	1	0	1	2	0	4	1	3	1	5	0	5	2	5	0	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:11118742G>A	uc002dao.2	+	13	1731	c.1501G>A	c.(1501-1503)GTG>ATG	p.V501M	CLEC16A_uc002dan.3_Missense_Mutation_p.V483M	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	501								p.0?(1)		ovary(1)|central_nervous_system(1)	2						TGCCCTGTTCGTGCTCTGCCT	0.547													3	12					0	0	1	0	0		A	11118742	A	A	11118742	3	1	49	1	0	0	0	0	1	0	0	0	3503	1145	40	1	1547	1	CLEC16A	16	11118742	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	102407	11118742	79236011	1126	37806											
TXNDC11	51061	broad.mit.edu	37	chr16	11773600	11773600	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagttagccacattctggggGctggaagcagggtctgagtg	8	9	17	7	0	2	1	0	1	2	0	2	3	2	2	1	4	2	3	1	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:11773600G>A	uc010buu.1	-	13	2471	c.2409C>T	c.(2407-2409)AGC>AGT	p.S803S	TXNDC11_uc002dbg.1_Silent_p.S776S	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	803					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						CATTCTGGGGGCTGGAAGCAG	0.527													20	62					0	0	1	0	0		A	11773600	A	A	11773600	2	1	49	1	0	0	0	0	0	0	0	1	16818	1194	42	2		2	TXNDC11	16	11773600	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	654858	11773600	78581153	1127	37807											
ZC3H7A	29066	broad.mit.edu	37	chr16	11873209	11873209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagatttctcacgagagcaCgcaaatatacctaaaaaaaa	21	7	5	8	2	1	2	1	0	1	2	2	3	1	2	1	0	2	2	1	0	8	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:11873209C>T	uc002dbk.2	-	3	317	c.119G>A	c.(118-120)CGT>CAT	p.R40H	ZC3H7A_uc002dbl.2_Missense_Mutation_p.R40H|ZC3H7A_uc002dbm.1_Missense_Mutation_p.R40H	NM_014153	NP_054872	Q8IWR0	Z3H7A_HUMAN	zinc finger CCCH-type containing 7A	40						nucleus	nucleic acid binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						CACGAGAGCACGCAAATATAC	0.333													9	35					0	0	1	0	0		T	11873209	T	T	11873209	3	4	49	1	0	0	0	0	1	0	0	0	17597	536	19	1	2876	1	ZC3H7A	16	11873209	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	99609	11873209	78481544	1128	37808											
MKL2	57496	broad.mit.edu	37	chr16	14334332	14334332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaccagaccatcctgcctgCaccattcaagtacggcgggg	9	7	10	15	2	1	1	1	0	0	1	2	1	2	1	5	3	4	2	5	3	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:14334332C>T	uc010uza.1	+	10	1225	c.1070C>T	c.(1069-1071)GCA>GTA	p.A357V	MKL2_uc002dcg.2_Missense_Mutation_p.A357V|MKL2_uc002dch.2_Missense_Mutation_p.A346V|MKL2_uc010uzb.1_Missense_Mutation_p.A306V	NM_014048	NP_054767	Q9ULH7	MKL2_HUMAN	megakaryoblastic leukemia 2 protein	346					cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5						ATCCTGCCTGCACCATTCAAG	0.502													12	138					0	0	1	0	0		T	14334332	T	T	14334332	3	4	49	1	0	0	0	0	1	0	0	0	9620	710	25	2	1100	2	MKL2	16	14334332	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2461123	14334332	76020421	1129	37809											
BFAR	51283	broad.mit.edu	37	chr16	14742310	14742310	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagacattcagcagaataAtgacatagtccaaagtcttg	16	10	8	7	0	2	4	1	2	1	2	3	4	3	4	1	0	1	1	1	0	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:14742310A>G	uc002dco.2	+	3	610	c.329A>G	c.(328-330)AAT>AGT	p.N110S	BFAR_uc002dcm.2_Missense_Mutation_p.N110S|BFAR_uc002dcn.2_Intron|BFAR_uc002dcp.2_Intron|BFAR_uc010uzh.1_Intron	NM_016561	NP_057645	Q9NZS9	BFAR_HUMAN	bifunctional apoptosis regulator	110	Cytoplasmic (Potential).				anti-apoptosis|apoptosis	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	structural molecule activity|zinc ion binding			ovary(1)|skin(1)	2						CAGCAGAATAATGACATAGTC	0.403													23	133					0	0	1	0	0		G	14742310	G	G	14742310	3	3	49	1	0	0	0	0	1	0	0	0	1415	101	4	3	335	3	BFAR	16	14742310	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	407978	14742310	75612443	1130	37810											
NTAN1	123803	broad.mit.edu	37	chr16	15133905	15133905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggatgctctgtaaatctctGcagtcttaatgttgacagct	10	14	9	8	0	3	1	0	1	3	0	4	2	3	2	0	1	3	5	0	1	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:15133905G>A	uc002ddd.2	-	8	565	c.560C>T	c.(559-561)GCA>GTA	p.A187V	PDXDC1_uc002ddc.2_Intron|NTAN1_uc010uzo.1_Missense_Mutation_p.A82V	NM_173474	NP_775745	Q96AB6	NTAN1_HUMAN	N-terminal Asn amidase	187						cytoplasm					0						GTAAATCTCTGCAGTCTTAAT	0.473													9	141					0	0	1	0	0		A	15133905	A	A	15133905	3	1	49	1	0	0	0	0	1	0	0	0	10714	1319	46	2	384	2	NTAN1	16	15133905	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	391595	15133905	75220848	1131	37811											
ABCC1	4363	broad.mit.edu	37	chr16	16108453	16108453	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgtgtgccctagccatcCtgagatccaaaattatgaca	12	11	8	10	0	0	2	0	2	0	1	2	3	2	2	4	0	2	0	4	0	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:16108453C>A	uc010bvi.2	+	4	632	c.457C>A	c.(457-459)CTG>ATG	p.L153M	ABCC1_uc010bvj.2_Missense_Mutation_p.L153M|ABCC1_uc010bvk.2_Missense_Mutation_p.L153M|ABCC1_uc010bvl.2_Missense_Mutation_p.L153M|ABCC1_uc010bvm.2_Missense_Mutation_p.L153M|ABCC1_uc002del.3_Missense_Mutation_p.L37M|ABCC1_uc010bvn.2_Missense_Mutation_p.L16M	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	153	Helical; Name=4.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	CCTAGCCATCCTGAGATCCAA	0.512													24	76					4.22769e-11	4.56644e-11	1	1	0		A	16108453	A	A	16108453	3	1	49	1	0	0	0	0	1	0	0	0	49	680	24	5	471	5	ABCC1	16	16108453	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	974548	16108453	74246300	1132	37812											
ARL6IP1	23204	broad.mit.edu	37	chr16	18806789	18806789	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaagcaaaaaaagtaccatCttaggtttttcttcctttag	14	14	5	8	0	2	0	0	0	2	0	3	0	3	0	2	1	2	3	2	1	7	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:18806789C>T	uc002dfl.1	-	4	474	c.405G>A	c.(403-405)AAG>AAA	p.K135K	ARL6IP1_uc010van.1_Silent_p.K106K|ARL6IP1_uc010bvz.1_Intron	NM_015161	NP_055976	Q15041	AR6P1_HUMAN	ADP-ribosylation factor-like 6 interacting	135	Helical; (Potential).					integral to membrane	protein binding				0						AAAGTACCATCTTAGGTTTTT	0.338													6	51					0	0	1	0	0		T	18806789	T	T	18806789	2	4	49	1	0	0	0	0	0	0	0	1	943	912	32	4		4	ARL6IP1	16	18806789	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2698336	18806789	71547964	1133	37813											
TMC5	79838	broad.mit.edu	37	chr16	19483534	19483534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccatagcctgctgtgcagCcgtttattacctggctgagt	6	12	12	11	1	0	1	0	1	0	0	0	1	0	1	4	2	5	4	4	2	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:19483534C>T	uc002dgc.3	+	11	2656	c.1907C>T	c.(1906-1908)GCC>GTC	p.A636V	TMC5_uc010vaq.1_Intron|TMC5_uc002dgb.3_Missense_Mutation_p.A636V|TMC5_uc010var.1_Missense_Mutation_p.A636V|TMC5_uc002dgd.1_Missense_Mutation_p.A390V|TMC5_uc002dge.3_Missense_Mutation_p.A390V|TMC5_uc002dgf.3_Missense_Mutation_p.A319V|TMC5_uc002dgg.3_Missense_Mutation_p.A277V	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	636	Helical; (Potential).					integral to membrane				skin(1)	1						TGCTGTGCAGCCGTTTATTAC	0.542													23	49					0	0	1	0	0		T	19483534	T	T	19483534	3	4	49	1	0	0	0	0	1	0	0	0	16013	739	26	2	2255	2	TMC5	16	19483534	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	676745	19483534	70871219	1134	37814											
IQCK	124152	broad.mit.edu	37	chr16	19745102	19745102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatttcaccatgatctcacGtacaccctgtcctcaagata	11	11	4	15	1	3	2	3	1	1	1	5	2	4	2	4	0	1	1	4	0	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:19745102G>A	uc002dgr.2	+	4	1028	c.329G>A	c.(328-330)CGT>CAT	p.R110H	IQCK_uc002dgs.2_RNA|IQCK_uc010vat.1_Missense_Mutation_p.R110H|IQCK_uc010bwc.2_RNA|IQCK_uc010vau.1_Missense_Mutation_p.R22H	NM_153208	NP_694940	Q8N0W5	IQCK_HUMAN	IQ motif containing K	110										skin(1)	1						ATGATCTCACGTACACCCTGT	0.438													31	72					0	0	1	0	0		A	19745102	A	A	19745102	3	1	49	1	0	0	0	0	1	0	0	0	7829	1145	40	1	339	1	IQCK	16	19745102	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	261568	19745102	70609651	1135	37815											
DNAH3	55567	broad.mit.edu	37	chr16	20966217	20966217	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttttgccacatcaccgcCtttgcacagctttggaagaa	10	12	7	12	1	2	1	1	0	1	1	2	2	2	2	3	1	3	2	3	1	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:20966217C>A	uc010vbe.1	-	55	10989	c.10989G>T	c.(10987-10989)AAG>AAT	p.K3663N	DNAH3_uc010vbd.1_Missense_Mutation_p.K1098N	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3663	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ACATCACCGCCTTTGCACAGC	0.517													5	154					0.00198382	0.00202401	1	1	0		A	20966217	A	A	20966217	3	1	49	1	0	0	0	0	1	0	0	0	4609	680	24	5	1392	5	DNAH3	16	20966217	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1221115	20966217	69388536	1136	37816											
USP31	57478	broad.mit.edu	37	chr16	23080573	23080573	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctgcgggtgtccgattcGtctttgaacacgccttccat	7	13	9	12	4	2	1	0	1	2	0	5	2	4	1	3	1	2	0	3	1	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:23080573G>A	uc002dll.2	-	16	2853	c.2853C>T	c.(2851-2853)GAC>GAT	p.D951D	USP31_uc002dlk.2_Silent_p.D223D|USP31_uc010vca.1_Silent_p.D254D|USP31_uc010bxm.2_Silent_p.D239D	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	951	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		TGTCCGATTCGTCTTTGAACA	0.557													36	114					0	0	1	0	0		A	23080573	A	A	23080573	2	1	49	1	0	0	0	0	0	0	0	1	17088	1136	40	1		1	USP31	16	23080573	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2114356	23080573	67274180	1137	37817											
USP31	57478	broad.mit.edu	37	chr16	23080800	23080800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgggatggagaattggagcGcatctgcagcttagcagaca	11	8	14	8	2	1	2	0	0	1	2	2	5	1	4	0	3	4	4	0	3	2	2	rs149268440		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:23080800G>A	uc002dll.2	-	16	2626	c.2626C>T	c.(2626-2628)CGC>TGC	p.R876C	USP31_uc002dlk.2_Missense_Mutation_p.R148C|USP31_uc010vca.1_Missense_Mutation_p.R179C|USP31_uc010bxm.2_Missense_Mutation_p.R164C	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	876	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		GAATTGGAGCGCATCTGCAGC	0.517													5	48					0	0	1	0	0		A	23080800	A	A	23080800	3	1	49	1	0	0	0	0	1	0	0	0	17088	1087	38	1	1436	1	USP31	16	23080800	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	227	23080800	67273953	1138	37818											
ARHGAP17	55114	broad.mit.edu	37	chr16	24950745	24950745	+	Frame_Shift_Del	DEL	C	-	-																															cggaagaggggacagtcccaCccccagagctgctttcagcc																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:24950745delC	uc002dnb.2	-	17	1757	c.1664delG	c.(1663-1665)GGTfs	p.G555fs	ARHGAP17_uc002dmy.2_5'Flank|ARHGAP17_uc002dmz.2_Frame_Shift_Del_p.G79fs|ARHGAP17_uc002dna.2_Frame_Shift_Del_p.G282fs|ARHGAP17_uc002dnc.2_Intron|ARHGAP17_uc010vcf.1_Intron	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	555	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		GACAGTCCCACCCCCAGAGCT	0.687													14	16	---	---	---	---						.	-	24950745	-	-	24950745	7	5	49	1	0	1	0	1	0	0	0	0	867	507	18	0	997	0	ARHGAP17	16	24950745	Frame_Shift_Del	DEL	C	TCGA-BR-7707-01A-11D-2053-08	1869945	24950745	65404008	1139	37819											
IL21R	50615	broad.mit.edu	37	chr16	27441381	27441381	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacgtctcttgcaggcccGtgggagtcagcatgccgcgt	5	10	14	12	4	2	0	1	0	1	0	3	1	2	1	2	2	4	3	2	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:27441381G>A	uc002doq.1	+	2	222	c.-11G>A	c.(-13--9)CCGTG>CCATG		IL21R_uc002dor.1_Translation_Start_Site|IL21R_uc002dos.1_Translation_Start_Site	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor						natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						TTGCAGGCCCGTGGGAGTCAG	0.706			T	BCL6	NHL								4	19					0	0	1	0	0		A	27441381	A	A	27441381	1	1	49	1	0	0	0	0	0	0	0	0	7687	1160	40	1		1	IL21R	16	27441381	Translation_Start_Site	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2490636	27441381	62913372	1140	37820											
GTF3C1	2975	broad.mit.edu	37	chr16	27481581	27481581	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgaaaaggccaccatgtcGtttgtgggctcgttattatc	9	13	11	8	2	0	1	0	1	0	0	3	1	0	1	2	2	0	3	2	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:27481581G>A	uc002dov.1	-	31	4702	c.4662C>T	c.(4660-4662)AAC>AAT	p.N1554N	GTF3C1_uc002dou.2_Silent_p.N1554N	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1554						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CCACCATGTCGTTTGTGGGCT	0.542													31	73					0	0	1	0	0		A	27481581	A	A	27481581	2	1	49	1	0	0	0	0	0	0	0	1	6888	1136	40	1		1	GTF3C1	16	27481581	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	40200	27481581	62873172	1141	37821											
GSG1L	146395	broad.mit.edu	37	chr16	27895882	27895882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgctggagtggaagagctCgagacacatgaggctgaagc	12	7	15	7	1	0	4	0	2	0	2	1	7	0	6	0	3	3	3	0	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:27895882C>T	uc002doz.2	-	3	560	c.475G>A	c.(475-477)GAG>AAG	p.E159K	GSG1L_uc010bya.1_Intron|GSG1L_uc010bxz.1_Missense_Mutation_p.E4K|GSG1L_uc002doy.2_Missense_Mutation_p.E4K	NM_001109763	NP_001103233	Q6UXU4	GSG1L_HUMAN	GSG1-like isoform 1	159						integral to membrane				ovary(1)	1						TGGAAGAGCTCGAGACACATG	0.592													5	23					0	0	1	0	0		T	27895882	T	T	27895882	3	4	49	1	0	0	0	0	1	0	0	0	6837	893	31	1	540	1	GSG1L	16	27895882	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	414301	27895882	62458871	1142	37822											
SPN	6693	broad.mit.edu	37	chr16	29675600	29675600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacttccaaaggcacctctgGaccccctgttaccatggcaa	10	8	8	15	0	1	0	0	0	1	0	2	2	2	1	5	3	1	3	5	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:29675600G>A	uc002dtm.2	+	2	687	c.551G>A	c.(550-552)GGA>GAA	p.G184E	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SPN_uc002dtn.2_Missense_Mutation_p.G184E|SPN_uc010bzd.2_RNA	NM_001030288	NP_001025459	P16150	LEUK_HUMAN	sialophorin precursor	184	Extracellular (Potential).				blood coagulation|cellular defense response|chemotaxis|defense response to bacterium|establishment or maintenance of cell polarity|immune response|leukocyte migration|negative regulation of cell adhesion|positive regulation of tumor necrosis factor biosynthetic process	extracellular space|integral to plasma membrane	bacterial cell surface binding|transmembrane receptor activity			central_nervous_system(2)	2						GGCACCTCTGGACCCCCTGTT	0.597													20	156					0	0	1	0	0		A	29675600	A	A	29675600	3	1	49	1	0	0	0	0	1	0	0	0	15098	1174	41	4	553	4	SPN	16	29675600	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1779718	29675600	60679153	1143	37823											
TAOK2	9344	broad.mit.edu	37	chr16	29996880	29996880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcggacctacaaacttcGcaaggaacagctgaaggagg	15	4	13	9	2	0	1	0	1	0	0	1	5	0	4	1	4	5	2	1	4	6	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:29996880G>A	uc002dva.1	+	14	2552	c.1769G>A	c.(1768-1770)CGC>CAC	p.R590H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Missense_Mutation_p.R590H|TAOK2_uc002dvc.1_Missense_Mutation_p.R590H|TAOK2_uc010bzm.1_Missense_Mutation_p.R597H|TAOK2_uc002dvd.1_Missense_Mutation_p.R417H	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	590	Potential.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						TACAAACTTCGCAAGGAACAG	0.642													15	35					0	0	1	0	0		A	29996880	A	A	29996880	3	1	49	1	0	0	0	0	1	0	0	0	15573	1087	38	1	1819	1	TAOK2	16	29996880	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	321280	29996880	60357873	1144	37824											
ITGAL	3683	broad.mit.edu	37	chr16	30532882	30532882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtcccgaatggaatccctGcagaagactctgagcagctg	10	8	12	11	1	1	3	0	1	1	2	3	5	3	4	2	1	3	3	2	1	3	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:30532882G>A	uc002dyi.3	+	31	3585	c.3409G>A	c.(3409-3411)GCA>ACA	p.A1137T	ITGAL_uc002dyj.3_Missense_Mutation_p.A1053T|ITGAL_uc010vev.1_Missense_Mutation_p.A371T	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	1137	Cytoplasmic (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	TGGAATCCCTGCAGAAGACTC	0.542													21	60					0	0	1	0	0		A	30532882	A	A	30532882	3	1	49	1	0	0	0	0	1	0	0	0	7902	1319	46	2	3531	2	ITGAL	16	30532882	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	536002	30532882	59821871	1145	37825											
ARMC5	79798	broad.mit.edu	37	chr16	31473646	31473646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgaccttagccctcgtcCgtgccctcctggaactcagc	6	9	8	18	2	1	1	1	1	0	0	4	2	3	2	5	1	4	0	5	1	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:31473646C>T	uc002ecc.2	+	3	1307	c.778C>T	c.(778-780)CGT>TGT	p.R260C	ARMC5_uc010vfn.1_Missense_Mutation_p.R355C|ARMC5_uc010vfo.1_Missense_Mutation_p.R292C|ARMC5_uc002eca.3_Missense_Mutation_p.R260C|ARMC5_uc010vfp.1_Intron|ARMC5_uc002ecb.2_Missense_Mutation_p.R260C	NM_001105247	NP_001098717	Q96C12	ARMC5_HUMAN	armadillo repeat containing 5 isoform a	260	ARM 3.						binding			pancreas(1)	1						AGCCCTCGTCCGTGCCCTCCT	0.687													11	29					0	0	1	0	0		T	31473646	T	T	31473646	3	4	49	1	0	0	0	0	1	0	0	0	955	652	23	1	788	1	ARMC5	16	31473646	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	940764	31473646	58881107	1146	37826											
ARMC5	79798	broad.mit.edu	37	chr16	31477726	31477726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccgcctcccctttcttccGggccctgctgtcaggcagct	3	10	9	19	2	2	0	1	0	1	0	4	0	4	0	6	2	2	3	6	2	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:31477726G>A	uc002ecc.2	+	6	2853	c.2324G>A	c.(2323-2325)CGG>CAG	p.R775Q	ARMC5_uc010vfn.1_Missense_Mutation_p.R870Q|ARMC5_uc010vfo.1_Missense_Mutation_p.R807Q|ARMC5_uc002eca.3_3'UTR|ARMC5_uc010vfp.1_Missense_Mutation_p.R583Q|ARMC5_uc002ecb.2_3'UTR	NM_001105247	NP_001098717	Q96C12	ARMC5_HUMAN	armadillo repeat containing 5 isoform a	775	BTB.						binding			pancreas(1)	1						CCTTTCTTCCGGGCCCTGCTG	0.667													4	14					0	0	1	0	0		A	31477726	A	A	31477726	3	1	49	1	0	0	0	0	1	0	0	0	955	1116	39	1	2660	1	ARMC5	16	31477726	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4080	31477726	58877027	1147	37827											
ABCC12	94160	broad.mit.edu	37	chr16	48139203	48139203	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatgtctgccagcaccgcGccgacctcacacatggtcct	7	7	9	18	4	2	0	1	0	1	0	3	2	3	0	6	1	2	1	6	1	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:48139203G>A	uc002efc.1	-	19	2866	c.2520C>T	c.(2518-2520)GGC>GGT	p.G840G	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	840	ABC transmembrane type-1 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CCAGCACCGCGCCGACCTCAC	0.527													9	15					0	0	1	0	0		A	48139203	A	A	48139203	2	1	49	1	0	0	0	0	0	0	0	1	52	1074	38	1		1	ABCC12	16	48139203	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	16661477	48139203	42215550	1148	37828											
HEATR3	55027	broad.mit.edu	37	chr16	50106523	50106523	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttcaatttagtgaatgcAgtagtagagcagtgtctata	12	13	9	7	0	2	2	1	1	1	1	2	2	2	2	1	0	2	4	1	0	7	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:50106523A>C	uc002efw.2	+	5	682	c.520A>C	c.(520-522)AGT>CGT	p.S174R	HEATR3_uc002efx.2_Missense_Mutation_p.S88R	NM_182922	NP_891552	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3	174							binding			ovary(1)|skin(1)	2						TAGTGAATGCAGTAGTAGAGC	0.338													24	51					0	0	1	0	0		C	50106523	C	C	50106523	3	2	49	1	0	0	0	0	1	0	0	0	7045	188	7	5	538	5	HEATR3	16	50106523	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1967320	50106523	40248230	1149	37829											
RBL2	5934	broad.mit.edu	37	chr16	53524153	53524153	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaaagaatttgcccagaaAatcattctgccttattacgc	15	11	5	10	1	2	2	1	0	1	2	2	2	2	2	2	0	3	0	2	0	7	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:53524153A>C	uc002ehi.3	+	22	3479	c.3361A>C	c.(3361-3363)AAT>CAT	p.N1121H	RBL2_uc002ehj.2_Missense_Mutation_p.N831H|RBL2_uc010vgw.1_Missense_Mutation_p.N500H	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	1121					cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						TTGCCCAGAAAATCATTCTGC	0.383													11	96					0	0	1	0	0		C	53524153	C	C	53524153	3	2	49	1	0	0	0	0	1	0	0	0	13135	14	1	5	3447	5	RBL2	16	53524153	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3417630	53524153	36830600	1150	37830											
IRX6	79190	broad.mit.edu	37	chr16	55363085	55363085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagtccccagagactccGcgtgcgacgagtcttcctgc	6	9	10	16	4	2	1	1	0	2	1	6	4	5	1	4	0	2	0	4	0	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:55363085G>A	uc002ehy.2	+	5	1728	c.1195G>A	c.(1195-1197)GCG>ACG	p.A399T	IRX6_uc002ehx.2_Missense_Mutation_p.A399T	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	399						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						CAGAGACTCCGCGTGCGACGA	0.642													23	53					0	0	1	0	0		A	55363085	A	A	55363085	3	1	49	1	0	0	0	0	1	0	0	0	7864	1087	38	1	1213	1	IRX6	16	55363085	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1838932	55363085	34991668	1151	37831											
IRX6	79190	broad.mit.edu	37	chr16	55363166	55363166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gactaccgctgaactgtgcgCcgtgcccgcggaggagcgag	7	5	16	13	6	0	1	0	1	0	0	0	5	0	3	3	2	5	1	3	2	2	1	rs138532658		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:55363166C>T	uc002ehy.2	+	5	1809	c.1276C>T	c.(1276-1278)CCG>TCG	p.P426S	IRX6_uc002ehx.2_Missense_Mutation_p.P426S	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	426						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						GAACTGTGCGCCGTGCCCGCG	0.617													6	79					0	0	1	0	0		T	55363166	T	T	55363166	3	4	49	1	0	0	0	0	1	0	0	0	7864	739	26	2	1294	2	IRX6	16	55363166	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	81	55363166	34991587	1152	37832											
HERPUD1	9709	broad.mit.edu	37	chr16	56966259	56966259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcgaccgcggctggagtgtgGgccacctcaaggcccacctg	6	5	15	15	3	1	0	1	0	0	0	1	2	1	1	5	4	0	1	5	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:56966259G>A	uc002eke.1	+	1	512	c.103G>A	c.(103-105)GGC>AGC	p.G35S	HERPUD1_uc010vhj.1_Missense_Mutation_p.G96S|HERPUD1_uc002ekf.1_Missense_Mutation_p.G35S|HERPUD1_uc002ekg.1_Missense_Mutation_p.G35S|HERPUD1_uc010cco.1_Missense_Mutation_p.G96S|HERPUD1_uc010ccp.1_Missense_Mutation_p.G96S	NM_014685	NP_055500	Q15011	HERP1_HUMAN	homocysteine-inducible, endoplasmic reticulum	35	Ubiquitin-like.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	protein binding				0						CTGGAGTGTGGGCCACCTCAA	0.721			T	ERG	prostate								3	13					0	0	1	0	0		A	56966259	A	A	56966259	3	1	49	1	0	0	0	0	1	0	0	0	7079	1232	43	4	105	4	HERPUD1	16	56966259	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1603093	56966259	33388494	1153	37833											
NLRC5	84166	broad.mit.edu	37	chr16	57095558	57095558	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgctgcctgggccagaagCagctggccatcctcctgagc	7	7	13	14	0	0	2	0	1	0	1	2	2	2	2	5	2	5	3	5	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:57095558C>T	uc002ekk.1	+	32	4324	c.4099C>T	c.(4099-4101)CAG>TAG	p.Q1367*	NLRC5_uc002ekn.2_Nonsense_Mutation_p.Q1028*|NLRC5_uc002ekl.2_Nonsense_Mutation_p.Q1171*|NLRC5_uc002ekm.2_Nonsense_Mutation_p.Q1141*|NLRC5_uc010ccr.1_RNA|NLRC5_uc010ccs.1_RNA|NLRC5_uc002eko.1_RNA|NLRC5_uc002ekp.1_Nonsense_Mutation_p.Q282*|NLRC5_uc002ekq.1_5'UTR|NLRC5_uc002ekr.1_Nonsense_Mutation_p.Q254*	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	1367					defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				GGGCCAGAAGCAGCTGGCCAT	0.677													22	70					0	0	1	0	0		T	57095558	T	T	57095558	4	4	49	1	0	0	0	0	0	1	0	0	10489	711	25	2	4217	2	NLRC5	16	57095558	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	129299	57095558	33259195	1154	37834											
CX3CL1	6376	broad.mit.edu	37	chr16	57416243	57416243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgggcgtgactggttccTcagggaccaggctccccccg	5	6	14	16	4	1	1	1	1	0	0	3	3	3	2	5	4	0	2	5	4	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:57416243T>C	uc002eli.2	+	3	560	c.493T>C	c.(493-495)TCA>CCA	p.S165P		NM_002996	NP_002987	P78423	X3CL1_HUMAN	chemokine (C-X3-C motif) ligand 1 precursor	165	Mucin-like stalk.|Extracellular (Potential).				cell adhesion|cytokine-mediated signaling pathway|defense response|immune response|leukocyte adhesive activation|positive regulation of calcium-independent cell-cell adhesion|positive regulation of inflammatory response	cell surface|extracellular space|integral to membrane|plasma membrane	chemokine activity				0						GACTGGTTCCTCAGGGACCAG	0.672													11	17					0	0	1	0	0		C	57416243	C	C	57416243	3	2	49	1	0	0	0	0	1	0	0	0	4077	1551	54	3	503	3	CX3CL1	16	57416243	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	320685	57416243	32938510	1155	37835											
GPR56	9289	broad.mit.edu	37	chr16	57689903	57689903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccagcaccagctacagcCggtgagtgggggccagccat	8	7	13	13	1	0	1	0	1	0	0	1	1	1	1	5	3	5	2	5	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:57689903C>T	uc002emb.2	+	8	1308	c.1016C>T	c.(1015-1017)CCG>CTG	p.P339L	GPR56_uc002elz.1_Missense_Mutation_p.P169L|GPR56_uc002ema.1_Missense_Mutation_p.P164L|GPR56_uc002emc.2_Missense_Mutation_p.P339L|GPR56_uc002emf.2_Missense_Mutation_p.P339L|GPR56_uc010vhs.1_Missense_Mutation_p.P339L|GPR56_uc002emd.2_Missense_Mutation_p.P339L|GPR56_uc002eme.2_Missense_Mutation_p.P339L|GPR56_uc010vht.1_Missense_Mutation_p.P344L|GPR56_uc002emg.3_Missense_Mutation_p.P339L|GPR56_uc010vhu.1_Missense_Mutation_p.P164L	NM_005682	NP_005673	Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56 isoform a	339	Extracellular (Potential).				brain development|cell adhesion|cell-cell signaling|neuropeptide signaling pathway	integral to plasma membrane	G-protein coupled receptor activity				0						CAGCTACAGCCGGTGAGTGGG	0.552													9	106					0	0	1	0	0		T	57689903	T	T	57689903	3	4	49	1	0	0	0	0	1	0	0	0	6715	666	23	1	1053	1	GPR56	16	57689903	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	273660	57689903	32664850	1156	37836											
CNOT1	23019	broad.mit.edu	37	chr16	58617056	58617056	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgacctcccgaacaccaaaCtgcacgattatattgcgaca	13	8	7	13	3	0	1	0	1	0	0	1	4	1	1	3	0	4	1	3	0	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:58617056C>T	uc002env.2	-	9	1130	c.837G>A	c.(835-837)CAG>CAA	p.Q279Q	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Silent_p.Q279Q|CNOT1_uc002enx.2_Silent_p.Q279Q|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	279					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		GAACACCAAACTGCACGATTA	0.428													8	85					0	0	1	0	0		T	58617056	T	T	58617056	2	4	49	1	0	0	0	0	0	0	0	1	3620	564	20	4		4	CNOT1	16	58617056	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	927153	58617056	31737697	1157	37837											
CDH11	1009	broad.mit.edu	37	chr16	64981896	64981896	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgtgtcttcttccccaccCccttcatcatcataagtaat	8	15	3	15	0	6	0	3	0	3	0	7	0	7	0	4	0	0	1	4	0	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:64981896C>T	uc002eoi.2	-	13	2435	c.2001G>A	c.(1999-2001)GGG>GGA	p.G667G	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_3'UTR|CDH11_uc010vin.1_Silent_p.G541G	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	667	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		CTTCCCCACCCCCTTCATCAT	0.433			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			9	97					0	0	1	0	0		T	64981896	T	T	64981896	2	4	49	1	0	0	0	0	0	0	0	1	3100	610	22	4		4	CDH11	16	64981896	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	6364840	64981896	25372857	1158	37838											
CDH11	1009	broad.mit.edu	37	chr16	65038607	65038607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgaagaactggttccagaCccagccacgcttggagcgct	10	6	11	14	3	0	2	0	0	0	2	1	4	1	3	3	2	3	3	3	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:65038607C>T	uc002eoi.2	-	3	600	c.166G>A	c.(166-168)GTC>ATC	p.V56I	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Missense_Mutation_p.V56I|CDH11_uc010vin.1_Intron|CDH11_uc010vio.1_Missense_Mutation_p.V56I	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	56	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		TGGTTCCAGACCCAGCCACGC	0.637			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			6	63					0	0	1	0	0		T	65038607	T	T	65038607	3	4	49	1	0	0	0	0	1	0	0	0	3100	507	18	4	2268	4	CDH11	16	65038607	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	56711	65038607	25316146	1159	37839											
FHOD1	29109	broad.mit.edu	37	chr16	67265542	67265542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actccaagacccaggtacccGctccatgctgtcatagtcca	10	8	7	16	1	1	1	1	0	0	1	4	1	4	1	5	1	2	3	5	1	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:67265542G>A	uc002esl.2	-	15	2495	c.2383C>T	c.(2383-2385)CGG>TGG	p.R795W	FHOD1_uc002esk.2_5'Flank|FHOD1_uc010ced.2_Missense_Mutation_p.R602W	NM_013241	NP_037373	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	795	Interaction with ROCK1.|FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton|nucleus	actin binding			breast(2)|ovary(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		CCAGGTACCCGCTCCATGCTG	0.562													23	49					0	0	1	0	0		A	67265542	A	A	67265542	3	1	49	1	0	0	0	0	1	0	0	0	5896	1086	38	1	1143	1	FHOD1	16	67265542	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2226935	67265542	23089211	1160	37840											
PLEKHG4	25894	broad.mit.edu	37	chr16	67316181	67316181	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatggctggcatggctacaAtgccaggggggccgggagct	7	6	17	11	1	0	0	0	0	0	0	0	1	0	1	3	7	3	4	3	7	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:67316181A>G	uc002eso.3	+	8	3717	c.1182A>G	c.(1180-1182)CAA>CAG	p.Q394Q	PLEKHG4_uc002esp.3_Silent_p.Q201Q|PLEKHG4_uc002esq.3_Silent_p.Q394Q|PLEKHG4_uc010cef.2_Silent_p.Q394Q|PLEKHG4_uc002ess.3_Silent_p.Q394Q|PLEKHG4_uc010ceg.2_Silent_p.Q313Q	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	394					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		CATGGCTACAATGCCAGGGGG	0.607													3	40					0	0	1	0	0		G	67316181	G	G	67316181	2	3	49	1	0	0	0	0	0	0	0	1	12090	98	4	3		3	PLEKHG4	16	67316181	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	50639	67316181	23038572	1161	37841											
CTCF	10664	broad.mit.edu	37	chr16	67660619	67660619	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgattacgcttgtagacagGtaggaaccttcattgaaagt	12	12	11	6	1	1	3	1	2	0	1	1	4	1	4	1	2	2	3	1	2	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:67660619G>A	uc002etl.2	+	8	1808	c.1518_splice	c.e8+1	p.Q506_splice	CTCF_uc010cek.2_Splice_Site_p.Q178_splice|CTCF_uc002etm.1_5'Flank	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor						chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)		TTGTAGACAGGTAGGAACCTT	0.428													9	47					0	0	1	0	0		A	67660619	A	A	67660619	5	1	49	1	0	0	0	0	0	0	1	0	4003	1275	44	4	1541	4	CTCF	16	67660619	Splice_Site	SNP	G	TCGA-BR-7707-01A-11D-2053-08	344438	67660619	22694134	1162	37842											
RLTPR	146206	broad.mit.edu	37	chr16	67683857	67683857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcccggaactgacagcaCgtgcagtccatcaggtgggc	8	5	14	14	3	1	1	1	1	0	0	2	2	2	2	3	3	3	2	3	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:67683857C>T	uc002etn.2	+	21	2188	c.2068C>T	c.(2068-2070)CGT>TGT	p.R690C	RLTPR_uc010cel.1_Missense_Mutation_p.R683C|RLTPR_uc010vjr.1_Missense_Mutation_p.R654C	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	690										breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		ACTGACAGCACGTGCAGTCCA	0.642													10	16					0	0	1	0	0		T	67683857	T	T	67683857	3	4	49	1	0	0	0	0	1	0	0	0	13419	536	19	1	2150	1	RLTPR	16	67683857	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	23238	67683857	22670896	1163	37843											
LCAT	3931	broad.mit.edu	37	chr16	67976779	67976779	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacctgccagcttgctgcTgtccaggtactccacagagt	9	9	9	14	0	0	1	0	0	0	1	2	1	2	1	4	1	6	4	4	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:67976779T>C	uc002euy.1	-	3	423	c.412A>G	c.(412-414)AGC>GGC	p.S138G		NM_000229	NP_000220	P04180	LCAT_HUMAN	lecithin-cholesterol acyltransferase precursor	138					cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|high-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|reverse cholesterol transport|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein A-I binding|phosphatidylcholine-sterol O-acyltransferase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00418)|Epithelial(162;0.0183)|all cancers(182;0.12)		AGCTTGCTGCTGTCCAGGTAC	0.652													23	75					0	0	1	0	0		C	67976779	C	C	67976779	3	2	49	1	0	0	0	0	1	0	0	0	8674	1580	55	3	926	3	LCAT	16	67976779	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	292922	67976779	22377974	1164	37844											
NOB1	28987	broad.mit.edu	37	chr16	69776336	69776336	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagggtagctgagcggcTggagatgtcattctcgacaa	9	9	14	9	2	2	2	1	1	1	1	3	4	2	2	0	3	3	4	0	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:69776336T>C	uc002exs.2	-	9	1154	c.1138A>G	c.(1138-1140)AGC>GGC	p.S380G		NM_014062	NP_054781	Q9ULX3	NOB1_HUMAN	nin one binding protein	380						nucleus	metal ion binding|protein binding				0						GCTGAGCGGCTGGAGATGTCA	0.572													16	44					0	0	1	0	0		C	69776336	C	C	69776336	3	2	49	1	0	0	0	0	1	0	0	0	10530	1580	55	3	104	3	NOB1	16	69776336	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1799557	69776336	20578417	1165	37845											
FUK	197258	broad.mit.edu	37	chr16	70513191	70513191	+	Frame_Shift_Del	DEL	C	-	-																															gcgtatgatggatgtcctggCcccccacgtgcatggccaga																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:70513191delC	uc002eyy.2	+	23	3096	c.3038delC	c.(3037-3039)GCCfs	p.A1013fs	FUK_uc010cft.2_Frame_Shift_Del_p.A1019fs|FUK_uc002eyz.2_Frame_Shift_Del_p.A504fs	NM_145059	NP_659496	Q8N0W3	FUK_HUMAN	fucokinase	1013						cytoplasm	ATP binding|fucokinase activity			ovary(1)	1		Ovarian(137;0.0694)				GATGTCCTGGCCCCCCACGTG	0.632													26	51	---	---	---	---						.	-	70513191	-	-	70513191	7	5	49	1	0	1	0	1	0	0	0	0	6110	739	26	0	3124	0	FUK	16	70513191	Frame_Shift_Del	DEL	C	TCGA-BR-7707-01A-11D-2053-08	736855	70513191	19841562	1166	37846											
HYDIN	54768	broad.mit.edu	37	chr16	70841851	70841851	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgataggatcaggatgccctTggtctcacccaggtggctgg	7	10	14	10	0	2	1	2	1	1	0	3	3	2	3	2	6	1	1	2	6	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:70841851T>C	uc002ezr.2	-	86	15123	c.14995A>G	c.(14995-14997)AAG>GAG	p.K4999E	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	5000										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				AGGATGCCCTTGGTCTCACCC	0.567													12	89					0	0	1	0	0		C	70841851	C	C	70841851	3	2	49	1	0	0	0	0	1	0	0	0	7483	1821	63	3	371	3	HYDIN	16	70841851	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	328660	70841851	19512902	1167	37847											
HYDIN	54768	broad.mit.edu	37	chr16	70852299	70852299	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggcgatgtcgggcatccgGcattccgtggagaaggtcac	8	7	16	10	4	1	1	1	0	0	1	4	3	3	1	2	5	0	2	2	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:70852299G>A	uc002ezr.2	-	84	14729	c.14601C>T	c.(14599-14601)TGC>TGT	p.C4867C	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4868										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CGGGCATCCGGCATTCCGTGG	0.617													9	14					0	0	1	0	0		A	70852299	A	A	70852299	2	1	49	1	0	0	0	0	0	0	0	1	7483	1195	42	2		2	HYDIN	16	70852299	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	10448	70852299	19502454	1168	37848											
ZNF19	7567	broad.mit.edu	37	chr16	71509691	71509691	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactcggaactactcgtgaaActattcccacactctgtaca	13	10	5	13	2	1	1	0	1	1	0	4	2	2	2	1	1	5	1	1	1	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:71509691A>G	uc010cgc.1	-	6	1265	c.759T>C	c.(757-759)AGT>AGC	p.S253S	ZNF23_uc002fai.2_Intron|ZNF19_uc002fak.1_Silent_p.S241S|ZNF19_uc002fal.1_Silent_p.S241S|ZNF19_uc002fam.1_Silent_p.S253S	NM_006961	NP_008892	P17023	ZNF19_HUMAN	zinc finger protein 19	253	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(137;0.00965)		BRCA - Breast invasive adenocarcinoma(221;0.0161)|Kidney(780;0.0598)		TACTCGTGAAACTATTCCCAC	0.443													5	135					0	0	1	0	0		G	71509691	G	G	71509691	2	3	49	1	0	0	0	0	0	0	0	1	17780	40	2	3		3	ZNF19	16	71509691	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	657392	71509691	18845062	1169	37849											
ZFHX3	463	broad.mit.edu	37	chr16	72821576	72821576	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagagcgcgctctcgcaCgccaggcagtggtacgagcc	8	4	13	16	5	1	1	0	0	1	1	2	2	1	1	3	2	3	4	3	2	1	1	rs138643120		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:72821576C>T	uc002fck.2	-	10	11272	c.10599G>A	c.(10597-10599)GCG>GCA	p.A3533A	uc002fcj.1_RNA|ZFHX3_uc002fcl.2_Silent_p.A2619A	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3533	C2H2-type 22.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CGCTCTCGCACGCCAGGCAGT	0.393													19	117					0	0	1	0	0		T	72821576	T	T	72821576	2	4	49	1	0	0	0	0	0	0	0	1	17659	523	19	1		1	ZFHX3	16	72821576	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1311885	72821576	17533177	1170	37850											
ZFHX3	463	broad.mit.edu	37	chr16	72991508	72991508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgccgaggcccaggtggCggttgtgttggatctgggtc	3	10	19	9	2	1	0	0	0	1	0	2	2	1	1	2	7	1	3	2	7	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:72991508C>T	uc002fck.2	-	2	3210	c.2537G>A	c.(2536-2538)CGC>CAC	p.R846H	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	846				RHLG -> HHRV (in Ref. 1).	muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GCCCAGGTGGCGGTTGTGTTG	0.562													9	80					0	0	1	0	0		T	72991508	T	T	72991508	3	4	49	1	0	0	0	0	1	0	0	0	17659	768	27	1	8610	1	ZFHX3	16	72991508	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	169932	72991508	17363245	1171	37851											
GLG1	2734	broad.mit.edu	37	chr16	74526897	74526897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacattaacaagtaggagaGcctggcttcacgcgatcgcg	11	7	12	11	4	1	1	1	0	0	1	2	3	1	1	1	2	2	3	1	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:74526897G>A	uc002fcy.3	-	7	1242	c.1192C>T	c.(1192-1194)CTC>TTC	p.L398F	GLG1_uc002fcx.2_Missense_Mutation_p.L398F|GLG1_uc002fcw.3_Missense_Mutation_p.L387F|GLG1_uc002fcz.3_Intron	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	398	Cys-rich GLG1 5.|Extracellular (Potential).					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						AAGTAGGAGAGCCTGGCTTCA	0.398													9	39					0	0	1	0	0		A	74526897	A	A	74526897	3	1	49	1	0	0	0	0	1	0	0	0	6451	971	34	2	2507	2	GLG1	16	74526897	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1535389	74526897	15827856	1172	37852											
ADAMTS18	170692	broad.mit.edu	37	chr16	77334209	77334209	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcacgatactccaggtataGgcaggtctttttgtggctgg	7	13	13	8	1	1	0	0	0	1	0	2	1	2	0	1	5	2	4	1	5	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:77334209G>T	uc002ffc.3	-	17	3044	c.2625C>A	c.(2623-2625)GCC>GCA	p.A875A	ADAMTS18_uc010chc.1_Silent_p.A463A|ADAMTS18_uc002ffe.1_Silent_p.A571A	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	875	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TCCAGGTATAGGCAGGTCTTT	0.473													13	40					2.89027e-11	3.1258e-11	1	1	0		T	77334209	T	T	77334209	2	4	49	1	0	0	0	0	0	0	0	1	263	987	35	5		5	ADAMTS18	16	77334209	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2807312	77334209	13020544	1173	37853											
KIAA0182	23199	broad.mit.edu	37	chr16	85690909	85690909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaaggatgccggcctgcagGcgcccaagcccgtccaacac	9	4	12	16	3	0	1	0	1	0	0	1	2	1	2	5	3	4	1	5	3	3	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:85690909G>A	uc002fix.2	+	8	1413	c.1339G>A	c.(1339-1341)GCG>ACG	p.A447T	KIAA0182_uc002fiw.2_Missense_Mutation_p.A343T|KIAA0182_uc002fiy.2_Missense_Mutation_p.A374T	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	447							protein binding			large_intestine(3)|ovary(1)|skin(1)	5						CGGCCTGCAGGCGCCCAAGCC	0.642													5	75					0	0	1	0	0		A	85690909	A	A	85690909	3	1	49	1	0	0	0	0	1	0	0	0	8175	1203	42	2	1369	2	KIAA0182	16	85690909	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8356700	85690909	4663844	1174	37854											
KIAA0182	23199	broad.mit.edu	37	chr16	85698686	85698686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactgtcagcagcagtggccGactccttgacaaactctccg	9	8	9	15	2	2	1	1	1	1	0	4	2	3	1	3	1	3	2	3	1	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:85698686G>A	uc002fix.2	+	12	2784	c.2710G>A	c.(2710-2712)GAC>AAC	p.D904N	KIAA0182_uc002fiw.2_Missense_Mutation_p.D800N|KIAA0182_uc002fiy.2_Missense_Mutation_p.D831N|KIAA0182_uc002fiz.2_Intron|KIAA0182_uc010cho.2_Missense_Mutation_p.D84N	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	904							protein binding			large_intestine(3)|ovary(1)|skin(1)	5						AGCAGTGGCCGACTCCTTGAC	0.557													3	56					0	0	1	0	0		A	85698686	A	A	85698686	3	1	49	1	0	0	0	0	1	0	0	0	8175	1058	37	1	2756	1	KIAA0182	16	85698686	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	7777	85698686	4656067	1175	37855											
CPNE7	27132	broad.mit.edu	37	chr16	89661935	89661935	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtcctggacggcgacgacgGcgtcctgcgctccccacggg	4	5	16	16	7	0	0	0	0	0	0	3	3	3	1	4	5	1	1	4	5	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:89661935G>C	uc002fnp.2	+	16	1818	c.1688G>C	c.(1687-1689)GGC>GCC	p.G563A	CPNE7_uc002fnq.2_Missense_Mutation_p.G488A	NM_014427	NP_055242	Q9UBL6	CPNE7_HUMAN	copine 7 isoform b	563	VWFA.				lipid metabolic process		transporter activity				0		all_hematologic(23;0.0748)		all cancers(4;3.63e-08)|OV - Ovarian serous cystadenocarcinoma(4;1.7e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0147)		GGCGACGACGGCGTCCTGCGC	0.667													10	28					0	0	1	0	0		C	89661935	C	C	89661935	3	2	49	1	0	0	0	0	1	0	0	0	3820	1203	42	5	1750	5	CPNE7	16	89661935	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3963249	89661935	692818	1176	37856											
SPATA2L	124044	broad.mit.edu	37	chr16	89764300	89764300	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccccatacaggctggcGtcctccgacccctcgtcttc	4	9	9	19	3	1	0	0	0	1	0	6	1	4	0	6	3	1	2	6	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:89764300G>A	uc002foj.2	-	3	782	c.717C>T	c.(715-717)GAC>GAT	p.D239D	SPATA2L_uc002fok.2_Intron	NM_152339	NP_689552	Q8IUW3	SPA2L_HUMAN	spermatogenesis associated 2-like	239											0		Lung NSC(15;0.00043)|all_lung(18;0.000665)|all_hematologic(23;0.0355)		BRCA - Breast invasive adenocarcinoma(80;0.0272)		ACAGGCTGGCGTCCTCCGACC	0.682													5	16					0	0	1	0	0		A	89764300	A	A	89764300	2	1	49	1	0	0	0	0	0	0	0	1	15034	1136	40	1		1	SPATA2L	16	89764300	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	102365	89764300	590453	1177	37857											
TUBB3	10381	broad.mit.edu	37	chr16	89986444	89986444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggggccccttcttcctgCatctcacactcatcgtcctc	4	12	7	18	1	3	0	2	0	2	0	8	0	5	0	4	2	1	2	4	2	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr16:89986444C>T	uc002fpf.2	+	1	1186	c.778C>T	c.(778-780)CAT>TAT	p.H260Y	MC1R_uc002fpe.3_Missense_Mutation_p.H260Y|TUBB3_uc010ciz.1_5'Flank	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	Error:Variant_position_missing_in_Q13509_after_alignment					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		CTTCTTCCTGCATCTCACACT	0.587													7	82					0	0	1	0	0		T	89986444	T	T	89986444	3	4	49	1	0	0	0	0	1	0	0	0	16783	710	25	2		2	TUBB3	16	89986444	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	222144	89986444	368309	1178	37858											
GEMIN4	50628	broad.mit.edu	37	chr17	650620	650620	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggatctgtgtcagcccGcggagcagcatggccaacag	8	7	13	13	2	3	0	1	0	2	0	3	2	3	2	2	3	4	2	2	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:650620G>A	uc002frs.1	-	2	782	c.663C>T	c.(661-663)CGC>CGT	p.R221R	GEMIN4_uc010vqa.1_Intron	NM_015721	NP_056536	P57678	GEMI4_HUMAN	gemin 4	221					rRNA processing|spliceosomal snRNP assembly	Cajal body|cytosol|nucleolus|small nuclear ribonucleoprotein complex|spliceosomal complex	protein binding			ovary(2)|kidney(1)|skin(1)	4		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		GTGTCAGCCCGCGGAGCAGCA	0.622													30	71					0	0	1	0	0		A	650620	A	A	650620	2	1	49	1	0	0	0	0	0	0	0	1	6345	1074	38	1		1	GEMIN4	17	650620	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08		650620	80544590	1179	37859											
SCARF1	8578	broad.mit.edu	37	chr17	1538704	1538704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggagagcctcttgggctttCggagcgggctggagagctcc	5	8	18	10	2	1	2	0	0	1	2	3	5	2	3	2	5	3	3	2	5	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:1538704C>T	uc002fsz.1	-	11	1891	c.1841G>A	c.(1840-1842)CGA>CAA	p.R614Q	SCARF1_uc002fsy.1_3'UTR|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Missense_Mutation_p.R528Q	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	614	Pro/Ser-rich.|Cytoplasmic (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CTTGGGCTTTCGGAGCGGGCT	0.662													14	44					0	0	1	0	0		T	1538704	T	T	1538704	3	4	49	1	0	0	0	0	1	0	0	0	13908	884	31	1	655	1	SCARF1	17	1538704	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	888084	1538704	79656506	1180	37860											
SGSM2	9905	broad.mit.edu	37	chr17	2276761	2276761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggcagcagcatcgacaGccacgtgcagcgcctcatcc	9	5	10	17	3	2	0	2	0	0	0	4	1	3	0	3	1	5	4	3	1	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:2276761G>A	uc002fun.3	+	16	2094	c.1919G>A	c.(1918-1920)AGC>AAC	p.S640N	SGSM2_uc002fum.3_Missense_Mutation_p.S685N|SGSM2_uc010vqw.1_Missense_Mutation_p.S640N|SGSM2_uc002fuo.2_3'UTR|SGSM2_uc002fup.1_5'Flank|SGSM2_uc002fuq.2_5'Flank	NM_001098509	NP_001091979	O43147	SGSM2_HUMAN	RUN and TBC1 domain containing 1 isoform 2	640	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0				Colorectal(2;5.15e-05)|READ - Rectum adenocarcinoma(2;0.000115)		AGCATCGACAGCCACGTGCAG	0.657													4	61					0	0	1	0	0		A	2276761	A	A	2276761	3	1	49	1	0	0	0	0	1	0	0	0	14248	971	34	2	2120	2	SGSM2	17	2276761	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	738057	2276761	78918449	1181	37861											
SPNS3	201305	broad.mit.edu	37	chr17	4348354	4348354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagctgcctgctgctgtctgCacctgtgtttggctacctgg	3	14	12	12	0	1	0	0	0	1	0	1	0	1	0	3	2	6	6	3	2	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:4348354C>T	uc002fxt.2	+	3	337	c.293C>T	c.(292-294)GCA>GTA	p.A98V	SPNS3_uc002fxu.2_Intron	NM_182538	NP_872344	Q6ZMD2	SPNS3_HUMAN	spinster homolog 3	98	Helical; (Potential).				lipid transport|transmembrane transport	integral to membrane				large_intestine(1)	1						CTGCTGTCTGCACCTGTGTTT	0.617													71	153					0	0	1	0	0		T	4348354	T	T	4348354	3	4	49	1	0	0	0	0	1	0	0	0	15101	710	25	2	303	2	SPNS3	17	4348354	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2071593	4348354	76846856	1182	37862											
PSMB6	5694	broad.mit.edu	37	chr17	4701657	4701657	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcagagtcaggggtagagcgGcaagtacttttgggagacca	11	7	16	7	1	1	3	1	0	0	3	1	4	1	3	1	4	2	4	1	4	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:4701657G>A	uc002fzb.2	+	6	693	c.660G>A	c.(658-660)CGG>CGA	p.R220R		NM_002798	NP_002789	P28072	PSB6_HUMAN	proteasome beta 6 subunit precursor	220					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity			ovary(2)	2						GGGTAGAGCGGCAAGTACTTT	0.532													12	192					0	0	1	0	0		A	4701657	A	A	4701657	2	1	49	1	0	0	0	0	0	0	0	1	12703	1190	42	2		2	PSMB6	17	4701657	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	353303	4701657	76493553	1183	37863											
KIF1C	10749	broad.mit.edu	37	chr17	4910366	4910366	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgggcctgaggaagccaTggagaggctgcaggtgggaa	10	6	19	6	0	0	2	0	1	0	1	0	6	0	4	2	6	2	2	2	6	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:4910366T>C	uc002gan.1	+	14	1648	c.1322T>C	c.(1321-1323)ATG>ACG	p.M441T		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	441	Potential.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						GAGGAAGCCATGGAGAGGCTG	0.567													14	38					0	0	1	0	0		C	4910366	C	C	4910366	3	2	49	1	0	0	0	0	1	0	0	0	8301	1464	51	3	1368	3	KIF1C	17	4910366	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	208709	4910366	76284844	1184	37864											
KIAA0753	9851	broad.mit.edu	37	chr17	6531749	6531749	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggtcgggtattttatactTagtatgtccacacttctgag	8	16	10	7	1	1	1	0	1	1	0	3	1	2	1	1	2	1	2	1	2	5	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:6531749T>C	uc002gde.3	-	3	765	c.406A>G	c.(406-408)AAG>GAG	p.K136E	KIAA0753_uc010clo.2_5'UTR|KIAA0753_uc010vte.1_5'UTR	NM_014804	NP_055619	Q2KHM9	K0753_HUMAN	hypothetical protein LOC9851	136						centrosome					0				COAD - Colon adenocarcinoma(228;0.157)		ATTTTATACTTAGTATGTCCA	0.433													12	41					0	0	1	0	0		C	6531749	C	C	6531749	3	2	49	1	0	0	0	0	1	0	0	0	8207	1763	61	3	2565	3	KIAA0753	17	6531749	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1621383	6531749	74663461	1185	37865											
TEKT1	83659	broad.mit.edu	37	chr17	6718526	6718526	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaatatctgatgtttggTgagttgttgttgagcgagaa	10	15	13	3	1	2	5	1	3	1	2	2	6	2	5	0	1	1	4	0	1	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:6718526T>C	uc002gdt.2	-	5	695	c.585A>G	c.(583-585)TCA>TCG	p.S195S	TEKT1_uc010vth.1_Silent_p.S49S	NM_053285	NP_444515	Q969V4	TEKT1_HUMAN	tektin 1	195					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|skin(1)	2		Myeloproliferative disorder(207;0.0255)				TGATGTTTGGTGAGTTGTTGT	0.502													9	108					0	0	1	0	0		C	6718526	C	C	6718526	2	2	49	1	0	0	0	0	0	0	0	1	15777	1683	59	3		3	TEKT1	17	6718526	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	186777	6718526	74476684	1186	37866											
C17orf81	23587	broad.mit.edu	37	chr17	7155822	7155822	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggaaggacactgggtcAtgacgccatcagagggcgcc	11	4	16	10	2	2	2	2	1	0	1	2	5	2	5	2	5	0	0	2	5	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:7155822A>G	uc002gfg.1	+	2	108	c.1A>G	c.(1-3)ATG>GTG	p.M1V	DULLARD_uc002gfd.2_5'Flank|DULLARD_uc002gfe.2_5'Flank|DULLARD_uc002gff.2_5'Flank|DULLARD_uc002gfc.2_5'Flank|C17orf81_uc002gfj.2_Missense_Mutation_p.M1V|C17orf81_uc010cmb.2_Missense_Mutation_p.M1V|C17orf81_uc002gfh.1_Missense_Mutation_p.M1V|C17orf81_uc002gfi.1_Missense_Mutation_p.M1V|C17orf81_uc002gfk.1_Missense_Mutation_p.M1V|C17orf81_uc002gfl.1_Missense_Mutation_p.M1V	NM_203415	NP_981960	Q8TE02	DERP6_HUMAN	S-phase 2 protein isoform 4	1					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding				0						ACACTGGGTCATGACGCCATC	0.602													4	27					0	0	1	0	0		G	7155822	G	G	7155822	3	3	49	1	0	0	0	0	1	0	0	0	1889	217	8	3	3	3	C17orf81	17	7155822	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	437296	7155822	74039388	1187	37867											
C17orf74	201243	broad.mit.edu	37	chr17	7329644	7329644	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctctttctcctgccaccatTtctccaaccatcacagtagc	8	12	3	18	0	4	0	1	0	3	0	6	0	4	0	6	0	3	1	6	0	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:7329644T>C	uc002ggw.2	+	3	407	c.334T>C	c.(334-336)TTC>CTC	p.F112L	FGF11_uc010vtw.1_Intron	NM_175734	NP_783861	Q0P670	CQ074_HUMAN	hypothetical protein LOC201243	112						integral to membrane					0		Prostate(122;0.157)				CTGCCACCATTTCTCCAACCA	0.438													51	101					0	0	1	0	0		C	7329644	C	C	7329644	3	2	49	1	0	0	0	0	1	0	0	0	1882	1841	64	3	344	3	C17orf74	17	7329644	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	173822	7329644	73865566	1188	37868											
ZBTB4	57659	broad.mit.edu	37	chr17	7365271	7365271	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagggttcaccccacatcGcccttctgggttctctcaac	6	10	7	18	1	4	0	2	0	2	0	6	0	4	0	4	2	1	2	4	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:7365271G>A	uc002ghc.3	-	4	3280	c.3030C>T	c.(3028-3030)GGC>GGT	p.G1010G	ZBTB4_uc002ghd.3_Silent_p.G1010G	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	1010					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		ACCCCACATCGCCCTTCTGGG	0.642													10	51					0	0	1	0	0		A	7365271	A	A	7365271	2	1	49	1	0	0	0	0	0	0	0	1	17566	1074	38	1		1	ZBTB4	17	7365271	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	35627	7365271	73829939	1189	37869											
DNAH2	146754	broad.mit.edu	37	chr17	7695578	7695578	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccctccttaggacacggtAtatgagtattttgtggaccc	8	13	10	10	1	0	1	0	1	0	0	1	3	1	3	3	3	1	2	3	3	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:7695578A>G	uc002giu.1	+	45	7076	c.7062A>G	c.(7060-7062)GTA>GTG	p.V2354V		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2354					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				AGGACACGGTATATGAGTATT	0.532													8	91					0	0	1	0	0		G	7695578	G	G	7695578	2	3	49	1	0	0	0	0	0	0	0	1	4608	436	16	3		3	DNAH2	17	7695578	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	330307	7695578	73499632	1190	37870											
DNAH2	146754	broad.mit.edu	37	chr17	7721318	7721318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcgaatcctagaacacGccattcactttggatacccg	11	9	7	14	3	1	1	1	0	0	1	2	3	2	2	4	1	3	0	4	1	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:7721318G>A	uc002giu.1	+	67	10305	c.10291G>A	c.(10291-10293)GCC>ACC	p.A3431T	DNAH2_uc010cnm.1_Missense_Mutation_p.A369T	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3431	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CCTAGAACACGCCATTCACTT	0.532													19	155					0	0	1	0	0		A	7721318	A	A	7721318	3	1	49	1	0	0	0	0	1	0	0	0	4608	1087	38	1	10557	1	DNAH2	17	7721318	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	25740	7721318	73473892	1191	37871											
KDM6B	23135	broad.mit.edu	37	chr17	7750893	7750893	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccattaccaaactcccgcGctggaggtctctcaccatgg	9	8	9	15	2	2	0	1	0	1	0	4	2	3	1	4	3	2	1	4	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:7750893G>A	uc002giw.1	+	11	1663	c.1287G>A	c.(1285-1287)GCG>GCA	p.A429A	KDM6B_uc002gix.2_5'UTR	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	429	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						AAACTCCCGCGCTGGAGGTCT	0.537													18	32					0	0	1	0	0		A	7750893	A	A	7750893	2	1	49	1	0	0	0	0	0	0	0	1	8154	1074	38	1		1	KDM6B	17	7750893	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	29575	7750893	73444317	1192	37872											
CHD3	1107	broad.mit.edu	37	chr17	7807305	7807305	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacgtcgtgcgggaagaagAcaaggtgagaggctttgggg	10	7	19	5	3	0	3	0	1	0	3	1	5	0	4	0	5	2	2	0	5	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:7807305A>G	uc002gje.2	+	24	4040	c.3890A>G	c.(3889-3891)GAC>GGC	p.D1297G	CHD3_uc002gjd.2_Missense_Mutation_p.D1356G|CHD3_uc002gjf.2_Missense_Mutation_p.D1297G|CHD3_uc002gjh.2_5'UTR|SCARNA21_uc002gji.1_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1297					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				CGGGAAGAAGACAAGGTGAGA	0.527													4	75					0	0	1	0	0		G	7807305	G	G	7807305	3	3	49	1	0	0	0	0	1	0	0	0	3329	275	10	3	4265	3	CHD3	17	7807305	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	56412	7807305	73387905	1193	37873											
CHD3	1107	broad.mit.edu	37	chr17	7813856	7813856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgccttcagatgtccgagCgcagcatcctcagccggctg	6	7	11	17	4	2	1	2	0	0	1	4	2	4	1	5	1	3	3	5	1	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:7813856C>T	uc002gje.2	+	38	5851	c.5701C>T	c.(5701-5703)CGC>TGC	p.R1901C	CHD3_uc002gjd.2_Missense_Mutation_p.R1960C|CHD3_uc002gjf.2_Missense_Mutation_p.R1867C|CHD3_uc002gjh.2_Missense_Mutation_p.R478C|CHD3_uc002gjj.2_Missense_Mutation_p.R64C	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1901	Required for interaction with PCNT.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GATGTCCGAGCGCAGCATCCT	0.642													8	48					0	0	1	0	0		T	7813856	T	T	7813856	3	4	49	1	0	0	0	0	1	0	0	0	3329	768	27	1	6132	1	CHD3	17	7813856	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	6551	7813856	73381354	1194	37874											
CCDC42	146849	broad.mit.edu	37	chr17	8638542	8638542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggagggtcttcttggctgCggtgttctggatgtgcgccc	3	12	16	10	2	3	0	0	0	3	0	3	2	3	2	1	5	2	2	1	5	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:8638542C>T	uc002gln.2	-	6	972	c.745G>A	c.(745-747)GCA>ACA	p.A249T	CCDC42_uc002glo.2_Missense_Mutation_p.A175T	NM_144681	NP_653282	Q96M95	CCD42_HUMAN	coiled-coil domain containing 42 isoform 1	249										ovary(1)	1						TTCTTGGCTGCGGTGTTCTGG	0.478													11	36					0	0	1	0	0		T	8638542	T	T	8638542	3	4	49	1	0	0	0	0	1	0	0	0	2817	768	27	1	213	1	CCDC42	17	8638542	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	824686	8638542	72556668	1195	37875											
MYH13	8735	broad.mit.edu	37	chr17	10265498	10265498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggggcggggcctcctggcGctttttgcctctgtaggcag	2	11	17	11	2	1	0	0	0	1	0	2	0	2	0	3	6	1	3	3	6	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:10265498G>A	uc002gmk.1	-	5	532	c.442C>T	c.(442-444)CGC>TGC	p.R148C		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	148	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GCCTCCTGGCGCTTTTTGCCT	0.522													12	145					0	0	1	0	0		A	10265498	A	A	10265498	3	1	49	1	0	0	0	0	1	0	0	0	10050	1087	38	1	5522	1	MYH13	17	10265498	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1626956	10265498	70929712	1196	37876											
TEKT3	64518	broad.mit.edu	37	chr17	15215749	15215749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcccgttcactctgggagcGgagaatattgtcatctgtaa	9	12	11	9	2	4	1	2	0	2	1	4	3	4	2	1	2	2	2	1	2	3	4	rs147750959	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:15215749G>A	uc002gon.2	-	7	1115	c.928C>T	c.(928-930)CGC>TGC	p.R310C		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	310					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		CTCTGGGAGCGGAGAATATTG	0.458													5	65					0	0	1	0	0		A	15215749	A	A	15215749	3	1	49	1	0	0	0	0	1	0	0	0	15779	1116	39	1	556	1	TEKT3	17	15215749	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4950251	15215749	65979461	1197	37877											
TBC1D26	353149	broad.mit.edu	37	chr17	15644464	15644464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaccacagggacctgagccGcatcactgccatcctcctcc	8	7	7	19	1	1	1	1	1	0	0	4	2	4	2	7	1	3	1	7	1	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:15644464G>A	uc010cov.2	+	10	825	c.575G>A	c.(574-576)CGC>CAC	p.R192H	TBC1D26_uc002gpb.3_RNA	NM_178571	NP_848666	Q86UD7	TBC26_HUMAN	TBC1 domain family, member 26	192	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(1115;0.0222)|BRCA - Breast invasive adenocarcinoma(8;0.078)		GACCTGAGCCGCATCACTGCC	0.592													15	59					0	0	1	0	0		A	15644464	A	A	15644464	3	1	49	1	0	0	0	0	1	0	0	0	15641	1087	38	1	605	1	TBC1D26	17	15644464	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	428715	15644464	65550746	1198	37878											
NCOR1	9611	broad.mit.edu	37	chr17	15961030	15961030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaggaaacttgatttctagCaaaatcttgtgtgataattt	13	15	8	5	1	2	2	0	2	2	0	2	4	2	3	0	1	2	1	0	1	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:15961030C>T	uc002gpo.2	-	40	6430	c.6190G>A	c.(6190-6192)GCT>ACT	p.A2064T	NCOR1_uc002gpn.2_Missense_Mutation_p.A1961T|NCOR1_uc002gpl.2_Missense_Mutation_p.A79T|NCOR1_uc002gpm.2_Missense_Mutation_p.A584T|NCOR1_uc010vwb.1_Missense_Mutation_p.A648T|NCOR1_uc010coy.2_Missense_Mutation_p.A972T|NCOR1_uc010vwc.1_Missense_Mutation_p.A874T	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	2064	Interaction with C1D (By similarity).|ID1 (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		TGATTTCTAGCAAAATCTTGT	0.368													22	60					0	0	1	0	0		T	15961030	T	T	15961030	3	4	49	1	0	0	0	0	1	0	0	0	10254	710	25	2	1160	2	NCOR1	17	15961030	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	316566	15961030	65234180	1199	37879											
RAI1	10743	broad.mit.edu	37	chr17	17698552	17698552	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggggattgcaccctggcGagcttaccaagggcctggag	7	7	17	10	1	0	0	0	0	0	0	0	3	0	2	3	6	3	2	3	6	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:17698552G>T	uc002grm.2	+	3	2759	c.2290G>T	c.(2290-2292)GAG>TAG	p.E764*	RAI1_uc002grn.1_Nonsense_Mutation_p.E764*	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	764						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		GCACCCTGGCGAGCTTACCAA	0.642													16	65					1.5739e-10	1.6968e-10	1	1	0		T	17698552	T	T	17698552	4	4	49	1	0	0	0	0	0	1	0	0	13032	1059	37	5	2292	5	RAI1	17	17698552	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1737522	17698552	63496658	1200	37880											
FLII	2314	broad.mit.edu	37	chr17	18148464	18148464	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgtcttaggccagggcCttgcagaaggcgctccaggc	7	7	14	13	1	1	1	0	0	1	1	2	1	2	1	4	4	2	2	4	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:18148464C>A	uc002gsr.1	-	30	3849	c.3798G>T	c.(3796-3798)AAG>AAT	p.K1266N	FLII_uc002gsq.1_Missense_Mutation_p.K1137N|FLII_uc010cpy.1_Missense_Mutation_p.K1255N|FLII_uc010vxn.1_Missense_Mutation_p.K1235N|FLII_uc010vxo.1_Missense_Mutation_p.K1211N	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	1266					multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					AGGCCAGGGCCTTGCAGAAGG	0.632													10	103					6.40141e-05	6.65405e-05	1	1	0		A	18148464	A	A	18148464	3	1	49	1	0	0	0	0	1	0	0	0	5939	680	24	5	15	5	FLII	17	18148464	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	449912	18148464	63046746	1201	37881											
SHMT1	6470	broad.mit.edu	37	chr17	18259316	18259317	+	Splice_Site	INS	-	A	A																															gcactggttcgaagctgcctINSaaaaaaatgggaaaaacatg																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:18259316_18259317insA	uc002gta.2	-	2	172	c.-18_splice	c.e2-1		SHMT1_uc002gtb.2_Splice_Site|SHMT1_uc010cqb.2_Splice_Site|SHMT1_uc010vxt.1_Splice_Site|SHMT1_uc002gtd.1_Splice_Site|SHMT1_uc010vxu.1_Splice_Site	NM_004169	NP_004160	P34896	GLYC_HUMAN	serine hydroxymethyltransferase 1 (soluble)						carnitine biosynthetic process|folic acid metabolic process|L-serine catabolic process|one-carbon metabolic process|purine base biosynthetic process	cytosol|nucleus	glycine hydroxymethyltransferase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)	1					Glycine(DB00145)|Mimosine(DB01055)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CGAAGCTGCCTAAAAAAATGGG	0.337													9	19	---	---	---	---						.	A	18259317	A	A	18259316	8	5	49	1	0	1	1	0	0	0	1	0	14310	1536	53	0		0	SHMT1	17	18259316	Splice_Site	INS	-	TCGA-BR-7707-01A-11D-2053-08	110852	18259316	62935894	1202	37882											
PRPSAP2	5636	broad.mit.edu	37	chr17	18833976	18833976	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacaatggggagtccatgTcctaccttttcagaaacata	12	11	7	11	0	1	1	1	0	0	1	4	2	4	2	4	2	2	0	4	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:18833976T>C	uc002gup.1	+	12	1286	c.1075T>C	c.(1075-1077)TCC>CCC	p.S359P	PRPSAP2_uc002guo.1_Missense_Mutation_p.S273P|PRPSAP2_uc010vyi.1_Missense_Mutation_p.S307P|PRPSAP2_uc010vyj.1_Missense_Mutation_p.S273P|PRPSAP2_uc010vyk.1_Missense_Mutation_p.S298P|PRPSAP2_uc002guq.1_Missense_Mutation_p.S146P	NM_002767	NP_002758	O60256	KPRB_HUMAN	phosphoribosyl pyrophosphate	359					nucleotide biosynthetic process		enzyme inhibitor activity|magnesium ion binding|ribose phosphate diphosphokinase activity			skin(1)	1						GGAGTCCATGTCCTACCTTTT	0.478													6	35					0	0	1	0	0		C	18833976	C	C	18833976	3	2	49	1	0	0	0	0	1	0	0	0	12604	1667	58	3	1113	3	PRPSAP2	17	18833976	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	574660	18833976	62361234	1203	37883											
NOS2	4843	broad.mit.edu	37	chr17	26105782	26105782	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttccagagcgaggccagCttgtgcgtttccaggcccat	6	11	11	13	2	1	1	0	0	1	1	3	2	3	1	4	2	3	2	4	2	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:26105782C>T	uc002gzu.2	-	11	1479	c.1215G>A	c.(1213-1215)AAG>AAA	p.K405K	NOS2_uc010crh.1_Silent_p.K405K|NOS2_uc010wab.1_Silent_p.K405K	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	405					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GCGAGGCCAGCTTGTGCGTTT	0.547													32	81					0	0	1	0	0		T	26105782	T	T	26105782	2	4	49	1	0	0	0	0	0	0	0	1	10562	796	28	2		2	NOS2	17	26105782	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	7271806	26105782	55089428	1204	37884											
SPAG5	10615	broad.mit.edu	37	chr17	26911493	26911493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaatctgcaactgagcccGgagatctagaacaaaagtat	16	7	9	9	1	2	4	0	1	2	3	2	5	2	4	1	1	4	2	1	1	7	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:26911493G>A	uc002hbq.2	-	12	2259	c.2167C>T	c.(2167-2169)CGG>TGG	p.R723W	SGK494_uc010waq.1_Intron	NM_006461	NP_006452	Q96R06	SPAG5_HUMAN	sperm associated antigen 5	723	Gln-rich.				cell division|mitosis|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytoplasm|spindle pole	protein binding			central_nervous_system(1)	1	Lung NSC(42;0.00431)					AACTGAGCCCGGAGATCTAGA	0.498													10	148					0	0	1	0	0		A	26911493	A	A	26911493	3	1	49	1	0	0	0	0	1	0	0	0	15006	1115	39	1	1466	1	SPAG5	17	26911493	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	805711	26911493	54283717	1205	37885											
SGK494	124923	broad.mit.edu	37	chr17	26940691	26940691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctcgggcccagggaccccGgatgttgccaccctgctgag	5	6	14	16	2	0	1	0	1	0	0	1	3	0	3	6	3	2	2	6	3	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:26940691G>A	uc002hbr.1	-	2	123	c.91C>T	c.(91-93)CGG>TGG	p.R31W	SGK494_uc010waq.1_Missense_Mutation_p.R31W|SGK494_uc010war.1_RNA|uc010crq.1_5'Flank|uc002hbs.1_Intron	NM_144610	NP_653211			uncharacterized serine/threonine-protein kinase												0						CAGGGACCCCGGATGTTGCCA	0.572											OREG0024279	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	40					0	0	1	0	0		A	26940691	A	A	26940691	3	1	49	1	0	0	0	0	1	0	0	0	14238	1115	39	1	1185	1	SGK494	17	26940691	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	29198	26940691	54254519	1206	37886											
MYO18A	399687	broad.mit.edu	37	chr17	27424848	27424848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgttgatctccgctgcccGgatgagacgggcctccatca	6	8	11	16	4	2	2	1	2	1	1	4	4	3	3	5	2	1	2	5	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:27424848G>A	uc002hdt.1	-	26	4218	c.4060C>T	c.(4060-4062)CGG>TGG	p.R1354W	MYO18A_uc010wbc.1_Missense_Mutation_p.R896W|MYO18A_uc002hds.2_Missense_Mutation_p.R896W|MYO18A_uc010csa.1_Missense_Mutation_p.R1354W|MYO18A_uc002hdu.1_Missense_Mutation_p.R1354W|MYO18A_uc010wbd.1_Missense_Mutation_p.R1023W	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	1354	Potential.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			TCCGCTGCCCGGATGAGACGG	0.592													40	108					0	0	1	0	0		A	27424848	A	A	27424848	3	1	49	1	0	0	0	0	1	0	0	0	10083	1115	39	1	2172	1	MYO18A	17	27424848	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	484157	27424848	53770362	1207	37887											
MYO18A	399687	broad.mit.edu	37	chr17	27438750	27438750	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccacctaccttttttgtcAccttcctgggggccataata	7	14	7	13	0	1	0	1	0	0	0	2	0	2	0	6	2	2	0	6	2	3	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:27438750A>G	uc002hdt.1	-	16	2888	c.2730T>C	c.(2728-2730)GGT>GGC	p.G910G	MYO18A_uc010wbc.1_Silent_p.G452G|MYO18A_uc002hds.2_Silent_p.G452G|MYO18A_uc010csa.1_Silent_p.G910G|MYO18A_uc002hdu.1_Silent_p.G910G|MYO18A_uc010wbd.1_Silent_p.G579G	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	910	Myosin head-like.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CTTTTTTGTCACCTTCCTGGG	0.612											OREG0024287	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	31					0	0	1	0	0		G	27438750	G	G	27438750	2	3	49	1	0	0	0	0	0	0	0	1	10083	146	6	3		3	MYO18A	17	27438750	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	13902	27438750	53756460	1208	37888											
SSH2	85464	broad.mit.edu	37	chr17	27963595	27963595	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaagcagatcattctttcTttggtacacaggcctttctg	8	15	7	11	0	4	1	1	0	3	1	5	1	5	1	2	2	2	2	2	2	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:27963595T>C	uc002heo.1	-	14	1572	c.1572A>G	c.(1570-1572)AAA>AAG	p.K524K	SSH2_uc010wbh.1_Silent_p.K551K	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	524					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TCATTCTTTCTTTGGTACACA	0.433													31	59					0	0	1	0	0		C	27963595	C	C	27963595	2	2	49	1	0	0	0	0	0	0	0	1	15210	1606	56	3		3	SSH2	17	27963595	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	524845	27963595	53231615	1209	37889											
SLC6A4	6532	broad.mit.edu	37	chr17	28545192	28545192	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccaggtgatgttgtcctcGgagaagtaattggtgcagtt	8	13	14	6	1	0	2	0	1	0	1	3	3	2	2	2	3	1	4	2	3	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:28545192G>A	uc002hey.3	-	5	1186	c.642C>T	c.(640-642)TCC>TCT	p.S214S		NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	214	Extracellular (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	TGTTGTCCTCGGAGAAGTAAT	0.557													17	44					0	0	1	0	0		A	28545192	A	A	28545192	2	1	49	1	0	0	0	0	0	0	0	1	14711	1103	39	1		1	SLC6A4	17	28545192	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	581597	28545192	52650018	1210	37890											
CPD	1362	broad.mit.edu	37	chr17	28791624	28791624	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgctactatgtcggcatTgatcctaacagcttgcatta	10	13	9	9	1	0	1	0	1	0	0	2	1	1	1	1	2	5	4	1	2	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:28791624T>C	uc002hfb.1	+	21	3950	c.3935T>C	c.(3934-3936)TTG>TCG	p.L1312S	CPD_uc010wbo.1_Missense_Mutation_p.L1065S|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	1312	Helical; (Potential).				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						ATGTCGGCATTGATCCTAACA	0.388													19	166					0	0	1	0	0		C	28791624	C	C	28791624	3	2	49	1	0	0	0	0	1	0	0	0	3801	1821	63	3	4017	3	CPD	17	28791624	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	246432	28791624	52403586	1211	37891											
RAB11FIP4	84440	broad.mit.edu	37	chr17	29848367	29848367	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactcggacctggggtcttcGgtgtcttccaggtggcccct	3	12	13	13	2	2	0	0	0	2	0	5	1	3	1	4	6	1	0	4	6	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:29848367G>A	uc002hgn.1	+	5	976	c.747G>A	c.(745-747)TCG>TCA	p.S249S	RAB11FIP4_uc002hgo.2_Silent_p.S147S	NM_032932	NP_116321	Q86YS3	RFIP4_HUMAN	RAB11 family interacting protein 4 (class II)	249	Necessary for interaction with RAB11A, subcellular location, homo- or heterooligomerization.				cytokinesis|interspecies interaction between organisms|protein transport	cleavage furrow|endocytic vesicle|midbody|recycling endosome membrane	ADP-ribosylation factor binding|calcium ion binding|protein homodimerization activity|Rab GTPase binding			skin(1)	1		all_cancers(10;3.62e-13)|all_epithelial(10;0.000387)|all_lung(9;0.0132)|Breast(31;0.014)|all_hematologic(16;0.015)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0259)|Ovarian(249;0.0423)|Lung NSC(157;0.066)				TGGGGTCTTCGGTGTCTTCCA	0.582													10	26					0	0	1	0	0		A	29848367	A	A	29848367	2	1	49	1	0	0	0	0	0	0	0	1	12921	1103	39	1		1	RAB11FIP4	17	29848367	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1056743	29848367	51346843	1212	37892											
AP2B1	163	broad.mit.edu	37	chr17	33954489	33954489	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactagagaagttggacatcAtgattcgtttggcatctcaa	13	12	9	7	1	2	2	2	1	1	1	4	4	2	3	0	2	1	3	0	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:33954489A>G	uc002hjr.2	+	8	1213	c.1024A>G	c.(1024-1026)ATG>GTG	p.M342V	AP2B1_uc002hjq.2_Missense_Mutation_p.M342V|AP2B1_uc010wci.1_Missense_Mutation_p.M304V|AP2B1_uc002hjs.2_Missense_Mutation_p.M285V|AP2B1_uc002hjt.2_Missense_Mutation_p.M342V|AP2B1_uc010ctv.2_Missense_Mutation_p.M342V|AP2B1_uc010wcj.1_Missense_Mutation_p.M79V	NM_001282	NP_001273	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1	342					axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|coated pit|cytosol|endocytic vesicle membrane|plasma membrane	clathrin binding|protein transporter activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		GTTGGACATCATGATTCGTTT	0.403													21	47					0	0	1	0	0		G	33954489	G	G	33954489	3	3	49	1	0	0	0	0	1	0	0	0	741	217	8	3	1050	3	AP2B1	17	33954489	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4106122	33954489	47240721	1213	37893											
MMP28	79148	broad.mit.edu	37	chr17	34106043	34106043	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtggcgcggtccaacacGccgctgacaggtagctggga	8	5	17	11	4	0	1	0	1	0	0	1	2	1	2	2	5	2	3	2	5	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:34106043G>T	uc002hjy.1	-	3	487	c.228C>A	c.(226-228)GGC>GGA	p.G76G	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA|MMP28_uc002hka.2_Silent_p.G76G	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	76					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GGTCCAACACGCCGCTGACAG	0.617													7	20					2.0095e-06	2.11708e-06	1	1	0		T	34106043	T	T	34106043	2	4	49	1	0	0	0	0	0	0	0	1	9683	1074	38	5		5	MMP28	17	34106043	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	151554	34106043	47089167	1214	37894											
ACACA	31	broad.mit.edu	37	chr17	35580491	35580491	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaagtttggtaggacaTcaaaaatagatgtttctgat	16	12	10	3	0	2	4	1	1	1	3	2	5	2	5	0	2	0	3	0	2	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:35580491T>A	uc002hnm.2	-	28	3586	c.3395A>T	c.(3394-3396)GAT>GTT	p.D1132V	ACACA_uc002hnk.2_Missense_Mutation_p.D1054V|ACACA_uc002hnl.2_Missense_Mutation_p.D1074V|ACACA_uc002hnn.2_Missense_Mutation_p.D1132V|ACACA_uc002hno.2_Missense_Mutation_p.D1169V|ACACA_uc010cuz.2_Missense_Mutation_p.D1132V	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1132					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	TGGTAGGACATCAAAAATAGA	0.383													22	57					0	0	1	0	0		A	35580491	A	A	35580491	3	1	49	1	0	0	0	0	1	0	0	0	106	1435	50	5	3761	5	ACACA	17	35580491	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1474448	35580491	45614719	1215	37895											
SRCIN1	80725	broad.mit.edu	37	chr17	36720452	36720452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggggcagctcggcctccGacatggtctccagcgactcg	6	6	13	16	4	1	0	0	0	1	0	5	2	2	0	4	4	2	2	4	4	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:36720452G>A	uc002hqd.2	-	4	668	c.443C>T	c.(442-444)TCG>TTG	p.S148L	SRCIN1_uc002hqf.1_5'Flank|SRCIN1_uc002hqe.2_Missense_Mutation_p.S2L|SRCIN1_uc002hqh.1_Missense_Mutation_p.S208L	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	Error:Variant_position_missing_in_Q9C0H9_after_alignment					exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						CTCGGCCTCCGACATGGTCTC	0.692													5	7					0	0	1	0	0		A	36720452	A	A	36720452	3	1	49	1	0	0	0	0	1	0	0	0	15161	1059	37	1	3172	1	SRCIN1	17	36720452	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1139961	36720452	44474758	1216	37896											
GRB7	2886	broad.mit.edu	37	chr17	37902041	37902041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggcacgagcctcagtgcaGgtgggtgacggccccgagtc	6	5	16	14	4	1	1	1	1	0	0	2	3	1	1	4	4	2	2	4	4	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:37902041G>A	uc002hsr.2	+	12	1520	c.1270G>A	c.(1270-1272)GCC>ACC	p.A424T	GRB7_uc002hss.2_Missense_Mutation_p.A424T|GRB7_uc010cwc.2_Missense_Mutation_p.A424T|GRB7_uc002hst.2_Missense_Mutation_p.A424T	NM_005310	NP_005301	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	424					blood coagulation|epidermal growth factor receptor signaling pathway|leukocyte migration|negative regulation of translation|positive regulation of cell migration|stress granule assembly	cytosol|focal adhesion|stress granule	phosphatidylinositol binding|protein kinase binding|SH3/SH2 adaptor activity			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CCTCAGTGCAGGTGGGTGACG	0.632													15	30					0	0	1	0	0		A	37902041	A	A	37902041	3	1	49	1	0	0	0	0	1	0	0	0	6775	1014	35	4	1312	4	GRB7	17	37902041	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1181589	37902041	43293169	1217	37897											
GSDMA	284110	broad.mit.edu	37	chr17	38133118	38133118	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggataaagagggtgtttTccccctgcaacctgagctgc	8	10	12	11	0	0	2	0	1	0	1	1	3	1	3	3	2	4	4	3	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:38133118T>C	uc002htl.1	+	12	1263	c.1145T>C	c.(1144-1146)TTC>TCC	p.F382S	GSDMA_uc002htm.1_Missense_Mutation_p.F382S	NM_178171	NP_835465	Q96QA5	GSDMA_HUMAN	gasdermin 1	382					apoptosis|induction of apoptosis	perinuclear region of cytoplasm					0						GAGGGTGTTTTCCCCCTGCAA	0.557													29	79					0	0	1	0	0		C	38133118	C	C	38133118	3	2	49	1	0	0	0	0	1	0	0	0	6832	1783	62	3	1187	3	GSDMA	17	38133118	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	231077	38133118	43062092	1218	37898											
CCR7	1236	broad.mit.edu	37	chr17	38711960	38711960	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgatagggaggaaccaggcTttaaagttccgcacgtcctt	11	10	11	9	2	0	1	0	1	0	0	2	3	2	3	3	3	1	3	3	3	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:38711960T>C	uc002huw.2	-	3	234	c.171A>G	c.(169-171)AAA>AAG	p.K57K		NM_001838	NP_001829	P32248	CCR7_HUMAN	chemokine (C-C motif) receptor 7 precursor	57	Extracellular (Potential).				cell maturation|immunological synapse formation|inflammatory response|interleukin-12 secretion|lymphocyte migration into lymph node|positive regulation of dendritic cell antigen processing and presentation|positive regulation of glycoprotein biosynthetic process|positive regulation of humoral immune response|positive regulation of hypersensitivity|positive regulation of interleukin-12 production|positive regulation of neutrophil chemotaxis|regulation of interferon-gamma production|regulation of interleukin-1 beta secretion|T cell costimulation	integral to membrane|intracellular	C-C chemokine receptor activity|chemokine (C-C motif) ligand 19 binding|chemokine (C-C motif) ligand 21 binding			breast(1)	1		Breast(137;0.000496)				GGAACCAGGCTTTAAAGTTCC	0.483													7	56					0	0	1	0	0		C	38711960	C	C	38711960	2	2	49	1	0	0	0	0	0	0	0	1	2949	1606	56	3		3	CCR7	17	38711960	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	578842	38711960	42483250	1219	37899											
SMARCE1	6605	broad.mit.edu	37	chr17	38792670	38792670	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctgcttcgtattcgtttaAatattcttgtttttcttcat	6	24	4	7	2	4	0	1	0	3	0	6	0	4	0	0	0	1	4	0	0	4	12			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:38792670A>C	uc002hux.2	-	6	470	c.346T>G	c.(346-348)TTA>GTA	p.L116V	SMARCE1_uc010wff.1_Missense_Mutation_p.L81V|SMARCE1_uc010wfg.1_Missense_Mutation_p.L46V|SMARCE1_uc002huy.2_Missense_Mutation_p.L81V|SMARCE1_uc010wfh.1_Missense_Mutation_p.L46V|SMARCE1_uc010wfi.1_Missense_Mutation_p.L98V|SMARCE1_uc002huz.1_Missense_Mutation_p.L81V|SMARCE1_uc010wfj.1_Missense_Mutation_p.L98V	NM_003079	NP_003070	Q969G3	SMCE1_HUMAN	SWI/SNF-related matrix-associated	116	HMG box.				chromatin modification|negative regulation of transcription, DNA-dependent|nervous system development|nucleosome disassembly|regulation of transcription from RNA polymerase II promoter	nBAF complex|npBAF complex|nuclear chromosome|SWI/SNF complex|transcriptional repressor complex	chromatin binding|DNA binding|N-acetyltransferase activity|protein binding|protein N-terminus binding|transcription coactivator activity				0		Breast(137;0.000812)				TATTCGTTTAAATATTCTTGT	0.388													24	192					0	0	1	0	0		C	38792670	C	C	38792670	3	2	49	1	0	0	0	0	1	0	0	0	14805	11	1	5	913	5	SMARCE1	17	38792670	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	80710	38792670	42402540	1220	37900											
KRT28	162605	broad.mit.edu	37	chr17	38953225	38953225	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagggtgcgcctcatctcGgtgagctggctccgggcgaa	5	8	16	12	4	2	1	1	1	1	0	4	2	3	1	2	4	3	3	2	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:38953225G>A	uc002hvh.1	-	5	987	c.921C>T	c.(919-921)ACC>ACT	p.T307T		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	307	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				GCCTCATCTCGGTGAGCTGGC	0.617													25	64					0	0	1	0	0		A	38953225	A	A	38953225	2	1	49	1	0	0	0	0	0	0	0	1	8481	1103	39	1		1	KRT28	17	38953225	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	160555	38953225	42241985	1221	37901											
KRT23	25984	broad.mit.edu	37	chr17	39092710	39092710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggggtgggcagctccgcGtggtgaaggacagggagatg	8	5	21	7	2	0	2	0	1	0	1	1	4	1	3	1	6	1	2	1	6	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:39092710G>A	uc002hvm.1	-	2	735	c.146C>T	c.(145-147)ACG>ATG	p.T49M	KRT23_uc010wfl.1_Intron|KRT23_uc010cxf.1_Intron|KRT23_uc010cxg.2_Missense_Mutation_p.T49M|KRT23_uc002hvn.1_Missense_Mutation_p.T49M	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	49	Head.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				GCAGCTCCGCGTGGTGAAGGA	0.687													13	40					0	0	1	0	0		A	39092710	A	A	39092710	3	1	49	1	0	0	0	0	1	0	0	0	8476	1145	40	1	1154	1	KRT23	17	39092710	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	139485	39092710	42102500	1222	37902											
KRTAP1-1	81851	broad.mit.edu	37	chr17	39197586	39197586	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggctggcagcagctggAgccgcaggtcccactggtgg	5	7	17	12	1	0	0	0	0	0	0	1	1	1	1	2	6	3	6	2	6	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:39197586A>G	uc002hvw.1	-	1	128	c.64T>C	c.(64-66)TCC>CCC	p.S22P		NM_030967	NP_112229	Q07627	KRA11_HUMAN	keratin associated protein 1-1	22			Missing (in allele KAP1.7).|PSCSTSGTCGSSCCQPSCCETSSCQPRCCETSCCQPSCCQT SFCGFP -> R (in allele KAP1.6).			extracellular region|keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			CAGCAGCTGGAGCCGCAGGTC	0.612													6	58					0	0	1	0	0		G	39197586	G	G	39197586	3	3	49	1	0	0	0	0	1	0	0	0	8518	304	11	3	473	3	KRTAP1-1	17	39197586	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	104876	39197586	41997624	1223	37903											
KRT32	3882	broad.mit.edu	37	chr17	39622023	39622023	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcgggacttccagcctcAcctcctcatggttctttttg	5	14	8	14	1	4	0	3	0	1	0	6	1	6	1	4	2	2	1	4	2	0	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:39622023A>G	uc002hwr.2	-	3	769	c.708_splice	c.e3+1	p.E236_splice		NM_002278	NP_002269	Q14532	K1H2_HUMAN	keratin 32						epidermis development	intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000812)				TTCCAGCCTCACCTCCTCATG	0.403													5	73					0	0	1	0	0		G	39622023	G	G	39622023	5	3	49	1	0	0	0	0	0	0	1	0	8484	173	6	3	656	3	KRT32	17	39622023	Splice_Site	SNP	A	TCGA-BR-7707-01A-11D-2053-08	424437	39622023	41573187	1224	37904											
KRT9	3857	broad.mit.edu	37	chr17	39723536	39723536	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaagactaggaatgggAtgattttccgcttcctcctc	10	11	11	9	1	0	3	0	1	0	2	4	6	3	6	3	3	0	1	3	3	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:39723536A>G	uc002hxe.3	-	7	1927	c.1861T>C	c.(1861-1863)TCC>CCC	p.S621P	JUP_uc010wfs.1_Intron	NM_000226	NP_000217	P35527	K1C9_HUMAN	keratin 9	621	Tail.				intermediate filament organization|skin development		protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Breast(137;0.000307)				TAGGAATGGGATGATTTtccg	0.239													14	70					0	0	1	0	0		G	39723536	G	G	39723536	3	3	49	1	0	0	0	0	1	0	0	0	8517	333	12	3	14	3	KRT9	17	39723536	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	101513	39723536	41471674	1225	37905											
KRT16	3868	broad.mit.edu	37	chr17	39768744	39768744	+	Frame_Shift_Del	DEL	C	-	-																															tgaagccaccgccatagccgCcccccagcccgcaggctccc																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:39768744delC	uc002hxg.3	-	1	336	c.197delG	c.(196-198)GGCfs	p.G66fs	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	66	Head.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				GCCATAGCCGCCCCCCAGCCC	0.488													4	6	---	---	---	---						.	-	39768744	-	-	39768744	7	5	49	1	0	1	0	1	0	0	0	0	8469	739	26	0	1256	0	KRT16	17	39768744	Frame_Shift_Del	DEL	C	TCGA-BR-7707-01A-11D-2053-08	45208	39768744	41426466	1226	37906											
CNP	1267	broad.mit.edu	37	chr17	40120397	40120397	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtacaagcggctcgatgaGgacctggctgcctactgccg	8	7	14	12	3	0	1	0	1	0	0	1	4	0	2	3	3	5	3	3	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:40120397G>A	uc002hyl.1	+	2	459	c.315G>A	c.(313-315)GAG>GAA	p.E105E	CNP_uc002hyk.1_Silent_p.E105E|CNP_uc010wfz.1_Intron|CNP_uc002hym.1_Silent_p.E85E|CNP_uc010wga.1_Intron	NM_033133	NP_149124	P09543	CN37_HUMAN	2',3'-cyclic nucleotide 3' phosphodiesterase	105					cell killing|cyclic nucleotide catabolic process|RNA metabolic process|synaptic transmission	extracellular space|melanosome	2',3'-cyclic-nucleotide 3'-phosphodiesterase activity|ATP binding|protein binding				0		all_cancers(22;2.38e-06)|all_epithelial(22;6.79e-05)|Breast(137;0.000143)		UCEC - Uterine corpus endometrioid carcinoma (308;0.171)		GGCTCGATGAGGACCTGGCTG	0.592													4	30					0	0	1	0	0		A	40120397	A	A	40120397	2	1	49	1	0	0	0	0	0	0	0	1	3629	991	35	4		4	CNP	17	40120397	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	351653	40120397	41074813	1227	37907											
KCNH4	23415	broad.mit.edu	37	chr17	40312256	40312256	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcagtgaacttcagcaagCgtagtatcctggaggctggg	9	8	16	8	1	1	1	1	1	0	0	2	2	2	2	1	4	3	5	1	4	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:40312256C>T	uc002hzb.2	-	16	3189	c.2856G>A	c.(2854-2856)ACG>ACA	p.T952T		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	952	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	two-component sensor activity|voltage-gated potassium channel activity			large_intestine(1)	1		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		CTTCAGCAAGCGTAGTATCCT	0.617													6	69					0	0	1	0	0		T	40312256	T	T	40312256	2	4	49	1	0	0	0	0	0	0	0	1	8050	755	27	1		1	KCNH4	17	40312256	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	191859	40312256	40882954	1228	37908											
WNK4	65266	broad.mit.edu	37	chr17	40948272	40948272	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtccagccgccagcgccGcctctccaagggcagcttcc	5	6	11	19	3	1	0	0	0	1	0	4	0	3	0	7	1	3	3	7	1	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:40948272G>A	uc002ibj.2	+	17	3584	c.3563G>A	c.(3562-3564)CGC>CAC	p.R1188H	WNK4_uc010wgx.1_Missense_Mutation_p.R852H|CCDC56_uc010wgz.1_Intron|CNTD1_uc002ibm.3_5'Flank|CNTD1_uc010wha.1_5'Flank	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	1188					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		CGCCAGCGCCGCCTCTCCAAG	0.612													3	4					0	0	1	0	0		A	40948272	A	A	40948272	3	1	49	1	0	0	0	0	1	0	0	0	17406	1087	38	1	3629	1	WNK4	17	40948272	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	636016	40948272	40246938	1229	37909											
DHX8	1659	broad.mit.edu	37	chr17	41585055	41585055	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctctttggattgttgaaaaAggtaactagatgctctttaa	12	15	9	5	0	2	2	0	1	2	1	2	3	2	3	0	2	2	4	0	2	5	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:41585055A>G	uc002idu.1	+	14	2181	c.2108A>G	c.(2107-2109)AAG>AGG	p.K703R	DHX8_uc010wif.1_Missense_Mutation_p.K612R|DHX8_uc010wig.1_Missense_Mutation_p.K703R	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	703	Helicase ATP-binding.					catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		TTGTTGAAAAAGGTAACTAGA	0.448													9	121					0	0	1	0	0		G	41585055	G	G	41585055	3	3	49	1	0	0	0	0	1	0	0	0	4521	86	3	3	2162	3	DHX8	17	41585055	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	636783	41585055	39610155	1230	37910											
MPP2	4355	broad.mit.edu	37	chr17	41960294	41960294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgttctccggctgtcttgcGgatgcccaccatgcgcacag	6	10	11	14	3	2	0	0	0	2	0	3	1	2	1	3	2	3	3	3	2	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:41960294G>A	uc010wip.1	-	5	622	c.565C>T	c.(565-567)CGC>TGC	p.R189C	MPP2_uc002ien.1_Missense_Mutation_p.R161C|MPP2_uc010wim.1_Missense_Mutation_p.R133C|MPP2_uc002ieo.1_Missense_Mutation_p.R144C|MPP2_uc010win.1_Missense_Mutation_p.R5C|MPP2_uc010wio.1_Missense_Mutation_p.R133C|MPP2_uc010czm.1_Missense_Mutation_p.R127C	NM_005374	NP_005365	Q14168	MPP2_HUMAN	palmitoylated membrane protein 2	168					signal transduction	cell surface|integral to plasma membrane|membrane fraction	guanylate kinase activity				0		Breast(137;0.00314)		BRCA - Breast invasive adenocarcinoma(366;0.12)		GCTGTCTTGCGGATGCCCACC	0.592													21	240					0	0	1	0	0		A	41960294	A	A	41960294	3	1	49	1	0	0	0	0	1	0	0	0	9752	1116	39	1	1264	1	MPP2	17	41960294	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	375239	41960294	39234916	1231	37911											
SLC4A1	6521	broad.mit.edu	37	chr17	42337271	42337271	+	Frame_Shift_Del	DEL	C	-	-																															tcaggactgcaggcttcacaCcccccagggcctccagctct																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:42337271delC	uc002igf.3	-	7	664	c.515delG	c.(514-516)GGTfs	p.G172fs	SLC4A1_uc002igg.3_Frame_Shift_Del_p.G172fs	NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	172	Cytoplasmic.				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		AGGCTTCACACCCCCCAGGGC	0.602													38	85	---	---	---	---						.	-	42337271	-	-	42337271	7	5	49	1	0	1	0	1	0	0	0	0	14675	507	18	0	2276	0	SLC4A1	17	42337271	Frame_Shift_Del	DEL	C	TCGA-BR-7707-01A-11D-2053-08	376977	42337271	38857939	1232	37912											
ITGA2B	3674	broad.mit.edu	37	chr17	42461924	42461924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtagtgttgagatcccCgtcgaactcgcccacggcca	7	8	11	15	4	0	1	0	1	0	1	3	3	1	1	5	1	1	2	5	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:42461924C>T	uc002igt.1	-	8	861	c.829G>A	c.(829-831)GGG>AGG	p.G277R		NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	277	Potential.|Extracellular (Potential).|FG-GAP 4.				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	TTGAGATCCCCGTCGAACTCG	0.562													26	63					0	0	1	0	0		T	42461924	T	T	42461924	3	4	49	1	0	0	0	0	1	0	0	0	7892	652	23	1	2382	1	ITGA2B	17	42461924	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	124653	42461924	38733286	1233	37913											
ADAM11	4185	broad.mit.edu	37	chr17	42837183	42837183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtcacggaacccagccGtctggttagggagagctccg	8	7	15	11	3	2	2	1	1	1	1	3	4	3	3	3	4	3	2	3	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:42837183G>A	uc002ihh.2	+	2	155	c.155G>A	c.(154-156)CGT>CAT	p.R52H	ADAM11_uc010wjd.1_5'UTR	NM_002390	NP_002381	O75078	ADA11_HUMAN	ADAM metallopeptidase domain 11 preproprotein	52					integrin-mediated signaling pathway|proteolysis	integral to membrane|plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			pancreas(1)	1		Prostate(33;0.0959)				GAACCCAGCCGTCTGGTTAGG	0.692													11	15					0	0	1	0	0		A	42837183	A	A	42837183	3	1	49	1	0	0	0	0	1	0	0	0	235	1145	40	1	161	1	ADAM11	17	42837183	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	375259	42837183	38358027	1234	37914											
ADAM11	4185	broad.mit.edu	37	chr17	42855087	42855087	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgtgcagctggcggaCggctctgacctgagctatgt	6	8	15	12	3	1	2	0	2	1	0	1	3	1	3	2	4	3	4	2	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:42855087C>T	uc002ihh.2	+	23	1926	c.1926C>T	c.(1924-1926)GAC>GAT	p.D642D	ADAM11_uc010wjd.1_Silent_p.D442D|ADAM11_uc002ihi.2_Translation_Start_Site	NM_002390	NP_002381	O75078	ADA11_HUMAN	ADAM metallopeptidase domain 11 preproprotein	642	Cys-rich.|Extracellular (Potential).				integrin-mediated signaling pathway|proteolysis	integral to membrane|plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			pancreas(1)	1		Prostate(33;0.0959)				AGCTGGCGGACGGCTCTGACC	0.632													20	50					0	0	1	0	0		T	42855087	T	T	42855087	2	4	49	1	0	0	0	0	0	0	0	1	235	535	19	1		1	ADAM11	17	42855087	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	17904	42855087	38340123	1235	37915											
MAP3K14	9020	broad.mit.edu	37	chr17	43345039	43345039	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagctctctcggctgggcaTggagggtctggtggtaattg	7	11	16	7	1	2	0	0	0	2	0	4	1	2	1	0	6	1	4	0	6	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:43345039T>C	uc002iiw.1	-	13	2169	c.2060A>G	c.(2059-2061)CAT>CGT	p.H687R	LOC100133991_uc010dah.2_Intron|LOC100133991_uc002iit.3_Intron|LOC100133991_uc010dai.2_Intron|MAP3K14_uc002iiu.1_Missense_Mutation_p.H217R|MAP3K14_uc010daj.1_RNA|MAP3K14_uc002iiv.1_Missense_Mutation_p.H271R	NM_003954	NP_003945	Q99558	M3K14_HUMAN	mitogen-activated protein kinase kinase kinase	687					cellular response to mechanical stimulus|I-kappaB kinase/NF-kappaB cascade|immune response|positive regulation of I-kappaB kinase/NF-kappaB cascade|T cell costimulation	cytosol	ATP binding|MAP kinase kinase kinase activity|NF-kappaB-inducing kinase activity|protein binding			central_nervous_system(3)|breast(2)|lung(1)|ovary(1)|stomach(1)	8						CGGCTGGGCATGGAGGGTCTG	0.587													11	106					0	0	1	0	0		C	43345039	C	C	43345039	3	2	49	1	0	0	0	0	1	0	0	0	9266	1464	51	3	803	3	MAP3K14	17	43345039	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	489952	43345039	37850171	1236	37916											
SP2	6668	broad.mit.edu	37	chr17	45993853	45993853	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcggtccctcagattcAggcaagcaattcccaaacca	12	6	8	15	1	2	1	2	0	0	1	4	1	4	1	4	3	2	2	4	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:45993853A>G	uc002imk.2	+	3	553	c.416A>G	c.(415-417)CAG>CGG	p.Q139R	SP2_uc002iml.2_Missense_Mutation_p.Q132R|uc002imm.2_Intron	NM_003110	NP_003101	Q02086	SP2_HUMAN	Sp2 transcription factor	139					immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|histone deacetylase binding|zinc ion binding				0						CCTCAGATTCAGGCAAGCAAT	0.542													12	91					0	0	1	0	0		G	45993853	G	G	45993853	3	3	49	1	0	0	0	0	1	0	0	0	14989	188	7	3	426	3	SP2	17	45993853	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2648814	45993853	35201357	1237	37917											
SP2	6668	broad.mit.edu	37	chr17	46002400	46002400	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccggagagacccagccCggggagaagcggcgccgcat	8	2	17	14	5	0	2	0	0	0	2	0	5	0	3	4	5	2	1	4	5	1	0	rs138122841		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:46002400C>T	uc002imk.2	+	5	1625	c.1488C>T	c.(1486-1488)CCC>CCT	p.P496P	SP2_uc002iml.2_Silent_p.P489P	NM_003110	NP_003101	Q02086	SP2_HUMAN	Sp2 transcription factor	496					immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|histone deacetylase binding|zinc ion binding				0						AGACCCAGCCCGGGGAGAAGC	0.607													7	54					0	0	1	0	0		T	46002400	T	T	46002400	2	4	49	1	0	0	0	0	0	0	0	1	14989	639	23	1		1	SP2	17	46002400	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	8547	46002400	35192810	1238	37918											
LRRC59	55379	broad.mit.edu	37	chr17	48472334	48472334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agacagatccaggatggtggCctttggaagggcagcctagg	10	7	16	8	0	0	2	0	0	0	2	1	4	1	4	3	6	1	1	3	6	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:48472334C>T	uc002iqt.2	-	2	275	c.121G>A	c.(121-123)GCC>ACC	p.A41T		NM_018509	NP_060979	Q96AG4	LRC59_HUMAN	leucine rich repeat containing 59	41	Cytoplasmic (Potential).|LRR 2.					endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial nucleoid	protein binding			central_nervous_system(1)	1	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			AGGATGGTGGCCTTTGGAAGG	0.453													6	43					0	0	1	0	0		T	48472334	T	T	48472334	3	4	49	1	0	0	0	0	1	0	0	0	9033	739	26	2	826	2	LRRC59	17	48472334	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2469934	48472334	32722876	1239	37919											
SPATA20	64847	broad.mit.edu	37	chr17	48632944	48632944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggttggaagaccaggccaCtgcatatgtgtgtgagaatc	11	9	13	8	1	0	2	0	1	0	2	1	4	0	3	2	3	1	2	2	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:48632944C>T	uc002irf.2	+	16	2423	c.2282C>T	c.(2281-2283)ACT>ATT	p.T761I	SPATA20_uc002irc.2_Missense_Mutation_p.T428I|SPATA20_uc002ire.2_Missense_Mutation_p.T717I|SPATA20_uc002ird.2_Missense_Mutation_p.T777I|SPATA20_uc002irg.2_RNA	NM_022827	NP_073738	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	761					cell differentiation|mannose metabolic process|multicellular organismal development|spermatogenesis	extracellular region	mannose-6-phosphate isomerase activity|protein binding				0	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			GACCAGGCCACTGCATATGTG	0.572													11	59					0	0	1	0	0		T	48632944	T	T	48632944	3	4	49	1	0	0	0	0	1	0	0	0	15031	565	20	4	2396	4	SPATA20	17	48632944	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	160610	48632944	32562266	1240	37920											
CACNA1G	8913	broad.mit.edu	37	chr17	48692826	48692826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcatcacaggtgtcatcGggctgaacgtggtcaccatg	8	11	11	11	2	5	1	4	1	1	0	6	1	5	1	1	3	1	1	1	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:48692826G>A	uc002irk.1	+	27	5236	c.4864G>A	c.(4864-4866)GGG>AGG	p.G1622R	CACNA1G_uc002irj.1_Missense_Mutation_p.G1588R|CACNA1G_uc002irl.1_Missense_Mutation_p.G1599R|CACNA1G_uc002irm.1_Missense_Mutation_p.G1588R|CACNA1G_uc002irn.1_Missense_Mutation_p.G1581R|CACNA1G_uc002iro.1_Missense_Mutation_p.G1588R|CACNA1G_uc002irp.1_Missense_Mutation_p.G1622R|CACNA1G_uc002irq.1_Missense_Mutation_p.G1599R|CACNA1G_uc002irr.1_Missense_Mutation_p.G1622R|CACNA1G_uc002irs.1_Missense_Mutation_p.G1611R|CACNA1G_uc002irt.1_Missense_Mutation_p.G1604R|CACNA1G_uc002irv.1_Missense_Mutation_p.G1611R|CACNA1G_uc002irw.1_Missense_Mutation_p.G1599R|CACNA1G_uc002iru.1_Missense_Mutation_p.G1588R|CACNA1G_uc002irx.1_Missense_Mutation_p.G1535R|CACNA1G_uc002iry.1_Missense_Mutation_p.G1524R|CACNA1G_uc002irz.1_Missense_Mutation_p.G1535R|CACNA1G_uc002isa.1_Missense_Mutation_p.G1501R|CACNA1G_uc002isb.1_Missense_Mutation_p.G1542R|CACNA1G_uc002isc.1_Missense_Mutation_p.G1524R|CACNA1G_uc002isd.1_Missense_Mutation_p.G1517R|CACNA1G_uc002ise.1_Missense_Mutation_p.G1490R|CACNA1G_uc002isf.1_Missense_Mutation_p.G1517R|CACNA1G_uc002isg.1_Missense_Mutation_p.G1483R|CACNA1G_uc002ish.1_Missense_Mutation_p.G1490R|CACNA1G_uc002isi.1_Missense_Mutation_p.G1478R	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1622	IV.|Helical; Name=S1 of repeat IV; (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	AGGTGTCATCGGGCTGAACGT	0.612													9	31					0	0	1	0	0		A	48692826	A	A	48692826	3	1	49	1	0	0	0	0	1	0	0	0	2547	1116	39	1	5237	1	CACNA1G	17	48692826	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	59882	48692826	32502384	1241	37921											
CACNA1G	8913	broad.mit.edu	37	chr17	48703460	48703460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggtgagtgggccctcccCgcccctggcccgggcctact	4	6	14	17	2	0	2	0	1	0	1	1	2	1	2	7	4	1	0	7	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:48703460C>T	uc002irk.1	+	38	6854	c.6482C>T	c.(6481-6483)CCG>CTG	p.P2161L	CACNA1G_uc002irj.1_Intron|CACNA1G_uc002irl.1_Missense_Mutation_p.P2045L|CACNA1G_uc002irm.1_Missense_Mutation_p.P2082L|CACNA1G_uc002irn.1_Missense_Mutation_p.P2027L|CACNA1G_uc002iro.1_Missense_Mutation_p.P2034L|CACNA1G_uc002irp.1_Missense_Mutation_p.P2116L|CACNA1G_uc002irq.1_Missense_Mutation_p.P2138L|CACNA1G_uc002irr.1_Missense_Mutation_p.P2068L|CACNA1G_uc002irs.1_Missense_Mutation_p.P2105L|CACNA1G_uc002irt.1_Missense_Mutation_p.P2050L|CACNA1G_uc002irv.1_Missense_Mutation_p.P2057L|CACNA1G_uc002irw.1_Missense_Mutation_p.P2090L|CACNA1G_uc002iru.1_Missense_Mutation_p.P2127L|CACNA1G_uc002irx.1_Intron|CACNA1G_uc002iry.1_Intron|CACNA1G_uc002irz.1_Missense_Mutation_p.P1974L|CACNA1G_uc002isa.1_Missense_Mutation_p.P1947L|CACNA1G_uc002isb.1_Missense_Mutation_p.P1988L|CACNA1G_uc002isc.1_Missense_Mutation_p.P2063L|CACNA1G_uc002isd.1_Missense_Mutation_p.P1956L|CACNA1G_uc002ise.1_Missense_Mutation_p.P1984L|CACNA1G_uc002isf.1_Missense_Mutation_p.P2011L|CACNA1G_uc002isg.1_Missense_Mutation_p.P1929L|CACNA1G_uc002ish.1_Missense_Mutation_p.P1936L|CACNA1G_uc002isi.1_Missense_Mutation_p.P1924L	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	2161	Cytoplasmic (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GGGCCCTCCCCGCCCCTGGCC	0.642											OREG0024569	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	35					0	0	1	0	0		T	48703460	T	T	48703460	3	4	49	1	0	0	0	0	1	0	0	0	2547	652	23	1	6899	1	CACNA1G	17	48703460	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	10634	48703460	32491750	1242	37922											
LUC7L3	51747	broad.mit.edu	37	chr17	48822104	48822104	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagatgcccagtcccgggTagatgaccatttgatgggaa	11	8	14	8	1	0	4	0	2	0	2	1	6	1	5	3	3	1	1	3	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:48822104T>C	uc002isr.2	+	7	740	c.623T>C	c.(622-624)GTA>GCA	p.V208A	LUC7L3_uc002isp.1_Missense_Mutation_p.V132A|LUC7L3_uc010wmw.1_Missense_Mutation_p.V132A|LUC7L3_uc002isq.2_Missense_Mutation_p.V208A|LUC7L3_uc002iss.2_Missense_Mutation_p.V208A	NM_006107	NP_006098	O95232	LC7L3_HUMAN	LUC7-like 3	208					apoptosis|mRNA processing|response to stress|RNA splicing	focal adhesion|nuclear speck	DNA binding|mRNA binding|protein binding				0						CAGTCCCGGGTAGATGACCAT	0.328													4	80					0	0	1	0	0		C	48822104	C	C	48822104	3	2	49	1	0	0	0	0	1	0	0	0	9102	1638	57	3	649	3	LUC7L3	17	48822104	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	118644	48822104	32373106	1243	37923											
KIF2B	84643	broad.mit.edu	37	chr17	51902173	51902173	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacagagtgaggagcagaaAgagattgaagaggttgaaac	17	6	15	3	0	0	7	0	3	0	4	0	9	0	8	0	2	3	3	0	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:51902173A>C	uc002iua.2	+	1	1935	c.1779A>C	c.(1777-1779)AAA>AAC	p.K593N	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	593					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						AGGAGCAGAAAGAGATTGAAG	0.418													6	97					0	0	1	0	0		C	51902173	C	C	51902173	3	2	49	1	0	0	0	0	1	0	0	0	8314	69	3	5	1781	5	KIF2B	17	51902173	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3080069	51902173	29293037	1244	37924											
STXBP4	252983	broad.mit.edu	37	chr17	53077036	53077036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattcataagacaaaaatccGacaacattcagccagaaaat	20	7	4	10	1	2	2	2	0	0	2	3	3	3	2	2	0	2	0	2	0	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:53077036G>A	uc002iuf.1	+	6	538	c.331G>A	c.(331-333)GAC>AAC	p.D111N	STXBP4_uc010dcc.1_Missense_Mutation_p.D36N|STXBP4_uc010dcd.1_Missense_Mutation_p.D111N	NM_178509	NP_848604	Q6ZWJ1	STXB4_HUMAN	syntaxin binding protein 4	111						cytoplasm	calcium ion binding			ovary(1)	1						ACAAAAATCCGACAACATTCA	0.353													9	38					0	0	1	0	0		A	53077036	A	A	53077036	3	1	49	1	0	0	0	0	1	0	0	0	15380	1058	37	1	345	1	STXBP4	17	53077036	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1174863	53077036	28118174	1245	37925											
BZRAP1	9256	broad.mit.edu	37	chr17	56389881	56389881	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctgcatcctcctcctcAggtctgggctggctccttcc	2	12	8	19	0	2	0	1	0	1	0	8	0	8	0	7	3	1	3	7	3	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:56389881A>G	uc002ivx.3	-	17	3172	c.2301T>C	c.(2299-2301)CCT>CCC	p.P767P	BZRAP1_uc010dcs.2_Silent_p.P707P|BZRAP1_uc010wnt.1_Silent_p.P767P	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	767						mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CCTCCTCCTCAGGTCTGGGCT	0.657													20	86					0	0	1	0	0		G	56389881	G	G	56389881	2	3	49	1	0	0	0	0	0	0	0	1	1580	175	7	3		3	BZRAP1	17	56389881	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3312845	56389881	24805329	1246	37926											
BZRAP1	9256	broad.mit.edu	37	chr17	56389972	56389972	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactgagttcagggcctgagCtgtgggacaaatcggccagc	10	7	14	10	1	1	2	1	2	0	0	2	3	1	3	2	3	3	2	2	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:56389972C>G	uc002ivx.3	-	17	3081	c.2210G>C	c.(2209-2211)AGC>ACC	p.S737T	BZRAP1_uc010dcs.2_Missense_Mutation_p.S677T|BZRAP1_uc010wnt.1_Missense_Mutation_p.S737T	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	737						mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AGGGCCTGAGCTGTGGGACAA	0.612													9	80					0	0	1	0	0		G	56389972	G	G	56389972	3	3	49	1	0	0	0	0	1	0	0	0	1580	797	28	5	3423	5	BZRAP1	17	56389972	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	91	56389972	24805238	1247	37927											
SUPT4H1	6827	broad.mit.edu	37	chr17	56424934	56424934	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtcctctggactcatcAtcgcaatgattctagggagg	9	11	11	10	1	4	1	2	1	2	0	6	3	5	3	1	3	1	2	1	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:56424934A>G	uc002iwe.1	-	3	255	c.188T>C	c.(187-189)ATG>ACG	p.M63T	uc010dct.1_Intron|uc010dcu.1_Intron|uc002ivz.2_Intron|uc010dcv.1_Intron|uc002iwa.2_Intron|uc002iwb.2_Intron|uc002iwc.2_Intron|SUPT4H1_uc002iwd.1_RNA	NM_003168	NP_003159	P63272	SPT4H_HUMAN	suppressor of Ty 4 homolog 1	63					chromatin remodeling|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGGACTCATCATCGCAATGAT	0.498													6	54					0	0	1	0	0		G	56424934	G	G	56424934	3	3	49	1	0	0	0	0	1	0	0	0	15423	217	8	3	177	3	SUPT4H1	17	56424934	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	34962	56424934	24770276	1248	37928											
TLK2	11011	broad.mit.edu	37	chr17	60657500	60657500	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatccaacgctaaatgacAgatatttgttgttacatctt	13	15	5	8	1	2	2	1	1	1	1	3	2	3	2	1	0	2	3	1	0	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:60657500A>G	uc010ddp.2	+	16	1649	c.1381A>G	c.(1381-1383)AGA>GGA	p.R461G	TLK2_uc002izx.3_Missense_Mutation_p.R287G|TLK2_uc002izz.3_Missense_Mutation_p.R439G|TLK2_uc002jaa.3_Missense_Mutation_p.R407G|TLK2_uc010wpd.1_Missense_Mutation_p.R407G	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	461					cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						GCTAAATGACAGATATTTGTT	0.403													3	53					0	0	1	0	0		G	60657500	G	G	60657500	3	3	49	1	0	0	0	0	1	0	0	0	15969	180	7	3	1369	3	TLK2	17	60657500	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4232566	60657500	20537710	1249	37929											
SMURF2	64750	broad.mit.edu	37	chr17	62551006	62551006	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttattttcttcattaacAgggatacttttgccatttgg	8	21	6	6	0	2	0	1	0	1	0	2	1	2	1	1	2	3	0	1	2	3	11			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:62551006A>G	uc002jep.1	-	15	2104	c.1716T>C	c.(1714-1716)CCT>CCC	p.P572P	SMURF2_uc002jeq.1_Silent_p.P331P|SMURF2_uc002jer.1_Silent_p.P331P	NM_022739	NP_073576	Q9HAU4	SMUF2_HUMAN	SMAD specific E3 ubiquitin protein ligase 2	572	HECT.				BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|membrane raft|nucleus|plasma membrane|ubiquitin ligase complex	identical protein binding|SMAD binding|ubiquitin-protein ligase activity			skin(3)|lung(1)	4	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)			CTTCATTAACAGGGATACTTT	0.313													5	53					0	0	1	0	0		G	62551006	G	G	62551006	2	3	49	1	0	0	0	0	0	0	0	1	14845	175	7	3		3	SMURF2	17	62551006	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1893506	62551006	18644204	1250	37930											
CCDC46	201134	broad.mit.edu	37	chr17	64049989	64049989	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccatttctgctacagcAttgtgaagctacatcaggaa	11	13	8	9	0	2	1	1	1	1	0	3	2	3	2	1	1	5	4	1	1	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:64049989A>G	uc002jfl.2	-	12	1302	c.1083T>C	c.(1081-1083)AAT>AAC	p.N361N	CCDC46_uc010deo.2_Silent_p.N103N|CCDC46_uc002jfm.2_Silent_p.N361N|CCDC46_uc010dep.2_Silent_p.N319N	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	361	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			CTGCTACAGCATTGTGAAGCT	0.338													6	76					0	0	1	0	0		G	64049989	G	G	64049989	2	3	49	1	0	0	0	0	0	0	0	1	2820	214	8	3		3	CCDC46	17	64049989	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1498983	64049989	17145221	1251	37931											
BPTF	2186	broad.mit.edu	37	chr17	65888143	65888143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaataaattatttaaggaggGcaaagaggtgtgttctttct	14	14	10	3	0	2	1	0	0	2	1	2	2	2	2	0	3	0	2	0	3	6	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:65888143G>A	uc002jgf.2	+	5	2109	c.2048G>A	c.(2047-2049)GGC>GAC	p.G683D	BPTF_uc002jge.2_Missense_Mutation_p.G809D|BPTF_uc010wqm.1_Missense_Mutation_p.G746D	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	809					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TTTAAGGAGGGCAAAGAGGTG	0.388													14	27					0	0	1	0	0		A	65888143	A	A	65888143	3	1	49	1	0	0	0	0	1	0	0	0	1498	1203	42	2	2452	2	BPTF	17	65888143	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1838154	65888143	15307067	1252	37932											
ABCA9	10350	broad.mit.edu	37	chr17	66982372	66982372	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtacacctccaggtgctGcctcactgtcaggttgggcc	6	9	12	14	1	2	0	2	0	0	0	3	0	3	0	4	3	4	3	4	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:66982372G>A	uc002jhu.2	-	32	4284	c.4141C>T	c.(4141-4143)CAG>TAG	p.Q1381*	ABCA9_uc010dez.2_Nonsense_Mutation_p.Q1343*	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1381	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					TCCAGGTGCTGCCTCACTGTC	0.607													38	87					0	0	1	0	0		A	66982372	A	A	66982372	4	1	49	1	0	0	0	0	0	1	0	0	39	1328	46	2	765	2	ABCA9	17	66982372	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1094229	66982372	14212838	1253	37933											
ABCA10	10349	broad.mit.edu	37	chr17	67170783	67170783	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcccatgaaagctggaatcCcagaaatatgaagtagtaaa	17	9	8	7	0	0	3	0	2	0	1	2	4	2	4	2	1	1	3	2	1	8	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:67170783C>A	uc010dfa.1	-	25	3892	c.3013G>T	c.(3013-3015)GGA>TGA	p.G1005*	ABCA10_uc010wqs.1_Intron|ABCA10_uc010wqt.1_RNA	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	1005	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					AGCTGGAATCCCAGAAATATG	0.343													10	122					0.00136819	0.00140093	1	1	0		A	67170783	A	A	67170783	4	1	49	1	0	0	0	0	0	1	0	0	29	632	22	5	1682	5	ABCA10	17	67170783	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	188411	67170783	14024427	1254	37934											
ABCA10	10349	broad.mit.edu	37	chr17	67210857	67210857	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taacttaccaggtaaaactcGctcaaaatataatgtgaata	18	11	5	7	1	1	1	1	1	0	0	2	1	1	1	1	1	3	2	1	1	10	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:67210857G>A	uc010dfa.1	-	10	1873	c.994C>T	c.(994-996)CGA>TGA	p.R332*	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_5'UTR|ABCA10_uc010dfc.1_Nonsense_Mutation_p.R224*	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	332					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					GGTAAAACTCGCTCAAAATAT	0.279													9	86					0	0	1	0	0		A	67210857	A	A	67210857	4	1	49	1	0	0	0	0	0	1	0	0	29	1095	38	1	3761	1	ABCA10	17	67210857	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	40074	67210857	13984353	1255	37935											
SLC39A11	201266	broad.mit.edu	37	chr17	70943934	70943934	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggaagagcagcgcgggAccctcaggatcagacttctt	10	7	13	11	2	4	2	3	0	1	2	4	5	4	5	1	3	2	1	1	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:70943934A>G	uc002jjb.2	-	5	502	c.387T>C	c.(385-387)GGT>GGC	p.G129G	SLC39A11_uc002jja.2_Silent_p.G129G|SLC39A11_uc002jjc.1_Silent_p.G129G	NM_001159770	NP_001153242	Q8N1S5	S39AB_HUMAN	solute carrier family 39, member 11 isoform 1	129					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)	1						GCAGCGCGGGACCCTCAGGAT	0.547													5	72					0	0	1	0	0		G	70943934	G	G	70943934	2	3	49	1	0	0	0	0	0	0	0	1	14639	262	10	3		3	SLC39A11	17	70943934	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3733077	70943934	10251276	1256	37936											
CDC42EP4	23580	broad.mit.edu	37	chr17	71281599	71281599	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcatcctcctcctcctcAtccatgaaggagaactcctt	9	13	4	15	0	2	2	2	1	0	1	8	3	8	2	6	1	1	0	6	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:71281599A>G	uc002jjn.2	-	2	1188	c.1041T>C	c.(1039-1041)GAT>GAC	p.D347D	CDC42EP4_uc002jjo.2_Silent_p.D347D|CDC42EP4_uc002jjp.1_Silent_p.D277D	NM_012121	NP_036253	Q9H3Q1	BORG4_HUMAN	Cdc42 effector protein 4	347					positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|cytoplasm|endomembrane system|membrane|microtubule cytoskeleton	GTP-Rho binding				0			LUSC - Lung squamous cell carcinoma(166;0.0352)|Lung(188;0.0711)			CCTCCTCCTCATCCATGAAGG	0.637													12	121					0	0	1	0	0		G	71281599	G	G	71281599	2	3	49	1	0	0	0	0	0	0	0	1	3081	214	8	3		3	CDC42EP4	17	71281599	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	337665	71281599	9913611	1257	37937											
SDK2	54549	broad.mit.edu	37	chr17	71398134	71398134	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgcgtggcccgtccccGggggtggtgaaacacagcac	6	6	16	13	3	0	1	0	1	0	0	1	1	1	1	3	4	4	2	3	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:71398134G>A	uc010dfm.2	-	19	2631	c.2631C>T	c.(2629-2631)CCC>CCT	p.P877P	SDK2_uc002jjt.3_Silent_p.P36P|SDK2_uc010dfn.2_Silent_p.P556P	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	877	Fibronectin type-III 3.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						GCCCGTCCCCGGGGGTGGTGA	0.657													8	15					0	0	1	0	0		A	71398134	A	A	71398134	2	1	49	1	0	0	0	0	0	0	0	1	13994	1103	39	1		1	SDK2	17	71398134	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	116535	71398134	9797076	1258	37938											
OTOP3	347741	broad.mit.edu	37	chr17	72945440	72945440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttcgccatcgtcaacttcGgcctgcctctgggggtcttc	3	12	12	14	3	3	0	1	0	2	0	7	0	3	0	3	4	2	1	3	4	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:72945440G>A	uc010wrr.1	+	7	1720	c.1720G>A	c.(1720-1722)GGC>AGC	p.G574S	OTOP3_uc010wrq.1_Missense_Mutation_p.G556S	NM_178233	NP_839947	Q7RTS5	OTOP3_HUMAN	otopetrin 3	574	Helical; (Potential).					integral to membrane|intracellular	zinc ion binding			ovary(1)	1	all_lung(278;0.151)|Lung NSC(278;0.185)					CGTCAACTTCGGCCTGCCTCT	0.592													7	91					0	0	1	0	0		A	72945440	A	A	72945440	3	1	49	1	0	0	0	0	1	0	0	0	11326	1116	39	1	1746	1	OTOP3	17	72945440	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1547306	72945440	8249770	1259	37939											
LLGL2	3993	broad.mit.edu	37	chr17	73568034	73568034	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcatcctggtgctcgaCggacacagcgtaccccttcc	6	8	12	15	3	0	0	0	0	0	0	3	2	2	1	4	3	3	3	4	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:73568034C>T	uc002joh.2	+	19	2503	c.2349C>T	c.(2347-2349)GAC>GAT	p.D783D	LLGL2_uc002joi.2_Silent_p.D783D|LLGL2_uc010dgg.1_Silent_p.D783D|LLGL2_uc002joj.2_Silent_p.D772D|LLGL2_uc010wsd.1_Silent_p.D410D	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	783	WD 12.				cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			TGGTGCTCGACGGACACAGCG	0.657													5	30					0	0	1	0	0		T	73568034	T	T	73568034	2	4	49	1	0	0	0	0	0	0	0	1	8851	535	19	1		1	LLGL2	17	73568034	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	622594	73568034	7627176	1260	37940											
ITGB4	3691	broad.mit.edu	37	chr17	73747158	73747158	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacggtgagatcacagcctaCgaggtctgctatggcctggt	9	9	13	10	2	2	1	1	1	1	1	2	3	2	1	2	4	4	1	2	4	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:73747158C>T	uc002jpg.2	+	30	3946	c.3759C>T	c.(3757-3759)TAC>TAT	p.Y1253Y	ITGB4_uc002jph.2_Silent_p.Y1253Y|ITGB4_uc002jpi.3_Silent_p.Y1253Y|ITGB4_uc002jpj.2_Silent_p.Y1253Y	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1253	Fibronectin type-III 2.|Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			TCACAGCCTACGAGGTCTGCT	0.597													18	53					0	0	1	0	0		T	73747158	T	T	73747158	2	4	49	1	0	0	0	0	0	0	0	1	7913	547	19	1		1	ITGB4	17	73747158	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	179124	73747158	7448052	1261	37941											
FBF1	85302	broad.mit.edu	37	chr17	73916363	73916363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gctgcccctcacctgggcctCcagctctgccagccgggcct	3	7	11	20	1	2	0	1	0	1	0	3	0	3	0	8	2	4	2	8	2	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:73916363C>T	uc002jqc.2	-	17	2051	c.1777G>A	c.(1777-1779)GAG>AAG	p.E593K	FBF1_uc002jqa.1_RNA|FBF1_uc010wsp.1_Missense_Mutation_p.E584K|FBF1_uc002jqd.1_Missense_Mutation_p.E594K|FBF1_uc002jqb.2_5'Flank|FBF1_uc010dgr.1_5'UTR	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1	593											0						ACCTGGGCCTCCAGCTCTGCC	0.667													6	14					0	0	1	0	0		T	73916363	T	T	73916363	3	4	49	1	0	0	0	0	1	0	0	0	5709	864	30	4	1676	4	FBF1	17	73916363	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	169205	73916363	7278847	1262	37942											
ACOX1	51	broad.mit.edu	37	chr17	73946860	73946860	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatttgactctcacctagcCgtctggagcatcatgacagt	9	11	10	11	1	3	2	2	2	2	0	4	4	3	4	2	2	2	1	2	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:73946860C>T	uc002jqf.2	-	9	1583	c.1293G>A	c.(1291-1293)ACG>ACA	p.T431T	ACOX1_uc010wsq.1_Silent_p.T393T|ACOX1_uc002jqe.2_Silent_p.T431T|ACOX1_uc010wsr.1_Silent_p.T363T	NM_007292	NP_009223	Q15067	ACOX1_HUMAN	acyl-Coenzyme A oxidase 1 isoform b	431					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1						CTCACCTAGCCGTCTGGAGCA	0.433													24	56					0	0	1	0	0		T	73946860	T	T	73946860	2	4	49	1	0	0	0	0	0	0	0	1	158	639	23	1		1	ACOX1	17	73946860	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	30497	73946860	7248350	1263	37943											
EVPL	2125	broad.mit.edu	37	chr17	74005245	74005245	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcgtacaccgcgtcctcCgcggcccgcctcttctgggc	3	8	11	19	6	2	0	0	0	2	0	5	0	4	0	5	2	2	2	5	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:74005245C>T	uc002jqi.2	-	22	4269	c.4041G>A	c.(4039-4041)GCG>GCA	p.A1347A	EVPL_uc010wss.1_Silent_p.A1369A|EVPL_uc010wst.1_Silent_p.A817A	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1347	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CCGCGTCCTCCGCGGCCCGCC	0.682													4	51					0	0	1	0	0		T	74005245	T	T	74005245	2	4	49	1	0	0	0	0	0	0	0	1	5300	639	23	1		1	EVPL	17	74005245	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	58385	74005245	7189965	1264	37944											
EVPL	2125	broad.mit.edu	37	chr17	74011054	74011054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgagggctcgcacctggCgctgctggcgaggcaggtct	4	7	18	12	4	1	1	0	1	1	0	2	2	1	1	1	6	1	5	1	6	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:74011054C>T	uc002jqi.2	-	17	2393	c.2165G>A	c.(2164-2166)CGC>CAC	p.R722H	EVPL_uc010wss.1_Missense_Mutation_p.R744H|EVPL_uc010wst.1_Missense_Mutation_p.R192H	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	722	Globular 1.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						TCGCACCTGGCGCTGCTGGCG	0.667													7	42					0	0	1	0	0		T	74011054	T	T	74011054	3	4	49	1	0	0	0	0	1	0	0	0	5300	768	27	1	3960	1	EVPL	17	74011054	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5809	74011054	7184156	1265	37945											
QRICH2	84074	broad.mit.edu	37	chr17	74278023	74278023	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttggagttgctcatagcgCcgcaccagcgtgctgacctg	6	10	12	13	3	2	1	1	1	1	0	2	2	2	2	3	1	4	4	3	1	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:74278023C>T	uc002jrd.1	-	8	3867	c.3687G>A	c.(3685-3687)CGG>CGA	p.R1229R	QRICH2_uc010wsz.1_Silent_p.R1155R|QRICH2_uc010dgw.1_Silent_p.R73R	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	1229							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						GCTCATAGCGCCGCACCAGCG	0.642													5	24					0	0	1	0	0		T	74278023	T	T	74278023	2	4	49	1	0	0	0	0	0	0	0	1	12905	726	26	2		2	QRICH2	17	74278023	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	266969	74278023	6917187	1266	37946											
SPHK1	8877	broad.mit.edu	37	chr17	74382513	74382513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggcctgactgggagaccGccatccagaagcccctgtgt	8	6	13	14	2	0	3	0	1	0	2	1	4	1	3	6	2	2	0	6	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:74382513G>A	uc002jrf.1	+	7	1107	c.298G>A	c.(298-300)GCC>ACC	p.A100T	SPHK1_uc002jrg.1_Missense_Mutation_p.A49T|SPHK1_uc002jrh.2_Missense_Mutation_p.A114T|SPHK1_uc002jrj.2_Missense_Mutation_p.A186T|SPHK1_uc002jri.2_Missense_Mutation_p.A100T|SPHK1_uc002jrk.3_Missense_Mutation_p.A100T	NM_001142602	NP_001136074	Q9NYA1	SPHK1_HUMAN	sphingosine kinase 1 isoform 3	100	DAGKc.				'de novo' posttranslational protein folding|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|calcium-mediated signaling|positive regulation of angiogenesis|positive regulation of cell growth|positive regulation of cell migration|positive regulation of fibroblast proliferation|positive regulation of mitotic cell cycle|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|positive regulation of smooth muscle contraction|regulation of tumor necrosis factor-mediated signaling pathway|sphingoid catabolic process|sphingosine metabolic process	cytosol|membrane fraction|nucleus|plasma membrane|soluble fraction	ATP binding|calmodulin binding|D-erythro-sphingosine kinase activity|diacylglycerol kinase activity|DNA binding|magnesium ion binding|protein phosphatase 2A binding|sphinganine kinase activity			kidney(1)	1						CTGGGAGACCGCCATCCAGAA	0.657											OREG0024750	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	56					0	0	1	0	0		A	74382513	A	A	74382513	3	1	49	1	0	0	0	0	1	0	0	0	15071	1087	38	1	616	1	SPHK1	17	74382513	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	104490	74382513	6812697	1267	37947											
ST6GALNAC2	10610	broad.mit.edu	37	chr17	74566696	74566696	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcacgcccagaatggccgAtctcagcatcacatagtcgc	11	6	10	14	3	2	1	2	0	1	1	4	2	2	1	2	2	1	2	2	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:74566696A>T	uc002jsg.3	-	6	979	c.724T>A	c.(724-726)TCG>ACG	p.S242T		NM_006456	NP_006447	Q9UJ37	SIA7B_HUMAN	sialyltransferase 7B	242	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity				0						AGAATGGCCGATCTCAGCATC	0.582													4	36					0	0	1	0	0		T	74566696	T	T	74566696	3	4	49	1	0	0	0	0	1	0	0	0	15249	333	12	5	416	5	ST6GALNAC2	17	74566696	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	184183	74566696	6628514	1268	37948											
SEPT9	10801	broad.mit.edu	37	chr17	75398265	75398265	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaattccaggacctgggCgtgaagaactcagaaccctc	13	6	10	12	1	1	4	1	1	0	3	3	5	2	5	3	2	2	0	3	2	4	1	rs61744333		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:75398265C>T	uc002jts.3	+	3	327	c.201C>T	c.(199-201)GGC>GGT	p.G67G	SEPT9_uc010wtk.1_Silent_p.G48G|SEPT9_uc002jtt.3_5'UTR|SEPT9_uc002jtu.3_Silent_p.G49G|SEPT9_uc002jtv.2_Silent_p.G60G|SEPT9_uc002jtw.2_5'UTR|SEPT9_uc002jtx.1_5'UTR|SEPT9_uc010wtl.1_5'Flank	NM_001113491	NP_001106963	Q9UHD8	SEPT9_HUMAN	septin 9 isoform a	67					cell cycle|cell division|protein heterooligomerization	microtubule|perinuclear region of cytoplasm|stress fiber	GTP binding|GTPase activity|protein binding|protein binding			breast(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(99;0.153)			AGGACCTGGGCGTGAAGAACT	0.667													19	49					0	0	1	0	0		T	75398265	T	T	75398265	2	4	49	1	0	0	0	0	0	0	0	1	14096	755	27	1		1	SEPT9	17	75398265	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	831569	75398265	5796945	1269	37949											
TNRC6C	57690	broad.mit.edu	37	chr17	76089061	76089061	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctccaggtaagtcctccAttgatgactcctatggccgg	7	10	11	13	1	0	2	0	2	0	0	4	2	4	2	6	4	0	1	6	4	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:76089061A>G	uc002jud.2	+	16	4618	c.4018A>G	c.(4018-4020)ATT>GTT	p.I1340V	TNRC6C_uc002juf.2_Missense_Mutation_p.I1337V	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	1340					gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			TAAGTCCTCCATTGATGACTC	0.507													3	31					0	0	1	0	0		G	76089061	G	G	76089061	3	3	49	1	0	0	0	0	1	0	0	0	16367	217	8	3	4068	3	TNRC6C	17	76089061	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	690796	76089061	5106149	1270	37950											
DNAH17	8632	broad.mit.edu	37	chr17	76548815	76548815	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatgtcgtttcagcgctcaAtaacttgacatcaattgctt	11	15	6	9	2	3	1	3	1	0	0	4	1	3	1	0	0	3	3	0	0	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:76548815A>G	uc002jvv.1	-	11	1463	c.1357T>C	c.(1357-1359)TTG>CTG	p.L453L						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			TCAGCGCTCAATAACTTGACA	0.423													22	228					0	0	1	0	0		G	76548815	G	G	76548815	2	3	49	1	0	0	0	0	0	0	0	1	4607	98	4	3		3	DNAH17	17	76548815	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	459754	76548815	4646395	1271	37951											
ENGASE	64772	broad.mit.edu	37	chr17	77076406	77076406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagatcactcagttttttcGttttgatggctggctgatca	7	16	9	9	1	3	3	3	2	0	1	4	3	3	3	1	2	0	4	1	2	0	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:77076406G>A	uc002jwv.2	+	5	691	c.683G>A	c.(682-684)CGT>CAT	p.R228H	ENGASE_uc002jwu.1_Missense_Mutation_p.R228H|ENGASE_uc010wtz.1_Missense_Mutation_p.R42H|ENGASE_uc002jww.2_5'UTR	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	228						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						CAGTTTTTTCGTTTTGATGGC	0.607													14	42					0	0	1	0	0		A	77076406	A	A	77076406	3	1	49	1	0	0	0	0	1	0	0	0	5126	1145	40	1	701	1	ENGASE	17	77076406	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	527591	77076406	4118804	1272	37952											
CBX4	8535	broad.mit.edu	37	chr17	77809003	77809003	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggtagtagtacttgccgctCttgcccggcggcgggggctt	3	11	16	11	4	1	0	0	0	1	0	1	0	1	0	2	5	3	5	2	5	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:77809003C>T	uc002jxe.2	-	5	601	c.438G>A	c.(436-438)AAG>AAA	p.K146K		NM_003655	NP_003646	O00257	CBX4_HUMAN	chromobox homolog 4	146	Interaction with BMI1.				anti-apoptosis|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|PcG protein complex	enzyme binding|transcription corepressor activity			skin(2)	2			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			ACTTGCCGCTCTTGCCCGGCG	0.637											OREG0024799	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	93					0	0	1	0	0		T	77809003	T	T	77809003	2	4	49	1	0	0	0	0	0	0	0	1	2723	912	32	4		4	CBX4	17	77809003	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	732597	77809003	3386207	1273	37953											
RPTOR	57521	broad.mit.edu	37	chr17	78599517	78599517	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagtcagtgttgccttagtTttgtgcctgaatgttggtgt	6	17	12	6	0	1	1	1	1	0	0	1	1	1	1	2	1	2	3	2	1	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:78599517T>C	uc002jyt.1	+	2	994	c.189T>C	c.(187-189)GTT>GTC	p.V63V	RPTOR_uc002jys.2_Silent_p.V63V|RPTOR_uc010wuf.1_5'UTR|RPTOR_uc010wug.1_Silent_p.V63V	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	63					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						TTGCCTTAGTTTTGTGCCTGA	0.438													11	113					0	0	1	0	0		C	78599517	C	C	78599517	2	2	49	1	0	0	0	0	0	0	0	1	13690	1828	64	3		3	RPTOR	17	78599517	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	790514	78599517	2595693	1274	37954											
AATK	9625	broad.mit.edu	37	chr17	79094124	79094124	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggctgcgcaggttgcgCgcgctctggctctcagccac	5	7	14	15	4	2	0	1	0	2	0	3	0	2	0	1	3	4	6	1	3	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:79094124C>T	uc010dia.2	-	11	3692	c.3612G>A	c.(3610-3612)GCG>GCA	p.A1204A	AATK_uc010dhz.2_RNA	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	1204						integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			GCAGGTTGCGCGCGCTCTGGC	0.662													4	22					0	0	1	0	0		T	79094124	T	T	79094124	2	4	49	1	0	0	0	0	0	0	0	1	26	755	27	1		1	AATK	17	79094124	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	494607	79094124	2101086	1275	37955											
AZI1	22994	broad.mit.edu	37	chr17	79173252	79173252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctcctgagcaggctgcCgcattcctggcactctggtc	6	9	11	15	1	1	1	0	1	1	0	4	1	3	1	3	3	3	5	3	3	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:79173252C>T	uc002jzp.1	-	10	1321	c.1121G>A	c.(1120-1122)CGG>CAG	p.R374Q	AZI1_uc002jzm.1_5'Flank|AZI1_uc002jzn.1_Missense_Mutation_p.R374Q|AZI1_uc002jzo.1_Missense_Mutation_p.R374Q|AZI1_uc010wum.1_Missense_Mutation_p.R374Q	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	374					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			AGCAGGCTGCCGCATTCCTGG	0.657													6	13					0	0	1	0	0		T	79173252	T	T	79173252	3	4	49	1	0	0	0	0	1	0	0	0	1241	652	23	1	2189	1	AZI1	17	79173252	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	79128	79173252	2021958	1276	37956											
C17orf70	80233	broad.mit.edu	37	chr17	79512907	79512907	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcacagcacaggggcacGcctggaggggaggcatcagc	9	3	18	11	1	1	0	1	0	0	0	1	2	1	2	1	7	2	4	1	7	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:79512907G>A	uc002kaq.2	-	6	2230	c.2175C>T	c.(2173-2175)GGC>GGT	p.G725G	C17orf70_uc002kao.1_Silent_p.G374G|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Silent_p.G574G	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	725					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			ACAGGGGCACGCCTGGAGGGG	0.642													4	11					0	0	1	0	0		A	79512907	A	A	79512907	2	1	49	1	0	0	0	0	0	0	0	1	1880	1101	38	1		1	C17orf70	17	79512907	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	339655	79512907	1682303	1277	37957											
TSPAN10	83882	broad.mit.edu	37	chr17	79612028	79612028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctctgcaggaaactgcagGccagaagcccctctctgtgc	8	7	10	16	0	2	1	0	0	2	1	3	2	2	2	4	2	5	2	4	2	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:79612028G>A	uc010die.2	+	2	137	c.47G>A	c.(46-48)GGC>GAC	p.G16D	TSPAN10_uc002kaw.1_Missense_Mutation_p.G16D|TSPAN10_uc010did.1_RNA	NM_031945	NP_114151	Q9H1Z9	TSN10_HUMAN	tetraspanin 10	16						integral to membrane				ovary(1)	1	all_neural(118;0.0878)|all_lung(278;0.175)|Lung NSC(278;0.192)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GAAACTGCAGGCCAGAAGCCC	0.642													3	41					0	0	1	0	0		A	79612028	A	A	79612028	3	1	49	1	0	0	0	0	1	0	0	0	16660	1203	42	2	53	2	TSPAN10	17	79612028	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	99121	79612028	1583182	1278	37958											
P4HB	5034	broad.mit.edu	37	chr17	79803437	79803437	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctggagggaaggcgcacCgtcctgtcggcactggcagg	6	6	17	12	4	1	0	0	0	1	0	3	2	2	2	2	6	0	3	2	6	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:79803437C>T	uc002kbn.1	-	9	1556	c.1359G>A	c.(1357-1359)ACG>ACA	p.T453T	P4HB_uc002kbl.1_Silent_p.T130T|P4HB_uc002kbm.1_Silent_p.T130T	NM_000918	NP_000909	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta subunit precursor	453	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|lipid metabolic process|lipoprotein metabolic process|peptidyl-proline hydroxylation to 4-hydroxy-L-proline	cell surface|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|extracellular region|melanosome|plasma membrane	electron carrier activity|procollagen-proline 4-dioxygenase activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			GAAGGCGCACCGTCCTGTCGG	0.642													8	21					0	0	1	0	0		T	79803437	T	T	79803437	2	4	49	1	0	0	0	0	0	0	0	1	11378	666	23	1		1	P4HB	17	79803437	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	191409	79803437	1391773	1279	37959											
RFNG	5986	broad.mit.edu	37	chr17	80006940	80006940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcaggctgaagcctccaGccacgttcaccacgttatgt	9	9	10	13	2	1	1	1	1	0	0	2	2	2	1	4	1	3	4	4	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:80006940G>A	uc002kdj.2	-	7	889	c.881C>T	c.(880-882)GCT>GTT	p.A294V	RFNG_uc002kdh.2_Missense_Mutation_p.A79V|GPS1_uc002kdk.1_5'Flank|GPS1_uc002kdl.1_5'Flank|GPS1_uc010dij.1_5'Flank|GPS1_uc002kdm.1_5'Flank|GPS1_uc002kdn.1_5'Flank|GPS1_uc002kdo.1_5'Flank|GPS1_uc010wvh.1_5'Flank	NM_002917	NP_002908	Q9Y644	RFNG_HUMAN	radical fringe	294	Lumenal (Potential).				cell differentiation|nervous system development|organ morphogenesis|pattern specification process	extracellular region|integral to Golgi membrane	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			GAAGCCTCCAGCCACGTTCAC	0.607													9	38					0	0	1	0	0		A	80006940	A	A	80006940	3	1	49	1	0	0	0	0	1	0	0	0	13277	971	34	2	122	2	RFNG	17	80006940	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	203503	80006940	1188270	1280	37960											
CCDC57	284001	broad.mit.edu	37	chr17	80059604	80059604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcttggggggcctctggcagCctttagcttttgcaggatga	5	13	14	9	0	2	1	0	1	2	0	2	2	2	2	2	5	3	3	2	5	1	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:80059604C>T	uc002kdx.1	-	17	2739	c.2702G>A	c.(2701-2703)GGC>GAC	p.G901D		NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	902										ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			CCTCTGGCAGCCTTTAGCTTT	0.612													12	124					0	0	1	0	0		T	80059604	T	T	80059604	3	4	49	1	0	0	0	0	1	0	0	0	2830	739	26	2	49	2	CCDC57	17	80059604	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	52664	80059604	1135606	1281	37961											
CSNK1D	1453	broad.mit.edu	37	chr17	80213367	80213367	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggagcagaagttgaagaGgtcctccaggcttggcccca	9	7	13	12	0	0	3	0	1	0	2	2	4	2	4	5	4	1	3	5	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:80213367G>T	uc002kej.2	-	3	590	c.274C>A	c.(274-276)CTC>ATC	p.L92I	SLC16A3_uc002kee.2_Intron|CSNK1D_uc002kef.2_Missense_Mutation_p.L92I|CSNK1D_uc002kei.2_Missense_Mutation_p.L92I|CSNK1D_uc010wvj.1_5'UTR|CSNK1D_uc002keh.2_5'Flank|CSNK1D_uc010dim.1_5'Flank	NM_001893	NP_001884	P48730	KC1D_HUMAN	casein kinase 1, delta isoform 1	92	Protein kinase.				circadian regulation of gene expression|DNA repair|G2/M transition of mitotic cell cycle|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|regulation of circadian rhythm|Wnt receptor signaling pathway	centrosome|cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			breast(2)	2	Breast(20;0.00136)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.227)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0155)			AAGTTGAAGAGGTCCTCCAGG	0.552													14	112					2.62699e-14	2.85912e-14	1	1	0		T	80213367	T	T	80213367	3	4	49	1	0	0	0	0	1	0	0	0	3955	1000	35	5	1038	5	CSNK1D	17	80213367	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	153763	80213367	981843	1282	37962											
CD7	924	broad.mit.edu	37	chr17	80274772	80274772	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccgagctgcctcaggtagatCccacgcaggcccccgctggt	6	6	12	17	3	1	1	1	0	0	1	2	2	2	1	5	3	2	4	5	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:80274772C>T	uc002kel.1	-	2	277	c.168G>A	c.(166-168)GGG>GGA	p.G56G	CD7_uc010din.2_Silent_p.G56G|CD7_uc002kem.2_Missense_Mutation_p.D38N|CD7_uc010wvk.1_Silent_p.G56G	NM_006137	NP_006128	P09564	CD7_HUMAN	CD7 antigen precursor	56	Ig-like.|Extracellular (Probable).				immune response|T cell activation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|membrane fraction|plasma membrane	receptor activity				0	Breast(20;0.000675)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.249)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0667)			TCAGGTAGATCCCACGCAGGC	0.657													4	45					0	0	1	0	0		T	80274772	T	T	80274772	2	4	49	1	0	0	0	0	0	0	0	1	3035	842	30	4		4	CD7	17	80274772	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	61405	80274772	920438	1283	37963											
TBCD	6904	broad.mit.edu	37	chr17	80861301	80861301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcatccgagagttggctgCgagggcgctgcacaacctgg	7	7	16	11	3	1	1	1	0	0	1	2	3	2	1	2	4	3	4	2	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr17:80861301C>T	uc002kfz.2	+	19	1881	c.1751C>T	c.(1750-1752)GCG>GTG	p.A584V	TBCD_uc002kfx.1_Missense_Mutation_p.A567V|TBCD_uc002kfy.1_Missense_Mutation_p.A584V|TBCD_uc002kgb.1_5'UTR	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	584	HEAT 2.				'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			GAGTTGGCTGCGAGGGCGCTG	0.557													3	9					0	0	1	0	0		T	80861301	T	T	80861301	3	4	49	1	0	0	0	0	1	0	0	0	15658	768	27	1	1825	1	TBCD	17	80861301	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	586529	80861301	333909	1284	37964											
SMCHD1	23347	broad.mit.edu	37	chr18	2700817	2700817	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggtgcattattcactaaTgacaaattccaggtcagcac	12	12	7	10	0	3	1	2	1	1	0	4	1	4	1	1	2	2	2	1	2	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:2700817T>C	uc002klm.3	+	12	1737	c.1548T>C	c.(1546-1548)AAT>AAC	p.N516N	SMCHD1_uc002klk.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	516					chromosome organization		ATP binding				0						TATTCACTAATGACAAATTCC	0.368													7	58					0	0	1	0	0		C	2700817	C	C	2700817	2	2	49	1	0	0	0	0	0	0	0	1	14813	1461	51	3		3	SMCHD1	18	2700817	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08		2700817	75376431	1285	37965											
SMCHD1	23347	broad.mit.edu	37	chr18	2706440	2706440	+	Frame_Shift_Del	DEL	A	-	-																															cagttgctgagaaagctgttAaaaaatatgtagaagatgaa																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:2706440delA	uc002klm.3	+	15	2224	c.2035delA	c.(2035-2037)AAAfs	p.K679fs	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	679					chromosome organization		ATP binding				0						GAAAGCTGTTAAAAAATATGT	0.353													8	6	---	---	---	---						.	-	2706440	-	-	2706440	7	5	49	1	0	1	0	1	0	0	0	0	14813	363	13	0	2093	0	SMCHD1	18	2706440	Frame_Shift_Del	DEL	A	TCGA-BR-7707-01A-11D-2053-08	5623	2706440	75370808	1286	37966											
DLGAP1	9229	broad.mit.edu	37	chr18	3729198	3729198	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgaggacgacctcagggAcacgcactcgtcgtcctggg	7	5	15	14	6	1	0	1	0	0	0	4	4	2	2	2	4	0	1	2	4	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:3729198A>G	uc002kmf.2	-	4	1595	c.1528T>C	c.(1528-1530)TCC>CCC	p.S510P	DLGAP1_uc010wyz.1_Missense_Mutation_p.S510P|DLGAP1_uc002kme.1_Missense_Mutation_p.S208P|DLGAP1_uc010dkn.2_Missense_Mutation_p.S208P|DLGAP1_uc010wyw.1_Missense_Mutation_p.S216P|DLGAP1_uc010wyx.1_Missense_Mutation_p.S222P|DLGAP1_uc010wyy.1_Missense_Mutation_p.S222P|DLGAP1_uc002kmg.2_Missense_Mutation_p.S208P|DLGAP1_uc002kmk.2_Missense_Mutation_p.S510P	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	510					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				GACCTCAGGGACACGCACTCG	0.687													13	27					0	0	1	0	0		G	3729198	G	G	3729198	3	3	49	1	0	0	0	0	1	0	0	0	4565	275	10	3	1433	3	DLGAP1	18	3729198	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1022758	3729198	74348050	1287	37967											
EPB41L3	23136	broad.mit.edu	37	chr18	5419828	5419828	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtcacagtggtgatcaagTtggtctgagagatgcctttt	9	13	13	6	0	3	3	2	2	1	1	3	5	3	3	1	2	1	1	1	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:5419828T>G	uc002kmt.1	-	12	1474	c.1388A>C	c.(1387-1389)AAC>ACC	p.N463T	EPB41L3_uc010wzh.1_Missense_Mutation_p.N481T|EPB41L3_uc002kmu.1_Missense_Mutation_p.N481T|EPB41L3_uc010dkq.1_Missense_Mutation_p.N372T|EPB41L3_uc002kms.1_5'UTR|EPB41L3_uc010wze.1_5'UTR|EPB41L3_uc010wzf.1_5'UTR|EPB41L3_uc010wzg.1_5'UTR|EPB41L3_uc010dkr.2_Missense_Mutation_p.N42T	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	463	Hydrophilic.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GGTGATCAAGTTGGTCTGAGA	0.333													4	71					0	0	1	0	0		G	5419828	G	G	5419828	3	3	49	1	0	0	0	0	1	0	0	0	5162	1725	60	5	1919	5	EPB41L3	18	5419828	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1690630	5419828	72657420	1288	37968											
LAMA1	284217	broad.mit.edu	37	chr18	6999505	6999505	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatcgcaccggagccccgaGgcccccagcctgcaaacgca	9	3	10	19	4	1	0	1	0	0	0	2	2	1	1	6	2	4	3	6	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:6999505G>T	uc002knm.2	-	32	4696	c.4602C>A	c.(4600-4602)GCC>GCA	p.A1534A	LAMA1_uc010wzj.1_Silent_p.A1010A	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1534	Laminin EGF-like 17.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGAGCCCCGAGGCCCCCAGCC	0.547													17	29					1.56452e-12	1.70061e-12	1	1	0		T	6999505	T	T	6999505	2	4	49	1	0	0	0	0	0	0	0	1	8621	987	35	5		5	LAMA1	18	6999505	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1579677	6999505	71077743	1289	37969											
PTPRM	5797	broad.mit.edu	37	chr18	7567873	7567873	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacttttgctaactgcggcGggcgagacgttctcaggtaa	8	10	14	9	4	1	1	1	0	1	1	2	3	1	2	0	4	3	3	0	4	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:7567873G>A	uc002knn.3	+	1	560	c.57G>A	c.(55-57)GCG>GCA	p.A19A	PTPRM_uc010dkv.2_Silent_p.A19A	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	19					homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				TAACTGCGGCGGGCGAGACGT	0.393													17	53					0	0	1	0	0		A	7567873	A	A	7567873	2	1	49	1	0	0	0	0	0	0	0	1	12831	1103	39	1		1	PTPRM	18	7567873	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	568368	7567873	70509375	1290	37970											
KIAA0802	23255	broad.mit.edu	37	chr18	8720350	8720350	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcaggtagccaaagatgtAtctgtcagattgcaccacga	13	9	10	9	1	2	2	1	0	1	2	2	3	2	2	2	1	3	4	2	1	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:8720350A>G	uc002knr.2	+	4	355	c.213A>G	c.(211-213)GTA>GTG	p.V71V	KIAA0802_uc002knq.2_Silent_p.V71V	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	422											0						CCAAAGATGTATCTGTCAGAT	0.448													9	85					0	0	1	0	0		G	8720350	G	G	8720350	2	3	49	1	0	0	0	0	0	0	0	1	8210	436	16	3		3	KIAA0802	18	8720350	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1152477	8720350	69356898	1291	37971											
APCDD1	147495	broad.mit.edu	37	chr18	10468632	10468632	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgccacctacaatcgagggCcactgggtctccacagggta	10	7	11	13	1	1	0	0	0	1	0	3	1	1	0	4	3	2	1	4	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:10468632C>T	uc002kom.3	+	2	579	c.225C>T	c.(223-225)GGC>GGT	p.G75G		NM_153000	NP_694545	Q8J025	APCD1_HUMAN	adenomatosis polyposis coli down-regulated 1	75	Extracellular (Potential).				hair follicle development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to plasma membrane	Wnt-protein binding				0				READ - Rectum adenocarcinoma(15;0.08)		CAATCGAGGGCCACTGGGTCT	0.542													5	44					0	0	1	0	0		T	10468632	T	T	10468632	2	4	49	1	0	0	0	0	0	0	0	1	765	726	26	2		2	APCDD1	18	10468632	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1748282	10468632	67608616	1292	37972											
MC2R	4158	broad.mit.edu	37	chr18	13884951	13884951	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgtgcacatagaggcacagGatgaagaccagcatcagcgg	14	5	13	9	1	1	3	1	1	0	2	1	4	1	4	1	3	3	3	1	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:13884951G>A	uc002ksp.1	-	2	744	c.567C>T	c.(565-567)ATC>ATT	p.I189I		NM_000529	NP_000520	Q01718	ACTHR_HUMAN	melanocortin 2 receptor	189	Helical; Name=5; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	corticotropin receptor activity|protein binding			ovary(4)|skin(1)	5					Corticotropin(DB01285)|Cosyntropin(DB01284)	AGAGGCACAGGATGAAGACCA	0.567													8	80					0	0	1	0	0		A	13884951	A	A	13884951	2	1	49	1	0	0	0	0	0	0	0	1	9382	1164	41	4		4	MC2R	18	13884951	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3416319	13884951	64192297	1293	37973											
SS18	6760	broad.mit.edu	37	chr18	23637588	23637588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatctggttctgcatgtgcGgtgcaggaggacccccacct	6	10	12	13	1	3	0	1	0	2	0	3	2	3	2	3	4	3	3	3	4	0	1	rs149732063	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:23637588G>A	uc002kvm.2	-	4	428	c.350C>T	c.(349-351)CCG>CTG	p.P117L	SS18_uc002kvn.2_Missense_Mutation_p.P117L|SS18_uc010xbf.1_Missense_Mutation_p.P35L|SS18_uc010xbg.1_Missense_Mutation_p.P65L|SS18_uc010xbh.1_Missense_Mutation_p.P65L|SS18_uc010xbi.1_Missense_Mutation_p.P94L|SS18_uc010dlz.1_Missense_Mutation_p.P65L	NM_001007559	NP_001007560	Q15532	SSXT_HUMAN	synovial sarcoma translocation, chromosome 18	117	Transcriptional activation.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	ligand-dependent nuclear receptor transcription coactivator activity|protein binding		SS18/SSX1(1169)|SS18/SSX2(702)|SS18/SSX4(12)	soft_tissue(1883)|ovary(1)	1884	all_cancers(21;0.000194)|Lung NSC(5;0.000413)|all_lung(6;0.00118)|Ovarian(20;0.124)					CTGCATGTGCGGTGCAGGAGG	0.547			T	SSX1| SSX2	synovial sarcoma								13	75					0	0	1	0	0		A	23637588	A	A	23637588	3	1	49	1	0	0	0	0	1	0	0	0	15200	1116	39	1	938	1	SS18	18	23637588	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	9752637	23637588	54439660	1294	37974											
DSC3	1825	broad.mit.edu	37	chr18	28581620	28581620	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgcttctgtgtttgatatAattaagttttgctgtgctaa	8	19	10	4	0	1	1	0	1	1	0	1	1	1	1	0	1	3	5	0	1	4	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:28581620A>G	uc002kwj.3	-	14	2354	c.2199T>C	c.(2197-2199)ATT>ATC	p.I733I	DSC3_uc002kwi.3_Silent_p.I733I	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	733	Cytoplasmic (Potential).				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			TGTTTGATATAATTAAGTTTT	0.308													6	91					0	0	1	0	0		G	28581620	G	G	28581620	2	3	49	1	0	0	0	0	0	0	0	1	4773	358	13	3		3	DSC3	18	28581620	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4944032	28581620	49495628	1295	37975											
DSG4	147409	broad.mit.edu	37	chr18	28965115	28965115	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggtggtgatggaagtaaAcagtgaatttattgttgagg	13	12	14	2	0	0	3	0	3	0	0	0	4	0	4	0	4	1	2	0	4	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:28965115A>G	uc002kwq.2	+	2	200	c.65A>G	c.(64-66)AAC>AGC	p.N22S	DSG4_uc002kwr.2_Missense_Mutation_p.N22S	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	22					homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			ATGGAAGTAAACAGTGAATTT	0.204													10	82					0	0	1	0	0		G	28965115	G	G	28965115	3	3	49	1	0	0	0	0	1	0	0	0	4785	43	2	3	71	3	DSG4	18	28965115	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	383495	28965115	49112133	1296	37976											
DSG4	147409	broad.mit.edu	37	chr18	28986046	28986046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttccatttcagctacctCggcaatccttacggctaagc	8	12	6	15	2	2	0	1	0	1	0	5	0	4	0	3	2	4	3	3	2	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:28986046C>T	uc002kwq.2	+	12	1778	c.1643C>T	c.(1642-1644)TCG>TTG	p.S548L	DSG4_uc002kwr.2_Missense_Mutation_p.S548L	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	548	Extracellular (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TCAGCTACCTCGGCAATCCTT	0.418													3	70					0	0	1	0	0		T	28986046	T	T	28986046	3	4	49	1	0	0	0	0	1	0	0	0	4785	893	31	1	1689	1	DSG4	18	28986046	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	20931	28986046	49091202	1297	37977											
KIAA1012	22878	broad.mit.edu	37	chr18	29522637	29522637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtgattgagacgagtgaGccgctcggcttcgtcgctgc	6	9	16	10	5	0	3	0	3	0	1	3	6	0	3	1	2	2	3	1	2	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:29522637G>A	uc002kxc.3	-	1	455	c.91C>T	c.(91-93)CTC>TTC	p.L31F	KIAA1012_uc002kxb.3_Intron|KIAA1012_uc002kxd.3_RNA|KIAA1012_uc002kxe.2_Missense_Mutation_p.L31F	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	31					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						AGACGAGTGAGCCGCTCGGCT	0.612													3	6					0	0	1	0	0		A	29522637	A	A	29522637	3	1	49	1	0	0	0	0	1	0	0	0	8220	971	34	2	4332	2	KIAA1012	18	29522637	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	536591	29522637	48554611	1298	37978											
ASXL3	80816	broad.mit.edu	37	chr18	31326458	31326458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaactgaaatgctcttgcCggctgaaagccatgattgtg	10	11	12	8	1	1	3	0	3	1	0	1	4	1	4	2	2	4	2	2	2	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:31326458C>T	uc010dmg.1	+	12	6701	c.6646C>T	c.(6646-6648)CGG>TGG	p.R2216W	ASXL3_uc002kxq.2_Missense_Mutation_p.R1923W	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	2216	PHD-type; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						ATGCTCTTGCCGGCTGAAAGC	0.507													6	29					0	0	1	0	0		T	31326458	T	T	31326458	3	4	49	1	0	0	0	0	1	0	0	0	1069	643	23	1	6692	1	ASXL3	18	31326458	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1803821	31326458	46750790	1299	37979											
DTNA	1837	broad.mit.edu	37	chr18	32455306	32455306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctccaccccgacgcacaCgccgcaggactccctcacag	8	4	8	21	4	1	0	1	0	0	0	3	2	3	1	5	1	1	3	5	1	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:32455306C>T	uc010dmn.1	+	17	1767	c.1766C>T	c.(1765-1767)ACG>ATG	p.T589M	DTNA_uc002kxw.2_Missense_Mutation_p.T532M|DTNA_uc010dmj.2_Missense_Mutation_p.T529M|DTNA_uc002kxz.2_Missense_Mutation_p.T536M|DTNA_uc002kxy.2_Missense_Mutation_p.T529M|DTNA_uc010xby.1_Missense_Mutation_p.T279M|DTNA_uc010xbz.1_Missense_Mutation_p.T298M|DTNA_uc010xca.1_Missense_Mutation_p.T241M|DTNA_uc002kye.2_Missense_Mutation_p.T237M	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	589					neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						CCGACGCACACGCCGCAGGAC	0.582													26	66					0	0	1	0	0		T	32455306	T	T	32455306	3	4	49	1	0	0	0	0	1	0	0	0	4794	536	19	1	1922	1	DTNA	18	32455306	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1128848	32455306	45621942	1300	37980											
SLC39A6	25800	broad.mit.edu	37	chr18	33706548	33706548	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggcaaagagcttttcgCttatttttaccagaagcagc	10	13	9	9	1	1	2	0	0	1	2	2	2	1	2	1	1	4	4	1	1	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:33706548C>T	uc010dmy.2	-	2	713	c.423G>A	c.(421-423)AAG>AAA	p.K141K	SLC39A6_uc002kzj.2_Intron	NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	141	Extracellular (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						GAGCTTTTCGCTTATTTTTAC	0.289													7	40					0	0	1	0	0		T	33706548	T	T	33706548	2	4	49	1	0	0	0	0	0	0	0	1	14647	796	28	2		2	SLC39A6	18	33706548	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1251242	33706548	44370700	1301	37981											
ELP2	55250	broad.mit.edu	37	chr18	33726340	33726340	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggaaacagaatacagttaAcccagtaagaaaagagtgtt	18	9	9	5	0	0	3	0	0	0	3	0	4	0	4	1	1	3	3	1	1	7	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:33726340A>G	uc002kzk.1	+	11	1131	c.1121A>G	c.(1120-1122)AAC>AGC	p.N374S	ELP2_uc010xcg.1_Missense_Mutation_p.N439S|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Missense_Mutation_p.N348S|ELP2_uc010xch.1_Intron|ELP2_uc002kzn.1_Intron|ELP2_uc002kzo.1_Missense_Mutation_p.N304S	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	374	WD 7.				regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						AATACAGTTAACCCAGTAAGA	0.348													12	54					0	0	1	0	0		G	33726340	G	G	33726340	3	3	49	1	0	0	0	0	1	0	0	0	5088	43	2	3	1163	3	ELP2	18	33726340	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	19792	33726340	44350908	1302	37982											
ACAA2	10449	broad.mit.edu	37	chr18	47311699	47311699	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctcaacagccaagtacTggggagcaaaagcttcattc	12	9	8	12	0	2	0	2	0	1	0	5	1	3	1	2	2	5	3	2	2	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:47311699T>C	uc002ldw.3	-	9	1374	c.977A>G	c.(976-978)CAG>CGG	p.Q326R	ACAA2_uc002ldx.3_Missense_Mutation_p.Q323R	NM_006111	NP_006102	P42765	THIM_HUMAN	acetyl-coenzyme A acyltransferase 2	326					anti-apoptosis|cholesterol biosynthetic process		acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1						AGCCAAGTACTGGGGAGCAAA	0.403													5	39					0	0	1	0	0		C	47311699	C	C	47311699	3	2	49	1	0	0	0	0	1	0	0	0	105	1580	55	3	224	3	ACAA2	18	47311699	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	13585359	47311699	30765549	1303	37983											
CCDC68	80323	broad.mit.edu	37	chr18	52571597	52571597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catccagccagttcatttccGtaacctaatcaacattaaat	14	12	3	12	1	2	0	2	0	0	0	4	0	4	0	4	0	3	2	4	0	5	5	rs141183307		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:52571597G>A	uc002lfs.2	-	12	1172	c.1000C>T	c.(1000-1002)CGG>TGG	p.R334W	CCDC68_uc002lft.2_Missense_Mutation_p.R334W	NM_001143829	NP_001137301	Q9H2F9	CCD68_HUMAN	coiled-coil domain containing 68	334										skin(1)	1				Colorectal(16;0.0256)|READ - Rectum adenocarcinoma(59;0.21)		GTTCATTTCCGTAACCTAATC	0.363													13	50					0	0	1	0	0		A	52571597	A	A	52571597	3	1	49	1	0	0	0	0	1	0	0	0	2843	1144	40	1	11	1	CCDC68	18	52571597	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5259898	52571597	25505651	1304	37984											
ZNF532	55205	broad.mit.edu	37	chr18	56651464	56651464	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtccaggcacctcttcatCgtacacaagttaaaggaacc	12	9	7	13	1	2	0	1	0	1	0	4	1	3	1	3	2	2	3	3	2	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:56651464C>T	uc002lho.2	+	11	4219	c.3672C>T	c.(3670-3672)ATC>ATT	p.I1224I	ZNF532_uc002lhp.2_Silent_p.I1222I|ZNF532_uc010xeg.1_Silent_p.I1222I|ZNF532_uc002lhr.2_Silent_p.I1222I|ZNF532_uc002lhs.2_Silent_p.I1222I|ZNF532_uc010xeh.1_Silent_p.I312I	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	1224	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						ACCTCTTCATCGTACACAAGT	0.532													6	51					0	0	1	0	0		T	56651464	T	T	56651464	2	4	49	1	0	0	0	0	0	0	0	1	17997	874	31	1		1	ZNF532	18	56651464	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4079867	56651464	21425784	1305	37985											
SERPINB4	6318	broad.mit.edu	37	chr18	61305030	61305030	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagaataggaaagggtgatTacaacagaactcttcattag	17	9	10	5	0	2	3	1	1	1	2	2	5	2	4	0	2	3	0	0	2	8	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:61305030T>C	uc002ljf.2	-	8	1182	c.1096A>G	c.(1096-1098)AAT>GAT	p.N366D	SERPINB4_uc002lje.2_Missense_Mutation_p.N345D|SERPINB4_uc002ljg.2_Missense_Mutation_p.N366D	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	366					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						AAAGGGTGATTACAACAGAAC	0.443													13	148					0	0	1	0	0		C	61305030	C	C	61305030	3	2	49	1	0	0	0	0	1	0	0	0	14128	1754	61	3	80	3	SERPINB4	18	61305030	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	4653566	61305030	16772218	1306	37986											
SERPINB8	5271	broad.mit.edu	37	chr18	61649053	61649053	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggaagcatataaatgactgGgtggcagagaagactgaagg	16	6	15	4	0	0	4	0	2	0	2	0	6	0	5	0	4	1	2	0	4	6	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:61649053G>A	uc002ljv.2	+	4	574	c.405G>A	c.(403-405)TGG>TGA	p.W135*	SERPINB8_uc002ljs.1_Nonsense_Mutation_p.W135*|SERPINB8_uc002ljt.2_Nonsense_Mutation_p.W135*|SERPINB8_uc002lju.2_Nonsense_Mutation_p.W135*|SERPINB8_uc010xex.1_5'UTR	NM_198833	NP_942130	P50452	SPB8_HUMAN	serine (or cysteine) proteinase inhibitor, clade	135					regulation of proteolysis	cytosol	protein binding|serine-type endopeptidase inhibitor activity			skin(1)	1		Esophageal squamous(42;0.129)				TAAATGACTGGGTGGCAGAGA	0.443													11	145					0	0	1	0	0		A	61649053	A	A	61649053	4	1	49	1	0	0	0	0	0	1	0	0	14132	1241	43	4	415	4	SERPINB8	18	61649053	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	344023	61649053	16428195	1307	37987											
TMX3	54495	broad.mit.edu	37	chr18	66350180	66350180	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actccatcagcaaggtatttAtgtagtcatttccatccatg	11	14	6	10	0	2	0	2	0	0	0	5	0	5	0	3	1	1	3	3	1	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:66350180A>G	uc002lkf.2	-	13	1022	c.887T>C	c.(886-888)ATA>ACA	p.I296T	TMX3_uc010xez.1_Missense_Mutation_p.I155T	NM_019022	NP_061895	Q96JJ7	TMX3_HUMAN	thioredoxin domain containing 10 precursor	296	Lumenal (Potential).				cell redox homeostasis|glycerol ether metabolic process	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			skin(1)	1						CAAGGTATTTATGTAGTCATT	0.363													16	160					0	0	1	0	0		G	66350180	G	G	66350180	3	3	49	1	0	0	0	0	1	0	0	0	16293	449	16	3	493	3	TMX3	18	66350180	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4701127	66350180	11727068	1308	37988											
RTTN	25914	broad.mit.edu	37	chr18	67684828	67684828	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatattcaggagtaacttcAaccaaagaatagtcagatta	18	11	6	6	0	3	2	3	0	0	2	3	3	3	3	1	1	2	1	1	1	8	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:67684828A>G	uc002lkp.2	-	46	6304	c.6236T>C	c.(6235-6237)TTG>TCG	p.L2079S	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.L1167S|RTTN_uc002lkn.2_Missense_Mutation_p.L69S|RTTN_uc010dqp.2_Missense_Mutation_p.L331S	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	2079							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				GAGTAACTTCAACCAAAGAAT	0.378													5	97					0	0	1	0	0		G	67684828	G	G	67684828	3	3	49	1	0	0	0	0	1	0	0	0	13762	131	5	3	460	3	RTTN	18	67684828	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1334648	67684828	10392420	1309	37989											
CBLN2	147381	broad.mit.edu	37	chr18	70205584	70205584	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcaaaggccgagatcactgGgtagccattctgcattaaac	12	9	10	10	1	2	1	1	0	1	1	2	2	2	1	2	2	4	3	2	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:70205584G>T	uc002lku.2	-	4	737	c.502C>A	c.(502-504)CCA>ACA	p.P168T	CBLN2_uc002lkv.2_Missense_Mutation_p.P168T	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	168	C1q.					integral to membrane					0		Esophageal squamous(42;0.131)				GAGATCACTGGGTAGCCATTC	0.493													7	66					0.00307968	0.00313834	1	1	0		T	70205584	T	T	70205584	3	4	49	1	0	0	0	0	1	0	0	0	2708	1232	43	5	176	5	CBLN2	18	70205584	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2520756	70205584	7871664	1310	37990											
FBXO15	201456	broad.mit.edu	37	chr18	71740785	71740785	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattcttcggtctctctgaTccacaccagctccacgtgca	7	12	7	15	2	3	1	0	1	3	0	7	1	5	1	3	1	2	3	3	1	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:71740785T>A	uc002lle.2	-	10	1552	c.1216A>T	c.(1216-1218)ATC>TTC	p.I406F	FBXO15_uc002lld.2_RNA|FBXO15_uc002llf.2_Missense_Mutation_p.I482F	NM_152676	NP_689889	Q8NCQ5	FBX15_HUMAN	F-box protein 15 isoform 1	406										ovary(2)|pancreas(1)	3		Esophageal squamous(42;0.103)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.143)		GTCTCTCTGATCCACACCAGC	0.483													16	193					0	0	1	0	0		A	71740785	A	A	71740785	3	1	49	1	0	0	0	0	1	0	0	0	5742	1435	50	5	92	5	FBXO15	18	71740785	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1535201	71740785	6336463	1311	37991											
SALL3	27164	broad.mit.edu	37	chr18	76754750	76754750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcttccgctccaagtcccCgggcctgggcgccccggagg	4	5	15	17	4	0	0	0	0	0	0	3	2	3	1	7	4	1	2	7	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr18:76754750C>T	uc002lmt.2	+	2	2759	c.2759C>T	c.(2758-2760)CCG>CTG	p.P920L	SALL3_uc010dra.2_Missense_Mutation_p.P527L	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	920					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		TCCAAGTCCCCGGGCCTGGGC	0.602													8	15					0	0	1	0	0		T	76754750	T	T	76754750	3	4	49	1	0	0	0	0	1	0	0	0	13837	652	23	1	2765	1	SALL3	18	76754750	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	5013965	76754750	1322498	1312	37992											
PRSSL1	400668	broad.mit.edu	37	chr19	691994	691994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcaccaccaggccagtgCggaggtctctgcagggagga	9	4	15	13	1	1	0	0	0	1	0	2	3	1	3	4	5	3	2	4	5	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:691994C>T	uc002lpl.1	-	3	276	c.245G>A	c.(244-246)CGC>CAC	p.R82H	PRSSL1_uc010xfs.1_Missense_Mutation_p.R81H	NM_214710	NP_999875	Q6UWY2	PRS57_HUMAN	protease, serine-like 1 precursor	82	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGGCCAGTGCGGAGGTCTCT	0.637													3	7					0	0	1	0	0		T	691994	T	T	691994	3	4	49	1	0	0	0	0	1	0	0	0	12658	768	27	1	618	1	PRSSL1	19	691994	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08		691994	58436989	1313	37993											
C19orf22	91300	broad.mit.edu	37	chr19	902066	902066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgatgaagtgctgtttccGcctggaagccgagagtctct	7	12	13	9	2	1	3	0	2	1	1	3	5	2	4	3	1	2	3	3	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:902066G>A	uc002lqg.2	-	2	204	c.136C>T	c.(136-138)CGG>TGG	p.R46W	C19orf22_uc002lqh.2_Missense_Mutation_p.R25W|C19orf22_uc002lqi.2_Missense_Mutation_p.R46W|C19orf22_uc002lqj.2_5'UTR	NM_138774	NP_620129	Q96D70	CS022_HUMAN	hypothetical protein LOC91300	46						nucleus	nucleic acid binding			pancreas(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGCTGTTTCCGCCTGGAAGCC	0.657													18	89					0	0	1	0	0		A	902066	A	A	902066	3	1	49	1	0	0	0	0	1	0	0	0	1917	1086	38	1	698	1	C19orf22	19	902066	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	210072	902066	58226917	1314	37994											
POLR2E	5434	broad.mit.edu	37	chr19	1095303	1095303	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagccggtacgtctcctcCtcgtcgtccatggcagcctc	5	9	10	17	4	1	1	0	0	1	1	7	1	3	1	5	2	3	2	5	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:1095303C>G	uc002lre.3	-	1	89	c.12G>C	c.(10-12)GAG>GAC	p.E4D	POLR2E_uc010xgf.1_RNA	NM_002695	NP_002686	P19388	RPAB1_HUMAN	DNA directed RNA polymerase II polypeptide E	4					interspecies interaction between organisms|mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase II promoter|transcription elongation from RNA polymerase III promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGTCTCCTCCTCGTCGTCCA	0.612													6	57					0	0	1	0	0		G	1095303	G	G	1095303	3	3	49	1	0	0	0	0	1	0	0	0	12237	680	24	5	648	5	POLR2E	19	1095303	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	193237	1095303	58033680	1315	37995											
ADAMTSL5	339366	broad.mit.edu	37	chr19	1507635	1507635	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcacgttccagtacccagcGaaggcacctgggtgggaggg	8	6	16	11	2	1	0	1	0	0	0	2	2	2	1	3	4	2	3	3	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:1507635G>A	uc002ltd.2	-	8	1053	c.609C>T	c.(607-609)TTC>TTT	p.F203F	ADAMTSL5_uc010dsl.2_5'UTR|ADAMTSL5_uc010xgq.1_Silent_p.F213F	NM_213604	NP_998769	Q6ZMM2	ATL5_HUMAN	ADAMTS-like 5 precursor	203						proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGTACCCAGCGAAGGCACCTG	0.517													4	56					0	0	1	0	0		A	1507635	A	A	1507635	2	1	49	1	0	0	0	0	0	0	0	1	278	1049	37	1		1	ADAMTSL5	19	1507635	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	412332	1507635	57621348	1316	37996											
TLE6	79816	broad.mit.edu	37	chr19	2991927	2991927	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtccggatgcctgtctgcGgtgctgggaccagaggacca	6	7	17	11	2	1	1	0	0	1	1	2	4	2	4	4	5	3	1	4	5	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:2991927G>T	uc002lwu.2	+	13	1362	c.962G>T	c.(961-963)CGG>CTG	p.R321L	TLE6_uc002lwt.2_Missense_Mutation_p.R444L|TLE6_uc010dtg.2_Missense_Mutation_p.R444L|TLE6_uc002lwv.2_Missense_Mutation_p.R225L	NM_024760	NP_079036	Q9H808	TLE6_HUMAN	transducin-like enhancer of split 6 isoform 2	321	WD 4.				regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCTGTCTGCGGTGCTGGGAC	0.582													17	48					3.41278e-10	3.66772e-10	1	1	0		T	2991927	T	T	2991927	3	4	49	1	0	0	0	0	1	0	0	0	15967	1116	39	5	1381	5	TLE6	19	2991927	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1484292	2991927	56137056	1317	37997											
TLE2	7089	broad.mit.edu	37	chr19	3005947	3005947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggcagcaacttgcaggaaCgaatgtagttgtctcggttc	9	10	12	10	3	1	0	0	0	1	0	3	2	1	1	1	3	4	6	1	3	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:3005947C>T	uc002lww.2	-	16	1783	c.1520G>A	c.(1519-1521)CGT>CAT	p.R507H	TLE2_uc010xhb.1_Missense_Mutation_p.R174H|TLE2_uc010dth.2_Missense_Mutation_p.R508H|TLE2_uc010xhc.1_Missense_Mutation_p.R385H|TLE2_uc010dti.2_Missense_Mutation_p.R521H	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1	507	WD 2.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTGCAGGAACGAATGTAGTT	0.632													15	40					0	0	1	0	0		T	3005947	T	T	3005947	3	4	49	1	0	0	0	0	1	0	0	0	15964	536	19	1	731	1	TLE2	19	3005947	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	14020	3005947	56123036	1318	37998											
DAPK3	1613	broad.mit.edu	37	chr19	3959269	3959271	+	In_Frame_Del	DEL	CCT	-	-																															ccccagcagcgcgcccttggCctcctcctgcgcctgccgct																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:3959269_3959271delCCT	uc002lzc.1	-	8	1286_1288	c.1193_1195delAGG	c.(1192-1197)GAGGCC>GCC	p.E398del	DAPK3_uc002lzb.1_In_Frame_Del_p.E135del|DAPK3_uc002lzd.1_In_Frame_Del_p.E398del	NM_001348	NP_001339	O43293	DAPK3_HUMAN	death-associated protein kinase 3	398	Interaction with CDC5L (By similarity).				apoptosis|chromatin modification|induction of apoptosis|intracellular protein kinase cascade	cytoplasm|PML body	ATP binding|leucine zipper domain binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|ovary(1)|large_intestine(1)	7		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGCCCTTGGCCTCCTCCTGCGC	0.704													6	10	---	---	---	---						.	-	3959271	-	-	3959269	7	5	49	1	0	1	0	1	0	0	0	0	4240	739	26	0	173	0	DAPK3	19	3959269	In_Frame_Del	DEL	CCT	TCGA-BR-7707-01A-11D-2053-08	953322	3959269	55169714	1319	37999											
EEF2	1938	broad.mit.edu	37	chr19	3977944	3977944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccaaagcaccagatcttgCgggcctcagccacgtcccac	9	5	9	18	2	2	1	1	0	1	1	3	1	3	1	5	1	3	1	5	1	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:3977944C>T	uc002lze.2	-	12	2023	c.1940G>A	c.(1939-1941)CGC>CAC	p.R647H		NM_001961	NP_001952	P13639	EF2_HUMAN	eukaryotic translation elongation factor 2	647						cytosol|ribonucleoprotein complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|GBM - Glioblastoma multiforme(1328;0.0223)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGATCTTGCGGGCCTCAGC	0.632													16	33					0	0	1	0	0		T	3977944	T	T	3977944	3	4	49	1	0	0	0	0	1	0	0	0	4935	768	27	1	652	1	EEF2	19	3977944	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	18675	3977944	55151039	1320	38000											
KDM4B	23030	broad.mit.edu	37	chr19	5032920	5032920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatggggtctgaggaccacGgcgcccagaaccccagctgt	8	5	13	15	2	1	2	0	1	1	1	1	3	1	3	5	4	2	1	5	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:5032920G>A	uc002mbq.3	+	3	245	c.19G>A	c.(19-21)GGC>AGC	p.G7S	KDM4B_uc010xil.1_Missense_Mutation_p.G7S|KDM4B_uc010xim.1_Missense_Mutation_p.G7S	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	7					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						TGAGGACCACGGCGCCCAGAA	0.572													22	65					0	0	1	0	0		A	5032920	A	A	5032920	3	1	49	1	0	0	0	0	1	0	0	0	8145	1116	39	1	21	1	KDM4B	19	5032920	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1054976	5032920	54096063	1321	38001											
KDM4B	23030	broad.mit.edu	37	chr19	5131974	5131974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgggccggccgcccacccGgtccccactgtcggtggtga	3	6	14	18	4	0	1	0	1	0	0	2	1	1	1	7	5	0	0	7	5	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:5131974G>A	uc002mbq.3	+	13	2088	c.1862G>A	c.(1861-1863)CGG>CAG	p.R621Q	KDM4B_uc010xim.1_Missense_Mutation_p.R655Q|KDM4B_uc002mbr.3_Missense_Mutation_p.R379Q	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	621					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						CCGCCCACCCGGTCCCCACTG	0.632													3	9					0	0	1	0	0		A	5131974	A	A	5131974	3	1	49	1	0	0	0	0	1	0	0	0	8145	1116	39	1	1904	1	KDM4B	19	5131974	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	99054	5131974	53997009	1322	38002											
PTPRS	5802	broad.mit.edu	37	chr19	5214592	5214592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgacttctcctccagccGcgtcatcatgacgatggtcg	6	10	10	15	5	3	2	2	2	1	0	6	3	4	2	4	1	1	0	4	1	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:5214592G>A	uc002mbv.2	-	29	4708	c.4474C>T	c.(4474-4476)CGG>TGG	p.R1492W	PTPRS_uc002mbu.1_Missense_Mutation_p.R1061W|PTPRS_uc010xin.1_Missense_Mutation_p.R1034W|PTPRS_uc002mbw.2_Missense_Mutation_p.R1454W|PTPRS_uc002mbx.2_Missense_Mutation_p.R1049W|PTPRS_uc002mby.2_Missense_Mutation_p.R1045W	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1492	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		TCCTCCAGCCGCGTCATCATG	0.637													10	31					0	0	1	0	0		A	5214592	A	A	5214592	3	1	49	1	0	0	0	0	1	0	0	0	12836	1086	38	1	1412	1	PTPRS	19	5214592	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	82618	5214592	53914391	1323	38003											
RFX2	5990	broad.mit.edu	37	chr19	6042100	6042100	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccccttccacgtactgcAcctgggcaggatacacgtgc	7	8	9	17	2	0	0	0	0	0	0	2	1	2	1	4	2	4	3	4	2	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:6042100A>G	uc002meb.2	-	4	484	c.215T>C	c.(214-216)GTG>GCG	p.V72A	RFX2_uc002mec.2_Missense_Mutation_p.V72A|RFX2_uc010xiy.1_Missense_Mutation_p.V27A	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	72					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						CACGTACTGCACCTGGGCAGG	0.607													18	81					0	0	1	0	0		G	6042100	G	G	6042100	3	3	49	1	0	0	0	0	1	0	0	0	13288	159	6	3	2016	3	RFX2	19	6042100	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	827508	6042100	53086883	1324	38004											
EMR1	2015	broad.mit.edu	37	chr19	6901939	6901939	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagcatgcaacttgtaatAacactgttggaaactactct	14	11	7	9	0	1	1	0	0	1	1	1	2	1	2	0	1	6	4	0	1	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:6901939A>G	uc002mfw.2	+	6	606	c.568A>G	c.(568-570)AAC>GAC	p.N190D	EMR1_uc010dvc.2_Missense_Mutation_p.N190D|EMR1_uc010dvb.2_Missense_Mutation_p.N138D|EMR1_uc010xji.1_Intron|EMR1_uc010xjj.1_Intron	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	190	Extracellular (Potential).|EGF-like 4; calcium-binding (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					AACTTGTAATAACACTGTTGG	0.463													6	248					0	0	1	0	0		G	6901939	G	G	6901939	3	3	49	1	0	0	0	0	1	0	0	0	5112	362	13	3	590	3	EMR1	19	6901939	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	859839	6901939	52227044	1325	38005											
MCOLN1	57192	broad.mit.edu	37	chr19	7591468	7591468	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcgggagcagctgtaccaGgccatcttccatgctgtgga	8	8	13	12	2	1	0	0	0	1	0	2	2	2	2	3	3	4	4	3	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:7591468G>T	uc002mgo.2	+	3	506	c.381G>T	c.(379-381)CAG>CAT	p.Q127H	MCOLN1_uc002mgp.2_Missense_Mutation_p.R14M	NM_020533	NP_065394	Q9GZU1	MCLN1_HUMAN	mucolipin 1	127					calcium ion transport|cellular iron ion homeostasis|transferrin transport	integral to plasma membrane|late endosome membrane|lysosomal membrane	cation channel activity|iron ion transmembrane transporter activity			breast(1)	1						AGCTGTACCAGGCCATCTTCC	0.388													33	87					3.93418e-24	4.32861e-24	1	1	0		T	7591468	T	T	7591468	3	4	49	1	0	0	0	0	1	0	0	0	9413	991	35	5	391	5	MCOLN1	19	7591468	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	689529	7591468	51537515	1326	38006											
KIAA1543	57662	broad.mit.edu	37	chr19	7675435	7675435	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtgcaggatttctgtgcCtctcgccttcctcgtggctg	2	14	11	14	3	2	0	0	0	2	0	6	1	3	1	3	2	2	2	3	2	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:7675435C>A	uc002mgv.3	+	6	935	c.834C>A	c.(832-834)GCC>GCA	p.A278A	KIAA1543_uc002mgu.3_Silent_p.A305A	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	278	CH.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						ATTTCTGTGCCTCTCGCCTTC	0.642													50	162					4.09106e-26	4.51282e-26	1	1	0		A	7675435	A	A	7675435	2	1	49	1	0	0	0	0	0	0	0	1	8259	668	24	5		5	KIAA1543	19	7675435	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	83967	7675435	51453548	1327	38007											
MAP2K7	5609	broad.mit.edu	37	chr19	7975006	7975006	+	Frame_Shift_Del	DEL	G	-	-																															agacgggctacctgaccatcGggggccaggtaccaccttca																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:7975006delG	uc002mit.2	+	3	390	c.325delG	c.(325-327)GGGfs	p.G109fs	MAP2K7_uc002miv.2_Frame_Shift_Del_p.G109fs|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Frame_Shift_Del_p.G109fs|MAP2K7_uc010dvv.2_5'UTR	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	109					activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	CCTGACCATCGGGGGCCAGGT	0.667													11	21	---	---	---	---						.	-	7975006	-	-	7975006	7	5	49	1	0	1	0	1	0	0	0	0	9260	1116	39	0	335	0	MAP2K7	19	7975006	Frame_Shift_Del	DEL	G	TCGA-BR-7707-01A-11D-2053-08	299571	7975006	51153977	1328	38008											
ELAVL1	1994	broad.mit.edu	37	chr19	8038749	8038749	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcacctctgagctcgggCgagcatacgacaccttggga	9	8	12	12	3	2	2	1	2	1	0	3	5	2	3	2	2	3	2	2	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:8038749C>T	uc002mjb.2	-	4	457	c.290G>A	c.(289-291)CGC>CAC	p.R97H		NM_001419	NP_001410	Q15717	ELAV1_HUMAN	ELAV-like 1	97	RRM 1.				3'-UTR-mediated mRNA stabilization|multicellular organismal development	cytoplasm|nucleoplasm	identical protein binding|mRNA binding|nucleotide binding				0						TGAGCTCGGGCGAGCATACGA	0.542													4	52					0	0	1	0	0		T	8038749	T	T	8038749	3	4	49	1	0	0	0	0	1	0	0	0	5057	768	27	1	702	1	ELAVL1	19	8038749	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	63743	8038749	51090234	1329	38009											
MYO1F	4542	broad.mit.edu	37	chr19	8595150	8595150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcttgcccaggaactgaCgcagctcgggccgctcctcc	5	7	10	19	3	1	1	0	1	1	0	4	2	3	2	5	2	3	3	5	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:8595150C>T	uc002mkg.2	-	21	2372	c.2258G>A	c.(2257-2259)CGT>CAT	p.R753H		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	753						unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						CAGGAACTGACGCAGCTCGGG	0.617													24	236					0	0	1	0	0		T	8595150	T	T	8595150	3	4	49	1	0	0	0	0	1	0	0	0	10091	536	19	1	1070	1	MYO1F	19	8595150	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	556401	8595150	50533833	1330	38010											
ACTL9	284382	broad.mit.edu	37	chr19	8807821	8807821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtagcatttgcggtacaCgatatagggaccctgttcct	9	12	10	10	2	1	0	1	0	0	0	2	2	2	1	2	2	3	4	2	2	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:8807821C>T	uc002mkl.2	-	1	1352	c.1231G>A	c.(1231-1233)GTG>ATG	p.V411M		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	411						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						TTGCGGTACACGATATAGGGA	0.632													18	77					0	0	1	0	0		T	8807821	T	T	8807821	3	4	49	1	0	0	0	0	1	0	0	0	203	536	19	1	23	1	ACTL9	19	8807821	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	212671	8807821	50321162	1331	38011											
OR7D2	162998	broad.mit.edu	37	chr19	9296577	9296577	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtacctggtgacggtgctGggaaacctgctcatcatcct	8	11	11	11	1	2	1	2	1	0	0	3	2	3	2	3	3	4	3	3	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:9296577G>A	uc002mkz.1	+	1	308	c.120G>A	c.(118-120)CTG>CTA	p.L40L		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	40	Helical; Name=1; (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						TGACGGTGCTGGGAAACCTGC	0.512													25	88					0	0	1	0	0		A	9296577	A	A	9296577	2	1	49	1	0	0	0	0	0	0	0	1	11238	1335	47	4		4	OR7D2	19	9296577	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	488756	9296577	49832406	1332	38012											
ZNF699	374879	broad.mit.edu	37	chr19	9406947	9406947	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcctcccatgtacagtgAgttttgaggactcgctgaag	8	12	12	9	1	0	3	0	3	0	0	3	4	2	4	2	1	1	3	2	1	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:9406947A>G	uc002mlc.1	-	5	1133	c.1133T>C	c.(1132-1134)CTC>CCC	p.L378P		NM_198535	NP_940937	Q32M78	ZN699_HUMAN	zinc finger protein 699	378	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGTACAGTGAGTTTTGAGGA	0.423													7	71					0	0	1	0	0		G	9406947	G	G	9406947	3	3	49	1	0	0	0	0	1	0	0	0	18126	304	11	3	799	3	ZNF699	19	9406947	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	110370	9406947	49722036	1333	38013											
ZNF426	79088	broad.mit.edu	37	chr19	9639131	9639131	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattgctgacatttatagggTttctcttctgtgtgagtttt	6	20	9	6	0	2	2	0	2	2	0	3	2	2	2	0	1	1	3	0	1	2	8			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:9639131T>G	uc002mlq.2	-	8	1854	c.1590A>C	c.(1588-1590)AAA>AAC	p.K530N	ZNF426_uc010dws.2_Missense_Mutation_p.K492N	NM_024106	NP_077011	Q9BUY5	ZN426_HUMAN	zinc finger protein 426	530					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATTTATAGGGTTTCTCTTCTG	0.418													7	51					0	0	1	0	0		G	9639131	G	G	9639131	3	3	49	1	0	0	0	0	1	0	0	0	17925	1722	60	5	78	5	ZNF426	19	9639131	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	232184	9639131	49489852	1334	38014											
OLFM2	93145	broad.mit.edu	37	chr19	9968005	9968005	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgttgctgcaggtcctcatAcccgtaggcacccatctcct	6	10	8	17	2	2	0	1	0	1	0	4	0	3	0	5	2	3	5	5	2	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:9968005A>G	uc002mmp.2	-	4	542	c.514T>C	c.(514-516)TAT>CAT	p.Y172H	OLFM2_uc002mmo.2_Missense_Mutation_p.Y94H	NM_058164	NP_477512	O95897	NOE2_HUMAN	olfactomedin 2 precursor	172	Potential.					extracellular region				large_intestine(1)|skin(1)	2						AGGTCCTCATACCCGTAGGCA	0.637													3	63					0	0	1	0	0		G	9968005	G	G	9968005	3	3	49	1	0	0	0	0	1	0	0	0	10872	391	14	3	862	3	OLFM2	19	9968005	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	328874	9968005	49160978	1335	38015											
ANGPTL6	83854	broad.mit.edu	37	chr19	10203376	10203376	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcttcggtagtggccgccGtggtgccacacaccgttgag	5	8	15	13	5	0	1	0	1	0	0	1	1	0	1	4	4	1	3	4	4	1	3	rs138536720		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:10203376G>A	uc002mmx.1	-	6	1420	c.1302C>T	c.(1300-1302)CAC>CAT	p.H434H	C19orf66_uc002mmu.3_3'UTR|C19orf66_uc002mmv.3_3'UTR|C19orf66_uc002mmw.3_3'UTR|ANGPTL6_uc002mmy.1_Silent_p.H434H	NM_031917	NP_114123	Q8NI99	ANGL6_HUMAN	angiopoietin-like 6 precursor	434	Fibrinogen C-terminal.				angiogenesis|cell differentiation|signal transduction	extracellular space	receptor binding				0			OV - Ovarian serous cystadenocarcinoma(20;3.58e-08)|Epithelial(33;2.5e-05)|all cancers(31;5.96e-05)			AGTGGCCGCCGTGGTGCCACA	0.622													15	44					0	0	1	0	0		A	10203376	A	A	10203376	2	1	49	1	0	0	0	0	0	0	0	1	618	1136	40	1		1	ANGPTL6	19	10203376	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	235371	10203376	48925607	1336	38016											
KEAP1	9817	broad.mit.edu	37	chr19	10610476	10610476	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttgacctgcagtgtgacGtcacacagctgctggctgag	8	10	12	11	1	1	3	1	3	0	0	1	3	1	3	1	1	4	4	1	1	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:10610476G>A	uc002moq.1	-	2	390	c.234C>T	c.(232-234)GAC>GAT	p.D78D	KEAP1_uc002mor.1_Silent_p.D78D	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	78	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			GCAGTGTGACGTCACACAGCT	0.597													9	36					0	0	1	0	0		A	10610476	A	A	10610476	2	1	49	1	0	0	0	0	0	0	0	1	8157	1136	40	1		1	KEAP1	19	10610476	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	407100	10610476	48518507	1337	38017											
TSPAN16	26526	broad.mit.edu	37	chr19	11408917	11408917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctccgcatacctccttcacGttggcaacctgtgcctggtg	5	11	9	16	2	1	0	1	0	0	0	3	0	3	0	6	2	3	3	6	2	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:11408917G>A	uc002mqv.1	+	2	319	c.169G>A	c.(169-171)GTT>ATT	p.V57I	TSPAN16_uc002mqu.1_RNA	NM_012466	NP_036598	Q9UKR8	TSN16_HUMAN	transmembrane 4 superfamily member 16	57	Helical; (Potential).					integral to membrane				skin(1)	1						CCTCCTTCACGTTGGCAACCT	0.572													27	78					0	0	1	0	0		A	11408917	A	A	11408917	3	1	49	1	0	0	0	0	1	0	0	0	16666	1145	40	1	175	1	TSPAN16	19	11408917	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	798441	11408917	47720066	1338	38018											
LPPR2	64748	broad.mit.edu	37	chr19	11471930	11471930	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttcaccacgaccatcttCgccaacgcggggcaggtggt	7	8	11	15	4	3	0	1	0	2	0	4	1	3	0	3	4	1	1	3	4	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:11471930C>T	uc002mre.1	+	6	766	c.429C>T	c.(427-429)TTC>TTT	p.F143F	LPPR2_uc002mrf.1_Silent_p.F118F|LPPR2_uc010dxy.1_5'UTR	NM_022737	NP_073574	Q96GM1	LPPR2_HUMAN	lipid phosphate phosphatase-related protein type	143	Helical; (Potential).					integral to membrane	phosphatidate phosphatase activity			large_intestine(1)	1						CGACCATCTTCGCCAACGCGG	0.642													19	42					0	0	1	0	0		T	11471930	T	T	11471930	2	4	49	1	0	0	0	0	0	0	0	1	8943	883	31	1		1	LPPR2	19	11471930	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	63013	11471930	47657053	1339	38019											
ACP5	54	broad.mit.edu	37	chr19	11687099	11687099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaggtaggcagtgacccCgtatgtggccagcagtggcc	8	6	15	12	1	0	1	0	1	0	0	0	1	0	1	4	4	1	5	4	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:11687099C>T	uc002msg.3	-	4	840	c.694G>A	c.(694-696)GGG>AGG	p.G232R	ACP5_uc002msh.3_Missense_Mutation_p.G232R|ACP5_uc002msi.3_Missense_Mutation_p.G232R|ACP5_uc002msj.3_Missense_Mutation_p.G232R	NM_001611	NP_001602	P13686	PPA5_HUMAN	acid phosphatase 5, tartrate resistant	232					water-soluble vitamin metabolic process	cytosol|integral to membrane|lysosome	acid phosphatase activity|ferric iron binding|ferrous iron binding			central_nervous_system(1)	1						GCAGTGACCCCGTATGTGGCC	0.662													4	30					0	0	1	0	0		T	11687099	T	T	11687099	3	4	49	1	0	0	0	0	1	0	0	0	164	652	23	1	291	1	ACP5	19	11687099	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	215169	11687099	47441884	1340	38020											
ZNF700	90592	broad.mit.edu	37	chr19	12058330	12058330	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtgtctgtattttaggAaaaaaatggagtgaccagaa	14	13	10	4	0	2	2	0	1	2	1	2	4	2	4	1	2	0	1	1	2	6	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:12058330A>G	uc002msu.2	+	3	318	c.192A>G	c.(190-192)GGA>GGG	p.G64G	ZNF700_uc010xme.1_Silent_p.G82G|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	64	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTATTTTAGGAAAAAAATGGA	0.368													6	66					0	0	1	0	0		G	12058330	G	G	12058330	2	3	49	1	0	0	0	0	0	0	0	1	18129	260	9	3		3	ZNF700	19	12058330	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	371231	12058330	47070653	1341	38021											
MAN2B1	4125	broad.mit.edu	37	chr19	12769060	12769060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaagttgtagctgaggCgctcgtagcgtttgagggcc	7	9	17	8	3	0	2	0	2	0	0	1	3	0	3	1	3	2	7	1	3	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:12769060C>T	uc002mub.2	-	9	1284	c.1208G>A	c.(1207-1209)CGC>CAC	p.R403H	MAN2B1_uc010dyv.1_Missense_Mutation_p.R402H	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	403					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						GTAGCTGAGGCGCTCGTAGCG	0.632													21	41					0	0	1	0	0		T	12769060	T	T	12769060	3	4	49	1	0	0	0	0	1	0	0	0	9234	768	27	1	1891	1	MAN2B1	19	12769060	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	710730	12769060	46359923	1342	38022											
ZSWIM4	65249	broad.mit.edu	37	chr19	13919924	13919924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgggactccaacggggcgcGcatgctgattctcatgaccg	7	7	14	13	5	1	2	1	2	1	0	3	3	2	3	2	3	2	2	2	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:13919924G>A	uc002mxh.1	+	5	1091	c.902G>A	c.(901-903)CGC>CAC	p.R301H	ZSWIM4_uc010xng.1_Missense_Mutation_p.R107H	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	301							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			AACGGGGCGCGCATGCTGATT	0.687													13	96					0	0	1	0	0		A	13919924	A	A	13919924	3	1	49	1	0	0	0	0	1	0	0	0	18268	1087	38	1	920	1	ZSWIM4	19	13919924	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1150864	13919924	45209059	1343	38023											
NANOS3	342977	broad.mit.edu	37	chr19	13988138	13988138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctctgagtgggaaagagggtCctgaaaccaggctgagcccc	10	6	14	11	0	1	4	0	3	1	1	2	5	2	5	4	3	2	1	4	3	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:13988138C>T	uc002mxj.3	+	1	189	c.76C>T	c.(76-78)CCT>TCT	p.P26S		NM_001098622	NP_001092092	P60323	NANO3_HUMAN	nanos homolog 3	26					anti-apoptosis|germ cell development|multicellular organismal development|oogenesis|regulation of cell cycle|regulation of translation|spermatogenesis	cytoplasmic mRNA processing body|nucleus|stress granule	RNA binding|zinc ion binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			GAAAGAGGGTCCTGAAACCAG	0.642													6	159					0	0	1	0	0		T	13988138	T	T	13988138	3	4	49	1	0	0	0	0	1	0	0	0	10171	855	30	4	78	4	NANOS3	19	13988138	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	68214	13988138	45140845	1344	38024											
LPHN1	22859	broad.mit.edu	37	chr19	14269224	14269224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccttgttgatggatgctgCgatgacctgtgagttcacca	7	13	11	10	1	1	3	1	3	0	0	2	5	2	4	3	1	2	3	3	1	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:14269224C>T	uc010xnn.1	-	13	2601	c.2305G>A	c.(2305-2307)GCA>ACA	p.A769T	LPHN1_uc010xno.1_Missense_Mutation_p.A764T|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	769	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						ATGGATGCTGCGATGACCTGT	0.642													6	70					0	0	1	0	0		T	14269224	T	T	14269224	3	4	49	1	0	0	0	0	1	0	0	0	8933	768	27	1	2167	1	LPHN1	19	14269224	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	281086	14269224	44859759	1345	38025											
CCDC105	126402	broad.mit.edu	37	chr19	15132166	15132166	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcctgggcatttgcagcGtgcgccttggcgctaaacga	7	9	13	12	4	0	0	0	0	0	0	1	1	1	0	2	2	4	4	2	2	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:15132166G>A	uc002nae.2	+	4	975	c.876G>A	c.(874-876)GCG>GCA	p.A292A		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	292					microtubule cytoskeleton organization	microtubule				ovary(1)	1						CATTTGCAGCGTGCGCCTTGG	0.617													6	17					0	0	1	0	0		A	15132166	A	A	15132166	2	1	49	1	0	0	0	0	0	0	0	1	2743	1159	40	1		1	CCDC105	19	15132166	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	862942	15132166	43996817	1346	38026											
CYP4F2	8529	broad.mit.edu	37	chr19	16000370	16000370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaagtcgtgcaccaggcGgcaggccctgcggaaacgct	8	6	15	12	4	0	1	0	1	0	0	1	2	0	2	2	4	3	3	2	4	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:16000370G>A	uc002nbs.1	-	7	831	c.781C>T	c.(781-783)CGC>TGC	p.R261C	CYP4F2_uc010xot.1_Missense_Mutation_p.R112C|CYP4F2_uc010xou.1_Missense_Mutation_p.R112C	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	261					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						TGCACCAGGCGGCAGGCCCTG	0.562													19	120					0	0	1	0	0		A	16000370	A	A	16000370	3	1	49	1	0	0	0	0	1	0	0	0	4191	1116	39	1	809	1	CYP4F2	19	16000370	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	868204	16000370	43128613	1347	38027											
CYP4F11	57834	broad.mit.edu	37	chr19	16040401	16040401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcttcatgccctcttccGtgggagtgacctgaaaacaa	10	11	9	11	1	3	2	1	2	2	0	4	3	4	3	3	1	2	0	3	1	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:16040401G>A	uc002nbu.2	-	3	245	c.209C>T	c.(208-210)ACG>ATG	p.T70M	CYP4F11_uc010eab.1_Missense_Mutation_p.T70M|CYP4F11_uc002nbt.2_Missense_Mutation_p.T70M	NM_001128932	NP_001122404	Q9HBI6	CP4FB_HUMAN	cytochrome P450 family 4 subfamily F polypeptide	70					inflammatory response|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)	1						GCCCTCTTCCGTGGGAGTGAC	0.388													14	109					0	0	1	0	0		A	16040401	A	A	16040401	3	1	49	1	0	0	0	0	1	0	0	0	4189	1145	40	1	1409	1	CYP4F11	19	16040401	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	40031	16040401	43088582	1348	38028											
MED26	9441	broad.mit.edu	37	chr19	16688383	16688383	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcctcatgctggtgtgcCggctcgatgagcttctgcca	4	10	13	14	3	2	1	1	1	1	0	3	2	2	1	4	2	4	3	4	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:16688383C>T	uc002nen.1	-	3	519	c.258G>A	c.(256-258)CCG>CCA	p.P86P	MED26_uc002nee.2_RNA	NM_004831	NP_004822	O95402	MED26_HUMAN	mediator complex subunit 26	86	TFIIS N-terminal.				regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|RNA polymerase II transcription cofactor activity|transcription coactivator activity			ovary(2)	2						GCTGGTGTGCCGGCTCGATGA	0.692													8	27					0	0	1	0	0		T	16688383	T	T	16688383	2	4	49	1	0	0	0	0	0	0	0	1	9462	639	23	1		1	MED26	19	16688383	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	647982	16688383	42440600	1349	38029											
TMEM38A	79041	broad.mit.edu	37	chr19	16791318	16791318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcgagtccgcaagatcgCggtgggcatccatcacgccc	7	6	14	14	5	1	1	1	0	0	1	4	2	3	1	3	3	1	2	3	3	1	0	rs139650677		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:16791318C>T	uc002nes.2	+	3	483	c.392C>T	c.(391-393)GCG>GTG	p.A131V		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	131	Cytoplasmic (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3						CGCAAGATCGCGGTGGGCATC	0.527													15	125					0	0	1	0	0		T	16791318	T	T	16791318	3	4	49	1	0	0	0	0	1	0	0	0	16184	768	27	1	402	1	TMEM38A	19	16791318	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	102935	16791318	42337665	1350	38030											
HAUS8	93323	broad.mit.edu	37	chr19	17179875	17179875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttcatactgcagatacCgggactcaatcactcttcca	10	13	5	13	1	5	1	3	0	2	1	6	2	6	2	2	1	3	1	2	1	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:17179875C>T	uc002nfe.2	-	3	224	c.113G>A	c.(112-114)CGG>CAG	p.R38Q	HAUS8_uc002nff.2_Missense_Mutation_p.R38Q|HAUS8_uc002nfg.1_5'UTR|HAUS8_uc002nfh.1_Missense_Mutation_p.R38Q	NM_033417	NP_219485	Q9BT25	HAUS8_HUMAN	sarcoma antigen NY-SAR-48 isoform a	38				R -> P (in Ref. 5; AAH04398).	cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle pole					0						CTGCAGATACCGGGACTCAAT	0.532													4	26					0	0	1	0	0		T	17179875	T	T	17179875	3	4	49	1	0	0	0	0	1	0	0	0	6988	652	23	1	1155	1	HAUS8	19	17179875	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	388557	17179875	41949108	1351	38031											
ANKLE1	126549	broad.mit.edu	37	chr19	17396335	17396335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctacgtgggcaaagggaCgagggcccggccatatgtcc	8	7	14	12	3	1	0	0	0	1	0	2	2	2	1	3	4	1	1	3	4	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:17396335C>T	uc002nga.2	+	7	1748	c.1472C>T	c.(1471-1473)ACG>ATG	p.T491M	ANKLE1_uc010xpm.1_RNA|ANKLE1_uc010eao.1_Missense_Mutation_p.T487M|ANKLE1_uc010xpn.1_Missense_Mutation_p.T519M|ANKLE1_uc002nfy.2_Missense_Mutation_p.T454M|ANKLE1_uc002nfz.2_Missense_Mutation_p.T197M	NM_152363	NP_689576	Q8NAG6	ANKL1_HUMAN	ankyrin repeat domain 41	491						nuclear envelope					0						GGCAAAGGGACGAGGGCCCGG	0.612													6	132					0	0	1	0	0		T	17396335	T	T	17396335	3	4	49	1	0	0	0	0	1	0	0	0	632	536	19	1	1498	1	ANKLE1	19	17396335	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	216460	17396335	41732648	1352	38032											
MAP1S	55201	broad.mit.edu	37	chr19	17831825	17831825	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgtcccgacactctgccAccttctccagcattgtgaaa	8	12	7	14	1	2	1	0	1	2	0	4	2	3	1	4	0	2	1	4	0	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:17831825A>G	uc002nhe.1	+	2	208	c.199A>G	c.(199-201)ACC>GCC	p.T67A	MAP1S_uc010eaz.1_RNA|MAP1S_uc010eba.1_Missense_Mutation_p.T67A|MAP1S_uc002nhf.1_Intron|MAP1S_uc010xpv.1_Missense_Mutation_p.T41A	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	67	Necessary for the microtubule-organizing center localization.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						ACACTCTGCCACCTTCTCCAG	0.582													5	119					0	0	1	0	0		G	17831825	G	G	17831825	3	3	49	1	0	0	0	0	1	0	0	0	9252	159	6	3	205	3	MAP1S	19	17831825	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	435490	17831825	41297158	1353	38033											
B3GNT3	10331	broad.mit.edu	37	chr19	17922546	17922546	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccaaaacgtgggccccaTccgggctttttggagcaagt	9	9	12	11	2	0	0	0	0	0	0	2	2	2	1	4	3	2	2	4	3	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:17922546T>C	uc002nhk.1	+	3	819	c.734T>C	c.(733-735)ATC>ACC	p.I245T	B3GNT3_uc002nhl.1_Missense_Mutation_p.I245T|B3GNT3_uc010ebd.1_Missense_Mutation_p.I245T|B3GNT3_uc010ebe.1_Missense_Mutation_p.I245T	NM_014256	NP_055071	Q9Y2A9	B3GN3_HUMAN	UDP-GlcNAc:betaGal	245	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to plasma membrane	galactosyltransferase activity			upper_aerodigestive_tract(1)	1						GTGGGCCCCATCCGGGCTTTT	0.572													5	71					0	0	1	0	0		C	17922546	C	C	17922546	3	2	49	1	0	0	0	0	1	0	0	0	1259	1435	50	3	740	3	B3GNT3	19	17922546	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	90721	17922546	41206437	1354	38034											
UPF1	5976	broad.mit.edu	37	chr19	18967788	18967788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgaaagcacccaggccaccGagccggagtgcatggttccc	10	4	12	15	3	0	0	0	0	0	0	1	3	1	1	5	3	3	3	5	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:18967788G>A	uc002nkg.2	+	14	2235	c.1960G>A	c.(1960-1962)GAG>AAG	p.E654K	UPF1_uc002nkf.2_Missense_Mutation_p.E643K|UPF1_uc002nkh.2_5'Flank	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	654					cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCAGGCCACCGAGCCGGAGTG	0.607													11	110					0	0	1	0	0		A	18967788	A	A	18967788	3	1	49	1	0	0	0	0	1	0	0	0	17029	1059	37	1	1981	1	UPF1	19	18967788	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1045242	18967788	40161195	1355	38035											
DDX49	54555	broad.mit.edu	37	chr19	19035782	19035782	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgagtcggccggacggccCgtgcaggtgagcagtggagg	7	4	19	11	5	0	1	0	1	0	0	1	4	0	3	3	6	2	2	3	6	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:19035782C>A	uc002nkq.1	+	9	1078	c.1021C>A	c.(1021-1023)CGT>AGT	p.R341S	HOMER3_uc002nko.1_Intron|HOMER3_uc002nkp.1_Intron|DDX49_uc002nkr.1_RNA|DDX49_uc002nks.1_Missense_Mutation_p.R234S|DDX49_uc002nkt.1_3'UTR	NM_019070	NP_061943	Q9Y6V7	DDX49_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 49	341	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			Epithelial(12;0.0289)			CCGGACGGCCCGTGCAGGTGA	0.657													11	27					5.50884e-06	5.78597e-06	1	1	0		A	19035782	A	A	19035782	3	1	49	1	0	0	0	0	1	0	0	0	4369	652	23	5	1055	5	DDX49	19	19035782	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	67994	19035782	40093201	1356	38036											
NCAN	1463	broad.mit.edu	37	chr19	19360629	19360629	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaccaacaccaccaccAgcatcaccaccacaaatccc	15	2	1	23	0	1	0	1	0	0	0	2	0	2	0	9	0	2	1	9	0	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:19360629A>G	uc002nlz.2	+	15	3974	c.3875A>G	c.(3874-3876)CAG>CGG	p.Q1292R	NCAN_uc002nma.2_Missense_Mutation_p.S48G	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	1292					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			caccaccaccagcatcaccac	0.433													9	43					0	0	1	0	0		G	19360629	G	G	19360629	3	3	49	1	0	0	0	0	1	0	0	0	10223	188	7	3	3929	3	NCAN	19	19360629	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	324847	19360629	39768354	1357	38037											
ZNF43	7594	broad.mit.edu	37	chr19	22000730	22000730	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatgtctcctcataggctcCcaaggctctttttcttgctc	5	16	6	14	0	5	0	2	0	3	0	8	0	6	0	2	2	1	3	2	2	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:22000730C>A	uc002nqj.2	-	3	319	c.189G>T	c.(187-189)TGG>TGT	p.W63C	ZNF43_uc010ecv.2_Missense_Mutation_p.W57C|ZNF43_uc002nql.2_Missense_Mutation_p.W57C|ZNF43_uc002nqm.2_Missense_Mutation_p.W57C|ZNF43_uc002nqk.2_5'UTR	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	63	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		TCATAGGCTCCCAAGGCTCTT	0.423													7	124					0.000274275	0.000283037	1	1	0		A	22000730	A	A	22000730	3	1	49	1	0	0	0	0	1	0	0	0	17928	624	22	5	2248	5	ZNF43	19	22000730	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2640101	22000730	37128253	1358	38038											
ZNF208	7757	broad.mit.edu	37	chr19	22193695	22193695	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactctaggagcagaggacaCacagcagtaaggacgagacc	15	3	13	10	1	1	2	0	0	1	2	1	7	1	5	1	3	2	3	1	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:22193695C>T	uc002nqp.2	-	1	51	c.-98G>A	c.(-100--96)GTGTG>GTATG		ZNF208_uc002nqo.1_Translation_Start_Site|ZNF208_uc002nqq.2_RNA	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GCAGAGGACACACAGCAGTAA	0.592													6	16					0	0	1	0	0		T	22193695	T	T	22193695	1	4	49	1	0	0	0	0	0	0	0	0	17791	493	17	4		4	ZNF208	19	22193695	Translation_Start_Site	SNP	C	TCGA-BR-7707-01A-11D-2053-08	192965	22193695	36935288	1359	38039											
ZNF492	57615	broad.mit.edu	37	chr19	22836737	22836737	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaggtattgctgcctctaAgccagacctgatcacctgtc	10	10	8	13	0	2	2	1	1	1	1	3	2	2	2	4	1	4	2	4	1	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:22836737A>C	uc002nqw.3	+	3	294	c.50A>C	c.(49-51)AAG>ACG	p.K17T		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	17	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				GCTGCCTCTAAGCCAGACCTG	0.403													11	73					0	0	1	0	0		C	22836737	C	C	22836737	3	2	49	1	0	0	0	0	1	0	0	0	17968	72	3	5	56	5	ZNF492	19	22836737	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	643042	22836737	36292246	1360	38040											
SLC7A9	11136	broad.mit.edu	37	chr19	33353425	33353425	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgatcaccagcttggcCgcggtgaagatgttctggac	8	8	13	12	3	2	2	1	1	1	1	2	4	2	3	3	3	1	2	3	3	1	2	rs75036167		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:33353425C>T	uc002ntv.3	-	5	663	c.546G>A	c.(544-546)GCG>GCA	p.A182A	SLC7A9_uc002ntt.3_Intron|SLC7A9_uc002ntu.3_Silent_p.A182A|SLC7A9_uc002ntw.3_Intron	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	182	Helical; (Potential).		A -> T (in CSNU; type III; frequent mutation; mild loss of amino acid transport activity).		blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	CCAGCTTGGCCGCGGTGAAGA	0.597													16	38					0	0	1	0	0		T	33353425	T	T	33353425	2	4	49	1	0	0	0	0	0	0	0	1	14730	639	23	1		1	SLC7A9	19	33353425	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	10516688	33353425	25775558	1361	38041											
CHST8	64377	broad.mit.edu	37	chr19	34263385	34263385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaccgtccactatggcaGcgctctcaagcgcctggaca	10	6	9	16	3	1	0	1	0	1	0	3	1	2	1	3	2	3	2	3	2	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:34263385G>A	uc002nus.3	+	5	1197	c.692G>A	c.(691-693)AGC>AAC	p.S231N	CHST8_uc002nut.3_Missense_Mutation_p.S231N|CHST8_uc002nuu.2_Missense_Mutation_p.S231N	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	231	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)					CACTATGGCAGCGCTCTCAAG	0.632													10	44					0	0	1	0	0		A	34263385	A	A	34263385	3	1	49	1	0	0	0	0	1	0	0	0	3413	971	34	2	702	2	CHST8	19	34263385	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	909960	34263385	24865598	1362	38042											
HPN	3249	broad.mit.edu	37	chr19	35550829	35550829	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcgggcgccaatggcacGtcgggcttcttctgtgtgga	5	9	16	11	5	2	0	0	0	2	0	3	1	2	1	1	5	0	2	1	5	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:35550829G>A	uc002nxq.1	+	7	587	c.342G>A	c.(340-342)ACG>ACA	p.T114T	HPN_uc002nxr.1_Silent_p.T114T|HPN_uc002nxs.1_Intron|HPN_uc010xsh.1_Silent_p.T83T|HPN_uc002nxt.1_5'UTR|LOC100128675_uc010xsi.1_Intron	NM_002151	NP_002142	P05981	HEPS_HUMAN	hepsin	114	SRCR.|Extracellular (Potential).				cell growth|proteolysis	cytoplasm|integral to plasma membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2	all_lung(56;5.38e-08)|Lung NSC(56;8.61e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)		Coagulation factor VIIa(DB00036)	CCAATGGCACGTCGGGCTTCT	0.706													4	5					0	0	1	0	0		A	35550829	A	A	35550829	2	1	49	1	0	0	0	0	0	0	0	1	7352	1132	40	1		1	HPN	19	35550829	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1287444	35550829	23578154	1363	38043											
USF2	7392	broad.mit.edu	37	chr19	35769944	35769944	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accttcaaagaggccgagcgGctgcagatggacaacgagct	12	5	13	11	3	1	2	1	0	0	2	1	5	1	3	2	3	4	3	2	3	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:35769944G>A	uc002nyq.1	+	9	1027	c.918G>A	c.(916-918)CGG>CGA	p.R306R	USF2_uc010xss.1_Silent_p.R306R|USF2_uc002nyr.1_Silent_p.R239R|USF2_uc002nys.1_Silent_p.R108R|USF2_uc002nyt.1_Silent_p.R175R|USF2_uc002nyu.1_Silent_p.R108R|USF2_uc002nyv.1_Silent_p.R100R	NM_003367	NP_003358	Q15853	USF2_HUMAN	upstream stimulatory factor 2 isoform 1	306					lipid homeostasis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter by glucose	nucleus	bHLH transcription factor binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity				0	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)		Epithelial(14;7.4e-20)|OV - Ovarian serous cystadenocarcinoma(14;6.47e-19)|all cancers(14;4.17e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			AGGCCGAGCGGCTGCAGATGG	0.652													15	21					0	0	1	0	0		A	35769944	A	A	35769944	2	1	49	1	0	0	0	0	0	0	0	1	17059	1190	42	2		2	USF2	19	35769944	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	219115	35769944	23359039	1364	38044											
MAG	4099	broad.mit.edu	37	chr19	35800865	35800865	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagtccaacccggagccGtccgtggcctttgagctgcc	6	8	13	14	3	0	2	0	2	0	0	2	3	2	3	6	2	4	1	6	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:35800865G>A	uc002nyy.1	+	8	1469	c.1320G>A	c.(1318-1320)CCG>CCA	p.P440P	MAG_uc002nyx.1_Silent_p.P440P|MAG_uc010eds.1_Silent_p.P415P|MAG_uc002nyz.1_Silent_p.P440P	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	440	Ig-like C2-type 4.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			ACCCGGAGCCGTCCGTGGCCT	0.667													7	105					0	0	1	0	0		A	35800865	A	A	35800865	2	1	49	1	0	0	0	0	0	0	0	1	9180	1132	40	1		1	MAG	19	35800865	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	30921	35800865	23328118	1365	38045											
U2AF1L4	199746	broad.mit.edu	37	chr19	36235042	36235042	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctccatcctcctccctcCggaactgcaggaaatgtcag	8	9	8	16	1	2	0	1	0	1	0	7	2	6	2	5	2	2	2	5	2	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:36235042C>A	uc002obg.2	-	5	368	c.59G>T	c.(58-60)CGG>CTG	p.R20L	TMEM149_uc002obb.2_5'Flank|TMEM149_uc002obc.2_5'Flank|TMEM149_uc002obd.3_5'Flank|TMEM149_uc010xsy.1_5'Flank|TMEM149_uc010eej.2_5'UTR|U2AF1L4_uc002obh.1_5'UTR|U2AF1L4_uc002obe.2_Missense_Mutation_p.R79L|U2AF1L4_uc002obf.2_Missense_Mutation_p.R79L|PSENEN_uc002obi.1_5'Flank|PSENEN_uc002obj.1_5'Flank|PSENEN_uc002obk.1_5'Flank			Q8WU68	U2AF4_HUMAN	Homo sapiens cDNA FLJ35525 fis, clone SPLEN2001650.	118	RRM.				mRNA processing|RNA splicing	nuclear speck|spliceosomal complex	nucleotide binding|RNA binding|zinc ion binding				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTCCTCCCTCCGGAACTGCAG	0.577													9	27					0.000978159	0.00100216	1	1	0		A	36235042	A	A	36235042	3	1	49	1	0	0	0	0	1	0	0	0	16848	652	23	5	442	5	U2AF1L4	19	36235042	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	434177	36235042	22893941	1366	38046											
ARHGAP33	115703	broad.mit.edu	37	chr19	36278199	36278199	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgagcgggctcagcaggTggccgagcaacagagccagc	9	3	17	12	2	1	2	1	1	0	1	1	3	1	2	2	4	6	4	2	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:36278199T>C	uc002obs.1	+	21	2334	c.2249T>C	c.(2248-2250)GTG>GCG	p.V750A	ARHGAP33_uc002obt.1_Missense_Mutation_p.V775A|ARHGAP33_uc010eel.2_Missense_Mutation_p.V499A|ARHGAP33_uc002obv.1_Missense_Mutation_p.V499A	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	803					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						GCTCAGCAGGTGGCCGAGCAA	0.716													18	40					0	0	1	0	0		C	36278199	C	C	36278199	3	2	49	1	0	0	0	0	1	0	0	0	882	1696	59	3	2814	3	ARHGAP33	19	36278199	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	43157	36278199	22850784	1367	38047											
WDR62	284403	broad.mit.edu	37	chr19	36593955	36593955	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccagagcaggtactggctaCgcctccccagacaggaccca	10	4	10	17	1	0	2	0	0	0	2	1	3	1	3	5	3	3	3	5	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:36593955C>T	uc002odc.2	+	28	3517	c.3426C>T	c.(3424-3426)TAC>TAT	p.Y1142Y	WDR62_uc002odd.2_Silent_p.Y1147Y	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	1142	WD 14.				cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GTACTGGCTACGCCTCCCCAG	0.647													4	33					0	0	1	0	0		T	36593955	T	T	36593955	2	4	49	1	0	0	0	0	0	0	0	1	17339	547	19	1		1	WDR62	19	36593955	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	315756	36593955	22535028	1368	38048											
ZNF146	7705	broad.mit.edu	37	chr19	36727780	36727780	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatccaaccttactgagcaTgagaaaatccatattggaga	17	9	7	8	0	0	3	0	2	0	2	2	5	2	3	3	1	3	1	3	1	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:36727780T>C	uc002odq.3	+	4	1961	c.438T>C	c.(436-438)CAT>CAC	p.H146H	ZNF146_uc010eet.2_Silent_p.H146H|ZNF146_uc010eeu.2_Silent_p.H146H	NM_007145	NP_009076	Q15072	OZF_HUMAN	zinc finger protein 146	146	C2H2-type 5.				regulation of transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|heparin binding|zinc ion binding				0	Esophageal squamous(110;0.162)					TTACTGAGCATGAGAAAATCC	0.423													7	85					0	0	1	0	0		C	36727780	C	C	36727780	2	2	49	1	0	0	0	0	0	0	0	1	17758	1461	51	3		3	ZNF146	19	36727780	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	133825	36727780	22401203	1369	38049											
ZNF345	25850	broad.mit.edu	37	chr19	37367968	37367968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttgtatcagtccttgttcGacatcagcgaattcatactg	9	16	7	9	2	3	0	3	0	0	0	5	2	4	0	1	0	2	2	1	0	3	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:37367968G>A	uc002oex.2	+	3	614	c.236G>A	c.(235-237)CGA>CAA	p.R79Q	ZNF345_uc002oey.3_Missense_Mutation_p.R79Q|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	79	C2H2-type 1.				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTCCTTGTTCGACATCAGCGA	0.403													16	38					0	0	1	0	0		A	37367968	A	A	37367968	3	1	49	1	0	0	0	0	1	0	0	0	17884	1058	37	1	238	1	ZNF345	19	37367968	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	640188	37367968	21761015	1370	38050											
ZNF569	148266	broad.mit.edu	37	chr19	37903706	37903706	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatgtatagtaagggatgaGctttgggagaaggcttttcc	11	13	13	4	0	0	2	0	1	0	1	1	4	1	3	1	3	1	4	1	3	5	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:37903706G>T	uc002ogi.2	-	6	2412	c.1854C>A	c.(1852-1854)AGC>AGA	p.S618R	ZNF569_uc002ogh.2_Missense_Mutation_p.S459R|ZNF569_uc002ogj.2_Missense_Mutation_p.S642R	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	618	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TAAGGGATGAGCTTTGGGAGA	0.413													22	74					1.37657e-19	1.50972e-19	1	1	0		T	37903706	T	T	37903706	3	4	49	1	0	0	0	0	1	0	0	0	18025	962	34	5	210	5	ZNF569	19	37903706	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	535738	37903706	21225277	1371	38051											
PAPL	390928	broad.mit.edu	37	chr19	39589701	39589701	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggctgtgtttggagacCtgggggctgacaacccgaag	7	9	16	9	1	1	2	0	1	1	1	1	4	1	2	2	4	1	3	2	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:39589701C>A	uc002oki.2	+	4	698	c.424C>A	c.(424-426)CTG>ATG	p.L142M	PAPL_uc010egl.2_Missense_Mutation_p.L142M	NM_001004318	NP_001004318	Q6ZNF0	PAPL_HUMAN	iron/zinc purple acid phosphatase-like protein	142						extracellular region	acid phosphatase activity|metal ion binding				0						GTTTGGAGACCTGGGGGCTGA	0.632													4	72					0.184627	0.185277	1	1	0		A	39589701	A	A	39589701	3	1	49	1	0	0	0	0	1	0	0	0	11446	680	24	5	434	5	PAPL	19	39589701	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1685995	39589701	19539282	1372	38052											
ZNF780B	163131	broad.mit.edu	37	chr19	40541822	40541822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatgagttggtaatgatatCgaaaggccatctcacattcc	13	11	8	9	1	1	2	1	2	1	0	4	3	2	2	2	2	0	2	2	2	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:40541822C>T	uc002omu.2	-	5	1009	c.944G>A	c.(943-945)CGA>CAA	p.R315Q	ZNF780B_uc002omv.2_Missense_Mutation_p.R167Q	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	315	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					GTAATGATATCGAAAGGCCAT	0.383													9	116					0	0	1	0	0		T	40541822	T	T	40541822	3	4	49	1	0	0	0	0	1	0	0	0	18178	884	31	1	1561	1	ZNF780B	19	40541822	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	952121	40541822	18587161	1373	38053											
ADCK4	79934	broad.mit.edu	37	chr19	41209479	41209479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcgctcatcttgagtaccgCcagcaggttctggacatcgc	7	9	11	14	4	3	1	1	1	2	0	4	2	3	2	2	2	2	4	2	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:41209479C>T	uc002oor.2	-	9	1068	c.766G>A	c.(766-768)GCG>ACG	p.A256T	ADCK4_uc002oop.1_5'Flank|ADCK4_uc002ooq.1_Missense_Mutation_p.A215T	NM_024876	NP_079152	Q96D53	ADCK4_HUMAN	aarF domain containing kinase 4 isoform a	256	Protein kinase.					integral to membrane	protein serine/threonine kinase activity				0			Lung(22;9.49e-05)|LUSC - Lung squamous cell carcinoma(20;0.000219)			TTGAGTACCGCCAGCAGGTTC	0.617													6	44					0	0	1	0	0		T	41209479	T	T	41209479	3	4	49	1	0	0	0	0	1	0	0	0	290	739	26	2	896	2	ADCK4	19	41209479	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	667657	41209479	17919504	1374	38054											
CYP2F1	1572	broad.mit.edu	37	chr19	41630643	41630643	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccgcgtgcaggaggagatCgacctcgtggtgggacgcgc	6	5	18	12	6	0	1	0	0	0	1	2	5	0	3	2	4	1	1	2	4	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:41630643C>T	uc002opu.1	+	8	1040	c.984C>T	c.(982-984)ATC>ATT	p.I328I	CYP2F1_uc010xvw.1_Intron|CYP2F1_uc010xvv.1_Missense_Mutation_p.S309L|CYP2F1_uc002opv.1_RNA	NM_000774	NP_000765	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F,	328					naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0						AGGAGGAGATCGACCTCGTGG	0.672													5	23					0	0	1	0	0		T	41630643	T	T	41630643	2	4	49	1	0	0	0	0	0	0	0	1	4174	874	31	1		1	CYP2F1	19	41630643	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	421164	41630643	17498340	1375	38055											
CYP2S1	29785	broad.mit.edu	37	chr19	41700534	41700534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttgggcaggaggctgtgcGggaggccctgggaggtcagg	5	6	23	7	1	1	0	1	0	0	0	1	3	1	3	1	9	1	3	1	9	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:41700534G>A	uc002opw.2	+	2	318	c.263G>A	c.(262-264)CGG>CAG	p.R88Q	CYP2F1_uc010xvw.1_Intron|CYP2S1_uc010xvx.1_5'UTR	NM_030622	NP_085125	Q96SQ9	CP2S1_HUMAN	cytochrome P450, family 2, subfamily S,	88					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity			skin(1)	1						GAGGCTGTGCGGGAGGCCCTG	0.632													11	48					0	0	1	0	0		A	41700534	A	A	41700534	3	1	49	1	0	0	0	0	1	0	0	0	4177	1116	39	1	269	1	CYP2S1	19	41700534	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	69891	41700534	17428449	1376	38056											
AXL	558	broad.mit.edu	37	chr19	41743896	41743896	+	Frame_Shift_Del	DEL	C	-	-																															atccaggcgggagaaccagaCcccccagaggagcccctcac																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:41743896delC	uc010ehj.2	+	7	1021	c.831delC	c.(829-831)GACfs	p.D277fs	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Frame_Shift_Del_p.D277fs|AXL_uc010ehk.2_Frame_Shift_Del_p.D277fs	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	277	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						GAGAACCAGACCCCCCAGAGG	0.622													35	67	---	---	---	---						.	-	41743896	-	-	41743896	7	5	49	1	0	1	0	1	0	0	0	0	1239	506	18	0	857	0	AXL	19	41743896	Frame_Shift_Del	DEL	C	TCGA-BR-7707-01A-11D-2053-08	43362	41743896	17385087	1377	38057											
CD79A	973	broad.mit.edu	37	chr19	42383351	42383351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgcggcacctacctccGcgtgcgccgtgagtggccca	4	7	13	17	5	0	1	0	1	0	0	2	1	2	1	6	2	3	1	6	2	1	1	rs144367487	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:42383351G>A	uc002orv.2	+	2	556	c.371G>A	c.(370-372)CGC>CAC	p.R124H	CD79A_uc002oru.2_Intron	NM_001783	NP_001774	P11912	CD79A_HUMAN	CD79A antigen isoform 1 precursor	124	Extracellular (Potential).				B cell differentiation|B cell proliferation|B cell receptor signaling pathway	B cell receptor complex|external side of plasma membrane|integral to membrane|membrane raft|multivesicular body	transmembrane receptor activity			ovary(2)|pancreas(1)	3						ACCTACCTCCGCGTGCGCCGT	0.597			O|S		DLBCL								5	21					0	0	1	0	0		A	42383351	A	A	42383351	3	1	49	1	0	0	0	0	1	0	0	0	3039	1087	38	1	377	1	CD79A	19	42383351	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	639455	42383351	16745632	1378	38058											
ATP1A3	478	broad.mit.edu	37	chr19	42489240	42489240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgctcaatctcgatggCgatgggcgtcttgcccacct	7	10	12	12	3	3	0	1	0	2	0	4	3	3	0	2	2	2	1	2	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:42489240C>T	uc002osg.2	-	8	977	c.823G>A	c.(823-825)GCC>ACC	p.A275T	ATP1A3_uc010xwf.1_Missense_Mutation_p.A286T|ATP1A3_uc010xwg.1_Missense_Mutation_p.A245T|ATP1A3_uc010xwh.1_Missense_Mutation_p.A288T|ATP1A3_uc002osh.2_Missense_Mutation_p.A275T	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	275	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						ATCTCGATGGCGATGGGCGTC	0.632													3	27					0	0	1	0	0		T	42489240	T	T	42489240	3	4	49	1	0	0	0	0	1	0	0	0	1131	768	27	1	2282	1	ATP1A3	19	42489240	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	105889	42489240	16639743	1379	38059											
MEGF8	1954	broad.mit.edu	37	chr19	42880243	42880243	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctacctgctgctgctgggCgtgggagacccaagtgggcc	5	9	15	12	1	1	1	0	0	1	1	1	2	1	1	3	3	4	3	3	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:42880243C>T	uc002otl.3	+	41	8288	c.7653C>T	c.(7651-7653)GGC>GGT	p.G2551G	MEGF8_uc002otm.3_Silent_p.G2159G|MEGF8_uc002otn.3_Silent_p.G212G	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	2618	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				TGCTGCTGGGCGTGGGAGACC	0.647													16	38					0	0	1	0	0		T	42880243	T	T	42880243	2	4	49	1	0	0	0	0	0	0	0	1	9481	755	27	1		1	MEGF8	19	42880243	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	391003	42880243	16248740	1380	38060											
PSG1	5669	broad.mit.edu	37	chr19	43376071	43376071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtgagtcatagggaggCtctgaccattcatccaccac	10	9	10	12	0	3	2	2	2	1	0	4	3	4	3	3	2	1	2	3	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:43376071C>T	uc002ovb.2	-	3	695	c.557G>A	c.(556-558)AGC>AAC	p.S186N	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Missense_Mutation_p.S186N|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_RNA|PSG1_uc002our.1_Missense_Mutation_p.S186N|PSG1_uc010eio.1_Missense_Mutation_p.S186N|PSG1_uc002oux.1_Missense_Mutation_p.S115N|PSG1_uc002ouy.1_Missense_Mutation_p.S186N|PSG1_uc002ouz.1_Missense_Mutation_p.S186N|PSG1_uc002ova.1_Intron|PSG1_uc002ovc.2_Intron|PSG1_uc002ovd.1_Missense_Mutation_p.S186N	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	186	Ig-like C2-type 1.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				CATAGGGAGGCTCTGACCATT	0.498													83	241					0	0	1	0	0		T	43376071	T	T	43376071	3	4	49	1	0	0	0	0	1	0	0	0	12675	797	28	2	771	2	PSG1	19	43376071	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	495828	43376071	15752912	1381	38061											
CD177	57126	broad.mit.edu	37	chr19	43859890	43859890	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacagaagagatctgccccAaggggaccacacactgttat	14	6	9	12	0	1	2	0	0	1	2	1	4	1	3	3	2	2	1	3	2	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:43859890A>G	uc002owi.2	+	4	499	c.457A>G	c.(457-459)AAG>GAG	p.K153E	CD177_uc010eis.2_RNA|CD177_uc002owj.2_RNA	NM_020406	NP_065139	Q8N6Q3	CD177_HUMAN	CD177 molecule precursor	153	UPAR/Ly6 1.				blood coagulation|leukocyte migration	anchored to membrane|plasma membrane				central_nervous_system(1)	1		Prostate(69;0.00682)				GATCTGCCCCAAGGGGACCAC	0.577													12	34					0	0	1	0	0		G	43859890	G	G	43859890	3	3	49	1	0	0	0	0	1	0	0	0	2974	131	5	3	471	3	CD177	19	43859890	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	483819	43859890	15269093	1382	38062											
XRCC1	7515	broad.mit.edu	37	chr19	44057061	44057061	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgggagactcctggggCtgaggggatggggatggatt	6	10	19	6	0	0	2	0	1	0	1	1	6	1	5	2	8	0	1	2	8	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:44057061C>A	uc002owt.2	-	8	832	c.712_splice	c.e8-1	p.P238_splice	XRCC1_uc010xwp.1_Splice_Site_p.P207_splice	NM_006297	NP_006288	P18887	XRCC1_HUMAN	X-ray repair cross complementing protein 1						base-excision repair|single strand break repair	nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(2)|large_intestine(1)|prostate(1)|breast(1)	7		Prostate(69;0.0153)				ACTCCTGGGGCTGAGGGGATG	0.562								Other_BER_factors					3	14					0.115264	0.116009	1	1	0		A	44057061	A	A	44057061	5	1	49	1	0	0	0	0	0	0	1	0	17478	811	28	5	1230	5	XRCC1	19	44057061	Splice_Site	SNP	C	TCGA-BR-7707-01A-11D-2053-08	197171	44057061	15071922	1383	38063											
ZNF155	7711	broad.mit.edu	37	chr19	44500799	44500799	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaaaccttacatttgtgagGcatgtgggaaggccttcatt	11	12	11	7	0	1	2	1	1	0	1	1	3	1	3	2	3	2	1	2	3	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:44500799G>T	uc002oxy.1	+	5	995	c.790G>T	c.(790-792)GCA>TCA	p.A264S	ZNF155_uc002oxz.1_Missense_Mutation_p.A264S|ZNF155_uc010xwt.1_Missense_Mutation_p.A275S	NM_003445	NP_003436	Q12901	ZN155_HUMAN	zinc finger protein 155	264	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)	2		Prostate(69;0.0352)				CATTTGTGAGGCATGTGGGAA	0.403													20	148					1.2644e-06	1.33539e-06	1	1	0		T	44500799	T	T	44500799	3	4	49	1	0	0	0	0	1	0	0	0	17761	1203	42	5	804	5	ZNF155	19	44500799	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	443738	44500799	14628184	1384	38064											
CEACAM19	56971	broad.mit.edu	37	chr19	45179597	45179597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaacgctgggatcctggCggccaccatcattggatctc	8	8	10	15	2	2	0	1	0	1	0	4	2	3	2	4	4	1	1	4	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:45179597C>T	uc002ozo.3	+	3	959	c.479C>T	c.(478-480)GCG>GTG	p.A160V	CEACAM19_uc002ozp.3_Missense_Mutation_p.A160V	NM_020219	NP_064604	Q7Z692	CEA19_HUMAN	carcinoembryonic antigen-related cell adhesion	160	Helical; (Potential).					integral to membrane					0	Lung NSC(12;0.00308)|all_lung(12;0.00806)	Prostate(69;0.0376)				GGGATCCTGGCGGCCACCATC	0.577													23	60					0	0	1	0	0		T	45179597	T	T	45179597	3	4	49	1	0	0	0	0	1	0	0	0	3193	768	27	1	489	1	CEACAM19	19	45179597	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	678798	45179597	13949386	1385	38065											
GIPR	2696	broad.mit.edu	37	chr19	46176148	46176148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgccagtgtggcagtgatgGccaatggggactttggagag	8	8	17	8	1	0	2	0	1	0	1	0	4	0	3	3	5	0	1	3	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:46176148G>A	uc002pcu.1	+	5	419	c.320G>A	c.(319-321)GGC>GAC	p.G107D	GIPR_uc002pct.1_Missense_Mutation_p.G107D|GIPR_uc010xxp.1_Missense_Mutation_p.G71D|GIPR_uc010xxq.1_RNA|MIR642_hsa-mir-642|MI0003657_5'Flank	NM_000164	NP_000155	P48546	GIPR_HUMAN	gastric inhibitory polypeptide receptor	107	Extracellular (Potential).				generation of precursor metabolites and energy|response to nutrient	integral to membrane|plasma membrane				skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0056)|GBM - Glioblastoma multiforme(486;0.0832)|Epithelial(262;0.199)		GGCAGTGATGGCCAATGGGGA	0.498													9	56					0	0	1	0	0		A	46176148	A	A	46176148	3	1	49	1	0	0	0	0	1	0	0	0	6410	1203	42	2	334	2	GIPR	19	46176148	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	996551	46176148	12952835	1386	38066											
DMPK	1760	broad.mit.edu	37	chr19	46280967	46280967	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtctccgccgtggaatcCgcgtagaagggcgtctgccc	6	8	14	13	5	2	1	0	0	2	1	4	2	3	2	4	3	1	1	4	3	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:46280967C>T	uc002pdd.1	-	6	1414	c.870G>A	c.(868-870)GCG>GCA	p.A290A	DMPK_uc010xxs.1_Silent_p.A191A|DMPK_uc002pde.1_Silent_p.A290A|DMPK_uc002pdf.1_Silent_p.A280A|DMPK_uc002pdg.1_Silent_p.A280A|DMPK_uc002pdh.1_Silent_p.A280A|DMPK_uc002pdi.1_Silent_p.A306A|DMPK_uc010xxt.1_Silent_p.A280A	NM_001081563	NP_001075032	Q09013	DMPK_HUMAN	myotonic dystrophy protein kinase isoform 1	290	Protein kinase.				regulation of heart contraction		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)	3		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00616)|GBM - Glioblastoma multiforme(486;0.0825)|Epithelial(262;0.24)		CCGTGGAATCCGCGTAGAAGG	0.642													15	142					0	0	1	0	0		T	46280967	T	T	46280967	2	4	49	1	0	0	0	0	0	0	0	1	4590	639	23	1		1	DMPK	19	46280967	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	104819	46280967	12848016	1387	38067											
CCDC8	83987	broad.mit.edu	37	chr19	46915642	46915642	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatcctcactctccaggtcGcttcccaggaacttgctgcc	6	11	7	17	1	3	0	2	0	1	0	7	1	5	1	4	2	3	2	4	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:46915642G>A	uc002pep.2	-	1	1278	c.426C>T	c.(424-426)AGC>AGT	p.S142S		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	142						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		TCTCCAGGTCGCTTCCCAGGA	0.667													12	61					0	0	1	0	0		A	46915642	A	A	46915642	2	1	49	1	0	0	0	0	0	0	0	1	2856	1078	38	1		1	CCDC8	19	46915642	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	634675	46915642	12213341	1388	38068											
BCAT2	587	broad.mit.edu	37	chr19	49303347	49303347	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcactccagcaactccagcTtgtcgaaactctgggtggga	9	9	11	12	1	1	0	0	0	1	0	4	2	3	1	2	2	5	3	2	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:49303347T>G	uc002pkr.2	-	5	459	c.422A>C	c.(421-423)AAG>ACG	p.K141T	BCAT2_uc002pkp.2_Missense_Mutation_p.K101T|BCAT2_uc002pkq.3_Missense_Mutation_p.K101T|BCAT2_uc002pks.2_Missense_Mutation_p.K101T|BCAT2_uc002pkt.2_Missense_Mutation_p.K49T|BCAT2_uc010emh.1_Missense_Mutation_p.K141T|BCAT2_uc010emi.1_Missense_Mutation_p.K49T|BCAT2_uc002pku.1_Missense_Mutation_p.K101T|BCAT2_uc010emj.1_RNA	NM_001190	NP_001181	O15382	BCAT2_HUMAN	branched chain aminotransferase 2, mitochondrial	141						mitochondrial matrix	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			ovary(1)	1		all_epithelial(76;7e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000138)|all cancers(93;0.000366)|Epithelial(262;0.0195)|GBM - Glioblastoma multiforme(486;0.0224)	L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|Pyridoxal Phosphate(DB00114)	CAACTCCAGCTTGTCGAAACT	0.662													4	71					0	0	1	0	0		G	49303347	G	G	49303347	3	3	49	1	0	0	0	0	1	0	0	0	1356	1609	56	5	784	5	BCAT2	19	49303347	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2387705	49303347	9825636	1389	38069											
PPFIA3	8541	broad.mit.edu	37	chr19	49642973	49642973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccacgaggggaggggccgGccatcccaggagacacccca	9	2	14	16	2	0	1	0	0	0	1	2	4	2	2	6	6	0	0	6	6	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:49642973G>A	uc002pmr.2	+	17	2457	c.2125G>A	c.(2125-2127)GCC>ACC	p.A709T	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_Missense_Mutation_p.A577T	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	709						cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		GGAGGGGCCGGCCATCCCAGG	0.627													18	55					0	0	1	0	0		A	49642973	A	A	49642973	3	1	49	1	0	0	0	0	1	0	0	0	12330	1203	42	2	2187	2	PPFIA3	19	49642973	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	339626	49642973	9486010	1390	38070											
PRR12	57479	broad.mit.edu	37	chr19	50099565	50099565	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcctcggacctcaggggCggacggcttggtgggcgagg	4	6	18	13	4	1	0	1	0	0	0	3	3	2	2	3	8	0	1	3	8	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:50099565C>T	uc002poo.3	+	4	1973	c.1973C>T	c.(1972-1974)GCG>GTG	p.A658V		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		ACCTCAGGGGCGGACGGCTTG	0.701													8	10					0	0	1	0	0		T	50099565	T	T	50099565	3	4	49	1	0	0	0	0	1	0	0	0	12606	768	27	1	1987	1	PRR12	19	50099565	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	456592	50099565	9029418	1391	38071											
PRMT1	3276	broad.mit.edu	37	chr19	50189959	50189959	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcttcggcaccatcggCatgcggcccaacgccaagaa	11	5	11	14	4	1	2	0	0	1	2	3	3	1	2	3	3	2	2	3	3	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:50189959C>T	uc010enf.1	+	10	1050	c.1008C>T	c.(1006-1008)GGC>GGT	p.G336G	PRMT1_uc002ppc.1_RNA|PRMT1_uc002ppd.2_Silent_p.G312G|PRMT1_uc002ppe.2_Silent_p.G318G|PRMT1_uc002ppf.2_RNA|PRMT1_uc002ppg.2_Silent_p.G283G|PRMT1_uc010ybb.1_5'Flank|C19orf76_uc002pph.2_5'Flank	NM_001536	NP_001527	Q8WUW5	Q8WUW5_HUMAN	HMT1 hnRNP methyltransferase-like 2 isoform 1	317						cytoplasm	protein methyltransferase activity			ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00103)|GBM - Glioblastoma multiforme(134;0.012)		GCACCATCGGCATGCGGCCCA	0.448													6	66					0	0	1	0	0		T	50189959	T	T	50189959	2	4	49	1	0	0	0	0	0	0	0	1	12557	697	25	2		2	PRMT1	19	50189959	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	90394	50189959	8939024	1392	38072											
TSKS	60385	broad.mit.edu	37	chr19	50249873	50249873	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggactccctggcgggccgggGcagccctgggacgtggcggc	3	4	20	14	4	0	0	0	0	0	0	1	2	1	2	3	8	1	1	3	8	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:50249873G>A	uc002ppm.2	-	6	857	c.846C>T	c.(844-846)TGC>TGT	p.C282C		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	282							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		GCGGGCCGGGGCAGCCCTGGG	0.567													11	33					0	0	1	0	0		A	50249873	A	A	50249873	2	1	49	1	0	0	0	0	0	0	0	1	16652	1195	42	2		2	TSKS	19	50249873	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	59914	50249873	8879110	1393	38073											
MYH14	79784	broad.mit.edu	37	chr19	50794294	50794294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaggcggtgaagcagcttCgcaagatgcaggtaagagcc	12	5	16	8	2	0	3	0	1	0	2	1	4	0	4	1	4	4	5	1	4	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:50794294C>T	uc002prr.1	+	34	5040	c.4993C>T	c.(4993-4995)CGC>TGC	p.R1665C	MYH14_uc010enu.1_Missense_Mutation_p.R1706C|MYH14_uc002prq.1_Missense_Mutation_p.R1673C|MYH14_uc010ycb.1_Missense_Mutation_p.R16C|MYH14_uc002prs.1_Missense_Mutation_p.R16C	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1665	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		GAAGCAGCTTCGCAAGATGCA	0.642													9	24					0	0	1	0	0		T	50794294	T	T	50794294	3	4	49	1	0	0	0	0	1	0	0	0	10051	884	31	1	5254	1	MYH14	19	50794294	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	544421	50794294	8334689	1394	38074											
POLD1	5424	broad.mit.edu	37	chr19	50910265	50910265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgaccagacccgccgccGcctggctgtgtactgcctga	7	6	12	16	4	0	2	0	1	0	1	0	4	0	2	6	1	3	2	6	1	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:50910265G>A	uc002psb.3	+	13	1576	c.1520G>A	c.(1519-1521)CGC>CAC	p.R507H	POLD1_uc002psc.3_Missense_Mutation_p.R507H|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Missense_Mutation_p.R507H	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	507					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		ACCCGCCGCCGCCTGGCTGTG	0.418								DNA_polymerases_(catalytic_subunits)					14	137					0	0	1	0	0		A	50910265	A	A	50910265	3	1	49	1	0	0	0	0	1	0	0	0	12209	1087	38	1	1566	1	POLD1	19	50910265	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	115971	50910265	8218718	1395	38075											
LRRC4B	94030	broad.mit.edu	37	chr19	51021034	51021034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggccaggtggctgtcccCgcccacaccacccccactgg	6	4	11	20	1	0	0	0	0	0	0	1	0	1	0	7	4	0	1	7	4	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:51021034C>T	uc002pss.2	-	3	2073	c.1936G>A	c.(1936-1938)GGG>AGG	p.G646R		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	646	Cytoplasmic (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		TGGCTGTCCCCGCCCACACCA	0.721													6	11					0	0	1	0	0		T	51021034	T	T	51021034	3	4	49	1	0	0	0	0	1	0	0	0	9025	652	23	1	209	1	LRRC4B	19	51021034	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	110769	51021034	8107949	1396	38076											
GPR32	2854	broad.mit.edu	37	chr19	51273872	51273872	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaatcatgaatggggtctcGgaggggaccagaggctgcag	11	6	17	7	1	2	2	1	1	1	1	3	5	2	4	1	6	1	2	1	6	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:51273872G>A	uc010ycf.1	+	1	15	c.15G>A	c.(13-15)TCG>TCA	p.S5S		NM_001506	NP_001497	O75388	GPR32_HUMAN	G protein-coupled receptor 32	5	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		ATGGGGTCTCGGAGGGGACCA	0.383													3	16					0	0	1	0	0		A	51273872	A	A	51273872	2	1	49	1	0	0	0	0	0	0	0	1	6703	1103	39	1		1	GPR32	19	51273872	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	252838	51273872	7855111	1397	38077											
KLK15	55554	broad.mit.edu	37	chr19	51330229	51330229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccgggtgggggcaacgcGtgggtagcaccgcggggcgc	4	3	20	14	6	0	0	0	0	0	0	0	0	0	0	3	6	2	3	3	6	2	1	rs139927076		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:51330229G>A	uc002ptl.2	-	3	417	c.386C>T	c.(385-387)ACG>ATG	p.T129M	KLK15_uc002ptm.2_Intron|KLK15_uc002ptn.2_Missense_Mutation_p.T129M|KLK15_uc002pto.2_Missense_Mutation_p.T128M|KLK15_uc010ych.1_Intron|KLK15_uc010yci.1_Missense_Mutation_p.T128M|KLK15_uc010eod.2_RNA	NM_017509	NP_059979	Q9H2R5	KLK15_HUMAN	kallikrein-related peptidase 15 isoform 4	129	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)|breast(1)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00758)|GBM - Glioblastoma multiforme(134;0.0143)		GGGGCAACGCGTGGGTAGCAC	0.716													28	45					0	0	1	0	0		A	51330229	A	A	51330229	3	1	49	1	0	0	0	0	1	0	0	0	8419	1145	40	1	396	1	KLK15	19	51330229	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	56357	51330229	7798754	1398	38078											
SIGLEC5	8778	broad.mit.edu	37	chr19	52130718	52130718	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaatacgccccctgaccttGcagcagcaggacagagccgc	10	4	11	16	2	0	2	0	1	0	1	0	3	0	3	4	1	5	4	4	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:52130718G>T	uc002pxe.2	-	6	1418	c.1279C>A	c.(1279-1281)CAA>AAA	p.Q427K		NM_003830	NP_003821	O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5 precursor	427	Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			skin(2)|breast(1)|central_nervous_system(1)	4		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		CCCTGACCTTGCAGCAGCAGG	0.642													53	138					4.09171e-25	4.50772e-25	1	1	0		T	52130718	T	T	52130718	3	4	49	1	0	0	0	0	1	0	0	0	14336	1328	46	5	392	5	SIGLEC5	19	52130718	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	800489	52130718	6998265	1399	38079											
ZNF350	59348	broad.mit.edu	37	chr19	52469195	52469195	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttaattgcagtatgaagtcGttcatggttagcatgaagaa	13	14	10	4	1	1	3	1	2	0	1	2	3	1	3	0	1	2	5	0	1	6	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:52469195G>A	uc002pyd.2	-	5	739	c.511C>T	c.(511-513)CGA>TGA	p.R171*	uc002pyb.2_Intron|uc002pyc.2_Intron	NM_021632	NP_067645	Q9GZX5	ZN350_HUMAN	zinc finger protein 350	171					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix|transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			breast(1)	1		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0179)		GTATGAAGTCGTTCATGGTTA	0.373													27	105					0	0	1	0	0		A	52469195	A	A	52469195	4	1	49	1	0	0	0	0	0	1	0	0	17888	1153	40	1	1091	1	ZNF350	19	52469195	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	338477	52469195	6659788	1400	38080											
ZNF616	90317	broad.mit.edu	37	chr19	52618898	52618898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccgatgcactgcaagacGtgaatgttgactgaagacct	11	10	10	10	2	1	5	0	3	1	2	2	6	1	5	2	0	2	3	2	0	3	1	rs149072042	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:52618898G>A	uc002pym.2	-	4	1802	c.1519C>T	c.(1519-1521)CGT>TGT	p.R507C	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	507	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		ACTGCAAGACGTGAATGTTGA	0.433													24	126					0	0	1	0	0		A	52618898	A	A	52618898	3	1	49	1	0	0	0	0	1	0	0	0	18066	1145	40	1	830	1	ZNF616	19	52618898	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	149703	52618898	6510085	1401	38081											
ZNF83	55769	broad.mit.edu	37	chr19	53116634	53116634	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaggtttctctccagtaTggattctgtgatgttgtaca	8	17	10	6	0	2	1	0	1	2	0	4	2	3	2	1	2	1	5	1	2	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:53116634T>C	uc002pzu.3	-	2	2428	c.1184A>G	c.(1183-1185)CAT>CGT	p.H395R	ZNF83_uc002pzv.3_Missense_Mutation_p.H395R|ZNF83_uc010eps.2_Missense_Mutation_p.H367R|ZNF83_uc010ept.2_Missense_Mutation_p.H395R|ZNF83_uc010epu.2_Missense_Mutation_p.H395R|ZNF83_uc010epv.2_Missense_Mutation_p.H395R|ZNF83_uc010epw.2_Missense_Mutation_p.H395R|ZNF83_uc010epx.2_Missense_Mutation_p.H367R|ZNF83_uc010epy.2_Missense_Mutation_p.H395R|ZNF83_uc010epz.2_Missense_Mutation_p.H367R	NM_018300	NP_060770	P51522	ZNF83_HUMAN	zinc finger protein 83 isoform a	395	C2H2-type 11.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00841)|GBM - Glioblastoma multiforme(134;0.0244)		CTCTCCAGTATGGATTCTGTG	0.363													11	106					0	0	1	0	0		C	53116634	C	C	53116634	3	2	49	1	0	0	0	0	1	0	0	0	18208	1464	51	3	370	3	ZNF83	19	53116634	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	497736	53116634	6012349	1402	38082											
ZNF320	162967	broad.mit.edu	37	chr19	53367219	53367219	+	RNA	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaaatcacaaaagagaatAcaaaaccaggaaaagccaag	24	2	7	8	0	1	1	1	0	0	1	1	3	1	2	2	1	3	1	2	1	11	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:53367219A>G	uc010eqh.1	-	3		c.458T>C			ZNF320_uc010eqi.1_RNA			A2RRD8	ZN320_HUMAN	Homo sapiens full length insert cDNA clone ZD42C02.						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		AAAAGAGAATACAAAACCAGG	0.313													5	29					0	0	1	0	0		G	53367219	G	G	53367219	1	3	49	0	1	0	0	0	0	0	0	0	17864	406	14	3		3	ZNF320	19	53367219	RNA	SNP	A	TCGA-BR-7707-01A-11D-2053-08	250585	53367219	5761764	1403	38083											
ZNF415	55786	broad.mit.edu	37	chr19	53612025	53612025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatgactcgcaaggtgtgAattgtaactgaaaaccttac	13	10	9	9	2	0	3	0	3	0	0	1	4	0	3	2	1	3	2	2	1	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:53612025A>G	uc002qax.2	-	7	1766	c.1417T>C	c.(1417-1419)TCA>CCA	p.S473P	ZNF415_uc002qat.2_Missense_Mutation_p.S437P|ZNF415_uc002qaw.2_Missense_Mutation_p.S425P|ZNF415_uc010yds.1_Missense_Mutation_p.S425P|ZNF415_uc010ydt.1_Missense_Mutation_p.S425P|ZNF415_uc002qau.2_Missense_Mutation_p.S412P|ZNF415_uc002qav.2_Missense_Mutation_p.S437P|ZNF415_uc002qba.2_Missense_Mutation_p.S195P|ZNF415_uc002qay.2_Missense_Mutation_p.S412P|ZNF415_uc002qaz.2_Missense_Mutation_p.S473P	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	473	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		GCAAGGTGTGAATTGTAACTG	0.418													4	128					0	0	1	0	0		G	53612025	G	G	53612025	3	3	49	1	0	0	0	0	1	0	0	0	17917	246	9	3	398	3	ZNF415	19	53612025	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	244806	53612025	5516958	1404	38084											
LILRA5	353514	broad.mit.edu	37	chr19	54822903	54822903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacctgtcgaatctcagccGtgagccacactggagggtca	10	7	12	12	2	2	1	2	1	1	0	4	4	2	2	3	2	3	0	3	2	2	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:54822903G>A	uc002qfe.2	-	5	613	c.493C>T	c.(493-495)CGG>TGG	p.R165W	LILRA5_uc002qff.2_Missense_Mutation_p.R153W|LILRA5_uc010yev.1_Missense_Mutation_p.R165W|LILRA5_uc010yew.1_Missense_Mutation_p.R153W|LILRA5_uc002qfh.1_Missense_Mutation_p.R153W|LILRA5_uc002qfg.1_Missense_Mutation_p.R165W	NM_021250	NP_067073	A6NI73	LIRA5_HUMAN	leukocyte immunoglobulin-like receptor subfamily	165	Extracellular (Potential).|Ig-like C2-type 2.				innate immune response	extracellular region|integral to membrane	receptor activity			upper_aerodigestive_tract(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		AATCTCAGCCGTGAGCCACAC	0.582													7	79					0	0	1	0	0		A	54822903	A	A	54822903	3	1	49	1	0	0	0	0	1	0	0	0	8804	1144	40	1	504	1	LILRA5	19	54822903	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1210878	54822903	4306080	1405	38085											
LILRA4	23547	broad.mit.edu	37	chr19	54848764	54848764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtactggcccccgtaggagcGgctcacagggctcagggtga	7	6	16	12	2	2	1	2	1	0	0	2	2	2	2	2	5	2	4	2	5	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:54848764G>A	uc002qfj.2	-	5	916	c.859C>T	c.(859-861)CGC>TGC	p.R287C	LILRA4_uc002qfi.2_Missense_Mutation_p.R221C	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	287	Extracellular (Potential).|Ig-like C2-type 3.					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		CCGTAGGAGCGGCTCACAGGG	0.682													14	37					0	0	1	0	0		A	54848764	A	A	54848764	3	1	49	1	0	0	0	0	1	0	0	0	8803	1116	39	1	656	1	LILRA4	19	54848764	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	25861	54848764	4280219	1406	38086											
FCAR	2204	broad.mit.edu	37	chr19	55401033	55401033	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agactccatccaccaagattAcacgacgcagaacttgatcc	14	7	6	14	2	0	4	0	1	0	3	3	5	3	4	4	0	2	1	4	0	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:55401033A>G	uc002qhr.1	+	5	865	c.668A>G	c.(667-669)TAC>TGC	p.Y223C	FCAR_uc002qhs.1_RNA|FCAR_uc002qht.1_Missense_Mutation_p.Y174C|FCAR_uc010esi.1_Missense_Mutation_p.Y100C|FCAR_uc002qhu.1_Missense_Mutation_p.Y127C|FCAR_uc002qhv.1_Missense_Mutation_p.Y201C|FCAR_uc002qhw.1_Missense_Mutation_p.Y211C|FCAR_uc002qhx.1_Missense_Mutation_p.Y115C|FCAR_uc002qhy.1_Missense_Mutation_p.Y189C|FCAR_uc002qhz.1_Silent_p.L186L|FCAR_uc002qia.1_Missense_Mutation_p.Y114C	NM_002000	NP_001991	P24071	FCAR_HUMAN	Fc alpha receptor isoform a precursor	223	Extracellular (Potential).				immune response	extracellular region|integral to plasma membrane	IgA binding|receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0443)		CACCAAGATTACACGACGCAG	0.537													41	484					0	0	1	0	0		G	55401033	G	G	55401033	3	3	49	1	0	0	0	0	1	0	0	0	5787	391	14	3	757	3	FCAR	19	55401033	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	552269	55401033	3727950	1407	38087											
RPL28	6158	broad.mit.edu	37	chr19	55899400	55899400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccgcaagaacaagtaccGccccgacctgcgcatggtga	11	5	11	14	4	0	2	0	1	0	1	1	4	1	2	5	1	3	3	5	1	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:55899400G>A	uc002qkv.2	+	4	350	c.308G>A	c.(307-309)CGC>CAC	p.R103H	RPL28_uc010yga.1_Missense_Mutation_p.R103H|RPL28_uc010ygb.1_Missense_Mutation_p.R103H|RPL28_uc002qkw.1_3'UTR	NM_000991	NP_000982	P46779	RL28_HUMAN	ribosomal protein L28 isoform 2	103					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0	Breast(117;0.191)	Renal(1328;0.245)	LUSC - Lung squamous cell carcinoma(43;0.13)|BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0443)		AACAAGTACCGCCCCGACCTG	0.607													9	78					0	0	1	0	0		A	55899400	A	A	55899400	3	1	49	1	0	0	0	0	1	0	0	0	13602	1087	38	1	386	1	RPL28	19	55899400	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	498367	55899400	3229583	1408	38088											
ZNF628	89887	broad.mit.edu	37	chr19	55993235	55993235	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgctgcaccagcgcacGcacggcgccgcccccgcccc	4	3	11	23	6	0	0	0	0	0	0	0	0	0	0	6	1	4	5	6	1	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:55993235G>A	uc002qld.2	+	3	1228	c.663G>A	c.(661-663)ACG>ACA	p.T221T		NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	221	C2H2-type 7.					nucleus	DNA binding|zinc ion binding				0	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0531)		ACCAGCGCACGCAcggcgccg	0.542													5	1					0	0	1	0	0		A	55993235	A	A	55993235	2	1	49	1	0	0	0	0	0	0	0	1	18077	1074	38	1		1	ZNF628	19	55993235	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	93835	55993235	3135748	1409	38089											
U2AF2	11338	broad.mit.edu	37	chr19	56166473	56166473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacgcggccgcctcagcatGtcggacttcgacgagttcga	7	8	12	14	7	1	0	1	0	0	0	4	4	1	1	2	2	2	2	2	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:56166473G>A	uc002qlu.2	+	1	1058	c.3G>A	c.(1-3)ATG>ATA	p.M1I	U2AF2_uc002qlt.2_Missense_Mutation_p.M1I	NM_007279	NP_009210	P26368	U2AF2_HUMAN	U2 (RNU2) small nuclear RNA auxiliary factor 2	1					mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	nucleoplasm|spliceosomal complex	enzyme binding|nucleotide binding|RNA binding			ovary(1)	1		Colorectal(82;0.00244)|Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		GCCTCAGCATGTCGGACTTCG	0.682													5	33					0	0	1	0	0		A	56166473	A	A	56166473	3	1	49	1	0	0	0	0	1	0	0	0	16849	1377	48	4	5	4	U2AF2	19	56166473	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	173238	56166473	2962510	1410	38090											
ZNF787	126208	broad.mit.edu	37	chr19	56599515	56599515	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcagaccgagggcgcGcccaccgcgtggatcttctt	5	8	13	15	5	2	1	0	0	2	1	2	3	2	2	3	2	2	2	3	2	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:56599515G>A	uc010eth.1	-	3	1145	c.1026C>T	c.(1024-1026)GGC>GGT	p.G342G		NM_001002836	NP_001002836	Q6DD87	ZN787_HUMAN	zinc finger protein 787	342					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0559)		CCGAGGGCGCGCCCACCGCGT	0.756													4	22					0	0	1	0	0		A	56599515	A	A	56599515	2	1	49	1	0	0	0	0	0	0	0	1	18184	1074	38	1		1	ZNF787	19	56599515	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	433042	56599515	2529468	1411	38091											
ZNF71	58491	broad.mit.edu	37	chr19	57133439	57133439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcacctcatcgtgcaccagCgcacgcacaccggggagaag	10	4	12	15	4	1	1	1	0	0	1	2	2	1	1	3	2	3	4	3	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:57133439C>T	uc002qnm.3	+	3	1022	c.784C>T	c.(784-786)CGC>TGC	p.R262C		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	262	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		CGTGCACCAGCGCACGCACAC	0.672													10	47					0	0	1	0	0		T	57133439	T	T	57133439	3	4	49	1	0	0	0	0	1	0	0	0	18139	768	27	1	786	1	ZNF71	19	57133439	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	533924	57133439	1995544	1412	38092											
ZIM2	23619	broad.mit.edu	37	chr19	57286450	57286450	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacacgttcacagagattcGcacactggacggaaggcttt	11	10	10	10	3	1	1	1	0	0	1	2	4	1	3	0	3	1	3	0	3	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:57286450G>T	uc002qnr.2	-	11	1572	c.1190C>A	c.(1189-1191)GCG>GAG	p.A397E	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Missense_Mutation_p.A193E|ZIM2_uc010ygr.1_Missense_Mutation_p.A193E|ZIM2_uc002qnq.2_Missense_Mutation_p.A397E|ZIM2_uc010etp.2_Missense_Mutation_p.A397E|ZIM2_uc010ygs.1_Missense_Mutation_p.A397E	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	397					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		ACAGAGATTCGCACACTGGAC	0.458													9	44					9.70103e-10	1.04061e-09	1	1	0		T	57286450	T	T	57286450	3	4	49	1	0	0	0	0	1	0	0	0	17709	1087	38	5	397	5	ZIM2	19	57286450	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	153011	57286450	1842533	1413	38093											
PEG3	5178	broad.mit.edu	37	chr19	57325987	57325987	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtctctcttcggtctgacTtctctgaaactcagtgaggg	7	13	11	10	1	5	3	1	3	4	0	8	4	5	3	0	2	1	0	0	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:57325987T>G	uc002qnu.2	-	7	4174	c.3823A>C	c.(3823-3825)AGT>CGT	p.S1275R	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.S1246R|PEG3_uc002qnv.2_Missense_Mutation_p.S1275R|PEG3_uc002qnw.2_Missense_Mutation_p.S1151R|PEG3_uc002qnx.2_Missense_Mutation_p.S1149R|PEG3_uc010etr.2_Missense_Mutation_p.S1275R	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1275					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TCGGTCTGACTTCTCTGAAAC	0.463													3	47					0	0	1	0	0		G	57325987	G	G	57325987	3	3	49	1	0	0	0	0	1	0	0	0	11739	1609	56	5	947	5	PEG3	19	57325987	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	39537	57325987	1802996	1414	38094											
ZNF805	390980	broad.mit.edu	37	chr19	57765778	57765778	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaacctcattcgacactctAtcatccacactggagagaag	14	8	6	13	1	3	1	2	0	1	1	5	4	4	2	2	1	1	0	2	1	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:57765778A>G	uc010ygt.1	+	4	1798	c.1591A>G	c.(1591-1593)ATC>GTC	p.I531V	ZNF805_uc010ygu.1_Missense_Mutation_p.I398V	NM_001023563	NP_001018857	Q5CZA5	ZN805_HUMAN	zinc finger protein 805 isoform 1	531	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCGACACTCTATCATCCACAC	0.507													5	71					0	0	1	0	0		G	57765778	G	G	57765778	3	3	49	1	0	0	0	0	1	0	0	0	18197	449	16	3	1605	3	ZNF805	19	57765778	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	439791	57765778	1363205	1415	38095											
ZNF543	125919	broad.mit.edu	37	chr19	57840273	57840273	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagagaaaccctatgagtgCgtggagtgtggaaaggcctt	11	8	16	6	1	0	2	0	1	0	1	0	6	0	5	2	4	2	0	2	4	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:57840273C>T	uc002qoi.1	+	4	1788	c.1443C>T	c.(1441-1443)TGC>TGT	p.C481C		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	481	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		CCTATGAGTGCGTGGAGTGTG	0.493													8	73					0	0	1	0	0		T	57840273	T	T	57840273	2	4	49	1	0	0	0	0	0	0	0	1	18001	776	27	1		1	ZNF543	19	57840273	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	74495	57840273	1288710	1416	38096											
ZBTB45	84878	broad.mit.edu	37	chr19	59028928	59028928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagcgaagcttcacgaatgCgcacagtcacgtcacagaag	13	5	11	12	4	3	1	3	0	0	1	3	3	3	1	0	0	3	3	0	0	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr19:59028928C>T	uc002qtd.2	-	2	405	c.113G>A	c.(112-114)CGC>CAC	p.R38H	ZBTB45_uc002qte.2_Missense_Mutation_p.R38H|ZBTB45_uc002qtf.2_Missense_Mutation_p.R38H	NM_032792	NP_116181	Q96K62	ZBT45_HUMAN	zinc finger and BTB domain containing 45	38	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0165)|Lung(386;0.18)		TTCACGAATGCGCACAGTCAC	0.602											OREG0025700	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	31					0	0	1	0	0		T	59028928	T	T	59028928	3	4	49	1	0	0	0	0	1	0	0	0	17571	768	27	1	1430	1	ZBTB45	19	59028928	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1188655	59028928	100055	1417	38097											
SNPH	9751	broad.mit.edu	37	chr20	1286385	1286386	+	Frame_Shift_Ins	INS	-	C	C																															ccacagcggcctggtgccaaINSccccaaccctggccagtcgg																										TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:1286385_1286386insC	uc002wes.2	+	6	1408_1409	c.1172_1173insC	c.(1171-1173)AACfs	p.N391fs	SNPH_uc002wet.2_Frame_Shift_Ins_p.N435fs	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	391					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						CCTGGTGCCAACCCCAACCCTG	0.658													9	9	---	---	---	---						.	C	1286386	C	C	1286385	7	5	49	1	0	1	1	0	0	0	0	0	14875	43	2	0	1186	0	SNPH	20	1286385	Frame_Shift_Ins	INS	-	TCGA-BR-7707-01A-11D-2053-08		1286385	61739135	1418	38098											
SIRPA	140885	broad.mit.edu	37	chr20	1896067	1896067	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccccgatgacgtggagttTaagtctggagcaggcactga	10	8	14	9	2	1	2	0	2	1	0	1	5	1	4	2	3	2	3	2	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:1896067T>C	uc002wfq.2	+	3	762	c.402T>C	c.(400-402)TTT>TTC	p.F134F	SIRPA_uc010zps.1_Silent_p.F114F|SIRPA_uc002wfr.2_Silent_p.F134F|SIRPA_uc002wfs.2_Silent_p.F134F|SIRPA_uc002wft.2_Silent_p.F134F	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	134	Ig-like V-type.|Extracellular (Potential).		F -> L.		blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		ACGTGGAGTTTAAGTCTGGAG	0.537													6	133					0	0	1	0	0		C	1896067	C	C	1896067	2	2	49	1	0	0	0	0	0	0	0	1	14357	1751	61	3		3	SIRPA	20	1896067	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	609682	1896067	61129453	1419	38099											
TGM3	7053	broad.mit.edu	37	chr20	2321186	2321186	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acttctcctgcaacaagttcCctgcaatcaaggccatgttg	10	11	7	13	0	2	0	1	0	1	0	4	0	3	0	3	1	3	4	3	1	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:2321186C>A	uc002wfx.3	+	13	2138	c.2041C>A	c.(2041-2043)CCT>ACT	p.P681T		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	681					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	CAACAAGTTCCCTGCAATCAA	0.592													5	88					0.000602214	0.000618842	1	1	0		A	2321186	A	A	2321186	3	1	49	1	0	0	0	0	1	0	0	0	15856	623	22	5	2091	5	TGM3	20	2321186	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	425119	2321186	60704334	1420	38100											
TGM6	343641	broad.mit.edu	37	chr20	2378638	2378638	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaaaacaacccagccacCgacgtgtcctgccgccacaa	13	3	6	19	3	0	0	0	0	0	0	1	1	1	0	7	0	4	0	7	0	4	0	rs111415879		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:2378638C>T	uc002wfy.1	+	5	679	c.618C>T	c.(616-618)ACC>ACT	p.T206T	TGM6_uc010gal.1_Silent_p.T206T	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	206					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	ACCCAGCCACCGACGTGTCCT	0.582													13	70					0	0	1	0	0		T	2378638	T	T	2378638	2	4	49	1	0	0	0	0	0	0	0	1	15859	639	23	1		1	TGM6	20	2378638	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	57452	2378638	60646882	1421	38101											
GNRH2	2797	broad.mit.edu	37	chr20	3025167	3025167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtaccctggaggaaagcGagccctcagctcagcccagg	9	5	13	14	1	2	0	2	0	0	0	2	3	2	2	3	4	5	2	3	4	2	1	rs61729221		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:3025167G>A	uc002whr.1	+	2	158	c.107G>A	c.(106-108)CGA>CAA	p.R36Q	GNRH2_uc002whp.1_Missense_Mutation_p.R36Q|GNRH2_uc002whq.1_Missense_Mutation_p.R36Q|GNRH2_uc010gau.1_Missense_Mutation_p.R36Q|MRPS26_uc002whs.2_5'Flank	NM_001501	NP_001492	O43555	GON2_HUMAN	gonadotropin-releasing hormone 2 isoform a	36					multicellular organismal development|signal transduction	extracellular region|soluble fraction	hormone activity				0						GGAGGAAAGCGAGCCCTCAGC	0.657													4	26					0	0	1	0	0		A	3025167	A	A	3025167	3	1	49	1	0	0	0	0	1	0	0	0	6563	1058	37	1	109	1	GNRH2	20	3025167	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	646529	3025167	60000353	1422	38102											
FASTKD5	60493	broad.mit.edu	37	chr20	3128087	3128087	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgctaaataccacagcaAttcagacccctcttgctgaa	12	10	5	14	0	3	2	1	1	2	1	3	2	3	2	3	0	4	3	3	0	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:3128087A>G	uc002whz.2	-	2	1941	c.1630T>C	c.(1630-1632)TTG>CTG	p.L544L	uc002whv.1_Intron|UBOX5_uc002whw.2_Intron|UBOX5_uc002whx.2_Intron|UBOX5_uc002why.1_Intron	NM_021826	NP_068598	Q7L8L6	FAKD5_HUMAN	FAST kinase domains 5	544					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity				0						TACCACAGCAATTCAGACCCC	0.453													3	46					0	0	1	0	0		G	3128087	G	G	3128087	2	3	49	1	0	0	0	0	0	0	0	1	5702	98	4	3		3	FASTKD5	20	3128087	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	102920	3128087	59897433	1423	38103											
ADAM33	80332	broad.mit.edu	37	chr20	3653476	3653476	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattggagaggcaagcgccGccccccttgcggaagaaggc	9	4	15	13	3	0	2	0	0	0	2	0	4	0	3	4	4	2	2	4	4	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:3653476G>A	uc002wit.2	-	12	1290	c.1203C>T	c.(1201-1203)GGC>GGT	p.G401G	ADAM33_uc002wiq.1_5'Flank|ADAM33_uc002wir.1_Silent_p.G401G|ADAM33_uc002wis.2_5'UTR|ADAM33_uc002wiu.2_Silent_p.G401G|uc002wiv.1_5'Flank|ADAM33_uc002wiw.1_Intron|ADAM33_uc010gba.1_Intron|ADAM33_uc010gbb.1_Intron|ADAM33_uc002wix.1_Intron|ADAM33_uc010zqg.1_3'UTR|ADAM33_uc010zqh.1_3'UTR	NM_025220	NP_079496	Q9BZ11	ADA33_HUMAN	ADAM metallopeptidase domain 33 isoform alpha	401	Extracellular (Potential).|Peptidase M12B.				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|ovary(1)|skin(1)	4						GGCAAGCGCCGCCCCCCTTGC	0.731													9	10					0	0	1	0	0		A	3653476	A	A	3653476	2	1	49	1	0	0	0	0	0	0	0	1	250	1074	38	1		1	ADAM33	20	3653476	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	525389	3653476	59372044	1424	38104											
SIGLEC1	6614	broad.mit.edu	37	chr20	3669223	3669223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggtcagcccaggggtgggGcacaggttgaggtctcacat	7	8	16	10	0	2	1	2	1	1	0	3	1	2	1	1	7	1	2	1	7	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:3669223G>A	uc002wja.2	-	21	5114	c.5114C>T	c.(5113-5115)GCC>GTC	p.A1705V	SIGLEC1_uc002wjb.1_3'UTR|SIGLEC1_uc002wiz.3_Missense_Mutation_p.P1681S	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1705	Cytoplasmic (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						CAGGGGTGGGGCACAGGTTGA	0.587													3	12					0	0	1	0	0		A	3669223	A	A	3669223	3	1	49	1	0	0	0	0	1	0	0	0	14330	1203	42	2	19	2	SIGLEC1	20	3669223	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	15747	3669223	59356297	1425	38105											
CDC25B	994	broad.mit.edu	37	chr20	3782662	3782662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcctcaagaggctggagcGgccccaggacagggacacgc	10	3	14	14	2	1	1	1	0	0	1	2	4	2	4	3	5	1	1	3	5	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:3782662G>A	uc002wjn.2	+	10	1791	c.1013G>A	c.(1012-1014)CGG>CAG	p.R338Q	CDC25B_uc010zqk.1_Missense_Mutation_p.R274Q|CDC25B_uc010zql.1_Missense_Mutation_p.R260Q|CDC25B_uc010zqm.1_Missense_Mutation_p.R247Q|CDC25B_uc002wjl.2_Missense_Mutation_p.R226Q|CDC25B_uc002wjm.2_Missense_Mutation_p.R226Q|CDC25B_uc002wjo.2_Missense_Mutation_p.R324Q|CDC25B_uc002wjp.2_Missense_Mutation_p.R297Q|CDC25B_uc002wjq.2_Missense_Mutation_p.R138Q|CDC25B_uc010gbc.2_5'Flank	NM_021873	NP_068659	P30305	MPIP2_HUMAN	cell division cycle 25B isoform 1	338					cell division|G2/M transition of mitotic cell cycle|mitosis|positive regulation of cell proliferation	cytosol|microtubule organizing center|nucleoplasm	protein binding|protein tyrosine phosphatase activity			lung(3)|ovary(2)	5						AGGCTGGAGCGGCCCCAGGAC	0.657													3	5					0	0	1	0	0		A	3782662	A	A	3782662	3	1	49	1	0	0	0	0	1	0	0	0	3066	1116	39	1	1051	1	CDC25B	20	3782662	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	113439	3782662	59242858	1426	38106											
BMP2	650	broad.mit.edu	37	chr20	6759451	6759451	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtaagagacaccctttgtaCgtggacttcagtgacgtggg	9	11	13	8	2	1	2	1	1	0	1	1	4	1	3	1	2	1	2	1	2	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:6759451C>T	uc002wmu.1	+	3	1691	c.906C>T	c.(904-906)TAC>TAT	p.Y302Y		NM_001200	NP_001191	P12643	BMP2_HUMAN	bone morphogenetic protein 2 preproprotein	302					BMP signaling pathway involved in heart induction|bone mineralization involved in bone maturation|cardiac cell differentiation|cardiac epithelial to mesenchymal transition|cartilage development|growth|negative regulation of cell cycle|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|pathway-restricted SMAD protein phosphorylation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cartilage development|positive regulation of endothelial cell proliferation|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of phosphatase activity|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	activin receptor activity, type II|BMP receptor binding|cytokine activity|growth factor activity|phosphatase activator activity|protein heterodimerization activity|SMAD binding|transforming growth factor beta receptor binding			ovary(1)|breast(1)	2					Simvastatin(DB00641)	ACCCTTTGTACGTGGACTTCA	0.512													30	46					0	0	1	0	0		T	6759451	T	T	6759451	2	4	49	1	0	0	0	0	0	0	0	1	1460	547	19	1		1	BMP2	20	6759451	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2976789	6759451	56266069	1427	38107											
HAO1	54363	broad.mit.edu	37	chr20	7886818	7886818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacctctcaaaatgccctttGcaacaattggcaatgatgtc	13	11	6	11	0	1	1	1	1	1	0	3	1	1	1	2	1	4	2	2	1	6	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:7886818G>A	uc002wmw.1	-	4	728	c.704C>T	c.(703-705)GCA>GTA	p.A235V	HAO1_uc010gbu.2_Missense_Mutation_p.A235V	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	235	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						AATGCCCTTTGCAACAATTGG	0.383													48	117					0	0	1	0	0		A	7886818	A	A	7886818	3	1	49	1	0	0	0	0	1	0	0	0	6967	1319	46	2	428	2	HAO1	20	7886818	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1127367	7886818	55138702	1428	38108											
KIF16B	55614	broad.mit.edu	37	chr20	16360726	16360726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgatttctgtctccttgcGctgggtctccacctcctgct	3	14	8	16	2	3	0	0	0	3	0	6	1	4	0	4	1	2	2	4	1	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:16360726G>A	uc002wpg.1	-	19	2079	c.1921C>T	c.(1921-1923)CGC>TGC	p.R641C	KIF16B_uc002wpe.1_Missense_Mutation_p.R23C|KIF16B_uc002wpf.1_Missense_Mutation_p.R23C|KIF16B_uc010gch.1_Missense_Mutation_p.R641C|KIF16B_uc010gci.1_Missense_Mutation_p.R641C|KIF16B_uc010gcj.1_Missense_Mutation_p.R652C	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	641	Glu-rich.|Potential.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						GTCTCCTTGCGCTGGGTCTCC	0.507													31	68					0	0	1	0	0		A	16360726	A	A	16360726	3	1	49	1	0	0	0	0	1	0	0	0	8294	1087	38	1	2064	1	KIF16B	20	16360726	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	8473908	16360726	46664794	1429	38109											
ZNF133	7692	broad.mit.edu	37	chr20	18295989	18295989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagaaaaggactctgggagCgttctccaggccaccccaga	12	5	11	13	1	2	2	0	0	2	2	3	4	2	4	4	3	1	1	4	3	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:18295989C>T	uc010gcq.2	+	5	799	c.494C>T	c.(493-495)GCG>GTG	p.A165V	ZNF133_uc010zrv.1_Missense_Mutation_p.A168V|ZNF133_uc010zrw.1_Missense_Mutation_p.A102V|ZNF133_uc010gcr.2_Missense_Mutation_p.A165V|ZNF133_uc010zrx.1_Missense_Mutation_p.A70V|ZNF133_uc002wql.3_Missense_Mutation_p.A164V|ZNF133_uc010gcs.2_Missense_Mutation_p.A164V|ZNF133_uc010zry.1_Missense_Mutation_p.A70V|ZNF133_uc002wqm.2_Missense_Mutation_p.A165V	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	165						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2						ACTCTGGGAGCGTTCTCCAGG	0.587													11	121					0	0	1	0	0		T	18295989	T	T	18295989	3	4	49	1	0	0	0	0	1	0	0	0	17748	768	27	1	501	1	ZNF133	20	18295989	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1935263	18295989	44729531	1430	38110											
SLC24A3	57419	broad.mit.edu	37	chr20	19496186	19496186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaggatagaagacaaggtgCggtggtcctccatgtgctct	9	9	14	9	2	1	2	0	0	1	2	3	4	3	3	2	4	2	1	2	4	3	1	rs144636987		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:19496186C>T	uc002wrl.2	+	3	523	c.326C>T	c.(325-327)GCG>GTG	p.A109V		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	109	Helical; (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						AGACAAGGTGCGGTGGTCCTC	0.542													9	144					0	0	1	0	0		T	19496186	T	T	19496186	3	4	49	1	0	0	0	0	1	0	0	0	14492	768	27	1	336	1	SLC24A3	20	19496186	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1200197	19496186	43529334	1431	38111											
DNMT3B	1789	broad.mit.edu	37	chr20	31387092	31387092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattcccgcagcccgaaggCggcccattcgagtcctgtca	7	7	10	17	4	1	0	1	0	0	0	4	2	3	0	5	2	1	1	5	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:31387092C>T	uc002wyc.2	+	16	2038	c.1717C>T	c.(1717-1719)CGG>TGG	p.R573W	DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Missense_Mutation_p.R553W|DNMT3B_uc002wye.2_Missense_Mutation_p.R553W|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.R511W|DNMT3B_uc010zua.1_Missense_Mutation_p.R477W|DNMT3B_uc002wyf.2_Missense_Mutation_p.R565W|DNMT3B_uc002wyg.2_Missense_Mutation_p.R272W|DNMT3B_uc010geg.2_5'Flank|DNMT3B_uc010geh.2_5'Flank	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	573					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						AGCCCGAAGGCGGCCCATTCG	0.582													8	31					0	0	1	0	0		T	31387092	T	T	31387092	3	4	49	1	0	0	0	0	1	0	0	0	4683	759	27	1	1815	1	DNMT3B	20	31387092	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	11890906	31387092	31638428	1432	38112											
ZNF341	84905	broad.mit.edu	37	chr20	32341075	32341075	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaccgccaccacctcagcCtccaccacctccaccccaga	9	3	3	26	1	1	1	1	0	0	1	3	1	3	1	12	0	1	0	12	0	0	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:32341075C>A	uc002wzy.2	+	5	607	c.587C>A	c.(586-588)CCT>CAT	p.P196H	ZNF341_uc002wzx.2_Missense_Mutation_p.P196H|ZNF341_uc010geq.2_Missense_Mutation_p.P106H|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	196					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ccacctcagcctccaccacct	0.438													4	13					0.014758	0.0149413	1	1	0		A	32341075	A	A	32341075	3	1	49	1	0	0	0	0	1	0	0	0	17882	681	24	5	605	5	ZNF341	20	32341075	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	953983	32341075	30684445	1433	38113											
CEP250	11190	broad.mit.edu	37	chr20	34055233	34055233	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcgggaacccaacggatCtggaagaatggatgggcggg	10	6	17	8	3	2	1	0	0	2	1	3	5	2	5	1	6	2	0	1	6	4	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:34055233C>A	uc002xcm.2	+	10	1375	c.704C>A	c.(703-705)TCT>TAT	p.S235Y	CEP250_uc010zve.1_Translation_Start_Site|CEP250_uc010zvd.1_RNA|CEP250_uc002xco.2_Missense_Mutation_p.S42Y	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	235					centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			CCCAACGGATCTGGAAGAATG	0.562													15	121					4.7546e-09	5.08107e-09	1	1	0		A	34055233	A	A	34055233	3	1	49	1	0	0	0	0	1	0	0	0	3255	913	32	5	726	5	CEP250	20	34055233	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1714158	34055233	28970287	1434	38114											
RBM39	9584	broad.mit.edu	37	chr20	34312604	34312604	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cataagcaattcctttggaaCgtcttgaatttctgtcagaa	12	14	7	8	1	3	2	1	1	2	1	4	3	4	3	1	1	2	1	1	1	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:34312604C>A	uc002xeb.2	-	8	919	c.575G>T	c.(574-576)CGT>CTT	p.R192L	RBM39_uc002xdz.2_Missense_Mutation_p.R168L|RBM39_uc002xea.2_Missense_Mutation_p.R35L|RBM39_uc010gfn.2_Missense_Mutation_p.R35L|RBM39_uc010zvm.1_Missense_Mutation_p.R170L|RBM39_uc002xeg.2_Missense_Mutation_p.R170L|RBM39_uc002xec.2_Missense_Mutation_p.R192L|RBM39_uc002xed.2_5'UTR|RBM39_uc002xee.2_Missense_Mutation_p.R35L|RBM39_uc002xef.2_Missense_Mutation_p.R35L|RBM39_uc010zvn.1_Missense_Mutation_p.R35L	NM_184234	NP_909122	Q14498	RBM39_HUMAN	RNA binding motif protein 39 isoform a	192	RRM 1.				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	centrosome|nuclear speck	nucleotide binding|protein binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_epithelial(2;0.00295)|Lung NSC(9;0.00453)|Breast(12;0.00544)|all_lung(11;0.00676)					TCCTTTGGAACGTCTTGAATT	0.398													6	100					0.000157383	0.000163001	1	1	0		A	34312604	A	A	34312604	3	1	49	1	0	0	0	0	1	0	0	0	13158	536	19	5	1057	5	RBM39	20	34312604	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	257371	34312604	28712916	1435	38115											
C20orf132	140699	broad.mit.edu	37	chr20	35749348	35749348	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggccatcttttcctcccaGgagagcccatcctttattct	7	14	6	14	0	2	1	0	0	2	1	5	2	5	1	5	2	1	0	5	2	1	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:35749348G>T	uc010zvu.1	-	18	2189	c.2098C>A	c.(2098-2100)CTG>ATG	p.L700M	C20orf132_uc002xgk.2_Missense_Mutation_p.L322M	NM_152503	NP_689716	Q9H579	CT132_HUMAN	hypothetical protein LOC140699 isoform 1	Error:Variant_position_missing_in_Q9H579_after_alignment											0		Myeloproliferative disorder(115;0.00878)				TTTCCTCCCAGGAGAGCCCAT	0.453													5	42					0.00198382	0.00202401	1	1	0		T	35749348	T	T	35749348	3	4	49	1	0	0	0	0	1	0	0	0	2089	991	35	5	1096	5	C20orf132	20	35749348	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1436744	35749348	27276172	1436	38116											
PLCG1	5335	broad.mit.edu	37	chr20	39791298	39791298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggacctggagcagcgcaGcggggacatcacctacgggc	9	3	16	13	3	1	0	1	0	0	0	1	3	1	3	2	5	4	3	2	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:39791298G>A	uc002xjp.1	+	6	735	c.614G>A	c.(613-615)AGC>AAC	p.S205N	PLCG1_uc002xjo.1_Missense_Mutation_p.S205N|PLCG1_uc010zwe.1_5'Flank	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	205					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				GAGCAGCGCAGCGGGGACATC	0.632													4	50					0	0	1	0	0		A	39791298	A	A	39791298	3	1	49	1	0	0	0	0	1	0	0	0	12054	971	34	2	636	2	PLCG1	20	39791298	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4041950	39791298	23234222	1437	38117											
CHD6	84181	broad.mit.edu	37	chr20	40081533	40081533	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtcttcctcaaacgagttgTagtgtttggtctgctttctc	5	17	9	10	2	4	0	1	0	3	0	6	1	5	0	1	1	2	4	1	1	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:40081533T>C	uc002xka.1	-	21	3348	c.3170A>G	c.(3169-3171)TAC>TGC	p.Y1057C		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1057					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				AAACGAGTTGTAGTGTTTGGT	0.498													4	54					0	0	1	0	0		C	40081533	C	C	40081533	3	2	49	1	0	0	0	0	1	0	0	0	3332	1638	57	3	5045	3	CHD6	20	40081533	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	290235	40081533	22943987	1438	38118											
TTPAL	79183	broad.mit.edu	37	chr20	43115284	43115284	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccatgtggtgaatgaacctCgaatatttaaaggcattttt	12	15	8	6	1	0	2	0	2	0	0	2	3	1	2	2	2	1	1	2	2	6	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:43115284C>T	uc002xmc.1	+	5	812	c.688C>T	c.(688-690)CGA>TGA	p.R230*	TTPAL_uc002xmd.1_Nonsense_Mutation_p.R230*|TTPAL_uc010ggr.1_Nonsense_Mutation_p.R43*	NM_024331	NP_077307	Q9BTX7	TTPAL_HUMAN	tocopherol (alpha) transfer protein-like	230	CRAL-TRIO.					intracellular	transporter activity			breast(1)	1						GAATGAACCTCGAATATTTAA	0.388													4	75					0	0	1	0	0		T	43115284	T	T	43115284	4	4	49	1	0	0	0	0	0	1	0	0	16763	876	31	1	698	1	TTPAL	20	43115284	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3033751	43115284	19910236	1439	38119											
SERINC3	10955	broad.mit.edu	37	chr20	43141456	43141456	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatacccattgtgtactgcCgctcggagatctttacttgt	8	14	8	11	2	1	1	0	0	1	1	2	2	1	1	2	1	4	2	2	1	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:43141456C>T	uc002xme.2	-	3	515	c.381G>A	c.(379-381)GCG>GCA	p.A127A	SERINC3_uc002xmf.1_Silent_p.A127A|SERINC3_uc010ggs.1_Silent_p.A120A|SERINC3_uc010zwp.1_Silent_p.A72A	NM_198941	NP_945179	Q13530	SERC3_HUMAN	tumor differentially expressed protein 1	127	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding			skin(3)	3		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.000291)|COAD - Colon adenocarcinoma(18;0.00189)			TGTGTACTGCCGCTCGGAGAT	0.388													7	34					0	0	1	0	0		T	43141456	T	T	43141456	2	4	49	1	0	0	0	0	0	0	0	1	14106	639	23	1		1	SERINC3	20	43141456	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	26172	43141456	19884064	1440	38120											
PKIG	11142	broad.mit.edu	37	chr20	43243338	43243338	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacatgggcgagctggcactCgagggggcaggttagagcca	9	5	18	9	2	0	1	0	0	0	1	1	4	0	1	1	5	2	4	1	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:43243338C>T	uc002xmg.2	+	5	670	c.141C>T	c.(139-141)CTC>CTT	p.L47L	PKIG_uc002xmh.2_Silent_p.L47L|PKIG_uc002xmi.2_Silent_p.L47L	NM_181805	NP_861521	Q9Y2B9	IPKG_HUMAN	cAMP-dependent protein kinase inhibitor gamma	47							cAMP-dependent protein kinase inhibitor activity|protein binding				0		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.001)|COAD - Colon adenocarcinoma(18;0.00189)			AGCTGGCACTCGAGGGGGCAG	0.647													15	32					0	0	1	0	0		T	43243338	T	T	43243338	2	4	49	1	0	0	0	0	0	0	0	1	11994	871	31	1		1	PKIG	20	43243338	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	101882	43243338	19782182	1441	38121											
ADA	100	broad.mit.edu	37	chr20	43249692	43249692	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcttcagtaaagcccatGtcccgtttggtcatctggta	7	14	8	12	1	4	0	2	0	2	0	6	0	6	0	3	2	1	3	3	2	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:43249692G>A	uc002xmj.2	-	10	1070	c.942C>T	c.(940-942)GAC>GAT	p.D314D	ADA_uc010ggt.2_RNA	NM_000022	NP_000013	P00813	ADA_HUMAN	adenosine deaminase	314					adenosine catabolic process|cell adhesion|hypoxanthine salvage|inosine biosynthetic process|negative regulation of adenosine receptor signaling pathway|purine nucleotide salvage|purine ribonucleoside monophosphate biosynthetic process|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation	cell junction|cytoplasmic membrane-bounded vesicle lumen|cytosol|external side of plasma membrane|lysosome	adenosine deaminase activity|protein binding|zinc ion binding			pancreas(2)|ovary(1)	3		all_lung(126;1.24e-07)|Lung NSC(126;1.94e-07)|Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)		Adenosine(DB00640)|Cladribine(DB00242)|Dipyridamole(DB00975)|Erythromycin(DB00199)|Fludarabine(DB01073)|Idoxuridine(DB00249)|Nelarabine(DB01280)|Pentostatin(DB00552)|Theophylline(DB00277)|Vidarabine(DB00194)	TAAAGCCCATGTCCCGTTTGG	0.512									Adenosine_Deaminase_Deficiency				10	108					0	0	1	0	0		A	43249692	A	A	43249692	2	1	49	1	0	0	0	0	0	0	0	1	230	1368	48	4		4	ADA	20	43249692	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	6354	43249692	19775828	1442	38122											
WISP2	8839	broad.mit.edu	37	chr20	43353454	43353454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccttccagccccactgcaGcatccgctgccgctgcgagg	6	6	11	18	3	0	0	0	0	0	0	2	2	2	0	6	1	5	4	6	1	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:43353454G>A	uc002xmn.2	+	4	706	c.353G>A	c.(352-354)AGC>AAC	p.S118N	uc002xml.1_Intron|uc002xmm.1_Intron|WISP2_uc002xmp.2_Missense_Mutation_p.S118N|WISP2_uc002xmq.2_Intron	NM_003881	NP_003872	O76076	WISP2_HUMAN	WNT1 inducible signaling pathway protein 2	118	VWFC.				cell adhesion|cell-cell signaling|signal transduction	extracellular region|soluble fraction	insulin-like growth factor binding			skin(1)	1		Myeloproliferative disorder(115;0.0122)				CCCCACTGCAGCATCCGCTGC	0.687													3	21					0	0	1	0	0		A	43353454	A	A	43353454	3	1	49	1	0	0	0	0	1	0	0	0	17399	971	34	2	363	2	WISP2	20	43353454	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	103762	43353454	19672066	1443	38123											
MATN4	8785	broad.mit.edu	37	chr20	43926908	43926908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgttaagggcacggggcCgtgcaccctgcgcctcggag	6	5	16	14	5	0	0	0	0	0	0	1	1	0	1	3	4	2	4	3	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:43926908C>T	uc002xnn.2	-	7	1515	c.1328G>A	c.(1327-1329)CGG>CAG	p.R443Q	MATN4_uc002xno.2_Missense_Mutation_p.R402Q|MATN4_uc002xnp.2_Missense_Mutation_p.R361Q|MATN4_uc010zwr.1_Missense_Mutation_p.R391Q|MATN4_uc002xnr.1_Missense_Mutation_p.R443Q	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	484	VWFA 2.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				GGCACGGGGCCGTGCACCCTG	0.667													6	71					0	0	1	0	0		T	43926908	T	T	43926908	3	4	49	1	0	0	0	0	1	0	0	0	9354	652	23	1	433	1	MATN4	20	43926908	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	573454	43926908	19098612	1444	38124											
SLC9A8	23315	broad.mit.edu	37	chr20	48431697	48431697	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggagcagtccagcggcaTgaccattttcttcagcctcc	9	9	10	13	1	2	2	1	1	1	1	4	3	4	3	4	2	3	2	4	2	0	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:48431697T>C	uc002xuv.1	+	2	389	c.179T>C	c.(178-180)ATG>ACG	p.M60T	SLC9A8_uc010zym.1_5'UTR|SLC9A8_uc010zyj.1_Missense_Mutation_p.M60T|SLC9A8_uc010zyk.1_Missense_Mutation_p.M60T|SLC9A8_uc010zyl.1_Missense_Mutation_p.M60T|SLC9A8_uc010gib.1_Missense_Mutation_p.M60T	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	60	Helical; (Potential).					Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			TCCAGCGGCATGACCATTTTC	0.582													12	108					0	0	1	0	0		C	48431697	C	C	48431697	3	2	49	1	0	0	0	0	1	0	0	0	14745	1464	51	3	185	3	SLC9A8	20	48431697	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	4504789	48431697	14593823	1445	38125											
CYP24A1	1591	broad.mit.edu	37	chr20	52789528	52789528	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagccgctgcgggtacgcGctctcggtgcggtacagcgc	4	7	15	15	7	1	0	0	0	1	0	3	0	2	0	2	3	6	4	2	3	2	2	rs114334215	by1000genomes	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:52789528G>A	uc002xwv.2	-	2	767	c.369C>T	c.(367-369)AGC>AGT	p.S123S	CYP24A1_uc002xwu.1_5'Flank|CYP24A1_uc002xww.2_Silent_p.S123S	NM_000782	NP_000773	Q07973	CP24A_HUMAN	cytochrome P450 family 24 subfamily A	123					hormone biosynthetic process|osteoblast differentiation|vitamin D catabolic process|vitamin D receptor signaling pathway|xenobiotic metabolic process	mitochondrial inner membrane	1-alpha,25-dihydroxyvitamin D3 24-hydroxylase activity|electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		STAD - Stomach adenocarcinoma(23;0.206)		Calcidiol(DB00146)|Calcitriol(DB00136)|Cholecalciferol(DB00169)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	GCGGGTACGCGCTCTCGGTGC	0.587													9	85					0	0	1	0	0		A	52789528	A	A	52789528	2	1	49	1	0	0	0	0	0	0	0	1	4157	1078	38	1		1	CYP24A1	20	52789528	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4357831	52789528	10235992	1446	38126											
ZBP1	81030	broad.mit.edu	37	chr20	56191408	56191408	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcaactcctttttcattcGgtagaggacttggttgagct	7	17	9	8	1	2	2	2	1	0	1	4	3	3	3	1	3	2	3	1	3	2	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:56191408G>A	uc002xyo.2	-	2	432	c.151C>T	c.(151-153)CGA>TGA	p.R51*	ZBP1_uc010gjm.2_Nonsense_Mutation_p.R51*|ZBP1_uc002xyp.2_Intron|ZBP1_uc010zzn.1_Nonsense_Mutation_p.R51*	NM_030776	NP_110403	Q9H171	ZBP1_HUMAN	Z-DNA binding protein 1 isoform a	51	DRADA 1.					cytoplasm|nucleus	double-stranded RNA adenosine deaminase activity|left-handed Z-DNA binding|RNA binding			ovary(2)	2	Lung NSC(12;0.000545)|all_lung(29;0.00195)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;7.87e-13)|Epithelial(14;3.26e-09)|all cancers(14;3.62e-08)			TTTTTCATTCGGTAGAGGACT	0.582													10	108					0	0	1	0	0		A	56191408	A	A	56191408	4	1	49	1	0	0	0	0	0	1	0	0	17546	1124	39	1	1243	1	ZBP1	20	56191408	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3401880	56191408	6834112	1447	38127											
RAB22A	57403	broad.mit.edu	37	chr20	56918855	56918855	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatacagctggacaagaacgAgtaagtcactctttaattta	15	11	8	7	1	2	1	1	0	1	1	2	4	2	2	0	1	3	2	0	1	6	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:56918855A>G	uc002xyz.2	+	3	460	c.198A>G	c.(196-198)CGA>CGG	p.R66R		NM_020673	NP_065724	Q9UL26	RB22A_HUMAN	RAS-related protein RAB-22A	66					endocytosis|endosome organization|protein transport|small GTPase mediated signal transduction	early endosome|endosome membrane|plasma membrane	GTP binding|GTPase activity|protein binding				0	all_epithelial(3;5.09e-14)|Lung NSC(12;0.000122)|all_lung(29;0.00042)		BRCA - Breast invasive adenocarcinoma(13;6.2e-12)|Epithelial(14;4.73e-08)|all cancers(14;4.83e-07)			GACAAGAACGAGTAAGTCACT	0.398													4	19					0	0	1	0	0		G	56918855	G	G	56918855	2	3	49	1	0	0	0	0	0	0	0	1	12934	318	11	3		3	RAB22A	20	56918855	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	727447	56918855	6106665	1448	38128											
GNAS	2778	broad.mit.edu	37	chr20	57484420	57484420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggacctgcttcgctgcCgtgtcctgacttctggaatc	5	13	10	13	2	2	1	1	1	1	0	5	3	3	3	3	2	2	2	3	2	1	3	rs11554273		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:57484420C>T	uc002xzw.2	+	8	2815	c.2530C>T	c.(2530-2532)CGT>TGT	p.R844C	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Missense_Mutation_p.R142C|GNAS_uc002xzx.2_Missense_Mutation_p.R142C|GNAS_uc010gjr.2_Missense_Mutation_p.R92C|GNAS_uc002xzy.2_Missense_Mutation_p.R127C|GNAS_uc002yaa.2_Missense_Mutation_p.R187C|GNAS_uc010zzt.1_Missense_Mutation_p.R202C|GNAS_uc002yab.2_Intron|GNAS_uc002yad.2_Missense_Mutation_p.R92C|GNAS_uc002yae.2_Missense_Mutation_p.R126C	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	201	GTP (By similarity).		R -> L (in non-MAS endocrine tumors).|R -> S (in AIMAH, pituitary tumor and polyostotic fibrous dysplasia).|R -> H (in MAS, somatotrophinoma and AIMAH).|R -> G (in MAS).		activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity	p.R201C(182)|p.R201S(5)		pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			GCTTCGCTGCCGTGTCCTGAC	0.428			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			6	44					0	0	1	0	0		T	57484420	T	T	57484420	3	4	49	1	0	0	0	0	1	0	0	0	6525	652	23	1	3448	1	GNAS	20	57484420	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	565565	57484420	5541100	1449	38129											
LAMA5	3911	broad.mit.edu	37	chr20	60902996	60902996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtgacagtcacaggggcGgcagcgggggtagccatgga	8	5	18	10	3	1	1	1	1	0	0	2	2	1	2	1	6	2	2	1	6	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:60902996G>A	uc002ycq.2	-	36	4790	c.4723C>T	c.(4723-4725)CGC>TGC	p.R1575C		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	1575	Laminin EGF-like 14.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCACAGGGGCGGCAGCGGGGG	0.682													18	50					0	0	1	0	0		A	60902996	A	A	60902996	3	1	49	1	0	0	0	0	1	0	0	0	8625	1116	39	1	6544	1	LAMA5	20	60902996	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3418576	60902996	2122524	1450	38130											
ARFGAP1	55738	broad.mit.edu	37	chr20	61908657	61908657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgccgtccatggtgcaccGgtagctgctcctcgtggggc	3	9	15	14	3	0	0	0	0	0	0	3	0	2	0	4	4	4	5	4	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:61908657G>A	uc002yem.2	+	5	555	c.443G>A	c.(442-444)CGA>CAA	p.R148Q	ARFGAP1_uc011aas.1_Missense_Mutation_p.R95Q|ARFGAP1_uc011aat.1_Intron|ARFGAP1_uc002yel.2_Missense_Mutation_p.R148Q|ARFGAP1_uc002yen.2_Missense_Mutation_p.R148Q	NM_018209	NP_060679	Q8N6T3	ARFG1_HUMAN	ADP-ribosylation factor GTPase activating	148					COPI coating of Golgi vesicle|protein transport|regulation of ARF GTPase activity|retrograde vesicle-mediated transport, Golgi to ER	cytosol|Golgi-associated vesicle membrane	ARF GTPase activator activity|zinc ion binding			pancreas(1)	1	all_cancers(38;1.59e-09)					ATGGTGCACCGGTAGCTGCTC	0.577													8	14					0	0	1	0	0		A	61908657	A	A	61908657	3	1	49	1	0	0	0	0	1	0	0	0	849	1130	39	1	457	1	ARFGAP1	20	61908657	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1005661	61908657	1116863	1451	38131											
COL20A1	57642	broad.mit.edu	37	chr20	61938964	61938964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttcctggccagtgtcatcGcaccctttgaaatcgggccg	7	10	10	14	3	1	1	1	1	0	0	4	1	2	1	4	2	0	1	4	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:61938964G>A	uc011aau.1	+	6	719	c.619G>A	c.(619-621)GCA>ACA	p.A207T	COL20A1_uc011aav.1_Missense_Mutation_p.A28T	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	207	VWFA.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CAGTGTCATCGCACCCTTTGA	0.652													5	55					0	0	1	0	0		A	61938964	A	A	61938964	3	1	49	1	0	0	0	0	1	0	0	0	3682	1087	38	1	637	1	COL20A1	20	61938964	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	30307	61938964	1086556	1452	38132											
COL20A1	57642	broad.mit.edu	37	chr20	61944569	61944569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactacagggacggggcccGcagtgaccctgtgtccctcc	6	7	12	16	2	0	1	0	1	0	0	2	2	2	2	4	3	2	1	4	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:61944569G>A	uc011aau.1	+	17	2277	c.2177G>A	c.(2176-2178)CGC>CAC	p.R726H	COL20A1_uc011aav.1_Missense_Mutation_p.R547H	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	726	Fibronectin type-III 5.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					GACGGGGCCCGCAGTGACCCT	0.657													10	36					0	0	1	0	0		A	61944569	A	A	61944569	3	1	49	1	0	0	0	0	1	0	0	0	3682	1087	38	1	2239	1	COL20A1	20	61944569	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5605	61944569	1080951	1453	38133											
KCNQ2	3785	broad.mit.edu	37	chr20	62046276	62046276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgagttctgccgtgacGcggcacccttgatgcggaaa	7	10	12	12	4	2	3	0	3	2	0	2	4	2	4	2	2	2	2	2	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:62046276G>A	uc002yey.1	-	13	1682	c.1505C>T	c.(1504-1506)GCG>GTG	p.A502V	KCNQ2_uc002yez.1_Missense_Mutation_p.A472V|KCNQ2_uc002yfa.1_Missense_Mutation_p.A484V|KCNQ2_uc002yfb.1_Missense_Mutation_p.A474V	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	502	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	CTGCCGTGACGCGGCACCCTT	0.672													40	82					0	0	1	0	0		A	62046276	A	A	62046276	3	1	49	1	0	0	0	0	1	0	0	0	8099	1087	38	1	1133	1	KCNQ2	20	62046276	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	101707	62046276	979244	1454	38134											
EEF1A2	1917	broad.mit.edu	37	chr20	62126389	62126389	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgctcccgcgtctgcccAttcttggagatgcccgcctc	4	10	10	17	3	2	1	0	0	2	1	4	2	3	1	4	1	3	2	4	1	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:62126389A>G	uc002yfd.1	-	3	491	c.390T>C	c.(388-390)AAT>AAC	p.N130N	EEF1A2_uc002yfe.1_Silent_p.N130N|EEF1A2_uc010gkg.1_Silent_p.N130N	NM_001958	NP_001949	Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha	130						nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			GCGTCTGCCCATTCTTGGAGA	0.677													5	136					0	0	1	0	0		G	62126389	G	G	62126389	2	3	49	1	0	0	0	0	0	0	0	1	4930	214	8	3		3	EEF1A2	20	62126389	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	80113	62126389	899131	1455	38135											
PRIC285	85441	broad.mit.edu	37	chr20	62198376	62198376	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacgtggcagaacatgagcgGgtagtgccgggggtggggcg	7	5	21	8	4	0	2	0	1	0	1	0	2	0	2	1	6	3	2	1	6	2	1	rs138788557		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:62198376G>T	uc002yfm.2	-	7	3227	c.2335C>A	c.(2335-2337)CCG>ACG	p.P779T	PRIC285_uc002yfl.1_Missense_Mutation_p.P210T	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	779					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			AACATGAGCGGGTAGTGCCGG	0.647													30	71					2.65835e-16	2.90063e-16	1	1	0		T	62198376	T	T	62198376	3	4	49	1	0	0	0	0	1	0	0	0	12507	1232	43	5	5670	5	PRIC285	20	62198376	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	71987	62198376	827144	1456	38136											
ZBTB46	140685	broad.mit.edu	37	chr20	62421541	62421541	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtagctgctccctccgtcGtgacagctggcgatggccga	5	8	13	15	5	0	1	0	1	0	0	3	3	2	1	4	2	3	4	4	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:62421541G>A	uc002ygv.1	-	2	771	c.570C>T	c.(568-570)CAC>CAT	p.H190H	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	190					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					TCCCTCCGTCGTGACAGCTGG	0.622													13	17					0	0	1	0	0		A	62421541	A	A	62421541	2	1	49	1	0	0	0	0	0	0	0	1	17572	1136	40	1		1	ZBTB46	20	62421541	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	223165	62421541	603979	1457	38137											
NPBWR2	2832	broad.mit.edu	37	chr20	62737451	62737451	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagagccttggctccagagCggagccgcacggcccgcagc	7	4	14	16	4	0	2	0	0	0	2	1	3	1	3	4	3	4	3	4	3	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr20:62737451C>T	uc011abt.1	-	1	734	c.734G>A	c.(733-735)CGC>CAC	p.R245H		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	245	Cytoplasmic (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					GGCTCCAGAGCGGAGCCGCAC	0.667													4	9					0	0	1	0	0		T	62737451	T	T	62737451	3	4	49	1	0	0	0	0	1	0	0	0	10588	768	27	1	270	1	NPBWR2	20	62737451	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	315910	62737451	288069	1458	38138											
TMPRSS15	5651	broad.mit.edu	37	chr21	19653413	19653413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatgtcgttgtcctttcttCgcctattgtaatgagggttt	6	18	9	8	2	1	1	0	1	1	0	4	1	2	1	2	1	0	3	2	1	3	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:19653413C>T	uc002ykw.2	-	22	2643	c.2612G>A	c.(2611-2613)CGA>CAA	p.R871Q		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	871	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						GTCCTTTCTTCGCCTATTGTA	0.363													17	166					0	0	1	0	0		T	19653413	T	T	19653413	3	4	49	1	0	0	0	0	1	0	0	0	16271	884	31	1	463	1	TMPRSS15	21	19653413	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08		19653413	28476482	1459	38139											
ADAMTS1	9510	broad.mit.edu	37	chr21	28210023	28210023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caagcttctttttttgtaacCcttcccacaggtcttagaac	9	15	5	12	0	2	1	0	0	2	1	3	1	3	1	2	1	3	2	2	1	4	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:28210023C>T	uc002ymf.2	-	9	3234	c.2779G>A	c.(2779-2781)GGT>AGT	p.G927S		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	927	TSP type-1 3.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		TTTTTGTAACCCTTCCCACAG	0.483													6	92					0	0	1	0	0		T	28210023	T	T	28210023	3	4	49	1	0	0	0	0	1	0	0	0	255	623	22	4	128	4	ADAMTS1	21	28210023	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	8556610	28210023	19919872	1460	38140											
RNF160	26046	broad.mit.edu	37	chr21	30359239	30359239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcaaggagttctgcagctCggccactgtttgaaggctga	8	10	14	9	1	1	2	0	2	1	0	2	3	1	3	1	4	2	6	1	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:30359239C>T	uc002ymr.2	-	2	210	c.197G>A	c.(196-198)CGA>CAA	p.R66Q	RNF160_uc010gll.1_RNA	NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	20							ligase activity|zinc ion binding				0						TTCTGCAGCTCGGCCACTGTT	0.433													14	36					0	0	1	0	0		T	30359239	T	T	30359239	3	4	49	1	0	0	0	0	1	0	0	0	13480	884	31	1	5357	1	RNF160	21	30359239	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2149216	30359239	17770656	1461	38141											
KRTAP24-1	643803	broad.mit.edu	37	chr21	31654858	31654858	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcatttcgagtgggtatgtgGcaattgcatacatacccatt	10	13	10	8	1	0	0	0	0	0	0	1	1	0	0	1	2	3	4	1	2	4	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:31654858G>A	uc002ynv.2	-	1	419	c.393C>T	c.(391-393)TGC>TGT	p.C131C		NM_001085455	NP_001078924	Q3LI83	KR241_HUMAN	keratin associated protein 24-1	131						keratin filament	structural molecule activity				0						TGGGTATGTGGCAATTGCATA	0.363													7	83					0	0	1	0	0		A	31654858	A	A	31654858	2	1	49	1	0	0	0	0	0	0	0	1	8558	1195	42	2		2	KRTAP24-1	21	31654858	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1295619	31654858	16475037	1462	38142											
KRTAP19-6	337973	broad.mit.edu	37	chr21	31914005	31914005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagagaatccatatccttCacggcatgatgggcggcagc	10	8	11	12	2	1	2	1	1	0	1	4	3	4	2	3	3	1	2	3	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:31914005C>T	uc002yok.1	-	1	177	c.148G>A	c.(148-150)GAA>AAA	p.E50K		NM_181612	NP_853643	Q3LI70	KR196_HUMAN	keratin associated protein 19-6	50						intermediate filament					0						CCATATCCTTCACGGCATGAT	0.488													9	183					0	0	1	0	0		T	31914005	T	T	31914005	3	4	49	1	0	0	0	0	1	0	0	0	8549	835	29	4	32	4	KRTAP19-6	21	31914005	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	259147	31914005	16215890	1463	38143											
TIAM1	7074	broad.mit.edu	37	chr21	32639198	32639198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcgtcttgtgcgagaggcGcagggagcgggaagtgtgct	6	7	19	9	5	1	1	0	0	1	1	1	4	1	3	1	3	3	2	1	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:32639198G>A	uc002yow.1	-	5	563	c.91C>T	c.(91-93)CGC>TGC	p.R31C	TIAM1_uc011adk.1_Missense_Mutation_p.R31C|TIAM1_uc011adl.1_Missense_Mutation_p.R31C|TIAM1_uc002yox.1_Intron	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	31					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TGCGAGAGGCGCAGGGAGCGG	0.582													4	29					0	0	1	0	0		A	32639198	A	A	32639198	3	1	49	1	0	0	0	0	1	0	0	0	15915	1087	38	1	4784	1	TIAM1	21	32639198	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	725193	32639198	15490697	1464	38144											
C21orf59	56683	broad.mit.edu	37	chr21	33982197	33982197	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttaaacactgcacctccGctgggtacgcatttttcacc	8	14	6	13	2	1	0	1	0	0	0	2	0	2	0	3	1	3	4	3	1	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:33982197G>A	uc002yqc.2	-	2	371	c.258C>T	c.(256-258)AGC>AGT	p.S86S	C21orf59_uc002ypx.1_5'Flank|C21orf59_uc002ypy.1_Silent_p.S86S|C21orf59_uc002ypz.1_Silent_p.S86S|C21orf59_uc010glx.2_Missense_Mutation_p.A10V|C21orf59_uc002yqd.2_Silent_p.S86S|C21orf59_uc002yqb.3_Silent_p.S86S|C21orf59_uc011adr.1_Intron	NM_021254	NP_067077	P57076	CU059_HUMAN	hypothetical protein LOC56683	86						cytosol|nucleus					0						CTGCACCTCCGCTGGGTACGC	0.418													19	36					0	0	1	0	0		A	33982197	A	A	33982197	2	1	49	1	0	0	0	0	0	0	0	1	2133	1078	38	1		1	C21orf59	21	33982197	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1342999	33982197	14147698	1465	38145											
DONSON	29980	broad.mit.edu	37	chr21	34950737	34950737	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccacagttagtaagctccTtatgaacaacctcctgtgga	13	10	7	11	0	0	1	0	1	0	0	2	2	2	2	4	1	4	3	4	1	6	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:34950737T>C	uc002ysk.2	-	10	1644	c.1577A>G	c.(1576-1578)AAG>AGG	p.K526R	DONSON_uc002ysi.1_Missense_Mutation_p.K286R|DONSON_uc002ysj.2_Missense_Mutation_p.K159R|DONSON_uc002ysl.2_Missense_Mutation_p.K159R|DONSON_uc010gme.2_Missense_Mutation_p.K499R|DONSON_uc002ysm.2_Missense_Mutation_p.K526R	NM_017613	NP_060083	Q9NYP3	DONS_HUMAN	downstream neighbor of SON	526					multicellular organismal development	nucleus				ovary(1)|central_nervous_system(1)	2						AGTAAGCTCCTTATGAACAAC	0.388													3	65					0	0	1	0	0		C	34950737	C	C	34950737	3	2	49	1	0	0	0	0	1	0	0	0	4712	1609	56	3	127	3	DONSON	21	34950737	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	968540	34950737	13179158	1466	38146											
PSMG1	8624	broad.mit.edu	37	chr21	40550511	40550511	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattctgaggttttataatcGgtaacatgtcgacatgtgag	11	14	11	5	2	1	2	0	2	1	0	3	4	1	2	0	2	1	2	0	2	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:40550511G>A	uc002yxi.2	-	5	648	c.519C>T	c.(517-519)ACC>ACT	p.T173T	PSMG1_uc002yxj.2_Silent_p.T152T|PSMG1_uc010gob.2_Silent_p.T86T	NM_003720	NP_003711	O95456	PSMG1_HUMAN	Down syndrome critical region protein 2 isoform	173					proteasome assembly	endoplasmic reticulum	protein binding				0		Prostate(19;8.44e-08)				TTTTATAATCGGTAACATGTC	0.368													7	83					0	0	1	0	0		A	40550511	A	A	40550511	2	1	49	1	0	0	0	0	0	0	0	1	12733	1103	39	1		1	PSMG1	21	40550511	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	5599774	40550511	7579384	1467	38147											
DSCAM	1826	broad.mit.edu	37	chr21	41414322	41414322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccgatgtgcctttggaactgCcatattcattactcttcctc	7	15	6	13	1	2	0	1	0	1	0	4	2	3	1	4	1	4	0	4	1	3	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:41414322C>T	uc002yyq.1	-	32	6114	c.5662G>A	c.(5662-5664)GCA>ACA	p.A1888T	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1888	Cytoplasmic (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TTTGGAACTGCCATATTCATT	0.572													12	50					0	0	1	0	0		T	41414322	T	T	41414322	3	4	49	1	0	0	0	0	1	0	0	0	4774	739	26	2	384	2	DSCAM	21	41414322	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	863811	41414322	6715573	1468	38148											
DSCAM	1826	broad.mit.edu	37	chr21	41496241	41496241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgctgccttcacacccgCgggaggacctggaactggaa	8	5	13	15	4	1	0	1	0	0	0	1	4	1	4	4	4	2	1	4	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:41496241C>T	uc002yyq.1	-	20	4029	c.3577G>A	c.(3577-3579)GCG>ACG	p.A1193T	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1193	Fibronectin type-III 4.|Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TTCACACCCGCGGGAGGACCT	0.597													12	52					0	0	1	0	0		T	41496241	T	T	41496241	3	4	49	1	0	0	0	0	1	0	0	0	4774	768	27	1	2517	1	DSCAM	21	41496241	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	81919	41496241	6633654	1469	38149											
PRDM15	63977	broad.mit.edu	37	chr21	43256665	43256665	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaacccgcttgtgctccccGagctgtttgatgagcttgcg	6	12	11	12	3	0	2	0	2	0	0	1	3	1	2	3	0	5	5	3	0	2	4	rs148897785	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:43256665G>A	uc002yzq.1	-	16	2304	c.2193C>T	c.(2191-2193)CTC>CTT	p.L731L	PRDM15_uc002yzo.2_Silent_p.L402L|PRDM15_uc002yzp.2_Silent_p.L402L|PRDM15_uc002yzr.1_Silent_p.L402L	NM_022115	NP_071398	P57071	PRD15_HUMAN	PR domain containing 15 isoform 1	731					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGTGCTCCCCGAGCTGTTTGA	0.547													12	117					0	0	1	0	0		A	43256665	A	A	43256665	2	1	49	1	0	0	0	0	0	0	0	1	12478	1045	37	1		1	PRDM15	21	43256665	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1760424	43256665	4873230	1470	38150											
C2CD2	25966	broad.mit.edu	37	chr21	43327823	43327823	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggcagacccgctggtcagCgtgaagctctgtggcccaga	8	6	14	13	2	2	3	1	1	1	2	2	3	2	3	2	3	2	3	2	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:43327823C>T	uc002yzw.2	-	9	1331	c.1089G>A	c.(1087-1089)ACG>ACA	p.T363T	C2CD2_uc002yzt.2_5'UTR|C2CD2_uc002yzu.2_Silent_p.T195T|C2CD2_uc002yzv.2_Silent_p.T208T|C2CD2_uc002yzx.1_Silent_p.T208T	NM_015500	NP_056315	Q9Y426	CU025_HUMAN	C2 calcium-dependent domain containing 2 isoform	363						cytosol|extracellular region|nucleus				ovary(1)	1						CGCTGGTCAGCGTGAAGCTCT	0.647													7	16					0	0	1	0	0		T	43327823	T	T	43327823	2	4	49	1	0	0	0	0	0	0	0	1	2155	755	27	1		1	C2CD2	21	43327823	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	71158	43327823	4802072	1471	38151											
TRAPPC10	7109	broad.mit.edu	37	chr21	45478985	45478985	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtatcttgggcgaataggAggagcttgcctttgttttcg	7	14	13	7	3	1	0	0	0	1	0	2	3	1	2	1	3	2	3	1	3	3	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:45478985A>G	uc002zea.2	+	6	849	c.680A>G	c.(679-681)GAG>GGG	p.E227G	TRAPPC10_uc010gpo.2_5'UTR|TRAPPC10_uc002zdz.2_Missense_Mutation_p.E227G	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	227					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						GGCGAATAGGAGGAGCTTGCC	0.448													8	53					0	0	1	0	0		G	45478985	G	G	45478985	3	3	49	1	0	0	0	0	1	0	0	0	16483	318	11	3	702	3	TRAPPC10	21	45478985	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	2151162	45478985	2650910	1472	38152											
ICOSLG	23308	broad.mit.edu	37	chr21	45655435	45655435	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcgctgacgacgggcacGctgaagtttgctgcagggga	7	6	19	9	4	0	2	0	2	0	0	0	4	0	3	0	5	2	6	0	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:45655435G>A	uc002zee.2	-	4	551	c.417C>T	c.(415-417)AGC>AGT	p.S139S	ICOSLG_uc011afc.1_Silent_p.S49S|ICOSLG_uc002zef.2_Silent_p.S22S|ICOSLG_uc010gpp.1_Silent_p.S139S	NM_015259	NP_056074	O75144	ICOSL_HUMAN	inducible T-cell co-stimulator ligand precursor	139	Extracellular (Potential).				B cell activation|defense response|hyperosmotic response|positive regulation of activated T cell proliferation|signal transduction|T cell activation|T cell costimulation		receptor binding				0				Colorectal(79;0.0163)|READ - Rectum adenocarcinoma(84;0.0772)		CGACGGGCACGCTGAAGTTTG	0.597													34	83					0	0	1	0	0		A	45655435	A	A	45655435	2	1	49	1	0	0	0	0	0	0	0	1	7503	1078	38	1		1	ICOSLG	21	45655435	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	176450	45655435	2474460	1473	38153											
DNMT3L	29947	broad.mit.edu	37	chr21	45679416	45679416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catcgtcgtacaggaagaggGcatccaggaacttgtccttg	10	9	12	10	2	0	1	0	0	0	1	4	3	2	3	2	3	2	2	2	3	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:45679416G>A	uc002zeg.1	-	5	732	c.248C>T	c.(247-249)GCC>GTC	p.A83V	DNMT3L_uc002zeh.1_Missense_Mutation_p.A83V	NM_175867	NP_787063	Q9UJW3	DNM3L_HUMAN	cytosine-5-methyltransferase 3-like protein	83	ADD.				DNA methylation|negative regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|spermatogenesis	cytosol	enzyme activator activity|enzyme binding|metal ion binding			skin(2)	2				Colorectal(79;0.0165)|READ - Rectum adenocarcinoma(84;0.0781)		CAGGAAGAGGGCATCCAGGAA	0.587													8	83					0	0	1	0	0		A	45679416	A	A	45679416	3	1	49	1	0	0	0	0	1	0	0	0	4684	1203	42	2	947	2	DNMT3L	21	45679416	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	23981	45679416	2450479	1474	38154											
COL18A1	80781	broad.mit.edu	37	chr21	46895395	46895395	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaaactcctcaggcatcCggagactctggcagcgggct	8	9	11	13	2	3	1	2	0	1	1	5	2	5	1	2	4	2	3	2	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:46895395C>T	uc011afs.1	+	4	2010	c.1989C>T	c.(1987-1989)TCC>TCT	p.S663S	COL18A1_uc002zhg.2_Silent_p.S248S|COL18A1_uc002zhi.2_Silent_p.S428S	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	663	Nonhelical region 1 (NC1).			S -> F (in Ref. 1; AAC39658/AAC39659).	cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		CTCAGGCATCCGGAGACTCTG	0.692													3	8					0	0	1	0	0		T	46895395	T	T	46895395	2	4	49	1	0	0	0	0	0	0	0	1	3678	639	23	1		1	COL18A1	21	46895395	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1215979	46895395	1234500	1475	38155											
MCM3AP	8888	broad.mit.edu	37	chr21	47666772	47666772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgtctccacagcatcaatgGcaccatcactgagggcgcca	10	7	10	14	1	3	1	2	1	1	0	4	1	3	1	3	2	1	2	3	2	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:47666772G>A	uc002zir.1	-	21	4355	c.4319C>T	c.(4318-4320)GCC>GTC	p.A1440V	MCM3APAS_uc002zim.2_Intron|MCM3APAS_uc002zin.2_Intron|MCM3AP_uc002zio.1_5'UTR|MCM3AP_uc002zip.1_Missense_Mutation_p.A181V|MCM3AP_uc002ziq.1_Missense_Mutation_p.A367V|MCM3APAS_uc002zis.1_Intron	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1440					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					AGCATCAATGGCACCATCACT	0.577													5	103					0	0	1	0	0		A	47666772	A	A	47666772	3	1	49	1	0	0	0	0	1	0	0	0	9406	1203	42	2	1655	2	MCM3AP	21	47666772	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	771377	47666772	463123	1476	38156											
PCNT	5116	broad.mit.edu	37	chr21	47786513	47786513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcaggtttttagaggaacGtaaagagatcaccgagaaat	15	8	11	7	3	1	3	1	0	0	3	1	6	1	4	2	2	1	3	2	2	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:47786513G>A	uc002zji.3	+	15	2731	c.2624G>A	c.(2623-2625)CGT>CAT	p.R875H	PCNT_uc002zjj.2_Missense_Mutation_p.R757H	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	875					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TTAGAGGAACGTAAAGAGATC	0.517													16	43					0	0	1	0	0		A	47786513	A	A	47786513	3	1	49	1	0	0	0	0	1	0	0	0	11609	1145	40	1	2682	1	PCNT	21	47786513	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	119741	47786513	343382	1477	38157											
PCNT	5116	broad.mit.edu	37	chr21	47801609	47801609	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attgttattgatgtgtacagGgtgaatttggaagtgaaaag	13	14	13	1	0	0	3	0	3	0	0	0	4	0	4	0	2	1	2	0	2	6	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr21:47801609G>T	uc002zji.3	+	16	3273	c.3166G>T	c.(3166-3168)GGT>TGT	p.G1056C	PCNT_uc002zjj.2_Missense_Mutation_p.G938C	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	1056	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					ATGTGTACAGGGTGAATTTGG	0.408													29	90					4.02929e-09	4.30864e-09	1	1	0		T	47801609	T	T	47801609	3	4	49	1	0	0	0	0	1	0	0	0	11609	1246	43	5	3228	5	PCNT	21	47801609	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	15096	47801609	328286	1478	38158											
CECR2	27443	broad.mit.edu	37	chr22	18021966	18021966	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accctggatccttgcagcttGggcagataagtggcccaagt	9	9	12	11	0	0	1	0	0	0	1	1	2	1	2	3	3	2	3	3	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:18021966G>T	uc010gqw.1	+	15	2194	c.2068G>T	c.(2068-2070)GGG>TGG	p.G690W	CECR2_uc010gqv.1_Missense_Mutation_p.G549W|CECR2_uc002zml.2_Missense_Mutation_p.G549W	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	732					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		CTTGCAGCTTGGGCAGATAAG	0.612													7	6					6.5536e-12	7.10112e-12	1	1	0		T	18021966	T	T	18021966	3	4	49	1	0	0	0	0	1	0	0	0	3209	1348	47	5	2128	5	CECR2	22	18021966	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08		18021966	33282600	1479	38159											
DGCR2	9993	broad.mit.edu	37	chr22	19055688	19055688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctggcccgcccctgccGcggatccacagcctccttcc	3	8	8	22	3	1	0	0	0	1	0	5	1	5	1	9	2	2	0	9	2	0	1	rs147748890	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:19055688G>A	uc002zoq.1	-	3	501	c.253C>T	c.(253-255)CGG>TGG	p.R85W	DGCR2_uc002zor.1_5'UTR|DGCR2_uc011agr.1_Missense_Mutation_p.R44W	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	85	Extracellular (Potential).				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					CGCCCCTGCCGCGGATCCACA	0.627													10	20					0	0	1	0	0		A	19055688	A	A	19055688	3	1	49	1	0	0	0	0	1	0	0	0	4467	1086	38	1	1431	1	DGCR2	22	19055688	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1033722	19055688	32248878	1480	38160											
TBX1	6899	broad.mit.edu	37	chr22	19766891	19766891	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caacccttcaatacccagggCctggtggctgggaggaccgc	8	6	13	14	1	1	0	1	0	0	0	1	2	1	2	4	5	2	1	4	5	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:19766891C>T	uc002zqb.2	+	9	1287	c.1158C>T	c.(1156-1158)GGC>GGT	p.G386G	TBX1_uc002zqc.2_Intron	NM_080646	NP_542377	O43435	TBX1_HUMAN	T-box 1 isoform A	386					embryonic viscerocranium morphogenesis|heart development|parathyroid gland development|pharyngeal system development|regulation of transcription from RNA polymerase II promoter|soft palate development|thymus development	nucleus	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)	2	Colorectal(54;0.0993)	all_lung(157;3.05e-06)				ATACCCAGGGCCTGGTGGCTG	0.592													7	56					0	0	1	0	0		T	19766891	T	T	19766891	2	4	49	1	0	0	0	0	0	0	0	1	15675	726	26	2		2	TBX1	22	19766891	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	711203	19766891	31537675	1481	38161											
LZTR1	8216	broad.mit.edu	37	chr22	21348040	21348040	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtggagttcgtgctgggTgaggtgggtgcctgtcctcg	3	11	19	8	3	0	1	0	1	0	0	3	3	1	2	2	4	2	2	2	4	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:21348040T>C	uc002zto.2	+	12	1453	c.1350T>C	c.(1348-1350)GGT>GGC	p.G450G	LZTR1_uc002ztn.2_Silent_p.G409G|LZTR1_uc011ahy.1_Silent_p.G431G|LZTR1_uc010gsr.1_Silent_p.G321G|LZTR1_uc002ztp.2_5'Flank	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	450	Kelch 6.|BTB 1.				anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			TCGTGCTGGGTGAGGTGGGTG	0.627													6	21					0	0	1	0	0		C	21348040	C	C	21348040	2	2	49	1	0	0	0	0	0	0	0	1	9155	1683	59	3		3	LZTR1	22	21348040	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	1581149	21348040	29956526	1482	38162											
SLC7A4	6545	broad.mit.edu	37	chr22	21385717	21385717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggccacggcggcgccacCgatgatgtattcgaggagaa	10	5	15	11	6	0	2	0	1	0	1	1	5	0	2	3	4	0	1	3	4	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:21385717C>T	uc002zud.2	-	2	453	c.385G>A	c.(385-387)GGT>AGT	p.G129S	SLC7A4_uc002zue.2_Missense_Mutation_p.G129S	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	129	Helical; (Potential).				cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	GCGGCGCCACCGATGATGTAT	0.602													4	43					0	0	1	0	0		T	21385717	T	T	21385717	3	4	49	1	0	0	0	0	1	0	0	0	14724	652	23	1	1538	1	SLC7A4	22	21385717	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	37677	21385717	29918849	1483	38163											
CRYBB3	1417	broad.mit.edu	37	chr22	25597378	25597378	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagatggcggaacagcaCggagcacccgaacaggctgc	11	2	17	11	3	0	1	0	0	0	1	0	5	0	3	1	6	5	3	1	6	2	0	rs149884520		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:25597378C>T	uc003abo.1	+	2	87	c.15C>T	c.(13-15)CAC>CAT	p.H5H		NM_004076	NP_004067	P26998	CRBB3_HUMAN	crystallin, beta B3	5	N-terminal arm.				visual perception		protein binding|structural constituent of eye lens				0						CGGAACAGCACGGAGCACCCG	0.597													7	129					0	0	1	0	0		T	25597378	T	T	25597378	2	4	49	1	0	0	0	0	0	0	0	1	3915	535	19	1		1	CRYBB3	22	25597378	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4211661	25597378	25707188	1484	38164											
ADRBK2	157	broad.mit.edu	37	chr22	26118325	26118325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaggcccagcggctattgCgtcgtgccccgaagttcctc	6	8	13	14	4	0	0	0	0	0	0	3	2	1	1	4	3	3	2	4	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:26118325C>T	uc003abx.3	+	21	2122	c.1975C>T	c.(1975-1977)CGT>TGT	p.R659C	ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	659							ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity	p.R659P(1)		lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	GCGGCTATTGCGTCGTGCCCC	0.542													6	105					0	0	1	0	0		T	26118325	T	T	26118325	3	4	49	1	0	0	0	0	1	0	0	0	344	768	27	1	2057	1	ADRBK2	22	26118325	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	520947	26118325	25186241	1485	38165											
OSM	5008	broad.mit.edu	37	chr22	30660414	30660414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccggggcgctccctgcagtGctctctcagtttaggaacat	6	10	11	14	2	2	0	1	0	1	0	4	1	3	1	2	3	3	4	2	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:30660414G>A	uc003ahb.2	-	3	269	c.217C>T	c.(217-219)CAC>TAC	p.H73Y		NM_020530	NP_065391	P13725	ONCM_HUMAN	oncostatin M precursor	73					cell proliferation|immune response|negative regulation of cell proliferation|negative regulation of hormone secretion|positive regulation of cell division|positive regulation of cell proliferation|positive regulation of MAPKKK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of transcription from RNA polymerase II promoter|regulation of growth	extracellular space|oncostatin-M receptor complex	cytokine activity|growth factor activity|oncostatin-M receptor binding			skin(1)	1			Epithelial(10;0.206)			TCCCTGCAGTGCTCTCTCAGT	0.602													6	28					0	0	1	0	0		A	30660414	A	A	30660414	3	1	49	1	0	0	0	0	1	0	0	0	11310	1319	46	2	545	2	OSM	22	30660414	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4542089	30660414	20644152	1486	38166											
OSBP2	23762	broad.mit.edu	37	chr22	31302243	31302243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggctggatccgctgaccGgggagatggcctgtgtgtac	7	8	17	9	2	0	3	0	1	0	2	1	5	1	4	3	5	1	3	3	5	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:31302243G>A	uc003aiy.1	+	14	2772	c.2668G>A	c.(2668-2670)GGG>AGG	p.G890R	OSBP2_uc011ala.1_Missense_Mutation_p.G724R|OSBP2_uc010gwc.1_Missense_Mutation_p.G717R|OSBP2_uc011alb.1_3'UTR|OSBP2_uc003aiz.1_Missense_Mutation_p.G889R|OSBP2_uc003aja.1_Missense_Mutation_p.G523R|OSBP2_uc011alc.1_Missense_Mutation_p.G633R|OSBP2_uc003ajb.2_Missense_Mutation_p.G435R|OSBP2_uc011ald.1_Missense_Mutation_p.G434R|OSBP2_uc010gwd.1_3'UTR	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	890					lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						TCCGCTGACCGGGGAGATGGC	0.612													7	112					0	0	1	0	0		A	31302243	A	A	31302243	3	1	49	1	0	0	0	0	1	0	0	0	11293	1116	39	1	2722	1	OSBP2	22	31302243	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	641829	31302243	20002323	1487	38167											
PLA2G3	50487	broad.mit.edu	37	chr22	31533732	31533732	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctgtgggccctggaggcCtgtgggggccacatcaagcc	6	6	15	14	0	1	0	1	0	0	0	1	1	1	1	5	5	1	0	5	5	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:31533732C>A	uc003aka.2	-	4	1159	c.1030G>T	c.(1030-1032)GGC>TGC	p.G344C		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	344					cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						CCCTGGAGGCCTGTGGGGGCC	0.617													44	101					6.03219e-31	6.66695e-31	1	1	0		A	31533732	A	A	31533732	3	1	49	1	0	0	0	0	1	0	0	0	12019	681	24	5	515	5	PLA2G3	22	31533732	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	231489	31533732	19770834	1488	38168											
PISD	23761	broad.mit.edu	37	chr22	32017778	32017778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatgtacaggctgtagaCgggcctgcgcagccagtgtg	8	7	15	11	2	0	2	0	0	0	2	0	2	0	2	3	2	3	4	3	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:32017778C>T	uc003alm.3	-	4	422	c.415G>A	c.(415-417)GTC>ATC	p.V139I	PISD_uc003alk.2_Missense_Mutation_p.V105I|PISD_uc003all.2_Missense_Mutation_p.V104I|PISD_uc011alr.1_Missense_Mutation_p.V104I|PISD_uc003aln.3_Missense_Mutation_p.V139I	NM_014338	NP_055153	Q9UG56	PISD_HUMAN	phosphatidylserine decarboxylase	139					phospholipid biosynthetic process	mitochondrion	phosphatidylserine decarboxylase activity			central_nervous_system(2)|ovary(1)	3					Phosphatidylserine(DB00144)	AGGCTGTAGACGGGCCTGCGC	0.607													5	65					0	0	1	0	0		T	32017778	T	T	32017778	3	4	49	1	0	0	0	0	1	0	0	0	11965	536	19	1	834	1	PISD	22	32017778	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	484046	32017778	19286788	1489	38169											
TOM1	10043	broad.mit.edu	37	chr22	35719087	35719087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggccagccaggacttcGtggagagtgtgctggtgagg	6	9	19	7	1	0	2	0	1	0	1	1	4	0	3	2	6	2	1	2	6	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:35719087G>A	uc003ann.2	+	4	408	c.283G>A	c.(283-285)GTG>ATG	p.V95M	TOM1_uc011ami.1_Missense_Mutation_p.V62M|TOM1_uc011amj.1_Translation_Start_Site|TOM1_uc003ans.2_Translation_Start_Site|TOM1_uc011amk.1_Missense_Mutation_p.V57M|TOM1_uc003anp.2_Missense_Mutation_p.V95M|TOM1_uc011aml.1_Missense_Mutation_p.V95M|TOM1_uc003ano.2_RNA|TOM1_uc003anq.2_Missense_Mutation_p.V89M|TOM1_uc003anr.2_Translation_Start_Site	NM_005488	NP_005479	O60784	TOM1_HUMAN	target of myb1 isoform 1	95	VHS.				endocytosis|endosome transport|intracellular protein transport	cytosol|early endosome|membrane	protein binding			ovary(1)	1						CCAGGACTTCGTGGAGAGTGT	0.602													8	52					0	0	1	0	0		A	35719087	A	A	35719087	3	1	49	1	0	0	0	0	1	0	0	0	16376	1145	40	1	297	1	TOM1	22	35719087	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3701309	35719087	15585479	1490	38170											
MYH9	4627	broad.mit.edu	37	chr22	36680552	36680552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtttgcaggctgcctggCgctccctgcatgacagacaa	7	9	11	14	1	0	2	0	1	0	1	1	2	1	2	3	2	3	5	3	2	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:36680552C>T	uc003apg.2	-	39	5720	c.5489G>A	c.(5488-5490)CGC>CAC	p.R1830H		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1830	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GGCTGCCTGGCGCTCCCTGCA	0.622			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				6	56					0	0	1	0	0		T	36680552	T	T	36680552	3	4	49	1	0	0	0	0	1	0	0	0	10060	768	27	1	405	1	MYH9	22	36680552	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	961465	36680552	14624014	1491	38171											
MYH9	4627	broad.mit.edu	37	chr22	36684927	36684927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagctcttccagctgcGtcttcatctcctccacctgc	4	12	5	20	1	4	0	1	0	3	0	8	0	7	0	6	0	4	2	6	0	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:36684927G>A	uc003apg.2	-	33	4847	c.4616C>T	c.(4615-4617)ACG>ATG	p.T1539M		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1539	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						TTCCAGCTGCGTCTTCATCTC	0.627			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				6	85					0	0	1	0	0		A	36684927	A	A	36684927	3	1	49	1	0	0	0	0	1	0	0	0	10060	1145	40	1	1302	1	MYH9	22	36684927	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4375	36684927	14619639	1492	38172											
MYH9	4627	broad.mit.edu	37	chr22	36689446	36689446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcctccagctgctcccGgaaggaattcttctcgtcct	5	12	7	17	2	2	0	0	0	2	0	8	2	7	2	5	2	2	2	5	2	2	2	rs147901502	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:36689446G>A	uc003apg.2	-	30	4255	c.4024C>T	c.(4024-4026)CGG>TGG	p.R1342W		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1342	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						AGCTGCTCCCGGAAGGAATTC	0.632			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				30	68					0	0	1	0	0		A	36689446	A	A	36689446	3	1	49	1	0	0	0	0	1	0	0	0	10060	1115	39	1	1906	1	MYH9	22	36689446	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4519	36689446	14615120	1493	38173											
SH3BP1	23616	broad.mit.edu	37	chr22	38040646	38040646	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctctctgtccccaaggaCgagtacttggctgacctgta	7	10	9	15	1	1	1	0	1	1	0	3	3	2	2	5	2	1	3	5	2	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:38040646C>T	uc003ati.2	+	8	732	c.621C>T	c.(619-621)GAC>GAT	p.D207D	SH3BP1_uc003atg.1_RNA|SH3BP1_uc011anl.1_Silent_p.D207D|SH3BP1_uc003ath.1_Silent_p.D207D|SH3BP1_uc003atj.1_Silent_p.D143D|SH3BP1_uc003atk.1_Silent_p.D121D|uc003atl.1_Intron	NM_018957	NP_061830	Q9Y3L3	3BP1_HUMAN	SH3-domain binding protein 1	207	BAR.				signal transduction	cytoplasm	GTPase activator activity|SH3 domain binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					TCCCCAAGGACGAGTACTTGG	0.428													23	282					0	0	1	0	0		T	38040646	T	T	38040646	2	4	49	1	0	0	0	0	0	0	0	1	14269	535	19	1		1	SH3BP1	22	38040646	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1351200	38040646	13263920	1494	38174											
KCNJ4	3761	broad.mit.edu	37	chr22	38824122	38824122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgtgggcctggccgttgcGgctgtgtccgtgcatgtcct	2	11	15	13	4	0	0	0	0	0	0	2	0	2	0	4	3	2	3	4	3	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:38824122G>A	uc003avs.1	-	2	113	c.16C>T	c.(16-18)CGC>TGC	p.R6C	KCNJ4_uc003avt.1_Missense_Mutation_p.R6C	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	6	Cytoplasmic (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					TGGCCGTTGCGGCTGTGTCCG	0.657													77	185					0	0	1	0	0		A	38824122	A	A	38824122	3	1	49	1	0	0	0	0	1	0	0	0	8069	1116	39	1	1325	1	KCNJ4	22	38824122	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	783476	38824122	12480444	1495	38175											
GTPBP1	9567	broad.mit.edu	37	chr22	39112791	39112791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatgaaattgaatctggtcGcaccagcagtgtgggcaacg	12	8	12	9	2	1	2	0	2	1	0	2	2	1	2	1	2	2	3	1	2	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:39112791G>A	uc003awg.2	+	4	774	c.620G>A	c.(619-621)CGC>CAC	p.R207H		NM_004286	NP_004277	O00178	GTPB1_HUMAN	GTP binding protein 1	207					immune response|positive regulation of mRNA catabolic process|signal transduction	cytoplasmic exosome (RNase complex)|cytosol	GTP binding|GTPase activity			ovary(1)	1	Melanoma(58;0.04)					GAATCTGGTCGCACCAGCAGT	0.567													10	96					0	0	1	0	0		A	39112791	A	A	39112791	3	1	49	1	0	0	0	0	1	0	0	0	6894	1087	38	1	634	1	GTPBP1	22	39112791	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	288669	39112791	12191775	1496	38176											
MCHR1	2847	broad.mit.edu	37	chr22	41077107	41077107	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgcaacaacgtccccgaCatcttcatcatcaacctctc	10	10	5	16	2	5	0	3	0	2	0	7	1	6	0	3	1	4	1	3	1	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:41077107C>T	uc003ayz.2	+	2	712	c.444C>T	c.(442-444)GAC>GAT	p.D148D	MCHR1_uc003aza.2_Silent_p.D37D	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	148	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						ACGTCCCCGACATCTTCATCA	0.562													12	66					0	0	1	0	0		T	41077107	T	T	41077107	2	4	49	1	0	0	0	0	0	0	0	1	9400	477	17	4		4	MCHR1	22	41077107	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1964316	41077107	10227459	1497	38177											
RANGAP1	5905	broad.mit.edu	37	chr22	41660826	41660826	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgagccccagctgtgaTgagtccttcccctagtgaga	8	9	11	13	0	0	4	0	4	0	1	2	5	2	4	5	0	3	2	5	0	1	2	rs143626610	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:41660826T>C	uc003azs.2	-	4	1792	c.322A>G	c.(322-324)ATC>GTC	p.I108V	RANGAP1_uc003azt.2_Missense_Mutation_p.I108V|RANGAP1_uc003azu.2_Missense_Mutation_p.I108V|RANGAP1_uc011aoz.1_Missense_Mutation_p.I98V	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	108					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						CCAGCTGTGATGAGTCCTTCC	0.597													13	97					0	0	1	0	0		C	41660826	C	C	41660826	3	2	49	1	0	0	0	0	1	0	0	0	13058	1464	51	3	1489	3	RANGAP1	22	41660826	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	583719	41660826	9643740	1498	38178											
MEI1	150365	broad.mit.edu	37	chr22	42190432	42190432	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgtttaccctcttggatgCtggagagaattccttcctca	7	14	9	11	0	2	1	1	0	1	1	4	4	4	3	3	2	2	3	3	2	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:42190432C>A	uc003baz.1	+	28	3510	c.3485C>A	c.(3484-3486)GCT>GAT	p.A1162D	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc011apd.1_RNA|MEI1_uc003bbb.1_Missense_Mutation_p.A548D|MEI1_uc003bbc.1_Missense_Mutation_p.A530D|MEI1_uc010gym.1_Missense_Mutation_p.A495D|MEI1_uc003bbd.1_Missense_Mutation_p.A405D|MEI1_uc010gyn.1_RNA|MEI1_uc003bbe.1_RNA|MEI1_uc011apf.1_3'UTR|MEI1_uc010gyo.1_3'UTR|MEI1_uc003bbf.2_Missense_Mutation_p.A176D|MEI1_uc003bbg.2_Missense_Mutation_p.A176D	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	1162							binding			central_nervous_system(1)|skin(1)	2						CTCTTGGATGCTGGAGAGAAT	0.498													17	175					7.07758e-08	7.53065e-08	1	1	0		A	42190432	A	A	42190432	3	1	49	1	0	0	0	0	1	0	0	0	9483	797	28	5	3595	5	MEI1	22	42190432	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	529606	42190432	9114134	1499	38179											
NAGA	4668	broad.mit.edu	37	chr22	42463259	42463259	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgaagttgcccatgtcCgcgtagatacccaacttcag	10	9	10	12	2	1	2	1	1	0	1	2	2	2	2	3	1	3	2	3	1	4	4	rs149600926		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:42463259C>T	uc003bbx.2	-	5	497	c.360G>A	c.(358-360)GCG>GCA	p.A120A	NAGA_uc003bby.2_Silent_p.A120A|NAGA_uc003bbw.3_Silent_p.A120A	NM_000262	NP_000253	P17050	NAGAB_HUMAN	alpha-N-acetylgalactosaminidase precursor	120					glycoside catabolic process|glycosylceramide catabolic process|oligosaccharide metabolic process	lysosome	alpha-galactosidase activity|alpha-N-acetylgalactosaminidase activity|cation binding|protein homodimerization activity			central_nervous_system(1)	1						TGCCCATGTCCGCGTAGATAC	0.577													12	144					0	0	1	0	0		T	42463259	T	T	42463259	2	4	49	1	0	0	0	0	0	0	0	1	10159	639	23	1		1	NAGA	22	42463259	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	272827	42463259	8841307	1500	38180											
PARVB	29780	broad.mit.edu	37	chr22	44495947	44495947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcagaggagaacgaggagCgcacgatgattgaccccact	12	5	14	10	3	0	4	0	2	0	2	0	8	0	5	2	3	2	2	2	3	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:44495947C>T	uc003ben.2	+	3	269	c.217C>T	c.(217-219)CGC>TGC	p.R73C	PARVB_uc003bem.2_Missense_Mutation_p.R106C|PARVB_uc010gzn.2_Missense_Mutation_p.R21C|PARVB_uc003beo.2_Missense_Mutation_p.R36C	NM_013327	NP_037459	Q9HBI1	PARVB_HUMAN	parvin, beta isoform b	73					cell adhesion|cell junction assembly	cytoskeleton|cytosol|focal adhesion	actin binding				0		Ovarian(80;0.0246)|all_neural(38;0.0423)				GAACGAGGAGCGCACGATGAT	0.572													4	75					0	0	1	0	0		T	44495947	T	T	44495947	3	4	49	1	0	0	0	0	1	0	0	0	11488	768	27	1	446	1	PARVB	22	44495947	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2032688	44495947	6808619	1501	38181											
KIAA1644	85352	broad.mit.edu	37	chr22	44681394	44681394	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgtggggcttgtggcagCgggcctgggggaggctgcgg	2	7	23	9	2	0	0	0	0	0	0	0	1	0	1	2	8	2	3	2	8	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:44681394C>T	uc003bet.2	-	4	646	c.513G>A	c.(511-513)CCG>CCA	p.P171P		NM_001099294	NP_001092764	Q3SXP7	K1644_HUMAN	hypothetical protein LOC85352 precursor	171	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1		all_neural(38;0.0762)|Ovarian(80;0.105)|Glioma(61;0.222)				CTTGTGGCAGCGGGCCTGGGG	0.687													24	59					0	0	1	0	0		T	44681394	T	T	44681394	2	4	49	1	0	0	0	0	0	0	0	1	8266	755	27	1		1	KIAA1644	22	44681394	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	185447	44681394	6623172	1502	38182											
FAM118A	55007	broad.mit.edu	37	chr22	45726600	45726600	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataaagacgtcactcaagaCgcagaagtcatggtacggcc	14	7	10	10	3	3	3	3	0	0	3	3	3	3	3	1	2	1	2	1	2	6	3	rs150737794	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:45726600C>T	uc003bfz.3	+	6	1255	c.639C>T	c.(637-639)GAC>GAT	p.D213D	FAM118A_uc003bga.3_Silent_p.D213D|FAM118A_uc011aqr.1_Silent_p.D31D	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	213						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		TCACTCAAGACGCAGAAGTCA	0.592													8	32					0	0	1	0	0		T	45726600	T	T	45726600	2	4	49	1	0	0	0	0	0	0	0	1	5422	535	19	1		1	FAM118A	22	45726600	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1045206	45726600	5577966	1503	38183											
CELSR1	9620	broad.mit.edu	37	chr22	46859655	46859655	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccctcgcggctgcggcAgcggccgttggcgccgcacg	2	4	17	18	9	0	0	0	0	0	0	1	0	0	0	4	4	2	4	4	4	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:46859655A>T	uc003bhw.1	-	2	4132	c.4132T>A	c.(4132-4134)TGC>AGC	p.C1378S		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1378	Extracellular (Potential).|EGF-like 2; calcium-binding.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CGGCTGCGGCAGCGGCCGTTG	0.687													5	11					0	0	1	0	0		T	46859655	T	T	46859655	3	4	49	1	0	0	0	0	1	0	0	0	3224	188	7	5	5048	5	CELSR1	22	46859655	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1133055	46859655	4444911	1504	38184											
BRD1	23774	broad.mit.edu	37	chr22	50217616	50217616	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcaccttgggctccgggAgggcactggccgaggccggc	4	5	18	14	4	0	0	0	0	0	0	1	2	1	1	4	6	1	3	4	6	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:50217616A>C	uc003biv.2	-	1	837	c.350T>G	c.(349-351)CTC>CGC	p.L117R	BRD1_uc011arf.1_5'UTR|BRD1_uc011arg.1_Missense_Mutation_p.L117R|BRD1_uc011arh.1_Missense_Mutation_p.L117R|BRD1_uc003biu.3_Missense_Mutation_p.L117R	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	117					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GGGCTCCGGGAGGGCACTGGC	0.607													35	64					0	0	1	0	0		C	50217616	C	C	50217616	3	2	49	1	0	0	0	0	1	0	0	0	1504	304	11	5	2874	5	BRD1	22	50217616	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3357961	50217616	1086950	1505	38185											
TUBGCP6	85378	broad.mit.edu	37	chr22	50659166	50659166	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgttccaccgtggccgggTgggagccatgtctgacacag	6	8	16	11	2	1	1	0	1	1	0	2	2	2	2	4	4	1	1	4	4	0	1	rs145066767		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:50659166T>C	uc003bkb.1	-	16	4134	c.3622A>G	c.(3622-3624)ACC>GCC	p.T1208A	TUBGCP6_uc003bka.1_Missense_Mutation_p.T295A|TUBGCP6_uc010har.1_Missense_Mutation_p.T1200A|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	1208	7.|9 X 27 AA tandem repeats.				G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CGTGGCCGGGTGGGAGCCATG	0.622													3	72					0	0	1	0	0		C	50659166	C	C	50659166	3	2	49	1	0	0	0	0	1	0	0	0	16796	1696	59	3	1877	3	TUBGCP6	22	50659166	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	441550	50659166	645400	1506	38186											
TYMP	1890	broad.mit.edu	37	chr22	50966139	50966139	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccgcctggtccagcagcActtgcatctggtcagacatc	8	8	10	15	1	2	1	1	0	1	1	4	1	3	1	3	2	4	3	3	2	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:50966139A>G	uc003bmb.3	-	4	644	c.524T>C	c.(523-525)GTG>GCG	p.V175A	SCO2_uc003bma.2_5'Flank|SCO2_uc003blz.3_5'Flank|TYMP_uc003bmc.3_Missense_Mutation_p.V175A|TYMP_uc003bmd.3_Missense_Mutation_p.V175A|TYMP_uc010hbd.2_Missense_Mutation_p.V175A|TYMP_uc003bme.3_Missense_Mutation_p.V175A|TYMP_uc003bmf.3_Missense_Mutation_p.V142A|TYMP_uc011arz.1_Missense_Mutation_p.V175A	NM_001113756	NP_001107228	P19971	TYPH_HUMAN	endothelial cell growth factor 1	175					angiogenesis|cell differentiation|chemotaxis|DNA replication|mitochondrial genome maintenance|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage|pyrimidine nucleotide metabolic process	cytosol	growth factor activity|platelet-derived growth factor receptor binding|pyrimidine-nucleoside phosphorylase activity|thymidine phosphorylase activity	p.V175V(1)		ovary(1)	1		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)	Capecitabine(DB01101)|Docetaxel(DB01248)|Floxuridine(DB00322)|Fluorouracil(DB00544)|Sulfasalazine(DB00795)|Tamoxifen(DB00675)	GTCCAGCAGCACTTGCATCTG	0.438													9	87					0	0	1	0	0		G	50966139	G	G	50966139	3	3	49	1	0	0	0	0	1	0	0	0	16837	159	6	3	948	3	TYMP	22	50966139	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	306973	50966139	338427	1507	38187											
KLHDC7B	113730	broad.mit.edu	37	chr22	50988017	50988017	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgaaggatgcttgggaCgagtgcccatacagtgccag	9	7	14	11	2	0	1	0	1	0	0	0	4	0	3	3	2	4	1	3	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chr22:50988017C>T	uc003bmi.2	+	1	1556	c.1422C>T	c.(1420-1422)GAC>GAT	p.D474D		NM_138433	NP_612442	Q96G42	KLD7B_HUMAN	kelch domain containing 7B	474	Kelch 4.									central_nervous_system(1)	1		all_cancers(38;1.53e-10)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		OV - Ovarian serous cystadenocarcinoma(4;7.49e-69)|all cancers(3;9.79e-66)|Epithelial(4;1.3e-63)|GBM - Glioblastoma multiforme(4;0.000399)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		ATGCTTGGGACGAGTGCCCAT	0.682													9	100					0	0	1	0	0		T	50988017	T	T	50988017	2	4	49	1	0	0	0	0	0	0	0	1	8377	535	19	1		1	KLHDC7B	22	50988017	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	21878	50988017	316549	1508	38188											
SFRS17A	8227	broad.mit.edu	37	chrX	1719900	1719900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgcccccaaggagagcccgGcccacccagaggccgacggc	8	1	14	18	3	0	2	0	0	0	2	0	4	0	2	6	4	2	0	6	4	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:1719900G>A	uc004cqa.2	+	5	1697	c.1501G>A	c.(1501-1503)GCC>ACC	p.A501T	SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_Intron	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	501					B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GGAGAGCCCGGCCCACCCAGA	0.716													3	11					0	0	1	0	0		A	1719900	A	A	1719900	3	1	49	1	0	0	0	0	1	0	0	0	14198	1203	42	2	1515	2	SFRS17A	23	1719900	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08		1719900	153550660	1509	38189											
ARSD	414	broad.mit.edu	37	chrX	2840009	2840009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgcagagcggggcggccGccaggtgctgagtgagcctc	5	5	20	11	3	0	3	0	2	0	1	1	3	0	3	3	5	4	2	3	5	0	0	rs151213601	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:2840009G>A	uc004cqy.2	-	3	327	c.251C>T	c.(250-252)GCG>GTG	p.A84V	ARSD_uc004cqz.1_Intron|ARSD_uc004cra.1_Missense_Mutation_p.A84V|ARSD_uc004crb.3_Missense_Mutation_p.A84V	NM_001669	NP_001660	P51689	ARSD_HUMAN	arylsulfatase D isoform a precursor	84						lysosome	arylsulfatase activity|metal ion binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CGGGGCGGCCGCCAGGTGCTG	0.547													17	37					0	0	1	0	0		A	2840009	A	A	2840009	3	1	49	1	0	0	0	0	1	0	0	0	990	1087	38	1	1715	1	ARSD	23	2840009	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1120109	2840009	152430551	1510	38190											
PRKX	5613	broad.mit.edu	37	chrX	3573188	3573188	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcggagttcacgttcctcttAcctgtctaccagcttcttgg	5	15	8	13	2	4	0	1	0	3	0	6	1	5	1	3	2	3	3	3	2	2	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:3573188A>G	uc010nde.2	-	3	966	c.599_splice	c.e3+1	p.R200_splice		NM_005044	NP_005035	P51817	PRKX_HUMAN	protein kinase, X-linked								ATP binding|cAMP-dependent protein kinase activity			skin(2)|lung(1)	3		all_lung(23;0.000396)|Lung NSC(23;0.00123)				CGTTCCTCTTACCTGTCTACC	0.512													12	109					0	0	1	0	0		G	3573188	G	G	3573188	5	3	49	1	0	0	0	0	0	0	1	0	12549	405	14	3	499	3	PRKX	23	3573188	Splice_Site	SNP	A	TCGA-BR-7707-01A-11D-2053-08	733179	3573188	151697372	1511	38191											
VCX3A	51481	broad.mit.edu	37	chrX	6451812	6451812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actcggtagttcttccatctCgctctcctgactcagtggtt	5	15	8	13	2	4	1	1	1	3	0	8	1	5	1	2	2	0	4	2	2	1	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:6451812C>T	uc004crs.2	-	3	842	c.535G>A	c.(535-537)GAG>AAG	p.E179K	VCX3A_uc010ndk.1_Intron	NM_016379	NP_057463	Q9NNX9	VCX3_HUMAN	variable charge, X-linked 3A	179	8 X 10 AA tandem repeats of L-S-Q-E-S- [EQ]-V-E-E-P.|8.|Glu-rich.				brain development	nucleolus					0						TCTTCCATCTCGCTCTCCTGA	0.587													72	204					0	0	1	0	0		T	6451812	T	T	6451812	3	4	49	1	0	0	0	0	1	0	0	0	17170	893	31	1	29	1	VCX3A	23	6451812	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2878624	6451812	148818748	1512	38192											
STS	412	broad.mit.edu	37	chrX	7177678	7177678	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagccctaatcctgacccTtttcttgggcttccttcatt	6	15	6	14	0	2	1	1	1	1	0	4	1	4	1	4	1	2	2	4	1	1	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:7177678T>C	uc004cry.3	+	5	931	c.686T>C	c.(685-687)CTT>CCT	p.L229P		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	229	Helical.				female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)	ATCCTGACCCTTTTCTTGGGC	0.512									Ichthyosis				7	67					0	0	1	0	0		C	7177678	C	C	7177678	3	2	49	1	0	0	0	0	1	0	0	0	15357	1609	56	3	704	3	STS	23	7177678	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	725866	7177678	148092882	1513	38193											
VCX3B	425054	broad.mit.edu	37	chrX	8434308	8434308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaccactgagtcaggagagcGagatggaagaaccactgagt	15	5	13	8	1	1	5	1	2	0	3	1	8	1	6	2	2	3	0	2	2	3	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:8434308G>A	uc010ndo.2	+	4	842	c.535G>A	c.(535-537)GAG>AAG	p.E179K	VCX3B_uc004csd.1_Missense_Mutation_p.E159K	NM_001001888	NP_001001888	Q9H321	VCX3B_HUMAN	variable charge, X-linked 3B	179	8.|11 X 10 AA tandem repeats of L-S-Q-E-S- [EQ]-V-E-E-P.					nucleolus					0						TCAGGAGAGCGAGATGGAAGA	0.567													8	519					0	0	1	0	0		A	8434308	A	A	8434308	3	1	49	1	0	0	0	0	1	0	0	0	17171	1059	37	1	545	1	VCX3B	23	8434308	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1256630	8434308	146836252	1514	38194											
KAL1	3730	broad.mit.edu	37	chrX	8522075	8522075	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttccagcgggcgagtgggTcgtcgtctttgaaaagggag	8	9	16	8	4	1	1	0	1	1	0	4	3	2	2	1	3	1	0	1	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:8522075T>C	uc004csf.2	-	9	1422	c.1272A>G	c.(1270-1272)CGA>CGG	p.R424R		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	424					axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						GGCGAGTGGGTCGTCGTCTTT	0.413													7	35					0	0	1	0	0		C	8522075	C	C	8522075	2	2	49	1	0	0	0	0	0	0	0	1	7990	1654	58	3		3	KAL1	23	8522075	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	87767	8522075	146748485	1515	38195											
OFD1	8481	broad.mit.edu	37	chrX	13785292	13785292	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaaggaagaagaaaaaatAcgggaacagcaagtgaaaga	24	2	11	4	1	0	4	0	1	0	3	0	6	0	6	0	2	3	1	0	2	11	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:13785292A>G	uc004cvp.3	+	20	3005	c.2646A>G	c.(2644-2646)ATA>ATG	p.I882M	OFD1_uc004cvr.3_Missense_Mutation_p.I412M|OFD1_uc011mil.1_Missense_Mutation_p.I449M|OFD1_uc004cvq.3_Missense_Mutation_p.I705M|OFD1_uc010nen.2_Missense_Mutation_p.I881M|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Missense_Mutation_p.I841M|OFD1_uc004cvv.3_Missense_Mutation_p.I841M	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	882	Mediates the interaction with SDCCAG8.|Potential.				cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0						AAGAAAAAATACGGGAACAGC	0.353													5	69					0	0	1	0	0		G	13785292	G	G	13785292	3	3	49	1	0	0	0	0	1	0	0	0	10857	381	14	3	2724	3	OFD1	23	13785292	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	5263217	13785292	141485268	1516	38196											
GPM6B	2824	broad.mit.edu	37	chrX	13803832	13803832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagccacatgcccacagcCgcagaataaggccaccccgg	12	2	11	16	2	0	2	0	0	0	2	0	3	0	2	6	2	3	1	6	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:13803832C>T	uc004cvz.2	-	2	448	c.157G>A	c.(157-159)GGC>AGC	p.G53S	GPM6B_uc004cvx.2_Missense_Mutation_p.G34S|GPM6B_uc011min.1_5'UTR|GPM6B_uc004cwa.2_Missense_Mutation_p.G34S|GPM6B_uc004cvw.2_Missense_Mutation_p.G93S|GPM6B_uc011mim.1_Missense_Mutation_p.G67S|GPM6B_uc004cvy.2_Missense_Mutation_p.G93S	NM_005278	NP_005269	Q13491	GPM6B_HUMAN	glycoprotein M6B isoform 3	53					cell differentiation|nervous system development	integral to membrane					0						TGCCCACAGCCGCAGAATAAG	0.587													21	42					0	0	1	0	0		T	13803832	T	T	13803832	3	4	49	1	0	0	0	0	1	0	0	0	6631	652	23	1	818	1	GPM6B	23	13803832	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	18540	13803832	141466728	1517	38197											
PIGA	5277	broad.mit.edu	37	chrX	15349630	15349630	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagccccattgtcttggcGtggaagagagcatcatgggc	9	9	14	9	1	2	2	1	1	1	1	2	4	2	3	2	3	2	1	2	3	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:15349630G>A	uc004cwr.2	-	2	523	c.423C>T	c.(421-423)CAC>CAT	p.H141H	PIGA_uc004cwq.2_Intron|PIGA_uc010nev.2_Intron|PIGA_uc004cws.2_Intron|PIGA_uc011miq.1_Intron|PIGA_uc010new.1_Intron	NM_002641	NP_002632	P37287	PIGA_HUMAN	phosphatidylinositol	141	Cytoplasmic (Potential).				C-terminal protein lipidation|positive regulation of metabolic process|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity|protein binding				0	Hepatocellular(33;0.183)					TTGTCTTGGCGTGGAAGAGAG	0.468													24	41					0	0	1	0	0		A	15349630	A	A	15349630	2	1	49	1	0	0	0	0	0	0	0	1	11903	1136	40	1		1	PIGA	23	15349630	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1545798	15349630	139920930	1518	38198											
ACE2	59272	broad.mit.edu	37	chrX	15596275	15596275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaatgcttaggtgtggctgCagaaagtgacatgatttccc	11	12	11	7	0	0	3	0	2	0	1	1	3	1	3	1	2	2	3	1	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:15596275C>T	uc004cxa.1	-	9	1402	c.1234G>A	c.(1234-1236)GCA>ACA	p.A412T	ACE2_uc004cxb.2_Missense_Mutation_p.A412T	NM_021804	NP_068576	Q9BYF1	ACE2_HUMAN	angiotensin I converting enzyme 2 precursor	412	Extracellular (Potential).				angiotensin-mediated drinking behavior|proteolysis|receptor biosynthetic process|regulation of cell proliferation|virion attachment, binding of host cell surface receptor	cell surface|extracellular space|integral to membrane|membrane raft|plasma membrane	carboxypeptidase activity|glycoprotein binding|metallopeptidase activity|peptidyl-dipeptidase activity|viral receptor activity|zinc ion binding			ovary(3)	3	Hepatocellular(33;0.183)				Moexipril(DB00691)	GGTGTGGCTGCAGAAAGTGAC	0.408													9	100					0	0	1	0	0		T	15596275	T	T	15596275	3	4	49	1	0	0	0	0	1	0	0	0	137	710	25	2	1223	2	ACE2	23	15596275	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	246645	15596275	139674285	1519	38199											
BEND2	139105	broad.mit.edu	37	chrX	18221757	18221757	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgacagaactgccataggTactgctgtagtagcattggc	10	10	12	9	1	0	2	0	1	0	1	0	2	0	2	1	2	5	5	1	2	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:18221757T>C	uc004cyj.3	-	5	925	c.771A>G	c.(769-771)GTA>GTG	p.V257V	BEND2_uc010nfb.2_Silent_p.V257V	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	257										ovary(3)|kidney(1)|central_nervous_system(1)	5						CTGCCATAGGTACTGCTGTAG	0.458													11	100					0	0	1	0	0		C	18221757	C	C	18221757	2	2	49	1	0	0	0	0	0	0	0	1	1399	1625	57	3		3	BEND2	23	18221757	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	2625482	18221757	137048803	1520	38200											
RS1	6247	broad.mit.edu	37	chrX	18660170	18660170	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagctccatccggatggcaAtgcggacgtgccagcccagc	8	5	13	15	3	0	0	0	0	0	0	2	2	2	2	4	3	5	3	4	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:18660170A>C	uc004cyo.2	-	6	664	c.629T>G	c.(628-630)ATT>AGT	p.I210S	CDKL5_uc004cym.2_Intron|CDKL5_uc004cyn.2_Intron	NM_000330	NP_000321	O15537	XLRS1_HUMAN	X-linked juvenile retinoschisis protein	210	F5/8 type C.				cell adhesion|multicellular organismal development|response to stimulus|visual perception	extracellular space				ovary(2)	2	Hepatocellular(33;0.183)					CCGGATGGCAATGCGGACGTG	0.662													13	65					0	0	1	0	0		C	18660170	C	C	18660170	3	2	49	1	0	0	0	0	1	0	0	0	13718	101	4	5	49	5	RS1	23	18660170	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	438413	18660170	136610390	1521	38201											
GPR64	10149	broad.mit.edu	37	chrX	19031936	19031936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cataggggaagagatcgtttCagactgtgggggcatgtcaa	11	9	15	6	1	2	2	2	0	0	2	3	4	2	3	0	4	0	2	0	4	3	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:19031936C>T	uc004cyx.2	-	16	1131	c.967G>A	c.(967-969)GAA>AAA	p.E323K	GPR64_uc004cyy.2_Missense_Mutation_p.E320K|GPR64_uc004cyz.2_Missense_Mutation_p.E309K|GPR64_uc004czb.2_Missense_Mutation_p.E323K|GPR64_uc004czc.2_Missense_Mutation_p.E307K|GPR64_uc004czd.2_Missense_Mutation_p.E299K|GPR64_uc004cze.2_Missense_Mutation_p.E293K|GPR64_uc004czf.2_Missense_Mutation_p.E285K|GPR64_uc004cza.2_Missense_Mutation_p.E301K|GPR64_uc004cyw.2_Missense_Mutation_p.E307K|GPR64_uc010nfj.2_Missense_Mutation_p.E293K	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	323	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					GAGATCGTTTCAGACTGTGGG	0.567													24	152					0	0	1	0	0		T	19031936	T	T	19031936	3	4	49	1	0	0	0	0	1	0	0	0	6720	835	29	4	2142	4	GPR64	23	19031936	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	371766	19031936	136238624	1522	38202											
GPR64	10149	broad.mit.edu	37	chrX	19041547	19041547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgacctttgggcctctgCtgtagcacacattataaagt	10	12	9	10	0	1	1	0	1	1	0	1	2	1	1	2	1	2	3	2	1	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:19041547C>T	uc004cyx.2	-	13	699	c.535G>A	c.(535-537)GCA>ACA	p.A179T	GPR64_uc004cyy.2_Missense_Mutation_p.A176T|GPR64_uc004cyz.2_Missense_Mutation_p.A165T|GPR64_uc004czb.2_Missense_Mutation_p.A179T|GPR64_uc004czc.2_Missense_Mutation_p.A163T|GPR64_uc004czd.2_Missense_Mutation_p.A155T|GPR64_uc004cze.2_Missense_Mutation_p.A149T|GPR64_uc004czf.2_Missense_Mutation_p.A141T|GPR64_uc004cza.2_Missense_Mutation_p.A157T|GPR64_uc004cyw.2_Missense_Mutation_p.A163T|GPR64_uc010nfj.2_Missense_Mutation_p.A149T	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	179	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					TGGGCCTCTGCTGTAGCACAC	0.303													4	42					0	0	1	0	0		T	19041547	T	T	19041547	3	4	49	1	0	0	0	0	1	0	0	0	6720	797	28	2	2586	2	GPR64	23	19041547	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	9611	19041547	136229013	1523	38203											
CNKSR2	22866	broad.mit.edu	37	chrX	21627197	21627197	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctttctacagatgagttgCgccagtccttatgtggaagc	8	13	10	10	1	1	2	0	1	1	1	3	3	3	3	3	1	3	1	3	1	3	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:21627197C>T	uc004czx.1	+	20	2190	c.2154C>T	c.(2152-2154)TGC>TGT	p.C718C	CNKSR2_uc004czw.2_Silent_p.C718C|CNKSR2_uc011mjn.1_Silent_p.C669C|CNKSR2_uc011mjo.1_Silent_p.C688C|CNKSR2_uc004czy.2_Silent_p.C310C	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	718					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						AGATGAGTTGCGCCAGTCCTT	0.458													4	42					0	0	1	0	0		T	21627197	T	T	21627197	2	4	49	1	0	0	0	0	0	0	0	1	3610	776	27	1		1	CNKSR2	23	21627197	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2585650	21627197	133643363	1524	38204											
MAGEB18	286514	broad.mit.edu	37	chrX	26157824	26157824	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcctctatggggatcccaGgaaggtcatgaccaaagatt	11	10	10	10	0	2	2	1	1	1	1	4	4	4	4	3	4	0	0	3	4	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:26157824G>T	uc004dbq.1	+	2	909	c.722G>T	c.(721-723)AGG>ATG	p.R241M		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	241	MAGE.						protein binding			central_nervous_system(1)	1						GGGGATCCCAGGAAGGTCATG	0.493													3	27					0.00024832	0.000256562	1	1	0		T	26157824	T	T	26157824	3	4	49	1	0	0	0	0	1	0	0	0	9193	1000	35	5	724	5	MAGEB18	23	26157824	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	4530627	26157824	129112736	1525	38205											
IL1RAPL1	11141	broad.mit.edu	37	chrX	29973260	29973260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgtgtagatcaaagcaagCggctgattattgtcatgacc	12	11	11	7	1	2	3	2	2	0	1	2	4	2	3	1	1	2	3	1	1	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:29973260C>T	uc004dby.2	+	11	1922	c.1414C>T	c.(1414-1416)CGG>TGG	p.R472W		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	472	Cytoplasmic (Potential).|TIR.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						TCAAAGCAAGCGGCTGATTAT	0.403													29	64					0	0	1	0	0		T	29973260	T	T	29973260	3	4	49	1	0	0	0	0	1	0	0	0	7677	759	27	1	1452	1	IL1RAPL1	23	29973260	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3815436	29973260	125297300	1526	38206											
IL1RAPL1	11141	broad.mit.edu	37	chrX	29973572	29973572	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagcaggctttagatgtcAgtgagcaagggccttttggg	9	11	15	6	0	1	3	1	2	0	1	1	3	1	3	1	3	2	3	1	3	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:29973572A>T	uc004dby.2	+	11	2234	c.1726A>T	c.(1726-1728)AGT>TGT	p.S576C		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	576	Cytoplasmic (Potential).|Interaction with NCS1.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						TTTAGATGTCAGTGAGCAAGG	0.498													6	33					0	0	1	0	0		T	29973572	T	T	29973572	3	4	49	1	0	0	0	0	1	0	0	0	7677	188	7	5	1764	5	IL1RAPL1	23	29973572	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	312	29973572	125296988	1527	38207											
TAB3	257397	broad.mit.edu	37	chrX	30849602	30849602	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagtgctgggtggttaagaAaggtgcagctatcacaattc	11	12	12	6	0	1	1	1	0	0	1	2	1	1	1	0	3	3	4	0	3	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:30849602A>G	uc004dcj.2	-	11	2744	c.2081T>C	c.(2080-2082)TTT>TCT	p.F694S	TAB3_uc004dck.2_Missense_Mutation_p.F694S|TAB3_uc010ngl.2_Missense_Mutation_p.F666S	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	694	RanBP2-type.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						GTGGTTAAGAAAGGTGCAGCT	0.512													3	31					0	0	1	0	0		G	30849602	G	G	30849602	3	3	49	1	0	0	0	0	1	0	0	0	15522	14	1	3	61	3	TAB3	23	30849602	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	876030	30849602	124420958	1528	38208											
FAM47B	170062	broad.mit.edu	37	chrX	34961020	34961020	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagccctggtactgtgacaaAccgccttccaagtacttcgc	10	9	8	14	2	0	1	0	1	0	0	2	1	1	1	4	1	4	2	4	1	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:34961020A>G	uc004ddi.1	+	1	90	c.72A>G	c.(70-72)AAA>AAG	p.K24K		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	24										ovary(3)|breast(1)	4						ACTGTGACAAACCGCCTTCCA	0.622													4	25					0	0	1	0	0		G	34961020	G	G	34961020	2	3	49	1	0	0	0	0	0	0	0	1	5584	40	2	3		3	FAM47B	23	34961020	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4111418	34961020	120309540	1529	38209											
BCOR	54880	broad.mit.edu	37	chrX	39933947	39933947	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaggtagcaaggccttgtAcatgttcagtgaatacttat	11	13	10	7	0	1	2	1	2	0	0	1	2	1	2	1	2	3	4	1	2	6	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:39933947A>G	uc004den.3	-	4	944	c.652T>C	c.(652-654)TAC>CAC	p.Y218H	BCOR_uc004dep.3_Missense_Mutation_p.Y218H|BCOR_uc004deo.3_Missense_Mutation_p.Y218H|BCOR_uc004dem.3_Missense_Mutation_p.Y218H|BCOR_uc004deq.3_Missense_Mutation_p.Y218H	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	218					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						AAGGCCTTGTACATGTTCAGT	0.552													4	96					0	0	1	0	0		G	39933947	G	G	39933947	3	3	49	1	0	0	0	0	1	0	0	0	1387	391	14	3	4663	3	BCOR	23	39933947	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4972927	39933947	115336613	1530	38210											
USP9X	8239	broad.mit.edu	37	chrX	41089041	41089041	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccagaggaggtaaaaaaAgccaccagtgtgcagcagat	15	6	12	8	0	0	2	0	0	0	2	1	3	1	3	3	2	3	3	3	2	4	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:41089041A>G	uc004dfb.2	+	43	8073	c.7440A>G	c.(7438-7440)AAA>AAG	p.K2480K	USP9X_uc004dfc.2_Intron	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	2480					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						AGGTAAAAAAAGCCACCAGTG	0.353													29	48					0	0	1	0	0		G	41089041	G	G	41089041	2	3	49	1	0	0	0	0	0	0	0	1	17116	69	3	3		3	USP9X	23	41089041	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	1155094	41089041	114181519	1531	38211											
ZNF157	7712	broad.mit.edu	37	chrX	47269695	47269695	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtccgtgtcattcgaggaTgtggctgtggatttcacccg	5	12	15	9	3	2	0	2	0	0	0	4	3	3	2	2	4	0	1	2	4	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:47269695T>C	uc004dhr.1	+	2	162	c.93T>C	c.(91-93)GAT>GAC	p.D31D		NM_003446	NP_003437	P51786	ZN157_HUMAN	zinc finger protein 157	31	KRAB.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CATTCGAGGATGTGGCTGTGG	0.502													13	160					0	0	1	0	0		C	47269695	C	C	47269695	2	2	49	1	0	0	0	0	0	0	0	1	17762	1461	51	3		3	ZNF157	23	47269695	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	6180654	47269695	108000865	1532	38212											
ARAF	369	broad.mit.edu	37	chrX	47428435	47428435	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagatctcaagtctaacagtAtctatctgtccctgggctgg	9	12	10	10	0	4	1	1	0	4	1	6	2	5	1	1	2	1	2	1	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:47428435A>G	uc011mlq.1	+	12	1435	c.1302_splice	c.e12+1	p.N434_splice		NM_001654	NP_001645	P10398	ARAF_HUMAN	v-raf murine sarcoma 3611 viral oncogene						intracellular signal transduction|negative regulation of apoptosis|positive regulation of peptidyl-serine phosphorylation		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity			large_intestine(3)|lung(2)|ovary(1)|skin(1)	7					Adenosine triphosphate(DB00171)	GTCTAACAGTATCTATCTGTC	0.567											OREG0019759	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	18					0	0	1	0	0		G	47428435	G	G	47428435	5	3	49	1	0	0	0	0	0	0	1	0	837	464	16	3		3	ARAF	23	47428435	Splice_Site	SNP	A	TCGA-BR-7707-01A-11D-2053-08	158740	47428435	107842125	1533	38213											
SYN1	6853	broad.mit.edu	37	chrX	47478894	47478894	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaccgcgttggacagcgaCgagaagaagccaccgccccc	10	4	12	15	5	0	3	0	1	0	2	0	6	0	4	5	1	2	1	5	1	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:47478894C>T	uc004die.2	-	1	363	c.234G>A	c.(232-234)TCG>TCA	p.S78S	SYN1_uc004did.2_Silent_p.S78S	NM_006950	NP_008881	P17600	SYN1_HUMAN	synapsin I isoform Ia	78	B; linker.					cell junction|Golgi apparatus	actin binding|ATP binding|ligase activity|transporter activity			ovary(1)	1						TGGACAGCGACGAGAAGAAGC	0.771													4	15					0	0	1	0	0		T	47478894	T	T	47478894	2	4	49	1	0	0	0	0	0	0	0	1	15465	523	19	1		1	SYN1	23	47478894	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	50459	47478894	107791666	1534	38214											
ELK1	2002	broad.mit.edu	37	chrX	47498485	47498485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggaatagaggcccgagcGcatgtactcgttccggctgc	7	8	15	11	4	0	1	0	0	0	1	2	3	1	2	2	4	3	4	2	4	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:47498485G>A	uc004dik.3	-	4	785	c.463C>T	c.(463-465)CGC>TGC	p.R155C	ELK1_uc010nhv.2_Missense_Mutation_p.R155C|ELK1_uc010nhw.2_Missense_Mutation_p.R45C|ELK1_uc004dil.3_Intron	NM_001114123	NP_001107595	P19419	ELK1_HUMAN	ELK1 protein	155					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						AGGCCCGAGCGCATGTACTCG	0.657													3	7					0	0	1	0	0		A	47498485	A	A	47498485	3	1	49	1	0	0	0	0	1	0	0	0	5067	1087	38	1	839	1	ELK1	23	47498485	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	19591	47498485	107772075	1535	38215											
HDAC6	10013	broad.mit.edu	37	chrX	48681196	48681196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagatactggcgcagcttacGggtcatgagtgagtggattt	9	11	14	7	2	1	3	1	2	0	1	1	4	1	4	0	3	3	2	0	3	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:48681196G>A	uc011mmi.1	+	24	2599	c.2504G>A	c.(2503-2505)CGG>CAG	p.R835Q	HDAC6_uc004dks.1_Missense_Mutation_p.R835Q|HDAC6_uc010nig.1_Missense_Mutation_p.R683Q|HDAC6_uc004dkt.1_Missense_Mutation_p.R835Q|HDAC6_uc011mmk.1_Missense_Mutation_p.R816Q|HDAC6_uc004dkv.1_Missense_Mutation_p.R483Q|HDAC6_uc004dkw.1_Missense_Mutation_p.R483Q|HDAC6_uc004dkx.1_Missense_Mutation_p.R198Q	NM_006044	NP_006035	Q9UBN7	HDAC6_HUMAN	histone deacetylase 6	835					aggresome assembly|cellular response to hydrogen peroxide|Hsp90 deacetylation|lysosome localization|macroautophagy|misfolded or incompletely synthesized protein catabolic process|negative regulation of proteolysis|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|polyubiquitinated misfolded protein transport|positive regulation of apoptosis|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of epithelial cell migration|positive regulation of receptor biosynthetic process|positive regulation of signal transduction|regulation of androgen receptor signaling pathway|regulation of receptor activity|response to growth factor stimulus|response to toxin|transcription, DNA-dependent|tubulin deacetylation	aggresome|caveola|cell leading edge|cytosol|histone deacetylase complex|microtubule associated complex|perinuclear region of cytoplasm	actin binding|alpha-tubulin binding|beta-catenin binding|dynein complex binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|Hsp90 protein binding|microtubule binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|polyubiquitin binding|tau protein binding|tubulin deacetylase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4					Vorinostat(DB02546)	CGCAGCTTACGGGTCATGAGT	0.622													12	29					0	0	1	0	0		A	48681196	A	A	48681196	3	1	49	1	0	0	0	0	1	0	0	0	7027	1116	39	1	2594	1	HDAC6	23	48681196	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1182711	48681196	106589364	1536	38216											
CCNB3	85417	broad.mit.edu	37	chrX	50052659	50052659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaaagaggaagcatgccaCtcaggggacaatgtcccact	13	8	10	10	0	1	1	1	0	0	1	2	3	2	3	2	3	2	1	2	3	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:50052659C>T	uc004dox.3	+	6	1788	c.1490C>T	c.(1489-1491)ACT>ATT	p.T497I	CCNB3_uc004doy.2_Missense_Mutation_p.T497I|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	497					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					AAGCATGCCACTCAGGGGACA	0.433													5	47					0	0	1	0	0		T	50052659	T	T	50052659	3	4	49	1	0	0	0	0	1	0	0	0	2917	565	20	4	1504	4	CCNB3	23	50052659	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1371463	50052659	105217901	1537	38217											
KDM5C	8242	broad.mit.edu	37	chrX	53247093	53247093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgaggcgctgggctaccCgagcccaccgacggtccttg	6	7	14	14	4	0	1	0	1	0	0	1	3	1	1	4	3	2	3	4	3	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:53247093C>T	uc004drz.2	-	4	940	c.407G>A	c.(406-408)CGG>CAG	p.R136Q	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.R69Q|KDM5C_uc004dsa.2_Missense_Mutation_p.R136Q	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	136	ARID.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						CTGGGCTACCCGAGCCCACCG	0.483			N|F|S		clear cell renal carcinoma								5	46					0	0	1	0	0		T	53247093	T	T	53247093	3	4	49	1	0	0	0	0	1	0	0	0	8151	652	23	1	4465	1	KDM5C	23	53247093	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3194434	53247093	102023467	1538	38218											
SMC1A	8243	broad.mit.edu	37	chrX	53436412	53436412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgattctcttcaatttccCgcagcttttgcttgatcttg	5	19	6	11	1	4	2	1	2	3	0	6	2	5	2	1	0	2	3	1	0	1	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:53436412C>T	uc004dsg.2	-	8	1346	c.1277G>A	c.(1276-1278)CGG>CAG	p.R426Q	SMC1A_uc011moe.1_Missense_Mutation_p.R404Q|SMC1A_uc011mof.1_Missense_Mutation_p.R192Q	NM_006306	NP_006297	Q14683	SMC1A_HUMAN	structural maintenance of chromosomes 1A	426	Potential.				cell cycle checkpoint|cell division|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic sister chromatid cohesion|mitotic spindle organization|negative regulation of DNA endoreduplication|nuclear mRNA splicing, via spliceosome|response to radiation|signal transduction in response to DNA damage	cohesin core heterodimer|condensed chromosome kinetochore|condensed nuclear chromosome|cytoplasm|meiotic cohesin complex|nucleoplasm	ATP binding|chromatin binding|microtubule motor activity|protein heterodimerization activity			ovary(5)|central_nervous_system(1)	6						TTCAATTTCCCGCAGCTTTTG	0.493													35	88					0	0	1	0	0		T	53436412	T	T	53436412	3	4	49	1	0	0	0	0	1	0	0	0	14806	652	23	1	2496	1	SMC1A	23	53436412	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	189319	53436412	101834148	1539	38219											
HUWE1	10075	broad.mit.edu	37	chrX	53586416	53586416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgttgcctaccaggaggCgggcccgaccccggctttgt	5	8	13	15	4	0	0	0	0	0	0	1	2	0	1	5	4	2	2	5	4	1	3	rs142176360		TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:53586416C>T	uc004dsp.2	-	57	8216	c.7814G>A	c.(7813-7815)CGC>CAC	p.R2605H	HUWE1_uc004dsn.2_Missense_Mutation_p.R1429H|uc004dss.2_5'Flank|MIRLET7F2_hsa-let-7f-2|MI0000068_5'Flank	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2605					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						TACCAGGAGGCGGGCCCGACC	0.572													29	37					0	0	1	0	0		T	53586416	T	T	53586416	3	4	49	1	0	0	0	0	1	0	0	0	7477	768	27	1	5422	1	HUWE1	23	53586416	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	150004	53586416	101684144	1540	38220											
PHF8	23133	broad.mit.edu	37	chrX	54044103	54044103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagtgtcttaccaacatagtGttcaacatccctcacagtga	12	12	6	11	0	3	1	2	1	1	0	4	1	4	1	2	0	3	1	2	0	5	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:54044103G>A	uc004dsu.2	-	5	626	c.553C>T	c.(553-555)CAC>TAC	p.H185Y	PHF8_uc004dst.2_Missense_Mutation_p.H149Y|PHF8_uc004dsv.2_Missense_Mutation_p.H15Y|PHF8_uc004dsw.2_Missense_Mutation_p.H149Y|PHF8_uc004dsy.2_Missense_Mutation_p.H149Y	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	185					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						CCAACATAGTGTTCAACATCC	0.473													15	53					0	0	1	0	0		A	54044103	A	A	54044103	3	1	49	1	0	0	0	0	1	0	0	0	11859	1377	48	4	2871	4	PHF8	23	54044103	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	457687	54044103	101226457	1541	38221											
FAM120C	54954	broad.mit.edu	37	chrX	54162023	54162023	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggggaggatttccaagccTattattccgaaaacctgaag	14	9	10	8	1	0	1	0	1	0	0	2	4	2	3	4	3	2	0	4	3	7	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:54162023T>C	uc004dsz.3	-	6	1356	c.1273A>G	c.(1273-1275)AGG>GGG	p.R425G	FAM120C_uc011moh.1_Missense_Mutation_p.R425G	NM_017848	NP_060318	Q9NX05	F120C_HUMAN	hypothetical protein LOC54954	425										ovary(1)|central_nervous_system(1)	2						TTTCCAAGCCTATTATTCCGA	0.408													7	22					0	0	1	0	0		C	54162023	C	C	54162023	3	2	49	1	0	0	0	0	1	0	0	0	5429	1521	53	3	2061	3	FAM120C	23	54162023	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	117920	54162023	101108537	1542	38222											
FGD1	2245	broad.mit.edu	37	chrX	54482797	54482797	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagcagcttatgcattcgCtcctggcaaaagacagggaa	12	9	10	10	1	1	1	1	0	0	1	3	2	2	2	1	2	3	5	1	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:54482797C>A	uc004dtg.2	-	10	2432	c.1698G>T	c.(1696-1698)GAG>GAT	p.E566D	FGD1_uc011moi.1_Missense_Mutation_p.E324D	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	566					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						TATGCATTCGCTCCTGGCAAA	0.547													3	49					1.024e-07	1.08887e-07	1	1	0		A	54482797	A	A	54482797	3	1	49	1	0	0	0	0	1	0	0	0	5846	796	28	5	1223	5	FGD1	23	54482797	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	320774	54482797	100787763	1543	38223											
FGD1	2245	broad.mit.edu	37	chrX	54482983	54482983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtgctctgctgctgtggCgatcagctccagagactcta	7	10	12	12	2	3	1	1	0	2	1	4	4	4	1	1	1	4	4	1	1	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:54482983C>T	uc004dtg.2	-	9	2388	c.1654G>A	c.(1654-1656)GCC>ACC	p.A552T	FGD1_uc011moi.1_Missense_Mutation_p.A310T	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	552	DH.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						GCTGCTGTGGCGATCAGCTCC	0.537													7	42					0	0	1	0	0		T	54482983	T	T	54482983	3	4	49	1	0	0	0	0	1	0	0	0	5846	768	27	1	1271	1	FGD1	23	54482983	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	186	54482983	100787577	1544	38224											
PAGE2	203569	broad.mit.edu	37	chrX	55116967	55116967	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgaggaaaaacgtcaagaAgaggaaccaccaactgataa	20	4	9	8	1	1	4	1	2	0	2	1	6	1	6	2	2	3	0	2	2	7	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:55116967A>C	uc004duf.1	+	3	171	c.117A>C	c.(115-117)GAA>GAC	p.E39D		NM_207339	NP_997222	Q7Z2X7	GGEE2_HUMAN	P antigen family, member 2	39										ovary(2)	2						AACGTCAAGAAGAGGAACCAC	0.418													4	31					0	0	1	0	0		C	55116967	C	C	55116967	3	2	49	1	0	0	0	0	1	0	0	0	11409	69	3	5	123	5	PAGE2	23	55116967	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	633984	55116967	100153593	1545	38225											
USP51	158880	broad.mit.edu	37	chrX	55515232	55515232	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcttcacgtctcgaagaCgccttcgtagcccccgccgc	5	8	10	18	7	2	1	1	0	1	1	5	2	2	1	4	1	1	2	4	1	2	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:55515232C>T	uc004dun.1	-	2	220	c.141G>A	c.(139-141)GCG>GCA	p.A47A	USP51_uc011moo.1_5'UTR	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	47					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						GTCTCGAAGACGCCTTCGTAG	0.667													10	31					0	0	1	0	0		T	55515232	T	T	55515232	2	4	49	1	0	0	0	0	0	0	0	1	17109	523	19	1		1	USP51	23	55515232	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	398265	55515232	99755328	1546	38226											
ZXDB	158586	broad.mit.edu	37	chrX	57619668	57619668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaggccttaccagtgcgCgttttctggctgcaagaaga	9	9	14	9	2	1	3	0	0	1	3	1	4	1	3	2	3	3	3	2	3	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:57619668C>T	uc004dvd.2	+	1	1400	c.1187C>T	c.(1186-1188)GCG>GTG	p.A396V		NM_007157	NP_009088	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	396	C2H2-type 5.|Required for interaction with ZXDC (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						TACCAGTGCGCGTTTTCTGGC	0.542													24	76					0	0	1	0	0		T	57619668	T	T	57619668	3	4	49	1	0	0	0	0	1	0	0	0	18276	768	27	1	1189	1	ZXDB	23	57619668	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2104436	57619668	97650892	1547	38227											
FAM155B	27112	broad.mit.edu	37	chrX	68748853	68748853	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggctgtctacaaggcctgGctgtgctcagaatacttcag	9	10	11	11	0	3	1	2	0	1	1	3	1	3	1	1	3	3	3	1	3	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:68748853G>A	uc004dxk.2	+	2	927	c.879G>A	c.(877-879)TGG>TGA	p.W293*		NM_015686	NP_056501	O75949	F155B_HUMAN	transmembrane protein 28	293						integral to membrane				ovary(1)|breast(1)	2						ACAAGGCCTGGCTGTGCTCAG	0.592													7	43					0	0	1	0	0		A	68748853	A	A	68748853	4	1	49	1	0	0	0	0	0	1	0	0	5477	1212	42	2	885	2	FAM155B	23	68748853	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	11129185	68748853	86521707	1548	38228											
NLGN3	54413	broad.mit.edu	37	chrX	70384072	70384072	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggccctccgctgggtgagCgagaatattgccttcttcgg	6	10	13	12	3	1	2	0	1	1	1	3	3	2	2	3	3	2	1	3	3	2	4	rs151276700	byFrequency	TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:70384072C>T	uc004dzd.1	+	5	1007	c.807C>T	c.(805-807)AGC>AGT	p.S269S	NLGN3_uc010nlb.1_Silent_p.S229S|NLGN3_uc004dzb.2_Silent_p.S249S|NLGN3_uc004dzc.2_Silent_p.S132S|NLGN3_uc011mps.1_Silent_p.S229S|NLGN3_uc004dze.2_Silent_p.S67S|NLGN3_uc011mpr.1_Silent_p.S229S	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	269	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					GCTGGGTGAGCGAGAATATTG	0.577													6	61					0	0	1	0	0		T	70384072	T	T	70384072	2	4	49	1	0	0	0	0	0	0	0	1	10482	767	27	1		1	NLGN3	23	70384072	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1635219	70384072	84886488	1549	38229											
ABCB7	22	broad.mit.edu	37	chrX	74288914	74288914	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atattttgaccagcaagataAatgctacccttttgaggctc	12	13	7	9	0	0	3	0	2	0	1	1	3	0	3	2	1	3	3	2	1	5	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:74288914A>C	uc004eca.2	-	12	1612	c.1587T>G	c.(1585-1587)ATT>ATG	p.I529M	ABCB7_uc004ebz.2_Missense_Mutation_p.I530M|ABCB7_uc011mqn.1_Missense_Mutation_p.I503M|ABCB7_uc010nls.2_Missense_Mutation_p.I490M|ABCB7_uc010nlt.2_Missense_Mutation_p.I489M	NM_004299	NP_004290	O75027	ABCB7_HUMAN	ATP-binding cassette, sub-family B, member 7	529	ABC transporter.				cellular iron ion homeostasis	integral to membrane|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|heme transporter activity			ovary(1)	1						CAGCAAGATAAATGCTACCCT	0.383													4	101					0	0	1	0	0		C	74288914	C	C	74288914	3	2	49	1	0	0	0	0	1	0	0	0	46	10	1	5	691	5	ABCB7	23	74288914	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3904842	74288914	80981646	1550	38230											
ATRX	546	broad.mit.edu	37	chrX	76937066	76937066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactaaattttcagtcacagGcttaattttctgttcatcgc	10	16	5	10	1	4	0	3	0	1	0	5	0	4	0	0	1	0	2	0	1	3	7			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:76937066G>A	uc004ecp.3	-	9	3914	c.3682C>T	c.(3682-3684)CCT>TCT	p.P1228S	ATRX_uc004ecq.3_Missense_Mutation_p.P1190S|ATRX_uc004eco.3_Missense_Mutation_p.P1013S|ATRX_uc004ecr.2_Missense_Mutation_p.P1160S|ATRX_uc010nlx.1_Missense_Mutation_p.P1199S|ATRX_uc010nly.1_Missense_Mutation_p.P1173S	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1228					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TCAGTCACAGGCTTAATTTTC	0.358			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						43	149					0	0	1	0	0		A	76937066	A	A	76937066	3	1	49	1	0	0	0	0	1	0	0	0	1209	1203	42	2	3904	2	ATRX	23	76937066	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2648152	76937066	78333494	1551	38231											
PGK1	5230	broad.mit.edu	37	chrX	77381299	77381299	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaacaggtaaagtccttcCtggggtggatgctctcagca	12	9	11	9	0	1	0	1	0	1	0	4	1	3	1	2	4	3	3	2	4	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:77381299C>A	uc004ecz.3	+	11	1398	c.1226C>A	c.(1225-1227)CCT>CAT	p.P409H	PGK1_uc010nlz.2_RNA|PGK1_uc011mqq.1_Missense_Mutation_p.P381H	NM_000291	NP_000282	P00558	PGK1_HUMAN	phosphoglycerate kinase 1	409					gluconeogenesis|glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			upper_aerodigestive_tract(1)|ovary(1)	2						AAAGTCCTTCCTGGGGTGGAT	0.443													36	340					1.00776e-21	1.10737e-21	1	1	0		A	77381299	A	A	77381299	3	1	49	1	0	0	0	0	1	0	0	0	11809	681	24	5	1268	5	PGK1	23	77381299	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	444233	77381299	77889261	1552	38232											
SH3BGRL	6451	broad.mit.edu	37	chrX	80532615	80532615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgaaaatagtcgaccaGccacaggttaccccctgcca	12	7	7	15	1	0	1	0	1	0	0	1	2	0	1	6	1	4	1	6	1	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:80532615G>A	uc004eef.2	+	2	575	c.178G>A	c.(178-180)GCC>ACC	p.A60T	SH3BGRL_uc011mqs.1_RNA|SH3BGRL_uc010nml.2_RNA|SH3BGRL_uc010nmm.2_Missense_Mutation_p.A97T|SH3BGRL_uc010nmn.2_Missense_Mutation_p.A97T	NM_003022	NP_003013	O75368	SH3L1_HUMAN	SH3 domain binding glutamic acid-rich protein	60						cytoplasm|nucleus	SH3 domain binding|SH3/SH2 adaptor activity			ovary(1)	1		all_lung(315;5.94e-05)				TAGTCGACCAGCCACAGGTTA	0.398													5	44					0	0	1	0	0		A	80532615	A	A	80532615	3	1	49	1	0	0	0	0	1	0	0	0	14266	971	34	2	184	2	SH3BGRL	23	80532615	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3151316	80532615	74737945	1553	38233											
FAM133A	286499	broad.mit.edu	37	chrX	92964422	92964422	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggaaacatcaggcaccatgGggaagcgggataatcgggta	13	6	15	7	2	1	0	1	0	0	0	2	3	1	3	1	6	2	2	1	6	4	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:92964422G>T	uc004efr.1	+	4	317	c.4G>T	c.(4-6)GGG>TGG	p.G2W		NM_173698	NP_775969	Q8N9E0	F133A_HUMAN	hypothetical protein LOC286499	2											0						AGGCACCATGGGGAAGCGGGA	0.448													5	23					0.217242	0.217624	1	1	0		T	92964422	T	T	92964422	3	4	49	1	0	0	0	0	1	0	0	0	5454	1232	43	5	6	5	FAM133A	23	92964422	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	12431807	92964422	62306138	1554	38234											
PCDH19	57526	broad.mit.edu	37	chrX	99663156	99663156	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcgctgtccagcgggatgCgcgtgccagggctggctgcc	5	6	17	13	4	0	0	0	0	0	0	1	1	1	1	3	3	5	3	3	3	1	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:99663156C>T	uc010nmz.2	-	1	2116	c.440G>A	c.(439-441)CGC>CAC	p.R147H	PCDH19_uc004efw.3_Missense_Mutation_p.R147H|PCDH19_uc004efx.3_Missense_Mutation_p.R147H	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	147	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CAGCGGGATGCGCGTGCCAGG	0.597													41	101					0	0	1	0	0		T	99663156	T	T	99663156	3	4	49	1	0	0	0	0	1	0	0	0	11533	768	27	1	3030	1	PCDH19	23	99663156	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	6698734	99663156	55607404	1555	38235											
CSTF2	1478	broad.mit.edu	37	chrX	100078931	100078931	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgttacttcagaaccctcaActggcttatgctttgctgca	9	14	7	11	0	2	1	2	0	0	1	2	1	2	1	1	1	6	5	1	1	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:100078931A>T	uc004egh.2	+	5	559	c.501A>T	c.(499-501)CAA>CAT	p.Q167H	CSTF2_uc010nnd.2_Missense_Mutation_p.Q167H|CSTF2_uc004egi.2_Missense_Mutation_p.Q167H	NM_001325	NP_001316	P33240	CSTF2_HUMAN	cleavage stimulation factor subunit 2	167	Interactions with CSTF3 and SYMPK.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cleavage body|mRNA cleavage and polyadenylation specificity factor complex	nucleotide binding|protein binding|protein binding|RNA binding			skin(1)	1						AGAACCCTCAACTGGCTTATG	0.453													12	141					0	0	1	0	0		T	100078931	T	T	100078931	3	4	49	1	0	0	0	0	1	0	0	0	3987	40	2	5	519	5	CSTF2	23	100078931	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	415775	100078931	55191629	1556	38236											
TRMT2B	79979	broad.mit.edu	37	chrX	100292924	100292924	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acagagggtataataggatgGagaagacaagagagcctctc	16	6	13	6	0	1	4	0	0	1	4	2	7	1	5	1	3	1	1	1	3	5	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:100292924G>T	uc004egq.2	-	4	719	c.420C>A	c.(418-420)CTC>CTA	p.L140L	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Silent_p.L140L|TRMT2B_uc004egs.2_Silent_p.L140L|TRMT2B_uc004egt.2_Silent_p.L140L|TRMT2B_uc004egu.2_Silent_p.L21L|TRMT2B_uc004egv.2_Intron	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	140							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						TAATAGGATGGAGAAGACAAG	0.358													93	277					7.0969e-38	7.85893e-38	1	1	0		T	100292924	T	T	100292924	2	4	49	1	0	0	0	0	0	0	0	1	16592	1161	41	5		5	TRMT2B	23	100292924	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	213993	100292924	54977636	1557	38237											
TMEM35	59353	broad.mit.edu	37	chrX	100349693	100349693	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcatgacccttgtgcctggGcgtcccaaagatgtggccaa	8	9	12	12	1	1	2	1	1	0	1	2	2	2	2	4	2	1	0	4	2	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:100349693G>A	uc004egw.2	+	2	408	c.252G>A	c.(250-252)GGG>GGA	p.G84G		NM_021637	NP_067650	Q53FP2	TMM35_HUMAN	transmembrane protein 35	84						cytoplasmic membrane-bounded vesicle|integral to membrane|peroxisomal membrane					0						TTGTGCCTGGGCGTCCCAAAG	0.537													10	155					0	0	1	0	0		A	100349693	A	A	100349693	2	1	49	1	0	0	0	0	0	0	0	1	16182	1190	42	2		2	TMEM35	23	100349693	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	56769	100349693	54920867	1558	38238											
CENPI	2491	broad.mit.edu	37	chrX	100400187	100400187	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattttggatttctatgagaAggtagtacacattacatttt	12	18	7	4	0	1	1	0	1	1	1	1	3	1	2	0	2	2	2	0	2	6	10			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:100400187A>C	uc004egx.2	+	16	1970	c.1700A>C	c.(1699-1701)AAG>ACG	p.K567T	CENPI_uc011mrg.1_Missense_Mutation_p.K567T	NM_006733	NP_006724	Q92674	CENPI_HUMAN	centromere protein I	567					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	cytosol|kinetochore|nucleoplasm	protein binding			skin(1)	1						TTCTATGAGAAGGTAGTACAC	0.378													9	118					0	0	1	0	0		C	100400187	C	C	100400187	3	2	49	1	0	0	0	0	1	0	0	0	3236	86	3	5	1758	5	CENPI	23	100400187	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	50494	100400187	54870373	1559	38239											
ARMCX3	51566	broad.mit.edu	37	chrX	100880023	100880023	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcctggtgattggggcTggcgcctgctattgcattta	5	12	15	9	1	0	1	0	1	0	0	0	1	0	1	2	5	2	4	2	5	2	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:100880023T>C	uc004ehz.1	+	5	587	c.54T>C	c.(52-54)GCT>GCC	p.A18A	ARMCX3_uc004eia.1_Silent_p.A18A|ARMCX3_uc004eib.1_Silent_p.A18A|ARMCX3_uc004eic.1_Silent_p.A18A	NM_016607	NP_057691	Q9UH62	ARMX3_HUMAN	armadillo repeat containing, X-linked 3	18	Helical; (Potential).					integral to membrane	binding			ovary(1)|lung(1)	2						TGATTGGGGCTGGCGCCTGCT	0.532													8	73					0	0	1	0	0		C	100880023	C	C	100880023	2	2	49	1	0	0	0	0	0	0	0	1	962	1567	55	3		3	ARMCX3	23	100880023	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	479836	100880023	54390537	1560	38240											
GLRA4	441509	broad.mit.edu	37	chrX	102962291	102962291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtccacgtagagtttcCgcgtggtttctccttccctt	4	15	8	14	3	2	1	1	0	1	1	6	1	5	1	4	1	0	3	4	1	1	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:102962291C>T	uc011mse.1	-	9	1656	c.1235G>A	c.(1234-1236)CGG>CAG	p.R412Q		NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	412	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						GTAGAGTTTCCGCGTGGTTTC	0.512													19	58					0	0	1	0	0		T	102962291	T	T	102962291	3	4	49	1	0	0	0	0	1	0	0	0	6472	652	23	1	21	1	GLRA4	23	102962291	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	2082268	102962291	52308269	1561	38241											
TEX13A	56157	broad.mit.edu	37	chrX	104464985	104464985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatattctcaagatagaactCggggcctttcgtgtgcctgg	8	13	11	9	2	1	2	1	0	1	2	4	2	1	2	2	3	2	0	2	3	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:104464985C>T	uc004ema.2	-	2	209	c.97G>A	c.(97-99)GAG>AAG	p.E33K	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Missense_Mutation_p.E33K	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	33						intracellular	zinc ion binding			ovary(2)	2						AGATAGAACTCGGGGCCTTTC	0.552													10	53					0	0	1	0	0		T	104464985	T	T	104464985	3	4	49	1	0	0	0	0	1	0	0	0	15801	893	31	1	1142	1	TEX13A	23	104464985	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1502694	104464985	50805575	1562	38242											
RNF128	79589	broad.mit.edu	37	chrX	105970509	105970509	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttggccctcatccaacgCggcgggggctgcaccttcgc	4	8	14	15	4	1	0	1	0	0	0	3	0	2	0	3	5	2	3	3	5	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:105970509C>T	uc004eml.2	+	1	616	c.366C>T	c.(364-366)CGC>CGT	p.R122R	RNF128_uc004emk.2_Intron	NM_194463	NP_919445	Q8TEB7	RN128_HUMAN	ring finger protein 128 isoform 1	122	PA.					endomembrane system|integral to membrane|perinuclear region of cytoplasm	zinc ion binding			ovary(1)|central_nervous_system(1)	2						TCATCCAACGCGGCGGGGGCT	0.612													17	47					0	0	1	0	0		T	105970509	T	T	105970509	2	4	49	1	0	0	0	0	0	0	0	1	13461	755	27	1		1	RNF128	23	105970509	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1505524	105970509	49300051	1563	38243											
MORC4	79710	broad.mit.edu	37	chrX	106184843	106184843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgacgtggatacgtagccGcgtaagctttgccaaagccc	9	8	12	12	4	0	1	0	1	0	0	0	2	0	2	3	1	5	4	3	1	4	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:106184843G>A	uc004emu.3	-	17	2923	c.2680C>T	c.(2680-2682)CGG>TGG	p.R894W	MORC4_uc004emp.3_Intron|MORC4_uc004emv.3_Missense_Mutation_p.A881V|MORC4_uc004emw.3_Missense_Mutation_p.A629V	NM_024657	NP_078933	Q8TE76	MORC4_HUMAN	zinc finger, CW type with coiled-coil domain 2	894							ATP binding|zinc ion binding			ovary(1)	1						ATACGTAGCCGCGTAAGCTTT	0.478													17	30					0	0	1	0	0		A	106184843	A	A	106184843	3	1	49	1	0	0	0	0	1	0	0	0	9722	1087	38	1	137	1	MORC4	23	106184843	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	214334	106184843	49085717	1564	38244											
COL4A5	1287	broad.mit.edu	37	chrX	107866040	107866040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctcaaaaggagagaaggggGaacctggcttaccaggtgag	13	5	16	7	0	1	2	1	1	0	1	1	5	1	4	2	5	2	2	2	5	5	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:107866040G>A	uc004enz.1	+	33	3104	c.2902G>A	c.(2902-2904)GAA>AAA	p.E968K	COL4A5_uc011mso.1_Missense_Mutation_p.E968K|COL4A5_uc004eob.1_Missense_Mutation_p.E576K	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	968	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						AGAGAAGGGGGAACCTGGCTT	0.403									Alport_syndrome_with_Diffuse_Leiomyomatosis				15	49					0	0	1	0	0		A	107866040	A	A	107866040	3	1	49	1	0	0	0	0	1	0	0	0	3697	1175	41	4	3032	4	COL4A5	23	107866040	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	1681197	107866040	47404520	1565	38245											
IRS4	8471	broad.mit.edu	37	chrX	107976205	107976205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagggctaaagtcggctctgCagccgaagcgacagccgggg	9	4	17	11	4	1	0	0	0	1	0	2	3	1	0	2	4	4	3	2	4	3	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:107976205C>T	uc004eoc.2	-	1	3403	c.3370G>A	c.(3370-3372)GCA>ACA	p.A1124T		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	1124	Ala-rich.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						GTCGGCTCTGCAGCCGAAGCG	0.632													8	63					0	0	1	0	0		T	107976205	T	T	107976205	3	4	49	1	0	0	0	0	1	0	0	0	7858	710	25	2	407	2	IRS4	23	107976205	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	110165	107976205	47294355	1566	38246											
IRS4	8471	broad.mit.edu	37	chrX	107979509	107979509	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctgctagagctgccgcTgccgccgctgctgcacctct	4	9	11	17	3	1	1	0	0	1	1	1	1	1	1	4	0	7	7	4	0	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:107979509T>C	uc004eoc.2	-	1	99	c.66A>G	c.(64-66)GCA>GCG	p.A22A		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	22	Poly-Ala.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						GAGCTGCCGCTGCCGCCGCTG	0.617													20	35					0	0	1	0	0		C	107979509	C	C	107979509	2	2	49	1	0	0	0	0	0	0	0	1	7858	1567	55	3		3	IRS4	23	107979509	Silent	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3304	107979509	47291051	1567	38247											
RGAG1	57529	broad.mit.edu	37	chrX	109694908	109694908	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagcactaatgacggccctaCcctctggagtgatgcccacc	9	7	9	16	1	1	2	0	2	1	0	1	3	1	3	4	2	3	1	4	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:109694908C>A	uc004eor.1	+	3	1309	c.1063C>A	c.(1063-1065)CCC>ACC	p.P355T	RGAG1_uc011msr.1_Missense_Mutation_p.P355T	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	355								p.P355H(1)		lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GACGGCCCTACCCTCTGGAGT	0.537													25	313					2.12542e-12	2.30883e-12	1	1	0		A	109694908	A	A	109694908	3	1	49	1	0	0	0	0	1	0	0	0	13299	507	18	5	1065	5	RGAG1	23	109694908	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	1715399	109694908	45575652	1568	38248											
DCX	1641	broad.mit.edu	37	chrX	110653321	110653321	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatcaatggtgtaaatgtaAcgcactccctgaggcaggtt	11	10	10	10	1	1	1	1	1	0	0	2	1	2	1	2	3	1	5	2	3	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:110653321A>G	uc004epd.2	-	2	721	c.549T>C	c.(547-549)CGT>CGC	p.R183R	DCX_uc011msv.1_Silent_p.R183R|DCX_uc004epe.2_Silent_p.R102R|DCX_uc004epf.2_Silent_p.R102R|DCX_uc004epg.2_Silent_p.R102R	NM_000555	NP_000546	O43602	DCX_HUMAN	doublecortin isoform a	183	Doublecortin 1.		R -> S (in LISX1).		axon guidance|central nervous system development|intracellular signal transduction	cytosol|microtubule associated complex	microtubule binding			central_nervous_system(2)|lung(1)|skin(1)	4						TGTAAATGTAACGCACTCCCT	0.522													23	114					0	0	1	0	0		G	110653321	G	G	110653321	2	3	49	1	0	0	0	0	0	0	0	1	4321	30	2	3		3	DCX	23	110653321	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	958413	110653321	44617239	1569	38249											
IL13RA1	3597	broad.mit.edu	37	chrX	117907898	117907898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcattgttccagtcatcGtcgcaggtgcaatcatagta	10	13	8	10	2	3	0	3	0	0	0	6	0	4	0	1	1	2	4	1	1	4	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:117907898G>A	uc004eqs.2	+	9	1109	c.1066G>A	c.(1066-1068)GTC>ATC	p.V356I	IL13RA1_uc004eqt.1_Missense_Mutation_p.V356I	NM_001560	NP_001551	P78552	I13R1_HUMAN	interleukin 13 receptor, alpha 1 precursor	356	Helical; (Potential).					interleukin-13 receptor complex	cytokine receptor activity				0						TCCAGTCATCGTCGCAGGTGC	0.423													57	180					0	0	1	0	0		A	117907898	A	A	117907898	3	1	49	1	0	0	0	0	1	0	0	0	7645	1145	40	1	1100	1	IL13RA1	23	117907898	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	7254577	117907898	37362662	1570	38250											
KIAA1210	57481	broad.mit.edu	37	chrX	118222607	118222607	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagctgctgcaatcatcagaAgtgttgtacttttcaacata	12	13	8	8	0	3	1	3	0	0	1	3	2	3	1	0	0	5	5	0	0	5	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:118222607A>G	uc004era.3	-	11	2586	c.2586T>C	c.(2584-2586)ACT>ACC	p.T862T		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	862										ovary(4)|skin(1)	5						AATCATCAGAAGTGTTGTACT	0.498													3	32					0	0	1	0	0		G	118222607	G	G	118222607	2	3	49	1	0	0	0	0	0	0	0	1	8230	59	3	3		3	KIAA1210	23	118222607	Silent	SNP	A	TCGA-BR-7707-01A-11D-2053-08	314709	118222607	37047953	1571	38251											
SLC25A43	203427	broad.mit.edu	37	chrX	118586945	118586945	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aattgaccccaggagtcgatCagagtttgcagccccaggaa	12	7	11	11	1	1	2	1	1	0	1	2	5	1	4	4	2	2	2	4	2	2	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:118586945C>T	uc004erd.2	+	5	1287	c.943C>T	c.(943-945)CAG>TAG	p.Q315*	SLC25A43_uc011mtt.1_3'UTR	NM_145305	NP_660348	Q8WUT9	S2543_HUMAN	mitochondrial solute carrier protein	315					transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			skin(1)	1						AGGAGTCGATCAGAGTTTGCA	0.378													5	163					0	0	1	0	0		T	118586945	T	T	118586945	4	4	49	1	0	0	0	0	0	1	0	0	14533	827	29	4	961	4	SLC25A43	23	118586945	Nonsense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	364338	118586945	36683615	1572	38252											
SLC25A5	292	broad.mit.edu	37	chrX	118603924	118603924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaccctcttgattttgccCgtacccgtctagcagctgat	6	14	8	13	2	2	2	0	2	2	0	2	2	2	2	3	0	5	4	3	0	3	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:118603924C>T	uc004erh.3	+	2	528	c.412C>T	c.(412-414)CGT>TGT	p.R138C	LOC100303728_uc004ere.1_5'Flank|LOC100303728_uc004erg.1_5'Flank	NM_001152	NP_001143	P05141	ADT2_HUMAN	adenine nucleotide translocator 2	138	Solcar 2.|Helical; Name=3; (By similarity).				chromosome segregation|energy reserve metabolic process|interspecies interaction between organisms|regulation of insulin secretion|viral reproduction	integral to plasma membrane|mitochondrial inner membrane|mitochondrial nucleoid|MMXD complex	adenine transmembrane transporter activity|protein binding			ovary(1)	1					Clodronate(DB00720)	TGATTTTGCCCGTACCCGTCT	0.522													14	131					0	0	1	0	0		T	118603924	T	T	118603924	3	4	49	1	0	0	0	0	1	0	0	0	14537	652	23	1	418	1	SLC25A5	23	118603924	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	16979	118603924	36666636	1573	38253											
GRIA3	2892	broad.mit.edu	37	chrX	122538696	122538696	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattgtccatcgttggtgaCgggaaatatggtgcaaggga	12	10	14	5	2	0	1	0	1	0	0	2	3	1	3	1	4	1	2	1	4	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:122538696C>T	uc004etq.3	+	11	1724	c.1431C>T	c.(1429-1431)GAC>GAT	p.D477D	GRIA3_uc004etr.3_Silent_p.D477D|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Silent_p.D461D	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	477	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	TCGTTGGTGACGGGAAATATG	0.398													14	234					0	0	1	0	0		T	122538696	T	T	122538696	2	4	49	1	0	0	0	0	0	0	0	1	6785	535	19	1		1	GRIA3	23	122538696	Silent	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3934772	122538696	32731864	1574	38254											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299634	125299634	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgagggtgcccaggtccaGctggcgctccgtcagcagct	5	8	15	13	2	1	1	1	1	0	0	3	1	3	1	3	3	4	5	3	3	0	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:125299634G>T	uc004euk.1	-	1	301	c.274C>A	c.(274-276)CTG>ATG	p.L92M		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	92										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						CCCAGGTCCAGCTGGCGCTCC	0.677													9	51					9.31168e-06	9.77412e-06	1	1	0		T	125299634	T	T	125299634	3	4	49	1	0	0	0	0	1	0	0	0	4268	962	34	5	1121	5	DCAF12L2	23	125299634	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2760938	125299634	29970926	1575	38255											
DCAF12L1	139170	broad.mit.edu	37	chrX	125686437	125686437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaaccttcagatagtgcGccatcgagcgatacgtcgcc	9	7	10	15	6	1	1	1	0	0	1	3	4	1	1	4	0	4	0	4	0	3	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:125686437G>A	uc004eul.2	-	1	406	c.155C>T	c.(154-156)GCG>GTG	p.A52V		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	52										skin(3)|ovary(1)	4						CAGATAGTGCGCCATCGAGCG	0.711													16	67					0	0	1	0	0		A	125686437	A	A	125686437	3	1	49	1	0	0	0	0	1	0	0	0	4267	1087	38	1	1240	1	DCAF12L1	23	125686437	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	386803	125686437	29584123	1576	38256											
IGSF1	3547	broad.mit.edu	37	chrX	130412510	130412510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatggcagtggtagctccCggtgtggctctgggtcaggg	5	10	18	8	1	2	1	1	1	1	0	3	1	3	1	1	6	1	4	1	6	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:130412510C>T	uc004ewd.2	-	12	2204	c.1966G>A	c.(1966-1968)GGG>AGG	p.G656R	IGSF1_uc004ewe.3_Missense_Mutation_p.G650R|IGSF1_uc004ewf.2_Missense_Mutation_p.G636R	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	656	Extracellular (Potential).|Ig-like C2-type 6.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						TGGTAGCTCCCGGTGTGGCTC	0.632													5	126					0	0	1	0	0		T	130412510	T	T	130412510	3	4	49	1	0	0	0	0	1	0	0	0	7612	652	23	1	2080	1	IGSF1	23	130412510	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	4726073	130412510	24858050	1577	38257											
GPR112	139378	broad.mit.edu	37	chrX	135390962	135390962	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaacacatcatatatcagaAgctttatggattgattctca	15	13	6	7	0	3	3	3	1	1	2	4	4	3	4	0	1	2	1	0	1	5	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:135390962A>C	uc004ezu.1	+	4	317	c.26A>C	c.(25-27)AAG>ACG	p.K9T	GPR112_uc010nsb.1_Missense_Mutation_p.K9T	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	9					neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					ATATATCAGAAGCTTTATGGA	0.308													13	140					0	0	1	0	0		C	135390962	C	C	135390962	3	2	49	1	0	0	0	0	1	0	0	0	6644	72	3	5	28	5	GPR112	23	135390962	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	4978452	135390962	19879598	1578	38258											
BRS3	680	broad.mit.edu	37	chrX	135574170	135574170	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtattggtgttggtggctcTgtttgccctctgctggttgc	1	17	15	8	0	2	0	0	0	2	0	2	0	2	0	1	5	3	6	1	5	1	5			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:135574170T>A	uc004ezv.1	+	3	985	c.836T>A	c.(835-837)CTG>CAG	p.L279Q		NM_001727	NP_001718	P32247	BRS3_HUMAN	bombesin-like receptor 3	279	Helical; Name=6; (Potential).				adult feeding behavior|glucose metabolic process|regulation of blood pressure	integral to membrane|plasma membrane	bombesin receptor activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TTGGTGGCTCTGTTTGCCCTC	0.393													33	94					0	0	1	0	0		A	135574170	A	A	135574170	3	1	49	1	0	0	0	0	1	0	0	0	1525	1580	55	5	846	5	BRS3	23	135574170	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	183208	135574170	19696390	1579	38259											
ATP11C	286410	broad.mit.edu	37	chrX	138864718	138864718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctagttacttgtcttcaactGcagtggctccaattaaattc	10	15	6	10	0	2	0	1	0	1	0	4	0	3	0	1	1	3	3	1	1	6	6			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:138864718G>A	uc004faz.2	-	18	2048	c.1949C>T	c.(1948-1950)GCA>GTA	p.A650V	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Missense_Mutation_p.A650V	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	650	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					GTCTTCAACTGCAGTGGCTCC	0.348													11	53					0	0	1	0	0		A	138864718	A	A	138864718	3	1	49	1	0	0	0	0	1	0	0	0	1122	1319	46	2	1564	2	ATP11C	23	138864718	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	3290548	138864718	16405842	1580	38260											
MAGEC3	139081	broad.mit.edu	37	chrX	140985571	140985571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagatgatgctactgccatgGccagtgcaagccccagtgtc	9	8	11	13	0	0	2	0	1	0	1	1	2	0	2	4	1	5	2	4	1	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:140985571G>A	uc011mwp.1	+	8	1885	c.1885G>A	c.(1885-1887)GCC>ACC	p.A629T	MAGEC3_uc004fbs.2_3'UTR|MAGEC3_uc010nsj.2_3'UTR	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	629	MAGE 2.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TACTGCCATGGCCAGTGCAAG	0.507													20	88					0	0	1	0	0		A	140985571	A	A	140985571	3	1	49	1	0	0	0	0	1	0	0	0	9200	1203	42	2	2282	2	MAGEC3	23	140985571	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	2120853	140985571	14284989	1581	38261											
SLITRK2	84631	broad.mit.edu	37	chrX	144905442	144905442	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacggccctaaccaggctgaAtctgagaaacaaccattttt	13	9	8	11	1	1	2	0	2	1	1	1	4	1	2	3	2	3	1	3	2	4	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:144905442A>G	uc004fcd.2	+	5	2489	c.1499A>G	c.(1498-1500)AAT>AGT	p.N500S	SLITRK2_uc010nsp.2_Missense_Mutation_p.N500S|SLITRK2_uc010nso.2_Missense_Mutation_p.N500S|SLITRK2_uc011mwq.1_Missense_Mutation_p.N500S|SLITRK2_uc011mwr.1_Missense_Mutation_p.N500S|SLITRK2_uc011mws.1_Missense_Mutation_p.N500S|SLITRK2_uc004fcg.2_Missense_Mutation_p.N500S|SLITRK2_uc011mwt.1_Missense_Mutation_p.N500S	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	500	Extracellular (Potential).|LRR 12.					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					ACCAGGCTGAATCTGAGAAAC	0.478													11	122					0	0	1	0	0		G	144905442	G	G	144905442	3	3	49	1	0	0	0	0	1	0	0	0	14768	101	4	3	1501	3	SLITRK2	23	144905442	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3919871	144905442	10365118	1582	38262											
AFF2	2334	broad.mit.edu	37	chrX	148049194	148049194	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttattacatgcaagaagctaAgaagctgaagcacaaagctg	17	8	9	7	0	0	3	0	1	0	2	0	3	0	3	0	0	6	5	0	0	8	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:148049194A>C	uc004fcp.2	+	15	3718	c.3239A>C	c.(3238-3240)AAG>ACG	p.K1080T	AFF2_uc004fcq.2_Missense_Mutation_p.K1070T|AFF2_uc004fcr.2_Missense_Mutation_p.K1041T|AFF2_uc011mxb.1_Missense_Mutation_p.K1045T|AFF2_uc004fcs.2_Missense_Mutation_p.K1045T|AFF2_uc011mxc.1_Missense_Mutation_p.K721T	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	1080					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					CAAGAAGCTAAGAAGCTGAAG	0.343													7	49					0	0	1	0	0		C	148049194	C	C	148049194	3	2	49	1	0	0	0	0	1	0	0	0	357	72	3	5	3352	5	AFF2	23	148049194	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	3143752	148049194	7221366	1583	38263											
MAGEA12	4111	broad.mit.edu	37	chrX	151900176	151900176	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagtcgccctcttttgcgaTtatggccaggacgattatca	9	12	9	11	3	2	0	1	0	1	0	3	3	2	1	2	2	1	0	2	2	2	4			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:151900176T>C	uc010ntp.2	-	3	979	c.625A>G	c.(625-627)ATC>GTC	p.I209V	MAGEA12_uc004fgb.2_Intron|MAGEA12_uc004fgc.2_Missense_Mutation_p.I209V	NM_005367	NP_005358	P43365	MAGAC_HUMAN	melanoma antigen family A, 12	209	MAGE.									skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TCTTTTGCGATTATGGCCAGG	0.572													17	229					0	0	1	0	0		C	151900176	C	C	151900176	3	2	49	1	0	0	0	0	1	0	0	0	9184	1493	52	3	323	3	MAGEA12	23	151900176	Missense_Mutation	SNP	T	TCGA-BR-7707-01A-11D-2053-08	3850982	151900176	3370384	1584	38264											
ATP2B3	492	broad.mit.edu	37	chrX	152818575	152818575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatggtgaggaagatcatcGagccgatggcttgcgatggc	10	8	15	8	3	1	2	1	1	0	1	2	6	1	3	1	4	2	1	1	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:152818575G>A	uc004fht.1	+	11	2032	c.1906G>A	c.(1906-1908)GAG>AAG	p.E636K	ATP2B3_uc004fhs.1_Missense_Mutation_p.E636K	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	636	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GAAGATCATCGAGCCGATGGC	0.627													13	42					0	0	1	0	0		A	152818575	A	A	152818575	3	1	49	1	0	0	0	0	1	0	0	0	1142	1059	37	1	1948	1	ATP2B3	23	152818575	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	918399	152818575	2451985	1585	38265											
ABCD1	215	broad.mit.edu	37	chrX	153006123	153006123	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactcggagcaggacctggAagccatcctggacgtcgtgc	8	7	13	13	3	0	0	0	0	0	0	3	4	1	4	3	4	4	1	3	4	2	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:153006123A>G	uc004fif.2	+	7	2129	c.1730A>G	c.(1729-1731)GAA>GGA	p.E577G	ABCD1_uc004fig.2_Missense_Mutation_p.E77G|ABCD1_uc004fih.2_5'Flank	NM_000033	NP_000024	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member	577	ABC transporter.				fatty acid beta-oxidation using acyl-CoA oxidase|peroxisomal membrane transport|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|identical protein binding|peroxisomal fatty-acyl-CoA transporter activity				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CAGGACCTGGAAGCCATCCTG	0.642													11	131					0	0	1	0	0		G	153006123	G	G	153006123	3	3	49	1	0	0	0	0	1	0	0	0	60	246	9	3	1756	3	ABCD1	23	153006123	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	187548	153006123	2264437	1586	38266											
PLXNB3	5365	broad.mit.edu	37	chrX	153038720	153038720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccggaggccatcgtgtgccGtaccaggccccaggctgccc	5	6	13	17	3	0	0	0	0	0	0	2	1	1	1	7	4	3	2	7	4	1	1			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:153038720G>A	uc004fii.2	+	18	3116	c.2942G>A	c.(2941-2943)CGT>CAT	p.R981H	PLXNB3_uc010nuk.2_Missense_Mutation_p.R1004H|PLXNB3_uc011mzd.1_Missense_Mutation_p.R620H|PLXNB3_uc004fij.1_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	981	IPT/TIG 2.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					ATCGTGTGCCGTACCAGGCCC	0.667													7	23					0	0	1	0	0		A	153038720	A	A	153038720	3	1	49	1	0	0	0	0	1	0	0	0	12144	1145	40	1	3126	1	PLXNB3	23	153038720	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	32597	153038720	2231840	1587	38267											
HCFC1	3054	broad.mit.edu	37	chrX	153225829	153225829	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgggggatgttgtcctccAgtgtatccatcaggatggtc	7	11	13	10	1	1	0	1	0	0	0	5	2	4	2	3	4	0	2	3	4	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:153225829A>G	uc004fjp.2	-	7	1469	c.941T>C	c.(940-942)CTG>CCG	p.L314P		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	314					cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GTTGTCCTCCAGTGTATCCAT	0.632													5	37					0	0	1	0	0		G	153225829	G	G	153225829	3	3	49	1	0	0	0	0	1	0	0	0	7007	188	7	3	5246	3	HCFC1	23	153225829	Missense_Mutation	SNP	A	TCGA-BR-7707-01A-11D-2053-08	187109	153225829	2044731	1588	38268											
IRAK1	3654	broad.mit.edu	37	chrX	153281508	153281508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggtcctggcaccgtgcGtcttcacagccctctgacca	6	10	9	16	2	3	1	1	1	2	0	4	1	4	1	4	2	2	1	4	2	0	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:153281508G>A	uc004fjs.1	-	10	1356	c.1277C>T	c.(1276-1278)ACG>ATG	p.T426M	IRAK1_uc004fjr.1_Missense_Mutation_p.T426M|IRAK1_uc004fjt.1_Missense_Mutation_p.T426M|IRAK1_uc010nur.2_Intron|IRAK1_uc004fju.2_Missense_Mutation_p.T452M	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	426	Protein kinase.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGCACCGTGCGTCTTCACAGC	0.642													25	67					0	0	1	0	0		A	153281508	A	A	153281508	3	1	49	1	0	0	0	0	1	0	0	0	7837	1145	40	1	881	1	IRAK1	23	153281508	Missense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	55679	153281508	1989052	1589	38269											
TKTL1	8277	broad.mit.edu	37	chrX	153539311	153539311	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctttgatgtgaaccgcctgGgacacagtggtgcattgccc	7	11	12	11	1	1	2	0	2	1	0	1	3	1	3	3	2	3	1	3	2	1	2			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:153539311G>T	uc004fkg.2	+	4	661	c.475G>T	c.(475-477)GGA>TGA	p.G159*	TKTL1_uc011mzl.1_Nonsense_Mutation_p.G153*|TKTL1_uc011mzm.1_Intron|TKTL1_uc004fkh.2_Nonsense_Mutation_p.G103*	NM_012253	NP_036385	P51854	TKTL1_HUMAN	transketolase-like 1 isoform a	159					glucose catabolic process|thiamine metabolic process	cytoplasm|nucleus	metal ion binding|transketolase activity			ovary(3)|skin(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.82e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GAACCGCCTGGGACACAGTGG	0.512													11	73					4.36969e-10	4.69023e-10	1	1	0		T	153539311	T	T	153539311	4	4	49	1	0	0	0	0	0	1	0	0	15960	1233	43	5	489	5	TKTL1	23	153539311	Nonsense_Mutation	SNP	G	TCGA-BR-7707-01A-11D-2053-08	257803	153539311	1731249	1590	38270											
RAB39B	116442	broad.mit.edu	37	chrX	154490316	154490316	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgcagcagccagtttctcGgcctcgtggcgagtcacttg	6	11	12	12	3	2	0	1	0	1	0	4	1	2	0	2	2	3	3	2	2	1	3			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:154490316G>T	uc004fne.2	-	2	693	c.414C>A	c.(412-414)GCC>GCA	p.A138A		NM_171998	NP_741995	Q96DA2	RB39B_HUMAN	RAB39B, member RAS oncogene family	138					protein transport|small GTPase mediated signal transduction|synapse organization|vesicle-mediated transport	Golgi apparatus|plasma membrane	GTP binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CCAGTTTCTCGGCCTCGTGGC	0.488													16	71					4.14922e-12	4.50441e-12	1	1	0		T	154490316	T	T	154490316	2	4	49	1	0	0	0	0	0	0	0	1	12955	1103	39	5		5	RAB39B	23	154490316	Silent	SNP	G	TCGA-BR-7707-01A-11D-2053-08	951005	154490316	780244	1591	38271											
RAB39B	116442	broad.mit.edu	37	chrX	154493486	154493486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacctgggcaaagcgaccctCggtgaagcggcggatcaggc	10	4	15	12	4	1	1	1	1	0	0	2	3	1	2	2	5	3	1	2	5	3	0			TCGA-BR-7707-01A-11D-2053-08	TCGA-BR-7707-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fff6694b-3619-4051-a868-c1fc86d59ce4	56b185dd-0b23-4ebb-8961-0f7538a940ab	g.chrX:154493486C>T	uc004fne.2	-	1	367	c.88G>A	c.(88-90)GAG>AAG	p.E30K		NM_171998	NP_741995	Q96DA2	RB39B_HUMAN	RAB39B, member RAS oncogene family	30					protein transport|small GTPase mediated signal transduction|synapse organization|vesicle-mediated transport	Golgi apparatus|plasma membrane	GTP binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					AAGCGACCCTCGGTGAAGCGG	0.602													37	145					0	0	1	0	0		T	154493486	T	T	154493486	3	4	49	1	0	0	0	0	1	0	0	0	12955	893	31	1	561	1	RAB39B	23	154493486	Missense_Mutation	SNP	C	TCGA-BR-7707-01A-11D-2053-08	3170	154493486	777074	1592	38272											
AGRN	375790	broad.mit.edu	37	chr1	980791	980791	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcacctgtgacccagcCacaggccagtgctcctgccg	6	5	13	17	2	0	1	0	1	0	0	1	1	1	1	6	3	3	2	6	3	0	0			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:980791C>T	uc001ack.1	+	14	2474	c.2424C>T	c.(2422-2424)GCC>GCT	p.A808A		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	808	Laminin EGF-like 1.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		GTGACCCAGCCACAGGCCAGT	0.667													9	23					0	0	0.069234	0	0		T	980791	T	T	980791	2	4	50	1	0	0	0	0	0	0	0	1	397	581	21	4		4	AGRN	1	980791	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08		980791	248269830	1	38273											
HSPG2	3339	broad.mit.edu	37	chr1	22211066	22211066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcagcctgatctggtcccGgaagcggcgggtgctctggc	4	7	17	13	4	2	1	0	1	2	0	3	2	3	2	2	5	3	2	2	5	1	0			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:22211066G>A	uc001bfj.2	-	13	1649	c.1609C>T	c.(1609-1611)CGG>TGG	p.R537W	HSPG2_uc009vqd.2_Missense_Mutation_p.R538W	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	537					angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	ATCTGGTCCCGGAAGCGGCGG	0.667													4	132					0	0	0.009096	0	0		A	22211066	A	A	22211066	3	1	50	1	0	0	0	0	1	0	0	0	7446	1115	39	1	11906	1	HSPG2	1	22211066	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	21230275	22211066	227039555	2	38274											
OSCP1	127700	broad.mit.edu	37	chr1	36898072	36898072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cttgctgcaggatggttgggGagtctcggatgaatcccttg	6	12	15	8	1	1	1	0	1	1	0	3	4	2	4	1	5	2	3	1	5	1	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:36898072G>A	uc001cap.2	-	4	498	c.416C>T	c.(415-417)TCC>TTC	p.S139F	OSCP1_uc001caq.2_Missense_Mutation_p.S129F|OSCP1_uc001car.2_Missense_Mutation_p.S129F	NM_145047	NP_659484	Q8WVF1	OSCP1_HUMAN	oxidored-nitro domain-containing protein isoform	139					transport	basal plasma membrane				ovary(2)|central_nervous_system(1)|pancreas(1)	4						GATGGTTGGGGAGTCTCGGAT	0.502													54	55					0	0	0.139131	0	0		A	36898072	A	A	36898072	3	1	50	1	0	0	0	0	1	0	0	0	11305	1174	41	4	945	4	OSCP1	1	36898072	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	14687006	36898072	212352549	3	38275											
PTPRF	5792	broad.mit.edu	37	chr1	44057112	44057112	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgacgcggggctcctcacGaccgtgggcagcctgctgcc	5	5	14	17	5	1	0	1	0	0	0	2	2	2	0	5	3	3	3	5	3	0	0			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:44057112G>A	uc001cjr.2	+	9	1759	c.1419G>A	c.(1417-1419)ACG>ACA	p.T473T	PTPRF_uc001cjs.2_Silent_p.T473T|PTPRF_uc001cju.2_Silent_p.T44T|PTPRF_uc009vwt.2_Silent_p.T44T|PTPRF_uc001cjv.2_Silent_p.T44T	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	473	Extracellular (Potential).|Fibronectin type-III 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GGCTCCTCACGACCGTGGGCA	0.687													14	6					0	0	0.038395	0	0		A	44057112	A	A	44057112	2	1	50	1	0	0	0	0	0	0	0	1	12826	1045	37	1		1	PTPRF	1	44057112	Silent	SNP	G	TCGA-BR-7715-01A-11D-2053-08	7159040	44057112	205193509	4	38276											
SGIP1	84251	broad.mit.edu	37	chr1	67195054	67195054	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgacttttcgggtgataaAtttcagcaggttagaacacg	11	13	10	7	2	2	3	1	2	1	1	3	3	2	3	0	2	2	2	0	2	4	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:67195054A>C	uc001dcr.2	+	20	2067	c.1850A>C	c.(1849-1851)AAT>ACT	p.N617T	SGIP1_uc010opd.1_Missense_Mutation_p.N217T|SGIP1_uc001dcs.2_Missense_Mutation_p.N217T|SGIP1_uc001dct.2_Missense_Mutation_p.N219T|SGIP1_uc009wat.2_Missense_Mutation_p.N411T|SGIP1_uc001dcu.2_Missense_Mutation_p.N122T	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	617					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						CGGGTGATAAATTTCAGCAGG	0.438													83	56					0	0	0.139131	0	0		C	67195054	C	C	67195054	3	2	50	1	0	0	0	0	1	0	0	0	14231	101	4	5	1928	5	SGIP1	1	67195054	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	23137942	67195054	182055567	5	38277											
LPHN2	23266	broad.mit.edu	37	chr1	82408687	82408687	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggaccttgaaagcaattgtGgactcaccatgtatatatga	13	11	10	7	0	1	2	1	2	0	0	1	4	1	4	2	2	1	2	2	2	5	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:82408687G>A	uc001dit.3	+	6	613	c.432G>A	c.(430-432)GTG>GTA	p.V144V	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Silent_p.V144V|LPHN2_uc001div.2_Silent_p.V144V|LPHN2_uc009wcd.2_Silent_p.V144V	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	144	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		AAGCAATTGTGGACTCACCAT	0.408													7	96					0	0	0.069234	0	0		A	82408687	A	A	82408687	2	1	50	1	0	0	0	0	0	0	0	1	8934	1335	47	4		4	LPHN2	1	82408687	Silent	SNP	G	TCGA-BR-7715-01A-11D-2053-08	15213633	82408687	166841934	6	38278											
TTLL7	79739	broad.mit.edu	37	chr1	84373332	84373332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgagggcagctgactgaaCgtcttatggagcctatcagt	10	9	12	10	2	2	2	1	2	1	0	2	4	2	3	2	2	3	2	2	2	3	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:84373332C>T	uc001djc.2	-	16	2195	c.1799G>A	c.(1798-1800)CGT>CAT	p.R600H	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_RNA|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	600					cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		GCTGACTGAACGTCTTATGGA	0.433													14	19					0	0	0.038395	0	0		T	84373332	T	T	84373332	3	4	50	1	0	0	0	0	1	0	0	0	16758	536	19	1	888	1	TTLL7	1	84373332	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	1964645	84373332	164877289	7	38279											
PRMT6	55170	broad.mit.edu	37	chr1	107599821	107599821	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggatgggctacggactcCtgcacgagtccatgctgagc	8	8	14	11	2	0	1	0	1	0	0	2	4	2	3	2	3	4	3	2	3	1	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:107599821C>A	uc010ous.1	+	1	555	c.484C>A	c.(484-486)CTG>ATG	p.L162M		NM_018137	NP_060607	Q96LA8	ANM6_HUMAN	protein arginine methyltransferase 6	162					base-excision repair|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone binding|histone methyltransferase activity (H2A-R3 specific)|histone methyltransferase activity (H3-R2 specific)|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity				0		all_epithelial(167;0.000429)|all_lung(203;0.00122)|Lung NSC(277;0.00185)		Lung(183;0.0305)|Epithelial(280;0.0765)|Colorectal(144;0.0998)|all cancers(265;0.14)|LUSC - Lung squamous cell carcinoma(189;0.173)|BRCA - Breast invasive adenocarcinoma(282;0.242)		CTACGGACTCCTGCACGAGTC	0.652													11	116					2.80697e-09	3.01913e-09	0.080935	1	0		A	107599821	A	A	107599821	3	1	50	1	0	0	0	0	1	0	0	0	12562	680	24	5	486	5	PRMT6	1	107599821	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	23226489	107599821	141650800	8	38280											
SV2A	9900	broad.mit.edu	37	chr1	149885086	149885086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgcccccagactctgcccGgggaatgccctgatattccc	6	10	9	16	1	1	2	0	1	1	1	2	3	2	3	5	2	3	0	5	2	2	3	rs144624887		TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:149885086G>A	uc001etg.2	-	2	798	c.307C>T	c.(307-309)CGG>TGG	p.R103W	SV2A_uc001eth.2_Missense_Mutation_p.R103W	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	103	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	GACTCTGCCCGGGGAATGCCC	0.632													74	164					0	0	0.139131	0	0		A	149885086	A	A	149885086	3	1	50	1	0	0	0	0	1	0	0	0	15442	1115	39	1	1969	1	SV2A	1	149885086	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	42285265	149885086	99365535	9	38281											
HRNR	388697	broad.mit.edu	37	chr1	152193722	152193722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcactccaacttgaatgaCtaaaagaggattcttgccgt	12	11	8	10	1	1	3	0	2	1	1	2	4	2	4	2	1	3	1	2	1	4	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:152193722C>T	uc001ezt.1	-	3	459	c.383G>A	c.(382-384)AGT>AAT	p.S128N		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	128	1.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACTTGAATGACTAAAAGAGGA	0.428													32	105					0	0	0.074837	0	0		T	152193722	T	T	152193722	3	4	50	1	0	0	0	0	1	0	0	0	7375	565	20	4	8173	4	HRNR	1	152193722	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	2308636	152193722	97056899	10	38282											
SMG5	23381	broad.mit.edu	37	chr1	156236063	156236063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggcggagacaggagaggCgagagaacttacggctcttt	11	6	16	8	4	1	3	0	0	1	3	1	8	1	3	0	5	2	1	0	5	2	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:156236063C>T	uc001foc.3	-	12	1513	c.1364G>A	c.(1363-1365)CGC>CAC	p.R455H	SMG5_uc009wrv.2_5'UTR	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	455					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					ACAGGAGAGGCGAGAGAACTT	0.582													37	93					0	0	0.124865	0	0		T	156236063	T	T	156236063	3	4	50	1	0	0	0	0	1	0	0	0	14821	768	27	1	1730	1	SMG5	1	156236063	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	4042341	156236063	93014558	11	38283											
OR10J3	441911	broad.mit.edu	37	chr1	159283850	159283850	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacagacgctgacaacaaaGttgattatctcattgacagt	15	10	7	9	1	1	4	1	3	1	1	2	4	1	4	0	0	1	2	0	0	3	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:159283850G>T	uc010piu.1	-	1	600	c.600C>A	c.(598-600)AAC>AAA	p.N200K		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	200	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					TGACAACAAAGTTGATTATCT	0.473													11	78					0.000978159	0.000988849	0.080935	1	0		T	159283850	T	T	159283850	3	4	50	1	0	0	0	0	1	0	0	0	10930	1020	36	5	391	5	OR10J3	1	159283850	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	3047787	159283850	89966771	12	38284											
DUSP27	92235	broad.mit.edu	37	chr1	167088640	167088640	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggatgactttcctgaggtgGacatttcccagcatttccgg	7	13	11	10	1	0	2	0	2	0	0	3	4	3	4	3	4	1	1	3	4	0	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:167088640G>T	uc001geb.1	+	4	592	c.592G>T	c.(592-594)GAC>TAC	p.D198Y		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	198					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						TCCTGAGGTGGACATTTCCCA	0.572													15	47					2.5808e-16	2.82513e-16	0.038395	1	0		T	167088640	T	T	167088640	3	4	50	1	0	0	0	0	1	0	0	0	4830	1174	41	5	606	5	DUSP27	1	167088640	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	7804790	167088640	82161981	13	38285											
KIFAP3	22920	broad.mit.edu	37	chr1	170007467	170007467	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccaagttatcaggatttcGagcaagctgcaggatcaaag	13	10	10	8	1	2	0	2	0	0	0	4	3	3	2	1	2	3	4	1	2	4	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:170007467G>A	uc001ggv.2	-	5	752	c.481C>T	c.(481-483)CGA>TGA	p.R161*	KIFAP3_uc010ply.1_Nonsense_Mutation_p.R83*|KIFAP3_uc001ggw.1_Nonsense_Mutation_p.R117*	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	161					blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TCAGGATTTCGAGCAAGCTGC	0.308													18	72					0	0	0.049695	0	0		A	170007467	A	A	170007467	4	1	50	1	0	0	0	0	0	1	0	0	8327	1066	37	1	1961	1	KIFAP3	1	170007467	Nonsense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	2918827	170007467	79243154	14	38286											
SLC9A11	284525	broad.mit.edu	37	chr1	173550993	173550993	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atttcagccttaccaatataGaaagtcatgtacaccattga	15	12	5	9	0	2	2	2	1	0	1	2	2	2	2	3	0	3	1	3	0	6	6			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:173550993G>C	uc001giz.2	-	7	1218	c.795C>G	c.(793-795)TTC>TTG	p.F265L	SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	265	Helical; (Potential).				sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						TACCAATATAGAAAGTCATGT	0.318													6	38					0	0	0.047766	0	0		C	173550993	C	C	173550993	3	2	50	1	0	0	0	0	1	0	0	0	14736	933	33	5	2667	5	SLC9A11	1	173550993	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	3543526	173550993	75699628	15	38287											
FAM5C	339479	broad.mit.edu	37	chr1	190067604	190067604	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaaaatgtcttccatttgttCcccagagttaatgtccagtt	11	15	6	9	0	1	1	0	0	1	1	4	1	4	1	4	0	0	3	4	0	3	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:190067604C>T	uc001gse.1	-	8	2077	c.1845G>A	c.(1843-1845)GGG>GGA	p.G615G	FAM5C_uc010pot.1_Silent_p.G513G	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	615						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TCCATTTGTTCCCCAGAGTTA	0.443													75	310					0	0	0.139131	0	0		T	190067604	T	T	190067604	2	4	50	1	0	0	0	0	0	0	0	1	5608	842	30	4		4	FAM5C	1	190067604	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	16516611	190067604	59183017	16	38288											
CHI3L1	1116	broad.mit.edu	37	chr1	203148899	203148899	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaacctaccttgcttttgAcgctttcctggtcgtcgtat	6	15	9	11	3	0	1	0	1	0	0	3	2	1	2	3	2	3	3	3	2	3	6			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:203148899A>G	uc001gzi.2	-	9	1172	c.1001T>C	c.(1000-1002)GTC>GCC	p.V334A	FMOD_uc010pqi.1_Intron|CHI3L1_uc001gzk.1_Missense_Mutation_p.V70A|CHI3L1_uc001gzj.2_Missense_Mutation_p.V273A|CHI3L1_uc001gzl.3_5'Flank	NM_001276	NP_001267	P36222	CH3L1_HUMAN	chitinase 3-like 1 precursor	334					chitin catabolic process	extracellular space|proteinaceous extracellular matrix	cation binding|chitinase activity|extracellular matrix structural constituent|sugar binding			pancreas(1)	1						CTTGCTTTTGACGCTTTCCTG	0.587													8	86					0	0	0.069234	0	0		G	203148899	G	G	203148899	3	3	50	1	0	0	0	0	1	0	0	0	3343	275	10	3	158	3	CHI3L1	1	203148899	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	13081295	203148899	46101722	17	38289											
PLEKHA6	22874	broad.mit.edu	37	chr1	204219673	204219673	+	Splice_Site	DEL	C	-	-																															agcagggggcgctgctcttaCatctgtgtcttgctcgttta																										TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:204219673delC	uc001hau.2	-	10	1910	c.1593_splice	c.e10+1	p.D531_splice	PLEKHA6_uc009xaw.1_Splice_Site_p.D229_splice|PLEKHA6_uc009xax.1_Splice_Site_p.D211_splice|PLEKHA6_uc009xay.1_Splice_Site_p.D182_splice|PLEKHA6_uc009xaz.1_Splice_Site|PLEKHA6_uc009xba.1_Splice_Site_p.D202_splice|PLEKHA6_uc009xbb.1_Splice_Site_p.D184_splice|PLEKHA6_uc009xbc.1_Intron	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3											ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			GCTGCTCTTACATCTGTGTCT	0.607													25	25	---	---	---	---						.	-	204219673	-	-	204219673	8	5	50	1	0	1	0	1	0	0	1	0	12079	492	17	0	1604	0	PLEKHA6	1	204219673	Splice_Site	DEL	C	TCGA-BR-7715-01A-11D-2053-08	1070774	204219673	45030948	18	38290											
DISP1	84976	broad.mit.edu	37	chr1	223164006	223164006	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactggccggtggtggtcttGggcatgtgcaccatgttcat	5	12	15	9	1	2	0	1	0	1	0	2	1	2	0	2	5	1	3	2	5	0	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:223164006G>A	uc001hnu.1	+	4	726	c.579G>A	c.(577-579)TTG>TTA	p.L193L		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	193	Helical; (Potential).				diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TGGTGGTCTTGGGCATGTGCA	0.478													12	159					0	0	0.09319	0	0		A	223164006	A	A	223164006	2	1	50	1	0	0	0	0	0	0	0	1	4545	1339	47	4		4	DISP1	1	223164006	Silent	SNP	G	TCGA-BR-7715-01A-11D-2053-08	18944333	223164006	26086615	19	38291											
TP53BP2	7159	broad.mit.edu	37	chr1	223983962	223983962	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgctatggtggtcctctgaTataaaagcttctgaatattt	10	15	8	8	1	2	2	0	2	2	0	3	2	3	2	2	2	1	2	2	2	6	6			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:223983962T>C	uc010pvb.1	-	13	2571	c.2279A>G	c.(2278-2280)TAT>TGT	p.Y760C	TP53BP2_uc001hod.2_Missense_Mutation_p.Y631C|TP53BP2_uc010puz.1_Translation_Start_Site|TP53BP2_uc010pva.1_Missense_Mutation_p.Y399C	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	754					apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		GGTCCTCTGATATAAAAGCTT	0.468													43	75					0	0	0.139131	0	0		C	223983962	C	C	223983962	3	2	50	1	0	0	0	0	1	0	0	0	16410	1406	49	3	1149	3	TP53BP2	1	223983962	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	819956	223983962	25266659	20	38292											
ACTN2	88	broad.mit.edu	37	chr1	236911005	236911005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctgtgaatgtcaatgatcGgtgccagaaaatttgtgacc	11	11	11	8	2	1	4	1	3	0	1	2	4	1	4	2	1	1	1	2	1	4	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:236911005G>A	uc001hyf.2	+	13	1649	c.1445G>A	c.(1444-1446)CGG>CAG	p.R482Q	ACTN2_uc001hyg.2_Missense_Mutation_p.R274Q|ACTN2_uc009xgi.1_Missense_Mutation_p.R482Q|ACTN2_uc010pxu.1_Missense_Mutation_p.R171Q|ACTN2_uc001hyh.2_Missense_Mutation_p.R170Q	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	482	Spectrin 2.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GTCAATGATCGGTGCCAGAAA	0.418													11	35					0	0	0.146539	0	0		A	236911005	A	A	236911005	3	1	50	1	0	0	0	0	1	0	0	0	205	1116	39	1	1495	1	ACTN2	1	236911005	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	12927043	236911005	12339616	21	38293											
OR2M7	391196	broad.mit.edu	37	chr1	248487101	248487101	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgggctgaatgcacatgAacaaacctgctccatagtac	13	9	9	10	0	0	2	0	2	0	0	1	2	1	2	2	1	5	4	2	1	5	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr1:248487101A>G	uc010pzk.1	-	1	770	c.770T>C	c.(769-771)TTC>TCC	p.F257S		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	257	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AATGCACATGAACAAACCTGC	0.468													60	69					0	0	0.139131	0	0		G	248487101	G	G	248487101	3	3	50	1	0	0	0	0	1	0	0	0	11033	246	9	3	171	3	OR2M7	1	248487101	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	11576096	248487101	763520	22	38294											
SNTG2	54221	broad.mit.edu	37	chr2	1094065	1094065	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgagcacaacgtccctgtCgtcatatcaaaaatattcga	13	11	6	11	3	3	1	2	1	1	0	6	2	4	1	1	0	2	1	1	0	5	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:1094065C>T	uc002qwq.2	+	4	422	c.294C>T	c.(292-294)GTC>GTT	p.V98V	SNTG2_uc002qwp.2_RNA|SNTG2_uc010ewi.2_Intron	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	98	PDZ.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		ACGTCCCTGTCGTCATATCAA	0.383													8	62					0	0	0.080935	0	0		T	1094065	T	T	1094065	2	4	50	1	0	0	0	0	0	0	0	1	14900	871	31	1		1	SNTG2	2	1094065	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08		1094065	242105308	23	38295											
GREB1	9687	broad.mit.edu	37	chr2	11755365	11755365	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgaggccttggagagtgatGctgagaagctgagcagcaca	12	6	15	8	1	0	4	0	3	0	2	0	7	0	4	1	2	4	4	1	2	1	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:11755365G>T	uc002rbk.1	+	20	3571	c.3271G>T	c.(3271-3273)GCT>TCT	p.A1091S	GREB1_uc002rbp.1_Missense_Mutation_p.A89S	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1091						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GGAGAGTGATGCTGAGAAGCT	0.582													10	14					3.86212e-05	4.014e-05	0.069234	1	0		T	11755365	T	T	11755365	3	4	50	1	0	0	0	0	1	0	0	0	6776	1319	46	5	3453	5	GREB1	2	11755365	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	10661300	11755365	231444008	24	38296											
DDX1	1653	broad.mit.edu	37	chr2	15769793	15769793	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagactcaaggaagatggagGctgtaccatatggtacaacg	15	7	12	7	1	1	2	1	0	0	2	1	4	1	4	1	4	3	3	1	4	7	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:15769793G>T	uc002rce.2	+	24	2231	c.1943G>T	c.(1942-1944)GGC>GTC	p.G648V		NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	648	Helicase C-terminal.|Necessary for interaction with HNRNPK.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		GAAGATGGAGGCTGTACCATA	0.348													6	59					0.000157383	0.000161755	0.038147	1	0		T	15769793	T	T	15769793	3	4	50	1	0	0	0	0	1	0	0	0	4344	1203	42	5	2037	5	DDX1	2	15769793	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	4014428	15769793	227429580	25	38297											
FBXO11	80204	broad.mit.edu	37	chr2	48035360	48035360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtacaaggattagacagtGttccagcaccacagtcacag	14	8	9	10	0	1	1	1	0	0	1	2	2	2	2	2	1	2	3	2	1	3	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:48035360G>A	uc010fbl.2	-	23	2543	c.2429C>T	c.(2428-2430)ACA>ATA	p.T810I	FBXO11_uc002rwe.2_Missense_Mutation_p.T810I|FBXO11_uc010fbk.2_Missense_Mutation_p.T318I	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	894	UBR-type.				ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ATTAGACAGTGTTCCAGCACC	0.393													41	79					0	0	0.086207	0	0		A	48035360	A	A	48035360	3	1	50	1	0	0	0	0	1	0	0	0	5741	1377	48	4	106	4	FBXO11	2	48035360	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	32265567	48035360	195164013	26	38298											
IL1R2	7850	broad.mit.edu	37	chr2	102626041	102626041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggggctgccagaagctgcCggtttcgtgggaggcattac	7	8	16	10	2	0	1	0	0	0	1	1	2	0	2	2	5	4	4	2	5	2	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:102626041C>T	uc002tbm.2	+	3	314	c.85C>T	c.(85-87)CGG>TGG	p.R29W	IL1R2_uc002tbn.2_Missense_Mutation_p.R29W|IL1R2_uc002tbo.1_Missense_Mutation_p.R29W	NM_004633	NP_004624	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II precursor	29	Extracellular (Potential).|Ig-like C2-type 1.				immune response	integral to membrane|plasma membrane	interleukin-1, Type II, blocking receptor activity			ovary(1)|breast(1)	2					Anakinra(DB00026)	CAGAAGCTGCCGGTTTCGTGG	0.597													62	103					0	0	0.139131	0	0		T	102626041	T	T	102626041	3	4	50	1	0	0	0	0	1	0	0	0	7675	643	23	1	91	1	IL1R2	2	102626041	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	54590681	102626041	140573332	27	38299											
ZEB2	9839	broad.mit.edu	37	chr2	145162441	145162441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctctggcgtgccaaggCgagacagctcctcaggggct	6	7	15	13	2	2	1	1	0	1	1	3	2	3	1	3	5	2	2	3	5	1	0			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:145162441C>T	uc002tvu.2	-	5	1034	c.554G>A	c.(553-555)CGC>CAC	p.R185H	ZEB2_uc002tvv.2_Missense_Mutation_p.R179H|ZEB2_uc010zbm.1_Missense_Mutation_p.R156H|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.R214H	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	185						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		CGTGCCAAGGCGAGACAGCTC	0.507													16	24					0	0	0.146539	0	0		T	145162441	T	T	145162441	3	4	50	1	0	0	0	0	1	0	0	0	17649	768	27	1	3114	1	ZEB2	2	145162441	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	42536400	145162441	98036932	28	38300											
SCN1A	6323	broad.mit.edu	37	chr2	166854619	166854619	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggtgaagaaggacccaaAgatgatgaaaataacaaagt	21	5	10	5	0	0	5	0	3	0	2	0	6	0	6	1	2	1	0	1	2	8	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:166854619A>G	uc010zcz.1	-	23	4390	c.4372T>C	c.(4372-4374)TTT>CTT	p.F1458L	SCN1A_uc002udo.3_Missense_Mutation_p.F1338L|SCN1A_uc010fpk.2_Missense_Mutation_p.F1310L	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1469	Helical; Name=S6 of repeat III; (By similarity).|III.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AAGGACCCAAAGATGATGAAA	0.338													36	60					0	0	0.080422	0	0		G	166854619	G	G	166854619	3	3	50	1	0	0	0	0	1	0	0	0	13939	72	3	3	1640	3	SCN1A	2	166854619	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	21692178	166854619	76344754	29	38301											
G6PC2	57818	broad.mit.edu	37	chr2	169761040	169761040	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctggccatgcaatgggCgcatcctgtgtctggtatgt	6	12	12	11	1	2	0	0	0	2	0	3	0	3	0	3	3	1	3	3	3	2	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:169761040C>T	uc002uem.2	+	3	446	c.354C>T	c.(352-354)GGC>GGT	p.G118G	G6PC2_uc002uen.2_Silent_p.G118G|G6PC2_uc010fpv.2_Silent_p.G2G	NM_021176	NP_066999	Q9NQR9	G6PC2_HUMAN	islet-specific glucose-6-phosphatase-related	118	Helical; (Potential).				gluconeogenesis|glucose homeostasis|glucose transport|regulation of insulin secretion|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	glucose-6-phosphatase activity			pancreas(1)	1						ATGCAATGGGCGCATCCTGTG	0.463													67	353					0	0	0.139131	0	0		T	169761040	T	T	169761040	2	4	50	1	0	0	0	0	0	0	0	1	6158	755	27	1		1	G6PC2	2	169761040	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	2906421	169761040	73438333	30	38302											
DNAH7	56171	broad.mit.edu	37	chr2	196852950	196852950	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttgttggtttagacttacTttcctaaacaagggggtaaa	11	14	11	5	0	0	1	0	0	0	1	1	1	1	1	1	4	2	4	1	4	7	8			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:196852950T>G	uc002utj.3	-	13	1458	c.1357A>C	c.(1357-1359)AGT>CGT	p.S453R		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	453	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TTAGACTTACTTTCCTAAACA	0.308													36	28					0	0	0.092188	0	0		G	196852950	G	G	196852950	3	3	50	1	0	0	0	0	1	0	0	0	4612	1609	56	5	10929	5	DNAH7	2	196852950	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	27091910	196852950	46346423	31	38303											
SPATS2L	26010	broad.mit.edu	37	chr2	201337696	201337696	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caataagccctctgaaggcaAagcggcaaaccccaaaatgg	16	4	9	12	1	1	1	0	1	1	0	1	1	1	1	3	3	3	2	3	3	7	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:201337696A>C	uc002uvn.3	+	12	1554	c.1202A>C	c.(1201-1203)AAA>ACA	p.K401T	SPATS2L_uc010fst.2_Missense_Mutation_p.K401T|SPATS2L_uc002uvo.3_Missense_Mutation_p.K341T|SPATS2L_uc002uvp.3_Missense_Mutation_p.K401T|SPATS2L_uc002uvq.3_Missense_Mutation_p.K332T|SPATS2L_uc002uvr.3_Missense_Mutation_p.K401T|SPATS2L_uc010zhc.1_Missense_Mutation_p.K431T	NM_015535	NP_056350	Q9NUQ6	SPS2L_HUMAN	SPATS2-like protein isoform a	401						cytoplasm|nucleolus				ovary(2)|pancreas(1)	3						TCTGAAGGCAAAGCGGCAAAC	0.572													14	41					0	0	0.105934	0	0		C	201337696	C	C	201337696	3	2	50	1	0	0	0	0	1	0	0	0	15045	14	1	5	1240	5	SPATS2L	2	201337696	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	4484746	201337696	41861677	32	38304											
ADAM23	8745	broad.mit.edu	37	chr2	207431960	207431960	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctcagggtgtcccattctCgaaaattttcaaagtgcagc	10	12	8	11	1	3	0	2	0	1	0	6	1	5	0	2	1	2	1	2	1	3	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:207431960C>T	uc002vbq.2	+	15	1631	c.1408C>T	c.(1408-1410)CGA>TGA	p.R470*	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	470	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		GTCCCATTCTCGAAAATTTTC	0.358													44	59					0	0	0.139131	0	0		T	207431960	T	T	207431960	4	4	50	1	0	0	0	0	0	1	0	0	245	876	31	1	1466	1	ADAM23	2	207431960	Nonsense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	6094264	207431960	35767413	33	38305											
SPAG16	79582	broad.mit.edu	37	chr2	214215281	214215281	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acattatgcatcttatgaacCgactataagggtgttacatg	13	13	8	7	1	1	1	0	1	1	0	1	2	1	1	1	1	3	2	1	1	6	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:214215281C>A	uc002veq.2	+	7	766	c.674C>A	c.(673-675)CCG>CAG	p.P225Q	SPAG16_uc010fuz.1_Missense_Mutation_p.P76Q|SPAG16_uc002ver.2_Missense_Mutation_p.P171Q|SPAG16_uc010zjk.1_Missense_Mutation_p.P131Q|SPAG16_uc002vep.1_Intron|SPAG16_uc002ves.1_Missense_Mutation_p.P194Q	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	225	Potential.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		TCTTATGAACCGACTATAAGG	0.348													8	74					0.00307968	0.00309642	0.038147	1	0		A	214215281	A	A	214215281	3	1	50	1	0	0	0	0	1	0	0	0	15003	652	23	5	716	5	SPAG16	2	214215281	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	6783321	214215281	28984092	34	38306											
TRPM8	79054	broad.mit.edu	37	chr2	234869689	234869689	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacagaaatggccgggaCgagatggacatagaactcca	16	4	13	8	2	0	4	0	0	0	4	1	8	1	6	2	3	1	0	2	3	4	1	rs142882642		TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr2:234869689C>T	uc002vvh.2	+	12	1672	c.1632C>T	c.(1630-1632)GAC>GAT	p.D544D	TRPM8_uc010fyj.2_Silent_p.D232D	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	544	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	ATGGCCGGGACGAGATGGACA	0.488													3	56					0	0	0.009096	0	0		T	234869689	T	T	234869689	2	4	50	1	0	0	0	0	0	0	0	1	16618	535	19	1		1	TRPM8	2	234869689	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	20654408	234869689	8329684	35	38307											
ATP2B2	491	broad.mit.edu	37	chr3	10430051	10430051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttcacacccacagcagtcaCcaacatccgtcctgagccct	10	7	6	18	1	2	1	2	1	0	0	4	1	4	1	5	0	3	2	5	0	1	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr3:10430051C>T	uc003bvt.2	-	6	1256	c.817G>A	c.(817-819)GTG>ATG	p.V273M	ATP2B2_uc003bvv.2_Missense_Mutation_p.V273M|ATP2B2_uc003bvw.2_Missense_Mutation_p.V273M|ATP2B2_uc010hdp.2_Missense_Mutation_p.V273M|ATP2B2_uc010hdo.2_Missense_Mutation_p.V9M	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	273	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						ACAGCAGTCACCAACATCCGT	0.517													60	106					0	0	0.139131	0	0		T	10430051	T	T	10430051	3	4	50	1	0	0	0	0	1	0	0	0	1141	507	18	4	2986	4	ATP2B2	3	10430051	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08		10430051	187592379	36	38308											
TRANK1	9881	broad.mit.edu	37	chr3	36874650	36874650	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagttcaaatccaggtcaaAaattattcttaatatgggcc	15	12	6	8	0	3	0	2	0	1	0	4	0	4	0	2	2	0	1	2	2	7	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr3:36874650A>C	uc003cgj.2	-	12	4944	c.4642T>G	c.(4642-4644)TTT>GTT	p.F1548V		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2098					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TCCAGGTCAAAAATTATTCTT	0.378													7	6					0	0	0.038147	0	0		C	36874650	C	C	36874650	3	2	50	1	0	0	0	0	1	0	0	0	16480	14	1	5	2497	5	TRANK1	3	36874650	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	26444599	36874650	161147780	37	38309											
FEZF2	55079	broad.mit.edu	37	chr3	62358230	62358232	+	In_Frame_Del	DEL	CCG	-	-																															cgccaccgccgccgccgcctCcgccgccgcccgcccggagg																										TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr3:62358230_62358232delCCG	uc003dlh.2	-	1	519_521	c.312_314delCGG	c.(310-315)GGCGGA>GGA	p.104_105GG>G	FEZF2_uc003dli.2_In_Frame_Del_p.104_105GG>G	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	104_105	Gly-rich.				transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		gccgccgcctccgccgccgccCG	0.502													2	4	---	---	---	---						.	-	62358232	-	-	62358230	7	5	50	1	0	1	0	1	0	0	0	0	5840	855	30	0	1081	0	FEZF2	3	62358230	In_Frame_Del	DEL	CCG	TCGA-BR-7715-01A-11D-2053-08	25483580	62358230	135664200	38	38310											
LSAMP	4045	broad.mit.edu	37	chr3	115805190	115805190	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgtacgatcaagtaaacTtgggaggtcttgggctcatg	9	12	12	8	1	3	0	2	0	1	0	3	2	3	1	1	3	2	3	1	3	4	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr3:115805190T>C	uc003ebt.2	-	2	869	c.369A>G	c.(367-369)CAA>CAG	p.Q123Q	LSAMP_uc011bis.1_Silent_p.Q123Q	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein	123					cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)		TCAAGTAAACTTGGGAGGTCT	0.438													8	23					0	0	0.058154	0	0		C	115805190	C	C	115805190	2	2	50	1	0	0	0	0	0	0	0	1	9066	1606	56	3		3	LSAMP	3	115805190	Silent	SNP	T	TCGA-BR-7715-01A-11D-2053-08	53446960	115805190	82217240	39	38311											
MSL2	55167	broad.mit.edu	37	chr3	135870710	135870710	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctggatcgttttctattcAattttgctatcttcggagtt	7	20	7	7	2	4	0	1	0	3	0	6	2	4	2	0	2	1	3	0	2	3	9			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr3:135870710A>G	uc003eqx.1	-	2	1746	c.1013T>C	c.(1012-1014)TTG>TCG	p.L338S	MSL2_uc011bmb.1_Missense_Mutation_p.L264S	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	338					histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						TTTTCTATTCAATTTTGCTAT	0.453													30	36					0	0	0.059317	0	0		G	135870710	G	G	135870710	3	3	50	1	0	0	0	0	1	0	0	0	9896	131	5	3	724	3	MSL2	3	135870710	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	20065520	135870710	62151720	40	38312											
MECOM	2122	broad.mit.edu	37	chr3	168845679	168845679	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattccttacactcctggatCgtgtgtatctcttggagatc	7	15	8	11	1	1	1	0	0	1	1	6	3	3	2	2	2	1	1	2	2	2	4	rs150481592		TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr3:168845679C>T	uc003ffi.3	-	4	488	c.219G>A	c.(217-219)ACG>ACA	p.T73T	MECOM_uc010hwk.1_Silent_p.T96T|MECOM_uc003ffj.3_Silent_p.T137T|MECOM_uc011bpi.1_Silent_p.T73T|MECOM_uc003ffn.3_Silent_p.T73T|MECOM_uc003ffk.2_Silent_p.T73T|MECOM_uc003ffl.2_Silent_p.T233T|MECOM_uc011bpj.1_Silent_p.T261T|MECOM_uc011bpk.1_Silent_p.T63T|MECOM_uc010hwn.2_Silent_p.T261T|MECOM_uc003ffm.1_Silent_p.T137T	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	73	Interaction with MAPK9, SMAD3 and probably SUV39H1.				apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						ACTCCTGGATCGTGTGTATCT	0.388													73	129					0	0	0.139131	0	0		T	168845679	T	T	168845679	2	4	50	1	0	0	0	0	0	0	0	1	9440	871	31	1		1	MECOM	3	168845679	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	32974969	168845679	29176751	41	38313											
CRMP1	1400	broad.mit.edu	37	chr4	5827283	5827283	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggctggtgtttagaaggcGaagatttggctgaaggagcg	9	9	19	4	2	0	3	0	1	0	2	0	5	0	4	0	6	1	3	0	6	4	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:5827283G>A	uc003gip.2	-	14	1666	c.1565C>T	c.(1564-1566)TCG>TTG	p.S522L	EVC_uc003gim.1_Intron|CRMP1_uc003gin.1_Missense_Mutation_p.S434L|CRMP1_uc003giq.2_Missense_Mutation_p.S522L|CRMP1_uc003gir.2_Missense_Mutation_p.S517L|CRMP1_uc003gis.2_Missense_Mutation_p.S636L	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	522					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		TTTAGAAGGCGAAGATTTGGC	0.532													19	43					0	0	0.049695	0	0		A	5827283	A	A	5827283	3	1	50	1	0	0	0	0	1	0	0	0	3893	1059	37	1	161	1	CRMP1	4	5827283	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08		5827283	185326993	42	38314											
JAKMIP1	152789	broad.mit.edu	37	chr4	6055827	6055827	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgttctgatccttggcgtCttgcatttcattcttcagct	4	18	7	12	2	5	1	2	1	3	0	7	1	6	1	1	1	2	3	1	1	0	6			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:6055827C>A	uc003giu.3	-	13	2032	c.1756G>T	c.(1756-1758)GAC>TAC	p.D586Y	JAKMIP1_uc010idb.1_Missense_Mutation_p.D586Y|JAKMIP1_uc010idc.1_Missense_Mutation_p.D401Y|JAKMIP1_uc010idd.1_Intron|JAKMIP1_uc011bwc.1_Missense_Mutation_p.D421Y|JAKMIP1_uc003giv.3_Missense_Mutation_p.D586Y|JAKMIP1_uc010ide.2_3'UTR	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	586	Mediates interaction with TYK2 and GABBR1.|Potential.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TCCTTGGCGTCTTGCATTTCA	0.453													14	108					5.01169e-05	5.17968e-05	0.0333	1	0		A	6055827	A	A	6055827	3	1	50	1	0	0	0	0	1	0	0	0	7956	913	32	5	850	5	JAKMIP1	4	6055827	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	228544	6055827	185098449	43	38315											
RBM47	54502	broad.mit.edu	37	chr4	40440609	40440609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcaaagtccatcatgaggCgcagctcgtagatgcggccc	9	7	12	13	4	2	2	2	1	0	1	4	2	3	2	2	2	2	3	2	2	2	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:40440609C>T	uc003gvc.2	-	4	1012	c.302G>A	c.(301-303)CGC>CAC	p.R101H	RBM47_uc003gvd.2_Missense_Mutation_p.R101H|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Missense_Mutation_p.R63H|RBM47_uc003gvg.1_Missense_Mutation_p.R101H	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	101	RRM 1.					nucleus	nucleotide binding|RNA binding			breast(3)	3						CATCATGAGGCGCAGCTCGTA	0.632													17	56					0	0	0.055883	0	0		T	40440609	T	T	40440609	3	4	50	1	0	0	0	0	1	0	0	0	13166	768	27	1	1495	1	RBM47	4	40440609	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	34384782	40440609	150713667	44	38316											
ATP10D	57205	broad.mit.edu	37	chr4	47514786	47514786	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctatgtgaacaatcgaataCgaacaacaaagtacacactt	18	8	5	10	2	0	1	0	1	0	0	1	3	0	1	1	0	5	1	1	0	9	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:47514786C>T	uc003gxk.1	+	2	393	c.229C>T	c.(229-231)CGA>TGA	p.R77*	ATP10D_uc003gxj.3_Nonsense_Mutation_p.R77*	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	77	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						CAATCGAATACGAACAACAAA	0.388													9	53					0	0	0.058154	0	0		T	47514786	T	T	47514786	4	4	50	1	0	0	0	0	0	1	0	0	1119	528	19	1	231	1	ATP10D	4	47514786	Nonsense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	7074177	47514786	143639490	45	38317											
NFXL1	152518	broad.mit.edu	37	chr4	47877167	47877167	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cattccacatacaggcttgtGatcttacagtgacattttat	11	15	6	9	0	1	2	0	2	1	0	2	2	2	2	1	1	2	1	1	1	3	6			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:47877167G>C	uc010igh.2	-	18	2400	c.2223C>G	c.(2221-2223)ATC>ATG	p.I741M	NFXL1_uc003gxo.2_Missense_Mutation_p.I66M|NFXL1_uc003gxp.2_Missense_Mutation_p.I741M|NFXL1_uc003gxq.3_RNA|NFXL1_uc010igi.2_Missense_Mutation_p.I741M	NM_152995	NP_694540	Q6ZNB6	NFXL1_HUMAN	nuclear transcription factor, X-box binding-like	741						integral to membrane|nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						ACAGGCTTGTGATCTTACAGT	0.358													15	44					0	0	0.062417	0	0		C	47877167	C	C	47877167	3	2	50	1	0	0	0	0	1	0	0	0	10407	1280	45	5	536	5	NFXL1	4	47877167	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	362381	47877167	143277109	46	38318											
CNGA1	1259	broad.mit.edu	37	chr4	47938591	47938591	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcagccaagattcgggcaaaCctggtttgcaggaggtctac	10	9	12	10	1	2	1	1	0	1	1	3	2	2	2	2	4	4	3	2	4	3	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:47938591C>A	uc003gxt.3	-	11	2186	c.1920G>T	c.(1918-1920)AGG>AGT	p.R640S	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.R709S	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	640	Cytoplasmic (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						TTCGGGCAAACCTGGTTTGCA	0.433													30	69					5.8336e-16	6.34833e-16	0.059317	1	0		A	47938591	A	A	47938591	3	1	50	1	0	0	0	0	1	0	0	0	3599	506	18	5	156	5	CNGA1	4	47938591	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	61424	47938591	143215685	47	38319											
C4orf35	85438	broad.mit.edu	37	chr4	71200978	71200978	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgacagctaaaaaggaaaaActcaaatcagaagatgatat	21	7	7	6	0	2	4	2	2	0	2	2	5	2	5	0	1	2	1	0	1	8	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:71200978A>C	uc003hff.2	+	1	308	c.222A>C	c.(220-222)AAA>AAC	p.K74N		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	74						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				AAAAGGAAAAACTCAAATCAG	0.368													19	20					0	0	0.043863	0	0		C	71200978	C	C	71200978	3	2	50	1	0	0	0	0	1	0	0	0	2268	40	2	5	224	5	C4orf35	4	71200978	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	23262387	71200978	119953298	48	38320											
RUFY3	22902	broad.mit.edu	37	chr4	71644141	71644141	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattagaaaaatccaacactAaactgacagaggaggtaagt	19	7	8	7	0	0	3	0	1	0	2	1	4	1	4	1	2	2	1	1	2	7	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:71644141A>G	uc003hfq.2	+	8	1475	c.880A>G	c.(880-882)AAA>GAA	p.K294E	RUFY3_uc003hfp.3_Missense_Mutation_p.K354E|RUFY3_uc011cax.1_Missense_Mutation_p.K312E|RUFY3_uc003hfr.2_Missense_Mutation_p.K294E|RUFY3_uc011cay.1_Missense_Mutation_p.K230E	NM_014961	NP_055776	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 2	294	Potential.				negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			ATCCAACACTAAACTGACAGA	0.299													3	69					0	0	0.009096	0	0		G	71644141	G	G	71644141	3	3	50	1	0	0	0	0	1	0	0	0	13765	363	13	3	1272	3	RUFY3	4	71644141	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	443163	71644141	119510135	49	38321											
CENPE	1062	broad.mit.edu	37	chr4	104065732	104065732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagtctcattgacagctGtcatcttaagaaactgatat	12	13	7	9	0	3	4	2	3	2	1	4	4	3	4	1	0	2	1	1	0	3	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:104065732G>A	uc003hxb.1	-	33	4991	c.4901C>T	c.(4900-4902)ACA>ATA	p.T1634I	CENPE_uc003hxc.1_Missense_Mutation_p.T1609I	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	1634	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		ATTGACAGCTGTCATCTTAAG	0.333													11	29					0	0	0.069234	0	0		A	104065732	A	A	104065732	3	1	50	1	0	0	0	0	1	0	0	0	3233	1377	48	4	3272	4	CENPE	4	104065732	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	32421591	104065732	87088544	50	38322											
INTS12	57117	broad.mit.edu	37	chr4	106614632	106614632	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcaactccttcagtgatGtctgatttcatctataaaaa	14	15	4	8	0	5	2	3	2	2	0	6	2	6	2	1	0	1	0	1	0	6	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:106614632G>A	uc003hxw.2	-	5	579	c.321C>T	c.(319-321)GAC>GAT	p.D107D	INTS12_uc010ilr.2_Silent_p.D107D	NM_020395	NP_065128	Q96CB8	INT12_HUMAN	integrator complex subunit 12	107					snRNA processing	integrator complex	protein binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(123;5.12e-07)		CTTCAGTGATGTCTGATTTCA	0.373													6	84					0	0	0.02938	0	0		A	106614632	A	A	106614632	2	1	50	1	0	0	0	0	0	0	0	1	7793	1368	48	4		4	INTS12	4	106614632	Silent	SNP	G	TCGA-BR-7715-01A-11D-2053-08	2548900	106614632	84539644	51	38323											
CFI	3426	broad.mit.edu	37	chr4	110681428	110681428	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaagtctttcaattacctGcacagccaacttcatcttcc	10	12	3	16	0	4	0	2	0	2	0	5	0	5	0	4	0	4	1	4	0	4	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:110681428G>A	uc003hzr.3	-	6	1089	c.881C>T	c.(880-882)GCA>GTA	p.A294V	CFI_uc003hzq.2_Missense_Mutation_p.A91V|CFI_uc011cft.1_Missense_Mutation_p.A294V|CFI_uc003hzs.3_Missense_Mutation_p.A294V	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	294	LDL-receptor class A 2.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		TCAATTACCTGCACAGCCAAC	0.413													24	47					0	0	0.0918	0	0		A	110681428	A	A	110681428	3	1	50	1	0	0	0	0	1	0	0	0	3292	1319	46	2	902	2	CFI	4	110681428	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	4066796	110681428	80472848	52	38324											
PITX2	5308	broad.mit.edu	37	chr4	111539783	111539783	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccgaagccattcttgcatAgctcggcctgctggttgcgc	5	10	12	14	3	1	0	0	0	1	0	2	1	1	0	3	2	5	4	3	2	2	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:111539783A>T	uc003iad.2	-	5	1034	c.452T>A	c.(451-453)CTA>CAA	p.L151Q	PITX2_uc003iac.2_Missense_Mutation_p.L158Q|PITX2_uc003iae.2_Missense_Mutation_p.L105Q|PITX2_uc010iml.2_Missense_Mutation_p.L22Q|PITX2_uc003iaf.2_Missense_Mutation_p.L151Q	NM_153426	NP_700475	Q99697	PITX2_HUMAN	paired-like homeodomain transcription factor 2	151			L -> V (in RIEG1).		determination of left/right symmetry|organ morphogenesis	transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription factor binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00222)		ATTCTTGCATAGCTCGGCCTG	0.582													15	65					0	0	0.146539	0	0		T	111539783	T	T	111539783	3	4	50	1	0	0	0	0	1	0	0	0	11974	420	15	5	505	5	PITX2	4	111539783	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	858355	111539783	79614493	53	38325											
PCDH18	54510	broad.mit.edu	37	chr4	138451501	138451501	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgccgtattattacgcAatgcaggccctataaccaca	11	12	6	12	2	1	0	0	0	1	0	1	0	1	0	3	1	4	3	3	1	6	6			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:138451501A>C	uc003ihe.3	-	1	2129	c.1742T>G	c.(1741-1743)TTG>TGG	p.L581W	PCDH18_uc003ihf.3_Missense_Mutation_p.L574W|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.L361W|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	581	Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					ATTATTACGCAATGCAGGCCC	0.463													36	112					0	0	0.092188	0	0		C	138451501	C	C	138451501	3	2	50	1	0	0	0	0	1	0	0	0	11532	131	5	5	1681	5	PCDH18	4	138451501	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	26911718	138451501	52702775	54	38326											
GRIA2	2891	broad.mit.edu	37	chr4	158224891	158224891	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggagctctccttagcttGattgaatactatcaatggga	13	12	9	7	0	2	2	1	2	1	0	3	4	2	4	1	2	3	2	1	2	6	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:158224891G>T	uc003ipm.3	+	3	876	c.417G>T	c.(415-417)TTG>TTT	p.L139F	GRIA2_uc011cit.1_Missense_Mutation_p.L92F|GRIA2_uc003ipl.3_Missense_Mutation_p.L139F|GRIA2_uc003ipk.3_Missense_Mutation_p.L92F|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	139	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	TCCTTAGCTTGATTGAATACT	0.458													5	254					0.000602214	0.000615523	0.014758	1	0		T	158224891	T	T	158224891	3	4	50	1	0	0	0	0	1	0	0	0	6784	1281	45	5	427	5	GRIA2	4	158224891	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	19773390	158224891	32929385	55	38327											
FSTL5	56884	broad.mit.edu	37	chr4	162459350	162459350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagagtcttccacaaaaagaGaagagatgtcttcatccact	15	9	7	10	0	3	3	1	0	2	3	5	5	5	3	2	0	0	0	2	0	3	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:162459350G>A	uc003iqh.2	-	10	1716	c.1280C>T	c.(1279-1281)TCT>TTT	p.S427F	FSTL5_uc003iqi.2_Missense_Mutation_p.S426F|FSTL5_uc010iqv.2_Missense_Mutation_p.S426F	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	427						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CACAAAAAGAGAAGAGATGTC	0.408													174	95					0	0	0.139131	0	0		A	162459350	A	A	162459350	3	1	50	1	0	0	0	0	1	0	0	0	6094	942	33	4	1291	4	FSTL5	4	162459350	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	4234459	162459350	28694926	56	38328											
IRF2	3660	broad.mit.edu	37	chr4	185340650	185340650	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgcccagtttctaaagaGtggtgcatctttttccacat	9	15	8	9	0	2	1	0	0	2	1	3	2	3	1	2	1	2	2	2	1	2	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr4:185340650G>C	uc003iwf.3	-	3	360	c.160C>G	c.(160-162)CTC>GTC	p.L54V		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	54	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		TTTCTAAAGAGTGGTGCATCT	0.378													24	55					0	0	0.144211	0	0		C	185340650	C	C	185340650	3	2	50	1	0	0	0	0	1	0	0	0	7844	1029	36	5	917	5	IRF2	4	185340650	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	22881300	185340650	5813626	57	38329											
IRX2	153572	broad.mit.edu	37	chr5	2749523	2749523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctgccgaggtctccgtgcCctcctgcgccttgtcgggac	2	10	12	17	4	2	0	0	0	2	0	5	2	3	1	5	2	3	0	5	2	0	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr5:2749523C>T	uc003jda.2	-	2	870	c.628G>A	c.(628-630)GGC>AGC	p.G210S	C5orf38_uc003jdc.2_5'Flank|C5orf38_uc011cmg.1_5'Flank|C5orf38_uc011cmh.1_5'Flank|C5orf38_uc011cmi.1_5'Flank|C5orf38_uc011cmj.1_5'Flank|IRX2_uc003jdb.2_Missense_Mutation_p.G210S	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	210						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		GTCTCCGTGCCCTCCTGCGCC	0.662													5	36					0	0	0.014758	0	0		T	2749523	T	T	2749523	3	4	50	1	0	0	0	0	1	0	0	0	7860	623	22	4	799	4	IRX2	5	2749523	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08		2749523	178165737	58	38330											
KIAA0947	23379	broad.mit.edu	37	chr5	5457596	5457596	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggactttttatgtcaaaaTgtggaaaaacagagctccag	15	10	10	6	0	1	1	1	0	0	1	2	4	2	3	1	2	2	1	1	2	5	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr5:5457596T>G	uc003jdm.3	+	12	1065	c.843T>G	c.(841-843)AAT>AAG	p.N281K		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	281										ovary(1)|central_nervous_system(1)	2						TATGTCAAAATGTGGAAAAAC	0.433													12	32					0	0	0.09319	0	0		G	5457596	G	G	5457596	3	3	50	1	0	0	0	0	1	0	0	0	8218	1461	51	5	889	5	KIAA0947	5	5457596	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	2708073	5457596	175457664	59	38331											
ROPN1L	83853	broad.mit.edu	37	chr5	10450088	10450088	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accacaagcggtatgtggaaTtaacagatcttgagcagaag	15	8	11	7	1	1	3	0	1	1	2	1	4	1	4	1	2	3	2	1	2	5	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr5:10450088T>C	uc003jex.3	+	3	551	c.280T>C	c.(280-282)TTA>CTA	p.L94L		NM_031916	NP_114122	Q96C74	ROP1L_HUMAN	ropporin 1-like	94					ciliary or flagellar motility|signal transduction	cytoplasm|motile cilium	cAMP-dependent protein kinase regulator activity|protein binding			ovary(1)	1						GTATGTGGAATTAACAGATCT	0.388													9	107					0	0	0.069234	0	0		C	10450088	C	C	10450088	2	2	50	1	0	0	0	0	0	0	0	1	13550	1490	52	3		3	ROPN1L	5	10450088	Silent	SNP	T	TCGA-BR-7715-01A-11D-2053-08	4992492	10450088	170465172	60	38332											
PDZD2	23037	broad.mit.edu	37	chr5	32000337	32000337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaagcagtggccattcttcGctccgccacgggaatggtgc	7	8	14	12	3	1	0	0	0	1	0	3	2	2	2	3	4	2	2	3	4	2	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr5:32000337G>A	uc003jhl.2	+	5	1602	c.1214G>A	c.(1213-1215)CGC>CAC	p.R405H	PDZD2_uc003jhm.2_Missense_Mutation_p.R405H|PDZD2_uc011cnx.1_Missense_Mutation_p.R231H	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	405	PDZ 2.				cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GCCATTCTTCGCTCCGCCACG	0.552													46	155					0	0	0.139131	0	0		A	32000337	A	A	32000337	3	1	50	1	0	0	0	0	1	0	0	0	11720	1087	38	1	1228	1	PDZD2	5	32000337	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	21550249	32000337	148914923	61	38333											
PCDHGB3	56102	broad.mit.edu	37	chr5	140752135	140752135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctccagacccgccactgaggGctactttcagcctggtgtct	6	10	10	15	1	2	2	1	1	1	1	3	2	3	2	4	2	2	1	4	2	1	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr5:140752135G>A	uc003ljw.1	+	1	2174	c.2174G>A	c.(2173-2175)GGC>GAC	p.G725D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.G725D|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	725	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCACTGAGGGCTACTTTCAG	0.562													21	11					0	0	0.069456	0	0		A	140752135	A	A	140752135	3	1	50	1	0	0	0	0	1	0	0	0	11583	1203	42	2	2176	2	PCDHGB3	5	140752135	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	108751798	140752135	40163125	62	38334											
PCDHGB5	56101	broad.mit.edu	37	chr5	140779581	140779581	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacagcgcgtgccttgggCgacagggacgcggcccgcca	6	3	16	16	7	0	0	0	0	0	0	0	2	0	1	3	3	2	1	3	3	0	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr5:140779581C>T	uc003lkf.1	+	1	1887	c.1887C>T	c.(1885-1887)GGC>GGT	p.G629G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Silent_p.G629G|PCDHGA9_uc011dax.1_5'Flank|PCDHGA9_uc003lkh.1_5'Flank	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	629	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCCTTGGGCGACAGGGACG	0.687													8	19					0	0	0.038147	0	0		T	140779581	T	T	140779581	2	4	50	1	0	0	0	0	0	0	0	1	11585	755	27	1		1	PCDHGB5	5	140779581	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	27446	140779581	40135679	63	38335											
CSNK1A1	1452	broad.mit.edu	37	chr5	148891431	148891431	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taatgattccatgtcatctcGgcgactagaaaagagaacgt	14	10	9	8	3	2	3	1	1	1	2	4	5	3	3	1	1	1	0	1	1	5	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr5:148891431G>A	uc003lqx.1	-	6	1081	c.601C>T	c.(601-603)CGA>TGA	p.R201*	CSNK1A1_uc011dcb.1_Nonsense_Mutation_p.R110*|CSNK1A1_uc011dcc.1_Nonsense_Mutation_p.R140*|CSNK1A1_uc003lqv.1_Nonsense_Mutation_p.R112*|CSNK1A1_uc003lqw.1_Nonsense_Mutation_p.R229*|CSNK1A1_uc003lqy.1_Nonsense_Mutation_p.R201*|CSNK1A1_uc010jha.1_Nonsense_Mutation_p.R201*	NM_001892	NP_001883	P48729	KC1A_HUMAN	casein kinase 1, alpha 1 isoform 2	201	Protein kinase.				cell division|mitosis|Wnt receptor signaling pathway	centrosome|condensed chromosome kinetochore|cytosol|nuclear speck	ATP binding|protein binding|protein binding|protein serine/threonine kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.0407)		ATGTCATCTCGGCGACTAGAA	0.348													60	21					0	0	0.139131	0	0		A	148891431	A	A	148891431	4	1	50	1	0	0	0	0	0	1	0	0	3953	1124	39	1	432	1	CSNK1A1	5	148891431	Nonsense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	8111850	148891431	32023829	64	38336											
RFX6	222546	broad.mit.edu	37	chr6	117239221	117239221	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcttacagatgtactcattCctgcaacaatgcaagaaatg	14	12	6	9	0	2	2	1	0	1	2	3	2	3	2	1	0	5	3	1	0	6	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr6:117239221C>A	uc003pxm.2	+	10	1057	c.994C>A	c.(994-996)CCT>ACT	p.P332T		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	332					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TGTACTCATTCCTGCAACAAT	0.289													11	176					4.93089e-13	5.33459e-13	0.11911	1	0		A	117239221	A	A	117239221	3	1	50	1	0	0	0	0	1	0	0	0	13292	855	30	5	1032	5	RFX6	6	117239221	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08		117239221	53875846	65	38337											
C6orf174	387104	broad.mit.edu	37	chr6	127836053	127836053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccttttgcgctcggctttgCggaggcggtactgcaggatc	4	11	15	11	4	0	0	0	0	0	0	2	2	0	2	1	5	4	4	1	5	1	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr6:127836053C>T	uc003qbd.2	-	3	2106	c.1241G>A	c.(1240-1242)CGC>CAC	p.R414H		NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	414	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CTCGGCTTTGCGGAGGCGGTA	0.622													53	105					0	0	0.139131	0	0		T	127836053	T	T	127836053	3	4	50	1	0	0	0	0	1	0	0	0	2348	768	27	1	1622	1	C6orf174	6	127836053	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	10596832	127836053	43279014	66	38338											
SYNE1	23345	broad.mit.edu	37	chr6	152671444	152671444	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtcttcatggtctttgacTttcgcctccagactgaagac	8	14	8	11	1	3	4	1	2	2	2	5	4	4	4	2	1	0	0	2	1	2	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr6:152671444T>G	uc010kiw.2	-	72	12362	c.11760A>C	c.(11758-11760)AAA>AAC	p.K3920N	SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Missense_Mutation_p.K3920N|SYNE1_uc010kja.1_Missense_Mutation_p.K625N	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3920	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GGTCTTTGACTTTCGCCTCCA	0.463										HNSCC(10;0.0054)			25	70					0	0	0.050027	0	0		G	152671444	G	G	152671444	3	3	50	1	0	0	0	0	1	0	0	0	15470	1606	56	5	15006	5	SYNE1	6	152671444	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	24835391	152671444	18443623	67	38339											
PDE10A	10846	broad.mit.edu	37	chr6	165989936	165989936	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcctctcttctatcctcaTtctacattcttttccttcaa	6	21	0	14	0	6	0	2	0	4	0	10	0	9	0	3	0	1	0	3	0	3	9			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr6:165989936T>C	uc003qun.2	-	2	242	c.1A>G	c.(1-3)ATG>GTG	p.M1V	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_5'UTR|PDE10A_uc003quo.2_Intron	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	1					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	tctatcctcattctacattct	0													8	158					0	0	0.058154	0	0		C	165989936	C	C	165989936	3	2	50	1	0	0	0	0	1	0	0	0	11649	1493	52	3	2426	3	PDE10A	6	165989936	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	13318492	165989936	5125131	68	38340											
SDK1	221935	broad.mit.edu	37	chr7	4116774	4116774	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggccgctgtgactgccgtggGcactggcctggtgacttcat	4	10	15	12	2	1	2	1	2	0	0	1	2	1	2	3	4	1	2	3	4	0	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr7:4116774G>T	uc003smx.2	+	21	3294	c.3155G>T	c.(3154-3156)GGC>GTC	p.G1052V	SDK1_uc010kso.2_Missense_Mutation_p.G328V	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1052	Fibronectin type-III 4.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		ACTGCCGTGGGCACTGGCCTG	0.577													10	77					3.86212e-05	4.014e-05	0.069234	1	0		T	4116774	T	T	4116774	3	4	50	1	0	0	0	0	1	0	0	0	13993	1203	42	5	3237	5	SDK1	7	4116774	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08		4116774	155021889	69	38341											
HOXA4	3201	broad.mit.edu	37	chr7	27169073	27169073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtgtgggcgatctcgatgCggcgccgccgggtcaggtat	4	8	18	11	7	2	0	1	0	1	0	3	2	2	0	2	4	1	1	2	4	1	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr7:27169073C>T	uc003sym.3	-	2	781	c.734G>A	c.(733-735)CGC>CAC	p.R245H	HOXA3_uc003syk.2_5'Flank	NM_002141	NP_002132	Q00056	HXA4_HUMAN	homeobox A4	245	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						GATCTCGATGCGGCGCCGCCG	0.587													24	132					0	0	0.125774	0	0		T	27169073	T	T	27169073	3	4	50	1	0	0	0	0	1	0	0	0	7310	768	27	1	232	1	HOXA4	7	27169073	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	23052299	27169073	131969590	70	38342											
GHRHR	2692	broad.mit.edu	37	chr7	31011683	31011683	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcccttttccacagcgaCgacactgaccactgcagctt	8	9	8	16	2	0	1	0	1	0	0	1	3	1	1	3	0	4	3	3	0	0	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr7:31011683C>T	uc003tbx.2	+	6	618	c.570C>T	c.(568-570)GAC>GAT	p.D190D	GHRHR_uc003tbw.1_Silent_p.D190D|GHRHR_uc003tby.2_Silent_p.D126D|GHRHR_uc003tbz.2_Missense_Mutation_p.T8M	NM_000823	NP_000814	Q02643	GHRHR_HUMAN	growth hormone releasing hormone receptor	190	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to estrogen stimulus|response to glucocorticoid stimulus	cell surface|integral to membrane|nuclear inner membrane|nuclear matrix|nuclear outer membrane|plasma membrane|stored secretory granule	growth factor binding|growth hormone-releasing hormone receptor activity|peptide hormone binding			ovary(2)|lung(1)|breast(1)|large_intestine(1)	5					Sermorelin(DB00010)	TCCACAGCGACGACACTGACC	0.582													5	89					0	0	0.02938	0	0		T	31011683	T	T	31011683	2	4	50	1	0	0	0	0	0	0	0	1	6388	535	19	1		1	GHRHR	7	31011683	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	3842610	31011683	128126980	71	38343											
GLI3	2737	broad.mit.edu	37	chr7	42006103	42006103	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcggctgctcaggtaggcCgagctgatggtgctggcgct	4	8	18	11	4	1	1	1	1	0	0	1	2	1	1	1	6	3	6	1	6	1	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr7:42006103C>T	uc011kbh.1	-	15	2659	c.2568G>A	c.(2566-2568)TCG>TCA	p.S856S	GLI3_uc011kbg.1_Silent_p.S797S	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	856				S->A: Loss of proteolytic processing.	negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						TCAGGTAGGCCGAGCTGATGG	0.662									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				13	39					0	0	0.09319	0	0		T	42006103	T	T	42006103	2	4	50	1	0	0	0	0	0	0	0	1	6454	639	23	1		1	GLI3	7	42006103	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	10994420	42006103	117132560	72	38344											
EGFR	1956	broad.mit.edu	37	chr7	55232990	55232990	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagggaccagacaactgtatCcagtgtgcccactacattga	12	8	9	12	0	0	2	0	1	0	1	1	3	1	3	3	1	3	1	3	1	3	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr7:55232990C>A	uc003tqk.2	+	15	1986	c.1740C>A	c.(1738-1740)ATC>ATA	p.I580I	EGFR_uc003tqi.2_Silent_p.I580I|EGFR_uc003tqj.2_Silent_p.I580I|EGFR_uc010kzg.1_Silent_p.I535I|EGFR_uc011kco.1_Silent_p.I527I|EGFR_uc011kcp.1_Intron|EGFR_uc011kcq.1_RNA|EGFR_uc003tqn.2_RNA	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	580	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	ACAACTGTATCCAGTGTGCCC	0.478		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			27	137					8.53417e-09	9.12614e-09	0.054565	1	0		A	55232990	A	A	55232990	2	1	50	1	0	0	0	0	0	0	0	1	4973	845	30	5		5	EGFR	7	55232990	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	13226887	55232990	103905673	73	38345											
POM121C	100101267	broad.mit.edu	37	chr7	75068500	75068500	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgccactgctatcatggCgcctgcgacaaatcaaaaaa	14	7	7	13	2	2	0	2	0	0	0	2	1	2	0	2	1	3	1	2	1	5	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr7:75068500C>A	uc010lde.1	-	4	956	c.956G>T	c.(955-957)CGC>CTC	p.R319L	POM121C_uc003udk.3_Missense_Mutation_p.R77L			A8CG34	P121C_HUMAN	Homo sapiens POM121-2 mRNA for nuclear pore membrane protein 121-2, partial cds.	319	Required for targeting to the nucleus and nuclear pore complex.|Pore side (Potential).				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						GCTATCATGGCGCCTGCGACA	0.453													89	264					1.51934e-53	1.68311e-53	0.139131	1	0		A	75068500	A	A	75068500	3	1	50	1	0	0	0	0	1	0	0	0	12259	768	27	5	2773	5	POM121C	7	75068500	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	19835510	75068500	84070163	74	38346											
DBF4	10926	broad.mit.edu	37	chr7	87506063	87506063	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccatgaactccggagccAtgaggatccacagtaaagga	13	6	11	11	1	0	2	0	2	0	0	2	5	2	5	4	3	3	1	4	3	3	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr7:87506063A>C	uc003ujf.1	+	1	520	c.16A>C	c.(16-18)ATG>CTG	p.M6L	SLC25A40_uc003uje.2_5'Flank|DBF4_uc003ujh.1_5'UTR|DBF4_uc003ujg.1_5'UTR|DBF4_uc011khf.1_5'UTR	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	6					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				CTCCGGAGCCATGAGGATCCA	0.597													3	80					0	0	0.014758	0	0		C	87506063	C	C	87506063	3	2	50	1	0	0	0	0	1	0	0	0	4251	217	8	5	18	5	DBF4	7	87506063	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	12437563	87506063	71632600	75	38347											
SLC26A5	375611	broad.mit.edu	37	chr7	103033484	103033484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtacacaaggtggaagaggCtggtgtccggattggctgga	9	8	17	7	2	0	1	0	0	0	1	1	4	1	4	1	7	1	3	1	7	3	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr7:103033484C>T	uc003vbz.2	-	10	1237	c.1001G>A	c.(1000-1002)AGC>AAC	p.S334N	SLC26A5_uc003vbt.1_Missense_Mutation_p.S334N|SLC26A5_uc003vbu.1_Missense_Mutation_p.S334N|SLC26A5_uc003vbv.1_Intron|SLC26A5_uc003vbw.2_Intron|SLC26A5_uc003vbx.2_Missense_Mutation_p.S334N|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_RNA	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	334	Extracellular (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						GTGGAAGAGGCTGGTGTCCGG	0.478													4	85					0	0	0.021553	0	0		T	103033484	T	T	103033484	3	4	50	1	0	0	0	0	1	0	0	0	14545	797	28	2	1318	2	SLC26A5	7	103033484	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	15527421	103033484	56105179	76	38348											
RELN	5649	broad.mit.edu	37	chr7	103131143	103131143	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatggtcaggcagctggaTggtgattcttttccagcttg	7	13	13	8	0	2	1	1	1	1	0	3	3	3	2	1	4	2	3	1	4	0	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr7:103131143T>C	uc003vca.2	-	59	9737	c.9577A>G	c.(9577-9579)ATC>GTC	p.I3193V	RELN_uc010liz.2_Missense_Mutation_p.I3193V	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3193					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		GGCAGCTGGATGGTGATTCTT	0.463													57	130					0	0	0.139131	0	0		C	103131143	C	C	103131143	3	2	50	1	0	0	0	0	1	0	0	0	13245	1464	51	3	833	3	RELN	7	103131143	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	97659	103131143	56007520	77	38349											
UBN2	254048	broad.mit.edu	37	chr7	138944087	138944087	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggggaaaaggagaagaaGccaaggaaaaaagttcccaa	21	2	13	5	0	0	2	0	0	0	2	1	6	1	4	2	4	1	1	2	4	10	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr7:138944087G>C	uc011kqr.1	+	5	876	c.876G>C	c.(874-876)AAG>AAC	p.K292N	UBN2_uc003vuv.2_Missense_Mutation_p.K15N	NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	292	Lys-rich.									ovary(1)|skin(1)	2						AGGAGAAGAAGCCAAGGAAAA	0.403													4	90					0	0	0.009096	0	0		C	138944087	C	C	138944087	3	2	50	1	0	0	0	0	1	0	0	0	16919	962	34	5	894	5	UBN2	7	138944087	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	35812944	138944087	20194576	78	38350											
OR9A2	135924	broad.mit.edu	37	chr7	142723590	142723590	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtaggtgtaggagacaatCgtagggatcaaagaaccaat	16	8	12	5	1	1	2	1	0	0	2	2	4	1	3	1	3	1	3	1	3	7	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr7:142723590C>T	uc003wcc.1	-	1	630	c.630G>A	c.(628-630)ACG>ACA	p.T210T		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					AGGAGACAATCGTAGGGATCA	0.468													45	97					0	0	0.139131	0	0		T	142723590	T	T	142723590	2	4	50	1	0	0	0	0	0	0	0	1	11267	871	31	1		1	OR9A2	7	142723590	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	3779503	142723590	16415073	79	38351											
ASH2L	9070	broad.mit.edu	37	chr8	37978477	37978477	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttttctgctcagcgcctTccccctcatggctacccatt	4	15	6	16	1	3	0	2	0	1	0	4	0	4	0	4	1	3	3	4	1	1	6			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr8:37978477T>C	uc003xkt.3	+	10	1033	c.975T>C	c.(973-975)CTT>CTC	p.L325L	ASH2L_uc011lbk.1_Silent_p.L186L|ASH2L_uc003xku.3_Silent_p.L231L|ASH2L_uc010lwa.2_Silent_p.L231L	NM_004674	NP_004665	Q9UBL3	ASH2L_HUMAN	ash2-like isoform a	325					hemopoiesis|histone H3-K4 methylation|positive regulation of cell proliferation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription from RNA polymerase II promoter	Set1C/COMPASS complex	metal ion binding|protein binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2	Colorectal(12;0.000501)	Lung NSC(58;0.0295)|all_lung(54;0.0413)				CTCAGCGCCTTCCCCCTCATG	0.468											OREG0018719	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	77					0	0	0.014758	0	0		C	37978477	C	C	37978477	2	2	50	1	0	0	0	0	0	0	0	1	1043	1770	62	3		3	ASH2L	8	37978477	Silent	SNP	T	TCGA-BR-7715-01A-11D-2053-08		37978477	108385545	80	38352											
CA3	761	broad.mit.edu	37	chr8	86352125	86352125	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgagttgtatttgatgatacTtatgataggtcaagtaagta	13	15	10	3	1	1	3	1	3	0	0	1	4	1	3	0	1	1	4	0	1	7	8			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr8:86352125T>G	uc003ydj.2	+	2	302	c.219T>G	c.(217-219)ACT>ACG	p.T73T	CA13_uc003ydf.1_RNA|CA3_uc011lfv.1_RNA	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	73					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0						TTGATGATACTTATGATAGGT	0.408													87	48					0	0	0.139131	0	0		G	86352125	G	G	86352125	2	3	50	1	0	0	0	0	0	0	0	1	2520	1596	56	5		5	CA3	8	86352125	Silent	SNP	T	TCGA-BR-7715-01A-11D-2053-08	48373648	86352125	60011897	81	38353											
OSGIN2	734	broad.mit.edu	37	chr8	90937164	90937164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggatccagtgttaattgtaGgttctgggcttactgccgct	6	15	12	8	1	1	0	0	0	1	0	2	1	2	1	2	3	2	5	2	3	3	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr8:90937164G>A	uc003yeg.2	+	6	1268	c.922G>A	c.(922-924)GGT>AGT	p.G308S	OSGIN2_uc003yeh.2_Missense_Mutation_p.G352S	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	308					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			GTTAATTGTAGGTTCTGGGCT	0.428													36	225					0	0	0.124865	0	0		A	90937164	A	A	90937164	3	1	50	1	0	0	0	0	1	0	0	0	11309	1000	35	4	1076	4	OSGIN2	8	90937164	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	4585039	90937164	55426858	82	38354											
TRPS1	7227	broad.mit.edu	37	chr8	116426744	116426744	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattcccaggaacggagagcTtatatttactccagaaccgc	12	9	9	11	2	0	2	0	0	0	2	2	5	2	3	3	2	4	1	3	2	5	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr8:116426744T>C	uc003ynz.2	-	6	3812	c.3353A>G	c.(3352-3354)AAG>AGG	p.K1118R	TRPS1_uc011lhy.1_Missense_Mutation_p.K1122R|TRPS1_uc003yny.2_Missense_Mutation_p.K1131R|TRPS1_uc010mcy.2_Missense_Mutation_p.K1118R	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1118	Mediates interaction with RNF4 (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			AACGGAGAGCTTATATTTACT	0.473									Langer-Giedion_syndrome				3	59					0	0	0.009096	0	0		C	116426744	C	C	116426744	3	2	50	1	0	0	0	0	1	0	0	0	16619	1609	56	3	496	3	TRPS1	8	116426744	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	25489580	116426744	29937278	83	38355											
RNF139	11236	broad.mit.edu	37	chr8	125499257	125499257	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctataatgtcctctgggaaaAgcttgacgattatgtctact	11	14	8	8	1	2	1	0	1	2	0	3	3	3	2	1	1	2	1	1	1	6	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr8:125499257A>T	uc003yrc.2	+	2	1710	c.1367A>T	c.(1366-1368)AAG>ATG	p.K456M		NM_007218	NP_009149	Q8WU17	RN139_HUMAN	ring finger protein 139	456					negative regulation of cell proliferation|regulation of protein ubiquitination	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			CTCTGGGAAAAGCTTGACGAT	0.348									Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				11	421					0	0	0.09319	0	0		T	125499257	T	T	125499257	3	4	50	1	0	0	0	0	1	0	0	0	13467	72	3	5	1373	5	RNF139	8	125499257	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	9072513	125499257	20864765	84	38356											
SVEP1	79987	broad.mit.edu	37	chr9	113192672	113192672	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttcggcacctactgtataAatctcacctgaggagtggcc	10	10	9	12	1	1	1	1	1	1	0	3	2	1	2	3	3	1	2	3	3	4	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr9:113192672A>C	uc010mtz.2	-	33	5749	c.5412T>G	c.(5410-5412)ATT>ATG	p.I1804M	SVEP1_uc010mty.2_5'Flank	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1804	Sushi 7.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						CTACTGTATAAATCTCACCTG	0.423													10	28					0	0	0.069234	0	0		C	113192672	C	C	113192672	3	2	50	1	0	0	0	0	1	0	0	0	15445	10	1	5	5367	5	SVEP1	9	113192672	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08		113192672	28020759	85	38357											
AKNA	80709	broad.mit.edu	37	chr9	117143453	117143453	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggaagtcctctaggagcTcggggctggtggcattggga	6	8	19	8	2	1	0	0	0	1	0	3	3	2	3	1	8	1	3	1	8	2	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr9:117143453T>C	uc004biq.3	-	1	296	c.161A>G	c.(160-162)GAG>GGG	p.E54G	AKNA_uc004bir.3_Missense_Mutation_p.E54G|AKNA_uc004bis.3_Missense_Mutation_p.E54G|AKNA_uc010mve.2_Intron|AKNA_uc004biu.1_5'UTR|AKNA_uc004biv.1_Missense_Mutation_p.E54G|AKNA_uc004biw.1_Missense_Mutation_p.E54G	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	54					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(2)	6						CTCTAGGAGCTCGGGGCTGGT	0.637													14	37					0	0	0.11911	0	0		C	117143453	C	C	117143453	3	2	50	1	0	0	0	0	1	0	0	0	463	1551	54	3	4242	3	AKNA	9	117143453	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	3950781	117143453	24069978	86	38358											
PSMD5	5711	broad.mit.edu	37	chr9	123583640	123583640	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctacctacttactggtaagTacagaagagatgaaattgca	15	10	8	8	0	0	3	0	1	0	2	0	4	0	3	2	1	5	3	2	1	7	6			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr9:123583640T>C	uc004bko.2	-	8	1128	c.1109A>G	c.(1108-1110)TAC>TGC	p.Y370C	PSMD5_uc011lye.1_Missense_Mutation_p.Y327C	NM_005047	NP_005038	Q16401	PSMD5_HUMAN	proteasome 26S non-ATPase subunit 5	370					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|proteasome regulatory particle assembly|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding				0						TACTGGTAAGTACAGAAGAGA	0.363													5	153					0	0	0.014758	0	0		C	123583640	C	C	123583640	3	2	50	1	0	0	0	0	1	0	0	0	12723	1638	57	3	417	3	PSMD5	9	123583640	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	6440187	123583640	17629791	87	38359											
OR1L1	26737	broad.mit.edu	37	chr9	125423911	125423911	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttgctgataagaagaatAaaaggagaaattttggacag	17	11	10	3	0	1	4	0	1	1	3	1	6	1	5	0	2	1	1	0	2	6	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr9:125423911A>G	uc011lza.1	+	1	67	c.67A>G	c.(67-69)AAA>GAA	p.K23E		NM_001005236	NP_001005236	Q8NH94	OR1L1_HUMAN	olfactory receptor, family 1, subfamily L,	23	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						TAAGAAGAATAAAAGGAGAAA	0.279													10	41					0	0	0.069234	0	0		G	125423911	G	G	125423911	3	3	50	1	0	0	0	0	1	0	0	0	10982	377	13	3		3	OR1L1	9	125423911	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	1840271	125423911	15789520	88	38360											
C9orf171	389799	broad.mit.edu	37	chr9	135374980	135374980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacatgacatttgggatcCgggcacggtaaggtggctgg	10	8	15	8	2	0	1	0	1	0	0	1	2	1	2	1	6	1	3	1	6	2	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr9:135374980C>T	uc004cbn.2	+	4	673	c.625C>T	c.(625-627)CGG>TGG	p.R209W	C9orf171_uc004cbo.2_Missense_Mutation_p.R173W	NM_207417	NP_997300	Q6ZQR2	CI171_HUMAN	hypothetical protein LOC389799	209										ovary(4)|large_intestine(1)	5						ATTTGGGATCCGGGCACGGTA	0.597													44	36					0	0	0.124865	0	0		T	135374980	T	T	135374980	3	4	50	1	0	0	0	0	1	0	0	0	2473	643	23	1	639	1	C9orf171	9	135374980	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	9951069	135374980	5838451	89	38361											
CUBN	8029	broad.mit.edu	37	chr10	17026238	17026238	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatctctgggtacacagtTgggctattctgggagagtgg	7	12	16	6	0	2	2	0	1	2	1	3	3	2	2	0	4	1	3	0	4	2	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr10:17026238T>C	uc001ioo.2	-	30	4443	c.4391A>G	c.(4390-4392)CAA>CGA	p.Q1464R		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1464	CUB 9.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GGTACACAGTTGGGCTATTCT	0.448													7	51					0	0	0.038147	0	0		C	17026238	C	C	17026238	3	2	50	1	0	0	0	0	1	0	0	0	4054	1812	63	3	6632	3	CUBN	10	17026238	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08		17026238	118508509	90	38362											
ANKRD30A	91074	broad.mit.edu	37	chr10	37505290	37505290	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacagttagagaaccaaaaAgttaaatgggaacaagagct	19	7	9	6	0	1	2	1	0	0	2	1	4	1	3	1	1	3	3	1	1	8	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr10:37505290A>G	uc001iza.1	+	32	2982	c.2883A>G	c.(2881-2883)AAA>AAG	p.K961K		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1017	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AGAACCAAAAAGTTAAATGGG	0.308													8	38					0	0	0.080935	0	0		G	37505290	G	G	37505290	2	3	50	1	0	0	0	0	0	0	0	1	658	69	3	3		3	ANKRD30A	10	37505290	Silent	SNP	A	TCGA-BR-7715-01A-11D-2053-08	20479052	37505290	98029457	91	38363											
C10orf71	118461	broad.mit.edu	37	chr10	50532585	50532585	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctacagagaaaatgaagacCcaccagctagagaatgggct	16	5	11	9	0	0	4	0	1	0	3	0	6	0	4	2	1	2	3	2	1	6	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr10:50532585C>T	uc010qgp.1	+	3	2334	c.1995C>T	c.(1993-1995)ACC>ACT	p.T665T		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	665											0						AAATGAAGACCCACCAGCTAG	0.532													4	37					0	0	0.009096	0	0		T	50532585	T	T	50532585	2	4	50	1	0	0	0	0	0	0	0	1	1617	610	22	4		4	C10orf71	10	50532585	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	13027295	50532585	85002162	92	38364											
SMC3	9126	broad.mit.edu	37	chr10	112328746	112328746	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcaaacaattgtagatccCttcagttcaaaacataatgt	16	12	5	8	0	3	1	3	0	0	1	4	2	4	1	1	0	2	2	1	0	6	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr10:112328746C>G	uc001kze.2	+	2	192	c.66C>G	c.(64-66)CCC>CCG	p.P22P		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	22					cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		TTGTAGATCCCTTCAGTTCAA	0.318													15	87					0	0	0.055883	0	0		G	112328746	G	G	112328746	2	3	50	1	0	0	0	0	0	0	0	1	14809	668	24	5		5	SMC3	10	112328746	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	61796161	112328746	23206001	93	38365											
ADRB1	153	broad.mit.edu	37	chr10	115804636	115804636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgtacctgcgggtgttcCgcgaggcccagaagcaggtg	6	8	16	11	4	0	1	0	0	0	1	2	2	1	1	3	3	3	3	3	3	2	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr10:115804636C>T	uc001lba.2	+	1	831	c.745C>T	c.(745-747)CGC>TGC	p.R249C		NM_000684	NP_000675	P08588	ADRB1_HUMAN	beta-1-adrenergic receptor	249	Cytoplasmic (By similarity).				positive regulation of cAMP biosynthetic process	integral to plasma membrane	alpha-2A adrenergic receptor binding|beta1-adrenergic receptor activity|protein heterodimerization activity				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0124)|all cancers(201;0.0298)	Acebutolol(DB01193)|Alprenolol(DB00866)|Amiodarone(DB01118)|Arbutamine(DB01102)|Atenolol(DB00335)|Betaxolol(DB00195)|Bevantolol(DB01295)|Bisoprolol(DB00612)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Desipramine(DB01151)|Dobutamine(DB00841)|Dopamine(DB00988)|Epinephrine(DB00668)|Esmolol(DB00187)|Isoetharine(DB00221)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Metoprolol(DB00264)|Nadolol(DB01203)|Norepinephrine(DB00368)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Practolol(DB01297)|Propranolol(DB00571)|Risperidone(DB00734)|Timolol(DB00373)|Ziprasidone(DB00246)	GCGGGTGTTCCGCGAGGCCCA	0.547													7	60					0	0	0.069234	0	0		T	115804636	T	T	115804636	3	4	50	1	0	0	0	0	1	0	0	0	340	652	23	1	747	1	ADRB1	10	115804636	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	3475890	115804636	19730111	94	38366											
ABLIM1	3983	broad.mit.edu	37	chr10	116225532	116225532	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtacacaggggagttgaTggagccctggctcgtggacc	7	8	16	10	1	0	1	0	1	0	0	1	4	0	4	2	5	2	4	2	5	1	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr10:116225532T>C	uc010qsg.1	-	12	1465	c.1366A>G	c.(1366-1368)ATC>GTC	p.I456V	ABLIM1_uc010qsh.1_Missense_Mutation_p.I424V|ABLIM1_uc010qsi.1_Missense_Mutation_p.I396V|ABLIM1_uc010qsk.1_Missense_Mutation_p.I380V|ABLIM1_uc009xyp.2_Missense_Mutation_p.I418V|ABLIM1_uc010qsf.1_Missense_Mutation_p.I168V|ABLIM1_uc009xyn.2_Missense_Mutation_p.I107V|ABLIM1_uc010qsj.1_Missense_Mutation_p.I133V|ABLIM1_uc009xyo.2_Missense_Mutation_p.I304V	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	456					axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		GGGGAGTTGATGGAGCCCTGG	0.552													123	192					0	0	0.139131	0	0		C	116225532	C	C	116225532	3	2	50	1	0	0	0	0	1	0	0	0	94	1464	51	3	1014	3	ABLIM1	10	116225532	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	420896	116225532	19309215	95	38367											
KCNK18	338567	broad.mit.edu	37	chr10	118957007	118957007	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcagggacgatggaggTctcggggcacccccaggcca	7	6	15	13	2	2	0	1	0	1	0	3	3	2	2	3	6	1	2	3	6	0	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr10:118957007T>G	uc010qsr.1	+	1	8	c.8T>G	c.(7-9)GTC>GGC	p.V3G		NM_181840	NP_862823	Q7Z418	KCNKI_HUMAN	potassium channel, subfamily K, member 18	3	Cytoplasmic (Potential).					integral to membrane|plasma membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;0.19)		all cancers(201;0.0211)		ACGATGGAGGTCTCGGGGCAC	0.637													12	84					0	0	0.0333	0	0		G	118957007	G	G	118957007	3	3	50	1	0	0	0	0	1	0	0	0	8081	1667	58	5	10	5	KCNK18	10	118957007	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	2731475	118957007	16577740	96	38368											
OR51F2	119694	broad.mit.edu	37	chr11	4842656	4842656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctcagtgcttccctatgtCggtcctcaataataccattg	8	15	6	12	1	2	0	2	0	1	0	6	0	4	0	3	1	2	1	3	1	4	6			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr11:4842656C>T	uc010qyn.1	+	1	41	c.41C>T	c.(40-42)TCG>TTG	p.S14L		NM_001004753	NP_001004753	Q8NH61	O51F2_HUMAN	olfactory receptor, family 51, subfamily F,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.S14S(1)		ovary(1)|pancreas(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTCCCTATGTCGGTCCTCAAT	0.438													51	275					0	0	0.139131	0	0		T	4842656	T	T	4842656	3	4	50	1	0	0	0	0	1	0	0	0	11116	893	31	1	43	1	OR51F2	11	4842656	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08		4842656	130163860	97	38369											
TMEM86A	144110	broad.mit.edu	37	chr11	18722659	18722659	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctgctggcccaccccagCgccacccgcatctttgtggg	4	9	10	18	2	1	0	0	0	1	0	2	0	2	0	6	2	2	2	6	2	0	2	rs145862476		TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr11:18722659C>T	uc001moz.1	+	2	284	c.201C>T	c.(199-201)AGC>AGT	p.S67S		NM_153347	NP_699178	Q8N2M4	TM86A_HUMAN	transmembrane protein 86A	67						integral to membrane				ovary(1)	1						CCCACCCCAGCGCCACCCGCA	0.597													6	132					0	0	0.02938	0	0		T	18722659	T	T	18722659	2	4	50	1	0	0	0	0	0	0	0	1	16233	767	27	1		1	TMEM86A	11	18722659	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	13880003	18722659	116283857	98	38370											
ARFGAP2	84364	broad.mit.edu	37	chr11	47198097	47198097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagatggacgcccagggagCggtgcaccccggaacagtca	10	4	14	13	3	2	1	2	0	0	1	2	4	2	4	3	4	3	1	3	4	1	0			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr11:47198097C>T	uc001ndt.2	-	2	176	c.161G>A	c.(160-162)CGC>CAC	p.R54H	ARFGAP2_uc010rha.1_5'Flank|ARFGAP2_uc010rhb.1_Missense_Mutation_p.R54H|ARFGAP2_uc001ndu.2_Missense_Mutation_p.R54H|ARFGAP2_uc010rhc.1_5'UTR|ARFGAP2_uc010rhd.1_Missense_Mutation_p.R54H|ARFGAP2_uc001ndv.1_Missense_Mutation_p.R54H	NM_032389	NP_115765	Q8N6H7	ARFG2_HUMAN	ADP-ribosylation factor GTPase activating	54	Arf-GAP.				protein transport|regulation of ARF GTPase activity|vesicle-mediated transport	Golgi membrane|nucleolus|plasma membrane	ARF GTPase activator activity|zinc ion binding			ovary(1)	1						GCCCAGGGAGCGGTGCACCCC	0.632													49	25					0	0	0.139131	0	0		T	47198097	T	T	47198097	3	4	50	1	0	0	0	0	1	0	0	0	850	768	27	1	1464	1	ARFGAP2	11	47198097	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	28475438	47198097	87808419	99	38371											
OR8H2	390151	broad.mit.edu	37	chr11	55873412	55873412	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttagaaacaaagaggtgaaAaatgctgtcatcagagtcat	17	9	9	6	0	3	4	3	1	0	3	3	4	3	4	0	1	2	1	0	1	5	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr11:55873412A>C	uc010riy.1	+	1	894	c.894A>C	c.(892-894)AAA>AAC	p.K298N		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	298	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					AAGAGGTGAAAAATGCTGTCA	0.373										HNSCC(53;0.14)			23	94					0	0	0.125774	0	0		C	55873412	C	C	55873412	3	2	50	1	0	0	0	0	1	0	0	0	11257	11	1	5	896	5	OR8H2	11	55873412	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	8675315	55873412	79133104	100	38372											
SLC22A25	387601	broad.mit.edu	37	chr11	62933530	62933530	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcaccttgaggcacaaatAtgatggccagaaggcaggtt	12	9	11	9	0	1	3	1	2	1	1	2	3	1	3	2	4	0	3	2	4	3	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr11:62933530A>G	uc001nwr.1	-	7	1271	c.1271T>C	c.(1270-1272)ATA>ACA	p.I424T	SLC22A10_uc010rmo.1_Intron|SLC22A25_uc009yoq.1_RNA|SLC22A25_uc001nws.1_RNA|SLC22A25_uc001nwt.1_3'UTR	NM_199352	NP_955384	Q6T423	S22AP_HUMAN	putative UST1-like organic anion transporter	424	Helical; Name=9; (Potential).				transmembrane transport	integral to membrane				ovary(3)|skin(1)	4						AGGCACAAATATGATGGCCAG	0.488													24	17					0	0	0.125774	0	0		G	62933530	G	G	62933530	3	3	50	1	0	0	0	0	1	0	0	0	14479	449	16	3	384	3	SLC22A25	11	62933530	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	7060118	62933530	72072986	101	38373											
PDGFD	80310	broad.mit.edu	37	chr11	103870925	103870925	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaggactctgcacgtagccGtttcctttcacctggatggt	6	13	10	12	2	2	0	1	0	1	0	3	2	3	2	3	3	2	3	3	3	2	4	rs148454316	byFrequency	TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr11:103870925G>A	uc001phq.2	-	2	555	c.183C>T	c.(181-183)AAC>AAT	p.N61N	PDGFD_uc001php.2_Silent_p.N55N	NM_025208	NP_079484	Q9GZP0	PDGFD_HUMAN	platelet derived growth factor D isoform 1	61	CUB.				positive regulation of cell division	endoplasmic reticulum lumen|extracellular region|Golgi membrane	growth factor activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Melanoma(852;0.0563)|all_neural(303;0.165)		BRCA - Breast invasive adenocarcinoma(274;0.00136)|Epithelial(105;0.111)		GCACGTAGCCGTTTCCTTTCA	0.488													35	123					0	0	0.092188	0	0		A	103870925	A	A	103870925	2	1	50	1	0	0	0	0	0	0	0	1	11679	1136	40	1		1	PDGFD	11	103870925	Silent	SNP	G	TCGA-BR-7715-01A-11D-2053-08	40937395	103870925	31135591	102	38374											
NLRX1	79671	broad.mit.edu	37	chr11	119052817	119052817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaggctgtccaacaaccCgctgacggcggcaggtgttg	7	8	14	12	3	0	1	0	1	0	0	1	1	1	1	2	4	2	5	2	4	3	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr11:119052817C>T	uc001pvu.2	+	9	2584	c.2369C>T	c.(2368-2370)CCG>CTG	p.P790L	NLRX1_uc001pvv.2_Missense_Mutation_p.P790L|NLRX1_uc001pvw.2_Missense_Mutation_p.P790L|NLRX1_uc001pvx.2_Missense_Mutation_p.P790L	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	790	Required for the repression of MAVS- induced interferon signaling.|LRR 4.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		TCCAACAACCCGCTGACGGCG	0.622													60	198					0	0	0.139131	0	0		T	119052817	T	T	119052817	3	4	50	1	0	0	0	0	1	0	0	0	10504	652	23	1	2399	1	NLRX1	11	119052817	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	15181892	119052817	15953699	103	38375											
ARHGEF12	23365	broad.mit.edu	37	chr11	120335951	120335951	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcattcttggcacagttcagCggaccaggagaggagaaatt	12	8	13	8	1	2	2	1	0	1	2	2	5	2	3	1	4	1	3	1	4	1	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr11:120335951C>T	uc001pxl.1	+	28	2626	c.2619C>T	c.(2617-2619)AGC>AGT	p.S873S	ARHGEF12_uc009zat.2_Silent_p.S854S|ARHGEF12_uc010rzn.1_Silent_p.S770S|ARHGEF12_uc009zau.1_Silent_p.S770S	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	873	DH.				apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		CACAGTTCAGCGGACCAGGAG	0.423			T	MLL	AML								11	74					0	0	0.11911	0	0		T	120335951	T	T	120335951	2	4	50	1	0	0	0	0	0	0	0	1	897	767	27	1		1	ARHGEF12	11	120335951	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	1283134	120335951	14670565	104	38376											
TULP3	7289	broad.mit.edu	37	chr12	3040238	3040238	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttctgctactgccgcccaAccagctgataacctcctggg	7	9	10	15	1	1	1	0	1	1	0	2	1	2	1	5	2	6	3	5	2	3	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr12:3040238A>T	uc010seh.1	+	6	609	c.528A>T	c.(526-528)CAA>CAT	p.Q176H	TULP3_uc010sef.1_RNA|TULP3_uc009zec.1_5'UTR|TULP3_uc010seg.1_RNA|TULP3_uc001qlj.2_Missense_Mutation_p.Q176H|TULP3_uc010sei.1_Missense_Mutation_p.Q33H	NM_003324	NP_003315	O75386	TULP3_HUMAN	tubby like protein 3 isoform 1	176				TSGSATAAQPADNL -> IPVLLLPPNQLITF (in Ref. 1).	G-protein coupled receptor protein signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|extracellular region|nucleus|plasma membrane	phosphatidylinositol-4,5-bisphosphate binding				0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			CTGCCGCCCAACCAGCTGATA	0.493													26	66					0	0	0.108266	0	0		T	3040238	T	T	3040238	3	4	50	1	0	0	0	0	1	0	0	0	16801	40	2	5	550	5	TULP3	12	3040238	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08		3040238	130811657	105	38377											
VWF	7450	broad.mit.edu	37	chr12	6161886	6161886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catccgggtaagagagagagCggcaggtcaggttgcagggg	10	5	19	7	2	1	2	1	0	0	2	2	4	2	2	1	6	2	4	1	6	1	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr12:6161886C>T	uc001qnn.1	-	16	2259	c.2009G>A	c.(2008-2010)CGC>CAC	p.R670H	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	670	TIL 2.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	AGAGAGAGAGCGGCAGGTCAG	0.617													9	20					0	0	0.058154	0	0		T	6161886	T	T	6161886	3	4	50	1	0	0	0	0	1	0	0	0	17272	768	27	1	6580	1	VWF	12	6161886	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	3121648	6161886	127690009	106	38378											
ADAMTS20	80070	broad.mit.edu	37	chr12	43822058	43822058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttactgatccccatggtcCggttctccactggtttcctc	4	14	8	15	1	1	1	0	1	1	0	6	1	4	1	5	3	1	3	5	3	1	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr12:43822058C>T	uc010skx.1	-	26	3931	c.3931G>A	c.(3931-3933)GGA>AGA	p.G1311R	ADAMTS20_uc001rno.1_Missense_Mutation_p.G429R|ADAMTS20_uc001rnp.1_Missense_Mutation_p.G465R	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1311	TSP type-1 9.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CCCCATGGTCCGGTTCTCCAC	0.353													29	61					0	0	0.064281	0	0		T	43822058	T	T	43822058	3	4	50	1	0	0	0	0	1	0	0	0	266	661	23	1	1856	1	ADAMTS20	12	43822058	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	37660172	43822058	90029837	107	38379											
IKZF4	64375	broad.mit.edu	37	chr12	56428541	56428541	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaattgcatctcagaacTcacgcctgtcatcagctctg	10	10	6	15	1	5	1	4	0	2	1	6	1	5	1	2	0	3	2	2	0	2	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr12:56428541T>C	uc001sjb.1	+	9	1343	c.1184T>C	c.(1183-1185)CTC>CCC	p.L395P	IKZF4_uc010sqa.1_Missense_Mutation_p.L348P|IKZF4_uc001sjc.1_Missense_Mutation_p.L395P|IKZF4_uc001sjd.1_Missense_Mutation_p.L293P|IKZF4_uc009zoi.1_Missense_Mutation_p.L350P|IKZF4_uc001sje.1_Missense_Mutation_p.L354P	NM_022465	NP_071910	Q9H2S9	IKZF4_HUMAN	zinc finger protein, subfamily 1A, 4	395					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (6;0.025)|OV - Ovarian serous cystadenocarcinoma(18;0.123)			ATCTCAGAACTCACGCCTGTC	0.602													26	40					0	0	0.045705	0	0		C	56428541	C	C	56428541	3	2	50	1	0	0	0	0	1	0	0	0	7633	1551	54	3	1214	3	IKZF4	12	56428541	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	12606483	56428541	77423354	108	38380											
AGAP2	116986	broad.mit.edu	37	chr12	58125727	58125727	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggagggaagaagagtagtcGctagtgtggcccccgttact	9	8	16	8	2	0	2	0	0	0	2	1	4	0	4	2	3	1	3	2	3	5	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr12:58125727G>A	uc001spq.2	-	8	1818	c.1818C>T	c.(1816-1818)AGC>AGT	p.S606S	AGAP2_uc001spp.2_Silent_p.S606S|AGAP2_uc001spr.2_Silent_p.S270S	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	606					axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						AAGAGTAGTCGCTAGTGTGGC	0.597													12	13					0	0	0.11911	0	0		A	58125727	A	A	58125727	2	1	50	1	0	0	0	0	0	0	0	1	368	1078	38	1		1	AGAP2	12	58125727	Silent	SNP	G	TCGA-BR-7715-01A-11D-2053-08	1697186	58125727	75726168	109	38381											
GRIP1	23426	broad.mit.edu	37	chr12	66742840	66742840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgtctccaaattaccacCgtggctaggctgctggaaaa	10	10	10	11	2	1	0	0	0	1	0	3	1	1	1	3	3	2	3	3	3	5	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr12:66742840C>T	uc001stk.2	-	24	3431	c.3190G>A	c.(3190-3192)GGT>AGT	p.G1064S	GRIP1_uc001stj.2_Missense_Mutation_p.G831S	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	1116					androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		AAATTACCACCGTGGCTAGGC	0.413													18	151					0	0	0.099896	0	0		T	66742840	T	T	66742840	3	4	50	1	0	0	0	0	1	0	0	0	6803	652	23	1	44	1	GRIP1	12	66742840	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	8617113	66742840	67109055	110	38382											
LRRC10	376132	broad.mit.edu	37	chr12	70004268	70004268	+	Frame_Shift_Del	DEL	C	-	-																															ctgaggttctggagcaggctCagctcactggggaggtcgca																										TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr12:70004268delC	uc001svc.2	-	1	675	c.351delG	c.(349-351)CTGfs	p.L117fs		NM_201550	NP_963844	Q5BKY1	LRC10_HUMAN	leucine rich repeat containing 10	117	LRR 3.					nucleus					0	all_cancers(2;2.83e-105)|Breast(13;9.83e-07)|Esophageal squamous(21;0.187)		Epithelial(6;1.98e-18)|GBM - Glioblastoma multiforme(2;7.43e-12)|Lung(24;0.000185)|OV - Ovarian serous cystadenocarcinoma(12;0.00126)|STAD - Stomach adenocarcinoma(21;0.00501)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			GGAGCAGGCTCAGCTCACTGG	0.572													29	37	---	---	---	---						.	-	70004268	-	-	70004268	7	5	50	1	0	1	0	1	0	0	0	0	8985	813	29	0	486	0	LRRC10	12	70004268	Frame_Shift_Del	DEL	C	TCGA-BR-7715-01A-11D-2053-08	3261428	70004268	63847627	111	38383											
XPO4	64328	broad.mit.edu	37	chr13	21357924	21357924	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaaactctttaagaaggcCatcttctgcttccgatccag	10	13	6	12	1	4	1	0	0	4	1	6	2	6	1	3	1	2	1	3	1	4	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr13:21357924C>A	uc001unq.3	-	23	3429	c.3393G>T	c.(3391-3393)ATG>ATT	p.M1131I		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	1131					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		TTAAGAAGGCCATCTTCTGCT	0.413													6	110					0.000978159	0.000988849	0.080935	1	0		A	21357924	A	A	21357924	3	1	50	1	0	0	0	0	1	0	0	0	17472	594	21	5	66	5	XPO4	13	21357924	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08		21357924	93811954	112	38384											
OLFM4	10562	broad.mit.edu	37	chr13	53624159	53624159	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaccgtctgtggttcagctCaactggagagggttttctta	9	13	11	8	1	4	1	2	0	2	1	4	2	4	1	1	3	3	3	1	3	3	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr13:53624159C>T	uc001vhl.2	+	5	786	c.786C>T	c.(784-786)CTC>CTT	p.L262L	OLFM4_uc001vhk.1_Intron	NM_006418	NP_006409	Q6UX06	OLFM4_HUMAN	olfactomedin 4 precursor	262	Olfactomedin-like.				cell adhesion	extracellular space				skin(1)	1		Breast(56;0.000776)|Lung NSC(96;0.000814)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.13e-08)		TGGTTCAGCTCAACTGGAGAG	0.443													29	194					0	0	0.064281	0	0		T	53624159	T	T	53624159	2	4	50	1	0	0	0	0	0	0	0	1	10874	813	29	4		4	OLFM4	13	53624159	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	32266235	53624159	61545719	113	38385											
F7	2155	broad.mit.edu	37	chr13	113761182	113761182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtcgctaaggcctcaggaGgagaaacacgggacatgccg	11	4	16	10	3	1	1	1	0	0	1	2	4	1	3	2	5	2	1	2	5	2	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr13:113761182G>A	uc001vsv.2	+	2	139	c.88G>A	c.(88-90)GGA>AGA	p.G30R	F7_uc010agp.1_Intron|F7_uc001vsw.2_Intron|F7_uc010tjt.1_Intron	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	30					anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	GGCCTCAGGAGGAGAAACACG	0.657													5	21					0	0	0.014758	0	0		A	113761182	A	A	113761182	3	1	50	1	0	0	0	0	1	0	0	0	5357	1001	35	4	94	4	F7	13	113761182	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	60137023	113761182	1408696	114	38386											
CCNK	8812	broad.mit.edu	37	chr14	99967136	99967137	+	Frame_Shift_Del	DEL	CA	-	-																															ttctggagagaatcttactgCagaccatcaagtttgattta																										TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr14:99967136_99967137delCA	uc001ygi.3	+	5	575_576	c.445_446delCA	c.(445-447)CAGfs	p.Q149fs	CCNK_uc001ygg.3_Frame_Shift_Del_p.Q149fs	NM_001099402	NP_001092872	O75909	CCNK_HUMAN	cyclin K isoform 1	149					cell division|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein kinase binding				0		all_cancers(154;0.224)|all_epithelial(191;0.0643)|Melanoma(154;0.0866)				AATCTTACTGCAGACCATCAAG	0.347													2	4	---	---	---	---						.	-	99967137	-	-	99967136	7	5	50	1	0	1	0	1	0	0	0	0	2933	711	25	0	459	0	CCNK	14	99967136	Frame_Shift_Del	DEL	CA	TCGA-BR-7715-01A-11D-2053-08		99967136	7382404	115	38387											
CYP46A1	10858	broad.mit.edu	37	chr14	100165870	100165870	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcgctccagactgtgtttgGtgagaggtaaggaggtatgg	8	11	17	5	1	0	2	0	1	0	2	1	4	1	3	1	5	1	4	1	5	2	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr14:100165870G>C	uc001ygo.2	+	4	350	c.350G>C	c.(349-351)GGT>GCT	p.G117A	CYP46A1_uc001ygn.1_Missense_Mutation_p.G79A	NM_006668	NP_006659	Q9Y6A2	CP46A_HUMAN	cytochrome P450, family 46	117					bile acid biosynthetic process|cholesterol catabolic process|nervous system development|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol 24-hydroxylase activity|electron carrier activity|heme binding|steroid hydroxylase activity				0		Melanoma(154;0.0866)|all_epithelial(191;0.179)				ACTGTGTTTGGTGAGAGGTAA	0.522													12	141					0	0	0.105934	0	0		C	100165870	C	C	100165870	3	2	50	1	0	0	0	0	1	0	0	0	4185	1261	44	5	364	5	CYP46A1	14	100165870	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	198734	100165870	7183670	116	38388											
YY1	7528	broad.mit.edu	37	chr14	100743827	100743827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacatgtgcgaatccataccGgagacaggccctatgtgtgc	10	8	11	12	2	0	1	0	0	0	1	1	3	1	1	3	2	3	0	3	2	3	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr14:100743827G>A	uc001ygy.1	+	5	1615	c.1135G>A	c.(1135-1137)GGA>AGA	p.G379R	uc001ygz.1_5'Flank	NM_003403	NP_003394	P25490	TYY1_HUMAN	YY1 transcription factor	379	Involved in masking transactivation domain.				cell differentiation|cellular response to UV|double-strand break repair via homologous recombination|negative regulation of transcription from RNA polymerase II promoter|response to UV-C|spermatogenesis	Ino80 complex|nuclear matrix|plasma membrane	four-way junction DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding				0		Melanoma(154;0.152)				AATCCATACCGGAGACAGGCC	0.468													10	55					0	0	0.069234	0	0		A	100743827	A	A	100743827	3	1	50	1	0	0	0	0	1	0	0	0	17533	1117	39	1	1153	1	YY1	14	100743827	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	577957	100743827	6605713	117	38389											
OR4M2	390538	broad.mit.edu	37	chr15	22369460	22369460	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacacattgagaaacaaggaAgtaaaggcagccatgaggaa	19	5	11	6	0	0	2	0	2	0	1	0	5	0	4	1	3	3	2	1	3	7	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr15:22369460A>G	uc010tzu.1	+	1	885	c.885A>G	c.(883-885)GAA>GAG	p.E295E	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	295	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GAAACAAGGAAGTAAAGGCAG	0.353													17	52					0	0	0.038395	0	0		G	22369460	G	G	22369460	2	3	50	1	0	0	0	0	0	0	0	1	11095	69	3	3		3	OR4M2	15	22369460	Silent	SNP	A	TCGA-BR-7715-01A-11D-2053-08		22369460	80161932	118	38390											
NDN	4692	broad.mit.edu	37	chr15	23931667	23931667	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaactcctcagtgatgagcTtccgcacgtccccgaaggtg	8	8	11	14	4	1	2	1	2	0	0	4	4	4	2	4	1	2	2	4	1	2	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr15:23931667T>G	uc001ywk.2	-	1	784	c.698A>C	c.(697-699)AAG>ACG	p.K233T		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	233	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		AGTGATGAGCTTCCGCACGTC	0.632									Prader-Willi_syndrome				6	29					0	0	0.02938	0	0		G	23931667	G	G	23931667	3	3	50	1	0	0	0	0	1	0	0	0	10266	1609	56	5	271	5	NDN	15	23931667	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	1562207	23931667	78599725	119	38391											
DUOX2	50506	broad.mit.edu	37	chr15	45386811	45386811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagggctcgaaggggggacGgccaaagtgggtgatggagc	10	4	21	6	2	0	1	0	1	0	0	1	5	0	3	1	7	1	1	1	7	3	0			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr15:45386811G>A	uc010bea.2	-	33	4677	c.4474C>T	c.(4474-4476)CGT>TGT	p.R1492C	DUOX2_uc001zun.2_Missense_Mutation_p.R1492C	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1492	Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		AAGGGGGGACGGCCAAAGTGG	0.637													4	38					0	0	0.014758	0	0		A	45386811	A	A	45386811	3	1	50	1	0	0	0	0	1	0	0	0	4807	1116	39	1	180	1	DUOX2	15	45386811	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	21455144	45386811	57144581	120	38392											
DTWD1	56986	broad.mit.edu	37	chr15	49924413	49924413	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacagatggcaaaagtactGctatacatgcaaaactctta	18	9	6	8	0	1	1	0	0	1	1	1	1	1	1	0	1	6	4	0	1	9	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr15:49924413G>T	uc001zxq.2	+	4	599	c.322G>T	c.(322-324)GCT>TCT	p.A108S	DTWD1_uc001zxs.2_Missense_Mutation_p.A108S|DTWD1_uc001zxr.2_Missense_Mutation_p.A21S|DTWD1_uc001zxo.2_Missense_Mutation_p.A108S	NM_020234	NP_064619	Q8N5C7	DTWD1_HUMAN	DTW domain containing 1	108											0		all_lung(180;0.0384)		all cancers(107;3.27e-08)|GBM - Glioblastoma multiforme(94;7.6e-05)		CAAAAGTACTGCTATACATGC	0.219													9	51					1.08611e-07	1.15477e-07	0.080935	1	0		T	49924413	T	T	49924413	3	4	50	1	0	0	0	0	1	0	0	0	4797	1319	46	5	328	5	DTWD1	15	49924413	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	4537602	49924413	52606979	121	38393											
SEMA7A	8482	broad.mit.edu	37	chr15	74709712	74709712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actggtgtacagctcactctCgccccggatgcggcggaacc	7	7	12	15	4	2	0	1	0	1	0	3	2	2	2	3	4	4	2	3	4	2	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr15:74709712C>T	uc002axv.2	-	6	665	c.625G>A	c.(625-627)GAG>AAG	p.E209K	SEMA7A_uc010ulk.1_Missense_Mutation_p.E44K|SEMA7A_uc010ull.1_Missense_Mutation_p.E195K	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	209	Sema.				axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						AGCTCACTCTCGCCCCGGATG	0.592													40	169					0	0	0.139131	0	0		T	74709712	T	T	74709712	3	4	50	1	0	0	0	0	1	0	0	0	14068	893	31	1	1411	1	SEMA7A	15	74709712	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	24785299	74709712	27821680	122	38394											
IGFALS	3483	broad.mit.edu	37	chr16	1841399	1841399	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctagcgtgagcacctcAagctgccccaggccctcaaa	9	7	10	15	1	3	1	2	1	1	0	3	1	3	1	4	2	4	2	4	2	3	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr16:1841399A>G	uc002cmy.2	-	2	1101	c.1020T>C	c.(1018-1020)CTT>CTC	p.L340L	IGFALS_uc010uvn.1_Silent_p.L378L|IGFALS_uc010uvo.1_5'UTR	NM_004970	NP_004961	P35858	ALS_HUMAN	insulin-like growth factor binding protein, acid	340	LRR 12.				cell adhesion|signal transduction	soluble fraction	insulin-like growth factor binding				0						TGAGCACCTCAAGCTGCCCCA	0.642													14	11					0	0	0.146539	0	0		G	1841399	G	G	1841399	2	3	50	1	0	0	0	0	0	0	0	1	7593	117	5	3		3	IGFALS	16	1841399	Silent	SNP	A	TCGA-BR-7715-01A-11D-2053-08		1841399	88513354	123	38395											
PKMYT1	9088	broad.mit.edu	37	chr16	3025809	3025809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccggccgtcctccttggagCgcacctggaagggaggtggt	5	7	17	12	3	0	0	0	0	0	0	2	3	2	3	5	6	1	1	5	6	1	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr16:3025809C>T	uc002csn.2	-	4	826	c.383G>A	c.(382-384)CGC>CAC	p.R128H	PKMYT1_uc010uwn.1_RNA|PKMYT1_uc002csm.2_Missense_Mutation_p.R128H|PKMYT1_uc002cso.2_Missense_Mutation_p.R59H|PKMYT1_uc002csp.2_Missense_Mutation_p.R119H|PKMYT1_uc002csq.2_Missense_Mutation_p.R119H|PKMYT1_uc010bsy.1_Missense_Mutation_p.R119H	NM_004203	NP_004194	Q99640	PMYT1_HUMAN	protein kinase Myt1 isoform 1	128	Protein kinase.				G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis	endoplasmic reticulum membrane|Golgi membrane|membrane fraction|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1						CTCCTTGGAGCGCACCTGGAA	0.627													6	34					0	0	0.02938	0	0		T	3025809	T	T	3025809	3	4	50	1	0	0	0	0	1	0	0	0	11997	768	27	1	1178	1	PKMYT1	16	3025809	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	1184410	3025809	87328944	124	38396											
ABCC1	4363	broad.mit.edu	37	chr16	16225674	16225674	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaatccaggagacagctcCgcccagcagctggccccagg	10	3	12	16	1	0	1	0	0	0	1	2	2	2	1	5	3	3	4	5	3	1	0			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr16:16225674C>T	uc010bvi.2	+	27	4023	c.3848C>T	c.(3847-3849)CCG>CTG	p.P1283L	ABCC1_uc010bvj.2_Missense_Mutation_p.P1224L|ABCC1_uc010bvk.2_Missense_Mutation_p.P1227L|ABCC1_uc010bvl.2_Missense_Mutation_p.P1283L|ABCC1_uc010bvm.2_Missense_Mutation_p.P1168L|ABCC1_uc002del.3_Missense_Mutation_p.P1177L	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1283	Cytoplasmic.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GAGACAGCTCCGCCCAGCAGC	0.587													8	22					0	0	0.058154	0	0		T	16225674	T	T	16225674	3	4	50	1	0	0	0	0	1	0	0	0	49	652	23	1	3954	1	ABCC1	16	16225674	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	13199865	16225674	74129079	125	38397											
SBK1	388228	broad.mit.edu	37	chr16	28330503	28330503	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctggggacctgtttgaCatcatccctccccaggtact	6	11	9	15	0	1	1	1	1	0	0	3	2	3	2	5	3	2	3	5	3	1	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr16:28330503C>T	uc002dpd.2	+	3	1203	c.414C>T	c.(412-414)GAC>GAT	p.D138D		NM_001024401	NP_001019572	Q52WX2	SBK1_HUMAN	SH3-binding kinase 1	138	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|kidney(1)	2						ACCTGTTTGACATCATCCCTC	0.547													10	32					0	0	0.058154	0	0		T	28330503	T	T	28330503	2	4	50	1	0	0	0	0	0	0	0	1	13885	477	17	4		4	SBK1	16	28330503	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	12104829	28330503	62024250	126	38398											
SETD1A	9739	broad.mit.edu	37	chr16	30976945	30976945	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccatgctcttctggagaCgacatggagatctccgacga	9	10	10	12	3	4	2	0	0	4	2	6	7	4	2	2	2	1	1	2	2	0	1	rs146323096		TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr16:30976945C>T	uc002ead.1	+	8	2429	c.1743C>T	c.(1741-1743)GAC>GAT	p.D581D		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	581	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						CTTCTGGAGACGACATGGAGA	0.562													12	29					0	0	0.132662	0	0		T	30976945	T	T	30976945	2	4	50	1	0	0	0	0	0	0	0	1	14155	535	19	1		1	SETD1A	16	30976945	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	2646442	30976945	59377808	127	38399											
TMCO7	79613	broad.mit.edu	37	chr16	68961816	68961816	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagtcaatgagcccagcActactacaagtcagaaatct	16	7	8	10	0	3	2	2	1	1	1	3	3	3	3	1	1	4	1	1	1	6	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr16:68961816A>G	uc002ewi.3	+	13	2485	c.2473A>G	c.(2473-2475)ACT>GCT	p.T825A		NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	825						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		TGAGCCCAGCACTACTACAAG	0.507													8	21					0	0	0.047766	0	0		G	68961816	G	G	68961816	3	3	50	1	0	0	0	0	1	0	0	0	16026	159	6	3	2523	3	TMCO7	16	68961816	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	37984871	68961816	21392937	128	38400											
TP53	7157	broad.mit.edu	37	chr17	7577129	7577129	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcacaaacacgcacctcaAagctgttccgtcccagtaga	13	6	8	14	2	1	1	1	0	0	1	3	1	3	1	3	1	2	5	3	1	3	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr17:7577129A>G	uc002gim.2	-	8	1003	c.809T>C	c.(808-810)TTT>TCT	p.F270S	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.F270S|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.F138S|TP53_uc010cng.1_Missense_Mutation_p.F138S|TP53_uc002gii.1_Missense_Mutation_p.F138S|TP53_uc010cnh.1_Missense_Mutation_p.F270S|TP53_uc010cni.1_Missense_Mutation_p.F270S|TP53_uc002gij.2_Missense_Mutation_p.F270S	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	270	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		F -> L (in sporadic cancers; somatic mutation).|F -> Y (in sporadic cancers; somatic mutation).|F -> C (in sporadic cancers; somatic mutation).|F -> V (in sporadic cancers; somatic mutation).|F -> S (in sporadic cancers; somatic mutation).|F -> I (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.F270L(22)|p.F270C(15)|p.F270V(8)|p.0?(7)|p.F270S(7)|p.F270Y(5)|p.F270I(3)|p.?(2)|p.G266_E271delGRNSFE(2)|p.G262_F270delGNLLGRNSF(2)|p.F270fs*72(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.E258fs*71(1)|p.S269fs*34(1)|p.F270_D281del12(1)|p.S269_F270insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ACGCACCTCAAAGCTGTTCCG	0.537		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			9	3					0	0	0.047766	0	0		G	7577129	G	G	7577129	3	3	50	1	0	0	0	0	1	0	0	0	16407	14	1	3	477	3	TP53	17	7577129	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08		7577129	73618081	129	38401											
MYO15A	51168	broad.mit.edu	37	chr17	18065937	18065937	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagaacctgcagaaaaccTtgcgcttcggaggtcgtctg	10	8	12	11	3	1	2	0	0	1	2	3	3	1	3	2	2	5	3	2	2	3	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr17:18065937T>G	uc010vxh.1	+	57	9894	c.9556T>G	c.(9556-9558)TTG>GTG	p.L3186V	MYO15A_uc010vxi.1_Missense_Mutation_p.L450V|MYO15A_uc010vxk.1_5'UTR|MYO15A_uc010vxl.1_Missense_Mutation_p.L175V|MYO15A_uc002gsl.2_Missense_Mutation_p.L193V|MYO15A_uc010vxm.1_Missense_Mutation_p.L108V|MYO15A_uc002gsm.1_Missense_Mutation_p.L108V|MYO15A_uc010cpv.2_RNA	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	3186	Tail.|MyTH4 2.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GCAGAAAACCTTGCGCTTCGG	0.582													20	12					0	0	0.069288	0	0		G	18065937	G	G	18065937	3	3	50	1	0	0	0	0	1	0	0	0	10081	1606	56	5	9778	5	MYO15A	17	18065937	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	10488808	18065937	63129273	130	38402											
NLK	51701	broad.mit.edu	37	chr17	26495496	26495496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtgattttggattggccaGagtggaagaattagatgaat	12	14	13	2	0	0	5	0	2	0	3	0	7	0	7	1	3	0	0	1	3	4	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr17:26495496G>A	uc010crj.2	+	6	1072	c.860G>A	c.(859-861)AGA>AAA	p.R287K	NLK_uc010cri.1_RNA	NM_016231	NP_057315	Q9UBE8	NLK_HUMAN	nemo like kinase	287	Protein kinase.				intracellular protein kinase cascade|negative regulation of Wnt receptor signaling pathway|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|serine phosphorylation of STAT3 protein|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|MAP kinase activity|SH2 domain binding|transcription factor binding|ubiquitin protein ligase binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_lung(13;0.000343)|Lung NSC(42;0.00184)			UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		GGATTGGCCAGAGTGGAAGAA	0.368													55	215					0	0	0.139131	0	0		A	26495496	A	A	26495496	3	1	50	1	0	0	0	0	1	0	0	0	10485	942	33	4	882	4	NLK	17	26495496	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	8429559	26495496	54699714	131	38403											
PIGS	94005	broad.mit.edu	37	chr17	26888484	26888484	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctcagcgctccacttgTcctctggaaggtggtcagcc	5	12	10	14	1	4	0	2	0	3	0	7	1	6	1	3	3	2	1	3	3	1	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr17:26888484T>G	uc002hbo.2	-	6	1005	c.632A>C	c.(631-633)GAC>GCC	p.D211A	PIGS_uc002hbn.2_Missense_Mutation_p.D203A|PIGS_uc010wap.1_Missense_Mutation_p.D150A	NM_033198	NP_149975	Q96S52	PIGS_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	211	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			breast(2)|urinary_tract(1)|kidney(1)	4	Lung NSC(42;0.00431)					GCTCCACTTGTCCTCTGGAAG	0.577													21	41					0	0	0.125774	0	0		G	26888484	G	G	26888484	3	3	50	1	0	0	0	0	1	0	0	0	11917	1667	58	5	1063	5	PIGS	17	26888484	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08	392988	26888484	54306726	132	38404											
PNMT	5409	broad.mit.edu	37	chr17	37826527	37826527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgagggaggccctggtgcGtagtggctacaaggtccggg	6	7	20	8	2	0	1	0	1	0	0	1	2	1	2	2	7	2	2	2	7	3	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr17:37826527G>A	uc002hsi.1	+	3	956	c.734G>A	c.(733-735)CGT>CAT	p.R245H		NM_002686	NP_002677	P11086	PNMT_HUMAN	phenylethanolamine N-methyltransferase	245					catecholamine biosynthetic process|hormone biosynthetic process	cytosol	phenylethanolamine N-methyltransferase activity			ovary(1)	1	all_cancers(6;6.59e-85)|all_epithelial(6;2.89e-103)|Breast(7;1.05e-86)|Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;3.87e-45)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GCCCTGGTGCGTAGTGGCTAC	0.637													14	68					0	0	0.146539	0	0		A	37826527	A	A	37826527	3	1	50	1	0	0	0	0	1	0	0	0	12178	1145	40	1	744	1	PNMT	17	37826527	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	10938043	37826527	43368683	133	38405											
KRT13	3860	broad.mit.edu	37	chr17	39661551	39661551	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaacaaagccaccagcaaaAcccccaccaaagccacctcc	16	2	3	20	0	1	0	1	0	0	0	2	0	2	0	8	0	5	1	8	0	5	0			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr17:39661551A>G	uc002hwu.1	-	1	315	c.252T>C	c.(250-252)GGT>GGC	p.G84G	KRT13_uc002hwv.1_Silent_p.G84G|KRT13_uc002hww.2_Intron|KRT13_uc010wfr.1_Intron|KRT13_uc010cxo.2_Silent_p.G84G|KRT13_uc002hwx.1_Silent_p.G72G	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	84	Gly-rich.|Head.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				caccagcaaaacccccaccaa	0.164													17	46					0	0	0.146539	0	0		G	39661551	G	G	39661551	2	3	50	1	0	0	0	0	0	0	0	1	8466	30	2	3		3	KRT13	17	39661551	Silent	SNP	A	TCGA-BR-7715-01A-11D-2053-08	1835024	39661551	41533659	134	38406											
TTC25	83538	broad.mit.edu	37	chr17	40113416	40113416	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggccttggacgatgccaAcaagggtatcatcagagaac	14	6	11	10	1	2	1	2	0	0	1	2	4	2	2	2	3	3	1	2	3	4	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr17:40113416A>G	uc002hyj.3	+	10	1549	c.1460A>G	c.(1459-1461)AAC>AGC	p.N487S	TTC25_uc010cxt.2_RNA	NM_031421	NP_113609	Q96NG3	TTC25_HUMAN	tetratricopeptide repeat domain 25	487						cytoplasm	protein binding			ovary(1)	1		all_cancers(22;8.16e-06)|Breast(137;0.000143)|all_epithelial(22;0.000236)				GACGATGCCAACAAGGGTATC	0.488													4	17					0	0	0.021553	0	0		G	40113416	G	G	40113416	3	3	50	1	0	0	0	0	1	0	0	0	16719	43	2	3	1306	3	TTC25	17	40113416	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	451865	40113416	41081794	135	38407											
MPP3	4356	broad.mit.edu	37	chr17	41886367	41886367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagctggggacataggtggcGtttttcttttttcctgaatt	7	17	11	6	1	1	1	0	1	1	0	2	2	2	2	1	4	1	2	1	4	3	7			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr17:41886367G>A	uc002iei.3	-	19	1704	c.1538C>T	c.(1537-1539)ACG>ATG	p.T513M	MPP3_uc002ieh.2_Missense_Mutation_p.T538M|MPP3_uc002iej.2_RNA	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	513	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		CATAGGTGGCGTTTTTCTTTT	0.408													17	36					0	0	0.0333	0	0		A	41886367	A	A	41886367	3	1	50	1	0	0	0	0	1	0	0	0	9753	1145	40	1	227	1	MPP3	17	41886367	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	1772951	41886367	39308843	136	38408											
FMNL1	752	broad.mit.edu	37	chr17	43318901	43318901	+	Frame_Shift_Del	DEL	G	-	-																															atccgtattctgcgggggccGggggatgctgtctccatcga																										TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr17:43318901delG	uc002iin.2	+	14	1685	c.1485delG	c.(1483-1485)CCGfs	p.P495fs	FMNL1_uc002iiq.2_Frame_Shift_Del_p.P73fs|FMNL1_uc010dag.2_5'Flank	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	495	Pro-rich.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						TGCGGGGGCCGGGGGATGCTG	0.697													3	6	---	---	---	---						.	-	43318901	-	-	43318901	7	5	50	1	0	1	0	1	0	0	0	0	5965	1103	39	0	1539	0	FMNL1	17	43318901	Frame_Shift_Del	DEL	G	TCGA-BR-7715-01A-11D-2053-08	1432534	43318901	37876309	137	38409											
ENPP7	339221	broad.mit.edu	37	chr17	77708918	77708918	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgtgacgcggagccggaAagaaggcatcgcacacaact	12	4	14	11	4	0	2	0	1	0	1	1	4	0	4	1	4	2	3	1	4	3	0			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr17:77708918A>G	uc002jxa.2	+	3	496	c.476A>G	c.(475-477)AAA>AGA	p.K159R		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	159					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CGGAGCCGGAAAGAAGGCATC	0.587													4	65					0	0	0.014758	0	0		G	77708918	G	G	77708918	3	3	50	1	0	0	0	0	1	0	0	0	5143	14	1	3	486	3	ENPP7	17	77708918	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	34390017	77708918	3486292	138	38410											
FASN	2194	broad.mit.edu	37	chr17	80041944	80041944	+	Frame_Shift_Del	DEL	C	-	-																															cgagtggatgagcagcgtctCcccggggcgcacccgcccac																										TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr17:80041944delC	uc002kdu.2	-	29	5122	c.5005delG	c.(5005-5007)GAGfs	p.E1669fs	FASN_uc002kdv.1_5'Flank	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	1669	Enoyl reductase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	AGCAGCGTCTCCCCGGGGCGC	0.721													2	4	---	---	---	---						.	-	80041944	-	-	80041944	7	5	50	1	0	1	0	1	0	0	0	0	5697	864	30	0	2590	0	FASN	17	80041944	Frame_Shift_Del	DEL	C	TCGA-BR-7715-01A-11D-2053-08	2333026	80041944	1153266	139	38411											
DLGAP1	9229	broad.mit.edu	37	chr18	3534395	3534395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatagaggggtcaaaatccGtgtcaaagtcatcatcggcg	13	8	12	8	3	4	1	4	0	0	1	6	2	5	1	1	3	0	0	1	3	5	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr18:3534395G>A	uc002kmf.2	-	7	2343	c.2276C>T	c.(2275-2277)ACG>ATG	p.T759M	DLGAP1_uc010wyz.1_Missense_Mutation_p.T759M|DLGAP1_uc002kme.1_Missense_Mutation_p.T457M|DLGAP1_uc010dkn.2_Missense_Mutation_p.T467M|DLGAP1_uc010wyw.1_Missense_Mutation_p.T465M|DLGAP1_uc010wyx.1_Missense_Mutation_p.T481M|DLGAP1_uc010wyy.1_Missense_Mutation_p.T443M|DLGAP1_uc002kmg.2_Missense_Mutation_p.T457M	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	759					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				GTCAAAATCCGTGTCAAAGTC	0.567													7	32					0	0	0.02938	0	0		A	3534395	A	A	3534395	3	1	50	1	0	0	0	0	1	0	0	0	4565	1145	40	1	673	1	DLGAP1	18	3534395	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08		3534395	74542853	140	38412											
DCC	1630	broad.mit.edu	37	chr18	51013269	51013269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacccgcagttcactctccGgcctgtgccattcccaacac	7	8	6	20	2	2	0	1	0	1	0	4	0	3	0	6	1	2	2	6	1	1	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr18:51013269G>A	uc002lfe.1	+	26	4426	c.3839G>A	c.(3838-3840)CGG>CAG	p.R1280Q	DCC_uc010dpf.1_Missense_Mutation_p.R915Q	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1280	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TTCACTCTCCGGCCTGTGCCA	0.532													55	96					0	0	0.139131	0	0		A	51013269	A	A	51013269	3	1	50	1	0	0	0	0	1	0	0	0	4285	1116	39	1	3941	1	DCC	18	51013269	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	47478874	51013269	27063979	141	38413											
RDH8	50700	broad.mit.edu	37	chr19	10132337	10132337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgtgcgaacgacccaccGcctcctcttccgctgtccac	6	9	8	18	4	1	0	0	0	1	0	4	2	4	0	6	0	2	2	6	0	2	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr19:10132337G>A	uc002mmr.2	+	6	1097	c.848G>A	c.(847-849)CGC>CAC	p.R283H		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	283					estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	ACGACCCACCGCCTCCTCTTC	0.632													13	43					0	0	0.134883	0	0		A	10132337	A	A	10132337	3	1	50	1	0	0	0	0	1	0	0	0	13221	1087	38	1	870	1	RDH8	19	10132337	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08		10132337	48996646	142	38414											
EPHX3	79852	broad.mit.edu	37	chr19	15341777	15341777	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggactcccacacacaccttgGtacaccgacatgggggcacc	10	5	10	16	1	0	0	0	0	0	0	1	2	1	1	4	4	1	2	4	4	1	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr19:15341777G>T	uc002nap.2	-	4	821	c.612C>A	c.(610-612)TAC>TAA	p.Y204*	EPHX3_uc002naq.2_Nonsense_Mutation_p.Y204*	NM_024794	NP_079070	Q9H6B9	EPHX3_HUMAN	abhydrolase domain containing 9 precursor	204						extracellular region	hydrolase activity				0						ACACACCTTGGTACACCGACA	0.552													4	112					2.0095e-06	2.11226e-06	0.02938	1	0		T	15341777	T	T	15341777	4	4	50	1	0	0	0	0	0	1	0	0	5189	1256	44	5	486	5	EPHX3	19	15341777	Nonsense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	5209440	15341777	43787206	143	38415											
CPAMD8	27151	broad.mit.edu	37	chr19	17014389	17014389	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcatcaggcagcagccGtcccccttggcactcacaaa	10	6	8	17	1	2	0	2	0	0	0	3	0	3	0	4	2	3	4	4	2	1	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr19:17014389G>A	uc002nfb.2	-	34	4625	c.4593C>T	c.(4591-4593)GAC>GAT	p.D1531D	CPAMD8_uc002nfd.1_Translation_Start_Site	NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1484						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						GGCAGCAGCCGTCCCCCTTGG	0.617													12	84					0	0	0.09319	0	0		A	17014389	A	A	17014389	2	1	50	1	0	0	0	0	0	0	0	1	3798	1136	40	1		1	CPAMD8	19	17014389	Silent	SNP	G	TCGA-BR-7715-01A-11D-2053-08	1672612	17014389	42114594	144	38416											
ARHGEF1	9138	broad.mit.edu	37	chr19	42397364	42397364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacataccatctctaccgacGaagaaaagaggtgagggggg	14	5	14	8	2	1	3	0	1	1	2	2	6	1	3	2	4	2	0	2	4	5	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr19:42397364G>A	uc002orx.2	+	8	743	c.634G>A	c.(634-636)GAA>AAA	p.E212K	ARHGEF1_uc002orw.1_Missense_Mutation_p.E212K|ARHGEF1_uc002ory.2_Missense_Mutation_p.E179K|ARHGEF1_uc002orz.2_Missense_Mutation_p.E50K|ARHGEF1_uc002osa.2_Missense_Mutation_p.E227K|ARHGEF1_uc002osb.2_Missense_Mutation_p.E194K|ARHGEF1_uc002osc.2_5'Flank	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	212	RGSL.				cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		CTCTACCGACGAAGAAAAGAG	0.279													3	22					0	0	0.014758	0	0		A	42397364	A	A	42397364	3	1	50	1	0	0	0	0	1	0	0	0	893	1059	37	1	709	1	ARHGEF1	19	42397364	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	25382975	42397364	16731619	145	38417											
MYBPC2	4606	broad.mit.edu	37	chr19	50958492	50958492	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctatgagatgcgtgtcttCgccgtcaatgctataggggt	7	13	12	9	3	3	1	1	1	2	1	4	2	3	1	1	2	2	1	1	2	4	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr19:50958492C>T	uc002psf.2	+	19	2193	c.2142C>T	c.(2140-2142)TTC>TTT	p.F714F		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	714	Fibronectin type-III 1.				cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		TGCGTGTCTTCGCCGTCAATG	0.493													73	34					0	0	0.139131	0	0		T	50958492	T	T	50958492	2	4	50	1	0	0	0	0	0	0	0	1	10030	883	31	1		1	MYBPC2	19	50958492	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	8561128	50958492	8170491	146	38418											
NLRP8	126205	broad.mit.edu	37	chr19	56490859	56490859	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggacttgagcaagaatgcGattggagtctatggtattct	10	13	12	6	1	2	2	0	1	2	1	2	5	2	4	0	3	2	2	0	3	4	5	rs111647316		TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr19:56490859G>A	uc002qmh.2	+	9	3047	c.2976G>A	c.(2974-2976)GCG>GCA	p.A992A	NLRP8_uc010etg.2_Silent_p.A973A	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	992	LRR 6.					cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		GCAAGAATGCGATTGGAGTCT	0.498													21	45					0	0	0.055883	0	0		A	56490859	A	A	56490859	2	1	50	1	0	0	0	0	0	0	0	1	10502	1045	37	1		1	NLRP8	19	56490859	Silent	SNP	G	TCGA-BR-7715-01A-11D-2053-08	5532367	56490859	2638124	147	38419											
CPXM1	56265	broad.mit.edu	37	chr20	2779456	2779456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcaccagtggggtggggcGagttagagttagcttcttcc	7	11	15	8	1	2	1	1	0	1	1	3	2	3	1	2	4	1	3	2	4	2	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr20:2779456G>A	uc002wgu.2	-	2	320	c.256C>T	c.(256-258)CGC>TGC	p.R86C	CPXM1_uc010gas.2_Missense_Mutation_p.R86C	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	86					cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						GGGGTGGGGCGAGTTAGAGTT	0.567													17	206					0	0	0.038395	0	0		A	2779456	A	A	2779456	3	1	50	1	0	0	0	0	1	0	0	0	3840	1058	37	1	2000	1	CPXM1	20	2779456	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08		2779456	60246064	148	38420											
JAG1	182	broad.mit.edu	37	chr20	10633188	10633188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcattacagatgccgtggaCgcatcccgggtgtgggatgc	7	9	14	11	3	1	1	1	0	0	1	2	3	2	3	2	3	3	1	2	3	1	1	rs148990028	byFrequency	TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr20:10633188C>T	uc002wnw.2	-	6	1330	c.814G>A	c.(814-816)GTC>ATC	p.V272I	JAG1_uc010gcd.1_5'Flank	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	272	Extracellular (Potential).|EGF-like 2; atypical.				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						ATGCCGTGGACGCATCCCGGG	0.587									Alagille_Syndrome				4	130					0	0	0.014758	0	0		T	10633188	T	T	10633188	3	4	50	1	0	0	0	0	1	0	0	0	7950	536	19	1	2926	1	JAG1	20	10633188	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	7853732	10633188	52392332	149	38421											
SPTLC3	55304	broad.mit.edu	37	chr20	13140725	13140725	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagccactcccctcgcagaAgctcgggctcggttttgtgt	5	10	11	15	3	0	1	0	0	0	1	4	1	1	1	4	2	2	4	4	2	1	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr20:13140725A>C	uc002wod.1	+	11	1780	c.1491A>C	c.(1489-1491)GAA>GAC	p.E497D		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	497					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	CCCTCGCAGAAGCTCGGGCTC	0.498													64	107					0	0	0.139131	0	0		C	13140725	C	C	13140725	3	2	50	1	0	0	0	0	1	0	0	0	15150	69	3	5	1533	5	SPTLC3	20	13140725	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	2507537	13140725	49884795	150	38422											
PLAGL2	5326	broad.mit.edu	37	chr20	30785006	30785006	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggctctgtcttgatcttgAgcagctcctgcgagtggctc	4	12	13	12	2	3	2	0	2	3	0	5	3	4	2	1	2	3	4	1	2	0	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr20:30785006A>C	uc002wxn.2	-	3	957	c.740T>G	c.(739-741)CTC>CGC	p.L247R		NM_002657	NP_002648	Q9UPG8	PLAL2_HUMAN	pleiomorphic adenoma gene-like 2	247						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CTTGATCTTGAGCAGCTCCTG	0.577													24	47					0	0	0.083992	0	0		C	30785006	C	C	30785006	3	2	50	1	0	0	0	0	1	0	0	0	12039	304	11	5	754	5	PLAGL2	20	30785006	Missense_Mutation	SNP	A	TCGA-BR-7715-01A-11D-2053-08	17644281	30785006	32240514	151	38423											
CSE1L	1434	broad.mit.edu	37	chr20	47682762	47682762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaacaaaatttgtgaagccGatcgagtggccattaaagcc	15	8	9	9	2	0	1	0	1	0	0	1	3	0	1	3	1	3	0	3	1	6	2			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr20:47682762G>A	uc002xty.2	+	4	396	c.262G>A	c.(262-264)GAT>AAT	p.D88N	CSE1L_uc010zyg.1_Intron|CSE1L_uc010ghx.2_Missense_Mutation_p.D88N	NM_001316	NP_001307	P55060	XPO2_HUMAN	CSE1 chromosome segregation 1-like protein	88	Importin N-terminal.				apoptosis|cell proliferation|intracellular protein transport	cytoplasm|nucleus	importin-alpha export receptor activity			large_intestine(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000491)|Colorectal(8;0.198)			TTGTGAAGCCGATCGAGTGGC	0.418													7	120					0	0	0.058154	0	0		A	47682762	A	A	47682762	3	1	50	1	0	0	0	0	1	0	0	0	3933	1058	37	1	272	1	CSE1L	20	47682762	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	16897756	47682762	15342758	152	38424											
MCM3AP	8888	broad.mit.edu	37	chr21	47695170	47695170	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcatgtacctctccttcTcaggacacatatccaggcag	9	9	7	16	1	2	0	1	0	2	0	5	1	3	1	4	2	1	3	4	2	2	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr21:47695170T>G	uc002zir.1	-	6	1964	c.1928A>C	c.(1927-1929)GAG>GCG	p.E643A		NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	643					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					CCTCTCCTTCTCAGGACACAT	0.542													4	22					0	0	0.009096	0	0		G	47695170	G	G	47695170	3	3	50	1	0	0	0	0	1	0	0	0	9406	1551	54	5	4106	5	MCM3AP	21	47695170	Missense_Mutation	SNP	T	TCGA-BR-7715-01A-11D-2053-08		47695170	434725	153	38425											
ZNF74	7625	broad.mit.edu	37	chr22	20760724	20760724	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgcaccggcgcatccacagCggcgagaagcccttcaagtg	9	5	13	14	4	1	1	1	0	0	1	2	2	2	1	3	2	3	2	3	2	2	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr22:20760724C>T	uc010gsm.2	+	6	1613	c.1401C>T	c.(1399-1401)AGC>AGT	p.S467S	ZNF74_uc002zsg.2_Silent_p.S396S|ZNF74_uc002zsh.2_Silent_p.S467S|ZNF74_uc002zsi.2_Silent_p.S396S|ZNF74_uc010gsn.2_Silent_p.S396S	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	467					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GCATCCACAGCGGCGAGAAGC	0.652													3	28					0	0	0.115264	0	0		T	20760724	T	T	20760724	2	4	50	1	0	0	0	0	0	0	0	1	18152	767	27	1		1	ZNF74	22	20760724	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08		20760724	30543842	154	38426											
SCARF2	91179	broad.mit.edu	37	chr22	20780319	20780319	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggtttcctgcgctcgggCgatggcgacagcgacaggcc	5	6	17	13	6	0	0	0	0	0	0	2	3	1	0	2	5	2	2	2	5	0	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr22:20780319C>T	uc002zsj.1	-	11	2064	c.1959G>A	c.(1957-1959)TCG>TCA	p.S653S	SCARF2_uc002zsk.1_Silent_p.S648S	NM_153334	NP_699165	Q96GP6	SREC2_HUMAN	scavenger receptor class F, member 2 isoform 1	648	Pro-rich.|Cytoplasmic (Potential).				cell adhesion	integral to membrane	protein binding|receptor activity			breast(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			TGCGCTCGGGCGATGGCGACA	0.627													3	13					0	0	0.115264	0	0		T	20780319	T	T	20780319	2	4	50	1	0	0	0	0	0	0	0	1	13909	755	27	1		1	SCARF2	22	20780319	Silent	SNP	C	TCGA-BR-7715-01A-11D-2053-08	19595	20780319	30524247	155	38427											
SMTN	6525	broad.mit.edu	37	chr22	31486955	31486955	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgttccttctagagtccaccCcccttgccagcggaccttcc	5	11	7	18	1	1	1	0	0	1	1	4	2	4	2	8	1	2	1	8	1	1	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chr22:31486955C>A	uc003ajl.1	+	10	1164	c.946C>A	c.(946-948)CCC>ACC	p.P316T	SMTN_uc003ajk.1_Missense_Mutation_p.P316T|SMTN_uc003ajm.1_Missense_Mutation_p.P316T|SMTN_uc011ale.1_Missense_Mutation_p.P370T|SMTN_uc011alf.1_Missense_Mutation_p.P372T|SMTN_uc003ajn.1_Missense_Mutation_p.P308T|SMTN_uc011alg.1_5'UTR|SMTN_uc003ajo.1_5'Flank|SMTN_uc011alh.1_5'Flank|SMTN_uc010gwe.1_5'Flank	NM_006932	NP_008863	P53814	SMTN_HUMAN	smoothelin isoform c	316					muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3						AGAGTCCACCCCCCTTGCCAG	0.582													37	29					3.93418e-24	4.33228e-24	0.069456	1	0		A	31486955	A	A	31486955	3	1	50	1	0	0	0	0	1	0	0	0	14839	623	22	5	980	5	SMTN	22	31486955	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	10706636	31486955	19817611	156	38428											
FAM9A	171482	broad.mit.edu	37	chrX	8761697	8761697	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgttaccaaatagaacagAcctttagtaattgctcaagt	15	13	6	7	0	1	2	1	0	0	2	1	2	1	2	2	0	3	3	2	0	8	7			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chrX:8761697A>G	uc004csg.2	-	8	1041	c.930_splice	c.e8+1	p.K310_splice		NM_174951	NP_777611	Q8IZU1	FAM9A_HUMAN	family with sequence similarity 9, member A							nucleolus					0		Hepatocellular(5;0.219)				AATAGAACAGACCTTTAGTAA	0.378													25	5					0	0	0.076483	0	0		G	8761697	G	G	8761697	5	3	50	1	0	0	0	0	0	0	1	0	5673	289	10	3	74	3	FAM9A	23	8761697	Splice_Site	SNP	A	TCGA-BR-7715-01A-11D-2053-08		8761697	146508863	157	38429											
MED12	9968	broad.mit.edu	37	chrX	70341241	70341241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttttgagaagatccgccCtggagaggatgaattgctta	10	12	13	6	1	0	4	0	2	0	3	1	7	1	5	2	2	1	2	2	2	3	4			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chrX:70341241C>T	uc004dyy.2	+	6	999	c.800C>T	c.(799-801)CCT>CTT	p.P267L	MED12_uc011mpq.1_Missense_Mutation_p.P267L|MED12_uc004dyz.2_Missense_Mutation_p.P267L|MED12_uc004dza.2_Missense_Mutation_p.P114L	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	267					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					AAGATCCGCCCTGGAGAGGAT	0.512													9	89					0	0	0.105934	0	0		T	70341241	T	T	70341241	3	4	50	1	0	0	0	0	1	0	0	0	9446	681	24	4	822	4	MED12	23	70341241	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	61579544	70341241	84929319	158	38430											
MID2	11043	broad.mit.edu	37	chrX	107084451	107084451	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accgcctggtggaaccagtgCcagacacacatcttcgaggg	10	6	12	13	2	1	1	0	0	1	1	2	3	1	2	4	3	2	0	4	3	1	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chrX:107084451C>T	uc004enl.2	+	2	1129	c.556C>T	c.(556-558)CCA>TCA	p.P186S	MID2_uc004enk.2_Missense_Mutation_p.P186S	NM_012216	NP_036348	Q9UJV3	TRIM1_HUMAN	midline 2 isoform 1	186						centrosome|microtubule	ligase activity|zinc ion binding			ovary(1)	1						GGAACCAGTGCCAGACACACA	0.522													18	38					0	0	0.055883	0	0		T	107084451	T	T	107084451	3	4	50	1	0	0	0	0	1	0	0	0	9596	739	26	2	562	2	MID2	23	107084451	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	36743210	107084451	48186109	159	38431											
DCAF12L1	139170	broad.mit.edu	37	chrX	125685821	125685821	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgcggttactggggttgatGatggccctggggatggcctc	4	12	17	8	1	0	2	0	2	0	0	1	3	0	3	2	7	2	2	2	7	1	3			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chrX:125685821G>A	uc004eul.2	-	1	1022	c.771C>T	c.(769-771)ATC>ATT	p.I257I		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	257										skin(3)|ovary(1)	4						TGGGGTTGATGATGGCCCTGG	0.622													12	15					0	0	0.11911	0	0		A	125685821	A	A	125685821	2	1	50	1	0	0	0	0	0	0	0	1	4267	1280	45	4		4	DCAF12L1	23	125685821	Silent	SNP	G	TCGA-BR-7715-01A-11D-2053-08	18601370	125685821	29584739	160	38432											
USP26	83844	broad.mit.edu	37	chrX	132160682	132160682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaactcattcaagctatagcGtttgaggtgaacaataagga	16	10	9	6	1	2	2	2	2	0	0	2	3	2	3	0	2	4	2	0	2	7	5			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chrX:132160682G>A	uc010nrm.1	-	6	2037	c.1567C>T	c.(1567-1569)CGC>TGC	p.R523C	USP26_uc011mvf.1_Missense_Mutation_p.R523C	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	523					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					AAGCTATAGCGTTTGAGGTGA	0.393													103	21					0	0	0.139131	0	0		A	132160682	A	A	132160682	3	1	50	1	0	0	0	0	1	0	0	0	17083	1145	40	1	1177	1	USP26	23	132160682	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	6474861	132160682	23109878	161	38433											
SLITRK4	139065	broad.mit.edu	37	chrX	142718111	142718111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatggaggcaggatgcgcaCgtcaaaatcactgccggtgc	11	6	14	10	3	2	1	2	0	0	1	2	3	2	3	1	4	3	2	1	4	2	0			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chrX:142718111C>T	uc004fbx.2	-	2	1190	c.814G>A	c.(814-816)GTG>ATG	p.V272M	SLITRK4_uc004fby.2_Missense_Mutation_p.V272M	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	272	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					AGGATGCGCACGTCAAAATCA	0.448													28	39					0	0	0.108266	0	0		T	142718111	T	T	142718111	3	4	50	1	0	0	0	0	1	0	0	0	14770	536	19	1	1703	1	SLITRK4	23	142718111	Missense_Mutation	SNP	C	TCGA-BR-7715-01A-11D-2053-08	10557429	142718111	12552449	162	38434											
ATP2B3	492	broad.mit.edu	37	chrX	152821535	152821535	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctatccgaaaatgccagcGtgctggcatcacagtccgca	11	7	10	13	3	1	0	1	0	0	0	3	1	3	0	3	1	4	4	3	1	3	1			TCGA-BR-7715-01A-11D-2053-08	TCGA-BR-7715-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	89cb9b02-63ad-44b5-8412-acd337f8263c	fccadef5-7ed3-4f54-87ac-0c5796979cf7	g.chrX:152821535G>A	uc004fht.1	+	12	2213	c.2087G>A	c.(2086-2088)CGT>CAT	p.R696H	ATP2B3_uc004fhs.1_Missense_Mutation_p.R696H	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	696	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AAATGCCAGCGTGCTGGCATC	0.597													66	75					0	0	0.139131	0	0		A	152821535	A	A	152821535	3	1	50	1	0	0	0	0	1	0	0	0	1142	1145	40	1	2133	1	ATP2B3	23	152821535	Missense_Mutation	SNP	G	TCGA-BR-7715-01A-11D-2053-08	10103424	152821535	2449025	163	38435											
ZBTB17	7709	broad.mit.edu	37	chr1	16269638	16269638	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acgctgcacttgtgtgggcgGatgttgtcgtggtggcgaat	5	12	17	7	4	0	0	0	0	0	0	1	2	0	1	0	4	1	3	0	4	1	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:16269638G>A	uc001axl.3	-	13	1988	c.1749C>T	c.(1747-1749)ATC>ATT	p.I583I	ZBTB17_uc010obq.1_Silent_p.I500I|ZBTB17_uc010obr.1_Silent_p.I583I|ZBTB17_uc010obs.1_Silent_p.I507I	NM_003443	NP_003434	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17	583					negative regulation of cell cycle	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		TGTGTGGGCGGATGTTGTCGT	0.592													15	108					0	0	0.006122	0	0		A	16269638	A	A	16269638	2	1	51	1	0	0	0	0	0	0	0	1	17552	1164	41	4		4	ZBTB17	1	16269638	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08		16269638	232980983	1	38436											
EPHA8	2046	broad.mit.edu	37	chr1	22903373	22903373	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcggcgggatgcctgtgtgGgtgagcgcgccatggcctgg	4	7	20	10	4	0	1	0	1	0	0	0	2	0	2	3	5	3	0	3	5	0	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:22903373G>C	uc001bfx.1	+	3	948	c.823G>C	c.(823-825)GCC>CCC	p.A275P	EPHA8_uc001bfw.2_Missense_Mutation_p.A275P	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	275	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TGCCTGTGTGGGTGAGCGCGC	0.682													4	19					0	0	0.009096	0	0		C	22903373	C	C	22903373	3	2	51	1	0	0	0	0	1	0	0	0	5181	1246	43	5	833	5	EPHA8	1	22903373	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	6633735	22903373	226347248	2	38437											
MACF1	23499	broad.mit.edu	37	chr1	39753193	39753193	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagatgaaggcaatctcCgatttgtgtatgaactactg	12	12	10	7	1	1	4	0	3	1	1	2	5	1	4	1	1	2	2	1	1	6	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:39753193C>T	uc010ois.1	+	16	1964	c.1759C>T	c.(1759-1761)CGA>TGA	p.R587*	MACF1_uc001cda.1_Nonsense_Mutation_p.R495*	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	587					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AGGCAATCTCCGATTTGTGTA	0.468													22	137					0	0	0.009535	0	0		T	39753193	T	T	39753193	4	4	51	1	0	0	0	0	0	1	0	0	9162	644	23	1	1813	1	MACF1	1	39753193	Nonsense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	16849820	39753193	209497428	3	38438											
MACF1	23499	broad.mit.edu	37	chr1	39788669	39788669	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtgatgcactccggcgtctgGaggaggaggaggtgaggaca	9	6	19	7	2	1	2	0	2	1	0	2	7	2	7	1	7	1	1	1	7	0	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:39788669G>C	uc010ois.1	+	34	4445	c.4240G>C	c.(4240-4242)GAG>CAG	p.E1414Q	MACF1_uc001cda.1_Missense_Mutation_p.E1322Q|MACF1_uc001cdc.1_Missense_Mutation_p.E501Q|MACF1_uc009vvq.1_Missense_Mutation_p.E471Q|MACF1_uc001cdb.1_Missense_Mutation_p.E501Q	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1414	Poly-Glu.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CCGGCGTCTGGAGGAGGAGGA	0.388													13	104					0	0	0.020292	0	0		C	39788669	C	C	39788669	3	2	51	1	0	0	0	0	1	0	0	0	9162	1175	41	5	4366	5	MACF1	1	39788669	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	35476	39788669	209461952	4	38439											
PPT1	5538	broad.mit.edu	37	chr1	40558102	40558102	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcccaatctctaaagataAgacgtaaattccaggtattt	14	13	5	9	1	1	2	0	0	1	2	4	2	3	2	2	1	0	2	2	1	7	7			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:40558102A>G	uc001cfb.2	-	2	434	c.202T>C	c.(202-204)TTA>CTA	p.L68L	PPT1_uc010ojf.1_Silent_p.L18L|PPT1_uc010ojg.1_Intron|PPT1_uc009vwa.2_RNA	NM_000310	NP_000301	P50897	PPT1_HUMAN	palmitoyl-protein thioesterase 1 isoform 1	68					brain development|cofactor metabolic process|cofactor transport|DNA fragmentation involved in apoptotic nuclear change|lysosomal lumen acidification|membrane raft organization|negative regulation of cell growth|negative regulation of neuron apoptosis|neuron development|pinocytosis|positive regulation of pinocytosis|positive regulation of receptor-mediated endocytosis|protein depalmitoylation|protein transport|receptor-mediated endocytosis|regulation of synapse structure and activity|sphingolipid catabolic process|visual perception	axon|cytosol|Golgi apparatus|lysosome|membrane fraction|membrane raft|nucleus|synaptic vesicle	palmitoyl-(protein) hydrolase activity|palmitoyl-CoA hydrolase activity			ovary(1)	1	Lung NSC(20;3.43e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1e-18)|Epithelial(16;3.6e-17)|all cancers(16;1.1e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TCTAAAGATAAGACGTAAATT	0.408													13	79					0	0	0.020292	0	0		G	40558102	G	G	40558102	2	3	51	1	0	0	0	0	0	0	0	1	12433	69	3	3		3	PPT1	1	40558102	Silent	SNP	A	TCGA-BR-7716-01A-21D-2053-08	769433	40558102	208692519	5	38440											
SLFNL1	200172	broad.mit.edu	37	chr1	41485930	41485930	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggcccttgggcctcacTcaatagcaggtccttcccac	8	8	10	15	0	2	0	2	0	0	0	4	1	4	0	4	3	1	1	4	3	3	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:41485930T>G	uc001cgm.1	-	2	623	c.403A>C	c.(403-405)AGT>CGT	p.S135R	SLFNL1_uc009vwf.1_Missense_Mutation_p.S135R|SLFNL1_uc001cgn.1_Missense_Mutation_p.S135R|SLFNL1_uc009vwg.1_Missense_Mutation_p.S135R	NM_144990	NP_659427	Q499Z3	SLNL1_HUMAN	schlafen-like 1	135							ATP binding			skin(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0393)				TGGGCCTCACTCAATAGCAGG	0.632													5	56					0	0	0.014758	0	0		G	41485930	G	G	41485930	3	3	51	1	0	0	0	0	1	0	0	0	14763	1551	54	5	836	5	SLFNL1	1	41485930	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08	927828	41485930	207764691	6	38441											
PTPRF	5792	broad.mit.edu	37	chr1	44071948	44071948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaaggcggagaggagcagcGgcggcggcggcggcaggcag	8	0	23	10	6	0	1	0	0	0	1	0	3	0	2	0	9	2	4	0	9	1	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:44071948G>A	uc001cjr.2	+	20	3861	c.3521G>A	c.(3520-3522)CGG>CAG	p.R1174Q	PTPRF_uc001cjs.2_Missense_Mutation_p.R1165Q|PTPRF_uc001cju.2_Missense_Mutation_p.R552Q|PTPRF_uc009vwt.2_Missense_Mutation_p.R734Q|PTPRF_uc001cjv.2_Missense_Mutation_p.R634Q|PTPRF_uc001cjw.2_Missense_Mutation_p.R400Q	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1174	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GAGGAGCAGCGGCGGCGGCGG	0.632													3	78					0	0	0.009096	0	0		A	44071948	A	A	44071948	3	1	51	1	0	0	0	0	1	0	0	0	12826	1116	39	1	3591	1	PTPRF	1	44071948	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	2586018	44071948	205178673	7	38442											
USP24	23358	broad.mit.edu	37	chr1	55566627	55566627	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtctgtgtcatcatccactGaaagtaatgactgcacagaa	13	11	8	9	0	3	3	2	2	1	1	4	3	4	3	1	0	1	2	1	0	3	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:55566627G>A	uc001cyg.3	-	41	4676	c.4676C>T	c.(4675-4677)TCA>TTA	p.S1559L		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	1719					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						ATCATCCACTGAAAGTAATGA	0.378													6	74					0	0	0.00308	0	0		A	55566627	A	A	55566627	3	1	51	1	0	0	0	0	1	0	0	0	17081	1294	45	4	2806	4	USP24	1	55566627	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	11494679	55566627	193683994	8	38443											
USP24	23358	broad.mit.edu	37	chr1	55599811	55599812	+	Silent	DNP	GA	AT	AT																															atcagtgggtatcaagagcaGaagcttccgtactcgtagag																										TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:55599811_55599812GA>AT	uc001cyg.3	-	27	2832_2833	c.2832_2833TC>AT	c.(2830-2835)CTTCTG>CTATTG	p.944_945LL>LL		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	1104_1105					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity	p.E944G(1)		ovary(6)|kidney(6)|breast(1)	13						ATCAAGAGCAGAAGCTTCCGTA	0.342													5	25					0	0	0.004672	0	0		AT	55599812	AT	AT	55599811	2	1	51	1	0	0	0	0	0	0	0	1	17081	933	33	4		4	USP24	1	55599811	Silent	DNP	GA	TCGA-BR-7716-01A-21D-2053-08	33184	55599811	193650810	9	38444											
SORT1	6272	broad.mit.edu	37	chr1	109883434	109883434	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggtagtgtagagatgTcggtccaaagacttggaata	11	11	13	6	1	0	2	0	0	0	2	2	4	1	3	2	3	0	2	2	3	5	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:109883434T>C	uc001dxm.1	-	10	1225	c.1176A>G	c.(1174-1176)CGA>CGG	p.R392R	SORT1_uc010ovi.1_Silent_p.R255R	NM_002959	NP_002950	Q99523	SORT_HUMAN	sortilin 1 preproprotein	392	Extracellular (Potential).				endocytosis|endosome to lysosome transport|endosome transport via multivesicular body sorting pathway|glucose import|Golgi to endosome transport|induction of apoptosis by extracellular signals|myotube differentiation|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|neuropeptide signaling pathway|ossification|plasma membrane to endosome transport|regulation of gene expression|response to insulin stimulus|vesicle organization	cell surface|coated pit|early endosome|endoplasmic reticulum membrane|endosome membrane|Golgi cisterna membrane|integral to membrane|lysosomal membrane|microsome|nuclear membrane|perinuclear region of cytoplasm|plasma membrane	enzyme binding|nerve growth factor binding|nerve growth factor receptor activity|neurotensin receptor activity, non-G-protein coupled			ovary(1)	1		all_epithelial(167;4.69e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0529)|Colorectal(144;0.142)|Epithelial(280;0.145)|Kidney(133;0.169)|all cancers(265;0.184)		TGTAGAGATGTCGGTCCAAAG	0.493													5	49					0	0	0.004482	0	0		C	109883434	C	C	109883434	2	2	51	1	0	0	0	0	0	0	0	1	14960	1654	58	3		3	SORT1	1	109883434	Silent	SNP	T	TCGA-BR-7716-01A-21D-2053-08	54283623	109883434	139367187	10	38445											
PDE4DIP	9659	broad.mit.edu	37	chr1	144855852	144855852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcactggtgctgctcCgaagctcatgaatacctttg	8	10	12	11	1	1	1	1	1	0	0	2	2	2	1	2	2	4	5	2	2	3	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:144855852C>T	uc001elw.3	-	41	6992	c.6701G>A	c.(6700-6702)CGG>CAG	p.R2234Q	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R2128Q|PDE4DIP_uc001elv.3_Missense_Mutation_p.R1241Q	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	2234					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GGTGCTGCTCCGAAGCTCATG	0.577			T	PDGFRB	MPD								5	42					0	0	0.001984	0	0		T	144855852	T	T	144855852	3	4	51	1	0	0	0	0	1	0	0	0	11662	652	23	1	355	1	PDE4DIP	1	144855852	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	34972418	144855852	104394769	11	38446											
SPRR1B	6699	broad.mit.edu	37	chr1	153004879	153004879	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccctcagcttcagcagcagCaggtgaaacagccttgccag	10	6	10	15	0	2	1	2	1	0	0	2	1	2	1	4	1	7	4	4	1	1	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:153004879C>T	uc001fba.2	+	2	122	c.58C>T	c.(58-60)CAG>TAG	p.Q20*	SPRR1B_uc009wnx.1_RNA	NM_003125	NP_003116	P22528	SPR1B_HUMAN	small proline-rich protein 1B	20	2.|2 X 12 AA approximate repeats.				keratinization|peptide cross-linking	cornified envelope|cytoplasm	protein binding, bridging|structural molecule activity			ovary(1)	1	Lung NSC(65;1.49e-28)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			TCAGCAGCAGCAGGTGAAACA	0.582													29	179					0	0	0.009535	0	0		T	153004879	T	T	153004879	4	4	51	1	0	0	0	0	0	1	0	0	15121	711	25	2	60	2	SPRR1B	1	153004879	Nonsense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	8149027	153004879	96245742	12	38447											
SPTA1	6708	broad.mit.edu	37	chr1	158596641	158596641	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatacctatccaagcctCtaccacatcagccttccagt	11	10	3	17	0	3	0	2	0	1	0	5	0	5	0	6	0	4	0	6	0	4	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:158596641C>A	uc001fst.1	-	41	6020	c.5821G>T	c.(5821-5823)GAG>TAG	p.E1941*		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1941	Spectrin 19.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					ATCCAAGCCTCTACCACATCA	0.453													9	101					1.76689e-08	2.01931e-08	0.006214	1	0		A	158596641	A	A	158596641	4	1	51	1	0	0	0	0	0	1	0	0	15141	922	32	5	1486	5	SPTA1	1	158596641	Nonsense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	5591762	158596641	90653980	13	38448											
STX6	10228	broad.mit.edu	37	chr1	180959171	180959171	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagaattggctctctggagCtctcggtccagacgcccata	8	10	11	12	2	2	2	0	1	2	2	5	4	3	3	2	3	1	2	2	3	2	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:180959171C>T	uc010pnq.1	-	5	675	c.438G>A	c.(436-438)GAG>GAA	p.E146E	STX6_uc001goo.2_Silent_p.E146E|STX6_uc010pnr.1_Silent_p.E45E	NM_005819	NP_005810	O43752	STX6_HUMAN	syntaxin 6	146	Cytoplasmic (Potential).				Golgi vesicle transport|intracellular protein transport|vesicle fusion	clathrin-coated vesicle|early endosome|integral to membrane|perinuclear region of cytoplasm|plasma membrane|trans-Golgi network membrane	SNAP receptor activity			ovary(1)	1						CTCTCTGGAGCTCTCGGTCCA	0.552													8	73					0	0	0.00308	0	0		T	180959171	T	T	180959171	2	4	51	1	0	0	0	0	0	0	0	1	15374	796	28	2		2	STX6	1	180959171	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	22362530	180959171	68291450	14	38449											
KDM5B	10765	broad.mit.edu	37	chr1	202733219	202733219	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acaacccattcgacgtctcaGattatgagttctggcttccg	9	12	8	12	3	2	2	1	1	2	1	5	3	3	2	2	1	1	2	2	1	2	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:202733219G>C	uc001gyf.2	-	6	882	c.766C>G	c.(766-768)CTG>GTG	p.L256V	KDM5B_uc009xag.2_Missense_Mutation_p.L292V|KDM5B_uc001gyg.1_Missense_Mutation_p.L98V	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	256					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						CGACGTCTCAGATTATGAGTT	0.303													4	43					0	0	0.009096	0	0		C	202733219	C	C	202733219	3	2	51	1	0	0	0	0	1	0	0	0	8150	933	33	5	3956	5	KDM5B	1	202733219	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	21774048	202733219	46517402	15	38450											
USH2A	7399	broad.mit.edu	37	chr1	215799151	215799151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgtctgtgaatgtggtgCgttccttagtcactgagctg	5	14	15	7	1	2	2	1	2	1	0	3	2	3	2	1	2	2	2	1	2	2	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:215799151C>T	uc001hku.1	-	72	15968	c.15581G>A	c.(15580-15582)CGC>CAC	p.R5194H		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	5194	Cytoplasmic (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GAATGTGGTGCGTTCCTTAGT	0.468										HNSCC(13;0.011)			13	78					0	0	0.003163	0	0		T	215799151	T	T	215799151	3	4	51	1	0	0	0	0	1	0	0	0	17062	768	27	1	31	1	USH2A	1	215799151	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	13065932	215799151	33451470	16	38451											
USH2A	7399	broad.mit.edu	37	chr1	215821986	215821986	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtggggcaggatgggttctCagttcagctgtcggtccttt	4	13	16	8	1	2	0	2	0	1	0	5	1	3	1	1	6	1	4	1	6	0	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:215821986C>T	uc001hku.1	-	66	14853	c.14466G>A	c.(14464-14466)CTG>CTA	p.L4822L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4822	Fibronectin type-III 33.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GATGGGTTCTCAGTTCAGCTG	0.577										HNSCC(13;0.011)			9	46					0	0	0.008291	0	0		T	215821986	T	T	215821986	2	4	51	1	0	0	0	0	0	0	0	1	17062	813	29	4		4	USH2A	1	215821986	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	22835	215821986	33428635	17	38452											
OR2AK2	391191	broad.mit.edu	37	chr1	248129528	248129528	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttacaccattgtcacacctCtactgaacccatttatctac	11	14	2	14	0	3	1	1	1	2	0	3	1	3	1	3	0	4	0	3	0	5	7			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr1:248129528C>G	uc010pzd.1	+	1	895	c.895C>G	c.(895-897)CTA>GTA	p.L299V	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	299	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TGTCACACCTCTACTGAACCC	0.468													6	70					0	0	0.00308	0	0		G	248129528	G	G	248129528	3	3	51	1	0	0	0	0	1	0	0	0	11005	912	32	5	897	5	OR2AK2	1	248129528	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	32307542	248129528	1121093	18	38453											
SLC4A1AP	22950	broad.mit.edu	37	chr2	27887235	27887235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgcctggagcacccttcgGtgtctcggtaccacgcagtg	5	10	13	13	3	1	0	0	0	1	0	3	1	1	1	3	3	3	3	3	3	1	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:27887235G>A	uc002rlk.3	+	1	898	c.616G>A	c.(616-618)GTG>ATG	p.V206M	SUPT7L_uc002rlh.1_5'Flank|SUPT7L_uc002rli.1_5'Flank|SUPT7L_uc010ymf.1_5'Flank|SUPT7L_uc002rlj.1_5'Flank|SUPT7L_uc010ezh.1_5'Flank	NM_018158	NP_060628	Q9BWU0	NADAP_HUMAN	solute carrier family 4 (anion exchanger),	206	FHA.					cytoplasm|nucleus	double-stranded RNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)					GCACCCTTCGGTGTCTCGGTA	0.627													7	35					0	0	0.006214	0	0		A	27887235	A	A	27887235	3	1	51	1	0	0	0	0	1	0	0	0	14678	1261	44	4	618	4	SLC4A1AP	2	27887235	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08		27887235	215312138	19	38454											
CLIP4	79745	broad.mit.edu	37	chr2	29379298	29379298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaacttaaaactgtgaCagagaaagatggtaatatac	19	9	9	4	0	0	5	0	2	0	3	0	6	0	5	0	1	3	1	0	1	8	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:29379298C>T	uc002rmv.2	+	10	1483	c.1244C>T	c.(1243-1245)ACA>ATA	p.T415I	CLIP4_uc002rmu.2_Missense_Mutation_p.T415I|CLIP4_uc010ezm.1_Missense_Mutation_p.T415I|CLIP4_uc002rmw.2_RNA|CLIP4_uc010ymn.1_Missense_Mutation_p.T397I	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	415										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					AAAACTGTGACAGAGAAAGAT	0.323													4	43					0	0	0.001168	0	0		T	29379298	T	T	29379298	3	4	51	1	0	0	0	0	1	0	0	0	3538	478	17	4	1278	4	CLIP4	2	29379298	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	1492063	29379298	213820075	20	38455											
EML4	27436	broad.mit.edu	37	chr2	42528406	42528406	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatcaaatcagcaaacaaatCaaagctcatgatggcagtgt	17	9	7	8	0	4	1	4	1	0	0	4	1	4	1	0	1	3	3	0	1	5	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:42528406C>T	uc002rsi.2	+	14	1777	c.1515C>T	c.(1513-1515)ATC>ATT	p.I505I	EML4_uc010fap.2_Silent_p.I447I|EML4_uc002rsj.2_Silent_p.I194I|EML4_uc010faq.2_5'UTR|EML4_uc010ynv.1_5'UTR	NM_019063	NP_061936	Q9HC35	EMAL4_HUMAN	echinoderm microtubule associated protein like 4	505					microtubule-based process|mitosis	cytoplasm|microtubule	protein binding		EML4/ALK(246)	lung(246)|ovary(2)|central_nervous_system(1)|skin(1)	250						GCAAACAAATCAAAGCTCATG	0.338			T	ALK	NSCLC								3	58					0	0	0.009096	0	0		T	42528406	T	T	42528406	2	4	51	1	0	0	0	0	0	0	0	1	5107	816	29	4		4	EML4	2	42528406	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	13149108	42528406	200670967	21	38456											
ASB3	51130	broad.mit.edu	37	chr2	53992553	53992553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaacattctacagagttgtGataagctgcttcatgaattg	13	13	8	7	0	2	3	1	2	1	1	2	3	2	3	0	0	4	3	0	0	4	6			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:53992553G>A	uc002rxg.1	-	2	292	c.157C>T	c.(157-159)CAC>TAC	p.H53Y	ASB3_uc002rxh.1_Intron|ASB3_uc002rxi.3_Missense_Mutation_p.H91Y|ASB3_uc010yoo.1_Missense_Mutation_p.H53Y|CHAC2_uc002rxk.1_5'Flank|uc002rxj.1_5'Flank	NM_016115	NP_057199	Q9Y575	ASB3_HUMAN	ankyrin repeat and SOCS box-containing protein 3	53	ANK 2.				intracellular signal transduction					ovary(1)|kidney(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			ACAGAGTTGTGATAAGCTGCT	0.378													30	161					0	0	0.021022	0	0		A	53992553	A	A	53992553	3	1	51	1	0	0	0	0	1	0	0	0	1025	1290	45	4	1435	4	ASB3	2	53992553	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	11464147	53992553	189206820	22	38457											
AFF3	3899	broad.mit.edu	37	chr2	100360598	100360598	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtccagaggatacaagctgaGagtcctgaaagaacaagaaa	18	5	11	7	0	0	5	0	2	0	4	2	7	2	6	2	1	3	1	2	1	6	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:100360598G>C	uc002tag.2	-	9	1243	c.1007C>G	c.(1006-1008)TCT>TGT	p.S336C	AFF3_uc002taf.2_Missense_Mutation_p.S361C|AFF3_uc010fiq.1_Missense_Mutation_p.S336C|AFF3_uc010yvr.1_Missense_Mutation_p.S490C|AFF3_uc002tah.1_Missense_Mutation_p.S361C|AFF3_uc010fir.1_Missense_Mutation_p.S413C	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	336					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						TACAAGCTGAGAGTCCTGAAA	0.418													4	76					0	0	0.001168	0	0		C	100360598	C	C	100360598	3	2	51	1	0	0	0	0	1	0	0	0	358	942	33	5	2737	5	AFF3	2	100360598	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	46368045	100360598	142838775	23	38458											
SLC9A2	6549	broad.mit.edu	37	chr2	103318933	103318933	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgaaattcgagaactcttatCaagaaatctctatcaaatcc	16	12	4	9	1	4	3	2	1	2	2	7	4	5	3	1	0	1	0	1	0	7	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:103318933C>G	uc002tca.2	+	9	1959	c.1817C>G	c.(1816-1818)TCA>TGA	p.S606*		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	606	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						GAACTCTTATCAAGAAATCTC	0.343													7	45					0	0	0.006214	0	0		G	103318933	G	G	103318933	4	3	51	1	0	0	0	0	0	1	0	0	14737	838	29	5	1851	5	SLC9A2	2	103318933	Nonsense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	2958335	103318933	139880440	24	38459											
TTC21B	79809	broad.mit.edu	37	chr2	166770142	166770142	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagaccgagggttagccattCtttcagcaatttctctggaa	11	12	9	9	1	3	1	1	0	2	1	4	3	3	2	2	2	2	2	2	2	4	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:166770142C>G	uc002udk.2	-	16	2286	c.2153G>C	c.(2152-2154)AGA>ACA	p.R718T		NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	718						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						GTTAGCCATTCTTTCAGCAAT	0.308													7	60					0	0	0.006214	0	0		G	166770142	G	G	166770142	3	3	51	1	0	0	0	0	1	0	0	0	16714	913	32	5	1853	5	TTC21B	2	166770142	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	63451209	166770142	76429231	25	38460											
XIRP2	129446	broad.mit.edu	37	chr2	168103881	168103881	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggccaagtggcaagggggAgcagatactctcagtcaaac	12	5	14	10	1	2	1	2	0	1	1	3	2	2	2	1	4	3	2	1	4	4	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:168103881A>G	uc002udx.2	+	8	5997	c.5979A>G	c.(5977-5979)GGA>GGG	p.G1993G	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.G1818G|XIRP2_uc010fpq.2_Silent_p.G1771G|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1818					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GGCAAGGGGGAGCAGATACTC	0.453													3	73					0	0	0.009096	0	0		G	168103881	G	G	168103881	2	3	51	1	0	0	0	0	0	0	0	1	17456	291	11	3		3	XIRP2	2	168103881	Silent	SNP	A	TCGA-BR-7716-01A-21D-2053-08	1333739	168103881	75095492	26	38461											
SCRN3	79634	broad.mit.edu	37	chr2	175269040	175269040	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagcttctaaataagcacAaaggtaattttatcatataa	19	12	4	6	0	2	0	1	0	1	0	2	0	2	0	0	1	2	3	0	1	9	8			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:175269040A>G	uc002uiq.2	+	5	839	c.751A>G	c.(751-753)AAA>GAA	p.K251E	SCRN3_uc010zen.1_Missense_Mutation_p.K244E|SCRN3_uc010zeo.1_Missense_Mutation_p.K49E	NM_024583	NP_078859	Q0VDG4	SCRN3_HUMAN	secernin 3	251					proteolysis		dipeptidase activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.229)			AAATAAGCACAAAGGTAATTT	0.333													3	29					0	0	0.004672	0	0		G	175269040	G	G	175269040	3	3	51	1	0	0	0	0	1	0	0	0	13965	131	5	3	765	3	SCRN3	2	175269040	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	7165159	175269040	67930333	27	38462											
TTN	7273	broad.mit.edu	37	chr2	179647145	179647145	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcataaccacatctcttgaCtcaacaaagctggaaagaga	16	8	7	10	0	3	2	2	1	1	1	4	4	3	3	1	1	3	1	1	1	4	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:179647145C>G	uc010zfg.1	-	20	3398	c.3174G>C	c.(3172-3174)GAG>GAC	p.E1058D	TTN_uc010zfh.1_Missense_Mutation_p.E1012D|TTN_uc010zfi.1_Missense_Mutation_p.E1012D|TTN_uc010zfj.1_Missense_Mutation_p.E1012D|TTN_uc002unb.2_Missense_Mutation_p.E1058D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1058							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATCTCTTGACTCAACAAAGC	0.468													5	38					0	0	0.001168	0	0		G	179647145	G	G	179647145	3	3	51	1	0	0	0	0	1	0	0	0	16761	564	20	5	108186	5	TTN	2	179647145	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	4378105	179647145	63552228	28	38463											
NIF3L1	60491	broad.mit.edu	37	chr2	201768269	201768269	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttcccaaggaataaatgtCatcctctgtgaacacagcaa	14	9	7	11	0	2	1	1	1	1	0	4	2	4	2	2	1	2	2	2	1	6	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:201768269C>T	uc002uwm.2	+	7	1093	c.1002C>T	c.(1000-1002)GTC>GTT	p.V334V	NIF3L1_uc002uwl.2_Silent_p.V307V|NIF3L1_uc002uwn.2_Silent_p.V307V|NIF3L1_uc002uwo.2_Silent_p.V334V|NIF3L1_uc002uwp.2_Silent_p.V334V|NIF3L1_uc002uwq.2_3'UTR	NM_001136039	NP_001129511	Q9GZT8	NIF3L_HUMAN	NIF3 NGG1 interacting factor 3-like 1 isoform 1	334					positive regulation of transcription, DNA-dependent		transcription factor binding			skin(1)	1						GAATAAATGTCATCCTCTGTG	0.393													16	96					0	0	0.008871	0	0		T	201768269	T	T	201768269	2	4	51	1	0	0	0	0	0	0	0	1	10435	813	29	4		4	NIF3L1	2	201768269	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	22121124	201768269	41431104	29	38464											
NIF3L1	60491	broad.mit.edu	37	chr2	201768371	201768371	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ataaatattatcctatcagaGactgacagggaccctcttca	14	11	6	10	0	3	2	2	1	1	1	4	4	4	3	2	1	0	0	2	1	5	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:201768371G>C	uc002uwm.2	+	7	1195	c.1104G>C	c.(1102-1104)GAG>GAC	p.E368D	NIF3L1_uc002uwl.2_Missense_Mutation_p.E341D|NIF3L1_uc002uwn.2_Missense_Mutation_p.E341D|NIF3L1_uc002uwo.2_Missense_Mutation_p.E368D|NIF3L1_uc002uwp.2_Missense_Mutation_p.E368D|NIF3L1_uc002uwq.2_3'UTR	NM_001136039	NP_001129511	Q9GZT8	NIF3L_HUMAN	NIF3 NGG1 interacting factor 3-like 1 isoform 1	368					positive regulation of transcription, DNA-dependent		transcription factor binding			skin(1)	1						TCCTATCAGAGACTGACAGGG	0.403													5	62					0	0	0.00308	0	0		C	201768371	C	C	201768371	3	2	51	1	0	0	0	0	1	0	0	0	10435	933	33	5	1126	5	NIF3L1	2	201768371	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	102	201768371	41431002	30	38465											
STRADB	55437	broad.mit.edu	37	chr2	202340424	202340424	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacattctctttggagccgtGagagggttgaactatctgca	10	12	11	8	1	2	2	0	2	2	1	3	4	2	3	1	2	4	2	1	2	3	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:202340424G>A	uc002uyd.3	+	7	872	c.507G>A	c.(505-507)GTG>GTA	p.V169V		NM_018571	NP_061041	Q9C0K7	STRAB_HUMAN	STE20-related kinase adaptor beta	169	Protein kinase.				activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|protein binding|protein kinase activity			skin(2)|stomach(1)|lung(1)	4						TTGGAGCCGTGAGAGGGTTGA	0.348													23	147					0	0	0.012213	0	0		A	202340424	A	A	202340424	2	1	51	1	0	0	0	0	0	0	0	1	15350	1277	45	4		4	STRADB	2	202340424	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08	572053	202340424	40858949	31	38466											
COL4A4	1286	broad.mit.edu	37	chr2	227945177	227945177	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actggaggtcctggatccccTttttctccagcatgtccatc	6	13	8	14	0	1	0	0	0	1	0	6	2	4	2	5	3	1	1	5	3	0	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:227945177T>C	uc010zlt.1	-	24	2439	c.1785A>G	c.(1783-1785)AAA>AAG	p.K595K		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	595	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CTGGATCCCCTTTTTCTCCAG	0.463													3	125					0	0	0.001168	0	0		C	227945177	C	C	227945177	2	2	51	1	0	0	0	0	0	0	0	1	3696	1606	56	3		3	COL4A4	2	227945177	Silent	SNP	T	TCGA-BR-7716-01A-21D-2053-08	25604753	227945177	15254196	32	38467											
AGAP1	116987	broad.mit.edu	37	chr2	236839529	236839529	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagtgccgaccagtggaGtgaggctacggtcattgcaa	9	8	13	11	2	1	1	1	1	0	0	2	3	2	2	3	3	3	2	3	3	2	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr2:236839529G>C	uc002vvs.2	+	12	2040	c.1445G>C	c.(1444-1446)AGT>ACT	p.S482T	AGAP1_uc002vvt.2_Intron	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	482	PH.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						GACCAGTGGAGTGAGGCTACG	0.622													9	34					0	0	0.008291	0	0		C	236839529	C	C	236839529	3	2	51	1	0	0	0	0	1	0	0	0	366	1029	36	5	1491	5	AGAP1	2	236839529	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	8894352	236839529	6359844	33	38468											
HTR1F	3355	broad.mit.edu	37	chr3	88040875	88040875	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacaaatgtaaaatttctGaagaaatgtccaattttttg	15	15	7	4	0	1	3	0	2	1	1	2	3	2	3	1	0	0	1	1	0	6	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr3:88040875G>T	uc003dqr.2	+	2	1134	c.976G>T	c.(976-978)GAA>TAA	p.E326*		NM_000866	NP_000857	P30939	5HT1F_HUMAN	5-hydroxytryptamine (serotonin) receptor 1F	326	Extracellular (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	serotonin binding|serotonin receptor activity			ovary(3)	3	all_cancers(8;0.147)	Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00664)	Eletriptan(DB00216)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Zolmitriptan(DB00315)	TAAAATTTCTGAAGAAATGTC	0.333													4	25					2.56e-06	2.85294e-06	0.009096	1	0		T	88040875	T	T	88040875	4	4	51	1	0	0	0	0	0	1	0	0	7456	1291	45	5	978	5	HTR1F	3	88040875	Nonsense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08		88040875	109981555	34	38469											
EPHA6	285220	broad.mit.edu	37	chr3	96706518	96706518	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcatcctcaaactcaacacTgaaattcgtgaggtggggcc	11	8	10	12	2	2	2	2	2	0	0	4	2	3	2	2	3	2	1	2	3	3	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr3:96706518T>A	uc010how.1	+	3	838	c.795T>A	c.(793-795)ACT>ACA	p.T265T	EPHA6_uc003drp.1_Silent_p.T265T	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	170	Ephrin-binding.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						AACTCAACACTGAAATTCGTG	0.433													28	215					0	0	0.009535	0	0		A	96706518	A	A	96706518	2	1	51	1	0	0	0	0	0	0	0	1	5179	1567	55	5		5	EPHA6	3	96706518	Silent	SNP	T	TCGA-BR-7716-01A-21D-2053-08	8665643	96706518	101315912	35	38470											
EPHA6	285220	broad.mit.edu	37	chr3	96706657	96706657	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcgtaacttggccatgtttCctgataccattccaagggtt	8	15	8	10	1	0	1	0	1	0	0	3	1	2	1	4	2	2	3	4	2	3	7			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr3:96706657C>T	uc010how.1	+	3	977	c.934C>T	c.(934-936)CCT>TCT	p.P312S	EPHA6_uc003drp.1_Missense_Mutation_p.P312S	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	217	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						GGCCATGTTTCCTGATACCAT	0.468													26	178					0	0	0.009535	0	0		T	96706657	T	T	96706657	3	4	51	1	0	0	0	0	1	0	0	0	5179	855	30	4	944	4	EPHA6	3	96706657	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	139	96706657	101315773	36	38471											
OR5K3	403277	broad.mit.edu	37	chr3	98110025	98110025	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaactttctgtgggtctcaTcaaatcaatcattttttctg	9	19	5	8	0	6	0	4	0	3	0	7	0	6	0	0	1	1	0	0	1	3	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr3:98110025T>A	uc011bgw.1	+	1	516	c.516T>A	c.(514-516)CAT>CAA	p.H172Q		NM_001005516	NP_001005516	A6NET4	OR5K3_HUMAN	olfactory receptor, family 5, subfamily K,	172	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTGGGTCTCATCAAATCAATC	0.383													23	67					0	0	0.021523	0	0		A	98110025	A	A	98110025	3	1	51	1	0	0	0	0	1	0	0	0	11187	1432	50	5	518	5	OR5K3	3	98110025	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08	1403368	98110025	99912405	37	38472											
POLQ	10721	broad.mit.edu	37	chr3	121251880	121251880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attccctcacaagtttcattGaagagtcatatatggaattt	13	15	6	7	0	3	2	3	1	0	1	4	3	4	3	1	1	0	1	1	1	5	6			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr3:121251880G>A	uc003eee.3	-	6	1046	c.917C>T	c.(916-918)TCA>TTA	p.S306L		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	306					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AAGTTTCATTGAAGAGTCATA	0.383								DNA_polymerases_(catalytic_subunits)					6	60					0	0	0.001168	0	0		A	121251880	A	A	121251880	3	1	51	1	0	0	0	0	1	0	0	0	12227	1294	45	4	6955	4	POLQ	3	121251880	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	23141855	121251880	76770550	38	38473											
MRPL3	11222	broad.mit.edu	37	chr3	131220467	131220467	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcatcagagaccaactgcTtaatgaatgggacattttct	12	13	7	9	0	3	2	2	1	1	1	3	4	3	3	1	1	2	1	1	1	3	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr3:131220467T>A	uc003eoh.2	-	2	349	c.185A>T	c.(184-186)AAG>ATG	p.K62M	MRPL3_uc011blo.1_Translation_Start_Site|MRPL3_uc011blp.1_Missense_Mutation_p.K89M	NM_007208	NP_009139	P09001	RM03_HUMAN	mitochondrial ribosomal protein L3	62					translation	mitochondrial large ribosomal subunit	RNA binding|structural constituent of ribosome				0						GACCAACTGCTTAATGAATGG	0.403													31	179					0	0	0.019004	0	0		A	131220467	A	A	131220467	3	1	51	1	0	0	0	0	1	0	0	0	9811	1609	56	5	897	5	MRPL3	3	131220467	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08	9968587	131220467	66801963	39	38474											
P2RY12	64805	broad.mit.edu	37	chr3	151056202	151056202	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatgcccagatgacaacagaGagaatcttagcccccaagag	16	5	9	11	0	1	5	0	1	1	4	1	6	1	5	3	0	3	0	3	0	5	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr3:151056202G>C	uc003eyw.1	-	2	648	c.432C>G	c.(430-432)CTC>CTG	p.L144L	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Silent_p.L144L	NM_176876	NP_795345	Q9H244	P2Y12_HUMAN	purinergic receptor P2Y12	144	Helical; Name=4; (Potential).				platelet activation	integral to membrane|plasma membrane	guanyl-nucleotide exchange factor activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)		Clopidogrel(DB00758)|Epoprostenol(DB01240)|Ticlopidine(DB00208)|Treprostinil(DB00374)	TGACAACAGAGAGAATCTTAG	0.443													6	108					0	0	0.001984	0	0		C	151056202	C	C	151056202	2	2	51	1	0	0	0	0	0	0	0	1	11368	929	33	5		5	P2RY12	3	151056202	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08	19835735	151056202	46966228	40	38475											
VEPH1	79674	broad.mit.edu	37	chr3	157188178	157188178	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctttcccaaagggtctcagGttatgttccaagcaggagtc	9	12	10	10	0	2	0	1	0	2	0	6	1	4	1	2	3	1	3	2	3	3	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr3:157188178G>C	uc003fbj.1	-	3	596	c.279C>G	c.(277-279)AAC>AAG	p.N93K	VEPH1_uc003fbk.1_Missense_Mutation_p.N93K|VEPH1_uc010hvu.1_Missense_Mutation_p.N93K|VEPH1_uc003fbm.2_Missense_Mutation_p.N93K|VEPH1_uc003fbn.2_Missense_Mutation_p.N93K	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	93						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			AGGGTCTCAGGTTATGTTCCA	0.463													10	50					0	0	0.010729	0	0		C	157188178	C	C	157188178	3	2	51	1	0	0	0	0	1	0	0	0	17180	1252	44	5	2392	5	VEPH1	3	157188178	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	6131976	157188178	40834252	41	38476											
SLC7A14	57709	broad.mit.edu	37	chr3	170201172	170201172	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagagggaccccagcaagCtgactgtcagtcctgcaacc	11	5	12	13	0	1	2	1	1	0	1	2	4	2	4	4	2	4	3	4	2	3	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr3:170201172C>A	uc003fgz.2	-	6	1362	c.1046G>T	c.(1045-1047)AGC>ATC	p.S349I	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	349	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			CCCCAGCAAGCTGACTGTCAG	0.527											OREG0015917	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	94					3.86212e-05	4.1793e-05	0.008291	1	0		A	170201172	A	A	170201172	3	1	51	1	0	0	0	0	1	0	0	0	14721	797	28	5	1281	5	SLC7A14	3	170201172	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	13012994	170201172	27821258	42	38477											
EXOC1	55763	broad.mit.edu	37	chr4	56755095	56755095	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgctgtcaaacaggaaacaGagagtgagtatgcttagtgt	13	10	13	5	0	1	2	1	1	0	1	1	4	1	3	0	1	4	3	0	1	4	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr4:56755095G>C	uc003hbe.1	+	11	1530	c.1372G>C	c.(1372-1374)GAG>CAG	p.E458Q	EXOC1_uc003hbf.1_Missense_Mutation_p.E458Q|EXOC1_uc003hbg.1_Intron	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	458					exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					ACAGGAAACAGAGAGTGAGTA	0.348													10	49					0	0	0.013537	0	0		C	56755095	C	C	56755095	3	2	51	1	0	0	0	0	1	0	0	0	5309	943	33	5	1410	5	EXOC1	4	56755095	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08		56755095	134399181	43	38478											
PDLIM5	10611	broad.mit.edu	37	chr4	95578606	95578606	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtgcgttgaaacaaacttGgcatgtttcctgttttgtgt	8	16	10	7	1	0	1	0	1	0	0	1	1	1	1	1	1	3	4	1	1	2	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr4:95578606G>C	uc003hti.2	+	11	1644	c.1493G>C	c.(1492-1494)TGG>TCG	p.W498S	PDLIM5_uc011cdx.1_Missense_Mutation_p.W395S|PDLIM5_uc003hth.2_Missense_Mutation_p.W389S|PDLIM5_uc003htj.2_Missense_Mutation_p.W173S|PDLIM5_uc003htk.2_Missense_Mutation_p.W527S|PDLIM5_uc011cdy.1_Missense_Mutation_p.W376S|PDLIM5_uc003htl.2_Missense_Mutation_p.W173S	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	498	LIM zinc-binding 2.				regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		AAACAAACTTGGCATGTTTCC	0.373													5	48					0	0	0.001168	0	0		C	95578606	C	C	95578606	3	2	51	1	0	0	0	0	1	0	0	0	11702	1357	47	5	1691	5	PDLIM5	4	95578606	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	38823511	95578606	95575670	44	38479											
OTUD4	54726	broad.mit.edu	37	chr4	146071793	146071793	+	Frame_Shift_Del	DEL	T	-	-																															ggatgctgcagtcgaggaggTagtgctgatggggcttttat																										TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr4:146071793delT	uc003ika.3	-	13	1074	c.936delA	c.(934-936)CTAfs	p.L312fs	OTUD4_uc003ijz.3_Frame_Shift_Del_p.L311fs	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	376							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					GTCGAGGAGGTAGTGCTGATG	0.423													33	40	---	---	---	---						.	-	146071793	-	-	146071793	7	5	51	1	0	1	0	1	0	0	0	0	11333	1625	57	0	2249	0	OTUD4	4	146071793	Frame_Shift_Del	DEL	T	TCGA-BR-7716-01A-21D-2053-08	50493187	146071793	45082483	45	38480											
PRMT10	90826	broad.mit.edu	37	chr4	148575442	148575442	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcattgccattttaaagcCttcatgatatgggatgttgt	9	16	9	7	0	2	1	2	1	0	0	2	2	2	2	2	1	2	2	2	1	3	6			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr4:148575442C>A	uc003ilc.2	-	9	1748	c.1606G>T	c.(1606-1608)GGC>TGC	p.G536C	PRMT10_uc003ilb.2_Missense_Mutation_p.G180C|PRMT10_uc003ild.2_Missense_Mutation_p.G423C	NM_138364	NP_612373	Q6P2P2	ANM10_HUMAN	protein arginine methyltransferase 10	536						cytoplasm	binding|protein methyltransferase activity			ovary(1)|central_nervous_system(1)	2						ATTTTAAAGCCTTCATGATAT	0.413													19	61					8.10497e-08	9.21581e-08	0.010504	1	0		A	148575442	A	A	148575442	3	1	51	1	0	0	0	0	1	0	0	0	12558	681	24	5	947	5	PRMT10	4	148575442	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	2503649	148575442	42578834	46	38481											
PLEKHG4B	153478	broad.mit.edu	37	chr5	182371	182371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagagccagaactagagaCgggcacccaggctgcagtgt	11	4	14	12	1	0	3	0	0	0	3	0	4	0	3	3	2	3	3	3	2	2	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr5:182371C>T	uc003jak.2	+	18	3799	c.3749C>T	c.(3748-3750)ACG>ATG	p.T1250M		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	1250					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		GAACTAGAGACGGGCACCCAG	0.647													14	20					0	0	0.020292	0	0		T	182371	T	T	182371	3	4	51	1	0	0	0	0	1	0	0	0	12091	536	19	1	3819	1	PLEKHG4B	5	182371	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08		182371	180732889	47	38482											
CLPTM1L	81037	broad.mit.edu	37	chr5	1324909	1324909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actcctcggttttcctctcaGattcgctgtaagtgccaaac	8	13	7	13	2	1	1	1	0	1	1	6	1	3	1	3	1	2	3	3	1	2	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr5:1324909G>A	uc003jch.2	-	11	1212	c.1166C>T	c.(1165-1167)TCT>TTT	p.S389F	CLPTM1L_uc003jcg.2_Missense_Mutation_p.S220F	NM_030782	NP_110409	Q96KA5	CLP1L_HUMAN	CLPTM1-like	389	Cytoplasmic (Potential).				apoptosis	integral to membrane				breast(1)|central_nervous_system(1)	2	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		TTTCCTCTCAGATTCGCTGTA	0.478													11	192					0	0	0.010729	0	0		A	1324909	A	A	1324909	3	1	51	1	0	0	0	0	1	0	0	0	3558	942	33	4	478	4	CLPTM1L	5	1324909	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	1142538	1324909	179590351	48	38483											
PDE8B	8622	broad.mit.edu	37	chr5	76621533	76621533	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagacaaactcagaactTcgatgcagaagcagtgtgca	15	8	9	9	1	2	3	2	0	0	3	3	4	2	3	0	0	5	3	0	0	4	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr5:76621533T>G	uc003kfa.2	+	3	614	c.569T>G	c.(568-570)TTC>TGC	p.F190C	PDE8B_uc003kfb.2_Missense_Mutation_p.F170C|PDE8B_uc003kfc.2_Missense_Mutation_p.F190C|PDE8B_uc003kfd.2_Missense_Mutation_p.F190C|PDE8B_uc003kfe.2_Missense_Mutation_p.F190C	NM_003719	NP_003710	O95263	PDE8B_HUMAN	phosphodiesterase 8B isoform 1	190					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity				0		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)		ACTCAGAACTTCGATGCAGAA	0.333													11	43					0	0	0.013537	0	0		G	76621533	G	G	76621533	3	3	51	1	0	0	0	0	1	0	0	0	11673	1783	62	5	579	5	PDE8B	5	76621533	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08	75296624	76621533	104293727	49	38484											
RASGRF2	5924	broad.mit.edu	37	chr5	80419490	80419490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtctgcaccagcggaccgaGcaggagtggaaagctcccct	10	5	13	13	2	1	0	0	0	1	0	2	4	2	3	4	3	4	3	4	3	1	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr5:80419490G>A	uc003kha.1	+	16	2500	c.2500G>A	c.(2500-2502)GCA>ACA	p.A834T	RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	834					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		AGCGGACCGAGCAGGAGTGGA	0.522													5	37					0	0	0.014758	0	0		A	80419490	A	A	80419490	3	1	51	1	0	0	0	0	1	0	0	0	13098	971	34	2	2562	2	RASGRF2	5	80419490	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	3797957	80419490	100495770	50	38485											
MCC	4163	broad.mit.edu	37	chr5	112379318	112379318	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagagctggggaggcagcatCagcacactcctgacaacagc	12	4	12	13	0	1	2	1	1	0	1	2	3	2	3	1	3	5	4	1	3	1	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr5:112379318C>G	uc003kqj.3	-	15	2625	c.2095G>C	c.(2095-2097)GAT>CAT	p.D699H	MCC_uc003kqk.3_RNA|MCC_uc003kql.3_Missense_Mutation_p.D889H	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2	699					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		GAGGCAGCATCAGCACACTCC	0.597											OREG0016728	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	36					0	0	0.004672	0	0		G	112379318	G	G	112379318	3	3	51	1	0	0	0	0	1	0	0	0	9391	826	29	5	406	5	MCC	5	112379318	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	31959828	112379318	68535942	51	38486											
FAT2	2196	broad.mit.edu	37	chr5	150905343	150905343	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctcacctggatctgaagctGataccattcctgagccctcc	8	11	7	15	0	2	3	1	3	2	0	5	4	4	4	5	1	3	1	5	1	2	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr5:150905343G>C	uc003lue.3	-	17	10505	c.10492C>G	c.(10492-10494)CAG>GAG	p.Q3498E	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.Q191E	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3498	Extracellular (Potential).|Cadherin 31.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATCTGAAGCTGATACCATTCC	0.567													12	69					0	0	0.020292	0	0		C	150905343	C	C	150905343	3	2	51	1	0	0	0	0	1	0	0	0	5704	1299	45	5	2585	5	FAT2	5	150905343	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	38526025	150905343	30009917	52	38487											
GABRG2	2566	broad.mit.edu	37	chr5	161569308	161569308	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caataaggatgctgttccagCcagaacatctttaggtgaga	13	10	10	8	0	1	2	0	1	1	2	2	4	2	3	2	2	3	2	2	2	4	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr5:161569308C>A	uc003lyz.3	+	7	1266	c.908C>A	c.(907-909)GCC>GAC	p.A303D	GABRG2_uc010jjc.2_Missense_Mutation_p.A343D|GABRG2_uc003lyy.3_Missense_Mutation_p.A303D|GABRG2_uc011dej.1_Missense_Mutation_p.A208D	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	303	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		GCTGTTCCAGCCAGAACATCT	0.398													14	48					3.52763e-06	3.91183e-06	0.00499	1	0		A	161569308	A	A	161569308	3	1	51	1	0	0	0	0	1	0	0	0	6186	739	26	5	1058	5	GABRG2	5	161569308	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	10663965	161569308	19345952	53	38488											
C5orf45	51149	broad.mit.edu	37	chr5	179264517	179264517	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttgcgtcccatgaggtCttcccgcaaggcctctcaga	6	10	10	15	2	2	2	1	1	2	1	6	2	5	2	4	2	1	1	4	2	1	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr5:179264517C>A	uc003mla.2	-	7	950	c.906G>T	c.(904-906)AAG>AAT	p.K302N	SQSTM1_uc011dgr.1_3'UTR|SQSTM1_uc011dgs.1_3'UTR|SQSTM1_uc003mkw.3_3'UTR|SQSTM1_uc003mkx.2_3'UTR|C5orf45_uc003mky.2_Intron|C5orf45_uc011dgt.1_Intron|C5orf45_uc011dgu.1_Intron|C5orf45_uc003mlc.2_Missense_Mutation_p.K247N|C5orf45_uc003mlb.2_Missense_Mutation_p.K168N	NM_016175	NP_057259	Q6NTE8	CE045_HUMAN	hypothetical protein LOC51149 isoform 1	302											0						CCCATGAGGTCTTCCCGCAAG	0.622													26	78					1.2476e-16	1.4865e-16	0.00632	1	0		A	179264517	A	A	179264517	3	1	51	1	0	0	0	0	1	0	0	0	2307	912	32	5	129	5	C5orf45	5	179264517	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	17695209	179264517	1650743	54	38489											
BTNL8	79908	broad.mit.edu	37	chr5	180377062	180377062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagtttccaagcagggaaaCattactgggaggtggacgga	13	7	15	6	1	0	1	0	0	0	1	1	5	1	5	1	5	3	2	1	5	3	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr5:180377062C>T	uc003mmp.2	+	8	1255	c.1021C>T	c.(1021-1023)CAT>TAT	p.H341Y	BTNL8_uc003mmq.2_3'UTR|BTNL8_uc011dhg.1_Missense_Mutation_p.H216Y|BTNL8_uc010jll.2_3'UTR|BTNL8_uc010jlm.2_Missense_Mutation_p.H225Y|BTNL8_uc011dhh.1_Missense_Mutation_p.H157Y	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	341	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGCAGGGAAACATTACTGGGA	0.522													32	40					0	0	0.00623	0	0		T	180377062	T	T	180377062	3	4	51	1	0	0	0	0	1	0	0	0	1570	478	17	4	1207	4	BTNL8	5	180377062	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	1112545	180377062	538198	55	38490											
GNB2L1	10399	broad.mit.edu	37	chr5	180664713	180664713	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atctacaatgatctttccctCtaaatcctggggaacagggc	11	11	8	11	0	3	1	0	1	3	0	5	2	5	2	2	3	2	0	2	3	5	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr5:180664713C>G	uc003mni.1	-	7	890	c.784G>C	c.(784-786)GAG>CAG	p.E262Q	GNB2L1_uc003mnh.1_Missense_Mutation_p.E221Q|GNB2L1_uc003mnk.1_Missense_Mutation_p.E184Q|GNB2L1_uc003mnj.1_Missense_Mutation_p.E216Q|GNB2L1_uc003mnl.1_Missense_Mutation_p.E46Q	NM_006098	NP_006089	P63244	GBLP_HUMAN	guanine nucleotide binding protein (G protein),	262					apoptosis|cell cycle|gastrulation|interspecies interaction between organisms|negative regulation of cell growth|negative regulation of phagocytosis|negative regulation of translation|negative regulation of Wnt receptor signaling pathway|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of gastrulation|positive regulation of GTPase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein homooligomerization|positive regulation of protein phosphorylation|regulation of cell cycle|regulation of cell division|regulation of establishment of cell polarity|regulation of protein localization|rhythmic process	cytoskeleton|dendrite|midbody|nucleus|perikaryon|perinuclear region of cytoplasm|phagocytic cup|small ribosomal subunit	ion channel inhibitor activity|protein kinase C binding|protein phosphatase binding|protein tyrosine kinase inhibitor activity|receptor tyrosine kinase binding|SH2 domain binding				0	all_cancers(89;8.79e-06)|all_epithelial(37;1.13e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0654)	all_cancers(40;0.000209)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.101)|all cancers(165;0.11)		ATCTTTCCCTCTAAATCCTGG	0.448													11	67					0	0	0.016723	0	0		G	180664713	G	G	180664713	3	3	51	1	0	0	0	0	1	0	0	0	6533	922	32	5	177	5	GNB2L1	5	180664713	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	287651	180664713	250547	56	38491											
TDRD6	221400	broad.mit.edu	37	chr6	46658843	46658843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagaattagtttatataaCgcatattgatgacccttgga	14	14	8	5	1	0	4	0	3	0	1	0	5	0	5	1	1	1	2	1	1	7	8			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr6:46658843C>T	uc003oyj.2	+	1	2978	c.2978C>T	c.(2977-2979)ACG>ATG	p.T993M	TDRD6_uc010jze.2_Missense_Mutation_p.T987M	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	993					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			GTTTATATAACGCATATTGAT	0.333													6	26					0	0	0.00308	0	0		T	46658843	T	T	46658843	3	4	51	1	0	0	0	0	1	0	0	0	15759	536	19	1	2980	1	TDRD6	6	46658843	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08		46658843	124456224	57	38492											
PKHD1	5314	broad.mit.edu	37	chr6	51907859	51907859	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaactcgttttgttcacTgtaacctgcaagaactggga	10	13	9	9	1	1	1	1	0	0	1	2	2	1	2	1	1	5	5	1	1	4	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr6:51907859T>A	uc003pah.1	-	27	3171	c.2895A>T	c.(2893-2895)ACA>ACT	p.T965T	PKHD1_uc003pai.2_Silent_p.T965T	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	965	IPT/TIG 4.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TTTTGTTCACTGTAACCTGCA	0.393													7	45					0	0	0.001984	0	0		A	51907859	A	A	51907859	2	1	51	1	0	0	0	0	0	0	0	1	11990	1567	55	5		5	PKHD1	6	51907859	Silent	SNP	T	TCGA-BR-7716-01A-21D-2053-08	5249016	51907859	119207208	58	38493											
RFX6	222546	broad.mit.edu	37	chr6	117246699	117246699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagcatggtttccagcgacGctgtgaagaatgaaagccac	12	7	13	9	2	0	3	0	2	0	1	1	5	1	4	2	2	3	3	2	2	3	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr6:117246699G>A	uc003pxm.2	+	16	1825	c.1762G>A	c.(1762-1764)GCT>ACT	p.A588T		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	588					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TTCCAGCGACGCTGTGAAGAA	0.517													3	71					0	0	0.014758	0	0		A	117246699	A	A	117246699	3	1	51	1	0	0	0	0	1	0	0	0	13292	1087	38	1	1824	1	RFX6	6	117246699	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	65338840	117246699	53868368	59	38494											
EYA4	2070	broad.mit.edu	37	chr6	133833864	133833864	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtttttaacaggagtgTgatcaagttcatatagatga	14	14	9	4	0	2	3	2	2	0	1	2	4	2	4	0	1	1	2	0	1	5	6			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr6:133833864T>G	uc003qec.3	+	15	1745	c.1287T>G	c.(1285-1287)TGT>TGG	p.C429W	EYA4_uc011ecq.1_Missense_Mutation_p.C375W|EYA4_uc011ecr.1_Missense_Mutation_p.C381W|EYA4_uc003qed.3_Missense_Mutation_p.C429W|EYA4_uc003qee.3_Missense_Mutation_p.C406W|EYA4_uc011ecs.1_Missense_Mutation_p.C435W|uc003qeg.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	429					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		AACAGGAGTGTGATCAAGTTC	0.378													17	90					0	0	0.008871	0	0		G	133833864	G	G	133833864	3	3	51	1	0	0	0	0	1	0	0	0	5339	1702	59	5	1341	5	EYA4	6	133833864	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08	16587165	133833864	37281203	60	38495											
C6orf118	168090	broad.mit.edu	37	chr6	165712986	165712986	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgccatgtagagttcataTtcatcctgtacagaaacaaa	14	12	7	8	0	2	2	2	0	0	2	3	2	3	2	2	0	3	4	2	0	5	6			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr6:165712986T>C	uc003qum.3	-	4	918	c.882A>G	c.(880-882)GAA>GAG	p.E294E	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	294											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		AGAGTTCATATTCATCCTGTA	0.463													3	15					0	0	0.004672	0	0		C	165712986	C	C	165712986	2	2	51	1	0	0	0	0	0	0	0	1	2326	1490	52	3		3	C6orf118	6	165712986	Silent	SNP	T	TCGA-BR-7716-01A-21D-2053-08	31879122	165712986	5402081	61	38496											
TCP10L2	401285	broad.mit.edu	37	chr6	167585758	167585758	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggtccccagggaggacagCaatgccggggagatgccggt	9	4	18	10	2	0	1	0	0	0	1	1	5	1	3	4	6	3	1	4	6	1	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr6:167585758C>T	uc010kkp.2	+	2	257	c.126C>T	c.(124-126)AGC>AGT	p.S42S		NM_001145121	NP_001138593	B9ZVM9	B9ZVM9_HUMAN	t-complex 10-like 2	42											0						GGGAGGACAGCAATGCCGGGG	0.652													5	41					0	0	0.001168	0	0		T	167585758	T	T	167585758	2	4	51	1	0	0	0	0	0	0	0	1	15737	709	25	2		2	TCP10L2	6	167585758	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	1872772	167585758	3529309	62	38497											
SNX8	29886	broad.mit.edu	37	chr7	2317745	2317745	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccagttacctggctggaaAcctcatactccacatgcttc	9	11	7	14	0	1	0	1	0	0	0	3	1	2	1	4	2	5	3	4	2	3	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr7:2317745A>C	uc003slw.2	-	2	333	c.290T>G	c.(289-291)GTT>GGT	p.V97G		NM_013321	NP_037453	Q9Y5X2	SNX8_HUMAN	sorting nexin 8	97	PX.				cell communication|early endosome to Golgi transport|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0853)|OV - Ovarian serous cystadenocarcinoma(56;3.79e-14)		CTGGCTGGAAACCTCATACTC	0.582													16	102					0	0	0.008871	0	0		C	2317745	C	C	2317745	3	2	51	1	0	0	0	0	1	0	0	0	14933	43	2	5	1147	5	SNX8	7	2317745	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08		2317745	156820918	63	38498											
C7orf26	79034	broad.mit.edu	37	chr7	6629948	6629948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccactcgctgctgcgccgcGatgcgctgagcgccgccaag	5	5	14	17	7	0	1	0	1	0	0	1	2	0	1	4	0	4	3	4	0	1	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr7:6629948G>A	uc003sqo.1	+	1	34	c.34G>A	c.(34-36)GAT>AAT	p.D12N	uc011jwy.1_5'Flank|C7orf26_uc003sqp.1_Missense_Mutation_p.D12N|C7orf26_uc003sqq.1_5'UTR	NM_024067	NP_076972	Q96N11	CG026_HUMAN	hypothetical protein LOC79034	12										ovary(1)	1		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)		GCTGCGCCGCGATGCGCTGAG	0.612													3	16					0	0	0.009096	0	0		A	6629948	A	A	6629948	3	1	51	1	0	0	0	0	1	0	0	0	2384	1058	37	1	36	1	C7orf26	7	6629948	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	4312203	6629948	152508715	64	38499											
AGR2	10551	broad.mit.edu	37	chr7	16841346	16841346	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctttttggctccaggtttGactgtggtatctctggccag	4	16	11	10	0	1	1	0	1	1	0	4	1	3	1	3	4	0	3	3	4	1	4	rs142975221		TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr7:16841346G>A	uc003str.2	-	2	262	c.75C>T	c.(73-75)GTC>GTT	p.V25V	AGR2_uc011jxy.1_Silent_p.V25V	NM_006408	NP_006399	O95994	AGR2_HUMAN	anterior gradient 2 homolog precursor	25					mucus secretion	endoplasmic reticulum|extracellular region	protein binding				0	Lung NSC(10;0.0376)|all_lung(11;0.0855)			UCEC - Uterine corpus endometrioid carcinoma (126;0.184)		CTCCAGGTTTGACTGTGGTAT	0.512													12	107					0	0	0.003163	0	0		A	16841346	A	A	16841346	2	1	51	1	0	0	0	0	0	0	0	1	395	1277	45	4		4	AGR2	7	16841346	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08	10211398	16841346	142297317	65	38500											
ABCB5	340273	broad.mit.edu	37	chr7	20793071	20793071	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaagggctcttctccaaaAacccaaaattttattgttgg	12	13	7	9	0	2	0	0	0	2	0	3	0	2	0	2	2	2	3	2	2	6	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr7:20793071A>C	uc003suw.3	+	18	2729	c.2183A>C	c.(2182-2184)AAA>ACA	p.K728T	ABCB5_uc010kuh.2_Missense_Mutation_p.K1173T	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	728	Cytoplasmic (Potential).|ABC transporter 2.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						CTTCTCCAAAAACCCAAAATT	0.398													7	59					0	0	0.00308	0	0		C	20793071	C	C	20793071	3	2	51	1	0	0	0	0	1	0	0	0	44	14	1	5	3661	5	ABCB5	7	20793071	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	3951725	20793071	138345592	66	38501											
SAMD9	54809	broad.mit.edu	37	chr7	92733964	92733964	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gggttgatggtaaagatttaGagtagaaatcgtctcatttg	12	14	12	3	1	1	4	1	1	1	3	3	4	1	4	0	2	0	3	0	2	5	6			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr7:92733964G>C	uc003umf.2	-	3	1703	c.1447C>G	c.(1447-1449)CTA>GTA	p.L483V	SAMD9_uc003umg.2_Missense_Mutation_p.L483V	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	483						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			TAAAGATTTAGAGTAGAAATC	0.403													6	58					0	0	0.00308	0	0		C	92733964	C	C	92733964	3	2	51	1	0	0	0	0	1	0	0	0	13851	933	33	5	3326	5	SAMD9	7	92733964	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	71940893	92733964	66404699	67	38502											
MLL5	55904	broad.mit.edu	37	chr7	104742409	104742409	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taaacagagaaaaagtttttCtcggagtaggactcacattg	15	11	9	6	1	2	1	1	0	1	1	3	4	2	3	0	2	1	2	0	2	5	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr7:104742409C>G	uc003vcm.2	+	17	2498	c.1964C>G	c.(1963-1965)TCT>TGT	p.S655C	MLL5_uc010ljc.2_Missense_Mutation_p.S655C|MLL5_uc010lje.1_RNA	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	655					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						AAAAGTTTTTCTCGGAGTAGG	0.413													8	60					0	0	0.008291	0	0		G	104742409	G	G	104742409	3	3	51	1	0	0	0	0	1	0	0	0	9642	913	32	5	2022	5	MLL5	7	104742409	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	12008445	104742409	54396254	68	38503											
ANKRD7	56311	broad.mit.edu	37	chr7	117876182	117876182	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaaaggggctgatgtgaatGcttcagataattatcaaagg	15	10	12	4	0	2	4	2	2	0	2	2	4	2	4	0	3	1	2	0	3	5	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr7:117876182G>T	uc003vji.2	+	4	729	c.556G>T	c.(556-558)GCT>TCT	p.A186S		NM_019644	NP_062618	Q92527	ANKR7_HUMAN	ankyrin repeat domain 7	186	ANK 4.				male gonad development						0						TGATGTGAATGCTTCAGATAA	0.259													7	81					0.000274275	0.00028844	0.004482	1	0		T	117876182	T	T	117876182	3	4	51	1	0	0	0	0	1	0	0	0	686	1319	46	5	570	5	ANKRD7	7	117876182	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	13133773	117876182	41262481	69	38504											
CPA2	1358	broad.mit.edu	37	chr7	129919480	129919480	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatgggtacaaatgtaccaAgttagatgactttgatgagc	13	12	10	6	0	0	4	0	3	0	1	0	4	0	4	1	1	3	3	1	1	6	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr7:129919480A>C	uc003vpq.2	+	9	984	c.965A>C	c.(964-966)AAG>ACG	p.K322T		NM_001869	NP_001860	P48052	CBPA2_HUMAN	carboxypeptidase A2 (pancreatic) precursor	322					proteolysis|vacuolar protein catabolic process	extracellular region|vacuole	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					AAATGTACCAAGTTAGATGAC	0.418													16	46					0	0	0.006122	0	0		C	129919480	C	C	129919480	3	2	51	1	0	0	0	0	1	0	0	0	3793	72	3	5	999	5	CPA2	7	129919480	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	12043298	129919480	29219183	70	38505											
BMP1	649	broad.mit.edu	37	chr8	22051982	22051982	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcgggggtgatgtgaaaaAggactatggccacattcaat	12	9	13	7	1	1	2	1	2	0	0	1	3	1	3	1	4	1	0	1	4	4	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr8:22051982A>G	uc003xbg.2	+	11	1566	c.1322A>G	c.(1321-1323)AAG>AGG	p.K441R	BMP1_uc003xba.2_Missense_Mutation_p.K441R|BMP1_uc003xbb.2_Missense_Mutation_p.K441R|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Missense_Mutation_p.K190R|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Missense_Mutation_p.K190R|BMP1_uc011kzc.1_Missense_Mutation_p.K190R|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	441	CUB 2.				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		GATGTGAAAAAGGACTATGGC	0.587													3	44					0	0	0.009096	0	0		G	22051982	G	G	22051982	3	3	51	1	0	0	0	0	1	0	0	0	1457	72	3	3	1364	3	BMP1	8	22051982	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08		22051982	124312040	71	38506											
SOX17	64321	broad.mit.edu	37	chr8	55371726	55371726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaactacaagtaccggcCgcggcggcgcaagcaggtga	10	3	13	15	5	0	1	0	1	0	0	0	1	0	1	4	4	4	3	4	4	5	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr8:55371726C>T	uc003xsb.3	+	2	620	c.416C>T	c.(415-417)CCG>CTG	p.P139L		NM_022454	NP_071899	Q9H6I2	SOX17_HUMAN	SRY-box 17	139					angiogenesis|cardiac cell fate determination|endocardial cell differentiation|endocardium formation|endoderm formation|heart formation|heart looping|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|outflow tract morphogenesis|positive regulation of transcription, DNA-dependent|protein destabilization|protein stabilization|regulation of embryonic development|renal system development|vasculogenesis|Wnt receptor signaling pathway	transcription factor complex	beta-catenin binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			lung(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.176)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;1.9e-07)|Epithelial(17;1.7e-05)|all cancers(17;0.000159)			AAGTACCGGCCGCGGCGGCGC	0.731													6	20					0	0	0.00308	0	0		T	55371726	T	T	55371726	3	4	51	1	0	0	0	0	1	0	0	0	14972	652	23	1	422	1	SOX17	8	55371726	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	33319744	55371726	90992296	72	38507											
PREX2	80243	broad.mit.edu	37	chr8	69012077	69012077	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaatatccagttataaaaAggtaagtgttctattgattt	15	15	8	3	0	1	2	0	1	1	1	2	3	2	2	1	1	0	3	1	1	8	8			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr8:69012077A>C	uc003xxv.1	+	23	2741	c.2714A>C	c.(2713-2715)AAG>ACG	p.K905T	PREX2_uc003xxu.1_Missense_Mutation_p.K905T|PREX2_uc011lez.1_Missense_Mutation_p.K840T	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	905					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						AGTTATAAAAAGGTAAGTGTT	0.274													8	57					0	0	0.00308	0	0		C	69012077	C	C	69012077	3	2	51	1	0	0	0	0	1	0	0	0	12499	86	3	5	2804	5	PREX2	8	69012077	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	13640351	69012077	77351945	73	38508											
ZFPM2	23414	broad.mit.edu	37	chr8	106815454	106815454	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaatagtgaatggtggactGaaacaagatgagagacctgc	15	8	13	5	0	0	5	0	3	0	2	0	7	0	6	1	2	2	1	1	2	5	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr8:106815454G>A	uc003ymd.2	+	8	3167	c.3144G>A	c.(3142-3144)CTG>CTA	p.L1048L	ZFPM2_uc011lhs.1_Silent_p.L779L	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	1048					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			ATGGTGGACTGAAACAAGATG	0.488													6	24					0	0	0.001168	0	0		A	106815454	A	A	106815454	2	1	51	1	0	0	0	0	0	0	0	1	17683	1277	45	4		4	ZFPM2	8	106815454	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08	37803377	106815454	39548568	74	38509											
TRPS1	7227	broad.mit.edu	37	chr8	116599425	116599425	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttagagtctttgtctgctCttgggtgccagacacaggcg	6	12	12	11	1	3	2	0	0	3	2	3	2	3	2	2	2	2	1	2	2	1	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr8:116599425C>A	uc003ynz.2	-	4	2923	c.2464G>T	c.(2464-2466)GAG>TAG	p.E822*	TRPS1_uc011lhy.1_Nonsense_Mutation_p.E826*|TRPS1_uc003yny.2_Nonsense_Mutation_p.E835*|TRPS1_uc010mcy.2_Nonsense_Mutation_p.E822*	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	822					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TTTGTCTGCTCTTGGGTGCCA	0.587									Langer-Giedion_syndrome				55	68					1.73933e-33	2.08347e-33	0.01441	1	0		A	116599425	A	A	116599425	4	1	51	1	0	0	0	0	0	1	0	0	16619	922	32	5	1393	5	TRPS1	8	116599425	Nonsense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	9783971	116599425	29764597	75	38510											
KIAA2026	158358	broad.mit.edu	37	chr9	5922408	5922408	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcttaactgatggtgttaaTaagttacttacagaggttac	12	15	9	5	0	1	2	0	1	1	1	1	2	1	2	0	2	4	3	0	2	6	6			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr9:5922408T>A	uc003zjq.3	-	8	3804	c.3588A>T	c.(3586-3588)TTA>TTT	p.L1196F	KIAA2026_uc010mht.2_Missense_Mutation_p.L371F	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	1196										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		ATGGTGTTAATAAGTTACTTA	0.418													13	48					0	0	0.020292	0	0		A	5922408	A	A	5922408	3	1	51	1	0	0	0	0	1	0	0	0	8286	1403	49	5	2727	5	KIAA2026	9	5922408	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08		5922408	135291023	76	38511											
FOXD4L5	653427	broad.mit.edu	37	chr9	70177123	70177123	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggggtcgccaggtccgcGccttctgctttcttcggtgc	1	11	14	15	5	2	0	0	0	2	0	5	0	3	0	4	4	2	1	4	4	0	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr9:70177123G>A	uc010moc.2	-	1	1693	c.861C>T	c.(859-861)GGC>GGT	p.G287G		NM_001126334	NP_001119806	Q5VV16	FX4L5_HUMAN	forkhead box D4-like 5	287					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CCAGGTCCGCGCCTTCTGCTT	0.692													4	58					0	0	0.001984	0	0		A	70177123	A	A	70177123	2	1	51	1	0	0	0	0	0	0	0	1	6016	1074	38	1		1	FOXD4L5	9	70177123	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08	64254715	70177123	71036308	77	38512											
TRPM6	140803	broad.mit.edu	37	chr9	77415356	77415356	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccatgcgctcattctgcttGaatgccttctccaacaagtc	8	12	7	14	1	3	1	1	1	2	0	5	1	3	1	3	0	4	2	3	0	3	3	rs147364287		TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr9:77415356G>C	uc004ajl.1	-	17	2290	c.2052C>G	c.(2050-2052)TTC>TTG	p.F684L	TRPM6_uc004ajk.1_Missense_Mutation_p.F679L|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_Missense_Mutation_p.F62L	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	684	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						CATTCTGCTTGAATGCCTTCT	0.512													9	56					0	0	0.006214	0	0		C	77415356	C	C	77415356	3	2	51	1	0	0	0	0	1	0	0	0	16616	1281	45	5	4108	5	TRPM6	9	77415356	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	7238233	77415356	63798075	78	38513											
VPS13A	23230	broad.mit.edu	37	chr9	79933226	79933226	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaggaaaccatcccagaaGaaacggcttcttctactgca	14	8	7	12	1	2	2	0	0	2	2	3	3	3	3	2	2	4	2	2	2	5	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr9:79933226G>T	uc004akr.2	+	41	5292	c.5032G>T	c.(5032-5034)GAA>TAA	p.E1678*	VPS13A_uc004akp.3_Nonsense_Mutation_p.E1678*|VPS13A_uc004akq.3_Nonsense_Mutation_p.E1678*|VPS13A_uc004aks.2_Nonsense_Mutation_p.E1639*|VPS13A_uc004akt.2_Nonsense_Mutation_p.E18*|VPS13A_uc010mpo.1_Nonsense_Mutation_p.E274*	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1678					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						CATCCCAGAAGAAACGGCTTC	0.318													11	42					0.000219431	0.00023406	0.020292	1	0		T	79933226	T	T	79933226	4	4	51	1	0	0	0	0	0	1	0	0	17215	943	33	5	5194	5	VPS13A	9	79933226	Nonsense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	2517870	79933226	61280205	79	38514											
KIAA0368	23392	broad.mit.edu	37	chr9	114135651	114135651	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatcacactgttccgatCtgtcaggccactcagcaaag	11	9	8	13	1	4	1	3	1	1	0	5	2	5	1	2	1	1	2	2	1	2	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr9:114135651C>A	uc004bfe.1	-	41	4747	c.4747G>T	c.(4747-4749)GAT>TAT	p.D1583Y		NM_001080398	NP_001073867			KIAA0368 protein												0						CTGTTCCGATCTGTCAGGCCA	0.383													14	84					9.16793e-09	1.05314e-08	0.00499	1	0		A	114135651	A	A	114135651	3	1	51	1	0	0	0	0	1	0	0	0	8187	913	32	5	1350	5	KIAA0368	9	114135651	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	34202425	114135651	27077780	80	38515											
C9orf84	158401	broad.mit.edu	37	chr9	114464486	114464486	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattgtctgatgccttctcAtaattcaattcttctagatc	10	18	4	9	0	5	2	2	1	4	1	7	2	5	2	1	0	1	0	1	0	4	8			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr9:114464486A>G	uc004bfr.2	-	21	2931	c.2796T>C	c.(2794-2796)TAT>TAC	p.Y932Y	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Silent_p.Y893Y|C9orf84_uc010mug.2_Silent_p.Y843Y	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	932										ovary(2)	2						ATGCCTTCTCATAATTCAATT	0.259													4	22					0	0	0.009096	0	0		G	114464486	G	G	114464486	2	3	51	1	0	0	0	0	0	0	0	1	2503	224	8	3		3	C9orf84	9	114464486	Silent	SNP	A	TCGA-BR-7716-01A-21D-2053-08	328835	114464486	26748945	81	38516											
DFNB31	25861	broad.mit.edu	37	chr9	117266506	117266506	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccgggccagggatttgtcGttgacgcgcagaatctggtc	7	9	14	11	4	1	2	0	1	1	1	3	3	1	3	2	3	0	2	2	3	1	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr9:117266506G>A	uc004biz.3	-	1	1225	c.576C>T	c.(574-576)AAC>AAT	p.N192N	DFNB31_uc004biy.3_5'Flank|DFNB31_uc004bja.3_Silent_p.N192N|DFNB31_uc004bjb.2_Silent_p.N192N	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	192	PDZ 1.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						GGGATTTGTCGTTGACGCGCA	0.478													23	86					0	0	0.004656	0	0		A	117266506	A	A	117266506	2	1	51	1	0	0	0	0	0	0	0	1	4461	1136	40	1		1	DFNB31	9	117266506	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08	2802020	117266506	23946925	82	38517											
OR1Q1	158131	broad.mit.edu	37	chr9	125377550	125377550	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacagaatcccccacttcttCtgtgacctctacgctctgat	9	12	5	15	1	4	3	0	2	4	1	5	3	5	3	3	0	2	1	3	0	3	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr9:125377550C>G	uc011lyy.1	+	1	534	c.534C>G	c.(532-534)TTC>TTG	p.F178L		NM_012364	NP_036496	Q15612	OR1Q1_HUMAN	olfactory receptor, family 1, subfamily Q,	178	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCCACTTCTTCTGTGACCTCT	0.493													8	77					0	0	0.003163	0	0		G	125377550	G	G	125377550	3	3	51	1	0	0	0	0	1	0	0	0	10990	912	32	5	536	5	OR1Q1	9	125377550	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	8111044	125377550	15835881	83	38518											
SEPHS1	22929	broad.mit.edu	37	chr10	13361306	13361306	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atatttgggggactttatctCtgcacagaaccgagctgctt	9	13	10	9	1	1	1	0	0	1	1	2	3	1	2	1	2	4	3	1	2	3	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr10:13361306C>G	uc001imk.2	-	9	1374	c.1015G>C	c.(1015-1017)GAG>CAG	p.E339Q	SEPHS1_uc001imh.2_Missense_Mutation_p.E263Q|SEPHS1_uc010qbs.1_Missense_Mutation_p.E291Q|SEPHS1_uc001imi.2_Missense_Mutation_p.E337Q|SEPHS1_uc001imj.2_3'UTR|SEPHS1_uc010qbt.1_Missense_Mutation_p.E272Q	NM_012247	NP_036379	P49903	SPS1_HUMAN	selenophosphate synthetase 1	339					protein modification process		ATP binding|GTP binding|selenide, water dikinase activity			skin(1)	1						GACTTTATCTCTGCACAGAAC	0.483													55	439					0	0	0.01441	0	0		G	13361306	G	G	13361306	3	3	51	1	0	0	0	0	1	0	0	0	14079	922	32	5	167	5	SEPHS1	10	13361306	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08		13361306	122173441	84	38519											
COMMD3	23412	broad.mit.edu	37	chr10	22607894	22607894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttcctgccctagaacactGattccccatcctatccagag	9	12	5	15	0	0	3	0	1	0	2	4	3	4	3	6	0	2	0	6	0	3	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr10:22607894G>A	uc001irf.2	+	7	523	c.475G>A	c.(475-477)GAT>AAT	p.D159N	COMMD3_uc001ire.2_3'UTR|COMMD3_uc001irg.2_RNA|BMI1_uc009xkg.2_Silent_p.L119L|BMI1_uc001irh.2_5'Flank	NM_012071	NP_036203	Q9UBI1	COMD3_HUMAN	COMM domain containing 3	159	COMM.						protein binding				0						CTAGAACACTGATTCCCCATC	0.299													7	79					0	0	0.001984	0	0		A	22607894	A	A	22607894	3	1	51	1	0	0	0	0	1	0	0	0	3720	1290	45	4	501	4	COMMD3	10	22607894	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	9246588	22607894	112926853	85	38520											
ABI1	10006	broad.mit.edu	37	chr10	27037669	27037669	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttgtataatcatatattgCaacaactatggaaaaaacag	18	13	5	5	0	1	0	1	0	0	0	1	1	1	1	0	1	4	2	0	1	10	8			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr10:27037669C>G	uc001isx.2	-	12	1524	c.1357G>C	c.(1357-1359)GCA>CCA	p.A453P	ABI1_uc001ite.2_Missense_Mutation_p.A391P|ABI1_uc010qdh.1_Missense_Mutation_p.A333P|ABI1_uc010qdi.1_Missense_Mutation_p.A274P|ABI1_uc001isy.2_Missense_Mutation_p.A426P|ABI1_uc001ita.2_Missense_Mutation_p.A397P|ABI1_uc001isz.2_Missense_Mutation_p.A421P|ABI1_uc001itb.2_Missense_Mutation_p.A441P|ABI1_uc001itc.2_Missense_Mutation_p.A425P|ABI1_uc010qdj.1_Missense_Mutation_p.A367P|ABI1_uc001itd.2_Missense_Mutation_p.A396P|ABI1_uc010qdk.1_Missense_Mutation_p.A338P|ABI1_uc010qdg.1_Missense_Mutation_p.A263P	NM_005470	NP_005461	Q8IZP0	ABI1_HUMAN	abl-interactor 1 isoform a	453	SH3.				actin polymerization or depolymerization|cellular component movement|negative regulation of cell proliferation|peptidyl-tyrosine phosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	cell junction|cytoskeleton|cytosol|endoplasmic reticulum|filopodium|growth cone|lamellipodium|nucleus|soluble fraction|synapse|synaptosome	cytoskeletal protein binding			central_nervous_system(1)	1						TCATATATTGCAACAACTATG	0.308													4	17					0	0	0.001168	0	0		G	27037669	G	G	27037669	3	3	51	1	0	0	0	0	1	0	0	0	88	710	25	5	173	5	ABI1	10	27037669	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	4429775	27037669	108497078	86	38521											
FAM22D	728130	broad.mit.edu	37	chr10	89120863	89120863	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatgagaacttccgactctgGcagcactacaagcccctggc	10	8	9	14	1	1	1	0	1	1	1	2	3	2	1	3	2	4	2	3	2	4	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr10:89120863G>A	uc001kes.2	+	2	1338	c.792G>A	c.(790-792)TGG>TGA	p.W264*	FAM22D_uc009xte.1_Nonsense_Mutation_p.W264*	NM_001009610	NP_001009610	Q5VT03	FA22D_HUMAN	hypothetical protein LOC728130	264											0						TCCGACTCTGGCAGCACTACA	0.622													24	104					0	0	0.017118	0	0		A	89120863	A	A	89120863	4	1	51	1	0	0	0	0	0	1	0	0	5555	1212	42	2	798	2	FAM22D	10	89120863	Nonsense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	62083194	89120863	46413884	87	38522											
DNMBP	23268	broad.mit.edu	37	chr10	101657908	101657908	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgaccgcaaggactgcaTtggttaaaggcactttatct	10	12	9	10	1	1	1	0	1	1	0	1	2	1	2	2	3	1	4	2	3	4	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr10:101657908T>A	uc001kqj.2	-	9	2947	c.2855A>T	c.(2854-2856)AAT>ATT	p.N952I	DNMBP_uc010qpl.1_5'UTR|DNMBP_uc001kqg.2_Missense_Mutation_p.N240I|DNMBP_uc001kqh.2_Missense_Mutation_p.N584I	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	952	DH.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		AAGGACTGCATTGGTTAAAGG	0.443													23	81					0	0	0.005443	0	0		A	101657908	A	A	101657908	3	1	51	1	0	0	0	0	1	0	0	0	4680	1493	52	5	1914	5	DNMBP	10	101657908	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08	12537045	101657908	33876839	88	38523											
NFKB2	4791	broad.mit.edu	37	chr10	104157099	104157099	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatgtgactaagaagaacAtgatggggactatgatacaa	16	9	11	5	0	0	5	0	3	0	2	0	6	0	6	0	2	3	1	0	2	6	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr10:104157099A>G	uc001kvb.2	+	7	701	c.436A>G	c.(436-438)ATG>GTG	p.M146V	NFKB2_uc001kva.2_Missense_Mutation_p.M146V|NFKB2_uc010qqk.1_Missense_Mutation_p.M146V|NFKB2_uc001kvd.2_Missense_Mutation_p.M146V|NFKB2_uc009xxc.2_Missense_Mutation_p.M146V	NM_001077494	NP_001070962	Q00653	NFKB2_HUMAN	nuclear factor of kappa light polypeptide gene	146	RHD.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	Bcl3/NF-kappaB2 complex|cytosol|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			lung(3)	3		Colorectal(252;0.00957)		Epithelial(162;3.4e-08)|all cancers(201;6.41e-07)		TAAGAAGAACATGATGGGGAC	0.542			T	IGH@	B-NHL								54	67					0	0	0.01441	0	0		G	104157099	G	G	104157099	3	3	51	1	0	0	0	0	1	0	0	0	10395	217	8	3	458	3	NFKB2	10	104157099	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	2499191	104157099	31377648	89	38524											
AFAP1L2	84632	broad.mit.edu	37	chr10	116064682	116064682	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggctgttcaccagcacgttCaggtaacctgcaggaggaag	10	8	13	10	1	2	0	2	0	0	0	2	2	2	2	2	4	3	6	2	4	2	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr10:116064682C>T	uc001lbn.2	-	11	1381	c.1080G>A	c.(1078-1080)CTG>CTA	p.L360L	AFAP1L2_uc001lbo.2_Silent_p.L360L|AFAP1L2_uc010qse.1_Silent_p.L413L|AFAP1L2_uc001lbp.2_Silent_p.L388L|AFAP1L2_uc001lbr.1_Silent_p.L360L|AFAP1L2_uc010qsd.1_5'UTR|AFAP1L2_uc001lbq.1_5'Flank	NM_001001936	NP_001001936	Q8N4X5	AF1L2_HUMAN	KIAA1914 protein isoform 1	360	PH 2.				inflammatory response|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of transcription, DNA-dependent|regulation of interleukin-6 production|regulation of mitotic cell cycle	cytoplasm	protein tyrosine kinase activator activity|SH2 domain binding|SH3 domain binding			ovary(1)|breast(1)	2		Colorectal(252;0.175)|Breast(234;0.231)		Epithelial(162;0.0219)|all cancers(201;0.0561)		CCAGCACGTTCAGGTAACCTG	0.632													16	68					0	0	0.006122	0	0		T	116064682	T	T	116064682	2	4	51	1	0	0	0	0	0	0	0	1	355	813	29	4		4	AFAP1L2	10	116064682	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	11907583	116064682	19470065	90	38525											
LRP4	4038	broad.mit.edu	37	chr11	46886049	46886049	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaaatcagcagaatactgagGagtccaccaatggcgtagct	15	7	10	9	1	1	2	1	1	0	1	2	3	2	3	2	2	3	3	2	2	6	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr11:46886049G>A	uc001ndn.3	-	36	5339	c.5193C>T	c.(5191-5193)CTC>CTT	p.L1731L	uc001ndl.2_Intron|LRP4_uc001ndm.3_5'Flank	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1731	Helical; (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		GAATACTGAGGAGTCCACCAA	0.498													12	75					0	0	0.016723	0	0		A	46886049	A	A	46886049	2	1	51	1	0	0	0	0	0	0	0	1	8977	1161	41	4		4	LRP4	11	46886049	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08		46886049	88120467	91	38526											
KBTBD4	55709	broad.mit.edu	37	chr11	47594886	47594886	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtccagatcattctcctcccCccctagtaagtagatgatcc	9	11	6	15	0	2	3	1	1	1	2	6	3	5	3	6	0	0	2	6	0	3	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr11:47594886C>A	uc001nfx.2	-	4	1324	c.1153G>T	c.(1153-1155)GGG>TGG	p.G385W	PTPMT1_uc001nfs.3_3'UTR|PTPMT1_uc001nfv.3_3'UTR|PTPMT1_uc009ylt.2_3'UTR|PTPMT1_uc001nfu.3_3'UTR|NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_Missense_Mutation_p.G410W|KBTBD4_uc001nfz.2_Missense_Mutation_p.G401W|KBTBD4_uc001nfy.2_Missense_Mutation_p.G385W	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4	385	Kelch 4.									ovary(1)|central_nervous_system(1)	2						TTCTCCTCCCCCCCTAGTAAG	0.522													27	88					5.60225e-13	6.53596e-13	0.009535	1	0		A	47594886	A	A	47594886	3	1	51	1	0	0	0	0	1	0	0	0	8011	623	22	5	407	5	KBTBD4	11	47594886	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	708837	47594886	87411630	92	38527											
OR9G9	504191	broad.mit.edu	37	chr11	56468251	56468251	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccatctccaagcccctgCtttatgcccaggccatgtcc	6	10	8	17	0	1	0	0	0	1	0	3	0	2	0	7	2	3	1	7	2	2	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr11:56468251C>A	uc010rjn.1	+	1	388	c.388C>A	c.(388-390)CTT>ATT	p.L130I		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CAAGCCCCTGCTTTATGCCCA	0.507													4	112					2.56e-06	2.85294e-06	0.009096	1	0		A	56468251	A	A	56468251	3	1	51	1	0	0	0	0	1	0	0	0	11271	797	28	5	390	5	OR9G9	11	56468251	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	8873365	56468251	78538265	93	38528											
VWCE	220001	broad.mit.edu	37	chr11	61058812	61058812	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagatgccactcccacagccGaaggagcagagggctgagag	12	3	14	12	1	0	3	0	1	0	3	1	6	1	4	3	2	3	2	3	2	1	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr11:61058812G>A	uc001nra.2	-	3	498	c.219C>T	c.(217-219)TTC>TTT	p.F73F	VWCE_uc001nrb.2_RNA	NM_152718	NP_689931	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains	73	EGF-like 1.					extracellular region	calcium ion binding			ovary(1)	1						TCCCACAGCCGAAGGAGCAGA	0.642													5	19					0	0	0.001984	0	0		A	61058812	A	A	61058812	2	1	51	1	0	0	0	0	0	0	0	1	17271	1049	37	1		1	VWCE	11	61058812	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08	4590561	61058812	73947704	94	38529											
DPP3	10072	broad.mit.edu	37	chr11	66249784	66249784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctctatgcctaccacctgtCccgtgccgcctggtacggag	5	9	10	17	3	1	0	0	0	1	0	2	1	2	1	7	2	4	1	7	2	3	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr11:66249784C>T	uc001oig.1	+	2	175	c.113C>T	c.(112-114)TCC>TTC	p.S38F	DPP3_uc001oif.1_Missense_Mutation_p.S38F|DPP3_uc010rpe.1_Missense_Mutation_p.S57F	NM_005700	NP_005691	Q9NY33	DPP3_HUMAN	dipeptidyl peptidase III	38					proteolysis	cytoplasm	aminopeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity			ovary(1)|skin(1)	2						TACCACCTGTCCCGTGCCGCC	0.647													11	60					0	0	0.013537	0	0		T	66249784	T	T	66249784	3	4	51	1	0	0	0	0	1	0	0	0	4734	855	30	4	115	4	DPP3	11	66249784	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	5190972	66249784	68756732	95	38530											
FAT3	120114	broad.mit.edu	37	chr11	92539570	92539570	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaagacattccatcaaatAaaatcatcctgaaagtcagt	17	10	5	9	0	3	3	3	2	0	1	5	3	5	3	2	0	0	0	2	0	5	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr11:92539570A>G	uc001pdj.3	+	11	9153	c.9136A>G	c.(9136-9138)AAA>GAA	p.K3046E		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3046	Cadherin 28.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCCATCAAATAAAATCATCCT	0.363										TCGA Ovarian(4;0.039)			5	9					0	0	0.00308	0	0		G	92539570	G	G	92539570	3	3	51	1	0	0	0	0	1	0	0	0	5705	363	13	3	9178	3	FAT3	11	92539570	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	26289786	92539570	42466946	96	38531											
ANKRD49	54851	broad.mit.edu	37	chr11	94231264	94231264	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagtgcggagactcctttctGaaaaggccactcacgtgaac	11	8	10	12	2	2	3	1	2	1	1	3	4	3	3	2	2	2	0	2	2	3	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr11:94231264G>A	uc001pew.2	+	3	425	c.286G>A	c.(286-288)GAA>AAA	p.E96K	ANKRD49_uc001pex.2_3'UTR|ANKRD49_uc001pey.2_RNA	NM_017704	NP_060174	Q8WVL7	ANR49_HUMAN	fetal globin inducing factor	96	ANK 1.				positive regulation of transcription, DNA-dependent					central_nervous_system(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				ACTCCTTTCTGAAAAGGCCAC	0.413													7	33					0	0	0.004482	0	0		A	94231264	A	A	94231264	3	1	51	1	0	0	0	0	1	0	0	0	675	1291	45	4	292	4	ANKRD49	11	94231264	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	1691694	94231264	40775252	97	38532											
MMP27	64066	broad.mit.edu	37	chr11	102573751	102573751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caatcccctttgaaatcttgGtgaattttagtggagtgact	10	15	9	7	0	1	3	0	3	1	0	2	4	2	4	2	2	0	0	2	2	4	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr11:102573751G>A	uc001phd.1	-	3	463	c.440C>T	c.(439-441)ACC>ATC	p.T147I		NM_022122	NP_071405	Q9H306	MMP27_HUMAN	matrix metalloproteinase 27 precursor	147					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3	all_cancers(8;0.000843)|all_epithelial(12;0.00362)|Lung NSC(15;0.21)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0509)|Lung(13;0.0696)|LUSC - Lung squamous cell carcinoma(19;0.13)|all cancers(10;0.176)	BRCA - Breast invasive adenocarcinoma(274;0.0151)		TGAAATCTTGGTGAATTTTAG	0.413													14	107					0	0	0.006122	0	0		A	102573751	A	A	102573751	3	1	51	1	0	0	0	0	1	0	0	0	9682	1261	44	4	1133	4	MMP27	11	102573751	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	8342487	102573751	32432765	98	38533											
OR8B4	283162	broad.mit.edu	37	chr11	124294641	124294641	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattaaggtgatcaagcccaAgttgcccaccacagtgaaca	15	7	8	11	0	1	2	1	2	0	0	1	2	1	2	3	1	3	1	3	1	5	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr11:124294641A>C	uc010sak.1	-	1	127	c.127T>G	c.(127-129)TTG>GTG	p.L43V		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		ATCAAGCCCAAGTTGCCCACC	0.438													6	65					0	0	0.00308	0	0		C	124294641	C	C	124294641	3	2	51	1	0	0	0	0	1	0	0	0	11248	69	3	5	804	5	OR8B4	11	124294641	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	21720890	124294641	10711875	99	38534											
ARHGAP32	9743	broad.mit.edu	37	chr11	128839750	128839750	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccggggtcatgttatcataTtgggacatgacaggcccttt	8	12	12	9	1	2	1	2	1	0	0	2	2	2	2	2	4	0	1	2	4	2	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr11:128839750T>C	uc009zcp.2	-	22	5316	c.5316A>G	c.(5314-5316)CAA>CAG	p.Q1772Q	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Silent_p.Q731Q|ARHGAP32_uc001qez.2_Silent_p.Q1423Q	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1772	Interaction with FYN.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TGTTATCATATTGGGACATGA	0.522													8	70					0	0	0.006214	0	0		C	128839750	C	C	128839750	2	2	51	1	0	0	0	0	0	0	0	1	881	1490	52	3		3	ARHGAP32	11	128839750	Silent	SNP	T	TCGA-BR-7716-01A-21D-2053-08	4545109	128839750	6166766	100	38535											
OPCML	4978	broad.mit.edu	37	chr11	132307151	132307151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttactttccgcacatcgggcGcagcgacatcgttcaacgcg	8	9	10	14	7	1	0	1	0	0	0	4	1	2	0	1	1	3	3	1	1	2	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr11:132307151G>A	uc001qgs.2	-	4	679	c.629C>T	c.(628-630)GCG>GTG	p.A210V	OPCML_uc001qgu.2_Missense_Mutation_p.A203V|OPCML_uc010sck.1_Missense_Mutation_p.A210V|OPCML_uc001qgt.2_Missense_Mutation_p.A209V|OPCML_uc010scl.1_Missense_Mutation_p.A169V	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	210	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		CACATCGGGCGCAGCGACATC	0.552													12	80					0	0	0.003163	0	0		A	132307151	A	A	132307151	3	1	51	1	0	0	0	0	1	0	0	0	10893	1087	38	1	424	1	OPCML	11	132307151	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	3467401	132307151	2699365	101	38536											
VWF	7450	broad.mit.edu	37	chr12	6120874	6120874	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcccccggtcacagttGacccgatgactcttcagcaa	9	8	8	16	2	4	2	3	2	1	0	4	3	4	2	3	1	2	2	3	1	1	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr12:6120874G>T	uc001qnn.1	-	34	6001	c.5751C>A	c.(5749-5751)GTC>GTA	p.V1917V	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1917					blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	GGTCACAGTTGACCCGATGAC	0.612													3	27					0.004672	0.00489032	0.004672	1	0		T	6120874	T	T	6120874	2	4	51	1	0	0	0	0	0	0	0	1	17272	1277	45	5		5	VWF	12	6120874	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08		6120874	127731021	102	38537											
CHD4	1108	broad.mit.edu	37	chr12	6690489	6690489	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcaggggctgtagatttaaCctccttttctccttctatgc	6	16	7	12	0	3	1	1	0	2	1	5	1	4	1	3	2	2	2	3	2	3	7			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr12:6690489C>A	uc001qpo.2	-	32	4911	c.4747G>T	c.(4747-4749)GTT>TTT	p.V1583F	CHD4_uc001qpn.2_Missense_Mutation_p.V1576F|CHD4_uc001qpp.2_Missense_Mutation_p.V1608F|uc001qpq.1_Intron	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1583	Required for interaction with PCNT.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						GTAGATTTAACCTCCTTTTCT	0.393													10	102					7.93312e-07	8.92974e-07	0.020292	1	0		A	6690489	A	A	6690489	3	1	51	1	0	0	0	0	1	0	0	0	3330	507	18	5	1027	5	CHD4	12	6690489	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	569615	6690489	127161406	103	38538											
CD163L1	283316	broad.mit.edu	37	chr12	7531888	7531888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagcctcagctccatatccGatgcatctgaaaccaaatac	14	8	5	14	1	2	1	1	1	1	0	4	2	4	1	4	0	5	2	4	0	5	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr12:7531888G>A	uc001qsy.2	-	9	2083	c.2057C>T	c.(2056-2058)TCG>TTG	p.S686L	CD163L1_uc010sge.1_Missense_Mutation_p.S696L	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	686	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						CTCCATATCCGATGCATCTGA	0.463													3	32					0	0	0.004672	0	0		A	7531888	A	A	7531888	3	1	51	1	0	0	0	0	1	0	0	0	2971	1059	37	1	2348	1	CD163L1	12	7531888	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	841399	7531888	126320007	104	38539											
CD163	9332	broad.mit.edu	37	chr12	7647956	7647956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaactgtcccagcacagcGgctgcctccacctctaagtc	8	8	7	18	1	2	0	1	0	1	0	5	0	4	0	4	1	4	2	4	1	2	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr12:7647956G>A	uc001qsz.3	-	6	1269	c.1141C>T	c.(1141-1143)CGC>TGC	p.R381C	CD163_uc001qta.3_Missense_Mutation_p.R381C|CD163_uc009zfw.2_Missense_Mutation_p.R381C	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	381	SRCR 4.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						CCAGCACAGCGGCTGCCTCCA	0.488													14	63					0	0	0.00499	0	0		A	7647956	A	A	7647956	3	1	51	1	0	0	0	0	1	0	0	0	2970	1116	39	1	2373	1	CD163	12	7647956	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	116068	7647956	126203939	105	38540											
SLCO1B3	28234	broad.mit.edu	37	chr12	21011427	21011427	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatctaaactacacagacCgaagttaattggaattggtt	14	12	9	6	1	1	1	0	0	1	1	1	4	1	3	1	3	2	2	1	3	6	6			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr12:21011427C>A	uc001rek.2	+	4	407	c.281C>A	c.(280-282)CCG>CAG	p.P94Q	SLCO1B3_uc001rel.2_Missense_Mutation_p.P94Q|SLCO1B3_uc010sil.1_Missense_Mutation_p.P94Q|LST-3TM12_uc010sim.1_Missense_Mutation_p.P94Q	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	94	Cytoplasmic (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					CTACACAGACCGAAGTTAATT	0.323													10	53					6.40141e-05	6.89383e-05	0.010729	1	0		A	21011427	A	A	21011427	3	1	51	1	0	0	0	0	1	0	0	0	14749	652	23	5	291	5	SLCO1B3	12	21011427	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	13363471	21011427	112840468	106	38541											
KRT73	319101	broad.mit.edu	37	chr12	53002163	53002163	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagagctgggccagtagccGtaggtgccagcattgctgaa	10	7	14	10	1	0	2	0	1	0	1	0	2	0	2	3	2	5	5	3	2	3	3	rs114995859	by1000genomes	TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr12:53002163G>A	uc001sas.2	-	9	1475	c.1440C>T	c.(1438-1440)TAC>TAT	p.Y480Y		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	480	Tail.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		GCCAGTAGCCGTAGGTGCCAG	0.642													14	13					0	0	0.004007	0	0		A	53002163	A	A	53002163	2	1	51	1	0	0	0	0	0	0	0	1	8502	1140	40	1		1	KRT73	12	53002163	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08	31990736	53002163	80849732	107	38542											
SRGAP1	57522	broad.mit.edu	37	chr12	64458981	64458981	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagtcccgccttgccacgctCaaaatcgagaatgaagaggt	12	7	10	12	3	1	3	1	1	0	2	3	4	2	3	3	1	1	1	3	1	4	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr12:64458981C>G	uc010ssp.1	+	8	1163	c.1107C>G	c.(1105-1107)CTC>CTG	p.L369L	SRGAP1_uc001srt.2_Silent_p.L369L|SRGAP1_uc001srv.2_Silent_p.L329L	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	369	Potential.				axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		TTGCCACGCTCAAAATCGAGA	0.502													10	35					0	0	0.010729	0	0		G	64458981	G	G	64458981	2	3	51	1	0	0	0	0	0	0	0	1	15170	813	29	5		5	SRGAP1	12	64458981	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	11456818	64458981	69392914	108	38543											
PPFIA2	8499	broad.mit.edu	37	chr12	81762526	81762526	+	Missense_Mutation	SNP	C	G	G																															tttcttctagagcagccattCtttcctttaagtgtagttgt																										TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr12:81762526C>G	uc001szo.1	-	13	1621	c.1460G>C	c.(1459-1461)AGA>ACA	p.R487T	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	413										ovary(3)|lung(2)|pancreas(1)	6						AGCAGCCATTCTTTCCTTTAA	0.358													7	125					0	0	0.004482	0	0		G	81762526	G	G	81762526	3	3	51	1	0	0	0	0	1	0	0	0	12329	913	32	5	2393	5	PPFIA2	12	81762526	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	17303545	81762526	52089369	109	38544	75	2									
PPFIA2	8499	broad.mit.edu	37	chr12	81762535	81762535	+	Missense_Mutation	SNP	A	G	G																															gagcagccattctttcctttAagtgtagttgtaggcgttca																										TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr12:81762535A>G	uc001szo.1	-	13	1612	c.1451T>C	c.(1450-1452)TTA>TCA	p.L484S	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	410										ovary(3)|lung(2)|pancreas(1)	6						TCTTTCCTTTAAGTGTAGTTG	0.373													6	122					0	0	0.00308	0	0		G	81762535	G	G	81762535	3	3	51	1	0	0	0	0	1	0	0	0	12329	372	13	3	2402	3	PPFIA2	12	81762535	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	9	81762535	52089360	110	38545	75	2									
NAA25	80018	broad.mit.edu	37	chr12	112478294	112478294	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaacttacctcaacaaaGaaaactagattttctaaaag	21	9	3	8	0	2	2	1	0	1	2	2	2	2	2	1	0	4	0	1	0	10	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr12:112478294G>T	uc001ttm.2	-	21	2549	c.2529C>A	c.(2527-2529)TTC>TTA	p.F843L	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Missense_Mutation_p.F815L|NAA25_uc009zwa.1_Missense_Mutation_p.F821L	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	843						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						CCTCAACAAAGAAAACTAGAT	0.323													7	37					1.06961e-07	1.21007e-07	0.00308	1	0		T	112478294	T	T	112478294	3	4	51	1	0	0	0	0	1	0	0	0	10139	933	33	5	405	5	NAA25	12	112478294	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	30715759	112478294	21373601	111	38546											
NAA25	80018	broad.mit.edu	37	chr12	112481431	112481431	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatatgtattgatggtacctGaatatccttctcaataaatc	14	15	5	7	0	1	2	1	2	1	0	4	2	2	2	2	1	1	2	2	1	9	7			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr12:112481431G>A	uc001ttm.2	-	18	2268	c.2248C>T	c.(2248-2250)CAG>TAG	p.Q750*	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Nonsense_Mutation_p.Q722*|NAA25_uc009zwa.1_Nonsense_Mutation_p.Q750*	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	750						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						GATGGTACCTGAATATCCTTC	0.398													5	91					0	0	0.001168	0	0		A	112481431	A	A	112481431	4	1	51	1	0	0	0	0	0	1	0	0	10139	1299	45	4	698	4	NAA25	12	112481431	Nonsense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	3137	112481431	21370464	112	38547											
ZCCHC8	55596	broad.mit.edu	37	chr12	122958310	122958310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attatcaagaagggcaccttCagtgtttaccggagccaact	12	10	9	10	1	2	1	2	0	0	1	2	2	2	2	3	2	3	2	3	2	5	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr12:122958310C>T	uc001ucn.2	-	14	1989	c.1858G>A	c.(1858-1860)GAA>AAA	p.E620K	ZCCHC8_uc001ucl.2_Missense_Mutation_p.E231K|ZCCHC8_uc001ucm.2_Missense_Mutation_p.E382K|ZCCHC8_uc009zxp.2_Missense_Mutation_p.E382K|ZCCHC8_uc009zxq.2_Missense_Mutation_p.E382K	NM_017612	NP_060082	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	620						catalytic step 2 spliceosome	nucleic acid binding|protein binding|zinc ion binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.25e-05)|Epithelial(86;0.000113)|BRCA - Breast invasive adenocarcinoma(302;0.202)		AGGGCACCTTCAGTGTTTACC	0.493													11	123					0	0	0.013537	0	0		T	122958310	T	T	122958310	3	4	51	1	0	0	0	0	1	0	0	0	17619	835	29	4	269	4	ZCCHC8	12	122958310	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	10476879	122958310	10893585	113	38548											
ENOX1	55068	broad.mit.edu	37	chr13	43987028	43987028	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaagctgggtgatgttcTcaactccacctgcatctacc	8	10	11	12	0	2	1	1	1	2	0	4	2	3	2	3	3	4	3	3	3	3	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr13:43987028T>C	uc001uza.3	-	4	323	c.23A>G	c.(22-24)GAG>GGG	p.E8G	ENOX1_uc001uzb.3_Missense_Mutation_p.E8G|ENOX1_uc001uzc.3_Missense_Mutation_p.E8G	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	8					electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		GGTGATGTTCTCAACTCCACC	0.512													7	52					0	0	0.008291	0	0		C	43987028	C	C	43987028	3	2	51	1	0	0	0	0	1	0	0	0	5134	1551	54	3	1964	3	ENOX1	13	43987028	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08		43987028	71182850	114	38549											
MYCBP2	23077	broad.mit.edu	37	chr13	77725076	77725076	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaacagggacagctttCacttccacctaaacatggta	14	9	8	10	0	1	1	1	1	0	1	2	3	2	2	2	2	3	2	2	2	4	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr13:77725076C>A	uc001vkf.2	-	48	6901	c.6810G>T	c.(6808-6810)GTG>GTT	p.V2270V	MYCBP2_uc010aev.2_Silent_p.V1674V	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2270					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GGACAGCTTTCACTTCCACCT	0.333													6	50					3.59834e-05	3.91275e-05	0.001168	1	0		A	77725076	A	A	77725076	2	1	51	1	0	0	0	0	0	0	0	1	10036	813	29	5		5	MYCBP2	13	77725076	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	33738048	77725076	37444802	115	38550											
GPC5	2262	broad.mit.edu	37	chr13	92560227	92560227	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gttggaaatggaatcaaagcCcagtctggaaatcctgaagt	14	9	11	7	0	2	1	1	1	1	0	3	4	3	4	2	3	1	1	2	3	5	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr13:92560227C>A	uc010tif.1	+	6	1683	c.1317C>A	c.(1315-1317)GCC>GCA	p.A439A		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	439						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				GAATCAAAGCCCAGTCTGGAA	0.388													6	34					3.59834e-05	3.91275e-05	0.001168	1	0		A	92560227	A	A	92560227	2	1	51	1	0	0	0	0	0	0	0	1	6616	610	22	5		5	GPC5	13	92560227	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	14835151	92560227	22609651	116	38551											
GPHN	10243	broad.mit.edu	37	chr14	67431953	67431953	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgttcaggtgctcccacgaGacacagcctccctcagcact	8	8	9	16	1	2	1	2	0	0	1	4	2	4	1	3	1	3	3	3	1	0	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr14:67431953G>C	uc001xiy.2	+	8	1896	c.775G>C	c.(775-777)GAC>CAC	p.D259H	GPHN_uc001xiw.2_Missense_Mutation_p.D274H|GPHN_uc001xix.2_Missense_Mutation_p.D292H|GPHN_uc010tss.1_Missense_Mutation_p.D272H|GPHN_uc010tst.1_Missense_Mutation_p.D228H|GPHN_uc010tsu.1_Missense_Mutation_p.D182H	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	259	Interaction with GABARAP (By similarity).				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		GCTCCCACGAGACACAGCCTC	0.473			T	MLL	AL								4	66					0	0	0.001168	0	0		C	67431953	C	C	67431953	3	2	51	1	0	0	0	0	1	0	0	0	6625	942	33	5	908	5	GPHN	14	67431953	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08		67431953	39917587	117	38552											
VTI1B	10490	broad.mit.edu	37	chr14	68118125	68118125	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggctgcgaaagaatttgtAgtaaaccaggcctcccagga	13	8	11	9	1	0	1	0	0	0	1	1	3	1	2	3	3	2	3	3	3	5	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr14:68118125A>G	uc001xjt.2	-	6	1072	c.676T>C	c.(676-678)TAC>CAC	p.Y226H	ARG2_uc001xjs.2_3'UTR|VTI1B_uc010aqp.2_Missense_Mutation_p.Y165H|VTI1B_uc001xju.2_Missense_Mutation_p.Y185H	NM_006370	NP_006361	Q9UEU0	VTI1B_HUMAN	vesicle transport through interaction with	226	Helical; Anchor for type IV membrane protein; (Potential).				cell proliferation|cellular membrane fusion|intracellular protein transport|vesicle docking involved in exocytosis	endomembrane system|integral to membrane					0				all cancers(60;0.000344)|OV - Ovarian serous cystadenocarcinoma(108;0.00212)|BRCA - Breast invasive adenocarcinoma(234;0.00941)		AAGAATTTGTAGTAAACCAGG	0.448													7	51					0	0	0.004482	0	0		G	68118125	G	G	68118125	3	3	51	1	0	0	0	0	1	0	0	0	17262	420	15	3	26	3	VTI1B	14	68118125	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	686172	68118125	39231415	118	38553											
ADAM20	8748	broad.mit.edu	37	chr14	70990515	70990515	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatcaactccagtattaaaAggattctggcatattccttt	13	14	5	9	0	2	0	1	0	1	0	4	1	4	1	2	2	1	2	2	2	5	6			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr14:70990515A>G	uc001xme.2	-	2	1355	c.1110T>C	c.(1108-1110)CCT>CCC	p.P370P		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	320	Peptidase M12B.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		CAGTATTAAAAGGATTCTGGC	0.378													8	50					0	0	0.006214	0	0		G	70990515	G	G	70990515	2	3	51	1	0	0	0	0	0	0	0	1	242	59	3	3		3	ADAM20	14	70990515	Silent	SNP	A	TCGA-BR-7716-01A-21D-2053-08	2872390	70990515	36359025	119	38554											
SPTLC2	9517	broad.mit.edu	37	chr14	78043230	78043230	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgtaggaacccatgtttaTaacaccctttattatattcc	11	16	5	9	0	0	0	0	0	0	0	1	1	1	1	3	1	2	3	3	1	7	10			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr14:78043230T>C	uc001xub.2	-	4	699	c.511A>G	c.(511-513)ATA>GTA	p.I171V		NM_004863	NP_004854	O15270	SPTC2_HUMAN	serine palmitoyltransferase, long chain base	171						integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups			upper_aerodigestive_tract(1)|ovary(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0346)	L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	CCCATGTTTATAACACCCTTT	0.368													56	128					0	0	0.01441	0	0		C	78043230	C	C	78043230	3	2	51	1	0	0	0	0	1	0	0	0	15149	1406	49	3	1213	3	SPTLC2	14	78043230	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08	7052715	78043230	29306310	120	38555											
PSMC1	5700	broad.mit.edu	37	chr14	90736591	90736591	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgcctgatgaaaagacgaaGaagcgcatctttcagattca	14	9	9	9	2	3	5	2	2	1	3	3	6	3	5	1	0	2	1	1	0	4	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr14:90736591G>C	uc001xyf.2	+	10	1131	c.1083G>C	c.(1081-1083)AAG>AAC	p.K361N	PSMC1_uc001xyg.2_Missense_Mutation_p.K288N|PSMC1_uc001xyh.2_Missense_Mutation_p.K288N	NM_002802	NP_002793	P62191	PRS4_HUMAN	proteasome 26S ATPase subunit 1	361					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0		all_cancers(154;0.142)		COAD - Colon adenocarcinoma(157;0.21)		AAAAGACGAAGAAGCGCATCT	0.502													5	32					0	0	0.00308	0	0		C	90736591	C	C	90736591	3	2	51	1	0	0	0	0	1	0	0	0	12707	933	33	5	1121	5	PSMC1	14	90736591	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	12693361	90736591	16612949	121	38556											
HSP90AA1	3320	broad.mit.edu	37	chr14	102552368	102552368	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaatagtgagagttcgatCttgtttgttcggtataaggt	10	15	11	5	2	1	1	0	1	1	1	3	3	1	1	0	2	0	4	0	2	4	7			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr14:102552368C>A	uc001yku.3	-	3	446	c.256G>T	c.(256-258)GAT>TAT	p.D86Y	HSP90AA1_uc001ykv.3_Missense_Mutation_p.D208Y|HSP90AA1_uc001ykw.1_Intron|HSP90AA1_uc001ykx.1_Missense_Mutation_p.D75Y	NM_005348	NP_005339	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 2	86				D -> G (in Ref. 4; CAI64495 and 6; BAG51711).	axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	AGAGTTCGATCTTGTTTGTTC	0.418													7	93					1.12685e-05	1.23733e-05	0.004482	1	0		A	102552368	A	A	102552368	3	1	51	1	0	0	0	0	1	0	0	0	7417	913	32	5	1978	5	HSP90AA1	14	102552368	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	11815777	102552368	4797172	122	38557											
AHNAK2	113146	broad.mit.edu	37	chr14	105411904	105411904	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tcacatccttgtcggccaggGacaggtccccctccagccgt	6	8	10	17	2	1	0	1	0	0	0	5	1	4	1	6	3	1	0	6	3	0	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr14:105411904G>C	uc010axc.1	-	7	10004	c.9884C>G	c.(9883-9885)TCC>TGC	p.S3295C	AHNAK2_uc001ypx.2_Missense_Mutation_p.S3195C	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3295						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GTCGGCCAGGGACAGGTCCCC	0.617													23	183					0	0	0.008361	0	0		C	105411904	C	C	105411904	3	2	51	1	0	0	0	0	1	0	0	0	415	1174	41	5	7507	5	AHNAK2	14	105411904	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	2859536	105411904	1937636	123	38558											
AHNAK2	113146	broad.mit.edu	37	chr14	105412399	105412399	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tcacatccttgtcggccaggGacaggtccccctccagccgt	6	8	10	17	2	1	0	1	0	0	0	5	1	4	1	6	3	1	0	6	3	0	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr14:105412399G>C	uc010axc.1	-	7	9509	c.9389C>G	c.(9388-9390)TCC>TGC	p.S3130C	AHNAK2_uc001ypx.2_Missense_Mutation_p.S3030C	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3130						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GTCGGCCAGGGACAGGTCCCC	0.617													9	146					0	0	0.013537	0	0		C	105412399	C	C	105412399	3	2	51	1	0	0	0	0	1	0	0	0	415	1174	41	5	8002	5	AHNAK2	14	105412399	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	495	105412399	1937141	124	38559											
SNAP23	8773	broad.mit.edu	37	chr15	42823658	42823658	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgccaatgccagagcaaaGaaactcattgacagctaaag	17	7	8	9	0	1	3	1	1	0	2	1	3	1	3	2	0	5	2	2	0	5	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr15:42823658G>A	uc001zpz.1	+	8	709	c.618G>A	c.(616-618)AAG>AAA	p.K206K	SNAP23_uc001zqa.1_Silent_p.K153K	NM_003825	NP_003816	O00161	SNP23_HUMAN	synaptosomal-associated protein 23 isoform	206	t-SNARE coiled-coil homology 2.				cellular membrane fusion|post-Golgi vesicle-mediated transport|protein transport|vesicle targeting	azurophil granule|cell junction|Golgi apparatus|nucleus|plasma membrane enriched fraction|specific granule|synapse|synaptosome	protein binding				0		all_cancers(109;7.14e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;1.18e-08)|all_lung(180;4.2e-08)|Melanoma(134;0.0179)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;2.62e-06)		CCAGAGCAAAGAAACTCATTG	0.348													13	93					0	0	0.00499	0	0		A	42823658	A	A	42823658	2	1	51	1	0	0	0	0	0	0	0	1	14854	933	33	4		4	SNAP23	15	42823658	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08		42823658	59707734	125	38560											
TLN2	83660	broad.mit.edu	37	chr15	62939637	62939637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgggtgcctgaggcacaaaCtgggcaaggtaggtcatggg	10	6	17	8	1	1	1	1	1	0	0	1	1	1	1	1	6	2	3	1	6	3	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr15:62939637C>T	uc002alb.3	+	1	128	c.128C>T	c.(127-129)ACT>ATT	p.T43I	MGC15885_uc010uib.1_5'Flank|MGC15885_uc002ala.3_5'Flank	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	43					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GAGGCACAAACTGGGCAAGGT	0.483													12	131					0	0	0.020292	0	0		T	62939637	T	T	62939637	3	4	51	1	0	0	0	0	1	0	0	0	15973	565	20	4	130	4	TLN2	15	62939637	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	20115979	62939637	39591755	126	38561											
AKAP13	11214	broad.mit.edu	37	chr15	86287028	86287028	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagaaggagaaaaaaaagaaGaacaaaaccagccgctctca	23	2	8	8	1	1	4	1	0	1	4	2	5	1	4	2	1	3	1	2	1	10	0	rs35204082	byFrequency	TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr15:86287028G>C	uc002blv.1	+	36	8534	c.8364G>C	c.(8362-8364)AAG>AAC	p.K2788N	AKAP13_uc002blu.1_Missense_Mutation_p.K2792N|AKAP13_uc002blw.1_Missense_Mutation_p.K1253N|AKAP13_uc002blx.1_Missense_Mutation_p.K1033N	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2788	Interaction with ESR1.|Poly-Lys.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						AAAAAAAGAAGAACAAAACCA	0.537													5	26					0	0	0.001984	0	0		C	86287028	C	C	86287028	3	2	51	1	0	0	0	0	1	0	0	0	449	933	33	5	8572	5	AKAP13	15	86287028	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	23347391	86287028	16244364	127	38562											
MEFV	4210	broad.mit.edu	37	chr16	3293246	3293246	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttgaaggggcccagagaaAgagcagctggcgaatgtata	13	6	16	6	1	0	3	0	1	0	2	0	5	0	3	1	4	2	4	1	4	5	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr16:3293246A>G	uc002cun.1	-	10	2281	c.2241T>C	c.(2239-2241)TCT>TCC	p.S747S		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	747	B30.2/SPRY.				inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	GCCCAGAGAAAGAGCAGCTGG	0.542													10	58					0	0	0.008291	0	0		G	3293246	G	G	3293246	2	3	51	1	0	0	0	0	0	0	0	1	9477	59	3	3		3	MEFV	16	3293246	Silent	SNP	A	TCGA-BR-7716-01A-21D-2053-08		3293246	87061507	128	38563											
ZNF75A	7627	broad.mit.edu	37	chr16	3367641	3367641	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaccatataaatgttcatgGtgtgggaaaagcttcagtca	15	11	9	6	0	3	0	3	0	0	0	3	1	3	1	1	2	2	2	1	2	6	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr16:3367641G>A	uc002cut.3	+	6	1189	c.663G>A	c.(661-663)TGG>TGA	p.W221*	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	221	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						AATGTTCATGGTGTGGGAAAA	0.343													8	36					0	0	0.00308	0	0		A	3367641	A	A	3367641	4	1	51	1	0	0	0	0	0	1	0	0	18158	1270	44	4	673	4	ZNF75A	16	3367641	Nonsense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	74395	3367641	86987112	129	38564											
PMM2	5373	broad.mit.edu	37	chr16	8941596	8941596	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccagggtggcaatgaccatGagatcttcacagaccccaga	12	7	10	12	0	2	4	1	2	1	3	3	5	3	4	4	2	0	1	4	2	1	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr16:8941596G>C	uc002czf.3	+	8	725	c.655G>C	c.(655-657)GAG>CAG	p.E219Q	PMM2_uc010uyf.1_RNA|PMM2_uc010uyg.1_Missense_Mutation_p.E136Q|PMM2_uc010uyh.1_Missense_Mutation_p.E94Q|PMM2_uc010buj.2_RNA|PMM2_uc010uyi.1_Missense_Mutation_p.E72Q|PMM2_uc002czg.1_5'Flank	NM_000303	NP_000294	O15305	PMM2_HUMAN	phosphomannomutase 2	219					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	phosphomannomutase activity			ovary(1)	1						CAATGACCATGAGATCTTCAC	0.577													23	83					0	0	0.008361	0	0		C	8941596	C	C	8941596	3	2	51	1	0	0	0	0	1	0	0	0	12156	1291	45	5	685	5	PMM2	16	8941596	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	5573955	8941596	81413157	130	38565											
USP7	7874	broad.mit.edu	37	chr16	8987952	8987952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctagccaaggccgaggatgaGacatattacctggtggggat	11	8	14	8	1	0	1	0	1	0	1	0	5	0	3	3	5	2	0	3	5	4	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr16:8987952G>A	uc002czl.2	-	31	3411	c.3212C>T	c.(3211-3213)TCT>TTT	p.S1071F	USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.S972F|USP7_uc002czk.2_Missense_Mutation_p.S1055F	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	1071					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						CCGAGGATGAGACATATTACC	0.532													23	129					0	0	0.004656	0	0		A	8987952	A	A	8987952	3	1	51	1	0	0	0	0	1	0	0	0	17114	942	33	4	100	4	USP7	16	8987952	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	46356	8987952	81366801	131	38566											
USP7	7874	broad.mit.edu	37	chr16	9009127	9009127	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttactatttttctttcctttGatacttagctggatatcata	9	21	4	7	0	2	1	1	1	1	0	3	2	3	2	1	1	3	1	1	1	6	10			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr16:9009127G>C	uc002czl.2	-	10	1261	c.1062C>G	c.(1060-1062)ATC>ATG	p.I354M	USP7_uc010uyk.1_Missense_Mutation_p.I255M|USP7_uc010uyj.1_Missense_Mutation_p.I255M|USP7_uc002czk.2_Missense_Mutation_p.I338M|USP7_uc010uyl.1_RNA	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	354					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TCTTTCCTTTGATACTTAGCT	0.313													18	75					0	0	0.010504	0	0		C	9009127	C	C	9009127	3	2	51	1	0	0	0	0	1	0	0	0	17114	1280	45	5	2334	5	USP7	16	9009127	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	21175	9009127	81345626	132	38567											
USP7	7874	broad.mit.edu	37	chr16	9017104	9017104	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcattgcactggagaaaGaatcctacgcttttttggtg	10	13	10	8	1	1	2	1	0	0	2	2	3	2	2	1	2	3	3	1	2	3	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr16:9017104G>T	uc002czl.2	-	3	550	c.351C>A	c.(349-351)TTC>TTA	p.F117L	USP7_uc010uyk.1_Missense_Mutation_p.F18L|USP7_uc010uyj.1_Missense_Mutation_p.F18L|USP7_uc002czk.2_Missense_Mutation_p.F101L|USP7_uc010uyl.1_RNA	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	117	Interaction with p53/TP53, MDM2 and EBNA1.|MATH.|Necessary for nuclear localization.|Interaction with TSPYL5.				interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						ACTGGAGAAAGAATCCTACGC	0.418													29	134					1.08312e-15	1.27694e-15	0.009535	1	0		T	9017104	T	T	9017104	3	4	51	1	0	0	0	0	1	0	0	0	17114	933	33	5	3073	5	USP7	16	9017104	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	7977	9017104	81337649	133	38568											
CDIPT	10423	broad.mit.edu	37	chr16	29871964	29871964	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtcgatcatcttgtgactctCactgcctcggaccacagaac	9	10	8	14	2	3	2	2	1	2	1	6	4	3	3	2	1	2	0	2	1	1	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr16:29871964C>G	uc002dum.2	-	4	752	c.352G>C	c.(352-354)GAG>CAG	p.E118Q	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|CDIPT_uc002duk.2_Missense_Mutation_p.E142Q|CDIPT_uc002dul.2_Missense_Mutation_p.E90Q|CDIPT_uc002dun.2_Missense_Mutation_p.E73Q	NM_006319	NP_006310	O14735	CDIPT_HUMAN	CDP-diacylglycerol-inositol	118						endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	CDP-diacylglycerol-inositol 3-phosphatidyltransferase activity|phosphatidylinositol transporter activity				0						TTGTGACTCTCACTGCCTCGG	0.488													4	35					0	0	0.001168	0	0		G	29871964	G	G	29871964	3	3	51	1	0	0	0	0	1	0	0	0	3126	835	29	5	301	5	CDIPT	16	29871964	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	20854860	29871964	60482789	134	38569											
SF3B3	23450	broad.mit.edu	37	chr16	70578362	70578362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagctgatctggccaatgaaGatactccacagttgtatgtg	11	12	10	8	0	1	3	0	2	1	1	2	3	2	3	2	1	2	3	2	1	5	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr16:70578362G>A	uc002ezf.2	+	10	1466	c.1255G>A	c.(1255-1257)GAT>AAT	p.D419N		NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3	419					protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				GGCCAATGAAGATACTCCACA	0.433													13	131					0	0	0.00499	0	0		A	70578362	A	A	70578362	3	1	51	1	0	0	0	0	1	0	0	0	14177	942	33	4	1289	4	SF3B3	16	70578362	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	40706398	70578362	19776391	135	38570											
PMFBP1	83449	broad.mit.edu	37	chr16	72158686	72158686	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccttatcgtcctcaaggaGgttctcttttaaggcggcca	7	13	9	12	2	2	0	1	0	1	0	6	1	4	1	3	4	0	1	3	4	3	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr16:72158686G>T	uc002fcc.3	-	17	2756	c.2584C>A	c.(2584-2586)CTC>ATC	p.L862I	PMFBP1_uc002fcd.2_Missense_Mutation_p.L857I|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.L712I|PMFBP1_uc010cgo.1_Missense_Mutation_p.L153I	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	862	Potential.									ovary(2)	2		Ovarian(137;0.179)				TCCTCAAGGAGGTTCTCTTTT	0.572											OREG0023927	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	81					0.000219431	0.00023406	0.020292	1	0		T	72158686	T	T	72158686	3	4	51	1	0	0	0	0	1	0	0	0	12153	1000	35	5	534	5	PMFBP1	16	72158686	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	1580324	72158686	18196067	136	38571											
C16orf7	9605	broad.mit.edu	37	chr16	89779059	89779059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggggtctagccgcgccattCgggcctcatacgcagccttc	5	9	12	15	4	2	0	1	0	1	0	4	0	2	0	4	3	3	1	4	3	2	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr16:89779059C>T	uc002fom.1	-	5	622	c.497G>A	c.(496-498)CGA>CAA	p.R166Q	C16orf7_uc002fol.1_Missense_Mutation_p.R96Q|uc002fon.1_Intron	NM_004913	NP_004904	Q9Y2B5	CP007_HUMAN	chromosome 16 open reading frame 7	166					ATP synthesis coupled proton transport		GTPase activator activity|transporter activity				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		CCGCGCCATTCGGGCCTCATA	0.652													5	70					0	0	0.00308	0	0		T	89779059	T	T	89779059	3	4	51	1	0	0	0	0	1	0	0	0	1831	884	31	1	1442	1	C16orf7	16	89779059	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	17620373	89779059	575694	137	38572											
CYB5D2	124936	broad.mit.edu	37	chr17	4058071	4058071	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggaggccaacaaactacaGctgcaagagaagcagacatt	16	6	10	9	0	0	2	0	0	0	2	0	4	0	3	1	2	6	3	1	2	5	3	rs139874723		TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr17:4058071G>A	uc002fxm.3	+	3	1083	c.495G>A	c.(493-495)CAG>CAA	p.Q165Q	CYB5D2_uc010cko.2_Silent_p.Q53Q|CYB5D2_uc002fxl.3_Silent_p.Q53Q	NM_144611	NP_653212	Q8WUJ1	NEUFC_HUMAN	cytochrome b5 domain containing 2	165					nervous system development	extracellular region	heme binding			large_intestine(2)|ovary(1)	3						ACAAACTACAGCTGCAAGAGA	0.627													17	26					0	0	0.008871	0	0		A	4058071	A	A	4058071	2	1	51	1	0	0	0	0	0	0	0	1	4128	962	34	2		2	CYB5D2	17	4058071	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08		4058071	77137139	138	38573											
TP53	7157	broad.mit.edu	37	chr17	7577120	7577120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggacaggcacaaacaCgcacctcaaagctgttccgt	12	6	8	15	2	1	0	1	0	0	0	3	1	3	1	3	2	2	4	3	2	2	1	rs28934576	by1000genomes	TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr17:7577120C>T	uc002gim.2	-	8	1012	c.818G>A	c.(817-819)CGT>CAT	p.R273H	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141H|TP53_uc010cng.1_Missense_Mutation_p.R141H|TP53_uc002gii.1_Missense_Mutation_p.R141H|TP53_uc010cnh.1_Missense_Mutation_p.R273H|TP53_uc010cni.1_Missense_Mutation_p.R273H|TP53_uc002gij.2_Missense_Mutation_p.R273H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(469)|p.R273C(394)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGCACAAACACGCACCTCAAA	0.542	R273H(NCIH1793_LUNG)|R273H(MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PANC1_PANCREAS)|R273H(NCIH508_LARGE_INTESTINE)|R273H(NCIH1975_LUNG)|R273H(U251MG_CENTRAL_NERVOUS_SYSTEM)|R273H(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273H(NCIH2405_LUNG)|R273H(HEC59_ENDOMETRIUM)|R273H(NCIH1155_LUNG)|R273H(HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(EN_ENDOMETRIUM)|R273H(SNB19_CENTRAL_NERVOUS_SYSTEM)|R273H(MDAMB468_BREAST)|R273H(SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW620_LARGE_INTESTINE)|R273H(SUIT2_PANCREAS)|R273H(SW480_LARGE_INTESTINE)|R273H(SKMEL30_SKIN)|R273H(OC314_OVARY)|R273H(HEC6_ENDOMETRIUM)|R273H(HT29_LARGE_INTESTINE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			7	11					0	0	0.001984	0	0		T	7577120	T	T	7577120	3	4	51	1	0	0	0	0	1	0	0	0	16407	536	19	1	468	1	TP53	17	7577120	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	3519049	7577120	73618090	139	38574											
RAI1	10743	broad.mit.edu	37	chr17	17696366	17696366	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattacaggcagccgagtcAggccgggctaagctgcgacc	10	5	14	12	3	1	0	1	0	0	0	1	3	1	0	3	3	4	3	3	3	3	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr17:17696366A>T	uc002grm.2	+	3	573	c.104A>T	c.(103-105)CAG>CTG	p.Q35L	RAI1_uc002grn.1_Missense_Mutation_p.Q35L	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	35						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CAGCCGAGTCAGGCCGGGCTA	0.582													6	39					0	0	0.00308	0	0		T	17696366	T	T	17696366	3	4	51	1	0	0	0	0	1	0	0	0	13032	188	7	5	106	5	RAI1	17	17696366	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	10119246	17696366	63498844	140	38575											
CACNA1G	8913	broad.mit.edu	37	chr17	48676957	48676957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccaggagagccaggatgaaGaggagagctcagaagaggag	15	2	18	6	0	1	6	1	1	0	5	1	10	1	8	2	4	2	1	2	4	2	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr17:48676957G>A	uc002irk.1	+	17	3799	c.3427G>A	c.(3427-3429)GAG>AAG	p.E1143K	CACNA1G_uc002iri.1_Missense_Mutation_p.E1143K|CACNA1G_uc002irj.1_Missense_Mutation_p.E1120K|CACNA1G_uc002irl.1_Missense_Mutation_p.E1120K|CACNA1G_uc002irm.1_Missense_Mutation_p.E1120K|CACNA1G_uc002irn.1_Missense_Mutation_p.E1120K|CACNA1G_uc002iro.1_Missense_Mutation_p.E1120K|CACNA1G_uc002irp.1_Missense_Mutation_p.E1143K|CACNA1G_uc002irq.1_Missense_Mutation_p.E1120K|CACNA1G_uc002irr.1_Missense_Mutation_p.E1143K|CACNA1G_uc002irs.1_Missense_Mutation_p.E1143K|CACNA1G_uc002irt.1_Missense_Mutation_p.E1143K|CACNA1G_uc002irv.1_Missense_Mutation_p.E1143K|CACNA1G_uc002irw.1_Missense_Mutation_p.E1120K|CACNA1G_uc002iru.1_Missense_Mutation_p.E1120K|CACNA1G_uc002irx.1_Missense_Mutation_p.E1056K|CACNA1G_uc002iry.1_Missense_Mutation_p.E1056K|CACNA1G_uc002irz.1_Missense_Mutation_p.E1056K|CACNA1G_uc002isa.1_Missense_Mutation_p.E1056K|CACNA1G_uc002isb.1_Missense_Mutation_p.E1056K|CACNA1G_uc002isc.1_Missense_Mutation_p.E1056K|CACNA1G_uc002isd.1_Missense_Mutation_p.E1056K|CACNA1G_uc002ise.1_Missense_Mutation_p.E1056K|CACNA1G_uc002isf.1_Missense_Mutation_p.E1056K|CACNA1G_uc002isg.1_Missense_Mutation_p.E1056K|CACNA1G_uc002ish.1_Missense_Mutation_p.E1056K|CACNA1G_uc002isi.1_Missense_Mutation_p.E1033K|CACNA1G_uc002isj.2_5'UTR	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1143	Cytoplasmic (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	CCAGGATGAAGAGGAGAGCTC	0.662													3	11					0	0	0.004672	0	0		A	48676957	A	A	48676957	3	1	51	1	0	0	0	0	1	0	0	0	2547	943	33	4	3493	4	CACNA1G	17	48676957	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	30980591	48676957	32518253	141	38576											
HELZ	9931	broad.mit.edu	37	chr17	65147323	65147323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggacagtctttacccagCgatttctgaaatataccctg	10	12	9	10	1	2	1	0	1	2	0	2	3	2	2	2	2	3	0	2	2	4	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr17:65147323C>T	uc010wqk.1	-	18	2385	c.2198G>A	c.(2197-2199)CGC>CAC	p.R733H	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.R732H	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					CTTTACCCAGCGATTTCTGAA	0.343													23	68					0	0	0.008361	0	0		T	65147323	T	T	65147323	3	4	51	1	0	0	0	0	1	0	0	0	7065	768	27	1	3697	1	HELZ	17	65147323	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	16470366	65147323	16047887	142	38577											
CETN1	1068	broad.mit.edu	37	chr18	580813	580813	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggccaacgagctgggggaGaacctcacggatgaggagct	10	5	17	9	2	1	2	1	1	0	1	1	6	1	4	2	5	4	2	2	5	2	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr18:580813G>A	uc002kko.1	+	1	447	c.405G>A	c.(403-405)GAG>GAA	p.E135E		NM_004066	NP_004057	Q12798	CETN1_HUMAN	centrin 1	135	EF-hand 3.				cell division|mitosis	spindle pole	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding			upper_aerodigestive_tract(1)|ovary(1)	2						AGCTGGGGGAGAACCTCACGG	0.537													12	63					0	0	0.003163	0	0		A	580813	A	A	580813	2	1	51	1	0	0	0	0	0	0	0	1	3277	933	33	4		4	CETN1	18	580813	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08		580813	77496435	143	38578											
PTPRM	5797	broad.mit.edu	37	chr18	8394510	8394510	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtgggacgttctgcgccatCagcatcgtatgtgagatgct	8	11	13	9	3	2	1	1	1	1	1	3	3	2	2	1	1	3	4	1	1	1	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr18:8394510C>T	uc002knn.3	+	30	4709	c.4206C>T	c.(4204-4206)ATC>ATT	p.I1402I	PTPRM_uc010dkv.2_Silent_p.I1415I|PTPRM_uc010wzl.1_Silent_p.I1189I	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1402	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				TCTGCGCCATCAGCATCGTAT	0.542													7	31					0	0	0.00308	0	0		T	8394510	T	T	8394510	2	4	51	1	0	0	0	0	0	0	0	1	12831	816	29	4		4	PTPRM	18	8394510	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	7813697	8394510	69682738	144	38579											
ZNF521	25925	broad.mit.edu	37	chr18	22806993	22806993	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgctccatgtggttcaTgagggaggtctcctctacga	7	11	11	12	1	3	1	1	1	2	0	5	3	4	2	3	3	2	2	3	3	1	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr18:22806993T>A	uc002kvk.2	-	4	1136	c.889A>T	c.(889-891)ATG>TTG	p.M297L	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.M297L|ZNF521_uc002kvl.2_Missense_Mutation_p.M77L	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	297	C2H2-type 7.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					ATGTGGTTCATGAGGGAGGTC	0.542			T	PAX5	ALL								5	48					0	0	0.014758	0	0		A	22806993	A	A	22806993	3	1	51	1	0	0	0	0	1	0	0	0	17990	1464	51	5	3066	5	ZNF521	18	22806993	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08	14412483	22806993	55270255	145	38580											
NOL4	8715	broad.mit.edu	37	chr18	31537439	31537439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggctgcttagagattgggaCcattcggtccaagttttcat	8	13	12	8	1	1	1	1	0	0	1	3	3	2	2	2	3	1	3	2	3	2	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr18:31537439C>T	uc010dmi.2	-	8	1508	c.1279G>A	c.(1279-1281)GTC>ATC	p.V427I	NOL4_uc010xbs.1_Missense_Mutation_p.V142I|NOL4_uc002kxr.3_Intron|NOL4_uc010xbt.1_Missense_Mutation_p.V353I|NOL4_uc010dmh.2_Intron|NOL4_uc010xbu.1_Intron|NOL4_uc002kxt.3_Intron|NOL4_uc010xbv.1_Intron	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	427						nucleolus	RNA binding			ovary(3)	3						GAGATTGGGACCATTCGGTCC	0.483													4	24					0	0	0.014758	0	0		T	31537439	T	T	31537439	3	4	51	1	0	0	0	0	1	0	0	0	10543	507	18	4	653	4	NOL4	18	31537439	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	8730446	31537439	46539809	146	38581											
MUC16	94025	broad.mit.edu	37	chr19	9061107	9061107	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcatttctgctgatcctGtcgtggtgaggggagtagaa	7	13	15	6	1	2	3	1	2	1	1	4	4	3	4	1	4	1	2	1	4	2	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:9061107G>T	uc002mkp.2	-	3	26543	c.26339C>A	c.(26338-26340)ACA>AAA	p.T8780K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8782	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGCTGATCCTGTCGTGGTGAG	0.507													14	60					2.62699e-14	3.08087e-14	0.003163	1	0		T	9061107	T	T	9061107	3	4	51	1	0	0	0	0	1	0	0	0	9991	1377	48	5	17512	5	MUC16	19	9061107	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08		9061107	50067876	147	38582											
DNMT1	1786	broad.mit.edu	37	chr19	10270586	10270586	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccgcactgaatgcactTgggagggtgggtctgtggga	6	9	17	9	1	1	1	0	1	1	0	1	3	1	3	1	4	2	2	1	4	1	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:10270586T>C	uc002mng.2	-	15	1234	c.1054A>G	c.(1054-1056)AAG>GAG	p.K352E	DNMT1_uc010xlc.1_Missense_Mutation_p.K368E|DNMT1_uc002mnh.2_Missense_Mutation_p.K247E|DNMT1_uc010xld.1_Missense_Mutation_p.K352E	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	352	DNA replication foci-targeting sequence (By similarity).|Homodimerization.|Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	TGAATGCACTTGGGAGGGTGG	0.617													43	79					0	0	0.007835	0	0		C	10270586	C	C	10270586	3	2	51	1	0	0	0	0	1	0	0	0	4681	1821	63	3	3900	3	DNMT1	19	10270586	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08	1209479	10270586	48858397	148	38583											
ZNF492	57615	broad.mit.edu	37	chr19	22847879	22847879	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttactacacataagatgAttcatactggagagaaaccc	16	9	6	10	0	1	3	1	1	0	2	1	5	1	4	2	1	4	0	2	1	5	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:22847879A>T	uc002nqw.3	+	4	1652	c.1408A>T	c.(1408-1410)ATT>TTT	p.I470F		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	470	C2H2-type 12; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				ACATAAGATGATTCATACTGG	0.373													10	54					0	0	0.003163	0	0		T	22847879	T	T	22847879	3	4	51	1	0	0	0	0	1	0	0	0	17968	333	12	5	1418	5	ZNF492	19	22847879	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	12577293	22847879	36281104	149	38584											
ZNF599	148103	broad.mit.edu	37	chr19	35251301	35251301	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgggggtttgttcctggcctCaagttcccttcctgaatttt	4	17	10	10	0	1	1	1	1	0	0	4	1	4	1	4	3	0	3	4	3	2	6			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:35251301C>G	uc010edn.1	-	4	793	c.405G>C	c.(403-405)TTG>TTC	p.L135F	ZNF599_uc010edm.1_Missense_Mutation_p.L98F	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			TTCCTGGCCTCAAGTTCCCTT	0.448													12	160					0	0	0.020292	0	0		G	35251301	G	G	35251301	3	3	51	1	0	0	0	0	1	0	0	0	18054	825	29	5	1365	5	ZNF599	19	35251301	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	12403422	35251301	23877682	150	38585											
LSR	51599	broad.mit.edu	37	chr19	35741220	35741220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctctcctcttgccctcagctCctgccagggccatccaggtg	4	10	9	18	0	3	0	1	0	2	0	6	0	5	0	6	2	3	1	6	2	0	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:35741220C>T	uc002nyl.2	+	2	479	c.256C>T	c.(256-258)CCT>TCT	p.P86S	LSR_uc002nym.2_Missense_Mutation_p.P86S|LSR_uc002nyn.2_Missense_Mutation_p.P86S|LSR_uc002nyo.2_Missense_Mutation_p.P86S|LSR_uc010xsr.1_Missense_Mutation_p.P86S|LSR_uc002nyp.2_Intron	NM_205834	NP_991403	Q86X29	LSR_HUMAN	lipolysis stimulated lipoprotein receptor	86	Extracellular (Potential).|Ig-like V-type.				embryo development|liver development	chylomicron|integral to membrane|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle	receptor activity				0	all_lung(56;3.91e-09)|Lung NSC(56;5.64e-09)|Esophageal squamous(110;0.162)		Epithelial(14;1.33e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.29e-18)|all cancers(14;7.11e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GCCCTCAGCTCCTGCCAGGGC	0.597													39	483					0	0	0.013114	0	0		T	35741220	T	T	35741220	3	4	51	1	0	0	0	0	1	0	0	0	9082	855	30	4	262	4	LSR	19	35741220	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	489919	35741220	23387763	151	38586											
TMEM147	10430	broad.mit.edu	37	chr19	36037609	36037609	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtggatgtggcagacctGataggtctaaaccttgtcat	10	11	12	8	1	2	2	1	1	1	1	2	3	2	3	2	3	2	1	2	3	3	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:36037609G>T	uc002oaj.1	+	4	340	c.243G>T	c.(241-243)CTG>CTT	p.L81L	uc010eec.1_5'Flank|uc002oag.2_5'Flank|TMEM147_uc002oai.1_Silent_p.L32L|TMEM147_uc002oak.1_5'UTR	NM_032635	NP_116024	Q9BVK8	TM147_HUMAN	transmembrane protein 147	81						endoplasmic reticulum membrane|integral to membrane	protein binding				0	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			TGGCAGACCTGATAGGTCTAA	0.562													15	126					3.41278e-10	3.94053e-10	0.00499	1	0		T	36037609	T	T	36037609	2	4	51	1	0	0	0	0	0	0	0	1	16086	1277	45	5		5	TMEM147	19	36037609	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08	296389	36037609	23091374	152	38587											
PRX	57716	broad.mit.edu	37	chr19	40902612	40902612	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agtttcatctctgacactttCggcagctgtacctctggaag	8	13	9	11	1	3	1	1	1	2	0	5	2	3	2	1	2	2	4	1	2	2	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:40902612C>G	uc002onr.2	-	7	1916	c.1647G>C	c.(1645-1647)CCG>CCC	p.P549P	PRX_uc002onq.2_Silent_p.P410P|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	549	55 X 5 AA approximate tandem repeats of [LVMAG]-[PSREQC]-[EDKL]-[LIVMAP]- [AQKHRPE]; that may have a tripeptide spacer of [LV]-P-[KER].|18.				axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding	p.P549P(1)		ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CTGACACTTTCGGCAGCTGTA	0.577													5	241					0	0	0.001168	0	0		G	40902612	G	G	40902612	2	3	51	1	0	0	0	0	0	0	0	1	12664	871	31	5		5	PRX	19	40902612	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	4865003	40902612	18226371	153	38588											
ERF	2077	broad.mit.edu	37	chr19	42753761	42753761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgagaagagggaagatgaaGatgaagagcaggctggtggt	14	5	18	4	1	0	7	0	2	0	5	0	9	0	8	1	4	1	2	1	4	4	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:42753761G>A	uc002ote.3	-	4	661	c.503C>T	c.(502-504)TCT>TTT	p.S168F	ERF_uc002otd.3_5'UTR	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	168	Poly-Ser.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				GGAAGATGAAGATGAAGAGCA	0.657													8	96					0	0	0.00308	0	0		A	42753761	A	A	42753761	3	1	51	1	0	0	0	0	1	0	0	0	5229	942	33	4	1147	4	ERF	19	42753761	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	1851149	42753761	16375222	154	38589											
PLAUR	5329	broad.mit.edu	37	chr19	44174251	44174251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtggagcagcagcagcagcgGcagcagcggcgggtgaccca	9	2	18	12	3	0	1	0	1	0	0	0	2	0	2	1	4	7	6	1	4	0	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:44174251G>A	uc002oxf.1	-	1	252	c.22C>T	c.(22-24)CCG>TCG	p.P8S	PLAUR_uc002oxd.1_Missense_Mutation_p.P8S|PLAUR_uc002oxe.1_5'Flank|PLAUR_uc002oxg.1_Missense_Mutation_p.P8S	NM_002659	NP_002650	Q03405	UPAR_HUMAN	plasminogen activator, urokinase receptor	8					attachment of GPI anchor to protein|blood coagulation|C-terminal protein lipidation|cellular component movement|chemotaxis|fibrinolysis|regulation of proteolysis	anchored to membrane|cell surface|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|extrinsic to membrane|integral to membrane|plasma membrane	enzyme binding|U-plasminogen activator receptor activity			ovary(1)	1		Prostate(69;0.0153)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Streptokinase(DB00086)|Tenecteplase(DB00031)|Urokinase(DB00013)	agcagcagcggcagcagcggc	0.562													7	73					0	0	0.001984	0	0		A	44174251	A	A	44174251	3	1	51	1	0	0	0	0	1	0	0	0	12042	1203	42	2	1109	2	PLAUR	19	44174251	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	1420490	44174251	14954732	155	38590											
C19orf61	56006	broad.mit.edu	37	chr19	44242339	44242339	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttgcggtcattattgatgaGatggtctaggatagaagggc	10	13	14	4	1	2	3	1	2	1	2	2	5	2	4	0	4	1	0	0	4	4	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:44242339G>C	uc002oxj.2	-	8	1187	c.844C>G	c.(844-846)CTC>GTC	p.L282V	C19orf61_uc002oxk.2_Missense_Mutation_p.L282V|C19orf61_uc010eiy.1_Missense_Mutation_p.L282V	NM_019108	NP_061981	Q9H0W8	SMG9_HUMAN	SMG9 protein	282					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	intracellular	protein binding				0		Prostate(69;0.0352)				TTATTGATGAGATGGTCTAGG	0.502													7	120					0	0	0.00308	0	0		C	44242339	C	C	44242339	3	2	51	1	0	0	0	0	1	0	0	0	1946	942	33	5	746	5	C19orf61	19	44242339	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	68088	44242339	14886644	156	38591											
ZNF225	7768	broad.mit.edu	37	chr19	44635941	44635941	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtctttcaagacatgtgCgagtccacagtggagagaca	12	8	12	9	1	2	2	1	0	1	2	3	5	3	3	1	2	1	0	1	2	1	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:44635941C>T	uc002oyj.1	+	5	1417	c.1174C>T	c.(1174-1176)CGA>TGA	p.R392*	ZNF225_uc010eje.1_Nonsense_Mutation_p.R309*|ZNF225_uc010ejf.1_Nonsense_Mutation_p.R392*	NM_013362	NP_037494	Q9UK10	ZN225_HUMAN	zinc finger protein 225	392	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				AAGACATGTGCGAGTCCACAG	0.428													11	104					0	0	0.010729	0	0		T	44635941	T	T	44635941	4	4	51	1	0	0	0	0	0	1	0	0	17804	760	27	1	1188	1	ZNF225	19	44635941	Nonsense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	393602	44635941	14493042	157	38592											
ZNF229	7772	broad.mit.edu	37	chr19	44933034	44933034	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctggtgaatgagaagccctGagctgtaactgaagcctttg	10	11	12	8	0	1	4	0	4	1	1	1	5	1	4	2	1	4	2	2	1	4	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:44933034G>C	uc002oze.1	-	6	2356	c.1922C>G	c.(1921-1923)TCA>TGA	p.S641*	ZNF229_uc010ejk.1_Nonsense_Mutation_p.S295*|ZNF229_uc010ejl.1_Nonsense_Mutation_p.S635*	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	641	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				GAGAAGCCCTGAGCTGTAACT	0.498													13	119					0	0	0.013537	0	0		C	44933034	C	C	44933034	4	2	51	1	0	0	0	0	0	1	0	0	17807	1294	45	5	559	5	ZNF229	19	44933034	Nonsense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	297093	44933034	14195949	158	38593											
SULT2A1	6822	broad.mit.edu	37	chr19	48374741	48374741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggaacagctctcgaggaaGatctgccatcttctcttgga	9	11	11	10	1	4	1	0	0	4	1	6	5	4	4	1	3	3	1	1	3	2	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:48374741G>A	uc002phr.2	-	6	969	c.829C>T	c.(829-831)CTT>TTT	p.L277F		NM_003167	NP_003158	Q06520	ST2A1_HUMAN	bile-salt sulfotransferase 2A1	277					3'-phosphoadenosine 5'-phosphosulfate metabolic process|bile acid catabolic process|cellular lipid metabolic process|digestion|sulfation|xenobiotic metabolic process	cytosol	bile-salt sulfotransferase activity			ovary(1)|pancreas(1)	2		all_cancers(25;3.02e-09)|all_lung(116;6.48e-07)|all_epithelial(76;7.35e-07)|Lung NSC(112;1.56e-06)|all_neural(266;0.0146)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000254)|all cancers(93;0.000545)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.0552)		TCTCGAGGAAGATCTGCCATC	0.443													15	97					0	0	0.004007	0	0		A	48374741	A	A	48374741	3	1	51	1	0	0	0	0	1	0	0	0	15406	942	33	4	32	4	SULT2A1	19	48374741	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	3441707	48374741	10754242	159	38594											
ZNF841	284371	broad.mit.edu	37	chr19	52569233	52569233	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctaggcatgagtagtaactGaagaccttgccgcattcgtt	10	11	11	9	2	0	3	0	2	0	1	1	3	0	3	2	1	2	6	2	1	4	6			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:52569233G>A	uc002pyl.1	-	5	2106	c.1554C>T	c.(1552-1554)TTC>TTT	p.F518F	ZNF841_uc010ydh.1_Silent_p.F634F|ZNF841_uc010epk.1_Intron	NM_001136499	NP_001129971	Q6ZN19	ZN841_HUMAN	zinc finger protein 841	518	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGTAGTAACTGAAGACCTTGC	0.443													15	172					0	0	0.006122	0	0		A	52569233	A	A	52569233	2	1	51	1	0	0	0	0	0	0	0	1	18214	1281	45	4		4	ZNF841	19	52569233	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08	4194492	52569233	6559750	160	38595											
PRKCG	5582	broad.mit.edu	37	chr19	54403920	54403920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agggacacatcaagatcactGactttggcatgtgtaaggag	13	9	12	7	0	2	2	2	1	0	1	2	4	2	4	0	3	0	2	0	3	2	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:54403920G>A	uc002qcq.1	+	14	1774	c.1492G>A	c.(1492-1494)GAC>AAC	p.D498N	PRKCG_uc010yeg.1_Missense_Mutation_p.D498N|PRKCG_uc010yeh.1_Missense_Mutation_p.D385N	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	498	Protein kinase.				activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		CAAGATCACTGACTTTGGCAT	0.572													39	391					0	0	0.010771	0	0		A	54403920	A	A	54403920	3	1	51	1	0	0	0	0	1	0	0	0	12534	1290	45	4	1546	4	PRKCG	19	54403920	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	1834687	54403920	4725063	161	38596											
NLRP7	199713	broad.mit.edu	37	chr19	55449557	55449557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagaaatctgtccagaggcGaagagagcgaagatcctgcc	13	5	13	10	2	1	4	0	0	1	4	3	7	3	4	3	1	2	1	3	1	3	0	rs147859947		TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:55449557G>A	uc002qih.3	-	5	2060	c.1984C>T	c.(1984-1986)CGC>TGC	p.R662C	NLRP7_uc002qig.3_Intron|NLRP7_uc002qii.3_Missense_Mutation_p.R662C|NLRP7_uc010esk.2_Missense_Mutation_p.R662C|NLRP7_uc010esl.2_Missense_Mutation_p.R690C	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	662							ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		GTCCAGAGGCGAAGAGAGCGA	0.498													7	112					0	0	0.001984	0	0		A	55449557	A	A	55449557	3	1	51	1	0	0	0	0	1	0	0	0	10501	1058	37	1	1157	1	NLRP7	19	55449557	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	1045637	55449557	3679426	162	38597											
DUXA	503835	broad.mit.edu	37	chr19	57666681	57666681	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcttcttgttctaaggaCgccacaggttccctttttct	5	17	7	12	1	4	0	0	0	4	0	5	1	5	1	2	2	1	3	2	2	1	7			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr19:57666681C>T	uc002qoa.1	-	5	543	c.498G>A	c.(496-498)GCG>GCA	p.A166A		NM_001012729	NP_001012747	A6NLW8	DUXA_HUMAN	double homeobox A	166						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0123)		GTTCTAAGGACGCCACAGGTT	0.428													5	46					0	0	0.001168	0	0		T	57666681	T	T	57666681	2	4	51	1	0	0	0	0	0	0	0	1	4840	523	19	1		1	DUXA	19	57666681	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	2217124	57666681	1462302	163	38598											
SIRPA	140885	broad.mit.edu	37	chr20	1918035	1918035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcctgctccccaggctgcgGagcccaacaaccacacggag	10	3	11	17	2	0	0	0	0	0	0	1	2	1	2	5	3	6	2	5	3	2	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr20:1918035G>A	uc002wfq.2	+	9	1696	c.1336G>A	c.(1336-1338)GAG>AAG	p.E446K	SIRPA_uc010zps.1_Missense_Mutation_p.E426K|SIRPA_uc002wfr.2_Missense_Mutation_p.E446K|SIRPA_uc002wfs.2_Missense_Mutation_p.E446K|SIRPA_uc002wft.2_Missense_Mutation_p.E450K	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	446	Cytoplasmic (Potential).				blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		CCAGGCTGCGGAGCCCAACAA	0.552													5	63					0	0	0.001168	0	0		A	1918035	A	A	1918035	3	1	51	1	0	0	0	0	1	0	0	0	14357	1175	41	4	1366	4	SIRPA	20	1918035	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08		1918035	61107485	164	38599											
TRMT6	51605	broad.mit.edu	37	chr20	5924624	5924624	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggttctcttgcataatacAtaattgaaagaatacgggtg	14	12	9	6	1	1	2	0	1	1	1	2	2	1	2	0	2	3	2	0	2	6	7			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr20:5924624A>T	uc002wmh.1	-	5	634	c.512T>A	c.(511-513)ATG>AAG	p.M171K	TRMT6_uc010zra.1_Missense_Mutation_p.M1K|TRMT6_uc010gbn.1_Missense_Mutation_p.M1K|TRMT6_uc010gbo.1_RNA	NM_015939	NP_057023	Q9UJA5	TRM6_HUMAN	tRNA methyltransferase 6	171					regulation of translational initiation|tRNA processing	nucleus	protein binding|translation initiation factor activity			pancreas(1)	1						TGCATAATACATAATTGAAAG	0.313													12	36					0	0	0.00499	0	0		T	5924624	T	T	5924624	3	4	51	1	0	0	0	0	1	0	0	0	16594	217	8	5	1009	5	TRMT6	20	5924624	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	4006589	5924624	57100896	165	38600											
RALGAPA2	57186	broad.mit.edu	37	chr20	20621418	20621418	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctggatgacatgactgctggGaaaccaggcaccaggcaagc	12	5	13	11	0	0	2	0	2	0	0	0	4	0	4	2	4	3	3	2	4	2	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr20:20621418G>A	uc002wrz.2	-	6	620	c.477C>T	c.(475-477)TTC>TTT	p.F159F	RALGAPA2_uc010zsg.1_5'UTR	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	159					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						TGACTGCTGGGAAACCAGGCA	0.498													6	45					0	0	0.004482	0	0		A	20621418	A	A	20621418	2	1	51	1	0	0	0	0	0	0	0	1	13039	1165	41	4		4	RALGAPA2	20	20621418	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08	14696794	20621418	42404102	166	38601											
TPX2	22974	broad.mit.edu	37	chr20	30363673	30363673	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgattttctctttaggcaGaagtttctaaaaagtactga	13	15	7	6	0	2	3	0	2	2	1	3	3	2	3	0	1	1	3	0	1	6	7			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr20:30363673G>T	uc002wwp.1	+	8	1310	c.612G>T	c.(610-612)CAG>CAT	p.Q204H	TPX2_uc010gdv.1_Missense_Mutation_p.Q204H	NM_012112	NP_036244	Q9ULW0	TPX2_HUMAN	TPX2, microtubule-associated protein homolog	204					activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2			Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)			TCTTTAGGCAGAAGTTTCTAA	0.388													3	29					0.00024832	0.000262376	0.009096	1	0		T	30363673	T	T	30363673	3	4	51	1	0	0	0	0	1	0	0	0	16458	933	33	5	634	5	TPX2	20	30363673	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	9742255	30363673	32661847	167	38602											
CHD6	84181	broad.mit.edu	37	chr20	40122221	40122221	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgaagagattcaaattctTtaacttttgcaggatctaca	13	15	6	7	0	3	2	1	1	2	1	3	4	3	3	0	1	3	1	0	1	4	8			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr20:40122221T>G	uc002xka.1	-	10	1449	c.1271A>C	c.(1270-1272)AAA>ACA	p.K424T	CHD6_uc002xkd.2_Missense_Mutation_p.K402T	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	424	Chromo 2.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TTCAAATTCTTTAACTTTTGC	0.408													17	91					0	0	0.014323	0	0		G	40122221	G	G	40122221	3	3	51	1	0	0	0	0	1	0	0	0	3332	1841	64	5	6988	5	CHD6	20	40122221	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08	9758548	40122221	22903299	168	38603											
SLC13A3	64849	broad.mit.edu	37	chr20	45242254	45242254	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttgttggagggcaagatGcccatgaaggggaagaggac	12	6	16	7	0	0	3	0	1	0	2	0	6	0	6	2	5	1	2	2	5	3	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr20:45242254G>T	uc002xsf.1	-	2	260	c.222C>A	c.(220-222)GGC>GGA	p.G74G	SLC13A3_uc010ghn.1_Silent_p.G43G|SLC13A3_uc010zxw.1_Silent_p.G74G|SLC13A3_uc002xsg.1_Silent_p.G27G|SLC13A3_uc010gho.1_Silent_p.G27G|SLC13A3_uc010zxx.1_Intron|SLC13A3_uc002xsi.3_Silent_p.G27G	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	74	Helical; (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	AGGGCAAGATGCCCATGAAGG	0.602													3	25					0.00024832	0.000262376	0.009096	1	0		T	45242254	T	T	45242254	2	4	51	1	0	0	0	0	0	0	0	1	14418	1306	46	5		5	SLC13A3	20	45242254	Silent	SNP	G	TCGA-BR-7716-01A-21D-2053-08	5120033	45242254	17783266	169	38604											
NCOA3	8202	broad.mit.edu	37	chr20	46265013	46265013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgcagttacttacctgttCttctgatgaccggggtcatt	7	15	9	10	1	3	2	1	2	2	0	3	2	3	2	2	2	3	3	2	2	2	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr20:46265013C>T	uc002xtk.2	+	12	2088	c.1883C>T	c.(1882-1884)TCT>TTT	p.S628F	NCOA3_uc010ght.1_Missense_Mutation_p.S638F|NCOA3_uc002xtl.2_Missense_Mutation_p.S628F|NCOA3_uc002xtm.2_Missense_Mutation_p.S628F|NCOA3_uc002xtn.2_Missense_Mutation_p.S628F|NCOA3_uc010zyc.1_Missense_Mutation_p.S423F	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	628	Ser-rich.				androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						CTTACCTGTTCTTCTGATGAC	0.468													4	142					0	0	0.014758	0	0		T	46265013	T	T	46265013	3	4	51	1	0	0	0	0	1	0	0	0	10249	913	32	4	1951	4	NCOA3	20	46265013	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	1022759	46265013	16760507	170	38605											
TSHZ2	128553	broad.mit.edu	37	chr20	51871441	51871441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgagaaagtcgtgaaaagcGaggactatgaagatcctcta	16	8	11	6	2	1	4	0	3	1	2	3	7	2	5	1	1	1	0	1	1	6	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr20:51871441G>A	uc002xwo.2	+	2	2400	c.1444G>A	c.(1444-1446)GAG>AAG	p.E482K		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	482					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CGTGAAAAGCGAGGACTATGA	0.428													12	264					0	0	0.010729	0	0		A	51871441	A	A	51871441	3	1	51	1	0	0	0	0	1	0	0	0	16650	1059	37	1	1450	1	TSHZ2	20	51871441	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	5606428	51871441	11154079	171	38606											
TMPRSS15	5651	broad.mit.edu	37	chr21	19642429	19642429	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttggcacattaatggtcCtcctgaatccccctaaagag	10	12	7	12	0	1	2	0	1	1	1	4	2	4	2	4	2	0	1	4	2	4	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr21:19642429C>A	uc002ykw.2	-	25	2948	c.2917G>T	c.(2917-2919)GGA>TGA	p.G973*		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	973	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						ATTAATGGTCCTCCTGAATCC	0.378													29	119					5.8336e-16	6.9139e-16	0.015359	1	0		A	19642429	A	A	19642429	4	1	51	1	0	0	0	0	0	1	0	0	16271	690	24	5	146	5	TMPRSS15	21	19642429	Nonsense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08		19642429	28487466	172	38607											
NCAM2	4685	broad.mit.edu	37	chr21	22746243	22746243	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctcatcactgcatattaaaGatgtgaagttgtcagattca	13	13	8	7	0	4	3	4	1	0	2	4	3	4	3	0	0	1	3	0	0	4	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr21:22746243G>C	uc002yld.1	+	9	1354	c.1105G>C	c.(1105-1107)GAT>CAT	p.D369H	NCAM2_uc011acb.1_Missense_Mutation_p.D227H|NCAM2_uc011acc.1_Missense_Mutation_p.D394H	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	369	Ig-like C2-type 4.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		GCATATTAAAGATGTGAAGTT	0.413													11	59					0	0	0.003163	0	0		C	22746243	C	C	22746243	3	2	51	1	0	0	0	0	1	0	0	0	10222	942	33	5	1139	5	NCAM2	21	22746243	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	3103814	22746243	25383652	173	38608											
GGA1	26088	broad.mit.edu	37	chr22	38021940	38021940	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtttccctgcttgacgaCgagctcatgtctctgggtga	6	13	11	11	2	3	2	2	2	1	0	5	4	4	2	1	1	2	3	1	1	0	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr22:38021940C>G	uc003atc.2	+	11	1442	c.1077C>G	c.(1075-1077)GAC>GAG	p.D359E	GGA1_uc003atd.2_Intron|GGA1_uc003ate.2_Missense_Mutation_p.D359E|GGA1_uc003atf.2_Missense_Mutation_p.D286E	NM_013365	NP_037497	Q9UJY5	GGA1_HUMAN	golgi associated, gamma adaptin ear containing,	359	Autoinhibitory.|Unstructured hinge.			LLDDE->AADAA: Partial loss of clathrin- binding.	intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|Golgi apparatus part	protein binding			breast(2)|ovary(1)	3	Melanoma(58;0.0574)					TGCTTGACGACGAGCTCATGT	0.672													6	55					0	0	0.001984	0	0		G	38021940	G	G	38021940	3	3	51	1	0	0	0	0	1	0	0	0	6367	535	19	5	1185	5	GGA1	22	38021940	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08		38021940	13282626	174	38609											
FAM83F	113828	broad.mit.edu	37	chr22	40417545	40417545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggagatgatgcgctgggCtgcccggcaacagcgggagg	7	5	20	9	3	0	2	0	1	0	1	0	4	0	3	1	6	4	3	1	6	1	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr22:40417545C>T	uc003ayk.1	+	4	1125	c.1031C>T	c.(1030-1032)GCT>GTT	p.A344V		NM_138435	NP_612444	Q8NEG4	FA83F_HUMAN	hypothetical protein LOC113828	344										breast(1)	1						ATGCGCTGGGCTGCCCGGCAA	0.682													6	14					0	0	0.001168	0	0		T	40417545	T	T	40417545	3	4	51	1	0	0	0	0	1	0	0	0	5652	797	28	2	1045	2	FAM83F	22	40417545	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	2395605	40417545	10887021	175	38610											
SBF1	6305	broad.mit.edu	37	chr22	50886972	50886972	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacactggccctcactcacAcggccgtctggccggccctc	5	7	9	20	3	4	0	3	0	1	0	5	0	4	0	4	4	0	0	4	4	0	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chr22:50886972A>G	uc003blh.2	-	37	5346	c.5151T>C	c.(5149-5151)CGT>CGC	p.R1717R	SBF1_uc003ble.2_Silent_p.R181R|SBF1_uc003blf.2_Silent_p.R193R|SBF1_uc011arx.1_Silent_p.R1355R	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1691					protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		CCTCACTCACACGGCCGTCTG	0.662													13	48					0	0	0.004007	0	0		G	50886972	G	G	50886972	2	3	51	1	0	0	0	0	0	0	0	1	13883	173	6	3		3	SBF1	22	50886972	Silent	SNP	A	TCGA-BR-7716-01A-21D-2053-08	10469427	50886972	417594	176	38611											
NHS	4810	broad.mit.edu	37	chrX	17750507	17750507	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgtacaatacgcccatgCaggcaatctccgagggagag	11	6	13	11	2	1	1	0	0	1	1	2	3	1	1	2	3	3	4	2	3	4	2			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chrX:17750507C>T	uc004cxx.2	+	8	5154	c.4816C>T	c.(4816-4818)CAG>TAG	p.Q1606*	NHS_uc011mix.1_Nonsense_Mutation_p.Q1627*|NHS_uc004cxy.2_Nonsense_Mutation_p.Q1450*|NHS_uc004cxz.2_Nonsense_Mutation_p.Q1429*|NHS_uc004cya.2_Nonsense_Mutation_p.Q1329*	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1606						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					TACGCCCATGCAGGCAATCTC	0.607													18	76					0	0	0.016522	0	0		T	17750507	T	T	17750507	4	4	51	1	0	0	0	0	0	1	0	0	10430	711	25	2	4951	2	NHS	23	17750507	Nonsense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08		17750507	137520053	177	38612											
P2RY10	27334	broad.mit.edu	37	chrX	78216055	78216055	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacactgaaacattcaagaTgggtagcaacagtaccagca	17	7	8	9	0	1	2	1	1	0	1	1	2	1	2	1	1	6	4	1	1	6	4			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chrX:78216055T>A	uc004ede.2	+	4	407	c.38T>A	c.(37-39)ATG>AAG	p.M13K	P2RY10_uc004edf.2_Missense_Mutation_p.M13K	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	13	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						ACATTCAAGATGGGTAGCAAC	0.348													18	65					0	0	0.012319	0	0		A	78216055	A	A	78216055	3	1	51	1	0	0	0	0	1	0	0	0	11366	1464	51	5	40	5	P2RY10	23	78216055	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08	60465548	78216055	77054505	178	38613											
POU3F4	5456	broad.mit.edu	37	chrX	82764197	82764197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctccatcgaggtgagtGtcaagggcgtactggagacg	9	7	16	9	3	1	2	1	1	0	1	3	5	2	3	2	4	1	1	2	4	2	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chrX:82764197G>A	uc004eeg.2	+	1	929	c.865G>A	c.(865-867)GTC>ATC	p.V289I		NM_000307	NP_000298	P49335	PO3F4_HUMAN	POU domain, class 3, transcription factor 4	289	Homeobox.				sensory perception of sound	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						CGAGGTGAGTGTCAAGGGCGT	0.612													12	25					0	0	0.020292	0	0		A	82764197	A	A	82764197	3	1	51	1	0	0	0	0	1	0	0	0	12296	1377	48	4	867	4	POU3F4	23	82764197	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	4548142	82764197	72506363	179	38614											
PAK3	5063	broad.mit.edu	37	chrX	110435772	110435772	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaccttcaacagcaacccaaGaaggaattaattattaatga	19	9	5	8	0	1	2	1	1	0	1	1	3	1	3	2	1	4	1	2	1	9	4	rs151056810	byFrequency	TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chrX:110435772G>C	uc004epa.2	+	10	990	c.963G>C	c.(961-963)AAG>AAC	p.K321N	PAK3_uc010npt.1_Missense_Mutation_p.K306N|PAK3_uc010npu.1_Missense_Mutation_p.K306N|PAK3_uc004eoy.1_Missense_Mutation_p.K61N|PAK3_uc004eoz.2_Missense_Mutation_p.K306N|PAK3_uc011mst.1_RNA|PAK3_uc010npv.1_Missense_Mutation_p.K342N|PAK3_uc010npw.1_Missense_Mutation_p.K327N	NM_001128173	NP_001121645	O75914	PAK3_HUMAN	p21-activated kinase 3 isoform d	321	Protein kinase.				multicellular organismal development		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding			lung(6)|ovary(3)|large_intestine(1)	10						AGCAACCCAAGAAGGAATTAA	0.284										TSP Lung(19;0.15)			3	36					0	0	0.004672	0	0		C	110435772	C	C	110435772	3	2	51	1	0	0	0	0	1	0	0	0	11421	933	33	5	1068	5	PAK3	23	110435772	Missense_Mutation	SNP	G	TCGA-BR-7716-01A-21D-2053-08	27671575	110435772	44834788	180	38615											
ARHGAP36	158763	broad.mit.edu	37	chrX	130218985	130218985	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggagtttttccgtgacaTgaaggattctctgctgccag	9	12	11	9	1	1	2	0	2	1	0	3	4	2	4	2	2	2	2	2	2	2	3			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chrX:130218985T>A	uc004evz.2	+	7	1247	c.902T>A	c.(901-903)ATG>AAG	p.M301K	ARHGAP36_uc004ewa.2_Missense_Mutation_p.M289K|ARHGAP36_uc004ewb.2_Missense_Mutation_p.M270K|ARHGAP36_uc004ewc.2_Missense_Mutation_p.M165K	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	301	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						TTCCGTGACATGAAGGATTCT	0.458													29	128					0	0	0.019004	0	0		A	130218985	A	A	130218985	3	1	51	1	0	0	0	0	1	0	0	0	883	1464	51	5	924	5	ARHGAP36	23	130218985	Missense_Mutation	SNP	T	TCGA-BR-7716-01A-21D-2053-08	19783213	130218985	25051575	181	38616											
TFDP3	51270	broad.mit.edu	37	chrX	132351694	132351694	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtctttccacccgtaagttCtgacagttctgagccgagtt	7	14	9	11	2	3	2	0	2	3	0	4	3	4	2	3	0	1	4	3	0	1	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chrX:132351694C>T	uc004exb.1	-	1	683	c.594G>A	c.(592-594)CAG>CAA	p.Q198Q		NM_016521	NP_057605	Q5H9I0	TFDP3_HUMAN	transcription factor Dp family, member 3	198	Involved in negatively regulating E2F activity.					transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					CCCGTAAGTTCTGACAGTTCT	0.428													7	48					0	0	0.004482	0	0		T	132351694	T	T	132351694	2	4	51	1	0	0	0	0	0	0	0	1	15824	912	32	4		4	TFDP3	23	132351694	Silent	SNP	C	TCGA-BR-7716-01A-21D-2053-08	2132709	132351694	22918866	182	38617											
FMR1	2332	broad.mit.edu	37	chrX	147024689	147024689	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggagagattacaaattgaTgagcagttgcgacagattgg	13	11	13	4	1	0	4	0	2	0	2	0	7	0	5	0	2	3	2	0	2	2	5			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chrX:147024689T>C	uc010nst.2	+	14	1503	c.1314T>C	c.(1312-1314)GAT>GAC	p.D438D	FMR1_uc004fcj.2_Silent_p.D415D|FMR1_uc004fck.3_Silent_p.D417D|FMR1_uc004fcl.3_Silent_p.D278D|FMR1_uc011mxa.1_Silent_p.D85D	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	438	Interaction with RANBP9.				mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TACAAATTGATGAGCAGTTGC	0.358									Fragile_X_syndrome				26	119					0	0	0.004656	0	0		C	147024689	C	C	147024689	2	2	51	1	0	0	0	0	0	0	0	1	5974	1461	51	3		3	FMR1	23	147024689	Silent	SNP	T	TCGA-BR-7716-01A-21D-2053-08	14672995	147024689	8245871	183	38618											
MAMLD1	10046	broad.mit.edu	37	chrX	149639635	149639635	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgccaccttgcagctgcAgcagcagcagcagcaacagc	11	4	10	16	0	0	0	0	0	0	0	0	0	0	0	2	0	11	8	2	0	1	1			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chrX:149639635A>T	uc004fee.1	+	3	1866	c.1790A>T	c.(1789-1791)CAG>CTG	p.Q597L	MAMLD1_uc011mxt.1_Missense_Mutation_p.Q559L|MAMLD1_uc011mxu.1_Missense_Mutation_p.Q572L|MAMLD1_uc011mxv.1_Missense_Mutation_p.Q572L|MAMLD1_uc011mxw.1_Missense_Mutation_p.Q524L	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	597	Poly-Gln.				male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					TTgcagctgcagcagcagcag	0.483													3	66					0	0	0.004672	0	0		T	149639635	T	T	149639635	3	4	51	1	0	0	0	0	1	0	0	0	9226	188	7	5	1800	5	MAMLD1	23	149639635	Missense_Mutation	SNP	A	TCGA-BR-7716-01A-21D-2053-08	2614946	149639635	5630925	184	38619											
PASD1	139135	broad.mit.edu	37	chrX	150828296	150828296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagttttcctggatactatgCctgaatctccaggtaggtac	9	13	9	10	0	1	1	0	1	1	0	3	2	2	2	3	3	3	3	3	3	5	6			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chrX:150828296C>T	uc004fev.3	+	10	1161	c.829C>T	c.(829-831)CCT>TCT	p.P277S		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	277						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGATACTATGCCTGAATCTCC	0.383													43	54					0	0	0.01441	0	0		T	150828296	T	T	150828296	3	4	51	1	0	0	0	0	1	0	0	0	11490	739	26	2	863	2	PASD1	23	150828296	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	1188661	150828296	4442264	185	38620											
L1CAM	3897	broad.mit.edu	37	chrX	153137610	153137610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgcagcgcctcgcaccctCggccatgagccggatctcat	6	7	10	18	4	1	1	1	1	1	0	4	2	1	2	5	2	3	2	5	2	0	0			TCGA-BR-7716-01A-21D-2053-08	TCGA-BR-7716-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27905ee2-3613-4023-b996-6fd0640a9e24	1a4b4b8a-48bc-46d4-9186-66063f99e2ac	g.chrX:153137610C>T	uc004fjb.2	-	4	505	c.397G>A	c.(397-399)GAG>AAG	p.E133K	L1CAM_uc004fjc.2_Missense_Mutation_p.E133K|L1CAM_uc010nuo.2_Missense_Mutation_p.E128K|L1CAM_uc004fjd.1_5'Flank|L1CAM_uc004fje.1_Missense_Mutation_p.E128K	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	133	Extracellular (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTCGCACCCTCGGCCATGAGC	0.622													5	39					0	0	0.001168	0	0		T	153137610	T	T	153137610	3	4	51	1	0	0	0	0	1	0	0	0	8604	893	31	1	3476	1	L1CAM	23	153137610	Missense_Mutation	SNP	C	TCGA-BR-7716-01A-21D-2053-08	2309314	153137610	2132950	186	38621											
CCDC27	148870	broad.mit.edu	37	chr1	3680286	3680288	+	In_Frame_Del	DEL	ACA	-	-																															ccaggagtgattgcgtctttAcaacaacaagtggatttcca																										TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr1:3680286_3680288delACA	uc001akv.2	+	8	1419_1421	c.1338_1340delACA	c.(1336-1341)TTACAA>TTA	p.Q449del		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	449										skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		TTGCGTCTTTACAACAACAAGTG	0.581													67	74	---	---	---	---						.	-	3680288	-	-	3680286	7	5	52	1	0	1	0	1	0	0	0	0	2804	388	14	0	1368	0	CCDC27	1	3680286	In_Frame_Del	DEL	ACA	TCGA-BR-7717-01A-11D-2053-08		3680286	245570335	1	38622											
GPR157	80045	broad.mit.edu	37	chr1	9171478	9171478	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaccagcccacagacaCgtccgaggcgtcatagccaa	12	3	9	17	3	1	1	1	0	0	1	2	2	2	1	5	1	3	1	5	1	2	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr1:9171478C>T	uc001apq.1	-	2	597	c.454G>A	c.(454-456)GTG>ATG	p.V152M	GPR157_uc010oad.1_Missense_Mutation_p.V152M|GPR157_uc001apr.2_Missense_Mutation_p.V152M	NM_024980	NP_079256	Q5UAW9	GP157_HUMAN	G protein-coupled receptor 157	152	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_lung(157;0.185)	all_epithelial(116;5.02e-20)|all_lung(118;3.6e-06)|Lung NSC(185;7.93e-06)|Renal(390;0.000147)|Breast(348;0.000688)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.16e-07)|COAD - Colon adenocarcinoma(227;7.73e-05)|Kidney(185;0.000252)|KIRC - Kidney renal clear cell carcinoma(229;0.000917)|STAD - Stomach adenocarcinoma(132;0.00178)|BRCA - Breast invasive adenocarcinoma(304;0.00186)|READ - Rectum adenocarcinoma(331;0.0642)		CCCACAGACACGTCCGAGGCG	0.607											OREG0013073	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	17					0	0	0.041601	0	0		T	9171478	T	T	9171478	3	4	52	1	0	0	0	0	1	0	0	0	6677	536	19	1	565	1	GPR157	1	9171478	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	5491192	9171478	240079143	2	38623											
DEPDC1	55635	broad.mit.edu	37	chr1	68949689	68949689	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagtagaggttcagggagaTctagaaaataatctgcgatt	15	11	11	4	1	3	3	1	0	2	3	3	5	3	3	0	2	1	2	0	2	6	6			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr1:68949689T>A	uc001dem.3	-	7	971	c.854A>T	c.(853-855)GAT>GTT	p.D285V	DEPDC1_uc001dej.3_5'Flank|DEPDC1_uc001dek.3_RNA|DEPDC1_uc001del.3_Missense_Mutation_p.D285V	NM_001114120	NP_001107592	Q5TB30	DEP1A_HUMAN	DEP domain containing 1 isoform a	285	Rho-GAP.				intracellular signal transduction|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	GTPase activator activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(397;7.21e-36)		TTCAGGGAGATCTAGAAAATA	0.308													40	37					0	0	0.048971	0	0		A	68949689	A	A	68949689	3	1	52	1	0	0	0	0	1	0	0	0	4445	1435	50	5	1605	5	DEPDC1	1	68949689	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	59778211	68949689	180300932	3	38624											
LPHN2	23266	broad.mit.edu	37	chr1	82416098	82416098	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgaagcattagactccaAggggataaagtggcctcaga	13	8	12	8	0	1	3	1	1	0	2	2	4	2	4	2	3	1	1	2	3	5	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr1:82416098A>T	uc001dit.3	+	7	1605	c.1424A>T	c.(1423-1425)AAG>ATG	p.K475M	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.K475M|LPHN2_uc001div.2_Missense_Mutation_p.K475M|LPHN2_uc009wcd.2_Missense_Mutation_p.K475M|LPHN2_uc001diw.2_Missense_Mutation_p.K46M	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	475	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		TTAGACTCCAAGGGGATAAAG	0.418													31	23					0	0	0.037714	0	0		T	82416098	T	T	82416098	3	4	52	1	0	0	0	0	1	0	0	0	8934	72	3	5	1442	5	LPHN2	1	82416098	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	13466409	82416098	166834523	4	38625											
ASH1L	55870	broad.mit.edu	37	chr1	155449512	155449512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttttggtttgcgacctcttCtctttcctatataaatggtt	6	21	6	8	1	2	0	0	0	2	0	4	1	3	0	2	2	1	2	2	2	4	9			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr1:155449512C>T	uc009wqq.2	-	3	3629	c.3149G>A	c.(3148-3150)AGA>AAA	p.R1050K	ASH1L_uc001fkt.2_Missense_Mutation_p.R1050K|ASH1L_uc009wqr.1_Missense_Mutation_p.R1050K	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1050					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			GCGACCTCTTCTCTTTCCTAT	0.418													23	51					0	0	0.014323	0	0		T	155449512	T	T	155449512	3	4	52	1	0	0	0	0	1	0	0	0	1042	913	32	4	5849	4	ASH1L	1	155449512	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	73033414	155449512	93801109	5	38626											
HMCN1	83872	broad.mit.edu	37	chr1	186083167	186083167	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taattcttttaaataagtcaActgtattggaatgcatcgct	13	16	6	6	1	2	0	1	0	1	0	3	1	2	1	0	1	2	3	0	1	7	7			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr1:186083167A>C	uc001grq.1	+	73	11417	c.11188A>C	c.(11188-11190)ACT>CCT	p.T3730P		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3730	Ig-like C2-type 36.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AAATAAGTCAACTGTATTGGA	0.418													34	111					0	0	0.021022	0	0		C	186083167	C	C	186083167	3	2	52	1	0	0	0	0	1	0	0	0	7236	43	2	5	11478	5	HMCN1	1	186083167	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	30633655	186083167	63167454	6	38627											
CRB1	23418	broad.mit.edu	37	chr1	197391073	197391073	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggccctatgaaggcccCaactgtctgagaggtgagag	11	6	13	11	0	1	3	0	3	1	2	1	5	1	3	3	3	1	0	3	3	3	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr1:197391073C>T	uc001gtz.2	+	6	2250	c.2115C>T	c.(2113-2115)CCC>CCT	p.P705P	CRB1_uc010poz.1_Silent_p.P636P|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Silent_p.P593P|CRB1_uc010ppb.1_Silent_p.P705P|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_Silent_p.P186P|CRB1_uc001gub.1_Silent_p.P354P	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	705	Extracellular (Potential).|EGF-like 12.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						ATGAAGGCCCCAACTGTCTGA	0.527													5	47					0	0	0.021553	0	0		T	197391073	T	T	197391073	2	4	52	1	0	0	0	0	0	0	0	1	3851	581	21	4		4	CRB1	1	197391073	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	11307906	197391073	51859548	7	38628											
C1orf115	79762	broad.mit.edu	37	chr1	220870050	220870050	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtttgcggtagccaccAgcgtggtatccttcgtgcgc	4	10	12	15	5	0	0	0	0	0	0	2	0	1	0	5	2	4	3	5	2	2	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr1:220870050A>T	uc001hmp.1	+	2	523	c.406A>T	c.(406-408)AGC>TGC	p.S136C		NM_024709	NP_078985	Q9H7X2	CA115_HUMAN	hypothetical protein LOC79762	136	Helical; (Potential).					integral to membrane					0				GBM - Glioblastoma multiforme(131;0.0273)		GGTAGCCACCAGCGTGGTATC	0.597													9	98					0	0	0.047766	0	0		T	220870050	T	T	220870050	3	4	52	1	0	0	0	0	1	0	0	0	1991	188	7	5	412	5	C1orf115	1	220870050	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	23478977	220870050	28380571	8	38629											
LYST	1130	broad.mit.edu	37	chr1	235993555	235993555	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatagaatttagcttggtaaGtaatagaaatcctcgaccat	15	13	7	6	1	0	2	0	0	0	2	2	3	1	2	2	1	1	3	2	1	8	8			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr1:235993555G>C	uc001hxj.2	-	3	338	c.163C>G	c.(163-165)CTT>GTT	p.L55V	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Missense_Mutation_p.L55V|LYST_uc001hxm.2_RNA|LYST_uc001hxn.1_Missense_Mutation_p.L55V	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	55					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			AGCTTGGTAAGTAATAGAAAT	0.408									Chediak-Higashi_syndrome				11	63					0	0	0.020292	0	0		C	235993555	C	C	235993555	3	2	52	1	0	0	0	0	1	0	0	0	9146	1029	36	5	11446	5	LYST	1	235993555	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	15123505	235993555	13257066	9	38630											
TPO	7173	broad.mit.edu	37	chr2	1426885	1426885	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctggtggacaccgccatgTacgccacgatgcagaggtga	9	6	14	12	3	0	2	0	1	0	1	0	4	0	3	4	3	2	2	4	3	1	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:1426885T>C	uc002qww.2	+	3	254	c.163T>C	c.(163-165)TAC>CAC	p.Y55H	TPO_uc010ewj.2_Intron|TPO_uc010yin.1_Missense_Mutation_p.Y55H|TPO_uc002qwu.2_Missense_Mutation_p.Y55H|TPO_uc002qwr.2_Missense_Mutation_p.Y55H|TPO_uc002qwx.2_Missense_Mutation_p.Y55H|TPO_uc010yio.1_Missense_Mutation_p.Y55H|TPO_uc010yip.1_Missense_Mutation_p.Y55H	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	55	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CACCGCCATGTACGCCACGAT	0.597													21	15					0	0	0.027356	0	0		C	1426885	C	C	1426885	3	2	52	1	0	0	0	0	1	0	0	0	16436	1638	57	3	169	3	TPO	2	1426885	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08		1426885	241772488	10	38631											
OTOF	9381	broad.mit.edu	37	chr2	26697430	26697430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagctgtggcgttgccaCggtagatctggtagtactcg	6	11	13	11	3	1	1	0	0	1	1	3	1	2	1	2	3	3	5	2	3	3	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:26697430C>T	uc002rhk.2	-	26	3366	c.3239G>A	c.(3238-3240)CGT>CAT	p.R1080H	OTOF_uc010yla.1_5'Flank|OTOF_uc002rhh.2_Missense_Mutation_p.R333H|OTOF_uc002rhi.2_Missense_Mutation_p.R390H|OTOF_uc002rhj.2_Missense_Mutation_p.R333H	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1080	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCGTTGCCACGGTAGATCTG	0.527													23	14					0	0	0.01892	0	0		T	26697430	T	T	26697430	3	4	52	1	0	0	0	0	1	0	0	0	11322	536	19	1	3023	1	OTOF	2	26697430	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	25270545	26697430	216501943	11	38632											
NRXN1	9378	broad.mit.edu	37	chr2	50573836	50573836	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgcagacccaccgtgtccGcctcgcaaggatgccggtga	8	6	12	15	5	0	2	0	1	0	1	3	3	1	3	5	2	1	2	5	2	1	0			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:50573836G>A	uc010fbp.2	-	1	1059	c.252C>T	c.(250-252)GGC>GGT	p.G84G	NRXN1_uc002rxb.3_Intron|NRXN1_uc010fbq.2_Intron|NRXN1_uc002rxe.3_Intron|NRXN1_uc002rxc.1_Intron	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	84	Extracellular (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CACCGTGTCCGCCTCGCAAGG	0.572													5	88					0	0	0.047766	0	0		A	50573836	A	A	50573836	2	1	52	1	0	0	0	0	0	0	0	1	10684	1074	38	1		1	NRXN1	2	50573836	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	23876406	50573836	192625537	12	38633											
VPS54	51542	broad.mit.edu	37	chr2	64211037	64211037	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatctggcagtgatggcaCaggtcgaatgtgttttgacg	9	11	13	8	2	1	2	0	2	1	0	2	3	1	2	0	3	0	3	0	3	1	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:64211037C>G	uc002scq.2	-	2	260	c.97G>C	c.(97-99)GTG>CTG	p.V33L	VPS54_uc002scp.2_Missense_Mutation_p.V33L	NM_016516	NP_057600	Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 isoform 1	33					protein transport|retrograde transport, endosome to Golgi						0						AGTGATGGCACAGGTCGAATG	0.403													53	121					0	0	0.048971	0	0		G	64211037	G	G	64211037	3	3	52	1	0	0	0	0	1	0	0	0	17242	478	17	5	2924	5	VPS54	2	64211037	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	13637201	64211037	178988336	13	38634											
SPRED2	200734	broad.mit.edu	37	chr2	65571938	65571938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccttacagaccccgacgCgactgatcccgcctccttcc	7	8	7	19	4	0	3	0	2	0	1	3	5	3	3	7	0	1	0	7	0	1	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:65571938C>T	uc002sdr.3	-	2	654	c.119G>A	c.(118-120)CGC>CAC	p.R40H	SPRED2_uc010fcw.2_Missense_Mutation_p.R37H|SPRED2_uc010fcx.1_RNA	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	40	WH1.				inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						GACCCCGACGCGACTGATCCC	0.532													5	48					0	0	0.014758	0	0		T	65571938	T	T	65571938	3	4	52	1	0	0	0	0	1	0	0	0	15118	768	27	1	1157	1	SPRED2	2	65571938	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	1360901	65571938	177627435	14	38635											
DYSF	8291	broad.mit.edu	37	chr2	71795434	71795434	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctcggccggctggaccTgggctggagattggttcgtg	3	9	17	12	3	0	1	0	0	0	1	2	3	0	2	4	6	0	3	4	6	0	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:71795434T>C	uc002sie.2	+	26	3152	c.2776T>C	c.(2776-2778)TGG>CGG	p.W926R	DYSF_uc010feg.2_Missense_Mutation_p.W957R|DYSF_uc010feh.2_Missense_Mutation_p.W912R|DYSF_uc002sig.3_Missense_Mutation_p.W912R|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.W926R|DYSF_uc010fef.2_Missense_Mutation_p.W943R|DYSF_uc010fei.2_Missense_Mutation_p.W943R|DYSF_uc010fek.2_Missense_Mutation_p.W944R|DYSF_uc010fej.2_Missense_Mutation_p.W913R|DYSF_uc010fel.2_Missense_Mutation_p.W913R|DYSF_uc010feo.2_Missense_Mutation_p.W958R|DYSF_uc010fem.2_Missense_Mutation_p.W927R|DYSF_uc010fen.2_Missense_Mutation_p.W944R|DYSF_uc002sif.2_Missense_Mutation_p.W927R	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	926	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CGGCTGGACCTGGGCTGGAGA	0.647													129	414					0	0	0.048971	0	0		C	71795434	C	C	71795434	3	2	52	1	0	0	0	0	1	0	0	0	4865	1580	55	3	3070	3	DYSF	2	71795434	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	6223496	71795434	171403939	15	38636											
INPP4A	3631	broad.mit.edu	37	chr2	99204053	99204053	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcctcccgaagggacttaCggaaaagttgaaacgtgaac	14	6	12	9	3	0	2	0	2	0	0	1	5	1	4	2	3	3	1	2	3	6	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:99204053C>T	uc002syy.2	+	26	3309	c.2916C>T	c.(2914-2916)TAC>TAT	p.Y972Y	INPP4A_uc010yvk.1_Silent_p.Y933Y|INPP4A_uc002syx.2_Silent_p.Y967Y|INPP4A_uc010fik.2_Silent_p.Y301Y	NM_001134224	NP_001127696	Q96PE3	INP4A_HUMAN	inositol polyphosphate-4-phosphatase, type 1	972					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			kidney(1)	1						AAGGGACTTACGGAAAAGTTG	0.408													10	77					0	0	0.020292	0	0		T	99204053	T	T	99204053	2	4	52	1	0	0	0	0	0	0	0	1	7768	547	19	1		1	INPP4A	2	99204053	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	27408619	99204053	143995320	16	38637											
TANC1	85461	broad.mit.edu	37	chr2	160020039	160020039	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctcactaataatgccaCggcccaactcagttgcaggt	11	8	8	14	1	2	0	2	0	0	0	2	0	2	0	3	2	4	3	3	2	3	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:160020039C>G	uc002uag.2	+	8	1202	c.928C>G	c.(928-930)CGG>GGG	p.R310G	TANC1_uc010fol.1_Missense_Mutation_p.R204G|TANC1_uc010zcm.1_Missense_Mutation_p.R309G|TANC1_uc010fom.1_Intron	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	310						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						AATAATGCCACGGCCCAACTC	0.547													4	55					0	0	0.014758	0	0		G	160020039	G	G	160020039	3	3	52	1	0	0	0	0	1	0	0	0	15569	527	19	5	950	5	TANC1	2	160020039	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	60815986	160020039	83179334	17	38638											
TTN	7273	broad.mit.edu	37	chr2	179398445	179398445	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttgtcattgtcacctggTttgattttctgacctgattt	5	21	7	8	0	4	3	2	3	2	0	4	3	4	3	2	1	0	1	2	1	0	7			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:179398445T>C	uc010zfg.1	-	307	95417	c.95193A>G	c.(95191-95193)AAA>AAG	p.K31731K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.K25426K|TTN_uc010zfi.1_Silent_p.K25359K|TTN_uc010zfj.1_Silent_p.K25234K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32658							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGTCACCTGGTTTGATTTTCT	0.393													3	46					0	0	0.004672	0	0		C	179398445	C	C	179398445	2	2	52	1	0	0	0	0	0	0	0	1	16761	1722	60	3		3	TTN	2	179398445	Silent	SNP	T	TCGA-BR-7717-01A-11D-2053-08	19378406	179398445	63800928	18	38639											
TTN	7273	broad.mit.edu	37	chr2	179600768	179600768	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacaaaagttgtaagggacTtaggtctggagagaaaggtt	14	9	13	5	0	1	1	0	0	1	1	1	4	1	3	1	4	0	3	1	4	5	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:179600768T>G	uc010zfg.1	-	47	10897	c.10673A>C	c.(10672-10674)AAG>ACG	p.K3558T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K219T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4485							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGTAAGGGACTTAGGTCTGGA	0.438													50	38					0	0	0.048971	0	0		G	179600768	G	G	179600768	3	3	52	1	0	0	0	0	1	0	0	0	16761	1609	56	5	90376	5	TTN	2	179600768	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	202323	179600768	63598605	19	38640											
TTN	7273	broad.mit.edu	37	chr2	179658255	179658255	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagttacagcagtcttctccGcttcctttcttacctgcttt	5	18	5	13	1	3	0	0	0	3	0	5	0	4	0	3	0	4	4	3	0	3	7			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:179658255G>A	uc010zfg.1	-	9	1636	c.1412C>T	c.(1411-1413)GCG>GTG	p.A471V	TTN_uc010zfh.1_Missense_Mutation_p.A471V|TTN_uc010zfi.1_Missense_Mutation_p.A471V|TTN_uc010zfj.1_Missense_Mutation_p.A471V|TTN_uc002unb.2_Missense_Mutation_p.A471V|TTN_uc010frg.1_Missense_Mutation_p.A145V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	471							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGTCTTCTCCGCTTCCTTTCT	0.313													13	47					0	0	0.038395	0	0		A	179658255	A	A	179658255	3	1	52	1	0	0	0	0	1	0	0	0	16761	1087	38	1	109992	1	TTN	2	179658255	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	57487	179658255	63541118	20	38641											
SESTD1	91404	broad.mit.edu	37	chr2	180047841	180047841	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtagtctaaggtgacacTcagctcatccatatttgtct	10	14	8	9	0	4	1	2	1	2	0	5	1	5	1	1	2	1	2	1	2	4	5			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:180047841T>G	uc002uni.3	-	3	280	c.130A>C	c.(130-132)AGT>CGT	p.S44R		NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	44	CRAL-TRIO.				regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			AAGGTGACACTCAGCTCATCC	0.358													7	75					0	0	0.047766	0	0		G	180047841	G	G	180047841	3	3	52	1	0	0	0	0	1	0	0	0	14152	1551	54	5	2024	5	SESTD1	2	180047841	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	389586	180047841	63151532	21	38642											
MAP2	4133	broad.mit.edu	37	chr2	210559425	210559425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactgtggttgaggatagtcGtactggcttgcccccggtaa	7	11	14	9	2	0	1	0	1	0	0	1	3	0	2	2	4	2	4	2	4	3	5			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:210559425G>A	uc002vde.1	+	7	2779	c.2531G>A	c.(2530-2532)CGT>CAT	p.R844H	MAP2_uc002vdc.1_Missense_Mutation_p.R844H|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.R840H	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	844					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	GAGGATAGTCGTACTGGCTTG	0.498													25	112					0	0	0.034045	0	0		A	210559425	A	A	210559425	3	1	52	1	0	0	0	0	1	0	0	0	9253	1145	40	1	2545	1	MAP2	2	210559425	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	30511584	210559425	32639948	22	38643											
MAP2	4133	broad.mit.edu	37	chr2	210560109	210560109	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagggcaacagagctaaaacTtgaggctacacaggacatga	17	5	11	8	0	0	3	0	2	0	1	0	4	0	4	0	3	4	3	0	3	5	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:210560109T>G	uc002vde.1	+	7	3463	c.3215T>G	c.(3214-3216)CTT>CGT	p.L1072R	MAP2_uc002vdc.1_Missense_Mutation_p.L1072R|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.L1068R	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1072					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	GAGCTAAAACTTGAGGCTACA	0.458													55	65					0	0	0.048971	0	0		G	210560109	G	G	210560109	3	3	52	1	0	0	0	0	1	0	0	0	9253	1609	56	5	3229	5	MAP2	2	210560109	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	684	210560109	32639264	23	38644											
ABCA12	26154	broad.mit.edu	37	chr2	215802240	215802240	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatcatcacttacttttaaGtatgtttttggaaagtgcag	11	16	7	7	0	2	0	2	0	0	0	2	1	2	1	1	1	2	3	1	1	4	6			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:215802240G>A	uc002vew.2	-	51	7756	c.7536C>T	c.(7534-7536)TAC>TAT	p.Y2512Y	ABCA12_uc002vev.2_Silent_p.Y2194Y|ABCA12_uc010zjn.1_Silent_p.Y1439Y	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	2512					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TTACTTTTAAGTATGTTTTTG	0.229													29	32					0	0	0.021022	0	0		A	215802240	A	A	215802240	2	1	52	1	0	0	0	0	0	0	0	1	30	1024	36	4		4	ABCA12	2	215802240	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	5242131	215802240	27397133	24	38645											
KIF1A	547	broad.mit.edu	37	chr2	241683440	241683440	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaatgggctggctcttgAtgtactcaatgaaggacttg	12	11	11	7	0	2	2	1	2	1	0	2	3	2	3	0	3	2	3	0	3	5	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr2:241683440A>T	uc002vzy.2	-	31	3346	c.3200T>A	c.(3199-3201)ATC>AAC	p.I1067N	KIF1A_uc010fzk.2_Missense_Mutation_p.I1168N|KIF1A_uc002vzz.1_Missense_Mutation_p.I1168N	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	1067					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		CTGGCTCTTGATGTACTCAAT	0.612													4	182					0	0	0.009096	0	0		T	241683440	T	T	241683440	3	4	52	1	0	0	0	0	1	0	0	0	8299	333	12	5	1940	5	KIF1A	2	241683440	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	25881200	241683440	1515933	25	38646											
GHRL	51738	broad.mit.edu	37	chr3	10331490	10331490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccttctgcttgacctccatCttccgggcggagccagcctg	4	10	10	17	2	2	1	0	1	2	0	4	2	4	2	6	2	3	1	6	2	0	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr3:10331490C>T	uc010hdf.2	-	3	316	c.181G>A	c.(181-183)GAT>AAT	p.D61N	GHRLOS_uc011atx.1_Intron|GHRLOS_uc011aty.1_Intron|GHRLOS_uc011atz.1_Intron|GHRLOS_uc011aua.1_Intron|GHRLOS_uc010hdl.2_Intron|GHRLOS_uc011aub.1_Intron|GHRLOS_uc010hdm.2_Intron|GHRLOS_uc011auc.1_Intron|GHRLOS_uc011aud.1_Intron|GHRLOS_uc011aue.1_Intron|GHRLOS_uc011auf.1_Intron|GHRLOS_uc011aug.1_Intron|GHRLOS_uc011auh.1_Intron|GHRLOS_uc011aui.1_Intron|GHRLOS_uc011auj.1_Intron|GHRLOS_uc010hdn.2_Intron|GHRL_uc010hda.1_RNA|GHRL_uc010hdb.1_RNA|GHRL_uc003bvj.1_Missense_Mutation_p.D61N|GHRL_uc003bvk.3_RNA|GHRL_uc010hdk.2_Missense_Mutation_p.D48N|GHRL_uc010hdc.2_Intron|GHRL_uc010hdd.2_Intron|GHRL_uc010hde.2_Missense_Mutation_p.D60N|GHRL_uc010hdi.2_Missense_Mutation_p.D61N|GHRL_uc010hdh.2_Missense_Mutation_p.D61N|GHRL_uc010hdj.2_Missense_Mutation_p.D49N|GHRLOS_uc011auk.1_Intron	NM_016362	NP_057446	Q9UBU3	GHRL_HUMAN	ghrelin/obestatin isoform 1 preproprotein	61					actin polymerization or depolymerization|activation of MAPK activity|adult feeding behavior|cartilage development|cortisol secretion|decidualization|dendrite development|elevation of cytosolic calcium ion concentration|G-protein coupled receptor protein signaling pathway|glucose metabolic process|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of angiogenesis|negative regulation of circadian sleep/wake cycle, REM sleep|negative regulation of endothelial cell proliferation|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of circadian sleep/wake cycle, non-REM sleep|positive regulation of corticotropin secretion|positive regulation of cortisol secretion|positive regulation of growth hormone secretion|positive regulation of insulin secretion|positive regulation of synaptogenesis|response to estrogen stimulus	axon|endoplasmic reticulum lumen|extracellular space|stored secretory granule	ghrelin receptor binding|growth hormone-releasing hormone activity|protein tyrosine kinase activator activity			ovary(1)	1						TGACCTCCATCTTCCGGGCGG	0.597													63	180					0	0	0.048971	0	0		T	10331490	T	T	10331490	3	4	52	1	0	0	0	0	1	0	0	0	6389	913	32	4	184	4	GHRL	3	10331490	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08		10331490	187690940	26	38647											
ANKRD28	23243	broad.mit.edu	37	chr3	15736313	15736313	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtctgttcctgaggttTccattaactgaaaaagaaga	13	12	9	7	0	1	4	0	2	1	2	3	4	3	4	2	1	1	3	2	1	4	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr3:15736313T>A	uc003caj.1	-	17	1747	c.1604A>T	c.(1603-1605)GAA>GTA	p.E535V	ANKRD28_uc003cai.1_Missense_Mutation_p.E381V|ANKRD28_uc011avz.1_Missense_Mutation_p.E381V|ANKRD28_uc003cak.1_RNA|ANKRD28_uc011awa.1_RNA|ANKRD28_uc003cal.1_Missense_Mutation_p.E565V|ANKRD28_uc003cam.2_Missense_Mutation_p.E568V	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28	535						nucleoplasm	protein binding			breast(1)	1						TCCTGAGGTTTCCATTAACTG	0.408													39	27					0	0	0.048971	0	0		A	15736313	A	A	15736313	3	1	52	1	0	0	0	0	1	0	0	0	656	1783	62	5	1605	5	ANKRD28	3	15736313	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	5404823	15736313	182286117	27	38648											
ZNF662	389114	broad.mit.edu	37	chr3	42956441	42956441	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcagaacacaagccttacGcaacatcaacggatccacac	16	5	6	14	2	2	1	2	0	0	1	3	2	3	2	2	1	5	1	2	1	5	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr3:42956441G>A	uc003cmi.2	+	5	1228	c.876G>A	c.(874-876)ACG>ACA	p.T292T	ZNF662_uc003cmk.2_Silent_p.T318T|ZNF662_uc003cmj.2_Silent_p.T184T	NM_207404	NP_997287	Q6ZS27	ZN662_HUMAN	zinc finger protein 662 isoform 1	292	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.217)		CAAGCCTTACGCAACATCAAC	0.453													16	47					0	0	0.038395	0	0		A	42956441	A	A	42956441	2	1	52	1	0	0	0	0	0	0	0	1	18096	1074	38	1		1	ZNF662	3	42956441	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	27220128	42956441	155065989	28	38649											
FAM19A4	151647	broad.mit.edu	37	chr3	68802041	68802041	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaagaaggttgagcccgagTtgtgcccgccacctgtcccg	8	7	12	14	3	0	2	0	1	0	1	1	3	1	2	5	1	2	2	5	1	2	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr3:68802041T>G	uc003dnh.1	-	4	702	c.259A>C	c.(259-261)ACT>CCT	p.T87P	FAM19A4_uc003dni.1_Missense_Mutation_p.T87P	NM_182522	NP_872328	Q96LR4	F19A4_HUMAN	family with sequence similarity 19 (chemokine	87						extracellular region				skin(2)	2		Lung NSC(201;0.0198)		BRCA - Breast invasive adenocarcinoma(55;1.38e-05)|Epithelial(33;0.000124)|LUSC - Lung squamous cell carcinoma(21;0.0248)|KIRC - Kidney renal clear cell carcinoma(39;0.0729)|Kidney(39;0.0904)		TGAGCCCGAGTTGTGCCCGCC	0.522													17	66					0	0	0.043863	0	0		G	68802041	G	G	68802041	3	3	52	1	0	0	0	0	1	0	0	0	5545	1725	60	5	175	5	FAM19A4	3	68802041	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	25845600	68802041	129220389	29	38650											
ADCY5	111	broad.mit.edu	37	chr3	123166565	123166565	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaggatcacgccgacggcGgccgccagcacggccaggta	9	3	15	14	6	1	1	1	1	0	0	1	3	1	2	4	5	1	2	4	5	1	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr3:123166565G>A	uc003egh.1	-	1	828	c.828C>T	c.(826-828)GCC>GCT	p.A276A		NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	276	Helical; (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		CGCCGACGGCGGCCGCCAGCA	0.692													5	16					0	0	0.014758	0	0		A	123166565	A	A	123166565	2	1	52	1	0	0	0	0	0	0	0	1	297	1103	39	1		1	ADCY5	3	123166565	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	54364524	123166565	74855865	30	38651											
SMC4	10051	broad.mit.edu	37	chr3	160137276	160137276	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtagggggaaagtccttgAtgcaataattcaagaaaaaa	19	8	10	4	0	1	2	1	1	0	1	2	3	2	3	1	2	1	2	1	2	9	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr3:160137276A>G	uc003fdh.2	+	12	1915	c.1802A>G	c.(1801-1803)GAT>GGT	p.D601G	IFT80_uc003fda.2_Intron|SMC4_uc010hwc.1_Missense_Mutation_p.D365G|SMC4_uc003fdi.2_Missense_Mutation_p.D576G|SMC4_uc003fdj.2_Missense_Mutation_p.D601G|SMC4_uc010hwd.2_Missense_Mutation_p.D601G|SMC4_uc003fdl.2_Missense_Mutation_p.D304G	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	601	Flexible hinge.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			AAAGTCCTTGATGCAATAATT	0.338													22	57					0	0	0.030593	0	0		G	160137276	G	G	160137276	3	3	52	1	0	0	0	0	1	0	0	0	14810	333	12	3	1844	3	SMC4	3	160137276	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	36970711	160137276	37885154	31	38652											
GP5	2814	broad.mit.edu	37	chr3	194118890	194118890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctagcgcggagatgcgcGccacgtcgccccccgagcac	6	3	14	18	7	0	1	0	0	0	1	1	3	0	1	5	2	3	1	5	2	1	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr3:194118890G>A	uc003ftv.1	-	2	153	c.122C>T	c.(121-123)GCG>GTG	p.A41V		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	41	LRRNT.|Extracellular (Potential).				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		GGAGATGCGCGCCACGTCGCC	0.701													8	35					0	0	0.047766	0	0		A	194118890	A	A	194118890	3	1	52	1	0	0	0	0	1	0	0	0	6598	1087	38	1	1564	1	GP5	3	194118890	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	33981614	194118890	3903540	32	38653											
CRIPAK	285464	broad.mit.edu	37	chr4	1388597	1388597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgccacctgctcacacacGtgcccatgtggagtgcccgc	7	7	11	16	2	1	0	1	0	0	0	1	1	1	1	4	1	4	1	4	1	0	0	rs75969203		TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr4:1388597G>A	uc003gdf.2	+	1	3258	c.298G>A	c.(298-300)GTG>ATG	p.V100M		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	100					ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			GCTCACACACGTGCCCATGTG	0.647													66	84					0	0	0.048971	0	0		A	1388597	A	A	1388597	3	1	52	1	0	0	0	0	1	0	0	0	3880	1145	40	1	300	1	CRIPAK	4	1388597	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08		1388597	189765679	33	38654											
D4S234E	27065	broad.mit.edu	37	chr4	4419002	4419002	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcttggagagctactacgCggagcaagactccagtgccc	10	6	13	12	2	0	2	0	0	0	2	1	4	1	3	2	3	5	3	2	3	3	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr4:4419002C>T	uc011bvz.1	+	8	1679	c.398C>T	c.(397-399)GCG>GTG	p.A133V	D4S234E_uc011bwa.1_Missense_Mutation_p.A94V|D4S234E_uc003ghz.2_Missense_Mutation_p.A133V|D4S234E_uc003gia.2_Missense_Mutation_p.A133V|D4S234E_uc003gib.2_Missense_Mutation_p.A133V	NM_014392	NP_055207	P42857	NSG1_HUMAN	brain neuron cytoplasmic protein 1	133	Lumenal (Potential).				dopamine receptor signaling pathway	Golgi membrane|integral to membrane|nucleus	dopamine receptor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.166)		AGCTACTACGCGGAGCAAGAC	0.562													28	63					0	0	0.050027	0	0		T	4419002	T	T	4419002	3	4	52	1	0	0	0	0	1	0	0	0	4217	768	27	1	412	1	D4S234E	4	4419002	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	3030405	4419002	186735274	34	38655											
EVC2	132884	broad.mit.edu	37	chr4	5624326	5624326	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtcacggcctcaggagcGtcatccttcagtctctgcct	5	12	9	15	2	6	0	4	0	2	0	8	1	7	1	3	2	2	0	3	2	0	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr4:5624326G>A	uc003gij.2	-	14	2493	c.2439C>T	c.(2437-2439)GAC>GAT	p.D813D	EVC2_uc011bwb.1_Silent_p.D253D|EVC2_uc003gik.2_Silent_p.D733D	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	813						integral to membrane				large_intestine(3)|ovary(2)	5						CCTCAGGAGCGTCATCCTTCA	0.592													6	33					0	0	0.038147	0	0		A	5624326	A	A	5624326	2	1	52	1	0	0	0	0	0	0	0	1	5294	1136	40	1		1	EVC2	4	5624326	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	1205324	5624326	185529950	35	38656											
KCTD8	386617	broad.mit.edu	37	chr4	44449752	44449752	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tagaagcgggacgtgtacttCtccggctgccggtcggggtc	5	9	16	11	5	1	1	0	0	1	1	4	2	1	2	2	5	3	2	2	5	3	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr4:44449752C>G	uc003gwu.2	-	1	1073	c.789G>C	c.(787-789)GAG>GAC	p.E263D		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	263						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						ACGTGTACTTCTCCGGCTGCC	0.652										HNSCC(17;0.042)			3	37					0	0	0.004672	0	0		G	44449752	G	G	44449752	3	3	52	1	0	0	0	0	1	0	0	0	8131	912	32	5	640	5	KCTD8	4	44449752	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	38825426	44449752	146704524	36	38657											
EXOC1	55763	broad.mit.edu	37	chr4	56765938	56765938	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatttttgcaactctttctcGattgaaaatctcatgtctag	10	18	5	8	1	4	1	1	1	4	0	6	2	4	1	0	0	2	1	0	0	5	6			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr4:56765938G>A	uc003hbe.1	+	17	2383	c.2225G>A	c.(2224-2226)CGA>CAA	p.R742Q	EXOC1_uc003hbf.1_Missense_Mutation_p.R742Q|EXOC1_uc003hbg.1_Missense_Mutation_p.R727Q	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	742					exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					ACTCTTTCTCGATTGAAAATC	0.368													11	53					0	0	0.010729	0	0		A	56765938	A	A	56765938	3	1	52	1	0	0	0	0	1	0	0	0	5309	1058	37	1	2287	1	EXOC1	4	56765938	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	12316186	56765938	134388338	37	38658											
GNRHR	2798	broad.mit.edu	37	chr4	68619666	68619666	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgatcaccaccatcatgaAggctggggcatacatggaga	12	7	12	10	0	2	3	2	2	0	1	2	4	2	3	2	4	1	3	2	4	2	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr4:68619666A>G	uc003hdn.2	-	1	2139	c.388T>C	c.(388-390)TTC>CTC	p.F130L	LOC550112_uc003hdl.3_Intron|GNRHR_uc003hdm.2_Missense_Mutation_p.F130L	NM_000406	NP_000397	P30968	GNRHR_HUMAN	gonadotropin-releasing hormone receptor isoform	130	Helical; Name=3; (Potential).				multicellular organismal development	integral to plasma membrane	gonadotropin-releasing hormone receptor activity			ovary(1)	1					Abarelix(DB00106)|Cetrorelix(DB00050)|Danazol(DB01406)|Gonadorelin(DB00644)|Leuprolide(DB00007)|Nafarelin(DB00666)	ACCATCATGAAGGCTGGGGCA	0.507													65	20					0	0	0.048971	0	0		G	68619666	G	G	68619666	3	3	52	1	0	0	0	0	1	0	0	0	6564	72	3	3	610	3	GNRHR	4	68619666	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	11853728	68619666	122534610	38	38659											
CTSO	1519	broad.mit.edu	37	chr4	156863522	156863522	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgtccctccagtcaaatcTtaacggcaaagacacattgg	12	10	7	12	1	2	1	1	0	1	1	4	1	4	1	2	2	1	1	2	2	3	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr4:156863522T>G	uc003ipg.2	-	3	380	c.331A>C	c.(331-333)AGA>CGA	p.R111R		NM_001334	NP_001325	P43234	CATO_HUMAN	cathepsin O preproprotein	111					proteolysis	lysosome	cysteine-type endopeptidase activity				0	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.05)|Kidney(143;0.0627)|COAD - Colon adenocarcinoma(41;0.148)		CAGTCAAATCTTAACGGCAAA	0.413													64	61					0	0	0.048971	0	0		G	156863522	G	G	156863522	2	3	52	1	0	0	0	0	0	0	0	1	4043	1617	56	5		5	CTSO	4	156863522	Silent	SNP	T	TCGA-BR-7717-01A-11D-2053-08	88243856	156863522	34290754	39	38660											
TLL1	7092	broad.mit.edu	37	chr4	166929130	166929130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctgaagatggagcctggaGaagtaaactcacttggagaa	14	9	12	6	0	2	4	1	1	1	3	2	7	2	5	1	3	2	1	1	3	5	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr4:166929130G>A	uc003irh.1	+	7	1494	c.847G>A	c.(847-849)GAA>AAA	p.E283K	TLL1_uc011cjn.1_Missense_Mutation_p.E283K|TLL1_uc011cjo.1_Missense_Mutation_p.E107K	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	283	Metalloprotease (By similarity).				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		GGAGCCTGGAGAAGTAAACTC	0.408													78	35					0	0	0.048971	0	0		A	166929130	A	A	166929130	3	1	52	1	0	0	0	0	1	0	0	0	15970	943	33	4	873	4	TLL1	4	166929130	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	10065608	166929130	24225146	40	38661											
DDX60L	91351	broad.mit.edu	37	chr4	169362498	169362498	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catttagtaccttgaatgacCgatttctcttgtctaagaaa	12	15	6	8	1	2	3	0	2	2	1	3	4	2	3	2	0	1	1	2	0	5	7			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr4:169362498C>T	uc003irq.3	-	10	1505	c.1284G>A	c.(1282-1284)TCG>TCA	p.S428S	DDX60L_uc003irr.1_Silent_p.S428S|DDX60L_uc003irs.1_Silent_p.S155S	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	428							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		CTTGAATGACCGATTTCTCTT	0.353													6	76					0	0	0.02938	0	0		T	169362498	T	T	169362498	2	4	52	1	0	0	0	0	0	0	0	1	4382	639	23	1		1	DDX60L	4	169362498	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	2433368	169362498	21791778	41	38662											
DNAH5	1767	broad.mit.edu	37	chr5	13771038	13771038	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcattggaccacctccttcTtgatttccaaactgcagtca	9	13	6	13	0	2	1	1	1	1	0	4	2	4	2	4	1	3	2	4	1	1	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr5:13771038T>G	uc003jfd.2	-	56	9467	c.9425A>C	c.(9424-9426)AAG>ACG	p.K3142T	DNAH5_uc003jfc.2_5'Flank	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3142	AAA 4 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CACCTCCTTCTTGATTTCCAA	0.453									Kartagener_syndrome				8	54					0	0	0.008291	0	0		G	13771038	G	G	13771038	3	3	52	1	0	0	0	0	1	0	0	0	4610	1609	56	5	4545	5	DNAH5	5	13771038	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08		13771038	167144222	42	38663											
PRDM9	56979	broad.mit.edu	37	chr5	23510114	23510114	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacacagaagattctgatgaAgaatggacccctaggcagca	15	6	11	9	0	1	5	0	2	1	3	1	7	1	6	2	2	1	2	2	2	4	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr5:23510114A>C	uc003jgo.2	+	4	461	c.279A>C	c.(277-279)GAA>GAC	p.E93D		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	93					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						ATTCTGATGAAGAATGGACCC	0.363										HNSCC(3;0.000094)			4	33					0	0	0.014758	0	0		C	23510114	C	C	23510114	3	2	52	1	0	0	0	0	1	0	0	0	12485	69	3	5	289	5	PRDM9	5	23510114	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	9739076	23510114	157405146	43	38664											
RICTOR	253260	broad.mit.edu	37	chr5	38950621	38950621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttggatcactgctactaCgatgttttttgttaggcaaa	9	17	8	7	1	1	0	1	0	0	0	1	2	1	1	0	2	3	4	0	2	4	8			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr5:38950621C>T	uc003jlp.2	-	31	3353	c.3329G>A	c.(3328-3330)CGT>CAT	p.R1110H	RICTOR_uc003jlo.2_Missense_Mutation_p.R1110H|RICTOR_uc010ivf.2_Missense_Mutation_p.R825H	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	1110					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					ACTGCTACTACGATGTTTTTT	0.368													10	139					0	0	0.008291	0	0		T	38950621	T	T	38950621	3	4	52	1	0	0	0	0	1	0	0	0	13383	536	19	1	1829	1	RICTOR	5	38950621	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	15440507	38950621	141964639	44	38665											
MAP1B	4131	broad.mit.edu	37	chr5	71495412	71495412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtccccctcagaagcccGtcaggatgtcgatttatgcc	9	9	10	13	2	2	1	2	0	0	1	4	4	3	2	4	1	2	0	4	1	3	2	rs34160030	byFrequency	TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr5:71495412G>A	uc003kbw.3	+	5	6471	c.6230G>A	c.(6229-6231)CGT>CAT	p.R2077H	MAP1B_uc010iyw.1_Missense_Mutation_p.R2094H|MAP1B_uc010iyx.1_Missense_Mutation_p.R1951H|MAP1B_uc010iyy.1_Missense_Mutation_p.R1951H	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	2077						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		TCAGAAGCCCGTCAGGATGTC	0.473													4	113					0	0	0.014758	0	0		A	71495412	A	A	71495412	3	1	52	1	0	0	0	0	1	0	0	0	9246	1145	40	1	6248	1	MAP1B	5	71495412	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	32544791	71495412	109419848	45	38666											
SIL1	64374	broad.mit.edu	37	chr5	138456726	138456726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagggctgggcctgatacctGgctgaagggcctgccactca	7	7	14	13	0	1	2	1	2	0	0	1	2	1	2	4	4	2	2	4	4	2	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr5:138456726G>A	uc003ldm.2	-	2	259	c.242C>T	c.(241-243)CCA>CTA	p.P81L	SIL1_uc003ldn.2_Missense_Mutation_p.P80L|SIL1_uc003ldo.2_Missense_Mutation_p.P81L|SIL1_uc003ldp.2_Missense_Mutation_p.P81L	NM_022464	NP_071909	Q9H173	SIL1_HUMAN	SIL1 protein precursor	81	Interaction with HSPA5 and localization to the endoplasmic reticulum (By similarity).				intracellular protein transport|protein folding|transmembrane transport	endoplasmic reticulum lumen	unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CCTGATACCTGGCTGAAGGGC	0.542									Marinesco-Sj_gren_syndrome				11	48					0	0	0.013537	0	0		A	138456726	A	A	138456726	3	1	52	1	0	0	0	0	1	0	0	0	14346	1348	47	4	1175	4	SIL1	5	138456726	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	66961314	138456726	42458534	46	38667											
PCDHB13	56123	broad.mit.edu	37	chr5	140594778	140594778	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccaatacctgagaacgcGcctgaaactgtggttgcact	11	8	10	12	2	0	2	0	2	0	1	0	3	0	2	3	1	5	2	3	1	4	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr5:140594778G>A	uc003lja.1	+	1	1270	c.1083G>A	c.(1081-1083)GCG>GCA	p.A361A		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	361	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGAGAACGCGCCTGAAACTG	0.448													36	157					0	0	0.036044	0	0		A	140594778	A	A	140594778	2	1	52	1	0	0	0	0	0	0	0	1	11557	1074	38	1		1	PCDHB13	5	140594778	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	2138052	140594778	40320482	47	38668											
GABRP	2568	broad.mit.edu	37	chr5	170239126	170239126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagttcaagtttgtcttccGagaaaagatgggcaggattg	12	11	12	6	1	2	2	1	0	1	2	3	4	3	3	1	2	0	3	1	2	4	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr5:170239126G>A	uc003mau.2	+	10	1385	c.1187G>A	c.(1186-1188)CGA>CAA	p.R396Q	GABRP_uc011dev.1_3'UTR	NM_014211	NP_055026	O00591	GBRP_HUMAN	gamma-aminobutyric acid (GABA) A receptor, pi	396	Cytoplasmic (Potential).					cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			breast(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0122)|all_lung(126;0.0193)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TTTGTCTTCCGAGAAAAGATG	0.393													6	49					0	0	0.02938	0	0		A	170239126	A	A	170239126	3	1	52	1	0	0	0	0	1	0	0	0	6188	1058	37	1	1221	1	GABRP	5	170239126	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	29644348	170239126	10676134	48	38669											
GPX6	257202	broad.mit.edu	37	chr6	28472219	28472219	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcatggaccttcatgggCtcccagaagagttggcttga	10	11	11	9	0	2	3	2	1	0	2	3	4	3	4	2	3	0	3	2	3	2	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr6:28472219C>T	uc011dlj.1	-	6	566	c.516G>A	c.(514-516)GAG>GAA	p.E172E	GPX6_uc010jrg.1_RNA	NM_182701	NP_874360	P59796	GPX6_HUMAN	glutathione peroxidase 6 precursor	172					response to oxidative stress	extracellular region	glutathione peroxidase activity			ovary(3)|pancreas(1)|skin(1)	5					Glutathione(DB00143)	CCTTCATGGGCTCCCAGAAGA	0.493													6	52					0	0	0.02938	0	0		T	28472219	T	T	28472219	2	4	52	1	0	0	0	0	0	0	0	1	6760	796	28	2		2	GPX6	6	28472219	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08		28472219	142642848	49	38670											
SCAND3	114821	broad.mit.edu	37	chr6	28539970	28539970	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgattttcaatccttcgtcGgtagccagcttcaacaactt	9	14	6	12	2	2	1	2	1	0	0	5	1	3	1	2	1	4	2	2	1	4	6			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr6:28539970G>C	uc003nlo.2	-	4	4314	c.3696C>G	c.(3694-3696)ACC>ACG	p.T1232T		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	1232					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						atccttcgtcggtagccagct	0													13	35					0	0	0.020292	0	0		C	28539970	C	C	28539970	2	2	52	1	0	0	0	0	0	0	0	1	13901	1103	39	5		5	SCAND3	6	28539970	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	67751	28539970	142575097	50	38671											
SCAND3	114821	broad.mit.edu	37	chr6	28540574	28540574	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atcttgaattcaatgaattaGattttatataattcacaatt	16	18	3	4	0	3	3	2	2	1	1	3	3	3	3	0	0	0	0	0	0	8	9			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr6:28540574G>C	uc003nlo.2	-	4	3710	c.3092C>G	c.(3091-3093)TCT>TGT	p.S1031C		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	1031					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						caatgaattagattttatata	0													11	33					0	0	0.008291	0	0		C	28540574	C	C	28540574	3	2	52	1	0	0	0	0	1	0	0	0	13901	942	33	5	889	5	SCAND3	6	28540574	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	604	28540574	142574493	51	38672											
OR5V1	81696	broad.mit.edu	37	chr6	29323795	29323795	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagttccctagaaaataatAcataggtgtatgcaggtgtg	14	11	10	6	0	0	1	0	0	0	1	1	1	1	1	1	2	2	3	1	2	8	6			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr6:29323795A>G	uc011dlo.1	-	1	260	c.178T>C	c.(178-180)TAT>CAT	p.Y60H		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	60	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4						AGAAAATAATACATAGGTGTA	0.398													36	132					0	0	0.042209	0	0		G	29323795	G	G	29323795	3	3	52	1	0	0	0	0	1	0	0	0	11203	391	14	3	790	3	OR5V1	6	29323795	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	783221	29323795	141791272	52	38673											
PACSIN1	29993	broad.mit.edu	37	chr6	34499470	34499470	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtgagaccaacgggggCgccaacccctttgaggacga	10	4	15	12	3	0	2	0	2	0	1	0	5	0	3	4	4	2	1	4	4	2	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr6:34499470C>T	uc003ojo.2	+	9	1337	c.1131C>T	c.(1129-1131)GGC>GGT	p.G377G	PACSIN1_uc003ojp.2_Silent_p.G377G	NM_020804	NP_065855	Q9BY11	PACN1_HUMAN	protein kinase C and casein kinase substrate in	377					endocytosis		protein kinase activity				0						CCAACGGGGGCGCCAACCCCT	0.627													81	102					0	0	0.048971	0	0		T	34499470	T	T	34499470	2	4	52	1	0	0	0	0	0	0	0	1	11393	755	27	1		1	PACSIN1	6	34499470	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	5175675	34499470	136615597	53	38674											
USP49	25862	broad.mit.edu	37	chr6	41773985	41773985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacgcctggggccatggccGgctggcgacgcagcttgagt	5	7	17	12	4	0	2	0	2	0	0	0	3	0	2	3	5	1	3	3	5	0	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr6:41773985G>A	uc003ori.2	-	4	959	c.737C>T	c.(736-738)CCG>CTG	p.P246L		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	246					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GGCCATGGCCGGCTGGCGACG	0.512													5	46					0	0	0.02938	0	0		A	41773985	A	A	41773985	3	1	52	1	0	0	0	0	1	0	0	0	17106	1116	39	1	1201	1	USP49	6	41773985	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	7274515	41773985	129341082	54	38675											
AARS2	57505	broad.mit.edu	37	chr6	44268376	44268376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgggccaccactcgtgagcCccacgccttgccccccatgt	5	8	9	19	2	0	1	0	1	0	0	1	1	0	1	8	1	2	0	8	1	0	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr6:44268376C>T	uc010jza.1	-	22	2869	c.2866G>A	c.(2866-2868)GGC>AGC	p.G956S	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron|TCTE1_uc003oxi.2_5'Flank	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	956					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	ACTCGTGAGCCCCACGCCTTG	0.617													19	72					0	0	0.038395	0	0		T	44268376	T	T	44268376	3	4	52	1	0	0	0	0	1	0	0	0	20	623	22	4	95	4	AARS2	6	44268376	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	2494391	44268376	126846691	55	38676											
SYNCRIP	10492	broad.mit.edu	37	chr6	86346762	86346762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctattgagaccagtgagtgGatccatcattagacgaagat	13	11	10	7	1	2	4	1	2	1	3	3	7	3	5	2	1	0	0	2	1	3	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr6:86346762G>A	uc003pla.2	-	6	1130	c.589C>T	c.(589-591)CCA>TCA	p.P197S	SYNCRIP_uc003pku.2_Missense_Mutation_p.P197S|SYNCRIP_uc003pkw.2_Missense_Mutation_p.P197S|SYNCRIP_uc003pky.2_Missense_Mutation_p.P99S|SYNCRIP_uc003pkv.2_Missense_Mutation_p.P197S|SYNCRIP_uc003pkx.2_Missense_Mutation_p.P45S|SYNCRIP_uc003pkz.2_Missense_Mutation_p.P197S	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	197	RRM 1.				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		CCAGTGAGTGGATCCATCATT	0.403													20	84					0	0	0.014323	0	0		A	86346762	A	A	86346762	3	1	52	1	0	0	0	0	1	0	0	0	15469	1174	41	4	1352	4	SYNCRIP	6	86346762	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	42078386	86346762	84768305	56	38677											
POU3F2	5454	broad.mit.edu	37	chr6	99284012	99284012	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggagggactctgccgggCgccgaggatgtgtacggggg	5	5	20	11	5	1	0	0	0	1	0	1	4	1	3	3	6	2	1	3	6	1	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr6:99284012C>T	uc003ppe.2	+	1	1433	c.1263C>T	c.(1261-1263)GGC>GGT	p.G421G		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	421					positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)		CTCTGCCGGGCGCCGAGGATG	0.627													6	87					0	0	0.02938	0	0		T	99284012	T	T	99284012	2	4	52	1	0	0	0	0	0	0	0	1	12294	755	27	1		1	POU3F2	6	99284012	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	12937250	99284012	71831055	57	38678											
LAMA2	3908	broad.mit.edu	37	chr6	129634198	129634198	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacctgtgattcagagactAaaaaatgctcctgtagtgat	14	11	8	8	0	1	3	1	2	0	1	2	4	2	3	2	0	2	2	2	0	5	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr6:129634198A>T	uc003qbn.2	+	23	3472	c.3367A>T	c.(3367-3369)AAA>TAA	p.K1123*	LAMA2_uc003qbo.2_Nonsense_Mutation_p.K1123*	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1123	Laminin EGF-like 13.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TTCAGAGACTAAAAAATGCTC	0.493													11	86					0	0	0.013537	0	0		T	129634198	T	T	129634198	4	4	52	1	0	0	0	0	0	1	0	0	8622	363	13	5	3457	5	LAMA2	6	129634198	Nonsense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	30350186	129634198	41480869	58	38679											
IL20RA	53832	broad.mit.edu	37	chr6	137329826	137329826	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtgtacgcagtaaagagTgttcggctccagccaggtga	10	8	13	10	3	0	2	0	1	0	1	2	2	1	2	2	2	2	5	2	2	3	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr6:137329826T>C	uc003qhj.2	-	5	1067	c.634A>G	c.(634-636)ACT>GCT	p.T212A	IL20RA_uc011edl.1_Missense_Mutation_p.T163A|IL20RA_uc003qhk.2_Missense_Mutation_p.T101A|IL20RA_uc003qhi.2_5'UTR	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	212	Extracellular (Potential).|Fibronectin type-III 2.					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)		CAGTAAAGAGTGTTCGGCTCC	0.547													8	226					0	0	0.038147	0	0		C	137329826	C	C	137329826	3	2	52	1	0	0	0	0	1	0	0	0	7684	1696	59	3	1039	3	IL20RA	6	137329826	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	7695628	137329826	33785241	59	38680											
RAET1E	135250	broad.mit.edu	37	chr6	150210686	150210686	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatttctctccattggtggcGaactgccaggatgcaccagt	8	11	11	11	1	1	0	0	0	1	0	3	3	2	1	3	3	3	1	3	3	1	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr6:150210686G>A	uc003qnl.1	-	3	480	c.420C>T	c.(418-420)TTC>TTT	p.F140F	uc003qni.1_Intron|RAET1E_uc003qnj.2_Silent_p.F140F|RAET1E_uc003qnk.1_Silent_p.F104F|RAET1E_uc010kih.1_RNA	NM_139165	NP_631904	Q8TD07	N2DL4_HUMAN	retinoic acid early transcript 1E precursor	140	Extracellular (Potential).|MHC class I alpha-2 like.				antigen processing and presentation|immune response|regulation of immune response	integral to membrane|MHC class I protein complex	protein binding				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.58e-12)		CATTGGTGGCGAACTGCCAGG	0.468													148	62					0	0	0.048971	0	0		A	150210686	A	A	150210686	2	1	52	1	0	0	0	0	0	0	0	1	13024	1049	37	1		1	RAET1E	6	150210686	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	12880860	150210686	20904381	60	38681											
SDK1	221935	broad.mit.edu	37	chr7	4249744	4249744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgagcctgcggcggccaacgGcatcctgcagggctatcggg	6	5	16	14	5	0	0	0	0	0	0	2	1	1	0	3	5	4	3	3	5	2	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr7:4249744G>A	uc003smx.2	+	38	5628	c.5489G>A	c.(5488-5490)GGC>GAC	p.G1830D	SDK1_uc010kso.2_Missense_Mutation_p.G1086D|SDK1_uc003smy.2_Missense_Mutation_p.G317D	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1830	Fibronectin type-III 12.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GCGGCCAACGGCATCCTGCAG	0.652													10	50					0	0	0.010729	0	0		A	4249744	A	A	4249744	3	1	52	1	0	0	0	0	1	0	0	0	13993	1203	42	2	5639	2	SDK1	7	4249744	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08		4249744	154888919	61	38682											
DGKB	1607	broad.mit.edu	37	chr7	14378185	14378185	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcatctgtgacggtggtccTtttgtcagacccttttttct	4	17	10	10	1	3	2	1	1	2	1	4	2	4	2	2	3	0	1	2	3	0	5			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr7:14378185T>C	uc003ssz.2	-	22	2267	c.2080A>G	c.(2080-2082)AGG>GGG	p.R694G	DGKB_uc011jxt.1_Missense_Mutation_p.R675G|DGKB_uc003sta.2_Missense_Mutation_p.R694G|DGKB_uc011jxu.1_Missense_Mutation_p.R693G	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	694					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	ACGGTGGTCCTTTTGTCAGAC	0.393													3	119					0	0	0.009096	0	0		C	14378185	C	C	14378185	3	2	52	1	0	0	0	0	1	0	0	0	4472	1608	56	3	365	3	DGKB	7	14378185	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	10128441	14378185	144760478	62	38683											
BBS9	27241	broad.mit.edu	37	chr7	33397540	33397540	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaccaggtcagccttcaaaAactgcaagccacaaaattac	16	7	5	13	0	2	0	2	0	0	0	2	0	2	0	3	1	6	1	3	1	7	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr7:33397540A>T	uc003tdn.1	+	16	2139	c.1626A>T	c.(1624-1626)AAA>AAT	p.K542N	BBS9_uc003tdo.1_Missense_Mutation_p.K507N|BBS9_uc003tdp.1_Missense_Mutation_p.K537N|BBS9_uc003tdq.1_Missense_Mutation_p.K502N|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Missense_Mutation_p.K66N|BBS9_uc003tds.1_5'UTR|BBS9_uc011kao.1_Missense_Mutation_p.K420N	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	542					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			AGCCTTCAAAAACTGCAAGCC	0.383									Bardet-Biedl_syndrome				18	102					0	0	0.01892	0	0		T	33397540	T	T	33397540	3	4	52	1	0	0	0	0	1	0	0	0	1343	11	1	5	1684	5	BBS9	7	33397540	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	19019355	33397540	125741123	63	38684											
ABCA13	154664	broad.mit.edu	37	chr7	48314870	48314870	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacctgtctccccaaggtgaAgattcaccatgttcaaatga	12	10	7	12	0	3	3	2	2	1	1	4	3	3	3	4	1	0	1	4	1	3	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr7:48314870A>G	uc003toq.2	+	17	5632	c.5607A>G	c.(5605-5607)GAA>GAG	p.E1869E	ABCA13_uc010kyr.2_Silent_p.E1372E	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1869					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CCCAAGGTGAAGATTCACCAT	0.428													3	53					0	0	0.009096	0	0		G	48314870	G	G	48314870	2	3	52	1	0	0	0	0	0	0	0	1	31	69	3	3		3	ABCA13	7	48314870	Silent	SNP	A	TCGA-BR-7717-01A-11D-2053-08	14917330	48314870	110823793	64	38685											
EGFR	1956	broad.mit.edu	37	chr7	55209992	55209992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttccagtttgccaaggcacGagtaacaagctcacgcagtt	11	9	9	12	2	1	0	1	0	0	0	2	1	2	0	2	1	3	6	2	1	3	4	rs148679319		TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr7:55209992G>A	uc003tqk.2	+	2	348	c.102G>A	c.(100-102)ACG>ACA	p.T34T	EGFR_uc003tqh.2_Silent_p.T34T|EGFR_uc003tqi.2_Silent_p.T34T|EGFR_uc003tqj.2_Silent_p.T34T|EGFR_uc010kzg.1_Silent_p.T34T|EGFR_uc011kco.1_5'UTR	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	34	Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	GCCAAGGCACGAGTAACAAGC	0.398		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			7	934					0	0	0.02938	0	0		A	55209992	A	A	55209992	2	1	52	1	0	0	0	0	0	0	0	1	4973	1045	37	1		1	EGFR	7	55209992	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	6895122	55209992	103928671	65	38686											
MAGI2	9863	broad.mit.edu	37	chr7	77973216	77973216	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcccatgttgctctttttTagggtggtgctgaggaatgt	7	15	13	6	0	1	1	0	1	1	0	1	2	1	2	1	3	3	3	1	3	3	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr7:77973216T>A	uc003ugx.2	-	9	1541	c.1287A>T	c.(1285-1287)CTA>CTT	p.L429L	MAGI2_uc003ugy.2_Silent_p.L429L|MAGI2_uc010ldx.1_Silent_p.L38L|MAGI2_uc010ldy.1_Silent_p.L38L|MAGI2_uc011kgr.1_Silent_p.L261L|MAGI2_uc011kgs.1_Silent_p.L266L	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	429	PDZ 2.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TGCTCTTTTTTAGGGTGGTGC	0.463													12	35					0	0	0.024245	0	0		A	77973216	A	A	77973216	2	1	52	1	0	0	0	0	0	0	0	1	9209	1741	61	5		5	MAGI2	7	77973216	Silent	SNP	T	TCGA-BR-7717-01A-11D-2053-08	22763224	77973216	81165447	66	38687											
DOCK4	9732	broad.mit.edu	37	chr7	111509683	111509683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttctgtgatccggtccaCgtaccatttgagcactttga	7	14	9	11	2	1	3	0	3	1	0	3	3	3	3	3	1	3	3	3	1	1	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr7:111509683C>T	uc003vfx.2	-	21	2325	c.2056G>A	c.(2056-2058)GTG>ATG	p.V686M	DOCK4_uc003vfw.2_Missense_Mutation_p.V127M|DOCK4_uc003vfy.2_Missense_Mutation_p.V686M|DOCK4_uc003vga.1_Missense_Mutation_p.V291M	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	686					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				ATCCGGTCCACGTACCATTTG	0.418													26	18					0	0	0.015359	0	0		T	111509683	T	T	111509683	3	4	52	1	0	0	0	0	1	0	0	0	4695	536	19	1	3972	1	DOCK4	7	111509683	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	33536467	111509683	47628980	67	38688											
SGCZ	137868	broad.mit.edu	37	chr8	13959935	13959935	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcctgcaggtggccttgaAgtctcctgcagcagcactca	7	10	10	14	0	2	1	1	1	1	0	4	1	3	1	3	2	4	4	3	2	1	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr8:13959935A>C	uc003wwq.2	-	7	1354	c.694T>G	c.(694-696)TTC>GTC	p.F232V	SGCZ_uc010lss.2_Missense_Mutation_p.F185V	NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta	219	Extracellular (Potential).				cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		GTGGCCTTGAAGTCTCCTGCA	0.512													9	36					0	0	0.047766	0	0		C	13959935	C	C	13959935	3	2	52	1	0	0	0	0	1	0	0	0	14229	72	3	5	252	5	SGCZ	8	13959935	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08		13959935	132404087	68	38689											
SGCZ	137868	broad.mit.edu	37	chr8	13965704	13965704	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggctctgctctgatgtgCggcgtctccacagagtgccc	5	10	13	13	2	3	2	0	1	3	1	4	3	3	2	2	2	3	2	2	2	0	0			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr8:13965704C>T	uc003wwq.2	-	6	1248	c.588G>A	c.(586-588)CCG>CCA	p.P196P	SGCZ_uc010lss.2_Silent_p.P149P	NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta	183	Extracellular (Potential).				cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		CTCTGATGTGCGGCGTCTCCA	0.463													8	37					0	0	0.013537	0	0		T	13965704	T	T	13965704	2	4	52	1	0	0	0	0	0	0	0	1	14229	755	27	1		1	SGCZ	8	13965704	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	5769	13965704	132398318	69	38690											
EIF4EBP1	1978	broad.mit.edu	37	chr8	37914619	37914619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaccaggatcatctatgacCggaaattcctgatggagtgt	11	11	11	8	1	2	2	1	2	1	0	3	5	3	5	3	3	1	1	3	3	3	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr8:37914619C>T	uc003xks.2	+	2	238	c.166C>T	c.(166-168)CGG>TGG	p.R56W		NM_004095	NP_004086	Q13541	4EBP1_HUMAN	eukaryotic translation initiation factor 4E	56					G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|positive regulation of mitotic cell cycle|TOR signaling cascade|translation	cytosol					0	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)				CATCTATGACCGGAAATTCCT	0.552													24	59					0	0	0.041601	0	0		T	37914619	T	T	37914619	3	4	52	1	0	0	0	0	1	0	0	0	5040	643	23	1	172	1	EIF4EBP1	8	37914619	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	23948915	37914619	108449403	70	38691											
AP3M2	10947	broad.mit.edu	37	chr8	42019858	42019858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcagtggtgccttggcgaCggactggggtgaaatatacc	8	10	15	8	2	1	1	1	1	0	0	1	3	1	2	2	5	2	0	2	5	3	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr8:42019858C>T	uc003xop.2	+	5	796	c.505C>T	c.(505-507)CGG>TGG	p.R169W	AP3M2_uc003xoo.2_Missense_Mutation_p.R169W|AP3M2_uc010lxe.2_RNA|AP3M2_uc003xoq.1_Missense_Mutation_p.R54W|AP3M2_uc003xor.1_Missense_Mutation_p.R169W	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	169					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			GCCTTGGCGACGGACTGGGGT	0.418													73	177					0	0	0.048971	0	0		T	42019858	T	T	42019858	3	4	52	1	0	0	0	0	1	0	0	0	748	527	19	1	515	1	AP3M2	8	42019858	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	4105239	42019858	104344164	71	38692											
PXDNL	137902	broad.mit.edu	37	chr8	52321502	52321502	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgtaaacgttggagccatcGatgtaggctgtttgctggtt	7	13	13	8	3	0	0	0	0	0	0	1	2	0	1	2	3	3	7	2	3	3	5			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr8:52321502G>A	uc003xqu.3	-	17	2783	c.2682C>T	c.(2680-2682)ATC>ATT	p.I894I	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	894					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TGGAGCCATCGATGTAGGCTG	0.622													6	34					0	0	0.006214	0	0		A	52321502	A	A	52321502	2	1	52	1	0	0	0	0	0	0	0	1	12873	1048	37	1		1	PXDNL	8	52321502	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	10301644	52321502	94042520	72	38693											
ASAP1	50807	broad.mit.edu	37	chr8	131073067	131073067	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggcaggtccttcatctgtgGtttgggaggtaagtctgaga	7	12	16	6	0	3	1	1	1	2	1	4	3	4	2	1	5	0	3	1	5	1	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr8:131073067G>C	uc003yta.1	-	27	2978	c.2950C>G	c.(2950-2952)CCA>GCA	p.P984A	ASAP1_uc003ysz.1_Missense_Mutation_p.P795A|ASAP1_uc011liw.1_Missense_Mutation_p.P977A	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	984	Pro-rich.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TTCATCTGTGGTTTGGGAGGT	0.572													33	122					0	0	0.015359	0	0		C	131073067	C	C	131073067	3	2	52	1	0	0	0	0	1	0	0	0	1011	1261	44	5	451	5	ASAP1	8	131073067	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	78751565	131073067	15290955	73	38694											
RPL8	6132	broad.mit.edu	37	chr8	146015800	146015800	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgccttatatttgtggtaCgcccggccagccttcaagat	7	14	9	11	2	1	1	1	0	0	1	1	1	1	1	4	2	3	1	4	2	4	6			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr8:146015800C>T	uc003zeb.2	-	5	666	c.555G>A	c.(553-555)GCG>GCA	p.A185A	RPL8_uc003zdz.2_RNA|RPL8_uc003zea.2_Silent_p.A149A|RPL8_uc003zec.2_Silent_p.A185A	NM_033301	NP_150644	P62917	RL8_HUMAN	ribosomal protein L8	185					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	rRNA binding|structural constituent of ribosome				0	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;5.47e-39)|OV - Ovarian serous cystadenocarcinoma(54;6.38e-39)|all cancers(56;5.47e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.191)		ATTTGTGGTACGCCCGGCCAG	0.542													9	113					0	0	0.010729	0	0		T	146015800	T	T	146015800	2	4	52	1	0	0	0	0	0	0	0	1	13627	523	19	1		1	RPL8	8	146015800	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	14942733	146015800	348222	74	38695											
GLDC	2731	broad.mit.edu	37	chr9	6610288	6610288	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtcacacaccatggtcTggtagttgagtaaactctcc	10	12	9	10	0	3	2	1	2	2	0	4	2	3	2	2	2	1	3	2	2	3	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr9:6610288T>C	uc003zkc.2	-	4	732	c.539A>G	c.(538-540)CAG>CGG	p.Q180R		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	180					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	CACCATGGTCTGGTAGTTGAG	0.547													9	15					0	0	0.010729	0	0		C	6610288	C	C	6610288	3	2	52	1	0	0	0	0	1	0	0	0	6448	1580	55	3	2611	3	GLDC	9	6610288	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08		6610288	134603143	75	38696											
GRIN3A	116443	broad.mit.edu	37	chr9	104449347	104449347	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attctgggtaaggaggaggaAgtcggtgatgttccagtctt	9	12	15	5	1	2	1	0	1	2	0	4	4	3	4	1	5	0	2	1	5	2	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr9:104449347A>C	uc004bbp.1	-	2	1436	c.835T>G	c.(835-837)TTC>GTC	p.F279V	GRIN3A_uc004bbq.1_Missense_Mutation_p.F279V	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	279	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	AGGAGGAGGAAGTCGGTGATG	0.468													12	126					0	0	0.016723	0	0		C	104449347	C	C	104449347	3	2	52	1	0	0	0	0	1	0	0	0	6799	72	3	5	2544	5	GRIN3A	9	104449347	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	97839059	104449347	36764084	76	38697											
FKBP15	23307	broad.mit.edu	37	chr9	115955819	115955819	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggagttagatttggtacgaaGagctggctccctgaaagcaa	12	9	13	7	1	0	3	0	1	0	2	1	5	1	4	1	3	3	5	1	3	5	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr9:115955819G>C	uc004bgs.2	-	11	1136	c.1018C>G	c.(1018-1020)CTT>GTT	p.L340V	FKBP15_uc010muu.1_Missense_Mutation_p.L404V|FKBP15_uc011lxd.1_Missense_Mutation_p.L272V|FKBP15_uc010mut.1_Missense_Mutation_p.L208V|FKBP15_uc004bgt.2_Missense_Mutation_p.L340V	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	340					endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						TTGGTACGAAGAGCTGGCTCC	0.274													7	5					0	0	0.038147	0	0		C	115955819	C	C	115955819	3	2	52	1	0	0	0	0	1	0	0	0	5919	942	33	5	2713	5	FKBP15	9	115955819	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	11506472	115955819	25257612	77	38698											
NUP188	23511	broad.mit.edu	37	chr9	131749930	131749930	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacacagaagcaggacagaCagttatcaatatcatgggca	17	7	9	8	0	2	2	2	0	0	2	2	3	2	3	0	2	2	3	0	2	5	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr9:131749930C>G	uc004bws.1	+	23	2349	c.2327C>G	c.(2326-2328)ACA>AGA	p.T776R	NUP188_uc004bwu.2_Missense_Mutation_p.T119R	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	776					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						GCAGGACAGACAGTTATCAAT	0.527													30	38					0	0	0.015359	0	0		G	131749930	G	G	131749930	3	3	52	1	0	0	0	0	1	0	0	0	10777	478	17	5	2417	5	NUP188	9	131749930	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	15794111	131749930	9463501	78	38699											
BMI1	648	broad.mit.edu	37	chr10	22616977	22616977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttatccattgaattctttGaccagaacaggtaaaatctt	13	14	6	8	0	2	3	0	2	2	1	3	3	3	3	2	1	1	2	2	1	5	6			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr10:22616977G>A	uc001irh.2	+	6	1054	c.415G>A	c.(415-417)GAC>AAC	p.D139N	BMI1_uc009xkg.2_Missense_Mutation_p.D282N	NM_005180	NP_005171	P35226	BMI1_HUMAN	BMI1 polycomb ring finger oncogene	139					hemopoiesis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fibroblast proliferation|positive regulation of ubiquitin-protein ligase activity|segment specification|transcription, DNA-dependent	cytoplasm|nucleolus|PcG protein complex|ubiquitin ligase complex	RING-like zinc finger domain binding|zinc ion binding			ovary(1)|skin(1)	2						TGAATTCTTTGACCAGAACAG	0.308													35	82					0	0	0.017118	0	0		A	22616977	A	A	22616977	3	1	52	1	0	0	0	0	1	0	0	0	1456	1290	45	4	433	4	BMI1	10	22616977	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08		22616977	112917770	79	38700											
ABCC2	1244	broad.mit.edu	37	chr10	101577118	101577118	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attcagaatggcaccataaaGgacaacatcctttttggaac	15	10	7	9	0	1	1	1	0	0	1	2	3	2	3	2	3	2	1	2	3	5	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr10:101577118G>T	uc001kqf.2	+	17	2287	c.2148G>T	c.(2146-2148)AAG>AAT	p.K716N		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	716	Cytoplasmic (By similarity).|ABC transporter 1.					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GCACCATAAAGGACAACATCC	0.488													26	33					2.70662e-09	2.8412e-09	0.041601	1	0		T	101577118	T	T	101577118	3	4	52	1	0	0	0	0	1	0	0	0	53	991	35	5	2214	5	ABCC2	10	101577118	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	78960141	101577118	33957629	80	38701											
HMX2	3167	broad.mit.edu	37	chr10	124909459	124909459	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcggctgagctggaggcGgccaacatggcgcacgcgtc	6	6	15	14	5	1	1	0	1	1	0	3	2	1	2	1	5	2	3	1	5	1	0			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr10:124909459G>T	uc001lhc.1	+	2	899	c.642G>T	c.(640-642)GCG>GCT	p.A214A		NM_005519	NP_005510	A2RU54	HMX2_HUMAN	H6 family homeobox 2	214					cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_neural(114;0.169)|Colorectal(57;0.207)|Glioma(114;0.222)		Colorectal(40;0.123)|COAD - Colon adenocarcinoma(40;0.141)		AGCTGGAGGCGGCCAACATGG	0.677													4	12					0.00909568	0.00929129	0.009096	1	0		T	124909459	T	T	124909459	2	4	52	1	0	0	0	0	0	0	0	1	7263	1103	39	5		5	HMX2	10	124909459	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	23332341	124909459	10625288	81	38702											
AP2A2	161	broad.mit.edu	37	chr11	992584	992584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatcttgaacttgatccgaAttgctggtgattacgtgagt	9	14	10	8	2	1	4	0	4	1	0	2	5	2	4	2	1	3	1	2	1	3	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr11:992584A>G	uc001lss.2	+	11	1532	c.1351A>G	c.(1351-1353)ATT>GTT	p.I451V	AP2A2_uc001lst.1_Missense_Mutation_p.I452V|AP2A2_uc009yco.1_RNA|AP2A2_uc009ycq.1_Missense_Mutation_p.I42V	NM_012305	NP_036437	O94973	AP2A2_HUMAN	adaptor-related protein complex 2, alpha 2	451					axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	lipid binding|protein transporter activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.75e-24)|BRCA - Breast invasive adenocarcinoma(625;5.73e-05)|Lung(200;0.0696)|LUSC - Lung squamous cell carcinoma(625;0.082)		CTTGATCCGAATTGCTGGTGA	0.552													6	40					0	0	0.02938	0	0		G	992584	G	G	992584	3	3	52	1	0	0	0	0	1	0	0	0	740	101	4	3	1393	3	AP2A2	11	992584	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08		992584	134013932	82	38703											
RBMXL2	27288	broad.mit.edu	37	chr11	7111074	7111074	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggagagtacacccaccgCgattacggccactccagtgt	9	6	10	16	4	0	1	0	0	0	1	1	3	1	1	5	2	2	1	5	2	2	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr11:7111074C>T	uc001mfc.2	+	1	910	c.723C>T	c.(721-723)CGC>CGT	p.R241R		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	241	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ACACCCACCGCGATTACGGCC	0.657													3	39					0	0	0.014758	0	0		T	7111074	T	T	7111074	2	4	52	1	0	0	0	0	0	0	0	1	13179	755	27	1		1	RBMXL2	11	7111074	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	6118490	7111074	127895442	83	38704											
MS4A14	84689	broad.mit.edu	37	chr11	60183029	60183029	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgatgattcaacaacaaaTgcacaatctgttatctttgg	14	13	7	7	0	3	2	1	2	2	0	3	2	3	2	0	1	3	2	0	1	5	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr11:60183029T>C	uc001npj.2	+	5	1153	c.588T>C	c.(586-588)AAT>AAC	p.N196N	MS4A14_uc001npi.2_Silent_p.N84N|MS4A14_uc001npn.2_5'UTR|MS4A14_uc001npk.2_Silent_p.N179N|MS4A14_uc001npl.2_5'UTR|MS4A14_uc001npm.2_5'UTR	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	196						integral to membrane	receptor activity			breast(1)	1						CAACAACAAATGCACAATCTG	0.383													4	53					0	0	0.038147	0	0		C	60183029	C	C	60183029	2	2	52	1	0	0	0	0	0	0	0	1	9876	1461	51	3		3	MS4A14	11	60183029	Silent	SNP	T	TCGA-BR-7717-01A-11D-2053-08	53071955	60183029	74823487	84	38705											
SF1	7536	broad.mit.edu	37	chr11	64536711	64536711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atacctgttatcgtcttcccGaagggtcccatttaagcgag	9	12	9	11	3	1	0	0	0	1	0	4	2	3	0	3	1	2	1	3	1	4	5			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr11:64536711G>A	uc001obb.1	-	7	1140	c.763C>T	c.(763-765)CGG>TGG	p.R255W	SF1_uc010rnm.1_5'Flank|SF1_uc010rnn.1_Missense_Mutation_p.R229W|SF1_uc001oaz.1_Missense_Mutation_p.R380W|SF1_uc001oba.1_Missense_Mutation_p.R255W|SF1_uc001obc.1_Missense_Mutation_p.R255W|SF1_uc001obd.1_Missense_Mutation_p.R255W|SF1_uc001obe.1_Missense_Mutation_p.R140W|SF1_uc010rno.1_Missense_Mutation_p.R140W	NM_004630	NP_004621	Q15637	SF01_HUMAN	splicing factor 1 isoform 1	255				R->A: Slightly decreases RNA-binding.	nuclear mRNA 3'-splice site recognition|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ribosome|spliceosomal complex	protein binding|RNA binding|transcription corepressor activity|zinc ion binding			ovary(1)|breast(1)|skin(1)	3						TCGTCTTCCCGAAGGGTCCCA	0.463													22	28					0	0	0.034045	0	0		A	64536711	A	A	64536711	3	1	52	1	0	0	0	0	1	0	0	0	14170	1057	37	1	1322	1	SF1	11	64536711	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	4353682	64536711	70469805	85	38706											
PELI3	246330	broad.mit.edu	37	chr11	66240870	66240870	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatactgcccgcatctatgcCgctggcttcgatgcctctag	6	12	9	14	3	2	0	0	0	2	0	3	1	2	0	3	1	4	3	3	1	4	5			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr11:66240870C>T	uc001oic.3	+	6	779	c.615C>T	c.(613-615)GCC>GCT	p.A205A	PELI3_uc001oib.2_Silent_p.A205A|PELI3_uc001oid.3_Silent_p.A181A|PELI3_uc001oie.3_Silent_p.A56A|PELI3_uc010rpd.1_Silent_p.A46A	NM_145065	NP_659502	Q8N2H9	PELI3_HUMAN	pellino 3 alpha isoform 1	205						cytosol	protein binding			ovary(1)	1						GCATCTATGCCGCTGGCTTCG	0.622													6	87					0	0	0.038147	0	0		T	66240870	T	T	66240870	2	4	52	1	0	0	0	0	0	0	0	1	11742	639	23	1		1	PELI3	11	66240870	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	1704159	66240870	68765646	86	38707											
ODZ4	26011	broad.mit.edu	37	chr11	78467865	78467865	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaccctccatcaaaggggTtctccccggggattatgtgc	7	10	10	14	1	3	0	2	0	1	0	5	1	4	1	4	4	1	1	4	4	2	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr11:78467865T>G	uc001ozl.3	-	19	3204	c.2741A>C	c.(2740-2742)AAC>ACC	p.N914T		NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	914	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						ATCAAAGGGGTTCTCCCCGGG	0.577													5	22					0	0	0.021553	0	0		G	78467865	G	G	78467865	3	3	52	1	0	0	0	0	1	0	0	0	10856	1725	60	5	5632	5	ODZ4	11	78467865	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	12226995	78467865	56538651	87	38708											
ATM	472	broad.mit.edu	37	chr11	108214049	108214049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaagatggtgctcataaaaGatacaggccaaatgatttca	16	10	9	6	0	2	4	2	2	0	2	2	4	2	4	1	2	2	1	1	2	5	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr11:108214049G>A	uc001pkb.1	+	57	8754	c.8369G>A	c.(8368-8370)AGA>AAA	p.R2790K	ATM_uc009yxr.1_Missense_Mutation_p.R2790K|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.R1442K	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2790	PI3K/PI4K.				cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		GCTCATAAAAGATACAGGCCA	0.398			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			21	80					0	0	0.016522	0	0		A	108214049	A	A	108214049	3	1	52	1	0	0	0	0	1	0	0	0	1110	942	33	4	8591	4	ATM	11	108214049	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	29746184	108214049	26792467	88	38709											
TECTA	7007	broad.mit.edu	37	chr11	121038845	121038845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacatcatcaccagggaccGcacgatcaatgtggaatttt	13	9	8	11	2	3	0	3	0	0	0	3	3	3	2	2	2	1	1	2	2	3	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr11:121038845G>A	uc010rzo.1	+	18	5669	c.5669G>A	c.(5668-5670)CGC>CAC	p.R1890H		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1890	ZP.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		ACCAGGGACCGCACGATCAAT	0.468													42	94					0	0	0.042209	0	0		A	121038845	A	A	121038845	3	1	52	1	0	0	0	0	1	0	0	0	15772	1087	38	1	5739	1	TECTA	11	121038845	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	12824796	121038845	13967671	89	38710											
OR8D1	283159	broad.mit.edu	37	chr11	124180557	124180557	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcccactactgtgaccaCatagattcccaggaacagga	12	8	9	12	0	0	2	0	1	0	1	1	4	1	4	3	2	3	1	3	2	3	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr11:124180557C>A	uc010sag.1	-	1	106	c.106G>T	c.(106-108)GTG>TTG	p.V36L		NM_001002917	NP_001002917	Q8WZ84	OR8D1_HUMAN	olfactory receptor, family 8, subfamily D,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		ACTGTGACCACATAGATTCCC	0.493													15	143					2.4624e-09	2.5992e-09	0.049695	1	0		A	124180557	A	A	124180557	3	1	52	1	0	0	0	0	1	0	0	0	11250	478	17	5	823	5	OR8D1	11	124180557	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	3141712	124180557	10825959	90	38711											
CDON	50937	broad.mit.edu	37	chr11	125889542	125889542	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttccagccattttccccgGattttatagcgcacctcagc	7	13	7	14	2	1	0	1	0	0	0	3	1	3	1	5	1	3	2	5	1	2	6			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr11:125889542G>T	uc009zbw.2	-	4	596	c.468C>A	c.(466-468)ATC>ATA	p.I156I	CDON_uc001qdc.3_Silent_p.I156I|CDON_uc001qdd.3_RNA|CDON_uc009zbx.2_Silent_p.I156I	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	156	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		ATTTTCCCCGGATTTTATAGC	0.453													24	163					2.61193e-14	2.78802e-14	0.041601	1	0		T	125889542	T	T	125889542	2	4	52	1	0	0	0	0	0	0	0	1	3173	1164	41	5		5	CDON	11	125889542	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	1708985	125889542	9116974	91	38712											
NTM	50863	broad.mit.edu	37	chr11	132184473	132184473	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggaaagaaaggggtgaaAgtggaaaacagacctttcct	17	6	13	5	0	0	3	0	1	0	2	1	6	1	5	2	4	1	0	2	4	6	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr11:132184473A>G	uc001qgp.2	+	6	1474	c.810A>G	c.(808-810)AAA>AAG	p.K270K	NTM_uc001qgm.2_Silent_p.K270K|NTM_uc010sch.1_Silent_p.K261K|NTM_uc010sci.1_Silent_p.K270K|NTM_uc010scj.1_Silent_p.K229K|NTM_uc001qgo.2_Silent_p.K270K|NTM_uc001qgq.2_Silent_p.K270K|NTM_uc001qgr.2_Silent_p.K52K	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	270	Ig-like C2-type 3.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						AAGGGGTGAAAGTGGAAAACA	0.428													12	38					0	0	0.013537	0	0		G	132184473	G	G	132184473	2	3	52	1	0	0	0	0	0	0	0	1	10718	69	3	3		3	NTM	11	132184473	Silent	SNP	A	TCGA-BR-7717-01A-11D-2053-08	6294931	132184473	2822043	92	38713											
RASSF8	11228	broad.mit.edu	37	chr12	26217559	26217559	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgatgtgcagctcattctaCgacgaactgggccgtctctc	7	11	11	12	3	3	1	1	1	2	0	5	3	3	1	1	1	4	2	1	1	2	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr12:26217559C>T	uc001rgx.2	+	3	453	c.232C>T	c.(232-234)CGA>TGA	p.R78*	RASSF8_uc001rgy.2_Nonsense_Mutation_p.R78*|RASSF8_uc001rgz.2_Nonsense_Mutation_p.R78*|RASSF8_uc009zjd.1_Nonsense_Mutation_p.R78*|RASSF8_uc009zje.1_Nonsense_Mutation_p.R78*	NM_007211	NP_009142	Q8NHQ8	RASF8_HUMAN	Ras association (RalGDS/AF-6) domain family	78	Ras-associating.				signal transduction						0	Colorectal(261;0.0847)					GCTCATTCTACGACGAACTGG	0.468													39	89					0	0	0.045515	0	0		T	26217559	T	T	26217559	4	4	52	1	0	0	0	0	0	1	0	0	13117	528	19	1	238	1	RASSF8	12	26217559	Nonsense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08		26217559	107634336	93	38714											
ADAMTS20	80070	broad.mit.edu	37	chr12	43925975	43925975	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttctaagaaatattcaccGttctgtcctttaaatgttcc	10	16	6	9	1	3	1	1	0	2	1	5	1	5	1	3	1	0	3	3	1	5	8			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr12:43925975G>A	uc010skx.1	-	3	477	c.477C>T	c.(475-477)AAC>AAT	p.N159N		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	159						proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		AATATTCACCGTTCTGTCCTT	0.338													3	56					0	0	0.004672	0	0		A	43925975	A	A	43925975	2	1	52	1	0	0	0	0	0	0	0	1	266	1136	40	1		1	ADAMTS20	12	43925975	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	17708416	43925975	89925920	94	38715											
KRT73	319101	broad.mit.edu	37	chr12	53005086	53005086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcaggtcatccccatgccGgccggctgctagctgcagct	5	10	11	15	2	2	0	2	0	0	0	3	0	3	0	4	3	5	5	4	3	1	2	rs150273425		TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr12:53005086G>A	uc001sas.2	-	6	1047	c.1012C>T	c.(1012-1014)CGG>TGG	p.R338W		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	338	Rod.|Coil 2.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		TCCCCATGCCGGCCGGCTGCT	0.537													4	68					0	0	0.009096	0	0		A	53005086	A	A	53005086	3	1	52	1	0	0	0	0	1	0	0	0	8502	1115	39	1	626	1	KRT73	12	53005086	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	9079111	53005086	80846809	95	38716											
PPFIA2	8499	broad.mit.edu	37	chr12	81660768	81660768	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttcccagggccaagaggTtattgtattctctttcaaga	10	13	9	9	0	2	2	1	0	1	2	4	2	3	2	2	2	0	3	2	2	4	6			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr12:81660768T>G	uc001szo.1	-	30	3679	c.3518A>C	c.(3517-3519)AAC>ACC	p.N1173T	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	1072										ovary(3)|lung(2)|pancreas(1)	6						GGCCAAGAGGTTATTGTATTC	0.358													3	16					0	0	0.021553	0	0		G	81660768	G	G	81660768	3	3	52	1	0	0	0	0	1	0	0	0	12329	1725	60	5	267	5	PPFIA2	12	81660768	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	28655682	81660768	52191127	96	38717											
UBE3B	89910	broad.mit.edu	37	chr12	109936111	109936111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagaccaagatcgatgccGtgatgtatgtgaaagtttag	14	10	12	5	2	0	4	0	2	0	2	1	6	0	4	2	0	1	2	2	0	5	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr12:109936111G>A	uc001top.2	+	11	1496	c.893G>A	c.(892-894)CGT>CAT	p.R298H	UBE3B_uc001toq.2_Missense_Mutation_p.R298H|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.R298H	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	298					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						GATCGATGCCGTGATGTATGT	0.438													4	184					0	0	0.009096	0	0		A	109936111	A	A	109936111	3	1	52	1	0	0	0	0	1	0	0	0	16906	1145	40	1	927	1	UBE3B	12	109936111	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	28275343	109936111	23915784	97	38718											
MAB21L1	4081	broad.mit.edu	37	chr13	36049983	36049983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgctcaacttcagcaccGcgcagccgggcagtgagcca	8	5	12	16	5	2	1	2	1	0	0	3	1	2	1	3	1	4	4	3	1	1	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr13:36049983G>A	uc001uvc.2	-	1	850	c.293C>T	c.(292-294)GCG>GTG	p.A98V	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	98					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		CTTCAGCACCGCGCAGCCGGG	0.597													22	98					0	0	0.014323	0	0		A	36049983	A	A	36049983	3	1	52	1	0	0	0	0	1	0	0	0	9159	1087	38	1	790	1	MAB21L1	13	36049983	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08		36049983	79119895	98	38719											
CCNA1	8900	broad.mit.edu	37	chr13	37014131	37014131	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaggaaatatgaagagatAtatcctcctgaagtagacga	16	8	9	8	1	0	4	0	2	0	2	2	7	2	5	3	1	0	1	3	1	7	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr13:37014131A>G	uc001uvr.3	+	6	1259	c.909A>G	c.(907-909)ATA>ATG	p.I303M	CCNA1_uc010teo.1_Missense_Mutation_p.I259M|CCNA1_uc010abq.2_Missense_Mutation_p.I259M|CCNA1_uc010abp.2_Missense_Mutation_p.I259M|CCNA1_uc001uvs.3_Missense_Mutation_p.I302M|CCNA1_uc010abr.2_Intron	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	303					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		ATGAAGAGATATATCCTCCTG	0.408													12	26					0	0	0.016723	0	0		G	37014131	G	G	37014131	3	3	52	1	0	0	0	0	1	0	0	0	2912	439	16	3	931	3	CCNA1	13	37014131	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	964148	37014131	78155747	99	38720											
STOML3	161003	broad.mit.edu	37	chr13	39542650	39542650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacccggatcccccacagttCggtggcatcatcaagtaaag	11	7	9	14	2	2	0	2	0	0	0	4	1	3	1	3	3	0	3	3	3	3	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr13:39542650C>T	uc001uwx.2	-	6	676	c.538G>A	c.(538-540)GAA>AAA	p.E180K	STOML3_uc010tez.1_Missense_Mutation_p.E171K	NM_145286	NP_660329	Q8TAV4	STML3_HUMAN	stomatin-like 3 isoform 1	180	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Lung NSC(96;1.42e-05)|Prostate(109;0.00851)|Breast(139;0.0199)|Lung SC(185;0.0743)		all cancers(112;2.93e-08)|Epithelial(112;3.64e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00107)|BRCA - Breast invasive adenocarcinoma(63;0.00349)|GBM - Glioblastoma multiforme(144;0.0137)		CCCCACAGTTCGGTGGCATCA	0.468													21	118					0	0	0.027356	0	0		T	39542650	T	T	39542650	3	4	52	1	0	0	0	0	1	0	0	0	15340	893	31	1	345	1	STOML3	13	39542650	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	2528519	39542650	75627228	100	38721											
MYCBP2	23077	broad.mit.edu	37	chr13	77642839	77642839	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agagcagctcaaagcagtagGcatcagaggaggcatcttca	14	6	12	9	0	4	2	3	0	1	2	4	3	4	3	0	3	3	6	0	3	2	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr13:77642839G>C	uc001vkf.2	-	71	12009	c.11918C>G	c.(11917-11919)GCC>GGC	p.A3973G	MYCBP2_uc010aev.2_Missense_Mutation_p.A3377G|MYCBP2_uc001vke.2_Missense_Mutation_p.A590G	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3973					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AAAGCAGTAGGCATCAGAGGA	0.478													16	75					0	0	0.038395	0	0		C	77642839	C	C	77642839	3	2	52	1	0	0	0	0	1	0	0	0	10036	1203	42	5	2060	5	MYCBP2	13	77642839	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	38100189	77642839	37527039	101	38722											
SLITRK5	26050	broad.mit.edu	37	chr13	88329875	88329875	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccaaggtgaagacgccCgcgggccacgtgtatgaata	10	6	13	12	4	0	3	0	2	0	1	0	3	0	3	3	2	1	1	3	2	5	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr13:88329875C>T	uc001vln.2	+	2	2451	c.2232C>T	c.(2230-2232)CCC>CCT	p.P744P	SLITRK5_uc010tic.1_Silent_p.P503P	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	744	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					TGAAGACGCCCGCGGGCCACG	0.657													22	72					0	0	0.021523	0	0		T	88329875	T	T	88329875	2	4	52	1	0	0	0	0	0	0	0	1	14771	639	23	1		1	SLITRK5	13	88329875	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	10687036	88329875	26840003	102	38723											
FAM155A	728215	broad.mit.edu	37	chr13	108518852	108518852	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttctgagccctctcggaAtcgatgaacggtttctcgtt	7	14	9	11	4	3	2	0	2	3	0	6	4	3	3	1	2	2	2	1	2	2	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr13:108518852A>T	uc001vql.2	-	1	609	c.93T>A	c.(91-93)GAT>GAA	p.D31E		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	31						integral to membrane	binding			skin(1)	1						CCCTCTCGGAATCGATGAACG	0.527													14	305					0	0	0.055883	0	0		T	108518852	T	T	108518852	3	4	52	1	0	0	0	0	1	0	0	0	5476	98	4	5	1295	5	FAM155A	13	108518852	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	20188977	108518852	6651026	103	38724											
POTEG	404785	broad.mit.edu	37	chr14	19553567	19553567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacttctggagaccacgacGattctgctatgaagacactc	11	9	9	12	2	2	3	0	1	2	2	3	6	2	3	1	1	1	2	1	1	2	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr14:19553567G>A	uc001vuz.1	+	1	203	c.151G>A	c.(151-153)GAT>AAT	p.D51N	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	51										ovary(1)	1						AGACCACGACGATTCTGCTAT	0.602													16	598					0	0	0.037714	0	0		A	19553567	A	A	19553567	3	1	52	1	0	0	0	0	1	0	0	0	12285	1058	37	1	153	1	POTEG	14	19553567	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08		19553567	87795973	104	38725											
MYH6	4624	broad.mit.edu	37	chr14	23856775	23856775	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgactgcagctccagcttcTccacctccagctgtttgcgg	5	11	9	16	1	1	1	0	1	1	0	4	1	3	1	4	1	5	5	4	1	0	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr14:23856775T>C	uc001wjv.2	-	32	4680	c.4613A>G	c.(4612-4614)GAG>GGG	p.E1538G		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1538	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CTCCAGCTTCTCCACCTCCAG	0.592													20	87					0	0	0.016522	0	0		C	23856775	C	C	23856775	3	2	52	1	0	0	0	0	1	0	0	0	10056	1551	54	3	1238	3	MYH6	14	23856775	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	4303208	23856775	83492765	105	38726											
FOXG1	2290	broad.mit.edu	37	chr14	29237173	29237173	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctggcagaactccatcCgccacaatctgtccctcaac	10	7	8	16	1	2	1	1	0	1	1	5	1	5	1	4	2	2	2	4	2	3	0			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr14:29237173C>G	uc001wqe.2	+	1	887	c.688C>G	c.(688-690)CGC>GGC	p.R230G		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	230	Fork-head.				axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		GAACTCCATCCGCCACAATCT	0.592													19	41					0	0	0.055883	0	0		G	29237173	G	G	29237173	3	3	52	1	0	0	0	0	1	0	0	0	6021	652	23	5	690	5	FOXG1	14	29237173	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	5380398	29237173	78112367	106	38727											
EIF2B2	8892	broad.mit.edu	37	chr14	75473366	75473366	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggcactggcagcaaaacaCcattccaccccactcatcgt	11	7	6	17	1	1	0	1	0	0	0	3	0	2	0	4	2	2	3	4	2	2	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr14:75473366C>G	uc001xrc.1	+	6	862	c.780C>G	c.(778-780)CAC>CAG	p.H260Q		NM_014239	NP_055054	P49770	EI2BB_HUMAN	eukaryotic translation initiation factor 2B,	260					cellular response to stimulus|myelination|oligodendrocyte development|ovarian follicle development|regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	ATP binding|GTP binding|protein binding|translation initiation factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00661)		CAGCAAAACACCATTCCACCC	0.517													79	247					0	0	0.048971	0	0		G	75473366	G	G	75473366	3	3	52	1	0	0	0	0	1	0	0	0	5007	506	18	5	802	5	EIF2B2	14	75473366	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	46236193	75473366	31876174	107	38728											
MARK3	4140	broad.mit.edu	37	chr14	103928798	103928798	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgtacatcgagacctcaaGgtgagtagaagtgcctcact	12	9	10	10	2	2	3	2	1	0	2	4	4	2	3	2	1	2	2	2	1	4	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr14:103928798G>A	uc001ymz.3	+	7	1206	c.540G>A	c.(538-540)AAG>AAA	p.K180K	MARK3_uc001ymx.3_Silent_p.K180K|MARK3_uc001ymw.3_Silent_p.K180K|MARK3_uc001yna.3_Silent_p.K180K|MARK3_uc001ymy.3_Silent_p.K180K|MARK3_uc010awp.2_Silent_p.K203K	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	180	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			GAGACCTCAAGGTGAGTAGAA	0.448													12	45					0	0	0.020292	0	0		A	103928798	A	A	103928798	2	1	52	1	0	0	0	0	0	0	0	1	9332	1014	35	4		4	MARK3	14	103928798	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	28455432	103928798	3420742	108	38729											
AHNAK2	113146	broad.mit.edu	37	chr14	105413100	105413100	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcatctgcaccttgggCaggtgccctttgaggccggc	4	9	15	13	1	1	1	0	1	1	0	1	1	1	1	3	5	2	3	3	5	0	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr14:105413100C>G	uc010axc.1	-	7	8808	c.8688G>C	c.(8686-8688)CTG>CTC	p.L2896L	AHNAK2_uc001ypx.2_Silent_p.L2796L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2896						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GCACCTTGGGCAGGTGCCCTT	0.637													33	182					0	0	0.030466	0	0		G	105413100	G	G	105413100	2	3	52	1	0	0	0	0	0	0	0	1	415	697	25	5		5	AHNAK2	14	105413100	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	1484302	105413100	1936440	109	38730											
MKRN3	7681	broad.mit.edu	37	chr15	23811829	23811829	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaaagatatggaactctcGtttgctgtgcagcgtggtat	10	12	13	6	2	1	2	0	0	1	2	2	4	1	3	0	2	4	4	0	2	4	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr15:23811829G>A	uc001ywh.3	+	1	1376	c.900G>A	c.(898-900)TCG>TCA	p.S300S	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Silent_p.S300S	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	300						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		TGGAACTCTCGTTTGCTGTGC	0.532													3	27					0	0	0.004672	0	0		A	23811829	A	A	23811829	2	1	52	1	0	0	0	0	0	0	0	1	9626	1132	40	1		1	MKRN3	15	23811829	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08		23811829	78719563	110	38731											
FMN1	342184	broad.mit.edu	37	chr15	33261313	33261313	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcaatgccttctgctgAtttgatgccatgccctccat	7	12	10	12	0	1	2	0	2	1	0	2	3	2	3	4	2	4	2	4	2	1	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr15:33261313A>C	uc001zhf.3	-	4	1920	c.1920T>G	c.(1918-1920)AAT>AAG	p.N640K		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	863					actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		CCTTCTGCTGATTTGATGCCA	0.567													3	16					0	0	0.014758	0	0		C	33261313	C	C	33261313	3	2	52	1	0	0	0	0	1	0	0	0	5963	330	12	5	1726	5	FMN1	15	33261313	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	9449484	33261313	69270079	111	38732											
TGM5	9333	broad.mit.edu	37	chr15	43552469	43552469	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctgaacacagcccgagTccccaaggccaggtctggca	10	4	12	15	1	1	1	0	1	1	0	2	2	2	1	4	4	2	2	4	4	2	0			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr15:43552469T>A	uc001zrd.1	-	3	225	c.217A>T	c.(217-219)ACT>TCT	p.T73S	TGM5_uc001zre.1_Intron	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	73					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	ACAGCCCGAGTCCCCAAGGCC	0.642													7	26					0	0	0.038147	0	0		A	43552469	A	A	43552469	3	1	52	1	0	0	0	0	1	0	0	0	15858	1667	58	5	1989	5	TGM5	15	43552469	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	10291156	43552469	58978923	112	38733											
DUOX1	53905	broad.mit.edu	37	chr15	45428734	45428735	+	Missense_Mutation	DNP	GC	TT	TT																															cctatttccccaggataccgGccatttctggaccccagcat																								rs147597074		TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr15:45428734_45428735GC>TT	uc001zus.1	+	10	1279_1280	c.933_934GC>TT	c.(931-936)CGGCCA>CGTTCA	p.P312S	DUOX1_uc001zut.1_Missense_Mutation_p.P312S|DUOX1_uc010bee.1_5'UTR	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	312	Peroxidase-like; mediates peroxidase activity.|Extracellular (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		CAGGATACCGGCCATTTCTGGA	0.589													22	65					0	0	0.004672	0	0		TT	45428735	TT	TT	45428734	3	4	52	1	0	0	0	0	1	0	0	0	4806	1190	42	5	963	5	DUOX1	15	45428734	Missense_Mutation	DNP	GC	TCGA-BR-7717-01A-11D-2053-08	1876265	45428734	57102658	113	38734											
KIAA1024	23251	broad.mit.edu	37	chr15	79748518	79748518	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcaggaaacttccctctTcttggtgaagatcttggagg	9	12	11	9	0	4	2	1	1	3	1	5	4	5	4	1	4	1	0	1	4	2	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr15:79748518T>A	uc002bew.1	+	2	104	c.29T>A	c.(28-30)TTC>TAC	p.F10Y	KIAA1024_uc010unk.1_Missense_Mutation_p.F10Y	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	10						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						ACTTCCCTCTTCTTGGTGAAG	0.458													32	28					0	0	0.015359	0	0		A	79748518	A	A	79748518	3	1	52	1	0	0	0	0	1	0	0	0	8221	1783	62	5	31	5	KIAA1024	15	79748518	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	34319784	79748518	22782874	114	38735											
AKAP13	11214	broad.mit.edu	37	chr15	86225415	86225415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccttccacagtaccttcCacaataccagtgctaatctg	10	10	6	15	0	1	0	0	0	1	0	3	0	3	0	5	1	3	2	5	1	4	5			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr15:86225415C>T	uc002blv.1	+	15	5298	c.5128C>T	c.(5128-5130)CAC>TAC	p.H1710Y	AKAP13_uc002blt.1_Missense_Mutation_p.H1692Y|AKAP13_uc002blu.1_Missense_Mutation_p.H1714Y|AKAP13_uc010bnf.1_Missense_Mutation_p.H332Y|AKAP13_uc002blw.1_Missense_Mutation_p.H177Y|AKAP13_uc002blx.1_5'UTR|AKAP13_uc010bne.1_Missense_Mutation_p.H363Y	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1710					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CAGTACCTTCCACAATACCAG	0.328													13	58					0	0	0.038395	0	0		T	86225415	T	T	86225415	3	4	52	1	0	0	0	0	1	0	0	0	449	594	21	4	5252	4	AKAP13	15	86225415	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	6476897	86225415	16305977	115	38736											
WDR93	56964	broad.mit.edu	37	chr15	90281389	90281389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaaaaattgtaccattcCtcaaagggacttggataaca	16	10	6	9	0	2	0	2	0	0	0	3	2	3	2	2	2	2	1	2	2	6	5			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr15:90281389C>T	uc002boj.2	+	16	1984	c.1883C>T	c.(1882-1884)CCT>CTT	p.P628L	WDR93_uc010bnr.2_Missense_Mutation_p.P600L|WDR93_uc010upz.1_Missense_Mutation_p.P345L	NM_020212	NP_064597	Q6P2C0	WDR93_HUMAN	WD repeat domain 93	628					electron transport chain	mitochondrial inner membrane	oxidoreductase activity, acting on NADH or NADPH			ovary(2)	2	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			TGTACCATTCCTCAAAGGGAC	0.458													59	326					0	0	0.048971	0	0		T	90281389	T	T	90281389	3	4	52	1	0	0	0	0	1	0	0	0	17366	681	24	4	1941	4	WDR93	15	90281389	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	4055974	90281389	12250003	116	38737											
OR2C1	4993	broad.mit.edu	37	chr16	3406257	3406257	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagctctatgtcttcctttGgctgggggccaccgagtgca	5	11	12	13	1	2	0	0	0	2	0	3	1	3	0	4	3	2	3	4	3	1	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr16:3406257G>C	uc002cuw.1	+	1	369	c.317G>C	c.(316-318)TGG>TCG	p.W106S		NM_012368	NP_036500	O95371	OR2C1_HUMAN	olfactory receptor, family 2, subfamily C,	106	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTCTTCCTTTGGCTGGGGGCC	0.572													4	33					0	0	0.009096	0	0		C	3406257	C	C	3406257	3	2	52	1	0	0	0	0	1	0	0	0	11011	1357	47	5	319	5	OR2C1	16	3406257	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08		3406257	86948496	117	38738											
TRAP1	10131	broad.mit.edu	37	chr16	3714317	3714317	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcatagtagggtgagtgCtctgccaggtgacggttggg	6	10	17	8	1	2	2	1	2	1	0	2	2	2	2	2	4	2	3	2	4	2	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr16:3714317C>T	uc002cvt.3	-	13	1616	c.1527G>A	c.(1525-1527)GAG>GAA	p.E509E	TRAP1_uc002cvs.2_Silent_p.E300E|TRAP1_uc010uxf.1_Silent_p.E456E|uc002cvu.2_RNA	NM_016292	NP_057376	Q12931	TRAP1_HUMAN	TNF receptor-associated protein 1 precursor	509					cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)				AGGGTGAGTGCTCTGCCAGGT	0.647													3	16					0	0	0.004672	0	0		T	3714317	T	T	3714317	2	4	52	1	0	0	0	0	0	0	0	1	16481	796	28	2		2	TRAP1	16	3714317	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	308060	3714317	86640436	118	38739											
PRM1	5619	broad.mit.edu	37	chr16	11375074	11375074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgctccggctctggctgcGacagcatctgtacctggcca	5	10	11	15	2	3	0	0	0	3	0	4	1	4	0	3	3	4	5	3	3	1	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr16:11375074G>A	uc002dav.2	-	1	119	c.22C>T	c.(22-24)CGC>TGC	p.R8C	C16orf75_uc002daq.1_Intron	NM_002761	NP_002752	P04553	HSP1_HUMAN	protamine 1	8					chromosome condensation|multicellular organismal development	nucleoplasm|nucleosome	DNA binding				0						CTCTGGCTGCGACAGCATCTG	0.602													24	60					0	0	0.015359	0	0		A	11375074	A	A	11375074	3	1	52	1	0	0	0	0	1	0	0	0	12554	1058	37	1	141	1	PRM1	16	11375074	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	7660757	11375074	78979679	119	38740											
TMCO7	79613	broad.mit.edu	37	chr16	68893968	68893968	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aactctgtggatgtcacttgGagttttacctctcaaacctt	9	15	7	10	0	3	0	2	0	2	0	4	2	3	2	2	2	3	1	2	2	3	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr16:68893968G>T	uc002ewi.3	+	2	288	c.276G>T	c.(274-276)TGG>TGT	p.W92C	TMCO7_uc002ewh.2_Missense_Mutation_p.W92C	NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	92						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		ATGTCACTTGGAGTTTTACCT	0.433													27	57					3.65163e-15	3.91983e-15	0.030593	1	0		T	68893968	T	T	68893968	3	4	52	1	0	0	0	0	1	0	0	0	16026	1183	41	5	282	5	TMCO7	16	68893968	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	57518894	68893968	21460785	120	38741											
DDX19B	11269	broad.mit.edu	37	chr16	70351425	70351425	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagcttctccaaggagtctAtgccatgggtttcaatcgtc	9	12	9	11	1	3	0	1	0	2	0	6	1	3	1	2	2	2	2	2	2	3	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr16:70351425A>G	uc002eyo.2	+	5	452	c.323A>G	c.(322-324)TAT>TGT	p.Y108C	DDX19B_uc010vly.1_Missense_Mutation_p.Y108C|DDX19A_uc002eys.2_Intron|DDX19B_uc010vlv.1_Intron|DDX19B_uc010vlw.1_5'UTR|DDX19B_uc002eyp.2_Intron|DDX19B_uc002eyq.2_5'UTR|DDX19B_uc002eyr.2_Intron|DDX19B_uc010vlx.1_Intron|uc002eyt.2_Intron	NM_007242	NP_009173	Q9UMR2	DD19B_HUMAN	DEAD (Asp-Glu-Ala-As) box polypeptide 19 isoform	108	Q motif.				mRNA export from nucleus|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			kidney(1)	1		Ovarian(137;0.0694)				CAAGGAGTCTATGCCATGGGT	0.413													4	92					0	0	0.014758	0	0		G	70351425	G	G	70351425	3	3	52	1	0	0	0	0	1	0	0	0	4350	449	16	3	341	3	DDX19B	16	70351425	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	1457457	70351425	20003328	121	38742											
CNTNAP4	85445	broad.mit.edu	37	chr16	76555129	76555129	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagcgcggatgtatctttcTtttttaagacaacagcttca	10	16	7	8	2	3	1	1	0	2	1	3	2	3	2	0	1	3	2	0	1	4	7			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr16:76555129T>C	uc002feu.1	+	18	2843	c.2458T>C	c.(2458-2460)TTT>CTT	p.F820L	CNTNAP4_uc002fev.1_Missense_Mutation_p.F684L|CNTNAP4_uc010chb.1_Missense_Mutation_p.F747L|CNTNAP4_uc002fex.1_Missense_Mutation_p.F823L	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	820	Extracellular (Potential).|Laminin G-like 3.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TGTATCTTTCTTTTTTAAGAC	0.403													36	92					0	0	0.023175	0	0		C	76555129	C	C	76555129	3	2	52	1	0	0	0	0	1	0	0	0	3652	1609	56	3	2533	3	CNTNAP4	16	76555129	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	6203704	76555129	13799624	122	38743											
ADAMTS18	170692	broad.mit.edu	37	chr16	77327122	77327122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccttgcagaggagttcacGcttcctcacccctcgtccac	6	9	8	18	2	2	1	2	0	0	1	5	2	4	2	5	1	1	3	5	1	0	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr16:77327122G>A	uc002ffc.3	-	20	3459	c.3040C>T	c.(3040-3042)CGT>TGT	p.R1014C	ADAMTS18_uc010chc.1_Missense_Mutation_p.R602C	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1014	TSP type-1 3.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						AGGAGTTCACGCTTCCTCACC	0.512													11	79					0	0	0.024245	0	0		A	77327122	A	A	77327122	3	1	52	1	0	0	0	0	1	0	0	0	263	1087	38	1	641	1	ADAMTS18	16	77327122	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	771993	77327122	13027631	123	38744											
CCDC42	146849	broad.mit.edu	37	chr17	8647423	8647423	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctgcaccatagtttgatGcatgatttctgtctcctttt	6	19	6	10	0	3	2	0	2	3	0	4	2	3	2	2	0	2	3	2	0	1	6			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr17:8647423G>T	uc002gln.2	-	2	390	c.163C>A	c.(163-165)CAT>AAT	p.H55N	CCDC42_uc002glo.2_Missense_Mutation_p.H55N	NM_144681	NP_653282	Q96M95	CCD42_HUMAN	coiled-coil domain containing 42 isoform 1	55	Potential.									ovary(1)	1						ATAGTTTGATGCATGATTTCT	0.562													16	48					1.64113e-05	1.71327e-05	0.055883	1	0		T	8647423	T	T	8647423	3	4	52	1	0	0	0	0	1	0	0	0	2817	1319	46	5	811	5	CCDC42	17	8647423	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08		8647423	72547787	124	38745											
MYH13	8735	broad.mit.edu	37	chr17	10233733	10233733	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atcatcttcttgaactccacCcgcatcaggtaccccctgca	9	10	5	17	1	4	1	2	1	2	0	5	1	5	1	4	1	3	3	4	1	2	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr17:10233733C>G	uc002gmk.1	-	21	2496	c.2406G>C	c.(2404-2406)CGG>CGC	p.R802R		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	802	IQ.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TGAACTCCACCCGCATCAGGT	0.547													5	19					0	0	0.038147	0	0		G	10233733	G	G	10233733	2	3	52	1	0	0	0	0	0	0	0	1	10050	610	22	5		5	MYH13	17	10233733	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	1586310	10233733	70961477	125	38746											
MYH13	8735	broad.mit.edu	37	chr17	10258081	10258081	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggggaagtcgaaggggttGgtggagatcagaagcaggtc	12	6	19	4	1	1	2	1	0	0	2	3	5	1	3	0	7	1	2	0	7	4	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr17:10258081G>C	uc002gmk.1	-	11	1011	c.921C>G	c.(919-921)ACC>ACG	p.T307T		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	307	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						CGAAGGGGTTGGTGGAGATCA	0.468													5	96					0	0	0.021553	0	0		C	10258081	C	C	10258081	2	2	52	1	0	0	0	0	0	0	0	1	10050	1335	47	5		5	MYH13	17	10258081	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	24348	10258081	70937129	126	38747											
MYH1	4619	broad.mit.edu	37	chr17	10404711	10404711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accggcttcttccagcctctCgctgatctcctccagctccc	4	11	6	20	2	3	1	0	1	3	0	8	1	6	1	6	1	2	3	6	1	0	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr17:10404711C>T	uc002gmo.2	-	27	3548	c.3454G>A	c.(3454-3456)GAG>AAG	p.E1152K	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1152	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TCCAGCCTCTCGCTGATCTCC	0.617													16	108					0	0	0.0333	0	0		T	10404711	T	T	10404711	3	4	52	1	0	0	0	0	1	0	0	0	10047	893	31	1	2421	1	MYH1	17	10404711	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	146630	10404711	70790499	127	38748											
MAP2K3	5606	broad.mit.edu	37	chr17	21202209	21202209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccccccggaacctggacTcccggaccttcatcaccatt	8	7	7	19	2	2	0	2	0	0	0	3	4	3	3	7	3	1	0	7	3	1	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr17:21202209T>C	uc002gys.2	+	3	401	c.136T>C	c.(136-138)TCC>CCC	p.S46P	MAP2K3_uc002gyt.2_Missense_Mutation_p.S17P|MAP2K3_uc002gyu.2_Missense_Mutation_p.S17P	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	46					activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		GAACCTGGACTCCCGGACCTT	0.617													4	74					0	0	0.02938	0	0		C	21202209	C	C	21202209	3	2	52	1	0	0	0	0	1	0	0	0	9256	1551	54	3	146	3	MAP2K3	17	21202209	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	10797498	21202209	59993001	128	38749											
EFTUD2	9343	broad.mit.edu	37	chr17	42929086	42929086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggagacataccttcctacGgcgggttttgatcatgaatt	10	12	11	8	2	1	3	1	2	0	1	2	4	2	3	2	3	2	1	2	3	3	6			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr17:42929086G>A	uc002ihn.2	-	27	3076	c.2815C>T	c.(2815-2817)CGT>TGT	p.R939C	EFTUD2_uc010wje.1_Missense_Mutation_p.R904C|EFTUD2_uc010wjf.1_Missense_Mutation_p.R929C	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	939						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				ACCTTCCTACGGCGGGTTTTG	0.562													11	3					0	0	0.010729	0	0		A	42929086	A	A	42929086	3	1	52	1	0	0	0	0	1	0	0	0	4967	1116	39	1	111	1	EFTUD2	17	42929086	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	21726877	42929086	38266124	129	38750											
TBKBP1	9755	broad.mit.edu	37	chr17	45773677	45773677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagaacgccaccctccgaCgccgcctcaaagtctacgag	10	4	11	16	5	2	1	1	0	1	1	3	4	3	1	5	1	2	0	5	1	3	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr17:45773677C>T	uc002ilu.2	+	1	1048	c.199C>T	c.(199-201)CGC>TGC	p.R67C		NM_014726	NP_055541	A7MCY6	TBKB1_HUMAN	TBK1 binding protein 1	67	Potential.				innate immune response						0						CACCCTCCGACGCCGCCTCAA	0.602													40	32					0	0	0.042209	0	0		T	45773677	T	T	45773677	3	4	52	1	0	0	0	0	1	0	0	0	15663	536	19	1	201	1	TBKBP1	17	45773677	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	2844591	45773677	35421533	130	38751											
TEX14	56155	broad.mit.edu	37	chr17	56651574	56651574	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctttcagttcctttggTgactcctttgatgtctcttc	3	21	6	11	0	3	2	1	2	2	0	8	2	5	2	2	1	0	1	2	1	0	6			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr17:56651574T>C	uc010dcz.1	-	23	3613	c.3495A>G	c.(3493-3495)TCA>TCG	p.S1165S	TEX14_uc002iwr.1_Silent_p.S1159S|TEX14_uc002iws.1_Silent_p.S1119S|TEX14_uc010dda.1_Silent_p.S899S	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	1165						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GTTCCTTTGGTGACTCCTTTG	0.358													15	34					0	0	0.038395	0	0		C	56651574	C	C	56651574	2	2	52	1	0	0	0	0	0	0	0	1	15803	1683	59	3		3	TEX14	17	56651574	Silent	SNP	T	TCGA-BR-7717-01A-11D-2053-08	10877897	56651574	24543636	131	38752											
ENGASE	64772	broad.mit.edu	37	chr17	77082221	77082221	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggatgagtgatgactctccGggcagggagctgccgaggcc	7	6	18	10	2	1	3	0	3	1	0	2	6	1	5	3	4	2	2	3	4	0	0			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr17:77082221G>A	uc002jwv.2	+	14	2030	c.2022G>A	c.(2020-2022)CCG>CCA	p.P674P	ENGASE_uc002jww.2_Silent_p.P379P	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	674						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						ATGACTCTCCGGGCAGGGAGC	0.632													22	92					0	0	0.01892	0	0		A	77082221	A	A	77082221	2	1	52	1	0	0	0	0	0	0	0	1	5126	1103	39	1		1	ENGASE	17	77082221	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	20430647	77082221	4112989	132	38753											
DSG3	1830	broad.mit.edu	37	chr18	29038467	29038467	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaatctctggagtgggaatCgatcagccgccttttggaat	9	11	12	9	3	2	0	1	0	1	0	4	5	2	3	2	3	1	0	2	3	3	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr18:29038467C>A	uc002kws.2	+	4	385	c.276C>A	c.(274-276)ATC>ATA	p.I92I		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	92	Extracellular (Potential).|Cadherin 1.				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GAGTGGGAATCGATCAGCCGC	0.438													21	31					7.33628e-21	7.91984e-21	0.014323	1	0		A	29038467	A	A	29038467	2	1	52	1	0	0	0	0	0	0	0	1	4784	874	31	5		5	DSG3	18	29038467	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08		29038467	49038781	133	38754											
CNDP2	55748	broad.mit.edu	37	chr18	72168606	72168606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccagagtgtgtctgcgtggCcggagaagagaggcgaaatc	10	7	16	8	3	1	3	0	0	1	3	3	6	2	3	2	3	1	0	2	3	2	0			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr18:72168606C>T	uc002llm.1	+	3	265	c.103C>T	c.(103-105)CCG>TCG	p.P35S	CNDP2_uc002lln.1_Missense_Mutation_p.P35S|CNDP2_uc002llo.2_Missense_Mutation_p.P35S	NM_018235	NP_060705	Q96KP4	CNDP2_HUMAN	CNDP dipeptidase 2	35						cytoplasm	carboxypeptidase activity|metal ion binding|metallopeptidase activity|protein binding|tripeptidase activity			ovary(2)|skin(1)	3		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.22)		GTCTGCGTGGCCGGAGAAGAG	0.502													8	47					0	0	0.038147	0	0		T	72168606	T	T	72168606	3	4	52	1	0	0	0	0	1	0	0	0	3597	739	26	2	109	2	CNDP2	18	72168606	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	43130139	72168606	5908642	134	38755											
MUC16	94025	broad.mit.edu	37	chr19	9058529	9058529	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacaacttcatcggagatGtctagtgacattgtggactg	10	12	12	7	1	2	3	1	2	1	1	3	5	2	4	0	2	1	0	0	2	2	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr19:9058529G>A	uc002mkp.2	-	3	29121	c.28917C>T	c.(28915-28917)GAC>GAT	p.D9639D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9641	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CATCGGAGATGTCTAGTGACA	0.502													17	59					0	0	0.038395	0	0		A	9058529	A	A	9058529	2	1	52	1	0	0	0	0	0	0	0	1	9991	1368	48	4		4	MUC16	19	9058529	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08		9058529	50070454	135	38756											
NWD1	284434	broad.mit.edu	37	chr19	16872810	16872810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctggtcgaggtggtccGtgagcgctacctgtcaggat	7	9	15	10	3	1	1	1	1	0	0	3	3	2	2	2	4	3	2	2	4	1	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr19:16872810G>A	uc002neu.3	+	8	2416	c.1994G>A	c.(1993-1995)CGT>CAT	p.R665H	NWD1_uc002net.3_Missense_Mutation_p.R530H|NWD1_uc002nev.3_Missense_Mutation_p.R459H			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	665							ATP binding			skin(3)|ovary(2)|pancreas(2)	7						GAGGTGGTCCGTGAGCGCTAC	0.572													20	38					0	0	0.016522	0	0		A	16872810	A	A	16872810	3	1	52	1	0	0	0	0	1	0	0	0	10800	1145	40	1	1603	1	NWD1	19	16872810	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	7814281	16872810	42256173	136	38757											
CPAMD8	27151	broad.mit.edu	37	chr19	17088219	17088219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactgcaaactgaaggctgtCggcgaccccttctccattct	8	10	9	14	2	2	1	0	1	2	0	4	3	2	1	3	2	2	2	3	2	2	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr19:17088219C>T	uc002nfb.2	-	15	1890	c.1858G>A	c.(1858-1860)GAC>AAC	p.D620N		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	573						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						TGAAGGCTGTCGGCGACCCCT	0.597													53	40					0	0	0.048971	0	0		T	17088219	T	T	17088219	3	4	52	1	0	0	0	0	1	0	0	0	3798	884	31	1	4052	1	CPAMD8	19	17088219	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	215409	17088219	42040764	137	38758											
FCGBP	8857	broad.mit.edu	37	chr19	40419757	40419757	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgggggtccagcttgctAtggcactcccggaagggccc	5	7	14	15	1	0	0	0	0	0	0	2	1	2	1	4	5	2	3	4	5	2	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr19:40419757A>C	uc002omp.3	-	6	3245	c.3237T>G	c.(3235-3237)CAT>CAG	p.H1079Q		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	1079	VWFD 2.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CCAGCTTGCTATGGCACTCCC	0.642													16	111					0	0	0.049695	0	0		C	40419757	C	C	40419757	3	2	52	1	0	0	0	0	1	0	0	0	5792	446	16	5	13104	5	FCGBP	19	40419757	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08	23331538	40419757	18709226	138	38759											
PRX	57716	broad.mit.edu	37	chr19	40900837	40900837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggaggcatcctcagccccGcgtcatggccctcagtgacc	6	6	12	17	3	3	1	3	1	0	0	4	2	4	2	5	3	1	1	5	3	0	0			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr19:40900837G>A	uc002onr.2	-	7	3691	c.3422C>T	c.(3421-3423)GCG>GTG	p.A1141V	PRX_uc002onq.2_Missense_Mutation_p.A1002V|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	1141	Glu-rich (acidic).				axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCTCAGCCCCGCGTCATGGCC	0.667													7	35					0	0	0.02938	0	0		A	40900837	A	A	40900837	3	1	52	1	0	0	0	0	1	0	0	0	12664	1087	38	1	967	1	PRX	19	40900837	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	481080	40900837	18228146	139	38760											
ZNF114	163071	broad.mit.edu	37	chr19	48789445	48789445	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacattcagtgggttccGtgtgggagaaaaacagagct	12	9	14	6	1	1	2	1	0	0	2	2	4	2	3	1	3	3	2	1	3	3	2	rs151202823	byFrequency	TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr19:48789445G>A	uc002pil.1	+	6	1061	c.564G>A	c.(562-564)CCG>CCA	p.P188P	ZNF114_uc010elv.1_Silent_p.P188P|ZNF114_uc002pim.1_Silent_p.P188P|ZNF114_uc002pin.2_Silent_p.P154P	NM_153608	NP_705836	Q8NC26	ZN114_HUMAN	zinc finger protein 114	188					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_epithelial(76;8.01e-05)|all_lung(116;0.000112)|Lung NSC(112;0.000192)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;7.56e-05)|all cancers(93;0.000113)|Epithelial(262;0.00962)|GBM - Glioblastoma multiforme(486;0.0153)		AGTGGGTTCCGTGTGGGAGAA	0.438													34	31					0	0	0.030466	0	0		A	48789445	A	A	48789445	2	1	52	1	0	0	0	0	0	0	0	1	17741	1132	40	1		1	ZNF114	19	48789445	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	7888608	48789445	10339538	140	38761											
PEG3	5178	broad.mit.edu	37	chr19	57328018	57328018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgctcacgttcacgttcacGttcatgttcacgctcattat	7	14	7	13	5	6	0	6	0	0	0	6	0	6	0	0	0	0	6	0	0	1	5	rs138383423		TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr19:57328018G>A	uc002qnu.2	-	7	2143	c.1792C>T	c.(1792-1794)CGT>TGT	p.R598C	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.R569C|PEG3_uc002qnv.2_Missense_Mutation_p.R598C|PEG3_uc002qnw.2_Missense_Mutation_p.R474C|PEG3_uc002qnx.2_Missense_Mutation_p.R472C|PEG3_uc010etr.2_Missense_Mutation_p.R598C	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	598					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		tcacgttcacgttcatgttca	0.378													8	34					0	0	0.038147	0	0		A	57328018	A	A	57328018	3	1	52	1	0	0	0	0	1	0	0	0	11739	1145	40	1	2978	1	PEG3	19	57328018	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	8538573	57328018	1800965	141	38762											
SLC4A11	83959	broad.mit.edu	37	chr20	3210393	3210393	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgtgtgatagtcgtccaAgtaatgcccatagtagtact	10	15	9	7	1	0	1	0	1	0	0	2	1	1	1	2	0	2	3	2	0	6	7			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr20:3210393A>C	uc002wig.2	-	13	1615	c.1567T>G	c.(1567-1569)TTG>GTG	p.L523V	SLC4A11_uc010zqe.1_Missense_Mutation_p.L550V|SLC4A11_uc002wih.2_Intron|SLC4A11_uc010zqf.1_Missense_Mutation_p.L507V	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	523	Extracellular (Potential).|Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						TAGTCGTCCAAGTAATGCCCA	0.597													7	126					0	0	0.038147	0	0		C	3210393	C	C	3210393	3	2	52	1	0	0	0	0	1	0	0	0	14677	69	3	5	1136	5	SLC4A11	20	3210393	Missense_Mutation	SNP	A	TCGA-BR-7717-01A-11D-2053-08		3210393	59815127	142	38763											
RRBP1	6238	broad.mit.edu	37	chr20	17601012	17601012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagatgcttcactgtgacccGggactacaaagcaaggggaa	13	6	13	9	1	1	2	1	1	0	1	1	5	1	4	1	3	3	2	1	3	4	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr20:17601012G>A	uc002wpv.1	-	19	2566	c.2212C>T	c.(2212-2214)CGG>TGG	p.R738W	RRBP1_uc010zrp.1_5'Flank|RRBP1_uc002wpt.1_Missense_Mutation_p.R108W|RRBP1_uc002wpu.2_Missense_Mutation_p.R512W|RRBP1_uc002wpw.1_Missense_Mutation_p.R738W|RRBP1_uc010gcl.1_Missense_Mutation_p.R512W|RRBP1_uc010gcm.1_3'UTR	NM_001042576	NP_001036041	Q9P2E9	RRBP1_HUMAN	ribosome binding protein 1	1171	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						ACTGTGACCCGGGACTACAAA	0.537													23	116					0	0	0.016522	0	0		A	17601012	A	A	17601012	3	1	52	1	0	0	0	0	1	0	0	0	13703	1115	39	1	753	1	RRBP1	20	17601012	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	14390619	17601012	45424508	143	38764											
DNMT3B	1789	broad.mit.edu	37	chr20	31385049	31385049	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggctatcagtcttactgCactgtgtgctgcgagggccg	6	11	14	10	2	2	0	1	0	1	0	2	2	2	0	1	2	4	3	1	2	2	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr20:31385049C>A	uc002wyc.2	+	14	1755	c.1434C>A	c.(1432-1434)TGC>TGA	p.C478*	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Nonsense_Mutation_p.C458*|DNMT3B_uc002wye.2_Nonsense_Mutation_p.C458*|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Nonsense_Mutation_p.C416*|DNMT3B_uc010zua.1_Nonsense_Mutation_p.C382*|DNMT3B_uc002wyf.2_Nonsense_Mutation_p.C470*|DNMT3B_uc002wyg.2_Nonsense_Mutation_p.C177*	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	478	PHD-type; atypical.|Interaction with the PRC2/EED-EZH2 complex (By similarity).|ADD.				negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						AGTCTTACTGCACTGTGTGCT	0.572													4	194					0.000602214	0.000621852	0.014758	1	0		A	31385049	A	A	31385049	4	1	52	1	0	0	0	0	0	1	0	0	4683	718	25	5	1524	5	DNMT3B	20	31385049	Nonsense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	13784037	31385049	31640471	144	38765											
EIF2S2	8894	broad.mit.edu	37	chr20	32677677	32677677	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttctgcaggattgtgtcCggtgatcggcatgtgtgaca	6	13	13	9	2	1	2	0	2	1	0	4	3	3	3	2	3	1	2	2	3	0	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr20:32677677C>T	uc002xaf.2	-	9	1030	c.861G>A	c.(859-861)CCG>CCA	p.P287P	EIF2S2_uc002xag.2_Silent_p.P284P|EIF2S2_uc010ges.2_Silent_p.P227P	NM_003908	NP_003899	P20042	IF2B_HUMAN	eukaryotic translation initiation factor 2 beta	287	C4-type (Potential).					cytosol|eukaryotic translation initiation factor 2 complex	metal ion binding|protein binding|translation initiation factor activity			large_intestine(1)	1						GGATTGTGTCCGGTGATCGGC	0.468													36	129					0	0	0.042209	0	0		T	32677677	T	T	32677677	2	4	52	1	0	0	0	0	0	0	0	1	5016	639	23	1		1	EIF2S2	20	32677677	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	1292628	32677677	30347843	145	38766											
ITCH	83737	broad.mit.edu	37	chr20	33068998	33068998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtaacagaagaaaataaaGaggaatacatcaggtgagag	20	7	11	3	0	1	4	1	1	0	4	1	6	1	5	0	2	2	1	0	2	8	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr20:33068998G>A	uc010geu.1	+	21	2395	c.2203G>A	c.(2203-2205)GAG>AAG	p.E735K	ITCH_uc002xak.2_Missense_Mutation_p.E694K|ITCH_uc010zuj.1_Missense_Mutation_p.E584K	NM_031483	NP_113671	Q96J02	ITCH_HUMAN	itchy homolog E3 ubiquitin protein ligase	735	HECT.				apoptosis|entry of virus into host cell|inflammatory response|innate immune response|negative regulation of apoptosis|negative regulation of defense response to virus|negative regulation of JNK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cell growth|regulation of protein deubiquitination|response to virus	cytosol|nucleus|plasma membrane	CXCR chemokine receptor binding|ribonucleoprotein binding|ubiquitin-protein ligase activity			breast(4)|lung(1)|central_nervous_system(1)	6						AGAAAATAAAGAGGAATACAT	0.348													18	97					0	0	0.014323	0	0		A	33068998	A	A	33068998	3	1	52	1	0	0	0	0	1	0	0	0	7884	943	33	4	2150	4	ITCH	20	33068998	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	391321	33068998	29956522	146	38767											
DDX27	55661	broad.mit.edu	37	chr20	47838054	47838054	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagtgctgatttcaacccTgatttcgttttcactgagaa	9	14	8	10	2	2	3	2	3	0	1	3	4	2	3	1	0	2	3	1	0	2	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr20:47838054T>C	uc002xuh.2	+	2	313	c.252T>C	c.(250-252)CCT>CCC	p.P84P		NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	84	Asp/Glu/Lys-rich.					nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			ATTTCAACCCTGATTTCGTTT	0.532													3	73					0	0	0.009096	0	0		C	47838054	C	C	47838054	2	2	52	1	0	0	0	0	0	0	0	1	4357	1567	55	3		3	DDX27	20	47838054	Silent	SNP	T	TCGA-BR-7717-01A-11D-2053-08	14769056	47838054	15187466	147	38768											
MC3R	4159	broad.mit.edu	37	chr20	54823941	54823941	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctgttcagccaacactGcctaatggctcggagcacct	8	9	8	16	1	2	0	1	0	1	0	3	1	2	1	4	2	4	3	4	2	2	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr20:54823941G>T	uc002xxb.2	+	1	154	c.42G>T	c.(40-42)CTG>CTT	p.L14L		NM_019888	NP_063941	P41968	MC3R_HUMAN	melanocortin 3 receptor	51	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|protein binding			ovary(2)|breast(2)	4			Colorectal(105;0.202)			AGCCAACACTGCCTAATGGCT	0.587													5	193					0.00116845	0.00120003	0.021553	1	0		T	54823941	T	T	54823941	2	4	52	1	0	0	0	0	0	0	0	1	9383	1306	46	5		5	MC3R	20	54823941	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	6985887	54823941	8201579	148	38769											
C20orf43	51507	broad.mit.edu	37	chr20	55059238	55059238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagataaaagcggaagtttGccacacggtgagttcctgac	13	8	12	8	2	0	3	0	2	0	1	1	5	1	4	2	2	2	2	2	2	3	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr20:55059238G>A	uc002xxt.2	+	5	577	c.470G>A	c.(469-471)TGC>TAC	p.C157Y	C20orf43_uc010zzf.1_Missense_Mutation_p.C187Y|C20orf43_uc002xxu.2_Missense_Mutation_p.C157Y|C20orf43_uc002xxv.2_Missense_Mutation_p.C157Y	NM_016407	NP_057491	Q9BY42	CT043_HUMAN	hypothetical protein LOC51507	157										ovary(1)	1			Colorectal(105;0.202)			GCGGAAGTTTGCCACACGGTG	0.478													47	101					0	0	0.048971	0	0		A	55059238	A	A	55059238	3	1	52	1	0	0	0	0	1	0	0	0	2115	1319	46	2	488	2	C20orf43	20	55059238	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	235297	55059238	7966282	149	38770											
BMP7	655	broad.mit.edu	37	chr20	55746147	55746147	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcttgggcaccgtttcCgggttgatgaagtggacctg	6	10	16	9	2	0	2	0	2	0	0	1	3	1	3	3	4	0	4	3	4	1	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr20:55746147C>T	uc010gip.1	-	7	1693	c.1164G>A	c.(1162-1164)CCG>CCA	p.P388P	BMP7_uc010giq.1_Silent_p.P322P	NM_001719	NP_001710	P18075	BMP7_HUMAN	bone morphogenetic protein 7 precursor	388					BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)			GCACCGTTTCCGGGTTGATGA	0.517													16	83					0	0	0.055883	0	0		T	55746147	T	T	55746147	2	4	52	1	0	0	0	0	0	0	0	1	1466	639	23	1		1	BMP7	20	55746147	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	686909	55746147	7279373	150	38771											
TPTE	7179	broad.mit.edu	37	chr21	10971337	10971337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgactcccgccaggtcagtcGgatcaggactaaaggacaaa	13	6	11	11	2	2	1	2	1	0	0	4	4	3	4	2	4	0	0	2	4	3	1	rs149877959	byFrequency	TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr21:10971337G>A	uc002yip.1	-	5	388	c.20C>T	c.(19-21)CCG>CTG	p.P7L	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.P7L|TPTE_uc002yir.1_Missense_Mutation_p.P7L|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	7					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CAGGTCAGTCGGATCAGGACT	0.373													6	53					0	0	0.038147	0	0		A	10971337	A	A	10971337	3	1	52	1	0	0	0	0	1	0	0	0	16456	1116	39	1	1715	1	TPTE	21	10971337	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08		10971337	37158558	151	38772											
PDE9A	5152	broad.mit.edu	37	chr21	44179168	44179168	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctggtcagggacttcagcatCaaccctgtcaccctcaggag	9	8	10	14	0	5	0	5	0	0	0	5	2	5	2	2	3	2	1	2	3	1	1			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr21:44179168C>G	uc002zbm.2	+	11	933	c.870C>G	c.(868-870)ATC>ATG	p.I290M	PDE9A_uc002zbn.2_Missense_Mutation_p.I163M|PDE9A_uc002zbo.2_Missense_Mutation_p.I237M|PDE9A_uc002zbp.2_Missense_Mutation_p.I83M|PDE9A_uc002zbq.2_Missense_Mutation_p.I188M|PDE9A_uc002zbs.2_Missense_Mutation_p.I83M|PDE9A_uc002zbr.2_Missense_Mutation_p.I83M|PDE9A_uc002zbt.2_Missense_Mutation_p.I162M|PDE9A_uc002zbu.2_Missense_Mutation_p.I156M|PDE9A_uc002zbv.2_Missense_Mutation_p.I130M|PDE9A_uc002zbw.2_Missense_Mutation_p.I73M|PDE9A_uc002zbx.2_Missense_Mutation_p.I230M|PDE9A_uc002zby.2_Missense_Mutation_p.I73M|PDE9A_uc002zbz.2_Missense_Mutation_p.I182M|PDE9A_uc002zca.2_Missense_Mutation_p.I249M|PDE9A_uc002zcb.2_Missense_Mutation_p.I264M|PDE9A_uc002zcc.2_Missense_Mutation_p.I189M|PDE9A_uc002zcd.2_Missense_Mutation_p.I204M|PDE9A_uc002zce.2_Missense_Mutation_p.I223M|PDE9A_uc002zcf.2_Missense_Mutation_p.I83M|PDE9A_uc002zcg.2_Missense_Mutation_p.I83M|PDE9A_uc002zch.2_Missense_Mutation_p.I73M|PDE9A_uc010gpf.1_Missense_Mutation_p.I83M	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a	290	Catalytic (By similarity).				platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						ACTTCAGCATCAACCCTGTCA	0.587													15	36					0	0	0.049695	0	0		G	44179168	G	G	44179168	3	3	52	1	0	0	0	0	1	0	0	0	11674	816	29	5	992	5	PDE9A	21	44179168	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	33207831	44179168	3950727	152	38773											
BCR	613	broad.mit.edu	37	chr22	23632583	23632583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	catcgtccactcagccactgGatttaagcagagttcaagta	12	10	8	11	1	2	1	2	0	0	1	4	2	3	2	2	1	2	3	2	1	3	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr22:23632583G>A	uc002zww.2	+	14	3361	c.2765G>A	c.(2764-2766)GGA>GAA	p.G922E	BCR_uc002zwx.2_Missense_Mutation_p.G922E|BCR_uc011aiy.1_Missense_Mutation_p.G511E|BCR_uc002zwy.1_3'UTR	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	922	C2.				regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						TCAGCCACTGGATTTAAGCAG	0.562			T	ABL1| FGFR1|JAK2 	CML|ALL|AML						OREG0026390	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	221					0	0	0.038147	0	0		A	23632583	A	A	23632583	3	1	52	1	0	0	0	0	1	0	0	0	1389	1174	41	4	2819	4	BCR	22	23632583	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08		23632583	27671983	153	38774											
ISX	91464	broad.mit.edu	37	chr22	35481614	35481614	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcttcccatccatcaaacTtgcatccctgtgctatgcat	8	13	6	14	0	2	0	1	0	1	0	5	0	5	0	3	1	4	3	3	1	2	3			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr22:35481614T>G	uc003anj.2	+	4	1617	c.666T>G	c.(664-666)ACT>ACG	p.T222T	ISX_uc011amg.1_Silent_p.T210T	NM_001008494	NP_001008494	Q2M1V0	ISX_HUMAN	intestine-specific homeobox	222						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)	5						TCCATCAAACTTGCATCCCTG	0.557													36	105					0	0	0.033182	0	0		G	35481614	G	G	35481614	2	3	52	1	0	0	0	0	0	0	0	1	7881	1596	56	5		5	ISX	22	35481614	Silent	SNP	T	TCGA-BR-7717-01A-11D-2053-08	11849031	35481614	15822952	154	38775											
SEPT3	55964	broad.mit.edu	37	chr22	42383244	42383244	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtcaaaatgaagctgacCgtcatcgacaccccaggctt	11	8	10	12	2	2	2	2	2	0	0	3	3	2	2	3	2	1	2	3	2	3	1	rs77263193	byFrequency	TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr22:42383244C>T	uc003bbr.3	+	4	504	c.366C>T	c.(364-366)ACC>ACT	p.T122T	WBP2NL_uc011ape.1_Intron|SEPT3_uc003bbs.3_Silent_p.T122T|SEPT3_uc010gyr.2_Silent_p.T58T|SEPT3_uc011apj.1_Silent_p.T58T|SEPT3_uc010gys.2_Intron	NM_145733	NP_663786	Q9UH03	SEPT3_HUMAN	septin 3 isoform A	122					cell cycle|cytokinesis	cell junction|septin complex	GTP binding				0						TGAAGCTGACCGTCATCGACA	0.502													16	47					0	0	0.012319	0	0		T	42383244	T	T	42383244	2	4	52	1	0	0	0	0	0	0	0	1	14090	639	23	1		1	SEPT3	22	42383244	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	6901630	42383244	8921322	155	38776											
SCUBE1	80274	broad.mit.edu	37	chr22	43610151	43610151	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaagcccgtcgctgctgggGcacggtgtgcaactgagctg	6	7	15	13	3	0	1	0	1	0	0	1	1	0	1	2	3	5	5	2	3	2	0			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chr22:43610151G>A	uc003bdt.1	-	16	2086	c.1998C>T	c.(1996-1998)TGC>TGT	p.C666C		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	666					adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				CGCTGCTGGGGCACGGTGTGC	0.652													10	38					0	0	0.010729	0	0		A	43610151	A	A	43610151	2	1	52	1	0	0	0	0	0	0	0	1	13969	1195	42	2		2	SCUBE1	22	43610151	Silent	SNP	G	TCGA-BR-7717-01A-11D-2053-08	1226907	43610151	7694415	156	38777											
MSL3	10943	broad.mit.edu	37	chrX	11786716	11786716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctgtgcatagcagatcatCttcacctattcctctgactc	9	13	5	14	0	4	2	2	1	2	1	6	2	5	2	3	0	2	2	3	0	2	4			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chrX:11786716C>T	uc004cuw.2	+	10	1301	c.1196C>T	c.(1195-1197)TCT>TTT	p.S399F	MSL3_uc004cux.2_Missense_Mutation_p.S340F|MSL3_uc011mig.1_Missense_Mutation_p.S250F|MSL3_uc011mih.1_Missense_Mutation_p.S387F|MSL3_uc004cuy.2_Missense_Mutation_p.S233F	NM_078629	NP_523353	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	399					histone H4-K16 acetylation|multicellular organismal development|transcription from RNA polymerase II promoter	MSL complex	DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGCAGATCATCTTCACCTATT	0.398													20	34					0	0	0.012319	0	0		T	11786716	T	T	11786716	3	4	52	1	0	0	0	0	1	0	0	0	9897	913	32	4	1314	4	MSL3	23	11786716	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08		11786716	143483844	157	38778											
KDM6A	7403	broad.mit.edu	37	chrX	44922785	44922785	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccacagcttgctctgaccaGagtgcctagcgtctctcagc	7	9	10	15	1	3	2	1	1	2	1	4	2	3	2	3	0	5	2	3	0	1	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chrX:44922785G>C	uc004dge.3	+	16	2021	c.1646G>C	c.(1645-1647)AGA>ACA	p.R549T	KDM6A_uc010nhk.2_Missense_Mutation_p.R515T|KDM6A_uc011mkz.1_Missense_Mutation_p.R601T|KDM6A_uc011mla.1_Missense_Mutation_p.R504T|KDM6A_uc011mlb.1_Missense_Mutation_p.R556T|KDM6A_uc011mlc.1_Missense_Mutation_p.R253T|KDM6A_uc011mld.1_Missense_Mutation_p.R188T	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	549					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						GCTCTGACCAGAGTGCCTAGC	0.567			D|N|F|S		renal|oesophageal SCC|MM								4	31					0	0	0.009096	0	0		C	44922785	C	C	44922785	3	2	52	1	0	0	0	0	1	0	0	0	8153	942	33	5	1708	5	KDM6A	23	44922785	Missense_Mutation	SNP	G	TCGA-BR-7717-01A-11D-2053-08	33136069	44922785	110347775	158	38779											
STARD8	9754	broad.mit.edu	37	chrX	67941951	67941951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctgagtgacaacatggCagccacccagggcctgtcgc	9	5	13	14	1	0	2	0	2	0	0	1	3	0	3	4	3	2	1	4	3	1	0			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chrX:67941951C>T	uc004dxa.2	+	10	2654	c.2282C>T	c.(2281-2283)GCA>GTA	p.A761V	STARD8_uc004dxb.2_Missense_Mutation_p.A841V|STARD8_uc004dxc.3_Missense_Mutation_p.A761V	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	761	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						GACAACATGGCAGCCACCCAG	0.572													6	16					0	0	0.038147	0	0		T	67941951	T	T	67941951	3	4	52	1	0	0	0	0	1	0	0	0	15288	710	25	2	2564	2	STARD8	23	67941951	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	23019166	67941951	87328609	159	38780											
PJA1	64219	broad.mit.edu	37	chrX	68382337	68382338	+	Nonsense_Mutation	DNP	TT	AA	AA																															cacaggttcctctgcactctTtgaggtgttttccccaccac																										TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chrX:68382337_68382338TT>AA	uc004dxh.2	-	2	1030_1031	c.744_745AA>TT	c.(742-747)TCAAAG>TCTTAG	p.K249*	PJA1_uc011mpi.1_5'UTR|PJA1_uc004dxg.2_Intron|PJA1_uc004dxi.2_Nonsense_Mutation_p.K194*	NM_145119	NP_660095	Q8NG27	PJA1_HUMAN	praja 1 isoform a	249							zinc ion binding				0						TCTGCACTCTTTGAGGTGTTTT	0.48													18	14					0	0	0.004672	0	0		AA	68382338	AA	AA	68382337	4	1	52	1	0	0	0	0	0	1	0	0	11980	1850	64	5	1190	5	PJA1	23	68382337	Nonsense_Mutation	DNP	TT	TCGA-BR-7717-01A-11D-2053-08	440386	68382337	86888223	160	38781											
CPXCR1	53336	broad.mit.edu	37	chrX	88009038	88009038	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcactactaccgtccccTcactgagagaatgacatcag	11	8	9	13	1	2	3	2	2	0	1	3	4	3	3	3	1	3	1	3	1	3	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chrX:88009038T>A	uc004efd.3	+	3	882	c.623T>A	c.(622-624)CTC>CAC	p.L208H	CPXCR1_uc004efc.3_Missense_Mutation_p.L208H	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	208						intracellular	zinc ion binding			ovary(3)	3						TACCGTCCCCTCACTGAGAGA	0.428													4	10					0	0	0.014758	0	0		A	88009038	A	A	88009038	3	1	52	1	0	0	0	0	1	0	0	0	3839	1551	54	5	625	5	CPXCR1	23	88009038	Missense_Mutation	SNP	T	TCGA-BR-7717-01A-11D-2053-08	19626701	88009038	67261522	161	38782											
GPR101	83550	broad.mit.edu	37	chrX	136113611	136113611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctgcagcaggtcggtgaCgaggaggttaaagataaaac	15	7	13	6	2	1	2	0	1	1	1	2	4	1	3	0	4	3	3	0	4	5	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chrX:136113611C>T	uc011mwh.1	-	1	223	c.223G>A	c.(223-225)GTC>ATC	p.V75I		NM_054021	NP_473362	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	75	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					AGGTCGGTGACGAGGAGGTTA	0.617													14	16					0	0	0.024245	0	0		T	136113611	T	T	136113611	3	4	52	1	0	0	0	0	1	0	0	0	6637	536	19	1	1306	1	GPR101	23	136113611	Missense_Mutation	SNP	C	TCGA-BR-7717-01A-11D-2053-08	48104573	136113611	19156949	162	38783											
BGN	633	broad.mit.edu	37	chrX	152773819	152773819	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagcctcttcaacaacccCgtgccctactgggaggtgca	9	8	9	15	1	3	0	2	0	1	0	3	1	3	1	4	2	6	1	4	2	3	2			TCGA-BR-7717-01A-11D-2053-08	TCGA-BR-7717-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	67d6a830-41d5-46d2-9503-58ec158c29a7	2c0e3e8e-e528-4796-b350-c68da301b6d9	g.chrX:152773819C>T	uc004fhr.1	+	8	1195	c.1023C>T	c.(1021-1023)CCC>CCT	p.P341P	BGN_uc004fhq.1_RNA	NM_001711	NP_001702	P21810	PGS1_HUMAN	biglycan preproprotein	341	LRR 11.					proteinaceous extracellular matrix|transport vesicle	extracellular matrix structural constituent			breast(2)	2	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TCAACAACCCCGTGCCCTACT	0.582													32	33					0	0	0.019004	0	0		T	152773819	T	T	152773819	2	4	52	1	0	0	0	0	0	0	0	1	1419	639	23	1		1	BGN	23	152773819	Silent	SNP	C	TCGA-BR-7717-01A-11D-2053-08	16660208	152773819	2496741	163	38784											
ARID1A	8289	broad.mit.edu	37	chr1	27100199	27100200	+	Frame_Shift_Ins	INS	-	G	G																															ccgcagcagcagcagcagcaINSgcagcaacggtgagtaaagc																										TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr1:27100199_27100200insG	uc001bmv.1	+	16	4368_4369	c.3995_3996insG	c.(3994-3996)CAGfs	p.Q1332fs	ARID1A_uc001bmt.1_Frame_Shift_Ins_p.Q1331fs|ARID1A_uc001bmu.1_Frame_Shift_Ins_p.Q1332fs|ARID1A_uc001bmw.1_Frame_Shift_Ins_p.Q949fs|ARID1A_uc001bmx.1_Frame_Shift_Ins_p.Q178fs|ARID1A_uc009vsm.1_5'UTR|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1332	Gln-rich.				androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.Q1332*(1)		ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		cagcagcagcagcagcaACGGT	0.49			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								37	81	---	---	---	---						.	G	27100200	G	G	27100199	7	5	53	1	0	1	1	0	0	0	0	0	913	188	7	0	4057	0	ARID1A	1	27100199	Frame_Shift_Ins	INS	-	TCGA-BR-7722-01A-31D-2201-08		27100199	222150422	1	38785											
YTHDF2	51441	broad.mit.edu	37	chr1	29070218	29070218	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgaaatctgctgtggactAcaacacatgtgcaggtgtgt	12	11	11	7	0	1	1	0	1	1	0	1	2	1	2	0	2	4	2	0	2	4	1			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr1:29070218A>G	uc001brc.2	+	4	1933	c.1436A>G	c.(1435-1437)TAC>TGC	p.Y479C	YTHDF2_uc001brd.2_Missense_Mutation_p.Y476C|YTHDF2_uc010ofx.1_Missense_Mutation_p.Y429C|YTHDF2_uc001bre.2_Missense_Mutation_p.Y429C	NM_016258	NP_057342	Q9Y5A9	YTHD2_HUMAN	high glucose-regulated protein 8	479	YTH.				humoral immune response					ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000601)|all_lung(284;0.000771)|Breast(348;0.00502)|Renal(390;0.00758)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;5.46e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0221)|KIRC - Kidney renal clear cell carcinoma(1967;0.0296)|READ - Rectum adenocarcinoma(331;0.0649)		GCTGTGGACTACAACACATGT	0.493													23	42					0	0	0.076483	0	0		G	29070218	G	G	29070218	3	3	53	1	0	0	0	0	1	0	0	0	17525	391	14	3	1450	3	YTHDF2	1	29070218	Missense_Mutation	SNP	A	TCGA-BR-7722-01A-31D-2201-08	1970019	29070218	220180403	2	38786											
STK40	83931	broad.mit.edu	37	chr1	36809854	36809854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtcactgggcttgccacGgtacggccggcctacgggca	6	7	14	14	4	1	0	1	0	0	0	1	0	1	0	3	5	3	3	3	5	2	3			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr1:36809854G>A	uc001cak.1	-	9	1158	c.751C>T	c.(751-753)CGT>TGT	p.R251C	STK40_uc001cal.1_Missense_Mutation_p.R256C|STK40_uc001cam.1_Missense_Mutation_p.R251C|STK40_uc009vva.1_Missense_Mutation_p.R251C|STK40_uc001can.1_Missense_Mutation_p.R251C	NM_032017	NP_114406	Q8N2I9	STK40_HUMAN	serine/threonine kinase 40	251	Protein kinase.					cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1		Myeloproliferative disorder(586;0.0393)				GGCTTGCCACGGTACGGCCGG	0.637													26	41					0	0	0.037714	0	0		A	36809854	A	A	36809854	3	1	53	1	0	0	0	0	1	0	0	0	15332	1116	39	1	572	1	STK40	1	36809854	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08	7739636	36809854	212440767	3	38787											
C1orf177	163747	broad.mit.edu	37	chr1	55277794	55277794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcacgatccgtcggcaccCgcggcccctatgacactttc	6	8	10	17	5	0	1	0	1	0	0	3	2	1	1	4	3	0	2	4	3	1	2			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr1:55277794C>T	uc001cyb.3	+	6	748	c.694C>T	c.(694-696)CGC>TGC	p.R232C	C1orf177_uc001cya.3_Missense_Mutation_p.R232C	NM_001110533	NP_001104003	Q3ZCV2	CA177_HUMAN	hypothetical protein LOC163747 isoform 2	232											0						CGTCGGCACCCGCGGCCCCTA	0.577													5	90					0	0	0.014758	0	0		T	55277794	T	T	55277794	3	4	53	1	0	0	0	0	1	0	0	0	2020	652	23	1	716	1	C1orf177	1	55277794	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08	18467940	55277794	193972827	4	38788											
OR6Y1	391112	broad.mit.edu	37	chr1	158517584	158517584	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacaaaaaagtaaagttgAgtcatgcagccattgaagga	17	8	10	6	0	2	2	2	2	0	0	2	3	2	3	1	1	2	3	1	1	6	3			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr1:158517584A>T	uc010pil.1	-	1	312	c.312T>A	c.(310-312)ACT>ACA	p.T104T		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	104	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AGTAAAGTTGAGTCATGCAGC	0.448													43	55					0	0	0.045515	0	0		T	158517584	T	T	158517584	2	4	53	1	0	0	0	0	0	0	0	1	11232	291	11	5		5	OR6Y1	1	158517584	Silent	SNP	A	TCGA-BR-7722-01A-31D-2201-08	103239790	158517584	90733037	5	38789											
CACNA1E	777	broad.mit.edu	37	chr1	181724450	181724450	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacaagctcttcatgttcatCtttgctgtcatcgcagttca	8	16	6	11	1	6	0	4	0	2	0	7	0	6	0	0	0	3	5	0	0	2	5			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr1:181724450C>T	uc001gow.2	+	28	4071	c.3906C>T	c.(3904-3906)ATC>ATT	p.I1302I	CACNA1E_uc009wxs.2_Silent_p.I1190I|CACNA1E_uc001gox.1_Silent_p.I528I|CACNA1E_uc009wxt.2_Silent_p.I528I	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1302	III.|Helical; Name=S5 of repeat III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TCATGTTCATCTTTGCTGTCA	0.483													48	89					0	0	0.048971	0	0		T	181724450	T	T	181724450	2	4	53	1	0	0	0	0	0	0	0	1	2545	903	32	4		4	CACNA1E	1	181724450	Silent	SNP	C	TCGA-BR-7722-01A-31D-2201-08	23206866	181724450	67526171	6	38790											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220357408	220357408	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggtgtgtctaaatgaaaAtcaagggaatttaattgact	16	13	9	3	0	2	2	1	2	1	0	2	3	2	3	0	2	0	0	0	2	8	4			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr1:220357408A>C	uc010puk.1	-	19	2132	c.1968T>G	c.(1966-1968)GAT>GAG	p.D656E	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Missense_Mutation_p.D236E	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	656					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		CTAAATGAAAATCAAGGGAAT	0.299													7	28					0	0	0.02938	0	0		C	220357408	C	C	220357408	3	2	53	1	0	0	0	0	1	0	0	0	12961	98	4	5	2281	5	RAB3GAP2	1	220357408	Missense_Mutation	SNP	A	TCGA-BR-7722-01A-31D-2201-08	38632958	220357408	28893213	7	38791											
LRP2	4036	broad.mit.edu	37	chr2	170033000	170033000	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccactcagctgaagggtgcGgaagtcatctggacactcgc	9	7	13	12	2	3	1	2	1	1	0	4	3	3	3	1	3	2	1	1	3	2	0			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr2:170033000G>A	uc002ues.2	-	54	10705	c.10492C>T	c.(10492-10494)CGC>TGC	p.R3498C		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3498	Extracellular (Potential).|EGF-like 13.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TGAAGGGTGCGGAAGTCATCT	0.532													26	42					0	0	0.083992	0	0		A	170033000	A	A	170033000	3	1	53	1	0	0	0	0	1	0	0	0	8974	1116	39	1	3579	1	LRP2	2	170033000	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08		170033000	73166373	8	38792											
ITGAV	3685	broad.mit.edu	37	chr2	187540409	187540409	+	Frame_Shift_Del	DEL	G	-	-																															gaaagagtgcaatcttgtacGtaaagtcattactgtggact																								rs146319338	byFrequency	TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr2:187540409delG	uc002upq.2	+	27	3061	c.2785delG	c.(2785-2787)GTAfs	p.V929fs	ITGAV_uc010frs.2_Frame_Shift_Del_p.V893fs|ITGAV_uc010zfv.1_Frame_Shift_Del_p.V883fs	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	929	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		AATCTTGTACGTAAAGTCATT	0.398													91	46	---	---	---	---						.	-	187540409	-	-	187540409	7	5	53	1	0	1	0	1	0	0	0	0	7904	1145	40	0	2942	0	ITGAV	2	187540409	Frame_Shift_Del	DEL	G	TCGA-BR-7722-01A-31D-2201-08	17507409	187540409	55658964	9	38793											
ITPR1	3708	broad.mit.edu	37	chr3	4699844	4699844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgcctctcgaagtaggttgCggaatgcccaagaaaagatg	13	7	12	9	3	1	2	0	0	1	2	2	4	1	3	2	2	2	2	2	2	6	2			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr3:4699844C>T	uc003bqa.2	+	13	1381	c.1033C>T	c.(1033-1035)CGG>TGG	p.R345W	ITPR1_uc010hca.1_Missense_Mutation_p.R330W|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Missense_Mutation_p.R330W	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	345	Cytoplasmic (Potential).|MIR 4.				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		AAGTAGGTTGCGGAATGCCCA	0.498													14	79					0	0	0.0333	0	0		T	4699844	T	T	4699844	3	4	53	1	0	0	0	0	1	0	0	0	7936	759	27	1	1075	1	ITPR1	3	4699844	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08		4699844	193322586	10	38794											
RHOA	387	broad.mit.edu	37	chr3	49412907	49412907	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatctgccacatagttctcaAacactgtgggcacatacacc	12	10	6	13	0	2	0	1	0	2	0	3	0	2	0	2	1	3	2	2	1	4	4			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr3:49412907A>C	uc003cwu.2	-	2	392	c.116T>G	c.(115-117)TTT>TGT	p.F39C	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	39	Effector region (Potential).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	ATAGTTCTCAAACACTGTGGG	0.433													88	103					0	0	0.048971	0	0		C	49412907	C	C	49412907	3	2	53	1	0	0	0	0	1	0	0	0	13356	14	1	5	481	5	RHOA	3	49412907	Missense_Mutation	SNP	A	TCGA-BR-7722-01A-31D-2201-08	44713063	49412907	148609523	11	38795											
P2RY14	9934	broad.mit.edu	37	chr3	150931958	150931958	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaactcttagagctgggcacGtaaaagaatatccatcctga	15	9	8	9	1	1	3	0	1	1	2	3	3	3	3	2	1	2	3	2	1	6	3			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr3:150931958G>A	uc003eyr.1	-	3	625	c.147C>T	c.(145-147)TAC>TAT	p.Y49Y	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY14_uc003eys.1_Silent_p.Y49Y	NM_001081455	NP_001074924	Q15391	P2Y14_HUMAN	P2Y14 receptor	49	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled|UDP-activated nucleotide receptor activity			large_intestine(2)|ovary(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AGCTGGGCACGTAAAAGAATA	0.428													34	105					0	0	0.064281	0	0		A	150931958	A	A	150931958	2	1	53	1	0	0	0	0	0	0	0	1	11370	1140	40	1		1	P2RY14	3	150931958	Silent	SNP	G	TCGA-BR-7722-01A-31D-2201-08	101519051	150931958	47090472	12	38796											
ANTXR2	118429	broad.mit.edu	37	chr4	80975471	80975471	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgaaatccacctttgacaggGaaaacttgctccttggaatc	12	11	8	10	0	0	2	0	2	0	0	3	4	2	4	3	2	2	1	3	2	4	3			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr4:80975471G>C	uc003hlz.3	-	7	1354	c.591C>G	c.(589-591)TTC>TTG	p.F197L	ANTXR2_uc003hly.3_Missense_Mutation_p.F197L|ANTXR2_uc003hlx.1_RNA|ANTXR2_uc010ijn.2_Missense_Mutation_p.F197L	NM_001145794	NP_001139266	P58335	ANTR2_HUMAN	anthrax toxin receptor 2 isoform 2	197	Extracellular (Potential).|VWFA.					endoplasmic reticulum membrane|extracellular region|integral to membrane|plasma membrane	metal ion binding|protein binding|receptor activity			ovary(1)	1						CTTTGACAGGGAAAACTTGCT	0.368									Juvenile_Hyaline_Fibromatosis				28	59					0	0	0.054565	0	0		C	80975471	C	C	80975471	3	2	53	1	0	0	0	0	1	0	0	0	712	1165	41	5	961	5	ANTXR2	4	80975471	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08		80975471	110178805	13	38797											
KIAA1109	84162	broad.mit.edu	37	chr4	123265668	123265668	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattttttgaaagtcagtctGtaagcaagtctgcaagcaaa	14	12	8	7	0	3	1	1	1	2	0	3	1	3	1	0	0	3	4	0	0	5	4			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr4:123265668G>T	uc003ieh.2	+	72	12730	c.12685G>T	c.(12685-12687)GTA>TTA	p.V4229L	KIAA1109_uc003iem.2_Missense_Mutation_p.V585L|KIAA1109_uc003ien.2_Missense_Mutation_p.V163L	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4229					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAGTCAGTCTGTAAGCAAGTC	0.323													41	97					5.7616e-29	6.26998e-29	0.048971	1	0		T	123265668	T	T	123265668	3	4	53	1	0	0	0	0	1	0	0	0	8224	1377	48	5	12971	5	KIAA1109	4	123265668	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08	42290197	123265668	67888608	14	38798											
GPR98	84059	broad.mit.edu	37	chr5	90052364	90052364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctacaggacagccaagtgtgCggaggcccggaatggaaata	13	5	14	9	2	0	0	0	0	0	0	0	4	0	4	2	5	3	0	2	5	5	2			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr5:90052364C>T	uc003kju.2	+	56	11770	c.11674C>T	c.(11674-11676)CGG>TGG	p.R3892W	GPR98_uc003kjt.2_Missense_Mutation_p.R1598W|GPR98_uc003kjv.2_Missense_Mutation_p.R1492W	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3892	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GCCAAGTGTGCGGAGGCCCGG	0.438													5	97					0	0	0.021553	0	0		T	90052364	T	T	90052364	3	4	53	1	0	0	0	0	1	0	0	0	6737	759	27	1	11896	1	GPR98	5	90052364	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08		90052364	90862896	15	38799											
FEM1C	56929	broad.mit.edu	37	chr5	114878880	114878880	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgacagatgctccatgaTttaacaaggactggaccacc	12	10	9	10	0	0	3	0	2	0	1	1	5	1	5	3	2	2	2	3	2	2	3			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr5:114878880T>C	uc003krb.1	-	2	873	c.311A>G	c.(310-312)AAT>AGT	p.N104S		NM_020177	NP_064562	Q96JP0	FEM1C_HUMAN	feminization 1 homolog a	104	ANK 3.					cytoplasm				breast(2)|ovary(1)	3		all_cancers(142;0.000575)|all_epithelial(76;9.98e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;2.5e-07)|Epithelial(69;2.66e-07)|all cancers(49;1.39e-05)		TGCTCCATGATTTAACAAGGA	0.493													6	50					0	0	0.021553	0	0		C	114878880	C	C	114878880	3	2	53	1	0	0	0	0	1	0	0	0	5825	1493	52	3	1550	3	FEM1C	5	114878880	Missense_Mutation	SNP	T	TCGA-BR-7722-01A-31D-2201-08	24826516	114878880	66036380	16	38800											
KIF3A	11127	broad.mit.edu	37	chr5	132056301	132056301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caattacacactatacttacGatttttgtggcctagcgtca	11	14	6	10	2	1	0	1	0	0	0	1	1	1	0	1	1	4	0	1	1	6	7			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr5:132056301G>A	uc003kxo.2	-	5	770	c.616C>T	c.(616-618)CGT>TGT	p.R206C	KIF3A_uc003kxn.2_Missense_Mutation_p.R165C|KIF3A_uc011cxf.1_Missense_Mutation_p.R206C|KIF3A_uc003kxp.2_Missense_Mutation_p.R206C	NM_007054	NP_008985	Q9Y496	KIF3A_HUMAN	kinesin family member 3A	206	Kinesin-motor.				blood coagulation|organelle organization|plus-end-directed vesicle transport along microtubule	centrosome|cytosol|kinesin II complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|protein binding			pancreas(1)	1		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CTATACTTACGATTTTTGTGG	0.363													6	19					0	0	0.038147	0	0		A	132056301	A	A	132056301	3	1	53	1	0	0	0	0	1	0	0	0	8316	1072	37	1	1535	1	KIF3A	5	132056301	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08	17177421	132056301	48858959	17	38801											
GNB2L1	10399	broad.mit.edu	37	chr5	180665164	180665164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagggctgaagcacagggCgttgatgatgtccccaccat	9	9	13	10	1	0	3	0	3	0	0	1	3	1	3	3	2	1	4	3	2	2	2			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr5:180665164C>T	uc003mni.1	-	6	818	c.712G>A	c.(712-714)GCC>ACC	p.A238T	GNB2L1_uc003mnh.1_Missense_Mutation_p.A197T|GNB2L1_uc003mnk.1_Missense_Mutation_p.A160T|GNB2L1_uc003mnj.1_Missense_Mutation_p.A192T|GNB2L1_uc003mnl.1_Missense_Mutation_p.A22T	NM_006098	NP_006089	P63244	GBLP_HUMAN	guanine nucleotide binding protein (G protein),	238	WD 6.				apoptosis|cell cycle|gastrulation|interspecies interaction between organisms|negative regulation of cell growth|negative regulation of phagocytosis|negative regulation of translation|negative regulation of Wnt receptor signaling pathway|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of gastrulation|positive regulation of GTPase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein homooligomerization|positive regulation of protein phosphorylation|regulation of cell cycle|regulation of cell division|regulation of establishment of cell polarity|regulation of protein localization|rhythmic process	cytoskeleton|dendrite|midbody|nucleus|perikaryon|perinuclear region of cytoplasm|phagocytic cup|small ribosomal subunit	ion channel inhibitor activity|protein kinase C binding|protein phosphatase binding|protein tyrosine kinase inhibitor activity|receptor tyrosine kinase binding|SH2 domain binding				0	all_cancers(89;8.79e-06)|all_epithelial(37;1.13e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0654)	all_cancers(40;0.000209)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.101)|all cancers(165;0.11)		AAGCACAGGGCGTTGATGATG	0.542													6	146					0	0	0.038147	0	0		T	180665164	T	T	180665164	3	4	53	1	0	0	0	0	1	0	0	0	6533	768	27	1	253	1	GNB2L1	5	180665164	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08	48608863	180665164	250096	18	38802											
MDC1	9656	broad.mit.edu	37	chr6	30680092	30680092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atttgtcccctccacagacaCctgatgcttctttatatgta	9	15	5	12	0	1	2	0	1	1	1	3	2	3	2	4	0	1	2	4	0	3	6			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr6:30680092C>T	uc003nrg.3	-	5	2067	c.1627G>A	c.(1627-1629)GTG>ATG	p.V543M	MDC1_uc003nrf.3_Missense_Mutation_p.V197M|MDC1_uc011dmp.1_Missense_Mutation_p.V415M|MDC1_uc003nrh.1_Missense_Mutation_p.V415M|MDC1_uc003nri.2_Missense_Mutation_p.V543M	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	543	Required for nuclear localization (NLS1).				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TCCACAGACACCTGATGCTTC	0.522								Other_conserved_DNA_damage_response_genes					20	47					0	0	0.043863	0	0		T	30680092	T	T	30680092	3	4	53	1	0	0	0	0	1	0	0	0	9421	507	18	4	4686	4	MDC1	6	30680092	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08		30680092	140434975	19	38803											
OLIG3	167826	broad.mit.edu	37	chr6	137815222	137815222	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctcctggtggtggtggTggcggtggtggtggtccctc	0	12	20	9	1	1	0	0	0	1	0	4	0	2	0	2	10	0	1	2	10	0	0			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr6:137815222T>C	uc003qhp.1	-	1	310	c.86A>G	c.(85-87)CAC>CGC	p.H29R		NM_175747	NP_786923	Q7RTU3	OLIG3_HUMAN	oligodendrocyte transcription factor 3	29	Poly-His.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0	Breast(32;0.165)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00161)|OV - Ovarian serous cystadenocarcinoma(155;0.00447)		gtggtggtggtggcggtggtg	0.483													3	49					0	0	0.004672	0	0		C	137815222	C	C	137815222	3	2	53	1	0	0	0	0	1	0	0	0	10881	1696	59	3	736	3	OLIG3	6	137815222	Missense_Mutation	SNP	T	TCGA-BR-7722-01A-31D-2201-08	107135130	137815222	33299845	20	38804											
MAGI2	9863	broad.mit.edu	37	chr7	79082564	79082564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcaaagcccagctggccctCcgggttcctgccaatgacac	8	8	9	16	1	1	1	1	1	0	0	3	1	3	1	5	2	3	2	5	2	2	2			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr7:79082564C>T	uc003ugx.2	-	1	327	c.73G>A	c.(73-75)GAG>AAG	p.E25K	MAGI2_uc003ugy.2_Missense_Mutation_p.E25K|uc010lea.1_5'Flank	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	25	PDZ 1.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				AGCTGGCCCTCCGGGTTCCTG	0.587													5	144					0	0	0.021553	0	0		T	79082564	T	T	79082564	3	4	53	1	0	0	0	0	1	0	0	0	9209	864	30	4	4382	4	MAGI2	7	79082564	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08		79082564	80056099	21	38805											
PON1	5444	broad.mit.edu	37	chr7	94928393	94928393	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cactttaggttcttctgttaGaatgttctggattcgaagca	9	16	9	7	1	3	1	0	0	3	1	4	3	3	2	0	2	1	4	0	2	4	7			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr7:94928393G>A	uc003uns.2	-	9	1028	c.931C>T	c.(931-933)CTA>TTA	p.L311L	PON1_uc011kih.1_Silent_p.L311L	NM_000446	NP_000437	P27169	PON1_HUMAN	paraoxonase 1 precursor	311					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	TCTTCTGTTAGAATGTTCTGG	0.398													43	84					0	0	0.048971	0	0		A	94928393	A	A	94928393	2	1	53	1	0	0	0	0	0	0	0	1	12267	933	33	4		4	PON1	7	94928393	Silent	SNP	G	TCGA-BR-7722-01A-31D-2201-08	15845829	94928393	64210270	22	38806											
ADAM28	10863	broad.mit.edu	37	chr8	24207414	24207414	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggtgctgttcccaatggcGgtcatttttgtggtggttgc	3	15	16	7	1	1	0	1	0	0	0	2	0	2	0	1	6	2	3	1	6	1	4			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr8:24207414G>A	uc003xdy.2	+	19	2111	c.2028G>A	c.(2026-2028)GCG>GCA	p.A676A	ADAM28_uc011laa.1_RNA|ADAM28_uc010lua.2_Silent_p.A363A	NM_014265	NP_055080	Q9UKQ2	ADA28_HUMAN	ADAM metallopeptidase domain 28 isoform 1	676	Helical; (Potential).				proteolysis|spermatogenesis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|lung(1)|central_nervous_system(1)	5		Prostate(55;0.0959)		Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0434)|BRCA - Breast invasive adenocarcinoma(99;0.175)		TCCCAATGGCGGTCATTTTTG	0.502													48	129					0	0	0.048971	0	0		A	24207414	A	A	24207414	2	1	53	1	0	0	0	0	0	0	0	1	246	1103	39	1		1	ADAM28	8	24207414	Silent	SNP	G	TCGA-BR-7722-01A-31D-2201-08		24207414	122156608	23	38807											
CSMD3	114788	broad.mit.edu	37	chr8	113243795	113243795	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtctttgtaggccaaattGtccataatctttgccttgaa	10	15	7	9	0	2	1	0	1	2	0	3	1	3	1	3	1	1	1	3	1	4	6			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr8:113243795G>T	uc003ynu.2	-	69	10966	c.10807C>A	c.(10807-10809)CAA>AAA	p.Q3603K	CSMD3_uc003yns.2_Missense_Mutation_p.Q2805K|CSMD3_uc003ynt.2_Missense_Mutation_p.Q3563K|CSMD3_uc011lhx.1_Missense_Mutation_p.Q3434K	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3603	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGGCCAAATTGTCCATAATCT	0.328										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			15	126					5.03518e-11	5.40005e-11	0.043863	1	0		T	113243795	T	T	113243795	3	4	53	1	0	0	0	0	1	0	0	0	3949	1386	48	5	328	5	CSMD3	8	113243795	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08	89036381	113243795	33120227	24	38808											
KIAA1797	54914	broad.mit.edu	37	chr9	20907176	20907176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctttcagagtggcacCgtgcaatttttcttccacag	8	13	8	12	1	2	1	1	0	1	1	4	1	4	1	3	1	2	3	3	1	1	4			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr9:20907176C>T	uc003zog.1	+	24	3016	c.2653C>T	c.(2653-2655)CGT>TGT	p.R885C	KIAA1797_uc003zoh.1_Missense_Mutation_p.R321C	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	885						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		aGAGTGGCACCGTGCAATTTT	0.269													5	115					0	0	0.014758	0	0		T	20907176	T	T	20907176	3	4	53	1	0	0	0	0	1	0	0	0	8274	652	23	1	2735	1	KIAA1797	9	20907176	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08		20907176	120306255	25	38809											
IFNA10	3446	broad.mit.edu	37	chr9	21206898	21206898	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttctggaactggttgccatCaaactcctcctgggggattc	7	12	10	12	0	2	0	1	0	1	0	5	2	4	2	3	4	3	1	3	4	2	3			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr9:21206898C>G	uc003zoq.1	-	1	245	c.199G>C	c.(199-201)GAT>CAT	p.D67H	IFNA14_uc003zoo.1_Intron	NM_002171	NP_002162	P01566	IFN10_HUMAN	interferon, alpha 10 precursor	67					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.17)		TGGTTGCCATCAAACTCCTCC	0.502													92	51					0	0	0.048971	0	0		G	21206898	G	G	21206898	3	3	53	1	0	0	0	0	1	0	0	0	7548	826	29	5	374	5	IFNA10	9	21206898	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08	299722	21206898	120006533	26	38810											
GOLM1	51280	broad.mit.edu	37	chr9	88667485	88667485	+	Missense_Mutation	SNP	T	A	A																															gatgagcctctcacctgtggTgatgttattcaccaaaaccg																										TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr9:88667485T>A	uc004aol.2	-	4	529	c.331A>T	c.(331-333)ACC>TCC	p.T111S	GOLM1_uc010mqd.1_Intron|GOLM1_uc004aom.2_Missense_Mutation_p.T111S	NM_016548	NP_057632	Q8NBJ4	GOLM1_HUMAN	golgi membrane protein 1	111	Potential.|Lumenal (Potential).					Golgi apparatus|integral to plasma membrane					0						TCACCTGTGGTGATGTTATTC	0.512													5	180					0	0	0.021553	0	0		A	88667485	A	A	88667485	3	1	53	1	0	0	0	0	1	0	0	0	6582	1696	59	5	902	5	GOLM1	9	88667485	Missense_Mutation	SNP	T	TCGA-BR-7722-01A-31D-2201-08	67460587	88667485	52545946	27	38811	76	2									
GOLM1	51280	broad.mit.edu	37	chr9	88667488	88667488	+	Missense_Mutation	SNP	T	G	G																															gagcctctcacctgtggtgaTgttattcaccaaaaccgcct																										TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr9:88667488T>G	uc004aol.2	-	4	526	c.328A>C	c.(328-330)ATC>CTC	p.I110L	GOLM1_uc010mqd.1_Intron|GOLM1_uc004aom.2_Missense_Mutation_p.I110L	NM_016548	NP_057632	Q8NBJ4	GOLM1_HUMAN	golgi membrane protein 1	110	Potential.|Lumenal (Potential).					Golgi apparatus|integral to plasma membrane					0						CCTGTGGTGATGTTATTCACC	0.522													5	173					0	0	0.021553	0	0		G	88667488	G	G	88667488	3	3	53	1	0	0	0	0	1	0	0	0	6582	1464	51	5	905	5	GOLM1	9	88667488	Missense_Mutation	SNP	T	TCGA-BR-7722-01A-31D-2201-08	3	88667488	52545943	28	38812	76	2									
OR1L3	26735	broad.mit.edu	37	chr9	125437839	125437839	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgcagatgctgtgtgttgcTactagcattccccatcactt	7	13	8	13	1	1	1	1	0	0	1	2	1	2	1	3	0	4	5	3	0	2	5			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr9:125437839T>C	uc011lzb.1	+	1	431	c.431T>C	c.(430-432)CTA>CCA	p.L144P		NM_001005234	NP_001005234	Q8NH93	OR1L3_HUMAN	olfactory receptor, family 1, subfamily L,	144	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGTGTGTTGCTACTAGCATTC	0.448													180	86					0	0	0.048971	0	0		C	125437839	C	C	125437839	3	2	53	1	0	0	0	0	1	0	0	0	10983	1522	53	3	433	3	OR1L3	9	125437839	Missense_Mutation	SNP	T	TCGA-BR-7722-01A-31D-2201-08	36770351	125437839	15775592	29	38813											
MRPL41	64975	broad.mit.edu	37	chr9	140446797	140446797	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagacgcccctgacggcCgcgcagctcttcagcgaagc	8	4	14	15	5	2	2	1	1	1	1	2	5	2	2	3	2	3	2	3	2	1	1			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr9:140446797C>T	uc004cnh.3	+	2	394	c.264C>T	c.(262-264)GCC>GCT	p.A88A	PNPLA7_uc010ncj.1_5'Flank|PNPLA7_uc004cnf.2_5'Flank	NM_032477	NP_115866	Q8IXM3	RM41_HUMAN	mitochondrial ribosomal protein L41	88					apoptosis|cell cycle|translation	mitochondrial large ribosomal subunit	structural constituent of ribosome				0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000415)|Epithelial(140;0.00106)		CCCTGACGGCCGCGCAGCTCT	0.622													8	5					0	0	0.038147	0	0		T	140446797	T	T	140446797	2	4	53	1	0	0	0	0	0	0	0	1	9823	639	23	1		1	MRPL41	9	140446797	Silent	SNP	C	TCGA-BR-7722-01A-31D-2201-08	15008958	140446797	766634	30	38814											
CACNA1B	774	broad.mit.edu	37	chr9	140850187	140850187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagagggtggagaaccgcCgcgccttcctgaagctgcgc	8	5	16	12	4	0	3	0	1	0	2	1	6	1	3	4	2	3	1	4	2	2	1			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr9:140850187C>T	uc004cog.2	+	8	1253	c.1108C>T	c.(1108-1110)CGC>TGC	p.R370C	CACNA1B_uc011mfd.1_5'Flank	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	370	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	GGAGAACCGCCGCGCCTTCCT	0.642													3	12					0	0	0.014758	0	0		T	140850187	T	T	140850187	3	4	53	1	0	0	0	0	1	0	0	0	2542	652	23	1	1138	1	CACNA1B	9	140850187	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08	403390	140850187	363244	31	38815											
ANO9	338440	broad.mit.edu	37	chr11	419621	419621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttcaggcatgggctatagCggtacttgtagaccactcgg	8	11	12	10	2	1	1	1	0	0	1	2	1	1	1	1	4	2	4	1	4	4	6			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr11:419621C>T	uc001lpi.2	-	20	1980	c.1895G>A	c.(1894-1896)CGC>CAC	p.R632H	SIGIRR_uc001lpf.2_5'Flank|SIGIRR_uc001lpe.1_5'Flank|ANO9_uc001lph.2_Missense_Mutation_p.R325H|ANO9_uc010qvv.1_Missense_Mutation_p.R488H	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	632	Extracellular (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						TGGGCTATAGCGGTACTTGTA	0.567													14	21					0	0	0.105934	0	0		T	419621	T	T	419621	3	4	53	1	0	0	0	0	1	0	0	0	704	768	27	1	469	1	ANO9	11	419621	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08		419621	134586895	32	38816											
OR10A4	283297	broad.mit.edu	37	chr11	6898608	6898608	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcattctccacctgttccGcccacctcttggttgtctct	4	14	7	16	1	3	0	0	0	3	0	6	0	4	0	5	2	0	3	5	2	0	4			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr11:6898608G>T	uc010rat.1	+	1	730	c.730G>T	c.(730-732)GCC>TCC	p.A244S		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CACCTGTTCCGCCCACCTCTT	0.527													7	79					5.18039e-06	5.39928e-06	0.038147	1	0		T	6898608	T	T	6898608	3	4	53	1	0	0	0	0	1	0	0	0	10911	1087	38	5	732	5	OR10A4	11	6898608	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08	6478987	6898608	128107908	33	38817											
MRVI1	10335	broad.mit.edu	37	chr11	10673689	10673689	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcccggaacctccgctgcGtcagccccaaagatgctcca	8	6	10	17	3	1	1	1	0	0	1	3	2	3	2	6	1	5	2	6	1	2	0			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr11:10673689G>A	uc010rcc.1	-	2	494	c.108C>T	c.(106-108)GAC>GAT	p.D36D	MRVI1_uc001miw.2_Silent_p.D27D|MRVI1_uc010rcb.1_Silent_p.D27D|MRVI1_uc009ygb.1_Translation_Start_Site|MRVI1_uc001mix.2_Translation_Start_Site|MRVI1_uc001miz.2_Intron|MRVI1_uc009ygc.1_Intron|MRVI1_uc010rcd.1_Silent_p.D36D|MRVI1_uc009ygd.1_Intron	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	27					platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum				ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		CCTCCGCTGCGTCAGCCCCAA	0.647													6	21					0	0	0.021553	0	0		A	10673689	A	A	10673689	2	1	53	1	0	0	0	0	0	0	0	1	9871	1136	40	1		1	MRVI1	11	10673689	Silent	SNP	G	TCGA-BR-7722-01A-31D-2201-08	3775081	10673689	124332827	34	38818											
METT5D1	196074	broad.mit.edu	37	chr11	28318379	28318379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catctatcctaagaacatacGgggaggagaagcatgccaag	15	6	11	9	1	1	2	0	0	1	2	2	4	2	3	2	3	4	1	2	3	6	3	rs145080229		TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr11:28318379G>A	uc001msh.2	+	6	1134	c.679G>A	c.(679-681)GGG>AGG	p.G227R	METT5D1_uc001msg.2_Missense_Mutation_p.G227R|METT5D1_uc001mse.2_Missense_Mutation_p.R212Q|METT5D1_uc001msi.2_Missense_Mutation_p.G24R	NM_001113528	NP_001107000	A6NJ78	MET15_HUMAN	methyltransferase 5 domain containing 1 isoform	227							methyltransferase activity				0						AAGAACATACGGGGAGGAGAA	0.507													33	60					0	0	0.054565	0	0		A	28318379	A	A	28318379	3	1	53	1	0	0	0	0	1	0	0	0	9510	1116	39	1	693	1	METT5D1	11	28318379	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08	17644690	28318379	106688137	35	38819											
FOLH1B	219595	broad.mit.edu	37	chr11	89395322	89395322	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttttttttttcagaataCgcttataggcatggaattgc	11	18	7	5	1	1	1	1	0	0	1	1	2	1	2	0	2	2	2	0	2	6	9			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr11:89395322C>T	uc001pda.2	+	2	433	c.-93C>T	c.(-95--91)TACGC>TATGC			NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B						proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TTTCAGAATACGCTTATAGGC	0.328													4	43					0	0	0.009096	0	0		T	89395322	T	T	89395322	1	4	53	1	0	0	0	0	0	0	0	0	5994	551	19	1		1	FOLH1B	11	89395322	Translation_Start_Site	SNP	C	TCGA-BR-7722-01A-31D-2201-08	61076943	89395322	45611194	36	38820											
CUL5	8065	broad.mit.edu	37	chr11	107960310	107960310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcttatattagacatctctgCcgatagtgaaattgaagaaa	15	13	7	6	1	2	4	0	2	2	2	3	5	2	4	1	0	1	0	1	0	7	5			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr11:107960310C>T	uc001pjv.2	+	13	2070	c.1403C>T	c.(1402-1404)GCC>GTC	p.A468V	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	468					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		GACATCTCTGCCGATAGTGAA	0.308													12	14					0	0	0.105934	0	0		T	107960310	T	T	107960310	3	4	53	1	0	0	0	0	1	0	0	0	4062	739	26	2	1453	2	CUL5	11	107960310	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08	18564988	107960310	27046206	37	38821											
DSCAML1	57453	broad.mit.edu	37	chr11	117299181	117299181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccccggctcgtggaggctCggtgctgggggccggagggg	2	5	22	12	4	0	0	0	0	0	0	2	2	0	2	3	9	1	3	3	9	0	0			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr11:117299181C>T	uc001prh.1	-	33	6207	c.6205G>A	c.(6205-6207)GAG>AAG	p.E2069K		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	2009	Cytoplasmic (Potential).|Pro-rich.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CGTGGAGGCTCGGTGCTGGGG	0.736													15	21					0	0	0.024245	0	0		T	117299181	T	T	117299181	3	4	53	1	0	0	0	0	1	0	0	0	4775	893	31	1	140	1	DSCAML1	11	117299181	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08	9338871	117299181	17707335	38	38822											
ALDH1L2	160428	broad.mit.edu	37	chr12	105433512	105433512	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcatgatctgtttgccaAtaggagtggatccagtgaaa	11	13	10	7	0	3	2	1	2	2	0	4	4	4	4	2	2	1	1	2	2	3	3			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr12:105433512A>G	uc001tlc.2	-	17	2151	c.2024T>C	c.(2023-2025)ATT>ACT	p.I675T	ALDH1L2_uc009zuo.2_Missense_Mutation_p.I130T|ALDH1L2_uc009zup.2_RNA	NM_001034173	NP_001029345	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	675	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1						CTGTTTGCCAATAGGAGTGGA	0.393													34	70					0	0	0.045515	0	0		G	105433512	G	G	105433512	3	3	53	1	0	0	0	0	1	0	0	0	495	101	4	3	775	3	ALDH1L2	12	105433512	Missense_Mutation	SNP	A	TCGA-BR-7722-01A-31D-2201-08		105433512	28418383	39	38823											
TMEM132D	121256	broad.mit.edu	37	chr12	129563254	129563254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttcagcgaggatggtgtctGacagaggagacaggatctgg	10	9	16	6	1	3	3	1	1	2	2	3	7	3	5	0	5	1	0	0	5	0	1			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr12:129563254G>A	uc009zyl.1	-	8	2268	c.1940C>T	c.(1939-1941)TCA>TTA	p.S647L	TMEM132D_uc001uia.2_Missense_Mutation_p.S185L	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	647	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GATGGTGTCTGACAGAGGAGA	0.567													32	48					0	0	0.050027	0	0		A	129563254	A	A	129563254	3	1	53	1	0	0	0	0	1	0	0	0	16072	1294	45	4	1367	4	TMEM132D	12	129563254	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08	24129742	129563254	4288641	40	38824											
TMEM132D	121256	broad.mit.edu	37	chr12	130185232	130185232	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctctcaaggatccctcGaccttccgtcactgtgggga	7	10	11	13	2	2	0	2	0	1	0	6	4	4	2	3	3	1	1	3	3	1	1			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr12:130185232G>T	uc009zyl.1	-	2	419	c.91C>A	c.(91-93)CGA>AGA	p.R31R		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	31	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		AGGATCCCTCGACCTTCCGTC	0.443													9	31					1.12685e-05	1.15815e-05	0.047766	1	0		T	130185232	T	T	130185232	2	4	53	1	0	0	0	0	0	0	0	1	16072	1066	37	5		5	TMEM132D	12	130185232	Silent	SNP	G	TCGA-BR-7722-01A-31D-2201-08	621978	130185232	3666663	41	38825											
TMCO3	55002	broad.mit.edu	37	chr13	114193756	114193756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcagggccccgtggtcaccGaggagatcgccacctccatc	7	6	11	17	3	2	1	2	0	0	1	5	3	3	1	6	3	0	0	6	3	0	0			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr13:114193756G>A	uc001vtu.3	+	10	1985	c.1624G>A	c.(1624-1626)GAG>AAG	p.E542K		NM_017905	NP_060375	Q6UWJ1	TMCO3_HUMAN	transmembrane and coiled-coil domains 3	542						integral to membrane	solute:hydrogen antiporter activity				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0145)|all_epithelial(44;0.00286)|all_lung(25;0.0273)|Breast(118;0.0411)|Lung NSC(25;0.0983)	all cancers(43;0.0317)			CGTGGTCACCGAGGAGATCGC	0.577													21	39					0	0	0.062417	0	0		A	114193756	A	A	114193756	3	1	53	1	0	0	0	0	1	0	0	0	16022	1059	37	1	1658	1	TMCO3	13	114193756	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08		114193756	976122	42	38826											
SPG11	80208	broad.mit.edu	37	chr15	44913993	44913993	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagaaggatggattcttGtgttagttgatcccaccaca	10	11	13	7	0	1	2	0	1	1	1	2	5	2	4	2	4	0	2	2	4	2	4			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr15:44913993G>A	uc001ztx.2	-	14	2615	c.2584C>T	c.(2584-2586)CAA>TAA	p.Q862*	SPG11_uc010ueh.1_Nonsense_Mutation_p.Q862*|SPG11_uc010uei.1_Nonsense_Mutation_p.Q862*|SPG11_uc001ztz.1_5'Flank	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	862	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		ATGGATTCTTGTGTTAGTTGA	0.373													18	56					0	0	0.049695	0	0		A	44913993	A	A	44913993	4	1	53	1	0	0	0	0	0	1	0	0	15066	1386	48	4	4855	4	SPG11	15	44913993	Nonsense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08		44913993	57617399	43	38827											
HCN4	10021	broad.mit.edu	37	chr15	73617682	73617682	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccaggatgctctcctcgTcgaacatcttgccctggtag	6	10	10	15	3	2	0	0	0	2	0	5	2	2	1	3	2	3	2	3	2	2	2			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr15:73617682T>A	uc002avp.2	-	5	2688	c.1694A>T	c.(1693-1695)GAC>GTC	p.D565V		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	565	Cytoplasmic (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		GCTCTCCTCGTCGAACATCTT	0.657													31	71					0	0	0.037714	0	0		A	73617682	A	A	73617682	3	1	53	1	0	0	0	0	1	0	0	0	7015	1667	58	5	1933	5	HCN4	15	73617682	Missense_Mutation	SNP	T	TCGA-BR-7722-01A-31D-2201-08	28703689	73617682	28913710	44	38828											
NARFL	64428	broad.mit.edu	37	chr16	780985	780985	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttctccagtgtcacctcCtggaagtctttgttcctggg	4	15	9	13	0	3	0	1	0	2	0	7	1	6	1	5	2	0	1	5	2	1	3			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr16:780985C>T	uc002cjr.2	-	10	1062	c.1050G>A	c.(1048-1050)CAG>CAA	p.Q350Q	NARFL_uc002cjp.2_Silent_p.Q248Q|NARFL_uc002cjq.2_Silent_p.Q248Q|NARFL_uc002cjs.2_Silent_p.Q132Q	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	350					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				GTGTCACCTCCTGGAAGTCTT	0.627													9	63					0	0	0.058154	0	0		T	780985	T	T	780985	2	4	53	1	0	0	0	0	0	0	0	1	10186	680	24	4		4	NARFL	16	780985	Silent	SNP	C	TCGA-BR-7722-01A-31D-2201-08		780985	89573768	45	38829											
KIF2B	84643	broad.mit.edu	37	chr17	51900853	51900853	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tctccctgcctctgggaaatCcagaaactgcaggagcagcg	10	7	11	13	1	2	1	0	0	2	1	4	3	3	3	3	2	5	2	3	2	2	0			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr17:51900853C>G	uc002iua.2	+	1	615	c.459C>G	c.(457-459)ATC>ATG	p.I153M	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	153	Potential.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TCTGGGAAATCCAGAAACTGC	0.557													3	56					0	0	0.004672	0	0		G	51900853	G	G	51900853	3	3	53	1	0	0	0	0	1	0	0	0	8314	845	30	5	461	5	KIF2B	17	51900853	Missense_Mutation	SNP	C	TCGA-BR-7722-01A-31D-2201-08		51900853	29294357	46	38830											
SLC25A10	1468	broad.mit.edu	37	chr17	79686863	79686863	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgcgttttctgcagggCgttttccactgcgccgtgga	4	13	12	12	4	2	0	1	0	1	0	3	1	3	1	2	2	3	3	2	2	0	4			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr17:79686863C>T	uc002kbi.2	+	10	794	c.708C>T	c.(706-708)GGC>GGT	p.G236G	SLC25A10_uc010wut.1_Silent_p.G391G|SLC25A10_uc010dif.2_Silent_p.G245G|SLC25A10_uc010wuu.1_Silent_p.G190G	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	236	Solcar 3.				gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)	TTCTGCAGGGCGTTTTCCACT	0.617													12	237					0	0	0.09319	0	0		T	79686863	T	T	79686863	2	4	53	1	0	0	0	0	0	0	0	1	14497	755	27	1		1	SLC25A10	17	79686863	Silent	SNP	C	TCGA-BR-7722-01A-31D-2201-08	27786010	79686863	1508347	47	38831											
RIT2	6014	broad.mit.edu	37	chr18	40503659	40503659	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaatgattgacggtcagTgacggagtagcagatgatga	13	9	14	5	2	1	7	1	6	0	1	1	8	1	8	0	2	1	2	0	2	2	2			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr18:40503659T>A	uc002lav.2	-	4	477	c.304A>T	c.(304-306)ACT>TCT	p.T102S	RIT2_uc010dnf.2_Missense_Mutation_p.T102S	NM_002930	NP_002921	Q99578	RIT2_HUMAN	Ras-like without CAAX 2	102					nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1						TGACGGTCAGTGACGGAGTAG	0.463													9	288					0	0	0.047766	0	0		A	40503659	A	A	40503659	3	1	53	1	0	0	0	0	1	0	0	0	13412	1696	59	5	357	5	RIT2	18	40503659	Missense_Mutation	SNP	T	TCGA-BR-7722-01A-31D-2201-08		40503659	37573589	48	38832											
SMAD4	4089	broad.mit.edu	37	chr18	48591925	48591925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctggaggagatcgcttttGtttgggtcaactctccaatg	7	15	11	8	1	3	1	1	0	2	1	5	3	3	2	1	3	1	2	1	3	2	4			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr18:48591925G>A	uc010xdp.1	+	9	1626	c.1088G>A	c.(1087-1089)TGT>TAT	p.C363Y	SMAD4_uc002lfb.3_Missense_Mutation_p.C208Y	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	363	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)|p.C363R(1)|p.C363S(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		GATCGCTTTTGTTTGGGTCAA	0.418									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				15	17					0	0	0.028581	0	0		A	48591925	A	A	48591925	3	1	53	1	0	0	0	0	1	0	0	0	14785	1377	48	4	1118	4	SMAD4	18	48591925	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08	8088266	48591925	29485323	49	38833											
ALKBH6	84964	broad.mit.edu	37	chr19	36500365	36500365	+	Frame_Shift_Del	DEL	G	-	-																															gcgggcggcggcgatgccgtGgagaagacgcgtgtaggcgg																										TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr19:36500365delG	uc002oct.2	-	7	644	c.544delC	c.(544-546)CACfs	p.H182fs	C19orf46_uc002ocr.1_5'Flank|C19orf46_uc002ocs.1_5'Flank|C19orf46_uc002ocq.1_5'Flank|C19orf46_uc010een.1_5'Flank|ALKBH6_uc002ocv.1_Frame_Shift_Del_p.H210fs|ALKBH6_uc002ocx.1_Frame_Shift_Del_p.H113fs|ALKBH6_uc002ocw.1_3'UTR|ALKBH6_uc010eeo.1_Frame_Shift_Del_p.H182fs	NM_032878	NP_116267	Q3KRA9	ALKB6_HUMAN	alkB, alkylation repair homolog 6 isoform 2	182	Fe2OG dioxygenase.	Iron; catalytic (By similarity).				cytoplasm|nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0	all_lung(56;1.35e-06)|Lung NSC(56;2.15e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GCGATGCCGTGGAGAAGACGC	0.776													2	4	---	---	---	---						.	-	36500365	-	-	36500365	7	5	53	1	0	1	0	1	0	0	0	0	531	1348	47	0	176	0	ALKBH6	19	36500365	Frame_Shift_Del	DEL	G	TCGA-BR-7722-01A-31D-2201-08		36500365	22628618	50	38834											
ZNF607	84775	broad.mit.edu	37	chr19	38190612	38190612	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttttcacattgatcaggTtcctcactagtatgaattgt	11	16	6	8	0	3	2	3	2	0	0	4	2	4	2	1	1	1	2	1	1	4	7			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr19:38190612T>C	uc002ohc.1	-	5	1016	c.420A>G	c.(418-420)GAA>GAG	p.E140E	ZNF607_uc002ohb.1_Silent_p.E139E	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	140					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			ATTGATCAGGTTCCTCACTAG	0.363													41	89					0	0	0.09836	0	0		C	38190612	C	C	38190612	2	2	53	1	0	0	0	0	0	0	0	1	18058	1722	60	3		3	ZNF607	19	38190612	Silent	SNP	T	TCGA-BR-7722-01A-31D-2201-08	1690247	38190612	20938371	51	38835											
RYR1	6261	broad.mit.edu	37	chr19	39016073	39016073	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acactgaagaagatgctgccCatcggcctgaatatgtgtgc	11	9	11	10	1	0	4	0	2	0	2	1	4	0	4	2	1	3	1	2	1	4	1			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr19:39016073C>G	uc002oit.2	+	71	10687	c.10557C>G	c.(10555-10557)CCC>CCG	p.P3519P	RYR1_uc002oiu.2_Silent_p.P3514P|RYR1_uc002oiv.1_Silent_p.P434P|RYR1_uc010xuf.1_Silent_p.P439P	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3519					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AGATGCTGCCCATCGGCCTGA	0.637													22	36					0	0	0.069288	0	0		G	39016073	G	G	39016073	2	3	53	1	0	0	0	0	0	0	0	1	13793	581	21	5		5	RYR1	19	39016073	Silent	SNP	C	TCGA-BR-7722-01A-31D-2201-08	825461	39016073	20112910	52	38836											
FCGBP	8857	broad.mit.edu	37	chr19	40389651	40389651	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcccagcccagcccagcaCctttgttgacgcagctcagg	8	6	10	17	1	1	1	1	1	0	0	1	1	1	1	4	1	5	4	4	1	0	2			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr19:40389651C>T	uc002omp.3	-	18	8538	c.8530_splice	c.e18+1	p.D2844_splice		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor							extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			cagcccagcACCTTTGTTGAC	0.542													6	35					0	0	0.038147	0	0		T	40389651	T	T	40389651	5	4	53	1	0	0	0	0	0	0	1	0	5792	521	18	4	7762	4	FCGBP	19	40389651	Splice_Site	SNP	C	TCGA-BR-7722-01A-31D-2201-08	1373578	40389651	18739332	53	38837											
KLC3	147700	broad.mit.edu	37	chr19	45854575	45854575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacctggacaaggcccctcGgaccctcagcgccagcaccc	8	3	10	20	2	1	0	1	0	0	0	2	2	1	2	6	3	2	2	6	3	1	0			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr19:45854575G>A	uc002pbf.1	+	13	1590	c.1475G>A	c.(1474-1476)CGG>CAG	p.R492Q	KLC3_uc010ejy.1_Missense_Mutation_p.R491Q|KLC3_uc002pbg.1_Missense_Mutation_p.R506Q	NM_177417	NP_803136	Q6P597	KLC3_HUMAN	kinesin light chain 3	492						cytoplasm|kinesin complex|microtubule	microtubule motor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		AAGGCCCCTCGGACCCTCAGC	0.642													44	111					0	0	0.048971	0	0		A	45854575	A	A	45854575	3	1	53	1	0	0	0	0	1	0	0	0	8351	1116	39	1	1521	1	KLC3	19	45854575	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08	5464924	45854575	13274408	54	38838											
LILRA2	11027	broad.mit.edu	37	chr19	55086394	55086394	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggccatcttctccgtgggCcccgtgagcccgagtcgcag	4	8	14	15	4	2	1	0	1	2	0	4	2	2	1	5	2	1	1	5	2	0	1			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr19:55086394C>T	uc002qgg.3	+	4	638	c.549C>T	c.(547-549)GGC>GGT	p.G183G	LILRA2_uc010ern.2_Silent_p.G183G|LILRA2_uc002qgf.2_Silent_p.G183G|LILRA2_uc010yfe.1_Silent_p.G183G|LILRA2_uc010yff.1_Silent_p.G171G|LILRA2_uc010ero.2_Silent_p.G171G|LILRA2_uc010yfg.1_Silent_p.G183G	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	183	Extracellular (Potential).|Ig-like C2-type 2.				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		TCTCCGTGGGCCCCGTGAGCC	0.577													4	139					0	0	0.014758	0	0		T	55086394	T	T	55086394	2	4	53	1	0	0	0	0	0	0	0	1	8801	726	26	2		2	LILRA2	19	55086394	Silent	SNP	C	TCGA-BR-7722-01A-31D-2201-08	9231819	55086394	4042589	55	38839											
PTPRH	5794	broad.mit.edu	37	chr19	55703088	55703088	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaacaggaggatgcccAcaaaggctccggcaatgacc	14	4	12	11	1	0	2	0	2	0	1	1	5	1	4	3	4	2	2	3	4	3	0			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr19:55703088A>G	uc002qjq.2	-	11	2352	c.2279T>C	c.(2278-2280)GTG>GCG	p.V760A	PTPRH_uc010esv.2_Missense_Mutation_p.V582A|uc002qjr.2_Missense_Mutation_p.T58A	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	760	Helical; (Potential).				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		GAGGATGCCCACAAAGGCTCC	0.617													22	47					0	0	0.0918	0	0		G	55703088	G	G	55703088	3	3	53	1	0	0	0	0	1	0	0	0	12828	159	6	3	1108	3	PTPRH	19	55703088	Missense_Mutation	SNP	A	TCGA-BR-7722-01A-31D-2201-08	616694	55703088	3425895	56	38840											
ZNF606	80095	broad.mit.edu	37	chr19	58489997	58489997	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttaaaggatctttcacacTgattacatttatagggtttc	12	16	7	6	0	2	1	1	1	1	0	3	2	2	2	0	2	1	2	0	2	5	7			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr19:58489997T>C	uc002qqw.2	-	7	2669	c.2051A>G	c.(2050-2052)CAG>CGG	p.Q684R	ZNF606_uc010yhp.1_Missense_Mutation_p.Q594R	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	684	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		TCTTTCACACTGATTACATTT	0.413													6	77					0	0	0.021553	0	0		C	58489997	C	C	58489997	3	2	53	1	0	0	0	0	1	0	0	0	18057	1580	55	3	331	3	ZNF606	19	58489997	Missense_Mutation	SNP	T	TCGA-BR-7722-01A-31D-2201-08	2786909	58489997	638986	57	38841											
KCNG1	3755	broad.mit.edu	37	chr20	49626831	49626831	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtccgaggtgcagctcagCgcgctgtagtcgtagtcaga	7	8	15	11	5	2	1	2	0	0	1	4	2	3	1	1	1	3	5	1	1	2	2			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr20:49626831C>T	uc002xwa.3	-	2	340	c.45G>A	c.(43-45)GCG>GCA	p.A15A	KCNG1_uc002xwb.2_Silent_p.A15A	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	15	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						TGCAGCTCAGCGCGCTGTAGT	0.667													6	39					0	0	0.021553	0	0		T	49626831	T	T	49626831	2	4	53	1	0	0	0	0	0	0	0	1	8043	755	27	1		1	KCNG1	20	49626831	Silent	SNP	C	TCGA-BR-7722-01A-31D-2201-08		49626831	13398689	58	38842											
YWHAH	7533	broad.mit.edu	37	chr22	32352435	32352435	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagggtgattactaccgcTacttagcagaggtcgcttct	9	12	11	9	2	1	3	0	2	1	1	2	3	1	3	1	2	4	3	1	2	5	5			TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr22:32352435T>G	uc003alz.2	+	2	638	c.397T>G	c.(397-399)TAC>GAC	p.Y133D	YWHAH_uc010gwl.2_Missense_Mutation_p.Y63D|YWHAH_uc003ama.2_Missense_Mutation_p.Y63D|YWHAH_uc010gwm.2_Missense_Mutation_p.Y120D	NM_003405	NP_003396	Q04917	1433F_HUMAN	tyrosine 3-monooxygenase/tryptophan	133					glucocorticoid catabolic process|glucocorticoid receptor signaling pathway|intracellular protein transport|negative regulation of dendrite morphogenesis|positive regulation of transcription, DNA-dependent|regulation of synaptic plasticity	cytoplasm	enzyme binding|glucocorticoid receptor binding|insulin-like growth factor receptor binding|protein domain specific binding			central_nervous_system(1)	1						TTACTACCGCTACTTAGCAGA	0.453													13	25					0	0	0.09319	0	0		G	32352435	G	G	32352435	3	3	53	1	0	0	0	0	1	0	0	0	17530	1522	53	5	403	5	YWHAH	22	32352435	Missense_Mutation	SNP	T	TCGA-BR-7722-01A-31D-2201-08		32352435	18952131	59	38843											
SGSM3	27352	broad.mit.edu	37	chr22	40800320	40800320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgctccacagaggctgcGgtggcaggcccacctggagt	7	6	16	12	1	0	1	0	0	0	1	1	3	1	3	3	6	2	3	3	6	0	0	rs73420601	by1000genomes	TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr22:40800320G>A	uc003ayu.1	+	5	436	c.227G>A	c.(226-228)CGG>CAG	p.R76Q	SGSM3_uc010gyc.1_Missense_Mutation_p.R76Q|SGSM3_uc011aos.1_Missense_Mutation_p.R9Q|SGSM3_uc011aot.1_Missense_Mutation_p.R13Q|SGSM3_uc010gyd.1_Missense_Mutation_p.R76Q	NM_015705	NP_056520	Q96HU1	SGSM3_HUMAN	small G protein signaling modulator 3	76					cell cycle arrest|Rap protein signal transduction	cytoplasm	Rab GTPase activator activity|Rab GTPase binding			ovary(2)	2						CAGAGGCTGCGGTGGCAGGCC	0.597													27	61					0	0	0.0918	0	0		A	40800320	A	A	40800320	3	1	53	1	0	0	0	0	1	0	0	0	14249	1116	39	1	241	1	SGSM3	22	40800320	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08	8447885	40800320	10504246	60	38844											
ACO2	50	broad.mit.edu	37	chr22	41924552	41924552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgaaccacaccttcaacGagacgcagattgagtggttc	11	9	9	12	2	1	4	1	2	0	2	3	5	2	4	3	1	2	2	3	1	2	3	rs115203053	byFrequency	TCGA-BR-7722-01A-31D-2201-08	TCGA-BR-7722-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fa9cfba-0f49-47d0-ab54-9dd2144e0a73	1fd04123-dbaa-4c8c-9c89-b9cb1a30c14c	g.chr22:41924552G>A	uc003bac.2	+	18	2300	c.2278G>A	c.(2278-2280)GAG>AAG	p.E760K	ACO2_uc003bad.2_Missense_Mutation_p.E785K|POLR3H_uc003bae.2_RNA|POLR3H_uc003baf.2_3'UTR|POLR3H_uc003bag.2_3'UTR|POLR3H_uc003bai.2_3'UTR	NM_001098	NP_001089	Q99798	ACON_HUMAN	aconitase 2, mitochondrial precursor	760					citrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron ion binding|isocitrate hydro-lyase (cis-aconitate-forming) activity			breast(2)|ovary(1)|lung(1)	4						CACCTTCAACGAGACGCAGAT	0.607													18	38					0	0	0.038395	0	0		A	41924552	A	A	41924552	3	1	53	1	0	0	0	0	1	0	0	0	147	1059	37	1	2348	1	ACO2	22	41924552	Missense_Mutation	SNP	G	TCGA-BR-7722-01A-31D-2201-08	1124232	41924552	9380014	61	38845											
CLSTN1	22883	broad.mit.edu	37	chr1	9795564	9795564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtctgcgaattccgggcGtggggaactgccgggagttc	6	9	17	9	4	1	1	0	1	1	0	3	4	2	3	2	4	3	1	2	4	2	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:9795564G>A	uc001aqh.2	-	13	2603	c.1844C>T	c.(1843-1845)ACG>ATG	p.T615M	CLSTN1_uc001aqi.2_Missense_Mutation_p.T605M|CLSTN1_uc010oag.1_Missense_Mutation_p.T596M|CLSTN1_uc001aqf.2_5'Flank	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	615	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		AATTCCGGGCGTGGGGAACTG	0.507													27	184					0	0	0.009535	0	0		A	9795564	A	A	9795564	3	1	54	1	0	0	0	0	1	0	0	0	3564	1145	40	1	1129	1	CLSTN1	1	9795564	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08		9795564	239455057	1	38846											
PRAMEF10	343071	broad.mit.edu	37	chr1	12955434	12955434	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgtatcaagtcccctcAggacagcttgcaaggtctcc	9	9	9	14	0	3	0	2	0	1	0	5	1	4	1	4	2	2	3	4	2	3	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:12955434A>T	uc001auo.2	-	2	318	c.245T>A	c.(244-246)CTG>CAG	p.L82Q		NM_001039361	NP_001034450	O60809	PRA10_HUMAN	PRAME family member 10	82											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AAGTCCCCTCAGGACAGCTTG	0.597													3	42					0	0	0.009096	0	0		T	12955434	T	T	12955434	3	4	54	1	0	0	0	0	1	0	0	0	12448	188	7	5	1191	5	PRAMEF10	1	12955434	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	3159870	12955434	236295187	2	38847											
LRRIQ3	127255	broad.mit.edu	37	chr1	74648428	74648428	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catagtgagggcaatgagggTtggacaggcagataatacac	14	7	14	6	0	0	3	0	2	0	1	0	4	0	4	0	4	1	3	0	4	4	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:74648428T>G	uc001dfy.3	-	3	559	c.367A>C	c.(367-369)ACC>CCC	p.T123P	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	123										ovary(2)	2						GCAATGAGGGTTGGACAGGCA	0.368													39	34					0	0	0.01441	0	0		G	74648428	G	G	74648428	3	3	54	1	0	0	0	0	1	0	0	0	9048	1725	60	5	1531	5	LRRIQ3	1	74648428	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	61692994	74648428	174602193	3	38848											
TNNI3K	51086	broad.mit.edu	37	chr1	74957799	74957799	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgatgtctcctgcatcaAgtaacagcagtgggtctctc	9	11	10	11	0	3	1	1	1	2	0	6	1	3	1	1	1	4	4	1	1	2	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:74957799A>C	uc001dgf.1	+	23	2251	c.2200A>C	c.(2200-2202)AGT>CGT	p.S734R	TNNI3K_uc001dge.1_Missense_Mutation_p.S835R	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	734	Poly-Ser.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						TCCTGCATCAAGTAACAGCAG	0.453													36	185					0	0	0.00874	0	0		C	74957799	C	C	74957799	3	2	54	1	0	0	0	0	1	0	0	0	16354	72	3	5	2645	5	TNNI3K	1	74957799	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	309371	74957799	174292822	4	38849											
ELTD1	64123	broad.mit.edu	37	chr1	79404899	79404899	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaagttttattaatatttgCagctatacagacattatcta	15	17	4	5	0	1	1	0	0	1	1	1	1	1	1	0	0	3	3	0	0	9	10			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:79404899C>A	uc001diq.3	-	4	526	c.370G>T	c.(370-372)GCA>TCA	p.A124S		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	124	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		TTAATATTTGCAGCTATACAG	0.244													10	18					2.27111e-07	2.44091e-07	0.013537	1	0		A	79404899	A	A	79404899	3	1	54	1	0	0	0	0	1	0	0	0	5092	710	25	5	1750	5	ELTD1	1	79404899	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	4447100	79404899	169845722	5	38850											
GJA8	2703	broad.mit.edu	37	chr1	147381267	147381267	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagaaggtgtcaaagcaaggGctgccagctgagaagacacc	14	4	14	9	0	1	3	1	1	0	3	1	5	1	3	2	2	3	3	2	2	4	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:147381267G>T	uc001epu.1	+	2	1248	c.1185G>T	c.(1183-1185)GGG>GGT	p.G395G		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	395	Cytoplasmic (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					CAAAGCAAGGGCTGCCAGCTG	0.577													4	37					2.56e-06	2.7386e-06	0.009096	1	0		T	147381267	T	T	147381267	2	4	54	1	0	0	0	0	0	0	0	1	6420	1190	42	5		5	GJA8	1	147381267	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	67976368	147381267	101869354	6	38851											
FLG2	388698	broad.mit.edu	37	chr1	152323733	152323733	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggactcactgtgactagatcTttgtcttccagttgtcctgg	6	15	10	10	0	3	2	1	1	2	1	5	3	5	3	2	2	0	1	2	2	1	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:152323733T>C	uc001ezw.3	-	3	6602	c.6529A>G	c.(6529-6531)AGA>GGA	p.R2177G	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	2177	Filaggrin 10.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGACTAGATCTTTGTCTTCCA	0.512													48	326					0	0	0.01441	0	0		C	152323733	C	C	152323733	3	2	54	1	0	0	0	0	1	0	0	0	5937	1617	56	3	650	3	FLG2	1	152323733	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	4942466	152323733	96926888	7	38852											
CD1C	911	broad.mit.edu	37	chr1	158261177	158261177	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcaagaccatgcaagtcaAgattactcgaaatgtaagtt	16	11	7	7	1	2	2	2	0	0	2	3	3	2	2	1	0	2	3	1	0	6	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:158261177A>T	uc001fru.2	+	2	607	c.315A>T	c.(313-315)CAA>CAT	p.Q105H	CD1C_uc001frv.2_5'Flank	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	105	Extracellular (Potential).				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					ATGCAAGTCAAGATTACTCGA	0.373													13	103					0	0	0.004007	0	0		T	158261177	T	T	158261177	3	4	54	1	0	0	0	0	1	0	0	0	2979	69	3	5	321	5	CD1C	1	158261177	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	5937444	158261177	90989444	8	38853											
CD1E	913	broad.mit.edu	37	chr1	158324361	158324361	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccctggtcccatggaaacTtcagcaagcaggagctgaaa	13	6	11	11	0	1	1	1	1	0	0	2	3	2	3	2	3	5	3	2	3	3	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:158324361T>G	uc001fse.2	+	2	492	c.253T>G	c.(253-255)TTC>GTC	p.F85V	CD1E_uc010pid.1_Missense_Mutation_p.F83V|CD1E_uc010pie.1_Intron|CD1E_uc010pif.1_Intron|CD1E_uc001fsd.2_Missense_Mutation_p.F85V|CD1E_uc001fsk.2_Missense_Mutation_p.F85V|CD1E_uc001fsj.2_Missense_Mutation_p.F85V|CD1E_uc001fsc.2_Intron|CD1E_uc010pig.1_Intron|CD1E_uc001fsa.2_Intron|CD1E_uc001fsf.2_Missense_Mutation_p.F85V|CD1E_uc001fry.2_Missense_Mutation_p.F85V|CD1E_uc001fsg.2_Intron|CD1E_uc001fsh.2_Intron|CD1E_uc001fsi.2_Missense_Mutation_p.F85V|CD1E_uc009wsv.2_Intron|CD1E_uc001frz.2_Missense_Mutation_p.F85V|CD1E_uc009wsw.2_5'Flank	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	85					antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					CCATGGAAACTTCAGCAAGCA	0.498													3	35					0	0	0.004672	0	0		G	158324361	G	G	158324361	3	3	54	1	0	0	0	0	1	0	0	0	2981	1609	56	5	259	5	CD1E	1	158324361	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	63184	158324361	90926260	9	38854											
NR5A2	2494	broad.mit.edu	37	chr1	200090021	200090021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagttagtggcaaaacttcGttctctccagtttgatcaac	10	13	9	9	1	2	1	1	1	1	0	5	2	3	2	1	2	2	4	1	2	4	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:200090021G>A	uc001gvb.2	+	7	1522	c.1316G>A	c.(1315-1317)CGT>CAT	p.R439H	NR5A2_uc001gvc.2_Missense_Mutation_p.R393H|NR5A2_uc009wzh.2_Missense_Mutation_p.R399H|NR5A2_uc010pph.1_Missense_Mutation_p.R367H	NM_205860	NP_995582	O00482	NR5A2_HUMAN	nuclear receptor subfamily 5, group A, member 2	439					embryo development|positive regulation of viral genome replication|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	lipid binding|protein binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Prostate(682;0.19)					GCAAAACTTCGTTCTCTCCAG	0.438													19	103					0	0	0.010504	0	0		A	200090021	A	A	200090021	3	1	54	1	0	0	0	0	1	0	0	0	10655	1145	40	1	1342	1	NR5A2	1	200090021	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	41765660	200090021	49160600	10	38855											
IGFN1	91156	broad.mit.edu	37	chr1	201185695	201185695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggactgtagagtgctacGtggtggagagacggcaggct	8	7	18	8	3	0	2	0	0	0	2	0	5	0	4	1	5	2	4	1	5	2	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:201185695G>A	uc001gwc.2	+	5	1661	c.889G>A	c.(889-891)GTG>ATG	p.V297M	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						AGAGTGCTACGTGGTGGAGAG	0.667													10	18					0	0	0.006214	0	0		A	201185695	A	A	201185695	3	1	54	1	0	0	0	0	1	0	0	0	7606	1145	40	1	9467	1	IGFN1	1	201185695	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	1095674	201185695	48064926	11	38856											
C4BPA	722	broad.mit.edu	37	chr1	207317917	207317917	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaggctgtgaacaagtgcTcacaggcaaaagactcatgc	14	6	11	10	1	2	2	2	1	0	1	2	3	2	2	0	2	3	3	0	2	5	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:207317917T>C	uc001hfo.2	+	12	1843	c.1649T>C	c.(1648-1650)CTC>CCC	p.L550P		NM_000715	NP_000706	P04003	C4BPA_HUMAN	complement component 4 binding protein, alpha	550					complement activation, classical pathway|innate immune response	extracellular region	protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						GAACAAGTGCTCACAGGCAAA	0.463													51	72					0	0	0.01441	0	0		C	207317917	C	C	207317917	3	2	54	1	0	0	0	0	1	0	0	0	2252	1551	54	3	1691	3	C4BPA	1	207317917	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	6132222	207317917	41932704	12	38857											
HHIPL2	79802	broad.mit.edu	37	chr1	222721161	222721161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaccgggcagcgatgcggcGgtccttgtgctgatcacagc	6	8	15	12	4	1	1	1	1	0	0	2	2	2	1	2	3	5	3	2	3	1	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:222721161G>A	uc001hnh.1	-	1	284	c.226C>T	c.(226-228)CGC>TGC	p.R76C		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	76					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		GCGATGCGGCGGTCCTTGTGC	0.532													14	88					0	0	0.00245	0	0		A	222721161	A	A	222721161	3	1	54	1	0	0	0	0	1	0	0	0	7110	1116	39	1	1984	1	HHIPL2	1	222721161	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	15403244	222721161	26529460	13	38858											
OR2B11	127623	broad.mit.edu	37	chr1	247614817	247614817	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacgaaggagttgccgaaGccactgagccaggccagagc	11	4	14	12	2	0	2	0	1	0	1	0	5	0	3	4	2	5	2	4	2	2	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:247614817G>T	uc010pyx.1	-	1	468	c.468C>A	c.(466-468)GGC>GGA	p.G156G		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			AGTTGCCGAAGCCACTGAGCC	0.612													21	23					2.21704e-12	2.42818e-12	0.00278	1	0		T	247614817	T	T	247614817	2	4	54	1	0	0	0	0	0	0	0	1	11007	958	34	5		5	OR2B11	1	247614817	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	24893656	247614817	1635804	14	38859											
OR14A16	284532	broad.mit.edu	37	chr1	247978499	247978499	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctaataactggggaatgTcacagaagaactgatggacc	15	8	11	7	0	1	3	1	1	0	2	1	5	1	5	1	3	3	1	1	3	6	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:247978499T>A	uc001idm.1	-	1	533	c.533A>T	c.(532-534)GAC>GTC	p.D178V		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	178	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTGGGGAATGTCACAGAAGAA	0.413													32	46					0	0	0.010818	0	0		A	247978499	A	A	247978499	3	1	54	1	0	0	0	0	1	0	0	0	10964	1667	58	5	400	5	OR14A16	1	247978499	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	363682	247978499	1272122	15	38860											
OR2M5	127059	broad.mit.edu	37	chr1	248308897	248308897	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgactgccttctcctggAtcctgggctctatggatgca	6	14	10	11	0	2	1	0	1	2	0	4	3	3	3	3	3	2	2	3	3	2	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:248308897A>G	uc010pze.1	+	1	448	c.448A>G	c.(448-450)ATC>GTC	p.I150V		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			CTTCTCCTGGATCCTGGGCTC	0.458													34	289					0	0	0.004878	0	0		G	248308897	G	G	248308897	3	3	54	1	0	0	0	0	1	0	0	0	11032	333	12	3	450	3	OR2M5	1	248308897	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	330398	248308897	941724	16	38861											
OR2T1	26696	broad.mit.edu	37	chr1	248569626	248569626	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccttcatacacccatgtacTtcctcctcagccacctttcc	7	12	3	19	0	2	0	2	0	0	0	5	0	5	0	7	0	3	1	7	0	2	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr1:248569626T>G	uc010pzm.1	+	1	331	c.331T>G	c.(331-333)TTC>GTC	p.F111V		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	111	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ACCCATGTACTTCCTCCTCAG	0.428													59	110					0	0	0.01441	0	0		G	248569626	G	G	248569626	3	3	54	1	0	0	0	0	1	0	0	0	11035	1609	56	5	333	5	OR2T1	1	248569626	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	260729	248569626	680995	17	38862											
TPO	7173	broad.mit.edu	37	chr2	1497732	1497732	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggaggcttagctgaaaacTtcctccccagggctcggaca	9	8	12	12	1	0	1	0	1	0	0	3	3	2	3	3	4	2	3	3	4	3	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:1497732T>C	uc002qww.2	+	11	2018	c.1927T>C	c.(1927-1929)TTC>CTC	p.F643L	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.F586L|TPO_uc002qwr.2_Missense_Mutation_p.F643L|TPO_uc002qwx.2_Missense_Mutation_p.F586L|TPO_uc010yio.1_Missense_Mutation_p.F470L|TPO_uc010yip.1_Missense_Mutation_p.F643L|TPO_uc002qwy.1_5'UTR|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	643	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	AGCTGAAAACTTCCTCCCCAG	0.582													4	40					0	0	0.000602	0	0		C	1497732	C	C	1497732	3	2	54	1	0	0	0	0	1	0	0	0	16436	1609	56	3	1965	3	TPO	2	1497732	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08		1497732	241701641	18	38863											
XDH	7498	broad.mit.edu	37	chr2	31572645	31572645	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaggtgaaaccctcaagcTtctggttgaagtgtgtcagg	10	10	13	8	0	3	2	2	2	1	0	3	2	3	2	1	3	2	3	1	3	4	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:31572645T>G	uc002rnv.1	-	26	2955	c.2876A>C	c.(2875-2877)AAG>ACG	p.K959T		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	959					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	ACCCTCAAGCTTCTGGTTGAA	0.502													16	70					0	0	0.00499	0	0		G	31572645	G	G	31572645	3	3	54	1	0	0	0	0	1	0	0	0	17452	1609	56	5	1169	5	XDH	2	31572645	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	30074913	31572645	211626728	19	38864											
BIRC6	57448	broad.mit.edu	37	chr2	32602775	32602775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatcttgttgttagacactGctctgcaaactccagtttca	10	14	7	10	0	3	1	1	0	2	1	4	2	4	1	1	0	3	5	1	0	3	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:32602775G>A	uc010ezu.2	+	2	579	c.445G>A	c.(445-447)GCT>ACT	p.A149T		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	149					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					GTTAGACACTGCTCTGCAAAC	0.388													5	77					0	0	0.001168	0	0		A	32602775	A	A	32602775	3	1	54	1	0	0	0	0	1	0	0	0	1439	1319	46	2	451	2	BIRC6	2	32602775	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	1030130	32602775	210596598	20	38865											
BIRC6	57448	broad.mit.edu	37	chr2	32724719	32724719	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagttagtactatttctgcCgtgatagaatcggttacatt	10	16	8	7	2	2	2	1	1	1	1	3	2	2	2	1	1	3	3	1	1	6	7			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:32724719C>T	uc010ezu.2	+	46	8708	c.8574C>T	c.(8572-8574)GCC>GCT	p.A2858A		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	2858					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					CTATTTCTGCCGTGATAGAAT	0.443													20	105					0	0	0.008871	0	0		T	32724719	T	T	32724719	2	4	54	1	0	0	0	0	0	0	0	1	1439	639	23	1		1	BIRC6	2	32724719	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08	121944	32724719	210474654	21	38866											
FSHR	2492	broad.mit.edu	37	chr2	49381499	49381499	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcagtgacagatccgatGatgacatcctgagcccaagc	13	6	11	11	1	0	6	0	4	0	2	2	7	2	6	3	0	3	1	3	0	1	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:49381499G>T	uc002rww.2	-	1	132	c.58C>A	c.(58-60)CAT>AAT	p.H20N	FSHR_uc002rwx.2_Missense_Mutation_p.H20N|FSHR_uc010fbn.2_Missense_Mutation_p.H20N|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	20	LRRNT.|Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	CAGATCCGATGATGACATCCT	0.498									Gonadal_Dysgenesis_46_XX				8	27					2.17888e-05	2.3201e-05	0.006214	1	0		T	49381499	T	T	49381499	3	4	54	1	0	0	0	0	1	0	0	0	6087	1290	45	5	2069	5	FSHR	2	49381499	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	16656780	49381499	193817874	22	38867											
PROKR1	10887	broad.mit.edu	37	chr2	68882556	68882556	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacactctgtgcttcgtgAccgtcaagaacgacaccgtc	10	9	8	14	4	3	2	2	1	1	1	5	3	3	2	2	0	3	1	2	0	3	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:68882556A>G	uc010yqj.1	+	2	1030	c.1030A>G	c.(1030-1032)ACC>GCC	p.T344A	PROKR1_uc002ses.2_RNA	NM_138964	NP_620414	Q8TCW9	PKR1_HUMAN	G protein-coupled receptor 73	344	Cytoplasmic (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1						GTGCTTCGTGACCGTCAAGAA	0.507													6	47					0	0	0.004482	0	0		G	68882556	G	G	68882556	3	3	54	1	0	0	0	0	1	0	0	0	12574	275	10	3	1036	3	PROKR1	2	68882556	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	19501057	68882556	174316817	23	38868											
ST6GAL2	84620	broad.mit.edu	37	chr2	107459867	107459867	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagcctgtcgccgtcgtcGccctcctccaacacgtggct	5	9	9	18	5	0	0	0	0	0	0	5	0	2	0	5	1	3	1	5	1	2	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:107459867G>A	uc002tdq.2	-	2	686	c.567C>T	c.(565-567)GGC>GGT	p.G189G	ST6GAL2_uc002tdr.2_Silent_p.G189G|ST6GAL2_uc002tds.3_Silent_p.G189G	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	189	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						CGCCGTCGTCGCCCTCCTCCA	0.642													19	33					0	0	0.007413	0	0		A	107459867	A	A	107459867	2	1	54	1	0	0	0	0	0	0	0	1	15247	1074	38	1		1	ST6GAL2	2	107459867	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	38577311	107459867	135739506	24	38869											
RGPD4	285190	broad.mit.edu	37	chr2	108488742	108488742	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagggacagaaagagtatggGtgtggactgcatgtgatttt	12	11	15	3	0	0	3	0	1	0	2	0	5	0	5	0	3	1	2	0	3	3	3	rs147825872		TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:108488742G>T	uc010ywk.1	+	20	4364	c.4282G>T	c.(4282-4284)GTG>TTG	p.V1428L	RGPD4_uc002tdu.2_Missense_Mutation_p.V615L|RGPD4_uc010ywl.1_Intron	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	1428	RanBD1 2.				intracellular transport		binding			skin(2)	2						AAGAGTATGGGTGTGGACTGC	0.368													4	271					0.00909568	0.00933931	0.009096	1	0		T	108488742	T	T	108488742	3	4	54	1	0	0	0	0	1	0	0	0	13313	1261	44	5	4360	5	RGPD4	2	108488742	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	1028875	108488742	134710631	25	38870											
LRP1B	53353	broad.mit.edu	37	chr2	141812802	141812802	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gccccctggcattccatatgGatcgacttcacatgcatggc	8	10	9	14	1	1	0	1	0	0	0	3	2	2	1	3	3	1	2	3	3	1	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:141812802G>C	uc002tvj.1	-	10	2407	c.1435C>G	c.(1435-1437)CCA>GCA	p.P479A	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	479	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATTCCATATGGATCGACTTCA	0.433										TSP Lung(27;0.18)			10	12					0	0	0.010729	0	0		C	141812802	C	C	141812802	3	2	54	1	0	0	0	0	1	0	0	0	8973	1174	41	5	12692	5	LRP1B	2	141812802	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	33324060	141812802	101386571	26	38871											
SCN3A	6328	broad.mit.edu	37	chr2	165986737	165986737	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtttcctagagcccccaCagaattgccaatgatcttaa	12	10	8	11	0	1	3	0	1	1	2	2	4	2	3	4	1	2	1	4	1	4	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:165986737C>A	uc002ucx.2	-	17	3127	c.2635G>T	c.(2635-2637)GTG>TTG	p.V879L	SCN3A_uc002ucy.2_Missense_Mutation_p.V830L|SCN3A_uc002ucz.2_Missense_Mutation_p.V830L|SCN3A_uc002uda.1_Missense_Mutation_p.V699L|SCN3A_uc002udb.1_Missense_Mutation_p.V699L	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	879						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	AGAGCCCCCACAGAATTGCCA	0.428													5	87					3.59834e-05	3.77907e-05	0.001168	1	0		A	165986737	A	A	165986737	3	1	54	1	0	0	0	0	1	0	0	0	13943	478	17	5	3415	5	SCN3A	2	165986737	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	24173935	165986737	77212636	27	38872											
SCN9A	6335	broad.mit.edu	37	chr2	167055965	167055965	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagatgggttaccacagtcTccttcaactgaacttccagg	11	10	8	12	0	2	2	1	1	1	1	4	2	3	2	3	2	3	1	3	2	3	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:167055965T>C	uc010fpl.2	-	27	5492	c.5151A>G	c.(5149-5151)GGA>GGG	p.G1717G	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1728	IV.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	TACCACAGTCTCCTTCAACTG	0.433													50	244					0	0	0.01441	0	0		C	167055965	C	C	167055965	2	2	54	1	0	0	0	0	0	0	0	1	13950	1538	54	3		3	SCN9A	2	167055965	Silent	SNP	T	TCGA-BR-7723-01A-11D-2053-08	1069228	167055965	76143408	28	38873											
WIPF1	7456	broad.mit.edu	37	chr2	175431818	175431818	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggctttcgtttcttgccAgtttgctgggataacttttg	4	18	10	9	2	1	0	0	0	1	0	3	1	2	1	2	2	3	4	2	2	1	7			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:175431818A>G	uc002uiy.2	-	8	1768	c.1436T>C	c.(1435-1437)CTG>CCG	p.L479P	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Missense_Mutation_p.L479P|WIPF1_uc010fqt.1_Missense_Mutation_p.L479P|WIPF1_uc002uiz.2_Missense_Mutation_p.L479P|WIPF1_uc002ujb.1_Missense_Mutation_p.L479P	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	479					actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						GTTTCTTGCCAGTTTGCTGGG	0.468													4	48					0	0	0.009096	0	0		G	175431818	G	G	175431818	3	3	54	1	0	0	0	0	1	0	0	0	17393	188	7	3	83	3	WIPF1	2	175431818	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	8375853	175431818	67767555	29	38874											
TTN	7273	broad.mit.edu	37	chr2	179407393	179407393	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcacacatccttaccaagAatgataactttaatggtttc	13	14	5	9	0	1	2	1	1	0	1	3	2	2	2	2	1	2	1	2	1	5	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:179407393A>T	uc010zfg.1	-	297	89708	c.89484T>A	c.(89482-89484)ATT>ATA	p.I29828I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.I23523I|TTN_uc010zfi.1_Silent_p.I23456I|TTN_uc010zfj.1_Silent_p.I23331I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30755							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCTTACCAAGAATGATAACTT	0.333													57	111					0	0	0.01441	0	0		T	179407393	T	T	179407393	2	4	54	1	0	0	0	0	0	0	0	1	16761	242	9	5		5	TTN	2	179407393	Silent	SNP	A	TCGA-BR-7723-01A-11D-2053-08	3975575	179407393	63791980	30	38875											
ZDBF2	57683	broad.mit.edu	37	chr2	207174303	207174303	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccgactgcagaaagctcAcaaagaagccagtcttcgga	14	6	9	12	2	3	2	2	0	1	2	4	4	3	3	2	1	3	2	2	1	3	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:207174303A>G	uc002vbp.2	+	5	5301	c.5051A>G	c.(5050-5052)CAC>CGC	p.H1684R		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1684							nucleic acid binding|zinc ion binding			ovary(3)	3						CAGAAAGCTCACAAAGAAGCC	0.428													23	39					0	0	0.004656	0	0		G	207174303	G	G	207174303	3	3	54	1	0	0	0	0	1	0	0	0	17624	159	6	3	5061	3	ZDBF2	2	207174303	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	27766910	207174303	36025070	31	38876											
RPE	6120	broad.mit.edu	37	chr2	210884513	210884513	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaacgttctcttgatcggTgaaaccataaggagcccagt	13	9	10	9	2	1	3	0	2	1	1	3	4	1	4	2	2	3	1	2	2	3	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr2:210884513T>C	uc002vdn.2	+	6	690	c.685T>C	c.(685-687)TGA>CGA	p.*229R	RPE_uc002vdm.2_3'UTR|RPE_uc002vdo.2_Nonstop_Mutation_p.*179R|RPE_uc010zjf.1_Nonstop_Mutation_p.*200R|RPE_uc002vdp.2_Nonstop_Mutation_p.*176R|RPE_uc010fup.2_Nonstop_Mutation_p.*161R|RPE_uc002vdq.2_Nonstop_Mutation_p.*179R|RPE_uc002vdr.2_Nonstop_Mutation_p.*144R	NM_199229	NP_954699	Q96AT9	RPE_HUMAN	ribulose-5-phosphate-3-epimerase isoform 1	229					pentose-phosphate shunt	cytosol	metal ion binding|protein homodimerization activity|ribulose-phosphate 3-epimerase activity				0				Epithelial(149;0.00241)|Lung(261;0.041)|all cancers(144;0.0429)|LUSC - Lung squamous cell carcinoma(261;0.0431)		TCTTGATCGGTGAAACCATAA	0.423													3	16					0	0	0.009096	0	0		C	210884513	C	C	210884513	4	2	54	1	0	0	0	0	0	0	0	0	13569	1709	59	3	765	3	RPE	2	210884513	Nonstop_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	3710210	210884513	32314860	32	38877											
FANCD2	2177	broad.mit.edu	37	chr3	10088405	10088405	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacattctctgttcattacTtagtaagtgtcagagactat	11	16	7	7	0	3	1	2	0	1	1	4	2	3	1	0	0	2	3	0	0	5	7			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:10088405T>C	uc003buw.2	+	15	1354	c.1276T>C	c.(1276-1278)TTA>CTA	p.L426L	FANCD2_uc003bux.1_Silent_p.L426L|FANCD2_uc003buy.1_Silent_p.L426L|FANCD2_uc010hcw.1_5'Flank	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	426					DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		TGTTCATTACTTAGTAAGTGT	0.239			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				15	31					0	0	0.006122	0	0		C	10088405	C	C	10088405	2	2	54	1	0	0	0	0	0	0	0	1	5679	1606	56	3		3	FANCD2	3	10088405	Silent	SNP	T	TCGA-BR-7723-01A-11D-2053-08		10088405	187934025	33	38878											
FBLN2	2199	broad.mit.edu	37	chr3	13659633	13659633	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggcacagaggccgagcTgccgaacagcctgccgggcg	8	3	16	14	4	0	1	0	0	0	1	0	3	0	1	4	3	5	2	4	3	1	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:13659633T>C	uc011avb.1	+	6	1912	c.1787T>C	c.(1786-1788)CTG>CCG	p.L596P	FBLN2_uc011auz.1_Missense_Mutation_p.L622P|FBLN2_uc011ava.1_Missense_Mutation_p.L596P|FBLN2_uc011avc.1_Missense_Mutation_p.L596P	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	596						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			GAGGCCGAGCTGCCGAACAGC	0.602													41	101					0	0	0.011902	0	0		C	13659633	C	C	13659633	3	2	54	1	0	0	0	0	1	0	0	0	5713	1580	55	3	495	3	FBLN2	3	13659633	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	3571228	13659633	184362797	34	38879											
C3orf39	84892	broad.mit.edu	37	chr3	43122809	43122809	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctctgtggcctgtcggcTgagggccagctcctcctcca	3	10	13	15	1	1	1	0	1	1	0	5	1	4	1	5	4	1	3	5	4	0	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:43122809T>C	uc003cmq.1	-	2	256	c.115A>G	c.(115-117)AGC>GGC	p.S39G	C3orf39_uc003cmr.1_Missense_Mutation_p.S39G	NM_032806	NP_116195	Q8NAT1	AGO61_HUMAN	glycosyltransferase precursor	39						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)|skin(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0571)|Kidney(284;0.0718)		GCCTGTCGGCTGAGGGCCAGC	0.657													4	30					0	0	0.000602	0	0		C	43122809	C	C	43122809	3	2	54	1	0	0	0	0	1	0	0	0	2232	1580	55	3	1631	3	C3orf39	3	43122809	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	29463176	43122809	154899621	35	38880											
GRM2	2912	broad.mit.edu	37	chr3	51747059	51747059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacccttggaacaacagcCggaacccctggttccgtgaa	10	7	11	13	2	0	1	0	1	0	0	1	4	1	4	5	4	4	1	5	4	4	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:51747059C>T	uc010hlv.2	+	3	1260	c.1021C>T	c.(1021-1023)CGG>TGG	p.R341W	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	341	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	GAACAACAGCCGGAACCCCTG	0.617													9	15					0	0	0.006214	0	0		T	51747059	T	T	51747059	3	4	54	1	0	0	0	0	1	0	0	0	6813	643	23	1	1027	1	GRM2	3	51747059	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	8624250	51747059	146275371	36	38881											
PXK	54899	broad.mit.edu	37	chr3	58382783	58382783	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtactgaagtttcttcaTgacaagggattcccttatgg	10	14	10	7	0	2	2	1	2	1	0	3	3	3	3	1	3	1	2	1	3	5	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:58382783T>C	uc003djz.1	+	10	939	c.840T>C	c.(838-840)CAT>CAC	p.H280H	PXK_uc003djx.1_Silent_p.H280H|PXK_uc003djy.1_Silent_p.H263H|PXK_uc003dka.1_Silent_p.H280H|PXK_uc003dkb.1_Silent_p.H197H|PXK_uc003dkc.1_Silent_p.H263H|PXK_uc011bfe.1_Silent_p.H247H|PXK_uc010hnj.1_Silent_p.H247H|PXK_uc003dkd.1_Silent_p.H143H|PXK_uc010hnk.1_Silent_p.H54H	NM_017771	NP_060241	Q7Z7A4	PXK_HUMAN	PX domain containing serine/threonine kinase	280	Protein kinase.				cell communication|inflammatory response|negative regulation of ATPase activity|negative regulation of ion transport|regulation of synaptic transmission	centrosome|cytoplasm|nucleus|plasma membrane	actin binding|ATP binding|phosphatidylinositol binding|phosphatidylinositol binding|protein C-terminus binding|protein kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000249)|KIRC - Kidney renal clear cell carcinoma(10;0.00346)|Kidney(10;0.00368)|OV - Ovarian serous cystadenocarcinoma(275;0.22)		AGTTTCTTCATGACAAGGGAT	0.418													38	56					0	0	0.006999	0	0		C	58382783	C	C	58382783	2	2	54	1	0	0	0	0	0	0	0	1	12874	1461	51	3		3	PXK	3	58382783	Silent	SNP	T	TCGA-BR-7723-01A-11D-2053-08	6635724	58382783	139639647	37	38882											
ROBO1	6091	broad.mit.edu	37	chr3	79174627	79174627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtatagcccagcgaattgtCatcgttatcagaggtgggga	10	11	13	7	2	2	1	2	0	0	1	3	3	2	2	1	3	2	2	1	3	4	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:79174627C>T	uc003dqe.2	-	3	359	c.151G>A	c.(151-153)GAC>AAC	p.D51N		NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	51	Extracellular (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		AGCGAATTGTCATCGTTATCA	0.502													7	24					0	0	0.004482	0	0		T	79174627	T	T	79174627	3	4	54	1	0	0	0	0	1	0	0	0	13538	826	29	4	4992	4	ROBO1	3	79174627	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	20791844	79174627	118847803	38	38883											
IMPG2	50939	broad.mit.edu	37	chr3	100951810	100951810	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaattcattacaggcctgAaacttgcaagggttggcttc	12	11	10	8	0	1	1	1	1	0	0	2	2	1	1	1	3	3	3	1	3	5	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:100951810A>G	uc003duq.1	-	15	3251	c.3048T>C	c.(3046-3048)TTT>TTC	p.F1016F	IMPG2_uc011bhe.1_Silent_p.F879F|IMPG2_uc010hpj.1_RNA	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	1016	Extracellular (Potential).|EGF-like 1.				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						TACAGGCCTGAAACTTGCAAG	0.438													34	68					0	0	0.007835	0	0		G	100951810	G	G	100951810	2	3	54	1	0	0	0	0	0	0	0	1	7745	243	9	3		3	IMPG2	3	100951810	Silent	SNP	A	TCGA-BR-7723-01A-11D-2053-08	21777183	100951810	97070620	39	38884											
FAM55C	91775	broad.mit.edu	37	chr3	101540654	101540654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaccatccttcggaggatGttctcaggggttggagtata	9	11	13	8	1	1	0	1	0	1	0	4	4	2	3	2	5	0	3	2	5	2	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:101540654G>A	uc003dvn.2	+	8	2173	c.1536G>A	c.(1534-1536)ATG>ATA	p.M512I	FAM55C_uc010hpn.2_Missense_Mutation_p.M512I	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	512						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						TTCGGAGGATGTTCTCAGGGG	0.537													34	135					0	0	0.012213	0	0		A	101540654	A	A	101540654	3	1	54	1	0	0	0	0	1	0	0	0	5600	1377	48	4	1554	4	FAM55C	3	101540654	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	588844	101540654	96481776	40	38885											
KIAA1407	57577	broad.mit.edu	37	chr3	113761657	113761657	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacttgctaattcttgcttaAgtttggtgtctaaccagtca	9	16	7	9	0	3	0	1	0	2	0	3	0	3	0	1	1	3	3	1	1	3	7			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:113761657A>G	uc003eax.2	-	4	455	c.308T>C	c.(307-309)CTT>CCT	p.L103P	KIAA1407_uc011bin.1_RNA|KIAA1407_uc011bio.1_Missense_Mutation_p.L81P|KIAA1407_uc011bip.1_Missense_Mutation_p.L90P	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	103										ovary(2)	2						TTCTTGCTTAAGTTTGGTGTC	0.368													22	98					0	0	0.007291	0	0		G	113761657	G	G	113761657	3	3	54	1	0	0	0	0	1	0	0	0	8245	72	3	3	2558	3	KIAA1407	3	113761657	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	12221003	113761657	84260773	41	38886											
FSTL1	11167	broad.mit.edu	37	chr3	120115829	120115829	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgctcactctcttggtCttttcagctgtttcctttga	3	20	8	10	0	4	1	2	1	2	0	6	1	5	1	1	2	2	3	1	2	0	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:120115829C>A	uc003eds.2	-	11	1072	c.897G>T	c.(895-897)AAG>AAT	p.K299N	FSTL1_uc011bjh.1_Missense_Mutation_p.K264N|MIR198_hsa-mir-198|MI0000240_5'Flank	NM_007085	NP_009016	Q12841	FSTL1_HUMAN	follistatin-like 1 precursor	299					BMP signaling pathway	extracellular space	calcium ion binding|heparin binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.189)		CTCTCTTGGTCTTTTCAGCTG	0.403													52	132					5.19286e-32	5.76984e-32	0.01441	1	0		A	120115829	A	A	120115829	3	1	54	1	0	0	0	0	1	0	0	0	6091	912	32	5	33	5	FSTL1	3	120115829	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	6354172	120115829	77906601	42	38887											
HSPBAP1	79663	broad.mit.edu	37	chr3	122459454	122459454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctcctctttctgaaggcGgttcttcggacctctgtgct	3	15	10	13	2	4	1	0	1	4	0	6	2	5	2	3	3	2	2	3	3	1	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:122459454G>A	uc003efu.1	-	8	1328	c.1205C>T	c.(1204-1206)CCG>CTG	p.P402L	HSPBAP1_uc003eft.1_Missense_Mutation_p.P113L	NM_024610	NP_078886	Q96EW2	HBAP1_HUMAN	Hspb associated protein 1	402						cytoplasm				ovary(1)|lung(1)	2				GBM - Glioblastoma multiforme(114;0.0531)		TTCTGAAGGCGGTTCTTCGGA	0.493													29	188					0	0	0.013726	0	0		A	122459454	A	A	122459454	3	1	54	1	0	0	0	0	1	0	0	0	7441	1116	39	1	265	1	HSPBAP1	3	122459454	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	2343625	122459454	75562976	43	38888											
PLXND1	23129	broad.mit.edu	37	chr3	129277407	129277407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggatgttcacccagaacCggagaggaaggctgtggggt	10	7	16	8	1	2	2	2	0	0	2	2	5	2	4	2	6	1	2	2	6	2	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:129277407C>T	uc003emx.2	-	33	5409	c.5309G>A	c.(5308-5310)CGG>CAG	p.R1770Q	PLXND1_uc003emw.2_5'UTR|PLXND1_uc011blb.1_Missense_Mutation_p.R439Q	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1770	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						CACCCAGAACCGGAGAGGAAG	0.562													16	69					0	0	0.008871	0	0		T	129277407	T	T	129277407	3	4	54	1	0	0	0	0	1	0	0	0	12146	652	23	1	484	1	PLXND1	3	129277407	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	6817953	129277407	68745023	44	38889											
COL6A6	131873	broad.mit.edu	37	chr3	130354547	130354547	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taataaatgtatttagggtgAgattggggaccctggtggtc	10	13	14	4	0	0	1	0	1	0	1	1	3	0	2	1	5	0	1	1	5	5	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:130354547A>T	uc010htl.2	+	27	5064	c.5033A>T	c.(5032-5034)GAG>GTG	p.E1678V	COL6A6_uc003eni.3_5'UTR	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1678	Triple-helical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						ATTTAGGGTGAGATTGGGGAC	0.358													5	32					0	0	0.000602	0	0		T	130354547	T	T	130354547	3	4	54	1	0	0	0	0	1	0	0	0	3706	304	11	5	5139	5	COL6A6	3	130354547	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	1077140	130354547	67667883	45	38890											
DZIP1L	199221	broad.mit.edu	37	chr3	137822699	137822699	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggtctacatccagggtgcTaatgcgtctccagtccatgc	7	10	11	13	2	2	0	0	0	2	0	5	0	4	0	3	2	4	1	3	2	2	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:137822699T>G	uc003erq.2	-	2	478	c.115A>C	c.(115-117)AGC>CGC	p.S39R	DZIP1L_uc003err.1_Missense_Mutation_p.S39R	NM_173543	NP_775814	Q8IYY4	DZI1L_HUMAN	DAZ interacting protein 1-like	39						intracellular	zinc ion binding			ovary(1)|pancreas(1)	2						TCCAGGGTGCTAATGCGTCTC	0.592													135	113					0	0	0.01441	0	0		G	137822699	G	G	137822699	3	3	54	1	0	0	0	0	1	0	0	0	4870	1522	53	5	2257	5	DZIP1L	3	137822699	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	7468152	137822699	60199731	46	38891											
PAQR9	344838	broad.mit.edu	37	chr3	142681913	142681913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcgggatgaagtgcGtccagaagttgagcgtctcg	9	7	16	9	4	1	3	0	2	1	1	3	4	2	4	1	1	4	3	1	1	2	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:142681913G>A	uc003evg.2	-	1	266	c.266C>T	c.(265-267)ACG>ATG	p.T89M	PAQR9_uc003evf.1_5'Flank	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	89	Helical; (Potential).					integral to membrane	receptor activity				0						GATGAAGTGCGTCCAGAAGTT	0.632													29	34					0	0	0.003271	0	0		A	142681913	A	A	142681913	3	1	54	1	0	0	0	0	1	0	0	0	11461	1145	40	1	871	1	PAQR9	3	142681913	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	4859214	142681913	55340517	47	38892											
USP13	8975	broad.mit.edu	37	chr3	179460107	179460107	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggattacctgatgcagttAcctgtggccatggaggcggc	7	10	15	9	1	0	1	0	1	0	0	0	3	0	3	3	5	3	2	3	5	2	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr3:179460107A>T	uc003fkh.2	+	12	1584	c.1503A>T	c.(1501-1503)TTA>TTT	p.L501F	USP13_uc003fkf.2_Missense_Mutation_p.L501F	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	501					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			TGATGCAGTTACCTGTGGCCA	0.488													37	42					0	0	0.01441	0	0		T	179460107	T	T	179460107	3	4	54	1	0	0	0	0	1	0	0	0	17070	388	14	5	1549	5	USP13	3	179460107	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	36778194	179460107	18562323	48	38893											
ANK2	287	broad.mit.edu	37	chr4	114294571	114294571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctattccaaagttataaagcGtgttgtattgaagagtgaca	14	13	9	5	1	0	3	0	2	0	1	1	3	1	3	1	0	1	3	1	0	7	7			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr4:114294571G>A	uc003ibe.3	+	45	11925	c.11825G>A	c.(11824-11826)CGT>CAT	p.R3942H	ANK2_uc003ibd.3_Missense_Mutation_p.R1848H|ANK2_uc003ibf.3_Missense_Mutation_p.R1857H|ANK2_uc011cgc.1_Missense_Mutation_p.R1033H|ANK2_uc003ibg.3_Missense_Mutation_p.R872H|ANK2_uc003ibh.3_Missense_Mutation_p.R562H|ANK2_uc011cgd.1_Missense_Mutation_p.R1244H|ANK2_uc010imr.2_Missense_Mutation_p.R24H|ANK2_uc010ims.2_Missense_Mutation_p.R24H	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3909					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GTTATAAAGCGTGTTGTATTG	0.448													20	109					0	0	0.014323	0	0		A	114294571	A	A	114294571	3	1	54	1	0	0	0	0	1	0	0	0	621	1145	40	1	12068	1	ANK2	4	114294571	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08		114294571	76859705	49	38894											
C4orf31	79625	broad.mit.edu	37	chr4	121957572	121957572	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttctgcaggttttgactgtgGaaatatttacagaggacctt	10	15	10	6	0	1	2	0	1	1	1	1	4	1	4	1	3	2	2	1	3	3	7			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr4:121957572G>A	uc003idq.1	-	4	2081	c.1554C>T	c.(1552-1554)TTC>TTT	p.F518F		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	518	Fibronectin type-III 2.										0						TTTGACTGTGGAAATATTTAC	0.408													5	48					0	0	0.001984	0	0		A	121957572	A	A	121957572	2	1	54	1	0	0	0	0	0	0	0	1	2264	1165	41	4		4	C4orf31	4	121957572	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	7663001	121957572	69196704	50	38895											
PDGFC	56034	broad.mit.edu	37	chr4	157771489	157771489	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaccgtatttcttggataAgtatgaggaaaccttgggct	12	12	11	6	1	1	2	0	1	1	1	1	4	1	4	2	3	1	3	2	3	5	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr4:157771489A>C	uc003iph.1	-	2	689	c.198T>G	c.(196-198)ACT>ACG	p.T66T	PDGFC_uc003ipi.1_5'UTR|PDGFC_uc011cis.1_Intron|PDGFC_uc011cir.1_5'UTR	NM_016205	NP_057289	Q9NRA1	PDGFC_HUMAN	platelet-derived growth factor C precursor	66	CUB.				central nervous system development|platelet-derived growth factor receptor signaling pathway|positive regulation of cell division|positive regulation of DNA replication|positive regulation of fibroblast proliferation|vascular endothelial growth factor receptor signaling pathway	endoplasmic reticulum lumen|extracellular space|Golgi membrane|nucleus	cell surface binding|growth factor activity|platelet-derived growth factor receptor binding|protein homodimerization activity			ovary(1)|lung(1)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.08)|Kidney(143;0.0977)|COAD - Colon adenocarcinoma(41;0.212)		TTCTTGGATAAGTATGAGGAA	0.383													6	27					0	0	0.001984	0	0		C	157771489	C	C	157771489	2	2	54	1	0	0	0	0	0	0	0	1	11678	59	3	5		5	PDGFC	4	157771489	Silent	SNP	A	TCGA-BR-7723-01A-11D-2053-08	35813917	157771489	33382787	51	38896											
ADCY2	108	broad.mit.edu	37	chr5	7706939	7706939	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtgtggcgtgattggtCtgcagaagtggcaatatgat	8	13	14	6	1	1	3	0	2	1	1	2	3	2	3	1	3	1	2	1	3	3	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr5:7706939C>A	uc003jdz.1	+	8	1259	c.1192C>A	c.(1192-1194)CTG>ATG	p.L398M	ADCY2_uc011cmo.1_Missense_Mutation_p.L218M	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	398	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CGTGATTGGTCTGCAGAAGTG	0.507													20	133					5.26018e-13	5.78871e-13	0.012319	1	0		A	7706939	A	A	7706939	3	1	54	1	0	0	0	0	1	0	0	0	294	912	32	5	1222	5	ADCY2	5	7706939	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08		7706939	173208321	52	38897											
CENPH	64946	broad.mit.edu	37	chr5	68498798	68498798	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattagaaagaagagattgcGtatgtagaacactttttttt	14	16	8	3	1	0	4	0	0	0	4	0	5	0	4	0	0	2	2	0	0	7	9			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr5:68498798G>A	uc003jvp.2	+	7	574	c.487_splice	c.e7+1	p.Q163_splice	CENPH_uc010ixc.2_Splice_Site_p.Q144_splice	NM_022909	NP_075060	Q9H3R5	CENPH_HUMAN	centromere protein H						cell division|CenH3-containing nucleosome assembly at centromere|chromosome segregation|kinetochore organization|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm	kinetochore binding|protein binding			large_intestine(1)	1		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.41e-56)|Epithelial(20;1.29e-52)|all cancers(19;3.15e-48)|Lung(70;0.0178)		AAGAGATTGCGTATGTAGAAC	0.323													5	27					0	0	0.00308	0	0		A	68498798	A	A	68498798	5	1	54	1	0	0	0	0	0	0	1	0	3235	1159	40	1	514	1	CENPH	5	68498798	Splice_Site	SNP	G	TCGA-BR-7723-01A-11D-2053-08	60791859	68498798	112416462	53	38898											
VCAN	1462	broad.mit.edu	37	chr5	82816102	82816102	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagaattgtttccttattcTggtgataaaatattagtaga	14	17	7	3	0	1	3	0	1	1	2	2	3	2	3	1	1	0	2	1	1	8	9			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr5:82816102T>A	uc003kii.3	+	7	2333	c.1977T>A	c.(1975-1977)TCT>TCA	p.S659S	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Silent_p.S659S|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	659	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TTCCTTATTCTGGTGATAAAA	0.348													13	76					0	0	0.013537	0	0		A	82816102	A	A	82816102	2	1	54	1	0	0	0	0	0	0	0	1	17164	1567	55	5		5	VCAN	5	82816102	Silent	SNP	T	TCGA-BR-7723-01A-11D-2053-08	14317304	82816102	98099158	54	38899											
GPR98	84059	broad.mit.edu	37	chr5	90136635	90136635	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatgggactgccaacatcActcttgtctcagatgcagat	10	12	9	10	0	3	2	2	0	2	2	4	3	3	3	1	1	3	2	1	1	2	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr5:90136635A>G	uc003kju.2	+	78	16948	c.16852A>G	c.(16852-16854)ACT>GCT	p.T5618A	GPR98_uc003kjt.2_Missense_Mutation_p.T3324A|GPR98_uc003kjw.2_Missense_Mutation_p.T1279A	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	5618	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TGCCAACATCACTCTTGTCTC	0.443													19	50					0	0	0.014323	0	0		G	90136635	G	G	90136635	3	3	54	1	0	0	0	0	1	0	0	0	6737	159	6	3	17162	3	GPR98	5	90136635	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	7320533	90136635	90778625	55	38900											
RAPGEF6	51735	broad.mit.edu	37	chr5	130828379	130828379	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctccattaaggctgaattGtagaggggactcgcgggaag	10	8	14	9	2	0	2	0	1	0	1	2	4	1	4	2	4	0	2	2	4	4	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr5:130828379G>A	uc003kvn.1	-	14	1833	c.1627C>T	c.(1627-1629)CAA>TAA	p.Q543*	RAPGEF6_uc003kvp.1_Nonsense_Mutation_p.Q593*|RAPGEF6_uc003kvo.1_Nonsense_Mutation_p.Q543*|RAPGEF6_uc010jdi.1_Nonsense_Mutation_p.Q543*|RAPGEF6_uc010jdj.1_Nonsense_Mutation_p.Q543*|RAPGEF6_uc003kvq.2_Nonsense_Mutation_p.Q260*|RAPGEF6_uc003kvr.2_Nonsense_Mutation_p.Q543*|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Nonsense_Mutation_p.Q543*	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	543	PDZ.				Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		AGGCTGAATTGTAGAGGGGAC	0.473													14	75					0	0	0.00499	0	0		A	130828379	A	A	130828379	4	1	54	1	0	0	0	0	0	1	0	0	13073	1386	48	4	3724	4	RAPGEF6	5	130828379	Nonsense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	40691744	130828379	50086881	56	38901											
PCDHB9	56127	broad.mit.edu	37	chr5	140569226	140569226	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccacctcccgccccataggGgtgggaaagaaatagaggaa	13	4	12	12	1	0	2	0	0	0	2	1	4	1	4	5	4	0	0	5	4	5	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr5:140569226G>T	uc003liw.1	+	3	2335	c.2335G>T	c.(2335-2337)GGT>TGT	p.G779C	PCDHB10_uc003lix.2_5'Flank	NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	779	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCCCATAGGGGTGGGAAAGA	0.443													39	80					1.41504e-22	1.5647e-22	0.011902	1	0		T	140569226	T	T	140569226	3	4	54	1	0	0	0	0	1	0	0	0	11568	1219	43	5	2336	5	PCDHB9	5	140569226	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	9740847	140569226	40346034	57	38902											
DOCK2	1794	broad.mit.edu	37	chr5	169423161	169423161	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagaacacacgaactttgAgttccaggtgagtataagcc	13	9	9	10	1	0	3	0	2	0	1	1	4	1	3	3	1	3	2	3	1	5	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr5:169423161A>C	uc003maf.2	+	30	3145	c.3065A>C	c.(3064-3066)GAG>GCG	p.E1022A	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.E514A	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1022	Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACGAACTTTGAGTTCCAGGTG	0.502													15	26					0	0	0.008871	0	0		C	169423161	C	C	169423161	3	2	54	1	0	0	0	0	1	0	0	0	4693	304	11	5	3183	5	DOCK2	5	169423161	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	28853935	169423161	11492099	58	38903											
TBC1D9B	23061	broad.mit.edu	37	chr5	179292354	179292354	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtccggagagctggtccccTtctcctctgcaggttaggag	6	10	13	12	1	2	1	0	0	2	1	5	3	4	2	4	4	2	3	4	4	1	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr5:179292354T>C	uc003mlh.2	-	21	3009	c.2972A>G	c.(2971-2973)AAG>AGG	p.K991R	TBC1D9B_uc003mli.2_Missense_Mutation_p.K974R|TBC1D9B_uc003mlj.2_Missense_Mutation_p.K973R|TBC1D9B_uc003mlf.2_Missense_Mutation_p.K65R|TBC1D9B_uc003mlg.2_Missense_Mutation_p.K150R|TBC1D9B_uc011dgv.1_Missense_Mutation_p.K150R	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	991						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCTGGTCCCCTTCTCCTCTGC	0.527													3	69					0	0	0.004672	0	0		C	179292354	C	C	179292354	3	2	54	1	0	0	0	0	1	0	0	0	15653	1609	56	3	788	3	TBC1D9B	5	179292354	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	9869193	179292354	1622906	59	38904											
SCAND3	114821	broad.mit.edu	37	chr6	28543668	28543668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacatcaaatctagccaagcGacggtagtcaactgattcct	14	9	7	11	2	3	1	2	1	1	0	4	2	4	1	2	1	4	1	2	1	6	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr6:28543668G>A	uc003nlo.2	-	3	1432	c.814C>T	c.(814-816)CGC>TGC	p.R272C		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	272	Potential.				DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CTAGCCAAGCGACGGTAGTCA	0.353													5	139					0	0	0.001168	0	0		A	28543668	A	A	28543668	3	1	54	1	0	0	0	0	1	0	0	0	13901	1058	37	1	3171	1	SCAND3	6	28543668	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08		28543668	142571399	60	38905											
BAI3	577	broad.mit.edu	37	chr6	69684674	69684674	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccttatgaaatatgcccTgaggattatctgatgtcgat	11	13	9	8	1	1	3	0	3	1	0	2	5	1	4	2	1	1	1	2	1	4	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr6:69684674T>C	uc003pev.3	+	9	1993	c.1545T>C	c.(1543-1545)CCT>CCC	p.P515P	BAI3_uc010kak.2_Silent_p.P515P	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	515	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AAATATGCCCTGAGGATTATC	0.418													3	94					0	0	0.009096	0	0		C	69684674	C	C	69684674	2	2	54	1	0	0	0	0	0	0	0	1	1301	1567	55	3		3	BAI3	6	69684674	Silent	SNP	T	TCGA-BR-7723-01A-11D-2053-08	41141006	69684674	101430393	61	38906											
RIMS1	22999	broad.mit.edu	37	chr6	72974729	72974729	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccaagatgcctttattacaGagcagttctcactggaatat	12	12	7	10	0	1	2	1	0	1	2	2	3	1	3	2	1	3	2	2	1	5	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr6:72974729G>A	uc003pga.2	+	20	3245	c.3168G>A	c.(3166-3168)CAG>CAA	p.Q1056Q	RIMS1_uc011dyb.1_Intron|RIMS1_uc003pgc.2_Intron|RIMS1_uc010kaq.2_Intron|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Intron|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Silent_p.Q273Q|RIMS1_uc003pge.2_Intron|RIMS1_uc011dye.1_Intron|RIMS1_uc011dyf.1_Intron|RIMS1_uc010kas.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1056					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				CTTTATTACAGAGCAGTTCTC	0.373													3	12					0	0	0.009096	0	0		A	72974729	A	A	72974729	2	1	54	1	0	0	0	0	0	0	0	1	13392	933	33	4		4	RIMS1	6	72974729	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	3290055	72974729	98140338	62	38907											
KCNQ5	56479	broad.mit.edu	37	chr6	73904338	73904338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggatagcaaagatctttCgggttccgcacaaaacagtg	12	10	11	8	2	1	1	0	0	1	1	3	2	2	2	1	2	2	3	1	2	4	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr6:73904338C>T	uc003pgk.2	+	14	2347	c.2000C>T	c.(1999-2001)TCG>TTG	p.S667L	KCNQ5_uc011dyh.1_Missense_Mutation_p.S686L|KCNQ5_uc011dyi.1_Missense_Mutation_p.S677L|KCNQ5_uc010kat.2_Missense_Mutation_p.S658L|KCNQ5_uc011dyj.1_Missense_Mutation_p.S557L|KCNQ5_uc011dyk.1_Missense_Mutation_p.S417L	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	667					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		AAAGATCTTTCGGGTTCCGCA	0.502													16	57					0	0	0.007413	0	0		T	73904338	T	T	73904338	3	4	54	1	0	0	0	0	1	0	0	0	8102	893	31	1	2115	1	KCNQ5	6	73904338	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	929609	73904338	97210729	63	38908											
ASCC3	10973	broad.mit.edu	37	chr6	101103582	101103582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagttttctacctgataaGccttgtgactgatgccatat	10	15	8	8	0	1	4	0	4	1	0	1	4	1	4	3	0	3	1	3	0	3	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr6:101103582G>A	uc003pqk.2	-	17	3145	c.2816C>T	c.(2815-2817)GCT>GTT	p.A939V	ASCC3_uc011eai.1_Missense_Mutation_p.A841V	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	939					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		TACCTGATAAGCCTTGTGACT	0.348													22	32					0	0	0.014323	0	0		A	101103582	A	A	101103582	3	1	54	1	0	0	0	0	1	0	0	0	1034	971	34	2	3896	2	ASCC3	6	101103582	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	27199244	101103582	70011485	64	38909											
REV3L	5980	broad.mit.edu	37	chr6	111696720	111696720	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccaatttccatgggatgAggtagactaatttttgagtt	11	15	9	6	0	1	3	1	2	0	1	2	4	2	4	2	2	0	2	2	2	3	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr6:111696720A>T	uc003puy.3	-	13	3161	c.2838T>A	c.(2836-2838)CCT>CCA	p.P946P	REV3L_uc003pux.3_Silent_p.P868P|REV3L_uc003puz.3_Silent_p.P868P	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	946					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		CCATGGGATGAGGTAGACTAA	0.358								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					9	18					0	0	0.008291	0	0		T	111696720	T	T	111696720	2	4	54	1	0	0	0	0	0	0	0	1	13265	291	11	5		5	REV3L	6	111696720	Silent	SNP	A	TCGA-BR-7723-01A-11D-2053-08	10593138	111696720	59418347	65	38910											
HSF2	3298	broad.mit.edu	37	chr6	122740353	122740353	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attggttcaaaataaccaacTtgtgagtttaaaacgtaaaa	18	12	6	5	1	1	1	1	1	0	0	1	1	1	1	1	1	3	3	1	1	8	7			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr6:122740353T>G	uc003pyu.2	+	6	759	c.572T>G	c.(571-573)CTT>CGT	p.L191R	HSF2_uc003pyt.3_Missense_Mutation_p.L191R|HSF2_uc003pyv.2_Missense_Mutation_p.L191R	NM_004506	NP_004497	Q03933	HSF2_HUMAN	heat shock transcription factor 2 isoform a	191	Hydrophobic repeat HR-A/B.				response to stress|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0				OV - Ovarian serous cystadenocarcinoma(136;0.00371)|all cancers(137;0.0299)|GBM - Glioblastoma multiforme(226;0.0586)		AATAACCAACTTGTGAGTTTA	0.274													5	32					0	0	0.001984	0	0		G	122740353	G	G	122740353	3	3	54	1	0	0	0	0	1	0	0	0	7412	1609	56	5	594	5	HSF2	6	122740353	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	11043633	122740353	48374714	66	38911											
SYNE1	23345	broad.mit.edu	37	chr6	152551776	152551776	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtttcaaaccatgttttcAgacattgtacattattttca	11	17	6	7	0	3	1	3	0	0	1	3	1	3	1	1	1	2	3	1	1	3	8			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr6:152551776A>T	uc010kiw.2	-	115	21703	c.21101T>A	c.(21100-21102)CTG>CAG	p.L7034Q	SYNE1_uc010kiv.2_Missense_Mutation_p.L1558Q|SYNE1_uc003qos.3_Missense_Mutation_p.L1558Q|SYNE1_uc003qot.3_Missense_Mutation_p.L6963Q|SYNE1_uc003qou.3_Missense_Mutation_p.L7034Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7034	Cytoplasmic (Potential).|Spectrin 22.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CCATGTTTTCAGACATTGTAC	0.353										HNSCC(10;0.0054)			13	43					0	0	0.013537	0	0		T	152551776	T	T	152551776	3	4	54	1	0	0	0	0	1	0	0	0	15470	188	7	5	5493	5	SYNE1	6	152551776	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	29811423	152551776	18563291	67	38912											
SP8	221833	broad.mit.edu	37	chr7	20824641	20824641	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgagttgtagcctccgagCggcgagtgcagcgaggtttg	6	9	16	10	5	0	0	0	0	0	0	2	4	2	0	3	2	4	4	3	2	1	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr7:20824641C>T	uc003suy.2	-	3	982	c.741G>A	c.(739-741)CCG>CCA	p.P247P	SP8_uc003suz.2_Silent_p.P265P	NM_198956	NP_945194	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor isoform 2	247					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						AGCCTCCGAGCGGCGAGTGCA	0.716													6	10					0	0	0.001984	0	0		T	20824641	T	T	20824641	2	4	54	1	0	0	0	0	0	0	0	1	14995	755	27	1		1	SP8	7	20824641	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08		20824641	138314022	68	38913											
NOD1	10392	broad.mit.edu	37	chr7	30491122	30491122	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagctttcgacctgaacGcggggcaggctcttcaggta	8	10	13	10	3	2	2	1	2	1	0	3	3	2	2	1	4	2	4	1	4	3	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr7:30491122G>A	uc003tav.2	-	6	2434	c.1911C>T	c.(1909-1911)CGC>CGT	p.R637R		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	637	LRR 1.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						CGACCTGAACGCGGGGCAGGC	0.637													3	20					0	0	0.009096	0	0		A	30491122	A	A	30491122	2	1	54	1	0	0	0	0	0	0	0	1	10535	1074	38	1		1	NOD1	7	30491122	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	9666481	30491122	128647541	69	38914											
PKD1L1	168507	broad.mit.edu	37	chr7	47894629	47894629	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acaaatgtcgttttatttctCctattatcctgtcatcacaa	11	17	3	10	1	3	0	2	0	1	0	6	0	4	0	2	0	0	1	2	0	5	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr7:47894629C>T	uc003tny.1	-	30	4710	c.4710G>A	c.(4708-4710)AGG>AGA	p.R1570R		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	1570	Extracellular (Potential).|REJ.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						TTTTATTTCTCCTATTATCCT	0.358													9	30					0	0	0.010729	0	0		T	47894629	T	T	47894629	2	4	54	1	0	0	0	0	0	0	0	1	11983	854	30	4		4	PKD1L1	7	47894629	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08	17403507	47894629	111244034	70	38915											
PCLO	27445	broad.mit.edu	37	chr7	82544566	82544566	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtctgtaatattttttcTgaggccaaaagtgatgtcat	10	17	9	5	0	3	2	1	2	2	0	3	2	3	2	1	2	0	1	1	2	4	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr7:82544566T>C	uc003uhx.2	-	7	13025	c.12736A>G	c.(12736-12738)AGA>GGA	p.R4246G	PCLO_uc003uhv.2_Missense_Mutation_p.R4246G|PCLO_uc010lec.2_Missense_Mutation_p.R1211G	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4177					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ATATTTTTTCTGAGGCCAAAA	0.428													7	16					0	0	0.00308	0	0		C	82544566	C	C	82544566	3	2	54	1	0	0	0	0	1	0	0	0	11602	1588	55	3	2785	3	PCLO	7	82544566	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	34649937	82544566	76594097	71	38916											
PCLO	27445	broad.mit.edu	37	chr7	82545323	82545323	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacagcaaatgtgttatcCgtagaaacaggtgctatcat	15	10	9	7	1	1	1	1	0	0	1	2	2	2	1	1	1	4	4	1	1	6	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr7:82545323C>T	uc003uhx.2	-	7	12268	c.11979G>A	c.(11977-11979)ACG>ACA	p.T3993T	PCLO_uc003uhv.2_Silent_p.T3993T|PCLO_uc010lec.2_Silent_p.T958T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3924					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ATGTGTTATCCGTAGAAACAG	0.403													66	260					0	0	0.01441	0	0		T	82545323	T	T	82545323	2	4	54	1	0	0	0	0	0	0	0	1	11602	639	23	1		1	PCLO	7	82545323	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08	757	82545323	76593340	72	38917											
PCLO	27445	broad.mit.edu	37	chr7	82584206	82584206	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcctgaggcacaacagaAtgtaagctttctaactcata	13	12	6	10	0	3	2	1	1	2	1	4	2	4	2	1	1	3	3	1	1	5	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr7:82584206A>C	uc003uhx.2	-	5	6352	c.6063T>G	c.(6061-6063)CAT>CAG	p.H2021Q	PCLO_uc003uhv.2_Missense_Mutation_p.H2021Q	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1952					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GCACAACAGAATGTAAGCTTT	0.378													8	30					0	0	0.00308	0	0		C	82584206	C	C	82584206	3	2	54	1	0	0	0	0	1	0	0	0	11602	98	4	5	9466	5	PCLO	7	82584206	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	38883	82584206	76554457	73	38918											
PTCD1	26024	broad.mit.edu	37	chr7	99027390	99027390	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagacgttgaacagggccgTgtaggtggcgtccgagggct	8	7	17	9	4	0	2	0	1	0	1	1	3	1	2	2	4	1	3	2	4	2	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr7:99027390T>C	uc003uqh.2	-	4	765	c.634A>G	c.(634-636)ACG>GCG	p.T212A	PTCD1_uc011kiw.1_Missense_Mutation_p.T261A	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	212	PPR 3.									ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			AACAGGGCCGTGTAGGTGGCG	0.617													8	22					0	0	0.006214	0	0		C	99027390	C	C	99027390	3	2	54	1	0	0	0	0	1	0	0	0	12749	1696	59	3	1488	3	PTCD1	7	99027390	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	16443184	99027390	60111273	74	38919											
GIGYF1	64599	broad.mit.edu	37	chr7	100281681	100281681	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagctgctgcaggaatgcCgtgagctgctgctgctgctg	5	10	16	10	1	0	1	0	1	0	0	0	3	0	3	1	2	9	8	1	2	1	0	rs138722511	byFrequency	TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr7:100281681C>T	uc003uwg.1	-	15	2839	c.1830G>A	c.(1828-1830)ACG>ACA	p.T610T		NM_022574	NP_072096	O75420	PERQ1_HUMAN	PERQ amino acid rich, with GYF domain 1	610	Gln-rich.									large_intestine(1)|central_nervous_system(1)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					GCAGGAATGCCGTGAGCTGCT	0.697													5	12					0	0	0.001984	0	0		T	100281681	T	T	100281681	2	4	54	1	0	0	0	0	0	0	0	1	6392	639	23	1		1	GIGYF1	7	100281681	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08	1254291	100281681	58856982	75	38920											
OR2F1	26211	broad.mit.edu	37	chr7	143657492	143657492	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catggagggctgtgtgctagGttggccatcacatcctgggt	6	11	15	9	0	1	0	1	0	0	0	2	1	2	1	2	5	1	3	2	5	1	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr7:143657492G>A	uc003wds.1	+	1	473	c.429G>A	c.(427-429)AGG>AGA	p.R143R		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					TGTGTGCTAGGTTGGCCATCA	0.527													21	49					0	0	0.00333	0	0		A	143657492	A	A	143657492	2	1	54	1	0	0	0	0	0	0	0	1	11015	1252	44	4		4	OR2F1	7	143657492	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	43375811	143657492	15481171	76	38921											
MLL3	58508	broad.mit.edu	37	chr7	151970825	151970825	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcaatgtgttctggacaaAgcaggaagatgtgactgaaa	14	9	13	5	0	2	3	1	2	1	1	2	5	2	5	0	3	1	2	0	3	4	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr7:151970825A>C	uc003wla.2	-	7	1196	c.977T>G	c.(976-978)CTT>CGT	p.L326R		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	326					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTCTGGACAAAGCAGGAAGAT	0.398			N		medulloblastoma								6	180					0	0	0.006214	0	0		C	151970825	C	C	151970825	3	2	54	1	0	0	0	0	1	0	0	0	9640	72	3	5	13970	5	MLL3	7	151970825	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	8313333	151970825	7167838	77	38922											
CSGALNACT1	55790	broad.mit.edu	37	chr8	19362744	19362744	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggccgtgtaaggacggTgattggggctgttctctgca	7	10	16	8	2	1	2	0	1	1	1	2	3	1	3	1	5	1	4	1	5	1	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr8:19362744T>C	uc011kyn.1	-	4	1666	c.602A>G	c.(601-603)CAC>CGC	p.H201R	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.H201R|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.H200R|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	201	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		GTAAGGACGGTGATTGGGGCT	0.527													13	45					0	0	0.003163	0	0		C	19362744	C	C	19362744	3	2	54	1	0	0	0	0	1	0	0	0	3941	1696	59	3	1024	3	CSGALNACT1	8	19362744	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08		19362744	127001278	78	38923											
ADRA1A	148	broad.mit.edu	37	chr8	26628025	26628025	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtttggaagactgctttcTgcagagacactggattctca	10	13	10	8	0	2	2	1	0	2	2	3	5	2	4	0	2	2	3	0	2	1	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr8:26628025T>C	uc003xfh.1	-	2	1478	c.1042A>G	c.(1042-1044)AGA>GGA	p.R348G	ADRA1A_uc003xfc.1_Missense_Mutation_p.R348G|ADRA1A_uc010lul.1_Intron|ADRA1A_uc003xfd.1_Intron|ADRA1A_uc003xfe.1_Missense_Mutation_p.R348G|ADRA1A_uc010lum.1_Intron|ADRA1A_uc003xff.1_Intron|ADRA1A_uc003xfg.1_Missense_Mutation_p.R348G	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	348	Cytoplasmic (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	GACTGCTTTCTGCAGAGACAC	0.542													29	130					0	0	0.003271	0	0		C	26628025	C	C	26628025	3	2	54	1	0	0	0	0	1	0	0	0	334	1588	55	3	653	3	ADRA1A	8	26628025	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	7265281	26628025	119735997	79	38924											
GINS4	84296	broad.mit.edu	37	chr8	41399380	41399380	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgagagtgagagaacgacaAgaaaacatactggtagaacc	18	5	11	7	1	0	5	0	2	0	4	0	8	0	5	1	1	4	1	1	1	7	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr8:41399380A>C	uc003xnx.2	+	7	747	c.537A>C	c.(535-537)CAA>CAC	p.Q179H	GINS4_uc003xny.2_Missense_Mutation_p.Q179H	NM_032336	NP_115712	Q9BRT9	SLD5_HUMAN	GINS complex subunit 4	179	Important for GINS complex assembly.				DNA strand elongation involved in DNA replication|S phase of mitotic cell cycle	cytoplasm|nucleoplasm				skin(1)	1	Ovarian(28;0.014)|Colorectal(14;0.0202)|Lung SC(25;0.211)	all_lung(54;0.00732)|Lung NSC(58;0.0207)|Hepatocellular(245;0.0462)|Esophageal squamous(32;0.0844)	Colorectal(10;0.0014)|OV - Ovarian serous cystadenocarcinoma(14;0.00329)|LUSC - Lung squamous cell carcinoma(45;0.0137)|COAD - Colon adenocarcinoma(11;0.0147)			GAGAACGACAAGAAAACATAC	0.488													6	40					0	0	0.001168	0	0		C	41399380	C	C	41399380	3	2	54	1	0	0	0	0	1	0	0	0	6405	69	3	5	559	5	GINS4	8	41399380	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	14771355	41399380	104964642	80	38925											
ARMC1	55156	broad.mit.edu	37	chr8	66525479	66525479	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatctaacagaccttacCgtatcatcaaggccatctat	12	11	4	14	1	4	1	2	0	2	1	5	1	5	1	4	1	2	1	4	1	5	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr8:66525479C>A	uc003xvl.2	-	4	700	c.465G>T	c.(463-465)ACG>ACT	p.T155T	ARMC1_uc011leo.1_Intron	NM_018120	NP_060590	Q9NVT9	ARMC1_HUMAN	armadillo repeat-containing protein	155					metal ion transport		metal ion binding			skin(1)	1			Epithelial(68;0.103)|OV - Ovarian serous cystadenocarcinoma(28;0.235)			CAGACCTTACCGTATCATCAA	0.373													3	71					0.00024832	0.000256115	0.009096	1	0		A	66525479	A	A	66525479	2	1	54	1	0	0	0	0	0	0	0	1	950	666	23	5		5	ARMC1	8	66525479	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08	25126099	66525479	79838543	81	38926											
DPY19L4	286148	broad.mit.edu	37	chr8	95793379	95793379	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacccagatacagtggaacTtatgacctggataaagtaag	15	9	10	7	0	0	3	0	2	0	1	0	5	0	5	2	2	2	1	2	2	6	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr8:95793379T>C	uc003ygx.2	+	16	1824	c.1700T>C	c.(1699-1701)CTT>CCT	p.L567P		NM_181787	NP_861452	Q7Z388	D19L4_HUMAN	dpy-19-like 4	567						integral to membrane				ovary(2)	2	Breast(36;3.85e-06)					ACAGTGGAACTTATGACCTGG	0.303													12	47					0	0	0.006122	0	0		C	95793379	C	C	95793379	3	2	54	1	0	0	0	0	1	0	0	0	4749	1609	56	3	1762	3	DPY19L4	8	95793379	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	29267900	95793379	50570643	82	38927											
ZNF623	9831	broad.mit.edu	37	chr8	144733376	144733376	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccttcatccagagctccaAgctgcttctgcaccagatta	10	10	7	14	0	2	2	1	0	1	2	4	2	4	2	4	0	5	4	4	0	2	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr8:144733376A>G	uc003yzd.2	+	1	1423	c.1334A>G	c.(1333-1335)AAG>AGG	p.K445R	ZNF623_uc011lkp.1_Missense_Mutation_p.K405R|ZNF623_uc003yzc.2_Missense_Mutation_p.K405R	NM_014789	NP_055604	O75123	ZN623_HUMAN	zinc finger protein 623 isoform 1	445	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;5.28e-40)|all cancers(56;5.23e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CAGAGCTCCAAGCTGCTTCTG	0.483													9	83					0	0	0.008291	0	0		G	144733376	G	G	144733376	3	3	54	1	0	0	0	0	1	0	0	0	18072	72	3	3	1336	3	ZNF623	8	144733376	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	48939997	144733376	1630646	83	38928											
PARP10	84875	broad.mit.edu	37	chr8	145058498	145058498	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcccaggagaaacctggcGctgcccgggtgctccaggca	7	4	16	14	2	0	1	0	0	0	1	1	2	1	1	4	5	3	3	4	5	1	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr8:145058498G>A	uc003zal.3	-	6	1668	c.1560C>T	c.(1558-1560)AGC>AGT	p.S520S	PARP10_uc003zak.3_Silent_p.S226S|PARP10_uc011lku.1_Silent_p.S532S|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Silent_p.S520S	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	520						Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GAAACCTGGCGCTGCCCGGGT	0.647													10	25					0	0	0.006214	0	0		A	145058498	A	A	145058498	2	1	54	1	0	0	0	0	0	0	0	1	11474	1078	38	1		1	PARP10	8	145058498	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	325122	145058498	1305524	84	38929											
PARP10	84875	broad.mit.edu	37	chr8	145059121	145059121	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaccccatgggcatcgagCtgacttgctctgcctgtccc	6	9	11	15	1	1	2	0	1	1	1	3	4	2	2	4	1	3	3	4	1	0	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr8:145059121C>G	uc003zal.3	-	5	1157	c.1049G>C	c.(1048-1050)AGC>ACC	p.S350T	PARP10_uc003zak.3_Missense_Mutation_p.S56T|PARP10_uc011lku.1_Missense_Mutation_p.S362T|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Missense_Mutation_p.S350T|PARP10_uc010mfn.1_Missense_Mutation_p.S265T|PARP10_uc010mfo.1_3'UTR	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	350						Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGGCATCGAGCTGACTTGCTC	0.627													12	66					0	0	0.013537	0	0		G	145059121	G	G	145059121	3	3	54	1	0	0	0	0	1	0	0	0	11474	797	28	5	2056	5	PARP10	8	145059121	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	623	145059121	1304901	85	38930											
ADCK5	203054	broad.mit.edu	37	chr8	145608358	145608358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccctgctcctcggagccCgctatgtcatggcagaggca	6	7	12	16	3	1	1	1	0	0	1	3	2	2	2	4	3	2	4	4	3	1	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr8:145608358C>T	uc003zch.2	+	3	247	c.193C>T	c.(193-195)CGC>TGC	p.R65C	ADCK5_uc003zcg.2_RNA	NM_174922	NP_777582	Q3MIX3	ADCK5_HUMAN	aarF domain containing kinase 5	65	Helical; (Potential).					integral to membrane	protein serine/threonine kinase activity			stomach(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;8.96e-41)|Epithelial(56;4.08e-40)|all cancers(56;4.51e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			CCTCGGAGCCCGCTATGTCAT	0.677													3	3					0	0	0.009096	0	0		T	145608358	T	T	145608358	3	4	54	1	0	0	0	0	1	0	0	0	291	652	23	1	203	1	ADCK5	8	145608358	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	549237	145608358	755664	86	38931											
PPP1R16A	84988	broad.mit.edu	37	chr8	145722828	145722828	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgctgcccgaaatgaccTggaagaaggtgagtgtggct	9	7	16	9	2	0	3	0	2	0	1	0	5	0	4	3	4	1	2	3	4	3	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr8:145722828T>A	uc003zdd.2	+	2	1164	c.251T>A	c.(250-252)CTG>CAG	p.L84Q	uc003zde.1_Missense_Mutation_p.R96W|PPP1R16A_uc003zdf.2_Missense_Mutation_p.L84Q	NM_032902	NP_116291	Q96I34	PP16A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	84	ANK 1.					plasma membrane	protein binding				0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CGAAATGACCTGGAAGAAGGT	0.662													4	24					0	0	0.000602	0	0		A	145722828	A	A	145722828	3	1	54	1	0	0	0	0	1	0	0	0	12387	1580	55	5	253	5	PPP1R16A	8	145722828	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	114470	145722828	641194	87	38932											
TPD52L3	89882	broad.mit.edu	37	chr9	6328606	6328606	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcccagtccatgccacatgCcaggacagagacctctgtgg	9	8	10	14	0	1	1	0	0	1	1	3	3	3	2	5	2	2	0	5	2	0	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr9:6328606C>A	uc003zjw.2	+	1	232	c.11C>A	c.(10-12)GCC>GAC	p.A4D	TPD52L3_uc003zjv.2_Missense_Mutation_p.A4D|TPD52L3_uc003zjx.1_Missense_Mutation_p.A4D	NM_033516	NP_277051	Q96J77	TPD55_HUMAN	protein kinase NYD-SP25 isoform 1	4							protein binding				0		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0198)|Lung(218;0.1)		ATGCCACATGCCAGGACAGAG	0.473													15	107					1.5739e-10	1.70753e-10	0.004007	1	0		A	6328606	A	A	6328606	3	1	54	1	0	0	0	0	1	0	0	0	16426	739	26	5	13	5	TPD52L3	9	6328606	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08		6328606	134884825	88	38933											
ELAVL2	1993	broad.mit.edu	37	chr9	23762120	23762120	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttgactattaagttggtcTtgctgtcttctgtgttccca	6	18	9	8	0	3	1	0	1	3	0	4	1	4	1	1	1	1	4	1	1	2	7			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr9:23762120T>C	uc003zpu.2	-	2	388	c.113A>G	c.(112-114)AAG>AGG	p.K38R	ELAVL2_uc003zps.2_Missense_Mutation_p.K38R|ELAVL2_uc003zpt.2_Missense_Mutation_p.K38R|ELAVL2_uc003zpv.2_Missense_Mutation_p.K38R|ELAVL2_uc003zpw.2_Missense_Mutation_p.K38R	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	38					regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		TAAGTTGGTCTTGCTGTCTTC	0.443													22	109					0	0	0.004656	0	0		C	23762120	C	C	23762120	3	2	54	1	0	0	0	0	1	0	0	0	5058	1609	56	3	990	3	ELAVL2	9	23762120	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	17433514	23762120	117451311	89	38934											
FAM75A6	389730	broad.mit.edu	37	chr9	43625069	43625069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcatttgtccaactgccgtCatgagaccctgagcttcagc	9	10	9	13	1	2	2	2	2	0	1	3	3	3	2	3	0	5	2	3	0	1	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr9:43625069C>T	uc011lrb.1	-	4	3647	c.3618G>A	c.(3616-3618)ATG>ATA	p.M1206I		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	1206						integral to membrane					0						CAACTGCCGTCATGAGACCCT	0.468													41	128					0	0	0.01441	0	0		T	43625069	T	T	43625069	3	4	54	1	0	0	0	0	1	0	0	0	5636	826	29	4	417	4	FAM75A6	9	43625069	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	19862949	43625069	97588362	90	38935											
C9orf84	158401	broad.mit.edu	37	chr9	114466182	114466182	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaaaattatggcagtgtgTtcatcaattgtcaccactac	12	13	7	9	0	3	0	3	0	0	0	3	0	3	0	1	1	2	3	1	1	5	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr9:114466182T>G	uc004bfr.2	-	20	2889	c.2754A>C	c.(2752-2754)GAA>GAC	p.E918D	C9orf84_uc011lwt.1_Intron|C9orf84_uc004bfq.2_Missense_Mutation_p.E879D|C9orf84_uc010mug.2_Missense_Mutation_p.E829D	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	918										ovary(2)	2						TGGCAGTGTGTTCATCAATTG	0.318													15	17					0	0	0.00499	0	0		G	114466182	G	G	114466182	3	3	54	1	0	0	0	0	1	0	0	0	2503	1722	60	5	1608	5	C9orf84	9	114466182	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	70841113	114466182	26747249	91	38936											
TLR4	7099	broad.mit.edu	37	chr9	120475601	120475601	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaaagtgattttgggacaAccagcctaaagtatttagat	14	12	8	7	0	1	2	1	1	0	1	1	3	1	3	2	1	2	1	2	1	6	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr9:120475601A>C	uc004bjz.2	+	3	1486	c.1195A>C	c.(1195-1197)ACC>CCC	p.T399P	TLR4_uc004bka.2_Missense_Mutation_p.T359P|TLR4_uc004bkb.2_Missense_Mutation_p.T199P	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	399	Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TTTTGGGACAACCAGCCTAAA	0.388													3	30					0	0	0.004672	0	0		C	120475601	C	C	120475601	3	2	54	1	0	0	0	0	1	0	0	0	15978	43	2	5	1205	5	TLR4	9	120475601	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	6009419	120475601	20737830	92	38937											
OR1B1	347169	broad.mit.edu	37	chr9	125391418	125391418	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcattaccaaagcatagtGcagggggtcacagatggcca	13	8	11	9	0	2	1	2	0	0	1	2	1	2	1	2	3	3	2	2	3	3	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr9:125391418G>T	uc011lyz.1	-	1	397	c.397C>A	c.(397-399)CAC>AAC	p.H133N		NM_001004450	NP_001004450	Q8NGR6	OR1B1_HUMAN	olfactory receptor, family 1, subfamily B,	133	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AAAGCATAGTGCAGGGGGTCA	0.502													7	31					0.000157383	0.000163793	0.00308	1	0		T	125391418	T	T	125391418	3	4	54	1	0	0	0	0	1	0	0	0	10970	1319	46	5	562	5	OR1B1	9	125391418	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	4915817	125391418	15822013	93	38938											
CERCAM	51148	broad.mit.edu	37	chr9	131196429	131196429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgtttgaggatgacgtgCgctttgagagcaacttcagg	8	12	15	6	2	1	3	1	3	0	1	1	5	1	4	0	3	3	3	0	3	1	3	rs148628855	byFrequency	TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr9:131196429C>T	uc004buz.3	+	10	1650	c.1252C>T	c.(1252-1254)CGC>TGC	p.R418C	CERCAM_uc004buy.1_Missense_Mutation_p.R340C|CERCAM_uc010mxz.2_Missense_Mutation_p.R340C|CERCAM_uc010mya.1_Missense_Mutation_p.R259C	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	418					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						GGATGACGTGCGCTTTGAGAG	0.607													16	21					0	0	0.007413	0	0		T	131196429	T	T	131196429	3	4	54	1	0	0	0	0	1	0	0	0	3269	768	27	1	1290	1	CERCAM	9	131196429	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	5805011	131196429	10017002	94	38939											
COBRA1	25920	broad.mit.edu	37	chr9	140151447	140151447	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcgctctcttcagtacaGagctctctgtcctgcacaac	9	10	8	14	1	3	2	1	0	2	2	6	2	4	2	1	0	5	4	1	0	2	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr9:140151447G>T	uc004cmm.3	+	4	741	c.538G>T	c.(538-540)GAG>TAG	p.E180*		NM_015456	NP_056271	Q8WX92	NELFB_HUMAN	cofactor of BRCA1	180					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleoplasm	protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.137)	OV - Ovarian serous cystadenocarcinoma(145;9.42e-05)|Epithelial(140;0.000766)		CTTCAGTACAGAGCTCTCTGT	0.617													15	38					2.27731e-05	2.41373e-05	0.012319	1	0		T	140151447	T	T	140151447	4	4	54	1	0	0	0	0	0	1	0	0	3658	943	33	5	552	5	COBRA1	9	140151447	Nonsense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	8955018	140151447	1061984	95	38940											
PFKP	5214	broad.mit.edu	37	chr10	3147323	3147323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagccaccagaggaccttcGttctggaggtgatgggacga	9	7	14	11	2	1	2	0	1	1	1	2	6	1	5	4	4	1	1	4	4	0	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr10:3147323G>A	uc001igp.2	+	6	673	c.637G>A	c.(637-639)GTT>ATT	p.V213I	PFKP_uc001igq.2_Missense_Mutation_p.V205I|PFKP_uc009xhr.2_Missense_Mutation_p.V175I|PFKP_uc009xhs.1_5'UTR|PFKP_uc009xht.2_5'Flank	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	213					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		GAGGACCTTCGTTCTGGAGGT	0.607													7	31					0	0	0.001984	0	0		A	3147323	A	A	3147323	3	1	54	1	0	0	0	0	1	0	0	0	11785	1145	40	1	659	1	PFKP	10	3147323	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08		3147323	132387424	96	38941											
ARMC4	55130	broad.mit.edu	37	chr10	28224130	28224130	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacaagtacttcttcaggCtgatctgttagaagtcccac	10	13	7	11	0	4	2	2	1	2	1	5	2	5	2	1	1	1	3	1	1	4	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr10:28224130C>A	uc009xky.2	-	16	2402	c.2304G>T	c.(2302-2304)CAG>CAT	p.Q768H	ARMC4_uc010qds.1_Missense_Mutation_p.Q293H|ARMC4_uc010qdt.1_Missense_Mutation_p.Q460H|ARMC4_uc001itz.2_Missense_Mutation_p.Q768H	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	768	ARM 5.						binding			ovary(4)|skin(2)	6						CTTCTTCAGGCTGATCTGTTA	0.443													15	71					3.45872e-05	3.64911e-05	0.004007	1	0		A	28224130	A	A	28224130	3	1	54	1	0	0	0	0	1	0	0	0	954	796	28	5	850	5	ARMC4	10	28224130	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	25076807	28224130	107310617	97	38942											
TACC2	10579	broad.mit.edu	37	chr10	123843296	123843296	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctcgcttcattcccagcTgctcagattcctattgctgt	6	14	7	14	1	2	1	2	0	0	1	5	1	4	1	3	0	4	4	3	0	1	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr10:123843296T>A	uc001lfv.2	+	4	1641	c.1281T>A	c.(1279-1281)GCT>GCA	p.A427A	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Silent_p.A427A|TACC2_uc010qtv.1_Silent_p.A427A	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	427						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				CATTCCCAGCTGCTCAGATTC	0.557													16	52					0	0	0.00499	0	0		A	123843296	A	A	123843296	2	1	54	1	0	0	0	0	0	0	0	1	15527	1567	55	5		5	TACC2	10	123843296	Silent	SNP	T	TCGA-BR-7723-01A-11D-2053-08	95619166	123843296	11691451	98	38943											
MUC6	4588	broad.mit.edu	37	chr11	1016757	1016757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagtacttggagtcaccaagGaggtggagaaaggtggaacg	13	6	17	5	1	1	1	1	0	0	1	1	6	1	4	1	6	2	1	1	6	4	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:1016757G>A	uc001lsw.2	-	31	6095	c.6044C>T	c.(6043-6045)TCC>TTC	p.S2015F		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2015	Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGTCACCAAGGAGGTGGAGAA	0.542													19	666					0	0	0.00333	0	0		A	1016757	A	A	1016757	3	1	54	1	0	0	0	0	1	0	0	0	9998	1174	41	4	1287	4	MUC6	11	1016757	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08		1016757	133989759	99	38944											
MUC5B	727897	broad.mit.edu	37	chr11	1267074	1267074	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acgccctcctccactccaggGacgacctggatcctcacaga	9	6	8	18	2	1	1	1	0	0	1	5	4	5	3	6	2	0	0	6	2	0	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:1267074G>A	uc009ycr.1	+	49	10839	c.10713G>A	c.(10711-10713)GGG>GGA	p.G3571G	MUC5B_uc001ltb.2_Silent_p.G2991G	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2988	7 X Cys-rich subdomain repeats.|Thr-rich.|17 X approximate tandem repeats, Ser/Thr- rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCACTCCAGGGACGACCTGGA	0.637													26	109					0	0	0.008361	0	0		A	1267074	A	A	1267074	2	1	54	1	0	0	0	0	0	0	0	1	9997	1161	41	4		4	MUC5B	11	1267074	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	250317	1267074	133739442	100	38945											
OR51E1	143503	broad.mit.edu	37	chr11	4674666	4674666	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacaaaggagattcgacagCgcatccttcgacttttccat	12	10	8	11	3	0	2	0	0	0	2	4	5	2	2	2	1	1	1	2	1	1	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:4674666C>T	uc001lzi.3	+	2	1054	c.910C>T	c.(910-912)CGC>TGC	p.R304C		NM_152430	NP_689643	Q8TCB6	O51E1_HUMAN	olfactory receptor, family 51, subfamily E,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(3)|pancreas(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;7.37e-14)|GBM - Glioblastoma multiforme(2;2.85e-05)|BRCA - Breast invasive adenocarcinoma(625;0.00222)|LUSC - Lung squamous cell carcinoma(625;0.19)		GATTCGACAGCGCATCCTTCG	0.478													15	62					0	0	0.008871	0	0		T	4674666	T	T	4674666	3	4	54	1	0	0	0	0	1	0	0	0	11113	768	27	1	912	1	OR51E1	11	4674666	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	3407592	4674666	130331850	101	38946											
OR2D2	120776	broad.mit.edu	37	chr11	6913041	6913041	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccttgagactccccacagTtgacttcatcttgaccacag	9	11	7	14	0	2	3	1	3	1	1	3	4	3	3	4	0	1	1	4	0	0	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:6913041T>G	uc010rau.1	-	1	691	c.691A>C	c.(691-693)ACT>CCT	p.T231P		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CTCCCCACAGTTGACTTCATC	0.438													17	33					0	0	0.012319	0	0		G	6913041	G	G	6913041	3	3	54	1	0	0	0	0	1	0	0	0	11013	1725	60	5	238	5	OR2D2	11	6913041	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	2238375	6913041	128093475	102	38947											
TPH1	7166	broad.mit.edu	37	chr11	18062241	18062241	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctccaacttcattctttaaGgaaaaaatgagacttgctct	13	13	5	10	0	3	1	1	1	2	1	4	3	4	2	2	1	2	1	2	1	5	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:18062241G>C	uc001mnp.2	-	1	95	c.69C>G	c.(67-69)TCC>TCG	p.S23S	TPH1_uc009yhe.2_RNA	NM_004179	NP_004170	P17752	TPH1_HUMAN	tryptophan hydroxylase 1	23	ACT.				aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity				0					L-Tryptophan(DB00150)|Tetrahydrobiopterin(DB00360)	CATTCTTTAAGGAAAAAATGA	0.328													4	13					0	0	0.009096	0	0		C	18062241	C	C	18062241	2	2	54	1	0	0	0	0	0	0	0	1	16427	987	35	5		5	TPH1	11	18062241	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	11149200	18062241	116944275	103	38948											
ACCSL	390110	broad.mit.edu	37	chr11	44074584	44074584	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttccagctcactgtggacaAgttagaggaagccctgcttg	9	11	11	10	0	1	1	1	0	0	1	2	3	2	3	2	2	3	3	2	2	3	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:44074584A>C	uc001mxw.1	+	7	970	c.914A>C	c.(913-915)AAG>ACG	p.K305T	ACCSL_uc009ykr.2_Missense_Mutation_p.K124T	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	305							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						ACTGTGGACAAGTTAGAGGAA	0.438													14	35					0	0	0.006122	0	0		C	44074584	C	C	44074584	3	2	54	1	0	0	0	0	1	0	0	0	134	72	3	5	940	5	ACCSL	11	44074584	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	26012343	44074584	90931932	104	38949											
OR1S1	219959	broad.mit.edu	37	chr11	57982698	57982698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cattttgctcacagtcatctCatggttcctcagtaatatta	10	16	5	10	0	4	0	4	0	1	0	6	0	5	0	1	1	1	3	1	1	3	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:57982698C>T	uc010rkc.1	+	1	482	c.482C>T	c.(481-483)TCA>TTA	p.S161L		NM_001004458	NP_001004458	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S,	161	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Breast(21;0.0589)				ACAGTCATCTCATGGTTCCTC	0.473													5	152					0	0	0.001984	0	0		T	57982698	T	T	57982698	3	4	54	1	0	0	0	0	1	0	0	0	10991	838	29	4	484	4	OR1S1	11	57982698	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	13908114	57982698	77023818	105	38950											
SCGB1D4	404552	broad.mit.edu	37	chr11	62064966	62064966	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactttttcaatgagagtcGtttcttaaaagatatctgat	12	16	8	5	1	3	3	1	2	2	2	4	5	3	4	0	1	0	1	0	1	4	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:62064966G>A	uc001ntd.1	-	2	274	c.220C>T	c.(220-222)CGA>TGA	p.R74*		NM_206998	NP_996881	Q6XE38	SG1D4_HUMAN	secretoglobin family 1D member 4 precursor	74						extracellular region	binding				0						AATGAGAGTCGTTTCTTAAAA	0.448													45	187					0	0	0.01441	0	0		A	62064966	A	A	62064966	4	1	54	1	0	0	0	0	0	1	0	0	13923	1153	40	1	39	1	SCGB1D4	11	62064966	Nonsense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	4082268	62064966	72941550	106	38951											
AHNAK	79026	broad.mit.edu	37	chr11	62298581	62298581	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctaccttgggacctctgAtgtccacatctggaacctgc	8	12	8	13	0	3	1	0	1	3	0	4	3	4	3	4	2	3	0	4	2	3	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:62298581A>G	uc001ntl.2	-	5	3608	c.3308T>C	c.(3307-3309)ATC>ACC	p.I1103T	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1103					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GGGACCTCTGATGTCCACATC	0.458													31	50					0	0	0.013726	0	0		G	62298581	G	G	62298581	3	3	54	1	0	0	0	0	1	0	0	0	414	333	12	3	14484	3	AHNAK	11	62298581	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	233615	62298581	72707935	107	38952											
FAM89B	23625	broad.mit.edu	37	chr11	65341036	65341036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagcctgcctcctgaccCgccaccccttactgtgcccc	4	8	7	22	1	0	1	0	1	0	0	1	1	1	1	10	0	5	0	10	0	1	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:65341036C>T	uc001oem.2	+	2	776	c.455C>T	c.(454-456)CCG>CTG	p.P152L	FAM89B_uc001oen.2_3'UTR|FAM89B_uc001oel.2_Missense_Mutation_p.P165L|EHBP1L1_uc001oeo.3_5'Flank	NM_152832	NP_690045	Q8N5H3	FA89B_HUMAN	family with sequence similarity 89, member B	152											0						CCTCCTGACCCGCCACCCCTT	0.662													11	25					0	0	0.001855	0	0		T	65341036	T	T	65341036	3	4	54	1	0	0	0	0	1	0	0	0	5662	652	23	1	510	1	FAM89B	11	65341036	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	3042455	65341036	69665480	108	38953											
ANKRD42	338699	broad.mit.edu	37	chr11	82938901	82938901	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctgataatggatcaacTcctatgcataaaggtgagtt	12	12	10	7	1	1	2	1	2	0	0	2	3	2	3	1	2	3	3	1	2	5	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:82938901T>A	uc001ozz.1	+	7	1238	c.816T>A	c.(814-816)ACT>ACA	p.T272T	ANKRD42_uc010rsv.1_Silent_p.T300T|ANKRD42_uc001paa.2_Silent_p.T300T|ANKRD42_uc001pab.1_Silent_p.T299T	NM_182603	NP_872409	Q8N9B4	ANR42_HUMAN	ankyrin repeat domain 42	272	ANK 8.									skin(1)	1						ATGGATCAACTCCTATGCATA	0.378													35	103					0	0	0.010771	0	0		A	82938901	A	A	82938901	2	1	54	1	0	0	0	0	0	0	0	1	670	1538	54	5		5	ANKRD42	11	82938901	Silent	SNP	T	TCGA-BR-7723-01A-11D-2053-08	17597865	82938901	52067615	109	38954											
SLC35F2	54733	broad.mit.edu	37	chr11	107663456	107663456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccggctcggccgtgcgaGtaggggtggagcagtacagg	7	5	19	10	4	0	0	0	0	0	0	1	2	0	1	2	6	4	4	2	6	2	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:107663456G>A	uc001pjq.2	-	8	1431	c.1010C>T	c.(1009-1011)ACT>ATT	p.T337I	SLC35F2_uc010rvu.1_Missense_Mutation_p.T189I	NM_017515	NP_059985	Q8IXU6	S35F2_HUMAN	solute carrier family 35, member F2	337					transport	integral to membrane				central_nervous_system(1)	1		all_cancers(61;9.46e-06)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;0.000111)|all_hematologic(158;0.000315)|all_epithelial(67;0.00197)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)|Epithelial(105;0.000105)|all cancers(92;0.00217)		GGCCGTGCGAGTAGGGGTGGA	0.557													3	43					0	0	0.009096	0	0		A	107663456	A	A	107663456	3	1	54	1	0	0	0	0	1	0	0	0	14614	1029	36	4	118	4	SLC35F2	11	107663456	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	24724555	107663456	27343060	110	38955											
EXPH5	23086	broad.mit.edu	37	chr11	108383530	108383530	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggagaacactgtagtagAtggaaccacaggagcatcaa	15	6	11	9	0	1	2	1	0	0	2	1	5	1	4	2	3	3	3	2	3	5	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:108383530A>T	uc001pkk.2	-	6	2815	c.2704T>A	c.(2704-2706)TCT>ACT	p.S902T	EXPH5_uc010rvy.1_Missense_Mutation_p.S714T|EXPH5_uc010rvz.1_Missense_Mutation_p.S746T|EXPH5_uc010rwa.1_Missense_Mutation_p.S826T	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	902					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		ACTGTAGTAGATGGAACCACA	0.443													16	93					0	0	0.006122	0	0		T	108383530	T	T	108383530	3	4	54	1	0	0	0	0	1	0	0	0	5330	333	12	5	3269	5	EXPH5	11	108383530	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	720074	108383530	26622986	111	38956											
ARHGAP20	57569	broad.mit.edu	37	chr11	110451100	110451100	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattcccctgagataggtcAgcttgcggttctggtcttct	7	14	10	10	1	4	1	1	1	3	1	5	2	5	1	2	3	2	2	2	3	2	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:110451100A>G	uc001pkz.1	-	16	2855	c.2570T>C	c.(2569-2571)CTG>CCG	p.L857P	ARHGAP20_uc001pky.1_Missense_Mutation_p.L834P|ARHGAP20_uc009yyb.1_Missense_Mutation_p.L821P|ARHGAP20_uc001pla.1_Missense_Mutation_p.L821P|ARHGAP20_uc001plb.2_Missense_Mutation_p.L400P	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	857					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		GAGATAGGTCAGCTTGCGGTT	0.493													10	51					0	0	0.006214	0	0		G	110451100	G	G	110451100	3	3	54	1	0	0	0	0	1	0	0	0	870	188	7	3	1009	3	ARHGAP20	11	110451100	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	2067570	110451100	24555416	112	38957											
BCO2	83875	broad.mit.edu	37	chr11	112046403	112046403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcctgtgatggtgcacCggctcccaggtagagggttt	5	12	13	11	1	0	2	0	1	0	1	3	2	3	2	4	4	1	4	4	4	1	3	rs149163526		TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:112046403C>T	uc001pnf.2	+	1	196	c.79C>T	c.(79-81)CGG>TGG	p.R27W	BCO2_uc001pne.1_5'UTR|BCO2_uc001png.2_Missense_Mutation_p.R27W|BCO2_uc001pnh.2_5'Flank|BCO2_uc010rwt.1_5'Flank|BCO2_uc009yyn.2_5'Flank|BCO2_uc001pni.2_5'Flank	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	27					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GATGGTGCACCGGCTCCCAGG	0.483													10	71					0	0	0.010729	0	0		T	112046403	T	T	112046403	3	4	54	1	0	0	0	0	1	0	0	0	1386	643	23	1	81	1	BCO2	11	112046403	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	1595303	112046403	22960113	113	38958											
IL10RA	3587	broad.mit.edu	37	chr11	117864106	117864106	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatgagattgccattcgcaAggtgccgggaaacttcacgg	10	9	13	9	3	1	1	1	1	0	1	2	3	1	2	2	3	3	2	2	3	3	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:117864106A>C	uc001prv.2	+	4	595	c.518A>C	c.(517-519)AAG>ACG	p.K173T	IL10RA_uc010rxl.1_Missense_Mutation_p.K153T|IL10RA_uc010rxm.1_Missense_Mutation_p.K153T|IL10RA_uc010rxn.1_Missense_Mutation_p.K24T|IL10RA_uc001prw.2_Missense_Mutation_p.K24T	NM_001558	NP_001549	Q13651	I10R1_HUMAN	interleukin 10 receptor, alpha precursor	173	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-10 receptor activity			ovary(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)|Epithelial(105;0.00108)		GCCATTCGCAAGGTGCCGGGA	0.572													12	71					0	0	0.006122	0	0		C	117864106	C	C	117864106	3	2	54	1	0	0	0	0	1	0	0	0	7636	72	3	5	532	5	IL10RA	11	117864106	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	5817703	117864106	17142410	114	38959											
SC5DL	6309	broad.mit.edu	37	chr11	121174091	121174091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaggggctaagtgatggatCttgtactccgtgttgcagat	8	14	13	6	1	1	2	0	1	1	1	2	3	2	3	1	3	2	4	1	3	3	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:121174091C>T	uc001pxu.2	+	2	155	c.7C>T	c.(7-9)CTT>TTT	p.L3F	SC5DL_uc001pxs.1_Missense_Mutation_p.L3F|SC5DL_uc001pxt.2_Missense_Mutation_p.L3F|SC5DL_uc001pxv.2_Missense_Mutation_p.L3F	NM_006918	NP_008849	O75845	SC5D_HUMAN	sterol-C5-desaturase	3					fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	C-5 sterol desaturase activity|iron ion binding|lathosterol oxidase activity			ovary(1)	1		Breast(109;0.00328)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)	OV - Ovarian serous cystadenocarcinoma(1;0.0334)	BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.144)		AGTGATGGATCTTGTACTCCG	0.373													11	87					0	0	0.00499	0	0		T	121174091	T	T	121174091	3	4	54	1	0	0	0	0	1	0	0	0	13891	913	32	4	9	4	SC5DL	11	121174091	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	3309985	121174091	13832425	115	38960											
TMEM225	338661	broad.mit.edu	37	chr11	123754862	123754862	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattagagaagtgcatggatTgaccttgcttcagcttattg	11	14	10	6	0	1	2	1	1	0	1	1	4	1	3	1	1	3	3	1	1	4	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr11:123754862T>C	uc001pzi.2	-	3	591	c.383A>G	c.(382-384)CAA>CGA	p.Q128R		NM_001013743	NP_001013765	Q6GV28	TM225_HUMAN	transmembrane protein 225	128						integral to membrane				upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	3						GTGCATGGATTGACCTTGCTT	0.373													31	77					0	0	0.004878	0	0		C	123754862	C	C	123754862	3	2	54	1	0	0	0	0	1	0	0	0	16172	1812	63	3	302	3	TMEM225	11	123754862	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	2580771	123754862	11251654	116	38961											
PRB2	653247	broad.mit.edu	37	chr12	11546745	11546745	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaggtgggggaccttgAggtttgttgcctccttgtgg	3	13	17	8	0	0	1	0	1	0	0	1	3	1	3	4	6	1	2	4	6	0	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr12:11546745A>G	uc010shk.1	-	3	302	c.267T>C	c.(265-267)CCT>CCC	p.P89P		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGGGACCTTGAGGTTTGTTGC	0.617													38	201					0	0	0.01441	0	0		G	11546745	G	G	11546745	2	3	54	1	0	0	0	0	0	0	0	1	12465	291	11	3		3	PRB2	12	11546745	Silent	SNP	A	TCGA-BR-7723-01A-11D-2053-08		11546745	122305150	117	38962											
EPS8	2059	broad.mit.edu	37	chr12	15811059	15811059	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaccaaatctgcagcactaGgattctgaatatgagacttc	14	10	8	9	0	2	2	0	2	2	1	3	5	2	3	1	1	3	2	1	1	5	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr12:15811059G>C	uc009zif.2	-	12	1149	c.1055C>G	c.(1054-1056)CCT>CGT	p.P352R	EPS8_uc001rdb.2_Missense_Mutation_p.P352R|EPS8_uc009zig.2_Missense_Mutation_p.P92R|EPS8_uc010shv.1_Missense_Mutation_p.P92R	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	352					cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		TGCAGCACTAGGATTCTGAAT	0.343													3	34					0	0	0.009096	0	0		C	15811059	C	C	15811059	3	2	54	1	0	0	0	0	1	0	0	0	5202	1000	35	5	1453	5	EPS8	12	15811059	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	4264314	15811059	118040836	118	38963											
SLCO1C1	53919	broad.mit.edu	37	chr12	20876091	20876091	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatatttatgtacaagcacTgttcagttcaattctctgtt	10	18	5	8	0	3	0	2	0	1	0	4	0	3	0	0	0	2	5	0	0	6	9			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr12:20876091T>A	uc001rej.3	+	10	1444	c.1089T>A	c.(1087-1089)ACT>ACA	p.T363T	SLCO1C1_uc010sii.1_Silent_p.T363T|SLCO1C1_uc010sij.1_Silent_p.T314T|SLCO1C1_uc009zip.2_Silent_p.T197T|SLCO1C1_uc001rei.2_Silent_p.T363T|SLCO1C1_uc010sik.1_Silent_p.T245T	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	363	Helical; Name=7; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					GTACAAGCACTGTTCAGTTCA	0.378													14	68					0	0	0.003163	0	0		A	20876091	A	A	20876091	2	1	54	1	0	0	0	0	0	0	0	1	14750	1567	55	5		5	SLCO1C1	12	20876091	Silent	SNP	T	TCGA-BR-7723-01A-11D-2053-08	5065032	20876091	112975804	119	38964											
BCAT1	586	broad.mit.edu	37	chr12	25047227	25047227	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttccactgcatagtgcaaAgctgatgagccagggtgcaa	12	8	11	10	0	0	2	0	2	0	0	1	2	1	2	2	1	5	4	2	1	3	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr12:25047227A>C	uc001rgd.3	-	3	703	c.261T>G	c.(259-261)GCT>GCG	p.A87A	BCAT1_uc001rgc.2_Silent_p.A86A|BCAT1_uc010six.1_Silent_p.A99A|BCAT1_uc010siy.1_Silent_p.A87A|BCAT1_uc001rge.3_Silent_p.A63A	NM_005504	NP_005495	P54687	BCAT1_HUMAN	branched chain aminotransferase 1, cytosolic	87					branched chain family amino acid biosynthetic process|branched chain family amino acid catabolic process|cell proliferation|G1/S transition of mitotic cell cycle	cytosol	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			lung(1)|breast(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Ovarian(17;0.107)|Colorectal(261;0.196)				Gabapentin(DB00996)|L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|L-Valine(DB00161)|Pyridoxal Phosphate(DB00114)	CATAGTGCAAAGCTGATGAGC	0.468													4	42					0	0	0.000602	0	0		C	25047227	C	C	25047227	2	2	54	1	0	0	0	0	0	0	0	1	1355	59	3	5		5	BCAT1	12	25047227	Silent	SNP	A	TCGA-BR-7723-01A-11D-2053-08	4171136	25047227	108804668	120	38965											
ADAMTS20	80070	broad.mit.edu	37	chr12	43821195	43821195	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcttggaggctgcatcgcaGtaactagcactttgtccatt	8	12	11	10	1	0	0	0	0	0	0	2	1	1	1	1	3	3	6	1	3	2	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr12:43821195G>A	uc010skx.1	-	27	4023	c.4023C>T	c.(4021-4023)TAC>TAT	p.Y1341Y	ADAMTS20_uc001rno.1_Silent_p.Y459Y	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1341	TSP type-1 9.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CTGCATCGCAGTAACTAGCAC	0.468													3	54					0	0	0.009096	0	0		A	43821195	A	A	43821195	2	1	54	1	0	0	0	0	0	0	0	1	266	1024	36	4		4	ADAMTS20	12	43821195	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	18773968	43821195	90030700	121	38966											
KRT73	319101	broad.mit.edu	37	chr12	53010156	53010156	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acctggttctgctgctccagGaaccgcacctggaacccatg	8	8	10	15	1	1	0	0	0	1	0	2	2	2	2	5	3	4	4	5	3	2	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr12:53010156G>A	uc001sas.2	-	2	491	c.456C>T	c.(454-456)TTC>TTT	p.F152F		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	152	Coil 1A.|Rod.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		GCTGCTCCAGGAACCGCACCT	0.522													15	32					0	0	0.004007	0	0		A	53010156	A	A	53010156	2	1	54	1	0	0	0	0	0	0	0	1	8502	1165	41	4		4	KRT73	12	53010156	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	9188961	53010156	80841739	122	38967											
DGKA	1606	broad.mit.edu	37	chr12	56335305	56335305	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacacacagggtgctctggaAgttccagtatatattaaacc	13	10	8	10	0	1	0	0	0	1	0	2	1	2	1	2	2	2	3	2	2	6	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr12:56335305A>C	uc001sij.2	+	15	1451	c.1187A>C	c.(1186-1188)AAG>ACG	p.K396T	DGKA_uc001sih.1_Missense_Mutation_p.K284T|DGKA_uc001sii.1_Missense_Mutation_p.K254T|DGKA_uc009zod.1_Missense_Mutation_p.K315T|DGKA_uc001sik.2_Missense_Mutation_p.K396T|DGKA_uc001sil.2_Missense_Mutation_p.K396T|DGKA_uc001sim.2_Missense_Mutation_p.K396T|DGKA_uc001sin.2_Missense_Mutation_p.K396T|DGKA_uc009zof.2_Missense_Mutation_p.K42T|DGKA_uc001sio.2_Missense_Mutation_p.K138T	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	396	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	GTGCTCTGGAAGTTCCAGTAT	0.498													37	124					0	0	0.010771	0	0		C	56335305	C	C	56335305	3	2	54	1	0	0	0	0	1	0	0	0	4471	72	3	5	1241	5	DGKA	12	56335305	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	3325149	56335305	77516590	123	38968											
CCDC41	51134	broad.mit.edu	37	chr12	94763808	94763808	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttgaatgtttaagttctTttacctgttgataattaaaa	12	20	6	3	0	1	2	0	2	1	0	1	2	1	2	1	0	1	4	1	0	6	9			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr12:94763808T>C	uc001tdd.2	-	9	1524	c.938A>G	c.(937-939)AAA>AGA	p.K313R	CCDC41_uc001tde.2_Missense_Mutation_p.K313R|CCDC41_uc009zsw.1_RNA|CCDC41_uc001tdf.2_Missense_Mutation_p.K313R	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen	305	Potential.										0						TTTAAGTTCTTTTACCTGTTG	0.333													43	94					0	0	0.010771	0	0		C	94763808	C	C	94763808	3	2	54	1	0	0	0	0	1	0	0	0	2816	1841	64	3	1203	3	CCDC41	12	94763808	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	38428503	94763808	39088087	124	38969											
CCDC38	120935	broad.mit.edu	37	chr12	96273421	96273421	+	Splice_Site	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacttgtttataatgacttaCgttttatcctgtataacttt	10	21	4	6	1	0	1	0	1	0	0	1	1	1	1	1	0	3	3	1	0	7	11			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr12:96273421C>G	uc001tek.1	-	12	1376	c.1142_splice	c.e12+1	p.T381_splice		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38											skin(1)	1						TAATGACTTACGTTTTATCCT	0.368													8	46					0	0	0.004482	0	0		G	96273421	G	G	96273421	5	3	54	1	0	0	0	0	0	0	1	0	2813	550	19	5	568	5	CCDC38	12	96273421	Splice_Site	SNP	C	TCGA-BR-7723-01A-11D-2053-08	1509613	96273421	37578474	125	38970											
MYO1H	283446	broad.mit.edu	37	chr12	109844646	109844646	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctctcacccacagaaaaaTtgaagccaaaactgaggagg	17	5	9	10	0	1	3	1	2	1	1	2	4	1	4	2	2	3	1	2	2	5	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr12:109844646T>G	uc010sxn.1	+	8	968	c.968T>G	c.(967-969)ATT>AGT	p.I323S		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	70						myosin complex	motor activity				0						CACAGAAAAATTGAAGCCAAA	0.498													25	49					0	0	0.007291	0	0		G	109844646	G	G	109844646	3	3	54	1	0	0	0	0	1	0	0	0	10093	1493	52	5	998	5	MYO1H	12	109844646	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	13571225	109844646	24007249	126	38971											
KSR2	283455	broad.mit.edu	37	chr12	117909125	117909125	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagttcataccagattgtGctgttggcagacgttgttaa	9	14	12	6	1	1	2	1	0	0	2	1	3	1	3	1	2	2	6	1	2	2	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr12:117909125G>T	uc001two.2	-	18	2551	c.2496C>A	c.(2494-2496)GGC>GGA	p.G832G		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	861	Protein kinase.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ACCAGATTGTGCTGTTGGCAG	0.522													6	45					3.86212e-05	4.03767e-05	0.008291	1	0		T	117909125	T	T	117909125	2	4	54	1	0	0	0	0	0	0	0	1	8598	1333	46	5		5	KSR2	12	117909125	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	8064479	117909125	15942770	127	38972											
SBNO1	55206	broad.mit.edu	37	chr12	123794051	123794051	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttactgtgtataattctacGtggccagaggttgaatatcc	10	14	9	8	1	1	2	0	1	1	1	2	2	2	2	2	2	2	2	2	2	6	7			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr12:123794051G>A	uc010tap.1	-	26	3522	c.3522C>T	c.(3520-3522)CAC>CAT	p.H1174H	SBNO1_uc009zxv.2_RNA|SBNO1_uc010tao.1_Silent_p.H1173H|SBNO1_uc010taq.1_Silent_p.H125H|SBNO1_uc001ues.1_Silent_p.H125H	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	1174							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		ATAATTCTACGTGGCCAGAGG	0.348													36	195					0	0	0.01441	0	0		A	123794051	A	A	123794051	2	1	54	1	0	0	0	0	0	0	0	1	13887	1136	40	1		1	SBNO1	12	123794051	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	5884926	123794051	10057844	128	38973											
BRCA2	675	broad.mit.edu	37	chr13	32972435	32972435	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaagagattgatgaccAaaagaactgcaaaaagagaa	22	4	11	4	0	0	6	0	2	0	4	0	9	0	6	1	1	2	1	1	1	7	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr13:32972435A>C	uc001uub.1	+	27	10012	c.9785A>C	c.(9784-9786)CAA>CCA	p.Q3262P		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	3262					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		ATTGATGACCAAAAGAACTGC	0.438			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			25	98					0	0	0.004656	0	0		C	32972435	C	C	32972435	3	2	54	1	0	0	0	0	1	0	0	0	1502	130	5	5	9887	5	BRCA2	13	32972435	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08		32972435	82197443	129	38974											
BRCA2	675	broad.mit.edu	37	chr13	32972587	32972587	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaatacgaaacacccataAagaaaaaagaactgaattct	22	6	4	9	1	1	3	0	1	1	2	1	4	1	3	2	0	3	0	2	0	10	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr13:32972587A>C	uc001uub.1	+	27	10164	c.9937A>C	c.(9937-9939)AAG>CAG	p.K3313Q		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	3313					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AACACCCATAAAGAAAAAAGA	0.388			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			16	36					0	0	0.006122	0	0		C	32972587	C	C	32972587	3	2	54	1	0	0	0	0	1	0	0	0	1502	15	1	5	10039	5	BRCA2	13	32972587	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	152	32972587	82197291	130	38975											
KIAA0564	23078	broad.mit.edu	37	chr13	42465633	42465633	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctctctgttttccagcaAgttgttcaaaacaggcaaaa	13	12	6	10	0	3	0	1	0	2	0	5	0	4	0	1	1	2	5	1	1	5	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr13:42465633A>G	uc001uyj.2	-	5	644	c.574T>C	c.(574-576)TTG>CTG	p.L192L	KIAA0564_uc001uyk.2_Silent_p.L192L	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	192						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		TTTTCCAGCAAGTTGTTCAAA	0.448													17	129					0	0	0.007413	0	0		G	42465633	G	G	42465633	2	3	54	1	0	0	0	0	0	0	0	1	8201	69	3	3		3	KIAA0564	13	42465633	Silent	SNP	A	TCGA-BR-7723-01A-11D-2053-08	9493046	42465633	72704245	131	38976											
PCDH20	64881	broad.mit.edu	37	chr13	61985896	61985896	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgatgctgtaagctatgAcagcattcatgcctgtgtct	9	14	9	9	0	2	2	1	2	1	0	2	2	2	2	1	0	4	4	1	0	3	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr13:61985896A>G	uc001vid.3	-	2	2700	c.2336T>C	c.(2335-2337)GTC>GCC	p.V779A	PCDH20_uc010thj.1_Missense_Mutation_p.V779A	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	752	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		GTAAGCTATGACAGCATTCAT	0.473													10	50					0	0	0.008291	0	0		G	61985896	G	G	61985896	3	3	54	1	0	0	0	0	1	0	0	0	11534	275	10	3	523	3	PCDH20	13	61985896	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	19520263	61985896	53183982	132	38977											
SLITRK5	26050	broad.mit.edu	37	chr13	88328652	88328652	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccctaaggggactcgccaaCccaacaagcccagggtgcgc	10	3	11	17	2	0	0	0	0	0	0	1	1	0	1	5	3	4	0	5	3	4	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr13:88328652C>A	uc001vln.2	+	2	1228	c.1009C>A	c.(1009-1011)CCC>ACC	p.P337T	SLITRK5_uc010tic.1_Missense_Mutation_p.P96T	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	337	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GACTCGCCAACCCAACAAGCC	0.587													7	117					5.68852e-11	6.20076e-11	0.004482	1	0		A	88328652	A	A	88328652	3	1	54	1	0	0	0	0	1	0	0	0	14771	507	18	5	1011	5	SLITRK5	13	88328652	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	26342756	88328652	26841226	133	38978											
MIA2	117153	broad.mit.edu	37	chr14	39709847	39709847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaggaaattcagatgtcaaCgaaagtgagtaaactcattc	16	10	9	6	1	3	3	3	2	0	1	4	5	3	4	0	1	2	1	0	1	5	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr14:39709847C>T	uc001wux.2	+	3	526	c.332C>T	c.(331-333)ACG>ATG	p.T111M	MIA2_uc010amy.1_Missense_Mutation_p.T42M	NM_054024	NP_473365	Q96PC5	MIA2_HUMAN	melanoma inhibitory activity 2	111	SH3.					extracellular region				ovary(1)|breast(1)	2	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0216)		CAGATGTCAACGAAAGTGAGT	0.348													5	46					0	0	0.000602	0	0		T	39709847	T	T	39709847	3	4	54	1	0	0	0	0	1	0	0	0	9582	536	19	1	342	1	MIA2	14	39709847	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08		39709847	67639693	134	38979											
FAM179B	23116	broad.mit.edu	37	chr14	45433301	45433301	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggatacagttgaactgcaAgataatggagatggagtgat	14	10	14	3	0	0	4	0	2	0	2	0	7	0	6	0	3	3	2	0	3	4	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr14:45433301A>G	uc001wvv.2	+	1	1886	c.1677A>G	c.(1675-1677)CAA>CAG	p.Q559Q	FAM179B_uc001wvw.2_Silent_p.Q559Q|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvq.2_5'Flank|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Silent_p.Q559Q|FAM179B_uc001wvu.2_Silent_p.Q559Q	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	559							binding			skin(2)|upper_aerodigestive_tract(1)	3						TTGAACTGCAAGATAATGGAG	0.453													14	54					0	0	0.007413	0	0		G	45433301	G	G	45433301	2	3	54	1	0	0	0	0	0	0	0	1	5517	69	3	3		3	FAM179B	14	45433301	Silent	SNP	A	TCGA-BR-7723-01A-11D-2053-08	5723454	45433301	61916239	135	38980											
TBPL2	387332	broad.mit.edu	37	chr14	55881108	55881108	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgatatgctcaggctttttTaaaaccttttagaataggat	13	16	7	5	0	1	2	1	1	0	1	1	3	1	3	1	2	2	2	1	2	6	7			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr14:55881108T>A	uc001xby.2	-	7	1117	c.1117A>T	c.(1117-1119)AAA>TAA	p.K373*	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbx.1_5'Flank	NM_199047	NP_950248	Q6SJ96	TBPL2_HUMAN	TATA box binding protein like 2	373					multicellular organismal development|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding				0						CAGGCTTTTTTAAAACCTTTT	0.328													17	16					0	0	0.006122	0	0		A	55881108	A	A	55881108	4	1	54	1	0	0	0	0	0	1	0	0	15671	1763	61	5	14	5	TBPL2	14	55881108	Nonsense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	10447807	55881108	51468432	136	38981											
GPX2	2877	broad.mit.edu	37	chr14	65406340	65406340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttccaggccacatctgagcGgcgcacagggctccaaatga	10	6	12	13	2	1	2	0	2	1	0	3	2	3	2	3	3	1	3	3	3	1	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr14:65406340G>A	uc010tsn.1	-	3	526	c.439C>T	c.(439-441)CGC>TGC	p.R147C	CHURC1_uc010tsj.1_Intron|CHURC1_uc010tsk.1_Intron|FNTB_uc010tsl.1_Intron|FNTB_uc010tsm.1_Intron|GPX2_uc001xhy.1_RNA	NM_002083	NP_002074	P18283	GPX2_HUMAN	glutathione peroxidase 2	147					response to oxidative stress	cytoplasm	electron carrier activity|glutathione peroxidase activity			ovary(1)	1				all cancers(60;0.00117)|OV - Ovarian serous cystadenocarcinoma(108;0.00557)|BRCA - Breast invasive adenocarcinoma(234;0.00971)	Glutathione(DB00143)	ACATCTGAGCGGCGCACAGGG	0.562													10	58					0	0	0.001855	0	0		A	65406340	A	A	65406340	3	1	54	1	0	0	0	0	1	0	0	0	6756	1116	39	1	137	1	GPX2	14	65406340	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	9525232	65406340	41943200	137	38982											
KIAA1409	57578	broad.mit.edu	37	chr14	94060075	94060075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagctgtcttccctggcaGtccctcttctcctccatgcc	3	13	6	19	0	4	0	1	0	3	0	8	0	7	0	5	1	2	2	5	1	0	2	rs139389360		TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr14:94060075G>A	uc001ybv.1	+	20	2634	c.2551G>A	c.(2551-2553)GTC>ATC	p.V851I	KIAA1409_uc001ybs.1_Missense_Mutation_p.V851I	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1028						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TTCCCTGGCAGTCCCTCTTCT	0.483													17	114					0	0	0.007413	0	0		A	94060075	A	A	94060075	3	1	54	1	0	0	0	0	1	0	0	0	8246	1029	36	4	2629	4	KIAA1409	14	94060075	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	28653735	94060075	13289465	138	38983											
C15orf2	23742	broad.mit.edu	37	chr15	24921670	24921670	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaccacaagttctcagaaaAcagcatgagtgagaaggccc	15	6	9	11	0	1	3	1	2	1	2	2	4	1	3	2	1	3	2	2	1	5	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr15:24921670A>T	uc001ywo.2	+	1	1130	c.656A>T	c.(655-657)AAC>ATC	p.N219I		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	219					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		TTCTCAGAAAACAGCATGAGT	0.617													4	21					0	0	0.000602	0	0		T	24921670	T	T	24921670	3	4	54	1	0	0	0	0	1	0	0	0	1787	43	2	5	658	5	C15orf2	15	24921670	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08		24921670	77609722	139	38984											
CTDSPL2	51496	broad.mit.edu	37	chr15	44816331	44816331	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatgttcgaccacacatcAgagacagatttcgcttgcat	13	10	8	10	2	1	3	1	0	0	3	3	5	1	3	1	0	1	3	1	0	1	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr15:44816331A>G	uc001ztr.2	+	13	1776	c.1360A>G	c.(1360-1362)AGA>GGA	p.R454G	CTDSPL2_uc001zts.2_Missense_Mutation_p.R454G|CTDSPL2_uc001ztt.2_Missense_Mutation_p.R454G|CTDSPL2_uc010bdv.2_Missense_Mutation_p.R382G	NM_016396	NP_057480	Q05D32	CTSL2_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	454							phosphoprotein phosphatase activity				0		all_cancers(109;4.36e-14)|all_epithelial(112;9.8e-12)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.0122)		all cancers(107;1.02e-20)|GBM - Glioblastoma multiforme(94;1.49e-06)|COAD - Colon adenocarcinoma(120;0.0857)|Colorectal(105;0.0905)		ACCACACATCAGAGACAGATT	0.388													9	43					0	0	0.008291	0	0		G	44816331	G	G	44816331	3	3	54	1	0	0	0	0	1	0	0	0	4009	180	7	3	1406	3	CTDSPL2	15	44816331	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	19894661	44816331	57715061	140	38985											
CYP11A1	1583	broad.mit.edu	37	chr15	74659825	74659825	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatgccagctccctcgccAgtgggcaccctgagacgccc	7	5	12	17	2	0	2	0	1	0	2	2	4	1	2	5	1	2	2	5	1	0	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr15:74659825A>G	uc002axt.2	-	1	257	c.102T>C	c.(100-102)ACT>ACC	p.T34T	CYP11A1_uc002axs.2_5'Flank|CYP11A1_uc010bjm.1_5'Flank|CYP11A1_uc010bjn.1_RNA|CYP11A1_uc010bjo.1_Silent_p.T34T|CYP11A1_uc010ulj.1_5'UTR|CYP11A1_uc010bjq.2_Silent_p.T34T	NM_000781	NP_000772	P05108	CP11A_HUMAN	cytochrome P450, family 11, subfamily A,	34					C21-steroid hormone biosynthetic process|cholesterol metabolic process|vitamin D metabolic process|xenobiotic metabolic process	mitochondrial matrix	cholesterol monooxygenase (side-chain-cleaving) activity|electron carrier activity|heme binding			ovary(2)	2					Aminoglutethimide(DB00357)|Cholecalciferol(DB00169)|Cimetidine(DB00501)|Clotrimazole(DB00257)|Digitoxin(DB01396)|Digoxin(DB00390)|Medroxyprogesterone(DB00603)|Ouabain(DB01092)|Progesterone(DB00396)|Testosterone(DB00624)|Trilostane(DB01108)	CTCCCTCGCCAGTGGGCACCC	0.632													9	21					0	0	0.008291	0	0		G	74659825	G	G	74659825	2	3	54	1	0	0	0	0	0	0	0	1	4147	175	7	3		3	CYP11A1	15	74659825	Silent	SNP	A	TCGA-BR-7723-01A-11D-2053-08	29843494	74659825	27871567	141	38986											
MEX3B	84206	broad.mit.edu	37	chr15	82335547	82335547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaccgcggtgtggcagaccGggcactcgggctcgctcttc	4	8	15	14	5	1	2	0	1	1	1	4	2	1	2	2	4	0	4	2	4	0	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr15:82335547G>A	uc002bgq.1	-	2	1979	c.1664C>T	c.(1663-1665)CCG>CTG	p.P555L		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	555	RING-type.				protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						GTGGCAGACCGGGCACTCGGG	0.637													16	54					0	0	0.004007	0	0		A	82335547	A	A	82335547	3	1	54	1	0	0	0	0	1	0	0	0	9528	1116	39	1	49	1	MEX3B	15	82335547	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	7675722	82335547	20195845	142	38987											
RHCG	51458	broad.mit.edu	37	chr15	90023598	90023598	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgagcccaaagtaggcGccaaatgtgtggatggtcat	11	9	13	8	1	1	1	1	1	0	0	1	2	1	2	2	3	1	1	2	3	3	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr15:90023598G>A	uc002bnz.2	-	4	588	c.564C>T	c.(562-564)GGC>GGT	p.G188G	RHCG_uc002bny.2_5'Flank|RHCG_uc002boa.2_RNA|RHCG_uc010bnq.1_Silent_p.G72G	NM_016321	NP_057405	Q9UBD6	RHCG_HUMAN	Rh family, C glycoprotein	188	Helical; (Potential).				amine transport|cellular ion homeostasis|epithelial cell differentiation|transepithelial ammonium transport	apical plasma membrane|basolateral plasma membrane|cytoplasmic vesicle|integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			kidney(1)	1	Lung NSC(78;0.0237)|all_lung(78;0.0478)					CAAAGTAGGCGCCAAATGTGT	0.577													28	94					0	0	0.013726	0	0		A	90023598	A	A	90023598	2	1	54	1	0	0	0	0	0	0	0	1	13351	1074	38	1		1	RHCG	15	90023598	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	7688051	90023598	12507794	143	38988											
IGF1R	3480	broad.mit.edu	37	chr15	99434708	99434708	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtgtgcctgcctgcccGcccaacacctacaggtttga	6	10	10	15	1	1	1	0	1	1	0	1	1	1	1	5	1	5	1	5	1	2	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr15:99434708G>A	uc002bul.2	+	3	845	c.795G>A	c.(793-795)CCG>CCA	p.P265P	IGF1R_uc010urq.1_Silent_p.P265P|IGF1R_uc010bon.2_Silent_p.P265P	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	265					anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	CTGCCTGCCCGCCCAACACCT	0.642													11	31					0	0	0.001855	0	0		A	99434708	A	A	99434708	2	1	54	1	0	0	0	0	0	0	0	1	7587	1074	38	1		1	IGF1R	15	99434708	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	9411110	99434708	3096684	144	38989											
PRM3	58531	broad.mit.edu	37	chr16	11367275	11367277	+	In_Frame_Del	DEL	CCT	-	-																															ttctttctcctcctcttcccCctcctcctcctcttcctcct																										TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr16:11367275_11367277delCCT	uc002dat.1	-	1	176_178	c.176_178delAGG	c.(175-180)GAGGGG>GGG	p.E59del	C16orf75_uc002daq.1_Intron	NM_021247	NP_067070	Q9NNZ6	PRM3_HUMAN	protamine 3	59	Asp/Glu-rich (highly acidic).				cell differentiation|chromosome condensation|multicellular organismal development|spermatogenesis	nucleosome|nucleus	DNA binding				0						tcctcttccccctcctcctcctc	0.468													3	4	---	---	---	---						.	-	11367277	-	-	11367275	7	5	54	1	0	1	0	1	0	0	0	0	12556	623	22	0	134	0	PRM3	16	11367275	In_Frame_Del	DEL	CCT	TCGA-BR-7723-01A-11D-2053-08		11367275	78987478	145	38990											
ACSM2B	348158	broad.mit.edu	37	chr16	20576139	20576139	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtaccccacagggtgcaaAgtccctgaacttttcgcagc	10	8	10	13	1	0	1	0	1	0	0	2	2	1	1	3	1	4	3	3	1	3	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr16:20576139A>C	uc002dhj.3	-	3	239	c.29T>G	c.(28-30)CTT>CGT	p.L10R	ACSM2B_uc002dhk.3_Missense_Mutation_p.L10R|ACSM2B_uc010bwf.1_Missense_Mutation_p.L10R	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	10					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						CAGGGTGCAAAGTCCCTGAAC	0.507													7	40					0	0	0.004482	0	0		C	20576139	C	C	20576139	3	2	54	1	0	0	0	0	1	0	0	0	184	72	3	5	1756	5	ACSM2B	16	20576139	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	9208864	20576139	69778614	146	38991											
PRSS36	146547	broad.mit.edu	37	chr16	31157137	31157137	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgtccctgcggccctctggGtagccagcacacagcatccc	6	7	11	17	1	1	0	0	0	1	0	3	0	3	0	4	2	4	3	4	2	1	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr16:31157137G>A	uc002ebd.2	-	6	752	c.693C>T	c.(691-693)TAC>TAT	p.Y231Y	PRSS36_uc010vff.1_Silent_p.Y6Y|PRSS36_uc010vfg.1_Silent_p.Y231Y|PRSS36_uc010vfh.1_Silent_p.Y231Y	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	231	Peptidase S1 1.				proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						GGCCCTCTGGGTAGCCAGCAC	0.602													16	73					0	0	0.007413	0	0		A	31157137	A	A	31157137	2	1	54	1	0	0	0	0	0	0	0	1	12647	1256	44	4		4	PRSS36	16	31157137	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	10580998	31157137	59197616	147	38992											
IRX5	10265	broad.mit.edu	37	chr16	54967389	54967389	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtcaaggacgggggcggCgggaacgagggctctccatg	9	4	19	9	4	2	0	1	0	1	0	3	3	2	2	1	7	1	1	1	7	3	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr16:54967389C>G	uc002ehv.2	+	3	1056	c.1056C>G	c.(1054-1056)GGC>GGG	p.G352G	IRX5_uc002ehw.2_Silent_p.G286G	NM_005853	NP_005844	P78411	IRX5_HUMAN	iroquois homeobox protein 5	352	Poly-Gly.				response to stimulus|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|vitamin D binding				0						ACGGGGGCGGCGGGAACGAGG	0.731													5	10					0	0	0.00308	0	0		G	54967389	G	G	54967389	2	3	54	1	0	0	0	0	0	0	0	1	7863	755	27	5		5	IRX5	16	54967389	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08	23810252	54967389	35387364	148	38993											
CNOT1	23019	broad.mit.edu	37	chr16	58612764	58612764	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggacagtgtttgatagggaAgctgaagagctgtttgactt	10	13	14	4	0	0	4	0	3	0	1	0	6	0	6	0	2	2	4	0	2	3	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr16:58612764A>C	uc002env.2	-	13	1716	c.1423T>G	c.(1423-1425)TTC>GTC	p.F475V	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.F475V|CNOT1_uc002enx.2_Missense_Mutation_p.F475V|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	475					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TTGATAGGGAAGCTGAAGAGC	0.458													23	38					0	0	0.007291	0	0		C	58612764	C	C	58612764	3	2	54	1	0	0	0	0	1	0	0	0	3620	72	3	5	6077	5	CNOT1	16	58612764	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	3645375	58612764	31741989	149	38994											
MTSS1L	92154	broad.mit.edu	37	chr16	70697994	70697994	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacgcactcctcactgccCgcccgtgtgggccccatgta	7	7	10	17	3	1	1	1	0	0	1	2	1	2	1	5	1	1	2	5	1	2	1	rs144949231		TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr16:70697994C>T	uc002ezj.2	-	15	2090	c.1830G>A	c.(1828-1830)GCG>GCA	p.A610A		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	610					filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						CCTCACTGCCCGCCCGTGTGG	0.692													7	10					0	0	0.004482	0	0		T	70697994	T	T	70697994	2	4	54	1	0	0	0	0	0	0	0	1	9981	639	23	1		1	MTSS1L	16	70697994	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08	12085230	70697994	19656759	150	38995											
BCMO1	53630	broad.mit.edu	37	chr16	81314536	81314536	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaaggaagaagatggccaAgtctactgccagccggaatt	13	7	12	9	1	1	3	0	1	1	2	1	5	1	5	3	3	3	0	3	3	6	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr16:81314536A>G	uc002fgn.1	+	8	1394	c.1176A>G	c.(1174-1176)CAA>CAG	p.Q392Q	BCMO1_uc010vnp.1_Silent_p.Q323Q	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	392					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						AAGATGGCCAAGTCTACTGCC	0.443													12	17					0	0	0.001855	0	0		G	81314536	G	G	81314536	2	3	54	1	0	0	0	0	0	0	0	1	1385	69	3	3		3	BCMO1	16	81314536	Silent	SNP	A	TCGA-BR-7723-01A-11D-2053-08	10616542	81314536	9040217	151	38996											
ZC3H18	124245	broad.mit.edu	37	chr16	88691082	88691082	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaccactgctcctgtcccCgagcccaccaagccaggaga	12	4	8	17	1	0	1	0	0	0	1	2	3	2	1	7	1	4	1	7	1	3	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr16:88691082C>T	uc002fky.2	+	12	2171	c.1971C>T	c.(1969-1971)CCC>CCT	p.P657P	ZC3H18_uc010voz.1_Silent_p.P681P|ZC3H18_uc010chw.2_RNA|ZC3H18_uc002fkz.2_5'Flank	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	657	Ser-rich.					nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		CTCCTGTCCCCGAGCCCACCA	0.692													3	28					0	0	0.000602	0	0		T	88691082	T	T	88691082	2	4	54	1	0	0	0	0	0	0	0	1	17593	639	23	1		1	ZC3H18	16	88691082	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08	7376546	88691082	1663671	152	38997											
PITPNM3	83394	broad.mit.edu	37	chr17	6374626	6374626	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccagaagtggcgggctgtcCcgggagctgccctccaggaa	7	6	15	13	2	0	1	0	0	0	1	3	3	3	3	4	4	2	2	4	4	2	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr17:6374626C>A	uc002gdd.3	-	12	1630	c.1479G>T	c.(1477-1479)CGG>CGT	p.R493R	PITPNM3_uc010cln.2_Silent_p.R457R|PITPNM3_uc010clm.2_5'UTR|PITPNM3_uc002gdc.3_Silent_p.R84R	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	493	DDHD.				phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		GCGGGCTGTCCCGGGAGCTGC	0.662													3	11					0.00024832	0.000256115	0.009096	1	0		A	6374626	A	A	6374626	2	1	54	1	0	0	0	0	0	0	0	1	11971	610	22	5		5	PITPNM3	17	6374626	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08		6374626	74820584	153	38998											
TP53	7157	broad.mit.edu	37	chr17	7577156	7577156	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtcccagtagattaccaCtactcaggataggaaaagag	14	8	9	10	1	1	2	1	0	0	2	3	4	3	4	3	2	2	1	3	2	6	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr17:7577156C>T	uc002gim.2	-	8	977	c.783_splice	c.e8-1	p.S261_splice	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Splice_Site_p.S261_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Splice_Site_p.S129_splice|TP53_uc010cng.1_Splice_Site_p.S129_splice|TP53_uc002gii.1_Splice_Site_p.S129_splice|TP53_uc010cnh.1_Splice_Site_p.S261_splice|TP53_uc010cni.1_Splice_Site_p.S261_splice|TP53_uc002gij.2_Splice_Site_p.S261_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.?(18)|p.0?(7)|p.E258fs*71(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TAGATTACCACTACTCAGGAT	0.512		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			7	2					0	0	0.001984	0	0		T	7577156	T	T	7577156	5	4	54	1	0	0	0	0	0	0	1	0	16407	579	20	4	504	4	TP53	17	7577156	Splice_Site	SNP	C	TCGA-BR-7723-01A-11D-2053-08	1202530	7577156	73618054	154	38999											
LRRC37B	114659	broad.mit.edu	37	chr17	30349600	30349600	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcctcatccagaccaggttCagactctgcatcgaagcctg	9	9	8	15	1	3	2	2	0	1	2	6	3	5	2	4	1	2	2	4	1	1	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr17:30349600C>T	uc002hgu.2	+	1	1446	c.1435C>T	c.(1435-1437)CAG>TAG	p.Q479*	LRRC37B_uc010wbx.1_Nonsense_Mutation_p.Q397*|LRRC37B_uc010csu.2_Nonsense_Mutation_p.Q479*	NM_052888	NP_443120	Q96QE4	LR37B_HUMAN	leucine rich repeat containing 37B precursor	479	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)				AGACCAGGTTCAGACTCTGCA	0.522													11	53					0	0	0.006122	0	0		T	30349600	T	T	30349600	4	4	54	1	0	0	0	0	0	1	0	0	9012	827	29	4	1437	4	LRRC37B	17	30349600	Nonsense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	22772444	30349600	50845610	155	39000											
JUP	3728	broad.mit.edu	37	chr17	39923791	39923791	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacaggagcaggttgtgcAgcgtggtgatggcatagaac	10	8	17	6	1	0	2	0	1	0	1	0	3	0	3	0	5	5	5	0	5	3	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr17:39923791A>G	uc002hxq.2	-	5	1026	c.749T>C	c.(748-750)CTG>CCG	p.L250P	JUP_uc010wfs.1_Missense_Mutation_p.L250P|JUP_uc002hxr.2_Missense_Mutation_p.L250P|JUP_uc002hxs.2_Missense_Mutation_p.L250P	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	250	ARM 2.				adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		CAGGTTGTGCAGCGTGGTGAT	0.627													8	475					0	0	0.004482	0	0		G	39923791	G	G	39923791	3	3	54	1	0	0	0	0	1	0	0	0	7988	188	7	3	1528	3	JUP	17	39923791	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	9574191	39923791	41271419	156	39001											
WNK4	65266	broad.mit.edu	37	chr17	40945635	40945635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taacgagttcattctgccttCggagcgagatggatttctca	9	13	10	9	3	3	1	2	0	2	1	5	5	3	3	1	2	3	1	1	2	1	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr17:40945635C>T	uc002ibj.2	+	12	2204	c.2183C>T	c.(2182-2184)TCG>TTG	p.S728L	WNK4_uc010wgx.1_Missense_Mutation_p.S392L|WNK4_uc002ibk.1_Missense_Mutation_p.S500L|WNK4_uc010wgy.1_Missense_Mutation_p.S72L	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	728					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		ATTCTGCCTTCGGAGCGAGAT	0.527													10	48					0	0	0.013537	0	0		T	40945635	T	T	40945635	3	4	54	1	0	0	0	0	1	0	0	0	17406	893	31	1	2229	1	WNK4	17	40945635	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	1021844	40945635	40249575	157	39002											
XYLT2	64132	broad.mit.edu	37	chr17	48433527	48433527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggtcaccaactggaacCgcaagctgggctgcaagtgc	9	6	14	12	2	1	0	1	0	0	0	1	1	1	1	2	3	6	4	2	3	4	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr17:48433527C>T	uc002iqo.2	+	7	1496	c.1387C>T	c.(1387-1389)CGC>TGC	p.R463C	XYLT2_uc010dbo.2_RNA	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	463	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)					CAACTGGAACCGCAAGCTGGG	0.597													15	94					0	0	0.00499	0	0		T	48433527	T	T	48433527	3	4	54	1	0	0	0	0	1	0	0	0	17490	652	23	1	1413	1	XYLT2	17	48433527	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	7487892	48433527	32761683	158	39003											
KIF2B	84643	broad.mit.edu	37	chr17	51901040	51901040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaagaacatcgcatctgcGtctgcgtgaggaagcggcct	9	7	13	12	5	2	2	0	1	2	1	3	3	2	3	1	2	4	2	1	2	3	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr17:51901040G>A	uc002iua.2	+	1	802	c.646G>A	c.(646-648)GTC>ATC	p.V216I	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	216	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TCGCATCTGCGTCTGCGTGAG	0.547													10	35					0	0	0.008291	0	0		A	51901040	A	A	51901040	3	1	54	1	0	0	0	0	1	0	0	0	8314	1145	40	1	648	1	KIF2B	17	51901040	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	3467513	51901040	29294170	159	39004											
SCN4A	6329	broad.mit.edu	37	chr17	62026057	62026057	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttgaagcaggccctgcgcaGagtccaccacttcttcccac	8	8	8	17	1	1	2	0	1	1	1	3	2	3	2	4	1	2	2	4	1	1	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr17:62026057G>C	uc002jds.1	-	16	3135	c.3058C>G	c.(3058-3060)CTG>GTG	p.L1020V		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1020					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GCCCTGCGCAGAGTCCACCAC	0.617													18	40					0	0	0.006122	0	0		C	62026057	C	C	62026057	3	2	54	1	0	0	0	0	1	0	0	0	13945	933	33	5	2488	5	SCN4A	17	62026057	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	10125017	62026057	19169153	160	39005											
MEX3C	51320	broad.mit.edu	37	chr18	48703728	48703728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttggacggtggtttgacCgggcagattaggactacatg	9	10	15	7	2	0	2	0	1	0	1	0	5	0	4	1	5	1	2	1	5	2	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr18:48703728C>T	uc002lfc.3	-	2	973	c.973G>A	c.(973-975)GGT>AGT	p.G325S		NM_016626	NP_057710	Q5U5Q3	MEX3C_HUMAN	ring finger and KH domain containing 2	325						cytoplasm|nucleus	RNA binding|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		Colorectal(6;0.003)|all_epithelial(6;0.0473)		Colorectal(16;0.0175)|READ - Rectum adenocarcinoma(32;0.15)		GTGGTTTGACCGGGCAGATTA	0.498													5	10					0	0	0.001168	0	0		T	48703728	T	T	48703728	3	4	54	1	0	0	0	0	1	0	0	0	9529	652	23	1	1010	1	MEX3C	18	48703728	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08		48703728	29373520	161	39006											
CD320	51293	broad.mit.edu	37	chr19	8369960	8369960	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gctgcagtccaagtccctgtCgcagcgccaggtgaggggca	7	6	15	13	2	0	1	0	1	0	0	3	1	2	1	3	3	2	4	3	3	1	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:8369960C>G	uc002mjj.1	-	2	288	c.223G>C	c.(223-225)GAC>CAC	p.D75H	CD320_uc002mjk.1_RNA|CD320_uc002mjl.1_Intron	NM_016579	NP_057663	Q9NPF0	CD320_HUMAN	8D6 antigen isoform 1 precursor	75	Extracellular (Potential).|LDL-receptor class A 1.				regulation of cell growth	endoplasmic reticulum|integral to membrane	growth factor activity				0						AAGTCCCTGTCGCAGCGCCAG	0.662													3	29					0	0	0.004672	0	0		G	8369960	G	G	8369960	3	3	54	1	0	0	0	0	1	0	0	0	3007	884	31	5	641	5	CD320	19	8369960	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08		8369960	50759023	162	39007											
KRI1	65095	broad.mit.edu	37	chr19	10665849	10665849	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcttgtcccgcagctcCtcctgctctgacctgcagac	4	9	9	19	2	1	2	0	1	1	1	4	2	4	2	5	0	3	5	5	0	0	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:10665849C>T	uc002moy.1	-	18	1722	c.1713G>A	c.(1711-1713)GAG>GAA	p.E571E	KRI1_uc002mow.1_Silent_p.E190E|KRI1_uc002mox.1_Silent_p.E567E	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	571										ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			CCCGCAGCTCCTCCTGCTCTG	0.527													43	49					0	0	0.01441	0	0		T	10665849	T	T	10665849	2	4	54	1	0	0	0	0	0	0	0	1	8460	680	24	4		4	KRI1	19	10665849	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08	2295889	10665849	48463134	163	39008											
ZNF682	91120	broad.mit.edu	37	chr19	20117991	20117991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttaagtgtaaatcctcaagtCcacagcttccatatcttctc	11	14	4	12	0	3	0	1	0	2	0	7	0	6	0	3	0	1	2	3	0	5	5			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:20117991C>T	uc002noq.2	-	4	443	c.320G>A	c.(319-321)GGA>GAA	p.G107E	ZNF682_uc002noo.2_Missense_Mutation_p.G75E|ZNF682_uc002nop.2_Missense_Mutation_p.G75E|ZNF682_uc010eck.2_Missense_Mutation_p.G31E	NM_033196	NP_149973	O95780	ZN682_HUMAN	zinc finger protein 682 isoform 1	107					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						ATCCTCAAGTCCACAGCTTCC	0.373													9	26					0	0	0.010729	0	0		T	20117991	T	T	20117991	3	4	54	1	0	0	0	0	1	0	0	0	18114	855	30	4	1180	4	ZNF682	19	20117991	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	9452142	20117991	39010992	164	39009											
ZNF737	100129842	broad.mit.edu	37	chr19	20727642	20727642	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggctttgccacattctTcacatttgtagggtttctct	7	17	8	9	0	3	1	1	1	2	0	4	1	3	1	1	2	1	3	1	2	2	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:20727642T>C	uc002npa.2	-	4	1547	c.1367A>G	c.(1366-1368)GAA>GGA	p.E456G		NM_001159293	NP_001152765	C9JHM3	C9JHM3_HUMAN	zinc finger protein 737	456					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GCCACATTCTTCACATTTGTA	0.428													21	31					0	0	0.00333	0	0		C	20727642	C	C	20727642	3	2	54	1	0	0	0	0	1	0	0	0	18151	1783	62	3	247	3	ZNF737	19	20727642	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	609651	20727642	38401341	165	39010											
ZNF345	25850	broad.mit.edu	37	chr19	37368345	37368345	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgagaaaccttatgaatgtAtagattgtggtaaagccttt	13	14	10	4	0	0	3	0	2	0	2	0	4	0	3	2	1	2	2	2	1	7	6			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:37368345A>G	uc002oex.2	+	3	991	c.613A>G	c.(613-615)ATA>GTA	p.I205V	ZNF345_uc002oey.3_Missense_Mutation_p.I205V|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	205	C2H2-type 6.				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTATGAATGTATAGATTGTGG	0.423													23	38					0	0	0.00278	0	0		G	37368345	G	G	37368345	3	3	54	1	0	0	0	0	1	0	0	0	17884	449	16	3	615	3	ZNF345	19	37368345	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	16640703	37368345	21760638	166	39011											
C19orf33	64073	broad.mit.edu	37	chr19	38795285	38795285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggacaccacagctcttccGactccagcagcagctccagc	11	5	8	17	1	1	0	0	0	1	0	4	2	4	1	4	1	5	4	4	1	1	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:38795285G>A	uc002ohu.1	+	3	258	c.160G>A	c.(160-162)GAC>AAC	p.D54N	YIF1B_uc002ohw.2_3'UTR|YIF1B_uc002ohx.2_3'UTR|YIF1B_uc010xtx.1_3'UTR|YIF1B_uc010xty.1_3'UTR|YIF1B_uc002oia.2_3'UTR|YIF1B_uc002ohy.2_3'UTR|YIF1B_uc002ohz.2_3'UTR|C19orf33_uc002ohv.1_Silent_p.P73P	NM_033520	NP_277055	Q9GZP8	IMUP_HUMAN	HAI-2 related small protein	54						nucleus					0	all_cancers(60;1.07e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CAGCTCTTCCGACTCCAGCAG	0.662													8	19					0	0	0.010729	0	0		A	38795285	A	A	38795285	3	1	54	1	0	0	0	0	1	0	0	0	1922	1058	37	1	170	1	C19orf33	19	38795285	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	1426940	38795285	20333698	167	39012											
RYR1	6261	broad.mit.edu	37	chr19	38991278	38991278	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggcaagggtgaggccctgcgGatccgcgccatcctccgctc	5	6	14	16	4	0	1	0	1	0	0	4	2	3	2	5	4	1	2	5	4	1	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:38991278G>A	uc002oit.2	+	46	7486	c.7356G>A	c.(7354-7356)CGG>CGA	p.R2452R	RYR1_uc002oiu.2_Silent_p.R2452R|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2452	Cytoplasmic.|6 X approximate repeats.		R -> W (in MHS1).		muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AGGCCCTGCGGATCCGCGCCA	0.642													13	65					0	0	0.00245	0	0		A	38991278	A	A	38991278	2	1	54	1	0	0	0	0	0	0	0	1	13793	1161	41	4		4	RYR1	19	38991278	Silent	SNP	G	TCGA-BR-7723-01A-11D-2053-08	195993	38991278	20137705	168	39013											
PPP1R13L	10848	broad.mit.edu	37	chr19	45899878	45899878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaaggcggacgctggcgCgtcgtaggctgtggcagggg	5	5	20	11	6	0	0	0	0	0	0	1	2	0	1	1	7	0	4	1	7	2	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:45899878C>T	uc002pbn.2	-	4	714	c.637G>A	c.(637-639)GCG>ACG	p.A213T	PPP1R13L_uc002pbo.2_Missense_Mutation_p.A213T|PPP1R13L_uc002pbp.2_Missense_Mutation_p.A213T	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	213	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		GACGCTGGCGCGTCGTAGGCT	0.786													7	4					0	0	0.006214	0	0		T	45899878	T	T	45899878	3	4	54	1	0	0	0	0	1	0	0	0	12380	768	27	1	1889	1	PPP1R13L	19	45899878	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	6908600	45899878	13229105	169	39014											
CD33	945	broad.mit.edu	37	chr19	51728508	51728508	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatccaaatttctggctgcaAgtgcaggagtcagtgacggt	10	10	13	8	1	2	1	1	1	1	0	3	3	3	2	1	3	2	3	1	3	2	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:51728508A>T	uc002pwa.2	+	2	112	c.72A>T	c.(70-72)CAA>CAT	p.Q24H	CD33_uc010eos.1_Missense_Mutation_p.Q24H|CD33_uc010eot.1_Intron|CD33_uc010eou.1_5'Flank	NM_001772	NP_001763	P20138	CD33_HUMAN	CD33 antigen isoform 1 precursor	24	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell-cell signaling|negative regulation of cell proliferation	external side of plasma membrane|integral to plasma membrane	receptor activity|sugar binding				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	TCTGGCTGCAAGTGCAGGAGT	0.592													9	80					0	0	0.008291	0	0		T	51728508	T	T	51728508	3	4	54	1	0	0	0	0	1	0	0	0	3008	69	3	5	78	5	CD33	19	51728508	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	5828630	51728508	7400475	170	39015											
ZNF528	84436	broad.mit.edu	37	chr19	52918410	52918410	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgggaagtaatgcaggaaAcaagccttgtaaaaatcaac	18	8	9	6	0	1	0	1	0	0	0	1	2	1	2	1	2	4	3	1	2	8	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:52918410A>T	uc002pzh.2	+	7	731	c.305A>T	c.(304-306)AAC>ATC	p.N102I	ZNF528_uc002pzi.2_5'UTR	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	102					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		AATGCAGGAAACAAGCCTTGT	0.373													5	64					0	0	0.001168	0	0		T	52918410	T	T	52918410	3	4	54	1	0	0	0	0	1	0	0	0	17994	43	2	5	319	5	ZNF528	19	52918410	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	1189902	52918410	6210573	171	39016											
PRKCG	5582	broad.mit.edu	37	chr19	54407962	54407962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactgtcacctaccccaagtCgctttcccgggaagccgtgg	8	8	10	15	3	1	0	1	0	0	0	3	1	2	1	5	2	3	1	5	2	4	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:54407962C>T	uc002qcq.1	+	16	2012	c.1730C>T	c.(1729-1731)TCG>TTG	p.S577L	PRKCG_uc010yeg.1_Missense_Mutation_p.S577L|PRKCG_uc010yeh.1_Intron	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	577	Protein kinase.				activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		TACCCCAAGTCGCTTTCCCGG	0.562													5	34					0	0	0.001984	0	0		T	54407962	T	T	54407962	3	4	54	1	0	0	0	0	1	0	0	0	12534	893	31	1	1792	1	PRKCG	19	54407962	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	1489552	54407962	4721021	172	39017											
LILRB5	10990	broad.mit.edu	37	chr19	54755967	54755967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgtgtccttcacggcagCatctgctgggccagagcaag	7	9	13	12	1	2	1	1	0	1	1	3	1	3	1	2	2	3	4	2	2	1	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:54755967C>T	uc002qex.2	-	12	1687	c.1576G>A	c.(1576-1578)GCT>ACT	p.A526T	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.A518T|LILRB5_uc002qey.2_Missense_Mutation_p.A527T|LILRB5_uc002qez.2_Missense_Mutation_p.A427T|LILRB5_uc002qfa.1_3'UTR	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	526	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TTCACGGCAGCATCTGCTGGG	0.637													61	207					0	0	0.01441	0	0		T	54755967	T	T	54755967	3	4	54	1	0	0	0	0	1	0	0	0	8810	710	25	2	204	2	LILRB5	19	54755967	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	348005	54755967	4373016	173	39018											
ZFP28	140612	broad.mit.edu	37	chr19	57060356	57060356	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgtggaagatcaaggagTtacctctcaagaaggacttc	12	10	11	8	0	2	2	2	0	1	2	4	5	2	5	1	3	1	1	1	3	5	2			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:57060356T>G	uc002qnj.2	+	5	624	c.553T>G	c.(553-555)TTA>GTA	p.L185V	ZFP28_uc002qni.2_Missense_Mutation_p.L185V|uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	185					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		GATCAAGGAGTTACCTCTCAA	0.398													11	37					0	0	0.001855	0	0		G	57060356	G	G	57060356	3	3	54	1	0	0	0	0	1	0	0	0	17667	1722	60	5	571	5	ZFP28	19	57060356	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	2304389	57060356	2068627	174	39019											
ZNF749	388567	broad.mit.edu	37	chr19	57956103	57956104	+	Missense_Mutation	DNP	TG	CC	CC																															aagtcccacctagttcagcaTgagaaaatccacactgatgc																										TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:57956103_57956104TG>CC	uc002qoq.2	+	3	1841_1842	c.1587_1588TG>CC	c.(1585-1590)CATGAG>CACCAG	p.E530Q	ZNF547_uc002qpm.3_Intron	NM_001023561	NP_001018855	O43361	ZN749_HUMAN	zinc finger protein 749	530	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)|Lung(386;0.177)		TAGTTCAGCATGAGAAAATCCA	0.45													4	119					0	0	0.004672	0	0		CC	57956104	CC	CC	57956103	3	2	54	1	0	0	0	0	1	0	0	0	18156	1461	51	3	1597	3	ZNF749	19	57956103	Missense_Mutation	DNP	TG	TCGA-BR-7723-01A-11D-2053-08	895747	57956103	1172880	175	39020											
ZNF211	10520	broad.mit.edu	37	chr19	58152621	58152621	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcctcactagagaaggacTttttgagtgcagtaaatgtg	13	12	10	6	0	1	2	1	1	0	1	2	4	2	3	1	1	1	2	1	1	5	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:58152621T>A	uc002qpq.2	+	3	947	c.767T>A	c.(766-768)CTT>CAT	p.L256H	ZNF211_uc010yhb.1_Missense_Mutation_p.L260H|ZNF211_uc002qpp.2_Missense_Mutation_p.L269H|ZNF211_uc002qpr.2_Missense_Mutation_p.L320H|ZNF211_uc002qps.2_Missense_Mutation_p.L321H|ZNF211_uc002qpt.2_Missense_Mutation_p.L268H|ZNF211_uc010yhc.1_Missense_Mutation_p.L268H|ZNF211_uc010yhd.1_Missense_Mutation_p.L195H|ZNF211_uc010yhe.1_Missense_Mutation_p.L247H	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	256						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AGAGAAGGACTTTTTGAGTGC	0.428													15	155					0	0	0.00499	0	0		A	58152621	A	A	58152621	3	1	54	1	0	0	0	0	1	0	0	0	17792	1609	56	5	820	5	ZNF211	19	58152621	Missense_Mutation	SNP	T	TCGA-BR-7723-01A-11D-2053-08	196518	58152621	976362	176	39021											
ZSCAN4	201516	broad.mit.edu	37	chr19	58189377	58189377	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaaaacaagtgaatgcccaAaccacaagagaagcaaacat	22	3	6	10	0	0	2	0	1	0	1	0	3	0	2	2	0	5	1	2	0	8	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr19:58189377A>C	uc002qpu.2	+	4	1189	c.492A>C	c.(490-492)CAA>CAC	p.Q164H		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	164					telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGAATGCCCAAACCACAAGAG	0.468													20	107					0	0	0.012319	0	0		C	58189377	C	C	58189377	3	2	54	1	0	0	0	0	1	0	0	0	18262	11	1	5	498	5	ZSCAN4	19	58189377	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	36756	58189377	939606	177	39022											
NINL	22981	broad.mit.edu	37	chr20	25478911	25478911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggacggcactgtccactgtCatgagctcgttgtcaagggc	7	10	13	11	2	2	1	2	1	0	0	4	2	3	2	1	3	1	3	1	3	1	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr20:25478911C>T	uc002wux.1	-	9	1178	c.1104G>A	c.(1102-1104)ATG>ATA	p.M368I	NINL_uc010gdn.1_Missense_Mutation_p.M368I|NINL_uc010gdo.1_Missense_Mutation_p.M151I|NINL_uc010ztf.1_Missense_Mutation_p.M384I	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	368					G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						TGTCCACTGTCATGAGCTCGT	0.612													11	36					0	0	0.013537	0	0		T	25478911	T	T	25478911	3	4	54	1	0	0	0	0	1	0	0	0	10439	826	29	4	3108	4	NINL	20	25478911	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08		25478911	37546609	178	39023											
DNMT3B	1789	broad.mit.edu	37	chr20	31388003	31388003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcataaaggtaggaaagtacGtcgcttctgaagtgtgtgag	12	10	14	5	2	1	2	0	2	1	0	2	3	1	3	0	2	1	4	0	2	6	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr20:31388003G>A	uc002wyc.2	+	17	2125	c.1804G>A	c.(1804-1806)GTC>ATC	p.V602I	DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Missense_Mutation_p.V582I|DNMT3B_uc002wye.2_Missense_Mutation_p.V582I|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.V540I|DNMT3B_uc010zua.1_Missense_Mutation_p.V506I|DNMT3B_uc002wyf.2_Missense_Mutation_p.V594I|DNMT3B_uc002wyg.2_Missense_Mutation_p.V301I|DNMT3B_uc010geg.2_5'Flank|DNMT3B_uc010geh.2_5'Flank	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	602					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						AGGAAAGTACGTCGCTTCTGA	0.483													17	187					0	0	0.00499	0	0		A	31388003	A	A	31388003	3	1	54	1	0	0	0	0	1	0	0	0	4683	1145	40	1	1906	1	DNMT3B	20	31388003	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	5909092	31388003	31637517	179	39024											
KCNK15	60598	broad.mit.edu	37	chr20	43374604	43374604	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcctgtgcaccctgtgttAcctgctggtgggcgctgctg	2	12	15	12	1	0	0	0	0	0	0	1	0	1	0	3	3	4	5	3	3	1	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr20:43374604A>G	uc002xmr.2	+	1	117	c.53A>G	c.(52-54)TAC>TGC	p.Y18C		NM_022358	NP_071753	Q9H427	KCNKF_HUMAN	potassium family, subfamily K, member 15	18	Helical; (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity				0		Myeloproliferative disorder(115;0.0122)				ACCCTGTGTTACCTGCTGGTG	0.736													6	30					0	0	0.001984	0	0		G	43374604	G	G	43374604	3	3	54	1	0	0	0	0	1	0	0	0	8078	391	14	3	55	3	KCNK15	20	43374604	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	11986601	43374604	19650916	180	39025											
TSHZ2	128553	broad.mit.edu	37	chr20	51870079	51870079	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaagaagaggaggaaataAaagaagaggaggaggaggag	21	2	18	0	0	0	5	0	1	0	4	0	11	0	11	0	6	0	0	0	6	6	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr20:51870079A>C	uc002xwo.2	+	2	1038	c.82A>C	c.(82-84)AAA>CAA	p.K28Q		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	28	Potential.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			ggaggaaataaaagaagagga	0.378													13	6					0	0	0.013537	0	0		C	51870079	C	C	51870079	3	2	54	1	0	0	0	0	1	0	0	0	16650	15	1	5	88	5	TSHZ2	20	51870079	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	8495475	51870079	11155441	181	39026											
FTCD	10841	broad.mit.edu	37	chr21	47574136	47574136	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccctccaccacgcactcCggcggccccacgaaggtgta	7	4	10	20	4	0	0	0	0	0	0	2	1	2	0	7	3	0	2	7	3	2	1	rs143451664		TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr21:47574136C>T	uc002zif.2	-	2	209	c.165G>A	c.(163-165)CCG>CCA	p.P55P	FTCD_uc002zig.2_Silent_p.P55P|FTCD_uc002zih.2_Silent_p.P55P|FTCD_uc010gqf.2_Silent_p.P55P|FTCD_uc010gqg.1_5'UTR	NM_006657	NP_006648	O95954	FTCD_HUMAN	formiminotransferase cyclodeaminase	55	Formiminotransferase N-subdomain (By similarity).				folic acid-containing compound metabolic process|histidine catabolic process	centriole|cytosol|Golgi apparatus	folic acid binding|formimidoyltetrahydrofolate cyclodeaminase activity|glutamate formimidoyltransferase activity			pancreas(1)|skin(1)	2	Breast(49;0.214)			Colorectal(79;0.235)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CCACGCACTCCGGCGGCCCCA	0.657													13	30					0	0	0.003163	0	0		T	47574136	T	T	47574136	2	4	54	1	0	0	0	0	0	0	0	1	6095	639	23	1		1	FTCD	21	47574136	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08		47574136	555759	182	39027											
TTLL1	25809	broad.mit.edu	37	chr22	43442565	43442565	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgctggacgtgagagaCggggacgcattcacctgtga	9	7	16	9	3	1	3	1	2	0	1	1	6	1	5	1	3	1	3	1	3	0	1	rs143499869		TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chr22:43442565C>T	uc003bdi.2	-	10	1234	c.993G>A	c.(991-993)CCG>CCA	p.P331P	TTLL1_uc010gzh.2_Silent_p.P302P|TTLL1_uc003bdj.2_Silent_p.P217P|TTLL1_uc003bdh.2_Silent_p.P293P	NM_012263	NP_036395	O95922	TTLL1_HUMAN	tubulin tyrosine ligase-like family, member 1	331	TTL.				protein polyglutamylation	cytoplasm|microtubule	ATP binding|tubulin-glutamic acid ligase activity|tubulin-tyrosine ligase activity			skin(1)	1		Ovarian(80;0.0694)		BRCA - Breast invasive adenocarcinoma(115;0.00461)		ACGTGAGAGACGGGGACGCAT	0.512													30	105					0	0	0.004878	0	0		T	43442565	T	T	43442565	2	4	54	1	0	0	0	0	0	0	0	1	16748	523	19	1		1	TTLL1	22	43442565	Silent	SNP	C	TCGA-BR-7723-01A-11D-2053-08		43442565	7862001	183	39028											
RAI2	10742	broad.mit.edu	37	chrX	17819536	17819536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgacagggtgggggccCgagagtgccctgggagggaa	8	4	21	8	1	0	2	0	1	0	1	0	5	0	4	2	6	1	1	2	6	1	0			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chrX:17819536C>T	uc004cyf.2	-	3	1165	c.595G>A	c.(595-597)GGG>AGG	p.G199R	RAI2_uc004cyg.2_Missense_Mutation_p.G199R|RAI2_uc010nfa.2_Missense_Mutation_p.G199R|RAI2_uc004cyh.3_Missense_Mutation_p.G199R|RAI2_uc011miy.1_Missense_Mutation_p.G149R	NM_021785	NP_068557	Q9Y5P3	RAI2_HUMAN	retinoic acid induced 2	199					embryo development					ovary(1)|breast(1)	2	Hepatocellular(33;0.183)					GGTGGGGGCCCGAGAGTGCCC	0.647													11	10					0	0	0.001855	0	0		T	17819536	T	T	17819536	3	4	54	1	0	0	0	0	1	0	0	0	13034	652	23	1	1001	1	RAI2	23	17819536	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08		17819536	137451024	184	39029											
MAGEB18	286514	broad.mit.edu	37	chrX	26157600	26157600	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggtgttgatttgaaggaAgtggatcccatcaggcacta	10	12	12	7	0	1	2	1	2	0	0	2	4	2	4	1	4	0	2	1	4	3	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chrX:26157600A>C	uc004dbq.1	+	2	685	c.498A>C	c.(496-498)GAA>GAC	p.E166D		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	166	MAGE.						protein binding			central_nervous_system(1)	1						ATTTGAAGGAAGTGGATCCCA	0.433													8	5					0	0	0.00308	0	0		C	26157600	C	C	26157600	3	2	54	1	0	0	0	0	1	0	0	0	9193	69	3	5	500	5	MAGEB18	23	26157600	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	8338064	26157600	129112960	185	39030											
IL1RAPL2	26280	broad.mit.edu	37	chrX	104728346	104728346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccaagccattgttccccatgGagaatcagccaagtgttata	12	10	8	11	0	1	1	1	0	0	1	2	2	2	1	5	1	2	2	5	1	5	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chrX:104728346G>A	uc004elz.1	+	6	1495	c.739G>A	c.(739-741)GAG>AAG	p.E247K		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	247	Ig-like C2-type 3.|Extracellular (Potential).				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						GTTCCCCATGGAGAATCAGCC	0.408													29	21					0	0	0.004289	0	0		A	104728346	A	A	104728346	3	1	54	1	0	0	0	0	1	0	0	0	7678	1175	41	4	757	4	IL1RAPL2	23	104728346	Missense_Mutation	SNP	G	TCGA-BR-7723-01A-11D-2053-08	78570746	104728346	50542214	186	39031											
ODZ1	10178	broad.mit.edu	37	chrX	124028194	124028194	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacaacaaacaggagagaaTttgaaacctgtaacagtaaa	20	7	7	7	0	1	2	1	1	0	1	1	4	1	3	1	1	4	2	1	1	7	3			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chrX:124028194T>C	uc004euj.2	-	3	550	c.486A>G	c.(484-486)AAA>AAG	p.K162K	ODZ1_uc011muj.1_Silent_p.K162K|ODZ1_uc010nqy.2_Silent_p.K162K	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	162	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CAGGAGAGAATTTGAAACCTG	0.393													23	22					0	0	0.008361	0	0		C	124028194	C	C	124028194	2	2	54	1	0	0	0	0	0	0	0	1	10853	1490	52	3		3	ODZ1	23	124028194	Silent	SNP	T	TCGA-BR-7723-01A-11D-2053-08	19299848	124028194	31242366	187	39032											
ACTRT1	139741	broad.mit.edu	37	chrX	127185978	127185978	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgctcaatggggtagtgcaAatgtagggcctcatacttgt	10	11	12	8	1	2	0	2	0	0	0	2	0	2	0	1	3	2	4	1	3	5	4			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chrX:127185978A>C	uc004eum.2	-	1	405	c.208T>G	c.(208-210)TTG>GTG	p.L70V		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	70						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						GGGTAGTGCAAATGTAGGGCC	0.478													27	55					0	0	0.00632	0	0		C	127185978	C	C	127185978	3	2	54	1	0	0	0	0	1	0	0	0	218	11	1	5	926	5	ACTRT1	23	127185978	Missense_Mutation	SNP	A	TCGA-BR-7723-01A-11D-2053-08	3157784	127185978	28084582	188	39033											
FLNA	2316	broad.mit.edu	37	chrX	153587984	153587984	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggctgctgggcacgggactgCcgtcataggtcacgtccacg	6	7	15	13	4	2	0	2	0	0	0	3	1	3	1	2	4	2	3	2	4	1	1			TCGA-BR-7723-01A-11D-2053-08	TCGA-BR-7723-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	d5946cac-08ce-4512-823d-6c2fa6e73150	daa716c5-0804-49e0-88e8-811cf079546d	g.chrX:153587984C>A	uc004fkk.2	-	24	4259	c.4010G>T	c.(4009-4011)GGC>GTC	p.G1337V	FLNA_uc011mzn.1_5'Flank|FLNA_uc010nuu.1_Missense_Mutation_p.G1337V	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1337	Filamin 11.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CACGGGACTGCCGTCATAGGT	0.706													12	4					7.03913e-09	7.60093e-09	0.013537	1	0		A	153587984	A	A	153587984	3	1	54	1	0	0	0	0	1	0	0	0	5947	739	26	5	4033	5	FLNA	23	153587984	Missense_Mutation	SNP	C	TCGA-BR-7723-01A-11D-2053-08	26402006	153587984	1682576	189	39034											
B3GALT6	126792	broad.mit.edu	37	chr1	1168142	1168142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacgacgactccttcgcgCggctggacgcgctgctggcc	4	6	15	16	8	0	0	0	0	0	0	2	4	1	2	2	4	1	3	2	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:1168142C>T	uc001adk.2	+	1	514	c.484C>T	c.(484-486)CGG>TGG	p.R162W	SDF4_uc001adh.3_5'Flank|SDF4_uc001adi.3_5'Flank|SDF4_uc009vjv.2_5'Flank|SDF4_uc009vjw.2_5'Flank	NM_080605	NP_542172	Q96L58	B3GT6_HUMAN	beta-1,3-galactosyltransferase 6	162	Lumenal (Potential).				glycosaminoglycan biosynthetic process|protein glycosylation	Golgi cisterna membrane|Golgi medial cisterna|integral to membrane	galactosylxylosylprotein 3-beta-galactosyltransferase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;2.22e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CTCCTTCGCGCGGCTGGACGC	0.572													10	27					0	0	1	0	0		T	1168142	T	T	1168142	3	4	55	1	0	0	0	0	1	0	0	0	1252	759	27	1	486	1	B3GALT6	1	1168142	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08		1168142	248082479	1	39035											
NADK	65220	broad.mit.edu	37	chr1	1686048	1686048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcctgcgagccgttctcacCcagcccattgtgcacggccg	6	7	11	17	4	1	0	1	0	1	0	2	1	1	0	5	1	5	2	5	1	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:1686048C>T	uc009vkw.2	-	8	899	c.778G>A	c.(778-780)GGT>AGT	p.G260S	NADK_uc001aic.2_Missense_Mutation_p.G260S|NADK_uc001aid.3_Missense_Mutation_p.G260S|NADK_uc001aie.2_Missense_Mutation_p.G405S|NADK_uc010nyv.1_Missense_Mutation_p.G228S|NADK_uc009vkx.1_Missense_Mutation_p.G138S	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	260					ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)		CCGTTCTCACCCAGCCCATTG	0.657													13	51					0	0	1	0	0		T	1686048	T	T	1686048	3	4	55	1	0	0	0	0	1	0	0	0	10155	623	22	4	582	4	NADK	1	1686048	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	517906	1686048	247564573	2	39036											
PLCH2	9651	broad.mit.edu	37	chr1	2430252	2430252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagggagcagacccgcGtggtggacgacaacggtgag	10	3	18	10	4	0	2	0	1	0	1	0	5	0	4	1	4	3	3	1	4	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:2430252G>A	uc001aji.1	+	18	2693	c.2419G>A	c.(2419-2421)GTG>ATG	p.V807M	PLCH2_uc010nyz.1_Missense_Mutation_p.V595M|PLCH2_uc009vle.1_Missense_Mutation_p.V559M|PLCH2_uc001ajj.1_Missense_Mutation_p.V595M|PLCH2_uc001ajk.1_Missense_Mutation_p.V595M|PLCH2_uc001ajl.1_Translation_Start_Site	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	807	C2.				intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		GCAGACCCGCGTGGTGGACGA	0.652													9	12					0	0	1	0	0		A	2430252	A	A	2430252	3	1	55	1	0	0	0	0	1	0	0	0	12057	1145	40	1	2489	1	PLCH2	1	2430252	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	744204	2430252	246820369	3	39037											
TNFRSF14	8764	broad.mit.edu	37	chr1	2493160	2493160	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggaccagcagctcccaCtgggtatggtggtttctctc	5	11	13	12	0	1	0	0	0	1	0	4	1	2	1	2	4	2	5	2	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:2493160C>T	uc001ajr.2	+	6	899	c.600C>T	c.(598-600)CAC>CAT	p.H200H	TNFRSF14_uc001ajt.1_3'UTR|TNFRSF14_uc001ajs.2_Intron	NM_003820	NP_003811	Q92956	TNR14_HUMAN	tumor necrosis factor receptor superfamily,	200	Extracellular (Potential).				immune response|interspecies interaction between organisms|T cell costimulation		tumor necrosis factor receptor activity			kidney(1)	1	all_cancers(77;0.000158)|all_epithelial(69;8.01e-05)|all_lung(157;0.0212)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;3.18e-20)|all_lung(118;1.67e-08)|Lung NSC(185;2.69e-06)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;1.1e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.02e-23)|GBM - Glioblastoma multiforme(42;1.11e-08)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000326)|BRCA - Breast invasive adenocarcinoma(365;0.00435)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.199)		GCAGCTCCCACTGGGTATGGT	0.597			Mis|N|F		follicular lymphoma								13	53					0	0	1	0	0		T	2493160	T	T	2493160	2	4	55	1	0	0	0	0	0	0	0	1	16314	564	20	4		4	TNFRSF14	1	2493160	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	62908	2493160	246757461	4	39038											
ACTRT2	140625	broad.mit.edu	37	chr1	2939331	2939331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagcagatgtgggtcaccGccgcagacttcaaggagttt	10	9	12	10	2	3	2	3	0	0	2	3	3	3	3	2	2	1	3	2	2	2	2	rs149188311		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:2939331G>A	uc001ajz.2	+	1	1286	c.1081G>A	c.(1081-1083)GCC>ACC	p.A361T		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	361						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		GTGGGTCACCGCCGCAGACTT	0.607													42	128					0	0	1	0	0		A	2939331	A	A	2939331	3	1	55	1	0	0	0	0	1	0	0	0	219	1087	38	1	1083	1	ACTRT2	1	2939331	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	446171	2939331	246311290	5	39039											
PRDM16	63976	broad.mit.edu	37	chr1	3319366	3319366	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttgcagaggagcccacgTtccgctgtgacgagtgtgac	7	9	13	12	3	1	3	0	2	1	1	2	5	2	4	2	1	2	3	2	1	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:3319366T>C	uc001akf.2	+	6	768	c.688T>C	c.(688-690)TTC>CTC	p.F230L	PRDM16_uc001akc.2_Missense_Mutation_p.F230L|PRDM16_uc001akd.2_Missense_Mutation_p.F230L|PRDM16_uc001ake.2_Missense_Mutation_p.F230L|PRDM16_uc009vlh.2_5'UTR	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	230	C2H2-type 1; atypical.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		GGAGCCCACGTTCCGCTGTGA	0.622			T	EVI1	MDS|AML								3	44					0	0	1	0	0		C	3319366	C	C	3319366	3	2	55	1	0	0	0	0	1	0	0	0	12479	1725	60	3	710	3	PRDM16	1	3319366	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	380035	3319366	245931255	6	39040											
MEGF6	1953	broad.mit.edu	37	chr1	3425195	3425195	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaggaggcaggtccctccGttcctgcagtcatcacaggt	7	8	11	15	1	2	0	2	0	0	0	5	1	5	1	4	4	1	3	4	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:3425195G>A	uc001akl.2	-	13	1814	c.1587C>T	c.(1585-1587)AAC>AAT	p.N529N	MEGF6_uc001akk.2_Silent_p.N424N	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	529	EGF-like 9.					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		AGGTCCCTCCGTTCCTGCAGT	0.637													13	34					0	0	1	0	0		A	3425195	A	A	3425195	2	1	55	1	0	0	0	0	0	0	0	1	9480	1136	40	1		1	MEGF6	1	3425195	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	105829	3425195	245825426	7	39041											
MEGF6	1953	broad.mit.edu	37	chr1	3425664	3425664	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctgtgagcgtgtgttcGccccgcaactctgcctcttc	3	14	9	15	3	3	1	0	1	3	0	6	1	3	1	3	0	3	2	3	0	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:3425664G>A	uc001akl.2	-	12	1730	c.1503C>T	c.(1501-1503)GGC>GGT	p.G501G	MEGF6_uc001akk.2_Silent_p.G396G	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	501						extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		GCGTGTGTTCGCCCCGCAACT	0.692													3	2					0	0	1	0	0		A	3425664	A	A	3425664	2	1	55	1	0	0	0	0	0	0	0	1	9480	1074	38	1		1	MEGF6	1	3425664	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	469	3425664	245824957	8	39042											
CHD5	26038	broad.mit.edu	37	chr1	6184642	6184642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctggagaggccctcccGgggcacgccgtctgcgaagg	5	5	16	15	4	1	1	0	0	1	1	2	3	2	1	4	5	2	1	4	5	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:6184642G>A	uc001amb.1	-	30	4574	c.4474C>T	c.(4474-4476)CGG>TGG	p.R1492W	CHD5_uc001alz.1_Missense_Mutation_p.R349W|CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA|CHD5_uc009vlx.1_Intron	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1492					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		AGGCCCTCCCGGGGCACGCCG	0.647													4	22					0	0	1	0	0		A	6184642	A	A	6184642	3	1	55	1	0	0	0	0	1	0	0	0	3331	1115	39	1	1438	1	CHD5	1	6184642	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2758978	6184642	243065979	9	39043											
CASZ1	54897	broad.mit.edu	37	chr1	10713893	10713893	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgctggctggtaggggAggcgctcaggctggagttct	5	9	19	8	1	2	0	1	0	1	0	2	3	2	3	0	8	1	6	0	8	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:10713893A>G	uc001aro.2	-	11	2541	c.2221T>C	c.(2221-2223)TCC>CCC	p.S741P	CASZ1_uc001arp.1_Missense_Mutation_p.S741P|CASZ1_uc009vmx.2_Missense_Mutation_p.S765P	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	741					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		CTGGTAGGGGAGGCGCTCAGG	0.662													3	47					0	0	1	0	0		G	10713893	G	G	10713893	3	3	55	1	0	0	0	0	1	0	0	0	2688	304	11	3	3106	3	CASZ1	1	10713893	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	4529251	10713893	238536728	10	39044											
VPS13D	55187	broad.mit.edu	37	chr1	12409351	12409351	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctcccattcattggacCaatgtagtgaagactgcaga	13	9	10	9	0	1	3	1	1	0	2	2	4	2	4	2	2	1	3	2	2	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:12409351C>A	uc001atv.2	+	46	9492	c.9351C>A	c.(9349-9351)ACC>ACA	p.T3117T	VPS13D_uc001atw.2_Silent_p.T3092T|VPS13D_uc001atx.2_Silent_p.T2304T	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3116					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TTCATTGGACCAATGTAGTGA	0.473													33	62					1.06647e-15	1.17366e-15	1	1	0		A	12409351	A	A	12409351	2	1	55	1	0	0	0	0	0	0	0	1	17218	581	21	5		5	VPS13D	1	12409351	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1695458	12409351	236841270	11	39045											
AADACL3	126767	broad.mit.edu	37	chr1	12776289	12776289	+	Translation_Start_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgcacatccctgcagcggTtggccaccctgtgaaactga	8	9	11	13	1	0	2	0	2	0	0	1	2	1	2	3	2	4	3	3	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:12776289T>A	uc009vnn.1	+	1	172	c.-61T>A	c.(-63--59)GGTTG>GGATG		AADACL3_uc001aug.1_Translation_Start_Site	NM_001103170	NP_001096640	Q5VUY0	ADCL3_HUMAN	arylacetamide deacetylase-like 3 isoform 1								hydrolase activity				0	Ovarian(185;0.249)	Lung NSC(185;8.27e-05)|all_lung(284;9.47e-05)|Renal(390;0.000147)|Colorectal(325;0.000583)|Breast(348;0.000596)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		CCTGCAGCGGTTGGCCACCCT	0.527													18	44					0	0	1	0	0		A	12776289	A	A	12776289	1	1	55	1	0	0	0	0	0	0	0	0	12	1740	60	5		5	AADACL3	1	12776289	Translation_Start_Site	SNP	T	TCGA-BR-7851-01A-11D-2201-08	366938	12776289	236474332	12	39046											
PRAMEF4	400735	broad.mit.edu	37	chr1	12943196	12943196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaggagtctgggtggaGtccagatgctcatcttcatg	7	11	13	10	0	4	1	2	0	2	1	6	3	6	3	2	3	1	2	2	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:12943196G>A	uc001aun.2	-	2	91	c.20C>T	c.(19-21)ACT>ATT	p.T7I		NM_001009611	NP_001009611	O60810	PRAM4_HUMAN	PRAME family member 4	7										ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TCTGGGTGGAGTCCAGATGCT	0.562													6	85					0	0	1	0	0		A	12943196	A	A	12943196	3	1	55	1	0	0	0	0	1	0	0	0	12459	1029	36	4	1428	4	PRAMEF4	1	12943196	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	166907	12943196	236307425	13	39047											
FBLIM1	54751	broad.mit.edu	37	chr1	16101262	16101262	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgccctgggcagccagaaCgaggtgtactgcctggacga	8	8	14	11	2	0	1	0	0	0	1	0	4	0	2	3	3	5	2	3	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:16101262C>T	uc001axd.1	+	8	1304	c.861C>T	c.(859-861)AAC>AAT	p.N287N	FBLIM1_uc001axe.1_Silent_p.N287N|FBLIM1_uc001axf.2_RNA|FBLIM1_uc001axg.1_Silent_p.N287N|FBLIM1_uc001axh.1_Silent_p.N190N|FBLIM1_uc001axi.1_Silent_p.N190N	NM_017556	NP_060026	Q8WUP2	FBLI1_HUMAN	filamin-binding LIM protein-1 isoform a	287	PLEKHC1-binding.|LIM zinc-binding 2.				cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytoskeleton|cytosol|focal adhesion|intracellular membrane-bounded organelle	zinc ion binding			skin(1)	1		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.56e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|READ - Rectum adenocarcinoma(331;0.0649)|STAD - Stomach adenocarcinoma(313;0.138)		GCAGCCAGAACGAGGTGTACT	0.627													4	136					0	0	1	0	0		T	16101262	T	T	16101262	2	4	55	1	0	0	0	0	0	0	0	1	5711	535	19	1		1	FBLIM1	1	16101262	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3158066	16101262	233149359	14	39048											
SPEN	23013	broad.mit.edu	37	chr1	16235876	16235876	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatcagttcagtctgcagcAgtccctgcacccacttccca	8	9	7	17	1	3	0	2	0	1	0	5	1	5	0	3	0	3	4	3	0	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:16235876A>C	uc001axk.1	+	4	1146	c.942A>C	c.(940-942)GCA>GCC	p.A314A	SPEN_uc010obp.1_Silent_p.A273A	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	314	Ser-rich.|By similarity.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AGTCTGCAGCAGTCCCTGCAC	0.458													48	88					0	0	1	0	0		C	16235876	C	C	16235876	2	2	55	1	0	0	0	0	0	0	0	1	15063	175	7	5		5	SPEN	1	16235876	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	134614	16235876	233014745	15	39049											
CLCNKB	1188	broad.mit.edu	37	chr1	16375037	16375037	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaatgctggtggcagcggcGgcagtgggcgtggccacagt	7	6	19	9	3	0	0	0	0	0	0	0	1	0	0	1	6	2	3	1	6	1	0	rs142452354	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:16375037G>A	uc001axw.3	+	7	695	c.615G>A	c.(613-615)GCG>GCA	p.A205A	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Silent_p.A205A|CLCNKB_uc001axy.3_5'Flank	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1	205	Helical; (Potential).				excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		TGGCAGCGGCGGCAGTGGGCG	0.642													4	20					0	0	1	0	0		A	16375037	A	A	16375037	2	1	55	1	0	0	0	0	0	0	0	1	3473	1103	39	1		1	CLCNKB	1	16375037	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	139161	16375037	232875584	16	39050											
NBPF1	55672	broad.mit.edu	37	chr1	16893738	16893738	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaaggcacttctgtagggCtggcatgagtcagtcagttc	10	11	12	8	0	3	1	2	1	1	0	4	1	3	1	0	3	0	5	0	3	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:16893738C>T	uc009vos.1	-	26	3888	c.3000G>A	c.(2998-3000)CAG>CAA	p.Q1000Q	NBPF1_uc009vot.1_Silent_p.Q383Q|NBPF1_uc001ayz.1_Silent_p.Q383Q|NBPF1_uc010oce.1_Silent_p.Q654Q	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	1000	NBPF 6.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TTCTGTAGGGCTGGCATGAGT	0.478													33	814					0	0	1	0	0		T	16893738	T	T	16893738	2	4	55	1	0	0	0	0	0	0	0	1	10210	796	28	2		2	NBPF1	1	16893738	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	518701	16893738	232356883	17	39051											
CROCC	9696	broad.mit.edu	37	chr1	17297237	17297237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctggagctggcagaggCgcagaggcagatccagcagc	10	4	17	10	1	0	4	0	1	0	3	1	5	1	5	1	4	4	6	1	4	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:17297237C>T	uc001azt.2	+	35	5828	c.5759C>T	c.(5758-5760)GCG>GTG	p.A1920V	CROCC_uc001azu.2_Missense_Mutation_p.A1223V|CROCC_uc001azv.2_Missense_Mutation_p.A256V	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	1920					cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		CTGGCAGAGGCGCAGAGGCAG	0.637													7	15					0	0	1	0	0		T	17297237	T	T	17297237	3	4	55	1	0	0	0	0	1	0	0	0	3896	768	27	1	5897	1	CROCC	1	17297237	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	403499	17297237	231953384	18	39052											
PADI4	23569	broad.mit.edu	37	chr1	17634769	17634769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagcagcccacccatgccGtgtgtgtgctgggcaccttg	6	8	13	14	1	0	1	0	0	0	1	0	1	0	1	4	1	4	3	4	1	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:17634769G>A	uc001baj.2	+	1	80	c.52G>A	c.(52-54)GTG>ATG	p.V18M	PADI4_uc009vpc.2_Missense_Mutation_p.V18M	NM_012387	NP_036519	Q9UM07	PADI4_HUMAN	peptidyl arginine deiminase, type IV	18					chromatin modification|peptidyl-citrulline biosynthetic process from peptidyl-arginine|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000338)|Lung NSC(340;0.00042)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00537)|BRCA - Breast invasive adenocarcinoma(304;8.54e-06)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(64;0.000223)|KIRC - Kidney renal clear cell carcinoma(64;0.00313)|STAD - Stomach adenocarcinoma(196;0.00707)|READ - Rectum adenocarcinoma(331;0.0689)|Lung(427;0.199)	L-Citrulline(DB00155)	CACCCATGCCGTGTGTGTGCT	0.617													21	40					0	0	1	0	0		A	17634769	A	A	17634769	3	1	55	1	0	0	0	0	1	0	0	0	11399	1145	40	1	54	1	PADI4	1	17634769	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	337532	17634769	231615852	19	39053											
PLA2G2E	30814	broad.mit.edu	37	chr1	20246820	20246820	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagggcggggtgggccCggtgcacagcttgttgggat	5	8	19	9	2	1	0	1	0	0	0	1	1	1	1	1	6	3	4	1	6	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:20246820C>A	uc001bct.1	-	4	467	c.409G>T	c.(409-411)GGG>TGG	p.G137W		NM_014589	NP_055404	Q9NZK7	PA2GE_HUMAN	phospholipase A2, group IIE precursor	137					inflammatory response|lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|phospholipase A2 activity				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|GBM - Glioblastoma multiforme(114;0.000146)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GGGGTGGGCCCGGTGCACAGC	0.657													11	31					6.40141e-05	6.64806e-05	1	1	0		A	20246820	A	A	20246820	3	1	55	1	0	0	0	0	1	0	0	0	12017	652	23	5	23	5	PLA2G2E	1	20246820	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2612051	20246820	229003801	20	39054											
MUL1	79594	broad.mit.edu	37	chr1	20827268	20827268	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcaaggcgcggtagcacTcggtgcaggaacaaacgtgc	10	5	15	11	4	0	0	0	0	0	0	1	1	0	1	0	5	5	4	0	5	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:20827268T>C	uc001bdi.3	-	4	1131	c.974A>G	c.(973-975)GAG>GGG	p.E325G		NM_024544	NP_078820	Q969V5	MUL1_HUMAN	mitochondrial ubiquitin ligase activator of NFKB	325	Cytoplasmic (Potential).|RING-type.				activation of caspase activity|activation of JUN kinase activity|induction of apoptosis|mitochondrial fission|mitochondrion localization|negative regulation of cell growth|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to mitochondrial outer membrane|nucleus|peroxisome	identical protein binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00748)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000137)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)		GCGGTAGCACTCGGTGCAGGA	0.572													16	42					0	0	1	0	0		C	20827268	C	C	20827268	3	2	55	1	0	0	0	0	1	0	0	0	10002	1551	54	3	88	3	MUL1	1	20827268	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	580448	20827268	228423353	21	39055											
ECE1	1889	broad.mit.edu	37	chr1	21605716	21605716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgcccagtgctgccaagCaggccaccagtcctgccgcc	7	5	12	17	1	0	0	0	0	0	0	1	1	1	1	7	2	5	2	7	2	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:21605716C>T	uc001bek.2	-	3	323	c.248G>A	c.(247-249)TGC>TAC	p.C83Y	ECE1_uc001bem.2_Missense_Mutation_p.C67Y|ECE1_uc001bej.2_Missense_Mutation_p.C71Y|ECE1_uc001bei.2_Missense_Mutation_p.C80Y|ECE1_uc010odl.1_Missense_Mutation_p.C83Y|ECE1_uc009vqa.1_Missense_Mutation_p.C83Y|uc001ben.1_5'Flank	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	83	Helical; Signal-anchor for type II membrane protein; (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		Lung NSC(340;1.14e-05)|all_lung(284;1.23e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00147)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0183)|OV - Ovarian serous cystadenocarcinoma(117;4.83e-27)|COAD - Colon adenocarcinoma(152;1.36e-06)|GBM - Glioblastoma multiforme(114;1.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000162)|STAD - Stomach adenocarcinoma(196;0.00326)|KIRC - Kidney renal clear cell carcinoma(1967;0.00755)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.206)		TGCTGCCAAGCAGGCCACCAG	0.652													5	79					0	0	1	0	0		T	21605716	T	T	21605716	3	4	55	1	0	0	0	0	1	0	0	0	4895	710	25	2	2132	2	ECE1	1	21605716	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	778448	21605716	227644905	22	39056											
USP48	84196	broad.mit.edu	37	chr1	22048163	22048163	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctttactgctgctttcagCagattattaacagttttata	10	17	5	9	0	1	1	1	0	0	1	1	1	1	1	1	0	5	4	1	0	5	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:22048163C>T	uc001bfb.2	-	13	1981	c.1743G>A	c.(1741-1743)CTG>CTA	p.L581L	USP48_uc001bfa.2_Silent_p.L120L|USP48_uc010odq.1_Silent_p.L580L|USP48_uc009vqc.2_Silent_p.L515L|USP48_uc001bfc.2_Silent_p.L581L|USP48_uc001bfe.1_Silent_p.L580L	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	581	DUSP 2.				ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		CTGCTTTCAGCAGATTATTAA	0.358													5	11					0	0	1	0	0		T	22048163	T	T	22048163	2	4	55	1	0	0	0	0	0	0	0	1	17105	697	25	2		2	USP48	1	22048163	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	442447	22048163	227202458	23	39057											
HSPG2	3339	broad.mit.edu	37	chr1	22157779	22157779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggttgaggtcatggaagaCgatctcctcgccctggatgc	8	9	14	10	2	2	2	1	1	1	1	4	6	2	4	2	4	1	1	2	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:22157779C>T	uc001bfj.2	-	84	11531	c.11491G>A	c.(11491-11493)GTC>ATC	p.V3831I	HSPG2_uc001bfi.2_5'Flank|HSPG2_uc009vqd.2_Missense_Mutation_p.V3832I	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3831	Laminin G-like 1.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TCATGGAAGACGATCTCCTCG	0.677													37	83					0	0	1	0	0		T	22157779	T	T	22157779	3	4	55	1	0	0	0	0	1	0	0	0	7446	536	19	1	1740	1	HSPG2	1	22157779	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	109616	22157779	227092842	24	39058											
MYOM3	127294	broad.mit.edu	37	chr1	24383880	24383880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcttcagctccttgggctCgtccccgtgcttgaacacac	5	11	9	16	2	2	1	1	1	1	0	5	1	4	1	3	1	3	4	3	1	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:24383880C>T	uc001bin.3	-	37	4451	c.4288G>A	c.(4288-4290)GAG>AAG	p.E1430K	MYOM3_uc001bil.3_Missense_Mutation_p.E323K|MYOM3_uc001bim.3_Missense_Mutation_p.E1087K	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	1430										skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		TCCTTGGGCTCGTCCCCGTGC	0.577													15	30					0	0	1	0	0		T	24383880	T	T	24383880	3	4	55	1	0	0	0	0	1	0	0	0	10111	893	31	1	29	1	MYOM3	1	24383880	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2226101	24383880	224866741	25	39059											
SEPN1	57190	broad.mit.edu	37	chr1	26131655	26131655	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaactcccgcggccagctgCgaggaggaggagttgccccc	7	5	14	15	3	1	0	1	0	0	0	2	4	2	3	4	4	4	2	4	4	1	1	rs141295085	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:26131655C>T	uc010oer.1	+	6	481	c.426C>T	c.(424-426)TGC>TGT	p.C142C	SEPN1_uc010oes.1_Silent_p.C108C	NM_020451	NP_065184	Q9NZV5	SELN_HUMAN	selenoprotein N, 1 isoform 1 precursor	142						endoplasmic reticulum membrane|extracellular region	protein binding			ovary(2)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0421)|OV - Ovarian serous cystadenocarcinoma(117;1.26e-25)|Colorectal(126;3.01e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0143)|READ - Rectum adenocarcinoma(331;0.0649)		CGGCCAGCTGCGAGGAGGAGG	0.597													24	58					0	0	1	0	0		T	26131655	T	T	26131655	2	4	55	1	0	0	0	0	0	0	0	1	14081	776	27	1		1	SEPN1	1	26131655	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1747775	26131655	223118966	26	39060											
UBXN11	91544	broad.mit.edu	37	chr1	26609150	26609150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacccacctggcctgcgCtagcagagctcgcacgtccc	6	6	10	19	3	0	1	0	0	0	1	2	1	1	1	4	1	4	5	4	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:26609150C>T	uc001blw.2	-	15	1555	c.1282G>A	c.(1282-1284)GCG>ACG	p.A428T	UBXN11_uc001blz.1_Missense_Mutation_p.A395T|UBXN11_uc001blv.2_Missense_Mutation_p.A390T|UBXN11_uc001bly.2_Missense_Mutation_p.A308T|UBXN11_uc001blx.2_Missense_Mutation_p.A186T|UBXN11_uc001bma.2_Missense_Mutation_p.A395T|UBXN11_uc001bmb.1_Missense_Mutation_p.A428T	NM_183008	NP_892120	Q5T124	UBX11_HUMAN	socius isoform 2	428	UBX.					cytoplasm|cytoskeleton				ovary(1)	1						CTGGCCTGCGCTAGCAGAGCT	0.637													15	25					0	0	1	0	0		T	26609150	T	T	26609150	3	4	55	1	0	0	0	0	1	0	0	0	16939	797	28	2	288	2	UBXN11	1	26609150	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	477495	26609150	222641471	27	39061											
ARID1A	8289	broad.mit.edu	37	chr1	27101099	27101099	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttccattccagtttggcCgagaccgtgtctctgcaccc	7	12	8	14	2	1	1	0	0	1	1	4	2	3	1	5	1	1	2	5	1	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:27101099C>T	uc001bmv.1	+	18	4754	c.4381C>T	c.(4381-4383)CGA>TGA	p.R1461*	ARID1A_uc001bmt.1_Nonsense_Mutation_p.R1460*|ARID1A_uc001bmu.1_Intron|ARID1A_uc001bmw.1_Nonsense_Mutation_p.R1078*|ARID1A_uc001bmx.1_Nonsense_Mutation_p.R307*|ARID1A_uc009vsm.1_Intron|ARID1A_uc009vsn.1_5'UTR	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1461					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CCAGTTTGGCCGAGACCGTGT	0.582			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								29	53					0	0	1	0	0		T	27101099	T	T	27101099	4	4	55	1	0	0	0	0	0	1	0	0	913	644	23	1	4451	1	ARID1A	1	27101099	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	491949	27101099	222149522	28	39062											
ARID1A	8289	broad.mit.edu	37	chr1	27107205	27107205	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgaactcattggtttcAcaagtcatttgtgatgtact	10	17	8	6	0	3	3	3	3	0	0	3	3	3	3	0	1	2	2	0	1	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:27107205A>G	uc001bmv.1	+	20	7189	c.6816A>G	c.(6814-6816)TCA>TCG	p.S2272S	ARID1A_uc001bmu.1_Silent_p.S2055S|ARID1A_uc001bmx.1_Silent_p.S1118S|ARID1A_uc009vsm.1_Silent_p.S600S|ARID1A_uc009vsn.1_Silent_p.S514S	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2272					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CATTGGTTTCACAAGTCATTT	0.502			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								51	101					0	0	1	0	0		G	27107205	G	G	27107205	2	3	55	1	0	0	0	0	0	0	0	1	913	146	6	3		3	ARID1A	1	27107205	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	6106	27107205	222143416	29	39063											
NR0B2	8431	broad.mit.edu	37	chr1	27238427	27238427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtccccaagcaggctggtcGgaatggacttgagggtggag	8	7	18	8	1	0	1	0	1	0	0	2	4	1	4	2	7	1	2	2	7	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:27238427G>A	uc001bnf.2	-	2	819	c.683C>T	c.(682-684)CCG>CTG	p.P228L		NM_021969	NP_068804	Q15466	NR0B2_HUMAN	short heterodimer partner	228	Ligand-binding (By similarity).				cholesterol metabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	DNA binding|protein domain specific binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription corepressor activity				0		all_cancers(24;1.23e-26)|all_epithelial(13;1.19e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;0.00017)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.01e-51)|OV - Ovarian serous cystadenocarcinoma(117;8.22e-30)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000272)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)		CAGGCTGGTCGGAATGGACTT	0.597													40	92					0	0	1	0	0		A	27238427	A	A	27238427	3	1	55	1	0	0	0	0	1	0	0	0	10633	1116	39	1	94	1	NR0B2	1	27238427	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	131222	27238427	222012194	30	39064											
STX12	23673	broad.mit.edu	37	chr1	28099854	28099854	+	Frame_Shift_Del	DEL	G	-	-																															ttagacatgtaccggaacccGgggccctcggggccccagct																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:28099854delG	uc001bou.3	+	1	161	c.36delG	c.(34-36)CCGfs	p.P12fs		NM_177424	NP_803173	Q86Y82	STX12_HUMAN	syntaxin 12	12	Cytoplasmic (Potential).				cholesterol efflux|intracellular protein transport|protein stabilization|vesicle-mediated transport	Golgi apparatus|integral to membrane|membrane raft|phagocytic vesicle	SNAP receptor activity			breast(1)|central_nervous_system(1)	2		Colorectal(325;3.46e-05)|all_lung(284;9.43e-05)|Lung NSC(340;0.000185)|Renal(390;0.00121)|Breast(348;0.0021)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;3.96e-24)|Colorectal(126;3.46e-08)|COAD - Colon adenocarcinoma(152;1.83e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00258)|KIRC - Kidney renal clear cell carcinoma(1967;0.00302)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0649)		ACCGGAACCCGGGGCCCTCGG	0.652													7	11	---	---	---	---						.	-	28099854	-	-	28099854	7	5	55	1	0	1	0	1	0	0	0	0	15363	1103	39	0	38	0	STX12	1	28099854	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	861427	28099854	221150767	31	39065											
PTPRU	10076	broad.mit.edu	37	chr1	29650164	29650164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcaggaggggcacctgctgGtgcggcacttccagttcctg	5	9	15	12	1	0	0	0	0	0	0	2	1	2	1	3	5	3	5	3	5	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:29650164G>A	uc001bru.2	+	29	4116	c.4006G>A	c.(4006-4008)GTG>ATG	p.V1336M	PTPRU_uc001brv.2_Missense_Mutation_p.V1332M|PTPRU_uc001brw.2_Missense_Mutation_p.V1326M|PTPRU_uc009vtq.2_Missense_Mutation_p.V1330M|PTPRU_uc009vtr.2_Missense_Mutation_p.V1323M|PTPRU_uc001brx.2_Missense_Mutation_p.V62M	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	1336	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GCACCTGCTGGTGCGGCACTT	0.632													3	35					0	0	1	0	0		A	29650164	A	A	29650164	3	1	55	1	0	0	0	0	1	0	0	0	12838	1261	44	4	4142	4	PTPRU	1	29650164	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1550310	29650164	219600457	32	39066											
PUM1	9698	broad.mit.edu	37	chr1	31479860	31479860	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatgttccccaggcactGtctcgccattgatcacccag	7	10	8	16	1	2	2	1	2	1	0	4	2	3	2	5	1	0	2	5	1	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:31479860G>A	uc001bsi.1	-	4	635	c.522C>T	c.(520-522)GAC>GAT	p.D174D	PUM1_uc001bsg.1_5'Flank|PUM1_uc001bsh.1_Silent_p.D174D|PUM1_uc001bsj.1_Silent_p.D174D|PUM1_uc010oga.1_Intron|PUM1_uc001bsk.1_Silent_p.D210D|PUM1_uc010ogb.1_Intron	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	174					cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		CCCAGGCACTGTCTCGCCATT	0.428													11	239					0	0	1	0	0		A	31479860	A	A	31479860	2	1	55	1	0	0	0	0	0	0	0	1	12850	1368	48	4		4	PUM1	1	31479860	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1829696	31479860	217770761	33	39067											
COL16A1	1307	broad.mit.edu	37	chr1	32163529	32163529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacaggcttgccctgctcaGcatccaagcctagaaataca	13	7	8	13	0	1	2	1	0	0	2	2	2	2	2	3	1	5	3	3	1	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:32163529G>A	uc001btk.1	-	6	1000	c.635C>T	c.(634-636)GCT>GTT	p.A212V	COL16A1_uc001btj.1_Missense_Mutation_p.A41V|COL16A1_uc001btl.3_Missense_Mutation_p.A212V	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	212	TSP N-terminal.				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		GCCCTGCTCAGCATCCAAGCC	0.527													19	51					0	0	1	0	0		A	32163529	A	A	32163529	3	1	55	1	0	0	0	0	1	0	0	0	3676	971	34	2	4443	2	COL16A1	1	32163529	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	683669	32163529	217087092	34	39068											
TMEM39B	55116	broad.mit.edu	37	chr1	32568108	32568108	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcattgtctatcagctgtActccctaatgtcctctgaaa	9	15	6	11	0	4	1	2	1	2	0	6	1	6	1	2	0	2	2	2	0	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:32568108A>G	uc010ogv.1	+	9	1459	c.1313A>G	c.(1312-1314)TAC>TGC	p.Y438C	TMEM39B_uc001bue.3_Missense_Mutation_p.Y439C|TMEM39B_uc001buf.3_Missense_Mutation_p.Y239C|TMEM39B_uc010ogw.1_Missense_Mutation_p.Y239C	NM_018056	NP_060526	Q9GZU3	TM39B_HUMAN	transmembrane protein 39B	438	Helical; (Potential).					integral to membrane					0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				TATCAGCTGTACTCCCTAATG	0.562													4	94					0	0	1	0	0		G	32568108	G	G	32568108	3	3	55	1	0	0	0	0	1	0	0	0	16187	391	14	3	1347	3	TMEM39B	1	32568108	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	404579	32568108	216682513	35	39069											
KIAA1522	57648	broad.mit.edu	37	chr1	33235543	33235543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtgcacgggatgccgtaCgcatccccacagtggacggc	7	6	14	14	4	0	0	0	0	0	0	1	2	1	2	3	4	3	3	3	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:33235543C>T	uc001bvv.2	+	6	722	c.586C>T	c.(586-588)CGC>TGC	p.R196C	KIAA1522_uc001bvu.1_Missense_Mutation_p.R255C|KIAA1522_uc010ohm.1_Missense_Mutation_p.R207C|KIAA1522_uc010ohn.1_Intron	NM_020888	NP_065939	Q9P206	K1522_HUMAN	hypothetical protein LOC57648	196											0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				GGATGCCGTACGCATCCCCAC	0.721													3	11					0	0	1	0	0		T	33235543	T	T	33235543	3	4	55	1	0	0	0	0	1	0	0	0	8254	536	19	1	785	1	KIAA1522	1	33235543	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	667435	33235543	216015078	36	39070											
S100PBP	64766	broad.mit.edu	37	chr1	33291708	33291708	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatttctccagaaatgatgtGctcacgggtgccctctgaac	9	12	9	11	1	3	3	1	2	2	1	4	3	3	3	2	1	3	1	2	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:33291708G>A	uc001bvz.2	+	3	285	c.8G>A	c.(7-9)TGC>TAC	p.C3Y	S100PBP_uc001bwa.1_Missense_Mutation_p.C3Y|S100PBP_uc001bwb.1_Missense_Mutation_p.C3Y|S100PBP_uc001bwc.2_Missense_Mutation_p.C3Y|S100PBP_uc001bwd.2_RNA	NM_022753	NP_073590	Q96BU1	S1PBP_HUMAN	S100P binding protein isoform a	3						nucleus	calcium-dependent protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				GAAATGATGTGCTCACGGGTG	0.438													22	53					0	0	1	0	0		A	33291708	A	A	33291708	3	1	55	1	0	0	0	0	1	0	0	0	13816	1319	46	2	10	2	S100PBP	1	33291708	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	56165	33291708	215958913	37	39071											
RNF19B	127544	broad.mit.edu	37	chr1	33402698	33402698	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacagctttggtgtctgcaGgggggatcctcttcactgcc	5	12	12	12	0	4	0	2	0	2	0	5	1	5	1	2	4	3	2	2	4	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:33402698G>T	uc010oho.1	-	9	1908	c.1908C>A	c.(1906-1908)CCC>CCA	p.P636P	RNF19B_uc001bwm.3_3'UTR|RNF19B_uc010ohp.1_Silent_p.P635P	NM_153341	NP_699172	Q6ZMZ0	RN19B_HUMAN	ring finger protein 19B isoform a	636						integral to membrane	ligase activity|protein binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				GGTGTCTGCAGGGGGGATCCT	0.557													45	105					2.64514e-33	2.95742e-33	1	1	0		T	33402698	T	T	33402698	2	4	55	1	0	0	0	0	0	0	0	1	13496	987	35	5		5	RNF19B	1	33402698	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	110990	33402698	215847923	38	39072											
RNF19B	127544	broad.mit.edu	37	chr1	33407887	33407887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgccactggagagaatgcCgccactcagcgtgccccctg	7	7	11	16	2	1	1	1	0	0	1	1	3	1	2	5	1	4	0	5	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:33407887C>T	uc010oho.1	-	7	1579	c.1579G>A	c.(1579-1581)GGC>AGC	p.G527S	RNF19B_uc001bwm.3_Missense_Mutation_p.G526S|RNF19B_uc010ohp.1_Missense_Mutation_p.G526S	NM_153341	NP_699172	Q6ZMZ0	RN19B_HUMAN	ring finger protein 19B isoform a	527						integral to membrane	ligase activity|protein binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				GAGAGAATGCCGCCACTCAGC	0.458													23	73					0	0	1	0	0		T	33407887	T	T	33407887	3	4	55	1	0	0	0	0	1	0	0	0	13496	652	23	1	657	1	RNF19B	1	33407887	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5189	33407887	215842734	39	39073											
GJB3	2707	broad.mit.edu	37	chr1	35250436	35250436	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgttcgggcgcatctggCtgtccgtggtgttcgtcttc	2	13	14	12	5	2	0	0	0	2	0	6	0	3	0	1	3	1	4	1	3	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:35250436C>T	uc001bxx.2	+	2	688	c.73C>T	c.(73-75)CTG>TTG	p.L25L	GJB3_uc001bxy.2_Silent_p.L25L|GJB3_uc001bxz.3_Silent_p.L25L|uc010ohs.1_RNA	NM_024009	NP_076872	O75712	CXB3_HUMAN	connexin 31	25	Helical; (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				GCGCATCTGGCTGTCCGTGGT	0.622													11	41					0	0	1	0	0		T	35250436	T	T	35250436	2	4	55	1	0	0	0	0	0	0	0	1	6424	796	28	2		2	GJB3	1	35250436	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1842549	35250436	214000185	40	39074											
SFPQ	6421	broad.mit.edu	37	chr1	35650166	35650166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtccacccacaggccccGcacctccctgcccaaagcgc	7	4	7	23	2	0	0	0	0	0	0	2	0	2	0	8	1	2	1	8	1	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:35650166G>A	uc001bys.2	-	10	2108	c.2015C>T	c.(2014-2016)GCG>GTG	p.A672V	SFPQ_uc001byr.2_Intron	NM_005066	NP_005057	P23246	SFPQ_HUMAN	splicing factor proline/glutamine rich	672					alternative nuclear mRNA splicing, via spliceosome|DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix|paraspeckles	DNA binding|nucleotide binding|protein binding|protein binding|RNA binding		SFPQ/TFE3(6)	kidney(4)|soft_tissue(2)|ovary(1)|skin(1)	8		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.196)				CACAGGCCCCGCACCTCCCTG	0.478			T	TFE3	papillary renal cell								23	54					0	0	1	0	0		A	35650166	A	A	35650166	3	1	55	1	0	0	0	0	1	0	0	0	14185	1087	38	1	112	1	SFPQ	1	35650166	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	399730	35650166	213600455	41	39075											
ZMYM4	9202	broad.mit.edu	37	chr1	35824656	35824656	+	Frame_Shift_Del	DEL	T	-	-																															ttgctggatgaagatgattaTtttttgaactctggggatct																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:35824656delT	uc001byt.2	+	3	296	c.216delT	c.(214-216)TATfs	p.Y72fs	ZMYM4_uc009vuu.2_Frame_Shift_Del_p.Y40fs|ZMYM4_uc001byu.2_Intron|ZMYM4_uc009vuv.2_5'UTR	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	72					multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				AAGATGATTATTTTTTGAACT	0.383													23	51	---	---	---	---						.	-	35824656	-	-	35824656	7	5	55	1	0	1	0	1	0	0	0	0	17727	1500	52	0	226	0	ZMYM4	1	35824656	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	174490	35824656	213425965	42	39076											
NCDN	23154	broad.mit.edu	37	chr1	36026428	36026428	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgtgttgcggggcctcAgtgaggatttccagaaagct	7	10	15	9	2	1	2	1	1	0	1	2	3	2	3	3	4	2	2	3	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:36026428A>G	uc001bza.2	+	4	803	c.676A>G	c.(676-678)AGT>GGT	p.S226G	KIAA0319L_uc010ohw.1_5'Flank|NCDN_uc001bzb.2_Missense_Mutation_p.S226G|NCDN_uc001bzc.2_Missense_Mutation_p.S209G	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	226					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GCGGGGCCTCAGTGAGGATTT	0.642													19	33					0	0	1	0	0		G	36026428	G	G	36026428	3	3	55	1	0	0	0	0	1	0	0	0	10233	188	7	3	686	3	NCDN	1	36026428	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	201772	36026428	213224193	43	39077											
ZC3H12A	80149	broad.mit.edu	37	chr1	37948942	37948942	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcgccccctgcctttccAcctcgagagtactggtctga	5	9	9	18	3	1	2	0	1	1	1	3	3	2	2	6	1	2	1	6	1	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:37948942A>G	uc001cbb.3	+	6	1680	c.1530A>G	c.(1528-1530)CCA>CCG	p.P510P	ZC3H12A_uc001cbc.1_Silent_p.P305P	NM_025079	NP_079355	Q5D1E8	ZC12A_HUMAN	zinc finger CCCH-type containing 12A	510	Pro-rich.				angiogenesis|apoptosis|cell differentiation	cytoplasm|nucleus|plasma membrane	endonuclease activity|metal ion binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CTGCCTTTCCACCTCGAGAGT	0.672													14	239					0	0	1	0	0		G	37948942	G	G	37948942	2	3	55	1	0	0	0	0	0	0	0	1	17586	146	6	3		3	ZC3H12A	1	37948942	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1922514	37948942	211301679	44	39078											
C1orf109	54955	broad.mit.edu	37	chr1	38155444	38155444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgagggaggacaggagggGctggcagtcccgcagggcac	8	3	20	10	1	0	1	0	1	0	0	1	4	1	4	1	7	0	5	1	7	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:38155444G>A	uc001cbp.2	-	2	299	c.109C>T	c.(109-111)CCC>TCC	p.P37S	C1orf109_uc010oig.1_Missense_Mutation_p.P100S|C1orf109_uc001cbo.2_Missense_Mutation_p.P99S|C1orf109_uc001cbq.1_Missense_Mutation_p.P37S|CDCA8_uc001cbr.2_5'Flank|CDCA8_uc001cbs.2_5'Flank	NM_017850	NP_060320	Q9NX04	CA109_HUMAN	hypothetical protein LOC54955	37											0		Myeloproliferative disorder(586;0.0393)				GACAGGAGGGGCTGGCAGTCC	0.652													13	27					0	0	1	0	0		A	38155444	A	A	38155444	3	1	55	1	0	0	0	0	1	0	0	0	1985	1203	42	2	518	2	C1orf109	1	38155444	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	206502	38155444	211095177	45	39079											
GJA9	81025	broad.mit.edu	37	chr1	39341336	39341336	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcctctgagtggagctttAtttagtttccttttctccag	5	19	8	9	0	2	1	0	1	2	0	5	2	4	2	3	1	1	3	3	1	2	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:39341336A>G	uc001cct.1	-	2	716	c.435T>C	c.(433-435)AAT>AAC	p.N145N	RRAGC_uc001ccr.2_5'Flank|MYCBP_uc001ccs.2_5'Flank	NM_030772	NP_110399	P57773	CXA9_HUMAN	gap junction protein, alpha 9, 59kDa	145	Cytoplasmic (Potential).				cell communication	connexon complex|integral to membrane					0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			GTGGAGCTTTATTTAGTTTCC	0.428													8	66					0	0	1	0	0		G	39341336	G	G	39341336	2	3	55	1	0	0	0	0	0	0	0	1	6421	446	16	3		3	GJA9	1	39341336	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1185892	39341336	209909285	46	39080											
MACF1	23499	broad.mit.edu	37	chr1	39888401	39888401	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctacatgttcatgatacaGgtcgcacaaagaattgcaca	15	9	7	10	1	1	2	1	1	0	1	2	2	1	2	1	1	3	3	1	1	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:39888401G>T	uc010oiu.1	+	24	11430	c.11299_splice	c.e24-1	p.V3767_splice	MACF1_uc010ois.1_Splice_Site_p.V3265_splice|MACF1_uc001cda.1_Splice_Site_p.V3152_splice|MACF1_uc001cdc.1_Splice_Site_p.V2331_splice	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker						cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TCATGATACAGGTCGCACAAA	0.403													5	84					2.0095e-06	2.11959e-06	1	1	0		T	39888401	T	T	39888401	5	4	55	1	0	0	0	0	0	0	1	0	9162	1014	35	5	16161	5	MACF1	1	39888401	Splice_Site	SNP	G	TCGA-BR-7851-01A-11D-2201-08	547065	39888401	209362220	47	39081											
HIVEP3	59269	broad.mit.edu	37	chr1	42048952	42048952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggatgacaggggctccCggtagaggctggattttggg	6	10	19	6	1	0	2	0	1	0	1	1	4	1	4	1	7	0	3	1	7	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:42048952C>T	uc001cgz.3	-	4	2730	c.1517G>A	c.(1516-1518)CGG>CAG	p.R506Q	HIVEP3_uc001cha.3_Missense_Mutation_p.R506Q|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	506	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CAGGGGCTCCCGGTAGAGGCT	0.627													22	67					0	0	1	0	0		T	42048952	T	T	42048952	3	4	55	1	0	0	0	0	1	0	0	0	7204	652	23	1	5727	1	HIVEP3	1	42048952	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2160551	42048952	207201669	48	39082											
HIVEP3	59269	broad.mit.edu	37	chr1	42049693	42049693	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatctccagcccatgtgggTacatctcgccacccatgcct	7	9	7	18	1	2	0	0	0	2	0	4	0	2	0	6	1	3	1	6	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:42049693T>C	uc001cgz.3	-	4	1989	c.776A>G	c.(775-777)TAC>TGC	p.Y259C	HIVEP3_uc001cha.3_Missense_Mutation_p.Y259C|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	259	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CCCATGTGGGTACATCTCGCC	0.562													12	43					0	0	1	0	0		C	42049693	C	C	42049693	3	2	55	1	0	0	0	0	1	0	0	0	7204	1638	57	3	6468	3	HIVEP3	1	42049693	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	741	42049693	207200928	49	39083											
SLC2A1	6513	broad.mit.edu	37	chr1	43394951	43394951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaggctgctgcacccccGccttctcgaagatgctcgtg	7	8	10	16	3	1	1	0	0	1	1	3	2	1	1	3	1	3	4	3	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:43394951G>A	uc001cik.2	-	7	1427	c.902C>T	c.(901-903)GCG>GTG	p.A301V		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	301	Extracellular (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	CTGCACCCCCGCCTTCTCGAA	0.582													3	10					0	0	1	0	0		A	43394951	A	A	43394951	3	1	55	1	0	0	0	0	1	0	0	0	14563	1087	38	1	592	1	SLC2A1	1	43394951	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1345258	43394951	205855670	50	39084											
SLC6A9	6536	broad.mit.edu	37	chr1	44466469	44466469	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgggagagacgaagcgccaGcagatctgaaagaagagggg	14	2	18	7	3	1	5	0	1	1	4	1	8	1	6	1	3	2	1	1	3	3	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:44466469G>A	uc001cll.2	-	12	1917	c.1725C>T	c.(1723-1725)TGC>TGT	p.C575C	SLC6A9_uc009vxe.2_Silent_p.C431C|SLC6A9_uc010okm.1_Silent_p.L532L|SLC6A9_uc001clm.2_Silent_p.C521C|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Silent_p.C506C|SLC6A9_uc001cln.2_Silent_p.C502C|SLC6A9_uc010oko.1_Silent_p.C391C|SLC6A9_uc010okp.1_RNA	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	575	Helical; Name=11; (Potential).					integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	CGAAGCGCCAGCAGATCTGAA	0.622													16	48					0	0	1	0	0		A	44466469	A	A	44466469	2	1	55	1	0	0	0	0	0	0	0	1	14716	963	34	2		2	SLC6A9	1	44466469	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1071518	44466469	204784152	51	39085											
KLF17	128209	broad.mit.edu	37	chr1	44595230	44595230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtatgccactgcctgagcGtggtatgagctactgccccc	7	9	11	14	1	0	2	0	2	0	0	0	2	0	2	4	1	6	3	4	1	3	3	rs147552179		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:44595230G>A	uc001clp.2	+	2	345	c.287G>A	c.(286-288)CGT>CAT	p.R96H	KLF17_uc009vxf.1_Missense_Mutation_p.R59H	NM_173484	NP_775755	Q5JT82	KLF17_HUMAN	zinc finger protein 393	96					regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					CTGCCTGAGCGTGGTATGAGC	0.567													37	98					0	0	1	0	0		A	44595230	A	A	44595230	3	1	55	1	0	0	0	0	1	0	0	0	8361	1145	40	1	293	1	KLF17	1	44595230	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	128761	44595230	204655391	52	39086											
STIL	6491	broad.mit.edu	37	chr1	47716920	47716920	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgcaaactttcaggaaaaAttgtaatgtccccttcattt	12	15	6	8	0	2	0	2	0	0	0	3	1	3	1	2	1	2	3	2	1	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:47716920A>G	uc001crc.1	-	17	3907	c.3752T>C	c.(3751-3753)ATT>ACT	p.I1251T	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Missense_Mutation_p.I1205T|STIL_uc010omo.1_Missense_Mutation_p.I1234T|STIL_uc001crd.1_Missense_Mutation_p.I1252T|STIL_uc001cre.1_Missense_Mutation_p.I1251T	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	1251					cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				TTCAGGAAAAATTGTAATGTC	0.403													31	44					0	0	1	0	0		G	47716920	G	G	47716920	3	3	55	1	0	0	0	0	1	0	0	0	15307	101	4	3	115	3	STIL	1	47716920	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	3121690	47716920	201533701	53	39087											
ZCCHC11	23318	broad.mit.edu	37	chr1	52961127	52961127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaattttatatctatattaAcatcactacttttcagagca	15	16	3	7	0	3	1	2	0	1	1	3	2	3	1	0	0	3	1	0	0	7	9			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:52961127A>G	uc001ctx.2	-	6	1472	c.1238T>C	c.(1237-1239)GTT>GCT	p.V413A	ZCCHC11_uc001cty.2_Missense_Mutation_p.V413A|ZCCHC11_uc001ctz.2_Missense_Mutation_p.V413A|ZCCHC11_uc009vze.1_Missense_Mutation_p.V413A|ZCCHC11_uc009vzf.1_Missense_Mutation_p.V172A|ZCCHC11_uc001cub.2_Missense_Mutation_p.V413A|ZCCHC11_uc001cuc.2_RNA	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	413					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						ATCTATATTAACATCACTACT	0.318													11	31					0	0	1	0	0		G	52961127	G	G	52961127	3	3	55	1	0	0	0	0	1	0	0	0	17605	43	2	3	3799	3	ZCCHC11	1	52961127	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	5244207	52961127	196289494	54	39088											
GPX7	2882	broad.mit.edu	37	chr1	53068182	53068182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcaaggcggtcaacatccGgggcaaactggtgtcgctgg	8	8	14	11	3	2	0	2	0	0	0	4	0	3	0	1	6	2	2	1	6	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:53068182G>A	uc001cue.2	+	1	140	c.101G>A	c.(100-102)CGG>CAG	p.R34Q		NM_015696	NP_056511	Q96SL4	GPX7_HUMAN	glutathione peroxidase 7 precursor	34					response to oxidative stress	extracellular region	glutathione peroxidase activity				0					Glutathione(DB00143)	GTCAACATCCGGGGCAAACTG	0.721													5	10					0	0	1	0	0		A	53068182	A	A	53068182	3	1	55	1	0	0	0	0	1	0	0	0	6761	1116	39	1	103	1	GPX7	1	53068182	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	107055	53068182	196182439	55	39089											
CPT2	1376	broad.mit.edu	37	chr1	53676142	53676142	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagatgggaacattgtgagcCcctcggaaatccaggcacat	13	7	11	10	1	0	2	0	1	0	1	2	4	1	4	3	3	2	1	3	3	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:53676142C>A	uc001cvb.3	+	4	1311	c.796C>A	c.(796-798)CCC>ACC	p.P266T		NM_000098	NP_000089	P23786	CPT2_HUMAN	carnitine O-palmitoyltransferase precursor	266	Mitochondrial matrix (By similarity).				carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	mitochondrial inner membrane	carnitine O-palmitoyltransferase activity				0					L-Carnitine(DB00583)|Perhexiline(DB01074)	CATTGTGAGCCCCTCGGAAAT	0.502													4	88					0.014758	0.014937	1	1	0		A	53676142	A	A	53676142	3	1	55	1	0	0	0	0	1	0	0	0	3837	623	22	5	810	5	CPT2	1	53676142	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	607960	53676142	195574479	56	39090											
TMEM48	55706	broad.mit.edu	37	chr1	54266463	54266463	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatcagtttctgagtcatAccatttaaaagattcaaaca	17	12	5	7	0	4	3	3	1	1	2	4	3	4	3	1	0	2	1	1	0	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:54266463A>G	uc001cvs.2	-	11	1366	c.1125T>C	c.(1123-1125)GGT>GGC	p.G375G	TMEM48_uc010onu.1_Silent_p.G335G|TMEM48_uc001cvt.2_Silent_p.G252G|TMEM48_uc009vzk.2_RNA|TMEM48_uc010onv.1_Silent_p.G40G	NM_018087	NP_060557	Q9BTX1	NDC1_HUMAN	transmembrane protein 48	375	Cytoplasmic (Potential).				mRNA transport|nuclear pore complex assembly|nuclear pore distribution|protein transport|transmembrane transport	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore			ovary(1)|pancreas(1)	2						TCTGAGTCATACCATTTAAAA	0.398													17	28					0	0	1	0	0		G	54266463	G	G	54266463	2	3	55	1	0	0	0	0	0	0	0	1	16197	378	14	3		3	TMEM48	1	54266463	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	590321	54266463	194984158	57	39091											
ACOT11	26027	broad.mit.edu	37	chr1	55058251	55058251	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaatatcaaggccaaggTgaaccgggccttcaactcca	12	7	11	11	1	2	2	2	2	0	0	3	2	3	2	4	4	2	0	4	4	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:55058251T>C	uc001cxm.1	+	4	426	c.344T>C	c.(343-345)GTG>GCG	p.V115A	ACOT11_uc001cxj.1_5'UTR|ACOT11_uc001cxk.2_Missense_Mutation_p.V81A|ACOT11_uc001cxl.1_Missense_Mutation_p.V115A	NM_015547	NP_056362	Q8WXI4	ACO11_HUMAN	thioesterase, adipose associated isoform BFIT1	115	Acyl coenzyme A hydrolase 1.				fatty acid metabolic process|intracellular signal transduction|response to cold		acyl-CoA thioesterase activity|carboxylesterase activity			central_nervous_system(1)	1						AAGGCCAAGGTGAACCGGGCC	0.592													4	85					0	0	1	0	0		C	55058251	C	C	55058251	3	2	55	1	0	0	0	0	1	0	0	0	149	1696	59	3	358	3	ACOT11	1	55058251	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	791788	55058251	194192370	58	39092											
TTC4	7268	broad.mit.edu	37	chr1	55186845	55186845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttttgttaggcaattttcGttctgctctcaatgatgtga	7	19	9	6	1	2	2	1	2	2	0	4	2	2	2	0	1	1	5	0	1	3	6	rs78775654		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:55186845G>A	uc001cxx.3	+	4	454	c.401G>A	c.(400-402)CGT>CAT	p.R134H	C1orf175_uc001cxq.2_RNA|TTC4_uc001cxw.3_Missense_Mutation_p.R134H|TTC4_uc001cxv.2_Missense_Mutation_p.R145H	NM_004623	NP_004614	O95801	TTC4_HUMAN	tetratricopeptide repeat domain 4	134	TPR 2.						binding				0						GGCAATTTTCGTTCTGCTCTC	0.308													10	28					0	0	1	0	0		A	55186845	A	A	55186845	3	1	55	1	0	0	0	0	1	0	0	0	16736	1145	40	1	415	1	TTC4	1	55186845	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	128594	55186845	194063776	59	39093											
USP24	23358	broad.mit.edu	37	chr1	55548945	55548945	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatataaaagtagtccttacCtgattgttttgccgactggc	10	14	9	8	1	0	1	0	1	0	0	1	3	1	1	3	1	2	2	3	1	5	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:55548945C>A	uc001cyg.3	-	55	6495	c.6495G>T	c.(6493-6495)CAG>CAT	p.Q2165H		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	2325					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						TAGTCCTTACCTGATTGTTTT	0.423													3	37					0.00024832	0.000256671	1	1	0		A	55548945	A	A	55548945	3	1	55	1	0	0	0	0	1	0	0	0	17081	695	24	5	931	5	USP24	1	55548945	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	362100	55548945	193701676	60	39094											
NFIA	4774	broad.mit.edu	37	chr1	61848939	61848939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaaccacactgaagaagtCggagaagtctggtttcagca	13	8	10	10	1	2	3	1	1	1	2	4	4	3	3	2	2	2	2	2	2	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:61848939C>T	uc001czw.2	+	7	1461	c.977C>T	c.(976-978)TCG>TTG	p.S326L	NFIA_uc001czy.2_Missense_Mutation_p.S318L|NFIA_uc010oos.1_Missense_Mutation_p.S371L|NFIA_uc001czv.2_Missense_Mutation_p.S326L	NM_001134673	NP_001128145	Q12857	NFIA_HUMAN	nuclear factor I/A isoform 1	326					DNA replication|viral genome replication	cell junction|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)|skin(1)	2						CTGAAGAAGTCGGAGAAGTCT	0.493													6	167					0	0	1	0	0		T	61848939	T	T	61848939	3	4	55	1	0	0	0	0	1	0	0	0	10389	893	31	1	1149	1	NFIA	1	61848939	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6299994	61848939	187401682	61	39095											
ALG6	29929	broad.mit.edu	37	chr1	63876940	63876940	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacagatggaactttaccaCgccttgccatttttttgctt	10	15	6	10	1	0	1	0	0	0	1	0	2	0	2	3	1	5	1	3	1	3	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:63876940C>T	uc010oow.1	+	8	923	c.618C>T	c.(616-618)CAC>CAT	p.H206H	ALG6_uc001daz.2_RNA|ALG6_uc009waj.2_RNA|ALG6_uc010oox.1_Silent_p.H5H	NM_013339	NP_037471	Q9Y672	ALG6_HUMAN	dolichyl pyrophosphate Man9GlcNAc2	206					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity				0						AACTTTACCACGCCTTGCCAT	0.383													12	38					0	0	1	0	0		T	63876940	T	T	63876940	2	4	55	1	0	0	0	0	0	0	0	1	522	535	19	1		1	ALG6	1	63876940	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2028001	63876940	185373681	62	39096											
LEPR	3953	broad.mit.edu	37	chr1	66088619	66088619	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctattttgggaagatgttccGaaccccaagaattgttcctg	10	13	9	9	1	0	2	0	0	0	2	2	4	2	3	4	1	1	2	4	1	5	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:66088619G>A	uc001dci.2	+	19	2830	c.2628G>A	c.(2626-2628)CCG>CCA	p.P876P	LEPR_uc001dcg.2_Silent_p.P876P|LEPR_uc001dch.2_Silent_p.P876P|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Silent_p.P876P|LEPR_uc001dck.2_Silent_p.P876P	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	876	Box 1 motif.|Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		AAGATGTTCCGAACCCCAAGA	0.348													7	25					0	0	1	0	0		A	66088619	A	A	66088619	2	1	55	1	0	0	0	0	0	0	0	1	8744	1045	37	1		1	LEPR	1	66088619	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2211679	66088619	183162002	63	39097											
SLC44A5	204962	broad.mit.edu	37	chr1	75679397	75679397	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccagctcttaccagcaaaGgtacccagtagtaatttaaa	15	9	6	11	0	1	0	0	0	1	0	1	0	1	0	3	1	4	5	3	1	7	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:75679397G>T	uc001dgu.2	-	22	2099	c.1955C>A	c.(1954-1956)CCT>CAT	p.P652H	SLC44A5_uc001dgt.2_Missense_Mutation_p.P652H|SLC44A5_uc001dgs.2_Missense_Mutation_p.P610H|SLC44A5_uc001dgr.2_Missense_Mutation_p.P610H|SLC44A5_uc010oqz.1_Missense_Mutation_p.P691H|SLC44A5_uc010ora.1_Missense_Mutation_p.P646H|SLC44A5_uc010orb.1_Missense_Mutation_p.P522H	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	652	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						TACCAGCAAAGGTACCCAGTA	0.259													21	55					1.2476e-16	1.37644e-16	1	1	0		T	75679397	T	T	75679397	3	4	55	1	0	0	0	0	1	0	0	0	14664	1000	35	5	327	5	SLC44A5	1	75679397	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	9590778	75679397	173571224	64	39098											
ZNF644	84146	broad.mit.edu	37	chr1	91405532	91405532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgttttagaagtgaattgCgatctcgaaatgtccgtcca	11	14	9	7	3	1	2	0	1	1	1	4	4	3	2	2	0	1	1	2	0	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:91405532C>T	uc001dnw.2	-	3	1521	c.1379G>A	c.(1378-1380)CGC>CAC	p.R460H	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.R460H	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	460	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		AAGTGAATTGCGATCTCGAAA	0.393													18	50					0	0	1	0	0		T	91405532	T	T	91405532	3	4	55	1	0	0	0	0	1	0	0	0	18085	768	27	1	2620	1	ZNF644	1	91405532	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	15726135	91405532	157845089	65	39099											
HIAT1	64645	broad.mit.edu	37	chr1	100534100	100534100	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtttctctcctacctaccGgaggcaggccaatattccag	8	11	9	13	1	1	0	0	0	1	0	4	1	3	1	5	3	2	2	5	3	4	5	rs35739983		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:100534100G>A	uc001dst.2	+	7	777	c.777G>A	c.(775-777)CCG>CCA	p.P259P		NM_033055	NP_149044	Q96MC6	HIAT1_HUMAN	hippocampus abundant transcript 1	259	Helical; Name=7; (Potential).				transmembrane transport	integral to membrane|plasma membrane	transporter activity				0		all_epithelial(167;2.96e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0832)|all cancers(265;0.136)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.195)		CCTACCTACCGGAGGCAGGCC	0.383													31	71					0	0	1	0	0		A	100534100	A	A	100534100	2	1	55	1	0	0	0	0	0	0	0	1	7113	1103	39	1		1	HIAT1	1	100534100	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	9128568	100534100	148716521	66	39100											
SLC30A7	148867	broad.mit.edu	37	chr1	101440402	101440402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctacgtacagattgactttGcagccatgtagtgaatggaa	12	12	10	7	1	1	3	0	2	1	1	1	4	1	4	1	1	4	3	1	1	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:101440402G>A	uc001dtn.2	+	11	1307	c.1120G>A	c.(1120-1122)GCA>ACA	p.A374T	SLC30A7_uc001dto.2_Missense_Mutation_p.A374T	NM_001144884	NP_001138356	Q8NEW0	ZNT7_HUMAN	zinc transporter like 2	374	Cytoplasmic (Potential).				zinc ion transport	Golgi apparatus|integral to membrane	cation transmembrane transporter activity|protein binding				0		all_epithelial(167;0.000445)|all_lung(203;0.00645)|Lung NSC(277;0.0119)		Epithelial(280;0.0437)|all cancers(265;0.0498)|COAD - Colon adenocarcinoma(174;0.162)|Colorectal(144;0.19)|Lung(183;0.201)		GATTGACTTTGCAGCCATGTA	0.358													12	17					0	0	1	0	0		A	101440402	A	A	101440402	3	1	55	1	0	0	0	0	1	0	0	0	14585	1319	46	2	1162	2	SLC30A7	1	101440402	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	906302	101440402	147810219	67	39101											
S1PR1	1901	broad.mit.edu	37	chr1	101705500	101705500	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	accaacaaggagatgcgtcgGgccttcatccggatcatgtc	10	8	11	12	3	2	1	2	0	0	1	5	3	3	2	3	3	2	0	3	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:101705500G>A	uc001dud.2	+	2	1474	c.960G>A	c.(958-960)CGG>CGA	p.R320R	S1PR1_uc009weg.2_Silent_p.R320R	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	320	Cytoplasmic (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						AGATGCGTCGGGCCTTCATCC	0.562													6	269					0	0	1	0	0		A	101705500	A	A	101705500	2	1	55	1	0	0	0	0	0	0	0	1	13818	1219	43	4		4	S1PR1	1	101705500	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	265098	101705500	147545121	68	39102											
COL11A1	1301	broad.mit.edu	37	chr1	103453196	103453196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcatttaccaaccttttctCctgcttgacctgaaggacct	8	14	6	13	0	2	2	1	2	1	0	3	3	2	3	5	1	3	1	5	1	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:103453196C>T	uc001dul.2	-	30	2813	c.2495G>A	c.(2494-2496)GGA>GAA	p.G832E	COL11A1_uc001duk.2_Missense_Mutation_p.E23K|COL11A1_uc001dum.2_Missense_Mutation_p.G844E|COL11A1_uc001dun.2_Missense_Mutation_p.G793E|COL11A1_uc009weh.2_Missense_Mutation_p.G716E	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	832	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		AACCTTTTCTCCTGCTTGACC	0.448													7	29					0	0	1	0	0		T	103453196	T	T	103453196	3	4	55	1	0	0	0	0	1	0	0	0	3670	855	30	4	3077	4	COL11A1	1	103453196	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1747696	103453196	145797425	69	39103											
NTNG1	22854	broad.mit.edu	37	chr1	107867369	107867369	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttgctggacctcgcctaCgcaatatggcttccctctac	6	14	7	14	2	1	0	0	0	1	0	3	1	2	1	3	2	3	3	3	2	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:107867369C>T	uc001dvh.3	+	3	1430	c.712C>T	c.(712-714)CGC>TGC	p.R238C	NTNG1_uc001dvf.3_Missense_Mutation_p.R238C|NTNG1_uc010out.1_Missense_Mutation_p.R238C|NTNG1_uc001dvc.3_Missense_Mutation_p.R238C|NTNG1_uc001dvd.1_Missense_Mutation_p.R238C	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	238	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		ACCTCGCCTACGCAATATGGC	0.438													10	27					0	0	1	0	0		T	107867369	T	T	107867369	3	4	55	1	0	0	0	0	1	0	0	0	10723	536	19	1	718	1	NTNG1	1	107867369	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4414173	107867369	141383252	70	39104											
FAM102B	284611	broad.mit.edu	37	chr1	109143275	109143275	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgctgccacaggcatcctAgatccttgtatctacagagt	10	11	9	11	0	1	2	0	0	1	2	3	2	3	2	3	1	3	3	3	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:109143275A>G	uc010ouy.1	+	2	305	c.225A>G	c.(223-225)CTA>CTG	p.L75L		NM_001010883	NP_001010883	Q5T8I3	F102B_HUMAN	hypothetical protein LOC284611	75										large_intestine(1)	1		all_epithelial(167;5.52e-05)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0217)|Lung(183;0.109)|COAD - Colon adenocarcinoma(174;0.141)|Epithelial(280;0.182)		CAGGCATCCTAGATCCTTGTA	0.433													15	32					0	0	1	0	0		G	109143275	G	G	109143275	2	3	55	1	0	0	0	0	0	0	0	1	5394	407	15	3		3	FAM102B	1	109143275	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1275906	109143275	140107346	71	39105											
C1orf59	113802	broad.mit.edu	37	chr1	109192991	109192991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccacagagtaatcatagcGatttgccacatataaagccc	14	9	6	12	1	1	1	1	0	0	1	2	2	2	1	3	0	3	1	3	0	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:109192991G>A	uc001dvt.3	-	7	836	c.598C>T	c.(598-600)CGC>TGC	p.R200C	C1orf59_uc001dvu.3_Missense_Mutation_p.R200C|C1orf59_uc009wer.2_Missense_Mutation_p.R200C	NM_001102592	NP_001096062	Q5T8I9	HENMT_HUMAN	hypothetical protein LOC113802	200					gene silencing by RNA|piRNA metabolic process	P granule	metal ion binding|O-methyltransferase activity|RNA binding|RNA methyltransferase activity				0		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0152)|Lung(183;0.0895)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.163)		TAATCATAGCGATTTGCCACA	0.428													9	34					0	0	1	0	0		A	109192991	A	A	109192991	3	1	55	1	0	0	0	0	1	0	0	0	2054	1058	37	1	591	1	C1orf59	1	109192991	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	49716	109192991	140057630	72	39106											
PRPF38B	55119	broad.mit.edu	37	chr1	109235364	109235364	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcaatgtgctcccgctctggGgcaacgagaagaccatgaac	11	6	12	12	2	1	3	0	1	1	2	2	4	2	3	2	2	3	4	2	2	4	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:109235364G>T	uc001dvv.3	+	1	433	c.151G>T	c.(151-153)GGC>TGC	p.G51C	PRPF38B_uc001dvw.3_5'UTR|PRPF38B_uc010ouz.1_5'UTR	NM_018061	NP_060531	Q5VTL8	PR38B_HUMAN	PRP38 pre-mRNA processing factor 38 (yeast)	51					mRNA processing|RNA splicing	spliceosomal complex					0		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0149)|Lung(183;0.0888)|COAD - Colon adenocarcinoma(174;0.113)|Epithelial(280;0.161)		CCCGCTCTGGGGCAACGAGAA	0.433													16	28					1.40151e-16	1.54528e-16	1	1	0		T	109235364	T	T	109235364	3	4	55	1	0	0	0	0	1	0	0	0	12590	1232	43	5	153	5	PRPF38B	1	109235364	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	42373	109235364	140015257	73	39107											
KCNC4	3749	broad.mit.edu	37	chr1	110754617	110754617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatcttcgagagcccggacGgaggcggcagcggcgcgggg	7	3	19	12	7	1	1	0	0	1	1	2	4	1	3	1	7	2	1	1	7	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:110754617G>A	uc001dzh.2	+	1	553	c.496G>A	c.(496-498)GGA>AGA	p.G166R	KCNC4_uc001dzf.2_Missense_Mutation_p.G166R|KCNC4_uc009wfr.2_Missense_Mutation_p.G166R|KCNC4_uc001dzg.2_Missense_Mutation_p.G166R|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	166	Cytoplasmic (Potential).				synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		all_cancers(81;9.88e-06)|all_epithelial(167;3.23e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0238)|all cancers(265;0.0693)|Epithelial(280;0.0748)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.135)		GAGCCCGGACGGAGGCGGCAG	0.741													5	5					0	0	1	0	0		A	110754617	A	A	110754617	3	1	55	1	0	0	0	0	1	0	0	0	8033	1117	39	1	498	1	KCNC4	1	110754617	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1519253	110754617	138496004	74	39108											
KCNA3	3738	broad.mit.edu	37	chr1	111216961	111216961	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatagtagtagaggatggcGtcgaagctgggccggttgcg	8	9	18	6	4	0	2	0	1	0	1	1	4	0	3	1	4	2	4	1	4	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:111216961G>A	uc001dzv.1	-	1	695	c.471C>T	c.(469-471)GAC>GAT	p.D157D		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	157						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGAGGATGGCGTCGAAGCTGG	0.642													23	91					0	0	1	0	0		A	111216961	A	A	111216961	2	1	55	1	0	0	0	0	0	0	0	1	8020	1136	40	1		1	KCNA3	1	111216961	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	462344	111216961	138033660	75	39109											
TTF2	8458	broad.mit.edu	37	chr1	117629087	117629087	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctatagcctcgtggccaaGgagattcccacaaacaagca	14	6	8	13	1	0	1	0	0	0	1	2	2	1	1	4	2	3	1	4	2	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:117629087G>T	uc001egy.2	+	12	2123	c.2103G>T	c.(2101-2103)AAG>AAT	p.K701N		NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	701	Helicase ATP-binding.				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		TCGTGGCCAAGGAGATTCCCA	0.507													13	29					6.31663e-08	6.75625e-08	1	1	0		T	117629087	T	T	117629087	3	4	55	1	0	0	0	0	1	0	0	0	16745	991	35	5	2149	5	TTF2	1	117629087	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6412126	117629087	131621534	76	39110											
WDR3	10885	broad.mit.edu	37	chr1	118492448	118492448	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagtgaaagatgaaaatagTacccaaaagaggtgagtaga	19	8	11	3	0	0	6	0	3	0	3	0	6	0	6	1	1	1	2	1	1	9	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:118492448T>A	uc010oxe.1	+	14	1665	c.1599T>A	c.(1597-1599)AGT>AGA	p.S533R	WDR3_uc001ehi.2_Intron	NM_006784	NP_006775	Q9UNX4	WDR3_HUMAN	WD repeat-containing protein 3	533	WD 9.					nuclear membrane|nucleolus				upper_aerodigestive_tract(1)	1	Esophageal squamous(2;0.162)	all_cancers(81;2.72e-05)|Acute lymphoblastic leukemia(138;1e-08)|all_epithelial(167;4.4e-07)|all_lung(203;1.7e-06)|Lung NSC(69;1.98e-05)|Prostate(1639;0.00955)|Breast(1374;0.244)		OV - Ovarian serous cystadenocarcinoma(397;1.39e-08)|Epithelial(280;1.82e-07)|all cancers(265;2.04e-05)|Lung(183;0.0525)|BRCA - Breast invasive adenocarcinoma(282;0.0695)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.185)		ATGAAAATAGTACCCAAAAGA	0.363													5	19					0	0	1	0	0		A	118492448	A	A	118492448	3	1	55	1	0	0	0	0	1	0	0	0	17311	1635	57	5	1649	5	WDR3	1	118492448	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	863361	118492448	130758173	77	39111											
NOTCH2	4853	broad.mit.edu	37	chr1	120497755	120497755	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggggtgatggggtccctcGgggcatatacagcggaaacc	8	7	16	10	2	0	1	0	1	0	0	2	2	1	2	2	7	3	1	2	7	3	2	rs141051853		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:120497755G>A	uc001eik.2	-	13	2383	c.2127C>T	c.(2125-2127)CCC>CCT	p.P709P	NOTCH2_uc001eil.2_Silent_p.P709P|NOTCH2_uc001eim.3_Silent_p.P626P	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	709	EGF-like 18; calcium-binding (Potential).|Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGGGTCCCTCGGGGCATATAC	0.527			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				22	49					0	0	1	0	0		A	120497755	A	A	120497755	2	1	55	1	0	0	0	0	0	0	0	1	10567	1103	39	1		1	NOTCH2	1	120497755	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2005307	120497755	128752866	78	39112											
PEX11B	8799	broad.mit.edu	37	chr1	145518235	145518235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtctggactggctcccCgtgtggatcaggagaagtgg	9	8	16	8	1	2	1	1	0	1	1	3	5	3	3	2	5	0	1	2	5	2	0	rs150236235		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:145518235C>T	uc001eny.1	+	3	355	c.337C>T	c.(337-339)CGT>TGT	p.R113C	NBPF10_uc001emp.3_Intron|GNRHR2_uc009wiv.1_5'Flank|GNRHR2_uc010oyt.1_5'Flank|GNRHR2_uc001enx.2_5'Flank|PEX11B_uc010oyu.1_Missense_Mutation_p.R99C	NM_003846	NP_003837	O96011	PX11B_HUMAN	peroxisomal biogenesis factor 11 beta	113					peroxisome fission|signal transduction	integral to peroxisomal membrane	protein binding				0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					ACTGGCTCCCCGTGTGGATCA	0.468													32	108					0	0	1	0	0		T	145518235	T	T	145518235	3	4	55	1	0	0	0	0	1	0	0	0	11757	652	23	1	365	1	PEX11B	1	145518235	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	25020480	145518235	103732386	79	39113											
SV2A	9900	broad.mit.edu	37	chr1	149881071	149881071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtaccaggtccctgtgtccGactggatctcaatcaattca	9	11	9	12	1	3	0	3	0	1	0	6	2	5	1	3	3	1	1	3	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:149881071G>A	uc001etg.2	-	7	1723	c.1232C>T	c.(1231-1233)TCG>TTG	p.S411L	SV2A_uc009wlk.2_5'Flank|SV2A_uc001eth.2_Missense_Mutation_p.S411L	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	411	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	CCCTGTGTCCGACTGGATCTC	0.572													12	41					0	0	1	0	0		A	149881071	A	A	149881071	3	1	55	1	0	0	0	0	1	0	0	0	15442	1059	37	1	1024	1	SV2A	1	149881071	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4362836	149881071	99369550	80	39114											
PRPF3	9129	broad.mit.edu	37	chr1	150305577	150305577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcagctgaactgcaagctcGaatccaagcccagctggcac	12	5	10	14	1	0	1	0	1	0	0	2	2	1	1	2	1	7	6	2	1	4	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:150305577G>A	uc001eum.3	+	6	797	c.635G>A	c.(634-636)CGA>CAA	p.R212Q	PRPF3_uc009wlp.2_RNA|PRPF3_uc010pca.1_Missense_Mutation_p.R171Q|PRPF3_uc010pcb.1_Missense_Mutation_p.R163Q|PRPF3_uc009wlq.1_RNA	NM_004698	NP_004689	O43395	PRPF3_HUMAN	PRP3 pre-mRNA processing factor 3 homolog	212					nuclear mRNA splicing, via spliceosome	Cajal body|cytoplasm|nuclear speck|spliceosomal complex	protein binding			ovary(1)	1	Lung NSC(24;5.57e-29)|Breast(34;0.000844)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)	Colorectal(1306;0.0149)		CTGCAAGCTCGAATCCAAGCC	0.547													12	38					0	0	1	0	0		A	150305577	A	A	150305577	3	1	55	1	0	0	0	0	1	0	0	0	12587	1058	37	1	653	1	PRPF3	1	150305577	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	424506	150305577	98945044	81	39115											
ECM1	1893	broad.mit.edu	37	chr1	150485747	150485747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatgatctgtgtggtccccGacgtaacatctggcgagacc	9	9	11	12	3	2	2	0	1	2	1	3	4	3	2	3	2	1	1	3	2	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:150485747G>A	uc001eus.2	+	10	1626	c.1427G>A	c.(1426-1428)CGA>CAA	p.R476Q	ECM1_uc001eut.2_Missense_Mutation_p.R351Q|ECM1_uc001euu.2_Missense_Mutation_p.R505Q|ECM1_uc001euv.2_Missense_Mutation_p.R503Q|ECM1_uc009wlu.2_Missense_Mutation_p.R236Q	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	476					angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			TGTGGTCCCCGACGTAACATC	0.478													28	79					0	0	1	0	0		A	150485747	A	A	150485747	3	1	55	1	0	0	0	0	1	0	0	0	4903	1058	37	1	1465	1	ECM1	1	150485747	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	180170	150485747	98764874	82	39116											
PI4KB	5298	broad.mit.edu	37	chr1	151280270	151280270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attctctctcaggagccagtCgaacaggctacaggggtttg	9	10	12	10	1	2	0	1	0	2	0	5	2	2	1	1	4	3	2	1	4	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:151280270C>T	uc001ext.2	-	4	1377	c.962G>A	c.(961-963)CGA>CAA	p.R321Q	PI4KB_uc001exr.2_Missense_Mutation_p.R333Q|PI4KB_uc001exs.2_Missense_Mutation_p.R306Q|PI4KB_uc001exu.2_Missense_Mutation_p.R306Q|PI4KB_uc010pcw.1_5'UTR	NM_002651	NP_002642	Q9UBF8	PI4KB_HUMAN	catalytic phosphatidylinositol 4-kinase beta	321					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|receptor-mediated endocytosis	endosome|Golgi apparatus|mitochondrial outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum membrane	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			ovary(2)|skin(2)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			AGGAGCCAGTCGAACAGGCTA	0.547													15	37					0	0	1	0	0		T	151280270	T	T	151280270	3	4	55	1	0	0	0	0	1	0	0	0	11893	884	31	1	1524	1	PI4KB	1	151280270	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	794523	151280270	97970351	83	39117											
CGN	57530	broad.mit.edu	37	chr1	151491113	151491113	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactctacgtcgaggtggaCgacgcccagctaaggatgca	10	6	13	12	4	1	0	0	0	1	0	2	4	1	2	1	3	3	3	1	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:151491113C>T	uc009wmw.2	+	2	262	c.118C>T	c.(118-120)CGA>TGA	p.R40*		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	34	Head.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			TCGAGGTGGACGACGCCCAGC	0.607													25	61					0	0	1	0	0		T	151491113	T	T	151491113	4	4	55	1	0	0	0	0	0	1	0	0	3306	528	19	1	120	1	CGN	1	151491113	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	210843	151491113	97759508	84	39118											
TCHH	7062	broad.mit.edu	37	chr1	152080843	152080843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgcggaattttctgtcgCgctcctggcgcagctgttgt	3	14	12	12	5	1	0	0	0	1	0	4	1	2	1	1	2	1	4	1	2	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:152080843C>T	uc001ezp.2	-	2	4850	c.4850G>A	c.(4849-4851)CGC>CAC	p.R1617H	TCHH_uc009wne.1_Missense_Mutation_p.R1617H	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1617	23 X 26 AA approximate tandem repeats.			Missing (in Ref. 1; AAA65582).	keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTTTCTGTCGCGCTCCTGGCG	0.577													24	48					0	0	1	0	0		T	152080843	T	T	152080843	3	4	55	1	0	0	0	0	1	0	0	0	15725	768	27	1	985	1	TCHH	1	152080843	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	589730	152080843	97169778	85	39119											
TCHH	7062	broad.mit.edu	37	chr1	152082357	152082357	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctgcagctcctcttcCtcccgacattgcctctcccg	3	12	6	20	2	2	0	0	0	2	0	7	1	6	0	6	0	4	3	6	0	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:152082357C>A	uc001ezp.2	-	2	3336	c.3336G>T	c.(3334-3336)GAG>GAT	p.E1112D	TCHH_uc009wne.1_Missense_Mutation_p.E1112D	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1112	10 X 30 AA tandem repeats.|4-7.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			gctcctcttcctccCGACATT	0.174													21	78					6.44725e-10	6.94685e-10	1	1	0		A	152082357	A	A	152082357	3	1	55	1	0	0	0	0	1	0	0	0	15725	680	24	5	2499	5	TCHH	1	152082357	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1514	152082357	97168264	86	39120											
HRNR	388697	broad.mit.edu	37	chr1	152187697	152187697	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgtcctgatctagagccGtgttgtccgtagccagagga	8	10	13	10	2	1	3	0	1	1	2	3	5	3	4	4	1	2	2	4	1	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:152187697G>A	uc001ezt.1	-	3	6484	c.6408C>T	c.(6406-6408)CAC>CAT	p.H2136H		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2136					keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATCTAGAGCCGTGTTGTCCGT	0.557													10	584					0	0	1	0	0		A	152187697	A	A	152187697	2	1	55	1	0	0	0	0	0	0	0	1	7375	1136	40	1		1	HRNR	1	152187697	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	105340	152187697	97062924	87	39121											
FLG2	388698	broad.mit.edu	37	chr1	152325220	152325220	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatggattctgactgtccaTgttgagatccagcttgacca	9	13	9	10	0	1	3	0	3	1	1	3	5	3	4	3	1	1	2	3	1	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:152325220T>C	uc001ezw.3	-	3	5115	c.5042A>G	c.(5041-5043)CAT>CGT	p.H1681R	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1681							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGACTGTCCATGTTGAGATCC	0.478													6	320					0	0	1	0	0		C	152325220	C	C	152325220	3	2	55	1	0	0	0	0	1	0	0	0	5937	1464	51	3	2137	3	FLG2	1	152325220	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	137523	152325220	96925401	88	39122											
FLG2	388698	broad.mit.edu	37	chr1	152327682	152327682	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcccgaacttgacccatgTtgaccatagccagatgattg	10	11	9	11	1	0	4	0	3	0	1	1	5	1	4	4	0	2	1	4	0	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:152327682T>C	uc001ezw.3	-	3	2653	c.2580A>G	c.(2578-2580)CAA>CAG	p.Q860Q	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	860	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTGACCCATGTTGACCATAGC	0.498													10	482					0	0	1	0	0		C	152327682	C	C	152327682	2	2	55	1	0	0	0	0	0	0	0	1	5937	1722	60	3		3	FLG2	1	152327682	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2462	152327682	96922939	89	39123											
INTS3	65123	broad.mit.edu	37	chr1	153730118	153730118	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcaactccagatagtcAgtctctgcgctgtgacctca	8	11	8	14	1	4	2	3	1	1	1	6	2	5	2	3	0	2	1	3	0	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:153730118A>G	uc009wom.2	+	11	1249	c.1028A>G	c.(1027-1029)CAG>CGG	p.Q343R	INTS3_uc001fct.2_Missense_Mutation_p.Q343R|INTS3_uc001fcu.2_Missense_Mutation_p.Q35R|INTS3_uc001fcv.2_Missense_Mutation_p.Q137R|INTS3_uc010peb.1_Missense_Mutation_p.Q137R|INTS3_uc001fcw.2_5'UTR|INTS3_uc010pec.1_5'UTR	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	344					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			CCAGATAGTCAGTCTCTGCGC	0.502													21	61					0	0	1	0	0		G	153730118	G	G	153730118	3	3	55	1	0	0	0	0	1	0	0	0	7795	188	7	3	1066	3	INTS3	1	153730118	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1402436	153730118	95520503	90	39124											
DENND4B	9909	broad.mit.edu	37	chr1	153904887	153904887	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggggctcaggtatgcccaTgccccactctcaacccgccg	7	6	11	17	2	2	0	2	0	1	0	3	0	2	0	5	3	3	2	5	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:153904887T>C	uc001fdd.1	-	24	4190	c.3789A>G	c.(3787-3789)GCA>GCG	p.A1263A	uc001fdc.1_Intron	NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	1263										ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GGTATGCCCATGCCCCACTCT	0.642													8	7					0	0	1	0	0		C	153904887	C	C	153904887	2	2	55	1	0	0	0	0	0	0	0	1	4440	1451	51	3		3	DENND4B	1	153904887	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	174769	153904887	95345734	91	39125											
ZBTB7B	51043	broad.mit.edu	37	chr1	154987334	154987334	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagcttttcactgagggCggtggcggagctgtcatggg	8	9	17	7	2	2	2	2	1	0	1	2	3	2	3	0	5	2	2	0	5	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:154987334C>T	uc001fgk.3	+	3	356	c.198C>T	c.(196-198)GGC>GGT	p.G66G	ZBTB7B_uc009wpa.2_Silent_p.G66G|ZBTB7B_uc001fgj.3_Silent_p.G100G|ZBTB7B_uc010peq.1_Silent_p.G100G|ZBTB7B_uc001fgl.3_Silent_p.G66G	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	66	BTB.				cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TCACTGAGGGCGGTGGCGGAG	0.632													14	47					0	0	1	0	0		T	154987334	T	T	154987334	2	4	55	1	0	0	0	0	0	0	0	1	17579	755	27	1		1	ZBTB7B	1	154987334	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1082447	154987334	94263287	92	39126											
TRIM46	80128	broad.mit.edu	37	chr1	155154492	155154492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgtggtcctgggcgacGtggctgtgacccagggccgc	4	8	18	11	3	0	1	0	1	0	0	1	3	1	2	3	5	0	1	3	5	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:155154492G>A	uc001fhs.1	+	9	1836	c.1753G>A	c.(1753-1755)GTG>ATG	p.V585M	RAG1AP1_uc010pey.1_Intron|TRIM46_uc009wpe.1_RNA|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_Missense_Mutation_p.V459M|TRIM46_uc001fhu.1_Missense_Mutation_p.V562M|TRIM46_uc009wpg.1_Missense_Mutation_p.V572M|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	585	B30.2/SPRY.					intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CCTGGGCGACGTGGCTGTGAC	0.557													4	5					0	0	1	0	0		A	155154492	A	A	155154492	3	1	55	1	0	0	0	0	1	0	0	0	16547	1145	40	1	1787	1	TRIM46	1	155154492	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	167158	155154492	94096129	93	39127											
HCN3	57657	broad.mit.edu	37	chr1	155254532	155254532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccctggactcttcccggcGtcagtaccaggagaaggtca	8	8	12	13	2	3	1	2	0	1	1	5	3	5	2	3	4	1	1	3	4	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:155254532G>A	uc001fjz.1	+	4	1081	c.1073G>A	c.(1072-1074)CGT>CAT	p.R358H	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_Missense_Mutation_p.R53H	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	358	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			TCTTCCCGGCGTCAGTACCAG	0.592													7	29					0	0	1	0	0		A	155254532	A	A	155254532	3	1	55	1	0	0	0	0	1	0	0	0	7014	1145	40	1	1087	1	HCN3	1	155254532	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	100040	155254532	93996089	94	39128											
PKLR	5313	broad.mit.edu	37	chr1	155265010	155265010	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagtccacccacacggtgttCgcgttcccccgcgtccggaa	6	8	10	17	6	0	0	0	0	0	0	4	1	3	1	5	2	0	2	5	2	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:155265010C>T	uc001fkb.3	-	5	630	c.591G>A	c.(589-591)GCG>GCA	p.A197A	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Silent_p.A166A	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	197					endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	ACACGGTGTTCGCGTTCCCCC	0.632													29	90					0	0	1	0	0		T	155265010	T	T	155265010	2	4	55	1	0	0	0	0	0	0	0	1	11995	871	31	1		1	PKLR	1	155265010	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	10478	155265010	93985611	95	39129											
PMF1	11243	broad.mit.edu	37	chr1	156206195	156206195	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccgagaaccagcagcTggcagatgccgtcctggcag	9	4	16	12	2	0	2	0	0	0	2	1	4	1	3	4	4	4	4	4	4	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:156206195T>G	uc001fnq.2	+	4	508	c.485T>G	c.(484-486)CTG>CGG	p.L162R	PMF1_uc001fnr.2_Missense_Mutation_p.W142G|BGLAP_uc001fns.1_Intron	NM_007221	NP_009152	Q6P1K2	PMF1_HUMAN	polyamine-modulated factor 1	162	Potential.				cell division|chromosome segregation|mitotic prometaphase|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytosol|MIS12/MIND type complex|transcription factor complex	leucine zipper domain binding|transcription coactivator activity				0	Hepatocellular(266;0.158)					AACCAGCAGCTGGCAGATGCC	0.647													10	21					0	0	1	0	0		G	156206195	G	G	156206195	3	3	55	1	0	0	0	0	1	0	0	0	12152	1580	55	5	499	5	PMF1	1	156206195	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	941185	156206195	93044426	96	39130											
PAQR6	79957	broad.mit.edu	37	chr1	156214974	156214974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgaacaggaatggataggCgaaggctcctgtgcggagga	11	6	17	7	3	0	0	0	0	0	0	2	6	1	4	1	6	2	1	1	6	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:156214974C>T	uc001fnu.1	-	6	638	c.568G>A	c.(568-570)GCC>ACC	p.A190T	PAQR6_uc010phf.1_Silent_p.S56S|PAQR6_uc001fny.1_5'UTR|PAQR6_uc001fnv.1_Missense_Mutation_p.A166T|PAQR6_uc010phg.1_Missense_Mutation_p.A187T|PAQR6_uc001fnx.1_Missense_Mutation_p.A84T|PAQR6_uc001fnw.1_Missense_Mutation_p.A84T|PAQR6_uc001fnz.1_Missense_Mutation_p.A84T|PAQR6_uc010phh.1_Missense_Mutation_p.A190T|PAQR6_uc001foa.1_Missense_Mutation_p.A84T|PAQR6_uc001fob.1_RNA	NM_198406	NP_940798	Q6TCH4	PAQR6_HUMAN	progestin and adipoQ receptor family member VI	190	Cytoplasmic (Potential).					integral to membrane	receptor activity				0	Hepatocellular(266;0.158)					AATGGATAGGCGAAGGCTCCT	0.602													11	52					0	0	1	0	0		T	156214974	T	T	156214974	3	4	55	1	0	0	0	0	1	0	0	0	11458	768	27	1	817	1	PAQR6	1	156214974	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	8779	156214974	93035647	97	39131											
SMG5	23381	broad.mit.edu	37	chr1	156237904	156237904	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcatgctctcttccactcAcctgcttttgggctgtagga	5	15	9	12	0	3	0	2	0	1	0	5	1	4	1	2	2	2	5	2	2	1	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:156237904A>G	uc001foc.3	-	9	1057	c.908_splice	c.e9+1	p.S303_splice		NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay						mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					TCTTCCACTCACCTGCTTTTG	0.458													19	46					0	0	1	0	0		G	156237904	G	G	156237904	5	3	55	1	0	0	0	0	0	0	1	0	14821	173	6	3	2196	3	SMG5	1	156237904	Splice_Site	SNP	A	TCGA-BR-7851-01A-11D-2201-08	22930	156237904	93012717	98	39132											
RHBG	57127	broad.mit.edu	37	chr1	156339144	156339144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctttgctgtctttgtccGctacaaccacaaaaccgacg	9	11	6	15	3	2	0	0	0	2	0	3	1	3	0	4	0	4	2	4	0	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:156339144G>A	uc010pho.1	+	1	142	c.104G>A	c.(103-105)CGC>CAC	p.R35H	RHBG_uc010phm.1_Missense_Mutation_p.R35H|RHBG_uc010phn.1_RNA|RHBG_uc001fos.2_5'UTR|RHBG_uc009wrz.2_5'UTR|RHBG_uc001for.2_5'UTR	NM_020407	NP_065140	Q9H310	RHBG_HUMAN	Rhesus blood group, B glycoprotein	35	Extracellular (Potential).				transepithelial ammonium transport	anchored to plasma membrane|basolateral plasma membrane|cytoplasmic vesicle membrane|integral to plasma membrane|spectrin-associated cytoskeleton	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			ovary(2)	2	Hepatocellular(266;0.158)					GTCTTTGTCCGCTACAACCAC	0.627													5	16					0	0	1	0	0		A	156339144	A	A	156339144	3	1	55	1	0	0	0	0	1	0	0	0	13349	1087	38	1	106	1	RHBG	1	156339144	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	101240	156339144	92911477	99	39133											
MEF2D	4209	broad.mit.edu	37	chr1	156449123	156449123	+	Frame_Shift_Del	DEL	C	-	-																															cgttagcactgttcaggtcaCcccccagcatggcccctgga																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:156449123delC	uc001fpc.2	-	6	1013	c.623delG	c.(622-624)GGTfs	p.G208fs	MEF2D_uc001fpb.2_Frame_Shift_Del_p.G208fs|MEF2D_uc001fpd.2_Frame_Shift_Del_p.G208fs|MEF2D_uc001fpe.1_Frame_Shift_Del_p.G208fs|MEF2D_uc009wsa.2_RNA	NM_005920	NP_005911	Q14814	MEF2D_HUMAN	myocyte enhancer factor 2D	208					apoptosis|muscle organ development|nervous system development|positive regulation of transcription from RNA polymerase II promoter	nucleus	activating transcription factor binding|histone deacetylase binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTTCAGGTCACCCCCCAGCAT	0.602													9	20	---	---	---	---						.	-	156449123	-	-	156449123	7	5	55	1	0	1	0	1	0	0	0	0	9476	507	18	0	970	0	MEF2D	1	156449123	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	109979	156449123	92801498	100	39134											
PRCC	5546	broad.mit.edu	37	chr1	156756757	156756757	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacctggagttgagccatacCcttaccccatccccactgtc	8	9	6	18	0	0	1	0	1	0	0	2	2	1	2	7	1	3	1	7	1	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:156756757C>A	uc001fqa.2	+	3	1164	c.874C>A	c.(874-876)CCT>ACT	p.P292T	PRCC_uc001fqb.2_Missense_Mutation_p.P292T	NM_005973	NP_005964	Q92733	PRCC_HUMAN	papillary renal cell carcinoma	292					cell cycle|mitotic cell cycle checkpoint	nucleus	protein binding		PRCC/TFE3(25)	kidney(25)|central_nervous_system(2)	27	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TGAGCCATACCCTTACCCCAT	0.562			T	TFE3	papillary renal 								5	43					0.014758	0.014937	1	1	0		A	156756757	A	A	156756757	3	1	55	1	0	0	0	0	1	0	0	0	12469	623	22	5	884	5	PRCC	1	156756757	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	307634	156756757	92493864	101	39135											
FCRL3	115352	broad.mit.edu	37	chr1	157666085	157666085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctgccctccggtgggccGgatctctagattcacattag	7	10	11	13	2	2	1	1	0	1	1	4	2	3	2	3	3	2	1	3	3	2	3	rs146153982		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:157666085G>A	uc001frb.2	-	7	1169	c.877C>T	c.(877-879)CGG>TGG	p.R293W	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.R293W|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Missense_Mutation_p.R19W|FCRL3_uc001frc.1_Missense_Mutation_p.R293W	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	293	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					CCGGTGGGCCGGATCTCTAGA	0.532													22	61					0	0	1	0	0		A	157666085	A	A	157666085	3	1	55	1	0	0	0	0	1	0	0	0	5810	1115	39	1	1363	1	FCRL3	1	157666085	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	909328	157666085	91584536	102	39136											
ATP1A4	480	broad.mit.edu	37	chr1	160136351	160136351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagccaagcgcatggcgCggaagaactgcctggtgaag	11	5	14	11	3	1	2	1	1	0	1	1	3	1	3	2	3	4	1	2	3	4	0	rs143083729	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:160136351C>T	uc001fve.3	+	8	1560	c.1081C>T	c.(1081-1083)CGG>TGG	p.R361W	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_5'UTR	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	361	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GCGCATGGCGCGGAAGAACTG	0.567													24	49					0	0	1	0	0		T	160136351	T	T	160136351	3	4	55	1	0	0	0	0	1	0	0	0	1132	759	27	1	1111	1	ATP1A4	1	160136351	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2470266	160136351	89114270	103	39137											
DCAF8	50717	broad.mit.edu	37	chr1	160188206	160188206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcaagctatcttcatcccGctcccgcttgttcttcttaa	6	15	6	14	2	4	0	1	0	3	0	6	0	6	0	2	0	2	5	2	0	3	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:160188206G>A	uc001fvo.2	-	13	1897	c.1585C>T	c.(1585-1587)CGG>TGG	p.R529W	DCAF8_uc001fvn.2_Missense_Mutation_p.R529W|DCAF8_uc009wth.2_Missense_Mutation_p.R529W|DCAF8_uc010pjb.1_Missense_Mutation_p.R529W|DCAF8_uc010pjc.1_Missense_Mutation_p.R683W	NM_015726	NP_056541	Q5TAQ9	DCAF8_HUMAN	DDB1 and CUL4 associated factor 8	529						CUL4 RING ubiquitin ligase complex	protein binding			skin(2)	2						TCTTCATCCCGCTCCCGCTTG	0.512													29	65					0	0	1	0	0		A	160188206	A	A	160188206	3	1	55	1	0	0	0	0	1	0	0	0	4279	1086	38	1	216	1	DCAF8	1	160188206	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	51855	160188206	89062415	104	39138											
POGK	57645	broad.mit.edu	37	chr1	166819124	166819124	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggatggaaattcgctgccaCcggtatgggtggatgactga	9	9	16	7	2	0	2	0	2	0	0	1	5	0	5	2	5	1	2	2	5	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:166819124C>T	uc001gdt.1	+	5	1428	c.1308C>T	c.(1306-1308)CAC>CAT	p.H436H	POGK_uc010ple.1_Silent_p.H351H|POGK_uc010plf.1_Silent_p.H318H	NM_017542	NP_060012	Q9P215	POGK_HUMAN	pogo transposable element with KRAB domain	436	DDE.				multicellular organismal development|regulation of transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						TTCGCTGCCACCGGTATGGGT	0.547													12	40					0	0	1	0	0		T	166819124	T	T	166819124	2	4	55	1	0	0	0	0	0	0	0	1	12204	506	18	4		4	POGK	1	166819124	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6630918	166819124	82431497	105	39139											
ILDR2	387597	broad.mit.edu	37	chr1	166944501	166944501	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacctcagcaagaccctaTccatcttccccaacttccca	10	9	2	20	0	2	1	1	0	1	1	6	1	6	1	7	0	2	1	7	0	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:166944501T>C	uc001gdx.1	-	1	61	c.5A>G	c.(4-6)GAT>GGT	p.D2G		NM_199351	NP_955383	Q71H61	ILDR2_HUMAN	immunoglobulin-like domain containing receptor	2	Extracellular (Potential).					integral to membrane				ovary(1)	1						CAAGACCCTATCCATCTTCCC	0.403													16	47					0	0	1	0	0		C	166944501	C	C	166944501	3	2	55	1	0	0	0	0	1	0	0	0	7726	1435	50	3	1954	3	ILDR2	1	166944501	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	125377	166944501	82306120	106	39140											
RCSD1	92241	broad.mit.edu	37	chr1	167653175	167653175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgccaatgtggacaactcGgcgtccccctcggtggccca	8	7	11	15	3	0	0	0	0	0	0	3	1	1	1	4	4	2	0	4	4	3	0	rs112577989	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:167653175G>A	uc001gem.2	+	2	232	c.45G>A	c.(43-45)TCG>TCA	p.S15S	RCSD1_uc010pli.1_Silent_p.S15S	NM_052862	NP_443094	Q6JBY9	CPZIP_HUMAN	RCSD domain containing 1	15										ovary(2)|central_nervous_system(2)|skin(1)	5	all_hematologic(923;0.215)					TGGACAACTCGGCGTCCCCCT	0.592													68	156					0	0	1	0	0		A	167653175	A	A	167653175	2	1	55	1	0	0	0	0	0	0	0	1	13210	1103	39	1		1	RCSD1	1	167653175	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	708674	167653175	81597446	107	39141											
SELL	6402	broad.mit.edu	37	chr1	169672458	169672458	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacaaatggttttcttcttcCcaattaactcagttccttct	9	17	3	12	0	4	0	1	0	3	0	6	0	6	0	2	1	1	2	2	1	3	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:169672458C>A	uc001ggk.2	-	6	1088	c.890G>T	c.(889-891)GGG>GTG	p.G297V	C1orf112_uc001ggj.2_Intron|SELL_uc010pls.1_Missense_Mutation_p.G250V|SELL_uc001ggl.1_Missense_Mutation_p.G310V	NM_000655	NP_000646	P14151	LYAM1_HUMAN	selectin L precursor	297	Extracellular (Potential).|Sushi 2.				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	integral to plasma membrane	glycosphingolipid binding|heparin binding|protease binding|sugar binding				0	all_hematologic(923;0.208)					TTTCTTCTTCCCAATTAACTC	0.428													4	18					1.024e-07	1.09393e-07	1	1	0		A	169672458	A	A	169672458	3	1	55	1	0	0	0	0	1	0	0	0	14041	623	22	5	244	5	SELL	1	169672458	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2019283	169672458	79578163	108	39142											
SELE	6401	broad.mit.edu	37	chr1	169696562	169696562	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcagagccattgagcgTccatccttcaggacaggcga	10	7	12	12	2	1	2	1	1	0	1	3	4	3	3	3	2	4	2	3	2	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:169696562T>C	uc001ggm.3	-	10	1730	c.1573A>G	c.(1573-1575)ACG>GCG	p.T525A	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	525	Extracellular (Potential).|Sushi 6.				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					CCATTGAGCGTCCATCCTTCA	0.542													16	40					0	0	1	0	0		C	169696562	C	C	169696562	3	2	55	1	0	0	0	0	1	0	0	0	14038	1667	58	3	275	3	SELE	1	169696562	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	24104	169696562	79554059	109	39143											
SCYL3	57147	broad.mit.edu	37	chr1	169823861	169823861	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtatctaagctgctgggctcGcagtcatcccaagatgactc	9	10	10	12	1	2	2	1	1	1	1	5	2	3	2	1	1	2	5	1	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:169823861G>A	uc001ggs.2	-	13	1917	c.1719C>T	c.(1717-1719)TGC>TGT	p.C573C	SCYL3_uc010plw.1_Silent_p.C165C|SCYL3_uc001ggt.2_Silent_p.C519C|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	573	Interaction with EZR.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TGCTGGGCTCGCAGTCATCCC	0.468													29	63					0	0	1	0	0		A	169823861	A	A	169823861	2	1	55	1	0	0	0	0	0	0	0	1	13974	1079	38	1		1	SCYL3	1	169823861	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	127299	169823861	79426760	110	39144											
SLC9A11	284525	broad.mit.edu	37	chr1	173494047	173494047	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaatgacaacatcacgAccctcatgctccatgagtac	15	7	6	13	1	2	2	2	2	0	0	3	3	3	2	2	0	4	3	2	0	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:173494047A>G	uc001giz.2	-	20	2808	c.2385T>C	c.(2383-2385)GGT>GGC	p.G795G	SLC9A11_uc009wwe.2_Silent_p.G353G|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	795					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						CAACATCACGACCCTCATGCT	0.313													15	59					0	0	1	0	0		G	173494047	G	G	173494047	2	3	55	1	0	0	0	0	0	0	0	1	14736	262	10	3		3	SLC9A11	1	173494047	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	3670186	173494047	75756574	111	39145											
GPR52	9293	broad.mit.edu	37	chr1	174418193	174418193	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatagtttttgtaactgtgTaatatacagcctctccaaca	13	15	5	8	0	1	0	0	0	1	0	2	0	1	0	2	0	4	3	2	0	7	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:174418193T>C	uc001gka.1	+	1	982	c.944T>C	c.(943-945)GTA>GCA	p.V315A	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron|uc010pmu.1_RNA	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	315	Helical; Name=7; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						TGTAACTGTGTAATATACAGC	0.433													22	79					0	0	1	0	0		C	174418193	C	C	174418193	3	2	55	1	0	0	0	0	1	0	0	0	6713	1638	57	3	946	3	GPR52	1	174418193	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	924146	174418193	74832428	112	39146											
RABGAP1L	9910	broad.mit.edu	37	chr1	174671277	174671277	+	Frame_Shift_Del	DEL	T	-	-																															ctaccggacctgcatagccaTttttctgatctgaacctgga																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:174671277delT	uc001gjx.2	+	17	2247	c.2052delT	c.(2050-2052)CATfs	p.H684fs	RABGAP1L_uc001gkb.3_5'UTR|RABGAP1L_uc001gkc.3_5'UTR|RABGAP1L_uc001gkd.3_Frame_Shift_Del_p.H10fs	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	684	Rab-GAP TBC.				regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						TGCATAGCCATTTTTCTGATC	0.448													40	36	---	---	---	---						.	-	174671277	-	-	174671277	7	5	55	1	0	1	0	1	0	0	0	0	12990	1490	52	0	2114	0	RABGAP1L	1	174671277	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	253084	174671277	74579344	113	39147											
TNN	63923	broad.mit.edu	37	chr1	175066629	175066629	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctcctgggacccggtacaGgccaccattgacaagtacgt	10	8	10	13	2	1	1	0	1	1	0	2	2	1	2	4	3	2	2	4	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:175066629G>T	uc001gkl.1	+	8	1778	c.1665G>T	c.(1663-1665)CAG>CAT	p.Q555H	TNN_uc010pmx.1_Intron	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	555	Fibronectin type-III 4.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		ACCCGGTACAGGCCACCATTG	0.547													7	26					0.000274275	0.000282831	1	1	0		T	175066629	T	T	175066629	3	4	55	1	0	0	0	0	1	0	0	0	16348	991	35	5	1691	5	TNN	1	175066629	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	395352	175066629	74183992	114	39148											
RASAL2	9462	broad.mit.edu	37	chr1	178414799	178414799	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcttcatgacgcactgggTatgaaagagaaaaacatcta	16	10	8	7	1	3	3	1	2	2	1	3	4	3	3	0	1	1	2	0	1	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:178414799T>C	uc001glr.2	+	7	1308	c.1183_splice	c.e7+2	p.G395_splice	RASAL2_uc001glq.2_Splice_Site_p.G543_splice	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1						negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						ACGCACTGGGTATGAAAGAGA	0.373													3	19					0	0	1	0	0		C	178414799	C	C	178414799	5	2	55	1	0	0	0	0	0	0	1	0	13089	1652	57	3	1680	3	RASAL2	1	178414799	Splice_Site	SNP	T	TCGA-BR-7851-01A-11D-2201-08	3348170	178414799	70835822	115	39149											
CACNA1E	777	broad.mit.edu	37	chr1	181453006	181453006	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggccgcctacaagcagacGaaagcacagagggcgcggac	12	1	15	13	5	0	2	0	0	0	2	0	4	0	3	2	3	3	2	2	3	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:181453006G>A	uc001gow.2	+	1	291	c.126G>A	c.(124-126)ACG>ACA	p.T42T		NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	42	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						ACAAGCAGACGAAAGCACAGA	0.622													23	75					0	0	1	0	0		A	181453006	A	A	181453006	2	1	55	1	0	0	0	0	0	0	0	1	2545	1045	37	1		1	CACNA1E	1	181453006	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3038207	181453006	67797615	116	39150											
C1orf25	81627	broad.mit.edu	37	chr1	185109329	185109329	+	Frame_Shift_Del	DEL	T	-	-																															ttgactgcatttccaagatgTtttgcccactgtaatcccat																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:185109329delT	uc001grf.3	-	8	1157	c.885delA	c.(883-885)AAAfs	p.K295fs	C1orf25_uc010pon.1_Frame_Shift_Del_p.K139fs	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	295						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						TTCCAAGATGTTTTGCCCACT	0.308													12	27	---	---	---	---						.	-	185109329	-	-	185109329	7	5	55	1	0	1	0	1	0	0	0	0	2037	1722	60	0	1348	0	C1orf25	1	185109329	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	3656323	185109329	64141292	117	39151											
HMCN1	83872	broad.mit.edu	37	chr1	185897784	185897784	+	Frame_Shift_Del	DEL	T	-	-																															gtactggacgggcacagacaTtttttgacgtatcaggtaat																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:185897784delT	uc001grq.1	+	10	1766	c.1537delT	c.(1537-1539)TTTfs	p.F513fs		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	513	Ig-like C2-type 1.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GGCACAGACATTTTTTGACGT	0.403													63	115	---	---	---	---						.	-	185897784	-	-	185897784	7	5	55	1	0	1	0	1	0	0	0	0	7236	1493	52	0	1575	0	HMCN1	1	185897784	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	788455	185897784	63352837	118	39152											
PRG4	10216	broad.mit.edu	37	chr1	186282863	186282863	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacagcaagagcaattactActcgttctgggcagacctta	13	9	9	10	1	1	2	0	0	1	2	2	3	1	2	1	1	5	4	1	1	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:186282863A>G	uc001gru.3	+	13	4219	c.4168A>G	c.(4168-4170)ACT>GCT	p.T1390A	PRG4_uc001grt.3_Missense_Mutation_p.T1349A|PRG4_uc009wyl.2_Missense_Mutation_p.T1297A|PRG4_uc009wym.2_Missense_Mutation_p.T1256A|PRG4_uc010poo.1_RNA|TPR_uc001grv.2_3'UTR	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	1390					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						AGCAATTACTACTCGTTCTGG	0.343													5	136					0	0	1	0	0		G	186282863	G	G	186282863	3	3	55	1	0	0	0	0	1	0	0	0	12503	391	14	3	4214	3	PRG4	1	186282863	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	385079	186282863	62967758	119	39153											
CDC73	79577	broad.mit.edu	37	chr1	193099372	193099372	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatatctcaatggtgaagcGtgtgagtactttttaaattg	11	15	11	4	1	1	2	1	2	1	0	2	3	1	3	0	2	2	1	0	2	6	6	rs141131532		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:193099372G>A	uc001gtb.2	+	3	549	c.306G>A	c.(304-306)GCG>GCA	p.A102A		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	102					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						ATGGTGAAGCGTGTGAGTACT	0.219									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				13	30					0	0	1	0	0		A	193099372	A	A	193099372	2	1	55	1	0	0	0	0	0	0	0	1	3088	1159	40	1		1	CDC73	1	193099372	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6816509	193099372	56151249	120	39154											
CFHR5	81494	broad.mit.edu	37	chr1	196977710	196977710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctatgcaaaaacaggggatgCtgttgaattccagtgtaaat	14	11	10	6	0	0	1	0	1	0	0	1	2	1	2	1	2	3	4	1	2	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:196977710C>T	uc001gts.3	+	10	1735	c.1607C>T	c.(1606-1608)GCT>GTT	p.A536V		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	536	Sushi 9.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						ACAGGGGATGCTGTTGAATTC	0.363													18	26					0	0	1	0	0		T	196977710	T	T	196977710	3	4	55	1	0	0	0	0	1	0	0	0	3291	797	28	2	1645	2	CFHR5	1	196977710	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3878338	196977710	52272911	121	39155											
ZBTB41	360023	broad.mit.edu	37	chr1	197168526	197168526	+	Frame_Shift_Del	DEL	T	-	-																															acatttaggacactgcaataTttttttgttgctgttctgaa																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:197168526delT	uc001gtx.1	-	1	1147	c.1078delA	c.(1078-1080)ATAfs	p.I360fs	ZBTB41_uc009wyz.1_RNA|CRB1_uc010poz.1_5'Flank	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	360					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						CACTGCAATATTTTTTTGTTG	0.353													23	46	---	---	---	---						.	-	197168526	-	-	197168526	7	5	55	1	0	1	0	1	0	0	0	0	17568	1493	52	0	1691	0	ZBTB41	1	197168526	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	190816	197168526	52082095	122	39156											
CRB1	23418	broad.mit.edu	37	chr1	197411413	197411413	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctttgctggcgagcgctgCgaggtggacgtaagcagcct	6	8	16	11	4	0	0	0	0	0	0	0	3	0	1	2	3	5	4	2	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:197411413C>T	uc001gtz.2	+	11	4131	c.3996C>T	c.(3994-3996)TGC>TGT	p.C1332C	CRB1_uc010poz.1_Silent_p.C1308C|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Silent_p.C1220C|CRB1_uc010ppb.1_Silent_p.C796C|CRB1_uc010ppd.1_Silent_p.C813C|CRB1_uc001gub.1_3'UTR	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1332	Extracellular (Potential).|EGF-like 19; calcium-binding (Potential).				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						GCGAGCGCTGCGAGGTGGACG	0.483													37	159					0	0	1	0	0		T	197411413	T	T	197411413	2	4	55	1	0	0	0	0	0	0	0	1	3851	776	27	1		1	CRB1	1	197411413	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	242887	197411413	51839208	123	39157											
DENND1B	163486	broad.mit.edu	37	chr1	197621403	197621403	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtatttgcctttggtactgGgtggttatacagtgatctga	8	16	12	5	0	1	2	0	2	1	0	1	2	1	2	1	3	3	3	1	3	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:197621403G>T	uc001guf.3	-	7	747	c.409C>A	c.(409-411)CCA>ACA	p.P137T	DENND1B_uc010ppe.1_Missense_Mutation_p.P137T|DENND1B_uc010ppf.1_RNA|DENND1B_uc001gue.3_Missense_Mutation_p.P127T|DENND1B_uc001gug.3_5'UTR	NM_144977	NP_659414	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 2	137	DENN.					clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						TTTGGTACTGGGTGGTTATAC	0.333													6	45					7.48243e-07	7.92576e-07	1	1	0		T	197621403	T	T	197621403	3	4	55	1	0	0	0	0	1	0	0	0	4433	1232	43	5	2027	5	DENND1B	1	197621403	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	209990	197621403	51629218	124	39158											
ZNF281	23528	broad.mit.edu	37	chr1	200376244	200376244	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgagaaatctgacactgAagtccttactctatggtcca	11	11	7	12	0	2	3	0	3	2	1	4	4	4	3	3	1	1	0	3	1	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:200376244A>G	uc001gve.2	-	2	2697	c.2590T>C	c.(2590-2592)TCA>CCA	p.S864P	ZNF281_uc001gvf.1_Missense_Mutation_p.S864P|ZNF281_uc001gvg.1_Missense_Mutation_p.S828P	NM_012482	NP_036614	Q9Y2X9	ZN281_HUMAN	zinc finger protein 281	864					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)	2						TCTGACACTGAAGTCCTTACT	0.443													26	41					0	0	1	0	0		G	200376244	G	G	200376244	3	3	55	1	0	0	0	0	1	0	0	0	17843	246	9	3	101	3	ZNF281	1	200376244	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2754841	200376244	48874377	125	39159											
IGFN1	91156	broad.mit.edu	37	chr1	201184182	201184182	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctttaagcaagacggtctCgtgcacagcctcttcatcac	10	11	7	13	2	5	1	2	0	3	1	6	1	5	1	1	1	3	2	1	1	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:201184182C>T	uc001gwc.2	+	3	1147	c.375C>T	c.(373-375)CTC>CTT	p.L125L	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						AAGACGGTCTCGTGCACAGCC	0.602													12	33					0	0	1	0	0		T	201184182	T	T	201184182	2	4	55	1	0	0	0	0	0	0	0	1	7606	871	31	1		1	IGFN1	1	201184182	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	807938	201184182	48066439	126	39160											
PKP1	5317	broad.mit.edu	37	chr1	201292264	201292264	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaagagcaagaaagatgctAccctggaggcctgtgctggt	11	7	14	9	0	0	3	0	0	0	3	0	4	0	4	2	3	4	4	2	3	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:201292264A>G	uc001gwd.2	+	10	1941	c.1690A>G	c.(1690-1692)ACC>GCC	p.T564A	PKP1_uc001gwe.2_Missense_Mutation_p.T543A|PKP1_uc009wzm.2_Missense_Mutation_p.T151A	NM_000299	NP_000290	Q13835	PKP1_HUMAN	plakophilin 1 isoform 1b	564	ARM 7.				cell adhesion|cellular component disassembly involved in apoptosis|multicellular organismal development	desmosome|intermediate filament|nucleus	intermediate filament binding|signal transducer activity|structural constituent of epidermis			ovary(2)	2						GAAAGATGCTACCCTGGAGGC	0.597													20	97					0	0	1	0	0		G	201292264	G	G	201292264	3	3	55	1	0	0	0	0	1	0	0	0	12003	391	14	3	1728	3	PKP1	1	201292264	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	108082	201292264	47958357	127	39161											
LMOD1	25802	broad.mit.edu	37	chr1	201868874	201868874	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagatgtgtcgctggttgtGgaagcggagctcggtcagcg	7	9	17	8	4	1	1	1	0	0	1	3	3	1	3	0	4	3	3	0	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:201868874G>T	uc001gxb.2	-	2	1515	c.1267C>A	c.(1267-1269)CAC>AAC	p.H423N	LMOD1_uc010ppu.1_Missense_Mutation_p.H372N	NM_012134	NP_036266	P29536	LMOD1_HUMAN	leiomodin 1 (smooth muscle)	423					muscle contraction	cytoskeleton|cytosol|membrane fraction	tropomyosin binding			ovary(1)|pancreas(1)|skin(1)	3						CGCTGGTTGTGGAAGCGGAGC	0.572													13	35					1.02788e-11	1.11439e-11	1	1	0		T	201868874	T	T	201868874	3	4	55	1	0	0	0	0	1	0	0	0	8873	1348	47	5	543	5	LMOD1	1	201868874	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	576610	201868874	47381747	128	39162											
ATP2B4	493	broad.mit.edu	37	chr1	203672793	203672793	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccagcaaagacccaagaCggagtggccctggaaatcca	14	4	10	13	1	0	2	0	0	0	2	2	4	2	4	4	3	1	1	4	3	3	0	rs145839216	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:203672793C>T	uc001gzw.2	+	8	1835	c.951C>T	c.(949-951)GAC>GAT	p.D317D	ATP2B4_uc001gzv.2_Silent_p.D317D|ATP2B4_uc009xaq.2_Silent_p.D317D	NM_001684	NP_001675	P23634	AT2B4_HUMAN	plasma membrane calcium ATPase 4 isoform 4b	317	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|skin(1)	3	all_cancers(21;0.071)|all_epithelial(62;0.228)		BRCA - Breast invasive adenocarcinoma(75;0.109)			AGACCCAAGACGGAGTGGCCC	0.522													31	112					0	0	1	0	0		T	203672793	T	T	203672793	2	4	55	1	0	0	0	0	0	0	0	1	1143	535	19	1		1	ATP2B4	1	203672793	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1803919	203672793	45577828	129	39163											
PIK3C2B	5287	broad.mit.edu	37	chr1	204438765	204438765	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcccagctgatgagagAggggtctgcgttctgcttgg	6	11	14	10	1	3	3	1	2	2	1	4	4	4	3	1	3	3	3	1	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:204438765A>G	uc001haw.2	-	3	645	c.166T>C	c.(166-168)TCT>CCT	p.S56P	PIK3C2B_uc010pqv.1_Missense_Mutation_p.S56P|PIK3C2B_uc001hax.1_Missense_Mutation_p.S56P|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	56	Interaction with GRB2.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			CTGATGAGAGAGGGGTCTGCG	0.592													14	33					0	0	1	0	0		G	204438765	G	G	204438765	3	3	55	1	0	0	0	0	1	0	0	0	11929	304	11	3	4866	3	PIK3C2B	1	204438765	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	765972	204438765	44811856	130	39164											
LRRN2	10446	broad.mit.edu	37	chr1	204588874	204588874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctcactctggtccacacGgacaatgctgttgctctgca	8	10	9	14	1	3	0	1	0	2	0	4	1	4	1	1	2	4	5	1	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:204588874G>A	uc001hbe.1	-	3	635	c.247C>T	c.(247-249)CGT>TGT	p.R83C	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Missense_Mutation_p.R83C|LRRN2_uc009xbf.1_Missense_Mutation_p.R83C|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	83	LRR 1.|Extracellular (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			TGGTCCACACGGACAATGCTG	0.597													19	47					0	0	1	0	0		A	204588874	A	A	204588874	3	1	55	1	0	0	0	0	1	0	0	0	9053	1116	39	1	1898	1	LRRN2	1	204588874	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	150109	204588874	44661747	131	39165											
NFASC	23114	broad.mit.edu	37	chr1	204951139	204951139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtccgtcatcggttactccGgagaagattgtgagtagtct	9	12	12	8	3	2	3	1	1	1	2	5	4	4	3	2	2	1	2	2	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:204951139G>A	uc001hbj.2	+	21	2789	c.2461G>A	c.(2461-2463)GGA>AGA	p.G821R	NFASC_uc010pra.1_Missense_Mutation_p.G817R|NFASC_uc001hbi.2_Missense_Mutation_p.G817R|NFASC_uc010prb.1_Missense_Mutation_p.G832R|NFASC_uc010prc.1_Missense_Mutation_p.G388R|NFASC_uc001hbk.1_Missense_Mutation_p.G627R|NFASC_uc001hbl.1_Missense_Mutation_p.G71R	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	821	Extracellular (Potential).				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			CGGTTACTCCGGAGAAGATTG	0.612													8	12					0	0	1	0	0		A	204951139	A	A	204951139	3	1	55	1	0	0	0	0	1	0	0	0	10378	1117	39	1	2619	1	NFASC	1	204951139	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	362265	204951139	44299482	132	39166											
TMCC2	9911	broad.mit.edu	37	chr1	205210873	205210873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggcccaccgccttcaacCgcgtgctgcagcagatccgc	6	5	10	20	5	1	1	1	0	0	1	2	1	2	1	6	1	4	3	6	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:205210873C>T	uc001hbz.1	+	3	892	c.448C>T	c.(448-450)CGC>TGC	p.R150C	TMCC2_uc010prf.1_Missense_Mutation_p.R72C	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	150						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CGCCTTCAACCGCGTGCTGCA	0.532													12	24					0	0	1	0	0		T	205210873	T	T	205210873	3	4	55	1	0	0	0	0	1	0	0	0	16018	652	23	1	454	1	TMCC2	1	205210873	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	259734	205210873	44039748	133	39167											
TMCC2	9911	broad.mit.edu	37	chr1	205211130	205211130	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctggccgacggcagcaaCgtgtacctcctggctgagga	7	7	14	13	3	0	1	0	1	0	0	1	3	1	2	3	4	4	5	3	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:205211130C>T	uc001hbz.1	+	3	1149	c.705C>T	c.(703-705)AAC>AAT	p.N235N	TMCC2_uc010prf.1_Silent_p.N157N	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	235				TALLLADGSNVYLLAEEAEGIGDK -> MNQVVQPLMSRHS ACRGSQAHLSW (in Ref. 6).		integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			ACGGCAGCAACGTGTACCTCC	0.677													6	35					0	0	1	0	0		T	205211130	T	T	205211130	2	4	55	1	0	0	0	0	0	0	0	1	16018	535	19	1		1	TMCC2	1	205211130	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	257	205211130	44039491	134	39168											
IL10	3586	broad.mit.edu	37	chr1	206943240	206943240	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacagggaagaaatcgatgCtgtggaagaaaagagaaagt	18	6	13	4	1	1	3	1	0	0	3	2	7	1	5	0	2	1	1	0	2	6	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:206943240C>T	uc001hen.1	-	4	438	c.379_splice	c.e4-1	p.H127_splice		NM_000572	NP_000563	P22301	IL10_HUMAN	interleukin 10 precursor						anti-apoptosis|B cell differentiation|B cell proliferation|cytoplasmic sequestering of NF-kappaB|inflammatory response|leukocyte chemotaxis|negative regulation of B cell proliferation|negative regulation of cytokine secretion involved in immune response|negative regulation of interferon-alpha biosynthetic process|negative regulation of interleukin-6 production|negative regulation of membrane protein ectodomain proteolysis|negative regulation of MHC class II biosynthetic process|negative regulation of T cell proliferation|positive regulation of B cell apoptosis|positive regulation of cytokine secretion|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|receptor biosynthetic process|regulation of isotype switching|response to glucocorticoid stimulus|type 2 immune response	extracellular space	cytokine activity|growth factor activity|interleukin-10 receptor binding				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.211)			GAAATCGATGCTGTGGAAGAA	0.498													3	32					0	0	1	0	0		T	206943240	T	T	206943240	5	4	55	1	0	0	0	0	0	0	1	0	7635	811	28	2	166	2	IL10	1	206943240	Splice_Site	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1732110	206943240	42307381	135	39169											
CR1	1378	broad.mit.edu	37	chr1	207739262	207739262	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatagcagtgttccagtgTgtgaacgtgagtaataggag	12	10	15	4	1	0	2	0	2	0	0	1	4	1	4	1	2	2	3	1	2	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:207739262T>C	uc001hfy.2	+	16	2736	c.2596T>C	c.(2596-2598)TGT>CGT	p.C866R	CR1_uc009xcl.1_Intron|CR1_uc001hfx.2_Missense_Mutation_p.C1316R|CR1_uc009xck.1_Intron	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	866	Extracellular (Potential).|Sushi 13.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TGTTCCAGTGTGTGAACGTGA	0.413													24	58					0	0	1	0	0		C	207739262	C	C	207739262	3	2	55	1	0	0	0	0	1	0	0	0	3843	1696	59	3	4040	3	CR1	1	207739262	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	796022	207739262	41511359	136	39170											
TRAF3IP3	80342	broad.mit.edu	37	chr1	209933542	209933543	+	Frame_Shift_Del	DEL	AG	-	-																															gaagacgctgaggatccaacAgagagagcagctccagagag																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:209933542_209933543delAG	uc001hho.2	+	3	448_449	c.158_159delAG	c.(157-159)CAGfs	p.Q53fs	TRAF3IP3_uc001hhl.2_Frame_Shift_Del_p.Q53fs|TRAF3IP3_uc001hhm.1_Frame_Shift_Del_p.Q53fs|TRAF3IP3_uc001hhn.2_Frame_Shift_Del_p.Q53fs|TRAF3IP3_uc009xcr.2_Frame_Shift_Del_p.Q53fs	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	53	Cytoplasmic (Potential).					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		AGGATCCAACAGAGAGAGCAGC	0.619													15	30	---	---	---	---						.	-	209933543	-	-	209933542	7	5	55	1	0	1	0	1	0	0	0	0	16468	188	7	0	160	0	TRAF3IP3	1	209933542	Frame_Shift_Del	DEL	AG	TCGA-BR-7851-01A-11D-2201-08	2194280	209933542	39317079	137	39171											
PTPN14	5784	broad.mit.edu	37	chr1	214557889	214557889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggggttggcctgtacgaggGcacgatgatcgcgctgtgcc	5	8	18	10	4	0	1	0	1	0	0	1	3	0	1	2	4	2	4	2	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:214557889G>A	uc001hkk.1	-	13	1580	c.1309C>T	c.(1309-1311)CCC>TCC	p.P437S	PTPN14_uc010pty.1_Missense_Mutation_p.P338S	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	437					lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		CTGTACGAGGGCACGATGATC	0.587													11	225					0	0	1	0	0		A	214557889	A	A	214557889	3	1	55	1	0	0	0	0	1	0	0	0	12806	1203	42	2	2282	2	PTPN14	1	214557889	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4624347	214557889	34692732	138	39172											
USH2A	7399	broad.mit.edu	37	chr1	216073455	216073455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggaatccaagaactatgtGcactgccaaatccattggag	14	9	9	9	0	0	1	0	0	0	1	2	3	2	3	3	2	3	1	3	2	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:216073455G>A	uc001hku.1	-	40	7943	c.7556C>T	c.(7555-7557)GCA>GTA	p.A2519V		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2519	Extracellular (Potential).|Fibronectin type-III 11.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AGAACTATGTGCACTGCCAAA	0.428										HNSCC(13;0.011)			18	56					0	0	1	0	0		A	216073455	A	A	216073455	3	1	55	1	0	0	0	0	1	0	0	0	17062	1319	46	2	8184	2	USH2A	1	216073455	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1515566	216073455	33177166	139	39173											
USH2A	7399	broad.mit.edu	37	chr1	216258044	216258044	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttagagcattacctgcTcctaggaactgagctccctc	8	14	7	12	0	0	2	0	1	0	1	3	3	2	3	3	1	5	3	3	1	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:216258044T>G	uc001hku.1	-	25	5550	c.5163A>C	c.(5161-5163)GGA>GGC	p.G1721G		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1721	Laminin G-like 2.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CATTACCTGCTCCTAGGAACT	0.398										HNSCC(13;0.011)			15	41					0	0	1	0	0		G	216258044	G	G	216258044	2	3	55	1	0	0	0	0	0	0	0	1	17062	1538	54	5		5	USH2A	1	216258044	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	184589	216258044	32992577	140	39174											
TP53BP2	7159	broad.mit.edu	37	chr1	223976852	223976852	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacttggacgttgttacaTgaggcagcacaatgtaatgg	12	10	11	8	1	0	1	0	1	0	0	0	2	0	2	0	3	2	5	0	3	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:223976852T>C	uc010pvb.1	-	16	3313	c.3021A>G	c.(3019-3021)TCA>TCG	p.S1007S	TP53BP2_uc001hod.2_Silent_p.S878S|TP53BP2_uc010puz.1_Silent_p.S240S|TP53BP2_uc010pva.1_Silent_p.S646S	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	1001	ANK 2.|Mediates interaction with APC2.				apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		CGTTGTTACATGAGGCAGCAC	0.463													24	50					0	0	1	0	0		C	223976852	C	C	223976852	2	2	55	1	0	0	0	0	0	0	0	1	16410	1451	51	3		3	TP53BP2	1	223976852	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	7718808	223976852	25273769	141	39175											
TMEM63A	9725	broad.mit.edu	37	chr1	226053631	226053631	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtctccttcctggcatCtctggggagtcctgtgatga	6	12	11	12	0	2	2	0	2	2	0	6	3	4	3	3	3	0	1	3	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:226053631C>A	uc001hpm.1	-	10	962	c.712G>T	c.(712-714)GAT>TAT	p.D238Y		NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	238						integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					TTCCTGGCATCTCTGGGGAGT	0.617													12	24					1.15088e-07	1.22574e-07	1	1	0		A	226053631	A	A	226053631	3	1	55	1	0	0	0	0	1	0	0	0	16215	913	32	5	1771	5	TMEM63A	1	226053631	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2076779	226053631	23196990	142	39176											
CDC42BPA	8476	broad.mit.edu	37	chr1	227259997	227259997	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttctctgaatcttttagTttacttaaataaggagaaaa	14	17	5	5	0	3	2	0	1	3	1	4	3	3	2	0	1	1	1	0	1	8	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:227259997T>C	uc001hqr.2	-	20	3682	c.2739A>G	c.(2737-2739)AAA>AAG	p.K913K	CDC42BPA_uc001hqq.2_Silent_p.K177K|CDC42BPA_uc001hqs.2_Silent_p.K832K|CDC42BPA_uc009xes.2_Silent_p.K913K|CDC42BPA_uc010pvs.1_Silent_p.K913K|CDC42BPA_uc001hqp.2_Silent_p.K69K|CDC42BPA_uc001hqu.1_Silent_p.K69K	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	913	Potential.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				AATCTTTTAGTTTACTTAAAT	0.353													5	22					0	0	1	0	0		C	227259997	C	C	227259997	2	2	55	1	0	0	0	0	0	0	0	1	3075	1722	60	3		3	CDC42BPA	1	227259997	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1206366	227259997	21990624	143	39177											
SNAP47	116841	broad.mit.edu	37	chr1	227923089	227923089	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttctgccccgccagcgcCtggggctccgggcctgcacg	2	7	14	18	5	1	0	0	0	1	0	2	0	2	0	6	3	3	3	6	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:227923089C>A	uc001hrf.2	+	1	393	c.-21C>A	c.(-23--19)GCCTG>GCATG		SNAP47_uc001hqz.2_Intron|SNAP47_uc001hra.2_Intron|SNAP47_uc001hrd.2_Translation_Start_Site|SNAP47_uc001hre.2_Translation_Start_Site|JMJD4_uc001hrc.2_Missense_Mutation_p.Q8H|JMJD4_uc001hrb.2_Missense_Mutation_p.Q8H	NM_053052	NP_444280	Q5SQN1	SNP47_HUMAN	synaptosomal-associated protein, 47kDa							endomembrane system|membrane|perinuclear region of cytoplasm				ovary(1)	1						CCGCCAGCGCCTGGGGCTCCG	0.736													3	14					2.56e-06	2.69701e-06	1	1	0		A	227923089	A	A	227923089	1	1	55	1	0	0	0	0	0	0	0	0	14857	680	24	5		5	SNAP47	1	227923089	Translation_Start_Site	SNP	C	TCGA-BR-7851-01A-11D-2201-08	663092	227923089	21327532	144	39178											
OBSCN	84033	broad.mit.edu	37	chr1	228475489	228475489	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgtcatctgtggctgcGcccgtgaagtggtgctatgg	4	12	16	9	2	2	1	1	1	1	0	2	1	2	1	1	3	3	3	1	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:228475489G>A	uc009xez.1	+	36	9683	c.9639G>A	c.(9637-9639)GCG>GCA	p.A3213A	OBSCN_uc001hsn.2_Silent_p.A3213A|OBSCN_uc001hsq.1_Silent_p.A469A	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3213	Ig-like 32.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CTGTGGCTGCGCCCGTGAAGT	0.637													11	18					0	0	1	0	0		A	228475489	A	A	228475489	2	1	55	1	0	0	0	0	0	0	0	1	10831	1074	38	1		1	OBSCN	1	228475489	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	552400	228475489	20775132	145	39179											
OBSCN	84033	broad.mit.edu	37	chr1	228494839	228494839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtgtgacacgggccacaCgcagagcatggccagcctct	9	5	12	15	3	1	2	0	1	1	1	1	2	1	2	3	2	2	2	3	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:228494839C>T	uc009xez.1	+	45	12208	c.12164C>T	c.(12163-12165)ACG>ATG	p.T4055M	OBSCN_uc001hsn.2_Missense_Mutation_p.T4055M	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4055	Ig-like 41.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				ACGGGCCACACGCAGAGCATG	0.632													19	54					0	0	1	0	0		T	228494839	T	T	228494839	3	4	55	1	0	0	0	0	1	0	0	0	10831	536	19	1	12338	1	OBSCN	1	228494839	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	19350	228494839	20755782	146	39180											
OBSCN	84033	broad.mit.edu	37	chr1	228538597	228538597	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttgtggagggagaggaCgcccagttcacctgcaccat	8	8	12	13	1	1	1	1	0	0	1	1	4	1	3	4	3	1	2	4	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:228538597C>T	uc009xez.1	+	77	18416	c.18372C>T	c.(18370-18372)GAC>GAT	p.D6124D	OBSCN_uc001hsn.2_Silent_p.D6124D|OBSCN_uc001hsr.1_Silent_p.D753D|OBSCN_uc009xfa.2_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	6124	Ig-like 53.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGGGAGAGGACGCCCAGTTCA	0.592													11	34					0	0	1	0	0		T	228538597	T	T	228538597	2	4	55	1	0	0	0	0	0	0	0	1	10831	535	19	1		1	OBSCN	1	228538597	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	43758	228538597	20712024	147	39181											
GALNT2	2590	broad.mit.edu	37	chr1	230391063	230391063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcacccctacacgttccCgggtggcagtggcactgtct	6	8	12	15	2	1	0	0	0	1	0	2	0	2	0	3	3	2	5	3	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:230391063C>T	uc010pwa.1	+	11	1181	c.1109C>T	c.(1108-1110)CCG>CTG	p.P370L	GALNT2_uc010pvy.1_Missense_Mutation_p.P332L|GALNT2_uc010pvz.1_RNA	NM_004481	NP_004472	Q10471	GALT2_HUMAN	polypeptide N-acetylgalactosaminyltransferase 2	370	Lumenal (Potential).				immunoglobulin biosynthetic process|protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2	Breast(184;0.193)|Ovarian(103;0.249)	all_cancers(173;0.156)|Prostate(94;0.179)				TACACGTTCCCGGGTGGCAGT	0.597													23	64					0	0	1	0	0		T	230391063	T	T	230391063	3	4	55	1	0	0	0	0	1	0	0	0	6228	652	23	1	1151	1	GALNT2	1	230391063	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1852466	230391063	18859558	148	39182											
PGBD5	79605	broad.mit.edu	37	chr1	230492718	230492718	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggaccttgtagagcccGtgcgtggtctggctggagcg	4	9	18	10	3	1	1	0	0	1	1	1	3	1	3	2	5	3	3	2	5	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:230492718G>A	uc010pwb.1	-	2	474	c.474C>T	c.(472-474)CAC>CAT	p.H158H	PGBD5_uc001htv.2_Silent_p.H257H	NM_024554	NP_078830	Q8N414	PGBD5_HUMAN	piggyBac transposable element derived 5	158						integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(184;0.0397)	Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;0.201)		TGTAGAGCCCGTGCGTGGTCT	0.622													10	37					0	0	1	0	0		A	230492718	A	A	230492718	2	1	55	1	0	0	0	0	0	0	0	1	11803	1136	40	1		1	PGBD5	1	230492718	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	101655	230492718	18757903	149	39183											
TRIM67	440730	broad.mit.edu	37	chr1	231337127	231337127	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagatgctctgatcaagcgCgtccaggtgtctcaggagca	9	9	12	11	2	4	2	3	1	2	1	6	3	5	3	1	2	3	2	1	2	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:231337127C>T	uc009xfn.1	+	5	1440	c.1398C>T	c.(1396-1398)CGC>CGT	p.R466R		NM_001004342	NP_001004342	Q6ZTA4	TRI67_HUMAN	tripartite motif-containing 67	466	COS.					cytoplasm|cytoskeleton	zinc ion binding			ovary(2)|breast(1)|kidney(1)	4	Breast(184;0.0871)	all_cancers(173;0.189)|Prostate(94;0.167)				TGATCAAGCGCGTCCAGGTGT	0.537													3	6					0	0	1	0	0		T	231337127	T	T	231337127	2	4	55	1	0	0	0	0	0	0	0	1	16566	755	27	1		1	TRIM67	1	231337127	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	844409	231337127	17913494	150	39184											
KIAA1383	54627	broad.mit.edu	37	chr1	232942219	232942219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcttctcctgaaaaaaagCgtgtaaatcccccagcacac	14	8	6	13	1	1	1	0	1	1	0	3	1	2	1	3	0	3	3	3	0	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:232942219C>T	uc001hvh.2	+	1	1582	c.1450C>T	c.(1450-1452)CGT>TGT	p.R484C		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	342										ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				TGAAAAAAAGCGTGTAAATCC	0.453													10	17					0	0	1	0	0		T	232942219	T	T	232942219	3	4	55	1	0	0	0	0	1	0	0	0	8244	768	27	1	1452	1	KIAA1383	1	232942219	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1605092	232942219	16308402	151	39185											
C1orf57	84284	broad.mit.edu	37	chr1	233091397	233091397	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tataccgaagaagtcagacaGggagggagaagaataggatt	17	6	14	4	1	1	4	1	0	0	4	1	8	1	6	1	3	1	0	1	3	7	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:233091397G>A	uc001hvj.1	+	2	216	c.129G>A	c.(127-129)CAG>CAA	p.Q43Q	C1orf57_uc001hvi.2_Silent_p.Q43Q|C1orf57_uc009xft.1_Intron	NM_032324	NP_115700	Q9BSD7	NTPCR_HUMAN	nucleoside-triphosphatase C1orf57	43							ATP binding|nucleoside-triphosphatase activity|nucleotide phosphatase activity|transferase activity				0		all_cancers(173;0.0818)|Prostate(94;0.137)				AAGTCAGACAGGGAGGGAGAA	0.438													10	39					0	0	1	0	0		A	233091397	A	A	233091397	2	1	55	1	0	0	0	0	0	0	0	1	2052	991	35	4		4	C1orf57	1	233091397	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	149178	233091397	16159224	152	39186											
KIAA1804	84451	broad.mit.edu	37	chr1	233518334	233518334	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaactaaatcccatgtGccttcattactggatgctga	12	11	9	9	0	1	2	1	1	0	1	2	5	2	3	2	1	4	1	2	1	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:233518334G>T	uc001hvt.3	+	10	3249	c.2988G>T	c.(2986-2988)GTG>GTT	p.V996V	KIAA1804_uc001hvu.3_Silent_p.V442V	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	996					activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				AATCCCATGTGCCTTCATTAC	0.542													28	43					1.39649e-27	1.55937e-27	1	1	0		T	233518334	T	T	233518334	2	4	55	1	0	0	0	0	0	0	0	1	8275	1306	46	5		5	KIAA1804	1	233518334	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	426937	233518334	15732287	153	39187											
LYST	1130	broad.mit.edu	37	chr1	235973208	235973208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactcgactctccaagttgtCgctcagactgcagcagtccc	8	10	8	15	2	2	1	1	0	1	1	6	2	3	1	2	0	3	4	2	0	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:235973208C>T	uc001hxj.2	-	5	1085	c.910G>A	c.(910-912)GAC>AAC	p.D304N	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Missense_Mutation_p.D304N	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	304					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TCCAAGTTGTCGCTCAGACTG	0.478									Chediak-Higashi_syndrome				7	16					0	0	1	0	0		T	235973208	T	T	235973208	3	4	55	1	0	0	0	0	1	0	0	0	9146	884	31	1	10691	1	LYST	1	235973208	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2454874	235973208	13277413	154	39188											
GPR137B	7107	broad.mit.edu	37	chr1	236306034	236306034	+	Frame_Shift_Del	DEL	C	-	-																															ccacgctgaccccggccgtgCccccctacgtgaagcttggc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:236306034delC	uc001hxq.2	+	1	203	c.112delC	c.(112-114)CCCfs	p.P38fs		NM_003272	NP_003263	O60478	G137B_HUMAN	G protein-coupled receptor 137B	38	Extracellular (Potential).					integral to plasma membrane|membrane fraction					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.197)|Prostate(94;0.219)|Acute lymphoblastic leukemia(190;0.226)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			CCCGGCCGTGCCCCCCTACGT	0.567													6	9	---	---	---	---						.	-	236306034	-	-	236306034	7	5	55	1	0	1	0	1	0	0	0	0	6661	739	26	0	114	0	GPR137B	1	236306034	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	332826	236306034	12944587	155	39189											
HEATR1	55127	broad.mit.edu	37	chr1	236740202	236740202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acactgaatggcagccctacGaacttcttttacggggcttc	9	11	9	12	2	1	1	0	1	1	0	2	2	1	1	1	3	4	2	1	3	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:236740202G>A	uc001hyd.1	-	21	2928	c.2803C>T	c.(2803-2805)CGT>TGT	p.R935C	HEATR1_uc009xgh.1_Missense_Mutation_p.R178C	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	935					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			GCAGCCCTACGAACTTCTTTT	0.388													9	50					0	0	1	0	0		A	236740202	A	A	236740202	3	1	55	1	0	0	0	0	1	0	0	0	7043	1058	37	1	3731	1	HEATR1	1	236740202	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	434168	236740202	12510419	156	39190											
ACTN2	88	broad.mit.edu	37	chr1	236899013	236899013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccacgcttttgcgggcgCggagcaggtactcaacactt	8	9	11	13	4	1	0	1	0	0	0	1	1	1	1	1	3	5	3	1	3	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:236899013C>T	uc001hyf.2	+	8	980	c.776C>T	c.(775-777)GCG>GTG	p.A259V	ACTN2_uc001hyg.2_Missense_Mutation_p.A14V|ACTN2_uc009xgi.1_Intron|ACTN2_uc010pxu.1_Intron	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	259					focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			TTTGCGGGCGCGGAGCAGGTA	0.498													7	30					0	0	1	0	0		T	236899013	T	T	236899013	3	4	55	1	0	0	0	0	1	0	0	0	205	768	27	1	806	1	ACTN2	1	236899013	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	158811	236899013	12351608	157	39191											
ACTN2	88	broad.mit.edu	37	chr1	236902618	236902618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcttttggaatggattcGtcgcacgatcccctggctgg	6	11	13	11	3	0	0	0	0	0	0	3	3	1	2	2	4	1	4	2	4	1	3	rs142482143	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:236902618G>A	uc001hyf.2	+	10	1097	c.893G>A	c.(892-894)CGT>CAT	p.R298H	ACTN2_uc001hyg.2_Missense_Mutation_p.R90H|ACTN2_uc009xgi.1_Missense_Mutation_p.R298H|ACTN2_uc010pxu.1_Intron|ACTN2_uc001hyh.2_5'UTR	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	298	Spectrin 1.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GAATGGATTCGTCGCACGATC	0.517													6	158					0	0	1	0	0		A	236902618	A	A	236902618	3	1	55	1	0	0	0	0	1	0	0	0	205	1145	40	1	931	1	ACTN2	1	236902618	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3605	236902618	12348003	158	39192											
OPN3	23596	broad.mit.edu	37	chr1	241803320	241803320	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctgaggctgatgttgaccagGaggaggtgagtgggagtgcg	8	8	20	5	1	0	4	0	4	0	0	0	7	0	7	1	5	1	2	1	5	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:241803320G>C	uc001hza.2	-	1	382	c.237C>G	c.(235-237)CTC>CTG	p.L79L	OPN3_uc001hzb.2_RNA|OPN3_uc001hzc.2_RNA	NM_014322	NP_055137	Q9H1Y3	OPN3_HUMAN	opsin 3	79	Helical; Name=2; (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|visual perception	integral to plasma membrane	G-protein coupled photoreceptor activity				0	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			TGTTGACCAGGAGGAGGTGAG	0.627													10	19					0	0	1	0	0		C	241803320	C	C	241803320	2	2	55	1	0	0	0	0	0	0	0	1	10900	1161	41	5		5	OPN3	1	241803320	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4900702	241803320	7447301	159	39193											
OR2M5	127059	broad.mit.edu	37	chr1	248309326	248309326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccctcatctacagcctcCgcaacaaggaggtgaccaga	12	6	8	15	1	2	2	1	1	1	1	4	3	4	3	5	2	3	1	5	2	3	1	rs150445512	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:248309326C>T	uc010pze.1	+	1	877	c.877C>T	c.(877-879)CGC>TGC	p.R293C		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	293	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			CTACAGCCTCCGCAACAAGGA	0.493													24	54					0	0	1	0	0		T	248309326	T	T	248309326	3	4	55	1	0	0	0	0	1	0	0	0	11032	652	23	1	879	1	OR2M5	1	248309326	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6506006	248309326	941295	160	39194											
OR2T33	391195	broad.mit.edu	37	chr1	248436402	248436402	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagccacatgtgaagagcAggtggcaaaggccttcttgc	11	7	12	11	0	1	2	0	1	1	1	1	2	1	2	2	3	3	2	2	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:248436402A>T	uc010pzi.1	-	1	715	c.715T>A	c.(715-717)TGC>AGC	p.C239S		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	239	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TGTGAAGAGCAGGTGGCAAAG	0.517													6	22					0	0	1	0	0		T	248436402	T	T	248436402	3	4	55	1	0	0	0	0	1	0	0	0	11043	188	7	5	250	5	OR2T33	1	248436402	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	127076	248436402	814219	161	39195											
SH3BP5L	80851	broad.mit.edu	37	chr1	249106454	249106454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggggaggcagacccccgCggcgccgtgcgtgaatctgc	5	5	18	13	5	1	2	0	1	1	1	1	3	1	3	3	5	2	1	3	5	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr1:249106454C>T	uc001iew.1	-	7	1379	c.827G>A	c.(826-828)CGC>CAC	p.R276H	SH3BP5L_uc010pzp.1_Missense_Mutation_p.R169H|SH3BP5L_uc010pzq.1_Missense_Mutation_p.R244H|SH3BP5L_uc001iev.1_Missense_Mutation_p.R157H	NM_030645	NP_085148	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	276											0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			CAGACCCCCGCGGCGCCGTGC	0.687													8	34					0	0	1	0	0		T	249106454	T	T	249106454	3	4	55	1	0	0	0	0	1	0	0	0	14273	768	27	1	358	1	SH3BP5L	1	249106454	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	670052	249106454	144167	162	39196											
PXDN	7837	broad.mit.edu	37	chr2	1639246	1639246	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggcgtgagattcgcccccGgcatccacgcactctgtggt	5	10	12	14	4	1	1	0	1	1	1	3	2	2	1	3	3	0	2	3	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:1639246G>A	uc002qxa.2	-	22	4318	c.4254C>T	c.(4252-4254)GCC>GCT	p.A1418A		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1418	VWFC.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		ATTCGCCCCCGGCATCCACGC	0.468													3	5					0	0	1	0	0		A	1639246	A	A	1639246	2	1	55	1	0	0	0	0	0	0	0	1	12872	1103	39	1		1	PXDN	2	1639246	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08		1639246	241560127	163	39197											
TSSC1	7260	broad.mit.edu	37	chr2	3196254	3196254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagtggccgaagggctccGacgagatggacaccatgttg	10	6	14	11	3	0	1	0	0	0	1	1	5	1	2	4	3	0	2	4	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:3196254G>A	uc002qxj.2	-	8	1113	c.920C>T	c.(919-921)TCG>TTG	p.S307L	TSSC1_uc002qxi.2_RNA	NM_003310	NP_003301	Q53HC9	TSSC1_HUMAN	tumor suppressing subtransferable candidate 1	307	WD 4.						protein binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.212)		OV - Ovarian serous cystadenocarcinoma(76;0.00877)|Epithelial(75;0.0283)|all cancers(51;0.0464)		GAAGGGCTCCGACGAGATGGA	0.577													13	48					0	0	1	0	0		A	3196254	A	A	3196254	3	1	55	1	0	0	0	0	1	0	0	0	16692	1059	37	1	251	1	TSSC1	2	3196254	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1557008	3196254	240003119	164	39198											
ASAP2	8853	broad.mit.edu	37	chr2	9463332	9463332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taagcggagcggaaattgccGaagagatggaaaaggagagg	16	4	17	4	3	0	2	0	0	0	2	0	8	0	5	1	5	3	0	1	5	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:9463332G>A	uc002qzh.2	+	6	893	c.553G>A	c.(553-555)GAA>AAA	p.E185K	ASAP2_uc002qzi.2_Missense_Mutation_p.E185K	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	185					regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						GGAAATTGCCGAAGAGATGGA	0.537													20	109					0	0	1	0	0		A	9463332	A	A	9463332	3	1	55	1	0	0	0	0	1	0	0	0	1012	1059	37	1	575	1	ASAP2	2	9463332	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6267078	9463332	233736041	165	39199											
CPSF3	51692	broad.mit.edu	37	chr2	9581993	9581993	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccagtgttgtaatggcctCcccaggcatgatgcaaagtg	9	10	11	11	0	0	1	0	1	0	0	2	1	2	1	4	2	1	4	4	2	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:9581993C>A	uc002qzo.1	+	9	1018	c.983C>A	c.(982-984)TCC>TAC	p.S328Y	CPSF3_uc010ewx.1_Missense_Mutation_p.S328Y|CPSF3_uc002qzp.1_Missense_Mutation_p.S291Y	NM_016207	NP_057291	Q9UKF6	CPSF3_HUMAN	cleavage and polyadenylation specific factor 3,	328					histone mRNA 3'-end processing|mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex|ribonucleoprotein complex	5'-3' exonuclease activity|endoribonuclease activity|metal ion binding|protein binding|RNA binding			breast(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;2.39e-25)|all_epithelial(98;8.75e-19)|Lung NSC(108;2.38e-06)|Ovarian(717;0.0308)		all cancers(51;2.2e-40)|Epithelial(75;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(76;4.35e-21)|STAD - Stomach adenocarcinoma(1183;0.00644)		GTAATGGCCTCCCCAGGCATG	0.433													9	45					7.48243e-07	7.92576e-07	1	1	0		A	9581993	A	A	9581993	3	1	55	1	0	0	0	0	1	0	0	0	3829	855	30	5	1017	5	CPSF3	2	9581993	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	118661	9581993	233617380	166	39200											
NBAS	51594	broad.mit.edu	37	chr2	15694199	15694199	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttaccttgcaagtaccaaAtgccagtttatctgtttatt	10	16	5	10	0	1	0	0	0	1	0	1	0	1	0	4	0	4	4	4	0	6	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:15694199A>G	uc002rcc.1	-	4	299	c.273T>C	c.(271-273)CAT>CAC	p.H91H	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	91										ovary(2)|liver(1)|skin(1)	4						CAAGTACCAAATGCCAGTTTA	0.373													3	25					0	0	1	0	0		G	15694199	G	G	15694199	2	3	55	1	0	0	0	0	0	0	0	1	10204	98	4	3		3	NBAS	2	15694199	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	6112206	15694199	227505174	167	39201											
SMC6	79677	broad.mit.edu	37	chr2	17877642	17877642	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtttttcttcataatgtcGtttccctcgtttttggttat	4	24	6	7	2	2	0	1	0	1	0	5	0	3	0	1	1	0	4	1	1	2	9			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:17877642G>A	uc002rco.2	-	22	2742	c.2446C>T	c.(2446-2448)CGA>TGA	p.R816*	SMC6_uc010exo.2_Nonsense_Mutation_p.R816*|SMC6_uc002rcn.2_Nonsense_Mutation_p.R816*|SMC6_uc002rcp.1_Nonsense_Mutation_p.R842*	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	816	Potential.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TCATAATGTCGTTTCCCTCGT	0.318													9	17					0	0	1	0	0		A	17877642	A	A	17877642	4	1	55	1	0	0	0	0	0	1	0	0	14812	1153	40	1	857	1	SMC6	2	17877642	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2183443	17877642	225321731	168	39202											
GEN1	348654	broad.mit.edu	37	chr2	17946245	17946245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatgtgtgcttatctcaatGctggtggtcatgtcgatggc	6	14	12	9	1	2	0	2	0	1	0	4	1	2	0	1	3	2	2	1	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:17946245G>A	uc002rct.2	+	4	503	c.430G>A	c.(430-432)GCT>ACT	p.A144T	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Missense_Mutation_p.A144T|GEN1_uc002rcu.2_Missense_Mutation_p.A144T	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease	144	I-domain.				DNA repair	nucleus	DNA binding|endonuclease activity|metal ion binding			breast(5)|kidney(1)|central_nervous_system(1)|skin(1)	8	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTATCTCAATGCTGGTGGTCA	0.473								Homologous_recombination					14	53					0	0	1	0	0		A	17946245	A	A	17946245	3	1	55	1	0	0	0	0	1	0	0	0	6350	1319	46	2	440	2	GEN1	2	17946245	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	68603	17946245	225253128	169	39203											
SDC1	6382	broad.mit.edu	37	chr2	20402653	20402653	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacagcatgaaacccaccagGcacacagcaaagatgagccc	16	3	8	14	0	0	3	0	2	0	1	0	3	0	3	3	1	5	3	3	1	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:20402653G>A	uc002rdo.1	-	5	1106	c.807C>T	c.(805-807)TGC>TGT	p.C269C	SDC1_uc002rdp.1_Silent_p.C269C|SDC1_uc010exv.2_Intron	NM_002997	NP_002988	P18827	SDC1_HUMAN	syndecan 1 precursor	269	Helical; (Potential).				lipid metabolic process|lipoprotein metabolic process|myoblast development|striated muscle cell development	cytoplasm|extracellular region|focal adhesion|integral to plasma membrane	cytoskeletal protein binding|protein C-terminus binding			ovary(4)|skin(1)	5	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)			OV - Ovarian serous cystadenocarcinoma(76;0.221)		AACCCACCAGGCACACAGCAA	0.617													8	203					0	0	1	0	0		A	20402653	A	A	20402653	2	1	55	1	0	0	0	0	0	0	0	1	13976	1195	42	2		2	SDC1	2	20402653	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2456408	20402653	222796720	170	39204											
APOB	338	broad.mit.edu	37	chr2	21227276	21227276	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtagcgcagatggagatcGgtgaacgctgggcttttgat	8	11	16	6	3	0	4	0	2	0	2	1	5	0	4	0	4	2	4	0	4	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:21227276G>A	uc002red.2	-	28	12080	c.11952C>T	c.(11950-11952)ACC>ACT	p.T3984T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3984					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GATGGAGATCGGTGAACGCTG	0.512													13	51					0	0	1	0	0		A	21227276	A	A	21227276	2	1	55	1	0	0	0	0	0	0	0	1	785	1103	39	1		1	APOB	2	21227276	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	824623	21227276	221972097	171	39205											
APOB	338	broad.mit.edu	37	chr2	21260067	21260067	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcagtggatatttctgttgCcacattgcccttcctcgtct	5	17	7	12	1	3	0	1	0	2	0	5	1	4	1	3	1	2	1	3	1	1	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:21260067C>A	uc002red.2	-	6	726	c.598G>T	c.(598-600)GCA>TCA	p.A200S		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	200	Vitellogenin.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ATTTCTGTTGCCACATTGCCC	0.502													6	31					0.00116845	0.00119855	1	1	0		A	21260067	A	A	21260067	3	1	55	1	0	0	0	0	1	0	0	0	785	739	26	5	13189	5	APOB	2	21260067	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	32791	21260067	221939306	172	39206											
DPYSL5	56896	broad.mit.edu	37	chr2	27164917	27164917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaagggccgcattattcccGgagccgatgctgatgtggtg	7	9	15	10	3	0	1	0	1	0	0	1	3	1	2	3	3	2	3	3	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:27164917G>A	uc002rhu.3	+	10	1347	c.1189G>A	c.(1189-1191)GGA>AGA	p.G397R	DPYSL5_uc002rhv.3_Missense_Mutation_p.G397R	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	397					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CATTATTCCCGGAGCCGATGC	0.532											OREG0014510	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	70					0	0	1	0	0		A	27164917	A	A	27164917	3	1	55	1	0	0	0	0	1	0	0	0	4756	1117	39	1	1223	1	DPYSL5	2	27164917	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5904850	27164917	216034456	173	39207											
TMEM214	54867	broad.mit.edu	37	chr2	27263303	27263303	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagaatgtgctgctgccaCtgtggcacctcttgcttgag	7	11	11	12	0	1	2	0	1	1	1	1	2	1	2	3	1	4	4	3	1	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:27263303C>T	uc002ria.3	+	16	1992	c.1882C>T	c.(1882-1884)CTG>TTG	p.L628L	TMEM214_uc010yle.1_RNA|TMEM214_uc002rib.3_Silent_p.L583L	NM_017727	NP_060197	Q6NUQ4	TM214_HUMAN	transmembrane protein 214 isoform 1	628	Helical; (Potential).					integral to membrane	protein binding				0						GCTGCTGCCACTGTGGCACCT	0.612													17	48					0	0	1	0	0		T	27263303	T	T	27263303	2	4	55	1	0	0	0	0	0	0	0	1	16162	564	20	4		4	TMEM214	2	27263303	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	98386	27263303	215936070	174	39208											
KHK	3795	broad.mit.edu	37	chr2	27317386	27317386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgctattctgtggacctacGctacacagtctttcagacca	9	11	7	14	2	3	1	1	0	2	1	3	2	3	2	3	1	2	2	3	1	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:27317386G>A	uc002ril.2	+	3	768	c.251G>A	c.(250-252)CGC>CAC	p.R84H	KHK_uc002rim.2_Intron|KHK_uc002rin.2_Missense_Mutation_p.R85H|KHK_uc002rio.2_Intron	NM_000221	NP_000212	P50053	KHK_HUMAN	ketohexokinase isoform a	84					fructose catabolic process	cytosol	ATP binding|ketohexokinase activity|protein binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGGACCTACGCTACACAGTC	0.562													30	96					0	0	1	0	0		A	27317386	A	A	27317386	3	1	55	1	0	0	0	0	1	0	0	0	8165	1087	38	1	261	1	KHK	2	27317386	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	54083	27317386	215881987	175	39209											
SLC5A6	8884	broad.mit.edu	37	chr2	27430334	27430334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcccattttgcggtccGccatcagcagctcaccaaca	9	7	9	16	2	2	0	2	0	0	0	3	0	3	0	4	2	5	3	4	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:27430334G>A	uc002rjd.2	-	3	576	c.185C>T	c.(184-186)GCG>GTG	p.A62V	SLC5A6_uc010eyv.1_Missense_Mutation_p.A62V|SLC5A6_uc002rje.1_Missense_Mutation_p.A62V	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	62					biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	TTTGCGGTCCGCCATCAGCAG	0.597													13	33					0	0	1	0	0		A	27430334	A	A	27430334	3	1	55	1	0	0	0	0	1	0	0	0	14694	1087	38	1	1782	1	SLC5A6	2	27430334	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	112948	27430334	215769039	176	39210											
DNAJC5G	285126	broad.mit.edu	37	chr2	27500791	27500791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaagaagcggaaaatttacGaccagcatggctcattggga	14	8	11	8	2	1	1	1	0	0	1	1	4	1	3	1	3	3	2	1	3	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:27500791G>A	uc002rjl.1	+	4	701	c.283G>A	c.(283-285)GAC>AAC	p.D95N	SLC30A3_uc010ylh.1_5'Flank|DNAJC5G_uc010yli.1_Intron|DNAJC5G_uc002rjm.1_Missense_Mutation_p.D95N	NM_173650	NP_775921	Q8N7S2	DNJ5G_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	95	J.				protein folding	membrane	heat shock protein binding|unfolded protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAAAATTTACGACCAGCATGG	0.418													10	26					0	0	1	0	0		A	27500791	A	A	27500791	3	1	55	1	0	0	0	0	1	0	0	0	4658	1058	37	1	289	1	DNAJC5G	2	27500791	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	70457	27500791	215698582	177	39211											
PLB1	151056	broad.mit.edu	37	chr2	28815550	28815550	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccctgagacctgcagaCatccaagttgtggctgctct	8	10	10	13	0	1	2	0	1	1	2	2	3	2	2	3	1	3	4	3	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:28815550C>T	uc002rmb.1	+	32	2211	c.2211C>T	c.(2209-2211)GAC>GAT	p.D737D	PLB1_uc010ezj.1_Silent_p.D726D|PLB1_uc002rmc.2_Silent_p.D425D|PLB1_uc002rmd.1_Silent_p.D247D	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	737	4 X 308-326 AA approximate repeats.|Extracellular (Potential).|3.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					GACCTGCAGACATCCAAGTTG	0.562													4	97					0	0	1	0	0		T	28815550	T	T	28815550	2	4	55	1	0	0	0	0	0	0	0	1	12043	477	17	4		4	PLB1	2	28815550	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1314759	28815550	214383823	178	39212											
ALK	238	broad.mit.edu	37	chr2	29416300	29416300	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaggagcagtgaggccccCggaagtctcccagttgcaac	9	7	12	13	1	2	1	0	1	2	0	3	3	2	3	3	3	3	3	3	3	3	2	rs35500880		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:29416300C>T	uc002rmy.2	-	29	5560	c.4653G>A	c.(4651-4653)CCG>CCA	p.P1551P	ALK_uc010ymo.1_Silent_p.P483P	NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	1551	Cytoplasmic (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	GTGAGGCCCCCGGAAGTCTCC	0.537			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				8	218					0	0	1	0	0		T	29416300	T	T	29416300	2	4	55	1	0	0	0	0	0	0	0	1	525	639	23	1		1	ALK	2	29416300	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	600750	29416300	213783073	179	39213											
LCLAT1	253558	broad.mit.edu	37	chr2	30756096	30756096	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaatggactggatgttcCtgtggaattgcctgatgcga	10	11	13	7	1	0	2	0	1	0	1	1	6	1	5	2	3	2	1	2	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:30756096C>A	uc002rnj.2	+	4	603	c.394C>A	c.(394-396)CTG>ATG	p.L132M	LCLAT1_uc010ymp.1_Translation_Start_Site|LCLAT1_uc002rnk.1_Missense_Mutation_p.L132M|LCLAT1_uc002rnl.2_Missense_Mutation_p.L94M|LCLAT1_uc010ymq.1_Missense_Mutation_p.L94M	NM_182551	NP_872357	Q6UWP7	LCLT1_HUMAN	lysocardiolipin acyltransferase 1 isoform 1	132					multicellular organismal development|phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			ovary(2)	2						CTGGATGTTCCTGTGGAATTG	0.418													45	160					3.50607e-19	3.88774e-19	1	1	0		A	30756096	A	A	30756096	3	1	55	1	0	0	0	0	1	0	0	0	8693	680	24	5	404	5	LCLAT1	2	30756096	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1339796	30756096	212443277	180	39214											
BIRC6	57448	broad.mit.edu	37	chr2	32640462	32640462	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagccaaccttacctctccGgattctgagaagtggaactc	10	9	9	13	1	2	1	0	1	2	1	4	4	2	3	4	2	4	1	4	2	4	2	rs142938281		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:32640462G>A	uc010ezu.2	+	10	2237	c.2103G>A	c.(2101-2103)CCG>CCA	p.P701P		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	701					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					TTACCTCTCCGGATTCTGAGA	0.473													12	29					0	0	1	0	0		A	32640462	A	A	32640462	2	1	55	1	0	0	0	0	0	0	0	1	1439	1103	39	1		1	BIRC6	2	32640462	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1884366	32640462	210558911	181	39215											
BIRC6	57448	broad.mit.edu	37	chr2	32750641	32750641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacttcaggagcagaggctGccaacaaaataattactgtc	14	9	9	9	0	1	1	1	0	0	1	2	2	1	2	1	2	5	3	1	2	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:32750641G>A	uc010ezu.2	+	59	12000	c.11866G>A	c.(11866-11868)GCC>ACC	p.A3956T		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3956					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					AGCAGAGGCTGCCAACAAAAT	0.433													10	32					0	0	1	0	0		A	32750641	A	A	32750641	3	1	55	1	0	0	0	0	1	0	0	0	1439	1319	46	2	12100	2	BIRC6	2	32750641	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	110179	32750641	210448732	182	39216											
CRIM1	51232	broad.mit.edu	37	chr2	36771623	36771623	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacgcctagtgaaaatgatAtcgtccatctccctagaggt	11	10	8	12	2	1	3	0	2	1	1	4	3	2	3	4	1	0	0	4	1	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:36771623A>G	uc002rpd.2	+	15	2767	c.2728A>G	c.(2728-2730)ATC>GTC	p.I910V		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	910	Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				TGAAAATGATATCGTCCATCT	0.438													13	37					0	0	1	0	0		G	36771623	G	G	36771623	3	3	55	1	0	0	0	0	1	0	0	0	3876	449	16	3	2786	3	CRIM1	2	36771623	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	4020982	36771623	206427750	183	39217											
EIF2AK2	5610	broad.mit.edu	37	chr2	37347260	37347260	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacagaattccatttggaTgaaaaggcacttagtctttg	13	13	8	7	0	2	2	1	1	1	1	3	3	3	3	1	2	0	1	1	2	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:37347260T>C	uc010ynh.1	-	13	1647	c.1090A>G	c.(1090-1092)ATC>GTC	p.I364V	EIF2AK2_uc010fab.1_Missense_Mutation_p.I323V|EIF2AK2_uc010yng.1_Missense_Mutation_p.I364V|EIF2AK2_uc010fac.2_Missense_Mutation_p.I364V|EIF2AK2_uc010fad.2_Missense_Mutation_p.I311V	NM_002759	NP_002750	P19525	E2AK2_HUMAN	eukaryotic translation initiation factor 2-alpha	364	Protein kinase.				evasion by virus of host immune response|modulation by virus of host cellular process|negative regulation of osteoblast proliferation|protein autophosphorylation|response to virus|viral infectious cycle	cytosol	ATP binding|double-stranded RNA binding|eukaryotic translation initiation factor 2alpha kinase activity|protein binding|protein phosphatase type 2A regulator activity			ovary(2)|lung(2)|pancreas(1)	5		all_hematologic(82;0.248)				TCCATTTGGATGAAAAGGCAC	0.289													11	18					0	0	1	0	0		C	37347260	C	C	37347260	3	2	55	1	0	0	0	0	1	0	0	0	5003	1464	51	3	585	3	EIF2AK2	2	37347260	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	575637	37347260	205852113	184	39218											
PRKD3	23683	broad.mit.edu	37	chr2	37520360	37520360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatgttttctgagttcatgtCatggcgaaagagaagaattt	13	14	10	4	1	3	3	2	1	1	2	3	5	3	3	0	1	0	2	0	1	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:37520360C>T	uc002rqd.2	-	2	898	c.343G>A	c.(343-345)GAC>AAC	p.D115N	PRKD3_uc002rqf.1_Missense_Mutation_p.D115N	NM_005813	NP_005804	O94806	KPCD3_HUMAN	protein kinase D3	115					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(2)|ovary(1)|central_nervous_system(1)	4		all_hematologic(82;0.21)				GAGTTCATGTCATGGCGAAAG	0.388													5	59					0	0	1	0	0		T	37520360	T	T	37520360	3	4	55	1	0	0	0	0	1	0	0	0	12542	826	29	4	2397	4	PRKD3	2	37520360	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	173100	37520360	205679013	185	39219											
PKDCC	91461	broad.mit.edu	37	chr2	42282097	42282097	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggtttttcttcacatacCtcctgcctcacagtgccccg	7	12	6	16	1	3	0	2	0	1	0	4	0	4	0	5	1	3	1	5	1	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:42282097C>A	uc002rsg.2	+	4	1230	c.1051C>A	c.(1051-1053)CTC>ATC	p.L351I		NM_138370	NP_612379	Q504Y2	PKDCC_HUMAN	protein kinase-like protein SgK493	351	Protein kinase.				cell differentiation|embryonic digestive tract development|lung alveolus development|negative regulation of Golgi to plasma membrane protein transport|ossification|palate development|positive regulation of bone mineralization|positive regulation of chondrocyte differentiation|protein transport	Golgi apparatus	ATP binding|protein kinase activity			breast(1)	1						CTTCACATACCTCCTGCCTCA	0.572													6	241					0.00448238	0.00456843	1	1	0		A	42282097	A	A	42282097	3	1	55	1	0	0	0	0	1	0	0	0	11988	681	24	5	1065	5	PKDCC	2	42282097	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4761737	42282097	200917276	186	39220											
PLEKHH2	130271	broad.mit.edu	37	chr2	43973086	43973086	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaggtacaaggactgttcgtCtgacatacaaaaacaggtgt	15	9	10	7	1	1	1	0	1	1	0	2	2	1	2	0	3	3	2	0	3	6	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:43973086C>T	uc010yny.1	+	24	3720	c.3637C>T	c.(3637-3639)CTG>TTG	p.L1213L		NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	1213	FERM.					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				GACTGTTCGTCTGACATACAA	0.368													7	26					0	0	1	0	0		T	43973086	T	T	43973086	2	4	55	1	0	0	0	0	0	0	0	1	12096	912	32	4		4	PLEKHH2	2	43973086	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1690989	43973086	199226287	187	39221											
SPTBN1	6711	broad.mit.edu	37	chr2	54858182	54858182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcagcgcaagctgaccGgcatggagcgggacttggtg	7	6	16	12	3	0	1	0	1	0	0	0	3	0	3	2	4	4	4	2	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:54858182G>A	uc002rxu.2	+	16	3247	c.2998G>A	c.(2998-3000)GGC>AGC	p.G1000S	SPTBN1_uc002rxx.2_Missense_Mutation_p.G987S	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1000	Spectrin 7.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			CAAGCTGACCGGCATGGAGCG	0.617													11	37					0	0	1	0	0		A	54858182	A	A	54858182	3	1	55	1	0	0	0	0	1	0	0	0	15144	1116	39	1	3169	1	SPTBN1	2	54858182	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	10885096	54858182	188341191	188	39222											
FANCL	55120	broad.mit.edu	37	chr2	58431275	58431275	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcacatacctttgccttcAacttgagagtgattaaatgc	12	12	8	9	0	1	2	1	2	0	1	1	3	1	2	2	1	4	1	2	1	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:58431275A>G	uc002rzw.3	-	6	528	c.461T>C	c.(460-462)TTG>TCG	p.L154S	FANCL_uc002rzx.3_Missense_Mutation_p.L154S|FANCL_uc010fce.2_Missense_Mutation_p.L154S|FANCL_uc010fcf.1_Missense_Mutation_p.L95S	NM_018062	NP_060532	Q9NW38	FANCL_HUMAN	Fanconi anemia, complementation group L isoform	154					DNA repair	cytoplasm|nucleoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CTTTGCCTTCAACTTGAGAGT	0.398								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				12	49					0	0	1	0	0		G	58431275	G	G	58431275	3	3	55	1	0	0	0	0	1	0	0	0	5684	131	5	3	717	3	FANCL	2	58431275	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	3573093	58431275	184768098	189	39223											
PEX13	5194	broad.mit.edu	37	chr2	61259029	61259029	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattggttaggactatacggTatctttacagacggctacag	11	12	10	8	2	1	1	0	0	1	1	1	2	1	2	0	4	3	3	0	4	6	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:61259029T>C	uc002sau.3	+	2	651	c.568T>C	c.(568-570)TAT>CAT	p.Y190H		NM_002618	NP_002609	Q92968	PEX13_HUMAN	peroxisomal biogenesis factor 13	190	Targeting to peroxisomes.|Lumenal (Potential).|Interaction with PEX19.				cerebral cortex cell migration|fatty acid alpha-oxidation|locomotory behavior|microtubule-based peroxisome localization|neuron migration|protein import into peroxisome matrix, docking|suckling behavior	integral to peroxisomal membrane|membrane fraction	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(5;2.05e-06)|Lung(5;3.13e-05)|Epithelial(17;0.114)			GACTATACGGTATCTTTACAG	0.438													10	50					0	0	1	0	0		C	61259029	C	C	61259029	3	2	55	1	0	0	0	0	1	0	0	0	11760	1638	57	3	574	3	PEX13	2	61259029	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2827754	61259029	181940344	190	39224											
ANXA4	307	broad.mit.edu	37	chr2	70037735	70037735	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcttgctagaatatggacGgagccttgaagatgacattc	11	12	10	8	1	1	4	0	2	1	2	3	6	1	6	1	2	2	1	1	2	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:70037735G>T	uc002sfr.3	+	7	634	c.407G>T	c.(406-408)CGG>CTG	p.R136L	ANXA4_uc010yqn.1_RNA|ANXA4_uc002sfs.3_Missense_Mutation_p.R114L|ANXA4_uc010yqo.1_Missense_Mutation_p.R52L	NM_001153	NP_001144	P09525	ANXA4_HUMAN	annexin IV	134	Annexin 2.				anti-apoptosis|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity				0						GAATATGGACGGAGCCTTGAA	0.507													17	29					8.34094e-07	8.82447e-07	1	1	0		T	70037735	T	T	70037735	3	4	55	1	0	0	0	0	1	0	0	0	720	1116	39	5	429	5	ANXA4	2	70037735	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	8778706	70037735	173161638	191	39225											
ZNF638	27332	broad.mit.edu	37	chr2	71577133	71577133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctgtaagccagcaagagcGgatcccacatgaacctgtga	13	7	10	11	1	1	3	0	2	1	1	2	4	2	4	3	1	4	2	3	1	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:71577133G>A	uc002shx.2	+	2	1368	c.1049G>A	c.(1048-1050)CGG>CAG	p.R350Q	ZNF638_uc010fec.2_Missense_Mutation_p.R456Q|ZNF638_uc010yqw.1_Intron|ZNF638_uc002shw.2_Missense_Mutation_p.R350Q|ZNF638_uc002shy.2_Missense_Mutation_p.R350Q|ZNF638_uc002shz.2_Missense_Mutation_p.R350Q|ZNF638_uc002sia.2_Missense_Mutation_p.R350Q|ZNF638_uc002sib.1_Missense_Mutation_p.R350Q	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	350					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding	p.R350Q(1)		pancreas(2)|ovary(1)|skin(1)	4						CAGCAAGAGCGGATCCCACAT	0.418													19	36					0	0	1	0	0		A	71577133	A	A	71577133	3	1	55	1	0	0	0	0	1	0	0	0	18080	1116	39	1	1051	1	ZNF638	2	71577133	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1539398	71577133	171622240	192	39226											
ZNF638	27332	broad.mit.edu	37	chr2	71597116	71597116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtgaaaatatgtgttcCaggaaagaaaaaagcacagg	19	7	11	4	0	0	2	0	1	0	1	1	3	1	3	1	2	1	2	1	2	8	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:71597116C>T	uc002shx.2	+	8	2565	c.2246C>T	c.(2245-2247)CCA>CTA	p.P749L	ZNF638_uc010fec.2_Missense_Mutation_p.P855L|ZNF638_uc010yqw.1_Missense_Mutation_p.P328L|ZNF638_uc002shw.2_Missense_Mutation_p.P749L|ZNF638_uc002shy.2_Missense_Mutation_p.P749L|ZNF638_uc002shz.2_Missense_Mutation_p.P749L|ZNF638_uc002sia.2_Missense_Mutation_p.P749L|ZNF638_uc002sib.1_Missense_Mutation_p.P749L|ZNF638_uc010fed.2_RNA	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	749	RRM 1.				RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						ATATGTGTTCCAGGAAAGAAA	0.303													3	53					0	0	1	0	0		T	71597116	T	T	71597116	3	4	55	1	0	0	0	0	1	0	0	0	18080	594	21	4	2272	4	ZNF638	2	71597116	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	19983	71597116	171602257	193	39227											
FBXO41	150726	broad.mit.edu	37	chr2	73487618	73487618	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacctctgctgccacctccTgggtgatctctgacacgtgg	6	10	11	14	1	2	3	0	2	2	1	4	3	3	3	4	2	2	1	4	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:73487618T>G	uc002sjb.1	-	11	2531	c.2531A>C	c.(2530-2532)CAG>CCG	p.Q844P		NM_001080410	NP_001073879	Q8TF61	FBX41_HUMAN	F-box protein 41	783						intracellular	protein binding|zinc ion binding			breast(2)|pancreas(1)	3						TGCCACCTCCTGGGTGATCTC	0.612													3	4					0	0	1	0	0		G	73487618	G	G	73487618	3	3	55	1	0	0	0	0	1	0	0	0	5764	1580	55	5	291	5	FBXO41	2	73487618	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1890502	73487618	169711755	194	39228											
ALMS1	7840	broad.mit.edu	37	chr2	73800368	73800368	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtttccactattgacactgcCcggctgattcaagcttttgg	7	14	9	11	1	1	2	1	2	0	0	2	2	2	2	2	2	2	3	2	2	2	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:73800368C>T	uc002sje.1	+	18	11478	c.11367C>T	c.(11365-11367)GCC>GCT	p.A3789A	ALMS1_uc002sjf.1_Silent_p.A3745A|ALMS1_uc002sjg.2_Silent_p.A3175A|ALMS1_uc002sjh.1_Silent_p.A3175A	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3787					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TTGACACTGCCCGGCTGATTC	0.458													5	83					0	0	1	0	0		T	73800368	T	T	73800368	2	4	55	1	0	0	0	0	0	0	0	1	535	610	22	4		4	ALMS1	2	73800368	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	312750	73800368	169399005	195	39229											
C2orf78	388960	broad.mit.edu	37	chr2	74044060	74044060	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctctttggggaaagtgcagTttttcattgaaagggaaaga	12	12	12	5	0	2	2	1	1	1	1	2	4	2	4	1	3	1	2	1	3	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:74044060T>A	uc002sjr.1	+	3	2831	c.2710T>A	c.(2710-2712)TTT>ATT	p.F904I		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	904										ovary(2)	2						GAAAGTGCAGTTTTTCATTGA	0.438													8	7					0	0	1	0	0		A	74044060	A	A	74044060	3	1	55	1	0	0	0	0	1	0	0	0	2198	1725	60	5	2720	5	C2orf78	2	74044060	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	243692	74044060	169155313	196	39230											
TET3	200424	broad.mit.edu	37	chr2	74307623	74307623	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttctgtctccctcttcAggtatggagagaaggggaaa	9	11	13	8	0	4	1	1	0	3	1	5	4	4	3	1	5	0	2	1	5	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:74307623A>G	uc002skb.3	+	3	2181	c.2181_splice	c.e3-2	p.R727_splice		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3								metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CTCCCTCTTCAGGTATGGAGA	0.527													4	14					0	0	1	0	0		G	74307623	G	G	74307623	5	3	55	1	0	0	0	0	0	0	1	0	15796	202	7	3	2189	3	TET3	2	74307623	Splice_Site	SNP	A	TCGA-BR-7851-01A-11D-2201-08	263563	74307623	168891750	197	39231											
DCTN1	1639	broad.mit.edu	37	chr2	74592756	74592756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctccaggaggctcagcCgcacattggcctcacttagc	7	10	9	15	1	4	0	2	0	2	0	5	1	4	1	3	3	2	2	3	3	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:74592756C>T	uc002skx.2	-	25	3226	c.2915G>A	c.(2914-2916)CGG>CAG	p.R972Q	SLC4A5_uc002skl.2_5'Flank|DCTN1_uc002skt.1_5'Flank|DCTN1_uc002skv.2_Missense_Mutation_p.R838Q|DCTN1_uc002sku.2_Missense_Mutation_p.R838Q|DCTN1_uc002skw.1_Missense_Mutation_p.R948Q|DCTN1_uc010ffd.2_Missense_Mutation_p.R952Q|DCTN1_uc002sky.2_Missense_Mutation_p.R935Q	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	972	Potential.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						GAGGCTCAGCCGCACATTGGC	0.577													15	56					0	0	1	0	0		T	74592756	T	T	74592756	3	4	55	1	0	0	0	0	1	0	0	0	4309	652	23	1	953	1	DCTN1	2	74592756	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	285133	74592756	168606617	198	39232											
SEMA4F	10505	broad.mit.edu	37	chr2	74907036	74907036	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcttcttcttggggattctCgcagcatccctgactctcat	5	14	9	13	1	4	1	1	1	4	0	7	2	5	2	1	3	1	3	1	3	0	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:74907036C>T	uc002sna.1	+	14	2124	c.2013C>T	c.(2011-2013)CTC>CTT	p.L671L	SEMA4F_uc010ffr.1_Silent_p.L283L|SEMA4F_uc002snb.1_Silent_p.L283L|SEMA4F_uc002snc.1_Silent_p.L516L	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	671	Helical; (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						TGGGGATTCTCGCAGCATCCC	0.627													10	30					0	0	1	0	0		T	74907036	T	T	74907036	2	4	55	1	0	0	0	0	0	0	0	1	14060	871	31	1		1	SEMA4F	2	74907036	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	314280	74907036	168292337	199	39233											
DNAH6	1768	broad.mit.edu	37	chr2	84811253	84811253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatccattgttgctgttcGgaatgccattgataaatcag	10	13	9	9	1	1	1	1	1	0	0	3	2	2	2	3	1	2	3	3	1	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:84811253G>A	uc010fgb.2	+	15	2497	c.2360G>A	c.(2359-2361)CGG>CAG	p.R787Q	DNAH6_uc002soo.2_Missense_Mutation_p.R366Q|DNAH6_uc002sop.2_Missense_Mutation_p.R366Q	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	787	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1						GTTGCTGTTCGGAATGCCATT	0.393													38	87					0	0	1	0	0		A	84811253	A	A	84811253	3	1	55	1	0	0	0	0	1	0	0	0	4611	1116	39	1	2414	1	DNAH6	2	84811253	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	9904217	84811253	158388120	200	39234											
CD8A	925	broad.mit.edu	37	chr2	87016520	87016520	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggccaagggcgcccagatgTagatatcacaggcgaagtcc	11	5	13	12	3	1	2	1	0	0	2	2	3	2	2	3	3	0	1	3	3	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:87016520T>C	uc002srt.2	-	4	1440	c.551A>G	c.(550-552)TAC>TGC	p.Y184C	RMND5A_uc002srs.3_Intron|CD8A_uc002srv.2_Missense_Mutation_p.Y184C|CD8A_uc010ytn.1_Missense_Mutation_p.Y225C|CD8A_uc002sru.2_Intron	NM_001768	NP_001759	P01732	CD8A_HUMAN	CD8 antigen alpha polypeptide isoform 1	184	Helical; (Potential).				antigen processing and presentation|regulation of immune response|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			ovary(1)	1						CGCCCAGATGTAGATATCACA	0.612													17	90					0	0	1	0	0		C	87016520	C	C	87016520	3	2	55	1	0	0	0	0	1	0	0	0	3047	1638	57	3	168	3	CD8A	2	87016520	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2205267	87016520	156182853	201	39235											
ITPRIPL1	150771	broad.mit.edu	37	chr2	96993744	96993744	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctcatgcacctcttgctaCggctgcccctcacggactgg	5	10	9	17	2	3	0	2	0	2	0	4	1	3	1	3	3	4	3	3	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:96993744C>T	uc002svx.2	+	3	1710	c.1375C>T	c.(1375-1377)CGG>TGG	p.R459W	ITPRIPL1_uc010yuk.1_Missense_Mutation_p.R451W|ITPRIPL1_uc002svy.2_Missense_Mutation_p.R467W|ITPRIPL1_uc010yul.1_Missense_Mutation_p.R451W	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	459	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(2)|ovary(1)	3						CCTCTTGCTACGGCTGCCCCT	0.562													21	67					0	0	1	0	0		T	96993744	T	T	96993744	3	4	55	1	0	0	0	0	1	0	0	0	7940	527	19	1	1415	1	ITPRIPL1	2	96993744	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	9977224	96993744	146205629	202	39236											
FER1L5	90342	broad.mit.edu	37	chr2	97368926	97368926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtctgacatgcccctccCggctcggcacgccaagcagt	6	9	10	16	3	1	1	0	1	1	0	3	1	2	1	4	2	2	3	4	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:97368926C>T	uc010fia.2	+	49	5642	c.5642C>T	c.(5641-5643)CCG>CTG	p.P1881L	FER1L5_uc002sws.3_Missense_Mutation_p.P590L|FER1L5_uc002swt.3_Missense_Mutation_p.P590L|FER1L5_uc010yus.1_Missense_Mutation_p.P589L	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1881						integral to membrane				ovary(1)	1						ATGCCCCTCCCGGCTCGGCAC	0.552													4	20					0	0	1	0	0		T	97368926	T	T	97368926	3	4	55	1	0	0	0	0	1	0	0	0	5828	652	23	1	5836	1	FER1L5	2	97368926	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	375182	97368926	145830447	203	39237											
TMEM131	23505	broad.mit.edu	37	chr2	98376193	98376193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctgcttgggttgctgaCgggactccacaaacccgagc	8	7	14	12	2	0	1	0	1	0	0	1	3	1	2	2	3	4	4	2	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:98376193C>T	uc002syh.3	-	39	5357	c.5128G>A	c.(5128-5130)GTC>ATC	p.V1710I	TMEM131_uc002syg.2_Missense_Mutation_p.V90I	NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1710	Ser-rich.					integral to membrane				ovary(4)|central_nervous_system(2)	6						GGGTTGCTGACGGGACTCCAC	0.458													10	12					0	0	1	0	0		T	98376193	T	T	98376193	3	4	55	1	0	0	0	0	1	0	0	0	16069	536	19	1	535	1	TMEM131	2	98376193	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1007267	98376193	144823180	204	39238											
VWA3B	200403	broad.mit.edu	37	chr2	98928687	98928687	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccacctccacttccccgcgGccgggcgtctaggactcagc	5	6	10	20	4	2	0	1	0	1	0	4	1	4	1	6	3	1	0	6	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:98928687G>A	uc002syo.2	+	28	4024	c.3760G>A	c.(3760-3762)GCC>ACC	p.A1254T	VWA3B_uc002syr.1_Silent_p.R626R|VWA3B_uc002sys.2_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	1254										ovary(3)|large_intestine(2)|skin(1)	6						CTTCCCCGCGGCCGGGCGTCT	0.597													31	35					0	0	1	0	0		A	98928687	A	A	98928687	3	1	55	1	0	0	0	0	1	0	0	0	17267	1203	42	2	3866	2	VWA3B	2	98928687	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	552494	98928687	144270686	205	39239											
MFSD9	84804	broad.mit.edu	37	chr2	103340288	103340288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggctgtgttgaagtgtcCgattacaagcggccgttcct	7	11	14	9	3	0	1	0	1	0	0	2	3	2	2	3	3	2	3	3	3	3	3	rs151282750	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:103340288C>T	uc002tcb.2	-	5	576	c.508G>A	c.(508-510)GGA>AGA	p.G170R	MFSD9_uc010fja.2_RNA	NM_032718	NP_116107	Q8NBP5	MFSD9_HUMAN	major facilitator superfamily domain containing	170	Helical; (Potential).				transmembrane transport	integral to membrane|plasma membrane	transporter activity			ovary(2)|breast(2)	4						TTGAAGTGTCCGATTACAAGC	0.498													17	48					0	0	1	0	0		T	103340288	T	T	103340288	3	4	55	1	0	0	0	0	1	0	0	0	9557	661	23	1	924	1	MFSD9	2	103340288	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4411601	103340288	139859085	206	39240											
TGFBRAP1	9392	broad.mit.edu	37	chr2	105885907	105885907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaaattcggtggcgtggCggttcagcaggtccacggca	8	8	14	11	4	2	0	2	0	0	0	4	0	3	0	1	6	1	3	1	6	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:105885907C>T	uc002tcq.2	-	11	2312	c.2228G>A	c.(2227-2229)CGC>CAC	p.R743H	TGFBRAP1_uc010fjc.2_Missense_Mutation_p.R512H|TGFBRAP1_uc002tcr.3_Missense_Mutation_p.R743H	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	743					regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						GGTGGCGTGGCGGTTCAGCAG	0.647													8	20					0	0	1	0	0		T	105885907	T	T	105885907	3	4	55	1	0	0	0	0	1	0	0	0	15849	768	27	1	362	1	TGFBRAP1	2	105885907	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2545619	105885907	137313466	207	39241											
SULT1C3	442038	broad.mit.edu	37	chr2	108863670	108863670	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggcgaagattgagaaaaAcgctcccacgatggaaaaaa	19	5	10	7	3	0	2	0	1	0	2	1	6	1	3	1	2	1	1	1	2	7	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:108863670A>G	uc010ywo.1	+	1	20	c.20A>G	c.(19-21)AAC>AGC	p.N7S		NM_001008743	NP_001008743	Q6IMI6	ST1C3_HUMAN	sulfotransferase family, cytosolic, 1C, member	7						cytoplasm	alcohol sulfotransferase activity			skin(1)	1						ATTGAGAAAAACGCTCCCACG	0.348													7	28					0	0	1	0	0		G	108863670	G	G	108863670	3	3	55	1	0	0	0	0	1	0	0	0	15403	43	2	3	22	3	SULT1C3	2	108863670	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2977763	108863670	134335703	208	39242											
CCDC138	165055	broad.mit.edu	37	chr2	109405348	109405348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagataaagttggttcatcGttaaaatattctgatgaaag	15	13	10	3	1	2	3	1	2	1	1	3	4	2	3	0	2	0	3	0	2	6	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:109405348G>A	uc002ten.1	+	3	252	c.192G>A	c.(190-192)TCG>TCA	p.S64S	CCDC138_uc002teo.1_Silent_p.S64S|CCDC138_uc002tep.1_5'UTR|CCDC138_uc010fjm.1_5'UTR	NM_144978	NP_659415	Q96M89	CC138_HUMAN	coiled-coil domain containing 138	64											0						TTGGTTCATCGTTAAAATATT	0.358													21	72					0	0	1	0	0		A	109405348	A	A	109405348	2	1	55	1	0	0	0	0	0	0	0	1	2775	1132	40	1		1	CCDC138	2	109405348	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	541678	109405348	133794025	209	39243											
ACOXL	55289	broad.mit.edu	37	chr2	111789258	111789258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaactcgtgtctgcaccacGtggcttctctgtccctggca	5	11	11	14	2	2	0	0	0	2	0	5	1	3	1	2	3	2	3	2	3	1	1	rs151050088		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:111789258G>A	uc002tgr.3	+	16	1650	c.1426G>A	c.(1426-1428)GTG>ATG	p.V476M	ACOXL_uc010fkc.2_Missense_Mutation_p.V446M|ACOXL_uc010yxk.1_Missense_Mutation_p.V446M	NM_001105516	NP_001098986	Q9NUZ1	ACOXL_HUMAN	acyl-Coenzyme A oxidase-like 2	476					fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0						TCTGCACCACGTGGCTTCTCT	0.488													18	61					0	0	1	0	0		A	111789258	A	A	111789258	3	1	55	1	0	0	0	0	1	0	0	0	161	1145	40	1	1390	1	ACOXL	2	111789258	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2383910	111789258	131410115	210	39244											
MERTK	10461	broad.mit.edu	37	chr2	112733042	112733042	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggattctagccagcacgacTgaaggaggtaattcctgggg	10	9	14	8	1	1	1	0	1	1	0	2	4	2	3	2	5	2	2	2	5	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:112733042T>C	uc002thk.1	+	7	1259	c.1137T>C	c.(1135-1137)ACT>ACC	p.T379T	MERTK_uc002thl.1_Silent_p.T203T	NM_006343	NP_006334	Q12866	MERTK_HUMAN	MER receptor tyrosine kinase precursor	379	Fibronectin type-III 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|cell-cell signaling|leukocyte migration	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|upper_aerodigestive_tract(1)|stomach(1)|kidney(1)	9						CCAGCACGACTGAAGGAGGTA	0.483													17	51					0	0	1	0	0		C	112733042	C	C	112733042	2	2	55	1	0	0	0	0	0	0	0	1	9497	1567	55	3		3	MERTK	2	112733042	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	943784	112733042	130466331	211	39245											
ZC3H6	376940	broad.mit.edu	37	chr2	113089407	113089407	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actacaaaaaaattttgatcCtaggcttcacagactgccca	15	10	5	11	0	1	2	1	1	0	1	2	2	2	2	2	1	2	1	2	1	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:113089407C>A	uc002thq.1	+	12	3306	c.2912C>A	c.(2911-2913)CCT>CAT	p.P971H		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	971							nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						AATTTTGATCCTAGGCTTCAC	0.428													6	17					8.12818e-05	8.42638e-05	1	1	0		A	113089407	A	A	113089407	3	1	55	1	0	0	0	0	1	0	0	0	17596	681	24	5	2958	5	ZC3H6	2	113089407	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	356365	113089407	130109966	212	39246											
PAX8	7849	broad.mit.edu	37	chr2	113999253	113999253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaaggtgctttcggggtcCgctgctgctgctctgtgagt	3	12	16	10	3	1	1	0	1	1	0	3	2	2	1	1	3	4	5	1	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:113999253C>T	uc010yxt.1	-	7	818	c.652G>A	c.(652-654)GGA>AGA	p.G218R	PAX8_uc010yxu.1_Missense_Mutation_p.G218R|PAX8_uc010yxv.1_Missense_Mutation_p.G218R|PAX8_uc002tjm.2_Missense_Mutation_p.G218R|PAX8_uc002tjn.2_Missense_Mutation_p.G218R|PAX8_uc010fku.1_Missense_Mutation_p.G218R|LOC654433_uc002tjq.3_Intron|LOC654433_uc010fks.2_Intron|LOC654433_uc010fkt.2_Intron|LOC654433_uc002tjr.3_Intron	NM_003466	NP_003457	Q06710	PAX8_HUMAN	paired box 8 isoform PAX8A	218					branching involved in ureteric bud morphogenesis|cellular response to gonadotropin stimulus|central nervous system development|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|metanephric collecting duct development|metanephric comma-shaped body morphogenesis|metanephric distal convoluted tubule development|metanephric nephron tubule formation|metanephric S-shaped body morphogenesis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|otic vesicle development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric field specification|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of thyroid-stimulating hormone secretion|thyroid gland development|transcription, DNA-dependent	nucleoplasm	protein binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid-stimulating hormone receptor activity			ovary(1)|lung(1)	2						TTTCGGGGTCCGCTGCTGCTG	0.582			T	PPARG	follicular thyroid		Thyroid dysgenesis 						3	63					0	0	1	0	0		T	113999253	T	T	113999253	3	4	55	1	0	0	0	0	1	0	0	0	11504	661	23	1	599	1	PAX8	2	113999253	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	909846	113999253	129200120	213	39247											
DPP10	57628	broad.mit.edu	37	chr2	116534834	116534834	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgacatcaggaaactgggaAgtgataaagatcttggcata	15	9	11	6	0	2	3	1	2	1	1	2	5	2	5	0	3	1	1	0	3	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:116534834A>G	uc002tla.1	+	14	1729	c.1272A>G	c.(1270-1272)GAA>GAG	p.E424E	DPP10_uc002tlb.1_Silent_p.E374E|DPP10_uc002tlc.1_Silent_p.E420E|DPP10_uc002tle.2_Silent_p.E428E|DPP10_uc002tlf.1_Silent_p.E417E	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	424	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						GAAACTGGGAAGTGATAAAGA	0.373													3	45					0	0	1	0	0		G	116534834	G	G	116534834	2	3	55	1	0	0	0	0	0	0	0	1	4733	69	3	3		3	DPP10	2	116534834	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2535581	116534834	126664539	214	39248											
PTPN4	5775	broad.mit.edu	37	chr2	120692467	120692467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggttcatacttccccaagcGaagtgtttgtaaatcagaga	12	12	9	8	1	2	1	2	0	0	1	3	3	3	1	2	1	2	3	2	1	5	5	rs140214166	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:120692467G>A	uc002tmf.1	+	15	2059	c.1288G>A	c.(1288-1290)GAA>AAA	p.E430K	PTPN4_uc010flj.1_Missense_Mutation_p.E143K|PTPN4_uc010yyr.1_Missense_Mutation_p.E63K	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	430						cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	TTCCCCAAGCGAAGTGTTTGT	0.398													19	48					0	0	1	0	0		A	120692467	A	A	120692467	3	1	55	1	0	0	0	0	1	0	0	0	12815	1059	37	1	1342	1	PTPN4	2	120692467	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4157633	120692467	122506906	215	39249											
GLI2	2736	broad.mit.edu	37	chr2	121743872	121743872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgtgtcagtccagccccGgggcccagtcgtcctgcagc	5	7	13	16	2	1	0	1	0	0	0	4	0	3	0	5	2	4	2	5	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:121743872G>A	uc010flp.2	+	12	2005	c.1975G>A	c.(1975-1977)GGG>AGG	p.G659R	GLI2_uc002tmq.1_Missense_Mutation_p.G331R|GLI2_uc002tmr.1_Missense_Mutation_p.G314R|GLI2_uc002tmt.3_Missense_Mutation_p.G331R|GLI2_uc002tmu.3_Missense_Mutation_p.G314R|GLI2_uc002tmw.1_Missense_Mutation_p.G642R	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	659					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				GTCCAGCCCCGGGGCCCAGTC	0.672													15	35					0	0	1	0	0		A	121743872	A	A	121743872	3	1	55	1	0	0	0	0	1	0	0	0	6453	1116	39	1	2021	1	GLI2	2	121743872	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1051405	121743872	121455501	216	39250											
GLI2	2736	broad.mit.edu	37	chr2	121746554	121746554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgacggcggcctggcccgcGgcgcctactcgccccggccg	2	3	15	21	9	0	0	0	0	0	0	1	1	0	0	7	5	1	0	7	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:121746554G>A	uc010flp.2	+	13	3094	c.3064G>A	c.(3064-3066)GGC>AGC	p.G1022S	GLI2_uc002tmq.1_Missense_Mutation_p.G694S|GLI2_uc002tmr.1_Missense_Mutation_p.G677S|GLI2_uc002tmt.3_Missense_Mutation_p.G694S|GLI2_uc002tmu.3_Missense_Mutation_p.G677S	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	1022					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				CCTGGCCCGCGGCGCCTACTC	0.766													3	5					0	0	1	0	0		A	121746554	A	A	121746554	3	1	55	1	0	0	0	0	1	0	0	0	6453	1116	39	1	3114	1	GLI2	2	121746554	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2682	121746554	121452819	217	39251											
CLASP1	23332	broad.mit.edu	37	chr2	122154732	122154732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacctttctcacgtctgaaCtctttggttctgttgtccag	6	17	7	11	1	4	1	1	1	4	0	6	1	5	1	2	1	2	2	2	1	2	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:122154732C>T	uc002tnc.2	-	29	3497	c.3107G>A	c.(3106-3108)AGT>AAT	p.S1036N	CLASP1_uc010yyv.1_Missense_Mutation_p.S121N|CLASP1_uc002tmz.2_Missense_Mutation_p.S121N|CLASP1_uc002tna.2_Missense_Mutation_p.S121N|CLASP1_uc010yyw.1_RNA|CLASP1_uc002tnb.2_RNA|CLASP1_uc010yyx.1_RNA|CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Missense_Mutation_p.S1016N|CLASP1_uc010yza.1_Missense_Mutation_p.S1008N|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_RNA	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	1036					axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					CACGTCTGAACTCTTTGGTTC	0.418													4	25					0	0	1	0	0		T	122154732	T	T	122154732	3	4	55	1	0	0	0	0	1	0	0	0	3457	565	20	4	1553	4	CLASP1	2	122154732	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	408178	122154732	121044641	218	39252											
FAM168B	130074	broad.mit.edu	37	chr2	131810509	131810509	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacatagctgtaagtgggCgttcctggggcccggtacgt	6	9	16	10	3	0	0	0	0	0	0	1	0	1	0	2	5	2	5	2	5	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:131810509C>T	uc002tsd.2	-	6	784	c.555G>A	c.(553-555)ACG>ACA	p.T185T		NM_001009993	NP_001009993	A1KXE4	F168B_HUMAN	hypothetical protein LOC130074	185											0						TGTAAGTGGGCGTTCCTGGGG	0.587													2	2					0	0	1	0	0		T	131810509	T	T	131810509	2	4	55	1	0	0	0	0	0	0	0	1	5497	755	27	1		1	FAM168B	2	131810509	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	9655777	131810509	111388864	219	39253											
NCKAP5	344148	broad.mit.edu	37	chr2	133489555	133489555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataggtagcgtcctgtcgagCgatttcccgagtctgggagt	7	11	14	9	4	1	0	0	0	1	0	4	4	3	1	2	2	2	1	2	2	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:133489555C>T	uc002ttp.2	-	17	5572	c.5198G>A	c.(5197-5199)CGC>CAC	p.R1733H	NCKAP5_uc002ttq.2_Missense_Mutation_p.R414H	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1733							protein binding				0						TCCTGTCGAGCGATTTCCCGA	0.547													8	24					0	0	1	0	0		T	133489555	T	T	133489555	3	4	55	1	0	0	0	0	1	0	0	0	10242	768	27	1	547	1	NCKAP5	2	133489555	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1679046	133489555	109709818	220	39254											
NCKAP5	344148	broad.mit.edu	37	chr2	133542365	133542365	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgggctcaccgtcttcCgcatcaaatatcacagtcac	11	10	6	14	2	6	0	5	0	1	0	7	0	7	0	2	1	0	2	2	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:133542365C>T	uc002ttp.2	-	14	2393	c.2019G>A	c.(2017-2019)GCG>GCA	p.A673A	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	673							protein binding				0						CACCGTCTTCCGCATCAAATA	0.438													19	45					0	0	1	0	0		T	133542365	T	T	133542365	2	4	55	1	0	0	0	0	0	0	0	1	10242	639	23	1		1	NCKAP5	2	133542365	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	52810	133542365	109657008	221	39255											
R3HDM1	23518	broad.mit.edu	37	chr2	136399348	136399348	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctggcagtattctgatcAacccacaaacaggttggtat	12	10	8	11	0	2	1	1	1	1	0	2	1	2	1	2	3	2	4	2	3	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:136399348A>G	uc002tuo.2	+	15	1832	c.1462A>G	c.(1462-1464)AAC>GAC	p.N488D	R3HDM1_uc010fni.2_Missense_Mutation_p.N486D|R3HDM1_uc002tup.2_Missense_Mutation_p.N432D|R3HDM1_uc010zbh.1_Intron	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	488							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		TATTCTGATCAACCCACAAAC	0.413													6	28					0	0	1	0	0		G	136399348	G	G	136399348	3	3	55	1	0	0	0	0	1	0	0	0	12912	130	5	3	1512	3	R3HDM1	2	136399348	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2856983	136399348	106800025	222	39256											
LCT	3938	broad.mit.edu	37	chr2	136567157	136567157	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccatcggcatcccacgcGccttcaatctgataagcgga	9	9	9	14	4	2	1	1	1	1	0	4	2	3	2	3	2	2	1	3	2	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:136567157G>A	uc002tuu.1	-	8	2771	c.2760C>T	c.(2758-2760)GGC>GGT	p.G920G		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	920	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CATCCCACGCGCCTTCAATCT	0.537													17	23					0	0	1	0	0		A	136567157	A	A	136567157	2	1	55	1	0	0	0	0	0	0	0	1	8709	1074	38	1		1	LCT	2	136567157	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	167809	136567157	106632216	223	39257											
LRP1B	53353	broad.mit.edu	37	chr2	141299356	141299356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attataacttacagctattgGtgtcattggcaacagctatg	12	14	8	7	0	1	0	1	0	0	0	1	0	1	0	0	2	5	3	0	2	6	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:141299356G>A	uc002tvj.1	-	44	8351	c.7379C>T	c.(7378-7380)ACC>ATC	p.T2460I		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2460	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACAGCTATTGGTGTCATTGGC	0.348										TSP Lung(27;0.18)			33	82					0	0	1	0	0		A	141299356	A	A	141299356	3	1	55	1	0	0	0	0	1	0	0	0	8973	1261	44	4	6612	4	LRP1B	2	141299356	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4732199	141299356	101900017	224	39258											
LRP1B	53353	broad.mit.edu	37	chr2	141680553	141680553	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtactccaacaggaaaaCttggttttgtggtcacacaa	12	11	8	10	0	1	0	1	0	0	0	2	1	2	1	2	3	3	2	2	3	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:141680553C>T	uc002tvj.1	-	21	4272	c.3300G>A	c.(3298-3300)AAG>AAA	p.K1100K	LRP1B_uc010fnl.1_Silent_p.K282K	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1100	Extracellular (Potential).|LDL-receptor class A 9.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		AACAGGAAAACTTGGTTTTGT	0.443										TSP Lung(27;0.18)			13	65					0	0	1	0	0		T	141680553	T	T	141680553	2	4	55	1	0	0	0	0	0	0	0	1	8973	564	20	4		4	LRP1B	2	141680553	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	381197	141680553	101518820	225	39259											
FMNL2	114793	broad.mit.edu	37	chr2	153471485	153471485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaatgctgccttggagaggGtggaagaactggaagaaaac	15	6	15	5	0	0	4	0	0	0	4	0	7	0	6	1	4	4	1	1	4	6	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:153471485G>A	uc002tye.2	+	12	1550	c.1183G>A	c.(1183-1185)GTG>ATG	p.V395M		NM_052905	NP_443137	Q96PY5	FMNL2_HUMAN	formin-like 2	395	GBD/FH3.				actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|ovary(1)	3						CTTGGAGAGGGTGGAAGAACT	0.403													10	34					0	0	1	0	0		A	153471485	A	A	153471485	3	1	55	1	0	0	0	0	1	0	0	0	5966	1261	44	4	1229	4	FMNL2	2	153471485	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	11790932	153471485	89727888	226	39260											
CYTIP	9595	broad.mit.edu	37	chr2	158300372	158300372	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatacctgctttcgtcccCgaggcagagtagccaccgtg	8	9	10	14	3	1	1	1	0	0	1	3	2	2	1	5	1	3	3	5	1	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:158300372C>A	uc002tzj.1	-	1	233	c.161G>T	c.(160-162)CGG>CTG	p.R54L	CYTIP_uc010zcl.1_Intron	NM_004288	NP_004279	O60759	CYTIP_HUMAN	cytohesin 1 interacting protein	54					regulation of cell adhesion	cell cortex|early endosome	protein binding			ovary(1)|kidney(1)|skin(1)	3						CTTTCGTCCCCGAGGCAGAGT	0.473													26	65					3.00307e-07	3.19064e-07	1	1	0		A	158300372	A	A	158300372	3	1	55	1	0	0	0	0	1	0	0	0	4210	652	23	5	950	5	CYTIP	2	158300372	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4828887	158300372	84899001	227	39261											
LY75	4065	broad.mit.edu	37	chr2	160750520	160750520	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatcaagaatgcaatcaTgatgccaggtcccatcaatt	13	11	6	11	0	4	2	4	1	0	1	5	2	5	2	2	1	2	1	2	1	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:160750520T>C	uc002ubc.3	-	3	611	c.542A>G	c.(541-543)CAT>CGT	p.H181R	LY75_uc002ubb.3_Missense_Mutation_p.H181R|LY75_uc010fos.2_Missense_Mutation_p.H181R|LY75_uc010fot.1_Missense_Mutation_p.H181R	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	181	Extracellular (Potential).|Fibronectin type-II.				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		AATGCAATCATGATGCCAGGT	0.448													27	41					0	0	1	0	0		C	160750520	C	C	160750520	3	2	55	1	0	0	0	0	1	0	0	0	9117	1464	51	3	4758	3	LY75	2	160750520	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2450148	160750520	82448853	228	39262											
SLC4A10	57282	broad.mit.edu	37	chr2	162711564	162711564	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actctttcattgcacagcttGtttgaattgagaagttgtat	10	17	8	6	0	2	2	1	2	1	1	2	3	2	2	0	0	2	5	0	0	3	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:162711564G>T	uc002ubx.3	+	5	685	c.501G>T	c.(499-501)TTG>TTT	p.L167F	SLC4A10_uc010fpa.1_Missense_Mutation_p.L179F|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.L167F|SLC4A10_uc010zcs.1_Missense_Mutation_p.L178F	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	167	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						TGCACAGCTTGTTTGAATTGA	0.398													8	33					5.18039e-06	5.43151e-06	1	1	0		T	162711564	T	T	162711564	3	4	55	1	0	0	0	0	1	0	0	0	14676	1368	48	5	604	5	SLC4A10	2	162711564	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1961044	162711564	80487809	229	39263											
SLC4A10	57282	broad.mit.edu	37	chr2	162804217	162804217	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgaagcagttcaagactAgcagatattttccaaccaag	14	9	7	11	0	1	3	1	1	0	2	2	3	2	3	3	0	3	3	3	0	6	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:162804217A>G	uc002ubx.3	+	17	2429	c.2245A>G	c.(2245-2247)AGC>GGC	p.S749G	SLC4A10_uc002uby.3_Missense_Mutation_p.S719G|SLC4A10_uc010zcs.1_Missense_Mutation_p.S730G	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	749	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						GTTCAAGACTAGCAGATATTT	0.378													4	121					0	0	1	0	0		G	162804217	G	G	162804217	3	3	55	1	0	0	0	0	1	0	0	0	14676	420	15	3	2396	3	SLC4A10	2	162804217	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	92653	162804217	80395156	230	39264											
KCNH7	90134	broad.mit.edu	37	chr2	163693269	163693270	+	Frame_Shift_Ins	INS	-	T	T																															ctggcatttgcaatgataaaINSttttttatctgtaataagaa																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:163693269_163693270insT	uc002uch.1	-	2	296_297	c.84_85insA	c.(82-87)AAATTTfs	p.K28fs	KCNH7_uc002uci.2_Frame_Shift_Ins_p.K28fs	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	28_29	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	GCAATGATAAATTTTTTATCTG	0.381													9	11	---	---	---	---						.	T	163693270	T	T	163693269	7	5	55	1	0	1	1	0	0	0	0	0	8053	101	4	0	3631	0	KCNH7	2	163693269	Frame_Shift_Ins	INS	-	TCGA-BR-7851-01A-11D-2201-08	889052	163693269	79506104	231	39265											
CSRNP3	80034	broad.mit.edu	37	chr2	166535528	166535528	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaattagattgccaaggagaGgaggaggaagaagaggagga	17	4	18	2	0	0	4	0	0	0	4	0	11	0	9	1	6	1	0	1	6	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:166535528G>T	uc002udf.2	+	7	1399	c.1023G>T	c.(1021-1023)GAG>GAT	p.E341D	CSRNP3_uc002udg.2_Missense_Mutation_p.E341D	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	341	Glu-rich.				apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						GCCAAGGAGAGGAGGAGGAAG	0.483													20	79					1.01871e-10	1.10172e-10	1	1	0		T	166535528	T	T	166535528	3	4	55	1	0	0	0	0	1	0	0	0	3968	991	35	5	1037	5	CSRNP3	2	166535528	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2842259	166535528	76663845	232	39266											
SCN1A	6323	broad.mit.edu	37	chr2	166911252	166911252	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttttataagtgattcaaaAgtatatattcctgtgaaggt	14	17	7	3	0	1	2	1	2	0	0	2	2	2	2	1	1	0	1	1	1	8	9			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:166911252A>C	uc010zcz.1	-	4	516	c.498T>G	c.(496-498)ACT>ACG	p.T166T	SCN1A_uc002udo.3_Silent_p.T35T|SCN1A_uc010fpk.2_Silent_p.T35T	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	166	Helical; Name=S2 of repeat I; (By similarity).|I.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GTGATTCAAAAGTATATATTC	0.328													4	17					0	0	1	0	0		C	166911252	C	C	166911252	2	2	55	1	0	0	0	0	0	0	0	1	13939	59	3	5		5	SCN1A	2	166911252	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	375724	166911252	76288121	233	39267											
SCN9A	6335	broad.mit.edu	37	chr2	167055217	167055217	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttgctgtctttccctttgtCttccttttctgttctgtctt	0	24	5	12	0	5	0	0	0	5	0	7	0	7	0	2	0	1	2	2	0	0	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:167055217C>G	uc010fpl.2	-	27	6240	c.5899G>C	c.(5899-5901)GAC>CAC	p.D1967H	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1978						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	TTCCCTTTGTCTTCCTTTTCT	0.348													4	12					0	0	1	0	0		G	167055217	G	G	167055217	3	3	55	1	0	0	0	0	1	0	0	0	13950	913	32	5	38	5	SCN9A	2	167055217	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	143965	167055217	76144156	234	39268											
LRP2	4036	broad.mit.edu	37	chr2	170060632	170060632	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaatctgacctgacccgTcatatttgttagctcggtaa	9	14	8	10	2	2	2	1	2	1	0	3	2	2	2	2	1	2	4	2	1	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:170060632T>C	uc002ues.2	-	42	8078	c.7865A>G	c.(7864-7866)GAC>GGC	p.D2622G		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2622	LDL-receptor class B 29.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ACCTGACCCGTCATATTTGTT	0.438													30	186					0	0	1	0	0		C	170060632	C	C	170060632	3	2	55	1	0	0	0	0	1	0	0	0	8974	1667	58	3	6254	3	LRP2	2	170060632	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	3005415	170060632	73138741	235	39269											
CYBRD1	79901	broad.mit.edu	37	chr2	172410001	172410001	+	Frame_Shift_Del	DEL	T	-	-																															gggattgacagagaaactgaTtttttccctgtaagttgcat																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:172410001delT	uc002ugy.3	+	3	738	c.548delT	c.(547-549)ATTfs	p.I183fs	CYBRD1_uc002ugz.3_Frame_Shift_Del_p.D113fs	NM_024843	NP_079119	Q53TN4	CYBR1_HUMAN	cytochrome b reductase 1 isoform 1	183	Cytochrome b561.				cellular iron ion homeostasis|electron transport chain|transmembrane transport	integral to membrane	ferric-chelate reductase activity|metal ion binding				0						GAGAAACTGATTTTTTCCCTG	0.328													12	26	---	---	---	---						.	-	172410001	-	-	172410001	7	5	55	1	0	1	0	1	0	0	0	0	4137	1493	52	0	558	0	CYBRD1	2	172410001	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	2349369	172410001	70789372	236	39270											
EVX2	344191	broad.mit.edu	37	chr2	176947040	176947040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacgccgtacggtagcgccGcacttgatccgcgccagagc	8	5	13	15	7	0	2	0	1	0	1	1	3	1	2	4	1	4	3	4	1	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:176947040G>A	uc010zeu.1	-	2	751	c.565C>T	c.(565-567)CGG>TGG	p.R189W		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	189	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		CGGTAGCGCCGCACTTGATCC	0.721													4	11					0	0	1	0	0		A	176947040	A	A	176947040	3	1	55	1	0	0	0	0	1	0	0	0	5303	1086	38	1	871	1	EVX2	2	176947040	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4537039	176947040	66252333	237	39271											
TTN	7273	broad.mit.edu	37	chr2	179398049	179398049	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgactctataataaccCgtgtcttcaggcaaagtgtc	10	12	9	10	1	3	1	1	1	2	0	4	1	3	1	1	1	1	2	1	1	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:179398049C>A	uc010zfg.1	-	307	95813	c.95589G>T	c.(95587-95589)ACG>ACT	p.T31863T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.T25558T|TTN_uc010zfi.1_Silent_p.T25491T|TTN_uc010zfj.1_Silent_p.T25366T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32790							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TATAATAACCCGTGTCTTCAG	0.488													14	37					4.14922e-12	4.50957e-12	1	1	0		A	179398049	A	A	179398049	2	1	55	1	0	0	0	0	0	0	0	1	16761	639	23	5		5	TTN	2	179398049	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2451009	179398049	63801324	238	39272											
TTN	7273	broad.mit.edu	37	chr2	179400960	179400960	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctctgatatctgacatttAgatttctcagttcctcttta	8	19	5	9	0	4	3	1	2	4	1	6	3	5	3	1	0	1	2	1	0	3	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:179400960A>G	uc010zfg.1	-	306	93034	c.92810T>C	c.(92809-92811)CTA>CCA	p.L30937P	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.L24632P|TTN_uc010zfi.1_Missense_Mutation_p.L24565P|TTN_uc010zfj.1_Missense_Mutation_p.L24440P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31864							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTGACATTTAGATTTCTCAG	0.423													5	14					0	0	1	0	0		G	179400960	G	G	179400960	3	3	55	1	0	0	0	0	1	0	0	0	16761	420	15	3	7489	3	TTN	2	179400960	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2911	179400960	63798413	239	39273											
TTN	7273	broad.mit.edu	37	chr2	179479424	179479424	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagttcaatcttggtccCagcttttacagtgagaccag	11	11	10	9	0	2	1	1	1	1	1	3	3	3	2	2	2	2	2	2	2	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:179479424C>A	uc010zfg.1	-	210	41337	c.41113G>T	c.(41113-41115)GGG>TGG	p.G13705W	uc002ump.1_RNA|TTN_uc010zfh.1_Missense_Mutation_p.G7400W|TTN_uc010zfi.1_Missense_Mutation_p.G7333W|TTN_uc010zfj.1_Missense_Mutation_p.G7208W	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14632							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATCTTGGTCCCAGCTTTTACA	0.418													4	20					1	1	1	1	0		A	179479424	A	A	179479424	3	1	55	1	0	0	0	0	1	0	0	0	16761	594	21	5	59284	5	TTN	2	179479424	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	78464	179479424	63719949	240	39274											
TTN	7273	broad.mit.edu	37	chr2	179499476	179499476	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcaaaatggcagttgtaAttgcattaagggcctggtag	11	12	12	6	0	1	0	1	0	0	0	1	0	1	0	1	3	1	5	1	3	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:179499476A>G	uc010zfg.1	-	178	34645	c.34421T>C	c.(34420-34422)ATT>ACT	p.I11474T	TTN_uc010zfh.1_Missense_Mutation_p.I5169T|TTN_uc010zfi.1_Missense_Mutation_p.I5102T|TTN_uc010zfj.1_Missense_Mutation_p.I4977T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12401							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGCAGTTGTAATTGCATTAAG	0.423													31	80					0	0	1	0	0		G	179499476	G	G	179499476	3	3	55	1	0	0	0	0	1	0	0	0	16761	101	4	3	66104	3	TTN	2	179499476	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	20052	179499476	63699897	241	39275											
SESTD1	91404	broad.mit.edu	37	chr2	179982318	179982318	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaagcatctttaaccttcGcacatctaccatgtcttcac	10	13	4	14	1	4	1	1	1	3	0	5	1	4	1	2	0	3	2	2	0	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:179982318G>A	uc002uni.3	-	14	1615	c.1465C>T	c.(1465-1467)CGA>TGA	p.R489*	SESTD1_uc002unh.3_5'UTR	NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	489	Spectrin 2.				regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			TTTAACCTTCGCACATCTACC	0.348													16	51					0	0	1	0	0		A	179982318	A	A	179982318	4	1	55	1	0	0	0	0	0	1	0	0	14152	1095	38	1	645	1	SESTD1	2	179982318	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	482842	179982318	63217055	242	39276											
NEUROD1	4760	broad.mit.edu	37	chr2	182543295	182543295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatgcgtctcaatttaaaaCgctccaggcgagccttagtc	10	11	8	12	3	2	0	2	0	1	0	5	1	3	0	2	1	3	1	2	1	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:182543295C>T	uc002uof.2	-	2	529	c.293G>A	c.(292-294)CGT>CAT	p.R98H	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	98					amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			CAATTTAAAACGCTCCAGGCG	0.463													8	15					0	0	1	0	0		T	182543295	T	T	182543295	3	4	55	1	0	0	0	0	1	0	0	0	10367	536	19	1	781	1	NEUROD1	2	182543295	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2560977	182543295	60656078	243	39277											
ANKAR	150709	broad.mit.edu	37	chr2	190606165	190606165	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgctatcatttgtactcGggaatagaagaggtaaaaac	14	11	9	7	1	2	2	1	0	1	2	3	3	2	3	0	2	3	3	0	2	8	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:190606165G>A	uc002uqw.1	+	19	3585	c.3585G>A	c.(3583-3585)TCG>TCA	p.S1195S	ANKAR_uc002uqu.2_RNA|ANKAR_uc002uqx.1_RNA|ANKAR_uc002uqy.1_Silent_p.S362S	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	1266						integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			ATTTGTACTCGGGAATAGAAG	0.358													14	29					0	0	1	0	0		A	190606165	A	A	190606165	2	1	55	1	0	0	0	0	0	0	0	1	623	1103	39	1		1	ANKAR	2	190606165	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	8062870	190606165	52593208	244	39278											
PMS1	5378	broad.mit.edu	37	chr2	190732629	190732629	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatcctcgtcttacagcgaAtggtttcaagataaaattga	13	13	8	7	2	2	3	1	2	1	1	4	4	3	3	1	1	2	1	1	1	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:190732629A>G	uc002urh.3	+	11	2976	c.2447A>G	c.(2446-2448)AAT>AGT	p.N816S	PMS1_uc002urk.3_Missense_Mutation_p.N777S|PMS1_uc002uri.3_Missense_Mutation_p.N654S|PMS1_uc010zgc.1_Missense_Mutation_p.N640S|PMS1_uc010zgd.1_Missense_Mutation_p.N640S|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Intron|PMS1_uc010frz.2_Intron|PMS1_uc002url.2_Missense_Mutation_p.N439S|PMS1_uc002urm.2_RNA	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	816					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			CTTACAGCGAATGGTTTCAAG	0.333			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					8	45					0	0	1	0	0		G	190732629	G	G	190732629	3	3	55	1	0	0	0	0	1	0	0	0	12161	101	4	3	2485	3	PMS1	2	190732629	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	126464	190732629	52466744	245	39279											
MFSD6	54842	broad.mit.edu	37	chr2	191301592	191301592	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaagtcatgcttgtttaTgatcaacaagaagttgaagc	14	11	9	7	0	2	3	2	2	0	1	2	4	2	3	1	0	3	3	1	0	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:191301592T>G	uc002urz.2	+	3	1161	c.837T>G	c.(835-837)TAT>TAG	p.Y279*		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	279					transmembrane transport	integral to membrane				ovary(2)	2						TGCTTGTTTATGATCAACAAG	0.428													37	101					0	0	1	0	0		G	191301592	G	G	191301592	4	3	55	1	0	0	0	0	0	1	0	0	9553	1471	51	5	839	5	MFSD6	2	191301592	Nonsense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	568963	191301592	51897781	246	39280											
STAT4	6775	broad.mit.edu	37	chr2	191898232	191898232	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccactttcagaatggtcCacccaggtgaaagttattcc	12	11	7	11	0	1	2	1	1	0	1	3	2	3	2	4	2	1	1	4	2	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:191898232C>A	uc002usm.1	-	20	2090	c.1836G>T	c.(1834-1836)GTG>GTT	p.V612V	STAT4_uc002usn.1_Silent_p.V612V|STAT4_uc010zgk.1_Silent_p.V457V|STAT4_uc002uso.2_Silent_p.V612V	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	612	SH2.				JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			CAGAATGGTCCACCCAGGTGA	0.373													3	27					1.024e-07	1.09393e-07	1	1	0		A	191898232	A	A	191898232	2	1	55	1	0	0	0	0	0	0	0	1	15292	581	21	5		5	STAT4	2	191898232	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	596640	191898232	51301141	247	39281											
SF3B1	23451	broad.mit.edu	37	chr2	198268475	198268475	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgagctttatcagtaatcTgacgcaatgcagcctgggaa	12	9	10	10	2	2	1	1	1	1	0	2	3	2	2	1	1	3	4	1	1	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:198268475T>C	uc002uue.2	-	12	1601	c.1553A>G	c.(1552-1554)CAG>CGG	p.Q518R		NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	518					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			ATCAGTAATCTGACGCAATGC	0.383													4	13					0	0	1	0	0		C	198268475	C	C	198268475	3	2	55	1	0	0	0	0	1	0	0	0	14174	1580	55	3	2417	3	SF3B1	2	198268475	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	6370243	198268475	44930898	248	39282											
SATB2	23314	broad.mit.edu	37	chr2	200298107	200298107	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaataccccagggccaggagCgcagtctccaccagctggct	9	5	12	15	1	1	0	0	0	1	0	2	2	1	1	5	3	3	3	5	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:200298107C>T	uc002uuy.1	-	3	1117	c.300G>A	c.(298-300)GCG>GCA	p.A100A	SATB2_uc010fsq.1_Silent_p.A100A|SATB2_uc002uuz.1_Silent_p.A100A|SATB2_uc002uva.1_Silent_p.A100A	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	100						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGGCCAGGAGCGCAGTCTCCA	0.537													13	34					0	0	1	0	0		T	200298107	T	T	200298107	2	4	55	1	0	0	0	0	0	0	0	1	13879	755	27	1		1	SATB2	2	200298107	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2029632	200298107	42901266	249	39283											
FAM126B	285172	broad.mit.edu	37	chr2	201857667	201857667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcaggatccaatactattCgaccacagagttctttccag	12	12	6	11	1	2	1	1	0	1	1	5	3	4	2	3	1	1	1	3	1	3	6	rs80095445		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:201857667C>T	uc002uws.3	-	9	874	c.686G>A	c.(685-687)CGA>CAA	p.R229Q	FAM126B_uc002uwu.2_Missense_Mutation_p.R147Q|FAM126B_uc002uwv.2_Missense_Mutation_p.R229Q	NM_173822	NP_776183	Q8IXS8	F126B_HUMAN	hypothetical protein LOC285172	229						intracellular				ovary(1)	1						CAATACTATTCGACCACAGAG	0.368													8	38					0	0	1	0	0		T	201857667	T	T	201857667	3	4	55	1	0	0	0	0	1	0	0	0	5441	884	31	1	922	1	FAM126B	2	201857667	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1559560	201857667	41341706	250	39284											
ALS2CR11	151254	broad.mit.edu	37	chr2	202352566	202352566	+	Frame_Shift_Del	DEL	T	-	-																															agccttgatcttgattttacTtttttaaggtgtgtaaatga																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:202352566delT	uc002uye.2	-	15	1689	c.1641delA	c.(1639-1641)AAAfs	p.K547fs	ALS2CR11_uc002uyf.2_Frame_Shift_Del_p.K1744fs|ALS2CR11_uc010fti.2_3'UTR	NM_152525	NP_689738	Q53TS8	AL2SA_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	547										large_intestine(1)|ovary(1)|skin(1)	3						TTGATTTTACTTTTTTAAGGT	0.338													33	72	---	---	---	---						.	-	202352566	-	-	202352566	7	5	55	1	0	1	0	1	0	0	0	0	552	1606	56	0	234	0	ALS2CR11	2	202352566	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	494899	202352566	40846807	251	39285											
ALS2CR4	65062	broad.mit.edu	37	chr2	202494478	202494478	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggtgcactgtaagtgcCacatctctggtggtccagga	7	9	13	12	1	1	0	0	0	1	0	3	1	2	1	3	4	2	2	3	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:202494478C>T	uc002uyh.1	-	9	752	c.651G>A	c.(649-651)GTG>GTA	p.V217V	ALS2CR4_uc002uyg.1_Silent_p.V209V|ALS2CR4_uc010zho.1_Silent_p.V12V|ALS2CR4_uc010zhp.1_RNA	NM_001044385	NP_001037850	Q96Q45	TM237_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	241						integral to membrane	protein binding				0						CTGTAAGTGCCACATCTCTGG	0.418													14	44					0	0	1	0	0		T	202494478	T	T	202494478	2	4	55	1	0	0	0	0	0	0	0	1	554	581	21	4		4	ALS2CR4	2	202494478	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	141912	202494478	40704895	252	39286											
ALS2	57679	broad.mit.edu	37	chr2	202569184	202569184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataaaacagttacctggcccGtagcaccacatataagaaaa	18	7	6	10	1	0	1	0	0	0	1	0	1	0	1	3	1	3	3	3	1	8	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:202569184G>A	uc002uyo.2	-	32	5187	c.4831C>T	c.(4831-4833)CGG>TGG	p.R1611W	ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	1611	VPS9.				cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						TACCTGGCCCGTAGCACCACA	0.438													7	18					0	0	1	0	0		A	202569184	A	A	202569184	3	1	55	1	0	0	0	0	1	0	0	0	550	1144	40	1	154	1	ALS2	2	202569184	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	74706	202569184	40630189	253	39287											
CDK15	65061	broad.mit.edu	37	chr2	202755581	202755581	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttggcctcctaccagaaAggtcaccacccagcccagtt	9	9	7	16	0	1	1	1	0	0	1	2	1	2	1	6	2	2	1	6	2	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:202755581A>G	uc002uyt.2	+	13	1303	c.1254A>G	c.(1252-1254)AAA>AAG	p.K418K	CDK15_uc002uys.2_Silent_p.K373K|CDK15_uc010ftn.1_Silent_p.K373K|CDK15_uc002uyu.1_RNA	NM_139158	NP_631897	Q96Q40	CDK15_HUMAN	PFTAIRE protein kinase 2	424							ATP binding|cyclin-dependent protein kinase activity|metal ion binding|protein binding			breast(2)|ovary(1)|lung(1)|kidney(1)	5					Adenosine triphosphate(DB00171)	CCTACCAGAAAGGTCACCACC	0.473													7	23					0	0	1	0	0		G	202755581	G	G	202755581	2	3	55	1	0	0	0	0	0	0	0	1	3134	69	3	3		3	CDK15	2	202755581	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	186397	202755581	40443792	254	39288											
FZD7	8324	broad.mit.edu	37	chr2	202899487	202899487	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagccgtaccacggagagaaGggcatctccgtgccggacca	10	4	13	14	4	1	1	0	0	1	1	2	4	1	3	5	3	3	2	5	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:202899487G>T	uc002uyw.1	+	1	178	c.117G>T	c.(115-117)AAG>AAT	p.K39N		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	39	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(2)|ovary(1)|breast(1)	4						ACGGAGAGAAGGGCATCTCCG	0.706													17	47					4.63292e-17	5.11461e-17	1	1	0		T	202899487	T	T	202899487	3	4	55	1	0	0	0	0	1	0	0	0	6149	991	35	5	119	5	FZD7	2	202899487	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	143906	202899487	40299886	255	39289											
BMPR2	659	broad.mit.edu	37	chr2	203384850	203384850	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtctccacacaagtgactGggtaagctcttgccgtcttg	9	11	10	11	1	3	1	0	1	3	0	4	1	3	1	2	1	2	2	2	1	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:203384850G>A	uc002uzf.3	+	7	2041	c.893G>A	c.(892-894)TGG>TAG	p.W298*	BMPR2_uc010ftr.2_Nonsense_Mutation_p.W298*	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	298	Protein kinase.|Cytoplasmic (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						ACAAGTGACTGGGTAAGCTCT	0.363													10	26					0	0	1	0	0		A	203384850	A	A	203384850	4	1	55	1	0	0	0	0	0	1	0	0	1472	1357	47	4	919	4	BMPR2	2	203384850	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	485363	203384850	39814523	256	39290											
ICA1L	130026	broad.mit.edu	37	chr2	203686126	203686126	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgccagtggcatccatcAttttgccagcttgagttgca	7	13	9	12	0	1	1	1	1	0	0	2	1	2	1	4	1	4	4	4	1	0	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:203686126A>G	uc002uzh.1	-	5	478	c.314T>C	c.(313-315)ATG>ACG	p.M105T	ICA1L_uc002uzi.1_Missense_Mutation_p.M105T|ICA1L_uc002uzj.2_Missense_Mutation_p.M105T	NM_138468	NP_612477	Q8NDH6	ICA1L_HUMAN	islet cell autoantigen 1,69kDa-like isoform 1	105	AH.										0						GGCATCCATCATTTTGCCAGC	0.388													4	108					0	0	1	0	0		G	203686126	G	G	203686126	3	3	55	1	0	0	0	0	1	0	0	0	7494	217	8	3	1174	3	ICA1L	2	203686126	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	301276	203686126	39513247	257	39291											
C2orf67	151050	broad.mit.edu	37	chr2	210993825	210993825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attctaggtctgaaatctgaGcttgaagccaagtccatcgg	11	11	10	9	1	3	3	0	3	3	0	5	3	4	3	2	2	2	1	2	2	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:210993825G>A	uc002vds.2	-	3	1368	c.1160C>T	c.(1159-1161)GCT>GTT	p.A387V	C2orf67_uc002vdt.2_Missense_Mutation_p.A387V|C2orf67_uc002vdw.2_Missense_Mutation_p.A387V|C2orf67_uc002vdv.2_Missense_Mutation_p.A387V|C2orf67_uc002vdx.1_Missense_Mutation_p.A387V	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	387										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		TGAAATCTGAGCTTGAAGCCA	0.428													35	67					0	0	1	0	0		A	210993825	A	A	210993825	3	1	55	1	0	0	0	0	1	0	0	0	2189	971	34	2	1855	2	C2orf67	2	210993825	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	7307699	210993825	32205548	258	39292											
USP37	57695	broad.mit.edu	37	chr2	219423238	219423238	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctgaaatatccttggaaTtcctccagtattgtagtgaa	12	14	7	8	0	0	2	0	2	0	0	3	3	3	3	4	1	1	2	4	1	7	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:219423238T>C	uc002vie.2	-	4	592	c.139A>G	c.(139-141)ATT>GTT	p.I47V	USP37_uc010fvs.1_Missense_Mutation_p.I47V|USP37_uc010zkf.1_Missense_Mutation_p.I47V|USP37_uc002vif.2_Missense_Mutation_p.I47V|USP37_uc002vig.2_Intron|USP37_uc010zkg.1_Missense_Mutation_p.I47V	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	47					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		ATCCTTGGAATTCCTCCAGTA	0.348													6	160					0	0	1	0	0		C	219423238	C	C	219423238	3	2	55	1	0	0	0	0	1	0	0	0	17094	1493	52	3	2892	3	USP37	2	219423238	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	8429413	219423238	23776135	259	39293											
STK36	27148	broad.mit.edu	37	chr2	219558685	219558685	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctctcccttcttgtctttcGgctccaaaacctgccttgtg	4	15	6	16	1	3	0	0	0	3	0	6	0	4	0	5	1	2	1	5	1	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:219558685G>A	uc002viu.2	+	19	2581	c.2315G>A	c.(2314-2316)CGG>CAG	p.R772Q	STK36_uc002viv.2_Missense_Mutation_p.R772Q|STK36_uc002viw.2_5'Flank|STK36_uc002vix.2_5'Flank	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	772					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		CTTGTCTTTCGGCTCCAAAAC	0.438													18	42					0	0	1	0	0		A	219558685	A	A	219558685	3	1	55	1	0	0	0	0	1	0	0	0	15327	1116	39	1	2385	1	STK36	2	219558685	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	135447	219558685	23640688	260	39294											
WNT6	7475	broad.mit.edu	37	chr2	219736402	219736402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccccggaaggcagcgccgCctgggagtggggaggctgcg	5	4	19	13	4	0	0	0	0	0	0	1	3	1	3	4	6	2	2	4	6	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:219736402C>T	uc002vjc.1	+	3	712	c.497C>T	c.(496-498)GCC>GTC	p.A166V		NM_006522	NP_006513	Q9Y6F9	WNT6_HUMAN	wingless-type MMTV integration site family,	166					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|cornea development in camera-type eye|neuron differentiation|odontogenesis of dentine-containing tooth|positive regulation of gene expression|positive regulation of tooth mineralization|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			ovary(2)|skin(1)	3		Renal(207;0.0474)		Epithelial(149;4.53e-07)|all cancers(144;9.3e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGCAGCGCCGCCTGGGAGTGG	0.448													3	7					0	0	1	0	0		T	219736402	T	T	219736402	3	4	55	1	0	0	0	0	1	0	0	0	17419	739	26	2	507	2	WNT6	2	219736402	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	177717	219736402	23462971	261	39295											
CCDC108	255101	broad.mit.edu	37	chr2	219895916	219895916	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcgtagatgacggctgtaagGggctgaaaggtcaccttgat	10	10	14	7	2	1	4	1	3	0	1	2	4	1	4	1	4	0	4	1	4	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:219895916G>T	uc002vjl.1	-	8	1011	c.927C>A	c.(925-927)CCC>CCA	p.P309P	CCDC108_uc010fwa.1_5'Flank|CCDC108_uc010zkp.1_Silent_p.P298P|CCDC108_uc010zkq.1_Silent_p.P244P	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	309						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CGGCTGTAAGGGGCTGAAAGG	0.652													4	9					0.00198382	0.00203017	1	1	0		T	219895916	T	T	219895916	2	4	55	1	0	0	0	0	0	0	0	1	2746	1219	43	5		5	CCDC108	2	219895916	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	159514	219895916	23303457	262	39296											
PTPRN	5798	broad.mit.edu	37	chr2	220162723	220162723	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccacagccagagccaccaGcagcccagccacacctgcca	12	1	8	20	0	0	1	0	0	0	1	0	1	0	1	8	0	7	1	8	0	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:220162723G>A	uc002vkz.2	-	13	1860	c.1771C>T	c.(1771-1773)CTG>TTG	p.L591L	PTPRN_uc010zlc.1_Silent_p.L501L|PTPRN_uc002vla.2_Silent_p.L562L	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	591	Helical; (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		AGAGCCACCAGCAGCCCAGCC	0.677													7	26					0	0	1	0	0		A	220162723	A	A	220162723	2	1	55	1	0	0	0	0	0	0	0	1	12832	962	34	2		2	PTPRN	2	220162723	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	266807	220162723	23036650	263	39297											
PTPRN	5798	broad.mit.edu	37	chr2	220166399	220166399	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagctgacgcagctctaccCcatagcccgccagcacagcg	9	5	9	18	3	2	1	1	1	1	0	2	1	2	1	4	0	6	4	4	0	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:220166399C>A	uc002vkz.2	-	7	1126	c.1037G>T	c.(1036-1038)GGG>GTG	p.G346V	PTPRN_uc010zlc.1_Missense_Mutation_p.G256V|PTPRN_uc002vla.2_Missense_Mutation_p.G346V	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	346	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		CAGCTCTACCCCATAGCCCGC	0.612													7	20					0.0293803	0.0296682	1	1	0		A	220166399	A	A	220166399	3	1	55	1	0	0	0	0	1	0	0	0	12832	623	22	5	1970	5	PTPRN	2	220166399	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3676	220166399	23032974	264	39298											
GMPPA	29926	broad.mit.edu	37	chr2	220371072	220371072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagtgaccctaaccccaacGatccccgagcccgcatggac	10	4	8	19	3	0	1	0	1	0	0	1	4	1	2	7	1	3	1	7	1	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:220371072G>A	uc002vlr.2	+	12	1158	c.1090G>A	c.(1090-1092)GAT>AAT	p.D364N	GMPPA_uc002vls.2_Missense_Mutation_p.D364N|GMPPA_uc002vlt.2_Missense_Mutation_p.D417N|GMPPA_uc002vlu.2_Missense_Mutation_p.D417N|GMPPA_uc002vlv.2_Missense_Mutation_p.D364N|GMPPA_uc002vlw.2_RNA|GMPPA_uc002vlx.2_Missense_Mutation_p.D364N	NM_013335	NP_037467	Q96IJ6	GMPPA_HUMAN	GDP-mannose pyrophosphorylase A	364					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0		Renal(207;0.0183)		Epithelial(149;3.82e-10)|all cancers(144;6.25e-08)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00807)|READ - Rectum adenocarcinoma(5;0.148)		TAACCCCAACGATCCCCGAGC	0.657													10	25					0	0	1	0	0		A	220371072	A	A	220371072	3	1	55	1	0	0	0	0	1	0	0	0	6509	1058	37	1	1132	1	GMPPA	2	220371072	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	204673	220371072	22828301	265	39299											
ACCN4	55515	broad.mit.edu	37	chr2	220379398	220379398	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcaccagggctgctggctagGgagggacagggcagggaggc	8	3	21	9	0	0	0	0	0	0	0	0	3	0	3	1	7	1	5	1	7	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:220379398G>A	uc002vma.2	+	1	347	c.333G>A	c.(331-333)AGG>AGA	p.R111R	ACCN4_uc010fwi.1_Silent_p.R111R|ACCN4_uc010fwj.1_Silent_p.R111R|ACCN4_uc002vly.1_Silent_p.R111R|ACCN4_uc002vlz.2_Silent_p.R111R|ACCN4_uc002vmb.2_5'Flank	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	111						integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		TGCTGGCTAGGGAGGGACAGG	0.627													7	16					0	0	1	0	0		A	220379398	A	A	220379398	2	1	55	1	0	0	0	0	0	0	0	1	131	1223	43	4		4	ACCN4	2	220379398	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	8326	220379398	22819975	266	39300											
OBSL1	23363	broad.mit.edu	37	chr2	220432935	220432935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagccgctggtcctcaCggaaccaggccgtggggatg	7	5	16	13	3	1	0	1	0	0	0	2	2	2	2	4	5	3	3	4	5	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:220432935C>T	uc010fwk.2	-	2	1181	c.1124G>A	c.(1123-1125)CGT>CAT	p.R375H	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Missense_Mutation_p.R375H|OBSL1_uc002vmj.2_Translation_Start_Site	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	375	Ig-like 4.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		CTGGTCCTCACGGAACCAGGC	0.637											OREG0003988	type=REGULATORY REGION|Gene=OBSL1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	8	12					0	0	1	0	0		T	220432935	T	T	220432935	3	4	55	1	0	0	0	0	1	0	0	0	10832	536	19	1	4798	1	OBSL1	2	220432935	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	53537	220432935	22766438	267	39301											
KIAA1486	57624	broad.mit.edu	37	chr2	226447270	226447270	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacagccagccggggcgtcGccctccacgctgccgtccca	7	4	11	19	5	0	0	0	0	0	0	3	0	2	0	6	2	4	1	6	2	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:226447270G>A	uc002voe.2	+	4	1312	c.1137G>A	c.(1135-1137)TCG>TCA	p.S379S	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Silent_p.S149S	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	379	Pro-rich.									ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		CCGGGGCGTCGCCCTCCACGC	0.667													4	10					0	0	1	0	0		A	226447270	A	A	226447270	2	1	55	1	0	0	0	0	0	0	0	1	8253	1074	38	1		1	KIAA1486	2	226447270	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6014335	226447270	16752103	268	39302											
COL4A3	1285	broad.mit.edu	37	chr2	228128641	228128641	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtcttccaggatcaccGggacctccaggaccgccagg	8	5	12	16	2	2	0	1	0	1	0	4	3	4	3	7	5	0	0	7	5	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:228128641G>A	uc002vom.1	+	21	1458	c.1296G>A	c.(1294-1296)CCG>CCA	p.P432P	COL4A3_uc002von.1_Silent_p.P432P|COL4A3_uc002voo.1_Silent_p.P432P|COL4A3_uc002vop.1_Silent_p.P432P|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	432	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		CAGGATCACCGGGACCTCCAG	0.577													21	35					0	0	1	0	0		A	228128641	A	A	228128641	2	1	55	1	0	0	0	0	0	0	0	1	3694	1103	39	1		1	COL4A3	2	228128641	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1681371	228128641	15070732	269	39303											
TRIP12	9320	broad.mit.edu	37	chr2	230659897	230659897	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcaatggtccttacctGcctcctgtcccatttccact	6	12	6	17	0	0	0	0	0	0	0	4	0	4	0	7	2	2	1	7	2	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:230659897G>A	uc002vpw.1	-	25	3850	c.3741C>T	c.(3739-3741)GGC>GGT	p.G1247G	TRIP12_uc002vpx.1_Silent_p.G1295G|TRIP12_uc002vpy.1_Silent_p.G977G	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1247					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		GTCCTTACCTGCCTCCTGTCC	0.448													18	79					0	0	1	0	0		A	230659897	A	A	230659897	2	1	55	1	0	0	0	0	0	0	0	1	16582	1306	46	2		2	TRIP12	2	230659897	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2531256	230659897	12539476	270	39304											
TRIP12	9320	broad.mit.edu	37	chr2	230673018	230673018	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggcttcgtggaacaagAtcaatctgttcctgacaact	11	11	10	9	1	2	3	1	2	1	1	4	4	3	4	1	2	2	2	1	2	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:230673018A>T	uc002vpw.1	-	15	2254	c.2145T>A	c.(2143-2145)GAT>GAA	p.D715E	TRIP12_uc002vpx.1_Missense_Mutation_p.D763E|TRIP12_uc002vpy.1_Missense_Mutation_p.D418E|TRIP12_uc010zlz.1_Intron|TRIP12_uc010fxh.1_Missense_Mutation_p.D721E	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	715					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		GTGGAACAAGATCAATCTGTT	0.343													20	54					0	0	1	0	0		T	230673018	T	T	230673018	3	4	55	1	0	0	0	0	1	0	0	0	16582	330	12	5	3941	5	TRIP12	2	230673018	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	13121	230673018	12526355	271	39305											
SLC16A14	151473	broad.mit.edu	37	chr2	230911029	230911029	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacatgttcttcctgtgcccGgcctgatcggggcactcctg	4	11	11	15	2	1	1	0	1	1	0	4	1	3	1	4	3	1	2	4	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:230911029G>A	uc002vqd.1	-	4	1176	c.813C>T	c.(811-813)GCC>GCT	p.A271A	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Silent_p.A271A|SLC16A14_uc002vqf.2_Silent_p.A271A	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	271	Extracellular (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		TCCTGTGCCCGGCCTGATCGG	0.587													33	85					0	0	1	0	0		A	230911029	A	A	230911029	2	1	55	1	0	0	0	0	0	0	0	1	14432	1103	39	1		1	SLC16A14	2	230911029	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	238011	230911029	12288344	272	39306											
GPR55	9290	broad.mit.edu	37	chr2	231775360	231775360	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagatggtgaagacgcttccGtacatgctgacgaagtaaag	13	8	12	8	3	0	4	0	2	0	2	1	5	1	4	1	1	2	4	1	1	5	3	rs139163265	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:231775360G>A	uc002vrg.2	-	2	511	c.318C>T	c.(316-318)TAC>TAT	p.Y106Y	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Silent_p.Y106Y	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	106	Helical; Name=3; (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		AGACGCTTCCGTACATGCTGA	0.582													10	25					0	0	1	0	0		A	231775360	A	A	231775360	2	1	55	1	0	0	0	0	0	0	0	1	6714	1140	40	1		1	GPR55	2	231775360	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	864331	231775360	11424013	273	39307											
ALPP	250	broad.mit.edu	37	chr2	233246071	233246071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccggatgttaccgagagcGagagcggtgagtgccgcggg	7	5	20	9	6	0	3	0	1	0	2	0	6	0	4	3	4	4	1	3	4	1	1	rs146681711		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:233246071G>A	uc002vsq.2	+	10	1468	c.1303G>A	c.(1303-1305)GAG>AAG	p.E435K	ALPP_uc002vsr.2_RNA	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	435						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		TACCGAGAGCGAGAGCGGTGA	0.672													6	42					0	0	1	0	0		A	233246071	A	A	233246071	3	1	55	1	0	0	0	0	1	0	0	0	548	1059	37	1	1341	1	ALPP	2	233246071	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1470711	233246071	9953302	274	39308											
ALPI	248	broad.mit.edu	37	chr2	233323406	233323406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcctgtacggcaatggcccGggctacgtgttcaactcagg	8	9	12	12	3	2	0	2	0	0	0	3	0	3	0	2	4	3	4	2	4	4	3	rs144515683		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:233323406G>A	uc002vst.3	+	10	1325	c.1248G>A	c.(1246-1248)CCG>CCA	p.P416P	ALPI_uc002vsu.3_Silent_p.P327P	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	416					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GCAATGGCCCGGGCTACGTGT	0.622													6	41					0	0	1	0	0		A	233323406	A	A	233323406	2	1	55	1	0	0	0	0	0	0	0	1	543	1103	39	1		1	ALPI	2	233323406	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	77335	233323406	9875967	275	39309											
KCNJ13	3769	broad.mit.edu	37	chr2	233633173	233633173	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctcctgcattgctgaaaGgaatacaactaattcaaagt	14	10	7	10	0	1	1	1	1	0	0	2	2	2	2	2	1	4	2	2	1	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:233633173G>T	uc002vto.2	-	2	854	c.811C>A	c.(811-813)CTT>ATT	p.L271I	GIGYF2_uc010zmj.1_Intron|GIGYF2_uc002vtg.2_Intron|GIGYF2_uc002vtj.3_Intron|GIGYF2_uc002vti.3_Intron|GIGYF2_uc002vtk.3_Intron|GIGYF2_uc002vth.3_Intron|GIGYF2_uc010zmk.1_Intron|GIGYF2_uc010zml.1_Intron|KCNJ13_uc002vtn.2_3'UTR|KCNJ13_uc002vtp.2_Missense_Mutation_p.L271I	NM_002242	NP_002233	O60928	IRK13_HUMAN	potassium inwardly-rectifying channel J13	271	Cytoplasmic (By similarity).					voltage-gated potassium channel complex	inward rectifier potassium channel activity				0		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0306)|Lung NSC(271;0.0908)		Epithelial(121;5.9e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0617)		ATTGCTGAAAGGAATACAACT	0.433													5	136					2.0095e-06	2.11959e-06	1	1	0		T	233633173	T	T	233633173	3	4	55	1	0	0	0	0	1	0	0	0	8063	1000	35	5	275	5	KCNJ13	2	233633173	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	309767	233633173	9566200	276	39310											
UGT1A5	54579	broad.mit.edu	37	chr2	234622109	234622109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacccctttcacctctgcGcggcggtgctggctaagtac	6	9	11	15	3	2	1	1	0	1	1	2	1	2	1	3	3	3	3	3	3	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:234622109G>A	uc002vuw.2	+	1	472	c.472G>A	c.(472-474)GCG>ACG	p.A158T	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Missense_Mutation_p.A158T	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	158					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		TCACCTCTGCGCGGCGGTGCT	0.493													67	102					0	0	1	0	0		A	234622109	A	A	234622109	3	1	55	1	0	0	0	0	1	0	0	0	16974	1087	38	1	474	1	UGT1A5	2	234622109	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	988936	234622109	8577264	277	39311											
ARL4C	10123	broad.mit.edu	37	chr2	235404797	235404797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggataagctcgtgcagcGccagctgcttctcaatctct	7	10	10	14	3	2	0	1	0	2	0	5	1	2	1	2	1	5	4	2	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:235404797G>A	uc002vvn.2	-	1	897	c.434C>T	c.(433-435)GCG>GTG	p.A145V	ARL4C_uc002vvm.3_Missense_Mutation_p.A145V	NM_005737	NP_005728	P56559	ARL4C_HUMAN	ADP-ribosylation factor-like 4C	145					endocytic recycling|small GTPase mediated signal transduction	cytoplasm|filopodium|nucleus|plasma membrane	alpha-tubulin binding|GTP binding|GTPase activity			skin(1)	1		Breast(86;0.000596)|Renal(207;0.00339)|all_lung(227;0.00354)|all_hematologic(139;0.0494)|Lung NSC(271;0.0496)|Lung SC(224;0.164)|all_neural(83;0.173)		Epithelial(121;2.6e-19)|BRCA - Breast invasive adenocarcinoma(100;0.000296)|Lung(119;0.002)|LUSC - Lung squamous cell carcinoma(224;0.0048)		CTCGTGCAGCGCCAGCTGCTT	0.637													8	32					0	0	1	0	0		A	235404797	A	A	235404797	3	1	55	1	0	0	0	0	1	0	0	0	938	1087	38	1	148	1	ARL4C	2	235404797	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	782688	235404797	7794576	278	39312											
AGAP1	116987	broad.mit.edu	37	chr2	236706491	236706491	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctcccagccattcctcCgtctgttccgcgcaggtgtc	5	12	8	16	3	2	0	0	0	2	0	7	0	5	0	5	1	1	2	5	1	1	3	rs150458947		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:236706491C>T	uc002vvs.2	+	7	1357	c.762C>T	c.(760-762)TCC>TCT	p.S254S	AGAP1_uc002vvt.2_Silent_p.S254S	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	254	Small GTPase-like.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						GCCATTCCTCCGTCTGTTCCG	0.507													33	144					0	0	1	0	0		T	236706491	T	T	236706491	2	4	55	1	0	0	0	0	0	0	0	1	366	639	23	1		1	AGAP1	2	236706491	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1301694	236706491	6492882	279	39313											
LRRFIP1	9208	broad.mit.edu	37	chr2	238672491	238672491	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaatagatggtgccactcAaagcagtcctgcagaaccaa	16	7	8	10	0	1	2	1	0	0	2	2	2	2	2	3	1	4	2	3	1	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:238672491A>G	uc002vxe.2	+	11	2427	c.2135A>G	c.(2134-2136)CAA>CGA	p.Q712R	LRRFIP1_uc002vxc.2_Intron|LRRFIP1_uc010znm.1_Intron|LRRFIP1_uc002vxd.2_Missense_Mutation_p.Q688R|LRRFIP1_uc002vxf.2_Missense_Mutation_p.Q656R	NM_001137552	NP_001131024	Q32MZ4	LRRF1_HUMAN	leucine rich repeat (in FLII) interacting	712					negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|cytoskeleton|nucleus	DNA binding|double-stranded RNA binding|protein binding			breast(3)	3		Breast(86;0.00257)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;9.75e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.01e-10)|Kidney(56;4.85e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.31e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000151)|Lung(119;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0325)|COAD - Colon adenocarcinoma(134;0.228)		GGTGCCACTCAAAGCAGTCCT	0.488													8	44					0	0	1	0	0		G	238672491	G	G	238672491	3	3	55	1	0	0	0	0	1	0	0	0	9045	130	5	3	2853	3	LRRFIP1	2	238672491	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1966000	238672491	4526882	280	39314											
TRAF3IP1	26146	broad.mit.edu	37	chr2	239234487	239234487	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcttcctacaaaaggccaTagacgtggttgtaatggtgt	11	12	11	7	1	0	1	0	0	0	1	1	1	1	1	2	3	2	3	2	3	6	6	rs143375220		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:239234487T>C	uc002vye.2	+	3	349	c.230T>C	c.(229-231)ATA>ACA	p.I77T	TRAF3IP1_uc002vyf.2_Missense_Mutation_p.I77T	NM_015650	NP_056465	Q8TDR0	MIPT3_HUMAN	TNF receptor-associated factor 3 interacting	77	Abolishes microtubules-binding when missing.					cytoplasm|cytoskeleton	protein binding			ovary(1)	1		all_epithelial(40;3.22e-10)|Breast(86;0.000523)|Renal(207;0.00571)|Ovarian(221;0.156)|all_hematologic(139;0.182)		Epithelial(121;9.92e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.85e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.01e-07)|BRCA - Breast invasive adenocarcinoma(100;7.72e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0184)		CAAAAGGCCATAGACGTGGTT	0.433													5	56					0	0	1	0	0		C	239234487	C	C	239234487	3	2	55	1	0	0	0	0	1	0	0	0	16466	1406	49	3	240	3	TRAF3IP1	2	239234487	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	561996	239234487	3964886	281	39315											
PRR21	643905	broad.mit.edu	37	chr2	240981360	240981360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagctgtggctgaagaggCgtagatgaagagacttggat	13	8	16	4	1	0	6	0	2	0	4	0	8	0	7	0	3	1	3	0	3	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:240981360C>T	uc010zod.1	-	1	1040	c.1040G>A	c.(1039-1041)CGC>CAC	p.R347H		NM_001080835	NP_001074304	Q8WXC7	PRR21_HUMAN	proline rich 21	347										ovary(1)|skin(1)	2						GCTGAAGAGGCGTAGATGAAG	0.557													5	57					0	0	1	0	0		T	240981360	T	T	240981360	3	4	55	1	0	0	0	0	1	0	0	0	12614	768	27	1	132	1	PRR21	2	240981360	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1746873	240981360	2218013	282	39316											
PRR21	643905	broad.mit.edu	37	chr2	240982089	240982089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggcatggacgaagggccGtgggtgaagaggcatggacg	11	4	20	6	3	0	3	0	1	0	2	0	6	0	5	1	6	0	2	1	6	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:240982089G>A	uc010zod.1	-	1	311	c.311C>T	c.(310-312)ACG>ATG	p.T104M		NM_001080835	NP_001074304	Q8WXC7	PRR21_HUMAN	proline rich 21	104	Pro-rich.									ovary(1)|skin(1)	2						ACGAAGGGCCGTGGGTGAAGA	0.622													15	95					0	0	1	0	0		A	240982089	A	A	240982089	3	1	55	1	0	0	0	0	1	0	0	0	12614	1145	40	1	861	1	PRR21	2	240982089	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	729	240982089	2217284	283	39317											
KIF1A	547	broad.mit.edu	37	chr2	241664737	241664737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaggttgcggatggagcGcgaggctggcagcttggcat	9	7	18	7	3	0	1	0	0	0	1	0	4	0	3	0	6	3	5	0	6	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:241664737G>A	uc002vzy.2	-	38	4050	c.3904C>T	c.(3904-3906)CGC>TGC	p.R1302C	KIF1A_uc010fzk.2_Missense_Mutation_p.R1403C|KIF1A_uc002vzz.1_Missense_Mutation_p.R1411C|KIF1A_uc002vzw.2_5'Flank|KIF1A_uc002vzx.2_Missense_Mutation_p.R29C	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	1302					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		CGGATGGAGCGCGAGGCTGGC	0.612													3	4					0	0	1	0	0		A	241664737	A	A	241664737	3	1	55	1	0	0	0	0	1	0	0	0	8299	1087	38	1	1208	1	KIF1A	2	241664737	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	682648	241664737	1534636	284	39318											
ANO7	50636	broad.mit.edu	37	chr2	242135234	242135234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agacttttctggataatcttCgtgcggctgggctgtgtgta	6	15	13	7	2	2	1	0	0	2	1	3	2	2	2	0	3	1	3	0	3	2	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr2:242135234C>T	uc002wax.2	+	4	548	c.445C>T	c.(445-447)CGT>TGT	p.R149C	ANO7_uc002waw.2_Missense_Mutation_p.R148C	NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	149	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						GGATAATCTTCGTGCGGCTGG	0.607													22	35					0	0	1	0	0		T	242135234	T	T	242135234	3	4	55	1	0	0	0	0	1	0	0	0	702	884	31	1	459	1	ANO7	2	242135234	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	470497	242135234	1064139	285	39319											
GRM7	2917	broad.mit.edu	37	chr3	6903441	6903441	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcgaacagtcgcttactttCgtccaggcgctcatccagaa	9	10	8	14	4	1	1	1	0	0	1	6	2	3	1	2	1	2	2	2	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:6903441C>T	uc003bqm.2	+	1	640	c.366C>T	c.(364-366)TTC>TTT	p.F122F	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Silent_p.F122F|GRM7_uc003bql.2_Silent_p.F122F	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	122	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding	p.F122L(1)		ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	CGCTTACTTTCGTCCAGGCGC	0.592													14	23					0	0	1	0	0		T	6903441	T	T	6903441	2	4	55	1	0	0	0	0	0	0	0	1	6818	883	31	1		1	GRM7	3	6903441	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08		6903441	191118989	286	39320											
CAV3	859	broad.mit.edu	37	chr3	8787245	8787245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgtgatcgcagagcctgtgGgcacctacagctttgacggc	8	8	13	12	3	0	3	0	2	0	1	1	3	0	3	2	2	3	3	2	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:8787245G>A	uc003bra.2	+	2	215	c.148G>A	c.(148-150)GGC>AGC	p.G50S	C3orf32_uc003bqz.2_5'Flank|CAV3_uc003brb.2_Missense_Mutation_p.G50S	NM_001234	NP_001225	P56539	CAV3_HUMAN	caveolin 3	50	Cytoplasmic (Potential).				cell growth|elevation of cytosolic calcium ion concentration|muscle organ development|negative regulation of cardiac muscle hypertrophy|negative regulation of cell size|negative regulation of MAP kinase activity|negative regulation of sarcomere organization|positive regulation of microtubule polymerization|regulation of skeletal muscle contraction|regulation of ventricular cardiomyocyte membrane repolarization|T-tubule organization	caveola|dystrophin-associated glycoprotein complex|Golgi membrane|neuromuscular junction|T-tubule	protein C-terminus binding|protein complex binding|protein complex scaffold|sodium channel regulator activity			lung(1)|breast(1)	2						AGAGCCTGTGGGCACCTACAG	0.577													9	30					0	0	1	0	0		A	8787245	A	A	8787245	3	1	55	1	0	0	0	0	1	0	0	0	2698	1232	43	4	154	4	CAV3	3	8787245	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1883804	8787245	189235185	287	39321											
ATP2B2	491	broad.mit.edu	37	chr3	10382254	10382254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaagacattgcgctcgcCgtggatcttgcgggcgttga	7	10	14	10	5	2	2	1	1	1	1	3	3	2	3	1	2	2	2	1	2	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:10382254C>T	uc003bvt.2	-	20	3491	c.3052G>A	c.(3052-3054)GGC>AGC	p.G1018S	ATP2B2_uc003bvv.2_Missense_Mutation_p.G973S|ATP2B2_uc003bvw.2_Missense_Mutation_p.G973S|ATP2B2_uc010hdo.2_Missense_Mutation_p.G723S	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	1018	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						TTGCGCTCGCCGTGGATCTTG	0.572													36	60					0	0	1	0	0		T	10382254	T	T	10382254	3	4	55	1	0	0	0	0	1	0	0	0	1141	652	23	1	695	1	ATP2B2	3	10382254	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1595009	10382254	187640176	288	39322											
ATP2B2	491	broad.mit.edu	37	chr3	10382279	10382279	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcttgcgggcgttgatctcGttgaagagctgcatcatgac	8	12	12	9	3	3	4	1	3	2	1	4	4	3	4	0	1	3	4	0	1	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:10382279G>A	uc003bvt.2	-	20	3466	c.3027C>T	c.(3025-3027)AAC>AAT	p.N1009N	ATP2B2_uc003bvv.2_Silent_p.N964N|ATP2B2_uc003bvw.2_Silent_p.N964N|ATP2B2_uc010hdo.2_Silent_p.N714N	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	1009	Helical; (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CGTTGATCTCGTTGAAGAGCT	0.562													30	88					0	0	1	0	0		A	10382279	A	A	10382279	2	1	55	1	0	0	0	0	0	0	0	1	1141	1136	40	1		1	ATP2B2	3	10382279	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	25	10382279	187640151	289	39323											
SLC6A6	6533	broad.mit.edu	37	chr3	14523278	14523278	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgggctggagcctggccCtttcctccatgctctgcgtt	2	12	13	14	1	1	0	0	0	1	0	3	1	3	1	4	4	3	4	4	4	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:14523278C>A	uc010heg.2	+	21	1942	c.1651C>A	c.(1651-1653)CTT>ATT	p.L551I	SLC6A6_uc003byq.2_Missense_Mutation_p.L551I|SLC6A6_uc003byr.2_RNA	NM_001134367	NP_001127839	P31641	SC6A6_HUMAN	solute carrier family 6 (neurotransmitter	551	Helical; Name=12; (Potential).				cellular amino acid metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity|taurine:sodium symporter activity			ovary(1)	1						GAGCCTGGCCCTTTCCTCCAT	0.592													14	63					7.93312e-07	8.39808e-07	1	1	0		A	14523278	A	A	14523278	3	1	55	1	0	0	0	0	1	0	0	0	14713	681	24	5	1701	5	SLC6A6	3	14523278	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4140999	14523278	183499152	290	39324											
ZFYVE20	64145	broad.mit.edu	37	chr3	15123964	15123964	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgcagtgtgtacagcaGcggatccggtcatcgtcctt	6	12	11	12	3	1	0	1	0	0	0	5	1	4	1	3	2	4	3	3	2	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:15123964G>A	uc003bzm.1	-	9	1364	c.750C>T	c.(748-750)CGC>CGT	p.R250R	ZFYVE20_uc010hek.1_Silent_p.R250R|ZFYVE20_uc011avn.1_Intron	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	250	FYVE-type.|Necessary for the correct targeting to endosomes.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						GTGTACAGCAGCGGATCCGGT	0.577													4	72					0	0	1	0	0		A	15123964	A	A	15123964	2	1	55	1	0	0	0	0	0	0	0	1	17691	958	34	2		2	ZFYVE20	3	15123964	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	600686	15123964	182898466	291	39325											
ZFYVE20	64145	broad.mit.edu	37	chr3	15137584	15137584	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaggcacagagggcagAggaagccctccctcacttcc	9	6	10	16	0	2	2	2	0	0	2	4	3	4	3	4	3	1	2	4	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:15137584A>C	uc003bzm.1	-	4	658	c.44T>G	c.(43-45)CTC>CGC	p.L15R	ZFYVE20_uc010hek.1_Missense_Mutation_p.L15R|ZFYVE20_uc011avn.1_Missense_Mutation_p.L15R	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	15	C2H2-type.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						CAGAGGGCAGAGGAAGCCCTC	0.537													10	45					0	0	1	0	0		C	15137584	C	C	15137584	3	2	55	1	0	0	0	0	1	0	0	0	17691	304	11	5	2354	5	ZFYVE20	3	15137584	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	13620	15137584	182884846	292	39326											
OXNAD1	92106	broad.mit.edu	37	chr3	16312535	16312535	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtattgaggctgcgtcaCtgagattgacactcagcact	9	11	10	11	2	2	3	2	3	0	1	3	4	3	3	1	1	2	3	1	1	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:16312535C>T	uc003caw.2	+	3	533	c.76C>T	c.(76-78)CTG>TTG	p.L26L	OXNAD1_uc010her.1_RNA|OXNAD1_uc003cax.2_Silent_p.L26L|OXNAD1_uc011awb.1_Silent_p.L44L	NM_138381	NP_612390	Q96HP4	OXND1_HUMAN	oxidoreductase NAD-binding domain containing 1	26							oxidoreductase activity			skin(1)	1						GGCTGCGTCACTGAGATTGAC	0.488													4	130					0	0	1	0	0		T	16312535	T	T	16312535	2	4	55	1	0	0	0	0	0	0	0	1	11352	564	20	4		4	OXNAD1	3	16312535	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1174951	16312535	181709895	293	39327											
NEK10	152110	broad.mit.edu	37	chr3	27161345	27161345	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggctcaatcggttctggAgatccctgagataactgaaa	11	11	11	8	1	2	3	1	2	1	2	4	5	3	3	1	3	1	2	1	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:27161345A>T	uc010hfk.2	-	14	1432	c.1203T>A	c.(1201-1203)TCT>TCA	p.S401S	NEK10_uc010hfj.2_Silent_p.S344S			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	1089							ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						TCGGTTCTGGAGATCCCTGAG	0.423													23	44					0	0	1	0	0		T	27161345	T	T	27161345	2	4	55	1	0	0	0	0	0	0	0	1	10341	319	11	5		5	NEK10	3	27161345	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	10848810	27161345	170861085	294	39328											
TRIM71	131405	broad.mit.edu	37	chr3	32860341	32860341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcgcagcagctcgggctcGggccgccctttcccggcccg	2	5	15	19	7	0	0	0	0	0	0	3	0	1	0	4	4	2	4	4	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:32860341G>A	uc003cff.2	+	1	832	c.769G>A	c.(769-771)GGG>AGG	p.G257R		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	257					multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						GCTCGGGCTCGGGCCGCCCTT	0.731													7	13					0	0	1	0	0		A	32860341	A	A	32860341	3	1	55	1	0	0	0	0	1	0	0	0	16570	1116	39	1	771	1	TRIM71	3	32860341	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5698996	32860341	165162089	295	39329											
TRIM71	131405	broad.mit.edu	37	chr3	32932739	32932739	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcgcatccagatcttcacGttcgagggccagttcctcct	7	11	8	15	3	2	1	1	0	1	1	7	2	5	1	4	1	0	3	4	1	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:32932739G>A	uc003cff.2	+	4	2106	c.2043G>A	c.(2041-2043)ACG>ACA	p.T681T		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	681	NHL 2.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						AGATCTTCACGTTCGAGGGCC	0.582													18	34					0	0	1	0	0		A	32932739	A	A	32932739	2	1	55	1	0	0	0	0	0	0	0	1	16570	1132	40	1		1	TRIM71	3	32932739	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	72398	32932739	165089691	296	39330											
GLB1	2720	broad.mit.edu	37	chr3	33114135	33114135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatgcttcctgagatgtagCgaaatggctggccatccttg	9	11	12	9	1	0	1	0	1	0	1	2	4	2	1	3	2	2	3	3	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:33114135C>T	uc003cfi.1	-	2	263	c.146G>A	c.(145-147)CGC>CAC	p.R49H	GLB1_uc003cfh.1_Missense_Mutation_p.R19H|GLB1_uc003cfj.1_Missense_Mutation_p.R49H|GLB1_uc011axk.1_Missense_Mutation_p.R97H	NM_000404	NP_000395	P16278	BGAL_HUMAN	galactosidase, beta 1 isoform a preproprotein	49			R -> H (in GM1G3).|R -> C (in GM1G1).		carbohydrate metabolic process	lysosome|perinuclear region of cytoplasm	beta-galactosidase activity|cation binding|protein binding			large_intestine(1)	1		Melanoma(143;0.104)				TGAGATGTAGCGAAATGGCTG	0.537													11	66					0	0	1	0	0		T	33114135	T	T	33114135	3	4	55	1	0	0	0	0	1	0	0	0	6442	768	27	1	1947	1	GLB1	3	33114135	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	181396	33114135	164908295	297	39331											
STAC	6769	broad.mit.edu	37	chr3	36485095	36485095	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaatacatcttcaagaaGcccactttctgtgatgtctg	11	12	8	10	0	4	2	1	1	3	1	4	3	4	3	1	1	2	0	1	1	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:36485095G>T	uc003cgh.1	+	2	390	c.351G>T	c.(349-351)AAG>AAT	p.K117N	STAC_uc010hgd.1_RNA|STAC_uc011aya.1_Missense_Mutation_p.K117N	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	117	Phorbol-ester/DAG-type.				intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						TCTTCAAGAAGCCCACTTTCT	0.577													29	78					1.26612e-14	1.38727e-14	1	1	0		T	36485095	T	T	36485095	3	4	55	1	0	0	0	0	1	0	0	0	15264	962	34	5	357	5	STAC	3	36485095	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3370960	36485095	161537335	298	39332											
ITGA9	3680	broad.mit.edu	37	chr3	37560809	37560809	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcggtctatatctatcaTggtgatgccggtgggatagt	7	12	16	6	2	3	1	1	1	2	0	3	2	3	2	1	6	1	0	1	6	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:37560809T>C	uc003chd.2	+	11	1253	c.1200T>C	c.(1198-1200)CAT>CAC	p.H400H	ITGA9_uc003chc.2_Silent_p.H400H	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	400	Extracellular (Potential).|FG-GAP 6.				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		ATATCTATCATGGTGATGCCG	0.393													15	33					0	0	1	0	0		C	37560809	C	C	37560809	2	2	55	1	0	0	0	0	0	0	0	1	7899	1461	51	3		3	ITGA9	3	37560809	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1075714	37560809	160461621	299	39333											
VILL	50853	broad.mit.edu	37	chr3	38035202	38035202	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcccaggcatgcagggaggCctccacatatggatctctga	9	8	11	13	0	1	1	0	1	1	0	4	3	3	3	3	4	1	2	3	4	1	1	rs2364778		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:38035202C>T	uc003chj.2	+	2	325	c.39C>T	c.(37-39)GGC>GGT	p.G13G	VILL_uc003chk.1_Silent_p.G13G|VILL_uc003chl.2_Silent_p.G13G|VILL_uc010hgu.2_5'Flank	NM_015873	NP_056957	O15195	VILL_HUMAN	villin-like protein	13					actin filament capping|cytoskeleton organization	actin cytoskeleton	actin binding|structural constituent of cytoskeleton				0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		TGCAGGGAGGCCTCCACATAT	0.577													12	27					0	0	1	0	0		T	38035202	T	T	38035202	2	4	55	1	0	0	0	0	0	0	0	1	17191	726	26	2		2	VILL	3	38035202	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	474393	38035202	159987228	300	39334											
TRAK1	22906	broad.mit.edu	37	chr3	42244237	42244237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagctccagatcgtgaagccGctggaaggtgatcacgcggg	10	6	15	10	4	1	3	1	2	0	1	3	4	2	4	2	3	2	2	2	3	3	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:42244237G>A	uc003cky.2	+	13	1953	c.1737G>A	c.(1735-1737)CCG>CCA	p.P579P	TRAK1_uc011azh.1_Silent_p.P579P|TRAK1_uc011azi.1_Silent_p.P579P|TRAK1_uc003ckz.3_Silent_p.P505P|TRAK1_uc011azj.1_Silent_p.P505P|TRAK1_uc003cla.2_Silent_p.P521P	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	579					endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						TCGTGAAGCCGCTGGAAGGTG	0.657													15	15					0	0	1	0	0		A	42244237	A	A	42244237	2	1	55	1	0	0	0	0	0	0	0	1	16475	1074	38	1		1	TRAK1	3	42244237	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4209035	42244237	155778193	301	39335											
NKTR	4820	broad.mit.edu	37	chr3	42684075	42684075	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagcagttcctaccggagtTacaaaagtcacaggtgagct	12	8	12	9	1	1	1	1	1	0	0	2	3	2	3	2	3	4	4	2	3	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:42684075T>C	uc003clo.2	+	14	4276	c.4129T>C	c.(4129-4131)TAC>CAC	p.Y1377H	NKTR_uc003clp.2_Missense_Mutation_p.Y1124H|NKTR_uc011azp.1_Missense_Mutation_p.Y176H|NKTR_uc003cls.2_Missense_Mutation_p.Y1077H	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	1377					protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		CTACCGGAGTTACAAAAGTCA	0.483													13	55					0	0	1	0	0		C	42684075	C	C	42684075	3	2	55	1	0	0	0	0	1	0	0	0	10467	1754	61	3	4179	3	NKTR	3	42684075	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	439838	42684075	155338355	302	39336											
CCDC13	152206	broad.mit.edu	37	chr3	42798652	42798652	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatacaatcgcccgttctcGtccaccgtttccctgagctc	6	13	6	16	4	1	1	0	1	1	0	6	1	3	1	4	0	2	3	4	0	3	4	rs151306549		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:42798652G>A	uc003cly.3	-	3	360	c.276C>T	c.(274-276)GAC>GAT	p.D92D	CCDC13_uc003clz.2_Silent_p.D92D|CCDC13_uc011azq.1_Silent_p.D92D	NM_144719	NP_653320	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13	92	Potential.									ovary(1)	1						GCCCGTTCTCGTCCACCGTTT	0.458													36	78					0	0	1	0	0		A	42798652	A	A	42798652	2	1	55	1	0	0	0	0	0	0	0	1	2768	1136	40	1		1	CCDC13	3	42798652	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	114577	42798652	155223778	303	39337											
SNRK	54861	broad.mit.edu	37	chr3	43390026	43390026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtgcgcatccagcccaGccagctgttgccatgtcatc	6	10	10	15	1	1	0	1	0	0	0	3	0	2	0	4	0	6	4	4	0	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:43390026G>A	uc003cms.3	+	7	2607	c.2275G>A	c.(2275-2277)GCC>ACC	p.A759T	SNRK_uc003cmt.3_Missense_Mutation_p.A759T|SNRK_uc010hik.2_Missense_Mutation_p.A759T|SNRK_uc011azr.1_Missense_Mutation_p.A553T	NM_017719	NP_060189	Q9NRH2	SNRK_HUMAN	SNF related kinase	759					myeloid cell differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.0636)|Kidney(284;0.0792)		ATCCAGCCCAGCCAGCTGTTG	0.562													6	13					0	0	1	0	0		A	43390026	A	A	43390026	3	1	55	1	0	0	0	0	1	0	0	0	14876	971	34	2	2293	2	SNRK	3	43390026	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	591374	43390026	154632404	304	39338											
TGM4	7047	broad.mit.edu	37	chr3	44948665	44948665	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaagacaggcggagagatAtcacctatgagtacaagtat	15	7	11	8	1	1	3	1	1	0	2	1	5	1	4	2	2	1	2	2	2	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:44948665A>G	uc003coc.3	+	10	1373	c.1300A>G	c.(1300-1302)ATC>GTC	p.I434V		NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)	434					peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	GCGGAGAGATATCACCTATGA	0.502													13	147					0	0	1	0	0		G	44948665	G	G	44948665	3	3	55	1	0	0	0	0	1	0	0	0	15857	449	16	3	1338	3	TGM4	3	44948665	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1558639	44948665	153073765	305	39339											
LARS2	23395	broad.mit.edu	37	chr3	45436077	45436077	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagcatctacagtgccacGggaaagtggacaaaagagta	17	5	12	7	1	1	2	0	0	1	2	1	4	1	4	1	2	3	2	1	2	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:45436077G>A	uc003cop.1	+	3	317	c.132G>A	c.(130-132)ACG>ACA	p.T44T	LARS2_uc010hit.1_Silent_p.T44T	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial	44					leucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|leucine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.0122)|KIRC - Kidney renal clear cell carcinoma(197;0.0313)|Kidney(197;0.0372)	L-Leucine(DB00149)	ACAGTGCCACGGGAAAGTGGA	0.443													29	57					0	0	1	0	0		A	45436077	A	A	45436077	2	1	55	1	0	0	0	0	0	0	0	1	8651	1103	39	1		1	LARS2	3	45436077	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	487412	45436077	152586353	306	39340											
NBEAL2	23218	broad.mit.edu	37	chr3	47033984	47033984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtacctgcagtcccgggCgccccccgagggggacagtg	5	5	16	15	3	0	0	0	0	0	0	1	2	1	1	5	3	2	3	5	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:47033984C>T	uc003cqp.2	+	10	1231	c.1052C>T	c.(1051-1053)GCG>GTG	p.A351V	NBEAL2_uc003cqq.1_Intron|NBEAL2_uc010hjm.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	351							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		CAGTCCCGGGCGCCCCCCGAG	0.637													6	6					0	0	1	0	0		T	47033984	T	T	47033984	3	4	55	1	0	0	0	0	1	0	0	0	10207	768	27	1	1090	1	NBEAL2	3	47033984	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1597907	47033984	150988446	307	39341											
NBEAL2	23218	broad.mit.edu	37	chr3	47043424	47043424	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagctgcatgcccaggcCtacgtgagattgcacatgct	9	8	10	14	1	0	1	0	1	0	1	0	2	0	1	3	1	6	4	3	1	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:47043424C>A	uc003cqp.2	+	31	4976	c.4797C>A	c.(4795-4797)GCC>GCA	p.A1599A	NBEAL2_uc010hjm.1_Silent_p.A976A|NBEAL2_uc010hjn.1_5'UTR	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1599							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		ATGCCCAGGCCTACGTGAGAT	0.652													5	16					0.184627	0.185368	1	1	0		A	47043424	A	A	47043424	2	1	55	1	0	0	0	0	0	0	0	1	10207	668	24	5		5	NBEAL2	3	47043424	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	9440	47043424	150979006	308	39342											
PTPN23	25930	broad.mit.edu	37	chr3	47450550	47450550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttgaccaggtccgggctGccctgcccacaccggccctc	4	6	11	20	3	0	1	0	1	0	0	2	1	1	1	6	3	2	2	6	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:47450550G>A	uc003crf.1	+	16	1711	c.1615G>A	c.(1615-1617)GCC>ACC	p.A539T	PTPN23_uc011baw.1_Missense_Mutation_p.A504T|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.A409T	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	539					cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GGTCCGGGCTGCCCTGCCCAC	0.667													25	52					0	0	1	0	0		A	47450550	A	A	47450550	3	1	55	1	0	0	0	0	1	0	0	0	12813	1319	46	2	1677	2	PTPN23	3	47450550	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	407126	47450550	150571880	309	39343											
PTPN23	25930	broad.mit.edu	37	chr3	47450718	47450718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaggagatgcgggaccagCgcgtgtccctggagcagcag	8	5	17	11	3	0	1	0	0	0	1	1	4	1	3	2	3	5	3	2	3	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:47450718C>T	uc003crf.1	+	17	1804	c.1708C>T	c.(1708-1710)CGC>TGC	p.R570C	PTPN23_uc011baw.1_Missense_Mutation_p.R535C|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.R440C	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	570	Potential.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCGGGACCAGCGCGTGTCCCT	0.587													5	63					0	0	1	0	0		T	47450718	T	T	47450718	3	4	55	1	0	0	0	0	1	0	0	0	12813	768	27	1	1774	1	PTPN23	3	47450718	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	168	47450718	150571712	310	39344											
CELSR3	1951	broad.mit.edu	37	chr3	48691723	48691723	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaagcttcaggcctaccTgccatggtgccattatttgc	7	12	11	11	0	1	0	1	0	0	0	1	1	1	1	4	3	5	1	4	3	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:48691723T>C	uc003cul.2	-	7	5432	c.5151A>G	c.(5149-5151)GCA>GCG	p.A1717A	CELSR3_uc003cuf.1_Silent_p.A1787A|CELSR3_uc010hkg.2_5'Flank	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1717	Extracellular (Potential).|Laminin G-like 1.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CAGGCCTACCTGCCATGGTGC	0.567													3	27					0	0	1	0	0		C	48691723	C	C	48691723	2	2	55	1	0	0	0	0	0	0	0	1	3226	1594	55	3		3	CELSR3	3	48691723	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1241005	48691723	149330707	311	39345											
LAMB2	3913	broad.mit.edu	37	chr3	49168865	49168865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggcagggtccagcacaCgatagatgacctggagaagc	12	5	15	9	1	0	3	0	1	0	2	1	6	1	4	2	4	2	2	2	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:49168865C>T	uc003cwe.2	-	6	958	c.659G>A	c.(658-660)CGT>CAT	p.R220H	LAMB2_uc003cwf.1_Missense_Mutation_p.R220H	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	220	Laminin N-terminal.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GTCCAGCACACGATAGATGAC	0.602													14	40					0	0	1	0	0		T	49168865	T	T	49168865	3	4	55	1	0	0	0	0	1	0	0	0	8627	536	19	1	4845	1	LAMB2	3	49168865	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	477142	49168865	148853565	312	39346											
C3orf62	375341	broad.mit.edu	37	chr3	49308822	49308822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accacacatgtggttcaattCgttttcaaattctatttttc	10	18	4	9	1	3	0	2	0	1	0	5	0	3	0	1	1	0	2	1	1	3	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:49308822C>T	uc003cwn.2	-	3	798	c.595G>A	c.(595-597)GAA>AAA	p.E199K	C3orf62_uc003cwm.2_Missense_Mutation_p.E48K|hsa-mir-4271|MI0015879_5'Flank	NM_198562	NP_940964	Q6ZUJ4	CC062_HUMAN	hypothetical protein LOC375341	199											0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		TGGTTCAATTCGTTTTCAAAT	0.428													21	38					0	0	1	0	0		T	49308822	T	T	49308822	3	4	55	1	0	0	0	0	1	0	0	0	2241	893	31	1	212	1	C3orf62	3	49308822	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	139957	49308822	148713608	313	39347											
AMT	275	broad.mit.edu	37	chr3	49457752	49457752	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctaagatgcctccagcctcGttggtaaacagcgacagtgt	10	10	10	11	2	1	1	0	0	1	1	3	2	2	1	3	1	4	2	3	1	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:49457752G>A	uc003cww.2	-	4	492	c.363C>T	c.(361-363)AAC>AAT	p.N121N	AMT_uc011bcn.1_Intron|AMT_uc003cwx.2_Silent_p.N121N|AMT_uc011bco.1_Intron|AMT_uc003cwy.2_Silent_p.N73N|AMT_uc011bcp.1_Silent_p.N24N|AMT_uc011bcq.1_Silent_p.N65N	NM_000481	NP_000472	P48728	GCST_HUMAN	aminomethyltransferase isoform 1 precursor	121					glycine catabolic process	mitochondrion	aminomethyltransferase activity|transaminase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	CTCCAGCCTCGTTGGTAAACA	0.552													24	57					0	0	1	0	0		A	49457752	A	A	49457752	2	1	55	1	0	0	0	0	0	0	0	1	589	1136	40	1		1	AMT	3	49457752	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	148930	49457752	148564678	314	39348											
IP6K1	9807	broad.mit.edu	37	chr3	49765665	49765665	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccatcttcaggtccaacacGcaggggtacttgaagtggtg	9	9	12	11	1	2	1	1	1	1	0	3	1	3	1	2	4	2	2	2	4	3	3	rs34964130		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:49765665G>A	uc003cxm.1	-	5	978	c.663C>T	c.(661-663)TGC>TGT	p.C221C	IP6K1_uc003cxn.1_Silent_p.C56C|IP6K1_uc011bcv.1_Silent_p.C56C|IP6K1_uc003cxo.2_Silent_p.C221C	NM_153273	NP_695005	Q92551	IP6K1_HUMAN	inositol hexakisphosphate kinase 1 isoform 1	221	Substrate binding (By similarity).				phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						GGTCCAACACGCAGGGGTACT	0.602													22	50					0	0	1	0	0		A	49765665	A	A	49765665	2	1	55	1	0	0	0	0	0	0	0	1	7804	1079	38	1		1	IP6K1	3	49765665	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	307913	49765665	148256765	315	39349											
SEMA3F	6405	broad.mit.edu	37	chr3	50212595	50212595	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccacggatggtgccctcCgcccgatgcccacagcccca	7	4	11	19	3	0	0	0	0	0	0	1	3	1	1	7	2	4	0	7	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:50212595C>T	uc003cyj.2	+	6	721	c.523C>T	c.(523-525)CGC>TGC	p.R175C	SEMA3F_uc003cyk.2_Intron	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	175	Sema.			Missing (in Ref. 2).	axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		TGGTGCCCTCCGCCCGATGCC	0.677													6	13					0	0	1	0	0		T	50212595	T	T	50212595	3	4	55	1	0	0	0	0	1	0	0	0	14054	652	23	1	541	1	SEMA3F	3	50212595	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	446930	50212595	147809835	316	39350											
SEMA3F	6405	broad.mit.edu	37	chr3	50219760	50219760	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatcgattttatgggcacTgatgcagccatcttccgcac	9	12	8	12	2	1	1	0	1	1	0	3	2	2	1	2	1	3	3	2	1	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:50219760T>C	uc003cyj.2	+	8	885	c.687T>C	c.(685-687)ACT>ACC	p.T229T	SEMA3F_uc003cyk.2_Silent_p.T198T	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	229	Sema.				axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		TTATGGGCACTGATGCAGCCA	0.582													44	100					0	0	1	0	0		C	50219760	C	C	50219760	2	2	55	1	0	0	0	0	0	0	0	1	14054	1567	55	3		3	SEMA3F	3	50219760	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	7165	50219760	147802670	317	39351											
C3orf45	132228	broad.mit.edu	37	chr3	50324596	50324596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccagcctcagccagcttcGgaggctcaactccagtgagg	8	6	13	14	1	2	1	2	1	0	0	4	2	3	2	4	4	4	2	4	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:50324596G>A	uc003cyz.2	+	4	485	c.458G>A	c.(457-459)CGG>CAG	p.R153Q		NM_153215	NP_694947	Q8N112	CC045_HUMAN	hypothetical protein LOC132228	153						integral to membrane				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		AGCCAGCTTCGGAGGCTCAAC	0.602													12	29					0	0	1	0	0		A	50324596	A	A	50324596	3	1	55	1	0	0	0	0	1	0	0	0	2234	1116	39	1	472	1	C3orf45	3	50324596	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	104836	50324596	147697834	318	39352											
HYAL3	8372	broad.mit.edu	37	chr3	50330806	50330806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggtgtagaaaggcttcCatctgtcctggatctcgccg	8	10	11	12	2	2	1	0	0	2	1	5	2	4	2	3	3	0	2	3	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:50330806C>T	uc003czd.1	-	4	1398	c.1125G>A	c.(1123-1125)ATG>ATA	p.M375I	HYAL3_uc003czc.1_Missense_Mutation_p.M345I|HYAL3_uc003cze.1_Missense_Mutation_p.M126I|HYAL3_uc003czf.1_Missense_Mutation_p.M96I|HYAL3_uc003czg.1_Missense_Mutation_p.M345I|IFRD2_uc011bdp.1_5'Flank|IFRD2_uc003czb.2_5'Flank	NM_003549	NP_003540	O43820	HYAL3_HUMAN	hyaluronoglucosaminidase 3 precursor	375	EGF-like.				carbohydrate metabolic process	extracellular region|lysosome	hyalurononglucosaminidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GAAAGGCTTCCATCTGTCCTG	0.637													8	31					0	0	1	0	0		T	50330806	T	T	50330806	3	4	55	1	0	0	0	0	1	0	0	0	7481	594	21	4	132	4	HYAL3	3	50330806	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6210	50330806	147691624	319	39353											
RAD54L2	23132	broad.mit.edu	37	chr3	51664313	51664313	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctttaagggcaagtgaCggtccccaactgcctcctcg	8	10	10	13	2	0	1	0	1	0	0	3	1	2	1	4	2	3	2	4	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:51664313C>T	uc011bdt.1	+	5	632	c.507C>T	c.(505-507)GAC>GAT	p.D169D	RAD54L2_uc003dbh.2_Translation_Start_Site|RAD54L2_uc011bdu.1_Intron|RAD54L2_uc003dbj.2_Translation_Start_Site	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	169						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		GGGCAAGTGACGGTCCCCAAC	0.468													27	62					0	0	1	0	0		T	51664313	T	T	51664313	2	4	55	1	0	0	0	0	0	0	0	1	13019	535	19	1		1	RAD54L2	3	51664313	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1333507	51664313	146358117	320	39354											
TWF2	11344	broad.mit.edu	37	chr3	52263163	52263163	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggcgtgttgcttggggtGcacctcgtcgtagaggaact	7	10	16	8	3	0	1	0	0	0	1	2	3	0	2	1	4	3	4	1	4	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:52263163G>T	uc003ddd.2	-	9	1088	c.937C>A	c.(937-939)CAC>AAC	p.H313N	TLR9_uc003dda.1_5'Flank|TLR9_uc003ddb.2_Intron|TLR9_uc003ddc.1_Intron|TWF2_uc010hmc.2_3'UTR	NM_007284	NP_009215	Q6IBS0	TWF2_HUMAN	twinfilin-like protein	313	ADF-H 2.					cytoskeleton|perinuclear region of cytoplasm	actin binding|ATP binding			stomach(1)|ovary(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;2.43e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		TGCTTGGGGTGCACCTCGTCG	0.642													18	68					3.62473e-10	3.91283e-10	1	1	0		T	52263163	T	T	52263163	3	4	55	1	0	0	0	0	1	0	0	0	16808	1319	46	5	116	5	TWF2	3	52263163	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	598850	52263163	145759267	321	39355											
SEMA3G	56920	broad.mit.edu	37	chr3	52469715	52469715	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agccctgcccagctcttgccCctggcctgcttgccccggct	2	9	10	20	1	1	0	0	0	1	0	1	0	1	0	7	2	6	3	7	2	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:52469715C>T	uc003dea.1	-	16	2253	c.2253G>A	c.(2251-2253)AGG>AGA	p.R751R		NM_020163	NP_064548	Q9NS98	SEM3G_HUMAN	semaphorin sem2 precursor	751					multicellular organismal development	extracellular region|membrane	receptor activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00173)|KIRC - Kidney renal clear cell carcinoma(197;0.00196)|OV - Ovarian serous cystadenocarcinoma(275;0.0333)		AGCTCTTGCCCCTGGCCTGCT	0.672													18	77					0	0	1	0	0		T	52469715	T	T	52469715	2	4	55	1	0	0	0	0	0	0	0	1	14055	622	22	4		4	SEMA3G	3	52469715	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	206552	52469715	145552715	322	39356											
SEMA3G	56920	broad.mit.edu	37	chr3	52475046	52475046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatttgttcaccagcacccGctggcccccagcatcattct	7	10	6	18	1	3	0	2	0	1	0	3	0	3	0	5	1	2	4	5	1	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:52475046G>A	uc003dea.1	-	8	832	c.832C>T	c.(832-834)CGG>TGG	p.R278W		NM_020163	NP_064548	Q9NS98	SEM3G_HUMAN	semaphorin sem2 precursor	278	Sema.				multicellular organismal development	extracellular region|membrane	receptor activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00173)|KIRC - Kidney renal clear cell carcinoma(197;0.00196)|OV - Ovarian serous cystadenocarcinoma(275;0.0333)		ACCAGCACCCGCTGGCCCCCA	0.627													13	32					0	0	1	0	0		A	52475046	A	A	52475046	3	1	55	1	0	0	0	0	1	0	0	0	14055	1086	38	1	1552	1	SEMA3G	3	52475046	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5331	52475046	145547384	323	39357											
NISCH	11188	broad.mit.edu	37	chr3	52524146	52524146	+	Frame_Shift_Del	DEL	C	-	-																															ctcggtggtgttctaccagaCcccagggctggaggtgactg																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:52524146delC	uc011beg.1	+	19	3584	c.3512delC	c.(3511-3513)ACCfs	p.T1171fs	NISCH_uc003ded.3_Frame_Shift_Del_p.T1171fs|NISCH_uc003dee.3_Frame_Shift_Del_p.T660fs|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_5'Flank	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	1171					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		TTCTACCAGACCCCAGGGCTG	0.617													15	25	---	---	---	---						.	-	52524146	-	-	52524146	7	5	55	1	0	1	0	1	0	0	0	0	10451	507	18	0	3582	0	NISCH	3	52524146	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	49100	52524146	145498284	324	39358											
PBRM1	55193	broad.mit.edu	37	chr3	52678784	52678784	+	Frame_Shift_Del	DEL	T	-	-																															agcctttttcatataaaataTttttttaattgaatttgcat																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:52678784delT	uc003des.2	-	8	847	c.835delA	c.(835-837)ATAfs	p.I279fs	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Frame_Shift_Del_p.I279fs|PBRM1_uc003der.2_Frame_Shift_Del_p.I279fs|PBRM1_uc003det.2_Frame_Shift_Del_p.I279fs|PBRM1_uc003deu.2_Frame_Shift_Del_p.I279fs|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Frame_Shift_Del_p.I279fs|PBRM1_uc010hmk.1_Frame_Shift_Del_p.I279fs|PBRM1_uc003dey.2_Frame_Shift_Del_p.I279fs|PBRM1_uc003dez.1_Frame_Shift_Del_p.I279fs|PBRM1_uc003dfb.1_Frame_Shift_Del_p.I177fs	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	279					chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding	p.I279fs*4(2)		kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		atataaaatatttttttaatt	0.299			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								7	12	---	---	---	---						.	-	52678784	-	-	52678784	7	5	55	1	0	1	0	1	0	0	0	0	11510	1493	52	0	4157	0	PBRM1	3	52678784	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	154638	52678784	145343646	325	39359											
CACNA1D	776	broad.mit.edu	37	chr3	53787603	53787603	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcttcatccatagcactAcgagcagtccaagatgttca	11	11	7	12	1	3	1	2	0	1	1	5	2	5	1	2	0	3	3	2	0	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:53787603A>G	uc003dgv.3	+	29	3843	c.3680A>G	c.(3679-3681)TAC>TGC	p.Y1227C	CACNA1D_uc003dgu.3_Missense_Mutation_p.Y1247C|CACNA1D_uc003dgy.3_Missense_Mutation_p.Y1227C|CACNA1D_uc003dgw.3_Missense_Mutation_p.Y894C|CACNA1D_uc003dgx.1_Missense_Mutation_p.Y375C	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1227	IV.|Extracellular (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	CCATAGCACTACGAGCAGTCC	0.527													3	59					0	0	1	0	0		G	53787603	G	G	53787603	3	3	55	1	0	0	0	0	1	0	0	0	2544	391	14	3	3966	3	CACNA1D	3	53787603	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1108819	53787603	144234827	326	39360											
ACTR8	93973	broad.mit.edu	37	chr3	53913991	53913991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccctcccttaggagccaaCtgtccttgtataggggctgc	6	11	11	13	0	0	0	0	0	0	0	3	1	3	1	4	3	3	2	4	3	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:53913991C>T	uc003dhd.2	-	2	328	c.269G>A	c.(268-270)AGT>AAT	p.S90N	ACTR8_uc003dhb.2_5'Flank|ACTR8_uc003dhc.2_5'UTR	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	90					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		TAGGAGCCAACTGTCCTTGTA	0.493													21	92					0	0	1	0	0		T	53913991	T	T	53913991	3	4	55	1	0	0	0	0	1	0	0	0	217	565	20	4	1653	4	ACTR8	3	53913991	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	126388	53913991	144108439	327	39361											
CACNA2D3	55799	broad.mit.edu	37	chr3	54922021	54922021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagaagtcctttttgacGcggtggtgagtgcccccatt	7	12	11	11	2	0	3	0	2	0	1	2	3	2	3	4	2	1	0	4	2	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:54922021G>A	uc003dhf.2	+	24	2140	c.2092G>A	c.(2092-2094)GCG>ACG	p.A698T	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Missense_Mutation_p.A604T|CACNA2D3_uc003dhh.1_RNA|uc003dhk.1_Intron	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	698	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		CCTTTTTGACGCGGTGGTGAG	0.522													4	85					0	0	1	0	0		A	54922021	A	A	54922021	3	1	55	1	0	0	0	0	1	0	0	0	2553	1087	38	1	2186	1	CACNA2D3	3	54922021	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1008030	54922021	143100409	328	39362											
C3orf63	23272	broad.mit.edu	37	chr3	56657581	56657581	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcttcatccttttcatcGttttctaaaagagctacatt	9	18	3	11	1	4	1	2	0	2	1	7	1	6	1	2	0	2	2	2	0	3	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:56657581G>A	uc003did.3	-	23	4415	c.4314C>T	c.(4312-4314)AAC>AAT	p.N1438N	C3orf63_uc003dib.3_Silent_p.N557N|C3orf63_uc003dic.3_Silent_p.N1062N|C3orf63_uc003die.3_3'UTR	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	1499										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		CCTTTTCATCGTTTTCTAAAA	0.313													12	40					0	0	1	0	0		A	56657581	A	A	56657581	2	1	55	1	0	0	0	0	0	0	0	1	2242	1136	40	1		1	C3orf63	3	56657581	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1735560	56657581	141364849	329	39363											
APPL1	26060	broad.mit.edu	37	chr3	57283436	57283436	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacagacagttttacttcacGcagggtggaaatttaatgag	13	11	11	6	1	1	2	1	1	0	1	1	4	1	3	0	2	1	2	0	2	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:57283436G>A	uc003dio.2	+	11	1059	c.912G>A	c.(910-912)ACG>ACA	p.T304T	APPL1_uc010hnb.2_Silent_p.T304T|APPL1_uc011bey.1_Silent_p.T287T	NM_012096	NP_036228	Q9UKG1	DP13A_HUMAN	adaptor protein, phosphotyrosine interaction, PH	304	Required for RAB5A binding.|PH.				apoptosis|cell cycle|cell proliferation|insulin receptor signaling pathway|regulation of apoptosis|regulation of establishment of protein localization in plasma membrane|regulation of glucose import	cytosol|early endosome membrane|microsome|nucleus|vesicle membrane	protein kinase B binding			breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0124)|Kidney(284;0.0144)		TTTACTTCACGCAGGGTGGAA	0.458													26	56					0	0	1	0	0		A	57283436	A	A	57283436	2	1	55	1	0	0	0	0	0	0	0	1	817	1074	38	1		1	APPL1	3	57283436	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	625855	57283436	140738994	330	39364											
FLNB	2317	broad.mit.edu	37	chr3	58097960	58097960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgtgcagttcaacagccCtcttcctggcgatgcagtga	9	9	10	13	2	2	1	1	1	1	0	3	2	3	1	2	1	5	3	2	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:58097960C>T	uc003djj.2	+	18	2825	c.2660C>T	c.(2659-2661)CCT>CTT	p.P887L	FLNB_uc010hne.2_Missense_Mutation_p.P887L|FLNB_uc003djk.2_Missense_Mutation_p.P887L|FLNB_uc010hnf.2_Missense_Mutation_p.P887L|FLNB_uc003djl.2_Missense_Mutation_p.P718L|FLNB_uc003djm.2_Missense_Mutation_p.P718L	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	887	Filamin 7.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		TTCAACAGCCCTCTTCCTGGC	0.498													32	68					0	0	1	0	0		T	58097960	T	T	58097960	3	4	55	1	0	0	0	0	1	0	0	0	5948	681	24	4	2730	4	FLNB	3	58097960	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	814524	58097960	139924470	331	39365											
PXK	54899	broad.mit.edu	37	chr3	58382815	58382815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccttatgggcatcttcacgCctccaatgtgatgctcgatg	7	12	9	13	2	2	1	1	1	1	0	4	2	3	1	3	1	1	2	3	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:58382815C>T	uc003djz.1	+	10	971	c.872C>T	c.(871-873)GCC>GTC	p.A291V	PXK_uc003djx.1_Missense_Mutation_p.A291V|PXK_uc003djy.1_Missense_Mutation_p.A274V|PXK_uc003dka.1_Missense_Mutation_p.A291V|PXK_uc003dkb.1_Missense_Mutation_p.A208V|PXK_uc003dkc.1_Missense_Mutation_p.A274V|PXK_uc011bfe.1_Missense_Mutation_p.A258V|PXK_uc010hnj.1_Missense_Mutation_p.A258V|PXK_uc003dkd.1_Missense_Mutation_p.A154V|PXK_uc010hnk.1_Missense_Mutation_p.A65V	NM_017771	NP_060241	Q7Z7A4	PXK_HUMAN	PX domain containing serine/threonine kinase	291	Protein kinase.				cell communication|inflammatory response|negative regulation of ATPase activity|negative regulation of ion transport|regulation of synaptic transmission	centrosome|cytoplasm|nucleus|plasma membrane	actin binding|ATP binding|phosphatidylinositol binding|phosphatidylinositol binding|protein C-terminus binding|protein kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000249)|KIRC - Kidney renal clear cell carcinoma(10;0.00346)|Kidney(10;0.00368)|OV - Ovarian serous cystadenocarcinoma(275;0.22)		CATCTTCACGCCTCCAATGTG	0.438													7	114					0	0	1	0	0		T	58382815	T	T	58382815	3	4	55	1	0	0	0	0	1	0	0	0	12874	739	26	2	910	2	PXK	3	58382815	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	284855	58382815	139639615	332	39366											
PTPRG	5793	broad.mit.edu	37	chr3	62189010	62189010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcggtggtcaccagcaCgctgctcgccggcctggggt	3	7	16	15	4	1	0	1	0	0	0	3	0	1	0	4	6	2	3	4	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:62189010C>T	uc003dlb.2	+	12	2260	c.1541C>T	c.(1540-1542)ACG>ATG	p.T514M	PTPRG_uc003dlc.2_Missense_Mutation_p.T514M	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	514	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		GTCACCAGCACGCTGCTCGCC	0.667													9	28					0	0	1	0	0		T	62189010	T	T	62189010	3	4	55	1	0	0	0	0	1	0	0	0	12827	536	19	1	1587	1	PTPRG	3	62189010	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3806195	62189010	135833420	333	39367											
CADPS	8618	broad.mit.edu	37	chr3	62535607	62535607	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agataggggcatccagctgaGgtacatttcctcccttggcg	8	10	12	11	1	0	2	0	1	0	1	3	2	3	2	3	4	2	3	3	4	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:62535607G>T	uc003dll.2	-	11	2297	c.1937C>A	c.(1936-1938)CCT>CAT	p.P646H	CADPS_uc003dlk.1_Missense_Mutation_p.P150H|CADPS_uc003dlm.2_Missense_Mutation_p.P646H|CADPS_uc003dln.2_Missense_Mutation_p.P646H	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	646					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		ATCCAGCTGAGGTACATTTCC	0.473													4	72					0.000602214	0.000618815	1	1	0		T	62535607	T	T	62535607	3	4	55	1	0	0	0	0	1	0	0	0	2573	1000	35	5	2277	5	CADPS	3	62535607	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	346597	62535607	135486823	334	39368											
PRICKLE2	166336	broad.mit.edu	37	chr3	64084973	64084973	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgaagtagggtccccagcgGtccccaaaggcattctgcaa	10	6	12	13	2	1	0	0	0	1	0	3	1	3	0	4	3	2	3	4	3	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:64084973G>A	uc003dmf.2	-	8	2875	c.2289C>T	c.(2287-2289)GAC>GAT	p.D763D		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	763						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		GTCCCCAGCGGTCCCCAAAGG	0.602													6	27					0	0	1	0	0		A	64084973	A	A	64084973	2	1	55	1	0	0	0	0	0	0	0	1	12509	1252	44	4		4	PRICKLE2	3	64084973	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1549366	64084973	133937457	335	39369											
MITF	4286	broad.mit.edu	37	chr3	69987151	69987151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgccggggagcagcgcacCcaacagccccatggctatgc	8	4	14	15	2	0	0	0	0	0	0	0	1	0	1	4	4	6	3	4	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:69987151C>T	uc003dnz.2	+	3	649	c.533C>T	c.(532-534)CCC>CTC	p.P178L	MITF_uc011bgb.1_Missense_Mutation_p.P126L|MITF_uc003doa.2_Missense_Mutation_p.P177L|MITF_uc003dob.2_Missense_Mutation_p.P162L|MITF_uc003dod.2_Missense_Mutation_p.P153L|MITF_uc003doe.2_Missense_Mutation_p.P71L|MITF_uc003dof.2_Missense_Mutation_p.P71L	NM_198159	NP_937802	O75030	MITF_HUMAN	microphthalmia-associated transcription factor	178					melanocyte differentiation|multicellular organismal development|protein complex assembly	nucleus|protein complex	DNA binding|protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			ovary(2)	2		Lung NSC(201;0.0384)|Prostate(884;0.0526)		BRCA - Breast invasive adenocarcinoma(55;3.07e-05)|Epithelial(33;0.000138)|LUSC - Lung squamous cell carcinoma(21;0.008)|Lung(16;0.0107)|KIRC - Kidney renal clear cell carcinoma(39;0.204)|Kidney(39;0.239)		AGCAGCGCACCCAACAGCCCC	0.493			A		melanoma 		Waardenburg syndrome type 2|Tietz syndrome						16	56					0	0	1	0	0		T	69987151	T	T	69987151	3	4	55	1	0	0	0	0	1	0	0	0	9614	623	22	4	745	4	MITF	3	69987151	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5902178	69987151	128035279	336	39370											
ROBO2	6092	broad.mit.edu	37	chr3	77617524	77617524	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaaagagctaggagatgTccttgtccgtcttcataatc	11	11	10	9	1	2	3	1	0	1	3	5	4	4	3	2	1	1	2	2	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:77617524T>C	uc003dpy.3	+	13	2553	c.1910T>C	c.(1909-1911)GTC>GCC	p.V637A	ROBO2_uc003dpz.2_Missense_Mutation_p.V641A|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.V641A	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	637	Fibronectin type-III 2.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CTAGGAGATGTCCTTGTCCGT	0.458													17	84					0	0	1	0	0		C	77617524	C	C	77617524	3	2	55	1	0	0	0	0	1	0	0	0	13539	1667	58	3	1962	3	ROBO2	3	77617524	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	7630373	77617524	120404906	337	39371											
ROBO1	6091	broad.mit.edu	37	chr3	78734947	78734947	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgcttccagcaacatttaAagtctggcagatgtaataac	14	11	8	8	0	1	1	0	0	1	1	2	2	2	1	1	1	4	4	1	1	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:78734947A>C	uc003dqe.2	-	10	1499	c.1291T>G	c.(1291-1293)TTA>GTA	p.L431V	ROBO1_uc003dqb.2_Missense_Mutation_p.L392V|ROBO1_uc003dqc.2_Missense_Mutation_p.L395V|ROBO1_uc003dqd.2_Missense_Mutation_p.L395V|ROBO1_uc010hoh.2_5'UTR|ROBO1_uc003dqf.1_Missense_Mutation_p.L110V	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	431	Extracellular (Potential).|Ig-like C2-type 4.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		GCAACATTTAAAGTCTGGCAG	0.398													11	11					0	0	1	0	0		C	78734947	C	C	78734947	3	2	55	1	0	0	0	0	1	0	0	0	13538	11	1	5	3752	5	ROBO1	3	78734947	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1117423	78734947	119287483	338	39372											
COL8A1	1295	broad.mit.edu	37	chr3	99513830	99513830	+	Frame_Shift_Del	DEL	G	-	-																															cccaggacccaaaggtgaccGgggcatgggaggtgttcctg																								rs139380413		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:99513830delG	uc003dtg.1	+	5	1330	c.1085delG	c.(1084-1086)CGGfs	p.R362fs	COL8A1_uc003dth.1_Frame_Shift_Del_p.R362fs|COL8A1_uc003dti.1_Frame_Shift_Del_p.R363fs	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	362	Triple-helical region (COL1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						AAAGGTGACCGGGGCATGGGA	0.627													4	9	---	---	---	---						.	-	99513830	-	-	99513830	7	5	55	1	0	1	0	1	0	0	0	0	3708	1116	39	0	1091	0	COL8A1	3	99513830	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	20778883	99513830	98508600	339	39373											
IMPG2	50939	broad.mit.edu	37	chr3	100963396	100963397	+	Frame_Shift_Del	DEL	TT	-	-																															ccaccgtcaaatattaactcTttttccatggatgcatctgg																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:100963396_100963397delTT	uc003duq.1	-	13	1981_1982	c.1778_1779delAA	c.(1777-1779)AAAfs	p.K593fs	IMPG2_uc011bhe.1_Frame_Shift_Del_p.K456fs	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	593	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						ATATTAACTCTTTTTCCATGGA	0.446													37	84	---	---	---	---						.	-	100963397	-	-	100963396	7	5	55	1	0	1	0	1	0	0	0	0	7745	1606	56	0	1974	0	IMPG2	3	100963396	Frame_Shift_Del	DEL	TT	TCGA-BR-7851-01A-11D-2201-08	1449566	100963396	97059034	340	39374											
SIDT1	54847	broad.mit.edu	37	chr3	113331030	113331030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagatatattatatgggtcGtttcaagataggtgagtcac	12	13	10	6	1	2	3	2	1	0	2	3	3	2	3	1	2	0	1	1	2	6	6	rs148100303		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:113331030G>A	uc003eak.2	+	19	2606	c.1955G>A	c.(1954-1956)CGT>CAT	p.R652H	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Missense_Mutation_p.R652H|SIDT1_uc011big.1_Missense_Mutation_p.R405H|SIDT1_uc011bih.1_RNA|SIDT1_uc011bii.1_Missense_Mutation_p.R105H	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	652	Cytoplasmic (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						TATATGGGTCGTTTCAAGATA	0.408													13	16					0	0	1	0	0		A	113331030	A	A	113331030	3	1	55	1	0	0	0	0	1	0	0	0	14327	1145	40	1	2029	1	SIDT1	3	113331030	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	12367634	113331030	84691400	341	39375											
IGSF11	152404	broad.mit.edu	37	chr3	118621386	118621386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctataccaaggacccggccCgactctgggctggtaccatg	8	7	11	15	2	1	0	0	0	1	0	1	2	1	1	5	4	2	2	5	4	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:118621386C>T	uc003ebw.2	-	7	1524	c.1277G>A	c.(1276-1278)CGG>CAG	p.R426Q	IGSF11_uc011biv.1_Missense_Mutation_p.R398Q|IGSF11_uc003ebx.2_Missense_Mutation_p.R402Q|IGSF11_uc003eby.2_Missense_Mutation_p.R425Q|IGSF11_uc003ebz.2_Missense_Mutation_p.R401Q|IGSF11_uc010hqs.2_Missense_Mutation_p.R425Q	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	426	Cytoplasmic (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						GGACCCGGCCCGACTCTGGGC	0.542													42	139					0	0	1	0	0		T	118621386	T	T	118621386	3	4	55	1	0	0	0	0	1	0	0	0	7614	652	23	1	22	1	IGSF11	3	118621386	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5290356	118621386	79401044	342	39376											
POLQ	10721	broad.mit.edu	37	chr3	121260276	121260276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttccgcatttccaaaacccGcttcaaaataagtaattctg	13	12	4	12	2	2	0	1	0	1	0	4	0	4	0	3	0	1	3	3	0	6	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:121260276G>A	uc003eee.3	-	3	523	c.394C>T	c.(394-396)CGG>TGG	p.R132W		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	132	Helicase ATP-binding.				DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TCCAAAACCCGCTTCAAAATA	0.348								DNA_polymerases_(catalytic_subunits)					9	162					0	0	1	0	0		A	121260276	A	A	121260276	3	1	55	1	0	0	0	0	1	0	0	0	12227	1086	38	1	7490	1	POLQ	3	121260276	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2638890	121260276	76762154	343	39377											
KALRN	8997	broad.mit.edu	37	chr3	124393214	124393214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccttatctcccagcagaacGacctgggaggctgcaatggg	9	7	12	13	1	1	1	0	0	1	1	2	3	1	2	3	3	3	3	3	3	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:124393214G>A	uc003ehg.2	+	49	7073	c.6946G>A	c.(6946-6948)GAC>AAC	p.D2316N	KALRN_uc003ehi.2_Missense_Mutation_p.D656N|KALRN_uc003ehk.2_Missense_Mutation_p.D619N|KALRN_uc011bjz.1_Missense_Mutation_p.D407N	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2315					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						CCAGCAGAACGACCTGGGAGG	0.537													19	85					0	0	1	0	0		A	124393214	A	A	124393214	3	1	55	1	0	0	0	0	1	0	0	0	7991	1058	37	1	7296	1	KALRN	3	124393214	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3132938	124393214	73629216	344	39378											
ITGB5	3693	broad.mit.edu	37	chr3	124515302	124515302	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagaaaggcccatagatCttgccaaactcgctctcgaa	13	8	7	13	2	3	2	1	0	2	2	5	3	3	2	2	1	2	1	2	1	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:124515302C>A	uc003eho.2	-	10	1923	c.1626G>T	c.(1624-1626)AAG>AAT	p.K542N	ITGB5_uc010hrx.2_RNA	NM_002213	NP_002204	P18084	ITB5_HUMAN	integrin, beta 5 precursor	542	Extracellular (Potential).|II.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)		GCCCATAGATCTTGCCAAACT	0.587													30	108					7.11191e-15	7.80706e-15	1	1	0		A	124515302	A	A	124515302	3	1	55	1	0	0	0	0	1	0	0	0	7914	912	32	5	797	5	ITGB5	3	124515302	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	122088	124515302	73507128	345	39379											
HEG1	57493	broad.mit.edu	37	chr3	124716537	124716537	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcgaagctgtggctacctcgGcaggagtggtccatcttgtt	6	11	14	10	2	1	0	0	0	1	0	3	2	2	1	2	4	2	4	2	4	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:124716537G>A	uc003ehs.3	-	12	3716	c.3648C>T	c.(3646-3648)TGC>TGT	p.C1216C	HEG1_uc003ehr.3_Silent_p.C70C|HEG1_uc011bke.1_Silent_p.C1316C	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	1216	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						GGCTACCTCGGCAGGAGTGGT	0.552													6	11					0	0	1	0	0		A	124716537	A	A	124716537	2	1	55	1	0	0	0	0	0	0	0	1	7060	1195	42	2		2	HEG1	3	124716537	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	201235	124716537	73305893	346	39380											
UROC1	131669	broad.mit.edu	37	chr3	126207085	126207085	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcgacccaggtggctccGcgacaggcatctcccacgaa	9	4	13	15	4	1	0	0	0	1	0	3	3	2	0	3	4	0	2	3	4	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:126207085G>A	uc003eiz.1	-	18	1778	c.1746C>T	c.(1744-1746)CGC>CGT	p.R582R	UROC1_uc010hsi.1_Silent_p.R642R	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	582					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		AGGTGGCTCCGCGACAGGCAT	0.607													34	121					0	0	1	0	0		A	126207085	A	A	126207085	2	1	55	1	0	0	0	0	0	0	0	1	17054	1074	38	1		1	UROC1	3	126207085	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1490548	126207085	71815345	347	39381											
TPRA1	131601	broad.mit.edu	37	chr3	127292484	127292484	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagagtcgaactgcgtgctCgagtagctggcagctgaggc	8	7	16	10	3	0	2	0	1	0	1	2	4	0	2	0	2	5	6	0	2	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:127292484C>T	uc003ejl.2	-	10	1293	c.1002G>A	c.(1000-1002)TCG>TCA	p.S334S	TPRA1_uc003ejm.2_RNA|TPRA1_uc003ejo.2_Silent_p.S334S|TPRA1_uc010hsk.2_Missense_Mutation_p.E280K|TPRA1_uc003ejn.2_Silent_p.S334S	NM_016372	NP_057456	Q86W33	TPRA1_HUMAN	G protein-coupled receptor 175 isoform 1	334					aging|lipid metabolic process	integral to membrane	G-protein coupled receptor activity				0						ACTGCGTGCTCGAGTAGCTGG	0.667													23	41					0	0	1	0	0		T	127292484	T	T	127292484	2	4	55	1	0	0	0	0	0	0	0	1	16443	893	31	1		1	TPRA1	3	127292484	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1085399	127292484	70729946	348	39382											
MCM2	4171	broad.mit.edu	37	chr3	127323819	127323819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggaggacggcgaggaggacGaggagatgatcgagagcatc	12	3	19	7	5	0	3	0	1	0	2	2	11	0	7	0	6	1	1	0	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:127323819G>A	uc003ejp.2	+	4	550	c.493G>A	c.(493-495)GAG>AAG	p.E165K	MCM2_uc011bkm.1_Missense_Mutation_p.E35K|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.E49K	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	165	Interaction with MYST2 (By similarity).				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						CGAGGAGGACGAGGAGATGAT	0.677													9	24					0	0	1	0	0		A	127323819	A	A	127323819	3	1	55	1	0	0	0	0	1	0	0	0	9404	1059	37	1	507	1	MCM2	3	127323819	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	31335	127323819	70698611	349	39383											
MCM2	4171	broad.mit.edu	37	chr3	127327353	127327353	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagctgcaagccaggagaCgagatagtaagtggccgggg	12	4	17	8	2	0	2	0	0	0	2	0	5	0	2	2	4	3	3	2	4	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:127327353C>T	uc003ejp.2	+	7	1287	c.1230C>T	c.(1228-1230)GAC>GAT	p.D410D	MCM2_uc011bkm.1_Silent_p.D280D|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Silent_p.D294D	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	410					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						AGCCAGGAGACGAGATAGTAA	0.637													16	29					0	0	1	0	0		T	127327353	T	T	127327353	2	4	55	1	0	0	0	0	0	0	0	1	9404	535	19	1		1	MCM2	3	127327353	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3534	127327353	70695077	350	39384											
KIAA1257	57501	broad.mit.edu	37	chr3	128690075	128690075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggagcatccgcttatggcCgttctggccacaagacaagc	10	8	11	12	2	1	1	0	0	1	1	2	2	2	2	3	3	2	3	3	3	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:128690075C>T	uc003elj.3	-	8	1419	c.1223G>A	c.(1222-1224)CGG>CAG	p.R408Q	KIAA1257_uc003elg.1_Intron|KIAA1257_uc003elh.1_Intron|KIAA1257_uc003eli.3_Missense_Mutation_p.R296Q	NM_020741	NP_065792	Q9ULG3	K1257_HUMAN	hypothetical protein LOC57501	408											0						CGCTTATGGCCGTTCTGGCCA	0.433											OREG0015784	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	13					0	0	1	0	0		T	128690075	T	T	128690075	3	4	55	1	0	0	0	0	1	0	0	0	8234	652	23	1	10	1	KIAA1257	3	128690075	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1362722	128690075	69332355	351	39385											
NPHP3	27031	broad.mit.edu	37	chr3	132438662	132438662	+	Frame_Shift_Del	DEL	T	-	-																															tcgaagtatcttctgatacgTtttttgaagtgcctagaata																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:132438662delT	uc003epe.1	-	2	483	c.406delA	c.(406-408)ACGfs	p.T136fs	NCRNA00119_uc003epg.1_5'Flank|NPHP3_uc003epf.1_5'UTR|NCRNA00119_uc010htu.1_5'Flank	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	136	Potential.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						TTCTGATACGTTTTTTGAAGT	0.289													7	15	---	---	---	---						.	-	132438662	-	-	132438662	7	5	55	1	0	1	0	1	0	0	0	0	10599	1725	60	0	3690	0	NPHP3	3	132438662	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	3748587	132438662	65583768	352	39386											
DZIP1L	199221	broad.mit.edu	37	chr3	137787001	137787001	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggggctcacctcatcccGggccccgaggaaggaggggt	6	6	16	13	2	3	0	2	0	1	0	4	3	4	2	4	7	0	1	4	7	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:137787001G>T	uc003erq.2	-	13	2187	c.1824C>A	c.(1822-1824)CCC>CCA	p.P608P		NM_173543	NP_775814	Q8IYY4	DZI1L_HUMAN	DAZ interacting protein 1-like	608						intracellular	zinc ion binding			ovary(1)|pancreas(1)	2						ACCTCATCCCGGGCCCCGAGG	0.682													3	34					0.004672	0.00475892	1	1	0		T	137787001	T	T	137787001	2	4	55	1	0	0	0	0	0	0	0	1	4870	1103	39	5		5	DZIP1L	3	137787001	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5348339	137787001	60235429	353	39387											
CLSTN2	64084	broad.mit.edu	37	chr3	140178491	140178491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagggtgccaaagtccccGatgggattgtgcccaagaac	10	6	14	11	1	0	1	0	0	0	1	1	3	1	2	4	3	3	1	4	3	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:140178491G>A	uc003etn.2	+	7	1292	c.1102G>A	c.(1102-1104)GAT>AAT	p.D368N	CLSTN2_uc003etm.2_Missense_Mutation_p.D368N	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	368	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						CAAAGTCCCCGATGGGATTGT	0.577										HNSCC(16;0.037)			5	20					0	0	1	0	0		A	140178491	A	A	140178491	3	1	55	1	0	0	0	0	1	0	0	0	3565	1058	37	1	1128	1	CLSTN2	3	140178491	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2391490	140178491	57843939	354	39388											
RASA2	5922	broad.mit.edu	37	chr3	141295906	141295906	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgtttctttgctgtagcCgtagtatcacctcatacttt	6	18	6	11	2	3	0	2	0	1	0	4	0	3	0	2	0	3	5	2	0	4	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:141295906C>T	uc003etz.1	+	15	1548	c.1548C>T	c.(1546-1548)GCC>GCT	p.A516A	RASA2_uc010huq.1_Silent_p.A516A|RASA2_uc003eua.1_Silent_p.A516A|RASA2_uc011bnc.1_Silent_p.A108A	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	516	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6						TTGCTGTAGCCGTAGTATCAC	0.348													31	93					0	0	1	0	0		T	141295906	T	T	141295906	2	4	55	1	0	0	0	0	0	0	0	1	13086	639	23	1		1	RASA2	3	141295906	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1117415	141295906	56726524	355	39389											
ZIC1	7545	broad.mit.edu	37	chr3	147130352	147130352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggctgtgaccggcgcttcGctaacagcagcgaccgcaag	9	5	14	13	5	0	1	0	1	0	0	1	2	0	1	2	2	3	5	2	2	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:147130352G>A	uc003ewe.2	+	2	1749	c.1030G>A	c.(1030-1032)GCT>ACT	p.A344T		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	344	C2H2-type 4.				behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCGGCGCTTCGCTAACAGCAG	0.547													25	42					0	0	1	0	0		A	147130352	A	A	147130352	3	1	55	1	0	0	0	0	1	0	0	0	17703	1087	38	1	1036	1	ZIC1	3	147130352	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5834446	147130352	50892078	356	39390											
HLTF	6596	broad.mit.edu	37	chr3	148763957	148763957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgctgaataaatactttaCgttctggtaactccaaaaca	14	13	6	8	1	1	1	0	1	1	0	2	1	2	1	1	1	5	3	1	1	8	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:148763957C>T	uc003ewq.1	-	18	2200	c.1982G>A	c.(1981-1983)CGT>CAT	p.R661H	HLTF_uc003ewr.1_Missense_Mutation_p.R661H|HLTF_uc003ews.1_Missense_Mutation_p.R660H|HLTF_uc010hve.1_Missense_Mutation_p.R660H	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	661					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			AAATACTTTACGTTCTGGTAA	0.338													7	11					0	0	1	0	0		T	148763957	T	T	148763957	3	4	55	1	0	0	0	0	1	0	0	0	7231	536	19	1	1079	1	HLTF	3	148763957	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1633605	148763957	49258473	357	39391											
SUCNR1	56670	broad.mit.edu	37	chr3	151598716	151598716	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgataattaagtatcctttcCgagaacaccttctgcaaaag	14	12	6	9	1	1	2	0	1	1	1	3	3	3	2	3	0	2	2	3	0	6	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:151598716C>T	uc003ezf.1	+	3	484	c.385C>T	c.(385-387)CGA>TGA	p.R129*		NM_033050	NP_149039	Q9BXA5	SUCR1_HUMAN	succinate receptor 1	129	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)		Succinic acid(DB00139)	GTATCCTTTCCGAGAACACCT	0.373													8	41					0	0	1	0	0		T	151598716	T	T	151598716	4	4	55	1	0	0	0	0	0	1	0	0	15391	644	23	1	391	1	SUCNR1	3	151598716	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2834759	151598716	46423714	358	39392											
TIPARP	25976	broad.mit.edu	37	chr3	156396200	156396200	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccacactcaccaagagaaCggaattgaaatttgcatgga	16	8	8	9	1	1	2	1	1	0	1	1	5	1	4	2	2	3	1	2	2	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:156396200C>T	uc003fav.2	+	2	962	c.714C>T	c.(712-714)AAC>AAT	p.N238N	LOC100287227_uc011boq.1_5'Flank|TIPARP_uc003faw.2_Silent_p.N238N	NM_015508	NP_056323	Q7Z3E1	PARPT_HUMAN	TCDD-inducible poly(ADP-ribose) polymerase	238	C3H1-type.						NAD+ ADP-ribosyltransferase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|breast(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			ACCAAGAGAACGGAATTGAAA	0.453													39	71					0	0	1	0	0		T	156396200	T	T	156396200	2	4	55	1	0	0	0	0	0	0	0	1	15949	535	19	1		1	TIPARP	3	156396200	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4797484	156396200	41626230	359	39393											
IFT80	57560	broad.mit.edu	37	chr3	160083873	160083873	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagaggtttaatgattagCtgcttgcctgctgtataaag	11	14	11	5	0	0	3	0	2	0	1	0	3	0	3	1	1	4	5	1	1	6	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:160083873C>T	uc011boy.1	-	6	940	c.507G>A	c.(505-507)CAG>CAA	p.Q169Q	IFT80_uc003fda.2_RNA|IFT80_uc003fdb.1_Silent_p.Q32Q|IFT80_uc003fdd.1_Intron|IFT80_uc003fde.1_Silent_p.Q32Q	NM_020800	NP_065851	Q9P2H3	IFT80_HUMAN	WD repeat domain 56	169	WD 3.					cilium axoneme|microtubule basal body				ovary(1)	1			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TAATGATTAGCTGCTTGCCTG	0.398													6	139					0	0	1	0	0		T	160083873	T	T	160083873	2	4	55	1	0	0	0	0	0	0	0	1	7580	796	28	2		2	IFT80	3	160083873	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3687673	160083873	37938557	360	39394											
SMC4	10051	broad.mit.edu	37	chr3	160132162	160132162	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctttgctaggaaactgAataaaattacaaaatttatt	16	15	5	5	0	0	1	0	1	0	0	0	2	0	2	0	1	4	2	0	1	9	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:160132162A>G	uc003fdh.2	+	9	1242	c.1129A>G	c.(1129-1131)AAT>GAT	p.N377D	IFT80_uc003fda.2_Intron|SMC4_uc003fdf.1_RNA|SMC4_uc003fdg.1_Missense_Mutation_p.N377D|SMC4_uc010hwc.1_Missense_Mutation_p.N141D|SMC4_uc003fdi.2_Missense_Mutation_p.N352D|SMC4_uc003fdj.2_Missense_Mutation_p.N377D|SMC4_uc010hwd.2_Missense_Mutation_p.N377D|SMC4_uc003fdl.2_Missense_Mutation_p.N80D	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	377	Potential.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TAGGAAACTGAATAAAATTAC	0.294													4	21					0	0	1	0	0		G	160132162	G	G	160132162	3	3	55	1	0	0	0	0	1	0	0	0	14810	246	9	3	1159	3	SMC4	3	160132162	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	48289	160132162	37890268	361	39395											
MECOM	2122	broad.mit.edu	37	chr3	168838893	168838893	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttgtgttgtttgaggccCgacgaagtggcaaacgtttt	7	14	13	7	3	0	1	0	1	0	0	0	3	0	1	1	2	2	5	1	2	2	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:168838893C>T	uc003ffi.3	-	6	788	c.519G>A	c.(517-519)TCG>TCA	p.S173S	MECOM_uc010hwk.1_Silent_p.S196S|MECOM_uc003ffj.3_Silent_p.S238S|MECOM_uc011bpi.1_Silent_p.S174S|MECOM_uc003ffn.3_Silent_p.S173S|MECOM_uc003ffk.2_Silent_p.S173S|MECOM_uc003ffl.2_Silent_p.S333S|MECOM_uc011bpj.1_Silent_p.S361S|MECOM_uc011bpk.1_Silent_p.S163S|MECOM_uc010hwn.2_Silent_p.S361S	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	173	C2H2-type 5.|Interaction with MAPK9, SMAD3 and probably SUV39H1.				apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						GTTTGAGGCCCGACGAAGTGG	0.552													15	40					0	0	1	0	0		T	168838893	T	T	168838893	2	4	55	1	0	0	0	0	0	0	0	1	9440	639	23	1		1	MECOM	3	168838893	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	8706731	168838893	29183537	362	39396											
PHC3	80012	broad.mit.edu	37	chr3	169863295	169863295	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcagccacagtggtagcGggtgtgaaaatcagctgtac	12	7	13	9	1	1	1	1	1	0	0	1	1	1	1	1	2	5	4	1	2	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:169863295G>A	uc010hws.1	-	6	616	c.552C>T	c.(550-552)CCC>CCT	p.P184P	PHC3_uc003fgl.2_Silent_p.P196P|PHC3_uc011bpq.1_Silent_p.P143P|PHC3_uc011bpr.1_Intron|PHC3_uc003fgm.2_Silent_p.P196P	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	184	Ser-rich.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			CAGTGGTAGCGGGTGTGAAAA	0.463													14	44					0	0	1	0	0		A	169863295	A	A	169863295	2	1	55	1	0	0	0	0	0	0	0	1	11837	1103	39	1		1	PHC3	3	169863295	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1024402	169863295	28159135	363	39397											
FNDC3B	64778	broad.mit.edu	37	chr3	172058968	172058968	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttcacccacttgaaaccaGgcactttgtacaaactccga	12	9	5	15	1	1	1	1	1	0	0	2	2	2	1	4	1	3	2	4	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:172058968G>T	uc003fhy.2	+	17	2090	c.1918G>T	c.(1918-1920)GGC>TGC	p.G640C	FNDC3B_uc003fhz.3_Missense_Mutation_p.G640C	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	640	Fibronectin type-III 4.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		CTTGAAACCAGGCACTTTGTA	0.473													7	186					0.00621372	0.00632197	1	1	0		T	172058968	T	T	172058968	3	4	55	1	0	0	0	0	1	0	0	0	5984	1000	35	5	1980	5	FNDC3B	3	172058968	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2195673	172058968	25963462	364	39398											
ZMAT3	64393	broad.mit.edu	37	chr3	178748762	178748762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatttgctgcatagtaatttCggagtttcttaccatgattt	9	19	7	6	1	1	1	0	1	1	0	2	2	1	2	1	1	3	4	1	1	4	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:178748762C>T	uc003fjg.2	-	3	555	c.296G>A	c.(295-297)CGA>CAA	p.R99Q	ZMAT3_uc010hxa.2_Missense_Mutation_p.R99Q|ZMAT3_uc003fji.2_Missense_Mutation_p.R99Q	NM_022470	NP_071915	Q9HA38	ZMAT3_HUMAN	p53 target zinc finger protein isoform 1	99	Matrin-type 1.				apoptosis|protein transport|regulation of growth|response to DNA damage stimulus|transmembrane transport	nucleolus	RNA binding|zinc ion binding			ovary(2)	2	all_cancers(143;3.31e-18)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;6.74e-27)|GBM - Glioblastoma multiforme(14;0.00448)|BRCA - Breast invasive adenocarcinoma(182;0.0527)			ATAGTAATTTCGGAGTTTCTT	0.323													12	34					0	0	1	0	0		T	178748762	T	T	178748762	3	4	55	1	0	0	0	0	1	0	0	0	17718	884	31	1	589	1	ZMAT3	3	178748762	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6689794	178748762	19273668	365	39399											
PIK3CA	5290	broad.mit.edu	37	chr3	178952085	178952085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacaaatgaatgatgcacAtcatggtggctggacaacaa	17	7	10	7	0	1	2	1	2	0	0	1	4	1	3	0	3	3	2	0	3	5	0	rs121913279		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:178952085A>G	uc003fjk.2	+	21	3297	c.3140A>G	c.(3139-3141)CAT>CGT	p.H1047R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1047	PI3K/PI4K.		H -> L (in cancer).|H -> R (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; requires binding to p85 regulatory subunit to induce cellular transformation but not interaction with RAS; may mimic the conformatitonal change triggered by the interaction with RAS; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells; increases lipid kinase activity; may alter the interaction of the PI3K/ PI4K kinase domain with the cell membrane).|H -> Y (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.H1047R(1269)|p.H1047L(152)|p.H1047Y(31)|p.H1047Q(3)|p.H1047T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AATGATGCACATCATGGTGGC	0.378	H1047R(BT20_BREAST)|H1047R(NCIH1048_LUNG)|H1047R(MCAS_OVARY)|H1047R(HCC1954_BREAST)|H1047R(RKO_LARGE_INTESTINE)|H1047L(EFM19_BREAST)|H1047R(CAL33_UPPER_AERODIGESTIVE_TRACT)|H1047R(CAL29_URINARY_TRACT)|H1047R(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|H1047R(LS180_LARGE_INTESTINE)|H1047R(T47D_BREAST)|H1047R(HCT116_LARGE_INTESTINE)|H1047R(HSC2_UPPER_AERODIGESTIVE_TRACT)|H1047R(SKOV3_OVARY)|H1047R(MDAMB453_BREAST)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			23	43					0	0	1	0	0		G	178952085	G	G	178952085	3	3	55	1	0	0	0	0	1	0	0	0	11932	217	8	3	3218	3	PIK3CA	3	178952085	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	203323	178952085	19070345	366	39400											
FXR1	8087	broad.mit.edu	37	chr3	180680862	180680862	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggtcgtcggggacctaaTtacacctccggttatggtaa	10	10	12	9	3	0	1	0	0	0	1	3	2	1	2	3	5	1	2	3	5	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:180680862T>C	uc003fkq.2	+	13	1204	c.1182T>C	c.(1180-1182)AAT>AAC	p.N394N	FXR1_uc003fkp.2_Silent_p.N309N|FXR1_uc003fkr.2_Silent_p.N394N|FXR1_uc011bqj.1_Silent_p.N308N|FXR1_uc003fks.2_Silent_p.N337N|FXR1_uc011bqk.1_Silent_p.N345N|FXR1_uc011bql.1_Silent_p.N381N	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	394					apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			GGGGACCTAATTACACCTCCG	0.348													17	44					0	0	1	0	0		C	180680862	C	C	180680862	2	2	55	1	0	0	0	0	0	0	0	1	6129	1490	52	3		3	FXR1	3	180680862	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1728777	180680862	17341568	367	39401											
PARL	55486	broad.mit.edu	37	chr3	183551589	183551589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcttagtgcagacagctgCgaggactgtcatgatggcac	10	9	13	9	1	2	2	1	1	1	1	2	5	2	3	0	2	3	3	0	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:183551589C>T	uc003fmd.2	-	8	912	c.853G>A	c.(853-855)GCA>ACA	p.A285T	PARL_uc003fme.2_Missense_Mutation_p.A235T	NM_018622	NP_061092	Q9H300	PARL_HUMAN	presenilin associated, rhomboid-like isoform 1	285	Helical; (Potential).				proteolysis	integral to membrane|mitochondrial inner membrane|nucleus	serine-type endopeptidase activity				0	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.21e-41)|Epithelial(37;1.34e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			CAGACAGCTGCGAGGACTGTC	0.468													26	42					0	0	1	0	0		T	183551589	T	T	183551589	3	4	55	1	0	0	0	0	1	0	0	0	11470	768	27	1	298	1	PARL	3	183551589	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2870727	183551589	14470841	368	39402											
AP2M1	1173	broad.mit.edu	37	chr3	183900562	183900562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggatcaagcgcatggcagGcatgaaggaatcgcagatca	14	5	13	9	2	2	2	2	1	0	1	3	4	2	4	0	4	1	4	0	4	3	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:183900562G>A	uc011bqx.1	+	11	1236	c.1079G>A	c.(1078-1080)GGC>GAC	p.G360D	AP2M1_uc003fmw.2_Missense_Mutation_p.G358D|AP2M1_uc003fmx.2_Missense_Mutation_p.G288D|AP2M1_uc003fmy.2_Missense_Mutation_p.G358D|AP2M1_uc011bqy.1_Missense_Mutation_p.G230D|AP2M1_uc011bqz.1_Missense_Mutation_p.G176D	NM_004068	NP_004059	Q96CW1	AP2M1_HUMAN	adaptor-related protein complex 2, mu 1 subunit	360	MHD.				axon guidance|cellular membrane organization|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|clathrin coat of coated pit|cytosol|endocytic vesicle membrane|peroxisomal membrane	lipid binding|protein binding|transporter activity				0	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.92e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CGCATGGCAGGCATGAAGGAA	0.537													7	42					0	0	1	0	0		A	183900562	A	A	183900562	3	1	55	1	0	0	0	0	1	0	0	0	742	1203	42	2	1114	2	AP2M1	3	183900562	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	348973	183900562	14121868	369	39403											
EIF4G1	1981	broad.mit.edu	37	chr3	184049755	184049755	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagactcccctccgagtggAcgttgcagtgctgaaagcgc	8	8	13	12	3	0	2	0	2	0	1	2	5	2	3	3	1	3	3	3	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:184049755A>G	uc003fnp.2	+	32	4697	c.4499A>G	c.(4498-4500)GAC>GGC	p.D1500G	EIF4G1_uc003fnt.2_Missense_Mutation_p.D1211G|EIF4G1_uc003fnq.2_Missense_Mutation_p.D1413G|EIF4G1_uc003fnr.2_Missense_Mutation_p.D1336G|EIF4G1_uc010hxx.2_Missense_Mutation_p.D1507G|EIF4G1_uc003fns.2_Missense_Mutation_p.D1460G|EIF4G1_uc010hxy.2_Missense_Mutation_p.D1507G|EIF4G1_uc003fnv.3_Missense_Mutation_p.D1501G|EIF4G1_uc003fnu.3_Missense_Mutation_p.D1500G|EIF4G1_uc003fnw.2_Missense_Mutation_p.D1507G|EIF4G1_uc003fnx.2_Missense_Mutation_p.D1305G|EIF4G1_uc003fny.3_Missense_Mutation_p.D1304G|EIF4G1_uc003foa.2_Missense_Mutation_p.D172G	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1500	W2.|EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CTCCGAGTGGACGTTGCAGTG	0.572													11	37					0	0	1	0	0		G	184049755	G	G	184049755	3	3	55	1	0	0	0	0	1	0	0	0	5044	275	10	3	4617	3	EIF4G1	3	184049755	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	149193	184049755	13972675	370	39404											
FAM131A	131408	broad.mit.edu	37	chr3	184062581	184062581	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggactcactctacaactcGcccctcacagagtcctgcct	9	8	6	18	1	3	1	2	0	1	1	5	2	4	2	4	1	3	0	4	1	2	1	rs145026576	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:184062581G>A	uc003fog.2	+	3	2195	c.831G>A	c.(829-831)TCG>TCA	p.S277S	FAM131A_uc003fob.1_Silent_p.S185S|FAM131A_uc003foc.2_Silent_p.S223S|FAM131A_uc003foe.2_Silent_p.S223S	NM_144635	NP_653236	Q6UXB0	F131A_HUMAN	hypothetical protein LOC131408 precursor	277						extracellular region				breast(1)	1	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCTACAACTCGCCCCTCACAG	0.672													6	80					0	0	1	0	0		A	184062581	A	A	184062581	2	1	55	1	0	0	0	0	0	0	0	1	5450	1074	38	1		1	FAM131A	3	184062581	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	12826	184062581	13959849	371	39405											
CHRD	8646	broad.mit.edu	37	chr3	184104496	184104496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcagcgcccccacggggctCgctgggcgcccaactacgac	7	3	13	18	5	0	0	0	0	0	0	1	1	0	0	3	3	4	3	3	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:184104496C>T	uc003fov.2	+	16	2395	c.2149C>T	c.(2149-2151)CGC>TGC	p.R717C	CHRD_uc003fow.2_Missense_Mutation_p.R347C|CHRD_uc003fox.2_Missense_Mutation_p.R717C|CHRD_uc003foy.2_Missense_Mutation_p.R347C|CHRD_uc010hyc.2_Missense_Mutation_p.R307C|CHRD_uc011brr.1_Intron	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	717	VWFC 2.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CCACGGGGCTCGCTGGGCGCC	0.692													3	15					0	0	1	0	0		T	184104496	T	T	184104496	3	4	55	1	0	0	0	0	1	0	0	0	3375	884	31	1	2211	1	CHRD	3	184104496	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	41915	184104496	13917934	372	39406											
EPHB3	2049	broad.mit.edu	37	chr3	184298288	184298288	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatgaactatgtgcaccgCgacctggctgctcgcaacat	10	8	11	12	3	0	2	0	1	0	1	1	4	0	2	2	1	4	4	2	1	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:184298288C>T	uc003foz.2	+	12	2708	c.2271C>T	c.(2269-2271)CGC>CGT	p.R757R		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	757	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			ATGTGCACCGCGACCTGGCTG	0.577													7	167					0	0	1	0	0		T	184298288	T	T	184298288	2	4	55	1	0	0	0	0	0	0	0	1	5184	755	27	1		1	EPHB3	3	184298288	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	193792	184298288	13724142	373	39407											
EPHB3	2049	broad.mit.edu	37	chr3	184298382	184298382	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctggaggatgacccctccGatcctacctacaccagttcc	8	9	7	17	1	0	1	0	1	0	0	4	4	4	3	8	2	2	1	8	2	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:184298382G>A	uc003foz.2	+	12	2802	c.2365G>A	c.(2365-2367)GAT>AAT	p.D789N		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	789	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			TGACCCCTCCGATCCTACCTA	0.652													18	58					0	0	1	0	0		A	184298382	A	A	184298382	3	1	55	1	0	0	0	0	1	0	0	0	5184	1058	37	1	2411	1	EPHB3	3	184298382	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	94	184298382	13724048	374	39408											
TRA2B	6434	broad.mit.edu	37	chr3	185643365	185643365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgtctatgggagcgggagcGagaccgtgaccgggtataat	9	8	16	8	5	1	2	0	1	1	1	2	5	1	4	2	3	2	1	2	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:185643365G>A	uc003fpv.2	-	3	496	c.220C>T	c.(220-222)CGC>TGC	p.R74C	TRA2B_uc003fpt.2_5'Flank|TRA2B_uc003fpu.2_RNA|TRA2B_uc010hym.2_5'UTR|TRA2B_uc003fpw.2_Missense_Mutation_p.R74C	NM_004593	NP_004584	P62995	TRA2B_HUMAN	splicing factor, arginine/serine-rich 10	74	Arg/Ser-rich (RS1 domain).				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)	2						GAGCGGGAGCGAGACCGTGAC	0.507													17	48					0	0	1	0	0		A	185643365	A	A	185643365	3	1	55	1	0	0	0	0	1	0	0	0	16460	1058	37	1	674	1	TRA2B	3	185643365	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1344983	185643365	12379065	375	39409											
FGF12	2257	broad.mit.edu	37	chr3	192125845	192125845	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaccggcctcttgcggccGctgcagaagcgcactttgct	5	9	11	16	4	2	1	1	0	1	1	2	1	2	1	3	2	4	4	3	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:192125845G>A	uc003fsx.2	-	1	994	c.168C>T	c.(166-168)AGC>AGT	p.S56S	FGF12_uc003fsy.2_Intron	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	56					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		TCTTGCGGCCGCTGCAGAAGC	0.672													69	131					0	0	1	0	0		A	192125845	A	A	192125845	2	1	55	1	0	0	0	0	0	0	0	1	5855	1078	38	1		1	FGF12	3	192125845	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6482480	192125845	5896585	376	39410											
ATP13A4	84239	broad.mit.edu	37	chr3	193151640	193151640	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaaaatgtcttacttgttaCaccaataagagttgtaatgg	14	15	7	5	0	1	1	0	0	1	1	1	1	1	1	1	1	2	3	1	1	7	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:193151640C>T	uc003ftd.2	-	25	2944	c.2836G>A	c.(2836-2838)GTA>ATA	p.V946I	ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	946	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		TTACTTGTTACACCAATAAGA	0.408													12	36					0	0	1	0	0		T	193151640	T	T	193151640	3	4	55	1	0	0	0	0	1	0	0	0	1127	478	17	4	778	4	ATP13A4	3	193151640	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1025795	193151640	4870790	377	39411											
CPN2	1370	broad.mit.edu	37	chr3	194062823	194062823	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggggagaccagagagcgcGttgttgctcagcttcagggt	7	9	17	8	2	2	2	2	0	0	2	2	4	2	2	1	3	3	4	1	3	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:194062823G>A	uc003fts.2	-	2	699	c.609C>T	c.(607-609)AAC>AAT	p.N203N		NM_001080513	NP_001073982	P22792	CPN2_HUMAN	carboxypeptidase N, polypeptide 2	203	LRR 5.				protein stabilization	extracellular region	enzyme regulator activity			ovary(5)	5	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.65e-05)		CAGAGAGCGCGTTGTTGCTCA	0.612													15	16					0	0	1	0	0		A	194062823	A	A	194062823	2	1	55	1	0	0	0	0	0	0	0	1	3813	1136	40	1		1	CPN2	3	194062823	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	911183	194062823	3959607	378	39412											
GP5	2814	broad.mit.edu	37	chr3	194118638	194118638	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggtccaaaaacaactgcTccaggagcaccatcttatcc	12	9	7	13	0	1	0	0	0	1	0	4	1	4	1	4	2	4	2	4	2	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:194118638T>C	uc003ftv.1	-	2	405	c.374A>G	c.(373-375)GAG>GGG	p.E125G		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	125	LRR 3.|Extracellular (Potential).				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		AAACAACTGCTCCAGGAGCAC	0.502													23	53					0	0	1	0	0		C	194118638	C	C	194118638	3	2	55	1	0	0	0	0	1	0	0	0	6598	1551	54	3	1312	3	GP5	3	194118638	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	55815	194118638	3903792	379	39413											
ACAP2	23527	broad.mit.edu	37	chr3	195000079	195000079	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatttctgtgaatcttgcTggaaacgatttagtttctct	10	17	8	6	1	3	2	0	1	3	1	4	4	3	3	0	1	2	2	0	1	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:195000079T>C	uc003fun.3	-	23	2556	c.2315A>G	c.(2314-2316)CAG>CGG	p.Q772R		NM_012287	NP_036419	Q15057	ACAP2_HUMAN	centaurin, beta 2	772					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)	2						TGAATCTTGCTGGAAACGATT	0.313													3	41					0	0	1	0	0		C	195000079	C	C	195000079	3	2	55	1	0	0	0	0	1	0	0	0	119	1580	55	3	25	3	ACAP2	3	195000079	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	881441	195000079	3022351	380	39414											
RNF168	165918	broad.mit.edu	37	chr3	196210722	196210722	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggatcagattttctggaaTtcaagggagaagccgagata	13	10	12	6	1	3	3	2	0	1	3	3	7	3	5	1	3	1	0	1	3	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr3:196210722T>C	uc003fwq.2	-	4	1137	c.599A>G	c.(598-600)AAT>AGT	p.N200S	RNF168_uc010iah.2_Missense_Mutation_p.N33S	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	200					double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		TTTTCTGGAATTCAAGGGAGA	0.348													56	71					0	0	1	0	0		C	196210722	C	C	196210722	3	2	55	1	0	0	0	0	1	0	0	0	13484	1493	52	3	1128	3	RNF168	3	196210722	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1210643	196210722	1811708	381	39415											
ZNF721	170960	broad.mit.edu	37	chr4	436257	436257	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttcacatttgtaactttGctctccagtaagaattttcg	9	17	5	10	1	3	1	1	0	2	1	5	1	3	1	1	0	2	3	1	0	3	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:436257G>T	uc003gag.2	-	3	2690	c.1999C>A	c.(1999-2001)CAA>AAA	p.Q667K	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.Q699K|ZNF721_uc010ibe.2_Missense_Mutation_p.Q655K	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	667						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						TTGTAACTTTGCTCTCCAGTA	0.408													5	94					2.31682e-05	2.41038e-05	1	1	0		T	436257	T	T	436257	3	4	55	1	0	0	0	0	1	0	0	0	18147	1328	46	5	776	5	ZNF721	4	436257	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08		436257	190718019	382	39416											
TMEM175	84286	broad.mit.edu	37	chr4	944254	944254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggcaacacggattgccGtctacctgatgacctttctc	7	13	8	13	2	3	2	0	2	3	0	4	3	3	3	3	2	3	1	3	2	2	4	rs151228848	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:944254G>A	uc003gbq.2	+	4	336	c.238G>A	c.(238-240)GTC>ATC	p.V80I	TMEM175_uc010ibl.1_Missense_Mutation_p.V80I|TMEM175_uc003gbp.1_5'UTR|TMEM175_uc003gbr.2_5'UTR|TMEM175_uc003gbu.2_5'UTR|TMEM175_uc003gbs.2_5'UTR|TMEM175_uc003gbt.2_5'UTR|TMEM175_uc003gbv.2_5'UTR|TMEM175_uc010ibm.2_5'Flank	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	80	Helical; (Potential).					integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			ACGGATTGCCGTCTACCTGAT	0.572													25	48					0	0	1	0	0		A	944254	A	A	944254	3	1	55	1	0	0	0	0	1	0	0	0	16116	1145	40	1	248	1	TMEM175	4	944254	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	507997	944254	190210022	383	39417											
MAEA	10296	broad.mit.edu	37	chr4	1309205	1309205	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtggaatccatccaggcCgaggacgagagcgccaagct	10	4	15	12	4	0	1	0	0	0	1	2	5	2	3	4	4	2	1	4	4	2	0	rs142517889		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:1309205C>T	uc003gda.2	+	3	303	c.273C>T	c.(271-273)GCC>GCT	p.A91A	MAEA_uc010ibs.1_Silent_p.A91A|MAEA_uc003gdb.2_Silent_p.A91A|MAEA_uc011bvb.1_Intron|MAEA_uc003gdc.2_Silent_p.A91A|MAEA_uc003gdd.2_RNA|MAEA_uc011bvc.1_Silent_p.A90A|MAEA_uc011bvd.1_Silent_p.A43A|MAEA_uc010ibt.2_5'UTR	NM_001017405	NP_001017405	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher isoform 1	91	Extracellular and involved in cell to cell contact.				cell adhesion|cell cycle|cell division|erythrocyte maturation|negative regulation of myeloid cell apoptosis|regulation of mitotic cell cycle	actomyosin contractile ring|integral to plasma membrane|membrane fraction|nuclear matrix|spindle	actin binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0201)			CCATCCAGGCCGAGGACGAGA	0.657													17	44					0	0	1	0	0		T	1309205	T	T	1309205	2	4	55	1	0	0	0	0	0	0	0	1	9171	639	23	1		1	MAEA	4	1309205	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	364951	1309205	189845071	384	39418											
MAEA	10296	broad.mit.edu	37	chr4	1321484	1321484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagaataagagactggacGctgtgaggtaggcattgcgg	11	7	17	6	2	0	3	0	1	0	2	0	5	0	4	0	5	1	4	0	5	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:1321484G>A	uc003gda.2	+	5	679	c.649G>A	c.(649-651)GCT>ACT	p.A217T	MAEA_uc010ibs.1_Missense_Mutation_p.A176T|MAEA_uc003gdb.2_Missense_Mutation_p.A176T|MAEA_uc011bvb.1_Missense_Mutation_p.A149T|MAEA_uc003gdc.2_Intron|MAEA_uc003gdd.2_Intron|MAEA_uc011bvc.1_Missense_Mutation_p.A216T|MAEA_uc011bvd.1_Missense_Mutation_p.A169T|MAEA_uc010ibt.2_Intron|MAEA_uc010ibu.2_5'Flank	NM_001017405	NP_001017405	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher isoform 1	217					cell adhesion|cell cycle|cell division|erythrocyte maturation|negative regulation of myeloid cell apoptosis|regulation of mitotic cell cycle	actomyosin contractile ring|integral to plasma membrane|membrane fraction|nuclear matrix|spindle	actin binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0201)			GAGACTGGACGCTGTGAGGTA	0.577													10	29					0	0	1	0	0		A	1321484	A	A	1321484	3	1	55	1	0	0	0	0	1	0	0	0	9171	1087	38	1	667	1	MAEA	4	1321484	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	12279	1321484	189832792	385	39419											
TACC3	10460	broad.mit.edu	37	chr4	1730104	1730104	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggaagaagtggctgcaggCcaaatggccagctcctcgag	11	5	14	11	1	0	1	0	0	0	1	2	3	1	2	3	4	2	3	3	4	3	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:1730104C>T	uc003gdo.2	+	4	1083	c.975C>T	c.(973-975)GGC>GGT	p.G325G	TACC3_uc010ibz.2_Silent_p.G325G|TACC3_uc003gdp.2_Intron|TACC3_uc010ica.2_5'Flank	NM_006342	NP_006333	Q9Y6A5	TACC3_HUMAN	transforming, acidic coiled-coil containing	325						centrosome				ovary(1)|central_nervous_system(1)	2		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.00765)|Epithelial(3;0.0126)			TGGCTGCAGGCCAAATGGCCA	0.592													9	22					0	0	1	0	0		T	1730104	T	T	1730104	2	4	55	1	0	0	0	0	0	0	0	1	15528	726	26	2		2	TACC3	4	1730104	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	408620	1730104	189424172	386	39420											
WHSC1	7468	broad.mit.edu	37	chr4	1955098	1955098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagcaagacagatgttaagCgctgtgtggtaactcagtgt	12	10	13	6	1	1	3	1	0	0	3	1	3	1	3	0	1	3	4	0	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:1955098C>T	uc003gdz.3	+	12	2361	c.2185C>T	c.(2185-2187)CGC>TGC	p.R729C	WHSC1_uc003geb.3_Missense_Mutation_p.R729C|WHSC1_uc003gec.3_Missense_Mutation_p.R729C|WHSC1_uc003ged.3_Missense_Mutation_p.R729C|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gei.3_5'UTR|WHSC1_uc011bvh.1_5'UTR|WHSC1_uc010icf.2_Missense_Mutation_p.R77C	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	729	PHD-type 2.				anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		AGATGTTAAGCGCTGTGTGGT	0.438			T	IGH@	MM								39	81					0	0	1	0	0		T	1955098	T	T	1955098	3	4	55	1	0	0	0	0	1	0	0	0	17388	768	27	1	2303	1	WHSC1	4	1955098	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	224994	1955098	189199178	387	39421											
FAM193A	8603	broad.mit.edu	37	chr4	2664886	2664886	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctcagaagctgatgatgaAgaagcggacggcgagagtag	13	6	15	7	3	1	6	1	3	0	3	2	8	2	7	1	2	2	2	1	2	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:2664886A>T	uc010icl.2	+	10	1428	c.1077A>T	c.(1075-1077)GAA>GAT	p.E359D	FAM193A_uc010ick.2_Missense_Mutation_p.E559D|FAM193A_uc003gfd.2_Missense_Mutation_p.E359D|FAM193A_uc011bvm.1_Missense_Mutation_p.E381D|FAM193A_uc011bvn.1_Missense_Mutation_p.E359D|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Missense_Mutation_p.E213D	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	359										ovary(3)	3						CTGATGATGAAGAAGCGGACG	0.498													20	61					0	0	1	0	0		T	2664886	T	T	2664886	3	4	55	1	0	0	0	0	1	0	0	0	5535	69	3	5	1107	5	FAM193A	4	2664886	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	709788	2664886	188489390	388	39422											
HTT	3064	broad.mit.edu	37	chr4	3201628	3201628	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcttgtcaaccacacCgactaccgctggtgggcaga	8	8	11	14	2	1	1	1	0	0	1	1	2	1	1	3	2	4	4	3	2	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:3201628C>T	uc011bvq.1	+	42	5689	c.5544C>T	c.(5542-5544)ACC>ACT	p.T1848T		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1846					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		TCAACCACACCGACTACCGCT	0.617													12	28					0	0	1	0	0		T	3201628	T	T	3201628	2	4	55	1	0	0	0	0	0	0	0	1	7473	639	23	1		1	HTT	4	3201628	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	536742	3201628	187952648	389	39423											
ADRA2C	152	broad.mit.edu	37	chr4	3768921	3768921	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaccgccagcccgacggCgccgcctacccgcagtgcgg	5	4	12	20	7	1	0	0	0	1	0	1	1	1	0	6	2	4	1	6	2	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:3768921C>T	uc003ghm.2	+	1	626	c.588C>T	c.(586-588)GGC>GGT	p.G196G	ADRA2C_uc010icx.2_Silent_p.G196G	NM_000683	NP_000674	P18825	ADA2C_HUMAN	alpha-2C-adrenergic receptor	196	Extracellular (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation|regulation of insulin secretion	endosome|integral to plasma membrane	alpha-2A adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|protein heterodimerization activity|protein homodimerization activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)	Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	AGCCCGACGGCGCCGCCTACC	0.677													3	6					0	0	1	0	0		T	3768921	T	T	3768921	2	4	55	1	0	0	0	0	0	0	0	1	339	755	27	1		1	ADRA2C	4	3768921	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	567293	3768921	187385355	390	39424											
MSX1	4487	broad.mit.edu	37	chr4	4864851	4864851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacggcccatgtgggctacaGcatgtaccacctgacataga	11	7	10	13	1	0	2	0	1	0	1	0	2	0	2	3	2	3	3	3	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:4864851G>A	uc003gif.2	+	2	1128	c.893G>A	c.(892-894)AGC>AAC	p.S298N		NM_002448	NP_002439	P28360	MSX1_HUMAN	msh homeobox 1	292					apoptotic nuclear change|face morphogenesis|negative regulation of cell growth|odontogenesis of dentine-containing tooth|positive regulation of apoptosis|protein localization to nucleus|protein stabilization	nucleus	p53 binding|sequence-specific DNA binding transcription factor activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		GTGGGCTACAGCATGTACCAC	0.706													5	8					0	0	1	0	0		A	4864851	A	A	4864851	3	1	55	1	0	0	0	0	1	0	0	0	9913	971	34	2	899	2	MSX1	4	4864851	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1095930	4864851	186289425	391	39425											
C4orf50	389197	broad.mit.edu	37	chr4	5961245	5961245	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgacttggagggcaggacAgggcattccgcctttttctt	7	12	12	10	2	1	0	0	0	1	0	3	3	2	2	2	4	0	2	2	4	0	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:5961245A>C	uc003git.1	-	7	778	c.688T>G	c.(688-690)TGT>GGT	p.C230G		NM_207405	NP_997288	Q6ZRC1	CD050_HUMAN	hypothetical protein LOC389197	230										pancreas(2)|breast(1)	3						AGGGCAGGACAGGGCATTCCG	0.572													11	31					0	0	1	0	0		C	5961245	C	C	5961245	3	2	55	1	0	0	0	0	1	0	0	0	2279	188	7	5	146	5	C4orf50	4	5961245	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1096394	5961245	185193031	392	39426											
HTRA3	94031	broad.mit.edu	37	chr4	8293207	8293207	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacacagtgacaacgggcatCgtcagcactgcccagcggga	12	4	12	13	3	1	1	1	1	0	0	2	2	1	2	1	2	5	2	1	2	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:8293207C>T	uc003gla.2	+	4	1023	c.819C>T	c.(817-819)ATC>ATT	p.I273I	HTRA3_uc003gkz.2_Silent_p.I273I	NM_053044	NP_444272	P83110	HTRA3_HUMAN	HtrA serine peptidase 3 precursor	273	Serine protease.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity			ovary(1)	1						CAACGGGCATCGTCAGCACTG	0.632													15	33					0	0	1	0	0		T	8293207	T	T	8293207	2	4	55	1	0	0	0	0	0	0	0	1	7471	874	31	1		1	HTRA3	4	8293207	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2331962	8293207	182861069	393	39427											
BOD1L	259282	broad.mit.edu	37	chr4	13604573	13604573	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagagtgatccgcaggggaGgtgctggctgtgctaccttc	6	9	16	10	1	0	2	0	1	0	1	2	3	1	3	2	4	3	5	2	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:13604573G>T	uc003gmz.1	-	10	4068	c.3951C>A	c.(3949-3951)ACC>ACA	p.T1317T	BOD1L_uc010idr.1_Silent_p.T654T	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1317							DNA binding			ovary(5)|breast(1)	6						CCGCAGGGGAGGTGCTGGCTG	0.463													11	52					2.80697e-09	3.01337e-09	1	1	0		T	13604573	T	T	13604573	2	4	55	1	0	0	0	0	0	0	0	1	1484	987	35	5		5	BOD1L	4	13604573	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5311366	13604573	177549703	394	39428											
CD38	952	broad.mit.edu	37	chr4	15780067	15780067	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgagttcagcccggtgtcCggggacaaaccctgctgccg	6	7	14	14	4	1	0	1	0	0	0	2	2	2	1	4	3	5	2	4	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:15780067C>T	uc011bxc.1	+	1	137	c.30C>T	c.(28-30)TCC>TCT	p.S10S	CD38_uc003goj.1_Silent_p.S10S|CD38_uc003gol.1_Silent_p.S10S	NM_001775	NP_001766	P28907	CD38_HUMAN	CD38 antigen	10	Cytoplasmic (Potential).				B cell receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of apoptosis|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of transcription, DNA-dependent|response to drug	integral to membrane|plasma membrane	binding|NAD+ nucleosidase activity|receptor activity			ovary(2)	2						GCCCGGTGTCCGGGGACAAAC	0.652													18	72					0	0	1	0	0		T	15780067	T	T	15780067	2	4	55	1	0	0	0	0	0	0	0	1	3012	639	23	1		1	CD38	4	15780067	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2175494	15780067	175374209	395	39429											
ZCCHC4	29063	broad.mit.edu	37	chr4	25314435	25314435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggacggcggcgggaagatgGcggcctccaggaatgggttt	7	6	20	8	4	0	1	0	0	0	1	1	4	1	4	2	8	0	1	2	8	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:25314435G>A	uc003grl.3	+	1	40	c.4G>A	c.(4-6)GCG>ACG	p.A2T		NM_024936	NP_079212	Q9H5U6	ZCHC4_HUMAN	zinc finger, CCHC domain containing 4	2							methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(2)	2		Breast(46;0.0503)				CGGGAAGATGGCGGCCTCCAG	0.647											OREG0016141	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	102					0	0	1	0	0		A	25314435	A	A	25314435	3	1	55	1	0	0	0	0	1	0	0	0	17615	1203	42	2	6	2	ZCCHC4	4	25314435	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	9534368	25314435	165839841	396	39430											
SLC34A2	10568	broad.mit.edu	37	chr4	25672389	25672389	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagttatcagccaaattgcAatgaacgatgaaaaagcgaa	20	7	8	6	2	1	2	1	2	0	0	1	4	1	2	1	0	4	2	1	0	8	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:25672389A>G	uc003grr.2	+	8	942	c.861A>G	c.(859-861)GCA>GCG	p.A287A	SLC34A2_uc003grs.2_Silent_p.A286A|SLC34A2_uc010iev.2_Silent_p.A286A	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	287	Extracellular (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				GCCAAATTGCAATGAACGATG	0.428													11	23					0	0	1	0	0		G	25672389	G	G	25672389	2	3	55	1	0	0	0	0	0	0	0	1	14593	117	5	3		3	SLC34A2	4	25672389	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	357954	25672389	165481887	397	39431											
RBPJ	3516	broad.mit.edu	37	chr4	26432370	26432370	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcattccgagaaggttGgagatgggtccggcaaccag	9	9	14	9	2	1	2	0	0	1	2	3	4	3	2	3	4	2	3	3	4	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:26432370G>T	uc003grx.1	+	12	1480	c.1244G>T	c.(1243-1245)TGG>TTG	p.W415L	RBPJ_uc003gry.1_Missense_Mutation_p.W400L|RBPJ_uc003grz.1_Missense_Mutation_p.W415L|RBPJ_uc003gsa.1_Missense_Mutation_p.W401L|RBPJ_uc003gsb.1_Missense_Mutation_p.W402L|RBPJ_uc003gsc.1_Missense_Mutation_p.L366F|uc003gsd.2_5'Flank	NM_005349	NP_005340	Q06330	SUH_HUMAN	recombining binding protein suppressor of	415	IPT/TIG.				DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)				CGAGAAGGTTGGAGATGGGTC	0.448													20	46					1.1804e-14	1.29415e-14	1	1	0		T	26432370	T	T	26432370	3	4	55	1	0	0	0	0	1	0	0	0	13186	1357	47	5	1349	5	RBPJ	4	26432370	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	759981	26432370	164721906	398	39432											
CCKAR	886	broad.mit.edu	37	chr4	26483729	26483729	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcctcgggggcctggtcTtttgcaggtaacacccatcg	5	11	12	13	2	1	0	0	0	1	0	4	0	2	0	3	4	2	3	3	4	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:26483729T>A	uc003gse.1	-	5	971	c.818A>T	c.(817-819)AAG>ATG	p.K273M		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	273	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	GGGCCTGGTCTTTTGCAGGTA	0.602													11	51					0	0	1	0	0		A	26483729	A	A	26483729	3	1	55	1	0	0	0	0	1	0	0	0	2883	1609	56	5	472	5	CCKAR	4	26483729	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	51359	26483729	164670547	399	39433											
RFC1	5981	broad.mit.edu	37	chr4	39324961	39324961	+	Frame_Shift_Del	DEL	T	-	-																															tagcccaacattatgccaccTttttggtcttgggttcttca																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:39324961delT	uc003gty.1	-	7	853	c.719delA	c.(718-720)AAGfs	p.K240fs	RFC1_uc003gtx.1_Frame_Shift_Del_p.K240fs|RFC1_uc003gtz.1_Frame_Shift_Del_p.K124fs	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit	240					DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4						TTATGCCACCTTTTTGGTCTT	0.413													27	56	---	---	---	---						.	-	39324961	-	-	39324961	7	5	55	1	0	1	0	1	0	0	0	0	13269	1623	56	0	2800	0	RFC1	4	39324961	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	12841232	39324961	151829315	400	39434											
PDS5A	23244	broad.mit.edu	37	chr4	39921982	39921982	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctggactgttcttttcaatAgcacttttgcaaggtcaaag	10	15	8	8	0	4	0	2	0	2	0	4	1	4	1	0	2	2	3	0	2	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:39921982A>C	uc003guv.3	-	7	1232	c.692T>G	c.(691-693)CTA>CGA	p.L231R	PDS5A_uc010ifo.2_Missense_Mutation_p.L191R|PDS5A_uc003guw.3_Missense_Mutation_p.L231R	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	231					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						TCTTTTCAATAGCACTTTTGC	0.259													16	37					0	0	1	0	0		C	39921982	C	C	39921982	3	2	55	1	0	0	0	0	1	0	0	0	11710	420	15	5	3462	5	PDS5A	4	39921982	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	597021	39921982	151232294	401	39435											
RBM47	54502	broad.mit.edu	37	chr4	40440364	40440364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggccgcgctggcgtagaCgatcacgtccagcacgccct	6	6	13	16	7	1	1	1	0	0	1	3	2	2	1	3	2	1	3	3	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:40440364C>T	uc003gvc.2	-	4	1257	c.547G>A	c.(547-549)GTC>ATC	p.V183I	RBM47_uc003gvd.2_Missense_Mutation_p.V183I|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Missense_Mutation_p.V145I|RBM47_uc003gvg.1_Missense_Mutation_p.V183I	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	183	RRM 2.					nucleus	nucleotide binding|RNA binding			breast(3)	3						CTGGCGTAGACGATCACGTCC	0.637													24	59					0	0	1	0	0		T	40440364	T	T	40440364	3	4	55	1	0	0	0	0	1	0	0	0	13166	536	19	1	1250	1	RBM47	4	40440364	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	518382	40440364	150713912	402	39436											
SRP72	6731	broad.mit.edu	37	chr4	57335842	57335842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacagatcaacaaagatgacGtaactgccctgcattgtaaa	16	9	7	9	1	1	3	1	1	0	2	1	3	1	3	1	0	5	3	1	0	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:57335842G>A	uc003hbv.2	+	2	173	c.133G>A	c.(133-135)GTA>ATA	p.V45I	SRP72_uc010ihe.2_Missense_Mutation_p.V45I	NM_006947	NP_008878	O76094	SRP72_HUMAN	signal recognition particle 72kDa	45					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|nucleolus|plasma membrane|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding			ovary(1)	1	Glioma(25;0.08)|all_neural(26;0.101)					CAAAGATGACGTAACTGCCCT	0.358													17	61					0	0	1	0	0		A	57335842	A	A	57335842	3	1	55	1	0	0	0	0	1	0	0	0	15182	1145	40	1	139	1	SRP72	4	57335842	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	16895478	57335842	133818434	403	39437											
EPHA5	2044	broad.mit.edu	37	chr4	66535318	66535318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaggagggtccggagtgcgGcgcacaggagaaggcacgtc	9	3	18	11	4	0	1	0	0	0	1	2	4	1	3	2	6	1	2	2	6	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:66535318G>A	uc003hcy.2	-	1	336	c.143C>T	c.(142-144)GCC>GTC	p.A48V	EPHA5_uc003hcx.2_5'Flank|EPHA5_uc003hcz.2_Missense_Mutation_p.A48V|EPHA5_uc011cah.1_Missense_Mutation_p.A48V|EPHA5_uc011cai.1_Missense_Mutation_p.A48V|EPHA5_uc003hda.2_Missense_Mutation_p.A48V|uc003hdb.2_5'Flank	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	48	Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CCGGAGTGCGGCGCACAGGAG	0.721										TSP Lung(17;0.13)			3	19					0	0	1	0	0		A	66535318	A	A	66535318	3	1	55	1	0	0	0	0	1	0	0	0	5178	1203	42	2	3042	2	EPHA5	4	66535318	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	9199476	66535318	124618958	404	39438											
AMBN	258	broad.mit.edu	37	chr4	71467163	71467164	+	Frame_Shift_Ins	INS	-	A	A																															tctttgcctgtgcatcccccINSacctctcccatcacagccat																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:71467163_71467164insA	uc003hfl.2	+	6	398_399	c.323_324insA	c.(322-324)CCAfs	p.P108fs		NM_016519	NP_057603	Q9NP70	AMBN_HUMAN	ameloblastin precursor	108					bone mineralization|cell adhesion|cell proliferation|odontogenesis of dentine-containing tooth	proteinaceous extracellular matrix	growth factor activity|structural constituent of tooth enamel			ovary(3)|skin(1)	4			Lung(101;0.235)			GTGCATCCCCCACCTCTCCCAT	0.426											OREG0016218	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	68	158	---	---	---	---						.	A	71467164	A	A	71467163	7	5	55	1	0	1	1	0	0	0	0	0	563	594	21	0	345	0	AMBN	4	71467163	Frame_Shift_Ins	INS	-	TCGA-BR-7851-01A-11D-2201-08	4931845	71467163	119687113	405	39439											
ENAM	10117	broad.mit.edu	37	chr4	71510476	71510476	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttaagagtataaatgtagaCccacttgatgcagatgaaca	16	11	8	6	0	0	5	0	2	0	3	0	5	0	5	1	0	2	3	1	0	6	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:71510476C>G	uc011caw.1	+	9	3614	c.3333C>G	c.(3331-3333)GAC>GAG	p.D1111E		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	1111					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			TAAATGTAGACCCACTTGATG	0.428													15	56					0	0	1	0	0		G	71510476	G	G	71510476	3	3	55	1	0	0	0	0	1	0	0	0	5120	506	18	5	3363	5	ENAM	4	71510476	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	43313	71510476	119643800	406	39440											
IGJ	3512	broad.mit.edu	37	chr4	71527831	71527831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcggatgtttctctccaCaatgtcctcattaggatctt	9	16	6	10	1	3	0	1	0	2	0	7	2	5	2	2	2	0	1	2	2	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:71527831C>T	uc003hfn.3	-	2	307	c.166G>A	c.(166-168)GTG>ATG	p.V56M	IGJ_uc010ihz.2_Missense_Mutation_p.V72M	NM_144646	NP_653247	P01591	IGJ_HUMAN	immunoglobulin J chain	56					immune response	extracellular region	antigen binding				0			Lung(101;0.235)			TTTCTCTCCACAATGTCCTCA	0.393													25	75					0	0	1	0	0		T	71527831	T	T	71527831	3	4	55	1	0	0	0	0	1	0	0	0	7608	478	17	4	325	4	IGJ	4	71527831	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	17355	71527831	119626445	407	39441											
SLC4A4	8671	broad.mit.edu	37	chr4	72215771	72215772	+	Frame_Shift_Del	DEL	TC	-	-																															tgcttgatcgggaggcttctTctctcccacagttggtgggt																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:72215771_72215772delTC	uc003hfy.2	+	5	649_650	c.532_533delTC	c.(532-534)TCTfs	p.S178fs	SLC4A4_uc010iic.2_Frame_Shift_Del_p.S178fs|SLC4A4_uc010iib.2_Frame_Shift_Del_p.S178fs|SLC4A4_uc003hfz.2_Frame_Shift_Del_p.S178fs|SLC4A4_uc003hgc.3_Frame_Shift_Del_p.S134fs|SLC4A4_uc003hga.2_Frame_Shift_Del_p.S56fs|SLC4A4_uc003hgb.3_Frame_Shift_Del_p.S134fs	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	178	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			GGAGGCTTCTTCTCTCCCACAG	0.455													40	89	---	---	---	---						.	-	72215772	-	-	72215771	7	5	55	1	0	1	0	1	0	0	0	0	14681	1783	62	0	667	0	SLC4A4	4	72215771	Frame_Shift_Del	DEL	TC	TCGA-BR-7851-01A-11D-2201-08	687940	72215771	118938505	408	39442											
SLC4A4	8671	broad.mit.edu	37	chr4	72222756	72222756	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccatcagattgagacaggCctattgaaacctgaacttaa	15	9	8	9	0	1	4	1	3	0	2	1	6	1	4	3	1	2	0	3	1	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:72222756C>T	uc003hfy.2	+	6	699	c.582C>T	c.(580-582)GGC>GGT	p.G194G	SLC4A4_uc010iic.2_Silent_p.G194G|SLC4A4_uc010iib.2_Silent_p.G194G|SLC4A4_uc003hfz.2_Silent_p.G194G|SLC4A4_uc003hgc.3_Silent_p.G150G|SLC4A4_uc003hga.2_Silent_p.G72G|SLC4A4_uc003hgb.3_Silent_p.G150G	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	194	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			TTGAGACAGGCCTATTGAAAC	0.408													4	65					0	0	1	0	0		T	72222756	T	T	72222756	2	4	55	1	0	0	0	0	0	0	0	1	14681	726	26	2		2	SLC4A4	4	72222756	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6985	72222756	118931520	409	39443											
ANKRD17	26057	broad.mit.edu	37	chr4	73962877	73962877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttccctcttttgcccacGcttaggacttgctactgtta	5	17	6	13	1	2	0	0	0	2	0	3	1	3	1	2	1	3	3	2	1	3	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:73962877G>A	uc003hgp.2	-	27	5251	c.5134C>T	c.(5134-5136)CGT>TGT	p.R1712C	ANKRD17_uc003hgo.2_Missense_Mutation_p.R1599C|ANKRD17_uc003hgq.2_Missense_Mutation_p.R1461C|ANKRD17_uc003hgr.2_Missense_Mutation_p.R1711C	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1712					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TTTTGCCCACGCTTAGGACTT	0.383													47	175					0	0	1	0	0		A	73962877	A	A	73962877	3	1	55	1	0	0	0	0	1	0	0	0	646	1087	38	1	2709	1	ANKRD17	4	73962877	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1740121	73962877	117191399	410	39444											
ANKRD17	26057	broad.mit.edu	37	chr4	73990925	73990925	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtaggccctacctttcttGtctcggtgctctatactagc	7	14	8	12	1	3	0	0	0	3	0	4	0	3	0	2	2	4	2	2	2	6	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:73990925G>A	uc003hgp.2	-	17	3456	c.3339C>T	c.(3337-3339)GAC>GAT	p.D1113D	ANKRD17_uc003hgo.2_Silent_p.D1000D|ANKRD17_uc003hgq.2_Silent_p.D862D|ANKRD17_uc003hgr.2_Silent_p.D1112D|ANKRD17_uc011cbd.1_Silent_p.D678D	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1113					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TACCTTTCTTGTCTCGGTGCT	0.393													32	48					0	0	1	0	0		A	73990925	A	A	73990925	2	1	55	1	0	0	0	0	0	0	0	1	646	1368	48	4		4	ANKRD17	4	73990925	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	28048	73990925	117163351	411	39445											
ANKRD17	26057	broad.mit.edu	37	chr4	74124065	74124065	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactgctggtgccgccgccGccacctccgcctccaccgcc	3	7	9	22	5	0	0	0	0	0	0	2	0	2	0	10	1	3	1	10	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:74124065G>A	uc003hgp.2	-	1	438	c.321C>T	c.(319-321)GGC>GGT	p.G107G	ANKRD17_uc003hgq.2_Silent_p.G107G|ANKRD17_uc003hgr.2_Silent_p.G107G	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	107	Gly-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			Tgccgccgccgccacctccgc	0.383													10	33					0	0	1	0	0		A	74124065	A	A	74124065	2	1	55	1	0	0	0	0	0	0	0	1	646	1074	38	1		1	ANKRD17	4	74124065	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	133140	74124065	117030211	412	39446											
PPEF2	5470	broad.mit.edu	37	chr4	76785641	76785641	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggtctctaggttggatcGgtttcgatacaatgtttcca	9	15	10	7	2	1	0	0	0	1	0	5	2	2	1	1	4	1	3	1	4	4	5	rs61729786	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:76785641G>A	uc003hix.2	-	16	2317	c.1960C>T	c.(1960-1962)CGA>TGA	p.R654*	PPEF2_uc003hiy.2_RNA	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	654	EF-hand 2.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			AGGTTGGATCGGTTTCGATAC	0.338													20	30					0	0	1	0	0		A	76785641	A	A	76785641	4	1	55	1	0	0	0	0	0	1	0	0	12327	1124	39	1	309	1	PPEF2	4	76785641	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2661576	76785641	114368635	413	39447											
SDAD1	55153	broad.mit.edu	37	chr4	76877153	76877153	+	Frame_Shift_Del	DEL	T	-	-																															tttctcggaaggaacgcttaTtttttgaccggacattctgg																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:76877153delT	uc003hje.3	-	21	2110	c.1991delA	c.(1990-1992)AATfs	p.N664fs	SDAD1_uc003hjf.3_Frame_Shift_Del_p.N567fs|SDAD1_uc011cbr.1_Frame_Shift_Del_p.N627fs	NM_018115	NP_060585	Q9NVU7	SDA1_HUMAN	SDA1 domain containing 1	664					protein transport|ribosomal large subunit biogenesis	nucleolus	protein binding			ovary(1)	1			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			GGAACGCTTATTTTTTGACCG	0.393													73	120	---	---	---	---						.	-	76877153	-	-	76877153	7	5	55	1	0	1	0	1	0	0	0	0	13975	1493	52	0	80	0	SDAD1	4	76877153	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	91512	76877153	114277123	414	39448											
BMP3	651	broad.mit.edu	37	chr4	81967637	81967637	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctccaatttgatgagcaGaccctgaaaaaggcaaggag	15	6	11	9	1	0	4	0	3	0	1	1	5	1	5	2	2	1	3	2	2	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:81967637G>T	uc003hmg.3	+	2	1382	c.1062G>T	c.(1060-1062)CAG>CAT	p.Q354H		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	354					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						TTGATGAGCAGACCCTGAAAA	0.483													10	33					0.361761	0.362796	1	1	0		T	81967637	T	T	81967637	3	4	55	1	0	0	0	0	1	0	0	0	1462	933	33	5	1068	5	BMP3	4	81967637	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5090484	81967637	109186639	415	39449											
HPSE	10855	broad.mit.edu	37	chr4	84231184	84231184	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaataggagacatacttacTgatgccatgtaactgaatca	16	10	8	7	0	1	4	1	2	0	2	1	5	1	4	1	1	4	1	1	1	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:84231184T>C	uc003hoj.3	-	6	989	c.890A>G	c.(889-891)CAC>CGC	p.H297R	HPSE_uc010ika.2_Missense_Mutation_p.H239R|HPSE_uc011ccq.1_RNA|HPSE_uc011ccr.1_RNA|HPSE_uc011ccs.1_Missense_Mutation_p.H40R|HPSE_uc011cct.1_Missense_Mutation_p.H297R|HPSE_uc003hok.3_Missense_Mutation_p.H297R	NM_001098540	NP_001092010	Q9Y251	HPSE_HUMAN	heparanase precursor	297					carbohydrate metabolic process|cell adhesion|proteoglycan metabolic process	extracellular region|lysosomal membrane|nucleus	beta-glucuronidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.114)		COAD - Colon adenocarcinoma(81;0.141)	Heparin(DB01109)	ACATACTTACTGATGCCATGT	0.318													17	89					0	0	1	0	0		C	84231184	C	C	84231184	3	2	55	1	0	0	0	0	1	0	0	0	7360	1594	55	3	769	3	HPSE	4	84231184	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2263547	84231184	106923092	416	39450											
FAM175A	84142	broad.mit.edu	37	chr4	84384689	84384689	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccttttctcaatttctcGttttaatctgtttacatcct	6	22	2	11	1	4	0	1	0	4	0	8	0	5	0	2	0	1	2	2	0	3	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:84384689G>A	uc003hou.2	-	8	819	c.754C>T	c.(754-756)CGA>TGA	p.R252*	MRPS18C_uc011ccu.1_Intron|FAM175A_uc003hot.2_Nonsense_Mutation_p.R80*|FAM175A_uc003hov.2_Nonsense_Mutation_p.R143*	NM_139076	NP_620775	Q6UWZ7	F175A_HUMAN	coiled-coil domain containing 98	252	Potential.				chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of DNA repair|response to ionizing radiation	BRCA1-A complex	polyubiquitin binding			kidney(1)	1						TCAATTTCTCGTTTTAATCTG	0.308													15	42					0	0	1	0	0		A	84384689	A	A	84384689	4	1	55	1	0	0	0	0	0	1	0	0	5508	1153	40	1	483	1	FAM175A	4	84384689	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	153505	84384689	106769587	417	39451											
HSD17B13	345275	broad.mit.edu	37	chr4	88243791	88243791	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtatacattaccttattaAtatcccacagaaccaatatg	16	13	3	9	0	0	1	0	0	0	1	1	1	1	1	3	0	3	1	3	0	9	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:88243791A>T	uc003hqo.2	-	1	266	c.203T>A	c.(202-204)ATT>AAT	p.I68N	HSD17B13_uc010ikk.2_Missense_Mutation_p.I68N	NM_178135	NP_835236	Q7Z5P4	DHB13_HUMAN	hydroxysteroid (17-beta) dehydrogenase 13	68						extracellular region	binding|oxidoreductase activity				0		Acute lymphoblastic leukemia(40;0.244)|all_hematologic(202;0.248)		OV - Ovarian serous cystadenocarcinoma(123;0.000308)		TACCTTATTAATATCCCACAG	0.348													27	69					0	0	1	0	0		T	88243791	T	T	88243791	3	4	55	1	0	0	0	0	1	0	0	0	7398	101	4	5	727	5	HSD17B13	4	88243791	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	3859102	88243791	102910485	418	39452											
HSD17B11	51170	broad.mit.edu	37	chr4	88293942	88293942	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatggttattcttcgtcAttgcaggaagaaatgccttt	9	14	10	8	1	2	1	1	0	1	1	3	2	2	2	2	3	2	2	2	3	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:88293942A>G	uc003hqp.2	-	4	709	c.476T>C	c.(475-477)ATG>ACG	p.M159T		NM_016245	NP_057329	Q8NBQ5	DHB11_HUMAN	estradiol 17-beta-dehydrogenase 11	159					androgen catabolic process|steroid biosynthetic process	cytoplasm|extracellular region	binding|estradiol 17-beta-dehydrogenase activity			ovary(2)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000339)		ATTCTTCGTCATTGCAGGAAG	0.393													4	49					0	0	1	0	0		G	88293942	G	G	88293942	3	3	55	1	0	0	0	0	1	0	0	0	7396	217	8	3	442	3	HSD17B11	4	88293942	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	50151	88293942	102860334	419	39453											
ABCG2	9429	broad.mit.edu	37	chr4	89036197	89036197	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagggttattataggcCtcacagtgataacctatgaa	12	12	9	8	0	2	2	1	2	1	0	2	2	2	2	2	2	2	2	2	2	6	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:89036197C>T	uc003hrg.2	-	8	1348	c.855G>A	c.(853-855)GAG>GAA	p.E285E	ABCG2_uc003hrh.2_Silent_p.E285E|ABCG2_uc003hrf.2_Silent_p.E155E	NM_004827	NP_004818	Q9UNQ0	ABCG2_HUMAN	ATP-binding cassette, sub-family G, member 2	285	ABC transporter.|Cytoplasmic (Potential).				cellular iron ion homeostasis|urate metabolic process	integral to membrane|plasma membrane	ATP binding|heme transporter activity|protein homodimerization activity|xenobiotic-transporting ATPase activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Imatinib(DB00619)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nitrendipine(DB01054)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Topotecan(DB01030)	TATTATAGGCCTCACAGTGAT	0.408													5	23					0	0	1	0	0		T	89036197	T	T	89036197	2	4	55	1	0	0	0	0	0	0	0	1	69	680	24	4		4	ABCG2	4	89036197	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	742255	89036197	102118079	420	39454											
MTTP	4547	broad.mit.edu	37	chr4	100512480	100512480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggattcatgcaaaatagCgaggtctggatttacgaccc	11	11	10	9	2	2	0	1	0	1	0	2	4	2	2	1	3	3	1	1	3	4	5	rs137997894	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:100512480C>T	uc003hvc.3	+	6	846	c.590C>T	c.(589-591)GCG>GTG	p.A197V	MTTP_uc011cej.1_Missense_Mutation_p.A224V	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	197	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	TGCAAAATAGCGAGGTCTGGA	0.343													13	30					0	0	1	0	0		T	100512480	T	T	100512480	3	4	55	1	0	0	0	0	1	0	0	0	9982	768	27	1	608	1	MTTP	4	100512480	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	11476283	100512480	90641796	421	39455											
CFI	3426	broad.mit.edu	37	chr4	110670666	110670666	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgactttaccagttgtgctcGctttcctcccacaattcgtt	6	15	6	14	3	0	0	0	0	0	0	4	1	2	0	3	0	2	4	3	0	2	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:110670666G>A	uc003hzr.3	-	9	1241	c.1033C>T	c.(1033-1035)CGA>TGA	p.R345*	CFI_uc003hzq.2_Nonsense_Mutation_p.R142*|CFI_uc011cft.1_Nonsense_Mutation_p.R353*|CFI_uc003hzs.3_Nonsense_Mutation_p.R338*	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	345	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		AGTTGTGCTCGCTTTCCTCCC	0.403													24	59					0	0	1	0	0		A	110670666	A	A	110670666	4	1	55	1	0	0	0	0	0	1	0	0	3292	1095	38	1	738	1	CFI	4	110670666	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	10158186	110670666	80483610	422	39456											
RRH	10692	broad.mit.edu	37	chr4	110765294	110765294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactcaccaaacaatgcctGtgacaagtattttacccatg	14	10	6	11	0	1	2	1	1	0	1	1	2	1	2	3	0	3	1	3	0	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:110765294G>A	uc003hzv.2	+	7	989	c.955G>A	c.(955-957)GTG>ATG	p.V319M		NM_006583	NP_006574	O14718	OPSX_HUMAN	peropsin	319	Cytoplasmic.				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity	p.V319L(1)		ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00109)		AACAATGCCTGTGACAAGTAT	0.368													31	78					0	0	1	0	0		A	110765294	A	A	110765294	3	1	55	1	0	0	0	0	1	0	0	0	13705	1377	48	4	981	4	RRH	4	110765294	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	94628	110765294	80388982	423	39457											
EGF	1950	broad.mit.edu	37	chr4	110866263	110866263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtccctttttggtgacCgtatcttctattcaacatgg	8	16	7	10	1	3	1	1	1	2	0	4	1	4	1	2	2	1	1	2	2	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:110866263C>T	uc003hzy.3	+	5	1224	c.772C>T	c.(772-774)CGT>TGT	p.R258C	EGF_uc011cfu.1_Missense_Mutation_p.R258C|EGF_uc011cfv.1_Missense_Mutation_p.R258C	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	258	LDL-receptor class B 4.|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	TTTTGGTGACCGTATCTTCTA	0.343													8	29					0	0	1	0	0		T	110866263	T	T	110866263	3	4	55	1	0	0	0	0	1	0	0	0	4968	652	23	1	790	1	EGF	4	110866263	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	100969	110866263	80288013	424	39458											
C4orf21	55345	broad.mit.edu	37	chr4	113544979	113544979	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acacactaaaatacctcaagGcatttaagaaacagactctc	18	8	4	11	0	2	2	1	0	1	2	3	2	2	2	1	1	2	1	1	1	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:113544979G>A	uc003iau.2	-	4	367	c.156C>T	c.(154-156)TGC>TGT	p.C52C	C4orf21_uc003iaw.2_Silent_p.C52C	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		ATACCTCAAGGCATTTAAGAA	0.259													5	11					0	0	1	0	0		A	113544979	A	A	113544979	2	1	55	1	0	0	0	0	0	0	0	1	2257	1195	42	2		2	C4orf21	4	113544979	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2678716	113544979	77609297	425	39459											
ANK2	287	broad.mit.edu	37	chr4	114158328	114158328	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgctgacgtacaatccaaGgtacttaaagctgaacacat	16	9	7	9	1	0	2	0	2	0	0	1	2	1	2	1	1	5	4	1	1	8	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:114158328G>T	uc003ibe.3	+	6	769	c.669G>T	c.(667-669)AAG>AAT	p.K223N	ANK2_uc003ibd.3_Missense_Mutation_p.K202N|ANK2_uc003ibf.3_Missense_Mutation_p.K223N|ANK2_uc003ibc.2_Missense_Mutation_p.K199N|ANK2_uc011cgb.1_Missense_Mutation_p.K238N	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	223					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TACAATCCAAGGTACTTAAAG	0.468													22	41					4.22769e-11	4.575e-11	1	1	0		T	114158328	T	T	114158328	3	4	55	1	0	0	0	0	1	0	0	0	621	1014	35	5	716	5	ANK2	4	114158328	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	613349	114158328	76995948	426	39460											
SYNPO2	171024	broad.mit.edu	37	chr4	119948118	119948118	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcctgggcctgtggttgaGctgcaactgtccctttcaca	6	11	11	13	0	1	1	1	1	0	0	2	1	2	1	3	2	4	3	3	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:119948118G>A	uc003icm.3	+	3	790	c.594G>A	c.(592-594)GAG>GAA	p.E198E	SYNPO2_uc010ina.2_Silent_p.E198E|SYNPO2_uc010inb.2_Silent_p.E198E|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Silent_p.E126E	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	198						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						CTGTGGTTGAGCTGCAACTGT	0.552													10	17					0	0	1	0	0		A	119948118	A	A	119948118	2	1	55	1	0	0	0	0	0	0	0	1	15482	962	34	2		2	SYNPO2	4	119948118	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5789790	119948118	71206158	427	39461											
FAT4	79633	broad.mit.edu	37	chr4	126336508	126336508	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggctacagacaaaggTcaaccatctctctcttcatc	10	11	8	12	0	4	1	2	0	2	1	7	1	4	1	1	3	2	1	1	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:126336508T>A	uc003ifj.3	+	5	6390	c.6390T>A	c.(6388-6390)GGT>GGA	p.G2130G	FAT4_uc011cgp.1_Silent_p.G428G	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2130	Cadherin 20.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAGACAAAGGTCAACCATCTC	0.408													16	51					0	0	1	0	0		A	126336508	A	A	126336508	2	1	55	1	0	0	0	0	0	0	0	1	5706	1654	58	5		5	FAT4	4	126336508	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	6388390	126336508	64817768	428	39462											
FAT4	79633	broad.mit.edu	37	chr4	126336623	126336623	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattaatgaaaacacacttActggaacagatataatacaa	21	9	5	6	0	0	3	0	1	0	2	0	4	0	4	0	1	4	0	0	1	9	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:126336623A>G	uc003ifj.3	+	5	6505	c.6505A>G	c.(6505-6507)ACT>GCT	p.T2169A	FAT4_uc011cgp.1_Missense_Mutation_p.T467A	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2169	Cadherin 21.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AAACACACTTACTGGAACAGA	0.378													15	74					0	0	1	0	0		G	126336623	G	G	126336623	3	3	55	1	0	0	0	0	1	0	0	0	5706	391	14	3	6523	3	FAT4	4	126336623	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	115	126336623	64817653	429	39463											
MFSD8	256471	broad.mit.edu	37	chr4	128842780	128842780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agctgatgtaaggaactgggCcagatgaatcaccggggtgt	11	8	15	7	1	1	3	1	2	0	1	1	4	1	4	2	4	2	2	2	4	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:128842780C>T	uc003ifp.2	-	12	1412	c.1249G>A	c.(1249-1251)GCC>ACC	p.A417T	MFSD8_uc011cgu.1_Missense_Mutation_p.A372T|MFSD8_uc011cgv.1_3'UTR	NM_152778	NP_689991	Q8NHS3	MFSD8_HUMAN	major facilitator superfamily domain containing	417	Helical; (Potential).				cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2						AGGAACTGGGCCAGATGAATC	0.433													13	22					0	0	1	0	0		T	128842780	T	T	128842780	3	4	55	1	0	0	0	0	1	0	0	0	9556	739	26	2	315	2	MFSD8	4	128842780	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2506157	128842780	62311496	430	39464											
MFSD8	256471	broad.mit.edu	37	chr4	128863292	128863292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagtagcaccagcagtatatGatctaacaactgctacattt	15	11	6	9	0	1	1	0	1	1	0	1	1	1	1	1	0	6	5	1	0	7	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:128863292G>A	uc003ifp.2	-	6	624	c.461C>T	c.(460-462)TCA>TTA	p.S154L	MFSD8_uc011cgu.1_Missense_Mutation_p.S109L|MFSD8_uc011cgv.1_Intron|MFSD8_uc011cgw.1_Intron|MFSD8_uc011cgx.1_Missense_Mutation_p.S109L	NM_152778	NP_689991	Q8NHS3	MFSD8_HUMAN	major facilitator superfamily domain containing	154	Cytoplasmic (Potential).				cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2						AGCAGTATATGATCTAACAAC	0.343													17	69					0	0	1	0	0		A	128863292	A	A	128863292	3	1	55	1	0	0	0	0	1	0	0	0	9556	1294	45	4	1127	4	MFSD8	4	128863292	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	20512	128863292	62290984	431	39465											
SETD7	80854	broad.mit.edu	37	chr4	140450256	140450256	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagccagtttgccttctatcAtctctccatcaataaatttc	10	16	3	12	0	4	0	2	0	2	0	7	0	5	0	3	0	2	1	3	0	5	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:140450256A>G	uc003ihw.2	-	4	777	c.491T>C	c.(490-492)ATG>ACG	p.M164T		NM_030648	NP_085151	Q8WTS6	SETD7_HUMAN	SET domain-containing protein 7	164					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	histone-lysine N-methyltransferase activity|p53 binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.156)					GCCTTCTATCATCTCTCCATC	0.458													4	79					0	0	1	0	0		G	140450256	G	G	140450256	3	3	55	1	0	0	0	0	1	0	0	0	14161	217	8	3	629	3	SETD7	4	140450256	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	11586964	140450256	50704020	432	39466											
SETD7	80854	broad.mit.edu	37	chr4	140454490	140454490	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaactccctggccctgcaaGgcatcatccacataataccc	12	8	5	16	0	1	0	1	0	0	0	3	0	3	0	4	2	3	2	4	2	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:140454490G>T	uc003ihw.2	-	3	487	c.201C>A	c.(199-201)GCC>GCA	p.A67A	SETD7_uc003ihx.2_Silent_p.A67A	NM_030648	NP_085151	Q8WTS6	SETD7_HUMAN	SET domain-containing protein 7	67	MORN 2.				peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	histone-lysine N-methyltransferase activity|p53 binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.156)					GGCCCTGCAAGGCATCATCCA	0.488													13	8					1.15088e-07	1.22574e-07	1	1	0		T	140454490	T	T	140454490	2	4	55	1	0	0	0	0	0	0	0	1	14161	987	35	5		5	SETD7	4	140454490	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4234	140454490	50699786	433	39467											
MAML3	55534	broad.mit.edu	37	chr4	140641218	140641218	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccctgggcttggttatgtgtGatgctcatgccactttggtt	4	16	12	9	0	1	1	1	1	0	0	1	1	1	1	2	3	2	4	2	3	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:140641218G>A	uc003ihz.1	-	7	3413	c.2661C>T	c.(2659-2661)ATC>ATT	p.I887I	MGST2_uc010ioi.1_Intron|MAML3_uc011chd.1_Silent_p.I355I	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	888	Gln-rich.				Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					GGTTATGTGTGATGCTCATGC	0.537													11	384					0	0	1	0	0		A	140641218	A	A	140641218	2	1	55	1	0	0	0	0	0	0	0	1	9225	1280	45	4		4	MAML3	4	140641218	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	186728	140641218	50513058	434	39468											
TBC1D9	23158	broad.mit.edu	37	chr4	141598220	141598220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcagccggaaaagtgcaCggtatctctcactctttgcc	8	10	11	12	2	3	0	1	0	2	0	4	1	3	1	2	3	3	3	2	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:141598220C>T	uc010ioj.2	-	6	1159	c.887G>A	c.(886-888)CGT>CAT	p.R296H		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	296	GRAM 2.					intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				GAAAAGTGCACGGTATCTCTC	0.408													33	90					0	0	1	0	0		T	141598220	T	T	141598220	3	4	55	1	0	0	0	0	1	0	0	0	15652	536	19	1	2977	1	TBC1D9	4	141598220	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	957002	141598220	49556056	435	39469											
ANAPC10	10393	broad.mit.edu	37	chr4	145916685	145916685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatctgtatcatgaatgtaCgagttggcttcttatgattg	10	16	9	6	1	3	2	1	2	2	0	3	3	3	2	0	1	1	4	0	1	5	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:145916685C>T	uc003iju.3	-	6	553	c.398G>A	c.(397-399)CGT>CAT	p.R133H	ANAPC10_uc003ijv.3_Missense_Mutation_p.R133H|ANAPC10_uc003ijw.3_Missense_Mutation_p.R133H	NM_014885	NP_055700	Q9UM13	APC10_HUMAN	anaphase promoting complex subunit 10	133	DOC.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	ubiquitin-protein ligase activity				0	all_hematologic(180;0.151)					CATGAATGTACGAGTTGGCTT	0.408													22	55					0	0	1	0	0		T	145916685	T	T	145916685	3	4	55	1	0	0	0	0	1	0	0	0	599	536	19	1	163	1	ANAPC10	4	145916685	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4318465	145916685	45237591	436	39470											
ABCE1	6059	broad.mit.edu	37	chr4	146041302	146041302	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatggtgatgctgggggaaAatggtaagttttctgttttg	8	17	14	2	0	1	1	0	1	1	0	1	2	1	2	0	4	1	4	0	4	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:146041302A>T	uc003ijx.2	+	11	1581	c.1141A>T	c.(1141-1143)AAT>TAT	p.N381Y	ABCE1_uc003ijy.2_Missense_Mutation_p.N381Y|ABCE1_uc010iot.2_RNA	NM_001040876	NP_001035809	P61221	ABCE1_HUMAN	ATP-binding cassette, sub-family E, member 1	381	ABC transporter 2.|ATP 2 (Potential).				interspecies interaction between organisms|response to virus|RNA catabolic process	mitochondrion	ATP binding|ATPase activity|electron carrier activity|iron-sulfur cluster binding|ribonuclease inhibitor activity			skin(1)	1	all_hematologic(180;0.151)					GCTGGGGGAAAATGGTAAGTT	0.308													11	21					0	0	1	0	0		T	146041302	T	T	146041302	3	4	55	1	0	0	0	0	1	0	0	0	64	14	1	5	1179	5	ABCE1	4	146041302	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	124617	146041302	45112974	437	39471											
ZNF827	152485	broad.mit.edu	37	chr4	146824250	146824250	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatccggtcctccagagacAacttatagttctcctggact	9	11	9	12	1	1	1	0	0	1	1	5	4	4	3	4	3	1	1	4	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:146824250A>G	uc003ikn.2	-	2	209	c.161T>C	c.(160-162)TTG>TCG	p.L54S	ZNF827_uc003ikm.2_Missense_Mutation_p.L54S|ZNF827_uc010iox.2_Intron	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	54					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					CTCCAGAGACAACTTATAGTT	0.577													13	50					0	0	1	0	0		G	146824250	G	G	146824250	3	3	55	1	0	0	0	0	1	0	0	0	18205	131	5	3	3120	3	ZNF827	4	146824250	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	782948	146824250	44330026	438	39472											
NR3C2	4306	broad.mit.edu	37	chr4	149356399	149356399	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaagattggtctctagcCgatcgtgataaagatattgt	12	13	11	5	2	1	3	0	1	1	2	3	5	1	4	1	2	1	0	1	2	5	5	rs146153919		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:149356399C>A	uc003ilj.3	-	2	1948	c.1614G>T	c.(1612-1614)TCG>TCT	p.S538S	NR3C2_uc003ilk.3_Silent_p.S538S|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	538	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	GGTCTCTAGCCGATCGTGATA	0.478													14	41					4.3838e-07	4.64916e-07	1	1	0		A	149356399	A	A	149356399	2	1	55	1	0	0	0	0	0	0	0	1	10650	639	23	5		5	NR3C2	4	149356399	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2532149	149356399	41797877	439	39473											
FBXW7	55294	broad.mit.edu	37	chr4	153244281	153244281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactgtaaacaggtcacagCactctgatgcttgttgggac	11	10	11	9	0	2	1	1	1	1	0	2	3	2	2	0	2	4	4	0	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:153244281C>T	uc003ims.2	-	12	2025	c.1876G>A	c.(1876-1878)GCT>ACT	p.A626T	FBXW7_uc011cii.1_Missense_Mutation_p.A626T|FBXW7_uc003imt.2_Missense_Mutation_p.A626T|FBXW7_uc011cih.1_Missense_Mutation_p.A450T|FBXW7_uc003imq.2_Missense_Mutation_p.A546T|FBXW7_uc003imr.2_Missense_Mutation_p.A508T	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	626	WD 7.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				CAGGTCACAGCACTCTGATGC	0.343			Mis|N|D|F		colorectal|endometrial|T-ALL								7	23					0	0	1	0	0		T	153244281	T	T	153244281	3	4	55	1	0	0	0	0	1	0	0	0	5783	710	25	2	251	2	FBXW7	4	153244281	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3887882	153244281	37909995	440	39474											
FBXW7	55294	broad.mit.edu	37	chr4	153258983	153258983	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcaatgaaatgaagtctcGttgaaactggggttctatca	13	11	11	6	1	3	3	1	3	2	0	4	4	3	3	0	2	2	3	0	2	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:153258983G>A	uc003ims.2	-	5	981	c.832C>T	c.(832-834)CGA>TGA	p.R278*	FBXW7_uc011cii.1_Nonsense_Mutation_p.R278*|FBXW7_uc003imt.2_Nonsense_Mutation_p.R278*|FBXW7_uc011cih.1_Nonsense_Mutation_p.R102*|FBXW7_uc003imq.2_Nonsense_Mutation_p.R198*|FBXW7_uc003imr.2_Nonsense_Mutation_p.R160*	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	278	F-box.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R278*(7)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				ATGAAGTCTCGTTGAAACTGG	0.353			Mis|N|D|F		colorectal|endometrial|T-ALL								10	31					0	0	1	0	0		A	153258983	A	A	153258983	4	1	55	1	0	0	0	0	0	1	0	0	5783	1153	40	1	1323	1	FBXW7	4	153258983	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	14702	153258983	37895293	441	39475											
GRIA2	2891	broad.mit.edu	37	chr4	158284174	158284174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaaggttacaacgtatatgGcatcgaaagtgttaaaattt	15	12	10	4	2	0	0	0	0	0	0	1	2	0	1	0	3	2	4	0	3	8	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:158284174G>A	uc003ipm.3	+	15	3089	c.2630G>A	c.(2629-2631)GGC>GAC	p.G877D	GRIA2_uc011cit.1_Missense_Mutation_p.G830D|GRIA2_uc003ipl.3_Missense_Mutation_p.G877D|GRIA2_uc003ipk.3_Missense_Mutation_p.G830D|GRIA2_uc011civ.1_RNA|GRIA2_uc011ciw.1_RNA|GRIA2_uc011cix.1_3'UTR|GRIA2_uc011ciy.1_3'UTR|GRIA2_uc011ciz.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	877	Cytoplasmic (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	AACGTATATGGCATCGAAAGT	0.373													34	83					0	0	1	0	0		A	158284174	A	A	158284174	3	1	55	1	0	0	0	0	1	0	0	0	6784	1203	42	2	2807	2	GRIA2	4	158284174	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5025191	158284174	32870102	442	39476											
FSTL5	56884	broad.mit.edu	37	chr4	162307362	162307362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagacatatggagtgcccGtcacatcactattgaaccca	13	8	9	11	1	2	2	2	1	0	1	2	5	2	3	2	1	2	0	2	1	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:162307362G>A	uc003iqh.2	-	16	2517	c.2081C>T	c.(2080-2082)ACG>ATG	p.T694M	FSTL5_uc003iqi.2_Missense_Mutation_p.T693M|FSTL5_uc010iqv.2_Missense_Mutation_p.T684M|uc010iqu.1_RNA	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	694						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TGGAGTGCCCGTCACATCACT	0.473													15	59					0	0	1	0	0		A	162307362	A	A	162307362	3	1	55	1	0	0	0	0	1	0	0	0	6094	1145	40	1	466	1	FSTL5	4	162307362	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4023188	162307362	28846914	443	39477											
DDX60L	91351	broad.mit.edu	37	chr4	169317201	169317201	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaatcttcagattctccAggaaattaatatattcagct	14	13	5	9	0	4	2	2	0	2	2	5	3	4	3	2	1	1	1	2	1	5	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:169317201A>G	uc003irq.3	-	27	3787	c.3566T>C	c.(3565-3567)CTG>CCG	p.L1189P	DDX60L_uc003irr.1_Missense_Mutation_p.L1190P|DDX60L_uc003irs.1_Missense_Mutation_p.L884P	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	1189							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		CAGATTCTCCAGGAAATTAAT	0.338													6	18					0	0	1	0	0		G	169317201	G	G	169317201	3	3	55	1	0	0	0	0	1	0	0	0	4382	188	7	3	1602	3	DDX60L	4	169317201	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	7009839	169317201	21837075	444	39478											
GALNTL6	442117	broad.mit.edu	37	chr4	173734826	173734826	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaatgtactacaaaagaaTccccatccctccagagctcc	14	7	6	14	0	0	2	0	0	0	2	4	3	4	3	5	1	3	2	5	1	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:173734826T>A	uc003isv.2	+	7	1611	c.875T>A	c.(874-876)ATC>AAC	p.I292N		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	292	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						TACAAAAGAATCCCCATCCCT	0.562													11	33					0	0	1	0	0		A	173734826	A	A	173734826	3	1	55	1	0	0	0	0	1	0	0	0	6240	1435	50	5	897	5	GALNTL6	4	173734826	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	4417625	173734826	17419450	445	39479											
ODZ3	55714	broad.mit.edu	37	chr4	183714319	183714319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctccatttactgaacccaaGtaacagtgcgcgtctgacac	11	9	7	14	2	1	2	0	2	1	0	2	2	2	2	3	0	4	1	3	0	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:183714319G>A	uc003ivd.1	+	25	6531	c.6494G>A	c.(6493-6495)AGT>AAT	p.S2165N		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2165	Extracellular (Potential).|YD 19.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CTGAACCCAAGTAACAGTGCG	0.453													35	47					0	0	1	0	0		A	183714319	A	A	183714319	3	1	55	1	0	0	0	0	1	0	0	0	10855	1029	36	4	6592	4	ODZ3	4	183714319	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	9979493	183714319	7439957	446	39480											
C4orf41	60684	broad.mit.edu	37	chr4	184585065	184585065	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctgtggaattatgttgccgGcctatggcctttgttactct	5	16	10	10	1	1	0	0	0	1	0	1	1	1	1	4	3	2	2	4	3	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:184585065G>A	uc003ivx.2	+	2	221	c.45G>A	c.(43-45)CGG>CGA	p.R15R	C4orf41_uc003ivw.2_Silent_p.R15R|C4orf41_uc010isc.2_5'UTR	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	15											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		TATGTTGCCGGCCTATGGCCT	0.443													23	22					0	0	1	0	0		A	184585065	A	A	184585065	2	1	55	1	0	0	0	0	0	0	0	1	2273	1190	42	2		2	C4orf41	4	184585065	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	870746	184585065	6569211	447	39481											
IRF2	3660	broad.mit.edu	37	chr4	185350182	185350182	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttggagtttatctgctcctCcagccacgggcgcatgcgca	6	10	12	13	3	1	0	0	0	1	0	3	1	3	1	3	2	3	5	3	2	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:185350182C>A	uc003iwf.3	-	2	237	c.37G>T	c.(37-39)GAG>TAG	p.E13*		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	13	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		ATCTGCTCCTCCAGCCACGGG	0.582													22	37					2.70639e-06	2.84952e-06	1	1	0		A	185350182	A	A	185350182	4	1	55	1	0	0	0	0	0	1	0	0	7844	864	30	5	1044	5	IRF2	4	185350182	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	765117	185350182	5804094	448	39482											
ACSL1	2180	broad.mit.edu	37	chr4	185678331	185678331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcgacctgaaatagttcCgcagctctggccttttcgcc	6	12	9	14	3	2	1	0	1	2	0	4	2	3	1	4	1	2	3	4	1	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:185678331C>T	uc003iww.2	-	21	2339	c.2045G>A	c.(2044-2046)CGG>CAG	p.R682Q	ACSL1_uc011ckm.1_Missense_Mutation_p.R511Q|ACSL1_uc003iwt.1_Missense_Mutation_p.R682Q|ACSL1_uc003iwu.1_Missense_Mutation_p.R682Q|ACSL1_uc011ckn.1_Missense_Mutation_p.R648Q|ACSL1_uc003iws.1_Missense_Mutation_p.R242Q	NM_001995	NP_001986	P33121	ACSL1_HUMAN	acyl-CoA synthetase long-chain family member 1	682	Cytoplasmic (Potential).				digestion|fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|regulation of fatty acid oxidation|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			ovary(2)	2		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Colorectal(36;0.00172)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0315)|all_neural(102;0.107)|Medulloblastoma(177;0.146)		all cancers(43;1.33e-28)|Epithelial(43;5.3e-25)|OV - Ovarian serous cystadenocarcinoma(60;4.88e-11)|Colorectal(24;3.59e-06)|STAD - Stomach adenocarcinoma(60;2.72e-05)|GBM - Glioblastoma multiforme(59;2.83e-05)|BRCA - Breast invasive adenocarcinoma(30;7.66e-05)|COAD - Colon adenocarcinoma(29;0.000538)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.0419)	Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GAAATAGTTCCGCAGCTCTGG	0.443													22	30					0	0	1	0	0		T	185678331	T	T	185678331	3	4	55	1	0	0	0	0	1	0	0	0	177	652	23	1	55	1	ACSL1	4	185678331	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	328149	185678331	5475945	449	39483											
FAT1	2195	broad.mit.edu	37	chr4	187510153	187510153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcaaactgattgctgaattCgggcggtaacggtggtagct	9	12	13	7	3	1	2	1	2	0	0	2	2	1	2	0	4	4	4	0	4	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:187510153C>T	uc003izf.2	-	27	13548	c.13360G>A	c.(13360-13362)GAA>AAA	p.E4454K	FAT1_uc010isn.2_Missense_Mutation_p.E101K|FAT1_uc003ize.2_Missense_Mutation_p.E345K	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4454	Cytoplasmic (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TTGCTGAATTCGGGCGGTAAC	0.527										HNSCC(5;0.00058)			97	227					0	0	1	0	0		T	187510153	T	T	187510153	3	4	55	1	0	0	0	0	1	0	0	0	5703	893	31	1	410	1	FAT1	4	187510153	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1831822	187510153	3644123	450	39484											
FAT1	2195	broad.mit.edu	37	chr4	187524086	187524086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaaacctgccgctgggaCagacacaggtgtgtttctcc	9	8	11	13	1	1	1	0	0	1	1	2	3	1	2	4	2	2	2	4	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:187524086C>T	uc003izf.2	-	20	11641	c.11453G>A	c.(11452-11454)TGT>TAT	p.C3818Y		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3818	Extracellular (Potential).|EGF-like 1.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GCCGCTGGGACAGACACAGGT	0.488										HNSCC(5;0.00058)			18	43					0	0	1	0	0		T	187524086	T	T	187524086	3	4	55	1	0	0	0	0	1	0	0	0	5703	478	17	4	2345	4	FAT1	4	187524086	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	13933	187524086	3630190	451	39485											
FAT1	2195	broad.mit.edu	37	chr4	187557823	187557823	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgatgaaaaatttgccatgCtcattcccgtcttcgatgct	9	14	7	11	3	2	1	1	1	1	0	5	3	3	1	2	0	3	2	2	0	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr4:187557823C>T	uc003izf.2	-	5	4076	c.3888G>A	c.(3886-3888)GAG>GAA	p.E1296E		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1296	Extracellular (Potential).|Cadherin 11.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						ATTTGCCATGCTCATTCCCGT	0.463										HNSCC(5;0.00058)			45	186					0	0	1	0	0		T	187557823	T	T	187557823	2	4	55	1	0	0	0	0	0	0	0	1	5703	796	28	2		2	FAT1	4	187557823	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	33737	187557823	3596453	452	39486											
SLC9A3	6550	broad.mit.edu	37	chr5	480034	480034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagacttctgggccgaccGtctcatgaggaccctgctga	7	9	12	13	3	2	3	1	2	2	1	4	6	2	4	3	2	1	1	3	2	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:480034G>A	uc003jbe.2	-	10	1676	c.1564C>T	c.(1564-1566)CGG>TGG	p.R522W	SLC9A3_uc011clx.1_Missense_Mutation_p.R513W|uc011cly.1_RNA	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	522	Cytoplasmic (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			TGGGCCGACCGTCTCATGAGG	0.602													33	57					0	0	1	0	0		A	480034	A	A	480034	3	1	55	1	0	0	0	0	1	0	0	0	14738	1144	40	1	972	1	SLC9A3	5	480034	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08		480034	180435226	453	39487											
SLC12A7	10723	broad.mit.edu	37	chr5	1064240	1064240	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcagcatgagcatgccGccgtcgtgcacgatccacca	9	5	12	15	4	0	1	0	1	0	0	2	2	1	1	4	1	5	5	4	1	0	0	rs137938985	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:1064240G>A	uc003jbu.2	-	19	2631	c.2565C>T	c.(2563-2565)GGC>GGT	p.G855G		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	855	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	TGAGCATGCCGCCGTCGTGCA	0.687													8	18					0	0	1	0	0		A	1064240	A	A	1064240	2	1	55	1	0	0	0	0	0	0	0	1	14413	1074	38	1		1	SLC12A7	5	1064240	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	584206	1064240	179851020	454	39488											
CLPTM1L	81037	broad.mit.edu	37	chr5	1344507	1344507	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaaagtcttccacattcaaGaccaggtcgatgttgttctc	10	13	7	11	1	4	1	2	0	2	1	7	2	5	1	2	1	0	2	2	1	2	4	rs138482151	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:1344507G>A	uc003jch.2	-	2	268	c.222C>T	c.(220-222)GTC>GTT	p.V74V	CLPTM1L_uc003jcg.2_5'Flank	NM_030782	NP_110409	Q96KA5	CLP1L_HUMAN	CLPTM1-like	74	Extracellular (Potential).				apoptosis	integral to membrane				breast(1)|central_nervous_system(1)	2	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		CCACATTCAAGACCAGGTCGA	0.517													10	28					0	0	1	0	0		A	1344507	A	A	1344507	2	1	55	1	0	0	0	0	0	0	0	1	3558	929	33	4		4	CLPTM1L	5	1344507	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	280267	1344507	179570753	455	39489											
IRX2	153572	broad.mit.edu	37	chr5	2749765	2749765	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgttgagccaggccttgAgagtggccgtggcgtcccgc	4	8	16	13	4	0	2	0	2	0	1	2	3	1	2	4	3	1	2	4	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:2749765A>G	uc003jda.2	-	2	628	c.386T>C	c.(385-387)CTC>CCC	p.L129P	C5orf38_uc003jdc.2_5'Flank|C5orf38_uc011cmg.1_5'Flank|C5orf38_uc011cmh.1_5'Flank|C5orf38_uc011cmi.1_5'Flank|C5orf38_uc011cmj.1_5'Flank|IRX2_uc003jdb.2_Missense_Mutation_p.L129P	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	129	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		CCAGGCCTTGAGAGTGGCCGT	0.647													21	38					0	0	1	0	0		G	2749765	G	G	2749765	3	3	55	1	0	0	0	0	1	0	0	0	7860	304	11	3	1041	3	IRX2	5	2749765	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1405258	2749765	178165495	456	39490											
IRX1	79192	broad.mit.edu	37	chr5	3596380	3596380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggcggcggggcaggcgCggctgcagtcacctcggtgc	3	5	20	13	5	1	0	1	0	0	0	2	0	1	0	1	7	2	4	1	7	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:3596380C>T	uc003jde.2	+	1	213	c.161C>T	c.(160-162)GCG>GTG	p.A54V		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	54						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						ggggcaggcgcggcTGCAGTC	0.348													2	1					0	0	1	0	0		T	3596380	T	T	3596380	3	4	55	1	0	0	0	0	1	0	0	0	7859	768	27	1	163	1	IRX1	5	3596380	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	846615	3596380	177318880	457	39491											
ADAMTS16	170690	broad.mit.edu	37	chr5	5239326	5239326	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgtctgtggggtgtgtaaCgggaataactcagcctgcac	9	9	14	9	2	2	0	1	0	1	0	2	2	2	1	1	3	4	2	1	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:5239326C>T	uc003jdl.2	+	15	2355	c.2217C>T	c.(2215-2217)AAC>AAT	p.N739N	ADAMTS16_uc003jdk.1_Silent_p.N739N|ADAMTS16_uc010itk.1_RNA	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	739	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GGGTGTGTAACGGGAATAACT	0.512													61	110					0	0	1	0	0		T	5239326	T	T	5239326	2	4	55	1	0	0	0	0	0	0	0	1	261	535	19	1		1	ADAMTS16	5	5239326	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1642946	5239326	175675934	458	39492											
KIAA0947	23379	broad.mit.edu	37	chr5	5466527	5466527	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaccacaattacattcaCgccctctgcagggtgtatgt	10	11	9	11	1	2	0	1	0	1	0	2	1	2	1	2	2	2	2	2	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:5466527C>T	uc003jdm.3	+	14	6195	c.5973C>T	c.(5971-5973)CAC>CAT	p.H1991H		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1991										ovary(1)|central_nervous_system(1)	2						ATTACATTCACGCCCTCTGCA	0.398													10	25					0	0	1	0	0		T	5466527	T	T	5466527	2	4	55	1	0	0	0	0	0	0	0	1	8218	535	19	1		1	KIAA0947	5	5466527	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	227201	5466527	175448733	459	39493											
PAPD7	11044	broad.mit.edu	37	chr5	6751166	6751166	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaggattcagacacaccGccctgcacaacgcccagtgt	11	7	8	15	2	2	1	2	0	0	1	2	2	2	2	3	1	2	1	3	1	2	2	rs138987439	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:6751166G>A	uc003jdx.1	+	11	1254	c.1125G>A	c.(1123-1125)CCG>CCA	p.P375P	PAPD7_uc011cmn.1_Silent_p.P366P|PAPD7_uc010itl.1_Silent_p.P195P	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	375					cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						CAGACACACCGCCCTGCACAA	0.522													25	89					0	0	1	0	0		A	6751166	A	A	6751166	2	1	55	1	0	0	0	0	0	0	0	1	11445	1074	38	1		1	PAPD7	5	6751166	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1284639	6751166	174164094	460	39494											
ADCY2	108	broad.mit.edu	37	chr5	7396481	7396481	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcggcgggcggcggagaCgggctgccgcggtcccggga	4	2	23	12	8	0	1	0	0	0	1	1	4	1	2	2	8	1	1	2	8	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:7396481C>T	uc003jdz.1	+	1	139	c.72C>T	c.(70-72)GAC>GAT	p.D24D		NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	24	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						GCGGCGGAGACGGGCTGCCGC	0.652													7	20					0	0	1	0	0		T	7396481	T	T	7396481	2	4	55	1	0	0	0	0	0	0	0	1	294	535	19	1		1	ADCY2	5	7396481	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	645315	7396481	173518779	461	39495											
DNAH5	1767	broad.mit.edu	37	chr5	13759008	13759008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcaccacgtcaagttccgCctgcttgtcatccaactcgg	7	10	8	16	3	2	0	2	0	0	0	5	0	4	0	4	1	3	3	4	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:13759008C>T	uc003jfd.2	-	61	10408	c.10366G>A	c.(10366-10368)GCG>ACG	p.A3456T	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3456	Stalk (By similarity).|Potential.				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TCAAGTTCCGCCTGCTTGTCA	0.547									Kartagener_syndrome				38	114					0	0	1	0	0		T	13759008	T	T	13759008	3	4	55	1	0	0	0	0	1	0	0	0	4610	739	26	2	3584	2	DNAH5	5	13759008	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6362527	13759008	167156252	462	39496											
TRIO	7204	broad.mit.edu	37	chr5	14461390	14461390	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggactccgacgacagtgcGgccaccccgcaggacgagac	11	2	13	15	5	0	1	0	0	0	1	1	6	1	3	4	3	1	1	4	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:14461390G>A	uc003jff.2	+	35	5472	c.5466G>A	c.(5464-5466)GCG>GCA	p.A1822A	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Silent_p.A1471A|TRIO_uc003jfi.1_Silent_p.A125A	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1822					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					ACGACAGTGCGGCCACCCCGC	0.687													5	10					0	0	1	0	0		A	14461390	A	A	14461390	2	1	55	1	0	0	0	0	0	0	0	1	16578	1103	39	1		1	TRIO	5	14461390	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	702382	14461390	166453870	463	39497											
TRIO	7204	broad.mit.edu	37	chr5	14498630	14498630	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccatctgtgccgcagtgAcctgggagaggccacgctga	7	8	13	13	2	1	3	0	2	1	1	2	4	2	3	4	2	1	2	4	2	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:14498630A>G	uc003jff.2	+	53	8219	c.8213A>G	c.(8212-8214)GAC>GGC	p.D2738G	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2738	Ig-like C2-type.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					TGCCGCAGTGACCTGGGAGAG	0.587													5	15					0	0	1	0	0		G	14498630	G	G	14498630	3	3	55	1	0	0	0	0	1	0	0	0	16578	275	10	3	8423	3	TRIO	5	14498630	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	37240	14498630	166416630	464	39498											
TRIO	7204	broad.mit.edu	37	chr5	14508455	14508455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacttccttcattgagcggcGcaaacaccagaatgatgttc	11	10	9	11	2	1	3	1	2	0	1	3	4	2	3	2	1	2	2	2	1	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:14508455G>A	uc003jff.2	+	57	9224	c.9218G>A	c.(9217-9219)CGC>CAC	p.R3073H	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	3073					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					ATTGAGCGGCGCAAACACCAG	0.547													23	49					0	0	1	0	0		A	14508455	A	A	14508455	3	1	55	1	0	0	0	0	1	0	0	0	16578	1087	38	1	9444	1	TRIO	5	14508455	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	9825	14508455	166406805	465	39499											
PDZD2	23037	broad.mit.edu	37	chr5	32072313	32072313	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccagtactttgcccacgAtgtccctggccccttgtcag	5	11	8	17	1	1	0	1	0	0	0	3	1	3	0	5	1	2	1	5	1	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:32072313A>G	uc003jhl.2	+	17	3003	c.2615A>G	c.(2614-2616)GAT>GGT	p.D872G	PDZD2_uc003jhm.2_Missense_Mutation_p.D872G|PDZD2_uc011cnx.1_Missense_Mutation_p.D698G	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	872					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						TTTGCCCACGATGTCCCTGGC	0.537													6	117					0	0	1	0	0		G	32072313	G	G	32072313	3	3	55	1	0	0	0	0	1	0	0	0	11720	333	12	3	2677	3	PDZD2	5	32072313	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	17563858	32072313	148842947	466	39500											
ADAMTS12	81792	broad.mit.edu	37	chr5	33576770	33576770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaccacttgttgttgtagCtacaaggcctccctccgagg	9	10	10	12	1	0	1	0	0	0	1	2	2	2	1	4	2	3	4	4	2	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:33576770C>T	uc003jia.1	-	19	3524	c.3361G>A	c.(3361-3363)GCT>ACT	p.A1121T	ADAMTS12_uc010iuq.1_Missense_Mutation_p.A1036T	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1121	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GTTGTTGTAGCTACAAGGCCT	0.488										HNSCC(64;0.19)			6	66					0	0	1	0	0		T	33576770	T	T	33576770	3	4	55	1	0	0	0	0	1	0	0	0	257	797	28	2	1447	2	ADAMTS12	5	33576770	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1504457	33576770	147338490	467	39501											
RICTOR	253260	broad.mit.edu	37	chr5	38968099	38968099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacaacaggtagaggaagacGaaatatatcataaagcactt	19	7	8	7	1	1	2	1	0	0	2	1	4	1	3	0	2	2	2	0	2	8	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:38968099G>A	uc003jlp.2	-	12	1030	c.1006C>T	c.(1006-1008)CGT>TGT	p.R336C	RICTOR_uc003jlo.2_Missense_Mutation_p.R336C|RICTOR_uc010ivf.2_Missense_Mutation_p.R51C	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	336					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					AGAGGAAGACGAAATATATCA	0.303													8	50					0	0	1	0	0		A	38968099	A	A	38968099	3	1	55	1	0	0	0	0	1	0	0	0	13383	1058	37	1	4228	1	RICTOR	5	38968099	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5391329	38968099	141947161	468	39502											
HEATR7B2	133558	broad.mit.edu	37	chr5	41061745	41061745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaagatcttgtcagacagtCggttggcatccagtctgggg	8	11	14	8	1	3	3	1	1	2	2	5	3	4	3	1	4	0	2	1	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:41061745C>T	uc003jmj.3	-	6	1032	c.542G>A	c.(541-543)CGA>CAA	p.R181Q		NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	181							binding			ovary(6)|central_nervous_system(2)	8						GTCAGACAGTCGGTTGGCATC	0.483													9	68					0	0	1	0	0		T	41061745	T	T	41061745	3	4	55	1	0	0	0	0	1	0	0	0	7051	884	31	1	4363	1	HEATR7B2	5	41061745	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2093646	41061745	139853515	469	39503											
OXCT1	5019	broad.mit.edu	37	chr5	41794812	41794812	+	Frame_Shift_Del	DEL	A	-	-																															caaatgattcatcgctggagAaaaaagaggctcctggaaga																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:41794812delA	uc003jmn.2	-	12	1470	c.1139delT	c.(1138-1140)TTCfs	p.F380fs	OXCT1_uc011cpo.1_5'Flank|OXCT1_uc011cpp.1_5'Flank	NM_000436	NP_000427	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1 precursor	380					cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)	ATCGCTGGAGAAAAAAGAGGC	0.403													22	50	---	---	---	---						.	-	41794812	-	-	41794812	7	5	55	1	0	1	0	1	0	0	0	0	11348	246	9	0	447	0	OXCT1	5	41794812	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	733067	41794812	139120448	470	39504											
FST	10468	broad.mit.edu	37	chr5	52778724	52778724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagctgggaactgctggCtccgtcaagcgaagaacggc	10	6	13	12	3	2	1	2	0	0	1	3	3	3	2	1	3	5	3	1	3	4	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:52778724C>T	uc003jpd.2	+	2	127	c.100C>T	c.(100-102)CTC>TTC	p.L34F	FST_uc003jpc.2_Missense_Mutation_p.L34F	NM_013409	NP_037541	P19883	FST_HUMAN	follistatin isoform FST344 precursor	34	TB.				hemopoietic progenitor cell differentiation|negative regulation of activin receptor signaling pathway|negative regulation of follicle-stimulating hormone secretion|negative regulation of transcription from RNA polymerase II promoter|positive regulation of hair follicle development	extracellular region	activin binding|protein binding|signal transducer activity				0		Ovarian(174;1.78e-06)|Lung NSC(810;3.55e-06)|Breast(144;4.08e-05)				GAACTGCTGGCTCCGTCAAGC	0.642											OREG0016608	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	37					0	0	1	0	0		T	52778724	T	T	52778724	3	4	55	1	0	0	0	0	1	0	0	0	6090	797	28	2	106	2	FST	5	52778724	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	10983912	52778724	128136536	471	39505											
MAP3K1	4214	broad.mit.edu	37	chr5	56179352	56179352	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgctttcgtttaatatgtAgacaccagagactctaccag	12	13	7	9	1	1	2	0	0	1	2	2	3	1	2	2	0	2	3	2	0	4	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:56179352A>G	uc003jqw.3	+	15	4168	c.3667_splice	c.e15-2	p.T1223_splice		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase						cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		TTTAATATGTAGACACCAGAG	0.378													9	30					0	0	1	0	0		G	56179352	G	G	56179352	5	3	55	1	0	0	0	0	0	0	1	0	9261	434	15	3	3723	3	MAP3K1	5	56179352	Splice_Site	SNP	A	TCGA-BR-7851-01A-11D-2201-08	3400628	56179352	124735908	472	39506											
GPBP1	65056	broad.mit.edu	37	chr5	56531795	56531795	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccaactttcttccagccGtctttaaatcctgagtatga	10	15	5	11	1	2	2	0	2	2	0	5	2	5	2	4	0	2	1	4	0	4	6	rs147309086		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:56531795G>A	uc003jrh.3	+	6	1688	c.414G>A	c.(412-414)CCG>CCA	p.P138P	GPBP1_uc010iwg.2_Silent_p.P138P|GPBP1_uc003jri.3_5'UTR|GPBP1_uc003jrj.3_Silent_p.P145P|GPBP1_uc003jrk.3_Silent_p.P145P|GPBP1_uc003jrl.3_RNA	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	138					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		TCTTCCAGCCGTCTTTAAATC	0.318													17	53					0	0	1	0	0		A	56531795	A	A	56531795	2	1	55	1	0	0	0	0	0	0	0	1	6610	1132	40	1		1	GPBP1	5	56531795	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	352443	56531795	124383465	473	39507											
TRIM23	373	broad.mit.edu	37	chr5	64909976	64909976	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctccatactgaccaataggCccattctgcagtcgttccaa	10	10	7	14	1	1	1	0	1	1	0	4	1	3	1	4	1	2	3	4	1	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:64909976C>T	uc003jty.2	-	3	401	c.315G>A	c.(313-315)GGG>GGA	p.G105G	TRIM23_uc003jtw.2_Silent_p.G105G|TRIM23_uc003jtx.2_Silent_p.G105G	NM_001656	NP_001647	P36406	TRI23_HUMAN	ADP-ribosylation factor domain protein 1 isoform	105					interspecies interaction between organisms|small GTPase mediated signal transduction	Golgi membrane|lysosomal membrane	enzyme activator activity|GDP binding|GTP binding|GTPase activity|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Breast(144;0.0433)|Ovarian(174;0.0545)|Colorectal(97;0.234)		Lung(70;0.00473)		GACCAATAGGCCCATTCTGCA	0.353													29	68					0	0	1	0	0		T	64909976	T	T	64909976	2	4	55	1	0	0	0	0	0	0	0	1	16523	726	26	2		2	TRIM23	5	64909976	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	8378181	64909976	116005284	474	39508											
MAP1B	4131	broad.mit.edu	37	chr5	71494147	71494147	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttggccaagaatctcctgaGcaatcccttgctatggactt	9	13	8	11	0	1	2	0	1	1	1	3	3	2	3	3	2	2	2	3	2	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:71494147G>A	uc003kbw.3	+	5	5206	c.4965G>A	c.(4963-4965)GAG>GAA	p.E1655E	MAP1B_uc010iyw.1_Silent_p.E1672E|MAP1B_uc010iyx.1_Silent_p.E1529E|MAP1B_uc010iyy.1_Silent_p.E1529E	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1655						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		AATCTCCTGAGCAATCCCTTG	0.483													23	57					0	0	1	0	0		A	71494147	A	A	71494147	2	1	55	1	0	0	0	0	0	0	0	1	9246	962	34	2		2	MAP1B	5	71494147	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6584171	71494147	109421113	475	39509											
ZNF366	167465	broad.mit.edu	37	chr5	71739823	71739823	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggatgcatcctccttctcCtccttgcaggcttcctccag	4	14	7	16	0	1	0	0	0	1	0	7	1	6	1	6	2	2	3	6	2	0	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:71739823C>A	uc003kce.1	-	5	2181	c.1995G>T	c.(1993-1995)GAG>GAT	p.E665D		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	665					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		CCTCCTTCTCCTCCTTGCAGG	0.647													63	150					5.21738e-30	5.82963e-30	1	1	0		A	71739823	A	A	71739823	3	1	55	1	0	0	0	0	1	0	0	0	17895	680	24	5	243	5	ZNF366	5	71739823	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	245676	71739823	109175437	476	39510											
ZNF366	167465	broad.mit.edu	37	chr5	71756222	71756222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtcgaggccgcactccaCacagatgttctcgcgcccac	9	6	10	16	4	1	1	0	0	1	1	4	3	2	1	3	1	0	2	3	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:71756222C>T	uc003kce.1	-	2	1288	c.1102G>A	c.(1102-1104)GTG>ATG	p.V368M		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	368	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		CCGCACTCCACACAGATGTTC	0.657													8	36					0	0	1	0	0		T	71756222	T	T	71756222	3	4	55	1	0	0	0	0	1	0	0	0	17895	478	17	4	1148	4	ZNF366	5	71756222	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	16399	71756222	109159038	477	39511											
IQGAP2	10788	broad.mit.edu	37	chr5	75993813	75993813	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttacttgttgttttaggAtattcgaaatcaaagaatct	12	16	6	7	1	2	1	1	0	1	1	3	3	2	2	1	1	1	2	1	1	6	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:75993813A>G	uc003kek.2	+	33	4430	c.4208A>G	c.(4207-4209)GAT>GGT	p.D1403G	IQGAP2_uc011csv.1_Missense_Mutation_p.D899G|IQGAP2_uc003kel.2_Missense_Mutation_p.D899G|IQGAP2_uc010izw.1_Missense_Mutation_p.D104G	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	1403					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		TTGTTTTAGGATATTCGAAAT	0.363													3	12					0	0	1	0	0		G	75993813	G	G	75993813	3	3	55	1	0	0	0	0	1	0	0	0	7831	347	12	3	4338	3	IQGAP2	5	75993813	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	4237591	75993813	104921447	478	39512											
F2R	2149	broad.mit.edu	37	chr5	76029169	76029169	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaccccctaatttactattaCgcttcctctgagtgccagag	9	12	7	13	1	1	2	0	1	1	1	2	3	2	2	4	0	3	1	4	0	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:76029169C>T	uc003ken.3	+	2	1384	c.1119C>T	c.(1117-1119)TAC>TAT	p.Y373Y		NM_001992	NP_001983	P25116	PAR1_HUMAN	coagulation factor II receptor precursor	373	Helical; Name=7; (Potential).				activation of caspase activity|anatomical structure morphogenesis|connective tissue replacement involved in inflammatory response wound healing|negative regulation of cell proliferation|platelet activation|positive regulation of blood coagulation|positive regulation of cell migration|positive regulation of collagen biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of JAK-STAT cascade|positive regulation of MAPKKK cascade|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of transcription, DNA-dependent|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	caveola|extracellular region|Golgi apparatus|integral to plasma membrane|platelet dense tubular network	receptor binding|thrombin receptor activity			ovary(3)	3		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Prostate(461;0.00955)|Ovarian(174;0.0129)		all cancers(79;4.43e-43)	Streptokinase(DB00086)	TTTACTATTACGCTTCCTCTG	0.488													40	68					0	0	1	0	0		T	76029169	T	T	76029169	2	4	55	1	0	0	0	0	0	0	0	1	5351	547	19	1		1	F2R	5	76029169	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	35356	76029169	104886091	479	39513											
PAPD4	167153	broad.mit.edu	37	chr5	78919302	78919302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaaatcacactgcctgaggCcaaagataaggtaataataa	19	7	8	7	0	1	3	1	1	0	2	1	3	1	3	2	2	1	1	2	2	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:78919302C>T	uc010jae.1	+	5	873	c.455C>T	c.(454-456)GCC>GTC	p.A152V	PAPD4_uc003kgb.2_Missense_Mutation_p.A152V|PAPD4_uc010jaf.1_Missense_Mutation_p.A152V|PAPD4_uc003kga.2_Missense_Mutation_p.A152V|PAPD4_uc003kfz.2_Missense_Mutation_p.A152V	NM_001114393	NP_001107865	Q6PIY7	GLD2_HUMAN	PAP associated domain containing 4	152					histone mRNA catabolic process|mRNA processing|RNA polyadenylation	cytoplasm	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity			ovary(1)	1		Lung NSC(167;0.00293)|all_lung(232;0.00323)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;8.61e-47)|Epithelial(54;1.32e-41)|all cancers(79;2.45e-36)		CTGCCTGAGGCCAAAGATAAG	0.299													4	29					0	0	1	0	0		T	78919302	T	T	78919302	3	4	55	1	0	0	0	0	1	0	0	0	11443	739	26	2	465	2	PAPD4	5	78919302	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2890133	78919302	101995958	480	39514											
PAPD4	167153	broad.mit.edu	37	chr5	78938656	78938657	+	Frame_Shift_Ins	INS	-	T	T																															ttatttttaacttttcagtgINStttttttcaggtaaatcaga																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:78938656_78938657insT	uc010jae.1	+	8	1092_1093	c.674_675insT	c.(673-675)TGTfs	p.C225fs	PAPD4_uc003kgb.2_Frame_Shift_Ins_p.C225fs|PAPD4_uc010jaf.1_Frame_Shift_Ins_p.C225fs|PAPD4_uc003kga.2_Intron|PAPD4_uc003kfz.2_Frame_Shift_Ins_p.C225fs	NM_001114393	NP_001107865	Q6PIY7	GLD2_HUMAN	PAP associated domain containing 4	225					histone mRNA catabolic process|mRNA processing|RNA polyadenylation	cytoplasm	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity			ovary(1)	1		Lung NSC(167;0.00293)|all_lung(232;0.00323)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;8.61e-47)|Epithelial(54;1.32e-41)|all cancers(79;2.45e-36)		ACTTTTCAGTGTTTTTTTCAGG	0.302													12	14	---	---	---	---						.	T	78938657	T	T	78938656	7	5	55	1	0	1	1	0	0	0	0	0	11443	1391	48	0	696	0	PAPD4	5	78938656	Frame_Shift_Ins	INS	-	TCGA-BR-7851-01A-11D-2201-08	19354	78938656	101976604	481	39515											
CMYA5	202333	broad.mit.edu	37	chr5	79035006	79035006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgagtgaggcagaacaaaGtacacctgctgaacaaaaag	17	5	11	8	1	0	3	0	2	0	1	0	4	0	3	1	1	5	3	1	1	6	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:79035006G>A	uc003kgc.2	+	2	10490	c.10418G>A	c.(10417-10419)AGT>AAT	p.S3473N		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3473						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GCAGAACAAAGTACACCTGCT	0.413													5	11					0	0	1	0	0		A	79035006	A	A	79035006	3	1	55	1	0	0	0	0	1	0	0	0	3593	1029	36	4	10424	4	CMYA5	5	79035006	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	96350	79035006	101880254	482	39516											
VCAN	1462	broad.mit.edu	37	chr5	82815967	82815967	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttaattatgcctgataaTaatggatcatccatggatga	13	14	7	7	0	1	2	1	2	0	0	2	4	2	4	3	2	1	0	3	2	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:82815967T>C	uc003kii.3	+	7	2198	c.1842T>C	c.(1840-1842)AAT>AAC	p.N614N	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Silent_p.N614N|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	614	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TGCCTGATAATAATGGATCAT	0.423													36	76					0	0	1	0	0		C	82815967	C	C	82815967	2	2	55	1	0	0	0	0	0	0	0	1	17164	1403	49	3		3	VCAN	5	82815967	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	3780961	82815967	98099293	483	39517											
CHD1	1105	broad.mit.edu	37	chr5	98221294	98221294	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacatacctctgatccctcAgcattaaaatgatctagagc	14	11	5	11	0	3	3	1	2	2	1	4	3	4	3	2	0	4	1	2	0	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:98221294A>G	uc003knf.2	-	17	2704	c.2556T>C	c.(2554-2556)GCT>GCC	p.A852A		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	852	Helicase C-terminal.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	CTGATCCCTCAGCATTAAAAT	0.259													17	35					0	0	1	0	0		G	98221294	G	G	98221294	2	3	55	1	0	0	0	0	0	0	0	1	3326	175	7	3		3	CHD1	5	98221294	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	15405327	98221294	82693966	484	39518											
SRP19	6728	broad.mit.edu	37	chr5	112203173	112203173	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacacaaaaaacaggaggtgCtgaccaaagtcttcaacaag	18	5	9	9	0	2	1	1	1	1	0	2	3	2	2	1	2	3	1	1	2	6	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:112203173C>G	uc003kqc.2	+	5	455	c.374C>G	c.(373-375)GCT>GGT	p.A125G	SRP19_uc003kqb.1_3'UTR|SRP19_uc011cvu.1_Intron|SRP19_uc011cvv.1_Intron	NM_003135	NP_003126	P09132	SRP19_HUMAN	signal recognition particle 19kDa	125					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|mitochondrion|nucleolus|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding				0		all_cancers(142;0.00328)|all_epithelial(76;6.39e-05)|Prostate(80;0.00174)|Colorectal(10;0.00372)|Ovarian(225;0.156)		Epithelial(69;1.7e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.17e-08)|all cancers(49;3.96e-07)|Colorectal(14;0.0056)|COAD - Colon adenocarcinoma(37;0.0104)		ACAGGAGGTGCTGACCAAAGT	0.313													5	31					0	0	1	0	0		G	112203173	G	G	112203173	3	3	55	1	0	0	0	0	1	0	0	0	15179	797	28	5	392	5	SRP19	5	112203173	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	13981879	112203173	68712087	485	39519											
SRFBP1	153443	broad.mit.edu	37	chr5	121355987	121355987	+	Frame_Shift_Del	DEL	A	-	-																															accaatacataattcaaaggAaaaaatagcaaagatggaac																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:121355987delA	uc003kst.1	+	6	629	c.557delA	c.(556-558)GAAfs	p.E186fs		NM_152546	NP_689759	Q8NEF9	SRFB1_HUMAN	serum response factor binding protein 1	186					regulation of transcription, DNA-dependent|transcription, DNA-dependent	perinuclear region of cytoplasm					0		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000227)|Epithelial(69;0.000365)|all cancers(49;0.00517)		AATTCAAAGGAAAAAATAGCA	0.373													16	24	---	---	---	---						.	-	121355987	-	-	121355987	7	5	55	1	0	1	0	1	0	0	0	0	15169	246	9	0	579	0	SRFBP1	5	121355987	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	9152814	121355987	59559273	486	39520											
CSNK1G3	1456	broad.mit.edu	37	chr5	122926231	122926231	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatgtttgattatgaataTgactggattggtaaacagtt	13	17	9	2	0	0	3	0	3	0	0	0	4	0	4	0	2	1	3	0	2	7	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:122926231T>C	uc003ktm.2	+	9	1688	c.969T>C	c.(967-969)TAT>TAC	p.Y323Y	CSNK1G3_uc003ktl.2_Silent_p.Y323Y|CSNK1G3_uc003ktn.2_Silent_p.Y323Y|CSNK1G3_uc003kto.2_Silent_p.Y323Y|CSNK1G3_uc011cwr.1_Silent_p.Y248Y|CSNK1G3_uc011cws.1_Silent_p.Y211Y|CSNK1G3_uc010jda.2_Silent_p.Y324Y	NM_004384	NP_004375	Q9Y6M4	KC1G3_HUMAN	casein kinase 1, gamma 3 isoform 1	323					Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0		all_cancers(142;0.0156)|Prostate(80;0.0322)|Lung NSC(810;0.245)	KIRC - Kidney renal clear cell carcinoma(527;0.165)|Kidney(363;0.229)	OV - Ovarian serous cystadenocarcinoma(64;0.000121)|Epithelial(69;0.000227)|all cancers(49;0.00176)		ATTATGAATATGACTGGATTG	0.279													7	83					0	0	1	0	0		C	122926231	C	C	122926231	2	2	55	1	0	0	0	0	0	0	0	1	3959	1471	51	3		3	CSNK1G3	5	122926231	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1570244	122926231	57989029	487	39521											
ZNF608	57507	broad.mit.edu	37	chr5	124036756	124036756	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaattcacactggtcccAggttcacagggcccaagaca	12	7	8	14	0	2	1	2	0	0	1	4	1	4	1	3	3	0	1	3	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:124036756A>C	uc003ktq.1	-	2	1236	c.1113T>G	c.(1111-1113)CCT>CCG	p.P371P	ZNF608_uc003ktr.1_RNA|ZNF608_uc003kts.1_Silent_p.P371P|ZNF608_uc003ktt.1_Silent_p.P371P	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	371						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		CACTGGTCCCAGGTTCACAGG	0.463													25	59					0	0	1	0	0		C	124036756	C	C	124036756	2	2	55	1	0	0	0	0	0	0	0	1	18059	175	7	5		5	ZNF608	5	124036756	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1110525	124036756	56878504	488	39522											
ADAMTS19	171019	broad.mit.edu	37	chr5	129015539	129015539	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaatttggctggaactacCgttcattatgtaagacgagg	11	13	10	7	2	2	1	2	0	0	1	2	3	2	2	1	3	2	3	1	3	5	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:129015539C>T	uc003kvb.1	+	17	2571	c.2571C>T	c.(2569-2571)ACC>ACT	p.T857T	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	857	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		CTGGAACTACCGTTCATTATG	0.428													21	35					0	0	1	0	0		T	129015539	T	T	129015539	2	4	55	1	0	0	0	0	0	0	0	1	264	639	23	1		1	ADAMTS19	5	129015539	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4978783	129015539	51899721	489	39523											
SEPT8	23176	broad.mit.edu	37	chr5	132100012	132100012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtcataggtctggggcCgcaggcgcacgcatgcctca	7	6	16	12	3	3	0	2	0	1	0	3	1	3	1	2	6	1	3	2	6	1	1	rs76417071	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:132100012C>T	uc003kxr.2	-	3	489	c.251G>A	c.(250-252)CGG>CAG	p.R84Q	SEPT8_uc003kxs.1_Missense_Mutation_p.R84Q|SEPT8_uc003kxu.2_Missense_Mutation_p.R84Q|SEPT8_uc011cxi.1_Missense_Mutation_p.R84Q|SEPT8_uc003kxv.2_Missense_Mutation_p.R84Q|SEPT8_uc003kxt.2_Missense_Mutation_p.R24Q	NM_001098811	NP_001092281	Q92599	SEPT8_HUMAN	septin 8 isoform a	84					cell cycle	septin complex	GTP binding|protein binding			ovary(2)	2		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GGTCTGGGGCCGCAGGCGCAC	0.562													9	39					0	0	1	0	0		T	132100012	T	T	132100012	3	4	55	1	0	0	0	0	1	0	0	0	14095	652	23	1	1287	1	SEPT8	5	132100012	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3084473	132100012	48815248	490	39524											
SEC24A	10802	broad.mit.edu	37	chr5	134010443	134010443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttccttgaattacccaaGtgggccacaagcctttactc	9	12	6	14	0	1	1	0	1	1	0	3	1	2	1	4	1	3	0	4	1	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:134010443G>A	uc003kzs.2	+	5	1244	c.956G>A	c.(955-957)AGT>AAT	p.S319N	SEC24A_uc011cxu.1_Missense_Mutation_p.S83N	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A	319					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AATTACCCAAGTGGGCCACAA	0.413													15	24					0	0	1	0	0		A	134010443	A	A	134010443	3	1	55	1	0	0	0	0	1	0	0	0	14019	1029	36	4	974	4	SEC24A	5	134010443	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1910431	134010443	46904817	491	39525											
CAMLG	819	broad.mit.edu	37	chr5	134077003	134077003	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacagaggggacctgacagcGgactcggtccagaggggttc	10	5	16	10	2	0	3	0	1	0	2	3	5	1	5	2	6	2	1	2	6	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:134077003G>A	uc003kzt.2	+	2	528	c.423G>A	c.(421-423)GCG>GCA	p.A141A	CAMLG_uc003kzu.2_Intron	NM_001745	NP_001736	P49069	CAMLG_HUMAN	calcium modulating ligand	141	Cytoplasmic (Potential).				defense response	endoplasmic reticulum|integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Cyclosporine(DB00091)	ACCTGACAGCGGACTCGGTCC	0.522													10	23					0	0	1	0	0		A	134077003	A	A	134077003	2	1	55	1	0	0	0	0	0	0	0	1	2612	1103	39	1		1	CAMLG	5	134077003	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	66560	134077003	46838257	492	39526											
KLHL3	26249	broad.mit.edu	37	chr5	136974736	136974736	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcatgctggcaatggaCgtccactggtccttcacgcc	6	10	10	15	2	1	0	1	0	0	0	4	1	4	1	4	3	2	3	4	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:136974736C>T	uc010jek.2	-	10	1569	c.1125G>A	c.(1123-1125)ACG>ACA	p.T375T	KLHL3_uc011cyc.1_Silent_p.T144T|KLHL3_uc003lbr.3_Silent_p.T293T|KLHL3_uc011cyd.1_Intron|KLHL3_uc010jel.1_Silent_p.T144T|KLHL3_uc010jem.1_Silent_p.T335T	NM_017415	NP_059111	Q9UH77	KLHL3_HUMAN	kelch-like 3	375	Kelch 2.					cytoplasm|cytoskeleton	actin binding|structural molecule activity				0		all_hematologic(541;3.67e-07)|Breast(839;7.61e-05)|Prostate(281;0.000825)|Ovarian(839;0.0481)|all_lung(232;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	GBM - Glioblastoma multiforme(465;0.0223)		TGGCAATGGACGTCCACTGGT	0.597													9	29					0	0	1	0	0		T	136974736	T	T	136974736	2	4	55	1	0	0	0	0	0	0	0	1	8399	523	19	1		1	KLHL3	5	136974736	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2897733	136974736	43940524	493	39527											
PSD2	84249	broad.mit.edu	37	chr5	139192922	139192922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcccggggagccagatgtgCgggatggcttcagcgccacg	6	6	17	12	4	1	1	1	0	0	1	2	3	2	3	3	4	3	1	3	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:139192922C>T	uc003leu.1	+	3	605	c.400C>T	c.(400-402)CGG>TGG	p.R134W		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	134					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCAGATGTGCGGGATGGCTT	0.607													5	157					0	0	1	0	0		T	139192922	T	T	139192922	3	4	55	1	0	0	0	0	1	0	0	0	12669	759	27	1	406	1	PSD2	5	139192922	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2218186	139192922	41722338	494	39528											
NRG2	9542	broad.mit.edu	37	chr5	139251400	139251400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gttgcacttccgggcgtgccCcgaccaggatgacagggtgg	6	7	16	12	3	0	1	0	1	0	0	1	3	1	2	4	4	2	2	4	4	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:139251400C>T	uc003lex.1	-	4	1243	c.1018G>A	c.(1018-1020)GGG>AGG	p.G340R	NRG2_uc003lev.1_Missense_Mutation_p.G340R|NRG2_uc003lew.1_Missense_Mutation_p.G340R|NRG2_uc003ley.1_Missense_Mutation_p.G340R	NM_004883	NP_004874	O14511	NRG2_HUMAN	neuregulin 2 isoform 1	340	Ser/Thr-rich.|Extracellular (Potential).				embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGGCGTGCCCCGACCAGGAT	0.562													23	32					0	0	1	0	0		T	139251400	T	T	139251400	3	4	55	1	0	0	0	0	1	0	0	0	10667	623	22	4	1653	4	NRG2	5	139251400	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	58478	139251400	41663860	495	39529											
SRA1	10011	broad.mit.edu	37	chr5	139936816	139936816	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctgggtctgcagcccgtAtgagaactgcggcgggtcgt	5	8	17	11	4	1	1	0	1	1	1	2	2	1	1	2	4	4	2	2	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:139936816A>T	uc003lga.2	-	2	709	c.103T>A	c.(103-105)TAC>AAC	p.Y35N	SRA1_uc003lfz.2_5'UTR|SRA1_uc010jfm.2_5'UTR	NM_001035235	NP_001030312	Q9HD15	SRA1_HUMAN	steroid receptor RNA activator 1	35					apoptosis|cell differentiation|cell proliferation|transcription, DNA-dependent	cytoplasm|ribonucleoprotein complex	receptor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCAGCCCGTATGAGAACTGC	0.667													4	58					0	0	1	0	0		T	139936816	T	T	139936816	3	4	55	1	0	0	0	0	1	0	0	0	15157	449	16	5	623	5	SRA1	5	139936816	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	685416	139936816	40978444	496	39530											
PCDHA1	56147	broad.mit.edu	37	chr5	140167916	140167916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgccaaaggcgtcttcgCgggcgtcggtgggtgtcgcg	4	7	19	11	8	1	0	0	0	1	0	4	0	1	0	1	5	0	0	1	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140167916C>T	uc003lhb.2	+	1	2041	c.2041C>T	c.(2041-2043)CGG>TGG	p.R681W	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.R681W	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	681	Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGTCTTCGCGGGCGTCGGT	0.657													13	43					0	0	1	0	0		T	140167916	T	T	140167916	3	4	55	1	0	0	0	0	1	0	0	0	11538	759	27	1	2043	1	PCDHA1	5	140167916	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	231100	140167916	40747344	497	39531											
PCDHA3	56145	broad.mit.edu	37	chr5	140181497	140181497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagatgtaaacgacaacGccccagcgtttgagaggacg	12	9	11	9	4	0	2	0	1	0	2	0	5	0	3	2	1	3	2	2	1	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140181497G>A	uc003lhf.2	+	1	715	c.715G>A	c.(715-717)GCC>ACC	p.A239T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.A239T	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	239	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAACGACAACGCCCCAGCGTT	0.438													5	25					0	0	1	0	0		A	140181497	A	A	140181497	3	1	55	1	0	0	0	0	1	0	0	0	11544	1087	38	1	717	1	PCDHA3	5	140181497	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	13581	140181497	40733763	498	39532											
PCDHA4	56144	broad.mit.edu	37	chr5	140188299	140188299	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgtcgagctacgtttcGgtgcatgcggagagcggcaa	7	8	16	10	6	0	1	0	0	0	1	2	3	0	1	0	3	5	5	0	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140188299G>A	uc003lhi.2	+	1	1628	c.1527G>A	c.(1525-1527)TCG>TCA	p.S509S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.S509S|PCDHA4_uc011daa.1_Silent_p.S509S	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	509	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTACGTTTCGGTGCATGCGG	0.677													30	84					0	0	1	0	0		A	140188299	A	A	140188299	2	1	55	1	0	0	0	0	0	0	0	1	11545	1103	39	1		1	PCDHA4	5	140188299	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6802	140188299	40726961	499	39533											
PCDHA7	56141	broad.mit.edu	37	chr5	140215847	140215847	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccgttccgcgtggggctgTacactggtgagatcagcacg	6	9	14	12	4	1	1	1	1	0	1	3	2	3	1	2	3	2	4	2	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140215847T>C	uc003lhq.2	+	1	1879	c.1879T>C	c.(1879-1881)TAC>CAC	p.Y627H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.Y627H	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	627	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGGGGCTGTACACTGGTGA	0.637													4	89					0	0	1	0	0		C	140215847	C	C	140215847	3	2	55	1	0	0	0	0	1	0	0	0	11548	1638	57	3	1881	3	PCDHA7	5	140215847	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	27548	140215847	40699413	500	39534											
PCDHA7	56141	broad.mit.edu	37	chr5	140216075	140216075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacgtgtacctgatcatcGccatctgcgcggtgtccagt	7	11	10	13	4	3	1	2	1	1	0	5	1	4	1	3	1	3	1	3	1	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140216075G>A	uc003lhq.2	+	1	2107	c.2107G>A	c.(2107-2109)GCC>ACC	p.A703T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.A703T	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	703	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGATCATCGCCATCTGCGC	0.612													35	95					0	0	1	0	0		A	140216075	A	A	140216075	3	1	55	1	0	0	0	0	1	0	0	0	11548	1087	38	1	2109	1	PCDHA7	5	140216075	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	228	140216075	40699185	501	39535											
PCDHA11	56138	broad.mit.edu	37	chr5	140248773	140248773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aattctgggaggtggggagcGgccagctccactactccgtc	7	8	14	12	2	1	0	0	0	1	0	4	2	3	2	3	5	3	1	3	5	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140248773G>A	uc003lia.2	+	1	943	c.85G>A	c.(85-87)GGC>AGC	p.G29S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.G29S	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	29					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGGGGAGCGGCCAGCTCCA	0.627													10	55					0	0	1	0	0		A	140248773	A	A	140248773	3	1	55	1	0	0	0	0	1	0	0	0	11540	1116	39	1	87	1	PCDHA11	5	140248773	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	32698	140248773	40666487	502	39536											
PCDHA13	56136	broad.mit.edu	37	chr5	140262038	140262038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcggagctggtgccgcGcctgttccgggtggcgtcca	2	8	18	13	5	0	0	0	0	0	0	2	1	2	1	4	5	2	3	4	5	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140262038G>A	uc003lif.2	+	1	185	c.185G>A	c.(184-186)CGC>CAC	p.R62H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.R62H|PCDHA13_uc003lid.2_Missense_Mutation_p.R62H	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	62	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGTGCCGCGCCTGTTCCGG	0.617													38	49					0	0	1	0	0		A	140262038	A	A	140262038	3	1	55	1	0	0	0	0	1	0	0	0	11542	1087	38	1	187	1	PCDHA13	5	140262038	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	13265	140262038	40653222	503	39537											
PCDHAC2	56134	broad.mit.edu	37	chr5	140346751	140346751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accccgtggcggtgagcgccGttgaggtggaaatattggac	8	8	16	9	4	0	2	0	2	0	0	0	4	0	4	3	5	1	1	3	5	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140346751G>A	uc003lii.2	+	1	640	c.400G>A	c.(400-402)GTT>ATT	p.V134I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Missense_Mutation_p.V134I	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	134	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGAGCGCCGTTGAGGTGGA	0.627													17	13					0	0	1	0	0		A	140346751	A	A	140346751	3	1	55	1	0	0	0	0	1	0	0	0	11552	1145	40	1	402	1	PCDHAC2	5	140346751	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	84713	140346751	40568509	504	39538											
PCDHB1	29930	broad.mit.edu	37	chr5	140431715	140431715	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtggacggcgggtccccGcctaagtctggcacagctca	6	6	15	14	4	2	0	1	0	1	0	3	1	3	1	3	5	1	2	3	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140431715G>A	uc003lik.1	+	1	737	c.660G>A	c.(658-660)CCG>CCA	p.P220P		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	220	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCGGGTCCCCGCCTAAGTCTG	0.582													5	9					0	0	1	0	0		A	140431715	A	A	140431715	2	1	55	1	0	0	0	0	0	0	0	1	11553	1074	38	1		1	PCDHB1	5	140431715	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	84964	140431715	40483545	505	39539											
PCDHB2	56133	broad.mit.edu	37	chr5	140476009	140476009	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctccccggcgttgagcagCgaggcgctggtgcgcgtgct	3	7	18	13	6	0	1	0	1	0	0	1	2	1	1	2	4	4	5	2	4	0	1	rs147433427		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140476009C>T	uc003lil.2	+	1	1773	c.1635C>T	c.(1633-1635)AGC>AGT	p.S545S	PCDHB2_uc003lim.1_Silent_p.S206S	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	545	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGTTGAGCAGCGAGGCGCTGG	0.706													8	40					0	0	1	0	0		T	140476009	T	T	140476009	2	4	55	1	0	0	0	0	0	0	0	1	11561	767	27	1		1	PCDHB2	5	140476009	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	44294	140476009	40439251	506	39540											
PCDHB3	56132	broad.mit.edu	37	chr5	140482006	140482006	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgaccaaggtggtggcGgtggacggcgactcgggcca	6	6	19	10	4	0	1	0	1	0	0	1	3	0	2	2	8	0	0	2	8	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140482006G>A	uc003lio.2	+	1	1773	c.1773G>A	c.(1771-1773)GCG>GCA	p.A591A	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	591	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGTGGTGGCGGTGGACGGCG	0.711													13	80					0	0	1	0	0		A	140482006	A	A	140482006	2	1	55	1	0	0	0	0	0	0	0	1	11562	1103	39	1		1	PCDHB3	5	140482006	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5997	140482006	40433254	507	39541											
PCDHB5	26167	broad.mit.edu	37	chr5	140516916	140516916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgctgagcgagcgcgacGcggccaagcacaggctggtg	7	4	18	12	5	0	1	0	1	0	0	0	3	0	1	1	4	4	4	1	4	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140516916G>A	uc003liq.2	+	1	2117	c.1900G>A	c.(1900-1902)GCG>ACG	p.A634T		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	634	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGAGCGCGACGCGGCCAAGCA	0.692													20	45					0	0	1	0	0		A	140516916	A	A	140516916	3	1	55	1	0	0	0	0	1	0	0	0	11564	1087	38	1	1902	1	PCDHB5	5	140516916	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	34910	140516916	40398344	508	39542											
PCDHB9	56127	broad.mit.edu	37	chr5	140567449	140567449	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattaaaattagtggcagtgAtgaaggcatgatatatccag	15	12	10	4	0	0	3	0	3	0	0	1	3	1	3	1	2	0	2	1	2	7	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140567449A>G	uc003liw.1	+	1	557	c.557A>G	c.(556-558)GAT>GGT	p.D186G		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	186	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGTGGCAGTGATGAAGGCATG	0.458													37	138					0	0	1	0	0		G	140567449	G	G	140567449	3	3	55	1	0	0	0	0	1	0	0	0	11568	333	12	3	559	3	PCDHB9	5	140567449	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	50533	140567449	40347811	509	39543											
PCDHB9	56127	broad.mit.edu	37	chr5	140568526	140568526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggctttgagcagcgaggcGctggtgcgcgtactggtgct	4	9	17	11	5	0	1	0	1	0	0	0	2	0	1	1	4	5	5	1	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140568526G>A	uc003liw.1	+	3	1635	c.1635G>A	c.(1633-1635)GCG>GCA	p.A545A		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	545	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCAGCGAGGCGCTGGTGCGCG	0.692													21	35					0	0	1	0	0		A	140568526	A	A	140568526	2	1	55	1	0	0	0	0	0	0	0	1	11568	1087	38	1		1	PCDHB9	5	140568526	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1077	140568526	40346734	510	39544											
PCDHB9	56127	broad.mit.edu	37	chr5	140569216	140569216	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgattaccccccacctcccGccccataggggtgggaaaga	9	5	10	17	2	0	1	0	0	0	1	1	3	1	2	8	3	1	0	8	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140569216G>A	uc003liw.1	+	3	2325	c.2325G>A	c.(2323-2325)CCG>CCA	p.P775P	PCDHB10_uc003lix.2_5'Flank	NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	775	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCCACCTCCCGCCCCATAGGG	0.483													30	88					0	0	1	0	0		A	140569216	A	A	140569216	2	1	55	1	0	0	0	0	0	0	0	1	11568	1087	38	1		1	PCDHB9	5	140569216	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	690	140569216	40346044	511	39545											
PCDHB12	56124	broad.mit.edu	37	chr5	140588663	140588663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgagtgagctgtcttcgCggggggctcgggtggtttct	3	12	19	7	3	2	2	0	2	2	0	4	2	2	2	0	6	1	3	0	6	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140588663C>T	uc003liz.2	+	1	373	c.184C>T	c.(184-186)CGG>TGG	p.R62W	PCDHB12_uc011dak.1_Intron	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	62	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTGTCTTCGCGGGGGGCTCG	0.507													34	61					0	0	1	0	0		T	140588663	T	T	140588663	3	4	55	1	0	0	0	0	1	0	0	0	11556	759	27	1	186	1	PCDHB12	5	140588663	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	19447	140588663	40326597	512	39546											
PCDHB12	56124	broad.mit.edu	37	chr5	140589450	140589450	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatcattcaagccacagatgGgggaggactttttggaaaat	14	10	11	6	0	2	1	2	0	0	1	2	4	2	4	1	4	1	0	1	4	4	3	rs139586852		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140589450G>T	uc003liz.2	+	1	1160	c.971G>T	c.(970-972)GGG>GTG	p.G324V	PCDHB12_uc011dak.1_5'UTR	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	324	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding	p.G324E(1)		skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCACAGATGGGGGAGGACTT	0.383													11	52					9.31168e-06	9.75138e-06	1	1	0		T	140589450	T	T	140589450	3	4	55	1	0	0	0	0	1	0	0	0	11556	1232	43	5	973	5	PCDHB12	5	140589450	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	787	140589450	40325810	513	39547											
PCDHB13	56123	broad.mit.edu	37	chr5	140594607	140594607	+	Frame_Shift_Del	DEL	A	-	-																															ttgacaggagaaattgaactAaaaaaacaactcgatttcga																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140594607delA	uc003lja.1	+	1	1099	c.912delA	c.(910-912)CTAfs	p.L304fs		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	304	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAATTGAACTAAAAAAACAAC	0.388													24	50	---	---	---	---						.	-	140594607	-	-	140594607	7	5	55	1	0	1	0	1	0	0	0	0	11557	349	13	0	914	0	PCDHB13	5	140594607	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	5157	140594607	40320653	514	39548											
PCDHGA6	56109	broad.mit.edu	37	chr5	140754671	140754671	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taataactatcttggatgtcAatgataatgtaccagaagtg	15	13	8	5	0	2	2	1	1	1	1	2	3	2	3	1	1	2	1	1	1	7	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140754671A>G	uc003ljy.1	+	1	1021	c.1021A>G	c.(1021-1023)AAT>GAT	p.N341D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.N341D	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	341	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTGGATGTCAATGATAATGT	0.453													49	117					0	0	1	0	0		G	140754671	G	G	140754671	3	3	55	1	0	0	0	0	1	0	0	0	11577	130	5	3	1023	3	PCDHGA6	5	140754671	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	160064	140754671	40160589	515	39549											
PCDHGA9	56107	broad.mit.edu	37	chr5	140783640	140783640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttttcaatgctcatgaccGagactccgggaagaatggtc	10	11	10	10	2	3	3	2	1	1	2	5	5	4	4	2	2	1	1	2	2	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140783640G>A	uc003lkh.1	+	1	1121	c.1121G>A	c.(1120-1122)CGA>CAA	p.R374Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.R374Q	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	374	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTCATGACCGAGACTCCGGG	0.408													6	11					0	0	1	0	0		A	140783640	A	A	140783640	3	1	55	1	0	0	0	0	1	0	0	0	11580	1058	37	1	1123	1	PCDHGA9	5	140783640	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	28969	140783640	40131620	516	39550											
PCDHGB7	56099	broad.mit.edu	37	chr5	140799286	140799286	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccgggctcttcagcctgggGctgcgaacaggcgaggtgcg	5	6	17	13	4	2	0	1	0	1	0	2	2	2	0	2	5	4	2	2	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:140799286G>A	uc003lkn.1	+	1	2005	c.1860G>A	c.(1858-1860)GGG>GGA	p.G620G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Silent_p.G620G|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	620	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAGCCTGGGGCTGCGAACAG	0.662													17	70					0	0	1	0	0		A	140799286	A	A	140799286	2	1	55	1	0	0	0	0	0	0	0	1	11587	1190	42	2		2	PCDHGB7	5	140799286	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	15646	140799286	40115974	517	39551											
ARAP3	64411	broad.mit.edu	37	chr5	141050145	141050145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactgcagtacaggaagcCgctgtaagtagcacgcacca	12	5	13	11	2	0	0	0	0	0	0	0	2	0	2	2	2	4	7	2	2	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:141050145C>T	uc003llm.2	-	14	2119	c.2041G>A	c.(2041-2043)GGC>AGC	p.G681S	ARAP3_uc011dbe.1_Missense_Mutation_p.G343S|ARAP3_uc003lln.2_Missense_Mutation_p.G583S	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	681					cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						TACAGGAAGCCGCTGTAAGTA	0.607													14	47					0	0	1	0	0		T	141050145	T	T	141050145	3	4	55	1	0	0	0	0	1	0	0	0	840	652	23	1	2673	1	ARAP3	5	141050145	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	250859	141050145	39865115	518	39552											
FBXO38	81545	broad.mit.edu	37	chr5	147774406	147774406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaattccagaagaaatgacaGcagatgaaacaaaggactat	21	6	8	6	0	0	5	0	2	0	3	1	6	1	6	1	1	2	1	1	1	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:147774406G>A	uc003lpf.1	+	2	187	c.67G>A	c.(67-69)GCA>ACA	p.A23T	FBXO38_uc003lpg.1_Missense_Mutation_p.A23T|FBXO38_uc003lph.2_Missense_Mutation_p.A23T	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	23						cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAAATGACAGCAGATGAAAC	0.373													22	63					0	0	1	0	0		A	147774406	A	A	147774406	3	1	55	1	0	0	0	0	1	0	0	0	5760	971	34	2	69	2	FBXO38	5	147774406	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6724261	147774406	33140854	519	39553											
AFAP1L1	134265	broad.mit.edu	37	chr5	148685930	148685930	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaggacgcagacagcagctaCcctgcaaccagggtgaacgg	12	3	14	12	2	0	2	0	1	0	1	0	4	0	3	2	3	6	4	2	3	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:148685930C>T	uc003lqh.2	+	6	629	c.498C>T	c.(496-498)TAC>TAT	p.Y166Y	AFAP1L1_uc003lqg.3_Silent_p.Y166Y|AFAP1L1_uc010jgy.2_Silent_p.Y166Y	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	166							protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAGCAGCTACCCTGCAACCA	0.567													6	28					0	0	1	0	0		T	148685930	T	T	148685930	2	4	55	1	0	0	0	0	0	0	0	1	354	518	18	4		4	AFAP1L1	5	148685930	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	911524	148685930	32229330	520	39554											
PDGFRB	5159	broad.mit.edu	37	chr5	149497347	149497347	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatggaacccaggcaagcGggcctgggaccgaaggatgg	10	3	17	11	2	0	0	0	0	0	0	0	4	0	3	4	6	2	1	4	6	3	0	rs140261309	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:149497347G>A	uc003lro.2	-	22	3440	c.2971C>T	c.(2971-2973)CGC>TGC	p.R991C	PDGFRB_uc010jhd.2_Missense_Mutation_p.R830C	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	991	Cytoplasmic (Potential).				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CCAGGCAAGCGGGCCTGGGAC	0.562			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								13	14					0	0	1	0	0		A	149497347	A	A	149497347	3	1	55	1	0	0	0	0	1	0	0	0	11681	1116	39	1	357	1	PDGFRB	5	149497347	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	811417	149497347	31417913	521	39555											
SYNPO	11346	broad.mit.edu	37	chr5	150029294	150029294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagctgagctctacgcccGccgccagtcacggatggaga	8	5	15	13	4	2	2	1	1	1	1	2	5	2	4	3	3	3	2	3	3	1	1	rs138664774		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:150029294G>A	uc003lsn.2	+	3	2563	c.2189G>A	c.(2188-2190)CGC>CAC	p.R730H	SYNPO_uc003lso.3_Missense_Mutation_p.R486H|SYNPO_uc003lsp.2_Missense_Mutation_p.R486H	NM_001109974	NP_001103444	Q8N3V7	SYNPO_HUMAN	synaptopodin isoform B	730					positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTCTACGCCCGCCGCCAGTCA	0.627													21	50					0	0	1	0	0		A	150029294	A	A	150029294	3	1	55	1	0	0	0	0	1	0	0	0	15481	1087	38	1	2195	1	SYNPO	5	150029294	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	531947	150029294	30885966	522	39556											
NMUR2	56923	broad.mit.edu	37	chr5	151784174	151784174	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagaagccccagacgatgccGaggatcctgagggcccggcg	9	3	16	13	4	0	3	0	1	0	2	1	7	1	4	5	3	2	0	5	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:151784174G>A	uc003luv.2	-	1	667	c.501C>T	c.(499-501)CTC>CTT	p.L167L		NM_020167	NP_064552	Q9GZQ4	NMUR2_HUMAN	neuromedin U receptor 2	167	Helical; Name=4; (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|arachidonic acid secretion|calcium ion transport|central nervous system development|elevation of cytosolic calcium ion concentration|regulation of smooth muscle contraction	integral to membrane|plasma membrane	GTP binding|intracellular calcium activated chloride channel activity|neuromedin U receptor activity			ovary(3)|skin(2)|lung(1)|breast(1)|pancreas(1)	8		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)	Kidney(363;0.000106)|KIRC - Kidney renal clear cell carcinoma(527;0.000672)			AGACGATGCCGAGGATCCTGA	0.632													11	32					0	0	1	0	0		A	151784174	A	A	151784174	2	1	55	1	0	0	0	0	0	0	0	1	10526	1045	37	1		1	NMUR2	5	151784174	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1754880	151784174	29131086	523	39557											
LARP1	23367	broad.mit.edu	37	chr5	154092575	154092575	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatacctagctgccctggCagactcccagggaggaaaaa	12	5	10	14	0	0	1	0	0	0	1	1	3	1	3	4	3	3	2	4	3	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:154092575C>T	uc003lvo.2	+	1	114	c.90C>T	c.(88-90)GGC>GGT	p.G30G		NM_015315	NP_056130	Q6PKG0	LARP1_HUMAN	la related protein isoform 1	286							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			GCTGCCCTGGCAGACTCCCAG	0.597													15	27					0	0	1	0	0		T	154092575	T	T	154092575	2	4	55	1	0	0	0	0	0	0	0	1	8644	697	25	2		2	LARP1	5	154092575	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2308401	154092575	26822685	524	39558											
HMMR	3161	broad.mit.edu	37	chr5	162910330	162910330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaaattaacaagtggcGtctcctctatgaagaactat	15	11	8	7	1	2	4	0	2	2	2	3	4	2	4	1	1	2	0	1	1	8	3	rs144652802		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:162910330G>A	uc003lzf.2	+	15	1921	c.1739G>A	c.(1738-1740)CGT>CAT	p.R580H	HMMR_uc003lzh.2_Missense_Mutation_p.R581H|HMMR_uc003lzg.2_Missense_Mutation_p.R565H|HMMR_uc011dem.1_Missense_Mutation_p.R494H|uc003lzi.2_Intron	NM_012484	NP_036616	O75330	HMMR_HUMAN	hyaluronan-mediated motility receptor isoform b	580						cell surface|cytoplasm	hyaluronic acid binding				0	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0296)|OV - Ovarian serous cystadenocarcinoma(192;0.0423)|Epithelial(171;0.0848)		AACAAGTGGCGTCTCCTCTAT	0.303													16	27					0	0	1	0	0		A	162910330	A	A	162910330	3	1	55	1	0	0	0	0	1	0	0	0	7258	1145	40	1	1800	1	HMMR	5	162910330	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	8817755	162910330	18004930	525	39559											
FBXW11	23291	broad.mit.edu	37	chr5	171299913	171299913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatccactaacaaccaggcGatccctgtactggagacagg	12	7	10	12	1	0	2	0	1	0	1	2	4	2	2	3	3	3	1	3	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:171299913G>A	uc003mbm.1	-	9	1611	c.1240C>T	c.(1240-1242)CGC>TGC	p.R414C	FBXW11_uc011dey.1_Missense_Mutation_p.R382C|FBXW11_uc003mbl.1_Missense_Mutation_p.R401C|FBXW11_uc003mbn.1_Missense_Mutation_p.R380C	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	414	WD 5.				cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			ACAACCAGGCGATCCCTGTAC	0.478													5	60					0	0	1	0	0		A	171299913	A	A	171299913	3	1	55	1	0	0	0	0	1	0	0	0	5778	1058	37	1	404	1	FBXW11	5	171299913	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	8389583	171299913	9615347	526	39560											
NKX2-5	1482	broad.mit.edu	37	chr5	172661804	172661804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggggtcgctgtaggcacGtggatagaaggcgggggcgg	6	6	22	7	5	0	1	0	0	0	1	2	2	0	2	0	8	0	3	0	8	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:172661804G>A	uc003mcm.1	-	1	459	c.283C>T	c.(283-285)CGT>TGT	p.R95C	NKX2-5_uc011dfe.1_Missense_Mutation_p.R95C|NKX2-5_uc010jjt.1_Missense_Mutation_p.R95C	NM_004387	NP_004378	P52952	NKX25_HUMAN	NK2 transcription factor related, locus 5	95	Ala/Pro-rich.				adult heart development|atrial cardiac muscle cell development|atrial septum morphogenesis|heart looping|hemopoiesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell apoptosis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|outflow tract septum morphogenesis|pharyngeal system development|positive regulation of calcium ion transport via voltage-gated calcium channel activity|positive regulation of cardioblast differentiation|positive regulation of cell proliferation|positive regulation of heart contraction|positive regulation of neuron differentiation|positive regulation of sodium ion transport|positive regulation of survival gene product expression|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of cardiac muscle contraction|right ventricular cardiac muscle tissue morphogenesis|septum secundum development|spleen development|thyroid gland development|vasculogenesis|ventricular septum morphogenesis		chromatin binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CTGTAGGCACGTGGATAGAAG	0.682													9	23					0	0	1	0	0		A	172661804	A	A	172661804	3	1	55	1	0	0	0	0	1	0	0	0	10472	1145	40	1	834	1	NKX2-5	5	172661804	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1361891	172661804	8253456	527	39561											
CLTB	1212	broad.mit.edu	37	chr5	175819790	175819790	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacctagcgggacagtggCgtctgcttcagggacatgag	8	7	16	10	2	2	1	1	1	1	0	2	3	2	3	1	4	2	2	1	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:175819790C>T	uc003meh.2	-	7	850	c.675G>A	c.(673-675)ACG>ACA	p.T225T	CLTB_uc003mei.2_Silent_p.T207T|CLTB_uc011dfn.1_RNA	NM_007097	NP_009028	P09497	CLCB_HUMAN	clathrin, light polypeptide isoform b	225					intracellular protein transport|vesicle-mediated transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle	protein binding|structural molecule activity				0	all_cancers(89;0.00522)|Renal(175;0.000269)|Lung NSC(126;0.0105)|all_lung(126;0.0168)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.098)		GGGACAGTGGCGTCTGCTTCA	0.627													26	59					0	0	1	0	0		T	175819790	T	T	175819790	2	4	55	1	0	0	0	0	0	0	0	1	3568	755	27	1		1	CLTB	5	175819790	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3157986	175819790	5095470	528	39562											
GPRIN1	114787	broad.mit.edu	37	chr5	176023872	176023872	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacactctgcagcagcgcGcggaacaggccgggcggacg	8	2	16	15	7	1	0	0	0	1	0	1	2	1	2	1	4	4	3	1	4	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:176023872G>A	uc003meo.1	-	2	3139	c.2964C>T	c.(2962-2964)CGC>CGT	p.R988R		NM_052899	NP_443131	Q7Z2K8	GRIN1_HUMAN	G protein-regulated inducer of neurite outgrowth	988	Interaction with GNAO1 (By similarity).					growth cone|plasma membrane				ovary(2)	2	all_cancers(89;0.00263)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCAGCAGCGCGCGGAACAGGC	0.597													5	7					0	0	1	0	0		A	176023872	A	A	176023872	2	1	55	1	0	0	0	0	0	0	0	1	6745	1074	38	1		1	GPRIN1	5	176023872	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	204082	176023872	4891388	529	39563											
SNCB	6620	broad.mit.edu	37	chr5	176056536	176056536	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaccccgccccttacccaccGacgtagaggacgccctcctt	8	6	7	20	4	0	1	0	0	0	1	1	3	1	2	8	1	2	1	8	1	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:176056536G>A	uc003mep.2	-	3	563	c.120C>T	c.(118-120)GTC>GTT	p.V40V	SNCB_uc003meq.2_Silent_p.V40V|SNCB_uc010jke.1_Silent_p.V40V|hsa-mir-4281|MI0015885_5'Flank|EIF4E1B_uc010jkf.1_5'Flank	NM_001001502	NP_001001502	Q16143	SYUB_HUMAN	beta-synuclein	40	4 X 11 AA tandem repeats of [EGS]-K-T-K- [EQ]-[GQ]-V-X(4).|2.						calcium ion binding|phospholipase inhibitor activity			ovary(1)	1	all_cancers(89;0.00222)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTTACCCACCGACGTAGAGGA	0.701													10	28					0	0	1	0	0		A	176056536	A	A	176056536	2	1	55	1	0	0	0	0	0	0	0	1	14867	1072	37	1		1	SNCB	5	176056536	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	32664	176056536	4858724	530	39564											
EIF4E1B	253314	broad.mit.edu	37	chr5	176070213	176070213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgtctctgagagggaaggCccggacggggggccccatgg	6	5	19	11	2	1	1	0	1	1	1	2	4	1	3	3	7	0	1	3	7	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:176070213C>T	uc010jkf.1	+	4	730	c.146C>T	c.(145-147)GCC>GTC	p.A49V		NM_001099408	NP_001092878	A6NMX2	I4E1B_HUMAN	eukaryotic translation initiation factor 4E	49					regulation of translation	cytoplasm|mRNA cap binding complex	translation initiation factor activity				0	all_cancers(89;0.00185)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGAGGGAAGGCCCGGACGGGG	0.358													6	46					0	0	1	0	0		T	176070213	T	T	176070213	3	4	55	1	0	0	0	0	1	0	0	0	5037	739	26	2	152	2	EIF4E1B	5	176070213	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	13677	176070213	4845047	531	39565											
UIMC1	51720	broad.mit.edu	37	chr5	176332464	176332464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctgcatctctctgctgcagCctgcctcttccatccctggt	3	14	7	17	0	4	0	0	0	4	0	7	0	6	0	4	1	5	3	4	1	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:176332464C>T	uc011dfp.1	-	15	2146	c.1979G>A	c.(1978-1980)GGC>GAC	p.G660D	UIMC1_uc003mfc.1_Missense_Mutation_p.G537D|UIMC1_uc003mfd.1_Missense_Mutation_p.G290D	NM_016290	NP_057374	Q96RL1	UIMC1_HUMAN	ubiquitin interaction motif containing 1	660					double-strand break repair|G2/M transition DNA damage checkpoint|histone H2A K63-linked deubiquitination|negative regulation of transcription, DNA-dependent|positive regulation of DNA repair|response to ionizing radiation|transcription, DNA-dependent	BRCA1-A complex	histone binding|K63-linked polyubiquitin binding			ovary(3)|skin(1)	4	all_cancers(89;7.96e-05)|Renal(175;0.000269)|Lung NSC(126;0.00476)|all_lung(126;0.00806)	Medulloblastoma(196;0.0145)|all_neural(177;0.0325)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCTGCTGCAGCCTGCCTCTTC	0.358													16	41					0	0	1	0	0		T	176332464	T	T	176332464	3	4	55	1	0	0	0	0	1	0	0	0	16997	739	26	2	184	2	UIMC1	5	176332464	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	262251	176332464	4582796	532	39566											
NSD1	64324	broad.mit.edu	37	chr5	176694686	176694686	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcaaaaagccacactacaGggagattgtctgggtaaaag	16	6	12	7	0	1	1	0	0	1	1	1	2	1	1	1	3	2	2	1	3	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:176694686G>T	uc003mfr.3	+	15	5408	c.5270G>T	c.(5269-5271)AGG>ATG	p.R1757M	NSD1_uc003mft.3_Missense_Mutation_p.R1488M|NSD1_uc003mfs.1_Missense_Mutation_p.R1654M|NSD1_uc011dfx.1_Missense_Mutation_p.R1405M	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1757	PWWP 2.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		CCACACTACAGGGAGATTGTC	0.433			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			20	50					6.44725e-10	6.94685e-10	1	1	0		T	176694686	T	T	176694686	3	4	55	1	0	0	0	0	1	0	0	0	10688	1000	35	5	5324	5	NSD1	5	176694686	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	362222	176694686	4220574	533	39567											
RUFY1	80230	broad.mit.edu	37	chr5	179012795	179012795	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatattcttattttctacAgctgcacagttggggatctt	9	18	7	7	0	3	0	0	0	3	0	3	1	3	1	0	2	3	3	0	2	4	9			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:179012795A>G	uc003mka.1	+	8	957	c.957_splice	c.e8-2	p.S319_splice	RUFY1_uc003mkb.1_Splice_Site_p.S211_splice|RUFY1_uc003mkc.1_Splice_Site_p.S211_splice	NM_025158	NP_079434	Q96T51	RUFY1_HUMAN	RUN and FYVE domain-containing 1 isoform a						endocytosis|protein transport	early endosome membrane	lipid binding|zinc ion binding			ovary(4)|breast(1)	5	all_cancers(89;0.00018)|all_epithelial(37;8.37e-05)|Renal(175;0.000159)|Lung NSC(126;0.00108)|all_lung(126;0.00195)	all_cancers(40;0.0322)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TATTTTCTACAGCTGCACAGT	0.323										HNSCC(44;0.11)			4	64					0	0	1	0	0		G	179012795	G	G	179012795	5	3	55	1	0	0	0	0	0	0	1	0	13763	202	7	3	985	3	RUFY1	5	179012795	Splice_Site	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2318109	179012795	1902465	534	39568											
SQSTM1	8878	broad.mit.edu	37	chr5	179250039	179250039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgaaggatgacatcttccGaatctacattaaaggtaagg	14	10	10	7	2	2	2	0	2	2	0	3	4	3	3	1	3	1	1	1	3	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:179250039G>A	uc003mkw.3	+	2	382	c.287G>A	c.(286-288)CGA>CAA	p.R96Q	SQSTM1_uc011dgr.1_Missense_Mutation_p.R12Q|SQSTM1_uc011dgs.1_Missense_Mutation_p.R12Q|SQSTM1_uc003mkv.3_Missense_Mutation_p.R96Q|SQSTM1_uc003mkx.2_Missense_Mutation_p.R12Q	NM_003900	NP_003891	Q13501	SQSTM_HUMAN	sequestosome 1 isoform 1	96	OPR.|Interaction with PRKCZ and dimerization (By similarity).				anti-apoptosis|apoptosis|cell differentiation|endosome transport|induction of apoptosis by extracellular signals|intracellular signal transduction|macroautophagy|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein localization|regulation of I-kappaB kinase/NF-kappaB cascade|ubiquitin-dependent protein catabolic process	cytosol|late endosome|nucleoplasm	protein kinase C binding|receptor tyrosine kinase binding|SH2 domain binding|ubiquitin binding|zinc ion binding		SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(89;0.000205)|all_epithelial(37;7.15e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0395)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GACATCTTCCGAATCTACATT	0.488									Paget_Disease_of_Bone				9	22					0	0	1	0	0		A	179250039	A	A	179250039	3	1	55	1	0	0	0	0	1	0	0	0	15155	1058	37	1	293	1	SQSTM1	5	179250039	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	237244	179250039	1665221	535	39569											
FLT4	2324	broad.mit.edu	37	chr5	180056351	180056351	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgtgctggctgacgttgTggatggtcaggatgctggag	5	11	19	6	2	1	1	1	1	0	0	2	4	1	4	0	6	2	4	0	6	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:180056351T>C	uc003mma.3	-	7	972	c.893A>G	c.(892-894)CAC>CGC	p.H298R	FLT4_uc003mlz.3_Missense_Mutation_p.H298R|FLT4_uc003mmb.1_5'UTR|FLT4_uc011dgy.1_Missense_Mutation_p.H298R|FLT4_uc011dgz.1_Intron	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	298	Ig-like C2-type 3.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	GCTGACGTTGTGGATGGTCAG	0.632									Congenital_Hereditary_Lymphedema				22	42					0	0	1	0	0		C	180056351	C	C	180056351	3	2	55	1	0	0	0	0	1	0	0	0	5958	1696	59	3	3302	3	FLT4	5	180056351	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	806312	180056351	858909	536	39570											
BTNL3	10917	broad.mit.edu	37	chr5	180432603	180432603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctcccaacaatgggtatTgggtcctcagactgacaaca	11	10	9	11	0	2	2	1	1	1	1	4	2	3	2	2	2	2	1	2	2	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:180432603T>C	uc003mmr.2	+	8	1260	c.1132T>C	c.(1132-1134)TGG>CGG	p.W378R	BTNL3_uc010jlp.2_Missense_Mutation_p.W163R	NM_197975	NP_932079	Q6UXE8	BTNL3_HUMAN	butyrophilin-like 3 precursor	378	B30.2/SPRY.|Cytoplasmic (Potential).				lipid metabolic process	integral to membrane					0	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.00336)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)|all_lung(500;0.248)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000272)			CAATGGGTATTGGGTCCTCAG	0.507													20	49					0	0	1	0	0		C	180432603	C	C	180432603	3	2	55	1	0	0	0	0	1	0	0	0	1569	1812	63	3	1162	3	BTNL3	5	180432603	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	376252	180432603	482657	537	39571											
TRIM7	81786	broad.mit.edu	37	chr5	180622451	180622451	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcaggccctttcggcgcacGctctcgcgggccacgccaaa	6	6	12	17	6	2	0	1	0	1	0	4	0	2	0	3	3	0	2	3	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr5:180622451G>A	uc003mmz.1	-	7	1318	c.1251C>T	c.(1249-1251)AGC>AGT	p.S417S	TRIM7_uc003mmv.1_Silent_p.S235S|TRIM7_uc003mmw.1_Silent_p.S209S|TRIM7_uc003mmx.1_Silent_p.S209S|TRIM7_uc003mmy.1_Silent_p.S209S	NM_203293	NP_976038	Q9C029	TRIM7_HUMAN	tripartite motif-containing 7 isoform 1	417	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;6.03e-06)|all_epithelial(37;7.1e-07)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000172)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;2e-06)|Epithelial(171;1.35e-05)|OV - Ovarian serous cystadenocarcinoma(192;0.000128)|Kidney(146;0.0674)|GBM - Glioblastoma multiforme(465;0.0802)		TTCGGCGCACGCTCTCGCGGG	0.721													3	4					0	0	1	0	0		A	180622451	A	A	180622451	2	1	55	1	0	0	0	0	0	0	0	1	16569	1078	38	1		1	TRIM7	5	180622451	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	189848	180622451	292809	538	39572											
IRF4	3662	broad.mit.edu	37	chr6	394997	394997	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaggattgttcctgagggAgccaaaaaaggtaggggctc	12	8	14	7	0	0	1	0	1	0	0	2	3	1	3	2	5	2	3	2	5	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:394997A>G	uc003msz.3	+	3	506	c.393A>G	c.(391-393)GGA>GGG	p.G131G	IRF4_uc010jne.1_Silent_p.G131G|IRF4_uc003mta.3_RNA|IRF4_uc003mtb.3_Silent_p.G131G|IRF4_uc003mtc.1_5'Flank	NM_002460	NP_002451	Q15306	IRF4_HUMAN	interferon regulatory factor 4	131					interferon-gamma-mediated signaling pathway|positive regulation of interleukin-10 biosynthetic process|positive regulation of interleukin-13 biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of transcription, DNA-dependent|regulation of T-helper cell differentiation|T cell activation|type I interferon-mediated signaling pathway	cytoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1		Breast(5;0.0155)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.03)|BRCA - Breast invasive adenocarcinoma(62;0.0702)		TTCCTGAGGGAGCCAAAAAAG	0.498			T	IGH@	MM 								4	33					0	0	1	0	0		G	394997	G	G	394997	2	3	55	1	0	0	0	0	0	0	0	1	7848	291	11	3		3	IRF4	6	394997	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08		394997	170720070	539	39573											
EXOC2	55770	broad.mit.edu	37	chr6	532495	532495	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcaggcagtccttccaaTcaaaatatcctgcataaatt	14	10	7	10	0	1	0	1	0	0	0	4	1	4	0	3	2	1	3	3	2	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:532495T>A	uc003mtd.2	-	23	2488	c.2354A>T	c.(2353-2355)GAT>GTT	p.D785V	EXOC2_uc003mte.2_Missense_Mutation_p.D785V|EXOC2_uc011dho.1_Missense_Mutation_p.D380V	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	785					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		GTCCTTCCAATCAAAATATCC	0.353													8	28					0	0	1	0	0		A	532495	A	A	532495	3	1	55	1	0	0	0	0	1	0	0	0	5310	1435	50	5	444	5	EXOC2	6	532495	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	137498	532495	170582572	540	39574											
BPHL	670	broad.mit.edu	37	chr6	3152763	3152763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaacacaacctgcatttgcGttttgcagatgaattcaaca	14	11	6	10	1	1	2	1	1	0	1	1	2	1	2	1	0	6	3	1	0	4	4	rs151267393	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:3152763G>A	uc003mva.2	+	7	879	c.830G>A	c.(829-831)CGT>CAT	p.R277H	BPHL_uc003muz.2_RNA|BPHL_uc011dht.1_RNA|BPHL_uc003muy.2_Missense_Mutation_p.R260H	NM_004332	NP_004323	Q86WA6	BPHL_HUMAN	biphenyl hydrolase-like precursor	277					cellular amino acid metabolic process|response to toxin	mitochondrion	hydrolase activity				0	Ovarian(93;0.0386)	all_hematologic(90;0.108)				CTGCATTTGCGTTTTGCAGAT	0.438													29	68					0	0	1	0	0		A	3152763	A	A	3152763	3	1	55	1	0	0	0	0	1	0	0	0	1492	1145	40	1	856	1	BPHL	6	3152763	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2620268	3152763	167962304	541	39575											
DSP	1832	broad.mit.edu	37	chr6	7584495	7584495	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagctcctgtctgcagaaCgagctgtcactgggtataat	11	10	11	9	1	2	2	1	0	1	2	3	3	3	2	1	1	4	4	1	1	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:7584495C>T	uc003mxp.1	+	24	7279	c.7000C>T	c.(7000-7002)CGA>TGA	p.R2334*	DSP_uc003mxq.1_Nonsense_Mutation_p.R1735*	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2334	Plectin 9.|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GTCTGCAGAACGAGCTGTCAC	0.463													17	13					0	0	1	0	0		T	7584495	T	T	7584495	4	4	55	1	0	0	0	0	0	1	0	0	4787	528	19	1	7094	1	DSP	6	7584495	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4431732	7584495	163530572	542	39576											
BMP6	654	broad.mit.edu	37	chr6	7727818	7727818	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggacagcgccttcctcaaCgacgcggacatggtcatgag	10	6	12	13	4	2	1	2	1	0	0	3	4	3	3	2	3	2	0	2	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:7727818C>T	uc003mxu.3	+	1	808	c.630C>T	c.(628-630)AAC>AAT	p.N210N		NM_001718	NP_001709	P22004	BMP6_HUMAN	bone morphogenetic protein 6 preproprotein	210					BMP signaling pathway|cartilage development|growth|immune response|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	BMP receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity			large_intestine(2)|ovary(1)	3	Ovarian(93;0.0721)					CCTTCCTCAACGACGCGGACA	0.637													3	20					0	0	1	0	0		T	7727818	T	T	7727818	2	4	55	1	0	0	0	0	0	0	0	1	1465	535	19	1		1	BMP6	6	7727818	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	143323	7727818	163387249	543	39577											
HIVEP1	3096	broad.mit.edu	37	chr6	12122644	12122644	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatttgatgacaaaattggCactttctatgatgatgtctt	11	17	7	6	0	3	4	1	4	2	0	3	4	3	4	0	1	0	1	0	1	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:12122644C>T	uc003nac.2	+	4	2795	c.2616C>T	c.(2614-2616)GGC>GGT	p.G872G	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	872					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				ACAAAATTGGCACTTTCTATG	0.463													18	49					0	0	1	0	0		T	12122644	T	T	12122644	2	4	55	1	0	0	0	0	0	0	0	1	7202	697	25	2		2	HIVEP1	6	12122644	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4394826	12122644	158992423	544	39578											
HIVEP1	3096	broad.mit.edu	37	chr6	12125941	12125941	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatactgattggacagtaagCgccagtaatccaaatccact	14	10	7	10	1	0	1	0	1	0	0	2	2	2	2	3	1	2	2	3	1	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:12125941C>T	uc003nac.2	+	4	6092	c.5913C>T	c.(5911-5913)AGC>AGT	p.S1971S	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1971					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				GGACAGTAAGCGCCAGTAATC	0.413													18	36					0	0	1	0	0		T	12125941	T	T	12125941	2	4	55	1	0	0	0	0	0	0	0	1	7202	767	27	1		1	HIVEP1	6	12125941	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3297	12125941	158989126	545	39579											
ATXN1	6310	broad.mit.edu	37	chr6	16328426	16328426	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatgctgtgccctccaccCggtggttgtcgctgggcagg	3	9	15	14	2	0	0	0	0	0	0	2	0	1	0	4	4	2	4	4	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:16328426C>T	uc003nbt.2	-	8	1087	c.116G>A	c.(115-117)CGG>CAG	p.R39Q	ATXN1_uc010jpi.2_Missense_Mutation_p.R39Q|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	39					cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				GCCCTCCACCCGGTGGTTGTC	0.701													24	40					0	0	1	0	0		T	16328426	T	T	16328426	3	4	55	1	0	0	0	0	1	0	0	0	1210	652	23	1	2339	1	ATXN1	6	16328426	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4202485	16328426	154786641	546	39580											
CAP2	10486	broad.mit.edu	37	chr6	17539525	17539525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtagcatccacagtatcagCgttttctgtcctctcctctg	6	15	7	13	1	4	0	1	0	3	0	7	0	6	0	3	0	2	4	3	0	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:17539525C>T	uc003ncb.2	+	8	905	c.662C>T	c.(661-663)GCG>GTG	p.A221V	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Missense_Mutation_p.A195V|CAP2_uc011djb.1_Missense_Mutation_p.A157V|CAP2_uc011djc.1_Missense_Mutation_p.A109V|CAP2_uc011djd.1_Intron	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	221					activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			ACAGTATCAGCGTTTTCTGTC	0.557													51	103					0	0	1	0	0		T	17539525	T	T	17539525	3	4	55	1	0	0	0	0	1	0	0	0	2623	768	27	1	688	1	CAP2	6	17539525	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1211099	17539525	153575542	547	39581											
OR2B2	81697	broad.mit.edu	37	chr6	27880013	27880013	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggaaaacagaaacatcaCaaagggtggaatctctagcc	18	6	9	8	0	2	1	1	0	1	1	3	3	2	3	1	3	3	0	1	3	7	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:27880013C>A	uc011dkw.1	-	1	85	c.85G>T	c.(85-87)GTG>TTG	p.V29L		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	29	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGAAACATCACAAAGGGTGGA	0.373													12	45					0.000219431	0.000227078	1	1	0		A	27880013	A	A	27880013	3	1	55	1	0	0	0	0	1	0	0	0	11008	478	17	5	992	5	OR2B2	6	27880013	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	10340488	27880013	143235054	548	39582											
HLA-F	3134	broad.mit.edu	37	chr6	29692082	29692082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctgcgctcctggaccgCggcggacaccgtggctcaga	6	5	15	15	5	1	1	1	0	0	1	2	4	2	4	4	5	1	2	4	5	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:29692082C>T	uc010jrl.2	+	3	591	c.467C>T	c.(466-468)GCG>GTG	p.A156V	HLA-F_uc003nnm.3_Missense_Mutation_p.A156V|HLA-F_uc003nno.3_Missense_Mutation_p.A156V|HLA-F_uc011dlx.1_Missense_Mutation_p.A156V|HLA-F_uc011dly.1_RNA	NM_018950	NP_061823	P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	156	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity				0						TCCTGGACCGCGGCGGACACC	0.632													5	86					0	0	1	0	0		T	29692082	T	T	29692082	3	4	55	1	0	0	0	0	1	0	0	0	7227	768	27	1	477	1	HLA-F	6	29692082	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1812069	29692082	141422985	549	39583											
HLA-F	3134	broad.mit.edu	37	chr6	29694785	29694785	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcttgggccgccggaaggtgGgtgacatgtggatcttgttt	5	13	16	7	2	2	1	0	1	2	0	2	3	2	3	2	5	0	1	2	5	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:29694785G>T	uc003nno.3	+	7	1286	c.1162G>T	c.(1162-1164)GGT>TGT	p.G388C	HLA-F_uc011dlx.1_Intron|HLA-F_uc011dly.1_Intron|LOC285830_uc003nnp.2_RNA|LOC285830_uc011dlz.1_RNA	NM_001098479	NP_001091949	P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	Error:Variant_position_missing_in_P30511_after_alignment					antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity				0						CCGGAAGGTGGGTGACATGTG	0.522													39	98					4.64027e-19	5.14215e-19	1	1	0		T	29694785	T	T	29694785	3	4	55	1	0	0	0	0	1	0	0	0	7227	1232	43	5	1197	5	HLA-F	6	29694785	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2703	29694785	141420282	550	39584											
ABCF1	23	broad.mit.edu	37	chr6	30545935	30545935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaaagagctcatggagcGtcttaagaagctctcagtgc	13	8	12	8	1	3	3	2	0	2	3	4	5	3	4	0	1	4	2	0	1	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:30545935G>A	uc003nql.2	+	4	394	c.299G>A	c.(298-300)CGT>CAT	p.R100H	ABCF1_uc003nqk.2_Missense_Mutation_p.R101H|ABCF1_uc003nqm.2_Missense_Mutation_p.R100H|ABCF1_uc010jsb.2_Missense_Mutation_p.R100H	NM_001025091	NP_001020262	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F, member 1	100					inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2						CTCATGGAGCGTCTTAAGAAG	0.473													14	41					0	0	1	0	0		A	30545935	A	A	30545935	3	1	55	1	0	0	0	0	1	0	0	0	65	1145	40	1	313	1	ABCF1	6	30545935	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	851150	30545935	140569132	551	39585											
PPP1R10	5514	broad.mit.edu	37	chr6	30572422	30572422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggggtgcctggacggtctgCgtccattgcctcagaaggtg	5	9	16	11	3	2	1	1	0	1	1	3	2	3	2	3	5	3	0	3	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:30572422C>T	uc003nqn.1	-	12	1597	c.1045G>A	c.(1045-1047)GCA>ACA	p.A349T	PPP1R10_uc010jsc.1_Missense_Mutation_p.A3T	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	349					protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						GGACGGTCTGCGTCCATTGCC	0.532													56	168					0	0	1	0	0		T	30572422	T	T	30572422	3	4	55	1	0	0	0	0	1	0	0	0	12374	768	27	1	1813	1	PPP1R10	6	30572422	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	26487	30572422	140542645	552	39586											
VARS2	57176	broad.mit.edu	37	chr6	30892199	30892199	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcaggtcctgttctcctgCgctgacctcggcctccgcct	2	11	9	19	3	2	1	1	1	1	0	6	1	4	1	7	2	1	2	7	2	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:30892199C>T	uc003nsc.1	+	25	3167	c.2535C>T	c.(2533-2535)TGC>TGT	p.C845C	VARS2_uc011dmx.1_Silent_p.C845C|VARS2_uc011dmy.1_Silent_p.C705C|VARS2_uc011dmz.1_Silent_p.C875C|VARS2_uc011dna.1_Silent_p.C843C|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_Silent_p.C283C|VARS2_uc010jsg.1_Silent_p.C217C|VARS2_uc010jsh.1_5'UTR	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	845					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						TGTTCTCCTGCGCTGACCTCG	0.697													15	40					0	0	1	0	0		T	30892199	T	T	30892199	2	4	55	1	0	0	0	0	0	0	0	1	17150	776	27	1		1	VARS2	6	30892199	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	319777	30892199	140222868	553	39587											
BAT2	7916	broad.mit.edu	37	chr6	31603993	31603993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatttattttcagatcacagCccctatacctaccccccggc	10	11	4	16	1	2	1	2	0	0	1	2	1	2	1	6	1	3	0	6	1	5	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:31603993C>T	uc003nvb.3	+	26	5881	c.5632C>T	c.(5632-5634)CCC>TCC	p.P1878S	BAT2_uc003nvc.3_Missense_Mutation_p.P1878S	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1878						cytoplasm|nucleus	protein binding				0						CAGATCACAGCCCCTATACCT	0.512													6	220					0	0	1	0	0		T	31603993	T	T	31603993	3	4	55	1	0	0	0	0	1	0	0	0	1320	739	26	2	5730	2	BAT2	6	31603993	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	711794	31603993	139511074	554	39588											
ATF6B	1388	broad.mit.edu	37	chr6	32087712	32087712	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggactcgaatagcaccCtggatgaggacaactgggga	11	6	15	9	1	0	1	0	1	0	0	1	6	0	5	1	6	2	2	1	6	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:32087712C>A	uc003nzn.2	-	9	888	c.855G>T	c.(853-855)CAG>CAT	p.Q285H	TNXB_uc010jts.1_5'Flank|ATF6B_uc003nzm.1_5'Flank|ATF6B_uc003nzo.2_Missense_Mutation_p.Q282H|ATF6B_uc003nzp.1_Translation_Start_Site	NM_004381	NP_004372	Q99941	ATF6B_HUMAN	activating transcription factor 6 beta isoform	285	Cytoplasmic (Potential).				response to unfolded protein|signal transduction	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GAATAGCACCCTGGATGAGGA	0.622													4	24					0.000602214	0.000618815	1	1	0		A	32087712	A	A	32087712	3	1	55	1	0	0	0	0	1	0	0	0	1086	680	24	5	1296	5	ATF6B	6	32087712	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	483719	32087712	139027355	555	39589											
AGPAT1	10554	broad.mit.edu	37	chr6	32137118	32137118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatcagtggagatttcccGgaaaacagtgagcatggagt	12	8	13	8	1	1	2	1	1	0	1	2	5	2	4	2	3	2	1	2	3	2	1	rs139093368		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:32137118G>A	uc003oae.2	-	7	1105	c.787C>T	c.(787-789)CGG>TGG	p.R263W	PPT2_uc003nzy.1_RNA|AGPAT1_uc011dpj.1_RNA|AGPAT1_uc011dpk.1_Missense_Mutation_p.R227W|AGPAT1_uc003oaf.2_Missense_Mutation_p.R263W|AGPAT1_uc003oag.2_Missense_Mutation_p.R153W|AGPAT1_uc003oah.2_Missense_Mutation_p.R263W|AGPAT1_uc003oai.1_Missense_Mutation_p.R263W|AGPAT1_uc011dpl.1_Missense_Mutation_p.R151W	NM_006411	NP_006402	Q99943	PLCA_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 1	263					energy reserve metabolic process|phosphatidic acid biosynthetic process|positive regulation of cellular metabolic process|positive regulation of cytokine production|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			central_nervous_system(1)	1						GAGATTTCCCGGAAAACAGTG	0.627													41	89					0	0	1	0	0		A	32137118	A	A	32137118	3	1	55	1	0	0	0	0	1	0	0	0	386	1115	39	1	68	1	AGPAT1	6	32137118	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	49406	32137118	138977949	556	39590											
PSMB9	5698	broad.mit.edu	37	chr6	32825904	32825904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggctgggaccaacgtgaagGaggtcaggtgagtttctccc	8	9	15	9	1	2	2	1	2	1	0	3	4	2	4	2	5	1	2	2	5	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:32825904G>A	uc003sga.2	+	5	422	c.347G>A	c.(346-348)GGA>GAA	p.G116E	PSMB9_uc011dqj.1_Missense_Mutation_p.G84E	NM_148954	NP_683756	P28065	PSB9_HUMAN	proteasome beta 9 subunit isoform 2 proprotein	128					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0						CAACGTGAAGGAGGTCAGGTG	0.488													23	64					0	0	1	0	0		A	32825904	A	A	32825904	3	1	55	1	0	0	0	0	1	0	0	0	12706	1174	41	4	397	4	PSMB9	6	32825904	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	688786	32825904	138289163	557	39591											
COL11A2	1302	broad.mit.edu	37	chr6	33133582	33133582	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtggctggatcacctcGcctgggggaccctgggtgca	5	7	17	12	1	1	0	1	0	0	0	2	2	1	2	3	6	1	3	3	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:33133582G>A	uc003ocx.1	-	63	4722	c.4494C>T	c.(4492-4494)GGC>GGT	p.G1498G	COL11A2_uc010jul.1_Silent_p.G68G|COL11A2_uc003ocy.1_Silent_p.G1412G|COL11A2_uc003ocz.1_Silent_p.G1391G	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1498	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						GGATCACCTCGCCTGGGGGAC	0.627													16	41					0	0	1	0	0		A	33133582	A	A	33133582	2	1	55	1	0	0	0	0	0	0	0	1	3671	1074	38	1		1	COL11A2	6	33133582	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	307678	33133582	137981485	558	39592											
COL11A2	1302	broad.mit.edu	37	chr6	33153500	33153500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gataatcaggggttgtccccGtagtcatcacatcataatag	12	11	9	9	1	4	0	4	0	0	0	5	1	5	0	2	2	0	2	2	2	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:33153500G>A	uc003ocx.1	-	6	1082	c.854C>T	c.(853-855)ACG>ATG	p.T285M	COL11A2_uc003ocy.1_Intron|COL11A2_uc003ocz.1_Intron	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	285	Nonhelical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						GGTTGTCCCCGTAGTCATCAC	0.483													18	49					0	0	1	0	0		A	33153500	A	A	33153500	3	1	55	1	0	0	0	0	1	0	0	0	3671	1145	40	1	4600	1	COL11A2	6	33153500	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	19918	33153500	137961567	559	39593											
GRM4	2914	broad.mit.edu	37	chr6	34008337	34008337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccccacctgagaagttgaCgtttcggatgtacttaagca	11	10	9	11	2	0	2	0	2	0	1	1	4	0	3	3	1	2	4	3	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:34008337C>T	uc003oir.3	-	6	1527	c.1357G>A	c.(1357-1359)GTC>ATC	p.V453I	GRM4_uc011dsn.1_Missense_Mutation_p.V406I|GRM4_uc010jvh.2_Missense_Mutation_p.V453I|GRM4_uc010jvi.2_Missense_Mutation_p.V145I|GRM4_uc003oio.2_Missense_Mutation_p.V145I|GRM4_uc003oip.2_RNA|GRM4_uc011dsl.1_Missense_Mutation_p.V313I|GRM4_uc003oiq.2_Missense_Mutation_p.V320I|GRM4_uc011dsm.1_Missense_Mutation_p.V284I	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	453	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	GAGAAGTTGACGTTTCGGATG	0.652													6	9					0	0	1	0	0		T	34008337	T	T	34008337	3	4	55	1	0	0	0	0	1	0	0	0	6815	536	19	1	1401	1	GRM4	6	34008337	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	854837	34008337	137106730	560	39594											
SNRPC	6631	broad.mit.edu	37	chr6	34741334	34741334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactcggcccggaatgactcGaccagacagataaggataga	14	5	11	11	3	0	4	0	1	0	3	2	7	0	6	2	3	0	0	2	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:34741334G>A	uc003ojt.1	+	6	482	c.467G>A	c.(466-468)CGA>CAA	p.R156Q		NM_003093	NP_003084	P09234	RU1C_HUMAN	small nuclear ribonucleoprotein polypeptide C	156					spliceosomal snRNP assembly	Cajal body|U1 snRNP	protein homodimerization activity|single-stranded RNA binding|zinc ion binding			pancreas(1)	1						GGAATGACTCGACCAGACAGA	0.537													16	62					0	0	1	0	0		A	34741334	A	A	34741334	3	1	55	1	0	0	0	0	1	0	0	0	14888	1058	37	1	489	1	SNRPC	6	34741334	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	732997	34741334	136373733	561	39595											
RPL10A	4736	broad.mit.edu	37	chr6	35437275	35437277	+	In_Frame_Del	DEL	CAA	-	-																															atcgaggcgctgaaaaaactCaacaagaataaaaaactggt																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:35437275_35437277delCAA	uc003okp.1	+	4	313_315	c.279_281delCAA	c.(277-282)CTCAAC>CTC	p.N94del	RPL10A_uc003okq.1_In_Frame_Del_p.N10del|RPL10A_uc003okr.1_In_Frame_Del_p.N10del|RPL10A_uc003oks.1_In_Frame_Del_p.N10del	NM_007104	NP_009035	P62906	RL10A_HUMAN	ribosomal protein L10a	94					anatomical structure morphogenesis|endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|large ribosomal subunit	RNA binding|structural constituent of ribosome			ovary(1)	1						TGAAAAAACTCAACAAGAATAAA	0.532													11	18	---	---	---	---						.	-	35437277	-	-	35437275	7	5	55	1	0	1	0	1	0	0	0	0	13580	813	29	0	293	0	RPL10A	6	35437275	In_Frame_Del	DEL	CAA	TCGA-BR-7851-01A-11D-2201-08	695941	35437275	135677792	562	39596											
SRPK1	6732	broad.mit.edu	37	chr6	35837277	35837277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctttgttgtccagtggtcCgttatgttcttgctcttgtt	3	20	9	9	1	2	0	0	0	2	0	4	0	4	0	3	1	1	5	3	1	1	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:35837277C>T	uc003olj.2	-	11	1516	c.1393G>A	c.(1393-1395)GGA>AGA	p.G465R	SRPK1_uc011dtg.1_Missense_Mutation_p.G449R|SRPK1_uc003olh.2_Missense_Mutation_p.G358R|SRPK1_uc003oli.2_Missense_Mutation_p.G358R	NM_003137	NP_003128	Q96SB4	SRPK1_HUMAN	SFRS protein kinase 1	465	Protein kinase.				cell differentiation|chromosome segregation|interspecies interaction between organisms|intracellular protein kinase cascade|mRNA processing|negative regulation of viral genome replication|positive regulation of viral genome replication|regulation of mRNA processing|RNA splicing	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						TCCAGTGGTCCGTTATGTTCT	0.418													28	68					0	0	1	0	0		T	35837277	T	T	35837277	3	4	55	1	0	0	0	0	1	0	0	0	15184	661	23	1	598	1	SRPK1	6	35837277	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	400002	35837277	135277790	563	39597											
TRERF1	55809	broad.mit.edu	37	chr6	42211030	42211030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcgtgtccggtgtttccGccccagccgcatgatctttt	4	12	11	14	4	1	1	0	1	1	0	3	1	3	1	5	2	1	2	5	2	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:42211030G>A	uc003osd.2	-	15	3378	c.2815C>T	c.(2815-2817)CGG>TGG	p.R939W	TRERF1_uc011duq.1_Missense_Mutation_p.R856W|TRERF1_uc003osb.2_Missense_Mutation_p.R695W|TRERF1_uc003osc.2_Missense_Mutation_p.R695W|TRERF1_uc003ose.2_Missense_Mutation_p.R959W	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	939	Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CGGTGTTTCCGCCCCAGCCGC	0.567													43	111					0	0	1	0	0		A	42211030	A	A	42211030	3	1	55	1	0	0	0	0	1	0	0	0	16501	1086	38	1	803	1	TRERF1	6	42211030	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6373753	42211030	128904037	564	39598											
KIAA0240	23506	broad.mit.edu	37	chr6	42832627	42832627	+	Frame_Shift_Del	DEL	A	-	-																															ctgcagaaggaaacatttctAaaaaaacagaatgccttggc																								rs139801339		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:42832627delA	uc003osn.1	+	13	2834	c.2683delA	c.(2683-2685)AAAfs	p.K895fs	KIAA0240_uc011duw.1_Frame_Shift_Del_p.K895fs|KIAA0240_uc003osp.1_Frame_Shift_Del_p.K895fs	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	895										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			AAACATTTCTAAAAAAACAGA	0.488													11	22	---	---	---	---						.	-	42832627	-	-	42832627	7	5	55	1	0	1	0	1	0	0	0	0	8180	363	13	0	2725	0	KIAA0240	6	42832627	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	621597	42832627	128282440	565	39599											
C6orf226	441150	broad.mit.edu	37	chr6	42858503	42858503	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagaggccggggccgagcaTtggggactgcggggacgctc	6	4	20	11	4	0	1	0	0	0	1	1	4	0	3	2	7	2	3	2	7	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:42858503T>C	uc003osw.2	-	1	52	c.24A>G	c.(22-24)CAA>CAG	p.Q8Q		NM_001008739	NP_001008739	Q5I0X4	CF226_HUMAN	hypothetical protein LOC441150	8											0						GGGCCGAGCATTGGGGACTGC	0.662													18	32					0	0	1	0	0		C	42858503	C	C	42858503	2	2	55	1	0	0	0	0	0	0	0	1	2362	1490	52	3		3	C6orf226	6	42858503	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	25876	42858503	128256564	566	39600											
CUL7	9820	broad.mit.edu	37	chr6	43020092	43020092	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctcaatgctggcataggcGctgagcacgtggacagtgtg	8	8	16	9	2	1	1	1	1	0	0	1	2	1	2	0	4	2	5	0	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:43020092G>A	uc003otq.2	-	2	738	c.435C>T	c.(433-435)AGC>AGT	p.S145S	CUL7_uc011dvb.1_Silent_p.S197S|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	145					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			TGGCATAGGCGCTGAGCACGT	0.552													9	20					0	0	1	0	0		A	43020092	A	A	43020092	2	1	55	1	0	0	0	0	0	0	0	1	4063	1078	38	1		1	CUL7	6	43020092	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	161589	43020092	128094975	567	39601											
CUL9	23113	broad.mit.edu	37	chr6	43166449	43166449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actactcctggacttggagcGtgtgctgtgccgtgagggca	6	10	15	10	2	0	1	0	1	0	0	1	3	1	3	2	3	4	2	2	3	1	2	rs145736095	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:43166449G>A	uc003ouk.2	+	12	2981	c.2906G>A	c.(2905-2907)CGT>CAT	p.R969H	CUL9_uc003oul.2_Missense_Mutation_p.R969H|CUL9_uc010jyk.2_Missense_Mutation_p.R121H	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	969					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GACTTGGAGCGTGTGCTGTGC	0.637													41	114					0	0	1	0	0		A	43166449	A	A	43166449	3	1	55	1	0	0	0	0	1	0	0	0	4064	1145	40	1	2948	1	CUL9	6	43166449	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	146357	43166449	127948618	568	39602											
ABCC10	89845	broad.mit.edu	37	chr6	43417235	43417235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagcagaccatctgcaaaCgctttgccaacaagacagtg	13	7	8	13	1	1	2	0	0	1	2	2	2	2	2	3	0	5	3	3	0	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:43417235C>T	uc003ouy.1	+	21	4494	c.4279C>T	c.(4279-4281)CGC>TGC	p.R1427C	ABCC10_uc003ouz.1_Missense_Mutation_p.R1399C|ABCC10_uc010jyo.1_Missense_Mutation_p.R533C	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	1427	ABC transporter 2.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CATCTGCAAACGCTTTGCCAA	0.537													20	46					0	0	1	0	0		T	43417235	T	T	43417235	3	4	55	1	0	0	0	0	1	0	0	0	50	536	19	1	4269	1	ABCC10	6	43417235	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	250786	43417235	127697832	569	39603											
XPO5	57510	broad.mit.edu	37	chr6	43491633	43491634	+	Frame_Shift_Ins	INS	-	C	C																															caaagatggtggccaggccaINScccccatcattgtccagcac																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:43491633_43491634insC	uc003ovp.2	-	32	3798_3799	c.3587_3588insG	c.(3586-3588)GGTfs	p.G1196fs	POLR1C_uc003ovo.1_Intron	NM_020750	NP_065801	Q9HAV4	XPO5_HUMAN	exportin 5	1196					gene silencing by RNA	cytosol|nucleoplasm	protein binding|tRNA binding			skin(2)|breast(1)|kidney(1)	4	all_cancers(18;2.08e-05)|Lung NSC(15;0.000907)|all_lung(25;0.00243)		all cancers(41;0.000321)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0524)			TGGCCAGGCCACCCCCATCATT	0.485													31	68	---	---	---	---						.	C	43491634	C	C	43491633	7	5	55	1	0	1	1	0	0	0	0	0	17473	146	6	0	30	0	XPO5	6	43491633	Frame_Shift_Ins	INS	-	TCGA-BR-7851-01A-11D-2201-08	74398	43491633	127623434	570	39604											
CDC5L	988	broad.mit.edu	37	chr6	44371656	44371656	+	Frame_Shift_Del	DEL	A	-	-																															taatgccgaaatcccatttgAaaaaaagcctgcccttggtt																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:44371656delA	uc003oxl.2	+	6	909	c.650delA	c.(649-651)GAAfs	p.E217fs		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	217	Potential.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			ATCCCATTTGAAAAAAAGCCT	0.403													11	22	---	---	---	---						.	-	44371656	-	-	44371656	7	5	55	1	0	1	0	1	0	0	0	0	3085	246	9	0	672	0	CDC5L	6	44371656	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	880023	44371656	126743411	571	39605											
TDRD6	221400	broad.mit.edu	37	chr6	46659410	46659410	+	Frame_Shift_Del	DEL	A	-	-																															tacaactgaaactcttgaagAaaaaaatgagaatatgaagt																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:46659410delA	uc003oyj.2	+	1	3545	c.3545delA	c.(3544-3546)GAAfs	p.E1182fs	TDRD6_uc010jze.2_Frame_Shift_Del_p.E1176fs	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1182					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			ACTCTTGAAGAAAAAAATGAG	0.308													11	22	---	---	---	---						.	-	46659410	-	-	46659410	7	5	55	1	0	1	0	1	0	0	0	0	15759	246	9	0	3547	0	TDRD6	6	46659410	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	2287754	46659410	124455657	572	39606											
PAQR8	85315	broad.mit.edu	37	chr6	52269023	52269023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcctgcagtgctgccaccGcagcccttctgaggcacaaa	8	7	10	16	1	1	1	0	1	1	0	1	1	1	1	4	1	5	4	4	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:52269023G>A	uc003pao.3	+	2	1186	c.1012G>A	c.(1012-1014)GCA>ACA	p.A338T		NM_133367	NP_588608	Q8TEZ7	MPRB_HUMAN	progestin and adipoQ receptor family member	338	Helical; Name=7; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding				0	Lung NSC(77;0.0875)					TGCTGCCACCGCAGCCCTTCT	0.592													11	14					0	0	1	0	0		A	52269023	A	A	52269023	3	1	55	1	0	0	0	0	1	0	0	0	11460	1087	38	1	1014	1	PAQR8	6	52269023	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5609613	52269023	118846044	573	39607											
KHDRBS2	202559	broad.mit.edu	37	chr6	62604715	62604715	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtccaggtggtgggggaGgaggaatggcacccccacgg	7	5	18	11	2	0	0	0	0	0	0	2	3	1	3	3	8	0	1	3	8	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:62604715G>T	uc003peg.2	-	6	882	c.635C>A	c.(634-636)CCT>CAT	p.P212H		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	212	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		TGGTGGGGGAGGAGGAATGGC	0.542													7	13					0.0381472	0.0384988	1	1	0		T	62604715	T	T	62604715	3	4	55	1	0	0	0	0	1	0	0	0	8163	1000	35	5	430	5	KHDRBS2	6	62604715	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	10335692	62604715	108510352	574	39608											
PHF3	23469	broad.mit.edu	37	chr6	64395471	64395471	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatcatcctgcacaaacTggacatgtatcacattctag	12	11	5	13	0	4	0	3	0	1	0	5	1	5	1	2	1	2	2	2	1	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:64395471T>A	uc003pep.1	+	3	1874	c.1848T>A	c.(1846-1848)ACT>ACA	p.T616T	PHF3_uc010kaf.1_Silent_p.T616T|PHF3_uc003pem.2_Silent_p.T569T|PHF3_uc010kag.1_Silent_p.T528T|PHF3_uc010kah.1_Silent_p.T430T|PHF3_uc003pen.2_Silent_p.T528T|PHF3_uc011dxs.1_Intron|PHF3_uc003peo.2_Silent_p.T616T	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	616					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			CTGCACAAACTGGACATGTAT	0.428													6	46					0	0	1	0	0		A	64395471	A	A	64395471	2	1	55	1	0	0	0	0	0	0	0	1	11855	1567	55	5		5	PHF3	6	64395471	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1790756	64395471	106719596	575	39609											
BAI3	577	broad.mit.edu	37	chr6	70071269	70071269	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttagagcaacatctcgcAccccaggaacatatgcagaa	16	6	7	12	1	1	2	0	0	1	2	2	3	1	3	2	1	5	3	2	1	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:70071269A>G	uc003pev.3	+	29	4552	c.4104A>G	c.(4102-4104)GCA>GCG	p.A1368A	BAI3_uc010kak.2_Silent_p.A1368A|BAI3_uc011dxx.1_Silent_p.A574A	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1368	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AACATCTCGCACCCCAGGAAC	0.438													32	81					0	0	1	0	0		G	70071269	G	G	70071269	2	3	55	1	0	0	0	0	0	0	0	1	1301	146	6	3		3	BAI3	6	70071269	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	5675798	70071269	101043798	576	39610											
FAM135A	57579	broad.mit.edu	37	chr6	71185391	71185392	+	Frame_Shift_Ins	INS	-	T	T																															gaaacccttgaggaaatgaaINSttttctattatccttggatc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:71185391_71185392insT	uc003pfj.2	+	5	456_457	c.323_324insT	c.(322-324)AATfs	p.N108fs	FAM135A_uc003pfi.2_Frame_Shift_Ins_p.N108fs|FAM135A_uc003pfh.2_Frame_Shift_Ins_p.N65fs|FAM135A_uc003pfk.2_Frame_Shift_Ins_p.N108fs|FAM135A_uc003pfl.2_5'UTR	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	108										central_nervous_system(1)	1						GAGGAAATGAATTTTCTATTAT	0.287													20	26	---	---	---	---						.	T	71185392	T	T	71185391	7	5	55	1	0	1	1	0	0	0	0	0	5459	101	4	0	337	0	FAM135A	6	71185391	Frame_Shift_Ins	INS	-	TCGA-BR-7851-01A-11D-2201-08	1114122	71185391	99929676	577	39611											
RIMS1	22999	broad.mit.edu	37	chr6	73023356	73023356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatgtcagagcaatctgagCgccccaggggtagaatcagg	11	8	13	9	1	3	3	2	1	1	2	3	3	3	3	2	3	2	2	2	3	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:73023356C>T	uc003pga.2	+	28	4188	c.4111C>T	c.(4111-4113)CGC>TGC	p.R1371C	RIMS1_uc011dyb.1_Missense_Mutation_p.R768C|RIMS1_uc003pgc.2_Missense_Mutation_p.R820C|RIMS1_uc010kaq.2_Missense_Mutation_p.R691C|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Missense_Mutation_p.R380C|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Missense_Mutation_p.R437C|RIMS1_uc003pge.2_Missense_Mutation_p.R411C|RIMS1_uc011dye.1_Missense_Mutation_p.R177C|RIMS1_uc011dyf.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1371	Ser-rich.				calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				GCAATCTGAGCGCCCCAGGGG	0.423													4	16					0	0	1	0	0		T	73023356	T	T	73023356	3	4	55	1	0	0	0	0	1	0	0	0	13392	768	27	1	4384	1	RIMS1	6	73023356	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1837965	73023356	98091711	578	39612											
KCNQ5	56479	broad.mit.edu	37	chr6	73902299	73902299	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgatagtgttgatcaaaTtcttggaaaagggcaaatca	14	12	9	6	0	4	2	2	2	2	0	4	3	4	3	0	2	0	2	0	2	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:73902299T>C	uc003pgk.2	+	13	2068	c.1721T>C	c.(1720-1722)ATT>ACT	p.I574T	KCNQ5_uc011dyh.1_Missense_Mutation_p.I593T|KCNQ5_uc011dyi.1_Missense_Mutation_p.I584T|KCNQ5_uc010kat.2_Missense_Mutation_p.I565T|KCNQ5_uc011dyj.1_Missense_Mutation_p.I464T|KCNQ5_uc011dyk.1_Missense_Mutation_p.I324T	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	574					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		GTTGATCAAATTCTTGGAAAA	0.418													11	34					0	0	1	0	0		C	73902299	C	C	73902299	3	2	55	1	0	0	0	0	1	0	0	0	8102	1493	52	3	1832	3	KCNQ5	6	73902299	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	878943	73902299	97212768	579	39613											
MYO6	4646	broad.mit.edu	37	chr6	76623784	76623784	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgttctgtgtaatagctcaGcaaaacccagcagctcagat	12	11	8	10	0	3	1	2	0	1	1	3	1	3	1	1	0	5	6	1	0	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:76623784G>A	uc003pih.1	+	34	3723	c.3444G>A	c.(3442-3444)CAG>CAA	p.Q1148Q	MYO6_uc003pii.1_Silent_p.Q1125Q|MYO6_uc003pij.1_Silent_p.Q96Q	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	1157					actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		TAATAGCTCAGCAAAACCCAG	0.448													21	61					0	0	1	0	0		A	76623784	A	A	76623784	2	1	55	1	0	0	0	0	0	0	0	1	10099	962	34	2		2	MYO6	6	76623784	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2721485	76623784	94491283	580	39614											
DOPEY1	23033	broad.mit.edu	37	chr6	83848119	83848119	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccggagttctatgtacaTagaaattcttatttctctct	9	18	5	9	1	4	1	0	0	4	1	6	2	5	2	1	1	1	2	1	1	5	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:83848119T>C	uc003pjs.1	+	21	4618	c.4358T>C	c.(4357-4359)ATA>ACA	p.I1453T	DOPEY1_uc011dyy.1_Missense_Mutation_p.I1444T|DOPEY1_uc010kbl.1_Missense_Mutation_p.I1444T|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1453					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		TCTATGTACATAGAAATTCTT	0.378													25	40					0	0	1	0	0		C	83848119	C	C	83848119	3	2	55	1	0	0	0	0	1	0	0	0	4713	1406	49	3	4432	3	DOPEY1	6	83848119	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	7224335	83848119	87266948	581	39615											
PGM3	5238	broad.mit.edu	37	chr6	83885707	83885707	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcccatttgcttcaaaatAaactccaatgtcaaactctt	14	13	3	11	0	3	0	2	0	1	0	4	0	4	0	2	0	4	1	2	0	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:83885707A>G	uc003pjv.2	-	9	1142	c.1102T>C	c.(1102-1104)TAT>CAT	p.Y368H	PGM3_uc003pjw.2_Missense_Mutation_p.Y287H|PGM3_uc011dyz.1_Missense_Mutation_p.Y396H	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	368					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		GCTTCAAAATAAACTCCAATG	0.373													14	36					0	0	1	0	0		G	83885707	G	G	83885707	3	3	55	1	0	0	0	0	1	0	0	0	11819	362	13	3	546	3	PGM3	6	83885707	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	37588	83885707	87229360	582	39616											
ZNF292	23036	broad.mit.edu	37	chr6	87970082	87970082	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagaccacgggattggactAagggcaagtaaaacagaaga	17	4	13	7	1	0	3	0	0	0	3	0	5	0	5	1	3	1	3	1	3	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:87970082A>G	uc003plm.3	+	8	6776	c.6735A>G	c.(6733-6735)CTA>CTG	p.L2245L		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	2245					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		GGATTGGACTAAGGGCAAGTA	0.403													3	47					0	0	1	0	0		G	87970082	G	G	87970082	2	3	55	1	0	0	0	0	0	0	0	1	17851	349	13	3		3	ZNF292	6	87970082	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	4084375	87970082	83144985	583	39617											
EPHA7	2045	broad.mit.edu	37	chr6	94120757	94120757	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaatttcaattctacaaaAatcctttgtgcattgccttt	11	17	5	8	0	2	1	1	1	1	0	3	1	3	1	2	0	3	1	2	0	5	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:94120757A>T	uc003poe.2	-	3	535	c.294T>A	c.(292-294)ATT>ATA	p.I98I	EPHA7_uc003pof.2_Silent_p.I98I|EPHA7_uc011eac.1_Silent_p.I98I|EPHA7_uc003pog.3_Silent_p.I98I	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	98	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		ATTCTACAAAAATCCTTTGTG	0.423													23	63					0	0	1	0	0		T	94120757	T	T	94120757	2	4	55	1	0	0	0	0	0	0	0	1	5180	10	1	5		5	EPHA7	6	94120757	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	6150675	94120757	76994310	584	39618											
SIM1	6492	broad.mit.edu	37	chr6	100838492	100838492	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgctgtctgatgaggagaTatatccgaatgcagatagtc	11	11	11	8	1	1	4	0	2	1	2	3	6	2	4	2	1	2	2	2	1	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:100838492T>C	uc003pqj.3	-	11	2253	c.2046A>G	c.(2044-2046)ATA>ATG	p.I682M	SIM1_uc010kcu.2_Missense_Mutation_p.I682M	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	682	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		GATGAGGAGATATATCCGAAT	0.453													3	56					0	0	1	0	0		C	100838492	C	C	100838492	3	2	55	1	0	0	0	0	1	0	0	0	14348	1396	49	3	258	3	SIM1	6	100838492	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	6717735	100838492	70276575	585	39619											
SIM1	6492	broad.mit.edu	37	chr6	100895235	100895235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgcacccatacccagcCgccgtgtttcgccaggaacc	7	7	9	18	3	1	0	0	0	1	0	2	1	1	1	6	1	4	3	6	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:100895235C>T	uc003pqj.3	-	8	1114	c.907G>A	c.(907-909)GGC>AGC	p.G303S	SIM1_uc010kcu.2_Missense_Mutation_p.G303S	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	303	PAC.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		CATACCCAGCCGCCGTGTTTC	0.587													18	33					0	0	1	0	0		T	100895235	T	T	100895235	3	4	55	1	0	0	0	0	1	0	0	0	14348	652	23	1	1409	1	SIM1	6	100895235	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	56743	100895235	70219832	586	39620											
GPR6	2830	broad.mit.edu	37	chr6	110300686	110300686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgacctgttggcgggctgtgGcctcatcttgcactttgtgt	3	15	13	10	1	2	1	1	1	1	0	2	1	2	1	2	3	1	3	2	3	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:110300686G>A	uc011eaw.1	+	2	551	c.371G>A	c.(370-372)GGC>GAC	p.G124D	GPR6_uc011eav.1_Missense_Mutation_p.G139D|GPR6_uc003ptu.2_Missense_Mutation_p.G124D	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	124	Helical; Name=2; (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		GCGGGCTGTGGCCTCATCTTG	0.657													41	110					0	0	1	0	0		A	110300686	A	A	110300686	3	1	55	1	0	0	0	0	1	0	0	0	6716	1203	42	2	373	2	GPR6	6	110300686	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	9405451	110300686	60814381	587	39621											
DDO	8528	broad.mit.edu	37	chr6	110726062	110726062	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatactgggggaatttctTcagctcagcctcagtcatct	9	12	8	12	0	6	0	4	0	2	0	6	1	6	1	1	2	3	1	1	2	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:110726062T>C	uc003puc.2	-	4	461	c.457A>G	c.(457-459)AAG>GAG	p.K153E	C6orf186_uc003pub.2_Intron|DDO_uc003pud.2_Intron	NM_003649	NP_003640	Q99489	OXDD_HUMAN	D-aspartate oxidase isoform a	125					aspartate catabolic process	peroxisome	binding|D-amino-acid oxidase activity|D-aspartate oxidase activity			ovary(2)|breast(1)	3		all_cancers(87;3.47e-21)|all_epithelial(87;9.03e-20)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_lung(197;2.98e-05)|Lung NSC(302;3.25e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.00327)		all cancers(137;2.54e-48)|Epithelial(106;3.11e-44)|OV - Ovarian serous cystadenocarcinoma(136;2.08e-24)|BRCA - Breast invasive adenocarcinoma(108;0.000141)|GBM - Glioblastoma multiforme(226;0.00046)		GGGAATTTCTTCAGCTCAGCC	0.483													8	34					0	0	1	0	0		C	110726062	C	C	110726062	3	2	55	1	0	0	0	0	1	0	0	0	4337	1792	62	3	660	3	DDO	6	110726062	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	425376	110726062	60389005	588	39622											
SLC16A10	117247	broad.mit.edu	37	chr6	111493979	111493979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagacctatttggttgtcGgaaaacagctgtcgtgggtg	9	11	13	8	2	0	1	0	0	0	1	2	2	0	2	1	3	2	2	1	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:111493979G>A	uc003pus.2	+	2	600	c.425G>A	c.(424-426)CGG>CAG	p.R142Q	SLC16A10_uc003pur.3_Missense_Mutation_p.R142Q	NM_018593	NP_061063	Q8TF71	MOT10_HUMAN	solute carrier family 16, member 10	142	Extracellular (Potential).				aromatic amino acid transport|cellular nitrogen compound metabolic process|ion transport	basolateral plasma membrane|integral to membrane	amino acid transmembrane transporter activity				0		all_cancers(87;0.00172)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0313)|Colorectal(196;0.0466)		OV - Ovarian serous cystadenocarcinoma(136;0.0703)|Epithelial(106;0.12)|all cancers(137;0.132)		TTTGGTTGTCGGAAAACAGCT	0.438													25	77					0	0	1	0	0		A	111493979	A	A	111493979	3	1	55	1	0	0	0	0	1	0	0	0	14428	1116	39	1	431	1	SLC16A10	6	111493979	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	767917	111493979	59621088	589	39623											
ROS1	6098	broad.mit.edu	37	chr6	117681166	117681166	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agttatgaggtgaggaaatgGgttgatttctgaaagcaaaa	15	11	13	2	0	1	4	0	4	1	0	1	5	1	5	0	3	1	3	0	3	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:117681166G>T	uc003pxp.1	-	23	3653	c.3454C>A	c.(3454-3456)CCA>ACA	p.P1152T	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1152	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TGAGGAAATGGGTTGATTTCT	0.343			T	GOPC|ROS1	glioblastoma|NSCLC								5	10					0.014758	0.014937	1	1	0		T	117681166	T	T	117681166	3	4	55	1	0	0	0	0	1	0	0	0	13556	1232	43	5	3673	5	ROS1	6	117681166	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6187187	117681166	53433901	590	39624											
GJA1	2697	broad.mit.edu	37	chr6	121768938	121768938	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgggctaattacagtgcAgaacaaaatcgaatggggca	16	7	11	7	1	0	1	0	0	0	1	1	2	0	1	0	3	4	3	0	3	7	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:121768938A>G	uc003pyr.2	+	2	1195	c.945A>G	c.(943-945)GCA>GCG	p.A315A	GJA1_uc011ebo.1_Silent_p.A216A|GJA1_uc011ebp.1_Silent_p.A103A	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	315	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	ATTACAGTGCAGAACAAAATC	0.463													39	80					0	0	1	0	0		G	121768938	G	G	121768938	2	3	55	1	0	0	0	0	0	0	0	1	6415	175	7	3		3	GJA1	6	121768938	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	4087772	121768938	49346129	591	39625											
RNF217	154214	broad.mit.edu	37	chr6	125404041	125404042	+	Frame_Shift_Ins	INS	-	A	A																															ttcctatctattgcctttgtINSaaaaaacagagaaaacgatc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:125404041_125404042insA	uc003pzs.2	+	9	1164_1165	c.826_827insA	c.(826-828)TAAfs	p.*276fs	RNF217_uc003pzr.2_Frame_Shift_Ins_p.C294fs|RNF217_uc003pzt.2_RNA	NM_152553	NP_689766	Q8TC41	RN217_HUMAN	ring finger protein 217	276					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)		ATTGCCTTTGTAAAAAACAGAG	0.366													17	26	---	---	---	---						.	A	125404042	A	A	125404041	7	5	55	1	0	1	1	0	0	0	0	0	13506	1651	57	0	852	0	RNF217	6	125404041	Frame_Shift_Ins	INS	-	TCGA-BR-7851-01A-11D-2201-08	3635103	125404041	45711026	592	39626											
C6orf174	387104	broad.mit.edu	37	chr6	127796465	127796465	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggaaatgggctcctcggcGccgcggtcgtccgcagactt	6	7	14	14	7	0	1	0	0	0	1	4	2	2	2	3	4	0	2	3	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:127796465G>A	uc003qbd.2	-	6	3571	c.2706C>T	c.(2704-2706)GGC>GGT	p.G902G	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	902						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		GCTCCTCGGCGCCGCGGTCGT	0.662													19	39					0	0	1	0	0		A	127796465	A	A	127796465	2	1	55	1	0	0	0	0	0	0	0	1	2348	1074	38	1		1	C6orf174	6	127796465	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2392424	127796465	43318602	593	39627											
TAAR9	134860	broad.mit.edu	37	chr6	132860086	132860086	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtttatatacagtaagAtatttttggtggccaagcat	11	16	10	4	0	0	1	0	0	0	1	0	1	0	1	1	3	2	3	1	3	6	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:132860086A>G	uc011eci.1	+	2	660	c.658A>G	c.(658-660)ATA>GTA	p.I220V		NM_175057	NP_778227	Q96RI9	TAAR9_HUMAN	trace amine associated receptor 9	220	Cytoplasmic (Potential).					plasma membrane	G-protein coupled receptor activity				0	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.0042)|GBM - Glioblastoma multiforme(226;0.00816)		ATACAGTAAGATATTTTTGGT	0.433													3	56					0	0	1	0	0		G	132860086	G	G	132860086	3	3	55	1	0	0	0	0	1	0	0	0	15519	333	12	3	660	3	TAAR9	6	132860086	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	5063621	132860086	38254981	594	39628											
KIAA1244	57221	broad.mit.edu	37	chr6	138615258	138615258	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgattactctctggcaaTgccaggtaattctttccctg	8	15	8	10	0	2	1	0	1	2	0	4	1	3	1	2	2	2	3	2	2	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:138615258T>C	uc003qhu.2	+	20	3497	c.3497T>C	c.(3496-3498)ATG>ACG	p.M1166T		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1166					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		TCTCTGGCAATGCCAGGTAAT	0.468													3	30					0	0	1	0	0		C	138615258	C	C	138615258	3	2	55	1	0	0	0	0	1	0	0	0	8233	1464	51	3	3575	3	KIAA1244	6	138615258	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	5755172	138615258	32499809	595	39629											
KIAA1244	57221	broad.mit.edu	37	chr6	138628431	138628431	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggttgaagtgtgttccacGcagatccagtcgggatggag	8	10	15	8	2	0	2	0	1	0	1	3	4	2	4	2	3	0	3	2	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:138628431G>A	uc003qhu.2	+	23	3870	c.3870G>A	c.(3868-3870)ACG>ACA	p.T1290T		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1290					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		TGTGTTCCACGCAGATCCAGT	0.507													5	226					0	0	1	0	0		A	138628431	A	A	138628431	2	1	55	1	0	0	0	0	0	0	0	1	8233	1074	38	1		1	KIAA1244	6	138628431	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	13173	138628431	32486636	596	39630											
KIAA1244	57221	broad.mit.edu	37	chr6	138655648	138655648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggatgcccttgctcagcGtccagcctgtcagcaacgca	8	7	10	16	3	2	0	2	0	0	0	3	1	3	1	3	1	6	3	3	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:138655648G>A	uc003qhu.2	+	33	5665	c.5665G>A	c.(5665-5667)GTC>ATC	p.V1889I		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1889					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CTTGCTCAGCGTCCAGCCTGT	0.567													10	21					0	0	1	0	0		A	138655648	A	A	138655648	3	1	55	1	0	0	0	0	1	0	0	0	8233	1145	40	1	5795	1	KIAA1244	6	138655648	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	27217	138655648	32459419	597	39631											
SASH1	23328	broad.mit.edu	37	chr6	148711347	148711347	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgtttctccgacgtgtgCgagaggatggaggagctgcg	7	9	16	9	4	1	1	0	0	1	1	2	6	1	4	2	3	3	2	2	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:148711347C>T	uc003qme.1	+	2	709	c.234C>T	c.(232-234)TGC>TGT	p.C78C		NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	78							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CCGACGTGTGCGAGAGGATGG	0.552													16	28					0	0	1	0	0		T	148711347	T	T	148711347	2	4	55	1	0	0	0	0	0	0	0	1	13873	776	27	1		1	SASH1	6	148711347	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	10055699	148711347	22403720	598	39632											
LATS1	9113	broad.mit.edu	37	chr6	150016247	150016247	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaataggtctggcagctgcTgcagccatctgctctcgtcg	6	12	11	12	2	3	0	0	0	3	0	5	0	3	0	1	2	5	5	1	2	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:150016247T>A	uc003qmu.1	-	3	1007	c.459A>T	c.(457-459)GCA>GCT	p.A153A	LATS1_uc010kif.1_Silent_p.A48A|LATS1_uc003qmv.1_Silent_p.A153A|LATS1_uc003qmw.2_Silent_p.A153A|LATS1_uc010kig.1_Silent_p.A48A	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	153					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		TGGCAGCTGCTGCAGCCATCT	0.358													24	58					0	0	1	0	0		A	150016247	A	A	150016247	2	1	55	1	0	0	0	0	0	0	0	1	8662	1567	55	5		5	LATS1	6	150016247	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1304900	150016247	21098820	599	39633											
SYNE1	23345	broad.mit.edu	37	chr6	152542668	152542668	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttctgtaagctcctttcCtgtttttccagatcatcttg	7	19	5	10	0	3	1	1	0	2	1	6	1	6	1	3	0	1	3	3	0	2	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:152542668C>T	uc010kiw.2	-	118	22151	c.21549G>A	c.(21547-21549)CAG>CAA	p.Q7183Q	SYNE1_uc010kiv.2_Silent_p.Q1707Q|SYNE1_uc003qos.3_Silent_p.Q1707Q|SYNE1_uc003qot.3_Silent_p.Q7112Q|SYNE1_uc003qou.3_Silent_p.Q7183Q|SYNE1_uc003qor.3_Silent_p.Q83Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7183	Cytoplasmic (Potential).|Spectrin 23.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AGCTCCTTTCCTGTTTTTCCA	0.368										HNSCC(10;0.0054)			18	48					0	0	1	0	0		T	152542668	T	T	152542668	2	4	55	1	0	0	0	0	0	0	0	1	15470	680	24	4		4	SYNE1	6	152542668	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2526421	152542668	18572399	600	39634											
SYNE1	23345	broad.mit.edu	37	chr6	152555882	152555882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagtccaaaattctagcCggtcttttgcagattgtaac	10	13	9	9	1	2	2	0	1	2	1	3	2	3	2	2	1	3	3	2	1	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:152555882C>T	uc010kiw.2	-	111	21052	c.20450G>A	c.(20449-20451)CGG>CAG	p.R6817Q	SYNE1_uc010kiv.2_Missense_Mutation_p.R1341Q|SYNE1_uc003qos.3_Missense_Mutation_p.R1341Q|SYNE1_uc003qot.3_Missense_Mutation_p.R6746Q|SYNE1_uc003qou.3_Missense_Mutation_p.R6817Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6817	Spectrin 21.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AAATTCTAGCCGGTCTTTTGC	0.383										HNSCC(10;0.0054)			10	23					0	0	1	0	0		T	152555882	T	T	152555882	3	4	55	1	0	0	0	0	1	0	0	0	15470	652	23	1	6160	1	SYNE1	6	152555882	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	13214	152555882	18559185	601	39635											
OPRM1	4988	broad.mit.edu	37	chr6	154360894	154360894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatgatcacggccatcaCgatcatggccctctactcca	9	9	6	17	2	4	1	3	1	1	0	6	2	6	1	4	2	1	0	4	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:154360894C>T	uc003qpr.2	+	1	452	c.215C>T	c.(214-216)ACG>ATG	p.T72M	OPRM1_uc011efb.1_Missense_Mutation_p.T120M|OPRM1_uc011efc.1_Intron|OPRM1_uc011efd.1_Intron|OPRM1_uc011efe.1_Missense_Mutation_p.T165M|OPRM1_uc003qpn.2_Missense_Mutation_p.T72M|OPRM1_uc003qpo.1_Missense_Mutation_p.T72M|OPRM1_uc011eff.1_Missense_Mutation_p.T72M|OPRM1_uc011efg.1_Missense_Mutation_p.T72M|OPRM1_uc011efh.1_Missense_Mutation_p.T72M|OPRM1_uc003qpq.1_Missense_Mutation_p.T72M|OPRM1_uc003qpt.1_Missense_Mutation_p.T72M|OPRM1_uc011efi.1_Missense_Mutation_p.T72M|OPRM1_uc003qpp.2_RNA|OPRM1_uc003qps.2_RNA	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	72	Helical; Name=1; (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	ACGGCCATCACGATCATGGCC	0.622													13	37					0	0	1	0	0		T	154360894	T	T	154360894	3	4	55	1	0	0	0	0	1	0	0	0	10906	536	19	1	551	1	OPRM1	6	154360894	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1805012	154360894	16754173	602	39636											
FNDC1	84624	broad.mit.edu	37	chr6	159655393	159655393	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggccgcagtacaccacGcgcgccccacctggccactt	6	5	9	21	4	0	0	0	0	0	0	0	0	0	0	7	2	1	2	7	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:159655393G>A	uc010kjv.2	+	11	4049	c.3849G>A	c.(3847-3849)ACG>ACA	p.T1283T	FNDC1_uc010kjw.1_Silent_p.T1168T	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	1283						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		AGTACACCACGCGCGCCCCAC	0.701													4	12					0	0	1	0	0		A	159655393	A	A	159655393	2	1	55	1	0	0	0	0	0	0	0	1	5982	1074	38	1		1	FNDC1	6	159655393	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5294499	159655393	11459674	603	39637											
MLLT4	4301	broad.mit.edu	37	chr6	168347522	168347522	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgaaccaaagaaattgcCtggtgatgacagactgatga	15	9	11	6	0	0	7	0	5	0	2	0	7	0	7	2	1	2	0	2	1	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:168347522C>A	uc003qwd.2	+	26	3612	c.3470C>A	c.(3469-3471)CCT>CAT	p.P1157H	MLLT4_uc003qwb.1_Missense_Mutation_p.P1142H|MLLT4_uc003qwc.1_Missense_Mutation_p.P1158H|MLLT4_uc003qwg.1_Missense_Mutation_p.P467H	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1158					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		AAGAAATTGCCTGGTGATGAC	0.428			T	MLL	AL								6	92					0.0293803	0.0296682	1	1	0		A	168347522	A	A	168347522	3	1	55	1	0	0	0	0	1	0	0	0	9647	681	24	5	3575	5	MLLT4	6	168347522	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	8692129	168347522	2767545	604	39638											
THBS2	7058	broad.mit.edu	37	chr6	169641950	169641950	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctcctcgcacgagcgttcGcacacctcgggcctcctctc	5	8	9	19	5	1	0	0	0	1	0	7	1	3	0	4	1	2	4	4	1	0	1	rs148909888	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:169641950G>A	uc003qwt.2	-	6	1046	c.798C>T	c.(796-798)TGC>TGT	p.C266C		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	266					cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		ACGAGCGTTCGCACACCTCGG	0.627													8	27					0	0	1	0	0		A	169641950	A	A	169641950	2	1	55	1	0	0	0	0	0	0	0	1	15879	1079	38	1		1	THBS2	6	169641950	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1294428	169641950	1473117	605	39639											
C6orf70	55780	broad.mit.edu	37	chr6	170176757	170176757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagcggcagaactacctgcGtatgtggagtaggtgcgcgc	8	7	15	11	4	0	1	0	0	0	1	0	2	0	2	2	3	5	3	2	3	4	3	rs140632188	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:170176757G>A	uc003qxg.1	+	16	1760	c.1727G>A	c.(1726-1728)CGT>CAT	p.R576H	C6orf70_uc011ehb.1_Missense_Mutation_p.R450H|C6orf70_uc003qxh.1_Intron|C6orf70_uc010kky.1_Intron|C6orf70_uc003qxi.1_Missense_Mutation_p.R224H	NM_018341	NP_060811	Q5T6L9	CF070_HUMAN	hypothetical protein LOC55780	576						integral to membrane				ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.2e-22)|BRCA - Breast invasive adenocarcinoma(81;1.49e-07)|GBM - Glioblastoma multiforme(31;0.00191)		AACTACCTGCGTATGTGGAGT	0.592													12	36					0	0	1	0	0		A	170176757	A	A	170176757	3	1	55	1	0	0	0	0	1	0	0	0	2373	1145	40	1	1789	1	C6orf70	6	170176757	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	534807	170176757	938310	606	39640											
PDCD2	5134	broad.mit.edu	37	chr6	170892652	170892652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagggtctgatgctccttgCtgcagtaatatgctttgtgg	6	15	12	8	0	1	1	0	1	1	0	2	1	2	1	1	2	4	5	1	2	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr6:170892652C>T	uc003qxw.2	-	2	546	c.467G>A	c.(466-468)AGC>AAC	p.S156N	PDCD2_uc003qxv.2_Missense_Mutation_p.S123N|PDCD2_uc003qxx.1_Missense_Mutation_p.S156N|PDCD2_uc003qxy.2_Missense_Mutation_p.S123N|PDCD2_uc003qxz.2_Missense_Mutation_p.S156N|PDCD2_uc003qya.2_Missense_Mutation_p.S123N|PDCD2_uc003qyb.1_Missense_Mutation_p.S79N	NM_002598	NP_002589	Q16342	PDCD2_HUMAN	programmed cell death 2 isoform 1	156	MYND-type.				apoptosis	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding				0		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|BRCA - Breast invasive adenocarcinoma(81;4.82e-06)|GBM - Glioblastoma multiforme(31;0.142)		ATGCTCCTTGCTGCAGTAATA	0.483													4	81					0	0	1	0	0		T	170892652	T	T	170892652	3	4	55	1	0	0	0	0	1	0	0	0	11638	797	28	2	616	2	PDCD2	6	170892652	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	715895	170892652	222415	607	39641											
HEATR2	54919	broad.mit.edu	37	chr7	803547	803547	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggagcgggtgaccgcgtcGcaccttgactggaccgcaca	7	6	14	14	5	0	2	0	2	0	0	1	4	0	4	3	3	1	2	3	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:803547G>A	uc010krz.1	+	8	1739	c.1719G>A	c.(1717-1719)TCG>TCA	p.S573S	HEATR2_uc003siz.2_Silent_p.S441S|HEATR2_uc003sja.2_Silent_p.S31S	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	573							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		TGACCGCGTCGCACCTTGACT	0.652													31	120					0	0	1	0	0		A	803547	A	A	803547	2	1	55	1	0	0	0	0	0	0	0	1	7044	1074	38	1		1	HEATR2	7	803547	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08		803547	158335116	608	39642											
MICALL2	79778	broad.mit.edu	37	chr7	1488324	1488324	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgctcagccggtcaggcAccttcaaggccaccatgtcc	9	7	10	15	1	3	1	3	0	0	1	4	1	4	1	5	3	2	2	5	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:1488324A>G	uc003skj.3	-	3	413	c.266T>C	c.(265-267)GTG>GCG	p.V89A		NM_182924	NP_891554	Q8IY33	MILK2_HUMAN	MICAL-like 2 isoform 1	89	CH.					cytoplasm|cytoskeleton	zinc ion binding			central_nervous_system(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;6.01e-15)		CCGGTCAGGCACCTTCAAGGC	0.657													4	115					0	0	1	0	0		G	1488324	G	G	1488324	3	3	55	1	0	0	0	0	1	0	0	0	9592	159	6	3	2508	3	MICALL2	7	1488324	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	684777	1488324	157650339	609	39643											
C7orf27	221927	broad.mit.edu	37	chr7	2582910	2582910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcagctcagagcccgcGccactgtctcccacaggctg	7	5	11	18	2	2	1	1	0	1	1	3	1	2	1	4	2	2	3	4	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:2582910G>A	uc003smi.2	-	6	893	c.851C>T	c.(850-852)GCG>GTG	p.A284V	C7orf27_uc003smh.3_5'Flank|C7orf27_uc003smj.1_3'UTR	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	284					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)		CAGAGCCCGCGCCACTGTCTC	0.592													12	24					0	0	1	0	0		A	2582910	A	A	2582910	3	1	55	1	0	0	0	0	1	0	0	0	2385	1087	38	1	1650	1	C7orf27	7	2582910	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1094586	2582910	156555753	610	39644											
CARD11	84433	broad.mit.edu	37	chr7	2976742	2976742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgacgatgcaggcctcccGccgcaccatctcgatcctca	7	8	9	17	4	2	1	1	1	1	0	5	3	4	1	5	1	1	3	5	1	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:2976742G>A	uc003smv.2	-	9	1674	c.1270C>T	c.(1270-1272)CGG>TGG	p.R424W		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	424	Potential.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		CAGGCCTCCCGCCGCACCATC	0.612			Mis		DLBCL								5	23					0	0	1	0	0		A	2976742	A	A	2976742	3	1	55	1	0	0	0	0	1	0	0	0	2648	1086	38	1	2262	1	CARD11	7	2976742	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	393832	2976742	156161921	611	39645											
SDK1	221935	broad.mit.edu	37	chr7	3991509	3991509	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggcggcgctgccggggagCgcttttgaaccggccagggc	5	5	19	12	5	0	1	0	1	0	0	0	3	0	2	3	6	3	2	3	6	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:3991509C>T	uc003smx.2	+	7	1246	c.1107C>T	c.(1105-1107)AGC>AGT	p.S369S		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	369	Ig-like C2-type 3.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TGCCGGGGAGCGCTTTTGAAC	0.607													7	26					0	0	1	0	0		T	3991509	T	T	3991509	2	4	55	1	0	0	0	0	0	0	0	1	13993	767	27	1		1	SDK1	7	3991509	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1014767	3991509	155147154	612	39646											
SDK1	221935	broad.mit.edu	37	chr7	4056969	4056969	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcagggcagtgaccgagTacaccttgcagggaggtaag	11	6	15	9	1	1	1	1	1	0	0	1	3	1	2	2	3	3	5	2	3	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:4056969T>C	uc003smx.2	+	17	2726	c.2587T>C	c.(2587-2589)TAC>CAC	p.Y863H	SDK1_uc010kso.2_Missense_Mutation_p.Y139H	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	863	Fibronectin type-III 2.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		AGTGACCGAGTACACCTTGCA	0.562													3	27					0	0	1	0	0		C	4056969	C	C	4056969	3	2	55	1	0	0	0	0	1	0	0	0	13993	1638	57	3	2653	3	SDK1	7	4056969	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	65460	4056969	155081694	613	39647											
FOXK1	221937	broad.mit.edu	37	chr7	4799028	4799028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccgtggcctacatgcccGcctccatcgtaacctcacag	8	7	8	18	3	1	0	1	0	0	0	3	0	2	0	6	1	4	1	6	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:4799028G>A	uc003snc.1	+	7	1508	c.1498G>A	c.(1498-1500)GCC>ACC	p.A500T	FOXK1_uc003sna.1_Missense_Mutation_p.A337T	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	forkhead box K1	500					cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		CTACATGCCCGCCTCCATCGT	0.697													8	14					0	0	1	0	0		A	4799028	A	A	4799028	3	1	55	1	0	0	0	0	1	0	0	0	6028	1087	38	1	1524	1	FOXK1	7	4799028	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	742059	4799028	154339635	614	39648											
USP42	84132	broad.mit.edu	37	chr7	6196618	6196618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggcgtcggacctttccGtgagaaaacgaaacacttac	13	7	11	10	4	0	1	0	1	0	1	2	5	1	3	2	3	3	0	2	3	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:6196618G>A	uc011jwo.1	+	16	3998	c.3875G>A	c.(3874-3876)CGT>CAT	p.R1292H	USP42_uc011jwp.1_Missense_Mutation_p.R1292H|USP42_uc011jwq.1_Missense_Mutation_p.R1099H	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	1292					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		GGACCTTTCCGTGAGAAAACG	0.557													6	11					0	0	1	0	0		A	6196618	A	A	6196618	3	1	55	1	0	0	0	0	1	0	0	0	17099	1145	40	1	2489	1	USP42	7	6196618	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1397590	6196618	152942045	615	39649											
DAGLB	221955	broad.mit.edu	37	chr7	6456489	6456489	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggagcaatgctgaaggCttggctcaaaatcccgtcgt	11	8	11	11	2	1	1	1	1	0	0	3	2	2	2	1	3	2	4	1	3	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:6456489C>A	uc003sqa.2	-	10	1452	c.1282G>T	c.(1282-1284)GCC>TCC	p.A428S	DAGLB_uc003spy.2_5'UTR|DAGLB_uc003spz.2_Missense_Mutation_p.A125S|DAGLB_uc011jwt.1_Missense_Mutation_p.A242S|DAGLB_uc011jwu.1_Missense_Mutation_p.A299S|DAGLB_uc003sqb.2_Missense_Mutation_p.A147S|DAGLB_uc003sqc.2_Missense_Mutation_p.A147S|DAGLB_uc011jwv.1_RNA|DAGLB_uc003sqd.3_Missense_Mutation_p.A387S|DAGLB_uc011jww.1_RNA	NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1	428	Cytoplasmic (Potential).				lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		ATGCTGAAGGCTTGGCTCAAA	0.453													4	38					1.23904e-05	1.29368e-05	1	1	0		A	6456489	A	A	6456489	3	1	55	1	0	0	0	0	1	0	0	0	4230	797	28	5	760	5	DAGLB	7	6456489	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	259871	6456489	152682174	616	39650											
NPVF	64111	broad.mit.edu	37	chr7	25266466	25266466	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagatctcagaggcaggttGgctgttgctccagcacttct	7	11	11	12	0	2	2	1	0	2	2	4	2	3	2	2	3	2	6	2	3	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:25266466G>A	uc003sxo.2	-	2	365	c.318C>T	c.(316-318)GCC>GCT	p.A106A		NM_022150	NP_071433	Q9HCQ7	RFRP_HUMAN	neuropeptide VF precursor	106					neuropeptide signaling pathway	extracellular region|membrane	G-protein coupled receptor activity			ovary(1)	1						GAGGCAGGTTGGCTGTTGCTC	0.488													42	101					0	0	1	0	0		A	25266466	A	A	25266466	2	1	55	1	0	0	0	0	0	0	0	1	10624	1335	47	4		4	NPVF	7	25266466	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	18809977	25266466	133872197	617	39651											
PDE1C	5137	broad.mit.edu	37	chr7	31862802	31862802	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgatcggggcacttccCtctgaaccagaggtcttgac	7	12	11	11	1	2	4	0	3	2	1	4	4	3	4	2	3	1	2	2	3	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:31862802C>A	uc003tcm.1	-	14	1936	c.1467G>T	c.(1465-1467)GAG>GAT	p.E489D	PDE1C_uc003tcn.1_Missense_Mutation_p.E489D|PDE1C_uc003tco.1_Missense_Mutation_p.E549D|PDE1C_uc003tcr.2_Missense_Mutation_p.E489D|PDE1C_uc003tcs.2_Missense_Mutation_p.E489D	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	489	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			GGGCACTTCCCTCTGAACCAG	0.458													15	41					2.31682e-05	2.41038e-05	1	1	0		A	31862802	A	A	31862802	3	1	55	1	0	0	0	0	1	0	0	0	11654	680	24	5	453	5	PDE1C	7	31862802	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6596336	31862802	127275861	618	39652											
NT5C3	51251	broad.mit.edu	37	chr7	33057165	33057165	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagccgaaaatatgaacacGgggatgctatgttgttggag	12	9	13	7	2	0	1	0	1	0	0	0	4	0	3	2	3	3	3	2	3	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:33057165G>A	uc003tdk.2	-	7	671	c.594C>T	c.(592-594)CCC>CCT	p.P198P	AVL9_uc011kai.1_Intron|NT5C3_uc003tdi.2_Silent_p.P159P|NT5C3_uc003tdj.2_Silent_p.P159P	NM_001002010	NP_001002010	Q9H0P0	5NT3_HUMAN	5'-nucleotidase, cytosolic III isoform 1	198					nucleotide metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol|endoplasmic reticulum	2'-phosphotransferase activity|5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1			GBM - Glioblastoma multiforme(11;0.0894)			ATATGAACACGGGGATGCTAT	0.383													41	69					0	0	1	0	0		A	33057165	A	A	33057165	2	1	55	1	0	0	0	0	0	0	0	1	10707	1103	39	1		1	NT5C3	7	33057165	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1194363	33057165	126081498	619	39653											
HECW1	23072	broad.mit.edu	37	chr7	43547694	43547694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcgcggaaagagctccagcGaaacaagctctacgtcacct	12	7	9	13	4	2	1	1	0	1	1	4	3	3	2	2	1	5	2	2	1	4	2	rs150833111	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:43547694G>A	uc003tid.1	+	23	4435	c.3830G>A	c.(3829-3831)CGA>CAA	p.R1277Q	HECW1_uc011kbi.1_Missense_Mutation_p.R1243Q	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1277	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GAGCTCCAGCGAAACAAGCTC	0.547													18	45					0	0	1	0	0		A	43547694	A	A	43547694	3	1	55	1	0	0	0	0	1	0	0	0	7058	1058	37	1	3912	1	HECW1	7	43547694	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	10490529	43547694	115590969	620	39654											
DBNL	28988	broad.mit.edu	37	chr7	44096401	44096401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggccgaggaggatgtggagCctgagtgcatcatggagaag	10	6	19	6	1	1	2	1	1	0	1	1	7	1	5	2	5	2	1	2	5	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:44096401C>T	uc003tjp.3	+	5	471	c.373C>T	c.(373-375)CCT>TCT	p.P125S	DBNL_uc003tjn.2_5'UTR|DBNL_uc003tjo.3_Missense_Mutation_p.P125S|DBNL_uc003tjr.3_5'UTR|DBNL_uc003tjq.3_Missense_Mutation_p.P125S|DBNL_uc011kbm.1_Missense_Mutation_p.P100S|DBNL_uc011kbn.1_Missense_Mutation_p.P22S|DBNL_uc011kbo.1_Missense_Mutation_p.P25S|DBNL_uc011kbp.1_Intron|DBNL_uc011kbq.1_Missense_Mutation_p.P50S|DBNL_uc011kbr.1_Missense_Mutation_p.P73S|DBNL_uc011kbs.1_Missense_Mutation_p.P22S	NM_001014436	NP_001014436	Q9UJU6	DBNL_HUMAN	drebrin-like isoform b	125	ADF-H.				activation of JUN kinase activity|cellular component disassembly involved in apoptosis|endocytosis|Rac protein signal transduction	cell cortex|cytoskeleton|cytosol|lamellipodium	actin binding|enzyme activator activity|identical protein binding			skin(1)	1						GGATGTGGAGCCTGAGTGCAT	0.612													11	35					0	0	1	0	0		T	44096401	T	T	44096401	3	4	55	1	0	0	0	0	1	0	0	0	4258	739	26	2	391	2	DBNL	7	44096401	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	548707	44096401	115042262	621	39655											
AEBP1	165	broad.mit.edu	37	chr7	44149688	44149688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcctccatgctgcgccacGgcctgggggcacagcgcggc	4	5	14	18	4	0	0	0	0	0	0	2	0	2	0	5	4	3	2	5	4	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:44149688G>A	uc003tkb.2	+	10	1530	c.1225G>A	c.(1225-1227)GGC>AGC	p.G409S	AEBP1_uc003tkc.3_5'Flank|AEBP1_uc003tkd.2_5'Flank	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	409	Required for DNA-binding and interaction with NFKBIA (By similarity).|F5/8 type C.				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCTGCGCCACGGCCTGGGGGC	0.637													11	34					0	0	1	0	0		A	44149688	A	A	44149688	3	1	55	1	0	0	0	0	1	0	0	0	349	1116	39	1	1263	1	AEBP1	7	44149688	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	53287	44149688	114988975	622	39656											
CAMK2B	816	broad.mit.edu	37	chr7	44286737	44286737	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accttgaggtctctgtggacGacccccatttggtgacaatg	8	11	11	11	1	1	2	0	2	1	0	2	4	1	3	3	3	0	0	3	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:44286737G>A	uc003tkq.2	-	6	606	c.396C>T	c.(394-396)GTC>GTT	p.V132V	CAMK2B_uc003tkp.2_Silent_p.V132V|CAMK2B_uc003tkx.2_Silent_p.V132V|CAMK2B_uc010kyd.2_RNA|CAMK2B_uc003tkr.2_Silent_p.V132V|CAMK2B_uc003tks.2_Silent_p.V132V|CAMK2B_uc003tku.2_Silent_p.V132V|CAMK2B_uc003tkv.2_Silent_p.V132V|CAMK2B_uc003tkt.2_Silent_p.V132V|CAMK2B_uc003tkw.2_Silent_p.V132V|CAMK2B_uc010kyc.2_Silent_p.V132V	NM_001220	NP_001211	Q13554	KCC2B_HUMAN	calcium/calmodulin-dependent protein kinase II	132	Protein kinase.				interferon-gamma-mediated signaling pathway|synaptic transmission	cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)|ovary(1)	2						CTCTGTGGACGACCCCCATTT	0.577													16	23					0	0	1	0	0		A	44286737	A	A	44286737	2	1	55	1	0	0	0	0	0	0	0	1	2603	1045	37	1		1	CAMK2B	7	44286737	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	137049	44286737	114851926	623	39657											
TBRG4	9238	broad.mit.edu	37	chr7	45145252	45145252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacttgagcttccgcatgcGccagcggacctcctgctcca	6	9	10	16	3	0	1	0	1	0	0	3	2	3	2	5	1	5	4	5	1	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:45145252G>A	uc003tmv.2	-	3	649	c.523C>T	c.(523-525)CGC>TGC	p.R175C	TBRG4_uc003tmu.2_5'UTR|TBRG4_uc003tmw.2_Missense_Mutation_p.R175C|TBRG4_uc003tmx.2_Missense_Mutation_p.R175C|TBRG4_uc011kcd.1_Missense_Mutation_p.R186C|SNORA5A_uc003tmy.2_5'Flank|SNORA5C_uc003tmz.1_5'Flank	NM_004749	NP_004740	Q969Z0	TBRG4_HUMAN	cell cycle progression 2 protein isoform 1	175					apoptosis|cell cycle arrest|cellular respiration|G1 phase of mitotic cell cycle|positive regulation of cell proliferation	mitochondrion	ATP binding|protein binding|protein kinase activity				0						TTCCGCATGCGCCAGCGGACC	0.632													16	30					0	0	1	0	0		A	45145252	A	A	45145252	3	1	55	1	0	0	0	0	1	0	0	0	15674	1087	38	1	1408	1	TBRG4	7	45145252	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	858515	45145252	113993411	624	39658											
ZPBP	11055	broad.mit.edu	37	chr7	50097612	50097612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcatattttagttgaagacGtttaacaatttcttccacag	13	15	6	7	1	1	2	0	1	1	1	2	2	2	2	1	0	2	3	1	0	5	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:50097612G>A	uc003tou.2	-	4	530	c.460C>T	c.(460-462)CGT>TGT	p.R154C	ZPBP_uc011kci.1_Missense_Mutation_p.R80C|ZPBP_uc010kyw.2_Missense_Mutation_p.R153C	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	154					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					AGTTGAAGACGTTTAACAATT	0.294													5	13					0	0	1	0	0		A	50097612	A	A	50097612	3	1	55	1	0	0	0	0	1	0	0	0	18244	1145	40	1	615	1	ZPBP	7	50097612	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4952360	50097612	109041051	625	39659											
EGFR	1956	broad.mit.edu	37	chr7	55266518	55266518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaacgcctccctcagccacCcatatgtaccatcgatgtct	10	9	6	16	2	2	1	1	0	1	1	4	2	3	1	5	0	3	1	5	0	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:55266518C>T	uc003tqk.2	+	23	3056	c.2810C>T	c.(2809-2811)CCC>CTC	p.P937L	EGFR_uc010kzg.1_Missense_Mutation_p.P892L|EGFR_uc011kco.1_Missense_Mutation_p.P884L	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	937	Cytoplasmic (Potential).|Protein kinase.				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	CCTCAGCCACCCATATGTACC	0.532		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			11	39					0	0	1	0	0		T	55266518	T	T	55266518	3	4	55	1	0	0	0	0	1	0	0	0	4973	623	22	4	3164	4	EGFR	7	55266518	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5168906	55266518	103872145	626	39660											
ZNF716	441234	broad.mit.edu	37	chr7	57529048	57529048	+	Missense_Mutation	SNP	A	G	G																															gagaattcatactggagagaAaccctacacatgtgaagaat																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:57529048A>G	uc011kdi.1	+	4	993	c.881A>G	c.(880-882)AAA>AGA	p.K294R		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						ACTGGAGAGAAACCCTACACA	0.413													3	39					0	0	1	0	0		G	57529048	G	G	57529048	3	3	55	1	0	0	0	0	1	0	0	0	18144	14	1	3	895	3	ZNF716	7	57529048	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2262530	57529048	101609615	627	39661	77	2									
ZNF716	441234	broad.mit.edu	37	chr7	57529057	57529057	+	Missense_Mutation	SNP	C	A	A																															tactggagagaaaccctacaCatgtgaagaatgtggcaaag																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:57529057C>A	uc011kdi.1	+	4	1002	c.890C>A	c.(889-891)ACA>AAA	p.T297K		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						AAACCCTACACATGTGAAGAA	0.428													3	40					1	1	1	1	0		A	57529057	A	A	57529057	3	1	55	1	0	0	0	0	1	0	0	0	18144	478	17	5	904	5	ZNF716	7	57529057	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	9	57529057	101609606	628	39662	77	2									
TYW1	55253	broad.mit.edu	37	chr7	66548503	66548503	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagccattgaaaaccatcAgaacatgattaagcagttta	17	9	8	7	0	1	3	1	2	0	1	1	4	1	4	2	1	4	2	2	1	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:66548503A>G	uc003tvn.2	+	11	1510	c.1361A>G	c.(1360-1362)CAG>CGG	p.Q454R	TYW1_uc010lai.2_RNA|TYW1_uc011kef.1_Missense_Mutation_p.Q68R	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	454					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				GAAAACCATCAGAACATGATT	0.438													12	45					0	0	1	0	0		G	66548503	G	G	66548503	3	3	55	1	0	0	0	0	1	0	0	0	16844	188	7	3	1403	3	TYW1	7	66548503	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	9019446	66548503	92590160	629	39663											
ELN	2006	broad.mit.edu	37	chr7	73477988	73477988	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggctcggaggactcggagtCggagggcttggagttccagg	6	7	20	8	3	0	0	0	0	0	0	4	5	1	5	1	8	0	3	1	8	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:73477988C>T	uc003tzw.2	+	29	2065	c.1974C>T	c.(1972-1974)GTC>GTT	p.V658V	RFC2_uc011kfa.1_Intron|ELN_uc003tzn.2_Silent_p.V652V|ELN_uc003tzz.2_Silent_p.V571V|ELN_uc003tzo.2_Silent_p.V604V|ELN_uc003tzp.2_Silent_p.V563V|ELN_uc003tzq.2_Silent_p.V516V|ELN_uc003tzr.2_RNA|ELN_uc003tzs.2_Silent_p.V633V|ELN_uc003tzt.2_Silent_p.V657V|ELN_uc003tzu.2_Silent_p.V638V|ELN_uc003tzv.2_Silent_p.V623V|ELN_uc003tzx.2_Silent_p.V642V|ELN_uc011kff.1_Silent_p.V652V|ELN_uc003tzy.2_Silent_p.V628V	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	714	Ala-rich.				blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	GACTCGGAGTCGGAGGGCTTG	0.542			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						29	49					0	0	1	0	0		T	73477988	T	T	73477988	2	4	55	1	0	0	0	0	0	0	0	1	5079	871	31	1		1	ELN	7	73477988	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6929485	73477988	85660675	630	39664											
GTF2IRD1	9569	broad.mit.edu	37	chr7	73932542	73932542	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagccagggctgctggcCgtgcaggggctgcccgaagg	6	4	20	11	2	0	0	0	0	0	0	0	2	0	1	3	6	4	4	3	6	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:73932542C>T	uc003uaq.2	+	5	888	c.495C>T	c.(493-495)GCC>GCT	p.A165A	GTF2IRD1_uc010lbq.2_Silent_p.A197A|GTF2IRD1_uc003uap.2_Silent_p.A165A|GTF2IRD1_uc003uar.1_Silent_p.A165A	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	165	GTF2I-like 1.					nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						GGCTGCTGGCCGTGCAGGGGC	0.677													3	13					0	0	1	0	0		T	73932542	T	T	73932542	2	4	55	1	0	0	0	0	0	0	0	1	6884	639	23	1		1	GTF2IRD1	7	73932542	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	454554	73932542	85206121	631	39665											
HIP1	3092	broad.mit.edu	37	chr7	75185376	75185376	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcctgcagttctttccgaAgagcagataattcctcctcc	8	13	7	13	1	1	2	0	0	1	2	6	3	6	2	5	0	2	3	5	0	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:75185376A>G	uc003uds.1	-	18	1822	c.1781T>C	c.(1780-1782)CTT>CCT	p.L594P	HIP1_uc011kfz.1_Missense_Mutation_p.L471P	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	594	Potential.				activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						TTCTTTCCGAAGAGCAGATAA	0.582			T	PDGFRB	CMML								5	245					0	0	1	0	0		G	75185376	G	G	75185376	3	3	55	1	0	0	0	0	1	0	0	0	7130	72	3	3	1388	3	HIP1	7	75185376	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1252834	75185376	83953287	632	39666											
GRM3	2913	broad.mit.edu	37	chr7	86415922	86415922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcccaacgcgcgcgtcGtggtcctcttcatgcgcagc	7	7	12	15	6	2	1	1	0	1	1	4	1	3	1	2	1	4	1	2	1	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:86415922G>A	uc003uid.2	+	3	1913	c.814G>A	c.(814-816)GTG>ATG	p.V272M	GRM3_uc010lef.2_Missense_Mutation_p.V270M|GRM3_uc010leg.2_Missense_Mutation_p.V144M|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	272	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	CGCGCGCGTCGTGGTCCTCTT	0.662													19	43					0	0	1	0	0		A	86415922	A	A	86415922	3	1	55	1	0	0	0	0	1	0	0	0	6814	1145	40	1	820	1	GRM3	7	86415922	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	11230546	86415922	72722741	633	39667											
DMTF1	9988	broad.mit.edu	37	chr7	86795920	86795920	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcagttgttgcacttccAcgtaagtcactacgtattaa	12	14	6	9	2	2	0	2	0	0	0	3	0	3	0	1	0	2	5	1	0	5	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:86795920A>G	uc003uih.2	+	4	557	c.231A>G	c.(229-231)CCA>CCG	p.P77P	DMTF1_uc003uii.2_5'UTR|DMTF1_uc003uij.2_5'UTR|DMTF1_uc011khb.1_5'UTR|DMTF1_uc003uik.2_Intron|DMTF1_uc003uil.2_Silent_p.P77P|DMTF1_uc003uim.1_Silent_p.P77P|DMTF1_uc003uin.2_5'UTR	NM_001142327	NP_001135799	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	77	Interaction with CCND2 (By similarity).				cell cycle	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(14;0.0058)					TTGCACTTCCACGTAAGTCAC	0.378													17	71					0	0	1	0	0		G	86795920	G	G	86795920	2	3	55	1	0	0	0	0	0	0	0	1	4598	173	6	3		3	DMTF1	7	86795920	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	379998	86795920	72342743	634	39668											
ABCB4	5244	broad.mit.edu	37	chr7	87046743	87046743	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctaatagcaatagggttAactgccaaccgtagataaat	15	10	8	8	1	0	1	0	0	0	1	0	1	0	1	2	1	5	4	2	1	9	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:87046743A>G	uc003uiv.1	-	21	2643	c.2567T>C	c.(2566-2568)TTA>TCA	p.L856S	ABCB4_uc003uiw.1_Missense_Mutation_p.L856S|ABCB4_uc003uix.1_Missense_Mutation_p.L856S	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	856	Helical; (By similarity).|ABC transmembrane type-1 2.				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CAATAGGGTTAACTGCCAACC	0.383													14	48					0	0	1	0	0		G	87046743	G	G	87046743	3	3	55	1	0	0	0	0	1	0	0	0	43	372	13	3	1325	3	ABCB4	7	87046743	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	250823	87046743	72091920	635	39669											
HEPACAM2	253012	broad.mit.edu	37	chr7	92837964	92837964	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgttgtaagcacagcacAcatagtccattgtcttctgg	9	14	9	9	0	2	0	0	0	2	0	3	0	3	0	1	1	2	5	1	1	2	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:92837964A>G	uc003umm.2	-	4	964	c.941T>C	c.(940-942)GTG>GCG	p.V314A	HEPACAM2_uc003uml.2_Missense_Mutation_p.V302A|HEPACAM2_uc010lff.2_Missense_Mutation_p.V302A|HEPACAM2_uc011khy.1_Missense_Mutation_p.V337A	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	314	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(3)|breast(1)|kidney(1)	5						AGCACAGCACACATAGTCCAT	0.433													25	57					0	0	1	0	0		G	92837964	G	G	92837964	3	3	55	1	0	0	0	0	1	0	0	0	7069	159	6	3	475	3	HEPACAM2	7	92837964	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	5791221	92837964	66300699	636	39670											
GNG11	2791	broad.mit.edu	37	chr7	93551517	93551517	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatggaagttgagcagcttcGcaaagaagtgaagttgcaga	15	8	13	5	1	0	4	0	2	0	2	1	5	0	5	0	1	3	6	0	1	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:93551517G>A	uc003und.2	+	1	502	c.68G>A	c.(67-69)CGC>CAC	p.R23H		NM_004126	NP_004117	P61952	GBG11_HUMAN	guanine nucleotide binding protein gamma 11	23					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway	heterotrimeric G-protein complex	GTPase activity|signal transducer activity			kidney(1)	1	all_cancers(62;2.39e-10)|all_epithelial(64;1.54e-09)|Lung NSC(181;0.218)		STAD - Stomach adenocarcinoma(171;0.000967)			GAGCAGCTTCGCAAAGAAGTG	0.473													4	10					0	0	1	0	0		A	93551517	A	A	93551517	3	1	55	1	0	0	0	0	1	0	0	0	6539	1087	38	1	70	1	GNG11	7	93551517	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	713553	93551517	65587146	637	39671											
PPP1R9A	55607	broad.mit.edu	37	chr7	94855332	94855332	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacctgtccttcctggcagCgacatggccattgaagtctt	7	11	11	12	1	1	1	0	1	1	0	3	3	3	2	4	3	1	1	4	3	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:94855332C>T	uc003unp.2	+	7	2232	c.1950C>T	c.(1948-1950)AGC>AGT	p.S650S	PPP1R9A_uc010lfj.2_Silent_p.S672S|PPP1R9A_uc011kif.1_Silent_p.S650S|PPP1R9A_uc003unq.2_Silent_p.S650S|PPP1R9A_uc011kig.1_Silent_p.S650S	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	650	Interacts with TGN38 (By similarity).					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			TTCCTGGCAGCGACATGGCCA	0.478										HNSCC(28;0.073)			19	50					0	0	1	0	0		T	94855332	T	T	94855332	2	4	55	1	0	0	0	0	0	0	0	1	12400	767	27	1		1	PPP1R9A	7	94855332	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1303815	94855332	64283331	638	39672											
LMTK2	22853	broad.mit.edu	37	chr7	97833426	97833426	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcggcgccttactcccggTtctccatctctcccgccaac	5	10	6	20	4	2	0	0	0	2	0	7	0	4	0	5	2	2	1	5	2	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:97833426T>C	uc003upd.1	+	13	4704	c.4411T>C	c.(4411-4413)TTC>CTC	p.F1471L		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	1471				Missing (in Ref. 2; BAA83031).	early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					TTACTCCCGGTTCTCCATCTC	0.632													19	72					0	0	1	0	0		C	97833426	C	C	97833426	3	2	55	1	0	0	0	0	1	0	0	0	8876	1725	60	3	4461	3	LMTK2	7	97833426	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2978094	97833426	61305237	639	39673											
TRRAP	8295	broad.mit.edu	37	chr7	98519451	98519451	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgctcggtaagtttggcGgcagtaacaggaagatgctg	9	10	16	6	2	0	1	0	0	0	1	1	2	0	2	0	4	3	6	0	4	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:98519451G>A	uc003upp.2	+	21	2907	c.2698G>A	c.(2698-2700)GGC>AGC	p.G900S	TRRAP_uc011kis.1_Missense_Mutation_p.G900S|TRRAP_uc003upr.2_Missense_Mutation_p.G592S	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	900					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TAAGTTTGGCGGCAGTAACAG	0.552													25	68					0	0	1	0	0		A	98519451	A	A	98519451	3	1	55	1	0	0	0	0	1	0	0	0	16627	1116	39	1	2776	1	TRRAP	7	98519451	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	686025	98519451	60619212	640	39674											
ZKSCAN5	23660	broad.mit.edu	37	chr7	99129277	99129277	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taacgaatgtgggaaaggctTtgggaggcgttcccacctgg	9	9	15	8	2	0	0	0	0	0	0	1	3	1	2	2	5	1	2	2	5	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:99129277T>A	uc003uqv.2	+	7	2049	c.1925T>A	c.(1924-1926)TTT>TAT	p.F642Y	ZKSCAN5_uc010lfx.2_Missense_Mutation_p.F642Y|ZKSCAN5_uc003uqw.2_Missense_Mutation_p.F642Y|ZKSCAN5_uc003uqx.2_Missense_Mutation_p.F569Y|ZKSCAN5_uc003uqy.2_Missense_Mutation_p.F378Y	NM_145102	NP_659570	Q9Y2L8	ZKSC5_HUMAN	zinc finger with KRAB and SCAN domains 5	642	C2H2-type 8.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					GGGAAAGGCTTTGGGAGGCGT	0.517													4	37					0	0	1	0	0		A	99129277	A	A	99129277	3	1	55	1	0	0	0	0	1	0	0	0	17715	1841	64	5	1947	5	ZKSCAN5	7	99129277	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	609826	99129277	60009386	641	39675											
AP4M1	9179	broad.mit.edu	37	chr7	99702715	99702715	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgtgtggggaagtcagagCtgagaggtgaggagaaagtg	11	9	19	2	0	1	4	1	2	0	3	1	7	1	5	0	4	1	1	0	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:99702715C>T	uc003utb.3	+	9	929	c.721C>T	c.(721-723)CTG>TTG	p.L241L	AP4M1_uc011kjg.1_Silent_p.L195L|AP4M1_uc010lgl.1_Silent_p.L241L|AP4M1_uc003utc.3_Silent_p.L248L|AP4M1_uc010lgm.2_Silent_p.L113L|AP4M1_uc003utd.2_Silent_p.L241L|AP4M1_uc011kjh.1_Silent_p.L193L|AP4M1_uc003ute.3_Silent_p.L16L|AP4M1_uc003utf.3_Silent_p.L113L	NM_004722	NP_004713	O00189	AP4M1_HUMAN	adaptor-related protein complex 4, mu 1 subunit	241	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|coated pit|Golgi trans cisterna	transporter activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GAAGTCAGAGCTGAGAGGTGA	0.532													17	27					0	0	1	0	0		T	99702715	T	T	99702715	2	4	55	1	0	0	0	0	0	0	0	1	753	796	28	2		2	AP4M1	7	99702715	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	573438	99702715	59435948	642	39676											
TAF6	6878	broad.mit.edu	37	chr7	99710469	99710469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctttgcccttcaggggtcCgtcttcctcctggcctggct	2	13	10	16	1	2	0	1	0	1	0	5	0	5	0	6	4	1	1	6	4	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:99710469C>T	uc003uti.2	-	6	607	c.526G>A	c.(526-528)GGA>AGA	p.G176R	TAF6_uc003utg.2_Missense_Mutation_p.G98R|TAF6_uc003uth.2_Missense_Mutation_p.G233R|TAF6_uc003utk.2_Missense_Mutation_p.G176R|TAF6_uc011kji.1_Missense_Mutation_p.G213R|TAF6_uc003utj.2_Missense_Mutation_p.G166R|TAF6_uc003utl.2_Missense_Mutation_p.G176R|TAF6_uc003utm.2_Missense_Mutation_p.G176R|TAF6_uc003utn.1_RNA	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha	176					negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TTCAGGGGTCCGTCTTCCTCC	0.617													55	123					0	0	1	0	0		T	99710469	T	T	99710469	3	4	55	1	0	0	0	0	1	0	0	0	15555	661	23	1	1547	1	TAF6	7	99710469	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	7754	99710469	59428194	643	39677											
GNB2	2783	broad.mit.edu	37	chr7	100276170	100276170	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccttctcgcgcagcggacgGctgctgctcgctggctacga	4	8	14	15	6	1	0	0	0	1	0	3	2	1	1	1	3	4	6	1	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:100276170G>A	uc003uwb.2	+	9	1122	c.849G>A	c.(847-849)CGG>CGA	p.R283R	GNB2_uc003uwc.2_Silent_p.R239R|GNB2_uc010lhd.2_Silent_p.R239R|GNB2_uc010lhe.2_Silent_p.R239R|GNB2_uc003uwd.2_Silent_p.R183R|GNB2_uc010lhf.2_Silent_p.R183R|GNB2_uc003uwe.2_Silent_p.R283R|GNB2_uc003uwf.2_Silent_p.R183R	NM_005273	NP_005264	P62879	GBB2_HUMAN	guanine nucleotide-binding protein, beta-2	283	WD 6.				cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	perinuclear region of cytoplasm|plasma membrane	GTPase activity|GTPase binding|signal transducer activity			ovary(2)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)	Ovarian(593;0.238)				GCAGCGGACGGCTGCTGCTCG	0.632													13	21					0	0	1	0	0		A	100276170	A	A	100276170	2	1	55	1	0	0	0	0	0	0	0	1	6532	1190	42	2		2	GNB2	7	100276170	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	565701	100276170	58862493	644	39678											
SLC12A9	56996	broad.mit.edu	37	chr7	100453339	100453339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttcagtcatgatcagcCgcacactggggcccgaggtc	8	8	11	14	2	3	1	3	1	0	0	4	2	3	1	2	3	1	1	2	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:100453339C>T	uc003uwp.2	+	4	470	c.328C>T	c.(328-330)CGC>TGC	p.R110C	SLC12A9_uc003uwo.1_Intron|SLC12A9_uc003uwq.2_Intron|SLC12A9_uc011kki.1_Intron|SLC12A9_uc003uwr.2_5'UTR|SLC12A9_uc003uws.2_5'UTR|SLC12A9_uc003uwt.2_5'Flank	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	110	Cytoplasmic (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					CATGATCAGCCGCACACTGGG	0.373													49	100					0	0	1	0	0		T	100453339	T	T	100453339	3	4	55	1	0	0	0	0	1	0	0	0	14415	652	23	1	338	1	SLC12A9	7	100453339	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	177169	100453339	58685324	645	39679											
MUC17	140453	broad.mit.edu	37	chr7	100676267	100676267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtcagcaccatgccggtgGccagttctgaggctagcacc	7	8	12	14	1	2	1	1	1	1	0	2	1	2	1	4	3	3	4	4	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:100676267G>A	uc003uxp.1	+	3	1623	c.1570G>A	c.(1570-1572)GCC>ACC	p.A524T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	524	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|6.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CATGCCGGTGGCCAGTTCTGA	0.493													171	391					0	0	1	0	0		A	100676267	A	A	100676267	3	1	55	1	0	0	0	0	1	0	0	0	9992	1203	42	2	1580	2	MUC17	7	100676267	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	222928	100676267	58462396	646	39680											
MUC17	140453	broad.mit.edu	37	chr7	100680055	100680055	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaccacttctactgaagcCacttcgtctcctacaactgc	9	11	6	15	1	2	2	0	2	2	0	4	2	2	2	3	0	5	0	3	0	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:100680055C>A	uc003uxp.1	+	3	5411	c.5358C>A	c.(5356-5358)GCC>GCA	p.A1786A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1786	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|28.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CTACTGAAGCCACTTCGTCTC	0.522													7	364					1.26484e-09	1.36118e-09	1	1	0		A	100680055	A	A	100680055	2	1	55	1	0	0	0	0	0	0	0	1	9992	581	21	5		5	MUC17	7	100680055	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3788	100680055	58458608	647	39681											
CDHR3	222256	broad.mit.edu	37	chr7	105642034	105642034	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacagcattaccactgttagCaaatatttcatgataaatca	16	13	4	8	0	2	1	2	1	0	0	2	1	2	1	1	0	4	3	1	0	7	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:105642034C>T	uc003vdl.3	+	7	948	c.840C>T	c.(838-840)AGC>AGT	p.S280S	CDHR3_uc003vdk.2_Intron|CDHR3_uc011kls.1_RNA|CDHR3_uc003vdm.3_Silent_p.S267S|CDHR3_uc011klt.1_Silent_p.S192S|CDHR3_uc003vdn.2_5'UTR	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	280	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						CCACTGTTAGCAAATATTTCA	0.418													7	314					0	0	1	0	0		T	105642034	T	T	105642034	2	4	55	1	0	0	0	0	0	0	0	1	3123	709	25	2		2	CDHR3	7	105642034	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4961979	105642034	53496629	648	39682											
PIK3CG	5294	broad.mit.edu	37	chr7	106523501	106523501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcgagattgtgaaagacGccacgacaattgccaaaatt	15	9	9	8	3	0	4	0	2	0	2	1	6	0	4	2	0	1	0	2	0	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:106523501G>A	uc003vdv.3	+	8	2738	c.2653G>A	c.(2653-2655)GCC>ACC	p.A885T	PIK3CG_uc003vdu.2_Missense_Mutation_p.A885T|PIK3CG_uc003vdw.2_Missense_Mutation_p.A885T	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	885	PI3K/PI4K.				G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						TGTGAAAGACGCCACGACAAT	0.478													57	112					0	0	1	0	0		A	106523501	A	A	106523501	3	1	55	1	0	0	0	0	1	0	0	0	11935	1087	38	1	2679	1	PIK3CG	7	106523501	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	881467	106523501	52615162	649	39683											
NRCAM	4897	broad.mit.edu	37	chr7	107832251	107832251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgtaggtcccgctgtcatCgtcactgacatcagctacca	8	10	9	14	3	3	1	3	1	0	0	5	1	4	1	2	1	2	3	2	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:107832251C>T	uc003vfb.2	-	18	2296	c.1825G>A	c.(1825-1827)GAT>AAT	p.D609N	NRCAM_uc003vfc.2_Missense_Mutation_p.D603N|NRCAM_uc011kmk.1_Missense_Mutation_p.D604N|NRCAM_uc003vfd.2_Missense_Mutation_p.D585N|NRCAM_uc003vfe.2_Missense_Mutation_p.D585N	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	609	Ig-like 6.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						CCGCTGTCATCGTCACTGACA	0.502													24	54					0	0	1	0	0		T	107832251	T	T	107832251	3	4	55	1	0	0	0	0	1	0	0	0	10663	884	31	1	2183	1	NRCAM	7	107832251	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1308750	107832251	51306412	650	39684											
TFEC	22797	broad.mit.edu	37	chr7	115624318	115624318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagccattagacatacatGccattgtgcattgtcatctt	11	13	6	11	0	2	1	1	0	1	1	2	1	2	1	3	0	4	1	3	0	2	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:115624318G>A	uc003vhj.1	-	2	362	c.178C>T	c.(178-180)CAT>TAT	p.H60Y	TFEC_uc003vhk.1_Missense_Mutation_p.H60Y|TFEC_uc003vhl.3_Missense_Mutation_p.H60Y|TFEC_uc011kmw.1_Missense_Mutation_p.H150Y	NM_012252	NP_036384	O14948	TFEC_HUMAN	transcription factor EC isoform a	60	Necessary for transcriptional transactivation.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			large_intestine(1)	1			STAD - Stomach adenocarcinoma(10;0.00878)			AGACATACATGCCATTGTGCA	0.368													44	87					0	0	1	0	0		A	115624318	A	A	115624318	3	1	55	1	0	0	0	0	1	0	0	0	15827	1319	46	2	893	2	TFEC	7	115624318	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	7792067	115624318	43514345	651	39685											
PTPRZ1	5803	broad.mit.edu	37	chr7	121651647	121651647	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaagttacttcagctacCgagagtgataaggtgccctt	11	10	9	11	1	1	2	1	1	0	1	1	3	1	2	3	1	4	2	3	1	4	5	rs147331896		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:121651647C>T	uc003vjy.2	+	12	2942	c.2547C>T	c.(2545-2547)ACC>ACT	p.T849T	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	849	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						CTTCAGCTACCGAGAGTGATA	0.478													20	52					0	0	1	0	0		T	121651647	T	T	121651647	2	4	55	1	0	0	0	0	0	0	0	1	12839	639	23	1		1	PTPRZ1	7	121651647	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6027329	121651647	37487016	652	39686											
IQUB	154865	broad.mit.edu	37	chr7	123101607	123101607	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaaggcaaataaagctggCaactgtggcaaaagtaaatc	18	7	10	6	0	0	1	0	0	0	1	1	1	0	1	0	3	2	5	0	3	10	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:123101607C>A	uc003vkn.2	-	11	2388	c.1811G>T	c.(1810-1812)TGC>TTC	p.C604F	IQUB_uc011kny.1_5'UTR|IQUB_uc003vko.2_Missense_Mutation_p.C604F|IQUB_uc010lkt.2_RNA	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	604										ovary(3)|large_intestine(1)	4						ATAAAGCTGGCAACTGTGGCA	0.373													10	13					2.80697e-09	3.01337e-09	1	1	0		A	123101607	A	A	123101607	3	1	55	1	0	0	0	0	1	0	0	0	7836	710	25	5	576	5	IQUB	7	123101607	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1449960	123101607	36037056	653	39687											
HYAL4	23553	broad.mit.edu	37	chr7	123516942	123516942	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcataaggaagatgtggaaCgcgcccagttaccttcactt	11	10	10	10	2	1	1	1	0	0	1	1	3	1	3	2	2	3	2	2	2	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:123516942C>T	uc003vlc.2	+	5	1817	c.1179C>T	c.(1177-1179)AAC>AAT	p.N393N	HYAL4_uc011knz.1_3'UTR	NM_012269	NP_036401	Q2M3T9	HYAL4_HUMAN	hyaluronoglucosaminidase 4	393	Extracellular (Potential).				fusion of sperm to egg plasma membrane|glycosaminoglycan catabolic process	integral to membrane	hyalurononglucosaminidase activity			skin(1)	1						AGATGTGGAACGCGCCCAGTT	0.507													9	32					0	0	1	0	0		T	123516942	T	T	123516942	2	4	55	1	0	0	0	0	0	0	0	1	7482	535	19	1		1	HYAL4	7	123516942	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	415335	123516942	35621721	654	39688											
CALU	813	broad.mit.edu	37	chr7	128399049	128399049	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggagttcacagctttcctGcaccctgaggagtatgacta	10	10	11	10	0	1	2	1	2	0	0	2	5	2	4	2	2	2	4	2	2	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:128399049G>A	uc003vns.2	+	4	692	c.540G>A	c.(538-540)CTG>CTA	p.L180L	CALU_uc003vnq.2_Silent_p.L180L|CALU_uc003vnr.2_Silent_p.L180L	NM_001130674	NP_001124146	O43852	CALU_HUMAN	calumenin isoform b precursor	180	EF-hand 3.				platelet activation|platelet degranulation	extracellular region|Golgi apparatus|melanosome|sarcoplasmic reticulum lumen	calcium ion binding|protein binding				0						CAGCTTTCCTGCACCCTGAGG	0.433													5	211					0	0	1	0	0		A	128399049	A	A	128399049	2	1	55	1	0	0	0	0	0	0	0	1	2597	1306	46	2		2	CALU	7	128399049	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4882107	128399049	30739614	655	39689											
FLNC	2318	broad.mit.edu	37	chr7	128482949	128482949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacaacgacaccttcaccGtcaagtacacgccaccaggg	13	5	8	15	3	2	1	2	1	0	0	2	2	2	1	4	1	2	1	4	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:128482949G>A	uc003vnz.3	+	16	2700	c.2491G>A	c.(2491-2493)GTC>ATC	p.V831I	FLNC_uc003voa.3_Missense_Mutation_p.V831I	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	831	Filamin 6.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CACCTTCACCGTCAAGTACAC	0.592													10	29					0	0	1	0	0		A	128482949	A	A	128482949	3	1	55	1	0	0	0	0	1	0	0	0	5949	1145	40	1	2553	1	FLNC	7	128482949	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	83900	128482949	30655714	656	39690											
FLNC	2318	broad.mit.edu	37	chr7	128486419	128486419	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagccccttccgagtgggCgtgaccgagggctgtgatcc	7	7	15	12	3	0	3	0	2	0	1	2	5	2	3	5	2	1	1	5	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:128486419C>T	uc003vnz.3	+	23	4238	c.4029C>T	c.(4027-4029)GGC>GGT	p.G1343G	FLNC_uc003voa.3_Silent_p.G1343G	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1343	Filamin 11.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						TCCGAGTGGGCGTGACCGAGG	0.637													16	21					0	0	1	0	0		T	128486419	T	T	128486419	2	4	55	1	0	0	0	0	0	0	0	1	5949	755	27	1		1	FLNC	7	128486419	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3470	128486419	30652244	657	39691											
TMEM209	84928	broad.mit.edu	37	chr7	129813694	129813694	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgtctgaacaaagtgcTgagaagtaaaagtttttccg	12	13	11	5	1	1	2	0	2	1	1	2	3	2	2	1	1	2	3	1	1	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:129813694T>C	uc003vpn.2	-	12	1553	c.1430A>G	c.(1429-1431)CAG>CGG	p.Q477R	TMEM209_uc010lmc.1_Missense_Mutation_p.Q435R	NM_032842	NP_116231	Q96SK2	TM209_HUMAN	transmembrane protein 209	477						integral to membrane				ovary(2)|large_intestine(1)	3	Melanoma(18;0.0435)					AACAAAGTGCTGAGAAGTAAA	0.378													43	125					0	0	1	0	0		C	129813694	C	C	129813694	3	2	55	1	0	0	0	0	1	0	0	0	16159	1580	55	3	271	3	TMEM209	7	129813694	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1327275	129813694	29324969	658	39692											
CPA5	93979	broad.mit.edu	37	chr7	129986424	129986424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatcctggcagcagctttggGccaaatgaatttcacagggt	10	11	11	9	0	1	1	1	1	0	0	2	1	2	1	2	3	2	3	2	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:129986424G>A	uc010lmd.1	+	4	718	c.98G>A	c.(97-99)GGC>GAC	p.G33D	CPA5_uc003vps.2_Missense_Mutation_p.G33D|CPA5_uc003vpt.2_Missense_Mutation_p.G33D|CPA5_uc010lme.1_Missense_Mutation_p.G33D|CPA5_uc003vpu.1_Missense_Mutation_p.G33D	NM_001127441	NP_001120913	Q8WXQ8	CBPA5_HUMAN	carboxypeptidase A5 isoform 1	33					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2	Melanoma(18;0.0435)					GCAGCTTTGGGCCAAATGAAT	0.652													25	51					0	0	1	0	0		A	129986424	A	A	129986424	3	1	55	1	0	0	0	0	1	0	0	0	3796	1203	42	2	100	2	CPA5	7	129986424	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	172730	129986424	29152239	659	39693											
PODXL	5420	broad.mit.edu	37	chr7	131196153	131196153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacactggatgctggagtcGgtgctgttttgttagatgag	7	14	15	5	1	0	3	0	2	0	1	1	5	0	5	0	3	2	4	0	3	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:131196153G>A	uc003vqw.3	-	2	398	c.140C>T	c.(139-141)CCG>CTG	p.P47L	PODXL_uc003vqx.3_Missense_Mutation_p.P47L	NM_001018111	NP_001018121	O00592	PODXL_HUMAN	podocalyxin-like isoform 1 precursor	47	Thr-rich.|Extracellular (Potential).				cell adhesion|epithelial tube formation|negative regulation of cell-cell adhesion|positive regulation of cell migration|positive regulation of cell-cell adhesion mediated by integrin|regulation of microvillus assembly	actin cytoskeleton|apical plasma membrane|centrosome|filopodium|integral to plasma membrane|lamellipodium|membrane raft|microvillus membrane|nucleolus|ruffle				breast(2)|pancreas(1)	3	Melanoma(18;0.162)					TGCTGGAGTCGGTGCTGTTTT	0.527													22	63					0	0	1	0	0		A	131196153	A	A	131196153	3	1	55	1	0	0	0	0	1	0	0	0	12199	1116	39	1	1568	1	PODXL	7	131196153	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1209729	131196153	27942510	660	39694											
CALD1	800	broad.mit.edu	37	chr7	134643002	134643002	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcagcaatagtctccaaGattgacagcagactggagca	15	6	10	10	0	1	3	0	1	1	2	2	4	1	4	1	1	4	4	1	1	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:134643002G>T	uc003vrz.2	+	11	2481	c.2022G>T	c.(2020-2022)AAG>AAT	p.K674N	CALD1_uc003vry.2_Missense_Mutation_p.K419N|CALD1_uc003vsa.2_Missense_Mutation_p.K445N|CALD1_uc003vsb.2_Missense_Mutation_p.K419N|CALD1_uc010lmm.2_Missense_Mutation_p.K444N|CALD1_uc011kpt.1_Missense_Mutation_p.K193N|CALD1_uc003vsc.2_Missense_Mutation_p.K439N|CALD1_uc003vsd.2_Missense_Mutation_p.K413N|CALD1_uc011kpu.1_Missense_Mutation_p.K424N|CALD1_uc011kpv.1_Missense_Mutation_p.K283N|CALD1_uc003vse.2_Missense_Mutation_p.K537N|CALD1_uc010lmn.2_5'Flank	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	674	Strong actin-binding (By similarity).|Tropomyosin-binding (Potential).				cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						TAGTCTCCAAGATTGACAGCA	0.393													21	115					3.65163e-15	4.01358e-15	1	1	0		T	134643002	T	T	134643002	3	4	55	1	0	0	0	0	1	0	0	0	2584	933	33	5	2113	5	CALD1	7	134643002	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3446849	134643002	24495661	661	39695											
KIAA1549	57670	broad.mit.edu	37	chr7	138603524	138603524	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcattaaagaccgggagcttAaaaaaagggtggtttccaca	15	8	11	7	1	0	1	0	0	0	1	1	2	1	2	2	3	1	3	2	3	6	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:138603524A>T	uc011kql.1	-	2	897	c.848T>A	c.(847-849)TTA>TAA	p.L283*	KIAA1549_uc003vuk.3_Nonsense_Mutation_p.L233*|KIAA1549_uc011kqj.1_Nonsense_Mutation_p.L283*	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	283						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						CCGGGAGCTTAAAAAAAGGGT	0.517			O	BRAF	pilocytic astrocytoma								3	9					0	0	1	0	0		T	138603524	T	T	138603524	4	4	55	1	0	0	0	0	0	1	0	0	8260	372	13	5	5080	5	KIAA1549	7	138603524	Nonsense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	3960522	138603524	20535139	662	39696											
FAM115A	9747	broad.mit.edu	37	chr7	143573697	143573697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaggcagcagagggagtcGccatggctctattggtttct	8	10	14	9	2	2	1	0	0	2	1	3	3	2	2	1	4	1	4	1	4	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:143573697G>A	uc003wdo.1	-	2	138	c.5C>T	c.(4-6)GCG>GTG	p.A2V	FAM115A_uc011ktu.1_Intron|FAM115A_uc003wdp.1_Missense_Mutation_p.A2V	NM_014719	NP_055534	Q9Y4C2	F115A_HUMAN	hypothetical protein LOC9747	2											0	Melanoma(164;0.0903)					AGAGGGAGTCGCCATGGCTCT	0.473													14	33					0	0	1	0	0		A	143573697	A	A	143573697	3	1	55	1	0	0	0	0	1	0	0	0	5416	1087	38	1	2792	1	FAM115A	7	143573697	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4970173	143573697	15564966	663	39697											
OR2A2	442361	broad.mit.edu	37	chr7	143806930	143806930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagatgttggcaaacctaatGaaccagaaaagaaccatctc	18	7	7	9	0	1	4	0	1	1	3	2	4	1	4	3	1	3	2	3	1	7	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:143806930G>A	uc011ktz.1	+	1	255	c.255G>A	c.(253-255)ATG>ATA	p.M85I		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					CAAACCTAATGAACCAGAAAA	0.428													25	113					0	0	1	0	0		A	143806930	A	A	143806930	3	1	55	1	0	0	0	0	1	0	0	0	10996	1290	45	4	257	4	OR2A2	7	143806930	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	233233	143806930	15331733	664	39698											
TPK1	27010	broad.mit.edu	37	chr7	144150649	144150649	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaacaggttagcttttgaTggccatggtccagaggagtg	9	11	14	7	0	1	2	1	1	0	1	2	3	2	3	2	4	2	2	2	4	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:144150649T>C	uc003weq.2	-	9	824	c.721A>G	c.(721-723)ATC>GTC	p.I241V	TPK1_uc003weo.2_Missense_Mutation_p.I187V|TPK1_uc003wep.2_RNA|TPK1_uc003wer.2_Missense_Mutation_p.I192V|TPK1_uc003wes.2_RNA	NM_022445	NP_071890	Q9H3S4	TPK1_HUMAN	thiamin pyrophosphokinase 1 isoform a	241					thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)	TAGCTTTTGATGGCCATGGTC	0.478													38	121					0	0	1	0	0		C	144150649	C	C	144150649	3	2	55	1	0	0	0	0	1	0	0	0	16430	1464	51	3	14	3	TPK1	7	144150649	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	343719	144150649	14988014	665	39699											
CNTNAP2	26047	broad.mit.edu	37	chr7	147092804	147092804	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcaacttgtaaatttataCgaagtggcacaaaggaagcc	16	9	9	7	1	1	0	1	0	0	0	1	3	1	1	1	2	3	2	1	2	8	5	rs144620232		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:147092804C>T	uc003weu.1	+	10	2118	c.1602C>T	c.(1600-1602)TAC>TAT	p.Y534Y		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	534	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TAAATTTATACGAAGTGGCAC	0.433										HNSCC(39;0.1)			25	87					0	0	1	0	0		T	147092804	T	T	147092804	2	4	55	1	0	0	0	0	0	0	0	1	3650	547	19	1		1	CNTNAP2	7	147092804	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2942155	147092804	12045859	666	39700											
CUL1	8454	broad.mit.edu	37	chr7	148485686	148485686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacacctctaaacttcagcGcatgtttcaagacattggcg	11	11	8	11	2	3	1	2	0	1	1	3	1	3	1	1	1	3	3	1	1	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:148485686G>A	uc010lpg.2	+	14	2043	c.1517G>A	c.(1516-1518)CGC>CAC	p.R506H	CUL1_uc003wey.2_Missense_Mutation_p.R506H|CUL1_uc003wez.2_Missense_Mutation_p.R396H|CUL1_uc003wfa.2_Missense_Mutation_p.R167H	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	506					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			AAACTTCAGCGCATGTTTCAA	0.418													21	63					0	0	1	0	0		A	148485686	A	A	148485686	3	1	55	1	0	0	0	0	1	0	0	0	4057	1087	38	1	1567	1	CUL1	7	148485686	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1392882	148485686	10652977	667	39701											
SSPO	23145	broad.mit.edu	37	chr7	149475868	149475868	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgacctctttctgtgcccAgggctgagcctgcaatggct	6	11	12	12	0	2	2	0	2	2	0	2	2	2	2	3	2	3	3	3	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:149475868A>G	uc010lpk.2	+	7	836	c.836_splice	c.e7-2	p.G279_splice	SSPO_uc010lpl.1_Splice_Site	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor						cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TTCTGTGCCCAGGGCTGAGCC	0.622													3	22					0	0	1	0	0		G	149475868	G	G	149475868	5	3	55	1	0	0	0	0	0	0	1	0	15214	202	7	3	860	3	SSPO	7	149475868	Splice_Site	SNP	A	TCGA-BR-7851-01A-11D-2201-08	990182	149475868	9662795	668	39702											
SSPO	23145	broad.mit.edu	37	chr7	149515744	149515744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccaatccctcccccaggtgGctggggcccatggtcctcct	4	8	10	19	0	0	0	0	0	0	0	4	0	4	0	7	5	0	1	7	5	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:149515744G>A	uc010lpk.2	+	84	11645	c.11645G>A	c.(11644-11646)GGC>GAC	p.G3882D		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3882	TSP type-1 16.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCCCCAGGTGGCTGGGGCCCA	0.701													18	27					0	0	1	0	0		A	149515744	A	A	149515744	3	1	55	1	0	0	0	0	1	0	0	0	15214	1203	42	2	11969	2	SSPO	7	149515744	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	39876	149515744	9622919	669	39703											
KCNH2	3757	broad.mit.edu	37	chr7	150648197	150648197	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgttgccgaagatgctagCatacatgagggctgggggcg	9	7	16	9	3	0	2	0	1	0	1	0	3	0	2	1	3	4	4	1	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:150648197C>T	uc003wic.2	-	8	1970	c.1957G>A	c.(1957-1959)GCT>ACT	p.A653T	KCNH2_uc003wib.2_Missense_Mutation_p.A313T|KCNH2_uc011kux.1_Missense_Mutation_p.A557T|KCNH2_uc003wid.2_Missense_Mutation_p.A313T|KCNH2_uc003wie.2_Missense_Mutation_p.A653T	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	653	Helical; Name=Segment S6; (Potential).				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	AAGATGCTAGCATACATGAGG	0.667													5	27					0	0	1	0	0		T	150648197	T	T	150648197	3	4	55	1	0	0	0	0	1	0	0	0	8048	710	25	2	1823	2	KCNH2	7	150648197	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1132453	150648197	8490466	670	39704											
ABCB8	11194	broad.mit.edu	37	chr7	150733214	150733214	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcagaggagctgggccgCggcatcgccttgttccaagg	6	6	17	12	4	0	1	0	0	0	1	2	2	1	2	3	5	1	4	3	5	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:150733214C>T	uc003wil.3	+	9	1212	c.1119C>T	c.(1117-1119)CGC>CGT	p.R373R	ABCB8_uc003wii.2_Silent_p.R393R|ABCB8_uc003wij.3_Silent_p.R356R|ABCB8_uc010lpw.1_Missense_Mutation_p.R257W|ABCB8_uc010lpx.2_Silent_p.R356R|ABCB8_uc011kvd.1_Silent_p.R268R|ABCB8_uc003wim.3_Silent_p.R151R|ABCB8_uc003wik.3_Silent_p.R356R	NM_007188	NP_009119	Q9NUT2	ABCB8_HUMAN	ATP-binding cassette, sub-family B, member 8	373	ABC transmembrane type-1.					ATP-binding cassette (ABC) transporter complex|integral to membrane|membrane fraction|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGCTGGGCCGCGGCATCGCCT	0.657													7	12					0	0	1	0	0		T	150733214	T	T	150733214	2	4	55	1	0	0	0	0	0	0	0	1	47	755	27	1		1	ABCB8	7	150733214	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	85017	150733214	8405449	671	39705											
GBX1	2636	broad.mit.edu	37	chr7	150864391	150864391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagaaggtgttggtaaggCggccggcgaaagaggctagc	10	5	18	8	4	0	2	0	0	0	2	0	3	0	2	1	6	1	4	1	6	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:150864391C>T	uc011kvg.1	-	1	477	c.245G>A	c.(244-246)CGC>CAC	p.R82H		NM_001098834	NP_001092304	Q14549	GBX1_HUMAN	gastrulation brain homeo box 1	82	Ala-rich.|Pro-rich.					nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GTTGGTAAGGCGGCCGGCGAA	0.741													3	4					0	0	1	0	0		T	150864391	T	T	150864391	3	4	55	1	0	0	0	0	1	0	0	0	6295	768	27	1	853	1	GBX1	7	150864391	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	131177	150864391	8274272	672	39706											
NUB1	51667	broad.mit.edu	37	chr7	151052933	151052933	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacaatctgaagaggacgcGaggaaaaacttccagttaga	18	6	10	7	2	1	3	0	1	1	2	2	6	2	5	1	2	2	1	1	2	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:151052933G>A	uc003wjx.2	+	6	572	c.567G>A	c.(565-567)GCG>GCA	p.A189A	NUB1_uc003wjv.2_RNA|NUB1_uc003wjw.2_Silent_p.A165A|NUB1_uc010lqb.2_RNA|NUB1_uc003wjy.2_RNA|NUB1_uc011kvj.1_Intron|NUB1_uc010lqc.2_RNA	NM_016118	NP_057202	Q9Y5A7	NUB1_HUMAN	NEDD8 ultimate buster-1	165	Potential.				positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|response to interferon-gamma|response to tumor necrosis factor|ubiquitin-dependent protein catabolic process	nucleus	protein binding				0			OV - Ovarian serous cystadenocarcinoma(82;0.00569)	UCEC - Uterine corpus endometrioid carcinoma (81;0.172)		AAGAGGACGCGAGGAAAAACT	0.423													3	8					0	0	1	0	0		A	151052933	A	A	151052933	2	1	55	1	0	0	0	0	0	0	0	1	10733	1045	37	1		1	NUB1	7	151052933	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	188542	151052933	8085730	673	39707											
WDR86	349136	broad.mit.edu	37	chr7	151093119	151093119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggccgcggcctcctccgCgcagggagtgctggggaggt	3	5	18	15	5	0	0	0	0	0	0	2	2	2	2	5	6	1	2	5	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:151093119C>T	uc003wkb.2	-	3	918	c.469G>A	c.(469-471)GCG>ACG	p.A157T	WDR86_uc003wka.2_Missense_Mutation_p.A115T|WDR86_uc011kvk.1_Missense_Mutation_p.A157T|WDR86_uc003wkc.2_Missense_Mutation_p.A29T	NM_198285	NP_938026	Q86TI4	WDR86_HUMAN	WD repeat domain 86	157	WD 4.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00419)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCCTCCTCCGCGCAGGGAGTG	0.706													3	7					0	0	1	0	0		T	151093119	T	T	151093119	3	4	55	1	0	0	0	0	1	0	0	0	17360	768	27	1	677	1	WDR86	7	151093119	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	40186	151093119	8045544	674	39708											
GALNT11	63917	broad.mit.edu	37	chr7	151791456	151791456	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaggggtctgggccccaCggaccatctccaaaaaaatt	12	7	10	12	1	3	0	1	0	2	0	4	1	3	1	4	4	0	0	4	4	4	1	rs150180913	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:151791456C>T	uc010lqg.1	+	2	374	c.144C>T	c.(142-144)CAC>CAT	p.H48H	GALNT11_uc011kvm.1_Intron|GALNT11_uc003wku.2_Silent_p.H48H|GALNT11_uc003wkv.1_Silent_p.H48H|GALNT11_uc011kvn.1_RNA	NM_022087	NP_071370	Q8NCW6	GLT11_HUMAN	N-acetylgalactosaminyltransferase 11	48	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.214)	OV - Ovarian serous cystadenocarcinoma(82;0.00168)	UCEC - Uterine corpus endometrioid carcinoma (81;0.177)|BRCA - Breast invasive adenocarcinoma(188;0.0932)		CTGGGCCCCACGGACCATCTC	0.468													26	63					0	0	1	0	0		T	151791456	T	T	151791456	2	4	55	1	0	0	0	0	0	0	0	1	6224	535	19	1		1	GALNT11	7	151791456	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	698337	151791456	7347207	675	39709											
HTR5A	3361	broad.mit.edu	37	chr7	154863133	154863133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccgctgtcatctctctggCcccgctgctttttggctggg	1	14	11	15	2	3	0	1	0	2	0	5	0	4	0	3	3	1	4	3	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:154863133C>T	uc003wlu.1	+	1	588	c.524C>T	c.(523-525)GCC>GTC	p.A175V	uc011kvt.1_5'UTR|uc003wlt.2_5'UTR	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	175	Helical; Name=4; (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		ATCTCTCTGGCCCCGCTGCTT	0.632													10	38					0	0	1	0	0		T	154863133	T	T	154863133	3	4	55	1	0	0	0	0	1	0	0	0	7466	739	26	2	526	2	HTR5A	7	154863133	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3071677	154863133	4275530	676	39710											
HTR5A	3361	broad.mit.edu	37	chr7	154863297	154863297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacaaggctgccaagttcCgcgtgggctccaggaagacc	9	7	12	13	2	1	1	0	0	1	1	3	2	3	2	4	3	2	3	4	3	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:154863297C>T	uc003wlu.1	+	1	752	c.688C>T	c.(688-690)CGC>TGC	p.R230C	uc011kvt.1_5'Flank|uc003wlt.2_5'Flank	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	230	Cytoplasmic (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		TGCCAAGTTCCGCGTGGGCTC	0.542													12	27					0	0	1	0	0		T	154863297	T	T	154863297	3	4	55	1	0	0	0	0	1	0	0	0	7466	652	23	1	690	1	HTR5A	7	154863297	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	164	154863297	4275366	677	39711											
NOM1	64434	broad.mit.edu	37	chr7	156743110	156743110	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagccctggagtctgggAaaaatagcggcttgtacgac	10	8	15	8	2	1	0	0	0	1	0	1	4	1	3	1	4	3	2	1	4	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr7:156743110A>G	uc003wmy.2	+	1	694	c.679A>G	c.(679-681)AAA>GAA	p.K227E		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	227	Necessary for nucleolar localization and for targeting PPP1CA to the nucleolus.				RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		GGAGTCTGGGAAAAATAGCGG	0.522													25	45					0	0	1	0	0		G	156743110	G	G	156743110	3	3	55	1	0	0	0	0	1	0	0	0	10549	247	9	3	681	3	NOM1	7	156743110	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1879813	156743110	2395553	678	39712											
DLGAP2	9228	broad.mit.edu	37	chr8	1645408	1645408	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtcagcatgaagttcgaCgagctgcagcggctgcggct	8	7	15	11	5	1	1	1	1	0	0	2	4	1	1	0	2	5	6	0	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:1645408C>T	uc003wpl.2	+	11	2749	c.2652C>T	c.(2650-2652)GAC>GAT	p.D884D	DLGAP2_uc003wpm.2_Silent_p.D870D	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	963					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		TGAAGTTCGACGAGCTGCAGC	0.632													19	44					0	0	1	0	0		T	1645408	T	T	1645408	2	4	55	1	0	0	0	0	0	0	0	1	4566	535	19	1		1	DLGAP2	8	1645408	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08		1645408	144718614	679	39713											
ARHGEF10	9639	broad.mit.edu	37	chr8	1808263	1808263	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttggtgcctgtaccctgcGgctatgcggtgccctccaac	5	10	11	15	2	0	0	0	0	0	0	1	0	1	0	4	3	6	2	4	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:1808263G>T	uc003wpr.2	+	4	572	c.394G>T	c.(394-396)GGC>TGC	p.G132C	ARHGEF10_uc003wpq.1_Missense_Mutation_p.G156C|ARHGEF10_uc003wps.2_Missense_Mutation_p.G132C|ARHGEF10_uc003wpt.2_Missense_Mutation_p.G46C|ARHGEF10_uc010lrd.1_Missense_Mutation_p.G46C|ARHGEF10_uc003wpu.2_Missense_Mutation_p.G46C	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	156					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TGTACCCTGCGGCTATGCGGT	0.662													24	47					3.28513e-13	3.58824e-13	1	1	0		T	1808263	T	T	1808263	3	4	55	1	0	0	0	0	1	0	0	0	894	1116	39	5	404	5	ARHGEF10	8	1808263	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	162855	1808263	144555759	680	39714											
RP1L1	94137	broad.mit.edu	37	chr8	10467651	10467651	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtttcctctaactgcacCgcctcttcttgcagcccttc	5	15	5	16	1	3	0	0	0	3	0	5	0	4	0	4	0	4	3	4	0	2	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:10467651C>T	uc003wtc.2	-	4	4186	c.3957G>A	c.(3955-3957)GCG>GCA	p.A1319A		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1319					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		ctaactgcaccgcctcttctt	0.144													5	15					0	0	1	0	0		T	10467651	T	T	10467651	2	4	55	1	0	0	0	0	0	0	0	1	13558	639	23	1		1	RP1L1	8	10467651	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	8659388	10467651	135896371	681	39715											
XKR6	286046	broad.mit.edu	37	chr8	11058405	11058405	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggtagtagtcgagggccagCcacaggtcggtgcccacgtc	7	6	15	13	4	0	0	0	0	0	0	3	1	0	0	3	4	2	2	3	4	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:11058405C>T	uc003wtk.1	-	1	471	c.444G>A	c.(442-444)TGG>TGA	p.W148*		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	148	Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		CGAGGGCCAGCCACAGGTCGG	0.597													30	47					0	0	1	0	0		T	11058405	T	T	11058405	4	4	55	1	0	0	0	0	0	1	0	0	17461	740	26	2	1493	2	XKR6	8	11058405	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	590754	11058405	135305617	682	39716											
DLC1	10395	broad.mit.edu	37	chr8	12946207	12946207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcctcagagggggtccttCgctcacctggaaagaggatg	10	7	14	10	1	2	2	2	0	0	2	4	4	3	4	3	4	1	1	3	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:12946207C>T	uc003wwm.2	-	16	4525	c.4081G>A	c.(4081-4083)GAA>AAA	p.E1361K	DLC1_uc003wwk.1_Missense_Mutation_p.E924K|DLC1_uc003wwl.1_Missense_Mutation_p.E958K|DLC1_uc011kxx.1_Missense_Mutation_p.E850K	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1361	START.				actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GGGGGTCCTTCGCTCACCTGG	0.443													15	26					0	0	1	0	0		T	12946207	T	T	12946207	3	4	55	1	0	0	0	0	1	0	0	0	4556	893	31	1	517	1	DLC1	8	12946207	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1887802	12946207	133417815	683	39717											
MTMR7	9108	broad.mit.edu	37	chr8	17230724	17230724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcttttttaggagacactCgatctaccaagcggacattt	10	13	8	10	2	1	1	0	0	1	1	2	4	1	2	1	2	3	1	1	2	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:17230724C>T	uc003wxm.2	-	2	289	c.50G>A	c.(49-51)CGA>CAA	p.R17Q		NM_004686	NP_004677	Q9Y216	MTMR7_HUMAN	myotubularin related protein 7	17							protein tyrosine phosphatase activity			skin(1)	1				Colorectal(111;0.112)		AGGAGACACTCGATCTACCAA	0.403													7	33					0	0	1	0	0		T	17230724	T	T	17230724	3	4	55	1	0	0	0	0	1	0	0	0	9966	884	31	1	1984	1	MTMR7	8	17230724	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4284517	17230724	129133298	684	39718											
LPL	4023	broad.mit.edu	37	chr8	19811791	19811791	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcatgttgacatttacccGaatggaggtacttttcagcc	9	12	11	9	1	1	1	1	1	0	0	1	3	1	2	2	3	3	3	2	3	3	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:19811791G>A	uc003wzk.3	+	5	1072	c.702G>A	c.(700-702)CCG>CCA	p.P234P		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor	234			P -> L (in LPL deficiency; loss of activity).		fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	ACATTTACCCGAATGGAGGTA	0.438													22	51					0	0	1	0	0		A	19811791	A	A	19811791	2	1	55	1	0	0	0	0	0	0	0	1	8939	1045	37	1		1	LPL	8	19811791	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2581067	19811791	126552231	685	39719											
TNFRSF10D	8793	broad.mit.edu	37	chr8	23002132	23002132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactcgtgaaggacatgaaCgccgccggaaaaggaccttg	13	5	13	10	4	0	2	0	2	0	0	1	6	0	5	3	3	2	0	3	3	5	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:23002132C>T	uc003xcz.1	-	7	877	c.785G>A	c.(784-786)CGT>CAT	p.R262H		NM_003840	NP_003831	Q9UBN6	TR10D_HUMAN	tumor necrosis factor receptor superfamily,	262	Cytoplasmic (Potential).				anti-apoptosis|apoptosis	integral to membrane	TRAIL binding|transmembrane receptor activity				0		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0147)|COAD - Colon adenocarcinoma(73;0.0612)		AGGACATGAACGCCGCCGGAA	0.597													8	23					0	0	1	0	0		T	23002132	T	T	23002132	3	4	55	1	0	0	0	0	1	0	0	0	16308	536	19	1	387	1	TNFRSF10D	8	23002132	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3190341	23002132	123361890	686	39720											
LOXL2	4017	broad.mit.edu	37	chr8	23155616	23155616	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctcaaactttttttccgtCtcttcgctgaaggaaccacc	8	14	6	13	2	2	1	1	1	1	0	5	2	3	2	3	1	3	2	3	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:23155616C>T	uc003xdh.1	-	14	2604	c.2265G>A	c.(2263-2265)GAG>GAA	p.E755E	LOXL2_uc010lty.1_Missense_Mutation_p.R257K	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	755					aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		TTTTTTCCGTCTCTTCGCTGA	0.557													11	28					0	0	1	0	0		T	23155616	T	T	23155616	2	4	55	1	0	0	0	0	0	0	0	1	8918	912	32	4		4	LOXL2	8	23155616	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	153484	23155616	123208406	687	39721											
NEFL	4747	broad.mit.edu	37	chr8	24811732	24811732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatccaaagccatcttcaCgttgaggaggtcttggtatt	11	13	9	8	1	3	1	1	1	2	0	4	2	4	2	2	3	1	2	2	3	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:24811732C>T	uc003xee.2	-	2	1234	c.1132G>A	c.(1132-1134)GTG>ATG	p.V378M		NM_006158	NP_006149	P07196	NFL_HUMAN	neurofilament, light polypeptide 68kDa	378	Rod.|Coil 2B.				anterograde axon cargo transport|axon transport of mitochondrion|neurofilament bundle assembly|retrograde axon cargo transport|synaptic transmission	cytosol|neurofilament	identical protein binding|protein C-terminus binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.00965)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		GCCATCTTCACGTTGAGGAGG	0.398													51	105					0	0	1	0	0		T	24811732	T	T	24811732	3	4	55	1	0	0	0	0	1	0	0	0	10334	536	19	1	512	1	NEFL	8	24811732	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1656116	24811732	121552290	688	39722											
EBF2	64641	broad.mit.edu	37	chr8	25890600	25890600	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaatcactttttccccctaCctgtcaattatgactgggtc	10	14	5	12	0	2	1	2	1	0	0	4	1	3	1	3	1	1	0	3	1	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:25890600C>T	uc003xes.1	-	6	568	c.551_splice	c.e6+1	p.R184_splice	PPP2R2A_uc003xek.2_Intron|EBF2_uc003xet.1_Silent_p.R184R	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		TTTCCCCCTACCTGTCAATTA	0.428													6	67					0	0	1	0	0		T	25890600	T	T	25890600	5	4	55	1	0	0	0	0	0	0	1	0	4887	521	18	4	1219	4	EBF2	8	25890600	Splice_Site	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1078868	25890600	120473422	689	39723											
PNMA2	10687	broad.mit.edu	37	chr8	26365784	26365784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagaatactcgcagtttcCggtatctcatgggtagcagg	9	11	12	9	2	1	1	1	1	1	1	4	2	2	1	1	3	2	5	1	3	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:26365784C>T	uc003xez.2	-	3	1258	c.488G>A	c.(487-489)CGG>CAG	p.R163Q		NM_007257	NP_009188	Q9UL42	PNMA2_HUMAN	paraneoplastic antigen MA2	163					apoptosis	nucleolus	protein binding				0		all_cancers(63;0.109)|Ovarian(32;2.61e-05)|all_epithelial(46;0.105)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0196)|Epithelial(17;3.13e-11)|Colorectal(74;0.123)		tcgcagtttccggtatctcat	0													18	41					0	0	1	0	0		T	26365784	T	T	26365784	3	4	55	1	0	0	0	0	1	0	0	0	12173	652	23	1	610	1	PNMA2	8	26365784	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	475184	26365784	119998238	690	39724											
ADRA1A	148	broad.mit.edu	37	chr8	26721683	26721683	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcgttttggccgctttCttctcccgggagaacttgag	5	12	11	13	3	2	2	0	1	2	1	3	3	2	2	3	2	2	2	3	2	1	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:26721683C>A	uc003xfh.1	-	1	1240	c.804G>T	c.(802-804)AAG>AAT	p.K268N	ADRA1A_uc003xfc.1_Missense_Mutation_p.K268N|ADRA1A_uc010lul.1_Missense_Mutation_p.K268N|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.K268N|ADRA1A_uc010lum.1_Missense_Mutation_p.K268N|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.K268N	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	268	Cytoplasmic (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	TGGCCGCTTTCTTCTCCCGGG	0.582													8	19					2.17888e-05	2.27226e-05	1	1	0		A	26721683	A	A	26721683	3	1	55	1	0	0	0	0	1	0	0	0	334	912	32	5	895	5	ADRA1A	8	26721683	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	355899	26721683	119642339	691	39725											
ELP3	55140	broad.mit.edu	37	chr8	27965470	27965470	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctgattttgagtattccAcccagtcttacactggctat	9	16	6	10	0	2	2	0	2	2	0	3	2	3	2	2	1	1	2	2	1	3	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:27965470A>G	uc003xgo.3	+	5	518	c.370A>G	c.(370-372)ACC>GCC	p.T124A	ELP3_uc003xgn.3_Missense_Mutation_p.T109A|ELP3_uc011laq.1_Missense_Mutation_p.T52A|ELP3_uc011lar.1_Missense_Mutation_p.T32A|ELP3_uc011las.1_Intron|ELP3_uc011lat.1_Intron	NM_018091	NP_060561	Q9H9T3	ELP3_HUMAN	elongation protein 3 homolog	124					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	histone acetyltransferase activity|iron-sulfur cluster binding|metal ion binding|phosphorylase kinase regulator activity|protein binding				0		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.151)|Colorectal(74;0.183)		TGAGTATTCCACCCAGTCTTA	0.423													6	46					0	0	1	0	0		G	27965470	G	G	27965470	3	3	55	1	0	0	0	0	1	0	0	0	5089	159	6	3	388	3	ELP3	8	27965470	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1243787	27965470	118398552	692	39726											
INTS9	55756	broad.mit.edu	37	chr8	28707759	28707759	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagcatttccatccttcaGggaccagccaggaagattgg	12	8	11	10	0	1	1	1	0	0	1	3	4	3	3	4	3	2	1	4	3	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:28707759G>T	uc003xha.2	-	3	468	c.169C>A	c.(169-171)CTG>ATG	p.L57M	INTS9_uc011lav.1_Missense_Mutation_p.L33M|INTS9_uc011law.1_Missense_Mutation_p.L57M|INTS9_uc011lax.1_Translation_Start_Site|INTS9_uc010lvc.2_RNA|INTS9_uc003xhb.2_Missense_Mutation_p.L57M	NM_018250	NP_060720	Q9NV88	INT9_HUMAN	integrator complex subunit 9 isoform 1	57					snRNA processing	integrator complex	protein binding			central_nervous_system(1)|pancreas(1)	2		Ovarian(32;0.0439)		KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.152)		CCATCCTTCAGGGACCAGCCA	0.393													5	156					5.18039e-06	5.43151e-06	1	1	0		T	28707759	T	T	28707759	3	4	55	1	0	0	0	0	1	0	0	0	7801	991	35	5	1867	5	INTS9	8	28707759	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	742289	28707759	117656263	693	39727											
TEX15	56154	broad.mit.edu	37	chr8	30702947	30702947	+	Frame_Shift_Del	DEL	A	-	-																															catatttactagtgctagatAaaaatgctgtatcaatttga																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:30702947delA	uc003xil.2	-	1	3587	c.3587delT	c.(3586-3588)TTAfs	p.L1196fs		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1196										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		AGTGCTAGATAAAAATGCTGT	0.318													4	7	---	---	---	---						.	-	30702947	-	-	30702947	7	5	55	1	0	1	0	1	0	0	0	0	15804	372	13	0	4798	0	TEX15	8	30702947	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	1995188	30702947	115661075	694	39728											
TEX15	56154	broad.mit.edu	37	chr8	30703130	30703130	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtggaggatacaggcaacTgtgattcaggatgttcttga	11	12	13	5	0	2	2	1	2	1	0	2	5	2	5	0	4	2	2	0	4	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:30703130T>C	uc003xil.2	-	1	3404	c.3404A>G	c.(3403-3405)CAG>CGG	p.Q1135R		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1135	Ser-rich.									ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TACAGGCAACTGTGATTCAGG	0.403													6	53					0	0	1	0	0		C	30703130	C	C	30703130	3	2	55	1	0	0	0	0	1	0	0	0	15804	1580	55	3	4981	3	TEX15	8	30703130	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	183	30703130	115660892	695	39729											
KCNU1	157855	broad.mit.edu	37	chr8	36768479	36768479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttattctggagacctccatgCggccaacatagagcaatgct	11	10	9	11	1	1	2	0	0	1	2	2	3	2	2	3	2	4	2	3	2	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:36768479C>T	uc010lvw.2	+	22	2450	c.2363C>T	c.(2362-2364)GCG>GTG	p.A788V	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	788	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		GACCTCCATGCGGCCAACATA	0.522													25	76					0	0	1	0	0		T	36768479	T	T	36768479	3	4	55	1	0	0	0	0	1	0	0	0	8109	768	27	1	2449	1	KCNU1	8	36768479	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6065349	36768479	109595543	696	39730											
ASH2L	9070	broad.mit.edu	37	chr8	37986395	37986395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctatggacagggagacGtcctgggattttatattaat	10	13	12	6	1	0	1	0	0	0	1	1	4	1	3	1	4	0	1	1	4	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:37986395G>A	uc003xkt.3	+	12	1511	c.1453G>A	c.(1453-1455)GTC>ATC	p.V485I	ASH2L_uc011lbk.1_Missense_Mutation_p.V346I|ASH2L_uc003xku.3_Missense_Mutation_p.V391I|ASH2L_uc010lwa.2_Missense_Mutation_p.V391I	NM_004674	NP_004665	Q9UBL3	ASH2L_HUMAN	ash2-like isoform a	485	B30.2/SPRY.				hemopoiesis|histone H3-K4 methylation|positive regulation of cell proliferation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription from RNA polymerase II promoter	Set1C/COMPASS complex	metal ion binding|protein binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2	Colorectal(12;0.000501)	Lung NSC(58;0.0295)|all_lung(54;0.0413)				ACAGGGAGACGTCCTGGGATT	0.443													97	199					0	0	1	0	0		A	37986395	A	A	37986395	3	1	55	1	0	0	0	0	1	0	0	0	1043	1145	40	1	1499	1	ASH2L	8	37986395	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1217916	37986395	108377627	697	39731											
LETM2	137994	broad.mit.edu	37	chr8	38257862	38257862	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaagaaaccatgacagaaAtggcaaggaggaacagagcc	18	4	11	8	0	1	4	1	1	0	3	1	6	1	6	2	3	3	1	2	3	5	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:38257862A>T	uc003xlm.1	+	5	748	c.577A>T	c.(577-579)ATG>TTG	p.M193L	LETM2_uc011lbn.1_Missense_Mutation_p.M37L|LETM2_uc003xll.1_Missense_Mutation_p.M145L|LETM2_uc003xln.1_Missense_Mutation_p.M37L|LETM2_uc003xlo.1_Missense_Mutation_p.M37L	NM_144652	NP_653253	Q2VYF4	LETM2_HUMAN	leucine zipper-EF-hand containing transmembrane	240	LETM1.|Mitochondrial matrix (Potential).					integral to membrane|mitochondrial inner membrane					0	all_cancers(2;6.77e-47)|all_epithelial(2;1.01e-50)|all_lung(3;1.25e-23)|Lung NSC(2;2.76e-23)|Colorectal(12;0.000442)|Esophageal squamous(3;0.00202)	all_lung(54;0.0657)|Hepatocellular(245;0.152)|Lung NSC(58;0.175)	Epithelial(3;1.17e-42)|all cancers(3;5.44e-38)|BRCA - Breast invasive adenocarcinoma(5;5.44e-27)|LUSC - Lung squamous cell carcinoma(2;7.12e-25)|Lung(2;4.49e-22)|COAD - Colon adenocarcinoma(9;0.114)			CATGACAGAAATGGCAAGGAG	0.408													9	51					0	0	1	0	0		T	38257862	T	T	38257862	3	4	55	1	0	0	0	0	1	0	0	0	8751	101	4	5	439	5	LETM2	8	38257862	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	271467	38257862	108106160	698	39732											
FGFR1	2260	broad.mit.edu	37	chr8	38271463	38271463	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggtcaaggccacgatgcgGtccaggtcttccaccagctg	8	7	13	13	2	2	0	1	0	1	0	4	2	4	0	4	4	2	1	4	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:38271463G>A	uc003xlp.2	-	18	3207	c.2265C>T	c.(2263-2265)GAC>GAT	p.D755D	FGFR1_uc010lwf.2_RNA|FGFR1_uc011lbo.1_Silent_p.D753D|FGFR1_uc011lbp.1_Silent_p.D666D|FGFR1_uc011lbq.1_Silent_p.D664D|FGFR1_uc010lwk.2_Silent_p.D745D	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	755	Cytoplasmic (Potential).|Protein kinase.			D->V: Abolishes interaction with PLCG1.	axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	CCACGATGCGGTCCAGGTCTT	0.632		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						5	30					0	0	1	0	0		A	38271463	A	A	38271463	2	1	55	1	0	0	0	0	0	0	0	1	5877	1252	44	4		4	FGFR1	8	38271463	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	13601	38271463	108092559	699	39733											
TACC1	6867	broad.mit.edu	37	chr8	38684796	38684796	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagaaatcagctggtgcCgaggtgaaaggtgagccaga	12	6	16	7	1	2	4	2	2	0	2	2	5	2	4	2	4	3	1	2	4	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:38684796C>T	uc010lwp.2	+	5	1942	c.1563C>T	c.(1561-1563)GCC>GCT	p.A521A	TACC1_uc011lby.1_Silent_p.A326A|TACC1_uc003xma.2_5'UTR|TACC1_uc003xlz.2_Silent_p.A326A|TACC1_uc003xmc.3_Silent_p.A325A|TACC1_uc011lbz.1_Silent_p.A537A|TACC1_uc003xmb.3_Silent_p.A476A|TACC1_uc003xme.1_Silent_p.A95A|TACC1_uc003xmd.1_Silent_p.A83A|TACC1_uc010lwo.1_Silent_p.A83A|TACC1_uc003xmf.3_Silent_p.A111A|TACC1_uc011lca.1_Silent_p.A533A|TACC1_uc011lcb.1_Silent_p.A326A|TACC1_uc011lcc.1_Silent_p.A326A|TACC1_uc011lcd.1_RNA|TACC1_uc003xmh.3_Silent_p.A338A|TACC1_uc010lwq.2_Silent_p.A338A	NM_006283	NP_006274	O75410	TACC1_HUMAN	transforming, acidic coiled-coil containing	521					cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)			CAGCTGGTGCCGAGGTGAAAG	0.468													15	40					0	0	1	0	0		T	38684796	T	T	38684796	2	4	55	1	0	0	0	0	0	0	0	1	15526	639	23	1		1	TACC1	8	38684796	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	413333	38684796	107679226	700	39734											
SLC20A2	6575	broad.mit.edu	37	chr8	42302235	42302235	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaacaggagggcgacaccaAaggaaatgagggctatggcc	14	3	15	9	2	0	1	0	1	0	0	0	5	0	3	2	5	1	1	2	5	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:42302235A>G	uc010lxl.2	-	6	1353	c.659T>C	c.(658-660)TTT>TCT	p.F220S	SLC20A2_uc010lxm.2_Missense_Mutation_p.F220S|SLC20A2_uc003xpe.2_Missense_Mutation_p.F220S|SLC20A2_uc011lcu.1_Missense_Mutation_p.F22S	NM_006749	NP_006740	Q08357	S20A2_HUMAN	solute carrier family 20, member 2	220	Helical; (Potential).				interspecies interaction between organisms	integral to plasma membrane|membrane fraction	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			ovary(2)	2	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;5.73e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00419)|Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GGCGACACCAAAGGAAATGAG	0.493													10	24					0	0	1	0	0		G	42302235	G	G	42302235	3	3	55	1	0	0	0	0	1	0	0	0	14464	14	1	3	1323	3	SLC20A2	8	42302235	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	3617439	42302235	104061787	701	39735											
CHRNB3	1142	broad.mit.edu	37	chr8	42587314	42587314	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaagaaatcatcccatcGtcttccaaagtcattcctct	12	13	4	12	1	4	2	2	1	2	1	8	2	7	2	3	0	0	0	3	0	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:42587314G>A	uc003xpi.1	+	5	992	c.864G>A	c.(862-864)TCG>TCA	p.S288S		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	288					synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			TCATCCCATCGTCTTCCAAAG	0.398													28	88					0	0	1	0	0		A	42587314	A	A	42587314	2	1	55	1	0	0	0	0	0	0	0	1	3395	1132	40	1		1	CHRNB3	8	42587314	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	285079	42587314	103776708	702	39736											
RNF170	81790	broad.mit.edu	37	chr8	42725159	42725159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttaccacaaaaaagatGtccacagttggtctccaccg	12	10	7	12	1	1	1	0	0	1	1	3	1	2	1	4	1	2	2	4	1	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:42725159G>A	uc003xpo.2	-	4	787	c.310C>T	c.(310-312)CAT>TAT	p.H104Y	RNF170_uc011lcx.1_Missense_Mutation_p.H104Y|RNF170_uc010lxp.2_Missense_Mutation_p.H20Y|RNF170_uc003xpm.2_Missense_Mutation_p.H104Y|RNF170_uc003xpp.2_Silent_p.D32D|RNF170_uc003xpn.2_Silent_p.D32D|RNF170_uc003xpq.3_Missense_Mutation_p.H104Y	NM_001160223	NP_001153695	Q96K19	RN170_HUMAN	ring finger protein 170 isoform a	104	RING-type.					integral to membrane	zinc ion binding				0	all_lung(13;1.25e-11)|Lung NSC(13;3.55e-10)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00645)|Lung NSC(58;0.0176)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			CAAAAAAGATGTCCACAGTTG	0.478													8	32					0	0	1	0	0		A	42725159	A	A	42725159	3	1	55	1	0	0	0	0	1	0	0	0	13487	1377	48	4	693	4	RNF170	8	42725159	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	137845	42725159	103638863	703	39737											
FNTA	2339	broad.mit.edu	37	chr8	42940419	42940419	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactcaccaacaaatgtacaGcaataacaccatccagaaga	19	5	5	12	0	1	2	1	0	0	2	2	3	2	2	3	0	4	2	3	0	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:42940419G>T	uc003xps.2	+	9	1182	c.1134G>T	c.(1132-1134)CAG>CAT	p.Q378H	FNTA_uc003xpt.2_Missense_Mutation_p.Q287H|FNTA_uc003xpu.2_Missense_Mutation_p.Q311H|FNTA_uc003xpv.2_RNA	NM_002027	NP_002018	P49354	FNTA_HUMAN	farnesyltransferase, CAAX box, alpha isoform a	378					cellular component disassembly involved in apoptosis|positive regulation of deacetylase activity|positive regulation of tubulin deacetylation|protein farnesylation|protein geranylgeranylation|transforming growth factor beta receptor signaling pathway	cytosol|microtubule associated complex	alpha-tubulin binding|CAAX-protein geranylgeranyltransferase activity|microtubule binding|protein farnesyltransferase activity			ovary(1)	1	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			CAAATGTACAGCAATAACACC	0.403													12	26					0.000219431	0.000227078	1	1	0		T	42940419	T	T	42940419	3	4	55	1	0	0	0	0	1	0	0	0	5991	962	34	5	1168	5	FNTA	8	42940419	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	215260	42940419	103423603	704	39738											
TOX	9760	broad.mit.edu	37	chr8	59750825	59750825	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttctttttgggagtttttgGttttttccccatatcagagg	5	20	9	7	0	2	1	1	0	1	1	3	2	3	2	2	3	0	2	2	3	1	9			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:59750825G>T	uc003xtw.1	-	5	960	c.739C>A	c.(739-741)CCA>ACA	p.P247T		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	247	Nuclear localization signal (Potential).					nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				GGAGTTTTTGGTTTTTTCCCC	0.453													14	43					1.37285e-15	1.50988e-15	1	1	0		T	59750825	T	T	59750825	3	4	55	1	0	0	0	0	1	0	0	0	16403	1261	44	5	861	5	TOX	8	59750825	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	16810406	59750825	86613197	705	39739											
BHLHE22	27319	broad.mit.edu	37	chr8	65494257	65494257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaggccctggaggagatgCggcgcctagtcgcctacctc	6	6	14	15	4	0	1	0	0	0	1	2	3	0	2	4	4	2	1	4	4	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:65494257C>T	uc003xvi.2	+	1	1444	c.910C>T	c.(910-912)CGG>TGG	p.R304W	LOC401463_uc003xvh.2_Intron	NM_152414	NP_689627	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix domain containing, class	304					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						GGAGGAGATGCGGCGCCTAGT	0.687													5	9					0	0	1	0	0		T	65494257	T	T	65494257	3	4	55	1	0	0	0	0	1	0	0	0	1422	759	27	1	912	1	BHLHE22	8	65494257	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5743432	65494257	80869765	706	39740											
RRS1	23212	broad.mit.edu	37	chr8	67342429	67342429	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttgggtggcaagagaaaaGgaggacagcgcccaggagga	13	3	18	7	1	0	1	0	0	0	1	0	6	0	5	1	6	1	2	1	6	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:67342429G>T	uc003xwa.2	+	1	1167	c.1063G>T	c.(1063-1065)GGA>TGA	p.G355*	ADHFE1_uc003xwb.3_5'Flank|ADHFE1_uc003xwd.3_5'Flank|ADHFE1_uc003xwc.3_5'Flank|ADHFE1_uc003xwe.3_5'Flank|ADHFE1_uc003xwf.3_5'Flank|ADHFE1_uc011les.1_5'Flank|ADHFE1_uc011leq.1_5'Flank|ADHFE1_uc011ler.1_5'Flank	NM_015169	NP_055984	Q15050	RRS1_HUMAN	homolog of yeast ribosome biogenesis regulatory	355	Arg/Gly/Lys-rich.				mitotic metaphase plate congression|ribosome biogenesis	condensed nuclear chromosome|nucleolus					0		Lung NSC(129;0.197)	Epithelial(68;0.0391)|all cancers(69;0.0898)|BRCA - Breast invasive adenocarcinoma(89;0.111)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			CAAGAGAAAAGGAGGACAGCG	0.537													16	95					5.01169e-05	5.20788e-05	1	1	0		T	67342429	T	T	67342429	4	4	55	1	0	0	0	0	0	1	0	0	13717	1001	35	5	1065	5	RRS1	8	67342429	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1848172	67342429	79021593	707	39741											
SGK3	23678	broad.mit.edu	37	chr8	67716612	67716612	+	Frame_Shift_Del	DEL	A	-	-																															tatttttaaaaattttagttAaaaaaacagtttcctgctat																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:67716612delA	uc003xwr.2	+	4	482	c.183delA	c.(181-183)TTAfs	p.L61fs	SGK3_uc003xwp.2_Frame_Shift_Del_p.L55fs|SGK3_uc003xwt.2_Frame_Shift_Del_p.L61fs|SGK3_uc003xwu.2_Frame_Shift_Del_p.L61fs	NM_001033578	NP_001028750	Q96BR1	SGK3_HUMAN	serum/glucocorticoid regulated kinase 3 isoform	61	PX.				cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)			aattttagttaaaaaaaCAGT	0.279													11	25	---	---	---	---						.	-	67716612	-	-	67716612	7	5	55	1	0	1	0	1	0	0	0	0	14237	359	13	0	193	0	SGK3	8	67716612	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	374183	67716612	78647410	708	39742											
PREX2	80243	broad.mit.edu	37	chr8	68965390	68965390	+	Frame_Shift_Del	DEL	A	-	-																															tggaagatacataacacagcAaaaaataaatggtttgtttg																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:68965390delA	uc003xxv.1	+	9	1029	c.1002delA	c.(1000-1002)GCAfs	p.A334fs	PREX2_uc003xxu.1_Frame_Shift_Del_p.A334fs|PREX2_uc011lez.1_Frame_Shift_Del_p.A269fs	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	334	PH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ATAACACAGCAAAAAATAAAT	0.358													24	51	---	---	---	---						.	-	68965390	-	-	68965390	7	5	55	1	0	1	0	1	0	0	0	0	12499	117	5	0	1036	0	PREX2	8	68965390	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	1248778	68965390	77398632	709	39743											
NCOA2	10499	broad.mit.edu	37	chr8	71069388	71069388	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccactgcacagggcctgatgGgcagggctgttagagctaat	9	8	14	10	0	0	2	0	1	0	1	0	2	0	2	2	3	2	5	2	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:71069388G>T	uc003xyn.1	-	11	1374	c.1212C>A	c.(1210-1212)GCC>GCA	p.A404A		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	404					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			GGGCCTGATGGGCAGGGCTGT	0.493			T	RUNXBP2	AML								4	17					0.150653	0.151518	1	1	0		T	71069388	T	T	71069388	2	4	55	1	0	0	0	0	0	0	0	1	10248	1219	43	5		5	NCOA2	8	71069388	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2103998	71069388	75294634	710	39744											
TRPA1	8989	broad.mit.edu	37	chr8	72950232	72950232	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatacctgttggaaaatttGccccgcttctttgcaatacc	10	13	6	12	1	1	0	0	0	1	0	1	1	1	1	4	1	4	3	4	1	5	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:72950232G>A	uc003xza.2	-	20	2546	c.2371C>T	c.(2371-2373)CAA>TAA	p.Q791*	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	791	Helical; Name=2; (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	TGGAAAATTTGCCCCGCTTCT	0.274													5	24					0	0	1	0	0		A	72950232	A	A	72950232	4	1	55	1	0	0	0	0	0	1	0	0	16603	1328	46	2	1020	2	TRPA1	8	72950232	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1880844	72950232	73413790	711	39745											
TRPA1	8989	broad.mit.edu	37	chr8	72969971	72969971	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttagagagtagcaaattTacaatattccaagatgcaga	16	11	7	7	0	0	3	0	0	0	3	1	4	1	3	2	0	3	3	2	0	7	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:72969971T>C	uc003xza.2	-	9	1249	c.1074A>G	c.(1072-1074)GTA>GTG	p.V358V		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	358	Cytoplasmic (Potential).|ANK 9.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GTAGCAAATTTACAATATTCC	0.373													10	30					0	0	1	0	0		C	72969971	C	C	72969971	2	2	55	1	0	0	0	0	0	0	0	1	16603	1741	61	3		3	TRPA1	8	72969971	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	19739	72969971	73394051	712	39746											
ZFHX4	79776	broad.mit.edu	37	chr8	77768464	77768464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcctaccccggactccccGgccttcctccagtccttctc	4	9	6	22	2	1	0	0	0	1	0	6	1	5	1	9	2	2	0	9	2	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:77768464G>A	uc003yav.2	+	10	9559	c.9172G>A	c.(9172-9174)GGC>AGC	p.G3058S	ZFHX4_uc003yau.1_Missense_Mutation_p.G3103S|ZFHX4_uc003yaw.1_Missense_Mutation_p.G3058S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3058	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CGGACTCCCCGGCCTTCCTCC	0.552										HNSCC(33;0.089)			5	60					0	0	1	0	0		A	77768464	A	A	77768464	3	1	55	1	0	0	0	0	1	0	0	0	17660	1116	39	1	9341	1	ZFHX4	8	77768464	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4798493	77768464	68595558	713	39747											
FAM164A	51101	broad.mit.edu	37	chr8	79609723	79609723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattaccgcagccaagtggcGctggcaaaactgttgtaggt	10	9	13	9	2	0	0	0	0	0	0	0	1	0	0	2	3	3	5	2	3	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:79609723G>A	uc003ybd.2	+	6	688	c.586G>A	c.(586-588)GCT>ACT	p.A196T		NM_016010	NP_057094	Q96GY0	F164A_HUMAN	hypothetical protein LOC51101	196										ovary(1)	1						GCCAAGTGGCGCTGGCAAAAC	0.403													4	55					0	0	1	0	0		A	79609723	A	A	79609723	3	1	55	1	0	0	0	0	1	0	0	0	5489	1087	38	1	608	1	FAM164A	8	79609723	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1841259	79609723	66754299	714	39748											
CA13	377677	broad.mit.edu	37	chr8	86171660	86171660	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtttagttctgcgtggTggtcctctcactggaagcta	5	16	12	8	1	2	0	1	0	2	0	4	1	3	1	1	3	2	4	1	3	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:86171660T>C	uc003ydg.2	+	3	588	c.246T>C	c.(244-246)GGT>GGC	p.G82G	CA13_uc003ydf.1_RNA	NM_198584	NP_940986	Q8N1Q1	CAH13_HUMAN	carbonic anhydrase XIII	82					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0						TTCTGCGTGGTGGTCCTCTCA	0.458													4	95					0	0	1	0	0		C	86171660	C	C	86171660	2	2	55	1	0	0	0	0	0	0	0	1	2517	1683	59	3		3	CA13	8	86171660	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	6561937	86171660	60192362	715	39749											
PDP1	54704	broad.mit.edu	37	chr8	94934398	94934398	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctctgttgttcctcatcGtacattcctcagagtcgact	7	15	6	13	2	3	1	2	0	1	1	8	2	5	1	2	0	1	3	2	0	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:94934398G>A	uc003yge.2	+	2	380	c.111G>A	c.(109-111)TCG>TCA	p.S37S	PDP1_uc003ygf.2_Silent_p.S62S|PDP1_uc010max.2_Silent_p.S62S|PDP1_uc011lgm.1_Silent_p.S37S|PDP1_uc011lgn.1_Silent_p.S96S	NM_018444	NP_060914	Q9P0J1	PDP1_HUMAN	pyruvate dehyrogenase phosphatase catalytic	37					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						GTTCCTCATCGTACATTCCTC	0.473													12	36					0	0	1	0	0		A	94934398	A	A	94934398	2	1	55	1	0	0	0	0	0	0	0	1	11704	1132	40	1		1	PDP1	8	94934398	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	8762738	94934398	51429624	716	39750											
INTS8	55656	broad.mit.edu	37	chr8	95844297	95844297	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggatctttatgtccatacGatgagaactctagatttatt	13	15	7	6	1	2	2	0	1	2	2	3	5	3	3	1	1	2	0	1	1	6	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:95844297G>A	uc003yhb.2	+	6	774	c.648G>A	c.(646-648)ACG>ACA	p.T216T	INTS8_uc003yha.1_Silent_p.T216T|INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Silent_p.T43T	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	216					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					ATGTCCATACGATGAGAACTC	0.373													11	19					0	0	1	0	0		A	95844297	A	A	95844297	2	1	55	1	0	0	0	0	0	0	0	1	7800	1045	37	1		1	INTS8	8	95844297	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	909899	95844297	50519725	717	39751											
GDF6	392255	broad.mit.edu	37	chr8	97156959	97156959	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagcgtctggatgatggcGtggttggtgggctccaggtg	5	11	18	7	2	2	1	1	1	1	0	3	2	3	2	1	6	1	2	1	6	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:97156959G>A	uc003yhp.2	-	2	1300	c.1200C>T	c.(1198-1200)CAC>CAT	p.H400H		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	400					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GGATGATGGCGTGGTTGGTGG	0.617													10	21					0	0	1	0	0		A	97156959	A	A	97156959	2	1	55	1	0	0	0	0	0	0	0	1	6332	1136	40	1		1	GDF6	8	97156959	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1312662	97156959	49207063	718	39752											
ZFPM2	23414	broad.mit.edu	37	chr8	106814404	106814404	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcaacattaccttcagccgGcacgaaacatacatggtcca	13	8	7	13	2	1	0	1	0	0	0	2	1	2	0	3	2	6	2	3	2	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:106814404G>A	uc003ymd.2	+	8	2117	c.2094G>A	c.(2092-2094)CGG>CGA	p.R698R	ZFPM2_uc011lhs.1_Silent_p.R429R	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	698	C2HC-type 3.				blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			CCTTCAGCCGGCACGAAACAT	0.483													8	20					0	0	1	0	0		A	106814404	A	A	106814404	2	1	55	1	0	0	0	0	0	0	0	1	17683	1190	42	2		2	ZFPM2	8	106814404	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	9657445	106814404	39549618	719	39753											
EIF3E	3646	broad.mit.edu	37	chr8	109241324	109241324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctatggtctcttttaacCgtgtaaggtcttccatggct	7	17	8	9	1	3	0	0	0	3	0	5	0	4	0	2	3	1	2	2	3	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:109241324C>T	uc003ymu.2	-	6	600	c.572G>A	c.(571-573)CGG>CAG	p.R191Q	EIF3E_uc003ymt.2_Missense_Mutation_p.R142Q|EIF3E_uc003ymv.2_Missense_Mutation_p.R98Q|EIF3E_uc010mci.1_Missense_Mutation_p.R191Q	NM_001568	NP_001559	P60228	EIF3E_HUMAN	eukaryotic translation initiation factor 3,	191	Sufficient for interaction with TRIM27.				negative regulation of translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|eukaryotic translation initiation factor 3 complex|PML body	protein N-terminus binding			ovary(2)|kidney(1)	3			OV - Ovarian serous cystadenocarcinoma(57;6.84e-10)			CTCTTTTAACCGTGTAAGGTC	0.393													17	56					0	0	1	0	0		T	109241324	T	T	109241324	3	4	55	1	0	0	0	0	1	0	0	0	5023	652	23	1	797	1	EIF3E	8	109241324	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2426920	109241324	37122698	720	39754											
KCNV1	27012	broad.mit.edu	37	chr8	110986292	110986292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcaggacatatcggaacGcctgcgagctgcggtcgaag	10	6	15	10	5	0	0	0	0	0	0	2	4	0	2	1	3	5	2	1	3	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:110986292G>A	uc003ynr.3	-	1	668	c.326C>T	c.(325-327)GCG>GTG	p.A109V	KCNV1_uc010mcw.2_Missense_Mutation_p.A109V	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	109	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			ATATCGGAACGCCTGCGAGCT	0.662													10	7					0	0	1	0	0		A	110986292	A	A	110986292	3	1	55	1	0	0	0	0	1	0	0	0	8110	1087	38	1	1188	1	KCNV1	8	110986292	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1744968	110986292	35377730	721	39755											
DEPDC6	64798	broad.mit.edu	37	chr8	121021305	121021305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggctggggttttgtggtgcGaggaagtaagccatgccaca	8	10	16	7	1	0	0	0	0	0	0	0	2	0	1	2	5	3	3	2	5	2	3	rs147712866	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:121021305G>A	uc003yow.3	+	8	1221	c.1034G>A	c.(1033-1035)CGA>CAA	p.R345Q	DEPDC6_uc011lid.1_Missense_Mutation_p.R244Q	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	345	PDZ.				intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TTTGTGGTGCGAGGAAGTAAG	0.517													5	24					0	0	1	0	0		A	121021305	A	A	121021305	3	1	55	1	0	0	0	0	1	0	0	0	4449	1058	37	1	1064	1	DEPDC6	8	121021305	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	10035013	121021305	25342717	722	39756											
COL14A1	7373	broad.mit.edu	37	chr8	121256232	121256232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgaaggcgtcagcgtctccGctcctggaaaaacctgtaag	10	7	12	12	4	2	0	1	0	1	0	4	2	3	1	3	2	2	2	3	2	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:121256232G>A	uc003yox.2	+	20	2729	c.2464G>A	c.(2464-2466)GCT>ACT	p.A822T	COL14A1_uc003yoy.2_Missense_Mutation_p.A500T	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	822	Fibronectin type-III 6.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			CAGCGTCTCCGCTCCTGGAAA	0.463													21	38					0	0	1	0	0		A	121256232	A	A	121256232	3	1	55	1	0	0	0	0	1	0	0	0	3674	1087	38	1	2538	1	COL14A1	8	121256232	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	234927	121256232	25107790	723	39757											
ZHX1	11244	broad.mit.edu	37	chr8	124267572	124267572	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctttctcttcaggaacGtcctcaactgagttatgatg	8	16	7	10	1	4	2	2	2	2	0	7	3	5	3	1	1	2	1	1	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:124267572G>A	uc003yqe.2	-	3	1045	c.615C>T	c.(613-615)GAC>GAT	p.D205D	C8orf76_uc003yqd.2_Intron|ZHX1_uc003yqf.2_Silent_p.D205D|ZHX1_uc003yqg.2_Intron|ZHX1_uc010mdi.2_Silent_p.D205D	NM_007222	NP_009153	Q9UKY1	ZHX1_HUMAN	zinc fingers and homeoboxes 1	205					negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			CTTCAGGAACGTCCTCAACTG	0.348													16	51					0	0	1	0	0		A	124267572	A	A	124267572	2	1	55	1	0	0	0	0	0	0	0	1	17700	1136	40	1		1	ZHX1	8	124267572	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3011340	124267572	22096450	724	39758											
MTSS1	9788	broad.mit.edu	37	chr8	125597362	125597362	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcagtttcagcgtatcCgaggacttcttttttatctc	6	18	7	10	2	4	0	1	0	3	0	6	2	5	1	1	1	2	3	1	1	2	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:125597362C>T	uc003yrk.2	-	6	960	c.426G>A	c.(424-426)TCG>TCA	p.S142S	MTSS1_uc003yrj.2_Silent_p.S142S|MTSS1_uc003yrl.2_Silent_p.S142S	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	142	IMD.|Potential.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			TCAGCGTATCCGAGGACTTCT	0.358													19	55					0	0	1	0	0		T	125597362	T	T	125597362	2	4	55	1	0	0	0	0	0	0	0	1	9980	639	23	1		1	MTSS1	8	125597362	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1329790	125597362	20766660	725	39759											
MYC	4609	broad.mit.edu	37	chr8	128752802	128752802	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccacgtctccacacatcaGcacaactacgcagcgcctcc	10	6	6	19	3	2	0	1	0	1	0	4	0	3	0	4	0	5	2	4	0	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:128752802G>A	uc003ysi.2	+	3	1488	c.963G>A	c.(961-963)CAG>CAA	p.Q321Q		NM_002467	NP_002458	P01106	MYC_HUMAN	myc proto-oncogene protein	306					branching involved in ureteric bud morphogenesis|cell cycle arrest|cell proliferation|cellular iron ion homeostasis|positive regulation of metanephric cap mesenchymal cell proliferation|positive regulation of transcription, DNA-dependent|regulation of telomere maintenance|regulation of transcription from RNA polymerase II promoter|response to drug	nucleolus|nucleoplasm	E-box binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(3)|ovary(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(1;6.19e-134)|all_epithelial(1;1.75e-119)|all_lung(1;5.66e-51)|Breast(1;1.08e-22)|all_neural(1;4.45e-21)|Medulloblastoma(1;1.88e-20)|Colorectal(1;1.92e-09)|Lung SC(1;4.52e-07)|Ovarian(5;0.000122)|Esophageal squamous(12;0.000995)|Renal(1;0.0921)|Hepatocellular(40;0.108)|Myeloproliferative disorder(2;0.135)|Melanoma(291;0.185)	Myeloproliferative disorder(644;0.0255)|Ovarian(118;0.0654)|Breast(495;0.212)|Acute lymphoblastic leukemia(644;0.22)	Epithelial(1;1.63e-94)|all cancers(1;5.82e-87)|OV - Ovarian serous cystadenocarcinoma(1;2.12e-71)|BRCA - Breast invasive adenocarcinoma(1;4.3e-14)|Lung(2;0.000381)|Colorectal(2;0.0102)|LUAD - Lung adenocarcinoma(14;0.0172)|READ - Rectum adenocarcinoma(2;0.0723)|LUSC - Lung squamous cell carcinoma(258;0.151)	KIRC - Kidney renal clear cell carcinoma(542;0.248)		CCACACATCAGCACAACTACG	0.567		3	A|T	IGK@|BCL5|BCL7A |BTG1|TRA@|IGH@	Burkitt lymphoma| amplified in other cancers|B-CLL								3	42					0	0	1	0	0		A	128752802	A	A	128752802	2	1	55	1	0	0	0	0	0	0	0	1	10034	962	34	2		2	MYC	8	128752802	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3155440	128752802	17611220	726	39760											
ADCY8	114	broad.mit.edu	37	chr8	131916289	131916289	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttggaaatgtgaatcctcCtgtgtgtagaaggcataggt	10	13	12	6	0	0	2	0	1	0	1	2	3	2	3	2	3	0	2	2	3	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:131916289C>A	uc003ytd.3	-	7	1897	c.1641_splice	c.e7-1	p.G547_splice	ADCY8_uc010mds.2_Splice_Site_p.G547_splice	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8						activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GTGAATCCTCCTGTGTGTAGA	0.458										HNSCC(32;0.087)			22	109					3.85864e-22	4.29228e-22	1	1	0		A	131916289	A	A	131916289	5	1	55	1	0	0	0	0	0	0	1	0	300	695	24	5	2163	5	ADCY8	8	131916289	Splice_Site	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3163487	131916289	14447733	727	39761											
OC90	729330	broad.mit.edu	37	chr8	133053404	133053404	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcggtgctggaagcagcagCtgtaggaaggccgggaggag	9	5	20	7	2	0	0	0	0	0	0	0	4	0	4	1	6	5	5	1	6	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:133053404C>T	uc003ytg.2	-	4	297	c.297_splice	c.e4-1	p.S99_splice	OC90_uc011lix.1_Splice_Site_p.S115_splice	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90						lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GAAGCAGCAGCTGTAGGAAGG	0.577													20	26					0	0	1	0	0		T	133053404	T	T	133053404	5	4	55	1	0	0	0	0	0	0	1	0	10833	811	28	2	1125	2	OC90	8	133053404	Splice_Site	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1137115	133053404	13310618	728	39762											
TG	7038	broad.mit.edu	37	chr8	133885421	133885421	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccagtgcaaatttgtcaAcaccacagacatgatgattt	13	12	7	9	0	1	3	1	2	0	1	2	3	2	3	2	0	2	1	2	0	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:133885421A>G	uc003ytw.2	+	5	634	c.593A>G	c.(592-594)AAC>AGC	p.N198S		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	198	Thyroglobulin type-1 3.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AAATTTGTCAACACCACAGAC	0.527													7	33					0	0	1	0	0		G	133885421	G	G	133885421	3	3	55	1	0	0	0	0	1	0	0	0	15838	43	2	3	611	3	TG	8	133885421	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	832017	133885421	12478601	729	39763											
WISP1	8840	broad.mit.edu	37	chr8	134232915	134232915	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtacaactgcacgtgcatCgacggcgcggtgggctgcac	9	6	14	12	5	0	0	0	0	0	0	1	1	0	0	0	3	5	5	0	3	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:134232915C>T	uc003yub.2	+	3	517	c.441C>T	c.(439-441)ATC>ATT	p.I147I	WISP1_uc003yuc.2_Intron|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	147	VWFC.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GCACGTGCATCGACGGCGCGG	0.662													26	73					0	0	1	0	0		T	134232915	T	T	134232915	2	4	55	1	0	0	0	0	0	0	0	1	17398	874	31	1		1	WISP1	8	134232915	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	347494	134232915	12131107	730	39764											
EIF2C2	27161	broad.mit.edu	37	chr8	141570558	141570558	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcggcccccgccaagaggGttagagcagccttcggacgc	7	6	13	15	4	1	2	0	0	1	2	3	3	1	3	4	3	2	2	4	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:141570558G>A	uc003yvn.2	-	5	610	c.570C>T	c.(568-570)AAC>AAT	p.N190N	EIF2C2_uc010men.2_Silent_p.N113N|EIF2C2_uc010meo.2_Silent_p.N190N	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	190					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			CGCCAAGAGGGTTAGAGCAGC	0.602													4	54					0	0	1	0	0		A	141570558	A	A	141570558	2	1	55	1	0	0	0	0	0	0	0	1	5012	1252	44	4		4	EIF2C2	8	141570558	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	7337643	141570558	4793464	731	39765											
PTK2	5747	broad.mit.edu	37	chr8	141762399	141762399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatgttttaattgcaaccGccaaagctggattctcctgt	10	14	7	10	1	1	0	0	0	1	0	2	1	1	1	3	1	4	3	3	1	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:141762399G>A	uc003yvu.2	-	17	1579	c.1349C>T	c.(1348-1350)GCG>GTG	p.A450V	PTK2_uc003yvo.2_Missense_Mutation_p.A78V|PTK2_uc011ljq.1_Missense_Mutation_p.A145V|PTK2_uc003yvp.2_Missense_Mutation_p.A118V|PTK2_uc003yvq.2_5'UTR|PTK2_uc003yvr.2_Missense_Mutation_p.A390V|PTK2_uc003yvs.2_Missense_Mutation_p.A450V|PTK2_uc003yvt.2_Missense_Mutation_p.A472V|PTK2_uc003yvv.2_Missense_Mutation_p.A350V|PTK2_uc011ljr.1_Missense_Mutation_p.A450V	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	450	Protein kinase.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			AATTGCAACCGCCAAAGCTGG	0.373													12	30					0	0	1	0	0		A	141762399	A	A	141762399	3	1	55	1	0	0	0	0	1	0	0	0	12785	1087	38	1	1873	1	PTK2	8	141762399	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	191841	141762399	4601623	732	39766											
ZNF696	79943	broad.mit.edu	37	chr8	144378511	144378511	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggccttcggccagaggtcGgacgccgccaagcaccgccg	8	3	14	16	6	0	1	0	0	0	1	2	2	0	2	6	4	1	1	6	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:144378511G>A	uc003yxy.3	+	3	1075	c.666G>A	c.(664-666)TCG>TCA	p.S222S		NM_030895	NP_112157	Q9H7X3	ZN696_HUMAN	zinc finger protein 696	222	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			GCCAGAGGTCGGACGCCGCCA	0.711													4	4					0	0	1	0	0		A	144378511	A	A	144378511	2	1	55	1	0	0	0	0	0	0	0	1	18124	1103	39	1		1	ZNF696	8	144378511	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2616112	144378511	1985511	733	39767											
NFKBIL2	4796	broad.mit.edu	37	chr8	145666115	145666115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcacctccagcacgttgcCgctgcgcagcctcagttcct	5	11	8	17	3	2	0	2	0	0	0	4	0	4	0	5	0	4	5	5	0	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:145666115C>T	uc011llg.1	-	9	1165	c.1150G>A	c.(1150-1152)GGC>AGC	p.G384S		NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	384	TPR 8.				cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			AGCACGTTGCCGCTGCGCAGC	0.637													15	40					0	0	1	0	0		T	145666115	T	T	145666115	3	4	55	1	0	0	0	0	1	0	0	0	10401	652	23	1	3058	1	NFKBIL2	8	145666115	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1287604	145666115	697907	734	39768											
LRRC14	9684	broad.mit.edu	37	chr8	145746374	145746374	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctacgcttcctggcacggAgcccacatgctgcccacctc	7	7	8	19	2	0	0	0	0	0	0	2	1	1	1	5	2	4	3	5	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr8:145746374A>G	uc003zdk.1	+	4	1140	c.994A>G	c.(994-996)AGC>GGC	p.S332G	LRRC14_uc003zdl.1_Missense_Mutation_p.S332G|LRRC14_uc003zdo.2_5'Flank	NM_014665	NP_055480	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	332											0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CCTGGCACGGAGCCCACATGC	0.627													40	84					0	0	1	0	0		G	145746374	G	G	145746374	3	3	55	1	0	0	0	0	1	0	0	0	8986	304	11	3	1004	3	LRRC14	8	145746374	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	80259	145746374	617648	735	39769											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													4	42					0	0	1	0	0		G	164038	G	G	164038	5	3	55	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-7851-01A-11D-2201-08		164038	141049393	736	39770											
DOCK8	81704	broad.mit.edu	37	chr9	446478	446478	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggaggttcatgtacaccAccccgttcaccctggagggg	7	8	12	14	2	2	0	2	0	0	0	3	2	3	2	5	5	1	3	5	5	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:446478A>C	uc003zgf.2	+	44	5801	c.5689A>C	c.(5689-5691)ACC>CCC	p.T1897P	DOCK8_uc010mgu.2_Missense_Mutation_p.T1199P|DOCK8_uc010mgv.2_Missense_Mutation_p.T1797P|DOCK8_uc003zgk.2_Missense_Mutation_p.T1355P	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	1897					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		CATGTACACCACCCCGTTCAC	0.517													4	83					0	0	1	0	0		C	446478	C	C	446478	3	2	55	1	0	0	0	0	1	0	0	0	4699	159	6	5	5863	5	DOCK8	9	446478	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	282440	446478	140766953	737	39771											
VLDLR	7436	broad.mit.edu	37	chr9	2646469	2646469	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaagactatttcagtagcTaccctagatggaaccaagag	14	10	8	9	0	2	3	1	0	1	3	2	4	2	4	2	1	3	2	2	1	7	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:2646469T>C	uc003zhk.1	+	11	2017	c.1620T>C	c.(1618-1620)GCT>GCC	p.A540A	VLDLR_uc003zhl.1_Silent_p.A540A|VLDLR_uc003zhm.1_RNA|VLDLR_uc003zhn.1_Silent_p.A499A	NM_003383	NP_003374	P98155	VLDLR_HUMAN	very low density lipoprotein receptor isoform a	540	LDL-receptor class B 3.|Extracellular (Potential).				cholesterol metabolic process|endocytosis|lipid transport|memory|very-low-density lipoprotein particle clearance	coated pit|integral to membrane|membrane fraction|plasma membrane|very-low-density lipoprotein particle	apolipoprotein binding|calcium ion binding|low-density lipoprotein receptor activity|very-low-density lipoprotein particle receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(50;0.0668)|Lung(218;0.123)		TTTCAGTAGCTACCCTAGATG	0.463													16	51					0	0	1	0	0		C	2646469	C	C	2646469	2	2	55	1	0	0	0	0	0	0	0	1	17200	1509	53	3		3	VLDLR	9	2646469	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2199991	2646469	138566962	738	39772											
SLC1A1	6505	broad.mit.edu	37	chr9	4576594	4576594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacactgcctgtcaccttcCgctgtgctgaagaaaataac	12	9	7	13	1	1	2	1	1	0	1	2	2	2	2	3	0	4	2	3	0	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:4576594C>T	uc003zij.1	+	10	1260	c.1024C>T	c.(1024-1026)CGC>TGC	p.R342C	C9orf68_uc003zik.2_Intron	NM_004170	NP_004161	P43005	EAA3_HUMAN	solute carrier family 1, member 1	342					D-aspartate import|L-glutamate import|synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0		Acute lymphoblastic leukemia(2;0.0359)|Breast(48;0.0457)		GBM - Glioblastoma multiforme(50;0.0124)|Lung(218;0.183)	L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)	TGTCACCTTCCGCTGTGCTGA	0.473													28	44					0	0	1	0	0		T	4576594	T	T	4576594	3	4	55	1	0	0	0	0	1	0	0	0	14456	652	23	1	1062	1	SLC1A1	9	4576594	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1930125	4576594	136636837	739	39773											
JAK2	3717	broad.mit.edu	37	chr9	5080260	5080260	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaataccatgggtaccaccTgaatgcattgaaaatcctaa	16	9	7	9	0	0	3	0	2	0	1	1	3	1	3	4	1	3	2	4	1	7	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:5080260T>C	uc010mhm.2	+	16	2276	c.2163T>C	c.(2161-2163)CCT>CCC	p.P721P	JAK2_uc003ziw.2_Silent_p.P721P	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	721	Protein kinase 1.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		GGGTACCACCTGAATGCATTG	0.343		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				12	120					0	0	1	0	0		C	5080260	C	C	5080260	2	2	55	1	0	0	0	0	0	0	0	1	7954	1567	55	3		3	JAK2	9	5080260	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	503666	5080260	136133171	740	39774											
PTPRD	5789	broad.mit.edu	37	chr9	8521488	8521488	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgatattaacgcttccGcctggcatgatttcatgatt	9	14	9	9	2	1	3	1	3	0	0	2	3	2	3	2	2	1	2	2	2	2	5	rs147417729	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:8521488G>A	uc003zkk.2	-	19	1461	c.750C>T	c.(748-750)GGC>GGT	p.G250G	PTPRD_uc003zkp.2_Silent_p.G250G|PTPRD_uc003zkq.2_Silent_p.G250G|PTPRD_uc003zkr.2_Silent_p.G244G|PTPRD_uc003zks.2_Silent_p.G240G|PTPRD_uc003zkl.2_Silent_p.G250G|PTPRD_uc003zkm.2_Silent_p.G237G|PTPRD_uc003zkn.2_Silent_p.G250G|PTPRD_uc003zko.2_Silent_p.G247G	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	250	Extracellular (Potential).|Ig-like C2-type 3.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TAACGCTTCCGCCTGGCATGA	0.468										TSP Lung(15;0.13)			29	54					0	0	1	0	0		A	8521488	A	A	8521488	2	1	55	1	0	0	0	0	0	0	0	1	12824	1074	38	1		1	PTPRD	9	8521488	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3441228	8521488	132691943	741	39775											
FREM1	158326	broad.mit.edu	37	chr9	14784441	14784441	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgccccactacatccatttGgctgaagtttgtaatgggaa	10	12	9	10	0	0	1	0	1	0	0	1	2	1	2	3	2	2	3	3	2	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:14784441G>A	uc003zlm.2	-	24	4959	c.4369C>T	c.(4369-4371)CAA>TAA	p.Q1457*	FREM1_uc010mic.2_Intron	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1457	CSPG 10.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		ACATCCATTTGGCTGAAGTTT	0.483													9	48					0	0	1	0	0		A	14784441	A	A	14784441	4	1	55	1	0	0	0	0	0	1	0	0	6058	1357	47	4	2276	4	FREM1	9	14784441	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6262953	14784441	126428990	742	39776											
FREM1	158326	broad.mit.edu	37	chr9	14842486	14842486	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaacattggttatgaggaaCgggggactatcatctttggg	11	11	13	6	1	2	1	1	1	1	0	2	3	2	3	0	5	2	1	0	5	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:14842486C>T	uc003zlm.2	-	9	2156	c.1566G>A	c.(1564-1566)CCG>CCA	p.P522P	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	522	CSPG 3.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		TTATGAGGAACGGGGGACTAT	0.512													19	60					0	0	1	0	0		T	14842486	T	T	14842486	2	4	55	1	0	0	0	0	0	0	0	1	6058	523	19	1		1	FREM1	9	14842486	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	58045	14842486	126370945	743	39777											
BNC2	54796	broad.mit.edu	37	chr9	16437444	16437444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatttggtttctccaaaccGcagaaactgctgaagggtga	11	10	12	8	1	1	3	0	2	1	1	2	4	1	4	2	3	3	3	2	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:16437444G>A	uc003zml.2	-	6	888	c.748C>T	c.(748-750)CGG>TGG	p.R250W	BNC2_uc011lmw.1_Missense_Mutation_p.R155W|BNC2_uc003zmm.2_Missense_Mutation_p.R208W|BNC2_uc003zmq.1_Missense_Mutation_p.R264W|BNC2_uc003zmr.1_Missense_Mutation_p.R287W|BNC2_uc003zmp.1_Missense_Mutation_p.R278W|BNC2_uc010mij.1_Missense_Mutation_p.R172W|BNC2_uc011lmv.1_Missense_Mutation_p.R76W|BNC2_uc003zmo.1_Missense_Mutation_p.R172W|BNC2_uc003zmj.2_Missense_Mutation_p.R15W|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.R15W|BNC2_uc003zmn.1_Missense_Mutation_p.R15W	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	250					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		TCTCCAAACCGCAGAAACTGC	0.502													10	30					0	0	1	0	0		A	16437444	A	A	16437444	3	1	55	1	0	0	0	0	1	0	0	0	1476	1086	38	1	2559	1	BNC2	9	16437444	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1594958	16437444	124775987	744	39778											
CNTLN	54875	broad.mit.edu	37	chr9	17330768	17330768	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaacaagggtttctccCgaaagagcatcatgacaagt	13	8	9	11	1	2	2	1	1	1	1	3	3	2	2	2	1	3	2	2	1	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:17330768C>T	uc003zmz.2	+	9	1506	c.1480C>T	c.(1480-1482)CGA>TGA	p.R494*	CNTLN_uc003zmy.2_Nonsense_Mutation_p.R494*|CNTLN_uc010mio.2_Nonsense_Mutation_p.R173*	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	494						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		GGGTTTCTCCCGAAAGAGCAT	0.383													17	34					0	0	1	0	0		T	17330768	T	T	17330768	4	4	55	1	0	0	0	0	0	1	0	0	3642	644	23	1	1544	1	CNTLN	9	17330768	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	893324	17330768	123882663	745	39779											
SLC24A2	25769	broad.mit.edu	37	chr9	19516289	19516289	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggcgatagagaggatgacGaagagcagcatgatgaagag	16	4	17	4	2	0	6	0	3	0	3	0	10	0	7	0	2	2	2	0	2	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:19516289G>A	uc003zoa.1	-	10	1910	c.1848C>T	c.(1846-1848)TTC>TTT	p.F616F	SLC24A2_uc003zob.1_Silent_p.F599F	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	616	Helical; (Potential).				visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		AGAGGATGACGAAGAGCAGCA	0.522													19	35					0	0	1	0	0		A	19516289	A	A	19516289	2	1	55	1	0	0	0	0	0	0	0	1	14491	1049	37	1		1	SLC24A2	9	19516289	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2185521	19516289	121697142	746	39780											
IFNB1	3456	broad.mit.edu	37	chr9	21077644	21077644	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagatggtcaatgcggcGtcctccttctggaactgctg	7	12	11	11	2	3	1	2	0	1	1	5	2	5	2	2	3	3	1	2	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:21077644G>A	uc003zok.2	-	1	300	c.225C>T	c.(223-225)GAC>GAT	p.D75D		NM_002176	NP_002167	P01574	IFNB_HUMAN	interferon, beta 1, fibroblast precursor	75					activation of caspase activity|B cell proliferation|blood coagulation|cellular response to exogenous dsRNA|defense response to virus|induction of apoptosis|natural killer cell activation|negative regulation of cell proliferation|negative regulation of T cell differentiation|negative regulation of T-helper 2 cell cytokine production|negative regulation of viral genome replication|negative regulation of viral transcription|negative regulation of virion penetration into host cell|positive regulation of innate immune response|positive regulation of transcription from RNA polymerase II promoter|regulation of MHC class I biosynthetic process|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding|transcription corepressor activity			ovary(1)|breast(1)|kidney(1)	3				GBM - Glioblastoma multiforme(5;7.45e-142)|Lung(24;2.42e-17)|LUSC - Lung squamous cell carcinoma(38;7.17e-11)	Interferon beta-1a(DB00060)|Interferon beta-1b(DB00068)	TCAATGCGGCGTCCTCCTTCT	0.468													33	57					0	0	1	0	0		A	21077644	A	A	21077644	2	1	55	1	0	0	0	0	0	0	0	1	7562	1136	40	1		1	IFNB1	9	21077644	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1561355	21077644	120135787	747	39781											
IFNA4	3441	broad.mit.edu	37	chr9	21187385	21187385	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccttcaggcaggagaaaTgagagattcttcccatttgt	10	13	10	8	0	2	3	1	1	1	2	4	5	4	3	2	2	0	1	2	2	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:21187385T>G	uc003zon.2	-	1	214	c.146A>C	c.(145-147)CAT>CCT	p.H49P		NM_021068	NP_066546	P05014	IFNA4_HUMAN	interferon, alpha 4 precursor	49					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(5;2.69e-202)|Lung(24;2.26e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		GCAGGAGAAATGAGAGATTCT	0.517													37	141					0	0	1	0	0		G	21187385	G	G	21187385	3	3	55	1	0	0	0	0	1	0	0	0	7555	1464	51	5	427	5	IFNA4	9	21187385	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	109741	21187385	120026046	748	39782											
IFNA13	3447	broad.mit.edu	37	chr9	21367439	21367439	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcatgttggaccaggtgttAttccttcctccttaatcttt	6	19	6	10	0	2	0	1	0	1	0	5	1	5	1	4	2	0	2	4	2	2	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:21367439A>G	uc003zpa.2	-	1	637	c.571T>C	c.(571-573)TAA>CAA	p.*191Q		NM_006900	NP_008831	P01562	IFNA1_HUMAN	interferon, alpha 13 precursor	191					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			ovary(1)	1				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.0173)		ACCAGGTGTTATTCCTTCCTC	0.403													40	106					0	0	1	0	0		G	21367439	G	G	21367439	4	3	55	1	0	0	0	0	0	0	0	0	7549	462	16	3	5	3	IFNA13	9	21367439	Nonstop_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	180054	21367439	119845992	749	39783											
VCP	7415	broad.mit.edu	37	chr9	35059794	35059794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacacagggggcagcttggCgggcctgtaggaggaatgga	9	5	19	8	1	0	0	0	0	0	0	0	3	0	3	1	7	1	4	1	7	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:35059794C>T	uc003zvy.2	-	14	2089	c.1700G>A	c.(1699-1701)CGC>CAC	p.R567H	VCP_uc003zvz.2_RNA|VCP_uc010mkh.1_Missense_Mutation_p.R236H|VCP_uc010mki.1_Missense_Mutation_p.R522H	NM_007126	NP_009057	P55072	TERA_HUMAN	valosin-containing protein	567					activation of caspase activity|double-strand break repair|endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|retrograde protein transport, ER to cytosol	cytosol|endoplasmic reticulum|microsome|nucleus|proteasome complex	ATP binding|ATPase activity|lipid binding|polyubiquitin binding|protein domain specific binding|protein phosphatase binding			upper_aerodigestive_tract(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GGCAGCTTGGCGGGCCTGTAG	0.413													12	54					0	0	1	0	0		T	35059794	T	T	35059794	3	4	55	1	0	0	0	0	1	0	0	0	17166	768	27	1	736	1	VCP	9	35059794	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	13692355	35059794	106153637	750	39784											
TLN1	7094	broad.mit.edu	37	chr9	35720844	35720844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcgatgtagccggcaatgaGctgtgcaatctgctcccctt	8	11	10	12	2	1	1	0	1	1	0	3	2	2	1	3	1	4	5	3	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:35720844G>A	uc003zxt.2	-	11	1525	c.1171C>T	c.(1171-1173)CTC>TTC	p.L391F		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	391	FERM.|Interaction with LAYN (By similarity).				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CCGGCAATGAGCTGTGCAATC	0.512													4	82					0	0	1	0	0		A	35720844	A	A	35720844	3	1	55	1	0	0	0	0	1	0	0	0	15972	971	34	2	6642	2	TLN1	9	35720844	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	661050	35720844	105492587	751	39785											
NPR2	4882	broad.mit.edu	37	chr9	35792815	35792815	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctaagaatgaccattatcGtaccctggttcgcactggcc	9	10	10	12	2	0	2	0	1	0	1	2	2	0	2	3	3	1	4	3	3	4	4	rs115064396	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:35792815G>A	uc003zyd.2	+	1	410	c.410G>A	c.(409-411)CGT>CAT	p.R137H	NPR2_uc010mlb.2_Missense_Mutation_p.R137H	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	137	Extracellular (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	GACCATTATCGTACCCTGGTT	0.602													36	67					0	0	1	0	0		A	35792815	A	A	35792815	3	1	55	1	0	0	0	0	1	0	0	0	10614	1145	40	1	412	1	NPR2	9	35792815	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	71971	35792815	105420616	752	39786											
CCIN	881	broad.mit.edu	37	chr9	36170020	36170020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctccatgcacttcatgcGctgtccacctgttatctttg	5	14	9	13	1	2	0	1	0	1	0	4	0	4	0	3	1	2	4	3	1	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:36170020G>A	uc003zzb.3	+	1	632	c.521G>A	c.(520-522)CGC>CAC	p.R174H		NM_005893	NP_005884	Q13939	CALI_HUMAN	calicin	174	BACK.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			ovary(1)|skin(1)	2			STAD - Stomach adenocarcinoma(86;0.228)			CACTTCATGCGCTGTCCACCT	0.532													17	31					0	0	1	0	0		A	36170020	A	A	36170020	3	1	55	1	0	0	0	0	1	0	0	0	2881	1087	38	1	523	1	CCIN	9	36170020	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	377205	36170020	105043411	753	39787											
FAM75A6	389730	broad.mit.edu	37	chr9	43627207	43627207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaagatgggcctgagcctCggcctgagccataggtgtgg	7	8	16	10	1	0	4	0	3	0	1	1	4	0	4	4	4	2	0	4	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:43627207C>T	uc011lrb.1	-	4	1509	c.1480G>A	c.(1480-1482)GAG>AAG	p.E494K		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	494						integral to membrane					0						GCCTGAGCCTCGGCCTGAGCC	0.537													115	335					0	0	1	0	0		T	43627207	T	T	43627207	3	4	55	1	0	0	0	0	1	0	0	0	5636	893	31	1	2555	1	FAM75A6	9	43627207	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	7457187	43627207	97586224	754	39788											
SMC5	23137	broad.mit.edu	37	chr9	72962062	72962062	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaagagcttcctgcttcacGggactgaatcctacagtatg	10	11	9	11	1	2	2	2	1	0	1	4	3	4	3	2	1	3	3	2	1	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:72962062G>A	uc004ahr.2	+	20	2766	c.2649G>A	c.(2647-2649)ACG>ACA	p.T883T	SMC5_uc011lry.1_Silent_p.T28T	NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein	883					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						CCTGCTTCACGGGACTGAATC	0.438													6	31					0	0	1	0	0		A	72962062	A	A	72962062	2	1	55	1	0	0	0	0	0	0	0	1	14811	1103	39	1		1	SMC5	9	72962062	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	29334855	72962062	68251369	755	39789											
AGTPBP1	23287	broad.mit.edu	37	chr9	88203240	88203240	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgacaccatctggatttAacatagggacaattttaaaa	16	12	7	6	0	1	2	0	2	1	0	1	4	1	4	1	2	1	0	1	2	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:88203240A>G	uc011ltd.1	-	20	2909	c.2876T>C	c.(2875-2877)TTA>TCA	p.L959S	AGTPBP1_uc004aod.3_Missense_Mutation_p.L585S|AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Missense_Mutation_p.L919S|AGTPBP1_uc011lte.1_Missense_Mutation_p.L971S	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	959					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						ATCTGGATTTAACATAGGGAC	0.348													11	16					0	0	1	0	0		G	88203240	G	G	88203240	3	3	55	1	0	0	0	0	1	0	0	0	400	372	13	3	828	3	AGTPBP1	9	88203240	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	15241178	88203240	53010191	756	39790											
AGTPBP1	23287	broad.mit.edu	37	chr9	88287483	88287483	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagttggcagaatatactcGtaaaagctgaaggcaaggta	16	8	11	6	1	0	2	0	1	0	1	1	2	0	2	0	3	2	6	0	3	8	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:88287483G>A	uc011ltd.1	-	6	583	c.550C>T	c.(550-552)CGA>TGA	p.R184*	AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Nonsense_Mutation_p.R184*|AGTPBP1_uc011lte.1_Nonsense_Mutation_p.R236*	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	184					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						GAATATACTCGTAAAAGCTGA	0.363													20	43					0	0	1	0	0		A	88287483	A	A	88287483	4	1	55	1	0	0	0	0	0	1	0	0	400	1153	40	1	3090	1	AGTPBP1	9	88287483	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	84243	88287483	52925948	757	39791											
IARS	3376	broad.mit.edu	37	chr9	95030531	95030531	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaaattgtccagtcacgTgcatctttcagccaatttcc	9	13	7	12	1	3	0	2	0	1	0	5	1	5	1	3	1	2	1	3	1	2	3	rs144681367	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:95030531T>C	uc004art.1	-	14	1613	c.1356A>G	c.(1354-1356)GCA>GCG	p.A452A	IARS_uc004ars.1_Silent_p.A297A|IARS_uc004aru.3_Silent_p.A452A|IARS_uc010mqr.2_Silent_p.A342A|IARS_uc010mqt.2_Intron	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	452					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	TCCAGTCACGTGCATCTTTCA	0.443													46	99					0	0	1	0	0		C	95030531	C	C	95030531	2	2	55	1	0	0	0	0	0	0	0	1	7489	1683	59	3		3	IARS	9	95030531	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	6743048	95030531	46182900	758	39792											
PTCH1	5727	broad.mit.edu	37	chr9	98241295	98241295	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttacctccacatatgtcCtctgccaggcctccaggatg	7	11	9	14	0	1	0	0	0	1	0	4	1	4	1	6	3	2	1	6	3	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:98241295C>A	uc004avk.3	-	8	1390	c.1202G>T	c.(1201-1203)AGG>ATG	p.R401M	PTCH1_uc010mro.2_Missense_Mutation_p.R250M|PTCH1_uc010mrp.2_Missense_Mutation_p.R250M|PTCH1_uc010mrq.2_Missense_Mutation_p.R250M|PTCH1_uc004avl.3_Missense_Mutation_p.R250M|PTCH1_uc010mrr.2_Missense_Mutation_p.R335M|PTCH1_uc004avm.3_Missense_Mutation_p.R400M|PTCH1_uc010mrs.1_Missense_Mutation_p.R121M	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	401	Extracellular (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				CACATATGTCCTCTGCCAGGC	0.478									Basal_Cell_Nevus_syndrome				15	16					1.15088e-07	1.22574e-07	1	1	0		A	98241295	A	A	98241295	3	1	55	1	0	0	0	0	1	0	0	0	12752	681	24	5	3205	5	PTCH1	9	98241295	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3210764	98241295	42972136	759	39793											
HABP4	22927	broad.mit.edu	37	chr9	99220669	99220669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctgttggtaggccagaagCggactcctagaagaggggag	10	8	16	7	1	1	3	0	0	1	3	2	5	2	5	2	5	1	2	2	5	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:99220669C>T	uc010msg.2	+	2	506	c.358C>T	c.(358-360)CGG>TGG	p.R120W	HABP4_uc010msh.2_Missense_Mutation_p.R120W	NM_014282	NP_055097	Q5JVS0	HABP4_HUMAN	hyaluronan binding protein 4	120					platelet activation|platelet degranulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|extracellular region|nucleus	protein binding			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0169)|all_hematologic(171;0.214)				AGGCCAGAAGCGGACTCCTAG	0.493													26	86					0	0	1	0	0		T	99220669	T	T	99220669	3	4	55	1	0	0	0	0	1	0	0	0	6955	759	27	1	364	1	HABP4	9	99220669	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	979374	99220669	41992762	760	39794											
COL15A1	1306	broad.mit.edu	37	chr9	101824544	101824544	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgggagaactgatcccCattcctgccgacagccctcc	9	7	9	16	1	0	2	0	1	0	1	3	4	3	2	6	1	4	1	6	1	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:101824544C>T	uc004azb.1	+	38	3755	c.3549C>T	c.(3547-3549)CCC>CCT	p.P1183P		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1183	Nonhelical region 10 (NC10).			Missing (in Ref. 2; AAC78500).	angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				AACTGATCCCCATTCCTGCCG	0.438													5	77					0	0	1	0	0		T	101824544	T	T	101824544	2	4	55	1	0	0	0	0	0	0	0	1	3675	581	21	4		4	COL15A1	9	101824544	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2603875	101824544	39388887	761	39795											
TGFBR1	7046	broad.mit.edu	37	chr9	101907165	101907165	+	Frame_Shift_Del	DEL	A	-	-																															ccaaaccacagagtgggaacAaaaaggtatacttttgaaca																								rs7861780	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:101907165delA	uc004azc.2	+	6	1201	c.1125delA	c.(1123-1125)ACAfs	p.T375fs	TGFBR1_uc004azd.2_Frame_Shift_Del_p.T298fs|TGFBR1_uc011lvc.1_Frame_Shift_Del_p.T306fs	NM_004612	NP_004603	P36897	TGFR1_HUMAN	transforming growth factor, beta receptor I	375	Protein kinase.|Cytoplasmic (Potential).				activation of MAPKK activity|anterior/posterior pattern formation|artery morphogenesis|collagen fibril organization|embryonic cranial skeleton morphogenesis|germ cell migration|heart development|kidney development|neuron fate commitment|palate development|parathyroid gland development|pathway-restricted SMAD protein phosphorylation|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|pharyngeal system development|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of cellular component movement|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of SMAD protein import into nucleus|positive regulation of survival gene product expression|positive regulation of transcription, DNA-dependent|response to cholesterol|thymus development|transforming growth factor beta receptor signaling pathway		ATP binding|I-SMAD binding|metal ion binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type I|type II transforming growth factor beta receptor binding			lung(2)|ovary(1)	3		Acute lymphoblastic leukemia(62;0.0559)				GAGTGGGAACAAAAAGGTATA	0.353													23	45	---	---	---	---						.	-	101907165	-	-	101907165	7	5	55	1	0	1	0	1	0	0	0	0	15846	117	5	0	1147	0	TGFBR1	9	101907165	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	82621	101907165	39306266	762	39796											
TMEM38B	55151	broad.mit.edu	37	chr9	108536306	108536306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcattggcctcaaagcCggtagatgttgcctcagata	9	11	12	9	1	3	2	3	0	0	2	3	2	3	2	3	3	2	2	3	3	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:108536306C>T	uc004bcu.1	+	6	938	c.821C>T	c.(820-822)CCG>CTG	p.P274L	TMEM38B_uc010mtn.1_3'UTR	NM_018112	NP_060582	Q9NVV0	TM38B_HUMAN	transmembrane protein 38B	274	Cytoplasmic (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			ovary(1)|skin(1)	2						GCCTCAAAGCCGGTAGATGTT	0.393													12	41					0	0	1	0	0		T	108536306	T	T	108536306	3	4	55	1	0	0	0	0	1	0	0	0	16185	652	23	1	843	1	TMEM38B	9	108536306	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6629141	108536306	32677125	763	39797											
PTPN3	5774	broad.mit.edu	37	chr9	112199206	112199206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catagaagtcgagggtccgcGctatgttgatatagcaggat	11	10	13	7	3	0	2	0	1	0	1	2	4	1	3	1	2	1	3	1	2	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:112199206G>A	uc004bed.2	-	9	744	c.632C>T	c.(631-633)GCG>GTG	p.A211V	PTPN3_uc004beb.2_Missense_Mutation_p.A80V|PTPN3_uc004bec.2_Missense_Mutation_p.A80V|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Missense_Mutation_p.A211V|PTPN3_uc011lwh.1_Missense_Mutation_p.A102V	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	211	FERM.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						GAGGGTCCGCGCTATGTTGAT	0.398													15	42					0	0	1	0	0		A	112199206	A	A	112199206	3	1	55	1	0	0	0	0	1	0	0	0	12814	1087	38	1	2181	1	PTPN3	9	112199206	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3662900	112199206	29014225	764	39798											
SVEP1	79987	broad.mit.edu	37	chr9	113148241	113148241	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaggtaatgatgccgtggcCctgcagcagaaaaccttccc	10	7	11	13	1	0	2	0	1	0	1	1	2	1	2	4	2	4	4	4	2	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:113148241C>A	uc010mtz.2	-	43	10511	c.10174G>T	c.(10174-10176)GGC>TGC	p.G3392C	SVEP1_uc010mty.2_Missense_Mutation_p.G1318C	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	3392	Sushi 33.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						ATGCCGTGGCCCTGCAGCAGA	0.493													14	28					4.14922e-12	4.50957e-12	1	1	0		A	113148241	A	A	113148241	3	1	55	1	0	0	0	0	1	0	0	0	15445	623	22	5	565	5	SVEP1	9	113148241	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	949035	113148241	28065190	765	39799											
C9orf43	257169	broad.mit.edu	37	chr9	116188008	116188008	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccgttcatgaccgtctctAtggtaaggggaatatatgct	10	12	10	9	2	2	1	1	1	1	0	3	2	2	2	2	3	1	3	2	3	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:116188008A>G	uc004bho.3	+	11	1424	c.1028A>G	c.(1027-1029)TAT>TGT	p.Y343C	C9orf43_uc004bhp.2_Missense_Mutation_p.Y343C	NM_152786	NP_689999	Q8TAL5	CI043_HUMAN	hypothetical protein LOC257169	343											0						GACCGTCTCTATGGTAAGGGG	0.473													19	41					0	0	1	0	0		G	116188008	G	G	116188008	3	3	55	1	0	0	0	0	1	0	0	0	2486	449	16	3	1066	3	C9orf43	9	116188008	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	3039767	116188008	25025423	766	39800											
COL27A1	85301	broad.mit.edu	37	chr9	116999956	116999956	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagggcaaagtcggagaCaaaggatccattgggtttcc	12	7	12	10	1	0	1	0	0	0	1	3	3	2	2	3	4	0	2	3	4	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:116999956C>G	uc011lxl.1	+	19	2688	c.2688C>G	c.(2686-2688)GAC>GAG	p.D896E	COL27A1_uc004bii.2_RNA	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	896	Collagen-like 5.|Pro-rich.|Triple-helical region.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						AAGTCGGAGACAAAGGATCCA	0.602													16	38					0	0	1	0	0		G	116999956	G	G	116999956	3	3	55	1	0	0	0	0	1	0	0	0	3688	477	17	5	2762	5	COL27A1	9	116999956	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	811948	116999956	24213475	767	39801											
PAPPA	5069	broad.mit.edu	37	chr9	118950298	118950298	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgagaactgtgaccccgaGtgcaaccacacgctgacggg	11	5	13	12	3	0	3	0	3	0	1	0	6	0	3	3	1	3	2	3	1	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:118950298G>A	uc004bjn.2	+	2	1662	c.1281G>A	c.(1279-1281)GAG>GAA	p.E427E	PAPPA_uc011lxp.1_Silent_p.E220E|PAPPA_uc011lxq.1_Silent_p.E220E	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	427	Metalloprotease.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GTGACCCCGAGTGCAACCACA	0.627													21	33					0	0	1	0	0		A	118950298	A	A	118950298	2	1	55	1	0	0	0	0	0	0	0	1	11451	1020	36	4		4	PAPPA	9	118950298	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1950342	118950298	22263133	768	39802											
ASTN2	23245	broad.mit.edu	37	chr9	119858335	119858335	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actattacctttgctgcggcGgcgactgcggtactgctccg	5	11	12	13	5	0	0	0	0	0	0	1	1	1	0	2	3	6	3	2	3	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:119858335G>T	uc004bjs.1	-	5	1365	c.1264C>A	c.(1264-1266)CGC>AGC	p.R422S	ASTN2_uc004bjr.1_Missense_Mutation_p.R422S|ASTN2_uc004bjt.1_Missense_Mutation_p.R371S	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	422	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TTGCTGCGGCGGCGACTGCGG	0.502													3	64					1.23904e-05	1.29368e-05	1	1	0		T	119858335	T	T	119858335	3	4	55	1	0	0	0	0	1	0	0	0	1066	1116	39	5	3063	5	ASTN2	9	119858335	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	908037	119858335	21355096	769	39803											
ASTN2	23245	broad.mit.edu	37	chr9	120176844	120176844	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgcgccccggcagctcgtTacgcacaaagagcaggaggc	10	4	14	13	4	0	1	0	0	0	1	1	3	0	2	2	3	4	5	2	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:120176844T>C	uc004bjs.1	-	1	474	c.373A>G	c.(373-375)AAC>GAC	p.N125D	ASTN2_uc004bjr.1_Missense_Mutation_p.N125D|ASTN2_uc004bjt.1_Missense_Mutation_p.N125D	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	125	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GGCAGCTCGTTACGCACAAAG	0.642													8	17					0	0	1	0	0		C	120176844	C	C	120176844	3	2	55	1	0	0	0	0	1	0	0	0	1066	1754	61	3	3813	3	ASTN2	9	120176844	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	318509	120176844	21036587	770	39804											
TLR4	7099	broad.mit.edu	37	chr9	120474741	120474741	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccttaatattgacaggaaAccccatccagagtttagccc	13	10	6	12	0	0	2	0	1	0	1	1	3	1	3	5	1	3	1	5	1	5	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:120474741A>G	uc004bjz.2	+	3	626	c.335A>G	c.(334-336)AAC>AGC	p.N112S	TLR4_uc004bka.2_Missense_Mutation_p.N72S|TLR4_uc004bkb.2_5'UTR	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	112	LRR 3.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TTGACAGGAAACCCCATCCAG	0.443													6	27					0	0	1	0	0		G	120474741	G	G	120474741	3	3	55	1	0	0	0	0	1	0	0	0	15978	43	2	3	345	3	TLR4	9	120474741	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	297897	120474741	20738690	771	39805											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123171411	123171411	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacagccactacctgctcAgctcctggccgctgcagcgg	7	6	11	17	2	1	0	1	0	0	0	2	0	2	0	4	2	7	5	4	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:123171411A>G	uc004bkf.2	-	30	4779	c.4598T>C	c.(4597-4599)CTG>CCG	p.L1533P	CDK5RAP2_uc010mvi.2_Missense_Mutation_p.L542P|CDK5RAP2_uc004bke.2_Missense_Mutation_p.L818P|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.L1533P|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.L798P|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.L798P|CDK5RAP2_uc011lya.1_Missense_Mutation_p.L798P|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.L1303P|CDK5RAP2_uc004bki.2_Missense_Mutation_p.L1300P	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	1533					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						CTACCTGCTCAGCTCCTGGCC	0.602													21	51					0	0	1	0	0		G	123171411	G	G	123171411	3	3	55	1	0	0	0	0	1	0	0	0	3149	188	7	3	1119	3	CDK5RAP2	9	123171411	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2696670	123171411	18042020	772	39806											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123222895	123222895	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactcaggaaattaatctcGtcatcctccccaattttgat	11	14	4	12	1	4	1	3	1	1	0	7	2	6	2	3	1	0	0	3	1	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:123222895G>A	uc004bkf.2	-	19	2338	c.2157C>T	c.(2155-2157)GAC>GAT	p.D719D	CDK5RAP2_uc004bke.2_Intron|CDK5RAP2_uc004bkg.2_Silent_p.D719D|CDK5RAP2_uc011lxw.1_Translation_Start_Site|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Translation_Start_Site|CDK5RAP2_uc011lya.1_Translation_Start_Site|CDK5RAP2_uc004bkh.1_Intron|CDK5RAP2_uc004bki.2_Intron	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	719					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						AATTAATCTCGTCATCCTCCC	0.443													20	41					0	0	1	0	0		A	123222895	A	A	123222895	2	1	55	1	0	0	0	0	0	0	0	1	3149	1136	40	1		1	CDK5RAP2	9	123222895	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	51484	123222895	17990536	773	39807											
TTLL11	158135	broad.mit.edu	37	chr9	124751596	124751596	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcagaccagaccttctTgatgtcaacgcctttggaag	10	11	10	10	1	3	3	2	1	1	2	3	5	3	4	3	1	1	0	3	1	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:124751596T>C	uc004blt.1	-	4	1605	c.1417A>G	c.(1417-1419)AAG>GAG	p.K473E	TTLL11_uc011lyl.1_Missense_Mutation_p.K473E|TTLL11_uc004blr.2_RNA|TTLL11_uc011lym.1_Missense_Mutation_p.K150E|TTLL11_uc004blu.1_3'UTR	NM_194252	NP_919228	Q8NHH1	TTL11_HUMAN	tubulin tyrosine ligase-like family, member 11	473	TTL.				protein modification process	cilium|microtubule basal body	tubulin-tyrosine ligase activity				0						CAGACCTTCTTGATGTCAACG	0.522													4	61					0	0	1	0	0		C	124751596	C	C	124751596	3	2	55	1	0	0	0	0	1	0	0	0	16750	1821	63	3	1087	3	TTLL11	9	124751596	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1528701	124751596	16461835	774	39808											
PTGS1	5742	broad.mit.edu	37	chr9	125145862	125145862	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactacccccgaggcatcccGccccagagccagatggctgt	8	5	10	18	2	0	2	0	0	0	2	1	3	1	2	6	2	2	2	6	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:125145862G>A	uc004bmg.1	+	8	972	c.837G>A	c.(835-837)CCG>CCA	p.P279P	PTGS1_uc011lys.1_Silent_p.P254P|PTGS1_uc010mwb.1_Silent_p.P170P|PTGS1_uc004bmf.1_Silent_p.P279P|PTGS1_uc004bmh.1_Silent_p.P170P|PTGS1_uc011lyt.1_Silent_p.P170P	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	279					cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	GAGGCATCCCGCCCCAGAGCC	0.627													10	29					0	0	1	0	0		A	125145862	A	A	125145862	2	1	55	1	0	0	0	0	0	0	0	1	12778	1074	38	1		1	PTGS1	9	125145862	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	394266	125145862	16067569	775	39809											
RC3H2	54542	broad.mit.edu	37	chr9	125621307	125621307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggagggaggactctggaaCgttattggacctcacaaagc	11	8	14	8	1	2	0	1	0	1	0	2	5	2	5	1	5	2	1	1	5	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:125621307C>T	uc010mwc.1	-	12	2165	c.1924G>A	c.(1924-1926)GTT>ATT	p.V642I	RC3H2_uc004bnc.2_RNA|RC3H2_uc004bnd.1_Missense_Mutation_p.V642I|RC3H2_uc004bne.3_Missense_Mutation_p.V642I	NM_001100588	NP_001094058	Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type zinc finger domains 2	642	Pro-rich.					cell surface|endomembrane system|membrane|membrane fraction|perinuclear region of cytoplasm	DNA binding|zinc ion binding			ovary(2)|lung(2)	4						GACTCTGGAACGTTATTGGAC	0.488													19	37					0	0	1	0	0		T	125621307	T	T	125621307	3	4	55	1	0	0	0	0	1	0	0	0	13192	536	19	1	1769	1	RC3H2	9	125621307	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	475445	125621307	15592124	776	39810											
GPR21	2844	broad.mit.edu	37	chr9	125797387	125797387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagatgtgtttcagtggtGtgcggagtcctggcacaccg	6	11	16	8	2	1	1	1	0	0	1	2	3	2	2	2	4	1	2	2	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:125797387G>A	uc011lzk.1	+	1	542	c.542G>A	c.(541-543)TGT>TAT	p.C181Y	RABGAP1_uc004bnl.3_Intron|RABGAP1_uc011lzh.1_Intron|RABGAP1_uc011lzj.1_Intron|GPR21_uc011lzi.1_RNA	NM_005294	NP_005285	Q99679	GPR21_HUMAN	G protein-coupled receptor 21	181	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1						TTTCAGTGGTGTGCGGAGTCC	0.488													5	128					0	0	1	0	0		A	125797387	A	A	125797387	3	1	55	1	0	0	0	0	1	0	0	0	6696	1377	48	4	544	4	GPR21	9	125797387	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	176080	125797387	15416044	777	39811											
CRB2	286204	broad.mit.edu	37	chr9	126129551	126129552	+	Frame_Shift_Ins	INS	-	G	G																															gctctgacccggccctctacINSgggggtgtccaggccgcctt																								rs147047443	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:126129551_126129552insG	uc004bnx.1	+	5	947_948	c.855_856insG	c.(853-858)TACGGGfs	p.Y285fs	CRB2_uc004bnw.1_Frame_Shift_Ins_p.Y285fs	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	285_286	Extracellular (Potential).|EGF-like 6.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						CGGCCCTCTACGGGGGTGTCCA	0.693													9	16	---	---	---	---						.	G	126129552	G	G	126129551	7	5	55	1	0	1	1	0	0	0	0	0	3852	547	19	0	873	0	CRB2	9	126129551	Frame_Shift_Ins	INS	-	TCGA-BR-7851-01A-11D-2201-08	332164	126129551	15083880	778	39812											
CRB2	286204	broad.mit.edu	37	chr9	126133051	126133051	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctgcccagctgggggaCgcgacctttgcaggctgcct	4	9	13	15	2	1	0	0	0	1	0	2	2	2	1	4	3	4	3	4	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:126133051C>T	uc004bnx.1	+	7	1811	c.1719C>T	c.(1717-1719)GAC>GAT	p.D573D	CRB2_uc004bnw.1_Silent_p.D573D	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	573	Extracellular (Potential).|Laminin G-like 1.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						AGCTGGGGGACGCGACCTTTG	0.687													21	37					0	0	1	0	0		T	126133051	T	T	126133051	2	4	55	1	0	0	0	0	0	0	0	1	3852	535	19	1		1	CRB2	9	126133051	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3500	126133051	15080380	779	39813											
CRB2	286204	broad.mit.edu	37	chr9	126135794	126135794	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggccagtgacctgggctTcctgcagggcccgggtgctg	3	8	16	14	1	0	1	0	1	0	0	1	1	1	1	5	4	2	3	5	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:126135794T>C	uc004bnx.1	+	10	3076	c.2984T>C	c.(2983-2985)TTC>TCC	p.F995S	CRB2_uc004bnw.1_Missense_Mutation_p.F995S	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	995	Extracellular (Potential).|Laminin G-like 3.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						GACCTGGGCTTCCTGCAGGGC	0.721													4	7					0	0	1	0	0		C	126135794	C	C	126135794	3	2	55	1	0	0	0	0	1	0	0	0	3852	1783	62	3	3022	3	CRB2	9	126135794	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2743	126135794	15077637	780	39814											
NR5A1	2516	broad.mit.edu	37	chr9	127255348	127255348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgctgccctccttgccGtgctggacctggcggtagat	5	10	14	12	2	0	1	0	0	0	1	1	3	1	3	4	4	4	3	4	4	1	2	rs147024762		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:127255348G>A	uc004boo.1	-	5	1138	c.951C>T	c.(949-951)CAC>CAT	p.H317H		NM_004959	NP_004950	Q13285	STF1_HUMAN	nuclear receptor subfamily 5, group A, member 1	317	Important for dimerization.|Ligand-binding.				cell-cell signaling|male gonad development|positive regulation of transcription from RNA polymerase II promoter|primary sex determination|regulation of steroid biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|phospholipid binding|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						CCTCCTTGCCGTGCTGGACCT	0.687													4	17					0	0	1	0	0		A	127255348	A	A	127255348	2	1	55	1	0	0	0	0	0	0	0	1	10654	1136	40	1		1	NR5A1	9	127255348	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1119554	127255348	13958083	781	39815											
PBX3	5090	broad.mit.edu	37	chr9	128723070	128723070	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggccgtgacagctgcacaCgcagtagcagcagctgtgca	10	5	13	13	3	0	1	0	1	0	0	0	1	0	1	1	1	6	8	1	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:128723070C>T	uc004bqb.2	+	6	1067	c.951C>T	c.(949-951)CAC>CAT	p.H317H	PBX3_uc004bqc.2_Silent_p.H136H|PBX3_uc004bqd.2_Silent_p.H136H|PBX3_uc011lzw.1_Silent_p.H242H|PBX3_uc011lzx.1_Silent_p.H228H|PBX3_uc004bqe.2_Silent_p.H225H	NM_006195	NP_006186	P40426	PBX3_HUMAN	pre-B-cell leukemia homeobox 3 isoform 1	317					anterior compartment pattern formation|posterior compartment specification		sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						CAGCTGCACACGCAGTAGCAG	0.547													8	26					0	0	1	0	0		T	128723070	T	T	128723070	2	4	55	1	0	0	0	0	0	0	0	1	11513	535	19	1		1	PBX3	9	128723070	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1467722	128723070	12490361	782	39816											
GOLGA2	2801	broad.mit.edu	37	chr9	131023072	131023072	+	Frame_Shift_Del	DEL	G	-	-																															ctgctgggggctctgggggcGggggttcagctgagaaagga																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:131023072delG	uc011maw.1	-	17	1362	c.1349delC	c.(1348-1350)CCGfs	p.P450fs	GOLGA2_uc010mxw.2_Intron|GOLGA2_uc004buh.2_5'UTR|uc004bun.2_5'Flank	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	450	Potential.|Poly-Pro.					Golgi cisterna membrane	protein binding			ovary(1)	1						CTCTGGGGGCGGGGGTTCAGC	0.597													2	4	---	---	---	---						.	-	131023072	-	-	131023072	7	5	55	1	0	1	0	1	0	0	0	0	6567	1116	39	0	1699	0	GOLGA2	9	131023072	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	2300002	131023072	10190359	783	39817											
GLE1	2733	broad.mit.edu	37	chr9	131285932	131285932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagcaagcagaacaggagcGgcttcggaaggaagaaggcc	15	2	16	8	2	0	2	0	0	0	2	1	6	0	5	1	5	4	3	1	5	6	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:131285932G>A	uc004bvj.2	+	6	818	c.704G>A	c.(703-705)CGG>CAG	p.R235Q	GLE1_uc004bvi.2_Missense_Mutation_p.R235Q|GLE1_uc010myd.2_5'UTR	NM_001003722	NP_001003722	Q53GS7	GLE1_HUMAN	GLE1 RNA export mediator homolog isoform 1	235	Potential.				poly(A)+ mRNA export from nucleus|protein transport|transmembrane transport	cytoplasm|nuclear pore	protein binding				0						GAACAGGAGCGGCTTCGGAAG	0.592													14	45					0	0	1	0	0		A	131285932	A	A	131285932	3	1	55	1	0	0	0	0	1	0	0	0	6450	1116	39	1	726	1	GLE1	9	131285932	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	262860	131285932	9927499	784	39818											
SPTAN1	6709	broad.mit.edu	37	chr9	131371238	131371238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggagacatttctagccggcGcaatgaggtcttggacaggt	9	9	15	8	2	2	2	0	1	2	1	2	4	2	3	1	5	1	1	1	5	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:131371238G>A	uc004bvl.3	+	35	4690	c.4577G>A	c.(4576-4578)CGC>CAC	p.R1526H	SPTAN1_uc004bvm.3_Missense_Mutation_p.R1526H|SPTAN1_uc004bvn.3_Missense_Mutation_p.R1506H	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1526	Spectrin 16.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						TCTAGCCGGCGCAATGAGGTC	0.557													63	112					0	0	1	0	0		A	131371238	A	A	131371238	3	1	55	1	0	0	0	0	1	0	0	0	15142	1087	38	1	4711	1	SPTAN1	9	131371238	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	85306	131371238	9842193	785	39819											
C9orf50	375759	broad.mit.edu	37	chr9	132375517	132375517	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaaaggtagccctgtgTcttctgggtggacctggggg	6	10	16	9	0	3	1	1	0	2	1	3	2	3	2	2	5	1	1	2	5	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:132375517T>A	uc004byc.3	-	6	1259	c.1057A>T	c.(1057-1059)ACA>TCA	p.T353S	C9orf50_uc004byb.3_RNA	NM_199350	NP_955382	Q5SZB4	CI050_HUMAN	hypothetical protein LOC375759	353										ovary(1)|central_nervous_system(1)	2		Ovarian(14;0.00556)				TAGCCCTGTGTCTTCTGGGTG	0.637													16	32					0	0	1	0	0		A	132375517	A	A	132375517	3	1	55	1	0	0	0	0	1	0	0	0	2490	1667	58	5	246	5	C9orf50	9	132375517	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1004279	132375517	8837914	786	39820											
ASS1	445	broad.mit.edu	37	chr9	133355186	133355186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgtacctgaacgaagtcGcgtgagtgtctgcagccctg	8	10	12	11	3	2	2	1	2	1	0	3	3	2	2	2	0	4	2	2	0	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:133355186G>A	uc004bzm.2	+	11	1128	c.772G>A	c.(772-774)GCG>ACG	p.A258T	ASS1_uc004bzn.2_Missense_Mutation_p.A258T|ASS1_uc010mza.2_Missense_Mutation_p.A334T|ASS1_uc004bzo.2_Missense_Mutation_p.A239T|ASS1_uc010mzb.2_Missense_Mutation_p.A296T|ASS1_uc004bzp.2_Missense_Mutation_p.A258T|ASS1_uc010mzc.2_Missense_Mutation_p.A258T	NM_000050	NP_000041	P00966	ASSY_HUMAN	argininosuccinate synthetase 1	258					arginine biosynthetic process|urea cycle	cytosol	argininosuccinate synthase activity|ATP binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000514)	Adenosine triphosphate(DB00171)|L-Arginine(DB00125)|L-Aspartic Acid(DB00128)|L-Citrulline(DB00155)	GAACGAAGTCGCGTGAGTGTC	0.617													18	44					0	0	1	0	0		A	133355186	A	A	133355186	3	1	55	1	0	0	0	0	1	0	0	0	1062	1101	38	1	806	1	ASS1	9	133355186	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	979669	133355186	7858245	787	39821											
BAT2L1	84726	broad.mit.edu	37	chr9	134357808	134357808	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgttgacttgagtgccgaGtctcgggagtcgtctgcgac	5	10	16	10	5	2	2	0	2	2	0	4	5	2	3	1	2	2	1	1	2	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:134357808G>C	uc004can.3	+	20	5089	c.5034G>C	c.(5032-5034)GAG>GAC	p.E1678D	BAT2L1_uc004cao.3_Missense_Mutation_p.E1035D|BAT2L1_uc004cap.3_5'Flank	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1678							protein binding				0						TGAGTGCCGAGTCTCGGGAGT	0.587													33	132					0	0	1	0	0		C	134357808	C	C	134357808	3	2	55	1	0	0	0	0	1	0	0	0	1321	1020	36	5	5112	5	BAT2L1	9	134357808	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1002622	134357808	6855623	788	39822											
GTF3C5	9328	broad.mit.edu	37	chr9	135919198	135919198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacaaggtgctcatgctcCggcccgagaaggaggccttt	9	8	13	11	2	1	2	1	1	0	1	2	4	2	3	3	4	2	2	3	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:135919198C>T	uc004cci.3	+	3	794	c.457C>T	c.(457-459)CGG>TGG	p.R153W	GTF3C5_uc010mzz.2_Missense_Mutation_p.R28W|GTF3C5_uc004ccj.3_Missense_Mutation_p.R153W	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	153						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		GCTCATGCTCCGGCCCGAGAA	0.587													28	74					0	0	1	0	0		T	135919198	T	T	135919198	3	4	55	1	0	0	0	0	1	0	0	0	6892	643	23	1	467	1	GTF3C5	9	135919198	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1561390	135919198	5294233	789	39823											
ADAMTS13	11093	broad.mit.edu	37	chr9	136321690	136321690	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgttgctgctttggggccgGctcacctggaggaagatgtg	6	11	16	8	1	1	1	1	0	0	1	1	3	1	3	2	5	2	4	2	5	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:136321690G>A	uc004cdv.3	+	27	4185	c.3741G>A	c.(3739-3741)CGG>CGA	p.R1247R	ADAMTS13_uc004cdp.3_Silent_p.R418R|ADAMTS13_uc004cdt.1_Silent_p.R1191R|ADAMTS13_uc004cdu.1_Silent_p.R1160R|ADAMTS13_uc004cdw.3_Silent_p.R1191R|ADAMTS13_uc004cdx.3_Silent_p.R1160R|ADAMTS13_uc004cdz.3_Silent_p.R917R|ADAMTS13_uc004cea.1_Silent_p.R43R|ADAMTS13_uc004ceb.3_Silent_p.R43R	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1247	CUB 1.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		TTTGGGGCCGGCTCACCTGGA	0.557													3	21					0	0	1	0	0		A	136321690	A	A	136321690	2	1	55	1	0	0	0	0	0	0	0	1	258	1190	42	2		2	ADAMTS13	9	136321690	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	402492	136321690	4891741	790	39824											
DBH	1621	broad.mit.edu	37	chr9	136501526	136501526	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcgctgggccagcctgccCggccccagcatgcgggaggc	5	4	16	16	3	0	0	0	0	0	0	1	1	0	1	5	4	4	2	5	4	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:136501526C>T	uc004cel.2	+	1	42	c.33C>T	c.(31-33)CCC>CCT	p.P11P		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	11	Cytoplasmic (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	CCAGCCTGCCCGGCCCCAGCA	0.672													17	34					0	0	1	0	0		T	136501526	T	T	136501526	2	4	55	1	0	0	0	0	0	0	0	1	4253	639	23	1		1	DBH	9	136501526	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	179836	136501526	4711905	791	39825											
FCN2	2220	broad.mit.edu	37	chr9	137779089	137779089	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcttaacaccggaaattGtgctgtgatgtttcagggag	10	13	12	6	1	2	2	1	2	1	0	2	4	2	4	1	2	2	2	1	2	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:137779089G>T	uc004cfg.1	+	8	780	c.770G>T	c.(769-771)TGT>TTT	p.C257F	FCN2_uc004cfh.1_Missense_Mutation_p.C219F	NM_004108	NP_004099	Q15485	FCN2_HUMAN	ficolin 2 isoform a precursor	257	Fibrinogen C-terminal.				complement activation, lectin pathway|opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|calcium-dependent protein binding|receptor binding|sugar binding			large_intestine(1)	1		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.58e-08)|Epithelial(140;6.41e-08)|all cancers(34;3.96e-07)		ACCGGAAATTGTGCTGTGATG	0.498													17	67					1.33834e-09	1.43939e-09	1	1	0		T	137779089	T	T	137779089	3	4	55	1	0	0	0	0	1	0	0	0	5806	1377	48	5	800	5	FCN2	9	137779089	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1277563	137779089	3434342	792	39826											
KIAA0649	9858	broad.mit.edu	37	chr9	138376418	138376418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatgggaggcctttggccCgccagggagctgtaggttcc	7	8	15	11	1	0	0	0	0	0	0	1	2	1	2	4	5	1	3	4	5	2	3	rs150799430		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:138376418C>T	uc004cfr.1	+	4	611	c.62C>T	c.(61-63)CCG>CTG	p.P21L		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	21						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		GCCTTTGGCCCGCCAGGGAGC	0.627													13	28					0	0	1	0	0		T	138376418	T	T	138376418	3	4	55	1	0	0	0	0	1	0	0	0	8203	652	23	1	64	1	KIAA0649	9	138376418	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	597329	138376418	2837013	793	39827											
FAM69B	138311	broad.mit.edu	37	chr9	139617653	139617653	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcatggcgcctggcacgcGgccgcccttccacccctgtt	3	7	11	20	5	0	0	0	0	0	0	1	0	1	0	7	3	0	3	7	3	0	2	rs148678023	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:139617653G>A	uc004cik.2	+	5	817	c.723G>A	c.(721-723)GCG>GCA	p.A241A	FAM69B_uc004cil.2_Silent_p.A154A|SNHG7_uc004cim.2_Intron	NM_152421	NP_689634	Q5VUD6	FA69B_HUMAN	hypothetical protein LOC138311	241	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.03e-05)|Epithelial(140;0.00013)		CCTGGCACGCGGCCGCCCTTC	0.706													4	54					0	0	1	0	0		A	139617653	A	A	139617653	2	1	55	1	0	0	0	0	0	0	0	1	5617	1103	39	1		1	FAM69B	9	139617653	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1241235	139617653	1595778	794	39828											
PNPLA7	375775	broad.mit.edu	37	chr9	140438216	140438216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggtcctcttcctggcccGctgccggggcagggcagtgt	2	10	15	14	2	1	0	0	0	1	0	3	0	3	0	4	5	1	3	4	5	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:140438216G>A	uc004cnf.2	-	4	587	c.250C>T	c.(250-252)CGG>TGG	p.R84W	PNPLA7_uc010ncj.1_Missense_Mutation_p.R109W	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	84					lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		TTCCTGGCCCGCTGCCGGGGC	0.637													32	79					0	0	1	0	0		A	140438216	A	A	140438216	3	1	55	1	0	0	0	0	1	0	0	0	12189	1086	38	1	3827	1	PNPLA7	9	140438216	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	820563	140438216	775215	795	39829											
CACNA1B	774	broad.mit.edu	37	chr9	140846745	140846745	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaaacgatgcggccggcaAcacctggaactggctctact	11	6	11	13	3	1	0	0	0	1	0	1	3	1	1	2	4	5	2	2	4	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr9:140846745A>G	uc004cog.2	+	7	1131	c.986A>G	c.(985-987)AAC>AGC	p.N329S		NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	329	I.|Extracellular (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	GCGGCCGGCAACACCTGGAAC	0.592													8	36					0	0	1	0	0		G	140846745	G	G	140846745	3	3	55	1	0	0	0	0	1	0	0	0	2542	43	2	3	1012	3	CACNA1B	9	140846745	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	408529	140846745	366686	796	39830											
DIP2C	22982	broad.mit.edu	37	chr10	429975	429975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcacttacaggggttcGcgccgtccgccactatcagc	6	9	9	17	4	2	0	2	0	0	0	5	0	4	0	4	2	2	1	4	2	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:429975G>A	uc001ifp.2	-	16	1958	c.1868C>T	c.(1867-1869)GCG>GTG	p.A623V	DIP2C_uc009xhj.1_Missense_Mutation_p.A319V	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	623						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		ACAGGGGTTCGCGCCGTCCGC	0.507													5	17					0	0	1	0	0		A	429975	A	A	429975	3	1	55	1	0	0	0	0	1	0	0	0	4535	1087	38	1	2890	1	DIP2C	10	429975	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08		429975	135104772	797	39831											
WDR37	22884	broad.mit.edu	37	chr10	1149661	1149661	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctcaagagccaccagggCgtggtcatcgcctccgactg	7	7	11	16	3	2	1	2	0	0	1	5	2	4	1	5	2	1	0	5	2	1	0	rs12571177		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:1149661C>T	uc001igf.1	+	10	1019	c.846C>T	c.(844-846)GGC>GGT	p.G282G	WDR37_uc009xhm.1_Silent_p.G283G|WDR37_uc009xhn.1_RNA|WDR37_uc001igg.1_RNA	NM_014023	NP_054742	Q9Y2I8	WDR37_HUMAN	WD repeat domain 37	282	WD 3.										0		all_epithelial(10;0.0449)|Colorectal(49;0.142)		Epithelial(11;0.134)		GCCACCAGGGCGTGGTCATCG	0.647													16	66					0	0	1	0	0		T	1149661	T	T	1149661	2	4	55	1	0	0	0	0	0	0	0	1	17317	755	27	1		1	WDR37	10	1149661	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	719686	1149661	134385086	798	39832											
UCMA	221044	broad.mit.edu	37	chr10	13276241	13276241	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaagcaagacagcaggacGgcctgtctccaagtcatctt	12	7	11	11	1	3	2	1	0	2	2	4	4	3	3	2	2	2	2	2	2	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:13276241G>A	uc001imd.2	-	1	91	c.18C>T	c.(16-18)GCC>GCT	p.A6A		NM_145314	NP_660357	Q8WVF2	UCMA_HUMAN	upper zone of growth plate and cartilage matrix	6						proteinaceous extracellular matrix					0						ACAGCAGGACGGCCTGTCTCC	0.582													18	39					0	0	1	0	0		A	13276241	A	A	13276241	2	1	55	1	0	0	0	0	0	0	0	1	16952	1103	39	1		1	UCMA	10	13276241	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	12126580	13276241	122258506	799	39833											
SEPHS1	22929	broad.mit.edu	37	chr10	13370368	13370368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgtcctgttgagcctcGccatgttcatcatcgcctcc	5	13	7	16	2	2	1	2	1	0	0	6	1	4	1	6	0	2	2	6	0	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:13370368G>A	uc001imk.2	-	7	1093	c.734C>T	c.(733-735)GCG>GTG	p.A245V	SEPHS1_uc001imh.2_Missense_Mutation_p.A169V|SEPHS1_uc010qbs.1_Missense_Mutation_p.A197V|SEPHS1_uc001imi.2_Missense_Mutation_p.A245V|SEPHS1_uc001imj.2_Missense_Mutation_p.A245V|SEPHS1_uc010qbt.1_Missense_Mutation_p.A178V	NM_012247	NP_036379	P49903	SPS1_HUMAN	selenophosphate synthetase 1	245					protein modification process		ATP binding|GTP binding|selenide, water dikinase activity			skin(1)	1						GTTGAGCCTCGCCATGTTCAT	0.368													4	117					0	0	1	0	0		A	13370368	A	A	13370368	3	1	55	1	0	0	0	0	1	0	0	0	14079	1087	38	1	456	1	SEPHS1	10	13370368	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	94127	13370368	122164379	800	39834											
FAM107B	83641	broad.mit.edu	37	chr10	14816291	14816291	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtctggggatggaagcGtgaaacaccactgcttcaca	11	8	13	9	1	2	1	1	1	1	0	2	4	2	3	1	4	3	1	1	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:14816291G>A	uc001ina.1	-	1	606	c.372C>T	c.(370-372)CAC>CAT	p.H124H	FAM107B_uc010qbu.1_RNA	NM_031453	NP_113641	Q9H098	F107B_HUMAN	hypothetical protein LOC83641	Error:Variant_position_missing_in_Q9H098_after_alignment										breast(4)	4						GGATGGAAGCGTGAAACACCA	0.582													23	47					0	0	1	0	0		A	14816291	A	A	14816291	2	1	55	1	0	0	0	0	0	0	0	1	5401	1136	40	1		1	FAM107B	10	14816291	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1445923	14816291	120718456	801	39835											
CUBN	8029	broad.mit.edu	37	chr10	17146512	17146512	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacaagttcctccattcaaAcaggggttgctcaaacactc	13	9	6	13	0	2	0	2	0	0	0	5	0	4	0	2	2	3	3	2	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:17146512A>G	uc001ioo.2	-	12	1375	c.1323T>C	c.(1321-1323)TGT>TGC	p.C441C		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	441	EGF-like 7; calcium-binding (Potential).				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CTCCATTCAAACAGGGGTTGC	0.463													6	31					0	0	1	0	0		G	17146512	G	G	17146512	2	3	55	1	0	0	0	0	0	0	0	1	4054	41	2	3		3	CUBN	10	17146512	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2330221	17146512	118388235	802	39836											
VIM	7431	broad.mit.edu	37	chr10	17275857	17275857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacctcacggctgccctgcGtgacgtacgtcagcaatatg	8	9	11	13	4	2	2	2	2	0	0	2	2	2	2	2	1	4	3	2	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:17275857G>A	uc001iou.2	+	5	1222	c.809G>A	c.(808-810)CGT>CAT	p.R270H	VIM_uc001iov.1_Missense_Mutation_p.R270H|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.R270H|VIM_uc001ioy.1_Missense_Mutation_p.R270H|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.R270H|VIM_uc001ipc.1_Missense_Mutation_p.R270H	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	270	Rod.|Coil 2.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						GCTGCCCTGCGTGACGTACGT	0.498													13	17					0	0	1	0	0		A	17275857	A	A	17275857	3	1	55	1	0	0	0	0	1	0	0	0	17192	1145	40	1	823	1	VIM	10	17275857	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	129345	17275857	118258890	803	39837											
NEBL	10529	broad.mit.edu	37	chr10	21106597	21106597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcagaaattgcagttccccGttgaagttctcccttatatt	10	15	6	10	1	2	2	1	1	1	1	4	2	3	2	3	0	1	4	3	0	4	7	rs114875104	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:21106597G>A	uc001iqi.2	-	21	2477	c.2080C>T	c.(2080-2082)CGG>TGG	p.R694W	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_RNA	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	694	Nebulin 20.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						GCAGTTCCCCGTTGAAGTTCT	0.383													23	48					0	0	1	0	0		A	21106597	A	A	21106597	3	1	55	1	0	0	0	0	1	0	0	0	10322	1144	40	1	996	1	NEBL	10	21106597	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3830740	21106597	114428150	804	39838											
NEBL	10529	broad.mit.edu	37	chr10	21108359	21108359	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagaaacgacttgccgcactCagctgctcctggtttcgcct	7	10	9	15	3	1	1	1	0	0	1	3	2	2	1	3	1	4	4	3	1	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:21108359C>T	uc001iqi.2	-	20	2446	c.2049G>A	c.(2047-2049)CTG>CTA	p.L683L	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_RNA	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	683	Nebulin 19.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						TTGCCGCACTCAGCTGCTCCT	0.373													45	83					0	0	1	0	0		T	21108359	T	T	21108359	2	4	55	1	0	0	0	0	0	0	0	1	10322	813	29	4		4	NEBL	10	21108359	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1762	21108359	114426388	805	39839											
ACBD5	91452	broad.mit.edu	37	chr10	27499857	27499857	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcttgacttcaccttttcCttcaactgcaaccacctgca	9	13	4	15	0	2	1	2	1	0	0	3	1	3	1	4	0	5	3	4	0	2	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:27499857C>A	uc010qdp.1	-	9	1281	c.1090G>T	c.(1090-1092)GGA>TGA	p.G364*	ACBD5_uc010qdm.1_Nonsense_Mutation_p.G362*|ACBD5_uc010qdn.1_Nonsense_Mutation_p.G255*|ACBD5_uc010qdo.1_Nonsense_Mutation_p.G187*|ACBD5_uc001ito.2_Nonsense_Mutation_p.G329*|ACBD5_uc001itp.2_Nonsense_Mutation_p.G255*|ACBD5_uc001itq.2_Nonsense_Mutation_p.G255*|ACBD5_uc001itr.1_Nonsense_Mutation_p.G153*	NM_145698	NP_663736	Q5T8D3	ACBD5_HUMAN	acyl-Coenzyme A binding domain containing 5	373					transport	integral to membrane|peroxisomal membrane	fatty-acyl-CoA binding				0						TCACCTTTTCCTTCAACTGCA	0.468													25	221					1.06801e-11	1.15718e-11	1	1	0		A	27499857	A	A	27499857	4	1	55	1	0	0	0	0	0	1	0	0	125	690	24	5	507	5	ACBD5	10	27499857	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6391498	27499857	108034890	806	39840											
MPP7	143098	broad.mit.edu	37	chr10	28378678	28378678	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgtatgtgggtacgtcagCtgtgtcgtactgatcactct	6	15	11	9	3	3	1	2	1	1	0	5	1	3	1	0	1	3	4	0	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:28378678C>T	uc001iua.1	-	14	1449	c.1045G>A	c.(1045-1047)GCT>ACT	p.A349T	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Missense_Mutation_p.A349T|MPP7_uc009xla.2_Missense_Mutation_p.A349T|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	349					establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						GGTACGTCAGCTGTGTCGTAC	0.383													8	131					0	0	1	0	0		T	28378678	T	T	28378678	3	4	55	1	0	0	0	0	1	0	0	0	9757	797	28	2	709	2	MPP7	10	28378678	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	878821	28378678	107156069	807	39841											
ZNF438	220929	broad.mit.edu	37	chr10	31134324	31134324	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgagtccccttgcttcCtgggaaggtcccttcttgta	4	15	9	13	0	1	1	0	1	1	0	5	2	5	2	5	2	1	2	5	2	2	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:31134324C>A	uc010qdz.1	-	8	2488	c.2053G>T	c.(2053-2055)GGA>TGA	p.G685*	ZNF438_uc001ivn.2_Nonsense_Mutation_p.G636*|ZNF438_uc010qdy.1_Nonsense_Mutation_p.G675*|ZNF438_uc001ivo.3_Nonsense_Mutation_p.G249*|ZNF438_uc009xlg.2_Nonsense_Mutation_p.G685*|ZNF438_uc001ivp.3_Nonsense_Mutation_p.G675*|ZNF438_uc010qea.1_Nonsense_Mutation_p.G685*|ZNF438_uc010qeb.1_Nonsense_Mutation_p.G685*	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	685					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				CCCTTGCTTCCTGGGAAGGTC	0.498													22	56					6.32553e-13	6.90488e-13	1	1	0		A	31134324	A	A	31134324	4	1	55	1	0	0	0	0	0	1	0	0	17935	690	24	5	437	5	ZNF438	10	31134324	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2755646	31134324	104400423	808	39842											
C10orf68	79741	broad.mit.edu	37	chr10	33000652	33000652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttctgaaggagaaggaCgtagcagtaagtataatgat	17	9	11	4	1	1	3	0	2	1	1	1	5	1	4	0	2	2	4	0	2	7	5	rs34466233		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:33000652C>T	uc001iwn.3	+	7	957	c.484C>T	c.(484-486)CGT>TGT	p.R162C	C10orf68_uc001iwl.1_Missense_Mutation_p.R170C|C10orf68_uc001iwm.1_Missense_Mutation_p.R138C|C10orf68_uc010qei.1_Missense_Mutation_p.R89C	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	162										skin(2)|ovary(1)	3						AGGAGAAGGACGTAGCAGTAA	0.299													9	24					0	0	1	0	0		T	33000652	T	T	33000652	3	4	55	1	0	0	0	0	1	0	0	0	1616	536	19	1	502	1	C10orf68	10	33000652	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1866328	33000652	102534095	809	39843											
FZD8	8325	broad.mit.edu	37	chr10	35928685	35928685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtggcctcccagcgcgggCggttgtgctgctcgtagaag	4	8	17	12	5	0	1	0	0	0	1	2	1	1	1	2	3	3	4	2	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:35928685C>T	uc001iyz.1	-	1	1678	c.1673G>A	c.(1672-1674)CGC>CAC	p.R558H		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	558	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						CCAGCGCGGGCGGTTGTGCTG	0.667													6	18					0	0	1	0	0		T	35928685	T	T	35928685	3	4	55	1	0	0	0	0	1	0	0	0	6150	768	27	1	415	1	FZD8	10	35928685	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2928033	35928685	99606062	810	39844											
ANKRD30A	91074	broad.mit.edu	37	chr10	37430688	37430688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaggctgcacccttggCggaaagaacacctgacacag	12	6	12	11	1	0	4	0	3	0	1	0	5	0	5	2	3	2	2	2	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:37430688C>T	uc001iza.1	+	7	794	c.695C>T	c.(694-696)GCG>GTG	p.A232V		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	288						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GCACCCTTGGCGGAAAGAACA	0.423													4	64					0	0	1	0	0		T	37430688	T	T	37430688	3	4	55	1	0	0	0	0	1	0	0	0	658	768	27	1	721	1	ANKRD30A	10	37430688	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1502003	37430688	98104059	811	39845											
PPYR1	5540	broad.mit.edu	37	chr10	47087154	47087154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccttcatccagtgcatgtCggtgacggtctccatcctct	5	12	10	14	2	3	1	1	1	2	0	7	1	5	1	4	3	1	1	4	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:47087154C>T	uc001jee.2	+	3	790	c.371C>T	c.(370-372)TCG>TTG	p.S124L	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.S124L	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	124	Helical; Name=3; (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						CAGTGCATGTCGGTGACGGTC	0.592													38	174					0	0	1	0	0		T	47087154	T	T	47087154	3	4	55	1	0	0	0	0	1	0	0	0	12438	893	31	1	373	1	PPYR1	10	47087154	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	9656466	47087154	88447593	812	39846											
GDF10	2662	broad.mit.edu	37	chr10	48429172	48429172	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggatgtagggcgcatagggGctgggccggggcacccccgg	6	4	20	11	3	0	0	0	0	0	0	0	1	0	1	3	8	0	4	3	8	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:48429172G>A	uc001jfb.2	-	2	1170	c.714C>T	c.(712-714)AGC>AGT	p.S238S	GDF10_uc009xnp.2_Silent_p.S237S|GDF10_uc009xnq.1_Silent_p.S238S	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	238					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						GCGCATAGGGGCTGGGCCGGG	0.667													6	10					0	0	1	0	0		A	48429172	A	A	48429172	2	1	55	1	0	0	0	0	0	0	0	1	6326	1194	42	2		2	GDF10	10	48429172	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1342018	48429172	87105575	813	39847											
SLC18A3	6572	broad.mit.edu	37	chr10	50819158	50819158	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagagcgaagacgtgaagatCggggtgctgtttgcttccaa	10	9	15	7	3	0	4	0	1	0	3	2	6	1	4	1	2	3	3	1	2	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:50819158C>T	uc001jhw.2	+	1	812	c.372C>T	c.(370-372)ATC>ATT	p.I124I	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	124	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						ACGTGAAGATCGGGGTGCTGT	0.652													30	66					0	0	1	0	0		T	50819158	T	T	50819158	2	4	55	1	0	0	0	0	0	0	0	1	14452	874	31	1		1	SLC18A3	10	50819158	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2389986	50819158	84715589	814	39848											
PCDH15	65217	broad.mit.edu	37	chr10	55973753	55973754	+	Missense_Mutation	DNP	AA	GC	GC																															tttactggctccaggagactAagttctgctgtcctaggatg																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:55973753_55973754AA>GC	uc001jju.1	-	10	1435_1436	c.1040_1041TT>GC	c.(1039-1041)CTT>CGC	p.L347R	PCDH15_uc010qhq.1_Missense_Mutation_p.L352R|PCDH15_uc010qhr.1_Missense_Mutation_p.L347R|PCDH15_uc010qhs.1_Missense_Mutation_p.L352R|PCDH15_uc010qht.1_Missense_Mutation_p.L347R|PCDH15_uc010qhu.1_Missense_Mutation_p.L347R|PCDH15_uc001jjv.1_Missense_Mutation_p.L325R|PCDH15_uc010qhv.1_Missense_Mutation_p.L347R|PCDH15_uc010qhw.1_Missense_Mutation_p.L310R|PCDH15_uc010qhx.1_Missense_Mutation_p.L347R|PCDH15_uc010qhy.1_Missense_Mutation_p.L352R|PCDH15_uc010qhz.1_Missense_Mutation_p.L347R|PCDH15_uc010qia.1_Missense_Mutation_p.L325R|PCDH15_uc010qib.1_Missense_Mutation_p.L325R|PCDH15_uc001jjw.2_Missense_Mutation_p.L347R	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	347	Cadherin 3.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CCAGGAGACTAAGTTCTGCTGT	0.366										HNSCC(58;0.16)			11	35					0	0	1	0	0		GC	55973754	GC	GC	55973753	3	3	55	1	0	0	0	0	1	0	0	0	11530	349	13	3	6566	3	PCDH15	10	55973753	Missense_Mutation	DNP	AA	TCGA-BR-7851-01A-11D-2201-08	5154595	55973753	79560994	815	39849											
PCDH15	65217	broad.mit.edu	37	chr10	56077174	56077174	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagtggtggtggtggttcGcctctcattcagattttggg	5	14	16	6	1	2	2	2	0	1	2	4	3	2	2	1	5	0	1	1	5	0	4	rs111033260	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:56077174G>A	uc001jju.1	-	8	1128	c.733C>T	c.(733-735)CGA>TGA	p.R245*	PCDH15_uc010qhq.1_Nonsense_Mutation_p.R250*|PCDH15_uc010qhr.1_Nonsense_Mutation_p.R245*|PCDH15_uc010qhs.1_Nonsense_Mutation_p.R250*|PCDH15_uc010qht.1_Nonsense_Mutation_p.R245*|PCDH15_uc010qhu.1_Nonsense_Mutation_p.R245*|PCDH15_uc001jjv.1_Nonsense_Mutation_p.R223*|PCDH15_uc010qhv.1_Nonsense_Mutation_p.R245*|PCDH15_uc010qhw.1_Nonsense_Mutation_p.R208*|PCDH15_uc010qhx.1_Nonsense_Mutation_p.R245*|PCDH15_uc010qhy.1_Nonsense_Mutation_p.R250*|PCDH15_uc010qhz.1_Nonsense_Mutation_p.R245*|PCDH15_uc010qia.1_Nonsense_Mutation_p.R223*|PCDH15_uc010qib.1_Nonsense_Mutation_p.R223*|PCDH15_uc001jjw.2_Nonsense_Mutation_p.R245*	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	245	Extracellular (Potential).|Cadherin 2.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GTGGTGGTTCGCCTCTCATTC	0.413										HNSCC(58;0.16)			37	94					0	0	1	0	0		A	56077174	A	A	56077174	4	1	55	1	0	0	0	0	0	1	0	0	11530	1095	38	1	6882	1	PCDH15	10	56077174	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	103421	56077174	79457573	816	39850											
BICC1	80114	broad.mit.edu	37	chr10	60273020	60273020	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacgacttggtcgccggggcGaccctgcacagcccggagtg	6	5	16	14	5	0	0	0	0	0	0	1	4	0	1	3	4	2	1	3	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:60273020G>A	uc001jki.1	+	1	117	c.117G>A	c.(115-117)GCG>GCA	p.A39A		NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	39					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						TCGCCGGGGCGACCCTGCACA	0.677													14	21					0	0	1	0	0		A	60273020	A	A	60273020	2	1	55	1	0	0	0	0	0	0	0	1	1428	1045	37	1		1	BICC1	10	60273020	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4195846	60273020	75261727	817	39851											
HKDC1	80201	broad.mit.edu	37	chr10	71007271	71007271	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggcggccatcctgacacGcctccgggagaacaagaagg	10	5	13	13	3	1	3	0	1	1	2	3	4	3	3	4	4	1	0	4	4	3	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:71007271G>A	uc001jpf.3	+	9	1320	c.1187G>A	c.(1186-1188)CGC>CAC	p.R396H	HKDC1_uc010qje.1_Missense_Mutation_p.R259H	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	396					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						ATCCTGACACGCCTCCGGGAG	0.612													19	45					0	0	1	0	0		A	71007271	A	A	71007271	3	1	55	1	0	0	0	0	1	0	0	0	7209	1087	38	1	1221	1	HKDC1	10	71007271	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	10734251	71007271	64527476	818	39852											
TACR2	6865	broad.mit.edu	37	chr10	71175863	71175863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagccagcgccagattgaCgatgaagtagttggtgactg	10	9	14	8	2	1	4	1	3	0	1	1	5	1	4	2	1	2	2	2	1	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:71175863C>T	uc001jpn.2	-	1	812	c.217G>A	c.(217-219)GTC>ATC	p.V73I		NM_001057	NP_001048	P21452	NK2R_HUMAN	tachykinin receptor 2	73	Helical; Name=2; (Potential).				excretion|muscle contraction	integral to plasma membrane	tachykinin receptor activity			prostate(1)	1					Clonidine(DB00575)|Octreotide(DB00104)	GCCAGATTGACGATGAAGTAG	0.572													12	15					0	0	1	0	0		T	71175863	T	T	71175863	3	4	55	1	0	0	0	0	1	0	0	0	15531	536	19	1	999	1	TACR2	10	71175863	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	168592	71175863	64358884	819	39853											
COL13A1	1305	broad.mit.edu	37	chr10	71562436	71562436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggagcagcaaatggagaCggctattttgggacgagtca	11	7	16	7	3	1	1	1	0	0	1	1	5	1	3	0	5	2	3	0	5	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:71562436C>T	uc001jpr.1	+	1	793	c.257C>T	c.(256-258)ACG>ATG	p.T86M	COL13A1_uc001jqj.1_Missense_Mutation_p.T86M|COL13A1_uc001jps.1_Missense_Mutation_p.T86M|COL13A1_uc001jpt.1_Missense_Mutation_p.T86M|COL13A1_uc001jpu.1_Missense_Mutation_p.T86M|COL13A1_uc001jpv.1_Missense_Mutation_p.T86M|COL13A1_uc001jpx.1_Missense_Mutation_p.T86M|COL13A1_uc001jpw.1_Missense_Mutation_p.T86M|COL13A1_uc001jpy.1_Missense_Mutation_p.T86M|COL13A1_uc001jpz.1_Missense_Mutation_p.T86M|COL13A1_uc001jqa.1_Missense_Mutation_p.T86M|COL13A1_uc001jqc.1_Missense_Mutation_p.T86M|COL13A1_uc001jqb.1_Missense_Mutation_p.T86M|COL13A1_uc001jql.2_Missense_Mutation_p.T86M|COL13A1_uc001jqd.1_Missense_Mutation_p.T86M|COL13A1_uc001jqe.1_Missense_Mutation_p.T86M|COL13A1_uc001jqf.1_Missense_Mutation_p.T86M|COL13A1_uc001jqg.1_Missense_Mutation_p.T86M|COL13A1_uc001jqh.1_Missense_Mutation_p.T86M|COL13A1_uc001jqi.1_Missense_Mutation_p.T86M	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	86	Extracellular (Potential).|Nonhelical region 1 (NC1).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	CAAATGGAGACGGCTATTTTG	0.652													51	152					0	0	1	0	0		T	71562436	T	T	71562436	3	4	55	1	0	0	0	0	1	0	0	0	3673	536	19	1	259	1	COL13A1	10	71562436	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	386573	71562436	63972311	820	39854											
KIAA1274	27143	broad.mit.edu	37	chr10	72285747	72285747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagcccagcagacggtctcgGcaggcaccccatttgagggc	8	5	13	15	2	1	2	0	1	1	1	2	2	1	2	3	4	2	3	3	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:72285747G>A	uc001jrd.3	+	2	321	c.40G>A	c.(40-42)GCA>ACA	p.A14T		NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	14										ovary(2)|central_nervous_system(1)	3						GACGGTCTCGGCAGGCACCCC	0.597													16	38					0	0	1	0	0		A	72285747	A	A	72285747	3	1	55	1	0	0	0	0	1	0	0	0	8236	1203	42	2	42	2	KIAA1274	10	72285747	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	723311	72285747	63249000	821	39855											
PRF1	5551	broad.mit.edu	37	chr10	72358862	72358862	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggcgggctgggtggaggcGttgaagtggtggggcaggtc	5	8	23	5	2	0	1	0	1	0	0	1	2	0	2	0	9	0	3	0	9	2	2	rs141130900	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:72358862G>A	uc009xqg.2	-	3	776	c.615C>T	c.(613-615)AAC>AAT	p.N205N	PRF1_uc001jrf.3_Silent_p.N205N	NM_001083116	NP_001076585	P14222	PERF_HUMAN	perforin 1 precursor	205	MACPF.				apoptosis|cellular defense response|cytolysis|defense response to tumor cell|defense response to virus|immune response to tumor cell|protein homooligomerization	cytolytic granule|endosome lumen|extracellular region|integral to membrane|plasma membrane	calcium ion binding|protein binding|wide pore channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						GGGTGGAGGCGTTGAAGTGGT	0.632			M			various leukaemia|lymphoma	Type 2 familial hemophagocytic lymphohistiocytosis		Familial_Hemophagocytic_Lymphohistiocytosis				8	27					0	0	1	0	0		A	72358862	A	A	72358862	2	1	55	1	0	0	0	0	0	0	0	1	12500	1136	40	1		1	PRF1	10	72358862	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	73115	72358862	63175885	822	39856											
PSAP	5660	broad.mit.edu	37	chr10	73578385	73578385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctactcacattgcactgggCtgctgtctctgtgttctggc	4	14	11	12	0	3	0	1	0	2	0	4	0	3	0	0	2	3	5	0	2	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:73578385C>T	uc001jsm.2	-	13	1632	c.1528G>A	c.(1528-1530)GCC>ACC	p.A510T	PSAP_uc001jsl.2_Missense_Mutation_p.A234T	NM_002778	NP_002769	P07602	SAP_HUMAN	prosaposin isoform a preproprotein	510	Saposin A-type 2.				glycosphingolipid metabolic process|lipid transport|platelet activation|platelet degranulation	extracellular space|Golgi apparatus|integral to membrane|lysosomal lumen	enzyme activator activity|lipid binding			ovary(1)	1						TTGCACTGGGCTGCTGTCTCT	0.493													7	205					0	0	1	0	0		T	73578385	T	T	73578385	3	4	55	1	0	0	0	0	1	0	0	0	12665	797	28	2	54	2	PSAP	10	73578385	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1219523	73578385	61956362	823	39857											
DNAJB12	54788	broad.mit.edu	37	chr10	74095662	74095662	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatatctgtgtcgccaaagTagcgtgcccggtacagcaag	11	8	11	11	3	1	0	0	0	1	0	2	0	1	0	2	1	4	3	2	1	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:74095662T>C	uc010qjv.1	-	8	1286	c.1136A>G	c.(1135-1137)TAC>TGC	p.Y379C	DNAJB12_uc001jsz.2_Missense_Mutation_p.Y379C|DNAJB12_uc001jta.2_Missense_Mutation_p.Y379C	NM_017626	NP_060096	Q9NXW2	DJB12_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 12	345					protein folding	endoplasmic reticulum|integral to membrane	heat shock protein binding|unfolded protein binding				0						GTCGCCAAAGTAGCGTGCCCG	0.597													4	99					0	0	1	0	0		C	74095662	C	C	74095662	3	2	55	1	0	0	0	0	1	0	0	0	4623	1638	57	3	97	3	DNAJB12	10	74095662	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	517277	74095662	61439085	824	39858											
PPP3CB	5532	broad.mit.edu	37	chr10	75198132	75198132	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctatccaaaccctttgcCtcttcaaaactgcagattct	11	13	3	14	0	3	1	1	0	2	1	5	1	5	1	4	0	4	1	4	0	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:75198132C>A	uc001jue.2	-	14	1578	c.1443G>T	c.(1441-1443)GAG>GAT	p.E481D	PPP3CB_uc001juf.2_Missense_Mutation_p.E482D|PPP3CB_uc001jug.2_Missense_Mutation_p.E472D|PPP3CB_uc010qkj.1_Missense_Mutation_p.E109D	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	481	Inhibitory domain.									skin(1)	1	Prostate(51;0.0119)					AACCCTTTGCCTCTTCAAAAC	0.393													5	130					1	1	1	1	0		A	75198132	A	A	75198132	3	1	55	1	0	0	0	0	1	0	0	0	12420	680	24	5	135	5	PPP3CB	10	75198132	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1102470	75198132	60336615	825	39859											
KCNMA1	3778	broad.mit.edu	37	chr10	78647231	78647231	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcagaagatcaggtccgtCggcacgagctcaaactcata	14	6	10	11	3	3	2	3	0	0	2	5	3	4	2	1	2	3	3	1	2	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:78647231C>T	uc001jxn.2	-	28	3681	c.3504G>A	c.(3502-3504)CCG>CCA	p.P1168P	KCNMA1_uc001jxj.2_Silent_p.P1114P|KCNMA1_uc001jxk.1_Silent_p.P786P|KCNMA1_uc009xrt.1_Silent_p.P959P|KCNMA1_uc001jxl.1_Silent_p.P793P|KCNMA1_uc001jxo.2_Silent_p.P1151P|KCNMA1_uc001jxm.2_Silent_p.P1110P|KCNMA1_uc001jxq.2_Silent_p.P1140P|uc001jxp.2_5'Flank	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1168	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	TCAGGTCCGTCGGCACGAGCT	0.542													14	30					0	0	1	0	0		T	78647231	T	T	78647231	2	4	55	1	0	0	0	0	0	0	0	1	8089	871	31	1		1	KCNMA1	10	78647231	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3449099	78647231	56887516	826	39860											
KCNMA1	3778	broad.mit.edu	37	chr10	78872132	78872132	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggttactcaccaaatggAtgaacccggctgcagtcagc	12	7	10	12	1	2	1	2	1	0	0	2	2	2	2	2	3	4	3	2	3	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:78872132A>G	uc001jxn.2	-	7	1130	c.953T>C	c.(952-954)ATC>ACC	p.I318T	KCNMA1_uc001jxj.2_Missense_Mutation_p.I318T|KCNMA1_uc001jxk.1_5'UTR|KCNMA1_uc009xrt.1_Missense_Mutation_p.I138T|KCNMA1_uc001jxl.1_5'Flank|KCNMA1_uc001jxo.2_Missense_Mutation_p.I318T|KCNMA1_uc001jxm.2_Missense_Mutation_p.I318T|KCNMA1_uc001jxq.2_Missense_Mutation_p.I318T	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	318	Helical; Name=Segment S5; (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	CACCAAATGGATGAACCCGGC	0.453											OREG0020286	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	25					0	0	1	0	0		G	78872132	G	G	78872132	3	3	55	1	0	0	0	0	1	0	0	0	8089	333	12	3	3017	3	KCNMA1	10	78872132	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	224901	78872132	56662615	827	39861											
POLR3A	11128	broad.mit.edu	37	chr10	79744971	79744971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctctttaatccggggcaCgcccagggtgatgttcatgg	7	11	13	10	2	2	1	1	1	1	0	4	2	3	1	2	4	0	2	2	4	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:79744971C>T	uc001jzn.2	-	24	3293	c.3199G>A	c.(3199-3201)GTG>ATG	p.V1067M		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	1067					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			ATCCGGGGCACGCCCAGGGTG	0.542													28	43					0	0	1	0	0		T	79744971	T	T	79744971	3	4	55	1	0	0	0	0	1	0	0	0	12247	536	19	1	1005	1	POLR3A	10	79744971	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	872839	79744971	55789776	828	39862											
EIF5AL1	143244	broad.mit.edu	37	chr10	81272647	81272647	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaactcataatatggatgTccccaacatcaaaaggaatg	16	9	7	9	0	3	0	3	0	0	0	4	2	4	2	2	2	2	0	2	2	7	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:81272647T>C	uc009xrx.2	+	1	291	c.242T>C	c.(241-243)GTC>GCC	p.V81A	uc010qls.1_5'Flank	NM_001099692	NP_001093162	Q6IS14	IF5AL_HUMAN	eukaryotic translation initiation factor 5A-like	81					mRNA transport|peptidyl-lysine modification to hypusine|positive regulation of translational elongation|positive regulation of translational termination|protein transport|translational frameshifting|transmembrane transport	endoplasmic reticulum membrane|nuclear pore	ribosome binding|translation elongation factor activity				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			AATATGGATGTCCCCAACATC	0.502													8	31					0	0	1	0	0		C	81272647	C	C	81272647	3	2	55	1	0	0	0	0	1	0	0	0	5051	1667	58	3	244	3	EIF5AL1	10	81272647	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1527676	81272647	54262100	829	39863											
MAT1A	4143	broad.mit.edu	37	chr10	82036321	82036321	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgcacagggatgactgcGccattgtcctgcatgtactg	8	10	12	11	2	0	1	0	1	0	0	1	2	1	2	2	1	4	3	2	1	1	2	rs142189986		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:82036321G>A	uc001kbw.2	-	6	834	c.579C>T	c.(577-579)GGC>GGT	p.G193G		NM_000429	NP_000420	Q00266	METK1_HUMAN	methionine adenosyltransferase I, alpha	193					methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0			Colorectal(32;0.229)		L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	GGATGACTGCGCCATTGTCCT	0.577													71	114					0	0	1	0	0		A	82036321	A	A	82036321	2	1	55	1	0	0	0	0	0	0	0	1	9347	1074	38	1		1	MAT1A	10	82036321	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	763674	82036321	53498426	830	39864											
NRG3	10718	broad.mit.edu	37	chr10	83635238	83635238	+	Frame_Shift_Del	DEL	C	-	-																															gcggcgaaggggcggccgagCccccccgggagttacgctgt																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:83635238delC	uc001kco.2	+	1	169	c.142delC	c.(142-144)CCCfs	p.P48fs	NRG3_uc010qlz.1_Frame_Shift_Del_p.P48fs|NRG3_uc001kcp.2_5'Flank|NRG3_uc001kcq.2_5'Flank	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	48	Extracellular (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		GGCGGCCGAGCCCCCCCGGGA	0.512													3	4	---	---	---	---						.	-	83635238	-	-	83635238	7	5	55	1	0	1	0	1	0	0	0	0	10668	739	26	0	144	0	NRG3	10	83635238	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	1598917	83635238	51899509	831	39865											
NRG3	10718	broad.mit.edu	37	chr10	83635584	83635584	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgcctgaccaccatcacgcGggcgcccactcgcttccccg	5	6	9	21	6	1	1	1	1	0	0	4	1	2	1	6	1	0	1	6	1	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:83635584G>T	uc001kco.2	+	1	515	c.488G>T	c.(487-489)CGG>CTG	p.R163L	NRG3_uc010qlz.1_Missense_Mutation_p.R163L|NRG3_uc001kcp.2_5'Flank|NRG3_uc001kcq.2_5'Flank	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	163	Ser/Thr-rich.|Extracellular (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		ACCATCACGCGGGCGCCCACT	0.597													3	36					0.115264	0.116059	1	1	0		T	83635584	T	T	83635584	3	4	55	1	0	0	0	0	1	0	0	0	10668	1116	39	5	490	5	NRG3	10	83635584	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	346	83635584	51899163	832	39866											
CDHR1	92211	broad.mit.edu	37	chr10	85972965	85972965	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggagatctggctcaagaattCcatccgctccctggatgccc	8	9	10	14	1	2	2	1	0	1	2	5	4	5	3	4	3	1	2	4	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:85972965C>T	uc001kcv.2	+	16	1901	c.1901C>T	c.(1900-1902)TCC>TTC	p.S634F	CDHR1_uc001kcw.2_Missense_Mutation_p.S634F|CDHR1_uc009xst.2_Missense_Mutation_p.S338F|CDHR1_uc001kcx.2_5'UTR	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	634	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						CTCAAGAATTCCATCCGCTCC	0.587													18	63					0	0	1	0	0		T	85972965	T	T	85972965	3	4	55	1	0	0	0	0	1	0	0	0	3121	855	30	4	1963	4	CDHR1	10	85972965	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2337381	85972965	49561782	833	39867											
PTEN	5728	broad.mit.edu	37	chr10	89653808	89653808	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atccaaacattattgctatgGgatttcctgcagaaagactt	13	13	7	8	0	0	2	0	0	0	2	2	3	2	3	2	1	3	2	2	1	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:89653808G>T	uc001kfb.2	+	3	1137	c.106G>T	c.(106-108)GGA>TGA	p.G36*		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	36	Phosphatase tensin-type.		G -> R (in endometrial hyperplasia).|G -> E (in glioma).		activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(4)|p.G36E(4)|p.Y27fs*1(2)|p.Y27_N212>Y(2)|p.G36V(2)|p.G36*(1)|p.A34_G36del(1)|p.G36R(1)|p.G36fs*18(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TATTGCTATGGGATTTCCTGC	0.284		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			12	43					3.52763e-06	3.71196e-06	1	1	0		T	89653808	T	T	89653808	4	4	55	1	0	0	0	0	0	1	0	0	12760	1233	43	5	112	5	PTEN	10	89653808	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3680843	89653808	45880939	834	39868											
PTEN	5728	broad.mit.edu	37	chr10	89653842	89653842	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagacttgaaggcgtatacaGgaacaatattgatgatgtag	16	10	11	4	1	0	4	0	3	0	1	0	5	0	5	0	2	2	2	0	2	8	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:89653842G>T	uc001kfb.2	+	3	1171	c.140G>T	c.(139-141)AGG>ATG	p.R47M		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	47	Phosphatase tensin-type.		R -> G (in CD).		activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(4)|p.R47G(2)|p.Y27_N212>Y(2)|p.Y27fs*1(2)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		GGCGTATACAGGAACAATATT	0.289		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			15	38					0.006122	0.00623228	1	1	0		T	89653842	T	T	89653842	3	4	55	1	0	0	0	0	1	0	0	0	12760	1000	35	5	146	5	PTEN	10	89653842	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	34	89653842	45880905	835	39869											
HTR7	3363	broad.mit.edu	37	chr10	92509172	92509172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccactgcggtagagtaaatcGtatagccaaagtcctggctg	11	9	11	10	2	0	1	0	0	0	1	2	1	1	1	3	2	2	4	3	2	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:92509172G>A	uc001kha.2	-	2	962	c.719C>T	c.(718-720)ACG>ATG	p.T240M	HTR7_uc001kgz.2_Missense_Mutation_p.T240M|HTR7_uc001khb.2_Missense_Mutation_p.T240M	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	240	Helical; Name=5; (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	AGAGTAAATCGTATAGCCAAA	0.473													12	34					0	0	1	0	0		A	92509172	A	A	92509172	3	1	55	1	0	0	0	0	1	0	0	0	7468	1145	40	1	736	1	HTR7	10	92509172	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2855330	92509172	43025575	836	39870											
CYP26A1	1592	broad.mit.edu	37	chr10	94834181	94834181	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgtgcggcgcatcttgctCggagagcaccggctggtgtc	6	9	15	11	4	1	1	0	0	1	1	3	2	1	1	1	4	3	4	1	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:94834181C>T	uc001kil.2	+	2	351	c.306C>T	c.(304-306)CTC>CTT	p.L102L	CYP26A1_uc001kik.1_Silent_p.L33L|CYP26A1_uc001kim.1_Missense_Mutation_p.S7L	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	102					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				GCATCTTGCTCGGAGAGCACC	0.622													89	186					0	0	1	0	0		T	94834181	T	T	94834181	2	4	55	1	0	0	0	0	0	0	0	1	4158	871	31	1		1	CYP26A1	10	94834181	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2325009	94834181	40700566	837	39871											
PDE6C	5146	broad.mit.edu	37	chr10	95381766	95381766	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcacaaagcgctctacacGgttagatcatatctgaactg	12	12	7	10	2	4	2	2	1	2	1	4	2	4	2	0	1	3	2	0	1	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:95381766G>A	uc001kiu.3	+	4	939	c.801G>A	c.(799-801)ACG>ACA	p.T267T		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	267	GAF 2.				visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				CGCTCTACACGGTTAGATCAT	0.393													20	47					0	0	1	0	0		A	95381766	A	A	95381766	2	1	55	1	0	0	0	0	0	0	0	1	11666	1103	39	1		1	PDE6C	10	95381766	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	547585	95381766	40152981	838	39872											
MORN4	118812	broad.mit.edu	37	chr10	99377012	99377012	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagccattaaagagcccAttctcaaaatgacccaggta	16	7	6	12	0	1	2	1	1	1	1	2	2	1	2	4	1	2	1	4	1	6	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:99377012A>G	uc001kob.3	-	3	406	c.135T>C	c.(133-135)AAT>AAC	p.N45N	PI4K2A_uc010qoy.1_Intron|MORN4_uc001koc.3_Silent_p.N103N|MORN4_uc001kod.3_3'UTR|MORN4_uc001koe.2_Silent_p.N45N|uc001kof.1_5'Flank	NM_178832	NP_849154	Q8NDC4	MORN4_HUMAN	MORN repeat containing 4	45	MORN 2.										0						TAAAGAGCCCATTCTCAAAAT	0.473													33	109					0	0	1	0	0		G	99377012	G	G	99377012	2	3	55	1	0	0	0	0	0	0	0	1	9728	214	8	3		3	MORN4	10	99377012	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	3995246	99377012	36157735	839	39873											
MORN4	118812	broad.mit.edu	37	chr10	99379386	99379386	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctccccactggagtaggTgaaggaaccttttgtcaggg	8	11	12	10	0	1	1	1	1	0	0	3	3	3	3	4	4	1	1	4	4	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:99379386T>C	uc001kob.3	-	2	296	c.25A>G	c.(25-27)ACC>GCC	p.T9A	PI4K2A_uc010qoy.1_Intron|MORN4_uc001koc.3_Intron|MORN4_uc001kod.3_Missense_Mutation_p.H99R|MORN4_uc001koe.2_Missense_Mutation_p.T9A|uc001kof.1_Intron|MORN4_uc009xvv.1_Missense_Mutation_p.H99R	NM_178832	NP_849154	Q8NDC4	MORN4_HUMAN	MORN repeat containing 4	9											0						CTGGAGTAGGTGAAGGAACCT	0.483													20	57					0	0	1	0	0		C	99379386	C	C	99379386	3	2	55	1	0	0	0	0	1	0	0	0	9728	1696	59	3	431	3	MORN4	10	99379386	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2374	99379386	36155361	840	39874											
GOT1	2805	broad.mit.edu	37	chr10	101180424	101180424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatccccaagggcaagaCgagaagcacagctccggaac	13	4	11	13	2	1	2	1	0	0	2	3	4	3	3	3	2	3	3	3	2	4	0	rs146802616		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:101180424C>T	uc001kpr.2	-	2	465	c.257G>A	c.(256-258)CGT>CAT	p.R86H	GOT1_uc009xwh.2_RNA|GOT1_uc009xwi.2_Missense_Mutation_p.R86H|GOT1_uc001kpq.1_5'UTR	NM_002079	NP_002070	P17174	AATC_HUMAN	aspartate aminotransferase 1	86					aspartate catabolic process|cellular response to insulin stimulus|gluconeogenesis|response to glucocorticoid stimulus	cytosol	L-aspartate:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding				0		Ovarian(717;0.028)|Colorectal(252;0.234)		Epithelial(162;4.76e-10)|all cancers(201;3.84e-08)	L-Aspartic Acid(DB00128)|L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AAGGGCAAGACGAGAAGCACA	0.463													9	34					0	0	1	0	0		T	101180424	T	T	101180424	3	4	55	1	0	0	0	0	1	0	0	0	6594	536	19	1	1016	1	GOT1	10	101180424	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1801038	101180424	34354323	841	39875											
FBXW4	6468	broad.mit.edu	37	chr10	103372106	103372106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acactcaccggacgctggtgCggaggtcccagtagcgaaca	10	5	13	13	4	1	0	1	0	0	0	2	3	2	2	2	4	3	2	2	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:103372106C>T	uc001kto.2	-	7	1311	c.965G>A	c.(964-966)CGC>CAC	p.R322H		NM_022039	NP_071322	P57775	FBXW4_HUMAN	F-box and WD repeat domain containing 4	322	WD 3.				ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	ubiquitin ligase complex				skin(1)	1		Colorectal(252;0.123)		Epithelial(162;4.35e-08)|all cancers(201;1.92e-06)		GACGCTGGTGCGGAGGTCCCA	0.622													11	42					0	0	1	0	0		T	103372106	T	T	103372106	3	4	55	1	0	0	0	0	1	0	0	0	5781	768	27	1	285	1	FBXW4	10	103372106	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2191682	103372106	32162641	842	39876											
MGEA5	10724	broad.mit.edu	37	chr10	103569961	103569961	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggtccaatttacgtttcaAtgtggatacttccttggggt	7	16	10	8	1	1	0	1	0	0	0	3	1	3	1	2	4	2	1	2	4	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:103569961A>T	uc001ktv.2	-	4	903	c.460T>A	c.(460-462)TTG>ATG	p.L154M	MGEA5_uc010qqe.1_Missense_Mutation_p.L154M|MGEA5_uc009xws.2_Missense_Mutation_p.L154M|MGEA5_uc001ktw.2_Missense_Mutation_p.L154M|MGEA5_uc009xwt.2_Intron|MGEA5_uc010qqf.1_RNA	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	154					glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		TTACGTTTCAATGTGGATACT	0.373													16	47					0	0	1	0	0		T	103569961	T	T	103569961	3	4	55	1	0	0	0	0	1	0	0	0	9573	98	4	5	2342	5	MGEA5	10	103569961	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	197855	103569961	31964786	843	39877											
C10orf76	79591	broad.mit.edu	37	chr10	103766310	103766310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcaccatcagaggaaggCggtgtggtcccaagtggtgt	8	8	16	9	1	2	1	2	0	0	1	3	2	3	2	2	6	0	1	2	6	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:103766310C>T	uc009xwy.1	-	14	1137	c.1035G>A	c.(1033-1035)CCG>CCA	p.P345P		NM_024541	NP_078817	Q5T2E6	CJ076_HUMAN	hypothetical protein LOC79591	345						integral to membrane					0		Colorectal(252;0.123)		Epithelial(162;2.41e-08)|all cancers(201;6.41e-07)		CAGAGGAAGGCGGTGTGGTCC	0.488													35	89					0	0	1	0	0		T	103766310	T	T	103766310	2	4	55	1	0	0	0	0	0	0	0	1	1619	755	27	1		1	C10orf76	10	103766310	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	196349	103766310	31768437	844	39878											
GBF1	8729	broad.mit.edu	37	chr10	104122262	104122262	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgtctggtcaactctatAcaacacacctactatctctt	10	14	4	13	0	4	0	1	0	3	0	5	0	4	0	1	1	4	0	1	1	6	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:104122262A>G	uc001kux.1	+	15	1954	c.1714A>G	c.(1714-1716)ACA>GCA	p.T572A	GBF1_uc001kuy.1_Missense_Mutation_p.T572A|GBF1_uc001kuz.1_Missense_Mutation_p.T573A	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	572					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		TCAACTCTATACAACACACCT	0.438													13	145					0	0	1	0	0		G	104122262	G	G	104122262	3	3	55	1	0	0	0	0	1	0	0	0	6286	391	14	3	1768	3	GBF1	10	104122262	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	355952	104122262	31412485	845	39879											
NFKB2	4791	broad.mit.edu	37	chr10	104161010	104161010	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctacctctgatagcgactcGgactctgaagggcctgagaa	10	8	11	12	2	2	3	0	3	2	1	3	6	2	4	3	2	2	0	3	2	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:104161010G>A	uc001kvb.2	+	19	2410	c.2145G>A	c.(2143-2145)TCG>TCA	p.S715S	NFKB2_uc001kva.2_Silent_p.S715S|NFKB2_uc001kvd.2_Silent_p.S715S|NFKB2_uc009xxc.2_Silent_p.S715S	NM_001077494	NP_001070962	Q00653	NFKB2_HUMAN	nuclear factor of kappa light polypeptide gene	715			Missing (in truncated form p80HT).|Missing (in truncated form LB40).|Missing (in truncated form EB308).	S->A: Loss of phosphorylation; when associated with G-713 and A-717.	innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	Bcl3/NF-kappaB2 complex|cytosol|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			lung(3)	3		Colorectal(252;0.00957)		Epithelial(162;3.4e-08)|all cancers(201;6.41e-07)		ATAGCGACTCGGACTCTGAAG	0.632			T	IGH@	B-NHL								24	52					0	0	1	0	0		A	104161010	A	A	104161010	2	1	55	1	0	0	0	0	0	0	0	1	10395	1103	39	1		1	NFKB2	10	104161010	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	38748	104161010	31373737	846	39880											
TMEM180	79847	broad.mit.edu	37	chr10	104230750	104230750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggatttctcctccttccgcGctttctgcgtgacactggct	4	14	9	14	3	2	1	0	1	2	0	5	2	4	2	3	2	1	2	3	2	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:104230750G>A	uc001kvt.2	+	5	799	c.580G>A	c.(580-582)GCT>ACT	p.A194T	TMEM180_uc001kvs.2_Intron|TMEM180_uc010qql.1_Intron|TMEM180_uc010qqm.1_Intron|TMEM180_uc001kvu.2_Missense_Mutation_p.A194T	NM_024789	NP_079065	Q14CX5	TM180_HUMAN	transmembrane protein 180	194	Helical; (Potential).					integral to membrane				ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CTCCTTCCGCGCTTTCTGCGT	0.617													44	58					0	0	1	0	0		A	104230750	A	A	104230750	3	1	55	1	0	0	0	0	1	0	0	0	16124	1087	38	1	590	1	TMEM180	10	104230750	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	69740	104230750	31303997	847	39881											
TRIM8	81603	broad.mit.edu	37	chr10	104415893	104415893	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgaaaatcctgatggacAggtaagctgagggccctagc	11	8	13	9	0	0	3	0	3	0	0	1	4	1	4	2	3	2	2	2	3	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:104415893A>G	uc001kvz.2	+	4	1054	c.931A>G	c.(931-933)AGG>GGG	p.R311G		NM_030912	NP_112174	Q9BZR9	TRIM8_HUMAN	tripartite motif-containing 8	311						cytoplasm|PML body	ligase activity|protein homodimerization activity|zinc ion binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CCTGATGGACAGGTAAGCTGA	0.632													9	173					0	0	1	0	0		G	104415893	G	G	104415893	3	3	55	1	0	0	0	0	1	0	0	0	16574	202	7	3	945	3	TRIM8	10	104415893	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	185143	104415893	31118854	848	39882											
PDCD11	22984	broad.mit.edu	37	chr10	105174079	105174079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacatcgaacctggggcaGtggtaaaggtaagacctcaa	14	7	12	8	1	1	2	1	1	0	1	2	3	1	2	2	4	1	3	2	4	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:105174079G>A	uc001kwy.1	+	11	1450	c.1363G>A	c.(1363-1365)GTG>ATG	p.V455M		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	455	S1 motif 5.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		ACCTGGGGCAGTGGTAAAGGT	0.443													4	30					0	0	1	0	0		A	105174079	A	A	105174079	3	1	55	1	0	0	0	0	1	0	0	0	11636	1029	36	4	1401	4	PDCD11	10	105174079	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	758186	105174079	30360668	849	39883											
ITPRIP	85450	broad.mit.edu	37	chr10	106074505	106074505	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaggaggtgcagtagggcCgtcttcaggtggtagctgct	7	10	17	7	1	2	0	1	0	1	0	2	1	2	1	1	5	3	6	1	5	3	4	rs151096173	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:106074505C>A	uc001kye.2	-	2	1378	c.1305G>T	c.(1303-1305)ACG>ACT	p.T435T	ITPRIP_uc001kyf.2_Silent_p.T435T|ITPRIP_uc001kyg.2_Silent_p.T435T	NM_033397	NP_203755	Q8IWB1	IPRI_HUMAN	inositol 1,4,5-triphosphate receptor interacting	435						plasma membrane					0						GCAGTAGGGCCGTCTTCAGGT	0.657													12	16					2.27111e-07	2.41443e-07	1	1	0		A	106074505	A	A	106074505	2	1	55	1	0	0	0	0	0	0	0	1	7939	639	23	5		5	ITPRIP	10	106074505	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	900426	106074505	29460242	850	39884											
SORCS3	22986	broad.mit.edu	37	chr10	107012564	107012564	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagaggaccagatcctcaTtgccgtgtttcctggtctcc	6	11	9	15	1	2	2	1	0	1	2	5	3	4	3	6	2	1	1	6	2	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:107012564T>C	uc001kyi.1	+	23	3364	c.3137T>C	c.(3136-3138)ATT>ACT	p.I1046T	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	1046	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		CAGATCCTCATTGCCGTGTTT	0.522													3	65					0	0	1	0	0		C	107012564	C	C	107012564	3	2	55	1	0	0	0	0	1	0	0	0	14957	1493	52	3	3227	3	SORCS3	10	107012564	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	938059	107012564	28522183	851	39885											
SORCS1	114815	broad.mit.edu	37	chr10	108466322	108466322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttgggcaaagcatatttcGgaagcttcatttgggcaaat	11	12	10	8	1	1	0	1	0	0	0	2	1	1	1	1	3	2	4	1	3	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:108466322G>A	uc001kym.2	-	8	1222	c.1214C>T	c.(1213-1215)CCG>CTG	p.P405L	SORCS1_uc001kyl.2_Missense_Mutation_p.P405L|SORCS1_uc009xxs.2_Missense_Mutation_p.P405L|SORCS1_uc001kyn.1_Missense_Mutation_p.P405L|SORCS1_uc001kyo.2_Missense_Mutation_p.P405L	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	405	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		AGCATATTTCGGAAGCTTCAT	0.463													16	42					0	0	1	0	0		A	108466322	A	A	108466322	3	1	55	1	0	0	0	0	1	0	0	0	14955	1116	39	1	2602	1	SORCS1	10	108466322	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1453758	108466322	27068425	852	39886											
ADD3	120	broad.mit.edu	37	chr10	111872584	111872584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaagaacagatgaagaaagGccacaacccaactggattac	18	5	8	10	0	1	4	1	1	0	3	1	5	1	5	2	2	4	0	2	2	7	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:111872584G>A	uc001kyt.3	+	4	559	c.245G>A	c.(244-246)GGC>GAC	p.G82D	ADD3_uc001kys.3_Missense_Mutation_p.G82D|ADD3_uc001kyu.2_Missense_Mutation_p.G82D|ADD3_uc001kyv.2_Missense_Mutation_p.G82D|ADD3_uc001kyw.2_Missense_Mutation_p.G82D	NM_016824	NP_058432	Q9UEY8	ADDG_HUMAN	adducin 3 (gamma) isoform a	82						cytoskeleton	actin binding|calmodulin binding|metal ion binding|structural constituent of cytoskeleton			ovary(2)|skin(2)|large_intestine(1)	5		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;4.15e-05)|all cancers(201;0.000587)|BRCA - Breast invasive adenocarcinoma(275;0.0742)		ATGAAGAAAGGCCACAACCCA	0.418													18	58					0	0	1	0	0		A	111872584	A	A	111872584	3	1	55	1	0	0	0	0	1	0	0	0	306	1203	42	2	251	2	ADD3	10	111872584	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3406262	111872584	23662163	853	39887											
DCLRE1A	9937	broad.mit.edu	37	chr10	115612924	115612924	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tattcccaaatgtcttcttcGgaaatgtcttctaacatggc	10	15	6	10	1	4	0	0	0	4	0	6	1	5	1	1	2	1	0	1	2	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:115612924G>A	uc001law.2	-	1	936	c.18C>T	c.(16-18)TCC>TCT	p.S6S	NHLRC2_uc001lax.1_5'Flank	NM_014881	NP_055696	Q6PJP8	DCR1A_HUMAN	DNA cross-link repair 1A	6	Nuclear localization region.				cell division|mitosis	nucleus	hydrolase activity			skin(2)	2				Epithelial(162;0.0157)|all cancers(201;0.0171)		TGTCTTCTTCGGAAATGTCTT	0.289								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					3	7					0	0	1	0	0		A	115612924	A	A	115612924	2	1	55	1	0	0	0	0	0	0	0	1	4297	1103	39	1		1	DCLRE1A	10	115612924	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3740340	115612924	19921823	854	39888											
ABLIM1	3983	broad.mit.edu	37	chr10	116361697	116361697	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacaggcttctctgatgggtGgtgagggtcctgagggtggg	5	10	20	6	0	1	3	0	3	1	0	3	4	2	3	1	6	0	1	1	6	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:116361697G>T	uc010qsg.1	-	2	367	c.268C>A	c.(268-270)CAC>AAC	p.H90N	ABLIM1_uc010qsh.1_Missense_Mutation_p.H30N|ABLIM1_uc010qsi.1_Missense_Mutation_p.H30N|ABLIM1_uc010qsk.1_Missense_Mutation_p.H14N|ABLIM1_uc009xyp.2_Missense_Mutation_p.H24N|ABLIM1_uc001lbz.1_Missense_Mutation_p.H13N	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	90					axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		TCTGATGGGTGGTGAGGGTCC	0.483													12	52					3.27435e-08	3.50866e-08	1	1	0		T	116361697	T	T	116361697	3	4	55	1	0	0	0	0	1	0	0	0	94	1348	47	5	2240	5	ABLIM1	10	116361697	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	748773	116361697	19173050	855	39889											
FAM160B1	57700	broad.mit.edu	37	chr10	116608484	116608484	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgacacttacctccgagaCgctcataggcaggtaggtga	11	9	11	10	2	1	3	1	2	0	1	2	4	2	3	2	3	1	3	2	3	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:116608484C>T	uc001lcb.2	+	13	2126	c.1791C>T	c.(1789-1791)GAC>GAT	p.D597D	FAM160B1_uc001lcc.2_Silent_p.D597D	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	597										lung(1)	1						ACCTCCGAGACGCTCATAGGC	0.468													10	29					0	0	1	0	0		T	116608484	T	T	116608484	2	4	55	1	0	0	0	0	0	0	0	1	5481	535	19	1		1	FAM160B1	10	116608484	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	246787	116608484	18926263	856	39890											
HSPA12A	259217	broad.mit.edu	37	chr10	118434405	118434405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagggtctggatctccctccGggcgggcaccgcagtgccac	6	6	14	15	3	2	0	0	0	2	0	4	1	3	1	4	4	1	2	4	4	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:118434405G>A	uc001lct.2	-	12	2020	c.1915C>T	c.(1915-1917)CGG>TGG	p.R639W	HSPA12A_uc001lcu.2_Missense_Mutation_p.R556W	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	639							ATP binding			ovary(1)	1				all cancers(201;0.0158)		ATCTCCCTCCGGGCGGGCACC	0.572													18	58					0	0	1	0	0		A	118434405	A	A	118434405	3	1	55	1	0	0	0	0	1	0	0	0	7420	1115	39	1	116	1	HSPA12A	10	118434405	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1825921	118434405	17100342	857	39891											
PDZD8	118987	broad.mit.edu	37	chr10	119078467	119078467	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatttgcctctctgtcataGgatccaaaaatgagtaacct	13	12	6	10	0	2	1	1	1	1	0	4	2	3	2	3	1	2	1	3	1	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:119078467G>T	uc001lde.1	-	3	1213	c.1014C>A	c.(1012-1014)TCC>TCA	p.S338S		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	338					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		CTCTGTCATAGGATCCAAAAA	0.323													5	75					0.000602214	0.000618815	1	1	0		T	119078467	T	T	119078467	2	4	55	1	0	0	0	0	0	0	0	1	11724	987	35	5		5	PDZD8	10	119078467	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	644062	119078467	16456280	858	39892											
BAG3	9531	broad.mit.edu	37	chr10	121436479	121436479	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggattcagtggaccccgaGggacgagccgatgtgcgtca	8	7	15	11	4	2	0	2	0	0	0	2	6	2	3	3	3	2	0	3	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:121436479G>T	uc001lem.2	+	4	1719	c.1413G>T	c.(1411-1413)GAG>GAT	p.E471D	BAG3_uc001lel.2_Missense_Mutation_p.E470D	NM_004281	NP_004272	O95817	BAG3_HUMAN	BCL2-associated athanogene 3	471	BAG.				anti-apoptosis|apoptosis|protein folding	cytosol				ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)		TGGACCCCGAGGGACGAGCCG	0.502													7	23					0.00448238	0.00456843	1	1	0		T	121436479	T	T	121436479	3	4	55	1	0	0	0	0	1	0	0	0	1289	991	35	5	1427	5	BAG3	10	121436479	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2358012	121436479	14098268	859	39893											
WDR11	55717	broad.mit.edu	37	chr10	122626116	122626116	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagcttacctatgatttaCgaagccagtgtgatgcaatc	12	11	10	8	1	0	2	0	2	0	0	1	4	0	3	2	1	5	2	2	1	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:122626116C>T	uc010qtf.1	+	8	1268	c.1030C>T	c.(1030-1032)CGA>TGA	p.R344*	WDR11_uc010qte.1_Intron|WDR11_uc001lfd.1_Translation_Start_Site	NM_018117	NP_060587	Q9BZH6	WDR11_HUMAN	bromodomain and WD repeat domain containing 2	344						integral to membrane					0						CTATGATTTACGAAGCCAGTG	0.438													29	75					0	0	1	0	0		T	122626116	T	T	122626116	4	4	55	1	0	0	0	0	0	1	0	0	17299	528	19	1	1060	1	WDR11	10	122626116	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1189637	122626116	12908631	860	39894											
TACC2	10579	broad.mit.edu	37	chr10	123846182	123846182	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccaaagcagggcacatcAggtggtgtggacacaagctc	12	5	13	11	0	1	0	1	0	0	0	2	2	1	1	1	4	2	3	1	4	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:123846182A>G	uc001lfv.2	+	4	4527	c.4167A>G	c.(4165-4167)TCA>TCG	p.S1389S	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Silent_p.S1389S|TACC2_uc010qtv.1_Silent_p.S1389S	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1389						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				AGGGCACATCAGGTGGTGTGG	0.602													11	38					0	0	1	0	0		G	123846182	G	G	123846182	2	3	55	1	0	0	0	0	0	0	0	1	15527	175	7	3		3	TACC2	10	123846182	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1220066	123846182	11688565	861	39895											
PTPRE	5791	broad.mit.edu	37	chr10	129861404	129861404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtctgggagcaaaagtctgCgaccatcgtcatgttaacaa	12	9	11	9	2	3	0	1	0	2	0	4	2	3	1	1	2	3	2	1	2	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:129861404C>T	uc001lkb.2	+	10	962	c.683C>T	c.(682-684)GCG>GTG	p.A228V	PTPRE_uc009yat.2_Missense_Mutation_p.A239V|PTPRE_uc010qup.1_RNA|PTPRE_uc009yau.2_Missense_Mutation_p.A228V|PTPRE_uc001lkd.2_Missense_Mutation_p.A170V|PTPRE_uc010quq.1_Missense_Mutation_p.A129V	NM_006504	NP_006495	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E	228	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)				CAAAAGTCTGCGACCATCGTC	0.502													12	28					0	0	1	0	0		T	129861404	T	T	129861404	3	4	55	1	0	0	0	0	1	0	0	0	12825	768	27	1	752	1	PTPRE	10	129861404	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6015222	129861404	5673343	862	39896											
LRRC27	80313	broad.mit.edu	37	chr10	134188696	134188696	+	Frame_Shift_Del	DEL	T	-	-																															cagcacagcctcaaaatacaTtttttaacacaaaatatgga																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:134188696delT	uc010quw.1	+	11	1738	c.1543delT	c.(1543-1545)TTTfs	p.F515fs	LRRC27_uc001llg.2_RNA|LRRC27_uc001lli.2_Frame_Shift_Del_p.F515fs|LRRC27_uc001llj.2_Frame_Shift_Del_p.F453fs	NM_030626	NP_085129	Q9C0I9	LRC27_HUMAN	leucine rich repeat containing 27 isoform a	515										ovary(1)	1		all_cancers(35;6.28e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;9.12e-05)|Epithelial(32;0.000116)|all cancers(32;0.000145)|BRCA - Breast invasive adenocarcinoma(275;0.218)		TCAAAATACATTTTTTAACAC	0.493													15	26	---	---	---	---						.	-	134188696	-	-	134188696	7	5	55	1	0	1	0	1	0	0	0	0	8999	1493	52	0	1763	0	LRRC27	10	134188696	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	4327292	134188696	1346051	863	39897											
GPR123	84435	broad.mit.edu	37	chr10	134942202	134942202	+	Frame_Shift_Del	DEL	G	-	-																															gacatggtcttcagctgcctGtacggcgccttctgcgtgac																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:134942202delG	uc001llx.3	+	7	1306	c.870delG	c.(868-870)CTGfs	p.L290fs	GPR123_uc001llw.2_Frame_Shift_Del_p.L1009fs	NM_001083909	NP_001077378	Q86SQ6	GP123_HUMAN	G protein-coupled receptor 123	290	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		TCAGCTGCCTGTACGGCGCCT	0.677													11	20	---	---	---	---						.	-	134942202	-	-	134942202	7	5	55	1	0	1	0	1	0	0	0	0	6652	1364	48	0	892	0	GPR123	10	134942202	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	753506	134942202	592545	864	39898											
ADAM8	101	broad.mit.edu	37	chr10	135084451	135084451	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgttgtagcagtagccccCggagcagggcgtgccgttct	5	8	14	14	4	1	0	0	0	1	0	1	1	1	1	4	2	4	6	4	2	2	4	rs137890445		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr10:135084451C>A	uc010qva.1	-	13	1432	c.1381G>T	c.(1381-1383)GGG>TGG	p.G461W	ADAM8_uc010quz.1_Missense_Mutation_p.G500W|ADAM8_uc009ybi.2_Missense_Mutation_p.G500W			P78325	ADAM8_HUMAN	SubName: Full=cDNA FLJ50704, highly similar to ADAM 8 (EC 3.4.24.-) (A disintegrinand metalloproteinase domain 8);	461					integrin-mediated signaling pathway|proteolysis		metalloendopeptidase activity			large_intestine(2)|central_nervous_system(1)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;7.72e-06)|OV - Ovarian serous cystadenocarcinoma(35;8.23e-06)|Epithelial(32;1.02e-05)		CAGTAGCCCCCGGAGCAGGGC	0.672													11	21					0.000673444	0.000691603	1	1	0		A	135084451	A	A	135084451	3	1	55	1	0	0	0	0	1	0	0	0	252	652	23	5	934	5	ADAM8	10	135084451	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	142249	135084451	450296	865	39899											
B4GALNT4	338707	broad.mit.edu	37	chr11	376350	376350	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcttcctcaacccggaCggtgagtgtccgcagcgccc	5	9	10	17	4	2	1	1	1	1	0	5	2	5	2	5	2	2	1	5	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:376350C>T	uc001lpb.2	+	13	1305	c.1296C>T	c.(1294-1296)GAC>GAT	p.D432D		NM_178537	NP_848632	Q76KP1	B4GN4_HUMAN	beta	432	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			pancreas(1)	1		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TCAACCCGGACGGTGAGTGTC	0.617													11	19					0	0	1	0	0		T	376350	T	T	376350	2	4	55	1	0	0	0	0	0	0	0	1	1270	550	19	1		1	B4GALNT4	11	376350	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08		376350	134630166	866	39900											
SLC25A22	79751	broad.mit.edu	37	chr11	791923	791923	+	Frame_Shift_Del	DEL	G	-	-																															cgggtgctgggctcaggcctGggggtcctgcagcagcccca																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:791923delG	uc001lri.2	-	10	1306	c.964delC	c.(964-966)CAGfs	p.Q322fs	CEND1_uc001lrh.1_5'Flank|SLC25A22_uc009yci.2_Frame_Shift_Del_p.Q322fs|SLC25A22_uc001lrj.2_Frame_Shift_Del_p.Q322fs	NM_024698	NP_078974	Q9H936	GHC1_HUMAN	mitochondrial glutamate carrier 1	322						integral to membrane|mitochondrial inner membrane|nucleus	L-glutamate transmembrane transporter activity|protein binding|symporter activity				0		all_cancers(49;4.75e-06)|all_epithelial(84;0.00204)|Breast(177;0.00234)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;6.27e-26)|Epithelial(43;4.84e-25)|OV - Ovarian serous cystadenocarcinoma(40;2.72e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	L-Glutamic Acid(DB00142)	GCTCAGGCCTGGGGGTCCTGC	0.706													9	10	---	---	---	---						.	-	791923	-	-	791923	7	5	55	1	0	1	0	1	0	0	0	0	14510	1357	47	0	11	0	SLC25A22	11	791923	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	415573	791923	134214593	867	39901											
MUC5B	727897	broad.mit.edu	37	chr11	1264187	1264187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccacagtgcttaccgccaCggccaccacaactggggcca	9	5	9	18	2	0	0	0	0	0	0	1	0	1	0	6	3	3	1	6	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:1264187C>T	uc009ycr.1	+	47	8282	c.8156C>T	c.(8155-8157)ACG>ATG	p.T2719M	MUC5B_uc001ltb.2_Missense_Mutation_p.T2029M	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2026	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTTACCGCCACGGCCACCACA	0.637													50	112					0	0	1	0	0		T	1264187	T	T	1264187	3	4	55	1	0	0	0	0	1	0	0	0	9997	536	19	1	6208	1	MUC5B	11	1264187	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	472264	1264187	133742329	868	39902											
MUC5B	727897	broad.mit.edu	37	chr11	1271392	1271392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagagctgaccacaacaGccactacgactgcgtccact	12	6	7	16	2	1	2	1	1	0	1	2	3	2	2	3	0	5	1	3	0	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:1271392G>A	uc009ycr.1	+	51	14827	c.14701G>A	c.(14701-14703)GCC>ACC	p.A4901T	MUC5B_uc001ltb.2_Missense_Mutation_p.A4431T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4428	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GACCACAACAGCCACTACGAC	0.657													51	126					0	0	1	0	0		A	1271392	A	A	1271392	3	1	55	1	0	0	0	0	1	0	0	0	9997	971	34	2	13413	2	MUC5B	11	1271392	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	7205	1271392	133735124	869	39903											
IGF2	3481	broad.mit.edu	37	chr11	2154748	2154748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggggcccaggaccctcaccGgaagcacggtcggaggggtc	8	3	17	13	3	1	0	1	0	0	0	3	3	1	3	3	8	1	1	3	8	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:2154748G>A	uc009yde.2	-	3	408	c.305C>T	c.(304-306)CCG>CTG	p.P102L	IGF2_uc001lvf.2_RNA|IGF2_uc001lvg.2_Missense_Mutation_p.P102L|IGF2_uc009ydf.2_Missense_Mutation_p.P158L|IGF2_uc001lvh.2_Missense_Mutation_p.P102L|INS-IGF2_uc001lvi.2_RNA	NM_001007139	NP_001007140	P01344	IGF2_HUMAN	insulin-like growth factor 2 isoform 1	102					glucose metabolic process|ossification|phosphatidylinositol 3-kinase cascade involved in insulin receptor signaling|positive regulation of activated T cell proliferation|positive regulation of cell division|positive regulation of glycogen (starch) synthase activity|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|skeletal system development	extracellular space	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|protein serine/threonine kinase activator activity|receptor activator activity			central_nervous_system(1)	1		all_epithelial(84;5.04e-06)|Breast(177;0.000777)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)|all_lung(207;0.24)	Colorectal(5;0.0179)|COAD - Colon adenocarcinoma(6;0.029)	BRCA - Breast invasive adenocarcinoma(625;1.09e-05)|LUSC - Lung squamous cell carcinoma(625;0.082)|Lung(200;0.153)		GACCCTCACCGGAAGCACGGT	0.642													10	17					0	0	1	0	0		A	2154748	A	A	2154748	3	1	55	1	0	0	0	0	1	0	0	0	7588	1130	39	1	245	1	IGF2	11	2154748	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	883356	2154748	132851768	870	39904											
NUP98	4928	broad.mit.edu	37	chr11	3720468	3720468	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgggagaaagctcttcttcGctccagaatttgaatgtatt	10	13	10	8	2	2	3	0	1	2	2	4	4	3	3	1	1	1	3	1	1	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:3720468G>A	uc001lyh.2	-	25	4144	c.3853C>T	c.(3853-3855)CGA>TGA	p.R1285*	NUP98_uc001lyi.2_Nonsense_Mutation_p.R1285*|NUP98_uc001lyg.2_Nonsense_Mutation_p.R250*	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1302					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		GCTCTTCTTCGCTCCAGAATT	0.403			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								38	85					0	0	1	0	0		A	3720468	A	A	3720468	4	1	55	1	0	0	0	0	0	1	0	0	10792	1095	38	1	1585	1	NUP98	11	3720468	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1565720	3720468	131286048	871	39905											
EIF4G2	1982	broad.mit.edu	37	chr11	10824633	10824633	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggtccattgtcaagaaaagCcttgcgaggaacccaatggt	12	9	11	9	1	1	1	1	0	0	1	2	3	2	2	3	3	3	0	3	3	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:10824633C>A	uc001mjc.2	-	11	1357	c.940G>T	c.(940-942)GCT>TCT	p.A314S	EIF4G2_uc001mjb.2_Missense_Mutation_p.A108S|EIF4G2_uc009ygf.2_Missense_Mutation_p.A108S|EIF4G2_uc001mjd.2_Missense_Mutation_p.A314S|EIF4G2_uc001mjf.1_Missense_Mutation_p.A108S|SNORD97_uc009yge.2_5'Flank	NM_001418	NP_001409	P78344	IF4G2_HUMAN	eukaryotic translation initiation factor 4	314					cell cycle arrest|cell death|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		TCAAGAAAAGCCTTGCGAGGA	0.348													5	32					8.12818e-05	8.42638e-05	1	1	0		A	10824633	A	A	10824633	3	1	55	1	0	0	0	0	1	0	0	0	5045	739	26	5	1831	5	EIF4G2	11	10824633	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	7104165	10824633	124181883	872	39906											
INSC	387755	broad.mit.edu	37	chr11	15247376	15247376	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccttacactcgggaccaggTaagacgcccagaaggcactg	11	5	12	13	2	0	2	0	0	0	2	1	3	0	3	3	3	1	2	3	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:15247376T>C	uc001mly.2	+	9	1357	c.1311_splice	c.e9+2	p.Q437_splice	INSC_uc001mlz.2_Splice_Site_p.Q390_splice|INSC_uc001mma.2_Splice_Site_p.Q390_splice|INSC_uc010rcs.1_Splice_Site_p.Q425_splice|INSC_uc001mmb.2_Splice_Site_p.Q390_splice|INSC_uc001mmc.2_Splice_Site_p.Q348_splice	NM_001031853	NP_001027024	Q1MX18	INSC_HUMAN	inscuteable isoform a						cell differentiation|nervous system development	cytoplasm	binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)	5						CGGGACCAGGTAAGACGCCCA	0.577													8	8					0	0	1	0	0		C	15247376	C	C	15247376	5	2	55	1	0	0	0	0	0	0	1	0	7780	1652	57	3	1347	3	INSC	11	15247376	Splice_Site	SNP	T	TCGA-BR-7851-01A-11D-2201-08	4422743	15247376	119759140	873	39907											
SAA2	6289	broad.mit.edu	37	chr11	18266953	18266953	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggcaggccagcaggtcGgaagtgattggggtctctgc	7	8	16	10	1	2	1	1	1	1	0	4	2	2	2	1	6	2	2	1	6	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:18266953G>A	uc001mnz.3	-	4	377	c.340C>T	c.(340-342)CGA>TGA	p.R114*	SAA2_uc009yhj.2_Intron	NM_030754	NP_110381	P02735	SAA_HUMAN	serum amyloid A2 isoform a	114					acute-phase response|elevation of cytosolic calcium ion concentration|innate immune response|lymphocyte chemotaxis|macrophage chemotaxis|negative regulation of inflammatory response|neutrophil chemotaxis|platelet activation|positive regulation of cell adhesion|positive regulation of interleukin-1 secretion	high-density lipoprotein particle	G-protein-coupled receptor binding				0					Human Serum Albumin(DB00062)|Serum albumin iodonated(DB00064)	CCAGCAGGTCGGAAGTGATTG	0.572													18	34					0	0	1	0	0		A	18266953	A	A	18266953	4	1	55	1	0	0	0	0	0	1	0	0	13824	1124	39	1	58	1	SAA2	11	18266953	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3019577	18266953	116739563	874	39908											
SPTY2D1	144108	broad.mit.edu	37	chr11	18636955	18636955	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctattgccagatcctgccTtgatcctctctcctggcatg	6	13	8	14	0	1	2	0	1	1	1	5	2	4	2	5	1	3	2	5	1	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:18636955T>C	uc001moy.2	-	3	1082	c.866A>G	c.(865-867)AAG>AGG	p.K289R	SPTY2D1_uc010rdi.1_Missense_Mutation_p.K289R	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	289	Ser-rich.									breast(1)	1						AGATCCTGCCTTGATCCTCTC	0.507													13	29					0	0	1	0	0		C	18636955	C	C	18636955	3	2	55	1	0	0	0	0	1	0	0	0	15151	1609	56	3	1207	3	SPTY2D1	11	18636955	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	370002	18636955	116369561	875	39909											
MRGPRX1	259249	broad.mit.edu	37	chr11	18955405	18955405	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagctccaggatttcctcAggaagctgccctccaccttc	8	9	8	16	0	1	0	1	0	0	0	5	3	4	2	5	2	3	2	5	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:18955405A>G	uc001mpg.2	-	1	1145	c.927T>C	c.(925-927)CCT>CCC	p.P309P		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	309	Cytoplasmic (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						GGATTTCCTCAGGAAGCTGCC	0.572													4	37					0	0	1	0	0		G	18955405	G	G	18955405	2	3	55	1	0	0	0	0	0	0	0	1	9784	175	7	3		3	MRGPRX1	11	18955405	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	318450	18955405	116051111	876	39910											
CSRP3	8048	broad.mit.edu	37	chr11	19213981	19213981	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccacattttgcgcctccGccccagtttggcatcttgaa	6	12	8	15	2	1	1	0	1	1	0	3	1	3	1	5	1	1	3	5	1	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:19213981G>A	uc001mpk.2	-	2	132	c.15C>T	c.(13-15)GGC>GGT	p.G5G		NM_003476	NP_003467	P50461	CSRP3_HUMAN	cysteine and glycine-rich protein 3	5					cell differentiation|skeletal muscle tissue development	cytoskeleton|nucleus	protein binding|zinc ion binding				0						TTGCGCCTCCGCCCCAGTTTG	0.488													11	34					0	0	1	0	0		A	19213981	A	A	19213981	2	1	55	1	0	0	0	0	0	0	0	1	3972	1074	38	1		1	CSRP3	11	19213981	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	258576	19213981	115792535	877	39911											
NAV2	89797	broad.mit.edu	37	chr11	19961240	19961240	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaagggaatgttactgcCgagtcaagctcaacaggtgt	12	9	12	8	1	2	1	2	1	0	0	2	3	2	2	1	2	4	2	1	2	5	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:19961240C>T	uc010rdm.1	+	9	2497	c.2136C>T	c.(2134-2136)GCC>GCT	p.A712A	NAV2_uc001mpp.2_Silent_p.A625A|NAV2_uc001mpr.3_Silent_p.A689A	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	712						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						ATGTTACTGCCGAGTCAAGCT	0.532													10	43					0	0	1	0	0		T	19961240	T	T	19961240	2	4	55	1	0	0	0	0	0	0	0	1	10202	639	23	1		1	NAV2	11	19961240	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	747259	19961240	115045276	878	39912											
DCDC1	341019	broad.mit.edu	37	chr11	31349818	31349818	+	Frame_Shift_Del	DEL	T	-	-																															tctgtgatcttctgctcctgTttttgccattttcagctaaa																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:31349818delT	uc001msv.2	-	3	212	c.10delA	c.(10-12)ACAfs	p.T4fs	DCDC1_uc001msu.1_5'UTR	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	4					intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					TCTGCTCCTGTTTTTGCCATT	0.353													31	71	---	---	---	---						.	-	31349818	-	-	31349818	7	5	55	1	0	1	0	1	0	0	0	0	4287	1725	60	0	1082	0	DCDC1	11	31349818	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	11388578	31349818	103656698	879	39913											
PAX6	5080	broad.mit.edu	37	chr11	31824281	31824281	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgggaaatgtcgcacggccGggccccgctgtgagctagct	6	7	15	13	5	0	1	0	1	0	0	2	2	0	2	3	3	2	4	3	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:31824281G>T	uc001mtd.3	-	4	1002	c.112C>A	c.(112-114)CGG>AGG	p.R38R	PAX6_uc001mte.3_Silent_p.R38R|PAX6_uc001mtg.3_Silent_p.R38R|PAX6_uc001mtf.3_Silent_p.R38R|PAX6_uc001mth.3_Silent_p.R38R|PAX6_uc009yjr.2_Silent_p.R38R	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	38	Paired.		Missing (in AN).		blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					TCGCACGGCCGGGCCCCGCTG	0.647									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				11	30					0.00185496	0.00190052	1	1	0		T	31824281	T	T	31824281	2	4	55	1	0	0	0	0	0	0	0	1	11502	1115	39	5		5	PAX6	11	31824281	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	474463	31824281	103182235	880	39914											
C11orf41	25758	broad.mit.edu	37	chr11	33565470	33565470	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaagcattgagcagcctgtGcaacagtcagacatgaccat	14	7	9	11	0	1	3	1	2	0	1	1	3	1	3	2	0	5	3	2	0	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:33565470G>A	uc001mup.3	+	1	1594	c.1470G>A	c.(1468-1470)GTG>GTA	p.V490V	C11orf41_uc001mun.1_Silent_p.V490V	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	490						integral to membrane				ovary(2)	2						AGCAGCCTGTGCAACAGTCAG	0.448													19	51					0	0	1	0	0		A	33565470	A	A	33565470	2	1	55	1	0	0	0	0	0	0	0	1	1643	1306	46	2		2	C11orf41	11	33565470	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1741189	33565470	101441046	881	39915											
ABTB2	25841	broad.mit.edu	37	chr11	34194817	34194817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgtaggtgatggccacgcGcatccactccatgaggggcg	7	7	15	12	4	0	2	0	2	0	0	2	2	2	2	3	4	1	2	3	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:34194817G>A	uc001mvl.1	-	4	954	c.724C>T	c.(724-726)CGC>TGC	p.R242C		NM_145804	NP_665803	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing	242							DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)				ATGGCCACGCGCATCCACTCC	0.692													5	11					0	0	1	0	0		A	34194817	A	A	34194817	3	1	55	1	0	0	0	0	1	0	0	0	103	1087	38	1	1851	1	ABTB2	11	34194817	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	629347	34194817	100811699	882	39916											
LDLRAD3	143458	broad.mit.edu	37	chr11	36250715	36250715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtccccatcacaggcctgCgtggtatgaccttcctccac	6	10	8	17	1	1	1	1	1	0	0	4	1	4	1	6	2	1	1	6	2	1	2	rs149451273		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:36250715C>T	uc001mwk.1	+	6	843	c.806C>T	c.(805-807)GCG>GTG	p.A269V	LDLRAD3_uc010rey.1_Missense_Mutation_p.A220V|LDLRAD3_uc010rez.1_Missense_Mutation_p.A148V|LDLRAD3_uc010rfa.1_RNA	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	269	Cytoplasmic (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)				CACAGGCCTGCGTGGTATGAC	0.587													61	179					0	0	1	0	0		T	36250715	T	T	36250715	3	4	55	1	0	0	0	0	1	0	0	0	8723	768	27	1	828	1	LDLRAD3	11	36250715	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2055898	36250715	98755801	883	39917											
RAG1	5896	broad.mit.edu	37	chr11	36596057	36596057	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccgccaacatcttctgtcGctgactcggagagctcagaa	9	8	9	15	3	3	3	1	1	2	2	5	4	3	3	3	1	2	2	3	1	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:36596057G>A	uc001mwu.3	+	2	1327	c.1203G>A	c.(1201-1203)TCG>TCA	p.S401S	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	401	NBD.		S -> P (in OS).		histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				ATCTTCTGTCGCTGACTCGGA	0.483									Familial_Hemophagocytic_Lymphohistiocytosis				18	34					0	0	1	0	0		A	36596057	A	A	36596057	2	1	55	1	0	0	0	0	0	0	0	1	13028	1074	38	1		1	RAG1	11	36596057	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	345342	36596057	98410459	884	39918											
GYLTL1B	120071	broad.mit.edu	37	chr11	45949753	45949753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgagtggccccgaggccacGcacccacagactatgcccgc	9	3	11	18	4	0	1	0	0	0	1	0	3	0	1	5	2	1	1	5	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:45949753G>A	uc001nbv.1	+	13	1891	c.1780G>A	c.(1780-1782)GCA>ACA	p.A594T	GYLTL1B_uc001nbw.1_Missense_Mutation_p.A563T|GYLTL1B_uc001nbx.1_Missense_Mutation_p.A594T|GYLTL1B_uc001nby.1_Missense_Mutation_p.A277T|GYLTL1B_uc001nbz.1_Intron	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	594	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		CCGAGGCCACGCACCCACAGA	0.672													23	41					0	0	1	0	0		A	45949753	A	A	45949753	3	1	55	1	0	0	0	0	1	0	0	0	6923	1087	38	1	1826	1	GYLTL1B	11	45949753	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	9353696	45949753	89056763	885	39919											
CHRM4	1132	broad.mit.edu	37	chr11	46406889	46406889	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggtgaggatgaaggctaGcagaatggcaaagatcgttc	13	7	14	7	1	0	4	0	2	0	2	2	5	0	5	1	4	1	4	1	4	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:46406889G>A	uc001nct.1	-	1	1219	c.1219C>T	c.(1219-1221)CTA>TTA	p.L407L		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	407	Helical; Name=6; (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	ATGAAGGCTAGCAGAATGGCA	0.602													7	16					0	0	1	0	0		A	46406889	A	A	46406889	2	1	55	1	0	0	0	0	0	0	0	1	3382	962	34	2		2	CHRM4	11	46406889	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	457136	46406889	88599627	886	39920											
NUP160	23279	broad.mit.edu	37	chr11	47814391	47814391	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atattctggacgaataagtcGtaaacaattgagagcagcca	16	9	9	7	2	1	1	0	1	1	1	2	4	1	2	1	1	3	2	1	1	6	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:47814391G>A	uc001ngm.2	-	28	3482	c.3397C>T	c.(3397-3399)CGA>TGA	p.R1133*	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	1133					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						CGAATAAGTCGTAAACAATTG	0.463													40	91					0	0	1	0	0		A	47814391	A	A	47814391	4	1	55	1	0	0	0	0	0	1	0	0	10776	1153	40	1	949	1	NUP160	11	47814391	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1407502	47814391	87192125	887	39921											
PTPRJ	5795	broad.mit.edu	37	chr11	48145173	48145173	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttttaaaatagagccgatcCcagtttctgatctccgtgtt	9	16	7	9	2	2	2	0	1	2	1	4	3	3	2	3	0	1	2	3	0	3	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:48145173C>A	uc001ngp.3	+	5	980	c.625C>A	c.(625-627)CCA>ACA	p.P209T	PTPRJ_uc001ngo.3_Missense_Mutation_p.P209T	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	209	Extracellular (Potential).|Fibronectin type-III 2.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						AGAGCCGATCCCAGTTTCTGA	0.488													5	30					2.0095e-06	2.11959e-06	1	1	0		A	48145173	A	A	48145173	3	1	55	1	0	0	0	0	1	0	0	0	12829	623	22	5	643	5	PTPRJ	11	48145173	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	330782	48145173	86861343	888	39922											
OR4S1	256148	broad.mit.edu	37	chr11	48328602	48328602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctctttaacattgtgatGccacctttgctgaacccttt	8	16	5	12	0	1	2	0	2	1	0	2	2	2	2	4	0	4	1	4	0	2	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:48328602G>A	uc010rhu.1	+	1	828	c.828G>A	c.(826-828)ATG>ATA	p.M276I		NM_001004725	NP_001004725	Q8NGB4	OR4S1_HUMAN	olfactory receptor, family 4, subfamily S,	276	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACATTGTGATGCCACCTTTGC	0.463													28	71					0	0	1	0	0		A	48328602	A	A	48328602	3	1	55	1	0	0	0	0	1	0	0	0	11101	1319	46	2	830	2	OR4S1	11	48328602	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	183429	48328602	86677914	889	39923											
OR4S2	219431	broad.mit.edu	37	chr11	55418833	55418833	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacgtgggtaggtgggttcTtacactccattatccaagtg	8	12	13	8	1	1	0	0	0	1	0	3	1	3	1	2	4	1	2	2	4	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:55418833T>C	uc001nhs.1	+	1	454	c.454T>C	c.(454-456)TTA>CTA	p.L152L		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				AGGTGGGTTCTTACACTCCAT	0.428													38	99					0	0	1	0	0		C	55418833	C	C	55418833	2	2	55	1	0	0	0	0	0	0	0	1	11102	1606	56	3		3	OR4S2	11	55418833	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	7090231	55418833	79587683	890	39924											
OR8H3	390152	broad.mit.edu	37	chr11	55890450	55890450	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgaaatgctgatattcaTtatcgctggttccaccctga	10	13	7	11	1	1	3	1	3	0	0	3	3	2	3	2	1	1	3	2	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:55890450T>A	uc001nii.1	+	1	602	c.602T>A	c.(601-603)ATT>AAT	p.I201N		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	201	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CTGATATTCATTATCGCTGGT	0.408													42	122					0	0	1	0	0		A	55890450	A	A	55890450	3	1	55	1	0	0	0	0	1	0	0	0	11258	1493	52	5	604	5	OR8H3	11	55890450	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	471617	55890450	79116066	891	39925											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57080198	57080198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttgggtggtctcagccCgggctagggtcacggcctcc	3	9	16	13	2	2	0	2	0	1	0	4	0	3	0	3	6	1	2	3	6	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:57080198C>T	uc001njr.2	-	4	2276	c.1964G>A	c.(1963-1965)CGG>CAG	p.R655Q	TNKS1BP1_uc001njs.2_Missense_Mutation_p.R655Q|TNKS1BP1_uc009ymd.1_Missense_Mutation_p.R106Q	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	655	Pro-rich.|Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GGTCTCAGCCCGGGCTAGGGT	0.652													3	21					0	0	1	0	0		T	57080198	T	T	57080198	3	4	55	1	0	0	0	0	1	0	0	0	16345	652	23	1	3253	1	TNKS1BP1	11	57080198	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1189748	57080198	77926318	892	39926											
OR10Q1	219960	broad.mit.edu	37	chr11	57995829	57995829	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgatttcctggtggtggccGcaaaagggcagggtgaagat	9	10	16	6	1	0	3	0	2	0	1	1	3	1	3	2	5	0	2	2	5	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:57995829G>A	uc010rkd.1	-	1	519	c.519C>T	c.(517-519)TGC>TGT	p.C173C		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	173	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				GGTGGTGGCCGCAAAAGGGCA	0.652													11	27					0	0	1	0	0		A	57995829	A	A	57995829	2	1	55	1	0	0	0	0	0	0	0	1	10935	1079	38	1		1	OR10Q1	11	57995829	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	915631	57995829	77010687	893	39927											
OR5B12	390191	broad.mit.edu	37	chr11	58207035	58207036	+	Frame_Shift_Del	DEL	AT	-	-																															tgaatcccaccacaaaaaaaAtaaccatctcactgatgtag																								rs148519730	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:58207035_58207036delAT	uc010rkh.1	-	1	589_590	c.589_590delAT	c.(589-591)ATTfs	p.I197fs		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	197	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CACAAAAAAAATAACCATCTCA	0.391													11	21	---	---	---	---						.	-	58207036	-	-	58207035	7	5	55	1	0	1	0	1	0	0	0	0	11167	101	4	0	358	0	OR5B12	11	58207035	Frame_Shift_Del	DEL	AT	TCGA-BR-7851-01A-11D-2201-08	211206	58207035	76799481	894	39928											
ZFP91	80829	broad.mit.edu	37	chr11	58385066	58385066	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgatggctgatgggaagAtctttgtgggaagcggcagc	8	9	17	7	1	1	3	0	2	1	1	1	5	1	5	1	4	2	2	1	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:58385066A>T	uc001nmx.3	+	11	1768	c.1600A>T	c.(1600-1602)ATC>TTC	p.I534F	ZFP91_uc001nmy.3_Missense_Mutation_p.I533F|ZFP91-CNTF_uc010rkm.1_Intron	NM_053023	NP_444251	Q96JP5	ZFP91_HUMAN	zinc finger protein 91	534					activation of NF-kappaB-inducing kinase activity|protein K63-linked ubiquitination	nucleus	nucleic acid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				TGATGGGAAGATCTTTGTGGG	0.378													10	47					0	0	1	0	0		T	58385066	T	T	58385066	3	4	55	1	0	0	0	0	1	0	0	0	17680	333	12	5	1642	5	ZFP91	11	58385066	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	178031	58385066	76621450	895	39929											
OR5A1	219982	broad.mit.edu	37	chr11	59211158	59211158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatttaggcttcacttttgcGgacccaacatcatcaaccac	11	12	5	13	1	3	0	3	0	0	0	3	1	3	1	2	2	3	1	2	2	4	6	rs140829988		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:59211158G>A	uc001nnx.1	+	1	517	c.517G>A	c.(517-519)GGA>AGA	p.G173R		NM_001004728	NP_001004728	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A,	173	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2						TCACTTTTGCGGACCCAACAT	0.547													55	202					0	0	1	0	0		A	59211158	A	A	59211158	3	1	55	1	0	0	0	0	1	0	0	0	11158	1117	39	1	519	1	OR5A1	11	59211158	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	826092	59211158	75795358	896	39930											
STX3	6809	broad.mit.edu	37	chr11	59560902	59560902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcagtgagattgagggacGacacaaggacattgtgaggc	12	7	14	8	1	1	3	1	3	0	1	1	7	1	5	1	3	0	0	1	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:59560902G>A	uc001nog.2	+	8	780	c.590G>A	c.(589-591)CGA>CAA	p.R197Q	STX3_uc010rkx.1_Missense_Mutation_p.R197Q|STX3_uc010rky.1_Missense_Mutation_p.R100Q|STX3_uc009ymt.1_Missense_Mutation_p.R100Q	NM_004177	NP_004168	Q13277	STX3_HUMAN	syntaxin 3	197	t-SNARE coiled-coil homology.|Cytoplasmic (Potential).				cellular response to oxidative stress|intracellular protein transport|neuron projection development|neurotransmitter transport	apical plasma membrane|azurophil granule|cell-cell junction|growth cone|integral to membrane|plasma membrane enriched fraction|SNARE complex|specific granule	arachidonic acid binding|SNAP receptor activity			ovary(2)	2						ATTGAGGGACGACACAAGGAC	0.512													12	45					0	0	1	0	0		A	59560902	A	A	59560902	3	1	55	1	0	0	0	0	1	0	0	0	15371	1058	37	1	620	1	STX3	11	59560902	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	349744	59560902	75445614	897	39931											
MS4A1	931	broad.mit.edu	37	chr11	60230571	60230571	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatctgtgtgactgtgtggTaccctctctggggaggcatt	5	13	13	10	0	2	1	0	1	2	0	3	2	2	2	2	4	1	2	2	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:60230571T>C	uc001npp.2	+	4	672	c.256T>C	c.(256-258)TAC>CAC	p.Y86H	MS4A1_uc009ymy.1_Missense_Mutation_p.Y86H|MS4A1_uc001npq.2_Missense_Mutation_p.Y86H|MS4A1_uc009yna.2_Missense_Mutation_p.Y86H|MS4A1_uc009ymz.2_Missense_Mutation_p.Y86H|MS4A1_uc010rlc.1_Intron	NM_152866	NP_690605	P11836	CD20_HUMAN	membrane-spanning 4-domains, subfamily A, member	86	Helical; (Potential).				B cell activation|immune response	integral to plasma membrane				ovary(3)|lung(2)	5					Ibritumomab(DB00078)|Rituximab(DB00073)|Tositumomab(DB00081)	GACTGTGTGGTACCCTCTCTG	0.498													26	64					0	0	1	0	0		C	60230571	C	C	60230571	3	2	55	1	0	0	0	0	1	0	0	0	9872	1638	57	3	262	3	MS4A1	11	60230571	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	669669	60230571	74775945	898	39932											
MS4A10	341116	broad.mit.edu	37	chr11	60557821	60557821	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatcaatgaaagcagaaGccacagttattcccagccgt	14	7	8	12	1	1	2	1	1	0	1	2	2	2	2	3	0	4	3	3	0	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:60557821G>T	uc001npz.1	+	2	109	c.13G>T	c.(13-15)GCC>TCC	p.A5S		NM_206893	NP_996776	Q96PG2	M4A10_HUMAN	membrane-spanning 4-domains, subfamily A, member	5	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(1)|skin(1)	2						GAAAGCAGAAGCCACAGTTAT	0.607													22	43					3.6726e-16	4.04679e-16	1	1	0		T	60557821	T	T	60557821	3	4	55	1	0	0	0	0	1	0	0	0	9873	971	34	5	15	5	MS4A10	11	60557821	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	327250	60557821	74448695	899	39933											
SLC15A3	51296	broad.mit.edu	37	chr11	60711286	60711286	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggagacctctcgtcggccaGcacgcgggcacattgacggt	7	6	15	13	5	1	2	0	1	1	1	3	3	1	2	2	4	1	2	2	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:60711286G>A	uc001nqn.2	-	3	1105	c.871C>T	c.(871-873)CTG>TTG	p.L291L	SLC15A3_uc001nqo.2_Silent_p.L291L	NM_016582	NP_057666	Q8IY34	S15A3_HUMAN	solute carrier family 15, member 3	291					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0						TCGTCGGCCAGCACGCGGGCA	0.483													4	7					0	0	1	0	0		A	60711286	A	A	60711286	2	1	55	1	0	0	0	0	0	0	0	1	14425	962	34	2		2	SLC15A3	11	60711286	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	153465	60711286	74295230	900	39934											
DDB1	1642	broad.mit.edu	37	chr11	61079513	61079513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcagcttctggatctcatCgatggtgccaatggtgaggg	7	11	15	8	1	2	1	1	1	2	0	4	3	2	2	1	4	3	2	1	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:61079513C>T	uc001nrc.3	-	17	2339	c.2113G>A	c.(2113-2115)GAT>AAT	p.D705N	DDB1_uc010rle.1_Intron|DDB1_uc010rlf.1_Missense_Mutation_p.D705N	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	705	Interaction with CDT1.|Interaction with CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						TGGATCTCATCGATGGTGCCA	0.552								NER					42	117					0	0	1	0	0		T	61079513	T	T	61079513	3	4	55	1	0	0	0	0	1	0	0	0	4326	884	31	1	1353	1	DDB1	11	61079513	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	368227	61079513	73927003	901	39935											
C11orf9	745	broad.mit.edu	37	chr11	61539203	61539203	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacaccgccttggcacccGccaggtgccccctccccagg	6	4	10	21	2	0	1	0	0	0	1	1	1	1	1	8	3	1	1	8	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:61539203G>A	uc001nsc.1	+	6	1068	c.972G>A	c.(970-972)CCG>CCA	p.P324P	C11orf9_uc001nse.1_Silent_p.P315P	NM_001127392	NP_001120864	Q9Y2G1	MRF_HUMAN	myelin gene regulatory factor isoform 2	324	NDT80.|Pro-rich.				central nervous system myelination|positive regulation of myelination|positive regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						CTTGGCACCCGCCAGGTGCCC	0.697													21	87					0	0	1	0	0		A	61539203	A	A	61539203	2	1	55	1	0	0	0	0	0	0	0	1	1674	1074	38	1		1	C11orf9	11	61539203	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	459690	61539203	73467313	902	39936											
C11orf9	745	broad.mit.edu	37	chr11	61541548	61541548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaggtgacagtgtacatcGgcatgctgggcgagcccaag	9	7	14	11	2	0	1	0	1	0	0	2	2	1	1	2	3	3	3	2	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:61541548G>A	uc001nsc.1	+	8	1321	c.1225G>A	c.(1225-1227)GGC>AGC	p.G409S	C11orf9_uc001nse.1_Missense_Mutation_p.G400S	NM_001127392	NP_001120864	Q9Y2G1	MRF_HUMAN	myelin gene regulatory factor isoform 2	409	NDT80.				central nervous system myelination|positive regulation of myelination|positive regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						AGTGTACATCGGCATGCTGGG	0.587													10	12					0	0	1	0	0		A	61541548	A	A	61541548	3	1	55	1	0	0	0	0	1	0	0	0	1674	1116	39	1	1278	1	C11orf9	11	61541548	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2345	61541548	73464968	903	39937											
RAB3IL1	5866	broad.mit.edu	37	chr11	61672092	61672092	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaccggctcaatggtgagCgtgttgtcctccacggcggc	5	8	14	14	4	1	1	1	1	0	0	3	1	3	1	4	4	1	2	4	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:61672092C>T	uc001nso.2	-	7	983	c.825G>A	c.(823-825)ACG>ACA	p.T275T	RAB3IL1_uc001nsp.2_Silent_p.T249T	NM_013401	NP_037533	Q8TBN0	R3GEF_HUMAN	RAB3A interacting protein (rabin3)-like 1	275							protein binding			skin(2)|central_nervous_system(1)	3						CAATGGTGAGCGTGTTGTCCT	0.647													10	24					0	0	1	0	0		T	61672092	T	T	61672092	2	4	55	1	0	0	0	0	0	0	0	1	12962	755	27	1		1	RAB3IL1	11	61672092	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	130544	61672092	73334424	904	39938											
MTA2	9219	broad.mit.edu	37	chr11	62361501	62361501	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttccagatgggtcagagccTtccgtagggccctggccaga	7	9	13	12	1	1	3	1	0	0	3	3	3	3	3	5	3	1	1	5	3	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:62361501T>C	uc001ntq.1	-	18	2234	c.1853A>G	c.(1852-1854)AAG>AGG	p.K618R	TUT1_uc001nto.2_5'Flank|MTA2_uc010rlx.1_Missense_Mutation_p.K445R	NM_004739	NP_004730	O94776	MTA2_HUMAN	metastasis-associated protein 2	618					chromatin assembly or disassembly	NuRD complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GGTCAGAGCCTTCCGTAGGGC	0.567											OREG0021027	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	67					0	0	1	0	0		C	62361501	C	C	62361501	3	2	55	1	0	0	0	0	1	0	0	0	9927	1609	56	3	157	3	MTA2	11	62361501	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	689409	62361501	72645015	905	39939											
EML3	256364	broad.mit.edu	37	chr11	62376578	62376578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaacacaaacagattagagCgggagtcacgacccctgtac	14	5	10	12	2	1	2	1	0	0	2	1	4	1	3	2	1	4	2	2	1	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:62376578C>T	uc001ntu.1	-	7	1093	c.785G>A	c.(784-786)CGC>CAC	p.R262H	EML3_uc001ntr.1_Missense_Mutation_p.R234H|EML3_uc001nts.1_Missense_Mutation_p.R234H|EML3_uc001ntt.1_Missense_Mutation_p.R146H|EML3_uc010rly.1_Missense_Mutation_p.R262H|EML3_uc009yny.1_Missense_Mutation_p.R45H	NM_153265	NP_694997	Q32P44	EMAL3_HUMAN	echinoderm microtubule associated protein like	262						cytoplasm|microtubule	protein binding			ovary(1)	1						CAGATTAGAGCGGGAGTCACG	0.582													27	75					0	0	1	0	0		T	62376578	T	T	62376578	3	4	55	1	0	0	0	0	1	0	0	0	5106	768	27	1	1969	1	EML3	11	62376578	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	15077	62376578	72629938	906	39940											
TMEM179B	374395	broad.mit.edu	37	chr11	62557411	62557411	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtcttggtgctccaggtCgtgcagtggaagtctgaagc	6	11	16	8	1	2	1	0	1	2	0	4	2	3	2	1	4	3	2	1	4	2	1	rs149169067		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:62557411C>T	uc001nvd.3	+	5	582	c.552C>T	c.(550-552)GTC>GTT	p.V184V		NM_199337	NP_955369	Q7Z7N9	T179B_HUMAN	transmembrane protein 179B	184	Helical; (Potential).					integral to membrane					0						TGCTCCAGGTCGTGCAGTGGA	0.557													40	104					0	0	1	0	0		T	62557411	T	T	62557411	2	4	55	1	0	0	0	0	0	0	0	1	16122	871	31	1		1	TMEM179B	11	62557411	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	180833	62557411	72449105	907	39941											
NXF1	10482	broad.mit.edu	37	chr11	62569689	62569689	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgcacttgctctgaatcAtgctcaggagccatgccttg	8	11	9	13	0	3	1	2	1	1	0	3	2	3	2	2	1	5	3	2	1	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:62569689A>G	uc001nvf.1	-	4	549	c.413T>C	c.(412-414)ATG>ACG	p.M138T	NXF1_uc001nvg.1_Missense_Mutation_p.M138T|NXF1_uc009yog.1_Missense_Mutation_p.M181T|NXF1_uc010rmh.1_Missense_Mutation_p.M1T	NM_006362	NP_006353	Q9UBU9	NXF1_HUMAN	nuclear RNA export factor 1 isoform 1	138	Interaction with THOC4.|RRM.				gene expression|interspecies interaction between organisms	cytosol|nuclear speck	nucleotide binding|protein binding			skin(3)	3						GCTCTGAATCATGCTCAGGAG	0.502													13	21					0	0	1	0	0		G	62569689	G	G	62569689	3	3	55	1	0	0	0	0	1	0	0	0	10801	217	8	3	1573	3	NXF1	11	62569689	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	12278	62569689	72436827	908	39942											
OTUB1	55611	broad.mit.edu	37	chr11	63764868	63764868	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccacatccacatcattgcGctggcccaggccctcagcgt	8	7	9	17	2	2	0	2	0	0	0	3	1	3	0	4	2	2	1	4	2	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:63764868G>A	uc001nyf.1	+	7	1270	c.666G>A	c.(664-666)GCG>GCA	p.A222A	OTUB1_uc001nyg.1_Silent_p.A265A|OTUB1_uc010rmz.1_Silent_p.A259A|OTUB1_uc010rna.1_Silent_p.A231A|OTUB1_uc009ypa.2_Silent_p.A121A|OTUB1_uc009ypb.1_Silent_p.A192A	NM_017670	NP_060140	Q96FW1	OTUB1_HUMAN	otubain 1	222	OTU.				protein K48-linked deubiquitination	cytoplasm	NEDD8-specific protease activity|omega peptidase activity|ubiquitin binding|ubiquitin-specific protease activity			breast(1)	1						ACATCATTGCGCTGGCCCAGG	0.677													17	32					0	0	1	0	0		A	63764868	A	A	63764868	2	1	55	1	0	0	0	0	0	0	0	1	11330	1074	38	1		1	OTUB1	11	63764868	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1195179	63764868	71241648	909	39943											
RPS6KA4	8986	broad.mit.edu	37	chr11	64137189	64137189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaacatcctgtacgccgacGacacgcccggggccccggtg	8	4	13	16	6	0	1	0	0	0	1	1	3	1	1	5	3	2	1	5	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:64137189G>A	uc001oae.2	+	14	1704	c.1621G>A	c.(1621-1623)GAC>AAC	p.D541N	RPS6KA4_uc001oad.2_Missense_Mutation_p.D535N|RPS6KA4_uc010rnl.1_Missense_Mutation_p.D478N|RPS6KA4_uc001oaf.2_Missense_Mutation_p.D534N|RPS6KA4_uc009ypp.2_Intron	NM_003942	NP_003933	O75676	KS6A4_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	541	Protein kinase 2.				axon guidance|histone phosphorylation|interleukin-1-mediated signaling pathway|intracellular protein kinase cascade|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|magnesium ion binding|mitogen-activated protein kinase p38 binding|ribosomal protein S6 kinase activity			lung(3)|ovary(1)|breast(1)	5						GTACGCCGACGACACGCCCGG	0.726													5	24					0	0	1	0	0		A	64137189	A	A	64137189	3	1	55	1	0	0	0	0	1	0	0	0	13678	1058	37	1	1675	1	RPS6KA4	11	64137189	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	372321	64137189	70869327	910	39944											
PYGM	5837	broad.mit.edu	37	chr11	64527250	64527250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccacattgcggtcctttaCgagtgtgaaatgcaggtgcc	8	10	13	10	2	0	1	0	1	0	0	1	2	1	1	3	3	4	1	3	3	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:64527250C>T	uc001oax.3	-	1	938	c.121G>A	c.(121-123)GTA>ATA	p.V41I	PYGM_uc001oay.3_Missense_Mutation_p.V41I	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	41					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	CGGTCCTTTACGAGTGTGAAA	0.577													76	165					0	0	1	0	0		T	64527250	T	T	64527250	3	4	55	1	0	0	0	0	1	0	0	0	12887	536	19	1	2487	1	PYGM	11	64527250	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	390061	64527250	70479266	911	39945											
ATG2A	23130	broad.mit.edu	37	chr11	64668525	64668525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccctcacaacgatggggcCgggatgcagctgtgtcacca	8	7	13	13	2	2	0	2	0	0	0	3	2	3	1	3	3	3	2	3	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:64668525C>T	uc001obx.2	-	30	4274	c.4159G>A	c.(4159-4161)GGC>AGC	p.G1387S	ATG2A_uc001obw.2_Missense_Mutation_p.G152S	NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1387							protein binding			ovary(1)|central_nervous_system(1)	2						ACGATGGGGCCGGGATGCAGC	0.652											OREG0004028	type=REGULATORY REGION|Gene=BC008593|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	5	7					0	0	1	0	0		T	64668525	T	T	64668525	3	4	55	1	0	0	0	0	1	0	0	0	1094	652	23	1	1705	1	ATG2A	11	64668525	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	141275	64668525	70337991	912	39946											
SNX15	29907	broad.mit.edu	37	chr11	64803137	64803137	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccccttctccaaggaaggTaatgagctgggacagccggg	10	6	14	11	1	1	1	0	1	1	0	2	4	1	3	4	4	2	2	4	4	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:64803137T>C	uc001oci.3	+	9	1317	c.664_splice	c.e9+2	p.E222_splice	SNX15_uc009ypy.2_Splice_Site_p.E222_splice|SNX15_uc001ocj.2_Splice_Site_p.E222_splice|SNX15_uc001ock.2_Splice_Site_p.G222_splice	NM_013306	NP_037438	Q9NRS6	SNX15_HUMAN	sorting nexin 15 isoform A						cell communication|intracellular protein transport	cytoplasmic vesicle membrane|cytosol	phosphatidylinositol binding|protein transporter activity			ovary(1)	1						CCAAGGAAGGTAATGAGCTGG	0.637													3	62					0	0	1	0	0		C	64803137	C	C	64803137	5	2	55	1	0	0	0	0	0	0	1	0	14911	1652	57	3	688	3	SNX15	11	64803137	Splice_Site	SNP	T	TCGA-BR-7851-01A-11D-2201-08	134612	64803137	70203379	913	39947											
ZFPL1	7542	broad.mit.edu	37	chr11	64854021	64854021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctggccccgtggcctccGcactgagagagaagctggcc	6	6	15	14	2	0	2	0	1	0	2	1	4	1	2	5	4	1	3	5	4	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:64854021G>A	uc001ocq.1	+	4	514	c.349G>A	c.(349-351)GCA>ACA	p.A117T	CDCA5_uc001ocp.2_5'Flank	NM_006782	NP_006773	O95159	ZFPL1_HUMAN	zinc finger protein-like 1	117	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|vesicle-mediated transport	Golgi apparatus|integral to membrane|nucleus	DNA binding|zinc ion binding			ovary(1)	1						CGTGGCCTCCGCACTGAGAGA	0.657													27	71					0	0	1	0	0		A	64854021	A	A	64854021	3	1	55	1	0	0	0	0	1	0	0	0	17681	1087	38	1	359	1	ZFPL1	11	64854021	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	50884	64854021	70152495	914	39948											
MAP3K11	4296	broad.mit.edu	37	chr11	65367021	65367021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctcggtcgggcagggcgCgggcgttggcgtggggggtg	1	6	25	9	7	0	0	0	0	0	0	2	0	0	0	0	9	0	3	0	9	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:65367021C>T	uc001oew.2	-	9	2543	c.2050G>A	c.(2050-2052)GCG>ACG	p.A684T	MAP3K11_uc001oev.2_Missense_Mutation_p.A100T|MAP3K11_uc010rol.1_Missense_Mutation_p.A427T|MAP3K11_uc001oex.1_Missense_Mutation_p.A191T	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	684	Pro-rich.				activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						GGGCAGGGCGCGGGCGTTGGC	0.751													22	54					0	0	1	0	0		T	65367021	T	T	65367021	3	4	55	1	0	0	0	0	1	0	0	0	9263	768	27	1	501	1	MAP3K11	11	65367021	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	513000	65367021	69639495	915	39949											
CFL1	1072	broad.mit.edu	37	chr11	65623611	65623611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcactcaggcagaagagcaCcgccttcttgcgcttcttca	8	10	8	15	2	5	2	3	0	2	2	5	2	5	2	2	1	2	3	2	1	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:65623611C>T	uc001ofs.2	-	2	340	c.106G>A	c.(106-108)GTG>ATG	p.V36M	CFL1_uc001oft.2_Missense_Mutation_p.V36M|CFL1_uc001ofu.2_3'UTR	NM_005507	NP_005498	P23528	COF1_HUMAN	cofilin 1 (non-muscle)	36	ADF-H.				actin cytoskeleton organization|anti-apoptosis|axon guidance|platelet activation|platelet degranulation|response to virus|Rho protein signal transduction	cytoplasm|cytoskeleton|nuclear matrix	actin binding				0				READ - Rectum adenocarcinoma(159;0.169)		CAGAAGAGCACCGCCTTCTTG	0.567													13	48					0	0	1	0	0		T	65623611	T	T	65623611	3	4	55	1	0	0	0	0	1	0	0	0	3293	507	18	4	406	4	CFL1	11	65623611	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	256590	65623611	69382905	916	39950											
FIBP	9158	broad.mit.edu	37	chr11	65651890	65651890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcgagggagtggacagacGctgaatactgattcaggaag	13	7	14	7	2	1	3	1	2	0	1	2	7	1	6	0	3	1	1	0	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:65651890G>A	uc001ogd.2	-	9	1119	c.998C>T	c.(997-999)GCG>GTG	p.A333V	FIBP_uc009yqu.2_Silent_p.S318S|FIBP_uc001oge.2_Missense_Mutation_p.A326V	NM_198897	NP_942600	O43427	FIBP_HUMAN	FGF intracellular binding protein isoform a	333					fibroblast growth factor receptor signaling pathway	endomembrane system|membrane|microsome|mitochondrion|nucleus	fibroblast growth factor binding			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.166)		GTGGACAGACGCTGAATACTG	0.612											OREG0021089	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	22					0	0	1	0	0		A	65651890	A	A	65651890	3	1	55	1	0	0	0	0	1	0	0	0	5900	1087	38	1	104	1	FIBP	11	65651890	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	28279	65651890	69354626	917	39951											
SART1	9092	broad.mit.edu	37	chr11	65732567	65732567	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggccccccttccagaggcGggcaccaaggaggagcccgt	7	4	15	15	2	0	1	0	0	0	1	1	3	1	3	6	5	1	1	6	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:65732567G>T	uc001ogl.2	+	4	524	c.432G>T	c.(430-432)GCG>GCT	p.A144A	SART1_uc010rot.1_5'UTR	NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	144					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1						TTCCAGAGGCGGGCACCAAGG	0.672													10	27					6.31663e-08	6.75625e-08	1	1	0		T	65732567	T	T	65732567	2	4	55	1	0	0	0	0	0	0	0	1	13871	1103	39	5		5	SART1	11	65732567	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	80677	65732567	69273949	918	39952											
CD248	57124	broad.mit.edu	37	chr11	66084234	66084234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcattgccgggcctgccGctgcagcccgatccacagca	6	6	12	17	3	0	0	0	0	0	0	1	1	1	0	5	2	5	4	5	2	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:66084234G>A	uc001ohm.1	-	1	282	c.265C>T	c.(265-267)CGG>TGG	p.R89W		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	89	C-type lectin.|Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	CGGGCCTGCCGCTGCAGCCCG	0.726													12	9					0	0	1	0	0		A	66084234	A	A	66084234	3	1	55	1	0	0	0	0	1	0	0	0	2992	1086	38	1	2012	1	CD248	11	66084234	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	351667	66084234	68922282	919	39953											
ACTN3	89	broad.mit.edu	37	chr11	66327746	66327746	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgccgtggaggacctgcaGgacgtgtggctggtacactc	6	8	17	10	2	0	0	0	0	0	0	1	3	0	3	2	6	3	3	2	6	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:66327746G>A	uc001oio.1	+	14	1659	c.1641G>A	c.(1639-1641)CAG>CAA	p.Q547Q	ACTN3_uc010rpi.1_RNA	NM_001104	NP_001095	Q08043	ACTN3_HUMAN	actinin, alpha 3	547	Spectrin 3.				focal adhesion assembly|muscle filament sliding|regulation of apoptosis	actin filament|cytosol|focal adhesion|pseudopodium	actin binding|calcium ion binding|integrin binding|protein homodimerization activity|structural constituent of muscle				0						AGGACCTGCAGGACGTGTGGC	0.622													9	13					0	0	1	0	0		A	66327746	A	A	66327746	2	1	55	1	0	0	0	0	0	0	0	1	206	991	35	4		4	ACTN3	11	66327746	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	243512	66327746	68678770	920	39954											
RCE1	9986	broad.mit.edu	37	chr11	66611801	66611801	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctctctatggattgcccTtgtgacctggcagatgggct	6	12	12	11	0	1	2	0	1	1	1	2	3	1	3	2	3	2	3	2	3	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:66611801T>C	uc001ojk.1	+	4	461	c.417T>C	c.(415-417)CCT>CCC	p.P139P	RCE1_uc001ojl.1_Silent_p.P35P	NM_005133	NP_005124	Q9Y256	FACE2_HUMAN	prenyl protein peptidase RCE1 isoform 1	139					proteolysis	endoplasmic reticulum membrane|integral to plasma membrane	metalloendopeptidase activity			ovary(1)|breast(1)	2						TGGATTGCCCTTGTGACCTGG	0.537													4	131					0	0	1	0	0		C	66611801	C	C	66611801	2	2	55	1	0	0	0	0	0	0	0	1	13201	1596	56	3		3	RCE1	11	66611801	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	284055	66611801	68394715	921	39955											
PPP1CA	5499	broad.mit.edu	37	chr11	67168671	67168671	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggccgcgagccctgcaCtggggcgcaatggggtgtca	6	5	17	13	3	1	0	1	0	0	0	1	1	1	0	3	5	2	2	3	5	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:67168671C>T	uc001okw.1	-	2	179	c.56_splice	c.e2-1	p.V19_splice	PPP1CA_uc009yro.1_Splice_Site|PPP1CA_uc001okt.1_Missense_Mutation_p.V24M|PPP1CA_uc001oku.1_Missense_Mutation_p.V30M|PPP1CA_uc001okv.1_Intron|PPP1CA_uc001okx.1_Splice_Site_p.V107_splice|PPP1CA_uc001oky.2_Splice_Site_p.V19_splice|TBC1D10C_uc001okz.2_5'Flank|TBC1D10C_uc001ola.2_5'Flank|TBC1D10C_uc001olb.2_5'Flank	NM_002708	NP_002699	P62136	PP1A_HUMAN	protein phosphatase 1, catalytic subunit, alpha						cell cycle|cell division|glycogen metabolic process|protein dephosphorylation|triglyceride catabolic process	cytosol|MLL5-L complex|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|protein binding|protein phosphatase type 1 regulator activity|protein serine/threonine phosphatase activity			breast(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(15;8.53e-07)			GAGCCCTGCACTGGGGCGCAA	0.642													19	66					0	0	1	0	0		T	67168671	T	T	67168671	5	4	55	1	0	0	0	0	0	0	1	0	12371	579	20	4	961	4	PPP1CA	11	67168671	Splice_Site	SNP	C	TCGA-BR-7851-01A-11D-2201-08	556870	67168671	67837845	922	39956											
TBC1D10C	374403	broad.mit.edu	37	chr11	67177171	67177171	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccggggcccccccatcgaGgggccccccaggccccaacg	5	1	13	22	3	0	0	0	0	0	0	1	1	0	0	9	5	1	0	9	5	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:67177171G>T	uc001ola.2	+	10	1316	c.1287G>T	c.(1285-1287)GAG>GAT	p.E429D	PPP1CA_uc001okx.1_Intron|TBC1D10C_uc001okz.2_3'UTR|TBC1D10C_uc001olb.2_RNA	NM_198517	NP_940919	Q8IV04	TB10C_HUMAN	TBC1 domain family, member 10C	429	Interaction with calcineurin.					intracellular	Rab GTPase activator activity				0			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			CCCCCATCGAGGGGCCCCCCA	0.682													3	17					0.014758	0.014937	1	1	0		T	67177171	T	T	67177171	3	4	55	1	0	0	0	0	1	0	0	0	15625	991	35	5	1321	5	TBC1D10C	11	67177171	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	8500	67177171	67829345	923	39957											
CABP4	57010	broad.mit.edu	37	chr11	67223133	67223133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagcactggagaggggcCggcgggcgcaccccctgcat	6	4	15	16	3	0	1	0	0	0	1	1	2	1	1	4	5	2	3	4	5	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:67223133C>T	uc001olo.2	+	1	316	c.239C>T	c.(238-240)CCG>CTG	p.P80L	GPR152_uc001olm.2_5'Flank|CABP4_uc001oln.2_Intron	NM_145200	NP_660201	P57796	CABP4_HUMAN	calcium binding protein 4	80					visual perception	cytoplasm|extracellular region|terminal button	calcium ion binding				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			GGAGAGGGGCCGGCGGGCGCA	0.701													10	10					0	0	1	0	0		T	67223133	T	T	67223133	3	4	55	1	0	0	0	0	1	0	0	0	2536	652	23	1	241	1	CABP4	11	67223133	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	45962	67223133	67783383	924	39958											
TCIRG1	10312	broad.mit.edu	37	chr11	67808841	67808841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgggcgagctgggcctcGtggagttcagagacgtgagt	6	8	19	8	3	1	2	1	1	0	1	2	5	1	3	1	4	1	3	1	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:67808841G>A	uc001one.2	+	2	211	c.103G>A	c.(103-105)GTG>ATG	p.V35M	TCIRG1_uc001ond.1_Missense_Mutation_p.V35M|TCIRG1_uc001onf.1_Missense_Mutation_p.V35M|TCIRG1_uc001ong.2_5'Flank|TCIRG1_uc001onh.2_5'Flank|TCIRG1_uc001oni.2_5'Flank	NM_006019	NP_006010	Q13488	VPP3_HUMAN	T-cell, immune regulator 1 isoform a	35	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular defense response|cellular iron ion homeostasis|insulin receptor signaling pathway|positive regulation of cell proliferation|transferrin transport	apical plasma membrane|endosome membrane|integral to plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity			ovary(1)	1						GCTGGGCCTCGTGGAGTTCAG	0.687													24	63					0	0	1	0	0		A	67808841	A	A	67808841	3	1	55	1	0	0	0	0	1	0	0	0	15728	1145	40	1	105	1	TCIRG1	11	67808841	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	585708	67808841	67197675	925	39959											
SUV420H1	51111	broad.mit.edu	37	chr11	67926307	67926307	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcacccgctggcaactgcGgcttgggctggtccctctgg	5	8	14	14	2	1	0	0	0	1	0	2	0	2	0	2	5	3	5	2	5	2	1	rs145782213	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:67926307G>A	uc001onm.1	-	11	1762	c.1506C>T	c.(1504-1506)GCC>GCT	p.A502A	SUV420H1_uc009yse.1_Silent_p.A88A|SUV420H1_uc001onn.1_Silent_p.A330A|SUV420H1_uc009ysf.2_Silent_p.A262A	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	502					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						TGGCAACTGCGGCTTGGGCTG	0.507													13	17					0	0	1	0	0		A	67926307	A	A	67926307	2	1	55	1	0	0	0	0	0	0	0	1	15439	1103	39	1		1	SUV420H1	11	67926307	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	117466	67926307	67080209	926	39960											
LRP5	4041	broad.mit.edu	37	chr11	68191056	68191056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacactgttctggacgtgcGaggccaccaataccatcaac	11	7	10	13	2	2	0	1	0	1	0	2	3	2	2	3	3	3	1	3	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:68191056G>A	uc001ont.2	+	14	3202	c.3127G>A	c.(3127-3129)GAG>AAG	p.E1043K	LRP5_uc009ysg.2_Missense_Mutation_p.E453K	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1043	LDL-receptor class B 17.|Beta-propeller 4.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CTGGACGTGCGAGGCCACCAA	0.622													52	76					0	0	1	0	0		A	68191056	A	A	68191056	3	1	55	1	0	0	0	0	1	0	0	0	8978	1059	37	1	3181	1	LRP5	11	68191056	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	264749	68191056	66815460	927	39961											
SHANK2	22941	broad.mit.edu	37	chr11	70331662	70331662	+	Frame_Shift_Del	DEL	G	-	-																															gcgggggcgggggagcgggcGgggggataacaaagctatct																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:70331662delG	uc001oqc.2	-	21	4814	c.4736delC	c.(4735-4737)CCGfs	p.P1579fs	SHANK2_uc010rqn.1_Frame_Shift_Del_p.P991fs|SHANK2_uc001opz.2_Frame_Shift_Del_p.P984fs|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	1200					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			gggagcgggcggggggATAAC	0.413													57	123	---	---	---	---						.	-	70331662	-	-	70331662	7	5	55	1	0	1	0	1	0	0	0	0	14290	1116	39	0	821	0	SHANK2	11	70331662	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	2140606	70331662	64674854	928	39962											
CLPB	81570	broad.mit.edu	37	chr11	72004579	72004579	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttgtctgagtcctccacCgtgatgcgcaaagtacagcc	8	10	10	13	2	1	2	0	2	1	0	3	2	3	2	4	0	4	3	4	0	2	2	rs140281600		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:72004579C>A	uc001osj.2	-	17	2006	c.1956G>T	c.(1954-1956)ACG>ACT	p.T652T	CLPB_uc010rqx.1_Silent_p.T607T|CLPB_uc010rqy.1_Silent_p.T593T|CLPB_uc001osk.2_Silent_p.T622T|CLPB_uc009ytg.2_RNA|CLPB_uc010rqz.1_Silent_p.T451T|CLPB_uc001osi.2_Silent_p.T260T	NM_030813	NP_110440	Q9H078	CLPB_HUMAN	caseinolytic peptidase B	652					cellular response to heat		ATP binding|nucleoside-triphosphatase activity|protein binding			pancreas(1)	1						AGTCCTCCACCGTGATGCGCA	0.607													8	28					3.09899e-07	3.29056e-07	1	1	0		A	72004579	A	A	72004579	2	1	55	1	0	0	0	0	0	0	0	1	3554	639	23	5		5	CLPB	11	72004579	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1672917	72004579	63001937	929	39963											
P2RY2	5029	broad.mit.edu	37	chr11	72946051	72946051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctgccacaccctcaacGccatcaacatggcctacaag	12	6	6	17	1	3	0	3	0	0	0	3	0	3	0	4	1	5	1	4	1	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:72946051G>A	uc001otj.2	+	3	1180	c.847G>A	c.(847-849)GCC>ACC	p.A283T	P2RY2_uc001otk.2_Missense_Mutation_p.A283T|P2RY2_uc001otl.2_Missense_Mutation_p.A283T	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	283	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(1)|skin(1)	4					Suramin(DB04786)	CACCCTCAACGCCATCAACAT	0.617													11	42					0	0	1	0	0		A	72946051	A	A	72946051	3	1	55	1	0	0	0	0	1	0	0	0	11371	1087	38	1	849	1	P2RY2	11	72946051	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	941472	72946051	62060465	930	39964											
P2RY6	5031	broad.mit.edu	37	chr11	73007984	73007984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcacaaacgtgggggcCgccgggctgcctggctagtg	5	6	17	13	3	0	0	0	0	0	0	0	0	0	0	4	5	2	3	4	5	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:73007984C>T	uc001otm.2	+	4	826	c.421C>T	c.(421-423)CGC>TGC	p.R141C	P2RY6_uc001otn.2_Missense_Mutation_p.R141C|P2RY6_uc001oto.2_Missense_Mutation_p.R141C|P2RY6_uc001otp.2_Missense_Mutation_p.R141C|P2RY6_uc001otq.2_Missense_Mutation_p.R141C|P2RY6_uc001otr.2_Missense_Mutation_p.R141C|P2RY6_uc001ots.2_Missense_Mutation_p.R141C	NM_176796	NP_789766	Q15077	P2RY6_HUMAN	pyrimidinergic receptor P2Y6	141	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1						ACGTGGGGGCCGCCGGGCTGC	0.662													10	29					0	0	1	0	0		T	73007984	T	T	73007984	3	4	55	1	0	0	0	0	1	0	0	0	11373	652	23	1	423	1	P2RY6	11	73007984	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	61933	73007984	61998532	931	39965											
DNAJB13	374407	broad.mit.edu	37	chr11	73662142	73662142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggattattactctgtgctcGggatcactcgcaattcagag	10	12	10	9	2	3	1	2	0	1	1	5	3	3	3	0	2	2	2	0	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:73662142G>A	uc001ouo.2	+	1	779	c.28G>A	c.(28-30)GGG>AGG	p.G10R		NM_153614	NP_705842	P59910	DJB13_HUMAN	testis spermatogenesis apoptosis-related protein	10	J.				apoptosis|protein folding|spermatogenesis		heat shock protein binding|unfolded protein binding				0	Breast(11;7.42e-05)					CTCTGTGCTCGGGATCACTCG	0.582													13	37					0	0	1	0	0		A	73662142	A	A	73662142	3	1	55	1	0	0	0	0	1	0	0	0	4624	1116	39	1	30	1	DNAJB13	11	73662142	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	654158	73662142	61344374	932	39966											
UVRAG	7405	broad.mit.edu	37	chr11	75562938	75562938	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatttttcagcggcgtcttcGacatcttcggaacattgctg	7	15	9	10	4	3	0	1	0	2	0	5	2	3	1	0	2	3	1	0	2	2	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:75562938G>A	uc001oxc.2	+	2	369	c.128G>A	c.(127-129)CGA>CAA	p.R43Q	UVRAG_uc010rrw.1_5'UTR	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	43					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						CGGCGTCTTCGACATCTTCGG	0.363													29	63					0	0	1	0	0		A	75562938	A	A	75562938	3	1	55	1	0	0	0	0	1	0	0	0	17134	1058	37	1	134	1	UVRAG	11	75562938	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1900796	75562938	59443578	933	39967											
GDPD4	220032	broad.mit.edu	37	chr11	76944092	76944092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagaagtgagggtgatcaAgctgactcaggagcccaatg	13	7	14	7	0	2	5	2	4	0	1	2	6	2	6	1	2	2	1	1	2	4	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:76944092A>G	uc001oyf.2	-	13	1618	c.1367T>C	c.(1366-1368)CTT>CCT	p.L456P		NM_182833	NP_878253	Q6W3E5	GDPD4_HUMAN	glycerophosphodiester phosphodiesterase domain	456	Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding			skin(1)	1						AGGGTGATCAAGCTGACTCAG	0.527													14	33					0	0	1	0	0		G	76944092	G	G	76944092	3	3	55	1	0	0	0	0	1	0	0	0	6341	72	3	3	211	3	GDPD4	11	76944092	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1381154	76944092	58062424	934	39968											
GAB2	9846	broad.mit.edu	37	chr11	77934561	77934561	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgttgatgggtagccaagTgagtcaaagtgatgggcccc	9	10	15	7	0	1	3	1	3	0	0	1	3	1	3	3	2	1	3	3	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:77934561T>C	uc001ozh.2	-	6	1464	c.1464A>G	c.(1462-1464)TCA>TCG	p.S488S	GAB2_uc001ozg.2_Silent_p.S450S	NM_080491	NP_536739	Q9UQC2	GAB2_HUMAN	GRB2-associated binding protein 2 isoform a	488					osteoclast differentiation|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mast cell degranulation	cytosol|plasma membrane	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|transmembrane receptor protein tyrosine kinase adaptor activity			ovary(5)|lung(1)	6	all_cancers(14;3.31e-18)|all_epithelial(13;5.3e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.58e-23)			GGTAGCCAAGTGAGTCAAAGT	0.557													22	92					0	0	1	0	0		C	77934561	C	C	77934561	2	2	55	1	0	0	0	0	0	0	0	1	6163	1683	59	3		3	GAB2	11	77934561	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	990469	77934561	57071955	935	39969											
PRCP	5547	broad.mit.edu	37	chr11	82561043	82561043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcctaaaatctgtagttaCgatcttcataaatacaccac	14	14	3	10	1	3	0	1	0	2	0	4	1	4	0	2	0	2	2	2	0	7	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:82561043C>T	uc001ozs.2	-	5	777	c.664G>A	c.(664-666)GTA>ATA	p.V222I	PRCP_uc001ozr.2_Missense_Mutation_p.V243I	NM_005040	NP_005031	P42785	PCP_HUMAN	prolylcarboxypeptidase isoform 1 preproprotein	222	SKS domain.				blood coagulation, intrinsic pathway|proteolysis	lysosome|plasma membrane	protein binding|serine-type carboxypeptidase activity			skin(1)	1						TCTGTAGTTACGATCTTCATA	0.403													11	23					0	0	1	0	0		T	82561043	T	T	82561043	3	4	55	1	0	0	0	0	1	0	0	0	12471	536	19	1	846	1	PRCP	11	82561043	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4626482	82561043	52445473	936	39970											
C11orf82	220042	broad.mit.edu	37	chr11	82644690	82644690	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagtcaagactttgttccAtgttcacagtcaactccaat	13	13	5	10	0	3	1	3	0	0	1	5	1	5	1	2	0	1	2	2	0	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:82644690A>G	uc001ozt.2	+	6	2554	c.2310A>G	c.(2308-2310)CCA>CCG	p.P770P	C11orf82_uc010rsr.1_Silent_p.P469P|C11orf82_uc010rss.1_Silent_p.P469P|C11orf82_uc009yvd.2_Intron	NM_145018	NP_659455	Q8IXT1	NOXIN_HUMAN	nitric oxide-inducible gene protein	770					apoptosis|cell cycle arrest	cytoplasm|nucleus				ovary(2)	2						ACTTTGTTCCATGTTCACAGT	0.353													14	21					0	0	1	0	0		G	82644690	G	G	82644690	2	3	55	1	0	0	0	0	0	0	0	1	1668	204	8	3		3	C11orf82	11	82644690	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	83647	82644690	52361826	937	39971											
DLG2	1740	broad.mit.edu	37	chr11	83770433	83770433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctacgcacatacagccgaaCgatagaccctgcttccttca	11	9	6	15	3	2	1	1	0	1	1	3	3	3	1	3	0	5	2	3	0	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:83770433C>T	uc001paj.2	-	6	832	c.529G>A	c.(529-531)GTT>ATT	p.V177I	DLG2_uc001pai.2_Missense_Mutation_p.V126I|DLG2_uc010rsy.1_Missense_Mutation_p.V144I|DLG2_uc010rsz.1_Missense_Mutation_p.V177I|DLG2_uc010rta.1_Missense_Mutation_p.V177I|DLG2_uc001pak.2_Missense_Mutation_p.V282I|DLG2_uc010rtb.1_Missense_Mutation_p.V144I|DLG2_uc001pal.1_Missense_Mutation_p.V177I|DLG2_uc001pam.1_Missense_Mutation_p.V216I	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	177	PDZ 1.			V -> A (in Ref. 1; AAB04949).		cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				TACAGCCGAACGATAGACCCT	0.453													12	43					0	0	1	0	0		T	83770433	T	T	83770433	3	4	55	1	0	0	0	0	1	0	0	0	4561	536	19	1	2205	1	DLG2	11	83770433	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1125743	83770433	51236083	938	39972											
CCDC89	220388	broad.mit.edu	37	chr11	85396668	85396668	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcgcctcctcatccttcAgagcctggctgaagaggctg	6	11	10	14	1	2	3	2	1	0	2	5	3	4	3	4	2	1	2	4	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:85396668A>G	uc001pau.1	-	1	653	c.506T>C	c.(505-507)CTG>CCG	p.L169P		NM_152723	NP_689936	Q8N998	CCD89_HUMAN	coiled-coil domain containing 89	169	Potential.					cytoplasm|nucleus					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				CTCATCCTTCAGAGCCTGGCT	0.537													14	44					0	0	1	0	0		G	85396668	G	G	85396668	3	3	55	1	0	0	0	0	1	0	0	0	2869	188	7	3	622	3	CCDC89	11	85396668	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1626235	85396668	49609848	939	39973											
GRM5	2915	broad.mit.edu	37	chr11	88583111	88583111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcccgctagacccaggcGcctcatggccatcagcagac	8	7	9	17	2	3	2	2	0	1	2	4	2	3	2	4	2	1	2	4	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:88583111G>A	uc001pcq.2	-	2	1074	c.874C>T	c.(874-876)CGC>TGC	p.R292C	GRM5_uc009yvm.2_Missense_Mutation_p.R292C	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	292	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	AGACCCAGGCGCCTCATGGCC	0.522													7	46					0	0	1	0	0		A	88583111	A	A	88583111	3	1	55	1	0	0	0	0	1	0	0	0	6816	1087	38	1	2796	1	GRM5	11	88583111	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3186443	88583111	46423405	940	39974											
FAT3	120114	broad.mit.edu	37	chr11	92533683	92533683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttttcacaaagcacatacGtagctgaggtgagagagaac	14	8	10	9	1	1	3	1	2	0	2	1	5	1	3	1	1	4	3	1	1	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:92533683G>A	uc001pdj.3	+	9	7521	c.7504G>A	c.(7504-7506)GTA>ATA	p.V2502I		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2502	Cadherin 23.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AAGCACATACGTAGCTGAGGT	0.498										TCGA Ovarian(4;0.039)			4	8					0	0	1	0	0		A	92533683	A	A	92533683	3	1	55	1	0	0	0	0	1	0	0	0	5705	1145	40	1	7538	1	FAT3	11	92533683	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3950572	92533683	42472833	941	39975											
MTNR1B	4544	broad.mit.edu	37	chr11	92703084	92703084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcctggtgatcctctccGtgctcaggaaccgcaagctc	7	9	9	16	2	2	1	1	1	1	0	6	2	4	2	5	2	3	3	5	2	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:92703084G>A	uc001pdk.1	+	1	296	c.193G>A	c.(193-195)GTG>ATG	p.V65M		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	65	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	GATCCTCTCCGTGCTCAGGAA	0.647													6	15					0	0	1	0	0		A	92703084	A	A	92703084	3	1	55	1	0	0	0	0	1	0	0	0	9970	1145	40	1	195	1	MTNR1B	11	92703084	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	169401	92703084	42303432	942	39976											
PANX1	24145	broad.mit.edu	37	chr11	93912987	93912987	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatcagggatcctgagaaaCgacagcaccgtgcccgatca	14	5	10	12	3	2	1	2	1	0	1	3	5	3	2	3	1	3	1	3	1	2	0	rs74832612	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:93912987C>T	uc001per.2	+	4	1150	c.765C>T	c.(763-765)AAC>AAT	p.N255N	PANX1_uc001peq.2_Silent_p.N255N	NM_015368	NP_056183	Q96RD7	PANX1_HUMAN	pannexin 1	255	Extracellular (Potential).			N->Q: Impairs glycosylation.	positive regulation of interleukin-1 beta secretion|protein hexamerization|synaptic transmission	bleb|endoplasmic reticulum membrane|gap junction|integral to membrane	calcium channel activity|gap junction hemi-channel activity|leak channel activity|receptor binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TCCTGAGAAACGACAGCACCG	0.488													37	113					0	0	1	0	0		T	93912987	T	T	93912987	2	4	55	1	0	0	0	0	0	0	0	1	11439	535	19	1		1	PANX1	11	93912987	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1209903	93912987	41093529	943	39977											
ANKRD49	54851	broad.mit.edu	37	chr11	94231635	94231635	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgatattgccaggaggacAagtatctatcactacctctt	11	14	7	9	0	3	1	1	1	2	0	3	3	3	3	2	2	2	1	2	2	5	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:94231635A>G	uc001pew.2	+	3	796	c.657A>G	c.(655-657)ACA>ACG	p.T219T	ANKRD49_uc001pex.2_3'UTR|ANKRD49_uc001pey.2_RNA	NM_017704	NP_060174	Q8WVL7	ANR49_HUMAN	fetal globin inducing factor	219					positive regulation of transcription, DNA-dependent					central_nervous_system(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CCAGGAGGACAAGTATCTATC	0.393													21	85					0	0	1	0	0		G	94231635	G	G	94231635	2	3	55	1	0	0	0	0	0	0	0	1	675	117	5	3		3	ANKRD49	11	94231635	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	318648	94231635	40774881	944	39978											
SFRS2B	10929	broad.mit.edu	37	chr11	94800992	94800992	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacagtaactctcgctacagCcgatatcacagcagccggtc	11	8	8	14	3	2	0	1	0	1	0	4	1	2	0	2	1	6	3	2	1	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:94800992C>T	uc001pff.2	+	2	938	c.603C>T	c.(601-603)AGC>AGT	p.S201S	SFRS2B_uc001pfg.1_5'Flank	NM_032102	NP_115285	Q9BRL6	SRSF8_HUMAN	splicing factor, arginine/serine-rich 2B	201	Arg-rich.				mRNA processing|RNA splicing	nucleus	nucleotide binding|RNA binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CTCGCTACAGCCGATATCACA	0.562													23	89					0	0	1	0	0		T	94800992	T	T	94800992	2	4	55	1	0	0	0	0	0	0	0	1	14201	739	26	2		2	SFRS2B	11	94800992	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	569357	94800992	40205524	945	39979											
MMP20	9313	broad.mit.edu	37	chr11	102487787	102487787	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgtaatatttgtcaagatAcgcctgaaatggagaggcag	13	11	12	5	1	1	3	1	1	0	2	1	4	1	3	1	2	1	2	1	2	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:102487787A>G	uc001phc.2	-	2	143	c.130T>C	c.(130-132)TAT>CAT	p.Y44H		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein	44					proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		TTGTCAAGATACGCCTGAAAT	0.448													4	23					0	0	1	0	0		G	102487787	G	G	102487787	3	3	55	1	0	0	0	0	1	0	0	0	9677	391	14	3	1357	3	MMP20	11	102487787	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	7686795	102487787	32518729	946	39980											
MMP10	4319	broad.mit.edu	37	chr11	102650323	102650323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactccacacctgggcttgcGcatcacctccagagtgtcag	9	8	9	15	1	2	1	2	0	0	1	4	1	4	1	4	1	2	2	4	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:102650323G>A	uc001phg.1	-	2	281	c.259C>T	c.(259-261)CGC>TGC	p.R87C		NM_002425	NP_002416	P09238	MMP10_HUMAN	matrix metalloproteinase 10 preproprotein	87					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			kidney(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_epithelial(12;0.00961)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0303)|Lung(13;0.0828)|all cancers(10;0.116)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0145)		CTGGGCTTGCGCATCACCTCC	0.488													8	22					0	0	1	0	0		A	102650323	A	A	102650323	3	1	55	1	0	0	0	0	1	0	0	0	9667	1087	38	1	1207	1	MMP10	11	102650323	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	162536	102650323	32356193	947	39981											
CWF19L2	143884	broad.mit.edu	37	chr11	107299920	107299920	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttagattctcttctacaCgtttctaaagacccaggtct	9	14	8	10	1	4	2	0	0	4	2	5	2	4	2	1	2	1	2	1	2	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:107299920C>T	uc010rvp.1	-	8	1068	c.1038G>A	c.(1036-1038)ACG>ACA	p.T346T	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	346							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		CTCTTCTACACGTTTCTAAAG	0.348													7	24					0	0	1	0	0		T	107299920	T	T	107299920	2	4	55	1	0	0	0	0	0	0	0	1	4075	523	19	1		1	CWF19L2	11	107299920	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4649597	107299920	27706596	948	39982											
ATM	472	broad.mit.edu	37	chr11	108115583	108115583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcttcctcaagactttggCtgtcaactttcgaattcgag	9	15	7	10	2	3	1	2	0	1	1	6	3	4	1	1	1	1	1	1	1	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:108115583C>T	uc001pkb.1	+	7	1116	c.731C>T	c.(730-732)GCT>GTT	p.A244V	ATM_uc009yxr.1_Missense_Mutation_p.A244V	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	244					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		AAGACTTTGGCTGTCAACTTT	0.363			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			6	36					0	0	1	0	0		T	108115583	T	T	108115583	3	4	55	1	0	0	0	0	1	0	0	0	1110	797	28	2	753	2	ATM	11	108115583	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	815663	108115583	26890933	949	39983											
USP28	57646	broad.mit.edu	37	chr11	113704197	113704197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagatccagggctgcagacGggtctacaaattttctattt	11	13	9	8	1	2	2	0	0	2	2	3	2	3	2	1	2	2	2	1	2	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:113704197G>A	uc001poh.2	-	7	737	c.704C>T	c.(703-705)CCG>CTG	p.P235L	USP28_uc010rwy.1_Missense_Mutation_p.P110L|USP28_uc001poi.2_5'UTR|USP28_uc001poj.3_Missense_Mutation_p.P235L|USP28_uc010rwz.1_Missense_Mutation_p.P235L	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	235					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		GGCTGCAGACGGGTCTACAAA	0.398													18	58					0	0	1	0	0		A	113704197	A	A	113704197	3	1	55	1	0	0	0	0	1	0	0	0	17084	1116	39	1	2605	1	USP28	11	113704197	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5588614	113704197	21302319	950	39984											
APOA5	116519	broad.mit.edu	37	chr11	116661360	116661360	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgccgctcaccaggctctcGgcgtatgggtggaagagctc	7	8	14	12	3	2	1	1	0	1	1	4	2	2	2	2	4	2	4	2	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:116661360G>A	uc001ppr.2	-	3	593	c.585C>T	c.(583-585)GCC>GCT	p.A195A	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Silent_p.A195A|APOA5_uc009yzf.2_Silent_p.A195A|APOA5_uc009yzg.2_Silent_p.A221A	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	195					acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		CCAGGCTCTCGGCGTATGGGT	0.711													3	19					0	0	1	0	0		A	116661360	A	A	116661360	2	1	55	1	0	0	0	0	0	0	0	1	784	1103	39	1		1	APOA5	11	116661360	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2957163	116661360	18345156	951	39985											
APOA4	337	broad.mit.edu	37	chr11	116692251	116692251	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcctcagcgaggcctgcaGgctgtcggcgttctcccgca	4	7	15	15	4	2	0	1	0	1	0	4	1	2	0	3	4	2	4	3	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:116692251G>T	uc001pps.1	-	3	627	c.523C>A	c.(523-525)CTG>ATG	p.L175M		NM_000482	NP_000473			apolipoprotein A-IV precursor												0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		GAGGCCTGCAGGCTGTCGGCG	0.672													29	75					1.57351e-24	1.75369e-24	1	1	0		T	116692251	T	T	116692251	3	4	55	1	0	0	0	0	1	0	0	0	783	991	35	5	671	5	APOA4	11	116692251	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	30891	116692251	18314265	952	39986											
SIK3	23387	broad.mit.edu	37	chr11	116730138	116730138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggagcctgcagctgtgcctgGcatgttgctgagcatgtcaa	7	10	14	10	0	1	1	1	1	0	0	1	2	1	2	2	2	6	6	2	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:116730138G>A	uc001ppy.2	-	19	2326	c.2290C>T	c.(2290-2292)CCA>TCA	p.P764S	SIK3_uc001ppz.2_Missense_Mutation_p.P663S|SIK3_uc001pqa.2_Missense_Mutation_p.P764S|SIK3_uc001ppw.2_Missense_Mutation_p.P181S|SIK3_uc001ppx.2_Missense_Mutation_p.P202S|SIK3_uc001pqb.2_Missense_Mutation_p.P67S	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	764	Gln-rich.					cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						GCTGTGCCTGGCATGTTGCTG	0.597											OREG0003491	type=REGULATORY REGION|Gene=AK022302|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	8	52					0	0	1	0	0		A	116730138	A	A	116730138	3	1	55	1	0	0	0	0	1	0	0	0	14344	1203	42	2	1521	2	SIK3	11	116730138	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	37887	116730138	18276378	953	39987											
CEP164	22897	broad.mit.edu	37	chr11	117253626	117253626	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcctgaggagaaggtggcGgtcagccccaccccgccagt	8	5	14	14	2	1	2	1	1	0	1	2	4	2	2	6	4	1	0	6	4	1	0	rs143512199	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:117253626G>A	uc001prc.2	+	14	1839	c.1692G>A	c.(1690-1692)GCG>GCA	p.A564A	CEP164_uc001prb.2_Silent_p.A567A|CEP164_uc010rxk.1_Silent_p.A538A|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_5'Flank	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	564	Glu-rich.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		AGAAGGTGGCGGTCAGCCCCA	0.632													6	22					0	0	1	0	0		A	117253626	A	A	117253626	2	1	55	1	0	0	0	0	0	0	0	1	3252	1103	39	1		1	CEP164	11	117253626	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	523488	117253626	17752890	954	39988											
CEP164	22897	broad.mit.edu	37	chr11	117265117	117265117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgaccggagagctggagCgcctgcagagggcccatgaa	10	4	15	12	2	0	4	0	2	0	2	0	6	0	5	4	3	3	2	4	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:117265117C>T	uc001prc.2	+	21	2815	c.2668C>T	c.(2668-2670)CGC>TGC	p.R890C	CEP164_uc001prb.2_Missense_Mutation_p.R893C|CEP164_uc010rxk.1_Missense_Mutation_p.R864C|CEP164_uc001prf.2_Intron|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Missense_Mutation_p.R323C	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	890	Glu-rich.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		AGAGCTGGAGCGCCTGCAGAG	0.662													4	4					0	0	1	0	0		T	117265117	T	T	117265117	3	4	55	1	0	0	0	0	1	0	0	0	3252	768	27	1	2742	1	CEP164	11	117265117	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	11491	117265117	17741399	955	39989											
CEP164	22897	broad.mit.edu	37	chr11	117267320	117267320	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagcaaggaggacttatacTtggacaggtgagttcccata	13	9	12	7	0	0	2	0	1	0	1	1	5	1	5	1	4	2	2	1	4	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:117267320T>G	uc001prc.2	+	26	3418	c.3271T>G	c.(3271-3273)TTG>GTG	p.L1091V	CEP164_uc001prb.2_Missense_Mutation_p.L1094V|CEP164_uc001prf.2_Intron|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Missense_Mutation_p.L524V	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	1091					cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		GGACTTATACTTGGACAGGTG	0.483													18	47					0	0	1	0	0		G	117267320	G	G	117267320	3	3	55	1	0	0	0	0	1	0	0	0	3252	1606	56	5	3365	5	CEP164	11	117267320	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2203	117267320	17739196	956	39990											
DSCAML1	57453	broad.mit.edu	37	chr11	117376306	117376306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttgctctcgatggtcacgCccgagcctgagatgatcacc	7	9	10	15	3	3	2	2	2	1	1	4	5	3	2	4	1	2	1	4	1	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:117376306C>T	uc001prh.1	-	9	2107	c.2105G>A	c.(2104-2106)GGC>GAC	p.G702D		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	642	Extracellular (Potential).|Ig-like C2-type 7.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GATGGTCACGCCCGAGCCTGA	0.577													15	34					0	0	1	0	0		T	117376306	T	T	117376306	3	4	55	1	0	0	0	0	1	0	0	0	4775	739	26	2	4336	2	DSCAML1	11	117376306	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	108986	117376306	17630210	957	39991											
MFRP	83552	broad.mit.edu	37	chr11	119213688	119213688	+	Frame_Shift_Del	DEL	G	-	-																															atggtgcgaggagacgaggtGggggggtggctctgctccac																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:119213688delG	uc001pwj.2	-	10	1310	c.1150delC	c.(1150-1152)CACfs	p.H384fs	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Frame_Shift_Del_p.P308fs	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		GAGACGAGGTGGGGGGGTGGC	0.622													6	9	---	---	---	---						.	-	119213688	-	-	119213688	7	5	55	1	0	1	0	1	0	0	0	0	9544	1348	47	0	605	0	MFRP	11	119213688	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	1837382	119213688	15792828	958	39992											
USP2	9099	broad.mit.edu	37	chr11	119243494	119243494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtctcccacagcgtgtagcGgccaatgggtcggtaggttg	6	9	15	11	4	1	0	0	0	1	0	3	0	1	0	2	4	2	3	2	4	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:119243494G>A	uc001pwm.3	-	2	992	c.697C>T	c.(697-699)CGC>TGC	p.R233C	USP2_uc001pwn.3_Intron	NM_004205	NP_004196	O75604	UBP2_HUMAN	ubiquitin specific peptidase 2 isoform a	233					cell cycle|muscle organ development|negative regulation of transcription from RNA polymerase II promoter|positive regulation of mitotic cell cycle|protein deubiquitination|protein stabilization|ubiquitin-dependent protein catabolic process	nucleus|perinuclear region of cytoplasm	cyclin binding|cysteine-type endopeptidase activity|metal ion binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity			ovary(2)|urinary_tract(1)|skin(1)	4		all_hematologic(192;4.65e-05)|Breast(348;0.0101)|all_neural(223;0.0218)|Medulloblastoma(222;0.0425)|Renal(330;0.157)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.000513)|Colorectal(284;0.0116)|Lung(307;0.0853)|LUSC - Lung squamous cell carcinoma(976;0.0889)		AGCGTGTAGCGGCCAATGGGT	0.647													20	33					0	0	1	0	0		A	119243494	A	A	119243494	3	1	55	1	0	0	0	0	1	0	0	0	17077	1116	39	1	1319	1	USP2	11	119243494	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	29806	119243494	15763022	959	39993											
GRIK4	2900	broad.mit.edu	37	chr11	120702624	120702624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaggacacgctgtccgtccGcatgctggatgacacccggg	8	6	13	14	4	0	1	0	1	0	0	2	3	2	3	3	3	1	3	3	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:120702624G>A	uc001pxn.2	+	7	862	c.575G>A	c.(574-576)CGC>CAC	p.R192H	GRIK4_uc009zav.1_Missense_Mutation_p.R192H|GRIK4_uc009zaw.1_Missense_Mutation_p.R192H|GRIK4_uc009zax.1_Missense_Mutation_p.R192H	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	192	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	CTGTCCGTCCGCATGCTGGAT	0.607													29	69					0	0	1	0	0		A	120702624	A	A	120702624	3	1	55	1	0	0	0	0	1	0	0	0	6792	1087	38	1	593	1	GRIK4	11	120702624	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1459130	120702624	14303892	960	39994											
UBASH3B	84959	broad.mit.edu	37	chr11	122659932	122659932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagggttggatctatggcaCgtccttaaccaccggctgct	7	10	12	12	3	1	0	0	0	1	0	2	2	2	1	3	4	2	4	3	4	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:122659932C>T	uc001pyi.3	+	6	1256	c.896C>T	c.(895-897)ACG>ATG	p.T299M		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	299	SH3.					cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		ATCTATGGCACGTCCTTAACC	0.527													48	132					0	0	1	0	0		T	122659932	T	T	122659932	3	4	55	1	0	0	0	0	1	0	0	0	16866	536	19	1	918	1	UBASH3B	11	122659932	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1957308	122659932	12346584	961	39995											
ROBO3	64221	broad.mit.edu	37	chr11	124738967	124738967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaaggtgtctacacttgcGtggctcgcaactacctgggg	8	9	13	11	3	1	0	0	0	1	0	2	1	1	0	1	4	4	2	1	4	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:124738967G>A	uc001qbc.2	+	2	622	c.430G>A	c.(430-432)GTG>ATG	p.V144M		NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	144	Ig-like C2-type 1.|Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		CTACACTTGCGTGGCTCGCAA	0.682													6	5					0	0	1	0	0		A	124738967	A	A	124738967	3	1	55	1	0	0	0	0	1	0	0	0	13540	1145	40	1	436	1	ROBO3	11	124738967	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2079035	124738967	10267549	962	39996											
ROBO4	54538	broad.mit.edu	37	chr11	124757063	124757063	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaaggatggggatgggggCtgctggcagcaggatggagg	8	6	22	5	0	0	0	0	0	0	0	0	4	0	4	0	9	2	5	0	9	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:124757063C>A	uc001qbg.2	-	15	2385	c.2245G>T	c.(2245-2247)GCC>TCC	p.A749S	ROBO4_uc010sas.1_Missense_Mutation_p.A604S|ROBO4_uc001qbh.2_Missense_Mutation_p.A639S|ROBO4_uc001qbi.2_Missense_Mutation_p.A307S	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	749	Pro/Ser-rich.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		GGGATGGGGGCTGCTGGCAGC	0.637													5	64					0.184627	0.185368	1	1	0		A	124757063	A	A	124757063	3	1	55	1	0	0	0	0	1	0	0	0	13541	797	28	5	794	5	ROBO4	11	124757063	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	18096	124757063	10249453	963	39997											
CCDC15	80071	broad.mit.edu	37	chr11	124845023	124845023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgaaacaggcacgtcaccGgctagcatcctttaaaaccg	13	8	8	12	3	1	1	1	1	0	0	2	1	2	1	3	2	3	3	3	2	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:124845023G>A	uc001qbm.3	+	5	807	c.548G>A	c.(547-549)CGG>CAG	p.R183Q		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	183	Potential.					centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		GCACGTCACCGGCTAGCATCC	0.383													6	10					0	0	1	0	0		A	124845023	A	A	124845023	3	1	55	1	0	0	0	0	1	0	0	0	2787	1116	39	1	562	1	CCDC15	11	124845023	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	87960	124845023	10161493	964	39998											
PKNOX2	63876	broad.mit.edu	37	chr11	125281699	125281699	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataagaagtccaagaacaaaCgaggagtcttgcccaagcat	17	6	9	9	1	1	2	0	0	1	2	2	4	2	3	2	1	4	1	2	1	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:125281699C>T	uc001qbu.2	+	10	1188	c.874C>T	c.(874-876)CGA>TGA	p.R292*	PKNOX2_uc010saz.1_Nonsense_Mutation_p.R263*|PKNOX2_uc010sba.1_Nonsense_Mutation_p.R263*|PKNOX2_uc010sbb.1_Nonsense_Mutation_p.R228*|PKNOX2_uc001qbv.2_Nonsense_Mutation_p.R57*	NM_022062	NP_071345	Q96KN3	PKNX2_HUMAN	PBX/knotted 1 homeobox 2	292	Homeobox.					nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(109;0.00234)|all_lung(97;0.0191)|Lung NSC(97;0.0196)|Medulloblastoma(222;0.0447)|all_neural(223;0.116)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.117)		CAAGAACAAACGAGGAGTCTT	0.517													20	40					0	0	1	0	0		T	125281699	T	T	125281699	4	4	55	1	0	0	0	0	0	1	0	0	12002	528	19	1	900	1	PKNOX2	11	125281699	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	436676	125281699	9724817	965	39999											
SRPR	6734	broad.mit.edu	37	chr11	126135202	126135202	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccccactccattaacgccGcagaaggtgacgacataagg	12	7	9	13	3	0	2	0	1	0	1	2	3	2	2	4	2	1	1	4	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:126135202G>A	uc001qdh.2	-	10	1323	c.1272C>T	c.(1270-1272)TGC>TGT	p.C424C	SRPR_uc010sbm.1_Silent_p.C396C	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	424					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		CATTAACGCCGCAGAAGGTGA	0.532													17	29					0	0	1	0	0		A	126135202	A	A	126135202	2	1	55	1	0	0	0	0	0	0	0	1	15187	1079	38	1		1	SRPR	11	126135202	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	853503	126135202	8871314	966	40000											
PRDM10	56980	broad.mit.edu	37	chr11	129802014	129802014	+	Missense_Mutation	SNP	T	A	A																															tacctgtgtcccatcgtcacTcttttccccattttcgctgg																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:129802014T>A	uc001qfm.2	-	10	1502	c.1270A>T	c.(1270-1272)AGT>TGT	p.S424C	PRDM10_uc001qfj.2_Missense_Mutation_p.S338C|PRDM10_uc001qfk.2_Missense_Mutation_p.S338C|PRDM10_uc001qfl.2_Missense_Mutation_p.S338C|PRDM10_uc010sbx.1_Missense_Mutation_p.S338C|PRDM10_uc001qfn.2_Missense_Mutation_p.S424C|PRDM10_uc009zct.1_Missense_Mutation_p.S456C	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	424					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		CCATCGTCACTCTTTTCCCCA	0.582													6	65					0	0	1	0	0		A	129802014	A	A	129802014	3	1	55	1	0	0	0	0	1	0	0	0	12473	1551	54	5	2264	5	PRDM10	11	129802014	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	3666812	129802014	5204502	967	40001	78	2									
PRDM10	56980	broad.mit.edu	37	chr11	129802017	129802017	+	Missense_Mutation	SNP	T	C	C																															ctgtgtcccatcgtcactctTttccccattttcgctggtga																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:129802017T>C	uc001qfm.2	-	10	1499	c.1267A>G	c.(1267-1269)AAG>GAG	p.K423E	PRDM10_uc001qfj.2_Missense_Mutation_p.K337E|PRDM10_uc001qfk.2_Missense_Mutation_p.K337E|PRDM10_uc001qfl.2_Missense_Mutation_p.K337E|PRDM10_uc010sbx.1_Missense_Mutation_p.K337E|PRDM10_uc001qfn.2_Missense_Mutation_p.K423E|PRDM10_uc009zct.1_Missense_Mutation_p.K455E	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	423					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		TCGTCACTCTTTTCCCCATTT	0.582													4	64					0	0	1	0	0		C	129802017	C	C	129802017	3	2	55	1	0	0	0	0	1	0	0	0	12473	1850	64	3	2267	3	PRDM10	11	129802017	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	3	129802017	5204499	968	40002	78	2									
IGSF9B	22997	broad.mit.edu	37	chr11	133814114	133814114	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accctggaagccgtcactcaCcgttgatggtgaggtggacc	8	8	13	12	2	2	2	2	2	0	0	2	4	2	4	4	4	1	1	4	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:133814114C>T	uc001qgx.3	-	3	640	c.409_splice	c.e3+1	p.A137_splice		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B							integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		CCGTCACTCACCGTTGATGGT	0.617													6	13					0	0	1	0	0		T	133814114	T	T	133814114	5	4	55	1	0	0	0	0	0	0	1	0	7622	521	18	4	3707	4	IGSF9B	11	133814114	Splice_Site	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4012097	133814114	1192402	969	40003											
NCAPD3	23310	broad.mit.edu	37	chr11	134063940	134063940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcagtaagagactggagggCctgcttccggacagacactg	10	8	13	10	1	1	2	1	0	0	2	2	5	2	4	2	3	1	2	2	3	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr11:134063940C>T	uc001qhd.1	-	15	2401	c.1795G>A	c.(1795-1797)GCC>ACC	p.A599T	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	599	HEAT 3.				cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		GACTGGAGGGCCTGCTTCCGG	0.443													7	25					0	0	1	0	0		T	134063940	T	T	134063940	3	4	55	1	0	0	0	0	1	0	0	0	10225	739	26	2	2785	2	NCAPD3	11	134063940	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	249826	134063940	942576	970	40004											
IQSEC3	440073	broad.mit.edu	37	chr12	247675	247675	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtggggctgccgctggtGcgctcgccctccctgccgcc	0	8	14	19	5	0	0	0	0	0	0	3	0	1	0	5	3	3	3	5	3	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:247675G>T	uc001qhw.1	+	1	243	c.237G>T	c.(235-237)GTG>GTT	p.V79V	IQSEC3_uc001qhu.1_Silent_p.V79V|IQSEC3_uc001qht.1_Silent_p.V164V|uc001qhv.1_Intron	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	382					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		TGCCGCTGGTGCGCTCGCCCT	0.701													6	5					0.00307968	0.00314429	1	1	0		T	247675	T	T	247675	2	4	55	1	0	0	0	0	0	0	0	1	7835	1306	46	5		5	IQSEC3	12	247675	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08		247675	133604220	971	40005											
IQSEC3	440073	broad.mit.edu	37	chr12	248329	248329	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggagcagctgagcagcagCagcacgtccaccaagtccgc	10	5	12	14	2	0	1	0	1	0	0	2	2	2	2	3	1	6	6	3	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:248329C>T	uc001qhw.1	+	1	897	c.891C>T	c.(889-891)AGC>AGT	p.S297S	IQSEC3_uc001qhu.1_Silent_p.S297S|IQSEC3_uc001qht.1_Silent_p.S382S|uc001qhv.1_Intron	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	600	Poly-Ser.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		TGAGCAGCAGCAGCACGTCCA	0.567													3	4					0	0	1	0	0		T	248329	T	T	248329	2	4	55	1	0	0	0	0	0	0	0	1	7835	709	25	2		2	IQSEC3	12	248329	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	654	248329	133603566	972	40006											
KDM5A	5927	broad.mit.edu	37	chr12	432818	432818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagatcagttggatggtagaGacatacaagccgctcaggat	13	8	12	8	1	2	2	2	0	0	2	2	5	2	4	1	3	2	3	1	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:432818G>A	uc001qif.1	-	15	2461	c.2098C>T	c.(2098-2100)CTC>TTC	p.L700F	KDM5A_uc001qie.1_Missense_Mutation_p.L700F|KDM5A_uc010sdn.1_Missense_Mutation_p.L659F|KDM5A_uc010sdo.1_Missense_Mutation_p.L319F	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	700					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						GGATGGTAGAGACATACAAGC	0.428			T 	NUP98	AML								20	60					0	0	1	0	0		A	432818	A	A	432818	3	1	55	1	0	0	0	0	1	0	0	0	8149	942	33	4	3030	4	KDM5A	12	432818	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	184489	432818	133419077	973	40007											
CACNA1C	775	broad.mit.edu	37	chr12	2800302	2800302	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggacgcgggctgtgtgcgCgcgcggggtcgaccgagtga	5	5	21	10	8	0	1	0	1	0	0	1	5	0	2	1	4	1	1	1	4	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:2800302C>T	uc009zdu.1	+	50	6916	c.6603C>T	c.(6601-6603)CGC>CGT	p.R2201R	CACNA1C_uc009zdv.1_Silent_p.R2115R|CACNA1C_uc001qkb.2_Silent_p.R2118R|CACNA1C_uc001qkc.2_Silent_p.R2137R|CACNA1C_uc001qke.2_Silent_p.R2107R|CACNA1C_uc001qkf.2_Silent_p.R2126R|CACNA1C_uc001qjz.2_Silent_p.R2118R|CACNA1C_uc001qkd.2_Silent_p.R2137R|CACNA1C_uc001qkg.2_Silent_p.R2124R|CACNA1C_uc009zdw.1_Silent_p.R2159R|CACNA1C_uc001qkh.2_Silent_p.R2126R|CACNA1C_uc001qkl.2_Silent_p.R2166R|CACNA1C_uc001qkn.2_Silent_p.R2118R|CACNA1C_uc001qko.2_Silent_p.R2138R|CACNA1C_uc001qkp.2_Silent_p.R2118R|CACNA1C_uc001qkr.2_Silent_p.R2135R|CACNA1C_uc001qku.2_Silent_p.R2153R|CACNA1C_uc001qkq.2_Silent_p.R2146R|CACNA1C_uc001qks.2_Silent_p.R2118R|CACNA1C_uc001qkt.2_Silent_p.R2137R|CACNA1C_uc001qki.1_Silent_p.R1925R|CACNA1C_uc001qkj.1_Silent_p.R1889R|CACNA1C_uc001qkk.1_Silent_p.R1854R|CACNA1C_uc001qkm.1_Silent_p.R1914R|CACNA1C_uc010sea.1_Silent_p.R809R|uc001qkx.1_5'Flank|CACNA1C_uc001qky.1_Silent_p.R436R	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	2201	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GCTGTGTGCGCGCGCGGGGTC	0.652													9	22					0	0	1	0	0		T	2800302	T	T	2800302	2	4	55	1	0	0	0	0	0	0	0	1	2543	755	27	1		1	CACNA1C	12	2800302	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2367484	2800302	131051593	974	40008											
NRIP2	83714	broad.mit.edu	37	chr12	2939904	2939904	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagaagagctggaatctcTgtcctgctggtcttcctcct	7	12	9	13	0	2	2	0	0	2	2	6	3	5	3	4	2	2	2	4	2	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:2939904T>C	uc001qlc.2	-	2	537	c.465A>G	c.(463-465)ACA>ACG	p.T155T	NRIP2_uc010sed.1_Silent_p.T155T	NM_031474	NP_113662	Q9BQI9	NRIP2_HUMAN	nuclear receptor interacting protein 2	155					proteolysis|transcription, DNA-dependent	cytoplasm|nucleus	aspartic-type endopeptidase activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			CTGGAATCTCTGTCCTGCTGG	0.577													15	31					0	0	1	0	0		C	2939904	C	C	2939904	2	2	55	1	0	0	0	0	0	0	0	1	10672	1567	55	3		3	NRIP2	12	2939904	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	139602	2939904	130911991	975	40009											
KCNA6	3742	broad.mit.edu	37	chr12	4919519	4919519	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tactactaccagtctgggggCcgcctgcggaggccggtcaa	7	7	14	13	3	2	0	1	0	1	0	2	1	2	1	4	5	4	0	4	5	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:4919519C>T	uc001qng.2	+	1	1178	c.312C>T	c.(310-312)GGC>GGT	p.G104G		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	104						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						AGTCTGGGGGCCGCCTGCGGA	0.662										HNSCC(72;0.22)			30	57					0	0	1	0	0		T	4919519	T	T	4919519	2	4	55	1	0	0	0	0	0	0	0	1	8023	726	26	2		2	KCNA6	12	4919519	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1979615	4919519	128932376	976	40010											
NTF3	4908	broad.mit.edu	37	chr12	5603709	5603709	+	Frame_Shift_Del	DEL	C	-	-																															ggtcctgctgagcgacagcaCccccttggagcccccgccct																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:5603709delC	uc001qnl.3	+	1	412	c.329delC	c.(328-330)ACCfs	p.T110fs	NTF3_uc001qnk.3_Frame_Shift_Del_p.T123fs	NM_002527	NP_002518	P20783	NTF3_HUMAN	neurotrophin 3 isoform 2 preproprotein	110					signal transduction	extracellular region	growth factor activity|neurotrophin receptor binding			pancreas(1)	1						AGCGACAGCACCCCCTTGGAG	0.612													31	59	---	---	---	---						.	-	5603709	-	-	5603709	7	5	55	1	0	1	0	1	0	0	0	0	10715	507	18	0	374	0	NTF3	12	5603709	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	684190	5603709	128248186	977	40011											
VWF	7450	broad.mit.edu	37	chr12	6128559	6128559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttcacctggctggcaatgCgccgcagctctgacggtcgc	6	8	12	15	4	2	1	1	1	1	0	3	1	2	1	2	3	2	4	2	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:6128559C>T	uc001qnn.1	-	28	4275	c.4025G>A	c.(4024-4026)CGC>CAC	p.R1342H	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1342	VWFA 1; binding site for platelet glycoprotein Ib.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	GCTGGCAATGCGCCGCAGCTC	0.617													20	27					0	0	1	0	0		T	6128559	T	T	6128559	3	4	55	1	0	0	0	0	1	0	0	0	17272	768	27	1	4516	1	VWF	12	6128559	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	524850	6128559	127723336	978	40012											
CDCA3	83461	broad.mit.edu	37	chr12	6958314	6958314	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagttccaagaatggctcCttcctttagttcactaacat	10	14	5	12	0	1	1	1	0	0	1	5	1	5	1	4	1	1	3	4	1	4	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:6958314C>A	uc001qrg.2	-	6	828	c.700G>T	c.(700-702)GGA>TGA	p.G234*	CDCA3_uc001qre.2_Intron|uc001qrf.1_5'Flank|USP5_uc001qri.3_5'Flank|USP5_uc001qrh.3_5'Flank	NM_031299	NP_112589	Q99618	CDCA3_HUMAN	cell division cycle associated 3	234					cell division|mitosis	cytosol					0						AGAATGGCTCCTTCCTTTAGT	0.502													4	21					0.014758	0.014937	1	1	0		A	6958314	A	A	6958314	4	1	55	1	0	0	0	0	0	1	0	0	3090	690	24	5	110	5	CDCA3	12	6958314	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	829755	6958314	126893581	979	40013											
CLSTN3	9746	broad.mit.edu	37	chr12	7287981	7287981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgccccagtgtttgtggaaCggctgtatcgtgcggctgtg	4	13	15	9	3	0	0	0	0	0	0	1	1	0	1	2	3	3	4	2	3	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:7287981C>T	uc001qsr.2	+	4	720	c.442C>T	c.(442-444)CGG>TGG	p.R148W	CLSTN3_uc001qss.2_Missense_Mutation_p.R160W	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	148	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						GTTTGTGGAACGGCTGTATCG	0.582													18	67					0	0	1	0	0		T	7287981	T	T	7287981	3	4	55	1	0	0	0	0	1	0	0	0	3566	527	19	1	456	1	CLSTN3	12	7287981	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	329667	7287981	126563914	980	40014											
A2M	2	broad.mit.edu	37	chr12	9251308	9251308	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgactcgcaggtgggcGtgtgaggctgggagactttg	5	10	19	7	2	0	3	0	2	0	1	1	4	0	3	0	4	0	3	0	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:9251308G>A	uc001qvk.1	-	15	1859	c.1746C>T	c.(1744-1746)CAC>CAT	p.H582H	A2M_uc009zgk.1_Silent_p.H432H	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	582					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GCAGGTGGGCGTGTGAGGCTG	0.547													5	18					0	0	1	0	0		A	9251308	A	A	9251308	2	1	55	1	0	0	0	0	0	0	0	1	4	1136	40	1		1	A2M	12	9251308	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1963327	9251308	124600587	981	40015											
TAS2R31	259290	broad.mit.edu	37	chr12	11183704	11183704	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtagttcttacttctacActataaaaagctggattaaa	15	13	6	7	0	2	0	0	0	2	0	2	1	2	1	0	1	3	4	0	1	9	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:11183704A>G	uc001qzo.1	-	1	303	c.231T>C	c.(229-231)AGT>AGC	p.S77S	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176885	NP_795366	P59538	T2R31_HUMAN	taste receptor, type 2, member 31	77	Extracellular (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity				0						TTACTTCTACACTATAAAAAG	0.408													8	79					0	0	1	0	0		G	11183704	G	G	11183704	2	3	55	1	0	0	0	0	0	0	0	1	15599	156	6	3		3	TAS2R31	12	11183704	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1932396	11183704	122668191	982	40016											
PRB4	5545	broad.mit.edu	37	chr12	11461556	11461556	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgtgggggtggtctttCtggctttcctggaggaggtg	2	15	17	7	0	2	0	0	0	2	0	4	2	4	2	2	7	0	1	2	7	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:11461556C>A	uc001qzf.1	-	3	395	c.361G>T	c.(361-363)GAA>TAA	p.E121*	PRB4_uc001qzt.2_Nonsense_Mutation_p.E121*	NM_002723	NP_002714	P10163	PRB4_HUMAN	proline-rich protein BstNI subfamily 4	184	9.5 X 21 AA tandem repeats of K-P-[EQ]- [GR]-[PR]-[PR]-P-Q-G-G-N-Q-[PS]-[QH]- [RG]-[PT]-P-P-[PH]-P-G.|8.		Missing (in allele S).			extracellular region				ovary(1)	1						GGTGGTCTTTCTGGCTTTCCT	0.607										HNSCC(22;0.051)			37	188					2.64894e-19	2.93917e-19	1	1	0		A	11461556	A	A	11461556	4	1	55	1	0	0	0	0	0	1	0	0	12467	922	32	5	386	5	PRB4	12	11461556	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	277852	11461556	122390339	983	40017											
PRB4	5545	broad.mit.edu	37	chr12	11461619	11461619	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgtgggggtggtctttCtggctttcctggatgaggtg	2	16	16	7	0	2	1	0	1	2	0	4	2	4	2	2	6	0	1	2	6	0	3	rs1063752		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:11461619C>A	uc001qzf.1	-	3	332	c.298G>T	c.(298-300)GAA>TAA	p.E100*	PRB4_uc001qzt.2_Nonsense_Mutation_p.E100*	NM_002723	NP_002714	P10163	PRB4_HUMAN	proline-rich protein BstNI subfamily 4	121	9.5 X 21 AA tandem repeats of K-P-[EQ]- [GR]-[PR]-[PR]-P-Q-G-G-N-Q-[PS]-[QH]- [RG]-[PT]-P-P-[PH]-P-G.|5.		Missing (in allele M and allele S).			extracellular region				ovary(1)	1						GGTGGTCTTTCTGGCTTTCCT	0.617										HNSCC(22;0.051)			41	337					1.06522e-23	1.18644e-23	1	1	0		A	11461619	A	A	11461619	4	1	55	1	0	0	0	0	0	1	0	0	12467	922	32	5	449	5	PRB4	12	11461619	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	63	11461619	122390276	984	40018											
LRP6	4040	broad.mit.edu	37	chr12	12339973	12339973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagccaaaatggagtgtgtgCtccagtcagtccagtacaat	13	9	10	9	0	1	0	1	0	0	0	3	1	3	1	3	1	3	2	3	1	5	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:12339973C>T	uc001rah.3	-	4	870	c.728G>A	c.(727-729)AGC>AAC	p.S243N	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.S243N	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	243	Extracellular (Potential).|Beta-propeller 1.|LDL-receptor class B 5.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				GGAGTGTGTGCTCCAGTCAGT	0.438													25	78					0	0	1	0	0		T	12339973	T	T	12339973	3	4	55	1	0	0	0	0	1	0	0	0	8980	797	28	2	4193	2	LRP6	12	12339973	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	878354	12339973	121511922	985	40019											
GRIN2B	2904	broad.mit.edu	37	chr12	13716215	13716215	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttcaggcttacgctgcgCggggccagggcggcttcttc	3	11	14	13	4	3	0	1	0	2	0	4	0	3	0	1	5	2	3	1	5	1	4	rs141730031		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:13716215C>T	uc001rbt.2	-	13	4136	c.3957G>A	c.(3955-3957)CCG>CCA	p.P1319P		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1319	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TTACGCTGCGCGGGGCCAGGG	0.582													5	58					0	0	1	0	0		T	13716215	T	T	13716215	2	4	55	1	0	0	0	0	0	0	0	1	6796	755	27	1		1	GRIN2B	12	13716215	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1376242	13716215	120135680	986	40020											
GRIN2B	2904	broad.mit.edu	37	chr12	13716527	13716527	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcttggagggacagctgcgGcagaagttgcccccggaccg	8	5	16	12	3	0	1	0	0	0	1	0	4	0	4	3	4	4	4	3	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:13716527G>A	uc001rbt.2	-	13	3824	c.3645C>T	c.(3643-3645)TGC>TGT	p.C1215C		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1215	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GACAGCTGCGGCAGAAGTTGC	0.637													32	61					0	0	1	0	0		A	13716527	A	A	13716527	2	1	55	1	0	0	0	0	0	0	0	1	6796	1195	42	2		2	GRIN2B	12	13716527	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	312	13716527	120135368	987	40021											
PLBD1	79887	broad.mit.edu	37	chr12	14664194	14664194	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacgacatgaagaaagtacCtttccgtagaacatcagttt	14	12	7	8	2	1	3	1	1	0	2	2	4	2	3	2	0	3	3	2	0	6	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:14664194C>A	uc001rcc.1	-	8	1347	c.1186G>T	c.(1186-1188)GGA>TGA	p.G396*		NM_024829	NP_079105	Q6P4A8	PLBL1_HUMAN	phospholipase B domain containing 1	396					lipid catabolic process	extracellular region	hydrolase activity				0						AAGAAAGTACCTTTCCGTAGA	0.408													19	61					7.45023e-12	8.08223e-12	1	1	0		A	14664194	A	A	14664194	4	1	55	1	0	0	0	0	0	1	0	0	12044	695	24	5	491	5	PLBD1	12	14664194	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	947667	14664194	119187701	988	40022											
PDE3A	5139	broad.mit.edu	37	chr12	20766472	20766472	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacccttctcttccaccaaaCgtgtgcacatccttgagagc	9	10	7	15	1	1	1	0	1	1	1	4	3	3	1	4	0	3	1	4	0	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:20766472C>T	uc001reh.1	+	3	1129	c.1107C>T	c.(1105-1107)AAC>AAT	p.N369N		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	369				HGLITDLLADPSLPPNVC -> TASLPTSWQTLLFHQTCA (in Ref. 3 and 4).	lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	TTCCACCAAACGTGTGCACAT	0.567													16	51					0	0	1	0	0		T	20766472	T	T	20766472	2	4	55	1	0	0	0	0	0	0	0	1	11656	535	19	1		1	PDE3A	12	20766472	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6102278	20766472	113085423	989	40023											
DDX11	1663	broad.mit.edu	37	chr12	31250882	31250882	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtgcactttgcccaagTggtgaaggaatgccgggcag	9	8	15	9	1	0	1	0	1	0	0	0	2	0	2	2	3	4	3	2	3	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:31250882T>C	uc001rjt.1	+	18	2077	c.1826T>C	c.(1825-1827)GTG>GCG	p.V609A	DDX11_uc001rjr.1_Missense_Mutation_p.V609A|DDX11_uc001rjs.1_Missense_Mutation_p.V609A|DDX11_uc001rju.1_Missense_Mutation_p.V287A|DDX11_uc001rjv.1_Missense_Mutation_p.V609A|DDX11_uc001rjw.1_Missense_Mutation_p.V583A|DDX11_uc009zjn.1_RNA	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	609					G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					TTTGCCCAAGTGGTGAAGGAA	0.587										Multiple Myeloma(12;0.14)			28	64					0	0	1	0	0		C	31250882	C	C	31250882	3	2	55	1	0	0	0	0	1	0	0	0	4346	1696	59	3	1892	3	DDX11	12	31250882	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	10484410	31250882	102601013	990	40024											
ALG10	84920	broad.mit.edu	37	chr12	34179403	34179404	+	Frame_Shift_Ins	INS	-	T	T																															tttggaaacgtagaattctgINSttttttgtggttaccttagt																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:34179403_34179404insT	uc001rlm.2	+	3	1294_1295	c.975_976insT	c.(973-978)CTGTTTfs	p.L325fs		NM_032834	NP_116223	Q5BKT4	AG10A_HUMAN	asparagine-linked glycosylation 10 homolog	325_326	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			skin(1)	1	Lung NSC(5;3.82e-05)|Acute lymphoblastic leukemia(23;0.0142)|all_hematologic(23;0.0429)	Lung NSC(34;0.204)|all_lung(34;0.235)				GTAGAATTCTGTTTTTTGTGGT	0.322													20	33	---	---	---	---						.	T	34179404	T	T	34179403	7	5	55	1	0	1	1	0	0	0	0	0	511	1364	48	0	985	0	ALG10	12	34179403	Frame_Shift_Ins	INS	-	TCGA-BR-7851-01A-11D-2201-08	2928521	34179403	99672492	991	40025											
CPNE8	144402	broad.mit.edu	37	chr12	39087578	39087578	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccactgcttttagtgccaTaccataggcattcagttggt	8	14	8	11	0	1	0	1	0	0	0	2	0	2	0	3	2	3	3	3	2	3	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:39087578T>C	uc001rls.1	-	15	1108	c.1024A>G	c.(1024-1026)ATG>GTG	p.M342V	CPNE8_uc001rlr.1_Missense_Mutation_p.M1V	NM_153634	NP_705898	Q86YQ8	CPNE8_HUMAN	copine VIII	342	VWFA.									pancreas(1)	1	Esophageal squamous(101;0.187)	Lung NSC(34;0.137)|Melanoma(24;0.152)|all_lung(34;0.157)				TTTAGTGCCATACCATAGGCA	0.423													22	30					0	0	1	0	0		C	39087578	C	C	39087578	3	2	55	1	0	0	0	0	1	0	0	0	3821	1406	49	3	694	3	CPNE8	12	39087578	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	4908175	39087578	94764317	992	40026											
KIF21A	55605	broad.mit.edu	37	chr12	39695397	39695397	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gttccagactttcaaaatgcCccctctgcagccactgagca	10	9	7	15	0	2	2	1	1	1	1	3	2	3	2	4	0	4	3	4	0	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:39695397C>A	uc001rly.2	-	37	4962	c.4816G>T	c.(4816-4818)GGC>TGC	p.G1606C	KIF21A_uc001rlv.2_Missense_Mutation_p.G551C|KIF21A_uc001rlw.2_Missense_Mutation_p.G876C|KIF21A_uc001rlx.2_Missense_Mutation_p.G1593C|KIF21A_uc001rlz.2_Missense_Mutation_p.G1553C|KIF21A_uc010skl.1_Missense_Mutation_p.G1569C|KIF21A_uc001rlt.2_Missense_Mutation_p.G226C|KIF21A_uc001rlu.2_Missense_Mutation_p.G226C	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	1606	WD 6.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TTCAAAATGCCCCCTCTGCAG	0.458													26	209					4.74835e-14	5.1962e-14	1	1	0		A	39695397	A	A	39695397	3	1	55	1	0	0	0	0	1	0	0	0	8304	623	22	5	216	5	KIF21A	12	39695397	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	607819	39695397	94156498	993	40027											
PUS7L	83448	broad.mit.edu	37	chr12	44130313	44130313	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaattttgctggtatatgcGtgaacatagaatatgcgcat	13	13	9	6	2	0	2	0	1	0	1	0	2	0	2	0	1	4	3	0	1	7	6	rs149201016		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:44130313G>A	uc001rnq.3	-	7	2085	c.1596C>T	c.(1594-1596)CAC>CAT	p.H532H	PUS7L_uc001rnr.3_Silent_p.H532H|PUS7L_uc001rns.3_Silent_p.H532H|PUS7L_uc009zkb.2_Silent_p.H219H	NM_001098615	NP_001092085	Q9H0K6	PUS7L_HUMAN	pseudouridylate synthase 7 homolog (S.	532	TRUD.				pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)		TGGTATATGCGTGAACATAGA	0.458													25	55					0	0	1	0	0		A	44130313	A	A	44130313	2	1	55	1	0	0	0	0	0	0	0	1	12859	1136	40	1		1	PUS7L	12	44130313	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4434916	44130313	89721582	994	40028											
SFRS2IP	9169	broad.mit.edu	37	chr12	46327972	46327972	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactaaccaataagctctatAggtaaaggaagattctccag	16	10	7	8	0	2	1	0	0	2	1	3	2	2	2	2	2	3	2	2	2	9	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:46327972A>G	uc001rox.2	-	8	906	c.619T>C	c.(619-621)TAT>CAT	p.Y207H	SFRS2IP_uc001roy.1_Missense_Mutation_p.Y281H	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	207					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		TAAGCTCTATAGGTAAAGGAA	0.318													5	12					0	0	1	0	0		G	46327972	G	G	46327972	3	3	55	1	0	0	0	0	1	0	0	0	14202	420	15	3	3804	3	SFRS2IP	12	46327972	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2197659	46327972	87523923	995	40029											
FAM113B	91523	broad.mit.edu	37	chr12	47629390	47629390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttcttccgcccaagctcCggcggcagaaggccaccttc	6	9	10	16	3	1	1	0	0	1	1	4	1	3	1	5	3	1	3	5	3	2	4	rs148925320		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:47629390C>T	uc001rpn.2	+	4	1275	c.544C>T	c.(544-546)CGG>TGG	p.R182W	FAM113B_uc010slj.1_Missense_Mutation_p.R62W|FAM113B_uc001rpq.2_Missense_Mutation_p.R182W	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	182							hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					GCCCAAGCTCCGGCGGCAGAA	0.597													7	23					0	0	1	0	0		T	47629390	T	T	47629390	3	4	55	1	0	0	0	0	1	0	0	0	5413	643	23	1	546	1	FAM113B	12	47629390	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1301418	47629390	86222505	996	40030											
CCDC65	85478	broad.mit.edu	37	chr12	49298120	49298120	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatccaatcccctgcccccAtgcctaagaaagaaaaaatg	15	6	7	13	0	0	2	0	0	0	2	2	3	2	3	6	1	2	0	6	1	6	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:49298120A>G	uc001rso.2	+	1	228	c.1A>G	c.(1-3)ATG>GTG	p.M1V		NM_033124	NP_149115	Q8IXS2	CCD65_HUMAN	coiled-coil domain containing 65	1										ovary(1)|skin(1)	2						CCCTGCCCCCATGCCTAAGAA	0.532											OREG0021772	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	91					0	0	1	0	0		G	49298120	G	G	49298120	3	3	55	1	0	0	0	0	1	0	0	0	2840	217	8	3	3	3	CCDC65	12	49298120	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1668730	49298120	84553775	997	40031											
NCKAP5L	57701	broad.mit.edu	37	chr12	50188791	50188791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccatcttgacttccctcCggagcggggagcccccgcca	5	8	10	18	3	1	1	0	1	1	0	4	3	4	3	6	3	2	0	6	3	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:50188791C>T	uc009zlk.2	-	8	3054	c.2852G>A	c.(2851-2853)CGG>CAG	p.R951Q	NCKAP5L_uc001rvc.3_Missense_Mutation_p.R155Q|NCKAP5L_uc001rvb.2_Missense_Mutation_p.R544Q	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	947										central_nervous_system(1)	1						GACTTCCCTCCGGAGCGGGGA	0.647													6	4					0	0	1	0	0		T	50188791	T	T	50188791	3	4	55	1	0	0	0	0	1	0	0	0	10243	652	23	1	1176	1	NCKAP5L	12	50188791	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	890671	50188791	83663104	998	40032											
AQP2	359	broad.mit.edu	37	chr12	50344854	50344854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcctggtgggctgccacGtctccgttctccgagccgcc	2	9	12	18	4	2	0	0	0	2	0	4	1	2	0	7	2	3	2	7	2	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:50344854G>A	uc001rvn.2	+	1	331	c.241G>A	c.(241-243)GTC>ATC	p.V81I		NM_000486	NP_000477	P41181	AQP2_HUMAN	aquaporin 2	81	Cytoplasmic (Potential).				cellular response to copper ion|cellular response to mercury ion|excretion	apical plasma membrane|integral to membrane|transport vesicle membrane	glycerol transmembrane transporter activity|water channel activity			ovary(2)	2						GGGCTGCCACGTCTCCGTTCT	0.662													13	19					0	0	1	0	0		A	50344854	A	A	50344854	3	1	55	1	0	0	0	0	1	0	0	0	826	1145	40	1	243	1	AQP2	12	50344854	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	156063	50344854	83507041	999	40033											
CSRNP2	81566	broad.mit.edu	37	chr12	51457853	51457853	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaggctgagccttcttcCgtaccaggctctcctttcac	8	11	8	14	1	3	2	1	1	2	1	5	2	4	2	4	2	2	3	4	2	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:51457853C>T	uc001rxu.1	-	5	1606	c.1308G>A	c.(1306-1308)ACG>ACA	p.T436T		NM_030809	NP_110436	Q9H175	CSRN2_HUMAN	TGF-beta induced apoptosis protein 12	436					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						AGCCTTCTTCCGTACCAGGCT	0.547													5	15					0	0	1	0	0		T	51457853	T	T	51457853	2	4	55	1	0	0	0	0	0	0	0	1	3967	639	23	1		1	CSRNP2	12	51457853	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1112999	51457853	82394042	1000	40034											
DAZAP2	9802	broad.mit.edu	37	chr12	51634661	51634661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgcctcttctagctctatCgtccgagctttgtgcaccca	5	14	7	15	2	4	0	0	0	4	0	6	1	5	0	3	0	4	3	3	0	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:51634661C>T	uc010snd.1	+	3	323	c.139C>T	c.(139-141)CGT>TGT	p.R47C	DAZAP2_uc001ryb.2_Missense_Mutation_p.R47C|DAZAP2_uc010snc.1_Intron|DAZAP2_uc010sne.1_Intron|DAZAP2_uc010snf.1_Missense_Mutation_p.R47C	NM_001136266	NP_001129738	Q15038	DAZP2_HUMAN	DAZ associated protein 2 isoform c	47	Pro-rich.			R -> S (in Ref. 1; AAR11454).			WW domain binding				0						CTAGCTCTATCGTCCGAGCTT	0.483													26	50					0	0	1	0	0		T	51634661	T	T	51634661	3	4	55	1	0	0	0	0	1	0	0	0	4248	884	31	1	149	1	DAZAP2	12	51634661	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	176808	51634661	82217234	1001	40035											
ANKRD33	341405	broad.mit.edu	37	chr12	52284398	52284398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagcagtggaccctgttcGgggcaagacggccctggaat	9	6	15	11	2	0	1	0	0	0	1	1	4	0	3	2	5	1	3	2	5	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:52284398G>A	uc001rzf.3	+	5	872	c.293G>A	c.(292-294)CGG>CAG	p.R98Q	ANKRD33_uc001rzh.3_3'UTR|ANKRD33_uc001rzd.2_Missense_Mutation_p.R223Q|ANKRD33_uc001rze.2_Missense_Mutation_p.R119Q|ANKRD33_uc001rzg.3_Missense_Mutation_p.R25Q|ANKRD33_uc001rzi.3_Missense_Mutation_p.R98Q	NM_001130015	NP_001123487	Q7Z3H0	ANR33_HUMAN	ankyrin repeat domain 33 isoform 1	98	ANK 3.										0				BRCA - Breast invasive adenocarcinoma(357;0.0969)		GACCCTGTTCGGGGCAAGACG	0.617													8	15					0	0	1	0	0		A	52284398	A	A	52284398	3	1	55	1	0	0	0	0	1	0	0	0	661	1116	39	1	716	1	ANKRD33	12	52284398	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	649737	52284398	81567497	1002	40036											
C12orf44	60673	broad.mit.edu	37	chr12	52467515	52467515	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgctggctgtgctgcacacGgtgcttctgcaccgcagcac	6	9	12	14	2	1	0	0	0	1	0	1	0	1	0	1	2	6	8	1	2	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:52467515G>A	uc001rzu.3	+	3	556	c.81G>A	c.(79-81)ACG>ACA	p.T27T	C12orf44_uc009zmd.2_Silent_p.T27T	NM_021934	NP_068753	Q9BSB4	ATGA1_HUMAN	Atg13-interacting protein	27					autophagic vacuole assembly	pre-autophagosomal structure	identical protein binding|protein complex binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0978)		TGCTGCACACGGTGCTTCTGC	0.612													3	31					0	0	1	0	0		A	52467515	A	A	52467515	2	1	55	1	0	0	0	0	0	0	0	1	1693	1103	39	1		1	C12orf44	12	52467515	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	183117	52467515	81384380	1003	40037											
KRT3	3850	broad.mit.edu	37	chr12	53189822	53189822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtcttgctggcttgtctgCtcatggtaaggagcttggcg	5	14	14	8	1	3	0	1	0	2	0	3	1	3	1	0	4	3	5	0	4	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:53189822C>T	uc001say.2	-	1	71	c.5G>A	c.(4-6)AGC>AAC	p.S2N		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	2	Head.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						GGCTTGTCTGCTCATGGTAAG	0.547													3	14					0	0	1	0	0		T	53189822	T	T	53189822	3	4	55	1	0	0	0	0	1	0	0	0	8482	797	28	2	1917	2	KRT3	12	53189822	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	722307	53189822	80662073	1004	40038											
EIF4B	1975	broad.mit.edu	37	chr12	53412624	53412624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgacgatgtgtatagggCgcctccaattgaccgttcca	9	10	11	11	4	0	2	0	2	0	0	2	4	2	2	4	1	0	2	4	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:53412624C>T	uc001sbh.3	+	3	400	c.194C>T	c.(193-195)GCG>GTG	p.A65V	EIF4B_uc009zmp.1_RNA|EIF4B_uc010snu.1_Missense_Mutation_p.A65V|EIF4B_uc010snv.1_Missense_Mutation_p.A65V|EIF4B_uc001sbi.2_5'UTR	NM_001417	NP_001408	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	65					insulin receptor signaling pathway|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	nucleotide binding|translation initiation factor activity			breast(1)|kidney(1)	2						GTGTATAGGGCGCCTCCAATT	0.502													19	84					0	0	1	0	0		T	53412624	T	T	53412624	3	4	55	1	0	0	0	0	1	0	0	0	5035	768	27	1	204	1	EIF4B	12	53412624	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	222802	53412624	80439271	1005	40039											
CSAD	51380	broad.mit.edu	37	chr12	53564239	53564239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgaccactcggacactgtcGgtgccaagtcccagaaacgc	10	7	10	14	3	0	2	0	1	0	1	3	3	1	3	3	2	2	0	3	2	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:53564239G>A	uc001sby.2	-	8	741	c.615C>T	c.(613-615)ACC>ACT	p.T205T	CSAD_uc001sbw.2_Silent_p.T58T|CSAD_uc009zmt.2_5'UTR|CSAD_uc010snx.1_Silent_p.T232T|CSAD_uc001sbz.2_Silent_p.T205T|CSAD_uc009zmu.2_Silent_p.T58T|CSAD_uc001sca.3_RNA	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	205					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	GGACACTGTCGGTGCCAAGTC	0.572									Hereditary_Prostate_Cancer				20	48					0	0	1	0	0		A	53564239	A	A	53564239	2	1	55	1	0	0	0	0	0	0	0	1	3928	1103	39	1		1	CSAD	12	53564239	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	151615	53564239	80287656	1006	40040											
SP1	6667	broad.mit.edu	37	chr12	53776653	53776653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggactaccatcagttctGccagcttggtatcatcacaa	11	10	8	12	0	4	0	3	0	1	0	4	1	4	1	2	2	3	3	2	2	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:53776653G>A	uc001scw.2	+	3	1019	c.922G>A	c.(922-924)GCC>ACC	p.A308T	SP1_uc010sog.1_Missense_Mutation_p.A301T	NM_138473	NP_612482	P08047	SP1_HUMAN	Sp1 transcription factor isoform a	308	Transactivation domain B (Gln-rich).|Ser/Thr-rich.				positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)		CATCAGTTCTGCCAGCTTGGT	0.512													10	95					0	0	1	0	0		A	53776653	A	A	53776653	3	1	55	1	0	0	0	0	1	0	0	0	14984	1319	46	2	932	2	SP1	12	53776653	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	212414	53776653	80075242	1007	40041											
MAP3K12	7786	broad.mit.edu	37	chr12	53879249	53879249	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaccacatcgtcgtaggTgattagcatgctggtaaaga	11	11	10	9	2	1	2	1	1	0	1	3	2	1	2	1	2	2	4	1	2	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:53879249T>C	uc001sdm.1	-	6	831	c.733A>G	c.(733-735)ACC>GCC	p.T245A	MAP3K12_uc001sdn.1_Missense_Mutation_p.T278A	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	245	Protein kinase.				histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						TCGTCGTAGGTGATTAGCATG	0.493													9	180					0	0	1	0	0		C	53879249	C	C	53879249	3	2	55	1	0	0	0	0	1	0	0	0	9264	1696	59	3	1886	3	MAP3K12	12	53879249	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	102596	53879249	79972646	1008	40042											
MAP3K12	7786	broad.mit.edu	37	chr12	53880257	53880257	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttggggtgcttcagctttcGcaagtgcttgatgtcggttt	4	16	14	7	2	1	1	1	1	0	0	3	1	1	1	0	3	3	6	0	3	1	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:53880257G>A	uc001sdm.1	-	4	594	c.496C>T	c.(496-498)CGA>TGA	p.R166*	MAP3K12_uc001sdn.1_Nonsense_Mutation_p.R199*	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	166	Protein kinase.				histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						TTCAGCTTTCGCAAGTGCTTG	0.592													17	43					0	0	1	0	0		A	53880257	A	A	53880257	4	1	55	1	0	0	0	0	0	1	0	0	9264	1095	38	1	2131	1	MAP3K12	12	53880257	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1008	53880257	79971638	1009	40043											
PDE1B	5153	broad.mit.edu	37	chr12	54966477	54966477	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaccagatccacgcagcCgatgttacccagacagtcca	13	5	7	16	2	0	2	0	0	0	2	2	3	2	2	5	0	3	2	5	0	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:54966477C>T	uc001sgd.1	+	7	853	c.687C>T	c.(685-687)GCC>GCT	p.A229A	PDE1B_uc010soz.1_Silent_p.A92A|PDE1B_uc010spa.1_Silent_p.A188A|PDE1B_uc001sgf.2_Silent_p.A92A|PDE1B_uc001sge.2_Silent_p.A209A|PDE1B_uc009znq.2_Silent_p.A25A	NM_000924	NP_000915	Q01064	PDE1B_HUMAN	phosphodiesterase 1B isoform 1	229	Catalytic (By similarity).				activation of phospholipase C activity|apoptosis|nerve growth factor receptor signaling pathway|platelet activation	cytosol|nucleus	3',5'-cyclic-AMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						TCCACGCAGCCGATGTTACCC	0.517													88	224					0	0	1	0	0		T	54966477	T	T	54966477	2	4	55	1	0	0	0	0	0	0	0	1	11653	639	23	1		1	PDE1B	12	54966477	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1086220	54966477	78885418	1010	40044											
KIAA0748	9840	broad.mit.edu	37	chr12	55360195	55360195	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaagagtttgccattggcGgccagtagtgtggctggaca	9	9	16	7	1	0	2	0	0	0	2	0	4	0	3	2	4	1	3	2	4	2	3	rs149630377	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:55360195G>A	uc001sgn.3	-	6	434	c.324C>T	c.(322-324)GCC>GCT	p.A108A	KIAA0748_uc001sgl.3_5'UTR|KIAA0748_uc001sgm.3_5'UTR|KIAA0748_uc010spb.1_5'UTR|KIAA0748_uc010spc.1_5'UTR|KIAA0748_uc010spd.1_Silent_p.A108A|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	108										ovary(1)|central_nervous_system(1)	2						TGCCATTGGCGGCCAGTAGTG	0.323													20	56					0	0	1	0	0		A	55360195	A	A	55360195	2	1	55	1	0	0	0	0	0	0	0	1	8206	1103	39	1		1	KIAA0748	12	55360195	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	393718	55360195	78491700	1011	40045											
OR6C1	390321	broad.mit.edu	37	chr12	55714989	55714989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgggattttcttgtgctgcGtttactctaatgttcacttt	6	20	8	7	1	3	0	1	0	2	0	3	1	3	1	0	1	3	3	0	1	2	8	rs144216844	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:55714989G>A	uc010spi.1	+	1	606	c.606G>A	c.(604-606)GCG>GCA	p.A202A		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	202	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						CTTGTGCTGCGTTTACTCTAA	0.353													7	22					0	0	1	0	0		A	55714989	A	A	55714989	2	1	55	1	0	0	0	0	0	0	0	1	11209	1132	40	1		1	OR6C1	12	55714989	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	354794	55714989	78136906	1012	40046											
ITGA7	3679	broad.mit.edu	37	chr12	56091513	56091513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgtcagccagggagcccaCcagcaggtcagggtattggt	8	7	16	10	0	2	0	2	0	0	0	2	1	2	1	3	5	3	2	3	5	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:56091513C>T	uc001shh.2	-	9	1607	c.1387G>A	c.(1387-1389)GTG>ATG	p.V463M	ITGA7_uc001shg.2_Missense_Mutation_p.V459M|ITGA7_uc010sps.1_Missense_Mutation_p.V366M|ITGA7_uc009znw.2_5'Flank|ITGA7_uc009znx.2_Missense_Mutation_p.V346M	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	503	FG-GAP 7.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						AGGGAGCCCACCAGCAGGTCA	0.617													13	33					0	0	1	0	0		T	56091513	T	T	56091513	3	4	55	1	0	0	0	0	1	0	0	0	7897	507	18	4	2106	4	ITGA7	12	56091513	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	376524	56091513	77760382	1013	40047											
DNAJC14	85406	broad.mit.edu	37	chr12	56215796	56215796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcctcactttcttccgccGcttaggtttggcttctccct	2	16	6	17	2	3	0	1	0	2	0	6	0	5	0	5	2	0	3	5	2	1	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:56215796G>A	uc001shx.1	-	7	2278	c.2074C>T	c.(2074-2076)CGG>TGG	p.R692W	DNAJC14_uc001shu.1_Missense_Mutation_p.R692W|DNAJC14_uc009zob.1_Missense_Mutation_p.R692W	NM_032364	NP_115740	Q6Y2X3	DJC14_HUMAN	dopamine receptor interacting protein	692					protein folding|protein transport	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|unfolded protein binding			ovary(3)|large_intestine(1)	4						TTCTTCCGCCGCTTAGGTTTG	0.552													41	76					0	0	1	0	0		A	56215796	A	A	56215796	3	1	55	1	0	0	0	0	1	0	0	0	4639	1086	38	1	38	1	DNAJC14	12	56215796	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	124283	56215796	77636099	1014	40048											
APOF	319	broad.mit.edu	37	chr12	56755798	56755798	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgggtgcagaaattggcaGgacaaggggtctgaggaggg	10	8	19	4	0	1	2	0	1	1	1	1	4	1	4	0	7	1	2	0	7	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:56755798G>T	uc001sle.1	-	2	246	c.192C>A	c.(190-192)TCC>TCA	p.S64S		NM_001638	NP_001629	Q13790	APOF_HUMAN	apolipoprotein F precursor	64					cholesterol metabolic process	high-density lipoprotein particle|low-density lipoprotein particle	cholesterol binding|lipid transporter activity|receptor binding				0						GAAATTGGCAGGACAAGGGGT	0.527													7	98					0.00307968	0.00314429	1	1	0		T	56755798	T	T	56755798	2	4	55	1	0	0	0	0	0	0	0	1	803	987	35	5		5	APOF	12	56755798	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	540002	56755798	77096097	1015	40049											
LRP1	4035	broad.mit.edu	37	chr12	57567081	57567081	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcgatgagaagagctgtgaGggagtgacccacgtctgcga	11	6	16	8	3	1	4	0	3	1	2	1	8	1	5	1	1	3	1	1	1	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:57567081G>T	uc001snd.2	+	21	3760	c.3294G>T	c.(3292-3294)GAG>GAT	p.E1098D		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1098	Extracellular (Potential).|LDL-receptor class A 8.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	AGAGCTGTGAGGGAGTGACCC	0.592											OREG0021936	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	51					0.00909568	0.00923805	1	1	0		T	57567081	T	T	57567081	3	4	55	1	0	0	0	0	1	0	0	0	8969	991	35	5	3376	5	LRP1	12	57567081	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	811283	57567081	76284814	1016	40050											
KIF5A	3798	broad.mit.edu	37	chr12	57962772	57962772	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagactggagcagagggagcCgtgctggacgaggcaaagaa	14	3	17	7	2	0	3	0	0	0	3	0	7	0	6	1	4	3	3	1	4	3	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:57962772C>T	uc001sor.1	+	9	949	c.741C>T	c.(739-741)GCC>GCT	p.A247A	KIF5A_uc010srr.1_Silent_p.A158A	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	247	Kinesin-motor.|Microtubule-binding.				blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						CAGAGGGAGCCGTGCTGGACG	0.562													12	52					0	0	1	0	0		T	57962772	T	T	57962772	2	4	55	1	0	0	0	0	0	0	0	1	8321	639	23	1		1	KIF5A	12	57962772	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	395691	57962772	75889123	1017	40051											
GEFT	115557	broad.mit.edu	37	chr12	58008142	58008142	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcaagagctacaacggtgtCtgaaagatcctgattggctg	11	10	12	8	1	1	4	0	2	1	2	2	4	2	4	1	2	4	3	1	2	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:58008142C>T	uc001spb.2	+	7	1145	c.685C>T	c.(685-687)CTG>TTG	p.L229L	GEFT_uc009zpy.2_Silent_p.L268L|GEFT_uc001soz.1_Silent_p.L103L|GEFT_uc001spa.2_Silent_p.L123L|uc001spc.2_Intron|GEFT_uc001spd.2_5'UTR	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	229	DH.				regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					ACAACGGTGTCTGAAAGATCC	0.552													20	61					0	0	1	0	0		T	58008142	T	T	58008142	2	4	55	1	0	0	0	0	0	0	0	1	6343	912	32	4		4	GEFT	12	58008142	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	45370	58008142	75843753	1018	40052											
METTL1	4234	broad.mit.edu	37	chr12	58163384	58163384	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	taggcatattctgctagcagGgtgggactgatgattcgcca	9	11	13	8	1	1	2	0	2	1	0	2	3	1	3	1	3	2	3	1	3	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:58163384G>T	uc010ssd.1	-	4	585	c.537C>A	c.(535-537)ACC>ACA	p.T179T	CYP27B1_uc001spz.1_5'Flank|CYP27B1_uc001sqa.1_5'Flank|METTL1_uc009zqc.2_Missense_Mutation_p.P118T|FAM119B_uc001sqf.2_5'Flank|FAM119B_uc001sqg.2_5'Flank|FAM119B_uc009zqd.2_5'Flank	NM_005371	NP_005362	Q9UBP6	TRMB_HUMAN	methyltransferase-like protein 1 isoform a	179						cytoplasm|nucleus	protein binding|tRNA (guanine-N7-)-methyltransferase activity|tRNA binding				0	all_cancers(7;6.73e-81)|Lung NSC(6;1.07e-25)|all_lung(6;8.25e-24)|all_epithelial(6;4.6e-17)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.211)			CTGCTAGCAGGGTGGGACTGA	0.527													5	201					0.014758	0.014937	1	1	0		T	58163384	T	T	58163384	2	4	55	1	0	0	0	0	0	0	0	1	9511	1232	43	5		5	METTL1	12	58163384	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	155242	58163384	75688511	1019	40053											
AVIL	10677	broad.mit.edu	37	chr12	58201166	58201166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatgaagtggcgtggctccGttcccatcctgactcgaacc	7	9	10	15	3	0	2	0	2	0	0	4	3	3	2	5	2	1	2	5	2	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:58201166G>A	uc001sqj.1	-	12	1468	c.1439C>T	c.(1438-1440)ACG>ATG	p.T480M	AVIL_uc009zqe.1_Missense_Mutation_p.T473M|AVIL_uc001sqk.1_Missense_Mutation_p.T58M|AVIL_uc001sql.3_Missense_Mutation_p.T457M	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	480	Core (By similarity).				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					GCGTGGCTCCGTTCCCATCCT	0.537													36	74					0	0	1	0	0		A	58201166	A	A	58201166	3	1	55	1	0	0	0	0	1	0	0	0	1228	1145	40	1	1052	1	AVIL	12	58201166	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	37782	58201166	75650729	1020	40054											
SLC16A7	9194	broad.mit.edu	37	chr12	60168466	60168466	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagccttcaacctgcaaccCgccttaaccataattggcaa	12	10	5	14	1	1	0	1	0	0	0	1	0	1	0	5	1	5	2	5	1	6	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:60168466C>T	uc001sqs.2	+	5	689	c.390C>T	c.(388-390)CCC>CCT	p.P130P	SLC16A7_uc001sqt.2_Silent_p.P130P|SLC16A7_uc001squ.2_Silent_p.P130P|SLC16A7_uc009zqi.2_Silent_p.P31P|SLC16A7_uc010ssi.1_Silent_p.P31P	NM_004731	NP_004722	O60669	MOT2_HUMAN	solute carrier family 16, member 7	130	Helical; (Potential).					integral to plasma membrane|membrane fraction	pyruvate secondary active transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(3;0.0303)	Pyruvic acid(DB00119)	ACCTGCAACCCGCCTTAACCA	0.413													9	22					0	0	1	0	0		T	60168466	T	T	60168466	2	4	55	1	0	0	0	0	0	0	0	1	14438	639	23	1		1	SLC16A7	12	60168466	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1967300	60168466	73683429	1021	40055											
LEMD3	23592	broad.mit.edu	37	chr12	65564319	65564319	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcagttcagggagggggaGgactcgcgatgaatgacagg	10	7	17	7	2	2	2	2	2	0	0	3	6	2	5	0	5	0	1	0	5	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:65564319G>T	uc001ssl.1	+	1	949	c.943G>T	c.(943-945)GGA>TGA	p.G315*	LEMD3_uc009zqo.1_Nonsense_Mutation_p.G315*	NM_014319	NP_055134	Q9Y2U8	MAN1_HUMAN	LEM domain containing 3	315	Poly-Gly.				negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway	integral to nuclear inner membrane|membrane fraction	DNA binding|nucleotide binding|protein binding			central_nervous_system(3)|ovary(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0104)		GGGAGGGGGAGGACTCGCGAT	0.657													3	20					1	1	1	1	0		T	65564319	T	T	65564319	4	4	55	1	0	0	0	0	0	1	0	0	8737	1001	35	5	945	5	LEMD3	12	65564319	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5395853	65564319	68287576	1022	40056											
IRAK3	11213	broad.mit.edu	37	chr12	66638373	66638373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtaccataaatatgaccaGcagcagcagtaaacatctgt	15	10	7	9	0	1	1	0	1	1	0	1	1	1	1	2	0	5	5	2	0	6	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:66638373G>A	uc001sth.2	+	9	1097	c.995G>A	c.(994-996)AGC>AAC	p.S332N	IRAK3_uc010ssy.1_Missense_Mutation_p.S271N	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	332	Protein kinase.				interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		AATATGACCAGCAGCAGCAGT	0.428													27	66					0	0	1	0	0		A	66638373	A	A	66638373	3	1	55	1	0	0	0	0	1	0	0	0	7840	971	34	2	1029	2	IRAK3	12	66638373	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1074054	66638373	67213522	1023	40057											
HELB	92797	broad.mit.edu	37	chr12	66704320	66704320	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctatagaagttttgctcacaGcacctacagggaaagcagct	13	9	9	10	0	1	1	1	0	0	1	1	2	1	2	1	1	5	5	1	1	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:66704320G>T	uc001sti.2	+	4	1640	c.1612G>T	c.(1612-1614)GCA>TCA	p.A538S	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	538					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		TTTGCTCACAGCACCTACAGG	0.413													37	85					7.05121e-23	7.84862e-23	1	1	0		T	66704320	T	T	66704320	3	4	55	1	0	0	0	0	1	0	0	0	7061	971	34	5	1626	5	HELB	12	66704320	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	65947	66704320	67147575	1024	40058											
GRIP1	23426	broad.mit.edu	37	chr12	66742824	66742824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtattagtgggttctcgtGtctccaaattaccaccgtgg	8	14	10	9	2	2	0	0	0	2	0	4	0	2	0	3	2	1	2	3	2	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:66742824G>A	uc001stk.2	-	24	3447	c.3206C>T	c.(3205-3207)ACA>ATA	p.T1069I	GRIP1_uc001stj.2_Missense_Mutation_p.T836I	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	1121					androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		GGGTTCTCGTGTCTCCAAATT	0.408													8	152					0	0	1	0	0		A	66742824	A	A	66742824	3	1	55	1	0	0	0	0	1	0	0	0	6803	1377	48	4	28	4	GRIP1	12	66742824	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	38504	66742824	67109071	1025	40059											
DYRK2	8445	broad.mit.edu	37	chr12	68051937	68051937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttagcagagctcctgaCgggttaccccctcttgcctg	6	12	9	14	1	1	2	0	1	1	1	2	2	2	2	4	1	4	3	4	1	2	4	rs140246773		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:68051937C>T	uc001str.3	+	3	1652	c.1250C>T	c.(1249-1251)ACG>ATG	p.T417M	DYRK2_uc001sts.3_Missense_Mutation_p.T344M	NM_006482	NP_006473	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	417	Protein kinase.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|positive regulation of glycogen biosynthetic process|smoothened signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|manganese ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(1)|central_nervous_system(1)	4			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		GAGCTCCTGACGGGTTACCCC	0.552													5	17					0	0	1	0	0		T	68051937	T	T	68051937	3	4	55	1	0	0	0	0	1	0	0	0	4862	536	19	1	1260	1	DYRK2	12	68051937	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1309113	68051937	65799958	1026	40060											
TPH2	121278	broad.mit.edu	37	chr12	72372756	72372756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggcttcacggtgaggcCggtggctggatacctgagcc	5	9	16	11	2	2	2	1	2	1	0	2	3	2	3	3	6	2	2	3	6	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:72372756C>T	uc009zrw.1	+	7	971	c.830C>T	c.(829-831)CCG>CTG	p.P277L	TPH2_uc001swy.2_Missense_Mutation_p.P187L	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	277					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	ACGGTGAGGCCGGTGGCTGGA	0.522													21	59					0	0	1	0	0		T	72372756	T	T	72372756	3	4	55	1	0	0	0	0	1	0	0	0	16428	652	23	1	856	1	TPH2	12	72372756	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4320819	72372756	61479139	1027	40061											
E2F7	144455	broad.mit.edu	37	chr12	77444495	77444495	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctttgcttttcaaattcGtccacagcactgtccccaac	8	12	6	15	1	1	0	1	0	0	0	4	0	3	0	4	1	3	2	4	1	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:77444495G>A	uc001sym.3	-	4	635	c.399C>T	c.(397-399)GAC>GAT	p.D133D	E2F7_uc001syn.2_Silent_p.D133D	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	133					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						TTTCAAATTCGTCCACAGCAC	0.463													16	41					0	0	1	0	0		A	77444495	A	A	77444495	2	1	55	1	0	0	0	0	0	0	0	1	4878	1136	40	1		1	E2F7	12	77444495	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5071739	77444495	56407400	1028	40062											
ACSS3	79611	broad.mit.edu	37	chr12	81503375	81503375	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaacatttgttacaatgcCgttgatcgtcatattgaaaa	13	15	6	7	2	1	2	1	2	0	0	2	2	1	2	1	0	3	2	1	0	6	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:81503375C>T	uc001szl.1	+	2	439	c.348C>T	c.(346-348)GCC>GCT	p.A116A	ACSS3_uc001szm.1_Silent_p.A115A	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	116						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GTTACAATGCCGTTGATCGTC	0.328													10	21					0	0	1	0	0		T	81503375	T	T	81503375	2	4	55	1	0	0	0	0	0	0	0	1	190	639	23	1		1	ACSS3	12	81503375	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4058880	81503375	52348520	1029	40063											
C12orf26	84190	broad.mit.edu	37	chr12	82752576	82752576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgccctcagagacgcgcCccctagtggaagcagagtgg	8	5	13	15	2	1	2	1	0	0	2	1	4	1	3	4	2	2	1	4	2	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:82752576C>T	uc001szq.2	+	1	253	c.232C>T	c.(232-234)CCC>TCC	p.P78S	CCDC59_uc001szp.3_5'Flank	NM_032230	NP_115606	Q8N6Q8	CL026_HUMAN	hypothetical protein LOC84190	78											0						AGAGACGCGCCCCCTAGTGGA	0.687											OREG0022008	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	13					0	0	1	0	0		T	82752576	T	T	82752576	3	4	55	1	0	0	0	0	1	0	0	0	1682	623	22	4	234	4	C12orf26	12	82752576	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1249201	82752576	51099319	1030	40064											
LRRIQ1	84125	broad.mit.edu	37	chr12	85450750	85450750	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacctgatagcatgaccTgctgtgtatcagagtcaacc	11	10	9	11	0	2	4	2	3	0	1	2	4	2	4	3	0	4	3	3	0	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:85450750T>A	uc001tac.2	+	8	2290	c.2179T>A	c.(2179-2181)TGC>AGC	p.C727S	LRRIQ1_uc001tab.1_Missense_Mutation_p.C727S|LRRIQ1_uc001taa.1_Missense_Mutation_p.C702S	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	727										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		TAGCATGACCTGCTGTGTATC	0.353													49	196					0	0	1	0	0		A	85450750	A	A	85450750	3	1	55	1	0	0	0	0	1	0	0	0	9047	1580	55	5	2205	5	LRRIQ1	12	85450750	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2698174	85450750	48401145	1031	40065											
ALX1	8092	broad.mit.edu	37	chr12	85695137	85695137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgactctcttcttactgggGcaaccaatggacatgcattt	9	13	8	11	0	2	1	0	1	2	0	3	2	2	2	1	3	3	2	1	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:85695137G>A	uc001tae.3	+	4	869	c.865G>A	c.(865-867)GCA>ACA	p.A289T		NM_006982	NP_008913	Q15699	ALX1_HUMAN	cartilage paired-class homeoprotein 1	289					brain development|cartilage condensation|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(134;0.134)		TCTTACTGGGGCAACCAATGG	0.478													18	53					0	0	1	0	0		A	85695137	A	A	85695137	3	1	55	1	0	0	0	0	1	0	0	0	556	1203	42	2	879	2	ALX1	12	85695137	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	244387	85695137	48156758	1032	40066											
USP44	84101	broad.mit.edu	37	chr12	95927797	95927798	+	Frame_Shift_Ins	INS	-	A	A																															ataatcatcacaaaggtaacINSaaaaaacgtacatctcattc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:95927797_95927798insA	uc001teg.2	-	2	379_380	c.235_236insT	c.(235-237)TGTfs	p.C79fs	USP44_uc001teh.2_Frame_Shift_Ins_p.C79fs|USP44_uc009zte.2_Frame_Shift_Ins_p.C76fs	NM_001042403	NP_001035862	Q9H0E7	UBP44_HUMAN	ubiquitin thiolesterase 44	79	UBP-type.				anaphase|cell division|mitosis|negative regulation of mitotic anaphase-promoting complex activity|protein deubiquitination|regulation of spindle checkpoint|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)|breast(1)|central_nervous_system(1)	3						ACAAAGGTAACAAAAAACGTAC	0.391											OREG0022039	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	26	---	---	---	---						.	A	95927798	A	A	95927797	7	5	55	1	0	1	1	0	0	0	0	0	17101	478	17	0	1922	0	USP44	12	95927797	Frame_Shift_Ins	INS	-	TCGA-BR-7851-01A-11D-2201-08	10232660	95927797	37924098	1033	40067											
LTA4H	4048	broad.mit.edu	37	chr12	96412600	96412600	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccaccataagggaaggAtggtggcaggaccaataggt	13	6	14	8	0	0	0	0	0	0	0	0	3	0	3	3	6	1	1	3	6	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:96412600A>T	uc001ten.1	-	8	861	c.793T>A	c.(793-795)TCC>ACC	p.S265T	LTA4H_uc010suy.1_Missense_Mutation_p.S227T|LTA4H_uc010suz.1_Missense_Mutation_p.S227T|LTA4H_uc010sva.1_RNA	NM_000895	NP_000886	P09960	LKHA4_HUMAN	leukotriene A4 hydrolase	265					hormone biosynthetic process|inflammatory response|leukotriene biosynthetic process|peptide catabolic process|prostanoid metabolic process|proteolysis	cytosol|nucleus	aminopeptidase activity|epoxide hydrolase activity|leukotriene-A4 hydrolase activity|metallopeptidase activity|protein binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(1)	1						TAAGGGAAGGATGGTGGCAGG	0.393													7	39					0	0	1	0	0		T	96412600	T	T	96412600	3	4	55	1	0	0	0	0	1	0	0	0	9087	333	12	5	1090	5	LTA4H	12	96412600	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	484803	96412600	37439295	1034	40068											
UTP20	27340	broad.mit.edu	37	chr12	101739426	101739426	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggtacaacttactcattAccatgacccagaaatggact	13	11	6	11	0	1	2	1	1	0	1	1	3	1	3	2	2	4	1	2	2	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:101739426A>G	uc001tia.1	+	37	4856	c.4700A>G	c.(4699-4701)TAC>TGC	p.Y1567C		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1567					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						CTTACTCATTACCATGACCCA	0.358													13	46					0	0	1	0	0		G	101739426	G	G	101739426	3	3	55	1	0	0	0	0	1	0	0	0	17125	391	14	3	4846	3	UTP20	12	101739426	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	5326826	101739426	32112469	1035	40069											
GNPTAB	79158	broad.mit.edu	37	chr12	102164318	102164318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatgagtacctcagttcttCgttatcttcaaaacgactgg	11	13	7	10	2	4	1	2	1	2	0	5	2	4	1	1	1	2	3	1	1	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:102164318C>T	uc001tit.2	-	9	1158	c.979G>A	c.(979-981)GAA>AAA	p.E327K	GNPTAB_uc001tiu.1_Missense_Mutation_p.E327K	NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	327					cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						CTCAGTTCTTCGTTATCTTCA	0.448													14	23					0	0	1	0	0		T	102164318	T	T	102164318	3	4	55	1	0	0	0	0	1	0	0	0	6560	893	31	1	2843	1	GNPTAB	12	102164318	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	424892	102164318	31687577	1036	40070											
ASCL1	429	broad.mit.edu	37	chr12	103352324	103352324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaactgatgcgctgcaaacGccggctcaacttcagcggct	9	7	11	14	5	2	1	2	1	0	0	2	2	2	1	1	2	6	4	1	2	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:103352324G>A	uc001tjr.3	+	1	873	c.302G>A	c.(301-303)CGC>CAC	p.R101H		NM_004316	NP_004307	P50553	ASCL1_HUMAN	achaete-scute complex homolog 1	101					cerebral cortex GABAergic interneuron differentiation|negative regulation of apoptosis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|noradrenergic neuron fate commitment|Notch signaling pathway|positive regulation of neuron differentiation|positive regulation of transcription from RNA polymerase II promoter|response to retinoic acid|sympathetic nervous system development	nucleus	bHLH transcription factor binding|E-box binding|sequence-specific DNA binding transcription factor activity|transcription factor binding transcription factor activity				0						CGCTGCAAACGCCGGCTCAAC	0.697													3	5					0	0	1	0	0		A	103352324	A	A	103352324	3	1	55	1	0	0	0	0	1	0	0	0	1035	1087	38	1	304	1	ASCL1	12	103352324	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1188006	103352324	30499571	1037	40071											
C12orf42	374470	broad.mit.edu	37	chr12	103696040	103696040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggccagcagaggaaggggcGctcctgccagattgccatgg	8	5	16	12	2	0	2	0	0	0	2	1	3	1	3	4	5	3	2	4	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:103696040G>A	uc001tjt.2	-	6	1017	c.929C>T	c.(928-930)GCG>GTG	p.A310V	C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Missense_Mutation_p.A310V|C12orf42_uc001tju.2_Missense_Mutation_p.A215V	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	310										ovary(1)|central_nervous_system(1)	2						AGGAAGGGGCGCTCCTGCCAG	0.642													8	25					0	0	1	0	0		A	103696040	A	A	103696040	3	1	55	1	0	0	0	0	1	0	0	0	1691	1087	38	1	157	1	C12orf42	12	103696040	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	343716	103696040	30155855	1038	40072											
STAB2	55576	broad.mit.edu	37	chr12	104078853	104078853	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctttctgtgctatggaaaCgcagcagtggtaagtcatcg	9	11	13	8	2	2	0	1	0	1	0	3	1	2	1	0	3	3	5	0	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:104078853C>T	uc001tjw.2	+	27	3174	c.2988C>T	c.(2986-2988)AAC>AAT	p.N996N		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	996	Extracellular (Potential).|FAS1 3.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GCTATGGAAACGCAGCAGTGG	0.413													23	60					0	0	1	0	0		T	104078853	T	T	104078853	2	4	55	1	0	0	0	0	0	0	0	1	15263	535	19	1		1	STAB2	12	104078853	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	382813	104078853	29773042	1039	40073											
RIC8B	55188	broad.mit.edu	37	chr12	107208552	107208552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctgcctggaagtactcCgcattctctccagagacaaa	10	10	8	13	1	1	1	0	0	1	1	5	3	4	2	4	1	2	2	4	1	3	2	rs141049479		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:107208552C>T	uc001tlx.2	+	3	336	c.211C>T	c.(211-213)CGC>TGC	p.R71C	RIC8B_uc001tlw.2_Missense_Mutation_p.R71C|RIC8B_uc001tly.2_Missense_Mutation_p.R31C|RIC8B_uc001tlz.2_RNA	NM_018157	NP_060627	Q9NVN3	RIC8B_HUMAN	resistance to inhibitors of cholinesterase 8	71					regulation of G-protein coupled receptor protein signaling pathway	cell cortex|cytosol|plasma membrane	G-protein alpha-subunit binding|guanyl-nucleotide exchange factor activity			ovary(1)	1						GGAAGTACTCCGCATTCTCTC	0.403													14	41					0	0	1	0	0		T	107208552	T	T	107208552	3	4	55	1	0	0	0	0	1	0	0	0	13381	652	23	1	221	1	RIC8B	12	107208552	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3129699	107208552	26643343	1040	40074											
DAO	1610	broad.mit.edu	37	chr12	109278931	109278931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caccaccgacgtggctgccgGcctctggcagccctaccttt	5	8	10	18	3	1	0	0	0	1	0	1	1	1	0	6	3	3	2	6	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:109278931G>A	uc001tnr.3	+	2	302	c.149G>A	c.(148-150)GGC>GAC	p.G50D	DAO_uc001tnq.3_Missense_Mutation_p.G50D|DAO_uc009zvb.2_RNA|DAO_uc001tns.3_RNA	NM_001917	NP_001908	P14920	OXDA_HUMAN	D-amino-acid oxidase	50	FAD.				glyoxylate metabolic process	peroxisomal matrix	binding|D-amino-acid oxidase activity			ovary(1)|skin(1)	2						GTGGCTGCCGGCCTCTGGCAG	0.612													42	78					0	0	1	0	0		A	109278931	A	A	109278931	3	1	55	1	0	0	0	0	1	0	0	0	4234	1203	42	2	151	2	DAO	12	109278931	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2070379	109278931	24572964	1041	40075											
FOXN4	121643	broad.mit.edu	37	chr12	109723308	109723308	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgagttcttccacccgtcGggggccgtctatgaagacac	8	8	11	14	4	2	2	0	1	2	1	4	3	3	2	4	2	0	1	4	2	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:109723308G>A	uc001toe.3	-	8	807	c.702C>T	c.(700-702)CCC>CCT	p.P234P	FOXN4_uc009zvg.2_Silent_p.P31P|FOXN4_uc001tof.3_Silent_p.P54P	NM_213596	NP_998761	Q96NZ1	FOXN4_HUMAN	forkhead box N4	234	Fork-head.				axon extension|embryo development|organ development|pattern specification process|regulation of heart contraction|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|lung(1)	2						TCCACCCGTCGGGGGCCGTCT	0.607													16	23					0	0	1	0	0		A	109723308	A	A	109723308	2	1	55	1	0	0	0	0	0	0	0	1	6036	1103	39	1		1	FOXN4	12	109723308	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	444377	109723308	24128587	1042	40076											
MYL2	4633	broad.mit.edu	37	chr12	111356964	111356964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaacacgttggagttggCgcccccggctctcttctttg	5	11	13	12	3	2	1	0	0	2	1	3	3	2	2	2	4	1	3	2	4	1	4	rs104894363		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:111356964C>T	uc001try.3	-	2	108	c.37G>A	c.(37-39)GCC>ACC	p.A13T	MYL2_uc001trx.3_5'UTR	NM_000432	NP_000423	P10916	MLRV_HUMAN	slow cardiac myosin regulatory light chain 2	13			A -> T (in MVC2).		cardiac myofibril assembly|heart contraction|muscle filament sliding|negative regulation of cell growth|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	cytosol|myosin complex|sarcomere	actin monomer binding|calcium ion binding|myosin heavy chain binding|structural constituent of muscle			ovary(1)	1						TTGGAGTTGGCGCCCCCGGCT	0.507													17	25					0	0	1	0	0		T	111356964	T	T	111356964	3	4	55	1	0	0	0	0	1	0	0	0	10065	768	27	1	487	1	MYL2	12	111356964	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1633656	111356964	22494931	1043	40077											
CUX2	23316	broad.mit.edu	37	chr12	111785560	111785560	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacaaggcccaagtgaggAtcaagcaggaacagatggag	16	3	15	7	0	1	2	1	1	0	1	1	6	1	6	1	5	2	1	1	5	4	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:111785560A>G	uc001tsa.1	+	22	4045	c.3892A>G	c.(3892-3894)ATC>GTC	p.I1298V		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	1298						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						CCAAGTGAGGATCAAGCAGGA	0.607													10	25					0	0	1	0	0		G	111785560	G	G	111785560	3	3	55	1	0	0	0	0	1	0	0	0	4068	333	12	3	3978	3	CUX2	12	111785560	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	428596	111785560	22066335	1044	40078											
FAM109A	144717	broad.mit.edu	37	chr12	111800988	111800988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcccgggtccccgcaaagcGcacagcgaaggcgaactcct	9	3	12	17	6	0	0	0	0	0	0	2	2	2	0	4	2	3	2	4	2	3	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:111800988G>A	uc001tsd.3	-	3	635	c.244C>T	c.(244-246)CGC>TGC	p.R82C	FAM109A_uc009zvu.2_Silent_p.C62C|FAM109A_uc001tsc.2_Missense_Mutation_p.R105C	NM_144671	NP_653272	Q8N4B1	SESQ1_HUMAN	hypothetical protein LOC144717	82	PH.				endosome organization|receptor recycling|retrograde transport, endosome to Golgi	clathrin-coated vesicle|early endosome|recycling endosome|trans-Golgi network	protein homodimerization activity				0						CCCGCAAAGCGCACAGCGAAG	0.682													7	21					0	0	1	0	0		A	111800988	A	A	111800988	3	1	55	1	0	0	0	0	1	0	0	0	5405	1087	38	1	509	1	FAM109A	12	111800988	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	15428	111800988	22050907	1045	40079											
NAA25	80018	broad.mit.edu	37	chr12	112485518	112485518	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttaagtctctgttgtctcGcaaatcttcccatggaatgt	9	16	7	9	1	3	0	0	0	3	0	6	1	4	1	1	1	0	2	1	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:112485518G>A	uc001ttm.2	-	17	1977	c.1957C>T	c.(1957-1959)CGA>TGA	p.R653*	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Nonsense_Mutation_p.R625*|NAA25_uc009zwa.1_Nonsense_Mutation_p.R653*	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	653						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						CTGTTGTCTCGCAAATCTTCC	0.353													51	117					0	0	1	0	0		A	112485518	A	A	112485518	4	1	55	1	0	0	0	0	0	1	0	0	10139	1095	38	1	993	1	NAA25	12	112485518	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	684530	112485518	21366377	1046	40080											
DTX1	1840	broad.mit.edu	37	chr12	113515382	113515382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctacgagaagcagcaccCgtggctcgacctctcatcgc	8	6	10	17	5	1	1	1	0	1	1	4	3	1	1	3	1	3	3	3	1	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:113515382C>T	uc001tuk.1	+	2	749	c.413C>T	c.(412-414)CCG>CTG	p.P138L		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	138	WWE 2.				negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						AAGCAGCACCCGTGGCTCGAC	0.502													8	32					0	0	1	0	0		T	113515382	T	T	113515382	3	4	55	1	0	0	0	0	1	0	0	0	4799	652	23	1	419	1	DTX1	12	113515382	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1029864	113515382	20336513	1047	40081											
KSR2	283455	broad.mit.edu	37	chr12	118199032	118199032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcggcggggtgcggaccGcgtgccgctgccggggcgat	2	5	21	13	9	0	0	0	0	0	0	0	2	0	1	3	6	4	1	3	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:118199032G>A	uc001two.2	-	4	738	c.683C>T	c.(682-684)GCG>GTG	p.A228V		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	257	Pro-rich.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GGTGCGGACCGCGTGCCGCTG	0.736													42	66					0	0	1	0	0		A	118199032	A	A	118199032	3	1	55	1	0	0	0	0	1	0	0	0	8598	1087	38	1	2150	1	KSR2	12	118199032	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	4683650	118199032	15652863	1048	40082											
CIT	11113	broad.mit.edu	37	chr12	120172994	120172994	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggtaagctgcatctctcGttccgtgatctcccggcgga	5	11	12	13	4	2	1	0	1	2	0	6	2	3	2	2	3	2	5	2	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:120172994G>A	uc001txi.1	-	24	3054	c.3001C>T	c.(3001-3003)CGA>TGA	p.R1001*	CIT_uc001txh.1_Nonsense_Mutation_p.R535*|CIT_uc001txj.1_Nonsense_Mutation_p.R1043*	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1001	Potential.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		TGCATCTCTCGTTCCGTGATC	0.512													41	67					0	0	1	0	0		A	120172994	A	A	120172994	4	1	55	1	0	0	0	0	0	1	0	0	3441	1153	40	1	3178	1	CIT	12	120172994	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1973962	120172994	13678901	1049	40083											
GCN1L1	10985	broad.mit.edu	37	chr12	120621397	120621397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttccagatgtctccttgtCgcttggctctcgatggaaag	6	14	11	10	2	2	1	0	0	2	1	6	3	3	2	2	2	0	3	2	2	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:120621397C>T	uc001txo.2	-	5	414	c.401G>A	c.(400-402)CGA>CAA	p.R134Q		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	134					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GTCTCCTTGTCGCTTGGCTCT	0.542													23	57					0	0	1	0	0		T	120621397	T	T	120621397	3	4	55	1	0	0	0	0	1	0	0	0	6314	884	31	1	7830	1	GCN1L1	12	120621397	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	448403	120621397	13230498	1050	40084											
CLIP1	6249	broad.mit.edu	37	chr12	122825691	122825691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttccatctctttagcatggGcagcccgttcagagtcttgt	6	14	9	12	1	3	1	1	0	2	1	5	1	4	1	2	1	2	3	2	1	1	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:122825691G>A	uc001ucg.1	-	10	2166	c.2060C>T	c.(2059-2061)GCC>GTC	p.A687V	CLIP1_uc001uch.1_Missense_Mutation_p.A676V|CLIP1_uc001uci.1_Missense_Mutation_p.A641V|CLIP1_uc001ucj.1_Missense_Mutation_p.A377V|CLIP1_uc009zxo.1_Missense_Mutation_p.A243V	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	687	Potential.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		TTTAGCATGGGCAGCCCGTTC	0.393													33	79					0	0	1	0	0		A	122825691	A	A	122825691	3	1	55	1	0	0	0	0	1	0	0	0	3535	1203	42	2	2320	2	CLIP1	12	122825691	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2204294	122825691	11026204	1051	40085											
HIP1R	9026	broad.mit.edu	37	chr12	123343608	123343608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acggtcctttctcaccccagGcctcatagacacctgcaggg	8	8	9	16	1	2	1	2	0	1	1	4	1	3	1	5	3	1	1	5	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:123343608G>A	uc001udj.1	+	22	2218	c.2159G>A	c.(2158-2160)CGC>CAC	p.R720H	HIP1R_uc001udk.1_5'UTR	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	720					receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		CTCACCCCAGGCCTCATAGAC	0.667													5	9					0	0	1	0	0		A	123343608	A	A	123343608	3	1	55	1	0	0	0	0	1	0	0	0	7131	1217	42	2	2245	2	HIP1R	12	123343608	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	517917	123343608	10508287	1052	40086											
PITPNM2	57605	broad.mit.edu	37	chr12	123485614	123485614	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgaccttgtgtgtcttcCggctctgggctctcgatctt	2	16	11	12	2	4	1	0	1	4	0	6	2	5	1	2	2	1	3	2	2	0	3	rs145437742	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:123485614C>T	uc001uej.1	-	8	1279	c.1140G>A	c.(1138-1140)CCG>CCA	p.P380P	PITPNM2_uc001uek.1_Silent_p.P380P|PITPNM2_uc009zxu.1_Silent_p.P380P	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	380					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)		GTGTGTCTTCCGGCTCTGGGC	0.597													10	30					0	0	1	0	0		T	123485614	T	T	123485614	2	4	55	1	0	0	0	0	0	0	0	1	11970	639	23	1		1	PITPNM2	12	123485614	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	142006	123485614	10366281	1053	40087											
MPHOSPH9	10198	broad.mit.edu	37	chr12	123651237	123651237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctccagctggttatccacGttactgtcctgggtgtccag	5	13	10	13	1	0	0	0	0	0	0	5	0	5	0	5	2	2	3	5	2	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:123651237G>A	uc001uel.2	-	13	2207	c.2100C>T	c.(2098-2100)AAC>AAT	p.N700N	MPHOSPH9_uc010tal.1_Silent_p.N154N|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Silent_p.N154N	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	700					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		GGTTATCCACGTTACTGTCCT	0.458													65	158					0	0	1	0	0		A	123651237	A	A	123651237	2	1	55	1	0	0	0	0	0	0	0	1	9746	1136	40	1		1	MPHOSPH9	12	123651237	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	165623	123651237	10200658	1054	40088											
ATP6V0A2	23545	broad.mit.edu	37	chr12	124229435	124229435	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctttttgttacagtgacagCgtcgttagacacaacagcat	11	12	9	9	2	0	2	0	1	0	1	1	2	0	2	0	0	4	4	0	0	3	4	rs142454880	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:124229435C>A	uc001ufr.2	+	13	1769	c.1521C>A	c.(1519-1521)AGC>AGA	p.S507R		NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	507	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		ACAGTGACAGCGTCGTTAGAC	0.527													7	39					0.000274275	0.000282831	1	1	0		A	124229435	A	A	124229435	3	1	55	1	0	0	0	0	1	0	0	0	1170	767	27	5	1571	5	ATP6V0A2	12	124229435	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	578198	124229435	9622460	1055	40089											
ATP6V0A2	23545	broad.mit.edu	37	chr12	124235765	124235765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaatgggcgtagttgcttcGgggtgaaccgggtaagtgcg	8	9	17	7	4	0	1	0	1	0	0	1	1	0	1	1	4	3	4	1	4	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:124235765G>A	uc001ufr.2	+	16	2292	c.2044G>A	c.(2044-2046)GGG>AGG	p.G682R		NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	682	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		TAGTTGCTTCGGGGTGAACCG	0.502													26	78					0	0	1	0	0		A	124235765	A	A	124235765	3	1	55	1	0	0	0	0	1	0	0	0	1170	1116	39	1	2106	1	ATP6V0A2	12	124235765	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6330	124235765	9616130	1056	40090											
DNAH10	196385	broad.mit.edu	37	chr12	124411254	124411254	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccacattcgcccattgtgTttatcctgagtcctggctcc	5	14	7	15	1	0	1	0	1	0	0	5	1	4	1	5	1	0	2	5	1	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:124411254T>C	uc001uft.3	+	68	11663	c.11638T>C	c.(11638-11640)TTT>CTT	p.F3880L	DNAH10_uc001ufu.3_5'UTR	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	3880	AAA 6 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GCCCATTGTGTTTATCCTGAG	0.468													9	34					0	0	1	0	0		C	124411254	C	C	124411254	3	2	55	1	0	0	0	0	1	0	0	0	4604	1725	60	3	11908	3	DNAH10	12	124411254	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	175489	124411254	9440641	1057	40091											
NCOR2	9612	broad.mit.edu	37	chr12	124846815	124846816	+	Frame_Shift_Ins	INS	-	G	G																															ggtgggagctgcgtcctcccINSgggggggctcatggactttg																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:124846815_124846816insG	uc010tba.1	-	22	3073_3074	c.2956_2957insC	c.(2956-2958)CGGfs	p.R986fs	NCOR2_uc010tay.1_Frame_Shift_Ins_p.R985fs|NCOR2_uc010taz.1_Frame_Shift_Ins_p.R969fs|NCOR2_uc010tbb.1_Frame_Shift_Ins_p.R986fs|NCOR2_uc010tbc.1_Frame_Shift_Ins_p.R968fs|NCOR2_uc001ugj.1_Frame_Shift_Ins_p.R986fs	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	986					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		TGCGTCCTCCCGGGGGGGCTCA	0.653													10	18	---	---	---	---						.	G	124846816	G	G	124846815	7	5	55	1	0	1	1	0	0	0	0	0	10255	652	23	0	4715	0	NCOR2	12	124846815	Frame_Shift_Ins	INS	-	TCGA-BR-7851-01A-11D-2201-08	435561	124846815	9005080	1058	40092											
SCARB1	949	broad.mit.edu	37	chr12	125298818	125298818	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttgttgatgagattcacaAgggggtccttgtagccccac	9	11	11	10	0	1	2	1	2	0	1	2	3	2	2	3	2	1	2	3	2	2	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:125298818A>G	uc001ugo.3	-	4	813	c.560T>C	c.(559-561)CTT>CCT	p.L187P	SCARB1_uc001ugn.3_Missense_Mutation_p.L187P|SCARB1_uc001ugm.3_Missense_Mutation_p.L187P|SCARB1_uc010tbd.1_Missense_Mutation_p.L187P|SCARB1_uc010tbe.1_Missense_Mutation_p.L146P|SCARB1_uc001ugp.3_Missense_Mutation_p.L187P	NM_005505	NP_005496	Q8WTV0	SCRB1_HUMAN	scavenger receptor class B, member 1 isoform 1	187	Extracellular (Potential).				adhesion to symbiont|cell adhesion|cholesterol efflux|cholesterol homeostasis|cholesterol import|detection of lipopolysaccharide|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|lipopolysaccharide transport|lipoprotein metabolic process|positive regulation of cholesterol storage|positive regulation of endothelial cell migration|positive regulation of nitric-oxide synthase activity|recognition of apoptotic cell|reverse cholesterol transport|triglyceride homeostasis|wound healing	caveola	1-phosphatidylinositol binding|apolipoprotein A-I binding|high-density lipoprotein particle receptor activity|lipopolysaccharide receptor activity|low-density lipoprotein particle binding|phosphatidylserine binding|transporter activity			kidney(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000116)|Epithelial(86;0.000415)|all cancers(50;0.00395)	Phosphatidylserine(DB00144)	GAGATTCACAAGGGGGTCCTT	0.517													6	66					0	0	1	0	0		G	125298818	G	G	125298818	3	3	55	1	0	0	0	0	1	0	0	0	13906	72	3	3	1129	3	SCARB1	12	125298818	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	452003	125298818	8553077	1059	40093											
FZD10	11211	broad.mit.edu	37	chr12	130648820	130648820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagctcatggtgcgtatcGggctcttctctgtgctgtac	6	13	12	10	2	3	1	1	0	2	1	5	1	3	1	0	2	4	5	0	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:130648820G>A	uc001uii.2	+	1	1789	c.1333G>A	c.(1333-1335)GGG>AGG	p.G445R	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	445	Helical; Name=6; (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		GGTGCGTATCGGGCTCTTCTC	0.587													10	28					0	0	1	0	0		A	130648820	A	A	130648820	3	1	55	1	0	0	0	0	1	0	0	0	6143	1116	39	1	1335	1	FZD10	12	130648820	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5350002	130648820	3203075	1060	40094											
GPR133	283383	broad.mit.edu	37	chr12	131488738	131488738	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttccaccgcagagttttcCgtggccaaaatcctgcccaa	9	9	7	16	2	0	1	0	0	0	1	3	1	3	1	7	1	1	2	7	1	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:131488738C>T	uc001uit.3	+	11	1711	c.1152C>T	c.(1150-1152)TCC>TCT	p.S384S	GPR133_uc010tbm.1_Silent_p.S416S	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	384	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		CAGAGTTTTCCGTGGCCAAAA	0.577													7	24					0	0	1	0	0		T	131488738	T	T	131488738	2	4	55	1	0	0	0	0	0	0	0	1	6658	639	23	1		1	GPR133	12	131488738	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	839918	131488738	2363157	1061	40095											
EP400	57634	broad.mit.edu	37	chr12	132539679	132539679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtgatcgtgaacaccatcGcaggggtcccagctgccacc	9	7	11	14	2	0	2	0	2	0	0	3	2	1	2	4	2	3	2	4	2	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr12:132539679G>A	uc001ujn.2	+	44	7845	c.7810G>A	c.(7810-7812)GCA>ACA	p.A2604T	EP400_uc001ujl.2_Missense_Mutation_p.A2603T|EP400_uc001ujm.2_Missense_Mutation_p.A2523T	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2640	Interaction with ZNF42 (By similarity).				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		GAACACCATCGCAGGGGTCCC	0.602													3	3					0	0	1	0	0		A	132539679	A	A	132539679	3	1	55	1	0	0	0	0	1	0	0	0	5157	1087	38	1	7981	1	EP400	12	132539679	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1050941	132539679	1312216	1062	40096											
MPHOSPH8	54737	broad.mit.edu	37	chr13	20237231	20237231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaggagcttttgtaaatGtccagcaaagcaatggtgag	14	9	12	6	0	0	1	0	1	0	0	1	2	1	2	1	2	4	5	1	2	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:20237231G>A	uc001umh.2	+	9	1993	c.1984G>A	c.(1984-1986)GTC>ATC	p.V662I	MPHOSPH8_uc001umg.2_Missense_Mutation_p.V662I	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	662	ANK 2.				cell cycle	cytoplasm|nucleus					0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		TTTTGTAAATGTCCAGCAAAG	0.398													4	102					0	0	1	0	0		A	20237231	A	A	20237231	3	1	55	1	0	0	0	0	1	0	0	0	9745	1377	48	4	2018	4	MPHOSPH8	13	20237231	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08		20237231	94932647	1063	40097											
ZMYM5	9205	broad.mit.edu	37	chr13	20426142	20426142	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatagattcaataaacacaAcatcatcatcatcatcatca	18	11	2	10	0	7	1	7	0	0	1	7	1	7	1	0	0	2	1	0	0	6	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:20426142A>T	uc010tcn.1	-	3	444	c.179T>A	c.(178-180)GTT>GAT	p.V60D	ZMYM5_uc001umm.1_Translation_Start_Site|ZMYM5_uc001umn.2_Missense_Mutation_p.V60D|ZMYM5_uc001umo.2_Missense_Mutation_p.V60D	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	60						nucleus	zinc ion binding				0		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		AATAAACACAAcatcatcatc	0.338													4	18					0	0	1	0	0		T	20426142	T	T	20426142	3	4	55	1	0	0	0	0	1	0	0	0	17728	43	2	5	1965	5	ZMYM5	13	20426142	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	188911	20426142	94743736	1064	40098											
ZMYM2	7750	broad.mit.edu	37	chr13	20608488	20608488	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaatactgtcaagaggagaAgactcttcatgaaacagtaa	17	8	9	7	1	3	4	2	1	1	3	3	6	3	4	0	1	2	1	0	1	6	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:20608488A>C	uc001umr.2	+	12	2361	c.2063A>C	c.(2062-2064)AAG>ACG	p.K688T	ZMYM2_uc001ums.2_Missense_Mutation_p.K688T|ZMYM2_uc001umt.2_Missense_Mutation_p.K688T|ZMYM2_uc010tco.1_RNA|ZMYM2_uc001umv.2_Missense_Mutation_p.K68T|ZMYM2_uc001umw.2_Missense_Mutation_p.K141T	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	688	MYM-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		CAAGAGGAGAAGACTCTTCAT	0.348													16	52					0	0	1	0	0		C	20608488	C	C	20608488	3	2	55	1	0	0	0	0	1	0	0	0	17725	72	3	5	2097	5	ZMYM2	13	20608488	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	182346	20608488	94561390	1065	40099											
XPO4	64328	broad.mit.edu	37	chr13	21429838	21429838	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcagtcaattgatttatcTaatgatcctctttttacaat	11	19	4	7	0	3	2	1	2	2	0	4	2	4	2	1	0	2	1	1	0	5	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:21429838T>C	uc001unq.3	-	4	420	c.384A>G	c.(382-384)TTA>TTG	p.L128L	XPO4_uc010tcr.1_Silent_p.L54L	NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	128					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		TTGATTTATCTAATGATCCTC	0.323													17	36					0	0	1	0	0		C	21429838	C	C	21429838	2	2	55	1	0	0	0	0	0	0	0	1	17472	1519	53	3		3	XPO4	13	21429838	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	821350	21429838	93740040	1066	40100											
LATS2	26524	broad.mit.edu	37	chr13	21557370	21557370	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttcagacaatacctttctgGtaatatttggaattgtgagt	11	16	8	6	0	2	2	1	1	1	1	2	3	2	3	1	2	1	1	1	2	5	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:21557370G>A	uc009zzs.2	-	5	2840	c.2475C>T	c.(2473-2475)TAC>TAT	p.Y825Y	LATS2_uc001unr.3_Silent_p.Y825Y	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	825	Protein kinase.				cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		TACCTTTCTGGTAATATTTGG	0.423													15	42					0	0	1	0	0		A	21557370	A	A	21557370	2	1	55	1	0	0	0	0	0	0	0	1	8663	1256	44	4		4	LATS2	13	21557370	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	127532	21557370	93612508	1067	40101											
LATS2	26524	broad.mit.edu	37	chr13	21557772	21557772	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcatggcgtacagggcGtgagtgtccaccttacaagc	8	10	12	11	2	2	1	1	1	1	0	3	1	3	1	2	2	3	1	2	2	3	3	rs146555029	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:21557772G>A	uc009zzs.2	-	5	2438	c.2073C>T	c.(2071-2073)CAC>CAT	p.H691H	LATS2_uc001unr.3_Silent_p.H691H	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	691	Protein kinase.|ATP (By similarity).				cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		CGTACAGGGCGTGAGTGTCCA	0.537													16	51					0	0	1	0	0		A	21557772	A	A	21557772	2	1	55	1	0	0	0	0	0	0	0	1	8663	1136	40	1		1	LATS2	13	21557772	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	402	21557772	93612106	1068	40102											
FGF9	2254	broad.mit.edu	37	chr13	22275388	22275388	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagaaaactggtataatacGtactcatcaaacctatataa	19	10	5	7	1	2	1	2	0	0	1	2	2	2	1	1	1	4	2	1	1	11	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:22275388G>A	uc001uog.2	+	3	1278	c.441G>A	c.(439-441)ACG>ACA	p.T147T		NM_002010	NP_002001	P31371	FGF9_HUMAN	fibroblast growth factor 9 precursor	147					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|male gonad development|positive regulation of cell division	extracellular space	growth factor activity|heparin binding				0		all_cancers(29;1.23e-20)|all_epithelial(30;9.83e-19)|all_lung(29;9.64e-17)|Lung SC(185;0.0262)|Breast(139;0.106)		all cancers(112;3.92e-05)|Epithelial(112;0.000166)|OV - Ovarian serous cystadenocarcinoma(117;0.00314)|Lung(94;0.163)		GGTATAATACGTACTCATCAA	0.348													13	20					0	0	1	0	0		A	22275388	A	A	22275388	2	1	55	1	0	0	0	0	0	0	0	1	5873	1132	40	1		1	FGF9	13	22275388	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	717616	22275388	92894490	1069	40103											
GPR12	2835	broad.mit.edu	37	chr13	27333685	27333685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attggtgatgagtccaatgcCggccagcaggtctgcaagag	10	8	14	9	1	1	3	0	2	1	1	2	3	2	3	3	3	3	2	3	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:27333685C>T	uc010aal.2	-	2	502	c.280G>A	c.(280-282)GGC>AGC	p.G94S	GPR12_uc010tdl.1_Intron	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	94	Helical; Name=2; (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		AGTCCAATGCCGGCCAGCAGG	0.532													19	54					0	0	1	0	0		T	27333685	T	T	27333685	3	4	55	1	0	0	0	0	1	0	0	0	6650	652	23	1	728	1	GPR12	13	27333685	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5058297	27333685	87836193	1070	40104											
GSX1	219409	broad.mit.edu	37	chr13	28367781	28367781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgctagagctggagcGcgagttcgcttctaatatgt	8	11	13	9	3	1	1	0	0	1	1	2	3	1	2	0	1	4	6	0	1	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:28367781G>A	uc001urr.1	+	2	539	c.491G>A	c.(490-492)CGC>CAC	p.R164H		NM_145657	NP_663632	Q9H4S2	GSX1_HUMAN	GS homeobox 1	164	Homeobox.				positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung SC(185;0.0161)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0402)|all cancers(112;0.0404)|OV - Ovarian serous cystadenocarcinoma(117;0.197)		GAGCTGGAGCGCGAGTTCGCT	0.567													22	41					0	0	1	0	0		A	28367781	A	A	28367781	3	1	55	1	0	0	0	0	1	0	0	0	6865	1087	38	1	497	1	GSX1	13	28367781	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1034096	28367781	86802097	1071	40105											
B3GALTL	145173	broad.mit.edu	37	chr13	31897940	31897940	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcgccagtaaatgtcgaTgctacagcaatgatgctccc	10	11	8	12	2	1	1	0	1	1	0	4	2	2	1	2	0	4	4	2	0	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:31897940T>C	uc010aaz.2	+	14	1347	c.1237T>C	c.(1237-1239)TGC>CGC	p.C413R	B3GALTL_uc001utn.3_RNA|B3GALTL_uc001uto.3_Missense_Mutation_p.C18R	NM_194318	NP_919299	Q6Y288	B3GLT_HUMAN	beta 1,3-galactosyltransferase-like	413	Lumenal (Potential).				fucose metabolic process	endoplasmic reticulum membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2		Lung SC(185;0.0257)		all cancers(112;0.00436)|Epithelial(112;0.0285)|OV - Ovarian serous cystadenocarcinoma(117;0.0512)|GBM - Glioblastoma multiforme(144;0.184)		TAAATGTCGATGCTACAGCAA	0.517													78	164					0	0	1	0	0		C	31897940	C	C	31897940	3	2	55	1	0	0	0	0	1	0	0	0	1253	1464	51	3	1291	3	B3GALTL	13	31897940	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	3530159	31897940	83271938	1072	40106											
DCLK1	9201	broad.mit.edu	37	chr13	36699914	36699914	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcaccttccaccagttggtCcaggctggaaatcttcttga	8	12	8	13	0	3	1	1	1	2	0	5	2	5	2	4	3	0	2	4	3	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:36699914C>A	uc001uvf.2	-	2	594	c.361G>T	c.(361-363)GAC>TAC	p.D121Y		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	121	Doublecortin 1.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		ACCAGTTGGTCCAGGCTGGAA	0.527													6	39					1.06961e-07	1.14127e-07	1	1	0		A	36699914	A	A	36699914	3	1	55	1	0	0	0	0	1	0	0	0	4294	855	30	5	1896	5	DCLK1	13	36699914	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4801974	36699914	78469964	1073	40107											
DGKH	160851	broad.mit.edu	37	chr13	42784857	42784857	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggcaacagaagaggtgtcGcagatgcagctatgctccca	11	8	12	10	1	0	3	0	0	0	3	2	3	1	3	1	2	4	5	1	2	3	2	rs142298264		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:42784857G>A	uc001uyl.1	+	24	2991	c.2970G>A	c.(2968-2970)TCG>TCA	p.S990S	DGKH_uc010tfh.1_Silent_p.S990S|DGKH_uc001uym.1_Silent_p.S990S|DGKH_uc010tfi.1_Silent_p.S745S|DGKH_uc010tfj.1_Silent_p.S845S|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Silent_p.S845S|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	990					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		AAGAGGTGTCGCAGATGCAGC	0.493													16	40					0	0	1	0	0		A	42784857	A	A	42784857	2	1	55	1	0	0	0	0	0	0	0	1	4476	1074	38	1		1	DGKH	13	42784857	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6084943	42784857	72385021	1074	40108											
AKAP11	11215	broad.mit.edu	37	chr13	42874000	42874000	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaactttagagacttgccTgtttaacaaagatcccgtca	14	11	6	10	1	1	2	1	0	0	2	2	3	2	2	2	0	3	1	2	0	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:42874000T>C	uc001uys.1	+	8	1293	c.1118T>C	c.(1117-1119)CTG>CCG	p.L373P		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	373					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		GAGACTTGCCTGTTTAACAAA	0.368													11	28					0	0	1	0	0		C	42874000	C	C	42874000	3	2	55	1	0	0	0	0	1	0	0	0	447	1580	55	3	1140	3	AKAP11	13	42874000	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	89143	42874000	72295878	1075	40109											
SIAH3	283514	broad.mit.edu	37	chr13	46425658	46425658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgtggggttgacgacaCagacaagttgcccggcagcg	8	8	16	9	3	0	2	0	1	0	1	0	3	0	2	1	3	2	3	1	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:46425658C>T	uc001vap.2	-	1	189	c.107G>A	c.(106-108)TGT>TAT	p.C36Y		NM_198849	NP_942146	Q8IW03	SIAH3_HUMAN	seven in absentia homolog 3	36					multicellular organismal development|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding			ovary(1)|skin(1)	2						GTTGACGACACAGACAAGTTG	0.522													7	82					0	0	1	0	0		T	46425658	T	T	46425658	3	4	55	1	0	0	0	0	1	0	0	0	14326	478	17	4	710	4	SIAH3	13	46425658	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3551658	46425658	68744220	1076	40110											
ZC3H13	23091	broad.mit.edu	37	chr13	46577381	46577381	+	Frame_Shift_Del	DEL	T	-	-																															actttatatttttctttgtaTtttttccccagagcgatatc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:46577381delT	uc010tfw.1	-	7	843	c.837delA	c.(835-837)AAAfs	p.K279fs	ZC3H13_uc001vas.1_Frame_Shift_Del_p.K279fs|ZC3H13_uc001vat.1_Frame_Shift_Del_p.K279fs	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	279							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		TTTCTTTGTATTTTTTCCCCA	0.373													17	37	---	---	---	---						.	-	46577381	-	-	46577381	7	5	55	1	0	1	0	1	0	0	0	0	17590	1490	52	0	3897	0	ZC3H13	13	46577381	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	151723	46577381	68592497	1077	40111											
MLNR	2862	broad.mit.edu	37	chr13	49795007	49795007	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttcttgttcctggtgggCgtcgagcaggaccccggcat	4	10	13	14	3	1	0	0	0	1	0	3	2	2	1	4	4	1	3	4	4	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:49795007C>T	uc010tgj.1	+	1	534	c.534C>T	c.(532-534)GGC>GGT	p.G178G		NM_001507	NP_001498	O43193	MTLR_HUMAN	motilin receptor	178	Helical; Name=4; (Potential).				digestion	integral to plasma membrane	growth hormone-releasing hormone receptor activity				0		all_lung(13;8.31e-06)|Lung NSC(96;0.000251)|Breast(56;0.0008)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;6.1e-09)		TCCTGGTGGGCGTCGAGCAGG	0.726													5	5					0	0	1	0	0		T	49795007	T	T	49795007	2	4	55	1	0	0	0	0	0	0	0	1	9650	755	27	1		1	MLNR	13	49795007	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3217626	49795007	65374871	1078	40112											
RCBTB1	55213	broad.mit.edu	37	chr13	50115828	50115828	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacctatagcatcttctggCggcaggtcgactgtgtctgt	6	13	12	10	2	3	0	0	0	3	0	4	1	3	0	1	3	2	3	1	3	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:50115828C>T	uc001vde.1	-	11	1569	c.1308G>A	c.(1306-1308)CCG>CCA	p.P436P		NM_018191	NP_060661	Q8NDN9	RCBT1_HUMAN	regulator of chromosome condensation (RCC1) and	436	BTB 1.				cell cycle|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(1)	1		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)		CATCTTCTGGCGGCAGGTCGA	0.453													4	86					0	0	1	0	0		T	50115828	T	T	50115828	2	4	55	1	0	0	0	0	0	0	0	1	13196	755	27	1		1	RCBTB1	13	50115828	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	320821	50115828	65054050	1079	40113											
CKAP2	26586	broad.mit.edu	37	chr13	53049228	53049228	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgatgcttttgtatgccgCcctaatgcagcactgtgccg	7	12	10	12	2	0	1	0	1	0	0	0	1	0	1	3	0	5	4	3	0	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:53049228C>T	uc001vgv.2	+	9	2201	c.2004C>T	c.(2002-2004)CGC>CGT	p.R668R	CKAP2_uc001vgu.2_Silent_p.R667R|CKAP2_uc010tha.1_Silent_p.R619R	NM_001098525	NP_001091995	Q8WWK9	CKAP2_HUMAN	cytoskeleton associated protein 2 isoform 2	668					apoptosis|cell cycle	centrosome|microtubule|spindle pole				ovary(1)|skin(1)	2		Breast(56;0.000207)|Lung NSC(96;0.00212)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.6e-08)		TTGTATGCCGCCCTAATGCAG	0.408													4	110					0	0	1	0	0		T	53049228	T	T	53049228	2	4	55	1	0	0	0	0	0	0	0	1	3445	726	26	2		2	CKAP2	13	53049228	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2933400	53049228	62120650	1080	40114											
PCDH17	27253	broad.mit.edu	37	chr13	58208617	58208617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgtccagcggcgagatccGcacgctgcaccctttctggg	5	7	12	17	5	1	1	0	0	1	1	3	2	3	1	4	2	2	3	4	2	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:58208617G>A	uc001vhq.1	+	1	2829	c.1937G>A	c.(1936-1938)CGC>CAC	p.R646H	PCDH17_uc010aec.1_Missense_Mutation_p.R646H	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	646	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GGCGAGATCCGCACGCTGCAC	0.647													45	125					0	0	1	0	0		A	58208617	A	A	58208617	3	1	55	1	0	0	0	0	1	0	0	0	11531	1087	38	1	1939	1	PCDH17	13	58208617	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5159389	58208617	56961261	1081	40115											
KLF12	11278	broad.mit.edu	37	chr13	74420073	74420073	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccgactgtaccaccacGgggatgcggtgaacatgact	10	6	13	12	3	0	2	0	2	0	0	0	4	0	3	3	4	3	2	3	4	2	1	rs150481048	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:74420073G>A	uc001vjf.2	-	4	783	c.561C>T	c.(559-561)CCC>CCT	p.P187P	KLF12_uc010aeq.2_Silent_p.P187P|KLF12_uc001vjg.3_Silent_p.P187P	NM_007249	NP_009180	Q9Y4X4	KLF12_HUMAN	Kruppel-like factor 12	187					negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Prostate(6;0.00217)|Breast(118;0.0838)		GBM - Glioblastoma multiforme(99;0.00677)		GTACCACCACGGGGATGCGGT	0.507													5	80					0	0	1	0	0		A	74420073	A	A	74420073	2	1	55	1	0	0	0	0	0	0	0	1	8356	1103	39	1		1	KLF12	13	74420073	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	16211456	74420073	40749805	1082	40116											
MYCBP2	23077	broad.mit.edu	37	chr13	77720321	77720321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggagttggtgatgcaaaaCgtagttcttcaaatgaataa	15	12	10	4	1	2	2	1	2	1	0	2	3	2	3	0	2	2	4	0	2	7	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:77720321C>T	uc001vkf.2	-	49	7140	c.7049G>A	c.(7048-7050)CGT>CAT	p.R2350H	MYCBP2_uc010aev.2_Missense_Mutation_p.R1754H	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2350	Filamin.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TGATGCAAAACGTAGTTCTTC	0.323													9	46					0	0	1	0	0		T	77720321	T	T	77720321	3	4	55	1	0	0	0	0	1	0	0	0	10036	536	19	1	7017	1	MYCBP2	13	77720321	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3300248	77720321	37449557	1083	40117											
SLITRK5	26050	broad.mit.edu	37	chr13	88327910	88327910	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctaccacctcttgttgtcCggaaaccttttgaaccgtct	8	14	6	13	2	3	1	0	1	3	0	4	2	4	2	5	1	3	1	5	1	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:88327910C>T	uc001vln.2	+	2	486	c.267C>T	c.(265-267)TCC>TCT	p.S89S	SLITRK5_uc010tic.1_Intron	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	89	LRR 1.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					TCTTGTTGTCCGGAAACCTTT	0.458													30	112					0	0	1	0	0		T	88327910	T	T	88327910	2	4	55	1	0	0	0	0	0	0	0	1	14771	639	23	1		1	SLITRK5	13	88327910	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	10607589	88327910	26841968	1084	40118											
GPC5	2262	broad.mit.edu	37	chr13	92346050	92346050	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgcatggaacatacgacaTtggacacgtgctgctgaact	13	9	10	9	2	0	1	0	1	0	0	0	4	0	3	0	2	6	3	0	2	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:92346050T>C	uc010tif.1	+	3	1301	c.935T>C	c.(934-936)ATT>ACT	p.I312T		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	312						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				ACATACGACATTGGACACGTG	0.488													25	80					0	0	1	0	0		C	92346050	C	C	92346050	3	2	55	1	0	0	0	0	1	0	0	0	6616	1493	52	3	945	3	GPC5	13	92346050	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	4018140	92346050	22823828	1085	40119											
GPC6	10082	broad.mit.edu	37	chr13	93879765	93879765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggggctgctgctctcccTccccgccggggcggatgtga	2	9	15	15	3	1	1	0	1	1	0	3	2	2	2	4	5	2	3	4	5	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:93879765T>C	uc001vlt.2	+	1	688	c.56T>C	c.(55-57)CTC>CCC	p.L19P	GPC6_uc010tig.1_Missense_Mutation_p.L19P	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	19						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				CTGCTCTCCCTCCCCGCCGGG	0.642											OREG0022460	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	47					0	0	1	0	0		C	93879765	C	C	93879765	3	2	55	1	0	0	0	0	1	0	0	0	6617	1551	54	3	58	3	GPC6	13	93879765	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1533715	93879765	21290113	1086	40120											
HS6ST3	266722	broad.mit.edu	37	chr13	97485156	97485156	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcaacctcaagttcatcTcccccttcacacagttcaac	11	11	2	17	0	6	0	5	0	1	0	7	0	6	0	3	0	2	2	3	0	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:97485156T>C	uc001vmw.2	+	2	1144	c.1120T>C	c.(1120-1122)TCC>CCC	p.S374P		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	374	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					CAAGTTCATCTCCCCCTTCAC	0.493													20	58					0	0	1	0	0		C	97485156	C	C	97485156	3	2	55	1	0	0	0	0	1	0	0	0	7388	1551	54	3	1126	3	HS6ST3	13	97485156	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	3605391	97485156	17684722	1087	40121											
RAP2A	5911	broad.mit.edu	37	chr13	98086825	98086825	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcatcgagaaatacgaccCcaccatcgaggacttctacc	12	8	6	15	3	2	1	1	0	1	1	4	5	2	2	4	1	2	0	4	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:98086825C>A	uc001vnd.2	+	1	351	c.101C>A	c.(100-102)CCC>CAC	p.P34H		NM_021033	NP_066361	P10114	RAP2A_HUMAN	RAP2A, member of RAS oncogene family precursor	34	Effector region (Probable).				actin cytoskeleton reorganization|cellular protein localization|establishment of protein localization|positive regulation of protein autophosphorylation|Rap protein signal transduction|regulation of dendrite morphogenesis|regulation of JNK cascade	recycling endosome membrane	GTP binding|GTPase activity|protein binding			central_nervous_system(1)	1	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.166)			AAATACGACCCCACCATCGAG	0.622													7	126					0.00307968	0.00314429	1	1	0		A	98086825	A	A	98086825	3	1	55	1	0	0	0	0	1	0	0	0	13065	623	22	5	103	5	RAP2A	13	98086825	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	601669	98086825	17083053	1088	40122											
TM9SF2	9375	broad.mit.edu	37	chr13	100191700	100191700	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaaatgtttcttcccacagCttcaaacatacccatataga	15	11	3	12	0	2	1	1	0	1	1	3	1	3	1	2	0	3	2	2	0	6	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:100191700C>A	uc001voj.1	+	7	850	c.717C>A	c.(715-717)AGC>AGA	p.S239R	TM9SF2_uc010afz.1_Intron	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor	239	Lumenal (Potential).				transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)					CTTCCCACAGCTTCAAACATA	0.383													5	104					1.06961e-07	1.14127e-07	1	1	0		A	100191700	A	A	100191700	3	1	55	1	0	0	0	0	1	0	0	0	16003	811	28	5	743	5	TM9SF2	13	100191700	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2104875	100191700	14978178	1089	40123											
NALCN	259232	broad.mit.edu	37	chr13	102029117	102029117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acatctgaactcctaaaattCcataaagaagtagaaagaaa	21	8	5	7	0	1	4	0	1	1	3	3	4	3	4	2	0	1	1	2	0	9	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:102029117C>T	uc001vox.1	-	6	767	c.578G>A	c.(577-579)GGA>GAA	p.G193E	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Missense_Mutation_p.G193E|NALCN_uc001vpa.2_Missense_Mutation_p.G193E	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	193	Helical; Name=S5 of repeat I; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TCCTAAAATTCCATAAAGAAG	0.323													29	66					0	0	1	0	0		T	102029117	T	T	102029117	3	4	55	1	0	0	0	0	1	0	0	0	10166	855	30	4	4794	4	NALCN	13	102029117	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1837417	102029117	13140761	1090	40124											
NALCN	259232	broad.mit.edu	37	chr13	102047697	102047697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctgatgatggcacagatgCgcagcaaagagtgaacccac	13	5	12	11	2	0	5	0	3	0	2	0	5	0	5	1	1	3	4	1	1	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:102047697C>T	uc001vox.1	-	3	317	c.128G>A	c.(127-129)CGC>CAC	p.R43H	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Missense_Mutation_p.R43H|NALCN_uc001vpa.2_Missense_Mutation_p.R43H	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	43	Helical; Name=S1 of repeat I; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GGCACAGATGCGCAGCAAAGA	0.433													13	41					0	0	1	0	0		T	102047697	T	T	102047697	3	4	55	1	0	0	0	0	1	0	0	0	10166	768	27	1	5256	1	NALCN	13	102047697	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	18580	102047697	13122181	1091	40125											
ERCC5	2073	broad.mit.edu	37	chr13	103528225	103528225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagaaggaaactaagacGtgcgaggggaagaaaaagga	21	2	15	3	2	0	3	0	0	0	3	0	8	0	6	0	4	2	0	0	4	8	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:103528225G>A	uc001vpw.2	+	15	3976	c.3533G>A	c.(3532-3534)CGT>CAT	p.R1178H		NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	1178					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AAACTAAGACGTGCGAGGGGA	0.398			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				5	14					0	0	1	0	0		A	103528225	A	A	103528225	3	1	55	1	0	0	0	0	1	0	0	0	5224	1145	40	1	3591	1	ERCC5	13	103528225	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1480528	103528225	11641653	1092	40126											
COL4A1	1282	broad.mit.edu	37	chr13	110839513	110839513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttggggccaggaagacccGgatggccatctcttccagga	8	7	13	13	1	1	1	0	0	1	1	3	4	2	4	5	6	0	0	5	6	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:110839513G>A	uc001vqw.3	-	25	1822	c.1700C>T	c.(1699-1701)CCG>CTG	p.P567L	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	567	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			AGGAAGACCCGGATGGCCATC	0.517													34	92					0	0	1	0	0		A	110839513	A	A	110839513	3	1	55	1	0	0	0	0	1	0	0	0	3692	1116	39	1	3421	1	COL4A1	13	110839513	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	7311288	110839513	4330365	1093	40127											
CARKD	55739	broad.mit.edu	37	chr13	111289536	111289536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggcaaggggacctcctgtCgggctccctgggcgtcctgg	4	7	17	13	2	0	0	0	0	0	0	4	1	3	1	4	6	0	2	4	6	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:111289536C>T	uc001vrb.2	+	9	847	c.833C>T	c.(832-834)TCG>TTG	p.S278L	CARKD_uc010tjj.1_Missense_Mutation_p.S260L|CARKD_uc001vqz.2_RNA|CARKD_uc001vra.2_RNA|CARKD_uc010tjk.1_Missense_Mutation_p.S168L|CARKD_uc010tjl.1_Missense_Mutation_p.S147L|CARKD_uc001vrc.2_Missense_Mutation_p.S278L			Q8IW45	CARKD_HUMAN	RecName: Full=Carbohydrate kinase domain-containing protein; Flags: Precursor;	278	YjeF C-terminal.									skin(1)	1						GACCTCCTGTCGGGCTCCCTG	0.582													7	10					0	0	1	0	0		T	111289536	T	T	111289536	3	4	55	1	0	0	0	0	1	0	0	0	2657	893	31	1	867	1	CARKD	13	111289536	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	450023	111289536	3880342	1094	40128											
MCF2L	23263	broad.mit.edu	37	chr13	113730324	113730324	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttacctgctggcctcacaAcctgtggacaagtgccagtc	9	10	9	13	0	1	0	1	0	0	0	2	1	1	1	4	2	4	1	4	2	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:113730324A>G	uc001vsu.2	+	12	1546	c.1524A>G	c.(1522-1524)CAA>CAG	p.Q508Q	MCF2L_uc001vsq.2_Silent_p.Q508Q|MCF2L_uc010tjr.1_Silent_p.Q451Q|MCF2L_uc001vsr.2_Silent_p.Q455Q|MCF2L_uc001vss.3_Silent_p.Q449Q|MCF2L_uc010tjs.1_Silent_p.Q449Q|MCF2L_uc001vst.1_Silent_p.Q413Q	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	481					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				TGGCCTCACAACCTGTGGACA	0.572													4	28					0	0	1	0	0		G	113730324	G	G	113730324	2	3	55	1	0	0	0	0	0	0	0	1	9397	40	2	3		3	MCF2L	13	113730324	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2440788	113730324	1439554	1095	40129											
F10	2159	broad.mit.edu	37	chr13	113793763	113793763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacctgtttagaaggattcGaaggcaaaaactgtgaatta	15	10	10	6	1	0	2	0	1	0	1	1	4	0	3	1	2	1	3	1	2	7	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:113793763G>A	uc001vsx.2	+	4	406	c.349G>A	c.(349-351)GAA>AAA	p.E117K	F10_uc010agq.1_RNA|F10_uc001vsy.2_Missense_Mutation_p.E117K|F10_uc001vsz.2_Missense_Mutation_p.E117K	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	117	EGF-like 1; calcium-binding (Potential).				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGAAGGATTCGAAGGCAAAAA	0.512													10	21					0	0	1	0	0		A	113793763	A	A	113793763	3	1	55	1	0	0	0	0	1	0	0	0	5344	1059	37	1	363	1	F10	13	113793763	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	63439	113793763	1376115	1096	40130											
LAMP1	3916	broad.mit.edu	37	chr13	113973833	113973833	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaccacagcgccccctgcGccacccagcccctcgccctc	6	3	6	26	3	0	0	0	0	0	0	2	0	0	0	9	0	4	0	9	0	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr13:113973833G>A	uc001vtm.1	+	5	893	c.612G>A	c.(610-612)GCG>GCA	p.A204A	LAMP1_uc010tka.1_Silent_p.A151A	NM_005561	NP_005552	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	204	Hinge.|Lumenal (Potential).					endosome membrane|integral to plasma membrane|lysosomal membrane|membrane fraction				central_nervous_system(2)	2	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			CGCCCCCTGCGCCACCCAGCC	0.637													9	31					0	0	1	0	0		A	113973833	A	A	113973833	2	1	55	1	0	0	0	0	0	0	0	1	8633	1074	38	1		1	LAMP1	13	113973833	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	180070	113973833	1196045	1097	40131											
OR4K15	81127	broad.mit.edu	37	chr14	20444274	20444274	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggtcctaataaggtagaCagttttttctgtgaccttcc	8	16	9	8	0	1	2	0	1	1	1	3	2	3	2	3	2	0	2	3	2	3	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:20444274C>T	uc010tkx.1	+	1	597	c.597C>T	c.(595-597)GAC>GAT	p.D199D		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	199	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATAAGGTAGACAGTTTTTTCT	0.423													5	127					0	0	1	0	0		T	20444274	T	T	20444274	2	4	55	1	0	0	0	0	0	0	0	1	11089	477	17	4		4	OR4K15	14	20444274	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08		20444274	86905266	1098	40132											
OR11G2	390439	broad.mit.edu	37	chr14	20665777	20665777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggatcagagactccacGcccccatgtacatcctgctc	9	8	8	16	1	1	1	1	0	0	1	4	3	3	2	4	1	2	2	4	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:20665777G>A	uc010tlb.1	+	1	283	c.283G>A	c.(283-285)GCC>ACC	p.A95T		NM_001005503	NP_001005503	Q8NGC1	O11G2_HUMAN	olfactory receptor, family 11, subfamily G,	95	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.76e-07)|all cancers(55;5.61e-06)	GBM - Glioblastoma multiforme(265;0.0144)		GAGACTCCACGCCCCCATGTA	0.527													30	62					0	0	1	0	0		A	20665777	A	A	20665777	3	1	55	1	0	0	0	0	1	0	0	0	10944	1087	38	1	285	1	OR11G2	14	20665777	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	221503	20665777	86683763	1099	40133											
TTC5	91875	broad.mit.edu	37	chr14	20763608	20763608	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccagaggctgactgatagtgCccatcactgcaagggcctag	10	7	12	12	0	1	3	1	2	0	1	1	3	1	3	3	2	2	2	3	2	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:20763608C>T	uc001vwt.2	-	8	978	c.921G>A	c.(919-921)GGG>GGA	p.G307G	TTC5_uc001vwu.2_Silent_p.G164G	NM_138376	NP_612385	Q8N0Z6	TTC5_HUMAN	tetratricopeptide repeat domain 5	307					DNA repair	cytoplasm|nucleus	binding			ovary(1)	1	all_cancers(95;0.00092)		Epithelial(56;1.1e-06)|all cancers(55;8.07e-06)	GBM - Glioblastoma multiforme(265;0.0106)		ACTGATAGTGCCCATCACTGC	0.567													5	27					0	0	1	0	0		T	20763608	T	T	20763608	2	4	55	1	0	0	0	0	0	0	0	1	16737	726	26	2		2	TTC5	14	20763608	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	97831	20763608	86585932	1100	40134											
TEP1	7011	broad.mit.edu	37	chr14	20864060	20864060	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagggcatcaatggcatcatGggcgttaagaaatctgaatg	13	9	13	6	1	3	2	2	1	1	1	3	3	3	2	0	3	0	3	0	3	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:20864060G>T	uc001vxe.2	-	11	1748	c.1708C>A	c.(1708-1710)CAT>AAT	p.H570N	TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.H462N	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	570	TROVE.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		ATGGCATCATGGGCGTTAAGA	0.502													24	60					7.38237e-10	7.94954e-10	1	1	0		T	20864060	T	T	20864060	3	4	55	1	0	0	0	0	1	0	0	0	15784	1348	47	5	6355	5	TEP1	14	20864060	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	100452	20864060	86485480	1101	40135											
OSGEP	55644	broad.mit.edu	37	chr14	20916116	20916116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccacaatgtgccatggctCgctctgtgatctctaccagc	8	10	9	14	1	2	1	0	1	2	0	4	1	2	1	3	1	4	2	3	1	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:20916116C>T	uc001vxf.2	-	8	1096	c.740G>A	c.(739-741)CGA>CAA	p.R247Q		NM_017807	NP_060277	Q9NPF4	OSGEP_HUMAN	O-sialoglycoprotein endopeptidase	247					proteolysis|tRNA processing		metal ion binding|metalloendopeptidase activity|protein binding				0	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;1.09e-07)|all cancers(55;1.19e-06)	GBM - Glioblastoma multiforme(265;0.0231)|READ - Rectum adenocarcinoma(17;0.196)		TGCCATGGCTCGCTCTGTGAT	0.458													31	59					0	0	1	0	0		T	20916116	T	T	20916116	3	4	55	1	0	0	0	0	1	0	0	0	11306	884	31	1	283	1	OSGEP	14	20916116	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	52056	20916116	86433424	1102	40136											
PSMB11	122706	broad.mit.edu	37	chr14	23511563	23511563	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accttcctgcagatccatggCcccagactggcccacggcac	8	6	9	18	1	0	2	0	0	0	2	2	2	2	2	6	3	1	2	6	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:23511563C>T	uc010ake.1	+	1	188	c.129C>T	c.(127-129)GGC>GGT	p.G43G		NM_001099780	NP_001093250	A5LHX3	PSB11_HUMAN	proteasome beta 11 subunit precursor	43					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00643)		AGATCCATGGCCCCAGACTGG	0.647													5	91					0	0	1	0	0		T	23511563	T	T	23511563	2	4	55	1	0	0	0	0	0	0	0	1	12698	726	26	2		2	PSMB11	14	23511563	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2595447	23511563	83837977	1103	40137											
ACIN1	22985	broad.mit.edu	37	chr14	23564354	23564354	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgggtccgtcccgacggCttcgggcatcttcggtaatt	5	11	12	13	6	1	0	0	0	1	0	6	1	3	0	2	4	0	3	2	4	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:23564354C>A	uc001wit.3	-	1	470	c.142G>T	c.(142-144)GCC>TCC	p.A48S	ACIN1_uc010akg.2_Missense_Mutation_p.A48S|ACIN1_uc010tnj.1_Missense_Mutation_p.A48S|C14orf119_uc001wiu.2_5'Flank	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	48					apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		GTCCCGACGGCTTCGGGCATC	0.617													11	30					0.000151284	0.000156742	1	1	0		A	23564354	A	A	23564354	3	1	55	1	0	0	0	0	1	0	0	0	142	797	28	5	4106	5	ACIN1	14	23564354	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	52791	23564354	83785186	1104	40138											
MYH6	4624	broad.mit.edu	37	chr14	23854244	23854244	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttctggttgatgaggcTggtgttctagacatggagag	7	14	14	6	0	3	4	0	2	3	2	3	5	3	4	0	4	0	3	0	4	1	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:23854244T>C	uc001wjv.2	-	35	5237	c.5170A>G	c.(5170-5172)AGC>GGC	p.S1724G		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1724	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TTGATGAGGCTGGTGTTCTAG	0.458													19	43					0	0	1	0	0		C	23854244	C	C	23854244	3	2	55	1	0	0	0	0	1	0	0	0	10056	1580	55	3	669	3	MYH6	14	23854244	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	289890	23854244	83495296	1105	40139											
MYH6	4624	broad.mit.edu	37	chr14	23869968	23869968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcctatgaagtactggcGtggctgcttggtctccaggg	6	11	14	10	1	1	1	0	1	1	0	3	2	2	1	2	4	2	3	2	4	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:23869968G>A	uc001wjv.2	-	13	1427	c.1360C>T	c.(1360-1362)CGC>TGC	p.R454C	MYH6_uc010akp.1_Missense_Mutation_p.R454C	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	454	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		AAGTACTGGCGTGGCTGCTTG	0.552													18	46					0	0	1	0	0		A	23869968	A	A	23869968	3	1	55	1	0	0	0	0	1	0	0	0	10056	1145	40	1	4567	1	MYH6	14	23869968	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	15724	23869968	83479572	1106	40140											
LRRC16B	90668	broad.mit.edu	37	chr14	24525593	24525593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctgtcccacaaccccatcGaggacaagggtgagccccag	10	5	10	16	1	1	1	0	1	1	0	3	3	2	2	5	2	2	0	5	2	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:24525593G>A	uc001wlj.2	+	11	1013	c.856G>A	c.(856-858)GAG>AAG	p.E286K		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	286	LRR 2.									ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		CAACCCCATCGAGGACAAGGG	0.617													7	14					0	0	1	0	0		A	24525593	A	A	24525593	3	1	55	1	0	0	0	0	1	0	0	0	8990	1059	37	1	898	1	LRRC16B	14	24525593	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	655625	24525593	82823947	1107	40141											
SDR39U1	56948	broad.mit.edu	37	chr14	24909407	24909407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcatgatggcacgctgtCgcccaaagacagcttgcacc	10	6	11	14	2	0	2	0	1	0	1	1	2	0	2	2	1	3	6	2	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:24909407C>T	uc001wpm.2	-	6	796	c.764G>A	c.(763-765)CGA>CAA	p.R255Q	KHNYN_uc010tpc.1_3'UTR|KHNYN_uc001wph.3_3'UTR|KHNYN_uc010alw.2_3'UTR|SDR39U1_uc001wpi.2_Missense_Mutation_p.R147Q|SDR39U1_uc001wpj.2_Missense_Mutation_p.R173Q|SDR39U1_uc001wpk.2_Missense_Mutation_p.R147Q|SDR39U1_uc001wpl.2_Missense_Mutation_p.R200Q|SDR39U1_uc001wpn.2_Missense_Mutation_p.R130Q|uc001wpo.1_5'Flank	NM_020195	NP_064580	Q9NRG7	D39U1_HUMAN	short chain dehydrogenase/reductase family 39U,	281							binding			pancreas(1)	1						GGCACGCTGTCGCCCAAAGAC	0.617													6	11					0	0	1	0	0		T	24909407	T	T	24909407	3	4	55	1	0	0	0	0	1	0	0	0	13997	884	31	1	121	1	SDR39U1	14	24909407	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	383814	24909407	82440133	1108	40142											
FOXG1	2290	broad.mit.edu	37	chr14	29237213	29237213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtgcttcgtgaaggtgcCgcgccactacgacgacccgg	8	6	13	14	6	0	1	0	1	0	0	1	3	0	1	3	2	3	1	3	2	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:29237213C>T	uc001wqe.2	+	1	927	c.728C>T	c.(727-729)CCG>CTG	p.P243L		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	243	Fork-head.				axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		GTGAAGGTGCCGCGCCACTAC	0.612													13	28					0	0	1	0	0		T	29237213	T	T	29237213	3	4	55	1	0	0	0	0	1	0	0	0	6021	652	23	1	730	1	FOXG1	14	29237213	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4327806	29237213	78112327	1109	40143											
AKAP6	9472	broad.mit.edu	37	chr14	33292184	33292184	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatcgttcaggaagcgtcTgactcgttcagtggctgatg	7	12	13	9	3	3	2	2	2	1	0	5	3	3	3	0	2	2	4	0	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:33292184T>C	uc001wrq.2	+	13	5335	c.5165T>C	c.(5164-5166)CTG>CCG	p.L1722P		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1722					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		AGGAAGCGTCTGACTCGTTCA	0.468													37	70					0	0	1	0	0		C	33292184	C	C	33292184	3	2	55	1	0	0	0	0	1	0	0	0	455	1580	55	3	5211	3	AKAP6	14	33292184	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	4054971	33292184	74057356	1110	40144											
CTAGE5	4253	broad.mit.edu	37	chr14	39819358	39819358	+	Frame_Shift_Del	DEL	T	-	-																															accttcccccaagacctggaTttttccccccacccccacat																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:39819358delT	uc001wvg.3	+	24	2641	c.2305delT	c.(2305-2307)TTTfs	p.F769fs	CTAGE5_uc001wuz.3_Frame_Shift_Del_p.F757fs|CTAGE5_uc001wuy.3_Frame_Shift_Del_p.F689fs|CTAGE5_uc001wvb.3_Frame_Shift_Del_p.F697fs|CTAGE5_uc001wvc.3_Frame_Shift_Del_p.F671fs|CTAGE5_uc001wva.3_Frame_Shift_Del_p.F740fs|CTAGE5_uc001wvh.3_Frame_Shift_Del_p.F726fs|CTAGE5_uc001wvf.3_Frame_Shift_Del_p.F694fs|CTAGE5_uc001wvi.3_Frame_Shift_Del_p.F774fs|CTAGE5_uc010amz.2_Frame_Shift_Del_p.F385fs|CTAGE5_uc001wvj.3_Frame_Shift_Del_p.F740fs	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	769	Pro-rich.						enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		AAGACCTGGATTTTTCCCCCC	0.453													52	109	---	---	---	---						.	-	39819358	-	-	39819358	7	5	55	1	0	1	0	1	0	0	0	0	3997	1493	52	0	2430	0	CTAGE5	14	39819358	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	6527174	39819358	67530182	1111	40145											
RPL10L	140801	broad.mit.edu	37	chr14	47120800	47120800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaccatgtggccaccgagtGggaactcatccacttttgcc	9	9	9	14	1	1	0	1	0	0	0	2	2	2	1	5	2	2	0	5	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:47120800G>A	uc001wwg.2	-	1	229	c.140C>T	c.(139-141)CCA>CTA	p.P47L		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	47					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						GCCACCGAGTGGGAACTCATC	0.502													27	51					0	0	1	0	0		A	47120800	A	A	47120800	3	1	55	1	0	0	0	0	1	0	0	0	13581	1348	47	4	508	4	RPL10L	14	47120800	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	7301442	47120800	60228740	1112	40146											
SOS2	6655	broad.mit.edu	37	chr14	50585161	50585161	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcagttttggcagatgAgggcttgaattctgccttgg	6	13	16	6	0	1	3	0	2	1	1	1	3	1	3	1	5	1	4	1	5	1	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:50585161A>T	uc001wxs.3	-	23	3998	c.3900T>A	c.(3898-3900)CCT>CCA	p.P1300P	SOS2_uc010ans.2_Silent_p.P135P|SOS2_uc010tql.1_Silent_p.P1267P|C14orf138_uc001wxn.1_5'Flank|C14orf138_uc001wxo.1_5'Flank|C14orf138_uc001wxp.1_5'Flank|C14orf138_uc001wxq.1_5'Flank	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	1300					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TTGGCAGATGAGGGCTTGAAT	0.507													12	34					0	0	1	0	0		T	50585161	T	T	50585161	2	4	55	1	0	0	0	0	0	0	0	1	14962	291	11	5		5	SOS2	14	50585161	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	3464361	50585161	56764379	1113	40147											
SAV1	60485	broad.mit.edu	37	chr14	51107479	51107479	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacttacttcacaggggcTcgtgcgtaaacctgaagcca	10	10	10	11	2	1	1	1	1	0	0	2	1	1	1	2	2	5	3	2	2	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:51107479T>G	uc001wyg.1	-	5	1100	c.939A>C	c.(937-939)CGA>CGC	p.R313R	SAV1_uc001wyh.1_Silent_p.R313R	NM_021818	NP_068590	Q9H4B6	SAV1_HUMAN	WW45 protein	313					hippo signaling cascade	cytoplasm|nucleus	identical protein binding			breast(1)	1	all_epithelial(31;0.000611)|Breast(41;0.0333)					TCACAGGGGCTCGTGCGTAAA	0.463													11	39					0	0	1	0	0		G	51107479	G	G	51107479	2	3	55	1	0	0	0	0	0	0	0	1	13881	1538	54	5		5	SAV1	14	51107479	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	522318	51107479	56242061	1114	40148											
NIN	51199	broad.mit.edu	37	chr14	51259462	51259462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accggctgggatgtgtgaagGccgcgcttcttcatccagtg	6	10	14	11	3	2	1	1	1	1	0	3	2	3	2	3	3	0	2	3	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:51259462G>A	uc001wym.2	-	5	594	c.403C>T	c.(403-405)CCT>TCT	p.P135S	NIN_uc001wyi.2_Missense_Mutation_p.P135S|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.P135S|NIN_uc010tqp.1_Missense_Mutation_p.P141S|NIN_uc001wyo.2_Missense_Mutation_p.P135S|NIN_uc001wyp.1_Missense_Mutation_p.P97S	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	135					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					ATGTGTGAAGGCCGCGCTTCT	0.572			T	PDGFRB	MPD								5	79					0	0	1	0	0		A	51259462	A	A	51259462	3	1	55	1	0	0	0	0	1	0	0	0	10436	1203	42	2	6254	2	NIN	14	51259462	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	151983	51259462	56090078	1115	40149											
FRMD6	122786	broad.mit.edu	37	chr14	52186867	52186867	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggccagcgggagcagtgcGggcagcatgaaacacaagcg	11	2	17	11	4	0	1	0	1	0	0	0	2	0	2	1	3	6	3	1	3	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:52186867G>A	uc001wzd.2	+	11	1404	c.1119G>A	c.(1117-1119)GCG>GCA	p.A373A	FRMD6_uc001wzb.2_Silent_p.A365A|FRMD6_uc001wzc.2_Silent_p.A365A|FRMD6_uc001wze.2_Silent_p.A296A|FRMD6_uc001wzf.2_Silent_p.A66A|FRMD6_uc001wzg.2_Silent_p.A15A	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	373						cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					GGAGCAGTGCGGGCAGCATGA	0.607													13	29					0	0	1	0	0		A	52186867	A	A	52186867	2	1	55	1	0	0	0	0	0	0	0	1	6068	1103	39	1		1	FRMD6	14	52186867	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	927405	52186867	55162673	1116	40150											
PTGDR	5729	broad.mit.edu	37	chr14	52735331	52735331	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggatcacctcctgctgCtggcgctgatgaccgtgctc	5	10	12	14	2	1	2	1	2	0	0	3	3	2	3	3	2	4	5	3	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:52735331C>T	uc001wzq.2	+	1	901	c.799C>T	c.(799-801)CTG>TTG	p.L267L		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	267	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	CCTCCTGCTGCTGGCGCTGAT	0.687													54	135					0	0	1	0	0		T	52735331	T	T	52735331	2	4	55	1	0	0	0	0	0	0	0	1	12763	796	28	2		2	PTGDR	14	52735331	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	548464	52735331	54614209	1117	40151											
STYX	6815	broad.mit.edu	37	chr14	53217434	53217434	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaacatggaataacccatAtaatatgcatacgacaaaat	21	8	5	7	1	0	1	0	0	0	1	0	3	0	2	1	1	4	1	1	1	9	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:53217434A>G	uc010tqy.1	+	5	240	c.178A>G	c.(178-180)ATA>GTA	p.I60V	STYX_uc001xaa.2_Missense_Mutation_p.I60V	NM_001130701	NP_001124173	Q8WUJ0	STYX_HUMAN	serine/threonine/tyrosine interacting protein	60					protein dephosphorylation|spermatogenesis	cytoplasm	protein tyrosine/serine/threonine phosphatase activity				0	Breast(41;0.176)					AATAACCCATATAATATGCAT	0.289													3	81					0	0	1	0	0		G	53217434	G	G	53217434	3	3	55	1	0	0	0	0	1	0	0	0	15385	449	16	3	192	3	STYX	14	53217434	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	482103	53217434	54132106	1118	40152											
DDHD1	80821	broad.mit.edu	37	chr14	53619422	53619422	+	Frame_Shift_Del	DEL	C	-	-																															accctcctgtcgcgccgccgCcccccgagttcgtcgggacc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:53619422delC	uc001xai.2	-	1	625	c.395delG	c.(394-396)GGCfs	p.G132fs	DDHD1_uc001xaj.2_Frame_Shift_Del_p.G132fs|DDHD1_uc001xah.2_Frame_Shift_Del_p.G132fs	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	132					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					CGCGCCGCCGCCCCCCGAGTT	0.741													5	8	---	---	---	---						.	-	53619422	-	-	53619422	7	5	55	1	0	1	0	1	0	0	0	0	4329	739	26	0	2384	0	DDHD1	14	53619422	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	401988	53619422	53730118	1119	40153											
ACTR10	55860	broad.mit.edu	37	chr14	58678052	58678052	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caagtcatctaatggctcttCtgacgcttggaattaattct	10	15	7	9	1	5	1	1	1	4	0	5	2	5	2	0	2	0	2	0	2	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:58678052C>T	uc001xdf.2	+	5	488	c.385C>T	c.(385-387)CTG>TTG	p.L129L	C14orf37_uc010tro.1_Intron|ACTR10_uc001xdg.2_5'UTR|ACTR10_uc001xdh.2_5'UTR|ACTR10_uc010trp.1_5'Flank|ACTR10_uc010apc.2_5'Flank	NM_018477	NP_060947	Q9NZ32	ARP10_HUMAN	uncharacterized hypothalamus protein HARP11	129						cytoplasm				central_nervous_system(1)	1						AATGGCTCTTCTGACGCTTGG	0.403													39	112					0	0	1	0	0		T	58678052	T	T	58678052	2	4	55	1	0	0	0	0	0	0	0	1	208	912	32	4		4	ACTR10	14	58678052	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5058630	58678052	48671488	1120	40154											
SIX6	4990	broad.mit.edu	37	chr14	60976534	60976534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcttcaaggagcgcacgCggcacctgctacgcgagtgg	8	6	14	13	5	1	0	1	0	0	0	1	2	1	1	1	3	4	4	1	3	2	2	rs142958302	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:60976534C>T	uc001xfa.3	+	1	597	c.418C>T	c.(418-420)CGG>TGG	p.R140W		NM_007374	NP_031400	O95475	SIX6_HUMAN	SIX homeobox 6	140	Homeobox.				organ morphogenesis|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.088)		GGAGCGCACGCGGCACCTGCT	0.607													9	19					0	0	1	0	0		T	60976534	T	T	60976534	3	4	55	1	0	0	0	0	1	0	0	0	14376	759	27	1	420	1	SIX6	14	60976534	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2298482	60976534	46373006	1121	40155											
SLC8A3	6547	broad.mit.edu	37	chr14	70634521	70634521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaaagatactccaagcagCggtgatgaagaagactcgta	15	6	12	8	2	0	5	0	2	0	3	2	5	1	5	1	2	3	3	1	2	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:70634521C>T	uc001xly.2	-	2	1373	c.619G>A	c.(619-621)GCT>ACT	p.A207T	SLC8A3_uc001xlw.2_Missense_Mutation_p.A207T|SLC8A3_uc001xlx.2_Missense_Mutation_p.A207T|SLC8A3_uc001xlz.2_Missense_Mutation_p.A207T|SLC8A3_uc010ara.2_RNA	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	207	Helical; (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		CTCCAAGCAGCGGTGATGAAG	0.498													6	29					0	0	1	0	0		T	70634521	T	T	70634521	3	4	55	1	0	0	0	0	1	0	0	0	14733	768	27	1	2303	1	SLC8A3	14	70634521	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	9657987	70634521	36715019	1122	40156											
PCNX	22990	broad.mit.edu	37	chr14	71576248	71576248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcctgatgaaggaatccGgttaaaagctgggagaaata	14	8	14	5	1	0	3	0	2	0	1	1	5	1	4	2	4	1	2	2	4	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:71576248G>A	uc001xmo.2	+	35	7270	c.6824G>A	c.(6823-6825)CGG>CAG	p.R2275Q	PCNX_uc010are.1_Missense_Mutation_p.R2164Q|PCNX_uc010arf.1_Missense_Mutation_p.R1063Q|PCNX_uc001xmp.2_Missense_Mutation_p.R359Q	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	2275						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		GAAGGAATCCGGTTAAAAGCT	0.473													9	33					0	0	1	0	0		A	71576248	A	A	71576248	3	1	55	1	0	0	0	0	1	0	0	0	11610	1116	39	1	6962	1	PCNX	14	71576248	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	941727	71576248	35773292	1123	40157											
SIPA1L1	26037	broad.mit.edu	37	chr14	72190562	72190562	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgattggatggaaaaaaccCgaaggaaccataaactccgt	16	7	9	9	2	0	1	0	1	0	0	1	5	1	4	3	3	3	0	3	3	7	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:72190562C>T	uc001xms.2	+	16	4818	c.4470C>T	c.(4468-4470)CCC>CCT	p.P1490P	SIPA1L1_uc001xmt.2_Silent_p.P1469P|SIPA1L1_uc001xmu.2_Silent_p.P1469P|SIPA1L1_uc001xmv.2_Silent_p.P1490P|SIPA1L1_uc010ttm.1_Silent_p.P944P|SIPA1L1_uc001xmw.2_Silent_p.P255P	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1490					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		GGAAAAAACCCGAAGGAACCA	0.398													18	62					0	0	1	0	0		T	72190562	T	T	72190562	2	4	55	1	0	0	0	0	0	0	0	1	14354	639	23	1		1	SIPA1L1	14	72190562	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	614314	72190562	35158978	1124	40158											
ALDH6A1	4329	broad.mit.edu	37	chr14	74534089	74534089	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgattgattacctgcatTgactctcaggtttttggcat	8	16	10	7	0	1	3	1	3	1	0	2	3	1	3	1	3	2	3	1	3	1	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:74534089T>C	uc001xpo.2	-	8	1135	c.1036A>G	c.(1036-1038)AAT>GAT	p.N346D	C14orf45_uc001xpm.1_Intron|ALDH6A1_uc010asa.2_Missense_Mutation_p.N191D|ALDH6A1_uc010tuq.1_Missense_Mutation_p.N333D	NM_005589	NP_005580	Q02252	MMSA_HUMAN	aldehyde dehydrogenase 6A1 precursor	346						mitochondrial matrix|nucleus	fatty-acyl-CoA binding|malonate-semialdehyde dehydrogenase (acetylating) activity|methylmalonate-semialdehyde dehydrogenase (acylating) activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00354)	NADH(DB00157)	TTACCTGCATTGACTCTCAGG	0.517													4	92					0	0	1	0	0		C	74534089	C	C	74534089	3	2	55	1	0	0	0	0	1	0	0	0	503	1812	63	3	591	3	ALDH6A1	14	74534089	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2343527	74534089	32815451	1125	40159											
LTBP2	4053	broad.mit.edu	37	chr14	74973960	74973960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaggagccagggctgttttCacacttccaggtgccacaca	9	9	11	12	0	1	0	1	0	0	0	2	1	2	1	3	3	2	3	3	3	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:74973960C>T	uc001xqa.2	-	26	4216	c.3829G>A	c.(3829-3831)GAA>AAA	p.E1277K		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1277	EGF-like 14; calcium-binding (Potential).|Cys-rich.				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GGGCTGTTTTCACACTTCCAG	0.592													22	80					0	0	1	0	0		T	74973960	T	T	74973960	3	4	55	1	0	0	0	0	1	0	0	0	9092	835	29	4	1680	4	LTBP2	14	74973960	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	439871	74973960	32375580	1126	40160											
LTBP2	4053	broad.mit.edu	37	chr14	75022288	75022288	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggtcccgggggcagggcGttggaagagagctggctact	6	7	18	10	2	0	1	0	0	0	1	1	3	1	2	2	6	2	4	2	6	2	2	rs141536587		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:75022288G>A	uc001xqa.2	-	4	1326	c.939C>T	c.(937-939)AAC>AAT	p.N313N		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	313					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GGGGCAGGGCGTTGGAAGAGA	0.652													15	63					0	0	1	0	0		A	75022288	A	A	75022288	2	1	55	1	0	0	0	0	0	0	0	1	9092	1136	40	1		1	LTBP2	14	75022288	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	48328	75022288	32327252	1127	40161											
PGF	5228	broad.mit.edu	37	chr14	75415222	75415222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacctaccggcattcgcagCgaacgtgctgagagaacgtc	11	6	12	12	5	0	3	0	1	0	2	2	5	0	3	2	1	5	3	2	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:75415222C>T	uc010ase.1	-	4	726	c.380G>A	c.(379-381)CGC>CAC	p.R127H	PGF_uc001xqz.2_Missense_Mutation_p.R127H|PGF_uc001xra.2_Missense_Mutation_p.R126H|PGF_uc001xrb.2_Missense_Mutation_p.R127H|PGF_uc010asf.1_3'UTR	NM_002632	NP_002623	P49763	PLGF_HUMAN	placental growth factor, vascular endothelial	127					angiogenesis|cell differentiation|cell-cell signaling|positive regulation of cell division|positive regulation of cell proliferation|vascular endothelial growth factor receptor signaling pathway	extracellular region|membrane	growth factor activity|heparin binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00668)		GCATTCGCAGCGAACGTGCTG	0.602													7	26					0	0	1	0	0		T	75415222	T	T	75415222	3	4	55	1	0	0	0	0	1	0	0	0	11807	768	27	1	148	1	PGF	14	75415222	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	392934	75415222	31934318	1128	40162											
EIF2B2	8892	broad.mit.edu	37	chr14	75470355	75470355	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttccattatgcccaacTccagtccaacatcattgagg	11	10	6	14	0	1	1	1	1	0	0	4	1	4	1	4	1	4	1	4	1	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:75470355T>G	uc001xrc.1	+	3	468	c.386T>G	c.(385-387)CTC>CGC	p.L129R		NM_014239	NP_055054	P49770	EI2BB_HUMAN	eukaryotic translation initiation factor 2B,	129					cellular response to stimulus|myelination|oligodendrocyte development|ovarian follicle development|regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	ATP binding|GTP binding|protein binding|translation initiation factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00661)		TATGCCCAACTCCAGTCCAAC	0.527													5	29					0	0	1	0	0		G	75470355	G	G	75470355	3	3	55	1	0	0	0	0	1	0	0	0	5007	1551	54	5	396	5	EIF2B2	14	75470355	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	55133	75470355	31879185	1129	40163											
AHSA1	10598	broad.mit.edu	37	chr14	77935581	77935581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacctttggctatggcgcaCgcttattttagggccagcgg	7	11	13	10	3	0	1	0	0	0	1	0	1	0	1	2	4	1	3	2	4	3	5	rs147994825	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:77935581C>T	uc001xtw.2	+	9	1166	c.1006C>T	c.(1006-1008)CGC>TGC	p.R336C		NM_012111	NP_036243	O95433	AHSA1_HUMAN	activator of heat shock 90kDa protein ATPase	336					protein folding|response to stress	cytosol|endoplasmic reticulum	ATPase activator activity|chaperone binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		CTATGGCGCACGCTTATTTTA	0.597													41	98					0	0	1	0	0		T	77935581	T	T	77935581	3	4	55	1	0	0	0	0	1	0	0	0	418	536	19	1	1040	1	AHSA1	14	77935581	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2465226	77935581	29413959	1130	40164											
C14orf145	145508	broad.mit.edu	37	chr14	81259426	81259426	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatctgcagttgctgttttTccccattctccagttcacgt	6	16	6	13	1	3	0	1	0	2	0	5	0	4	0	3	0	2	5	3	0	0	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:81259426T>C	uc001xux.2	-	13	1409	c.1238A>G	c.(1237-1239)GAA>GGA	p.E413G	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	413	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TTGCTGTTTTTCCCCATTCTC	0.413													20	34					0	0	1	0	0		C	81259426	C	C	81259426	3	2	55	1	0	0	0	0	1	0	0	0	1752	1783	62	3	2094	3	C14orf145	14	81259426	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	3323845	81259426	26090114	1131	40165											
SEL1L	6400	broad.mit.edu	37	chr14	81993096	81993096	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtttccgtactttcttTggctcttcatagtccttgtt	3	20	7	11	1	3	0	1	0	2	0	5	0	5	0	3	2	1	4	3	2	2	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:81993096T>G	uc010tvv.1	-	3	438	c.321A>C	c.(319-321)CCA>CCC	p.P107P	SEL1L_uc001xvo.3_Silent_p.P107P	NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	107	Lumenal (Potential).|Interaction with ERLEC1, OS9 and SYVN1.				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		GTACTTTCTTTGGCTCTTCAT	0.403													27	72					0	0	1	0	0		G	81993096	G	G	81993096	2	3	55	1	0	0	0	0	0	0	0	1	14035	1799	63	5		5	SEL1L	14	81993096	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	733670	81993096	25356444	1132	40166											
ZC3H14	79882	broad.mit.edu	37	chr14	89039116	89039116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttacatatggttcttctcGcccttctattgaaatttatc	9	18	4	10	1	3	1	0	1	3	0	5	1	3	1	1	1	1	1	1	1	5	9			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:89039116G>A	uc001xww.2	+	6	851	c.626G>A	c.(625-627)CGC>CAC	p.R209H	ZC3H14_uc010twd.1_Missense_Mutation_p.R209H|ZC3H14_uc010twe.1_Missense_Mutation_p.R209H|ZC3H14_uc001xwx.2_Missense_Mutation_p.R209H|ZC3H14_uc010twf.1_Missense_Mutation_p.R54H|ZC3H14_uc001xwy.2_Missense_Mutation_p.R175H|ZC3H14_uc010twg.1_Missense_Mutation_p.R54H	NM_024824	NP_079100	Q6PJT7	ZC3HE_HUMAN	zinc finger CCCH-type containing 14 isoform 1	209						cytoplasm|cytoplasm|nuclear speck	protein binding|RNA binding|zinc ion binding			ovary(2)|skin(1)	3						GGTTCTTCTCGCCCTTCTATT	0.398													8	133					0	0	1	0	0		A	89039116	A	A	89039116	3	1	55	1	0	0	0	0	1	0	0	0	17591	1087	38	1	648	1	ZC3H14	14	89039116	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	7046020	89039116	18310424	1133	40167											
FOXN3	1112	broad.mit.edu	37	chr14	89878534	89878534	+	Frame_Shift_Del	DEL	G	-	-																															tgtcagagtgggcaggggatGggggggtgtcatcgtccagg																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:89878534delG	uc001xxo.3	-	2	424	c.287delC	c.(286-288)CCAfs	p.P96fs	FOXN3_uc001xxn.3_Frame_Shift_Del_p.P96fs|FOXN3_uc010atk.2_Frame_Shift_Del_p.P96fs|FOXN3_uc001xxp.2_Frame_Shift_Del_p.P96fs	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1	96					DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(2)|ovary(1)	3						GGCAGGGGATGGGGGGGTGTC	0.592													45	29	---	---	---	---						.	-	89878534	-	-	89878534	7	5	55	1	0	1	0	1	0	0	0	0	6035	1348	47	0	1209	0	FOXN3	14	89878534	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	839418	89878534	17471006	1134	40168											
PSMC1	5700	broad.mit.edu	37	chr14	90738656	90738656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctgatggccttaagagaaCgtagaatgaaagtaacaaat	17	9	10	5	1	1	4	0	2	1	2	1	5	1	4	1	1	2	2	1	1	7	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:90738656C>T	uc001xyf.2	+	11	1276	c.1228C>T	c.(1228-1230)CGT>TGT	p.R410C	PSMC1_uc001xyg.2_Missense_Mutation_p.R337C|PSMC1_uc001xyh.2_Missense_Mutation_p.R337C	NM_002802	NP_002793	P62191	PRS4_HUMAN	proteasome 26S ATPase subunit 1	410					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0		all_cancers(154;0.142)		COAD - Colon adenocarcinoma(157;0.21)		CTTAAGAGAACGTAGAATGAA	0.363													7	7					0	0	1	0	0		T	90738656	T	T	90738656	3	4	55	1	0	0	0	0	1	0	0	0	12707	536	19	1	1270	1	PSMC1	14	90738656	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	860122	90738656	16610884	1135	40169											
C14orf102	55051	broad.mit.edu	37	chr14	90744727	90744727	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccagcggcaggcgcacccGgagctccttctcagtcatca	7	7	10	17	3	3	0	3	0	1	0	6	1	5	1	3	3	2	3	3	3	0	1	rs78302825		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:90744727G>A	uc001xyi.1	-	14	3479	c.3448C>T	c.(3448-3450)CGG>TGG	p.R1150W	C14orf102_uc010atp.1_Missense_Mutation_p.R655W|C14orf102_uc001xyj.1_Missense_Mutation_p.R919W	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	1150							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		AGGCGCACCCGGAGCTCCTTC	0.637													14	22					0	0	1	0	0		A	90744727	A	A	90744727	3	1	55	1	0	0	0	0	1	0	0	0	1738	1115	39	1	50	1	C14orf102	14	90744727	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	6071	90744727	16604813	1136	40170											
RIN3	79890	broad.mit.edu	37	chr14	93043773	93043773	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccactttccttctctgaaCgaaagctcggccgaggtgct	7	11	10	13	3	1	1	0	1	1	0	5	3	3	1	3	2	3	2	3	2	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:93043773C>T	uc001yap.2	+	3	470	c.318C>T	c.(316-318)AAC>AAT	p.N106N	RIN3_uc010auk.2_Translation_Start_Site|RIN3_uc001yaq.2_Silent_p.N31N	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	106	SH2.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				CTTCTCTGAACGAAAGCTCGG	0.527													16	49					0	0	1	0	0		T	93043773	T	T	93043773	2	4	55	1	0	0	0	0	0	0	0	1	13398	535	19	1		1	RIN3	14	93043773	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2299046	93043773	14305767	1137	40171											
KIAA1409	57578	broad.mit.edu	37	chr14	94120340	94120340	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatggacttcaatgagctgaGctccatcgcagctctcagtc	9	10	10	12	1	2	2	2	2	1	0	6	4	3	3	1	1	3	4	1	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:94120340G>T	uc001ybv.1	+	36	5986	c.5903G>T	c.(5902-5904)AGC>ATC	p.S1968I	KIAA1409_uc001ybs.1_Missense_Mutation_p.S1946I	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2123						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		AATGAGCTGAGCTCCATCGCA	0.517													25	64					4.87955e-14	5.33311e-14	1	1	0		T	94120340	T	T	94120340	3	4	55	1	0	0	0	0	1	0	0	0	8246	971	34	5	5975	5	KIAA1409	14	94120340	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1076567	94120340	13229200	1138	40172											
SERPINA5	5104	broad.mit.edu	37	chr14	95056470	95056470	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggtacccatgatgagcCgcgaggatcagtatcactac	10	8	12	11	3	2	2	2	2	0	0	2	4	2	3	2	2	4	2	2	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:95056470C>A	uc001ydm.2	+	4	922	c.712C>A	c.(712-714)CGC>AGC	p.R238S	SERPINA5_uc010ave.2_Missense_Mutation_p.R238S|SERPINA3_uc001ydo.3_5'Flank	NM_000624	NP_000615	P05154	IPSP_HUMAN	serine (or cysteine) proteinase inhibitor, clade	238					fusion of sperm to egg plasma membrane|regulation of proteolysis|spermatogenesis	extracellular region|membrane|protein complex	acrosin binding|heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(2)	2				COAD - Colon adenocarcinoma(157;0.21)	Drotrecogin alfa(DB00055)|Urokinase(DB00013)	CATGATGAGCCGCGAGGATCA	0.562													7	28					0.000274275	0.000282831	1	1	0		A	95056470	A	A	95056470	3	1	55	1	0	0	0	0	1	0	0	0	14117	652	23	5	718	5	SERPINA5	14	95056470	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	936130	95056470	12293070	1139	40173											
SERPINA3	12	broad.mit.edu	37	chr14	95081256	95081256	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacggaggatgccaagaggCtgtatggctccgaggccttt	8	9	14	10	2	1	1	1	0	0	1	2	4	2	3	3	5	1	3	3	5	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:95081256C>T	uc001ydp.2	+	2	557	c.478C>T	c.(478-480)CTG>TTG	p.L160L	SERPINA3_uc001ydo.3_Silent_p.L185L|SERPINA3_uc010avf.1_RNA|SERPINA3_uc001ydr.2_RNA|SERPINA3_uc001ydq.2_Silent_p.L160L|SERPINA3_uc001yds.2_Silent_p.L160L|SERPINA3_uc010avg.2_Silent_p.L160L	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3	160					acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		TGCCAAGAGGCTGTATGGCTC	0.512													11	22					0	0	1	0	0		T	95081256	T	T	95081256	2	4	55	1	0	0	0	0	0	0	0	1	14115	796	28	2		2	SERPINA3	14	95081256	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	24786	95081256	12268284	1140	40174											
BDKRB2	624	broad.mit.edu	37	chr14	96706825	96706825	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcccccaagtggagtggctgGgctggctcaacaccatccag	8	6	13	14	0	1	0	1	0	0	0	2	1	2	1	4	4	1	3	4	4	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:96706825G>T	uc010avm.1	+	3	356	c.160G>T	c.(160-162)GGC>TGC	p.G54C	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Missense_Mutation_p.G27C|BDKRB2_uc001yfg.2_Missense_Mutation_p.G54C	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	54	Extracellular (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		GGAGTGGCTGGGCTGGCTCAA	0.577													4	111					0.150653	0.151518	1	1	0		T	96706825	T	T	96706825	3	4	55	1	0	0	0	0	1	0	0	0	1394	1232	43	5	166	5	BDKRB2	14	96706825	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1625569	96706825	10642715	1141	40175											
BDKRB2	624	broad.mit.edu	37	chr14	96706965	96706965	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctacctggggaacctggcCgcagcagacctgatcctggc	8	7	12	14	1	1	2	0	1	1	1	2	3	2	3	5	4	3	2	5	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:96706965C>T	uc010avm.1	+	3	496	c.300C>T	c.(298-300)GCC>GCT	p.A100A	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Silent_p.A73A|BDKRB2_uc001yfg.2_Silent_p.A100A	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	100	Helical; Name=2; (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		GGAACCTGGCCGCAGCAGACC	0.607													49	86					0	0	1	0	0		T	96706965	T	T	96706965	2	4	55	1	0	0	0	0	0	0	0	1	1394	639	23	1		1	BDKRB2	14	96706965	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	140	96706965	10642575	1142	40176											
CYP46A1	10858	broad.mit.edu	37	chr14	100182183	100182183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcagctccgggaggtcCgggagagcattcgcttcctg	7	7	16	11	3	0	1	0	0	0	1	4	4	3	3	3	4	3	4	3	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:100182183C>T	uc001ygo.2	+	8	730	c.730C>T	c.(730-732)CGG>TGG	p.R244W	CYP46A1_uc001ygp.2_Missense_Mutation_p.R91W	NM_006668	NP_006659	Q9Y6A2	CP46A_HUMAN	cytochrome P450, family 46	244					bile acid biosynthetic process|cholesterol catabolic process|nervous system development|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol 24-hydroxylase activity|electron carrier activity|heme binding|steroid hydroxylase activity				0		Melanoma(154;0.0866)|all_epithelial(191;0.179)				CCGGGAGGTCCGGGAGAGCAT	0.637													15	39					0	0	1	0	0		T	100182183	T	T	100182183	3	4	55	1	0	0	0	0	1	0	0	0	4185	643	23	1	760	1	CYP46A1	14	100182183	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3475218	100182183	7167357	1143	40177											
PPP2R5C	5527	broad.mit.edu	37	chr14	102368058	102368058	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcatttcttttgtaggtGgtgatggcacttctcaaata	8	17	10	6	0	3	1	2	1	2	0	4	1	3	1	0	3	0	2	0	3	3	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:102368058G>T	uc001yko.2	+	9	995	c.855G>T	c.(853-855)GTG>GTT	p.V285V	PPP2R5C_uc010txr.1_Silent_p.V316V|PPP2R5C_uc001ykk.2_Silent_p.V340V|PPP2R5C_uc010txt.1_Silent_p.V275V|PPP2R5C_uc001ykn.2_Silent_p.V285V|PPP2R5C_uc001ykp.2_Silent_p.V285V|PPP2R5C_uc001ykq.2_Silent_p.V183V	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	285					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						TTTTGTAGGTGGTGATGGCAC	0.453													10	37					2.80697e-09	3.01337e-09	1	1	0		T	102368058	T	T	102368058	2	4	55	1	0	0	0	0	0	0	0	1	12416	1335	47	5		5	PPP2R5C	14	102368058	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2185875	102368058	4981482	1144	40178											
DYNC1H1	1778	broad.mit.edu	37	chr14	102452268	102452268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggatcaccgctcgccttcGggatcagcttggcacagcca	7	7	11	16	4	2	0	2	0	0	0	4	2	2	2	4	3	2	3	4	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:102452268G>A	uc001yks.2	+	8	1870	c.1706G>A	c.(1705-1707)CGG>CAG	p.R569Q		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	569	Interaction with DYNC1I2 (By similarity).|Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						GCTCGCCTTCGGGATCAGCTT	0.547													18	55					0	0	1	0	0		A	102452268	A	A	102452268	3	1	55	1	0	0	0	0	1	0	0	0	4847	1116	39	1	1736	1	DYNC1H1	14	102452268	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	84210	102452268	4897272	1145	40179											
WDR20	91833	broad.mit.edu	37	chr14	102675164	102675164	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttaagtggacggtgggCgagggggccctcaacgagtt	7	8	16	10	3	1	0	1	0	0	0	2	3	2	1	2	5	1	1	2	5	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:102675164C>T	uc001ykz.2	+	3	706	c.657C>T	c.(655-657)GGC>GGT	p.G219G	WDR20_uc001yky.1_Intron|WDR20_uc001yla.2_Silent_p.G95G|WDR20_uc001ylb.2_Silent_p.G158G|WDR20_uc010txu.1_Silent_p.G250G|WDR20_uc001ylc.2_Intron|WDR20_uc001yld.2_Silent_p.G219G|WDR20_uc001yle.2_Silent_p.G158G|WDR20_uc001ylf.2_Silent_p.G231G	NM_144574	NP_653175	Q8TBZ3	WDR20_HUMAN	WD repeat domain 20 isoform 2	219	WD 2.										0						GGACGGTGGGCGAGGGGGCCC	0.577													19	38					0	0	1	0	0		T	102675164	T	T	102675164	2	4	55	1	0	0	0	0	0	0	0	1	17306	755	27	1		1	WDR20	14	102675164	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	222896	102675164	4674376	1146	40180											
TECPR2	9895	broad.mit.edu	37	chr14	102915976	102915976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttccaggtgagcatcaCggactatgtggtgtttgacc	7	12	11	11	1	1	2	1	2	0	0	3	3	3	3	3	3	1	2	3	3	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:102915976C>T	uc001ylw.1	+	14	3234	c.3086C>T	c.(3085-3087)ACG>ATG	p.T1029M	TECPR2_uc010awl.2_Missense_Mutation_p.T1029M|TECPR2_uc010txx.1_Missense_Mutation_p.T192M	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1029							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						GTGAGCATCACGGACTATGTG	0.532													53	93					0	0	1	0	0		T	102915976	T	T	102915976	3	4	55	1	0	0	0	0	1	0	0	0	15769	536	19	1	3136	1	TECPR2	14	102915976	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	240812	102915976	4433564	1147	40181											
CDC42BPB	9578	broad.mit.edu	37	chr14	103404710	103404710	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagccaggttggtgggagcGgggcccggcctttcctcctg	3	8	17	13	3	0	0	0	0	0	0	2	2	2	1	5	6	2	1	5	6	0	2	rs137905470		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:103404710G>A	uc001ymi.1	-	35	5098	c.4866C>T	c.(4864-4866)CCC>CCT	p.P1622P		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	1622					actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TGGTGGGAGCGGGGCCCGGCC	0.667													33	78					0	0	1	0	0		A	103404710	A	A	103404710	2	1	55	1	0	0	0	0	0	0	0	1	3076	1103	39	1		1	CDC42BPB	14	103404710	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	488734	103404710	3944830	1148	40182											
CDC42BPB	9578	broad.mit.edu	37	chr14	103410756	103410756	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttccggccacagaggaggaTtacgatcttctccctgggag	8	9	13	11	2	2	1	0	0	2	1	4	5	3	4	3	4	1	1	3	4	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:103410756T>C	uc001ymi.1	-	30	4112	c.3880A>G	c.(3880-3882)ATC>GTC	p.I1294V	CDC42BPB_uc001ymj.1_Missense_Mutation_p.I396V	NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	1294	CNH.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		CAGAGGAGGATTACGATCTTC	0.567													6	30					0	0	1	0	0		C	103410756	C	C	103410756	3	2	55	1	0	0	0	0	1	0	0	0	3076	1493	52	3	1287	3	CDC42BPB	14	103410756	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	6046	103410756	3938784	1149	40183											
C14orf73	91828	broad.mit.edu	37	chr14	103566851	103566851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacggcccagctaccggcCattcccaggccactcctgag	8	6	10	17	2	0	2	0	2	0	0	2	2	2	2	6	3	2	1	6	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:103566851C>T	uc001ymk.2	+	1	371	c.295C>T	c.(295-297)CAT>TAT	p.H99Y		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	hypothetical protein LOC91828	99											0		Melanoma(154;0.155)	Epithelial(46;0.221)			AGCTACCGGCCATTCCCAGGC	0.642													7	11					0	0	1	0	0		T	103566851	T	T	103566851	3	4	55	1	0	0	0	0	1	0	0	0	1782	594	21	4	297	4	C14orf73	14	103566851	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	156095	103566851	3782689	1150	40184											
KLC1	3831	broad.mit.edu	37	chr14	104139470	104139470	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caaagagccctcgagatctaCcagacaaaactgggacctga	15	5	9	12	1	1	4	0	1	1	3	2	6	1	5	3	1	3	0	3	1	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:104139470C>T	uc001yno.2	+	8	1415	c.1107C>T	c.(1105-1107)TAC>TAT	p.Y369Y	KLC1_uc010tyd.1_Silent_p.Y528Y|KLC1_uc010tye.1_Silent_p.Y365Y|KLC1_uc001ynm.1_Silent_p.Y369Y|KLC1_uc001ynn.1_Silent_p.Y363Y|KLC1_uc010tyf.1_Silent_p.Y369Y|KLC1_uc001ynp.1_5'Flank|KLC1_uc001ynr.1_5'Flank|KLC1_uc010awu.1_5'Flank|KLC1_uc001ynq.1_5'Flank|KLC1_uc001yns.2_5'Flank	NM_182923	NP_891553	Q07866	KLC1_HUMAN	kinesin light chain 1 isoform 2	369	TPR 4.				blood coagulation|microtubule-based movement|stress granule disassembly	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0		Melanoma(154;0.155)|all_epithelial(191;0.19)				TCGAGATCTACCAGACAAAAC	0.483													6	36					0	0	1	0	0		T	104139470	T	T	104139470	2	4	55	1	0	0	0	0	0	0	0	1	8349	518	18	4		4	KLC1	14	104139470	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	572619	104139470	3210070	1151	40185											
ZFYVE21	79038	broad.mit.edu	37	chr14	104194188	104194188	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgcggcagtgcgcggagTgcgccctcgtgtccctcaag	4	7	15	15	6	1	0	1	0	0	0	3	1	2	1	3	2	3	1	3	2	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:104194188T>C	uc001yoc.2	+	3	329	c.295T>C	c.(295-297)TGC>CGC	p.C99R	ZFYVE21_uc001yod.2_Missense_Mutation_p.C99R	NM_024071	NP_076976	Q9BQ24	ZFY21_HUMAN	zinc finger, FYVE domain containing 21	99	FYVE-type.					cytoplasmic membrane-bounded vesicle|focal adhesion	metal ion binding				0		Melanoma(154;0.226)		Epithelial(152;0.245)		GTGCGCGGAGTGCGCCCTCGT	0.667													3	32					0	0	1	0	0		C	104194188	C	C	104194188	3	2	55	1	0	0	0	0	1	0	0	0	17692	1696	59	3	305	3	ZFYVE21	14	104194188	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	54718	104194188	3155352	1152	40186											
AHNAK2	113146	broad.mit.edu	37	chr14	105413904	105413904	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggtccccctccagccgCgcaccatccagctttgctct	6	8	8	19	2	1	0	0	0	1	0	4	1	4	0	6	1	3	3	6	1	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:105413904C>T	uc010axc.1	-	7	8004	c.7884G>A	c.(7882-7884)GCG>GCA	p.A2628A	AHNAK2_uc001ypx.2_Silent_p.A2528A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2628						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCTCCAGCCGCGCACCATCCA	0.592													84	193					0	0	1	0	0		T	105413904	T	T	105413904	2	4	55	1	0	0	0	0	0	0	0	1	415	755	27	1		1	AHNAK2	14	105413904	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1219716	105413904	1935636	1153	40187											
AHNAK2	113146	broad.mit.edu	37	chr14	105415580	105415580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctccaccttgggcaggtGccctttgaggccagctccct	5	10	10	16	0	1	1	0	1	1	0	3	1	2	1	5	3	2	2	5	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:105415580G>A	uc010axc.1	-	7	6328	c.6208C>T	c.(6208-6210)CAC>TAC	p.H2070Y	AHNAK2_uc001ypx.2_Missense_Mutation_p.H1970Y	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2070						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			TTGGGCAGGTGCCCTTTGAGG	0.622													9	134					0	0	1	0	0		A	105415580	A	A	105415580	3	1	55	1	0	0	0	0	1	0	0	0	415	1319	46	2	11183	2	AHNAK2	14	105415580	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1676	105415580	1933960	1154	40188											
AHNAK2	113146	broad.mit.edu	37	chr14	105416463	105416463	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcgggggccatcacctcCgccttggggcctttcaggtc	4	9	13	15	3	2	0	2	0	0	0	5	0	3	0	5	5	0	0	5	5	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:105416463C>T	uc010axc.1	-	7	5445	c.5325G>A	c.(5323-5325)GCG>GCA	p.A1775A	AHNAK2_uc001ypx.2_Silent_p.A1675A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1775						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCATCACCTCCGCCTTGGGGC	0.652													38	79					0	0	1	0	0		T	105416463	T	T	105416463	2	4	55	1	0	0	0	0	0	0	0	1	415	639	23	1		1	AHNAK2	14	105416463	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	883	105416463	1933077	1155	40189											
AHNAK2	113146	broad.mit.edu	37	chr14	105417304	105417304	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcatcttgaacttgggcAttttgaacttgctgtctttg	7	16	10	8	1	2	2	0	2	2	0	2	2	2	2	0	2	3	3	0	2	2	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr14:105417304A>G	uc010axc.1	-	7	4604	c.4484T>C	c.(4483-4485)ATG>ACG	p.M1495T	AHNAK2_uc001ypx.2_Missense_Mutation_p.M1395T	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1495						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GAACTTGGGCATTTTGAACTT	0.602													9	404					0	0	1	0	0		G	105417304	G	G	105417304	3	3	55	1	0	0	0	0	1	0	0	0	415	217	8	3	12907	3	AHNAK2	14	105417304	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	841	105417304	1932236	1156	40190											
OR4M2	390538	broad.mit.edu	37	chr15	22369288	22369288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtgagaataccaacagggCcatgtccacctgctattccc	11	8	9	13	0	0	1	0	1	0	1	2	2	2	1	5	2	3	1	5	2	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:22369288C>T	uc010tzu.1	+	1	713	c.713C>T	c.(712-714)GCC>GTC	p.A238V	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	238	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		ACCAACAGGGCCATGTCCACC	0.453													20	61					0	0	1	0	0		T	22369288	T	T	22369288	3	4	55	1	0	0	0	0	1	0	0	0	11095	739	26	2	715	2	OR4M2	15	22369288	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08		22369288	80162104	1157	40191											
TUBGCP5	114791	broad.mit.edu	37	chr15	22851104	22851104	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgttggagaagcctctgagCaaaccgtaagtgagacttct	12	10	11	8	1	2	3	0	2	2	2	2	5	2	3	2	1	3	3	2	1	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:22851104C>T	uc001yur.3	+	11	1496	c.1366C>T	c.(1366-1368)CAA>TAA	p.Q456*	TUBGCP5_uc001yuq.2_Nonsense_Mutation_p.Q456*|TUBGCP5_uc010axz.1_Silent_p.S27S	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	456					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		AGCCTCTGAGCAAACCGTAAG	0.468													9	47					0	0	1	0	0		T	22851104	T	T	22851104	4	4	55	1	0	0	0	0	0	1	0	0	16795	711	25	2	1408	2	TUBGCP5	15	22851104	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	481816	22851104	79680288	1158	40192											
CYFIP1	23191	broad.mit.edu	37	chr15	22928162	22928162	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagggccaagaatatgctGtcatgctgtacacctggagg	11	8	14	8	0	1	1	1	0	0	1	1	3	1	3	2	4	3	3	2	4	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:22928162G>A	uc001yus.2	+	4	345	c.241G>A	c.(241-243)GTC>ATC	p.V81I	CYFIP1_uc001yut.2_Missense_Mutation_p.V81I|CYFIP1_uc010aya.1_Missense_Mutation_p.V109I	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	81					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		AGAATATGCTGTCATGCTGTA	0.607													6	167					0	0	1	0	0		A	22928162	A	A	22928162	3	1	55	1	0	0	0	0	1	0	0	0	4140	1377	48	4	251	4	CYFIP1	15	22928162	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	77058	22928162	79603230	1159	40193											
OCA2	4948	broad.mit.edu	37	chr15	28326974	28326974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtctgcaggagctccaccGccggcgcgccggggtaccgc	5	4	15	17	7	1	0	0	0	1	0	2	1	2	1	5	4	3	3	5	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:28326974G>A	uc001zbh.3	-	2	157	c.47C>T	c.(46-48)GCG>GTG	p.A16V	OCA2_uc010ayv.2_Missense_Mutation_p.A16V	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	16	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		GAGCTCCACCGCCGGCGCGCC	0.662									Oculocutaneous_Albinism				9	13					0	0	1	0	0		A	28326974	A	A	28326974	3	1	55	1	0	0	0	0	1	0	0	0	10834	1087	38	1	2561	1	OCA2	15	28326974	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5398812	28326974	74204418	1160	40194											
NDNL2	56160	broad.mit.edu	37	chr15	29561064	29561064	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatctgccaaagcctcacaGtactgcgctggccagtcctt	8	10	8	15	1	3	0	2	0	1	0	4	0	4	0	4	1	4	2	4	1	2	2	rs145182709		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:29561064G>T	uc001zco.2	-	1	954	c.846C>A	c.(844-846)TAC>TAA	p.Y282*	FAM189A1_uc010azk.1_Intron	NM_138704	NP_619649	Q96MG7	MAGG1_HUMAN	necdin-like 2	282	MAGE.				regulation of growth	cytoplasm|nucleus					0		all_lung(180;4.69e-11)|Breast(32;0.0013)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00736)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		AAGCCTCACAGTACTGCGCTG	0.562													25	39					4.87955e-14	5.33311e-14	1	1	0		T	29561064	T	T	29561064	4	4	55	1	0	0	0	0	0	1	0	0	10267	1024	36	5	72	5	NDNL2	15	29561064	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1234090	29561064	72970328	1161	40195											
TJP1	7082	broad.mit.edu	37	chr15	30029534	30029534	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatcttctagaacgccagcTacaaatattccaacatcatt	14	12	3	12	1	3	1	1	0	2	1	4	1	4	1	2	0	4	1	2	0	7	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:30029534T>C	uc001zcr.2	-	11	1816	c.1341A>G	c.(1339-1341)GTA>GTG	p.V447V	TJP1_uc010azl.2_Silent_p.V435V|TJP1_uc001zcq.2_Silent_p.V451V|TJP1_uc001zcs.2_Silent_p.V447V	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	447	PDZ 3.				cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		GAACGCCAGCTACAAATATTC	0.423													17	96					0	0	1	0	0		C	30029534	C	C	30029534	2	2	55	1	0	0	0	0	0	0	0	1	15954	1509	53	3		3	TJP1	15	30029534	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	468470	30029534	72501858	1162	40196											
ARHGAP11A	9824	broad.mit.edu	37	chr15	32929210	32929210	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaatgagaatatgatggaaGgtaacttaccgaagtgtgca	16	9	12	4	1	0	3	0	2	0	2	0	6	0	4	1	2	3	2	1	2	7	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:32929210G>T	uc001zgy.1	+	12	2958	c.2236G>T	c.(2236-2238)GGT>TGT	p.G746C	ARHGAP11A_uc010ubw.1_Missense_Mutation_p.G557C|ARHGAP11A_uc010ubx.1_Missense_Mutation_p.G557C	NM_014783	NP_055598	Q6P4F7	RHGBA_HUMAN	Rho GTPase activating protein 11A isoform 1	746					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			skin(3)|breast(2)|urinary_tract(1)	6		all_lung(180;1.3e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)		TATGATGGAAGGTAACTTACC	0.388													8	36					0.335167	0.336319	1	1	0		T	32929210	T	T	32929210	3	4	55	1	0	0	0	0	1	0	0	0	863	1000	35	5	2305	5	ARHGAP11A	15	32929210	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2899676	32929210	69602182	1163	40197											
SLC12A6	9990	broad.mit.edu	37	chr15	34532875	34532875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcttacctgctcagcagctAaagcttcaccgtagttctct	8	13	6	14	1	4	0	2	0	2	0	5	0	4	0	2	0	5	6	2	0	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:34532875A>G	uc001zhw.2	-	18	2587	c.2423T>C	c.(2422-2424)TTA>TCA	p.L808S	SLC12A6_uc001zhv.2_Missense_Mutation_p.L757S|SLC12A6_uc001zhx.2_Missense_Mutation_p.L793S|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.L749S|SLC12A6_uc001zib.2_Missense_Mutation_p.L799S|SLC12A6_uc001zic.2_Missense_Mutation_p.L808S|SLC12A6_uc010bau.2_Missense_Mutation_p.L808S|SLC12A6_uc001zid.2_Missense_Mutation_p.L749S|SLC12A6_uc001zht.2_RNA|SLC12A6_uc001zhu.2_Missense_Mutation_p.L620S	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	808					angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	CTCAGCAGCTAAAGCTTCACC	0.458													18	46					0	0	1	0	0		G	34532875	G	G	34532875	3	3	55	1	0	0	0	0	1	0	0	0	14412	372	13	3	1061	3	SLC12A6	15	34532875	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1603665	34532875	67998517	1164	40198											
LPCAT4	254531	broad.mit.edu	37	chr15	34652412	34652412	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaaacccttggtatccTggtgtgaaaaagaaaccagg	14	7	9	11	0	0	2	0	1	0	1	1	2	1	2	5	3	2	1	5	3	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:34652412T>C	uc001zig.2	-	12	1238	c.1144_splice	c.e12-1	p.D382_splice		NM_153613	NP_705841	Q643R3	LPCT4_HUMAN	lysophosphatidylcholine acyltransferase 4						phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|calcium ion binding				0						CTTGGTATCCTGGTGTGAAAA	0.552													15	33					0	0	1	0	0		C	34652412	C	C	34652412	5	2	55	1	0	0	0	0	0	0	1	0	8931	1594	55	3	444	3	LPCAT4	15	34652412	Splice_Site	SNP	T	TCGA-BR-7851-01A-11D-2201-08	119537	34652412	67878980	1165	40199											
MEIS2	4212	broad.mit.edu	37	chr15	37390290	37390290	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcgtggagcggcggcccGtggttcaggtggtgaaccgg	4	7	21	9	5	1	1	1	1	0	0	1	2	1	2	2	8	2	1	2	8	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:37390290G>A	uc001zjr.2	-	2	1160	c.123C>T	c.(121-123)CAC>CAT	p.H41H	MEIS2_uc001zjl.2_Silent_p.H28H|MEIS2_uc010ucj.1_Silent_p.H28H|MEIS2_uc001zjm.2_Translation_Start_Site|MEIS2_uc001zjn.2_Translation_Start_Site|MEIS2_uc001zjo.2_Silent_p.H41H|MEIS2_uc001zjp.2_Silent_p.H41H|MEIS2_uc001zjs.2_Silent_p.H41H|MEIS2_uc001zju.2_Silent_p.H28H|MEIS2_uc001zjt.2_Silent_p.H41H	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	41					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		GCGGCGGCCCGTGGTTCAGGT	0.682													29	45					0	0	1	0	0		A	37390290	A	A	37390290	2	1	55	1	0	0	0	0	0	0	0	1	9486	1136	40	1		1	MEIS2	15	37390290	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2737878	37390290	65141102	1166	40200											
BUB1B	701	broad.mit.edu	37	chr15	40512803	40512803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggaataaattctttgtgcGgattctgaatgccaatgatg	11	14	11	5	1	2	2	0	2	2	0	2	4	2	4	1	2	2	0	1	2	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:40512803G>A	uc001zkx.3	+	23	3208	c.2996G>A	c.(2995-2997)CGG>CAG	p.R999Q	PAK6_uc010bbl.2_Intron|PAK6_uc010bbm.2_Intron	NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	999	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		TTCTTTGTGCGGATTCTGAAT	0.368			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				25	77					0	0	1	0	0		A	40512803	A	A	40512803	3	1	55	1	0	0	0	0	1	0	0	0	1574	1116	39	1	3086	1	BUB1B	15	40512803	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3122513	40512803	62018589	1167	40201											
DISP2	85455	broad.mit.edu	37	chr15	40661464	40661464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaccctgaccgcctgagcCgtgtggccttctctctgcgc	4	9	10	18	3	2	2	0	2	2	0	3	2	2	2	5	1	2	0	5	1	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:40661464C>T	uc001zlk.1	+	8	3240	c.3151C>T	c.(3151-3153)CGT>TGT	p.R1051C		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	1051					smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		CCGCCTGAGCCGTGTGGCCTT	0.632													26	95					0	0	1	0	0		T	40661464	T	T	40661464	3	4	55	1	0	0	0	0	1	0	0	0	4546	652	23	1	3181	1	DISP2	15	40661464	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	148661	40661464	61869928	1168	40202											
CASC5	57082	broad.mit.edu	37	chr15	40954324	40954324	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccactggagaacaactacCtgaagaatgtagtcaagcaa	16	7	9	9	0	1	3	1	1	0	2	1	4	1	3	2	1	5	2	2	1	8	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:40954324C>A	uc010bbs.1	+	27	7128	c.6967C>A	c.(6967-6969)CTG>ATG	p.L2323M	CASC5_uc010bbt.1_Missense_Mutation_p.L2297M	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	2323					acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		GAACAACTACCTGAAGAATGT	0.358													5	171					2.0095e-06	2.11959e-06	1	1	0		A	40954324	A	A	40954324	3	1	55	1	0	0	0	0	1	0	0	0	2666	680	24	5	7069	5	CASC5	15	40954324	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	292860	40954324	61577068	1169	40203											
RHOV	171177	broad.mit.edu	37	chr15	41165405	41165405	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagttcttctgcgtcaaggCtgagcactcaaggtagcagc	10	9	11	11	1	4	1	2	1	2	0	4	1	4	1	0	2	4	5	0	2	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:41165405C>T	uc001znd.2	-	3	712	c.562G>A	c.(562-564)GCC>ACC	p.A188T		NM_133639	NP_598378	Q96L33	RHOV_HUMAN	ras homolog gene family, member V	188					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome membrane|plasma membrane	GTP binding|metal ion binding				0		all_cancers(109;1.42e-13)|all_epithelial(112;1.48e-11)|Lung NSC(122;5.77e-09)|all_lung(180;1.08e-07)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;2.58e-05)|COAD - Colon adenocarcinoma(120;0.149)|BRCA - Breast invasive adenocarcinoma(123;0.163)		TGCGTCAAGGCTGAGCACTCA	0.577													29	62					0	0	1	0	0		T	41165405	T	T	41165405	3	4	55	1	0	0	0	0	1	0	0	0	13371	797	28	2	152	2	RHOV	15	41165405	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	211081	41165405	61365987	1170	40204											
VPS18	57617	broad.mit.edu	37	chr15	41194934	41194934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggaagatgtacagacaGccatggcttgcctggctagc	12	7	13	9	0	0	3	0	0	0	3	0	4	0	4	2	3	4	3	2	3	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:41194934G>A	uc001zne.2	+	5	2656	c.2317G>A	c.(2317-2319)GCC>ACC	p.A773T		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	773	Clathrin.				endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		TGTACAGACAGCCATGGCTTG	0.557													13	41					0	0	1	0	0		A	41194934	A	A	41194934	3	1	55	1	0	0	0	0	1	0	0	0	17220	971	34	2	2335	2	VPS18	15	41194934	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	29529	41194934	61336458	1171	40205											
NUSAP1	51203	broad.mit.edu	37	chr15	41641419	41641419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaggtgcaagactgtcCgtgtggaccctgactcacag	10	7	14	10	1	1	3	1	1	0	2	2	5	2	4	2	3	1	1	2	3	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:41641419C>T	uc001zns.3	+	3	516	c.286C>T	c.(286-288)CGT>TGT	p.R96C	NUSAP1_uc001znq.3_5'UTR|NUSAP1_uc001znr.3_Missense_Mutation_p.R96C|NUSAP1_uc010bce.2_Missense_Mutation_p.R96C|NUSAP1_uc001znt.3_Missense_Mutation_p.R96C|NUSAP1_uc001znv.3_Missense_Mutation_p.R96C|NUSAP1_uc001znu.3_Missense_Mutation_p.R96C|NUSAP1_uc010ucw.1_Missense_Mutation_p.R73C|NUSAP1_uc001znw.3_5'UTR	NM_016359	NP_057443	Q9BXS6	NUSAP_HUMAN	nucleolar and spindle associated protein 1	96					cytokinesis after mitosis|establishment of mitotic spindle localization|mitotic chromosome condensation|positive regulation of mitosis	chromosome|cytoplasm|nucleolus	DNA binding				0		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;9.63e-17)|GBM - Glioblastoma multiforme(113;1.59e-06)|BRCA - Breast invasive adenocarcinoma(123;0.168)		CAAGACTGTCCGTGTGGACCC	0.423													13	34					0	0	1	0	0		T	41641419	T	T	41641419	3	4	55	1	0	0	0	0	1	0	0	0	10797	652	23	1	296	1	NUSAP1	15	41641419	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	446485	41641419	60889973	1172	40206											
SPTBN5	51332	broad.mit.edu	37	chr15	42162064	42162064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggaagcgggccaggaggCgtgcccgctccagctgggcc	5	4	18	14	4	0	0	0	0	0	0	1	2	1	2	4	5	4	2	4	5	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:42162064C>T	uc001zos.2	-	32	6056	c.5723G>A	c.(5722-5724)CGC>CAC	p.R1908H		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	1943	Spectrin 16.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		GGCCAGGAGGCGTGCCCGCTC	0.682													4	5					0	0	1	0	0		T	42162064	T	T	42162064	3	4	55	1	0	0	0	0	1	0	0	0	15147	768	27	1	5344	1	SPTBN5	15	42162064	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	520645	42162064	60369328	1173	40207											
CAPN3	825	broad.mit.edu	37	chr15	42703188	42703188	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcttcgttaggctggaGggcatgttcagtaagtggga	7	12	16	6	1	1	0	1	0	0	0	2	2	1	2	0	4	2	7	0	4	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:42703188G>T	uc001zpn.1	+	22	2676	c.2370G>T	c.(2368-2370)GAG>GAT	p.E790D	CAPN3_uc001zpk.1_Missense_Mutation_p.E557D|CAPN3_uc001zpl.1_Missense_Mutation_p.E697D|CAPN3_uc010udf.1_Missense_Mutation_p.E703D|CAPN3_uc010udg.1_Missense_Mutation_p.E655D|CAPN3_uc001zpo.1_Missense_Mutation_p.E784D|CAPN3_uc001zpp.1_Missense_Mutation_p.E698D|CAPN3_uc001zpq.1_Missense_Mutation_p.E278D|CAPN3_uc010bcv.1_Missense_Mutation_p.E125D|CAPN3_uc001zpr.1_Missense_Mutation_p.E125D|CAPN3_uc001zps.1_Missense_Mutation_p.E125D|CAPN3_uc001zpt.1_Missense_Mutation_p.E125D	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	790	EF-hand 4.|Domain IV.				muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)		TTAGGCTGGAGGGCATGTTCA	0.517													18	52					2.27731e-05	2.37349e-05	1	1	0		T	42703188	T	T	42703188	3	4	55	1	0	0	0	0	1	0	0	0	2631	991	35	5	2508	5	CAPN3	15	42703188	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	541124	42703188	59828204	1174	40208											
UBR1	197131	broad.mit.edu	37	chr15	43378309	43378309	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaccattccagtggagtgaAtattgacatttgtacacttt	11	15	8	7	0	0	2	0	2	0	0	1	3	1	3	2	1	2	2	2	1	4	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:43378309A>G	uc001zqq.2	-	2	277	c.211T>C	c.(211-213)TTC>CTC	p.F71L	UBR1_uc010udk.1_Missense_Mutation_p.F71L	NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	71					cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			lung(1)	1		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		AGTGGAGTGAATATTGACATT	0.403													28	79					0	0	1	0	0		G	43378309	G	G	43378309	3	3	55	1	0	0	0	0	1	0	0	0	16927	101	4	3	5222	3	UBR1	15	43378309	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	675121	43378309	59153083	1175	40209											
CATSPER2	117155	broad.mit.edu	37	chr15	43924970	43924970	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaataggaagaggatgtggaGgagacacaggaggaagactg	16	4	18	3	0	0	3	0	0	0	3	0	10	0	8	0	6	0	0	0	6	4	1	rs140242525		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:43924970G>T	uc001zsh.2	-	11	1556	c.1341C>A	c.(1339-1341)TCC>TCA	p.S447S	STRC_uc010udz.1_5'Flank|CATSPER2_uc010bdm.2_Intron|CATSPER2_uc001zsi.2_Silent_p.S445S|CATSPER2_uc001zsj.2_Silent_p.S445S	NM_172095	NP_742093	Q96P56	CTSR2_HUMAN	sperm-associated cation channel 2 isoform 2	447	Cytoplasmic (Potential).|Ser-rich.				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|protein binding|voltage-gated ion channel activity			ovary(1)	1		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		aggatgtggaggagacacagg	0.264													3	28					0.115264	0.116059	1	1	0		T	43924970	T	T	43924970	2	4	55	1	0	0	0	0	0	0	0	1	2691	987	35	5		5	CATSPER2	15	43924970	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	546661	43924970	58606422	1176	40210											
CATSPER2	117155	broad.mit.edu	37	chr15	43925000	43925000	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggaagactggtactctctCttttttgacaaggtctcttc	8	15	9	9	0	3	2	0	1	3	1	6	4	3	3	0	3	1	1	0	3	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:43925000C>T	uc001zsh.2	-	11	1526	c.1311G>A	c.(1309-1311)AAG>AAA	p.K437K	STRC_uc010udz.1_5'Flank|CATSPER2_uc010bdm.2_Intron|CATSPER2_uc001zsi.2_Silent_p.K435K|CATSPER2_uc001zsj.2_Silent_p.K435K	NM_172095	NP_742093	Q96P56	CTSR2_HUMAN	sperm-associated cation channel 2 isoform 2	437	Cytoplasmic (Potential).|Ser-rich.				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|protein binding|voltage-gated ion channel activity			ovary(1)	1		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		GGTACTCTCTCTTTTTTGACA	0.294													14	27					0	0	1	0	0		T	43925000	T	T	43925000	2	4	55	1	0	0	0	0	0	0	0	1	2691	912	32	4		4	CATSPER2	15	43925000	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	30	43925000	58606392	1177	40211											
WDR76	79968	broad.mit.edu	37	chr15	44127316	44127316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaagaacatatcagaaaacGcagacttttttgcttctctt	13	14	6	8	1	2	4	1	1	1	3	3	4	2	4	0	0	3	2	0	0	5	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:44127316G>A	uc001zti.1	+	3	543	c.520G>A	c.(520-522)GCA>ACA	p.A174T		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	174											0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)		ATCAGAAAACGCAGACTTTTT	0.294													15	35					0	0	1	0	0		A	44127316	A	A	44127316	3	1	55	1	0	0	0	0	1	0	0	0	17352	1087	38	1	530	1	WDR76	15	44127316	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	202316	44127316	58404076	1178	40212											
DUOX1	53905	broad.mit.edu	37	chr15	45445636	45445636	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctccatcagccccctcagCgtcctctcttgcctctttcc	3	14	4	20	1	5	0	2	0	3	0	9	0	7	0	6	0	3	0	6	0	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:45445636C>T	uc001zus.1	+	27	3829	c.3483C>T	c.(3481-3483)AGC>AGT	p.S1161S	DUOX1_uc001zut.1_Silent_p.S1161S|DUOX1_uc010bee.1_Silent_p.S541S	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	1161	Helical; (Potential).|Interaction with TXNDC11 (By similarity).|Ferric oxidoreductase.				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		GCCCCCTCAGCGTCCTCTCTT	0.428													56	126					0	0	1	0	0		T	45445636	T	T	45445636	2	4	55	1	0	0	0	0	0	0	0	1	4806	767	27	1		1	DUOX1	15	45445636	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1318320	45445636	57085756	1179	40213											
SLC12A1	6557	broad.mit.edu	37	chr15	48566829	48566829	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccaaggatttgacatcTctcaggttcttcaggtgcaa	10	12	9	10	0	5	1	3	1	2	0	6	2	5	2	1	3	2	2	1	3	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:48566829T>C	uc001zwn.3	+	20	2680	c.2464T>C	c.(2464-2466)TCT>CCT	p.S822P	SLC12A1_uc010uew.1_Missense_Mutation_p.S628P|SLC12A1_uc001zwq.3_Missense_Mutation_p.S593P|SLC12A1_uc001zwr.3_Missense_Mutation_p.S549P	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	822	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	ATTTGACATCTCTCAGGTTCT	0.279													10	14					0	0	1	0	0		C	48566829	C	C	48566829	3	2	55	1	0	0	0	0	1	0	0	0	14407	1551	54	3	2638	3	SLC12A1	15	48566829	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	3121193	48566829	53964563	1180	40214											
HDC	3067	broad.mit.edu	37	chr15	50534848	50534848	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggccattttcccttttcatgGgaccggctcccacacgctga	6	11	9	15	2	1	1	1	1	0	0	3	2	3	2	4	3	0	2	4	3	0	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:50534848G>T	uc001zxz.2	-	12	1704	c.1598C>A	c.(1597-1599)CCC>CAC	p.P533H	HDC_uc001zxy.2_Missense_Mutation_p.P276H|HDC_uc010uff.1_Missense_Mutation_p.P500H	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	533					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	CCTTTTCATGGGACCGGCTCC	0.567													11	19					2.27111e-07	2.41443e-07	1	1	0		T	50534848	T	T	50534848	3	4	55	1	0	0	0	0	1	0	0	0	7031	1232	43	5	394	5	HDC	15	50534848	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1968019	50534848	51996544	1181	40215											
HDC	3067	broad.mit.edu	37	chr15	50544900	50544900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatccccttcagaaacccccGgaactcggggcacaggaagg	12	4	11	14	2	1	1	1	0	0	1	3	3	2	3	4	5	2	1	4	5	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:50544900G>A	uc001zxz.2	-	8	965	c.859C>T	c.(859-861)CGG>TGG	p.R287W	HDC_uc001zxy.2_Missense_Mutation_p.R30W|HDC_uc010uff.1_Missense_Mutation_p.R287W	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	287					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	AGAAACCCCCGGAACTCGGGG	0.557													13	17					0	0	1	0	0		A	50544900	A	A	50544900	3	1	55	1	0	0	0	0	1	0	0	0	7031	1115	39	1	1149	1	HDC	15	50544900	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	10052	50544900	51986492	1182	40216											
HDC	3067	broad.mit.edu	37	chr15	50546332	50546332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatcctgacttacaaagaCgggcaccaagccccgctgct	11	8	8	14	2	0	2	0	1	0	1	1	2	1	2	4	1	3	3	4	1	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:50546332C>T	uc001zxz.2	-	6	821	c.715G>A	c.(715-717)GTC>ATC	p.V239I	HDC_uc001zxy.2_5'Flank|HDC_uc010uff.1_Missense_Mutation_p.V239I|HDC_uc010bet.1_Missense_Mutation_p.V160I|HDC_uc010beu.1_Missense_Mutation_p.V239I	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	239					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	CTTACAAAGACGGGCACCAAG	0.463													11	25					0	0	1	0	0		T	50546332	T	T	50546332	3	4	55	1	0	0	0	0	1	0	0	0	7031	536	19	1	1301	1	HDC	15	50546332	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1432	50546332	51985060	1183	40217											
TRPM7	54822	broad.mit.edu	37	chr15	50925140	50925140	+	Frame_Shift_Del	DEL	T	-	-																															attctggccaaagttaaatgTttttttgatagtggaaataa																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:50925140delT	uc001zyt.3	-	9	1321	c.1057delA	c.(1057-1059)ACAfs	p.T353fs	TRPM7_uc010bew.1_Frame_Shift_Del_p.T353fs	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	353	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		AAGTTAAATGTTTTTTTGATA	0.338													11	21	---	---	---	---						.	-	50925140	-	-	50925140	7	5	55	1	0	1	0	1	0	0	0	0	16617	1725	60	0	4664	0	TRPM7	15	50925140	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	378808	50925140	51606252	1184	40218											
MYO5C	55930	broad.mit.edu	37	chr15	52534329	52534329	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaatcaactgatacaggctGcgaacaagatacccgcggca	14	5	10	12	4	1	2	1	1	0	1	1	4	1	2	1	2	5	2	1	2	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:52534329G>A	uc010bff.2	-	20	2609	c.2472C>T	c.(2470-2472)CGC>CGT	p.R824R	MYO5C_uc010uga.1_Intron|MYO5C_uc010ugb.1_Intron	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	824	IQ 3.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		GATACAGGCTGCGAACAAGAT	0.507													8	229					0	0	1	0	0		A	52534329	A	A	52534329	2	1	55	1	0	0	0	0	0	0	0	1	10098	1306	46	2		2	MYO5C	15	52534329	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1609189	52534329	49997063	1185	40219											
UNC13C	440279	broad.mit.edu	37	chr15	54786884	54786884	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaatggttttataatgaatAtgtgcgtgaacttcctgcct	11	16	8	6	1	0	2	0	2	0	0	1	2	1	2	2	1	3	1	2	1	7	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:54786884A>G	uc002ack.2	+	18	5012	c.5012A>G	c.(5011-5013)TAT>TGT	p.Y1671C		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1671	MHD1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TATAATGAATATGTGCGTGAA	0.338													21	94					0	0	1	0	0		G	54786884	G	G	54786884	3	3	55	1	0	0	0	0	1	0	0	0	17012	449	16	3	5082	3	UNC13C	15	54786884	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2252555	54786884	47744508	1186	40220											
SLTM	79811	broad.mit.edu	37	chr15	59186705	59186705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacacctggacacctctgtgCttgaagacatagttacaatg	12	11	8	10	0	1	2	0	1	1	1	1	3	1	3	2	1	3	2	2	1	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:59186705C>T	uc002afp.2	-	10	1392	c.1304G>A	c.(1303-1305)AGC>AAC	p.S435N	SLTM_uc002afn.2_Missense_Mutation_p.S4N|SLTM_uc002afo.2_Missense_Mutation_p.S417N|SLTM_uc002afq.2_Missense_Mutation_p.S4N|SLTM_uc010bgd.2_Missense_Mutation_p.S4N	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	435	RRM.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						CACCTCTGTGCTTGAAGACAT	0.413													30	113					0	0	1	0	0		T	59186705	T	T	59186705	3	4	55	1	0	0	0	0	1	0	0	0	14779	797	28	2	1848	2	SLTM	15	59186705	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4399821	59186705	43344687	1187	40221											
FOXB1	27023	broad.mit.edu	37	chr15	60297193	60297193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggccgcaacacgtacagcGaccagaagccgccctactcg	10	3	10	18	6	0	1	0	0	0	1	1	2	0	1	5	1	5	2	5	1	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:60297193G>A	uc002agj.1	+	2	510	c.31G>A	c.(31-33)GAC>AAC	p.D11N	FOXB1_uc010bgh.1_Intron	NM_012182	NP_036314	Q99853	FOXB1_HUMAN	forkhead box B1	11					axon target recognition|cell migration in diencephalon|epithelial cell differentiation involved in mammary gland alveolus development|floor plate development|hypothalamus cell migration|inferior colliculus development|lactation|mammillothalamic axonal tract development|negative regulation of neuron apoptosis|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|telencephalon cell migration|visual learning	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|central_nervous_system(1)	2						CACGTACAGCGACCAGAAGCC	0.627													14	18					0	0	1	0	0		A	60297193	A	A	60297193	3	1	55	1	0	0	0	0	1	0	0	0	6006	1058	37	1	33	1	FOXB1	15	60297193	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1110488	60297193	42234199	1188	40222											
RORA	6095	broad.mit.edu	37	chr15	60806925	60806925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacgaggacaggagtaggtgGcattgctttgctgacttctc	8	11	14	8	1	1	1	0	1	1	0	2	5	1	3	0	4	2	4	0	4	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:60806925G>A	uc002agv.2	-	5	569	c.413C>T	c.(412-414)GCC>GTC	p.A138V	uc002ags.1_Intron|RORA_uc002agt.3_Missense_Mutation_p.A50V|RORA_uc002agw.2_Missense_Mutation_p.A130V|RORA_uc002agx.2_Missense_Mutation_p.A105V	NM_134260	NP_599022	P35398	RORA_HUMAN	RAR-related orphan receptor A isoform b	138	Nuclear receptor.				positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			large_intestine(1)|ovary(1)	2						GGAGTAGGTGGCATTGCTTTG	0.433													30	53					0	0	1	0	0		A	60806925	A	A	60806925	3	1	55	1	0	0	0	0	1	0	0	0	13553	1203	42	2	1289	2	RORA	15	60806925	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	509732	60806925	41724467	1189	40223											
TPM1	7168	broad.mit.edu	37	chr15	63353977	63353977	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaagtcactggaggctcAggctgagaaggtaggccagg	10	7	16	8	0	2	2	2	2	0	1	2	4	2	3	1	6	0	3	1	6	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:63353977A>G	uc002alg.2	+	6	820	c.629A>G	c.(628-630)CAG>CGG	p.Q210R	TPM1_uc002alh.2_Intron|TPM1_uc010bgn.2_Intron|TPM1_uc002ali.2_Missense_Mutation_p.Q210R|TPM1_uc002alj.2_Missense_Mutation_p.Q210R|TPM1_uc002alk.2_Intron|TPM1_uc002all.2_Intron|TPM1_uc002alm.2_Missense_Mutation_p.Q252R|TPM1_uc010uie.1_Missense_Mutation_p.Q210R|TPM1_uc002alp.2_Missense_Mutation_p.Q210R|TPM1_uc010uif.1_Intron|TPM1_uc002alr.2_Intron|TPM1_uc002als.2_Missense_Mutation_p.Q174R|TPM1_uc010uig.1_Missense_Mutation_p.Q174R|TPM1_uc002alt.2_Intron|TPM1_uc010bgp.2_Intron	NM_001018005	NP_001018005	P09493	TPM1_HUMAN	tropomyosin 1 alpha chain isoform 1	210	By similarity.				cardiac muscle contraction|cellular component movement|cellular response to reactive oxygen species|muscle filament sliding|negative regulation of cell migration|positive regulation of ATPase activity|positive regulation of cell adhesion|positive regulation of heart rate by epinephrine|positive regulation of stress fiber assembly|regulation of muscle contraction|ruffle organization|sarcomere organization|ventricular cardiac muscle tissue morphogenesis|wound healing	bleb|cytosol|muscle thin filament tropomyosin|ruffle membrane|stress fiber	actin binding|structural constituent of cytoskeleton|structural constituent of muscle				0						CTGGAGGCTCAGGCTGAGAAG	0.483													3	23					0	0	1	0	0		G	63353977	G	G	63353977	3	3	55	1	0	0	0	0	1	0	0	0	16431	188	7	3	997	3	TPM1	15	63353977	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2547052	63353977	39177415	1190	40224											
CILP	8483	broad.mit.edu	37	chr15	65497795	65497795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcgctctgtgtctcggCgcagggatcctgcaaagtga	8	9	14	10	3	2	2	0	1	2	1	4	3	3	3	1	2	2	3	1	2	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:65497795C>T	uc002aon.2	-	5	615	c.434G>A	c.(433-435)CGC>CAC	p.R145H		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	145					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						TGTGTCTCGGCGCAGGGATCC	0.557													9	18					0	0	1	0	0		T	65497795	T	T	65497795	3	4	55	1	0	0	0	0	1	0	0	0	3432	768	27	1	3140	1	CILP	15	65497795	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2143818	65497795	37033597	1191	40225											
CILP	8483	broad.mit.edu	37	chr15	65499345	65499345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctcatagtcgcccttccCgcctgggtagtcgatgttga	5	11	11	14	4	1	1	1	1	0	0	4	2	2	1	4	1	0	3	4	1	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:65499345C>T	uc002aon.2	-	4	380	c.199G>A	c.(199-201)GGG>AGG	p.G67R		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	67					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						TCGCCCTTCCCGCCTGGGTAG	0.602													5	27					0	0	1	0	0		T	65499345	T	T	65499345	3	4	55	1	0	0	0	0	1	0	0	0	3432	652	23	1	3379	1	CILP	15	65499345	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1550	65499345	37032047	1192	40226											
IGDCC4	57722	broad.mit.edu	37	chr15	65681222	65681222	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggatcagatactccacgatCtccccgttgggctctgtggg	7	10	12	12	2	3	1	1	0	2	1	5	3	4	2	3	3	1	2	3	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:65681222C>T	uc002aou.1	-	15	2841	c.2631G>A	c.(2629-2631)GAG>GAA	p.E877E	IGDCC4_uc002aot.1_Silent_p.E465E	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	877	Extracellular (Potential).|Fibronectin type-III 5.					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						ACTCCACGATCTCCCCGTTGG	0.667													25	61					0	0	1	0	0		T	65681222	T	T	65681222	2	4	55	1	0	0	0	0	0	0	0	1	7585	912	32	4		4	IGDCC4	15	65681222	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	181877	65681222	36850170	1193	40227											
SMAD6	4091	broad.mit.edu	37	chr15	67073733	67073733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgggcctgcagcacgcgcccGagcccgacgccgccgacggc	5	1	15	20	9	0	0	0	0	0	0	0	3	0	0	5	2	3	2	5	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:67073733G>A	uc002aqf.2	+	4	2274	c.1351G>A	c.(1351-1353)GAG>AAG	p.E451K	SMAD6_uc010bhx.2_RNA|SMAD6_uc002aqg.2_Missense_Mutation_p.E190K	NM_005585	NP_005576	O43541	SMAD6_HUMAN	SMAD family member 6 isoform 1	451	MH2.				BMP signaling pathway|immune response|negative regulation of apoptosis|negative regulation of BMP signaling pathway|negative regulation of caspase activity|negative regulation of pathway-restricted SMAD protein phosphorylation|negative regulation of SMAD protein complex assembly|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of S phase of mitotic cell cycle|response to laminar fluid shear stress|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	cytosol|transcription factor complex	co-SMAD binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, inhibitory cytoplasmic mediator activity|type I activin receptor binding|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			skin(1)	1						GCACGCGCCCGAGCCCGACGC	0.726													5	11					0	0	1	0	0		A	67073733	A	A	67073733	3	1	55	1	0	0	0	0	1	0	0	0	14787	1059	37	1	1403	1	SMAD6	15	67073733	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1392511	67073733	35457659	1194	40228											
SMAD3	4088	broad.mit.edu	37	chr15	67457691	67457691	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaaaacactaacttcccCgcaggcatcgagccccagag	12	4	8	17	3	0	1	0	0	0	1	2	3	1	1	5	1	3	2	5	1	3	2	rs138395233		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:67457691C>A	uc002aqj.2	+	3	799	c.501C>A	c.(499-501)CCC>CCA	p.P167P	SMAD3_uc010ujr.1_Silent_p.P62P|SMAD3_uc010ujs.1_Silent_p.P123P|SMAD3_uc010ujt.1_5'Flank	NM_005902	NP_005893	P84022	SMAD3_HUMAN	mothers against decapentaplegic homolog 3	167	Linker.				activation of caspase activity|cell cycle arrest|cell-cell junction organization|evasion of host defenses by virus|immune response|induction of apoptosis|negative regulation of cell growth|negative regulation of mitotic cell cycle|negative regulation of protein catabolic process|negative regulation of protein phosphorylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|protein stabilization|regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|transport|wound healing	cytosol|nuclear inner membrane|receptor complex	beta-catenin binding|co-SMAD binding|metal ion binding|protein homodimerization activity|protein kinase binding|R-SMAD binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor binding|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|ubiquitin protein ligase binding			large_intestine(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5				Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(7;0.125)		CTAACTTCCCCGCAGGCATCG	0.627													6	234					5.18039e-06	5.43151e-06	1	1	0		A	67457691	A	A	67457691	2	1	55	1	0	0	0	0	0	0	0	1	14784	639	23	5		5	SMAD3	15	67457691	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	383958	67457691	35073701	1195	40229											
GRAMD2	196996	broad.mit.edu	37	chr15	72459385	72459385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccattgggaaggagccgtgCcatcttgtgttttttgatca	7	15	11	8	1	2	1	1	1	1	0	3	3	3	3	3	2	2	1	3	2	1	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:72459385C>T	uc002atq.2	-	6	445	c.421G>A	c.(421-423)GCA>ACA	p.A141T	GRAMD2_uc010bis.2_Missense_Mutation_p.A141T	NM_001012642	NP_001012660	Q8IUY3	GRAM2_HUMAN	GRAM domain containing 2	141						integral to membrane					0						AGGAGCCGTGCCATCTTGTGT	0.572													14	60					0	0	1	0	0		T	72459385	T	T	72459385	3	4	55	1	0	0	0	0	1	0	0	0	6766	739	26	2	671	2	GRAMD2	15	72459385	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5001694	72459385	30072007	1196	40230											
HCN4	10021	broad.mit.edu	37	chr15	73617718	73617718	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagcggtgctcgtagtagTcgtggatgcgctgccgggtg	4	10	19	8	5	0	0	0	0	0	0	2	1	0	1	1	4	4	5	1	4	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:73617718T>C	uc002avp.2	-	5	2652	c.1658A>G	c.(1657-1659)GAC>GGC	p.D553G		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	553	Cytoplasmic (Potential).		D -> N (in a patient with cardiac arrhythmia).		blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		CTCGTAGTAGTCGTGGATGCG	0.652													38	141					0	0	1	0	0		C	73617718	C	C	73617718	3	2	55	1	0	0	0	0	1	0	0	0	7015	1667	58	3	1969	3	HCN4	15	73617718	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1158333	73617718	28913674	1197	40231											
CSK	1445	broad.mit.edu	37	chr15	75090973	75090973	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggccgcctggccatccggTacagaatgtattgccaagta	10	8	11	12	2	0	1	0	0	0	1	1	1	1	1	5	3	2	3	5	3	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:75090973T>C	uc010bkb.1	+	4	216	c.33T>C	c.(31-33)GGT>GGC	p.G11G	CSK_uc010bka.2_Missense_Mutation_p.Y82H|CSK_uc002ays.2_Silent_p.G11G|CSK_uc010bkc.1_5'Flank	NM_001127190	NP_001120662	P41240	CSK_HUMAN	c-src tyrosine kinase	11	Interaction with PTPN8 (By similarity).|SH3.				blood coagulation|epidermal growth factor receptor signaling pathway|T cell costimulation|T cell receptor signaling pathway	centrosome|cytosol|Golgi apparatus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein C-terminus binding			lung(2)|central_nervous_system(1)	3						GGCCATCCGGTACAGAATGTA	0.632													11	31					0	0	1	0	0		C	75090973	C	C	75090973	2	2	55	1	0	0	0	0	0	0	0	1	3946	1625	57	3		3	CSK	15	75090973	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1473255	75090973	27440419	1198	40232											
LMAN1L	79748	broad.mit.edu	37	chr15	75108796	75108796	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacacccggggcaggggccAtgtaggctctgtccttgggg	5	8	17	11	1	1	0	0	0	1	0	2	0	2	0	3	7	1	4	3	7	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:75108796A>G	uc002ayt.1	+	3	361	c.359A>G	c.(358-360)CAT>CGT	p.H120R	LMAN1L_uc010bkd.2_Missense_Mutation_p.H48R|LMAN1L_uc010ulo.1_Intron|LMAN1L_uc010bke.1_Missense_Mutation_p.H120R	NM_021819	NP_068591	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like precursor	120	Lumenal (Potential).|L-type lectin-like.					ER-Golgi intermediate compartment membrane|integral to membrane	sugar binding				0						GGCAGGGGCCATGTAGGCTCT	0.632													42	55					0	0	1	0	0		G	75108796	G	G	75108796	3	3	55	1	0	0	0	0	1	0	0	0	8854	217	8	3	369	3	LMAN1L	15	75108796	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	17823	75108796	27422596	1199	40233											
SCAMP2	10066	broad.mit.edu	37	chr15	75142904	75142904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaggaaggcacagggagTgaagatcagaaaccacagga	19	2	13	7	0	1	3	1	1	0	2	1	6	1	6	1	4	1	1	1	4	4	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:75142904T>C	uc002azb.1	-	6	657	c.583A>G	c.(583-585)ACT>GCT	p.T195A	SCAMP2_uc002aza.1_Missense_Mutation_p.T45A|SCAMP2_uc010bkg.1_Intron	NM_005697	NP_005688	O15127	SCAM2_HUMAN	secretory carrier membrane protein 2	195	Helical; (Potential).				post-Golgi vesicle-mediated transport|protein transport	integral to membrane|nucleus|recycling endosome membrane|trans-Golgi network membrane	protein binding			ovary(1)	1						GCACAGGGAGTGAAGATCAGA	0.557													7	119					0	0	1	0	0		C	75142904	C	C	75142904	3	2	55	1	0	0	0	0	1	0	0	0	13896	1696	59	3	422	3	SCAMP2	15	75142904	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	34108	75142904	27388488	1200	40234											
NEIL1	79661	broad.mit.edu	37	chr15	75641547	75641547	+	Frame_Shift_Del	DEL	T	-	-																															cacgccatgcccacctgcgcTtttacacggccccgcctggc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:75641547delT	uc002bad.2	+	2	807	c.301delT	c.(301-303)TTTfs	p.F101fs	NEIL1_uc002bae.2_Frame_Shift_Del_p.F187fs	NM_024608	NP_078884	Q96FI4	NEIL1_HUMAN	nei endonuclease VIII-like 1	101					base-excision repair|negative regulation of nuclease activity|nucleotide-excision repair|response to oxidative stress	cytoplasm|nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|protein C-terminus binding|zinc ion binding			ovary(1)	1						CCACCTGCGCTTTTACACGGC	0.701								BER_DNA_glycosylases					22	50	---	---	---	---						.	-	75641547	-	-	75641547	7	5	55	1	0	1	0	1	0	0	0	0	10337	1609	56	0	303	0	NEIL1	15	75641547	Frame_Shift_Del	DEL	T	TCGA-BR-7851-01A-11D-2201-08	498643	75641547	26889845	1201	40235											
NEIL1	79661	broad.mit.edu	37	chr15	75644525	75644525	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccctcctggaccagaggTtcttcaatggcattggcaac	9	9	11	12	0	2	1	1	0	1	1	3	2	3	2	3	5	1	3	3	5	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:75644525T>C	uc002bad.2	+	3	1014	c.508T>C	c.(508-510)TTC>CTC	p.F170L	NEIL1_uc002bae.2_Missense_Mutation_p.F256L	NM_024608	NP_078884	Q96FI4	NEIL1_HUMAN	nei endonuclease VIII-like 1	170					base-excision repair|negative regulation of nuclease activity|nucleotide-excision repair|response to oxidative stress	cytoplasm|nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|protein C-terminus binding|zinc ion binding			ovary(1)	1						GGACCAGAGGTTCTTCAATGG	0.592								BER_DNA_glycosylases					9	53					0	0	1	0	0		C	75644525	C	C	75644525	3	2	55	1	0	0	0	0	1	0	0	0	10337	1725	60	3	514	3	NEIL1	15	75644525	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2978	75644525	26886867	1202	40236											
NEIL1	79661	broad.mit.edu	37	chr15	75644698	75644698	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctttgagaaggcccgctcGgtcctggaggccctgcagca	6	7	13	15	2	0	1	0	1	0	1	2	3	1	2	4	4	2	3	4	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:75644698G>A	uc002bad.2	+	4	1094	c.588G>A	c.(586-588)TCG>TCA	p.S196S	NEIL1_uc002bae.2_Silent_p.S282S	NM_024608	NP_078884	Q96FI4	NEIL1_HUMAN	nei endonuclease VIII-like 1	196					base-excision repair|negative regulation of nuclease activity|nucleotide-excision repair|response to oxidative stress	cytoplasm|nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|protein C-terminus binding|zinc ion binding			ovary(1)	1						AGGCCCGCTCGGTCCTGGAGG	0.652								BER_DNA_glycosylases					33	81					0	0	1	0	0		A	75644698	A	A	75644698	2	1	55	1	0	0	0	0	0	0	0	1	10337	1103	39	1		1	NEIL1	15	75644698	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	173	75644698	26886694	1203	40237											
SIN3A	25942	broad.mit.edu	37	chr15	75706642	75706642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggtcaagataagatagcGcatcctccacctgaggcagg	11	7	11	12	1	1	3	1	1	0	2	3	3	3	3	4	3	1	2	4	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:75706642G>A	uc002bai.2	-	4	636	c.377C>T	c.(376-378)GCG>GTG	p.A126V	SIN3A_uc002baj.2_Missense_Mutation_p.A126V|SIN3A_uc010uml.1_Missense_Mutation_p.A126V	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	126	Interaction with HCFC1.|PAH 1.				blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						ATAAGATAGCGCATCCTCCAC	0.353													6	19					0	0	1	0	0		A	75706642	A	A	75706642	3	1	55	1	0	0	0	0	1	0	0	0	14350	1087	38	1	3516	1	SIN3A	15	75706642	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	61944	75706642	26824750	1204	40238											
SGK269	79834	broad.mit.edu	37	chr15	77473630	77473630	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttactaatcacttctgtgctCccactcagaataacatgctt	11	14	4	12	0	3	1	2	0	1	1	4	1	4	1	1	0	4	2	1	0	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:77473630C>A	uc002bcm.2	-	3	947	c.639G>T	c.(637-639)GGG>GGT	p.G213G	SGK269_uc002bcn.2_Silent_p.G213G	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	213					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		CTTCTGTGCTCCCACTCAGAA	0.443													5	163					0.184627	0.185368	1	1	0		A	77473630	A	A	77473630	2	1	55	1	0	0	0	0	0	0	0	1	14236	842	30	5		5	SGK269	15	77473630	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1766988	77473630	25057762	1205	40239											
ZFAND6	54469	broad.mit.edu	37	chr15	80414053	80414053	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcaatgtggtactgttacaGcaacctctgtcagtagtctg	9	12	10	10	1	3	0	1	0	2	0	3	0	3	0	1	1	4	5	1	1	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:80414053G>A	uc002bfe.1	+	4	466	c.155_splice	c.e4-1	p.A52_splice	ZFAND6_uc002bff.1_Splice_Site_p.A52_splice|ZFAND6_uc002bfg.1_Intron|ZFAND6_uc002bfh.1_Splice_Site_p.A52_splice|ZFAND6_uc002bfi.1_Splice_Site_p.A52_splice	NM_019006	NP_061879	Q6FIF0	ZFAN6_HUMAN	zinc finger, AN1-type domain 6								DNA binding|zinc ion binding				0						TACTGTTACAGCAACCTCTGT	0.398													9	37					0	0	1	0	0		A	80414053	A	A	80414053	5	1	55	1	0	0	0	0	0	0	1	0	17656	985	34	2	160	2	ZFAND6	15	80414053	Splice_Site	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2940423	80414053	22117339	1206	40240											
HOMER2	9455	broad.mit.edu	37	chr15	83523551	83523551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacttcttcacgttggctgCgctgcaggacagggacgggc	6	8	14	13	3	2	0	1	0	1	0	2	2	2	2	1	4	2	4	1	4	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:83523551C>T	uc002bjg.2	-	6	715	c.529G>A	c.(529-531)GCA>ACA	p.A177T	HOMER2_uc002bjh.2_Missense_Mutation_p.A166T|HOMER2_uc002bjj.2_Missense_Mutation_p.A166T|HOMER2_uc002bji.2_Missense_Mutation_p.A177T	NM_199330	NP_955362	Q9NSB8	HOME2_HUMAN	homer 2 isoform 2	177	Potential.				metabotropic glutamate receptor signaling pathway	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane					0						ACGTTGGCTGCGCTGCAGGAC	0.672													6	89					0	0	1	0	0		T	83523551	T	T	83523551	3	4	55	1	0	0	0	0	1	0	0	0	7295	782	27	1	551	1	HOMER2	15	83523551	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3109498	83523551	19007841	1207	40241											
MFGE8	4240	broad.mit.edu	37	chr15	89453092	89453092	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaggggaagacatctcctcGcacttcttgggaaatctcct	9	10	10	12	2	3	1	0	0	3	1	6	4	3	3	2	3	0	1	2	3	2	2	rs141213799		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:89453092G>A	uc002bng.3	-	2	249	c.136C>T	c.(136-138)CGA>TGA	p.R46*	MFGE8_uc002bnf.3_5'UTR|MFGE8_uc002bnh.3_Nonsense_Mutation_p.R46*|MFGE8_uc010bnn.2_Nonsense_Mutation_p.R38*|MFGE8_uc010upq.1_Intron|MFGE8_uc010upr.1_Nonsense_Mutation_p.R46*|MFGE8_uc010bno.2_Intron	NM_005928	NP_005919	Q08431	MFGM_HUMAN	milk fat globule-EGF factor 8 protein isoform a	46	Cell attachment site.|EGF-like.				angiogenesis|cell adhesion|interspecies interaction between organisms|single fertilization					ovary(1)	1	Lung NSC(78;0.0392)|all_lung(78;0.077)					ACATCTCCTCGCACTTCTTGG	0.532													39	69					0	0	1	0	0		A	89453092	A	A	89453092	4	1	55	1	0	0	0	0	0	1	0	0	9538	1095	38	1	1055	1	MFGE8	15	89453092	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5929541	89453092	13078300	1208	40242											
C15orf42	90381	broad.mit.edu	37	chr15	90168494	90168494	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcctgtacccccacccaCggcccttctagtaccccctc	6	7	6	22	1	1	0	0	0	1	0	2	0	1	0	7	2	2	2	7	2	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:90168494C>T	uc002boe.2	+	20	4953	c.4953C>T	c.(4951-4953)CAC>CAT	p.H1651H	C15orf42_uc010upv.1_RNA	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1651					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			CCCCCACCCACGGCCCTTCTA	0.577													16	35					0	0	1	0	0		T	90168494	T	T	90168494	2	4	55	1	0	0	0	0	0	0	0	1	1799	535	19	1		1	C15orf42	15	90168494	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	715402	90168494	12362898	1209	40243											
KIF7	374654	broad.mit.edu	37	chr15	90190140	90190140	+	Frame_Shift_Del	DEL	C	-	-																															ccagcacatgggcgtgggcaCcccccaggggggctgtatga																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:90190140delC	uc002bof.2	-	7	1786	c.1709delG	c.(1708-1710)GGTfs	p.G570fs	KIF7_uc010upw.1_Frame_Shift_Del_p.G57fs	NM_198525	NP_940927	Q2M1P5	KIF7_HUMAN	kinesin family member 7	570					microtubule-based movement|negative regulation of smoothened signaling pathway|positive regulation of smoothened signaling pathway	cilium	ATP binding|microtubule motor activity|protein binding			ovary(2)|lung(1)	3	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GGCGTGGGCACCCCCCAGGGG	0.687											OREG0023460	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	57	---	---	---	---						.	-	90190140	-	-	90190140	7	5	55	1	0	1	0	1	0	0	0	0	8325	507	18	0	2374	0	KIF7	15	90190140	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	21646	90190140	12341252	1210	40244											
SEMA4B	10509	broad.mit.edu	37	chr15	90764988	90764988	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtgtcccgcattgcccgCatctgcaaggtgaggggaac	8	9	13	11	2	1	1	0	1	1	0	2	2	2	2	2	3	3	3	2	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:90764988C>T	uc002boy.2	+	8	1135	c.852C>T	c.(850-852)CGC>CGT	p.R284R	SEMA4B_uc002boz.2_Silent_p.R284R|SEMA4B_uc010uqd.1_Silent_p.R122R|SEMA4B_uc002bpa.2_Silent_p.R122R|SEMA4B_uc010bnv.1_5'UTR	NM_020210	NP_064595			semaphorin 4B precursor											ovary(1)|breast(1)|kidney(1)	3	Melanoma(11;0.00551)|Lung NSC(78;0.0125)|all_lung(78;0.0272)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.217)			GCATTGCCCGCATCTGCAAGG	0.552											OREG0023469	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	11					0	0	1	0	0		T	90764988	T	T	90764988	2	4	55	1	0	0	0	0	0	0	0	1	14057	697	25	2		2	SEMA4B	15	90764988	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	574848	90764988	11766404	1211	40245											
FURIN	5045	broad.mit.edu	37	chr15	91424619	91424619	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactatagcaccgagaatgaCgtggagaccatccgggccag	12	5	12	12	3	0	3	0	1	0	2	1	5	1	3	4	2	1	1	4	2	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:91424619C>T	uc002bpu.1	+	16	2112	c.1896C>T	c.(1894-1896)GAC>GAT	p.D632D		NM_002569	NP_002560	P09958	FURIN_HUMAN	furin preproprotein	632	Cys-rich.				cell proliferation|negative regulation of low-density lipoprotein particle receptor catabolic process|negative regulation of transforming growth factor-beta1 production|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|Notch signaling pathway|peptide biosynthetic process|peptidyl-glutamic acid carboxylation|post-translational protein modification|secretion by cell|signal peptide processing|transforming growth factor beta receptor signaling pathway|viral assembly, maturation, egress, and release	cell surface|Golgi lumen|Golgi membrane|integral to membrane|membrane raft|plasma membrane|trans-Golgi network|trans-Golgi network transport vesicle	metal ion binding|nerve growth factor binding|peptide binding|protease binding|serine-type endopeptidase activity|serine-type endopeptidase inhibitor activity			central_nervous_system(4)|lung(2)|breast(1)	7	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			CCGAGAATGACGTGGAGACCA	0.662													20	77					0	0	1	0	0		T	91424619	T	T	91424619	2	4	55	1	0	0	0	0	0	0	0	1	6113	535	19	1		1	FURIN	15	91424619	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	659631	91424619	11106773	1212	40246											
SLCO3A1	28232	broad.mit.edu	37	chr15	92397293	92397293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtgcgccctgatgctggCgcagggcacggtgggcgcct	4	6	18	13	5	0	1	0	1	0	0	0	2	0	1	2	4	2	3	2	4	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:92397293C>T	uc002bqx.2	+	1	356	c.155C>T	c.(154-156)GCG>GTG	p.A52V	SLCO3A1_uc002bqy.2_Missense_Mutation_p.A52V|SLCO3A1_uc010boc.1_5'Flank|SLCO3A1_uc002bqz.1_5'Flank	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,	52	Helical; Name=1; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			CTGATGCTGGCGCAGGGCACG	0.657													3	6					0	0	1	0	0		T	92397293	T	T	92397293	3	4	55	1	0	0	0	0	1	0	0	0	14753	768	27	1	157	1	SLCO3A1	15	92397293	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	972674	92397293	10134099	1213	40247											
IGF1R	3480	broad.mit.edu	37	chr15	99465555	99465555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaactgtcatttctaaccttCggcctttcacattgtaccgc	8	14	6	13	2	3	0	2	0	1	0	4	1	3	0	3	1	3	1	3	1	3	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:99465555C>T	uc002bul.2	+	11	2430	c.2380C>T	c.(2380-2382)CGG>TGG	p.R794W	IGF1R_uc010urq.1_Missense_Mutation_p.R794W|IGF1R_uc010bon.2_Missense_Mutation_p.R794W|IGF1R_uc010boo.1_5'Flank	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	794	Extracellular (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	TTCTAACCTTCGGCCTTTCAC	0.517													16	25					0	0	1	0	0		T	99465555	T	T	99465555	3	4	55	1	0	0	0	0	1	0	0	0	7587	875	31	1	2422	1	IGF1R	15	99465555	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	7068262	99465555	3065837	1214	40248											
LYSMD4	145748	broad.mit.edu	37	chr15	100269416	100269416	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctagtctgggggcttgccctGgaactgtacccattgccatc	6	11	11	13	0	1	0	0	0	1	0	2	1	1	1	3	3	4	2	3	3	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:100269416G>T	uc002bvk.2	-	3	866	c.803C>A	c.(802-804)CCA>CAA	p.P268Q	LYSMD4_uc002bvj.1_Intron|LYSMD4_uc010bou.1_Intron|LYSMD4_uc002bvl.2_Missense_Mutation_p.P269Q|LYSMD4_uc002bvm.2_3'UTR|LYSMD4_uc010bov.2_Missense_Mutation_p.P268Q			Q5XG99	LYSM4_HUMAN	SubName: Full=cDNA FLJ77040, highly similar to Homo sapiens LysM, putative peptidoglycan-binding, domain containing 4, mRNA; SubName: Full=LysM, putative peptidoglycan-binding, domain containing 4, isoform CRA_c;	268	Cytoplasmic (Potential).				cell wall macromolecule catabolic process	integral to membrane					0	Lung NSC(78;0.00335)|all_lung(78;0.00659)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00162)|LUSC - Lung squamous cell carcinoma(107;0.17)|Lung(145;0.208)			GGCTTGCCCTGGAACTGTACC	0.493													30	60					1.06647e-15	1.17366e-15	1	1	0		T	100269416	T	T	100269416	3	4	55	1	0	0	0	0	1	0	0	0	9145	1348	47	5	91	5	LYSMD4	15	100269416	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	803861	100269416	2261976	1215	40249											
LRRK1	79705	broad.mit.edu	37	chr15	101565120	101565120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggtggtctggaacctggCgctgggggaggaggccgtgg	4	7	22	8	3	1	0	0	0	1	0	1	3	1	3	2	9	1	1	2	9	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:101565120C>T	uc002bwr.2	+	16	2499	c.2180C>T	c.(2179-2181)GCG>GTG	p.A727V	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	727	Roc.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGGAACCTGGCGCTGGGGGAG	0.622													78	138					0	0	1	0	0		T	101565120	T	T	101565120	3	4	55	1	0	0	0	0	1	0	0	0	9050	768	27	1	2238	1	LRRK1	15	101565120	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1295704	101565120	966272	1216	40250											
OR4F6	390648	broad.mit.edu	37	chr15	102345982	102345982	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgggactctctgactcGcggaagatccagctcctcct	6	11	9	15	2	1	2	0	1	1	1	7	4	5	4	4	2	1	1	4	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr15:102345982G>A	uc010utr.1	+	1	60	c.60G>A	c.(58-60)TCG>TCA	p.S20S		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			TCTCTGACTCGCGGAAGATCC	0.493													17	107					0	0	1	0	0		A	102345982	A	A	102345982	2	1	55	1	0	0	0	0	0	0	0	1	11085	1074	38	1		1	OR4F6	15	102345982	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	780862	102345982	185410	1217	40251											
MSLNL	401827	broad.mit.edu	37	chr16	823247	823247	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggactcaagctctgcacagTcgtagtgcaccaggaagagg	12	6	13	10	1	2	1	1	0	1	1	3	3	2	3	1	3	3	4	1	3	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:823247T>C	uc002cjz.1	-	10	2021	c.2021A>G	c.(2020-2022)GAC>GGC	p.D674G		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	323	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						CTCTGCACAGTCGTAGTGCAC	0.632													3	66					0	0	1	0	0		C	823247	C	C	823247	3	2	55	1	0	0	0	0	1	0	0	0	9900	1667	58	3	1168	3	MSLNL	16	823247	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08		823247	89531506	1218	40252											
IFT140	9742	broad.mit.edu	37	chr16	1642178	1642178	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaccaaagttcctcaccGtccatcagactgacaaagaa	16	6	5	14	1	2	3	2	1	0	2	4	3	4	3	4	0	1	1	4	0	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:1642178G>A	uc002cmb.2	-	6	995	c.633C>T	c.(631-633)GAC>GAT	p.D211D		NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	211										ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				GTTCCTCACCGTCCATCAGAC	0.468													19	51					0	0	1	0	0		A	1642178	A	A	1642178	2	1	55	1	0	0	0	0	0	0	0	1	7572	1159	40	1		1	IFT140	16	1642178	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	818931	1642178	88712575	1219	40253											
CRAMP1L	57585	broad.mit.edu	37	chr16	1706049	1706049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcactggcaggagggcggcCggtgcaagcagagtgccaag	9	4	18	10	2	0	1	0	0	0	1	0	2	0	2	2	5	4	4	2	5	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:1706049C>T	uc010uvh.1	+	9	1291	c.1291C>T	c.(1291-1293)CGG>TGG	p.R431W	CRAMP1L_uc002cmf.2_Intron	NM_020825	NP_065876	Q96RY5	CRML_HUMAN	Crm, cramped-like	431						nucleus	DNA binding				0						GGAGGGCGGCCGGTGCAAGCA	0.682													7	13					0	0	1	0	0		T	1706049	T	T	1706049	3	4	55	1	0	0	0	0	1	0	0	0	3849	643	23	1	1325	1	CRAMP1L	16	1706049	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	63871	1706049	88648704	1220	40254											
ZNF598	90850	broad.mit.edu	37	chr16	2051135	2051135	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctgcgagcctcctcctgCtgctgtgcggccacggaggc	3	8	13	17	3	0	0	0	0	0	0	3	2	3	1	5	3	5	2	5	3	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:2051135C>T	uc002cof.1	-	9	1086	c.1071G>A	c.(1069-1071)CAG>CAA	p.Q357Q	ZNF598_uc002coe.1_5'UTR	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	357						intracellular	zinc ion binding			lung(1)|breast(1)	2						CCTCCTCCTGCTGCTGTGCGG	0.682													3	7					0	0	1	0	0		T	2051135	T	T	2051135	2	4	55	1	0	0	0	0	0	0	0	1	18053	796	28	2		2	ZNF598	16	2051135	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	345086	2051135	88303618	1221	40255											
PKD1	5310	broad.mit.edu	37	chr16	2160688	2160688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaggtagctggcggggcGcccacggcccacagcagaga	9	2	15	15	3	0	1	0	0	0	1	0	2	0	1	3	5	2	3	3	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:2160688G>A	uc002cos.1	-	15	4689	c.4480C>T	c.(4480-4482)CGC>TGC	p.R1494C	PKD1_uc002cot.1_Missense_Mutation_p.R1494C	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1494	Extracellular (Potential).|PKD 10.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CTGGCGGGGCGCCCACGGCCC	0.652													10	15					0	0	1	0	0		A	2160688	A	A	2160688	3	1	55	1	0	0	0	0	1	0	0	0	11982	1087	38	1	8559	1	PKD1	16	2160688	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	109553	2160688	88194065	1222	40256											
SRRM2	23524	broad.mit.edu	37	chr16	2814062	2814062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctcaggaggatgctactgCatcacctcctagacagaaag	12	7	9	13	0	2	2	2	0	0	2	3	4	3	4	3	2	3	2	3	2	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:2814062C>T	uc002crk.2	+	11	4082	c.3533C>T	c.(3532-3534)GCA>GTA	p.A1178V	SRRM2_uc002crj.1_Missense_Mutation_p.A1082V|SRRM2_uc002crl.1_Missense_Mutation_p.A1178V|SRRM2_uc010bsu.1_Missense_Mutation_p.A1082V	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1178	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GATGCTACTGCATCACCTCCT	0.473													25	57					0	0	1	0	0		T	2814062	T	T	2814062	3	4	55	1	0	0	0	0	1	0	0	0	15194	710	25	2	3571	2	SRRM2	16	2814062	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	653374	2814062	87540691	1223	40257											
SRRM2	23524	broad.mit.edu	37	chr16	2817604	2817604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgccggctccagaaccgccGcagccttggcccccgcgagc	5	5	12	19	5	0	1	0	0	0	1	1	2	1	1	7	2	4	2	7	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:2817604G>A	uc002crk.2	+	11	7624	c.7075G>A	c.(7075-7077)GCA>ACA	p.A2359T	SRRM2_uc002crj.1_Missense_Mutation_p.A2263T|SRRM2_uc002crl.1_Missense_Mutation_p.A2359T|SRRM2_uc010bsu.1_Missense_Mutation_p.A2263T	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2359	Ala-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CAGAACCGCCGCAGCCTTGGC	0.632													38	76					0	0	1	0	0		A	2817604	A	A	2817604	3	1	55	1	0	0	0	0	1	0	0	0	15194	1087	38	1	7113	1	SRRM2	16	2817604	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3542	2817604	87537149	1224	40258											
PRSS21	10942	broad.mit.edu	37	chr16	2871411	2871411	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtaacaagaatggactgtgGtatcagattggagtcgtgag	12	11	14	4	1	1	3	1	1	0	2	2	5	1	5	0	3	1	2	0	3	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:2871411G>T	uc002crt.2	+	6	856	c.750G>T	c.(748-750)TGG>TGT	p.W250C	PRSS21_uc002crs.2_Missense_Mutation_p.W248C|PRSS21_uc002crr.2_Missense_Mutation_p.W236C	NM_006799	NP_006790	Q9Y6M0	TEST_HUMAN	testisin isoform 1	250	Peptidase S1.				proteolysis	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	serine-type endopeptidase activity			ovary(1)|skin(1)	2						ATGGACTGTGGTATCAGATTG	0.612													4	60					2.56e-06	2.69701e-06	1	1	0		T	2871411	T	T	2871411	3	4	55	1	0	0	0	0	1	0	0	0	12640	1270	44	5	772	5	PRSS21	16	2871411	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	53807	2871411	87483342	1225	40259											
MMP25	64386	broad.mit.edu	37	chr16	3100409	3100409	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacatcctcatcgactttGcccgcgccttccaccaggac	7	8	7	19	4	1	0	1	0	0	0	4	3	3	1	6	1	1	0	6	1	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:3100409G>C	uc002cth.2	+	4	760	c.523G>C	c.(523-525)GCC>CCC	p.A175P	MMP25_uc002cti.1_Missense_Mutation_p.A111P	NM_022468	NP_071913	Q9NPA2	MMP25_HUMAN	matrix metalloproteinase 25 preproprotein	175					inflammatory response|proteolysis	anchored to membrane|cell surface|plasma membrane|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0						CATCGACTTTGCCCGCGCCTT	0.637													18	35					0	0	1	0	0		C	3100409	C	C	3100409	3	2	55	1	0	0	0	0	1	0	0	0	9680	1319	46	5	537	5	MMP25	16	3100409	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	228998	3100409	87254344	1226	40260											
ZSCAN10	84891	broad.mit.edu	37	chr16	3139433	3139433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctattgcggaaacggtggcCgcaggtgtcgcaggcgtggg	6	7	19	9	5	0	0	0	0	0	0	1	1	0	1	1	6	2	3	1	6	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:3139433C>T	uc002ctv.1	-	5	1925	c.1837G>A	c.(1837-1839)GGC>AGC	p.G613S	ZSCAN10_uc002cty.1_Missense_Mutation_p.G274S|ZSCAN10_uc002ctw.1_Missense_Mutation_p.G531S|ZSCAN10_uc002ctx.1_Missense_Mutation_p.G541S	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	613	C2H2-type 11.				negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						AAACGGTGGCCGCAGGTGTCG	0.711													14	24					0	0	1	0	0		T	3139433	T	T	3139433	3	4	55	1	0	0	0	0	1	0	0	0	18252	652	23	1	344	1	ZSCAN10	16	3139433	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	39024	3139433	87215320	1227	40261											
TIGD7	91151	broad.mit.edu	37	chr16	3349597	3349597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcttccatctatacagccGtttgcagctcaagatcacac	10	12	6	13	1	3	1	2	0	1	1	4	1	4	1	2	0	5	4	2	0	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:3349597G>A	uc002cus.2	-	1	1804	c.1018C>T	c.(1018-1020)CGG>TGG	p.R340W	ZNF263_uc002cur.2_3'UTR	NM_033208	NP_149985	Q6NT04	TIGD7_HUMAN	tigger transposable element derived 7	340	DDE.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						CTATACAGCCGTTTGCAGCTC	0.274													15	24					0	0	1	0	0		A	3349597	A	A	3349597	3	1	55	1	0	0	0	0	1	0	0	0	15926	1144	40	1	635	1	TIGD7	16	3349597	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	210164	3349597	87005156	1228	40262											
CREBBP	1387	broad.mit.edu	37	chr16	3777887	3777887	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagctggccatggtgactgcGagtccggggtggggggaacc	6	6	20	9	2	0	1	0	1	0	0	1	4	1	2	3	7	3	1	3	7	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:3777887G>A	uc002cvv.2	-	31	7365	c.7161C>T	c.(7159-7161)CTC>CTT	p.L2387L	CREBBP_uc002cvw.2_Silent_p.L2349L	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2387					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TGGTGACTGCGAGTCCGGGGT	0.642			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				44	118					0	0	1	0	0		A	3777887	A	A	3777887	2	1	55	1	0	0	0	0	0	0	0	1	3864	1045	37	1		1	CREBBP	16	3777887	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	428290	3777887	86576866	1229	40263											
CREBBP	1387	broad.mit.edu	37	chr16	3778282	3778282	+	Frame_Shift_Del	DEL	G	-	-																															gcccatggagctgccctggaGggggagatgctgctgcatgc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:3778282delG	uc002cvv.2	-	31	6970	c.6766delC	c.(6766-6768)CTCfs	p.L2256fs	CREBBP_uc002cvw.2_Frame_Shift_Del_p.L2218fs	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2256					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		CTGCCCTGGAGGGGGAGATGC	0.692			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				13	23	---	---	---	---						.	-	3778282	-	-	3778282	7	5	55	1	0	1	0	1	0	0	0	0	3864	1000	35	0	566	0	CREBBP	16	3778282	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	395	3778282	86576471	1230	40264											
CREBBP	1387	broad.mit.edu	37	chr16	3781302	3781302	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaccagcatgcagagcGtggaccacttggagcggcgc	8	5	14	14	3	0	1	0	0	0	1	1	3	1	3	3	3	4	3	3	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:3781302G>A	uc002cvv.2	-	30	5267	c.5063C>T	c.(5062-5064)ACG>ATG	p.T1688M	CREBBP_uc002cvw.2_Missense_Mutation_p.T1650M	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1688	Interaction with TRERF1.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		CATGCAGAGCGTGGACCACTT	0.632			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				4	30					0	0	1	0	0		A	3781302	A	A	3781302	3	1	55	1	0	0	0	0	1	0	0	0	3864	1145	40	1	2273	1	CREBBP	16	3781302	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3020	3781302	86573451	1231	40265											
CREBBP	1387	broad.mit.edu	37	chr16	3786655	3786655	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcagcgccgggtaccttgTagtcatggatgatccgctct	6	12	11	12	3	3	1	2	1	1	0	4	2	4	2	3	2	2	3	3	2	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:3786655T>C	uc002cvv.2	-	27	4760	c.4556A>G	c.(4555-4557)TAC>TGC	p.Y1519C	CREBBP_uc002cvw.2_Missense_Mutation_p.Y1481C	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1519	Interaction with TRERF1.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GGGTACCTTGTAGTCATGGAT	0.478			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				34	65					0	0	1	0	0		C	3786655	C	C	3786655	3	2	55	1	0	0	0	0	1	0	0	0	3864	1638	57	3	2792	3	CREBBP	16	3786655	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	5353	3786655	86568098	1232	40266											
SRL	6345	broad.mit.edu	37	chr16	4292061	4292061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagccgagcaggaccagcGccctcatggtgactgccaag	9	4	14	14	2	1	1	1	1	0	0	1	3	1	2	4	3	4	2	4	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:4292061G>A	uc002cvz.3	-	1	21	c.8C>T	c.(7-9)GCG>GTG	p.A3V	SRL_uc002cvy.3_RNA	NM_001098814	NP_001092284	Q86TD4	SRCA_HUMAN	sarcalumenin	3						sarcoplasmic reticulum lumen	GTP binding|GTPase activity			ovary(3)|skin(2)	5						CAGGACCAGCGCCCTCATGGT	0.667													6	14					0	0	1	0	0		A	4292061	A	A	4292061	3	1	55	1	0	0	0	0	1	0	0	0	15175	1087	38	1	1437	1	SRL	16	4292061	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	505406	4292061	86062692	1233	40267											
SEPT12	124404	broad.mit.edu	37	chr16	4834042	4834042	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtactgctcgtattgctcGttgatgtagcccaggatggg	7	12	14	8	2	0	1	0	1	0	0	2	2	0	2	1	3	4	6	1	3	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:4834042G>A	uc002cxq.2	-	5	543	c.402C>T	c.(400-402)AAC>AAT	p.N134N	SEPT12_uc002cxr.2_Intron|SEPT12_uc010bty.2_RNA	NM_144605	NP_653206	Q8IYM1	SEP12_HUMAN	septin 12 isoform 2	134					cell cycle|cell division	cleavage furrow|midbody|perinuclear region of cytoplasm|septin complex|spindle|stress fiber	GDP binding|GTP binding|phosphatidylinositol binding|protein homodimerization activity			skin(1)	1						CGTATTGCTCGTTGATGTAGC	0.627													47	118					0	0	1	0	0		A	4834042	A	A	4834042	2	1	55	1	0	0	0	0	0	0	0	1	14087	1136	40	1		1	SEPT12	16	4834042	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	541981	4834042	85520711	1234	40268											
A2BP1	54715	broad.mit.edu	37	chr16	7680608	7680608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctctctttcgtaggcaCggtcctgttgtgccaggcca	4	13	10	14	2	2	0	0	0	2	0	6	0	3	0	3	3	1	3	3	3	1	3	rs145006582		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:7680608C>T	uc002cys.2	+	11	1668	c.680C>T	c.(679-681)ACG>ATG	p.T227M	A2BP1_uc010buf.1_Missense_Mutation_p.T227M|A2BP1_uc002cyr.1_Missense_Mutation_p.T226M|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Missense_Mutation_p.T270M|A2BP1_uc010uya.1_Missense_Mutation_p.T184M|A2BP1_uc002cyv.1_Missense_Mutation_p.T227M|A2BP1_uc010uyb.1_Missense_Mutation_p.T227M|A2BP1_uc002cyw.2_Missense_Mutation_p.T247M|A2BP1_uc002cyy.2_Missense_Mutation_p.T247M|A2BP1_uc002cyx.2_Missense_Mutation_p.T247M|A2BP1_uc010uyc.1_Intron	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	227					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding	p.T247M(1)			0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		TTCGTAGGCACGGTCCTGTTG	0.498													12	43					0	0	1	0	0		T	7680608	T	T	7680608	3	4	55	1	0	0	0	0	1	0	0	0	3	536	19	1	801	1	A2BP1	16	7680608	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2846566	7680608	82674145	1235	40269											
NDE1	54820	broad.mit.edu	37	chr16	15781279	15781279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagcagcgcttgaatcaggCcatcgaaagaaatgccttcc	12	8	10	11	2	1	3	1	2	0	1	3	4	2	3	3	1	3	2	3	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:15781279C>T	uc002ddt.1	+	4	477	c.434C>T	c.(433-435)GCC>GTC	p.A145V	NDE1_uc010uzy.1_Missense_Mutation_p.A145V|NDE1_uc002dds.2_Missense_Mutation_p.A145V|NDE1_uc002ddu.1_Missense_Mutation_p.A82V	NM_017668	NP_060138	Q9NXR1	NDE1_HUMAN	nuclear distribution gene E homolog 1	145	Interaction with PAFAH1B1 (By similarity).|Potential.				cell differentiation|cell division|centrosome duplication|establishment of chromosome localization|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|mitotic prometaphase|nervous system development	cleavage furrow|condensed chromosome kinetochore|cytosol|microtubule|spindle pole centrosome	microtubule binding			ovary(1)	1						TTGAATCAGGCCATCGAAAGA	0.498													7	22					0	0	1	0	0		T	15781279	T	T	15781279	3	4	55	1	0	0	0	0	1	0	0	0	10262	739	26	2	448	2	NDE1	16	15781279	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	8100671	15781279	74573474	1236	40270											
MYH11	4629	broad.mit.edu	37	chr16	15813528	15813528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagatctcatctctggaggCacgggcatcttccagctctc	9	10	9	13	1	4	1	1	0	4	1	8	2	5	2	1	3	1	3	1	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:15813528C>T	uc002ddy.2	-	35	5103	c.4996G>A	c.(4996-4998)GCC>ACC	p.A1666T	MYH11_uc002ddv.2_Missense_Mutation_p.A1673T|MYH11_uc002ddw.2_Missense_Mutation_p.A1666T|MYH11_uc002ddx.2_Missense_Mutation_p.A1673T|MYH11_uc010bvg.2_Missense_Mutation_p.A1498T|NDE1_uc010uzy.1_Intron|NDE1_uc002dds.2_Intron|MYH11_uc010bvh.2_Missense_Mutation_p.A372T|NDE1_uc002ddz.1_5'Flank	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1666	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						TCTCTGGAGGCACGGGCATCT	0.512			T	CBFB	AML								25	60					0	0	1	0	0		T	15813528	T	T	15813528	3	4	55	1	0	0	0	0	1	0	0	0	10049	710	25	2	985	2	MYH11	16	15813528	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	32249	15813528	74541225	1237	40271											
SMG1	23049	broad.mit.edu	37	chr16	18880551	18880551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catctgtcttcaggagattgCgtggaattgttgactggtca	8	14	12	7	1	4	2	2	1	2	1	4	4	4	3	0	3	1	1	0	3	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:18880551C>T	uc002dfm.2	-	20	3071	c.2708G>A	c.(2707-2709)CGC>CAC	p.R903H	SMG1_uc010bwb.2_Missense_Mutation_p.R763H	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	903	Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						CAGGAGATTGCGTGGAATTGT	0.468													12	23					0	0	1	0	0		T	18880551	T	T	18880551	3	4	55	1	0	0	0	0	1	0	0	0	14820	768	27	1	8453	1	SMG1	16	18880551	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3067023	18880551	71474202	1238	40272											
C16orf62	57020	broad.mit.edu	37	chr16	19702698	19702698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actccaacgacagcctctacGggggagactccaagttcctg	10	7	10	14	2	1	1	0	0	1	1	4	3	4	1	4	2	3	1	4	2	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:19702698G>A	uc002dgn.1	+	29	2563	c.2551G>A	c.(2551-2553)GGG>AGG	p.G851R	C16orf62_uc002dgo.1_Missense_Mutation_p.G758R|C16orf62_uc002dgp.1_Missense_Mutation_p.G600R	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	851						integral to membrane				ovary(1)	1						CAGCCTCTACGGGGGAGACTC	0.572													3	37					0	0	1	0	0		A	19702698	A	A	19702698	3	1	55	1	0	0	0	0	1	0	0	0	1828	1116	39	1	2665	1	C16orf62	16	19702698	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	822147	19702698	70652055	1239	40273											
GGA2	23062	broad.mit.edu	37	chr16	23480253	23480253	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgagatatcacagctggaGgcatcaaaggactgaatgca	14	8	11	8	0	3	2	2	2	1	1	3	5	3	4	0	3	2	3	0	3	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:23480253G>T	uc002dlq.2	-	16	1761	c.1685C>A	c.(1684-1686)CCT>CAT	p.P562H		NM_015044	NP_055859	Q9UJY4	GGA2_HUMAN	ADP-ribosylation factor binding protein 2	562	GAE.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|clathrin-coated vesicle|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.0386)		CACAGCTGGAGGCATCAAAGG	0.507													21	56					6.38683e-12	6.93722e-12	1	1	0		T	23480253	T	T	23480253	3	4	55	1	0	0	0	0	1	0	0	0	6368	1000	35	5	164	5	GGA2	16	23480253	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3777555	23480253	66874500	1240	40274											
TNRC6A	27327	broad.mit.edu	37	chr16	24801392	24801392	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagaataatgagctgcctAgtagtaacacaggggcctgg	12	8	13	8	0	0	2	0	1	0	1	0	2	0	2	2	3	4	4	2	3	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:24801392A>G	uc002dmm.2	+	6	1543	c.1429A>G	c.(1429-1431)AGT>GGT	p.S477G	TNRC6A_uc010bxs.2_Missense_Mutation_p.S224G|TNRC6A_uc010vcc.1_Missense_Mutation_p.S224G|TNRC6A_uc002dmn.2_Missense_Mutation_p.S224G|TNRC6A_uc002dmo.2_Missense_Mutation_p.S224G	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	477	Sufficient for interaction with EIF2C2.|Sufficient for interaction with EIF2C1, EIF2C3 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		TGAGCTGCCTAGTAGTAACAC	0.443													13	28					0	0	1	0	0		G	24801392	G	G	24801392	3	3	55	1	0	0	0	0	1	0	0	0	16365	420	15	3	1451	3	TNRC6A	16	24801392	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1321139	24801392	65553361	1241	40275											
ZKSCAN2	342357	broad.mit.edu	37	chr16	25251835	25251835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaaggcctctgatgcacaaCggctttccctaaatctctag	12	10	7	12	1	2	1	0	1	2	0	4	1	3	1	2	2	2	2	2	2	6	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:25251835C>T	uc002dod.3	-	7	2613	c.2206G>A	c.(2206-2208)GTT>ATT	p.V736I	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.V532I	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	736					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		TGATGCACAACGGCTTTCCCT	0.473													22	29					0	0	1	0	0		T	25251835	T	T	25251835	3	4	55	1	0	0	0	0	1	0	0	0	17712	536	19	1	701	1	ZKSCAN2	16	25251835	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	450443	25251835	65102918	1242	40276											
HS3ST4	9951	broad.mit.edu	37	chr16	26147016	26147016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaaatgaggctcccaagcGcattcactccatggccaagg	12	6	10	13	1	1	1	1	1	0	0	3	2	3	1	3	3	1	2	3	3	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:26147016G>A	uc002dof.2	+	2	1210	c.818G>A	c.(817-819)CGC>CAC	p.R273H		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	273	Lumenal (Potential).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		GCTCCCAAGCGCATTCACTCC	0.493													20	40					0	0	1	0	0		A	26147016	A	A	26147016	3	1	55	1	0	0	0	0	1	0	0	0	7383	1087	38	1	824	1	HS3ST4	16	26147016	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	895181	26147016	64207737	1243	40277											
KIAA0556	23247	broad.mit.edu	37	chr16	27761081	27761081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcagcaaaagagcagcCggcacagcgacttgcccccc	10	4	10	17	2	0	1	0	0	0	1	1	2	1	1	5	1	6	4	5	1	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:27761081C>T	uc002dow.2	+	16	2824	c.2800C>T	c.(2800-2802)CGG>TGG	p.R934W		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	934										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						AAAGAGCAGCCGGCACAGCGA	0.642													4	18					0	0	1	0	0		T	27761081	T	T	27761081	3	4	55	1	0	0	0	0	1	0	0	0	8199	643	23	1	2862	1	KIAA0556	16	27761081	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1614065	27761081	62593672	1244	40278											
XPO6	23214	broad.mit.edu	37	chr16	28164076	28164076	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggtgaacactcacaaagagCcgaagaaagtcagtaaactt	18	6	9	8	1	2	3	2	1	0	2	2	4	2	3	1	1	3	1	1	1	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:28164076C>T	uc002dpa.1	-	8	1629	c.1128G>A	c.(1126-1128)CGG>CGA	p.R376R	XPO6_uc002dpb.1_Silent_p.R362R|XPO6_uc010vcp.1_Silent_p.R376R	NM_015171	NP_055986	Q96QU8	XPO6_HUMAN	exportin 6	376					protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2						TCACAAAGAGCCGAAGAAAGT	0.393													5	14					0	0	1	0	0		T	28164076	T	T	28164076	2	4	55	1	0	0	0	0	0	0	0	1	17474	726	26	2		2	XPO6	16	28164076	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	402995	28164076	62190677	1245	40279											
ATP2A1	487	broad.mit.edu	37	chr16	28909569	28909569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagggtgcccctgagggcGtcatcgaccgctgtaactat	7	9	12	13	3	1	1	1	1	0	0	2	2	1	1	4	2	2	2	4	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:28909569G>A	uc002dro.1	+	14	1745	c.1561G>A	c.(1561-1563)GTC>ATC	p.V521I	uc010vct.1_Intron|ATP2A1_uc002drn.1_Missense_Mutation_p.V521I|ATP2A1_uc002drp.1_Missense_Mutation_p.V396I	NM_173201	NP_775293	O14983	AT2A1_HUMAN	ATPase, Ca++ transporting, fast twitch 1 isoform	521	Cytoplasmic (By similarity).				apoptosis in response to endoplasmic reticulum stress|apoptotic mitochondrial changes|ATP biosynthetic process|calcium ion import|elevation of endoplasmic reticulum calcium ion concentration|elevation of mitochondrial calcium ion concentration|maintenance of mitochondrion location|negative regulation of striated muscle contraction|platelet activation|positive regulation of fast-twitch skeletal muscle fiber contraction|reduction of endoplasmic reticulum calcium ion concentration|relaxation of skeletal muscle|response to endoplasmic reticulum stress	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|H zone|I band|microsome|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum|sarcoplasmic reticulum membrane	ATP binding|ATP binding|calcium ion binding|calcium ion binding|calcium-transporting ATPase activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CCCTGAGGGCGTCATCGACCG	0.597													25	57					0	0	1	0	0		A	28909569	A	A	28909569	3	1	55	1	0	0	0	0	1	0	0	0	1137	1145	40	1	1615	1	ATP2A1	16	28909569	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	745493	28909569	61445184	1246	40280											
SEPHS2	22928	broad.mit.edu	37	chr16	30455992	30455992	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtccactggccttgctgaCggcagccatcttggcaatta	7	10	10	14	2	1	1	0	1	1	0	2	1	2	1	4	3	2	3	4	3	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:30455992C>T	uc010ves.1	-	2	1233	c.1057G>A	c.(1057-1059)GTC>ATC	p.V353I	SEPHS2_uc002dyh.1_Missense_Mutation_p.V296I|SEPHS2_uc010vet.1_Missense_Mutation_p.V235I	NM_012248	NP_036380	Q99611	SPS2_HUMAN	selenophosphate synthetase 2	353					selenocysteine biosynthetic process		ATP binding|selenide, water dikinase activity			breast(2)	2						GCCTTGCTGACGGCAGCCATC	0.478													15	55					0	0	1	0	0		T	30455992	T	T	30455992	3	4	55	1	0	0	0	0	1	0	0	0	14080	536	19	1	293	1	SEPHS2	16	30455992	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1546423	30455992	59898761	1247	40281											
ZNF768	79724	broad.mit.edu	37	chr16	30536304	30536304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgatggctgcgcagggacGagttctggctatagcacttg	7	11	14	9	2	2	1	0	1	2	0	2	3	2	2	0	3	2	5	0	3	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:30536304G>A	uc002dyk.3	-	2	1333	c.1157C>T	c.(1156-1158)TCG>TTG	p.S386L	ZNF768_uc010vex.1_Missense_Mutation_p.S355L|uc002dyl.1_5'Flank|ZNF768_uc010vew.1_Missense_Mutation_p.S355L	NM_024671	NP_078947	Q9H5H4	ZN768_HUMAN	zinc finger protein 768	386	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	DNA binding|zinc ion binding				0						GCGCAGGGACGAGTTCTGGCT	0.652													7	25					0	0	1	0	0		A	30536304	A	A	30536304	3	1	55	1	0	0	0	0	1	0	0	0	18166	1059	37	1	469	1	ZNF768	16	30536304	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	80312	30536304	59818449	1248	40282											
SRCAP	10847	broad.mit.edu	37	chr16	30750269	30750269	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagtcggacacagccacccCcacacccatcacccctaacc	13	3	4	21	1	1	0	1	0	0	0	2	1	1	1	7	1	2	0	7	1	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:30750269C>A	uc002dze.1	+	34	9293	c.8908C>A	c.(8908-8910)CCA>ACA	p.P2970T	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.P2765T	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2970	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			ACAGCCACCCCCACACCCATC	0.577													32	74					1.15505e-17	1.27836e-17	1	1	0		A	30750269	A	A	30750269	3	1	55	1	0	0	0	0	1	0	0	0	15160	623	22	5	9034	5	SRCAP	16	30750269	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	213965	30750269	59604484	1249	40283											
SETD1A	9739	broad.mit.edu	37	chr16	30982758	30982758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtatgctgactcagatggcGaaaatgacagcacatcagac	14	8	10	9	1	2	4	2	2	0	2	2	5	2	4	0	1	2	3	0	1	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:30982758G>A	uc002ead.1	+	13	3762	c.3076G>A	c.(3076-3078)GAA>AAA	p.E1026K		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1026	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						CTCAGATGGCGAAAATGACAG	0.393													36	102					0	0	1	0	0		A	30982758	A	A	30982758	3	1	55	1	0	0	0	0	1	0	0	0	14155	1059	37	1	3122	1	SETD1A	16	30982758	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	232489	30982758	59371995	1250	40284											
ZNF646	9726	broad.mit.edu	37	chr16	31091411	31091411	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcatccatgcagatcccCgacgtttccgctgcagcgag	7	7	12	15	5	0	1	0	0	0	1	3	3	3	1	4	1	3	5	4	1	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:31091411C>T	uc002eap.2	+	2	4055	c.3766C>T	c.(3766-3768)CGA>TGA	p.R1256*		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	1256					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						TGCAGATCCCCGACGTTTCCG	0.652													9	49					0	0	1	0	0		T	31091411	T	T	31091411	4	4	55	1	0	0	0	0	0	1	0	0	18087	644	23	1	3768	1	ZNF646	16	31091411	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	108653	31091411	59263342	1251	40285											
ZNF646	9726	broad.mit.edu	37	chr16	31092651	31092651	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagcggtgacgtccatggCggctgaggacaaggagcggc	10	4	17	10	4	0	2	0	2	0	0	1	4	1	4	1	6	2	1	1	6	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:31092651C>T	uc002eap.2	+	2	5295	c.5006C>T	c.(5005-5007)GCG>GTG	p.A1669V		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	1669					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						ACGTCCATGGCGGCTGAGGAC	0.667													10	17					0	0	1	0	0		T	31092651	T	T	31092651	3	4	55	1	0	0	0	0	1	0	0	0	18087	768	27	1	5008	1	ZNF646	16	31092651	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1240	31092651	59262102	1252	40286											
FUS	2521	broad.mit.edu	37	chr16	31195533	31195533	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtttgttttccctagttaCggtagcagttctcagagcag	7	16	10	8	1	1	1	1	0	1	1	3	1	2	1	1	1	3	7	1	1	3	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:31195533C>T	uc002ebf.2	+	5	422	c.339C>T	c.(337-339)TAC>TAT	p.Y113Y	FUS_uc002ebe.1_Silent_p.Y113Y|FUS_uc002ebh.2_Silent_p.Y112Y|FUS_uc002ebg.2_Translation_Start_Site|FUS_uc002ebi.2_Silent_p.Y113Y|FUS_uc002ebj.2_Translation_Start_Site|FUS_uc002ebk.1_5'Flank	NM_004960	NP_004951	P35637	FUS_HUMAN	fusion (involved in t(12;16) in malignant	113	Gln/Gly/Ser/Tyr-rich.				cell death|nuclear mRNA splicing, via spliceosome	nucleoplasm	DNA binding|nucleotide binding|protein binding|RNA binding|zinc ion binding		FUS/DDIT3(623)|FUS/ERG(163)|FUS/CREB3L2(158)|FUS/CREB3L1(6)|FUS/ATF1(4)|FUS/FEV(2)	soft_tissue(791)|haematopoietic_and_lymphoid_tissue(153)|bone(12)|breast(2)	958		Renal(780;0.000219)|Breast(268;0.00957)|Hepatocellular(780;0.121)		GBM - Glioblastoma multiforme(240;2.31e-05)|Kidney(780;0.000209)		TCCCTAGTTACGGTAGCAGTT	0.507			T	DDIT3|ERG|FEV|ATF1|CREB3L2|CREB3L1	liposarcoma|AML|Ewing sarcoma|angiomatoid fibrous histiocytoma|fibromyxoid sarcoma								5	137					0	0	1	0	0		T	31195533	T	T	31195533	2	4	55	1	0	0	0	0	0	0	0	1	6114	547	19	1		1	FUS	16	31195533	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	102882	31195533	59159220	1253	40287											
PYDC1	260434	broad.mit.edu	37	chr16	31228091	31228091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtggccctcacgcagcccGctgcagccgtgcggcctcct	4	6	13	18	4	1	0	1	0	0	0	2	1	2	0	5	2	4	3	5	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:31228091G>A	uc002ebo.2	-	1	308	c.259C>T	c.(259-261)CGG>TGG	p.R87W	TRIM72_uc002ebn.1_Intron	NM_152901	NP_690865	Q8WXC3	PYDC1_HUMAN	pyrin domain containing 1	87	DAPIN.				innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|positive regulation of interleukin-1 beta secretion|proteolysis|tumor necrosis factor-mediated signaling pathway	IkappaB kinase complex|nucleus	cysteine-type endopeptidase activity|protein binding				0						CACGCAGCCCGCTGCAGCCGT	0.677													22	56					0	0	1	0	0		A	31228091	A	A	31228091	3	1	55	1	0	0	0	0	1	0	0	0	12883	1086	38	1	14	1	PYDC1	16	31228091	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	32558	31228091	59126662	1254	40288											
ADCY7	113	broad.mit.edu	37	chr16	50342322	50342322	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctttgccaccaagttctcGgtaagtggggagctctggcc	6	11	13	11	1	2	0	0	0	2	0	3	1	2	1	3	4	3	4	3	4	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:50342322G>A	uc002egd.1	+	15	2203	c.1935G>A	c.(1933-1935)TCG>TCA	p.S645S	ADCY7_uc002egc.1_Silent_p.S645S	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	645					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	CCAAGTTCTCGGTAAGTGGGG	0.682													9	60					0	0	1	0	0		A	50342322	A	A	50342322	2	1	55	1	0	0	0	0	0	0	0	1	299	1130	39	1		1	ADCY7	16	50342322	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	19114231	50342322	40012431	1255	40289											
ADCY7	113	broad.mit.edu	37	chr16	50346848	50346848	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtgtcatgtttgcctcCgtgccggacttcaaagtgtt	5	15	11	10	2	3	0	2	0	1	0	4	1	4	1	3	1	2	2	3	1	1	3	rs143161770		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:50346848C>T	uc002egd.1	+	21	2920	c.2652C>T	c.(2650-2652)TCC>TCT	p.S884S		NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	884	Cytoplasmic (Potential).|Guanylate cyclase 2.				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	TGTTTGCCTCCGTGCCGGACT	0.532													9	46					0	0	1	0	0		T	50346848	T	T	50346848	2	4	55	1	0	0	0	0	0	0	0	1	299	639	23	1		1	ADCY7	16	50346848	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4526	50346848	40007905	1256	40290											
BRD7	29117	broad.mit.edu	37	chr16	50354205	50354205	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaagagacagatcatgttCggagggggtctggtgctcaa	10	8	14	9	1	3	2	2	0	1	2	4	4	3	3	1	4	1	2	1	4	2	1	rs148031885	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:50354205C>T	uc002egf.1	-	16	1777	c.1710G>A	c.(1708-1710)CCG>CCA	p.P570P	BRD7_uc002ege.1_Silent_p.P571P	NM_013263	NP_037395	Q9NPI1	BRD7_HUMAN	bromodomain containing 7	570					cell cycle|negative regulation of cell proliferation|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of histone acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleus	histone acetyl-lysine binding|p53 binding|transcription coactivator activity|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding				0		all_cancers(37;0.0127)				AGATCATGTTCGGAGGGGGTC	0.468													13	28					0	0	1	0	0		T	50354205	T	T	50354205	2	4	55	1	0	0	0	0	0	0	0	1	1508	871	31	1		1	BRD7	16	50354205	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	7357	50354205	40000548	1257	40291											
CHD9	80205	broad.mit.edu	37	chr16	53276875	53276875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgattattgatgaagcacatAggttaaaaaataaaaattgt	19	13	7	2	0	0	3	0	3	0	0	0	3	0	3	0	1	1	2	0	1	9	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:53276875A>G	uc002ehb.2	+	12	3165	c.3001A>G	c.(3001-3003)AGG>GGG	p.R1001G	CHD9_uc002egy.2_Missense_Mutation_p.R1001G|CHD9_uc002eha.1_Missense_Mutation_p.R1001G|CHD9_uc002ehc.2_Missense_Mutation_p.R1001G|CHD9_uc002ehf.2_Missense_Mutation_p.R115G|CHD9_uc002ehd.2_Missense_Mutation_p.R527G|CHD9_uc002ehe.1_Missense_Mutation_p.R115G	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	1001	Helicase ATP-binding.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				TGAAGCACATAGGTTAAAAAA	0.338													17	47					0	0	1	0	0		G	53276875	G	G	53276875	3	3	55	1	0	0	0	0	1	0	0	0	3335	411	15	3	3047	3	CHD9	16	53276875	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2922670	53276875	37077878	1258	40292											
IRX6	79190	broad.mit.edu	37	chr16	55361530	55361530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaattgagtggcgccggtcGccgaaagaacgcgacccggg	9	4	17	11	7	0	2	0	1	0	1	1	5	0	3	3	4	1	0	3	4	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:55361530G>A	uc002ehy.2	+	4	979	c.446G>A	c.(445-447)CGC>CAC	p.R149H	IRX6_uc002ehx.2_Missense_Mutation_p.R149H|IRX6_uc010ccb.1_RNA	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	149	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						GGCGCCGGTCGCCGAAAGAAC	0.572													6	11					0	0	1	0	0		A	55361530	A	A	55361530	3	1	55	1	0	0	0	0	1	0	0	0	7864	1087	38	1	460	1	IRX6	16	55361530	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2084655	55361530	34993223	1259	40293											
AMFR	267	broad.mit.edu	37	chr16	56419830	56419830	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaagcagctagcagaccttaCcattgcattgagctgggagt	12	9	11	9	0	0	2	0	1	0	1	0	3	0	3	2	1	6	5	2	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:56419830C>T	uc002eiy.2	-	10	1585	c.1380_splice	c.e10+1	p.M460_splice	AMFR_uc002eix.2_Splice_Site_p.M94_splice	NM_001144	NP_001135	Q9UKV5	AMFR2_HUMAN	autocrine motility factor receptor						endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|protein oligomerization|protein polyubiquitination	integral to endoplasmic reticulum membrane|integral to membrane of membrane fraction	protein binding|protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			breast(2)	2						GCAGACCTTACCATTGCATTG	0.502													7	23					0	0	1	0	0		T	56419830	T	T	56419830	5	4	55	1	0	0	0	0	0	0	1	0	571	521	18	4	570	4	AMFR	16	56419830	Splice_Site	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1058300	56419830	33934923	1260	40294											
NLRC5	84166	broad.mit.edu	37	chr16	57100498	57100498	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctggaatttcctcgccagGaagagaatccagaagctgtg	12	8	12	9	1	0	2	0	0	0	2	3	5	2	4	3	2	2	2	3	2	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:57100498G>T	uc002ekk.1	+	34	4519	c.4294G>T	c.(4294-4296)GAA>TAA	p.E1432*	NLRC5_uc010ccr.1_RNA|NLRC5_uc010ccs.1_RNA|NLRC5_uc002eko.1_RNA|NLRC5_uc002ekq.1_5'UTR|NLRC5_uc002ekr.1_Nonsense_Mutation_p.E319*	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	1432					defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				TCCTCGCCAGGAAGAGAATCC	0.622													6	25					0.0293803	0.0296682	1	1	0		T	57100498	T	T	57100498	4	4	55	1	0	0	0	0	0	1	0	0	10489	1175	41	5	4420	5	NLRC5	16	57100498	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	680668	57100498	33254255	1261	40295											
NLRC5	84166	broad.mit.edu	37	chr16	57111659	57111659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaatagcatcagctcagccGggggagtgcagttggcagag	10	6	17	8	1	2	1	2	0	0	1	2	3	2	3	1	4	4	5	1	4	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:57111659G>A	uc002ekk.1	+	42	5173	c.4948G>A	c.(4948-4950)GGG>AGG	p.G1650R	NLRC5_uc010ccr.1_RNA|NLRC5_uc010ccs.1_RNA|NLRC5_uc002eko.1_RNA|NLRC5_uc002ekq.1_Missense_Mutation_p.G192R|NLRC5_uc002ekr.1_Missense_Mutation_p.G537R	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	1650	LRR 21.				defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				CAGCTCAGCCGGGGGAGTGCA	0.642													21	38					0	0	1	0	0		A	57111659	A	A	57111659	3	1	55	1	0	0	0	0	1	0	0	0	10489	1116	39	1	5106	1	NLRC5	16	57111659	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	11161	57111659	33243094	1262	40296											
CNOT1	23019	broad.mit.edu	37	chr16	58581543	58581543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaagttcttcagcaaagaaCgatctgagaaattggctgca	14	9	9	9	1	3	2	1	1	2	2	3	4	3	2	1	1	3	4	1	1	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:58581543C>T	uc002env.2	-	26	3859	c.3566G>A	c.(3565-3567)CGT>CAT	p.R1189H	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.R1184H|CNOT1_uc002enx.2_Missense_Mutation_p.R1189H|CNOT1_uc010vik.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1189					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		CAGCAAAGAACGATCTGAGAA	0.358													16	32					0	0	1	0	0		T	58581543	T	T	58581543	3	4	55	1	0	0	0	0	1	0	0	0	3620	536	19	1	3882	1	CNOT1	16	58581543	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1469884	58581543	31773210	1263	40297											
CDH8	1006	broad.mit.edu	37	chr16	61688000	61688000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagttacaaacagcaccaCgatgactagaggaaaaatat	19	7	8	7	1	0	3	0	1	0	2	0	5	0	4	1	1	3	2	1	1	7	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:61688000C>T	uc002eog.1	-	12	2164	c.1912G>A	c.(1912-1914)GTG>ATG	p.V638M		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	638	Helical; (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		AACAGCACCACGATGACTAGA	0.358													7	26					0	0	1	0	0		T	61688000	T	T	61688000	3	4	55	1	0	0	0	0	1	0	0	0	3119	536	19	1	491	1	CDH8	16	61688000	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3106457	61688000	28666753	1264	40298											
CDH16	1014	broad.mit.edu	37	chr16	66943992	66943992	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccaaggtgaggtaggcatgGgaaccttttgggacagcagg	10	7	17	7	0	0	1	0	1	0	0	0	3	0	3	2	6	2	3	2	6	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:66943992G>A	uc002eql.2	-	16	2245	c.2172C>T	c.(2170-2172)TCC>TCT	p.S724S	CDH16_uc010cdy.2_Silent_p.S702S|CDH16_uc002eqm.2_Silent_p.S627S	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	724	Extracellular (Potential).|Ectodomain G.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		GGTAGGCATGGGAACCTTTTG	0.622													23	38					0	0	1	0	0		A	66943992	A	A	66943992	2	1	55	1	0	0	0	0	0	0	0	1	3104	1219	43	4		4	CDH16	16	66943992	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5255992	66943992	23410761	1265	40299											
ELMO3	79767	broad.mit.edu	37	chr16	67236560	67236560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgcgggagcagctggccCgcactctggccctgaagccc	5	6	15	15	2	1	1	0	1	1	0	1	2	1	2	3	4	4	3	3	4	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:67236560C>T	uc002esa.2	+	15	1631	c.1588C>T	c.(1588-1590)CGC>TGC	p.R530C	ELMO3_uc002esb.2_Missense_Mutation_p.R513C|ELMO3_uc002esc.2_Missense_Mutation_p.R364C|uc010vjf.1_5'Flank|MIR328_hsa-mir-328|MI0000804_5'Flank	NM_024712	NP_078988	Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3	477	ELMO.				apoptosis|phagocytosis	cytoplasm|cytoskeleton	SH3 domain binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		GCAGCTGGCCCGCACTCTGGC	0.662													3	38					0	0	1	0	0		T	67236560	T	T	67236560	3	4	55	1	0	0	0	0	1	0	0	0	5075	652	23	1	1646	1	ELMO3	16	67236560	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	292568	67236560	23118193	1266	40300											
LRRC36	55282	broad.mit.edu	37	chr16	67410682	67410682	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcccggctccttctcagccGaggtgttgctcacatcctga	5	11	10	15	2	2	1	2	1	1	0	6	2	5	1	4	2	2	3	4	2	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:67410682G>A	uc002esv.2	+	11	1732	c.1713G>A	c.(1711-1713)CCG>CCA	p.P571P	LRRC36_uc002esw.2_RNA|LRRC36_uc002esx.2_Silent_p.P450P|LRRC36_uc010vjk.1_Intron|LRRC36_uc010vjl.1_Intron|LRRC36_uc002esy.2_Silent_p.P81P	NM_018296	NP_060766	Q1X8D7	LRC36_HUMAN	leucine rich repeat containing 36 isoform 1	571											0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0669)|Epithelial(162;0.161)		CTTCTCAGCCGAGGTGTTGCT	0.527													30	83					0	0	1	0	0		A	67410682	A	A	67410682	2	1	55	1	0	0	0	0	0	0	0	1	9008	1045	37	1		1	LRRC36	16	67410682	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	174122	67410682	22944071	1267	40301											
FAM65A	79567	broad.mit.edu	37	chr16	67576629	67576629	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacaagtcctacccccagtgGtatgggcctagtccagactg	9	9	10	13	0	0	1	0	0	0	1	2	1	2	1	5	2	2	1	5	2	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:67576629G>C	uc010vjp.1	+	13	2096	c.2000G>C	c.(1999-2001)GGT>GCT	p.G667A	FAM65A_uc010cei.1_Missense_Mutation_p.G489A|FAM65A_uc002eth.2_Missense_Mutation_p.G647A|FAM65A_uc010cej.2_Missense_Mutation_p.G650A|FAM65A_uc002eti.1_Missense_Mutation_p.G610A|FAM65A_uc010vjq.1_Missense_Mutation_p.G661A|FAM65A_uc002etj.1_Missense_Mutation_p.G646A|FAM65A_uc002etk.2_Missense_Mutation_p.G646A	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	651	Pro-rich.					cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		ACCCCCAGTGGTATGGGCCTA	0.562													6	227					0	0	1	0	0		C	67576629	C	C	67576629	3	2	55	1	0	0	0	0	1	0	0	0	5613	1261	44	5	1986	5	FAM65A	16	67576629	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	165947	67576629	22778124	1268	40302											
C16orf48	84080	broad.mit.edu	37	chr16	67697400	67697400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggcatggcagggtccGgctggctctgcttgcgggcc	2	8	19	12	2	1	0	0	0	1	0	2	0	2	0	2	7	2	5	2	7	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:67697400G>A	uc002etw.1	-	6	1086	c.803C>T	c.(802-804)CCG>CTG	p.P268L	ACD_uc002etp.3_5'Flank|ACD_uc002etq.3_5'Flank|ACD_uc002etr.3_5'Flank|ACD_uc010vjt.1_5'Flank|C16orf48_uc002etv.1_Missense_Mutation_p.P150L|C16orf48_uc010cem.1_Silent_p.A213A	NM_032140	NP_115516	Q9H0I2	CP048_HUMAN	hypothetical protein LOC84080	268						microtubule cytoskeleton	protein binding				0		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		GGCAGGGTCCGGCTGGCTCTG	0.662													21	37					0	0	1	0	0		A	67697400	A	A	67697400	3	1	55	1	0	0	0	0	1	0	0	0	1819	1116	39	1	245	1	C16orf48	16	67697400	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	120771	67697400	22657353	1269	40303											
CTRL	1506	broad.mit.edu	37	chr16	67964403	67964403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggcaaactggcgagatgCgtgttgtgtactgggctggc	7	9	16	9	2	0	1	0	0	0	1	0	2	0	1	1	4	3	4	1	4	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:67964403C>T	uc002euw.2	-	5	417	c.407G>A	c.(406-408)CGC>CAC	p.R136H		NM_001907	NP_001898	P40313	CTRL_HUMAN	chymotrypsin-like precursor	136	Peptidase S1.				digestion|proteolysis	extracellular space	serine-type endopeptidase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)		TGGCGAGATGCGTGTTGTGTA	0.602													60	113					0	0	1	0	0		T	67964403	T	T	67964403	3	4	55	1	0	0	0	0	1	0	0	0	4031	768	27	1	399	1	CTRL	16	67964403	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	267003	67964403	22390350	1270	40304											
LCAT	3931	broad.mit.edu	37	chr16	67974268	67974268	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggtgtggaaatgaacaCgtggtcctcaggccacgcca	9	7	14	11	2	1	1	1	1	0	0	2	2	2	2	3	4	1	1	3	4	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:67974268C>T	uc002euy.1	-	6	873	c.862G>A	c.(862-864)GTG>ATG	p.V288M		NM_000229	NP_000220	P04180	LCAT_HUMAN	lecithin-cholesterol acyltransferase precursor	288					cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|high-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|reverse cholesterol transport|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein A-I binding|phosphatidylcholine-sterol O-acyltransferase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00418)|Epithelial(162;0.0183)|all cancers(182;0.12)		GAAATGAACACGTGGTCCTCA	0.557													32	59					0	0	1	0	0		T	67974268	T	T	67974268	3	4	55	1	0	0	0	0	1	0	0	0	8674	536	19	1	464	1	LCAT	16	67974268	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	9865	67974268	22380485	1271	40305											
TMCO7	79613	broad.mit.edu	37	chr16	68941368	68941368	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagatgaagatgaagccCtgtaccagaaggtatcctct	14	9	10	8	0	1	6	0	3	1	3	2	6	2	6	3	1	2	2	3	1	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:68941368C>A	uc002ewi.3	+	10	1702	c.1690C>A	c.(1690-1692)CTG>ATG	p.L564M		NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	564						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		AGATGAAGCCCTGTACCAGAA	0.468													4	85					0.00909568	0.00923805	1	1	0		A	68941368	A	A	68941368	3	1	55	1	0	0	0	0	1	0	0	0	16026	680	24	5	1728	5	TMCO7	16	68941368	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	967100	68941368	21413385	1272	40306											
FUK	197258	broad.mit.edu	37	chr16	70505166	70505166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgcatggccgggagctgCgtgaccttgtcctgcaggga	5	8	15	13	2	0	1	0	1	0	0	1	3	1	3	4	3	4	3	4	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:70505166C>T	uc002eyy.2	+	13	1310	c.1252C>T	c.(1252-1254)CGT>TGT	p.R418C	FUK_uc010cft.2_Missense_Mutation_p.R450C|FUK_uc002eyz.2_5'UTR	NM_145059	NP_659496	Q8N0W3	FUK_HUMAN	fucokinase	418						cytoplasm	ATP binding|fucokinase activity			ovary(1)	1		Ovarian(137;0.0694)				CCGGGAGCTGCGTGACCTTGT	0.672													6	6					0	0	1	0	0		T	70505166	T	T	70505166	3	4	55	1	0	0	0	0	1	0	0	0	6110	768	27	1	1298	1	FUK	16	70505166	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1563798	70505166	19849587	1273	40307											
FTSJD1	55783	broad.mit.edu	37	chr16	71318067	71318067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttgatattacggagagtcGaaaagcccaccagcaggcac	13	8	10	10	2	0	2	0	1	0	1	1	4	0	2	2	2	3	2	2	2	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:71318067G>A	uc010cga.2	-	3	2163	c.1757C>T	c.(1756-1758)TCG>TTG	p.S586L	FTSJD1_uc002ezy.3_Missense_Mutation_p.S586L|FTSJD1_uc002ezz.3_Missense_Mutation_p.S586L	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	586						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						ACGGAGAGTCGAAAAGCCCAC	0.433													7	8					0	0	1	0	0		A	71318067	A	A	71318067	3	1	55	1	0	0	0	0	1	0	0	0	6104	1059	37	1	559	1	FTSJD1	16	71318067	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	812901	71318067	19036686	1274	40308											
PHLPP2	23035	broad.mit.edu	37	chr16	71748635	71748635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacatcttctcttagccagtCtctttctcgagaaccaaacc	10	13	4	14	1	4	1	0	0	4	1	7	2	4	1	3	0	4	0	3	0	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:71748635C>T	uc002fax.2	-	1	70	c.64G>A	c.(64-66)GAC>AAC	p.D22N	PHLPP2_uc010cgf.2_Missense_Mutation_p.D22N|PHLPP2_uc002fay.1_Missense_Mutation_p.D22N	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	22						cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						CTTAGCCAGTCTCTTTCTCGA	0.363													9	20					0	0	1	0	0		T	71748635	T	T	71748635	3	4	55	1	0	0	0	0	1	0	0	0	11874	913	32	4	3979	4	PHLPP2	16	71748635	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	430568	71748635	18606118	1275	40309											
PKD1L2	114780	broad.mit.edu	37	chr16	81167281	81167281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catccctgctgctgtttcttCgtgctcggaacaaggcatag	7	12	10	12	2	1	0	0	0	1	0	4	1	2	1	1	2	4	5	1	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:81167281C>T	uc002fgh.1	-	35	5744	c.5744G>A	c.(5743-5745)CGA>CAA	p.R1915Q	PKD1L2_uc002fgf.1_5'UTR|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	1915	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GCTGTTTCTTCGTGCTCGGAA	0.562													8	19					0	0	1	0	0		T	81167281	T	T	81167281	3	4	55	1	0	0	0	0	1	0	0	0	11984	884	31	1	1674	1	PKD1L2	16	81167281	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	9418646	81167281	9187472	1276	40310											
CMIP	80790	broad.mit.edu	37	chr16	81735367	81735367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtggggaagcgcatgtacGagcagctgtgtgaccggcag	9	6	17	9	4	0	1	0	1	0	0	0	3	0	2	1	3	4	5	1	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:81735367G>A	uc002fgp.2	+	16	1930	c.1858G>A	c.(1858-1860)GAG>AAG	p.E620K	CMIP_uc002fgq.1_Missense_Mutation_p.E526K|CMIP_uc010vnq.1_Missense_Mutation_p.E433K|CMIP_uc002fgr.1_Missense_Mutation_p.E467K	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	586						cytoplasm|nucleus					0						GCGCATGTACGAGCAGCTGTG	0.632													5	134					0	0	1	0	0		A	81735367	A	A	81735367	3	1	55	1	0	0	0	0	1	0	0	0	3581	1059	37	1	1942	1	CMIP	16	81735367	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	568086	81735367	8619386	1277	40311											
BANP	54971	broad.mit.edu	37	chr16	88061178	88061178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgccgcacggcgtggcggCgcaagcagcggggccagagc	7	2	19	13	6	0	1	0	0	0	1	0	1	0	1	2	5	4	3	2	5	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:88061178C>T	uc002fkr.2	+	8	1182	c.958C>T	c.(958-960)CGC>TGC	p.R320C	BANP_uc002fkp.2_Missense_Mutation_p.R290C|BANP_uc002fkq.2_Missense_Mutation_p.R290C|BANP_uc010vow.1_Missense_Mutation_p.R328C|BANP_uc002fks.3_Missense_Mutation_p.R289C|BANP_uc002fko.1_Missense_Mutation_p.R226C|BANP_uc010vov.1_Missense_Mutation_p.R295C	NM_079837	NP_524576	Q8N9N5	BANP_HUMAN	BTG3 associated nuclear protein isoform b	321	Necessary and sufficient for TP53 activation (By similarity).|Interaction with CUX1 and HDAC1 (By similarity).|BEN.				cell cycle|chromatin modification|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0				BRCA - Breast invasive adenocarcinoma(80;0.00551)		GGCGTGGCGGCGCAAGCAGCG	0.592													22	52					0	0	1	0	0		T	88061178	T	T	88061178	3	4	55	1	0	0	0	0	1	0	0	0	1311	768	27	1	1029	1	BANP	16	88061178	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6325811	88061178	2293575	1278	40312											
SNAI3	333929	broad.mit.edu	37	chr16	88747890	88747890	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaggctgtctttgaggggTacaatggcggcccggctggc	5	10	16	10	2	2	1	1	1	1	0	2	1	2	1	1	7	1	3	1	7	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr16:88747890T>C	uc002flj.2	-	2	377	c.309A>G	c.(307-309)GTA>GTG	p.V103V	MGC23284_uc002fli.3_Intron	NM_178310	NP_840101	Q3KNW1	SNAI3_HUMAN	snail homolog 3	103					oxidation-reduction process		copper ion binding|DNA binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.048)		CTTTGAGGGGTACAATGGCGG	0.697													35	115					0	0	1	0	0		C	88747890	C	C	88747890	2	2	55	1	0	0	0	0	0	0	0	1	14853	1625	57	3		3	SNAI3	16	88747890	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	686712	88747890	1606863	1279	40313											
FAM57A	79850	broad.mit.edu	37	chr17	644552	644552	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctattgcagctaaagcagcaGcacacccttctgtacaaggt	12	9	8	12	0	1	0	0	0	1	0	1	0	1	0	1	1	6	6	1	1	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:644552G>A	uc002frp.2	+	5	557	c.516G>A	c.(514-516)CAG>CAA	p.Q172Q	FAM57A_uc002frq.2_Silent_p.Q140Q|FAM57A_uc002frr.2_Silent_p.Q82Q	NM_024792	NP_079068	Q8TBR7	FA57A_HUMAN	family with sequence similarity 57, member A	172	TLC.					integral to membrane|plasma membrane					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0217)		TAAAGCAGCAGCACACCCTTC	0.547													17	45					0	0	1	0	0		A	644552	A	A	644552	2	1	55	1	0	0	0	0	0	0	0	1	5602	962	34	2		2	FAM57A	17	644552	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08		644552	80550658	1280	40314											
RNMTL1	55178	broad.mit.edu	37	chr17	686479	686479	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctaaaggagttgccagtCgataagctgaaaggtgtcag	13	9	12	7	1	1	1	1	1	0	0	2	3	1	2	2	2	3	2	2	2	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:686479C>A	uc002frw.2	+	2	577	c.471C>A	c.(469-471)GTC>GTA	p.V157V	GLOD4_uc002fru.2_5'Flank|GLOD4_uc010vqc.1_5'Flank|GLOD4_uc002frv.2_5'Flank	NM_018146	NP_060616	Q9HC36	RMTL1_HUMAN	RNA methyltransferase like 1	157					RNA processing		protein binding|RNA binding|RNA methyltransferase activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0219)		AGTTGCCAGTCGATAAGCTGA	0.463													11	27					0.00136819	0.00140262	1	1	0		A	686479	A	A	686479	2	1	55	1	0	0	0	0	0	0	0	1	13532	871	31	5		5	RNMTL1	17	686479	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	41927	686479	80508731	1281	40315											
SCARF1	8578	broad.mit.edu	37	chr17	1542125	1542125	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgaggtctgatcggggggCccagcagcagcaggcacagc	8	5	16	12	1	1	2	0	2	1	0	2	2	1	2	1	5	4	4	1	5	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:1542125C>G	uc002fsz.1	-	8	1389	c.1339G>C	c.(1339-1341)GCC>CCC	p.A447P	SCARF1_uc002fsy.1_Missense_Mutation_p.A447P|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Missense_Mutation_p.A361P	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	447	Cytoplasmic (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GATCGGGGGGCCCAGCAGCAG	0.667													8	14					0	0	1	0	0		G	1542125	G	G	1542125	3	3	55	1	0	0	0	0	1	0	0	0	13908	739	26	5	1169	5	SCARF1	17	1542125	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	855646	1542125	79653085	1282	40316											
SMG6	23293	broad.mit.edu	37	chr17	2200609	2200609	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgaacttgtaagtaacCtgcagcttctgaagcaaact	13	12	8	8	0	1	2	0	2	1	0	1	2	1	2	1	0	6	6	1	0	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:2200609C>T	uc002fub.1	-	4	2134	c.2079G>A	c.(2077-2079)CAG>CAA	p.Q693Q		NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	693					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						TGTAAGTAACCTGCAGCTTCT	0.368													19	43					0	0	1	0	0		T	2200609	T	T	2200609	2	4	55	1	0	0	0	0	0	0	0	1	14822	680	24	4		4	SMG6	17	2200609	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	658484	2200609	78994601	1283	40317											
SGSM2	9905	broad.mit.edu	37	chr17	2282421	2282421	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgtcctgttcatcgccctCgccctggtggaggcctaccg	3	12	11	15	3	1	0	1	0	0	0	4	1	2	1	5	3	1	1	5	3	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:2282421C>T	uc002fun.3	+	22	3031	c.2856C>T	c.(2854-2856)CTC>CTT	p.L952L	SGSM2_uc002fum.3_Silent_p.L997L|SGSM2_uc010vqw.1_Silent_p.L952L|SGSM2_uc002fup.1_Silent_p.L130L|SGSM2_uc002fuq.2_Silent_p.L114L	NM_001098509	NP_001091979	O43147	SGSM2_HUMAN	RUN and TBC1 domain containing 1 isoform 2	952						intracellular	Rab GTPase activator activity				0				Colorectal(2;5.15e-05)|READ - Rectum adenocarcinoma(2;0.000115)		TCATCGCCCTCGCCCTGGTGG	0.537													19	69					0	0	1	0	0		T	2282421	T	T	2282421	2	4	55	1	0	0	0	0	0	0	0	1	14248	871	31	1		1	SGSM2	17	2282421	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	81812	2282421	78912789	1284	40318											
RABEP1	9135	broad.mit.edu	37	chr17	5250183	5250183	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcagaaatctgttctacaGgaagatgctgagaaactgcg	14	9	10	8	1	3	3	1	1	2	3	3	5	3	4	0	1	4	2	0	1	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:5250183G>A	uc002gbm.3	+	6	971	c.747G>A	c.(745-747)CAG>CAA	p.Q249Q	RABEP1_uc010clc.1_Silent_p.Q249Q|RABEP1_uc010cld.1_Silent_p.Q206Q|RABEP1_uc010vsw.1_Silent_p.Q206Q|RABEP1_uc002gbl.3_Silent_p.Q249Q	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	249	Potential.				apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						CTGTTCTACAGGAAGATGCTG	0.333													5	19					0	0	1	0	0		A	5250183	A	A	5250183	2	1	55	1	0	0	0	0	0	0	0	1	12986	991	35	4		4	RABEP1	17	5250183	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2967762	5250183	75945027	1285	40319											
AIPL1	23746	broad.mit.edu	37	chr17	6331701	6331701	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagctcgtccaggtcctcGtagcccagcgtgtggtaggc	5	9	14	13	3	0	0	0	0	0	0	4	0	2	0	3	3	4	4	3	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:6331701G>A	uc002gcp.2	-	3	497	c.402C>T	c.(400-402)TAC>TAT	p.Y134Y	AIPL1_uc002gcq.2_Silent_p.Y74Y|AIPL1_uc002gcr.2_Intron|AIPL1_uc010clk.2_Silent_p.Y112Y|AIPL1_uc010cll.2_Silent_p.Y134Y|AIPL1_uc002gcs.2_Silent_p.Y134Y	NM_014336	NP_055151	Q9NZN9	AIPL1_HUMAN	aryl hydrocarbon receptor interacting	134	PPIase FKBP-type.				protein farnesylation|protein folding|visual perception	cytoplasm|nucleus	farnesylated protein binding|unfolded protein binding				0				COAD - Colon adenocarcinoma(228;0.141)		CCAGGTCCTCGTAGCCCAGCG	0.662													8	50					0	0	1	0	0		A	6331701	A	A	6331701	2	1	55	1	0	0	0	0	0	0	0	1	436	1140	40	1		1	AIPL1	17	6331701	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1081518	6331701	74863509	1286	40320											
PITPNM3	83394	broad.mit.edu	37	chr17	6380417	6380417	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagtcgctctgtttccgCggcaacggcctcttgggctc	4	10	14	13	4	2	0	0	0	2	0	5	2	3	1	2	4	1	4	2	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:6380417C>T	uc002gdd.3	-	9	1168	c.1017G>A	c.(1015-1017)CCG>CCA	p.P339P	PITPNM3_uc010cln.2_Silent_p.P303P|PITPNM3_uc002gdc.3_5'UTR	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	339					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		TCTGTTTCCGCGGCAACGGCC	0.582													5	22					0	0	1	0	0		T	6380417	T	T	6380417	2	4	55	1	0	0	0	0	0	0	0	1	11971	755	27	1		1	PITPNM3	17	6380417	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	48716	6380417	74814793	1287	40321											
C17orf49	124944	broad.mit.edu	37	chr17	6918391	6918393	+	In_Frame_Del	DEL	TCT	-	-																															ccgcccccaggtcggagagaTcttctcggcggccggcgccg																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:6918391_6918393delTCT	uc002gec.2	+	4	932_934	c.32_34delTCT	c.(31-36)ATCTTC>ATC	p.F12del	uc002gdy.1_5'Flank|C17orf49_uc002geb.3_In_Frame_Del_p.F73del|C17orf49_uc002ged.2_In_Frame_Del_p.F12del|C17orf49_uc002gee.2_In_Frame_Del_p.F12del|C17orf49_uc010vti.1_In_Frame_Del_p.F12del	NM_174893	NP_777553	Q8IXM2	BAP18_HUMAN	hypothetical protein LOC124944 isoform 2	12					chromatin modification	MLL1 complex|NURF complex	DNA binding			large_intestine(1)	1						GTCGGAGAGATCTTCTCGGCGGC	0.458													3	3	---	---	---	---						.	-	6918393	-	-	6918391	7	5	55	1	0	1	0	1	0	0	0	0	1863	1435	50	0	38	0	C17orf49	17	6918391	In_Frame_Del	DEL	TCT	TCGA-BR-7851-01A-11D-2201-08	537974	6918391	74276819	1288	40322											
DVL2	1856	broad.mit.edu	37	chr17	7133463	7133463	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagattctcatggctgctgGacacattagggctggacagg	9	9	13	10	0	1	1	1	0	1	1	2	3	1	3	1	5	1	3	1	5	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:7133463G>T	uc002gez.1	-	4	704	c.422C>A	c.(421-423)TCC>TAC	p.S141Y	DVL2_uc010vtr.1_Intron|DVL2_uc010vts.1_Missense_Mutation_p.S43Y|DVL2_uc010clz.1_Missense_Mutation_p.S141Y	NM_004422	NP_004413	O14641	DVL2_HUMAN	dishevelled 2	141					canonical Wnt receptor signaling pathway involved in regulation of cell proliferation|intracellular signal transduction|neural tube closure|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|segment specification|transcription from RNA polymerase II promoter	cytosol|nucleus|plasma membrane	frizzled binding|identical protein binding|signal transducer activity			lung(1)|kidney(1)	2						ATGGCTGCTGGACACATTAGG	0.597													16	43					1.37522e-17	1.52012e-17	1	1	0		T	7133463	T	T	7133463	3	4	55	1	0	0	0	0	1	0	0	0	4842	1174	41	5	1836	5	DVL2	17	7133463	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	215072	7133463	74061747	1289	40323											
C17orf74	201243	broad.mit.edu	37	chr17	7329696	7329696	+	Missense_Mutation	SNP	G	A	A																															ctgtgttcgtcgccgccgccGccgccaccgccgttgtcgcc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:7329696G>A	uc002ggw.2	+	3	459	c.386G>A	c.(385-387)CGC>CAC	p.R129H	FGF11_uc010vtw.1_Intron	NM_175734	NP_783861	Q0P670	CQ074_HUMAN	hypothetical protein LOC201243	129	Arg-rich.					integral to membrane					0		Prostate(122;0.157)				cgccgccgccgccgccaccgc	0.413													29	37					0	0	1	0	0		A	7329696	A	A	7329696	3	1	55	1	0	0	0	0	1	0	0	0	1882	1087	38	1	396	1	C17orf74	17	7329696	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	196233	7329696	73865514	1290	40324	79	2									
C17orf74	201243	broad.mit.edu	37	chr17	7329702	7329702	+	Missense_Mutation	SNP	A	G	G																															tcgtcgccgccgccgccgccAccgccgttgtcgccgtcgct																								rs113604978		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:7329702A>G	uc002ggw.2	+	3	465	c.392A>G	c.(391-393)CAC>CGC	p.H131R	FGF11_uc010vtw.1_Intron	NM_175734	NP_783861	Q0P670	CQ074_HUMAN	hypothetical protein LOC201243	131	Arg-rich.					integral to membrane					0		Prostate(122;0.157)				cgccgccgccaccgccgttgt	0.423													20	39					0	0	1	0	0		G	7329702	G	G	7329702	3	3	55	1	0	0	0	0	1	0	0	0	1882	159	6	3	402	3	C17orf74	17	7329702	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	6	7329702	73865508	1291	40325	79	2									
POLR2A	5430	broad.mit.edu	37	chr17	7402445	7402445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgatggggcatcgggtcCgcattctcccatggtctacc	6	10	11	14	2	2	1	0	1	2	0	5	1	3	1	4	4	1	2	4	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:7402445C>T	uc002ghf.3	+	9	1657	c.1423C>T	c.(1423-1425)CGC>TGC	p.R475C	POLR2A_uc002ghe.2_Missense_Mutation_p.R475C	NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	475					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				GCATCGGGTCCGCATTCTCCC	0.567													43	86					0	0	1	0	0		T	7402445	T	T	7402445	3	4	55	1	0	0	0	0	1	0	0	0	12233	652	23	1	1457	1	POLR2A	17	7402445	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	72743	7402445	73792765	1292	40326											
SENP3	26168	broad.mit.edu	37	chr17	7469041	7469041	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttctccccaggtgatgaAcatgtatggagacctggtca	10	11	10	10	0	3	3	1	2	2	1	4	4	3	3	3	3	1	1	3	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:7469041A>G	uc002ghm.2	+	6	1496	c.1223A>G	c.(1222-1224)AAC>AGC	p.N408S	EIF4A1_uc002gho.1_5'UTR|SENP3_uc002ghn.1_3'UTR	NM_015670	NP_056485	Q9H4L4	SENP3_HUMAN	SUMO1/sentrin/SMT3 specific protease 3	408	Protease.				proteolysis	MLL1 complex|nucleolus	cysteine-type peptidase activity			ovary(1)|central_nervous_system(1)	2		Prostate(122;0.157)				CAGGTGATGAACATGTATGGA	0.562													3	43					0	0	1	0	0		G	7469041	G	G	7469041	3	3	55	1	0	0	0	0	1	0	0	0	14073	43	2	3	1241	3	SENP3	17	7469041	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	66596	7469041	73726169	1293	40327											
CHD3	1107	broad.mit.edu	37	chr17	7794347	7794347	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgaggaggattaccacacGctcaccaactacaaagcctt	13	8	7	13	1	2	1	1	1	1	0	2	3	2	3	3	2	4	1	3	2	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:7794347G>A	uc002gje.2	+	4	624	c.474G>A	c.(472-474)ACG>ACA	p.T158T	CHD3_uc002gjd.2_Silent_p.T217T|CHD3_uc002gjf.2_Silent_p.T158T|CHD3_uc002gjg.1_5'UTR	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	158					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				ATTACCACACGCTCACCAACT	0.473													62	114					0	0	1	0	0		A	7794347	A	A	7794347	2	1	55	1	0	0	0	0	0	0	0	1	3329	1074	38	1		1	CHD3	17	7794347	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	325306	7794347	73400863	1294	40328											
CHD3	1107	broad.mit.edu	37	chr17	7797559	7797559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagaaactaaagagaggcCggccaggaaggaagaagaag	19	1	14	7	1	0	4	0	0	0	4	0	7	0	6	3	4	1	0	3	4	8	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:7797559C>T	uc002gje.2	+	7	1201	c.1051C>T	c.(1051-1053)CGG>TGG	p.R351W	CHD3_uc002gjd.2_Missense_Mutation_p.R410W|CHD3_uc002gjf.2_Missense_Mutation_p.R351W|CHD3_uc002gjg.1_Missense_Mutation_p.R179W	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	351					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				AAAGAGAGGCCGGCCAGGAAG	0.527													7	19					0	0	1	0	0		T	7797559	T	T	7797559	3	4	55	1	0	0	0	0	1	0	0	0	3329	643	23	1	1358	1	CHD3	17	7797559	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3212	7797559	73397651	1295	40329											
GUCY2D	3000	broad.mit.edu	37	chr17	7909952	7909952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcctctccgccggtacccGgatgcacttcccgcgtgggg	3	9	12	17	5	1	0	0	0	1	0	4	1	3	1	5	4	2	2	5	4	1	3	rs144151076		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:7909952G>A	uc002gjt.2	+	4	1372	c.1298G>A	c.(1297-1299)CGG>CAG	p.R433Q		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	433	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				GCCGGTACCCGGATGCACTTC	0.652													12	16					0	0	1	0	0		A	7909952	A	A	7909952	3	1	55	1	0	0	0	0	1	0	0	0	6913	1116	39	1	1308	1	GUCY2D	17	7909952	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	112393	7909952	73285258	1296	40330											
AURKB	9212	broad.mit.edu	37	chr17	8108286	8108286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggccaggggcagccgttccGaggggttatgcctgagcagt	6	7	18	10	2	0	1	0	1	0	0	1	2	1	1	4	5	3	4	4	5	1	2	rs144169786		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:8108286G>A	uc002gkm.2	-	9	999	c.938C>T	c.(937-939)TCG>TTG	p.S313L	AURKB_uc010cnu.2_Missense_Mutation_p.S133L|AURKB_uc002gkn.2_Missense_Mutation_p.S314L|AURKB_uc010vuu.1_Missense_Mutation_p.S272L|AURKB_uc002gko.2_RNA	NM_004217	NP_004208	Q96GD4	AURKB_HUMAN	aurora kinase B	313	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|mitotic prometaphase|protein localization to kinetochore	chromosome passenger complex|condensed nuclear chromosome, centromeric region|cytosol|spindle	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(1)|central_nervous_system(1)	4						CAGCCGTTCCGAGGGGTTATG	0.632													13	15					0	0	1	0	0		A	8108286	A	A	8108286	3	1	55	1	0	0	0	0	1	0	0	0	1224	1059	37	1	100	1	AURKB	17	8108286	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	198334	8108286	73086924	1297	40331											
KRBA2	124751	broad.mit.edu	37	chr17	8273299	8273299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgcagctccttgagcatgCgtgtccgcccaccatgtcca	6	10	9	16	2	0	1	0	1	0	0	3	1	3	1	5	0	4	3	5	0	0	2	rs146158158		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:8273299C>T	uc002glf.1	-	2	638	c.632G>A	c.(631-633)CGC>CAC	p.R211H	KRBA2_uc002glg.1_Missense_Mutation_p.R128H	NM_213597	NP_998762	Q6ZNG9	KRBA2_HUMAN	KRAB-A domain containing 2	211					DNA integration|regulation of transcription, DNA-dependent	intracellular	DNA binding				0						CTTGAGCATGCGTGTCCGCCC	0.418													6	99					0	0	1	0	0		T	8273299	T	T	8273299	3	4	55	1	0	0	0	0	1	0	0	0	8456	768	27	1	850	1	KRBA2	17	8273299	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	165013	8273299	72921911	1298	40332											
WDR16	146845	broad.mit.edu	37	chr17	9536336	9536336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaaaagggtcatcagtggcGgtggggaaggggaggtattg	10	8	20	3	1	2	0	2	0	0	0	2	2	2	2	0	8	0	2	0	8	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:9536336G>A	uc002gly.2	+	10	1375	c.1306G>A	c.(1306-1308)GGT>AGT	p.G436S	WDR16_uc002glz.2_Missense_Mutation_p.G368S|WDR16_uc010coc.2_Missense_Mutation_p.G446S	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	436	WD 7.					cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						CATCAGTGGCGGTGGGGAAGG	0.463													16	30					0	0	1	0	0		A	9536336	A	A	9536336	3	1	55	1	0	0	0	0	1	0	0	0	17302	1116	39	1	1344	1	WDR16	17	9536336	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1263037	9536336	71658874	1299	40333											
MYH13	8735	broad.mit.edu	37	chr17	10233779	10233779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgtgcttgtcatcagcGtcaccagcttctcatctctc	5	13	7	16	2	5	0	4	0	2	0	8	0	5	0	2	0	4	2	2	0	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:10233779G>A	uc002gmk.1	-	21	2450	c.2360C>T	c.(2359-2361)ACG>ATG	p.T787M		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	787	IQ.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TGTCATCAGCGTCACCAGCTT	0.532													10	10					0	0	1	0	0		A	10233779	A	A	10233779	3	1	55	1	0	0	0	0	1	0	0	0	10050	1145	40	1	3540	1	MYH13	17	10233779	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	697443	10233779	70961431	1300	40334											
MYH8	4626	broad.mit.edu	37	chr17	10297588	10297588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtggaggagctggacaCgctcactggcatccaggagc	8	6	17	10	1	1	0	1	0	0	0	2	4	2	4	1	6	2	3	1	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:10297588C>T	uc002gmm.2	-	35	5239	c.5144G>A	c.(5143-5145)CGT>CAT	p.R1715H	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1715	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GAGCTGGACACGCTCACTGGC	0.512									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				26	68					0	0	1	0	0		T	10297588	T	T	10297588	3	4	55	1	0	0	0	0	1	0	0	0	10059	536	19	1	693	1	MYH8	17	10297588	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	63809	10297588	70897622	1301	40335											
MYH2	4620	broad.mit.edu	37	chr17	10450814	10450814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatcatccaggctgcataaCgttctttgaggttgtacagc	10	12	10	9	1	2	2	1	1	1	1	3	2	3	2	1	2	4	5	1	2	2	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:10450814C>T	uc010coi.2	-	4	454	c.326G>A	c.(325-327)CGT>CAT	p.R109H	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.R109H|MYH2_uc010coj.2_Missense_Mutation_p.R109H	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	109	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GGCTGCATAACGTTCTTTGAG	0.483													63	157					0	0	1	0	0		T	10450814	T	T	10450814	3	4	55	1	0	0	0	0	1	0	0	0	10053	536	19	1	5647	1	MYH2	17	10450814	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	153226	10450814	70744396	1302	40336											
MYH3	4621	broad.mit.edu	37	chr17	10545555	10545555	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataaacttgtatttttcttAccctgaaaagggcagagaca	15	12	7	7	0	1	2	0	1	1	1	1	3	1	2	1	1	2	2	1	1	7	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:10545555A>G	uc002gmq.1	-	16	2036	c.1959_splice	c.e16+1	p.R653_splice		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,						muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TATTTTTCTTACCCTGAAAAG	0.383													4	5					0	0	1	0	0		G	10545555	G	G	10545555	5	3	55	1	0	0	0	0	0	0	1	0	10054	405	14	3	3961	3	MYH3	17	10545555	Splice_Site	SNP	A	TCGA-BR-7851-01A-11D-2201-08	94741	10545555	70649655	1303	40337											
HS3ST3B1	9953	broad.mit.edu	37	chr17	14205007	14205007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccggctcctgcgccgccGcgccggggctgctgctcctg	0	6	16	19	7	0	0	0	0	0	0	2	0	2	0	6	3	3	4	6	3	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:14205007G>A	uc002goh.1	+	1	502	c.172G>A	c.(172-174)GCG>ACG	p.A58T	MGC12916_uc010vvv.1_5'Flank	NM_006041	NP_006032	Q9Y662	HS3SB_HUMAN	heparan sulfate D-glucosaminyl	58	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	Golgi membrane|integral to plasma membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|[heparan sulfate]-glucosamine 3-sulfotransferase 3 activity				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0887)		CTGCGCCGCCGCGCCGGGGCT	0.672													17	41					0	0	1	0	0		A	14205007	A	A	14205007	3	1	55	1	0	0	0	0	1	0	0	0	7382	1087	38	1	174	1	HS3ST3B1	17	14205007	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3659452	14205007	66990203	1304	40338											
NCOR1	9611	broad.mit.edu	37	chr17	16024504	16024504	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgactgttggcagtctttcGcccccggggtgtggcttgct	2	13	14	12	2	1	1	0	1	1	0	2	1	1	1	2	4	1	4	2	4	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:16024504G>A	uc002gpo.2	-	16	1954	c.1714C>T	c.(1714-1716)CGA>TGA	p.R572*	NCOR1_uc002gpn.2_Nonsense_Mutation_p.R572*|NCOR1_uc002gpp.1_Nonsense_Mutation_p.R463*|NCOR1_uc002gpr.2_Nonsense_Mutation_p.R463*	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	572					cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GCAGTCTTTCGCCCCCGGGGT	0.542													37	86					0	0	1	0	0		A	16024504	A	A	16024504	4	1	55	1	0	0	0	0	0	1	0	0	10254	1095	38	1	5732	1	NCOR1	17	16024504	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1819497	16024504	65170706	1305	40339											
ZNF624	57547	broad.mit.edu	37	chr17	16527079	16527079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctggtgctgattaagaCgggcacactggctaaaagat	11	11	11	8	1	1	3	0	1	1	2	2	3	1	3	0	3	1	3	0	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:16527079C>T	uc010cpi.1	-	6	1204	c.1121G>A	c.(1120-1122)CGT>CAT	p.R374H		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	374	C2H2-type 4; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CTGATTAAGACGGGCACACTG	0.383													20	67					0	0	1	0	0		T	16527079	T	T	16527079	3	4	55	1	0	0	0	0	1	0	0	0	18073	536	19	1	1480	1	ZNF624	17	16527079	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	502575	16527079	64668131	1306	40340											
NT5M	56953	broad.mit.edu	37	chr17	17250123	17250123	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttcccacccacaggggcCgagccaacccccagctggga	8	4	11	18	1	0	0	0	0	0	0	1	2	1	1	6	3	3	2	6	3	1	1	rs142120102	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:17250123C>T	uc002grf.2	+	5	734	c.549C>T	c.(547-549)GCC>GCT	p.A183A	NT5M_uc002gre.2_Intron|NT5M_uc002grg.2_Silent_p.A189A	NM_020201	NP_064586	Q9NPB1	NT5M_HUMAN	5',3'-nucleotidase, mitochondrial precursor	183					DNA replication|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	5'-nucleotidase activity|metal ion binding|nucleotide binding				0						CCACAGGGGCCGAGCCAACCC	0.677													11	37					0	0	1	0	0		T	17250123	T	T	17250123	2	4	55	1	0	0	0	0	0	0	0	1	10713	639	23	1		1	NT5M	17	17250123	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	723044	17250123	63945087	1307	40341											
RAI1	10743	broad.mit.edu	37	chr17	17699359	17699359	+	Frame_Shift_Del	DEL	C	-	-																															tccctgaatcctgcacagggCccccccagggacagatggaa																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:17699359delC	uc002grm.2	+	3	3566	c.3097delC	c.(3097-3099)CCCfs	p.P1033fs	RAI1_uc002grn.1_Frame_Shift_Del_p.P1033fs	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1033						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CTGCACAGGGCCCCCCCAGGG	0.697													3	3	---	---	---	---						.	-	17699359	-	-	17699359	7	5	55	1	0	1	0	1	0	0	0	0	13032	739	26	0	3099	0	RAI1	17	17699359	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	449236	17699359	63495851	1308	40342											
DRG2	1819	broad.mit.edu	37	chr17	17997255	17997255	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtcgggtgatgcccgtGtggcgctgattggatttccc	5	12	15	9	3	0	3	0	3	0	0	2	4	1	4	2	3	1	1	2	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:17997255G>A	uc002gsh.1	+	2	248	c.193G>A	c.(193-195)GTG>ATG	p.V65M	DRG2_uc010vxg.1_Missense_Mutation_p.V65M|DRG2_uc002gsi.1_RNA|DRG2_uc002gsj.1_Missense_Mutation_p.V65M	NM_001388	NP_001379	P55039	DRG2_HUMAN	developmentally regulated GTP binding protein 2	65					signal transduction		GTP binding			ovary(1)	1	all_neural(463;0.228)					TGATGCCCGTGTGGCGCTGAT	0.557													6	46					0	0	1	0	0		A	17997255	A	A	17997255	3	1	55	1	0	0	0	0	1	0	0	0	4768	1377	48	4	199	4	DRG2	17	17997255	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	297896	17997255	63197955	1309	40343											
MYO15A	51168	broad.mit.edu	37	chr17	18022483	18022483	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacggccgcctgcggccgcgCgcccggtcactcagcaaagc	6	4	13	18	7	2	0	2	0	0	0	2	0	2	0	4	3	4	1	4	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:18022483C>T	uc010vxh.1	+	2	707	c.369C>T	c.(367-369)CGC>CGT	p.R123R		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	123	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					TGCGGCCGCGCGCCCGGTCAC	0.642													7	10					0	0	1	0	0		T	18022483	T	T	18022483	2	4	55	1	0	0	0	0	0	0	0	1	10081	755	27	1		1	MYO15A	17	18022483	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	25228	18022483	63172727	1310	40344											
MYO15A	51168	broad.mit.edu	37	chr17	18034563	18034563	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtccagatcctggaggCaacacccctcttggagtcct	8	9	11	13	0	1	1	0	0	1	1	4	4	4	4	5	4	1	1	5	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:18034563C>G	uc010vxh.1	+	8	4387	c.4049C>G	c.(4048-4050)GCA>GGA	p.A1350G		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1350	Myosin head-like.|Potential.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					ATCCTGGAGGCAACACCCCTC	0.562													4	31					0	0	1	0	0		G	18034563	G	G	18034563	3	3	55	1	0	0	0	0	1	0	0	0	10081	710	25	5	4075	5	MYO15A	17	18034563	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	12080	18034563	63160647	1311	40345											
FAM83G	644815	broad.mit.edu	37	chr17	18881325	18881325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctgccgctggagtggggCgtggcctgggcctgccatcc	3	8	17	13	2	0	0	0	0	0	0	1	1	1	1	5	5	3	2	5	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:18881325C>T	uc002guw.2	-	5	1821	c.1654G>A	c.(1654-1656)GCC>ACC	p.A552T	SLC5A10_uc002gur.1_Intron|SLC5A10_uc002guu.1_Intron|SLC5A10_uc002gut.1_Intron|SLC5A10_uc002guv.1_Intron|SLC5A10_uc010vyl.1_Intron	NM_001039999	NP_001035088	A6ND36	FA83G_HUMAN	hypothetical protein LOC644815	552										ovary(1)|central_nervous_system(1)	2						TGGAGTGGGGCGTGGCCTGGG	0.622													14	42					0	0	1	0	0		T	18881325	T	T	18881325	3	4	55	1	0	0	0	0	1	0	0	0	5653	768	27	1	825	1	FAM83G	17	18881325	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	846762	18881325	62313885	1312	40346											
CYTSB	92521	broad.mit.edu	37	chr17	20000031	20000031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccacggcccagaccgggtgCggcctctgcctgcagcctct	4	6	13	18	3	2	1	0	0	2	1	2	1	2	1	6	3	4	1	6	3	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:20000031C>T	uc002gwq.2	+	2	212	c.67C>T	c.(67-69)CGG>TGG	p.R23W	CYTSB_uc010cqx.2_Missense_Mutation_p.R23W|CYTSB_uc002gwr.2_Missense_Mutation_p.R23W|CYTSB_uc002gws.2_Missense_Mutation_p.R23W	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	23						nucleus					0						AGACCGGGTGCGGCCTCTGCC	0.582													21	73					0	0	1	0	0		T	20000031	T	T	20000031	3	4	55	1	0	0	0	0	1	0	0	0	4213	759	27	1	69	1	CYTSB	17	20000031	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1118706	20000031	61195179	1313	40347											
LGALS9B	284194	broad.mit.edu	37	chr17	20361661	20361661	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaagtggaaggcaatgtcGtttccactgaagcccgtctg	9	11	12	9	2	1	2	0	2	1	0	3	3	2	3	2	2	1	2	2	2	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:20361661G>A	uc002gxa.1	-	3	233	c.168C>T	c.(166-168)AAC>AAT	p.N56N	LGALS9B_uc002gwz.1_Silent_p.N56N|LGALS9B_uc010vzh.1_Translation_Start_Site	NM_001042685	NP_001036150	Q3B8N2	LEG9B_HUMAN	galectin-9 like	56	Galectin 1.						sugar binding			skin(1)	1						AGGCAATGTCGTTTCCACTGA	0.532													7	13					0	0	1	0	0		A	20361661	A	A	20361661	2	1	55	1	0	0	0	0	0	0	0	1	8765	1136	40	1		1	LGALS9B	17	20361661	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	361630	20361661	60833549	1314	40348											
USP22	23326	broad.mit.edu	37	chr17	20921419	20921419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaaggttgatcagcccacGcagacctggacacaaatcac	13	5	8	15	1	2	2	2	1	0	1	2	3	2	3	3	2	1	2	3	2	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:20921419G>A	uc002gym.3	-	5	730	c.526C>T	c.(526-528)CGT>TGT	p.R176C	USP22_uc002gyn.3_Missense_Mutation_p.R164C|USP22_uc002gyl.3_Missense_Mutation_p.R71C	NM_015276	NP_056091	Q9UPT9	UBP22_HUMAN	ubiquitin thiolesterase 22	176					cell cycle|embryo development|histone deubiquitination|histone H4 acetylation|histone ubiquitination|positive regulation of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1						ATCAGCCCACGCAGACCTGGA	0.552													14	57					0	0	1	0	0		A	20921419	A	A	20921419	3	1	55	1	0	0	0	0	1	0	0	0	17080	1087	38	1	1087	1	USP22	17	20921419	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	559758	20921419	60273791	1315	40349											
MAP2K3	5606	broad.mit.edu	37	chr17	21206533	21206533	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catctgcacagcaagctgtcGgtgatccacagaggtcagtg	10	8	12	11	1	2	2	1	1	1	1	4	2	3	2	1	2	3	3	1	2	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:21206533G>A	uc002gys.2	+	7	820	c.555G>A	c.(553-555)TCG>TCA	p.S185S	MAP2K3_uc002gyt.2_Silent_p.S156S|MAP2K3_uc002gyu.2_Silent_p.S156S	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	185	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		GCAAGCTGTCGGTGATCCACA	0.622													4	46					0	0	1	0	0		A	21206533	A	A	21206533	2	1	55	1	0	0	0	0	0	0	0	1	9256	1103	39	1		1	MAP2K3	17	21206533	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	285114	21206533	59988677	1316	40350											
WSB1	26118	broad.mit.edu	37	chr17	25630634	25630634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagggttgaacaatgggCgtatcaaaatatgggatgta	14	10	12	5	1	1	1	1	1	0	0	1	2	1	2	0	3	2	3	0	3	8	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:25630634C>T	uc002gzd.1	+	3	767	c.451C>T	c.(451-453)CGT>TGT	p.R151C	WSB1_uc010vzy.1_Missense_Mutation_p.R151C|WSB1_uc010vzz.1_Missense_Mutation_p.R120C|WSB1_uc010crf.1_Intron|WSB1_uc002gze.1_Intron|WSB1_uc002gzf.1_RNA	NM_015626	NP_056441	Q9Y6I7	WSB1_HUMAN	WD repeat and SOCS box-containing 1 isoform 1	151	WD 2.				intracellular signal transduction	intracellular	protein binding				0	all_cancers(1;2e-13)|all_epithelial(1;4.8e-15)|Lung NSC(42;0.00152)		BRCA - Breast invasive adenocarcinoma(3;0.0152)	UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		GAACAATGGGCGTATCAAAAT	0.378													5	159					0	0	1	0	0		T	25630634	T	T	25630634	3	4	55	1	0	0	0	0	1	0	0	0	17430	768	27	1	461	1	WSB1	17	25630634	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4424101	25630634	55564576	1317	40351											
SUPT6H	6830	broad.mit.edu	37	chr17	27002046	27002046	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacgatgacgaggaggaatAtggcaaggaggaacatgaaa	17	4	16	4	2	0	2	0	2	0	0	0	9	0	7	0	6	1	1	0	6	5	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:27002046A>G	uc002hby.2	+	5	494	c.404A>G	c.(403-405)TAT>TGT	p.Y135C	SUPT6H_uc010crt.2_Missense_Mutation_p.Y135C	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	135	Asp/Glu-rich.				chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					GAGGAGGAATATGGCAAGGAG	0.517													7	19					0	0	1	0	0		G	27002046	G	G	27002046	3	3	55	1	0	0	0	0	1	0	0	0	15425	449	16	3	418	3	SUPT6H	17	27002046	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1371412	27002046	54193164	1318	40352											
TRAF4	9618	broad.mit.edu	37	chr17	27076100	27076100	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagctatcagtgggcagTgatggcgtgctcatctggaa	9	9	16	7	1	3	1	2	1	1	0	3	4	3	3	0	4	2	3	0	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:27076100T>C	uc002hcs.2	+	7	1026	c.918T>C	c.(916-918)AGT>AGC	p.S306S	TRAF4_uc002hcq.1_Intron	NM_004295	NP_004286	Q9BUZ4	TRAF4_HUMAN	TNF receptor-associated factor 4	306	Potential.				apoptosis|positive regulation of JNK cascade|positive regulation of protein homodimerization activity|positive regulation of protein kinase activity|regulation of apoptosis|signal transduction	cytoskeleton|nucleus|perinuclear region of cytoplasm|tight junction	DNA binding|ubiquitin-protein ligase activity|WW domain binding|zinc ion binding			upper_aerodigestive_tract(1)|lung(1)	2	Lung NSC(42;0.01)		Epithelial(11;3.26e-05)|all cancers(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.235)			CAGTGGGCAGTGATGGCGTGC	0.607													4	47					0	0	1	0	0		C	27076100	C	C	27076100	2	2	55	1	0	0	0	0	0	0	0	1	16469	1693	59	3		3	TRAF4	17	27076100	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	74054	27076100	54119110	1319	40353											
TAOK1	57551	broad.mit.edu	37	chr17	27849338	27849338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcagaaggacttagagcatgCcatgctactccgacagcatg	12	8	10	11	1	1	2	1	0	0	2	2	4	2	3	2	1	5	3	2	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:27849338C>T	uc002hdz.1	+	17	2143	c.1949C>T	c.(1948-1950)GCC>GTC	p.A650V	TAOK1_uc010wbe.1_Intron|TAOK1_uc010wbf.1_Missense_Mutation_p.A650V	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	650	Potential.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			TTAGAGCATGCCATGCTACTC	0.408													17	37					0	0	1	0	0		T	27849338	T	T	27849338	3	4	55	1	0	0	0	0	1	0	0	0	15572	739	26	2	2011	2	TAOK1	17	27849338	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	773238	27849338	53345872	1320	40354											
ABHD15	116236	broad.mit.edu	37	chr17	27889799	27889799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctggcaagggctcctggCgcaggaagccacagtggcct	8	5	16	12	1	0	0	0	0	0	0	1	1	1	1	3	6	1	4	3	6	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:27889799C>T	uc002hed.1	-	2	1251	c.1187G>A	c.(1186-1188)CGC>CAC	p.R396H		NM_198147	NP_937790	Q6UXT9	ABH15_HUMAN	abhydrolase domain containing 15 precursor	396						extracellular region	carboxylesterase activity				0						GGGCTCCTGGCGCAGGAAGCC	0.592													9	25					0	0	1	0	0		T	27889799	T	T	27889799	3	4	55	1	0	0	0	0	1	0	0	0	81	768	27	1	223	1	ABHD15	17	27889799	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	40461	27889799	53305411	1321	40355											
SLC6A4	6532	broad.mit.edu	37	chr17	28548814	28548814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgtgtgtcatctcccgCaccaggacttggaactgctg	6	10	12	13	2	2	0	1	0	1	0	3	2	2	2	3	2	3	2	3	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:28548814C>T	uc002hey.3	-	3	707	c.163G>A	c.(163-165)GCG>ACG	p.A55T		NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	55	Cytoplasmic (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	TCATCTCCCGCACCAGGACTT	0.557													37	176					0	0	1	0	0		T	28548814	T	T	28548814	3	4	55	1	0	0	0	0	1	0	0	0	14711	710	25	2	1781	2	SLC6A4	17	28548814	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	659015	28548814	52646396	1322	40356											
CRLF3	51379	broad.mit.edu	37	chr17	29123265	29123265	+	Frame_Shift_Del	DEL	A	-	-																															gatgctactgttccatgcttAaaaatgtggtctttcactat																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:29123265delA	uc002hfr.3	-	4	625	c.516delT	c.(514-516)TTTfs	p.F172fs	CRLF3_uc010wbr.1_Frame_Shift_Del_p.F56fs	NM_015986	NP_057070	Q8IUI8	CRLF3_HUMAN	cytokine receptor-like factor 3	172					negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|positive regulation of cell cycle arrest|positive regulation of JAK-STAT cascade|positive regulation of transcription from RNA polymerase II promoter	cytoplasm					0		all_hematologic(16;0.014)|Acute lymphoblastic leukemia(14;0.0236)|Myeloproliferative disorder(56;0.0255)				TTCCATGCTTAAAAATGTGGT	0.408													25	46	---	---	---	---						.	-	29123265	-	-	29123265	7	5	55	1	0	1	0	1	0	0	0	0	3891	359	13	0	832	0	CRLF3	17	29123265	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	574451	29123265	52071945	1323	40357											
TMEM132E	124842	broad.mit.edu	37	chr17	32953916	32953916	+	Frame_Shift_Del	DEL	C	-	-																															gcatcagcctgttccgcccgCcccccaggaggaccctgcag																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:32953916delC	uc002hif.2	+	3	896	c.568delC	c.(568-570)CCCfs	p.P190fs		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	190	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		GTTCCGCCCGCCCCCCAGGAG	0.547													13	30	---	---	---	---						.	-	32953916	-	-	32953916	7	5	55	1	0	1	0	1	0	0	0	0	16073	739	26	0	578	0	TMEM132E	17	32953916	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	3830651	32953916	48241294	1324	40358											
SLFN5	162394	broad.mit.edu	37	chr17	33586029	33586029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcatggaacacagaggctgGtgtgccacttgctaccttat	10	11	10	10	0	1	1	1	0	0	1	1	2	1	2	2	3	4	2	2	3	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:33586029G>A	uc002hjf.3	+	2	437	c.320G>A	c.(319-321)GGT>GAT	p.G107D	SLFN5_uc002hje.2_Missense_Mutation_p.G107D|SLFN5_uc010wcg.1_Missense_Mutation_p.G107D	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	107					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		ACAGAGGCTGGTGTGCCACTT	0.438													22	62					0	0	1	0	0		A	33586029	A	A	33586029	3	1	55	1	0	0	0	0	1	0	0	0	14762	1261	44	4	322	4	SLFN5	17	33586029	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	632113	33586029	47609181	1325	40359											
MMP28	79148	broad.mit.edu	37	chr17	34097174	34097174	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggcgccatgagcgcgcgCggcgcgggcgagtgggtgag	5	4	22	10	8	0	2	0	2	0	0	0	3	0	2	1	4	1	0	1	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:34097174C>T	uc002hjy.1	-	7	1021	c.762G>A	c.(760-762)CCG>CCA	p.P254P	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	254					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		TGAGCGCGCGCGGCGCGGGCG	0.716													7	14					0	0	1	0	0		T	34097174	T	T	34097174	2	4	55	1	0	0	0	0	0	0	0	1	9683	755	27	1		1	MMP28	17	34097174	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	511145	34097174	47098036	1326	40360											
CCL16	6360	broad.mit.edu	37	chr17	34305185	34305185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggacgtgcttacatgattGctggcaggtgacagttgagg	10	10	15	6	1	0	3	0	3	0	0	0	4	0	4	0	4	3	4	0	4	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:34305185G>A	uc002hkl.2	-	2	258	c.191C>T	c.(190-192)GCA>GTA	p.A64V	CCL16_uc002hkm.2_RNA	NM_004590	NP_004581	O15467	CCL16_HUMAN	small inducible cytokine A16 precursor	64					cell-cell signaling|immune response|inflammatory response	extracellular space	chemoattractant activity|chemokine activity				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TTACATGATTGCTGGCAGGTG	0.498													48	109					0	0	1	0	0		A	34305185	A	A	34305185	3	1	55	1	0	0	0	0	1	0	0	0	2890	1319	46	2	179	2	CCL16	17	34305185	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	208011	34305185	46890025	1327	40361											
CCL15	6359	broad.mit.edu	37	chr17	34325931	34325931	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctactggattttccagtggaAgctttgacatcattaactct	10	15	7	9	0	2	1	1	1	1	0	3	3	3	3	1	2	3	1	1	2	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:34325931A>C	uc010wcu.1	-	2	676	c.107T>G	c.(106-108)CTT>CGT	p.L36R	CCL14-CCL15_uc010wcs.1_RNA|CCL14-CCL15_uc010wct.1_RNA	NM_032965	NP_116741	Q16663	CCL15_HUMAN	chemokine (C-C motif) ligand 15 precursor	36					cell-cell signaling|cellular calcium ion homeostasis|immune response	extracellular space	chemoattractant activity|chemokine activity|heparin binding|signal transducer activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TTCCAGTGGAAGCTTTGACAT	0.458													14	34					0	0	1	0	0		C	34325931	C	C	34325931	3	2	55	1	0	0	0	0	1	0	0	0	2889	72	3	5	246	5	CCL15	17	34325931	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	20746	34325931	46869279	1328	40362											
CCL18	6362	broad.mit.edu	37	chr17	34398397	34398397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagcgacctgaagctgaatgCctgaggggcctggaagctgc	9	6	15	11	1	0	3	0	3	0	0	0	5	0	4	3	3	5	2	3	3	3	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:34398397C>T	uc002hku.2	+	3	326	c.266C>T	c.(265-267)GCC>GTC	p.A89V		NM_002988	NP_002979	P55774	CCL18_HUMAN	small inducible cytokine A18 precursor	89					cell-cell signaling|chemotaxis|immune response|inflammatory response|response to biotic stimulus|signal transduction	extracellular space	chemokine activity				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		AAGCTGAATGCCTGAGGGGCC	0.612													11	24					0	0	1	0	0		T	34398397	T	T	34398397	3	4	55	1	0	0	0	0	1	0	0	0	2892	739	26	2	276	2	CCL18	17	34398397	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	72466	34398397	46796813	1329	40363											
AATF	26574	broad.mit.edu	37	chr17	35346004	35346004	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataagaccaaactggcttcTggaaaactggggaaggcaag	15	6	13	7	0	1	1	0	0	1	1	1	4	1	3	1	5	2	2	1	5	6	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:35346004T>A	uc002hni.2	+	6	1385	c.1134T>A	c.(1132-1134)TCT>TCA	p.S378S	AATF_uc002hnj.2_RNA	NM_012138	NP_036270	Q9NY61	AATF_HUMAN	apoptosis antagonizing transcription factor	378	RB1 and SP1 binding.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of superoxide anion generation|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to DNA damage stimulus	centrosome|focal adhesion|nucleolus	leucine zipper domain binding|sequence-specific DNA binding transcription factor activity				0		Breast(25;0.00607)				AACTGGCTTCTGGAAAACTGG	0.458													6	33					0	0	1	0	0		A	35346004	A	A	35346004	2	1	55	1	0	0	0	0	0	0	0	1	25	1567	55	5		5	AATF	17	35346004	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	947607	35346004	45849206	1330	40364											
ACACA	31	broad.mit.edu	37	chr17	35549074	35549074	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgattgcacgaacaaagAacctgtagtctgtcacttct	12	12	8	9	1	3	3	1	2	2	1	3	4	3	3	1	0	3	2	1	0	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:35549074A>C	uc002hnm.2	-	37	4453	c.4262T>G	c.(4261-4263)TTC>TGC	p.F1421C	ACACA_uc002hnk.2_Missense_Mutation_p.F1343C|ACACA_uc002hnl.2_Missense_Mutation_p.F1363C|ACACA_uc002hnn.2_Missense_Mutation_p.F1421C|ACACA_uc002hno.2_Missense_Mutation_p.F1458C|ACACA_uc010cuy.2_Missense_Mutation_p.F115C	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1421					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	ACGAACAAAGAACCTGTAGTC	0.473													14	52					0	0	1	0	0		C	35549074	C	C	35549074	3	2	55	1	0	0	0	0	1	0	0	0	106	246	9	5	2858	5	ACACA	17	35549074	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	203070	35549074	45646136	1331	40365											
HNF1B	6928	broad.mit.edu	37	chr17	36059100	36059100	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgtttacttgaagacatGttggtgagtgtactgatgct	9	15	11	6	0	0	4	0	3	0	1	0	4	0	4	1	1	3	4	1	1	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:36059100G>A	uc002hok.3	-	8	1856	c.1635C>T	c.(1633-1635)AAC>AAT	p.N545N	HNF1B_uc010wdi.1_Silent_p.N519N	NM_000458	NP_000449	P35680	HNF1B_HUMAN	hepatocyte nuclear factor 1-beta isoform 1	545					endocrine pancreas development|genitalia development|kidney development|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric nephron tubule development|regulation of pronephros size	nucleus	DNA binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			TTGAAGACATGTTGGTGAGTG	0.537									Hereditary_Prostate_Cancer				17	36					0	0	1	0	0		A	36059100	A	A	36059100	2	1	55	1	0	0	0	0	0	0	0	1	7268	1368	48	4		4	HNF1B	17	36059100	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	510026	36059100	45136110	1332	40366											
GPR179	440435	broad.mit.edu	37	chr17	36484063	36484063	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacacacttcacctggccTgcagcccatatgatccagtt	9	9	9	14	0	1	1	1	1	0	0	2	2	2	2	4	2	2	2	4	2	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:36484063T>C	uc002hpz.2	-	11	5410	c.5389A>G	c.(5389-5391)AGG>GGG	p.R1797G		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	1797	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				TCACCTGGCCTGCAGCCCATA	0.557													8	113					0	0	1	0	0		C	36484063	C	C	36484063	3	2	55	1	0	0	0	0	1	0	0	0	6689	1579	55	3	1718	3	GPR179	17	36484063	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	424963	36484063	44711147	1333	40367											
PCGF2	7703	broad.mit.edu	37	chr17	36895356	36895356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctgcatagaaatcccgcCgccgtttcatctcatctgga	9	10	8	14	4	3	1	2	0	2	1	5	2	4	2	3	1	1	3	3	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:36895356C>T	uc002hqp.1	-	6	524	c.281G>A	c.(280-282)CGG>CAG	p.R94Q	PCGF2_uc002hqn.1_Missense_Mutation_p.R94Q|PCGF2_uc002hqo.1_Missense_Mutation_p.R94Q|PCGF2_uc010cvo.1_5'UTR|PCGF2_uc002hqq.1_Missense_Mutation_p.R94Q	NM_007144	NP_009075	P35227	PCGF2_HUMAN	ring finger protein 110	94	Nuclear localization signal (Potential).				negative regulation of transcription from RNA polymerase II promoter	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2	Breast(7;9.07e-22)					GAAATCCCGCCGCCGTTTCAT	0.562													15	62					0	0	1	0	0		T	36895356	T	T	36895356	3	4	55	1	0	0	0	0	1	0	0	0	11594	652	23	1	777	1	PCGF2	17	36895356	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	411293	36895356	44299854	1334	40368											
PIP4K2B	8396	broad.mit.edu	37	chr17	36927329	36927329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attccccaggaccaaagaacCgaggaaagctgaggaggttg	14	5	13	9	1	0	2	0	1	0	1	1	6	1	5	4	4	2	2	4	4	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:36927329C>T	uc002hqs.2	-	8	1485	c.1004G>A	c.(1003-1005)CGG>CAG	p.R335Q	PIP4K2B_uc010cvp.2_5'Flank	NM_003559	NP_003550	P78356	PI42B_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	335	PIPK.				cell surface receptor linked signaling pathway	endoplasmic reticulum membrane|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|receptor signaling protein activity			ovary(1)	1						ACCAAAGAACCGAGGAAAGCT	0.527													8	39					0	0	1	0	0		T	36927329	T	T	36927329	3	4	55	1	0	0	0	0	1	0	0	0	11956	652	23	1	258	1	PIP4K2B	17	36927329	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	31973	36927329	44267881	1335	40369											
PIP4K2B	8396	broad.mit.edu	37	chr17	36955530	36955530	+	Frame_Shift_Del	DEL	C	-	-																															gctggttaccgtgtggttcaCcccccacatcaggacgctga																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:36955530delC	uc002hqs.2	-	1	629	c.148delG	c.(148-150)GTGfs	p.V50fs	PIP4K2B_uc010wdt.1_Frame_Shift_Del_p.V50fs	NM_003559	NP_003550	P78356	PI42B_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	50	PIPK.				cell surface receptor linked signaling pathway	endoplasmic reticulum membrane|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|receptor signaling protein activity			ovary(1)	1						GTGTGGTTCACCCCCCACATC	0.677													17	39	---	---	---	---						.	-	36955530	-	-	36955530	7	5	55	1	0	1	0	1	0	0	0	0	11956	507	18	0	1142	0	PIP4K2B	17	36955530	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	28201	36955530	44239680	1336	40370											
MED1	5469	broad.mit.edu	37	chr17	37566787	37566787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccccggaaaggtgttggttgGtgtagtggtaccactcattg	7	12	14	8	1	1	0	1	0	0	0	1	1	1	1	3	5	1	4	3	5	3	5	rs1139822		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:37566787G>A	uc002hrv.3	-	17	1899	c.1687C>T	c.(1687-1689)CCA>TCA	p.P563S	MED1_uc010wee.1_Missense_Mutation_p.P391S|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	563	Interaction with ESR1.|Interaction with THRA.|Interaction with VDR.|Interaction with the Mediator complex and THRA.			P -> S (in Ref. 1; CAA73867 and 7; AAF98352).	androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		GTGTTGGTTGGTGTAGTGGTA	0.532										HNSCC(31;0.082)			43	73					0	0	1	0	0		A	37566787	A	A	37566787	3	1	55	1	0	0	0	0	1	0	0	0	9443	1261	44	4	3062	4	MED1	17	37566787	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	611257	37566787	43628423	1337	40371											
CDK12	51755	broad.mit.edu	37	chr17	37627211	37627211	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtaaaaagaagagatccAgttcacgcagtcgtcattcc	15	9	8	9	2	2	2	2	0	0	2	5	3	4	2	2	0	0	3	2	0	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:37627211A>G	uc010cvv.2	+	2	1712	c.1126A>G	c.(1126-1128)AGT>GGT	p.S376G	CDK12_uc010wef.1_Missense_Mutation_p.S375G|CDK12_uc002hrw.3_Missense_Mutation_p.S376G	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	376					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						GAAGAGATCCAGTTCACGCAG	0.423										TCGA Ovarian(9;0.13)			9	23					0	0	1	0	0		G	37627211	G	G	37627211	3	3	55	1	0	0	0	0	1	0	0	0	3131	188	7	3	1132	3	CDK12	17	37627211	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	60424	37627211	43567999	1338	40372											
WIPF2	147179	broad.mit.edu	37	chr17	38430168	38430168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacctccaccctcaaggaCgccagctgggccaccccctc	7	4	7	23	1	1	0	1	0	0	0	3	1	2	1	8	2	1	1	8	2	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:38430168C>T	uc002hug.1	+	6	1337	c.1097C>T	c.(1096-1098)ACG>ATG	p.T366M	WIPF2_uc002huh.1_Missense_Mutation_p.T216M|WIPF2_uc010cww.1_Missense_Mutation_p.T216M|WIPF2_uc002hui.1_Missense_Mutation_p.T366M|WIPF2_uc010cwx.1_Missense_Mutation_p.T108M|WIPF2_uc010cwy.1_Missense_Mutation_p.T366M	NM_133264	NP_573571	Q8TF74	WIPF2_HUMAN	WIRE protein	366						cytoplasm|cytoskeleton	actin binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						CCCTCAAGGACGCCAGCTGGG	0.622										HNSCC(43;0.11)			40	81					0	0	1	0	0		T	38430168	T	T	38430168	3	4	55	1	0	0	0	0	1	0	0	0	17394	536	19	1	1115	1	WIPF2	17	38430168	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	802957	38430168	42765042	1339	40373											
RARA	5914	broad.mit.edu	37	chr17	38506123	38506123	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacaaggtgacccggaacCgctgccagtactgccgactg	10	6	11	14	3	1	1	1	1	0	0	1	3	1	2	4	2	5	2	4	2	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:38506123C>A	uc002huk.1	+	4	870	c.415C>A	c.(415-417)CGC>AGC	p.R139S	RARA_uc002hul.3_Missense_Mutation_p.R139S|RARA_uc010wfe.1_Intron|RARA_uc002hun.1_Missense_Mutation_p.R134S	NM_000964	NP_000955	P10276	RARA_HUMAN	retinoic acid receptor, alpha isoform 1	139	Nuclear receptor.|NR C4-type.				apoptotic cell clearance|cellular response to estrogen stimulus|cellular response to retinoic acid|estrogen receptor signaling pathway|negative regulation of granulocyte differentiation|negative regulation of interferon-gamma production|negative regulation of tumor necrosis factor production|positive regulation of binding|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of interleukin-13 production|positive regulation of interleukin-4 production|positive regulation of interleukin-5 production|positive regulation of T-helper 2 cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	cytoplasm|nucleoplasm	chromatin DNA binding|enzyme binding|protein domain specific binding|protein heterodimerization activity|receptor binding|retinoic acid binding|retinoic acid receptor activity|retinoic acid-responsive element binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00143)		Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Isotretinoin(DB00982)|Tamibarotene(DB04942)|Tazarotene(DB00799)	GACCCGGAACCGCTGCCAGTA	0.587			T	PML|ZNF145|TIF1|NUMA1|NPM1	APL								18	42					3.5997e-14	3.94167e-14	1	1	0		A	38506123	A	A	38506123	3	1	55	1	0	0	0	0	1	0	0	0	13077	652	23	5	592	5	RARA	17	38506123	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	75955	38506123	42689087	1340	40374											
TNS4	84951	broad.mit.edu	37	chr17	38645087	38645087	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgctgcttcgtgtctctcGggggacgtctctggaaagga	6	11	14	10	3	2	0	0	0	2	0	6	3	2	3	0	4	2	2	0	4	1	1	rs146714186		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:38645087G>A	uc010cxb.2	-	3	738	c.574C>T	c.(574-576)CGA>TGA	p.R192*		NM_032865	NP_116254	Q8IZW8	TENS4_HUMAN	tensin 4 precursor	192	Ser-rich.				apoptosis|protein localization	cytoplasm|cytoskeleton|focal adhesion	actin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(5;5.91e-05)			CGTGTCTCTCGGGGGACGTCT	0.672													14	52					0	0	1	0	0		A	38645087	A	A	38645087	4	1	55	1	0	0	0	0	0	1	0	0	16370	1124	39	1	1617	1	TNS4	17	38645087	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	138964	38645087	42550123	1341	40375											
KRT10	3858	broad.mit.edu	37	chr17	38975866	38975866	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattcagtattctggcactCggtttcagctcgaatctgtt	7	16	9	9	2	4	0	2	0	2	0	6	1	4	0	0	2	1	6	0	2	3	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:38975866C>A	uc002hvi.2	-	6	1302	c.1276G>T	c.(1276-1278)GAG>TAG	p.E426*	KRT10_uc010cxd.2_RNA|TMEM99_uc002hvj.1_Intron	NM_000421	NP_000412	P13645	K1C10_HUMAN	keratin 10	426	Rod.|Gly-rich.|Coil 2.				epidermis development		protein binding|structural constituent of epidermis				0		Breast(137;0.000301)				TTCTGGCACTCGGTTTCAGCT	0.483													33	72					3.3946e-10	3.66667e-10	1	1	0		A	38975866	A	A	38975866	4	1	55	1	0	0	0	0	0	1	0	0	8464	893	31	5	490	5	KRT10	17	38975866	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	330779	38975866	42219344	1342	40376											
KRTAP4-12	83755	broad.mit.edu	37	chr17	39279872	39279872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactcggccacagactggaCgcaggcagcagcaggggcgg	10	2	17	12	3	0	2	0	0	0	2	1	3	0	3	1	6	2	4	1	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:39279872C>T	uc002hwa.2	-	1	548	c.503G>A	c.(502-504)CGT>CAT	p.R168H		NM_031854	NP_114060	Q9BQ66	KR412_HUMAN	keratin associated protein 4-12	168	31 X 5 AA repeats of C-C-[GRQVIL]-[SPTR]- [VSTQPC].|30.					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			ACAGACTGGACGCAGgcagca	0.333													3	9					0	0	1	0	0		T	39279872	T	T	39279872	3	4	55	1	0	0	0	0	1	0	0	0	8566	536	19	1	106	1	KRTAP4-12	17	39279872	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	304006	39279872	41915338	1343	40377											
GHDC	84514	broad.mit.edu	37	chr17	40344470	40344470	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggcgctccagggttcccGgcagctatcgccccagctag	7	6	13	15	3	0	1	0	0	0	1	3	1	2	1	4	3	2	5	4	3	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:40344470G>A	uc002hzd.2	-	4	1162	c.678C>T	c.(676-678)GCC>GCT	p.A226A	GHDC_uc002hzg.1_Silent_p.A226A|GHDC_uc010wgg.1_Silent_p.A187A|GHDC_uc002hze.3_Silent_p.A226A|GHDC_uc002hzf.3_Silent_p.A226A|GHDC_uc010cxz.2_RNA	NM_032484	NP_115873	Q8N2G8	GHDC_HUMAN	LGP1 homolog isoform 1	226						endoplasmic reticulum|nuclear envelope					0		all_cancers(22;0.000229)|Breast(137;0.00104)|all_epithelial(22;0.00304)		BRCA - Breast invasive adenocarcinoma(366;0.124)		CAGGGTTCCCGGCAGCTATCG	0.657													39	88					0	0	1	0	0		A	40344470	A	A	40344470	2	1	55	1	0	0	0	0	0	0	0	1	6384	1103	39	1		1	GHDC	17	40344470	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1064598	40344470	40850740	1344	40378											
TUBG1	7283	broad.mit.edu	37	chr17	40766006	40766006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggctacacccctctcactaCggaccagtcagtaagagcag	11	6	9	15	2	2	1	2	0	1	1	3	2	2	2	3	2	3	3	3	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:40766006C>T	uc002ian.2	+	8	1231	c.833C>T	c.(832-834)ACG>ATG	p.T278M		NM_001070	NP_001061	P23258	TBG1_HUMAN	tubulin, gamma 1	278					G2/M transition of mitotic cell cycle|meiotic spindle organization|protein polymerization	condensed nuclear chromosome|cytosol|gamma-tubulin complex|polar microtubule	GTP binding|GTPase activity|protein binding|structural constituent of cytoskeleton			ovary(1)	1		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.129)		CCTCTCACTACGGACCAGTCA	0.617													55	125					0	0	1	0	0		T	40766006	T	T	40766006	3	4	55	1	0	0	0	0	1	0	0	0	16790	536	19	1	863	1	TUBG1	17	40766006	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	421536	40766006	40429204	1345	40379											
CNTNAP1	8506	broad.mit.edu	37	chr17	40843896	40843896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaatccgtgccaaccacaGcctggatgtctccttctact	8	10	6	17	1	2	0	0	0	2	0	4	1	3	1	6	1	4	0	6	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:40843896G>A	uc002iay.2	+	16	2633	c.2417G>A	c.(2416-2418)AGC>AAC	p.S806N	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	806	Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		GCCAACCACAGCCTGGATGTC	0.572													10	235					0	0	1	0	0		A	40843896	A	A	40843896	3	1	55	1	0	0	0	0	1	0	0	0	3649	971	34	2	2479	2	CNTNAP1	17	40843896	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	77890	40843896	40351314	1346	40380											
EZH1	2145	broad.mit.edu	37	chr17	40854922	40854922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagaagagctcttcgccaGcttgaattgccctcttggca	10	10	9	12	1	2	3	0	1	2	2	3	3	2	3	2	1	3	3	2	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:40854922G>A	uc002iaz.2	-	20	2301	c.2156C>T	c.(2155-2157)GCT>GTT	p.A719V	EZH1_uc002iba.2_Missense_Mutation_p.A710V|EZH1_uc010wgt.1_Missense_Mutation_p.A649V|EZH1_uc010wgu.1_Missense_Mutation_p.A725V|EZH1_uc010wgv.1_Missense_Mutation_p.A679V|EZH1_uc010wgw.1_Missense_Mutation_p.A580V	NM_001991	NP_001982	Q92800	EZH1_HUMAN	enhancer of zeste homolog 1	719	SET.			VVMVNGDHRIGIFAKRAIQAGEELFFDYRYSQADALKYVGI ERETDVL -> GESQ (in Ref. 2; BAA25019).	anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	chromatin binding|DNA binding			ovary(3)	3		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0784)		CTCTTCGCCAGCTTGAATTGC	0.512													37	120					0	0	1	0	0		A	40854922	A	A	40854922	3	1	55	1	0	0	0	0	1	0	0	0	5341	971	34	2	95	2	EZH1	17	40854922	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	11026	40854922	40340288	1347	40381											
WNK4	65266	broad.mit.edu	37	chr17	40939342	40939342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgattaccagccagtggcccGtgcagtacgtgaacgggttg	8	8	14	11	4	0	1	0	1	0	0	0	2	0	1	3	2	5	3	3	2	3	3	rs55997156	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:40939342G>A	uc002ibj.2	+	7	1544	c.1523G>A	c.(1522-1524)CGT>CAT	p.R508H	WNK4_uc010wgx.1_Missense_Mutation_p.R172H|WNK4_uc002ibk.1_Missense_Mutation_p.R280H|WNK4_uc010wgy.1_Translation_Start_Site	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	508					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		CCAGTGGCCCGTGCAGTACGT	0.587													10	34					0	0	1	0	0		A	40939342	A	A	40939342	3	1	55	1	0	0	0	0	1	0	0	0	17406	1145	40	1	1549	1	WNK4	17	40939342	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	84420	40939342	40255868	1348	40382											
BECN1	8678	broad.mit.edu	37	chr17	40965966	40965966	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggagcttcacagagtacCttagatttgtctgtcagaga	12	12	10	7	0	3	3	2	0	1	3	3	5	3	4	1	1	2	2	1	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:40965966C>G	uc002ibo.3	-	10	1176	c.1041G>C	c.(1039-1041)AAG>AAC	p.K347N	BECN1_uc010whb.1_Missense_Mutation_p.K260N|BECN1_uc010whc.1_Missense_Mutation_p.K271N|BECN1_uc002ibn.2_Missense_Mutation_p.K347N	NM_003766	NP_003757	Q14457	BECN1_HUMAN	beclin 1	347					anti-apoptosis|cell cycle|cellular defense response|cytokinesis|response to virus	membrane	protein binding			ovary(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0745)		CACAGAGTACCTTAGATTTGT	0.358													13	32					0	0	1	0	0		G	40965966	G	G	40965966	3	3	55	1	0	0	0	0	1	0	0	0	1397	695	24	5	323	5	BECN1	17	40965966	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	26624	40965966	40229244	1349	40383											
RUNDC1	146923	broad.mit.edu	37	chr17	41142424	41142424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctgcagcagaacaggcaGcagcagaacgcctccaggaa	13	3	13	12	1	0	2	0	0	0	2	1	3	1	3	2	3	6	6	2	3	3	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:41142424G>A	uc002ici.1	+	4	959	c.947G>A	c.(946-948)AGC>AAC	p.S316N	RUNDC1_uc010whi.1_Missense_Mutation_p.S86N	NM_173079	NP_775102	Q96C34	RUND1_HUMAN	RUN domain containing 1	316											0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		AGAACAGGCAGCAGCAGAACG	0.388													20	43					0	0	1	0	0		A	41142424	A	A	41142424	3	1	55	1	0	0	0	0	1	0	0	0	13767	971	34	2	961	2	RUNDC1	17	41142424	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	176458	41142424	40052786	1350	40384											
UBTF	7343	broad.mit.edu	37	chr17	42284915	42284915	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcatcatcttcctcttcTtcatcctcgtcctcgtcatc	4	18	2	17	2	7	0	4	0	4	0	14	0	10	0	3	0	0	0	3	0	0	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:42284915T>A	uc002igb.2	-	19	2143	c.2076A>T	c.(2074-2076)GAA>GAT	p.E692D	UBTF_uc002igc.2_Missense_Mutation_p.E655D|UBTF_uc010czs.2_Missense_Mutation_p.E692D|UBTF_uc002igd.2_Missense_Mutation_p.E655D|UBTF_uc010czt.2_Missense_Mutation_p.E692D	NM_014233	NP_055048	P17480	UBF1_HUMAN	upstream binding transcription factor, RNA	692	Asp/Glu/Ser-rich (acidic).				positive regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm	DNA binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		cttcctcttcttcatcctcgt	0.433													13	22					0	0	1	0	0		A	42284915	A	A	42284915	3	1	55	1	0	0	0	0	1	0	0	0	16935	1606	56	5	226	5	UBTF	17	42284915	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1142491	42284915	38910295	1351	40385											
HEXIM1	10614	broad.mit.edu	37	chr17	43227260	43227260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggccgccgccaaatccgacGacaccagcgatgacgacttc	10	4	11	16	6	0	1	0	1	0	0	2	5	1	1	5	1	1	0	5	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:43227260G>A	uc002iig.2	+	1	2577	c.703G>A	c.(703-705)GAC>AAC	p.D235N		NM_006460	NP_006451	O94992	HEXI1_HUMAN	hexamethylene bis-acetamide inducible 1	235	Autoinhibitory acidic region; in absence of 7SK snRNA interacts with the basic region preventing interaction with P-TEFb and modulating subcellular localization.				negative regulation of cyclin-dependent protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	cyclin-dependent protein kinase inhibitor activity|protein binding|snRNA binding			ovary(1)	1						CAAATCCGACGACACCAGCGA	0.612													14	26					0	0	1	0	0		A	43227260	A	A	43227260	3	1	55	1	0	0	0	0	1	0	0	0	7092	1058	37	1	705	1	HEXIM1	17	43227260	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	942345	43227260	37967950	1352	40386											
B4GALNT2	124872	broad.mit.edu	37	chr17	47210502	47210502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctcgggagtgcgggcttcGgggctctctgcttggaactc	3	10	17	11	3	1	0	0	0	1	0	5	2	1	2	0	6	3	4	0	6	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:47210502G>A	uc002ion.2	+	1	174	c.115G>A	c.(115-117)GGG>AGG	p.G39R	B4GALNT2_uc010wlt.1_Intron|B4GALNT2_uc010wlu.1_Intron	NM_153446	NP_703147	Q8NHY0	B4GN2_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 2	39	Cytoplasmic (Potential).				lipid glycosylation|negative regulation of cell-cell adhesion|UDP-N-acetylgalactosamine metabolic process	integral to Golgi membrane	acetylgalactosaminyltransferase activity			large_intestine(1)|ovary(1)	2			all cancers(6;0.000316)			TGCGGGCTTCGGGGCTCTCTG	0.677													4	1					0	0	1	0	0		A	47210502	A	A	47210502	3	1	55	1	0	0	0	0	1	0	0	0	1268	1116	39	1	135	1	B4GALNT2	17	47210502	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3983242	47210502	33984708	1353	40387											
NGFR	4804	broad.mit.edu	37	chr17	47590364	47590364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtccactgccacatcccCggtgtgagcccaaccgggga	8	6	12	15	2	0	2	0	2	0	0	2	3	2	3	6	3	3	0	6	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:47590364C>T	uc002ioz.3	+	6	1402	c.1277C>T	c.(1276-1278)CCG>CTG	p.P426L		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	426	Cytoplasmic (Potential).				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					GCCACATCCCCGGTGTGAGCC	0.711													6	7					0	0	1	0	0		T	47590364	T	T	47590364	3	4	55	1	0	0	0	0	1	0	0	0	10415	652	23	1	1299	1	NGFR	17	47590364	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	379862	47590364	33604846	1354	40388											
RSAD1	55316	broad.mit.edu	37	chr17	48560736	48560736	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatgccccagggggctggaGgccacacccgggaggctcgg	6	5	17	13	2	0	0	0	0	0	0	1	2	0	2	4	7	1	2	4	7	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:48560736G>T	uc002iqw.1	+	6	996	c.940G>T	c.(940-942)GGC>TGC	p.G314C	RSAD1_uc010wmq.1_RNA	NM_018346	NP_060816	Q9HA92	RSAD1_HUMAN	radical S-adenosyl methionine domain containing	314					porphyrin biosynthetic process	mitochondrion	4 iron, 4 sulfur cluster binding|coproporphyrinogen oxidase activity|metal ion binding				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			GGGGGCTGGAGGCCACACCCG	0.552													10	20					4.36969e-10	4.7141e-10	1	1	0		T	48560736	T	T	48560736	3	4	55	1	0	0	0	0	1	0	0	0	13719	1000	35	5	962	5	RSAD1	17	48560736	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	970372	48560736	32634474	1355	40389											
SPATA20	64847	broad.mit.edu	37	chr17	48628888	48628888	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcttgatggtgtcaggCtatgctgtgactggggctgt	5	12	16	8	0	1	2	1	2	0	0	1	2	1	2	1	5	1	4	1	5	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:48628888C>T	uc002irf.2	+	12	1686	c.1545C>T	c.(1543-1545)GGC>GGT	p.G515G	SPATA20_uc002irc.2_Silent_p.G182G|SPATA20_uc002ire.2_Silent_p.G471G|SPATA20_uc002ird.2_Silent_p.G531G|SPATA20_uc002irg.2_RNA	NM_022827	NP_073738	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	515					cell differentiation|mannose metabolic process|multicellular organismal development|spermatogenesis	extracellular region	mannose-6-phosphate isomerase activity|protein binding				0	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			TGGTGTCAGGCTATGCTGTGA	0.567													20	65					0	0	1	0	0		T	48628888	T	T	48628888	2	4	55	1	0	0	0	0	0	0	0	1	15031	784	28	2		2	SPATA20	17	48628888	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	68152	48628888	32566322	1356	40390											
ABCC3	8714	broad.mit.edu	37	chr17	48735816	48735816	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacccctaccctgagaccagCgctggctttctctcccgcct	6	9	7	19	2	1	1	0	1	1	1	3	2	2	1	6	1	3	2	6	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:48735816C>T	uc002isl.2	+	6	713	c.633C>T	c.(631-633)AGC>AGT	p.S211S	ABCC3_uc002isk.3_Silent_p.S211S	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	211	Cytoplasmic (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	CTGAGACCAGCGCTGGCTTTC	0.582													42	107					0	0	1	0	0		T	48735816	T	T	48735816	2	4	55	1	0	0	0	0	0	0	0	1	54	767	27	1		1	ABCC3	17	48735816	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	106928	48735816	32459394	1357	40391											
LUC7L3	51747	broad.mit.edu	37	chr17	48827882	48827882	+	Frame_Shift_Del	DEL	A	-	-																															aaaagaggggatctgatgatAaaaaaagtagtgtgaagtcc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:48827882delA	uc002isr.2	+	10	1276	c.1159delA	c.(1159-1161)AAAfs	p.K387fs	LUC7L3_uc010wmw.1_Frame_Shift_Del_p.K311fs|LUC7L3_uc002isq.2_Frame_Shift_Del_p.K387fs|LUC7L3_uc002iss.2_Frame_Shift_Del_p.K387fs|uc002ist.1_5'Flank	NM_006107	NP_006098	O95232	LC7L3_HUMAN	LUC7-like 3	387	Arg/Ser-rich.				apoptosis|mRNA processing|response to stress|RNA splicing	focal adhesion|nuclear speck	DNA binding|mRNA binding|protein binding				0						ATCTGATGATAAAAAAAGTAG	0.358													26	53	---	---	---	---						.	-	48827882	-	-	48827882	7	5	55	1	0	1	0	1	0	0	0	0	9102	363	13	0	1197	0	LUC7L3	17	48827882	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	92066	48827882	32367328	1358	40392											
KIF2B	84643	broad.mit.edu	37	chr17	51901779	51901779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatacaaccaaggccagccGgaaaaggcagctggaagggg	15	2	15	9	1	0	1	0	0	0	1	0	3	0	3	3	6	4	2	3	6	6	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:51901779G>A	uc002iua.2	+	1	1541	c.1385G>A	c.(1384-1386)CGG>CAG	p.R462Q	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	462	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						AAGGCCAGCCGGAAAAGGCAG	0.483													9	24					0	0	1	0	0		A	51901779	A	A	51901779	3	1	55	1	0	0	0	0	1	0	0	0	8314	1116	39	1	1387	1	KIF2B	17	51901779	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3073897	51901779	29293431	1359	40393											
STXBP4	252983	broad.mit.edu	37	chr17	53158486	53158486	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacgtagcatcccagcaacGctggcgcttgaatctaagga	11	7	12	11	3	1	1	0	1	1	0	2	3	2	3	1	3	3	5	1	3	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:53158486G>A	uc002iuf.1	+	16	1638	c.1431G>A	c.(1429-1431)ACG>ACA	p.T477T	STXBP4_uc010dcd.1_Silent_p.T455T	NM_178509	NP_848604	Q6ZWJ1	STXB4_HUMAN	syntaxin binding protein 4	477						cytoplasm	calcium ion binding			ovary(1)	1						TCCCAGCAACGCTGGCGCTTG	0.383													12	22					0	0	1	0	0		A	53158486	A	A	53158486	2	1	55	1	0	0	0	0	0	0	0	1	15380	1074	38	1		1	STXBP4	17	53158486	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1256707	53158486	28036724	1360	40394											
DGKE	8526	broad.mit.edu	37	chr17	54939226	54939226	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacatcggatactggggCggtggctgcagactatggga	9	8	16	8	2	0	2	0	1	0	1	1	4	0	4	0	6	3	2	0	6	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:54939226C>T	uc002iur.2	+	10	1539	c.1359C>T	c.(1357-1359)GGC>GGT	p.G453G	DGKE_uc002ius.1_Silent_p.G453G	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	453	Helical; (Potential).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|phospholipid biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding|protein binding			breast(2)	2	Breast(9;3.59e-07)					GATACTGGGGCGGTGGCTGCA	0.433													6	183					0	0	1	0	0		T	54939226	T	T	54939226	2	4	55	1	0	0	0	0	0	0	0	1	4474	755	27	1		1	DGKE	17	54939226	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1780740	54939226	26255984	1361	40395											
OR4D2	124538	broad.mit.edu	37	chr17	56247177	56247177	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtgacctctgattcccAgctccacacacccatgtact	10	9	5	17	0	1	2	0	2	1	0	3	2	3	2	4	0	2	2	4	0	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:56247177A>G	uc010wnp.1	+	1	161	c.161A>G	c.(160-162)CAG>CGG	p.Q54R		NM_001004707	NP_001004707	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						TCTGATTCCCAGCTCCACACA	0.488													39	55					0	0	1	0	0		G	56247177	G	G	56247177	3	3	55	1	0	0	0	0	1	0	0	0	11075	188	7	3	163	3	OR4D2	17	56247177	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1307951	56247177	24948033	1362	40396											
BZRAP1	9256	broad.mit.edu	37	chr17	56386700	56386702	+	In_Frame_Del	DEL	CTC	-	-																															tccaggatctgctccaagatCtcctcatcgctgtcagtctc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:56386700_56386702delCTC	uc002ivx.3	-	22	4802_4804	c.3931_3933delGAG	c.(3931-3933)GAGdel	p.E1311del	BZRAP1_uc002ivw.2_5'Flank|BZRAP1_uc010dcs.2_In_Frame_Del_p.E1251del|BZRAP1_uc010wnt.1_In_Frame_Del_p.E1311del	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	1311						mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GCTCCAAGATCTCCTCATCGCTG	0.478													23	24	---	---	---	---						.	-	56386702	-	-	56386700	7	5	55	1	0	1	0	1	0	0	0	0	1580	912	32	0	1680	0	BZRAP1	17	56386700	In_Frame_Del	DEL	CTC	TCGA-BR-7851-01A-11D-2201-08	139523	56386700	24808510	1363	40397											
C17orf47	284083	broad.mit.edu	37	chr17	56620148	56620148	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagatcctcacagaaagggCtagagtctattttaaaaccg	14	10	8	9	1	3	3	2	0	1	3	4	3	4	3	2	1	1	1	2	1	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:56620148C>A	uc002iwq.1	-	1	1536	c.1400G>T	c.(1399-1401)AGC>ATC	p.S467I	SEPT4_uc010wnx.1_5'Flank|SEPT4_uc010wny.1_5'Flank	NM_001038704	NP_001033793	Q8NEP4	CQ047_HUMAN	hypothetical protein LOC284083	467										breast(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					ACAGAAAGGGCTAGAGTCTAT	0.473													50	60					8.72198e-27	9.73306e-27	1	1	0		A	56620148	A	A	56620148	3	1	55	1	0	0	0	0	1	0	0	0	1861	797	28	5	320	5	C17orf47	17	56620148	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	233448	56620148	24575062	1364	40398											
SKA2	348235	broad.mit.edu	37	chr17	57189647	57189647	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccatttcttcataaatcTggcatgtgaaatttgaattg	12	16	7	6	0	3	2	1	2	2	0	4	2	4	2	1	1	0	1	1	1	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:57189647T>C	uc002ixd.2	-	4	633	c.357A>G	c.(355-357)CCA>CCG	p.P119P	uc002ixb.2_Intron|SKA2_uc002ixc.2_RNA|SKA2_uc010dde.1_3'UTR|SKA2_uc002ixe.2_RNA	NM_182620	NP_872426	Q8WVK7	SKA2_HUMAN	spindle and KT associated 2 isoform 1	119					cell division|chromosome segregation|mitotic anaphase|mitotic prometaphase|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytosol|spindle microtubule	microtubule binding				0						TTCATAAATCTGGCATGTGAA	0.343													8	28					0	0	1	0	0		C	57189647	C	C	57189647	2	2	55	1	0	0	0	0	0	0	0	1	14378	1567	55	3		3	SKA2	17	57189647	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	569499	57189647	24005563	1365	40399											
PTRH2	51651	broad.mit.edu	37	chr17	57775153	57775153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatcatcttgtactcccCgctgtctcccaagatgcttg	9	12	7	13	1	3	2	1	0	2	2	5	2	4	2	3	0	2	3	3	0	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:57775153C>T	uc002ixt.2	-	2	312	c.187G>A	c.(187-189)GGG>AGG	p.G63R	PTRH2_uc002ixs.2_RNA	NM_016077	NP_057161	Q9Y3E5	PTH2_HUMAN	Bcl-2 inhibitor of transcription precursor	63					apoptosis|translation	mitochondrion	aminoacyl-tRNA hydrolase activity				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TTGTACTCCCCGCTGTCTCCC	0.498													22	45					0	0	1	0	0		T	57775153	T	T	57775153	3	4	55	1	0	0	0	0	1	0	0	0	12842	652	23	1	356	1	PTRH2	17	57775153	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	585506	57775153	23420057	1366	40400											
TBX2	6909	broad.mit.edu	37	chr17	59482855	59482855	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaggagcagggcctggcGccgctggtggtgcagacaga	8	4	19	10	2	0	2	0	0	0	2	0	3	0	3	2	6	2	4	2	6	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:59482855G>A	uc010wox.1	+	6	1625	c.1344G>A	c.(1342-1344)GCG>GCA	p.A448A	TBX2_uc002ize.2_3'UTR|TBX2_uc002izg.2_Silent_p.A294A	NM_005994	NP_005985	Q13207	TBX2_HUMAN	T-box 2	448					cell aging|positive regulation of cell proliferation		sequence-specific DNA binding				0						AGGGCCTGGCGCCGCTGGTGG	0.711													3	5					0	0	1	0	0		A	59482855	A	A	59482855	2	1	55	1	0	0	0	0	0	0	0	1	15680	1074	38	1		1	TBX2	17	59482855	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1707702	59482855	21712355	1367	40401											
MED13	9969	broad.mit.edu	37	chr17	60072703	60072703	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attcatcagaaacttttaaaGgtttcttacattgcaccatt	13	16	4	8	0	3	1	2	0	1	1	3	1	3	1	1	1	3	2	1	1	4	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:60072703G>T	uc002izo.2	-	10	2068	c.1991C>A	c.(1990-1992)CCT>CAT	p.P664H		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	664					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						AACTTTTAAAGGTTTCTTACA	0.279													4	27					1.23904e-05	1.29368e-05	1	1	0		T	60072703	T	T	60072703	3	4	55	1	0	0	0	0	1	0	0	0	9448	1000	35	5	4617	5	MED13	17	60072703	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	589848	60072703	21122507	1368	40402											
ACE	1636	broad.mit.edu	37	chr17	61560033	61560033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatcggcctgctggaccGtgtcaccaatgacacgggta	11	7	11	12	3	1	1	1	1	0	0	2	2	1	2	3	3	1	2	3	3	4	1	rs35865660	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:61560033G>A	uc002jau.1	+	8	1347	c.1325G>A	c.(1324-1326)CGT>CAT	p.R442H	ACE_uc010wpi.1_Missense_Mutation_p.R442H|ACE_uc010ddu.1_Missense_Mutation_p.R259H|ACE_uc002jav.1_5'Flank|ACE_uc010ddv.1_5'Flank|ACE_uc010wpj.1_5'Flank|ACE_uc002jaw.1_5'Flank|ACE_uc010wpk.1_5'Flank	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	442	Extracellular (Potential).|Peptidase M2 1.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	CTGCTGGACCGTGTCACCAAT	0.647													15	48					0	0	1	0	0		A	61560033	A	A	61560033	3	1	55	1	0	0	0	0	1	0	0	0	136	1145	40	1	1355	1	ACE	17	61560033	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1487330	61560033	19635177	1369	40403											
STRADA	92335	broad.mit.edu	37	chr17	61781804	61781804	+	Frame_Shift_Del	DEL	G	-	-																															cgagtcaccgttggagggccGgggggtgctggtggtcaggc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:61781804delG	uc002jbm.2	-	11	1156	c.997delC	c.(997-999)CGGfs	p.R333fs	STRADA_uc002jbn.2_Frame_Shift_Del_p.R275fs|STRADA_uc002jbo.2_Frame_Shift_Del_p.R296fs|STRADA_uc002jbp.2_Frame_Shift_Del_p.R296fs|STRADA_uc002jbq.2_Frame_Shift_Del_p.R275fs|STRADA_uc010wpq.1_Frame_Shift_Del_p.R289fs|STRADA_uc010wpr.1_Frame_Shift_Del_p.R304fs|STRADA_uc010ddw.2_Frame_Shift_Del_p.R304fs|STRADA_uc002jbr.2_3'UTR	NM_001003787	NP_001003787	Q7RTN6	STRAA_HUMAN	STE20-related kinase adaptor alpha isoform 1	333	Protein kinase.				activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|kinase binding|protein kinase activity			ovary(1)	1						TTGGAGGGCCGGGGGGTGCTG	0.647													28	38	---	---	---	---						.	-	61781804	-	-	61781804	7	5	55	1	0	1	0	1	0	0	0	0	15349	1115	39	0	368	0	STRADA	17	61781804	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	221771	61781804	19413406	1370	40404											
STRADA	92335	broad.mit.edu	37	chr17	61788193	61788193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtttggagacatgcagctCgccctggaagcaatgatgaa	12	8	13	8	1	0	3	0	2	0	1	1	6	0	4	1	2	3	4	1	2	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:61788193C>T	uc002jbm.2	-	7	511	c.352G>A	c.(352-354)GAG>AAG	p.E118K	STRADA_uc002jbn.2_Missense_Mutation_p.E60K|STRADA_uc002jbo.2_Missense_Mutation_p.E81K|STRADA_uc002jbp.2_Missense_Mutation_p.E81K|STRADA_uc002jbq.2_Missense_Mutation_p.E60K|STRADA_uc010wpq.1_Missense_Mutation_p.E74K|STRADA_uc010wpr.1_Missense_Mutation_p.E89K|STRADA_uc010ddw.2_Missense_Mutation_p.E89K|STRADA_uc002jbr.2_Missense_Mutation_p.E60K	NM_001003787	NP_001003787	Q7RTN6	STRAA_HUMAN	STE20-related kinase adaptor alpha isoform 1	118	Protein kinase.				activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|kinase binding|protein kinase activity			ovary(1)	1						ACATGCAGCTCGCCCTGGAAG	0.498													10	22					0	0	1	0	0		T	61788193	T	T	61788193	3	4	55	1	0	0	0	0	1	0	0	0	15349	893	31	1	1029	1	STRADA	17	61788193	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6389	61788193	19407017	1371	40405											
FTSJ3	117246	broad.mit.edu	37	chr17	61897668	61897668	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttgatgggacgtgcatTgatttcccgccagcgtttcc	5	14	10	12	3	1	2	0	2	1	0	3	3	3	3	3	1	2	2	3	1	0	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:61897668T>C	uc002jbz.2	-	18	2281	c.2203A>G	c.(2203-2205)AAT>GAT	p.N735D	FTSJ3_uc002jca.2_Missense_Mutation_p.N735D	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	735					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						GGACGTGCATTGATTTCCCGC	0.557													39	119					0	0	1	0	0		C	61897668	C	C	61897668	3	2	55	1	0	0	0	0	1	0	0	0	6103	1812	63	3	352	3	FTSJ3	17	61897668	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	109475	61897668	19297542	1372	40406											
SCN4A	6329	broad.mit.edu	37	chr17	62019051	62019051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccggccgacgtggtgatctCgaacaggcagatgatgctgt	8	8	15	10	4	1	3	0	2	1	1	2	5	1	3	2	3	2	2	2	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:62019051C>T	uc002jds.1	-	24	4668	c.4591G>A	c.(4591-4593)GAG>AAG	p.E1531K		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1531	IV.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GTGGTGATCTCGAACAGGCAG	0.587													13	39					0	0	1	0	0		T	62019051	T	T	62019051	3	4	55	1	0	0	0	0	1	0	0	0	13945	893	31	1	923	1	SCN4A	17	62019051	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	121383	62019051	19176159	1373	40407											
SCN4A	6329	broad.mit.edu	37	chr17	62024461	62024461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgcagggcccgcagtgtccGcagggatttgatgggtccca	7	7	15	12	3	0	1	0	1	0	0	2	2	2	2	3	3	0	3	3	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:62024461G>A	uc002jds.1	-	18	3462	c.3385C>T	c.(3385-3387)CGG>TGG	p.R1129W		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1129	III.|Helical; Voltage-sensor; Name=S4 of repeat III; (Potential).		R -> Q (in NKPP and HOKPP2; detected in a family where three affected members manifested hypokalemic periodic paralysis whereas five other patients had normokalemic periodic paralysis).		muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	CGCAGTGTCCGCAGGGATTTG	0.667											OREG0024655	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	28					0	0	1	0	0		A	62024461	A	A	62024461	3	1	55	1	0	0	0	0	1	0	0	0	13945	1086	38	1	2153	1	SCN4A	17	62024461	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5410	62024461	19170749	1374	40408											
DDX5	1655	broad.mit.edu	37	chr17	62496890	62496890	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaatttcacatcttccacAtctgtaaggtgttgcagtgt	11	14	7	9	0	3	0	1	0	2	0	4	0	4	0	1	1	1	3	1	1	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:62496890A>G	uc002jek.2	-	12	1465	c.1218T>C	c.(1216-1218)GAT>GAC	p.D406D	DDX5_uc010deh.2_Silent_p.D406D|DDX5_uc002jej.2_Silent_p.D301D|DDX5_uc010wqa.1_Silent_p.D327D	NM_004396	NP_004387	P17844	DDX5_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 5	406	Helicase C-terminal.				cell growth|regulation of alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA helicase activity|transcription cofactor activity			ovary(2)|lung(1)	3	Breast(5;2.15e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			CATCTTCCACATCTGTAAGGT	0.398			T	ETV4	prostate								3	55					0	0	1	0	0		G	62496890	G	G	62496890	2	3	55	1	0	0	0	0	0	0	0	1	4370	231	8	3		3	DDX5	17	62496890	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	472429	62496890	18698320	1375	40409											
KPNA2	3838	broad.mit.edu	37	chr17	66038442	66038442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgctcacatcagtgaacaaGctgtctgggctctaggaaac	12	9	10	10	0	4	1	2	1	2	0	4	2	4	2	0	2	4	3	0	2	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:66038442G>A	uc002jgk.2	+	5	676	c.544G>A	c.(544-546)GCT>ACT	p.A182T	KPNA2_uc002jgl.2_Missense_Mutation_p.A182T	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	182	NLS binding site (major) (By similarity).|ARM 3.				DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			CAGTGAACAAGCTGTCTGGGC	0.443													12	378					0	0	1	0	0		A	66038442	A	A	66038442	3	1	55	1	0	0	0	0	1	0	0	0	8446	971	34	2	558	2	KPNA2	17	66038442	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3541552	66038442	15156768	1376	40410											
ABCA6	23460	broad.mit.edu	37	chr17	67075398	67075398	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtattcttccaggttaaagtTatgcttcactggaggaaaaa	13	13	9	6	0	2	0	1	0	1	0	3	2	3	2	1	3	1	4	1	3	6	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:67075398T>C	uc002jhw.1	-	38	4880	c.4705A>G	c.(4705-4707)AAC>GAC	p.N1569D		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	1569					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					AGGTTAAAGTTATGCTTCACT	0.313													13	31					0	0	1	0	0		C	67075398	C	C	67075398	3	2	55	1	0	0	0	0	1	0	0	0	36	1754	61	3	156	3	ABCA6	17	67075398	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1036956	67075398	14119812	1377	40411											
KCNJ16	3773	broad.mit.edu	37	chr17	68129031	68129031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctctgtatgcccttgaccGcaaagcagtagccaaagata	12	8	8	13	1	1	2	0	1	1	1	1	2	1	2	4	0	3	4	4	0	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:68129031G>A	uc002jin.2	+	5	1289	c.803G>A	c.(802-804)CGC>CAC	p.R268H	KCNJ16_uc002jio.2_Missense_Mutation_p.R268H|KCNJ16_uc002jip.2_Missense_Mutation_p.R268H|KCNJ16_uc002jiq.2_Missense_Mutation_p.R300H	NM_018658	NP_061128	Q9NPI9	IRK16_HUMAN	potassium inwardly-rectifying channel J16	268	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Breast(10;2.96e-09)					GCCCTTGACCGCAAAGCAGTA	0.428													32	100					0	0	1	0	0		A	68129031	A	A	68129031	3	1	55	1	0	0	0	0	1	0	0	0	8066	1087	38	1	805	1	KCNJ16	17	68129031	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1053633	68129031	13066179	1378	40412											
KIAA0195	9772	broad.mit.edu	37	chr17	73484941	73484941	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagggccacagagcccccaGcagcaccggcttttccgtgt	8	6	12	15	2	0	2	0	0	0	2	1	2	1	2	5	2	3	3	5	2	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:73484941G>A	uc002jnz.3	+	7	989	c.714G>A	c.(712-714)CAG>CAA	p.Q238Q	KIAA0195_uc010wsa.1_Silent_p.Q248Q|KIAA0195_uc010wsb.1_5'Flank	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	238					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			AGAGCCCCCAGCAGCACCGGC	0.632													8	108					0	0	1	0	0		A	73484941	A	A	73484941	2	1	55	1	0	0	0	0	0	0	0	1	8176	962	34	2		2	KIAA0195	17	73484941	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5355910	73484941	7710269	1379	40413											
ITGB4	3691	broad.mit.edu	37	chr17	73733713	73733713	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctatgctggaagtactgTgcctgctgcaaggtgagcac	8	10	13	10	0	0	1	0	1	0	0	0	2	0	2	1	2	7	6	1	2	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:73733713T>C	uc002jpg.2	+	18	2395	c.2208T>C	c.(2206-2208)TGT>TGC	p.C736C	ITGB4_uc002jph.2_Silent_p.C736C|ITGB4_uc010dgo.2_Silent_p.C736C|ITGB4_uc002jpi.3_Silent_p.C736C|ITGB4_uc010dgp.1_Silent_p.C736C|ITGB4_uc002jpj.2_Silent_p.C736C	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	736	Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGAAGTACTGTGCCTGCTGCA	0.453													3	25					0	0	1	0	0		C	73733713	C	C	73733713	2	2	55	1	0	0	0	0	0	0	0	1	7913	1702	59	3		3	ITGB4	17	73733713	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	248772	73733713	7461497	1380	40414											
TRIM47	91107	broad.mit.edu	37	chr17	73870678	73870679	+	Frame_Shift_Del	DEL	AA	-	-																															ctgtgggtgaagagccccgcAaagtgactgtccaggcggct																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:73870678_73870679delAA	uc002jpw.2	-	6	1829_1830	c.1802_1803delTT	c.(1801-1803)TTTfs	p.F601fs	TRIM47_uc002jpv.2_Frame_Shift_Del_p.F363fs	NM_033452	NP_258411	Q96LD4	TRI47_HUMAN	tripartite motif-containing 47	601	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|prostate(1)|lung(1)|breast(1)	5			Epithelial(20;4.23e-06)|all cancers(21;5.24e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			AGAGCCCCGCAAAGTGACTGTC	0.649													34	42	---	---	---	---						.	-	73870679	-	-	73870678	7	5	55	1	0	1	0	1	0	0	0	0	16548	127	5	0	117	0	TRIM47	17	73870678	Frame_Shift_Del	DEL	AA	TCGA-BR-7851-01A-11D-2201-08	136965	73870678	7324532	1381	40415											
EVPL	2125	broad.mit.edu	37	chr17	74003238	74003238	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcggtagcagcggtacccCtccagtgccgctggcaggag	7	5	16	13	3	0	0	0	0	0	0	1	2	1	1	4	4	5	5	4	4	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:74003238C>A	uc002jqi.2	-	22	6276	c.6048G>T	c.(6046-6048)GAG>GAT	p.E2016D	EVPL_uc010wss.1_Missense_Mutation_p.E2038D|EVPL_uc010wst.1_Missense_Mutation_p.E1486D	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	2016	Globular 2.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						AGCGGTACCCCTCCAGTGCCG	0.687													12	31					5.50884e-06	5.77242e-06	1	1	0		A	74003238	A	A	74003238	3	1	55	1	0	0	0	0	1	0	0	0	5300	680	24	5	57	5	EVPL	17	74003238	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	132560	74003238	7191972	1382	40416											
GALR2	8811	broad.mit.edu	37	chr17	74073381	74073381	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccagcgacctgttgcacAtgagcgaggcggcgggggcc	7	5	17	12	4	0	1	0	1	0	0	1	3	1	1	3	4	3	2	3	4	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:74073381A>G	uc002jqm.1	+	2	1114	c.1033A>G	c.(1033-1035)ATG>GTG	p.M345V	ZACN_uc002jqn.2_5'Flank|ZACN_uc002jqo.2_5'Flank|ZACN_uc010dgu.2_5'Flank	NM_003857	NP_003848	O43603	GALR2_HUMAN	galanin receptor 2	345	Cytoplasmic (Potential).				digestion|elevation of cytosolic calcium ion concentration|feeding behavior|learning or memory|muscle contraction	integral to membrane|plasma membrane	galanin receptor activity				0						CCTGTTGCACATGAGCGAGGC	0.741													5	8					0	0	1	0	0		G	74073381	G	G	74073381	3	3	55	1	0	0	0	0	1	0	0	0	6243	217	8	3	1039	3	GALR2	17	74073381	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	70143	74073381	7121829	1383	40417											
LGALS3BP	3959	broad.mit.edu	37	chr17	76968444	76968444	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccagctccaggtgtccacGgccttcagtagggccagctc	6	7	11	17	1	1	0	1	0	0	0	4	0	3	0	6	3	2	3	6	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:76968444G>T	uc002jwh.2	-	6	1151	c.972C>A	c.(970-972)GCC>GCA	p.A324A	LGALS3BP_uc002jwi.2_Silent_p.A130A|LGALS3BP_uc010dhr.2_Silent_p.A130A	NM_005567	NP_005558	Q08380	LG3BP_HUMAN	galectin 3 binding protein	324	BACK.				cell adhesion|cellular defense response	extracellular space|membrane|proteinaceous extracellular matrix	protein binding|scavenger receptor activity			central_nervous_system(3)|ovary(1)	4			BRCA - Breast invasive adenocarcinoma(99;0.0677)|OV - Ovarian serous cystadenocarcinoma(97;0.139)			AGGTGTCCACGGCCTTCAGTA	0.672													17	26					1.99824e-07	2.12692e-07	1	1	0		T	76968444	T	T	76968444	2	4	55	1	0	0	0	0	0	0	0	1	8760	1103	39	5		5	LGALS3BP	17	76968444	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2895063	76968444	4226766	1384	40418											
CARD14	79092	broad.mit.edu	37	chr17	78176119	78176119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgaggtcctgcacgtcaccGacaccatgttccagggctgc	8	7	11	15	3	1	0	1	0	0	0	3	2	3	0	4	2	2	3	4	2	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:78176119G>A	uc002jxw.1	+	15	2314	c.2119G>A	c.(2119-2121)GAC>AAC	p.D707N	CARD14_uc002jxt.1_RNA|CARD14_uc002jxv.2_Missense_Mutation_p.D707N|CARD14_uc010wud.1_RNA	NM_024110	NP_077015	Q9BXL6	CAR14_HUMAN	caspase recruitment domain protein 14 isoform 1	707					activation of NF-kappaB-inducing kinase activity|positive regulation of protein phosphorylation|regulation of apoptosis	aggresome|cytoplasm|plasma membrane	CARD domain binding			ovary(4)|skin(1)	5	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			GCACGTCACCGACACCATGTT	0.622													17	47					0	0	1	0	0		A	78176119	A	A	78176119	3	1	55	1	0	0	0	0	1	0	0	0	2649	1058	37	1	2338	1	CARD14	17	78176119	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1207675	78176119	3019091	1385	40419											
AATK	9625	broad.mit.edu	37	chr17	79108237	79108237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgatgacggcgaagagcccGgagaaagacacagccaccac	15	1	12	13	4	0	4	0	1	0	3	0	7	0	4	3	2	2	0	3	2	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:79108237G>A	uc010dia.2	-	2	200	c.120C>T	c.(118-120)TCC>TCT	p.S40S	MIR1250_hsa-mir-1250|MI0006385_5'Flank	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	40	Helical; (Potential).					integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CGAAGAGCCCGGAGAAAGACA	0.667													7	30					0	0	1	0	0		A	79108237	A	A	79108237	2	1	55	1	0	0	0	0	0	0	0	1	26	1103	39	1		1	AATK	17	79108237	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	932118	79108237	2086973	1386	40420											
SLC38A10	124565	broad.mit.edu	37	chr17	79234093	79234093	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcctctccaagccggccGccaggggcttcctctgccaa	5	7	11	18	3	2	0	0	0	2	0	5	0	3	0	7	4	2	1	7	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:79234093G>A	uc002jzz.1	-	11	1608	c.1233C>T	c.(1231-1233)GGC>GGT	p.G411G	SLC38A10_uc002jzy.1_Silent_p.G329G|SLC38A10_uc002kab.2_Silent_p.G411G	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	411					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CAAGCCGGCCGCCAGGGGCTT	0.657													3	7					0	0	1	0	0		A	79234093	A	A	79234093	2	1	55	1	0	0	0	0	0	0	0	1	14627	1074	38	1		1	SLC38A10	17	79234093	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	125856	79234093	1961117	1387	40421											
C17orf70	80233	broad.mit.edu	37	chr17	79514275	79514275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgagggggcaagggccccGcccaccacctccctgagact	7	5	12	17	1	1	2	0	2	1	1	2	3	2	2	6	3	0	1	6	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr17:79514275G>A	uc002kaq.2	-	5	1888	c.1833C>T	c.(1831-1833)GGC>GGT	p.G611G	C17orf70_uc002kao.1_Silent_p.G260G|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Silent_p.G460G	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	611					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			CAAGGGCCCCGCCCACCACCT	0.677													21	39					0	0	1	0	0		A	79514275	A	A	79514275	2	1	55	1	0	0	0	0	0	0	0	1	1880	1074	38	1		1	C17orf70	17	79514275	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	280182	79514275	1680935	1388	40422											
SMCHD1	23347	broad.mit.edu	37	chr18	2775770	2775770	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgaagatgatagagctgcGatggttatttcttggcatct	10	15	11	5	1	2	4	0	2	2	2	2	5	2	4	0	2	2	3	0	2	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:2775770G>A	uc002klm.3	+	42	5403	c.5214G>A	c.(5212-5214)GCG>GCA	p.A1738A	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	1738					chromosome organization		ATP binding				0						ATAGAGCTGCGATGGTTATTT	0.373													26	41					0	0	1	0	0		A	2775770	A	A	2775770	2	1	55	1	0	0	0	0	0	0	0	1	14813	1045	37	1		1	SMCHD1	18	2775770	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08		2775770	75301478	1389	40423											
ANKRD12	23253	broad.mit.edu	37	chr18	9255247	9255247	+	Frame_Shift_Del	DEL	A	-	-																															attgaagcataaagagagggAaaaagaaaagcataaaaaag																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:9255247delA	uc002knv.2	+	9	2239	c.1982delA	c.(1981-1983)GAAfs	p.E661fs	ANKRD12_uc002knw.2_Frame_Shift_Del_p.E638fs|ANKRD12_uc002knx.2_Frame_Shift_Del_p.E638fs|ANKRD12_uc010dkx.1_Frame_Shift_Del_p.E368fs	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	661						nucleus				ovary(2)|central_nervous_system(1)	3						aaagagagggaaaaagaaaag	0.035													9	20	---	---	---	---						.	-	9255247	-	-	9255247	7	5	55	1	0	1	0	1	0	0	0	0	640	246	9	0	2012	0	ANKRD12	18	9255247	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	6479477	9255247	68822001	1390	40424											
GNAL	2774	broad.mit.edu	37	chr18	11876645	11876645	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatgcaggagaagatccCaaagttacaagagccaagtt	16	6	10	9	0	0	4	0	0	0	4	1	5	1	4	3	1	3	3	3	1	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:11876645C>A	uc010dkz.2	+	12	1203	c.957C>A	c.(955-957)CCC>CCA	p.P319P	GNAL_uc002kqc.2_Silent_p.P396P|GNAL_uc002kqd.2_Silent_p.P319P|GNAL_uc010wzt.1_Silent_p.P112P	NM_001142339	NP_001135811	P38405	GNAL_HUMAN	guanine nucleotide binding protein (G protein),	319					activation of adenylate cyclase activity by dopamine receptor signaling pathway|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception of smell|synaptic transmission	heterotrimeric G-protein complex	adenylate cyclase activity|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						GAGAAGATCCCAAAGTTACAA	0.358													20	40					3.83957e-06	4.03777e-06	1	1	0		A	11876645	A	A	11876645	2	1	55	1	0	0	0	0	0	0	0	1	6522	581	21	5		5	GNAL	18	11876645	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2621398	11876645	66200603	1391	40425											
SPIRE1	56907	broad.mit.edu	37	chr18	12506563	12506563	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatattcaatgggcaaaggGttgtactgccgctcttggac	9	12	12	8	1	2	1	1	1	1	0	2	2	2	2	1	3	2	4	1	3	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:12506563G>A	uc002kre.2	-	6	932	c.885C>T	c.(883-885)AAC>AAT	p.N295N	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Silent_p.N175N|SPIRE1_uc010wzx.1_Silent_p.N98N|SPIRE1_uc010wzy.1_Silent_p.N295N	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	295						cytoskeleton|perinuclear region of cytoplasm	actin binding				0						TGGGCAAAGGGTTGTACTGCC	0.448													37	92					0	0	1	0	0		A	12506563	A	A	12506563	2	1	55	1	0	0	0	0	0	0	0	1	15096	1252	44	4		4	SPIRE1	18	12506563	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	629918	12506563	65570685	1392	40426											
NPC1	4864	broad.mit.edu	37	chr18	21115622	21115622	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaggttgaagatagtgtcGtcaatgatggtcaggtactg	10	11	14	6	2	2	3	2	2	0	1	3	4	2	3	1	3	1	2	1	3	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:21115622G>A	uc002kum.3	-	22	3562	c.3288C>T	c.(3286-3288)GAC>GAT	p.D1096D	NPC1_uc010dlu.1_5'Flank|NPC1_uc010xaz.1_Silent_p.D829D	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	1096					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					AGATAGTGTCGTCAATGATGG	0.537													11	54					0	0	1	0	0		A	21115622	A	A	21115622	2	1	55	1	0	0	0	0	0	0	0	1	10589	1136	40	1		1	NPC1	18	21115622	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	8609059	21115622	56961626	1393	40427											
DSC2	1824	broad.mit.edu	37	chr18	28666590	28666590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcacgcctgtagttggatgCatagaaaatagggtgggtga	12	10	14	5	1	1	2	1	1	0	1	1	3	1	3	1	3	1	3	1	3	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:28666590C>T	uc002kwl.3	-	7	1345	c.891G>A	c.(889-891)ATG>ATA	p.M297I	DSC2_uc002kwk.3_Missense_Mutation_p.M297I	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	297	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			TAGTTGGATGCATAGAAAATA	0.453													44	127					0	0	1	0	0		T	28666590	T	T	28666590	3	4	55	1	0	0	0	0	1	0	0	0	4772	710	25	2	1894	2	DSC2	18	28666590	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	7550968	28666590	49410658	1394	40428											
KIAA1012	22878	broad.mit.edu	37	chr18	29488794	29488794	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaactcttgtataaactgtcGaattctatcatgatcagtaa	14	14	6	7	1	4	1	2	1	2	0	5	3	4	1	0	0	2	2	0	0	7	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:29488794G>A	uc002kxc.3	-	7	1409	c.1045C>T	c.(1045-1047)CGA>TGA	p.R349*	KIAA1012_uc002kxb.3_Nonsense_Mutation_p.R295*|KIAA1012_uc002kxd.3_RNA|KIAA1012_uc002kxe.2_Nonsense_Mutation_p.R349*	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	349					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						ATAAACTGTCGAATTCTATCA	0.338													25	29					0	0	1	0	0		A	29488794	A	A	29488794	4	1	55	1	0	0	0	0	0	1	0	0	8220	1066	37	1	3354	1	KIAA1012	18	29488794	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	822204	29488794	48588454	1395	40429											
ASXL3	80816	broad.mit.edu	37	chr18	31319536	31319536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccgatgtctgacttacCtttaacatcagaaacttctt	11	14	4	12	1	4	2	2	1	2	1	4	3	4	2	2	0	3	0	2	0	3	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:31319536C>T	uc010dmg.1	+	11	2223	c.2168C>T	c.(2167-2169)CCT>CTT	p.P723L	ASXL3_uc002kxq.2_Missense_Mutation_p.P430L	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	723	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TCTGACTTACCTTTAACATCA	0.408													5	255					0	0	1	0	0		T	31319536	T	T	31319536	3	4	55	1	0	0	0	0	1	0	0	0	1069	681	24	4	2210	4	ASXL3	18	31319536	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1830742	31319536	46757712	1396	40430											
NOL4	8715	broad.mit.edu	37	chr18	31803175	31803175	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccccgtaagtcctgaggcAccagtcctggaactggcggt	7	8	13	13	2	0	1	0	1	0	0	3	2	3	2	5	4	1	2	5	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:31803175A>G	uc010dmi.2	-	1	272	c.43T>C	c.(43-45)TGC>CGC	p.C15R	NOL4_uc002kxr.3_5'Flank|NOL4_uc010xbt.1_5'Flank|NOL4_uc010dmh.2_5'Flank|NOL4_uc010xbu.1_Missense_Mutation_p.C15R|NOL4_uc002kxt.3_Missense_Mutation_p.C15R	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	15						nucleolus	RNA binding			ovary(3)	3						GTCCTGAGGCACCAGTCCTGG	0.622													14	48					0	0	1	0	0		G	31803175	G	G	31803175	3	3	55	1	0	0	0	0	1	0	0	0	10543	159	6	3	1917	3	NOL4	18	31803175	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	483639	31803175	46274073	1397	40431											
SLC14A2	8170	broad.mit.edu	37	chr18	43224100	43224100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactacctgacagtgaaaagCggtgaagaagagaaggcccc	15	5	12	9	1	0	5	0	3	0	2	0	6	0	5	3	2	3	0	3	2	7	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:43224100C>T	uc010dnj.2	+	11	1647	c.1326C>T	c.(1324-1326)AGC>AGT	p.S442S	SLC14A2_uc002lbb.2_Silent_p.S442S|SLC14A2_uc002lbe.2_Silent_p.S442S	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	442						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						CAGTGAAAAGCGGTGAAGAAG	0.547													37	78					0	0	1	0	0		T	43224100	T	T	43224100	2	4	55	1	0	0	0	0	0	0	0	1	14422	767	27	1		1	SLC14A2	18	43224100	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	11420925	43224100	34853148	1398	40432											
SIGLEC15	284266	broad.mit.edu	37	chr18	43418949	43418949	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagcgtctacctgttccgcTtccatggcgccagcggggcc	4	8	12	17	4	1	0	0	0	1	0	3	0	3	0	6	3	3	2	6	3	1	3	rs112015239		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:43418949T>C	uc002lbl.1	+	4	912	c.763T>C	c.(763-765)TTC>CTC	p.F255L	SIGLEC15_uc010xcp.1_RNA	NM_213602	NP_998767	Q6ZMC9	SIG15_HUMAN	sialic acid binding Ig-like lectin 15 precursor	255	Extracellular (Potential).					integral to membrane					0						CCTGTTCCGCTTCCATGGCGC	0.726													3	9					0	0	1	0	0		C	43418949	C	C	43418949	3	2	55	1	0	0	0	0	1	0	0	0	14335	1609	56	3	777	3	SIGLEC15	18	43418949	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	194849	43418949	34658299	1399	40433											
KIAA1632	57724	broad.mit.edu	37	chr18	43469907	43469907	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttatgcatgccttcaaacTaacaaaaattaaagttatca	17	13	3	8	0	3	0	2	0	1	0	3	0	3	0	1	0	4	2	1	0	8	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:43469907T>C	uc002lbm.2	-	28	4910	c.4810_splice	c.e28-1	p.F1604_splice	KIAA1632_uc010xcq.1_Splice_Site_p.F158_splice|KIAA1632_uc010xcr.1_Splice_Site|KIAA1632_uc010xcs.1_Splice_Site|KIAA1632_uc002lbn.2_Splice_Site_p.F479_splice	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724						autophagy						0						GCCTTCAAACTAACAAAAATT	0.363													3	21					0	0	1	0	0		C	43469907	C	C	43469907	5	2	55	1	0	0	0	0	0	0	1	0	8265	1536	53	3	2999	3	KIAA1632	18	43469907	Splice_Site	SNP	T	TCGA-BR-7851-01A-11D-2201-08	50958	43469907	34607341	1400	40434											
TCEB3B	51224	broad.mit.edu	37	chr18	44560047	44560047	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacctgggcacactgctggCgcagcgtcggcacctggagc	6	5	15	15	3	0	0	0	0	0	0	1	1	0	1	2	4	3	5	2	4	0	0	rs151198704		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:44560047C>T	uc002lcr.1	-	1	1942	c.1589G>A	c.(1588-1590)CGC>CAC	p.R530H	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	530	Activation domain (By similarity).|Interacting with Elongin BC complex (By similarity).				regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						ACACTGCTGGCGCAGCGTCGG	0.622													33	63					0	0	1	0	0		T	44560047	T	T	44560047	3	4	55	1	0	0	0	0	1	0	0	0	15707	768	27	1	676	1	TCEB3B	18	44560047	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1090140	44560047	33517201	1401	40435											
KATNAL2	83473	broad.mit.edu	37	chr18	44625662	44625662	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggagaagaggattctggtCgatctccccagccgggaggc	8	7	15	11	2	2	2	0	0	2	2	4	6	2	4	3	5	1	0	3	5	1	1	rs138624868	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:44625662C>T	uc002lco.2	+	13	1238	c.1044C>T	c.(1042-1044)GTC>GTT	p.V348V	KATNAL2_uc002lcp.3_Silent_p.V275V	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2	420						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						GGATTCTGGTCGATCTCCCCA	0.587													16	38					0	0	1	0	0		T	44625662	T	T	44625662	2	4	55	1	0	0	0	0	0	0	0	1	8002	871	31	1		1	KATNAL2	18	44625662	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	65615	44625662	33451586	1402	40436											
HDHD2	84064	broad.mit.edu	37	chr18	44641701	44641701	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggattgctatcagaggTgctccatccaggagtaacct	9	12	11	9	0	1	1	1	0	0	1	3	3	3	3	3	3	3	3	3	3	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:44641701T>C	uc002lcs.2	-	5	547	c.414A>G	c.(412-414)GCA>GCG	p.A138A	HDHD2_uc002lct.2_Silent_p.A48A	NM_032124	NP_115500	Q9H0R4	HDHD2_HUMAN	haloacid dehalogenase-like hydrolase domain	138							hydrolase activity				0						CTATCAGAGGTGCTCCATCCA	0.433													7	31					0	0	1	0	0		C	44641701	C	C	44641701	2	2	55	1	0	0	0	0	0	0	0	1	7039	1683	59	3		3	HDHD2	18	44641701	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	16039	44641701	33435547	1403	40437											
SMAD2	4087	broad.mit.edu	37	chr18	45372100	45372100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attacaattggggctctgcaCaaagattgcactatcactta	13	12	7	9	0	2	1	1	0	1	1	2	1	2	1	0	2	3	3	0	2	5	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:45372100C>T	uc002lcy.2	-	9	1317	c.1069G>A	c.(1069-1071)GTG>ATG	p.V357M	SMAD2_uc002lcz.2_Missense_Mutation_p.V357M|SMAD2_uc010xdc.1_Missense_Mutation_p.V327M|SMAD2_uc010xdd.1_Missense_Mutation_p.V327M	NM_005901	NP_005892	Q15796	SMAD2_HUMAN	Sma- and Mad-related protein 2 isoform 1	357	MH2.		Missing (in a colorectal carcinoma sample).		anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			large_intestine(3)|lung(1)|central_nervous_system(1)	5						GGGCTCTGCACAAAGATTGCA	0.403													18	62					0	0	1	0	0		T	45372100	T	T	45372100	3	4	55	1	0	0	0	0	1	0	0	0	14783	478	17	4	346	4	SMAD2	18	45372100	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	730399	45372100	32705148	1404	40438											
ZBTB7C	201501	broad.mit.edu	37	chr18	45566686	45566686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagctgggcaaaggcacCgaagtcccctggccagaggt	10	4	15	12	1	0	1	0	0	0	1	1	2	1	1	4	5	1	4	4	5	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:45566686C>T	uc002lda.2	-	1	809	c.793G>A	c.(793-795)GGT>AGT	p.G265S	ZBTB7C_uc002ldb.2_Missense_Mutation_p.G265S|ZBTB7C_uc010dnu.2_Missense_Mutation_p.G274S|ZBTB7C_uc010dnv.2_Missense_Mutation_p.G287S|ZBTB7C_uc010dnw.2_Missense_Mutation_p.G265S|ZBTB7C_uc010dnx.1_Missense_Mutation_p.G265S|ZBTB7C_uc010dny.1_Missense_Mutation_p.G265S|ZBTB7C_uc010dnz.1_Missense_Mutation_p.G287S|ZBTB7C_uc010dob.1_Missense_Mutation_p.G265S|ZBTB7C_uc010doc.1_Missense_Mutation_p.G274S|ZBTB7C_uc010dod.1_Missense_Mutation_p.G287S|ZBTB7C_uc010doe.1_Missense_Mutation_p.G265S|ZBTB7C_uc010dof.1_Missense_Mutation_p.G265S|ZBTB7C_uc010dog.1_Missense_Mutation_p.G265S|ZBTB7C_uc010doh.1_Missense_Mutation_p.G274S|ZBTB7C_uc010doi.1_Missense_Mutation_p.G265S|ZBTB7C_uc010doj.1_Missense_Mutation_p.G274S|ZBTB7C_uc010dok.1_Missense_Mutation_p.G314S|ZBTB7C_uc010dol.1_Missense_Mutation_p.G274S|ZBTB7C_uc010doa.1_Missense_Mutation_p.G287S|ZBTB7C_uc010don.1_Missense_Mutation_p.G273S|ZBTB7C_uc010doo.1_Missense_Mutation_p.G265S|ZBTB7C_uc010dop.1_Missense_Mutation_p.G265S|ZBTB7C_uc010doq.1_Missense_Mutation_p.G274S|ZBTB7C_uc010dor.1_Missense_Mutation_p.G287S|ZBTB7C_uc010dos.1_Missense_Mutation_p.G265S|ZBTB7C_uc010dot.1_Missense_Mutation_p.G265S|ZBTB7C_uc010dou.1_Missense_Mutation_p.G274S|ZBTB7C_uc010dom.1_Missense_Mutation_p.G274S	NM_001039360	NP_001034449	A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	265						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GCAAAGGCACCGAAGTCCCCT	0.597													12	20					0	0	1	0	0		T	45566686	T	T	45566686	3	4	55	1	0	0	0	0	1	0	0	0	17580	652	23	1	1074	1	ZBTB7C	18	45566686	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	194586	45566686	32510562	1405	40439											
DCC	1630	broad.mit.edu	37	chr18	50985626	50985626	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggccacccacagtgctggCaaaaggaagggcagccagaa	13	2	14	12	1	0	1	0	0	0	1	0	2	0	2	3	4	2	3	3	4	4	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:50985626C>T	uc002lfe.1	+	24	4004	c.3417C>T	c.(3415-3417)GGC>GGT	p.G1139G	DCC_uc010dpf.1_Silent_p.G774G	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1139	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		ACAGTGCTGGCAAAAGGAAGG	0.458													13	26					0	0	1	0	0		T	50985626	T	T	50985626	2	4	55	1	0	0	0	0	0	0	0	1	4285	697	25	2		2	DCC	18	50985626	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5418940	50985626	27091622	1406	40440											
CDH19	28513	broad.mit.edu	37	chr18	64218423	64218423	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggctgaccaatcatgTccttggcttgaatgattacc	8	13	8	12	0	1	3	1	3	0	0	3	3	3	3	4	2	1	2	4	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:64218423T>C	uc002lkc.1	-	5	821	c.683A>G	c.(682-684)GAC>GGC	p.D228G	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Missense_Mutation_p.D228G|CDH19_uc002lkd.2_Missense_Mutation_p.D228G	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	228	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				ACCAATCATGTCCTTGGCTTG	0.308													7	78					0	0	1	0	0		C	64218423	C	C	64218423	3	2	55	1	0	0	0	0	1	0	0	0	3107	1667	58	3	1667	3	CDH19	18	64218423	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	13232797	64218423	13858825	1407	40441											
ZNF407	55628	broad.mit.edu	37	chr18	72775812	72775812	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagatccagatgttcccacaGgcccaggagagcccggccgc	9	4	13	15	2	0	3	0	0	0	3	2	5	2	3	5	3	1	1	5	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:72775812G>T	uc002llw.2	+	8	6192	c.6135G>T	c.(6133-6135)CAG>CAT	p.Q2045H		NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	2045					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		TGTTCCCACAGGCCCAGGAGA	0.687													7	30					0.00307968	0.00314429	1	1	0		T	72775812	T	T	72775812	3	4	55	1	0	0	0	0	1	0	0	0	17912	991	35	5	6295	5	ZNF407	18	72775812	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	8557389	72775812	5301436	1408	40442											
SALL3	27164	broad.mit.edu	37	chr18	76753092	76753092	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcttctacctcagacttcCgccagcggcgtcatcttccc	5	10	7	19	4	4	1	2	0	2	1	6	1	6	1	5	1	2	1	5	1	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:76753092C>T	uc002lmt.2	+	2	1101	c.1101C>T	c.(1099-1101)TCC>TCT	p.S367S	SALL3_uc010dra.2_5'UTR	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	367					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CTCAGACTTCCGCCAGCGGCG	0.716													4	5					0	0	1	0	0		T	76753092	T	T	76753092	2	4	55	1	0	0	0	0	0	0	0	1	13837	639	23	1		1	SALL3	18	76753092	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3977280	76753092	1324156	1409	40443											
SALL3	27164	broad.mit.edu	37	chr18	76754571	76754571	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagctgccagcagctgacCggcctcaagtccgtggagaa	10	6	13	12	2	1	3	1	2	0	1	2	4	2	3	4	2	4	3	4	2	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr18:76754571C>T	uc002lmt.2	+	2	2580	c.2580C>T	c.(2578-2580)ACC>ACT	p.T860T	SALL3_uc010dra.2_Silent_p.T467T	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	860					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		AGCAGCTGACCGGCCTCAAGT	0.682													21	55					0	0	1	0	0		T	76754571	T	T	76754571	2	4	55	1	0	0	0	0	0	0	0	1	13837	639	23	1		1	SALL3	18	76754571	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1479	76754571	1322677	1410	40444											
TLE2	7089	broad.mit.edu	37	chr19	3009702	3009702	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagggggctcctcagggcTgagacggaagagtcggggac	8	5	19	9	2	2	2	2	1	0	2	4	5	3	4	1	6	0	2	1	6	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:3009702T>C	uc002lww.2	-	13	1276	c.1013_splice	c.e13-1	p.A338_splice	TLE2_uc010xhb.1_Intron|TLE2_uc010dth.2_Splice_Site_p.A339_splice|TLE2_uc010xhc.1_Splice_Site_p.A216_splice|TLE2_uc010dti.2_Splice_Site_p.A352_splice|TLE2_uc010xhd.1_Splice_Site_p.A246_splice	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1						negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCTCAGGGCTGAGACGGAAG	0.617													4	2					0	0	1	0	0		C	3009702	C	C	3009702	5	2	55	1	0	0	0	0	0	0	1	0	15964	1594	55	3	1252	3	TLE2	19	3009702	Splice_Site	SNP	T	TCGA-BR-7851-01A-11D-2201-08		3009702	56119281	1411	40445											
TBXA2R	6915	broad.mit.edu	37	chr19	3600363	3600363	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgccactcgaagagcgcGgcgtgctgggacaccacgat	8	5	15	13	6	0	1	0	0	0	1	1	4	0	2	2	2	3	1	2	2	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:3600363G>A	uc002lyg.1	-	2	484	c.270C>T	c.(268-270)GCC>GCT	p.A90A	TBXA2R_uc002lye.1_Silent_p.A90A	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	90	Extracellular (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	CGAAGAGCGCGGCGTGCTGGG	0.672													9	25					0	0	1	0	0		A	3600363	A	A	3600363	2	1	55	1	0	0	0	0	0	0	0	1	15688	1103	39	1		1	TBXA2R	19	3600363	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	590661	3600363	55528620	1412	40446											
C19orf29	58509	broad.mit.edu	37	chr19	3612200	3612200	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatcttgggcggtgggttGtcaaagtcgtagtgcgtctg	6	12	16	7	4	3	0	1	0	2	0	4	1	3	0	0	3	1	2	0	3	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:3612200G>A	uc002lyh.2	-	10	2051	c.1998C>T	c.(1996-1998)GAC>GAT	p.D666D	C19orf29_uc010xho.1_Silent_p.D125D|C19orf29_uc010dtn.2_Silent_p.D514D|C19orf29_uc002lyi.3_Silent_p.D666D|C19orf29_uc010dto.2_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	666						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGGTGGGTTGTCAAAGTCGT	0.592													5	150					0	0	1	0	0		A	3612200	A	A	3612200	2	1	55	1	0	0	0	0	0	0	0	1	1921	1368	48	4		4	C19orf29	19	3612200	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	11837	3612200	55516783	1413	40447											
ZFR2	23217	broad.mit.edu	37	chr19	3823259	3823259	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctcctccacatattcCgggcccaccggctgcgcatc	6	9	7	19	3	0	0	0	0	0	0	4	0	3	0	6	2	2	2	6	2	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:3823259C>T	uc002lyw.2	-	8	1368	c.1356G>A	c.(1354-1356)CCG>CCA	p.P452P	ZFR2_uc010xhx.1_RNA	NM_015174	NP_055989	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2 isoform 1	452						intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		CCACATATTCCGGGCCCACCG	0.617													35	82					0	0	1	0	0		T	3823259	T	T	3823259	2	4	55	1	0	0	0	0	0	0	0	1	17685	639	23	1		1	ZFR2	19	3823259	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	211059	3823259	55305724	1414	40448											
EEF2	1938	broad.mit.edu	37	chr19	3981982	3981982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatcagctggcagaaggtgCgtggcagcttcttcccttcg	6	10	14	11	2	2	1	1	0	1	1	4	2	3	2	1	4	3	4	1	4	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:3981982C>T	uc002lze.2	-	6	943	c.860G>A	c.(859-861)CGC>CAC	p.R287H		NM_001961	NP_001952	P13639	EF2_HUMAN	eukaryotic translation elongation factor 2	287						cytosol|ribonucleoprotein complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|GBM - Glioblastoma multiforme(1328;0.0223)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGAAGGTGCGTGGCAGCTT	0.612													6	131					0	0	1	0	0		T	3981982	T	T	3981982	3	4	55	1	0	0	0	0	1	0	0	0	4935	768	27	1	1756	1	EEF2	19	3981982	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	158723	3981982	55147001	1415	40449											
TICAM1	148022	broad.mit.edu	37	chr19	4818050	4818050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctggtaggccacgtcccGcagcgaggcggggcacagct	6	6	15	14	4	0	0	0	0	0	0	2	1	2	0	3	5	2	4	3	5	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:4818050G>A	uc002mbi.2	-	2	591	c.340C>T	c.(340-342)CGG>TGG	p.R114W		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	114					apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		GCCACGTCCCGCAGCGAGGCG	0.682													16	32					0	0	1	0	0		A	4818050	A	A	4818050	3	1	55	1	0	0	0	0	1	0	0	0	15917	1086	38	1	1802	1	TICAM1	19	4818050	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	836068	4818050	54310933	1416	40450											
SAFB2	9667	broad.mit.edu	37	chr19	5587937	5587937	+	Silent	SNP	G	A	A																															tccatggcaccctgccaggcGcgtgcctggtgctcctctag																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:5587937G>A	uc002mcd.2	-	19	2792	c.2580C>T	c.(2578-2580)CGC>CGT	p.R860R		NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	860	Interacts with SAFB1.|Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		CCTGCCAGGCGCGTGCCTGGT	0.662													7	15					0	0	1	0	0		A	5587937	A	A	5587937	2	1	55	1	0	0	0	0	0	0	0	1	13832	1074	38	1		1	SAFB2	19	5587937	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	769887	5587937	53541046	1417	40451	80	2									
SAFB2	9667	broad.mit.edu	37	chr19	5587943	5587943	+	Silent	SNP	C	T	T																															gcaccctgccaggcgcgtgcCtggtgctcctctagccgctg																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:5587943C>T	uc002mcd.2	-	19	2786	c.2574G>A	c.(2572-2574)CAG>CAA	p.Q858Q		NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	858	Interacts with SAFB1.|Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		AGGCGCGTGCCTGGTGCTCCT	0.652													11	12					0	0	1	0	0		T	5587943	T	T	5587943	2	4	55	1	0	0	0	0	0	0	0	1	13832	680	24	4		4	SAFB2	19	5587943	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6	5587943	53541040	1418	40452	80	2									
FUT6	2528	broad.mit.edu	37	chr19	5831827	5831827	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcggtgatgtagtcggggTgcaaggagttctcgaaggcc	7	10	16	8	3	2	1	0	1	2	0	5	3	2	2	1	5	1	3	1	5	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:5831827T>C	uc002mdf.1	-	4	1278	c.752A>G	c.(751-753)CAC>CGC	p.H251R	FUT6_uc002mdg.1_Missense_Mutation_p.H251R|FUT6_uc002mdh.1_Missense_Mutation_p.H251R|FUT6_uc010dul.1_Missense_Mutation_p.H251R	NM_001040701	NP_001035791	P51993	FUT6_HUMAN	fucosyltransferase 6	251	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity|alpha(1,3)-fucosyltransferase activity				0						GTAGTCGGGGTGCAAGGAGTT	0.627													14	58					0	0	1	0	0		C	5831827	C	C	5831827	3	2	55	1	0	0	0	0	1	0	0	0	6122	1696	59	3	331	3	FUT6	19	5831827	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	243884	5831827	53297156	1419	40453											
FUT3	2525	broad.mit.edu	37	chr19	5844584	5844584	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggcagtgatgtggcagtcGgctgtgccgggcaccatctc	5	9	15	12	3	1	1	0	1	1	0	4	1	1	1	2	4	1	4	2	4	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:5844584G>A	uc002mdk.2	-	2	364	c.267C>T	c.(265-267)GCC>GCT	p.A89A	FUT3_uc002mdm.2_Silent_p.A89A|FUT3_uc002mdj.2_Silent_p.A89A|FUT3_uc002mdl.2_Silent_p.A89A|uc002mdn.2_5'Flank	NM_001097641	NP_001091110	P21217	FUT3_HUMAN	fucosyltransferase 3	89	Lumenal (Potential).				protein glycosylation	Golgi cisterna membrane|integral to membrane|membrane fraction	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity				0						TGTGGCAGTCGGCTGTGCCGG	0.617													48	153					0	0	1	0	0		A	5844584	A	A	5844584	2	1	55	1	0	0	0	0	0	0	0	1	6119	1103	39	1		1	FUT3	19	5844584	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	12757	5844584	53284399	1420	40454											
TUBB4	10382	broad.mit.edu	37	chr19	6495655	6495655	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgggtgagctcgggcacCgtcagggcccggtactgctg	4	8	17	12	3	1	1	1	1	0	0	2	1	1	1	2	4	4	5	2	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:6495655C>T	uc002mfg.1	-	4	962	c.855G>A	c.(853-855)ACG>ACA	p.T285T	TUBB4_uc002mff.1_Silent_p.T213T|MIR220B_hsa-mir-220b|MI0005529_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	285					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		GCTCGGGCACCGTCAGGGCCC	0.677													23	51					0	0	1	0	0		T	6495655	T	T	6495655	2	4	55	1	0	0	0	0	0	0	0	1	16784	639	23	1		1	TUBB4	19	6495655	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	651071	6495655	52633328	1421	40455											
TNFSF14	8740	broad.mit.edu	37	chr19	6669903	6669903	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctagacgccagtgcagctGcaggaggaaccagccttgga	10	6	13	12	1	0	1	0	0	0	1	1	4	1	4	4	3	5	3	4	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:6669903G>A	uc002mfk.1	-	2	560	c.178C>T	c.(178-180)CAG>TAG	p.Q60*	TNFSF14_uc002mfj.1_Intron	NM_003807	NP_003798	O43557	TNF14_HUMAN	tumor necrosis factor ligand superfamily, member	60	Extracellular (Potential).				cellular response to mechanical stimulus|immune response|induction of apoptosis|release of cytoplasmic sequestered NF-kappaB|T cell homeostasis|T cell proliferation	cytoplasm|extracellular space|integral to membrane|plasma membrane	caspase inhibitor activity|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1						CAGTGCAGCTGCAGGAGGAAC	0.667													30	83					0	0	1	0	0		A	6669903	A	A	6669903	4	1	55	1	0	0	0	0	0	1	0	0	16332	1328	46	2	560	2	TNFSF14	19	6669903	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	174248	6669903	52459080	1422	40456											
VAV1	7409	broad.mit.edu	37	chr19	6821668	6821668	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgctctgtcctggaccccGatcgcccagaacagggggat	7	8	12	14	2	2	1	0	0	2	1	4	4	3	3	4	3	2	1	4	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:6821668G>A	uc002mfu.1	+	3	454	c.357G>A	c.(355-357)CCG>CCA	p.P119P	VAV1_uc010xjh.1_Silent_p.P119P|VAV1_uc010dva.1_Silent_p.P119P|VAV1_uc002mfv.1_Silent_p.P64P	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	119	CH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						CCTGGACCCCGATCGCCCAGA	0.627													16	85					0	0	1	0	0		A	6821668	A	A	6821668	2	1	55	1	0	0	0	0	0	0	0	1	17157	1045	37	1		1	VAV1	19	6821668	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	151765	6821668	52307315	1423	40457											
ARHGEF18	23370	broad.mit.edu	37	chr19	7527207	7527207	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggagctaattctcaagtcGgccatgagcgagagtaagtt	11	9	14	7	2	1	2	1	1	1	1	3	4	1	3	1	3	2	3	1	3	3	4	rs149045020	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:7527207G>A	uc002mgi.2	+	11	2311	c.2058G>A	c.(2056-2058)TCG>TCA	p.S686S	ARHGEF18_uc010xjm.1_Silent_p.S528S|ARHGEF18_uc002mgh.2_Silent_p.S528S|ARHGEF18_uc002mgj.1_Silent_p.S329S	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	686					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				TTCTCAAGTCGGCCATGAGCG	0.652													4	22					0	0	1	0	0		A	7527207	A	A	7527207	2	1	55	1	0	0	0	0	0	0	0	1	901	1103	39	1		1	ARHGEF18	19	7527207	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	705539	7527207	51601776	1424	40458											
ZNF358	140467	broad.mit.edu	37	chr19	7584410	7584410	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtcttcgagtttcgacctCgatccagatgtgattggccc	7	13	10	11	3	1	2	0	1	1	1	5	5	2	2	3	1	0	1	3	1	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:7584410C>T	uc002mgn.2	+	2	452	c.282C>T	c.(280-282)CTC>CTT	p.L94L		NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	94					embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						GTTTCGACCTCGATCCAGATG	0.607													51	99					0	0	1	0	0		T	7584410	T	T	7584410	2	4	55	1	0	0	0	0	0	0	0	1	17892	871	31	1		1	ZNF358	19	7584410	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	57203	7584410	51544573	1425	40459											
PNPLA6	10908	broad.mit.edu	37	chr19	7605913	7605913	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggtcttcaccaagtacccGgagagcttggtgcgggtcgt	6	9	15	11	4	2	1	1	0	1	1	3	2	2	1	2	4	3	2	2	4	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:7605913G>A	uc010xjq.1	+	9	1122	c.927G>A	c.(925-927)CCG>CCA	p.P309P	PNPLA6_uc002mgq.1_Silent_p.P261P|PNPLA6_uc010xjp.1_Silent_p.P261P|PNPLA6_uc002mgr.1_Silent_p.P261P|PNPLA6_uc002mgs.2_Silent_p.P300P	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	300	cNMP 1.|Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						CCAAGTACCCGGAGAGCTTGG	0.697													4	10					0	0	1	0	0		A	7605913	A	A	7605913	2	1	55	1	0	0	0	0	0	0	0	1	12188	1103	39	1		1	PNPLA6	19	7605913	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	21503	7605913	51523070	1426	40460											
LASS4	79603	broad.mit.edu	37	chr19	8320751	8320751	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccttcgtgggcggcctctcGgtcctgtaccacgtgagtat	4	12	12	13	4	1	1	0	1	1	0	5	1	3	1	4	3	1	2	4	3	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:8320751G>A	uc002mjg.2	+	6	776	c.456G>A	c.(454-456)TCG>TCA	p.S152S	LASS4_uc002mjh.2_Silent_p.S101S|LASS4_uc002mji.2_5'UTR|LASS4_uc010dvz.2_Silent_p.S152S	NM_024552	NP_078828	Q9HA82	CERS4_HUMAN	LAG1 homolog, ceramide synthase 4	152	TLC.|Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(1)	1						GCGGCCTCTCGGTCCTGTACC	0.617													18	59					0	0	1	0	0		A	8320751	A	A	8320751	2	1	55	1	0	0	0	0	0	0	0	1	8657	1103	39	1		1	LASS4	19	8320751	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	714838	8320751	50808232	1427	40461											
ADAMTS10	81794	broad.mit.edu	37	chr19	8656953	8656953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtccacaccctctgggcgcGacccaaaggggacacagacc	10	3	11	17	3	1	1	0	0	1	1	2	3	2	2	4	3	0	0	4	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:8656953G>A	uc002mkj.1	-	14	1896	c.1622C>T	c.(1621-1623)TCG>TTG	p.S541L	ADAMTS10_uc002mki.1_Missense_Mutation_p.R32C|ADAMTS10_uc002mkk.1_Missense_Mutation_p.S173L	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	541	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						CTCTGGGCGCGACCCAAAGGG	0.682													9	43					0	0	1	0	0		A	8656953	A	A	8656953	3	1	55	1	0	0	0	0	1	0	0	0	256	1059	37	1	1741	1	ADAMTS10	19	8656953	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	336202	8656953	50472030	1428	40462											
ADAMTS10	81794	broad.mit.edu	37	chr19	8668665	8668665	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacgcagagaggaacgcttgTacaccacatgtggtccactt	11	8	11	11	2	0	1	0	0	0	1	1	4	1	2	2	2	2	3	2	2	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:8668665T>C	uc002mkj.1	-	5	813	c.539A>G	c.(538-540)TAC>TGC	p.Y180C	ADAMTS10_uc002mkk.1_5'UTR	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	180					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						GGAACGCTTGTACACCACATG	0.592													11	29					0	0	1	0	0		C	8668665	C	C	8668665	3	2	55	1	0	0	0	0	1	0	0	0	256	1638	57	3	2860	3	ADAMTS10	19	8668665	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	11712	8668665	50460318	1429	40463											
ACTL9	284382	broad.mit.edu	37	chr19	8807972	8807972	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtctcggctggcagagcGcgcagcagctctgcccggaa	6	6	16	13	4	2	1	0	0	2	1	3	2	2	2	1	4	4	5	1	4	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:8807972G>A	uc002mkl.2	-	1	1201	c.1080C>T	c.(1078-1080)CGC>CGT	p.R360R		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	360						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						CTGGCAGAGCGCGCAGCAGCT	0.672													8	9					0	0	1	0	0		A	8807972	A	A	8807972	2	1	55	1	0	0	0	0	0	0	0	1	203	1074	38	1		1	ACTL9	19	8807972	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	139307	8807972	50321011	1430	40464											
MUC16	94025	broad.mit.edu	37	chr19	9000147	9000147	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgttctcagttctcacCtgagcaaggtcagtctgcag	7	12	11	11	0	4	1	3	1	3	0	6	1	4	1	1	2	2	5	1	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:9000147C>A	uc002mkp.2	-	55	40814	c.40610G>T	c.(40609-40611)AGG>ATG	p.R13537M	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.R354M|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13539	SEA 10.|Extracellular (Potential).			Missing (in Ref. 3; AAK74120).	cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGTTCTCACCTGAGCAAGGT	0.577													19	55					1.37657e-19	1.52835e-19	1	1	0		A	9000147	A	A	9000147	3	1	55	1	0	0	0	0	1	0	0	0	9991	695	24	5	3033	5	MUC16	19	9000147	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	192175	9000147	50128836	1431	40465											
MUC16	94025	broad.mit.edu	37	chr19	9089934	9089934	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgatgctgtggctctggtGagtaggtgggttgtgccctg	4	13	18	6	0	1	2	0	2	1	0	1	3	1	2	1	4	2	4	1	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:9089934G>A	uc002mkp.2	-	1	2085	c.1881C>T	c.(1879-1881)CTC>CTT	p.L627L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	627	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGGCTCTGGTGAGTAGGTGGG	0.587													4	76					0	0	1	0	0		A	9089934	A	A	9089934	2	1	55	1	0	0	0	0	0	0	0	1	9991	1277	45	4		4	MUC16	19	9089934	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	89787	9089934	50039049	1432	40466											
EIF3G	8666	broad.mit.edu	37	chr19	10226201	10226201	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtcgtagccaaagccggAcaccccggcaatggcacgcg	9	4	14	14	5	0	0	0	0	0	0	1	1	0	1	4	4	2	3	4	4	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:10226201A>G	uc002mnd.2	-	10	965	c.901T>C	c.(901-903)TCC>CCC	p.S301P		NM_003755	NP_003746	O75821	EIF3G_HUMAN	eukaryotic translation initiation factor 3,	301	RRM.					cytosol|eukaryotic translation initiation factor 3 complex|nucleus|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0			OV - Ovarian serous cystadenocarcinoma(20;3.53e-09)|Epithelial(33;4.91e-06)|all cancers(31;1.1e-05)			CCAAAGCCGGACACCCCGGCA	0.652													12	55					0	0	1	0	0		G	10226201	G	G	10226201	3	3	55	1	0	0	0	0	1	0	0	0	5025	275	10	3	69	3	EIF3G	19	10226201	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1136267	10226201	48902782	1433	40467											
PDE4A	5141	broad.mit.edu	37	chr19	10531499	10531499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgtcactgcccgggccccGggagggccaggccaccctga	5	5	14	17	2	2	1	1	1	1	0	2	2	2	2	6	4	1	0	6	4	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:10531499G>A	uc002moj.2	+	1	167	c.59G>A	c.(58-60)CGG>CAG	p.R20Q		NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1	20					signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)	CCCGGGCCCCGGGAGGGCCAG	0.741													3	5					0	0	1	0	0		A	10531499	A	A	10531499	3	1	55	1	0	0	0	0	1	0	0	0	11658	1116	39	1	61	1	PDE4A	19	10531499	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	305298	10531499	48597484	1434	40468											
KEAP1	9817	broad.mit.edu	37	chr19	10610652	10610652	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccctcagggcactgtgactGcaggggcaggaatcggcagc	8	5	15	13	1	1	1	1	1	0	0	2	2	1	2	2	5	2	4	2	5	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:10610652G>A	uc002moq.1	-	2	214	c.58C>T	c.(58-60)CAG>TAG	p.Q20*	KEAP1_uc002mor.1_Nonsense_Mutation_p.Q20*	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	20					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CACTGTGACTGCAGGGGCAGG	0.652													3	36					0	0	1	0	0		A	10610652	A	A	10610652	4	1	55	1	0	0	0	0	0	1	0	0	8157	1328	46	2	1836	2	KEAP1	19	10610652	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	79153	10610652	48518331	1435	40469											
SMARCA4	6597	broad.mit.edu	37	chr19	11107211	11107211	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagacgcctgccattgggccGgatggcgaggtgaggaagca	9	5	17	10	3	0	2	0	1	0	1	0	5	0	4	3	5	2	1	3	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:11107211G>A	uc002mqf.3	+	11	2087	c.1803G>A	c.(1801-1803)CCG>CCA	p.P601P	SMARCA4_uc010dxp.2_Silent_p.P601P|SMARCA4_uc010dxo.2_Silent_p.P601P|SMARCA4_uc002mqg.1_Silent_p.P601P|SMARCA4_uc010dxq.2_Silent_p.P601P|SMARCA4_uc010dxr.2_Silent_p.P601P|SMARCA4_uc002mqj.3_Silent_p.P601P|SMARCA4_uc010dxs.2_Silent_p.P601P	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	601					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				CCATTGGGCCGGATGGCGAGG	0.507			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				21	50					0	0	1	0	0		A	11107211	A	A	11107211	2	1	55	1	0	0	0	0	0	0	0	1	14795	1103	39	1		1	SMARCA4	19	11107211	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	496559	11107211	48021772	1436	40470											
ELAVL3	1995	broad.mit.edu	37	chr19	11569369	11569369	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcatggtcttggggagccCgctgacgtacaggttagcat	7	10	14	10	2	2	1	1	1	1	0	2	2	2	2	1	4	3	5	1	4	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:11569369C>T	uc002mry.1	-	4	771	c.391G>A	c.(391-393)GGG>AGG	p.G131R	ELAVL3_uc002mrx.1_Missense_Mutation_p.G131R	NM_001420	NP_001411	Q14576	ELAV3_HUMAN	ELAV-like protein 3 isoform 1	131	RRM 2.				cell differentiation|nervous system development		AU-rich element binding|nucleotide binding			ovary(1)|breast(1)|skin(1)	3						TTGGGGAGCCCGCTGACGTAC	0.602													41	102					0	0	1	0	0		T	11569369	T	T	11569369	3	4	55	1	0	0	0	0	1	0	0	0	5059	652	23	1	728	1	ELAVL3	19	11569369	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	462158	11569369	47559614	1437	40471											
ZNF653	115950	broad.mit.edu	37	chr19	11597866	11597866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccgtccagctcctcccCgtccgcctctgcctcaggct	2	9	9	21	3	2	0	1	0	1	0	6	0	6	0	8	1	3	3	8	1	0	0	rs141445219	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:11597866C>T	uc002mrz.1	-	5	1332	c.1279G>A	c.(1279-1281)GGG>AGG	p.G427R		NM_138783	NP_620138	Q96CK0	ZN653_HUMAN	zinc finger protein 653	427					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGCTCCTCCCCGTCCGCCTCT	0.642													5	57					0	0	1	0	0		T	11597866	T	T	11597866	3	4	55	1	0	0	0	0	1	0	0	0	18091	652	23	1	588	1	ZNF653	19	11597866	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	28497	11597866	47531117	1438	40472											
ZNF700	90592	broad.mit.edu	37	chr19	12060023	12060023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctataaatgcaagcaatGtggtaaagccttcaatcttt	14	12	7	8	1	2	0	1	0	1	0	2	0	2	0	1	1	3	4	1	1	8	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:12060023G>A	uc002msu.2	+	4	1310	c.1184G>A	c.(1183-1185)TGT>TAT	p.C395Y	ZNF700_uc010xme.1_Missense_Mutation_p.C413Y|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	395	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGCAAGCAATGTGGTAAAGCC	0.388													11	26					0	0	1	0	0		A	12060023	A	A	12060023	3	1	55	1	0	0	0	0	1	0	0	0	18129	1377	48	4	1198	4	ZNF700	19	12060023	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	462157	12060023	47068960	1439	40473											
ZNF799	90576	broad.mit.edu	37	chr19	12501767	12501767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaaacaactgaatgctttcCcacattccttacactcatat	13	12	4	12	0	1	1	1	1	0	0	3	2	3	2	2	1	4	1	2	1	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:12501767C>T	uc010dyt.2	-	4	1595	c.1445G>A	c.(1444-1446)GGG>GAG	p.G482E	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	482	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						GAATGCTTTCCCACATTCCTT	0.373													13	36					0	0	1	0	0		T	12501767	T	T	12501767	3	4	55	1	0	0	0	0	1	0	0	0	18191	623	22	4	490	4	ZNF799	19	12501767	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	441744	12501767	46627216	1440	40474											
FBXW9	84261	broad.mit.edu	37	chr19	12800856	12800856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgcctgagatgatgtgccGgtcatccgccagcagggtca	7	8	14	12	2	2	2	2	2	0	1	3	3	3	2	4	2	3	2	4	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:12800856G>A	uc010dyx.2	-	6	1012	c.1012C>T	c.(1012-1014)CGG>TGG	p.R338W	FBXW9_uc010xmp.1_RNA|uc002mul.1_3'UTR|FBXW9_uc002mum.1_Missense_Mutation_p.R318W|FBXW9_uc002mun.1_Missense_Mutation_p.R155W	NM_032301	NP_115677	Q5XUX1	FBXW9_HUMAN	F-box and WD-40 domain protein 9	348	WD 4.						protein binding			ovary(1)	1						ATGATGTGCCGGTCATCCGCC	0.667													23	69					0	0	1	0	0		A	12800856	A	A	12800856	3	1	55	1	0	0	0	0	1	0	0	0	5785	1115	39	1	444	1	FBXW9	19	12800856	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	299089	12800856	46328127	1441	40475											
MAST1	22983	broad.mit.edu	37	chr19	12985485	12985485	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctccccaaagctctcccCggagccccagacaccctccc	7	4	6	24	2	1	1	0	0	1	1	4	2	3	2	9	1	2	1	9	1	1	0	rs144944600		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:12985485C>A	uc002mvm.2	+	26	4642	c.4514C>A	c.(4513-4515)CCG>CAG	p.P1505Q		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1505					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						AAGCTCTCCCCGGAGCCCCAG	0.706													11	20					1.49906e-05	1.56424e-05	1	1	0		A	12985485	A	A	12985485	3	1	55	1	0	0	0	0	1	0	0	0	9342	652	23	5	4616	5	MAST1	19	12985485	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	184629	12985485	46143498	1442	40476											
TRMT1	55621	broad.mit.edu	37	chr19	13226178	13226178	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatccacagcccgggtggAggcatcgtttgcaaccacag	10	6	13	12	2	0	1	0	0	0	1	2	3	1	2	3	3	3	3	3	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:13226178A>C	uc002mwj.2	-	4	806	c.556T>G	c.(556-558)TCC>GCC	p.S186A	NACC1_uc002mwm.2_5'Flank|TRMT1_uc002mwk.2_Missense_Mutation_p.S186A|TRMT1_uc002mwl.3_Missense_Mutation_p.S186A|TRMT1_uc010xmz.1_5'UTR	NM_017722	NP_060192	Q9NXH9	TRM1_HUMAN	tRNA methyltransferase 1 isoform 1	186							RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.08e-22)	GBM - Glioblastoma multiforme(1328;0.0356)		GCCCGGGTGGAGGCATCGTTT	0.597													17	55					0	0	1	0	0		C	13226178	C	C	13226178	3	2	55	1	0	0	0	0	1	0	0	0	16587	304	11	5	1475	5	TRMT1	19	13226178	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	240693	13226178	45902805	1443	40477											
IL27RA	9466	broad.mit.edu	37	chr19	14157020	14157020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctggttctgggttggaggtCgtgagctgagtccagaagga	7	11	17	6	1	2	3	0	2	2	1	4	5	3	5	1	5	1	3	1	5	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:14157020C>T	uc002mxx.2	+	7	1246	c.823C>T	c.(823-825)CGT>TGT	p.R275C		NM_004843	NP_004834	Q6UWB1	I27RA_HUMAN	class I cytokine receptor precursor	275	Extracellular (Potential).				cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0						GGTTGGAGGTCGTGAGCTGAG	0.577													51	119					0	0	1	0	0		T	14157020	T	T	14157020	3	4	55	1	0	0	0	0	1	0	0	0	7697	884	31	1	849	1	IL27RA	19	14157020	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	930842	14157020	44971963	1444	40478											
LPHN1	22859	broad.mit.edu	37	chr19	14261714	14261714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaccagctgcatctgccCgtccccatcgggccctggcc	4	7	12	18	2	1	1	0	1	1	0	3	1	2	1	6	3	3	2	6	3	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:14261714C>T	uc010xnn.1	-	24	4692	c.4396G>A	c.(4396-4398)GGG>AGG	p.G1466R	LPHN1_uc010xno.1_Missense_Mutation_p.G1461R|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	1466	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						TGCATCTGCCCGTCCCCATCG	0.701													4	28					0	0	1	0	0		T	14261714	T	T	14261714	3	4	55	1	0	0	0	0	1	0	0	0	8933	652	23	1	32	1	LPHN1	19	14261714	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	104694	14261714	44867269	1445	40479											
LPHN1	22859	broad.mit.edu	37	chr19	14266920	14266920	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggcaggggcgaggctcActtaatgttgtccaggcggc	7	7	17	10	2	1	0	1	0	0	0	2	1	2	0	1	7	0	4	1	7	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:14266920A>G	uc010xnn.1	-	18	3436	c.3140_splice	c.e18+1	p.K1047_splice	LPHN1_uc010xno.1_Splice_Site_p.K1042_splice|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						GGCGAGGCTCACTTAATGTTG	0.537													6	19					0	0	1	0	0		G	14266920	G	G	14266920	5	3	55	1	0	0	0	0	0	0	1	0	8933	173	6	3	1310	3	LPHN1	19	14266920	Splice_Site	SNP	A	TCGA-BR-7851-01A-11D-2201-08	5206	14266920	44862063	1446	40480											
LPHN1	22859	broad.mit.edu	37	chr19	14273846	14273846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcggtctttccgccccagCggtagggcgaggtgtcatgg	4	10	16	11	4	2	0	1	0	1	0	4	1	3	0	3	5	1	1	3	5	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:14273846C>T	uc010xnn.1	-	6	1078	c.782G>A	c.(781-783)CGC>CAC	p.R261H	LPHN1_uc010xno.1_Missense_Mutation_p.R256H|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	261	Olfactomedin-like.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						TCCGCCCCAGCGGTAGGGCGA	0.622													6	30					0	0	1	0	0		T	14273846	T	T	14273846	3	4	55	1	0	0	0	0	1	0	0	0	8933	768	27	1	3718	1	LPHN1	19	14273846	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6926	14273846	44855137	1447	40481											
SLC1A6	6511	broad.mit.edu	37	chr19	15065111	15065111	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acacccaggccctcctccagGcagcggaaggtgatgggcag	9	4	14	14	1	0	1	0	1	0	0	2	2	2	2	4	5	1	2	4	5	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:15065111G>A	uc002naa.1	-	7	1208	c.1200C>T	c.(1198-1200)TGC>TGT	p.C400C	SLC1A6_uc010dzu.1_Silent_p.C322C|SLC1A6_uc010xod.1_Silent_p.C336C	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	400					synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	CCTCCTCCAGGCAGCGGAAGG	0.697													17	49					0	0	1	0	0		A	15065111	A	A	15065111	2	1	55	1	0	0	0	0	0	0	0	1	14461	1195	42	2		2	SLC1A6	19	15065111	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	791265	15065111	44063872	1448	40482											
CYP4F12	66002	broad.mit.edu	37	chr19	15791216	15791216	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactaggagaagggatactgCtgagtggcggtgacaagtgg	11	8	17	5	1	0	3	0	2	0	1	0	5	0	4	0	5	3	1	0	5	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:15791216C>T	uc002nbl.2	+	5	473	c.412C>T	c.(412-414)CTG>TTG	p.L138L	CYP4F12_uc010xoo.1_Silent_p.L138L|CYP4F12_uc010xop.1_Missense_Mutation_p.A169V	NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					AGGGATACTGCTGAGTGGCGG	0.572													6	10					0	0	1	0	0		T	15791216	T	T	15791216	2	4	55	1	0	0	0	0	0	0	0	1	4190	796	28	2		2	CYP4F12	19	15791216	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	726105	15791216	43337767	1449	40483											
OR10H5	284433	broad.mit.edu	37	chr19	15905398	15905398	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaccatttcttctgccaCgtgccacctctgttgaagtt	7	14	6	14	1	3	1	0	1	3	0	4	1	4	1	5	0	2	2	5	0	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:15905398C>T	uc010xos.1	+	1	540	c.540C>T	c.(538-540)CAC>CAT	p.H180H		NM_001004466	NP_001004466	Q8NGA6	O10H5_HUMAN	olfactory receptor, family 10, subfamily H,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TCTTCTGCCACGTGCCACCTC	0.587													3	46					0	0	1	0	0		T	15905398	T	T	15905398	2	4	55	1	0	0	0	0	0	0	0	1	10928	535	19	1		1	OR10H5	19	15905398	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	114182	15905398	43223585	1450	40484											
NWD1	284434	broad.mit.edu	37	chr19	16875869	16875869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgagctggatttcctgccGgggcatctctgggggcattg	5	11	15	10	1	1	1	0	1	1	0	3	2	2	2	2	5	2	3	2	5	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:16875869G>A	uc002neu.3	+	10	2698	c.2276G>A	c.(2275-2277)CGG>CAG	p.R759Q	NWD1_uc002net.3_Missense_Mutation_p.R624Q|NWD1_uc002nev.3_Missense_Mutation_p.R553Q			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	759							ATP binding			skin(3)|ovary(2)|pancreas(2)	7						ATTTCCTGCCGGGGCATCTCT	0.602													4	81					0	0	1	0	0		A	16875869	A	A	16875869	3	1	55	1	0	0	0	0	1	0	0	0	10800	1116	39	1	1893	1	NWD1	19	16875869	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	970471	16875869	42253114	1451	40485											
ABHD8	79575	broad.mit.edu	37	chr19	17412369	17412369	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctccagtggccccacggcGttggggggcgtgcccagcag	4	6	16	15	3	1	0	0	0	1	0	2	0	1	0	4	5	2	2	4	5	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:17412369G>A	uc002ngb.3	-	2	297	c.57C>T	c.(55-57)AAC>AAT	p.N19N		NM_024527	NP_078803	Q96I13	ABHD8_HUMAN	abhydrolase domain containing 8	19							hydrolase activity				0						GCCCCACGGCGTTGGGGGGCG	0.652													10	29					0	0	1	0	0		A	17412369	A	A	17412369	2	1	55	1	0	0	0	0	0	0	0	1	87	1136	40	1		1	ABHD8	19	17412369	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	536500	17412369	41716614	1452	40486											
BST2	684	broad.mit.edu	37	chr19	17516268	17516268	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgaagataatcaagggCacccccagaatcacgatgat	15	7	10	9	1	2	4	2	2	0	2	2	5	2	4	2	2	0	1	2	2	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:17516268C>T	uc002ngl.2	-	1	126	c.117G>A	c.(115-117)GTG>GTA	p.V39V	uc010eat.1_5'Flank|uc002ngm.1_5'Flank	NM_004335	NP_004326	Q10589	BST2_HUMAN	bone marrow stromal cell antigen 2 precursor	39	Helical; Signal-anchor for type II membrane protein; (Potential).				B cell activation|cell proliferation|cell-cell signaling|defense response to virus|humoral immune response|innate immune response|multicellular organismal development|positive regulation of I-kappaB kinase/NF-kappaB cascade	anchored to membrane|Golgi apparatus|integral to plasma membrane|late endosome	protein homodimerization activity|signal transducer activity			ovary(3)	3						TAATCAAGGGCACCCCCAGAA	0.552													13	50					0	0	1	0	0		T	17516268	T	T	17516268	2	4	55	1	0	0	0	0	0	0	0	1	1537	697	25	2		2	BST2	19	17516268	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	103899	17516268	41612715	1453	40487											
MAP1S	55201	broad.mit.edu	37	chr19	17844195	17844195	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatgcgggccgtcctggaCgcgctactggccagcaagca	7	5	15	14	4	0	0	0	0	0	0	1	1	1	1	3	4	4	4	3	4	2	1	rs147584152		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:17844195C>T	uc002nhe.1	+	6	2991	c.2982C>T	c.(2980-2982)GAC>GAT	p.D994D	MAP1S_uc010eba.1_Intron|MAP1S_uc002nhf.1_Silent_p.D242D|MAP1S_uc010xpv.1_Silent_p.D968D	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	994	Necessary for association with actin (By similarity).|Necessary for interaction with RASSF1 isoform A and isoform C.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						CCGTCCTGGACGCGCTACTGG	0.622													4	13					0	0	1	0	0		T	17844195	T	T	17844195	2	4	55	1	0	0	0	0	0	0	0	1	9252	535	19	1		1	MAP1S	19	17844195	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	327927	17844195	41284788	1454	40488											
FCHO1	23149	broad.mit.edu	37	chr19	17886791	17886791	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccttgactgcagcccaCgcacggccgagccctcccgt	6	6	11	18	4	0	1	0	1	0	0	1	3	1	2	5	2	3	2	5	2	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:17886791C>T	uc010ebb.2	+	15	1193	c.1004_splice	c.e15-1	p.S335_splice	FCHO1_uc002nhg.3_Splice_Site_p.S335_splice|FCHO1_uc002nhh.2_Splice_Site_p.S335_splice|FCHO1_uc010xpw.1_Splice_Site_p.S285_splice|FCHO1_uc002nhi.2_5'Flank|FCHO1_uc002nhj.2_5'Flank	NM_001161358	NP_001154830	O14526	FCHO1_HUMAN	FCH domain only 1 isoform b											breast(1)	1						CTGCAGCCCACGCACGGCCGA	0.627											OREG0025349	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	24					0	0	1	0	0		T	17886791	T	T	17886791	5	4	55	1	0	0	0	0	0	0	1	0	5801	550	19	1	1053	1	FCHO1	19	17886791	Splice_Site	SNP	C	TCGA-BR-7851-01A-11D-2201-08	42596	17886791	41242192	1455	40489											
JAK3	3718	broad.mit.edu	37	chr19	17937670	17937670	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcccagggcgctgaatgatGgccggtcctgtgggctaggg	5	7	19	10	2	0	2	0	2	0	0	1	2	1	2	3	6	0	2	3	6	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:17937670G>T	uc002nhn.3	-	24	3357	c.3257C>A	c.(3256-3258)CCA>CAA	p.P1086Q	JAK3_uc010ebh.2_Intron	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	1086	Protein kinase 2.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						GCTGAATGATGGCCGGTCCTG	0.637		2	Mis		acute megakaryocytic leukemia|								15	54					6.49762e-13	7.08831e-13	1	1	0		T	17937670	T	T	17937670	3	4	55	1	0	0	0	0	1	0	0	0	7955	1348	47	5	121	5	JAK3	19	17937670	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	50879	17937670	41191313	1456	40490											
KIAA1683	80726	broad.mit.edu	37	chr19	18377082	18377082	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcggttctttgccgtgAtggtcgcagggcatgtctgc	4	12	16	9	3	2	1	0	1	2	0	4	2	2	1	1	4	2	3	1	4	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:18377082A>G	uc002nin.2	-	3	1484	c.1268T>C	c.(1267-1269)ATC>ACC	p.I423T	KIAA1683_uc010ebn.2_Missense_Mutation_p.I423T|KIAA1683_uc010xqe.1_Missense_Mutation_p.I377T	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	423	Thr-rich.					mitochondrion				ovary(2)	2						CTTTGCCGTGATGGTCGCAGG	0.612													13	49					0	0	1	0	0		G	18377082	G	G	18377082	3	3	55	1	0	0	0	0	1	0	0	0	8267	333	12	3	2843	3	KIAA1683	19	18377082	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	439412	18377082	40751901	1457	40491											
COMP	1311	broad.mit.edu	37	chr19	18898336	18898336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtcgcacgcatcgccccGgccgtcctggtctgtgtcct	2	10	12	17	6	1	0	0	0	1	0	6	0	3	0	5	2	0	2	5	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:18898336G>A	uc002nke.2	-	10	1135	c.1099C>T	c.(1099-1101)CGG>TGG	p.R367W	COMP_uc002nkd.2_Missense_Mutation_p.R334W|COMP_uc010xqj.1_Missense_Mutation_p.R314W	NM_000095	NP_000086	P49747	COMP_HUMAN	cartilage oligomeric matrix protein precursor	367	Cell attachment site (Potential).|TSP type-3 4.		Missing (in EDM1).		anti-apoptosis|apoptosis|cell adhesion|limb development	extracellular space|proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent|heparan sulfate proteoglycan binding|heparin binding				0						GCATCGCCCCGGCCGTCCTGG	0.682													50	98					0	0	1	0	0		A	18898336	A	A	18898336	3	1	55	1	0	0	0	0	1	0	0	0	3727	1115	39	1	1214	1	COMP	19	18898336	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	521254	18898336	40230647	1458	40492											
ARMC6	93436	broad.mit.edu	37	chr19	19165115	19165115	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatgaccaccagatgagggaCcagagcggcgttcaggtatg	12	6	14	9	2	1	4	1	2	0	2	1	5	1	5	3	3	1	2	3	3	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:19165115C>T	uc002nld.2	+	6	1356	c.1008C>T	c.(1006-1008)GAC>GAT	p.D336D	ARMC6_uc002nlc.2_Silent_p.D311D|ARMC6_uc010xql.1_Silent_p.D243D|ARMC6_uc002nle.2_Silent_p.D311D|ARMC6_uc010xqm.1_Silent_p.D336D	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	336	ARM 3.						protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)			AGATGAGGGACCAGAGCGGCG	0.607											OREG0025376	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	34					0	0	1	0	0		T	19165115	T	T	19165115	2	4	55	1	0	0	0	0	0	0	0	1	956	506	18	4		4	ARMC6	19	19165115	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	266779	19165115	39963868	1459	40493											
NCAN	1463	broad.mit.edu	37	chr19	19338599	19338599	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagctgagcactccagcTccagcccatggccttctgta	10	8	8	15	0	1	1	0	1	1	0	3	1	3	1	4	1	4	4	4	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:19338599T>C	uc002nlz.2	+	8	2269	c.2170T>C	c.(2170-2172)TCC>CCC	p.S724P	NCAN_uc010ecc.1_Missense_Mutation_p.S288P	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	724					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GCACTCCAGCTCCAGCCCATG	0.592													28	59					0	0	1	0	0		C	19338599	C	C	19338599	3	2	55	1	0	0	0	0	1	0	0	0	10223	1551	54	3	2196	3	NCAN	19	19338599	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	173484	19338599	39790384	1460	40494											
HAPLN4	404037	broad.mit.edu	37	chr19	19369374	19369374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaggcgtcgtagcgttcctCggcgttatggcgatacccgt	6	10	14	11	7	0	0	0	0	0	0	3	2	1	0	2	3	2	3	2	3	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:19369374C>T	uc002nmb.2	-	4	830	c.775G>A	c.(775-777)GAG>AAG	p.E259K	HAPLN4_uc002nmc.2_Missense_Mutation_p.E259K	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	259	Link 1.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			TAGCGTTCCTCGGCGTTATGG	0.706													18	51					0	0	1	0	0		T	19369374	T	T	19369374	3	4	55	1	0	0	0	0	1	0	0	0	6973	893	31	1	441	1	HAPLN4	19	19369374	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	30775	19369374	39759609	1461	40495											
TSSK6	83983	broad.mit.edu	37	chr19	19626062	19626062	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcaggatggacagctctcGcggcaggaacttgttgacga	9	7	14	11	4	1	1	0	1	1	0	2	5	1	4	1	4	2	4	1	4	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:19626062G>A	uc002nmr.2	-	1	408	c.175C>T	c.(175-177)CGA>TGA	p.R59*	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	59	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						GACAGCTCTCGCGGCAGGAAC	0.612													13	25					0	0	1	0	0		A	19626062	A	A	19626062	4	1	55	1	0	0	0	0	0	1	0	0	16698	1095	38	1	650	1	TSSK6	19	19626062	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	256688	19626062	39502921	1462	40496											
PBX4	80714	broad.mit.edu	37	chr19	19681519	19681519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgttgctgtgccggccctgGccaccgctcctcctcttcct	1	12	10	18	2	1	0	0	0	1	0	4	0	4	0	7	2	2	3	7	2	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:19681519G>A	uc002nmy.2	-	3	318	c.317C>T	c.(316-318)GCC>GTC	p.A106V	PBX4_uc010xqz.1_RNA|PBX4_uc010xra.1_5'UTR	NM_025245	NP_079521	Q9BYU1	PBX4_HUMAN	pre-B-cell leukemia homeobox 4	106							sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2						GCCGGCCCTGGCCACCGCTCC	0.597													13	35					0	0	1	0	0		A	19681519	A	A	19681519	3	1	55	1	0	0	0	0	1	0	0	0	11514	1203	42	2	831	2	PBX4	19	19681519	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	55457	19681519	39447464	1463	40497											
ZNF737	100129842	broad.mit.edu	37	chr19	20727685	20727685	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtatgaattctcttatgtgTagtaaggatagagaagcact	14	13	10	4	0	1	2	0	1	1	1	2	4	1	3	0	1	1	4	0	1	7	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:20727685T>C	uc002npa.2	-	4	1504	c.1324A>G	c.(1324-1326)ACA>GCA	p.T442A		NM_001159293	NP_001152765	C9JHM3	C9JHM3_HUMAN	zinc finger protein 737	442					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						CTCTTATGTGTAGTAAGGATA	0.418													10	37					0	0	1	0	0		C	20727685	C	C	20727685	3	2	55	1	0	0	0	0	1	0	0	0	18151	1638	57	3	290	3	ZNF737	19	20727685	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1046166	20727685	38401298	1464	40498											
ZNF737	100129842	broad.mit.edu	37	chr19	20728103	20728103	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgctatgaattatcttatgCgcagtaaggatagaggagcg	12	10	12	7	3	1	2	0	1	1	1	1	4	1	4	1	2	2	3	1	2	6	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:20728103C>T	uc002npa.2	-	4	1086	c.906G>A	c.(904-906)GCG>GCA	p.A302A		NM_001159293	NP_001152765	C9JHM3	C9JHM3_HUMAN	zinc finger protein 737	302					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						TTATCTTATGCGCAGTAAGGA	0.403													12	27					0	0	1	0	0		T	20728103	T	T	20728103	2	4	55	1	0	0	0	0	0	0	0	1	18151	755	27	1		1	ZNF737	19	20728103	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	418	20728103	38400880	1465	40499											
ZNF430	80264	broad.mit.edu	37	chr19	21239589	21239589	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgagtgtaatctgcacAaagaatgttatgatgaacta	15	12	10	4	0	1	4	0	3	1	1	1	5	1	5	0	1	2	3	0	1	6	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:21239589A>G	uc002npj.2	+	5	585	c.475A>G	c.(475-477)AAA>GAA	p.K159E	ZNF430_uc002npk.2_Missense_Mutation_p.K158E	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	159					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						TAATCTGCACAAAGAATGTTA	0.313													8	29					0	0	1	0	0		G	21239589	G	G	21239589	3	3	55	1	0	0	0	0	1	0	0	0	17929	131	5	3	493	3	ZNF430	19	21239589	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	511486	21239589	37889394	1466	40500											
ZNF708	7562	broad.mit.edu	37	chr19	21476249	21476249	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagctttgccacattcttTacatttgtagggtttctctc	9	17	6	9	0	2	0	0	0	2	0	4	0	2	0	1	1	3	3	1	1	4	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:21476249T>C	uc002npq.1	-	4	1717	c.1519A>G	c.(1519-1521)AAA>GAA	p.K507E	ZNF708_uc002npr.1_Missense_Mutation_p.K443E|ZNF708_uc010ecs.1_Missense_Mutation_p.K443E	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	507	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						CCACATTCTTTACATTTGTAG	0.368													3	53					0	0	1	0	0		C	21476249	C	C	21476249	3	2	55	1	0	0	0	0	1	0	0	0	18137	1763	61	3	176	3	ZNF708	19	21476249	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	236660	21476249	37652734	1467	40501											
ZNF675	171392	broad.mit.edu	37	chr19	23836085	23836085	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atttttttatgtttagtaagGtttgcagattggttaaaagc	11	19	9	2	0	0	1	0	0	0	1	0	1	0	1	0	2	2	5	0	2	5	10			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:23836085G>A	uc002nri.2	-	4	1832	c.1650C>T	c.(1648-1650)AAC>AAT	p.N550N		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	550	C2H2-type 15.				bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				GTTTAGTAAGGTTTGCAGATT	0.318													3	42					0	0	1	0	0		A	23836085	A	A	23836085	2	1	55	1	0	0	0	0	0	0	0	1	18107	1252	44	4		4	ZNF675	19	23836085	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2359836	23836085	35292898	1468	40502											
ZNF536	9745	broad.mit.edu	37	chr19	31039638	31039638	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagataacaccatcggggtcAcagtcaactgcaaagaccaa	17	5	8	11	1	2	2	2	0	0	2	3	2	2	2	2	2	3	1	2	2	5	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:31039638A>G	uc002nsu.1	+	4	3250	c.3112A>G	c.(3112-3114)ACA>GCA	p.T1038A	ZNF536_uc010edd.1_Missense_Mutation_p.T1038A	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1038					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CATCGGGGTCACAGTCAACTG	0.537													11	45					0	0	1	0	0		G	31039638	G	G	31039638	3	3	55	1	0	0	0	0	1	0	0	0	17999	159	6	3	3122	3	ZNF536	19	31039638	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	7203553	31039638	28089345	1469	40503											
SLC7A10	56301	broad.mit.edu	37	chr19	33716477	33716477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgatgatgatggtgcaggCgctcagcagcccgatctcct	8	8	12	13	3	2	2	1	2	1	0	3	4	2	2	3	2	3	3	3	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:33716477C>T	uc002num.2	-	1	280	c.133G>A	c.(133-135)GCC>ACC	p.A45T	SLC7A10_uc010xrq.1_Missense_Mutation_p.R86H	NM_019849	NP_062823	Q9NS82	AAA1_HUMAN	solute carrier family 7, member 10	45	Helical; (Potential).				blood coagulation|cellular nitrogen compound metabolic process|ion transport|leukocyte migration	integral to plasma membrane	L-serine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(110;0.137)					ATGGTGCAGGCGCTCAGCAGC	0.751													9	15					0	0	1	0	0		T	33716477	T	T	33716477	3	4	55	1	0	0	0	0	1	0	0	0	14718	768	27	1	1482	1	SLC7A10	19	33716477	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2676839	33716477	25412506	1470	40504											
TMEM149	79713	broad.mit.edu	37	chr19	36230389	36230389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggcagcccatatcttGcggccaggtgtcgagtagtg	8	8	14	11	2	1	0	0	0	1	0	2	1	1	0	2	3	3	3	2	3	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:36230389G>A	uc002obc.2	-	5	961	c.860C>T	c.(859-861)GCA>GTA	p.A287V	TMEM149_uc002obb.2_Missense_Mutation_p.A99V|TMEM149_uc002obd.3_Missense_Mutation_p.A287V|TMEM149_uc010xsy.1_RNA|TMEM149_uc010eej.2_Missense_Mutation_p.A367V	NM_024660	NP_078936	Q9H665	IGFR1_HUMAN	transmembrane protein 149 precursor	287	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding|receptor activity				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCCATATCTTGCGGCCAGGTG	0.627													13	37					0	0	1	0	0		A	36230389	A	A	36230389	3	1	55	1	0	0	0	0	1	0	0	0	16087	1319	46	2	211	2	TMEM149	19	36230389	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2513912	36230389	22898594	1471	40505											
CLIP3	25999	broad.mit.edu	37	chr19	36515513	36515513	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggatctgggaccacctccgCcggcacctgtccttttcgat	6	10	10	15	3	1	0	0	0	1	0	4	3	3	2	6	3	0	1	6	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:36515513C>A	uc010eeq.1	-	6	985	c.703G>T	c.(703-705)GCG>TCG	p.A235S	uc002ocy.2_Intron|CLIP3_uc002ocz.1_Missense_Mutation_p.A235S	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	235					chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			ACCACCTCCGCCGGCACCTGT	0.622													4	28					0.00024832	0.000256671	1	1	0		A	36515513	A	A	36515513	3	1	55	1	0	0	0	0	1	0	0	0	3537	739	26	5	972	5	CLIP3	19	36515513	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	285124	36515513	22613470	1472	40506											
CLIP3	25999	broad.mit.edu	37	chr19	36518142	36518142	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaacaggatctcctggcaCgccgggtcattgggatcgaa	10	8	12	11	3	3	0	2	0	1	0	5	3	3	2	2	4	1	1	2	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:36518142C>T	uc010eeq.1	-	2	480	c.198G>A	c.(196-198)GCG>GCA	p.A66A	uc002ocy.2_Intron|CLIP3_uc002ocz.1_Silent_p.A66A	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	66					chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TCTCCTGGCACGCCGGGTCAT	0.602													15	37					0	0	1	0	0		T	36518142	T	T	36518142	2	4	55	1	0	0	0	0	0	0	0	1	3537	523	19	1		1	CLIP3	19	36518142	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2629	36518142	22610841	1473	40507											
WDR62	284403	broad.mit.edu	37	chr19	36594454	36594454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacagtgagggccctatcGtggccacactggcccagccc	7	6	13	15	1	0	2	0	2	0	0	1	2	0	2	4	3	1	0	4	3	1	1	rs143493857	by1000genomes	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:36594454G>A	uc002odc.2	+	30	3800	c.3709G>A	c.(3709-3711)GTG>ATG	p.V1237M	WDR62_uc002odd.2_Missense_Mutation_p.V1242M	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	1237					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GGGCCCTATCGTGGCCACACT	0.652													5	30					0	0	1	0	0		A	36594454	A	A	36594454	3	1	55	1	0	0	0	0	1	0	0	0	17339	1145	40	1	3842	1	WDR62	19	36594454	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	76312	36594454	22534529	1474	40508											
ZNF565	147929	broad.mit.edu	37	chr19	36673976	36673976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcccctgtgtggattctccGatgcacagtgagttgggagc	6	10	15	10	1	1	1	0	1	1	0	2	4	1	3	3	3	2	2	3	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:36673976G>A	uc002odn.2	-	5	1000	c.892C>T	c.(892-894)CGG>TGG	p.R298W	ZNF565_uc010ees.2_Missense_Mutation_p.R233W|ZNF565_uc002odo.2_Missense_Mutation_p.R298W	NM_152477	NP_689690	Q8N9K5	ZN565_HUMAN	zinc finger protein 565	298	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.206)			TGGATTCTCCGATGCACAGTG	0.507													21	49					0	0	1	0	0		A	36673976	A	A	36673976	3	1	55	1	0	0	0	0	1	0	0	0	18021	1057	37	1	611	1	ZNF565	19	36673976	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	79522	36673976	22455007	1475	40509											
ZNF146	7705	broad.mit.edu	37	chr19	36727929	36727929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaaaagccttctctcagcGaacatcacttattgtacatg	12	12	7	10	1	3	0	2	0	1	0	4	2	3	1	1	1	4	1	1	1	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:36727929G>A	uc002odq.3	+	4	2110	c.587G>A	c.(586-588)CGA>CAA	p.R196Q	ZNF146_uc010eet.2_Missense_Mutation_p.R196Q|ZNF146_uc010eeu.2_Missense_Mutation_p.R196Q	NM_007145	NP_009076	Q15072	OZF_HUMAN	zinc finger protein 146	196	C2H2-type 7.				regulation of transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|heparin binding|zinc ion binding				0	Esophageal squamous(110;0.162)					TTCTCTCAGCGAACATCACTT	0.418													27	70					0	0	1	0	0		A	36727929	A	A	36727929	3	1	55	1	0	0	0	0	1	0	0	0	17758	1058	37	1	589	1	ZNF146	19	36727929	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	53953	36727929	22401054	1476	40510											
GGN	199720	broad.mit.edu	37	chr19	38876327	38876327	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaacccttgttcctgcgCgtgcgggtcttgatgggcgc	3	10	16	12	5	1	1	0	1	1	0	2	2	2	2	2	3	3	1	2	3	1	3	rs17853364		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:38876327C>T	uc002oij.1	-	3	1710	c.1575G>A	c.(1573-1575)ACG>ACA	p.T525T	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Silent_p.T442T	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	525	Interactions with ZNF403/GGNBP2 and OAZ3 (By similarity).				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TGTTCCTGCGCGTGCGGGTCT	0.363													16	20					0	0	1	0	0		T	38876327	T	T	38876327	2	4	55	1	0	0	0	0	0	0	0	1	6373	755	27	1		1	GGN	19	38876327	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2148398	38876327	20252656	1477	40511											
RYR1	6261	broad.mit.edu	37	chr19	38934390	38934390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcaccacctcccgctccatGactgacaagctggccttcga	8	8	7	18	2	1	2	1	2	0	0	4	3	3	2	5	1	1	2	5	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:38934390G>A	uc002oit.2	+	5	508	c.378G>A	c.(376-378)ATG>ATA	p.M126I	RYR1_uc002oiu.2_Missense_Mutation_p.M126I	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	126	Cytoplasmic.|MIR 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CCCGCTCCATGACTGACAAGC	0.647													29	83					0	0	1	0	0		A	38934390	A	A	38934390	3	1	55	1	0	0	0	0	1	0	0	0	13793	1290	45	4	396	4	RYR1	19	38934390	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	58063	38934390	20194593	1478	40512											
RYR1	6261	broad.mit.edu	37	chr19	39013867	39013867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaccagaacttcaagcGcgaggagcagaactttgtgg	11	6	11	13	2	1	2	1	0	0	2	1	4	1	3	3	2	4	1	3	2	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:39013867G>A	uc002oit.2	+	69	10488	c.10358G>A	c.(10357-10359)CGC>CAC	p.R3453H	RYR1_uc002oiu.2_Missense_Mutation_p.R3453H|RYR1_uc002oiv.1_Missense_Mutation_p.R373H|RYR1_uc010xuf.1_Missense_Mutation_p.R373H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3453					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AACTTCAAGCGCGAGGAGCAG	0.577													49	112					0	0	1	0	0		A	39013867	A	A	39013867	3	1	55	1	0	0	0	0	1	0	0	0	13793	1087	38	1	10632	1	RYR1	19	39013867	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	79477	39013867	20115116	1479	40513											
HNRNPL	3191	broad.mit.edu	37	chr19	39336661	39336661	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggctgcgtagttcactgcGttgcaagcccccaacacatc	8	9	9	15	3	1	0	1	0	0	0	3	0	1	0	2	1	5	5	2	1	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:39336661G>A	uc010xul.1	-	3	467	c.456C>T	c.(454-456)AAC>AAT	p.N152N	HNRNPL_uc010xum.1_Silent_p.N19N|HNRNPL_uc010xun.1_5'Flank	NM_001533	NP_001524	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	152	RRM 1.				nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			AGTTCACTGCGTTGCAAGCCC	0.507													26	63					0	0	1	0	0		A	39336661	A	A	39336661	2	1	55	1	0	0	0	0	0	0	0	1	7286	1136	40	1		1	HNRNPL	19	39336661	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	322794	39336661	19792322	1480	40514											
NFKBIB	4793	broad.mit.edu	37	chr19	39399408	39399408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggttcacagcagccgcaGccaaacccggctgcctccca	8	6	10	17	2	1	0	1	0	0	0	2	0	2	0	5	2	5	4	5	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:39399408G>A	uc002ojw.2	+	6	1065	c.1007G>A	c.(1006-1008)AGC>AAC	p.S336N	NFKBIB_uc002ojx.2_3'UTR|NFKBIB_uc002ojy.2_3'UTR	NM_002503	NP_002494	Q15653	IKBB_HUMAN	nuclear factor of kappa light polypeptide gene	336					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription, DNA-dependent	cytosol|nucleus	protein binding|signal transducer activity|transcription coactivator activity			lung(1)|kidney(1)	2	all_cancers(60;4.39e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			AGCAGCCGCAGCCAAACCCGG	0.552													50	87					0	0	1	0	0		A	39399408	A	A	39399408	3	1	55	1	0	0	0	0	1	0	0	0	10397	971	34	2	1077	2	NFKBIB	19	39399408	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	62747	39399408	19729575	1481	40515											
SARS2	54938	broad.mit.edu	37	chr19	39406730	39406730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggaacatgatgtggaggcGgcggctctggaagtctgtgc	7	9	17	8	2	2	1	0	1	2	0	2	4	2	4	0	6	2	1	0	6	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:39406730G>A	uc002oka.2	-	14	1454	c.1294C>T	c.(1294-1296)CGC>TGC	p.R432C	SARS2_uc002ojz.2_Missense_Mutation_p.R242C|SARS2_uc010xup.1_Missense_Mutation_p.R434C|SARS2_uc002okb.2_Missense_Mutation_p.R432C|SARS2_uc010xuq.1_Missense_Mutation_p.R432C	NM_017827	NP_060297	Q9NP81	SYSM_HUMAN	seryl-tRNA synthetase 2 isoform b precursor	432					seryl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|serine-tRNA ligase activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(60;2.74e-06)|all_epithelial(25;4.36e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			ATGTGGAGGCGGCGGCTCTGG	0.687													10	27					0	0	1	0	0		A	39406730	A	A	39406730	3	1	55	1	0	0	0	0	1	0	0	0	13870	1116	39	1	274	1	SARS2	19	39406730	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	7322	39406730	19722253	1482	40516											
SARS2	54938	broad.mit.edu	37	chr19	39412274	39412274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagctccttccggatctcccGgccacgtgcccgcagaccct	6	7	9	19	4	1	1	0	0	1	1	4	2	3	2	6	2	2	2	6	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:39412274G>A	uc002oka.2	-	4	587	c.427C>T	c.(427-429)CGG>TGG	p.R143W	SARS2_uc002ojz.2_Intron|SARS2_uc010xup.1_Intron|SARS2_uc002okb.2_Missense_Mutation_p.R143W|SARS2_uc010xuq.1_Missense_Mutation_p.R143W|SARS2_uc010xur.1_RNA	NM_017827	NP_060297	Q9NP81	SYSM_HUMAN	seryl-tRNA synthetase 2 isoform b precursor	143					seryl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|serine-tRNA ligase activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(60;2.74e-06)|all_epithelial(25;4.36e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			CGGATCTCCCGGCCACGTGCC	0.652													10	25					0	0	1	0	0		A	39412274	A	A	39412274	3	1	55	1	0	0	0	0	1	0	0	0	13870	1115	39	1	1181	1	SARS2	19	39412274	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5544	39412274	19716709	1483	40517											
LRFN1	57622	broad.mit.edu	37	chr19	39804758	39804758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggcgatgtcagaggagcCgggctcggtgagaggcggcg	6	5	21	9	6	1	2	1	1	0	2	2	5	1	3	1	6	1	1	1	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:39804758C>T	uc002okw.2	-	1	1219	c.1219G>A	c.(1219-1221)GGC>AGC	p.G407S		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	407	Extracellular (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane		p.Q407R(1)		ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			TCAGAGGAGCCGGGCTCGGTG	0.697													5	13					0	0	1	0	0		T	39804758	T	T	39804758	3	4	55	1	0	0	0	0	1	0	0	0	8955	652	23	1	1104	1	LRFN1	19	39804758	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	392484	39804758	19324225	1484	40518											
FBL	2091	broad.mit.edu	37	chr19	40331273	40331273	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccacctcttcctcctccTccaccgccgccgccgcctcc	3	9	4	25	4	1	0	0	0	1	0	6	0	6	0	12	0	1	0	12	0	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:40331273T>A	uc002omn.2	-	2	279	c.165A>T	c.(163-165)GGA>GGT	p.G55G	FBL_uc002omm.1_5'Flank|FBL_uc002omo.2_Silent_p.G55G|FBL_uc010egr.2_Silent_p.G55G	NM_001436	NP_001427	P22087	FBRL_HUMAN	fibrillarin	55	DMA/Gly-rich.				rRNA processing|tRNA processing	box C/D snoRNP complex|Cajal body	methyltransferase activity|protein binding|RNA binding			ovary(1)	1	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)	Renal(1328;0.000518)|Hepatocellular(1079;0.0893)	Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)	GBM - Glioblastoma multiforme(1328;0.000826)|STAD - Stomach adenocarcinoma(1328;0.138)		ttcctcctcctccaccgccgc	0.468													6	18					0	0	1	0	0		A	40331273	A	A	40331273	2	1	55	1	0	0	0	0	0	0	0	1	5710	1538	54	5		5	FBL	19	40331273	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	526515	40331273	18797710	1485	40519											
CNFN	84518	broad.mit.edu	37	chr19	42893100	42893100	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggcatgtcgttgcagcaGtccgtgagacctgtgtgcca	8	9	13	11	2	0	1	0	1	0	1	2	2	1	1	3	1	3	4	3	1	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:42893100G>A	uc002otp.3	-	2	145	c.90C>T	c.(88-90)GAC>GAT	p.D30D	CNFN_uc002otq.3_Silent_p.D43D	NM_032488	NP_115877	Q9BYD5	CNFN_HUMAN	cornifelin	30					keratinization	cornified envelope|cytoplasm					0		Prostate(69;0.00899)				CGTTGCAGCAGTCCGTGAGAC	0.617													22	38					0	0	1	0	0		A	42893100	A	A	42893100	2	1	55	1	0	0	0	0	0	0	0	1	3598	1020	36	4		4	CNFN	19	42893100	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2561827	42893100	16235883	1486	40520											
CADM4	199731	broad.mit.edu	37	chr19	44130372	44130372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gataccaccgtcgtccttacGgtccacacgaaaccgtactg	10	8	8	15	5	0	0	0	0	0	0	3	2	2	0	5	1	4	1	5	1	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:44130372G>A	uc002oxc.1	-	5	617	c.568C>T	c.(568-570)CGT>TGT	p.R190C		NM_145296	NP_660339	Q8NFZ8	CADM4_HUMAN	cell adhesion molecule 4 precursor	190	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion	integral to membrane					0		Prostate(69;0.0199)				TCGTCCTTACGGTCCACACGA	0.592													10	33					0	0	1	0	0		A	44130372	A	A	44130372	3	1	55	1	0	0	0	0	1	0	0	0	2572	1116	39	1	618	1	CADM4	19	44130372	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1237272	44130372	14998611	1487	40521											
ZNF155	7711	broad.mit.edu	37	chr19	44500737	44500737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtgggaaaggtttcagtcGtagatcagcacttaatgttc	11	13	11	6	1	2	1	2	0	0	1	4	2	2	2	0	2	1	4	0	2	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:44500737G>A	uc002oxy.1	+	5	933	c.728G>A	c.(727-729)CGT>CAT	p.R243H	ZNF155_uc002oxz.1_Missense_Mutation_p.R243H|ZNF155_uc010xwt.1_Missense_Mutation_p.R254H	NM_003445	NP_003436	Q12901	ZN155_HUMAN	zinc finger protein 155	243	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)	2		Prostate(69;0.0352)				GGTTTCAGTCGTAGATCAGCA	0.428													51	83					0	0	1	0	0		A	44500737	A	A	44500737	3	1	55	1	0	0	0	0	1	0	0	0	17761	1145	40	1	742	1	ZNF155	19	44500737	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	370365	44500737	14628246	1488	40522											
ZNF225	7768	broad.mit.edu	37	chr19	44636092	44636092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctacaaaaggaggttggAtcttgactttcatcagaggg	11	10	14	6	0	3	2	2	1	1	1	3	4	3	4	0	5	1	2	0	5	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:44636092A>G	uc002oyj.1	+	5	1568	c.1325A>G	c.(1324-1326)GAT>GGT	p.D442G	ZNF225_uc010eje.1_Missense_Mutation_p.D359G|ZNF225_uc010ejf.1_Missense_Mutation_p.D442G	NM_013362	NP_037494	Q9UK10	ZN225_HUMAN	zinc finger protein 225	442	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				AGGAGGTTGGATCTTGACTTT	0.448													5	69					0	0	1	0	0		G	44636092	G	G	44636092	3	3	55	1	0	0	0	0	1	0	0	0	17804	333	12	3	1339	3	ZNF225	19	44636092	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	135355	44636092	14492891	1489	40523											
APOC4	346	broad.mit.edu	37	chr19	45448482	45448482	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcaccaaggcctggttcCtcgaatccaaagacagcctc	10	7	8	16	2	1	1	1	0	0	1	5	2	3	1	5	2	1	2	5	2	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:45448482C>A	uc002pag.1	+	3	344	c.304C>A	c.(304-306)CTC>ATC	p.L102I	APOC2_uc002pah.2_5'Flank	NM_001646	NP_001637	P55056	APOC4_HUMAN	apolipoprotein C-IV precursor	102					lipid metabolic process|positive regulation of sequestering of triglyceride|triglyceride homeostasis	high-density lipoprotein particle|very-low-density lipoprotein particle	lipid transporter activity			breast(1)	1	Lung NSC(12;0.00858)|all_lung(12;0.0197)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00334)|Epithelial(262;0.178)		GGCCTGGTTCCTCGAATCCAA	0.542													11	247					1.5739e-10	1.70109e-10	1	1	0		A	45448482	A	A	45448482	3	1	55	1	0	0	0	0	1	0	0	0	800	681	24	5	314	5	APOC4	19	45448482	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	812390	45448482	13680501	1490	40524											
MARK4	57787	broad.mit.edu	37	chr19	45766584	45766584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggccacgcccagctgttccGagaagtccgcatcatgaagg	9	7	12	13	3	1	2	1	1	0	1	3	3	3	2	4	2	1	3	4	2	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:45766584G>A	uc002pbb.1	+	4	319	c.314G>A	c.(313-315)CGA>CAA	p.R105Q	MARK4_uc002paz.1_Intron|MARK4_uc002pba.1_Missense_Mutation_p.R105Q|MARK4_uc002pbc.1_5'Flank			Q96L34	MARK4_HUMAN	RecName: Full=MAP/microtubule affinity-regulating kinase 4;          EC=2.7.11.1; AltName: Full=MAP/microtubule affinity-regulating kinase-like 1;	105	Protein kinase.				microtubule bundle formation|nervous system development|positive regulation of programmed cell death	centrosome|neuron projection	ATP binding|gamma-tubulin binding|microtubule binding|protein serine/threonine kinase activity|tau-protein kinase activity|ubiquitin binding			central_nervous_system(2)|large_intestine(1)	3		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CAGCTGTTCCGAGAAGTCCGC	0.587													14	68					0	0	1	0	0		A	45766584	A	A	45766584	3	1	55	1	0	0	0	0	1	0	0	0	9333	1058	37	1	328	1	MARK4	19	45766584	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	318102	45766584	13362399	1491	40525											
RSPH6A	81492	broad.mit.edu	37	chr19	46308106	46308106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcggccaccaggtagctgcGtttgattcccaggatcttgc	6	11	11	13	2	1	1	0	1	1	0	3	2	2	2	3	3	3	3	3	3	1	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:46308106G>A	uc002pdm.2	-	3	1200	c.1057C>T	c.(1057-1059)CGC>TGC	p.R353C	RSPH6A_uc002pdl.2_Missense_Mutation_p.R89C	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	353						intracellular				ovary(1)|central_nervous_system(1)	2						AGGTAGCTGCGTTTGATTCCC	0.453													11	38					0	0	1	0	0		A	46308106	A	A	46308106	3	1	55	1	0	0	0	0	1	0	0	0	13732	1145	40	1	1112	1	RSPH6A	19	46308106	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	541522	46308106	12820877	1492	40526											
HIF3A	64344	broad.mit.edu	37	chr19	46815873	46815873	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcagggggacggggccccCagtcggagagtatcgtctgt	6	8	17	10	3	2	1	1	0	1	1	4	3	2	2	2	5	0	1	2	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:46815873C>A	uc002peh.2	+	8	1017	c.988C>A	c.(988-990)CAG>AAG	p.Q330K	HIF3A_uc002pef.1_3'UTR|HIF3A_uc002peg.3_Missense_Mutation_p.Q330K|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_Missense_Mutation_p.Q274K|HIF3A_uc002pej.1_Missense_Mutation_p.Q261K|HIF3A_uc002pek.2_Missense_Mutation_p.Q274K|HIF3A_uc010xxy.1_Missense_Mutation_p.Q261K|HIF3A_uc002pel.2_Missense_Mutation_p.Q328K|HIF3A_uc010xxz.1_Missense_Mutation_p.Q279K	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	330					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		ACGGGGCCCCCAGTCGGAGAG	0.607													27	82					2.05212e-20	2.27984e-20	1	1	0		A	46815873	A	A	46815873	3	1	55	1	0	0	0	0	1	0	0	0	7121	595	21	5	1042	5	HIF3A	19	46815873	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	507767	46815873	12313110	1493	40527											
HIF3A	64344	broad.mit.edu	37	chr19	46832648	46832648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagccctccctgctaccccGctgggggagtgacccccggc	4	6	13	18	2	0	2	0	2	0	0	1	3	1	3	6	3	3	2	6	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:46832648G>A	uc002peh.2	+	12	1654	c.1625G>A	c.(1624-1626)CGC>CAC	p.R542H	HIF3A_uc002peg.3_Missense_Mutation_p.R542H|HIF3A_uc002pei.3_Missense_Mutation_p.R486H|HIF3A_uc002pej.1_Intron|HIF3A_uc002pek.2_Missense_Mutation_p.R486H|HIF3A_uc010xxy.1_Missense_Mutation_p.R473H|HIF3A_uc002pel.2_Missense_Mutation_p.R540H|HIF3A_uc010xxz.1_Missense_Mutation_p.R491H	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	542	ODD.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		CTGCTACCCCGCTGGGGGAGT	0.692													6	18					0	0	1	0	0		A	46832648	A	A	46832648	3	1	55	1	0	0	0	0	1	0	0	0	7121	1087	38	1	1695	1	HIF3A	19	46832648	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	16775	46832648	12296335	1494	40528											
STRN4	29888	broad.mit.edu	37	chr19	47236446	47236446	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagggaacggacgcgcttgGaccgcatgtcgaggatggtg	8	6	18	9	5	0	0	0	0	0	0	1	5	0	4	1	5	1	3	1	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:47236446G>T	uc002pfl.2	-	5	620	c.587C>A	c.(586-588)TCC>TAC	p.S196Y	STRN4_uc002pfm.2_Missense_Mutation_p.S196Y|STRN4_uc010xyf.1_RNA|STRN4_uc010xyg.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	196						cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)		GACGCGCTTGGACCGCATGTC	0.652													8	25					1.58986e-06	1.68101e-06	1	1	0		T	47236446	T	T	47236446	3	4	55	1	0	0	0	0	1	0	0	0	15356	1174	41	5	1747	5	STRN4	19	47236446	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	403798	47236446	11892537	1495	40529											
CARD8	22900	broad.mit.edu	37	chr19	48722193	48722193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagtaatctcaagttgaatgGgttccttcatctgcccagca	10	12	8	11	0	3	1	2	1	2	0	5	1	4	1	2	1	2	4	2	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:48722193G>A	uc002pie.3	-	8	1233	c.920C>T	c.(919-921)CCC>CTC	p.P307L	CARD8_uc002pii.3_Intron|CARD8_uc002pid.1_RNA|CARD8_uc010xzi.1_Missense_Mutation_p.P308L|CARD8_uc010els.2_Intron|CARD8_uc010xzj.1_Missense_Mutation_p.P413L|CARD8_uc010xzk.1_Missense_Mutation_p.P332L|CARD8_uc002pif.3_Intron|CARD8_uc002pig.3_Missense_Mutation_p.P138L|CARD8_uc002pih.3_Missense_Mutation_p.P363L|CARD8_uc010xzl.1_Missense_Mutation_p.P363L|CARD8_uc010xzm.1_Intron	NM_014959	NP_055774	Q9Y2G2	CARD8_HUMAN	caspase recruitment domain family, member 8	307					negative regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion	cytoplasm|nucleus	caspase activator activity|NACHT domain binding|protein homodimerization activity				0		all_lung(116;0.000112)|Lung NSC(112;0.000192)|all_epithelial(76;0.000349)|all_neural(266;0.0228)|Ovarian(192;0.113)|Prostate(7;0.184)		OV - Ovarian serous cystadenocarcinoma(262;0.000112)|all cancers(93;0.000293)|Epithelial(262;0.0129)|GBM - Glioblastoma multiforme(486;0.0336)		AAGTTGAATGGGTTCCTTCAT	0.458													32	47					0	0	1	0	0		A	48722193	A	A	48722193	3	1	55	1	0	0	0	0	1	0	0	0	2654	1232	43	4	387	4	CARD8	19	48722193	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1485747	48722193	10406790	1496	40530											
SPACA4	171169	broad.mit.edu	37	chr19	49110288	49110288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctgcccccaggcacgaCgggcgtcaaggactgcgtct	6	6	14	15	4	3	0	1	0	2	0	3	2	3	1	2	4	2	2	2	4	1	0	rs147138042		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:49110288C>T	uc002pjo.2	+	1	289	c.53C>T	c.(52-54)ACG>ATG	p.T18M	FAM83E_uc002pjn.2_Intron	NM_133498	NP_598005	Q8TDM5	SACA4_HUMAN	sperm acrosomal membrane protein 14 precursor	18					cell adhesion	acrosomal vesicle|anchored to membrane|plasma membrane				central_nervous_system(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;9.98e-05)|all cancers(93;0.000112)|GBM - Glioblastoma multiforme(486;0.00615)|Epithelial(262;0.0155)		CCAGGCACGACGGGCGTCAAG	0.652													21	66					0	0	1	0	0		T	49110288	T	T	49110288	3	4	55	1	0	0	0	0	1	0	0	0	14999	536	19	1	55	1	SPACA4	19	49110288	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	388095	49110288	10018695	1497	40531											
TRPM4	54795	broad.mit.edu	37	chr19	49692270	49692270	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctcctccgtcgctgcccGctctggggggatgccacttg	2	10	12	17	3	1	0	0	0	1	0	5	1	4	1	5	3	2	2	5	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:49692270G>A	uc002pmw.2	+	14	2013	c.1941G>A	c.(1939-1941)CCG>CCA	p.P647P	TRPM4_uc010emu.2_Silent_p.P647P|TRPM4_uc010yak.1_Silent_p.P111P|TRPM4_uc002pmx.2_Silent_p.P473P|TRPM4_uc010emv.2_Silent_p.P532P|TRPM4_uc010yal.1_Silent_p.P293P|TRPM4_uc002pmy.2_5'UTR	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	647	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		GTCGCTGCCCGCTCTGGGGGG	0.617													26	75					0	0	1	0	0		A	49692270	A	A	49692270	2	1	55	1	0	0	0	0	0	0	0	1	16614	1074	38	1		1	TRPM4	19	49692270	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	581982	49692270	9436713	1498	40532											
PIH1D1	55011	broad.mit.edu	37	chr19	49950717	49950717	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggccggttcttcatcatGcgccattctgagggtcagga	8	11	12	10	2	5	1	3	1	2	0	5	2	5	2	2	4	1	1	2	4	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:49950717G>A	uc002pns.2	-	6	773	c.489C>T	c.(487-489)CGC>CGT	p.R163R		NM_017916	NP_060386	Q9NWS0	PIHD1_HUMAN	NOP17	163					box C/D snoRNP assembly	pre-snoRNP complex					0		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00152)|GBM - Glioblastoma multiforme(486;0.0244)		TCTTCATCATGCGCCATTCTG	0.627													18	46					0	0	1	0	0		A	49950717	A	A	49950717	2	1	55	1	0	0	0	0	0	0	0	1	11925	1306	46	2		2	PIH1D1	19	49950717	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	258447	49950717	9178266	1499	40533											
ALDH16A1	126133	broad.mit.edu	37	chr19	49971689	49971689	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgggagccgctgggtgtgCtggctgtggtgtgtccggac	2	10	20	9	3	0	0	0	0	0	0	1	2	1	2	2	5	3	3	2	5	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:49971689C>T	uc002pnt.2	+	15	2106	c.1990C>T	c.(1990-1992)CTG>TTG	p.L664L	ALDH16A1_uc010yar.1_Silent_p.L613L|ALDH16A1_uc010yas.1_Silent_p.L499L|ALDH16A1_uc010yat.1_Silent_p.L501L	NM_153329	NP_699160	Q8IZ83	A16A1_HUMAN	aldehyde dehydrogenase 16 family, member A1	664							oxidoreductase activity|protein binding			skin(1)	1		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00156)|GBM - Glioblastoma multiforme(486;0.0251)		GCTGGGTGTGCTGGCTGTGGT	0.662													47	108					0	0	1	0	0		T	49971689	T	T	49971689	2	4	55	1	0	0	0	0	0	0	0	1	488	796	28	2		2	ALDH16A1	19	49971689	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	20972	49971689	9157294	1500	40534											
PRR12	57479	broad.mit.edu	37	chr19	50101061	50101061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcccccggcgccgtggcCgcaagcccacgaaggcgaaa	9	2	14	16	6	0	0	0	0	0	0	0	2	0	0	5	4	1	1	5	4	3	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:50101061C>T	uc002poo.3	+	4	3469	c.3469C>T	c.(3469-3471)CGC>TGC	p.R1157C		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	336	Pro-rich.						DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		GCGCCGTGGCCGCAAGCCCAC	0.756													7	6					0	0	1	0	0		T	50101061	T	T	50101061	3	4	55	1	0	0	0	0	1	0	0	0	12606	652	23	1	3483	1	PRR12	19	50101061	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	129372	50101061	9027922	1501	40535											
SIGLEC11	114132	broad.mit.edu	37	chr19	50463680	50463680	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggcttcttagtcagggcTgggacagagaccgggtggga	8	8	17	8	1	3	1	2	0	1	1	3	4	3	3	1	5	0	2	1	5	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:50463680T>C	uc010ybh.1	-	3	552	c.461_splice	c.e3-1	p.A154_splice	SIGLEC11_uc010ybi.1_Splice_Site_p.A154_splice	NM_052884	NP_443116	Q96RL6	SIG11_HUMAN	sialic acid binding Ig-like lectin 11 isoform 1						cell adhesion	integral to membrane	sugar binding			ovary(3)|central_nervous_system(2)|pancreas(1)	6		all_lung(116;0.00318)|all_neural(266;0.107)|Ovarian(192;0.17)		GBM - Glioblastoma multiforme(134;0.00107)|OV - Ovarian serous cystadenocarcinoma(262;0.00517)		TAGTCAGGGCTGGGACAGAGA	0.602													29	17					0	0	1	0	0		C	50463680	C	C	50463680	5	2	55	1	0	0	0	0	0	0	1	0	14332	1594	55	3	1673	3	SIGLEC11	19	50463680	Splice_Site	SNP	T	TCGA-BR-7851-01A-11D-2201-08	362619	50463680	8665303	1502	40536											
SPIB	6689	broad.mit.edu	37	chr19	50926138	50926138	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccaccccctatgaagccttCgacccggcagcagccgcttt	7	7	9	18	3	0	1	0	1	0	0	1	2	0	1	6	1	3	3	6	1	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:50926138C>T	uc002psd.2	+	4	208	c.183C>T	c.(181-183)TTC>TTT	p.F61F	SPIB_uc002pse.2_Silent_p.F61F|SPIB_uc010ycc.1_Intron	NM_003121	NP_003112	Q01892	SPIB_HUMAN	Spi-B transcription factor (Spi-1/PU.1 related)	61	TAD2.				regulation of transcription from RNA polymerase II promoter	cytoplasm|microtubule cytoskeleton|nucleus	sequence-specific DNA binding			lung(1)|kidney(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		ATGAAGCCTTCGACCCGGCAG	0.662													41	63					0	0	1	0	0		T	50926138	T	T	50926138	2	4	55	1	0	0	0	0	0	0	0	1	15075	883	31	1		1	SPIB	19	50926138	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	462458	50926138	8202845	1503	40537											
KLK8	11202	broad.mit.edu	37	chr19	51503785	51503785	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctgccaaggctgcgaaTggggttggcactcatgaccc	7	7	13	14	2	1	1	1	1	0	0	1	2	1	1	4	4	2	3	4	4	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:51503785T>C	uc002pur.1	-	3	304	c.125A>G	c.(124-126)CAT>CGT	p.H42R	KLK9_uc002puw.1_RNA|KLK8_uc002puq.1_Missense_Mutation_p.H87R|KLK8_uc002pus.1_Intron|KLK8_uc002put.1_Intron|KLK8_uc002puu.1_Missense_Mutation_p.H42R|KLK9_uc002puv.1_Intron	NM_007196	NP_009127	O60259	KLK8_HUMAN	kallikrein 8 isoform 1 preproprotein	42	Peptidase S1.				cell death|keratinocyte proliferation|memory|negative regulation of axon regeneration|negative regulation of myelination|neuron projection morphogenesis|proteolysis|regulation of synapse organization|response to wounding	cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(1)	1		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.0033)|GBM - Glioblastoma multiforme(134;0.00888)		AGGCTGCGAATGGGGTTGGCA	0.622													19	47					0	0	1	0	0		C	51503785	C	C	51503785	3	2	55	1	0	0	0	0	1	0	0	0	8426	1464	51	3	673	3	KLK8	19	51503785	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	577647	51503785	7625198	1504	40538											
CD33	945	broad.mit.edu	37	chr19	51728701	51728701	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaggaggagactcagggcAgattccgcctccttggggat	9	8	14	10	1	1	2	1	0	0	2	3	5	3	4	3	5	1	1	3	5	1	3	rs144752621		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:51728701A>T	uc002pwa.2	+	2	305	c.265A>T	c.(265-267)AGA>TGA	p.R89*	CD33_uc010eos.1_Nonsense_Mutation_p.R89*|CD33_uc010eot.1_Intron|CD33_uc010eou.1_5'Flank	NM_001772	NP_001763	P20138	CD33_HUMAN	CD33 antigen isoform 1 precursor	89	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell-cell signaling|negative regulation of cell proliferation	external side of plasma membrane|integral to plasma membrane	receptor activity|sugar binding				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	GACTCAGGGCAGATTCCGCCT	0.522													3	70					0	0	1	0	0		T	51728701	T	T	51728701	4	4	55	1	0	0	0	0	0	1	0	0	3008	180	7	5	271	5	CD33	19	51728701	Nonsense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	224916	51728701	7400282	1505	40539											
ZNF528	84436	broad.mit.edu	37	chr19	52918821	52918821	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaatgcatactggagagaAgccttacaaatgtcatgaat	17	9	9	6	0	1	3	1	1	0	2	1	5	1	4	1	1	4	1	1	1	7	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:52918821A>T	uc002pzh.2	+	7	1142	c.716A>T	c.(715-717)AAG>ATG	p.K239M	ZNF528_uc002pzi.2_Missense_Mutation_p.K6M	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	239					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		ACTGGAGAGAAGCCTTACAAA	0.388													7	34					0	0	1	0	0		T	52918821	T	T	52918821	3	4	55	1	0	0	0	0	1	0	0	0	17994	72	3	5	730	5	ZNF528	19	52918821	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	1190120	52918821	6210162	1506	40540											
MYADM	91663	broad.mit.edu	37	chr19	54377015	54377015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtgcttctgcttctccGtgaccctgatcatcctcatc	4	14	7	16	1	4	2	2	2	2	0	7	2	5	2	4	1	2	2	4	1	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:54377015G>A	uc002qcl.2	+	3	380	c.232G>A	c.(232-234)GTG>ATG	p.V78M	MYADM_uc002qcm.2_Missense_Mutation_p.V78M|MYADM_uc002qcn.2_Missense_Mutation_p.V78M|MYADM_uc002qco.2_Missense_Mutation_p.V78M|MYADM_uc002qcp.2_Missense_Mutation_p.V78M	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	78	MARVEL 1.|Helical; (Potential).			Missing (in Ref. 4; BAC04265).		integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		CTGCTTCTCCGTGACCCTGAT	0.642											OREG0003650	type=REGULATORY REGION|Gene=MYADM|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	17	51					0	0	1	0	0		A	54377015	A	A	54377015	3	1	55	1	0	0	0	0	1	0	0	0	10024	1145	40	1	234	1	MYADM	19	54377015	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1458194	54377015	4751968	1507	40541											
PRKCG	5582	broad.mit.edu	37	chr19	54394974	54394974	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaccccaatggtctctcTgatccctatgtgaaactgaa	11	11	8	11	0	2	3	0	3	2	0	4	4	3	4	3	2	1	0	3	2	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:54394974T>C	uc002qcq.1	+	6	858	c.576T>C	c.(574-576)TCT>TCC	p.S192S	PRKCG_uc010eqz.1_Silent_p.S192S|PRKCG_uc010yef.1_Silent_p.S192S|PRKCG_uc010yeg.1_Silent_p.S192S|PRKCG_uc010yeh.1_Silent_p.S79S	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	192	C2.				activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		ATGGTCTCTCTGATCCCTATG	0.537													35	72					0	0	1	0	0		C	54394974	C	C	54394974	2	2	55	1	0	0	0	0	0	0	0	1	12534	1567	55	3		3	PRKCG	19	54394974	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	17959	54394974	4734009	1508	40542											
LENG1	79165	broad.mit.edu	37	chr19	54659493	54659493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggtcctgctggcgggggCgccgggccagctgggggttg	2	6	23	10	3	0	0	0	0	0	0	1	1	1	0	3	7	2	3	3	7	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:54659493C>T	uc002qdm.2	-	4	774	c.761G>A	c.(760-762)CGC>CAC	p.R254H		NM_024316	NP_077292	Q96BZ8	LENG1_HUMAN	leukocyte receptor cluster (LRC) member 1	254										ovary(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CTGGCGGGGGCGCCGGGCCAG	0.602													5	12					0	0	1	0	0		T	54659493	T	T	54659493	3	4	55	1	0	0	0	0	1	0	0	0	8739	768	27	1	37	1	LENG1	19	54659493	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	264519	54659493	4469490	1509	40543											
NCR1	9437	broad.mit.edu	37	chr19	55417575	55417575	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acactccctgccctgctctgCgtcggtgagttctggcgtgg	3	11	13	14	3	2	1	0	1	2	0	4	1	3	1	2	3	3	2	2	3	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:55417575C>T	uc002qib.2	+	1	68	c.30C>T	c.(28-30)TGC>TGT	p.C10C	NCR1_uc002qic.2_Silent_p.C10C|NCR1_uc002qie.2_Silent_p.C10C|NCR1_uc002qid.2_Silent_p.C10C|NCR1_uc002qif.2_Silent_p.C10C|NCR1_uc010esj.2_Silent_p.C10C	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1	10					cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		CCCTGCTCTGCGTCGGTGAGT	0.607													41	99					0	0	1	0	0		T	55417575	T	T	55417575	2	4	55	1	0	0	0	0	0	0	0	1	10256	776	27	1		1	NCR1	19	55417575	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	758082	55417575	3711408	1510	40544											
PPP1R12C	54776	broad.mit.edu	37	chr19	55614811	55614811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagcccttggcagcagccaCgtgcagggcagaggcgcctg	7	5	16	13	2	0	1	0	0	0	1	0	1	0	1	3	3	4	5	3	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:55614811C>T	uc002qix.2	-	4	713	c.697G>A	c.(697-699)GTG>ATG	p.V233M	PPP1R12C_uc010yfs.1_Missense_Mutation_p.V159M|PPP1R12C_uc002qiy.2_Missense_Mutation_p.V233M	NM_017607	NP_060077	Q9BZL4	PP12C_HUMAN	protein phosphatase 1, regulatory subunit 12C	233	ANK 3.					cytoplasm				ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		GCAGCAGCCACGTGCAGGGCA	0.567													12	35					0	0	1	0	0		T	55614811	T	T	55614811	3	4	55	1	0	0	0	0	1	0	0	0	12378	536	19	1	1727	1	PPP1R12C	19	55614811	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	197236	55614811	3514172	1511	40545											
SYT5	6861	broad.mit.edu	37	chr19	55687120	55687120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgagggttcagcgtctgcCgatgcaccttggtctcgtac	6	11	13	11	3	3	1	1	1	2	0	4	2	3	1	2	2	4	3	2	2	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:55687120C>T	uc002qjm.1	-	4	1557	c.497G>A	c.(496-498)CGG>CAG	p.R166Q	SYT5_uc002qjp.2_Missense_Mutation_p.R163Q|SYT5_uc002qjn.1_Missense_Mutation_p.R166Q|SYT5_uc002qjo.1_Missense_Mutation_p.R166Q	NM_003180	NP_003171	O00445	SYT5_HUMAN	synaptotagmin V	166	Cytoplasmic (Potential).|C2 1.				energy reserve metabolic process|regulation of insulin secretion|synaptic transmission	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane	metal ion binding|transporter activity				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		CAGCGTCTGCCGATGCACCTT	0.612													15	41					0	0	1	0	0		T	55687120	T	T	55687120	3	4	55	1	0	0	0	0	1	0	0	0	15502	652	23	1	683	1	SYT5	19	55687120	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	72309	55687120	3441863	1512	40546											
NLRP8	126205	broad.mit.edu	37	chr19	56465979	56465979	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccaaggtgtacacaggcaCgaggagtacttaccatgtct	12	9	10	10	1	1	0	0	0	1	0	1	2	1	1	2	3	4	3	2	3	5	4	rs112109260	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:56465979C>T	uc002qmh.2	+	3	626	c.555C>T	c.(553-555)CAC>CAT	p.H185H	NLRP8_uc010etg.2_Silent_p.H185H	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	185						cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		TACACAGGCACGAGGAGTACT	0.502													15	54					0	0	1	0	0		T	56465979	T	T	56465979	2	4	55	1	0	0	0	0	0	0	0	1	10502	535	19	1		1	NLRP8	19	56465979	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	778859	56465979	2663004	1513	40547											
NLRP5	126206	broad.mit.edu	37	chr19	56565126	56565126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgacggtggggttgctgCgctgtgcgagggactgaagc	5	8	21	7	3	0	2	0	2	0	0	0	4	0	3	0	5	4	3	0	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:56565126C>T	uc002qmj.2	+	13	3251	c.3251C>T	c.(3250-3252)GCG>GTG	p.A1084V	NLRP5_uc002qmi.2_Missense_Mutation_p.A1065V	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	1084	LRR 12.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		GGGGTTGCTGCGCTGTGCGAG	0.627													23	56					0	0	1	0	0		T	56565126	T	T	56565126	3	4	55	1	0	0	0	0	1	0	0	0	10499	768	27	1	3301	1	NLRP5	19	56565126	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	99147	56565126	2563857	1514	40548											
ZNF787	126208	broad.mit.edu	37	chr19	56600436	56600436	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccagctggggacgtcGtcatcatccatgatgaggat	9	8	15	9	2	2	2	2	2	0	0	4	5	3	5	2	5	1	1	2	5	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:56600436G>A	uc010eth.1	-	3	224	c.105C>T	c.(103-105)GAC>GAT	p.D35D		NM_001002836	NP_001002836	Q6DD87	ZN787_HUMAN	zinc finger protein 787	35					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0559)		TGGGGACGTCGTCATCATCCA	0.473													3	4					0	0	1	0	0		A	56600436	A	A	56600436	2	1	55	1	0	0	0	0	0	0	0	1	18184	1136	40	1		1	ZNF787	19	56600436	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	35310	56600436	2528547	1515	40549											
ZNF211	10520	broad.mit.edu	37	chr19	58152086	58152086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaggttgttggtgtggaGtggaacatgaggaaacacct	10	13	14	4	0	0	1	0	1	0	0	0	4	0	4	1	5	2	2	1	5	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:58152086G>A	uc002qpq.2	+	3	412	c.232G>A	c.(232-234)GTG>ATG	p.V78M	ZNF211_uc010yhb.1_Missense_Mutation_p.V82M|ZNF211_uc002qpp.2_Missense_Mutation_p.V91M|ZNF211_uc002qpr.2_Missense_Mutation_p.V142M|ZNF211_uc002qps.2_Missense_Mutation_p.V143M|ZNF211_uc002qpt.2_Missense_Mutation_p.V90M|ZNF211_uc010yhc.1_Missense_Mutation_p.V90M|ZNF211_uc010yhd.1_Missense_Mutation_p.V17M|ZNF211_uc010yhe.1_Missense_Mutation_p.V69M	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	78	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TTGGTGTGGAGTGGAACATGA	0.423													16	23					0	0	1	0	0		A	58152086	A	A	58152086	3	1	55	1	0	0	0	0	1	0	0	0	17792	1029	36	4	285	4	ZNF211	19	58152086	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1551650	58152086	976897	1516	40550											
ZNF211	10520	broad.mit.edu	37	chr19	58152796	58152796	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggagaaaggccttatgcGtgccctgaatgtgggaaatc	11	9	13	8	1	0	2	0	1	0	1	1	4	0	3	2	3	2	0	2	3	4	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr19:58152796G>A	uc002qpq.2	+	3	1122	c.942G>A	c.(940-942)GCG>GCA	p.A314A	ZNF211_uc010yhb.1_Silent_p.A318A|ZNF211_uc002qpp.2_Silent_p.A327A|ZNF211_uc002qpr.2_Silent_p.A378A|ZNF211_uc002qps.2_Silent_p.A379A|ZNF211_uc002qpt.2_Silent_p.A326A|ZNF211_uc010yhc.1_Silent_p.A326A|ZNF211_uc010yhd.1_Silent_p.A253A|ZNF211_uc010yhe.1_Silent_p.A305A	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	314	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.I314L(1)		ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GGCCTTATGCGTGCCCTGAAT	0.413													13	37					0	0	1	0	0		A	58152796	A	A	58152796	2	1	55	1	0	0	0	0	0	0	0	1	17792	1132	40	1		1	ZNF211	19	58152796	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	710	58152796	976187	1517	40551											
CSNK2A1	1457	broad.mit.edu	37	chr20	473005	473005	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaccccagtctattagtcGtagctgaaaaagaataaacc	17	8	6	10	1	1	2	0	1	1	1	2	2	1	2	3	0	3	2	3	0	9	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:473005G>A	uc002wdw.1	-	9	907	c.514C>T	c.(514-516)CGA>TGA	p.R172*	CSNK2A1_uc002wdx.1_Nonsense_Mutation_p.R172*|CSNK2A1_uc002wdy.1_Nonsense_Mutation_p.R36*	NM_177559	NP_808227	P68400	CSK21_HUMAN	casein kinase II alpha 1 subunit isoform a	172	Protein kinase.				axon guidance|Wnt receptor signaling pathway	cytosol|NuRD complex|plasma membrane|Sin3 complex	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			ovary(1)	1		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)			TCTATTAGTCGTAGCTGAAAA	0.368													8	20					0	0	1	0	0		A	473005	A	A	473005	4	1	55	1	0	0	0	0	0	1	0	0	3960	1153	40	1	685	1	CSNK2A1	20	473005	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08		473005	62552515	1518	40552											
FASTKD5	60493	broad.mit.edu	37	chr20	3128626	3128626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgatccacgtgagtgaaaCggaacattttaacaatattc	14	12	8	7	2	0	3	0	3	0	0	2	4	1	4	1	1	3	0	1	1	5	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:3128626C>T	uc002whz.2	-	2	1402	c.1091G>A	c.(1090-1092)CGT>CAT	p.R364H	uc002whv.1_Intron|UBOX5_uc002whw.2_Intron|UBOX5_uc002whx.2_Intron|UBOX5_uc002why.1_Intron	NM_021826	NP_068598	Q7L8L6	FAKD5_HUMAN	FAST kinase domains 5	364					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity				0						GTGAGTGAAACGGAACATTTT	0.433													18	70					0	0	1	0	0		T	3128626	T	T	3128626	3	4	55	1	0	0	0	0	1	0	0	0	5702	536	19	1	1207	1	FASTKD5	20	3128626	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2655621	3128626	59896894	1519	40553											
HSPA12B	116835	broad.mit.edu	37	chr20	3719329	3719329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcctgcaaggatgttggCtgtcccggagatgggcctgc	6	8	17	10	1	0	1	0	0	0	1	1	3	1	2	3	5	2	3	3	5	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:3719329C>T	uc002wjd.2	+	2	111	c.8C>T	c.(7-9)GCT>GTT	p.A3V	HSPA12B_uc010zqi.1_Missense_Mutation_p.A3V|HSPA12B_uc002wje.2_5'UTR|HSPA12B_uc010zqj.1_5'UTR	NM_052970	NP_443202	Q96MM6	HS12B_HUMAN	heat shock 70kD protein 12B	3							ATP binding				0						AGGATGTTGGCTGTCCCGGAG	0.532													25	68					0	0	1	0	0		T	3719329	T	T	3719329	3	4	55	1	0	0	0	0	1	0	0	0	7421	797	28	2	10	2	HSPA12B	20	3719329	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	590703	3719329	59306191	1520	40554											
SLC23A2	9962	broad.mit.edu	37	chr20	4864313	4864313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaatgccccagtgcttccCggctctctcccccgctgcct	3	9	9	20	2	1	0	0	0	1	0	4	0	3	0	6	2	3	4	6	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:4864313C>T	uc002wlg.1	-	9	1174	c.799G>A	c.(799-801)GGG>AGG	p.G267R	SLC23A2_uc010zqr.1_Intron|SLC23A2_uc002wlh.1_Missense_Mutation_p.G267R|SLC23A2_uc002wli.2_Missense_Mutation_p.G266R	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	267	Helical; (Potential).				L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						CAGTGCTTCCCGGCTCTCTCC	0.577													20	65					0	0	1	0	0		T	4864313	T	T	4864313	3	4	55	1	0	0	0	0	1	0	0	0	14488	652	23	1	1189	1	SLC23A2	20	4864313	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1144984	4864313	58161207	1521	40555											
SLC23A2	9962	broad.mit.edu	37	chr20	4866508	4866508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatctaaagacaggatggctCgagcaggggccaaaaatgca	15	6	12	8	1	1	1	0	0	1	1	2	3	1	2	1	4	2	3	1	4	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:4866508C>T	uc002wlg.1	-	7	905	c.530G>A	c.(529-531)CGA>CAA	p.R177Q	SLC23A2_uc010zqr.1_Intron|SLC23A2_uc002wlh.1_Missense_Mutation_p.R177Q|SLC23A2_uc002wli.2_Missense_Mutation_p.R176Q	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	177	Helical; (Potential).				L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						CAGGATGGCTCGAGCAGGGGC	0.453													7	27					0	0	1	0	0		T	4866508	T	T	4866508	3	4	55	1	0	0	0	0	1	0	0	0	14488	884	31	1	1466	1	SLC23A2	20	4866508	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2195	4866508	58159012	1522	40556											
RRBP1	6238	broad.mit.edu	37	chr20	17601380	17601380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctggagctcctcctctgCggcgcccaccttggccctcc	2	10	9	20	2	2	0	0	0	2	0	5	1	5	1	6	3	2	1	6	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:17601380C>T	uc002wpv.1	-	18	2542	c.2188G>A	c.(2188-2190)GCA>ACA	p.A730T	RRBP1_uc010zrp.1_5'Flank|RRBP1_uc002wpt.1_Missense_Mutation_p.A100T|RRBP1_uc002wpu.2_Missense_Mutation_p.A504T|RRBP1_uc002wpw.1_Missense_Mutation_p.A730T|RRBP1_uc010gcl.1_Missense_Mutation_p.A504T|RRBP1_uc010gcm.1_Missense_Mutation_p.A183T	NM_001042576	NP_001036041	Q9P2E9	RRBP1_HUMAN	ribosome binding protein 1	1163	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						TCCTCCTCTGCGGCGCCCACC	0.647													3	37					0	0	1	0	0		T	17601380	T	T	17601380	3	4	55	1	0	0	0	0	1	0	0	0	13703	768	27	1	781	1	RRBP1	20	17601380	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	12734872	17601380	45424140	1523	40557											
SLC24A3	57419	broad.mit.edu	37	chr20	19698188	19698188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagatccggctgaatagcaGggggctgatctactccgtag	10	8	13	10	2	1	3	0	2	1	1	3	3	3	3	2	3	2	4	2	3	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:19698188G>A	uc002wrl.2	+	16	1933	c.1736G>A	c.(1735-1737)AGG>AAG	p.R579K		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	579	Extracellular (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						CTGAATAGCAGGGGGCTGATC	0.522													14	293					0	0	1	0	0		A	19698188	A	A	19698188	3	1	55	1	0	0	0	0	1	0	0	0	14492	1000	35	4	1798	4	SLC24A3	20	19698188	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	2096808	19698188	43327332	1524	40558											
RALGAPA2	57186	broad.mit.edu	37	chr20	20552174	20552174	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctgagtttggcagaacGtcctggcgtctggtcatcat	9	12	11	9	2	4	2	2	1	2	1	5	2	5	2	1	3	1	2	1	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:20552174G>A	uc002wrz.2	-	23	3227	c.3084C>T	c.(3082-3084)GAC>GAT	p.D1028D	RALGAPA2_uc010gcx.2_Silent_p.D732D|RALGAPA2_uc010zsg.1_Silent_p.D476D	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1028					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						TTGGCAGAACGTCCTGGCGTC	0.483													5	11					0	0	1	0	0		A	20552174	A	A	20552174	2	1	55	1	0	0	0	0	0	0	0	1	13039	1136	40	1		1	RALGAPA2	20	20552174	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	853986	20552174	42473346	1525	40559											
XRN2	22803	broad.mit.edu	37	chr20	21367540	21367540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctctgctcccatggaacCggatgctgcaaacccagaat	12	7	8	14	1	1	1	0	0	1	1	2	3	2	3	4	2	6	3	4	2	4	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:21367540C>T	uc002wsf.1	+	29	2778	c.2683C>T	c.(2683-2685)CGG>TGG	p.R895W	XRN2_uc002wsg.1_Missense_Mutation_p.R819W|XRN2_uc010zsk.1_Missense_Mutation_p.R841W|XRN2_uc002wsh.1_Missense_Mutation_p.R33W	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	895					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						CCCATGGAACCGGATGCTGCA	0.532													28	56					0	0	1	0	0		T	21367540	T	T	21367540	3	4	55	1	0	0	0	0	1	0	0	0	17486	643	23	1	2797	1	XRN2	20	21367540	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	815366	21367540	41657980	1526	40560											
DNMT3B	1789	broad.mit.edu	37	chr20	31368231	31368231	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgaccagtcctccgactcGcccccaatcctggaggctat	8	7	9	17	3	0	0	0	0	0	0	4	3	3	1	6	2	1	1	6	2	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:31368231G>A	uc002wyc.2	+	2	423	c.102G>A	c.(100-102)TCG>TCA	p.S34S	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Silent_p.S34S|DNMT3B_uc002wye.2_Silent_p.S34S|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Silent_p.S34S|DNMT3B_uc010zua.1_Silent_p.S34S|DNMT3B_uc002wyf.2_Silent_p.S46S	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	34	Interaction with DNMT1 and DNMT3A.				negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						CCTCCGACTCGCCCCCAATCC	0.647													10	21					0	0	1	0	0		A	31368231	A	A	31368231	2	1	55	1	0	0	0	0	0	0	0	1	4683	1074	38	1		1	DNMT3B	20	31368231	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	10000691	31368231	31657289	1527	40561											
CDK5RAP1	51654	broad.mit.edu	37	chr20	31962015	31962015	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcatgaatcagctgcaGaacctgatgaaacagaacac	15	8	7	11	0	3	5	2	3	1	2	4	5	3	5	1	0	5	2	1	0	4	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:31962015G>T	uc010gek.2	-	10	1277	c.1153C>A	c.(1153-1155)CTG>ATG	p.L385M	CDK5RAP1_uc002wyy.2_Missense_Mutation_p.L281M|CDK5RAP1_uc002wyz.2_Missense_Mutation_p.L371M|CDK5RAP1_uc002wza.2_Missense_Mutation_p.L371M|CDK5RAP1_uc010gel.2_Missense_Mutation_p.L280M|CDK5RAP1_uc010gem.2_Missense_Mutation_p.L294M|CDK5RAP1_uc002wzc.1_Missense_Mutation_p.L371M|CDK5RAP1_uc002wzb.1_5'Flank	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	385					brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5						ATCAGCTGCAGAACCTGATGA	0.468													28	67					2.24059e-21	2.49081e-21	1	1	0		T	31962015	T	T	31962015	3	4	55	1	0	0	0	0	1	0	0	0	3148	933	33	5	676	5	CDK5RAP1	20	31962015	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	593784	31962015	31063505	1528	40562											
AHCY	191	broad.mit.edu	37	chr20	32883307	32883307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcttggaggccgagtacCgctcccgcatacgcatcagg	7	7	14	13	4	1	0	1	0	0	0	2	2	2	1	3	4	2	5	3	4	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:32883307C>T	uc002xai.2	-	2	252	c.113G>A	c.(112-114)CGG>CAG	p.R38Q	AHCY_uc002xaj.2_Missense_Mutation_p.R10Q|AHCY_uc010get.2_Missense_Mutation_p.R38Q	NM_000687	NP_000678	P23526	SAHH_HUMAN	adenosylhomocysteinase isoform 1	38					methylation|xenobiotic metabolic process	cytosol|melanosome	adenosylhomocysteinase activity|protein binding				0						GGCCGAGTACCGCTCCCGCAT	0.657													7	16					0	0	1	0	0		T	32883307	T	T	32883307	3	4	55	1	0	0	0	0	1	0	0	0	409	652	23	1	1221	1	AHCY	20	32883307	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	921292	32883307	30142213	1529	40563											
AHCY	191	broad.mit.edu	37	chr20	32883364	32883364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcaatgtccagggccttgCgtccccaggcagccaggccg	7	5	13	16	2	0	0	0	0	0	0	2	0	2	0	6	3	3	2	6	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:32883364C>T	uc002xai.2	-	2	195	c.56G>A	c.(55-57)CGC>CAC	p.R19H	AHCY_uc002xaj.2_5'UTR|AHCY_uc010get.2_Missense_Mutation_p.R19H	NM_000687	NP_000678	P23526	SAHH_HUMAN	adenosylhomocysteinase isoform 1	19					methylation|xenobiotic metabolic process	cytosol|melanosome	adenosylhomocysteinase activity|protein binding				0						CAGGGCCTTGCGTCCCCAGGC	0.657													8	21					0	0	1	0	0		T	32883364	T	T	32883364	3	4	55	1	0	0	0	0	1	0	0	0	409	768	27	1	1278	1	AHCY	20	32883364	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	57	32883364	30142156	1530	40564											
MYH7B	57644	broad.mit.edu	37	chr20	33589114	33589114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgaggcccttaagggcgtgCgcaagcatgagcgccgtgtc	7	6	15	13	5	0	1	0	1	0	0	1	2	0	1	3	2	3	2	3	2	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:33589114C>T	uc002xbi.1	+	40	5760	c.5668C>T	c.(5668-5670)CGC>TGC	p.R1890C		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	1848	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			TAAGGGCGTGCGCAAGCATGA	0.657													3	6					0	0	1	0	0		T	33589114	T	T	33589114	3	4	55	1	0	0	0	0	1	0	0	0	10058	768	27	1	5826	1	MYH7B	20	33589114	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	705750	33589114	29436406	1531	40565											
C20orf152	140894	broad.mit.edu	37	chr20	34572684	34572684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcagaaggatgctcagtatCggtttgaattttttaggtaa	11	16	10	4	1	2	2	2	1	0	1	3	3	2	3	0	3	1	4	0	3	5	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:34572684C>T	uc002xes.1	+	6	856	c.700C>T	c.(700-702)CGG>TGG	p.R234W	C20orf152_uc002xer.1_Missense_Mutation_p.R234W|C20orf152_uc010gfp.1_RNA			Q96M20	CT152_HUMAN	SubName: Full=C20orf152 protein;	234	cNMP.										0	Breast(12;0.00631)					TGCTCAGTATCGGTTTGAATT	0.448													35	107					0	0	1	0	0		T	34572684	T	T	34572684	3	4	55	1	0	0	0	0	1	0	0	0	2095	875	31	1	722	1	C20orf152	20	34572684	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	983570	34572684	28452836	1532	40566											
CTNNBL1	56259	broad.mit.edu	37	chr20	36407704	36407704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgtgagcgcttcctgaaggGcgagggtcttcagctgatga	7	10	15	9	3	2	4	1	4	1	0	4	5	3	4	1	2	2	2	1	2	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:36407704G>A	uc010zvw.1	+	11	1089	c.998G>A	c.(997-999)GGC>GAC	p.G333D	CTNNBL1_uc002xhh.2_Missense_Mutation_p.G146D|CTNNBL1_uc002xhi.2_RNA|CTNNBL1_uc002xhj.2_Missense_Mutation_p.G81D	NM_030877	NP_110517	Q8WYA6	CTBL1_HUMAN	beta catenin-like 1	333					apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)				TTCCTGAAGGGCGAGGGTCTT	0.483													15	70					0	0	1	0	0		A	36407704	A	A	36407704	3	1	55	1	0	0	0	0	1	0	0	0	4021	1203	42	2	1036	2	CTNNBL1	20	36407704	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1835020	36407704	26617816	1533	40567											
CTNNBL1	56259	broad.mit.edu	37	chr20	36431375	36431375	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttgacattcttggcttaCgaaccatctttcccctcttt	6	18	5	12	1	3	1	0	1	3	0	4	2	4	1	3	1	2	2	3	1	2	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:36431375C>T	uc010zvw.1	+	12	1229	c.1138C>T	c.(1138-1140)CGA>TGA	p.R380*	CTNNBL1_uc002xhh.2_Nonsense_Mutation_p.R193*|CTNNBL1_uc002xhi.2_RNA|CTNNBL1_uc002xhj.2_Nonsense_Mutation_p.R128*	NM_030877	NP_110517	Q8WYA6	CTBL1_HUMAN	beta catenin-like 1	380					apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)				TCTTGGCTTACGAACCATCTT	0.502													10	30					0	0	1	0	0		T	36431375	T	T	36431375	4	4	55	1	0	0	0	0	0	1	0	0	4021	528	19	1	1180	1	CTNNBL1	20	36431375	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	23671	36431375	26594145	1534	40568											
CTNNBL1	56259	broad.mit.edu	37	chr20	36500368	36500368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggccggagcccggagttcCgggagaacgagcaaaagcgc	11	2	16	12	6	0	1	0	0	0	1	1	5	1	3	3	4	4	2	3	4	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:36500368C>T	uc010zvw.1	+	17	1736	c.1645C>T	c.(1645-1647)CGG>TGG	p.R549W	CTNNBL1_uc002xhh.2_Missense_Mutation_p.R362W|CTNNBL1_uc002xhi.2_RNA|CTNNBL1_uc002xhj.2_Missense_Mutation_p.R297W	NM_030877	NP_110517	Q8WYA6	CTBL1_HUMAN	beta catenin-like 1	549					apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)				CCCGGAGTTCCGGGAGAACGA	0.597													3	49					0	0	1	0	0		T	36500368	T	T	36500368	3	4	55	1	0	0	0	0	1	0	0	0	4021	643	23	1	1707	1	CTNNBL1	20	36500368	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	68993	36500368	26525152	1535	40569											
SLC32A1	140679	broad.mit.edu	37	chr20	37353721	37353721	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaagcccaaaatcacggcGtgggaggcaggctggaacgt	12	4	15	10	3	1	0	1	0	0	0	1	3	1	2	1	5	2	2	1	5	4	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:37353721G>A	uc002xjc.2	+	1	617	c.354G>A	c.(352-354)GCG>GCA	p.A118A		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	118	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	AAATCACGGCGTGGGAGGCAG	0.672													4	94					0	0	1	0	0		A	37353721	A	A	37353721	2	1	55	1	0	0	0	0	0	0	0	1	14590	1132	40	1		1	SLC32A1	20	37353721	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	853353	37353721	25671799	1536	40570											
ACTR5	79913	broad.mit.edu	37	chr20	37378698	37378698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgacagaagctgtgtgcaacCcactgtattcacggcaaatg	12	9	10	10	1	1	2	1	1	0	1	1	2	1	2	1	1	3	4	1	1	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:37378698C>T	uc002xjd.2	+	2	446	c.421C>T	c.(421-423)CCA>TCA	p.P141S		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	141					DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)				TGTGTGCAACCCACTGTATTC	0.423													14	36					0	0	1	0	0		T	37378698	T	T	37378698	3	4	55	1	0	0	0	0	1	0	0	0	215	623	22	4	427	4	ACTR5	20	37378698	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	24977	37378698	25646822	1537	40571											
MAFB	9935	broad.mit.edu	37	chr20	39316981	39316981	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgctggacggcggcggCgacgcttggtgatgatggtg	4	7	21	9	7	0	2	0	2	0	0	0	4	0	3	0	7	0	2	0	7	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:39316981C>T	uc002xji.2	-	1	896	c.510G>A	c.(508-510)TCG>TCA	p.S170S		NM_005461	NP_005452	Q9Y5Q3	MAFB_HUMAN	transcription factor MAFB	170					negative regulation of erythrocyte differentiation		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		Myeloproliferative disorder(115;0.00878)				ACGGCGGCGGCGACGCTTGGT	0.483			T	IGH@	MM								4	4					0	0	1	0	0		T	39316981	T	T	39316981	2	4	55	1	0	0	0	0	0	0	0	1	9176	755	27	1		1	MAFB	20	39316981	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1938283	39316981	23708539	1538	40572											
R3HDML	140902	broad.mit.edu	37	chr20	42972055	42972055	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatgaagtcctggtctgAggagaagtggcattacttgt	9	13	12	7	0	2	3	1	2	2	1	4	4	3	3	1	3	1	1	1	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:42972055A>G	uc002xls.1	+	3	591	c.419A>G	c.(418-420)GAG>GGG	p.E140G		NM_178491	NP_848586	Q9H3Y0	CRSPL_HUMAN	R3H domain containing-like precursor	140						extracellular region	peptidase inhibitor activity				0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			TCCTGGTCTGAGGAGAAGTGG	0.552													20	51					0	0	1	0	0		G	42972055	G	G	42972055	3	3	55	1	0	0	0	0	1	0	0	0	12914	304	11	3	429	3	R3HDML	20	42972055	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	3655074	42972055	20053465	1539	40573											
HNF4A	3172	broad.mit.edu	37	chr20	43056983	43056983	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctacctgcagggtcccccAgcgatgcaccccatgcccac	7	6	8	20	1	1	0	0	0	1	0	2	1	2	0	6	1	5	2	6	1	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:43056983A>G	uc002xma.2	+	9	1227	c.1138A>G	c.(1138-1140)AGC>GGC	p.S380G	HNF4A_uc002xlu.2_Missense_Mutation_p.S358G|HNF4A_uc002xlv.2_Missense_Mutation_p.S358G|HNF4A_uc002xlz.2_Missense_Mutation_p.S380G|HNF4A_uc010ggq.2_Missense_Mutation_p.S373G	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	380					blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			AGGGTCCCCCAGCGATGCACC	0.597													21	58					0	0	1	0	0		G	43056983	G	G	43056983	3	3	55	1	0	0	0	0	1	0	0	0	7269	188	7	3	1350	3	HNF4A	20	43056983	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	84928	43056983	19968537	1540	40574											
SERINC3	10955	broad.mit.edu	37	chr20	43133514	43133514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggaggactgcaagaggcCggagcgaggctggtgttcct	8	6	19	8	2	0	1	0	0	0	1	1	6	1	4	2	6	2	3	2	6	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:43133514C>T	uc002xme.2	-	7	936	c.802G>A	c.(802-804)GGC>AGC	p.G268S	SERINC3_uc002xmf.1_Missense_Mutation_p.G268S|SERINC3_uc010ggs.1_Missense_Mutation_p.G261S|SERINC3_uc010zwp.1_Missense_Mutation_p.G213S	NM_198941	NP_945179	Q13530	SERC3_HUMAN	tumor differentially expressed protein 1	268	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding			skin(3)	3		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.000291)|COAD - Colon adenocarcinoma(18;0.00189)			TGCAAGAGGCCGGAGCGAGGC	0.493													17	27					0	0	1	0	0		T	43133514	T	T	43133514	3	4	55	1	0	0	0	0	1	0	0	0	14106	652	23	1	635	1	SERINC3	20	43133514	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	76531	43133514	19892006	1541	40575											
MMP9	4318	broad.mit.edu	37	chr20	44639239	44639239	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgcgtgtacagccgggaCgcagacatcgtcatccagtt	9	8	11	13	5	1	1	1	0	0	1	4	2	2	2	2	1	2	3	2	1	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:44639239C>T	uc002xqz.2	+	3	508	c.489C>T	c.(487-489)GAC>GAT	p.D163D		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	163					collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	ACAGCCGGGACGCAGACATCG	0.642													3	23					0	0	1	0	0		T	44639239	T	T	44639239	2	4	55	1	0	0	0	0	0	0	0	1	9687	535	19	1		1	MMP9	20	44639239	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1505725	44639239	18386281	1542	40576											
MMP9	4318	broad.mit.edu	37	chr20	44644923	44644923	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgccaggaccgcttctactgGcgcgtgagttcccggagtga	6	9	14	12	4	1	2	0	2	1	0	2	4	2	4	3	3	2	2	3	3	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:44644923G>A	uc002xqz.2	+	13	2059	c.2040G>A	c.(2038-2040)TGG>TGA	p.W680*		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	680	Hemopexin-like 4.				collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	GCTTCTACTGGCGCGTGAGTT	0.532													26	62					0	0	1	0	0		A	44644923	A	A	44644923	4	1	55	1	0	0	0	0	0	1	0	0	9687	1212	42	2	2090	2	MMP9	20	44644923	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5684	44644923	18380597	1543	40577											
SLC13A3	64849	broad.mit.edu	37	chr20	45192098	45192098	+	Frame_Shift_Del	DEL	G	-	-																															gaggcgaaggcgatggagttGgggggcgttgagaccgggag																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:45192098delG	uc002xsf.1	-	12	1625	c.1587delC	c.(1585-1587)CCCfs	p.P529fs	SLC13A3_uc010ghn.1_Frame_Shift_Del_p.P498fs|SLC13A3_uc010zxw.1_Frame_Shift_Del_p.P479fs|SLC13A3_uc002xsg.1_Frame_Shift_Del_p.P482fs|SLC13A3_uc010gho.1_Frame_Shift_Del_p.P447fs|SLC13A3_uc010zxx.1_Frame_Shift_Del_p.P431fs|SLC13A3_uc002xse.1_Frame_Shift_Del_p.P20fs|SLC13A3_uc010ghm.1_Frame_Shift_Del_p.P116fs|SLC13A3_uc010zxv.1_Frame_Shift_Del_p.P114fs	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	529	Cytoplasmic (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	CGATGGAGTTGGGGGGCGTTG	0.632													18	29	---	---	---	---						.	-	45192098	-	-	45192098	7	5	55	1	0	1	0	1	0	0	0	0	14418	1335	47	0	229	0	SLC13A3	20	45192098	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	547175	45192098	17833422	1544	40578											
SLC2A10	81031	broad.mit.edu	37	chr20	45354379	45354379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgaggccggaccacagtggGcctggggctggtgctcttcc	4	7	17	13	2	1	0	0	0	1	0	2	2	2	1	4	6	1	2	4	6	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:45354379G>A	uc002xsl.2	+	2	801	c.704G>A	c.(703-705)GGC>GAC	p.G235D		NM_030777	NP_110404	O95528	GTR10_HUMAN	solute carrier family 2 member 10	235	Helical; Name=7; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				ACCACAGTGGGCCTGGGGCTG	0.632													32	79					0	0	1	0	0		A	45354379	A	A	45354379	3	1	55	1	0	0	0	0	1	0	0	0	14564	1203	42	2	710	2	SLC2A10	20	45354379	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	162281	45354379	17671141	1545	40579											
NCOA3	8202	broad.mit.edu	37	chr20	46265451	46265451	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagtgcaccagctccaccaTtcctagctcaagtcaagaga	12	8	7	14	0	3	1	3	0	0	1	5	2	5	1	4	0	3	3	4	0	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:46265451T>G	uc002xtk.2	+	12	2526	c.2321T>G	c.(2320-2322)ATT>AGT	p.I774S	NCOA3_uc010ght.1_Missense_Mutation_p.I784S|NCOA3_uc002xtl.2_Missense_Mutation_p.I774S|NCOA3_uc002xtm.2_Missense_Mutation_p.I774S|NCOA3_uc002xtn.2_Missense_Mutation_p.I774S|NCOA3_uc010zyc.1_Missense_Mutation_p.I569S	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	774					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						AGCTCCACCATTCCTAGCTCA	0.408													14	34					0	0	1	0	0		G	46265451	G	G	46265451	3	3	55	1	0	0	0	0	1	0	0	0	10249	1493	52	5	2389	5	NCOA3	20	46265451	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	911072	46265451	16760069	1546	40580											
MOCS3	27304	broad.mit.edu	37	chr20	49575756	49575756	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaacctggcccgccaagTgctgcatggcgaggcactgg	8	5	15	13	2	0	0	0	0	0	0	0	2	0	0	3	4	4	4	3	4	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:49575756T>C	uc002xvy.1	+	1	394	c.377T>C	c.(376-378)GTG>GCG	p.V126A	DPM1_uc002xvw.1_5'Flank|DPM1_uc002xvx.1_5'Flank	NM_014484	NP_055299	O95396	MOCS3_HUMAN	molybdenum cofactor synthesis 3	126					enzyme active site formation via L-cysteine persulfide|Mo-molybdopterin cofactor biosynthetic process|tRNA thio-modification|tRNA wobble uridine modification|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|nucleotidyltransferase activity|protein binding|thiosulfate sulfurtransferase activity|URM1 activating enzyme activity			skin(2)|ovary(1)	3						GCCCGCCAAGTGCTGCATGGC	0.662													17	63					0	0	1	0	0		C	49575756	C	C	49575756	3	2	55	1	0	0	0	0	1	0	0	0	9710	1696	59	3	379	3	MOCS3	20	49575756	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	3310305	49575756	13449764	1547	40581											
KCNG1	3755	broad.mit.edu	37	chr20	49620767	49620767	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgactgggaaggccatgaGcaggatgccgctcaggatgc	9	6	17	9	1	1	2	1	2	0	0	1	5	1	5	2	5	3	2	2	5	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:49620767G>C	uc002xwa.3	-	3	1646	c.1351C>G	c.(1351-1353)CTC>GTC	p.L451V		NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	451	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						AAGGCCATGAGCAGGATGCCG	0.627													4	60					0	0	1	0	0		C	49620767	C	C	49620767	3	2	55	1	0	0	0	0	1	0	0	0	8043	971	34	5	194	5	KCNG1	20	49620767	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	45011	49620767	13404753	1548	40582											
KCNG1	3755	broad.mit.edu	37	chr20	49626736	49626736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggggctcatcctgcggcCgcagccgctgcgcccggcgg	2	4	18	17	7	1	0	1	0	0	0	2	0	2	0	4	6	3	3	4	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:49626736C>T	uc002xwa.3	-	2	435	c.140G>A	c.(139-141)CGG>CAG	p.R47Q	KCNG1_uc002xwb.2_Missense_Mutation_p.R47Q	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	47	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						ATCCTGCGGCCGCAGCCGCTG	0.711													6	6					0	0	1	0	0		T	49626736	T	T	49626736	3	4	55	1	0	0	0	0	1	0	0	0	8043	652	23	1	1409	1	KCNG1	20	49626736	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5969	49626736	13398784	1549	40583											
ZFP64	55734	broad.mit.edu	37	chr20	50769726	50769726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgctccgactggtgcacGcggctgtgcttccggagggt	4	9	17	11	4	0	0	0	0	0	0	2	3	2	2	2	5	3	4	2	5	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:50769726G>A	uc002xwl.2	-	6	1354	c.1005C>T	c.(1003-1005)CGC>CGT	p.R335R	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Silent_p.R333R|ZFP64_uc002xwn.2_Silent_p.R281R	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	335	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						ACTGGTGCACGCGGCTGTGCT	0.592													20	54					0	0	1	0	0		A	50769726	A	A	50769726	2	1	55	1	0	0	0	0	0	0	0	1	17677	1074	38	1		1	ZFP64	20	50769726	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1142990	50769726	12255794	1550	40584											
CTCFL	140690	broad.mit.edu	37	chr20	56089715	56089715	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttggggacattttcgccGtgtttctgcagaatatgtat	8	17	10	6	2	1	1	0	0	1	1	2	2	1	2	1	2	1	3	1	2	4	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:56089715G>A	uc010gix.1	-	6	1925	c.1263C>T	c.(1261-1263)CAC>CAT	p.H421H	CTCFL_uc010giw.1_Silent_p.H421H|CTCFL_uc002xym.2_Silent_p.H421H|CTCFL_uc010giz.1_Silent_p.H9H|CTCFL_uc010giy.1_Silent_p.H91H|CTCFL_uc010gja.1_Intron|CTCFL_uc010gjb.1_Silent_p.H421H|CTCFL_uc010gjc.1_Silent_p.H421H|CTCFL_uc010gjd.1_Silent_p.H421H|CTCFL_uc010gje.2_Silent_p.H421H|CTCFL_uc010gjf.2_Silent_p.H216H|CTCFL_uc010gjg.2_Silent_p.H153H|CTCFL_uc010gjh.1_Intron|CTCFL_uc010gji.1_Silent_p.H216H|CTCFL_uc010gjj.1_Silent_p.H421H	NM_080618	NP_542185	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor-like protein	421	C2H2-type 6.				cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			CATTTTCGCCGTGTTTCTGCA	0.488											OREG0026065	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	196					0	0	1	0	0		A	56089715	A	A	56089715	2	1	55	1	0	0	0	0	0	0	0	1	4004	1136	40	1		1	CTCFL	20	56089715	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5319989	56089715	6935805	1551	40585											
ZBP1	81030	broad.mit.edu	37	chr20	56190021	56190021	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcatcctgtacaagtctcGgttcacatcttttgctgtcc	6	16	6	13	1	4	0	2	0	2	0	7	0	6	0	2	1	2	3	2	1	2	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:56190021G>A	uc002xyo.2	-	4	705	c.424C>T	c.(424-426)CGA>TGA	p.R142*	ZBP1_uc010gjm.2_Nonsense_Mutation_p.R142*|ZBP1_uc002xyp.2_Nonsense_Mutation_p.R67*|ZBP1_uc010zzn.1_Nonsense_Mutation_p.R142*	NM_030776	NP_110403	Q9H171	ZBP1_HUMAN	Z-DNA binding protein 1 isoform a	142	DRADA 2.					cytoplasm|nucleus	double-stranded RNA adenosine deaminase activity|left-handed Z-DNA binding|RNA binding			ovary(2)	2	Lung NSC(12;0.000545)|all_lung(29;0.00195)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;7.87e-13)|Epithelial(14;3.26e-09)|all cancers(14;3.62e-08)			TACAAGTCTCGGTTCACATCT	0.547													44	115					0	0	1	0	0		A	56190021	A	A	56190021	4	1	55	1	0	0	0	0	0	1	0	0	17546	1124	39	1	962	1	ZBP1	20	56190021	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	100306	56190021	6835499	1552	40586											
GNAS	2778	broad.mit.edu	37	chr20	57430051	57430051	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagcgacgatgactccagCggagacgagtccgacgatgg	11	4	15	11	6	0	2	0	1	0	1	2	8	2	2	2	2	3	1	2	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:57430051C>T	uc002xzw.2	+	1	2016	c.1731C>T	c.(1729-1731)AGC>AGT	p.S577S	GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			ATGACTCCAGCGGAGACGAGT	0.672			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			6	12					0	0	1	0	0		T	57430051	T	T	57430051	2	4	55	1	0	0	0	0	0	0	0	1	6525	768	27	1		1	GNAS	20	57430051	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1240030	57430051	5595469	1553	40587											
TUBB1	81027	broad.mit.edu	37	chr20	57599576	57599576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgggggctgagcatggccgCcaccttcattggcaacaaca	9	6	12	14	2	1	1	1	1	0	0	1	1	1	1	4	4	3	3	4	4	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:57599576C>T	uc002yak.2	+	4	1363	c.1094C>T	c.(1093-1095)GCC>GTC	p.A365V		NM_030773	NP_110400	Q9H4B7	TBB1_HUMAN	beta tubulin 1, class VI	365					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity			ovary(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)		Colchicine(DB01394)|Docetaxel(DB01248)|Paclitaxel(DB01229)|Vindesine(DB00309)	AGCATGGCCGCCACCTTCATT	0.542													6	33					0	0	1	0	0		T	57599576	T	T	57599576	3	4	55	1	0	0	0	0	1	0	0	0	16779	739	26	2	1108	2	TUBB1	20	57599576	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	169525	57599576	5425944	1554	40588											
LAMA5	3911	broad.mit.edu	37	chr20	60911481	60911481	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcccctccacgtgagcccgGcacatacagggaacctgtgc	8	5	12	16	2	0	1	0	1	0	0	1	2	1	2	5	3	4	1	5	3	2	1	rs140745444	byFrequency	TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:60911481G>A	uc002ycq.2	-	18	2305	c.2238C>T	c.(2236-2238)TGC>TGT	p.C746C		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	746	Laminin EGF-like 9.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CGTGAGCCCGGCACATACAGG	0.647													6	29					0	0	1	0	0		A	60911481	A	A	60911481	2	1	55	1	0	0	0	0	0	0	0	1	8625	1195	42	2		2	LAMA5	20	60911481	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3311905	60911481	2114039	1555	40589											
COL20A1	57642	broad.mit.edu	37	chr20	61959433	61959433	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaccttcccttccagggCgagccgcagtcccttgccac	6	7	8	20	2	0	0	0	0	0	0	3	1	3	0	7	1	2	1	7	1	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:61959433C>T	uc011aau.1	+	33	3667	c.3567C>T	c.(3565-3567)GGC>GGT	p.G1189G	COL20A1_uc011aav.1_Silent_p.G1010G	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	1189	Collagen-like 2.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CCTTCCAGGGCGAGCCGCAGT	0.607													7	34					0	0	1	0	0		T	61959433	T	T	61959433	2	4	55	1	0	0	0	0	0	0	0	1	3682	755	27	1		1	COL20A1	20	61959433	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1047952	61959433	1066087	1556	40590											
C20orf195	79025	broad.mit.edu	37	chr20	62187663	62187663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcgtgtttgaccgaaaggCgtcggcggctcaccaggact	7	9	14	11	5	1	1	1	1	0	0	3	3	1	2	2	4	0	2	2	4	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:62187663C>T	uc002yfj.2	+	2	739	c.647C>T	c.(646-648)GCG>GTG	p.A216V	C20orf195_uc002yfk.2_Missense_Mutation_p.A216V	NM_024059	NP_076964	Q9BVV2	CT195_HUMAN	hypothetical protein LOC79025	216											0	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;9.69e-09)|all cancers(9;5.84e-08)|BRCA - Breast invasive adenocarcinoma(10;3.63e-06)			GACCGAAAGGCGTCGGCGGCT	0.622													41	99					0	0	1	0	0		T	62187663	T	T	62187663	3	4	55	1	0	0	0	0	1	0	0	0	2103	768	27	1	649	1	C20orf195	20	62187663	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	228230	62187663	837857	1557	40591											
PRIC285	85441	broad.mit.edu	37	chr20	62194368	62194368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgtactcatccacgtcgCggtaccggtccctcggggcc	5	7	13	16	6	1	0	1	0	0	0	5	0	3	0	4	5	2	2	4	5	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:62194368C>T	uc002yfm.2	-	9	6699	c.5807G>A	c.(5806-5808)CGC>CAC	p.R1936H	PRIC285_uc002yfl.1_Missense_Mutation_p.R1367H	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1936					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			ATCCACGTCGCGGTACCGGTC	0.677													4	6					0	0	1	0	0		T	62194368	T	T	62194368	3	4	55	1	0	0	0	0	1	0	0	0	12507	768	27	1	2190	1	PRIC285	20	62194368	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6705	62194368	831152	1558	40592											
RTEL1	51750	broad.mit.edu	37	chr20	62324527	62324527	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtgcggccccaccataaGcagcagtttgaggaggtctg	8	10	13	10	1	1	1	0	1	1	0	1	2	1	2	3	3	3	3	3	3	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:62324527G>A	uc002yfu.1	+	30	3226	c.2883G>A	c.(2881-2883)AAG>AAA	p.K961K	RTEL1_uc011abc.1_RNA|RTEL1_uc002yft.1_Silent_p.K961K|RTEL1_uc011abd.1_Silent_p.K985K|RTEL1_uc011abe.1_Silent_p.K738K|RTEL1_uc002yfw.2_RNA|RTEL1_uc002yfx.1_Silent_p.K206K|TNFRSF6B_uc002yfy.2_5'Flank	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1	961					DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)			CCCACCATAAGCAGCAGTTTG	0.597													32	80					0	0	1	0	0		A	62324527	A	A	62324527	2	1	55	1	0	0	0	0	0	0	0	1	13745	962	34	2		2	RTEL1	20	62324527	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	130159	62324527	700993	1559	40593											
ZNF512B	57473	broad.mit.edu	37	chr20	62598009	62598009	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggcctgctgatgggcccAggcttggaggcaggcagggg	6	5	19	11	1	0	1	0	1	0	0	0	2	0	2	3	8	1	4	3	8	0	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:62598009A>G	uc002yhl.1	-	5	573	c.519T>C	c.(517-519)CCT>CCC	p.P173P		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	173					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					TGATGGGCCCAGGCTTGGAGG	0.617													13	29					0	0	1	0	0		G	62598009	G	G	62598009	2	3	55	1	0	0	0	0	0	0	0	1	17982	175	7	3		3	ZNF512B	20	62598009	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	273482	62598009	427511	1560	40594											
OPRL1	4987	broad.mit.edu	37	chr20	62729761	62729761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacagcctcatgatccggcGgctccgtggagtccgcctgc	5	8	12	16	4	1	1	1	1	0	0	4	2	4	2	5	3	3	1	5	3	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr20:62729761G>A	uc002yic.2	+	5	1124	c.722G>A	c.(721-723)CGG>CAG	p.R241Q	OPRL1_uc002yid.2_Missense_Mutation_p.R241Q|OPRL1_uc002yif.3_Missense_Mutation_p.R236Q	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	241	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					ATGATCCGGCGGCTCCGTGGA	0.627													20	90					0	0	1	0	0		A	62729761	A	A	62729761	3	1	55	1	0	0	0	0	1	0	0	0	10905	1116	39	1	732	1	OPRL1	20	62729761	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	131752	62729761	295759	1561	40595											
TPTE	7179	broad.mit.edu	37	chr21	10971319	10971319	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggccgagctcaatgatgActcccgccaggtcagtcgga	8	7	14	12	3	2	2	2	2	0	0	4	4	3	3	3	4	1	1	3	4	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:10971319A>G	uc002yip.1	-	5	406	c.38T>C	c.(37-39)GTC>GCC	p.V13A	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.V13A|TPTE_uc002yir.1_Missense_Mutation_p.V13A|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	13					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CTCAATGATGACTCCCGCCAG	0.328													5	53					0	0	1	0	0		G	10971319	G	G	10971319	3	3	55	1	0	0	0	0	1	0	0	0	16456	275	10	3	1697	3	TPTE	21	10971319	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08		10971319	37158576	1562	40596											
NRIP1	8204	broad.mit.edu	37	chr21	16340186	16340186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagcaaagcttccttctttaCgtttaaattcatgatagaat	13	16	5	7	1	2	2	1	1	1	1	3	2	3	2	1	0	3	3	1	0	7	9			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:16340186C>T	uc002yjx.2	-	4	926	c.328G>A	c.(328-330)GTA>ATA	p.V110I		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	110	Repression domain 1.				androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		TCCTTCTTTACGTTTAAATTC	0.463													5	79					0	0	1	0	0		T	16340186	T	T	16340186	3	4	55	1	0	0	0	0	1	0	0	0	10671	536	19	1	3152	1	NRIP1	21	16340186	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5368867	16340186	31789709	1563	40597											
CYYR1	116159	broad.mit.edu	37	chr21	27840845	27840845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccttgcgtttccaggataaGgagggggtggagaacgctgt	8	10	16	7	2	0	1	0	0	0	1	2	4	2	3	2	5	2	2	2	5	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:27840845G>A	uc002ymd.2	-	4	762	c.440C>T	c.(439-441)CCT>CTT	p.P147L	CYYR1_uc011ack.1_RNA|CYYR1_uc002yme.2_Missense_Mutation_p.P148L	NM_052954	NP_443186	Q96J86	CYYR1_HUMAN	cysteine and tyrosine-rich 1 protein precursor	147	Cytoplasmic (Potential).|Poly-Pro.					integral to membrane					0						TCCAGGATAAGGAGGGGGTGG	0.532													6	50					0	0	1	0	0		A	27840845	A	A	27840845	3	1	55	1	0	0	0	0	1	0	0	0	4214	1000	35	4	28	4	CYYR1	21	27840845	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	11500659	27840845	20289050	1564	40598											
RNF160	26046	broad.mit.edu	37	chr21	30339484	30339484	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggtctttgagaactgcAtcaataaaagggatcaactg	13	10	10	8	0	3	1	2	1	1	1	3	3	3	2	1	2	3	1	1	2	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:30339484A>G	uc002ymr.2	-	10	1480	c.1467T>C	c.(1465-1467)GAT>GAC	p.D489D	RNF160_uc010gll.1_RNA	NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	443							ligase activity|zinc ion binding				0						TGAGAACTGCATCAATAAAAG	0.279													7	16					0	0	1	0	0		G	30339484	G	G	30339484	2	3	55	1	0	0	0	0	0	0	0	1	13480	214	8	3		3	RNF160	21	30339484	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2498639	30339484	17790411	1565	40599											
C21orf7	56911	broad.mit.edu	37	chr21	30464856	30464856	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattggatgctcactctgaaGccaaagtctattactgtgcc	10	12	9	10	0	3	1	1	1	2	0	3	3	3	2	2	1	4	1	2	1	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:30464856G>A	uc002yne.2	+	5	595	c.324G>A	c.(322-324)AAG>AAA	p.K108K	C21orf7_uc011acr.1_RNA|C21orf7_uc002ynd.2_RNA|C21orf7_uc010gln.2_RNA|C21orf7_uc002ynf.2_Silent_p.K108K	NM_020152	NP_064537	P57077	TAK1L_HUMAN	chromosome 21 open reading frame 7	108						cytosol|nucleus	protein binding			ovary(2)	2				Colorectal(56;0.248)		TCACTCTGAAGCCAAAGTCTA	0.473													5	77					0	0	1	0	0		A	30464856	A	A	30464856	2	1	55	1	0	0	0	0	0	0	0	1	2135	962	34	2		2	C21orf7	21	30464856	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	125372	30464856	17665039	1566	40600											
TIAM1	7074	broad.mit.edu	37	chr21	32502534	32502534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaggtgagagtttacctgCactcgccaaagctcgaacct	11	8	9	13	2	0	1	0	1	0	1	2	3	0	1	3	1	4	3	3	1	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:32502534C>T	uc002yow.1	-	26	4514	c.4042G>A	c.(4042-4044)GCA>ACA	p.A1348T	TIAM1_uc011adk.1_Missense_Mutation_p.A1348T|TIAM1_uc011adl.1_Missense_Mutation_p.A1288T	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1348	PH 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						AGTTTACCTGCACTCGCCAAA	0.473													42	111					0	0	1	0	0		T	32502534	T	T	32502534	3	4	55	1	0	0	0	0	1	0	0	0	15915	710	25	2	749	2	TIAM1	21	32502534	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2037678	32502534	15627361	1567	40601											
TIAM1	7074	broad.mit.edu	37	chr21	32589954	32589954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctccttcgcttgctcGcggatctggacatggcctga	5	11	11	14	3	1	1	0	1	1	0	4	3	2	3	3	3	2	3	3	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:32589954G>A	uc002yow.1	-	10	2529	c.2057C>T	c.(2056-2058)GCG>GTG	p.A686V	TIAM1_uc011adk.1_Missense_Mutation_p.A686V|TIAM1_uc011adl.1_Missense_Mutation_p.A686V|TIAM1_uc002yox.1_Missense_Mutation_p.A294V	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	686					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TCGCTTGCTCGCGGATCTGGA	0.547													24	72					0	0	1	0	0		A	32589954	A	A	32589954	3	1	55	1	0	0	0	0	1	0	0	0	15915	1087	38	1	2798	1	TIAM1	21	32589954	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	87420	32589954	15539941	1568	40602											
SFRS15	57466	broad.mit.edu	37	chr21	33068925	33068925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggcagcagcgggtgcagCagcagcaggcacggtggcgg	9	2	20	10	3	0	1	0	0	0	1	0	1	0	1	0	6	6	7	0	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:33068925C>T	uc002ypd.2	-	8	1342	c.916G>A	c.(916-918)GCT>ACT	p.A306T	SFRS15_uc002ype.2_Missense_Mutation_p.A306T|SFRS15_uc010glu.2_Missense_Mutation_p.A291T|SFRS15_uc002ypf.1_5'UTR	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	306	Poly-Ala.					nucleus	nucleotide binding|RNA binding				0						GCGGGTGCAGCAGCAGCAGGC	0.527													8	27					0	0	1	0	0		T	33068925	T	T	33068925	3	4	55	1	0	0	0	0	1	0	0	0	14196	710	25	2	2579	2	SFRS15	21	33068925	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	478971	33068925	15060970	1569	40603											
SYNJ1	8867	broad.mit.edu	37	chr21	34011320	34011320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgggggccagactgaggCataggtgctgccacagggac	8	5	18	10	0	0	2	0	1	0	1	0	3	0	3	2	6	2	3	2	6	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:34011320C>T	uc002yqh.2	-	31	3930	c.3930G>A	c.(3928-3930)ATG>ATA	p.M1310I	SYNJ1_uc011ads.1_Missense_Mutation_p.M1224I|SYNJ1_uc002yqf.2_Missense_Mutation_p.M1255I|SYNJ1_uc002yqg.2_Missense_Mutation_p.M1224I|SYNJ1_uc002yqi.2_Missense_Mutation_p.M1310I|SYNJ1_uc002yqe.3_5'UTR	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	1271	Pro-rich.						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						CAGACTGAGGCATAGGTGCTG	0.572													49	101					0	0	1	0	0		T	34011320	T	T	34011320	3	4	55	1	0	0	0	0	1	0	0	0	15477	710	25	2	941	2	SYNJ1	21	34011320	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	942395	34011320	14118575	1570	40604											
KCNJ15	3772	broad.mit.edu	37	chr21	39671742	39671742	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccactgtgcagtcatcAccaagcagaatgggaagctg	12	7	11	11	0	3	1	3	0	0	1	3	2	3	2	2	1	4	3	2	1	3	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:39671742A>G	uc002ywv.2	+	4	861	c.559A>G	c.(559-561)ACC>GCC	p.T187A	KCNJ15_uc002yww.2_Missense_Mutation_p.T187A|KCNJ15_uc002ywx.2_Missense_Mutation_p.T187A	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	187	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						TGCAGTCATCACCAAGCAGAA	0.522													22	28					0	0	1	0	0		G	39671742	G	G	39671742	3	3	55	1	0	0	0	0	1	0	0	0	8065	159	6	3	561	3	KCNJ15	21	39671742	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	5660422	39671742	8458153	1571	40605											
ERG	2078	broad.mit.edu	37	chr21	39755470	39755470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggctggagggtggggcGccacaaagttcatcttctgt	7	9	17	8	1	3	0	1	0	2	0	3	2	3	2	1	6	0	2	1	6	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:39755470G>A	uc010gnw.2	-	12	1611	c.1316C>T	c.(1315-1317)GCG>GTG	p.A439V	ERG_uc002yxa.2_Missense_Mutation_p.A432V|ERG_uc011aek.1_Missense_Mutation_p.A340V|ERG_uc010gnv.2_Missense_Mutation_p.A316V|ERG_uc010gnx.2_Missense_Mutation_p.A415V|ERG_uc011ael.1_Missense_Mutation_p.A439V|ERG_uc002yxb.2_Missense_Mutation_p.A415V	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	439					cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				AGGGTGGGGCGCCACAAAGTT	0.572													10	24					0	0	1	0	0		A	39755470	A	A	39755470	3	1	55	1	0	0	0	0	1	0	0	0	5230	1087	38	1	148	1	ERG	21	39755470	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	83728	39755470	8374425	1572	40606											
DSCAM	1826	broad.mit.edu	37	chr21	41423955	41423955	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaccgattggtaatggacCgtgtgagtgaccgtcaggga	10	8	15	8	3	1	2	1	2	0	0	1	6	1	4	3	3	0	1	3	3	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:41423955C>T	uc002yyq.1	-	30	5567	c.5115G>A	c.(5113-5115)ACG>ACA	p.T1705T	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1705	Cytoplasmic (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				GGTAATGGACCGTGTGAGTGA	0.537													33	69					0	0	1	0	0		T	41423955	T	T	41423955	2	4	55	1	0	0	0	0	0	0	0	1	4774	639	23	1		1	DSCAM	21	41423955	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1668485	41423955	6705940	1573	40607											
TRPM2	7226	broad.mit.edu	37	chr21	45811268	45811268	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtttgtcacctgggacacCttgctctacctgtacgagaa	9	11	10	11	1	2	1	1	0	1	1	2	4	2	2	3	1	3	3	3	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:45811268C>T	uc002zet.1	+	12	1767	c.1554C>T	c.(1552-1554)ACC>ACT	p.T518T	TRPM2_uc002zeu.1_Silent_p.T518T|TRPM2_uc002zew.1_Silent_p.T518T|TRPM2_uc010gpt.1_Silent_p.T518T|TRPM2_uc002zex.1_Silent_p.T304T|TRPM2_uc002zey.1_Silent_p.T31T	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	518	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCTGGGACACCTTGCTCTACC	0.557													36	70					0	0	1	0	0		T	45811268	T	T	45811268	2	4	55	1	0	0	0	0	0	0	0	1	16612	668	24	4		4	TRPM2	21	45811268	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	4387313	45811268	2318627	1574	40608											
C21orf29	54084	broad.mit.edu	37	chr21	45948410	45948410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcaaaccagaactgggCgtcttccacctcggtacacg	10	7	10	14	3	2	1	1	0	1	1	4	1	3	1	3	3	3	2	3	3	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:45948410C>T	uc002zfe.1	-	6	913	c.847G>A	c.(847-849)GCC>ACC	p.A283T	C21orf29_uc010gpv.1_Missense_Mutation_p.A215T	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	283					cell adhesion	extracellular region	structural molecule activity				0						CAGAACTGGGCGTCTTCCACC	0.607													3	65					0	0	1	0	0		T	45948410	T	T	45948410	3	4	55	1	0	0	0	0	1	0	0	0	2127	768	27	1	1190	1	C21orf29	21	45948410	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	137142	45948410	2181485	1575	40609											
C21orf70	85395	broad.mit.edu	37	chr21	46387053	46387053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctcagggatgccctgcccGagctgctggggctcgaggct	4	8	15	14	2	1	0	1	0	1	0	3	3	1	1	2	4	4	4	2	4	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:46387053G>A	uc002zgl.2	+	4	475	c.457G>A	c.(457-459)GAG>AAG	p.E153K	C21orf70_uc002zgm.2_Missense_Mutation_p.E138K	NM_058190	NP_478070	Q9NSI2	CU070_HUMAN	hypothetical protein LOC85395	153											0				Colorectal(79;0.248)		TGCCCTGCCCGAGCTGCTGGG	0.701													13	23					0	0	1	0	0		A	46387053	A	A	46387053	3	1	55	1	0	0	0	0	1	0	0	0	2136	1059	37	1	471	1	C21orf70	21	46387053	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	438643	46387053	1742842	1576	40610											
COL18A1	80781	broad.mit.edu	37	chr21	46925297	46925297	+	Frame_Shift_Del	DEL	C	-	-																															agcgttcccggccctccgggCccccctgggccccctgggcc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:46925297delC	uc011afs.1	+	36	4296	c.4275delC	c.(4273-4275)GGCfs	p.G1425fs	COL18A1_uc002zhg.2_Frame_Shift_Del_p.G1010fs|COL18A1_uc002zhi.2_Frame_Shift_Del_p.G1190fs|SLC19A1_uc010gpy.1_Intron|COL18A1_uc002zhj.2_5'UTR|COL18A1_uc002zhk.2_5'Flank	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	1428	Triple-helical region 10 (COL10).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		GCCCTCCGGGCccccctgggc	0.597													3	6	---	---	---	---						.	-	46925297	-	-	46925297	7	5	55	1	0	1	0	1	0	0	0	0	3678	726	26	0	4531	0	COL18A1	21	46925297	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	538244	46925297	1204598	1577	40611											
FTCD	10841	broad.mit.edu	37	chr21	47571590	47571591	+	Frame_Shift_Ins	INS	-	C	C																															cctcgcccccgtggccgtggINSccccccaactggggacaaag																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr21:47571590_47571591insC	uc002zif.2	-	5	561_562	c.517_518insG	c.(517-519)GCCfs	p.A173fs	FTCD_uc002zig.2_Frame_Shift_Ins_p.A173fs|FTCD_uc002zih.2_Frame_Shift_Ins_p.A173fs|FTCD_uc010gqf.2_Frame_Shift_Ins_p.A173fs|FTCD_uc010gqg.1_Frame_Shift_Ins_p.A42fs	NM_006657	NP_006648	O95954	FTCD_HUMAN	formiminotransferase cyclodeaminase	173	Formiminotransferase N-subdomain (By similarity).				folic acid-containing compound metabolic process|histidine catabolic process	centriole|cytosol|Golgi apparatus	folic acid binding|formimidoyltetrahydrofolate cyclodeaminase activity|glutamate formimidoyltransferase activity			pancreas(1)|skin(1)	2	Breast(49;0.214)			Colorectal(79;0.235)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CGTGGCCGTGGCCCCCCAACTG	0.639													19	43	---	---	---	---						.	C	47571591	C	C	47571590	7	5	55	1	0	1	1	0	0	0	0	0	6095	1203	42	0	1147	0	FTCD	21	47571590	Frame_Shift_Ins	INS	-	TCGA-BR-7851-01A-11D-2201-08	646293	47571590	558305	1578	40612											
CECR2	27443	broad.mit.edu	37	chr22	18022614	18022614	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaatgtcagtcactgtgTcagcccccaagcctgccctg	8	8	8	17	0	3	0	3	0	0	0	3	0	3	0	5	0	3	0	5	0	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:18022614T>C	uc010gqw.1	+	15	2842	c.2716T>C	c.(2716-2718)TCA>CCA	p.S906P	CECR2_uc010gqv.1_Missense_Mutation_p.S765P|CECR2_uc002zml.2_Missense_Mutation_p.S765P	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	948					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		AGTCACTGTGTCAGCCCCCAA	0.597													6	126					0	0	1	0	0		C	18022614	C	C	18022614	3	2	55	1	0	0	0	0	1	0	0	0	3209	1667	58	3	2776	3	CECR2	22	18022614	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08		18022614	33281952	1579	40613											
DGCR14	8220	broad.mit.edu	37	chr22	19130071	19130071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctccaggcctcggccgCggggcctgggcttgttgccc	2	8	14	17	3	0	0	0	0	0	0	3	0	2	0	6	5	1	2	6	5	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:19130071C>T	uc002zou.2	-	3	417	c.380G>A	c.(379-381)CGC>CAC	p.R127H	DGCR14_uc002zot.2_Missense_Mutation_p.R48H|DGCR14_uc002zov.2_RNA	NM_022719	NP_073210	Q96DF8	DGC14_HUMAN	DiGeorge syndrome critical region protein 14	127					nervous system development	catalytic step 2 spliceosome				ovary(1)	1	Colorectal(54;0.0993)					GCCTCGGCCGCGGGGCCTGGG	0.597													40	104					0	0	1	0	0		T	19130071	T	T	19130071	3	4	55	1	0	0	0	0	1	0	0	0	4466	768	27	1	1082	1	DGCR14	22	19130071	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1107457	19130071	32174495	1580	40614											
UFD1L	7353	broad.mit.edu	37	chr22	19442297	19442297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacctttttgacaaggggaCgtgaatttctgatgaaagtt	12	13	10	6	1	1	4	0	4	1	0	1	5	1	5	1	2	1	1	1	2	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:19442297C>T	uc002zpm.2	-	11	954	c.824G>A	c.(823-825)CGT>CAT	p.R275H	UFD1L_uc002zpo.2_Intron|UFD1L_uc011agy.1_Missense_Mutation_p.R275H|UFD1L_uc002zpp.2_Missense_Mutation_p.R228H	NM_005659	NP_005650	Q92890	UFD1_HUMAN	ubiquitin fusion degradation 1-like isoform A	275					skeletal system development|ubiquitin-dependent protein catabolic process	cytosol|nucleus	protein binding|ubiquitin-specific protease activity				0	Colorectal(54;0.0993)					GACAAGGGGACGTGAATTTCT	0.363													9	27					0	0	1	0	0		T	19442297	T	T	19442297	3	4	55	1	0	0	0	0	1	0	0	0	16961	536	19	1	107	1	UFD1L	22	19442297	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	312226	19442297	31862269	1581	40615											
HIC2	23119	broad.mit.edu	37	chr22	21799284	21799284	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccactcgaagcagctcctgCtgcagctgaaccagcagagg	10	5	12	14	1	0	2	0	1	0	1	2	3	1	2	3	1	7	6	3	1	2	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:21799284C>T	uc002zur.3	+	3	330	c.100C>T	c.(100-102)CTG>TTG	p.L34L	HIC2_uc002zus.3_Silent_p.L34L	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	34					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				GCAGCTCCTGCTGCAGCTGAA	0.642													14	44					0	0	1	0	0		T	21799284	T	T	21799284	2	4	55	1	0	0	0	0	0	0	0	1	7118	796	28	2		2	HIC2	22	21799284	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2356987	21799284	29505282	1582	40616											
PPM1F	9647	broad.mit.edu	37	chr22	22287763	22287763	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagcggccagtcctcacCtctcgcttggctttcctgag	4	10	10	17	2	2	1	1	1	1	0	5	1	4	1	5	2	1	2	5	2	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:22287763C>A	uc002zvp.1	-	5	861	c.747G>T	c.(745-747)GAG>GAT	p.E249D	PPM1F_uc011aik.1_Missense_Mutation_p.E145D|PPM1F_uc002zvq.2_Missense_Mutation_p.E249D	NM_014634	NP_055449	P49593	PPM1F_HUMAN	protein phosphatase 1F	249					apoptosis|protein dephosphorylation	protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(2)|large_intestine(1)|breast(1)|kidney(1)	5	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.155)		CAGTCCTCACCTCTCGCTTGG	0.642													6	19					5.18039e-06	5.43151e-06	1	1	0		A	22287763	A	A	22287763	3	1	55	1	0	0	0	0	1	0	0	0	12361	695	24	5	633	5	PPM1F	22	22287763	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	488479	22287763	29016803	1583	40617											
MMP11	4320	broad.mit.edu	37	chr22	24122599	24122599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtgcggcagacgatggCagaggccctaaaggtatgga	11	5	17	8	2	0	2	0	0	0	2	0	4	0	3	1	6	1	4	1	6	3	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:24122599C>T	uc002zxx.2	+	3	414	c.392C>T	c.(391-393)GCA>GTA	p.A131V	MMP11_uc002zxy.2_RNA|MMP11_uc002zxz.2_5'Flank	NM_005940	NP_005931	P24347	MMP11_HUMAN	matrix metalloproteinase 11 preproprotein	131					collagen catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|large_intestine(1)	3		Medulloblastoma(6;9.86e-08)|all_neural(6;0.000318)				CAGACGATGGCAGAGGCCCTA	0.622													16	40					0	0	1	0	0		T	24122599	T	T	24122599	3	4	55	1	0	0	0	0	1	0	0	0	9668	710	25	2	402	2	MMP11	22	24122599	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1834836	24122599	27181967	1584	40618											
SMARCB1	6598	broad.mit.edu	37	chr22	24135751	24135751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttgtctgttacagatcacGgatacacgactctagccacc	10	11	8	12	2	3	1	1	0	2	1	3	3	3	2	2	1	3	2	2	1	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:24135751G>A	uc002zyb.2	+	3	445	c.238G>A	c.(238-240)GGA>AGA	p.G80R	SMARCB1_uc002zyg.2_Missense_Mutation_p.G80R|SMARCB1_uc011ajb.1_Missense_Mutation_p.G71R|SMARCB1_uc002zya.2_Missense_Mutation_p.G80R|SMARCB1_uc002zyc.2_Missense_Mutation_p.G71R|SMARCB1_uc002zyd.2_Missense_Mutation_p.G71R|SMARCB1_uc002zye.1_Missense_Mutation_p.G43R|SMARCB1_uc002zyf.1_RNA|SMARCB1_uc010gue.1_Intron	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	80					cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.?(2)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				TACAGATCACGGATACACGAC	0.537			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				54	144					0	0	1	0	0		A	24135751	A	A	24135751	3	1	55	1	0	0	0	0	1	0	0	0	14799	1117	39	1	248	1	SMARCB1	22	24135751	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	13152	24135751	27168815	1585	40619											
HSCB	150274	broad.mit.edu	37	chr22	29141967	29141967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaagctgaaagtgaagctgCcatgaaagagattgaatcca	17	7	11	6	0	0	6	0	4	0	2	1	7	1	6	2	0	3	2	2	0	5	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:29141967C>T	uc003aea.2	+	4	580	c.539C>T	c.(538-540)GCC>GTC	p.A180V		NM_172002	NP_741999	Q8IWL3	HSC20_HUMAN	J-type co-chaperone HSC20 precursor	180					iron-sulfur cluster assembly|protein folding	mitochondrion	chaperone binding|heat shock protein binding|metal ion binding			kidney(1)	1						AGTGAAGCTGCCATGAAAGAG	0.348													9	35					0	0	1	0	0		T	29141967	T	T	29141967	3	4	55	1	0	0	0	0	1	0	0	0	7390	739	26	2	553	2	HSCB	22	29141967	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5006216	29141967	22162599	1586	40620											
AP1B1	162	broad.mit.edu	37	chr22	29752476	29752476	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagtccaggatgaagatctGgccccactcggtgcactcat	9	8	11	13	1	2	2	1	1	1	1	4	3	3	3	3	3	1	2	3	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:29752476G>A	uc003afj.2	-	6	839	c.655C>T	c.(655-657)CAG>TAG	p.Q219*	AP1B1_uc003afi.2_Nonsense_Mutation_p.Q219*|AP1B1_uc003afk.2_Nonsense_Mutation_p.Q219*|AP1B1_uc003afl.2_Nonsense_Mutation_p.Q219*	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	219					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						ATGAAGATCTGGCCCCACTCG	0.602													10	34					0	0	1	0	0		A	29752476	A	A	29752476	4	1	55	1	0	0	0	0	0	1	0	0	731	1357	47	4	2266	4	AP1B1	22	29752476	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	610509	29752476	21552090	1587	40621											
CCDC157	550631	broad.mit.edu	37	chr22	30772567	30772567	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagccctgcacatccccaTctcggcagccctgcagccag	7	5	10	19	1	1	0	0	0	1	0	3	0	2	0	5	2	5	4	5	2	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:30772567T>C	uc011aku.1	+	12	2752	c.2092T>C	c.(2092-2094)TCT>CCT	p.S698P	CCDC157_uc011akv.1_Missense_Mutation_p.S698P|uc003aho.1_5'Flank	NM_001017437	NP_001017437	Q569K6	CC157_HUMAN	coiled-coil domain containing 157	698										central_nervous_system(1)	1						CACATCCCCATCTCGGCAGCC	0.667													5	200					0	0	1	0	0		C	30772567	C	C	30772567	3	2	55	1	0	0	0	0	1	0	0	0	2792	1435	50	3	2130	3	CCDC157	22	30772567	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1020091	30772567	20531999	1588	40622											
RNF215	200312	broad.mit.edu	37	chr22	30776051	30776051	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctacccggggcactagcCtgtttgttgcagaagtagtc	7	12	11	11	1	1	1	0	0	1	1	3	1	1	1	2	2	3	5	2	2	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:30776051C>T	uc003ahp.2	-	7	1008	c.1008G>A	c.(1006-1008)CAG>CAA	p.Q336Q	RNF215_uc011akw.1_Silent_p.Q241Q	NM_001017981	NP_001017981	Q9Y6U7	RN215_HUMAN	ring finger protein 215	336	Cytoplasmic (Potential).|RING-type; atypical.					integral to membrane	zinc ion binding			central_nervous_system(1)	1						GGGCACTAGCCTGTTTGTTGC	0.627													24	108					0	0	1	0	0		T	30776051	T	T	30776051	2	4	55	1	0	0	0	0	0	0	0	1	13504	695	24	4		4	RNF215	22	30776051	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3484	30776051	20528515	1589	40623											
GAL3ST1	9514	broad.mit.edu	37	chr22	30951569	30951569	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgaagaagagcaggtttcGgaggtagtgggcattgaagc	11	8	17	5	2	0	3	0	1	0	2	2	5	0	4	0	4	2	4	0	4	4	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:30951569G>A	uc003aig.1	-	4	783	c.643C>T	c.(643-645)CGA>TGA	p.R215*	GAL3ST1_uc003aih.1_Nonsense_Mutation_p.R215*|GAL3ST1_uc003aii.1_Nonsense_Mutation_p.R215*|GAL3ST1_uc010gvz.1_Nonsense_Mutation_p.R215*	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	215	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						AGCAGGTTTCGGAGGTAGTGG	0.627													22	65					0	0	1	0	0		A	30951569	A	A	30951569	4	1	55	1	0	0	0	0	0	1	0	0	6212	1124	39	1	632	1	GAL3ST1	22	30951569	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	175518	30951569	20352997	1590	40624											
MYH9	4627	broad.mit.edu	37	chr22	36684826	36684826	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcgtcccggccctgcaGgtcccgctcgaactgggcct	3	8	12	18	4	0	0	0	0	0	0	4	1	2	0	4	3	3	3	4	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:36684826G>T	uc003apg.2	-	33	4948	c.4717C>A	c.(4717-4719)CTG>ATG	p.L1573M		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1573	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CGGCCCTGCAGGTCCCGCTCG	0.642			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				40	90					3.4345e-17	3.79397e-17	1	1	0		T	36684826	T	T	36684826	3	4	55	1	0	0	0	0	1	0	0	0	10060	991	35	5	1201	5	MYH9	22	36684826	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5733257	36684826	14619740	1591	40625											
SSTR3	6753	broad.mit.edu	37	chr22	37602749	37602749	+	Frame_Shift_Del	DEL	C	-	-																															cgttcatctccttccccttgCccccctccctgctctcctcc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:37602749delC	uc003ara.2	-	2	1156	c.1094delG	c.(1093-1095)GGCfs	p.G365fs	SSTR3_uc003arb.2_Frame_Shift_Del_p.G365fs	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	365	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						CTTCCCCTTGCCCCCCTCCCT	0.582													18	24	---	---	---	---						.	-	37602749	-	-	37602749	7	5	55	1	0	1	0	1	0	0	0	0	15224	739	26	0	166	0	SSTR3	22	37602749	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	917923	37602749	13701817	1592	40626											
SSTR3	6753	broad.mit.edu	37	chr22	37603060	37603060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcacgaagagcgccaccacGgccaccaccatgcgcgtgac	11	2	11	17	5	0	2	0	1	0	1	0	3	0	2	5	1	3	1	5	1	1	0	rs144127697		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:37603060G>A	uc003ara.2	-	2	845	c.783C>T	c.(781-783)GCC>GCT	p.A261A	SSTR3_uc003arb.2_Silent_p.A261A	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	261	Helical; Name=6; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						GCGCCACCACGGCCACCACCA	0.672													19	57					0	0	1	0	0		A	37603060	A	A	37603060	2	1	55	1	0	0	0	0	0	0	0	1	15224	1103	39	1		1	SSTR3	22	37603060	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	311	37603060	13701506	1593	40627											
ELFN2	114794	broad.mit.edu	37	chr22	37771425	37771425	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggtgctattgatgtgctgCgggatggtctcgtagggcgg	5	11	18	7	4	1	1	0	1	1	0	2	2	1	2	0	5	3	3	0	5	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:37771425C>T	uc003asq.3	-	3	936	c.150G>A	c.(148-150)CCG>CCA	p.P50P		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	50	Extracellular (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					TGATGTGCTGCGGGATGGTCT	0.627													14	28					0	0	1	0	0		T	37771425	T	T	37771425	2	4	55	1	0	0	0	0	0	0	0	1	5066	755	27	1		1	ELFN2	22	37771425	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	168365	37771425	13533141	1594	40628											
BAIAP2L2	80115	broad.mit.edu	37	chr22	38485118	38485118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcacaggccgacggcgtgcGgggcagggagcgacggtctg	6	4	19	12	6	2	0	1	0	1	0	2	3	2	1	1	6	2	1	1	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:38485118G>A	uc003auw.2	-	9	1030	c.886C>T	c.(886-888)CGC>TGC	p.R296C	BAIAP2L2_uc003auv.2_5'Flank	NM_025045	NP_079321	Q6UXY1	BI2L2_HUMAN	BAI1-associated protein 2-like 2	296					filopodium assembly|signal transduction		cytoskeletal adaptor activity|SH3 domain binding			pancreas(1)	1	Melanoma(58;0.045)					GACGGCGTGCGGGGCAGGGAG	0.781													3	3					0	0	1	0	0		A	38485118	A	A	38485118	3	1	55	1	0	0	0	0	1	0	0	0	1304	1116	39	1	727	1	BAIAP2L2	22	38485118	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	713693	38485118	12819448	1595	40629											
TNRC6B	23112	broad.mit.edu	37	chr22	40657921	40657921	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccaccagtcaatggtggCaacaatgccaaaagggtggc	12	6	12	11	1	1	0	1	0	0	0	2	0	1	0	3	4	2	1	3	4	5	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:40657921C>T	uc011aor.1	+	4	412	c.201C>T	c.(199-201)GGC>GGT	p.G67G	TNRC6B_uc003aym.2_Silent_p.G103G|TNRC6B_uc003ayn.3_Silent_p.G67G|TNRC6B_uc003ayo.2_5'Flank	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	67					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						TCAATGGTGGCAACAATGCCA	0.612													4	15					0	0	1	0	0		T	40657921	T	T	40657921	2	4	55	1	0	0	0	0	0	0	0	1	16366	697	25	2		2	TNRC6B	22	40657921	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2172803	40657921	10646645	1596	40630											
ZC3H7B	23264	broad.mit.edu	37	chr22	41723285	41723285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtatccgggcgttgttcCgcaaggcacgcgctctcaat	8	9	12	12	5	1	1	1	0	1	1	4	1	3	1	2	2	0	6	2	2	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:41723285C>T	uc003azw.2	+	5	577	c.361C>T	c.(361-363)CGC>TGC	p.R121C	ZC3H7B_uc003azv.1_Missense_Mutation_p.R121C|ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	121	TPR 3.				interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						GGCGTTGTTCCGCAAGGCACG	0.637													29	80					0	0	1	0	0		T	41723285	T	T	41723285	3	4	55	1	0	0	0	0	1	0	0	0	17598	652	23	1	375	1	ZC3H7B	22	41723285	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1065364	41723285	9581281	1597	40631											
ACO2	50	broad.mit.edu	37	chr22	41919894	41919894	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctacaacaggaacttcacGggccgcaacgacgcaaaccc	13	4	8	16	4	1	0	1	0	0	0	2	2	2	1	3	2	5	2	3	2	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:41919894G>A	uc003bac.2	+	12	1453	c.1431G>A	c.(1429-1431)ACG>ACA	p.T477T	ACO2_uc003bad.2_Silent_p.T502T	NM_001098	NP_001089	Q99798	ACON_HUMAN	aconitase 2, mitochondrial precursor	477					citrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron ion binding|isocitrate hydro-lyase (cis-aconitate-forming) activity			breast(2)|ovary(1)|lung(1)	4						GGAACTTCACGGGCCGCAACG	0.597													20	50					0	0	1	0	0		A	41919894	A	A	41919894	2	1	55	1	0	0	0	0	0	0	0	1	147	1103	39	1		1	ACO2	22	41919894	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	196609	41919894	9384672	1598	40632											
MEI1	150365	broad.mit.edu	37	chr22	42095566	42095566	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgaggcaggcggcgacGgcgggcactcccgggcccag	5	3	19	14	5	0	1	0	1	0	0	1	2	1	1	2	6	0	3	2	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:42095566G>A	uc003baz.1	+	1	49	c.24G>A	c.(22-24)ACG>ACA	p.T8T	MEI1_uc003bay.3_Silent_p.T8T|MEI1_uc011apd.1_RNA	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	8							binding			central_nervous_system(1)|skin(1)	2						AGGCGGCGACGGCGGGCACTC	0.697													17	31					0	0	1	0	0		A	42095566	A	A	42095566	2	1	55	1	0	0	0	0	0	0	0	1	9483	1103	39	1		1	MEI1	22	42095566	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	175672	42095566	9209000	1599	40633											
SCUBE1	80274	broad.mit.edu	37	chr22	43606145	43606145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgctttgggggaggcgCgatgtgccagacgcattcag	6	8	16	11	4	1	1	1	0	0	1	1	3	1	2	2	3	2	2	2	3	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:43606145C>T	uc003bdt.1	-	19	2573	c.2485G>A	c.(2485-2487)GCG>ACG	p.A829T		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	829	CUB.				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				GGGGGAGGCGCGATGTGCCAG	0.607													18	36					0	0	1	0	0		T	43606145	T	T	43606145	3	4	55	1	0	0	0	0	1	0	0	0	13969	768	27	1	497	1	SCUBE1	22	43606145	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1510579	43606145	7698421	1600	40634											
FBLN1	2192	broad.mit.edu	37	chr22	45928968	45928968	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggccctgcaagcagcagtgCcgagacacgggtgacgaggt	9	4	17	11	3	0	2	0	1	0	1	0	4	0	2	2	3	4	3	2	3	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:45928968C>T	uc003bgj.1	+	6	717	c.570C>T	c.(568-570)TGC>TGT	p.C190C	FBLN1_uc003bgg.1_Silent_p.C190C|FBLN1_uc003bgh.2_Silent_p.C190C|FBLN1_uc010gzz.2_Silent_p.C228C|FBLN1_uc003bgi.1_Silent_p.C190C	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	190	EGF-like 1.				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		AGCAGCAGTGCCGAGACACGG	0.627													16	47					0	0	1	0	0		T	45928968	T	T	45928968	2	4	55	1	0	0	0	0	0	0	0	1	5712	747	26	2		2	FBLN1	22	45928968	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	2322823	45928968	5375598	1601	40635											
CELSR1	9620	broad.mit.edu	37	chr22	46785200	46785200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgcctacctcgtgaaagtcgGcgtcctgcgtggctgccagg	5	8	14	14	5	0	1	0	1	0	0	3	1	1	1	4	3	3	1	4	3	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:46785200G>A	uc003bhw.1	-	18	6542	c.6542C>T	c.(6541-6543)GCC>GTC	p.A2181V	CELSR1_uc011arc.1_Missense_Mutation_p.A502V	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2181	Extracellular (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GTGAAAGTCGGCGTCCTGCGT	0.597													5	63					0	0	1	0	0		A	46785200	A	A	46785200	3	1	55	1	0	0	0	0	1	0	0	0	3224	1203	42	2	2574	2	CELSR1	22	46785200	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	856232	46785200	4519366	1602	40636											
CELSR1	9620	broad.mit.edu	37	chr22	46930758	46930758	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attaggacatgcgcagtgtgCgaccgtgtgccgtcggatgc	7	9	15	10	5	0	0	0	0	0	0	1	3	0	2	2	2	4	1	2	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:46930758C>T	uc003bhw.1	-	1	2310	c.2310G>A	c.(2308-2310)TCG>TCA	p.S770S		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	770	Extracellular (Potential).|Cadherin 5.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GCGCAGTGTGCGACCGTGTGC	0.602													9	28					0	0	1	0	0		T	46930758	T	T	46930758	2	4	55	1	0	0	0	0	0	0	0	1	3224	755	27	1		1	CELSR1	22	46930758	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	145558	46930758	4373808	1603	40637											
GRAMD4	23151	broad.mit.edu	37	chr22	47054158	47054158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggaccgcgagcggcagCggcggatggagctggagcag	8	3	20	10	5	0	0	0	0	0	0	0	5	0	4	1	6	5	4	1	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:47054158C>T	uc003bhx.2	+	3	397	c.358C>T	c.(358-360)CGG>TGG	p.R120W	GRAMD4_uc010had.2_Missense_Mutation_p.R59W	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	120	Potential.				apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		CGAGCGGCAGCGGCGGATGGA	0.682													7	14					0	0	1	0	0		T	47054158	T	T	47054158	3	4	55	1	0	0	0	0	1	0	0	0	6768	759	27	1	368	1	GRAMD4	22	47054158	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	123400	47054158	4250408	1604	40638											
ZBED4	9889	broad.mit.edu	37	chr22	50279583	50279583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccttcgagtcgccagcccGgccgcgctgtgacgaccacc	5	7	11	18	6	0	1	0	1	0	0	3	3	1	1	6	1	1	1	6	1	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:50279583G>A	uc003bix.2	+	2	2743	c.2273G>A	c.(2272-2274)CGG>CAG	p.R758Q		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	758						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		TCGCCAGCCCGGCCGCGCTGT	0.602													10	15					0	0	1	0	0		A	50279583	A	A	50279583	3	1	55	1	0	0	0	0	1	0	0	0	17545	1116	39	1	2275	1	ZBED4	22	50279583	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3225425	50279583	1024983	1605	40639											
TUBGCP6	85378	broad.mit.edu	37	chr22	50661008	50661008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagagcttgctgtagtggtCgaccagtgcctgcctgaagc	8	9	14	10	1	0	2	0	1	0	1	1	4	0	2	3	1	5	3	3	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:50661008C>T	uc003bkb.1	-	14	2796	c.2284G>A	c.(2284-2286)GAC>AAC	p.D762N	TUBGCP6_uc003bka.1_5'Flank|TUBGCP6_uc010har.1_Intron|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hat.1_5'UTR	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	762					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CTGTAGTGGTCGACCAGTGCC	0.602													12	39					0	0	1	0	0		T	50661008	T	T	50661008	3	4	55	1	0	0	0	0	1	0	0	0	16796	884	31	1	3223	1	TUBGCP6	22	50661008	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	381425	50661008	643558	1606	40640											
HDAC10	83933	broad.mit.edu	37	chr22	50686206	50686206	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccagggactcgtgtggcCtgtggtggacagaccagagg	7	6	19	9	1	0	2	0	0	0	2	1	4	0	4	3	6	0	0	3	6	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:50686206C>A	uc003bkg.2	-	14	1711	c.1338_splice	c.e14-1	p.R446_splice	TUBGCP6_uc003bkb.1_5'Flank|TUBGCP6_uc010har.1_5'Flank|TUBGCP6_uc010has.1_5'Flank|TUBGCP6_uc010hau.1_5'Flank|HDAC10_uc003bke.2_Splice_Site_p.R172_splice|HDAC10_uc003bkf.2_Splice_Site_p.R172_splice|HDAC10_uc010hav.2_Splice_Site_p.R426_splice|HDAC10_uc003bkh.2_Splice_Site_p.R239_splice|HDAC10_uc003bki.2_Splice_Site_p.R396_splice|HDAC10_uc003bkj.2_Intron|HDAC10_uc003bkk.1_Missense_Mutation_p.G118C	NM_032019	NP_114408	Q969S8	HDA10_HUMAN	histone deacetylase 10 isoform 1						negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nucleus	histone deacetylase activity|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CTCGTGTGGCCTGTGGTGGAC	0.642													15	26					1.52009e-12	1.65622e-12	1	1	0		A	50686206	A	A	50686206	5	1	55	1	0	0	0	0	0	0	1	0	7021	695	24	5	700	5	HDAC10	22	50686206	Splice_Site	SNP	C	TCGA-BR-7851-01A-11D-2201-08	25198	50686206	618360	1607	40641											
MAPK12	6300	broad.mit.edu	37	chr22	50693747	50693747	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggccagcgcctcgcctgcCgtcacccgctgctccgcgtc	2	7	12	20	6	1	0	1	0	0	0	4	0	2	0	6	1	3	2	6	1	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:50693747C>T	uc003bkm.1	-	11	1054	c.903G>A	c.(901-903)ACG>ACA	p.T301T	MAPK12_uc003bkn.2_Silent_p.T120T|MAPK12_uc003bko.2_Silent_p.T211T|MAPK12_uc003bkl.1_Silent_p.T291T|MAPK12_uc003bkp.2_Silent_p.T86T|MAPK12_uc003bkq.2_Silent_p.T120T	NM_002969	NP_002960	P53778	MK12_HUMAN	mitogen-activated protein kinase 12	301	Protein kinase.				cell cycle arrest|DNA damage induced protein phosphorylation|muscle organ development|myoblast differentiation|nerve growth factor receptor signaling pathway|positive regulation of muscle cell differentiation|Ras protein signal transduction	mitochondrion|nucleoplasm	ATP binding|magnesium ion binding|MAP kinase activity|protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CCTCGCCTGCCGTCACCCGCT	0.637													23	71					0	0	1	0	0		T	50693747	T	T	50693747	2	4	55	1	0	0	0	0	0	0	0	1	9292	639	23	1		1	MAPK12	22	50693747	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	7541	50693747	610819	1608	40642											
PLXNB2	23654	broad.mit.edu	37	chr22	50716356	50716356	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctgctcgtccaggaagtcGaagaagtacttgactgcagg	10	8	13	10	2	0	2	0	1	0	1	3	4	1	3	2	2	3	3	2	2	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:50716356G>A	uc003bkv.3	-	32	5080	c.4974C>T	c.(4972-4974)TTC>TTT	p.F1658F	PLXNB2_uc003bkt.1_Silent_p.F450F|PLXNB2_uc003bku.1_Silent_p.F643F	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1658	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CCAGGAAGTCGAAGAAGTACT	0.607													16	27					0	0	1	0	0		A	50716356	A	A	50716356	2	1	55	1	0	0	0	0	0	0	0	1	12143	1049	37	1		1	PLXNB2	22	50716356	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	22609	50716356	588210	1609	40643											
PLXNB2	23654	broad.mit.edu	37	chr22	50719833	50719833	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgacgaccaccatgggcacGatgaccagcggcaagatgag	13	4	13	11	3	0	4	0	3	0	1	0	6	0	4	3	2	1	2	3	2	1	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:50719833G>A	uc003bkv.3	-	22	3724	c.3618C>T	c.(3616-3618)ATC>ATT	p.I1206I	PLXNB2_uc003bkt.1_5'UTR|PLXNB2_uc003bku.1_Silent_p.I191I	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1206	Helical; (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CCATGGGCACGATGACCAGCG	0.677													5	16					0	0	1	0	0		A	50719833	A	A	50719833	2	1	55	1	0	0	0	0	0	0	0	1	12143	1048	37	1		1	PLXNB2	22	50719833	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3477	50719833	584733	1610	40644											
SBF1	6305	broad.mit.edu	37	chr22	50885653	50885653	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacagaagttgtaaacgCgacgcgttgtcttcacctgg	9	9	13	10	4	2	1	1	0	1	1	2	2	2	1	1	2	1	4	1	2	3	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:50885653C>T	uc003blh.2	-	41	5795	c.5600G>A	c.(5599-5601)CGC>CAC	p.R1867H	SBF1_uc003ble.2_Missense_Mutation_p.R331H|SBF1_uc003blf.2_Missense_Mutation_p.R343H|SBF1_uc011arx.1_Missense_Mutation_p.R1505H	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1841	PH.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		GTTGTAAACGCGACGCGTTGT	0.687													11	17					0	0	1	0	0		T	50885653	T	T	50885653	3	4	55	1	0	0	0	0	1	0	0	0	13883	768	27	1	85	1	SBF1	22	50885653	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	165820	50885653	418913	1611	40645											
ARSA	410	broad.mit.edu	37	chr22	51063611	51063611	+	Frame_Shift_Del	DEL	G	-	-																															gcaatggcagcaagctgggcGgggggtgcagccaggatgac																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chr22:51063611delG	uc003bnb.3	-	9	1739	c.1486delC	c.(1486-1488)CGCfs	p.R496fs	ARSA_uc003bna.3_Frame_Shift_Del_p.R412fs|ARSA_uc003bnc.3_Frame_Shift_Del_p.R496fs|ARSA_uc003bnd.3_Frame_Shift_Del_p.R496fs|ARSA_uc003bmz.3_Frame_Shift_Del_p.R496fs	NM_001085426	NP_001078895	P15289	ARSA_HUMAN	arylsulfatase A isoform a precursor	496						lysosome	arylsulfatase activity|calcium ion binding|cerebroside-sulfatase activity			pancreas(1)|skin(1)	2		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)	Micafungin(DB01141)	CAAGCTGGGCGGGGGGTGCAG	0.692													3	3	---	---	---	---						.	-	51063611	-	-	51063611	7	5	55	1	0	1	0	1	0	0	0	0	988	1116	39	0	41	0	ARSA	22	51063611	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	177958	51063611	240955	1612	40646											
PLCXD1	55344	broad.mit.edu	37	chrX	215873	215873	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaaccttccgcggctgagCgcgtgggtccgagagcagtg	6	6	15	14	5	0	2	0	1	0	1	2	3	2	2	4	2	3	2	4	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:215873C>T	uc004cpc.2	+	7	1155	c.843C>T	c.(841-843)AGC>AGT	p.S281S	PLCXD1_uc011mgx.1_RNA	NM_018390	NP_060860	Q9NUJ7	PLCX1_HUMAN	phosphatidylinositol-specific phospholipase C, X	281					intracellular signal transduction|lipid metabolic process		phospholipase C activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CGCGGCTGAGCGCGTGGGTCC	0.657													25	24					0	0	1	0	0		T	215873	T	T	215873	2	4	55	1	0	0	0	0	0	0	0	1	12060	767	27	1		1	PLCXD1	23	215873	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08		215873	155054687	1613	40647											
SHROOM2	357	broad.mit.edu	37	chrX	9862480	9862480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttcagctccttggggagcGttgacagcctggaccacccc	7	8	11	15	1	1	1	1	1	0	0	2	3	2	3	5	3	3	2	5	3	0	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:9862480G>A	uc004csu.1	+	4	622	c.532G>A	c.(532-534)GTT>ATT	p.V178I		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	178					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				CTTGGGGAGCGTTGACAGCCT	0.602													17	12					0	0	1	0	0		A	9862480	A	A	9862480	3	1	55	1	0	0	0	0	1	0	0	0	14319	1145	40	1	546	1	SHROOM2	23	9862480	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	9646607	9862480	145408080	1614	40648											
CLCN4	1183	broad.mit.edu	37	chrX	10166025	10166025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaatgtacatcctatgggCgctgctgtttgcatttttgg	6	17	10	8	1	0	0	0	0	0	0	1	0	1	0	1	2	3	5	1	2	3	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:10166025C>T	uc004csy.3	+	6	909	c.479C>T	c.(478-480)GCG>GTG	p.A160V	CLCN4_uc011mid.1_Missense_Mutation_p.A66V	NM_001830	NP_001821	P51793	CLCN4_HUMAN	chloride channel 4	160	Helical; (By similarity).					early endosome membrane|integral to membrane|late endosome membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						ATCCTATGGGCGCTGCTGTTT	0.468													17	36					0	0	1	0	0		T	10166025	T	T	10166025	3	4	55	1	0	0	0	0	1	0	0	0	3468	768	27	1	493	1	CLCN4	23	10166025	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	303545	10166025	145104535	1615	40649											
MID1	4281	broad.mit.edu	37	chrX	10437743	10437743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgagatactcactaacgaCgttggcttgtccggtgaata	11	11	10	9	3	1	2	1	2	0	1	2	4	2	2	1	2	2	2	1	2	4	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:10437743C>T	uc004cte.3	-	7	1470	c.1279G>A	c.(1279-1281)GTC>ATC	p.V427I	MID1_uc004ctd.3_Missense_Mutation_p.V138I|MID1_uc004ctg.3_Missense_Mutation_p.V427I|MID1_uc004cth.3_Missense_Mutation_p.V389I|MID1_uc004ctk.3_Missense_Mutation_p.V427I|MID1_uc004cti.3_Missense_Mutation_p.V427I|MID1_uc004ctj.3_Missense_Mutation_p.V427I|MID1_uc011mie.1_RNA|MID1_uc004ctm.1_Missense_Mutation_p.V478I|MID1_uc004ctn.1_Missense_Mutation_p.V427I|MID1_uc004cto.1_Missense_Mutation_p.V389I|MID1_uc004csz.3_Missense_Mutation_p.V99I|MID1_uc004cta.3_Missense_Mutation_p.V183I|MID1_uc004ctb.3_Missense_Mutation_p.V87I|MID1_uc004ctc.3_Missense_Mutation_p.V194I|MID1_uc004ctl.1_Missense_Mutation_p.V183I	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1	427	Fibronectin type-III.				microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3						TCACTAACGACGTTGGCTTGT	0.443													22	16					0	0	1	0	0		T	10437743	T	T	10437743	3	4	55	1	0	0	0	0	1	0	0	0	9594	536	19	1	740	1	MID1	23	10437743	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	271718	10437743	144832817	1616	40650											
MOSPD2	158747	broad.mit.edu	37	chrX	14933801	14933801	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataaataggtgagaacaacAgctccagaaaaatacagagt	20	7	8	6	0	0	3	0	1	0	3	1	4	1	3	1	1	4	1	1	1	9	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:14933801A>G	uc004cwi.2	+	12	1189	c.1101A>G	c.(1099-1101)ACA>ACG	p.T367T	MOSPD2_uc004cwj.2_Silent_p.T304T	NM_152581	NP_689794	Q8NHP6	MSPD2_HUMAN	motile sperm domain containing 2	367	MSP.					integral to membrane	structural molecule activity			lung(1)	1	Hepatocellular(33;0.183)					TGAGAACAACAGCTCCAGAAA	0.393													5	89					0	0	1	0	0		G	14933801	G	G	14933801	2	3	55	1	0	0	0	0	0	0	0	1	9734	175	7	3		3	MOSPD2	23	14933801	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	4496058	14933801	140336759	1617	40651											
FAM47C	442444	broad.mit.edu	37	chrX	37028265	37028265	+	Frame_Shift_Del	DEL	C	-	-																															aagactcgggtgtccagtctCcccccggagccccccgagac																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:37028265delC	uc004ddl.1	+	1	1796	c.1782delC	c.(1780-1782)CTCfs	p.L594fs		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	594										ovary(3)	3						TGTCCAGTCTCCCCCCGGAGC	0.642													26	21	---	---	---	---						.	-	37028265	-	-	37028265	7	5	55	1	0	1	0	1	0	0	0	0	5585	842	30	0	1784	0	FAM47C	23	37028265	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	22094464	37028265	118242295	1618	40652											
USP9X	8239	broad.mit.edu	37	chrX	41027442	41027442	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgtgacagtgattatcaTgaggaaagaacaattctccc	15	10	9	7	0	2	4	1	3	1	1	3	6	2	5	1	1	1	0	1	1	5	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:41027442T>C	uc004dfb.2	+	18	3240	c.2607T>C	c.(2605-2607)CAT>CAC	p.H869H	USP9X_uc004dfc.2_Silent_p.H869H	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	869					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						GTGATTATCATGAGGAAAGAA	0.333													18	11					0	0	1	0	0		C	41027442	C	C	41027442	2	2	55	1	0	0	0	0	0	0	0	1	17116	1461	51	3		3	USP9X	23	41027442	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	3999177	41027442	114243118	1619	40653											
CFP	5199	broad.mit.edu	37	chrX	47485906	47485906	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactccccccacgagtccCactccccatccactgcagag	8	6	5	22	1	0	1	0	0	0	1	5	2	5	1	8	0	1	1	8	0	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:47485906C>T	uc004dig.3	-	7	1079	c.953G>A	c.(952-954)TGG>TAG	p.W318*	CFP_uc004dih.2_Nonsense_Mutation_p.W318*|CFP_uc004dii.1_Nonsense_Mutation_p.W254*|CFP_uc010nhu.2_Nonsense_Mutation_p.W318*	NM_001145252	NP_001138724	P27918	PROP_HUMAN	complement factor properdin precursor	318	TSP type-1 5.				complement activation, alternative pathway|defense response to bacterium	extracellular space				breast(2)|lung(1)	3						CCACGAGTCCCACTCCCCATC	0.607													12	13					0	0	1	0	0		T	47485906	T	T	47485906	4	4	55	1	0	0	0	0	0	1	0	0	3296	595	21	4	468	4	CFP	23	47485906	Nonsense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	6458464	47485906	107784654	1620	40654											
OTUD5	55593	broad.mit.edu	37	chrX	48780975	48780976	+	Frame_Shift_Ins	INS	-	G	G																															agcagggtagagggacacaaINSggggggaagttgcccggtcg																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:48780975_48780976insG	uc004dlu.2	-	8	1589_1590	c.1528_1529insC	c.(1528-1530)CTTfs	p.L510fs	OTUD5_uc004dlt.3_Frame_Shift_Ins_p.L505fs|OTUD5_uc004dlv.2_Frame_Shift_Ins_p.L505fs|OTUD5_uc011mmp.1_Frame_Shift_Ins_p.L288fs	NM_017602	NP_060072	Q96G74	OTUD5_HUMAN	OTU domain containing 5 isoform a	510					negative regulation of type I interferon production		cysteine-type peptidase activity			pancreas(1)	1						GAGGGACACAAGGGGGGAAGTT	0.525													7	7	---	---	---	---						.	G	48780976	G	G	48780975	7	5	55	1	0	1	1	0	0	0	0	0	11334	72	3	0	194	0	OTUD5	23	48780975	Frame_Shift_Ins	INS	-	TCGA-BR-7851-01A-11D-2201-08	1295069	48780975	106489585	1621	40655											
CACNA1F	778	broad.mit.edu	37	chrX	49066409	49066409	+	Frame_Shift_Del	DEL	G	-	-																															gggatagctcaccgtctggtGgggggatgacctcatctagc																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:49066409delG	uc004dnb.2	-	40	4777	c.4715delC	c.(4714-4716)CCAfs	p.P1572fs	CACNA1F_uc010nip.2_Frame_Shift_Del_p.P1561fs	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	1572	Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	ACCGTCTGGTGGGGGGATGAC	0.597													41	20	---	---	---	---						.	-	49066409	-	-	49066409	7	5	55	1	0	1	0	1	0	0	0	0	2546	1348	47	0	1254	0	CACNA1F	23	49066409	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	285434	49066409	106204151	1622	40656											
FGD1	2245	broad.mit.edu	37	chrX	54473854	54473854	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtgcaggaagctgcagaTgacgctgttctctgcagcca	9	9	13	10	1	1	2	0	1	1	1	2	3	1	3	1	1	5	7	1	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:54473854T>C	uc004dtg.2	-	17	3204	c.2470A>G	c.(2470-2472)ATC>GTC	p.I824V		NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	824	PH 2.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						AAGCTGCAGATGACGCTGTTC	0.532													6	7					0	0	1	0	0		C	54473854	C	C	54473854	3	2	55	1	0	0	0	0	1	0	0	0	5846	1464	51	3	423	3	FGD1	23	54473854	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	5407445	54473854	100796706	1623	40657											
ITIH5L	347365	broad.mit.edu	37	chrX	54776440	54776440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgagtccttcagcagcCtcttgcctagaatcacaggc	8	11	10	12	0	3	2	2	1	1	1	4	2	4	2	3	2	3	1	3	2	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:54776440C>T	uc004dtj.2	-	13	3860	c.3830G>A	c.(3829-3831)AGG>AAG	p.R1277K		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	1277					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						CTTCAGCAGCCTCTTGCCTAG	0.612													8	9					0	0	1	0	0		T	54776440	T	T	54776440	3	4	55	1	0	0	0	0	1	0	0	0	7924	681	24	4	115	4	ITIH5L	23	54776440	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	302586	54776440	100494120	1624	40658											
AWAT2	158835	broad.mit.edu	37	chrX	69261775	69261775	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagccacgatctcctggctTggattctcaatcttgggcat	7	14	9	11	1	3	0	1	0	3	0	5	2	3	1	2	3	1	2	2	3	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:69261775T>A	uc004dxt.1	-	7	891	c.885A>T	c.(883-885)CCA>CCT	p.P295P		NM_001002254	NP_001002254	Q6E213	AWAT2_HUMAN	wax synthase 2	295						endoplasmic reticulum membrane|integral to membrane	long-chain-alcohol O-fatty-acyltransferase activity				0						TCTCCTGGCTTGGATTCTCAA	0.478													15	15					0	0	1	0	0		A	69261775	A	A	69261775	2	1	55	1	0	0	0	0	0	0	0	1	1236	1799	63	5		5	AWAT2	23	69261775	Silent	SNP	T	TCGA-BR-7851-01A-11D-2201-08	14485335	69261775	86008785	1625	40659											
P2RY4	5030	broad.mit.edu	37	chrX	69478728	69478728	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcaaagacagtcagcacCacagctatggtgcggagaga	15	4	12	10	1	1	2	1	0	0	2	1	4	1	3	1	2	4	3	1	2	2	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:69478728C>A	uc004dxz.1	-	1	927	c.747G>T	c.(745-747)GTG>GTT	p.V249V		NM_002565	NP_002556	P51582	P2RY4_HUMAN	pyrimidinergic receptor P2Y4	249	Helical; Name=6; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1						CAGTCAGCACCACAGCTATGG	0.562													5	5					2.7689e-08	2.96885e-08	1	1	0		A	69478728	A	A	69478728	2	1	55	1	0	0	0	0	0	0	0	1	11372	581	21	5		5	P2RY4	23	69478728	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	216953	69478728	85791832	1626	40660											
TAF1	6872	broad.mit.edu	37	chrX	70598812	70598812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaagggacaaaacctcagCgtgcaagcctggcaggctgg	13	4	13	11	1	1	0	1	0	0	0	1	1	1	1	2	4	4	3	2	4	4	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:70598812C>T	uc004dzu.3	+	8	1339	c.1288C>T	c.(1288-1290)CGT>TGT	p.R430C	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.R451C	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	430					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				AAAACCTCAGCGTGCAAGCCT	0.507													57	32					0	0	1	0	0		T	70598812	T	T	70598812	3	4	55	1	0	0	0	0	1	0	0	0	15538	768	27	1	1381	1	TAF1	23	70598812	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1120084	70598812	84671748	1627	40661											
TAF1	6872	broad.mit.edu	37	chrX	70618466	70618466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaacatcgggaagagatgcGaaaagaacggcggaggattc	16	4	14	7	4	0	2	0	0	0	2	2	7	0	5	0	4	3	0	0	4	5	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:70618466G>A	uc004dzu.3	+	24	3713	c.3662G>A	c.(3661-3663)CGA>CAA	p.R1221Q	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.R1242Q|TAF1_uc004dzv.3_Missense_Mutation_p.R395Q	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	1221	HMG box.				G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				GAAGAGATGCGAAAAGAACGG	0.458													8	9					0	0	1	0	0		A	70618466	A	A	70618466	3	1	55	1	0	0	0	0	1	0	0	0	15538	1058	37	1	3819	1	TAF1	23	70618466	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	19654	70618466	84652094	1628	40662											
TAF1	6872	broad.mit.edu	37	chrX	70680578	70680578	+	Frame_Shift_Del	DEL	A	-	-																															gaacacaaggatggacatggAaaatgaagaaagcatgatgt																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:70680578delA	uc004dzu.3	+	37	5372	c.5321delA	c.(5320-5322)GAAfs	p.E1774fs	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Frame_Shift_Del_p.E1795fs|TAF1_uc004dzv.3_Frame_Shift_Del_p.E982fs|TAF1_uc010nle.1_RNA|TAF1_uc010nlf.1_Frame_Shift_Del_p.E199fs|TAF1_uc004dzx.2_RNA|TAF1_uc004dzy.2_RNA|TAF1_uc004dzw.1_RNA|TAF1_uc010nlg.1_RNA	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	1774	Asp/Glu-rich (acidic tail).|Protein kinase 2.				G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				ATGGACATGGAAAATGAAGAA	0.493													6	2	---	---	---	---						.	-	70680578	-	-	70680578	7	5	55	1	0	1	0	1	0	0	0	0	15538	246	9	0	5530	0	TAF1	23	70680578	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08	62112	70680578	84589982	1629	40663											
PCDH11X	27328	broad.mit.edu	37	chrX	91873632	91873632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcagccctctgctacaGccctcctttagcacaggctg	6	9	9	17	0	2	0	1	0	1	0	3	0	3	0	4	2	5	3	4	2	2	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:91873632G>A	uc004efk.1	+	7	4582	c.3737G>A	c.(3736-3738)AGC>AAC	p.S1246N	PCDH11X_uc004efl.1_Missense_Mutation_p.S1236N|PCDH11X_uc004efo.1_Missense_Mutation_p.S1209N|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Missense_Mutation_p.S1238N|PCDH11X_uc004efn.1_Missense_Mutation_p.S1228N	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1246	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CTCTGCTACAGCCCTCCTTTA	0.572													4	57					0	0	1	0	0		A	91873632	A	A	91873632	3	1	55	1	0	0	0	0	1	0	0	0	11527	971	34	2	3885	2	PCDH11X	23	91873632	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	21193054	91873632	63396928	1630	40664											
HNRNPH2	3188	broad.mit.edu	37	chrX	100667857	100667857	+	Frame_Shift_Del	DEL	G	-	-																															agggcactgtgtacacatgaGggggttaccttacagagcca																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:100667857delG	uc004ehm.2	+	2	1051	c.881delG	c.(880-882)AGGfs	p.R294fs	HNRNPH2_uc004ehn.2_Frame_Shift_Del_p.R294fs	NM_019597	NP_062543	P55795	HNRH2_HUMAN	heterogeneous nuclear ribonucleoprotein H2	294	RRM 3.|2 X 16 AA Gly-rich approximate repeats.				nuclear mRNA splicing, via spliceosome	actin cytoskeleton|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						GTACACATGAGGGGGTTACCT	0.438													19	26	---	---	---	---						.	-	100667857	-	-	100667857	7	5	55	1	0	1	0	1	0	0	0	0	7283	1000	35	0	883	0	HNRNPH2	23	100667857	Frame_Shift_Del	DEL	G	TCGA-BR-7851-01A-11D-2201-08	8794225	100667857	54602703	1631	40665											
COL4A5	1287	broad.mit.edu	37	chrX	107925066	107925066	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcctccaggaatccctggCcagcctgggctaaagggtct	7	8	13	13	0	1	0	0	0	1	0	4	1	4	1	5	5	1	1	5	5	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:107925066C>T	uc004enz.1	+	46	4366	c.4164C>T	c.(4162-4164)GGC>GGT	p.G1388G	COL4A5_uc011mso.1_Silent_p.G1385G|COL4A5_uc011msp.1_Silent_p.G64G	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	1382	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						GAATCCCTGGCCAGCCTGGGC	0.423									Alport_syndrome_with_Diffuse_Leiomyomatosis				9	7					0	0	1	0	0		T	107925066	T	T	107925066	2	4	55	1	0	0	0	0	0	0	0	1	3697	726	26	2		2	COL4A5	23	107925066	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	7257209	107925066	47345494	1632	40666											
CHRDL1	91851	broad.mit.edu	37	chrX	109924819	109924819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacagactcatacacaggCatcgtttcttccccgcagaa	13	9	6	13	2	2	2	1	0	1	2	4	2	3	2	2	1	2	3	2	1	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:109924819C>T	uc004eou.3	-	10	1396	c.1047G>A	c.(1045-1047)ATG>ATA	p.M349I	CHRDL1_uc004eov.2_Missense_Mutation_p.M338I|CHRDL1_uc004eow.2_Missense_Mutation_p.M347I|CHRDL1_uc010nps.2_Missense_Mutation_p.M348I|CHRDL1_uc004eot.2_Missense_Mutation_p.M268I|CHRDL1_uc011mss.1_Missense_Mutation_p.M263I	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	341					BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						CATACACAGGCATCGTTTCTT	0.453													17	27					0	0	1	0	0		T	109924819	T	T	109924819	3	4	55	1	0	0	0	0	1	0	0	0	3376	710	25	2	341	2	CHRDL1	23	109924819	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	1999753	109924819	45345741	1633	40667											
ALG13	79868	broad.mit.edu	37	chrX	110928333	110928333	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttctattgtacctgcaggTatgctagagactgattatta	10	16	8	7	0	2	2	0	1	2	1	2	3	2	2	1	1	3	4	1	1	6	8			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:110928333T>C	uc011msy.1	+	3	417	c.383_splice	c.e3+2	p.R128_splice	ALG13_uc004epi.1_Splice_Site_p.S128_splice|ALG13_uc011msw.1_Splice_Site_p.R50_splice|ALG13_uc011msx.1_Splice_Site_p.R24_splice|ALG13_uc011msz.1_Splice_Site_p.R50_splice|ALG13_uc011mta.1_Splice_Site_p.R24_splice|ALG13_uc011mtb.1_Splice_Site_p.R24_splice			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);						dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						TACCTGCAGGTATGCTAGAGA	0.423													10	111					0	0	1	0	0		C	110928333	C	C	110928333	5	2	55	1	0	0	0	0	0	0	1	0	515	1652	57	3	395	3	ALG13	23	110928333	Splice_Site	SNP	T	TCGA-BR-7851-01A-11D-2201-08	1003514	110928333	44342227	1634	40668											
LUZP4	51213	broad.mit.edu	37	chrX	114541133	114541133	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caaagagatctcgtagccagGgagatcttgtggacactcag	12	8	12	9	1	3	2	1	0	2	2	4	5	3	3	1	2	1	1	1	2	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:114541133G>T	uc004eqa.2	+	4	740	c.706G>T	c.(706-708)GGA>TGA	p.G236*	LUZP4_uc004eqb.2_Nonsense_Mutation_p.G154*	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	236						nucleus				ovary(2)	2						TCGTAGCCAGGGAGATCTTGT	0.483													4	42					0.00909568	0.00923805	1	1	0		T	114541133	T	T	114541133	4	4	55	1	0	0	0	0	0	1	0	0	9106	1233	43	5	720	5	LUZP4	23	114541133	Nonsense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3612800	114541133	40729427	1635	40669											
ZCCHC12	170261	broad.mit.edu	37	chrX	117959502	117959502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctgcccgcgaggtcatgCgtgtgcttcaggcgaccaac	6	7	13	15	4	2	0	2	0	0	0	2	2	2	0	3	2	4	1	3	2	1	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:117959502C>T	uc004equ.2	+	4	768	c.295C>T	c.(295-297)CGT>TGT	p.R99C		NM_173798	NP_776159	Q6PEW1	ZCH12_HUMAN	zinc finger, CCHC domain containing 12	99					regulation of transcription, DNA-dependent|transcription, DNA-dependent		nucleic acid binding|zinc ion binding			ovary(1)	1						cgaggtcatgcgtgtgcttca	0													37	52					0	0	1	0	0		T	117959502	T	T	117959502	3	4	55	1	0	0	0	0	1	0	0	0	17606	768	27	1	297	1	ZCCHC12	23	117959502	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	3418369	117959502	37311058	1636	40670											
ANKRD58	347454	broad.mit.edu	37	chrX	118893547	118893547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaatgcatagccttttccGccatctgttcccctcattcc	7	13	5	16	1	2	0	1	0	1	0	5	0	5	0	6	0	2	3	6	0	2	5			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:118893547G>A	uc010nql.2	+	1	972	c.917G>A	c.(916-918)CGC>CAC	p.R306H		NM_001105576	NP_001099046	A6NJG2	ANR58_HUMAN	ankyrin repeat domain 58	306											0						AGCCTTTTCCGCCATCTGTTC	0.637													17	9					0	0	1	0	0		A	118893547	A	A	118893547	3	1	55	1	0	0	0	0	1	0	0	0	684	1087	38	1	919	1	ANKRD58	23	118893547	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	934045	118893547	36377013	1637	40671											
CT47B1	643311	broad.mit.edu	37	chrX	120009386	120009386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccgaccacctcggccgcagGcaccatgtcgctgctgtcgg	5	7	12	17	5	0	0	0	0	0	0	4	1	1	0	5	3	1	4	5	3	0	0			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:120009386G>A	uc011muc.1	-	1	394	c.139C>T	c.(139-141)CCT>TCT	p.P47S		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	47											0						TCGGCCGCAGGCACCATGTCG	0.751													8	36					0	0	1	0	0		A	120009386	A	A	120009386	3	1	55	1	0	0	0	0	1	0	0	0	3992	1203	42	2	768	2	CT47B1	23	120009386	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1115839	120009386	35261174	1638	40672											
STAG2	10735	broad.mit.edu	37	chrX	123205131	123205131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agttgctcagctttattttgGatcatgtcttcattgaacag	9	17	8	7	0	4	1	3	1	1	0	4	2	4	2	0	1	3	3	0	1	2	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:123205131G>A	uc004etz.3	+	24	2830	c.2491G>A	c.(2491-2493)GAT>AAT	p.D831N	STAG2_uc004eua.2_Missense_Mutation_p.D831N|STAG2_uc004eub.2_Missense_Mutation_p.D831N|STAG2_uc004euc.2_Missense_Mutation_p.D831N|STAG2_uc004eud.2_Missense_Mutation_p.D831N|STAG2_uc004eue.2_Missense_Mutation_p.D831N	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	831					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						CTTTATTTTGGATCATGTCTT	0.368													24	17					0	0	1	0	0		A	123205131	A	A	123205131	3	1	55	1	0	0	0	0	1	0	0	0	15268	1174	41	4	2581	4	STAG2	23	123205131	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	3195745	123205131	32065429	1639	40673											
BCORL1	63035	broad.mit.edu	37	chrX	129190011	129190011	+	Frame_Shift_Del	DEL	C	-	-																															tggaggcttggacgacagatCccccccaggctcctctgaga																								rs137862942		TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:129190011delC	uc004evb.1	+	13	5150	c.5036delC	c.(5035-5037)TCCfs	p.S1679fs	BCORL1_uc004evc.1_Frame_Shift_Del_p.S515fs	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1679					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GACGACAGATCCCCCCCAGGC	0.602													19	10	---	---	---	---						.	-	129190011	-	-	129190011	7	5	55	1	0	1	0	1	0	0	0	0	1388	855	30	0	5308	0	BCORL1	23	129190011	Frame_Shift_Del	DEL	C	TCGA-BR-7851-01A-11D-2201-08	5984880	129190011	26080549	1640	40674											
ELF4	2000	broad.mit.edu	37	chrX	129215258	129215258	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcatcatccatcccgttgCttgcgaactcaaagatcagg	11	11	7	12	2	4	1	4	0	0	1	6	2	6	1	2	1	3	2	2	1	3	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:129215258C>A	uc004evd.3	-	2	432	c.47G>T	c.(46-48)AGC>ATC	p.S16I	ELF4_uc004eve.3_Missense_Mutation_p.S16I	NM_001421	NP_001412	Q99607	ELF4_HUMAN	E74-like factor 4	16					natural killer cell proliferation|NK T cell proliferation|positive regulation of transcription from RNA polymerase II promoter	PML body	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CATCCCGTTGCTTGCGAACTC	0.522			T	ERG	AML								4	95					2.7689e-08	2.96885e-08	1	1	0		A	129215258	A	A	129215258	3	1	55	1	0	0	0	0	1	0	0	0	5064	797	28	5	1976	5	ELF4	23	129215258	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	25247	129215258	26055302	1641	40675											
ZNF280C	55609	broad.mit.edu	37	chrX	129380891	129380891	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatcagttcatcgtcatcCtcatcctgagtttcttctac	9	15	5	12	1	6	2	4	1	2	1	9	2	8	2	2	0	1	2	2	0	2	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:129380891C>A	uc004evm.2	-	3	274	c.120G>T	c.(118-120)GAG>GAT	p.E40D	ZNF280C_uc010nrf.1_Missense_Mutation_p.E40D	NM_017666	NP_060136	Q8ND82	Z280C_HUMAN	zinc finger protein 280C	40					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)	3						CATCGTCATCCTCATCCTGAG	0.368													39	24					1.47244e-24	1.64209e-24	1	1	0		A	129380891	A	A	129380891	3	1	55	1	0	0	0	0	1	0	0	0	17841	680	24	5	2161	5	ZNF280C	23	129380891	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	165633	129380891	25889669	1642	40676											
SAGE1	55511	broad.mit.edu	37	chrX	134989590	134989590	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgacagcaactggtattccGggcatgaataccagggatca	12	9	11	9	1	1	2	1	2	0	0	2	3	2	3	2	3	3	3	2	3	4	4			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:134989590G>T	uc004ezh.2	+	9	1163	c.996G>T	c.(994-996)CCG>CCT	p.P332P	SAGE1_uc010nry.1_Silent_p.P301P|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	332										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CTGGTATTCCGGGCATGAATA	0.393													28	29					3.90053e-15	4.28447e-15	1	1	0		T	134989590	T	T	134989590	2	4	55	1	0	0	0	0	0	0	0	1	13834	1103	39	5		5	SAGE1	23	134989590	Silent	SNP	G	TCGA-BR-7851-01A-11D-2201-08	5608699	134989590	20280970	1643	40677											
LDOC1	23641	broad.mit.edu	37	chrX	140271029	140271029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcggggagccgggagctctCgccattaaacgtttcgggga	7	8	15	11	5	1	0	0	0	1	0	4	3	1	3	2	5	3	2	2	5	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:140271029C>T	uc004fbj.2	-	1	282	c.178G>A	c.(178-180)GAG>AAG	p.E60K		NM_012317	NP_036449	O95751	LDOC1_HUMAN	leucine zipper, down-regulated in cancer 1	60					negative regulation of cell proliferation	nucleus	protein binding				0	Acute lymphoblastic leukemia(192;7.65e-05)					CGGGAGCTCTCGCCATTAAAC	0.612													7	5					0	0	1	0	0		T	140271029	T	T	140271029	3	4	55	1	0	0	0	0	1	0	0	0	8725	893	31	1	266	1	LDOC1	23	140271029	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5281439	140271029	14999531	1644	40678											
SLITRK4	139065	broad.mit.edu	37	chrX	142718541	142718541	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactccaagttctctatgccAaggaaagtgtcagctcggag	11	10	10	10	1	2	0	1	0	1	0	5	2	3	2	2	2	3	2	2	2	5	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:142718541A>T	uc004fbx.2	-	2	760	c.384T>A	c.(382-384)CTT>CTA	p.L128L	SLITRK4_uc004fby.2_Silent_p.L128L	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	128	Extracellular (Potential).|LRR 3.					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TCTCTATGCCAAGGAAAGTGT	0.418													24	18					0	0	1	0	0		T	142718541	T	T	142718541	2	4	55	1	0	0	0	0	0	0	0	1	14770	117	5	5		5	SLITRK4	23	142718541	Silent	SNP	A	TCGA-BR-7851-01A-11D-2201-08	2447512	142718541	12552019	1645	40679											
SPANXN2	494119	broad.mit.edu	37	chrX	142795255	142795255	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatccttcagatgagtcCaggtcttcgtcctcctgtga	8	12	10	11	1	2	4	1	2	1	2	7	5	6	4	4	1	0	0	4	1	1	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:142795255C>T	uc004fbz.2	-	2	1177	c.423G>A	c.(421-423)CTG>CTA	p.L141L		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	141										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CAGATGAGTCCAGGTCTTCGT	0.517													6	144					0	0	1	0	0		T	142795255	T	T	142795255	2	4	55	1	0	0	0	0	0	0	0	1	15016	581	21	4		4	SPANXN2	23	142795255	Silent	SNP	C	TCGA-BR-7851-01A-11D-2201-08	76714	142795255	12475305	1646	40680											
AFF2	2334	broad.mit.edu	37	chrX	147891442	147891442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgtgttgaagaaatcttgCgggtgagtttaaacctttat	10	15	11	5	1	1	3	0	2	1	1	1	3	1	3	1	1	2	3	1	1	5	6			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:147891442C>T	uc004fcp.2	+	4	1563	c.1084C>T	c.(1084-1086)CGG>TGG	p.R362W	AFF2_uc004fco.2_Missense_Mutation_p.R358W|AFF2_uc004fcq.2_Missense_Mutation_p.R358W|AFF2_uc004fcr.2_Missense_Mutation_p.R358W|AFF2_uc011mxb.1_Missense_Mutation_p.R362W|AFF2_uc004fcs.2_Missense_Mutation_p.R358W|AFF2_uc011mxc.1_Missense_Mutation_p.R32W	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	362					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					AGAAATCTTGCGGGTGAGTTT	0.333													3	51					0	0	1	0	0		T	147891442	T	T	147891442	3	4	55	1	0	0	0	0	1	0	0	0	357	759	27	1	1153	1	AFF2	23	147891442	Missense_Mutation	SNP	C	TCGA-BR-7851-01A-11D-2201-08	5096187	147891442	7379118	1647	40681											
GPR50	9248	broad.mit.edu	37	chrX	150349428	150349428	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttcaagggtgactctgTccatttcaagcctgactctg	8	13	8	12	0	4	2	2	2	2	0	5	2	5	2	3	1	1	0	3	1	2	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:150349428T>C	uc010ntg.1	+	2	1508	c.1373T>C	c.(1372-1374)GTC>GCC	p.V458A		NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	458	Cytoplasmic (Potential).|Pro-rich.				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GGTGACTCTGTCCATTTCAAG	0.552													9	215					0	0	1	0	0		C	150349428	C	C	150349428	3	2	55	1	0	0	0	0	1	0	0	0	6712	1667	58	3	1379	3	GPR50	23	150349428	Missense_Mutation	SNP	T	TCGA-BR-7851-01A-11D-2201-08	2457986	150349428	4921132	1648	40682											
GABRQ	55879	broad.mit.edu	37	chrX	151821314	151821314	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaccgtgtcgaagcccatgGccatggtgttacccatgacc	9	8	10	14	2	0	1	0	1	0	0	1	2	0	1	5	2	3	1	5	2	3	1			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:151821314G>T	uc004ffp.1	+	9	1489	c.1469G>T	c.(1468-1470)GGC>GTC	p.G490V		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	490						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GAAGCCCATGGCCATGGTGTT	0.547													27	29					1.30897e-18	1.44963e-18	1	1	0		T	151821314	T	T	151821314	3	4	55	1	0	0	0	0	1	0	0	0	6189	1203	42	5	1503	5	GABRQ	23	151821314	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1471886	151821314	3449246	1649	40683											
PDZD4	57595	broad.mit.edu	37	chrX	153071027	153071027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggctcaggatggccaccGcctcttcccggttctggacg	4	9	12	16	3	3	0	1	0	2	0	4	2	4	2	5	5	0	2	5	5	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:153071027G>A	uc004fiz.1	-	6	834	c.584C>T	c.(583-585)GCG>GTG	p.A195V	PDZD4_uc004fiy.1_Missense_Mutation_p.A120V|PDZD4_uc004fix.2_Missense_Mutation_p.A99V|PDZD4_uc004fja.1_Missense_Mutation_p.A201V|PDZD4_uc011mze.1_Missense_Mutation_p.A86V	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	195	PDZ.					cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GATGGCCACCGCCTCTTCCCG	0.632													34	13					0	0	1	0	0		A	153071027	A	A	153071027	3	1	55	1	0	0	0	0	1	0	0	0	11722	1087	38	1	1737	1	PDZD4	23	153071027	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1249713	153071027	2199533	1650	40684											
RPL10	6134	broad.mit.edu	37	chrX	153627879	153627879	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaaggcaaaagtggatgAgtttccgctttgtggccaca	13	9	12	7	1	0	1	0	1	0	0	1	3	1	2	2	3	0	3	2	3	4	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:153627879A>G	uc004fkm.2	+	4	322	c.134A>G	c.(133-135)GAG>GGG	p.E45G	uc010nuv.1_5'Flank|RPL10_uc004fko.2_Missense_Mutation_p.E45G|RPL10_uc004fkn.1_Missense_Mutation_p.E45G|RPL10_uc004fkp.1_Missense_Mutation_p.E45G|RPL10_uc004fkq.1_RNA|RPL10_uc004fkr.1_5'Flank|SNORA70_uc010nux.1_5'Flank	NM_006013	NP_006004	P27635	RL10_HUMAN	ribosomal protein L10	45					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|endoplasmic reticulum	structural constituent of ribosome				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AAAGTGGATGAGTTTCCGCTT	0.522											OREG0019957	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	60					0	0	1	0	0		G	153627879	G	G	153627879	3	3	55	1	0	0	0	0	1	0	0	0	13579	304	11	3	144	3	RPL10	23	153627879	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	556852	153627879	1642681	1651	40685											
SPRY3	10251	broad.mit.edu	37	chrX	155004072	155004072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctttgctctgctgagaGcctcctcgattatggcactt	5	14	9	13	1	1	1	0	1	1	1	3	3	2	1	3	1	4	3	3	1	1	3			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:155004072G>A	uc004fnq.1	+	2	993	c.539G>A	c.(538-540)AGC>AAC	p.S180N	SPRY3_uc010nvl.1_Intron	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	180	SPR.|Cys-rich.				multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TCTGCTGAGAGCCTCCTCGAT	0.582													35	90					0	0	1	0	0		A	155004072	A	A	155004072	3	1	55	1	0	0	0	0	1	0	0	0	15132	971	34	2	541	2	SPRY3	23	155004072	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1376193	155004072	266488	1652	40686											
VAMP7	6845	broad.mit.edu	37	chrX	155169446	155169446	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcactattatcatcatcAtcgtatcaattgtaagtttt	12	17	4	8	1	5	0	5	0	0	0	6	0	5	0	0	0	1	4	0	0	5	7			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrX:155169446A>G	uc004fnr.2	+	7	757	c.583A>G	c.(583-585)ATC>GTC	p.I195V	VAMP7_uc004fnt.2_Missense_Mutation_p.I154V|VAMP7_uc011naa.1_Missense_Mutation_p.I156V|VAMP7_uc011nab.1_Missense_Mutation_p.I94V|VAMP7_uc004fns.2_Missense_Mutation_p.H172R|VAMP7_uc011nac.1_Missense_Mutation_p.I128V	NM_005638	NP_005629	P51809	VAMP7_HUMAN	vesicle-associated membrane protein 7 isoform 1	195	Helical; Anchor for type IV membrane protein; (Potential).				calcium ion-dependent exocytosis|endosome to lysosome transport|eosinophil degranulation|ER to Golgi vesicle-mediated transport|neutrophil degranulation|phagocytosis, engulfment|post-Golgi vesicle-mediated transport|protein transport|vesicle fusion	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|phagocytic vesicle membrane|plasma membrane|SNARE complex|transport vesicle membrane	protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TATCATCATCATCGTATCAAT	0.348													4	124					0	0	1	0	0		G	155169446	G	G	155169446	3	3	55	1	0	0	0	0	1	0	0	0	17143	217	8	3	605	3	VAMP7	23	155169446	Missense_Mutation	SNP	A	TCGA-BR-7851-01A-11D-2201-08	165374	155169446	101114	1653	40687											
UTY	7404	broad.mit.edu	37	chrY	15411007	15411007	+	Frame_Shift_Del	DEL	A	-	-																															tgggccaccaagaactcattAaaaaattcaaattatttctg																										TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrY:15411007delA	uc004fsx.1	-	24	4412	c.3407delT	c.(3406-3408)TTAfs	p.L1136fs	UTY_uc004fsw.1_Frame_Shift_Del_p.L799fs|UTY_uc010nwx.1_Frame_Shift_Del_p.L193fs|UTY_uc004fsy.2_Frame_Shift_Del_p.L1136fs	NM_007125	NP_009056	O14607	UTY_HUMAN	tetratricopeptide repeat protein isoform 3	1136	JmjC.				chromatin modification	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						AGAACTCATTAAAAAATTCAA	0.299													13	6	---	---	---	---						.	-	15411007	-	-	15411007	7	5	55	1	0	1	0	1	0	0	0	0	17133	372	13	0	660	0	UTY	24	15411007	Frame_Shift_Del	DEL	A	TCGA-BR-7851-01A-11D-2201-08		15411007	43962559	1654	40688											
NLGN4Y	22829	broad.mit.edu	37	chrY	16942305	16942305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcggcatccccatgatcGgtcccacagagctcttcagt	7	11	8	15	2	3	2	1	1	2	1	7	2	5	2	3	2	1	2	3	2	0	2			TCGA-BR-7851-01A-11D-2201-08	TCGA-BR-7851-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	f92f7feb-3623-4ccd-8cc1-e27f757f9b21	1559731b-7e0b-4036-8375-a00b6e7f8354	g.chrY:16942305G>A	uc004ftg.2	+	5	1759	c.1507G>A	c.(1507-1509)GGT>AGT	p.G503S	NLGN4Y_uc004fte.2_Missense_Mutation_p.G335S|NLGN4Y_uc011nas.1_Missense_Mutation_p.G523S|NLGN4Y_uc004ftf.2_Missense_Mutation_p.G196S|NLGN4Y_uc004fth.2_Missense_Mutation_p.G503S	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	503	Extracellular (Potential).				brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0						CCCCATGATCGGTCCCACAGA	0.527													34	20					0	0	1	0	0		A	16942305	A	A	16942305	3	1	55	1	0	0	0	0	1	0	0	0	10484	1116	39	1	1675	1	NLGN4Y	24	16942305	Missense_Mutation	SNP	G	TCGA-BR-7851-01A-11D-2201-08	1531298	16942305	42431261	1655	40689											
AJAP1	55966	broad.mit.edu	37	chr1	4832465	4832465	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcctggacatattcaCggcctataacgagaccctgc	11	7	9	14	2	1	1	1	0	0	1	1	3	1	2	3	2	4	1	3	2	3	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:4832465C>A	uc001alm.1	+	4	1424	c.1043C>A	c.(1042-1044)ACG>AAG	p.T348K	AJAP1_uc001aln.2_Missense_Mutation_p.T348K	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	348	Targeting signals.|Cytoplasmic (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		GACATATTCACGGCCTATAAC	0.617													3	37					0.00909568	0.00926665	0.009096	1	0		A	4832465	A	A	4832465	3	1	56	1	0	0	0	0	1	0	0	0	438	536	19	5	1057	5	AJAP1	1	4832465	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08		4832465	244418156	1	40690											
PER3	8863	broad.mit.edu	37	chr1	7879395	7879395	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacactgaaaaacaatagtGtgtacactgagccctgtgag	16	8	9	8	0	0	3	0	3	0	0	0	3	0	3	1	0	4	1	1	0	6	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:7879395G>T	uc001aoo.2	+	13	1724	c.1549G>T	c.(1549-1551)GTG>TTG	p.V517L	PER3_uc009vmg.1_Missense_Mutation_p.V525L|PER3_uc009vmh.1_Missense_Mutation_p.V518L|PER3_uc001aop.2_Missense_Mutation_p.V525L|PER3_uc010nzw.1_Missense_Mutation_p.V206L	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	517	CSNK1E binding domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		AAACAATAGTGTGTACACTGA	0.423													10	144					4.68919e-08	5.06283e-08	0.069234	1	0		T	7879395	T	T	7879395	3	4	56	1	0	0	0	0	1	0	0	0	11750	1377	48	5	1599	5	PER3	1	7879395	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	3046930	7879395	241371226	2	40691											
PEX14	5195	broad.mit.edu	37	chr1	10687392	10687392	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgaactcaagtccgaaattAactccttgaaagggcttctt	13	11	7	10	2	2	1	1	1	1	0	4	3	4	1	2	1	2	1	2	1	5	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:10687392A>G	uc001arn.2	+	8	670	c.649A>G	c.(649-651)AAC>GAC	p.N217D	PEX14_uc009vmv.2_Missense_Mutation_p.N153D|PEX14_uc010oam.1_Missense_Mutation_p.N153D|PEX14_uc010oan.1_Missense_Mutation_p.N174D|PEX14_uc009vmw.2_Missense_Mutation_p.N153D	NM_004565	NP_004556	O75381	PEX14_HUMAN	peroxisomal biogenesis factor 14	217					negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|protein homooligomerization|protein import into peroxisome matrix|transmembrane transport	integral to membrane|nucleus|peroxisomal membrane|protein complex	protein N-terminus binding|transcription corepressor activity			breast(1)	1	Ovarian(185;0.203)	all_lung(284;6.02e-06)|Lung NSC(185;9.62e-06)|Renal(390;0.000147)|Breast(348;0.000932)|Colorectal(325;0.00215)|Hepatocellular(190;0.00913)|Ovarian(437;0.023)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0292)|Colorectal(212;9.13e-08)|COAD - Colon adenocarcinoma(227;2.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000482)|Kidney(185;0.00174)|KIRC - Kidney renal clear cell carcinoma(229;0.00457)|STAD - Stomach adenocarcinoma(132;0.0249)|READ - Rectum adenocarcinoma(331;0.0419)		GTCCGAAATTAACTCCTTGAA	0.567													36	60					0	0	0.069456	0	0		G	10687392	G	G	10687392	3	3	56	1	0	0	0	0	1	0	0	0	11761	362	13	3	679	3	PEX14	1	10687392	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	2807997	10687392	238563229	3	40692											
SPEN	23013	broad.mit.edu	37	chr1	16248837	16248837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttttatgaaatgttagccGaaagaaggtatgtattttaa	15	15	8	3	1	0	2	0	1	0	1	0	3	0	2	1	1	1	3	1	1	8	7			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:16248837G>A	uc001axk.1	+	10	2047	c.1843G>A	c.(1843-1845)GAA>AAA	p.E615K	SPEN_uc010obp.1_Missense_Mutation_p.E574K	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	615					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AATGTTAGCCGAAAGAAGGTA	0.234													4	65					0	0	0.009096	0	0		A	16248837	A	A	16248837	3	1	56	1	0	0	0	0	1	0	0	0	15063	1059	37	1	1881	1	SPEN	1	16248837	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	5561445	16248837	233001784	4	40693											
RAP1GAP	5909	broad.mit.edu	37	chr1	21929359	21929359	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctgcggcgggagccgaaCgggcccgacttcttcctcgt	4	8	14	15	6	1	0	0	0	1	0	3	3	2	1	3	3	4	1	3	3	1	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:21929359C>T	uc001bex.2	-	19	1734	c.1476G>A	c.(1474-1476)CCG>CCA	p.P492P	RAP1GAP_uc001bev.2_Silent_p.P577P|RAP1GAP_uc001bew.2_Silent_p.P556P|RAP1GAP_uc001bey.2_Silent_p.P518P	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	492					regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		GGGAGCCGAACGGGCCCGACT	0.642													18	55					0	0	0.062417	0	0		T	21929359	T	T	21929359	2	4	56	1	0	0	0	0	0	0	0	1	13062	523	19	1		1	RAP1GAP	1	21929359	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	5680522	21929359	227321262	5	40694											
KIAA0467	23334	broad.mit.edu	37	chr1	43908169	43908169	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcagcattgggccgagcGctggttcgcctggtgcagtg	4	8	19	10	3	0	0	0	0	0	0	1	1	0	0	2	5	3	5	2	5	0	2	rs138303356		TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:43908169G>A	uc001cjk.1	+	43	5796	c.5334G>A	c.(5332-5334)GCG>GCA	p.A1778A		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	2677						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGGGCCGAGCGCTGGTTCGCC	0.597													7	43					0	0	0.02938	0	0		A	43908169	A	A	43908169	2	1	56	1	0	0	0	0	0	0	0	1	8194	1074	38	1		1	KIAA0467	1	43908169	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	21978810	43908169	205342452	6	40695											
C1orf141	400757	broad.mit.edu	37	chr1	67591441	67591441	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttatgatagttacatttttGattttgtaatgctgcatgac	10	19	8	4	0	0	3	0	3	0	0	0	3	0	3	0	0	3	5	0	0	4	8			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:67591441G>C	uc001ddl.1	-	3	338	c.227C>G	c.(226-228)TCA>TGA	p.S76*	C1orf141_uc001ddm.1_Nonsense_Mutation_p.S76*|C1orf141_uc001ddn.1_RNA	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	76										ovary(1)	1						TTACATTTTTGATTTTGTAAT	0.239													4	141					0	0	0.009096	0	0		C	67591441	C	C	67591441	4	2	56	1	0	0	0	0	0	1	0	0	2004	1294	45	5	995	5	C1orf141	1	67591441	Nonsense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	23683272	67591441	181659180	7	40696											
USP33	23032	broad.mit.edu	37	chr1	78201795	78201795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatatccagatcatcaaataCggcaaccagaggagttttta	15	11	7	8	1	2	2	2	0	0	2	3	3	3	3	2	2	2	2	2	2	6	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:78201795C>T	uc001dht.2	-	7	840	c.493G>A	c.(493-495)GTA>ATA	p.V165I	USP33_uc001dhu.2_Missense_Mutation_p.V134I|USP33_uc001dhv.2_5'UTR|USP33_uc001dhw.2_Missense_Mutation_p.V165I	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	165					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						TCATCAAATACGGCAACCAGA	0.343													3	68					0	0	0.009096	0	0		T	78201795	T	T	78201795	3	4	56	1	0	0	0	0	1	0	0	0	17090	536	19	1	2423	1	USP33	1	78201795	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	10610354	78201795	171048826	8	40697											
GBP7	388646	broad.mit.edu	37	chr1	89617985	89617985	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcattctccaggtactcAtcttctgtgatggggtgtcc	7	13	11	10	0	4	1	1	1	3	0	6	1	5	1	2	4	1	2	2	4	2	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:89617985A>T	uc001dna.2	-	5	730	c.591T>A	c.(589-591)GAT>GAA	p.D197E	GBP2_uc001dmy.1_5'Flank	NM_207398	NP_997281	Q8N8V2	GBP7_HUMAN	guanylate binding protein 4-like	197						integral to membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.0908)		all cancers(265;0.00835)|Epithelial(280;0.0322)		CCAGGTACTCATCTTCTGTGA	0.478													6	94					0	0	0.021553	0	0		T	89617985	T	T	89617985	3	4	56	1	0	0	0	0	1	0	0	0	6294	214	8	5	1353	5	GBP7	1	89617985	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	11416190	89617985	159632636	9	40698											
DPYD	1806	broad.mit.edu	37	chr1	97915676	97915676	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaatatgcagccgttttcTcactgatgagctcaatattc	11	13	6	11	1	2	2	2	2	1	0	4	2	2	2	2	0	3	3	2	0	4	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:97915676T>G	uc001drv.2	-	14	1981	c.1844A>C	c.(1843-1845)GAG>GCG	p.E615A		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	615					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	AGCCGTTTTCTCACTGATGAG	0.443													7	70					0	0	0.058154	0	0		G	97915676	G	G	97915676	3	3	56	1	0	0	0	0	1	0	0	0	4751	1551	54	5	1273	5	DPYD	1	97915676	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	8297691	97915676	151334945	10	40699											
ADORA3	140	broad.mit.edu	37	chr1	112045631	112045631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgccgcaggctacctgaCggtaagcttgacccgcaagt	9	6	11	15	4	0	2	0	2	0	0	0	2	0	2	4	2	2	5	4	2	3	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:112045631C>T	uc001ebh.3	-	1	1113	c.346G>A	c.(346-348)GTC>ATC	p.V116I	ADORA3_uc001ebg.3_Intron|ADORA3_uc001ebf.2_Missense_Mutation_p.V116I	NM_000677	NP_000668	P33765	AA3R_HUMAN	adenosine A3 receptor isoform 2	116	Cytoplasmic (By similarity).				activation of adenylate cyclase activity|inflammatory response|regulation of heart contraction	integral to plasma membrane	adenosine receptor activity, G-protein coupled			ovary(2)|large_intestine(1)|skin(1)	4		all_cancers(81;1.63e-06)|all_epithelial(167;5.01e-06)|all_lung(203;8.02e-05)|Lung NSC(277;0.000156)		all cancers(265;0.0185)|Colorectal(144;0.0186)|Lung(183;0.0238)|COAD - Colon adenocarcinoma(174;0.0644)|Epithelial(280;0.0872)|LUSC - Lung squamous cell carcinoma(189;0.134)	Adenosine(DB00640)|Aminophylline(DB01223)	GGCTACCTGACGGTAAGCTTG	0.522													7	30					0	0	0.02938	0	0		T	112045631	T	T	112045631	3	4	56	1	0	0	0	0	1	0	0	0	329	536	19	1	1332	1	ADORA3	1	112045631	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	14129955	112045631	137204990	11	40700											
HRNR	388697	broad.mit.edu	37	chr1	152185618	152185618	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaagtgctactaggaaaactGagaaaatatgagccagaact	18	7	10	6	0	0	3	0	2	0	2	0	6	0	4	1	1	5	1	1	1	9	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:152185618G>C	uc001ezt.1	-	3	8563	c.8487C>G	c.(8485-8487)CTC>CTG	p.L2829L		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2829					keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TAGGAAAACTGAGAAAATATG	0.403													6	92					0	0	0.021553	0	0		C	152185618	C	C	152185618	2	2	56	1	0	0	0	0	0	0	0	1	7375	1277	45	5		5	HRNR	1	152185618	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	40139987	152185618	97065003	12	40701			1	14		4	4	2694	G		1.51022e-06
HRNR	388697	broad.mit.edu	37	chr1	152185707	152185707	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccctgagccacttccatgctGactataaccagaggactgtc	10	9	8	14	0	0	3	0	2	0	1	2	4	1	4	4	1	3	1	4	1	2	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:152185707G>C	uc001ezt.1	-	3	8474	c.8398C>G	c.(8398-8400)CAG>GAG	p.Q2800E		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2800	30.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTTCCATGCTGACTATAACCA	0.522													20	213					0	0	0.099896	0	0		C	152185707	C	C	152185707	3	2	56	1	0	0	0	0	1	0	0	0	7375	1299	45	5	158	5	HRNR	1	152185707	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	89	152185707	97064914	13	40702			1	14		4	4	2694	G		1.51022e-06
HRNR	388697	broad.mit.edu	37	chr1	152185775	152185775	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggaagactgccctgaaccaGacccgtgtcggccgtggcta	8	7	13	13	3	0	3	0	1	0	2	1	4	0	4	4	3	2	1	4	3	3	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:152185775G>C	uc001ezt.1	-	3	8406	c.8330C>G	c.(8329-8331)TCT>TGT	p.S2777C		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2777	30.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCCTGAACCAGACCCGTGTCG	0.592													13	189					0	0	0.038395	0	0		C	152185775	C	C	152185775	3	2	56	1	0	0	0	0	1	0	0	0	7375	942	33	5	226	5	HRNR	1	152185775	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	68	152185775	97064846	14	40703			1	14		4	4	2694	G		1.51022e-06
HRNR	388697	broad.mit.edu	37	chr1	152188311	152188311	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttggccgtggcccaaagactGacgggagccagacccatgct	9	6	13	13	2	0	3	0	1	0	2	0	4	0	4	4	3	2	1	4	3	1	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:152188311G>C	uc001ezt.1	-	3	5870	c.5794C>G	c.(5794-5796)CAG>GAG	p.Q1932E		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1932	21.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCCAAAGACTGACGGGAGCCA	0.582													16	702					0	0	0.055883	0	0		C	152188311	C	C	152188311	3	2	56	1	0	0	0	0	1	0	0	0	7375	1299	45	5	2762	5	HRNR	1	152188311	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	2536	152188311	97062310	15	40704			1	14		4	4	2694	G		1.51022e-06
FLG2	388698	broad.mit.edu	37	chr1	152330090	152330090	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcgatccagcatatgcaTgatgacatccactgtgtctg	10	12	8	11	1	2	2	0	2	2	0	5	3	4	2	2	0	2	2	2	0	1	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:152330090T>C	uc001ezw.3	-	3	245	c.172A>G	c.(172-174)ATG>GTG	p.M58V	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	58	S-100-like (By similarity).|EF-hand 2.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGCATATGCATGATGACATCC	0.438													6	86					0	0	0.02938	0	0		C	152330090	C	C	152330090	3	2	56	1	0	0	0	0	1	0	0	0	5937	1464	51	3	7007	3	FLG2	1	152330090	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	141779	152330090	96920531	16	40705											
LCE2B	26239	broad.mit.edu	37	chr1	152659558	152659558	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccaccacaggccccgtcTcttccaccggcgccggcacc	6	4	10	21	4	1	0	0	0	1	0	3	1	2	0	8	3	1	1	8	3	0	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:152659558T>C	uc001fai.2	+	2	293	c.239T>C	c.(238-240)CTC>CCC	p.L80P		NM_014357	NP_055172	O14633	LCE2B_HUMAN	late cornified envelope 2B	80	Cys-rich.				keratinization					ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGGCCCCGTCTCTTCCACCGG	0.687													8	146					0	0	0.080935	0	0		C	152659558	C	C	152659558	3	2	56	1	0	0	0	0	1	0	0	0	8682	1551	54	3	241	3	LCE2B	1	152659558	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	329468	152659558	96591063	17	40706											
SPRR3	6707	broad.mit.edu	37	chr1	152975747	152975747	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgagccaggttgtaccaAggtccctgagccaggctgta	8	8	12	13	0	0	2	0	2	0	0	1	2	1	2	5	3	3	4	5	3	3	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:152975747A>C	uc001fax.3	+	3	401	c.251A>C	c.(250-252)AAG>ACG	p.K84T	SPRR3_uc001faz.3_Missense_Mutation_p.K84T|SPRR3_uc001fay.2_Missense_Mutation_p.K76T	NM_005416	NP_005407	Q9UBC9	SPRR3_HUMAN	small proline-rich protein 3	84	6.|14 X 8 AA approximate tandem repeats.				keratinization|peptide cross-linking|wound healing	cytoplasm	protein binding|structural molecule activity			skin(1)	1	Lung NSC(65;1.49e-28)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGTTGTACCAAGGTCCCTGAG	0.592													5	57					0	0	0.014758	0	0		C	152975747	C	C	152975747	3	2	56	1	0	0	0	0	1	0	0	0	15128	72	3	5	253	5	SPRR3	1	152975747	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	316189	152975747	96274874	18	40707											
OR10K2	391107	broad.mit.edu	37	chr1	158390620	158390620	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgagaagccgaggaagaTgacctctctcaccacagtct	12	7	11	11	1	3	3	1	2	2	2	4	7	3	5	3	2	1	0	3	2	2	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:158390620T>A	uc010pii.1	-	1	37	c.37A>T	c.(37-39)ATC>TTC	p.I13F		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	13	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					CCGAGGAAGATGACCTCTCTC	0.512													4	55					0	0	0.009096	0	0		A	158390620	A	A	158390620	3	1	56	1	0	0	0	0	1	0	0	0	10933	1464	51	5	903	5	OR10K2	1	158390620	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	5414873	158390620	90860001	19	40708											
OR10K1	391109	broad.mit.edu	37	chr1	158435654	158435654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggctgtgccatccaaatGttttccttcctcttctttgg	4	17	8	12	0	2	0	0	0	2	0	5	0	5	0	4	2	1	2	4	2	1	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:158435654G>A	uc010pij.1	+	1	303	c.303G>A	c.(301-303)ATG>ATA	p.M101I		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	101	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					CCATCCAAATGTTTTCCTTCC	0.502													10	161					0	0	0.016723	0	0		A	158435654	A	A	158435654	3	1	56	1	0	0	0	0	1	0	0	0	10932	1377	48	4	305	4	OR10K1	1	158435654	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	45034	158435654	90814967	20	40709											
SPTA1	6708	broad.mit.edu	37	chr1	158639573	158639573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttggttgcagtcttgtctaCagtctgaaaaaataaaaata	15	14	7	5	0	3	1	0	1	3	0	3	1	3	1	0	1	2	2	0	1	8	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:158639573C>T	uc001fst.1	-	13	1802	c.1603G>A	c.(1603-1605)GTA>ATA	p.V535I		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	535	Spectrin 6.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					GTCTTGTCTACAGTCTGAAAA	0.403													18	166					0	0	0.038395	0	0		T	158639573	T	T	158639573	3	4	56	1	0	0	0	0	1	0	0	0	15141	478	17	4	5816	4	SPTA1	1	158639573	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	203919	158639573	90611048	21	40710											
OR6K6	128371	broad.mit.edu	37	chr1	158724937	158724937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caccatccccaagatgctgtCctgcctaatcagtgagcaga	11	8	8	14	0	1	3	1	1	0	2	3	3	3	3	5	0	3	2	5	0	2	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:158724937C>T	uc001fsw.1	+	1	332	c.332C>T	c.(331-333)TCC>TTC	p.S111F		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	111	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					AAGATGCTGTCCTGCCTAATC	0.512													9	195					0	0	0.058154	0	0		T	158724937	T	T	158724937	3	4	56	1	0	0	0	0	1	0	0	0	11223	855	30	4	334	4	OR6K6	1	158724937	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	85364	158724937	90525684	22	40711											
RGS4	5999	broad.mit.edu	37	chr1	163044232	163044232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagaaggattcctaccgccGcttcctcaagtctcgattct	8	11	9	13	3	3	1	1	0	2	1	6	4	5	2	4	2	1	1	4	2	3	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:163044232G>A	uc009wuy.2	+	5	1011	c.500G>A	c.(499-501)CGC>CAC	p.R167H	RGS4_uc001gcl.3_Missense_Mutation_p.R264H|RGS4_uc009wuz.2_3'UTR|RGS4_uc009wva.2_Missense_Mutation_p.R149H	NM_005613	NP_005604	P49798	RGS4_HUMAN	regulator of G-protein signaling 4 isoform 2	167	RGS.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity			ovary(2)|central_nervous_system(1)	3						TCCTACCGCCGCTTCCTCAAG	0.502													14	314					0	0	0.0333	0	0		A	163044232	A	A	163044232	3	1	56	1	0	0	0	0	1	0	0	0	13332	1087	38	1	813	1	RGS4	1	163044232	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	4319295	163044232	86206389	23	40712											
LMX1A	4009	broad.mit.edu	37	chr1	165175151	165175151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtggggtgagaccctgtCggaagggatctgagctgtag	7	8	20	6	1	1	2	0	2	1	1	2	5	1	4	1	6	1	2	1	6	2	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:165175151C>T	uc001gcy.1	-	7	1159	c.938G>A	c.(937-939)CGA>CAA	p.R313Q	LMX1A_uc001gcz.1_Missense_Mutation_p.R313Q|LMX1A_uc001gcw.1_Missense_Mutation_p.R31Q|LMX1A_uc001gcx.1_Missense_Mutation_p.R64Q	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	313						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					GAGACCCTGTCGGAAGGGATC	0.582													17	82					0	0	0.049695	0	0		T	165175151	T	T	165175151	3	4	56	1	0	0	0	0	1	0	0	0	8878	884	31	1	218	1	LMX1A	1	165175151	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	2130919	165175151	84075470	24	40713											
TPR	7175	broad.mit.edu	37	chr1	186324590	186324590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaattttggtattttgtgatCgcaaatctgtaacttgttct	10	19	7	5	1	2	1	0	1	2	0	3	1	2	1	0	1	1	4	0	1	4	8			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:186324590C>T	uc001grv.2	-	17	2420	c.2123G>A	c.(2122-2124)CGA>CAA	p.R708Q		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	708	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		ATTTTGTGATCGCAAATCTGT	0.284			T	NTRK1	papillary thyroid								6	50					0	0	0.047766	0	0		T	186324590	T	T	186324590	3	4	56	1	0	0	0	0	1	0	0	0	16442	884	31	1	5108	1	TPR	1	186324590	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	21149439	186324590	62926031	25	40714											
CFHR3	10878	broad.mit.edu	37	chr1	196748352	196748352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttcatgagaatatgcgtaGaccatactttccagtagctg	12	13	8	8	1	1	2	1	1	0	2	2	3	2	2	2	0	3	3	2	0	5	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:196748352G>A	uc001gtl.2	+	2	206	c.119G>A	c.(118-120)AGA>AAA	p.R40K	CFHR3_uc001gtk.2_Missense_Mutation_p.R40K|CFHR3_uc010poy.1_Missense_Mutation_p.R40K|CFHR1_uc001gtm.2_Missense_Mutation_p.R3K	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	40	Sushi 1.					extracellular space					0						AATATGCGTAGACCATACTTT	0.323													10	67					0	0	0.09319	0	0		A	196748352	A	A	196748352	3	1	56	1	0	0	0	0	1	0	0	0	3289	942	33	4	125	4	CFHR3	1	196748352	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	10423762	196748352	52502269	26	40715											
CFHR3	10878	broad.mit.edu	37	chr1	196749078	196749078	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacggagaaaggctggtcTcctactcccagatgcatccg	9	9	11	12	2	1	2	0	0	1	2	4	3	3	2	3	3	3	3	3	3	3	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:196749078T>C	uc001gtl.2	+	3	492	c.405T>C	c.(403-405)TCT>TCC	p.S135S	CFHR3_uc001gtk.2_Silent_p.S135S|CFHR3_uc010poy.1_Silent_p.S135S|CFHR1_uc001gtm.2_Intron	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	135	Sushi 2.					extracellular space					0						AAGGCTGGTCTCCTACTCCCA	0.493													6	83					0	0	0.02938	0	0		C	196749078	C	C	196749078	2	2	56	1	0	0	0	0	0	0	0	1	3289	1538	54	3		3	CFHR3	1	196749078	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	726	196749078	52501543	27	40716											
PTPRC	5788	broad.mit.edu	37	chr1	198711490	198711490	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagatgcctgatggttcaAgtagaggtatgttctaacct	11	12	11	7	0	2	3	1	1	1	2	2	4	2	3	2	2	2	4	2	2	4	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:198711490A>G	uc001gur.1	+	25	2865	c.2685A>G	c.(2683-2685)CAA>CAG	p.Q895Q	PTPRC_uc001gus.1_Silent_p.Q847Q|PTPRC_uc001gut.1_Silent_p.Q734Q	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	895	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.	Substrate (By similarity).			axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TGATGGTTCAAGTAGAGGTAT	0.363													12	103					0	0	0.038395	0	0		G	198711490	G	G	198711490	2	3	56	1	0	0	0	0	0	0	0	1	12822	69	3	3		3	PTPRC	1	198711490	Silent	SNP	A	TCGA-BR-7901-01A-11D-2201-08	1962412	198711490	50539131	28	40717											
INTS7	25896	broad.mit.edu	37	chr1	212156066	212156066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agttaggactctaactccatGagctgcaatgcccctgttat	10	12	8	11	0	1	1	0	1	1	0	2	2	2	2	3	1	4	4	3	1	4	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:212156066G>A	uc001hiw.1	-	9	1189	c.1084C>T	c.(1084-1086)CAT>TAT	p.H362Y	INTS7_uc009xdb.1_Missense_Mutation_p.H362Y|INTS7_uc001hix.1_Missense_Mutation_p.H238Y|INTS7_uc001hiy.1_Missense_Mutation_p.H362Y|INTS7_uc010pta.1_Missense_Mutation_p.H313Y	NM_015434	NP_056249	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	362					snRNA processing	integrator complex	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		CTAACTCCATGAGCTGCAATG	0.378													16	96					0	0	0.049695	0	0		A	212156066	A	A	212156066	3	1	56	1	0	0	0	0	1	0	0	0	7799	1290	45	4	1852	4	INTS7	1	212156066	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	13444576	212156066	37094555	29	40718											
ACTN2	88	broad.mit.edu	37	chr1	236914822	236914822	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cacgctgcccgaggcggacgGagagcggcagtccatcatgg	8	4	16	13	5	1	1	1	0	0	1	2	4	2	2	2	5	2	2	2	5	0	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:236914822G>C	uc001hyf.2	+	15	1913	c.1709G>C	c.(1708-1710)GGA>GCA	p.G570A	ACTN2_uc001hyg.2_Missense_Mutation_p.G362A|ACTN2_uc009xgi.1_Missense_Mutation_p.G570A|ACTN2_uc010pxu.1_Missense_Mutation_p.G259A|ACTN2_uc001hyh.2_Missense_Mutation_p.G258A	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	570	Spectrin 3.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GAGGCGGACGGAGAGCGGCAG	0.537													8	65					0	0	0.047766	0	0		C	236914822	C	C	236914822	3	2	56	1	0	0	0	0	1	0	0	0	205	1174	41	5	1767	5	ACTN2	1	236914822	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	24758756	236914822	12335799	30	40719											
RYR2	6262	broad.mit.edu	37	chr1	237617865	237617865	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagaatcggcaaaatctcttCcaggaagaggtccgtttcta	13	10	9	9	2	2	2	0	0	2	2	6	3	4	3	2	3	0	2	2	3	6	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:237617865C>T	uc001hyl.1	+	15	1587	c.1467C>T	c.(1465-1467)TTC>TTT	p.F489F		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	489	Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AAAATCTCTTCCAGGAAGAGG	0.423													5	11					0	0	0.014758	0	0		T	237617865	T	T	237617865	2	4	56	1	0	0	0	0	0	0	0	1	13794	854	30	4		4	RYR2	1	237617865	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	703043	237617865	11632756	31	40720											
RYR2	6262	broad.mit.edu	37	chr1	237675029	237675029	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacacccatgcctggtggaGttctccaagctgcctgaaca	10	8	9	14	0	1	1	0	1	1	0	2	2	1	2	4	2	5	2	4	2	3	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:237675029G>A	uc001hyl.1	+	24	2880	c.2760G>A	c.(2758-2760)GAG>GAA	p.E920E		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	920	Cytoplasmic (By similarity).|1.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GCCTGGTGGAGTTCTCCAAGC	0.438													6	2					0	0	0.047766	0	0		A	237675029	A	A	237675029	2	1	56	1	0	0	0	0	0	0	0	1	13794	1020	36	4		4	RYR2	1	237675029	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	57164	237675029	11575592	32	40721											
PLD5	200150	broad.mit.edu	37	chr1	242511425	242511425	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccgacatttattttggcaAtttttttctgagagtccatc	9	18	6	8	1	1	1	0	1	1	1	3	3	2	1	2	1	1	1	2	1	3	8			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:242511425A>T	uc001hzn.1	-	2	436	c.309T>A	c.(307-309)AAT>AAA	p.N103K	PLD5_uc001hzl.3_Missense_Mutation_p.N41K|PLD5_uc001hzm.3_Translation_Start_Site|PLD5_uc001hzo.1_Missense_Mutation_p.I9N			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	103						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			TATTTTGGCAATTTTTTTCTG	0.443													9	206					0	0	0.069234	0	0		T	242511425	T	T	242511425	3	4	56	1	0	0	0	0	1	0	0	0	12068	101	4	5	1344	5	PLD5	1	242511425	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	4836396	242511425	6739196	33	40722											
OR2T6	254879	broad.mit.edu	37	chr1	248551074	248551074	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attaacatagaccctcatctCcacacccccatgtacttcct	11	11	2	17	0	2	1	1	0	1	1	4	1	3	1	5	0	2	1	5	0	3	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:248551074C>A	uc001iei.1	+	1	165	c.165C>A	c.(163-165)CTC>CTA	p.L55L		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.L55P(1)		ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ACCCTCATCTCCACACCCCCA	0.473													33	29					2.6416e-12	2.88659e-12	0.086207	1	0		A	248551074	A	A	248551074	2	1	56	1	0	0	0	0	0	0	0	1	11048	842	30	5		5	OR2T6	1	248551074	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	6039649	248551074	699547	34	40723											
OR2T3	343173	broad.mit.edu	37	chr1	248637588	248637588	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaggagcatgatgcagtcaAgaatgaaccaagaaaagtag	18	6	12	5	0	1	5	1	3	0	2	1	6	1	6	1	1	3	3	1	1	7	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:248637588A>G	uc001iel.1	+	1	937	c.937A>G	c.(937-939)AGA>GGA	p.R313G		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	313	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GATGCAGTCAAGAATGAACCA	0.483													14	346					0	0	0.043863	0	0		G	248637588	G	G	248637588	3	3	56	1	0	0	0	0	1	0	0	0	11042	64	3	3	939	3	OR2T3	1	248637588	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	86514	248637588	613033	35	40724											
OR2T10	127069	broad.mit.edu	37	chr1	248756332	248756332	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatagaagaggctgaccacTgtaatgtgggaggagcaggt	12	7	15	7	0	0	3	0	1	0	2	0	5	0	5	2	4	1	3	2	4	3	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr1:248756332T>A	uc010pzn.1	-	1	738	c.738A>T	c.(736-738)ACA>ACT	p.T246T		NM_001004693	NP_001004693	Q8NGZ9	O2T10_HUMAN	olfactory receptor, family 2, subfamily T,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGCTGACCACTGTAATGTGGG	0.443													9	48					0	0	0.047766	0	0		A	248756332	A	A	248756332	2	1	56	1	0	0	0	0	0	0	0	1	11036	1567	55	5		5	OR2T10	1	248756332	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	118744	248756332	494289	36	40725											
MYT1L	23040	broad.mit.edu	37	chr2	1926913	1926913	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcatcctcagcgatttTgccgaggtttaacaatgact	9	12	10	10	2	1	1	1	1	0	0	2	3	2	1	2	2	4	3	2	2	2	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:1926913T>C	uc002qxe.2	-	10	1455	c.628A>G	c.(628-630)AAA>GAA	p.K210E	MYT1L_uc002qxd.2_Missense_Mutation_p.K210E|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	210					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		TCAGCGATTTTGCCGAGGTTT	0.423													4	33					0	0	0.02938	0	0		C	1926913	C	C	1926913	3	2	56	1	0	0	0	0	1	0	0	0	10125	1821	63	3	2990	3	MYT1L	2	1926913	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08		1926913	241272460	37	40726											
FAM98A	25940	broad.mit.edu	37	chr2	33817259	33817259	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agcccactcacctcaagctgGaattcttcagcttcactcgg	9	10	7	15	1	5	0	4	0	1	0	6	1	5	1	2	2	3	2	2	2	2	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:33817259G>C	uc002rpa.1	-	3	299	c.225C>G	c.(223-225)TTC>TTG	p.F75L	FAM98A_uc010yne.1_5'UTR	NM_015475	NP_056290	Q8NCA5	FA98A_HUMAN	hypothetical protein LOC25940	75										ovary(1)	1	all_hematologic(175;0.115)					CCTCAAGCTGGAATTCTTCAG	0.378													6	162					0	0	0.02938	0	0		C	33817259	C	C	33817259	3	2	56	1	0	0	0	0	1	0	0	0	5670	1165	41	5	1355	5	FAM98A	2	33817259	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	31890346	33817259	209382114	38	40727											
AAK1	22848	broad.mit.edu	37	chr2	69870090	69870090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtagccactgcccaggcccGaggtgctgccccctcctccg	4	7	11	19	2	0	0	0	0	0	0	2	1	2	0	7	2	4	2	7	2	1	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:69870090G>A	uc002sfp.2	-	2	588	c.83C>T	c.(82-84)TCG>TTG	p.S28L	AAK1_uc010fdk.2_Missense_Mutation_p.S28L|AAK1_uc010yqm.1_Missense_Mutation_p.S28L|AAK1_uc010fdm.1_Missense_Mutation_p.S28L	NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	28	Gly-rich.					coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0						GCCCAGGCCCGAGGTGCTGCC	0.647													9	26					0	0	0.058154	0	0		A	69870090	A	A	69870090	3	1	56	1	0	0	0	0	1	0	0	0	16	1059	37	1	2886	1	AAK1	2	69870090	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	36052831	69870090	173329283	39	40728											
C2orf42	54980	broad.mit.edu	37	chr2	70377631	70377631	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctcgccaatcttagattgggGaaggatatctgggatccact	10	11	11	9	1	2	1	0	0	2	1	4	4	3	4	2	4	0	0	2	4	4	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:70377631G>C	uc002sgh.2	-	10	1910	c.1582C>G	c.(1582-1584)CCC>GCC	p.P528A		NM_017880	NP_060350	Q9NWW7	CB042_HUMAN	hypothetical protein LOC54980	528											0						TTAGATTGGGGAAGGATATCT	0.512													4	72					0	0	0.014758	0	0		C	70377631	C	C	70377631	3	2	56	1	0	0	0	0	1	0	0	0	2169	1174	41	5	146	5	C2orf42	2	70377631	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	507541	70377631	172821742	40	40729											
SEMA4F	10505	broad.mit.edu	37	chr2	74900920	74900920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcatttgactcatacgagCgcattaaagtcccacgggtg	11	9	11	10	3	1	1	1	1	0	0	2	3	2	1	1	1	3	2	1	1	3	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:74900920C>T	uc002sna.1	+	7	898	c.787C>T	c.(787-789)CGC>TGC	p.R263C	SEMA4F_uc010ysb.1_3'UTR|SEMA4F_uc010ffq.1_Missense_Mutation_p.R230C|SEMA4F_uc010ffr.1_Intron|SEMA4F_uc002snb.1_5'UTR|SEMA4F_uc002snc.1_Intron	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	263	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CTCATACGAGCGCATTAAAGT	0.552													6	166					0	0	0.038147	0	0		T	74900920	T	T	74900920	3	4	56	1	0	0	0	0	1	0	0	0	14060	768	27	1	813	1	SEMA4F	2	74900920	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	4523289	74900920	168298453	41	40730											
AFF3	3899	broad.mit.edu	37	chr2	100623915	100623915	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttggagagttcatcccccTtgttagtctggagaaagaaa	11	11	12	7	0	2	3	1	0	1	3	3	5	3	3	2	3	0	3	2	3	3	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:100623915T>A	uc002tag.2	-	5	418	c.182A>T	c.(181-183)AAG>ATG	p.K61M	AFF3_uc002taf.2_Missense_Mutation_p.K86M|AFF3_uc010fiq.1_Missense_Mutation_p.K61M|AFF3_uc010yvr.1_Missense_Mutation_p.K215M|AFF3_uc002tah.1_Missense_Mutation_p.K86M|AFF3_uc010fir.1_Missense_Mutation_p.K138M|AFF3_uc002tai.2_Translation_Start_Site	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	61					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						TTCATCCCCCTTGTTAGTCTG	0.423													9	106					0	0	0.069234	0	0		A	100623915	A	A	100623915	3	1	56	1	0	0	0	0	1	0	0	0	358	1609	56	5	3578	5	AFF3	2	100623915	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	25722995	100623915	142575458	42	40731											
RANBP2	5903	broad.mit.edu	37	chr2	109380603	109380603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaccgcgcgaaattgtttcGtttcgatgtagaatccaaag	12	11	9	9	5	0	1	0	0	0	1	3	3	1	1	2	0	1	3	2	0	5	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:109380603G>A	uc002tem.3	+	20	3734	c.3608G>A	c.(3607-3609)CGT>CAT	p.R1203H		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1203	RanBD1 1.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						AAATTGTTTCGTTTCGATGTA	0.393													9	89					0	0	0.080935	0	0		A	109380603	A	A	109380603	3	1	56	1	0	0	0	0	1	0	0	0	13053	1145	40	1	3686	1	RANBP2	2	109380603	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	8756688	109380603	133818770	43	40732											
DPP10	57628	broad.mit.edu	37	chr2	116548896	116548896	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgtcccttcccaaagattTtatggaccgaaaccagtatg	11	12	8	10	1	0	1	0	0	0	1	2	3	2	2	4	1	1	2	4	1	4	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:116548896T>G	uc002tla.1	+	19	2121	c.1664T>G	c.(1663-1665)TTT>TGT	p.F555C	DPP10_uc002tlb.1_Missense_Mutation_p.F505C|DPP10_uc002tlc.1_Missense_Mutation_p.F551C|DPP10_uc002tle.2_Missense_Mutation_p.F559C|DPP10_uc002tlf.1_Missense_Mutation_p.F548C	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	555	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						CCCAAAGATTTTATGGACCGA	0.299													13	86					0	0	0.055883	0	0		G	116548896	G	G	116548896	3	3	56	1	0	0	0	0	1	0	0	0	4733	1841	64	5	1909	5	DPP10	2	116548896	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	7168293	116548896	126650477	44	40733											
LCT	3938	broad.mit.edu	37	chr2	136575081	136575081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaggcatccaccacgctctCattctgccatccaccatgat	10	9	6	16	1	2	1	1	1	2	0	5	2	4	1	5	1	1	2	5	1	1	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:136575081C>T	uc002tuu.1	-	6	1548	c.1537G>A	c.(1537-1539)GAG>AAG	p.E513K		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	513	Extracellular (Potential).|4 X approximate repeats.|2.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		ACCACGCTCTCATTCTGCCAT	0.597													5	66					0	0	0.014758	0	0		T	136575081	T	T	136575081	3	4	56	1	0	0	0	0	1	0	0	0	8709	835	29	4	4294	4	LCT	2	136575081	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	20026185	136575081	106624292	45	40734											
SPOPL	339745	broad.mit.edu	37	chr2	139326627	139326627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccacagtttggcattccaCgcaaacggctaaaacagtcc	12	8	8	13	2	0	0	0	0	0	0	3	0	3	0	3	2	2	4	3	2	3	3	rs142534399	by1000genomes	TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:139326627C>T	uc002tvh.2	+	11	1556	c.1156C>T	c.(1156-1158)CGC>TGC	p.R386C		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	386						nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		TGGCATTCCACGCAAACGGCT	0.443													17	310					0	0	0.055883	0	0		T	139326627	T	T	139326627	3	4	56	1	0	0	0	0	1	0	0	0	15110	536	19	1	1194	1	SPOPL	2	139326627	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	2751546	139326627	103872746	46	40735											
ZEB2	9839	broad.mit.edu	37	chr2	145156214	145156214	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagatgaggaagaaacactgTtatgatctaaactgatgcta	16	10	9	6	0	1	5	0	3	1	2	1	6	1	6	0	1	3	2	0	1	6	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:145156214T>G	uc002tvu.2	-	8	3020	c.2540A>C	c.(2539-2541)AAC>ACC	p.N847T	ZEB2_uc002tvv.2_Missense_Mutation_p.N841T|ZEB2_uc010zbm.1_Missense_Mutation_p.N818T|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.N876T	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	847						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		AGAAACACTGTTATGATCTAA	0.338													6	78					0	0	0.038147	0	0		G	145156214	G	G	145156214	3	3	56	1	0	0	0	0	1	0	0	0	17649	1725	60	5	1116	5	ZEB2	2	145156214	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	5829587	145156214	98043159	47	40736											
GRB14	2888	broad.mit.edu	37	chr2	165365252	165365252	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaatattaagcctgtacCttaaagcagaatccatagtt	16	12	5	8	0	1	1	1	0	0	1	2	1	2	1	3	0	3	3	3	0	9	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:165365252C>T	uc002ucl.2	-	7	1468	c.927G>A	c.(925-927)AAG>AAA	p.K309K	GRB14_uc010zcv.1_Silent_p.K222K|GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	309	PH.				blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						AAGCCTGTACCTTAAAGCAGA	0.363													6	71					0	0	0.02938	0	0		T	165365252	T	T	165365252	2	4	56	1	0	0	0	0	0	0	0	1	6773	695	24	4		4	GRB14	2	165365252	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	20209038	165365252	77834121	48	40737											
WIPF1	7456	broad.mit.edu	37	chr2	175437098	175437098	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggaaacctccctgggccActtgggggtgaaaagggttt	10	8	14	9	0	0	1	0	1	0	0	1	2	1	2	3	5	1	1	3	5	3	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:175437098A>G	uc002uiy.2	-	6	767	c.435T>C	c.(433-435)AGT>AGC	p.S145S	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Silent_p.S145S|WIPF1_uc010fqt.1_Silent_p.S145S|WIPF1_uc002ujc.1_Silent_p.S145S|WIPF1_uc002uiz.2_Silent_p.S145S|WIPF1_uc002ujb.1_Silent_p.S145S|WIPF1_uc010zep.1_Silent_p.S145S	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	145					actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						TCCCTGGGCCACTTGGGGGTG	0.582													7	30					0	0	0.02938	0	0		G	175437098	G	G	175437098	2	3	56	1	0	0	0	0	0	0	0	1	17393	156	6	3		3	WIPF1	2	175437098	Silent	SNP	A	TCGA-BR-7901-01A-11D-2201-08	10071846	175437098	67762275	49	40738											
HOXD10	3236	broad.mit.edu	37	chr2	176983843	176983843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctagagatcagtaagagcGttaacctcaccgacaggcag	13	6	11	11	2	2	2	2	0	0	2	2	4	2	2	3	1	2	3	3	1	3	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:176983843G>A	uc002ukj.2	+	2	977	c.907G>A	c.(907-909)GTT>ATT	p.V303I		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	303	Homeobox.					nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		CAGTAAGAGCGTTAACCTCAC	0.498													29	88					0	0	0.064281	0	0		A	176983843	A	A	176983843	3	1	56	1	0	0	0	0	1	0	0	0	7335	1145	40	1	913	1	HOXD10	2	176983843	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	1546745	176983843	66215530	50	40739											
ZNF804A	91752	broad.mit.edu	37	chr2	185801262	185801262	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctaccacagaggaaaatgTtaagcataacgaggcatcca	17	6	9	9	1	0	1	0	0	0	1	1	3	1	2	2	2	4	4	2	2	5	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:185801262T>G	uc002uph.2	+	4	1733	c.1139T>G	c.(1138-1140)GTT>GGT	p.V380G		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	380						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						GAGGAAAATGTTAAGCATAAC	0.383													7	48					0	0	0.038147	0	0		G	185801262	G	G	185801262	3	3	56	1	0	0	0	0	1	0	0	0	18195	1725	60	5	1153	5	ZNF804A	2	185801262	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	8817419	185801262	57398111	51	40740											
CDK15	65061	broad.mit.edu	37	chr2	202672278	202672278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccccaggggacttcaagCtgcccgtgcccagaagttca	9	7	10	15	1	3	1	3	0	0	1	3	2	3	2	4	2	3	2	4	2	2	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:202672278C>T	uc002uyt.2	+	2	234	c.185C>T	c.(184-186)GCT>GTT	p.A62V	CDK15_uc010ftm.2_5'UTR|CDK15_uc002uys.2_Missense_Mutation_p.A11V|CDK15_uc010ftn.1_Missense_Mutation_p.A11V|CDK15_uc010fto.1_Missense_Mutation_p.A62V	NM_139158	NP_631897	Q96Q40	CDK15_HUMAN	PFTAIRE protein kinase 2	62							ATP binding|cyclin-dependent protein kinase activity|metal ion binding|protein binding			breast(2)|ovary(1)|lung(1)|kidney(1)	5					Adenosine triphosphate(DB00171)	GGACTTCAAGCTGCCCGTGCC	0.443													23	107					0	0	0.027356	0	0		T	202672278	T	T	202672278	3	4	56	1	0	0	0	0	1	0	0	0	3134	797	28	2	34	2	CDK15	2	202672278	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	16871016	202672278	40527095	52	40741											
INO80D	54891	broad.mit.edu	37	chr2	206892937	206892937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctttcctaaacgtatgcCggcatttcttttgacgagat	10	14	8	9	3	1	2	0	1	1	1	2	3	2	2	2	1	3	3	2	1	4	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:206892937C>T	uc002vaz.3	-	6	1601	c.1196G>A	c.(1195-1197)CGG>CAG	p.R399Q		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	399					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						AAACGTATGCCGGCATTTCTT	0.502													4	12					0	0	0.009096	0	0		T	206892937	T	T	206892937	3	4	56	1	0	0	0	0	1	0	0	0	7765	652	23	1	1911	1	INO80D	2	206892937	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	4220659	206892937	36306436	53	40742											
ERBB4	2066	broad.mit.edu	37	chr2	212251754	212251754	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattacagcaggagtcatcaAaaatctcagcagtagcaccc	15	7	7	12	0	3	0	3	0	1	0	4	1	3	1	1	1	4	4	1	1	4	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:212251754A>C	uc002veg.1	-	27	3403	c.3305T>G	c.(3304-3306)TTT>TGT	p.F1102C	ERBB4_uc002veh.1_Missense_Mutation_p.F1086C|ERBB4_uc010zji.1_Missense_Mutation_p.F1092C|ERBB4_uc010zjj.1_Missense_Mutation_p.F1076C	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1102	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		GGAGTCATCAAAAATCTCAGC	0.547										TSP Lung(8;0.080)			6	69					0	0	0.021553	0	0		C	212251754	C	C	212251754	3	2	56	1	0	0	0	0	1	0	0	0	5217	14	1	5	629	5	ERBB4	2	212251754	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	5358817	212251754	30947619	54	40743											
SMARCAL1	50485	broad.mit.edu	37	chr2	217279594	217279594	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagcaaggcccatcccaaaAtttcccaagggagtcttgta	13	8	8	12	0	1	0	0	0	1	0	3	1	3	1	3	2	1	2	3	2	6	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr2:217279594A>G	uc002vgc.3	+	3	497	c.167A>G	c.(166-168)AAT>AGT	p.N56S	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.N56S|SMARCAL1_uc010fvg.2_Missense_Mutation_p.N56S	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	56					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		CCATCCCAAAATTTCCCAAGG	0.502									Schimke_Immuno-Osseous_Dysplasia				6	83					0	0	0.021553	0	0		G	217279594	G	G	217279594	3	3	56	1	0	0	0	0	1	0	0	0	14798	101	4	3	169	3	SMARCAL1	2	217279594	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	5027840	217279594	25919779	55	40744											
CNTN6	27255	broad.mit.edu	37	chr3	1269633	1269633	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagtgcctggccaccaatcTtctggggacaattctgagtc	8	10	10	13	0	3	1	0	1	3	0	4	2	3	2	4	3	1	0	4	3	2	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr3:1269633T>G	uc003boz.2	+	4	581	c.314T>G	c.(313-315)CTT>CGT	p.L105R	CNTN6_uc010hbo.2_Missense_Mutation_p.L100R|CNTN6_uc011asj.1_Missense_Mutation_p.L33R|CNTN6_uc003bpa.2_Missense_Mutation_p.L105R	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	105	Ig-like C2-type 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		GCCACCAATCTTCTGGGGACA	0.423													27	148					0	0	0.064281	0	0		G	1269633	G	G	1269633	3	3	56	1	0	0	0	0	1	0	0	0	3648	1609	56	5	324	5	CNTN6	3	1269633	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08		1269633	196752797	56	40745											
CNTN4	152330	broad.mit.edu	37	chr3	2908441	2908441	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttttcctttcagagctgAgttatgcctggatcttcaat	7	19	7	8	0	3	2	2	1	1	1	4	3	4	3	2	1	2	2	2	1	2	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr3:2908441A>G	uc003bpc.2	+	7	681	c.460A>G	c.(460-462)AGT>GGT	p.S154G	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Missense_Mutation_p.S154G	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	154	Ig-like C2-type 2.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		TTCAGAGCTGAGTTATGCCTG	0.353													23	109					0	0	0.027356	0	0		G	2908441	G	G	2908441	3	3	56	1	0	0	0	0	1	0	0	0	3646	304	11	3	478	3	CNTN4	3	2908441	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	1638808	2908441	195113989	57	40746											
IQSEC1	9922	broad.mit.edu	37	chr3	12977720	12977720	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gtgcagggctgtctggggttCggtgtcccgggcccgcgccg	1	8	19	13	5	1	0	0	0	1	0	3	0	2	0	3	5	1	3	3	5	0	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr3:12977720C>G	uc003bxt.2	-	3	847	c.838G>C	c.(838-840)GAA>CAA	p.E280Q	IQSEC1_uc003bxu.3_Missense_Mutation_p.E158Q|IQSEC1_uc011auw.1_Missense_Mutation_p.E266Q	NM_014869	NP_055684	Q6DN90	IQEC1_HUMAN	IQ motif and Sec7 domain 1 isoform b	280					regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1						GTCTGGGGTTCGGTGTCCCGG	0.637													9	96					0	0	0.047766	0	0		G	12977720	G	G	12977720	3	3	56	1	0	0	0	0	1	0	0	0	7833	893	31	5	2646	5	IQSEC1	3	12977720	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	10069279	12977720	185044710	58	40747											
ULK4	54986	broad.mit.edu	37	chr3	41938397	41938397	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggagattcagcttggctcGggaggcccccatgctcttct	7	10	12	12	1	3	1	1	0	2	1	4	3	3	2	2	4	2	3	2	4	1	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr3:41938397G>A	uc003ckv.3	-	15	1648	c.1447C>T	c.(1447-1449)CGA>TGA	p.R483*	ULK4_uc003ckw.2_Nonsense_Mutation_p.R483*|ULK4_uc003ckx.1_Nonsense_Mutation_p.R483*	NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	483							ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		AGCTTGGCTCGGGAGGCCCCC	0.512													13	78					0	0	0.024245	0	0		A	41938397	A	A	41938397	4	1	56	1	0	0	0	0	0	1	0	0	17004	1124	39	1	2472	1	ULK4	3	41938397	Nonsense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	28960677	41938397	156084033	59	40748											
QRICH1	54870	broad.mit.edu	37	chr3	49094328	49094329	+	Missense_Mutation	DNP	CT	TG	TG																															tggagttgctgctgctgctgCtgtggtggtggtgtctgttc																										TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr3:49094328_49094329CT>TG	uc010hkq.2	-	4	1600_1601	c.1304_1305AG>CA	c.(1303-1305)CAG>CCA	p.Q435P	QRICH1_uc003cvu.2_Missense_Mutation_p.Q435P|QRICH1_uc003cvv.2_Missense_Mutation_p.Q435P	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	435	Gln-rich.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		gctgctgctgctgtggtggtgg	0.361													3	51					0	0	0.004672	0	0		TG	49094329	TG	TG	49094328	3	4	56	1	0	0	0	0	1	0	0	0	12904	796	28	2	1057	2	QRICH1	3	49094328	Missense_Mutation	DNP	CT	TCGA-BR-7901-01A-11D-2201-08	7155931	49094328	148928102	60	40749											
ACTR8	93973	broad.mit.edu	37	chr3	53909990	53909990	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttaccgagtattccgatgaGacaccccatcctccacacag	11	8	6	16	2	0	1	0	1	0	1	3	4	3	1	6	0	1	1	6	0	2	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr3:53909990G>C	uc003dhd.2	-	7	955	c.896C>G	c.(895-897)TCT>TGT	p.S299C	ACTR8_uc003dhb.2_Missense_Mutation_p.S49C|ACTR8_uc003dhc.2_Missense_Mutation_p.S188C	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	299					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		ATTCCGATGAGACACCCCATC	0.463													10	90					0	0	0.080935	0	0		C	53909990	C	C	53909990	3	2	56	1	0	0	0	0	1	0	0	0	217	942	33	5	1006	5	ACTR8	3	53909990	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	4815662	53909990	144112440	61	40750											
IMPG2	50939	broad.mit.edu	37	chr3	100951814	100951814	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcattacaggcctgaaacTtgcaagggttggcttcatca	11	12	9	9	0	3	1	3	1	0	0	3	1	3	1	1	3	3	3	1	3	3	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr3:100951814T>A	uc003duq.1	-	15	3247	c.3044A>T	c.(3043-3045)AAG>ATG	p.K1015M	IMPG2_uc011bhe.1_Missense_Mutation_p.K878M|IMPG2_uc010hpj.1_RNA	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	1015	Extracellular (Potential).|EGF-like 1.				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GGCCTGAAACTTGCAAGGGTT	0.433													12	77					0	0	0.020292	0	0		A	100951814	A	A	100951814	3	1	56	1	0	0	0	0	1	0	0	0	7745	1609	56	5	701	5	IMPG2	3	100951814	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	47041824	100951814	97070616	62	40751											
BCHE	590	broad.mit.edu	37	chr3	165547928	165547928	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcattcagaagaatttcTtggggatctttatttctaag	10	17	8	6	0	5	2	2	0	3	2	5	3	5	3	0	2	0	1	0	2	4	8	rs138271111		TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr3:165547928T>G	uc003fem.3	-	2	1054	c.894A>C	c.(892-894)CAA>CAC	p.Q298H	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	298					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	GAAGAATTTCTTGGGGATCTT	0.408													10	75					0	0	0.024245	0	0		G	165547928	G	G	165547928	3	3	56	1	0	0	0	0	1	0	0	0	1359	1606	56	5	926	5	BCHE	3	165547928	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	64596114	165547928	32474502	63	40752											
ZBTB49	166793	broad.mit.edu	37	chr4	4303731	4303731	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaggagcctctttcagaaTtcttcaagccagaagaatga	14	9	8	10	0	4	4	2	1	2	3	4	5	4	5	3	1	2	0	3	1	4	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr4:4303731T>A	uc003ghu.2	+	3	343	c.168T>A	c.(166-168)AAT>AAA	p.N56K	ZBTB49_uc003ghv.2_Intron|ZBTB49_uc010icy.2_RNA|ZBTB49_uc010icz.2_5'Flank	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	56	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TCTTTCAGAATTCTTCAAGCC	0.318													3	52					0	0	0.004672	0	0		A	4303731	A	A	4303731	3	1	56	1	0	0	0	0	1	0	0	0	17575	1490	52	5	174	5	ZBTB49	4	4303731	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08		4303731	186850545	64	40753											
PPP2R2C	5522	broad.mit.edu	37	chr4	6374386	6374386	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttggcaaagatcctccgaggGctcacctccaccatcagatc	10	8	8	15	1	2	2	2	0	0	2	6	3	5	2	5	2	0	2	5	2	1	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr4:6374386G>C	uc003gjc.2	-	5	859	c.489C>G	c.(487-489)AGC>AGG	p.S163R	PPP2R2C_uc003gjb.2_Missense_Mutation_p.S146R|PPP2R2C_uc011bwd.1_Missense_Mutation_p.S156R|PPP2R2C_uc011bwe.1_Missense_Mutation_p.S156R|PPP2R2C_uc003gja.2_Missense_Mutation_p.S163R|PPP2R2C_uc003gjd.1_Missense_Mutation_p.S251R	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	163					signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						TCCTCCGAGGGCTCACCTCCA	0.577													11	122					0	0	0.016723	0	0		C	6374386	C	C	6374386	3	2	56	1	0	0	0	0	1	0	0	0	12408	1194	42	5	874	5	PPP2R2C	4	6374386	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	2070655	6374386	184779890	65	40754											
SLIT2	9353	broad.mit.edu	37	chr4	20618698	20618698	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctgtgagccatgccacaAgaaggtgtgtgcccatggca	9	8	14	10	0	0	2	0	1	0	1	0	2	0	2	3	3	3	2	3	3	2	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr4:20618698A>T	uc003gpr.1	+	35	4217	c.4013A>T	c.(4012-4014)AAG>ATG	p.K1338M	SLIT2_uc003gps.1_Missense_Mutation_p.K1330M	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1338	EGF-like 7.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CCATGCCACAAGAAGGTGTGT	0.597													3	36					0	0	0.004672	0	0		T	20618698	T	T	20618698	3	4	56	1	0	0	0	0	1	0	0	0	14765	72	3	5	4151	5	SLIT2	4	20618698	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	14244312	20618698	170535578	66	40755											
LRRC66	339977	broad.mit.edu	37	chr4	52883456	52883456	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaacacttccaaagcatgTaaatatgcaaaagggcttaa	17	11	6	7	0	0	0	0	0	0	0	1	0	1	0	1	1	3	4	1	1	8	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr4:52883456T>C	uc003gzi.2	-	1	337	c.324A>G	c.(322-324)TTA>TTG	p.L108L		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	108						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						CCAAAGCATGTAAATATGCAA	0.403													15	68					0	0	0.0333	0	0		C	52883456	C	C	52883456	2	2	56	1	0	0	0	0	0	0	0	1	9036	1635	57	3		3	LRRC66	4	52883456	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	32264758	52883456	138270820	67	40756											
HADH	3033	broad.mit.edu	37	chr4	108940820	108940820	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcctgtcatgaaacttgtgGaggtcagtgggtgtcagctt	7	13	14	7	0	3	1	3	1	0	0	3	2	3	2	1	3	3	1	1	3	1	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr4:108940820G>T	uc003hyq.2	+	4	693	c.544G>T	c.(544-546)GAG>TAG	p.E182*	HADH_uc010ilx.2_Nonsense_Mutation_p.E182*|HADH_uc010ily.2_Nonsense_Mutation_p.E5*|HADH_uc003hyr.2_Nonsense_Mutation_p.E186*	NM_005327	NP_005318	Q16836	HCDH_HUMAN	L-3-hydroxyacyl-Coenzyme A dehydrogenase	182					fatty acid beta-oxidation	mitochondrial matrix	3-hydroxyacyl-CoA dehydrogenase activity|NAD+ binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000168)	NADH(DB00157)	GAAACTTGTGGAGGTCAGTGG	0.532													7	133					0.000157383	0.000164675	0.038147	1	0		T	108940820	T	T	108940820	4	4	56	1	0	0	0	0	0	1	0	0	6958	1175	41	5	558	5	HADH	4	108940820	Nonsense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	56057364	108940820	82213456	68	40757											
FAT4	79633	broad.mit.edu	37	chr4	126412149	126412149	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaagggaattgcatcttccTataagggatggtaatacttt	12	13	10	6	0	1	0	0	0	1	0	2	2	2	2	1	3	2	3	1	3	6	7			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr4:126412149T>A	uc003ifj.3	+	17	14172	c.14172T>A	c.(14170-14172)CCT>CCA	p.P4724P	FAT4_uc011cgp.1_Silent_p.P2965P|FAT4_uc003ifi.1_Silent_p.P2201P	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4724	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGCATCTTCCTATAAGGGATG	0.493													7	75					0	0	0.047766	0	0		A	126412149	A	A	126412149	2	1	56	1	0	0	0	0	0	0	0	1	5706	1509	53	5		5	FAT4	4	126412149	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	17471329	126412149	64742127	69	40758											
ZDHHC11	79844	broad.mit.edu	37	chr5	837555	837555	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttgaactctcttctttgcgGttattaatgagatactcaaa	11	17	6	7	1	3	2	1	2	2	1	4	3	3	2	0	1	3	1	0	1	5	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr5:837555G>A	uc011cma.1	-	6	1209	c.825C>T	c.(823-825)AAC>AAT	p.N275N	ZDHHC11_uc003jbj.2_RNA|ZDHHC11_uc010itd.1_RNA	NM_024786	NP_079062	Q9H8X9	ZDH11_HUMAN	zinc finger, DHHC-type containing 11	275						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)|pancreas(1)	2			Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)			CTTCTTTGCGGTTATTAATGA	0.488													12	245					0	0	0.024245	0	0		A	837555	A	A	837555	2	1	56	1	0	0	0	0	0	0	0	1	17626	1252	44	4		4	ZDHHC11	5	837555	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08		837555	180077705	70	40759											
C6	729	broad.mit.edu	37	chr5	41149516	41149516	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacatttctcagccaaaaacTtacaagcgggtgaagtaaag	17	8	8	8	1	1	1	1	1	1	0	2	1	1	1	1	1	5	1	1	1	8	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr5:41149516T>G	uc003jmk.2	-	17	2660	c.2450A>C	c.(2449-2451)AAG>ACG	p.K817T	C6_uc003jml.1_Missense_Mutation_p.K817T	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	817	C5b-binding domain.|Complement control factor I module 1.|Kazal-like 1.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding	p.K817R(1)		ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				AGCCAAAAACTTACAAGCGGG	0.423													20	210					0	0	0.062417	0	0		G	41149516	G	G	41149516	3	3	56	1	0	0	0	0	1	0	0	0	2318	1609	56	5	362	5	C6	5	41149516	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	40311961	41149516	139765744	71	40760											
MAP1B	4131	broad.mit.edu	37	chr5	71495786	71495786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acaaacacatggacccacctCcagctcccgtgcaagaccgc	12	4	7	18	2	0	1	0	0	0	1	2	2	2	2	5	1	3	2	5	1	2	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr5:71495786C>T	uc003kbw.3	+	5	6845	c.6604C>T	c.(6604-6606)CCA>TCA	p.P2202S	MAP1B_uc010iyw.1_Missense_Mutation_p.P2219S|MAP1B_uc010iyx.1_Missense_Mutation_p.P2076S|MAP1B_uc010iyy.1_Missense_Mutation_p.P2076S	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	2202						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		GGACCCACCTCCAGCTCCCGT	0.587													4	106					0	0	0.009096	0	0		T	71495786	T	T	71495786	3	4	56	1	0	0	0	0	1	0	0	0	9246	855	30	4	6622	4	MAP1B	5	71495786	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	30346270	71495786	109419474	72	40761											
SLCO6A1	133482	broad.mit.edu	37	chr5	101834337	101834337	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcttggaaactgaggacTtggcttttttcctttttcgg	5	18	10	8	1	1	1	0	1	1	0	3	3	2	3	1	4	1	2	1	4	1	8			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr5:101834337T>C	uc003knn.2	-	1	384	c.212A>G	c.(211-213)AAG>AGG	p.K71R	SLCO6A1_uc003kno.2_Missense_Mutation_p.K71R|SLCO6A1_uc003knp.2_Missense_Mutation_p.K71R|SLCO6A1_uc003knq.2_Missense_Mutation_p.K71R	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	71	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		AACTGAGGACTTGGCTTTTTT	0.517													9	78					0	0	0.069234	0	0		C	101834337	C	C	101834337	3	2	56	1	0	0	0	0	1	0	0	0	14757	1609	56	3	1999	3	SLCO6A1	5	101834337	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	30338551	101834337	79080923	73	40762											
PCDHB7	56129	broad.mit.edu	37	chr5	140553947	140553947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctccatcaacgcggacaacGgccacctgtttgccctcagg	8	8	9	16	3	3	0	2	0	1	0	4	1	3	1	4	3	3	1	4	3	2	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr5:140553947G>A	uc003lit.2	+	1	1705	c.1531G>A	c.(1531-1533)GGC>AGC	p.G511S		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	511	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCGGACAACGGCCACCTGTT	0.692													8	112					0	0	0.058154	0	0		A	140553947	A	A	140553947	3	1	56	1	0	0	0	0	1	0	0	0	11566	1116	39	1	1533	1	PCDHB7	5	140553947	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	38719610	140553947	40361313	74	40763											
SH3PXD2B	285590	broad.mit.edu	37	chr5	171766824	171766824	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgggtctcgacgcgttgcTcgtcttcttgtacttgtcaa	4	16	11	10	4	4	0	1	0	3	0	6	1	4	0	0	1	2	4	0	1	2	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr5:171766824T>C	uc003mbr.2	-	13	1456	c.1285A>G	c.(1285-1287)AGC>GGC	p.S429G		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	429					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GACGCGTTGCTCGTCTTCTTG	0.582													5	16					0	0	0.021553	0	0		C	171766824	C	C	171766824	3	2	56	1	0	0	0	0	1	0	0	0	14282	1551	54	3	1454	3	SH3PXD2B	5	171766824	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	31212877	171766824	9148436	75	40764											
HIST1H3G	8355	broad.mit.edu	37	chr6	26271499	26271499	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgggacggtagcgatgaggTttcttcacgccgccggtggc	5	8	16	12	6	2	1	1	1	1	0	2	3	2	2	3	5	1	2	3	5	1	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr6:26271499T>C	uc003nhi.2	-	1	114	c.114A>G	c.(112-114)AAA>AAG	p.K38K	uc003nhj.2_5'Flank|HIST1H2BI_uc003nhk.2_5'Flank	NM_003534	NP_003525	P68431	H31_HUMAN	H3 histone family, member H	38					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0						AGCGATGAGGTTTCTTCACGC	0.647													31	42					0	0	0.037714	0	0		C	26271499	C	C	26271499	2	2	56	1	0	0	0	0	0	0	0	1	7177	1722	60	3		3	HIST1H3G	6	26271499	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08		26271499	144843568	76	40765											
ZNF323	64288	broad.mit.edu	37	chr6	28294500	28294500	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttttctgccttgctgtctcGtttacaagtttctctgtact	4	20	6	11	1	3	0	0	0	3	0	5	0	3	0	1	0	4	4	1	0	3	7			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr6:28294500G>A	uc003nla.2	-	4	1064	c.664C>T	c.(664-666)CGA>TGA	p.R222*	ZNF323_uc003nld.2_Nonsense_Mutation_p.R222*|ZNF323_uc010jra.2_Nonsense_Mutation_p.R222*|ZNF323_uc003nlb.2_Nonsense_Mutation_p.R63*|ZNF323_uc010jrb.2_Nonsense_Mutation_p.R63*|ZNF323_uc003nlc.2_Nonsense_Mutation_p.R222*	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	222					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TTGCTGTCTCGTTTACAAGTT	0.423													7	100					0	0	0.02938	0	0		A	28294500	A	A	28294500	4	1	56	1	0	0	0	0	0	1	0	0	17868	1153	40	1	560	1	ZNF323	6	28294500	Nonsense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	2023001	28294500	142820567	77	40766											
OR2W1	26692	broad.mit.edu	37	chr6	29012626	29012626	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggagaaggcactcaacTgagcccaaccacatgtaaac	15	4	9	13	0	1	2	1	1	0	1	1	3	1	2	3	2	4	2	3	2	5	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr6:29012626T>C	uc003nlw.2	-	1	327	c.327A>G	c.(325-327)TCA>TCG	p.S109S		NM_030903	NP_112165	Q9Y3N9	OR2W1_HUMAN	olfactory receptor, family 2, subfamily W,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GGCACTCAACTGAGCCCAACC	0.438													4	58					0	0	0.014758	0	0		C	29012626	C	C	29012626	2	2	56	1	0	0	0	0	0	0	0	1	11051	1567	55	3		3	OR2W1	6	29012626	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	718126	29012626	142102441	78	40767											
TFEB	7942	broad.mit.edu	37	chr6	41655662	41655662	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtacctgtgagctctcgcttCtgggtcaggtccgcagggca	5	10	14	12	2	3	1	1	1	2	0	5	1	4	1	2	3	2	5	2	3	1	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr6:41655662C>T	uc003oqs.1	-	6	956	c.654G>A	c.(652-654)CAG>CAA	p.Q218Q	TFEB_uc003oqt.1_Silent_p.Q218Q|TFEB_uc003oqu.1_Silent_p.Q232Q|TFEB_uc003oqv.1_Silent_p.Q218Q|TFEB_uc010jxo.1_Silent_p.Q218Q|TFEB_uc003oqr.1_Silent_p.Q133Q	NM_007162	NP_009093	P19484	TFEB_HUMAN	transcription factor EB	218					embryonic placenta development|humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;7.61e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GCTCTCGCTTCTGGGTCAGGT	0.498			T	ALPHA	renal (childhood epithelioid)								4	81					0	0	0.014758	0	0		T	41655662	T	T	41655662	2	4	56	1	0	0	0	0	0	0	0	1	15826	912	32	4		4	TFEB	6	41655662	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	12643036	41655662	129459405	79	40768											
RUNX2	860	broad.mit.edu	37	chr6	45514583	45514583	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgcttcagaactgggcccTttttcagaccccaggcagtt	7	11	11	12	0	2	2	2	0	0	2	2	2	2	2	3	3	2	3	3	3	1	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr6:45514583T>C	uc011dvx.1	+	9	1317	c.1107T>C	c.(1105-1107)CCT>CCC	p.P369P	RUNX2_uc011dvy.1_Silent_p.P347P|RUNX2_uc003oxt.2_Silent_p.P355P	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	369	Interaction with MYST3 (By similarity).|Pro/Ser/Thr-rich.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						AACTGGGCCCTTTTTCAGACC	0.413													4	129					0	0	0.014758	0	0		C	45514583	C	C	45514583	2	2	56	1	0	0	0	0	0	0	0	1	13773	1596	56	3		3	RUNX2	6	45514583	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	3858921	45514583	125600484	80	40769											
IMPG1	3617	broad.mit.edu	37	chr6	76712691	76712691	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggggttcaacaggaggaAgttctggactcaaagtagca	12	8	14	7	0	3	0	2	0	1	0	3	3	3	3	0	5	2	5	0	5	4	3	rs41269327	by1000genomes	TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr6:76712691A>C	uc003pik.1	-	12	1365	c.1235T>G	c.(1234-1236)CTT>CGT	p.L412R		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	412					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				AACAGGAGGAAGTTCTGGACT	0.428													12	51					0	0	0.09319	0	0		C	76712691	C	C	76712691	3	2	56	1	0	0	0	0	1	0	0	0	7744	72	3	5	1182	5	IMPG1	6	76712691	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	31198108	76712691	94402376	81	40770											
DOPEY1	23033	broad.mit.edu	37	chr6	83806789	83806789	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaagaattttgaatactcCagtgaatgggcagatttgat	14	13	9	5	0	0	5	0	3	0	2	1	5	1	5	1	1	1	1	1	1	6	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr6:83806789C>T	uc003pjs.1	+	3	353	c.93C>T	c.(91-93)TCC>TCT	p.S31S	DOPEY1_uc011dyy.1_Silent_p.S31S|DOPEY1_uc010kbl.1_Silent_p.S31S	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	31					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		TTGAATACTCCAGTGAATGGG	0.353													9	139					0	0	0.047766	0	0		T	83806789	T	T	83806789	2	4	56	1	0	0	0	0	0	0	0	1	4713	581	21	4		4	DOPEY1	6	83806789	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	7094098	83806789	87308278	82	40771											
PRDM13	59336	broad.mit.edu	37	chr6	100054924	100054924	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcaacaatgcacggagccgCcagagcgccagccaccagcg	11	1	13	16	4	0	1	0	0	0	1	0	2	0	2	5	2	6	2	5	2	2	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr6:100054924C>G	uc003pqg.1	+	1	275	c.14C>G	c.(13-15)GCC>GGC	p.A5G		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	5	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		CACGGAGCCGCCAGAGCGCCA	0.687													5	11					0	0	0.014758	0	0		G	100054924	G	G	100054924	3	3	56	1	0	0	0	0	1	0	0	0	12476	739	26	5	16	5	PRDM13	6	100054924	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	16248135	100054924	71060143	83	40772											
C6orf204	387119	broad.mit.edu	37	chr6	118886759	118886759	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgccaaggagctaaactgTaagaatcctctgtatttcta	12	13	8	8	0	2	1	0	0	2	1	3	2	3	2	2	1	3	4	2	1	7	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr6:118886759T>G	uc003pxz.1	-	3	1541	c.953A>C	c.(952-954)TAC>TCC	p.Y318S	C6orf204_uc003pya.1_Missense_Mutation_p.Y321S|C6orf204_uc003pyb.2_Missense_Mutation_p.Y318S|C6orf204_uc011ebj.1_Missense_Mutation_p.Y216S|C6orf204_uc003pyc.2_Missense_Mutation_p.Y321S|C6orf204_uc011ebl.1_Missense_Mutation_p.Y216S	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	318						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		AGCTAAACTGTAAGAATCCTC	0.463													6	81					0	0	0.021553	0	0		G	118886759	G	G	118886759	3	3	56	1	0	0	0	0	1	0	0	0	2356	1638	57	5	1562	5	C6orf204	6	118886759	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	18831835	118886759	52228308	84	40773											
RNF217	154214	broad.mit.edu	37	chr6	125397989	125397989	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcatttaaggagattagtgCgagggtcagtctgtggtgag	9	12	15	5	1	3	2	2	1	1	1	3	4	3	2	0	3	1	0	0	3	2	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr6:125397989C>T	uc003pzs.2	+	6	930	c.592C>T	c.(592-594)CGA>TGA	p.R198*	RNF217_uc003pzr.2_Nonsense_Mutation_p.R255*|RNF217_uc003pzt.2_RNA	NM_152553	NP_689766	Q8TC41	RN217_HUMAN	ring finger protein 217	198					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)		GAGATTAGTGCGAGGGTCAGT	0.448													12	114					0	0	0.024245	0	0		T	125397989	T	T	125397989	4	4	56	1	0	0	0	0	0	1	0	0	13506	760	27	1	606	1	RNF217	6	125397989	Nonsense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	6511230	125397989	45717078	85	40774											
EYA4	2070	broad.mit.edu	37	chr6	133769263	133769263	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcaggggaaaacatgactGttttaaacacagcagactgg	14	9	10	8	0	1	2	1	1	1	1	2	3	1	3	0	3	3	2	0	3	4	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr6:133769263G>T	uc003qec.3	+	5	681	c.223G>T	c.(223-225)GTT>TTT	p.V75F	EYA4_uc011ecq.1_Intron|EYA4_uc011ecr.1_Intron|EYA4_uc003qed.3_Missense_Mutation_p.V75F|EYA4_uc003qee.3_Intron|EYA4_uc011ecs.1_Missense_Mutation_p.V75F|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	75					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		AAACATGACTGTTTTAAACAC	0.433													4	53					0.00909568	0.00926665	0.009096	1	0		T	133769263	T	T	133769263	3	4	56	1	0	0	0	0	1	0	0	0	5339	1377	48	5	237	5	EYA4	6	133769263	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	8371274	133769263	37345804	86	40775											
CITED2	10370	broad.mit.edu	37	chr6	139694714	139694714	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaggggtgatggttgaaaTactggttgttgagcttctgc	7	14	16	4	0	1	3	0	3	1	0	1	3	1	3	0	5	3	5	0	5	3	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr6:139694714T>A	uc003qip.1	-	2	612	c.368A>T	c.(367-369)TAT>TTT	p.Y123F		NM_006079	NP_006070	Q99967	CITE2_HUMAN	Cbp/p300-interacting transactivator, with	123					adrenal cortex formation|anti-apoptosis|cell proliferation|determination of left/right symmetry|heart development|liver development|negative regulation of cell migration|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell cycle|positive regulation of cell-cell adhesion|positive regulation of male gonad development|positive regulation of peroxisome proliferator activated receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of organ formation|response to estrogen stimulus|response to fluid shear stress|response to hypoxia|sex determination	cytoplasm|nuclear chromatin|nucleus	chromatin binding|LBD domain binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity				0	Breast(32;0.226)			GBM - Glioblastoma multiforme(68;0.000171)|OV - Ovarian serous cystadenocarcinoma(155;0.00134)		ATGGTTGAAATACTGGTTGTT	0.597													5	103					0	0	0.021553	0	0		A	139694714	A	A	139694714	3	1	56	1	0	0	0	0	1	0	0	0	3443	1406	49	5	448	5	CITED2	6	139694714	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	5925451	139694714	31420353	87	40776											
GPER	2852	broad.mit.edu	37	chr7	1132151	1132151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgctccgcatgatcctcGcggtggtgctggtcttcttc	3	12	13	13	4	2	1	0	1	2	0	6	1	4	1	2	4	1	3	2	4	0	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr7:1132151G>A	uc010ksd.1	+	2	1176	c.787G>A	c.(787-789)GCG>ACG	p.A263T	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPER_uc003sjz.1_Missense_Mutation_p.A263T|GPER_uc003ska.1_Missense_Mutation_p.A263T|GPER_uc003skb.2_Missense_Mutation_p.A263T	NM_001098201	NP_001091671	Q99527	GPER_HUMAN	G protein-coupled receptor 30	263	Helical; Name=6; (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;2.32e-16)		CATGATCCTCGCGGTGGTGCT	0.687													5	48					0	0	0.038147	0	0		A	1132151	A	A	1132151	3	1	56	1	0	0	0	0	1	0	0	0	6622	1087	38	1	789	1	GPER	7	1132151	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08		1132151	158006512	88	40777											
TRA2A	29896	broad.mit.edu	37	chr7	23547125	23547125	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgaattcttctaccatcCagctccattccatttgccct	8	13	3	17	1	2	0	0	0	2	0	5	1	5	0	6	0	3	1	6	0	2	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr7:23547125C>T	uc003swi.2	-	5	769	c.555G>A	c.(553-555)CTG>CTA	p.L185L	TRA2A_uc011jzb.1_RNA|TRA2A_uc011jzc.1_Silent_p.L84L|TRA2A_uc011jzd.1_Silent_p.L84L	NM_013293	NP_037425	Q13595	TRA2A_HUMAN	transformer-2 alpha	185	RRM.				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|RNA binding			ovary(1)	1						TTCTACCATCCAGCTCCATTC	0.413													18	195					0	0	0.069288	0	0		T	23547125	T	T	23547125	2	4	56	1	0	0	0	0	0	0	0	1	16459	581	21	4		4	TRA2A	7	23547125	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	22414974	23547125	135591538	89	40778											
GLI3	2737	broad.mit.edu	37	chr7	42004358	42004358	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catagaactgaccagagtaaTtctgcagattagagcacagc	15	8	9	9	0	1	5	0	1	1	4	1	5	1	5	1	0	4	3	1	0	4	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr7:42004358T>G	uc011kbh.1	-	15	4404	c.4313A>C	c.(4312-4314)AAT>ACT	p.N1438T	GLI3_uc011kbg.1_Missense_Mutation_p.N1379T	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1438					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						ACCAGAGTAATTCTGCAGATT	0.517									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				8	100					0	0	0.069234	0	0		G	42004358	G	G	42004358	3	3	56	1	0	0	0	0	1	0	0	0	6454	1493	52	5	433	5	GLI3	7	42004358	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	18457233	42004358	117134305	90	40779											
ADCY1	107	broad.mit.edu	37	chr7	45701777	45701777	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttcaaggccgagatcccCttctccaatgtcatgacctg	9	11	8	13	1	3	2	2	1	1	1	5	3	4	2	5	1	0	1	5	1	2	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr7:45701777C>A	uc003tne.3	+	8	1587	c.1569C>A	c.(1567-1569)CCC>CCA	p.P523P	ADCY1_uc003tnd.2_Silent_p.P298P	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	523	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CCGAGATCCCCTTCTCCAATG	0.512													23	14					1.68575e-08	1.8347e-08	0.034045	1	0		A	45701777	A	A	45701777	2	1	56	1	0	0	0	0	0	0	0	1	292	668	24	5		5	ADCY1	7	45701777	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	3697419	45701777	113436886	91	40780											
PKD1L1	168507	broad.mit.edu	37	chr7	47886579	47886579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcggatccactggaaatgtActgtatagttcactgcctta	11	13	8	9	1	1	0	1	0	0	0	3	2	2	2	2	2	2	3	2	2	5	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr7:47886579A>G	uc003tny.1	-	32	5051	c.5051T>C	c.(5050-5052)GTA>GCA	p.V1684A		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	1684	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CTGGAAATGTACTGTATAGTT	0.423													5	120					0	0	0.014758	0	0		G	47886579	G	G	47886579	3	3	56	1	0	0	0	0	1	0	0	0	11983	391	14	3	3602	3	PKD1L1	7	47886579	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	2184802	47886579	111252084	92	40781											
ZPBP	11055	broad.mit.edu	37	chr7	50070871	50070871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagctgcatgatatcgagCtgtgaactgataataataat	14	11	11	5	1	0	3	0	3	0	0	1	5	0	4	0	1	4	3	0	1	5	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr7:50070871C>T	uc003tou.2	-	5	593	c.523G>A	c.(523-525)GCT>ACT	p.A175T	ZPBP_uc011kci.1_Missense_Mutation_p.A101T|ZPBP_uc010kyw.2_Missense_Mutation_p.A174T	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	175					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					TGATATCGAGCTGTGAACTGA	0.313													3	49					0	0	0.004672	0	0		T	50070871	T	T	50070871	3	4	56	1	0	0	0	0	1	0	0	0	18244	797	28	2	548	2	ZPBP	7	50070871	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	2184292	50070871	109067792	93	40782											
ZNF479	90827	broad.mit.edu	37	chr7	57187980	57187980	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccacattcttcacatgtgTagggtttctctccagtatga	8	14	9	10	0	3	1	1	1	2	0	5	1	4	1	2	2	0	3	2	2	2	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr7:57187980T>C	uc010kzo.2	-	5	1413	c.1142A>G	c.(1141-1143)TAC>TGC	p.Y381C		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	381	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TTCACATGTGTAGGGTTTCTC	0.443													4	51					0	0	0.014758	0	0		C	57187980	C	C	57187980	3	2	56	1	0	0	0	0	1	0	0	0	17958	1638	57	3	436	3	ZNF479	7	57187980	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	7117109	57187980	101950683	94	40783											
TBL2	26608	broad.mit.edu	37	chr7	72984996	72984996	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttgtgaaacagccgcacCgcccggtccccacaggaggc	8	5	13	15	3	0	1	0	1	0	0	1	2	1	2	5	3	2	2	5	3	1	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr7:72984996C>T	uc003tyh.2	-	7	1319	c.1185G>A	c.(1183-1185)GCG>GCA	p.A395A	TBL2_uc011kex.1_Silent_p.A359A|TBL2_uc010lbg.2_Silent_p.A300A|TBL2_uc003tyi.2_Silent_p.A230A|TBL2_uc011key.1_Silent_p.A266A|TBL2_uc010lbh.2_Silent_p.A300A	NM_012453	NP_036585	Q9Y4P3	TBL2_HUMAN	transducin (beta)-like 2	395	WD 7.										0		Lung NSC(55;0.0659)|all_lung(88;0.152)				ACAGCCGCACCGCCCGGTCCC	0.637													5	40					0	0	0.014758	0	0		T	72984996	T	T	72984996	2	4	56	1	0	0	0	0	0	0	0	1	15667	639	23	1		1	TBL2	7	72984996	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	15797016	72984996	86153667	95	40784											
SEMA3D	223117	broad.mit.edu	37	chr7	84727149	84727149	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttttgtttaagtcaaccAgactgagtagaaagatgtgg	14	13	10	4	0	1	4	1	1	0	3	1	4	1	4	1	1	1	2	1	1	5	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr7:84727149A>T	uc003uic.2	-	2	324	c.284T>A	c.(283-285)CTG>CAG	p.L95Q	SEMA3D_uc010led.2_Missense_Mutation_p.L95Q|SEMA3D_uc010lee.1_Missense_Mutation_p.L95Q	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	95	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						TAAGTCAACCAGACTGAGTAG	0.358													7	128					0	0	0.047766	0	0		T	84727149	T	T	84727149	3	4	56	1	0	0	0	0	1	0	0	0	14052	188	7	5	2113	5	SEMA3D	7	84727149	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	11742153	84727149	74411514	96	40785											
ABCB1	5243	broad.mit.edu	37	chr7	87179355	87179355	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttatggtcctaatatcctGtccatcaacactgacctgga	11	13	6	11	0	1	1	1	1	0	0	4	2	4	2	4	2	1	0	4	2	4	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr7:87179355G>A	uc003uiz.1	-	14	1784	c.1366C>T	c.(1366-1368)CAG>TAG	p.Q456*	ABCB1_uc011khc.1_Nonsense_Mutation_p.Q392*	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	456	ABC transporter 1.|Cytoplasmic (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	CTAATATCCTGTCCATCAACA	0.403													5	50					0	0	0.021553	0	0		A	87179355	A	A	87179355	4	1	56	1	0	0	0	0	0	1	0	0	40	1386	48	4	2540	4	ABCB1	7	87179355	Nonsense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	2452206	87179355	71959308	97	40786											
COL1A2	1278	broad.mit.edu	37	chr7	94039585	94039585	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctggctccaaaggagAgagcggtaacaagggtgagc	12	5	15	9	1	0	2	0	1	0	1	2	4	2	3	2	4	4	3	2	4	3	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr7:94039585A>T	uc003ung.1	+	20	1538	c.1067A>T	c.(1066-1068)GAG>GTG	p.E356V	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	356					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TCCAAAGGAGAGAGCGGTAAC	0.428										HNSCC(75;0.22)			8	45					0	0	0.058154	0	0		T	94039585	T	T	94039585	3	4	56	1	0	0	0	0	1	0	0	0	3681	304	11	5	1145	5	COL1A2	7	94039585	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	6860230	94039585	65099078	98	40787											
CTTNBP2	83992	broad.mit.edu	37	chr7	117432038	117432038	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagcggtgggaggggcagcGttactgggaagtgggggtgt	6	8	23	4	2	0	1	0	1	0	0	0	3	0	3	0	7	3	2	0	7	2	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr7:117432038G>A	uc003vjf.2	-	4	1304	c.1212C>T	c.(1210-1212)AAC>AAT	p.N404N		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	404	Pro-rich.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GAGGGGCAGCGTTACTGGGAA	0.532													15	138					0	0	0.028581	0	0		A	117432038	A	A	117432038	2	1	56	1	0	0	0	0	0	0	0	1	4048	1136	40	1		1	CTTNBP2	7	117432038	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	23392453	117432038	41706625	99	40788											
NRG1	3084	broad.mit.edu	37	chr8	32599561	32599561	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggagcaagatgtactgAgaatgtgcccatgaaagtcc	13	8	11	9	0	0	3	0	2	0	2	1	5	1	4	2	1	3	2	2	1	4	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr8:32599561A>G	uc003xiv.2	+	7	1185	c.668A>G	c.(667-669)GAG>GGG	p.E223G	NRG1_uc003xip.2_Intron|NRG1_uc010lvn.2_Intron|NRG1_uc003xis.2_Intron|NRG1_uc011lbf.1_Intron|NRG1_uc010lvo.2_Intron|NRG1_uc003xiu.2_Intron|NRG1_uc003xiw.2_Intron|NRG1_uc003xit.2_Missense_Mutation_p.E223G|NRG1_uc010lvr.2_Intron|NRG1_uc010lvs.2_Intron|NRG1_uc010lvp.2_Intron|NRG1_uc010lvq.2_Intron|NRG1_uc003xix.2_Missense_Mutation_p.E113G|NRG1_uc003xiy.2_Intron|NRG1_uc010lvt.2_Intron|NRG1_uc011lbg.1_Missense_Mutation_p.E69G|NRG1_uc011lbh.1_Intron|NRG1_uc003xiz.1_RNA|NRG1_uc003xja.2_Missense_Mutation_p.E26G	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	223	Extracellular (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		AGATGTACTGAGAATGTGCCC	0.413													4	45					0	0	0.021553	0	0		G	32599561	G	G	32599561	3	3	56	1	0	0	0	0	1	0	0	0	10666	304	11	3	2164	3	NRG1	8	32599561	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08		32599561	113764461	100	40789											
PREX2	80243	broad.mit.edu	37	chr8	68931899	68931899	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagtgggaacctgctttcTtcactttgtaggataaattt	11	15	9	6	0	2	1	1	0	1	1	2	3	2	3	1	2	2	2	1	2	5	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr8:68931899T>C	uc003xxv.1	+	3	356	c.329T>C	c.(328-330)CTT>CCT	p.L110P	PREX2_uc003xxu.1_Missense_Mutation_p.L110P|PREX2_uc011lez.1_Intron	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	110	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ACCTGCTTTCTTCACTTTGTA	0.353													4	26					0	0	0.021553	0	0		C	68931899	C	C	68931899	3	2	56	1	0	0	0	0	1	0	0	0	12499	1609	56	3	339	3	PREX2	8	68931899	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	36332338	68931899	77432123	101	40790											
PREX2	80243	broad.mit.edu	37	chr8	69069612	69069612	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtttctgtggaagaattTcaagctcagataaatgcagc	14	12	9	6	0	3	2	2	0	1	2	3	3	3	3	0	1	3	3	0	1	6	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr8:69069612T>C	uc003xxv.1	+	35	4314	c.4287T>C	c.(4285-4287)TTT>TTC	p.F1429F		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1429					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TGGAAGAATTTCAAGCTCAGA	0.348													6	63					0	0	0.069234	0	0		C	69069612	C	C	69069612	2	2	56	1	0	0	0	0	0	0	0	1	12499	1780	62	3		3	PREX2	8	69069612	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	137713	69069612	77294410	102	40791											
TPD52	7163	broad.mit.edu	37	chr8	80954873	80954873	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctttaagttttcgaccttTtcttcaaatgatttaaaagt	11	18	5	7	1	2	1	1	1	1	0	3	2	2	1	2	0	0	1	2	0	4	9			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr8:80954873T>C	uc003ybr.1	-	5	859	c.537A>G	c.(535-537)GAA>GAG	p.E179E	TPD52_uc010lzr.2_RNA|TPD52_uc010lzs.1_RNA|TPD52_uc003ybs.1_Silent_p.E162E|TPD52_uc003ybt.1_Silent_p.E139E|TPD52_uc003ybq.1_RNA|TPD52_uc003ybu.1_RNA	NM_001025252	NP_001020423	P55327	TPD52_HUMAN	tumor protein D52 isoform 1	179					anatomical structure morphogenesis|B cell differentiation|secretion	endoplasmic reticulum|perinuclear region of cytoplasm	calcium ion binding|protein heterodimerization activity|protein homodimerization activity			ovary(1)	1	all_epithelial(4;1.13e-09)|Lung NSC(7;9.71e-07)|all_lung(9;3.75e-06)	Lung NSC(129;3.55e-06)|all_lung(136;1.53e-05)|Acute lymphoblastic leukemia(644;0.158)	BRCA - Breast invasive adenocarcinoma(6;0.00181)|Epithelial(68;0.0149)|all cancers(69;0.0612)			TTTCGACCTTTTCTTCAAATG	0.308													4	52					0	0	0.021553	0	0		C	80954873	C	C	80954873	2	2	56	1	0	0	0	0	0	0	0	1	16423	1838	64	3		3	TPD52	8	80954873	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	11885261	80954873	65409149	103	40792											
CNBD1	168975	broad.mit.edu	37	chr8	88365898	88365898	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttgtttatatggggaaacTtaaggagaaggagtcctttg	12	13	12	4	0	0	1	0	0	0	1	1	4	1	3	1	4	1	1	1	4	5	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr8:88365898T>C	uc003ydy.2	+	10	1235	c.1187T>C	c.(1186-1188)CTT>CCT	p.L396P		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	396	cNMP.									ovary(3)	3						ATGGGGAAACTTAAGGAGAAG	0.323													5	34					0	0	0.014758	0	0		C	88365898	C	C	88365898	3	2	56	1	0	0	0	0	1	0	0	0	3594	1609	56	3	1225	3	CNBD1	8	88365898	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	7411025	88365898	57998124	104	40793											
KIAA1429	25962	broad.mit.edu	37	chr8	95539023	95539023	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaagttcaaataatccactGatcactcctgcttgtagcag	13	11	7	10	0	2	2	2	1	0	1	4	2	4	2	2	0	2	4	2	0	4	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr8:95539023G>A	uc003ygo.1	-	8	1462	c.1449C>T	c.(1447-1449)ATC>ATT	p.I483I	KIAA1429_uc003ygp.2_Silent_p.I483I|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	483					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			ATAATCCACTGATCACTCCTG	0.413													13	52					0	0	0.024245	0	0		A	95539023	A	A	95539023	2	1	56	1	0	0	0	0	0	0	0	1	8247	1280	45	4		4	KIAA1429	8	95539023	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	7173125	95539023	50824999	105	40794											
ANGPT1	284	broad.mit.edu	37	chr8	108334284	108334284	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaagccttgaaggttctcTttctcttcctttaaggtgtc	7	16	7	11	0	2	1	0	1	2	0	6	1	3	1	3	2	1	1	3	2	3	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr8:108334284T>G	uc003ymn.2	-	4	1116	c.648A>C	c.(646-648)AAA>AAC	p.K216N	ANGPT1_uc011lhv.1_Missense_Mutation_p.K16N|ANGPT1_uc003ymo.2_Missense_Mutation_p.K216N|ANGPT1_uc003ymp.3_Missense_Mutation_p.K16N	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	216	Potential.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			GAAGGTTCTCTTTCTCTTCCT	0.368													7	43					0	0	0.047766	0	0		G	108334284	G	G	108334284	3	3	56	1	0	0	0	0	1	0	0	0	610	1606	56	5	872	5	ANGPT1	8	108334284	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	12795261	108334284	38029738	106	40795											
TRPS1	7227	broad.mit.edu	37	chr8	116617214	116617214	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtccaatgccaatgaatgTtccacctgaagtcacctgga	11	9	8	13	1	1	2	1	2	0	0	3	3	3	3	6	1	1	1	6	1	4	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr8:116617214T>G	uc003ynz.2	-	3	1402	c.943A>C	c.(943-945)ACA>CCA	p.T315P	TRPS1_uc011lhy.1_Missense_Mutation_p.T319P|TRPS1_uc003yny.2_Missense_Mutation_p.T328P|TRPS1_uc010mcy.2_Missense_Mutation_p.T315P	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	315					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			CCAATGAATGTTCCACCTGAA	0.468									Langer-Giedion_syndrome				15	81					0	0	0.028581	0	0		G	116617214	G	G	116617214	3	3	56	1	0	0	0	0	1	0	0	0	16619	1725	60	5	2918	5	TRPS1	8	116617214	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	8282930	116617214	29746808	107	40796											
FAM83H	286077	broad.mit.edu	37	chr8	144812561	144812561	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaggccgaaggtgtcggctCacatgttccagctcttcagg	7	9	14	11	2	3	0	2	0	1	0	5	2	4	1	2	5	1	3	2	5	1	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr8:144812561C>T	uc003yzk.2	-	2	261	c.192G>A	c.(190-192)GTG>GTA	p.V64V	FAM83H_uc010mfk.1_5'Flank	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	64					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GGTGTCGGCTCACATGTTCCA	0.632													8	83					0	0	0.080935	0	0		T	144812561	T	T	144812561	2	4	56	1	0	0	0	0	0	0	0	1	5654	813	29	4		4	FAM83H	8	144812561	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	28195347	144812561	1551461	108	40797											
SPATC1	375686	broad.mit.edu	37	chr8	145096245	145096245	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cggctctacggcttcactgtCtccaacatcccagagaagat	10	9	8	14	2	3	2	1	0	2	2	5	3	4	2	2	2	2	2	2	2	3	2	rs17854818		TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr8:145096245C>G	uc011lkw.1	+	4	1521	c.1419C>G	c.(1417-1419)GTC>GTG	p.V473V	SPATC1_uc011lkx.1_Intron	NM_198572	NP_940974	Q76KD6	SPERI_HUMAN	spermatogenesis and centriole associated 1	473				V -> A (in Ref. 3; AAH53547).						ovary(1)|central_nervous_system(1)	2	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;3.67e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCTTCACTGTCTCCAACATCC	0.642													3	39					0	0	0.004672	0	0		G	145096245	G	G	145096245	2	3	56	1	0	0	0	0	0	0	0	1	15042	900	32	5		5	SPATC1	8	145096245	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	283684	145096245	1267777	109	40798											
ARHGAP39	80728	broad.mit.edu	37	chr8	145770695	145770695	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccaggtaggagtggaacTtgggggtgggcgggaaaaag	10	7	19	5	1	0	0	0	0	0	0	1	3	1	3	1	7	1	1	1	7	4	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr8:145770695T>A	uc003zdt.1	-	7	3014	c.2459A>T	c.(2458-2460)AAG>ATG	p.K820M	ARHGAP39_uc011llk.1_Missense_Mutation_p.K820M|ARHGAP39_uc003zds.1_Missense_Mutation_p.K820M	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	820	MyTH4.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						GGAGTGGAACTTGGGGGTGGG	0.617													6	63					0	0	0.02938	0	0		A	145770695	A	A	145770695	3	1	56	1	0	0	0	0	1	0	0	0	884	1609	56	5	913	5	ARHGAP39	8	145770695	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	674450	145770695	593327	110	40799											
PTPRD	5789	broad.mit.edu	37	chr9	8521544	8521544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaatcttggtgggacacggcGaactggaacaaaacacaagg	15	5	13	8	2	1	0	0	0	1	0	1	4	1	2	0	5	3	0	0	5	6	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr9:8521544G>A	uc003zkk.2	-	19	1405	c.694C>T	c.(694-696)CGC>TGC	p.R232C	PTPRD_uc003zkp.2_Missense_Mutation_p.R232C|PTPRD_uc003zkq.2_Missense_Mutation_p.R232C|PTPRD_uc003zkr.2_Missense_Mutation_p.R226C|PTPRD_uc003zks.2_Missense_Mutation_p.R222C|PTPRD_uc003zkl.2_Missense_Mutation_p.R232C|PTPRD_uc003zkm.2_Missense_Mutation_p.R219C|PTPRD_uc003zkn.2_Missense_Mutation_p.R232C|PTPRD_uc003zko.2_Missense_Mutation_p.R229C	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	232	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		GGGACACGGCGAACTGGAACA	0.448										TSP Lung(15;0.13)			13	69					0	0	0.0333	0	0		A	8521544	A	A	8521544	3	1	56	1	0	0	0	0	1	0	0	0	12824	1058	37	1	5220	1	PTPRD	9	8521544	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08		8521544	132691887	111	40800											
SLC24A2	25769	broad.mit.edu	37	chr9	19786062	19786062	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaataagctgttaagagaAgcaagctttcccaccacatg	17	8	7	9	0	0	1	0	0	0	1	1	2	1	1	2	0	3	4	2	0	6	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr9:19786062A>T	uc003zoa.1	-	1	865	c.803T>A	c.(802-804)CTT>CAT	p.L268H	SLC24A2_uc003zob.1_Missense_Mutation_p.L268H	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	268	Helical; (Potential).				visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		TGTTAAGAGAAGCAAGCTTTC	0.393													9	40					0	0	0.069234	0	0		T	19786062	T	T	19786062	3	4	56	1	0	0	0	0	1	0	0	0	14491	72	3	5	1222	5	SLC24A2	9	19786062	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	11264518	19786062	121427369	112	40801											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123205914	123205915	+	In_Frame_Ins	INS	-	TGC	TGC																															gaccaatctcgtagcttcttINStgctgatcactgtccatttc																										TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr9:123205914_123205915insTGC	uc004bkf.2	-	23	3312_3313	c.3131_3132insGCA	c.(3130-3132)CAA>CAGCAA	p.1044_1044Q>QQ	CDK5RAP2_uc010mvi.2_Intron|CDK5RAP2_uc004bke.2_In_Frame_Ins_p.329_329Q>QQ|CDK5RAP2_uc004bkg.2_In_Frame_Ins_p.1044_1044Q>QQ|CDK5RAP2_uc011lxw.1_In_Frame_Ins_p.309_309Q>QQ|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_In_Frame_Ins_p.309_309Q>QQ|CDK5RAP2_uc011lya.1_In_Frame_Ins_p.309_309Q>QQ|CDK5RAP2_uc004bkh.1_In_Frame_Ins_p.814_814Q>QQ|CDK5RAP2_uc004bki.2_In_Frame_Ins_p.811_811Q>QQ	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	1044	Interaction with MAPRE1.				brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						CGTAGCTTCTTTGCTGATCACT	0.356													55	102	---	---	---	---						.	TGC	123205915	TGC	TGC	123205914	7	5	56	1	0	1	1	0	0	0	0	0	3149	1838	64	0	2613	0	CDK5RAP2	9	123205914	In_Frame_Ins	INS	-	TCGA-BR-7901-01A-11D-2201-08	103419852	123205914	18007517	113	40802											
GPR21	2844	broad.mit.edu	37	chr9	125796920	125796920	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttggctatttggaaactgtCaatttttgccttttggaagt	8	19	9	5	0	1	0	1	0	0	0	1	2	1	2	1	3	2	1	1	3	4	7			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr9:125796920C>T	uc011lzk.1	+	1	75	c.75C>T	c.(73-75)GTC>GTT	p.V25V	RABGAP1_uc004bnl.3_Intron|RABGAP1_uc011lzh.1_Intron|RABGAP1_uc011lzj.1_Intron|GPR21_uc011lzi.1_RNA	NM_005294	NP_005285	Q99679	GPR21_HUMAN	G protein-coupled receptor 21	25	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1						TGGAAACTGTCAATTTTTGCC	0.388													8	107					0	0	0.058154	0	0		T	125796920	T	T	125796920	2	4	56	1	0	0	0	0	0	0	0	1	6696	813	29	4		4	GPR21	9	125796920	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	2591006	125796920	15416511	114	40803											
DDX31	64794	broad.mit.edu	37	chr9	135505739	135505739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatggcagccaatccgggCggttcttccaatccggtgga	7	8	12	14	3	1	0	0	0	1	0	4	1	4	1	5	5	1	2	5	5	2	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr9:135505739C>T	uc004cbq.1	-	16	2010	c.1858G>A	c.(1858-1860)GCC>ACC	p.A620T	DDX31_uc010mzu.1_Silent_p.P611P	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	620	Helicase C-terminal.					nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		CCAATCCGGGCGGTTCTTCCA	0.478													9	81					0	0	0.058154	0	0		T	135505739	T	T	135505739	3	4	56	1	0	0	0	0	1	0	0	0	4359	768	27	1	717	1	DDX31	9	135505739	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	9708819	135505739	5707692	115	40804											
PNPLA7	375775	broad.mit.edu	37	chr9	140438250	140438250	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagtgttctccacaagggtGttggggagtgtggtcacctg	6	11	16	8	0	2	0	1	0	1	0	3	1	2	1	2	4	0	3	2	4	1	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr9:140438250G>T	uc004cnf.2	-	4	553	c.216C>A	c.(214-216)AAC>AAA	p.N72K	PNPLA7_uc010ncj.1_Missense_Mutation_p.N97K	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	72					lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		CCACAAGGGTGTTGGGGAGTG	0.602													4	64					0.00024832	0.000258826	0.009096	1	0		T	140438250	T	T	140438250	3	4	56	1	0	0	0	0	1	0	0	0	12189	1368	48	5	3861	5	PNPLA7	9	140438250	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	4932511	140438250	775181	116	40805											
WDR85	92715	broad.mit.edu	37	chr9	140468755	140468755	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactttctgcagcctgggcCtcgtctcattcaccatcagg	6	11	8	16	1	4	0	3	0	2	0	6	0	4	0	4	2	2	1	4	2	0	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr9:140468755C>A	uc004cnk.1	-	5	703	c.545G>T	c.(544-546)AGG>ATG	p.R182M	WDR85_uc004cnl.1_Missense_Mutation_p.R6M|WDR85_uc004cnm.1_Translation_Start_Site|WDR85_uc004cnn.1_Intron	NM_138778	NP_620133	Q9BTV6	WDR85_HUMAN	WD repeat domain 85	182					peptidyl-diphthamide biosynthetic process from peptidyl-histidine						0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.00029)|Epithelial(140;0.000509)		CAGCCTGGGCCTCGTCTCATT	0.547													4	102					1.024e-07	1.10121e-07	0.014758	1	0		A	140468755	A	A	140468755	3	1	56	1	0	0	0	0	1	0	0	0	17359	681	24	5	833	5	WDR85	9	140468755	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	30505	140468755	744676	117	40806											
ZNF248	57209	broad.mit.edu	37	chr10	38121107	38121107	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgttgagtgaggtttgaCttctcccagaaggttttccc	7	15	11	8	0	1	5	0	4	1	1	3	5	2	5	2	2	0	3	2	2	1	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr10:38121107C>T	uc001izd.1	-	6	1675	c.1176G>A	c.(1174-1176)AAG>AAA	p.K392K	ZNF248_uc009xmc.2_Intron|ZNF248_uc001izb.2_Intron|ZNF248_uc001izc.2_Intron|ZNF248_uc010qeu.1_Silent_p.K392K	NM_021045	NP_066383	Q8NDW4	ZN248_HUMAN	zinc finger protein 248	392	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGAGGTTTGACTTCTCCCAGA	0.458													10	84					0	0	0.058154	0	0		T	38121107	T	T	38121107	2	4	56	1	0	0	0	0	0	0	0	1	17818	564	20	4		4	ZNF248	10	38121107	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08		38121107	97413640	118	40807											
DNTT	1791	broad.mit.edu	37	chr10	98087281	98087281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggcagaagcagaggccGtcagtgtgctggttaaagag	11	6	16	8	1	1	3	1	0	0	3	1	3	1	3	2	3	2	4	2	3	3	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr10:98087281G>A	uc001kmf.2	+	7	1101	c.931G>A	c.(931-933)GTC>ATC	p.V311I	DNTT_uc001kmg.2_Missense_Mutation_p.V311I	NM_004088	NP_004079	P04053	TDT_HUMAN	terminal deoxynucleotidyltransferase isoform 1	311	Mediates interaction with DNTTIP2.				DNA modification	nucleus	DNA binding|DNA nucleotidylexotransferase activity|DNA-directed DNA polymerase activity|metal ion binding			ovary(1)	1		Colorectal(252;0.0815)|all_hematologic(284;0.224)		Epithelial(162;7.97e-08)|all cancers(201;1.89e-06)		AGCAGAGGCCGTCAGTGTGCT	0.517													19	184					0	0	0.055883	0	0		A	98087281	A	A	98087281	3	1	56	1	0	0	0	0	1	0	0	0	4686	1145	40	1	957	1	DNTT	10	98087281	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	59966174	98087281	37447466	119	40808											
PDCD11	22984	broad.mit.edu	37	chr10	105199528	105199528	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcccctccgttgtgggtttgGctcggtactcccatgtctcc	2	13	11	15	2	1	0	0	0	1	0	5	0	3	0	5	3	1	4	5	3	1	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr10:105199528G>C	uc001kwy.1	+	28	4138	c.4051G>C	c.(4051-4053)GCT>CCT	p.A1351P		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1351	S1 motif 12.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		TGTGGGTTTGGCTCGGTACTC	0.552													11	133					0	0	0.016723	0	0		C	105199528	C	C	105199528	3	2	56	1	0	0	0	0	1	0	0	0	11636	1203	42	5	4157	5	PDCD11	10	105199528	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	7112247	105199528	30335219	120	40809											
CALHM1	255022	broad.mit.edu	37	chr10	105215108	105215108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcccatcagcggtggctcctCctggcccagccgcagaggcg	5	5	14	17	3	1	1	1	0	0	1	3	1	3	1	5	4	2	2	5	4	0	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr10:105215108C>T	uc001kxe.2	-	2	1092	c.952G>A	c.(952-954)GAG>AAG	p.E318K	CALHM2_uc001kxa.2_5'Flank|CALHM2_uc001kxc.2_5'Flank|CALHM2_uc001kxb.2_5'Flank|CALHM2_uc001kxd.1_5'Flank	NM_001001412	NP_001001412	Q8IU99	CAHM1_HUMAN	calcium homeostasis modulator 1	318						endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel activity|identical protein binding			ovary(1)	1						GGTGGCTCCTCCTGGCCCAGC	0.647													3	27					0	0	0.009096	0	0		T	105215108	T	T	105215108	3	4	56	1	0	0	0	0	1	0	0	0	2585	864	30	4	92	4	CALHM1	10	105215108	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	15580	105215108	30319639	121	40810											
SORCS3	22986	broad.mit.edu	37	chr10	106401694	106401694	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaccaagccatggtgcactgGtcgggacacaacagcagcgt	12	5	12	12	2	0	0	0	0	0	0	1	1	0	1	2	3	6	2	2	3	3	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr10:106401694G>C	uc001kyi.1	+	1	836	c.609G>C	c.(607-609)TGG>TGC	p.W203C		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	203	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		TGGTGCACTGGTCGGGACACA	0.701													3	19					0	0	0.009096	0	0		C	106401694	C	C	106401694	3	2	56	1	0	0	0	0	1	0	0	0	14957	1270	44	5	611	5	SORCS3	10	106401694	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	1186586	106401694	29133053	122	40811											
GPAM	57678	broad.mit.edu	37	chr10	113917086	113917086	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctccaagacaaaggttctGgaagcttcttgtcccactgc	9	12	8	12	0	3	1	0	0	3	1	5	2	4	2	2	2	2	2	2	2	3	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr10:113917086G>C	uc009xxy.1	-	19	2240	c.2042C>G	c.(2041-2043)CCA>CGA	p.P681R	GPAM_uc001kzp.2_Missense_Mutation_p.P681R|GPAM_uc001kzq.1_Missense_Mutation_p.P681R	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate	681	Mitochondrial intermembrane (Potential).|Mitochondrial intermembrane (Potential).				phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		CAAAGGTTCTGGAAGCTTCTT	0.458													5	52					0	0	0.014758	0	0		C	113917086	C	C	113917086	3	2	56	1	0	0	0	0	1	0	0	0	6603	1348	47	5	460	5	GPAM	10	113917086	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	7515392	113917086	21617661	123	40812											
DCLRE1A	9937	broad.mit.edu	37	chr10	115605541	115605541	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgcacatgaagcttgtTcttcaacaaattgccagtta	11	15	6	9	0	3	1	1	1	2	0	3	1	3	1	1	0	4	4	1	0	4	7			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr10:115605541T>A	uc001law.2	-	4	3199	c.2281A>T	c.(2281-2283)AAC>TAC	p.N761Y		NM_014881	NP_055696	Q6PJP8	DCR1A_HUMAN	DNA cross-link repair 1A	761					cell division|mitosis	nucleus	hydrolase activity			skin(2)	2				Epithelial(162;0.0157)|all cancers(201;0.0171)		TGAAGCTTGTTCTTCAACAAA	0.358								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					28	74					0	0	0.054565	0	0		A	115605541	A	A	115605541	3	1	56	1	0	0	0	0	1	0	0	0	4297	1783	62	5	865	5	DCLRE1A	10	115605541	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	1688455	115605541	19929206	124	40813											
TCERG1L	256536	broad.mit.edu	37	chr10	133107428	133107428	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttaccttacagttaggAatccttttgtctatccaact	9	18	5	9	0	1	0	0	0	1	0	3	1	3	1	3	1	3	2	3	1	6	8			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr10:133107428A>T	uc001lkp.2	-	2	563	c.477T>A	c.(475-477)ATT>ATA	p.I159I		NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	159	WW 1.									large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		TACAGTTAGGAATCCTTTTGT	0.433													5	28					0	0	0.014758	0	0		T	133107428	T	T	133107428	2	4	56	1	0	0	0	0	0	0	0	1	15711	242	9	5		5	TCERG1L	10	133107428	Silent	SNP	A	TCGA-BR-7901-01A-11D-2201-08	17501887	133107428	2427319	125	40814											
IFITM1	8519	broad.mit.edu	37	chr11	314303	314303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggtccctgttcaacaccCtcttcttgaactggtgctgt	5	15	8	13	0	4	1	1	1	3	0	5	1	5	1	2	2	3	2	2	2	2	3	rs11552362		TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:314303C>T	uc001loy.3	+	1	313	c.133C>T	c.(133-135)CTC>TTC	p.L45F		NM_003641	NP_003632	P13164	IFM1_HUMAN	interferon induced transmembrane protein 1	45	Helical; (Potential).				negative regulation of cell proliferation|regulation of immune response|response to virus|type I interferon-mediated signaling pathway	integral to membrane|plasma membrane	protein binding|receptor signaling protein activity				0		all_cancers(49;2e-09)|all_epithelial(84;3.36e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;8.85e-28)|Epithelial(43;5.52e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0327)|LUSC - Lung squamous cell carcinoma(625;0.122)		GTTCAACACCCTCTTCTTGAA	0.617													4	134					0	0	0.014758	0	0		T	314303	T	T	314303	3	4	56	1	0	0	0	0	1	0	0	0	7542	681	24	4	135	4	IFITM1	11	314303	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08		314303	134692213	126	40815											
OR51L1	119682	broad.mit.edu	37	chr11	5020810	5020810	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgccaggaccaacagtattTatgggctttgtgtagtcatt	10	14	10	7	0	1	0	1	0	0	0	1	1	1	1	2	2	2	3	2	2	4	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:5020810T>C	uc010qyu.1	+	1	598	c.598T>C	c.(598-600)TAT>CAT	p.Y200H		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	200	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		CAACAGTATTTATGGGCTTTG	0.428													7	56					0	0	0.069234	0	0		C	5020810	C	C	5020810	3	2	56	1	0	0	0	0	1	0	0	0	11121	1754	61	3	600	3	OR51L1	11	5020810	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	4706507	5020810	129985706	127	40816											
OR10A5	144124	broad.mit.edu	37	chr11	6867680	6867680	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctctcttttctatatatcttCtagcctcacctacttctggc	6	18	3	14	0	6	0	1	0	5	0	7	0	6	0	2	1	2	0	2	1	5	9			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:6867680C>G	uc001met.1	+	1	767	c.767C>G	c.(766-768)TCT>TGT	p.S256C		NM_178168	NP_835462	Q9H207	O10A5_HUMAN	olfactory receptor, family 10, subfamily A,	256	Helical; Name=6; (Potential).			S -> L (in Ref. 4; AAC70019).	sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TATATATCTTCTAGCCTCACC	0.433													8	156					0	0	0.069234	0	0		G	6867680	G	G	6867680	3	3	56	1	0	0	0	0	1	0	0	0	10912	913	32	5	769	5	OR10A5	11	6867680	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	1846870	6867680	128138836	128	40817											
OR10A5	144124	broad.mit.edu	37	chr11	6867694	6867694	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcttctagcctcacctacTtctggcctaaatcaaataat	12	14	3	12	0	5	0	2	0	3	0	5	0	5	0	3	1	2	0	3	1	7	7			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:6867694T>G	uc001met.1	+	1	781	c.781T>G	c.(781-783)TTC>GTC	p.F261V		NM_178168	NP_835462	Q9H207	O10A5_HUMAN	olfactory receptor, family 10, subfamily A,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CCTCACCTACTTCTGGCCTAA	0.423													8	157					0	0	0.080935	0	0		G	6867694	G	G	6867694	3	3	56	1	0	0	0	0	1	0	0	0	10912	1609	56	5	783	5	OR10A5	11	6867694	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	14	6867694	128138822	129	40818											
OVCH2	341277	broad.mit.edu	37	chr11	7718031	7718031	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaatgggtctgtcttctaaAgaatacattgacaggtaact	13	12	8	8	0	3	2	0	1	3	1	3	2	3	2	1	2	2	1	1	2	6	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:7718031A>T	uc010rbf.1	-	10	1122	c.1122T>A	c.(1120-1122)TCT>TCA	p.S374S		NM_198185	NP_937828			ovochymase 2 precursor												0				Epithelial(150;7.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.197)		TGTCTTCTAAAGAATACATTG	0.458													4	41					0	0	0.009096	0	0		T	7718031	T	T	7718031	2	4	56	1	0	0	0	0	0	0	0	1	11343	59	3	5		5	OVCH2	11	7718031	Silent	SNP	A	TCGA-BR-7901-01A-11D-2201-08	850337	7718031	127288485	130	40819											
NELL1	4745	broad.mit.edu	37	chr11	20948910	20948910	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactgtcattgtgagaagacTtgtcaagtgagtggactgct	11	12	12	6	0	2	3	2	2	0	2	2	5	2	4	0	1	2	1	0	1	3	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:20948910T>G	uc001mqe.2	+	8	969	c.816T>G	c.(814-816)ACT>ACG	p.T272T	NELL1_uc001mqf.2_Silent_p.T272T|NELL1_uc009yid.2_Silent_p.T300T|NELL1_uc010rdo.1_Silent_p.T215T|NELL1_uc010rdp.1_Silent_p.T32T	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	272	VWFC 1.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						GTGAGAAGACTTGTCAAGTGA	0.383													4	54					0	0	0.009096	0	0		G	20948910	G	G	20948910	2	3	56	1	0	0	0	0	0	0	0	1	10352	1596	56	5		5	NELL1	11	20948910	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	13230879	20948910	114057606	131	40820											
NELL1	4745	broad.mit.edu	37	chr11	20959356	20959356	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtatctatggaggaaaagTtcttgcagaaggccagcgga	13	9	13	6	1	2	1	0	0	2	1	2	4	2	4	1	4	2	3	1	4	5	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:20959356T>G	uc001mqe.2	+	10	1175	c.1022T>G	c.(1021-1023)GTT>GGT	p.V341G	NELL1_uc001mqf.2_Missense_Mutation_p.V341G|NELL1_uc009yid.2_Missense_Mutation_p.V369G|NELL1_uc010rdo.1_Missense_Mutation_p.V284G|NELL1_uc010rdp.1_Missense_Mutation_p.V101G	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	341	VWFC 2.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						GGAGGAAAAGTTCTTGCAGAA	0.408													5	58					0	0	0.021553	0	0		G	20959356	G	G	20959356	3	3	56	1	0	0	0	0	1	0	0	0	10352	1725	60	5	1060	5	NELL1	11	20959356	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	10446	20959356	114047160	132	40821											
LRRC4C	57689	broad.mit.edu	37	chr11	40136487	40136487	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgtgacggttgaaaagtaAgagaaaggagtagtggttgc	14	9	15	3	1	0	3	0	2	0	1	0	5	0	4	0	3	1	4	0	3	5	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:40136487A>T	uc001mxa.1	-	2	3320	c.1356T>A	c.(1354-1356)TCT>TCA	p.S452S	LRRC4C_uc001mxc.1_Silent_p.S448S|LRRC4C_uc001mxd.1_Silent_p.S448S|LRRC4C_uc001mxb.1_Silent_p.S448S	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	452					regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				TTGAAAAGTAAGAGAAAGGAG	0.483													8	108					0	0	0.069234	0	0		T	40136487	T	T	40136487	2	4	56	1	0	0	0	0	0	0	0	1	9026	59	3	5		5	LRRC4C	11	40136487	Silent	SNP	A	TCGA-BR-7901-01A-11D-2201-08	19177131	40136487	94870029	133	40822											
OR4A47	403253	broad.mit.edu	37	chr11	48511093	48511093	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggttgtcttcttctttgTtccttgtatttttatgtatg	3	25	8	5	0	3	0	0	0	3	0	4	0	4	0	1	1	0	4	1	1	3	11			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:48511093T>A	uc010rhx.1	+	1	749	c.749T>A	c.(748-750)GTT>GAT	p.V250D		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	250	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTCTTCTTTGTTCCTTGTATT	0.433													14	153					0	0	0.0333	0	0		A	48511093	A	A	48511093	3	1	56	1	0	0	0	0	1	0	0	0	11061	1725	60	5	751	5	OR4A47	11	48511093	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	8374606	48511093	86495423	134	40823											
OR8H3	390152	broad.mit.edu	37	chr11	55890577	55890577	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttctctacttgcgtctcTcatctcttgggagtcaccat	5	16	7	13	1	5	0	2	0	3	0	8	1	5	1	1	1	2	1	1	1	1	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:55890577T>A	uc001nii.1	+	1	729	c.729T>A	c.(727-729)TCT>TCA	p.S243S		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CTTGCGTCTCTCATCTCTTGG	0.403													5	49					0	0	0.014758	0	0		A	55890577	A	A	55890577	2	1	56	1	0	0	0	0	0	0	0	1	11258	1538	54	5		5	OR8H3	11	55890577	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	7379484	55890577	79115939	135	40824											
OR8J1	219477	broad.mit.edu	37	chr11	56127847	56127847	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggctgaccatggcagggaAcctgggcatcatcaccctca	9	7	12	13	0	3	1	3	1	0	0	3	2	3	2	3	4	1	3	3	4	1	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:56127847A>G	uc010rjh.1	+	1	125	c.125A>G	c.(124-126)AAC>AGC	p.N42S		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	42	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					ATGGCAGGGAACCTGGGCATC	0.493													7	110					0	0	0.02938	0	0		G	56127847	G	G	56127847	3	3	56	1	0	0	0	0	1	0	0	0	11260	43	2	3	127	3	OR8J1	11	56127847	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	237270	56127847	78878669	136	40825											
CLP1	10978	broad.mit.edu	37	chr11	57427134	57427134	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctttgatgctggtgccaaGgtggctgttttcacttggca	6	14	12	9	0	1	1	1	1	0	0	1	1	1	1	2	4	2	4	2	4	1	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:57427134G>A	uc001nkw.2	+	2	325	c.186G>A	c.(184-186)AAG>AAA	p.K62K	CLP1_uc010rjw.1_Silent_p.K62K|CLP1_uc009yml.2_Silent_p.K62K	NM_006831	NP_006822	Q92989	CLP1_HUMAN	ATP/GTP-binding protein isoform 1	62					mRNA 3'-end processing|nuclear mRNA splicing, via spliceosome|siRNA loading onto RISC involved in RNA interference|targeting of mRNA for destruction involved in RNA interference|termination of RNA polymerase II transcription|tRNA splicing, via endonucleolytic cleavage and ligation	nucleoplasm|tRNA-intron endonuclease complex	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity			ovary(1)	1						CTGGTGCCAAGGTGGCTGTTT	0.502													3	49					0	0	0.004672	0	0		A	57427134	A	A	57427134	2	1	56	1	0	0	0	0	0	0	0	1	3553	991	35	4		4	CLP1	11	57427134	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	1299287	57427134	77579382	137	40826											
FADS2	9415	broad.mit.edu	37	chr11	61624490	61624490	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctctctcctcagtacggcaAgaagaagctgaaatacctgc	12	8	8	13	1	2	3	1	1	1	2	4	3	3	3	3	1	4	3	3	1	6	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:61624490A>G	uc001nsl.1	+	6	902	c.752A>G	c.(751-753)AAG>AGG	p.K251R	FADS2_uc001nsj.2_Missense_Mutation_p.K229R|FADS2_uc010rlo.1_Missense_Mutation_p.K220R|FADS2_uc001nsk.2_Missense_Mutation_p.K251R	NM_004265	NP_004256	O95864	FADS2_HUMAN	fatty acid desaturase 2	251	Cytoplasmic (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	heme binding			ovary(1)|pancreas(1)	2					Alpha-Linolenic Acid(DB00132)	CAGTACGGCAAGAAGAAGCTG	0.572													4	109					0	0	0.02938	0	0		G	61624490	G	G	61624490	3	3	56	1	0	0	0	0	1	0	0	0	5377	72	3	3	774	3	FADS2	11	61624490	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	4197356	61624490	73382026	138	40827											
RBM4	5936	broad.mit.edu	37	chr11	66411193	66411193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagcgctgccgtgctgccCggtcctatgaggcagtggca	7	7	14	13	3	0	1	0	1	0	0	1	1	1	1	3	3	4	4	3	3	2	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:66411193C>T	uc009yrj.2	+	3	1173	c.685C>T	c.(685-687)CGG>TGG	p.R229W	RBM4_uc009yrk.2_Missense_Mutation_p.R204W|RBM4_uc001oiw.1_Missense_Mutation_p.R229W|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Missense_Mutation_p.R229W|RBM4_uc001oiz.1_Missense_Mutation_p.R229W	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	229	Interaction with TNPO3.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		CCGTGCTGCCCGGTCCTATGA	0.567													21	39					0	0	0.076483	0	0		T	66411193	T	T	66411193	3	4	56	1	0	0	0	0	1	0	0	0	13159	643	23	1	691	1	RBM4	11	66411193	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	4786703	66411193	68595323	139	40828											
P2RY6	5031	broad.mit.edu	37	chr11	73008014	73008014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggctagtgtgtgtagccGtgtggctggccgtgacaacc	5	10	15	11	2	0	1	0	1	0	0	0	1	0	1	4	3	2	3	4	3	3	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:73008014G>A	uc001otm.2	+	4	856	c.451G>A	c.(451-453)GTG>ATG	p.V151M	P2RY6_uc001otn.2_Missense_Mutation_p.V151M|P2RY6_uc001oto.2_Missense_Mutation_p.V151M|P2RY6_uc001otp.2_Missense_Mutation_p.V151M|P2RY6_uc001otq.2_Missense_Mutation_p.V151M|P2RY6_uc001otr.2_Missense_Mutation_p.V151M|P2RY6_uc001ots.2_Missense_Mutation_p.V151M	NM_176796	NP_789766	Q15077	P2RY6_HUMAN	pyrimidinergic receptor P2Y6	151	Helical; Name=4; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1						GTGTGTAGCCGTGTGGCTGGC	0.667													7	58					0	0	0.02938	0	0		A	73008014	A	A	73008014	3	1	56	1	0	0	0	0	1	0	0	0	11373	1145	40	1	453	1	P2RY6	11	73008014	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	6596821	73008014	61998502	140	40829											
C2CD3	26005	broad.mit.edu	37	chr11	73844002	73844002	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtctttaaaccgattcctAgaaaaggctctgatcctaag	12	12	8	9	1	2	2	0	1	2	1	4	3	4	2	3	2	1	1	3	2	6	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:73844002A>G	uc001ouu.2	-	7	1331	c.1104T>C	c.(1102-1104)TCT>TCC	p.S368S	C2CD3_uc001ouv.2_Silent_p.S368S	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	368						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					ACCGATTCCTAGAAAAGGCTC	0.403													15	43					0	0	0.028581	0	0		G	73844002	G	G	73844002	2	3	56	1	0	0	0	0	0	0	0	1	2157	407	15	3		3	C2CD3	11	73844002	Silent	SNP	A	TCGA-BR-7901-01A-11D-2201-08	835988	73844002	61162514	141	40830											
HEPHL1	341208	broad.mit.edu	37	chr11	93808527	93808527	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctagtctgtaaaaagggCgtcctcaatgctgatgggac	10	11	12	8	1	2	1	1	1	1	0	3	2	3	2	1	2	2	3	1	2	5	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:93808527C>T	uc001pep.2	+	9	1849	c.1692C>T	c.(1690-1692)GGC>GGT	p.G564G	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	564	Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				GTAAAAAGGGCGTCCTCAATG	0.517													4	48					0	0	0.009096	0	0		T	93808527	T	T	93808527	2	4	56	1	0	0	0	0	0	0	0	1	7071	755	27	1		1	HEPHL1	11	93808527	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	19964525	93808527	41197989	142	40831											
ANGPTL5	253935	broad.mit.edu	37	chr11	101775550	101775550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taccaaagttctcaccatgtGactgaacaggtctgtgagga	12	10	10	9	0	2	3	1	3	2	0	3	4	2	4	2	2	2	1	2	2	3	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:101775550G>A	uc001pgl.2	-	5	1030	c.434C>T	c.(433-435)TCA>TTA	p.S145L		NM_178127	NP_835228	Q86XS5	ANGL5_HUMAN	angiopoietin-like 5 precursor	145	Fibrinogen C-terminal.				signal transduction	extracellular space	receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.043)		BRCA - Breast invasive adenocarcinoma(274;0.0328)		CTCACCATGTGACTGAACAGG	0.353													6	59					0	0	0.02938	0	0		A	101775550	A	A	101775550	3	1	56	1	0	0	0	0	1	0	0	0	617	1294	45	4	752	4	ANGPTL5	11	101775550	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	7967023	101775550	33230966	143	40832											
DYNC2H1	79659	broad.mit.edu	37	chr11	103152957	103152957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagacatgttacggaaagCtgtaagttaaaataacaaaa	19	9	9	4	1	0	1	0	0	0	1	0	3	0	2	0	2	3	4	0	2	8	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:103152957C>T	uc001pho.2	+	72	10955	c.10811C>T	c.(10810-10812)GCT>GTT	p.A3604V	DYNC2H1_uc001phn.1_Missense_Mutation_p.A3611V|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3604					cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TTACGGAAAGCTGTAAGTTAA	0.294													4	33					0	0	0.014758	0	0		T	103152957	T	T	103152957	3	4	56	1	0	0	0	0	1	0	0	0	4852	811	28	2	11122	2	DYNC2H1	11	103152957	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	1377407	103152957	31853559	144	40833											
TTC12	54970	broad.mit.edu	37	chr11	113235630	113235630	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacgctgccctctgccttggTaactgcatggaggtgcccaa	8	9	11	13	1	1	0	0	0	1	0	1	1	1	1	3	3	6	3	3	3	3	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:113235630T>G	uc001pnu.2	+	21	1995	c.1890T>G	c.(1888-1890)GGT>GGG	p.G630G	TTC12_uc001pnv.2_Silent_p.G636G|TTC12_uc001pnw.2_RNA|TTC12_uc001pnx.2_Silent_p.G480G	NM_017868	NP_060338	Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12	630							binding	p.G630D(1)		pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4		all_cancers(61;2.73e-16)|all_epithelial(67;8.64e-10)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.183)|Renal(330;0.187)		BRCA - Breast invasive adenocarcinoma(274;5.3e-06)|Epithelial(105;8.37e-05)|all cancers(92;0.000694)		TCTGCCTTGGTAACTGCATGG	0.542													7	82					0	0	0.038147	0	0		G	113235630	G	G	113235630	2	3	56	1	0	0	0	0	0	0	0	1	16705	1625	57	5		5	TTC12	11	113235630	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	10082673	113235630	21770886	145	40834											
ARHGEF12	23365	broad.mit.edu	37	chr11	120348905	120348905	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctaccttaatatcgtcaaaAcctcagtctcattcactgag	12	13	4	12	1	5	1	4	1	2	0	7	1	5	1	2	0	2	0	2	0	5	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr11:120348905A>C	uc001pxl.1	+	37	3580	c.3573A>C	c.(3571-3573)AAA>AAC	p.K1191N	ARHGEF12_uc009zat.2_Missense_Mutation_p.K1172N|ARHGEF12_uc009zau.1_Missense_Mutation_p.K1088N	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	1191					apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		TATCGTCAAAACCTCAGTCTC	0.388			T	MLL	AML								13	56					0	0	0.038395	0	0		C	120348905	C	C	120348905	3	2	56	1	0	0	0	0	1	0	0	0	897	40	2	5	3719	5	ARHGEF12	11	120348905	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	7113275	120348905	14657611	146	40835											
PRB1	5542	broad.mit.edu	37	chr12	11506566	11506566	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggggtggtccttgtggCtttcctggaggagatcaggg	4	12	19	6	0	1	1	1	0	0	1	3	3	3	2	2	7	0	1	2	7	0	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr12:11506566C>T	uc001qzw.1	-	4	508	c.471G>A	c.(469-471)AAG>AAA	p.K157K	PRB1_uc001qzu.1_Intron|PRB1_uc001qzv.1_Intron	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	218	9.|15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].		Missing (in clone CP-4).|Missing (in clone CP-5).|Missing (in allele S).			extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GTCCTTGTGGCTTTCCTGGAG	0.597													5	36					0	0	0.02938	0	0		T	11506566	T	T	11506566	2	4	56	1	0	0	0	0	0	0	0	1	12464	796	28	2		2	PRB1	12	11506566	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08		11506566	122345329	147	40836											
CASC1	55259	broad.mit.edu	37	chr12	25261681	25261681	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccttgatcttcagtcttTgtgctctgtcaccactaaac	7	16	5	13	0	5	1	2	1	3	0	6	1	6	1	2	0	2	1	2	0	2	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr12:25261681T>C	uc001rgl.2	-	15	2034	c.1952A>G	c.(1951-1953)CAA>CGA	p.Q651R	CASC1_uc001rgk.2_Missense_Mutation_p.Q657R|CASC1_uc001rgm.3_3'UTR|CASC1_uc001rgj.2_Missense_Mutation_p.Q611R|CASC1_uc010sje.1_Missense_Mutation_p.Q592R|CASC1_uc010sjf.1_3'UTR	NM_001082973	NP_001076442	Q6TDU7	CASC1_HUMAN	cancer susceptibility candidate 1 isoform b	651										ovary(2)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Melanoma(3;0.0301)|Colorectal(261;0.11)		OV - Ovarian serous cystadenocarcinoma(3;7.42e-20)|Epithelial(3;7.58e-16)|all cancers(3;1.07e-13)			CTTCAGTCTTTGTGCTCTGTC	0.368													13	59					0	0	0.024245	0	0		C	25261681	C	C	25261681	3	2	56	1	0	0	0	0	1	0	0	0	2663	1812	63	3	202	3	CASC1	12	25261681	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	13755115	25261681	108590214	148	40837											
SMARCC2	6601	broad.mit.edu	37	chr12	56568472	56568472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcacccgctaggtttcggcGgcaggcggtagaggtaagat	9	8	15	9	4	1	2	1	0	0	2	2	2	1	2	1	6	0	5	1	6	3	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr12:56568472G>A	uc001skb.2	-	16	1565	c.1459C>T	c.(1459-1461)CGC>TGC	p.R487C	SMARCC2_uc001skd.2_Missense_Mutation_p.R487C|SMARCC2_uc001ska.2_Missense_Mutation_p.R487C|SMARCC2_uc001skc.2_Missense_Mutation_p.R487C|SMARCC2_uc010sqf.1_Missense_Mutation_p.R376C	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	487	SWIRM.				chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			AGGTTTCGGCGGCAGGCGGTA	0.517													7	117					0	0	0.047766	0	0		A	56568472	A	A	56568472	3	1	56	1	0	0	0	0	1	0	0	0	14801	1116	39	1	2334	1	SMARCC2	12	56568472	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	31306791	56568472	77283423	149	40838											
LRRC10	376132	broad.mit.edu	37	chr12	70003953	70003953	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggtgcgttcctgcaaggAttgtggtcatagatgaccag	8	12	14	7	1	1	2	1	1	0	1	2	3	2	3	2	3	2	2	2	3	2	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr12:70003953A>G	uc001svc.2	-	1	990	c.666T>C	c.(664-666)AAT>AAC	p.N222N		NM_201550	NP_963844	Q5BKY1	LRC10_HUMAN	leucine rich repeat containing 10	222						nucleus					0	all_cancers(2;2.83e-105)|Breast(13;9.83e-07)|Esophageal squamous(21;0.187)		Epithelial(6;1.98e-18)|GBM - Glioblastoma multiforme(2;7.43e-12)|Lung(24;0.000185)|OV - Ovarian serous cystadenocarcinoma(12;0.00126)|STAD - Stomach adenocarcinoma(21;0.00501)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			TCCTGCAAGGATTGTGGTCAT	0.587													5	35					0	0	0.02938	0	0		G	70003953	G	G	70003953	2	3	56	1	0	0	0	0	0	0	0	1	8985	330	12	3		3	LRRC10	12	70003953	Silent	SNP	A	TCGA-BR-7901-01A-11D-2201-08	13435481	70003953	63847942	150	40839											
PTPRB	5787	broad.mit.edu	37	chr12	70974970	70974970	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttaatgaccacattttcatgGatcagtaagacttggtaaaa	15	13	7	6	0	2	2	2	1	0	1	2	3	2	3	1	2	0	2	1	2	4	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr12:70974970G>A	uc001swb.3	-	8	1800	c.1770C>T	c.(1768-1770)ATC>ATT	p.I590I	PTPRB_uc010sto.1_Silent_p.I590I|PTPRB_uc010stp.1_Silent_p.I500I|PTPRB_uc001swc.3_Silent_p.I808I|PTPRB_uc001swa.3_Silent_p.I808I|PTPRB_uc001swd.3_Silent_p.I807I|PTPRB_uc009zrr.1_Silent_p.I687I	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	590	Fibronectin type-III 7.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CATTTTCATGGATCAGTAAGA	0.463													6	138					0	0	0.02938	0	0		A	70974970	A	A	70974970	2	1	56	1	0	0	0	0	0	0	0	1	12821	1164	41	4		4	PTPRB	12	70974970	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	971017	70974970	62876925	151	40840											
NAV3	89795	broad.mit.edu	37	chr12	78604244	78604244	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaaagctgcgacagcgaaAgcaccagccaccatgaagac	16	2	9	14	2	0	2	0	1	0	1	0	4	0	2	3	0	5	2	3	0	3	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr12:78604244A>G	uc001syp.2	+	40	7278	c.7105A>G	c.(7105-7107)AGC>GGC	p.S2369G	NAV3_uc001syo.2_Missense_Mutation_p.S2347G|NAV3_uc010sub.1_Missense_Mutation_p.S1826G|NAV3_uc009zsf.2_Missense_Mutation_p.S1178G	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2369						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CGACAGCGAAAGCACCAGCCA	0.388										HNSCC(70;0.22)			3	33					0	0	0.004672	0	0		G	78604244	G	G	78604244	3	3	56	1	0	0	0	0	1	0	0	0	10203	72	3	3	7193	3	NAV3	12	78604244	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	7629274	78604244	55247651	152	40841											
CHPT1	56994	broad.mit.edu	37	chr12	102117024	102117024	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatctataaaaagtcagcaActgatgtgtttgaaaagcat	16	12	8	5	0	2	3	1	3	1	0	2	3	2	3	0	0	3	3	0	0	7	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr12:102117024A>G	uc001tin.2	+	6	1082	c.859A>G	c.(859-861)ACT>GCT	p.T287A	CHPT1_uc001tio.2_RNA|CHPT1_uc001tip.1_Missense_Mutation_p.T287A	NM_020244	NP_064629	Q8WUD6	CHPT1_HUMAN	choline phosphotransferase 1	287					platelet activating factor biosynthetic process|regulation of cell growth	Golgi membrane|integral to membrane|microsome	diacylglycerol binding|diacylglycerol cholinephosphotransferase activity|metal ion binding				0						AAAGTCAGCAACTGATGTGTT	0.343													14	35					0	0	0.024245	0	0		G	102117024	G	G	102117024	3	3	56	1	0	0	0	0	1	0	0	0	3373	43	2	3	881	3	CHPT1	12	102117024	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	23512780	102117024	31734871	153	40842											
NUAK1	9891	broad.mit.edu	37	chr12	106464550	106464550	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccctccacagggcacgcAcctgagggctgtgttggctc	5	8	12	16	1	0	1	0	1	0	0	3	1	2	1	4	3	0	5	4	3	0	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr12:106464550A>C	uc001tlj.1	-	6	2212	c.832_splice	c.e6+1	p.D278_splice		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5								ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						CAGGGCACGCACCTGAGGGCT	0.507													9	92					0	0	0.069234	0	0		C	106464550	C	C	106464550	5	2	56	1	0	0	0	0	0	0	1	0	10731	173	6	5	1159	5	NUAK1	12	106464550	Splice_Site	SNP	A	TCGA-BR-7901-01A-11D-2201-08	4347526	106464550	27387345	154	40843											
TMEM132D	121256	broad.mit.edu	37	chr12	129822217	129822217	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaatcaagtcctttgggcTcacatagatcttggacactc	10	12	7	12	0	3	1	2	0	1	1	6	2	5	2	2	2	0	1	2	2	3	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr12:129822217T>A	uc009zyl.1	-	4	1589	c.1261A>T	c.(1261-1263)AGC>TGC	p.S421C		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	421	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TCCTTTGGGCTCACATAGATC	0.612													17	167					0	0	0.0333	0	0		A	129822217	A	A	129822217	3	1	56	1	0	0	0	0	1	0	0	0	16072	1551	54	5	2062	5	TMEM132D	12	129822217	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	23357667	129822217	4029678	155	40844											
GJB6	10804	broad.mit.edu	37	chr13	20796878	20796878	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttgaccactatctgaaaTcagctcattcatttcattct	11	17	3	10	0	6	2	4	2	2	0	6	2	6	2	1	0	1	1	1	0	2	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr13:20796878T>G	uc001umz.3	-	3	1295	c.742A>C	c.(742-744)ATT>CTT	p.I248L	GJB6_uc001unc.3_Missense_Mutation_p.I248L|GJB6_uc001una.3_Missense_Mutation_p.I248L|GJB6_uc001und.3_Missense_Mutation_p.I248L|GJB6_uc001unb.3_Missense_Mutation_p.I248L	NM_006783	NP_006774	O95452	CXB6_HUMAN	gap junction protein, beta 6	248	Cytoplasmic (Potential).				cell communication|sensory perception of sound	connexon complex|integral to membrane|intracellular membrane-bounded organelle				ovary(1)	1		all_cancers(29;2.04e-22)|all_epithelial(30;1.19e-19)|all_lung(29;2.27e-18)|Lung SC(185;0.0257)|Ovarian(182;0.0822)		all cancers(112;2.17e-05)|Epithelial(112;0.00075)|OV - Ovarian serous cystadenocarcinoma(117;0.00978)|Lung(94;0.0238)|GBM - Glioblastoma multiforme(144;0.0323)|LUSC - Lung squamous cell carcinoma(192;0.0744)		CTATCTGAAATCAGCTCATTC	0.408													4	161					0	0	0.021553	0	0		G	20796878	G	G	20796878	3	3	56	1	0	0	0	0	1	0	0	0	6427	1435	50	5	47	5	GJB6	13	20796878	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08		20796878	94373000	156	40845											
TNFRSF19	55504	broad.mit.edu	37	chr13	24190168	24190168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagtgatgccatctgcGgggactgcttgccagggtga	7	8	14	12	1	1	2	0	2	1	0	1	3	1	3	4	3	4	1	4	3	0	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr13:24190168G>A	uc001uov.1	+	4	407	c.343G>A	c.(343-345)GGG>AGG	p.G115R	TNFRSF19_uc001uot.2_Missense_Mutation_p.G115R|TNFRSF19_uc010tcu.1_5'UTR|TNFRSF19_uc001uow.2_Missense_Mutation_p.G115R	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	115	Extracellular (Potential).				apoptosis|induction of apoptosis|JNK cascade	integral to membrane|mitochondrion	tumor necrosis factor receptor activity			kidney(1)|skin(1)	2		all_cancers(29;3.4e-22)|all_epithelial(30;8.75e-19)|all_lung(29;5.09e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00193)|Epithelial(112;0.0137)|OV - Ovarian serous cystadenocarcinoma(117;0.0465)|GBM - Glioblastoma multiforme(144;0.184)|Lung(94;0.19)		TGCCATCTGCGGGGACTGCTT	0.473													3	88					0	0	0.009096	0	0		A	24190168	A	A	24190168	3	1	56	1	0	0	0	0	1	0	0	0	16317	1116	39	1	353	1	TNFRSF19	13	24190168	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	3393290	24190168	90979710	157	40846											
TRPC4	7223	broad.mit.edu	37	chr13	38211114	38211114	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcatagtctatactagagtCctcttcttttgcatgtttct	8	19	5	9	0	5	1	1	0	4	1	6	1	6	1	1	0	2	2	1	0	4	8			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr13:38211114C>A	uc001uws.2	-	11	3095	c.2860G>T	c.(2860-2862)GAC>TAC	p.D954Y	TRPC4_uc010abv.2_Missense_Mutation_p.D534Y|TRPC4_uc001uwt.2_Missense_Mutation_p.D870Y|TRPC4_uc010tey.1_Missense_Mutation_p.D813Y|TRPC4_uc010abw.2_Missense_Mutation_p.D781Y|TRPC4_uc010abx.2_Missense_Mutation_p.D959Y|TRPC4_uc010aby.2_Missense_Mutation_p.D805Y	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	954	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		ATACTAGAGTCCTCTTCTTTT	0.443													9	79					3.03607e-14	3.33108e-14	0.09319	1	0		A	38211114	A	A	38211114	3	1	56	1	0	0	0	0	1	0	0	0	16606	855	30	5	77	5	TRPC4	13	38211114	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	14020946	38211114	76958764	158	40847											
TRPC4	7223	broad.mit.edu	37	chr13	38211582	38211582	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgaatcagggtggttaaatCaaaaaggctgaaattctttt	15	13	9	4	0	3	2	2	2	1	0	3	2	3	2	0	3	0	2	0	3	6	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr13:38211582C>T	uc001uws.2	-	11	2627	c.2392G>A	c.(2392-2394)GAT>AAT	p.D798N	TRPC4_uc010abv.2_Missense_Mutation_p.D378N|TRPC4_uc001uwt.2_Intron|TRPC4_uc010tey.1_Intron|TRPC4_uc010abw.2_Missense_Mutation_p.D625N|TRPC4_uc010abx.2_Missense_Mutation_p.D803N|TRPC4_uc010aby.2_Intron	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	798	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		GTGGTTAAATCAAAAAGGCTG	0.463													8	70					0	0	0.038147	0	0		T	38211582	T	T	38211582	3	4	56	1	0	0	0	0	1	0	0	0	16606	826	29	4	545	4	TRPC4	13	38211582	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	468	38211582	76958296	159	40848											
ENOX1	55068	broad.mit.edu	37	chr13	43896599	43896599	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccatttcttcttcgcggcgGatgcccatgagctgctcact	5	13	9	14	3	3	1	1	1	2	0	5	2	4	2	2	2	3	2	2	2	0	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr13:43896599G>A	uc001uza.3	-	11	1482	c.1182C>T	c.(1180-1182)ATC>ATT	p.I394I	ENOX1_uc001uzb.3_Silent_p.I394I|ENOX1_uc001uzc.3_Silent_p.I394I|ENOX1_uc001uyz.3_Silent_p.I3I|ENOX1_uc010tfm.1_Silent_p.I207I	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	394					electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		CTTCGCGGCGGATGCCCATGA	0.473													11	40					0	0	0.069234	0	0		A	43896599	A	A	43896599	2	1	56	1	0	0	0	0	0	0	0	1	5134	1164	41	4		4	ENOX1	13	43896599	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	5685017	43896599	71273279	160	40849											
PCDH17	27253	broad.mit.edu	37	chr13	58298909	58298909	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgttgagactgagacttaCgaaactgtgaatcccactgg	13	10	10	8	1	0	3	0	3	0	2	1	6	1	3	1	1	2	1	1	1	4	2	rs138830034	byFrequency	TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr13:58298909C>T	uc001vhq.1	+	4	3853	c.2961C>T	c.(2959-2961)TAC>TAT	p.Y987Y	PCDH17_uc010aec.1_Silent_p.Y986Y|PCDH17_uc001vhr.1_Silent_p.Y76Y	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	987	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CTGAGACTTACGAAACTGTGA	0.413													3	52					0	0	0.004672	0	0		T	58298909	T	T	58298909	2	4	56	1	0	0	0	0	0	0	0	1	11531	547	19	1		1	PCDH17	13	58298909	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	14402310	58298909	56870969	161	40850											
TDRD3	81550	broad.mit.edu	37	chr13	61084866	61084866	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttgatttcttggaatctaAaatgggaactttgaatgtgg	12	16	10	3	0	2	2	0	2	2	0	2	4	2	4	0	3	1	0	0	3	5	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr13:61084866A>T	uc001via.2	+	10	1627	c.839A>T	c.(838-840)AAA>ATA	p.K280I	TDRD3_uc010aef.2_Missense_Mutation_p.K105I|TDRD3_uc001vhz.3_Missense_Mutation_p.K280I|TDRD3_uc010aeg.2_Missense_Mutation_p.K373I|TDRD3_uc001vib.3_Missense_Mutation_p.K279I	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	280					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		TTGGAATCTAAAATGGGAACT	0.323													4	51					0	0	0.021553	0	0		T	61084866	T	T	61084866	3	4	56	1	0	0	0	0	1	0	0	0	15757	14	1	5	1156	5	TDRD3	13	61084866	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	2785957	61084866	54085012	162	40851											
DACH1	1602	broad.mit.edu	37	chr13	72440223	72440223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcttggtgtagaccgtatGcaagccccccaccaagtgct	9	8	10	14	1	0	1	0	0	0	1	0	1	0	1	5	1	4	5	5	1	4	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr13:72440223G>A	uc010thn.1	-	2	1102	c.679C>T	c.(679-681)CAT>TAT	p.H227Y	DACH1_uc010tho.1_Missense_Mutation_p.H227Y|DACH1_uc010thp.1_Missense_Mutation_p.H227Y	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	227	Interaction with SIX6 and HDAC3 (By similarity).|DACHbox-N.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		TAGACCGTATGCAAGCCCCCC	0.622													8	78					0	0	0.047766	0	0		A	72440223	A	A	72440223	3	1	56	1	0	0	0	0	1	0	0	0	4223	1319	46	2	1485	2	DACH1	13	72440223	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	11355357	72440223	42729655	163	40852											
EDNRB	1910	broad.mit.edu	37	chr13	78477411	78477411	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccagaaccacagagacCacccaaatcaaaacaatttc	19	4	4	14	0	1	2	1	0	0	2	2	3	1	2	4	0	3	0	4	0	5	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr13:78477411C>A	uc001vko.2	-	3	939	c.681G>T	c.(679-681)GTG>GTT	p.V227V	EDNRB_uc001vkq.1_Silent_p.V227V|uc001vkn.1_Intron|EDNRB_uc010aez.1_Silent_p.V227V|EDNRB_uc001vkp.1_Silent_p.V310V	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	227	Helical; Name=4; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	CCACAGAGACCACCCAAATCA	0.408													13	128					2.31682e-05	2.45257e-05	0.024245	1	0		A	78477411	A	A	78477411	2	1	56	1	0	0	0	0	0	0	0	1	4926	581	21	5		5	EDNRB	13	78477411	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	6037188	78477411	36692467	164	40853											
SLITRK1	114798	broad.mit.edu	37	chr13	84454439	84454439	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcccagatccaacagaaTgaggttcttgtaatccacaa	13	10	8	10	0	1	3	0	1	1	2	3	3	3	3	3	1	2	3	3	1	4	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr13:84454439T>G	uc001vlk.2	-	1	2090	c.1204A>C	c.(1204-1206)ATT>CTT	p.I402L		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	402	Extracellular (Potential).|LRR 8.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		TCCAACAGAATGAGGTTCTTG	0.433													19	214					0	0	0.076483	0	0		G	84454439	G	G	84454439	3	3	56	1	0	0	0	0	1	0	0	0	14767	1464	51	5	890	5	SLITRK1	13	84454439	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	5977028	84454439	30715439	165	40854											
NPAS3	64067	broad.mit.edu	37	chr14	34269031	34269031	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaagaagtcgggcaacgcGtgtgacaacgacatgaactg	13	5	14	9	5	0	3	0	2	0	1	1	5	0	4	0	2	3	1	0	2	5	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr14:34269031G>A	uc001wru.2	+	12	1582	c.1518G>A	c.(1516-1518)GCG>GCA	p.A506A	NPAS3_uc001wrs.2_Silent_p.A493A|NPAS3_uc001wrt.2_Silent_p.A474A|NPAS3_uc001wrv.2_Silent_p.A476A	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	506					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		CGGGCAACGCGTGTGACAACG	0.592													3	28					0	0	0.009096	0	0		A	34269031	A	A	34269031	2	1	56	1	0	0	0	0	0	0	0	1	10583	1132	40	1		1	NPAS3	14	34269031	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08		34269031	73080509	166	40855											
NIN	51199	broad.mit.edu	37	chr14	51224398	51224398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgtttgttccgcagtatttCcaaaaaactcagtagctggc	10	13	8	10	1	1	0	1	0	0	0	3	0	3	0	2	1	2	6	2	1	5	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr14:51224398C>T	uc001wym.2	-	18	3541	c.3350G>A	c.(3349-3351)GGA>GAA	p.G1117E	NIN_uc001wyi.2_Missense_Mutation_p.G1117E|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Intron|NIN_uc010tqp.1_Missense_Mutation_p.G1123E|NIN_uc001wyo.2_Missense_Mutation_p.G1117E	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1117					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CGCAGTATTTCCAAAAAACTC	0.433			T	PDGFRB	MPD								5	112					0	0	0.014758	0	0		T	51224398	T	T	51224398	3	4	56	1	0	0	0	0	1	0	0	0	10436	855	30	4	3255	4	NIN	14	51224398	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	16955367	51224398	56125142	167	40856			2	15		4	4	416	C		5.566557e-09
NIN	51199	broad.mit.edu	37	chr14	51224423	51224423	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aaactcagtagctggctcatCcaaacaagaagacattacta	17	8	6	10	0	2	2	2	0	0	2	3	2	3	2	1	1	4	3	1	1	7	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr14:51224423C>G	uc001wym.2	-	18	3516	c.3325G>C	c.(3325-3327)GAT>CAT	p.D1109H	NIN_uc001wyi.2_Missense_Mutation_p.D1109H|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Intron|NIN_uc010tqp.1_Missense_Mutation_p.D1115H|NIN_uc001wyo.2_Missense_Mutation_p.D1109H	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1109					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					GCTGGCTCATCCAAACAAGAA	0.428			T	PDGFRB	MPD								5	127					0	0	0.021553	0	0		G	51224423	G	G	51224423	3	3	56	1	0	0	0	0	1	0	0	0	10436	855	30	5	3280	5	NIN	14	51224423	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	25	51224423	56125117	168	40857			2	15		4	4	416	C		5.566557e-09
NIN	51199	broad.mit.edu	37	chr14	51224605	51224605	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gctgaagcagggacagggctCcatctccttccacctcctcc	7	8	9	17	0	1	1	0	1	1	0	6	2	5	2	6	2	1	3	6	2	1	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr14:51224605C>G	uc001wym.2	-	18	3334	c.3143G>C	c.(3142-3144)GGA>GCA	p.G1048A	NIN_uc001wyi.2_Missense_Mutation_p.G1048A|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Intron|NIN_uc010tqp.1_Missense_Mutation_p.G1054A|NIN_uc001wyo.2_Missense_Mutation_p.G1048A	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1048					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					GGACAGGGCTCCATCTCCTTC	0.507			T	PDGFRB	MPD								5	155					0	0	0.021553	0	0		G	51224605	G	G	51224605	3	3	56	1	0	0	0	0	1	0	0	0	10436	855	30	5	3462	5	NIN	14	51224605	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	182	51224605	56124935	169	40858			2	15		4	4	416	C		5.566557e-09
NIN	51199	broad.mit.edu	37	chr14	51224813	51224813	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacatcatttcctgcctttCctggtcatgttccatttcta	6	17	6	12	0	3	0	2	0	1	0	6	1	6	1	4	2	1	1	4	2	1	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr14:51224813C>A	uc001wym.2	-	18	3126	c.2935G>T	c.(2935-2937)GAA>TAA	p.E979*	NIN_uc001wyi.2_Nonsense_Mutation_p.E979*|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Intron|NIN_uc010tqp.1_Nonsense_Mutation_p.E985*|NIN_uc001wyo.2_Nonsense_Mutation_p.E979*	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	979	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					TCCTGCCTTTCCTGGTCATGT	0.542			T	PDGFRB	MPD								5	153					2.0095e-06	2.14399e-06	0.02938	1	0		A	51224813	A	A	51224813	4	1	56	1	0	0	0	0	0	1	0	0	10436	864	30	5	3670	5	NIN	14	51224813	Nonsense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	208	51224813	56124727	170	40859			2	15		4	4	416	C		5.566557e-09
KTN1	3895	broad.mit.edu	37	chr14	56107659	56107659	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacacacaggctgctgcTgcacatgaattggagaagat	12	9	10	10	0	0	3	0	1	0	2	1	4	1	3	1	2	3	4	1	2	2	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr14:56107659T>A	uc001xcb.2	+	17	2294	c.1992T>A	c.(1990-1992)GCT>GCA	p.A664A	KTN1_uc001xce.2_Silent_p.A664A|KTN1_uc001xcc.2_Silent_p.A664A|KTN1_uc001xcd.2_Silent_p.A664A|KTN1_uc010trb.1_Silent_p.A664A|KTN1_uc001xcf.1_Silent_p.A664A	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	664	Lumenal (Potential).|Potential.				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						AGGCTGCTGCTGCACATGAAT	0.318			T	RET	papillary thryoid								5	56					0	0	0.047766	0	0		A	56107659	A	A	56107659	2	1	56	1	0	0	0	0	0	0	0	1	8601	1567	55	5		5	KTN1	14	56107659	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	4882846	56107659	51241881	171	40860											
ATP6V1D	51382	broad.mit.edu	37	chr14	67826414	67826414	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattcggtctttgcccgacAttctgacgataacttttcgg	8	14	8	11	4	2	1	0	1	2	0	4	3	2	1	1	2	2	0	1	2	2	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr14:67826414A>T	uc001xjf.2	-	1	178	c.2T>A	c.(1-3)ATG>AAG	p.M1K	ATP6V1D_uc001xje.2_RNA|EIF2S1_uc001xjg.2_5'Flank	NM_015994	NP_057078	Q9Y5K8	VATD_HUMAN	H(+)-transporting two-sector ATPase	1					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting two-sector ATPase complex, catalytic domain|vacuolar proton-transporting V-type ATPase complex	protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)|lung(1)	2				all cancers(60;0.000739)|OV - Ovarian serous cystadenocarcinoma(108;0.00597)|BRCA - Breast invasive adenocarcinoma(234;0.00957)		TTTGCCCGACATTCTGACGAT	0.552													6	46					0	0	0.02938	0	0		T	67826414	T	T	67826414	3	4	56	1	0	0	0	0	1	0	0	0	1183	217	8	5	777	5	ATP6V1D	14	67826414	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	11718755	67826414	39523126	172	40861											
DPF3	8110	broad.mit.edu	37	chr14	73140966	73140966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagagcgtccacagtctgCgcaggacaccagctcttcag	10	6	10	15	2	3	1	1	0	2	1	4	2	4	2	3	1	3	2	3	1	0	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr14:73140966C>T	uc001xnc.2	-	8	866	c.853G>A	c.(853-855)GCA>ACA	p.A285T	DPF3_uc001xnd.1_RNA|DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Missense_Mutation_p.A285T|DPF3_uc010ttq.1_Missense_Mutation_p.A295T	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	285	PHD-type 1.				chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		CCACAGTCTGCGCAGGACACC	0.572													4	8					0	0	0.009096	0	0		T	73140966	T	T	73140966	3	4	56	1	0	0	0	0	1	0	0	0	4724	768	27	1	228	1	DPF3	14	73140966	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	5314552	73140966	34208574	173	40862											
CCDC88C	440193	broad.mit.edu	37	chr14	91780011	91780011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcttggtgctggtgaagcGcatggtctccaccagcctgc	6	9	13	13	1	1	1	0	1	1	0	2	1	1	1	3	3	5	3	3	3	1	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr14:91780011G>A	uc010aty.2	-	15	2248	c.2149C>T	c.(2149-2151)CGC>TGC	p.R717C		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	717	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				CTGGTGAAGCGCATGGTCTCC	0.607													9	41					0	0	0.058154	0	0		A	91780011	A	A	91780011	3	1	56	1	0	0	0	0	1	0	0	0	2868	1087	38	1	4001	1	CCDC88C	14	91780011	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	18639045	91780011	15569529	174	40863											
BCL11B	64919	broad.mit.edu	37	chr14	99640530	99640530	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attttgacgtcgttagtcagCaagtgctcgccgtgccactt	7	13	10	11	4	1	1	1	1	0	0	3	1	1	1	2	0	3	3	2	0	2	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr14:99640530C>T	uc001yga.2	-	4	2910	c.2643G>A	c.(2641-2643)TTG>TTA	p.L881L	BCL11B_uc001ygb.2_Silent_p.L810L	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	881	C2H2-type 6.					nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		CGTTAGTCAGCAAGTGCTCGC	0.483			T	TLX3	T-ALL								3	40					0	0	0.004672	0	0		T	99640530	T	T	99640530	2	4	56	1	0	0	0	0	0	0	0	1	1365	709	25	2		2	BCL11B	14	99640530	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	7860519	99640530	7709010	175	40864											
INF2	64423	broad.mit.edu	37	chr14	105180624	105180624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgatgctacaacagccaGcgagtcccggggctgggacc	8	6	13	14	2	0	1	0	1	0	0	1	3	1	2	4	3	5	2	4	3	2	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr14:105180624G>A	uc001ypb.2	+	21	3268	c.3125G>A	c.(3124-3126)AGC>AAC	p.S1042N	INF2_uc010tyi.1_Missense_Mutation_p.S1042N|INF2_uc001ypc.2_Missense_Mutation_p.S1042N|INF2_uc010awz.1_RNA	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	1042					actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)		ACAACAGCCAGCGAGTCCCGG	0.687													2	2					0	0	0.009096	0	0		A	105180624	A	A	105180624	3	1	56	1	0	0	0	0	1	0	0	0	7750	971	34	2	3207	2	INF2	14	105180624	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	5540094	105180624	2168916	176	40865											
TGM7	116179	broad.mit.edu	37	chr15	43571977	43571977	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accctctggatacgcagcagCagctgcaggtcctggcccca	8	6	11	16	1	1	0	0	0	1	0	2	1	2	1	4	3	5	5	4	3	1	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr15:43571977C>A	uc001zrf.1	-	10	1529	c.1524G>T	c.(1522-1524)CTG>CTT	p.L508L		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	508					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	TACGCAGCAGCAGCTGCAGGT	0.657													6	41					3.59834e-05	3.77965e-05	0.021553	1	0		A	43571977	A	A	43571977	2	1	56	1	0	0	0	0	0	0	0	1	15860	697	25	5		5	TGM7	15	43571977	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08		43571977	58959415	177	40866											
MAP1A	4130	broad.mit.edu	37	chr15	43817620	43817620	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caagccctgatgaacacattCtgacacctgatagctccttc	11	10	6	14	0	1	4	0	4	1	0	3	4	2	4	3	0	3	1	3	0	3	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr15:43817620C>G	uc001zrt.2	+	4	4416	c.3949C>G	c.(3949-3951)CTG>GTG	p.L1317V		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1317						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	TGAACACATTCTGACACCTGA	0.502													9	38					0	0	0.058154	0	0		G	43817620	G	G	43817620	3	3	56	1	0	0	0	0	1	0	0	0	9245	912	32	5	3951	5	MAP1A	15	43817620	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	245643	43817620	58713772	178	40867											
RFX7	64864	broad.mit.edu	37	chr15	56387980	56387980	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttttagtgcataatttaGggtctttattgattgagtca	9	18	10	4	0	2	2	1	2	1	0	2	2	2	2	0	2	1	2	0	2	4	9			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr15:56387980G>C	uc010bfn.2	-	9	1946	c.1946C>G	c.(1945-1947)CCT>CGT	p.P649R	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Missense_Mutation_p.P463R	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	552					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						GCATAATTTAGGGTCTTTATT	0.428													8	37					0	0	0.069234	0	0		C	56387980	C	C	56387980	3	2	56	1	0	0	0	0	1	0	0	0	13293	1000	35	5	2440	5	RFX7	15	56387980	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	12570360	56387980	46143412	179	40868											
TLN2	83660	broad.mit.edu	37	chr15	63089448	63089448	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagacggccaaggccttGgtagaagacacgaaactact	14	6	10	11	2	1	3	1	0	0	3	1	4	1	3	2	3	2	1	2	3	6	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr15:63089448G>A	uc002alb.3	+	45	6081	c.6081G>A	c.(6079-6081)TTG>TTA	p.L2027L	TLN2_uc002alc.3_Silent_p.L420L	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	2027					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						CCAAGGCCTTGGTAGAAGACA	0.577													16	55					0	0	0.038395	0	0		A	63089448	A	A	63089448	2	1	56	1	0	0	0	0	0	0	0	1	15973	1339	47	4		4	TLN2	15	63089448	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	6701468	63089448	39441944	180	40869											
MYO9A	4649	broad.mit.edu	37	chr15	72302748	72302748	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcaagttgtaggcgctcaAagtcatgtctcaaatcttct	10	13	9	9	1	5	0	3	0	3	0	6	0	5	0	0	2	0	4	0	2	4	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr15:72302748A>C	uc002atl.3	-	7	1669	c.1196T>G	c.(1195-1197)TTT>TGT	p.F399C	MYO9A_uc010biq.2_5'UTR|MYO9A_uc002ato.2_Missense_Mutation_p.F399C|MYO9A_uc002atn.1_Missense_Mutation_p.F380C	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	399	Myosin head-like 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						TAGGCGCTCAAAGTCATGTCT	0.328													18	58					0	0	0.0918	0	0		C	72302748	C	C	72302748	3	2	56	1	0	0	0	0	1	0	0	0	10102	14	1	5	6594	5	MYO9A	15	72302748	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	9213300	72302748	30228644	181	40870											
ACAN	176	broad.mit.edu	37	chr15	89400187	89400187	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttccttctggagaagttctAgagacttctacctctgcggt	7	14	9	11	1	4	2	0	0	4	2	5	4	5	2	2	2	2	1	2	2	3	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr15:89400187A>G	uc010upo.1	+	12	4745	c.4371A>G	c.(4369-4371)CTA>CTG	p.L1457L	ACAN_uc010upp.1_Silent_p.L1457L|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	1457					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			GAGAAGTTCTAGAGACTTCTA	0.517													4	103					0	0	0.009096	0	0		G	89400187	G	G	89400187	2	3	56	1	0	0	0	0	0	0	0	1	117	407	15	3		3	ACAN	15	89400187	Silent	SNP	A	TCGA-BR-7901-01A-11D-2201-08	17097439	89400187	13131205	182	40871											
TPSG1	25823	broad.mit.edu	37	chr16	1272743	1272743	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gggaggcagacgggcaggatCcggctggagagggtcacggg	8	3	22	8	3	1	2	1	0	0	2	2	5	2	4	1	8	0	3	1	8	0	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr16:1272743C>G	uc002ckw.2	-	4	422	c.420G>C	c.(418-420)CGG>CGC	p.R140R		NM_012467	NP_036599	Q9NRR2	TRYG1_HUMAN	transmembrane tryptase preproprotein	140	Peptidase S1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity				0		Hepatocellular(780;0.00369)				CGGGCAGGATCCGGCTGGAGA	0.682													4	44					0	0	0.009096	0	0		G	1272743	G	G	1272743	2	3	56	1	0	0	0	0	0	0	0	1	16452	842	30	5		5	TPSG1	16	1272743	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08		1272743	89082010	183	40872											
C16orf71	146562	broad.mit.edu	37	chr16	4790653	4790653	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagggaccaccagtgctctCgctccaggtaggcgcctccc	6	6	13	16	2	1	0	0	0	1	0	4	2	3	2	5	4	1	3	5	4	1	1	rs144741586	byFrequency	TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr16:4790653C>T	uc002cxn.2	+	4	1238	c.776C>T	c.(775-777)TCG>TTG	p.S259L		NM_139170	NP_631909	Q8IYS4	CP071_HUMAN	hypothetical protein LOC146562	259										central_nervous_system(1)	1						CCAGTGCTCTCGCTCCAGGTA	0.637													5	37					0	0	0.038147	0	0		T	4790653	T	T	4790653	3	4	56	1	0	0	0	0	1	0	0	0	1833	893	31	1	786	1	C16orf71	16	4790653	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	3517910	4790653	85564100	184	40873											
ACSM2A	123876	broad.mit.edu	37	chr16	20497938	20497938	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaagactgtcacagggaaaAttcaacgagccaagcttcga	15	6	9	11	2	2	1	2	0	0	1	3	4	2	2	2	1	3	1	2	1	5	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr16:20497938A>C	uc010bwe.2	+	15	1911	c.1672A>C	c.(1672-1674)ATT>CTT	p.I558L	ACSM2A_uc002dhf.3_Missense_Mutation_p.I558L|ACSM2A_uc002dhg.3_Missense_Mutation_p.I558L|ACSM2A_uc010vay.1_Missense_Mutation_p.I479L|ACSM2A_uc002dhh.3_Missense_Mutation_p.I188L|uc002dhi.1_5'Flank	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	558					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CACAGGGAAAATTCAACGAGC	0.473													9	180					0	0	0.080935	0	0		C	20497938	C	C	20497938	3	2	56	1	0	0	0	0	1	0	0	0	183	101	4	5	1722	5	ACSM2A	16	20497938	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	15707285	20497938	69856815	185	40874											
ZNF668	79759	broad.mit.edu	37	chr16	31072937	31072937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgaactctcacctgccaCgcccacaggcagcgccaacc	9	4	9	19	2	1	1	1	1	1	0	2	1	1	1	5	2	4	2	5	2	2	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr16:31072937C>T	uc010caf.2	-	3	1669	c.1312G>A	c.(1312-1314)GTG>ATG	p.V438M	ZNF668_uc002eao.2_Missense_Mutation_p.V438M	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	438					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						TCACCTGCCACGCCCACAGGC	0.716													4	80					0	0	0.009096	0	0		T	31072937	T	T	31072937	3	4	56	1	0	0	0	0	1	0	0	0	18100	536	19	1	551	1	ZNF668	16	31072937	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	10574999	31072937	59281816	186	40875											
ITGAM	3684	broad.mit.edu	37	chr16	31332822	31332822	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtcaaggcaatcatggagTtcaatcccagggaagtggca	13	7	13	8	0	3	0	3	0	0	0	4	3	4	2	1	4	0	3	1	4	4	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr16:31332822T>G	uc002ebq.2	+	16	1974	c.1876T>G	c.(1876-1878)TTC>GTC	p.F626V	ITGAM_uc002ebr.2_Missense_Mutation_p.F627V|ITGAM_uc010cam.1_Intron|ITGAM_uc010can.2_Missense_Mutation_p.F32V|ITGAM_uc002ebs.1_Missense_Mutation_p.F32V	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	626	Extracellular (Potential).|FG-GAP 7.				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						AATCATGGAGTTCAATCCCAG	0.488													20	292					0	0	0.0918	0	0		G	31332822	G	G	31332822	3	3	56	1	0	0	0	0	1	0	0	0	7903	1725	60	5	1941	5	ITGAM	16	31332822	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	259885	31332822	59021931	187	40876											
PSKH1	5681	broad.mit.edu	37	chr16	67943234	67943234	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccttcaccgagcgtgaCgccacgcgggtgctgcagat	6	7	14	14	5	1	2	1	1	0	1	2	3	2	2	3	2	3	3	3	2	0	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr16:67943234C>T	uc002euv.2	+	2	752	c.582C>T	c.(580-582)GAC>GAT	p.D194D	PSKH1_uc010cet.2_Silent_p.D194D	NM_006742	NP_006733	P11801	KPSH1_HUMAN	protein serine kinase H1	194	Protein kinase.					endoplasmic reticulum membrane|Golgi apparatus|microtubule organizing center|nuclear speck|plasma membrane	ATP binding|protein serine/threonine kinase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0044)|Epithelial(162;0.0197)|all cancers(182;0.128)		CCGAGCGTGACGCCACGCGGG	0.587													3	23					0	0	0.009096	0	0		T	67943234	T	T	67943234	2	4	56	1	0	0	0	0	0	0	0	1	12686	535	19	1		1	PSKH1	16	67943234	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	36610412	67943234	22411519	188	40877											
KARS	3735	broad.mit.edu	37	chr16	75662592	75662592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atctatgaacatggcctcatCatcacctgcagccttggcct	9	11	7	14	0	4	1	3	1	1	0	4	1	4	1	4	2	3	1	4	2	2	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr16:75662592C>T	uc002feq.2	-	13	1618	c.1570G>A	c.(1570-1572)GAT>AAT	p.D524N	KARS_uc002fer.2_Missense_Mutation_p.D552N|KARS_uc002fes.2_Missense_Mutation_p.D368N	NM_005548	NP_005539	Q15046	SYK_HUMAN	lysyl-tRNA synthetase isoform 2	524					interspecies interaction between organisms|lysyl-tRNA aminoacylation|tRNA processing	cytosol|extracellular region|mitochondrial matrix|nucleus|plasma membrane|soluble fraction	ATP binding|lysine-tRNA ligase activity|metal ion binding|tRNA binding			ovary(2)	2					L-Lysine(DB00123)	ATGGCCTCATCATCACCTGCA	0.512													4	50					0	0	0.021553	0	0		T	75662592	T	T	75662592	3	4	56	1	0	0	0	0	1	0	0	0	7996	826	29	4	231	4	KARS	16	75662592	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	7719358	75662592	14692161	189	40878											
CNTNAP4	85445	broad.mit.edu	37	chr16	76486568	76486568	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttctgctgttcagtgaacTtcagctgatttcagggggta	7	14	12	8	0	4	2	3	2	1	0	4	2	4	2	0	2	3	5	0	2	2	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr16:76486568T>C	uc002feu.1	+	10	1620	c.1235T>C	c.(1234-1236)CTT>CCT	p.L412P	CNTNAP4_uc002fev.1_Missense_Mutation_p.L276P|CNTNAP4_uc010chb.1_Missense_Mutation_p.L339P|CNTNAP4_uc002fex.1_Missense_Mutation_p.L415P|CNTNAP4_uc002few.2_Missense_Mutation_p.L387P	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	412	Extracellular (Potential).|Laminin G-like 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TTCAGTGAACTTCAGCTGATT	0.458													3	63					0	0	0.004672	0	0		C	76486568	C	C	76486568	3	2	56	1	0	0	0	0	1	0	0	0	3652	1609	56	3	1278	3	CNTNAP4	16	76486568	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	823976	76486568	13868185	190	40879											
SLC43A2	124935	broad.mit.edu	37	chr17	1489235	1489235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctttctcctcgggctcctCggaggcgtcttcacactcct	3	13	9	16	3	4	0	1	0	3	0	9	1	6	1	3	3	0	1	3	3	0	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr17:1489235C>T	uc002fsv.2	-	10	1278	c.1189G>A	c.(1189-1191)GAG>AAG	p.E397K	SLC43A2_uc002fsu.2_Missense_Mutation_p.E401K|SLC43A2_uc002fsw.2_Missense_Mutation_p.E397K|SLC43A2_uc002fsx.2_Missense_Mutation_p.E397K	NM_152346	NP_689559	Q8N370	LAT4_HUMAN	solute carrier family 43, member 2	397					cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0883)		TCGGGCTCCTCGGAGGCGTCT	0.652													7	19					0	0	0.038147	0	0		T	1489235	T	T	1489235	3	4	56	1	0	0	0	0	1	0	0	0	14658	893	31	1	540	1	SLC43A2	17	1489235	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08		1489235	79705975	191	40880											
SMG6	23293	broad.mit.edu	37	chr17	2203121	2203121	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaatccatcaggctcatcaAttctgtcctcgtctaaggaa	11	12	6	12	1	5	0	3	0	2	0	8	1	7	1	2	2	0	1	2	2	4	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr17:2203121A>G	uc002fub.1	-	2	981	c.926T>C	c.(925-927)ATT>ACT	p.I309T	SMG6_uc002fud.1_Missense_Mutation_p.I278T	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	309	Interaction with telomeric DNA.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						AGGCTCATCAATTCTGTCCTC	0.512													4	116					0	0	0.009096	0	0		G	2203121	G	G	2203121	3	3	56	1	0	0	0	0	1	0	0	0	14822	101	4	3	3405	3	SMG6	17	2203121	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	713886	2203121	78992089	192	40881											
TP53	7157	broad.mit.edu	37	chr17	7577120	7577120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggacaggcacaaacaCgcacctcaaagctgttccgt	12	6	8	15	2	1	0	1	0	0	0	3	1	3	1	3	2	2	4	3	2	2	1	rs28934576	by1000genomes	TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr17:7577120C>T	uc002gim.2	-	8	1012	c.818G>A	c.(817-819)CGT>CAT	p.R273H	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141H|TP53_uc010cng.1_Missense_Mutation_p.R141H|TP53_uc002gii.1_Missense_Mutation_p.R141H|TP53_uc010cnh.1_Missense_Mutation_p.R273H|TP53_uc010cni.1_Missense_Mutation_p.R273H|TP53_uc002gij.2_Missense_Mutation_p.R273H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(469)|p.R273C(394)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGCACAAACACGCACCTCAAA	0.542	R273H(NCIH1793_LUNG)|R273H(MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PANC1_PANCREAS)|R273H(NCIH508_LARGE_INTESTINE)|R273H(NCIH1975_LUNG)|R273H(U251MG_CENTRAL_NERVOUS_SYSTEM)|R273H(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273H(NCIH2405_LUNG)|R273H(HEC59_ENDOMETRIUM)|R273H(NCIH1155_LUNG)|R273H(HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(EN_ENDOMETRIUM)|R273H(SNB19_CENTRAL_NERVOUS_SYSTEM)|R273H(MDAMB468_BREAST)|R273H(SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW620_LARGE_INTESTINE)|R273H(SUIT2_PANCREAS)|R273H(SW480_LARGE_INTESTINE)|R273H(SKMEL30_SKIN)|R273H(OC314_OVARY)|R273H(HEC6_ENDOMETRIUM)|R273H(HT29_LARGE_INTESTINE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			6	13					0	0	0.021553	0	0		T	7577120	T	T	7577120	3	4	56	1	0	0	0	0	1	0	0	0	16407	536	19	1	468	1	TP53	17	7577120	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	5373999	7577120	73618090	193	40882											
PFAS	5198	broad.mit.edu	37	chr17	8167849	8167849	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttgcccccagggctgaGcgtgcaccaggctctggaga	6	6	15	14	1	1	2	0	1	1	1	1	3	1	2	4	4	3	3	4	4	0	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr17:8167849G>C	uc002gkr.2	+	17	2120	c.1979G>C	c.(1978-1980)AGC>ACC	p.S660T	PFAS_uc010vuv.1_Missense_Mutation_p.S236T|PFAS_uc002gks.2_5'Flank	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	660					'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CCAGGGCTGAGCGTGCACCAG	0.647													6	68					0	0	0.021553	0	0		C	8167849	C	C	8167849	3	2	56	1	0	0	0	0	1	0	0	0	11773	971	34	5	2041	5	PFAS	17	8167849	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	590729	8167849	73027361	194	40883											
DNAH9	1770	broad.mit.edu	37	chr17	11684386	11684386	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatggccctccagggaacaAgaaactcatctatttcattg	12	11	7	11	0	3	1	2	0	1	1	4	2	4	2	2	2	2	0	2	2	5	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr17:11684386A>G	uc002gne.2	+	39	7681	c.7613A>G	c.(7612-7614)AAG>AGG	p.K2538R	DNAH9_uc010coo.2_Missense_Mutation_p.K1832R	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2538	AAA 3 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CCAGGGAACAAGAAACTCATC	0.552													4	27					0	0	0.009096	0	0		G	11684386	G	G	11684386	3	3	56	1	0	0	0	0	1	0	0	0	4614	72	3	3	7767	3	DNAH9	17	11684386	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	3516537	11684386	69510824	195	40884											
RAB34	83871	broad.mit.edu	37	chr17	27043058	27043058	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggtcccccaccacaatGaccttggagatcttaaatct	12	9	7	13	0	2	2	0	1	2	1	3	4	3	2	4	2	0	0	4	2	3	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr17:27043058G>T	uc002hce.2	-	3	789	c.165C>A	c.(163-165)GTC>GTA	p.V55V	RAB34_uc002hcg.2_Silent_p.V55V|RAB34_uc002hcf.2_Silent_p.V56V|RAB34_uc010was.1_Silent_p.V112V|RAB34_uc010wat.1_Silent_p.V112V|RAB34_uc002hch.2_Silent_p.V55V|RAB34_uc010wau.1_Intron|RAB34_uc010wav.1_Silent_p.V113V	NM_031934	NP_114140	Q9BZG1	RAB34_HUMAN	Ras-related protein RAB34 isoform 1	55				V -> I (in Ref. 3; BAC11141).	protein transport|small GTPase mediated signal transduction	Golgi apparatus	GTP binding				0	Lung NSC(42;0.00431)					CCACCACAATGACCTTGGAGA	0.582													6	94					0.00829132	0.00854353	0.069234	1	0		T	27043058	T	T	27043058	2	4	56	1	0	0	0	0	0	0	0	1	12949	1277	45	5		5	RAB34	17	27043058	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	15358672	27043058	54152152	196	40885											
MYO18A	399687	broad.mit.edu	37	chr17	27493224	27493224	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccgacaggcctggccctcGgggccccgatccagcatggt	5	5	14	17	4	0	0	0	0	0	0	2	2	1	0	6	5	1	1	6	5	0	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr17:27493224G>A	uc002hdt.1	-	2	893	c.735C>T	c.(733-735)CCC>CCT	p.P245P	MYO18A_uc010csa.1_Silent_p.P245P|MYO18A_uc002hdu.1_Silent_p.P245P	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	245	PDZ.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CCTGGCCCTCGGGGCCCCGAT	0.682													4	69					0	0	0.014758	0	0		A	27493224	A	A	27493224	2	1	56	1	0	0	0	0	0	0	0	1	10083	1103	39	1		1	MYO18A	17	27493224	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	450166	27493224	53701986	197	40886											
EFCAB5	374786	broad.mit.edu	37	chr17	28418902	28418902	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attccagagattgaaaatgtCagggaagtccagcgggcagg	13	7	14	7	1	1	2	1	1	0	1	3	4	3	3	2	3	1	1	2	3	3	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr17:28418902C>G	uc002het.2	+	21	4143	c.3951C>G	c.(3949-3951)GTC>GTG	p.V1317V	EFCAB5_uc010cse.2_Silent_p.V1072V|EFCAB5_uc010csf.2_Intron	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	1317							calcium ion binding			ovary(1)|skin(1)	2						TTGAAAATGTCAGGGAAGTCC	0.398													5	41					0	0	0.021553	0	0		G	28418902	G	G	28418902	2	3	56	1	0	0	0	0	0	0	0	1	4944	813	29	5		5	EFCAB5	17	28418902	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	925678	28418902	52776308	198	40887											
EVI2A	2123	broad.mit.edu	37	chr17	29646016	29646016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	taggtaatgtcctgtgtgttCcatgtccgtgggcatgcttg	5	15	13	8	1	0	0	0	0	0	0	3	0	3	0	3	2	1	4	3	2	2	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr17:29646016C>T	uc002hgm.2	-	2	231	c.16G>A	c.(16-18)GAA>AAA	p.E6K	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2A_uc002hgl.2_Missense_Mutation_p.E29K	NM_014210	NP_055025	P22794	EVI2A_HUMAN	ecotropic viral integration site 2A isoform 2	6						integral to membrane	transmembrane receptor activity			ovary(1)|breast(1)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;5.94e-13)|Epithelial(4;7.98e-12)|OV - Ovarian serous cystadenocarcinoma(4;9.4e-12)|GBM - Glioblastoma multiforme(4;0.18)		CCTGTGTGTTCCATGTCCGTG	0.393													19	256					0	0	0.076483	0	0		T	29646016	T	T	29646016	3	4	56	1	0	0	0	0	1	0	0	0	5295	864	30	4	698	4	EVI2A	17	29646016	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	1227114	29646016	51549194	199	40888											
MMD	23531	broad.mit.edu	37	chr17	53481221	53481221	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggggtccaagttcacgaAgatttaacctaaaaatgtaa	16	9	8	8	1	1	1	1	0	0	1	2	2	2	1	3	2	1	2	3	2	7	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr17:53481221A>C	uc002iui.2	-	5	638	c.353T>G	c.(352-354)CTT>CGT	p.L118R		NM_012329	NP_036461	Q15546	PAQRB_HUMAN	monocyte to macrophage	118	Helical; (Potential).				cytolysis	integral to plasma membrane|late endosome membrane|lysosomal membrane|membrane fraction	receptor activity				0						AAGTTCACGAAGATTTAACCT	0.388													26	63					0	0	0.030593	0	0		C	53481221	C	C	53481221	3	2	56	1	0	0	0	0	1	0	0	0	9661	72	3	5	375	5	MMD	17	53481221	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	23835205	53481221	27713989	200	40889											
ERN1	2081	broad.mit.edu	37	chr17	62122824	62122824	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatccagggattccttttCtattctgtcgctcacgtcct	5	15	7	14	2	3	0	1	0	2	0	7	1	6	1	4	1	0	1	4	1	1	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr17:62122824C>A	uc002jdz.2	-	20	2661	c.2548G>T	c.(2548-2550)GAA>TAA	p.E850*		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	850	Cytoplasmic (Potential).|KEN.				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						GATTCCTTTTCTATTCTGTCG	0.552													6	66					3.59834e-05	3.77965e-05	0.021553	1	0		A	62122824	A	A	62122824	4	1	56	1	0	0	0	0	0	1	0	0	5245	922	32	5	397	5	ERN1	17	62122824	Nonsense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	8641603	62122824	19072386	201	40890											
ENOSF1	55556	broad.mit.edu	37	chr18	677406	677406	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaggtgctgcaccagttCacagaggccaactccaccag	12	6	9	14	0	2	1	2	0	0	1	3	1	3	1	4	2	3	3	4	2	2	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr18:677406C>A	uc002kku.3	-	14	1162	c.1087G>T	c.(1087-1089)GAA>TAA	p.E363*	ENOSF1_uc002kkt.3_Nonsense_Mutation_p.E281*|ENOSF1_uc010dke.2_RNA|ENOSF1_uc010dkf.2_Nonsense_Mutation_p.E370*|ENOSF1_uc002kkv.3_Nonsense_Mutation_p.E350*|ENOSF1_uc002kkw.3_Nonsense_Mutation_p.E182*|ENOSF1_uc002kkx.3_Nonsense_Mutation_p.E287*	NM_017512	NP_059982	Q7L5Y1	ENOF1_HUMAN	enolase superfamily 1 isoform rTS beta	363					cellular amino acid catabolic process	mitochondrion	isomerase activity|metal ion binding			ovary(1)	1						TGCACCAGTTCACAGAGGCCA	0.438													6	125					0.00307968	0.00318547	0.038147	1	0		A	677406	A	A	677406	4	1	56	1	0	0	0	0	0	1	0	0	5133	835	29	5	256	5	ENOSF1	18	677406	Nonsense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08		677406	77399842	202	40891											
L3MBTL4	91133	broad.mit.edu	37	chr18	6093528	6093528	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacgggcagccaaaagcaCtggtttgtataaaaatgaga	17	8	10	6	1	0	1	0	1	0	1	0	2	0	1	1	2	3	4	1	2	8	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr18:6093528C>A	uc002kmz.3	-	15	1360	c.1200_splice	c.e15-1	p.S400_splice	L3MBTL4_uc010dkt.2_Splice_Site_p.S400_splice|L3MBTL4_uc002kmy.3_Splice_Site_p.S238_splice	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4						chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				GCCAAAAGCACTGGTTTGTAT	0.383													3	70					0.00909568	0.00926665	0.009096	1	0		A	6093528	A	A	6093528	5	1	56	1	0	0	0	0	0	0	1	0	8610	579	20	5	696	5	L3MBTL4	18	6093528	Splice_Site	SNP	C	TCGA-BR-7901-01A-11D-2201-08	5416122	6093528	71983720	203	40892											
PTPRM	5797	broad.mit.edu	37	chr18	8376482	8376482	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgcagggaggactggcTgtttcatcgtcattgatatc	7	13	13	8	1	2	1	2	1	0	0	4	3	2	3	0	4	1	3	0	4	1	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr18:8376482T>A	uc002knn.3	+	24	3813	c.3310T>A	c.(3310-3312)TGT>AGT	p.C1104S	PTPRM_uc010dkv.2_Missense_Mutation_p.C1117S|PTPRM_uc010wzl.1_Missense_Mutation_p.C891S	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1104	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				GAGGACTGGCTGTTTCATCGT	0.493													5	141					0	0	0.021553	0	0		A	8376482	A	A	8376482	3	1	56	1	0	0	0	0	1	0	0	0	12831	1580	55	5	3451	5	PTPRM	18	8376482	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	2282954	8376482	69700766	204	40893											
NPC1	4864	broad.mit.edu	37	chr18	21124371	21124371	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccagcaccaggaacgggatGacttcaatcacaatgagggt	13	6	12	10	1	2	2	2	2	0	0	2	4	2	4	2	3	2	1	2	3	3	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr18:21124371G>A	uc002kum.3	-	13	2341	c.2067C>T	c.(2065-2067)GTC>GTT	p.V689V	NPC1_uc010xaz.1_Silent_p.V422V|NPC1_uc010xba.1_Silent_p.V534V	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	689	SSD.|Helical; (Potential).				autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					GGAACGGGATGACTTCAATCA	0.527													5	55					0	0	0.021553	0	0		A	21124371	A	A	21124371	2	1	56	1	0	0	0	0	0	0	0	1	10589	1277	45	4		4	NPC1	18	21124371	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	12747889	21124371	56952877	205	40894											
FAM59A	64762	broad.mit.edu	37	chr18	29867375	29867375	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttcacctcactgttgccatgGagattgttgccatacacaca	10	12	7	12	0	2	1	2	0	0	1	2	2	2	1	3	1	3	2	3	1	1	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr18:29867375G>A	uc002kxl.2	-	4	1241	c.1185C>T	c.(1183-1185)CTC>CTT	p.L395L	FAM59A_uc002kxk.1_Silent_p.L395L	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	395										ovary(1)|skin(1)	2						TGTTGCCATGGAGATTGTTGC	0.572													12	67					0	0	0.016723	0	0		A	29867375	A	A	29867375	2	1	56	1	0	0	0	0	0	0	0	1	5606	1161	41	4		4	FAM59A	18	29867375	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	8743004	29867375	48209873	206	40895											
ONECUT2	9480	broad.mit.edu	37	chr18	55143752	55143752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgttcactgacctccaaCgccgaacactcttcgccatc	8	10	7	16	3	2	1	1	1	1	0	5	2	3	1	4	1	2	1	4	1	2	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr18:55143752C>T	uc002lgo.2	+	2	1344	c.1312C>T	c.(1312-1314)CGC>TGC	p.R438C		NM_004852	NP_004843	O95948	ONEC2_HUMAN	one cut domain, family member 2	438	Homeobox.				organ morphogenesis	nucleus	sequence-specific DNA binding	p.R438C(1)		ovary(2)|central_nervous_system(1)	3		Colorectal(73;0.234)		READ - Rectum adenocarcinoma(59;0.227)|Colorectal(16;0.245)		TGACCTCCAACGCCGAACACT	0.522													8	46					0	0	0.047766	0	0		T	55143752	T	T	55143752	3	4	56	1	0	0	0	0	1	0	0	0	10888	536	19	1	1318	1	ONECUT2	18	55143752	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	25276377	55143752	22933496	207	40896											
ZNF236	7776	broad.mit.edu	37	chr18	74607072	74607072	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgccacatccgcatccacacCcacgagaagcccttcaagtg	11	5	7	18	3	1	1	1	0	0	1	3	2	3	1	5	0	1	1	5	0	2	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr18:74607072C>A	uc002lmi.2	+	10	1713	c.1515C>A	c.(1513-1515)ACC>ACA	p.T505T	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	505					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GCATCCACACCCACGAGAAGC	0.642													35	90					2.26627e-22	2.49659e-22	0.09836	1	0		A	74607072	A	A	74607072	2	1	56	1	0	0	0	0	0	0	0	1	17814	610	22	5		5	ZNF236	18	74607072	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	19463320	74607072	3470176	208	40897											
ZNF236	7776	broad.mit.edu	37	chr18	74607093	74607093	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacgagaagcccttcaagtgCccgcagtgcttccgcgcctt	7	8	10	16	4	1	1	1	0	0	1	2	2	2	1	4	0	3	2	4	0	2	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr18:74607093C>G	uc002lmi.2	+	10	1734	c.1536C>G	c.(1534-1536)TGC>TGG	p.C512W	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	512	C2H2-type 11.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CCTTCAAGTGCCCGCAGTGCT	0.617													27	79					0	0	0.050027	0	0		G	74607093	G	G	74607093	3	3	56	1	0	0	0	0	1	0	0	0	17814	747	26	5	1574	5	ZNF236	18	74607093	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	21	74607093	3470155	209	40898											
REXO1	57455	broad.mit.edu	37	chr19	1816466	1816466	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgctctccaggctgtgtccGatgaggatggtgtcagcgct	5	11	14	11	3	2	1	1	1	1	0	5	3	3	2	2	3	1	3	2	3	0	0	rs144308719	byFrequency	TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:1816466G>A	uc002lua.3	-	14	3515	c.3420C>T	c.(3418-3420)ATC>ATT	p.I1140I	REXO1_uc010dsq.2_Silent_p.I449I|REXO1_uc010xgs.1_Silent_p.I126I|MIR1909_hsa-mir-1909|MI0008330_5'Flank	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3	1140	Exonuclease.					nucleus	exonuclease activity|nucleic acid binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGCTGTGTCCGATGAGGATGG	0.672													5	28					0	0	0.021553	0	0		A	1816466	A	A	1816466	2	1	56	1	0	0	0	0	0	0	0	1	13266	1048	37	1		1	REXO1	19	1816466	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08		1816466	57312517	210	40899											
FEM1A	55527	broad.mit.edu	37	chr19	4793212	4793212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctacgtgcttcaggaccGggccgccaaaggcagcctgg	7	6	13	15	3	1	0	1	0	0	0	2	1	2	1	5	4	3	2	5	4	2	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:4793212G>A	uc002mbf.2	+	1	1485	c.1346G>A	c.(1345-1347)CGG>CAG	p.R449Q	uc002mbg.1_RNA	NM_018708	NP_061178	Q9BSK4	FEM1A_HUMAN	fem-1 homolog a	449					regulation of ubiquitin-protein ligase activity	cytoplasm	binding|ubiquitin-protein ligase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		CTTCAGGACCGGGCCGCCAAA	0.642													14	132					0	0	0.020292	0	0		A	4793212	A	A	4793212	3	1	56	1	0	0	0	0	1	0	0	0	5823	1116	39	1	1348	1	FEM1A	19	4793212	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	2976746	4793212	54335771	211	40900											
TMEM146	257062	broad.mit.edu	37	chr19	5778566	5778566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgcaggatcaagaagtgtgCgacacagctgtgtaggagat	12	7	14	8	2	1	2	1	0	0	2	1	5	1	3	1	2	2	3	1	2	3	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:5778566C>T	uc002mda.2	+	22	2337	c.2276C>T	c.(2275-2277)GCG>GTG	p.A759V		NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	759	Cytoplasmic (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						AAGAAGTGTGCGACACAGCTG	0.627													4	44					0	0	0.014758	0	0		T	5778566	T	T	5778566	3	4	56	1	0	0	0	0	1	0	0	0	16085	768	27	1	2362	1	TMEM146	19	5778566	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	985354	5778566	53350417	212	40901											
HNRNPM	4670	broad.mit.edu	37	chr19	8536272	8536272	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccattgatgccaatcacCtgaataaaggcatcggaatg	15	8	8	10	1	1	2	1	2	0	0	2	3	1	3	3	2	2	1	3	2	6	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:8536272C>T	uc010dwe.2	+	10	1038	c.958C>T	c.(958-960)CTG>TTG	p.L320L	HNRNPM_uc010dwc.1_Silent_p.L320L|HNRNPM_uc010xke.1_Silent_p.L281L|HNRNPM_uc010dwd.2_Silent_p.L281L|HNRNPM_uc002mka.2_Silent_p.L200L	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	320					alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						TGCCAATCACCTGAATAAAGG	0.463													5	35					0	0	0.02938	0	0		T	8536272	T	T	8536272	2	4	56	1	0	0	0	0	0	0	0	1	7287	680	24	4		4	HNRNPM	19	8536272	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	2757706	8536272	50592711	213	40902											
ZNF878	729747	broad.mit.edu	37	chr19	12155673	12155673	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacgaacagaactgggaaaActgaatgctttcccacactg	14	8	8	11	1	0	2	0	1	0	1	1	4	1	3	1	1	5	1	1	1	6	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:12155673A>C	uc002mta.1	-	5	684	c.684T>G	c.(682-684)AGT>AGG	p.S228R		NM_001080404	NP_001073873	C9JN71	ZN878_HUMAN	zinc finger protein 878	181	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						AACTGGGAAAACTGAATGCTT	0.403													5	192					0	0	0.014758	0	0		C	12155673	C	C	12155673	3	2	56	1	0	0	0	0	1	0	0	0	18221	40	2	5	1056	5	ZNF878	19	12155673	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	3619401	12155673	46973310	214	40903											
TPM4	7171	broad.mit.edu	37	chr19	16204371	16204371	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaaggaggacaaatatgAagaagaaattaaacttctgt	20	9	9	3	0	1	4	0	2	1	2	1	6	1	6	0	2	1	0	0	2	9	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:16204371A>G	uc002ndj.2	+	6	798	c.557A>G	c.(556-558)GAA>GGA	p.E186G	TPM4_uc002ndi.2_Missense_Mutation_p.E222G|TPM4_uc002ndk.1_Missense_Mutation_p.E96G	NM_003290	NP_003281	P67936	TPM4_HUMAN	tropomyosin 4 isoform 2	186	By similarity.				cellular component movement|muscle filament sliding|response to oxidative stress	cytosol|muscle thin filament tropomyosin|stress fiber	actin binding|calcium ion binding|structural constituent of muscle		TPM4/ALK(12)	soft_tissue(10)|haematopoietic_and_lymphoid_tissue(2)|breast(1)	13						GACAAATATGAAGAAGAAATT	0.383			T	ALK	ALCL								10	74					0	0	0.09319	0	0		G	16204371	G	G	16204371	3	3	56	1	0	0	0	0	1	0	0	0	16434	246	9	3	827	3	TPM4	19	16204371	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	4048698	16204371	42924612	215	40904											
ZNF536	9745	broad.mit.edu	37	chr19	31040415	31040415	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgtatcaagaggccagacTtgtgtggtaagttttagaat	12	13	12	4	0	1	3	1	0	0	3	1	4	1	3	1	2	0	3	1	2	5	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:31040415T>G	uc002nsu.1	+	4	4027	c.3889T>G	c.(3889-3891)TTG>GTG	p.L1297V	ZNF536_uc010edd.1_Missense_Mutation_p.L1297V	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1297					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GAGGCCAGACTTGTGTGGTAA	0.428													13	631					0	0	0.024245	0	0		G	31040415	G	G	31040415	3	3	56	1	0	0	0	0	1	0	0	0	17999	1606	56	5	3899	5	ZNF536	19	31040415	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	14836044	31040415	28088568	216	40905											
TSHZ3	57616	broad.mit.edu	37	chr19	31769778	31769778	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggcgacaggagtgacgggTtccttcagaggcactttttg	7	10	15	9	3	1	2	1	1	0	1	2	4	2	3	1	4	0	2	1	4	0	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:31769778T>G	uc002nsy.3	-	2	986	c.921A>C	c.(919-921)GAA>GAC	p.E307D		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	307					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					GAGTGACGGGTTCCTTCAGAG	0.532													5	37					0	0	0.047766	0	0		G	31769778	G	G	31769778	3	3	56	1	0	0	0	0	1	0	0	0	16651	1722	60	5	2328	5	TSHZ3	19	31769778	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	729363	31769778	27359205	217	40906											
ZNF574	64763	broad.mit.edu	37	chr19	42585010	42585010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgttcagcacagagaCgtcactgcaggtgcaccggc	10	6	13	12	2	2	1	2	0	0	1	2	3	2	1	1	2	4	5	1	2	1	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:42585010C>T	uc002osm.3	+	2	2421	c.2252C>T	c.(2251-2253)ACG>ATG	p.T751M	ZNF574_uc002osk.3_Missense_Mutation_p.T841M	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	751	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				AGCACAGAGACGTCACTGCAG	0.627													20	140					0	0	0.083992	0	0		T	42585010	T	T	42585010	3	4	56	1	0	0	0	0	1	0	0	0	18031	536	19	1	2254	1	ZNF574	19	42585010	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	10815232	42585010	16543973	218	40907											
RTN2	6253	broad.mit.edu	37	chr19	45997476	45997476	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtccgtgctatcgaggcaCtgtccccttactggctctcg	4	12	11	14	3	1	0	0	0	1	0	5	1	3	0	3	3	2	3	3	3	2	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:45997476C>T	uc002pcb.2	-	4	990	c.762G>A	c.(760-762)CAG>CAA	p.Q254Q	RTN2_uc002pcc.2_Silent_p.Q254Q|RTN2_uc002pcd.2_RNA	NM_005619	NP_005610	O75298	RTN2_HUMAN	reticulon 2 isoform A	254						integral to endoplasmic reticulum membrane	signal transducer activity			ovary(3)	3		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00829)|Epithelial(262;0.184)|GBM - Glioblastoma multiforme(486;0.246)		TATCGAGGCACTGTCCCCTTA	0.552													9	91					0	0	0.058154	0	0		T	45997476	T	T	45997476	2	4	56	1	0	0	0	0	0	0	0	1	13751	564	20	4		4	RTN2	19	45997476	Silent	SNP	C	TCGA-BR-7901-01A-11D-2201-08	3412466	45997476	13131507	219	40908											
QPCTL	54814	broad.mit.edu	37	chr19	46195984	46195984	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gcgttccgggggccgcgggcGaccccgcctgcggctggggg	1	4	21	15	7	0	0	0	0	0	0	1	1	1	0	5	6	1	2	5	6	0	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:46195984G>C	uc010xxr.1	+	1	244	c.23G>C	c.(22-24)CGA>CCA	p.R8P	SNRPD2_uc002pcv.2_5'Flank|SNRPD2_uc002pcw.2_5'Flank|QPCTL_uc010ekn.2_Missense_Mutation_p.R8P	NM_017659	NP_060129	Q9NXS2	QPCTL_HUMAN	glutaminyl-peptide cyclotransferase-like isoform	8					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	Golgi membrane|integral to membrane	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|protein binding|zinc ion binding			skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0059)|GBM - Glioblastoma multiforme(486;0.0882)|Epithelial(262;0.208)		GGCCGCGGGCGACCCCGCCTG	0.672													4	13					0	0	0.009096	0	0		C	46195984	C	C	46195984	3	2	56	1	0	0	0	0	1	0	0	0	12900	1058	37	5	25	5	QPCTL	19	46195984	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	198508	46195984	12932999	220	40909											
ZNF613	79898	broad.mit.edu	37	chr19	52447732	52447732	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagcatcagcgaactcaaaAcatagataaaccccatgtat	18	8	5	10	1	2	1	2	0	0	1	2	2	2	1	2	0	5	2	2	0	8	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:52447732A>T	uc002pxz.1	+	6	1019	c.596A>T	c.(595-597)AAC>ATC	p.N199I	ZNF613_uc002pya.1_Missense_Mutation_p.N163I	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	199					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		CGAACTCAAAACATAGATAAA	0.413													34	275					0	0	0.039052	0	0		T	52447732	T	T	52447732	3	4	56	1	0	0	0	0	1	0	0	0	18063	43	2	5	610	5	ZNF613	19	52447732	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	6251748	52447732	6681251	221	40910											
ZNF347	84671	broad.mit.edu	37	chr19	53643983	53643983	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctccagtatgaactctctGatgccttgcaagctttgatg	8	14	8	11	0	2	3	0	3	2	0	4	3	2	3	2	0	4	3	2	0	3	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:53643983G>A	uc002qbb.1	-	5	2167	c.2098C>T	c.(2098-2100)CAG>TAG	p.Q700*	ZNF347_uc010eql.1_Nonsense_Mutation_p.Q701*|ZNF347_uc002qbc.1_Nonsense_Mutation_p.Q701*	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	700	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		TGAACTCTCTGATGCCTTGCA	0.443													12	119					0	0	0.09319	0	0		A	53643983	A	A	53643983	4	1	56	1	0	0	0	0	0	1	0	0	17886	1299	45	4	425	4	ZNF347	19	53643983	Nonsense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	1196251	53643983	5485000	222	40911											
NLRP8	126205	broad.mit.edu	37	chr19	56466706	56466706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatgccacctctgtgttcGtccggtatatttctagcttg	7	15	8	11	2	2	0	0	0	2	0	4	0	3	0	3	1	2	3	3	1	4	6			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:56466706G>A	uc002qmh.2	+	3	1353	c.1282G>A	c.(1282-1284)GTC>ATC	p.V428I	NLRP8_uc010etg.2_Missense_Mutation_p.V428I	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	428	NACHT.					cytoplasm	ATP binding	p.V428I(1)		ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		CTCTGTGTTCGTCCGGTATAT	0.498													50	58					0	0	0.048971	0	0		A	56466706	A	A	56466706	3	1	56	1	0	0	0	0	1	0	0	0	10502	1145	40	1	1292	1	NLRP8	19	56466706	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	2822723	56466706	2662277	223	40912											
ZNF550	162972	broad.mit.edu	37	chr19	58059343	58059343	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggttggctctctggtaTgaacttgtgctctgtcacct	6	15	11	9	0	3	1	1	1	2	0	4	1	3	1	1	3	2	4	1	3	3	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr19:58059343T>C	uc002qpe.1	-	2	146	c.146A>G	c.(145-147)CAT>CGT	p.H49R	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF550_uc002qpc.2_RNA|ZNF550_uc010eue.1_RNA|ZNF550_uc002qpd.2_RNA	NM_001039654	NP_001034743	Q7Z398	ZN550_HUMAN	zinc finger protein 550	90					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CTCTCTGGTATGAACTTGTGC	0.453													14	111					0	0	0.016723	0	0		C	58059343	C	C	58059343	3	2	56	1	0	0	0	0	1	0	0	0	18007	1464	51	3	1003	3	ZNF550	19	58059343	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	1592637	58059343	1069640	224	40913											
LRRN4	164312	broad.mit.edu	37	chr20	6022187	6022187	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgctgaggccggggcaccgGcaccgccaccgcctctgcag	5	3	14	19	5	1	1	0	1	1	0	1	1	1	1	7	4	1	4	7	4	0	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr20:6022187G>C	uc002wmo.2	-	5	1928	c.1704C>G	c.(1702-1704)TGC>TGG	p.C568W		NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	568	Extracellular (Potential).					integral to membrane				skin(3)	3						CGGGGCACCGGCACCGCCACC	0.697													6	97					0	0	0.021553	0	0		C	6022187	C	C	6022187	3	2	56	1	0	0	0	0	1	0	0	0	9055	1195	42	5	522	5	LRRN4	20	6022187	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08		6022187	57003333	225	40914											
POFUT1	23509	broad.mit.edu	37	chr20	30803221	30803221	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttgaggtggcagcccaGcgaagcccagataagaagac	12	6	13	10	1	0	4	0	1	0	3	0	5	0	4	2	2	4	2	2	2	3	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr20:30803221G>A	uc002wxp.2	+	3	445	c.396G>A	c.(394-396)CAG>CAA	p.Q132Q	POFUT1_uc002wxo.2_Silent_p.Q132Q|POFUT1_uc010ztt.1_Silent_p.Q24Q|POFUT1_uc010ztu.1_Intron	NM_015352	NP_056167	Q9H488	OFUT1_HUMAN	protein O-fucosyltransferase 1 isoform 1	132					fucose metabolic process|Notch signaling pathway|O-glycan processing|regulation of transcription, DNA-dependent	endoplasmic reticulum|membrane	peptide-O-fucosyltransferase activity			breast(1)	1			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			TGGCAGCCCAGCGAAGCCCAG	0.592													7	171					0	0	0.038147	0	0		A	30803221	A	A	30803221	2	1	56	1	0	0	0	0	0	0	0	1	12202	962	34	2		2	POFUT1	20	30803221	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	24781034	30803221	32222299	226	40915											
MYH7B	57644	broad.mit.edu	37	chr20	33585431	33585431	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctgccaacgtggagactctGacccgcgccaaggtgtccgt	7	7	13	14	4	1	2	0	1	1	1	2	3	2	2	4	2	2	1	4	2	2	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr20:33585431G>C	uc002xbi.1	+	30	3953	c.3861G>C	c.(3859-3861)CTG>CTC	p.L1287L		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	1245	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			TGGAGACTCTGACCCGCGCCA	0.612													5	59					0	0	0.02938	0	0		C	33585431	C	C	33585431	2	2	56	1	0	0	0	0	0	0	0	1	10058	1277	45	5		5	MYH7B	20	33585431	Silent	SNP	G	TCGA-BR-7901-01A-11D-2201-08	2782210	33585431	29440089	227	40916											
ATP9A	10079	broad.mit.edu	37	chr20	50238633	50238633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagccgaaaaacgtggatgtCttggtttctggtcaccagat	10	11	11	9	2	3	1	1	0	2	1	3	3	3	2	2	3	2	1	2	3	2	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr20:50238633C>T	uc002xwg.1	-	19	2095	c.2095G>A	c.(2095-2097)GAC>AAC	p.D699N	ATP9A_uc010gih.1_Missense_Mutation_p.D563N|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	699	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						ACGTGGATGTCTTGGTTTCTG	0.517													12	162					0	0	0.020292	0	0		T	50238633	T	T	50238633	3	4	56	1	0	0	0	0	1	0	0	0	1199	913	32	4	1088	4	ATP9A	20	50238633	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	16653202	50238633	12786887	228	40917											
APP	351	broad.mit.edu	37	chr21	27347518	27347518	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggctgcttcctgttccaaAgattccactttctcctggaa	7	15	7	12	0	1	1	0	0	1	1	5	2	4	2	4	2	1	3	4	2	2	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr21:27347518A>G	uc002ylz.2	-	11	1523	c.1323T>C	c.(1321-1323)TCT>TCC	p.S441S	APP_uc010glk.2_Silent_p.S417S|APP_uc002yma.2_Silent_p.S422S|APP_uc011ach.1_Silent_p.S385S|APP_uc002ymb.2_Silent_p.S366S|APP_uc010glj.2_Silent_p.S310S|APP_uc011aci.1_Silent_p.S331S	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	441	Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				CCTGTTCCAAAGATTCCACTT	0.498													5	80					0	0	0.014758	0	0		G	27347518	G	G	27347518	2	3	56	1	0	0	0	0	0	0	0	1	815	59	3	3		3	APP	21	27347518	Silent	SNP	A	TCGA-BR-7901-01A-11D-2201-08		27347518	20782377	229	40918											
KRTAP13-3	337960	broad.mit.edu	37	chr21	31797958	31797958	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaacatgcatagtcaggcaAgaattgcagagcatgtgagt	14	8	11	8	0	1	3	1	1	0	2	1	3	1	3	1	1	4	4	1	1	4	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr21:31797958A>G	uc002yob.1	-	1	273	c.273T>C	c.(271-273)TCT>TCC	p.S91S		NM_181622	NP_853653	Q3SY46	KR133_HUMAN	keratin associated protein 13-3	91	5 X 10 AA approximate repeats.					intermediate filament				ovary(1)|lung(1)	2						TAGTCAGGCAAGAATTGCAGA	0.567													6	48					0	0	0.02938	0	0		G	31797958	G	G	31797958	2	3	56	1	0	0	0	0	0	0	0	1	8540	59	3	3		3	KRTAP13-3	21	31797958	Silent	SNP	A	TCGA-BR-7901-01A-11D-2201-08	4450440	31797958	16331937	230	40919											
TIAM1	7074	broad.mit.edu	37	chr21	32493072	32493072	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctttctccgggctgcttgCggagacggcatcagaatcaa	8	10	11	12	3	4	2	2	0	2	2	5	3	4	2	1	3	2	3	1	3	2	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr21:32493072C>T	uc002yow.1	-	29	4862	c.4390G>A	c.(4390-4392)GCA>ACA	p.A1464T	TIAM1_uc011adk.1_3'UTR|TIAM1_uc011adl.1_Missense_Mutation_p.A1404T	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1464					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						GGGCTGCTTGCGGAGACGGCA	0.577													12	69					0	0	0.028581	0	0		T	32493072	T	T	32493072	3	4	56	1	0	0	0	0	1	0	0	0	15915	768	27	1	389	1	TIAM1	21	32493072	Missense_Mutation	SNP	C	TCGA-BR-7901-01A-11D-2201-08	695114	32493072	15636823	231	40920											
DSCAM	1826	broad.mit.edu	37	chr21	42080477	42080477	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaaggtactgaagcttgaAggagggaaggggaaaatttg	15	9	15	2	0	0	2	0	2	0	0	0	5	0	5	0	5	2	2	0	5	7	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr21:42080477A>C	uc002yyq.1	-	2	716	c.264T>G	c.(262-264)CCT>CCG	p.P88P	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	88	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TGAAGCTTGAAGGAGGGAAGG	0.498													11	77					0	0	0.09319	0	0		C	42080477	C	C	42080477	2	2	56	1	0	0	0	0	0	0	0	1	4774	59	3	5		5	DSCAM	21	42080477	Silent	SNP	A	TCGA-BR-7901-01A-11D-2201-08	9587405	42080477	6049418	232	40921											
TRMT2A	27037	broad.mit.edu	37	chr22	20103938	20103938	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcacgttctgcagctccagTttaaagatctcagaggtaaa	12	10	10	9	1	2	2	1	0	2	2	4	2	3	2	1	2	2	6	1	2	4	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr22:20103938T>C	uc002zrk.1	-	3	437	c.222A>G	c.(220-222)AAA>AAG	p.K74K	TRMT2A_uc002zrl.1_Silent_p.K74K|TRMT2A_uc002zrm.1_5'UTR|TRMT2A_uc002zrn.1_Silent_p.K74K|TRMT2A_uc011ahk.1_Silent_p.K74K|RANBP1_uc011ahl.1_5'Flank|RANBP1_uc002zro.1_5'Flank|RANBP1_uc002zrp.2_5'Flank	NM_182984	NP_892029	Q8IZ69	TRM2A_HUMAN	HpaII tiny fragments locus 9C	74	RRM.				RNA processing		nucleotide binding|RNA binding|RNA methyltransferase activity			breast(1)	1						GCAGCTCCAGTTTAAAGATCT	0.612													6	37					0	0	0.02938	0	0		C	20103938	C	C	20103938	2	2	56	1	0	0	0	0	0	0	0	1	16591	1722	60	3		3	TRMT2A	22	20103938	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08		20103938	31200628	233	40922											
TRMT2A	27037	broad.mit.edu	37	chr22	20103951	20103951	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccagtttaaagatctcaGaggtaaacaagtcatccctg	13	10	8	10	0	2	2	2	0	1	2	5	2	4	2	2	1	1	3	2	1	5	3			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr22:20103951G>T	uc002zrk.1	-	3	424	c.209C>A	c.(208-210)TCT>TAT	p.S70Y	TRMT2A_uc002zrl.1_Missense_Mutation_p.S70Y|TRMT2A_uc002zrm.1_Translation_Start_Site|TRMT2A_uc002zrn.1_Missense_Mutation_p.S70Y|TRMT2A_uc011ahk.1_Missense_Mutation_p.S70Y|RANBP1_uc011ahl.1_5'Flank|RANBP1_uc002zro.1_5'Flank|RANBP1_uc002zrp.2_5'Flank	NM_182984	NP_892029	Q8IZ69	TRM2A_HUMAN	HpaII tiny fragments locus 9C	70					RNA processing		nucleotide binding|RNA binding|RNA methyltransferase activity			breast(1)	1						AAAGATCTCAGAGGTAAACAA	0.632													8	41					5.18039e-06	5.50544e-06	0.038147	1	0		T	20103951	T	T	20103951	3	4	56	1	0	0	0	0	1	0	0	0	16591	942	33	5	1712	5	TRMT2A	22	20103951	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	13	20103951	31200615	234	40923											
MAPK8IP2	23542	broad.mit.edu	37	chr22	51045110	51045110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgcccggaaactgaccGtccacctgcgccctcctgcc	6	6	8	21	3	0	1	0	1	0	0	2	2	2	2	8	1	4	0	8	1	1	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chr22:51045110G>A	uc003bmx.2	+	10	2266	c.2149G>A	c.(2149-2151)GTC>ATC	p.V717I	MAPK8IP2_uc003bmy.2_Missense_Mutation_p.V690I|MAPK8IP2_uc011asc.1_Missense_Mutation_p.V71I	NM_012324	NP_036456	Q13387	JIP2_HUMAN	mitogen-activated protein kinase 8 interacting	717	PID.				behavioral fear response|dendrite morphogenesis|MAPKKK cascade|nonassociative learning|positive regulation of anti-apoptosis|regulation of excitatory postsynaptic membrane potential|regulation of JNK cascade|regulation of receptor activity|regulation of synaptic transmission, glutamatergic|signal complex assembly|social behavior	cytoplasm|postsynaptic density	beta-amyloid binding|kinesin binding|MAP-kinase scaffold activity|protein kinase activator activity|protein kinase binding			large_intestine(2)|central_nervous_system(1)	3		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		OV - Ovarian serous cystadenocarcinoma(4;1.28e-70)|Epithelial(4;3.46e-65)|GBM - Glioblastoma multiforme(4;4.83e-06)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GAAACTGACCGTCCACCTGCG	0.622													3	9					0	0	0.009096	0	0		A	51045110	A	A	51045110	3	1	56	1	0	0	0	0	1	0	0	0	9303	1145	40	1	2272	1	MAPK8IP2	22	51045110	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	30941159	51045110	259456	235	40924											
MAGEB6	158809	broad.mit.edu	37	chrX	26212113	26212113	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctcgcgcttgtctgggTgattgtcgtaggtcttctga	3	17	12	9	3	5	2	0	2	5	0	7	2	5	2	0	2	0	2	0	2	1	5			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chrX:26212113T>C	uc004dbr.2	+	2	299	c.150T>C	c.(148-150)GGT>GGC	p.G50G	MAGEB6_uc010ngc.1_5'UTR	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	50	Ser-rich.									ovary(3)	3						CTTGTCTGGGTGATTGTCGTA	0.542													6	31					0	0	0.02938	0	0		C	26212113	C	C	26212113	2	2	56	1	0	0	0	0	0	0	0	1	9197	1683	59	3		3	MAGEB6	23	26212113	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08		26212113	129058447	236	40925											
PAGE4	9506	broad.mit.edu	37	chrX	49597160	49597160	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aaggtgattgccaggaaatgGatctggaaaagactcggagt	14	8	14	5	1	1	2	0	1	1	1	2	6	1	6	1	5	1	0	1	5	4	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chrX:49597160G>C	uc004don.1	+	4	278	c.199G>C	c.(199-201)GAT>CAT	p.D67H		NM_007003	NP_008934	O60829	GAGC1_HUMAN	G antigen, family C, 1	67											0	Ovarian(276;0.236)					CCAGGAAATGGATCTGGAAAA	0.343													5	33					0	0	0.02938	0	0		C	49597160	C	C	49597160	3	2	56	1	0	0	0	0	1	0	0	0	11411	1174	41	5	209	5	PAGE4	23	49597160	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	23385047	49597160	105673400	237	40926											
PCDH11X	27328	broad.mit.edu	37	chrX	91131794	91131794	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagagtcaaaacattttTggcctcgatgtcattgaaac	12	13	7	9	1	2	2	2	1	0	1	4	3	3	2	2	1	2	0	2	1	3	4			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chrX:91131794T>C	uc004efk.1	+	2	1400	c.555T>C	c.(553-555)TTT>TTC	p.F185F	PCDH11X_uc004efl.1_Silent_p.F185F|PCDH11X_uc004efo.1_Silent_p.F185F|PCDH11X_uc010nmv.1_Silent_p.F185F|PCDH11X_uc004efm.1_Silent_p.F185F|PCDH11X_uc004efn.1_Silent_p.F185F|PCDH11X_uc004efh.1_Silent_p.F185F|PCDH11X_uc004efj.1_Silent_p.F185F	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	185	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						AAAACATTTTTGGCCTCGATG	0.289													6	31					0	0	0.047766	0	0		C	91131794	C	C	91131794	2	2	56	1	0	0	0	0	0	0	0	1	11527	1809	63	3		3	PCDH11X	23	91131794	Silent	SNP	T	TCGA-BR-7901-01A-11D-2201-08	41534634	91131794	64138766	238	40927											
MAGEC1	9947	broad.mit.edu	37	chrX	140996300	140996300	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggagggagcactttgcctTtggggagcccagggagctcc	6	8	17	10	0	0	0	0	0	0	0	1	4	1	4	3	5	4	2	3	5	0	2			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chrX:140996300T>A	uc004fbt.2	+	4	3396	c.3110T>A	c.(3109-3111)TTT>TAT	p.F1037Y	MAGEC1_uc010nsl.1_Missense_Mutation_p.F104Y	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	1037	MAGE.						protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CACTTTGCCTTTGGGGAGCCC	0.542										HNSCC(15;0.026)			7	46					0	0	0.058154	0	0		A	140996300	A	A	140996300	3	1	56	1	0	0	0	0	1	0	0	0	9198	1841	64	5	3116	5	MAGEC1	23	140996300	Missense_Mutation	SNP	T	TCGA-BR-7901-01A-11D-2201-08	49864506	140996300	14274260	239	40928											
MAGEC2	51438	broad.mit.edu	37	chrX	141291458	141291458	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgagctccatgaaaaagAggagcagcaggagctcagag	16	4	14	7	0	1	4	1	2	0	2	2	7	2	6	1	2	4	4	1	2	3	0			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chrX:141291458A>G	uc004fbu.1	-	3	664	c.316T>C	c.(316-318)TCT>CCT	p.S106P		NM_016249	NP_057333	Q9UBF1	MAGC2_HUMAN	melanoma antigen family C, 2	106	Ser-rich.					cytoplasm|nucleus				breast(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CATGAAAAAGAGGAGCAGCAG	0.413										HNSCC(46;0.14)			3	31					0	0	0.004672	0	0		G	141291458	G	G	141291458	3	3	56	1	0	0	0	0	1	0	0	0	9199	304	11	3	809	3	MAGEC2	23	141291458	Missense_Mutation	SNP	A	TCGA-BR-7901-01A-11D-2201-08	295158	141291458	13979102	240	40929											
ATP6AP1	537	broad.mit.edu	37	chrX	153664188	153664188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcctcaagaccatggatcGctttgatgaccacaagggcc	11	7	10	13	1	1	3	1	2	0	1	2	4	1	4	4	2	1	1	4	2	2	1			TCGA-BR-7901-01A-11D-2201-08	TCGA-BR-7901-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	33ad3e8c-f5af-40e4-b6be-bbecd2e9cca1	bf460fea-4897-4f6b-a171-649f443ff56e	g.chrX:153664188G>A	uc004flf.1	+	10	1425	c.1364G>A	c.(1363-1365)CGC>CAC	p.R455H	ATP6AP1_uc004flg.1_RNA|ATP6AP1_uc004flh.1_Missense_Mutation_p.R415H|GDI1_uc011mzo.1_5'Flank|GDI1_uc004fli.3_5'Flank	NM_001183	NP_001174	Q15904	VAS1_HUMAN	ATPase, H+ transporting, lysosomal accessory	455					ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain|vacuolar membrane	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(3)|breast(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ACCATGGATCGCTTTGATGAC	0.562													18	145					0	0	0.062417	0	0		A	153664188	A	A	153664188	3	1	56	1	0	0	0	0	1	0	0	0	1166	1087	38	1	1402	1	ATP6AP1	23	153664188	Missense_Mutation	SNP	G	TCGA-BR-7901-01A-11D-2201-08	12372730	153664188	1606372	241	40930											
INPP5B	3633	broad.mit.edu	37	chr1	38339763	38339763	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaaaatgacagggtactTgtccattatgaattgtaaag	15	13	8	5	0	1	2	1	2	0	0	2	2	2	2	1	1	1	2	1	1	7	6			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr1:38339763T>C	uc001ccg.1	-	18	1947	c.1853A>G	c.(1852-1854)CAA>CGA	p.Q618R	INPP5B_uc009vvk.1_Missense_Mutation_p.Q559R|INPP5B_uc001ccf.1_Missense_Mutation_p.Q454R|INPP5B_uc010oij.1_RNA	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	698					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				ACAGGGTACTTGTCCATTATG	0.458													4	28					0	0	0.009096	0	0		C	38339763	C	C	38339763	3	2	57	1	0	0	0	0	1	0	0	0	7771	1812	63	3	916	3	INPP5B	1	38339763	Missense_Mutation	SNP	T	TCGA-BR-7957-01A-11D-2201-08		38339763	210910858	1	40931											
KIAA0467	23334	broad.mit.edu	37	chr1	43907245	43907245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtttgcccgtgttgctcagCgctggatggagtttatggtt	4	16	14	7	2	1	0	1	0	0	0	1	2	1	2	1	3	3	6	1	3	1	5	rs139028803		TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr1:43907245C>T	uc001cjk.1	+	39	5347	c.4885C>T	c.(4885-4887)CGC>TGC	p.R1629C		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	2528						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGTTGCTCAGCGCTGGATGGA	0.582													16	103					0	0	0.004007	0	0		T	43907245	T	T	43907245	3	4	57	1	0	0	0	0	1	0	0	0	8194	768	27	1	5031	1	KIAA0467	1	43907245	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	5567482	43907245	205343376	2	40932											
KIAA0467	23334	broad.mit.edu	37	chr1	43913551	43913551	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctggactctgagggacttCgacaccaggatgactttgat	10	10	11	10	1	1	3	0	3	1	0	2	7	1	6	2	3	0	0	2	3	0	2			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr1:43913551C>T	uc001cjk.1	+	53	7237	c.6775C>T	c.(6775-6777)CGA>TGA	p.R2259*	KIAA0467_uc001cjl.1_Nonsense_Mutation_p.R247*	NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	3158						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGAGGGACTTCGACACCAGGA	0.552													7	98					0	0	0.004482	0	0		T	43913551	T	T	43913551	4	4	57	1	0	0	0	0	0	1	0	0	8194	876	31	1	6977	1	KIAA0467	1	43913551	Nonsense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	6306	43913551	205337070	3	40933											
PDE4DIP	9659	broad.mit.edu	37	chr1	144922018	144922018	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatcaagcagagctacctgTtgctgagctggagaagtacc	12	8	12	9	0	1	4	1	1	0	3	1	5	1	4	2	1	6	6	2	1	4	3			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr1:144922018T>C	uc001elw.3	-	9	1302	c.1011A>G	c.(1009-1011)CAA>CAG	p.Q337Q	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Silent_p.Q403Q|PDE4DIP_uc001emc.1_Silent_p.Q337Q|PDE4DIP_uc001emd.1_Silent_p.Q337Q|PDE4DIP_uc001emb.1_Silent_p.Q500Q|PDE4DIP_uc001eme.1_5'UTR|PDE4DIP_uc001emf.1_Silent_p.Q124Q	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	337					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GAGCTACCTGTTGCTGAGCTG	0.468			T	PDGFRB	MPD								6	78					0	0	0.001984	0	0		C	144922018	C	C	144922018	2	2	57	1	0	0	0	0	0	0	0	1	11662	1722	60	3		3	PDE4DIP	1	144922018	Silent	SNP	T	TCGA-BR-7957-01A-11D-2201-08	101008467	144922018	104328603	4	40934											
ECM1	1893	broad.mit.edu	37	chr1	150483405	150483405	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaacctgagtcctggaatGcagcccagcactgccaacag	12	5	10	14	0	0	2	0	1	0	1	1	3	1	3	4	1	6	2	4	1	3	0			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr1:150483405G>T	uc001eus.2	+	6	638	c.439G>T	c.(439-441)GCA>TCA	p.A147S	ECM1_uc010pce.1_Missense_Mutation_p.A76S|ECM1_uc010pcf.1_Missense_Mutation_p.A69S|ECM1_uc001eut.2_Missense_Mutation_p.A147S|ECM1_uc001euu.2_Missense_Mutation_p.A176S|ECM1_uc001euv.2_Missense_Mutation_p.A174S|ECM1_uc009wlu.2_5'UTR	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	147					angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			GTCCTGGAATGCAGCCCAGCA	0.612													13	58					6.31663e-08	6.99951e-08	0.003163	1	0		T	150483405	T	T	150483405	3	4	57	1	0	0	0	0	1	0	0	0	4903	1319	46	5	461	5	ECM1	1	150483405	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	5561387	150483405	98767216	5	40935											
PIGR	5284	broad.mit.edu	37	chr1	207112623	207112623	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagccctgcctgcatattTgctggagacgtagccctccg	6	11	11	13	2	0	1	0	0	0	1	1	2	1	1	4	1	5	4	4	1	3	4			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr1:207112623T>A	uc001hez.2	-	3	413	c.229A>T	c.(229-231)AAA>TAA	p.K77*	PIGR_uc009xbz.2_Nonsense_Mutation_p.K77*	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	77	Ig-like V-type 1.|Extracellular (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CCTGCATATTTGCTGGAGACG	0.592													4	41					0	0	0.000602	0	0		A	207112623	A	A	207112623	4	1	57	1	0	0	0	0	0	1	0	0	11916	1821	63	5	2101	5	PIGR	1	207112623	Nonsense_Mutation	SNP	T	TCGA-BR-7957-01A-11D-2201-08	56629218	207112623	42137998	6	40936											
BIRC6	57448	broad.mit.edu	37	chr2	32824836	32824836	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtccagcggacacccctTatgcaaatggctgctttgag	8	10	11	12	1	0	1	0	1	0	0	1	2	1	2	3	3	3	3	3	3	2	2			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr2:32824836T>A	uc010ezu.2	+	70	13995	c.13861T>A	c.(13861-13863)TAT>AAT	p.Y4621N		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4621	Ubiquitin-conjugating.				anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					GGACACCCCTTATGCAAATGG	0.388													7	42					0	0	0.004482	0	0		A	32824836	A	A	32824836	3	1	57	1	0	0	0	0	1	0	0	0	1439	1754	61	5	14139	5	BIRC6	2	32824836	Missense_Mutation	SNP	T	TCGA-BR-7957-01A-11D-2201-08		32824836	210374537	7	40937											
POLR1A	25885	broad.mit.edu	37	chr2	86276114	86276114	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcctgccattttcctcGgacctcatcatatgatgcgg	7	12	9	13	2	2	1	2	1	0	0	5	2	4	2	4	3	2	1	4	3	1	3			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr2:86276114G>A	uc002sqs.2	-	18	2906	c.2527C>T	c.(2527-2529)CGA>TGA	p.R843*	POLR1A_uc010ytb.1_Nonsense_Mutation_p.R209*	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	843					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						CATTTTCCTCGGACCTCATCA	0.493													5	34					0	0	0.001168	0	0		A	86276114	A	A	86276114	4	1	57	1	0	0	0	0	0	1	0	0	12228	1124	39	1	2703	1	POLR1A	2	86276114	Nonsense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	53451278	86276114	156923259	8	40938											
ITGA4	3676	broad.mit.edu	37	chr2	182322476	182322476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggggtcccgaccggccGcccctacaacgtggacactg	6	5	13	17	4	0	0	0	0	0	0	1	2	1	1	6	4	2	0	6	4	2	1			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr2:182322476G>A	uc002unu.2	+	1	858	c.95G>A	c.(94-96)CGC>CAC	p.R32H	ITGA4_uc002unt.2_Missense_Mutation_p.R32H|ITGA4_uc010zfl.1_Missense_Mutation_p.R32H	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	32					blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	CCGACCGGCCGCCCCTACAAC	0.697													4	18					0	0	0.000602	0	0		A	182322476	A	A	182322476	3	1	57	1	0	0	0	0	1	0	0	0	7894	1087	38	1	97	1	ITGA4	2	182322476	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	96046362	182322476	60876897	9	40939											
DYTN	391475	broad.mit.edu	37	chr2	207527632	207527632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgaaaaccttacctgatGgcgtttctagattgaaggca	11	13	10	7	1	1	4	0	3	1	1	1	4	1	4	2	2	2	2	2	2	5	5			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr2:207527632G>A	uc002vbr.1	-	11	1745	c.1628C>T	c.(1627-1629)CCA>CTA	p.P543L		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	543						plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		CTTACCTGATGGCGTTTCTAG	0.418													11	105					0	0	0.001855	0	0		A	207527632	A	A	207527632	3	1	57	1	0	0	0	0	1	0	0	0	4867	1348	47	4	116	4	DYTN	2	207527632	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	25205156	207527632	35671741	10	40940											
VIL1	7429	broad.mit.edu	37	chr2	219290514	219290514	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagcgaggccttccgaggCtacttcaagcaaggccttgt	9	8	13	11	2	1	1	1	0	0	1	2	4	2	1	3	3	3	2	3	3	3	4			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr2:219290514C>G	uc002via.2	+	4	392	c.327C>G	c.(325-327)GGC>GGG	p.G109G	VIL1_uc010zke.1_Intron|VIL1_uc002vib.2_Silent_p.G109G|VIL1_uc002vic.1_Silent_p.G109G	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1	109	Core.|Necessary for homodimerization.				actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCTTCCGAGGCTACTTCAAGC	0.617													4	41					0	0	0.001168	0	0		G	219290514	G	G	219290514	2	3	57	1	0	0	0	0	0	0	0	1	17190	784	28	5		5	VIL1	2	219290514	Silent	SNP	C	TCGA-BR-7957-01A-11D-2201-08	11762882	219290514	23908859	11	40941											
CHL1	10752	broad.mit.edu	37	chr3	370003	370003	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttcaaataaactgggaatCgctatgtcagaagaaataga	17	9	9	6	1	2	3	2	0	0	3	3	4	2	4	0	1	1	2	0	1	8	4			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr3:370003C>T	uc003bou.2	+	5	622	c.351C>T	c.(349-351)ATC>ATT	p.I117I	CHL1_uc003bot.2_Silent_p.I117I|CHL1_uc003bow.1_Silent_p.I117I|CHL1_uc011asi.1_Silent_p.I117I	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	117	Ig-like C2-type 1.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		AACTGGGAATCGCTATGTCAG	0.363													6	64					0	0	0.001984	0	0		T	370003	T	T	370003	2	4	57	1	0	0	0	0	0	0	0	1	3352	874	31	1		1	CHL1	3	370003	Silent	SNP	C	TCGA-BR-7957-01A-11D-2201-08		370003	197652427	12	40942											
PLCH1	23007	broad.mit.edu	37	chr3	155282805	155282805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtatgtattgtgagaggaaGcaatgtagtagttgcagagg	12	11	16	2	0	0	2	0	1	0	2	0	4	0	3	0	3	2	7	0	3	6	6			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr3:155282805G>A	uc011bok.1	-	7	1209	c.932C>T	c.(931-933)GCT>GTT	p.A311V	PLCH1_uc011boj.1_Missense_Mutation_p.A311V|PLCH1_uc011bol.1_Missense_Mutation_p.A293V	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	311	PI-PLC X-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GTGAGAGGAAGCAATGTAGTA	0.488													8	58					0	0	0.004482	0	0		A	155282805	A	A	155282805	3	1	57	1	0	0	0	0	1	0	0	0	12056	971	34	2	4232	2	PLCH1	3	155282805	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	154912802	155282805	42739625	13	40943											
C4orf14	84273	broad.mit.edu	37	chr4	57839516	57839516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaagaatgtccttccaactCttcctagaacaagttatagt	14	12	5	10	0	1	2	0	0	1	2	4	2	4	2	3	0	2	1	3	0	8	5			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr4:57839516C>T	uc003hck.2	-	3	1388	c.1313G>A	c.(1312-1314)AGA>AAA	p.R438K		NM_032313	NP_115689	Q8NC60	CD014_HUMAN	hypothetical protein LOC84273	438							GTP binding			ovary(1)|breast(1)	2	Glioma(25;0.08)|all_neural(26;0.181)					CCTTCCAACTCTTCCTAGAAC	0.343													12	73					0	0	0.00245	0	0		T	57839516	T	T	57839516	3	4	57	1	0	0	0	0	1	0	0	0	2254	913	32	4	803	4	C4orf14	4	57839516	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08		57839516	133314760	14	40944											
ADAM29	11086	broad.mit.edu	37	chr4	175898987	175898987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccctcccagagtcaacctCgggtgatgccttctcagagt	8	9	9	15	1	2	3	2	1	1	2	5	3	3	3	4	1	2	0	4	1	1	1	rs144239698		TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr4:175898987C>T	uc003iuc.2	+	5	2981	c.2311C>T	c.(2311-2313)CGG>TGG	p.R771W	ADAM29_uc003iud.2_Missense_Mutation_p.R771W|ADAM29_uc010irr.2_Missense_Mutation_p.R771W|ADAM29_uc011cki.1_Missense_Mutation_p.R771W	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	771	Cytoplasmic (Potential).|4.|9 X 9 AA approximate repeats.			QPRVM -> HPQLT (in Ref. 1; AAF03777).	proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		GAGTCAACCTCGGGTGATGCC	0.577													4	133					0	0	0.009096	0	0		T	175898987	T	T	175898987	3	4	57	1	0	0	0	0	1	0	0	0	247	875	31	1	2313	1	ADAM29	4	175898987	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	118059471	175898987	15255289	15	40945											
DST	667	broad.mit.edu	37	chr6	56535574	56535574	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttttgcagacatatccTctgactctccagtaacatgg	9	14	6	12	0	3	2	0	1	3	1	6	2	4	2	2	1	2	2	2	1	2	4			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr6:56535574T>C	uc003pdf.2	-	9	1008	c.980A>G	c.(979-981)GAG>GGG	p.E327G	DST_uc003pcz.3_Missense_Mutation_p.E149G|DST_uc011dxj.1_Missense_Mutation_p.E178G|DST_uc011dxk.1_Missense_Mutation_p.E189G|DST_uc011dxl.1_Missense_Mutation_p.E178G|DST_uc003pde.2_Missense_Mutation_p.E265G	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	149	Actin-binding.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			AGACATATCCTCTGACTCTCC	0.393													4	7					0	0	0.000602	0	0		C	56535574	C	C	56535574	3	2	57	1	0	0	0	0	1	0	0	0	4789	1566	54	3		3	DST	6	56535574	Missense_Mutation	SNP	T	TCGA-BR-7957-01A-11D-2201-08		56535574	114579493	16	40946											
BCLAF1	9774	broad.mit.edu	37	chr6	136597432	136597432	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcgaggactgacttcctgaActgtctataatcctctgtct	8	14	8	11	1	3	2	0	2	3	0	5	4	5	3	2	1	2	0	2	1	3	3			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr6:136597432A>C	uc003qgx.1	-	5	1484	c.1231T>G	c.(1231-1233)TTC>GTC	p.F411V	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Missense_Mutation_p.F409V|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.F409V	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	411					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		GACTTCCTGAACTGTCTATAA	0.423													7	223					0	0	0.00308	0	0		C	136597432	C	C	136597432	3	2	57	1	0	0	0	0	1	0	0	0	1384	43	2	5	1567	5	BCLAF1	6	136597432	Missense_Mutation	SNP	A	TCGA-BR-7957-01A-11D-2201-08	80061858	136597432	34517635	17	40947											
FNDC1	84624	broad.mit.edu	37	chr6	159653822	159653822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactccaatgcgccatcaCggtccaccatgtcctcctcc	8	8	5	20	2	1	0	1	0	0	0	6	0	6	0	8	1	2	0	8	1	2	0			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr6:159653822C>T	uc010kjv.2	+	11	2478	c.2278C>T	c.(2278-2280)CGG>TGG	p.R760W	FNDC1_uc010kjw.1_Missense_Mutation_p.R645W	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	760	Ser-rich.					extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		TGCGCCATCACGGTCCACCAT	0.622													3	36					0	0	0.009096	0	0		T	159653822	T	T	159653822	3	4	57	1	0	0	0	0	1	0	0	0	5982	527	19	1	2320	1	FNDC1	6	159653822	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	23056390	159653822	11461245	18	40948											
PRKAR1B	5575	broad.mit.edu	37	chr7	720223	720223	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggacacggcgtcctcctcGgtgtacacctcggcactcac	7	8	10	16	4	1	0	1	0	0	0	5	1	3	1	3	4	1	2	3	4	2	2	rs142687236	byFrequency	TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr7:720223G>A	uc003siu.1	-	4	424	c.318C>T	c.(316-318)ACC>ACT	p.T106T	PRKAR1B_uc003siv.2_Silent_p.T106T|PRKAR1B_uc003siw.1_Silent_p.T106T	NM_002735	NP_002726	P31321	KAP1_HUMAN	protein kinase, cAMP-dependent, regulatory, type	106	Dimerization and phosphorylation.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)		CGTCCTCCTCGGTGTACACCT	0.682													3	25					0	0	0.009096	0	0		A	720223	A	A	720223	2	1	57	1	0	0	0	0	0	0	0	1	12526	1103	39	1		1	PRKAR1B	7	720223	Silent	SNP	G	TCGA-BR-7957-01A-11D-2201-08		720223	158418440	19	40949											
GPR141	353345	broad.mit.edu	37	chr7	37780620	37780620	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcattatgttgatggtgCagaagctacgccactcttta	10	14	8	9	1	3	2	2	1	1	1	3	2	3	2	1	1	3	3	1	1	4	5			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr7:37780620C>T	uc003tfm.1	+	1	625	c.625C>T	c.(625-627)CAG>TAG	p.Q209*	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	209	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						GTTGATGGTGCAGAAGCTACG	0.413													5	70					0	0	0.001984	0	0		T	37780620	T	T	37780620	4	4	57	1	0	0	0	0	0	1	0	0	6664	711	25	2	627	2	GPR141	7	37780620	Nonsense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	37060397	37780620	121358043	20	40950											
IMMP2L	83943	broad.mit.edu	37	chr7	110303717	110303717	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaacagattccaatttctGccagcgctctgggggccaca	11	8	10	12	1	2	2	0	0	2	2	3	2	3	2	3	2	3	1	3	2	3	2			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr7:110303717G>T	uc003vfq.1	-	6	912	c.469C>A	c.(469-471)CAG>AAG	p.Q157K	IMMP2L_uc010ljr.1_Missense_Mutation_p.Q157K	NM_032549	NP_115938	Q96T52	IMP2L_HUMAN	IMP2 inner mitochondrial membrane protease-like	157					protein processing involved in protein targeting to mitochondrion|proteolysis	integral to membrane|mitochondrial inner membrane peptidase complex|nucleus	serine-type peptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)		TCCAATTTCTGCCAGCGCTCT	0.483													3	30					0.00909568	0.00944109	0.009096	1	0		T	110303717	T	T	110303717	3	4	57	1	0	0	0	0	1	0	0	0	7733	1328	46	5	62	5	IMMP2L	7	110303717	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	72523097	110303717	48834946	21	40951											
GSDMC	56169	broad.mit.edu	37	chr8	130763792	130763792	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttaataaatacttactttgCcagaagggttcctctattct	11	16	5	9	0	2	1	0	0	2	1	3	1	3	1	2	1	3	1	2	1	7	8			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr8:130763792C>T	uc003ysr.2	-	10	1821	c.939G>A	c.(937-939)TGG>TGA	p.W313*		NM_031415	NP_113603	Q9BYG8	GSDMC_HUMAN	melanoma-derived leucine zipper, extra-nuclear	313						mitochondrion				ovary(2)|skin(1)	3						ACTTACTTTGCCAGAAGGGTT	0.468													3	38					0	0	0.009096	0	0		T	130763792	T	T	130763792	4	4	57	1	0	0	0	0	0	1	0	0	6834	740	26	2	607	2	GSDMC	8	130763792	Nonsense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08		130763792	15600230	22	40952											
KDM4C	23081	broad.mit.edu	37	chr9	7174616	7174616	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacattatccaaggggagAgaaagagacaaagagtgctg	17	5	13	6	0	0	4	0	0	0	4	1	7	1	5	1	2	1	1	1	2	4	1			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr9:7174616A>T	uc003zkh.2	+	22	3638	c.3058A>T	c.(3058-3060)AGA>TGA	p.R1020*	KDM4C_uc011lmk.1_Nonsense_Mutation_p.R765*|KDM4C_uc011lml.1_Nonsense_Mutation_p.R707*	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	1020					positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						CCAAGGGGAGAGAAAGAGACA	0.458													8	67					0	0	0.006214	0	0		T	7174616	T	T	7174616	4	4	57	1	0	0	0	0	0	1	0	0	8146	296	11	5	3382	5	KDM4C	9	7174616	Nonsense_Mutation	SNP	A	TCGA-BR-7957-01A-11D-2201-08		7174616	134038815	23	40953											
DBC1	1620	broad.mit.edu	37	chr9	121930162	121930162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtggacgtagaggcgtgagtCcatcttctgcagcaggtact	8	10	14	9	2	2	2	0	1	2	1	3	3	3	3	1	3	3	4	1	3	2	3			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr9:121930162C>T	uc004bkc.2	-	8	1942	c.1486G>A	c.(1486-1488)GAC>AAC	p.D496N		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	496					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						AGGCGTGAGTCCATCTTCTGC	0.572													5	39					0	0	0.001168	0	0		T	121930162	T	T	121930162	3	4	57	1	0	0	0	0	1	0	0	0	4250	855	30	4	803	4	DBC1	9	121930162	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	114755546	121930162	19283269	24	40954											
BARHL1	56751	broad.mit.edu	37	chr9	135464778	135464778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtaccgcggccccagcGcgccgccgcctgctctccag	4	5	11	21	6	1	0	0	0	1	0	2	0	1	0	8	1	3	2	8	1	1	1			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr9:135464778G>A	uc004cbp.1	+	3	1045	c.853G>A	c.(853-855)GCG>ACG	p.A285T		NM_020064	NP_064448	Q9BZE3	BARH1_HUMAN	BarH-like homeobox 1	285						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;1.79e-06)|Epithelial(140;3.12e-05)		CGGCCCCAGCGCGCCGCCGCC	0.721													4	33					0	0	0.009096	0	0		A	135464778	A	A	135464778	3	1	57	1	0	0	0	0	1	0	0	0	1314	1087	38	1	863	1	BARHL1	9	135464778	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	13534616	135464778	5748653	25	40955											
ALOX5	240	broad.mit.edu	37	chr10	45891347	45891347	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacattctcaagcaacacCgacgtaaagaactggaaaca	17	7	6	11	2	2	1	2	0	1	1	3	3	2	2	1	1	4	2	1	1	6	3			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr10:45891347C>T	uc001jce.2	+	3	493	c.394C>T	c.(394-396)CGA>TGA	p.R132*	ALOX5_uc009xmt.2_Nonsense_Mutation_p.R132*|ALOX5_uc010qfg.1_Nonsense_Mutation_p.R132*	NM_000698	NP_000689	P09917	LOX5_HUMAN	arachidonate 5-lipoxygenase	132	Lipoxygenase.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	cytosol|nuclear envelope lumen|nuclear matrix|nuclear membrane	arachidonate 5-lipoxygenase activity|iron ion binding|lipoxygenase activity|protein binding			ovary(1)|pancreas(1)	2		Lung SC(717;0.0257)			Diethylcarbamazine(DB00711)|Hydrocortisone(DB00741)|Leflunomide(DB01097)|Masoprocol(DB00179)|Meclofenamic acid(DB00939)|Minocycline(DB01017)|Montelukast(DB00471)|Quinacrine(DB01103)|Vitamin E(DB00163)|Zileuton(DB00744)	CAAGCAACACCGACGTAAAGA	0.453													4	39					0	0	0.000602	0	0		T	45891347	T	T	45891347	4	4	57	1	0	0	0	0	0	1	0	0	540	644	23	1	404	1	ALOX5	10	45891347	Nonsense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08		45891347	89643400	26	40956											
OR52N2	390077	broad.mit.edu	37	chr11	5841963	5841963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccatctgctaccccttacGctatgccaccatccttacca	8	10	5	18	1	1	0	0	0	1	0	2	0	2	0	7	1	5	2	7	1	4	4	rs147573020		TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr11:5841963G>A	uc010qzp.1	+	1	398	c.398G>A	c.(397-399)CGC>CAC	p.R133H	TRIM5_uc001mbq.1_Intron	NM_001005174	NP_001005174	Q8NGI0	O52N2_HUMAN	olfactory receptor, family 52, subfamily N,	133	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.49e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TACCCCTTACGCTATGCCACC	0.542													10	54					0	0	0.001855	0	0		A	5841963	A	A	5841963	3	1	57	1	0	0	0	0	1	0	0	0	11147	1087	38	1	400	1	OR52N2	11	5841963	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08		5841963	129164553	27	40957											
TSGA10IP	254187	broad.mit.edu	37	chr11	65721100	65721100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcaggccgagctgcggcGggcccggacacagcatgtac	8	3	16	14	4	0	0	0	0	0	0	0	2	0	1	2	4	5	5	2	4	1	1			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr11:65721100G>A	uc001ogk.1	+	7	1246	c.1214G>A	c.(1213-1215)CGG>CAG	p.R405Q	TSGA10IP_uc009yqw.1_RNA|TSGA10IP_uc009yqx.1_RNA	NM_152762	NP_689975	Q3SY00	T10IP_HUMAN	testis specific, 10 interacting protein	405	Potential.										0						GAGCTGCGGCGGGCCCGGACA	0.716													7	61					0	0	0.00308	0	0		A	65721100	A	A	65721100	3	1	57	1	0	0	0	0	1	0	0	0	16644	1116	39	1	1232	1	TSGA10IP	11	65721100	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	59879137	65721100	69285416	28	40958											
KCNA1	3736	broad.mit.edu	37	chr12	5021648	5021648	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttctggtgggcggtggtGtccatgaccactgtaggata	6	12	15	8	1	1	1	0	1	1	0	2	2	2	2	2	5	0	2	2	5	2	3			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr12:5021648G>A	uc001qnh.2	+	2	2209	c.1104G>A	c.(1102-1104)GTG>GTA	p.V368V		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	368					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	GGGCGGTGGTGTCCATGACCA	0.547													13	124					0	0	0.00245	0	0		A	5021648	A	A	5021648	2	1	57	1	0	0	0	0	0	0	0	1	8017	1364	48	4		4	KCNA1	12	5021648	Silent	SNP	G	TCGA-BR-7957-01A-11D-2201-08		5021648	128830247	29	40959											
SOX5	6660	broad.mit.edu	37	chr12	23687217	23687217	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctacatctggatcatccTcttcctcgtcgtactcatca	9	14	4	14	2	6	0	3	0	3	0	10	1	8	1	2	1	2	1	2	1	3	3			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr12:23687217T>A	uc001rfw.2	-	15	2330	c.2228A>T	c.(2227-2229)GAG>GTG	p.E743V	SOX5_uc001rfx.2_Missense_Mutation_p.E730V|SOX5_uc001rfy.2_Missense_Mutation_p.E622V|SOX5_uc001rfv.2_Missense_Mutation_p.E357V|SOX5_uc010siv.1_Missense_Mutation_p.E730V	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	743					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TGGATCATCCTCTTCCTCGTC	0.433													16	108					0	0	0.008871	0	0		A	23687217	A	A	23687217	3	1	57	1	0	0	0	0	1	0	0	0	14979	1551	54	5	67	5	SOX5	12	23687217	Missense_Mutation	SNP	T	TCGA-BR-7957-01A-11D-2201-08	18665569	23687217	110164678	30	40960											
RIMBP2	23504	broad.mit.edu	37	chr12	130935771	130935771	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atctgcatcttgcgctaccgGatctcgacaggaaggtgggc	8	9	13	11	3	3	0	0	0	3	0	4	3	3	2	1	4	3	2	1	4	2	2			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr12:130935771G>C	uc001uil.2	-	5	586	c.422C>G	c.(421-423)TCC>TGC	p.S141C	RIMBP2_uc001uim.2_Missense_Mutation_p.S49C	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	141						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		TGCGCTACCGGATCTCGACAG	0.637													7	60					0	0	0.006214	0	0		C	130935771	C	C	130935771	3	2	57	1	0	0	0	0	1	0	0	0	13388	1174	41	5	2796	5	RIMBP2	12	130935771	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	107248554	130935771	2916124	31	40961											
CEBPE	1053	broad.mit.edu	37	chr14	23586911	23586911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgatgttgttgcgctcccGcctcagccggtactcaaggc	5	9	13	14	4	2	0	2	0	0	0	3	1	3	0	3	3	3	4	3	3	2	3			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr14:23586911G>A	uc001wiv.1	-	2	805	c.631C>T	c.(631-633)CGG>TGG	p.R211W		NM_001805	NP_001796	Q15744	CEBPE_HUMAN	CCAAT/enhancer binding protein epsilon	211	Basic motif.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	all_cancers(95;4.6e-05)			GBM - Glioblastoma multiforme(265;0.0064)		TTGCGCTCCCGCCTCAGCCGG	0.617													4	54					0	0	0.001168	0	0		A	23586911	A	A	23586911	3	1	57	1	0	0	0	0	1	0	0	0	3205	1086	38	1	218	1	CEBPE	14	23586911	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08		23586911	83762629	32	40962											
FANCM	57697	broad.mit.edu	37	chr14	45650889	45650889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttcatgctgtcaaaaagcGcagatttcctataaacagag	15	10	7	9	1	2	2	2	0	0	2	3	2	3	2	1	0	3	2	1	0	5	4			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr14:45650889G>A	uc001wwd.3	+	16	4466	c.4367G>A	c.(4366-4368)CGC>CAC	p.R1456H	FANCM_uc010anf.2_Missense_Mutation_p.R1430H|FANCM_uc001wwe.3_Missense_Mutation_p.R992H|FANCM_uc010ang.2_Missense_Mutation_p.R670H	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1456					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						GTCAAAAAGCGCAGATTTCCT	0.313								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				3	19					0	0	0.009096	0	0		A	45650889	A	A	45650889	3	1	57	1	0	0	0	0	1	0	0	0	5685	1087	38	1	4429	1	FANCM	14	45650889	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	22063978	45650889	61698651	33	40963											
SYNE2	23224	broad.mit.edu	37	chr14	64457685	64457685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggtaaaactcattgcagCgttgaagaacttaactgacg	13	11	10	7	2	1	3	1	2	0	1	1	3	1	3	0	1	5	3	0	1	5	4			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr14:64457685C>T	uc001xgm.2	+	21	2728	c.2498C>T	c.(2497-2499)GCG>GTG	p.A833V	SYNE2_uc001xgl.2_Missense_Mutation_p.A833V	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	833	Potential.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CTCATTGCAGCGTTGAAGAAC	0.363													5	26					0	0	0.001984	0	0		T	64457685	T	T	64457685	3	4	57	1	0	0	0	0	1	0	0	0	15471	768	27	1	2576	1	SYNE2	14	64457685	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	18806796	64457685	42891855	34	40964											
GALNTL1	57452	broad.mit.edu	37	chr14	69814660	69814660	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctgccacctccaccttaAtgtcctcccctggatcccca	6	10	6	19	0	0	0	0	0	0	0	4	1	4	1	9	2	1	1	9	2	1	1			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr14:69814660A>G	uc010aqu.1	+	14	1573	c.1480A>G	c.(1480-1482)ATG>GTG	p.M494V	GALNTL1_uc001xla.1_Missense_Mutation_p.M494V|GALNTL1_uc001xlb.1_Missense_Mutation_p.M494V	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	494	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		CTCCACCTTAATGTCCTCCCC	0.592													5	56					0	0	0.00308	0	0		G	69814660	G	G	69814660	3	3	57	1	0	0	0	0	1	0	0	0	6236	101	4	3	1534	3	GALNTL1	14	69814660	Missense_Mutation	SNP	A	TCGA-BR-7957-01A-11D-2201-08	5356975	69814660	37534880	35	40965											
NEK9	91754	broad.mit.edu	37	chr14	75570609	75570609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgaattcattgagtccaCaggccagcactttgcctgac	10	12	8	11	0	1	3	1	3	0	0	2	3	2	3	3	1	2	1	3	1	2	5			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr14:75570609C>T	uc001xrl.2	-	14	1821	c.1667G>A	c.(1666-1668)TGT>TAT	p.C556Y	NEK9_uc001xrk.2_Missense_Mutation_p.C56Y	NM_033116	NP_149107	Q8TD19	NEK9_HUMAN	NIMA-related kinase 9	556	RCC1 4.				cell division|mitosis	mitochondrion|nucleus	ATP binding|metal ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(2)|stomach(2)|ovary(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00718)		ATTGAGTCCACAGGCCAGCAC	0.458													8	86					0	0	0.006214	0	0		T	75570609	T	T	75570609	3	4	57	1	0	0	0	0	1	0	0	0	10350	478	17	4	1308	4	NEK9	14	75570609	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	5755949	75570609	31778931	36	40966											
C14orf174	161394	broad.mit.edu	37	chr14	77845346	77845346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacgggtctctgaagatgacGaaacccagccagaaaaaggg	16	4	12	9	2	1	4	0	2	1	2	2	5	1	4	2	2	3	0	2	2	5	0			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr14:77845346G>A	uc001xtq.1	+	1	1585	c.1585G>A	c.(1585-1587)GAA>AAA	p.E529K	TMED8_uc010ast.1_5'Flank|TMED8_uc001xto.1_5'Flank	NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	529											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		TGAAGATGACGAAACCCAGCC	0.443													5	37					0	0	0.001168	0	0		A	77845346	A	A	77845346	3	1	57	1	0	0	0	0	1	0	0	0	1762	1059	37	1	1587	1	C14orf174	14	77845346	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	2274737	77845346	29504194	37	40967											
PLK1	5347	broad.mit.edu	37	chr16	23695207	23695207	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagcacatcaaccccgtggCcgcctccctcatccagaaga	10	5	7	19	2	2	2	2	0	0	2	4	2	4	2	7	1	2	1	7	1	2	0			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr16:23695207C>A	uc002dlz.1	+	5	886	c.833C>A	c.(832-834)GCC>GAC	p.A278D		NM_005030	NP_005021	P53350	PLK1_HUMAN	polo-like kinase 1	278	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G2/M transition DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic prophase|negative regulation of cyclin-dependent protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|protein localization to chromatin|protein ubiquitination|regulation of mitotic anaphase|regulation of protein binding	centrosome|condensed nuclear chromosome outer kinetochore|cytosol|nucleoplasm|spindle microtubule|spindle midzone|spindle pole	anaphase-promoting complex binding|ATP binding|polo kinase kinase activity|protein kinase binding			lung(1)|skin(1)	2				GBM - Glioblastoma multiforme(48;0.0156)		AACCCCGTGGCCGCCTCCCTC	0.557													15	361					1.67942e-08	1.88647e-08	0.006122	1	0		A	23695207	A	A	23695207	3	1	57	1	0	0	0	0	1	0	0	0	12113	739	26	5	851	5	PLK1	16	23695207	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08		23695207	66659546	38	40968											
CNTROB	116840	broad.mit.edu	37	chr17	7836460	7836460	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatctcctgagtgattcAtcagaaccccctgggctcaa	10	9	10	12	0	4	3	3	2	1	1	5	5	4	4	3	2	1	1	3	2	2	1			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr17:7836460A>C	uc002gjq.2	+	2	982	c.63A>C	c.(61-63)TCA>TCC	p.S21S	TRAPPC1_uc002gjo.1_5'Flank|CNTROB_uc002gjp.2_Silent_p.S21S|CNTROB_uc002gjr.2_5'Flank	NM_053051	NP_444279	Q8N137	CNTRB_HUMAN	centrobin, centrosomal BRCA2 interacting protein	21					centriole replication|centrosome separation|cytokinesis	centriole	protein domain specific binding			breast(1)|central_nervous_system(1)	2		Prostate(122;0.173)				TGAGTGATTCATCAGAACCCC	0.602													17	86					0	0	0.006122	0	0		C	7836460	C	C	7836460	2	2	57	1	0	0	0	0	0	0	0	1	3654	204	8	5		5	CNTROB	17	7836460	Silent	SNP	A	TCGA-BR-7957-01A-11D-2201-08		7836460	73358750	39	40969											
ULK2	9706	broad.mit.edu	37	chr17	19748626	19748626	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactcactcaccatgtacatCggggatccacacagtgttgc	10	9	8	14	1	2	0	2	0	0	0	4	1	3	1	2	2	2	2	2	2	1	2			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr17:19748626C>T	uc002gwm.3	-	7	1043	c.534G>A	c.(532-534)CCG>CCA	p.P178P	ULK2_uc002gwn.2_Silent_p.P178P	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	178	Protein kinase.				signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					CCATGTACATCGGGGATCCAC	0.383													7	74					0	0	0.006214	0	0		T	19748626	T	T	19748626	2	4	57	1	0	0	0	0	0	0	0	1	17002	871	31	1		1	ULK2	17	19748626	Silent	SNP	C	TCGA-BR-7957-01A-11D-2201-08	11912166	19748626	61446584	40	40970											
ERBB2	2064	broad.mit.edu	37	chr17	37868208	37868208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctttctacggacgtgggatCctgcaccctcgtctgccccc	4	10	9	18	3	2	0	0	0	2	0	4	2	3	2	5	2	3	1	5	2	1	2			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr17:37868208C>T	uc002hso.2	+	8	1167	c.929C>T	c.(928-930)TCC>TTC	p.S310F	ERBB2_uc002hsm.2_Missense_Mutation_p.S280F|ERBB2_uc010cwa.2_Missense_Mutation_p.S295F|ERBB2_uc002hsp.2_Missense_Mutation_p.S113F|ERBB2_uc010cwb.2_Missense_Mutation_p.S310F|ERBB2_uc010wek.1_Missense_Mutation_p.S34F|ERBB2_uc002hsl.2_Missense_Mutation_p.S280F|ERBB2_uc002hsn.1_Missense_Mutation_p.S310F	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	310	Extracellular (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.S310F(2)|p.S310Y(1)		lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	GACGTGGGATCCTGCACCCTC	0.582		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			8	160					0	0	0.004482	0	0		T	37868208	T	T	37868208	3	4	57	1	0	0	0	0	1	0	0	0	5214	855	30	4	959	4	ERBB2	17	37868208	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	18119582	37868208	43327002	41	40971											
AXIN2	8313	broad.mit.edu	37	chr17	63537662	63537662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cttactgcccacacgataagGaggaattccatctctaaggg	12	9	9	11	1	1	0	0	0	1	0	3	3	2	2	2	3	2	0	2	3	4	4			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr17:63537662G>A	uc002jfi.2	-	4	1259	c.970C>T	c.(970-972)CCT>TCT	p.P324S	AXIN2_uc010den.1_Missense_Mutation_p.P324S|AXIN2_uc002jfh.2_Missense_Mutation_p.P324S	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	324					cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						ACACGATAAGGAGGAATTCCA	0.473									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				4	61					0	0	0.001168	0	0		A	63537662	A	A	63537662	3	1	57	1	0	0	0	0	1	0	0	0	1238	1174	41	4	1593	4	AXIN2	17	63537662	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	25669454	63537662	17657548	42	40972											
HOOK2	29911	broad.mit.edu	37	chr19	12876768	12876768	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcttgcccccctgctcctgCagggctttctgcaggtcctc	2	12	10	17	0	2	0	0	0	2	0	5	0	4	0	5	2	4	4	5	2	0	2			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr19:12876768C>A	uc002muy.2	-	16	1743	c.1572G>T	c.(1570-1572)CTG>CTT	p.L524L	HOOK2_uc010xmq.1_5'UTR|HOOK2_uc002muz.2_Silent_p.L524L	NM_013312	NP_037444	Q96ED9	HOOK2_HUMAN	hook homolog 2 isoform 1	524	Sufficient for interaction with microtubules.|Potential.				early endosome to late endosome transport|endocytosis|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|protein transport	centrosome|FHF complex|microtubule	identical protein binding|microtubule binding			ovary(1)|breast(1)|skin(1)	3						CCTGCTCCTGCAGGGCTTTCT	0.647											OREG0025273	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	43					6.40141e-05	6.90679e-05	0.010729	1	0		A	12876768	A	A	12876768	2	1	57	1	0	0	0	0	0	0	0	1	7299	697	25	5		5	HOOK2	19	12876768	Silent	SNP	C	TCGA-BR-7957-01A-11D-2201-08		12876768	46252215	43	40973											
OR10H1	26539	broad.mit.edu	37	chr19	15918646	15918646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtagaggatctcggagaCggagagggcgcacaggaaga	12	4	19	6	3	1	4	0	0	1	4	2	8	1	6	0	6	0	2	0	6	2	1			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr19:15918646C>T	uc002nbq.2	-	1	291	c.202G>A	c.(202-204)GTC>ATC	p.V68I		NM_013940	NP_039228	Q9Y4A9	O10H1_HUMAN	olfactory receptor, family 10, subfamily H,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATCTCGGAGACGGAGAGGGCG	0.642													8	31					0	0	0.004482	0	0		T	15918646	T	T	15918646	3	4	57	1	0	0	0	0	1	0	0	0	10924	536	19	1	758	1	OR10H1	19	15918646	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	3041878	15918646	43210337	44	40974											
PRX	57716	broad.mit.edu	37	chr19	40902612	40902612	+	Silent	SNP	C	G	G																															agtttcatctctgacactttCggcagctgtacctctggaag																										TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr19:40902612C>G	uc002onr.2	-	7	1916	c.1647G>C	c.(1645-1647)CCG>CCC	p.P549P	PRX_uc002onq.2_Silent_p.P410P|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	549	55 X 5 AA approximate tandem repeats of [LVMAG]-[PSREQC]-[EDKL]-[LIVMAP]- [AQKHRPE]; that may have a tripeptide spacer of [LV]-P-[KER].|18.				axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding	p.P549P(1)		ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CTGACACTTTCGGCAGCTGTA	0.577													7	173					0	0	0.004482	0	0		G	40902612	G	G	40902612	2	3	57	1	0	0	0	0	0	0	0	1	12664	871	31	5		5	PRX	19	40902612	Silent	SNP	C	TCGA-BR-7957-01A-11D-2201-08	24983966	40902612	18226371	45	40975	81	2									
PRX	57716	broad.mit.edu	37	chr19	40902620	40902620	+	Missense_Mutation	SNP	G	C	C																															ctctgacactttcggcagctGtacctctggaagccgcacct																										TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr19:40902620G>C	uc002onr.2	-	7	1908	c.1639C>G	c.(1639-1641)CAG>GAG	p.Q547E	PRX_uc002onq.2_Missense_Mutation_p.Q408E|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	547	55 X 5 AA approximate tandem repeats of [LVMAG]-[PSREQC]-[EDKL]-[LIVMAP]- [AQKHRPE]; that may have a tripeptide spacer of [LV]-P-[KER].|18.				axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TTCGGCAGCTGTACCTCTGGA	0.587													7	171					0	0	0.004482	0	0		C	40902620	C	C	40902620	3	2	57	1	0	0	0	0	1	0	0	0	12664	1386	48	5	2750	5	PRX	19	40902620	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	8	40902620	18226363	46	40976	81	2									
POU2F2	5452	broad.mit.edu	37	chr19	42597998	42597998	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctgttgtgctcagactgCtggaagcttgggacaacggt	8	10	14	9	1	1	1	1	0	0	1	1	4	1	3	1	3	4	4	1	3	2	2			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr19:42597998C>A	uc002osp.2	-	12	1248	c.1181G>T	c.(1180-1182)AGC>ATC	p.S394I	POU2F2_uc002osn.2_Missense_Mutation_p.S378I|POU2F2_uc002oso.2_Missense_Mutation_p.S167I|POU2F2_uc002osq.2_Missense_Mutation_p.S378I|POU2F2_uc002osr.1_Missense_Mutation_p.S394I	NM_002698	NP_002689	P09086	PO2F2_HUMAN	POU domain, class 2, transcription factor 2	394	Leucine-zipper.				humoral immune response|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2		Prostate(69;0.059)				GCTCAGACTGCTGGAAGCTTG	0.617													18	191					3.01185e-09	3.43016e-09	0.003954	1	0		A	42597998	A	A	42597998	3	1	57	1	0	0	0	0	1	0	0	0	12291	797	28	5	270	5	POU2F2	19	42597998	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	1695378	42597998	16530985	47	40977											
PNMAL2	57469	broad.mit.edu	37	chr19	46997652	46997652	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tcgctccagcccagcgactcGataacagaagcgattttcaa	12	8	8	13	4	1	1	1	0	0	1	4	4	2	1	2	0	4	1	2	0	3	3			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr19:46997652G>C	uc002pes.2	-	1	1518	c.1071C>G	c.(1069-1071)ATC>ATG	p.I357M	uc002peu.1_5'Flank	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	357										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		CCAGCGACTCGATAACAGAAG	0.587													8	78					0	0	0.006214	0	0		C	46997652	C	C	46997652	3	2	57	1	0	0	0	0	1	0	0	0	12177	1048	37	5	840	5	PNMAL2	19	46997652	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	4399654	46997652	12131331	48	40978											
ZNF808	388558	broad.mit.edu	37	chr19	53057818	53057818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtaacaaggttttcatgcGtaattcagtcctggctgtac	9	15	9	8	1	2	0	2	0	0	0	3	0	3	0	1	2	3	5	1	2	4	7			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr19:53057818G>A	uc010epq.1	+	5	1826	c.1649G>A	c.(1648-1650)CGT>CAT	p.R550H	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	550	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		GTTTTCATGCGTAATTCAGTC	0.398													11	107					0	0	0.003163	0	0		A	53057818	A	A	53057818	3	1	57	1	0	0	0	0	1	0	0	0	18198	1145	40	1	1659	1	ZNF808	19	53057818	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	6060166	53057818	6071165	49	40979											
ZNF835	90485	broad.mit.edu	37	chr19	57175150	57175150	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcagccgctgcactcgtaggGcttctccccggtgtgcacga	5	8	13	15	4	1	0	0	0	1	0	3	1	1	0	3	2	3	6	3	2	1	2			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr19:57175150G>T	uc010ygo.1	-	2	1483	c.1483C>A	c.(1483-1485)CCC>ACC	p.P495T	ZNF835_uc010ygn.1_Missense_Mutation_p.P473T	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						CACTCGTAGGGCTTCTCCCCG	0.662													11	122					6.40141e-05	6.90679e-05	0.010729	1	0		T	57175150	T	T	57175150	3	4	57	1	0	0	0	0	1	0	0	0	18211	1203	42	5	198	5	ZNF835	19	57175150	Missense_Mutation	SNP	G	TCGA-BR-7957-01A-11D-2201-08	4117332	57175150	1953833	50	40980											
ZNF544	27300	broad.mit.edu	37	chr19	58774032	58774032	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aattcattctggagagaaacCctatgaatgtagtgactgtg	13	12	10	6	0	2	3	1	2	1	1	2	5	2	4	1	1	1	1	1	1	5	4			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr19:58774032C>A	uc010euo.2	+	7	2534	c.2060C>A	c.(2059-2061)CCC>CAC	p.P687H	ZNF544_uc010yhw.1_RNA|ZNF544_uc010yhx.1_Missense_Mutation_p.P659H|ZNF544_uc010yhy.1_Missense_Mutation_p.P659H|ZNF544_uc002qrt.3_Missense_Mutation_p.P545H|ZNF544_uc002qru.3_Missense_Mutation_p.P545H|uc002qrx.1_Intron	NM_014480	NP_055295	Q6NX49	ZN544_HUMAN	zinc finger protein 544	687					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		all_cancers(17;4.17e-12)|all_epithelial(17;1.25e-08)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.17)|GBM - Glioblastoma multiforme(193;0.018)		GGAGAGAAACCCTATGAATGT	0.468													21	180					7.92952e-12	9.15804e-12	0.003954	1	0		A	58774032	A	A	58774032	3	1	57	1	0	0	0	0	1	0	0	0	18002	623	22	5	2074	5	ZNF544	19	58774032	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	1598882	58774032	354951	51	40981											
C20orf186	149954	broad.mit.edu	37	chr20	31678530	31678530	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcagctctgattcctctgggGatattgggaagtgtccagta	8	12	13	8	0	2	1	0	1	2	0	4	3	4	3	2	3	1	3	2	3	3	4			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr20:31678530G>A	uc010zue.1	+	8	1083	c.1068G>A	c.(1066-1068)GGG>GGA	p.G356G		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	356						cytoplasm|extracellular region	lipid binding				0						TTCCTCTGGGGATATTGGGAA	0.592													4	31					0	0	0.000602	0	0		A	31678530	A	A	31678530	2	1	57	1	0	0	0	0	0	0	0	1	2101	1161	41	4		4	C20orf186	20	31678530	Silent	SNP	G	TCGA-BR-7957-01A-11D-2201-08		31678530	31346990	52	40982											
DSCAM	1826	broad.mit.edu	37	chr21	42064772	42064772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtctttctcccatgagaCgacagtgatgtacgcctcca	9	11	9	12	2	2	2	0	2	2	1	4	4	3	2	3	0	1	1	3	0	1	2			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr21:42064772C>T	uc002yyq.1	-	3	924	c.472G>A	c.(472-474)GTC>ATC	p.V158I	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	158	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TCCCATGAGACGACAGTGATG	0.517													6	55					0	0	0.00308	0	0		T	42064772	T	T	42064772	3	4	57	1	0	0	0	0	1	0	0	0	4774	536	19	1	5690	1	DSCAM	21	42064772	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08		42064772	6065123	53	40983											
POTEH	23784	broad.mit.edu	37	chr22	16287790	16287790	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgctccccctgcaccaggcGaagcagtggcggcaccactt	7	5	11	18	3	0	0	0	0	0	0	1	1	1	0	5	3	2	4	5	3	1	1			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chr22:16287790G>A	uc010gqp.2	-	1	148	c.96C>T	c.(94-96)TTC>TTT	p.F32F	POTEH_uc002zlg.1_5'Flank|POTEH_uc002zlh.1_5'Flank|POTEH_uc002zlj.1_5'UTR	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	32										skin(1)	1						TGCACCAGGCGAAGCAGTGGC	0.582													21	65					0	0	0.003954	0	0		A	16287790	A	A	16287790	2	1	57	1	0	0	0	0	0	0	0	1	12286	1049	37	1		1	POTEH	22	16287790	Silent	SNP	G	TCGA-BR-7957-01A-11D-2201-08		16287790	35016776	54	40984											
KAL1	3730	broad.mit.edu	37	chrX	8591678	8591678	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttggcactggtgtttccTcaggtcccctgattccttgc	3	15	10	13	0	1	1	1	1	0	0	4	1	4	1	4	3	1	3	4	3	0	4			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chrX:8591678T>C	uc004csf.2	-	3	439	c.289A>G	c.(289-291)AGG>GGG	p.R97G		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	97					axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						TGGTGTTTCCTCAGGTCCCCT	0.433													4	18					0	0	0.000602	0	0		C	8591678	C	C	8591678	3	2	57	1	0	0	0	0	1	0	0	0	7990	1550	54	3	1801	3	KAL1	23	8591678	Missense_Mutation	SNP	T	TCGA-BR-7957-01A-11D-2201-08		8591678	146678882	55	40985											
RBBP7	5931	broad.mit.edu	37	chrX	16870202	16870202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cattcaggcggcggtcagtaCcacttgaagccagaatagtt	11	9	11	10	2	2	2	2	1	0	1	2	2	2	2	2	3	2	2	2	3	4	5			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chrX:16870202C>T	uc004cxt.2	-	9	1365	c.1007G>A	c.(1006-1008)GGT>GAT	p.G336D	RBBP7_uc004cxs.1_Missense_Mutation_p.G380D|RBBP7_uc004cxu.2_Missense_Mutation_p.G327D	NM_002893	NP_002884	Q16576	RBBP7_HUMAN	retinoblastoma binding protein 7	336	WD 6.				cell proliferation|cellular heat acclimation|CenH3-containing nucleosome assembly at centromere|DNA replication|multicellular organismal development|negative regulation of cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex|NuRD complex	protein binding			upper_aerodigestive_tract(1)|ovary(1)	2	Hepatocellular(33;0.0997)					GCGGTCAGTACCACTTGAAGC	0.398													19	167					0	0	0.012319	0	0		T	16870202	T	T	16870202	3	4	57	1	0	0	0	0	1	0	0	0	13129	507	18	4	286	4	RBBP7	23	16870202	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	8278524	16870202	138400358	56	40986											
SMS	6611	broad.mit.edu	37	chrX	21985429	21985429	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaacctacacaaacaagaaCggcaggtgagcagtctccag	15	4	10	12	1	1	2	0	1	1	1	2	2	1	2	2	2	5	3	2	2	5	1			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chrX:21985429C>T	uc004dag.2	+	2	266	c.165C>T	c.(163-165)AAC>AAT	p.N55N	SMS_uc011mjq.1_Translation_Start_Site|SMS_uc004daf.1_Silent_p.N55N	NM_004595	NP_004586	P52788	SPSY_HUMAN	spermine synthase	55					methionine metabolic process|spermine biosynthetic process	cytosol	spermidine synthase activity|spermine synthase activity			ovary(1)	1					Spermine(DB00127)	CAAACAAGAACGGCAGGTGAG	0.527													5	57					0	0	0.001984	0	0		T	21985429	T	T	21985429	2	4	57	1	0	0	0	0	0	0	0	1	14838	535	19	1		1	SMS	23	21985429	Silent	SNP	C	TCGA-BR-7957-01A-11D-2201-08	5115227	21985429	133285131	57	40987											
IQSEC2	23096	broad.mit.edu	37	chrX	53280269	53280269	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttcctttgactcccgcttctCcagctgggctgaccctggct	3	13	9	16	1	1	2	0	2	1	0	4	2	3	2	4	2	1	4	4	2	0	3			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chrX:53280269C>G	uc004dsd.2	-	5	1690	c.1489G>C	c.(1489-1491)GAG>CAG	p.E497Q	IQSEC2_uc004dsc.2_Missense_Mutation_p.E292Q	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	487					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						TCCCGCTTCTCCAGCTGGGCT	0.552													7	105					0	0	0.006214	0	0		G	53280269	G	G	53280269	3	3	57	1	0	0	0	0	1	0	0	0	7834	864	30	5	3021	5	IQSEC2	23	53280269	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	31294840	53280269	101990291	58	40988											
PCDH19	57526	broad.mit.edu	37	chrX	99662755	99662755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcgcgtgcggtcgttgaCgtagccatagaaggagtaga	9	8	15	9	6	0	3	0	1	0	2	2	4	0	4	1	2	2	3	1	2	4	4			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chrX:99662755C>T	uc010nmz.2	-	1	2517	c.841G>A	c.(841-843)GTC>ATC	p.V281I	PCDH19_uc004efw.3_Missense_Mutation_p.V281I|PCDH19_uc004efx.3_Missense_Mutation_p.V281I	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	281	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CGGTCGTTGACGTAGCCATAG	0.602													13	89					0	0	0.001855	0	0		T	99662755	T	T	99662755	3	4	57	1	0	0	0	0	1	0	0	0	11533	536	19	1	2629	1	PCDH19	23	99662755	Missense_Mutation	SNP	C	TCGA-BR-7957-01A-11D-2201-08	46382486	99662755	55607805	59	40989											
SPANXN2	494119	broad.mit.edu	37	chrX	142795255	142795255	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatccttcagatgagtcCaggtcttcgtcctcctgtga	8	12	10	11	1	2	4	1	2	1	2	7	5	6	4	4	1	0	0	4	1	1	2			TCGA-BR-7957-01A-11D-2201-08	TCGA-BR-7957-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	2cbf629c-ae30-41c6-855b-a96ebeb809dd	be59fe2c-7e0f-449c-a79c-56b71bfe1dc9	g.chrX:142795255C>T	uc004fbz.2	-	2	1177	c.423G>A	c.(421-423)CTG>CTA	p.L141L		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	141										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CAGATGAGTCCAGGTCTTCGT	0.517													11	211					0	0	0.003163	0	0		T	142795255	T	T	142795255	2	4	57	1	0	0	0	0	0	0	0	1	15016	581	21	4		4	SPANXN2	23	142795255	Silent	SNP	C	TCGA-BR-7957-01A-11D-2201-08	43132500	142795255	12475305	60	40990											
CPSF3L	54973	broad.mit.edu	37	chr1	1254740	1254740	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtctttgatcatctgggagGtgaagaagttggcctcgccc	8	11	13	9	1	3	3	1	2	2	1	4	4	3	4	2	3	0	1	2	3	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:1254740G>C	uc001aee.1	-	4	423	c.365C>G	c.(364-366)ACC>AGC	p.T122S	CPSF3L_uc009vjy.1_5'Flank|CPSF3L_uc001aef.1_Missense_Mutation_p.T128S|CPSF3L_uc009vjz.1_Missense_Mutation_p.T122S|CPSF3L_uc010nyj.1_Missense_Mutation_p.T93S|CPSF3L_uc001aeg.1_5'UTR|CPSF3L_uc001aeh.1_Intron|CPSF3L_uc001aei.1_Intron|CPSF3L_uc001aej.1_Intron|CPSF3L_uc001aek.1_Intron|CPSF3L_uc001aem.1_Missense_Mutation_p.T122S|CPSF3L_uc001ael.1_Missense_Mutation_p.T40S|CPSF3L_uc001aen.1_3'UTR	NM_017871	NP_060341	Q5TA45	INT11_HUMAN	cleavage and polyadenylation specific factor	122						Golgi apparatus|nucleus	hydrolase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(86;4.35e-21)|Colorectal(212;0.000166)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.00235)|BRCA - Breast invasive adenocarcinoma(365;0.00255)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0349)|Lung(427;0.201)		CATCTGGGAGGTGAAGAAGTT	0.587													22	119					0	0	0.00278	0	0		C	1254740	C	C	1254740	3	2	58	1	0	0	0	0	1	0	0	0	3830	1261	44	5	1493	5	CPSF3L	1	1254740	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08		1254740	247995881	1	40991											
TAS1R3	83756	broad.mit.edu	37	chr1	1268097	1268097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacgttctctgtctacgcaGctgtgtatagcgtggcccag	7	11	12	11	3	2	1	0	0	2	1	3	1	2	1	1	1	3	4	1	1	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:1268097G>A	uc010nyk.1	+	3	1186	c.1186G>A	c.(1186-1188)GCT>ACT	p.A396T		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	396	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)	Aspartame(DB00168)	TGTCTACGCAGCTGTGTATAG	0.652													5	23					0	0	0.000602	0	0		A	1268097	A	A	1268097	3	1	58	1	0	0	0	0	1	0	0	0	15589	971	34	2	1196	2	TAS1R3	1	1268097	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	13357	1268097	247982524	2	40992											
CCNL2	81669	broad.mit.edu	37	chr1	1322784	1322784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgagaacgggaagaactccGgctccgagacttgtgtggct	9	8	14	10	4	0	3	0	0	0	3	3	6	2	4	2	3	2	2	2	3	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:1322784G>A	uc001afi.2	-	11	1422	c.1390C>T	c.(1390-1392)CGG>TGG	p.R464W	CCNL2_uc010nym.1_RNA|CCNL2_uc001aff.1_Missense_Mutation_p.R242W|CCNL2_uc001afg.1_Missense_Mutation_p.R242W|CCNL2_uc001afh.2_3'UTR|CCNL2_uc001afj.2_3'UTR|CCNL2_uc001afk.2_3'UTR	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A	464					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		GAAGAACTCCGGCTCCGAGAC	0.577													9	52					0	0	0.008291	0	0		A	1322784	A	A	1322784	3	1	58	1	0	0	0	0	1	0	0	0	2935	1115	39	1	176	1	CCNL2	1	1322784	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	54687	1322784	247927837	3	40993											
KIAA1751	85452	broad.mit.edu	37	chr1	1916826	1916826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggctgcacaccgactcactCgctctccttcagcacggcct	6	8	8	19	4	3	0	2	0	1	0	5	1	3	0	3	2	2	4	3	2	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:1916826C>T	uc001aim.1	-	6	655	c.499G>A	c.(499-501)GAG>AAG	p.E167K	KIAA1751_uc009vkz.1_Missense_Mutation_p.E167K|KIAA1751_uc001ain.1_Missense_Mutation_p.E167K	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	167										pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		CCGACTCACTCGCTCTCCTTC	0.647													13	46					0	0	0.001368	0	0		T	1916826	T	T	1916826	3	4	58	1	0	0	0	0	1	0	0	0	8272	898	31	1	1841	1	KIAA1751	1	1916826	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	594042	1916826	247333795	4	40994											
EXOSC10	5394	broad.mit.edu	37	chr1	11140856	11140856	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccctgcgagctgttttatcCctccaggcaaacagcagctg	8	10	9	14	1	0	0	0	0	0	0	3	1	3	0	3	1	5	5	3	1	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:11140856C>A	uc001asa.2	-	12	1601	c.1551G>T	c.(1549-1551)AGG>AGT	p.R517S	EXOSC10_uc001asb.2_Missense_Mutation_p.R517S|EXOSC10_uc009vmy.1_Missense_Mutation_p.R517S	NM_001001998	NP_001001998	Q01780	EXOSX_HUMAN	exosome component 10 isoform 1	517	HRDC.				CUT catabolic process|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear polyadenylation-dependent rRNA catabolic process|nuclear retention of unspliced pre-mRNA at the site of transcription|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasm|nuclear exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5' exonuclease activity|exoribonuclease activity|identical protein binding|nucleotide binding|protein serine/threonine kinase activity|RNA binding			upper_aerodigestive_tract(1)	1	Ovarian(185;0.249)	Lung NSC(185;1.74e-05)|all_lung(284;2.05e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.18e-07)|COAD - Colon adenocarcinoma(227;8.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000315)|Kidney(185;0.000832)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|READ - Rectum adenocarcinoma(331;0.0526)|STAD - Stomach adenocarcinoma(313;0.202)		CTGTTTTATCCCTCCAGGCAA	0.428													5	80					0.000602214	0.000634503	0.000602	1	0		A	11140856	A	A	11140856	3	1	58	1	0	0	0	0	1	0	0	0	5322	622	22	5	1162	5	EXOSC10	1	11140856	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	9224030	11140856	238109765	5	40995											
SPEN	23013	broad.mit.edu	37	chr1	16257086	16257086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaaagctttgcttgaaagaGctaaatccctctcttcatct	11	14	5	11	0	3	2	1	1	2	1	5	2	4	2	1	0	3	3	1	0	5	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:16257086G>A	uc001axk.1	+	11	4555	c.4351G>A	c.(4351-4353)GCT>ACT	p.A1451T	SPEN_uc010obp.1_Missense_Mutation_p.A1410T	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1451					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GCTTGAAAGAGCTAAATCCCT	0.363													7	83					0	0	0.00308	0	0		A	16257086	A	A	16257086	3	1	58	1	0	0	0	0	1	0	0	0	15063	971	34	2	4393	2	SPEN	1	16257086	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	5116230	16257086	232993535	6	40996											
UBR4	23352	broad.mit.edu	37	chr1	19439224	19439224	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacttggtggaggatgtgtgGccacagcccaggacggataa	10	7	15	9	1	0	0	0	0	0	0	0	4	0	4	2	6	1	0	2	6	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:19439224G>A	uc001bbi.2	-	78	11599	c.11595C>T	c.(11593-11595)GGC>GGT	p.G3865G	UBR4_uc001bbj.1_3'UTR	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3865					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		AGGATGTGTGGCCACAGCCCA	0.592													30	150					0	0	0.00632	0	0		A	19439224	A	A	19439224	2	1	58	1	0	0	0	0	0	0	0	1	16930	1190	42	2		2	UBR4	1	19439224	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3182138	19439224	229811397	7	40997											
PLA2G2E	30814	broad.mit.edu	37	chr1	20249189	20249189	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtactgcagggcggactTgcctgtcatcttctcgatca	6	13	11	11	2	4	0	2	0	2	0	5	2	4	1	1	2	3	3	1	2	1	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:20249189T>G	uc001bct.1	-	2	158	c.100A>C	c.(100-102)AAG>CAG	p.K34Q		NM_014589	NP_055404	Q9NZK7	PA2GE_HUMAN	phospholipase A2, group IIE precursor	34					inflammatory response|lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|phospholipase A2 activity				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|GBM - Glioblastoma multiforme(114;0.000146)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		AGGGCGGACTTGCCTGTCATC	0.532													10	64					0	0	0.008291	0	0		G	20249189	G	G	20249189	3	3	58	1	0	0	0	0	1	0	0	0	12017	1821	63	5	340	5	PLA2G2E	1	20249189	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	809965	20249189	229001432	8	40998											
NBPF3	84224	broad.mit.edu	37	chr1	21800060	21800060	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcatgatgaatggttggatGctgtatgcattatcccaggt	9	14	11	7	0	1	2	1	2	0	0	2	3	2	3	1	3	2	4	1	3	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:21800060G>A	uc001ber.2	+	7	1272	c.922G>A	c.(922-924)GCT>ACT	p.A308T	NBPF3_uc001bes.2_Missense_Mutation_p.A252T|NBPF3_uc009vqb.2_Missense_Mutation_p.A308T|NBPF3_uc010odm.1_Missense_Mutation_p.A238T	NM_032264	NP_115640	Q9H094	NBPF3_HUMAN	neuroblastoma breakpoint family, member 3	308	NBPF 1.					cytoplasm				upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(284;2.16e-05)|Lung NSC(340;2.19e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|OV - Ovarian serous cystadenocarcinoma(117;7.53e-27)|COAD - Colon adenocarcinoma(152;1.18e-05)|GBM - Glioblastoma multiforme(114;3.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000143)|STAD - Stomach adenocarcinoma(196;0.00306)|KIRC - Kidney renal clear cell carcinoma(1967;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		ATGGTTGGATGCTGTATGCAT	0.443													33	155					0	0	0.002445	0	0		A	21800060	A	A	21800060	3	1	58	1	0	0	0	0	1	0	0	0	10216	1319	46	2	944	2	NBPF3	1	21800060	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1550871	21800060	227450561	9	40999											
HSPG2	3339	broad.mit.edu	37	chr1	22216485	22216485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggctcacctgtgcccaggCgtcggaactggaatccctgg	7	8	13	13	2	1	0	1	0	0	0	3	2	2	2	3	5	2	1	3	5	3	1	rs145847147		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:22216485C>T	uc001bfj.2	-	6	603	c.563G>A	c.(562-564)CGC>CAC	p.R188H	HSPG2_uc009vqd.2_Missense_Mutation_p.R188H|HSPG2_uc009vqe.1_Missense_Mutation_p.A87T	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	188	SEA.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TGTGCCCAGGCGTCGGAACTG	0.473													8	48					0	0	0.00308	0	0		T	22216485	T	T	22216485	3	4	58	1	0	0	0	0	1	0	0	0	7446	768	27	1	12980	1	HSPG2	1	22216485	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	416425	22216485	227034136	10	41000											
PAQR7	164091	broad.mit.edu	37	chr1	26189365	26189365	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggatgctgctgcccacCgtgagcaggaagaggccaga	10	5	16	10	1	0	4	0	2	0	2	0	6	0	6	3	3	4	3	3	3	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:26189365C>T	uc001bkx.2	-	2	1633	c.966G>A	c.(964-966)ACG>ACA	p.T322T		NM_178422	NP_848509	Q86WK9	MPRA_HUMAN	progestin and adipoQ receptor family member VII	322	Helical; Name=7; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding			breast(3)	3		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.16e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000724)|BRCA - Breast invasive adenocarcinoma(304;0.000965)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0136)|READ - Rectum adenocarcinoma(331;0.0649)		TGCTGCCCACCGTGAGCAGGA	0.587													7	47					0	0	0.001984	0	0		T	26189365	T	T	26189365	2	4	58	1	0	0	0	0	0	0	0	1	11459	639	23	1		1	PAQR7	1	26189365	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3972880	26189365	223061256	11	41001											
ARID1A	8289	broad.mit.edu	37	chr1	27099914	27099914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccctacagtcgtgctgccGgccctgggctaggaaatgtg	7	8	13	13	2	0	0	0	0	0	0	1	1	0	1	4	3	3	2	4	3	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:27099914G>A	uc001bmv.1	+	15	4166	c.3793G>A	c.(3793-3795)GGC>AGC	p.G1265S	ARID1A_uc001bmt.1_Missense_Mutation_p.G1264S|ARID1A_uc001bmu.1_Missense_Mutation_p.G1265S|ARID1A_uc001bmw.1_Missense_Mutation_p.G882S|ARID1A_uc001bmx.1_Missense_Mutation_p.G111S|ARID1A_uc009vsm.1_5'UTR|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1265					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TCGTGCTGCCGGCCCTGGGCT	0.607			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								7	41					0	0	0.001984	0	0		A	27099914	A	A	27099914	3	1	58	1	0	0	0	0	1	0	0	0	913	1116	39	1	3851	1	ARID1A	1	27099914	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	910549	27099914	222150707	12	41002											
ZDHHC18	84243	broad.mit.edu	37	chr1	27180234	27180234	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagcctaattgaccggagggGatttgtgcagtccgacaccg	10	8	13	10	3	0	1	0	1	0	0	1	4	1	3	4	3	2	1	4	3	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:27180234G>T	uc001bnb.2	+	8	1162	c.1067G>T	c.(1066-1068)GGA>GTA	p.G356V		NM_032283	NP_115659	Q9NUE0	ZDH18_HUMAN	zinc finger, DHHC-type containing 18	356						integral to membrane	zinc ion binding				0		all_cancers(24;5.82e-22)|all_epithelial(13;9.91e-20)|Colorectal(325;0.000147)|Breast(348;0.000706)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;5.71e-53)|Epithelial(14;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(117;1.53e-29)|Colorectal(126;1.9e-09)|COAD - Colon adenocarcinoma(152;4.2e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000548)|STAD - Stomach adenocarcinoma(196;0.00065)|KIRC - Kidney renal clear cell carcinoma(1967;0.000779)|GBM - Glioblastoma multiforme(114;0.0265)|READ - Rectum adenocarcinoma(331;0.0455)|Lung(427;0.163)|LUSC - Lung squamous cell carcinoma(448;0.237)		GACCGGAGGGGATTTGTGCAG	0.587											OREG0013274	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	180					1.5739e-10	1.78996e-10	0.004007	1	0		T	27180234	T	T	27180234	3	4	58	1	0	0	0	0	1	0	0	0	17633	1174	41	5	1097	5	ZDHHC18	1	27180234	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	80320	27180234	222070387	13	41003											
DNAJC8	22826	broad.mit.edu	37	chr1	28537141	28537141	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtcaggatgcaccaagAtggataactacaataagaga	16	10	9	6	0	1	2	1	0	0	2	1	5	1	4	1	2	3	1	1	2	5	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:28537141A>G	uc001bpn.2	-	4	278	c.245T>C	c.(244-246)ATC>ACC	p.I82T	DNAJC8_uc001bpo.2_RNA	NM_014280	NP_055095	O75937	DNJC8_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 8	82	J.				nuclear mRNA splicing, via spliceosome|protein folding	nucleoplasm	heat shock protein binding|unfolded protein binding				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.08e-05)|all_lung(284;4.29e-05)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.0105)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		OV - Ovarian serous cystadenocarcinoma(117;2.81e-22)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00275)|BRCA - Breast invasive adenocarcinoma(304;0.0059)|STAD - Stomach adenocarcinoma(196;0.00671)|READ - Rectum adenocarcinoma(331;0.0649)		ATGCACCAAGATGGATAACTA	0.388													16	76					0	0	0.007413	0	0		G	28537141	G	G	28537141	3	3	58	1	0	0	0	0	1	0	0	0	4661	333	12	3	540	3	DNAJC8	1	28537141	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	1356907	28537141	220713480	14	41004											
HDAC1	3065	broad.mit.edu	37	chr1	32792620	32792620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaccatgcaaagaagtccGaggcatctggcttctgttac	10	10	10	11	1	2	1	0	0	2	1	3	2	3	1	2	2	3	5	2	2	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:32792620G>A	uc001bvb.1	+	5	499	c.436G>A	c.(436-438)GAG>AAG	p.E146K	HDAC1_uc010ohd.1_Missense_Mutation_p.E146K|HDAC1_uc010ohe.1_Missense_Mutation_p.E83K|HDAC1_uc010ohf.1_Missense_Mutation_p.E117K|HDAC1_uc001bvc.1_5'Flank	NM_004964	NP_004955	Q13547	HDAC1_HUMAN	histone deacetylase 1	146	Histone deacetylase.				anti-apoptosis|blood coagulation|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|histone H3 deacetylation|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of androgen receptor signaling pathway|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytosol|NuRD complex|Sin3 complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|identical protein binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|RNA polymerase II transcription corepressor activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|breast(1)	3		Breast(348;0.000523)|Lung NSC(340;0.000992)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Lung SC(1967;0.113)		KIRC - Kidney renal clear cell carcinoma(1967;0.138)	Vorinostat(DB02546)	AAAGAAGTCCGAGGCATCTGG	0.512													11	57					0	0	0.008291	0	0		A	32792620	A	A	32792620	3	1	58	1	0	0	0	0	1	0	0	0	7020	1059	37	1	454	1	HDAC1	1	32792620	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4255479	32792620	216458001	15	41005											
CSMD2	114784	broad.mit.edu	37	chr1	34383709	34383709	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttaccagagggaggagccTtctgtcccagtgacttccag	8	9	12	12	0	1	2	0	1	1	1	3	4	3	4	4	2	2	1	4	2	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:34383709T>G	uc001bxn.1	-	5	815	c.786A>C	c.(784-786)GAA>GAC	p.E262D	CSMD2_uc001bxm.1_Missense_Mutation_p.E302D	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	262	CUB 2.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GGGAGGAGCCTTCTGTCCCAG	0.532													3	26					0	0	0.004672	0	0		G	34383709	G	G	34383709	3	3	58	1	0	0	0	0	1	0	0	0	3948	1606	56	5	9937	5	CSMD2	1	34383709	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1591089	34383709	214866912	16	41006											
GJB3	2707	broad.mit.edu	37	chr1	35250931	35250931	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagaaaatcttcacctacTtcatggtgggcgcctccgcc	10	9	9	13	2	3	2	2	0	1	2	4	2	4	2	4	2	1	0	4	2	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:35250931T>A	uc001bxx.2	+	2	1183	c.568T>A	c.(568-570)TTC>ATC	p.F190I	GJB3_uc001bxy.2_Missense_Mutation_p.F190I|GJB3_uc001bxz.3_Missense_Mutation_p.F190I|uc010ohs.1_RNA	NM_024009	NP_076872	O75712	CXB3_HUMAN	connexin 31	190	Helical; (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				CTTCACCTACTTCATGGTGGG	0.597													10	71					0	0	0.006214	0	0		A	35250931	A	A	35250931	3	1	58	1	0	0	0	0	1	0	0	0	6424	1609	56	5	570	5	GJB3	1	35250931	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	867222	35250931	213999690	17	41007											
EIF2C4	192670	broad.mit.edu	37	chr1	36306953	36306953	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccaagagctcctctacagtCaagaggtcatccaggacctg	11	7	9	14	0	3	2	2	0	1	2	5	3	5	3	4	2	2	1	4	2	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:36306953C>T	uc001bzj.1	+	14	2102	c.1912C>T	c.(1912-1914)CAA>TAA	p.Q638*		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4	638	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CCTCTACAGTCAAGAGGTCAT	0.547													12	40					0	0	0.000978	0	0		T	36306953	T	T	36306953	4	4	58	1	0	0	0	0	0	1	0	0	5014	827	29	4	1966	4	EIF2C4	1	36306953	Nonsense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1056022	36306953	212943668	18	41008											
ADPRHL2	54936	broad.mit.edu	37	chr1	36558733	36558733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgagtcggtacccaccGccatctactgcttcctacgc	6	11	7	17	3	1	1	0	1	1	0	3	1	2	1	5	1	4	2	5	1	3	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:36558733G>A	uc001bzt.2	+	6	891	c.838G>A	c.(838-840)GCC>ACC	p.A280T	ADPRHL2_uc001bzu.2_Missense_Mutation_p.A126T	NM_017825	NP_060295	Q9NX46	ARHL2_HUMAN	ADP-ribosylhydrolase like 2	280						cytoplasm|nucleus	metal ion binding|poly(ADP-ribose) glycohydrolase activity			pancreas(1)	1		Myeloproliferative disorder(586;0.0393)				GGTACCCACCGCCATCTACTG	0.547													15	51					0	0	0.00245	0	0		A	36558733	A	A	36558733	3	1	58	1	0	0	0	0	1	0	0	0	333	1087	38	1	860	1	ADPRHL2	1	36558733	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	251780	36558733	212691888	19	41009											
SCMH1	22955	broad.mit.edu	37	chr1	41608726	41608726	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggtggatgtggtgttcctgGggtcctgtgcttccaatttc	4	15	14	8	0	0	0	0	0	0	0	4	1	3	1	3	5	1	2	3	5	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:41608726G>T	uc001cgo.2	-	6	517	c.206C>A	c.(205-207)CCC>CAC	p.P69H	SCMH1_uc010ojr.1_Missense_Mutation_p.P22H|SCMH1_uc001cgp.2_Missense_Mutation_p.P8H|SCMH1_uc001cgr.2_Missense_Mutation_p.P8H|SCMH1_uc001cgs.2_Missense_Mutation_p.P79H|SCMH1_uc001cgt.2_Missense_Mutation_p.P8H|SCMH1_uc001cgq.2_Missense_Mutation_p.P22H|SCMH1_uc010ojs.1_RNA	NM_001031694	NP_001026864	Q96GD3	SCMH1_HUMAN	sex comb on midleg 1 isoform 1	69	MBT 1.				anatomical structure morphogenesis|gene silencing|multicellular organismal development|negative regulation of transcription, DNA-dependent		DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)|Breast(333;0.162)	Myeloproliferative disorder(586;0.0393)				GGTGTTCCTGGGGTCCTGTGC	0.493													13	81					7.93312e-07	8.75129e-07	0.00245	1	0		T	41608726	T	T	41608726	3	4	58	1	0	0	0	0	1	0	0	0	13933	1232	43	5	1820	5	SCMH1	1	41608726	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	5049993	41608726	207641895	20	41010											
FOXJ3	22887	broad.mit.edu	37	chr1	42657010	42657010	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgttgtgggggtgggggtgCctgatgtgttaacgtctgat	4	14	18	5	1	1	2	0	2	1	0	1	2	1	2	1	4	2	2	1	4	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:42657010C>A	uc001che.2	-	11	1627	c.1315G>T	c.(1315-1317)GCA>TCA	p.A439S	FOXJ3_uc001chf.2_Missense_Mutation_p.A439S|FOXJ3_uc001chg.2_Missense_Mutation_p.A439S|FOXJ3_uc001chh.1_Missense_Mutation_p.A405S	NM_014947	NP_055762	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	439					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)	2	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GGTGGGGGTGCCTGATGTGTT	0.493													9	51					1.76689e-08	1.98014e-08	0.006214	1	0		A	42657010	A	A	42657010	3	1	58	1	0	0	0	0	1	0	0	0	6027	739	26	5	573	5	FOXJ3	1	42657010	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1048284	42657010	206593611	21	41011											
CLDN19	149461	broad.mit.edu	37	chr1	43204117	43204117	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatgaagagggctcccccGgcgatggcaacacggccctt	9	5	14	13	3	0	2	0	1	0	1	1	4	1	3	3	5	1	2	3	5	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:43204117G>A	uc001cht.1	-	2	554	c.363C>T	c.(361-363)GCC>GCT	p.A121A	CLDN19_uc001chu.2_Silent_p.A121A|CLDN19_uc010ojv.1_Silent_p.A121A	NM_148960	NP_683763	Q8N6F1	CLD19_HUMAN	claudin 19 isoform a	121	Helical; (Potential).				calcium-independent cell-cell adhesion|response to stimulus|visual perception	basolateral plasma membrane|integral to membrane|tight junction	identical protein binding				0	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GGGCTCCCCCGGCGATGGCAA	0.652													4	32					0	0	0.009096	0	0		A	43204117	A	A	43204117	2	1	58	1	0	0	0	0	0	0	0	1	3483	1103	39	1		1	CLDN19	1	43204117	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	547107	43204117	206046504	22	41012											
TIE1	7075	broad.mit.edu	37	chr1	43775113	43775113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgagttcgaggtgcccCgcttggttcttgcggacagt	5	11	14	11	3	1	1	0	1	1	0	2	3	1	2	2	3	3	4	2	3	0	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:43775113C>T	uc001ciu.2	+	9	1322	c.1243C>T	c.(1243-1245)CGC>TGC	p.R415C	TIE1_uc010okd.1_Missense_Mutation_p.R415C|TIE1_uc010oke.1_Missense_Mutation_p.R370C|TIE1_uc009vwq.2_Missense_Mutation_p.R371C|TIE1_uc010okf.1_Missense_Mutation_p.R60C|TIE1_uc010okg.1_Missense_Mutation_p.R60C|TIE1_uc010okc.1_3'UTR	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	415	Ig-like C2-type 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CGAGGTGCCCCGCTTGGTTCT	0.587													7	40					0	0	0.00308	0	0		T	43775113	T	T	43775113	3	4	58	1	0	0	0	0	1	0	0	0	15918	652	23	1	1277	1	TIE1	1	43775113	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	570996	43775113	205475508	23	41013											
TESK2	10420	broad.mit.edu	37	chr1	45810622	45810622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctcctcagaagcacccgCagggcatggactggtcccct	8	7	10	16	1	2	1	1	0	1	1	4	2	3	2	4	3	1	3	4	3	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:45810622C>T	uc001cns.1	-	11	2009	c.1606G>A	c.(1606-1608)GCG>ACG	p.A536T	TESK2_uc009vxr.1_Missense_Mutation_p.A507T|TESK2_uc010olo.1_Missense_Mutation_p.A453T|TESK2_uc009vxs.1_Missense_Mutation_p.A328T	NM_007170	NP_009101	Q96S53	TESK2_HUMAN	testis-specific protein kinase 2	536					actin cytoskeleton organization|focal adhesion assembly|spermatogenesis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(2)|pancreas(1)	5	Acute lymphoblastic leukemia(166;0.155)					GAAGCACCCGCAGGGCATGGA	0.582													11	58					0	0	0.008291	0	0		T	45810622	T	T	45810622	3	4	58	1	0	0	0	0	1	0	0	0	15793	710	25	2	113	2	TESK2	1	45810622	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2035509	45810622	203439999	24	41014											
KIAA0494	9813	broad.mit.edu	37	chr1	47144205	47144205	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggaatcaaatgctctcaaGctctctggttctggcatagc	9	12	9	11	1	4	0	2	0	3	0	7	1	4	1	0	3	3	4	0	3	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:47144205G>T	uc001cqk.3	-	11	2393	c.1416C>A	c.(1414-1416)AGC>AGA	p.S472R	KIAA0494_uc010omh.1_Intron|KIAA0494_uc010omj.1_Missense_Mutation_p.S264R	NM_014774	NP_055589	O75071	K0494_HUMAN	hypothetical protein LOC9813	472	EF-hand 2.						calcium ion binding				0	Acute lymphoblastic leukemia(166;0.155)					ATGCTCTCAAGCTCTCTGGTT	0.473													8	73					5.18039e-06	5.66291e-06	0.00308	1	0		T	47144205	T	T	47144205	3	4	58	1	0	0	0	0	1	0	0	0	8195	962	34	5	75	5	KIAA0494	1	47144205	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1333583	47144205	202106416	25	41015											
CYP4B1	1580	broad.mit.edu	37	chr1	47279221	47279221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgatgtgggtcacatggCgctgaacacactcatgaagt	10	9	12	10	2	2	2	2	2	0	0	2	3	2	2	0	2	2	1	0	2	2	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:47279221C>T	uc001cqm.3	+	5	647	c.563C>T	c.(562-564)GCG>GTG	p.A188V	CYP4B1_uc009vyl.1_Missense_Mutation_p.A25V|CYP4B1_uc001cqn.3_Missense_Mutation_p.A188V|CYP4B1_uc009vym.2_Missense_Mutation_p.A173V|CYP4B1_uc010omk.1_Missense_Mutation_p.A25V|CYP4B1_uc010oml.1_Missense_Mutation_p.A25V	NM_000779	NP_000770	P13584	CP4B1_HUMAN	cytochrome P450, family 4, subfamily B,	188					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					GGTCACATGGCGCTGAACACA	0.572													6	35					0	0	0.001168	0	0		T	47279221	T	T	47279221	3	4	58	1	0	0	0	0	1	0	0	0	4188	768	27	1	581	1	CYP4B1	1	47279221	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	135016	47279221	201971400	26	41016											
CYP4A22	284541	broad.mit.edu	37	chr1	47607809	47607809	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctgttgaatgggcagAcatggttccagcatcgacgg	8	10	13	10	2	0	2	0	1	0	1	3	3	2	2	2	3	2	5	2	3	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:47607809A>C	uc001cqv.1	+	4	463	c.412A>C	c.(412-414)ACA>CCA	p.T138P	CYP4A22_uc009vyo.2_Missense_Mutation_p.T138P|CYP4A22_uc009vyp.2_Missense_Mutation_p.T138P	NM_001010969	NP_001010969	Q5TCH4	CP4AM_HUMAN	cytochrome P450, family 4, subfamily A,	138						endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding			skin(2)|ovary(1)|breast(1)	4						GAATGGGCAGACATGGTTCCA	0.532													12	46					0	0	0.000978	0	0		C	47607809	C	C	47607809	3	2	58	1	0	0	0	0	1	0	0	0	4187	275	10	5	426	5	CYP4A22	1	47607809	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	328588	47607809	201642812	27	41017											
CDCP2	200008	broad.mit.edu	37	chr1	54607090	54607090	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	acccctgacaggccagtcagGacgccgccacacacatctgc	10	4	9	18	2	2	1	1	1	1	0	2	2	2	2	5	2	1	0	5	2	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:54607090G>C	uc001cwv.1	-	3	1292	c.444C>G	c.(442-444)GTC>GTG	p.V148V		NM_201546	NP_963840	Q5VXM1	CDCP2_HUMAN	CUB domain containing protein 2 precursor	148	CUB 2.					extracellular region				ovary(1)	1						GGCCAGTCAGGACGCCGCCAC	0.597													7	20					0	0	0.001984	0	0		C	54607090	C	C	54607090	2	2	58	1	0	0	0	0	0	0	0	1	3097	1161	41	5		5	CDCP2	1	54607090	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	6999281	54607090	194643531	28	41018											
FOXD3	27022	broad.mit.edu	37	chr1	63789265	63789265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaccgcttcccctactacaGggagaagttccccgcctggc	8	7	9	17	2	0	1	0	0	0	1	2	2	2	1	6	2	3	2	6	2	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:63789265G>A	uc001dax.2	+	1	536	c.536G>A	c.(535-537)AGG>AAG	p.R179K		NM_012183	NP_036315	Q9UJU5	FOXD3_HUMAN	forkhead box D3	179	Fork-head.				axon extension involved in axon guidance|branching involved in ureteric bud morphogenesis|cartilage development|embryonic placenta development|enteric nervous system development|iridophore differentiation|kidney development|lateral line nerve glial cell development|melanocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development|trophectodermal cell differentiation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CCCTACTACAGGGAGAAGTTC	0.617													14	87					0	0	0.001855	0	0		A	63789265	A	A	63789265	3	1	58	1	0	0	0	0	1	0	0	0	6012	1000	35	4	538	4	FOXD3	1	63789265	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	9182175	63789265	185461356	29	41019											
SGIP1	84251	broad.mit.edu	37	chr1	67154912	67154912	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacctcctccccggcctcCatcccggccaaagctacctc	6	7	5	23	2	0	0	0	0	0	0	6	0	5	0	10	2	2	1	10	2	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:67154912C>A	uc001dcr.2	+	16	1614	c.1397C>A	c.(1396-1398)CCA>CAA	p.P466Q	SGIP1_uc010opd.1_Missense_Mutation_p.P66Q|SGIP1_uc001dcs.2_Missense_Mutation_p.P66Q|SGIP1_uc001dct.2_Missense_Mutation_p.P66Q|SGIP1_uc009wat.2_Missense_Mutation_p.P260Q	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	466	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						CCCCGGCCTCCATCCCGGCCA	0.532													30	199					2.65835e-16	3.09408e-16	0.007291	1	0		A	67154912	A	A	67154912	3	1	58	1	0	0	0	0	1	0	0	0	14231	594	21	5	1459	5	SGIP1	1	67154912	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3365647	67154912	182095709	30	41020											
DIRAS3	9077	broad.mit.edu	37	chr1	68512338	68512338	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcagtggtgttgggcaTctgggatttcttctcgggct	3	16	13	9	1	4	0	1	0	4	0	6	1	4	1	0	4	0	3	0	4	0	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:68512338T>C	uc001ded.2	-	2	938	c.643A>G	c.(643-645)ATG>GTG	p.M215V	uc001deb.1_Intron|uc001dec.1_Intron	NM_004675	NP_004666	O95661	DIRA3_HUMAN	DIRAS family, GTP-binding RAS-like 3	215					regulation of cyclin-dependent protein kinase activity|regulation of gene expression by genetic imprinting|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						GTGTTGGGCATCTGGGATTTC	0.522													20	74					0	0	0.010504	0	0		C	68512338	C	C	68512338	3	2	58	1	0	0	0	0	1	0	0	0	4538	1435	50	3	50	3	DIRAS3	1	68512338	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1357426	68512338	180738283	31	41021											
CCDC18	343099	broad.mit.edu	37	chr1	93682304	93682304	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aactagaacaggagcttatgGtaaaacttatctttgttcct	13	14	7	7	0	1	1	0	0	1	1	2	2	2	2	1	2	4	3	1	2	7	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:93682304G>T	uc001dpq.2	+	13	2352	c.2184_splice	c.e13+1	p.M728_splice	CCDC18_uc009wdl.1_Splice_Site_p.M289_splice	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41											ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		GGAGCTTATGGTAAAACTTAT	0.308													9	43					0.00621372	0.00640316	0.006214	1	0		T	93682304	T	T	93682304	5	4	58	1	0	0	0	0	0	0	1	0	2797	1275	44	5	2235	5	CCDC18	1	93682304	Splice_Site	SNP	G	TCGA-BR-8059-01A-11D-2340-08	25169966	93682304	155568317	32	41022											
AGL	178	broad.mit.edu	37	chr1	100345508	100345508	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgctgctaggaatttgcaAcccaatttatatgtagtagc	12	13	9	7	0	0	0	0	0	0	0	0	2	0	1	1	1	5	5	1	1	8	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:100345508A>G	uc001dsi.1	+	13	2041	c.1641A>G	c.(1639-1641)CAA>CAG	p.Q547Q	AGL_uc001dsj.1_Silent_p.Q547Q|AGL_uc001dsk.1_Silent_p.Q547Q|AGL_uc001dsl.1_Silent_p.Q547Q|AGL_uc001dsm.1_Silent_p.Q531Q|AGL_uc001dsn.1_Silent_p.Q530Q	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	547	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		GGAATTTGCAACCCAATTTAT	0.378													10	65					0	0	0.008291	0	0		G	100345508	G	G	100345508	2	3	58	1	0	0	0	0	0	0	0	1	384	40	2	3		3	AGL	1	100345508	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	6663204	100345508	148905113	33	41023											
FNDC7	163479	broad.mit.edu	37	chr1	109276074	109276074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtcactgagataccctgtgGggatgtatacactgtgatgg	9	12	13	7	0	1	2	1	2	0	1	1	4	1	3	1	3	2	1	1	3	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:109276074G>A	uc001dvx.2	+	10	2060	c.2060G>A	c.(2059-2061)GGG>GAG	p.G687E	FNDC7_uc010ova.1_Missense_Mutation_p.G454E	NM_001144937	NP_001138409	Q5VTL7	FNDC7_HUMAN	fibronectin type III domain containing 7	688	Fibronectin type-III 8.					extracellular region				ovary(1)|skin(1)	2		all_lung(203;0.00439)|Lung NSC(277;0.00683)|all_epithelial(167;0.00728)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.173)|all cancers(265;0.244)		ATACCCTGTGGGGATGTATAC	0.443													14	67					0	0	0.001855	0	0		A	109276074	A	A	109276074	3	1	58	1	0	0	0	0	1	0	0	0	5987	1232	43	4	2098	4	FNDC7	1	109276074	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	8930566	109276074	139974547	34	41024											
ATXN7L2	127002	broad.mit.edu	37	chr1	110029157	110029157	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgggcactgccctgccCatgatgacttctacttggtt	5	14	9	13	1	2	2	0	2	2	0	3	2	2	2	2	2	3	2	2	2	1	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:110029157C>G	uc001dxr.2	+	3	238	c.223C>G	c.(223-225)CAT>GAT	p.H75D	ATXN7L2_uc001dxs.2_5'Flank	NM_153340	NP_699171	Q5T6C5	AT7L2_HUMAN	ataxin 7-like 2	75										ovary(2)	2		all_epithelial(167;0.00197)|all_lung(203;0.00291)|Lung NSC(277;0.00453)		Colorectal(144;0.0129)|Lung(183;0.0426)|Epithelial(280;0.0675)|READ - Rectum adenocarcinoma(129;0.0693)|all cancers(265;0.071)|LUSC - Lung squamous cell carcinoma(189;0.228)		CTGCCCTGCCCATGATGACTT	0.552													5	28					0	0	0.000602	0	0		G	110029157	G	G	110029157	3	3	58	1	0	0	0	0	1	0	0	0	1218	594	21	5	233	5	ATXN7L2	1	110029157	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	753083	110029157	139221464	35	41025											
GPR61	83873	broad.mit.edu	37	chr1	110086455	110086455	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgatggtcaccagctcggggGccccccagaccaccccacac	8	3	10	20	2	1	1	1	0	0	1	2	2	1	1	7	3	1	1	7	3	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:110086455G>C	uc001dxy.2	+	2	1494	c.811G>C	c.(811-813)GCC>CCC	p.A271P		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	271	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		CAGCTCGGGGGCCCCCCAGAC	0.662													6	51					0	0	0.001984	0	0		C	110086455	C	C	110086455	3	2	58	1	0	0	0	0	1	0	0	0	6717	1203	42	5	813	5	GPR61	1	110086455	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	57298	110086455	139164166	36	41026											
RSBN1	54665	broad.mit.edu	37	chr1	114309746	114309747	+	Missense_Mutation	DNP	TC	AT	AT																															aaactggaggttcatgaagaTctaactgaagtctttgtaca																										TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:114309746_114309747TC>AT	uc001edq.2	-	6	1945_1946	c.1909_1910GA>AT	c.(1909-1911)GAT>ATT	p.D637I	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	637						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTCATGAAGATCTAACTGAAGT	0.317													3	17					0	0	0.004672	0	0		AT	114309747	AT	AT	114309746	3	1	58	1	0	0	0	0	1	0	0	0	13721	1435	50	5	506	5	RSBN1	1	114309746	Missense_Mutation	DNP	TC	TCGA-BR-8059-01A-11D-2340-08	4223291	114309746	134940875	37	41027											
NHLH2	4808	broad.mit.edu	37	chr1	116380625	116380625	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagataggagatgtagcaGatggccaggcgcaggatctc	11	8	15	7	1	1	3	0	1	1	3	2	6	1	4	1	4	1	3	1	4	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:116380625G>T	uc009wgz.2	-	2	874	c.369C>A	c.(367-369)ATC>ATA	p.I123I	NHLH2_uc001efy.2_Silent_p.I123I	NM_001111061	NP_001104531	Q02577	HEN2_HUMAN	nescient helix loop helix 2	123	Helix-loop-helix motif.				cell differentiation|central nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0	Lung SC(450;0.184)	all_cancers(81;1.75e-06)|all_epithelial(167;1.16e-06)|all_lung(203;9.55e-06)|Lung NSC(69;5.83e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		AGATGTAGCAGATGGCCAGGC	0.652													3	13					0.00909568	0.00933882	0.009096	1	0		T	116380625	T	T	116380625	2	4	58	1	0	0	0	0	0	0	0	1	10423	932	33	5		5	NHLH2	1	116380625	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2070879	116380625	132869996	38	41028											
VPS45	11311	broad.mit.edu	37	chr1	150040745	150040745	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacagaaggaagtgtaccTctttgaacgcattgattctc	11	13	8	9	1	3	3	0	2	3	1	4	4	3	4	1	1	3	2	1	1	5	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:150040745T>G	uc001etp.2	+	2	725	c.152T>G	c.(151-153)CTC>CGC	p.L51R	VPS45_uc010pbp.1_RNA|VPS45_uc010pbq.1_Missense_Mutation_p.L15R|VPS45_uc010pbs.1_Missense_Mutation_p.L15R|VPS45_uc009wlm.1_Missense_Mutation_p.L51R|VPS45_uc010pbr.1_Missense_Mutation_p.L15R	NM_007259	NP_009190	Q9NRW7	VPS45_HUMAN	vacuolar protein sorting 45A	51					blood coagulation|intracellular protein transport|vesicle docking involved in exocytosis	endosome membrane|Golgi membrane|integral to membrane of membrane fraction				central_nervous_system(1)|skin(1)	2	Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GAAGTGTACCTCTTTGAACGC	0.373													13	75					0	0	0.001368	0	0		G	150040745	G	G	150040745	3	3	58	1	0	0	0	0	1	0	0	0	17237	1551	54	5	158	5	VPS45	1	150040745	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	33660120	150040745	99209876	39	41029											
ANP32E	81611	broad.mit.edu	37	chr1	150201521	150201521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctataatcttccaggtttGtgatctcacagttaaacagg	11	14	7	9	0	3	1	1	1	3	0	5	1	4	1	1	2	1	2	1	2	4	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:150201521G>A	uc001etw.2	-	4	747	c.377C>T	c.(376-378)ACA>ATA	p.T126I	ANP32E_uc010pbt.1_5'Flank|ANP32E_uc010pbu.1_Missense_Mutation_p.T78I|ANP32E_uc010pbv.1_Missense_Mutation_p.T85I|ANP32E_uc001etv.3_Missense_Mutation_p.T126I|ANP32E_uc010pbw.1_Intron	NM_030920	NP_112182	Q9BTT0	AN32E_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32	126	LRRCT.					cytoplasmic membrane-bounded vesicle|nucleus	phosphatase inhibitor activity				0	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			TTCCAGGTTTGTGATCTCACA	0.323													21	30					0	0	0.008871	0	0		A	150201521	A	A	150201521	3	1	58	1	0	0	0	0	1	0	0	0	709	1377	48	4	445	4	ANP32E	1	150201521	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	160776	150201521	99049100	40	41030											
APH1A	51107	broad.mit.edu	37	chr1	150240152	150240152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggagatgggtgatcttcCgtcctcactcagcgatgcta	8	11	12	10	2	3	2	2	1	1	1	5	5	5	2	2	2	2	1	2	2	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:150240152C>T	uc001ety.1	-	3	644	c.322G>A	c.(322-324)GGA>AGA	p.G108R	APH1A_uc010pbx.1_Intron|APH1A_uc001etz.1_Missense_Mutation_p.G108R|APH1A_uc001eua.1_Missense_Mutation_p.G108R|APH1A_uc010pby.1_Missense_Mutation_p.G51R|APH1A_uc001eub.1_5'UTR|APH1A_uc010pbz.1_5'UTR	NM_001077628	NP_001071096	Q96BI3	APH1A_HUMAN	anterior pharynx defective 1 homolog A isoform	108	Cytoplasmic (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to plasma membrane	protein binding			ovary(1)|lung(1)	2	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGTGATCTTCCGTCCTCACTC	0.592													5	21					0	0	0.001168	0	0		T	150240152	T	T	150240152	3	4	58	1	0	0	0	0	1	0	0	0	771	661	23	1	506	1	APH1A	1	150240152	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	38631	150240152	99010469	41	41031											
SEMA6C	10500	broad.mit.edu	37	chr1	151115071	151115071	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagcagcagtagcagcaaGggcatgaagtggggggcacg	12	3	18	8	1	0	1	0	1	0	0	0	1	0	1	0	4	5	8	0	4	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:151115071G>C	uc001ewu.2	-	3	327	c.27C>G	c.(25-27)CCC>CCG	p.P9P	SEMA6C_uc001ewv.2_Silent_p.P9P|SEMA6C_uc001eww.2_Silent_p.P9P|SEMA6C_uc010pcq.1_Silent_p.P9P|SEMA6C_uc009wml.1_Intron	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	9						integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GTAGCAGCAAGGGCATGAAGT	0.647													3	11					0	0	0.004672	0	0		C	151115071	C	C	151115071	2	2	58	1	0	0	0	0	0	0	0	1	14066	987	35	5		5	SEMA6C	1	151115071	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	874919	151115071	98135550	42	41032											
MRPL9	65005	broad.mit.edu	37	chr1	151732634	151732634	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgacagacataggcacTctcacagtatcaagcccatt	13	9	6	13	1	3	1	3	0	1	1	4	2	3	1	1	1	1	2	1	1	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:151732634T>A	uc001eyv.2	-	7	781	c.696A>T	c.(694-696)AGA>AGT	p.R232S	MRPL9_uc009wmz.2_RNA	NM_031420	NP_113608	Q9BYD2	RM09_HUMAN	mitochondrial ribosomal protein L9 precursor	232					translation	mitochondrial ribosome	structural constituent of ribosome			ovary(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			ACATAGGCACTCTCACAGTAT	0.478													9	50					0	0	0.004482	0	0		A	151732634	A	A	151732634	3	1	58	1	0	0	0	0	1	0	0	0	9838	1548	54	5	111	5	MRPL9	1	151732634	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	617563	151732634	97517987	43	41033											
HRNR	388697	broad.mit.edu	37	chr1	152192965	152192965	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcttgatgcctgccctgaCgtagatccatgttgtccctg	6	12	11	12	1	0	3	0	2	0	1	2	4	2	3	4	0	3	3	4	0	1	3	rs139453762		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:152192965C>T	uc001ezt.1	-	3	1216	c.1140G>A	c.(1138-1140)ACG>ACA	p.T380T		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	380	4.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGCCCTGACGTAGATCCAT	0.567													17	128					0	0	0.00499	0	0		T	152192965	T	T	152192965	2	4	58	1	0	0	0	0	0	0	0	1	7375	523	19	1		1	HRNR	1	152192965	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	460331	152192965	97057656	44	41034											
FLG	2312	broad.mit.edu	37	chr1	152284910	152284910	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcatggtgggatccttGtcttactccagtgctgggcc	4	13	12	12	0	2	0	1	0	1	0	4	1	4	1	3	3	3	2	3	3	1	2	rs147738817		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:152284910G>C	uc001ezu.1	-	3	2488	c.2452C>G	c.(2452-2454)CAA>GAA	p.Q818E	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	818	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGGGATCCTTGTCTTACTCCA	0.562									Ichthyosis				55	319					0	0	0.00361	0	0		C	152284910	C	C	152284910	3	2	58	1	0	0	0	0	1	0	0	0	5936	1386	48	5	9737	5	FLG	1	152284910	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	91945	152284910	96965711	45	41035											
FLG2	388698	broad.mit.edu	37	chr1	152327308	152327308	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actcatgctgtccaaagccaGaggattttcctgagcctgac	10	10	9	12	0	1	3	1	2	0	1	3	4	3	4	4	1	3	1	4	1	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:152327308G>C	uc001ezw.3	-	3	3027	c.2954C>G	c.(2953-2955)TCT>TGT	p.S985C	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	985	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCAAAGCCAGAGGATTTTCC	0.498													62	432					0	0	0.00361	0	0		C	152327308	C	C	152327308	3	2	58	1	0	0	0	0	1	0	0	0	5937	942	33	5	4225	5	FLG2	1	152327308	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	42398	152327308	96923313	46	41036											
SLC27A3	11000	broad.mit.edu	37	chr1	153749026	153749026	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggagccggacctgcccGccctgagagccatggggctc	5	5	14	17	2	0	1	0	1	0	1	1	4	0	3	6	4	3	1	6	4	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:153749026G>T	uc001fcz.2	+	2	906	c.841G>T	c.(841-843)GCC>TCC	p.A281S	SLC27A3_uc009won.2_RNA	NM_024330	NP_077306	Q5K4L6	S27A3_HUMAN	solute carrier family 27 member 3	281					fatty acid metabolic process	integral to membrane|mitochondrial membrane	ligase activity|nucleotide binding			ovary(1)	1	all_lung(78;6.47e-32)|Lung NSC(65;2.52e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GGACCTGCCCGCCCTGAGAGC	0.622													18	101					1.22574e-08	1.37733e-08	0.002299	1	0		T	153749026	T	T	153749026	3	4	58	1	0	0	0	0	1	0	0	0	14552	1087	38	5	847	5	SLC27A3	1	153749026	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1421718	153749026	95501595	47	41037											
HCN3	57657	broad.mit.edu	37	chr1	155252420	155252420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccgcgggccatccgcaCgcgctacctgcgcacctggt	5	5	13	18	6	0	0	0	0	0	0	1	0	1	0	5	3	2	4	5	3	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:155252420C>T	uc001fjz.1	+	2	505	c.497C>T	c.(496-498)ACG>ATG	p.T166M	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_Translation_Start_Site	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	166	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GCCATCCGCACGCGCTACCTG	0.582													14	54					0	0	0.00245	0	0		T	155252420	T	T	155252420	3	4	58	1	0	0	0	0	1	0	0	0	7014	536	19	1	503	1	HCN3	1	155252420	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1503394	155252420	93998201	48	41038											
KIRREL	55243	broad.mit.edu	37	chr1	158059568	158059568	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggggtgacggtggcaaggTggagtgtttcattgggagca	8	9	20	4	1	1	1	1	1	0	0	1	4	1	3	0	7	1	3	0	7	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:158059568T>C	uc001frn.3	+	10	1636	c.1232T>C	c.(1231-1233)GTG>GCG	p.V411A	KIRREL_uc010pib.1_Missense_Mutation_p.V311A|KIRREL_uc009wsq.2_Missense_Mutation_p.V247A|KIRREL_uc001fro.3_Missense_Mutation_p.V225A	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	411	Ig-like C2-type 5.|Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					GGTGGCAAGGTGGAGTGTTTC	0.592													8	45					0	0	0.00308	0	0		C	158059568	C	C	158059568	3	2	58	1	0	0	0	0	1	0	0	0	8340	1696	59	3	1270	3	KIRREL	1	158059568	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	2807148	158059568	91191053	49	41039											
CD1A	909	broad.mit.edu	37	chr1	158226016	158226016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcttctcagtgacacctGcccacgtttcatcttgggtc	7	13	7	14	1	4	1	2	1	3	0	6	1	4	1	2	1	1	1	2	1	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:158226016G>A	uc001frt.2	+	3	1081	c.548G>A	c.(547-549)TGC>TAC	p.C183Y		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	183	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	AGTGACACCTGCCCACGTTTC	0.463													14	73					0	0	0.001855	0	0		A	158226016	A	A	158226016	3	1	58	1	0	0	0	0	1	0	0	0	2977	1319	46	2	558	2	CD1A	1	158226016	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	166448	158226016	91024605	50	41040											
OR10T2	128360	broad.mit.edu	37	chr1	158368498	158368498	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatagatgatagaggcacaGccatagtggacaaagaccac	17	5	11	8	0	0	5	0	1	0	4	0	6	0	6	2	2	1	1	2	2	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:158368498G>A	uc010pih.1	-	1	759	c.759C>T	c.(757-759)GGC>GGT	p.G253G		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					TAGAGGCACAGCCATAGTGGA	0.507													11	43					0	0	0.001368	0	0		A	158368498	A	A	158368498	2	1	58	1	0	0	0	0	0	0	0	1	10938	958	34	2		2	OR10T2	1	158368498	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	142482	158368498	90882123	51	41041											
FCRLA	84824	broad.mit.edu	37	chr1	161682971	161682971	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcccctgggcctctgcCtccgccgccaaccccatctt	4	7	10	20	2	2	0	0	0	2	0	3	1	3	1	9	3	2	0	9	3	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:161682971C>A	uc001gbe.2	+	6	1192	c.950C>A	c.(949-951)CCT>CAT	p.P317H	FCRLA_uc001gbd.2_Missense_Mutation_p.P311H|FCRLA_uc001gbf.2_Missense_Mutation_p.P222H|FCRLA_uc001gbg.2_Missense_Mutation_p.P171H|FCRLA_uc009wuo.2_Missense_Mutation_p.P177H|FCRLA_uc009wup.2_Missense_Mutation_p.P127H|FCRLA_uc009wuq.2_Missense_Mutation_p.P76H	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	294	Pro-rich.				cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			GGGCCTCTGCCTCCGCCGCCA	0.572													16	95					1.02788e-11	1.18172e-11	0.00499	1	0		A	161682971	A	A	161682971	3	1	58	1	0	0	0	0	1	0	0	0	5814	681	24	5	972	5	FCRLA	1	161682971	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3314473	161682971	87567650	52	41042											
ATF6	22926	broad.mit.edu	37	chr1	161789511	161789511	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagaaagaatatatgctagGgttagaggcgagattaaagg	17	8	14	2	1	0	4	0	0	0	4	0	6	0	4	0	3	1	2	0	3	9	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:161789511G>T	uc001gbr.2	+	8	1065	c.998G>T	c.(997-999)GGG>GTG	p.G333V	ATF6_uc001gbq.1_Missense_Mutation_p.G333V	NM_007348	NP_031374	P18850	ATF6A_HUMAN	activating transcription factor 6	333	Cytoplasmic (Potential).				positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response|protein folding	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|skin(1)	3	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.00953)			TATATGCTAGGGTTAGAGGCG	0.428													8	46					5.18039e-06	5.66291e-06	0.00308	1	0		T	161789511	T	T	161789511	3	4	58	1	0	0	0	0	1	0	0	0	1085	1232	43	5	1028	5	ATF6	1	161789511	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	106540	161789511	87461110	53	41043											
UAP1	6675	broad.mit.edu	37	chr1	162569119	162569119	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctctaatcatcgatgagaAtggagttcatgagctggtga	12	11	11	7	1	3	3	2	3	1	1	4	6	3	4	1	2	1	2	1	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:162569119A>G	uc001gce.3	+	10	1813	c.1484A>G	c.(1483-1485)AAT>AGT	p.N495S		NM_003115	NP_003106	Q16222	UAP1_HUMAN	UDP-N-acetylglucosamine pyrophosphorylase 1	512					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol|nucleus|plasma membrane	UDP-N-acetylglucosamine diphosphorylase activity			ovary(2)|skin(2)|kidney(1)	5	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			ATCGATGAGAATGGAGTTCAT	0.348													3	20					0	0	0.004672	0	0		G	162569119	G	G	162569119	3	3	58	1	0	0	0	0	1	0	0	0	16851	101	4	3	1518	3	UAP1	1	162569119	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	779608	162569119	86681502	54	41044											
FAM78B	149297	broad.mit.edu	37	chr1	166039482	166039482	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggccagtctgcttctacTtaggagggatcacaaccaga	11	9	10	11	0	4	1	2	0	2	1	4	3	4	3	2	3	3	1	2	3	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:166039482T>G	uc001gdr.2	-	3	1372	c.782A>C	c.(781-783)AAG>ACG	p.K261T	FAM78B_uc010plc.1_RNA|FAM78B_uc001gdq.2_RNA	NM_001017961	NP_001017961	Q5VT40	FA78B_HUMAN	hypothetical protein LOC149297	261										central_nervous_system(1)|skin(1)	2	all_hematologic(923;0.0813)|Acute lymphoblastic leukemia(8;0.155)					CTGCTTCTACTTAGGAGGGAT	0.577													10	78					0	0	0.008291	0	0		G	166039482	G	G	166039482	3	3	58	1	0	0	0	0	1	0	0	0	5641	1609	56	5	7	5	FAM78B	1	166039482	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	3470363	166039482	83211139	55	41045											
F5	2153	broad.mit.edu	37	chr1	169500218	169500218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcataggaaagtccatgggCatgtagagaatacggtctgg	12	10	13	6	1	2	1	1	0	1	1	3	3	3	2	1	4	1	2	1	4	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:169500218C>T	uc001ggg.1	-	15	5159	c.5014G>A	c.(5014-5016)GCC>ACC	p.A1672T		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1672	F5/8 type A 3.|Plastocyanin-like 5.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	AGTCCATGGGCATGTAGAGAA	0.363													7	94					0	0	0.00308	0	0		T	169500218	T	T	169500218	3	4	58	1	0	0	0	0	1	0	0	0	5356	710	25	2	1704	2	F5	1	169500218	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3460736	169500218	79750403	56	41046											
TPR	7175	broad.mit.edu	37	chr1	186300651	186300651	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctccaatggaatcttgagaAtcctggttgtatacctgagt	10	14	9	8	0	2	2	0	2	2	1	4	4	3	3	3	2	1	2	3	2	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:186300651A>G	uc001grv.2	-	39	5964	c.5667T>C	c.(5665-5667)GAT>GAC	p.D1889D		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1889					carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		AATCTTGAGAATCCTGGTTGT	0.343			T	NTRK1	papillary thyroid								7	45					0	0	0.001984	0	0		G	186300651	G	G	186300651	2	3	58	1	0	0	0	0	0	0	0	1	16442	98	4	3		3	TPR	1	186300651	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	16800433	186300651	62949970	57	41047											
CRB1	23418	broad.mit.edu	37	chr1	197404057	197404057	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaacagcttttatatgctaAgtctgacaagtttgcagtca	12	13	8	8	0	2	1	1	1	1	0	2	1	2	1	0	0	4	5	0	0	5	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:197404057A>C	uc001gtz.2	+	9	3199	c.3064A>C	c.(3064-3066)AGT>CGT	p.S1022R	CRB1_uc010poz.1_Missense_Mutation_p.S998R|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.S910R|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.S503R|CRB1_uc001gub.1_Missense_Mutation_p.S671R	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1022	Extracellular (Potential).|Laminin G-like 3.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TTATATGCTAAGTCTGACAAG	0.413													14	47					0	0	0.001855	0	0		C	197404057	C	C	197404057	3	2	58	1	0	0	0	0	1	0	0	0	3851	72	3	5	3098	5	CRB1	1	197404057	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	11103406	197404057	51846564	58	41048											
KIF21B	23046	broad.mit.edu	37	chr1	200978019	200978019	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cctcgggatgatgccctgctCctcctccgacgttgccatgt	4	11	10	16	3	0	1	0	1	0	0	4	3	3	2	6	1	3	2	6	1	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:200978019C>G	uc001gvs.1	-	3	642	c.325G>C	c.(325-327)GAG>CAG	p.E109Q	KIF21B_uc001gvr.1_Missense_Mutation_p.E109Q|KIF21B_uc009wzl.1_Missense_Mutation_p.E109Q|KIF21B_uc010ppn.1_Missense_Mutation_p.E109Q	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	109	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						ATGCCCTGCTCCTCCTCCGAC	0.627													14	76					0	0	0.001855	0	0		G	200978019	G	G	200978019	3	3	58	1	0	0	0	0	1	0	0	0	8305	864	30	5	4677	5	KIF21B	1	200978019	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3573962	200978019	48272602	59	41049											
PLEKHA6	22874	broad.mit.edu	37	chr1	204226851	204226851	+	Frame_Shift_Del	DEL	G	-	-																															tgtcctccagggcccagggcGggctgatccgatcataggcc																								rs138411516		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:204226851delG	uc001hau.2	-	9	1471	c.1154delC	c.(1153-1155)CCGfs	p.P385fs	PLEKHA6_uc009xaw.1_Frame_Shift_Del_p.P9fs|PLEKHA6_uc009xax.1_Frame_Shift_Del_p.P9fs|PLEKHA6_uc009xay.1_Frame_Shift_Del_p.P9fs|PLEKHA6_uc009xaz.1_Frame_Shift_Del_p.P9fs|PLEKHA6_uc009xba.1_Frame_Shift_Del_p.P9fs|PLEKHA6_uc009xbb.1_Frame_Shift_Del_p.P9fs|PLEKHA6_uc009xbc.1_Frame_Shift_Del_p.P9fs	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	385	Pro-rich.									ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			GGCCCAGGGCGGGCTGATCCG	0.662													5	11	---	---	---	---						.	-	204226851	-	-	204226851	7	5	58	1	0	1	0	1	0	0	0	0	12079	1116	39	0	2048	0	PLEKHA6	1	204226851	Frame_Shift_Del	DEL	G	TCGA-BR-8059-01A-11D-2340-08	3248832	204226851	45023770	60	41050											
KLHDC8A	55220	broad.mit.edu	37	chr1	205312566	205312566	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaaggcggtccactggtcgGcctccggggagtagacctcg	6	6	16	13	4	0	1	0	0	0	1	4	2	2	2	4	6	0	2	4	6	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:205312566G>T	uc001hcf.1	-	2	735	c.167C>A	c.(166-168)GCC>GAC	p.A56D	KLHDC8A_uc010prg.1_Intron|KLHDC8A_uc001hcg.1_Missense_Mutation_p.A56D	NM_018203	NP_060673	Q8IYD2	KLD8A_HUMAN	kelch domain containing 8A	56	Kelch 2.									ovary(1)	1	Breast(84;0.23)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CCACTGGTCGGCCTCCGGGGA	0.701													8	62					0.00448238	0.00465309	0.004482	1	0		T	205312566	T	T	205312566	3	4	58	1	0	0	0	0	1	0	0	0	8378	1203	42	5	905	5	KLHDC8A	1	205312566	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1085715	205312566	43938055	61	41051											
SLC26A9	115019	broad.mit.edu	37	chr1	205892549	205892549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gattttaatcccctggatatCctgggcctgtgacagggaga	9	11	12	9	0	0	2	0	1	0	1	2	5	2	3	4	3	0	0	4	3	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:205892549C>T	uc001hdq.2	-	15	1687	c.1573G>A	c.(1573-1575)GAT>AAT	p.D525N	SLC26A9_uc001hdo.2_Missense_Mutation_p.D193N|SLC26A9_uc001hdp.2_Missense_Mutation_p.D525N	NM_052934	NP_443166	Q7LBE3	S26A9_HUMAN	solute carrier family 26, member 9 isoform a	525	STAS.					integral to membrane	chloride channel activity|secondary active sulfate transmembrane transporter activity			ovary(1)|skin(1)	2	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0458)			CCCTGGATATCCTGGGCCTGT	0.483													9	70					0	0	0.004482	0	0		T	205892549	T	T	205892549	3	4	58	1	0	0	0	0	1	0	0	0	14549	855	30	4	1126	4	SLC26A9	1	205892549	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	579983	205892549	43358072	62	41052											
C1orf186	440712	broad.mit.edu	37	chr1	206241563	206241563	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggaatcagacattgggatgtCtctctctgtctgagtctcct	7	14	10	10	0	5	2	1	1	4	1	8	4	5	4	1	2	0	0	1	2	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:206241563C>G	uc001hdt.1	-	4	865	c.226G>C	c.(226-228)GAC>CAC	p.D76H		NM_001007544	NP_001007545	Q6ZWK4	CA186_HUMAN	hypothetical protein LOC440712	76						integral to membrane					0			BRCA - Breast invasive adenocarcinoma(75;0.0754)			ATTGGGATGTCTCTCTCTGTC	0.542													33	64					0	0	0.003271	0	0		G	206241563	G	G	206241563	3	3	58	1	0	0	0	0	1	0	0	0	2023	913	32	5	304	5	C1orf186	1	206241563	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	349014	206241563	43009058	63	41053											
C1orf116	79098	broad.mit.edu	37	chr1	207198323	207198323	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacagtccgctgtcagcCtccgtgtccagtgagccaat	7	9	12	13	2	1	1	1	1	0	0	4	2	4	2	5	1	2	1	5	1	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:207198323C>A	uc001hfd.2	-	3	451	c.192G>T	c.(190-192)GAG>GAT	p.E64D	C1orf116_uc009xcb.1_Translation_Start_Site	NM_023938	NP_076427	Q9BW04	SARG_HUMAN	specifically androgen-regulated protein isoform	64						cytoplasm|plasma membrane	receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Prostate(682;0.19)					CGCTGTCAGCCTCCGTGTCCA	0.567													15	32					2.23348e-06	2.45103e-06	0.004007	1	0		A	207198323	A	A	207198323	3	1	58	1	0	0	0	0	1	0	0	0	1992	680	24	5	1621	5	C1orf116	1	207198323	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	956760	207198323	42052298	64	41054											
SERTAD4	56256	broad.mit.edu	37	chr1	210415046	210415046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccatggagaaattatcatGcagaataactggtgcttccc	13	11	8	9	0	1	2	1	0	0	2	3	3	3	2	2	2	3	2	2	2	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:210415046G>A	uc001hhy.2	+	4	614	c.435G>A	c.(433-435)ATG>ATA	p.M145I	SERTAD4_uc009xcw.2_Missense_Mutation_p.M145I	NM_019605	NP_062551	Q9NUC0	SRTD4_HUMAN	SERTA domain containing 4	145	SERTA.						protein binding			ovary(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0237)|all cancers(67;0.127)		AAATTATCATGCAGAATAACT	0.443													11	104					0	0	0.008291	0	0		A	210415046	A	A	210415046	3	1	58	1	0	0	0	0	1	0	0	0	14148	1319	46	2	445	2	SERTAD4	1	210415046	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3216723	210415046	38835575	65	41055											
RD3	343035	broad.mit.edu	37	chr1	211654657	211654657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctctcgcatctgccccGtcagctccatcataagcgtc	7	9	7	18	3	4	0	2	0	2	0	7	0	5	0	4	0	4	2	4	0	1	1	rs148242709		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:211654657G>A	uc001him.2	-	2	1265	c.101C>T	c.(100-102)ACG>ATG	p.T34M	RD3_uc001hin.2_RNA|RD3_uc009xda.2_Intron	NM_183059	NP_898882	Q7Z3Z2	RD3_HUMAN	retinal degeneration 3	34	Potential.				response to stimulus|visual perception					ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00284)|all cancers(67;0.0279)|Epithelial(68;0.0689)		CATCTGCCCCGTCAGCTCCAT	0.627													12	72					0	0	0.001368	0	0		A	211654657	A	A	211654657	3	1	58	1	0	0	0	0	1	0	0	0	13212	1145	40	1	494	1	RD3	1	211654657	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1239611	211654657	37595964	66	41056											
SLC30A1	7779	broad.mit.edu	37	chr1	211749121	211749121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcaatgattctgcttccaGcaagttgccaaacatgtaat	12	12	8	9	0	1	1	0	1	1	0	2	1	2	1	2	1	4	5	2	1	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:211749121G>A	uc001hio.1	-	2	1278	c.1133C>T	c.(1132-1134)GCT>GTT	p.A378V		NM_021194	NP_067017	Q9Y6M5	ZNT1_HUMAN	solute carrier family 30 (zinc transporter),	378	Cytoplasmic (Potential).				cadmium ion transmembrane transport|cellular calcium ion homeostasis|cellular zinc ion homeostasis|negative regulation of calcium ion import|negative regulation of neurotransmitter secretion|negative regulation of zinc ion import	integral to membrane|T-tubule	calcium channel inhibitor activity|zinc ion transmembrane transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(81;0.00535)|GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.0604)|Epithelial(68;0.0978)		TCTGCTTCCAGCAAGTTGCCA	0.358													9	88					0	0	0.006214	0	0		A	211749121	A	A	211749121	3	1	58	1	0	0	0	0	1	0	0	0	14578	971	34	2	394	2	SLC30A1	1	211749121	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	94464	211749121	37501500	67	41057											
PTPN14	5784	broad.mit.edu	37	chr1	214588019	214588019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcacctggtccaatgtacatCgtaatcgcccttcaagcaca	11	10	6	14	2	2	0	2	0	0	0	5	0	3	0	3	1	2	3	3	1	4	3	rs139895368	byFrequency	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:214588019C>T	uc001hkk.1	-	4	666	c.395G>A	c.(394-396)CGA>CAA	p.R132Q	PTPN14_uc010pty.1_Missense_Mutation_p.R33Q	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	132	FERM.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		CAATGTACATCGTAATCGCCC	0.413													37	145					0	0	0.003755	0	0		T	214588019	T	T	214588019	3	4	58	1	0	0	0	0	1	0	0	0	12806	884	31	1	3232	1	PTPN14	1	214588019	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2838898	214588019	34662602	68	41058											
CENPF	1063	broad.mit.edu	37	chr1	214818924	214818924	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtctccattgcattcaggTggcagaggcagaggtgaagg	9	9	16	7	0	2	3	1	1	1	2	3	3	2	3	1	5	1	3	1	5	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:214818924T>C	uc001hkm.2	+	13	6185	c.6011T>C	c.(6010-6012)GTG>GCG	p.V2004A		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2100	Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TGCATTCAGGTGGCAGAGGCA	0.438													8	74					0	0	0.004482	0	0		C	214818924	C	C	214818924	3	2	58	1	0	0	0	0	1	0	0	0	3234	1696	59	3	6057	3	CENPF	1	214818924	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	230905	214818924	34431697	69	41059											
KCTD3	51133	broad.mit.edu	37	chr1	215793628	215793628	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcaacaggggaatgtaatAtatctgagagaaagtctcct	14	9	12	6	0	2	2	0	1	2	1	3	4	2	3	1	3	1	2	1	3	6	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:215793628A>G	uc001hks.2	+	18	2410	c.2116A>G	c.(2116-2118)ATA>GTA	p.I706V	KCTD3_uc001hkt.2_Missense_Mutation_p.I704V|KCTD3_uc010pub.1_Missense_Mutation_p.I604V|KCTD3_uc009xdn.2_Missense_Mutation_p.I430V	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	706						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		GGAATGTAATATATCTGAGAG	0.373													7	58					0	0	0.001984	0	0		G	215793628	G	G	215793628	3	3	58	1	0	0	0	0	1	0	0	0	8126	449	16	3	2186	3	KCTD3	1	215793628	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	974704	215793628	33456993	70	41060											
KCTD3	51133	broad.mit.edu	37	chr1	215793684	215793684	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgagagaattggatagTggattggaagtgcataaaat	15	12	13	1	0	0	2	0	1	0	1	0	6	0	5	0	3	1	2	0	3	5	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:215793684T>A	uc001hks.2	+	18	2466	c.2172T>A	c.(2170-2172)AGT>AGA	p.S724R	KCTD3_uc001hkt.2_Missense_Mutation_p.S722R|KCTD3_uc010pub.1_Missense_Mutation_p.S622R|KCTD3_uc009xdn.2_Missense_Mutation_p.S448R	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	724						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		AATTGGATAGTGGATTGGAAG	0.358													12	62					0	0	0.001368	0	0		A	215793684	A	A	215793684	3	1	58	1	0	0	0	0	1	0	0	0	8126	1693	59	5	2242	5	KCTD3	1	215793684	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	56	215793684	33456937	71	41061											
USH2A	7399	broad.mit.edu	37	chr1	215901410	215901410	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacggtagggctgttaaatgTaggatcgtcgggtctctcct	7	12	13	9	3	1	0	0	0	1	0	5	1	2	1	1	4	0	4	1	4	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:215901410T>C	uc001hku.1	-	61	12415	c.12028A>G	c.(12028-12030)ACA>GCA	p.T4010A		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4010	Fibronectin type-III 25.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTGTTAAATGTAGGATCGTCG	0.433										HNSCC(13;0.011)			24	97					0	0	0.003954	0	0		C	215901410	C	C	215901410	3	2	58	1	0	0	0	0	1	0	0	0	17062	1638	57	3	3628	3	USH2A	1	215901410	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	107726	215901410	33349211	72	41062											
USH2A	7399	broad.mit.edu	37	chr1	216246578	216246578	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgacagcaccgctggaCacagatgccaagttaacgac	13	6	9	13	2	1	2	0	1	1	1	1	4	1	3	2	1	3	3	2	1	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:216246578C>T	uc001hku.1	-	28	6024	c.5637G>A	c.(5635-5637)GTG>GTA	p.V1879V		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1879	Fibronectin type-III 5.|Laminin G-like 2.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CACCGCTGGACACAGATGCCA	0.468										HNSCC(13;0.011)			7	25					0	0	0.001984	0	0		T	216246578	T	T	216246578	2	4	58	1	0	0	0	0	0	0	0	1	17062	465	17	4		4	USH2A	1	216246578	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	345168	216246578	33004043	73	41063											
SPATA17	128153	broad.mit.edu	37	chr1	218036114	218036114	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttgaactttttcctcctAggatttccagactgtattac	8	18	5	10	0	1	2	0	1	1	1	4	3	4	3	3	1	2	1	3	1	4	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:218036114A>G	uc001hlh.1	+	10	1032	c.1006_splice	c.e10-2	p.D336_splice	SPATA17_uc001hli.2_Splice_Site_p.D336_splice	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17							cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		TTTTCCTCCTAGGATTTCCAG	0.303													33	101					0	0	0.003271	0	0		G	218036114	G	G	218036114	5	3	58	1	0	0	0	0	0	0	1	0	15027	434	15	3	1042	3	SPATA17	1	218036114	Splice_Site	SNP	A	TCGA-BR-8059-01A-11D-2340-08	1789536	218036114	31214507	74	41064											
TAF1A	9015	broad.mit.edu	37	chr1	222736624	222736624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacctccaaccccagtttacGgtgttcttctttttctgcaa	7	16	5	13	1	3	0	0	0	3	0	4	0	4	0	4	1	4	3	4	1	4	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:222736624G>A	uc009xdz.1	-	9	1165	c.976C>T	c.(976-978)CGT>TGT	p.R326C	TAF1A_uc009xdy.1_Missense_Mutation_p.R17C|TAF1A_uc001hni.1_Missense_Mutation_p.R212C|TAF1A_uc001hnj.2_Missense_Mutation_p.R326C|TAF1A_uc001hnk.2_Missense_Mutation_p.R212C	NM_139352	NP_647603	Q15573	TAF1A_HUMAN	TBP-associated factor 1A isoform 2	326					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	RNA polymerase I transcription factor complex	DNA binding				0				GBM - Glioblastoma multiforme(131;0.0186)		CCCAGTTTACGGTGTTCTTCT	0.313													8	27					0	0	0.00308	0	0		A	222736624	A	A	222736624	3	1	58	1	0	0	0	0	1	0	0	0	15544	1116	39	1	388	1	TAF1A	1	222736624	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4700510	222736624	26513997	75	41065											
DISP1	84976	broad.mit.edu	37	chr1	223177310	223177310	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttcattgagacattcaaAcagtggatggaaaaccagga	15	9	10	7	0	2	1	2	1	0	1	2	5	2	4	1	3	3	1	1	3	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:223177310A>G	uc001hnu.1	+	8	2718	c.2571A>G	c.(2569-2571)AAA>AAG	p.K857K		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	857					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		AGACATTCAAACAGTGGATGG	0.463													10	49					0	0	0.008291	0	0		G	223177310	G	G	223177310	2	3	58	1	0	0	0	0	0	0	0	1	4545	40	2	3		3	DISP1	1	223177310	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	440686	223177310	26073311	76	41066											
GJC2	57165	broad.mit.edu	37	chr1	228346215	228346215	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgccagccctgcccgcaCgtggtggactgcttcgtgtc	4	8	13	16	4	0	0	0	0	0	0	2	1	0	1	4	2	4	2	4	2	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:228346215C>T	uc001hsk.2	+	2	931	c.756C>T	c.(754-756)CAC>CAT	p.H252H		NM_020435	NP_065168	Q5T442	CXG2_HUMAN	gap junction protein, gamma 2, 47kDa	252	Extracellular (Potential).			H -> Q (in Ref. 1; AAB94511).	cell death	connexon complex|integral to membrane					0		Prostate(94;0.0405)				CCTGCCCGCACGTGGTGGACT	0.622													6	59					0	0	0.001984	0	0		T	228346215	T	T	228346215	2	4	58	1	0	0	0	0	0	0	0	1	6430	535	19	1		1	GJC2	1	228346215	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	5168905	228346215	20904406	77	41067											
HIST3H2BB	128312	broad.mit.edu	37	chr1	228646133	228646133	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcagacggccgttcgcctGctgctgcccggcgagctggc	3	7	16	15	5	0	1	0	0	0	1	1	2	0	1	3	3	5	5	3	3	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:228646133G>A	uc001hsz.2	+	1	326	c.303G>A	c.(301-303)CTG>CTA	p.L101L	HIST3H2A_uc001hsy.2_5'Flank	NM_175055	NP_778225	Q8N257	H2B3B_HUMAN	histone cluster 3, H2bb	101					nucleosome assembly	nucleosome|nucleus	DNA binding			skin(1)	1		Prostate(94;0.183)				CCGTTCGCCTGCTGCTGCCCG	0.652													11	76					0	0	0.008291	0	0		A	228646133	A	A	228646133	2	1	58	1	0	0	0	0	0	0	0	1	7199	1306	46	2		2	HIST3H2BB	1	228646133	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	299918	228646133	20604488	78	41068											
NUP133	55746	broad.mit.edu	37	chr1	229580678	229580678	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccatcttttaaaagtttcTgtaagatcttcacaaatata	15	16	3	7	0	4	1	1	0	3	1	4	1	4	1	1	0	1	2	1	0	7	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:229580678T>C	uc001htn.2	-	25	3409	c.3317A>G	c.(3316-3318)CAG>CGG	p.Q1106R		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	1106					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				TAAAAGTTTCTGTAAGATCTT	0.284													13	69					0	0	0.00245	0	0		C	229580678	C	C	229580678	3	2	58	1	0	0	0	0	1	0	0	0	10773	1580	55	3	161	3	NUP133	1	229580678	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	934545	229580678	19669943	79	41069											
NUP133	55746	broad.mit.edu	37	chr1	229593999	229593999	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggttttcttctttgcaaaGtaacgagtttccatatttgc	9	17	8	7	1	2	0	0	0	2	0	3	1	3	0	1	1	3	4	1	1	3	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:229593999G>C	uc001htn.2	-	21	2981	c.2889C>G	c.(2887-2889)TAC>TAG	p.Y963*	uc001hto.1_5'Flank	NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	963					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				TCTTTGCAAAGTAACGAGTTT	0.373													17	45					0	0	0.00499	0	0		C	229593999	C	C	229593999	4	2	58	1	0	0	0	0	0	1	0	0	10773	1024	36	5	605	5	NUP133	1	229593999	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	13321	229593999	19656622	80	41070											
RYR2	6262	broad.mit.edu	37	chr1	237872259	237872259	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaggcagctacggtggtgTctgaggaagaccacctgaaa	14	6	13	8	1	1	3	0	2	1	1	1	4	1	4	2	4	2	2	2	4	5	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:237872259T>C	uc001hyl.1	+	69	10123	c.10003T>C	c.(10003-10005)TCT>CCT	p.S3335P	RYR2_uc010pxz.1_Missense_Mutation_p.S290P	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3335					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TACGGTGGTGTCTGAGGAAGA	0.478													5	42					0	0	0.000602	0	0		C	237872259	C	C	237872259	3	2	58	1	0	0	0	0	1	0	0	0	13794	1667	58	3	10277	3	RYR2	1	237872259	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	8278260	237872259	11378362	81	41071											
EXO1	9156	broad.mit.edu	37	chr1	242015657	242015657	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgggatcaagcctattctCgtatttgatggatgtacttt	9	16	9	7	1	2	1	1	1	1	0	3	3	2	3	1	2	2	2	1	2	4	6	rs141548668		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:242015657C>T	uc001hzh.2	+	5	765	c.225C>T	c.(223-225)CTC>CTT	p.L75L	EXO1_uc001hzi.2_Silent_p.L75L|EXO1_uc001hzj.2_Silent_p.L75L|EXO1_uc009xgq.2_Silent_p.L75L	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	75	N-domain.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			AGCCTATTCTCGTATTTGATG	0.323								Direct_reversal_of_damage|Editing_and_processing_nucleases					24	149					0	0	0.002299	0	0		T	242015657	T	T	242015657	2	4	58	1	0	0	0	0	0	0	0	1	5308	871	31	1		1	EXO1	1	242015657	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4143398	242015657	7234964	82	41072											
SDCCAG8	10806	broad.mit.edu	37	chr1	243493858	243493858	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggctttaatccagtgtgAccagttgaggaaggagctgg	10	9	15	7	0	0	2	0	2	0	0	1	4	1	4	2	4	1	4	2	4	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:243493858A>C	uc001hzw.2	+	10	1241	c.1085A>C	c.(1084-1086)GAC>GCC	p.D362A	SDCCAG8_uc010pyk.1_Missense_Mutation_p.D217A|SDCCAG8_uc010pyl.1_Missense_Mutation_p.D174A|SDCCAG8_uc001hzx.2_Missense_Mutation_p.D174A	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	362	Potential.|Sufficient for homodimerization (By similarity).				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		ATCCAGTGTGACCAGTTGAGG	0.398													5	52					0	0	0.00308	0	0		C	243493858	C	C	243493858	3	2	58	1	0	0	0	0	1	0	0	0	13984	275	10	5	1123	5	SDCCAG8	1	243493858	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	1478201	243493858	5756763	83	41073											
KIF26B	55083	broad.mit.edu	37	chr1	245852058	245852058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcgagaacagcagctccGtgggcggcaggtgccggagc	8	3	18	12	5	0	1	0	0	0	1	1	4	1	2	2	4	6	3	2	4	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:245852058G>A	uc001ibf.1	+	12	6213	c.5773G>A	c.(5773-5775)GTG>ATG	p.V1925M	KIF26B_uc001ibg.1_Missense_Mutation_p.V1543M|KIF26B_uc001ibh.1_Missense_Mutation_p.V1167M	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1925					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CAGCAGCTCCGTGGGCGGCAG	0.721													4	26					0	0	0.000602	0	0		A	245852058	A	A	245852058	3	1	58	1	0	0	0	0	1	0	0	0	8311	1145	40	1	5819	1	KIF26B	1	245852058	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2358200	245852058	3398563	84	41074											
CNST	163882	broad.mit.edu	37	chr1	246810592	246810592	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggaccacatggaggagctGctctgcagcgctgaagccac	11	5	13	12	1	1	1	0	1	1	0	1	4	1	4	2	3	5	4	2	3	2	0	rs149614716	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:246810592G>A	uc001ibp.2	+	9	1467	c.1089G>A	c.(1087-1089)CTG>CTA	p.L363L	CNST_uc001ibo.3_Silent_p.L363L	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	363					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						TGGAGGAGCTGCTCTGCAGCG	0.597											OREG0014367	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	131					0	0	0.003163	0	0		A	246810592	A	A	246810592	2	1	58	1	0	0	0	0	0	0	0	1	3637	1306	46	2		2	CNST	1	246810592	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	958534	246810592	2440029	85	41075											
COLEC11	78989	broad.mit.edu	37	chr2	3691583	3691583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaacaagtggcgcagcGgtgagcccaacaatgcctac	11	6	10	14	2	1	1	1	1	0	0	1	1	1	1	3	2	6	1	3	2	5	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:3691583G>A	uc002qya.2	+	7	839	c.691G>A	c.(691-693)GGT>AGT	p.G231S	COLEC11_uc002qxz.2_Missense_Mutation_p.G228S|COLEC11_uc002qyb.2_Missense_Mutation_p.G207S|COLEC11_uc002qyc.2_Missense_Mutation_p.G207S|COLEC11_uc010ewo.2_Missense_Mutation_p.G183S|COLEC11_uc010ewp.2_Missense_Mutation_p.G205S|COLEC11_uc010ewq.2_Missense_Mutation_p.G181S|COLEC11_uc010ewr.2_Missense_Mutation_p.G181S|COLEC11_uc010ews.2_Missense_Mutation_p.G157S	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	231	C-type lectin.					collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		GTGGCGCAGCGGTGAGCCCAA	0.622													5	65					0	0	0.000602	0	0		A	3691583	A	A	3691583	3	1	58	1	0	0	0	0	1	0	0	0	3714	1116	39	1	796	1	COLEC11	2	3691583	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08		3691583	239507790	86	41076											
ADAM17	6868	broad.mit.edu	37	chr2	9666322	9666322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccaccaataatttacacGtgttcttcatgggatctggg	10	13	8	10	1	3	0	1	0	2	0	3	1	3	1	2	2	2	1	2	2	4	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:9666322G>A	uc002qzu.2	-	6	854	c.671C>T	c.(670-672)ACG>ATG	p.T224M	ADAM17_uc010ewy.2_Missense_Mutation_p.T224M|ADAM17_uc010ewz.2_Intron|ADAM17_uc010exa.2_5'Flank|ADAM17_uc010exb.1_3'UTR	NM_003183	NP_003174	P78536	ADA17_HUMAN	a disintegrin and metalloprotease domain 17	224	Peptidase M12B.|Extracellular (Potential).				B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			lung(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)		TAATTTACACGTGTTCTTCAT	0.373													23	91					0	0	0.003954	0	0		A	9666322	A	A	9666322	3	1	58	1	0	0	0	0	1	0	0	0	238	1145	40	1	1859	1	ADAM17	2	9666322	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	5974739	9666322	233533051	87	41077											
NCOA1	8648	broad.mit.edu	37	chr2	24928069	24928069	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcaaagtccagacatgcAacctttcatcatgggaattc	12	10	6	13	0	3	1	3	0	0	1	5	2	4	2	3	1	2	1	3	1	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:24928069A>C	uc002rfk.2	+	10	1322	c.1064A>C	c.(1063-1065)CAA>CCA	p.Q355P	NCOA1_uc010eye.2_Missense_Mutation_p.Q355P|NCOA1_uc002rfi.2_Missense_Mutation_p.Q204P|NCOA1_uc002rfj.2_Missense_Mutation_p.Q355P|NCOA1_uc002rfl.2_Missense_Mutation_p.Q355P	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	355									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCAGACATGCAACCTTTCATC	0.403			T	PAX3	alveolar rhadomyosarcoma								18	82					0	0	0.008871	0	0		C	24928069	C	C	24928069	3	2	58	1	0	0	0	0	1	0	0	0	10247	130	5	5	1094	5	NCOA1	2	24928069	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	15261747	24928069	218271304	88	41078											
CIB4	130106	broad.mit.edu	37	chr2	26864136	26864136	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatctacccacctggtacTcttccaggtcctcccagtgc	6	10	7	18	1	2	0	0	0	2	0	5	1	5	0	6	2	3	1	6	2	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:26864136T>A	uc002rhm.2	-	1	76	c.47A>T	c.(46-48)GAG>GTG	p.E16V		NM_001029881	NP_001025052	A0PJX0	CIB4_HUMAN	calcium and integrin binding family member 4	16							calcium ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CACCTGGTACTCTTCCAGGTC	0.542													28	120					0	0	0.009535	0	0		A	26864136	A	A	26864136	3	1	58	1	0	0	0	0	1	0	0	0	3426	1551	54	5	538	5	CIB4	2	26864136	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1936067	26864136	216335237	89	41079											
CDKL4	344387	broad.mit.edu	37	chr2	39411785	39411785	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagaacttttcctcaagagTttcctgaaaaacaaggttaa	15	12	7	7	0	1	3	1	2	0	2	3	4	3	3	2	1	2	2	2	1	6	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:39411785T>C	uc002rrm.2	-	7	739	c.739A>G	c.(739-741)ACT>GCT	p.T247A	CDKL4_uc010fal.1_Missense_Mutation_p.T247A	NM_001009565	NP_001009565	Q5MAI5	CDKL4_HUMAN	cyclin-dependent kinase-like 4	247	Protein kinase.					cytoplasm	ATP binding|cyclin-dependent protein kinase activity			ovary(1)	1		all_hematologic(82;0.248)				TCCTCAAGAGTTTCCTGAAAA	0.224													4	24					0	0	0.009096	0	0		C	39411785	C	C	39411785	3	2	58	1	0	0	0	0	1	0	0	0	3159	1725	60	3	216	3	CDKL4	2	39411785	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	12547649	39411785	203787588	90	41080											
TSPYL6	388951	broad.mit.edu	37	chr2	54483113	54483113	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgggatcctggggcgcgAccccctcctctggaagccgg	4	6	15	16	4	1	0	0	0	1	0	3	3	3	2	5	5	2	0	5	5	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:54483113A>G	uc002rxr.2	-	1	297	c.176T>C	c.(175-177)GTC>GCC	p.V59A	ACYP2_uc002rxq.3_Intron	NM_001003937	NP_001003937	Q8N831	TSYL6_HUMAN	TSPY-like 6	59					nucleosome assembly	nucleus					0						CTGGGGCGCGACCCCCTCCTC	0.597													13	60					0	0	0.001368	0	0		G	54483113	G	G	54483113	3	3	58	1	0	0	0	0	1	0	0	0	16689	275	10	3	1060	3	TSPYL6	2	54483113	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	15071328	54483113	188716260	91	41081											
ANKRD53	79998	broad.mit.edu	37	chr2	71209753	71209753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacaagaaggactttgccCgtgagatgacgaaaatgaag	16	6	13	6	2	0	4	0	3	0	2	0	8	0	6	1	2	1	0	1	2	5	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:71209753C>T	uc002shl.3	+	5	1030	c.829C>T	c.(829-831)CGT>TGT	p.R277C	ANKRD53_uc002shk.3_Missense_Mutation_p.R277C|ANKRD53_uc002shm.3_Missense_Mutation_p.R188C	NM_001115116	NP_001108588	Q8N9V6	ANR53_HUMAN	ankyrin repeat domain 53 isoform a	277											0						GGACTTTGCCCGTGAGATGAC	0.537													14	54					0	0	0.001855	0	0		T	71209753	T	T	71209753	3	4	58	1	0	0	0	0	1	0	0	0	679	652	23	1	847	1	ANKRD53	2	71209753	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	16726640	71209753	171989620	92	41082											
DQX1	165545	broad.mit.edu	37	chr2	74746867	74746867	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggcaccaagcctcatctGctccacctaggagaggaaag	11	6	10	14	0	2	1	1	0	1	1	3	3	3	2	5	3	2	2	5	3	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:74746867G>C	uc010yrw.1	-	10	1787	c.1622C>G	c.(1621-1623)GCA>GGA	p.A541G	DQX1_uc002smc.2_Missense_Mutation_p.A102G	NM_133637	NP_598376	Q8TE96	DQX1_HUMAN	DEAQ box polypeptide 1 (RNA-dependent ATPase)	541						nucleus	ATP binding|helicase activity|nucleic acid binding			ovary(2)	2						AGCCTCATCTGCTCCACCTAG	0.507													12	52					0	0	0.000978	0	0		C	74746867	C	C	74746867	3	2	58	1	0	0	0	0	1	0	0	0	4757	1319	46	5	543	5	DQX1	2	74746867	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3537114	74746867	168452506	93	41083											
LRRTM4	80059	broad.mit.edu	37	chr2	77746530	77746530	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaatgatgagtttccgaagGcctttaaattgttcagattg	13	14	9	5	1	1	3	1	2	0	1	2	4	2	3	2	1	0	2	2	1	5	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:77746530G>A	uc002snr.2	-	3	880	c.465C>T	c.(463-465)GGC>GGT	p.G155G	LRRTM4_uc002snq.2_Silent_p.G155G|LRRTM4_uc002sns.2_Silent_p.G155G|LRRTM4_uc002snt.2_Silent_p.G156G	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	155	LRR 4.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GTTTCCGAAGGCCTTTAAATT	0.393													10	46					0	0	0.006214	0	0		A	77746530	A	A	77746530	2	1	58	1	0	0	0	0	0	0	0	1	9060	1190	42	2		2	LRRTM4	2	77746530	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2999663	77746530	165452843	94	41084											
REG1B	5968	broad.mit.edu	37	chr2	79312400	79312400	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaagattcatccttccatTtcttgaatcctatggtacaa	12	14	4	11	0	2	2	1	1	1	1	5	2	5	2	3	1	1	1	3	1	5	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:79312400T>G	uc002sny.2	-	6	555	c.443A>C	c.(442-444)AAA>ACA	p.K148T		NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	148	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						ATCCTTCCATTTCTTGAATCC	0.403													7	28					0	0	0.001984	0	0		G	79312400	G	G	79312400	3	3	58	1	0	0	0	0	1	0	0	0	13236	1841	64	5	61	5	REG1B	2	79312400	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1565870	79312400	163886973	95	41085											
POLR1A	25885	broad.mit.edu	37	chr2	86315779	86315779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgtgttcctttcggacaaCggatcgcccggtcctgtgca	5	12	12	12	4	0	0	0	0	0	0	4	2	2	2	3	3	2	3	3	3	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:86315779C>T	uc002sqs.2	-	6	1019	c.640G>A	c.(640-642)GTT>ATT	p.V214I	POLR1A_uc002sqv.2_Missense_Mutation_p.V214I	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	214					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						TTTCGGACAACGGATCGCCCG	0.512													11	41					0	0	0.001368	0	0		T	86315779	T	T	86315779	3	4	58	1	0	0	0	0	1	0	0	0	12228	536	19	1	4638	1	POLR1A	2	86315779	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	7003379	86315779	156883594	96	41086											
SLC9A2	6549	broad.mit.edu	37	chr2	103281692	103281692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcttcttgggctttatagCggcatttactactcgattca	8	16	7	10	2	3	0	1	0	2	0	4	1	3	0	0	2	3	2	0	2	4	9			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:103281692C>T	uc002tca.2	+	3	1029	c.887C>T	c.(886-888)GCG>GTG	p.A296V		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	296	Helical; Name=H/M6; (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						GGCTTTATAGCGGCATTTACT	0.433													8	115					0	0	0.00308	0	0		T	103281692	T	T	103281692	3	4	58	1	0	0	0	0	1	0	0	0	14737	768	27	1	897	1	SLC9A2	2	103281692	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	16965913	103281692	139917681	97	41087											
PSD4	23550	broad.mit.edu	37	chr2	113953852	113953852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagcagggcatcctggctcGgaaaatgcatcaagatgcag	13	6	12	10	1	1	1	1	0	0	1	3	2	2	2	1	3	3	5	1	3	4	0	rs139776921	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:113953852G>A	uc002tjc.2	+	12	2537	c.2354G>A	c.(2353-2355)CGG>CAG	p.R785Q	PSD4_uc002tjd.2_Missense_Mutation_p.R406Q|PSD4_uc002tje.2_Missense_Mutation_p.R756Q|PSD4_uc002tjf.2_Missense_Mutation_p.R406Q|PSD4_uc002tjg.2_5'Flank|PSD4_uc010yxs.1_5'Flank|PSD4_uc002tjh.2_5'Flank	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	785	PH.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						ATCCTGGCTCGGAAAATGCAT	0.607													7	26					0	0	0.001984	0	0		A	113953852	A	A	113953852	3	1	58	1	0	0	0	0	1	0	0	0	12671	1116	39	1	2396	1	PSD4	2	113953852	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	10672160	113953852	129245521	98	41088											
RAB6C	84084	broad.mit.edu	37	chr2	130738406	130738406	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgaaccttttcccttcaTtaataacgttttgcaattca	10	17	4	10	1	2	1	2	1	0	0	3	1	3	1	2	0	3	3	2	0	4	9			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:130738406T>C	uc002tpx.1	+	1	1172	c.718T>C	c.(718-720)TTA>CTA	p.L240L	uc002tpw.1_5'Flank	NM_032144	NP_115520	Q9H0N0	RAB6C_HUMAN	RAB6C, member RAS oncogene family	240					protein transport|response to drug|small GTPase mediated signal transduction		GTP binding|GTPase activity			lung(1)	1	Colorectal(110;0.1)					TTTCCCTTCATTAATAACGTT	0.403													12	73					0	0	0.008871	0	0		C	130738406	C	C	130738406	2	2	58	1	0	0	0	0	0	0	0	1	12978	1490	52	3		3	RAB6C	2	130738406	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	16784554	130738406	112460967	99	41089											
THSD7B	80731	broad.mit.edu	37	chr2	137872832	137872832	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtactgtgcccagagcgtAccagcagctgccgcactgag	8	7	13	13	2	0	2	0	1	0	1	0	2	0	2	3	0	7	5	3	0	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:137872832A>T	uc002tva.1	+	4	1245	c.1245A>T	c.(1243-1245)GTA>GTT	p.V415V	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Silent_p.V305V	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CCCAGAGCGTACCAGCAGCTG	0.612													4	21					0	0	0.009096	0	0		T	137872832	T	T	137872832	2	4	58	1	0	0	0	0	0	0	0	1	15905	378	14	5		5	THSD7B	2	137872832	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	7134426	137872832	105326541	100	41090											
LRP1B	53353	broad.mit.edu	37	chr2	141260572	141260572	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaaaggtgcttcatcagaAtggtcaggacagtcaaagtc	13	11	10	7	0	4	1	4	0	0	1	5	2	4	2	0	3	1	1	0	3	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:141260572A>T	uc002tvj.1	-	54	9594	c.8622T>A	c.(8620-8622)CAT>CAA	p.H2874Q		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2874	Extracellular (Potential).|LDL-receptor class A 19.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CTTCATCAGAATGGTCAGGAC	0.388										TSP Lung(27;0.18)			14	78					0	0	0.00245	0	0		T	141260572	T	T	141260572	3	4	58	1	0	0	0	0	1	0	0	0	8973	98	4	5	5329	5	LRP1B	2	141260572	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	3387740	141260572	101938801	101	41091											
ZEB2	9839	broad.mit.edu	37	chr2	145156151	145156152	+	Missense_Mutation	DNP	TC	AA	AA																															gattatttgaatttgaaaatTccttcttgataaaagtcaag																										TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:145156151_145156152TC>AA	uc002tvu.2	-	8	3082_3083	c.2602_2603GA>TT	c.(2602-2604)GAA>TTA	p.E868L	ZEB2_uc002tvv.2_Missense_Mutation_p.E862L|ZEB2_uc010zbm.1_Missense_Mutation_p.E839L|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.E897L	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	868						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		ATTTGAAAATTCCTTCTTGATA	0.371													15	73					0	0	0.004672	0	0		AA	145156152	AA	AA	145156151	3	1	58	1	0	0	0	0	1	0	0	0	17649	1783	62	5	1053	5	ZEB2	2	145156151	Missense_Mutation	DNP	TC	TCGA-BR-8059-01A-11D-2340-08	3895579	145156151	98043222	102	41092											
MBD5	55777	broad.mit.edu	37	chr2	149240713	149240713	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatcctccatagccatagcGggcaccaaccaccctgccat	10	7	6	18	1	1	0	1	0	0	0	3	0	3	0	7	1	4	1	7	1	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:149240713G>A	uc002twm.3	+	10	3541	c.2553G>A	c.(2551-2553)GCG>GCA	p.A851A	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Silent_p.A851A|MBD5_uc002two.2_5'Flank|MBD5_uc002twp.2_5'Flank	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	851						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		TAGCCATAGCGGGCACCAACC	0.453													15	109					0	0	0.00245	0	0		A	149240713	A	A	149240713	2	1	58	1	0	0	0	0	0	0	0	1	9365	1103	39	1		1	MBD5	2	149240713	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4084562	149240713	93958660	103	41093											
RIF1	55183	broad.mit.edu	37	chr2	152293810	152293810	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttttccaaacatgcaaaTacacttatcactgctgttca	12	16	3	10	0	2	0	2	0	0	0	3	0	3	0	1	0	4	3	1	0	4	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:152293810T>C	uc002txm.2	+	13	1558	c.1428T>C	c.(1426-1428)AAT>AAC	p.N476N	RIF1_uc002txl.2_Silent_p.N476N|RIF1_uc010fnv.1_Silent_p.N440N|RIF1_uc002txn.2_Silent_p.N476N|RIF1_uc002txo.2_Silent_p.N476N|RIF1_uc010zby.1_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	476					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		AACATGCAAATACACTTATCA	0.343													15	91					0	0	0.003163	0	0		C	152293810	C	C	152293810	2	2	58	1	0	0	0	0	0	0	0	1	13384	1403	49	3		3	RIF1	2	152293810	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	3053097	152293810	90905563	104	41094											
GPD2	2820	broad.mit.edu	37	chr2	157370007	157370007	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcaattgtctactatgaCggtatgtgatgttttttttt	8	19	10	4	1	1	2	0	2	1	0	1	3	1	3	0	2	2	3	0	2	4	8	rs115712695	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:157370007C>T	uc002tzf.3	+	6	1020	c.660C>T	c.(658-660)GAC>GAT	p.D220D	GPD2_uc010zch.1_Intron|GPD2_uc002tzd.3_Silent_p.D220D|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	220					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						TCTACTATGACGGTATGTGAT	0.368													10	57					0	0	0.006214	0	0		T	157370007	T	T	157370007	2	4	58	1	0	0	0	0	0	0	0	1	6621	550	19	1		1	GPD2	2	157370007	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	5076197	157370007	85829366	105	41095											
COBLL1	22837	broad.mit.edu	37	chr2	165548759	165548759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttggcagcagcctctcccGaacggattgcagtcagcaaa	11	8	10	12	2	2	0	1	0	1	0	3	2	2	1	2	2	5	4	2	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:165548759G>A	uc010zcw.1	-	16	3711	c.3587C>T	c.(3586-3588)TCG>TTG	p.S1196L	COBLL1_uc002ucp.2_Missense_Mutation_p.S1129L|COBLL1_uc002ucq.2_Missense_Mutation_p.S1091L|COBLL1_uc010zcx.1_Missense_Mutation_p.S1137L|COBLL1_uc002ucn.2_Missense_Mutation_p.S557L|COBLL1_uc002uco.2_Missense_Mutation_p.S860L	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	1167	WH2.									ovary(2)|pancreas(1)	3						AGCCTCTCCCGAACGGATTGC	0.428													8	40					0	0	0.00308	0	0		A	165548759	A	A	165548759	3	1	58	1	0	0	0	0	1	0	0	0	3657	1059	37	1	122	1	COBLL1	2	165548759	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	8178752	165548759	77650614	106	41096											
TTC21B	79809	broad.mit.edu	37	chr2	166767931	166767931	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaggtcatagcaaagataAttcttttgtccagttttcag	11	14	8	8	0	3	1	2	0	1	1	4	1	4	1	2	1	1	2	2	1	3	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:166767931A>G	uc002udk.2	-	18	2500	c.2367T>C	c.(2365-2367)AAT>AAC	p.N789N		NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	789	TPR 10.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						AGCAAAGATAATTCTTTTGTC	0.378													10	73					0	0	0.008291	0	0		G	166767931	G	G	166767931	2	3	58	1	0	0	0	0	0	0	0	1	16714	98	4	3		3	TTC21B	2	166767931	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	1219172	166767931	76431442	107	41097											
XIRP2	129446	broad.mit.edu	37	chr2	168104263	168104263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaatctgctggtaaaaccGttggaaagcaacagacatat	15	9	8	9	1	1	1	0	0	1	1	2	2	2	2	2	2	4	4	2	2	6	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:168104263G>A	uc002udx.2	+	8	6379	c.6361G>A	c.(6361-6363)GTT>ATT	p.V2121I	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.V1946I|XIRP2_uc010fpq.2_Missense_Mutation_p.V1899I|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1946					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TGGTAAAACCGTTGGAAAGCA	0.353													10	58					0	0	0.008291	0	0		A	168104263	A	A	168104263	3	1	58	1	0	0	0	0	1	0	0	0	17456	1145	40	1	6391	1	XIRP2	2	168104263	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1336332	168104263	75095110	108	41098											
ABCB11	8647	broad.mit.edu	37	chr2	169826018	169826018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatctgcagctctgaccgtaGacaagcgatgagcaactgaa	13	8	10	10	2	2	4	0	3	2	1	2	5	2	4	1	0	5	4	1	0	5	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:169826018G>A	uc002ueo.1	-	16	1979	c.1853C>T	c.(1852-1854)TCT>TTT	p.S618F	ABCB11_uc010zda.1_Missense_Mutation_p.S60F|ABCB11_uc010zdb.1_Missense_Mutation_p.S94F	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	618	Cytoplasmic (Potential).|ABC transporter 1.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	TCTGACCGTAGACAAGCGATG	0.443													3	25					0	0	0.004672	0	0		A	169826018	A	A	169826018	3	1	58	1	0	0	0	0	1	0	0	0	42	942	33	4	2164	4	ABCB11	2	169826018	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1721755	169826018	73373355	109	41099											
LRP2	4036	broad.mit.edu	37	chr2	170083054	170083054	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggattaagggagattcCaaaaattatatgttgcctta	14	13	8	6	0	1	1	1	0	0	1	2	3	2	2	2	2	1	1	2	2	6	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:170083054C>G	uc002ues.2	-	32	5485	c.5272G>C	c.(5272-5274)GGA>CGA	p.G1758R		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1758	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AGGGAGATTCCAAAAATTATA	0.358													6	55					0	0	0.001168	0	0		G	170083054	G	G	170083054	3	3	58	1	0	0	0	0	1	0	0	0	8974	603	21	5	8887	5	LRP2	2	170083054	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	257036	170083054	73116319	110	41100											
TTN	7273	broad.mit.edu	37	chr2	179411492	179411492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagttgcacttcagccagcGaccatctcctacctcactga	9	10	7	15	1	3	1	2	1	1	0	4	2	3	1	4	0	4	3	4	0	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179411492G>A	uc010zfg.1	-	290	87183	c.86959C>T	c.(86959-86961)CGC>TGC	p.R28987C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R22682C|TTN_uc010zfi.1_Missense_Mutation_p.R22615C|TTN_uc010zfj.1_Missense_Mutation_p.R22490C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29914							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCAGCCAGCGACCATCTCCT	0.488													7	50					0	0	0.004482	0	0		A	179411492	A	A	179411492	3	1	58	1	0	0	0	0	1	0	0	0	16761	1058	37	1	13404	1	TTN	2	179411492	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	9328438	179411492	63787881	111	41101											
TTN	7273	broad.mit.edu	37	chr2	179415859	179415859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagttgcatctcacccagcGttcatttccttgccgtttct	7	15	6	13	2	3	0	2	0	2	0	5	0	4	0	3	0	3	4	3	0	1	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179415859G>A	uc010zfg.1	-	285	83919	c.83695C>T	c.(83695-83697)CGC>TGC	p.R27899C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R21594C|TTN_uc010zfi.1_Missense_Mutation_p.R21527C|TTN_uc010zfj.1_Missense_Mutation_p.R21402C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28826							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.R21402C(1)|p.R27897C(1)		ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTCACCCAGCGTTCATTTCCT	0.463													7	28					0	0	0.001984	0	0		A	179415859	A	A	179415859	3	1	58	1	0	0	0	0	1	0	0	0	16761	1145	40	1	16688	1	TTN	2	179415859	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4367	179415859	63783514	112	41102											
TTN	7273	broad.mit.edu	37	chr2	179440722	179440722	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggttgatgttatctttGgtccatgtcacttcaggagc	7	16	10	8	0	4	1	3	1	1	0	5	2	5	2	1	3	1	2	1	3	1	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179440722G>A	uc010zfg.1	-	275	62657	c.62433C>T	c.(62431-62433)ACC>ACT	p.T20811T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.T14506T|TTN_uc010zfi.1_Silent_p.T14439T|TTN_uc010zfj.1_Silent_p.T14314T|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21738							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGTTATCTTTGGTCCATGTCA	0.398													22	115					0	0	0.00333	0	0		A	179440722	A	A	179440722	2	1	58	1	0	0	0	0	0	0	0	1	16761	1335	47	4		4	TTN	2	179440722	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	24863	179440722	63758651	113	41103											
TTN	7273	broad.mit.edu	37	chr2	179454276	179454276	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtcaaccatgtagtgagTttctttaatgcttcctttat	8	19	6	8	0	3	1	1	1	2	0	4	1	4	1	2	0	2	3	2	0	4	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179454276T>A	uc010zfg.1	-	253	54696	c.54472A>T	c.(54472-54474)ACT>TCT	p.T18158S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T11853S|TTN_uc010zfi.1_Missense_Mutation_p.T11786S|TTN_uc010zfj.1_Missense_Mutation_p.T11661S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19085							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGTAGTGAGTTTCTTTAATG	0.428													19	60					0	0	0.006122	0	0		A	179454276	A	A	179454276	3	1	58	1	0	0	0	0	1	0	0	0	16761	1725	60	5	46039	5	TTN	2	179454276	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	13554	179454276	63745097	114	41104											
TTN	7273	broad.mit.edu	37	chr2	179481230	179481230	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtccatgttttccggctgacTtctcgtttttcaacaacgta	7	16	7	11	3	2	1	1	1	1	0	5	1	4	1	2	1	2	4	2	1	3	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179481230T>G	uc010zfg.1	-	206	40808	c.40584A>C	c.(40582-40584)GAA>GAC	p.E13528D	TTN_uc010zfh.1_Missense_Mutation_p.E7223D|TTN_uc010zfi.1_Missense_Mutation_p.E7156D|TTN_uc010zfj.1_Missense_Mutation_p.E7031D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14455							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCCGGCTGACTTCTCGTTTTT	0.433													21	120					0	0	0.008871	0	0		G	179481230	G	G	179481230	3	3	58	1	0	0	0	0	1	0	0	0	16761	1606	56	5	59829	5	TTN	2	179481230	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	26954	179481230	63718143	115	41105											
TTN	7273	broad.mit.edu	37	chr2	179592042	179592042	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcattcaagtcgtgaagAgtcacctgctttcacaattt	10	14	7	10	1	3	2	3	1	0	1	4	2	3	2	1	0	2	2	1	0	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179592042A>G	uc010zfg.1	-	66	16542	c.16318T>C	c.(16318-16320)TCT>CCT	p.S5440P	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S2101P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6367							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGTCGTGAAGAGTCACCTGCT	0.408													7	24					0	0	0.00308	0	0		G	179592042	G	G	179592042	3	3	58	1	0	0	0	0	1	0	0	0	16761	304	11	3	84655	3	TTN	2	179592042	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	110812	179592042	63607331	116	41106											
TTN	7273	broad.mit.edu	37	chr2	179596518	179596518	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctacaaacttgaggatcTgcaggctaaccagatgatcc	13	8	9	11	0	1	3	0	2	1	1	2	4	2	4	2	2	5	3	2	2	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179596518T>C	uc010zfg.1	-	55	13576	c.13352A>G	c.(13351-13353)CAG>CGG	p.Q4451R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.Q1112R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5378							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTGAGGATCTGCAGGCTAAC	0.488													21	87					0	0	0.010504	0	0		C	179596518	C	C	179596518	3	2	58	1	0	0	0	0	1	0	0	0	16761	1580	55	3	87665	3	TTN	2	179596518	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	4476	179596518	63602855	117	41107											
ZNF804A	91752	broad.mit.edu	37	chr2	185800571	185800571	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgagagaaaactgtaatGaaatttcccaacgagttgtt	14	12	9	6	1	0	3	0	2	0	1	1	5	1	3	1	0	2	3	1	0	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:185800571G>T	uc002uph.2	+	4	1042	c.448G>T	c.(448-450)GAA>TAA	p.E150*		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	150						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						AAACTGTAATGAAATTTCCCA	0.373													13	52					9.31168e-06	1.01266e-05	0.001855	1	0		T	185800571	T	T	185800571	4	4	58	1	0	0	0	0	0	1	0	0	18195	1291	45	5	462	5	ZNF804A	2	185800571	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	6204053	185800571	57398802	118	41108											
ANKAR	150709	broad.mit.edu	37	chr2	190602494	190602494	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttaatattggaaagtggaaTaatgaccatatctatttttg	14	16	7	4	0	1	1	0	1	1	0	1	3	1	3	1	2	0	0	1	2	7	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:190602494T>C	uc002uqw.1	+	17	3296	c.3296T>C	c.(3295-3297)ATA>ACA	p.I1099T	ANKAR_uc002uqu.2_RNA|ANKAR_uc002uqx.1_RNA|ANKAR_uc002uqy.1_Missense_Mutation_p.I266T	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	1170						integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			GAAAGTGGAATAATGACCATA	0.323													7	30					0	0	0.001984	0	0		C	190602494	C	C	190602494	3	2	58	1	0	0	0	0	1	0	0	0	623	1406	49	3	3575	3	ANKAR	2	190602494	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	4801923	190602494	52596879	119	41109											
HECW2	57520	broad.mit.edu	37	chr2	197157452	197157452	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgcttcaaacacgtgttgTttgtaaacatgcggtaggca	10	13	11	7	2	1	0	1	0	0	0	1	0	1	0	0	2	4	6	0	2	4	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:197157452T>C	uc002utm.1	-	14	3020	c.2837A>G	c.(2836-2838)AAC>AGC	p.N946S	HECW2_uc002utl.1_Missense_Mutation_p.N590S	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	946	Interaction with TP73.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						ACACGTGTTGTTTGTAAACAT	0.468													5	23					0	0	0.001168	0	0		C	197157452	C	C	197157452	3	2	58	1	0	0	0	0	1	0	0	0	7059	1725	60	3	1945	3	HECW2	2	197157452	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	6554958	197157452	46041921	120	41110											
MAP2	4133	broad.mit.edu	37	chr2	210559927	210559927	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaataccaacagatgcatcCtctgagaaagcagagaaggg	16	6	10	9	0	2	3	1	1	1	3	3	5	3	3	2	1	4	2	2	1	5	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:210559927C>T	uc002vde.1	+	7	3281	c.3033C>T	c.(3031-3033)TCC>TCT	p.S1011S	MAP2_uc002vdc.1_Silent_p.S1011S|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.S1007S	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1011					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CAGATGCATCCTCTGAGAAAG	0.443													16	65					0	0	0.004007	0	0		T	210559927	T	T	210559927	2	4	58	1	0	0	0	0	0	0	0	1	9253	668	24	4		4	MAP2	2	210559927	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	13402475	210559927	32639446	121	41111											
BARD1	580	broad.mit.edu	37	chr2	215593476	215593476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggagccttccagactttgCcctgccgaaccctctctggg	7	9	10	15	1	1	1	0	0	1	1	3	3	2	2	5	2	4	0	5	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:215593476C>T	uc002veu.2	-	11	2393	c.2258G>A	c.(2257-2259)GGC>GAC	p.G753D	BARD1_uc010zjm.1_3'UTR	NM_000465	NP_000456	Q99728	BARD1_HUMAN	BRCA1 associated RING domain 1	753	BRCT 2.				cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		CCAGACTTTGCCCTGCCGAAC	0.453									Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				5	36					0	0	0.001168	0	0		T	215593476	T	T	215593476	3	4	58	1	0	0	0	0	1	0	0	0	1313	739	26	2	79	2	BARD1	2	215593476	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	5033549	215593476	27605897	122	41112											
ABCA12	26154	broad.mit.edu	37	chr2	215896544	215896544	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagaaataaacaaagacttaCtgtgcagccagactgcttgg	15	9	9	8	0	0	3	0	0	0	3	0	3	0	3	1	1	5	2	1	1	6	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:215896544C>G	uc002vew.2	-	9	1281	c.1061_splice	c.e9+1	p.Q354_splice	ABCA12_uc002vev.2_Intron|ABCA12_uc010zjn.1_Splice_Site	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12						cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		CAAAGACTTACTGTGCAGCCA	0.343													14	68					0	0	0.00245	0	0		G	215896544	G	G	215896544	5	3	58	1	0	0	0	0	0	0	1	0	30	579	20	5	6905	5	ABCA12	2	215896544	Splice_Site	SNP	C	TCGA-BR-8059-01A-11D-2340-08	303068	215896544	27302829	123	41113											
C2orf62	375307	broad.mit.edu	37	chr2	219222808	219222808	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacagcacagccaagactTcatcaaggtacttcccaggg	13	6	10	12	0	2	1	2	0	0	1	3	2	3	2	2	3	4	2	2	3	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:219222808T>C	uc002vhr.2	+	4	397	c.368T>C	c.(367-369)TTC>TCC	p.F123S	C2orf62_uc002vhs.2_RNA	NM_198559	NP_940961	Q7Z7H3	CB062_HUMAN	hypothetical protein LOC375307	123											0		Renal(207;0.0915)		Epithelial(149;8.08e-07)|all cancers(144;0.000146)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGCCAAGACTTCATCAAGGTA	0.512													9	53					0	0	0.008291	0	0		C	219222808	C	C	219222808	3	2	58	1	0	0	0	0	1	0	0	0	2184	1783	62	3	382	3	C2orf62	2	219222808	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	3326264	219222808	23976565	124	41114											
PLCD4	84812	broad.mit.edu	37	chr2	219480484	219480484	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgtccctgctgcaagacCgtgagtgccggggcccctgc	4	7	15	15	3	0	2	0	1	0	1	1	2	1	2	5	3	4	2	5	3	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:219480484C>T	uc002vij.1	+	2	217	c.22C>T	c.(22-24)CAG>TAG	p.Q8*	PLCD4_uc010zkj.1_Missense_Mutation_p.L8F	NM_032726	NP_116115	Q9BRC7	PLCD4_HUMAN	phospholipase C, delta 4	8					intracellular signal transduction|lipid catabolic process	endoplasmic reticulum|membrane|nucleus	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)	3		Renal(207;0.0915)		Epithelial(149;5.11e-07)|all cancers(144;0.000104)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		GCTGCAAGACCGTGAGTGCCG	0.597													7	33					0	0	0.00308	0	0		T	219480484	T	T	219480484	4	4	58	1	0	0	0	0	0	1	0	0	12052	666	23	1	24	1	PLCD4	2	219480484	Nonsense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	257676	219480484	23718889	125	41115											
TMEM198	130612	broad.mit.edu	37	chr2	220412635	220412635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgccgctgactacttcGccgagctgctactgctgggg	5	9	12	15	3	0	1	0	1	0	0	1	2	0	1	3	2	6	4	3	2	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:220412635G>A	uc002vme.2	+	4	1159	c.574G>A	c.(574-576)GCC>ACC	p.A192T	TMEM198_uc002vmf.2_Missense_Mutation_p.A192T	NM_001005209	NP_001005209	Q66K66	TM198_HUMAN	transmembrane protein 198	192	Helical; (Potential).|Leu-rich.					integral to membrane				ovary(1)	1		Renal(207;0.0376)		Epithelial(149;6.49e-08)|all cancers(144;6.45e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		TGACTACTTCGCCGAGCTGCT	0.701													3	10					0	0	0.004672	0	0		A	220412635	A	A	220412635	3	1	58	1	0	0	0	0	1	0	0	0	16144	1087	38	1	580	1	TMEM198	2	220412635	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	932151	220412635	22786738	126	41116											
PAX3	5077	broad.mit.edu	37	chr2	223086046	223086046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggaatgagatggttgaaagCcatcagttgattggccccag	11	9	14	7	0	1	3	1	3	0	1	1	5	1	4	3	3	1	2	3	3	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:223086046C>T	uc010fwo.2	-	6	1219	c.853G>A	c.(853-855)GCT>ACT	p.A285T	PAX3_uc002vmt.1_Missense_Mutation_p.A285T|PAX3_uc002vmy.1_Missense_Mutation_p.A284T|PAX3_uc002vmv.1_Missense_Mutation_p.A285T|PAX3_uc002vmw.1_Missense_Mutation_p.A285T|PAX3_uc002vmx.1_Missense_Mutation_p.A285T	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	285					apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGGTTGAAAGCCATCAGTTGA	0.502			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						30	130					0	0	0.009535	0	0		T	223086046	T	T	223086046	3	4	58	1	0	0	0	0	1	0	0	0	11499	739	26	2	712	2	PAX3	2	223086046	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2673411	223086046	20113327	127	41117											
SGPP2	130367	broad.mit.edu	37	chr2	223339343	223339343	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactattacctattccaattTtcagctgctttgggccaaga	10	15	6	10	0	1	1	1	0	0	1	2	1	2	1	3	1	4	2	3	1	6	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:223339343T>G	uc010zlo.1	+	2	276	c.276T>G	c.(274-276)TTT>TTG	p.F92L	SGPP2_uc010zlp.1_5'UTR	NM_152386	NP_689599	Q8IWX5	SGPP2_HUMAN	sphingosine-1-phosphate phosphotase 2	92	Helical; (Potential).				sphingosine metabolic process	endoplasmic reticulum membrane|integral to membrane	dihydrosphingosine-1-phosphate phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)|skin(1)	2		Renal(207;0.0376)		Epithelial(121;2.08e-09)|all cancers(144;9.25e-07)|LUSC - Lung squamous cell carcinoma(224;0.011)|Lung(261;0.0143)		TATTCCAATTTTCAGCTGCTT	0.368													17	85					0	0	0.00499	0	0		G	223339343	G	G	223339343	3	3	58	1	0	0	0	0	1	0	0	0	14245	1838	64	5	282	5	SGPP2	2	223339343	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	253297	223339343	19860030	128	41118											
COL6A3	1293	broad.mit.edu	37	chr2	238280823	238280823	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcaggaactccaccttgggGtcatcgctgaactggatgac	10	8	12	11	1	1	2	1	2	0	0	3	4	2	4	2	4	3	2	2	4	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:238280823G>C	uc002vwl.2	-	9	4122	c.3837C>G	c.(3835-3837)GAC>GAG	p.D1279E	COL6A3_uc002vwo.2_Missense_Mutation_p.D1073E|COL6A3_uc010znj.1_Missense_Mutation_p.D672E|COL6A3_uc002vwq.2_Missense_Mutation_p.D1073E|COL6A3_uc002vwr.2_Missense_Mutation_p.D872E	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1279	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CCACCTTGGGGTCATCGCTGA	0.602													10	17					0	0	0.006214	0	0		C	238280823	C	C	238280823	3	2	58	1	0	0	0	0	1	0	0	0	3704	1252	44	5	5887	5	COL6A3	2	238280823	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	14941480	238280823	4918550	129	41119											
SRGAP3	9901	broad.mit.edu	37	chr3	9027389	9027389	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggacagggctggcttgaaGgtggtcatcatctcggtgga	7	9	17	8	2	3	1	2	1	1	0	4	3	3	3	0	7	0	2	0	7	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:9027389G>A	uc003brf.1	-	22	3790	c.3114C>T	c.(3112-3114)ACC>ACT	p.T1038T	SRGAP3_uc003brg.1_Silent_p.T1014T	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	1038					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		CTGGCTTGAAGGTGGTCATCA	0.721			T	RAF1	pilocytic astrocytoma								9	23					0	0	0.006214	0	0		A	9027389	A	A	9027389	2	1	58	1	0	0	0	0	0	0	0	1	15172	987	35	4		4	SRGAP3	3	9027389	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08		9027389	188995041	130	41120											
SRGAP3	9901	broad.mit.edu	37	chr3	9074409	9074409	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctaggtctcctcattttCtgtggtttagggggaagaca	7	13	13	8	0	3	1	1	0	2	1	4	2	3	2	2	5	0	1	2	5	3	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:9074409C>A	uc003brf.1	-	12	2140	c.1464G>T	c.(1462-1464)CAG>CAT	p.Q488H	SRGAP3_uc003brg.1_Intron|SRGAP3_uc003bri.1_RNA	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	488	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		TCCTCATTTTCTGTGGTTTAG	0.458			T	RAF1	pilocytic astrocytoma								18	47					1.33834e-09	1.51189e-09	0.007413	1	0		A	9074409	A	A	9074409	3	1	58	1	0	0	0	0	1	0	0	0	15172	912	32	5	1914	5	SRGAP3	3	9074409	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	47020	9074409	188948021	131	41121											
LHFPL4	375323	broad.mit.edu	37	chr3	9594221	9594221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggggtgctcacgctgtcgCccacccagtagggctggatg	5	8	16	12	2	1	0	1	0	0	0	2	1	1	1	2	4	1	4	2	4	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:9594221C>T	uc003bry.2	-	2	429	c.143G>A	c.(142-144)GGC>GAC	p.G48D		NM_198560	NP_940962	Q7Z7J7	LHPL4_HUMAN	lipoma HMGIC fusion partner-like 4	48						integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)					CACGCTGTCGCCCACCCAGTA	0.657													5	23					0	0	0.000602	0	0		T	9594221	T	T	9594221	3	4	58	1	0	0	0	0	1	0	0	0	8783	739	26	2	612	2	LHFPL4	3	9594221	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	519812	9594221	188428209	132	41122											
TADA3	10474	broad.mit.edu	37	chr3	9831526	9831526	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcccggcccatgtcctGccttcccttccagtttctgc	3	11	9	18	1	1	0	0	0	1	0	4	0	4	0	6	2	2	1	6	2	0	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:9831526G>C	uc003bsx.1	-	3	877	c.329C>G	c.(328-330)GCA>GGA	p.A110G	TADA3_uc010hcn.1_Missense_Mutation_p.A110G|TADA3_uc003bsy.2_Missense_Mutation_p.A110G|ARPC4_uc003bsz.1_5'Flank|ARPC4_uc003bta.1_5'Flank|ARPC4_uc003btb.1_5'Flank|ARPC4_uc003btc.1_5'Flank	NM_006354	NP_006345	O75528	TADA3_HUMAN	transcriptional adaptor 3 isoform a	110					estrogen receptor signaling pathway|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	ligand-dependent nuclear receptor binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity				0						CCCATGTCCTGCCTTCCCTTC	0.547													17	85					0	0	0.006122	0	0		C	9831526	C	C	9831526	3	2	58	1	0	0	0	0	1	0	0	0	15537	1319	46	5	1001	5	TADA3	3	9831526	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	237305	9831526	188190904	133	41123											
CRELD1	78987	broad.mit.edu	37	chr3	9982881	9982881	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggccctgcatcacctcAagtgtgtaggtaagtggggc	7	9	15	10	0	2	0	2	0	0	0	2	0	2	0	2	4	1	4	2	4	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:9982881A>G	uc003bug.2	+	7	842	c.724A>G	c.(724-726)AAG>GAG	p.K242E	CIDEC_uc003bto.2_Intron|CRELD1_uc003buf.2_Missense_Mutation_p.K242E|CRELD1_uc003buh.2_Missense_Mutation_p.K242E|CRELD1_uc003bui.2_Missense_Mutation_p.K242E|CRELD1_uc003buj.2_RNA	NM_001077415	NP_001070883	Q96HD1	CREL1_HUMAN	cysteine-rich with EGF-like domains 1 isoform 3	242	FU 1.|Extracellular (Potential).				cardiac septum development|endocardial cushion development	integral to membrane	calcium ion binding			ovary(1)	1						GCATCACCTCAAGTGTGTAGG	0.493													9	48					0	0	0.004482	0	0		G	9982881	G	G	9982881	3	3	58	1	0	0	0	0	1	0	0	0	3869	131	5	3	746	3	CRELD1	3	9982881	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	151355	9982881	188039549	134	41124											
SUSD5	26032	broad.mit.edu	37	chr3	33194483	33194483	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcacttgcacctggcccGgggccttcctgtccaaagaa	7	9	9	16	1	1	1	1	0	0	1	4	1	4	1	6	3	1	1	6	3	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:33194483G>A	uc003cfo.1	-	5	2059	c.1641C>T	c.(1639-1641)CCC>CCT	p.P547P		NM_015551	NP_056366	O60279	SUSD5_HUMAN	sushi domain containing 5 precursor	547	Extracellular (Potential).				cell adhesion	integral to membrane	hyaluronic acid binding			ovary(1)|central_nervous_system(1)	2						CACCTGGCCCGGGGCCTTCCT	0.577													10	25					0	0	0.006214	0	0		A	33194483	A	A	33194483	2	1	58	1	0	0	0	0	0	0	0	1	15436	1103	39	1		1	SUSD5	3	33194483	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	23211602	33194483	164827947	135	41125											
LRRC2	79442	broad.mit.edu	37	chr3	46586647	46586647	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttcaatcttgtccagaagCcgcacgctggtgtctatgaa	9	12	9	11	2	3	2	1	1	2	1	4	2	4	2	2	1	1	2	2	1	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:46586647C>T	uc010hji.2	-	3	586	c.222G>A	c.(220-222)CGG>CGA	p.R74R	LRRC2_uc003cpu.3_Silent_p.R74R	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2	74										ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		TGTCCAGAAGCCGCACGCTGG	0.512													32	117					0	0	0.003271	0	0		T	46586647	T	T	46586647	2	4	58	1	0	0	0	0	0	0	0	1	8994	726	26	2		2	LRRC2	3	46586647	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	13392164	46586647	151435783	136	41126											
NBEAL2	23218	broad.mit.edu	37	chr3	47045860	47045860	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgctccccccaggagatgCtgcgtgcctcaggccttacc	5	7	11	18	2	1	1	1	0	0	1	2	2	2	1	7	2	4	2	7	2	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:47045860C>A	uc003cqp.2	+	37	6354	c.6175C>A	c.(6175-6177)CTG>ATG	p.L2059M	NBEAL2_uc010hjm.1_Missense_Mutation_p.L1436M|NBEAL2_uc010hjn.1_Missense_Mutation_p.L455M|NBEAL2_uc010hjo.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	2059	BEACH.						binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		CCAGGAGATGCTGCGTGCCTC	0.652													8	41					0.000157383	0.000167704	0.00308	1	0		A	47045860	A	A	47045860	3	1	58	1	0	0	0	0	1	0	0	0	10207	796	28	5	6321	5	NBEAL2	3	47045860	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	459213	47045860	150976570	137	41127											
CELSR3	1951	broad.mit.edu	37	chr3	48691836	48691836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggatacggggaagttctcggGgaggttggggacacctccca	8	7	17	9	2	1	0	0	0	1	0	3	4	2	4	2	8	1	2	2	8	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:48691836G>A	uc003cul.2	-	7	5319	c.5038C>T	c.(5038-5040)CCC>TCC	p.P1680S	CELSR3_uc003cuf.1_Missense_Mutation_p.P1750S|CELSR3_uc010hkg.2_5'Flank	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1680	Extracellular (Potential).|Laminin G-like 1.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AAGTTCTCGGGGAGGTTGGGG	0.592													8	22					0	0	0.004482	0	0		A	48691836	A	A	48691836	3	1	58	1	0	0	0	0	1	0	0	0	3226	1232	43	4	5016	4	CELSR3	3	48691836	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1645976	48691836	149330594	138	41128											
CELSR3	1951	broad.mit.edu	37	chr3	48696932	48696932	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actgactggagtccggagtgGgggcacacctctgtccactg	7	8	14	12	1	1	1	0	1	1	0	3	3	3	3	3	4	0	1	3	4	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:48696932G>T	uc003cul.2	-	1	3417	c.3136C>A	c.(3136-3138)CCA>ACA	p.P1046T	CELSR3_uc003cuf.1_Missense_Mutation_p.P1116T	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1046	Extracellular (Potential).|Cadherin 7.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GTCCGGAGTGGGGGCACACCT	0.557													30	128					1.13719e-10	1.29505e-10	0.008361	1	0		T	48696932	T	T	48696932	3	4	58	1	0	0	0	0	1	0	0	0	3226	1232	43	5	6942	5	CELSR3	3	48696932	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	5096	48696932	149325498	139	41129											
RNF123	63891	broad.mit.edu	37	chr3	49740928	49740928	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgacctgcagcgcctggggGgcctcctctcgcacctgcgg	3	8	14	16	3	1	1	0	1	1	0	3	1	2	1	5	4	3	2	5	4	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:49740928G>T	uc003cxh.2	+	21	1905	c.1819G>T	c.(1819-1821)GGC>TGC	p.G607C	RNF123_uc010hky.1_Missense_Mutation_p.G269C|RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	607						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		GCGCCTGGGGGGCCTCCTCTC	0.632											OREG0015571	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	26					0.004672	0.00482621	0.004672	1	0		T	49740928	T	T	49740928	3	4	58	1	0	0	0	0	1	0	0	0	13458	1232	43	5	1897	5	RNF123	3	49740928	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1043996	49740928	148281502	140	41130											
GRM2	2912	broad.mit.edu	37	chr3	51749114	51749114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacacccacaatgaggtccGctttgaccgctttggtgatg	8	11	11	11	2	0	4	0	4	0	0	1	4	1	4	3	2	0	2	3	2	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:51749114G>A	uc010hlv.2	+	4	1564	c.1325G>A	c.(1324-1326)CGC>CAC	p.R442H	GRM2_uc003dbo.3_5'UTR|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	442	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	AATGAGGTCCGCTTTGACCGC	0.562													8	30					0	0	0.008291	0	0		A	51749114	A	A	51749114	3	1	58	1	0	0	0	0	1	0	0	0	6813	1087	38	1	1335	1	GRM2	3	51749114	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2008186	51749114	146273316	141	41131											
PARP3	10039	broad.mit.edu	37	chr3	51981822	51981822	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gggtgaggtggccctgggcaGagagcaccatatcaacacgg	10	5	16	10	1	1	2	1	1	0	1	1	3	1	2	2	5	2	2	2	5	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:51981822G>C	uc003dby.2	+	10	1714	c.1343G>C	c.(1342-1344)AGA>ACA	p.R448T	PARP3_uc003dbz.2_Missense_Mutation_p.R455T	NM_005485	NP_005476	Q9Y6F1	PARP3_HUMAN	poly (ADP-ribose) polymerase family, member 3	448	PARP catalytic.				DNA repair|protein ADP-ribosylation	centriole|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GCCCTGGGCAGAGAGCACCAT	0.607													14	102					0	0	0.003163	0	0		C	51981822	C	C	51981822	3	2	58	1	0	0	0	0	1	0	0	0	11481	942	33	5	1402	5	PARP3	3	51981822	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	232708	51981822	146040608	142	41132											
PCBP4	57060	broad.mit.edu	37	chr3	51992870	51992870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagtgatggtgacatgccGctccccagcgccctctgctt	5	9	11	16	2	1	2	0	2	1	0	2	2	2	2	5	1	3	2	5	1	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:51992870G>A	uc003dcd.1	-	11	1255	c.859C>T	c.(859-861)CGG>TGG	p.R287W	PCBP4_uc003dcb.1_Missense_Mutation_p.R253W|PCBP4_uc003dcc.1_Missense_Mutation_p.R308W|PCBP4_uc003dce.1_Missense_Mutation_p.A288V|PCBP4_uc003dcf.1_Missense_Mutation_p.R287W|PCBP4_uc003dcg.1_Missense_Mutation_p.R253W|PCBP4_uc003dch.1_Missense_Mutation_p.R287W|PCBP4_uc003dci.1_Missense_Mutation_p.R127W|PCBP4_uc003dcj.1_Missense_Mutation_p.R287W|PCBP4_uc003dck.1_Missense_Mutation_p.R244W|PCBP4_uc003dcl.1_Missense_Mutation_p.R287W	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	287	KH 3.					cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GTGACATGCCGCTCCCCAGCG	0.652													12	71					0	0	0.000978	0	0		A	51992870	A	A	51992870	3	1	58	1	0	0	0	0	1	0	0	0	11522	1086	38	1	360	1	PCBP4	3	51992870	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	11048	51992870	146029560	143	41133											
NT5DC2	64943	broad.mit.edu	37	chr3	52562296	52562296	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccatctccggtagcgagAagatgtccatgaactgctta	11	9	11	10	2	1	3	0	1	1	2	3	5	2	3	3	1	4	2	3	1	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:52562296A>T	uc003deo.2	-	6	987	c.563T>A	c.(562-564)TTC>TAC	p.F188Y	NT5DC2_uc003dem.2_Missense_Mutation_p.F58Y|NT5DC2_uc003den.2_Missense_Mutation_p.F225Y|NT5DC2_uc010hmi.2_Missense_Mutation_p.F200Y|NT5DC2_uc010hmj.2_Missense_Mutation_p.F4Y	NM_022908	NP_075059	Q9H857	NT5D2_HUMAN	5'-nucleotidase domain containing 2 isoform 2	188							hydrolase activity|metal ion binding				0				BRCA - Breast invasive adenocarcinoma(193;1.7e-05)|Kidney(197;0.00177)|KIRC - Kidney renal clear cell carcinoma(197;0.002)|OV - Ovarian serous cystadenocarcinoma(275;0.0476)		CGGTAGCGAGAAGATGTCCAT	0.582													10	63					0	0	0.006214	0	0		T	52562296	T	T	52562296	3	4	58	1	0	0	0	0	1	0	0	0	10710	246	9	5	1035	5	NT5DC2	3	52562296	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	569426	52562296	145460134	144	41134											
CNTN3	5067	broad.mit.edu	37	chr3	74349051	74349051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaagttcagaccggcttcCgcctcctccattgacttcag	8	10	7	16	2	2	2	2	1	0	1	5	2	5	2	5	1	0	2	5	1	1	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:74349051C>T	uc003dpm.1	-	16	2214	c.2134G>A	c.(2134-2136)GGA>AGA	p.G712R		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	712	Fibronectin type-III 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		GACCGGCTTCCGCCTCCTCCA	0.443													4	38					0	0	0.004482	0	0		T	74349051	T	T	74349051	3	4	58	1	0	0	0	0	1	0	0	0	3645	661	23	1	980	1	CNTN3	3	74349051	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	21786755	74349051	123673379	145	41135											
C3orf26	84319	broad.mit.edu	37	chr3	99895194	99895194	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttaatttgagccccttaAaatttctggtttttgactgg	8	17	8	8	0	1	2	0	2	1	0	1	2	1	2	3	2	1	1	3	2	3	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:99895194A>G	uc003dtl.2	+	9	834	c.691A>G	c.(691-693)AAA>GAA	p.K231E		NM_032359	NP_115735	Q9BQ75	CC026_HUMAN	hypothetical protein LOC84319	231							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(1)	1						GAGCCCCTTAAAATTTCTGGT	0.398													7	38					0	0	0.001984	0	0		G	99895194	G	G	99895194	3	3	58	1	0	0	0	0	1	0	0	0	2221	15	1	3	739	3	C3orf26	3	99895194	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	25546143	99895194	98127236	146	41136											
PHLDB2	90102	broad.mit.edu	37	chr3	111632518	111632518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctttccgaaagcttccaGcgagtcctcttatctaagta	10	12	6	13	2	2	0	0	0	2	0	5	2	5	0	4	0	2	2	4	0	4	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:111632518G>A	uc010hqa.2	+	3	2099	c.1688G>A	c.(1687-1689)AGC>AAC	p.S563N	PHLDB2_uc003dyc.2_Missense_Mutation_p.S590N|PHLDB2_uc003dyd.2_Missense_Mutation_p.S563N|PHLDB2_uc003dyg.2_Missense_Mutation_p.S563N|PHLDB2_uc003dyh.2_Missense_Mutation_p.S563N|PHLDB2_uc003dyi.2_Missense_Mutation_p.S149N|PHLDB2_uc003dyf.3_Missense_Mutation_p.S563N	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	563						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						AAAGCTTCCAGCGAGTCCTCT	0.498													41	155					0	0	0.00874	0	0		A	111632518	A	A	111632518	3	1	58	1	0	0	0	0	1	0	0	0	11871	971	34	2	1779	2	PHLDB2	3	111632518	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	11737324	111632518	86389912	147	41137											
NR1I2	8856	broad.mit.edu	37	chr3	119531555	119531555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccaggggtgcttagcagtgGctgcgagttgccagagtctc	6	9	16	10	1	1	1	0	0	1	1	2	2	1	1	2	3	4	4	2	3	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:119531555G>A	uc003edj.2	+	5	2381	c.542G>A	c.(541-543)GGC>GAC	p.G181D	NR1I2_uc003edi.2_Intron|NR1I2_uc003edk.2_Missense_Mutation_p.G220D|NR1I2_uc003edl.2_Missense_Mutation_p.G69D	NM_003889	NP_003880	O75469	NR1I2_HUMAN	nuclear receptor subfamily 1, group I, member 2	181	Hinge.				drug export|exogenous drug catabolic process|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid metabolic process|xenobiotic metabolic process|xenobiotic transport	nucleoplasm	drug binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(114;0.175)	Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Rifampin(DB01045)|Vitamin E(DB00163)	CTTAGCAGTGGCTGCGAGTTG	0.587													10	107					0	0	0.008291	0	0		A	119531555	A	A	119531555	3	1	58	1	0	0	0	0	1	0	0	0	10639	1203	42	2	677	2	NR1I2	3	119531555	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	7899037	119531555	78490875	148	41138											
SEC22A	26984	broad.mit.edu	37	chr3	122928161	122928161	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcacaggaatgcaggagTgcagaaagtattttaaaatg	18	8	11	4	0	0	1	0	0	0	1	0	3	0	3	0	2	3	4	0	2	6	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:122928161T>C	uc003ege.2	+	2	176	c.97T>C	c.(97-99)TGC>CGC	p.C33R	SEC22A_uc003egf.2_Missense_Mutation_p.C33R	NM_012430	NP_036562	Q96IW7	SC22A_HUMAN	SEC22 vesicle trafficking protein homolog A	33	Cytoplasmic (Potential).|Longin.				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|integral to membrane	transporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0548)		AATGCAGGAGTGCAGAAAGTA	0.373													5	51					0	0	0.000602	0	0		C	122928161	C	C	122928161	3	2	58	1	0	0	0	0	1	0	0	0	14013	1696	59	3	99	3	SEC22A	3	122928161	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	3396606	122928161	75094269	149	41139											
CEP63	80254	broad.mit.edu	37	chr3	134267988	134267988	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaagaggatggaagcacaTaacaatgaatacaaagcaga	20	5	10	6	0	0	4	0	2	0	2	0	6	0	6	0	2	4	2	0	2	7	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:134267988T>C	uc003eqo.1	+	11	1601	c.1152T>C	c.(1150-1152)CAT>CAC	p.H384H	CEP63_uc003eql.1_Silent_p.H338H|CEP63_uc003eqm.2_Silent_p.H338H|CEP63_uc003eqn.1_Silent_p.H384H|CEP63_uc003eqp.1_Silent_p.H13H	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	384	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						TGGAAGCACATAACAATGAAT	0.358													11	37					0	0	0.008291	0	0		C	134267988	C	C	134267988	2	2	58	1	0	0	0	0	0	0	0	1	3260	1403	49	3		3	CEP63	3	134267988	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	11339827	134267988	63754442	150	41140											
ATR	545	broad.mit.edu	37	chr3	142259852	142259852	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgggtcccattaacttcaTcaaagacatcaaactgttca	13	13	5	10	0	4	1	4	0	0	1	5	1	5	1	1	1	2	1	1	1	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:142259852T>A	uc003eux.3	-	18	3597	c.3475A>T	c.(3475-3477)ATG>TTG	p.M1159L		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1159					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						ATTAACTTCATCAAAGACATC	0.428								Other_conserved_DNA_damage_response_genes					17	36					0	0	0.00499	0	0		A	142259852	A	A	142259852	3	1	58	1	0	0	0	0	1	0	0	0	1205	1435	50	5	4579	5	ATR	3	142259852	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	7991864	142259852	55762578	151	41141											
CHST2	9435	broad.mit.edu	37	chr3	142840454	142840454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgtcaccactctgccccGcctaccgcaaggaggtcgtg	6	7	11	17	4	2	0	1	0	1	0	4	1	2	1	5	2	2	2	5	2	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:142840454G>A	uc003evm.2	+	2	1685	c.796G>A	c.(796-798)GCC>ACC	p.A266T		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	266	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						ACTCTGCCCCGCCTACCGCAA	0.677													5	13					0	0	0.000602	0	0		A	142840454	A	A	142840454	3	1	58	1	0	0	0	0	1	0	0	0	3407	1087	38	1	798	1	CHST2	3	142840454	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	580602	142840454	55181976	152	41142											
IGSF10	285313	broad.mit.edu	37	chr3	151160982	151160982	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccagtggaactggtagcaAtgcattcataagtgcccctg	12	9	10	10	0	1	0	1	0	0	0	1	1	1	1	3	2	5	3	3	2	5	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:151160982A>G	uc011bod.1	-	5	5753	c.5753T>C	c.(5752-5754)ATT>ACT	p.I1918T	IGSF10_uc011bob.1_5'Flank|IGSF10_uc011boc.1_5'Flank	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1918	Ig-like C2-type 5.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ACTGGTAGCAATGCATTCATA	0.433													41	100					0	0	0.00874	0	0		G	151160982	G	G	151160982	3	3	58	1	0	0	0	0	1	0	0	0	7613	101	4	3	2174	3	IGSF10	3	151160982	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	8320528	151160982	46861448	153	41143											
PLCH1	23007	broad.mit.edu	37	chr3	155271897	155271897	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaggcatgcttgttgatggtCtccacaacatctctgaagag	11	11	10	9	0	2	3	0	2	2	1	4	3	2	3	1	2	2	3	1	2	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:155271897C>T	uc011bok.1	-	8	1399	c.1122G>A	c.(1120-1122)GAG>GAA	p.E374E	PLCH1_uc011boj.1_Silent_p.E374E|PLCH1_uc011bol.1_Silent_p.E356E	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	374	PI-PLC X-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TGTTGATGGTCTCCACAACAT	0.468													15	65					0	0	0.003163	0	0		T	155271897	T	T	155271897	2	4	58	1	0	0	0	0	0	0	0	1	12056	912	32	4		4	PLCH1	3	155271897	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4110915	155271897	42750533	154	41144											
MFSD1	64747	broad.mit.edu	37	chr3	158545116	158545116	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagggaagaaataaaatttTcccatactgagtaagtatta	19	11	7	4	0	0	2	0	1	0	1	1	3	1	3	1	1	1	2	1	1	9	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:158545116T>C	uc003fcl.1	+	15	1414	c.1384T>C	c.(1384-1386)TCC>CCC	p.S462P	MFSD1_uc003fcm.1_RNA|MFSD1_uc003fcn.1_Missense_Mutation_p.S365P|MFSD1_uc011bow.1_Missense_Mutation_p.S423P|MFSD1_uc011box.1_Missense_Mutation_p.S389P	NM_022736	NP_073573	Q9H3U5	MFSD1_HUMAN	major facilitator superfamily domain containing	462					transmembrane transport	integral to membrane					0			Lung(72;0.00372)|LUSC - Lung squamous cell carcinoma(72;0.00523)			AATAAAATTTTCCCATACTGA	0.279													22	59					0	0	0.002299	0	0		C	158545116	C	C	158545116	3	2	58	1	0	0	0	0	1	0	0	0	9545	1783	62	3	1589	3	MFSD1	3	158545116	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	3273219	158545116	39477314	155	41145											
WDR49	151790	broad.mit.edu	37	chr3	167218047	167218047	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtttattcacttcaggCagctcttccagggctccaat	8	12	9	12	0	3	0	2	0	1	0	5	0	5	0	2	3	1	5	2	3	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:167218047C>G	uc003fev.1	-	14	2175	c.1869G>C	c.(1867-1869)CTG>CTC	p.L623L	WDR49_uc003feu.1_Silent_p.L448L|WDR49_uc011bpd.1_Silent_p.L588L|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	623										large_intestine(1)|ovary(1)|skin(1)	3						TCACTTCAGGCAGCTCTTCCA	0.443													49	198					0	0	0.00361	0	0		G	167218047	G	G	167218047	2	3	58	1	0	0	0	0	0	0	0	1	17328	697	25	5		5	WDR49	3	167218047	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	8672931	167218047	30804383	156	41146											
NLGN1	22871	broad.mit.edu	37	chr3	173997321	173997321	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacggagacgaggttccCtatgtactgggaatccccat	9	8	11	13	2	0	1	0	0	0	1	2	4	2	2	4	3	1	2	4	3	3	3	rs140933912		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:173997321C>A	uc003fio.1	+	6	1953	c.1530C>A	c.(1528-1530)CCC>CCA	p.P510P	NLGN1_uc010hww.1_Silent_p.P550P|NLGN1_uc003fip.1_Silent_p.P510P	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	527	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			ACGAGGTTCCCTATGTACTGG	0.458													8	59					0.00307968	0.0032009	0.00308	1	0		A	173997321	A	A	173997321	2	1	58	1	0	0	0	0	0	0	0	1	10480	668	24	5		5	NLGN1	3	173997321	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	6779274	173997321	24025109	157	41147											
NLGN1	22871	broad.mit.edu	37	chr3	173998407	173998407	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gattaaaaccaagagttaaaGaacattacagagccaataag	21	7	7	6	0	0	3	0	0	0	3	0	4	0	3	2	0	4	1	2	0	9	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:173998407G>C	uc003fio.1	+	7	2209	c.1786G>C	c.(1786-1788)GAA>CAA	p.E596Q	NLGN1_uc003fip.1_Missense_Mutation_p.E596Q	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	613	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			AAGAGTTAAAGAACATTACAG	0.383													20	108					0	0	0.007413	0	0		C	173998407	C	C	173998407	3	2	58	1	0	0	0	0	1	0	0	0	10480	943	33	5	1804	5	NLGN1	3	173998407	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1086	173998407	24024023	158	41148											
EPHB3	2049	broad.mit.edu	37	chr3	184295229	184295229	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcccaacggagtcatcctgGactacgagatgaagtacttt	11	9	11	10	2	1	2	1	1	0	1	2	5	2	4	2	3	3	1	2	3	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:184295229G>T	uc003foz.2	+	6	1890	c.1453G>T	c.(1453-1455)GAC>TAC	p.D485Y		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	485	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			AGTCATCCTGGACTACGAGAT	0.602													14	78					2.61681e-11	2.99622e-11	0.00245	1	0		T	184295229	T	T	184295229	3	4	58	1	0	0	0	0	1	0	0	0	5184	1174	41	5	1475	5	EPHB3	3	184295229	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	10296822	184295229	13727201	159	41149											
OPA1	4976	broad.mit.edu	37	chr3	193335014	193335014	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaagaccttgtaaagttaGcaccagactttgacaagatt	15	10	8	8	0	0	5	0	1	0	4	0	5	0	5	2	0	1	3	2	0	5	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:193335014G>C	uc003ftm.2	+	4	730	c.496G>C	c.(496-498)GCA>CCA	p.A166P	OPA1_uc003ftg.2_Missense_Mutation_p.A166P|OPA1_uc003fth.2_Intron|OPA1_uc003fti.2_Missense_Mutation_p.A166P|OPA1_uc003ftj.2_Missense_Mutation_p.A166P|OPA1_uc003ftk.2_Intron|OPA1_uc003ftl.2_Intron|OPA1_uc003ftn.2_Intron	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1	166	Mitochondrial intermembrane (By similarity).				apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		TGTAAAGTTAGCACCAGACTT	0.303													11	39					0	0	0.003163	0	0		C	193335014	C	C	193335014	3	2	58	1	0	0	0	0	1	0	0	0	10890	971	34	5	510	5	OPA1	3	193335014	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	9039785	193335014	4687416	160	41150											
FAM193A	8603	broad.mit.edu	37	chr4	2696824	2696824	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagggcaagtactgcgacTgctgctactgcgaattcttt	9	11	12	9	2	1	0	0	0	1	0	1	3	1	1	0	2	6	4	0	2	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:2696824T>A	uc010icl.2	+	15	2722	c.2371T>A	c.(2371-2373)TGC>AGC	p.C791S	FAM193A_uc010ick.2_Missense_Mutation_p.C991S|FAM193A_uc003gfd.2_Missense_Mutation_p.C791S|FAM193A_uc011bvm.1_Missense_Mutation_p.C813S|FAM193A_uc011bvn.1_Missense_Mutation_p.C791S|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_Intron|FAM193A_uc003gfe.2_Missense_Mutation_p.C645S	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	791										ovary(3)	3						GTACTGCGACTGCTGCTACTG	0.572													5	21					0	0	0.000602	0	0		A	2696824	A	A	2696824	3	1	58	1	0	0	0	0	1	0	0	0	5535	1580	55	5	2421	5	FAM193A	4	2696824	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08		2696824	188457452	161	41151											
CCDC149	91050	broad.mit.edu	37	chr4	24838869	24838869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttctccatacacagggCgtccacgtcaatgatgcggt	8	10	10	13	3	2	1	1	1	1	0	4	1	3	1	3	2	2	1	3	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:24838869C>T	uc011bxr.1	-	7	787	c.643G>A	c.(643-645)GCC>ACC	p.A215T	CCDC149_uc003grc.2_Missense_Mutation_p.A215T|CCDC149_uc003grb.2_RNA|CCDC149_uc003grd.2_Intron|CCDC149_uc003gre.2_Missense_Mutation_p.A160T|CCDC149_uc011bxq.1_Missense_Mutation_p.A88T	NM_173463	NP_775734	B4DZG3	B4DZG3_HUMAN	coiled-coil domain containing 149 isoform 1	215											0		Breast(46;0.173)				ATACACAGGGCGTCCACGTCA	0.582													4	29					0	0	0.009096	0	0		T	24838869	T	T	24838869	3	4	58	1	0	0	0	0	1	0	0	0	2786	768	27	1	978	1	CCDC149	4	24838869	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	22142045	24838869	166315407	162	41152											
PGM2	55276	broad.mit.edu	37	chr4	37848854	37848854	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctttaagtggatgggaaAcagagccaaacagctaatag	15	8	12	6	0	0	1	0	0	0	1	0	3	0	3	1	3	4	2	1	3	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:37848854A>G	uc011byb.1	+	10	1293	c.1220A>G	c.(1219-1221)AAC>AGC	p.N407S	PGM2_uc011bya.1_Missense_Mutation_p.N268S|PGM2_uc011byc.1_Missense_Mutation_p.N247S	NM_018290	NP_060760	Q96G03	PGM2_HUMAN	phosphoglucomutase 2	407					glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity|phosphopentomutase activity			ovary(1)	1						TGGATGGGAAACAGAGCCAAA	0.378													11	57					0	0	0.000978	0	0		G	37848854	G	G	37848854	3	3	58	1	0	0	0	0	1	0	0	0	11817	43	2	3	1258	3	PGM2	4	37848854	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	13009985	37848854	153305422	163	41153											
GUF1	60558	broad.mit.edu	37	chr4	44684428	44684428	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaattccagttataaataaGgtaattacaatgagacaaca	19	11	6	5	0	0	1	0	1	0	1	1	2	1	1	1	1	2	3	1	1	9	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:44684428G>T	uc003gww.3	+	5	792	c.585G>T	c.(583-585)AAG>AAT	p.K195N	GUF1_uc010ifz.1_RNA	NM_021927	NP_068746	Q8N442	GUF1_HUMAN	GUF1 GTPase homolog	195	GTP (By similarity).				translation	mitochondrial inner membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)	1						TTATAAATAAGGTAATTACAA	0.338													14	72					1.05317e-09	1.19134e-09	0.00245	1	0		T	44684428	T	T	44684428	3	4	58	1	0	0	0	0	1	0	0	0	6915	1014	35	5	603	5	GUF1	4	44684428	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	6835574	44684428	146469848	164	41154											
GABRA4	2557	broad.mit.edu	37	chr4	46967014	46967014	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcttcaggatgcttctcTctctgcactggagcagcggg	5	10	15	11	1	3	0	1	0	2	0	5	2	3	2	0	5	4	4	0	5	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:46967014T>C	uc003gxg.2	-	8	1246	c.1107A>G	c.(1105-1107)AGA>AGG	p.R369R		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	369	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GATGCTTCTCTCTCTGCACTG	0.423													9	65					0	0	0.004482	0	0		C	46967014	C	C	46967014	2	2	58	1	0	0	0	0	0	0	0	1	6177	1548	54	3		3	GABRA4	4	46967014	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	2282586	46967014	144187262	165	41155											
OCIAD1	54940	broad.mit.edu	37	chr4	48852083	48852083	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgatcaggacaagcacgaCgatcttcaccacctgggtag	12	7	10	12	3	3	0	2	0	1	0	3	4	3	1	2	2	2	2	2	2	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:48852083C>T	uc003gyo.2	+	6	618	c.361C>T	c.(361-363)CGA>TGA	p.R121*	OCIAD1_uc011bzk.1_RNA|OCIAD1_uc003gyr.2_Nonsense_Mutation_p.R121*|OCIAD1_uc003gyp.2_Nonsense_Mutation_p.R121*|OCIAD1_uc003gys.2_Nonsense_Mutation_p.R121*|OCIAD1_uc003gyq.2_Nonsense_Mutation_p.R121*|OCIAD1_uc010igk.2_Nonsense_Mutation_p.R126*	NM_017830	NP_060300	Q9NX40	OCAD1_HUMAN	OCIA domain containing 1 isoform 1	121						endosome	protein binding				0						ACAAGCACGACGATCTTCACC	0.373													14	62					0	0	0.003163	0	0		T	48852083	T	T	48852083	4	4	58	1	0	0	0	0	0	1	0	0	10836	528	19	1	398	1	OCIAD1	4	48852083	Nonsense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1885069	48852083	142302193	166	41156											
LRRC66	339977	broad.mit.edu	37	chr4	52862042	52862042	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggaatgtgatgaacacTgacaggcacaccgccagagc	15	4	11	11	1	0	4	0	3	0	1	0	5	0	5	2	2	2	1	2	2	3	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:52862042T>G	uc003gzi.2	-	4	1159	c.1146A>C	c.(1144-1146)TCA>TCC	p.S382S		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	382	Helical; (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						TGATGAACACTGACAGGCACA	0.572													10	33					0	0	0.006214	0	0		G	52862042	G	G	52862042	2	3	58	1	0	0	0	0	0	0	0	1	9036	1567	55	5		5	LRRC66	4	52862042	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	4009959	52862042	138292234	167	41157											
KIT	3815	broad.mit.edu	37	chr4	55594223	55594223	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccctcatgtctgaactcaaAgtcctgagttaccttggtaa	10	12	8	11	0	3	2	2	2	1	0	4	2	4	2	3	1	2	2	3	1	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:55594223A>C	uc010igr.2	+	13	2013	c.1926A>C	c.(1924-1926)AAA>AAC	p.K642N	KIT_uc010igs.2_Missense_Mutation_p.K638N|KIT_uc010igt.1_Missense_Mutation_p.K91N	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	642	Protein kinase.|Cytoplasmic (Potential).				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity	p.K642E(55)|p.K642Q(1)		soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CTGAACTCAAAGTCCTGAGTT	0.438		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				8	59					0	0	0.004482	0	0		C	55594223	C	C	55594223	3	2	58	1	0	0	0	0	1	0	0	0	8345	69	3	5	1976	5	KIT	4	55594223	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	2732181	55594223	135560053	168	41158											
KDR	3791	broad.mit.edu	37	chr4	55958806	55958806	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgcgatgccaagaactccAtgcccttagccacttggaag	10	9	9	13	2	0	1	0	0	0	1	2	3	1	2	4	1	4	0	4	1	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:55958806A>T	uc003has.2	-	22	3349	c.3047T>A	c.(3046-3048)ATG>AAG	p.M1016K	KDR_uc003hat.1_Missense_Mutation_p.M1016K	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	1016	Protein kinase.|Cytoplasmic (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	CAAGAACTCCATGCCCTTAGC	0.473			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			5	49					0	0	0.000602	0	0		T	55958806	T	T	55958806	3	4	58	1	0	0	0	0	1	0	0	0	8155	217	8	5	1059	5	KDR	4	55958806	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	364583	55958806	135195470	169	41159											
CLOCK	9575	broad.mit.edu	37	chr4	56345861	56345861	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccatcaaaaatactactgTcatctctaaaagaaagcgga	18	8	5	10	1	3	1	2	0	1	1	4	2	3	2	1	1	3	0	1	1	7	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:56345861T>G	uc003haz.1	-	6	979	c.53A>C	c.(52-54)GAC>GCC	p.D18A	CLOCK_uc003hba.1_Missense_Mutation_p.D18A	NM_004898	NP_004889	O15516	CLOCK_HUMAN	clock	18					circadian rhythm|photoperiodism|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|transcription factor complex	DNA binding|histone acetyltransferase activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(2)|ovary(1)	3	Lung NSC(11;0.00335)|Glioma(25;0.08)|all_epithelial(27;0.0992)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0107)			AATACTACTGTCATCTCTAAA	0.318													11	45					0	0	0.000978	0	0		G	56345861	G	G	56345861	3	3	58	1	0	0	0	0	1	0	0	0	3552	1667	58	5	2563	5	CLOCK	4	56345861	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	387055	56345861	134808415	170	41160											
TMPRSS11D	9407	broad.mit.edu	37	chr4	68693133	68693133	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcattttcatgagttgcAgatttataattgttatgaat	12	19	7	3	0	2	3	2	2	0	1	2	3	2	3	0	0	1	3	0	0	4	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:68693133A>G	uc003hdq.2	-	8	863	c.798T>C	c.(796-798)TCT>TCC	p.S266S	LOC550112_uc003hdl.3_Intron|TMPRSS11D_uc003hdp.2_Silent_p.S47S|TMPRSS11D_uc011caj.1_Silent_p.S149S	NM_004262	NP_004253	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	266	Peptidase S1.|Extracellular (Potential).				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						CATGAGTTGCAGATTTATAAT	0.373													9	51					0	0	0.004482	0	0		G	68693133	G	G	68693133	2	3	58	1	0	0	0	0	0	0	0	1	16266	175	7	3		3	TMPRSS11D	4	68693133	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	12347272	68693133	122461143	171	41161											
TMPRSS11F	389208	broad.mit.edu	37	chr4	68930432	68930432	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatggatccaaatcctgtgAcgaacacacttgttttaggt	12	12	8	9	1	0	1	0	1	0	0	2	3	2	2	2	2	1	1	2	2	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:68930432A>G	uc003hdt.1	-	8	1035	c.986T>C	c.(985-987)GTC>GCC	p.V329A	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron|SYT14L_uc010ihn.2_5'Flank	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	329	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						AAATCCTGTGACGAACACACT	0.393													8	77					0	0	0.004482	0	0		G	68930432	G	G	68930432	3	3	58	1	0	0	0	0	1	0	0	0	16268	275	10	3	342	3	TMPRSS11F	4	68930432	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	237299	68930432	122223844	172	41162											
RASSF6	166824	broad.mit.edu	37	chr4	74453644	74453644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtcaaattccccccagcGtgtcattctgagaagtaata	12	11	7	11	2	3	1	2	1	1	1	5	2	4	1	3	0	1	1	3	0	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:74453644G>A	uc003hhd.1	-	5	514	c.391C>T	c.(391-393)CGC>TGC	p.R131C	RASSF6_uc003hhc.1_Missense_Mutation_p.R99C|RASSF6_uc010iik.1_Missense_Mutation_p.R99C|RASSF6_uc010iil.1_Missense_Mutation_p.R87C	NM_201431	NP_958834	Q6ZTQ3	RASF6_HUMAN	Ras association (RalGDS/AF-6) domain family 6	131					apoptosis|signal transduction		protein binding			pancreas(2)	2	Breast(15;0.00102)		all cancers(17;0.00104)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)			TCCCCCCAGCGTGTCATTCTG	0.368													6	82					0	0	0.001984	0	0		A	74453644	A	A	74453644	3	1	58	1	0	0	0	0	1	0	0	0	13115	1145	40	1	746	1	RASSF6	4	74453644	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	5523212	74453644	116700632	173	41163											
SCD5	79966	broad.mit.edu	37	chr4	83719567	83719567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctccagacgatgttctgccGctgcccgcgcgcgcctggcc	3	7	12	19	6	1	1	0	0	1	1	2	2	2	1	6	1	2	2	6	1	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:83719567G>A	uc003hna.2	-	1	444	c.124C>T	c.(124-126)CGG>TGG	p.R42W	SCD5_uc003hnb.3_Missense_Mutation_p.R42W|SCD5_uc003hnc.2_Missense_Mutation_p.R42W	NM_001037582	NP_001032671	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5 isoform a	42					fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity			ovary(1)	1		Colorectal(4;0.0323)|Hepatocellular(203;0.115)				ATGTTCTGCCGCTGCCCGCGC	0.647													3	21					0	0	0.000602	0	0		A	83719567	A	A	83719567	3	1	58	1	0	0	0	0	1	0	0	0	13912	1086	38	1	1094	1	SCD5	4	83719567	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	9265923	83719567	107434709	174	41164											
SEC31A	22872	broad.mit.edu	37	chr4	83783724	83783724	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgttcaaggccaaagcaAtctgaaataaaaataacagc	18	9	6	8	0	2	1	1	1	1	0	2	1	2	1	1	1	3	2	1	1	8	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:83783724A>G	uc003hnf.2	-	13	1675	c.1511T>C	c.(1510-1512)ATT>ACT	p.I504T	SEC31A_uc003hne.2_Intron|SEC31A_uc011ccl.1_Intron|SEC31A_uc003hnl.2_Intron|SEC31A_uc003hng.2_Missense_Mutation_p.I504T|SEC31A_uc003hnh.2_Missense_Mutation_p.I504T|SEC31A_uc003hni.2_Missense_Mutation_p.I504T|SEC31A_uc003hnj.2_Intron|SEC31A_uc011ccm.1_Missense_Mutation_p.I499T|SEC31A_uc011ccn.1_Missense_Mutation_p.I504T|SEC31A_uc003hnk.2_Intron|SEC31A_uc003hnm.2_Missense_Mutation_p.I504T|SEC31A_uc003hnn.1_Missense_Mutation_p.I504T	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	504					COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				GGCCAAAGCAATCTGAAATAA	0.393													6	49					0	0	0.001984	0	0		G	83783724	G	G	83783724	3	3	58	1	0	0	0	0	1	0	0	0	14023	115	4	3	2211	3	SEC31A	4	83783724	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	64157	83783724	107370552	175	41165											
WDFY3	23001	broad.mit.edu	37	chr4	85781643	85781643	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccggggaggatggcacaaCtccgtgaagagccggcggag	9	4	18	10	4	0	2	0	1	0	1	1	5	1	5	3	6	3	1	3	6	2	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:85781643C>G	uc003hpd.2	-	4	510	c.102G>C	c.(100-102)GAG>GAC	p.E34D	WDFY3_uc003hpf.2_Missense_Mutation_p.E34D	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	34						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		GATGGCACAACTCCGTGAAGA	0.552													17	73					0	0	0.00499	0	0		G	85781643	G	G	85781643	3	3	58	1	0	0	0	0	1	0	0	0	17296	564	20	5	10781	5	WDFY3	4	85781643	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1997919	85781643	105372633	176	41166											
INTS12	57117	broad.mit.edu	37	chr4	106616707	106616707	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttttcagcttccttctttAccttttcagttgtgaggacc	5	19	6	11	0	4	1	2	1	2	0	5	2	5	2	3	1	2	2	3	1	1	9			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:106616707A>C	uc003hxw.2	-	4	533	c.275T>G	c.(274-276)GTA>GGA	p.V92G	INTS12_uc010ilr.2_Missense_Mutation_p.V92G	NM_020395	NP_065128	Q96CB8	INT12_HUMAN	integrator complex subunit 12	92					snRNA processing	integrator complex	protein binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(123;5.12e-07)		TTCCTTCTTTACCTTTTCAGT	0.323													15	48					0	0	0.003163	0	0		C	106616707	C	C	106616707	3	2	58	1	0	0	0	0	1	0	0	0	7793	391	14	5	1133	5	INTS12	4	106616707	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	20835064	106616707	84537569	177	41167											
INTU	27152	broad.mit.edu	37	chr4	128564847	128564847	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactacaaagaaagaaaaaaGtatgaacccaaactcaagca	23	4	6	8	0	1	3	1	1	0	2	1	4	1	3	1	0	4	2	1	0	10	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:128564847G>A	uc003ifk.1	+	2	388	c.318G>A	c.(316-318)AAG>AAA	p.K106K	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	106										ovary(1)	1						AAAGAAAAAAGTATGAACCCA	0.358													21	75					0	0	0.010504	0	0		A	128564847	A	A	128564847	2	1	58	1	0	0	0	0	0	0	0	1	7802	1020	36	4		4	INTU	4	128564847	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	21948140	128564847	62589429	178	41168											
PCDH18	54510	broad.mit.edu	37	chr4	138451552	138451552	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttcgtcaatgatggtgAgcacaactgtggtattgctt	9	15	10	7	1	1	2	1	2	0	0	2	2	1	2	0	2	3	3	0	2	3	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:138451552A>C	uc003ihe.3	-	1	2078	c.1691T>G	c.(1690-1692)CTC>CGC	p.L564R	PCDH18_uc003ihf.3_Missense_Mutation_p.L557R|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.L344R|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	564	Extracellular (Potential).|Cadherin 5.				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					AATGATGGTGAGCACAACTGT	0.453													39	149					0	0	0.004878	0	0		C	138451552	C	C	138451552	3	2	58	1	0	0	0	0	1	0	0	0	11532	304	11	5	1732	5	PCDH18	4	138451552	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	9886705	138451552	52702724	179	41169											
ZNF827	152485	broad.mit.edu	37	chr4	146697023	146697023	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcggtgtctgtactcaccaGcttcacggaatggacggtca	8	10	11	12	3	4	0	3	0	1	0	5	2	4	2	1	4	2	2	1	4	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:146697023G>C	uc003ikn.2	-	10	2659	c.2611C>G	c.(2611-2613)CTG>GTG	p.L871V	ZNF827_uc003ikm.2_Missense_Mutation_p.L871V|ZNF827_uc010iox.2_Missense_Mutation_p.L521V|ZNF827_uc003ikl.2_5'UTR	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	871					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					GTACTCACCAGCTTCACGGAA	0.498													5	47					0	0	0.000602	0	0		C	146697023	C	C	146697023	3	2	58	1	0	0	0	0	1	0	0	0	18205	962	34	5	638	5	ZNF827	4	146697023	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	8245471	146697023	44457253	180	41170											
LRBA	987	broad.mit.edu	37	chr4	151849711	151849711	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttactgaagaaaagctttAgctcgcgaactgtcaaatta	14	12	8	7	2	1	2	1	1	0	1	2	3	1	2	0	0	4	3	0	0	8	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:151849711A>T	uc010ipj.2	-	4	980	c.506T>A	c.(505-507)CTA>CAA	p.L169Q	LRBA_uc003ilu.3_Missense_Mutation_p.L169Q|LRBA_uc010ipk.1_Missense_Mutation_p.L88Q	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	169						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					GAAAAGCTTTAGCTCGCGAAC	0.358													5	23					0	0	0.000602	0	0		T	151849711	T	T	151849711	3	4	58	1	0	0	0	0	1	0	0	0	8949	420	15	5	8305	5	LRBA	4	151849711	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	5152688	151849711	39304565	181	41171											
FHDC1	85462	broad.mit.edu	37	chr4	153896551	153896551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactctgagtgacttcagccCgatggagctagagtctgtgg	8	10	14	9	1	3	3	1	2	2	1	3	6	3	4	1	2	2	1	1	2	1	2	rs147950044		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:153896551C>T	uc003inf.2	+	11	2183	c.2108C>T	c.(2107-2109)CCG>CTG	p.P703L		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	703					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					GACTTCAGCCCGATGGAGCTA	0.622													9	36					0	0	0.004482	0	0		T	153896551	T	T	153896551	3	4	58	1	0	0	0	0	1	0	0	0	5890	652	23	1	2150	1	FHDC1	4	153896551	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2046840	153896551	37257725	182	41172											
PLRG1	5356	broad.mit.edu	37	chr4	155461762	155461762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttacccgtgcagttgaatctCgactacaggttaccaacaca	12	10	7	12	2	1	1	0	1	1	0	2	2	1	1	2	1	5	3	2	1	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:155461762C>T	uc003iny.2	-	10	986	c.923G>A	c.(922-924)CGA>CAA	p.R308Q	PLRG1_uc003inz.2_Missense_Mutation_p.R299Q|PLRG1_uc011cil.1_Missense_Mutation_p.R147Q	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	308	WD 3.					catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				AGTTGAATCTCGACTACAGGT	0.398													5	51					0	0	0.000602	0	0		T	155461762	T	T	155461762	3	4	58	1	0	0	0	0	1	0	0	0	12125	884	31	1	645	1	PLRG1	4	155461762	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1565211	155461762	35692514	183	41173											
ACCN5	51802	broad.mit.edu	37	chr4	156775402	156775402	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttcttgaagatggaggaCtttggatacaatgtgccata	13	13	10	5	0	1	2	0	1	1	1	1	5	1	5	1	3	2	0	1	3	5	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:156775402C>A	uc003ipe.1	-	3	459	c.412G>T	c.(412-414)GTC>TTC	p.V138F		NM_017419	NP_059115	Q9NY37	ACCN5_HUMAN	amiloride-sensitive cation channel 5,	138	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0464)|Kidney(143;0.058)|COAD - Colon adenocarcinoma(41;0.141)		AGATGGAGGACTTTGGATACA	0.383													10	58					2.17888e-05	2.34841e-05	0.006214	1	0		A	156775402	A	A	156775402	3	1	58	1	0	0	0	0	1	0	0	0	132	565	20	5	1137	5	ACCN5	4	156775402	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1313640	156775402	34378874	184	41174											
TDO2	6999	broad.mit.edu	37	chr4	156825181	156825181	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatttgcagatatacttttaAaaaactccccgtagaaggca	16	11	6	8	1	0	2	0	0	0	2	1	2	1	2	2	1	3	3	2	1	8	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:156825181A>C	uc003ipf.1	+	2	111	c.47A>C	c.(46-48)AAA>ACA	p.K16T		NM_005651	NP_005642	P48775	T23O_HUMAN	tryptophan 2,3-dioxygenase	16					tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)	TATACTTTTAAAAAACTCCCC	0.353													5	26					0	0	0.001168	0	0		C	156825181	C	C	156825181	3	2	58	1	0	0	0	0	1	0	0	0	15752	14	1	5	53	5	TDO2	4	156825181	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	49779	156825181	34329095	185	41175											
FAM198B	51313	broad.mit.edu	37	chr4	159092149	159092149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgctttttcctgcgcttggGcttcacggtgccacggatat	5	14	11	11	3	1	0	1	0	0	0	2	1	2	1	2	3	3	3	2	3	1	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:159092149G>A	uc003ipp.3	-	2	831	c.379C>T	c.(379-381)CCC>TCC	p.P127S	uc003ipu.1_5'Flank|FAM198B_uc003ipq.3_Missense_Mutation_p.P127S|FAM198B_uc003ipr.3_Missense_Mutation_p.P127S|FAM198B_uc003ips.2_Missense_Mutation_p.P127S|uc003ipt.1_RNA	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	127	Extracellular (Potential).					Golgi membrane|integral to membrane					0						CTGCGCTTGGGCTTCACGGTG	0.612													25	64					0	0	0.004656	0	0		A	159092149	A	A	159092149	3	1	58	1	0	0	0	0	1	0	0	0	5540	1203	42	2	1301	2	FAM198B	4	159092149	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2266968	159092149	32062127	186	41176											
TLL1	7092	broad.mit.edu	37	chr4	166915670	166915670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgttattccttatgttataGgaggaaacttcactggtaag	11	14	10	6	1	1	0	1	0	0	0	2	2	2	2	1	3	1	3	1	3	6	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:166915670G>A	uc003irh.1	+	4	1146	c.499G>A	c.(499-501)GGA>AGA	p.G167R	TLL1_uc011cjn.1_Missense_Mutation_p.G167R|TLL1_uc011cjo.1_5'UTR	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	167	Metalloprotease (By similarity).				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		TTATGTTATAGGAGGAAACTT	0.358													11	49					0	0	0.000978	0	0		A	166915670	A	A	166915670	3	1	58	1	0	0	0	0	1	0	0	0	15970	1001	35	4	513	4	TLL1	4	166915670	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	7823521	166915670	24238606	187	41177											
TRIP13	9319	broad.mit.edu	37	chr5	914598	914598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgtcagatcatataccctCgccagcagctgctgaccctc	9	9	8	15	1	2	2	2	1	0	1	4	2	2	2	3	0	4	3	3	0	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:914598C>T	uc003jbr.2	+	11	1149	c.1039C>T	c.(1039-1041)CGC>TGC	p.R347C		NM_004237	NP_004228	Q15645	PCH2_HUMAN	thyroid hormone receptor interactor 13	347					double-strand break repair|reciprocal meiotic recombination|synaptonemal complex assembly|transcription from RNA polymerase II promoter		ATP binding|identical protein binding|nucleoside-triphosphatase activity|transcription cofactor activity				0			Epithelial(17;0.00147)|OV - Ovarian serous cystadenocarcinoma(19;0.00271)|all cancers(22;0.00622)|Lung(60;0.165)			CATATACCCTCGCCAGCAGCT	0.512													25	181					0	0	0.004656	0	0		T	914598	T	T	914598	3	4	58	1	0	0	0	0	1	0	0	0	16583	884	31	1	1085	1	TRIP13	5	914598	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08		914598	180000662	188	41178											
SRD5A1	6715	broad.mit.edu	37	chr5	6633932	6633932	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgccccgcgtctccgcagCgcgcccaactgcatcctcct	4	7	8	22	6	1	0	0	0	1	0	5	0	4	0	7	0	3	2	7	0	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:6633932C>G	uc003jdw.2	+	1	433	c.243C>G	c.(241-243)AGC>AGG	p.S81R	NSUN2_uc003jdu.2_5'Flank|NSUN2_uc011cmk.1_5'Flank|NSUN2_uc003jdv.2_5'Flank|SRD5A1_uc011cml.1_RNA|SRD5A1_uc011cmm.1_Missense_Mutation_p.A90G	NM_001047	NP_001038	P18405	S5A1_HUMAN	steroid-5-alpha-reductase 1	81					androgen biosynthetic process|cell differentiation|sex determination|sex differentiation	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|electron carrier activity				0					Dutasteride(DB01126)|Finasteride(DB01216)	GTCTCCGCAGCGCGCCCAACT	0.736													7	43					0	0	0.001984	0	0		G	6633932	G	G	6633932	3	3	58	1	0	0	0	0	1	0	0	0	15163	767	27	5	245	5	SRD5A1	5	6633932	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	5719334	6633932	174281328	189	41179											
PAPD7	11044	broad.mit.edu	37	chr5	6753132	6753132	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccccaacccgctctcgagCcctcatctgtatcataaggt	8	10	6	17	2	4	0	2	0	2	0	6	1	5	0	4	1	2	2	4	1	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:6753132C>T	uc003jdx.1	+	12	1545	c.1416C>T	c.(1414-1416)AGC>AGT	p.S472S	PAPD7_uc011cmn.1_Silent_p.S463S|PAPD7_uc010itl.1_Silent_p.S292S	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	472					cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						CGCTCTCGAGCCCTCATCTGT	0.537													13	101					0	0	0.001368	0	0		T	6753132	T	T	6753132	2	4	58	1	0	0	0	0	0	0	0	1	11445	738	26	2		2	PAPD7	5	6753132	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	119200	6753132	174162128	190	41180											
DNAH5	1767	broad.mit.edu	37	chr5	13752383	13752383	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtggtttctgaagtacttgtGatttaaagacgtgatctagg	10	15	12	4	1	2	4	0	3	2	1	2	4	2	4	0	2	1	2	0	2	5	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:13752383G>C	uc003jfd.2	-	64	10930	c.10888C>G	c.(10888-10890)CAC>GAC	p.H3630D	DNAH5_uc003jfc.2_Translation_Start_Site	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3630	AAA 5 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AAGTACTTGTGATTTAAAGAC	0.413									Kartagener_syndrome				14	96					0	0	0.00245	0	0		C	13752383	C	C	13752383	3	2	58	1	0	0	0	0	1	0	0	0	4610	1290	45	5	3050	5	DNAH5	5	13752383	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	6999251	13752383	167162877	191	41181											
DNAH5	1767	broad.mit.edu	37	chr5	13919307	13919307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagtttcgacttggccGccgcaagcactgccagcaca	9	7	10	15	3	1	0	1	0	0	0	2	1	1	0	3	1	4	5	3	1	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:13919307G>A	uc003jfd.2	-	7	995	c.953C>T	c.(952-954)GCG>GTG	p.A318V	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	318	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CGACTTGGCCGCCGCAAGCAC	0.458									Kartagener_syndrome				6	96					0	0	0.001168	0	0		A	13919307	A	A	13919307	3	1	58	1	0	0	0	0	1	0	0	0	4610	1087	38	1	13213	1	DNAH5	5	13919307	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	166924	13919307	166995953	192	41182											
TRIO	7204	broad.mit.edu	37	chr5	14369554	14369554	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtgtggcggggcggataaGctgggcccaaactctgagac	8	7	17	9	2	1	1	0	1	1	1	1	3	1	2	1	6	2	1	1	6	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:14369554G>T	uc003jff.2	+	18	3144	c.3138G>T	c.(3136-3138)AAG>AAT	p.K1046N	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.K997N|TRIO_uc003jfh.1_Missense_Mutation_p.K695N	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1046					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GGGCGGATAAGCTGGGCCCAA	0.587													9	59					0.000274275	0.000290429	0.004482	1	0		T	14369554	T	T	14369554	3	4	58	1	0	0	0	0	1	0	0	0	16578	962	34	5	3208	5	TRIO	5	14369554	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	450247	14369554	166545706	193	41183											
PRDM9	56979	broad.mit.edu	37	chr5	23524462	23524462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggtatgtgaactgtgcccggGatgatgaagagcagaacctg	11	8	15	7	1	0	5	0	3	0	2	0	6	0	6	2	2	4	2	2	2	4	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:23524462G>A	uc003jgo.2	+	10	1152	c.970G>A	c.(970-972)GAT>AAT	p.D324N		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	324	SET.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						CTGTGCCCGGGATGATGAAGA	0.537										HNSCC(3;0.000094)			10	67					0	0	0.008291	0	0		A	23524462	A	A	23524462	3	1	58	1	0	0	0	0	1	0	0	0	12485	1174	41	4	1004	4	PRDM9	5	23524462	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	9154908	23524462	157390798	194	41184											
RAD1	5810	broad.mit.edu	37	chr5	34914837	34914837	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcacacactttgcatttTccactgttactttgatacca	9	16	4	12	0	0	1	0	1	0	0	1	1	1	1	2	0	4	3	2	0	2	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:34914837T>C	uc003jix.2	-	2	490	c.161A>G	c.(160-162)GAA>GGA	p.E54G	RAD1_uc003jiw.2_5'UTR|RAD1_uc003jiy.2_Missense_Mutation_p.E54G|BRIX1_uc003jiz.2_5'Flank|BRIX1_uc011col.1_5'Flank|BRIX1_uc003jja.2_5'Flank	NM_002853	NP_002844	O60671	RAD1_HUMAN	RAD1 homolog	54					DNA damage checkpoint|DNA repair|DNA replication|meiotic prophase I	nucleoplasm	3'-5' exonuclease activity|damaged DNA binding|exodeoxyribonuclease III activity|protein binding				0	all_lung(31;0.000107)	Lung NSC(810;5.19e-05)|Ovarian(839;0.0448)|Breast(839;0.198)	COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)			CTTTGCATTTTCCACTGTTAC	0.383								Other_conserved_DNA_damage_response_genes					17	82					0	0	0.007413	0	0		C	34914837	C	C	34914837	3	2	58	1	0	0	0	0	1	0	0	0	13003	1783	62	3	707	3	RAD1	5	34914837	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	11390375	34914837	146000423	195	41185											
SPEF2	79925	broad.mit.edu	37	chr5	35700701	35700701	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctgcaatagaaacctcAcagaagtggaaagaaaaaaa	21	4	9	7	0	1	3	1	0	0	3	1	4	1	4	1	2	2	2	1	2	8	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:35700701A>G	uc003jjo.2	+	16	2356	c.2245A>G	c.(2245-2247)ACA>GCA	p.T749A	SPEF2_uc003jjq.3_Missense_Mutation_p.T744A|SPEF2_uc003jjp.1_Missense_Mutation_p.T235A	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	749	Potential.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TAGAAACCTCACAGAAGTGGA	0.403													5	44					0	0	0.001168	0	0		G	35700701	G	G	35700701	3	3	58	1	0	0	0	0	1	0	0	0	15060	159	6	3	2328	3	SPEF2	5	35700701	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	785864	35700701	145214559	196	41186											
IL6ST	3572	broad.mit.edu	37	chr5	55260015	55260015	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatatgatctgatgtaaccTtcccaagggcattctctgct	9	14	8	10	0	2	3	0	3	2	0	4	3	3	3	2	1	2	3	2	1	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:55260015T>G	uc003jqq.2	-	6	872	c.617A>C	c.(616-618)AAG>ACG	p.K206T	IL6ST_uc010iwb.2_Missense_Mutation_p.K206T|IL6ST_uc010iwc.2_Intron|IL6ST_uc010iwd.2_Intron|IL6ST_uc011cqk.1_5'UTR|IL6ST_uc003jqr.2_Missense_Mutation_p.K206T|IL6ST_uc010iwf.1_RNA	NM_002184	NP_002175	P40189	IL6RB_HUMAN	interleukin 6 signal transducer isoform 1	206	Extracellular (Potential).|Fibronectin type-III 1.				interleukin-6-mediated signaling pathway|leukemia inhibitory factor signaling pathway|negative regulation of interleukin-6-mediated signaling pathway|positive regulation of anti-apoptosis|positive regulation of cardiac muscle hypertrophy|positive regulation of osteoblast differentiation|positive regulation of T cell proliferation|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation vascular endothelial growth factor production	ciliary neurotrophic factor receptor complex|extracellular region|extracellular space|interleukin-6 receptor complex|oncostatin-M receptor complex	ciliary neurotrophic factor receptor activity|ciliary neurotrophic factor receptor binding|growth factor binding|protein homodimerization activity			large_intestine(1)|ovary(1)	2		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)				TGATGTAACCTTCCCAAGGGC	0.363			O		hepatocellular ca								5	66					0	0	0.001168	0	0		G	55260015	G	G	55260015	3	3	58	1	0	0	0	0	1	0	0	0	7719	1609	56	5	2187	5	IL6ST	5	55260015	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	19559314	55260015	125655245	197	41187											
RNF180	285671	broad.mit.edu	37	chr5	63510031	63510031	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcctagtatgctgctgcAaagattttcagtggcccccc	8	12	9	12	0	1	2	1	1	0	1	2	2	2	2	4	1	3	4	4	1	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:63510031A>G	uc003jti.2	+	4	988	c.878A>G	c.(877-879)CAA>CGA	p.Q293R	RNF180_uc003jth.3_Missense_Mutation_p.Q293R|RNF180_uc010iws.2_Intron	NM_001113561	NP_001107033	Q86T96	RN180_HUMAN	ring finger protein 180 isoform 1	293	Interaction with ZIC2 (By similarity).|Cytoplasmic (Potential).					integral to membrane|nuclear envelope	zinc ion binding				0		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0848)|Colorectal(97;0.234)		Lung(70;0.114)		ATGCTGCTGCAAAGATTTTCA	0.423													8	78					0	0	0.00308	0	0		G	63510031	G	G	63510031	3	3	58	1	0	0	0	0	1	0	0	0	13489	130	5	3	888	3	RNF180	5	63510031	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	8250016	63510031	117405229	198	41188											
IQGAP2	10788	broad.mit.edu	37	chr5	75886244	75886244	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actttttagtacatgctgcaGttatagccattaatgaagca	13	14	7	7	0	0	1	0	1	0	0	0	1	0	1	1	0	5	5	1	0	6	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:75886244G>T	uc003kek.2	+	8	874	c.652G>T	c.(652-654)GTT>TTT	p.V218F		NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	218					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		ACATGCTGCAGTTATAGCCAT	0.378													8	62					1.06961e-07	1.18768e-07	0.00308	1	0		T	75886244	T	T	75886244	3	4	58	1	0	0	0	0	1	0	0	0	7831	1029	36	5	682	5	IQGAP2	5	75886244	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	12376213	75886244	105029016	199	41189											
RHOBTB3	22836	broad.mit.edu	37	chr5	95119546	95119546	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgatctgtgccgagatgtAccaagtgtccagactgcagc	9	9	11	12	1	1	3	0	1	1	2	2	4	2	3	4	0	4	2	4	0	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:95119546A>G	uc003klm.2	+	10	2039	c.1502A>G	c.(1501-1503)TAC>TGC	p.Y501C		NM_014899	NP_055714	O94955	RHBT3_HUMAN	rho-related BTB domain containing 3	501	Interaction with Rab9.				retrograde transport, endosome to Golgi	Golgi apparatus	ATP binding|ATPase activity|Rab GTPase binding			lung(1)|skin(1)	2		all_cancers(142;2.58e-06)|all_epithelial(76;4.19e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0164)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.79e-16)		GCCGAGATGTACCAAGTGTCC	0.468													25	124					0	0	0.004656	0	0		G	95119546	G	G	95119546	3	3	58	1	0	0	0	0	1	0	0	0	13360	391	14	3	1540	3	RHOBTB3	5	95119546	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	19233302	95119546	85795714	200	41190											
CHSY3	337876	broad.mit.edu	37	chr5	129520970	129520970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccagtttgacaatgacaCtttgctgctattttgtgatg	8	16	9	8	0	0	3	0	3	0	0	0	3	0	3	1	0	3	3	1	0	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:129520970C>T	uc003kvd.2	+	3	2135	c.2135C>T	c.(2134-2136)ACT>ATT	p.T712I		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	712	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		GACAATGACACTTTGCTGCTA	0.428													13	65					0	0	0.001368	0	0		T	129520970	T	T	129520970	3	4	58	1	0	0	0	0	1	0	0	0	3416	565	20	4	2145	4	CHSY3	5	129520970	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	34401424	129520970	51394290	201	41191											
TGFBI	7045	broad.mit.edu	37	chr5	135383090	135383090	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatcattgagatcgaggAcacctttgagacccttcggg	10	9	12	10	2	1	3	1	2	0	3	3	7	1	4	2	2	0	1	2	2	0	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:135383090A>G	uc003lbf.3	+	6	913	c.752A>G	c.(751-753)GAC>GGC	p.D251G	TGFBI_uc003lbg.3_5'UTR|TGFBI_uc003lbh.3_Missense_Mutation_p.D77G|TGFBI_uc011cyb.1_Missense_Mutation_p.D77G|TGFBI_uc010jed.2_5'Flank	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	251	FAS1 2.				angiogenesis|cell adhesion|cell proliferation|negative regulation of cell adhesion|response to stimulus|visual perception	extracellular space|proteinaceous extracellular matrix	integrin binding			breast(3)|ovary(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GAGATCGAGGACACCTTTGAG	0.572													13	199					0	0	0.00245	0	0		G	135383090	G	G	135383090	3	3	58	1	0	0	0	0	1	0	0	0	15845	275	10	3	774	3	TGFBI	5	135383090	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	5862120	135383090	45532170	202	41192											
EGR1	1958	broad.mit.edu	37	chr5	137802687	137802687	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcggcctcctccgcctcCgcctcccagagcccacccct	4	5	7	25	3	0	1	0	0	0	1	4	1	4	1	11	1	2	0	11	1	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:137802687C>T	uc003ldb.1	+	2	819	c.549C>T	c.(547-549)TCC>TCT	p.S183S	EGR1_uc011cyu.1_Intron	NM_001964	NP_001955	P18146	EGR1_HUMAN	early growth response 1	183					cellular response to heparin|cellular response to mycophenolic acid|glomerular mesangial cell proliferation|interleukin-1-mediated signaling pathway|positive regulation of glomerular metanephric mesangial cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of protein sumoylation|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytoplasm|nucleus	histone acetyltransferase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CCTCCGCCTCCGCCTCCCAGA	0.647													30	134					0	0	0.008361	0	0		T	137802687	T	T	137802687	2	4	58	1	0	0	0	0	0	0	0	1	4977	639	23	1		1	EGR1	5	137802687	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2419597	137802687	43112573	203	41193											
HSPA9	3313	broad.mit.edu	37	chr5	137894317	137894317	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacactttaatttccacttgCgtttgaccatcagcggcagt	9	13	7	12	2	1	1	1	1	0	0	2	1	2	1	2	1	2	2	2	1	1	5	rs149852902		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:137894317C>T	uc003ldf.2	-	12	1548	c.1440G>A	c.(1438-1440)ACG>ACA	p.T480T	HSPA9_uc003lde.2_5'Flank|HSPA9_uc011cyw.1_Silent_p.T411T	NM_004134	NP_004125	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 precursor	480					anti-apoptosis|protein folding	cell surface|mitochondrial nucleoid	ATP binding|unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TTTCCACTTGCGTTTGACCAT	0.413													10	77					0	0	0.006214	0	0		T	137894317	T	T	137894317	2	4	58	1	0	0	0	0	0	0	0	1	7433	755	27	1		1	HSPA9	5	137894317	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	91630	137894317	43020943	204	41194											
PCDHA12	56137	broad.mit.edu	37	chr5	140256667	140256667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagttccaggtgagcgCgcgcgacgccggcgtgccgc	4	5	17	15	8	0	1	0	1	0	0	1	2	1	1	3	2	3	3	3	2	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140256667C>T	uc003lic.2	+	1	1737	c.1610C>T	c.(1609-1611)GCG>GTG	p.A537V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.A537V	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	537	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGTGAGCGCGCGCGACGCC	0.687													27	103					0	0	0.005443	0	0		T	140256667	T	T	140256667	3	4	58	1	0	0	0	0	1	0	0	0	11541	768	27	1	1612	1	PCDHA12	5	140256667	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2362350	140256667	40658593	205	41195											
PCDHAC1	56135	broad.mit.edu	37	chr5	140307999	140307999	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcatccagtggggccatcActgccaaaacttcctttgac	11	10	7	13	0	2	1	2	1	0	0	4	1	4	1	4	2	2	0	4	2	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140307999A>G	uc003lih.2	+	1	1698	c.1522A>G	c.(1522-1524)ACT>GCT	p.T508A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.T508A	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	508	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGGCCATCACTGCCAAAAC	0.512													19	81					0	0	0.007413	0	0		G	140307999	G	G	140307999	3	3	58	1	0	0	0	0	1	0	0	0	11551	159	6	3	1524	3	PCDHAC1	5	140307999	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	51332	140307999	40607261	206	41196											
PCDHB1	29930	broad.mit.edu	37	chr5	140433387	140433387	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaagcgttttatgcccaacTtccctttccctcatgccact	7	15	4	15	1	1	0	1	0	0	0	3	0	3	0	4	0	4	1	4	0	3	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140433387T>A	uc003lik.1	+	1	2409	c.2332T>A	c.(2332-2334)TTC>ATC	p.F778I		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	778	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TATGCCCAACTTCCCTTTCCC	0.468													47	67					0	0	0.00361	0	0		A	140433387	A	A	140433387	3	1	58	1	0	0	0	0	1	0	0	0	11553	1609	56	5	2334	5	PCDHB1	5	140433387	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	125388	140433387	40481873	207	41197											
PCDHB2	56133	broad.mit.edu	37	chr5	140475743	140475743	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccgccttcacccaaaccTcctacaccctgttcgtccgc	6	8	4	23	3	1	0	1	0	0	0	4	0	3	0	8	0	2	1	8	0	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140475743T>C	uc003lil.2	+	1	1507	c.1369T>C	c.(1369-1371)TCC>CCC	p.S457P	PCDHB2_uc003lim.1_Missense_Mutation_p.S118P	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	457	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACCCAAACCTCCTACACCCT	0.622													28	169					0	0	0.00632	0	0		C	140475743	C	C	140475743	3	2	58	1	0	0	0	0	1	0	0	0	11561	1551	54	3	1371	3	PCDHB2	5	140475743	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	42356	140475743	40439517	208	41198											
PCDHB6	56130	broad.mit.edu	37	chr5	140531705	140531705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcgcacaatggcgaggtgCgcaccgccaggctgctgagc	7	4	17	13	4	0	1	0	1	0	0	0	2	0	1	2	4	3	4	2	4	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140531705C>T	uc003lir.2	+	1	1867	c.1867C>T	c.(1867-1869)CGC>TGC	p.R623C	PCDHB6_uc011dah.1_Missense_Mutation_p.R487C	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	623	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGCGAGGTGCGCACCGCCAG	0.687													12	55					0	0	0.001855	0	0		T	140531705	T	T	140531705	3	4	58	1	0	0	0	0	1	0	0	0	11565	768	27	1	1869	1	PCDHB6	5	140531705	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	55962	140531705	40383555	209	41199											
PCDHB8	56128	broad.mit.edu	37	chr5	140559252	140559252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggctttgagcagcgaggCgctggtgcgcgtgctggtgc	3	8	18	12	5	0	1	0	1	0	0	0	2	0	1	1	4	5	4	1	4	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140559252C>T	uc011dai.1	+	1	1823	c.1637C>T	c.(1636-1638)GCG>GTG	p.A546V	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	546	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCAGCGAGGCGCTGGTGCGC	0.697													10	61					0	0	0.008291	0	0		T	140559252	T	T	140559252	3	4	58	1	0	0	0	0	1	0	0	0	11567	768	27	1	1639	1	PCDHB8	5	140559252	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	27547	140559252	40356008	210	41200											
PCDHB13	56123	broad.mit.edu	37	chr5	140594824	140594824	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtttcagatcttgattcaGgagaaaatgggaaaattagt	14	13	11	3	0	3	3	2	1	1	2	3	5	3	4	0	2	0	1	0	2	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140594824G>T	uc003lja.1	+	1	1316	c.1129G>T	c.(1129-1131)GGA>TGA	p.G377*		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	377	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCTTGATTCAGGAGAAAATGG	0.463													17	151					4.14922e-12	4.78974e-12	0.004007	1	0		T	140594824	T	T	140594824	4	4	58	1	0	0	0	0	0	1	0	0	11557	1001	35	5	1131	5	PCDHB13	5	140594824	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	35572	140594824	40320436	211	41201											
PCDHB15	56121	broad.mit.edu	37	chr5	140625761	140625761	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaactggatcgcgaggagcaGgccgagctcagattaacctt	11	7	13	10	3	1	1	1	0	0	1	2	6	1	3	2	3	4	2	2	3	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140625761G>T	uc003lje.2	+	1	615	c.615G>T	c.(613-615)CAG>CAT	p.Q205H		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	205	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCGAGGAGCAGGCCGAGCTCA	0.562													8	42					0.00307968	0.0032009	0.00308	1	0		T	140625761	T	T	140625761	3	4	58	1	0	0	0	0	1	0	0	0	11559	991	35	5	617	5	PCDHB15	5	140625761	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	30937	140625761	40289499	212	41202											
PCDHGB3	56102	broad.mit.edu	37	chr5	140751508	140751508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggagcggggtggtgttcgCgcagcgagccttcgaccacg	5	6	18	12	7	0	0	0	0	0	0	2	3	0	1	2	4	3	2	2	4	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140751508C>T	uc003ljw.1	+	1	1547	c.1547C>T	c.(1546-1548)GCG>GTG	p.A516V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.A516V|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	516	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGTGTTCGCGCAGCGAGCC	0.677													7	51					0	0	0.001984	0	0		T	140751508	T	T	140751508	3	4	58	1	0	0	0	0	1	0	0	0	11583	768	27	1	1549	1	PCDHGB3	5	140751508	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	125747	140751508	40163752	213	41203											
PCDHGA6	56109	broad.mit.edu	37	chr5	140754789	140754789	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgagactctggcctgaatgGcctggtaacctgttccatcc	7	11	10	13	1	1	2	0	1	1	1	4	3	3	2	5	3	1	2	5	3	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140754789G>C	uc003ljy.1	+	1	1139	c.1139G>C	c.(1138-1140)GGC>GCC	p.G380A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.G380A	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	380	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCCTGAATGGCCTGGTAACC	0.453													20	60					0	0	0.008871	0	0		C	140754789	C	C	140754789	3	2	58	1	0	0	0	0	1	0	0	0	11577	1203	42	5	1141	5	PCDHGA6	5	140754789	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3281	140754789	40160471	214	41204											
PCDHGA8	9708	broad.mit.edu	37	chr5	140772926	140772926	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccacttctccctggacgtGcagactggagacaatggagc	10	7	11	13	1	1	2	0	0	1	2	2	5	1	4	2	3	2	1	2	3	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140772926G>T	uc003lkd.1	+	1	1444	c.546G>T	c.(544-546)GTG>GTT	p.V182V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Silent_p.V182V	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	182	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTGGACGTGCAGACTGGAG	0.617													8	55					0.00307968	0.0032009	0.00308	1	0		T	140772926	T	T	140772926	2	4	58	1	0	0	0	0	0	0	0	1	11579	1306	46	5		5	PCDHGA8	5	140772926	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	18137	140772926	40142334	215	41205											
PCDHGB7	56099	broad.mit.edu	37	chr5	140798806	140798806	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcagcctacctggtccaCgtgccagaaaacaaccagcc	12	5	8	16	1	1	1	1	0	0	1	2	1	2	1	6	1	6	0	6	1	4	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140798806C>T	uc003lkn.1	+	1	1525	c.1380C>T	c.(1378-1380)CAC>CAT	p.H460H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Silent_p.H460H|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	460	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCTGGTCCACGTGCCAGAAA	0.572													14	50					0	0	0.00245	0	0		T	140798806	T	T	140798806	2	4	58	1	0	0	0	0	0	0	0	1	11587	535	19	1		1	PCDHGB7	5	140798806	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	25880	140798806	40116454	216	41206											
DIAPH1	1729	broad.mit.edu	37	chr5	140906001	140906001	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcatccgcagcttgttatActgttcctgtgcatccttca	7	15	6	13	1	2	0	2	0	0	0	5	0	5	0	3	0	3	5	3	0	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140906001A>G	uc003llb.3	-	26	3442	c.3301T>C	c.(3301-3303)TAT>CAT	p.Y1101H	DIAPH1_uc011dbd.1_5'UTR|DIAPH1_uc003llc.3_Missense_Mutation_p.Y1092H	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	1101	Potential.|FH2.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCTTGTTATACTGTTCCTGT	0.408													14	44					0	0	0.003163	0	0		G	140906001	G	G	140906001	3	3	58	1	0	0	0	0	1	0	0	0	4524	391	14	3	533	3	DIAPH1	5	140906001	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	107195	140906001	40009259	217	41207											
DIAPH1	1729	broad.mit.edu	37	chr5	140908386	140908386	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaagctctcactcttacgTaactcctcacatgcagcagt	12	10	6	13	1	3	0	2	0	2	0	5	1	4	0	1	0	5	4	1	0	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140908386T>G	uc003llb.3	-	23	3042	c.2901A>C	c.(2899-2901)TTA>TTC	p.L967F	DIAPH1_uc011dbd.1_5'Flank|DIAPH1_uc003llc.3_Missense_Mutation_p.L958F|DIAPH1_uc010jgc.1_Missense_Mutation_p.L403F	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	967	FH2.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACTCTTACGTAACTCCTCAC	0.453													14	47					0	0	0.00245	0	0		G	140908386	G	G	140908386	3	3	58	1	0	0	0	0	1	0	0	0	4524	1635	57	5	945	5	DIAPH1	5	140908386	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	2385	140908386	40006874	218	41208											
PCDH12	51294	broad.mit.edu	37	chr5	141329002	141329002	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagggggtccctacctgtgCtggggtccagcagacttgac	6	8	14	13	0	0	2	0	1	0	1	2	2	2	2	4	4	3	2	4	4	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:141329002C>T	uc003llx.2	-	3	4336	c.3125G>A	c.(3124-3126)AGC>AAC	p.S1042N		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	1042	Cytoplasmic (Potential).				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTACCTGTGCTGGGGTCCAG	0.552													35	142					0	0	0.004289	0	0		T	141329002	T	T	141329002	3	4	58	1	0	0	0	0	1	0	0	0	11529	797	28	2	437	2	PCDH12	5	141329002	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	420616	141329002	39586258	219	41209											
HTR4	3360	broad.mit.edu	37	chr5	147889351	147889351	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctgtcctcatgcgatgAgtgctatgctggtctgccga	5	13	12	11	2	3	1	1	1	2	0	5	3	4	1	2	1	4	2	2	1	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:147889351A>G	uc003lpn.2	-	6	908	c.744T>C	c.(742-744)ACT>ACC	p.T248T	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Silent_p.T248T|HTR4_uc003lpj.1_Silent_p.T248T|HTR4_uc003lpk.2_Silent_p.T248T|HTR4_uc011dby.1_Silent_p.T248T|HTR4_uc003lpl.2_Silent_p.T262T|HTR4_uc003lpm.2_Silent_p.T248T|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Silent_p.T248T	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	248	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	TCATGCGATGAGTGCTATGCT	0.542													6	38					0	0	0.001984	0	0		G	147889351	G	G	147889351	2	3	58	1	0	0	0	0	0	0	0	1	7465	291	11	3		3	HTR4	5	147889351	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	6560349	147889351	33025909	220	41210											
ODZ2	57451	broad.mit.edu	37	chr5	167489185	167489185	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcacatcagtcagccccAgttcttaaagttcaacatct	13	12	4	12	0	6	0	4	0	2	0	6	0	6	0	2	0	2	2	2	0	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:167489185A>G	uc010jjd.2	+	7	1430	c.1430A>G	c.(1429-1431)CAG>CGG	p.Q477R	ODZ2_uc003lzq.2_Missense_Mutation_p.Q356R|ODZ2_uc003lzr.3_Missense_Mutation_p.Q245R	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		AGTCAGCCCCAGTTCTTAAAG	0.493													22	61					0	0	0.001882	0	0		G	167489185	G	G	167489185	3	3	58	1	0	0	0	0	1	0	0	0	10854	188	7	3	1456	3	ODZ2	5	167489185	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	19599834	167489185	13426075	221	41211											
DOCK2	1794	broad.mit.edu	37	chr5	169461447	169461447	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaccattgccaagtcggTggagaacttcgtgaacctgg	10	8	11	12	2	0	2	0	1	0	1	2	3	0	2	4	3	4	0	4	3	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:169461447T>G	uc003maf.2	+	35	3592	c.3512T>G	c.(3511-3513)GTG>GGG	p.V1171G	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.V663G	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1171	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCCAAGTCGGTGGAGAACTTC	0.572													10	45					0	0	0.006214	0	0		G	169461447	G	G	169461447	3	3	58	1	0	0	0	0	1	0	0	0	4693	1696	59	5	3650	5	DOCK2	5	169461447	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1972262	169461447	11453813	222	41212											
DOCK2	1794	broad.mit.edu	37	chr5	169506041	169506041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaggaaccgatctcccCggggagcaccctgcctgagg	8	4	15	14	2	1	1	0	1	1	0	2	5	1	4	5	5	3	2	5	5	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:169506041C>T	uc003maf.2	+	49	5137	c.5057C>T	c.(5056-5058)CCG>CTG	p.P1686L	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.P1178L|DOCK2_uc003mah.2_Missense_Mutation_p.P242L	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1686					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCGATCTCCCCGGGGAGCACC	0.557													18	76					0	0	0.00499	0	0		T	169506041	T	T	169506041	3	4	58	1	0	0	0	0	1	0	0	0	4693	652	23	1	5251	1	DOCK2	5	169506041	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	44594	169506041	11409219	223	41213											
NKX2-5	1482	broad.mit.edu	37	chr5	172660043	172660043	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacgctggccagctggtcGcgttcgggggccgacaggta	6	6	17	12	5	0	0	0	0	0	0	2	1	0	0	2	5	2	5	2	5	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:172660043G>A	uc003mcm.1	-	2	680	c.504C>T	c.(502-504)CGC>CGT	p.R168R	NKX2-5_uc011dfe.1_3'UTR|NKX2-5_uc010jjt.1_3'UTR	NM_004387	NP_004378	P52952	NKX25_HUMAN	NK2 transcription factor related, locus 5	168	Homeobox.				adult heart development|atrial cardiac muscle cell development|atrial septum morphogenesis|heart looping|hemopoiesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell apoptosis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|outflow tract septum morphogenesis|pharyngeal system development|positive regulation of calcium ion transport via voltage-gated calcium channel activity|positive regulation of cardioblast differentiation|positive regulation of cell proliferation|positive regulation of heart contraction|positive regulation of neuron differentiation|positive regulation of sodium ion transport|positive regulation of survival gene product expression|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of cardiac muscle contraction|right ventricular cardiac muscle tissue morphogenesis|septum secundum development|spleen development|thyroid gland development|vasculogenesis|ventricular septum morphogenesis		chromatin binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CCAGCTGGTCGCGTTCGGGGG	0.662													3	6					0	0	0.004672	0	0		A	172660043	A	A	172660043	2	1	58	1	0	0	0	0	0	0	0	1	10472	1074	38	1		1	NKX2-5	5	172660043	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3154002	172660043	8255217	224	41214											
RREB1	6239	broad.mit.edu	37	chr6	7226887	7226887	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggaagtttcctcgcatttctCaggtattctgatcagcccat	8	14	8	11	1	3	1	2	1	2	0	6	2	4	2	2	2	1	3	2	2	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:7226887C>G	uc003mxc.2	+	9	1285	c.895C>G	c.(895-897)CAG>GAG	p.Q299E	RREB1_uc003mxb.2_Missense_Mutation_p.Q299E|RREB1_uc010jnx.2_Missense_Mutation_p.Q299E	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	299					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				TCGCATTTCTCAGGTATTCTG	0.483													8	109					0	0	0.00308	0	0		G	7226887	G	G	7226887	3	3	58	1	0	0	0	0	1	0	0	0	13704	827	29	5	917	5	RREB1	6	7226887	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08		7226887	163888180	225	41215											
SNRNP48	154007	broad.mit.edu	37	chr6	7601644	7601644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctaactcaagctgatcGtcttgccctctatgatttcg	8	15	7	11	2	4	3	1	3	3	0	6	3	4	3	1	0	3	1	1	0	3	4	rs143226311		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:7601644G>A	uc003mxr.2	+	5	541	c.482G>A	c.(481-483)CGT>CAT	p.R161H	SNRNP48_uc003mxs.2_RNA	NM_152551	NP_689764	Q6IEG0	SNR48_HUMAN	U11/U12 snRNP 48K	161					mRNA processing	cytoplasm|U12-type spliceosomal complex	metal ion binding				0						CAAGCTGATCGTCTTGCCCTC	0.368													7	108					0	0	0.001984	0	0		A	7601644	A	A	7601644	3	1	58	1	0	0	0	0	1	0	0	0	14882	1145	40	1	500	1	SNRNP48	6	7601644	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	374757	7601644	163513423	226	41216											
NEDD9	4739	broad.mit.edu	37	chr6	11190485	11190485	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgagctgcttggcgtcatcGggcaccgtctttgccaccat	5	11	12	13	3	2	1	1	1	1	0	3	1	2	1	3	2	3	3	3	2	0	2	rs146690144		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:11190485G>A	uc003mzv.2	-	5	1784	c.1617C>T	c.(1615-1617)CCC>CCT	p.P539P	NEDD9_uc010joz.2_Silent_p.P539P|NEDD9_uc003mzw.3_Silent_p.P393P	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	539					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			TGGCGTCATCGGGCACCGTCT	0.562													22	107					0	0	0.00333	0	0		A	11190485	A	A	11190485	2	1	58	1	0	0	0	0	0	0	0	1	10332	1103	39	1		1	NEDD9	6	11190485	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3588841	11190485	159924582	227	41217											
JARID2	3720	broad.mit.edu	37	chr6	15501398	15501398	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctggagaagcgcaaggggCcgctggaaggccacacagag	11	3	16	11	2	0	2	0	0	0	2	1	4	1	3	3	5	1	2	3	5	3	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:15501398C>A	uc003nbj.2	+	8	2450	c.2206C>A	c.(2206-2208)CCG>ACG	p.P736T	JARID2_uc011div.1_Missense_Mutation_p.P564T|JARID2_uc011diw.1_Missense_Mutation_p.P698T	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	736					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				GCGCAAGGGGCCGCTGGAAGG	0.637													22	161					5.35356e-11	6.11318e-11	0.00278	1	0		A	15501398	A	A	15501398	3	1	58	1	0	0	0	0	1	0	0	0	7961	739	26	5	2236	5	JARID2	6	15501398	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4310913	15501398	155613669	228	41218											
FAM8A1	51439	broad.mit.edu	37	chr6	17608495	17608496	+	Frame_Shift_Ins	INS	-	T	T																															ctgctttcatcacactgctgINSttttttcagcataatcgaac																										TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:17608495_17608496insT	uc003ncc.2	+	5	1290_1291	c.1167_1168insT	c.(1165-1170)CTGTTTfs	p.L389fs		NM_016255	NP_057339	Q9UBU6	FA8A1_HUMAN	family with sequence similarity 8, member A1	389_390	RDD.|Helical; (Potential).					integral to membrane					0	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.143)	all cancers(50;0.176)|Epithelial(50;0.204)			TCACACTGCTGTTTTTTCAGCA	0.381													81	96	---	---	---	---						.	T	17608496	T	T	17608495	7	5	58	1	0	1	1	0	0	0	0	0	5663	1364	48	0	1185	0	FAM8A1	6	17608495	Frame_Shift_Ins	INS	-	TCGA-BR-8059-01A-11D-2340-08	2107097	17608495	153506572	229	41219											
HIST1H2AH	85235	broad.mit.edu	37	chr6	27114929	27114929	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtctggacgtggcaagcaaGgcggtaaagctcgcgccaag	10	6	15	10	4	1	0	0	0	1	0	2	1	1	1	1	4	2	4	1	4	5	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:27114929G>T	uc003niz.2	+	1	22	c.22G>T	c.(22-24)GGC>TGC	p.G8C	HIST1H2BK_uc003nix.1_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080596	NP_542163	Q96KK5	H2A1H_HUMAN	histone cluster 1, H2ah	8					nucleosome assembly	nucleosome|nucleus	DNA binding				0						TGGCAAGCAAGGCGGTAAAGC	0.557													16	54					6.94344e-10	7.86489e-10	0.006122	1	0		T	27114929	T	T	27114929	3	4	58	1	0	0	0	0	1	0	0	0	7150	1000	35	5	24	5	HIST1H2AH	6	27114929	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	9506434	27114929	144000138	230	41220											
DDR1	780	broad.mit.edu	37	chr6	30865334	30865334	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggacaaggcagccgaggggGcccctggggacgggcaggct	8	2	20	11	2	0	0	0	0	0	0	0	3	0	2	3	8	1	3	3	8	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:30865334G>C	uc003nrr.2	+	16	2435	c.2176G>C	c.(2176-2178)GCC>CCC	p.A726P	DDR1_uc010jse.2_Missense_Mutation_p.A689P|DDR1_uc003nrq.2_Missense_Mutation_p.A689P|DDR1_uc003nrs.2_Missense_Mutation_p.A726P|DDR1_uc003nrt.2_Missense_Mutation_p.A689P|DDR1_uc011dms.1_Missense_Mutation_p.A707P|DDR1_uc003nru.2_Missense_Mutation_p.A689P|DDR1_uc003nrv.2_Missense_Mutation_p.A732P|DDR1_uc003nrw.1_Missense_Mutation_p.A461P|DDR1_uc003nrz.1_Missense_Mutation_p.A51P	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	726	Cytoplasmic (Potential).|Protein kinase.				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	AGCCGAGGGGGCCCCTGGGGA	0.647													5	29					0	0	0.000602	0	0		C	30865334	C	C	30865334	3	2	58	1	0	0	0	0	1	0	0	0	4339	1203	42	5	2248	5	DDR1	6	30865334	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3750405	30865334	140249733	231	41221											
DPCR1	135656	broad.mit.edu	37	chr6	30919972	30919972	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcacaaagactataaaacCttcagtcaaggtcacaggag	17	7	8	9	0	4	1	4	0	0	1	4	2	4	2	1	2	1	0	1	2	5	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:30919972C>A	uc003nsg.2	+	2	3731	c.3731C>A	c.(3730-3732)CCT>CAT	p.P1244H		NM_080870	NP_543146	Q3MIW9	DPCR1_HUMAN	diffuse panbronchiolitis critical region 1	368	Extracellular (Potential).|Thr-rich.					integral to membrane					0						ACTATAAAACCTTCAGTCAAG	0.443													16	81					6.31663e-08	7.03234e-08	0.003163	1	0		A	30919972	A	A	30919972	3	1	58	1	0	0	0	0	1	0	0	0	4718	681	24	5	3737	5	DPCR1	6	30919972	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	54638	30919972	140195095	232	41222											
BAT5	7920	broad.mit.edu	37	chr6	31655315	31655315	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtccatctgcactcatgTcctcccctgcagagaggagg	7	8	11	15	1	2	1	1	0	1	1	5	3	5	2	5	2	2	2	5	2	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:31655315T>G	uc003nvy.1	-	19	1583	c.1553A>C	c.(1552-1554)GAC>GCC	p.D518A	BAT5_uc003nvx.1_Missense_Mutation_p.D299A|BAT5_uc011dny.1_Missense_Mutation_p.D485A|BAT5_uc003nvz.1_Missense_Mutation_p.D299A|BAT5_uc011dnz.1_Missense_Mutation_p.D299A	NM_021160	NP_066983	O95870	ABHGA_HUMAN	HLA-B associated transcript 5	518						integral to membrane	hydrolase activity|protein binding				0						TGCACTCATGTCCTCCCCTGC	0.587													24	111					0	0	0.00333	0	0		G	31655315	G	G	31655315	3	3	58	1	0	0	0	0	1	0	0	0	1325	1667	58	5	131	5	BAT5	6	31655315	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	735343	31655315	139459752	233	41223											
TAP1	6890	broad.mit.edu	37	chr6	32821354	32821354	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agtactgtccccagccatgcGagagaagctccggggaggca	10	5	14	12	2	0	1	0	0	0	1	2	4	2	2	4	3	4	3	4	3	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:32821354G>C	uc003ocg.2	-	1	395	c.240C>G	c.(238-240)CTC>CTG	p.L80L	TAP1_uc011dqi.1_5'Flank|PSMB9_uc011dqj.1_5'Flank|PSMB9_uc003sga.2_5'Flank	NM_000593	NP_000584	Q03518	TAP1_HUMAN	transporter 1, ATP-binding cassette, sub-family	80	Helical; Name=1; (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|cytosol to ER transport|intracellular transport of viral proteins in host cell|positive regulation of T cell mediated cytotoxicity	cytosol|plasma membrane|TAP complex	ADP binding|ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding			skin(1)	1						CCAGCCATGCGAGAGAAGCTC	0.711													9	22					0	0	0.004482	0	0		C	32821354	C	C	32821354	2	2	58	1	0	0	0	0	0	0	0	1	15575	1045	37	5		5	TAP1	6	32821354	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1166039	32821354	138293713	234	41224											
MDGA1	266727	broad.mit.edu	37	chr6	37619916	37619916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctaggctgctggtgactgCgggcagctcaggatcattgc	6	10	14	11	1	3	1	2	1	1	0	3	2	3	2	0	4	4	4	0	4	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:37619916C>T	uc003onu.1	-	7	2362	c.1183G>A	c.(1183-1185)GCA>ACA	p.A395T	MDGA1_uc003onw.3_RNA	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	395	Ig-like 4.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						CTGGTGACTGCGGGCAGCTCA	0.602													11	56					0	0	0.008291	0	0		T	37619916	T	T	37619916	3	4	58	1	0	0	0	0	1	0	0	0	9424	768	27	1	1728	1	MDGA1	6	37619916	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4798562	37619916	133495151	235	41225											
PGC	5225	broad.mit.edu	37	chr6	41705491	41705491	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggatataggaggaaggtgGcagagggaactccacaccat	14	5	15	7	0	0	1	0	0	0	1	1	6	1	5	2	6	1	1	2	6	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:41705491G>C	uc003ora.1	-	8	1040	c.991C>G	c.(991-993)CCA>GCA	p.P331A	TFEB_uc003oqs.1_5'Flank|TFEB_uc003oqt.1_5'Flank|TFEB_uc003oqu.1_5'Flank|TFEB_uc010jxq.1_5'Flank	NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor	331					digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GAGGAAGGTGGCAGAGGGAAC	0.532													4	44					0	0	0.009096	0	0		C	41705491	C	C	41705491	3	2	58	1	0	0	0	0	1	0	0	0	11804	1203	42	5	183	5	PGC	6	41705491	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4085575	41705491	129409576	236	41226											
TRERF1	55809	broad.mit.edu	37	chr6	42227283	42227283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccgaggacgcgcggggagCgcagctggctctggtacagg	6	4	18	13	5	1	0	0	0	1	0	1	3	1	2	2	6	3	4	2	6	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:42227283C>T	uc003osd.2	-	9	2626	c.2063G>A	c.(2062-2064)CGC>CAC	p.R688H	TRERF1_uc011duq.1_Missense_Mutation_p.R605H|TRERF1_uc003osb.2_Missense_Mutation_p.R444H|TRERF1_uc003osc.2_Missense_Mutation_p.R444H|TRERF1_uc003ose.2_Missense_Mutation_p.R708H	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	688	Pro-rich.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GCGCGGGGAGCGCAGCTGGCT	0.731													14	29					0	0	0.003163	0	0		T	42227283	T	T	42227283	3	4	58	1	0	0	0	0	1	0	0	0	16501	768	27	1	1579	1	TRERF1	6	42227283	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	521792	42227283	128887784	237	41227											
CUL7	9820	broad.mit.edu	37	chr6	43013029	43013029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggctccaggcctgtgcccGaaccatgtagaagaggcgtg	8	7	14	12	2	0	2	0	0	0	2	1	3	1	2	4	3	2	2	4	3	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:43013029G>A	uc003otq.2	-	15	3277	c.2974C>T	c.(2974-2976)CGG>TGG	p.R992W	CUL7_uc010jyg.2_Missense_Mutation_p.R271W|CUL7_uc011dvb.1_Missense_Mutation_p.R1076W|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	992	DOC.				interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GCCTGTGCCCGAACCATGTAG	0.602													5	55					0	0	0.001168	0	0		A	43013029	A	A	43013029	3	1	58	1	0	0	0	0	1	0	0	0	4063	1057	37	1	2170	1	CUL7	6	43013029	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	785746	43013029	128102038	238	41228											
ABCC10	89845	broad.mit.edu	37	chr6	43415496	43415496	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgtaccggccagggctgccGaatgccctggatggagtgac	7	6	16	12	3	0	1	0	1	0	0	0	4	0	3	4	4	3	2	4	4	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:43415496G>A	uc003ouy.1	+	18	3995	c.3780G>A	c.(3778-3780)CCG>CCA	p.P1260P	ABCC10_uc003ouz.1_Silent_p.P1232P|ABCC10_uc010jyo.1_Silent_p.P366P	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	1260	ABC transporter 2.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CAGGGCTGCCGAATGCCCTGG	0.657													34	228					0	0	0.003271	0	0		A	43415496	A	A	43415496	2	1	58	1	0	0	0	0	0	0	0	1	50	1045	37	1		1	ABCC10	6	43415496	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	402467	43415496	127699571	239	41229											
PKHD1	5314	broad.mit.edu	37	chr6	51907739	51907739	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttctccagtggcactgatGgcaagaccagagggtctcac	9	9	11	12	0	3	3	1	1	3	2	5	3	3	3	2	3	0	2	2	3	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:51907739G>A	uc003pah.1	-	27	3291	c.3015C>T	c.(3013-3015)GCC>GCT	p.A1005A	PKHD1_uc003pai.2_Silent_p.A1005A	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1005	IPT/TIG 4.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TGGCACTGATGGCAAGACCAG	0.473													19	96					0	0	0.010504	0	0		A	51907739	A	A	51907739	2	1	58	1	0	0	0	0	0	0	0	1	11990	1335	47	4		4	PKHD1	6	51907739	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	8492243	51907739	119207328	240	41230											
MCM3	4172	broad.mit.edu	37	chr6	52133966	52133966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttgctcatgcgggccttcGcatgggctgtggccagtcga	4	11	14	12	3	2	0	1	0	1	0	4	1	2	0	2	3	2	3	2	3	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:52133966G>A	uc003pan.1	-	13	1996	c.1886C>T	c.(1885-1887)GCG>GTG	p.A629V	MCM3_uc011dwu.1_Missense_Mutation_p.A583V	NM_002388	NP_002379	P25205	MCM3_HUMAN	minichromosome maintenance complex component 3	629					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	alpha DNA polymerase:primase complex|centrosome|MCM complex|perinuclear region of cytoplasm	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)|lung(1)|skin(1)	3	Lung NSC(77;0.0931)					GCGGGCCTTCGCATGGGCTGT	0.507													16	47					0	0	0.003163	0	0		A	52133966	A	A	52133966	3	1	58	1	0	0	0	0	1	0	0	0	9405	1087	38	1	560	1	MCM3	6	52133966	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	226227	52133966	118981101	241	41231											
EFHC1	114327	broad.mit.edu	37	chr6	52329713	52329713	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaacttccctcagtgtgtgCtagaaatctctgaccaagaa	13	10	8	10	0	2	4	1	1	1	3	4	4	3	4	2	0	2	1	2	0	5	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:52329713C>T	uc003pap.3	+	6	1152	c.937C>T	c.(937-939)CTA>TTA	p.L313L	EFHC1_uc011dwv.1_Silent_p.L222L|EFHC1_uc011dww.1_Silent_p.L294L	NM_018100	NP_060570	Q5JVL4	EFHC1_HUMAN	EF-hand domain (C-terminal) containing 1	313	DM10 2.					axoneme|neuronal cell body	calcium ion binding|protein C-terminus binding			ovary(2)|skin(1)	3	Lung NSC(77;0.109)					TCAGTGTGTGCTAGAAATCTC	0.393													6	48					0	0	0.001168	0	0		T	52329713	T	T	52329713	2	4	58	1	0	0	0	0	0	0	0	1	4952	796	28	2		2	EFHC1	6	52329713	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	195747	52329713	118785354	242	41232											
FAM83B	222584	broad.mit.edu	37	chr6	54805046	54805046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgatagtctcagtgtggCgtcctcatcacgggaaggct	8	11	12	10	2	4	1	3	1	2	0	6	2	5	2	1	3	0	1	1	3	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:54805046C>T	uc003pck.2	+	5	1393	c.1277C>T	c.(1276-1278)GCG>GTG	p.A426V		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	426										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					CTCAGTGTGGCGTCCTCATCA	0.483													17	63					0	0	0.004007	0	0		T	54805046	T	T	54805046	3	4	58	1	0	0	0	0	1	0	0	0	5648	768	27	1	1291	1	FAM83B	6	54805046	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2475333	54805046	116310021	243	41233											
COL21A1	81578	broad.mit.edu	37	chr6	56006611	56006611	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catctcgccctggttctcctTtgtaacctggtagtcctcga	5	14	8	14	2	2	0	0	0	2	0	6	1	3	0	4	2	1	3	4	2	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:56006611T>C	uc003pcs.2	-	12	1746	c.1514A>G	c.(1513-1515)AAA>AGA	p.K505R	COL21A1_uc003pct.1_RNA|COL21A1_uc011dxi.1_Missense_Mutation_p.K505R|COL21A1_uc003pcu.1_Missense_Mutation_p.K502R	NM_030820	NP_110447	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1 precursor	505	Collagen-like 1.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(2)	2	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			TGGTTCTCCTTTGTAACCTGG	0.338													10	47					0	0	0.001368	0	0		C	56006611	C	C	56006611	3	2	58	1	0	0	0	0	1	0	0	0	3683	1841	64	3	1435	3	COL21A1	6	56006611	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1201565	56006611	115108456	244	41234											
BAI3	577	broad.mit.edu	37	chr6	69665963	69665963	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtggagccagtgctcagtaAcgtgctcgaatgggactcag	9	8	14	10	3	2	0	2	0	0	0	3	3	2	2	1	2	4	3	1	2	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:69665963A>C	uc003pev.3	+	7	1691	c.1243A>C	c.(1243-1245)ACG>CCG	p.T415P	BAI3_uc010kak.2_Missense_Mutation_p.T415P	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	415	TSP type-1 3.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				GTGCTCAGTAACGTGCTCGAA	0.537													6	29					0	0	0.001168	0	0		C	69665963	C	C	69665963	3	2	58	1	0	0	0	0	1	0	0	0	1301	43	2	5	1261	5	BAI3	6	69665963	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	13659352	69665963	101449104	245	41235											
EEF1A1	1915	broad.mit.edu	37	chr6	74228300	74228300	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgggtttgagaacaccaGtctccactcggccaacagga	11	7	10	13	2	1	1	0	1	1	1	3	3	1	2	4	3	3	1	4	3	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:74228300G>C	uc003phi.2	-	5	843	c.806C>G	c.(805-807)ACT>AGT	p.T269S	EEF1A1_uc003phd.2_5'UTR|EEF1A1_uc003phe.2_Missense_Mutation_p.T259S|EEF1A1_uc003phf.2_Missense_Mutation_p.T269S|EEF1A1_uc003phg.2_Missense_Mutation_p.T269S|EEF1A1_uc003phh.2_Missense_Mutation_p.T115S|EEF1A1_uc003phj.2_Missense_Mutation_p.T269S|EEF1A1_uc003phk.2_Missense_Mutation_p.T269S|EEF1A1_uc003phl.2_Intron|EEF1A1_uc003phm.1_Intron	NM_001402	NP_001393	P68104	EF1A1_HUMAN	eukaryotic translation elongation factor 1 alpha	269						cytosol|eukaryotic translation elongation factor 1 complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0						GAGAACACCAGTCTCCACTCG	0.423											OREG0003895	type=REGULATORY REGION|Gene=D16891|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	17	65					0	0	0.001882	0	0		C	74228300	C	C	74228300	3	2	58	1	0	0	0	0	1	0	0	0	4929	1029	36	5	594	5	EEF1A1	6	74228300	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4562337	74228300	96886767	246	41236											
MDN1	23195	broad.mit.edu	37	chr6	90422432	90422432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatctggccacagtcccatgCcaagaatggagtctccccag	11	7	9	14	0	2	1	0	0	2	1	4	2	3	2	5	2	1	0	5	2	3	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:90422432C>T	uc003pnn.1	-	48	7408	c.7292G>A	c.(7291-7293)GGC>GAC	p.G2431D		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2431					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CAGTCCCATGCCAAGAATGGA	0.458													7	62					0	0	0.001984	0	0		T	90422432	T	T	90422432	3	4	58	1	0	0	0	0	1	0	0	0	9433	739	26	2	9718	2	MDN1	6	90422432	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	16194132	90422432	80692635	247	41237											
SIM1	6492	broad.mit.edu	37	chr6	100838323	100838323	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatgggaagttacatcaaAgtgtgagccattacagccca	14	8	10	9	0	1	2	1	1	0	1	1	3	1	3	2	1	4	1	2	1	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:100838323A>T	uc003pqj.3	-	11	2422	c.2215T>A	c.(2215-2217)TTT>ATT	p.F739I	SIM1_uc010kcu.2_Missense_Mutation_p.F739I	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	739	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		GTTACATCAAAGTGTGAGCCA	0.423													14	77					0	0	0.001855	0	0		T	100838323	T	T	100838323	3	4	58	1	0	0	0	0	1	0	0	0	14348	72	3	5	89	5	SIM1	6	100838323	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	10415891	100838323	70276744	248	41238											
MICAL1	64780	broad.mit.edu	37	chr6	109770982	109770982	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagaagctggtacaggcTctcactgagggggtgagggt	9	8	17	7	0	1	4	1	3	1	1	2	4	1	4	0	5	2	3	0	5	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:109770982T>G	uc003ptj.2	-	9	1566	c.1312A>C	c.(1312-1314)AGC>CGC	p.S438R	MICAL1_uc003ptk.2_Missense_Mutation_p.S438R|MICAL1_uc010kdr.2_Missense_Mutation_p.S352R|MICAL1_uc011eaq.1_Missense_Mutation_p.S457R	NM_022765	NP_073602	Q8TDZ2	MICA1_HUMAN	microtubule associated monoxygenase, calponin	438					cytoskeleton organization|signal transduction	cytoplasm|intermediate filament	SH3 domain binding|zinc ion binding			breast(2)|ovary(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		TGGTACAGGCTCTCACTGAGG	0.587													10	43					0	0	0.006214	0	0		G	109770982	G	G	109770982	3	3	58	1	0	0	0	0	1	0	0	0	9587	1551	54	5	1955	5	MICAL1	6	109770982	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	8932659	109770982	61344085	249	41239											
TBPL1	9519	broad.mit.edu	37	chr6	134305583	134305583	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgccatttgaaatccgtttgCcagaattcacaaagaacaat	15	11	6	9	1	1	3	1	1	0	2	2	3	2	3	3	0	3	1	3	0	5	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:134305583C>A	uc010kgg.2	+	5	912	c.352C>A	c.(352-354)CCA>ACA	p.P118T	TBPL1_uc003qel.2_Missense_Mutation_p.P118T	NM_004865	NP_004856	P62380	TBPL1_HUMAN	TBP-like 1	118					regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	cytoplasm	DNA binding|protein binding|transcription coactivator activity				0	Colorectal(23;0.221)|Breast(56;0.247)			GBM - Glioblastoma multiforme(68;0.00591)|OV - Ovarian serous cystadenocarcinoma(155;0.00848)		AATCCGTTTGCCAGAATTCAC	0.318													7	36					8.12818e-05	8.67212e-05	0.001984	1	0		A	134305583	A	A	134305583	3	1	58	1	0	0	0	0	1	0	0	0	15670	739	26	5	366	5	TBPL1	6	134305583	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	24534601	134305583	36809484	250	41240											
PEX7	5191	broad.mit.edu	37	chr6	137187777	137187777	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttactaggtgatcagactcTgagaatatgggatgtgaagg	12	12	13	4	0	2	4	1	3	1	2	2	6	2	5	0	3	1	0	0	3	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:137187777T>C	uc003qhd.2	+	6	641	c.539T>C	c.(538-540)CTG>CCG	p.L180P	PEX7_uc010kgx.2_RNA	NM_000288	NP_000279	O00628	PEX7_HUMAN	peroxisomal biogenesis factor 7	180	WD 3.				ether lipid biosynthetic process|protein import into peroxisome matrix	peroxisome	peroxisome matrix targeting signal-2 binding				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000257)|OV - Ovarian serous cystadenocarcinoma(155;0.00492)		GATCAGACTCTGAGAATATGG	0.393													7	40					0	0	0.001984	0	0		C	137187777	C	C	137187777	3	2	58	1	0	0	0	0	1	0	0	0	11770	1580	55	3	561	3	PEX7	6	137187777	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	2882194	137187777	33927290	251	41241											
VTA1	51534	broad.mit.edu	37	chr6	142468427	142468427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgagttcggagtagagatGgccgcgcttgcaccgctgcc	6	8	16	11	4	0	2	0	1	0	1	1	4	0	3	3	3	2	5	3	3	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:142468427G>A	uc003qiw.2	+	1	18	c.3G>A	c.(1-3)ATG>ATA	p.M1I	VTA1_uc011edt.1_RNA|VTA1_uc011edu.1_5'UTR	NM_016485	NP_057569	Q9NP79	VTA1_HUMAN	Vps20-associated 1 homolog	1					cellular membrane organization|endosome transport|protein transport	cytosol|endosome membrane	protein binding				0	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;1.34e-05)|GBM - Glioblastoma multiforme(68;0.00182)		GAGTAGAGATGGCCGCGCTTG	0.632											OREG0017699	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	22					0	0	0.00308	0	0		A	142468427	A	A	142468427	3	1	58	1	0	0	0	0	1	0	0	0	17259	1348	47	4	5	4	VTA1	6	142468427	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	5280650	142468427	28646640	252	41242											
SYNE1	23345	broad.mit.edu	37	chr6	152639292	152639292	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtcagttttcctatcttcTtggccagtggcttacccagt	6	15	8	12	0	3	0	1	0	2	0	4	0	4	0	3	2	1	2	3	2	2	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:152639292T>A	uc010kiw.2	-	86	17098	c.16496A>T	c.(16495-16497)AAG>ATG	p.K5499M	SYNE1_uc010kiv.2_Missense_Mutation_p.K23M|SYNE1_uc003qos.3_Missense_Mutation_p.K23M|SYNE1_uc003qot.3_Missense_Mutation_p.K5428M|SYNE1_uc003qou.3_Missense_Mutation_p.K5499M|SYNE1_uc010kiz.2_Missense_Mutation_p.K1254M	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5499	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCCTATCTTCTTGGCCAGTGG	0.453										HNSCC(10;0.0054)			15	96					0	0	0.00245	0	0		A	152639292	A	A	152639292	3	1	58	1	0	0	0	0	1	0	0	0	15470	1609	56	5	10214	5	SYNE1	6	152639292	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	10170865	152639292	18475775	253	41243											
IPCEF1	26034	broad.mit.edu	37	chr6	154489165	154489165	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttttagtcgaaggtcgtcGgtccccaagaggagatagac	10	10	12	9	3	0	3	0	0	0	3	4	5	1	3	2	3	0	0	2	3	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:154489165G>A	uc003qpx.2	-	11	1147	c.991C>T	c.(991-993)CGA>TGA	p.R331*	OPRM1_uc003qpt.1_Intron|IPCEF1_uc003qpv.2_Nonsense_Mutation_p.R202*|IPCEF1_uc003qpw.2_Nonsense_Mutation_p.R332*|IPCEF1_uc010kjh.2_Nonsense_Mutation_p.R332*	NM_015553	NP_056368	Q8WWN9	ICEF1_HUMAN	phosphoinositide-binding protein PIP3-E isoform	331					response to oxidative stress	cytoplasm|plasma membrane	oxygen transporter activity|peroxidase activity				0						GAAGGTCGTCGGTCCCCAAGA	0.368													12	191					0	0	0.001368	0	0		A	154489165	A	A	154489165	4	1	58	1	0	0	0	0	0	1	0	0	7807	1124	39	1	330	1	IPCEF1	6	154489165	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1849873	154489165	16625902	254	41244											
TFB1M	51106	broad.mit.edu	37	chr6	155632375	155632375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaccagaagttcagcgaCgtcggcattaagaatagatc	15	7	9	10	3	1	3	1	0	0	3	3	4	1	3	2	1	2	2	2	1	5	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:155632375C>T	uc003qqj.3	-	2	296	c.232G>A	c.(232-234)GTC>ATC	p.V78I	TFB1M_uc003qqk.2_Intron	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	78					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		AGTTCAGCGACGTCGGCATTA	0.433													15	69					0	0	0.00245	0	0		T	155632375	T	T	155632375	3	4	58	1	0	0	0	0	1	0	0	0	15818	536	19	1	832	1	TFB1M	6	155632375	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1143210	155632375	15482692	255	41245											
TULP4	56995	broad.mit.edu	37	chr6	158922885	158922885	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccaaccagacgacagcTgtagggacagcagaacatgc	14	4	11	12	1	0	3	0	1	0	2	0	5	0	4	2	1	5	3	2	1	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:158922885T>C	uc003qrf.2	+	13	3547	c.2190T>C	c.(2188-2190)GCT>GCC	p.A730A	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	730					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		AGACGACAGCTGTAGGGACAG	0.567													24	145					0	0	0.00278	0	0		C	158922885	C	C	158922885	2	2	58	1	0	0	0	0	0	0	0	1	16802	1567	55	3		3	TULP4	6	158922885	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	3290510	158922885	12192182	256	41246											
EZR	7430	broad.mit.edu	37	chr6	159204595	159204595	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtccaagggcatcaactcCaagccaaaggtctgttcctt	11	9	8	13	0	2	0	1	0	1	0	5	0	5	0	4	2	2	2	4	2	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:159204595C>G	uc003qrt.3	-	6	870	c.655G>C	c.(655-657)GGA>CGA	p.G219R	EZR_uc011efs.1_Missense_Mutation_p.G187R|EZR_uc003qru.3_Missense_Mutation_p.G219R	NM_003379	NP_003370	P15311	EZRI_HUMAN	ezrin	219	FERM.				actin filament bundle assembly|axon guidance|cytoskeletal anchoring at plasma membrane|leukocyte cell-cell adhesion|membrane to membrane docking|regulation of cell shape	actin filament|apical plasma membrane|basolateral plasma membrane|cortical cytoskeleton|cytosol|extrinsic to membrane|filopodium|microvillus membrane|nucleolus|ruffle membrane	actin filament binding|cell adhesion molecule binding			ovary(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-17)|BRCA - Breast invasive adenocarcinoma(81;6.58e-06)		GCATCAACTCCAAGCCAAAGG	0.398													7	82					0	0	0.001984	0	0		G	159204595	G	G	159204595	3	3	58	1	0	0	0	0	1	0	0	0	5343	603	21	5	1137	5	EZR	6	159204595	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	281710	159204595	11910472	257	41247											
WTAP	9589	broad.mit.edu	37	chr6	160164762	160164762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaacagcaggagtctgcaCgcagggaaaacatccttgta	15	6	10	10	1	1	0	0	0	1	0	2	2	2	2	1	2	5	4	1	2	5	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:160164762C>T	uc003qsl.2	+	5	433	c.211C>T	c.(211-213)CGC>TGC	p.R71C	WTAP_uc010kjx.2_Missense_Mutation_p.R71C|WTAP_uc003qsk.2_Missense_Mutation_p.R71C|WTAP_uc003qsm.1_RNA|WTAP_uc003qsn.2_Missense_Mutation_p.R71C	NM_004906	NP_004897	Q15007	FL2D_HUMAN	Wilms' tumour 1-associating protein isoform 1	71					cell cycle|mRNA processing|RNA splicing	nuclear membrane|nucleolus					0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.75e-18)|BRCA - Breast invasive adenocarcinoma(81;5.93e-06)		GGAGTCTGCACGCAGGGAAAA	0.353													7	46					0	0	0.00308	0	0		T	160164762	T	T	160164762	3	4	58	1	0	0	0	0	1	0	0	0	17435	536	19	1	225	1	WTAP	6	160164762	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	960167	160164762	10950305	258	41248											
MAP3K4	4216	broad.mit.edu	37	chr6	161494549	161494549	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggcctgctgatgaagcagTactaccagttcatgctgcag	9	9	12	11	1	1	2	1	2	0	0	1	2	1	2	2	1	6	6	2	1	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:161494549T>C	uc003qtn.2	+	5	2144	c.2002T>C	c.(2002-2004)TAC>CAC	p.Y668H	MAP3K4_uc010kkc.1_Missense_Mutation_p.Y668H|MAP3K4_uc003qto.2_Missense_Mutation_p.Y668H|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.Y121H	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	668					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		GATGAAGCAGTACTACCAGTT	0.502													8	48					0	0	0.006214	0	0		C	161494549	C	C	161494549	3	2	58	1	0	0	0	0	1	0	0	0	9270	1638	57	3	2020	3	MAP3K4	6	161494549	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1329787	161494549	9620518	259	41249											
MAP3K4	4216	broad.mit.edu	37	chr6	161510388	161510388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actagttgtcatgcagtctgCgcatctcacaattcagagaa	12	11	8	10	1	4	1	3	0	2	1	5	2	4	1	0	0	2	3	0	0	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:161510388C>T	uc003qtn.2	+	11	3000	c.2858C>T	c.(2857-2859)GCG>GTG	p.A953V	MAP3K4_uc010kkc.1_Missense_Mutation_p.A953V|MAP3K4_uc003qto.2_Missense_Mutation_p.A953V|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.A406V|MAP3K4_uc003qtp.2_5'Flank	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	953					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		ATGCAGTCTGCGCATCTCACA	0.453													17	137					0	0	0.00499	0	0		T	161510388	T	T	161510388	3	4	58	1	0	0	0	0	1	0	0	0	9270	768	27	1	2900	1	MAP3K4	6	161510388	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	15839	161510388	9604679	260	41250											
GPER	2852	broad.mit.edu	37	chr7	1131429	1131429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaggcaccgcgcagcctgCggcccccaacaccacctccc	7	2	8	24	3	0	0	0	0	0	0	1	0	1	0	8	2	3	2	8	2	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:1131429C>T	uc010ksd.1	+	2	454	c.65C>T	c.(64-66)GCG>GTG	p.A22V	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPER_uc003sjz.1_Missense_Mutation_p.A22V|GPER_uc003ska.1_Missense_Mutation_p.A22V|GPER_uc003skb.2_Missense_Mutation_p.A22V	NM_001098201	NP_001091671	Q99527	GPER_HUMAN	G protein-coupled receptor 30	22	Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;2.32e-16)		GCGCAGCCTGCGGCCCCCAAC	0.652													7	64					0	0	0.00308	0	0		T	1131429	T	T	1131429	3	4	58	1	0	0	0	0	1	0	0	0	6622	768	27	1	67	1	GPER	7	1131429	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08		1131429	158007234	261	41251											
SDK1	221935	broad.mit.edu	37	chr7	4088996	4088996	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagtgcccaccgcgcccccGcagaacgtgcagacggaagc	10	2	12	17	5	0	2	0	0	0	2	0	3	0	3	4	1	4	2	4	1	2	0	rs146784103		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:4088996G>A	uc003smx.2	+	18	2758	c.2619G>A	c.(2617-2619)CCG>CCA	p.P873P	SDK1_uc010kso.2_Silent_p.P149P	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	873	Fibronectin type-III 3.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CCGCGCCCCCGCAGAACGTGC	0.567													5	33					0	0	0.000602	0	0		A	4088996	A	A	4088996	2	1	58	1	0	0	0	0	0	0	0	1	13993	1074	38	1		1	SDK1	7	4088996	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2957567	4088996	155049667	262	41252											
TNRC18	84629	broad.mit.edu	37	chr7	5348924	5348924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaacacggcacagtcccCgatacggatcatctccttgc	10	7	10	14	3	2	0	1	0	1	0	4	4	3	2	3	3	3	1	3	3	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:5348924C>T	uc003soi.3	-	28	8813	c.8464G>A	c.(8464-8466)GGG>AGG	p.G2822R		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2822	BAH.						DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GCACAGTCCCCGATACGGATC	0.637													3	21					0	0	0.009096	0	0		T	5348924	T	T	5348924	3	4	58	1	0	0	0	0	1	0	0	0	16364	652	23	1	454	1	TNRC18	7	5348924	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1259928	5348924	153789739	263	41253											
SP8	221833	broad.mit.edu	37	chr7	20825340	20825340	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgagagggaggagggagaCgggctggggctgcctatctt	7	7	19	8	2	1	2	0	0	1	2	2	6	2	4	2	6	1	2	2	6	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:20825340C>T	uc003suy.2	-	3	283	c.42G>A	c.(40-42)CCG>CCA	p.P14P	SP8_uc003suz.2_Silent_p.P32P	NM_198956	NP_945194	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor isoform 2	14	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						AGGAGGGAGACGGGCTGGGGC	0.597													5	47					0	0	0.001168	0	0		T	20825340	T	T	20825340	2	4	58	1	0	0	0	0	0	0	0	1	14995	523	19	1		1	SP8	7	20825340	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	15476416	20825340	138313323	264	41254											
STK31	56164	broad.mit.edu	37	chr7	23749937	23749937	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcactcttctagagcttcCgcaacggaaagtgtgaggtc	9	10	12	10	2	3	2	1	1	2	1	5	3	4	3	1	3	2	2	1	3	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:23749937C>G	uc003sws.3	+	1	100	c.33C>G	c.(31-33)TCC>TCG	p.S11S	STK31_uc003swt.3_5'UTR|STK31_uc011jze.1_Silent_p.S11S|STK31_uc010kuq.2_5'Flank	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	11							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						CTAGAGCTTCCGCAACGGAAA	0.557													10	33					0	0	0.000978	0	0		G	23749937	G	G	23749937	2	3	58	1	0	0	0	0	0	0	0	1	15321	639	23	5		5	STK31	7	23749937	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2924597	23749937	135388726	265	41255											
HOXA10	3206	broad.mit.edu	37	chr7	27213459	27213459	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tgttctgcgcgaaagagcacGaggtggcctgcggcgctggc	6	7	17	11	5	1	1	0	0	1	1	1	3	1	1	1	4	3	3	1	4	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:27213459G>C	uc011jzm.1	-	1	497	c.467C>G	c.(466-468)TCG>TGG	p.S156W	HOXA10_uc003syw.3_Intron	NM_018951	NP_061824	P31260	HXA10_HUMAN	homeobox A10 isoform a	156					spermatogenesis		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GAAAGAGCACGAGGTGGCCTG	0.512													3	16					0	0	0.001168	0	0		C	27213459	C	C	27213459	3	2	58	1	0	0	0	0	1	0	0	0	7305	1059	37	5	773	5	HOXA10	7	27213459	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3463522	27213459	131925204	266	41256											
ELMO1	9844	broad.mit.edu	37	chr7	37264526	37264526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgatggtgatctcctgcGccactttctggtagaggtca	6	11	13	11	2	3	2	1	1	2	1	4	3	3	2	3	4	1	1	3	4	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:37264526G>A	uc003tfk.1	-	9	966	c.659C>T	c.(658-660)GCG>GTG	p.A220V	ELMO1_uc011kbc.1_Missense_Mutation_p.A124V|ELMO1_uc010kxg.1_Missense_Mutation_p.A220V	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	220					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						GATCTCCTGCGCCACTTTCTG	0.527													11	70					0	0	0.008291	0	0		A	37264526	A	A	37264526	3	1	58	1	0	0	0	0	1	0	0	0	5073	1087	38	1	1580	1	ELMO1	7	37264526	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	10051067	37264526	121874137	267	41257											
AMPH	273	broad.mit.edu	37	chr7	38424457	38424457	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagttctctggaaagaggcCtttgtaggtggcaaggtctc	9	11	14	7	0	2	1	0	0	2	1	4	3	2	2	1	5	0	3	1	5	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:38424457C>A	uc003tgu.2	-	21	2119	c.2050G>T	c.(2050-2052)GGC>TGC	p.G684C	AMPH_uc003tgv.2_Missense_Mutation_p.G642C|AMPH_uc003tgt.2_Missense_Mutation_p.G569C	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	684	SH3.				endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						GGAAAGAGGCCTTTGTAGGTG	0.483													12	94					1.5842e-08	1.77775e-08	0.001855	1	0		A	38424457	A	A	38424457	3	1	58	1	0	0	0	0	1	0	0	0	588	681	24	5	41	5	AMPH	7	38424457	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1159931	38424457	120714206	268	41258											
AMPH	273	broad.mit.edu	37	chr7	38475965	38475965	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatccagcaaagtctcctcTttcttcacctcagggacttc	9	12	6	14	0	5	1	2	0	3	1	8	2	6	2	3	1	1	1	3	1	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:38475965T>A	uc003tgu.2	-	12	1110	c.1041A>T	c.(1039-1041)AAA>AAT	p.K347N	AMPH_uc003tgv.2_Missense_Mutation_p.K347N|AMPH_uc003tgt.2_Missense_Mutation_p.K100N	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	347					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						AAGTCTCCTCTTTCTTCACCT	0.433													8	51					0	0	0.006214	0	0		A	38475965	A	A	38475965	3	1	58	1	0	0	0	0	1	0	0	0	588	1606	56	5	1086	5	AMPH	7	38475965	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	51508	38475965	120662698	269	41259											
URGCP	55665	broad.mit.edu	37	chr7	43918566	43918566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaggaataaatgtcggCagcaaggtcatcagctgggt	15	7	13	6	1	2	1	2	0	0	1	3	2	2	2	0	4	2	3	0	4	6	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:43918566C>T	uc003tiw.2	-	6	553	c.496G>A	c.(496-498)GCC>ACC	p.A166T	URGCP_uc003tiu.2_Missense_Mutation_p.A123T|URGCP_uc003tiv.2_Missense_Mutation_p.A91T|URGCP_uc003tix.2_Missense_Mutation_p.A157T|URGCP_uc003tiy.2_Missense_Mutation_p.A123T|URGCP_uc003tiz.2_Missense_Mutation_p.A123T|URGCP_uc011kbj.1_Missense_Mutation_p.A123T	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	166					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						TAAATGTCGGCAGCAAGGTCA	0.562													12	58					0	0	0.000978	0	0		T	43918566	T	T	43918566	3	4	58	1	0	0	0	0	1	0	0	0	17052	710	25	2	2303	2	URGCP	7	43918566	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	5442601	43918566	115220097	270	41260											
OGDH	4967	broad.mit.edu	37	chr7	44721400	44721400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttccacctcagcgacctgCcatcctacacaactcatggc	9	8	5	19	1	2	0	2	0	0	0	4	1	4	0	6	1	4	0	6	1	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:44721400C>T	uc003tln.2	+	10	1397	c.1288C>T	c.(1288-1290)CCA>TCA	p.P430S	OGDH_uc011kbx.1_Missense_Mutation_p.P426S|OGDH_uc011kby.1_Missense_Mutation_p.P280S|OGDH_uc003tlp.2_Missense_Mutation_p.P441S|OGDH_uc011kbz.1_Missense_Mutation_p.P225S|OGDH_uc003tlo.1_Missense_Mutation_p.P263S	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	430					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	CAGCGACCTGCCATCCTACAC	0.537													16	75					0	0	0.003163	0	0		T	44721400	T	T	44721400	3	4	58	1	0	0	0	0	1	0	0	0	10858	739	26	2	1495	2	OGDH	7	44721400	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	802834	44721400	114417263	271	41261											
GRB10	2887	broad.mit.edu	37	chr7	50742167	50742167	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcacaggctgggagcgctGcaccctctgcctcggggaca	6	6	15	14	2	1	0	0	0	1	0	2	2	1	2	2	4	4	4	2	4	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:50742167G>A	uc003tpi.2	-	3	359	c.328C>T	c.(328-330)CAG>TAG	p.Q110*	GRB10_uc003tph.3_Nonsense_Mutation_p.Q52*|GRB10_uc003tpj.2_Nonsense_Mutation_p.Q110*|GRB10_uc003tpk.2_Nonsense_Mutation_p.Q110*|GRB10_uc010kzb.2_Nonsense_Mutation_p.Q52*|GRB10_uc003tpl.2_Nonsense_Mutation_p.Q104*|GRB10_uc003tpm.2_Nonsense_Mutation_p.Q52*|GRB10_uc003tpn.2_Nonsense_Mutation_p.Q52*	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	110					insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					TGGGAGCGCTGCACCCTCTGC	0.657									Russell-Silver_syndrome				4	34					0	0	0.001168	0	0		A	50742167	A	A	50742167	4	1	58	1	0	0	0	0	0	1	0	0	6772	1328	46	2	1512	2	GRB10	7	50742167	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	6020767	50742167	108396496	272	41262											
POM121L12	285877	broad.mit.edu	37	chr7	53104122	53104122	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgtgatgatgcttggcCttccgtgctggtccagcccg	3	15	12	11	2	0	2	0	2	0	0	2	2	2	2	4	2	3	2	4	2	0	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:53104122C>A	uc003tpz.2	+	1	774	c.758C>A	c.(757-759)CCT>CAT	p.P253H		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	253											0						GATGCTTGGCCTTCCGTGCTG	0.637													12	52					4.3838e-07	4.84858e-07	0.001855	1	0		A	53104122	A	A	53104122	3	1	58	1	0	0	0	0	1	0	0	0	12260	681	24	5	760	5	POM121L12	7	53104122	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2361955	53104122	106034541	273	41263											
PHKG1	5260	broad.mit.edu	37	chr7	56149350	56149350	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcccccgggggctgaagtgCcgcacttcctccaccaagta	7	8	10	16	2	0	1	0	1	0	0	3	1	3	1	6	2	1	3	6	2	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:56149350C>T	uc003trz.1	-	9	1086	c.891G>A	c.(889-891)CGG>CGA	p.R297R	PSPH_uc003trj.2_Intron|PHKG1_uc003try.1_Silent_p.R191R|PHKG1_uc011kdb.1_Silent_p.R329R|PHKG1_uc011kdc.1_Silent_p.R288R|PHKG1_uc011kdd.1_Silent_p.R243R	NM_006213	NP_006204	Q16816	PHKG1_HUMAN	phosphorylase kinase gamma subunit 1	297					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			large_intestine(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			GGCTGAAGTGCCGCACTTCCT	0.607													5	35					0	0	0.001168	0	0		T	56149350	T	T	56149350	2	4	58	1	0	0	0	0	0	0	0	1	11865	726	26	2		2	PHKG1	7	56149350	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3045228	56149350	102989313	274	41264											
ZNF479	90827	broad.mit.edu	37	chr7	57188753	57188753	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacagcattttttaaattgTaatttctcatgtccacattt	11	20	3	7	0	1	0	1	0	1	0	3	0	2	0	1	0	2	2	1	0	4	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:57188753T>C	uc010kzo.2	-	5	640	c.369A>G	c.(367-369)TTA>TTG	p.L123L		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	123					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TTTTAAATTGTAATTTCTCAT	0.373													15	105					0	0	0.008871	0	0		C	57188753	C	C	57188753	2	2	58	1	0	0	0	0	0	0	0	1	17958	1635	57	3		3	ZNF479	7	57188753	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1039403	57188753	101949910	275	41265											
TYW1	55253	broad.mit.edu	37	chr7	66563632	66563632	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtacccagagatcaacaggTttttgaagctactccaccag	12	10	8	11	0	1	2	1	1	0	1	2	3	2	2	3	1	4	3	3	1	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:66563632T>G	uc003tvn.2	+	12	1638	c.1489T>G	c.(1489-1491)TTT>GTT	p.F497V	TYW1_uc010lai.2_RNA|TYW1_uc011kef.1_Missense_Mutation_p.F111V	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	497					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				GATCAACAGGTTTTTGAAGCT	0.478													10	56					0	0	0.001855	0	0		G	66563632	G	G	66563632	3	3	58	1	0	0	0	0	1	0	0	0	16844	1725	60	5	1535	5	TYW1	7	66563632	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	9374879	66563632	92575031	276	41266											
WBSCR17	64409	broad.mit.edu	37	chr7	70886093	70886093	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccttctctccccatcaggTctgtggctggtgagcctggc	4	11	11	15	0	3	1	1	1	2	0	5	1	4	1	4	4	1	1	4	4	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:70886093T>C	uc003tvy.2	+	5	962	c.962_splice	c.e5+2	p.R321_splice	WBSCR17_uc003tvz.2_Splice_Site_p.R20_splice	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				CCCCATCAGGTCTGTGGCTGG	0.612													4	42					0	0	0.009096	0	0		C	70886093	C	C	70886093	5	2	58	1	0	0	0	0	0	0	1	0	17290	1681	58	3	982	3	WBSCR17	7	70886093	Splice_Site	SNP	T	TCGA-BR-8059-01A-11D-2340-08	4322461	70886093	88252570	277	41267											
RSBN1L	222194	broad.mit.edu	37	chr7	77407902	77407902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgaggagggaaggcattcGctatgccaggattcagctat	11	9	13	8	1	1	1	1	1	0	0	2	4	1	4	1	4	2	3	1	4	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:77407902G>A	uc010ldt.1	+	8	2002	c.1958G>A	c.(1957-1959)CGC>CAC	p.R653H	RSBN1L_uc003ugm.2_Missense_Mutation_p.R435H	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	653						nucleus				ovary(1)	1						GAAGGCATTCGCTATGCCAGG	0.348													21	100					0	0	0.010504	0	0		A	77407902	A	A	77407902	3	1	58	1	0	0	0	0	1	0	0	0	13722	1087	38	1	1988	1	RSBN1L	7	77407902	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	6521809	77407902	81730761	278	41268											
PHTF2	57157	broad.mit.edu	37	chr7	77579112	77579112	+	Frame_Shift_Del	DEL	A	-	-																															cccttggatcagaaacaagtAaaaaatatagtaatacctca																										TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:77579112delA	uc003ugs.3	+	16	2203	c.2077delA	c.(2077-2079)AAAfs	p.K693fs	PHTF2_uc003ugq.3_Frame_Shift_Del_p.K655fs|PHTF2_uc010ldv.2_Intron|PHTF2_uc003ugt.3_Frame_Shift_Del_p.K659fs|PHTF2_uc003ugu.3_Frame_Shift_Del_p.K655fs	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	693					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						AGAAACAAGTAAAAAATATAG	0.323													4	9	---	---	---	---						.	-	77579112	-	-	77579112	7	5	58	1	0	1	0	1	0	0	0	0	11882	363	13	0	2087	0	PHTF2	7	77579112	Frame_Shift_Del	DEL	A	TCGA-BR-8059-01A-11D-2340-08	171210	77579112	81559551	279	41269											
PCLO	27445	broad.mit.edu	37	chr7	82579563	82579563	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtggcatcttcgtcatcCgtttgtacaccactgtccac	6	14	7	14	2	3	0	1	0	2	0	6	0	5	0	3	1	1	3	3	1	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:82579563C>T	uc003uhx.2	-	6	10630	c.10341G>A	c.(10339-10341)ACG>ACA	p.T3447T	PCLO_uc003uhv.2_Silent_p.T3447T|PCLO_uc010lec.2_Silent_p.T412T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3378					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CTTCGTCATCCGTTTGTACAC	0.438													15	79					0	0	0.003163	0	0		T	82579563	T	T	82579563	2	4	58	1	0	0	0	0	0	0	0	1	11602	639	23	1		1	PCLO	7	82579563	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	5000451	82579563	76559100	280	41270											
PCLO	27445	broad.mit.edu	37	chr7	82585300	82585300	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctcctcctccagtaactaCaagttcttcactttcctgac	8	13	3	17	0	2	1	1	1	1	0	6	1	6	1	5	0	2	2	5	0	3	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:82585300C>G	uc003uhx.2	-	5	5258	c.4969G>C	c.(4969-4971)GTA>CTA	p.V1657L	PCLO_uc003uhv.2_Missense_Mutation_p.V1657L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1588					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CCAGTAACTACAAGTTCTTCA	0.388													25	102					0	0	0.00278	0	0		G	82585300	G	G	82585300	3	3	58	1	0	0	0	0	1	0	0	0	11602	478	17	5	10560	5	PCLO	7	82585300	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	5737	82585300	76553363	281	41271											
ZNF804B	219578	broad.mit.edu	37	chr7	88963842	88963842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactaaaagagagagccaaGtctcaggtttaactgaagac	17	7	10	7	0	1	5	1	1	1	4	2	6	1	5	1	1	2	1	1	1	5	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:88963842G>A	uc011khi.1	+	4	2084	c.1546G>A	c.(1546-1548)GTC>ATC	p.V516I		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	516						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AGAGAGCCAAGTCTCAGGTTT	0.383										HNSCC(36;0.09)			17	57					0	0	0.004007	0	0		A	88963842	A	A	88963842	3	1	58	1	0	0	0	0	1	0	0	0	18196	1029	36	4	1560	4	ZNF804B	7	88963842	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	6378542	88963842	70174821	282	41272											
FZD1	8321	broad.mit.edu	37	chr7	90896031	90896031	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtaccttatgacgctgatCgtgggcatcacgtcgggctt	8	11	12	10	4	1	2	1	2	0	0	3	2	1	2	1	2	1	4	1	2	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:90896031C>T	uc003ula.2	+	1	2249	c.1836C>T	c.(1834-1836)ATC>ATT	p.I612I		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	612	Helical; Name=7; (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			TGACGCTGATCGTGGGCATCA	0.612													11	59					0	0	0.008291	0	0		T	90896031	T	T	90896031	2	4	58	1	0	0	0	0	0	0	0	1	6142	874	31	1		1	FZD1	7	90896031	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1932189	90896031	68242632	283	41273											
AKAP9	10142	broad.mit.edu	37	chr7	91622286	91622286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agatgatggaaagtgagttgGctgggaagcagcatgagatt	13	9	16	3	0	0	4	0	3	0	2	0	7	0	6	0	3	2	4	0	3	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:91622286G>A	uc003ulg.2	+	5	718	c.493G>A	c.(493-495)GCT>ACT	p.A165T	AKAP9_uc003uld.3_Missense_Mutation_p.A165T|AKAP9_uc003ule.2_Missense_Mutation_p.A177T|AKAP9_uc003ulf.2_Missense_Mutation_p.A165T	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	177	Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AAGTGAGTTGGCTGGGAAGCA	0.423			T	BRAF	papillary thyroid								8	39					0	0	0.00308	0	0		A	91622286	A	A	91622286	3	1	58	1	0	0	0	0	1	0	0	0	459	1203	42	2	511	2	AKAP9	7	91622286	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	726255	91622286	67516377	284	41274											
CALCR	799	broad.mit.edu	37	chr7	93055791	93055791	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaattgggatgtcgccagcCtccgcagcagcggctgcagc	8	7	13	13	3	0	0	0	0	0	0	2	1	1	1	3	2	5	4	3	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:93055791C>A	uc003umv.1	-	15	1665	c.1404G>T	c.(1402-1404)GAG>GAT	p.E468D	CALCR_uc011kia.1_Missense_Mutation_p.E248D|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.E434D|CALCR_uc003umw.2_Missense_Mutation_p.E434D	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	450	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	TGTCGCCAGCCTCCGCAGCAG	0.577													20	102					1.50039e-11	1.72026e-11	0.001882	1	0		A	93055791	A	A	93055791	3	1	58	1	0	0	0	0	1	0	0	0	2582	680	24	5	126	5	CALCR	7	93055791	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1433505	93055791	66082872	285	41275											
TRRAP	8295	broad.mit.edu	37	chr7	98609072	98609072	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcacgcccaacatttctGagtttctgaccaccatcggg	9	10	8	14	2	3	2	1	2	2	0	4	3	3	2	3	1	1	1	3	1	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:98609072G>T	uc003upp.2	+	71	11418	c.11209G>T	c.(11209-11211)GAG>TAG	p.E3737*	TRRAP_uc011kis.1_Nonsense_Mutation_p.E3708*|TRRAP_uc003upr.2_Nonsense_Mutation_p.E3443*|TRRAP_uc003ups.2_5'Flank	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3737	PI3K/PI4K.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CAACATTTCTGAGTTTCTGAC	0.552													17	70					1.37522e-17	1.60951e-17	0.007413	1	0		T	98609072	T	T	98609072	4	4	58	1	0	0	0	0	0	1	0	0	16627	1291	45	5	11396	5	TRRAP	7	98609072	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	5553281	98609072	60529591	286	41276											
PTCD1	26024	broad.mit.edu	37	chr7	99023071	99023071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggctgtcctccttggccGctgcctgctcactgggggct	1	11	14	15	1	1	0	1	0	0	0	3	0	3	0	4	4	2	4	4	4	0	1	rs150731740		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:99023071G>A	uc003uqh.2	-	6	1215	c.1084C>T	c.(1084-1086)CGG>TGG	p.R362W	PTCD1_uc011kiw.1_Missense_Mutation_p.R411W	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	362										ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			CTCCTTGGCCGCTGCCTGCTC	0.647													10	71					0	0	0.006214	0	0		A	99023071	A	A	99023071	3	1	58	1	0	0	0	0	1	0	0	0	12749	1086	38	1	1030	1	PTCD1	7	99023071	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	413999	99023071	60115592	287	41277											
ZAN	7455	broad.mit.edu	37	chr7	100395212	100395212	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttctagagagaaaacgcagGagggagacagactggccagg	14	4	15	8	1	1	4	0	0	1	4	1	7	1	5	1	4	1	1	1	4	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:100395212G>T	uc003uwj.2	+	48	8545	c.8380G>T	c.(8380-8382)GAG>TAG	p.E2794*	ZAN_uc003uwk.2_Nonsense_Mutation_p.E2703*|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Nonsense_Mutation_p.E743*	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2794	VWFC 5.|Cytoplasmic (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GAAAACGCAGGAGGGAGACAG	0.602													4	37					0.00024832	0.000263275	0.009096	1	0		T	100395212	T	T	100395212	4	4	58	1	0	0	0	0	0	1	0	0	17539	1175	41	5	8626	5	ZAN	7	100395212	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1372141	100395212	58743451	288	41278											
EPHB4	2050	broad.mit.edu	37	chr7	100417826	100417826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgacgcggcactggcagaCggctgatccaatggtgttag	8	7	14	12	4	0	2	0	1	0	1	1	3	1	2	2	4	0	4	2	4	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:100417826C>T	uc003uwn.1	-	5	1392	c.901G>A	c.(901-903)GTC>ATC	p.V301I	EPHB4_uc003uwm.1_Missense_Mutation_p.V208I|EPHB4_uc010lhj.1_Missense_Mutation_p.V301I|EPHB4_uc011kkf.1_Missense_Mutation_p.V301I|EPHB4_uc011kkg.1_Intron|EPHB4_uc011kkh.1_Missense_Mutation_p.V301I	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	301	Extracellular (Potential).|Cys-rich.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					CACTGGCAGACGGCTGATCCA	0.637													16	120					0	0	0.004007	0	0		T	100417826	T	T	100417826	3	4	58	1	0	0	0	0	1	0	0	0	5185	536	19	1	2114	1	EPHB4	7	100417826	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	22614	100417826	58720837	289	41279											
TRIP6	7205	broad.mit.edu	37	chr7	100469250	100469250	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggcctaccaccctggctGcttcacctgcgtggtgtgtc	5	10	12	14	1	1	0	1	0	0	0	2	1	1	0	4	3	3	2	4	3	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:100469250G>C	uc003uww.2	+	7	1255	c.1085G>C	c.(1084-1086)TGC>TCC	p.C362S		NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6	362	LIM zinc-binding 2.				focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)					CACCCTGGCTGCTTCACCTGC	0.622													13	52					0	0	0.00245	0	0		C	100469250	C	C	100469250	3	2	58	1	0	0	0	0	1	0	0	0	16585	1319	46	5	1111	5	TRIP6	7	100469250	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	51424	100469250	58669413	290	41280											
MUC17	140453	broad.mit.edu	37	chr7	100677233	100677233	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctactgaagtcagttcaTctcctacacctgctgaaggt	9	13	7	12	0	4	2	2	2	2	0	5	2	4	2	2	1	3	2	2	1	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:100677233T>C	uc003uxp.1	+	3	2589	c.2536T>C	c.(2536-2538)TCT>CCT	p.S846P	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	846	Extracellular (Potential).|12.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AGTCAGTTCATCTCCTACACC	0.502													95	476					0	0	0.00361	0	0		C	100677233	C	C	100677233	3	2	58	1	0	0	0	0	1	0	0	0	9992	1435	50	3	2546	3	MUC17	7	100677233	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	207983	100677233	58461430	291	41281											
CDHR3	222256	broad.mit.edu	37	chr7	105615467	105615467	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactgaagcttttagggtgaAttggctgtcaggcacctact	9	12	11	9	0	1	2	1	2	0	0	1	2	1	2	1	3	2	3	1	3	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:105615467A>G	uc003vdl.3	+	2	332	c.224A>G	c.(223-225)AAT>AGT	p.N75S	CDHR3_uc003vdk.2_5'UTR|CDHR3_uc011kls.1_RNA|CDHR3_uc003vdm.3_Missense_Mutation_p.N62S|CDHR3_uc011klt.1_Intron	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	75	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						TTTAGGGTGAATTGGCTGTCA	0.458													22	97					0	0	0.00278	0	0		G	105615467	G	G	105615467	3	3	58	1	0	0	0	0	1	0	0	0	3123	101	4	3	230	3	CDHR3	7	105615467	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	4938234	105615467	53523196	292	41282											
PRKAR2B	5577	broad.mit.edu	37	chr7	106786831	106786831	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataatcgtgggagtttcggCgaactggccttaatgtacaa	11	11	12	7	3	0	0	0	0	0	0	2	3	0	1	1	3	2	2	1	3	5	4	rs146903153	byFrequency	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:106786831C>T	uc003vdx.2	+	6	841	c.666C>T	c.(664-666)GGC>GGT	p.G222G		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	222	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						GGAGTTTCGGCGAACTGGCCT	0.428													11	43					0	0	0.001368	0	0		T	106786831	T	T	106786831	2	4	58	1	0	0	0	0	0	0	0	1	12528	755	27	1		1	PRKAR2B	7	106786831	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1171364	106786831	52351832	293	41283											
FEZF1	389549	broad.mit.edu	37	chr7	121943889	121943889	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gccgggaccaccagtttattCctttcggctaaatacgtttt	8	14	8	11	3	0	0	0	0	0	0	2	1	1	1	4	2	1	3	4	2	4	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:121943889C>T	uc003vkd.2	-	1	677	c.603G>A	c.(601-603)AGG>AGA	p.R201R	FEZF1_uc003vkc.2_Silent_p.R151R|uc010lko.1_RNA|uc003vkf.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	201					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						CCAGTTTATTCCTTTCGGCTA	0.567													7	54					0	0	0.00308	0	0		T	121943889	T	T	121943889	2	4	58	1	0	0	0	0	0	0	0	1	5839	854	30	4		4	FEZF1	7	121943889	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	15157058	121943889	37194774	294	41284											
GRM8	2918	broad.mit.edu	37	chr7	126746611	126746611	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaccatagttcccctcagaAgccagtgtcgaaacataatt	13	10	6	12	1	2	1	2	0	0	1	4	2	3	1	4	0	2	1	4	0	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:126746611A>C	uc003vlr.2	-	2	977	c.666T>G	c.(664-666)GCT>GCG	p.A222A	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.A222A|GRM8_uc010lkz.1_RNA|GRM8_uc003vlu.1_5'UTR	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	222	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TCCCCTCAGAAGCCAGTGTCG	0.493										HNSCC(24;0.065)			12	37					0	0	0.000978	0	0		C	126746611	C	C	126746611	2	2	58	1	0	0	0	0	0	0	0	1	6819	59	3	5		5	GRM8	7	126746611	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	4802722	126746611	32392052	295	41285											
LRRC4	64101	broad.mit.edu	37	chr7	127668913	127668913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgtgggcagcactactgccCcctcacctgatacaccggac	8	8	9	16	1	1	1	1	1	0	0	1	2	1	2	4	2	4	2	4	2	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:127668913C>T	uc003vmk.2	-	2	1918	c.1781G>A	c.(1780-1782)GGG>GAG	p.G594E	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	594	Cytoplasmic (Potential).					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		CACTACTGCCCCCTCACCTGA	0.458													4	31					0	0	0.009096	0	0		T	127668913	T	T	127668913	3	4	58	1	0	0	0	0	1	0	0	0	9015	623	22	4	184	4	LRRC4	7	127668913	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	922302	127668913	31469750	296	41286											
ZC3HAV1	56829	broad.mit.edu	37	chr7	138732366	138732366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatcacgcaggctttgtcttCagtatattcaatcacatatt	12	15	5	9	1	5	0	4	0	1	0	5	0	5	0	0	1	0	3	0	1	5	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:138732366C>T	uc003vun.2	-	13	3071	c.2683G>A	c.(2683-2685)GAA>AAA	p.E895K		NM_020119	NP_064504	Q7Z2W4	ZCCHV_HUMAN	zinc finger antiviral protein isoform 1	895	PARP catalytic.				response to virus	cytoplasm|nucleus	NAD+ ADP-ribosyltransferase activity|RNA binding|zinc ion binding			ovary(1)	1						GCTTTGTCTTCAGTATATTCA	0.428													19	78					0	0	0.007413	0	0		T	138732366	T	T	138732366	3	4	58	1	0	0	0	0	1	0	0	0	17600	835	29	4	29	4	ZC3HAV1	7	138732366	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	11063453	138732366	20406297	297	41287											
BRAF	673	broad.mit.edu	37	chr7	140434413	140434413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtttcagtggacaggaaacGcaccatatccccctgcctgg	9	9	10	13	1	1	0	1	0	0	0	2	2	2	2	4	3	2	2	4	3	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:140434413G>A	uc003vwc.3	-	18	2346	c.2285C>T	c.(2284-2286)GCG>GTG	p.A762V		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	762					activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	GACAGGAAACGCACCATATCC	0.403		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				31	325					0	0	0.006999	0	0		A	140434413	A	A	140434413	3	1	58	1	0	0	0	0	1	0	0	0	1499	1087	38	1	19	1	BRAF	7	140434413	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1702047	140434413	18704250	298	41288											
GIMAP4	55303	broad.mit.edu	37	chr7	150269275	150269275	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtgttagtgggtaaaacCggagcaggaaaaagtgcaac	15	8	13	5	1	0	0	0	0	0	0	0	2	0	2	1	3	4	4	1	3	6	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:150269275C>T	uc003whl.2	+	3	199	c.117C>T	c.(115-117)ACC>ACT	p.T39T	GIMAP4_uc011kuu.1_5'UTR|GIMAP4_uc011kuv.1_Silent_p.T53T	NM_018326	NP_060796	Q9NUV9	GIMA4_HUMAN	GTPase, IMAP family member 4	39	GTP (Potential).						GTP binding	p.T39T(1)		ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0179)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGGGTAAAACCGGAGCAGGAA	0.448													7	60					0	0	0.00308	0	0		T	150269275	T	T	150269275	2	4	58	1	0	0	0	0	0	0	0	1	6396	639	23	1		1	GIMAP4	7	150269275	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	9834862	150269275	8869388	299	41289											
GIMAP6	474344	broad.mit.edu	37	chr7	150325008	150325008	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctgtaataatctccttcGttttcccacataatggcttc	8	17	5	11	1	1	0	0	0	1	0	5	0	2	0	2	1	1	4	2	1	3	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:150325008G>A	uc003whn.2	-	3	1102	c.678C>T	c.(676-678)AAC>AAT	p.N226N	GIMAP6_uc003whm.2_Silent_p.N146N	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	226							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AATCTCCTTCGTTTTCCCACA	0.517													35	170					0	0	0.002445	0	0		A	150325008	A	A	150325008	2	1	58	1	0	0	0	0	0	0	0	1	6398	1136	40	1		1	GIMAP6	7	150325008	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	55733	150325008	8813655	300	41290											
EFHA2	286097	broad.mit.edu	37	chr8	16962959	16962959	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaacagaagttctagaaataGaattcctttcctactcaaat	17	12	4	8	0	2	3	1	0	1	3	4	3	4	3	2	0	2	1	2	0	8	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:16962959G>C	uc003wxd.2	+	11	1165	c.1123G>C	c.(1123-1125)GAA>CAA	p.E375Q		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	375						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		TCTAGAAATAGAATTCCTTTC	0.294													3	23					0	0	0.004672	0	0		C	16962959	C	C	16962959	3	2	58	1	0	0	0	0	1	0	0	0	4950	943	33	5	1165	5	EFHA2	8	16962959	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08		16962959	129401063	301	41291											
CSGALNACT1	55790	broad.mit.edu	37	chr8	19362795	19362795	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtctccaaggctgattcaAtggcttccaccaactcatcc	9	10	8	14	0	3	1	2	1	1	0	6	1	5	1	4	3	1	2	4	3	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:19362795A>C	uc011kyn.1	-	4	1615	c.551T>G	c.(550-552)ATT>AGT	p.I184S	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.I184S|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.I183S|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	184	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		GGCTGATTCAATGGCTTCCAC	0.522													9	41					0	0	0.004482	0	0		C	19362795	C	C	19362795	3	2	58	1	0	0	0	0	1	0	0	0	3941	101	4	5	1075	5	CSGALNACT1	8	19362795	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	2399836	19362795	127001227	302	41292											
LPL	4023	broad.mit.edu	37	chr8	19809439	19809439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgggacaggatgtggccCggtttatcaactggatggag	8	10	17	6	1	1	0	1	0	0	0	1	4	1	4	1	7	1	1	1	7	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:19809439C>T	uc003wzk.3	+	3	779	c.409C>T	c.(409-411)CGG>TGG	p.R137W		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor	137					fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	GGATGTGGCCCGGTTTATCAA	0.522													12	51					0	0	0.000978	0	0		T	19809439	T	T	19809439	3	4	58	1	0	0	0	0	1	0	0	0	8939	643	23	1	419	1	LPL	8	19809439	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	446644	19809439	126554583	303	41293											
NEFM	4741	broad.mit.edu	37	chr8	24774700	24774700	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacccaaggtggaagctccCaagcttaaggtccaacacaa	16	5	8	12	0	0	0	0	0	0	0	2	1	2	1	3	3	4	2	3	3	7	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:24774700C>G	uc003xed.3	+	3	1365	c.1332C>G	c.(1330-1332)CCC>CCG	p.P444P	NEFM_uc011lac.1_Silent_p.P444P|NEFM_uc010lue.2_Silent_p.P68P	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	444	Tail.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		TGGAAGCTCCCAAGCTTAAGG	0.468													9	53					0	0	0.006214	0	0		G	24774700	G	G	24774700	2	3	58	1	0	0	0	0	0	0	0	1	10335	581	21	5		5	NEFM	8	24774700	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4965261	24774700	121589322	304	41294											
TACC1	6867	broad.mit.edu	37	chr8	38688659	38688659	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggcatagagaaggagacGtgccagaagatggaagaaga	17	5	15	4	1	0	6	0	0	0	6	0	9	0	7	1	3	1	1	1	3	6	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:38688659G>A	uc010lwp.2	+	6	2056	c.1677G>A	c.(1675-1677)ACG>ACA	p.T559T	TACC1_uc011lby.1_Silent_p.T364T|TACC1_uc003xma.2_Translation_Start_Site|TACC1_uc003xlz.2_Silent_p.T364T|TACC1_uc003xmc.3_Silent_p.T363T|TACC1_uc011lbz.1_Silent_p.T546T|TACC1_uc003xmb.3_Silent_p.T485T|TACC1_uc003xme.1_Silent_p.T133T|TACC1_uc003xmd.1_Silent_p.T121T|TACC1_uc010lwo.1_Silent_p.T92T|TACC1_uc003xmf.3_Silent_p.T149T|TACC1_uc011lca.1_Silent_p.T542T|TACC1_uc011lcb.1_Silent_p.T335T|TACC1_uc011lcd.1_RNA|TACC1_uc003xmh.3_Silent_p.T376T|TACC1_uc010lwq.2_Silent_p.T376T	NM_006283	NP_006274	O75410	TACC1_HUMAN	transforming, acidic coiled-coil containing	559					cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)			AGAAGGAGACGTGCCAGAAGA	0.478													8	35					0	0	0.004482	0	0		A	38688659	A	A	38688659	2	1	58	1	0	0	0	0	0	0	0	1	15526	1132	40	1		1	TACC1	8	38688659	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	13913959	38688659	107675363	305	41295											
ADAM2	2515	broad.mit.edu	37	chr8	39613289	39613289	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatcttttatccacatcttTtggctgtctgcatgatcact	7	17	5	12	0	4	1	1	1	3	0	5	1	5	1	2	1	1	2	2	1	1	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:39613289T>A	uc003xnj.2	-	16	1830	c.1755A>T	c.(1753-1755)CAA>CAT	p.Q585H	ADAM2_uc003xnk.2_Missense_Mutation_p.Q566H|ADAM2_uc011lck.1_Intron|ADAM2_uc003xnl.2_Missense_Mutation_p.Q429H	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	585	Extracellular (Potential).|Cys-rich.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		TCCACATCTTTTGGCTGTCTG	0.338													10	36					0	0	0.008291	0	0		A	39613289	A	A	39613289	3	1	58	1	0	0	0	0	1	0	0	0	241	1838	64	5	472	5	ADAM2	8	39613289	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	924630	39613289	106750733	306	41296											
PRKDC	5591	broad.mit.edu	37	chr8	48701571	48701571	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatgttttttttatttacagGggtttttgctagttcagctc	7	21	8	5	0	1	0	1	0	0	0	2	0	1	0	0	2	3	5	0	2	4	10			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:48701571G>T	uc003xqi.2	-	77	10855	c.10798C>A	c.(10798-10800)CCT>ACT	p.P3600T	PRKDC_uc003xqj.2_Missense_Mutation_p.P3600T|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3600					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TTATTTACAGGGGTTTTTGCT	0.378								NHEJ					7	36					0.00198382	0.0020721	0.001984	1	0		T	48701571	T	T	48701571	3	4	58	1	0	0	0	0	1	0	0	0	12543	1232	43	5	1632	5	PRKDC	8	48701571	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	9088282	48701571	97662451	307	41297											
CHD7	55636	broad.mit.edu	37	chr8	61654080	61654080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcggagaatgtggttaccCggaaaatccagtaaatccta	13	9	9	10	2	0	1	0	0	0	1	3	3	2	2	4	3	1	2	4	3	7	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:61654080C>T	uc003xue.2	+	2	566	c.89C>T	c.(88-90)CCG>CTG	p.P30L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	30					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			TGTGGTTACCCGGAAAATCCA	0.438													4	20					0	0	0.009096	0	0		T	61654080	T	T	61654080	3	4	58	1	0	0	0	0	1	0	0	0	3333	652	23	1	91	1	CHD7	8	61654080	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	12952509	61654080	84709942	308	41298											
CYP7B1	9420	broad.mit.edu	37	chr8	65528708	65528708	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcattcatgtcatgattTttttgcaactgactgatgct	9	18	6	8	0	4	3	4	3	0	0	4	3	4	3	0	0	3	2	0	0	1	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:65528708T>G	uc003xvj.2	-	3	594	c.390A>C	c.(388-390)AAA>AAC	p.K130N		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	130					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				TGTCATGATTTTTTTGCAACT	0.328													15	47					0	0	0.003163	0	0		G	65528708	G	G	65528708	3	3	58	1	0	0	0	0	1	0	0	0	4200	1838	64	5	1146	5	CYP7B1	8	65528708	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	3874628	65528708	80835314	309	41299											
TRIM55	84675	broad.mit.edu	37	chr8	67066483	67066483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttctgaggattcgaatgtaCggaaggcagaagtggcagca	12	8	15	6	2	1	2	0	1	1	1	2	5	1	4	0	4	2	5	0	4	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:67066483C>T	uc003xvv.2	+	9	1664	c.1438C>T	c.(1438-1440)CGG>TGG	p.R480W	TRIM55_uc003xvu.2_Missense_Mutation_p.R480W|TRIM55_uc003xvw.2_Intron|TRIM55_uc003xvx.2_Intron	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	480						cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			TTCGAATGTACGGAAGGCAGA	0.567													10	45					0	0	0.008291	0	0		T	67066483	T	T	67066483	3	4	58	1	0	0	0	0	1	0	0	0	16555	527	19	1	1472	1	TRIM55	8	67066483	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1537775	67066483	79297539	310	41300											
C8orf34	116328	broad.mit.edu	37	chr8	69728125	69728125	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttttgttgtgcaggttcCgctgatcttcttctttgcgt	2	21	9	9	2	4	1	0	1	4	0	5	1	5	1	1	1	2	4	1	1	0	8	rs145199497	byFrequency	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:69728125C>T	uc010lyz.2	+	13	1345	c.1296C>T	c.(1294-1296)TCC>TCT	p.S432S	C8orf34_uc003xyb.2_Silent_p.S407S	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	432					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			GTGCAGGTTCCGCTGATCTTC	0.443													26	46					0	0	0.003954	0	0		T	69728125	T	T	69728125	2	4	58	1	0	0	0	0	0	0	0	1	2425	639	23	1		1	C8orf34	8	69728125	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2661642	69728125	76635897	311	41301											
ZFHX4	79776	broad.mit.edu	37	chr8	77765876	77765876	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactgactaccagcttagggTtctgcaagacttttttgaca	10	14	8	9	0	1	3	0	2	1	1	1	3	1	3	1	1	4	3	1	1	4	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:77765876T>G	uc003yav.2	+	10	6971	c.6584T>G	c.(6583-6585)GTT>GGT	p.V2195G	ZFHX4_uc003yau.1_Missense_Mutation_p.V2240G|ZFHX4_uc003yaw.1_Missense_Mutation_p.V2195G	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2195	Homeobox 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CAGCTTAGGGTTCTGCAAGAC	0.403										HNSCC(33;0.089)			21	34					0	0	0.008871	0	0		G	77765876	G	G	77765876	3	3	58	1	0	0	0	0	1	0	0	0	17660	1725	60	5	6753	5	ZFHX4	8	77765876	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	8037751	77765876	68598146	312	41302											
CA13	377677	broad.mit.edu	37	chr8	86163053	86163053	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaaccaaagaagtgaaatAtgactcttccctccgaccac	16	8	5	12	1	1	3	0	2	1	1	3	4	3	3	4	0	1	0	4	0	6	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:86163053A>G	uc003ydg.2	+	2	464	c.122A>G	c.(121-123)TAT>TGT	p.Y41C	CA13_uc003ydf.1_RNA	NM_198584	NP_940986	Q8N1Q1	CAH13_HUMAN	carbonic anhydrase XIII	41					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0						GAAGTGAAATATGACTCTTCC	0.398													27	124					0	0	0.003954	0	0		G	86163053	G	G	86163053	3	3	58	1	0	0	0	0	1	0	0	0	2517	449	16	3	128	3	CA13	8	86163053	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	8397177	86163053	60200969	313	41303											
TMEM67	91147	broad.mit.edu	37	chr8	94805495	94805495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagcaggatggaagaggCgcattgggagtcccatgatt	12	7	15	7	1	0	3	0	1	0	2	1	6	1	6	1	4	1	2	1	4	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:94805495C>T	uc011lgk.1	+	16	1716	c.1645C>T	c.(1645-1647)CGC>TGC	p.R549C	TMEM67_uc010maw.2_Missense_Mutation_p.R255C|TMEM67_uc003yga.3_Missense_Mutation_p.R468C|TMEM67_uc011lgl.1_5'Flank	NM_153704	NP_714915	Q5HYA8	MKS3_HUMAN	meckelin isoform 1	549					cilium assembly|ER-associated protein catabolic process|negative regulation of centrosome duplication	centrosome|cilium membrane|cytoplasmic vesicle membrane|endoplasmic reticulum membrane|integral to membrane|microtubule basal body	unfolded protein binding			ovary(2)	2	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.00896)			ATGGAAGAGGCGCATTGGGAG	0.368													12	42					0	0	0.003163	0	0		T	94805495	T	T	94805495	3	4	58	1	0	0	0	0	1	0	0	0	16221	768	27	1	1845	1	TMEM67	8	94805495	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	8642442	94805495	51558527	314	41304											
PGCP	10404	broad.mit.edu	37	chr8	98155373	98155373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgggctgttgtttcttatGttgttgcagacatggaagaa	8	17	12	4	0	1	2	0	0	1	2	1	3	1	3	0	2	1	6	0	2	3	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:98155373G>A	uc003yhw.2	+	8	1547	c.1381G>A	c.(1381-1383)GTT>ATT	p.V461I		NM_016134	NP_057218	Q9Y646	PGCP_HUMAN	plasma glutamate carboxypeptidase precursor	461					peptide metabolic process|proteolysis	cytoplasm|extracellular space	metal ion binding|metallocarboxypeptidase activity			upper_aerodigestive_tract(1)	1	Breast(36;1.86e-05)					TGTTTCTTATGTTGTTGCAGA	0.453													7	68					0	0	0.00308	0	0		A	98155373	A	A	98155373	3	1	58	1	0	0	0	0	1	0	0	0	11805	1377	48	4	1407	4	PGCP	8	98155373	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3349878	98155373	48208649	315	41305											
C8orf47	203111	broad.mit.edu	37	chr8	99101668	99101668	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcagggacagaggccgaGtctctaaaaggaaatgctga	14	5	15	7	1	1	2	0	1	1	1	2	6	1	5	1	4	2	2	1	4	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:99101668G>C	uc003yih.1	+	2	571	c.423G>C	c.(421-423)GAG>GAC	p.E141D		NM_173549	NP_775820	Q6P6B1	CH047_HUMAN	hypothetical protein LOC203111	141											0	Breast(36;2.31e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.214)			CAGAGGCCGAGTCTCTAAAAG	0.557													14	41					0	0	0.003163	0	0		C	99101668	C	C	99101668	3	2	58	1	0	0	0	0	1	0	0	0	2435	1020	36	5	429	5	C8orf47	8	99101668	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	946295	99101668	47262354	316	41306											
VPS13B	157680	broad.mit.edu	37	chr8	100520118	100520118	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcaggaccctttcagtaaTtgctctggcttctttccttc	7	15	7	12	0	3	0	1	0	2	0	5	1	4	1	2	2	2	4	2	2	2	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:100520118T>C	uc003yiv.2	+	28	4389	c.4278T>C	c.(4276-4278)AAT>AAC	p.N1426N	VPS13B_uc003yiw.2_Intron|VPS13B_uc003yiu.1_3'UTR|VPS13B_uc003yix.1_Silent_p.N896N	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1426					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CTTTCAGTAATTGCTCTGGCT	0.438													9	85					0	0	0.006214	0	0		C	100520118	C	C	100520118	2	2	58	1	0	0	0	0	0	0	0	1	17216	1490	52	3		3	VPS13B	8	100520118	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1418450	100520118	45843904	317	41307											
VPS13B	157680	broad.mit.edu	37	chr8	100844880	100844880	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaatggattctgtaccaGgtattttatgtttatataaa	14	16	8	3	0	1	0	0	0	1	0	1	2	1	2	1	3	1	3	1	3	9	9			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:100844880G>T	uc003yiv.2	+	52	9800	c.9689G>T	c.(9688-9690)AGG>ATG	p.R3230M	VPS13B_uc003yiw.2_Missense_Mutation_p.R3205M	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3230					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TTCTGTACCAGGTATTTTATG	0.458													5	37					2.7689e-08	3.09896e-08	0.001984	1	0		T	100844880	T	T	100844880	3	4	58	1	0	0	0	0	1	0	0	0	17216	1014	35	5	10085	5	VPS13B	8	100844880	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	324762	100844880	45519142	318	41308											
RGS22	26166	broad.mit.edu	37	chr8	101075945	101075945	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacaatcatcaaatgacaCttttgttatattgttgaagt	16	15	5	5	0	2	2	2	2	0	0	2	2	2	2	0	0	1	2	0	0	7	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:101075945C>A	uc003yjb.1	-	8	1246	c.1051G>T	c.(1051-1053)GTG>TTG	p.V351L	RGS22_uc003yja.1_Missense_Mutation_p.V170L|RGS22_uc003yjc.1_Missense_Mutation_p.V339L|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	351					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			TCAAATGACACTTTTGTTATA	0.328													12	51					5.50884e-06	6.00641e-06	0.001368	1	0		A	101075945	A	A	101075945	3	1	58	1	0	0	0	0	1	0	0	0	13330	565	20	5	2823	5	RGS22	8	101075945	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	231065	101075945	45288077	319	41309											
PKHD1L1	93035	broad.mit.edu	37	chr8	110456117	110456117	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacatggctttagtaatctcCcatgggctaataaggtaaga	13	11	10	7	0	1	1	0	0	1	1	2	2	1	1	1	3	0	4	1	3	5	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:110456117C>A	uc003yne.2	+	37	4881	c.4777C>A	c.(4777-4779)CCA>ACA	p.P1593T		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1593	Extracellular (Potential).|IPT/TIG 8.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TAGTAATCTCCCATGGGCTAA	0.308										HNSCC(38;0.096)			9	79					1.58986e-06	1.74699e-06	0.008291	1	0		A	110456117	A	A	110456117	3	1	58	1	0	0	0	0	1	0	0	0	11991	623	22	5	4923	5	PKHD1L1	8	110456117	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	9380172	110456117	35907905	320	41310											
PKHD1L1	93035	broad.mit.edu	37	chr8	110478991	110478991	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgtggttctttcagaCtcttttggtaagtggaatat	10	16	11	4	0	3	1	1	0	2	1	3	3	3	3	0	4	0	2	0	4	4	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:110478991C>T	uc003yne.2	+	50	8702	c.8598C>T	c.(8596-8598)GAC>GAT	p.D2866D		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2866	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTCTTTCAGACTCTTTTGGTA	0.368										HNSCC(38;0.096)			3	24					0	0	0.004672	0	0		T	110478991	T	T	110478991	2	4	58	1	0	0	0	0	0	0	0	1	11991	564	20	4		4	PKHD1L1	8	110478991	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	22874	110478991	35885031	321	41311											
CSMD3	114788	broad.mit.edu	37	chr8	113304872	113304872	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgagaatgttaccacatcAttaaagttgaacccatttcc	14	12	5	10	0	1	2	1	2	0	1	2	3	2	2	3	0	2	2	3	0	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:113304872A>G	uc003ynu.2	-	55	8841	c.8682T>C	c.(8680-8682)AAT>AAC	p.N2894N	CSMD3_uc003yns.2_Silent_p.N2096N|CSMD3_uc003ynt.2_Silent_p.N2854N|CSMD3_uc011lhx.1_Silent_p.N2725N	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2894	Extracellular (Potential).|Sushi 19.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TTACCACATCATTAAAGTTGA	0.463										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	94					0	0	0.001855	0	0		G	113304872	G	G	113304872	2	3	58	1	0	0	0	0	0	0	0	1	3949	214	8	3		3	CSMD3	8	113304872	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	2825881	113304872	33059150	322	41312											
ADCY8	114	broad.mit.edu	37	chr8	132051889	132051889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtggtgtccttcctgaccaCcaccagggcgcagatcacta	8	8	11	14	1	1	2	1	1	0	1	3	2	3	2	5	3	0	1	5	3	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:132051889C>T	uc003ytd.3	-	1	947	c.691G>A	c.(691-693)GTG>ATG	p.V231M	ADCY8_uc010mds.2_Missense_Mutation_p.V231M	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	231	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TTCCTGACCACCACCAGGGCG	0.642										HNSCC(32;0.087)			9	52					0	0	0.004482	0	0		T	132051889	T	T	132051889	3	4	58	1	0	0	0	0	1	0	0	0	300	507	18	4	3136	4	ADCY8	8	132051889	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	18747017	132051889	14312133	323	41313											
PHF20L1	51105	broad.mit.edu	37	chr8	133849991	133849991	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgttggcaacacagcgtgtGcatggggctgctggaggaga	8	8	18	7	1	0	1	0	0	0	1	0	3	0	2	0	5	4	5	0	5	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:133849991G>T	uc003ytt.2	+	17	2451	c.2126G>T	c.(2125-2127)TGC>TTC	p.C709F	PHF20L1_uc011lja.1_Missense_Mutation_p.C683F	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	709	PHD-type.						nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			CACAGCGTGTGCATGGGGCTG	0.512													10	47					3.86212e-05	4.14675e-05	0.008291	1	0		T	133849991	T	T	133849991	3	4	58	1	0	0	0	0	1	0	0	0	11851	1319	46	5	2284	5	PHF20L1	8	133849991	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1798102	133849991	12514031	324	41314											
TG	7038	broad.mit.edu	37	chr8	133895150	133895150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaaatggcgactatcaggcGgtgcagtgccagacggaagg	11	5	16	9	4	1	1	1	0	0	1	1	4	1	2	1	5	2	1	1	5	3	1	rs146255464	byFrequency	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:133895150G>A	uc003ytw.2	+	8	1022	c.981G>A	c.(979-981)GCG>GCA	p.A327A		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	327	Thyroglobulin type-1 4.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		ACTATCAGGCGGTGCAGTGCC	0.597													5	51					0	0	0.001168	0	0		A	133895150	A	A	133895150	2	1	58	1	0	0	0	0	0	0	0	1	15838	1103	39	1		1	TG	8	133895150	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	45159	133895150	12468872	325	41315											
GPR20	2843	broad.mit.edu	37	chr8	142367096	142367096	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtgctggccgaagaggcCtcggacggtggcctggaagc	6	6	17	12	4	0	1	0	0	0	1	2	4	1	3	4	6	2	1	4	6	2	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:142367096C>A	uc003ywf.2	-	2	1017	c.928G>T	c.(928-930)GGC>TGC	p.G310C		NM_005293	NP_005284	Q99678	GPR20_HUMAN	G protein-coupled receptor 20	310	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(97;4.32e-16)|all_epithelial(106;6.61e-14)|Lung NSC(106;9.4e-06)|all_lung(105;1.35e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0415)			CCGAAGAGGCCTCGGACGGTG	0.642													6	50					0.00198382	0.0020721	0.001984	1	0		A	142367096	A	A	142367096	3	1	58	1	0	0	0	0	1	0	0	0	6695	681	24	5	152	5	GPR20	8	142367096	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	8471946	142367096	3996926	326	41316											
SLC1A1	6505	broad.mit.edu	37	chr9	4576621	4576621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgaagaaaataaccaggtgGacaagaggatcactcgattc	16	7	10	8	1	1	3	1	1	0	2	3	6	1	5	1	3	1	0	1	3	5	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:4576621G>A	uc003zij.1	+	10	1287	c.1051G>A	c.(1051-1053)GAC>AAC	p.D351N	C9orf68_uc003zik.2_Intron	NM_004170	NP_004161	P43005	EAA3_HUMAN	solute carrier family 1, member 1	351					D-aspartate import|L-glutamate import|synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0		Acute lymphoblastic leukemia(2;0.0359)|Breast(48;0.0457)		GBM - Glioblastoma multiforme(50;0.0124)|Lung(218;0.183)	L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)	TAACCAGGTGGACAAGAGGAT	0.463													11	85					0	0	0.008291	0	0		A	4576621	A	A	4576621	3	1	58	1	0	0	0	0	1	0	0	0	14456	1174	41	4	1089	4	SLC1A1	9	4576621	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08		4576621	136636810	327	41317											
ERMP1	79956	broad.mit.edu	37	chr9	5787567	5787567	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttgaccctttgtgggctcGaacatagaaggacatatggc	10	11	12	8	1	0	2	0	1	0	1	1	4	0	3	1	3	1	2	1	3	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:5787567G>A	uc003zjm.1	-	14	2467	c.2413C>T	c.(2413-2415)CGA>TGA	p.R805*	ERMP1_uc011lme.1_RNA|ERMP1_uc010mhs.1_Nonsense_Mutation_p.R419*	NM_024896	NP_079172	Q7Z2K6	ERMP1_HUMAN	aminopeptidase Fxna	805	Extracellular (Potential).				proteolysis	endoplasmic reticulum membrane|integral to membrane	metal ion binding|metallopeptidase activity			ovary(1)	1		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00115)|Lung(218;0.111)		TTGTGGGCTCGAACATAGAAG	0.418													13	76					0	0	0.001855	0	0		A	5787567	A	A	5787567	4	1	58	1	0	0	0	0	0	1	0	0	5244	1066	37	1	309	1	ERMP1	9	5787567	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1210946	5787567	135425864	328	41318											
SLC24A2	25769	broad.mit.edu	37	chr9	19785935	19785935	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatccaccaccaccaacCtttgcttgggcttctggtgc	10	10	7	14	0	1	0	0	0	1	0	2	0	2	0	5	2	3	2	5	2	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:19785935C>A	uc003zoa.1	-	1	992	c.930G>T	c.(928-930)AAG>AAT	p.K310N	SLC24A2_uc003zob.1_Missense_Mutation_p.K310N	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	310	Cytoplasmic (Potential).				visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		CACCACCAACCTTTGCTTGGG	0.393													10	50					2.52707e-12	2.92517e-12	0.006214	1	0		A	19785935	A	A	19785935	3	1	58	1	0	0	0	0	1	0	0	0	14491	695	24	5	1095	5	SLC24A2	9	19785935	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	13998368	19785935	121427496	329	41319											
KIAA1797	54914	broad.mit.edu	37	chr9	20944775	20944775	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcagaacgtttcaggaggTaagagatggaggctacattt	13	9	14	5	1	1	2	1	0	0	2	1	6	1	4	0	4	3	4	0	4	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:20944775T>C	uc003zog.1	+	31	3918	c.3555_splice	c.e31+2	p.E1185_splice	KIAA1797_uc003zoh.1_Splice_Site_p.E621_splice	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914							integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		TTTCAGGAGGTAAGAGATGGA	0.463													3	20					0	0	0.004672	0	0		C	20944775	C	C	20944775	5	2	58	1	0	0	0	0	0	0	1	0	8274	1652	57	3	3667	3	KIAA1797	9	20944775	Splice_Site	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1158840	20944775	120268656	330	41320											
IFNA7	3444	broad.mit.edu	37	chr9	21201782	21201782	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaggggagtctcttccaccCcaacctcctgtatcacacat	9	10	6	16	0	3	0	2	0	1	0	6	1	5	1	5	2	1	1	5	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:21201782C>A	uc003zop.1	-	1	423	c.383G>T	c.(382-384)GGG>GTG	p.G128V	IFNA14_uc003zoo.1_Intron	NM_021057	NP_066401	P01567	IFNA7_HUMAN	interferon, alpha 7 precursor	128					blood coagulation|cell-cell signaling|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				GBM - Glioblastoma multiforme(5;4.75e-197)|Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		CTCTTCCACCCCAACCTCCTG	0.453													18	185					0.00498961	0.00514801	0.00499	1	0		A	21201782	A	A	21201782	3	1	58	1	0	0	0	0	1	0	0	0	7558	623	22	5	190	5	IFNA7	9	21201782	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	257007	21201782	120011649	331	41321											
UNC13B	10497	broad.mit.edu	37	chr9	35382496	35382496	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatcgctttgcagcctccAactttggggtaagtatcatg	8	13	10	10	1	1	1	1	1	0	0	3	1	2	1	2	2	3	4	2	2	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:35382496A>G	uc003zwq.2	+	20	2843	c.2551A>G	c.(2551-2553)AAC>GAC	p.N851D	UNC13B_uc003zwr.2_Missense_Mutation_p.N851D	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	851					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			TGCAGCCTCCAACTTTGGGGT	0.363													24	121					0	0	0.004656	0	0		G	35382496	G	G	35382496	3	3	58	1	0	0	0	0	1	0	0	0	17011	130	5	3	2629	3	UNC13B	9	35382496	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	14180714	35382496	105830935	332	41322											
NPR2	4882	broad.mit.edu	37	chr9	35808513	35808513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctcaatcaggtggagaCgattggggatgcttacatgg	9	10	13	9	1	2	1	2	0	1	1	3	4	2	2	1	5	2	1	1	5	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:35808513C>T	uc003zyd.2	+	19	2720	c.2720C>T	c.(2719-2721)ACG>ATG	p.T907M	NPR2_uc010mlb.2_Missense_Mutation_p.T883M|SPAG8_uc003zye.2_Intron	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	907	Guanylate cyclase.|Cytoplasmic (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	CAGGTGGAGACGATTGGGGAT	0.478													7	36					0	0	0.004482	0	0		T	35808513	T	T	35808513	3	4	58	1	0	0	0	0	1	0	0	0	10614	536	19	1	2794	1	NPR2	9	35808513	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	426017	35808513	105404918	333	41323											
PCSK5	5125	broad.mit.edu	37	chr9	78686713	78686713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagcttcaacccccagcacGtgcacatttacagcgccagc	10	8	7	16	2	1	0	1	0	0	0	1	0	1	0	3	0	7	3	3	0	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:78686713G>A	uc004ajz.2	+	7	1331	c.793G>A	c.(793-795)GTG>ATG	p.V265M	PCSK5_uc004ajy.2_Missense_Mutation_p.V265M|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	265	Catalytic.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						CCCCCAGCACGTGCACATTTA	0.542													19	117					0	0	0.010504	0	0		A	78686713	A	A	78686713	3	1	58	1	0	0	0	0	1	0	0	0	11622	1145	40	1	819	1	PCSK5	9	78686713	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	42878200	78686713	62526718	334	41324											
PRUNE2	158471	broad.mit.edu	37	chr9	79322985	79322985	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaagacccctcctcatacTctaaaacttcctctggttcc	9	13	4	15	0	3	1	1	0	2	1	6	1	6	1	5	1	2	2	5	1	4	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:79322985T>C	uc010mpk.2	-	8	4329	c.4205A>G	c.(4204-4206)GAG>GGG	p.E1402G		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1402					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CTCCTCATACTCTAAAACTTC	0.453													12	40					0	0	0.000978	0	0		C	79322985	C	C	79322985	3	2	58	1	0	0	0	0	1	0	0	0	12663	1551	54	3	5109	3	PRUNE2	9	79322985	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	636272	79322985	61890446	335	41325											
AGTPBP1	23287	broad.mit.edu	37	chr9	88200433	88200433	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcattatcattggtatgcCacactgtctctttgatgctg	7	17	8	9	0	2	1	1	1	1	0	3	1	2	1	1	1	3	3	1	1	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:88200433C>T	uc011ltd.1	-	22	3143	c.3110G>A	c.(3109-3111)TGG>TAG	p.W1037*	AGTPBP1_uc004aod.3_Nonsense_Mutation_p.W663*|AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Nonsense_Mutation_p.W997*|AGTPBP1_uc011lte.1_Nonsense_Mutation_p.W1049*	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	1037					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						ATTGGTATGCCACACTGTCTC	0.328													23	109					0	0	0.00333	0	0		T	88200433	T	T	88200433	4	4	58	1	0	0	0	0	0	1	0	0	400	595	21	4	586	4	AGTPBP1	9	88200433	Nonsense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	8877448	88200433	53012998	336	41326											
DAPK1	1612	broad.mit.edu	37	chr9	90321379	90321379	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtatggtggcgtgcgcatCgtgcccgtggaacacctcac	6	9	14	12	4	1	0	1	0	0	0	2	1	1	1	2	3	3	2	2	3	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:90321379C>T	uc004apc.2	+	26	3531	c.3393C>T	c.(3391-3393)ATC>ATT	p.I1131I	DAPK1_uc004apd.2_Silent_p.I1131I|DAPK1_uc011ltg.1_Silent_p.I1065I|DAPK1_uc011lth.1_Silent_p.I868I|DAPK1_uc004apg.2_Silent_p.I108I	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	1131					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						GCGTGCGCATCGTGCCCGTGG	0.612									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				3	23					0	0	0.004672	0	0		T	90321379	T	T	90321379	2	4	58	1	0	0	0	0	0	0	0	1	4238	874	31	1		1	DAPK1	9	90321379	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2120946	90321379	50892052	337	41327											
NR4A3	8013	broad.mit.edu	37	chr9	102590532	102590532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggctactcgagcaactacGaactcaagccttcctgcgtg	10	8	10	13	3	1	0	1	0	0	0	3	2	2	0	2	1	7	2	2	1	5	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:102590532G>A	uc004baf.1	+	3	937	c.208G>A	c.(208-210)GAA>AAA	p.E70K	NR4A3_uc004bae.2_Missense_Mutation_p.E70K|NR4A3_uc004bag.1_Missense_Mutation_p.E70K|NR4A3_uc004bai.2_Missense_Mutation_p.E81K	NM_006981	NP_008912	Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	70					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		EWSR1/NR4A3(140)|TAF15/NR4A3(33)	bone(173)	173		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				GAGCAACTACGAACTCAAGCC	0.517			T	EWSR1	extraskeletal myxoid chondrosarcoma								17	58					0	0	0.00499	0	0		A	102590532	A	A	102590532	3	1	58	1	0	0	0	0	1	0	0	0	10653	1059	37	1	247	1	NR4A3	9	102590532	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	12269153	102590532	38622899	338	41328											
EPB41L4B	54566	broad.mit.edu	37	chr9	111956584	111956584	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgggggacggcagcggcacGgagacttgtgtggcggccgt	5	7	20	9	5	0	1	0	0	0	1	0	3	0	2	1	7	1	2	1	7	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:111956584G>A	uc004bdz.1	-	21	2434	c.2139C>T	c.(2137-2139)TCC>TCT	p.S713S		NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	713						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						GCAGCGGCACGGAGACTTGTG	0.612													19	50					0	0	0.007413	0	0		A	111956584	A	A	111956584	2	1	58	1	0	0	0	0	0	0	0	1	5164	1103	39	1		1	EPB41L4B	9	111956584	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	9366052	111956584	29256847	339	41329											
SVEP1	79987	broad.mit.edu	37	chr9	113221306	113221306	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacaggccaggcagaaggccTtccctgcattaggttggtaa	10	8	13	10	0	0	1	0	0	0	1	1	2	1	1	3	5	1	4	3	5	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:113221306T>G	uc010mtz.2	-	19	3747	c.3410A>C	c.(3409-3411)AAG>ACG	p.K1137T	SVEP1_uc010mua.1_Missense_Mutation_p.K1137T	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1137					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GCAGAAGGCCTTCCCTGCATT	0.463													17	85					0	0	0.00499	0	0		G	113221306	G	G	113221306	3	3	58	1	0	0	0	0	1	0	0	0	15445	1609	56	5	7425	5	SVEP1	9	113221306	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1264722	113221306	27992125	340	41330											
TRUB2	26995	broad.mit.edu	37	chr9	131071975	131071975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacctgaggggtagcagcccGgatagcatcctggatgttgg	8	9	15	9	1	0	1	0	1	0	0	1	3	1	3	3	5	4	4	3	5	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:131071975G>A	uc004buq.1	-	8	860	c.850C>T	c.(850-852)CGG>TGG	p.R284W		NM_015679	NP_056494	O95900	TRUB2_HUMAN	TruB pseudouridine (psi) synthase homolog 2	284					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(1)	1						GTAGCAGCCCGGATAGCATCC	0.637													5	37					0	0	0.000602	0	0		A	131071975	A	A	131071975	3	1	58	1	0	0	0	0	1	0	0	0	16629	1115	39	1	149	1	TRUB2	9	131071975	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	17850669	131071975	10141456	341	41331											
SLC27A4	10999	broad.mit.edu	37	chr9	131117771	131117771	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgagaacgtgtccaccacCgaggtggaaggcacactcag	11	5	14	11	2	1	1	1	1	0	1	2	4	2	2	3	4	1	1	3	4	2	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:131117771C>T	uc004but.2	+	11	1841	c.1557C>T	c.(1555-1557)ACC>ACT	p.T519T	SLC27A4_uc004buu.2_Silent_p.T113T	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	519					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						TGTCCACCACCGAGGTGGAAG	0.622													5	42					0	0	0.000602	0	0		T	131117771	T	T	131117771	2	4	58	1	0	0	0	0	0	0	0	1	14553	639	23	1		1	SLC27A4	9	131117771	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	45796	131117771	10095660	342	41332											
FUBP3	8939	broad.mit.edu	37	chr9	133506105	133506105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacagcgaccccaacctgcGgagattcaccatcagggggg	11	4	12	14	2	2	1	2	0	0	1	2	3	2	1	4	4	4	0	4	4	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:133506105G>A	uc004bzr.1	+	13	1316	c.1208G>A	c.(1207-1209)CGG>CAG	p.R403Q	FUBP3_uc004bzs.1_Missense_Mutation_p.R316Q	NM_003934	NP_003925	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	403	KH 4.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		CCCAACCTGCGGAGATTCACC	0.602													7	34					0	0	0.00308	0	0		A	133506105	A	A	133506105	3	1	58	1	0	0	0	0	1	0	0	0	6107	1116	39	1	1258	1	FUBP3	9	133506105	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2388334	133506105	7707326	343	41333											
GTF3C5	9328	broad.mit.edu	37	chr9	135929863	135929863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacagcctccccatcaccGtcaagaagacatgtaagcgt	13	7	7	14	2	2	2	2	0	0	2	3	2	3	2	4	0	3	1	4	0	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:135929863G>A	uc004cci.3	+	7	1394	c.1057G>A	c.(1057-1059)GTC>ATC	p.V353I	GTF3C5_uc010mzz.2_Missense_Mutation_p.V228I|GTF3C5_uc004ccj.3_Missense_Mutation_p.V353I	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	353						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		CCCCATCACCGTCAAGAAGAC	0.612													6	28					0	0	0.001984	0	0		A	135929863	A	A	135929863	3	1	58	1	0	0	0	0	1	0	0	0	6892	1145	40	1	1083	1	GTF3C5	9	135929863	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2423758	135929863	5283568	344	41334											
ADAMTSL2	9719	broad.mit.edu	37	chr9	136402618	136402618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtggacggcgtgttcccGcagttgcgggggtggggtga	5	8	20	8	4	0	1	0	1	0	0	1	2	1	2	1	6	1	3	1	6	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:136402618G>A	uc011mdl.1	+	3	739	c.182G>A	c.(181-183)CGC>CAC	p.R61H	ADAMTSL2_uc004cei.2_Missense_Mutation_p.R61H	NM_001145320	NP_001138792	Q86TH1	ATL2_HUMAN	ADAMTS-like 2 precursor	61	TSP type-1 1.				negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;9.31e-08)|Epithelial(140;6.62e-07)|all cancers(34;7.74e-06)		GCGTGTTCCCGCAGTTGCGGG	0.672													4	38					0	0	0.009096	0	0		A	136402618	A	A	136402618	3	1	58	1	0	0	0	0	1	0	0	0	275	1087	38	1	188	1	ADAMTSL2	9	136402618	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	472755	136402618	4810813	345	41335											
SARDH	1757	broad.mit.edu	37	chr9	136573487	136573487	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgacggagtagttcttggcGtaggactcatggcttcgctc	7	11	13	10	4	2	0	1	0	1	0	4	3	2	2	0	4	0	5	0	4	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:136573487G>A	uc004cep.3	-	11	1526	c.1392C>T	c.(1390-1392)TAC>TAT	p.Y464Y	SARDH_uc004ceo.2_Silent_p.Y464Y|SARDH_uc011mdn.1_Silent_p.Y464Y|SARDH_uc011mdo.1_Silent_p.Y296Y	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	464					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		AGTTCTTGGCGTAGGACTCAT	0.652													6	90					0	0	0.001984	0	0		A	136573487	A	A	136573487	2	1	58	1	0	0	0	0	0	0	0	1	13866	1140	40	1		1	SARDH	9	136573487	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	170869	136573487	4639944	346	41336											
GLT6D1	360203	broad.mit.edu	37	chr9	138516492	138516492	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatttgcggagtgtaggaaCggcctcaggtactcctctgc	7	12	12	10	2	2	0	1	0	1	0	3	2	3	2	2	4	4	2	2	4	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:138516492C>T	uc010nbd.1	-	5	536	c.282G>A	c.(280-282)CCG>CCA	p.P94P		NM_182974	NP_892019	Q7Z4J2	GL6D1_HUMAN	glycosyltransferase 6 domain containing 1	94	Lumenal (Potential).				carbohydrate metabolic process	integral to membrane	transferase activity, transferring hexosyl groups			ovary(1)	1		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;4.3e-07)|Epithelial(140;1.58e-06)|all cancers(34;5.36e-05)		AGTGTAGGAACGGCCTCAGGT	0.393													14	65					0	0	0.001855	0	0		T	138516492	T	T	138516492	2	4	58	1	0	0	0	0	0	0	0	1	6483	523	19	1		1	GLT6D1	9	138516492	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1943005	138516492	2696939	347	41337											
PHPT1	29085	broad.mit.edu	37	chr9	139743963	139743963	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagtatgtgctgatccgagtCcactcggctccccgctccgg	6	9	11	15	4	0	1	0	1	0	0	5	2	4	1	5	2	1	4	5	2	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:139743963C>T	uc004cjp.2	+	2	703	c.81C>T	c.(79-81)GTC>GTT	p.V27V	PHPT1_uc011mei.1_Silent_p.V27V|PHPT1_uc004cjq.3_Silent_p.V27V|MAMDC4_uc004cjs.2_5'Flank|MAMDC4_uc011mej.1_5'Flank	NM_014172	NP_054891	Q9NRX4	PHP14_HUMAN	phosphohistidine phosphatase 1 isoform 3	27				V -> I (in Ref. 4; CAB66579).		cytosol	phosphohistidine phosphatase activity|phosphoprotein phosphatase activity				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		TGATCCGAGTCCACTCGGCTC	0.652													18	45					0	0	0.00278	0	0		T	139743963	T	T	139743963	2	4	58	1	0	0	0	0	0	0	0	1	11879	842	30	4		4	PHPT1	9	139743963	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1227471	139743963	1469468	348	41338											
CACNA1B	774	broad.mit.edu	37	chr9	141016353	141016353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccagtctcaccctctcCgccgcgtgcccaacggttac	5	8	7	21	4	2	0	1	0	2	0	5	0	3	0	6	1	3	1	6	1	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:141016353C>T	uc004cog.2	+	46	7067	c.6922C>T	c.(6922-6924)CGC>TGC	p.R2308C	CACNA1B_uc004coi.2_Missense_Mutation_p.R1520C	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	2308	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity	p.R2308H(1)		breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TCACCCTCTCCGCCGCGTGCC	0.642													4	42					0	0	0.000602	0	0		T	141016353	T	T	141016353	3	4	58	1	0	0	0	0	1	0	0	0	2542	652	23	1	7104	1	CACNA1B	9	141016353	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1272390	141016353	197078	349	41339											
UPF2	26019	broad.mit.edu	37	chr10	12001356	12001356	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttctcatcatttgctcCtgaaataaaaagtccaaatt	13	16	3	9	0	3	1	2	1	2	0	6	1	5	1	2	0	1	1	2	0	5	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:12001356C>T	uc001ila.2	-	11	2659	c.2185_splice	c.e11-1	p.E729_splice	UPF2_uc001ilb.2_Splice_Site_p.E729_splice|UPF2_uc001ilc.2_Splice_Site_p.E729_splice|UPF2_uc009xiz.1_Splice_Site_p.E729_splice	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog						mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				TCATTTGCTCCTGAAATAAAA	0.363													5	59					0	0	0.000602	0	0		T	12001356	T	T	12001356	5	4	58	1	0	0	0	0	0	0	1	0	17030	695	24	4	1678	4	UPF2	10	12001356	Splice_Site	SNP	C	TCGA-BR-8059-01A-11D-2340-08		12001356	123533391	350	41340											
DCLRE1C	64421	broad.mit.edu	37	chr10	14951067	14951067	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggtgaagtacagagccCagatctccttgcagtgaagc	11	8	12	10	0	1	4	0	2	1	2	2	4	1	4	2	1	5	3	2	1	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:14951067C>T	uc001inn.2	-	14	1504	c.1419G>A	c.(1417-1419)CTG>CTA	p.L473L	DCLRE1C_uc010qbx.1_Intron|DCLRE1C_uc001ink.2_Silent_p.L126L|DCLRE1C_uc001inl.2_Silent_p.L353L|DCLRE1C_uc009xji.2_Silent_p.L358L|DCLRE1C_uc001inm.2_Silent_p.L353L|DCLRE1C_uc001ino.2_Silent_p.L358L|DCLRE1C_uc009xjh.2_RNA|DCLRE1C_uc001inp.2_Silent_p.L353L|DCLRE1C_uc001inq.2_Silent_p.L353L|DCLRE1C_uc001inr.2_Silent_p.L358L	NM_001033855	NP_001029027	Q96SD1	DCR1C_HUMAN	artemis protein isoform a	473					DNA recombination	nucleus	5'-3' exonuclease activity|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)	1						GTACAGAGCCCAGATCTCCTT	0.423								Involved_in_tolerance_or_repair_of_DNA_crosslinks|NHEJ					6	60					0	0	0.00308	0	0		T	14951067	T	T	14951067	2	4	58	1	0	0	0	0	0	0	0	1	4299	581	21	4		4	DCLRE1C	10	14951067	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2949711	14951067	120583680	351	41341											
ST8SIA6	338596	broad.mit.edu	37	chr10	17363149	17363149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctttagttctccagaaaaGggccagatctttcaggtact	11	12	8	10	0	3	2	1	0	2	2	4	2	3	2	3	2	1	2	3	2	4	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:17363149G>A	uc001ipd.2	-	8	925	c.925C>T	c.(925-927)CTT>TTT	p.L309F	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	309	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						CTCCAGAAAAGGGCCAGATCT	0.443													49	208					0	0	0.00361	0	0		A	17363149	A	A	17363149	3	1	58	1	0	0	0	0	1	0	0	0	15261	1000	35	4	275	4	ST8SIA6	10	17363149	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2412082	17363149	118171598	352	41342											
MLLT10	8028	broad.mit.edu	37	chr10	21959610	21959610	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaatccaggaacaactgtgtCagcagctagcccttttcctc	11	10	7	13	0	1	0	1	0	0	0	4	1	3	1	3	1	5	2	3	1	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:21959610C>G	uc001iqs.2	+	10	1376	c.1028C>G	c.(1027-1029)TCA>TGA	p.S343*	MLLT10_uc001iqt.2_Nonsense_Mutation_p.S343*|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Nonsense_Mutation_p.S343*|MLLT10_uc001ira.2_5'UTR|MLLT10_uc001irb.2_5'Flank|MLLT10_uc001iqz.2_Nonsense_Mutation_p.S98*	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	343	DNA-binding.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						ACAACTGTGTCAGCAGCTAGC	0.398			T	MLL|PICALM|CDK6	AL								13	50					0	0	0.003163	0	0		G	21959610	G	G	21959610	4	3	58	1	0	0	0	0	0	1	0	0	9644	838	29	5	1062	5	MLLT10	10	21959610	Nonsense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4596461	21959610	113575137	353	41343											
MYO3A	53904	broad.mit.edu	37	chr10	26385597	26385597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaatgtttcaaagtcataGgttttacaatggaggtaagt	14	13	10	4	0	2	0	2	0	0	0	2	1	2	1	0	3	2	4	0	3	6	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:26385597G>A	uc001isn.2	+	17	2122	c.1762G>A	c.(1762-1764)GGT>AGT	p.G588S	MYO3A_uc009xko.1_Missense_Mutation_p.G588S|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Missense_Mutation_p.G588S	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	588	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						CAAAGTCATAGGTTTTACAAT	0.274													10	59					0	0	0.006214	0	0		A	26385597	A	A	26385597	3	1	58	1	0	0	0	0	1	0	0	0	10094	1000	35	4	1820	4	MYO3A	10	26385597	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4425987	26385597	109149150	354	41344											
ARMC4	55130	broad.mit.edu	37	chr10	28196696	28196696	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaacgaactccatctaagcGatcaattatcctatcgtgga	14	10	6	11	3	2	0	1	0	1	0	5	3	4	1	2	1	3	0	2	1	6	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:28196696G>A	uc009xky.2	-	17	2604	c.2506C>T	c.(2506-2508)CGC>TGC	p.R836C	ARMC4_uc010qds.1_Missense_Mutation_p.R361C|ARMC4_uc010qdt.1_Missense_Mutation_p.R528C|ARMC4_uc001itz.2_Missense_Mutation_p.R836C	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	836	ARM 6.						binding			ovary(4)|skin(2)	6						CCATCTAAGCGATCAATTATC	0.403													6	35					0	0	0.001168	0	0		A	28196696	A	A	28196696	3	1	58	1	0	0	0	0	1	0	0	0	954	1058	37	1	644	1	ARMC4	10	28196696	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1811099	28196696	107338051	355	41345											
PPYR1	5540	broad.mit.edu	37	chr10	47087134	47087134	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaccctctgcaagatgtcGgccttcatccagtgcatgtc	8	10	10	13	1	2	2	1	0	1	2	5	3	3	2	3	1	2	2	3	1	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:47087134G>A	uc001jee.2	+	3	770	c.351G>A	c.(349-351)TCG>TCA	p.S117S	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Silent_p.S117S	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	117	Helical; Name=3; (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						GCAAGATGTCGGCCTTCATCC	0.582													16	157					0	0	0.00499	0	0		A	47087134	A	A	47087134	2	1	58	1	0	0	0	0	0	0	0	1	12438	1103	39	1		1	PPYR1	10	47087134	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	18890438	47087134	88447613	356	41346											
FRMPD2	143162	broad.mit.edu	37	chr10	49447648	49447648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaggccttgctgcttacCggttaacaaggaggctgcag	8	11	12	10	1	0	0	0	0	0	0	0	1	0	1	2	4	5	5	2	4	4	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:49447648C>T	uc001jgi.2	-	7	895	c.788G>A	c.(787-789)CGC>CAC	p.R263H	FRMPD2_uc001jgh.2_Missense_Mutation_p.R232H|FRMPD2_uc001jgj.2_Missense_Mutation_p.R241H	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	263					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		TGCTGCTTACCGGTTAACAAG	0.488													5	25					0	0	0.000602	0	0		T	49447648	T	T	49447648	3	4	58	1	0	0	0	0	1	0	0	0	6072	666	23	1	3233	1	FRMPD2	10	49447648	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2360514	49447648	86087099	357	41347											
MAPK8	5599	broad.mit.edu	37	chr10	49609720	49609720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatgagcagaagcaagcGtgacaacaatttttatagtg	15	10	9	7	1	1	3	1	2	0	1	1	3	1	3	0	0	4	2	0	0	6	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:49609720G>A	uc009xnz.2	+	2	241	c.17G>A	c.(16-18)CGT>CAT	p.R6H	MAPK8_uc001jgl.2_Missense_Mutation_p.R6H|MAPK8_uc001jgm.2_Missense_Mutation_p.R6H|MAPK8_uc001jgo.2_Missense_Mutation_p.R6H|MAPK8_uc009xoa.2_Missense_Mutation_p.R6H|MAPK8_uc001jgn.2_Missense_Mutation_p.R6H|MAPK8_uc010qgk.1_Missense_Mutation_p.R6H|MAPK8_uc001jgp.2_Missense_Mutation_p.R6H|MAPK8_uc001jgq.2_Missense_Mutation_p.R6H	NM_139047	NP_620635	P45983	MK08_HUMAN	mitogen-activated protein kinase 8 isoform JNK1	6					activation of pro-apoptotic gene products|cellular response to mechanical stimulus|induction of apoptosis by intracellular signals|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of apoptosis|negative regulation of protein binding|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of deacetylase activity|regulation of protein localization|regulation of sequence-specific DNA binding transcription factor activity|response to UV|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|histone deacetylase binding|histone deacetylase regulator activity|JUN kinase activity|protein binding			central_nervous_system(3)|lung(2)|stomach(1)|ovary(1)|kidney(1)	8		Ovarian(717;0.0221)|Lung SC(717;0.113)|all_neural(218;0.116)		Epithelial(53;3.46e-65)|Lung(62;0.125)		AGAAGCAAGCGTGACAACAAT	0.358													6	38					0	0	0.001984	0	0		A	49609720	A	A	49609720	3	1	58	1	0	0	0	0	1	0	0	0	9301	1145	40	1	19	1	MAPK8	10	49609720	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	162072	49609720	85925027	358	41348											
CHAT	1103	broad.mit.edu	37	chr10	50872965	50872965	+	Missense_Mutation	SNP	T	G	G																															agagacttcttctagcaagtTtgcaaaagctgtggaagaaa																										TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:50872965T>G	uc001jhz.2	+	15	2273	c.2120T>G	c.(2119-2121)TTT>TGT	p.F707C	CHAT_uc001jhv.1_Missense_Mutation_p.F589C|CHAT_uc001jhx.1_Missense_Mutation_p.F589C|CHAT_uc001jhy.1_Missense_Mutation_p.F589C|CHAT_uc001jia.2_Missense_Mutation_p.F589C|CHAT_uc010qgs.1_Intron	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	707					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	TCTAGCAAGTTTGCAAAAGCT	0.502													13	156					0	0	0.001368	0	0		G	50872965	G	G	50872965	3	3	58	1	0	0	0	0	1	0	0	0	3316	1841	64	5	2222	5	CHAT	10	50872965	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1263245	50872965	84661782	359	41349	82	2									
CHAT	1103	broad.mit.edu	37	chr10	50872972	50872972	+	Silent	SNP	A	G	G																															tcttctagcaagtttgcaaaAgctgtggaagaaagcctcat																								rs145995632		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:50872972A>G	uc001jhz.2	+	15	2280	c.2127A>G	c.(2125-2127)AAA>AAG	p.K709K	CHAT_uc001jhv.1_Silent_p.K591K|CHAT_uc001jhx.1_Silent_p.K591K|CHAT_uc001jhy.1_Silent_p.K591K|CHAT_uc001jia.2_Silent_p.K591K|CHAT_uc010qgs.1_Intron	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	709					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	AGTTTGCAAAAGCTGTGGAAG	0.507													12	143					0	0	0.000978	0	0		G	50872972	G	G	50872972	2	3	58	1	0	0	0	0	0	0	0	1	3316	69	3	3		3	CHAT	10	50872972	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	7	50872972	84661775	360	41350	82	2									
FAM21A	387680	broad.mit.edu	37	chr10	51892678	51892678	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtccaacatctttgatgaTcccctgaatgcctttggagg	8	13	10	10	0	1	3	0	3	1	0	3	4	3	4	4	2	2	0	4	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:51892678T>A	uc001jjb.2	+	31	4081	c.3999T>A	c.(3997-3999)GAT>GAA	p.D1333E	FAM21A_uc001jja.1_Intron|FAM21A_uc010qhi.1_Missense_Mutation_p.D1312E|FAM21A_uc010qhj.1_Missense_Mutation_p.D1271E|FAM21B_uc009xoq.2_Missense_Mutation_p.D1245E	NM_001005751	NP_001005751	Q641Q2	FA21A_HUMAN	hypothetical protein LOC387680	1333					retrograde transport, endosome to Golgi	early endosome membrane|WASH complex				ovary(1)	1						TCTTTGATGATCCCCTGAATG	0.478													12	61					0	0	0.007413	0	0		A	51892678	A	A	51892678	3	1	58	1	0	0	0	0	1	0	0	0	5551	1432	50	5	4121	5	FAM21A	10	51892678	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1019706	51892678	83642069	361	41351											
PCDH15	65217	broad.mit.edu	37	chr10	55566740	55566740	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctcaccacagaaccatTctgtgcaatatatatattgc	12	13	6	10	0	2	1	1	0	2	1	3	1	2	1	2	1	3	2	2	1	6	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:55566740T>C	uc010qhq.1	-	36	5043	c.4648A>G	c.(4648-4650)AAT>GAT	p.N1550D	PCDH15_uc010qhr.1_Missense_Mutation_p.N1545D	NM_001142771	NP_001136243	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD3-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ACAGAACCATTCTGTGCAATA	0.473										HNSCC(58;0.16)			15	62					0	0	0.00245	0	0		C	55566740	C	C	55566740	3	2	58	1	0	0	0	0	1	0	0	0	11530	1783	62	3	404	3	PCDH15	10	55566740	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	3674062	55566740	79968007	362	41352											
ZWINT	11130	broad.mit.edu	37	chr10	58118615	58118615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgcttcaggtttccaaGtttctgaaacaccctgtcaa	9	13	7	12	0	3	1	2	1	1	0	4	1	4	1	2	1	3	4	2	1	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:58118615G>A	uc001jjx.1	-	6	611	c.574C>T	c.(574-576)CTT>TTT	p.L192F	ZWINT_uc001jjy.1_Intron|ZWINT_uc001jka.1_Missense_Mutation_p.L192F|ZWINT_uc009xoy.1_RNA	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a	192	Potential.				cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0						AGGTTTCCAAGTTTCTGAAAC	0.552													13	81					0	0	0.001855	0	0		A	58118615	A	A	58118615	3	1	58	1	0	0	0	0	1	0	0	0	18274	1029	36	4	271	4	ZWINT	10	58118615	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2551875	58118615	77416132	363	41353											
FAM13C	220965	broad.mit.edu	37	chr10	61043178	61043178	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgatgctggcgccgggtcCttgactccatgcacctgagc	5	10	13	13	2	0	3	0	3	0	0	2	3	2	3	4	2	3	3	4	2	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:61043178C>A	uc001jkn.2	-	7	671	c.537G>T	c.(535-537)AAG>AAT	p.K179N	FAM13C_uc001jko.2_Missense_Mutation_p.K179N|FAM13C_uc010qid.1_Missense_Mutation_p.K96N|FAM13C_uc010qie.1_Missense_Mutation_p.K96N|FAM13C_uc010qif.1_Missense_Mutation_p.K201N|FAM13C_uc001jkp.2_Missense_Mutation_p.K96N	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	179										ovary(2)	2						GCGCCGGGTCCTTGACTCCAT	0.532													22	111					1.1804e-14	1.3701e-14	0.003954	1	0		A	61043178	A	A	61043178	3	1	58	1	0	0	0	0	1	0	0	0	5465	680	24	5	1256	5	FAM13C	10	61043178	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2924563	61043178	74491569	364	41354											
HKDC1	80201	broad.mit.edu	37	chr10	71008477	71008477	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtctgcgggctgccggaCggcacaggtgggccagcaca	7	5	16	13	4	1	0	0	0	1	0	1	1	1	1	2	5	4	3	2	5	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:71008477C>T	uc001jpf.3	+	10	1696	c.1563C>T	c.(1561-1563)GAC>GAT	p.D521D	HKDC1_uc010qje.1_Silent_p.D384D	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	521					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						GGCTGCCGGACGGCACAGGTG	0.597													3	18					0	0	0.004672	0	0		T	71008477	T	T	71008477	2	4	58	1	0	0	0	0	0	0	0	1	7209	535	19	1		1	HKDC1	10	71008477	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	9965299	71008477	64526270	365	41355											
HKDC1	80201	broad.mit.edu	37	chr10	71010409	71010409	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcagatgagcattgacaagGtaagatagccccaccaggct	13	6	12	10	0	0	4	0	2	0	2	0	4	0	4	3	3	2	4	3	3	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:71010409G>T	uc001jpf.3	+	12	1969	c.1836_splice	c.e12+1	p.K612_splice	HKDC1_uc010qje.1_Splice_Site_p.K475_splice	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1						glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						CATTGACAAGGTAAGATAGCC	0.562													16	103					1.3612e-06	1.49768e-06	0.003163	1	0		T	71010409	T	T	71010409	5	4	58	1	0	0	0	0	0	0	1	0	7209	1275	44	5	1883	5	HKDC1	10	71010409	Splice_Site	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1932	71010409	64524338	366	41356											
TYSND1	219743	broad.mit.edu	37	chr10	71899686	71899686	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtaacacagcctcagagCttgctccgcggggcctctgc	6	8	13	14	2	2	1	1	0	1	1	3	1	3	1	3	3	5	3	3	3	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:71899686C>T	uc001jqr.2	-	4	1849	c.1695G>A	c.(1693-1695)AAG>AAA	p.K565K	TYSND1_uc001jqq.2_RNA|TYSND1_uc001jqs.2_3'UTR|TYSND1_uc001jqt.2_RNA	NM_173555	NP_775826	Q2T9J0	TYSD1_HUMAN	trypsin domain containing 1 isoform a	565					proteolysis	peroxisome	serine-type endopeptidase activity			large_intestine(1)	1						AGCCTCAGAGCTTGCTCCGCG	0.622													7	54					0	0	0.001984	0	0		T	71899686	T	T	71899686	2	4	58	1	0	0	0	0	0	0	0	1	16843	796	28	2		2	TYSND1	10	71899686	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	889277	71899686	63635061	367	41357											
GRID1	2894	broad.mit.edu	37	chr10	87966267	87966267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttcaggtggcatgcggtgCgtggcgaccctcccgggttg	3	9	18	11	4	1	0	1	0	0	0	2	1	2	0	2	6	2	3	2	6	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:87966267C>T	uc001kdl.1	-	3	475	c.374G>A	c.(373-375)CGC>CAC	p.R125H	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	125	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	GCATGCGGTGCGTGGCGACCC	0.632										Multiple Myeloma(13;0.14)			11	42					0	0	0.001368	0	0		T	87966267	T	T	87966267	3	4	58	1	0	0	0	0	1	0	0	0	6787	768	27	1	2711	1	GRID1	10	87966267	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	16066581	87966267	47568480	368	41358											
ATAD1	84896	broad.mit.edu	37	chr10	89536099	89536099	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagctgtgatcagtatcCaatccatcccagagactcat	11	10	8	12	0	2	2	2	1	0	1	5	3	5	2	3	1	1	3	3	1	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:89536099C>A	uc001key.1	-	5	952	c.669G>T	c.(667-669)TTG>TTT	p.L223F	ATAD1_uc010qmr.1_Missense_Mutation_p.L165F|ATAD1_uc009xth.1_RNA|ATAD1_uc001kez.1_Missense_Mutation_p.L223F	NM_032810	NP_116199	Q8NBU5	ATAD1_HUMAN	ATPase family, AAA domain containing 1	223						peroxisome	ATP binding|nucleoside-triphosphatase activity			large_intestine(1)|ovary(1)	2		all_cancers(4;6.78e-12)|Prostate(4;3.56e-12)|all_epithelial(4;5.58e-09)|Melanoma(5;0.0273)|Breast(4;0.0424)|all_hematologic(4;0.0846)|Colorectal(252;0.207)|Glioma(4;0.217)|all_neural(4;0.224)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00131)|GBM - Glioblastoma multiforme(1;1.1e-32)|Lung(2;1.4e-05)|LUSC - Lung squamous cell carcinoma(2;2.69e-05)|Colorectal(12;7.09e-05)|COAD - Colon adenocarcinoma(12;0.000261)|STAD - Stomach adenocarcinoma(243;0.235)		GATCAGTATCCAATCCATCCC	0.398													6	96					0.00116845	0.0012265	0.001168	1	0		A	89536099	A	A	89536099	3	1	58	1	0	0	0	0	1	0	0	0	1071	593	21	5	436	5	ATAD1	10	89536099	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1569832	89536099	45998648	369	41359											
IDE	3416	broad.mit.edu	37	chr10	94294388	94294388	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatcaaaatagtaattggtAtgctctccactagtaaaggc	15	11	7	8	0	2	0	1	0	1	0	3	0	2	0	1	2	1	4	1	2	8	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:94294388A>G	uc001kia.2	-	3	514	c.438T>C	c.(436-438)CAT>CAC	p.H146H		NM_004969	NP_004960	P14735	IDE_HUMAN	insulin-degrading enzyme isoform 1 precursor	146					beta-amyloid metabolic process|bradykinin catabolic process|interspecies interaction between organisms|sex differentiation	cell surface|extracellular space|soluble fraction	ATP binding|metalloendopeptidase activity|protein homodimerization activity|signal transducer activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3					Bacitracin(DB00626)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AGTAATTGGTATGCTCTCCAC	0.378													18	68					0	0	0.00499	0	0		G	94294388	G	G	94294388	2	3	58	1	0	0	0	0	0	0	0	1	7509	446	16	3		3	IDE	10	94294388	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	4758289	94294388	41240359	370	41360											
PDE6C	5146	broad.mit.edu	37	chr10	95381725	95381725	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaataaagtatttgaagaaCtcacagatgttgagcgacag	16	9	9	7	1	1	4	1	2	0	2	1	5	1	4	1	0	2	2	1	0	6	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:95381725C>G	uc001kiu.3	+	4	898	c.760C>G	c.(760-762)CTC>GTC	p.L254V		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	254					visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				ATTTGAAGAACTCACAGATGT	0.398													7	57					0	0	0.00308	0	0		G	95381725	G	G	95381725	3	3	58	1	0	0	0	0	1	0	0	0	11666	565	20	5	774	5	PDE6C	10	95381725	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1087337	95381725	40153022	371	41361											
DNMBP	23268	broad.mit.edu	37	chr10	101656136	101656136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccataaggctatcttcatcaCccttacggtacttgaggact	10	12	7	12	1	3	1	2	1	1	0	3	2	3	2	2	3	2	2	2	3	4	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:101656136C>T	uc001kqj.2	-	10	3031	c.2939G>A	c.(2938-2940)GGT>GAT	p.G980D	DNMBP_uc010qpl.1_Intron|DNMBP_uc001kqg.2_Missense_Mutation_p.G268D|DNMBP_uc001kqh.2_Missense_Mutation_p.G612D	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	980					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		ATCTTCATCACCCTTACGGTA	0.438													16	74					0	0	0.00499	0	0		T	101656136	T	T	101656136	3	4	58	1	0	0	0	0	1	0	0	0	4680	507	18	4	1826	4	DNMBP	10	101656136	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	6274411	101656136	33878611	372	41362											
LZTS2	84445	broad.mit.edu	37	chr10	102763727	102763727	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctagggggccgtgtggctgGggggcttttgggcagtggta	3	10	21	7	1	0	0	0	0	0	0	0	0	0	0	2	8	0	4	2	8	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:102763727G>T	uc001ksj.2	+	3	941	c.872G>T	c.(871-873)GGG>GTG	p.G291V	LZTS2_uc010qpw.1_Missense_Mutation_p.G291V|LZTS2_uc001ksk.2_Missense_Mutation_p.G291V|LZTS2_uc001ksl.2_Missense_Mutation_p.G291V|LZTS2_uc001ksm.2_RNA	NM_032429	NP_115805	Q9BRK4	LZTS2_HUMAN	leucine zipper, putative tumor suppressor 2	291	Ser-rich.|Required for centrosomal localization (By similarity).		G -> R (in a breast cancer sample; somatic mutation).		cell division|mitosis|Wnt receptor signaling pathway	membrane|microtubule|microtubule organizing center		p.G291R(1)		ovary(2)|large_intestine(1)|breast(1)	4				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		CGTGTGGCTGGGGGGCTTTTG	0.701													9	33					2.17888e-05	2.34841e-05	0.006214	1	0		T	102763727	T	T	102763727	3	4	58	1	0	0	0	0	1	0	0	0	9157	1232	43	5	878	5	LZTS2	10	102763727	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1107591	102763727	32771020	373	41363											
VWA2	340706	broad.mit.edu	37	chr10	116048905	116048905	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaaacccacccgggctgcGatgctgcgggccattagcca	9	5	11	16	3	0	0	0	0	0	0	0	1	0	0	5	2	5	2	5	2	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:116048905G>A	uc001lbl.1	+	12	2100	c.1779G>A	c.(1777-1779)GCG>GCA	p.A593A	VWA2_uc001lbk.1_Silent_p.A593A|VWA2_uc009xyf.1_Silent_p.A289A	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	593	VWFA 3.					extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		CCCGGGCTGCGATGCTGCGGG	0.637													7	24					0	0	0.001984	0	0		A	116048905	A	A	116048905	2	1	58	1	0	0	0	0	0	0	0	1	17265	1045	37	1		1	VWA2	10	116048905	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	13285178	116048905	19485842	374	41364											
EIF3A	8661	broad.mit.edu	37	chr10	120810115	120810115	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgcgttcttctttacgCtgccttttccgttcttccaa	4	18	5	14	3	3	0	0	0	3	0	6	0	6	0	4	0	3	3	4	0	2	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:120810115C>T	uc001ldu.2	-	16	2537	c.2391G>A	c.(2389-2391)CAG>CAA	p.Q797Q	EIF3A_uc010qsu.1_Silent_p.Q763Q|EIF3A_uc009xzg.1_5'Flank	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	797	Interaction with EIF3B.|Glu-rich.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		CTTCTTTACGCTGCCTTTTCC	0.418													37	191					0	0	0.003271	0	0		T	120810115	T	T	120810115	2	4	58	1	0	0	0	0	0	0	0	1	5018	796	28	2		2	EIF3A	10	120810115	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4761210	120810115	14724632	375	41365											
DMBT1	1755	broad.mit.edu	37	chr10	124396684	124396684	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacatgcaagccagtgtgagCaggagctatctccaatcctt	11	9	9	12	0	1	1	0	1	1	0	3	2	2	2	3	1	4	3	3	1	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:124396684C>T	uc001lgk.1	+	51	6517	c.6411C>T	c.(6409-6411)AGC>AGT	p.S2137S	DMBT1_uc001lgl.1_Silent_p.S2127S|DMBT1_uc001lgm.1_Silent_p.S1509S|DMBT1_uc009xzz.1_Silent_p.S2136S|DMBT1_uc010qtx.1_Silent_p.S857S|DMBT1_uc009yab.1_Silent_p.S840S|DMBT1_uc009yac.1_Silent_p.S431S	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	2137	ZP.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				CCAGTGTGAGCAGGAGCTATC	0.532													6	47					0	0	0.001984	0	0		T	124396684	T	T	124396684	2	4	58	1	0	0	0	0	0	0	0	1	4583	709	25	2		2	DMBT1	10	124396684	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3586569	124396684	11138063	376	41366											
C10orf90	118611	broad.mit.edu	37	chr10	128192844	128192844	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tattggctctctgttcactaGgccatctactccatctgctg	6	15	7	13	0	4	0	1	0	3	0	6	0	5	0	2	2	2	3	2	2	3	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:128192844G>A	uc001ljq.2	-	3	1046	c.925C>T	c.(925-927)CTA>TTA	p.L309L	C10orf90_uc001ljp.2_Silent_p.L262L|C10orf90_uc010qum.1_Silent_p.L406L|C10orf90_uc009yao.2_Silent_p.L406L|C10orf90_uc001ljs.1_Silent_p.L262L	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	309										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		CTGTTCACTAGGCCATCTACT	0.532											OREG0020616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	76					0	0	0.010504	0	0		A	128192844	A	A	128192844	2	1	58	1	0	0	0	0	0	0	0	1	1626	991	35	4		4	C10orf90	10	128192844	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3796160	128192844	7341903	377	41367											
GLRX3	10539	broad.mit.edu	37	chr10	131958297	131958297	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaagtatctgaaaaataTgaaattagctctgttcccac	14	12	6	9	0	2	3	0	3	2	0	3	3	3	3	2	0	1	3	2	0	7	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:131958297T>A	uc001lkm.1	+	3	262	c.240T>A	c.(238-240)TAT>TAA	p.Y80*	GLRX3_uc001lkn.1_Nonsense_Mutation_p.Y80*|GLRX3_uc001lko.2_RNA	NM_006541	NP_006532	O76003	GLRX3_HUMAN	glutaredoxin 3	80	Thioredoxin.				cell redox homeostasis|negative regulation of cardiac muscle hypertrophy|regulation of the force of heart contraction	cell cortex	electron carrier activity|iron-sulfur cluster binding|metal ion binding|protein disulfide oxidoreductase activity				0		all_cancers(35;9.59e-07)|all_epithelial(44;1.48e-06)|Lung NSC(174;0.00566)|all_lung(145;0.00949)|Colorectal(57;0.142)|all_neural(114;0.16)|Breast(234;0.173)|Glioma(114;0.222)		OV - Ovarian serous cystadenocarcinoma(35;0.00218)		CTGAAAAATATGAAATTAGCT	0.343													17	55					0	0	0.007413	0	0		A	131958297	A	A	131958297	4	1	58	1	0	0	0	0	0	1	0	0	6476	1471	51	5	250	5	GLRX3	10	131958297	Nonsense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	3765453	131958297	3576450	378	41368											
LRRC27	80313	broad.mit.edu	37	chr10	134188716	134188716	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttaacacaaaatatggAgaatcaggaaatgttcgcag	16	12	8	5	1	1	1	1	0	0	1	2	3	1	2	0	2	1	2	0	2	6	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:134188716A>G	uc010quw.1	+	11	1758	c.1563A>G	c.(1561-1563)GGA>GGG	p.G521G	LRRC27_uc001llg.2_RNA|LRRC27_uc001lli.2_Silent_p.G521G|LRRC27_uc001llj.2_Silent_p.G459G	NM_030626	NP_085129	Q9C0I9	LRC27_HUMAN	leucine rich repeat containing 27 isoform a	521										ovary(1)	1		all_cancers(35;6.28e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;9.12e-05)|Epithelial(32;0.000116)|all cancers(32;0.000145)|BRCA - Breast invasive adenocarcinoma(275;0.218)		CAAAATATGGAGAATCAGGAA	0.532													9	33					0	0	0.004482	0	0		G	134188716	G	G	134188716	2	3	58	1	0	0	0	0	0	0	0	1	8999	291	11	3		3	LRRC27	10	134188716	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	2230419	134188716	1346031	379	41369											
PWWP2B	170394	broad.mit.edu	37	chr10	134219345	134219345	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagacacgggtgacctctcGcctggccacggcgcgtcagc	6	5	14	16	5	2	2	1	1	1	1	3	2	2	2	3	3	1	1	3	3	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:134219345G>A	uc001lll.3	+	2	1370	c.1341G>A	c.(1339-1341)TCG>TCA	p.S447S	PWWP2B_uc009ybe.2_Silent_p.S447S	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	447											0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		GTGACCTCTCGCCTGGCCACG	0.697													8	28					0	0	0.00308	0	0		A	134219345	A	A	134219345	2	1	58	1	0	0	0	0	0	0	0	1	12871	1074	38	1		1	PWWP2B	10	134219345	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	30629	134219345	1315402	380	41370											
PWWP2B	170394	broad.mit.edu	37	chr10	134219558	134219558	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctcggccagaaggaggaCggagagccgtcttggcgaga	10	5	17	9	4	2	3	0	0	2	3	3	7	2	5	2	5	1	0	2	5	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:134219558C>T	uc001lll.3	+	2	1583	c.1554C>T	c.(1552-1554)GAC>GAT	p.D518D	PWWP2B_uc009ybe.2_Intron	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	518	PWWP.										0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		AGAAGGAGGACGGAGAGCCGT	0.542													7	66					0	0	0.004482	0	0		T	134219558	T	T	134219558	2	4	58	1	0	0	0	0	0	0	0	1	12871	535	19	1		1	PWWP2B	10	134219558	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	213	134219558	1315189	381	41371											
ATHL1	80162	broad.mit.edu	37	chr11	292553	292553	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaacccctcagggagccaAgtttgcctgggagagtgcag	9	6	13	13	0	1	1	1	0	0	1	1	3	1	2	5	2	4	2	5	2	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:292553A>C	uc010qvu.1	+	6	1149	c.1034A>C	c.(1033-1035)AAG>ACG	p.K345T	ATHL1_uc001lor.3_Missense_Mutation_p.K168T|ATHL1_uc001los.1_Missense_Mutation_p.K345T|ATHL1_uc001lou.3_5'Flank|ATHL1_uc001lov.3_5'Flank	NM_025092	NP_079368	Q32M88	ATHL1_HUMAN	ATH1, acid trehalase-like 1	345					carbohydrate metabolic process		hydrolase activity, acting on glycosyl bonds			liver(1)|central_nervous_system(1)|skin(1)	3		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.38e-28)|Epithelial(43;3.25e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0327)|LUSC - Lung squamous cell carcinoma(625;0.122)		CAGGGAGCCAAGTTTGCCTGG	0.652													4	22					0	0	0.009096	0	0		C	292553	C	C	292553	3	2	58	1	0	0	0	0	1	0	0	0	1105	72	3	5	1052	5	ATHL1	11	292553	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08		292553	134713963	382	41372											
TALDO1	6888	broad.mit.edu	37	chr11	759008	759008	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgtgttgtttggagcaGaaatactaaagaagattccg	12	15	10	4	1	0	3	0	0	0	3	1	4	1	4	1	1	2	3	1	1	5	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:759008G>T	uc001lqz.2	+	3	330	c.280G>T	c.(280-282)GAA>TAA	p.E94*	TALDO1_uc010qwl.1_Nonsense_Mutation_p.E94*|TALDO1_uc001lra.2_Nonsense_Mutation_p.E94*	NM_006755	NP_006746	P37837	TALDO_HUMAN	transaldolase 1	94					energy reserve metabolic process|xylulose biosynthetic process	cytosol	protein binding|sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate glyceronetransferase activity				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;4.66e-26)|Epithelial(43;2.97e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.48e-19)|BRCA - Breast invasive adenocarcinoma(625;4.41e-05)|Lung(200;0.0595)|LUSC - Lung squamous cell carcinoma(625;0.0712)		GTTTGGAGCAGAAATACTAAA	0.438													29	104					3.99451e-17	4.66855e-17	0.009535	1	0		T	759008	T	T	759008	4	4	58	1	0	0	0	0	0	1	0	0	15568	943	33	5	290	5	TALDO1	11	759008	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	466455	759008	134247508	383	41373											
MUC5B	727897	broad.mit.edu	37	chr11	1275541	1275541	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaagtccatggatatcgTcctcactgtcaccatggtgc	9	11	8	13	1	2	0	2	0	0	0	5	1	4	1	3	2	2	0	3	2	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:1275541T>C	uc009ycr.1	+	56	16574	c.16448T>C	c.(16447-16449)GTC>GCC	p.V5483A	MUC5B_uc001ltb.2_Missense_Mutation_p.V5149A	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5146	VWFD 4.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ATGGATATCGTCCTCACTGTC	0.657													9	21					0	0	0.006214	0	0		C	1275541	C	C	1275541	3	2	58	1	0	0	0	0	1	0	0	0	9997	1667	58	3	15580	3	MUC5B	11	1275541	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	516533	1275541	133730975	384	41374											
OR51S1	119692	broad.mit.edu	37	chr11	4870137	4870137	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagaaggcaggctgaggcaGggacagtgtgagcaccagca	12	4	17	8	0	0	3	0	2	0	1	0	4	0	4	1	4	2	6	1	4	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:4870137G>T	uc010qyo.1	-	1	302	c.302C>A	c.(301-303)CCT>CAT	p.P101H		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	101	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGCTGAGGCAGGGACAGTGTG	0.527													19	67					6.94344e-10	7.86489e-10	0.006122	1	0		T	4870137	T	T	4870137	3	4	58	1	0	0	0	0	1	0	0	0	11124	1000	35	5	672	5	OR51S1	11	4870137	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3594596	4870137	130136379	385	41375											
OR51G1	79324	broad.mit.edu	37	chr11	4945149	4945149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccatcttgacaatacatgCaggtgtcaggacggtggagt	10	9	12	10	1	2	1	1	1	1	0	2	3	2	3	2	4	2	1	2	4	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:4945149C>T	uc010qyr.1	-	1	421	c.421G>A	c.(421-423)GCA>ACA	p.A141T		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	141	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACAATACATGCAGGTGTCAGG	0.527													8	64					0	0	0.004482	0	0		T	4945149	T	T	4945149	3	4	58	1	0	0	0	0	1	0	0	0	11117	710	25	2	546	2	OR51G1	11	4945149	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	75012	4945149	130061367	386	41376											
SCUBE2	57758	broad.mit.edu	37	chr11	9090971	9090971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggcctgcactcacaggCgacgctgccccttggggcct	6	6	12	17	2	1	0	1	0	0	0	1	1	1	0	5	4	2	2	5	4	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:9090971C>T	uc001mhh.1	-	5	669	c.589G>A	c.(589-591)GCC>ACC	p.A197T	SCUBE2_uc001mhi.1_Missense_Mutation_p.A197T|SCUBE2_uc001mhj.1_Missense_Mutation_p.A197T	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	197	EGF-like 4 (Potential).					extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		CACTCACAGGCGACGCTGCCC	0.567													11	73					0	0	0.008291	0	0		T	9090971	T	T	9090971	3	4	58	1	0	0	0	0	1	0	0	0	13970	768	27	1	2573	1	SCUBE2	11	9090971	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4145822	9090971	125915545	387	41377											
ZNF143	7702	broad.mit.edu	37	chr11	9546824	9546824	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacttggcagcattccataCtgcctcatcagaaatggggc	11	9	10	11	0	2	2	2	0	0	2	3	2	3	2	2	3	3	2	2	3	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:9546824C>G	uc001mhr.2	+	15	1842	c.1724C>G	c.(1723-1725)ACT>AGT	p.T575S	ZNF143_uc009yfu.2_Missense_Mutation_p.T574S|ZNF143_uc010rby.1_Missense_Mutation_p.T544S	NM_003442	NP_003433	P52747	ZN143_HUMAN	zinc finger protein 143	575					regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding|zinc ion binding				0				all cancers(16;4.12e-09)|Epithelial(150;2.29e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0212)		GCATTCCATACTGCCTCATCA	0.413													9	67					0	0	0.006214	0	0		G	9546824	G	G	9546824	3	3	58	1	0	0	0	0	1	0	0	0	17757	565	20	5	1778	5	ZNF143	11	9546824	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	455853	9546824	125459692	388	41378											
SBF2	81846	broad.mit.edu	37	chr11	9878204	9878204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcagggtaggccaaaggcGtagttgctcagctgccaggt	8	8	15	10	1	2	0	2	0	0	0	2	0	2	0	2	4	3	6	2	4	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:9878204G>A	uc001mib.2	-	19	2302	c.2164C>T	c.(2164-2166)CGC>TGC	p.R722C	SBF2_uc001mif.3_Missense_Mutation_p.R478C|uc001mig.2_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	722					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		GGCCAAAGGCGTAGTTGCTCA	0.453													25	171					0	0	0.004656	0	0		A	9878204	A	A	9878204	3	1	58	1	0	0	0	0	1	0	0	0	13884	1145	40	1	3473	1	SBF2	11	9878204	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	331380	9878204	125128312	389	41379											
ABCC8	6833	broad.mit.edu	37	chr11	17434263	17434263	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctcgggccacactgattcGctggcgttgaccaccagaca	8	7	12	14	3	0	3	0	2	0	1	2	3	0	3	3	3	0	3	3	3	0	2	rs72559722		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:17434263G>A	uc001mnc.2	-	21	2632	c.2506C>T	c.(2506-2508)CGA>TGA	p.R836*		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	836	ABC transporter 1.|Cytoplasmic (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	ACACTGATTCGCTGGCGTTGA	0.542													3	12					0	0	0.009096	0	0		A	17434263	A	A	17434263	4	1	58	1	0	0	0	0	0	1	0	0	58	1095	38	1	2315	1	ABCC8	11	17434263	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	7556059	17434263	117572253	390	41380											
HPS5	11234	broad.mit.edu	37	chr11	18320518	18320518	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagccacatcctgaatatCtacgaaaaccacaggtgtga	15	7	8	11	1	1	2	0	2	1	0	2	4	2	2	3	1	3	0	3	1	5	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:18320518C>A	uc001mod.1	-	10	1264	c.986_splice	c.e10-1	p.D329_splice	HPS5_uc001moe.1_Splice_Site_p.D215_splice|HPS5_uc001mof.1_Splice_Site_p.D215_splice	NM_181507	NP_852608	Q9UPZ3	HPS5_HUMAN	Hermansky-Pudlak syndrome 5 isoform a							cytosol				ovary(1)|pancreas(1)|skin(1)	3						TCCTGAATATCTACGAAAACC	0.383									Hermansky-Pudlak_syndrome				10	64					7.48243e-07	8.2649e-07	0.006214	1	0		A	18320518	A	A	18320518	5	1	58	1	0	0	0	0	0	0	1	0	7358	927	32	5	2460	5	HPS5	11	18320518	Splice_Site	SNP	C	TCGA-BR-8059-01A-11D-2340-08	886255	18320518	116685998	391	41381											
SLC17A6	57084	broad.mit.edu	37	chr11	22363169	22363169	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaaggcgccgctgtgcgActgcacgtgcttcggcctgc	5	7	16	13	5	0	0	0	0	0	0	1	3	0	1	2	3	4	3	2	3	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:22363169A>G	uc001mqk.2	+	2	595	c.182A>G	c.(181-183)GAC>GGC	p.D61G		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	61	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						CCGCTGTGCGACTGCACGTGC	0.647													4	27					0	0	0.009096	0	0		G	22363169	G	G	22363169	3	3	58	1	0	0	0	0	1	0	0	0	14446	275	10	3	188	3	SLC17A6	11	22363169	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	4042651	22363169	112643347	392	41382											
KIF18A	81930	broad.mit.edu	37	chr11	28090826	28090826	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctttggaatatgaccgttttGacttaagagtcccatttctt	9	17	7	8	1	1	3	0	2	1	1	2	4	2	4	2	1	0	1	2	1	3	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:28090826G>C	uc001msc.2	-	11	1752	c.1570C>G	c.(1570-1572)CAA>GAA	p.Q524E		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	524					blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						TGACCGTTTTGACTTAAGAGT	0.368													10	42					0	0	0.008291	0	0		C	28090826	C	C	28090826	3	2	58	1	0	0	0	0	1	0	0	0	8296	1299	45	5	1154	5	KIF18A	11	28090826	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	5727657	28090826	106915690	393	41383											
DEPDC7	91614	broad.mit.edu	37	chr11	33054300	33054300	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaggcaaaacagatcttctGgtactctttttaatggatca	14	13	7	7	0	4	1	1	0	3	1	4	2	4	2	0	3	2	2	0	3	5	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:33054300G>T	uc001mub.2	+	7	1316	c.1224G>T	c.(1222-1224)CTG>CTT	p.L408L	DEPDC7_uc001muc.2_Silent_p.L399L	NM_001077242	NP_001070710	Q96QD5	DEPD7_HUMAN	novel 58.3 KDA protein isoform 1	408					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|skin(1)	2						CAGATCTTCTGGTACTCTTTT	0.279													13	88					9.05144e-12	1.04203e-11	0.001855	1	0		T	33054300	T	T	33054300	2	4	58	1	0	0	0	0	0	0	0	1	4450	1335	47	5		5	DEPDC7	11	33054300	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4963474	33054300	101952216	394	41384											
C11orf41	25758	broad.mit.edu	37	chr11	33564426	33564426	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagaaagctagcctctgcCactgcaaatgactctgctaa	13	8	8	12	0	2	2	0	1	2	1	2	2	2	2	2	0	6	4	2	0	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:33564426C>G	uc001mup.3	+	1	550	c.426C>G	c.(424-426)GCC>GCG	p.A142A	C11orf41_uc001mun.1_Silent_p.A142A	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	142						integral to membrane				ovary(2)	2						TAGCCTCTGCCACTGCAAATG	0.522											OREG0020868	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	51					0	0	0.001855	0	0		G	33564426	G	G	33564426	2	3	58	1	0	0	0	0	0	0	0	1	1643	581	21	5		5	C11orf41	11	33564426	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	510126	33564426	101442090	395	41385											
OR8H3	390152	broad.mit.edu	37	chr11	55890547	55890547	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattaattccacttcaggAaagcagaaagctttctctac	16	11	5	9	0	2	1	1	0	1	1	4	2	3	2	1	1	3	2	1	1	6	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:55890547A>G	uc001nii.1	+	1	699	c.699A>G	c.(697-699)GGA>GGG	p.G233G		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	233	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CCACTTCAGGAAAGCAGAAAG	0.398													23	95					0	0	0.002299	0	0		G	55890547	G	G	55890547	2	3	58	1	0	0	0	0	0	0	0	1	11258	233	9	3		3	OR8H3	11	55890547	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	22326121	55890547	79115969	396	41386											
OR8K1	390157	broad.mit.edu	37	chr11	56113850	56113850	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctagcattctttgagatTttcatcatctctgagctctt	8	17	6	10	0	5	2	2	2	3	1	6	3	5	2	0	0	3	3	0	0	1	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:56113850T>G	uc010rjg.1	+	1	336	c.336T>G	c.(334-336)ATT>ATG	p.I112M		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					TCTTTGAGATTTTCATCATCT	0.408										HNSCC(65;0.19)			25	180					0	0	0.00632	0	0		G	56113850	G	G	56113850	3	3	58	1	0	0	0	0	1	0	0	0	11262	1829	64	5	338	5	OR8K1	11	56113850	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	223303	56113850	78892666	397	41387											
OR5M8	219484	broad.mit.edu	37	chr11	56258216	56258216	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaggaaatacatatgatgaAgagagaaaaagaaaggttcc	20	7	11	3	0	0	5	0	2	0	3	1	7	1	6	1	2	1	2	1	2	8	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:56258216A>G	uc001nix.1	-	1	631	c.631T>C	c.(631-633)TTC>CTC	p.F211L		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	211	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					CATATGATGAAGAGAGAAAAA	0.433													12	69					0	0	0.000978	0	0		G	56258216	G	G	56258216	3	3	58	1	0	0	0	0	1	0	0	0	11195	72	3	3	308	3	OR5M8	11	56258216	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	144366	56258216	78748300	398	41388											
OR5M10	390167	broad.mit.edu	37	chr11	56344805	56344805	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggacatcctggaactgtaAtgtaaagggctgcaaatggc	12	10	12	7	0	0	0	0	0	0	0	1	2	1	2	1	4	2	4	1	4	5	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:56344805A>C	uc001niz.1	-	1	393	c.393T>G	c.(391-393)CAT>CAG	p.H131Q		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGGAACTGTAATGTAAAGGGC	0.458													21	71					0	0	0.001882	0	0		C	56344805	C	C	56344805	3	2	58	1	0	0	0	0	1	0	0	0	11192	98	4	5	558	5	OR5M10	11	56344805	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	86589	56344805	78661711	399	41389											
SERPING1	710	broad.mit.edu	37	chr11	57373908	57373908	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagacaacatttgatcccaAgaaaaccagaatggaaccct	18	6	7	10	0	0	4	0	1	0	3	1	6	1	5	3	1	3	0	3	1	7	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:57373908A>C	uc001nkp.1	+	6	1108	c.917A>C	c.(916-918)AAG>ACG	p.K306T	SERPING1_uc001nkq.1_Missense_Mutation_p.K306T|SERPING1_uc010rju.1_Missense_Mutation_p.K254T|SERPING1_uc010rjv.1_Missense_Mutation_p.K311T|SERPING1_uc001nkr.1_Missense_Mutation_p.K306T|SERPING1_uc009ymi.1_Missense_Mutation_p.K315T|SERPING1_uc009ymj.1_Missense_Mutation_p.K306T|SERPING1_uc001nks.1_5'UTR	NM_000062	NP_000053	P05155	IC1_HUMAN	serpin peptidase inhibitor, clade G, member 1	306				K -> R (in Ref. 1; AAA35613).	blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1						TTTGATCCCAAGAAAACCAGA	0.433									Hereditary_Angioedema				20	86					0	0	0.007413	0	0		C	57373908	C	C	57373908	3	2	58	1	0	0	0	0	1	0	0	0	14141	72	3	5	935	5	SERPING1	11	57373908	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	1029103	57373908	77632608	400	41390											
LPXN	9404	broad.mit.edu	37	chr11	58295583	58295583	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagttttccaacactgggCgattgcagccaccacacttg	9	10	10	12	1	0	0	0	0	0	0	1	1	1	0	3	2	3	3	3	2	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:58295583C>G	uc001nmw.2	-	8	969	c.824G>C	c.(823-825)CGC>CCC	p.R275P	LPXN_uc009ymp.2_Missense_Mutation_p.R145P|LPXN_uc010rkj.1_Missense_Mutation_p.R280P|LPXN_uc010rkk.1_Missense_Mutation_p.R255P	NM_004811	NP_004802	O60711	LPXN_HUMAN	leupaxin isoform 2	275	LIM zinc-binding 3.				cell adhesion|protein complex assembly|signal transduction	cytoplasm	zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				CAACACTGGGCGATTGCAGCC	0.473													10	72					0	0	0.006214	0	0		G	58295583	G	G	58295583	3	3	58	1	0	0	0	0	1	0	0	0	8947	768	27	5	344	5	LPXN	11	58295583	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	921675	58295583	76710933	401	41391											
RTN3	10313	broad.mit.edu	37	chr11	63523611	63523611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatcactatgttggcatcGcccgagatcagaccaagtca	11	10	9	11	2	3	3	3	1	0	2	4	4	3	3	2	1	0	2	2	1	2	3	rs140229299	byFrequency	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:63523611G>A	uc001nxq.2	+	8	3209	c.3022G>A	c.(3022-3024)GCC>ACC	p.A1008T	RTN3_uc001nxo.2_Missense_Mutation_p.A212T|RTN3_uc001nxm.2_Missense_Mutation_p.A231T|RTN3_uc001nxn.2_Missense_Mutation_p.A989T|RTN3_uc001nxp.2_Intron|RTN3_uc009yov.2_Missense_Mutation_p.A896T|RTN3_uc010rmt.1_Intron|RTN3_uc010rmu.1_Silent_p.S126S	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	1008	Interaction with FADD.|Reticulon.				apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane		p.A989T(1)		ovary(1)	1						TGTTGGCATCGCCCGAGATCA	0.408													9	66					0	0	0.004482	0	0		A	63523611	A	A	63523611	3	1	58	1	0	0	0	0	1	0	0	0	13752	1087	38	1	3052	1	RTN3	11	63523611	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	5228028	63523611	71482905	402	41392											
CDC42BPG	55561	broad.mit.edu	37	chr11	64597021	64597021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatccacgtagatgccagCagtggtgaagagtagcagga	12	6	14	9	1	0	3	0	1	0	2	1	4	1	4	3	2	3	4	3	2	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:64597021C>T	uc001obs.3	-	30	3889	c.3889G>A	c.(3889-3891)GCT>ACT	p.A1297T		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	1297	CNH.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						TAGATGCCAGCAGTGGTGAAG	0.657													4	15					0	0	0.009096	0	0		T	64597021	T	T	64597021	3	4	58	1	0	0	0	0	1	0	0	0	3077	710	25	2	798	2	CDC42BPG	11	64597021	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1073410	64597021	70409495	403	41393											
NAALADL1	10004	broad.mit.edu	37	chr11	64824895	64824895	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagggcaatggtgccttcaAgtttgatgccctgagtctgt	7	13	12	9	0	3	2	2	2	1	0	3	2	3	2	2	2	2	2	2	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:64824895A>C	uc001ocn.2	-	4	567	c.551T>G	c.(550-552)CTT>CGT	p.L184R	NAALADL1_uc010rnw.1_5'UTR	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	184	Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						GGTGCCTTCAAGTTTGATGCC	0.607													6	44					0	0	0.00308	0	0		C	64824895	C	C	64824895	3	2	58	1	0	0	0	0	1	0	0	0	10147	72	3	5	1731	5	NAALADL1	11	64824895	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	227874	64824895	70181621	404	41394											
SCYL1	57410	broad.mit.edu	37	chr11	65294436	65294436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgacccctcccctacagatcCccaaaacgctggtgccccat	9	7	6	19	1	0	2	0	1	0	1	2	2	2	2	8	1	3	1	8	1	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:65294436C>T	uc001oea.1	+	6	774	c.697C>T	c.(697-699)CCC>TCC	p.P233S	SCYL1_uc009yqk.2_Missense_Mutation_p.P233S|SCYL1_uc001oeb.1_Missense_Mutation_p.P233S|SCYL1_uc001oec.1_Missense_Mutation_p.P233S|SCYL1_uc001oed.1_Missense_Mutation_p.P90S	NM_020680	NP_065731	Q96KG9	NTKL_HUMAN	SCY1-like 1 isoform A	233	Protein kinase.				regulation of transcription, DNA-dependent|retrograde vesicle-mediated transport, Golgi to ER|transcription, DNA-dependent	cis-Golgi network|COPI vesicle coat|ER-Golgi intermediate compartment|microtubule organizing center|nucleus	ATP binding|DNA binding|protein tyrosine kinase activity			skin(1)	1						CCTACAGATCCCCAAAACGCT	0.637													3	21					0	0	0.004672	0	0		T	65294436	T	T	65294436	3	4	58	1	0	0	0	0	1	0	0	0	13972	623	22	4	719	4	SCYL1	11	65294436	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	469541	65294436	69712080	405	41395											
SLC29A2	3177	broad.mit.edu	37	chr11	66131005	66131005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggccacctccctctcgtGtggcagcacctgcctagaac	6	7	10	18	2	1	1	0	0	1	1	3	1	2	1	6	2	3	2	6	2	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:66131005G>A	uc001oht.2	-	12	1502	c.1273C>T	c.(1273-1275)CAC>TAC	p.H425Y	SLC29A2_uc001ohs.2_Missense_Mutation_p.H305Y|SLC29A2_uc010rpb.1_RNA|SLC29A2_uc009yrf.2_Missense_Mutation_p.H305Y|SLC29A2_uc001ohu.2_Missense_Mutation_p.H425Y|SLC29A2_uc001ohv.2_3'UTR	NM_001532	NP_001523	Q14542	S29A2_HUMAN	solute carrier family 29 (nucleoside	425					cell proliferation|nucleobase, nucleoside and nucleotide metabolic process	basolateral plasma membrane|integral to plasma membrane|nuclear membrane|nucleolus	nucleoside transmembrane transporter activity			ovary(1)	1						TCCCTCTCGTGTGGCAGCACC	0.572													4	13					0	0	0.009096	0	0		A	66131005	A	A	66131005	3	1	58	1	0	0	0	0	1	0	0	0	14560	1377	48	4	101	4	SLC29A2	11	66131005	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	836569	66131005	68875511	406	41396											
CLCF1	23529	broad.mit.edu	37	chr11	67134968	67134968	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcggagttggtgctccaggTagcgggtgaggtcataggtt	6	11	18	6	2	1	1	1	1	0	0	2	2	2	2	1	6	3	4	1	6	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:67134968T>C	uc001okq.2	-	2	342	c.146A>G	c.(145-147)TAC>TGC	p.Y49C	LOC100130987_uc010rpo.1_Intron|CLCF1_uc010rpp.1_Missense_Mutation_p.Y39C	NM_013246	NP_037378	Q9UBD9	CLCF1_HUMAN	cardiotrophin-like cytokine factor 1 precursor	49					B cell differentiation|cytokine-mediated signaling pathway|JAK-STAT cascade|negative regulation of neuron apoptosis|positive regulation of astrocyte differentiation|positive regulation of B cell proliferation|positive regulation of immunoglobulin production|positive regulation of isotype switching to IgE isotypes|positive regulation of tyrosine phosphorylation of Stat3 protein	extracellular space	ciliary neurotrophic factor receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity				0			BRCA - Breast invasive adenocarcinoma(15;2.39e-06)			GTGCTCCAGGTAGCGGGTGAG	0.607													12	76					0	0	0.001368	0	0		C	67134968	C	C	67134968	3	2	58	1	0	0	0	0	1	0	0	0	3464	1638	57	3	539	3	CLCF1	11	67134968	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1003963	67134968	67871548	407	41397											
RPS6KB2	6199	broad.mit.edu	37	chr11	67201739	67201739	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtggacccccctttcaggcCctgtctggtgagcagcaggg	5	9	14	13	0	2	1	1	1	1	0	2	2	2	2	4	4	2	2	4	4	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:67201739C>A	uc001old.2	+	12	1122	c.1040C>A	c.(1039-1041)CCC>CAC	p.P347H	RPS6KB2_uc001olf.2_Missense_Mutation_p.P147H|RPS6KB2_uc001olg.2_Missense_Mutation_p.P347H|RPS6KB2_uc009yrq.2_Missense_Mutation_p.P147H|RPS6KB2_uc001ole.2_RNA|RPS6KB2_uc001olh.2_RNA|RPS6KB2_uc009yrr.2_Missense_Mutation_p.P178H	NM_003952	NP_003943	Q9UBS0	KS6B2_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	347	AGC-kinase C-terminal.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of translational initiation|translation	nucleoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|stomach(1)|lung(1)|salivary_gland(1)	7			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			CCTTTCAGGCCCTGTCTGGTG	0.612													53	224					4.37618e-36	5.15743e-36	0.00361	1	0		A	67201739	A	A	67201739	3	1	58	1	0	0	0	0	1	0	0	0	13682	623	22	5	1086	5	RPS6KB2	11	67201739	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	66771	67201739	67804777	408	41398											
PITPNM1	9600	broad.mit.edu	37	chr11	67267784	67267784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatgcgctgggccagcatgCgagcagtctcctcttccagt	6	9	11	15	2	2	0	0	0	2	0	4	1	3	0	4	1	4	3	4	1	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:67267784C>T	uc001olx.2	-	5	938	c.749G>A	c.(748-750)CGC>CAC	p.R250H	PITPNM1_uc001olw.2_5'Flank|PITPNM1_uc001oly.2_Missense_Mutation_p.R250H|PITPNM1_uc001olz.2_Missense_Mutation_p.R250H	NM_004910	NP_004901	O00562	PITM1_HUMAN	phosphatidylinositol transfer protein,	250					brain development|lipid metabolic process|phototransduction|protein transport	cleavage furrow|endoplasmic reticulum membrane|Golgi cisterna membrane|lipid particle|membrane fraction|midbody	metal ion binding|phosphatidylinositol transporter activity			lung(2)|central_nervous_system(1)	3						GGCCAGCATGCGAGCAGTCTC	0.692													11	92					0	0	0.008291	0	0		T	67267784	T	T	67267784	3	4	58	1	0	0	0	0	1	0	0	0	11969	768	27	1	3061	1	PITPNM1	11	67267784	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	66045	67267784	67738732	409	41399											
C11orf24	53838	broad.mit.edu	37	chr11	68030283	68030283	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggtcaatgtgacaggagaAgctgctgccatggttacatc	10	11	12	8	0	1	2	1	1	0	1	2	3	1	2	1	3	4	3	1	3	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:68030283A>C	uc001onr.3	-	4	622	c.180T>G	c.(178-180)GCT>GCG	p.A60A	C11orf24_uc001ons.2_Silent_p.A60A	NM_022338	NP_071733	Q96F05	CK024_HUMAN	hypothetical protein LOC53838 precursor	60	Extracellular (Potential).					integral to membrane					0						TGACAGGAGAAGCTGCTGCCA	0.463													17	66					0	0	0.00499	0	0		C	68030283	C	C	68030283	2	2	58	1	0	0	0	0	0	0	0	1	1638	59	3	5		5	C11orf24	11	68030283	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	762499	68030283	66976233	410	41400											
DHCR7	1717	broad.mit.edu	37	chr11	71146457	71146457	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaggcggtaaggcactgcGgcggtgtagcgctcccagtc	7	6	16	12	4	0	0	0	0	0	0	2	0	1	0	1	5	3	5	1	5	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:71146457G>A	uc001oqk.2	-	9	1642	c.1392C>T	c.(1390-1392)GCC>GCT	p.A464A	DHCR7_uc001oql.2_Silent_p.A464A	NM_001163817	NP_001157289	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	464					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|nuclear outer membrane	7-dehydrocholesterol reductase activity|protein binding			ovary(1)|liver(1)	2					NADH(DB00157)	AAGGCACTGCGGCGGTGTAGC	0.647									Smith-Lemli-Opitz_syndrome				5	75					0	0	0.000602	0	0		A	71146457	A	A	71146457	2	1	58	1	0	0	0	0	0	0	0	1	4483	1103	39	1		1	DHCR7	11	71146457	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3116174	71146457	63860059	411	41401											
OR2AT4	341152	broad.mit.edu	37	chr11	74799925	74799925	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcatataccacattgccCatgatatggaagtcaagggg	13	9	11	8	0	1	1	1	1	0	0	1	2	1	2	2	4	2	1	2	4	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:74799925C>A	uc010rro.1	-	1	834	c.834G>T	c.(832-834)ATG>ATT	p.M278I		NM_001005285	NP_001005285	A6NND4	O2AT4_HUMAN	olfactory receptor, family 2, subfamily AT,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCACATTGCCCATGATATGGA	0.512													13	116					4.36969e-10	4.96289e-10	0.001855	1	0		A	74799925	A	A	74799925	3	1	58	1	0	0	0	0	1	0	0	0	11006	594	21	5	131	5	OR2AT4	11	74799925	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3653468	74799925	60206591	412	41402											
TSKU	25987	broad.mit.edu	37	chr11	76506961	76506961	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acctgctcaccagcatctcaCccactgccttctcccgcctt	6	10	4	21	1	3	0	2	0	2	0	5	0	3	0	6	0	3	2	6	0	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:76506961C>G	uc001oxt.2	+	2	473	c.301C>G	c.(301-303)CCC>GCC	p.P101A		NM_015516	NP_056331	Q8WUA8	TSK_HUMAN	tsukushin precursor	101	LRR 2.					extracellular region					0	Ovarian(111;0.112)					CAGCATCTCACCCACTGCCTT	0.632													18	62					0	0	0.006122	0	0		G	76506961	G	G	76506961	3	3	58	1	0	0	0	0	1	0	0	0	16653	507	18	5	303	5	TSKU	11	76506961	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1707036	76506961	58499555	413	41403											
NARS2	79731	broad.mit.edu	37	chr11	78285486	78285486	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgcttggggaagggggcGgaggaacagaagcgcacgga	10	5	20	6	3	0	1	0	0	0	1	0	5	0	5	0	7	3	2	0	7	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:78285486G>A	uc001ozi.2	-	1	424	c.48C>T	c.(46-48)TCC>TCT	p.S16S	NARS2_uc010rsq.1_Intron	NM_024678	NP_078954	Q96I59	SYNM_HUMAN	asparaginyl-tRNA synthetase 2, mitochondrial	16					asparaginyl-tRNA aminoacylation	mitochondrial matrix	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding			ovary(2)	2	all_cancers(14;2.63e-17)|all_epithelial(13;1.85e-19)				L-Asparagine(DB00174)	GGAAGGGGGCGGAGGAACAGA	0.677													11	48					0	0	0.008291	0	0		A	78285486	A	A	78285486	2	1	58	1	0	0	0	0	0	0	0	1	10189	1103	39	1		1	NARS2	11	78285486	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1778525	78285486	56721030	414	41404											
PICALM	8301	broad.mit.edu	37	chr11	85733455	85733455	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcaacttgtctgtatgaaActgctttctcatttaaatat	12	17	5	7	0	2	1	1	1	2	0	3	1	2	1	0	0	4	3	0	0	6	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:85733455A>G	uc001pbm.2	-	4	693	c.407T>C	c.(406-408)GTT>GCT	p.V136A	PICALM_uc001pbl.2_Missense_Mutation_p.V136A|PICALM_uc001pbn.2_Missense_Mutation_p.V136A|PICALM_uc010rtl.1_Missense_Mutation_p.V85A	NM_007166	NP_009097	Q13492	PICAL_HUMAN	phosphatidylinositol-binding clathrin assembly	136	ENTH.				clathrin coat assembly|endosome transport|negative regulation of receptor-mediated endocytosis|positive regulation of transcription, DNA-dependent|receptor internalization|regulation of protein localization	clathrin coat|clathrin-coated vesicle|coated pit|Golgi apparatus|nucleus|postsynaptic membrane|presynaptic membrane	1-phosphatidylinositol binding|clathrin heavy chain binding			urinary_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(157;7.42e-07)|all_hematologic(158;0.00092)				TCTGTATGAAACTGCTTTCTC	0.269			T	MLLT10|MLL	TALL|AML|								11	89					0	0	0.001368	0	0		G	85733455	G	G	85733455	3	3	58	1	0	0	0	0	1	0	0	0	11899	43	2	3	1647	3	PICALM	11	85733455	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	7447969	85733455	49273061	415	41405											
FAT3	120114	broad.mit.edu	37	chr11	92533395	92533395	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagtcatatgtgagtgaaTtagccccccggggccatttt	9	12	11	9	1	1	3	1	3	0	0	1	3	1	3	4	2	1	0	4	2	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:92533395T>G	uc001pdj.3	+	9	7233	c.7216T>G	c.(7216-7218)TTA>GTA	p.L2406V		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2406	Cadherin 22.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TGTGAGTGAATTAGCCCCCCG	0.433										TCGA Ovarian(4;0.039)			21	117					0	0	0.010504	0	0		G	92533395	G	G	92533395	3	3	58	1	0	0	0	0	1	0	0	0	5705	1490	52	5	7250	5	FAT3	11	92533395	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	6799940	92533395	42473121	416	41406											
KDM4DL	390245	broad.mit.edu	37	chr11	94759567	94759567	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccatgctggcttcaatcaCggcttcaactgcgcagaagc	10	9	9	13	2	3	1	3	0	0	1	3	1	3	1	1	2	5	4	1	2	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:94759567C>T	uc010ruf.1	+	1	1146	c.846C>T	c.(844-846)CAC>CAT	p.H282H		NM_001161630	NP_001155102	B2RXH2	KD4DL_HUMAN	lysine (K)-specific demethylase 4D-like	282	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GCTTCAATCACGGCTTCAACT	0.498													5	41					0	0	0.001984	0	0		T	94759567	T	T	94759567	2	4	58	1	0	0	0	0	0	0	0	1	8148	535	19	1		1	KDM4DL	11	94759567	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2226172	94759567	40246949	417	41407											
DYNC2H1	79659	broad.mit.edu	37	chr11	103075616	103075616	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaaacttcatgataaacTgtgagagtaatccagctttg	14	13	7	7	0	2	2	2	2	0	1	3	3	3	2	1	0	3	2	1	0	4	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:103075616T>C	uc001pho.2	+	52	8521	c.8377T>C	c.(8377-8379)TGT>CGT	p.C2793R	DYNC2H1_uc001phn.1_Missense_Mutation_p.C2793R|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2793	AAA 4 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CATGATAAACTGTGAGAGTAA	0.323													3	3					0	0	0.004672	0	0		C	103075616	C	C	103075616	3	2	58	1	0	0	0	0	1	0	0	0	4852	1580	55	3	8583	3	DYNC2H1	11	103075616	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	8316049	103075616	31930900	418	41408											
BACE1	23621	broad.mit.edu	37	chr11	117161685	117161685	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggtagagtgagatgactggGaaaatgttccaaggggtggt	12	9	17	3	0	0	3	0	2	0	2	1	5	1	4	1	5	0	2	1	5	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:117161685G>A	uc001pqz.2	-	7	1484	c.1023C>T	c.(1021-1023)TTC>TTT	p.F341F	BACE1_uc001pqw.2_Silent_p.F316F|BACE1_uc001pqx.2_Silent_p.F272F|BACE1_uc001pqy.2_Silent_p.F297F|BACE1_uc010rxg.1_Silent_p.F216F|BACE1_uc010rxh.1_Silent_p.F241F|BACE1_uc009yzo.1_Intron|uc010rxi.1_5'Flank	NM_012104	NP_036236	P56817	BACE1_HUMAN	beta-site APP-cleaving enzyme 1 isoform A	341	Extracellular (Potential).				beta-amyloid metabolic process|membrane protein ectodomain proteolysis	cell surface|cytoplasmic vesicle membrane|endoplasmic reticulum|endosome|integral to plasma membrane|trans-Golgi network	aspartic-type endopeptidase activity|beta-aspartyl-peptidase activity|protein binding			ovary(1)	1	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000563)|all cancers(92;0.0032)		AGATGACTGGGAAAATGTTCC	0.552													12	99					0	0	0.000978	0	0		A	117161685	A	A	117161685	2	1	58	1	0	0	0	0	0	0	0	1	1282	1165	41	4		4	BACE1	11	117161685	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	14086069	117161685	17844831	419	41409											
UBE4A	9354	broad.mit.edu	37	chr11	118253471	118253471	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggctctaatcaaggtttTtgtggacatcgaatttacag	12	13	10	6	1	2	1	1	0	1	1	3	3	2	2	0	3	1	2	0	3	4	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:118253471T>C	uc001psw.2	+	13	2306	c.2177T>C	c.(2176-2178)TTT>TCT	p.F726S	UBE4A_uc001psv.2_Missense_Mutation_p.F733S	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	726					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		ATCAAGGTTTTTGTGGACATC	0.458													25	73					0	0	0.005443	0	0		C	118253471	C	C	118253471	3	2	58	1	0	0	0	0	1	0	0	0	16908	1841	64	3	2244	3	UBE4A	11	118253471	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1091786	118253471	16753045	420	41410											
DPAGT1	1798	broad.mit.edu	37	chr11	118968584	118968584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgggtatgcggtggcgagGgcaggggatgatatgcagga	8	7	20	6	2	0	1	0	1	0	0	0	4	0	3	1	7	2	3	1	7	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:118968584G>A	uc001pvi.2	-	6	1318	c.898C>T	c.(898-900)CCT>TCT	p.P300S	H2AFX_uc001pvg.2_5'Flank|H2AFX_uc001pvh.1_5'Flank|DPAGT1_uc001pvj.2_Missense_Mutation_p.P193S|DPAGT1_uc009zaq.2_Intron|DPAGT1_uc001pvk.2_Missense_Mutation_p.P128S|DPAGT1_uc010ryz.1_Missense_Mutation_p.P300S|DPAGT1_uc001pvm.1_3'UTR|DPAGT1_uc010rza.1_Missense_Mutation_p.P193S	NM_001382	NP_001373	Q9H3H5	GPT_HUMAN	UDP-N-acetylglucosamine-dolichyl-phosphate	300	Cytoplasmic (Potential).				dolichol biosynthetic process|dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|protein oligomerization	integral to endoplasmic reticulum membrane|microsome	phospho-N-acetylmuramoyl-pentapeptide-transferase activity|transferase activity, transferring glycosyl groups|UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosaminephosphotransferase activity			breast(2)|ovary(1)	3	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.55e-05)		CGGTGGCGAGGGCAGGGGATG	0.498													9	82					0	0	0.006214	0	0		A	118968584	A	A	118968584	3	1	58	1	0	0	0	0	1	0	0	0	4716	1232	43	4	344	4	DPAGT1	11	118968584	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	715113	118968584	16037932	421	41411											
RNF26	79102	broad.mit.edu	37	chr11	119206040	119206040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcattgctggccttgatcGaagccgtggtccggttcaca	6	13	11	11	3	2	1	2	1	0	0	4	2	3	1	3	3	2	2	3	3	1	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:119206040G>A	uc001pwh.2	+	1	804	c.208G>A	c.(208-210)GAA>AAA	p.E70K		NM_032015	NP_114404	Q9BY78	RNF26_HUMAN	ring finger protein 26	70	Leu-rich.						zinc ion binding			ovary(1)	1		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.8e-05)		GGCCTTGATCGAAGCCGTGGT	0.592													10	140					0	0	0.008291	0	0		A	119206040	A	A	119206040	3	1	58	1	0	0	0	0	1	0	0	0	13511	1059	37	1	210	1	RNF26	11	119206040	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	237456	119206040	15800476	422	41412											
OR8B4	283162	broad.mit.edu	37	chr11	124294407	124294407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttgcagatggccacatagcGatcataggccattgatacca	12	9	10	10	1	1	2	1	1	0	1	1	3	1	2	3	2	3	2	3	2	3	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:124294407G>A	uc010sak.1	-	1	361	c.361C>T	c.(361-363)CGC>TGC	p.R121C		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		GCCACATAGCGATCATAGGCC	0.453													11	57					0	0	0.000978	0	0		A	124294407	A	A	124294407	3	1	58	1	0	0	0	0	1	0	0	0	11248	1058	37	1	570	1	OR8B4	11	124294407	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	5088367	124294407	10712109	423	41413											
KDM5A	5927	broad.mit.edu	37	chr12	432830	432830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggtagagacatacaagccGctcaggattacaggaacatg	15	7	11	8	1	1	1	1	0	0	1	1	4	1	3	1	3	4	2	1	3	5	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:432830G>A	uc001qif.1	-	15	2449	c.2086C>T	c.(2086-2088)CGG>TGG	p.R696W	KDM5A_uc001qie.1_Missense_Mutation_p.R696W|KDM5A_uc010sdn.1_Missense_Mutation_p.R655W|KDM5A_uc010sdo.1_Missense_Mutation_p.R315W	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	696					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						CATACAAGCCGCTCAGGATTA	0.438			T 	NUP98	AML								19	64					0	0	0.008871	0	0		A	432830	A	A	432830	3	1	58	1	0	0	0	0	1	0	0	0	8149	1086	38	1	3042	1	KDM5A	12	432830	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08		432830	133419065	424	41414											
KCNA6	3742	broad.mit.edu	37	chr12	4919281	4919281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagggagagcaacaggatgCgggagacttcccggaggccg	10	3	19	9	3	0	2	0	0	0	2	1	7	1	5	2	6	3	1	2	6	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:4919281C>T	uc001qng.2	+	1	940	c.74C>T	c.(73-75)GCG>GTG	p.A25V		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	25						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						CAACAGGATGCGGGAGACTTC	0.682										HNSCC(72;0.22)			6	24					0	0	0.001168	0	0		T	4919281	T	T	4919281	3	4	58	1	0	0	0	0	1	0	0	0	8023	768	27	1	76	1	KCNA6	12	4919281	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4486451	4919281	128932614	425	41415											
CD27	939	broad.mit.edu	37	chr12	6559355	6559355	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggtcttctcgttcgcaaCtgcaccatcactgccaatgc	8	10	7	16	2	3	0	1	0	2	0	5	0	3	0	3	1	4	3	3	1	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:6559355C>T	uc001qod.2	+	3	496	c.285C>T	c.(283-285)AAC>AAT	p.N95N	LOC678655_uc001qob.2_Intron|LOC678655_uc001qoc.2_Intron|LOC678655_uc009zel.1_Intron|CD27_uc001qoe.2_5'UTR|LOC678655_uc009zem.1_Intron|LOC678655_uc001qof.2_Intron|TAPBPL_uc001qog.3_5'Flank|TAPBPL_uc001qoh.3_5'Flank|TAPBPL_uc001qoi.1_5'Flank	NM_001242	NP_001233	P26842	CD27_HUMAN	tumor necrosis factor receptor superfamily,	95	Extracellular (Potential).|TNFR-Cys 2.				anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway|immunoglobulin mediated immune response|induction of apoptosis|positive regulation of B cell differentiation|positive regulation of JNK cascade|release of cytoplasmic sequestered NF-kappaB	extracellular region|integral to plasma membrane	caspase inhibitor activity|protein binding|transmembrane receptor activity				0						TCGTTCGCAACTGCACCATCA	0.582													7	42					0	0	0.001984	0	0		T	6559355	T	T	6559355	2	4	58	1	0	0	0	0	0	0	0	1	2993	564	20	4		4	CD27	12	6559355	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1640074	6559355	127292540	426	41416											
A2M	2	broad.mit.edu	37	chr12	9227269	9227269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctgggccgtgagataagCgaggagcacataggatgtca	11	7	16	7	2	1	1	1	1	0	1	1	5	1	3	1	4	2	2	1	4	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:9227269C>T	uc001qvk.1	-	29	3756	c.3643G>A	c.(3643-3645)GCT>ACT	p.A1215T	A2M_uc001qvj.1_Missense_Mutation_p.A257T|A2M_uc009zgk.1_Missense_Mutation_p.A1065T	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1215					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GTGAGATAAGCGAGGAGCACA	0.587													4	20					0	0	0.000602	0	0		T	9227269	T	T	9227269	3	4	58	1	0	0	0	0	1	0	0	0	4	768	27	1	813	1	A2M	12	9227269	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2667914	9227269	124624626	427	41417											
STYK1	55359	broad.mit.edu	37	chr12	10777340	10777340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtagaggagatggcccctCgggtgtaaacttcataagcc	11	8	13	9	1	1	2	1	0	0	2	2	4	1	2	3	3	2	2	3	3	4	4	rs147511596		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:10777340C>T	uc001qys.2	-	8	1357	c.836G>A	c.(835-837)CGA>CAA	p.R279Q		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	279	Protein kinase.					integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						GATGGCCCCTCGGGTGTAAAC	0.502										HNSCC(73;0.22)			29	138					0	0	0.009535	0	0		T	10777340	T	T	10777340	3	4	58	1	0	0	0	0	1	0	0	0	15384	884	31	1	448	1	STYK1	12	10777340	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1550071	10777340	123074555	428	41418											
LRP6	4040	broad.mit.edu	37	chr12	12334193	12334193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagatccatctataaatgaaCggcgtatggccctcacttca	12	10	7	12	2	3	2	2	1	1	1	4	2	4	2	2	2	1	1	2	2	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:12334193C>T	uc001rah.3	-	6	1299	c.1157G>A	c.(1156-1158)CGT>CAT	p.R386H	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.R386H	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	386	LDL-receptor class B 6.|Extracellular (Potential).|Beta-propeller 2.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				TATAAATGAACGGCGTATGGC	0.468													8	120					0	0	0.00308	0	0		T	12334193	T	T	12334193	3	4	58	1	0	0	0	0	1	0	0	0	8980	536	19	1	3756	1	LRP6	12	12334193	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1556853	12334193	121517702	429	41419											
GRIN2B	2904	broad.mit.edu	37	chr12	13716375	13716375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaccgccactggggcagccGgctggtccagttcctgcagg	5	7	14	15	2	1	0	1	0	0	0	3	0	3	0	5	5	2	4	5	5	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:13716375G>A	uc001rbt.2	-	13	3976	c.3797C>T	c.(3796-3798)CCG>CTG	p.P1266L		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1266	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TGGGGCAGCCGGCTGGTCCAG	0.587													17	55					0	0	0.006122	0	0		A	13716375	A	A	13716375	3	1	58	1	0	0	0	0	1	0	0	0	6796	1116	39	1	661	1	GRIN2B	12	13716375	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1382182	13716375	120135520	430	41420											
GRIN2B	2904	broad.mit.edu	37	chr12	13768095	13768095	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgctgcgtgacaccatgAcactgatgcctgtctctatg	8	12	9	12	1	1	3	0	3	1	0	2	3	1	3	2	0	3	1	2	0	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:13768095A>C	uc001rbt.2	-	7	1786	c.1607T>G	c.(1606-1608)GTC>GGC	p.V536G		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	536	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TGACACCATGACACTGATGCC	0.517													22	75					0	0	0.010504	0	0		C	13768095	C	C	13768095	3	2	58	1	0	0	0	0	1	0	0	0	6796	275	10	5	2875	5	GRIN2B	12	13768095	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	51720	13768095	120083800	431	41421											
GRIN2B	2904	broad.mit.edu	37	chr12	13906806	13906806	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcattacggaagcttgcTgttcaattgatgggccaaac	11	11	11	8	1	1	2	1	2	0	0	1	3	1	3	1	2	5	4	1	2	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:13906806T>G	uc001rbt.2	-	3	634	c.455A>C	c.(454-456)CAG>CCG	p.Q152P		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	152	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GGAAGCTTGCTGTTCAATTGA	0.398													11	48					0	0	0.008291	0	0		G	13906806	G	G	13906806	3	3	58	1	0	0	0	0	1	0	0	0	6796	1580	55	5	4043	5	GRIN2B	12	13906806	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	138711	13906806	119945089	432	41422											
SLCO1B3	28234	broad.mit.edu	37	chr12	21220293	21220293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcacttgcaatcggcttcCattcaatgattatgcgatcg	11	12	8	10	3	1	1	1	1	0	0	4	2	2	1	1	1	3	3	1	1	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:21220293C>T	uc010sil.1	+	14	1971	c.1906C>T	c.(1906-1908)CAT>TAT	p.H636Y	LST-3TM12_uc010sim.1_Missense_Mutation_p.H575Y|LST-3TM12_uc010sin.1_Missense_Mutation_p.H528Y			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					AATCGGCTTCCATTCAATGAT	0.279													3	5					0	0	0.004672	0	0		T	21220293	T	T	21220293	3	4	58	1	0	0	0	0	1	0	0	0	14749	594	21	4		4	SLCO1B3	12	21220293	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	7313487	21220293	112631602	433	41423											
KRAS	3845	broad.mit.edu	37	chr12	25398284	25398284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcactcttgcctacgccaCcagctccaactaccacaagt	11	7	6	17	1	1	0	0	0	1	0	2	0	2	0	5	1	5	2	5	1	4	3	rs121913529		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:25398284C>T	uc001rgp.1	-	2	216	c.35G>A	c.(34-36)GGT>GAT	p.G12D	KRAS_uc001rgq.1_Missense_Mutation_p.G12D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12N(6)|p.G12G(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			GCCTACGCCACCAGCTCCAAC	0.348	G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			5	19					0	0	0.001984	0	0		T	25398284	T	T	25398284	3	4	58	1	0	0	0	0	1	0	0	0	8454	507	18	4	671	4	KRAS	12	25398284	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4177991	25398284	108453611	434	41424											
PKP2	5318	broad.mit.edu	37	chr12	33031100	33031100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggtacgtgagcagggcCgggttggcagggatgctgtc	5	8	20	8	2	0	1	0	1	0	0	1	2	0	2	1	6	3	5	1	6	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:33031100C>T	uc001rlj.3	-	3	829	c.714G>A	c.(712-714)CCG>CCA	p.P238P	PKP2_uc001rlk.3_Silent_p.P238P|PKP2_uc010skj.1_Silent_p.P238P	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	238					cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					TGAGCAGGGCCGGGTTGGCAG	0.607													10	27					0	0	0.000978	0	0		T	33031100	T	T	33031100	2	4	58	1	0	0	0	0	0	0	0	1	12004	639	23	1		1	PKP2	12	33031100	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	7632816	33031100	100820795	435	41425											
LRRK2	120892	broad.mit.edu	37	chr12	40645122	40645122	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagaagataaattgttttgGctggaagcctgttacaaagc	14	11	11	5	0	0	2	0	0	0	2	0	4	0	3	1	2	3	3	1	2	7	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:40645122G>A	uc001rmg.3	+	9	1168	c.1047G>A	c.(1045-1047)TGG>TGA	p.W349*	LRRK2_uc001rmh.1_5'Flank	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	349					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				AATTGTTTTGGCTGGAAGCCT	0.338											OREG0003829	type=REGULATORY REGION|Gene=LRRK2|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	4	33					0	0	0.009096	0	0		A	40645122	A	A	40645122	4	1	58	1	0	0	0	0	0	1	0	0	9051	1212	42	2	1081	2	LRRK2	12	40645122	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	7614022	40645122	93206773	436	41426											
NELL2	4753	broad.mit.edu	37	chr12	45209887	45209887	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaaaaaactgttcagctgTagcagtggatgcttttatgc	11	13	10	7	0	1	1	1	1	0	0	1	2	1	2	0	1	5	5	0	1	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:45209887T>C	uc001rog.2	-	3	812	c.217A>G	c.(217-219)ACA>GCA	p.T73A	NELL2_uc001rof.3_Missense_Mutation_p.T72A|NELL2_uc001roh.2_Missense_Mutation_p.T73A|NELL2_uc009zkd.2_Missense_Mutation_p.T72A|NELL2_uc010skz.1_Missense_Mutation_p.T123A|NELL2_uc010sla.1_Missense_Mutation_p.T96A|NELL2_uc001roi.1_Missense_Mutation_p.T73A|NELL2_uc010slb.1_Missense_Mutation_p.T72A|NELL2_uc001roj.2_Missense_Mutation_p.T73A	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	73	TSP N-terminal.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		TGTTCAGCTGTAGCAGTGGAT	0.308													12	106					0	0	0.000978	0	0		C	45209887	C	C	45209887	3	2	58	1	0	0	0	0	1	0	0	0	10353	1638	57	3	2305	3	NELL2	12	45209887	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	4564765	45209887	88642008	437	41427											
ANO6	196527	broad.mit.edu	37	chr12	45741846	45741846	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtatttgtaaaagtacaCgcaccatgggaggtgttatg	11	13	11	6	1	0	0	0	0	0	0	0	1	0	1	1	2	1	5	1	2	5	6	rs144883809		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:45741846C>T	uc001roo.2	+	5	716	c.381C>T	c.(379-381)CAC>CAT	p.H127H	ANO6_uc010sld.1_Silent_p.H127H|ANO6_uc010sle.1_Silent_p.H127H|ANO6_uc010slf.1_Silent_p.H148H|ANO6_uc010slg.1_Silent_p.H109H	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	127	Cytoplasmic (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						TAAAAGTACACGCACCATGGG	0.378													7	79					0	0	0.001984	0	0		T	45741846	T	T	45741846	2	4	58	1	0	0	0	0	0	0	0	1	701	535	19	1		1	ANO6	12	45741846	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	531959	45741846	88110049	438	41428											
ZNF641	121274	broad.mit.edu	37	chr12	48737166	48737166	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatgaggtgatgtcttcGcccaaaggtcttctcacact	8	12	9	12	1	3	3	1	3	3	0	5	3	3	3	2	2	0	0	2	2	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:48737166G>A	uc001rrn.1	-	6	1072	c.907C>T	c.(907-909)CGA>TGA	p.R303*	ZNF641_uc001rro.1_Nonsense_Mutation_p.R289*|ZNF641_uc010sls.1_Nonsense_Mutation_p.R280*	NM_152320	NP_689533	Q96N77	ZN641_HUMAN	zinc finger protein 641	303	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						TGATGTCTTCGCCCAAAGGTC	0.522													11	73					0	0	0.000978	0	0		A	48737166	A	A	48737166	4	1	58	1	0	0	0	0	0	1	0	0	18082	1095	38	1	413	1	ZNF641	12	48737166	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2995320	48737166	85114729	439	41429											
RHEBL1	121268	broad.mit.edu	37	chr12	49462855	49462855	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtagccttccgagaactcGccttccacaaattgatgtgc	9	11	8	13	3	0	2	0	1	0	1	4	3	2	2	4	0	3	1	4	0	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:49462855G>A	uc001rtc.1	-	2	294	c.87C>T	c.(85-87)GGC>GGT	p.G29G	RHEBL1_uc001rtd.1_Silent_p.G25G|RHEBL1_uc009zlc.1_RNA	NM_144593	NP_653194	Q8TAI7	REBL1_HUMAN	Ras homolog enriched in brain like 1 precursor	29					positive regulation of NF-kappaB transcription factor activity|small GTPase mediated signal transduction|TOR signaling cascade	cytoplasm|plasma membrane	GTP binding|GTPase activity|protein binding			lung(1)|breast(1)	2						CCGAGAACTCGCCTTCCACAA	0.517													12	95					0	0	0.001368	0	0		A	49462855	A	A	49462855	2	1	58	1	0	0	0	0	0	0	0	1	13354	1074	38	1		1	RHEBL1	12	49462855	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	725689	49462855	84389040	440	41430											
DIP2B	57609	broad.mit.edu	37	chr12	51116998	51116998	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgcaggcattgagttaatCgccgccttctatggctgcct	6	13	10	12	2	1	1	0	1	1	0	2	1	1	1	3	2	2	4	3	2	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:51116998C>T	uc001rwv.2	+	27	3336	c.3180C>T	c.(3178-3180)ATC>ATT	p.I1060I	DIP2B_uc009zlt.2_Silent_p.I490I	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1060						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						TTGAGTTAATCGCCGCCTTCT	0.502													15	54					0	0	0.00245	0	0		T	51116998	T	T	51116998	2	4	58	1	0	0	0	0	0	0	0	1	4534	874	31	1		1	DIP2B	12	51116998	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1654143	51116998	82734897	441	41431											
KRT80	144501	broad.mit.edu	37	chr12	52565273	52565273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgctgcccttcttctttcggGagggggccttggagaggcct	3	12	15	11	1	2	1	0	0	2	1	3	3	2	2	3	5	2	1	3	5	0	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:52565273G>A	uc001rzx.2	-	9	1366	c.1268C>T	c.(1267-1269)TCC>TTC	p.S423F	KRT80_uc001rzw.2_Missense_Mutation_p.S458F|KRT80_uc001rzy.2_3'UTR	NM_182507	NP_872313	Q6KB66	K2C80_HUMAN	keratin 80 isoform a	423	Tail.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.108)		CTTCTTTCGGGAGGGGGCCTT	0.567													5	42					0	0	0.001168	0	0		A	52565273	A	A	52565273	3	1	58	1	0	0	0	0	1	0	0	0	8510	1174	41	4	94	4	KRT80	12	52565273	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1448275	52565273	81286622	442	41432											
KRT6A	3853	broad.mit.edu	37	chr12	52885450	52885450	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggttctgcctcacagtcTtggtgccctgctcctgcagc	4	11	10	16	0	3	0	1	0	2	0	4	0	4	0	4	2	5	3	4	2	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:52885450T>G	uc001sam.2	-	2	820	c.611A>C	c.(610-612)AAG>ACG	p.K204T		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	204	Rod.|Linker 1.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		CCTCACAGTCTTGGTGCCCTG	0.557													9	87					0	0	0.004482	0	0		G	52885450	G	G	52885450	3	3	58	1	0	0	0	0	1	0	0	0	8496	1609	56	5	1115	5	KRT6A	12	52885450	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	320177	52885450	80966445	443	41433											
KRT71	112802	broad.mit.edu	37	chr12	52946555	52946555	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcattgacggtaacctggtGgatgcctccaggtgggcata	8	10	13	10	1	1	1	1	1	0	0	2	2	2	2	3	5	2	2	3	5	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:52946555G>T	uc001sao.2	-	1	377	c.307C>A	c.(307-309)CAC>AAC	p.H103N		NM_033448	NP_258259	Q3SY84	K2C71_HUMAN	keratin 71	103	Head.						structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.194)		GTAACCTGGTGGATGCCTCCA	0.632													19	86					3.32936e-07	3.69201e-07	0.006122	1	0		T	52946555	T	T	52946555	3	4	58	1	0	0	0	0	1	0	0	0	8500	1348	47	5	1300	5	KRT71	12	52946555	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	61105	52946555	80905340	444	41434											
KRT73	319101	broad.mit.edu	37	chr12	53004418	53004418	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgcactcctcgccctccaGcagcttgcggtaggtggcga	5	8	12	16	3	0	0	0	0	0	0	3	1	2	0	4	3	4	4	4	3	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:53004418G>A	uc001sas.2	-	7	1347	c.1312C>T	c.(1312-1314)CTG>TTG	p.L438L		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	438	Rod.|Coil 2.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		TCGCCCTCCAGCAGCTTGCGG	0.607													10	47					0	0	0.000978	0	0		A	53004418	A	A	53004418	2	1	58	1	0	0	0	0	0	0	0	1	8502	962	34	2		2	KRT73	12	53004418	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	57863	53004418	80847477	445	41435											
KRT4	3851	broad.mit.edu	37	chr12	53202626	53202626	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgacatgggtctgcatctgGgacagctcctgcagggcaaa	9	8	13	11	0	2	1	0	1	2	0	3	2	3	2	1	3	3	4	1	3	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:53202626G>T	uc001saz.2	-	5	1336	c.1065C>A	c.(1063-1065)TCC>TCA	p.S355S		NM_002272	NP_002263	B4DRS2	B4DRS2_HUMAN	keratin 4	281						keratin filament	structural molecule activity			ovary(4)|skin(2)	6						TCTGCATCTGGGACAGCTCCT	0.567													6	39					3.59834e-05	3.86844e-05	0.001168	1	0		T	53202626	T	T	53202626	2	4	58	1	0	0	0	0	0	0	0	1	8493	1219	43	5		5	KRT4	12	53202626	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	198208	53202626	80649269	446	41436											
CSAD	51380	broad.mit.edu	37	chr12	53564261	53564261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccaagtcccagaaacgcaGctcccttctggatggagtag	10	8	11	12	1	1	1	0	0	1	1	3	3	3	3	3	2	3	3	3	2	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:53564261G>A	uc001sby.2	-	8	719	c.593C>T	c.(592-594)GCT>GTT	p.A198V	CSAD_uc001sbw.2_Missense_Mutation_p.A51V|CSAD_uc009zmt.2_5'UTR|CSAD_uc010snx.1_Missense_Mutation_p.A225V|CSAD_uc001sbz.2_Missense_Mutation_p.A198V|CSAD_uc009zmu.2_Missense_Mutation_p.A51V|CSAD_uc001sca.3_RNA	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	198					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	CAGAAACGCAGCTCCCTTCTG	0.557									Hereditary_Prostate_Cancer				6	35					0	0	0.001168	0	0		A	53564261	A	A	53564261	3	1	58	1	0	0	0	0	1	0	0	0	3928	971	34	2	924	2	CSAD	12	53564261	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	361635	53564261	80287634	447	41437											
HOXC13	3229	broad.mit.edu	37	chr12	54333266	54333266	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccggctacctggacgtgtcGgtggtgcccgggatcagcgg	4	7	17	13	5	1	0	1	0	0	0	2	2	1	2	3	6	3	1	3	6	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:54333266G>A	uc001sei.2	+	1	691	c.576G>A	c.(574-576)TCG>TCA	p.S192S	HOXC13_uc010sop.1_RNA	NM_017410	NP_059106	P31276	HXC13_HUMAN	homeobox C13	192						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						TGGACGTGTCGGTGGTGCCCG	0.677			T	NUP98	AML								9	22					0	0	0.008291	0	0		A	54333266	A	A	54333266	2	1	58	1	0	0	0	0	0	0	0	1	7328	1103	39	1		1	HOXC13	12	54333266	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	769005	54333266	79518629	448	41438											
CBX5	23468	broad.mit.edu	37	chr12	54651347	54651347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacttgtcccttaaccaCgcgcctgtctagcaccttct	6	13	5	17	2	2	0	0	0	2	0	4	0	4	0	5	0	2	1	5	0	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:54651347C>T	uc001sfh.3	-	2	406	c.88G>A	c.(88-90)GTG>ATG	p.V30M	CBX5_uc001sfk.3_Missense_Mutation_p.V30M|CBX5_uc001sfi.3_Missense_Mutation_p.V30M|CBX5_uc001sfj.3_Missense_Mutation_p.V30M	NM_001127322	NP_001120794	P45973	CBX5_HUMAN	heterochromatin protein 1-alpha	30	Chromo 1.				blood coagulation|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|nuclear centromeric heterochromatin|nuclear envelope|nucleolus|transcriptional repressor complex	methylated histone residue binding|protein binding, bridging|repressing transcription factor binding				0						CCCTTAACCACGCGCCTGTCT	0.483													13	76					0	0	0.001855	0	0		T	54651347	T	T	54651347	3	4	58	1	0	0	0	0	1	0	0	0	2724	536	19	1	503	1	CBX5	12	54651347	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	318081	54651347	79200548	449	41439											
OR6C6	283365	broad.mit.edu	37	chr12	55688543	55688543	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcttgagtcccatgacCaatgggggaaatatgattaa	13	10	10	8	0	0	3	0	3	0	0	2	4	2	4	3	2	1	1	3	2	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:55688543C>T	uc010sph.1	-	1	474	c.474G>A	c.(472-474)TTG>TTA	p.L158L		NM_001005493	NP_001005493	A6NF89	OR6C6_HUMAN	olfactory receptor, family 6, subfamily C,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|skin(1)	2						GTCCCATGACCAATGGGGGAA	0.418													12	73					0	0	0.00245	0	0		T	55688543	T	T	55688543	2	4	58	1	0	0	0	0	0	0	0	1	11213	593	21	4		4	OR6C6	12	55688543	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1037196	55688543	78163352	450	41440											
ERBB3	2065	broad.mit.edu	37	chr12	56495520	56495520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcagtgcctctctgggcaGcacacagagttgcccactcc	7	8	9	17	0	2	1	1	0	1	1	4	1	3	1	4	1	3	3	4	1	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:56495520G>A	uc001sjh.2	+	28	3903	c.3710G>A	c.(3709-3711)AGC>AAC	p.S1237N	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Missense_Mutation_p.S594N|ERBB3_uc010sqc.1_Missense_Mutation_p.S1178N|ERBB3_uc009zok.2_Missense_Mutation_p.S502N|ERBB3_uc001sjk.2_Missense_Mutation_p.S478N|ERBB3_uc001sjl.2_Missense_Mutation_p.S357N|PA2G4_uc001sjm.2_5'Flank|PA2G4_uc009zol.2_5'Flank|PA2G4_uc009zom.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	1237	Cytoplasmic (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			TCTCTGGGCAGCACACAGAGT	0.542													5	56					0	0	0.000602	0	0		A	56495520	A	A	56495520	3	1	58	1	0	0	0	0	1	0	0	0	5216	971	34	2	3951	2	ERBB3	12	56495520	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	806977	56495520	77356375	451	41441											
R3HDM2	22864	broad.mit.edu	37	chr12	57660560	57660560	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgcagggagagggagaCtgaggcatctggtactgctc	9	7	17	8	0	1	3	0	1	1	2	2	6	1	4	0	5	3	4	0	5	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:57660560C>T	uc009zpm.1	-	17	2078	c.2043G>A	c.(2041-2043)CAG>CAA	p.Q681Q	R3HDM2_uc010srn.1_RNA|R3HDM2_uc001snu.2_Silent_p.Q376Q|R3HDM2_uc001snr.2_Silent_p.Q408Q|R3HDM2_uc001sns.2_Silent_p.Q681Q|R3HDM2_uc001snt.2_Silent_p.Q695Q|R3HDM2_uc009zpn.1_Intron	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	681	Gln-rich.					nucleus	nucleic acid binding			ovary(2)	2						GAGAGGGAGACTGAGGCATCT	0.542													3	26					0	0	0.004672	0	0		T	57660560	T	T	57660560	2	4	58	1	0	0	0	0	0	0	0	1	12913	564	20	4		4	R3HDM2	12	57660560	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1165040	57660560	76191335	452	41442											
INHBC	3626	broad.mit.edu	37	chr12	57843751	57843751	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattatgacagggacagcaaCattgtcaagactgacatacc	15	9	8	9	0	1	3	1	2	0	1	1	4	1	4	1	1	3	1	1	1	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:57843751C>G	uc001snv.1	+	2	1132	c.1005C>G	c.(1003-1005)AAC>AAG	p.N335K		NM_005538	NP_005529	P55103	INHBC_HUMAN	inhibin beta C chain preproprotein	335					growth	extracellular region	growth factor activity|hormone activity|transforming growth factor beta receptor binding				0						GGGACAGCAACATTGTCAAGA	0.567													7	48					0	0	0.001984	0	0		G	57843751	G	G	57843751	3	3	58	1	0	0	0	0	1	0	0	0	7759	477	17	5	1011	5	INHBC	12	57843751	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	183191	57843751	76008144	453	41443											
CYP27B1	1594	broad.mit.edu	37	chr12	58158285	58158285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggagtgctgtctggacttCggggtgccgggagagctcat	5	10	18	8	2	2	1	1	0	1	1	3	4	2	3	1	5	3	2	1	5	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:58158285C>T	uc001spz.1	-	6	1164	c.1012G>A	c.(1012-1014)GAA>AAA	p.E338K	CYP27B1_uc001sqa.1_Missense_Mutation_p.E103K|CYP27B1_uc001sqb.1_3'UTR|CYP27B1_uc001sqc.1_3'UTR	NM_000785	NP_000776	O15528	CP27B_HUMAN	cytochrome P450, family 27, subfamily B,	338					bone mineralization|calcium ion homeostasis|calcium ion transport|decidualization|G1 to G0 transition|hormone biosynthetic process|negative regulation of calcidiol 1-monooxygenase activity|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of keratinocyte differentiation|positive regulation of vitamin D 24-hydroxylase activity|positive regulation of vitamin D receptor signaling pathway|regulation of bone mineralization|response to estrogen stimulus|response to interferon-gamma|response to lipopolysaccharide|response to tumor necrosis factor|response to vitamin D|vitamin D biosynthetic process|xenobiotic metabolic process	mitochondrial outer membrane	calcidiol 1-monooxygenase activity|electron carrier activity|heme binding			central_nervous_system(3)	3	all_cancers(7;8.09e-80)|Lung NSC(6;2.26e-27)|all_lung(6;1.99e-25)|all_epithelial(6;3.62e-18)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)		GBM - Glioblastoma multiforme(5;1.97e-113)|all cancers(5;1.54e-78)|BRCA - Breast invasive adenocarcinoma(9;0.0294)		Calcidiol(DB00146)|Calcitriol(DB00136)|Ergocalciferol(DB00153)	GTCTGGACTTCGGGGTGCCGG	0.582													15	99					0	0	0.00245	0	0		T	58158285	T	T	58158285	3	4	58	1	0	0	0	0	1	0	0	0	4162	893	31	1	530	1	CYP27B1	12	58158285	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	314534	58158285	75693610	454	41444											
LRRIQ1	84125	broad.mit.edu	37	chr12	85500378	85500378	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactggaaacccacttcttcAagaaacaaactggaggtaaa	17	8	7	9	0	2	1	1	0	1	1	2	3	2	3	1	3	4	1	1	3	7	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:85500378A>T	uc001tac.2	+	15	3473	c.3362A>T	c.(3361-3363)CAA>CTA	p.Q1121L	LRRIQ1_uc001tab.1_Missense_Mutation_p.Q1121L	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1121	LRRCT.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		CCACTTCTTCAAGAAACAAAC	0.328													12	75					0	0	0.000978	0	0		T	85500378	T	T	85500378	3	4	58	1	0	0	0	0	1	0	0	0	9047	130	5	5	3416	5	LRRIQ1	12	85500378	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	27342093	85500378	48351517	455	41445											
C12orf50	160419	broad.mit.edu	37	chr12	88420304	88420304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taatccattgatatttcgagGtttgctgtgataaaagatac	13	15	8	5	1	0	3	0	2	0	1	2	4	1	3	1	1	2	2	1	1	5	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:88420304G>A	uc001tam.1	-	3	262	c.94C>T	c.(94-96)CCT>TCT	p.P32S	C12orf50_uc001tan.2_Missense_Mutation_p.P86S	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	32										skin(2)|ovary(1)	3						ATATTTCGAGGTTTGCTGTGA	0.378													5	43					0	0	0.001984	0	0		A	88420304	A	A	88420304	3	1	58	1	0	0	0	0	1	0	0	0	1698	1261	44	4	1194	4	C12orf50	12	88420304	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2919926	88420304	45431591	456	41446											
ANKS1B	56899	broad.mit.edu	37	chr12	100169377	100169377	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgaaatgtgtgtttcttGtgttgcatcttcctgtacag	8	17	10	6	0	2	2	0	1	2	1	3	2	3	2	1	0	2	4	1	0	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:100169377G>T	uc001tge.1	-	7	1327	c.910C>A	c.(910-912)CAA>AAA	p.Q304K	ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Missense_Mutation_p.Q270K	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	304						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		TGTGTTTCTTGTGTTGCATCT	0.388													6	23					0.00198382	0.0020721	0.001984	1	0		T	100169377	T	T	100169377	3	4	58	1	0	0	0	0	1	0	0	0	689	1386	48	5	3204	5	ANKS1B	12	100169377	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	11749073	100169377	33682518	457	41447											
ACAD10	80724	broad.mit.edu	37	chr12	112182513	112182513	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atttgtgtctaacctggcgtGggatttcgcagtcaaagaag	10	12	12	7	2	2	1	1	0	1	1	3	2	2	2	1	2	1	1	1	2	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:112182513G>A	uc001tsq.2	+	13	1981	c.1781G>A	c.(1780-1782)TGG>TAG	p.W594*	ACAD10_uc001tsp.2_Nonsense_Mutation_p.W594*|ACAD10_uc009zvx.2_Nonsense_Mutation_p.W625*|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	594							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						AACCTGGCGTGGGATTTCGCA	0.498													12	73					0	0	0.001368	0	0		A	112182513	A	A	112182513	4	1	58	1	0	0	0	0	0	1	0	0	108	1357	47	4	1924	4	ACAD10	12	112182513	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	12013136	112182513	21669382	458	41448											
PTPN11	5781	broad.mit.edu	37	chr12	112926847	112926847	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgttgactgcgatattgaCgttcccaaaaccatccagat	11	11	9	10	2	0	3	0	2	0	1	2	4	2	3	3	1	2	2	3	1	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:112926847C>T	uc001ttx.2	+	13	1847	c.1467C>T	c.(1465-1467)GAC>GAT	p.D489D		NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	493	Tyrosine-protein phosphatase.				axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding			haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						GCGATATTGACGTTCCCAAAA	0.443			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				21	92					0	0	0.001882	0	0		T	112926847	T	T	112926847	2	4	58	1	0	0	0	0	0	0	0	1	12803	535	19	1		1	PTPN11	12	112926847	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	744334	112926847	20925048	459	41449											
RPH3A	22895	broad.mit.edu	37	chr12	113314620	113314620	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcagcccgccagccaccaCccccagaggaggaggaagag	11	1	13	16	1	0	2	0	0	0	2	0	5	0	5	6	3	3	1	6	3	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:113314620C>A	uc010syl.1	+	13	1482	c.1120C>A	c.(1120-1122)CCC>ACC	p.P374T	RPH3A_uc001ttz.2_Missense_Mutation_p.P374T|RPH3A_uc001tty.2_Missense_Mutation_p.P370T|RPH3A_uc009zwe.1_Missense_Mutation_p.P370T|RPH3A_uc010sym.1_Missense_Mutation_p.P325T|RPH3A_uc001tua.2_Missense_Mutation_p.P134T	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	374	Pro-rich.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		CCAGCCACCACCCCCAGAGGA	0.592													4	42					8.12818e-05	8.67212e-05	0.001984	1	0		A	113314620	A	A	113314620	3	1	58	1	0	0	0	0	1	0	0	0	13576	507	18	5	1162	5	RPH3A	12	113314620	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	387773	113314620	20537275	460	41450											
OAS3	4940	broad.mit.edu	37	chr12	113385824	113385824	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcactgggatttgctaGcccaggaggcagcatcctgc	7	8	13	13	0	0	0	0	0	0	0	1	2	1	2	3	4	4	4	3	4	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:113385824G>C	uc001tug.2	+	5	1036	c.949G>C	c.(949-951)GCC>CCC	p.A317P		NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	317	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						GGATTTGCTAGCCCAGGAGGC	0.572													5	13					0	0	0.001168	0	0		C	113385824	C	C	113385824	3	2	58	1	0	0	0	0	1	0	0	0	10820	971	34	5	967	5	OAS3	12	113385824	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	71204	113385824	20466071	461	41451											
FBXO21	23014	broad.mit.edu	37	chr12	117612011	117612011	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactgtacctatatttaccTgatgcatatataagttgagg	12	16	7	6	0	0	2	0	2	0	0	0	2	0	2	2	1	4	3	2	1	8	10			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:117612011T>C	uc001twk.2	-	6	914	c.875A>G	c.(874-876)CAG>CGG	p.Q292R	FBXO21_uc001twj.2_Missense_Mutation_p.Q292R|FBXO21_uc009zwq.2_Missense_Mutation_p.Q292R	NM_033624	NP_296373	O94952	FBX21_HUMAN	F-box only protein 21 isoform 1	292					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			kidney(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		TATATTTACCTGATGCATATA	0.284													20	89					0	0	0.010504	0	0		C	117612011	C	C	117612011	3	2	58	1	0	0	0	0	1	0	0	0	5747	1594	55	3	1039	3	FBXO21	12	117612011	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	4226187	117612011	16239884	462	41452											
SUDS3	64426	broad.mit.edu	37	chr12	118828954	118828954	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacaagtggaacgaaattaCattaaagaaaagaaggcagc	21	5	10	5	1	0	2	0	0	0	2	0	5	0	3	0	2	4	1	0	2	10	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:118828954C>T	uc001twz.2	+	6	523	c.384C>T	c.(382-384)TAC>TAT	p.Y128Y		NM_022491	NP_071936	Q9H7L9	SDS3_HUMAN	suppressor of defective silencing 3	128	Potential.				chromatin modification|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	Sin3 complex	histone deacetylase binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AACGAAATTACATTAAAGAAA	0.448													13	58					0	0	0.00245	0	0		T	118828954	T	T	118828954	2	4	58	1	0	0	0	0	0	0	0	1	15392	489	17	4		4	SUDS3	12	118828954	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1216943	118828954	15022941	463	41453											
SLC15A4	121260	broad.mit.edu	37	chr12	129293469	129293469	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagcaggaggatgagcacAgcatcaaacatggtcagcca	15	5	12	9	0	2	2	2	2	0	0	2	4	2	4	1	3	5	3	1	3	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:129293469A>C	uc001uhu.2	-	5	1175	c.1122T>G	c.(1120-1122)GCT>GCG	p.A374A	SLC15A4_uc001uhv.2_RNA	NM_145648	NP_663623	Q8N697	S15A4_HUMAN	solute carrier family 15, member 4	374	Helical; (Potential).				oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.69e-06)|Epithelial(86;1.17e-05)|all cancers(50;5.07e-05)		GGATGAGCACAGCATCAAACA	0.557													9	53					0	0	0.000978	0	0		C	129293469	C	C	129293469	2	2	58	1	0	0	0	0	0	0	0	1	14426	175	7	5		5	SLC15A4	12	129293469	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	10464515	129293469	4558426	464	41454											
POLE	5426	broad.mit.edu	37	chr12	133210934	133210934	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcctcattttcctgctcatCctctgctccccctgctttct	2	17	4	18	0	4	0	2	0	2	0	8	0	8	0	5	0	3	3	5	0	0	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:133210934C>A	uc001uks.1	-	43	5886	c.5842G>T	c.(5842-5844)GAT>TAT	p.D1948Y	POLE_uc001ukq.1_Missense_Mutation_p.D158Y|POLE_uc001ukr.1_Missense_Mutation_p.D752Y|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1948					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		tcctgctcatcctcTGCTCCC	0.358								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					9	50					1.12685e-05	1.22389e-05	0.004482	1	0		A	133210934	A	A	133210934	3	1	58	1	0	0	0	0	1	0	0	0	12215	855	30	5	1046	5	POLE	12	133210934	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3917465	133210934	640961	465	41455											
POLE	5426	broad.mit.edu	37	chr12	133219578	133219578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgggcatctggttgctgCgcacctagaccaacgcaggc	7	7	14	13	2	1	1	0	0	1	1	1	1	1	1	2	4	3	6	2	4	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:133219578C>T	uc001uks.1	-	36	4600	c.4556G>A	c.(4555-4557)CGC>CAC	p.R1519H	POLE_uc001ukq.1_5'Flank|POLE_uc001ukr.1_Missense_Mutation_p.R323H|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1519					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CTGGTTGCTGCGCACCTAGAC	0.672								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					7	22					0	0	0.001984	0	0		T	133219578	T	T	133219578	3	4	58	1	0	0	0	0	1	0	0	0	12215	768	27	1	2360	1	POLE	12	133219578	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	8644	133219578	632317	466	41456											
TUBA3C	7278	broad.mit.edu	37	chr13	19748247	19748247	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcacacagcccgctgcaccTtggccaggtctcccccaggg	6	6	11	18	1	1	0	0	0	1	0	2	0	1	0	5	3	3	3	5	3	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:19748247T>G	uc009zzj.2	-	5	1158	c.1109A>C	c.(1108-1110)AAG>ACG	p.K370T		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	370					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		CCGCTGCACCTTGGCCAGGTC	0.602													20	57					0	0	0.008871	0	0		G	19748247	G	G	19748247	3	3	58	1	0	0	0	0	1	0	0	0	16772	1609	56	5	247	5	TUBA3C	13	19748247	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08		19748247	95421631	467	41457											
GPR12	2835	broad.mit.edu	37	chr13	27333706	27333706	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccagcaggtctgcaagagCcaggctgcctattagcagga	10	6	14	11	0	1	1	0	0	1	1	1	2	1	2	3	4	5	4	3	4	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:27333706C>A	uc010aal.2	-	2	481	c.259G>T	c.(259-261)GCT>TCT	p.A87S	GPR12_uc010tdl.1_Intron	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	87	Helical; Name=2; (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		TCTGCAAGAGCCAGGCTGCCT	0.537													14	62					3.27435e-08	3.65499e-08	0.00245	1	0		A	27333706	A	A	27333706	3	1	58	1	0	0	0	0	1	0	0	0	6650	739	26	5	749	5	GPR12	13	27333706	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	7585459	27333706	87836172	468	41458											
SMAD9	4093	broad.mit.edu	37	chr13	37446842	37446842	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaggacttcctggggagTgagggtagctggccgtgcac	8	7	17	9	1	0	2	0	1	0	1	1	4	1	4	2	5	2	3	2	5	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:37446842T>C	uc001uvw.2	-	3	966	c.623A>G	c.(622-624)CAC>CGC	p.H208R	SMAD9_uc001uvx.2_Missense_Mutation_p.H208R|SMAD9_uc010tep.1_Missense_Mutation_p.H38R	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	208					BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		TCCTGGGGAGTGAGGGTAGCT	0.572													6	46					0	0	0.001168	0	0		C	37446842	C	C	37446842	3	2	58	1	0	0	0	0	1	0	0	0	14789	1696	59	3	800	3	SMAD9	13	37446842	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	10113136	37446842	77723036	469	41459											
FREM2	341640	broad.mit.edu	37	chr13	39261866	39261866	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtcccaagcgcttcccgTgcgactttggccctggcgag	5	9	13	14	4	0	1	0	1	0	0	2	3	2	1	3	2	2	1	3	2	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:39261866T>G	uc001uwv.2	+	1	694	c.385T>G	c.(385-387)TGC>GGC	p.C129G		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	129	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GCGCTTCCCGTGCGACTTTGG	0.716													5	7					0	0	0.001168	0	0		G	39261866	G	G	39261866	3	3	58	1	0	0	0	0	1	0	0	0	6059	1696	59	5	387	5	FREM2	13	39261866	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1815024	39261866	75908012	470	41460											
DGKH	160851	broad.mit.edu	37	chr13	42793377	42793377	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaaatagcagctggaatcGccacatgaagagcgagtatc	14	7	12	8	2	0	2	0	1	0	1	2	4	0	3	1	2	3	4	1	2	6	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:42793377G>A	uc001uyl.1	+	27	3246	c.3225G>A	c.(3223-3225)TCG>TCA	p.S1075S	DGKH_uc010tfh.1_Silent_p.S1075S|DGKH_uc001uym.1_Silent_p.S1075S|DGKH_uc010tfi.1_Silent_p.S830S|DGKH_uc010tfj.1_Silent_p.S930S|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Silent_p.S930S|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	1075					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		AGCTGGAATCGCCACATGAAG	0.408													37	152					0	0	0.003755	0	0		A	42793377	A	A	42793377	2	1	58	1	0	0	0	0	0	0	0	1	4476	1074	38	1		1	DGKH	13	42793377	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3531511	42793377	72376501	471	41461											
AKAP11	11215	broad.mit.edu	37	chr13	42874175	42874175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtaacctgtgtgatgctccGgattctcctcgcccagtgaa	7	11	11	12	2	1	2	0	2	1	0	4	3	2	3	4	2	2	2	4	2	2	2	rs139837011	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:42874175G>A	uc001uys.1	+	8	1468	c.1293G>A	c.(1291-1293)CCG>CCA	p.P431P		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	431					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		GTGATGCTCCGGATTCTCCTC	0.463													39	126					0	0	0.005524	0	0		A	42874175	A	A	42874175	2	1	58	1	0	0	0	0	0	0	0	1	447	1103	39	1		1	AKAP11	13	42874175	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	80798	42874175	72295703	472	41462											
CDADC1	81602	broad.mit.edu	37	chr13	49852489	49852489	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgctcactctcgtagagaAgttgtgatggaacaggtgcc	9	12	12	8	1	2	2	1	1	1	1	3	4	2	3	1	2	3	3	1	2	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:49852489A>C	uc001vcu.2	+	7	1130	c.1054A>C	c.(1054-1056)AGT>CGT	p.S352R	CDADC1_uc010tgk.1_Missense_Mutation_p.S154R|CDADC1_uc001vcv.2_Intron	NM_030911	NP_112173	Q9BWV3	CDAC1_HUMAN	cytidine and dCMP deaminase domain containing 1	352							hydrolase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		Lung NSC(96;0.000705)|Breast(56;0.0011)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;1.06e-08)|COAD - Colon adenocarcinoma(199;0.216)		CTCGTAGAGAAGTTGTGATGG	0.388													48	216					0	0	0.00361	0	0		C	49852489	C	C	49852489	3	2	58	1	0	0	0	0	1	0	0	0	3056	72	3	5	1080	5	CDADC1	13	49852489	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	6978314	49852489	65317389	473	41463											
PHF11	51131	broad.mit.edu	37	chr13	50096243	50096243	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcaggcaatcatgtacaGgtaatttgacttagttttta	11	16	7	7	0	2	1	2	1	1	0	3	1	2	1	0	2	1	4	0	2	5	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:50096243G>T	uc001vdb.2	+	6	907	c.570G>T	c.(568-570)CAG>CAT	p.Q190H	PHF11_uc001vdc.2_Missense_Mutation_p.Q151H|PHF11_uc001vdd.2_RNA	NM_001040443	NP_001035533	Q9UIL8	PHF11_HUMAN	PHD finger protein 11 isoform a	190					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding				0		Lung NSC(96;2.1e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.38e-09)		ATCATGTACAGGTAATTTGAC	0.333													10	52					0.00136819	0.0014344	0.001368	1	0		T	50096243	T	T	50096243	3	4	58	1	0	0	0	0	1	0	0	0	11841	1014	35	5	592	5	PHF11	13	50096243	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	243754	50096243	65073635	474	41464											
INTS6	26512	broad.mit.edu	37	chr13	52004473	52004473	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagtcaacttgctcccatcaGtaattgtgataattattgct	11	16	6	8	0	2	1	2	1	0	0	3	1	3	1	1	0	3	3	1	0	5	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:52004473G>C	uc001vfk.2	-	4	1000	c.386C>G	c.(385-387)ACT>AGT	p.T129S	INTS6_uc001vfj.2_Missense_Mutation_p.T116S|INTS6_uc001vfl.2_5'UTR	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	129	VWFA.				snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)		GCTCCCATCAGTAATTGTGAT	0.363													27	170					0	0	0.00632	0	0		C	52004473	C	C	52004473	3	2	58	1	0	0	0	0	1	0	0	0	7798	1029	36	5	2337	5	INTS6	13	52004473	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1908230	52004473	63165405	475	41465											
PCDH9	5101	broad.mit.edu	37	chr13	67800090	67800090	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacggtgacgaagatcacaAcaatgaccaccatggcaccg	15	4	10	12	3	1	3	1	2	0	1	1	5	1	3	3	2	2	1	3	2	4	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:67800090A>G	uc001vik.2	-	2	3175	c.2483T>C	c.(2482-2484)GTT>GCT	p.V828A	PCDH9_uc001vil.2_Missense_Mutation_p.V828A|PCDH9_uc010thl.1_Missense_Mutation_p.V828A|PCDH9_uc001vin.3_Missense_Mutation_p.V828A	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	828	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GAAGATCACAACAATGACCAC	0.517													27	118					0	0	0.003954	0	0		G	67800090	G	G	67800090	3	3	58	1	0	0	0	0	1	0	0	0	11537	43	2	3	1246	3	PCDH9	13	67800090	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	15795617	67800090	47369788	476	41466											
LMO7	4008	broad.mit.edu	37	chr13	76416988	76416988	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atctttttctatcttttaggCctgttgattcctatgatata	8	21	5	7	0	3	2	0	2	3	0	4	2	4	2	2	1	0	1	2	1	5	10			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:76416988C>A	uc001vjv.2	+	22	4094	c.3334C>A	c.(3334-3336)CCT>ACT	p.P1112T	LMO7_uc010thv.1_Missense_Mutation_p.P1063T|LMO7_uc001vjt.1_Missense_Mutation_p.P1011T|LMO7_uc010thw.1_Missense_Mutation_p.P989T|LMO7_uc001vjw.1_Missense_Mutation_p.P1018T	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	1397						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		ATCTTTTAGGCCTGTTGATTC	0.333													6	76					8.12818e-05	8.67212e-05	0.001984	1	0		A	76416988	A	A	76416988	3	1	58	1	0	0	0	0	1	0	0	0	8872	753	26	5	4291	5	LMO7	13	76416988	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	8616898	76416988	38752890	477	41467											
SCEL	8796	broad.mit.edu	37	chr13	78133954	78133954	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagagatgaaaattacggTagggtggtgctcaaccgaca	13	8	13	7	2	1	2	1	1	0	1	1	4	1	2	1	3	4	3	1	3	5	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:78133954T>C	uc001vki.2	+	4	347	c.177T>C	c.(175-177)GGT>GGC	p.G59G	SCEL_uc001vkj.2_Silent_p.G59G|SCEL_uc010thx.1_Silent_p.G59G	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	59					embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		AAAATTACGGTAGGGTGGTGC	0.423													17	86					0	0	0.007413	0	0		C	78133954	C	C	78133954	2	2	58	1	0	0	0	0	0	0	0	1	13913	1625	57	3		3	SCEL	13	78133954	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1716966	78133954	37035924	478	41468											
RNF219	79596	broad.mit.edu	37	chr13	79190731	79190731	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagggacaaaggagtacaagGagctggaagatcataaagtt	18	6	13	4	0	1	1	1	0	0	1	1	5	1	5	0	4	2	3	0	4	7	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:79190731G>T	uc001vkw.1	-	6	1224	c.1165C>A	c.(1165-1167)CCT>ACT	p.P389T	uc001vku.1_RNA|RNF219_uc010afb.1_Missense_Mutation_p.P199T|RNF219_uc010afc.2_Intron	NM_024546	NP_078822	Q5W0B1	RN219_HUMAN	ring finger protein 219	389							zinc ion binding			large_intestine(2)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.0414)		GGAGTACAAGGAGCTGGAAGA	0.428													15	115					1.3612e-06	1.49768e-06	0.003163	1	0		T	79190731	T	T	79190731	3	4	58	1	0	0	0	0	1	0	0	0	13507	1174	41	5	1019	5	RNF219	13	79190731	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1056777	79190731	35979147	479	41469											
ABCC4	10257	broad.mit.edu	37	chr13	95839089	95839089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggcaattcttccatgcaCgctgaccagcccgtgacttg	9	10	9	13	2	1	2	0	2	1	0	2	2	2	2	3	1	2	3	3	1	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:95839089C>T	uc001vmd.3	-	11	1530	c.1411G>A	c.(1411-1413)GTG>ATG	p.V471M	ABCC4_uc010afk.2_Missense_Mutation_p.V471M|ABCC4_uc001vme.2_Missense_Mutation_p.V471M|ABCC4_uc010tih.1_Missense_Mutation_p.V396M|ABCC4_uc001vmf.2_Missense_Mutation_p.V428M|ABCC4_uc010afl.1_Missense_Mutation_p.V428M|ABCC4_uc010afm.1_Missense_Mutation_p.V484M	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	471	ABC transporter 1.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	CTTCCATGCACGCTGACCAGC	0.468													5	22					0	0	0.000602	0	0		T	95839089	T	T	95839089	3	4	58	1	0	0	0	0	1	0	0	0	55	536	19	1	2699	1	ABCC4	13	95839089	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	16648358	95839089	19330789	480	41470											
MYO16	23026	broad.mit.edu	37	chr13	109507879	109507879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctctatgagattcagaagcGctttgggaacaatcagatct	12	11	10	8	1	4	3	2	1	2	3	4	5	4	4	0	1	2	2	0	1	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:109507879G>A	uc001vqt.1	+	11	1397	c.1271G>A	c.(1270-1272)CGC>CAC	p.R424H	MYO16_uc010agk.1_Missense_Mutation_p.R446H|MYO16_uc001vqu.1_Missense_Mutation_p.R224H	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	424	Myosin head-like 1.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			ATTCAGAAGCGCTTTGGGAAC	0.478													5	33					0	0	0.000602	0	0		A	109507879	A	A	109507879	3	1	58	1	0	0	0	0	1	0	0	0	10082	1087	38	1	1309	1	MYO16	13	109507879	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	13668790	109507879	5661999	481	41471											
SOX1	6656	broad.mit.edu	37	chr13	112722172	112722172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggtcccgcgggcagcggcGcaagatggcccaggagaacc	8	3	17	13	4	0	2	0	0	0	2	1	3	1	2	3	5	2	2	3	5	2	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:112722172G>A	uc001vsb.1	+	1	260	c.200G>A	c.(199-201)CGC>CAC	p.R67H		NM_005986	NP_005977	O00570	SOX1_HUMAN	SRY (sex determining region Y)-box 1	67	HMG box.				chromatin organization	nucleus	core promoter sequence-specific DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	all_lung(23;0.000652)|Lung NSC(43;0.017)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	all_cancers(25;0.000331)|Lung NSC(25;0.0496)|all_lung(25;0.0831)|all_epithelial(44;0.0868)|Breast(118;0.231)		OV - Ovarian serous cystadenocarcinoma(48;0.132)		GGGCAGCGGCGCAAGATGGCC	0.552													5	26					0	0	0.000602	0	0		A	112722172	A	A	112722172	3	1	58	1	0	0	0	0	1	0	0	0	14965	1087	38	1	202	1	SOX1	13	112722172	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3214293	112722172	2447706	482	41472											
RNASE9	390443	broad.mit.edu	37	chr14	21025068	21025068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggtggtctggcgggccctGtactaaaaaatttttccaaa	11	12	10	8	1	1	0	0	0	1	0	2	0	2	0	2	4	1	1	2	4	6	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:21025068G>A	uc010aho.2	-	4	320	c.161C>T	c.(160-162)ACA>ATA	p.T54I	RNASE9_uc001vxq.3_Missense_Mutation_p.T59I|RNASE9_uc010ahp.2_Missense_Mutation_p.T59I|RNASE9_uc010ahq.2_Missense_Mutation_p.T59I|RNASE9_uc010ahr.2_Missense_Mutation_p.T59I|RNASE9_uc010ahs.2_Missense_Mutation_p.T54I|RNASE9_uc010aht.2_Missense_Mutation_p.T54I|RNASE9_uc010ahu.2_Missense_Mutation_p.T54I	NM_001110357	NP_001103827	P60153	RNAS9_HUMAN	ribonuclease, RNase A family, 9 (non-active)	54						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			ovary(2)	2	all_cancers(95;0.00238)		Epithelial(56;3.32e-06)|all cancers(55;2.46e-05)	GBM - Glioblastoma multiforme(265;0.0141)		GGCGGGCCCTGTACTAAAAAA	0.388													21	86					0	0	0.010504	0	0		A	21025068	A	A	21025068	3	1	58	1	0	0	0	0	1	0	0	0	13435	1377	48	4	460	4	RNASE9	14	21025068	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08		21025068	86324472	483	41473											
RNASE12	493901	broad.mit.edu	37	chr14	21058544	21058544	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaggcagggtatcttgtGccttcaatgagctgacagac	9	10	12	10	0	2	3	1	2	1	1	2	3	2	3	1	2	3	4	1	2	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:21058544G>A	uc001vxt.2	-	1	439	c.339C>T	c.(337-339)GGC>GGT	p.G113G	RNASE11_uc010ahv.2_5'Flank|RNASE11_uc010ahx.2_5'Flank|RNASE11_uc010ahw.2_5'Flank|RNASE11_uc001vxs.2_5'Flank|uc001vxu.1_5'Flank	NM_001024822	NP_001019993	Q5GAN4	RNS12_HUMAN	ribonuclease, RNase A family, 12 (non-active)	113						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(95;0.00238)		Epithelial(56;1.85e-06)|all cancers(55;1.46e-05)	GBM - Glioblastoma multiforme(265;0.013)		GGTATCTTGTGCCTTCAATGA	0.463													16	81					0	0	0.003163	0	0		A	21058544	A	A	21058544	2	1	58	1	0	0	0	0	0	0	0	1	13427	1306	46	2		2	RNASE12	14	21058544	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	33476	21058544	86290996	484	41474											
LRRC16B	90668	broad.mit.edu	37	chr14	24528103	24528103	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccatctgctcaccagggttCgactcggacctcctgacact	7	9	8	17	2	2	1	1	1	1	0	5	3	3	2	4	2	1	2	4	2	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:24528103C>T	uc001wlj.2	+	19	1636	c.1479C>T	c.(1477-1479)TTC>TTT	p.F493F		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	493	LRR 9.									ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		CACCAGGGTTCGACTCGGACC	0.597											OREG0022615	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	29					0	0	0.001168	0	0		T	24528103	T	T	24528103	2	4	58	1	0	0	0	0	0	0	0	1	8990	883	31	1		1	LRRC16B	14	24528103	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3469559	24528103	82821437	485	41475											
LRRC16B	90668	broad.mit.edu	37	chr14	24530829	24530829	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgtgccccggaacttcAtccgaggggcactgctggag	7	8	13	13	2	2	0	2	0	0	0	3	3	3	2	3	4	3	2	3	4	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:24530829A>G	uc001wlj.2	+	27	2585	c.2428A>G	c.(2428-2430)ATC>GTC	p.I810V	LRRC16B_uc001wlk.2_5'Flank	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	810										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		CCGGAACTTCATCCGAGGGGC	0.602													5	38					0	0	0.001168	0	0		G	24530829	G	G	24530829	3	3	58	1	0	0	0	0	1	0	0	0	8990	217	8	3	2534	3	LRRC16B	14	24530829	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	2726	24530829	82818711	486	41476											
HEATR5A	25938	broad.mit.edu	37	chr14	31856489	31856489	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtggctttagggtgtgaCggtgacgcaaggcttaggat	7	11	18	5	2	0	2	0	2	0	0	0	3	0	3	0	6	0	3	0	6	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:31856489C>T	uc001wrf.3	-	2	224	c.147G>A	c.(145-147)CCG>CCA	p.P49P	HEATR5A_uc010ami.2_5'UTR|HEATR5A_uc001wrg.1_5'UTR|HEATR5A_uc010tpk.1_Silent_p.P342P	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	336							binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		TAGGGTGTGACGGTGACGCAA	0.433													16	62					0	0	0.003163	0	0		T	31856489	T	T	31856489	2	4	58	1	0	0	0	0	0	0	0	1	7047	523	19	1		1	HEATR5A	14	31856489	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	7325660	31856489	75493051	487	41477											
ARHGAP5	394	broad.mit.edu	37	chr14	32563365	32563365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaaaccttgtttagtaaaGccaagtcatactatagaaga	17	11	6	7	0	1	2	1	0	0	2	1	2	1	2	2	0	3	2	2	0	10	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:32563365G>A	uc001wrl.2	+	2	3729	c.3490G>A	c.(3490-3492)GCC>ACC	p.A1164T	ARHGAP5_uc001wrm.2_Missense_Mutation_p.A1164T|ARHGAP5_uc001wrn.2_Missense_Mutation_p.A1164T|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	1164					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		GTTTAGTAAAGCCAAGTCATA	0.368													15	76					0	0	0.003163	0	0		A	32563365	A	A	32563365	3	1	58	1	0	0	0	0	1	0	0	0	886	971	34	2	3492	2	ARHGAP5	14	32563365	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	706876	32563365	74786175	488	41478											
INSM2	84684	broad.mit.edu	37	chr14	36005050	36005050	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctcgtgcaagcactgccCgtccactttttttagctctc	5	16	6	14	2	2	0	0	0	2	0	5	0	3	0	2	0	4	3	2	0	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:36005050C>T	uc001wth.1	+	1	1803	c.1592C>T	c.(1591-1593)CCG>CTG	p.P531L		NM_032594	NP_115983	Q96T92	INSM2_HUMAN	insulinoma-associated protein IA-6	531	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)|skin(1)	2	Breast(36;0.122)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(9;2.16e-07)|Lung(238;2.63e-07)|Epithelial(34;0.00145)|all cancers(34;0.00452)	GBM - Glioblastoma multiforme(112;0.0223)		AAGCACTGCCCGTCCACTTTT	0.627													13	47					0	0	0.00245	0	0		T	36005050	T	T	36005050	3	4	58	1	0	0	0	0	1	0	0	0	7788	652	23	1	1594	1	INSM2	14	36005050	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3441685	36005050	71344490	489	41479											
SEC23A	10484	broad.mit.edu	37	chr14	39509940	39509940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattaacactacttacctggCtgcctccatgttcagtgtca	10	13	6	12	0	2	0	2	0	0	0	3	0	3	0	3	1	4	2	3	1	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:39509940C>T	uc001wup.1	-	18	2361	c.2138G>A	c.(2137-2139)AGC>AAC	p.S713N	SEC23A_uc010tqa.1_Missense_Mutation_p.S599N|SEC23A_uc010tqb.1_Missense_Mutation_p.S684N	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	713					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		ACTTACCTGGCTGCCTCCATG	0.418													19	93					0	0	0.008871	0	0		T	39509940	T	T	39509940	3	4	58	1	0	0	0	0	1	0	0	0	14016	797	28	2	171	2	SEC23A	14	39509940	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3504890	39509940	67839600	490	41480											
SEC23A	10484	broad.mit.edu	37	chr14	39517897	39517897	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgaaaatctgaaggaacTtgggtcatctttatgatatt	12	16	8	5	0	4	3	1	3	3	0	4	4	4	4	0	2	1	0	0	2	6	6	rs148087647		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:39517897T>G	uc001wup.1	-	15	1919	c.1696A>C	c.(1696-1698)AGT>CGT	p.S566R	SEC23A_uc010tqa.1_Missense_Mutation_p.S428R|SEC23A_uc010tqb.1_Missense_Mutation_p.S537R	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	566					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		CTGAAGGAACTTGGGTCATCT	0.259													6	33					0	0	0.001168	0	0		G	39517897	G	G	39517897	3	3	58	1	0	0	0	0	1	0	0	0	14016	1609	56	5	625	5	SEC23A	14	39517897	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	7957	39517897	67831643	491	41481											
FSCB	84075	broad.mit.edu	37	chr14	44974445	44974445	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctcttctgcagtggtctcTtcacctgatggaggctgaag	6	12	12	11	0	4	2	1	2	3	0	5	3	4	3	2	3	1	2	2	3	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:44974445T>G	uc001wvn.2	-	1	2055	c.1746A>C	c.(1744-1746)GAA>GAC	p.E582D		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	582	Ala-rich.					cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		CAGTGGTCTCTTCACCTGATG	0.532													7	28					0	0	0.001984	0	0		G	44974445	G	G	44974445	3	3	58	1	0	0	0	0	1	0	0	0	6080	1606	56	5	735	5	FSCB	14	44974445	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	5456548	44974445	62375095	492	41482											
FAM179B	23116	broad.mit.edu	37	chr14	45478227	45478227	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaatgaagctcgacttgAcgatggactccccgtctctg	8	10	10	13	3	1	2	0	2	1	0	4	5	2	3	2	1	2	2	2	1	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:45478227A>G	uc001wvv.2	+	6	3225	c.3016A>G	c.(3016-3018)ACG>GCG	p.T1006A	FAM179B_uc001wvw.2_Missense_Mutation_p.T1006A|FAM179B_uc010anc.2_Intron	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	1006	Ser-rich.						binding			skin(2)|upper_aerodigestive_tract(1)	3						GCTCGACTTGACGATGGACTC	0.438													17	60					0	0	0.006122	0	0		G	45478227	G	G	45478227	3	3	58	1	0	0	0	0	1	0	0	0	5517	275	10	3	3038	3	FAM179B	14	45478227	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	503782	45478227	61871313	493	41483											
FANCM	57697	broad.mit.edu	37	chr14	45628389	45628389	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaagaaattgcagaaatgcTttcacagcatcagccaatta	16	10	6	9	0	3	2	3	0	0	2	3	2	3	2	1	0	4	3	1	0	5	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:45628389T>G	uc001wwd.3	+	9	1586	c.1487T>G	c.(1486-1488)CTT>CGT	p.L496R	FANCM_uc001wwc.2_Missense_Mutation_p.L496R|FANCM_uc010anf.2_Missense_Mutation_p.L470R|FANCM_uc001wwe.3_Missense_Mutation_p.L101R	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	496	Helicase C-terminal.				DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						GCAGAAATGCTTTCACAGCAT	0.398								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				9	26					0	0	0.006214	0	0		G	45628389	G	G	45628389	3	3	58	1	0	0	0	0	1	0	0	0	5685	1609	56	5	1521	5	FANCM	14	45628389	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	150162	45628389	61721151	494	41484											
SPTB	6710	broad.mit.edu	37	chr14	65261234	65261234	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgatggccttcactttGtccccttggatggcgatgtc	4	13	13	11	2	1	1	1	1	0	0	3	3	2	2	3	4	0	0	3	4	0	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:65261234G>T	uc001xht.2	-	12	1800	c.1746C>A	c.(1744-1746)GAC>GAA	p.D582E	SPTB_uc001xhr.2_Missense_Mutation_p.D582E|SPTB_uc001xhs.2_Missense_Mutation_p.D582E|SPTB_uc001xhu.2_Missense_Mutation_p.D582E	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	582	Spectrin 3.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		CCTTCACTTTGTCCCCTTGGA	0.542													25	132					3.6726e-16	4.26871e-16	0.003954	1	0		T	65261234	T	T	65261234	3	4	58	1	0	0	0	0	1	0	0	0	15143	1368	48	5	5405	5	SPTB	14	65261234	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	19632845	65261234	42088306	495	41485											
GALNTL1	57452	broad.mit.edu	37	chr14	69791495	69791495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccgttccaccctgctgcGcacagtgaagaggtaagtcc	8	7	12	14	2	0	2	0	1	0	1	2	2	2	2	4	2	2	4	4	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:69791495G>A	uc010aqu.1	+	3	515	c.422G>A	c.(421-423)CGC>CAC	p.R141H	GALNTL1_uc001xla.1_Missense_Mutation_p.R141H|GALNTL1_uc001xlb.1_Missense_Mutation_p.R141H	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	141	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		ACCCTGCTGCGCACAGTGAAG	0.602													6	36					0	0	0.001984	0	0		A	69791495	A	A	69791495	3	1	58	1	0	0	0	0	1	0	0	0	6236	1087	38	1	432	1	GALNTL1	14	69791495	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4530261	69791495	37558045	496	41486											
PAPLN	89932	broad.mit.edu	37	chr14	73730934	73730934	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaggcacaggctgcagttCgacggatccctgatcatcca	9	8	10	14	2	2	1	2	1	0	0	5	3	4	2	2	3	1	4	2	3	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:73730934C>T	uc010ttx.1	+	20	3040	c.2877C>T	c.(2875-2877)TTC>TTT	p.F959F	PAPLN_uc001xnw.3_Silent_p.F932F|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Silent_p.F943F|PAPLN_uc010arm.2_Silent_p.F158F|PAPLN_uc010arn.2_Silent_p.F159F	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	959	Ig-like C2-type 1.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GGCTGCAGTTCGACGGATCCC	0.652													14	63					0	0	0.001855	0	0		T	73730934	T	T	73730934	2	4	58	1	0	0	0	0	0	0	0	1	11447	883	31	1		1	PAPLN	14	73730934	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3939439	73730934	33618606	497	41487											
TRIP11	9321	broad.mit.edu	37	chr14	92472015	92472015	+	Missense_Mutation	SNP	G	T	T																															tatttccatgtctttcttttGattgagtttaattaaatgct																										TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:92472015G>T	uc001xzy.2	-	11	3093	c.2305C>A	c.(2305-2307)CAA>AAA	p.Q769K	TRIP11_uc010auf.1_Missense_Mutation_p.Q505K	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	769	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		TCTTTCTTTTGATTGAGTTTA	0.333			T	PDGFRB	AML								31	143					1.75199e-13	2.03076e-13	0.007291	1	0		T	92472015	T	T	92472015	3	4	58	1	0	0	0	0	1	0	0	0	16581	1299	45	5	3678	5	TRIP11	14	92472015	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	18741081	92472015	14877525	498	41488	83	2									
TRIP11	9321	broad.mit.edu	37	chr14	92472025	92472025	+	Silent	SNP	A	G	G																															tctttcttttgattgagtttAattaaatgctcatgttccag																										TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:92472025A>G	uc001xzy.2	-	11	3083	c.2295T>C	c.(2293-2295)ATT>ATC	p.I765I	TRIP11_uc010auf.1_Silent_p.I501I	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	765	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		GATTGAGTTTAATTAAATGCT	0.338			T	PDGFRB	AML								35	156					0	0	0.002836	0	0		G	92472025	G	G	92472025	2	3	58	1	0	0	0	0	0	0	0	1	16581	358	13	3		3	TRIP11	14	92472025	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	10	92472025	14877515	499	41489	83	2									
GOLGA5	9950	broad.mit.edu	37	chr14	93264325	93264325	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttgggagccaaacccaCggtagttaatcagtcctctt	9	13	8	11	1	3	0	1	0	2	0	4	1	4	1	3	2	2	2	3	2	3	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:93264325C>T	uc001yaz.1	+	2	725	c.543C>T	c.(541-543)CAC>CAT	p.H181H		NM_005113	NP_005104	Q8TBA6	GOGA5_HUMAN	Golgi autoantigen, golgin subfamily a, 5	181	Cytoplasmic (Potential).				Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		GCCAAACCCACGGTAGTTAAT	0.398			T	RET	papillary thyroid								16	110					0	0	0.00499	0	0		T	93264325	T	T	93264325	2	4	58	1	0	0	0	0	0	0	0	1	6571	550	19	1		1	GOLGA5	14	93264325	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	792300	93264325	14085215	500	41490											
ITPK1	3705	broad.mit.edu	37	chr14	93483104	93483104	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagcttgtggatgatgaCgtccagggggccctgctcct	6	10	14	11	1	1	2	1	2	0	0	3	3	3	3	3	3	2	2	3	3	0	1	rs143953605	byFrequency	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:93483104C>A	uc001ybg.2	-	4	452	c.163G>T	c.(163-165)GTC>TTC	p.V55F	ITPK1_uc001ybe.2_Missense_Mutation_p.V55F|ITPK1_uc001ybf.2_5'UTR|ITPK1_uc001ybh.2_Missense_Mutation_p.V55F	NM_014216	NP_055031	Q13572	ITPK1_HUMAN	inositol 1,3,4-triphosphate 5/6 kinase isoform	55					blood coagulation|inositol trisphosphate metabolic process|signal transduction	cytosol	ATP binding|hydrolase activity|inositol tetrakisphosphate 1-kinase activity|inositol-1,3,4-trisphosphate 5/6-kinase activity|isomerase activity|ligase activity|magnesium ion binding				0		all_cancers(154;0.077)|all_epithelial(191;0.247)		Epithelial(152;0.124)|all cancers(159;0.169)		TGGATGATGACGTCCAGGGGG	0.582													10	66					2.17888e-05	2.34841e-05	0.006214	1	0		A	93483104	A	A	93483104	3	1	58	1	0	0	0	0	1	0	0	0	7932	536	19	5	1161	5	ITPK1	14	93483104	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	218779	93483104	13866436	501	41491											
BAG5	9529	broad.mit.edu	37	chr14	104026975	104026975	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cggaaggatgtgcatcctcgGaaagcggcagggaaggctgc	10	5	17	9	3	0	0	0	0	0	0	2	4	1	4	1	6	3	3	1	6	3	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:104026975G>C	uc001yni.1	-	2	761	c.527C>G	c.(526-528)TCC>TGC	p.S176C	KLC1_uc010tyd.1_5'Flank|BAG5_uc001ynh.1_Missense_Mutation_p.S217C|BAG5_uc001ynj.1_Missense_Mutation_p.S176C|C14orf153_uc001ynl.3_5'Flank|C14orf153_uc010tyc.1_5'Flank	NM_004873	NP_004864	Q9UL15	BAG5_HUMAN	BCL2-associated athanogene 5 isoform b	176					apoptosis|negative regulation of protein refolding|negative regulation of ubiquitin-protein ligase activity|neuron death|protein folding|regulation of inclusion body assembly	inclusion body|perinuclear region of cytoplasm	chaperone binding|ubiquitin protein ligase binding			ovary(2)	2		Melanoma(154;0.155)	Epithelial(46;0.144)			TGCATCCTCGGAAAGCGGCAG	0.493													18	81					0	0	0.006122	0	0		C	104026975	C	C	104026975	3	2	58	1	0	0	0	0	1	0	0	0	1291	1174	41	5	820	5	BAG5	14	104026975	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	10543871	104026975	3322565	502	41492											
ZFYVE21	79038	broad.mit.edu	37	chr14	104194223	104194223	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaaggaggcggagttctaCgacaagcagctcaaagtgct	12	7	12	10	2	3	0	2	0	1	0	3	3	3	2	0	3	4	4	0	3	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:104194223C>T	uc001yoc.2	+	3	364	c.330C>T	c.(328-330)TAC>TAT	p.Y110Y	ZFYVE21_uc001yod.2_Silent_p.Y110Y	NM_024071	NP_076976	Q9BQ24	ZFY21_HUMAN	zinc finger, FYVE domain containing 21	110						cytoplasmic membrane-bounded vesicle|focal adhesion	metal ion binding				0		Melanoma(154;0.226)		Epithelial(152;0.245)		CGGAGTTCTACGACAAGCAGC	0.672													9	20					0	0	0.004482	0	0		T	104194223	T	T	104194223	2	4	58	1	0	0	0	0	0	0	0	1	17692	547	19	1		1	ZFYVE21	14	104194223	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	167248	104194223	3155317	503	41493											
PPP1R13B	23368	broad.mit.edu	37	chr14	104205315	104205315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccggactctcagcccgtGccccgtccgctccgagttgg	6	7	11	17	5	1	0	1	0	1	0	4	2	3	1	6	2	3	2	6	2	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:104205315G>A	uc001yof.1	-	13	2921	c.2638C>T	c.(2638-2640)CAC>TAC	p.H880Y	PPP1R13B_uc010awv.1_RNA	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	880					apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				CTCAGCCCGTGCCCCGTCCGC	0.552													12	107					0	0	0.000978	0	0		A	104205315	A	A	104205315	3	1	58	1	0	0	0	0	1	0	0	0	12379	1319	46	2	654	2	PPP1R13B	14	104205315	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	11092	104205315	3144225	504	41494											
MAGEL2	54551	broad.mit.edu	37	chr15	23890249	23890249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgggtggccttgccggagcGgcgtggcggctcgacggagg	3	5	21	12	7	0	0	0	0	0	0	1	3	0	2	3	8	2	1	3	8	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:23890249G>A	uc001ywj.3	-	1	927	c.832C>T	c.(832-834)CGC>TGC	p.R278C		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		TTGCCGGAGCGGCGTGGCGGC	0.652													14	43					0	0	0.00245	0	0		A	23890249	A	A	23890249	3	1	58	1	0	0	0	0	1	0	0	0	9207	1116	39	1	1112	1	MAGEL2	15	23890249	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08		23890249	78641143	505	41495											
UBE3A	7337	broad.mit.edu	37	chr15	25616247	25616247	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggcatcatcatcattcacTagatttcgactgttaaattc	12	15	5	9	1	4	1	4	0	0	1	6	2	4	1	0	1	0	2	0	1	3	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:25616247T>A	uc001zaq.2	-	4	1083	c.1083A>T	c.(1081-1083)CTA>CTT	p.L361L	uc001zae.2_Intron|UBE3A_uc001zar.2_Silent_p.L338L|UBE3A_uc001zas.2_Silent_p.L358L|UBE3A_uc001zat.2_Silent_p.L338L	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	361					brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		CATCATTCACTAGATTTCGAC	0.378													26	102					0	0	0.00333	0	0		A	25616247	A	A	25616247	2	1	58	1	0	0	0	0	0	0	0	1	16905	1509	53	5		5	UBE3A	15	25616247	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1725998	25616247	76915145	506	41496											
ATP10A	57194	broad.mit.edu	37	chr15	25953353	25953353	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccccactcactctcttggcGatgcacaaggtgcgcaggcc	7	7	10	17	2	2	0	1	0	1	0	3	1	2	0	3	3	2	2	3	3	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:25953353G>A	uc010ayu.2	-	11	2545	c.2439C>T	c.(2437-2439)ATC>ATT	p.I813I		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	813	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CTCTCTTGGCGATGCACAAGG	0.582													13	47					0	0	0.00245	0	0		A	25953353	A	A	25953353	2	1	58	1	0	0	0	0	0	0	0	1	1117	1048	37	1		1	ATP10A	15	25953353	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	337106	25953353	76578039	507	41497											
MAPKBP1	23005	broad.mit.edu	37	chr15	42105153	42105153	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgctgggccgctcagggCtgctgggagagctacggaac	6	7	16	12	2	1	1	1	0	0	1	1	3	1	2	2	4	5	5	2	4	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:42105153C>T	uc001zok.3	+	8	959	c.673C>T	c.(673-675)CTG>TTG	p.L225L	MAPKBP1_uc001zoj.3_Silent_p.L225L|MAPKBP1_uc010bcj.2_5'UTR|MAPKBP1_uc010bci.2_Silent_p.L225L|MAPKBP1_uc010udb.1_Silent_p.L113L|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_5'UTR	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	225										central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		CCGCTCAGGGCTGCTGGGAGA	0.607													5	48					0	0	0.000602	0	0		T	42105153	T	T	42105153	2	4	58	1	0	0	0	0	0	0	0	1	9310	796	28	2		2	MAPKBP1	15	42105153	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	16151800	42105153	60426239	508	41498											
PLA2G4F	255189	broad.mit.edu	37	chr15	42434768	42434768	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtacggttaaccagggggaAgtgcagcacaatgggggagc	11	5	18	7	1	0	0	0	0	0	0	0	2	0	2	1	6	5	4	1	6	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:42434768A>C	uc001zoz.2	-	19	2350	c.2287T>G	c.(2287-2289)TTC>GTC	p.F763V	PLA2G4F_uc010bcq.2_Missense_Mutation_p.F60V|PLA2G4F_uc001zoy.2_Missense_Mutation_p.F395V|PLA2G4F_uc010bcr.2_Missense_Mutation_p.F514V|PLA2G4F_uc001zpa.2_Missense_Mutation_p.F514V|PLA2G4F_uc010bcs.2_Missense_Mutation_p.F550V	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	763	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		ACCAGGGGGAAGTGCAGCACA	0.632													8	45					0	0	0.006214	0	0		C	42434768	C	C	42434768	3	2	58	1	0	0	0	0	1	0	0	0	12025	72	3	5	270	5	PLA2G4F	15	42434768	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	329615	42434768	60096624	509	41499											
VPS13C	54832	broad.mit.edu	37	chr15	62214654	62214654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccaatttttaatatttcctGaaaacttagactctgccaat	13	16	3	9	0	1	2	0	1	1	1	3	2	3	2	3	0	2	0	3	0	7	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:62214654G>A	uc002agz.2	-	54	6991	c.6917C>T	c.(6916-6918)TCA>TTA	p.S2306L	VPS13C_uc002aha.2_Missense_Mutation_p.S2263L|VPS13C_uc002ahb.1_Missense_Mutation_p.S2306L|VPS13C_uc002ahc.1_Missense_Mutation_p.S2263L	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2306					protein localization					ovary(2)	2						AATATTTCCTGAAAACTTAGA	0.393													14	95					0	0	0.003163	0	0		A	62214654	A	A	62214654	3	1	58	1	0	0	0	0	1	0	0	0	17217	1294	45	4	4500	4	VPS13C	15	62214654	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	19779886	62214654	40316738	510	41500											
CILP	8483	broad.mit.edu	37	chr15	65495770	65495770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgctctgcccagctctccGtgcttttgtctcagggttca	4	13	9	15	2	4	0	2	0	3	0	6	0	4	0	2	1	3	4	2	1	0	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:65495770G>A	uc002aon.2	-	7	1139	c.958C>T	c.(958-960)CGG>TGG	p.R320W		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	320	Ig-like C2-type.				negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						CCAGCTCTCCGTGCTTTTGTC	0.493													11	52					0	0	0.001368	0	0		A	65495770	A	A	65495770	3	1	58	1	0	0	0	0	1	0	0	0	3432	1144	40	1	2608	1	CILP	15	65495770	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3281116	65495770	37035622	511	41501											
ZWILCH	55055	broad.mit.edu	37	chr15	66829594	66829594	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caactgctgtaaagaacttaTatcaaaggtaagcaattttt	16	13	6	6	0	1	1	1	0	0	1	1	1	1	1	0	1	4	4	0	1	9	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:66829594T>C	uc002aqb.2	+	16	1813	c.1567T>C	c.(1567-1569)TAT>CAT	p.Y523H	ZWILCH_uc010bhu.1_Missense_Mutation_p.Y409H|ZWILCH_uc002aqa.2_Missense_Mutation_p.Y409H|ZWILCH_uc010bhv.2_Missense_Mutation_p.Y409H	NM_017975	NP_060445	Q9H900	ZWILC_HUMAN	Zwilch	523					cell division|mitotic cell cycle checkpoint|mitotic prometaphase	condensed chromosome kinetochore|cytosol	protein binding			ovary(1)	1						AAAGAACTTATATCAAAGGTA	0.204													7	49					0	0	0.001984	0	0		C	66829594	C	C	66829594	3	2	58	1	0	0	0	0	1	0	0	0	18273	1406	49	3	1629	3	ZWILCH	15	66829594	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1333824	66829594	35701798	512	41502											
PARP6	56965	broad.mit.edu	37	chr15	72552998	72552998	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctagtttgcctttcagcaTggagtcctgtatgataggga	9	13	11	8	0	1	1	1	1	0	0	2	3	2	3	3	2	2	3	3	2	3	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:72552998T>C	uc002auc.2	-	9	1036	c.577A>G	c.(577-579)ATG>GTG	p.M193V	PARP6_uc002aua.2_Missense_Mutation_p.M58V|PARP6_uc002aub.2_RNA|PARP6_uc002aud.3_RNA|PARP6_uc002auf.1_Missense_Mutation_p.M193V	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	193							NAD+ ADP-ribosyltransferase activity				0						CCTTTCAGCATGGAGTCCTGT	0.507													60	348					0	0	0.00361	0	0		C	72552998	C	C	72552998	3	2	58	1	0	0	0	0	1	0	0	0	11483	1464	51	3	1375	3	PARP6	15	72552998	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	5723404	72552998	29978394	513	41503											
SEMA7A	8482	broad.mit.edu	37	chr15	74703669	74703669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggacactccttgtgtggctCggctggattaatggattgca	7	12	14	8	1	0	0	0	0	0	0	2	3	1	3	1	5	1	3	1	5	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:74703669C>T	uc002axv.2	-	13	1646	c.1606G>A	c.(1606-1608)GAG>AAG	p.E536K	SEMA7A_uc010ulk.1_Missense_Mutation_p.E371K|SEMA7A_uc010ull.1_Missense_Mutation_p.E522K	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	536					axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						TTGTGTGGCTCGGCTGGATTA	0.582													6	25					0	0	0.001984	0	0		T	74703669	T	T	74703669	3	4	58	1	0	0	0	0	1	0	0	0	14068	893	31	1	402	1	SEMA7A	15	74703669	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2150671	74703669	27827723	514	41504											
SNX33	257364	broad.mit.edu	37	chr15	75942116	75942116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcgtggcccccagtggaagGccaatccccacccatttgcc	7	7	9	18	1	0	0	0	0	0	0	2	1	1	1	7	3	1	0	7	3	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:75942116G>A	uc002bau.2	+	1	769	c.673G>A	c.(673-675)GCC>ACC	p.A225T	IMP3_uc002bat.2_5'Flank|SNX33_uc002bav.2_5'UTR	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	225					cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1						CCAGTGGAAGGCCAATCCCCA	0.547													20	88					0	0	0.008871	0	0		A	75942116	A	A	75942116	3	1	58	1	0	0	0	0	1	0	0	0	14928	1203	42	2	675	2	SNX33	15	75942116	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1238447	75942116	26589276	515	41505											
FAH	2184	broad.mit.edu	37	chr15	80450431	80450431	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggataggtgtggccattggCgaccagatcctggacctcag	9	8	14	10	1	1	1	1	0	0	1	2	4	2	3	4	5	0	0	4	5	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:80450431C>T	uc002bfj.2	+	3	193	c.111C>T	c.(109-111)GGC>GGT	p.G37G	FAH_uc002bfk.1_Silent_p.G37G|FAH_uc002bfm.1_Silent_p.G37G|FAH_uc002bfn.1_5'UTR|FAH_uc010unl.1_Silent_p.G37G|FAH_uc002bfl.1_Silent_p.G37G	NM_000137	NP_000128	P16930	FAAA_HUMAN	fumarylacetoacetase	37					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	fumarylacetoacetase activity|metal ion binding				0						TGGCCATTGGCGACCAGATCC	0.527									Tyrosinemia_type_1				15	91					0	0	0.00245	0	0		T	80450431	T	T	80450431	2	4	58	1	0	0	0	0	0	0	0	1	5382	755	27	1		1	FAH	15	80450431	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4508315	80450431	22080961	516	41506											
KIAA1199	57214	broad.mit.edu	37	chr15	81201537	81201537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgattcacttccacctggccGgtgatgtagacgaaagggga	10	8	13	10	3	1	2	1	1	0	1	2	5	2	3	3	4	0	1	3	4	2	3	rs147046826		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:81201537G>A	uc002bfw.1	+	13	1947	c.1687G>A	c.(1687-1689)GGT>AGT	p.G563S	KIAA1199_uc010unn.1_Missense_Mutation_p.G563S	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	563				HFHLAGD -> TRPPTRP (in Ref. 5; CAB94391).						upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CCACCTGGCCGGTGATGTAGA	0.547													11	40					0	0	0.008291	0	0		A	81201537	A	A	81201537	3	1	58	1	0	0	0	0	1	0	0	0	8229	1116	39	1	1733	1	KIAA1199	15	81201537	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	751106	81201537	21329855	517	41507											
TMC3	342125	broad.mit.edu	37	chr15	81650758	81650758	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcacccccagagaccagacGgtgtccaggtcttgggcaga	9	6	12	14	1	2	3	1	0	1	3	3	4	3	3	4	3	0	1	4	3	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:81650758G>A	uc002bgo.1	-	6	585	c.585C>T	c.(583-585)ACC>ACT	p.T195T	TMC3_uc010blr.1_RNA|TMC3_uc002bgp.2_Silent_p.T195T	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	195	Helical; (Potential).					integral to membrane				ovary(1)|liver(1)	2						GAGACCAGACGGTGTCCAGGT	0.567													6	43					0	0	0.001168	0	0		A	81650758	A	A	81650758	2	1	58	1	0	0	0	0	0	0	0	1	16011	1103	39	1		1	TMC3	15	81650758	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	449221	81650758	20880634	518	41508											
BNC1	646	broad.mit.edu	37	chr15	83932879	83932879	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagtggacggcattgtagTggattttgagggtgcctttg	7	14	15	5	1	1	1	1	1	0	0	1	3	1	3	1	4	1	2	1	4	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:83932879T>G	uc002bjt.1	-	4	1212	c.1124A>C	c.(1123-1125)CAC>CCC	p.H375P	BNC1_uc010uos.1_Missense_Mutation_p.H363P	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	375	C2H2-type 1.				epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						GGCATTGTAGTGGATTTTGAG	0.502													18	96					0	0	0.008871	0	0		G	83932879	G	G	83932879	3	3	58	1	0	0	0	0	1	0	0	0	1475	1696	59	5	1868	5	BNC1	15	83932879	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	2282121	83932879	18598513	519	41509											
NTRK3	4916	broad.mit.edu	37	chr15	88679770	88679770	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggggtgatccagagccattGcaagtgataacagcgttgtc	11	9	13	8	1	0	3	0	2	0	1	2	3	1	3	2	2	4	2	2	2	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:88679770G>A	uc002bme.1	-	7	855	c.693C>T	c.(691-693)TGC>TGT	p.C231C	NTRK3_uc002bmh.2_Silent_p.C231C|NTRK3_uc002bmf.1_Silent_p.C231C|NTRK3_uc010upl.1_Silent_p.C133C|NTRK3_uc010bnh.1_Silent_p.C231C|NTRK3_uc002bmg.2_Silent_p.C231C	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	231	Ig-like C2-type 1.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			CAGAGCCATTGCAAGTGATAA	0.552			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			7	16					0	0	0.001984	0	0		A	88679770	A	A	88679770	2	1	58	1	0	0	0	0	0	0	0	1	10727	1311	46	2		2	NTRK3	15	88679770	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4746891	88679770	13851622	520	41510											
FBXL16	146330	broad.mit.edu	37	chr16	744686	744686	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gccaggaggtgcttcagcccGaagtcttgcacctgtcggga	7	8	14	12	2	2	0	1	0	1	0	3	3	2	2	3	3	3	2	3	3	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:744686G>C	uc002cjc.2	-	6	1442	c.1239C>G	c.(1237-1239)TTC>TTG	p.F413L	FBXL16_uc002cja.2_Missense_Mutation_p.S165W|FBXL16_uc002cjb.2_Missense_Mutation_p.F201L	NM_153350	NP_699181	Q8N461	FXL16_HUMAN	F-box and leucine-rich repeat protein 16	413	LRR 6.										0		Hepatocellular(780;0.0218)				GCTTCAGCCCGAAGTCTTGCA	0.652													3	6					0	0	0.004672	0	0		C	744686	C	C	744686	3	2	58	1	0	0	0	0	1	0	0	0	5726	1049	37	5	208	5	FBXL16	16	744686	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08		744686	89610067	521	41511											
NARFL	64428	broad.mit.edu	37	chr16	789666	789666	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaatttggaagtagctccCgtcatcttcaatgcgaatct	10	14	8	9	2	4	0	2	0	2	0	5	2	5	1	1	1	2	3	1	1	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:789666C>T	uc002cjr.2	-	2	151	c.139G>A	c.(139-141)GGG>AGG	p.G47R	NARFL_uc002cjp.2_5'Flank|NARFL_uc002cjq.2_5'UTR|NARFL_uc002cjs.2_5'UTR|NARFL_uc010brc.1_Missense_Mutation_p.G47R|NARFL_uc010uur.1_Missense_Mutation_p.G47R	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	47					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				AAGTAGCTCCCGTCATCTTCA	0.532													13	75					0	0	0.003163	0	0		T	789666	T	T	789666	3	4	58	1	0	0	0	0	1	0	0	0	10186	652	23	1	1331	1	NARFL	16	789666	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	44980	789666	89565087	522	41512											
CLCN7	1186	broad.mit.edu	37	chr16	1498392	1498392	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctccaccacggggaagccGttgtgattggacgccgtgtc	6	9	14	12	4	0	1	0	1	0	0	2	3	1	3	4	3	2	2	4	3	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:1498392G>A	uc002clv.2	-	21	2087	c.1977C>T	c.(1975-1977)AAC>AAT	p.N659N	CLCN7_uc010brq.1_Silent_p.N29N|CLCN7_uc002clu.2_Silent_p.N107N|CLCN7_uc002clw.2_Silent_p.N635N	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	659	Cytoplasmic (By similarity).|CBS 1.|ATP (By similarity).					integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				CGGGGAAGCCGTTGTGATTGG	0.627													4	25					0	0	0.009096	0	0		A	1498392	A	A	1498392	2	1	58	1	0	0	0	0	0	0	0	1	3471	1136	40	1		1	CLCN7	16	1498392	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	708726	1498392	88856361	523	41513											
CASKIN1	57524	broad.mit.edu	37	chr16	2239107	2239107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcggtggcgtctcccggccGgggctccagcagcgccgcac	3	5	16	17	6	1	0	0	0	1	0	4	0	2	0	4	5	2	3	4	5	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:2239107G>A	uc010bsg.1	-	6	570	c.538C>T	c.(538-540)CGG>TGG	p.R180W		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	180					signal transduction	cytoplasm				skin(2)	2						TCTCCCGGCCGGGGCTCCAGC	0.652													9	33					0	0	0.004482	0	0		A	2239107	A	A	2239107	3	1	58	1	0	0	0	0	1	0	0	0	2669	1115	39	1	3817	1	CASKIN1	16	2239107	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	740715	2239107	88115646	524	41514											
CASKIN1	57524	broad.mit.edu	37	chr16	2240163	2240163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggccgcatggtgcagaGccgagaagctggcacgtgca	9	5	16	11	3	1	2	1	0	0	2	1	3	1	2	2	3	4	5	2	3	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:2240163G>A	uc010bsg.1	-	3	187	c.155C>T	c.(154-156)GCT>GTT	p.A52V		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	52	ANK 1.				signal transduction	cytoplasm				skin(2)	2						ATGGTGCAGAGCCGAGAAGCT	0.647													9	16					0	0	0.006214	0	0		A	2240163	A	A	2240163	3	1	58	1	0	0	0	0	1	0	0	0	2669	971	34	2	4212	2	CASKIN1	16	2240163	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1056	2240163	88114590	525	41515											
NTN3	4917	broad.mit.edu	37	chr16	2522136	2522136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaccatggccgcagctgggCcccgctgggcttcttctcct	3	9	13	16	2	2	0	0	0	2	0	3	1	2	1	5	4	1	4	5	4	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:2522136C>T	uc002cqj.2	+	1	637	c.434C>T	c.(433-435)GCC>GTC	p.A145V		NM_006181	NP_006172	O00634	NET3_HUMAN	netrin 3 precursor	145	Laminin N-terminal.				axon guidance|muscle cell differentiation|positive regulation of muscle cell differentiation	proteinaceous extracellular matrix				central_nervous_system(1)	1						CGCAGCTGGGCCCCGCTGGGC	0.667													7	32					0	0	0.00308	0	0		T	2522136	T	T	2522136	3	4	58	1	0	0	0	0	1	0	0	0	10720	739	26	2	436	2	NTN3	16	2522136	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	281973	2522136	87832617	526	41516											
ADCY9	115	broad.mit.edu	37	chr16	4057518	4057518	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcacagctgcagcgagActccttggctctctgacccg	6	9	10	16	2	2	2	0	1	2	1	4	3	3	2	2	1	4	4	2	1	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:4057518A>T	uc002cvx.2	-	3	2274	c.1735T>A	c.(1735-1737)TCT>ACT	p.S579T		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	579	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						CTGCAGCGAGACTCCTTGGCT	0.527													18	47					0	0	0.006122	0	0		T	4057518	T	T	4057518	3	4	58	1	0	0	0	0	1	0	0	0	301	275	10	5	2362	5	ADCY9	16	4057518	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	1535382	4057518	86297235	527	41517											
TXNDC11	51061	broad.mit.edu	37	chr16	11794372	11794372	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtactaaggataccagtttcGcaagatgtttatttgtgata	12	15	9	5	1	0	2	0	1	0	1	1	3	0	3	1	1	2	4	1	1	6	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:11794372G>C	uc010buu.1	-	7	985	c.923C>G	c.(922-924)GCG>GGG	p.A308G	TXNDC11_uc002dbg.1_Missense_Mutation_p.A281G	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	308					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						TACCAGTTTCGCAAGATGTTT	0.333													18	42					0	0	0.010504	0	0		C	11794372	C	C	11794372	3	2	58	1	0	0	0	0	1	0	0	0	16818	1087	38	5	2062	5	TXNDC11	16	11794372	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	7736854	11794372	78560381	528	41518											
ABCC6	368	broad.mit.edu	37	chr16	16297439	16297439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccttcatgccactgccgcCtttccttttaaatgctattg	7	15	6	13	1	1	0	1	0	0	0	2	0	2	0	5	0	4	1	5	0	3	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:16297439C>T	uc002den.3	-	8	863	c.826G>A	c.(826-828)GGC>AGC	p.G276S	ABCC6_uc010bvo.2_RNA|ABCC6_uc010uzz.1_Missense_Mutation_p.G288S	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	276	Cytoplasmic (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		CCACTGCCGCCTTTCCTTTTA	0.582													12	37					0	0	0.001855	0	0		T	16297439	T	T	16297439	3	4	58	1	0	0	0	0	1	0	0	0	57	681	24	4	3781	4	ABCC6	16	16297439	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4503067	16297439	74057314	529	41519											
MVP	9961	broad.mit.edu	37	chr16	29845368	29845368	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagtgctgggaccgggaCggcaaggagagggtgacagg	11	3	21	6	2	0	2	0	1	0	1	0	6	0	5	1	7	1	2	1	7	2	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:29845368C>T	uc002dui.2	+	5	642	c.558C>T	c.(556-558)GAC>GAT	p.D186D	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010bzh.1_RNA|MVP_uc010vdz.1_Intron|MVP_uc002duj.2_Silent_p.D186D|MVP_uc010vea.1_Translation_Start_Site	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	186	MVP 4.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						GGGACCGGGACGGCAAGGAGA	0.647													7	27					0	0	0.001984	0	0		T	29845368	T	T	29845368	2	4	58	1	0	0	0	0	0	0	0	1	10014	535	19	1		1	MVP	16	29845368	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	13547929	29845368	60509385	530	41520											
ZNF267	10308	broad.mit.edu	37	chr16	31925888	31925888	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaggagacatgggagctgTgatcttgagaatttacattt	11	13	12	5	1	1	3	0	2	1	2	2	7	1	4	0	2	2	1	0	2	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:31925888T>C	uc002ecs.3	+	4	527	c.318T>C	c.(316-318)TGT>TGC	p.C106C		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	106					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						ATGGGAGCTGTGATCTTGAGA	0.378													9	48					0	0	0.004482	0	0		C	31925888	C	C	31925888	2	2	58	1	0	0	0	0	0	0	0	1	17831	1702	59	3		3	ZNF267	16	31925888	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	2080520	31925888	58428865	531	41521											
C16orf78	123970	broad.mit.edu	37	chr16	49433085	49433085	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acattcggaccttgctcaagTtgtgcaaggatgcaggaatg	11	10	12	8	1	1	0	1	0	0	0	2	3	1	3	1	3	3	4	1	3	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:49433085T>G	uc002efr.2	+	5	737	c.694T>G	c.(694-696)TTG>GTG	p.L232V		NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970	232										central_nervous_system(1)	1						CTTGCTCAAGTTGTGCAAGGA	0.483													12	63					0	0	0.000978	0	0		G	49433085	G	G	49433085	3	3	58	1	0	0	0	0	1	0	0	0	1838	1722	60	5	712	5	C16orf78	16	49433085	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	17507197	49433085	40921668	532	41522											
CDH11	1009	broad.mit.edu	37	chr16	65005503	65005503	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcggttgtctctgactgtgaAatttggattgtgaatgattt	8	18	11	4	1	1	4	0	4	1	0	3	5	1	5	0	2	0	1	0	2	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:65005503A>G	uc002eoi.2	-	11	2055	c.1621T>C	c.(1621-1623)TTC>CTC	p.F541L	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Missense_Mutation_p.F541L|CDH11_uc010vin.1_Missense_Mutation_p.F415L	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	541	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		CTGACTGTGAAATTTGGATTG	0.413			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			6	59					0	0	0.001168	0	0		G	65005503	G	G	65005503	3	3	58	1	0	0	0	0	1	0	0	0	3100	14	1	3	781	3	CDH11	16	65005503	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	15572418	65005503	25349250	533	41523											
NUTF2	10204	broad.mit.edu	37	chr16	67899125	67899125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatagaacccaactaggcgCaatttacgtaagtttccagc	13	10	8	10	2	0	2	0	1	0	1	1	2	1	2	2	1	4	3	2	1	7	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:67899125C>T	uc002eup.2	+	2	191	c.92C>T	c.(91-93)GCA>GTA	p.A31V	NUTF2_uc010vkf.1_Missense_Mutation_p.A31V	NM_005796	NP_005787	P61970	NTF2_HUMAN	nuclear transport factor 2	31	NTF2.				protein transport	cytosol|nuclear pore	protein binding|transporter activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00443)|Epithelial(162;0.0199)|all cancers(182;0.129)		CAACTAGGCGCAATTTACGTA	0.468													7	39					0	0	0.001984	0	0		T	67899125	T	T	67899125	3	4	58	1	0	0	0	0	1	0	0	0	10798	710	25	2	94	2	NUTF2	16	67899125	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2893622	67899125	22455628	534	41524											
EDC4	23644	broad.mit.edu	37	chr16	67917602	67917602	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatccagcagctggcatcTgaccttggcactcgaactga	9	9	9	14	1	2	2	1	2	1	0	4	3	3	2	2	2	3	4	2	2	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:67917602T>C	uc002eur.2	+	28	4147	c.3981T>C	c.(3979-3981)TCT>TCC	p.S1327S	EDC4_uc010cer.2_Silent_p.S946S|EDC4_uc002eus.2_Silent_p.S1057S|EDC4_uc002eut.1_3'UTR|NRN1L_uc002euu.2_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	1327					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		AGCTGGCATCTGACCTTGGCA	0.597											OREG0023890	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	121					0	0	0.002445	0	0		C	67917602	C	C	67917602	2	2	58	1	0	0	0	0	0	0	0	1	4914	1567	55	3		3	EDC4	16	67917602	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	18477	67917602	22437151	535	41525											
DHX38	9785	broad.mit.edu	37	chr16	72131582	72131582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgactcttcatagatgagcGggatagaagtaggcacagca	13	8	13	7	1	2	4	1	2	1	2	2	5	2	5	0	2	2	3	0	2	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:72131582G>A	uc002fcb.2	+	4	873	c.518G>A	c.(517-519)CGG>CAG	p.R173Q	DHX38_uc010vmp.1_Intron|DHX38_uc010cgn.1_Intron	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	173					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				ATAGATGAGCGGGATAGAAGT	0.502													3	16					0	0	0.004672	0	0		A	72131582	A	A	72131582	3	1	58	1	0	0	0	0	1	0	0	0	4517	1116	39	1	528	1	DHX38	16	72131582	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4213980	72131582	18223171	536	41526											
ZFHX3	463	broad.mit.edu	37	chr16	72829238	72829238	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gcagctctggctttggttgtCcttgcttttcttgggtttgg	1	19	13	8	0	2	0	0	0	2	0	3	0	3	0	1	4	2	6	1	4	0	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:72829238C>G	uc002fck.2	-	9	8016	c.7343G>C	c.(7342-7344)GGA>GCA	p.G2448A	ZFHX3_uc002fcl.2_Missense_Mutation_p.G1534A	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2448					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CTTTGGTTGTCCTTGCTTTTC	0.562													10	47					0	0	0.006214	0	0		G	72829238	G	G	72829238	3	3	58	1	0	0	0	0	1	0	0	0	17659	855	30	5	3776	5	ZFHX3	16	72829238	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	697656	72829238	17525515	537	41527											
ADAMTS18	170692	broad.mit.edu	37	chr16	77398116	77398116	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgagaatgtatgtggtgAcatttcccttgccatgcttt	7	16	10	8	0	0	2	0	2	0	1	1	3	1	2	2	1	2	2	2	1	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:77398116A>T	uc002ffc.3	-	5	1360	c.941T>A	c.(940-942)GTC>GAC	p.V314D	ADAMTS18_uc010chc.1_5'Flank|ADAMTS18_uc002ffe.1_Missense_Mutation_p.V10D|ADAMTS18_uc010vni.1_RNA	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	314	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						GTATGTGGTGACATTTCCCTT	0.458													25	66					0	0	0.00278	0	0		T	77398116	T	T	77398116	3	4	58	1	0	0	0	0	1	0	0	0	263	275	10	5	2800	5	ADAMTS18	16	77398116	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	4568878	77398116	12956637	538	41528											
CDH13	1012	broad.mit.edu	37	chr16	83159001	83159001	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccttttaggatatatttaaAtttgcaagaacttctcctgt	11	17	5	8	0	1	1	0	0	1	1	2	2	1	2	2	1	2	1	2	1	7	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:83159001A>T	uc002fgx.2	+	4	498	c.378A>T	c.(376-378)AAA>AAT	p.K126N	CDH13_uc010chh.2_Missense_Mutation_p.K126N|CDH13_uc010vns.1_Missense_Mutation_p.K173N|CDH13_uc010vnt.1_5'UTR|CDH13_uc010vnu.1_Intron	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	126					adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		ATATATTTAAATTTGCAAGAA	0.383													4	16					0	0	0.000602	0	0		T	83159001	T	T	83159001	3	4	58	1	0	0	0	0	1	0	0	0	3102	98	4	5	392	5	CDH13	16	83159001	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	5760885	83159001	7195752	539	41529											
NECAB2	54550	broad.mit.edu	37	chr16	84030847	84030847	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggttcgacctgcagcagcgCctgtcagatgaagatggcac	9	8	13	11	2	1	3	1	1	0	2	2	4	1	3	2	2	3	4	2	2	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:84030847C>T	uc002fhd.2	+	9	839	c.822C>T	c.(820-822)CGC>CGT	p.R274R	NECAB2_uc002fhe.2_Silent_p.R191R	NM_019065	NP_061938	Q7Z6G3	NECA2_HUMAN	neuronal calcium-binding protein 2	274					antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity|protein binding			ovary(2)	2						TGCAGCAGCGCCTGTCAGATG	0.602													8	27					0	0	0.008291	0	0		T	84030847	T	T	84030847	2	4	58	1	0	0	0	0	0	0	0	1	10324	726	26	2		2	NECAB2	16	84030847	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	871846	84030847	6323906	540	41530											
FOXL1	2300	broad.mit.edu	37	chr16	86612679	86612679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccgcgagaaagggcggcCgggcaagggcagctactgga	9	2	18	12	4	0	1	0	0	0	1	0	3	0	2	3	5	2	3	3	5	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:86612679C>T	uc002fjr.2	+	1	565	c.350C>T	c.(349-351)CCG>CTG	p.P117L		NM_005250	NP_005241	Q12952	FOXL1_HUMAN	forkhead box L1	117	Fork-head.				brain development|camera-type eye development|cartilage development|embryo development|forelimb morphogenesis|heart development|organ morphogenesis|pattern specification process|proteoglycan biosynthetic process|regulation of sequence-specific DNA binding transcription factor activity|regulation of Wnt receptor signaling pathway|visceral mesoderm-endoderm interaction involved in midgut development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1						AAAGGGCGGCCGGGCAAGGGC	0.667													22	78					0	0	0.001882	0	0		T	86612679	T	T	86612679	3	4	58	1	0	0	0	0	1	0	0	0	6030	652	23	1	352	1	FOXL1	16	86612679	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2581832	86612679	3742074	541	41531											
VPS53	55275	broad.mit.edu	37	chr17	534812	534812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtgccctgggaaggaaacGcttcttcaaaatctgccagg	10	9	12	10	1	3	0	1	0	2	0	3	2	3	2	2	4	3	1	2	4	4	2	rs138639431	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:534812G>A	uc002frn.2	-	8	812	c.665C>T	c.(664-666)GCG>GTG	p.A222V	VPS53_uc002frk.2_5'UTR|VPS53_uc010cjo.1_Missense_Mutation_p.A222V|VPS53_uc002frl.2_RNA|VPS53_uc002frm.2_Missense_Mutation_p.A193V|VPS53_uc002fro.2_Missense_Mutation_p.A24V|VPS53_uc010cjp.1_Intron	NM_018289	NP_060759	Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 isoform 2	222					protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)		GGAAGGAAACGCTTCTTCAAA	0.502													5	41					0	0	0.000602	0	0		A	534812	A	A	534812	3	1	58	1	0	0	0	0	1	0	0	0	17241	1087	38	1	1908	1	VPS53	17	534812	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08		534812	80660398	542	41532											
TRPV3	162514	broad.mit.edu	37	chr17	3458106	3458106	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggcagcaactctcttGcccatgagaggcaccatctc	8	8	11	14	0	2	1	0	1	2	1	4	2	2	1	2	3	3	3	2	3	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:3458106G>C	uc002fvt.1	-	2	361	c.39C>G	c.(37-39)GGC>GGG	p.G13G	TRPV3_uc010vrj.1_5'UTR|TRPV3_uc010vrk.1_RNA|TRPV3_uc002fvr.2_Silent_p.G13G|TRPV3_uc002fvu.2_Silent_p.G13G	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	13	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	CAACTCTCTTGCCCATGAGAG	0.622													8	20					0	0	0.00308	0	0		C	3458106	C	C	3458106	2	2	58	1	0	0	0	0	0	0	0	1	16623	1306	46	5		5	TRPV3	17	3458106	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2923294	3458106	77737104	543	41533											
FAM64A	54478	broad.mit.edu	37	chr17	6350927	6350927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacccggctgtctggagccGcccctgcccactcagccgca	5	5	11	20	3	2	0	1	0	1	0	2	1	2	1	6	2	3	3	6	2	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:6350927G>A	uc002gcw.1	+	3	488	c.439G>A	c.(439-441)GCC>ACC	p.A147T	FAM64A_uc002gct.1_Missense_Mutation_p.A147T|FAM64A_uc002gcu.1_Missense_Mutation_p.A147T|FAM64A_uc002gcv.1_Missense_Mutation_p.A178T|FAM64A_uc002gcx.1_Missense_Mutation_p.A147T|FAM64A_uc002gcy.1_RNA|FAM64A_uc002gcz.1_RNA|FAM64A_uc002gda.1_Missense_Mutation_p.A147T|FAM64A_uc002gdb.1_Missense_Mutation_p.A147T	NM_019013	NP_061886	Q9BSJ6	FA64A_HUMAN	family with sequence similarity 64, member A	147						nucleolus	protein binding				0				COAD - Colon adenocarcinoma(228;0.141)		GTCTGGAGCCGCCCCTGCCCA	0.652													4	23					0	0	0.009096	0	0		A	6350927	A	A	6350927	3	1	58	1	0	0	0	0	1	0	0	0	5612	1087	38	1	445	1	FAM64A	17	6350927	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2892821	6350927	74844283	544	41534											
TEKT1	83659	broad.mit.edu	37	chr17	6716254	6716254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttgcgcagatcattggCtgtctgggacaggattcgat	7	12	13	9	2	2	1	1	0	1	1	3	4	2	3	0	3	2	3	0	3	0	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:6716254C>T	uc002gdt.2	-	6	858	c.748G>A	c.(748-750)GCC>ACC	p.A250T	TEKT1_uc010vth.1_Missense_Mutation_p.A104T	NM_053285	NP_444515	Q969V4	TEKT1_HUMAN	tektin 1	250					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|skin(1)	2		Myeloproliferative disorder(207;0.0255)				AGATCATTGGCTGTCTGGGAC	0.542													24	88					0	0	0.004656	0	0		T	6716254	T	T	6716254	3	4	58	1	0	0	0	0	1	0	0	0	15777	797	28	2	520	2	TEKT1	17	6716254	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	365327	6716254	74478956	545	41535											
TEKT1	83659	broad.mit.edu	37	chr17	6716369	6716369	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccagtcttccagactcacGgagctgaaacagacctcacg	13	6	8	14	2	3	3	2	1	1	2	4	4	4	4	3	1	3	1	3	1	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:6716369G>A	uc002gdt.2	-	6	743	c.633C>T	c.(631-633)TCC>TCT	p.S211S	TEKT1_uc010vth.1_Silent_p.S65S	NM_053285	NP_444515	Q969V4	TEKT1_HUMAN	tektin 1	211					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|skin(1)	2		Myeloproliferative disorder(207;0.0255)				CCAGACTCACGGAGCTGAAAC	0.542													8	42					0	0	0.00308	0	0		A	6716369	A	A	6716369	2	1	58	1	0	0	0	0	0	0	0	1	15777	1103	39	1		1	TEKT1	17	6716369	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	115	6716369	74478841	546	41536											
KDM6B	23135	broad.mit.edu	37	chr17	7754383	7754383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctggtggaagcgagtggcGaacacaccgtggaagttcgc	9	6	15	11	4	0	0	0	0	0	0	1	4	0	2	2	4	2	1	2	4	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:7754383G>A	uc002giw.1	+	14	4094	c.3718G>A	c.(3718-3720)GAA>AAA	p.E1240K	KDM6B_uc002gix.2_Missense_Mutation_p.E542K	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	1240					inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						AGCGAGTGGCGAACACACCGT	0.627													4	18					0	0	0.009096	0	0		A	7754383	A	A	7754383	3	1	58	1	0	0	0	0	1	0	0	0	8154	1059	37	1	3760	1	KDM6B	17	7754383	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1038014	7754383	73440827	547	41537											
GUCY2D	3000	broad.mit.edu	37	chr17	7917215	7917215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaagtggtgcagagggtgCggagcccccctccactgtgt	7	7	15	12	1	0	2	0	0	0	2	1	3	1	3	4	3	3	1	4	3	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:7917215C>T	uc002gjt.2	+	12	2355	c.2281C>T	c.(2281-2283)CGG>TGG	p.R761W		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	761	Protein kinase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				GCAGAGGGTGCGGAGCCCCCC	0.622													14	53					0	0	0.001855	0	0		T	7917215	T	T	7917215	3	4	58	1	0	0	0	0	1	0	0	0	6913	759	27	1	2323	1	GUCY2D	17	7917215	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	162832	7917215	73277995	548	41538											
MYH1	4619	broad.mit.edu	37	chr17	10402102	10402102	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcaggtcacagtcatggCgggaggactgcagggcatgt	9	6	17	9	1	2	0	2	0	0	0	2	2	2	2	0	5	2	4	0	5	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:10402102C>T	uc002gmo.2	-	30	4116	c.4022G>A	c.(4021-4023)CGC>CAC	p.R1341H	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1341	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						ACAGTCATGGCGGGAGGACTG	0.502													13	69					0	0	0.003163	0	0		T	10402102	T	T	10402102	3	4	58	1	0	0	0	0	1	0	0	0	10047	768	27	1	1841	1	MYH1	17	10402102	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2484887	10402102	70793108	549	41539											
SREBF1	6720	broad.mit.edu	37	chr17	17723594	17723594	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagaaagcgggcatggaCgggtacatcttcaatggagt	11	7	17	6	2	2	1	1	0	1	1	2	4	2	3	0	6	2	2	0	6	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:17723594C>T	uc002gru.1	-	2	527	c.333G>A	c.(331-333)CCG>CCA	p.P111P	SREBF1_uc002grp.1_5'Flank|SREBF1_uc002grq.1_5'UTR|SREBF1_uc002grr.1_5'UTR|SREBF1_uc002grs.1_Silent_p.P87P|SREBF1_uc002grt.1_Silent_p.P141P|SREBF1_uc010cpp.1_Silent_p.P87P|SREBF1_uc010cpq.1_Silent_p.P111P	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	111	Pro/Ser-rich.|Cytoplasmic (Potential).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						CGGGCATGGACGGGTACATCT	0.652													7	50					0	0	0.006214	0	0		T	17723594	T	T	17723594	2	4	58	1	0	0	0	0	0	0	0	1	15166	523	19	1		1	SREBF1	17	17723594	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	7321492	17723594	63471616	550	41540											
SMCR8	140775	broad.mit.edu	37	chr17	18220056	18220056	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccaagtgttttgacaagaAgttgaagaccttggaggagc	13	9	12	7	0	0	4	0	2	0	2	0	6	0	6	2	2	1	2	2	2	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:18220056A>C	uc002gsy.3	+	1	1463	c.953A>C	c.(952-954)AAG>ACG	p.K318T		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	318										central_nervous_system(1)	1						TTTGACAAGAAGTTGAAGACC	0.483													11	57					0	0	0.008291	0	0		C	18220056	C	C	18220056	3	2	58	1	0	0	0	0	1	0	0	0	14817	72	3	5	955	5	SMCR8	17	18220056	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	496462	18220056	62975154	551	41541											
USP22	23326	broad.mit.edu	37	chr17	20921343	20921343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcagacaggaagaagtccCgcagaagtggcgtgtgggtc	10	7	16	8	2	1	3	1	0	0	3	3	4	2	4	1	3	0	1	1	3	3	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:20921343C>T	uc002gym.3	-	5	806	c.602G>A	c.(601-603)CGG>CAG	p.R201Q	USP22_uc002gyn.3_Missense_Mutation_p.R189Q|USP22_uc002gyl.3_Missense_Mutation_p.R96Q	NM_015276	NP_056091	Q9UPT9	UBP22_HUMAN	ubiquitin thiolesterase 22	201					cell cycle|embryo development|histone deubiquitination|histone H4 acetylation|histone ubiquitination|positive regulation of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1						GAAGAAGTCCCGCAGAAGTGG	0.567													13	65					0	0	0.004007	0	0		T	20921343	T	T	20921343	3	4	58	1	0	0	0	0	1	0	0	0	17080	652	23	1	1011	1	USP22	17	20921343	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2701287	20921343	60273867	552	41542											
POLDIP2	26073	broad.mit.edu	37	chr17	26675234	26675234	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcaaagtgggagccatcaGgtctttcaaagcggaacgtg	12	8	12	9	2	4	0	3	0	1	0	4	2	4	2	1	3	3	0	1	3	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:26675234G>C	uc002haz.2	-	14	1148	c.1016C>G	c.(1015-1017)CCT>CGT	p.P339R	POLDIP2_uc010wag.1_RNA	NM_015584	NP_056399	Q9Y2S7	PDIP2_HUMAN	DNA polymerase delta interacting protein 2	339	ApaG.					mitochondrial nucleoid|nucleus					0	all_lung(13;0.000354)|Lung NSC(42;0.00115)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		GGAGCCATCAGGTCTTTCAAA	0.542													5	29					0	0	0.000602	0	0		C	26675234	C	C	26675234	3	2	58	1	0	0	0	0	1	0	0	0	12213	1000	35	5	94	5	POLDIP2	17	26675234	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	5753891	26675234	54519976	553	41543											
MYO18A	399687	broad.mit.edu	37	chr17	27413999	27413999	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggcctccttcctggcaagCtcgcccatctcctccttggt	3	12	8	18	2	1	0	0	0	1	0	7	0	4	0	6	3	1	2	6	3	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:27413999C>G	uc002hdt.1	-	38	5825	c.5667G>C	c.(5665-5667)GAG>GAC	p.E1889D	MYO18A_uc010wbc.1_Missense_Mutation_p.E1422D|MYO18A_uc002hds.2_Missense_Mutation_p.E1431D|MYO18A_uc010csa.1_Missense_Mutation_p.E1852D|MYO18A_uc002hdu.1_Missense_Mutation_p.E1889D	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	1889	Potential.			E -> G (in Ref. 3; CAI45931).	anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			TCCTGGCAAGCTCGCCCATCT	0.642													6	23					0	0	0.001984	0	0		G	27413999	G	G	27413999	3	3	58	1	0	0	0	0	1	0	0	0	10083	796	28	5	517	5	MYO18A	17	27413999	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	738765	27413999	53781211	554	41544											
MYO18A	399687	broad.mit.edu	37	chr17	27442109	27442109	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagtgagtgctggctggacTtgagagccctggatagggac	9	8	17	7	0	0	3	0	2	0	2	0	7	0	6	1	4	2	2	1	4	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:27442109T>A	uc002hdt.1	-	14	2485	c.2327A>T	c.(2326-2328)AAG>ATG	p.K776M	MYO18A_uc010wbc.1_Missense_Mutation_p.K318M|MYO18A_uc002hds.2_Missense_Mutation_p.K318M|MYO18A_uc010csa.1_Missense_Mutation_p.K776M|MYO18A_uc002hdu.1_Missense_Mutation_p.K776M|MYO18A_uc010wbd.1_Missense_Mutation_p.K445M	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	776	Myosin head-like.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CTGGCTGGACTTGAGAGCCCT	0.652													6	8					0	0	0.001984	0	0		A	27442109	A	A	27442109	3	1	58	1	0	0	0	0	1	0	0	0	10083	1609	56	5	3953	5	MYO18A	17	27442109	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	28110	27442109	53753101	555	41545											
SSH2	85464	broad.mit.edu	37	chr17	27958633	27958633	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcactgccactggagagaggGctctcctgactttcttccca	7	11	9	14	0	3	2	1	1	2	1	5	4	4	3	3	2	1	1	3	2	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:27958633G>A	uc002heo.1	-	15	3498	c.3498C>T	c.(3496-3498)AGC>AGT	p.S1166S	SSH2_uc010wbh.1_Silent_p.S1193S	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1166					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TGGAGAGAGGGCTCTCCTGAC	0.517													10	55					0	0	0.008291	0	0		A	27958633	A	A	27958633	2	1	58	1	0	0	0	0	0	0	0	1	15210	1194	42	2		2	SSH2	17	27958633	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	516524	27958633	53236577	556	41546											
ZNF207	7756	broad.mit.edu	37	chr17	30685633	30685633	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagacatggatgaaagaCgacgacttcttgaacagaaa	20	6	9	6	2	1	5	0	2	1	3	1	8	1	6	0	1	1	0	0	1	5	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:30685633C>G	uc002hhh.3	+	3	428	c.280C>G	c.(280-282)CGA>GGA	p.R94G	ZNF207_uc002hhj.3_Missense_Mutation_p.R94G|ZNF207_uc002hhi.3_Missense_Mutation_p.R94G|ZNF207_uc010csz.2_Missense_Mutation_p.R97G|ZNF207_uc002hhk.1_Missense_Mutation_p.R94G|ZNF207_uc002hhl.1_5'Flank	NM_003457	NP_003448	O43670	ZN207_HUMAN	zinc finger protein 207 isoform a	94						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			GGATGAAAGACGACGACTTCT	0.269													18	75					0	0	0.008871	0	0		G	30685633	G	G	30685633	3	3	58	1	0	0	0	0	1	0	0	0	17790	528	19	5	290	5	ZNF207	17	30685633	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2727000	30685633	50509577	557	41547											
LIG3	3980	broad.mit.edu	37	chr17	33323671	33323671	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatgtcagcttgatggacAggtgagttggctagcatctt	9	13	13	6	0	2	3	1	3	1	0	2	4	2	4	0	3	2	4	0	3	1	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:33323671A>T	uc002hik.1	+	11	1930	c.1822A>T	c.(1822-1824)AGA>TGA	p.R608*	LIG3_uc002hij.2_Nonsense_Mutation_p.R608*	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	608					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	CTTGATGGACAGGTGAGTTGG	0.443								Other_BER_factors					19	122					0	0	0.008871	0	0		T	33323671	T	T	33323671	4	4	58	1	0	0	0	0	0	1	0	0	8798	202	7	5	1860	5	LIG3	17	33323671	Nonsense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	2638038	33323671	47871539	558	41548											
RFFL	117584	broad.mit.edu	37	chr17	33338995	33338995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatgcaagctctcaggaccGgaagacatgcacagctcgga	12	5	12	12	3	1	1	1	0	1	1	3	5	1	4	1	3	4	4	1	3	2	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:33338995G>A	uc002hin.1	-	7	1257	c.1084C>T	c.(1084-1086)CGG>TGG	p.R362W	RFFL_uc002hiq.2_Missense_Mutation_p.R271W|RFFL_uc002him.1_Missense_Mutation_p.R354W|RFFL_uc010cti.1_Missense_Mutation_p.R368W|RFFL_uc002hip.1_Missense_Mutation_p.R326W|RFFL_uc002hio.1_Missense_Mutation_p.R362W	NM_001017368	NP_001017368	Q8WZ73	RFFL_HUMAN	rififylin	362					apoptosis	membrane	ligase activity|zinc ion binding				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		TCTCAGGACCGGAAGACATGC	0.542													6	56					0	0	0.00308	0	0		A	33338995	A	A	33338995	3	1	58	1	0	0	0	0	1	0	0	0	13275	1115	39	1	11	1	RFFL	17	33338995	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	15324	33338995	47856215	559	41549											
KRTAP9-4	85280	broad.mit.edu	37	chr17	39406320	39406320	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actgtctgcctgcctggttgCctaaaccagagctgtggctc	6	11	11	13	0	1	1	0	0	1	1	2	1	1	1	4	2	5	3	4	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:39406320C>A	uc002hwi.2	+	1	382	c.348C>A	c.(346-348)TGC>TGA	p.C116*	KRTAP9-9_uc010wfq.1_Intron	NM_033191	NP_149461	Q9BYQ2	KRA94_HUMAN	keratin associated protein 9-4	116	15 X 5 AA repeats of C-C-[RQVGE]-[SPTN]- [TASPF].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			TGCCTGGTTGCCTAAACCAGA	0.612													62	181					1.80625e-27	2.12279e-27	0.00361	1	0		A	39406320	A	A	39406320	4	1	58	1	0	0	0	0	0	1	0	0	8591	747	26	5	350	5	KRTAP9-4	17	39406320	Nonsense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	6067325	39406320	41788890	560	41550											
KRT31	3881	broad.mit.edu	37	chr17	39551161	39551161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcacactccagccgggcacGcacatccagcagcacctggt	9	5	9	18	2	1	0	1	0	0	0	3	0	3	0	4	2	3	4	4	2	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:39551161G>A	uc002hwn.2	-	6	1089	c.1036C>T	c.(1036-1038)CGT>TGT	p.R346C	KRT31_uc010cxn.2_Missense_Mutation_p.R346C	NM_002277	NP_002268	Q15323	K1H1_HUMAN	keratin 31	346	Coil 2.|Rod.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000496)				AGCCGGGCACGCACATCCAGC	0.592													24	130					0	0	0.003954	0	0		A	39551161	A	A	39551161	3	1	58	1	0	0	0	0	1	0	0	0	8483	1087	38	1	222	1	KRT31	17	39551161	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	144841	39551161	41644049	561	41551											
GPATCH8	23131	broad.mit.edu	37	chr17	42541896	42541896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccatgtttctggagtaagCggtgtccaatattatcctga	10	13	9	9	1	1	1	0	1	1	0	3	2	3	2	3	2	1	2	3	2	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:42541896C>T	uc002igw.1	-	3	201	c.137G>A	c.(136-138)CGC>CAC	p.R46H	GPATCH8_uc002igv.1_5'UTR|GPATCH8_uc010wiz.1_5'UTR	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	46	G-patch.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		CTGGAGTAAGCGGTGTCCAAT	0.393													60	120					0	0	0.00361	0	0		T	42541896	T	T	42541896	3	4	58	1	0	0	0	0	1	0	0	0	6609	768	27	1	4395	1	GPATCH8	17	42541896	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2990735	42541896	38653314	562	41552											
KIAA1267	284058	broad.mit.edu	37	chr17	44248449	44248449	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcactggcagcttttctcAaggcagcttcagcctttcga	7	13	8	13	1	3	0	3	0	2	0	6	1	3	0	1	2	3	4	1	2	1	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:44248449A>T	uc002ikb.2	-	1	1146	c.1061T>A	c.(1060-1062)TTG>TAG	p.L354*	KIAA1267_uc002ikc.2_Nonsense_Mutation_p.L354*|KIAA1267_uc002ikd.2_Nonsense_Mutation_p.L354*|KIAA1267_uc010dav.2_Nonsense_Mutation_p.L354*	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	354						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				AGCTTTTCTCAAGGCAGCTTC	0.463													12	146					0	0	0.000978	0	0		T	44248449	T	T	44248449	4	4	58	1	0	0	0	0	0	1	0	0	8235	131	5	5	2312	5	KIAA1267	17	44248449	Nonsense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	1706553	44248449	36946761	563	41553											
KIAA1267	284058	broad.mit.edu	37	chr17	44248642	44248642	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctcaatgtcagcctgtcGccgcagtaaagctgttatcc	8	11	9	13	2	2	0	2	0	1	0	5	0	3	0	3	0	2	5	3	0	4	2	rs149830411		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:44248642G>A	uc002ikb.2	-	1	953	c.868C>T	c.(868-870)CGA>TGA	p.R290*	KIAA1267_uc002ikc.2_Nonsense_Mutation_p.R290*|KIAA1267_uc002ikd.2_Nonsense_Mutation_p.R290*|KIAA1267_uc010dav.2_Nonsense_Mutation_p.R290*	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	290	Potential.					MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				TCAGCCTGTCGCCGCAGTAAA	0.488													7	109					0	0	0.001984	0	0		A	44248642	A	A	44248642	4	1	58	1	0	0	0	0	0	1	0	0	8235	1095	38	1	2505	1	KIAA1267	17	44248642	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	193	44248642	36946568	564	41554											
NSF	4905	broad.mit.edu	37	chr17	44827207	44827207	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggagatggaaatgcttaaCgctttcagcaccaccatcca	13	8	8	12	1	1	1	1	0	0	1	2	3	2	2	3	2	3	3	3	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:44827207C>T	uc002iku.2	+	18	2081	c.1977C>T	c.(1975-1977)AAC>AAT	p.N659N	NSF_uc010wke.1_Silent_p.N565N|NSF_uc010wkf.1_Silent_p.N565N|NSF_uc010wkg.1_Silent_p.N654N	NM_006178	NP_006169	P46459	NSF_HUMAN	vesicle-fusing ATPase	659					protein transport|synaptic transmission	cytosol	ATP binding|metal ion binding			ovary(1)	1		Melanoma(429;0.203)	BRCA - Breast invasive adenocarcinoma(9;0.0257)	BRCA - Breast invasive adenocarcinoma(366;0.241)		AAATGCTTAACGCTTTCAGCA	0.458													34	62					0	0	0.003271	0	0		T	44827207	T	T	44827207	2	4	58	1	0	0	0	0	0	0	0	1	10690	535	19	1		1	NSF	17	44827207	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	578565	44827207	36368003	565	41555											
WNT3	7473	broad.mit.edu	37	chr17	44846085	44846085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggcacggaagtcaggctgCgcccaccagcaggtcttcac	9	6	12	14	2	3	0	2	0	1	0	3	1	3	1	2	4	2	3	2	4	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:44846085C>T	uc002ikv.2	-	4	788	c.669G>A	c.(667-669)GCG>GCA	p.A223A		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	223					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			AGTCAGGCTGCGCCCACCAGC	0.602													21	47					0	0	0.010504	0	0		T	44846085	T	T	44846085	2	4	58	1	0	0	0	0	0	0	0	1	17414	755	27	1		1	WNT3	17	44846085	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	18878	44846085	36349125	566	41556											
PHB	5245	broad.mit.edu	37	chr17	47482484	47482484	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatcaggccatcccctgcaGtggccagtgagttggcaatc	8	8	12	13	1	1	1	1	1	0	0	3	2	2	1	4	3	1	3	4	3	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:47482484G>C	uc002iox.1	-	7	762	c.689C>G	c.(688-690)ACT>AGT	p.T230S		NM_002634	NP_002625	P35232	PHB_HUMAN	prohibitin	230					cellular response to interleukin-6|DNA replication|glucocorticoid receptor signaling pathway|histone deacetylation|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|progesterone receptor signaling pathway|regulation of apoptosis	integral to plasma membrane|mitochondrial inner membrane|nucleoplasm	histone deacetylase binding|transcription regulatory region DNA binding				0	all_cancers(4;2.62e-14)|Breast(4;4.21e-29)|all_epithelial(4;6.9e-18)		Epithelial(5;8.1e-06)|all cancers(6;7.71e-05)			ATCCCCTGCAGTGGCCAGTGA	0.592													3	21					0	0	0.004672	0	0		C	47482484	C	C	47482484	3	2	58	1	0	0	0	0	1	0	0	0	11833	1029	36	5	133	5	PHB	17	47482484	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2636399	47482484	33712726	567	41557											
C17orf71	55181	broad.mit.edu	37	chr17	57288479	57288479	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgttgctggaccaacttaGgagtcattgtactgtgaagg	10	13	12	6	0	1	1	1	1	0	0	1	3	1	3	1	3	3	3	1	3	5	5	rs148740401		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:57288479G>T	uc002ixi.2	+	1	1109	c.1067G>T	c.(1066-1068)AGG>ATG	p.R356M		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	356					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					GACCAACTTAGGAGTCATTGT	0.537													10	71					2.17888e-05	2.34841e-05	0.006214	1	0		T	57288479	T	T	57288479	3	4	58	1	0	0	0	0	1	0	0	0	1881	1000	35	5	1069	5	C17orf71	17	57288479	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	9805995	57288479	23906731	568	41558											
DCAF7	10238	broad.mit.edu	37	chr17	61660984	61660984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacacagcaccatcatttacGaagacccacagcatcaccca	16	5	4	16	1	2	1	2	0	0	1	2	2	2	1	3	0	4	2	3	0	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:61660984G>A	uc002jbc.2	+	6	866	c.649G>A	c.(649-651)GAA>AAA	p.E217K	DCAF7_uc002jbb.2_RNA|DCAF7_uc010wpn.1_Intron	NM_005828	NP_005819	P61962	DCAF7_HUMAN	WD-repeat protein	217					multicellular organismal development	CUL4 RING ubiquitin ligase complex|cytoplasm|nucleus	protein binding			ovary(1)	1						CATCATTTACGAAGACCCACA	0.592													5	48					0	0	0.000602	0	0		A	61660984	A	A	61660984	3	1	58	1	0	0	0	0	1	0	0	0	4278	1058	37	1	668	1	DCAF7	17	61660984	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4372505	61660984	19534226	569	41559											
MAP3K3	4215	broad.mit.edu	37	chr17	61770978	61770978	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagtatgaagctatggcCgccatcttcaagattgccac	11	9	10	11	1	2	3	1	1	1	2	2	3	2	3	3	1	2	3	3	1	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:61770978C>T	uc002jbg.2	+	16	2041	c.1722C>T	c.(1720-1722)GCC>GCT	p.A574A	MAP3K3_uc002jbe.2_Silent_p.A605A|MAP3K3_uc002jbf.2_Silent_p.A605A|MAP3K3_uc002jbh.2_Silent_p.A601A|MAP3K3_uc010wpo.1_Silent_p.A489A|MAP3K3_uc010wpp.1_Silent_p.A570A	NM_002401	NP_002392	Q99759	M3K3_HUMAN	mitogen-activated protein kinase kinase kinase 3	574	Protein kinase.				MAPKKK cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autophosphorylation	cytosol	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			lung(3)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)	6						AAGCTATGGCCGCCATCTTCA	0.582													18	72					0	0	0.006122	0	0		T	61770978	T	T	61770978	2	4	58	1	0	0	0	0	0	0	0	1	9269	639	23	1		1	MAP3K3	17	61770978	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	109994	61770978	19424232	570	41560											
FTSJ3	117246	broad.mit.edu	37	chr17	61899483	61899483	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttggcagatcggacagaaAtgtgtctgctgcactcatat	10	11	10	10	1	2	2	1	0	1	2	3	3	2	3	1	2	2	3	1	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:61899483A>G	uc002jbz.2	-	13	1414	c.1336T>C	c.(1336-1338)TTT>CTT	p.F446L	FTSJ3_uc002jca.2_Missense_Mutation_p.F446L	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	446					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						TCGGACAGAAATGTGTCTGCT	0.418													15	87					0	0	0.004007	0	0		G	61899483	G	G	61899483	3	3	58	1	0	0	0	0	1	0	0	0	6103	101	4	3	1239	3	FTSJ3	17	61899483	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	128505	61899483	19295727	571	41561											
BPTF	2186	broad.mit.edu	37	chr17	65924597	65924597	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccataagtggctcagttacaActggaaccaaaatggtacta	15	9	8	9	0	1	0	1	0	0	0	1	1	1	1	2	3	4	3	2	3	8	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:65924597A>T	uc002jgf.2	+	16	5939	c.5878A>T	c.(5878-5880)ACT>TCT	p.T1960S	BPTF_uc002jge.2_Missense_Mutation_p.T2086S	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2086					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			CTCAGTTACAACTGGAACCAA	0.433													7	52					0	0	0.001984	0	0		T	65924597	T	T	65924597	3	4	58	1	0	0	0	0	1	0	0	0	1498	43	2	5	6326	5	BPTF	17	65924597	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	4025114	65924597	15270613	572	41562											
WIPI1	55062	broad.mit.edu	37	chr17	66446986	66446986	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgtgactgactaccacCaccaggctgctggagaagag	10	9	12	10	0	0	4	0	2	0	2	0	5	0	4	3	2	2	2	3	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:66446986C>G	uc010dey.2	-	3	307	c.216G>C	c.(214-216)GTG>GTC	p.V72V	WIPI1_uc002jhd.3_RNA|WIPI1_uc010wqo.1_5'UTR|WIPI1_uc002jhe.3_RNA	NM_017983	NP_060453	Q5MNZ9	WIPI1_HUMAN	WD repeat domain, phosphoinositide interacting	72					macroautophagy|vesicle targeting, trans-Golgi to endosome	autophagic vacuole membrane|clathrin-coated vesicle|cytosol|endosome membrane|PAS complex|pre-autophagosomal structure membrane|trans-Golgi network	androgen receptor binding|estrogen receptor binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding				0						TGACTACCACCACCAGGCTGC	0.502													14	103					0	0	0.00245	0	0		G	66446986	G	G	66446986	2	3	58	1	0	0	0	0	0	0	0	1	17396	581	21	5		5	WIPI1	17	66446986	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	522389	66446986	14748224	573	41563											
CD300LB	124599	broad.mit.edu	37	chr17	72518885	72518885	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agatccatctctctaagtggCcatgtctttagtcagaggtt	9	14	9	9	0	4	2	1	0	3	2	6	2	5	2	2	2	0	1	2	2	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:72518885C>A	uc002jkx.2	-	4	722	c.709G>T	c.(709-711)GCC>TCC	p.A237S		NM_174892	NP_777552	A8K4G0	CLM7_HUMAN	CD300 molecule-like family member b	200	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)	1						CTCTAAGTGGCCATGTCTTTA	0.557													25	54					5.61819e-17	6.55714e-17	0.005443	1	0		A	72518885	A	A	72518885	3	1	58	1	0	0	0	0	1	0	0	0	3002	739	26	5	11	5	CD300LB	17	72518885	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	6071899	72518885	8676325	574	41564											
CD300LF	146722	broad.mit.edu	37	chr17	72700807	72700807	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacccactggttttaacaagGatcttgcagtcacgccaaat	12	10	8	11	1	2	0	1	0	1	0	2	2	2	1	2	2	2	2	2	2	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:72700807G>T	uc002jlg.2	-	2	295	c.192C>A	c.(190-192)ATC>ATA	p.I64I	RAB37_uc002jlc.2_Intron|RAB37_uc010dfu.2_Intron|RAB37_uc002jld.2_Intron|CD300LF_uc002jlf.2_Silent_p.I67I|CD300LF_uc010dfw.2_RNA|CD300LF_uc002jlh.2_Silent_p.I64I|CD300LF_uc002jli.2_Silent_p.I67I|CD300LF_uc010wra.1_Silent_p.I64I|CD300LF_uc002jlj.1_Silent_p.I67I	NM_139018	NP_620587	Q8TDQ1	CLM1_HUMAN	NK inhibitory receptor precursor	64	Ig-like V-type.|Extracellular (Potential).			I -> V (in Ref. 5; AAZ81566).		integral to membrane|plasma membrane	receptor activity			upper_aerodigestive_tract(1)	1						TTTTAACAAGGATCTTGCAGT	0.537													53	165					6.3091e-27	7.40443e-27	0.00361	1	0		T	72700807	T	T	72700807	2	4	58	1	0	0	0	0	0	0	0	1	3004	1164	41	5		5	CD300LF	17	72700807	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	181922	72700807	8494403	575	41565											
CASKIN2	57513	broad.mit.edu	37	chr17	73498180	73498180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccggcacttgggcctcCgcttaacagtgtctgattcc	5	12	9	15	2	2	1	0	1	2	0	5	1	4	1	4	2	1	2	4	2	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:73498180C>T	uc002joc.2	-	18	3525	c.2975G>A	c.(2974-2976)CGG>CAG	p.R992Q	CASKIN2_uc010wsc.1_Missense_Mutation_p.R910Q	NM_020753	NP_065804	Q8WXE0	CSKI2_HUMAN	cask-interacting protein 2 isoform a	992	Pro-rich.					cytoplasm				pancreas(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			CTTGGGCCTCCGCTTAACAGT	0.682													4	40					0	0	0.009096	0	0		T	73498180	T	T	73498180	3	4	58	1	0	0	0	0	1	0	0	0	2670	652	23	1	645	1	CASKIN2	17	73498180	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	797373	73498180	7697030	576	41566											
FBF1	85302	broad.mit.edu	37	chr17	73924169	73924169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgacccacctgcaggcttggGgtggttgggcagctctcctt	4	11	14	12	0	1	1	0	1	1	0	2	1	1	1	3	5	2	5	3	5	0	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:73924169G>A	uc002jqc.2	-	7	617	c.343C>T	c.(343-345)CCC>TCC	p.P115S	FBF1_uc002jqa.1_RNA|FBF1_uc010wsp.1_Missense_Mutation_p.P105S|FBF1_uc002jqd.1_Missense_Mutation_p.P115S	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1	115											0						GCAGGCTTGGGGTGGTTGGGC	0.537													14	29					0	0	0.00245	0	0		A	73924169	A	A	73924169	3	1	58	1	0	0	0	0	1	0	0	0	5709	1232	43	4	3150	4	FBF1	17	73924169	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	425989	73924169	7271041	577	41567											
CCDC40	55036	broad.mit.edu	37	chr17	78069165	78069165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacccaggccgaggggcagcGcaagatggacaggaaggcgc	11	1	17	12	3	0	1	0	0	0	1	0	4	0	3	2	6	1	2	2	6	2	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:78069165G>A	uc010dht.2	+	18	2963	c.2936G>A	c.(2935-2937)CGC>CAC	p.R979H	CCDC40_uc002jxm.3_Missense_Mutation_p.R762H|CCDC40_uc002jxn.3_Missense_Mutation_p.R375H	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	979					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GAGGGGCAGCGCAAGATGGAC	0.637													18	56					0	0	0.00499	0	0		A	78069165	A	A	78069165	3	1	58	1	0	0	0	0	1	0	0	0	2815	1087	38	1	3006	1	CCDC40	17	78069165	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4144996	78069165	3126045	578	41568											
RNF213	57674	broad.mit.edu	37	chr17	78358856	78358856	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggaagcagagctgaggctGgtaaagttcctgcctgagat	11	8	14	8	0	0	3	0	2	0	2	1	5	1	4	2	3	3	5	2	3	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:78358856G>T	uc002jyh.1	+	35	8782	c.8559G>T	c.(8557-8559)CTG>CTT	p.L2853L	uc002jyi.1_Intron|RNF213_uc010dhx.1_5'Flank	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			AGCTGAGGCTGGTAAAGTTCC	0.463													29	67					5.77227e-19	6.76501e-19	0.008361	1	0		T	78358856	T	T	78358856	2	4	58	1	0	0	0	0	0	0	0	1	13502	1335	47	5		5	RNF213	17	78358856	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	289691	78358856	2836354	579	41569											
AZI1	22994	broad.mit.edu	37	chr17	79173612	79173612	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggtccaagagggtcccCtcgcctgaccgctgccgctg	5	7	13	16	3	0	2	0	1	0	1	3	2	2	2	6	2	2	3	6	2	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:79173612C>A	uc002jzp.1	-	9	1130	c.930G>T	c.(928-930)GAG>GAT	p.E310D	AZI1_uc002jzm.1_5'Flank|AZI1_uc002jzn.1_Missense_Mutation_p.E310D|AZI1_uc002jzo.1_Missense_Mutation_p.E310D|AZI1_uc010wum.1_Missense_Mutation_p.E310D	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	310					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			AGAGGGTCCCCTCGCCTGACC	0.627													12	91					4.3838e-07	4.84858e-07	0.001855	1	0		A	79173612	A	A	79173612	3	1	58	1	0	0	0	0	1	0	0	0	1241	680	24	5	2384	5	AZI1	17	79173612	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	814756	79173612	2021598	580	41570											
SLC38A10	124565	broad.mit.edu	37	chr17	79220832	79220832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcacctgaagcaggacggCgtggtccagcatctccgccc	8	6	12	15	3	2	1	1	1	1	0	4	3	3	2	4	3	2	2	4	3	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:79220832C>T	uc002jzz.1	-	15	2470	c.2095G>A	c.(2095-2097)GCC>ACC	p.A699T	SLC38A10_uc002jzy.1_Missense_Mutation_p.A617T	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	699					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			AGCAGGACGGCGTGGTCCAGC	0.627													8	18					0	0	0.004482	0	0		T	79220832	T	T	79220832	3	4	58	1	0	0	0	0	1	0	0	0	14627	768	27	1	1272	1	SLC38A10	17	79220832	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	47220	79220832	1974378	581	41571											
NDC80	10403	broad.mit.edu	37	chr18	2595494	2595494	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagtactcagttgcagaCattgagcgaataaatcatga	16	9	9	7	1	2	4	2	2	0	2	2	5	2	4	0	0	3	3	0	0	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:2595494C>T	uc002kli.2	+	11	1277	c.1095C>T	c.(1093-1095)GAC>GAT	p.D365D		NM_006101	NP_006092	O14777	NDC80_HUMAN	kinetochore associated 2	365	Interaction with the N-terminus of CDCA1.|Interaction with PSMC2 and SMC1A.|Potential.|Interaction with NEK2 and ZWINT.|Interaction with SMC1A.				attachment of spindle microtubules to kinetochore|cell division|establishment of mitotic spindle orientation|mitotic prometaphase|mitotic sister chromatid segregation|mitotic spindle organization|phosphatidylinositol-mediated signaling	condensed nuclear chromosome outer kinetochore|cytosol|Ndc80 complex	protein binding			ovary(1)	1						CAGTTGCAGACATTGAGCGAA	0.363													7	58					0	0	0.00308	0	0		T	2595494	T	T	2595494	2	4	58	1	0	0	0	0	0	0	0	1	10261	477	17	4		4	NDC80	18	2595494	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08		2595494	75481754	582	41572											
TMEM200C	645369	broad.mit.edu	37	chr18	5892008	5892008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtatctggcttggggggcGgagtggatcctgctttctgg	3	12	19	7	1	2	0	0	0	2	0	3	2	3	2	1	8	1	3	1	8	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:5892008G>A	uc002kmx.1	-	1	96	c.55C>T	c.(55-57)CGC>TGC	p.R19C		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	19						integral to membrane					0						CTTGGGGGGCGGAGTGGATCC	0.607													5	20					0	0	0.001984	0	0		A	5892008	A	A	5892008	3	1	58	1	0	0	0	0	1	0	0	0	16150	1116	39	1	1814	1	TMEM200C	18	5892008	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3296514	5892008	72185240	583	41573											
LAMA1	284217	broad.mit.edu	37	chr18	6955431	6955431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaactggtgagcgccgggaaCgtactccagagctgcatcca	11	6	12	12	3	0	2	0	1	0	1	2	3	2	3	3	2	6	3	3	2	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:6955431C>T	uc002knm.2	-	57	8222	c.8128G>A	c.(8128-8130)GTT>ATT	p.V2710I	LAMA1_uc002knk.2_Missense_Mutation_p.V40I|LAMA1_uc002knl.2_Missense_Mutation_p.V163I|LAMA1_uc010wzj.1_Missense_Mutation_p.V2186I	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2710					axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCGCCGGGAACGTACTCCAGA	0.527													7	23					0	0	0.006214	0	0		T	6955431	T	T	6955431	3	4	58	1	0	0	0	0	1	0	0	0	8621	536	19	1	1127	1	LAMA1	18	6955431	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1063423	6955431	71121817	584	41574											
LAMA1	284217	broad.mit.edu	37	chr18	7024437	7024437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacagaccacttcatctcCatcattgaggtggcaggtgg	9	10	11	11	0	4	2	3	1	1	1	5	2	4	2	2	4	0	1	2	4	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:7024437C>T	uc002knm.2	-	18	2525	c.2431G>A	c.(2431-2433)GGA>AGA	p.G811R	LAMA1_uc010wzj.1_Missense_Mutation_p.G287R	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	811	Laminin EGF-like 7.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACTTCATCTCCATCATTGAGG	0.433													3	19					0	0	0.000602	0	0		T	7024437	T	T	7024437	3	4	58	1	0	0	0	0	1	0	0	0	8621	603	21	4	6980	4	LAMA1	18	7024437	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	69006	7024437	71052811	585	41575											
LAMA1	284217	broad.mit.edu	37	chr18	7049125	7049125	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttaggttcccggtggctaagGgtcatgagatctgcattgag	8	12	14	7	1	2	2	1	2	1	1	3	3	3	2	1	4	1	3	1	4	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:7049125G>A	uc002knm.2	-	5	814	c.720C>T	c.(718-720)ACC>ACT	p.T240T	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	240	Laminin N-terminal.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGTGGCTAAGGGTCATGAGAT	0.448													8	64					0	0	0.006214	0	0		A	7049125	A	A	7049125	2	1	58	1	0	0	0	0	0	0	0	1	8621	1219	43	4		4	LAMA1	18	7049125	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	24688	7049125	71028123	586	41576											
VAPA	9218	broad.mit.edu	37	chr18	9931887	9931887	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgtttcaaagtgaagactAcagcacctcgccggtactgt	10	11	10	10	2	1	2	1	1	0	1	2	2	1	2	2	1	3	3	2	1	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:9931887A>G	uc002kok.2	+	2	459	c.160A>G	c.(160-162)ACA>GCA	p.T54A	VAPA_uc002koj.2_Missense_Mutation_p.T54A	NM_194434	NP_919415	Q9P0L0	VAPA_HUMAN	vesicle-associated membrane protein-associated	54	Cytoplasmic (Potential).|MSP.				cell death|cellular membrane fusion|neuron projection development|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein localization in endoplasmic reticulum|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane|vesicle	protein heterodimerization activity|signal transducer activity|structural molecule activity				0						AGTGAAGACTACAGCACCTCG	0.403													9	61					0	0	0.004482	0	0		G	9931887	G	G	9931887	3	3	58	1	0	0	0	0	1	0	0	0	17147	391	14	3	166	3	VAPA	18	9931887	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	2882762	9931887	68145361	587	41577											
APCDD1	147495	broad.mit.edu	37	chr18	10487638	10487638	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccacagcctcactgctcaAcgtcttcaacgggaatgagt	10	8	10	13	2	4	1	3	1	1	0	4	2	4	2	2	2	4	1	2	2	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:10487638A>G	uc002kom.3	+	5	1502	c.1148A>G	c.(1147-1149)AAC>AGC	p.N383S		NM_153000	NP_694545	Q8J025	APCD1_HUMAN	adenomatosis polyposis coli down-regulated 1	383	Extracellular (Potential).				hair follicle development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to plasma membrane	Wnt-protein binding				0				READ - Rectum adenocarcinoma(15;0.08)		TCACTGCTCAACGTCTTCAAC	0.597													5	58					0	0	0.000602	0	0		G	10487638	G	G	10487638	3	3	58	1	0	0	0	0	1	0	0	0	765	43	2	3	1166	3	APCDD1	18	10487638	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	555751	10487638	67589610	588	41578											
RBBP8	5932	broad.mit.edu	37	chr18	20586340	20586340	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatagctcatggtgataaaCaagacaaagtcaagcagaaa	19	8	8	6	0	2	3	2	1	0	2	2	3	2	3	0	1	3	2	0	1	8	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:20586340C>G	uc002ktw.2	+	16	2633	c.2302C>G	c.(2302-2304)CAA>GAA	p.Q768E	RBBP8_uc002kty.2_Missense_Mutation_p.Q768E|RBBP8_uc002ktz.2_Missense_Mutation_p.Q768E|RBBP8_uc002kua.2_Missense_Mutation_p.Q773E|RBBP8_uc010xap.1_Missense_Mutation_p.Q106E	NM_002894	NP_002885	Q99708	COM1_HUMAN	retinoblastoma binding protein 8 isoform a	768					cell cycle checkpoint|DNA double-strand break processing involved in repair via single-strand annealing|meiosis|regulation of transcription from RNA polymerase II promoter	nucleus	damaged DNA binding|protein binding|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)|lung(1)|skin(1)	3	all_cancers(21;4.34e-05)|all_epithelial(16;8.3e-07)|Lung NSC(20;0.0107)|Colorectal(14;0.0202)|all_lung(20;0.0291)|Ovarian(20;0.19)		OV - Ovarian serous cystadenocarcinoma(1;0.00196)			TGGTGATAAACAAGACAAAGT	0.338								Direct_reversal_of_damage|Homologous_recombination					16	43					0	0	0.003163	0	0		G	20586340	G	G	20586340	3	3	58	1	0	0	0	0	1	0	0	0	13130	479	17	5	2360	5	RBBP8	18	20586340	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	10098702	20586340	57490908	589	41579											
DSG4	147409	broad.mit.edu	37	chr18	28979459	28979459	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaattatgtgcttggcacAtatacagccatagatttgga	12	14	9	6	0	0	2	0	1	0	1	0	3	0	3	1	2	3	2	1	2	5	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:28979459A>T	uc002kwq.2	+	9	1365	c.1230A>T	c.(1228-1230)ACA>ACT	p.T410T	DSG4_uc002kwr.2_Silent_p.T410T	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	410	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TGCTTGGCACATATACAGCCA	0.398													19	70					0	0	0.010504	0	0		T	28979459	T	T	28979459	2	4	58	1	0	0	0	0	0	0	0	1	4785	204	8	5		5	DSG4	18	28979459	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	8393119	28979459	49097789	590	41580											
DSG3	1830	broad.mit.edu	37	chr18	29038540	29038540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acataacagctatagtcgacCgggaggaaactccaagcttc	14	7	9	11	2	0	0	0	0	0	0	3	3	1	2	2	2	4	2	2	2	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:29038540C>T	uc002kws.2	+	4	458	c.349C>T	c.(349-351)CGG>TGG	p.R117W		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	117	Extracellular (Potential).|Cadherin 1.				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TATAGTCGACCGGGAGGAAAC	0.453													11	36					0	0	0.001368	0	0		T	29038540	T	T	29038540	3	4	58	1	0	0	0	0	1	0	0	0	4784	643	23	1	363	1	DSG3	18	29038540	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	59081	29038540	49038708	591	41581											
TTR	7276	broad.mit.edu	37	chr18	29178579	29178579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccgctacaccattgccGccctgctgagcccctactcc	5	7	7	22	3	0	1	0	1	0	0	1	1	1	1	8	0	5	2	8	0	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:29178579G>A	uc002kwx.3	+	4	521	c.385G>A	c.(385-387)GCC>ACC	p.A129T		NM_000371	NP_000362	P02766	TTHY_HUMAN	transthyretin precursor	129			A -> T (in HTDE; increased affinity for thyroxine).		transport	cytoplasm	hormone activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(10;0.00523)		Diclofenac(DB00586)|Diethylstilbestrol(DB00255)|Diflunisal(DB00861)|Dimethyl sulfoxide(DB01093)|Levothyroxine(DB00451)|Liothyronine(DB00279)	CACCATTGCCGCCCTGCTGAG	0.577													5	35					0	0	0.004482	0	0		A	29178579	A	A	29178579	3	1	58	1	0	0	0	0	1	0	0	0	16764	1087	38	1	399	1	TTR	18	29178579	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	140039	29178579	48898669	592	41582											
RNF125	54941	broad.mit.edu	37	chr18	29617149	29617149	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtccttattgccgggcatatCttccttcagaaggagttcca	8	13	9	11	1	2	1	1	0	1	1	5	2	5	2	4	2	1	2	4	2	3	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:29617149C>G	uc002kxf.1	+	2	617	c.235C>G	c.(235-237)CTT>GTT	p.L79V		NM_017831	NP_060301	Q96EQ8	RN125_HUMAN	ring finger protein 125	79					negative regulation of type I interferon production	intracellular	ligase activity|zinc ion binding				0						CCGGGCATATCTTCCTTCAGA	0.448													42	223					0	0	0.009718	0	0		G	29617149	G	G	29617149	3	3	58	1	0	0	0	0	1	0	0	0	13459	913	32	5	241	5	RNF125	18	29617149	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	438570	29617149	48460099	593	41583											
DSEL	92126	broad.mit.edu	37	chr18	65180002	65180002	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattatacctattcataaacTtatatgggatatatttaaaa	17	16	3	5	0	1	0	1	0	0	0	1	1	1	1	1	1	2	0	1	1	11	11			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:65180002T>C	uc002lke.1	-	2	3098	c.1874A>G	c.(1873-1875)AAG>AGG	p.K625R		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	615						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				ATTCATAAACTTATATGGGAT	0.348													11	55					0	0	0.008291	0	0		C	65180002	C	C	65180002	3	2	58	1	0	0	0	0	1	0	0	0	4781	1609	56	3	1798	3	DSEL	18	65180002	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	35562853	65180002	12897246	594	41584											
TCF3	6929	broad.mit.edu	37	chr19	1615428	1615428	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgatgtcacggacccgcaGccgctcccgggcgttattgg	5	9	14	13	5	1	1	1	1	0	0	2	2	2	2	3	3	1	4	3	3	1	3	rs1052768		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:1615428G>A	uc002ltr.2	-	18	1745	c.1678C>T	c.(1678-1680)CTG>TTG	p.L560L	TCF3_uc002ltn.2_Intron|TCF3_uc002lto.2_Silent_p.L321L|TCF3_uc002ltt.3_Intron|TCF3_uc002ltq.2_Silent_p.L564L|TCF3_uc002lts.1_Intron	NM_003200	NP_003191	P15923	TFE2_HUMAN	transcription factor 3 isoform E12	560	Basic motif.				B cell lineage commitment|B cell lineage commitment|G1 phase of mitotic cell cycle|immunoglobulin V(D)J recombination|muscle cell differentiation|positive regulation of B cell proliferation|positive regulation of cell cycle|positive regulation of muscle cell differentiation|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus|protein complex|transcription factor complex	bHLH transcription factor binding|DNA binding|E-box binding|identical protein binding|mitogen-activated protein kinase kinase kinase binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|vitamin D response element binding			lung(2)|breast(2)|ovary(1)|large_intestine(1)|skin(1)	7		Acute lymphoblastic leukemia(61;5.94e-12)|all_hematologic(61;1.27e-07)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGACCCGCAGCCGCTCCCGG	0.642			T	PBX1|HLF|TFPT	pre B-ALL								13	102					0	0	0.001855	0	0		A	1615428	A	A	1615428	2	1	58	1	0	0	0	0	0	0	0	1	15719	962	34	2		2	TCF3	19	1615428	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08		1615428	57513555	595	41585											
JSRP1	126306	broad.mit.edu	37	chr19	2252963	2252963	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttggcgggacccagggctcgGgcacacgtgcttggagtgct	5	8	17	11	3	0	0	0	0	0	0	1	2	0	2	1	5	2	4	1	5	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:2252963G>T	uc002lvi.1	-	5	511	c.476C>A	c.(475-477)CCC>CAC	p.P159H	JSRP1_uc002lvj.1_Missense_Mutation_p.P159H	NM_144616	NP_653217	Q96MG2	JSPR1_HUMAN	junctional sarcoplasmic reticulum protein 1	159	Pro-rich.					sarcoplasmic reticulum membrane				pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGGGCTCGGGCACACGTGC	0.682													3	9					0.004672	0.00482621	0.004672	1	0		T	2252963	T	T	2252963	3	4	58	1	0	0	0	0	1	0	0	0	7982	1232	43	5	527	5	JSRP1	19	2252963	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	637535	2252963	56876020	596	41586											
ZNF57	126295	broad.mit.edu	37	chr19	2917677	2917677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcttccagatcattccaagGtcatttgaggacgcacactg	10	11	8	12	1	3	2	2	1	1	1	5	3	5	3	2	2	0	1	2	2	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:2917677G>A	uc002lwr.2	+	4	1206	c.1058G>A	c.(1057-1059)GGT>GAT	p.G353D	ZNF57_uc010xha.1_Missense_Mutation_p.G321D	NM_173480	NP_775751	Q68EA5	ZNF57_HUMAN	zinc finger protein 57	353	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.00161)|STAD - Stomach adenocarcinoma(1328;0.18)		TCATTCCAAGGTCATTTGAGG	0.448													12	56					0	0	0.000978	0	0		A	2917677	A	A	2917677	3	1	58	1	0	0	0	0	1	0	0	0	18026	1261	44	4	1072	4	ZNF57	19	2917677	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	664714	2917677	56211306	597	41587											
CHAF1A	10036	broad.mit.edu	37	chr19	4409294	4409294	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttgaaggccattcagaaCgacaagttggcatttcctgg	10	12	11	8	1	1	2	1	1	0	1	2	3	2	2	2	3	1	3	2	3	3	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:4409294C>T	uc002mal.2	+	3	598	c.498C>T	c.(496-498)AAC>AAT	p.N166N		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	166	Binds to CBX1 chromo shadow domain.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		CCATTCAGAACGACAAGTTGG	0.527								Chromatin_Structure					13	69					0	0	0.001368	0	0		T	4409294	T	T	4409294	2	4	58	1	0	0	0	0	0	0	0	1	3314	535	19	1		1	CHAF1A	19	4409294	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1491617	4409294	54719689	598	41588											
LRG1	116844	broad.mit.edu	37	chr19	4538912	4538912	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccaggctgaggctgccaaCagcagcagcaggaacagagt	12	3	13	13	0	0	2	0	1	0	1	0	3	0	3	3	3	6	5	3	3	2	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:4538912C>A	uc002mau.2	-	2	95	c.84G>T	c.(82-84)CTG>CTT	p.L28L	PLIN5_uc002mat.1_Intron	NM_052972	NP_443204	P02750	A2GL_HUMAN	leucine-rich alpha-2-glycoprotein 1 precursor	28						extracellular region|membrane				ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGCTGCCAACAGCAGCAGCA	0.552													7	68					0.00307968	0.0032009	0.00308	1	0		A	4538912	A	A	4538912	2	1	58	1	0	0	0	0	0	0	0	1	8960	465	17	5		5	LRG1	19	4538912	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	129618	4538912	54590071	599	41589											
ZNF358	140467	broad.mit.edu	37	chr19	7585755	7585755	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttctcccactcgtggcActgtcagcccagccctccct	4	10	7	20	1	2	0	1	0	1	0	5	0	3	0	5	1	2	2	5	1	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:7585755A>G	uc002mgn.2	+	2	1797	c.1627A>G	c.(1627-1629)ACT>GCT	p.T543A	MCOLN1_uc010dvh.1_5'Flank|MCOLN1_uc002mgo.2_5'Flank|MCOLN1_uc002mgp.2_5'Flank	NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	543					embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						CACTCGTGGCACTGTCAGCCC	0.657													17	48					0	0	0.007413	0	0		G	7585755	G	G	7585755	3	3	58	1	0	0	0	0	1	0	0	0	17892	159	6	3	1629	3	ZNF358	19	7585755	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	3046843	7585755	51543228	600	41590											
MYO1F	4542	broad.mit.edu	37	chr19	8612926	8612926	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttggccgcccacctgctcGgccttcagggtaagttcgat	5	10	12	14	3	1	0	1	0	0	0	3	1	1	0	4	3	1	4	4	3	1	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:8612926G>A	uc002mkg.2	-	12	1377	c.1263C>T	c.(1261-1263)GCC>GCT	p.A421A	MYO1F_uc002mkh.2_3'UTR	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	421	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						CCACCTGCTCGGCCTTCAGGG	0.557													18	72					0	0	0.00499	0	0		A	8612926	A	A	8612926	2	1	58	1	0	0	0	0	0	0	0	1	10091	1103	39	1		1	MYO1F	19	8612926	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1027171	8612926	50516057	601	41591											
ZNF558	148156	broad.mit.edu	37	chr19	8932690	8932690	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgactcacccgtagccagcTtgtcaggagctcattaacca	10	9	8	14	1	3	1	3	1	0	0	3	2	3	2	3	1	4	3	3	1	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:8932690T>A	uc002mkn.1	-	2	339	c.109A>T	c.(109-111)AGC>TGC	p.S37C	ZNF558_uc010xkh.1_5'Flank|ZNF558_uc010dwg.1_Missense_Mutation_p.S37C	NM_144693	NP_653294	Q96NG5	ZN558_HUMAN	zinc finger protein 558	37					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1						CGTAGCCAGCTTGTCAGGAGC	0.537													17	91					0	0	0.002299	0	0		A	8932690	A	A	8932690	3	1	58	1	0	0	0	0	1	0	0	0	18014	1609	56	5	1119	5	ZNF558	19	8932690	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	319764	8932690	50196293	602	41592											
MUC16	94025	broad.mit.edu	37	chr19	9076901	9076901	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagatgaagtctgagatagAtgcccagcagtaggggcaat	13	7	15	6	0	1	4	0	2	1	3	1	6	1	4	1	3	2	3	1	3	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:9076901A>G	uc002mkp.2	-	3	10749	c.10545T>C	c.(10543-10545)CAT>CAC	p.H3515H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3516	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTGAGATAGATGCCCAGCAG	0.517													19	99					0	0	0.008871	0	0		G	9076901	G	G	9076901	2	3	58	1	0	0	0	0	0	0	0	1	9991	330	12	3		3	MUC16	19	9076901	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	144211	9076901	50052082	603	41593											
MUC16	94025	broad.mit.edu	37	chr19	9082878	9082878	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagggtcccctgttcctgaAgtggggactctgggttcatg	5	12	14	10	0	2	1	1	1	1	0	4	2	4	2	3	4	0	2	3	4	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:9082878A>C	uc002mkp.2	-	1	9141	c.8937T>G	c.(8935-8937)ACT>ACG	p.T2979T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2980	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGTTCCTGAAGTGGGGACTC	0.502													19	92					0	0	0.007413	0	0		C	9082878	C	C	9082878	2	2	58	1	0	0	0	0	0	0	0	1	9991	59	3	5		5	MUC16	19	9082878	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	5977	9082878	50046105	604	41594											
MUC16	94025	broad.mit.edu	37	chr19	9085752	9085752	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggatgtgctgcttccagaAgagactgaattctcatgggt	10	11	13	7	0	1	3	1	1	1	2	3	6	2	4	1	2	2	2	1	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:9085752A>G	uc002mkp.2	-	1	6267	c.6063T>C	c.(6061-6063)TCT>TCC	p.S2021S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2021	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGCTTCCAGAAGAGACTGAAT	0.468													12	75					0	0	0.000978	0	0		G	9085752	G	G	9085752	2	3	58	1	0	0	0	0	0	0	0	1	9991	59	3	3		3	MUC16	19	9085752	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	2874	9085752	50043231	605	41595											
ZNF121	7675	broad.mit.edu	37	chr19	9677679	9677679	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcatcacagtcataagtgTcccctgtattttcagttccc	9	14	5	13	0	4	0	4	0	0	0	6	0	6	0	3	0	0	2	3	0	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:9677679T>C	uc010xkp.1	-	4	342	c.110A>G	c.(109-111)GAC>GGC	p.D37G	ZNF121_uc010dwt.2_Missense_Mutation_p.D37G|ZNF121_uc010xkq.1_Missense_Mutation_p.D37G	NM_001008727	NP_001008727	P58317	ZN121_HUMAN	zinc finger protein 121	37					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GTCATAAGTGTCCCCTGTATT	0.438													13	44					0	0	0.001368	0	0		C	9677679	C	C	9677679	3	2	58	1	0	0	0	0	1	0	0	0	17744	1667	58	3	1066	3	ZNF121	19	9677679	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	591927	9677679	49451304	606	41596											
FBXL12	54850	broad.mit.edu	37	chr19	9921757	9921757	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtgggggagggcatttctgGggtgacgaggggaccctgca	7	7	20	7	1	1	1	0	1	1	0	1	4	1	3	1	7	1	2	1	7	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:9921757G>C	uc002mme.2	-	3	1038	c.796C>G	c.(796-798)CCA>GCA	p.P266A	FBXL12_uc002mmd.2_Missense_Mutation_p.P213A|FBXL12_uc002mmf.2_Missense_Mutation_p.P213A|FBXL12_uc002mmg.2_Missense_Mutation_p.P213A|FBXL12_uc002mmh.2_Missense_Mutation_p.P213A	NM_017703	NP_060173	Q9NXK8	FXL12_HUMAN	F-box and leucine-rich repeat protein 12	266	LRR 8.						protein binding			lung(1)|kidney(1)	2						GGCATTTCTGGGGTGACGAGG	0.662													3	18					0	0	0.004672	0	0		C	9921757	C	C	9921757	3	2	58	1	0	0	0	0	1	0	0	0	5722	1232	43	5	188	5	FBXL12	19	9921757	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	244078	9921757	49207226	607	41597											
DNMT1	1786	broad.mit.edu	37	chr19	10250779	10250779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtaggtgcgcgaattgaagCggttcatgccgctgaagccc	9	8	14	10	4	1	2	1	2	0	0	1	3	1	2	2	2	4	3	2	2	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:10250779C>T	uc002mng.2	-	32	3881	c.3701G>A	c.(3700-3702)CGC>CAC	p.R1234H	DNMT1_uc002mne.2_RNA|DNMT1_uc002mnf.2_Missense_Mutation_p.R158H|DNMT1_uc010xlc.1_Missense_Mutation_p.R1250H|DNMT1_uc002mnh.2_Missense_Mutation_p.R1129H|DNMT1_uc010xld.1_Missense_Mutation_p.R1234H	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	1234	Catalytic.|Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	CGAATTGAAGCGGTTCATGCC	0.642													6	40					0	0	0.00308	0	0		T	10250779	T	T	10250779	3	4	58	1	0	0	0	0	1	0	0	0	4681	768	27	1	1185	1	DNMT1	19	10250779	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	329022	10250779	48878204	608	41598											
YIPF2	78992	broad.mit.edu	37	chr19	11034007	11034007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcaaggtaggggacagcGcgatgtttgagggcagagat	10	6	19	6	3	0	2	0	1	0	1	0	5	0	3	0	5	1	4	0	5	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:11034007G>A	uc002mqb.2	-	9	1035	c.911C>T	c.(910-912)GCG>GTG	p.A304V	YIPF2_uc002mqc.2_Missense_Mutation_p.A304V	NM_024029	NP_076934	Q9BWQ6	YIPF2_HUMAN	Yip1 domain family, member 2	304	Lumenal (Potential).					integral to membrane|transport vesicle					0						AGGGGACAGCGCGATGTTTGA	0.627													11	73					0	0	0.000978	0	0		A	11034007	A	A	11034007	3	1	58	1	0	0	0	0	1	0	0	0	17504	1087	38	1	43	1	YIPF2	19	11034007	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	783228	11034007	48094976	609	41599											
DOCK6	57572	broad.mit.edu	37	chr19	11363483	11363483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggggatcccgggctccGtggtccggcattcccggggc	2	8	16	15	4	0	0	0	0	0	0	4	1	4	1	5	7	0	2	5	7	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:11363483G>A	uc002mqs.3	-	3	325	c.284C>T	c.(283-285)ACG>ATG	p.T95M		NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	95					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CCCGGGCTCCGTGGTCCGGCA	0.607													7	20					0	0	0.001984	0	0		A	11363483	A	A	11363483	3	1	58	1	0	0	0	0	1	0	0	0	4697	1145	40	1	6043	1	DOCK6	19	11363483	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	329476	11363483	47765500	610	41600											
ECSIT	51295	broad.mit.edu	37	chr19	11624073	11624073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaatcagcaggaactccGtctccttgttgggcatcaca	9	11	9	12	1	4	1	2	1	2	0	6	2	5	2	2	2	2	3	2	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:11624073G>A	uc002msb.2	-	4	670	c.536C>T	c.(535-537)ACG>ATG	p.T179M	ECSIT_uc002msa.1_RNA|ECSIT_uc010dyc.1_Missense_Mutation_p.T179M|ECSIT_uc010dyd.2_Missense_Mutation_p.T179M|ECSIT_uc010xma.1_Intron	NM_016581	NP_057665	Q9BQ95	ECSIT_HUMAN	evolutionarily conserved signaling intermediate	179					innate immune response|regulation of oxidoreductase activity	mitochondrion	oxidoreductase activity, acting on NADH or NADPH|protein binding			ovary(1)	1						CAGGAACTCCGTCTCCTTGTT	0.537													12	39					0	0	0.000978	0	0		A	11624073	A	A	11624073	3	1	58	1	0	0	0	0	1	0	0	0	4906	1145	40	1	779	1	ECSIT	19	11624073	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	260590	11624073	47504910	611	41601											
GIPC1	10755	broad.mit.edu	37	chr19	14593698	14593698	+	Frame_Shift_Del	DEL	C	-	-																															tccgcccagaggccctggctCccccacgcccagccctccac																										TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:14593698delC	uc002myt.2	-	4	361	c.91delG	c.(91-93)GAGfs	p.E31fs	GIPC1_uc002myu.2_Frame_Shift_Del_p.E31fs|GIPC1_uc002myv.2_Intron|GIPC1_uc002myw.2_Intron|GIPC1_uc002myx.2_Frame_Shift_Del_p.E31fs|GIPC1_uc002myy.2_Intron	NM_005716	NP_005707	O14908	GIPC1_HUMAN	regulator of G-protein signalling 19 interacting	31					endothelial cell migration|G-protein coupled receptor protein signaling pathway|glutamate secretion|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|protein targeting|regulation of protein stability|regulation of synaptic plasticity|synaptic transmission	cell cortex|dendritic shaft|dendritic spine|membrane fraction|soluble fraction|synaptic vesicle|vesicle membrane	actin binding|myosin binding|protein homodimerization activity|receptor binding				0						GGCCCTGGCTCCCCCACGCCC	0.726													3	5	---	---	---	---						.	-	14593698	-	-	14593698	7	5	58	1	0	1	0	1	0	0	0	0	6407	864	30	0	934	0	GIPC1	19	14593698	Frame_Shift_Del	DEL	C	TCGA-BR-8059-01A-11D-2340-08	2969625	14593698	44535285	612	41602											
ZNF333	84449	broad.mit.edu	37	chr19	14829686	14829686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgtggcaagcccttccGgacgagcactcatctgaacg	9	7	11	14	3	2	1	1	1	1	0	3	3	3	2	3	2	3	2	3	2	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:14829686G>A	uc002mzn.2	+	12	1681	c.1547G>A	c.(1546-1548)CGG>CAG	p.R516Q	ZNF333_uc002mzk.3_Missense_Mutation_p.R407Q	NM_032433	NP_115809	Q96JL9	ZN333_HUMAN	zinc finger protein 333	516	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	p.R516W(1)		ovary(1)|central_nervous_system(1)|pancreas(1)	3						AAGCCCTTCCGGACGAGCACT	0.517													5	65					0	0	0.001168	0	0		A	14829686	A	A	14829686	3	1	58	1	0	0	0	0	1	0	0	0	17875	1116	39	1	1589	1	ZNF333	19	14829686	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	235988	14829686	44299297	613	41603											
EMR2	30817	broad.mit.edu	37	chr19	14877174	14877174	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggcatgggttttgtccGgaggtgcattcattcacatc	6	14	12	9	1	2	0	2	0	0	0	4	1	3	1	1	4	1	3	1	4	0	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:14877174G>A	uc002mzp.1	-	7	963	c.507C>T	c.(505-507)TCC>TCT	p.S169S	EMR2_uc010dzs.1_5'Flank|EMR2_uc010xnw.1_Silent_p.S169S|EMR2_uc002mzo.1_Silent_p.S169S|EMR2_uc002mzq.1_Intron|EMR2_uc002mzr.1_Intron|EMR2_uc002mzs.1_Intron|EMR2_uc002mzt.1_Intron|EMR2_uc002mzu.1_Intron|EMR2_uc010xnx.1_Intron|EMR2_uc010xny.1_Intron	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	169	EGF-like 4; calcium-binding (Potential).|Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						GGTTTTGTCCGGAGGTGCATT	0.627													17	63					0	0	0.00499	0	0		A	14877174	A	A	14877174	2	1	58	1	0	0	0	0	0	0	0	1	5113	1103	39	1		1	EMR2	19	14877174	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	47488	14877174	44251809	614	41604											
SYDE1	85360	broad.mit.edu	37	chr19	15224418	15224418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgtcgcgccttacttgcgaCccaaacgacagccacctctg	9	8	8	16	4	1	0	0	0	1	0	2	2	1	0	4	0	4	0	4	0	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:15224418C>T	uc002nah.1	+	8	1883	c.1852C>T	c.(1852-1854)CCC>TCC	p.P618S	SYDE1_uc002nai.1_Missense_Mutation_p.P551S|SYDE1_uc002naj.1_Missense_Mutation_p.P275S	NM_033025	NP_149014	Q6ZW31	SYDE1_HUMAN	synapse defective 1, Rho GTPase, homolog 1	618					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|pancreas(1)	2						TTACTTGCGACCCAAACGACA	0.642													17	102					0	0	0.004007	0	0		T	15224418	T	T	15224418	3	4	58	1	0	0	0	0	1	0	0	0	15460	507	18	4	1882	4	SYDE1	19	15224418	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	347244	15224418	43904565	615	41605											
NOTCH3	4854	broad.mit.edu	37	chr19	15290911	15290911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagccccccatatagccaCggcaggtccccccatgctgg	7	7	10	17	1	0	0	0	0	0	0	1	0	1	0	7	3	3	3	7	3	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:15290911C>T	uc002nan.2	-	20	3375	c.3299G>A	c.(3298-3300)CGT>CAT	p.R1100H	NOTCH3_uc002nao.1_Missense_Mutation_p.R1048H	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1100	Extracellular (Potential).|EGF-like 28.				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CATATAGCCACGGCAGGTCCC	0.642													9	59					0	0	0.008291	0	0		T	15290911	T	T	15290911	3	4	58	1	0	0	0	0	1	0	0	0	10569	536	19	1	3722	1	NOTCH3	19	15290911	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	66493	15290911	43838072	616	41606											
MAST3	23031	broad.mit.edu	37	chr19	18252811	18252811	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggactatggccgccggctGagtgctgacatccggtaagt	7	9	15	10	3	0	2	0	2	0	0	1	3	1	3	3	4	1	3	3	4	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:18252811G>A	uc002nhz.3	+	20	2238	c.2238G>A	c.(2236-2238)CTG>CTA	p.L746L		NM_015016	NP_055831	O60307	MAST3_HUMAN	microtubule associated serine/threonine kinase	746							ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			large_intestine(2)|ovary(2)|stomach(1)	5						GCCGCCGGCTGAGTGCTGACA	0.597													9	14					0	0	0.008291	0	0		A	18252811	A	A	18252811	2	1	58	1	0	0	0	0	0	0	0	1	9344	1277	45	4		4	MAST3	19	18252811	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2961900	18252811	40876172	617	41607											
ISYNA1	51477	broad.mit.edu	37	chr19	18546466	18546466	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcttgctgtcacccacgtaCggcacatacttgatgaccac	9	9	8	15	3	1	2	1	2	0	0	1	2	1	2	2	1	3	4	2	1	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:18546466C>T	uc002njd.1	-	9	1211	c.1161G>A	c.(1159-1161)CCG>CCA	p.P387P	ISYNA1_uc002nja.1_Silent_p.P259P|ISYNA1_uc002njb.1_Silent_p.P305P|ISYNA1_uc002njc.1_Silent_p.P237P|ISYNA1_uc010xqh.1_Silent_p.P185P|ISYNA1_uc002nje.1_Silent_p.P333P|ISYNA1_uc002njf.1_Silent_p.P237P	NM_016368	NP_057452	Q9NPH2	INO1_HUMAN	inositol-3-phosphate synthase 1	387					inositol biosynthetic process|phospholipid biosynthetic process	cytoplasm	binding|inositol-3-phosphate synthase activity			ovary(1)|pancreas(1)	2						CACCCACGTACGGCACATACT	0.557													3	23					0	0	0.004672	0	0		T	18546466	T	T	18546466	2	4	58	1	0	0	0	0	0	0	0	1	7883	523	19	1		1	ISYNA1	19	18546466	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	293655	18546466	40582517	618	41608											
TSSK6	83983	broad.mit.edu	37	chr19	19626213	19626213	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagcttataaccgagttcGctcagaagtttgtctcccga	9	11	8	13	3	2	1	1	0	1	1	4	3	2	1	3	0	2	4	3	0	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:19626213G>A	uc002nmr.2	-	1	257	c.24C>T	c.(22-24)AGC>AGT	p.S8S	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	8					multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						AACCGAGTTCGCTCAGAAGTT	0.622													5	47					0	0	0.000602	0	0		A	19626213	A	A	19626213	2	1	58	1	0	0	0	0	0	0	0	1	16698	1078	38	1		1	TSSK6	19	19626213	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1079747	19626213	39502770	619	41609											
ATP13A1	57130	broad.mit.edu	37	chr19	19767528	19767528	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctacgatgcagcggcctcGcagcagaagcacgtcacatg	10	6	12	13	4	2	1	1	0	1	1	3	2	2	1	1	1	5	4	1	1	2	1	rs144897534		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:19767528G>A	uc002nnh.3	-	7	1052	c.1024C>T	c.(1024-1026)CGA>TGA	p.R342*	ATP13A1_uc002nnf.3_5'Flank|ATP13A1_uc002nng.2_Nonsense_Mutation_p.R224*	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	342	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						CAGCGGCCTCGCAGCAGAAGC	0.647													3	15					0	0	0.009096	0	0		A	19767528	A	A	19767528	4	1	58	1	0	0	0	0	0	1	0	0	1124	1095	38	1	2670	1	ATP13A1	19	19767528	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	141315	19767528	39361455	620	41610											
RHPN2	85415	broad.mit.edu	37	chr19	33512524	33512524	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttcgtttccttcaggccaaGaggaatcaggggaatcgtaa	11	11	11	8	2	2	1	2	0	0	1	5	3	3	3	2	4	0	2	2	4	4	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:33512524G>C	uc002nuf.2	-	4	409	c.343C>G	c.(343-345)CTT>GTT	p.L115V	RHPN2_uc010xro.1_Intron|RHPN2_uc002nue.2_5'UTR	NM_033103	NP_149094	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	115	BRO1.				signal transduction	perinuclear region of cytoplasm	protein binding			central_nervous_system(5)|ovary(1)	6	Esophageal squamous(110;0.137)					TTCAGGCCAAGAGGAATCAGG	0.517													7	54					0	0	0.00308	0	0		C	33512524	C	C	33512524	3	2	58	1	0	0	0	0	1	0	0	0	13376	942	33	5	1765	5	RHPN2	19	33512524	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	13744996	33512524	25616459	621	41611											
ZNF30	90075	broad.mit.edu	37	chr19	35422801	35422801	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttgaggatgtggccataGccttctcccagcaggagtgg	8	10	13	10	0	1	1	0	1	1	0	2	3	1	3	3	4	2	1	3	4	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:35422801G>T	uc010edp.1	+	3	442	c.64G>T	c.(64-66)GCC>TCC	p.A22S	ZNF30_uc002nxf.2_5'UTR|ZNF30_uc010edq.1_Missense_Mutation_p.A22S|ZNF30_uc010edr.1_Missense_Mutation_p.A22S	NM_194325	NP_919306	P17039	ZNF30_HUMAN	zinc finger protein 30 isoform b	22	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_lung(56;8.38e-08)|Lung NSC(56;1.31e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)	GBM - Glioblastoma multiforme(1328;0.0265)		TGTGGCCATAGCCTTCTCCCA	0.463													6	27					0.00116845	0.0012265	0.001168	1	0		T	35422801	T	T	35422801	3	4	58	1	0	0	0	0	1	0	0	0	17855	971	34	5	70	5	ZNF30	19	35422801	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1910277	35422801	23706182	622	41612											
LGI4	163175	broad.mit.edu	37	chr19	35617783	35617783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcttcctcgggccggaagCgctgcaggctgtagtcccag	5	8	14	14	3	1	0	0	0	1	0	4	1	3	1	3	3	2	5	3	3	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:35617783C>T	uc002nxx.2	-	7	1361	c.767G>A	c.(766-768)CGC>CAC	p.R256H	LGI4_uc002nxy.1_Missense_Mutation_p.R84H|LGI4_uc002nxz.1_Missense_Mutation_p.R84H	NM_139284	NP_644813	Q8N135	LGI4_HUMAN	leucine-rich repeat LGI family, member 4	256						extracellular region				pancreas(1)	1	all_lung(56;7.56e-09)|Lung NSC(56;1.1e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.54e-20)|OV - Ovarian serous cystadenocarcinoma(14;1.33e-18)|all cancers(14;4.27e-17)|LUSC - Lung squamous cell carcinoma(66;0.0849)			GGGCCGGAAGCGCTGCAGGCT	0.677													3	21					0	0	0.009096	0	0		T	35617783	T	T	35617783	3	4	58	1	0	0	0	0	1	0	0	0	8770	768	27	1	858	1	LGI4	19	35617783	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	194982	35617783	23511200	623	41613											
FFAR2	2867	broad.mit.edu	37	chr19	35941244	35941244	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtggatcatgctctcccagCcccttgtgggggcccagagg	5	9	14	13	0	2	1	1	0	1	1	3	2	2	2	4	4	2	1	4	4	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:35941244C>G	uc002nzg.2	+	2	708	c.628C>G	c.(628-630)CCC>GCC	p.P210A	FFAR2_uc010eea.2_Missense_Mutation_p.P210A	NM_005306	NP_005297	O15552	FFAR2_HUMAN	free fatty acid receptor 2	210	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GCTCTCCCAGCCCCTTGTGGG	0.627													18	114					0	0	0.007413	0	0		G	35941244	G	G	35941244	3	3	58	1	0	0	0	0	1	0	0	0	5842	739	26	5	630	5	FFAR2	19	35941244	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	323461	35941244	23187739	624	41614											
U2AF1L4	199746	broad.mit.edu	37	chr19	36234944	36234944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgacagcatgactcccGgaagtcagtgacaggagaca	12	5	13	11	2	1	3	1	2	0	1	2	6	2	4	1	3	1	1	1	3	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:36234944G>A	uc002obg.2	-	5	466	c.157C>T	c.(157-159)CGG>TGG	p.R53W	TMEM149_uc002obb.2_5'Flank|TMEM149_uc002obc.2_5'Flank|TMEM149_uc002obd.3_5'Flank|TMEM149_uc010xsy.1_5'Flank|TMEM149_uc010eej.2_Intron|U2AF1L4_uc002obh.1_Intron|U2AF1L4_uc002obe.2_Missense_Mutation_p.R112W|U2AF1L4_uc002obf.2_Intron|PSENEN_uc002obi.1_5'Flank|PSENEN_uc002obj.1_5'Flank|PSENEN_uc002obk.1_5'Flank			Q8WU68	U2AF4_HUMAN	Homo sapiens cDNA FLJ35525 fis, clone SPLEN2001650.	151	C3H1-type 2.				mRNA processing|RNA splicing	nuclear speck|spliceosomal complex	nucleotide binding|RNA binding|zinc ion binding				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CATGACTCCCGGAAGTCAGTG	0.592													13	62					0	0	0.001855	0	0		A	36234944	A	A	36234944	3	1	58	1	0	0	0	0	1	0	0	0	16848	1115	39	1	344	1	U2AF1L4	19	36234944	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	293700	36234944	22894039	625	41615											
ARHGAP33	115703	broad.mit.edu	37	chr19	36271949	36271949	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttggctgcgatcttggcgaGcacctcagcaactcaggcca	8	9	11	13	2	3	0	2	0	1	0	3	2	3	0	2	3	4	3	2	3	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:36271949G>T	uc002obr.1	+	11	1042	c.957G>T	c.(955-957)GAG>GAT	p.E319D	ARHGAP33_uc002obs.1_Missense_Mutation_p.E319D|ARHGAP33_uc002obt.1_Missense_Mutation_p.E183D|ARHGAP33_uc010eel.2_5'Flank|ARHGAP33_uc002obv.1_5'Flank	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	319	Rho-GAP.				cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						ATCTTGGCGAGCACCTCAGCA	0.697													4	45					0.00909568	0.00933882	0.009096	1	0		T	36271949	T	T	36271949	3	4	58	1	0	0	0	0	1	0	0	0	882	962	34	5	999	5	ARHGAP33	19	36271949	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	37005	36271949	22857034	626	41616											
PRODH2	58510	broad.mit.edu	37	chr19	36304127	36304127	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatacggttctcacgtttgtAatcccaacactttgggaggc	10	12	9	10	2	1	0	1	0	1	0	3	1	2	1	1	3	2	3	1	3	4	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:36304127A>G	uc002obx.1	-	1	75	c.57T>C	c.(55-57)ATT>ATC	p.I19I		NM_021232	NP_067055	Q9UF12	PROD2_HUMAN	kidney and liver proline oxidase 1	19					glutamate biosynthetic process|proline catabolic process		proline dehydrogenase activity			ovary(2)	2	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			tcacgtttgtaatcccaacac	0													7	25					0	0	0.001984	0	0		G	36304127	G	G	36304127	2	3	58	1	0	0	0	0	0	0	0	1	12571	358	13	3		3	PRODH2	19	36304127	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	32178	36304127	22824856	627	41617											
NPHS1	4868	broad.mit.edu	37	chr19	36332672	36332672	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaagggcgttggtggctgtAcatgtgaagagggcgtaatc	9	9	16	7	2	0	2	0	1	0	1	1	2	0	2	1	4	1	4	1	4	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:36332672A>G	uc002oby.2	-	20	2760	c.2760T>C	c.(2758-2760)TGT>TGC	p.C920C	NPHS1_uc010eem.1_5'Flank	NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	920	Ig-like C2-type 8.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGGTGGCTGTACATGTGAAGA	0.587													10	32					0	0	0.008291	0	0		G	36332672	G	G	36332672	2	3	58	1	0	0	0	0	0	0	0	1	10601	389	14	3		3	NPHS1	19	36332672	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	28545	36332672	22796311	628	41618											
ZNF790	388536	broad.mit.edu	37	chr19	37310520	37310520	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgaattctcttatgaccAgtaagactcgaacgtaaact	14	12	7	8	2	1	3	0	2	1	1	3	4	1	3	1	0	2	3	1	0	7	5	rs34171890		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:37310520A>G	uc002oew.2	-	5	845	c.726T>C	c.(724-726)ACT>ACC	p.T242T	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	242	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TCTTATGACCAGTAAGACTCG	0.348													13	65					0	0	0.001855	0	0		G	37310520	G	G	37310520	2	3	58	1	0	0	0	0	0	0	0	1	18187	175	7	3		3	ZNF790	19	37310520	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	977848	37310520	21818463	629	41619											
ZFP30	22835	broad.mit.edu	37	chr19	38134164	38134164	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctctgcctgatcagcacttAcctagagtccatcttctttt	7	15	5	14	0	4	2	1	1	3	1	5	2	5	2	4	0	3	1	4	0	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:38134164A>G	uc002ogv.1	-	5	751	c.235_splice	c.e5+1	p.D79_splice	ZFP30_uc002ogw.1_Splice_Site_p.D79_splice|ZFP30_uc002ogx.1_Splice_Site_p.D79_splice|ZFP30_uc010xtt.1_Splice_Site_p.D78_splice	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ATCAGCACTTACCTAGAGTCC	0.488													19	155					0	0	0.00278	0	0		G	38134164	G	G	38134164	5	3	58	1	0	0	0	0	0	0	1	0	17669	405	14	3	1330	3	ZFP30	19	38134164	Splice_Site	SNP	A	TCGA-BR-8059-01A-11D-2340-08	823644	38134164	20994819	630	41620											
ZNF781	163115	broad.mit.edu	37	chr19	38160451	38160451	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacattcctgacattcataAgatttctcattagtatgagt	12	17	5	7	0	2	3	2	2	1	1	4	3	3	3	1	0	1	1	1	0	4	7			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:38160451A>C	uc002ogy.2	-	4	1341	c.599T>G	c.(598-600)CTT>CGT	p.L200R	ZNF781_uc002ogz.2_Missense_Mutation_p.L195R	NM_152605	NP_689818	Q8N8C0	ZN781_HUMAN	zinc finger protein 781	200					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GACATTCATAAGATTTCTCAT	0.358													21	67					0	0	0.001882	0	0		C	38160451	C	C	38160451	3	2	58	1	0	0	0	0	1	0	0	0	18179	72	3	5	388	5	ZNF781	19	38160451	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	26287	38160451	20968532	631	41621											
SIPA1L3	23094	broad.mit.edu	37	chr19	38572964	38572964	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccacacctcatggggggCggcggcggagccaaggggga	7	2	20	12	3	1	0	1	0	0	0	1	2	1	2	3	9	1	0	3	9	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:38572964C>G	uc002ohk.2	+	3	1268	c.759C>G	c.(757-759)GGC>GGG	p.G253G		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	253					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TCATGGGGGGCGGCGGCGGAG	0.692													9	25					0	0	0.006214	0	0		G	38572964	G	G	38572964	2	3	58	1	0	0	0	0	0	0	0	1	14356	755	27	5		5	SIPA1L3	19	38572964	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	412513	38572964	20556019	632	41622											
CATSPERG	57828	broad.mit.edu	37	chr19	38861356	38861356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctgagacattccaggatggGctccatgttcagctccagga	9	10	11	11	0	2	1	1	1	1	1	5	4	5	3	3	3	1	3	3	3	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:38861356G>A	uc002oih.3	+	29	3491	c.3404G>A	c.(3403-3405)GGC>GAC	p.G1135D	CATSPERG_uc002oig.3_Missense_Mutation_p.G1095D|CATSPERG_uc002oif.3_Missense_Mutation_p.G775D|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	1135	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						TCCAGGATGGGCTCCATGTTC	0.557													16	90					0	0	0.003163	0	0		A	38861356	A	A	38861356	3	1	58	1	0	0	0	0	1	0	0	0	2695	1203	42	2	3514	2	CATSPERG	19	38861356	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	288392	38861356	20267627	633	41623											
FAM98C	147965	broad.mit.edu	37	chr19	38895639	38895639	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaccccttggtgaaggggtAgtggagggagccggcatggt	7	7	18	9	1	0	1	0	1	0	0	0	3	0	3	4	7	1	2	4	7	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:38895639A>C	uc002oin.1	+	4	460	c.441A>C	c.(439-441)GTA>GTC	p.V147V	FAM98C_uc002oio.1_Silent_p.V147V|FAM98C_uc010xtz.1_Intron	NM_174905	NP_777565	Q17RN3	FA98C_HUMAN	hypothetical protein LOC147965	147										skin(1)	1	all_cancers(60;3.95e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GTGAAGGGGTAGTGGAGGGAG	0.647													44	103					0	0	0.002852	0	0		C	38895639	C	C	38895639	2	2	58	1	0	0	0	0	0	0	0	1	5672	407	15	5		5	FAM98C	19	38895639	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	34283	38895639	20233344	634	41624											
SARS2	54938	broad.mit.edu	37	chr19	39412279	39412279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttccggatctcccggccaCgtgcccgcagaccctggtac	5	7	10	19	4	1	1	0	0	1	1	3	2	2	2	6	3	2	2	6	3	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:39412279C>T	uc002oka.2	-	4	582	c.422G>A	c.(421-423)CGT>CAT	p.R141H	SARS2_uc002ojz.2_Intron|SARS2_uc010xup.1_Intron|SARS2_uc002okb.2_Missense_Mutation_p.R141H|SARS2_uc010xuq.1_Missense_Mutation_p.R141H|SARS2_uc010xur.1_RNA|SARS2_uc010xus.1_3'UTR	NM_017827	NP_060297	Q9NP81	SYSM_HUMAN	seryl-tRNA synthetase 2 isoform b precursor	141					seryl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|serine-tRNA ligase activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(60;2.74e-06)|all_epithelial(25;4.36e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			CTCCCGGCCACGTGCCCGCAG	0.647													6	29					0	0	0.001168	0	0		T	39412279	T	T	39412279	3	4	58	1	0	0	0	0	1	0	0	0	13870	536	19	1	1186	1	SARS2	19	39412279	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	516640	39412279	19716704	635	41625											
LTBP4	8425	broad.mit.edu	37	chr19	41114169	41114169	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggtcctggttaccactaCtcggcctccgacctccgcta	5	10	9	17	3	0	0	0	0	0	0	4	1	3	0	6	3	2	3	6	3	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:41114169C>G	uc002ooh.1	+	11	1401	c.1401C>G	c.(1399-1401)TAC>TAG	p.Y467*	LTBP4_uc002oog.1_Nonsense_Mutation_p.Y430*|LTBP4_uc002ooi.1_Nonsense_Mutation_p.Y400*|LTBP4_uc002ooj.1_5'Flank|LTBP4_uc010xvo.1_5'Flank	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	467					growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GTTACCACTACTCGGCCTCCG	0.617													5	14					0	0	0.001168	0	0		G	41114169	G	G	41114169	4	3	58	1	0	0	0	0	0	1	0	0	9094	576	20	5	1736	5	LTBP4	19	41114169	Nonsense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1701890	41114169	18014814	636	41626											
EXOSC5	56915	broad.mit.edu	37	chr19	41892595	41892595	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagaaacggaagacgtgttgCgaagcggcctgggccgcagc	10	5	16	10	5	0	2	0	0	0	2	0	4	0	3	2	3	4	2	2	3	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:41892595C>T	uc002oqo.2	-	6	674	c.651G>A	c.(649-651)TCG>TCA	p.S217S	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Intron	NM_020158	NP_064543	Q9NQT4	EXOS5_HUMAN	exosome component Rrp46	217					DNA deamination|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5'-exoribonuclease activity|protein binding|RNA binding				0						AGACGTGTTGCGAAGCGGCCT	0.657													5	3					0	0	0.001168	0	0		T	41892595	T	T	41892595	2	4	58	1	0	0	0	0	0	0	0	1	5326	755	27	1		1	EXOSC5	19	41892595	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	778426	41892595	17236388	637	41627											
ATP1A3	478	broad.mit.edu	37	chr19	42486220	42486220	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttcttcaccaggcagttCttccgggccatgcgcttggc	5	11	12	13	2	3	0	1	0	2	0	4	0	4	0	3	4	1	4	3	4	0	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:42486220C>A	uc002osg.2	-	9	1186	c.1032G>T	c.(1030-1032)AAG>AAT	p.K344N	ATP1A3_uc010xwf.1_Missense_Mutation_p.K355N|ATP1A3_uc010xwg.1_Missense_Mutation_p.K314N|ATP1A3_uc010xwh.1_Missense_Mutation_p.K357N|ATP1A3_uc002osh.2_Missense_Mutation_p.K344N	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	344	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						ccaggcagttcttccGGGCCA	0.473													14	82					2.32078e-09	2.61475e-09	0.003163	1	0		A	42486220	A	A	42486220	3	1	58	1	0	0	0	0	1	0	0	0	1131	912	32	5	2069	5	ATP1A3	19	42486220	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	593625	42486220	16642763	638	41628											
PSG8	440533	broad.mit.edu	37	chr19	43258708	43258708	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaacggtaataggtgaaTgaagggtaaattctggggag	13	9	15	4	1	1	3	0	3	1	0	1	4	1	4	1	5	1	2	1	5	7	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:43258708T>C	uc002ouo.2	-	5	1118	c.1020A>G	c.(1018-1020)TCA>TCG	p.S340S	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc010eim.2_RNA|PSG8_uc002oui.2_Silent_p.S179S|PSG8_uc002ouh.2_Silent_p.S340S|PSG8_uc010ein.2_Silent_p.S218S|PSG8_uc002ouj.3_Silent_p.S122S|PSG8_uc002ouk.3_Silent_p.S179S|PSG8_uc002oul.3_Silent_p.S340S|PSG8_uc002oum.3_Silent_p.S247S|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Silent_p.S247S	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	340	Ig-like C2-type 3.					extracellular region					0		Prostate(69;0.00899)				AATAGGTGAATGAAGGGTAAA	0.478													33	114					0	0	0.009535	0	0		C	43258708	C	C	43258708	2	2	58	1	0	0	0	0	0	0	0	1	12683	1451	51	3		3	PSG8	19	43258708	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	772488	43258708	15870275	639	41629											
PLAUR	5329	broad.mit.edu	37	chr19	44174241	44174241	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgcaggtgtggagcagcAgcagcagcggcagcagcggc	9	2	19	11	3	0	0	0	0	0	0	0	2	0	2	0	5	7	7	0	5	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:44174241A>G	uc002oxf.1	-	1	262	c.32T>C	c.(31-33)CTG>CCG	p.L11P	PLAUR_uc002oxd.1_Missense_Mutation_p.L11P|PLAUR_uc002oxe.1_5'Flank|PLAUR_uc002oxg.1_Missense_Mutation_p.L11P	NM_002659	NP_002650	Q03405	UPAR_HUMAN	plasminogen activator, urokinase receptor	11					attachment of GPI anchor to protein|blood coagulation|C-terminal protein lipidation|cellular component movement|chemotaxis|fibrinolysis|regulation of proteolysis	anchored to membrane|cell surface|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|extrinsic to membrane|integral to membrane|plasma membrane	enzyme binding|U-plasminogen activator receptor activity			ovary(1)	1		Prostate(69;0.0153)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Streptokinase(DB00086)|Tenecteplase(DB00031)|Urokinase(DB00013)	GTGGagcagcagcagcagcgg	0.562													25	65					0	0	0.00333	0	0		G	44174241	G	G	44174241	3	3	58	1	0	0	0	0	1	0	0	0	12042	188	7	3	1099	3	PLAUR	19	44174241	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	915533	44174241	14954742	640	41630											
CLPTM1	1209	broad.mit.edu	37	chr19	45476381	45476381	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcagcagttggttccgcCgagggccggcccctcaggac	6	6	13	16	3	2	0	2	0	0	0	3	2	3	1	6	4	1	3	6	4	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:45476381C>T	uc002pai.2	+	3	238	c.223C>T	c.(223-225)CGA>TGA	p.R75*	CLPTM1_uc010ejv.1_5'UTR|CLPTM1_uc010xxf.1_5'UTR|CLPTM1_uc010xxg.1_Nonsense_Mutation_p.R61*	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane	75	Extracellular (Potential).				cell differentiation|multicellular organismal development|regulation of T cell differentiation in thymus	external side of plasma membrane|integral to plasma membrane				ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00354)|Epithelial(262;0.187)		TTGGTTCCGCCGAGGGCCGGC	0.637													10	49					0	0	0.006214	0	0		T	45476381	T	T	45476381	4	4	58	1	0	0	0	0	0	1	0	0	3557	644	23	1	233	1	CLPTM1	19	45476381	Nonsense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1302140	45476381	13652602	641	41631											
PPP1R13L	10848	broad.mit.edu	37	chr19	45885799	45885799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaccccgaagtagttccGcggcacgtagccctcctggc	6	7	11	17	4	1	0	1	0	0	0	3	1	3	0	5	2	1	5	5	2	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:45885799G>A	uc002pbn.2	-	12	2511	c.2434C>T	c.(2434-2436)CGG>TGG	p.R812W	PPP1R13L_uc002pbm.2_Missense_Mutation_p.R391W|PPP1R13L_uc002pbo.2_Missense_Mutation_p.R812W	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	812	SH3.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		AAGTAGTTCCGCGGCACGTAG	0.672													10	59					0	0	0.006214	0	0		A	45885799	A	A	45885799	3	1	58	1	0	0	0	0	1	0	0	0	12380	1086	38	1	60	1	PPP1R13L	19	45885799	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	409418	45885799	13243184	642	41632											
SIX5	147912	broad.mit.edu	37	chr19	46269299	46269299	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaggtggcggtgaggatgatCttgccctgctgcagggccac	7	8	16	10	1	1	2	0	2	1	0	1	3	1	3	2	5	3	2	2	5	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:46269299C>G	uc002pdb.2	-	3	2075	c.1680G>C	c.(1678-1680)AAG>AAC	p.K560N	SIX5_uc002pdc.2_Missense_Mutation_p.D292H	NM_175875	NP_787071	Q8N196	SIX5_HUMAN	SIX homeobox 5	560						cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00783)|GBM - Glioblastoma multiforme(486;0.0802)|Epithelial(262;0.235)		TGAGGATGATCTTGCCCTGCT	0.672													5	9					0	0	0.000602	0	0		G	46269299	G	G	46269299	3	3	58	1	0	0	0	0	1	0	0	0	14375	912	32	5	543	5	SIX5	19	46269299	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	383500	46269299	12859684	643	41633											
HIF3A	64344	broad.mit.edu	37	chr19	46815865	46815865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagtggtgtcagggggacGgggcccccagtcggagagta	8	5	18	10	2	1	1	1	0	0	1	2	3	1	2	2	6	0	1	2	6	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:46815865G>A	uc002peh.2	+	8	1009	c.980G>A	c.(979-981)CGG>CAG	p.R327Q	HIF3A_uc002pef.1_3'UTR|HIF3A_uc002peg.3_Missense_Mutation_p.R327Q|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_Missense_Mutation_p.R271Q|HIF3A_uc002pej.1_Missense_Mutation_p.R258Q|HIF3A_uc002pek.2_Missense_Mutation_p.R271Q|HIF3A_uc010xxy.1_Missense_Mutation_p.R258Q|HIF3A_uc002pel.2_Missense_Mutation_p.R325Q|HIF3A_uc010xxz.1_Missense_Mutation_p.R276Q	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	327					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		TCAGGGGGACGGGGCCCCCAG	0.617													12	63					0	0	0.000978	0	0		A	46815865	A	A	46815865	3	1	58	1	0	0	0	0	1	0	0	0	7121	1116	39	1	1034	1	HIF3A	19	46815865	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	546566	46815865	12313118	644	41634											
PRKD2	25865	broad.mit.edu	37	chr19	47207644	47207644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggagttcggtggtgctaCggctctgtcgttggcaagaa	7	10	16	8	3	1	1	0	0	1	1	3	2	1	2	0	5	2	6	0	5	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:47207644C>T	uc002pfh.2	-	6	1013	c.671G>A	c.(670-672)CGT>CAT	p.R224H	PRKD2_uc002pfg.2_Missense_Mutation_p.R67H|PRKD2_uc002pfi.2_Missense_Mutation_p.R224H|PRKD2_uc002pfj.2_Missense_Mutation_p.R224H|PRKD2_uc010xye.1_Missense_Mutation_p.R224H|PRKD2_uc002pfk.2_Missense_Mutation_p.R67H	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	224					cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		GGTGGTGCTACGGCTCTGTCG	0.627											OREG0025578	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	79					0	0	0.010504	0	0		T	47207644	T	T	47207644	3	4	58	1	0	0	0	0	1	0	0	0	12541	536	19	1	2021	1	PRKD2	19	47207644	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	391779	47207644	11921339	645	41635											
NPAS1	4861	broad.mit.edu	37	chr19	47524418	47524418	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggtcaaggcgccgtcCggaccgtggtgagcaaagcc	8	6	15	12	4	1	2	1	2	0	0	2	3	2	3	4	4	2	1	4	4	2	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:47524418C>A	uc002pfw.2	+	2	310	c.114C>A	c.(112-114)TCC>TCA	p.S38S	NPAS1_uc002pfx.2_Intron|NPAS1_uc002pfy.2_Silent_p.S38S	NM_002517	NP_002508	Q99742	NPAS1_HUMAN	neuronal PAS domain protein 1	38					central nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0		all_cancers(25;4.31e-08)|all_epithelial(76;2.96e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.102)		all cancers(93;6.02e-05)|OV - Ovarian serous cystadenocarcinoma(262;7.35e-05)|Epithelial(262;0.00389)|GBM - Glioblastoma multiforme(486;0.0252)		AGGCGCCGTCCGGACCGTGGT	0.542													4	4					0.00024832	0.000263275	0.009096	1	0		A	47524418	A	A	47524418	2	1	58	1	0	0	0	0	0	0	0	1	10581	639	23	5		5	NPAS1	19	47524418	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	316774	47524418	11604565	646	41636											
TBC1D17	79735	broad.mit.edu	37	chr19	50383626	50383626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggctgtcatcagcactgtgCggccacagctctgccactca	7	8	11	15	1	4	0	3	0	1	0	4	0	4	0	2	2	4	3	2	2	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:50383626C>T	uc002pqo.2	+	4	438	c.286C>T	c.(286-288)CGG>TGG	p.R96W	AKT1S1_uc002pqm.3_5'Flank|TBC1D17_uc010enn.1_RNA|TBC1D17_uc010ybg.1_Missense_Mutation_p.R63W|TBC1D17_uc002pqp.2_5'UTR|TBC1D17_uc002pqq.1_RNA|TBC1D17_uc002pqr.2_5'UTR|TBC1D17_uc002pqs.2_5'Flank	NM_024682	NP_078958	Q9HA65	TBC17_HUMAN	TBC1 domain family, member 17	96						intracellular	Rab GTPase activator activity				0		all_lung(116;0.000338)|Lung NSC(112;0.000446)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.017)		CAGCACTGTGCGGCCACAGCT	0.597													9	23					0	0	0.004482	0	0		T	50383626	T	T	50383626	3	4	58	1	0	0	0	0	1	0	0	0	15631	759	27	1	300	1	TBC1D17	19	50383626	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2859208	50383626	8745357	647	41637											
SIGLEC9	27180	broad.mit.edu	37	chr19	51629040	51629040	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgctcaccctcatcccacAgccccaggaccatggcacca	9	5	8	19	0	2	0	2	0	0	0	3	1	3	1	6	3	2	2	6	3	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:51629040A>C	uc002pvu.2	+	2	675	c.608A>C	c.(607-609)CAG>CCG	p.Q203P	SIGLEC9_uc010yct.1_Missense_Mutation_p.Q203P	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	203	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		CTCATCCCACAGCCCCAGGAC	0.642													19	55					0	0	0.006122	0	0		C	51629040	C	C	51629040	3	2	58	1	0	0	0	0	1	0	0	0	14340	188	7	5	614	5	SIGLEC9	19	51629040	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	1245414	51629040	7499943	648	41638											
NLRP12	91662	broad.mit.edu	37	chr19	54327332	54327332	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccagctctgtcgcggtccCcaggtataacttgaacttct	7	12	8	14	2	2	1	0	1	2	0	5	1	4	1	3	2	3	2	3	2	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:54327332C>A	uc002qch.3	-	1	317	c.97G>T	c.(97-99)GGG>TGG	p.G33W	NLRP12_uc002qci.3_Missense_Mutation_p.G33W|NLRP12_uc002qcj.3_Missense_Mutation_p.G33W|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.G33W	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	33	DAPIN.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		GTCGCGGTCCCCAGGTATAAC	0.607													10	44					4.68919e-08	5.22739e-08	0.008291	1	0		A	54327332	A	A	54327332	3	1	58	1	0	0	0	0	1	0	0	0	10493	623	22	5	3224	5	NLRP12	19	54327332	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2698292	54327332	4801651	649	41639											
MYADM	91663	broad.mit.edu	37	chr19	54377623	54377623	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcgagagatgtaagctgcagCcgcagccatgcctactacgt	10	8	11	12	3	0	1	0	0	0	1	1	3	0	1	3	0	7	4	3	0	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:54377623C>T	uc002qcl.2	+	3	988	c.840C>T	c.(838-840)AGC>AGT	p.S280S	MYADM_uc002qcm.2_Silent_p.S280S|MYADM_uc002qcn.2_Silent_p.S280S|MYADM_uc002qco.2_Silent_p.S280S|MYADM_uc002qcp.2_Silent_p.S280S	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	280	MARVEL 2.					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		TAAGCTGCAGCCGCAGCCATG	0.617													13	44					0	0	0.001368	0	0		T	54377623	T	T	54377623	2	4	58	1	0	0	0	0	0	0	0	1	10024	738	26	2		2	MYADM	19	54377623	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	50291	54377623	4751360	650	41640											
LENG8	114823	broad.mit.edu	37	chr19	54966670	54966670	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaccgcacggaaaagctgCtcaaggaggtgctgcaggcg	11	4	16	10	3	1	0	1	0	0	0	1	3	1	3	1	5	4	5	1	5	3	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:54966670C>A	uc002qfv.1	+	7	982	c.838C>A	c.(838-840)CTC>ATC	p.L280I	LENG8_uc002qfw.2_Missense_Mutation_p.L317I			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	280							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		GGAAAAGCTGCTCAAGGAGGT	0.632													6	28					3.59834e-05	3.86844e-05	0.001168	1	0		A	54966670	A	A	54966670	3	1	58	1	0	0	0	0	1	0	0	0	8740	797	28	5	975	5	LENG8	19	54966670	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	589047	54966670	4162313	651	41641											
NLRP7	199713	broad.mit.edu	37	chr19	55451393	55451393	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgcagatgtcctggatcAgcgccccaggtgggactttc	6	8	12	15	2	1	1	1	0	0	1	3	3	2	3	5	3	1	1	5	3	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:55451393A>G	uc002qih.3	-	4	870	c.794T>C	c.(793-795)CTG>CCG	p.L265P	NLRP7_uc002qig.3_Missense_Mutation_p.L265P|NLRP7_uc002qii.3_Missense_Mutation_p.L265P|NLRP7_uc010esk.2_Missense_Mutation_p.L265P|NLRP7_uc010esl.2_Missense_Mutation_p.L293P	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	265	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		GTCCTGGATCAGCGCCCCAGG	0.572													14	78					0	0	0.003163	0	0		G	55451393	G	G	55451393	3	3	58	1	0	0	0	0	1	0	0	0	10501	188	7	3	2351	3	NLRP7	19	55451393	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	484723	55451393	3677590	652	41642											
NLRP13	126204	broad.mit.edu	37	chr19	56423312	56423312	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagaggcactttcagccttaCctaactcttctccccacttt	8	13	5	15	0	3	1	1	0	2	1	4	2	3	1	4	1	3	1	4	1	2	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:56423312C>G	uc010ygg.1	-	5	1896	c.1871G>C	c.(1870-1872)GGT>GCT	p.G624A		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	624							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		TTCAGCCTTACCTAACTCTTC	0.403													12	72					0	0	0.000978	0	0		G	56423312	G	G	56423312	3	3	58	1	0	0	0	0	1	0	0	0	10494	507	18	5	1286	5	NLRP13	19	56423312	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	971919	56423312	2705671	653	41643											
ZNF582	147948	broad.mit.edu	37	chr19	56896485	56896485	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctttccattatctcccattGgggtgattcgacttcataaa	9	15	7	10	1	2	1	1	1	1	0	5	2	3	1	2	2	0	1	2	2	3	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:56896485G>T	uc002qmz.1	-	5	460	c.301C>A	c.(301-303)CAA>AAA	p.Q101K	ZNF582_uc002qmy.2_Missense_Mutation_p.Q132K	NM_144690	NP_653291	Q96NG8	ZN582_HUMAN	zinc finger protein 582	101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|large_intestine(1)	4		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0547)		ATCTCCCATTGGGGTGATTCG	0.383													20	75					3.51602e-12	4.06434e-12	0.008871	1	0		T	56896485	T	T	56896485	3	4	58	1	0	0	0	0	1	0	0	0	18039	1357	47	5	1256	5	ZNF582	19	56896485	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	473173	56896485	2232498	654	41644											
PEG3	5178	broad.mit.edu	37	chr19	57328104	57328104	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactatgaaggaaggtttccTtacacaccctgcactcgtag	12	10	8	11	1	0	1	0	1	0	0	2	2	1	2	2	2	3	3	2	2	6	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:57328104T>G	uc002qnu.2	-	7	2057	c.1706A>C	c.(1705-1707)AAG>ACG	p.K569T	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.K540T|PEG3_uc002qnv.2_Missense_Mutation_p.K569T|PEG3_uc002qnw.2_Missense_Mutation_p.K445T|PEG3_uc002qnx.2_Missense_Mutation_p.K443T|PEG3_uc010etr.2_Missense_Mutation_p.K569T	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	569	C2H2-type 3.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GAAGGTTTCCTTACACACCCT	0.368													16	82					0	0	0.004007	0	0		G	57328104	G	G	57328104	3	3	58	1	0	0	0	0	1	0	0	0	11739	1609	56	5	3064	5	PEG3	19	57328104	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	431619	57328104	1800879	655	41645											
ZNF304	57343	broad.mit.edu	37	chr19	57867521	57867521	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacccatgtgagatgtgtgAcccactcttgaaagacattt	12	11	8	10	0	1	4	0	3	1	2	1	5	1	4	2	0	0	0	2	0	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:57867521A>G	uc010ygw.1	+	3	672	c.284A>G	c.(283-285)GAC>GGC	p.D95G	ZNF304_uc010etw.2_Missense_Mutation_p.D142G|ZNF304_uc010etx.2_Missense_Mutation_p.D53G	NM_020657	NP_065708	Q9HCX3	ZN304_HUMAN	zinc finger protein 304	95	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0265)		GAGATGTGTGACCCACTCTTG	0.507													9	52					0	0	0.008291	0	0		G	57867521	G	G	57867521	3	3	58	1	0	0	0	0	1	0	0	0	17858	275	10	3	294	3	ZNF304	19	57867521	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	539417	57867521	1261462	656	41646											
ZNF329	79673	broad.mit.edu	37	chr19	58640743	58640743	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcctcaagtgtccctccTggttctcacagtcccaacca	8	11	6	16	0	2	0	2	0	1	0	6	0	5	0	5	1	2	1	5	1	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:58640743T>A	uc002qrn.2	-	4	365	c.128A>T	c.(127-129)CAG>CTG	p.Q43L	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	43					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		GTGTCCCTCCTGGTTCTCACA	0.468													24	128					0	0	0.00278	0	0		A	58640743	A	A	58640743	3	1	58	1	0	0	0	0	1	0	0	0	17872	1580	55	5	1501	5	ZNF329	19	58640743	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	773222	58640743	488240	657	41647											
SLC4A11	83959	broad.mit.edu	37	chr20	3209270	3209270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttggggatccactgaagcGggaccggcagcagcaacagg	10	4	16	11	2	0	1	0	1	0	0	1	3	1	3	2	5	4	4	2	5	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:3209270G>A	uc002wig.2	-	17	2372	c.2324C>T	c.(2323-2325)CCG>CTG	p.P775L	SLC4A11_uc010zqe.1_Missense_Mutation_p.P802L|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.P759L	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	775	Membrane (bicarbonate transporter).|Helical; (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						CCACTGAAGCGGGACCGGCAG	0.672													7	51					0	0	0.001984	0	0		A	3209270	A	A	3209270	3	1	58	1	0	0	0	0	1	0	0	0	14677	1116	39	1	363	1	SLC4A11	20	3209270	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08		3209270	59816250	658	41648											
SEC23B	10483	broad.mit.edu	37	chr20	18511371	18511371	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacacttctctcttcaagcAgacattccaaagaatcttta	14	12	3	12	0	4	2	1	0	3	2	6	2	5	2	1	0	2	1	1	0	5	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:18511371A>G	uc002wqz.1	+	10	1600	c.1157A>G	c.(1156-1158)CAG>CGG	p.Q386R	SEC23B_uc002wra.1_Missense_Mutation_p.Q386R|SEC23B_uc002wrb.1_Missense_Mutation_p.Q386R|SEC23B_uc010zsb.1_Missense_Mutation_p.Q368R|SEC23B_uc002wrc.1_Missense_Mutation_p.Q386R	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	386			Q -> R.		ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						CTCTTCAAGCAGACATTCCAA	0.338													12	57					0	0	0.001855	0	0		G	18511371	G	G	18511371	3	3	58	1	0	0	0	0	1	0	0	0	14017	188	7	3	1191	3	SEC23B	20	18511371	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	15302101	18511371	44514149	659	41649											
PLK1S1	55857	broad.mit.edu	37	chr20	21143043	21143043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggaacatattgaagttgagGaaaaaagagccagcccgcca	16	5	12	8	1	0	3	0	2	0	1	0	5	0	5	3	2	3	1	3	2	6	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:21143043G>A	uc002wsb.2	+	5	1070	c.937G>A	c.(937-939)GAA>AAA	p.E313K	PLK1S1_uc010zsh.1_Missense_Mutation_p.E210K|PLK1S1_uc010zsi.1_Missense_Mutation_p.E180K|PLK1S1_uc010zsj.1_RNA|uc002wsc.2_Intron|PLK1S1_uc002wsd.2_RNA	NM_018474	NP_060944	Q2M2Z5	KIZ_HUMAN	polo-like kinase 1 substrate 1 isoform 1	313					spindle organization	centrosome	protein kinase binding				0						TGAAGTTGAGGAAAAAAGAGC	0.443													6	17					0	0	0.00245	0	0		A	21143043	A	A	21143043	3	1	58	1	0	0	0	0	1	0	0	0	12114	1175	41	4	955	4	PLK1S1	20	21143043	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2631672	21143043	41882477	660	41650											
NINL	22981	broad.mit.edu	37	chr20	25457060	25457060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggggtggctcccacatcCgtggctgggtttgcgaggcg	4	9	17	11	3	1	0	1	0	0	0	3	1	3	0	2	6	1	3	2	6	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:25457060C>T	uc002wux.1	-	17	2941	c.2867G>A	c.(2866-2868)CGG>CAG	p.R956Q	NINL_uc010gdn.1_Intron	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	956					G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CTCCCACATCCGTGGCTGGGT	0.687													9	23					0	0	0.008291	0	0		T	25457060	T	T	25457060	3	4	58	1	0	0	0	0	1	0	0	0	10439	652	23	1	1313	1	NINL	20	25457060	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	4314017	25457060	37568460	661	41651											
FAM83D	81610	broad.mit.edu	37	chr20	37580587	37580587	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgctgccactcaaacagaGccaggagaggagatgccagg	13	3	14	11	1	1	3	1	0	0	3	1	6	1	3	3	3	4	1	3	3	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:37580587G>A	uc002xjg.2	+	4	1313	c.1272G>A	c.(1270-1272)GAG>GAA	p.E424E		NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	394					cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				CTCAAACAGAGCCAGGAGAGG	0.547													6	56					0	0	0.001168	0	0		A	37580587	A	A	37580587	2	1	58	1	0	0	0	0	0	0	0	1	5650	962	34	2		2	FAM83D	20	37580587	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	12123527	37580587	25444933	662	41652											
MYBL2	4605	broad.mit.edu	37	chr20	42343837	42343837	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtatcaaagaagacaacagcTtgctcaaccagggcttcttg	13	9	9	10	0	3	2	2	0	1	2	3	2	3	2	1	1	4	4	1	1	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:42343837T>C	uc002xlb.1	+	13	2103	c.1888T>C	c.(1888-1890)TTG>CTG	p.L630L	MYBL2_uc010zwj.1_Silent_p.L606L	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	630						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AGACAACAGCTTGCTCAACCA	0.562													35	255					0	0	0.003755	0	0		C	42343837	C	C	42343837	2	2	58	1	0	0	0	0	0	0	0	1	10028	1606	56	3		3	MYBL2	20	42343837	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	4763250	42343837	20681683	663	41653											
RIMS4	140730	broad.mit.edu	37	chr20	43385563	43385563	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggactttgccctggggactCtcaggaaacagcagcacctg	10	7	12	12	0	1	0	1	0	1	0	2	3	1	3	2	4	4	2	2	4	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:43385563C>G	uc002xms.2	-	5	567	c.567G>C	c.(565-567)GAG>GAC	p.E189D	RIMS4_uc010ggu.2_Missense_Mutation_p.E190D	NM_182970	NP_892015	Q9H426	RIMS4_HUMAN	regulating synaptic membrane exocytosis 4	189	C2.				exocytosis|neurotransmitter transport	cell junction|synapse				ovary(4)|central_nervous_system(1)	5		Myeloproliferative disorder(115;0.0122)				CCTGGGGACTCTCAGGAAACA	0.557													52	246					0	0	0.00361	0	0		G	43385563	G	G	43385563	3	3	58	1	0	0	0	0	1	0	0	0	13395	912	32	5	250	5	RIMS4	20	43385563	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1041726	43385563	19639957	664	41654											
MATN4	8785	broad.mit.edu	37	chr20	43932985	43932985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcagggagcccacgtccgCgcgctgcacccccaccgcgt	5	3	13	20	7	0	0	0	0	0	0	1	1	1	1	5	1	2	3	5	1	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:43932985C>T	uc002xnn.2	-	3	713	c.526G>A	c.(526-528)GCG>ACG	p.A176T	MATN4_uc002xno.2_Missense_Mutation_p.A176T|MATN4_uc002xnp.2_Missense_Mutation_p.A176T|MATN4_uc010zwr.1_Missense_Mutation_p.A124T|MATN4_uc002xnr.1_Missense_Mutation_p.A176T|RBPJL_uc002xns.2_5'Flank|RBPJL_uc002xnt.2_5'Flank	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	176	VWFA 1.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				CCCACGTCCGCGCGCTGCACC	0.687													4	39					0	0	0.009096	0	0		T	43932985	T	T	43932985	3	4	58	1	0	0	0	0	1	0	0	0	9354	768	27	1	1251	1	MATN4	20	43932985	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	547422	43932985	19092535	665	41655											
PIGT	51604	broad.mit.edu	37	chr20	44047544	44047544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctcagggatcttctgcGcctctctcaacttcatcgac	6	13	6	16	2	6	0	3	0	4	0	10	2	7	1	2	1	2	0	2	1	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:44047544G>A	uc002xoh.1	+	3	491	c.418G>A	c.(418-420)GCC>ACC	p.A140T	PIGT_uc010ghb.1_Missense_Mutation_p.A130T|PIGT_uc010zwt.1_Intron|PIGT_uc010ghd.1_Silent_p.A80A|PIGT_uc010ghc.1_Intron|PIGT_uc010ghe.1_Intron|PIGT_uc010ghf.1_Silent_p.A126A|PIGT_uc002xoj.1_Missense_Mutation_p.A140T|PIGT_uc002xok.1_Missense_Mutation_p.A140T|PIGT_uc010zwu.1_5'UTR|PIGT_uc002xoi.1_RNA|PIGT_uc010zwv.1_5'UTR|PIGT_uc010zww.1_Intron|PIGT_uc010zwx.1_Silent_p.A8A|PIGT_uc010zwy.1_Intron|PIGT_uc010zwz.1_Intron|PIGT_uc010zxa.1_Intron|PIGT_uc002xol.1_5'UTR|PIGT_uc010zxb.1_5'Flank	NM_015937	NP_057021	Q969N2	PIGT_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	140	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			pancreas(1)	1		Myeloproliferative disorder(115;0.0122)				GATCTTCTGCGCCTCTCTCAA	0.527													21	99					0	0	0.008871	0	0		A	44047544	A	A	44047544	3	1	58	1	0	0	0	0	1	0	0	0	11918	1087	38	1	428	1	PIGT	20	44047544	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	114559	44047544	18977976	666	41656											
ZSWIM1	90204	broad.mit.edu	37	chr20	44511929	44511929	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccgagcttcactcacactGgctgctcaacgaccgcatct	8	8	8	17	3	4	0	3	0	1	0	4	2	4	0	2	1	3	4	2	1	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:44511929G>C	uc010ghi.2	+	2	811	c.698G>C	c.(697-699)TGG>TCG	p.W233S	ZSWIM1_uc010zxh.1_Missense_Mutation_p.W106S	NM_080603	NP_542170	Q9BR11	ZSWM1_HUMAN	zinc finger, SWIM-type containing 1	233							zinc ion binding			skin(1)	1		Myeloproliferative disorder(115;0.028)				CACTCACACTGGCTGCTCAAC	0.587													14	74					0	0	0.001855	0	0		C	44511929	C	C	44511929	3	2	58	1	0	0	0	0	1	0	0	0	18265	1357	47	5	700	5	ZSWIM1	20	44511929	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	464385	44511929	18513591	667	41657											
SULF2	55959	broad.mit.edu	37	chr20	46365657	46365657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccctgctccatgatgcGccgggtcttgttcatcacct	4	11	9	17	3	3	1	2	1	1	0	4	1	4	1	5	1	2	2	5	1	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:46365657G>A	uc002xto.2	-	3	535	c.205C>T	c.(205-207)CGC>TGC	p.R69C	SULF2_uc002xtr.2_Missense_Mutation_p.R69C|SULF2_uc002xtq.2_Missense_Mutation_p.R69C|SULF2_uc010ghv.1_Missense_Mutation_p.R69C	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	69					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						TCCATGATGCGCCGGGTCTTG	0.637													7	53					0	0	0.001984	0	0		A	46365657	A	A	46365657	3	1	58	1	0	0	0	0	1	0	0	0	15396	1087	38	1	2483	1	SULF2	20	46365657	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1853728	46365657	16659863	668	41658											
CASS4	57091	broad.mit.edu	37	chr20	55027385	55027385	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccataattcctcatggttcTccagacggacaacttcccca	10	10	6	15	1	2	1	1	0	1	1	5	2	4	2	5	2	1	1	5	2	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:55027385T>C	uc002xxp.2	+	6	1378	c.1153T>C	c.(1153-1155)TCC>CCC	p.S385P	CASS4_uc002xxq.3_Missense_Mutation_p.S385P|CASS4_uc002xxr.2_Missense_Mutation_p.S385P|CASS4_uc010zze.1_Missense_Mutation_p.S331P|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	385	Ser-rich.				cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						CTCATGGTTCTCCAGACGGAC	0.532													8	51					0	0	0.006214	0	0		C	55027385	C	C	55027385	3	2	58	1	0	0	0	0	1	0	0	0	2686	1551	54	3	1171	3	CASS4	20	55027385	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	8661728	55027385	7998135	669	41659											
TFAP2C	7022	broad.mit.edu	37	chr20	55211736	55211736	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctagtaaaccagtggcAgaatatttaaccagacctca	14	11	6	10	0	1	2	1	0	0	2	2	2	2	2	4	1	2	2	4	1	6	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:55211736A>G	uc002xya.2	+	6	1236	c.993A>G	c.(991-993)GCA>GCG	p.A331A	TFAP2C_uc010zzi.1_Silent_p.A162A	NM_003222	NP_003213	Q92754	AP2C_HUMAN	transcription factor AP-2 gamma	331	H-S-H (helix-span-helix), dimerization.				cell-cell signaling|male gonad development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Colorectal(105;0.229)			AACCAGTGGCAGAATATTTAA	0.433													14	63					0	0	0.00245	0	0		G	55211736	G	G	55211736	2	3	58	1	0	0	0	0	0	0	0	1	15814	175	7	3		3	TFAP2C	20	55211736	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	184351	55211736	7813784	670	41660											
ZNF831	128611	broad.mit.edu	37	chr20	57766555	57766555	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagcccagtgttctagagAagcacatccggtcccacacg	11	7	10	13	2	1	2	0	1	1	1	3	3	3	2	3	1	2	2	3	1	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:57766555A>C	uc002yan.2	+	1	481	c.481A>C	c.(481-483)AAG>CAG	p.K161Q		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	161	C2H2-type 1.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					TGTTCTAGAGAAGCACATCCG	0.637													18	126					0	0	0.006122	0	0		C	57766555	C	C	57766555	3	2	58	1	0	0	0	0	1	0	0	0	18210	247	9	5	483	5	ZNF831	20	57766555	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	2554819	57766555	5258965	671	41661											
PRPF6	24148	broad.mit.edu	37	chr20	62657362	62657362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagaatgatgagtacgagcGggcccggaggctgctggcca	9	5	17	10	4	0	3	0	2	0	1	0	6	0	4	2	4	3	3	2	4	2	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:62657362G>A	uc002yho.2	+	15	2147	c.1979G>A	c.(1978-1980)CGG>CAG	p.R660Q	PRPF6_uc002yhp.2_Intron	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	660					assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					GAGTACGAGCGGGCCCGGAGG	0.662													25	166					0	0	0.00278	0	0		A	62657362	A	A	62657362	3	1	58	1	0	0	0	0	1	0	0	0	12596	1116	39	1	2037	1	PRPF6	20	62657362	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	4890807	62657362	368158	672	41662											
SAMSN1	64092	broad.mit.edu	37	chr21	15870763	15870763	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtaggtgtacacacttacTttcttcttcaaggaagtttt	10	16	8	7	0	3	0	1	0	2	0	3	2	3	1	0	2	2	3	0	2	5	8			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr21:15870763T>G	uc002yju.1	-	7	1001	c.919A>C	c.(919-921)ATT>CTT	p.I307L	SAMSN1_uc010gky.1_Missense_Mutation_p.I139L|SAMSN1_uc002yjv.1_Missense_Mutation_p.I375L	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	307					negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		ACACACTTACTTTCTTCTTCA	0.333													12	42					0	0	0.001855	0	0		G	15870763	G	G	15870763	3	3	58	1	0	0	0	0	1	0	0	0	13855	1623	56	5	210	5	SAMSN1	21	15870763	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08		15870763	32259132	673	41663											
TMPRSS15	5651	broad.mit.edu	37	chr21	19666644	19666644	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgacgagagatgcgccgCagagcagtcggccgccataa	10	5	14	12	5	0	3	0	1	0	2	1	5	0	3	3	1	3	3	3	1	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr21:19666644C>A	uc002ykw.2	-	21	2460	c.2429G>T	c.(2428-2430)TGC>TTC	p.C810F		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	810	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						AGATGCGCCGCAGAGCAGTCG	0.572													18	48					5.3912e-06	5.88575e-06	0.006122	1	0		A	19666644	A	A	19666644	3	1	58	1	0	0	0	0	1	0	0	0	16271	710	25	5	650	5	TMPRSS15	21	19666644	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	3795881	19666644	28463251	674	41664											
RWDD2B	10069	broad.mit.edu	37	chr21	30380401	30380401	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaggaatgcagtcagatCtgtgttcagctgagtctgct	8	13	12	8	0	4	2	2	1	2	1	4	3	4	3	0	1	4	5	0	1	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr21:30380401C>A	uc002yms.2	-	4	493	c.406G>T	c.(406-408)GAT>TAT	p.D136Y	RWDD2B_uc002ymt.2_Missense_Mutation_p.D107Y|RWDD2B_uc002ymu.2_RNA|RWDD2B_uc002ymv.2_Missense_Mutation_p.D56Y	NM_016940	NP_058636	P57060	RWD2B_HUMAN	RWD domain containing 2B	136	RWD.										0						GCAGTCAGATCTGTGTTCAGC	0.393													11	34					6.40141e-05	6.86446e-05	0.000978	1	0		A	30380401	A	A	30380401	3	1	58	1	0	0	0	0	1	0	0	0	13781	913	32	5	561	5	RWDD2B	21	30380401	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	10713757	30380401	17749494	675	41665											
KRTAP24-1	643803	broad.mit.edu	37	chr21	31654507	31654507	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatagcatttcagaggtctGctaccactgcacaaatacct	13	10	6	12	0	2	1	1	0	1	1	2	1	2	1	2	1	5	3	2	1	5	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr21:31654507G>A	uc002ynv.2	-	1	770	c.744C>T	c.(742-744)AGC>AGT	p.S248S		NM_001085455	NP_001078924	Q3LI83	KR241_HUMAN	keratin associated protein 24-1	248	6 X 10 AA repeats of Y-[ILR]-[SVPC]- [NRTS]-[SNTG]-X-[QHRP]-[PSY]-[QSL]-[SRK].|6.					keratin filament	structural molecule activity				0						TCAGAGGTCTGCTACCACTGC	0.433													5	62					0	0	0.001168	0	0		A	31654507	A	A	31654507	2	1	58	1	0	0	0	0	0	0	0	1	8558	1310	46	2		2	KRTAP24-1	21	31654507	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1274106	31654507	16475388	676	41666											
TIAM1	7074	broad.mit.edu	37	chr21	32492734	32492734	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggcaaagtcttcacgcctAacccaaatgacttcctcgct	10	9	8	14	2	2	1	1	1	1	0	4	1	3	1	3	2	1	2	3	2	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr21:32492734A>G	uc002yow.1	-	29	5200	c.4728T>C	c.(4726-4728)GTT>GTC	p.V1576V	TIAM1_uc011adk.1_3'UTR|TIAM1_uc011adl.1_Silent_p.V1516V	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1576					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CTTCACGCCTAACCCAAATGA	0.557													7	21					0	0	0.004482	0	0		G	32492734	G	G	32492734	2	3	58	1	0	0	0	0	0	0	0	1	15915	349	13	3		3	TIAM1	21	32492734	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	838227	32492734	15637161	677	41667											
DGCR2	9993	broad.mit.edu	37	chr22	19029346	19029346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccaatcagggactcgatgCgctcccggcgccgctggcgc	5	6	13	17	6	1	0	1	0	0	0	4	2	3	1	3	3	1	2	3	3	1	0	rs142513620		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:19029346C>T	uc002zoq.1	-	8	1381	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	DGCR2_uc002zor.1_Missense_Mutation_p.R154H|DGCR2_uc011agr.1_Missense_Mutation_p.R334H	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	378	Cytoplasmic (Potential).				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					GGACTCGATGCGCTCCCGGCG	0.647													8	37					0	0	0.00308	0	0		T	19029346	T	T	19029346	3	4	58	1	0	0	0	0	1	0	0	0	4467	768	27	1	531	1	DGCR2	22	19029346	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08		19029346	32275220	678	41668											
HIRA	7290	broad.mit.edu	37	chr22	19363188	19363188	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagtcatgctggtcagggCaggagcacctggtgtggctt	6	9	17	9	1	2	0	2	0	0	0	2	2	2	2	1	6	2	4	1	6	0	1	rs116694036	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:19363188C>A	uc002zpf.1	-	15	1961	c.1741G>T	c.(1741-1743)GCC>TCC	p.A581S	HIRA_uc011agx.1_Missense_Mutation_p.A447S|HIRA_uc010grn.1_Missense_Mutation_p.A581S|HIRA_uc010gro.1_Missense_Mutation_p.A537S|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	581	Interaction with CCNA1.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					CTGGTCAGGGCAGGAGCACCT	0.577													7	51					8.12818e-05	8.67212e-05	0.001984	1	0		A	19363188	A	A	19363188	3	1	58	1	0	0	0	0	1	0	0	0	7136	710	25	5	1356	5	HIRA	22	19363188	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	333842	19363188	31941378	679	41669											
ZDHHC8	29801	broad.mit.edu	37	chr22	20130522	20130522	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgcgctctgagggggggCcccccacgccccaccgtagc	4	4	13	20	3	1	1	0	1	1	0	1	1	1	1	7	3	2	2	7	3	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:20130522C>G	uc002zrq.2	+	10	1475	c.1369C>G	c.(1369-1371)CCC>GCC	p.P457A	ZDHHC8_uc002zrr.1_Missense_Mutation_p.P457A|ZDHHC8_uc010gsa.2_Missense_Mutation_p.P263A	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	457	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					TGAGGGGGGGCCCCCCACGCC	0.687													8	17					0	0	0.004482	0	0		G	20130522	G	G	20130522	3	3	58	1	0	0	0	0	1	0	0	0	17646	739	26	5	1407	5	ZDHHC8	22	20130522	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	767334	20130522	31174044	680	41670											
RTN4R	65078	broad.mit.edu	37	chr22	20230373	20230373	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcagccgcatcaattcGggccagcacattcgagtgca	11	6	12	12	3	1	0	1	0	0	0	3	2	1	0	2	2	3	4	2	2	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:20230373G>A	uc002zrv.2	-	2	484	c.283C>T	c.(283-285)CGA>TGA	p.R95*	RTN4R_uc002zru.2_5'UTR	NM_023004	NP_075380	Q9BZR6	RTN4R_HUMAN	reticulon 4 receptor precursor	95	LRR 2.				axonogenesis|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	anchored to membrane|cell surface|endoplasmic reticulum|plasma membrane	protein binding|receptor activity				0	Colorectal(54;0.0993)					GCATCAATTCGGGCCAGCACA	0.627													4	28					0	0	0.009096	0	0		A	20230373	A	A	20230373	4	1	58	1	0	0	0	0	0	1	0	0	13755	1124	39	1	1142	1	RTN4R	22	20230373	Nonsense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	99851	20230373	31074193	681	41671											
P2RX6	9127	broad.mit.edu	37	chr22	21377428	21377428	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcccctgctggcccaggcCcagaacttcacactgttcat	8	8	9	16	0	2	1	2	0	0	1	2	1	2	1	4	3	2	2	4	3	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:21377428C>A	uc010gsu.1	+	6	579	c.579C>A	c.(577-579)GCC>GCA	p.A193A	P2RX6_uc002ztz.2_Silent_p.A167A|P2RX6_uc002zua.2_RNA|P2RX6_uc002zuc.1_RNA	NM_005446	NP_005437	O15547	P2RX6_HUMAN	purinergic receptor P2X6 isoform 1	193	Extracellular (Potential).				muscle contraction|protein homooligomerization	cell junction|cytoplasm|integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0						TGGCCCAGGCCCAGAACTTCA	0.582													15	74					3.27435e-08	3.65499e-08	0.00245	1	0		A	21377428	A	A	21377428	2	1	58	1	0	0	0	0	0	0	0	1	11363	610	22	5		5	P2RX6	22	21377428	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1147055	21377428	29927138	682	41672											
CCDC116	164592	broad.mit.edu	37	chr22	21988490	21988490	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagagccaggtcctggaCagcctggagacagtggtgga	10	6	16	9	0	0	2	0	1	0	2	1	6	1	4	3	5	2	0	3	5	0	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:21988490C>A	uc002zve.2	+	3	345	c.252C>A	c.(250-252)GAC>GAA	p.D84E	CCDC116_uc011aih.1_Missense_Mutation_p.D84E	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	84	Potential.									ovary(1)|skin(1)	2	Colorectal(54;0.105)					AGGTCCTGGACAGCCTGGAGA	0.617													12	51					5.16669e-11	5.90778e-11	0.000978	1	0		A	21988490	A	A	21988490	3	1	58	1	0	0	0	0	1	0	0	0	2756	477	17	5	258	5	CCDC116	22	21988490	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	611062	21988490	29316076	683	41673											
ZNF280B	140883	broad.mit.edu	37	chr22	22843016	22843016	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcctttggaaaagctgcTggaaaaggtgctccattctg	9	13	11	8	0	1	0	0	0	1	0	3	2	3	2	2	3	3	3	2	3	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:22843016T>C	uc002zwc.1	-	4	1484	c.708A>G	c.(706-708)CCA>CCG	p.P236P	LOC96610_uc011aim.1_Intron	NM_080764	NP_542942	Q86YH2	Z280B_HUMAN	zinc finger protein 280B	236					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		GAAAAGCTGCTGGAAAAGGTG	0.363													18	84					0	0	0.007413	0	0		C	22843016	C	C	22843016	2	2	58	1	0	0	0	0	0	0	0	1	17840	1567	55	3		3	ZNF280B	22	22843016	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	854526	22843016	28461550	684	41674											
GNAZ	2781	broad.mit.edu	37	chr22	23465440	23465440	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacaagggccagaacacgtAcgaggaggccgctgtctaca	12	5	13	11	3	1	1	0	0	1	1	1	3	1	2	2	3	4	3	2	3	5	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:23465440A>T	uc002zwu.1	+	3	1427	c.890A>T	c.(889-891)TAC>TTC	p.Y297F	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	297						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		CAGAACACGTACGAGGAGGCC	0.572													11	42					0	0	0.000978	0	0		T	23465440	T	T	23465440	3	4	58	1	0	0	0	0	1	0	0	0	6529	391	14	5	896	5	GNAZ	22	23465440	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	622424	23465440	27839126	685	41675											
GGT1	2678	broad.mit.edu	37	chr22	25024357	25024357	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagaaacattgaccaggTgggccgggggttggagaaac	12	5	18	6	1	0	3	0	1	0	2	0	6	0	4	2	6	2	1	2	6	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:25024357T>C	uc003aan.1	+	15	2050	c.1563_splice	c.e15+2	p.Q521_splice	GGT1_uc003aat.1_Splice_Site_p.Q521_splice|GGT1_uc003aau.1_Splice_Site_p.Q521_splice|GGT1_uc003aav.1_Splice_Site_p.Q521_splice|GGT1_uc003aaw.1_Splice_Site_p.Q521_splice|GGT1_uc003aax.1_Splice_Site_p.Q521_splice|GGT1_uc003aay.1_Splice_Site_p.Q177_splice	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor						glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	ATTGACCAGGTGGGCCGGGGG	0.612													6	43					0	0	0.00308	0	0		C	25024357	C	C	25024357	5	2	58	1	0	0	0	0	0	0	1	0	6376	1710	59	3	1607	3	GGT1	22	25024357	Splice_Site	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1558917	25024357	26280209	686	41676											
CRYBB3	1417	broad.mit.edu	37	chr22	25603126	25603126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccgcagctgcagtctgtgCgccgcatccgtgaccagaag	8	6	13	14	4	1	2	0	1	1	1	2	2	2	2	4	0	4	4	4	0	1	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:25603126C>T	uc003abo.1	+	6	655	c.583C>T	c.(583-585)CGC>TGC	p.R195C		NM_004076	NP_004067	P26998	CRBB3_HUMAN	crystallin, beta B3	195	Beta/gamma crystallin 'Greek key' 4.				visual perception		protein binding|structural constituent of eye lens				0						GCAGTCTGTGCGCCGCATCCG	0.662													8	36					0	0	0.00308	0	0		T	25603126	T	T	25603126	3	4	58	1	0	0	0	0	1	0	0	0	3915	768	27	1	601	1	CRYBB3	22	25603126	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	578769	25603126	25701440	687	41677											
MN1	4330	broad.mit.edu	37	chr22	28193409	28193409	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtccgaggcgaactcaccCacgtttggcgaactactgtc	8	9	10	14	5	1	0	1	0	0	0	4	3	2	0	2	2	3	1	2	2	3	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:28193409C>T	uc003adj.2	-	1	4078	c.3123G>A	c.(3121-3123)GTG>GTA	p.V1041V		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	1041							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						CGAACTCACCCACGTTTGGCG	0.627			T	ETV6	AML|meningioma								8	40					0	0	0.006214	0	0		T	28193409	T	T	28193409	2	4	58	1	0	0	0	0	0	0	0	1	9691	581	21	4		4	MN1	22	28193409	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2590283	28193409	23111157	688	41678											
HMOX1	3162	broad.mit.edu	37	chr22	35782986	35782986	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggtgctcaaaaagattgcCcagaaagccctggacctgcc	12	6	10	13	0	1	2	1	0	0	2	1	3	1	3	4	2	4	1	4	2	3	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:35782986C>A	uc003ant.1	+	3	533	c.453C>A	c.(451-453)GCC>GCA	p.A151A		NM_002133	NP_002124	P09601	HMOX1_HUMAN	heme oxygenase (decyclizing) 1	151					angiogenesis|anti-apoptosis|cell death|cellular iron ion homeostasis|endothelial cell proliferation|erythrocyte homeostasis|heme catabolic process|heme oxidation|intracellular protein kinase cascade|low-density lipoprotein particle clearance|negative regulation of leukocyte migration|negative regulation of smooth muscle cell proliferation|positive regulation of chemokine biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of smooth muscle cell proliferation|protein homooligomerization|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hydrogen peroxide|response to nicotine|smooth muscle hyperplasia|transmembrane transport|wound healing involved in inflammatory response	endoplasmic reticulum membrane|extracellular space|microsome	enzyme binding|heme binding|heme oxygenase (decyclizing) activity|protein homodimerization activity|signal transducer activity			ovary(1)	1					NADH(DB00157)	AAAAGATTGCCCAGAAAGCCC	0.642													5	69					0.000602214	0.000634503	0.000602	1	0		A	35782986	A	A	35782986	2	1	58	1	0	0	0	0	0	0	0	1	7259	610	22	5		5	HMOX1	22	35782986	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	7589577	35782986	15521580	689	41679											
C1QTNF6	114904	broad.mit.edu	37	chr22	37578760	37578760	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcaggcccattgggcctGggtcccctttgtcacctgtg	3	11	13	14	0	1	0	1	0	0	0	2	0	2	0	5	4	0	1	5	4	0	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:37578760G>C	uc003aqw.1	-	2	753	c.248C>G	c.(247-249)CCA>CGA	p.P83R	C1QTNF6_uc003aqx.1_Missense_Mutation_p.P102R|C1QTNF6_uc003aqy.1_Missense_Mutation_p.P102R|C1QTNF6_uc003aqz.1_Intron	NM_182486	NP_872292	Q9BXI9	C1QT6_HUMAN	C1q and tumor necrosis factor related protein 6	83	Collagen-like.					collagen					0						CATTGGGCCTGGGTCCCCTTT	0.642													5	14					0	0	0.000602	0	0		C	37578760	C	C	37578760	3	2	58	1	0	0	0	0	1	0	0	0	1970	1348	47	5	535	5	C1QTNF6	22	37578760	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	1795774	37578760	13725806	690	41680											
SOX10	6663	broad.mit.edu	37	chr22	38370125	38370125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcccccatggagcgccCgtcccgcttcgggtctgcct	2	8	11	20	4	1	0	0	0	1	0	4	1	3	1	6	2	2	1	6	2	0	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:38370125C>T	uc003aun.1	-	4	1056	c.778G>A	c.(778-780)GGG>AGG	p.G260R	POLR2F_uc003aum.2_Intron|SOX10_uc003auo.1_Missense_Mutation_p.G260R	NM_006941	NP_008872	P56693	SOX10_HUMAN	SRY (sex determining region Y)-box 10	260						cytoplasm|nucleus	DNA binding|identical protein binding|transcription coactivator activity				0	Melanoma(58;0.045)					ATGGAGCGCCCGTCCCGCTTC	0.622													17	121					0	0	0.006122	0	0		T	38370125	T	T	38370125	3	4	58	1	0	0	0	0	1	0	0	0	14966	652	23	1	626	1	SOX10	22	38370125	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	791365	38370125	12934441	691	41681											
SOX10	6663	broad.mit.edu	37	chr22	38373944	38373944	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccggtggtccaagtgggcGctcttgtagtgggcctggat	4	11	17	9	2	1	0	0	0	1	0	2	1	2	1	3	5	1	2	3	5	2	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:38373944G>A	uc003aun.1	-	3	905	c.627C>T	c.(625-627)AGC>AGT	p.S209S	POLR2F_uc003aum.2_Intron|SOX10_uc003auo.1_Silent_p.S209S	NM_006941	NP_008872	P56693	SOX10_HUMAN	SRY (sex determining region Y)-box 10	209						cytoplasm|nucleus	DNA binding|identical protein binding|transcription coactivator activity				0	Melanoma(58;0.045)					CCAAGTGGGCGCTCTTGTAGT	0.701													5	22					0	0	0.000602	0	0		A	38373944	A	A	38373944	2	1	58	1	0	0	0	0	0	0	0	1	14966	1078	38	1		1	SOX10	22	38373944	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	3819	38373944	12930622	692	41682											
FAM83F	113828	broad.mit.edu	37	chr22	40417839	40417839	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcgcttcagcagcaggcTcttcagtcgccgagccaaga	9	6	12	14	3	3	1	2	0	1	1	4	2	3	1	2	2	3	4	2	2	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:40417839T>A	uc003ayk.1	+	4	1419	c.1325T>A	c.(1324-1326)CTC>CAC	p.L442H		NM_138435	NP_612444	Q8NEG4	FA83F_HUMAN	hypothetical protein LOC113828	442										breast(1)	1						AGCAGCAGGCTCTTCAGTCGC	0.672													8	26					0	0	0.00308	0	0		A	40417839	A	A	40417839	3	1	58	1	0	0	0	0	1	0	0	0	5652	1551	54	5	1339	5	FAM83F	22	40417839	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	2043895	40417839	10886727	693	41683											
PACSIN2	11252	broad.mit.edu	37	chr22	43280459	43280459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcccggaagaagcgaaggcGtttctcctcgaactgctggc	8	8	12	13	4	1	1	0	0	1	1	4	4	2	2	2	3	3	2	2	3	4	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:43280459G>A	uc010gzg.2	-	6	940	c.718C>T	c.(718-720)CGC>TGC	p.R240C	PACSIN2_uc003bdg.3_Missense_Mutation_p.R240C|PACSIN2_uc003bde.3_Missense_Mutation_p.R240C|PACSIN2_uc003bdf.3_Missense_Mutation_p.R240C	NM_007229	NP_009160	Q9UNF0	PACN2_HUMAN	protein kinase C and casein kinase substrate in	240					actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)				AAGCGAAGGCGTTTCTCCTCG	0.527													11	65					0	0	0.008291	0	0		A	43280459	A	A	43280459	3	1	58	1	0	0	0	0	1	0	0	0	11394	1145	40	1	766	1	PACSIN2	22	43280459	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	2862620	43280459	8024107	694	41684											
SMC1B	27127	broad.mit.edu	37	chr22	45755702	45755702	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctccacttcaatgatgtCatccagtgaccccgacaaaa	13	9	5	14	1	2	2	2	2	0	0	4	3	4	2	5	0	1	0	5	0	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:45755702C>A	uc003bgc.2	-	18	2897	c.2845G>T	c.(2845-2847)GAC>TAC	p.D949Y	SMC1B_uc003bgd.2_Missense_Mutation_p.D949Y	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	949					chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TCAATGATGTCATCCAGTGAC	0.398													17	43					1.01871e-10	1.16169e-10	0.008871	1	0		A	45755702	A	A	45755702	3	1	58	1	0	0	0	0	1	0	0	0	14807	826	29	5	894	5	SMC1B	22	45755702	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2475243	45755702	5548864	695	41685											
GTSE1	51512	broad.mit.edu	37	chr22	46704360	46704360	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcctggagccctctggcCggggagaagttcgtggaggt	5	10	17	9	2	1	1	0	0	1	1	2	4	1	3	3	6	2	1	3	6	1	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:46704360C>T	uc011aqy.1	+	4	494	c.282C>T	c.(280-282)GCC>GCT	p.A94A	GTSE1_uc011aqz.1_5'UTR	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	75					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		GCCCTCTGGCCGGGGAGAAGT	0.537													17	71					0	0	0.006122	0	0		T	46704360	T	T	46704360	2	4	58	1	0	0	0	0	0	0	0	1	6901	639	23	1		1	GTSE1	22	46704360	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	948658	46704360	4600206	696	41686											
CELSR1	9620	broad.mit.edu	37	chr22	46931942	46931942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagtcgcggtcgctggcgcGgatggtcagcacctcgtagc	5	7	16	13	7	1	0	1	0	0	0	4	2	1	1	1	4	2	3	1	4	1	1	rs148833987		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:46931942G>A	uc003bhw.1	-	1	1126	c.1126C>T	c.(1126-1128)CGC>TGC	p.R376C		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	376	Extracellular (Potential).|Cadherin 2.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TCGCTGGCGCGGATGGTCAGC	0.657													6	21					0	0	0.001168	0	0		A	46931942	A	A	46931942	3	1	58	1	0	0	0	0	1	0	0	0	3224	1116	39	1	8058	1	CELSR1	22	46931942	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	227582	46931942	4372624	697	41687											
MOV10L1	54456	broad.mit.edu	37	chr22	50530569	50530569	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggacaggaagtgattgcAgttgtggaagaaaataaagt	15	10	14	2	0	0	2	0	1	0	1	0	5	0	5	0	3	1	3	0	3	6	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:50530569A>G	uc003bjj.2	+	2	320	c.237A>G	c.(235-237)GCA>GCG	p.A79A	MOV10L1_uc003bjk.3_Silent_p.A79A|MOV10L1_uc011arp.1_Silent_p.A59A|MOV10L1_uc010han.2_Silent_p.A59A	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	79					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		AAGTGATTGCAGTTGTGGAAG	0.433													12	58					0	0	0.001855	0	0		G	50530569	G	G	50530569	2	3	58	1	0	0	0	0	0	0	0	1	9737	175	7	3		3	MOV10L1	22	50530569	Silent	SNP	A	TCGA-BR-8059-01A-11D-2340-08	3598627	50530569	773997	698	41688											
TYMP	1890	broad.mit.edu	37	chr22	50967983	50967983	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgaagcccctgatgtcCgcttcgctcaggcggcctcc	5	7	11	18	4	1	1	1	1	0	0	4	2	3	1	6	2	1	2	6	2	1	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:50967983C>T	uc003bmb.3	-	1	276	c.156G>A	c.(154-156)GCG>GCA	p.A52A	TYMP_uc003bmc.3_Silent_p.A52A|TYMP_uc003bmd.3_Silent_p.A52A|TYMP_uc010hbd.2_Silent_p.A52A|TYMP_uc003bme.3_Silent_p.A52A|TYMP_uc003bmf.3_Silent_p.A52A|TYMP_uc011arz.1_Silent_p.A52A	NM_001113756	NP_001107228	P19971	TYPH_HUMAN	endothelial cell growth factor 1	52					angiogenesis|cell differentiation|chemotaxis|DNA replication|mitochondrial genome maintenance|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage|pyrimidine nucleotide metabolic process	cytosol	growth factor activity|platelet-derived growth factor receptor binding|pyrimidine-nucleoside phosphorylase activity|thymidine phosphorylase activity			ovary(1)	1		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)	Capecitabine(DB01101)|Docetaxel(DB01248)|Floxuridine(DB00322)|Fluorouracil(DB00544)|Sulfasalazine(DB00795)|Tamoxifen(DB00675)	CCCTGATGTCCGCTTCGCTCA	0.692													7	35					0	0	0.00308	0	0		T	50967983	T	T	50967983	2	4	58	1	0	0	0	0	0	0	0	1	16837	639	23	1		1	TYMP	22	50967983	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	437414	50967983	336583	699	41689											
GPM6B	2824	broad.mit.edu	37	chrX	13795513	13795513	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagggcagagccacatatTtttccggggaaagcattcca	11	9	10	11	1	0	1	0	0	0	1	3	2	3	2	4	3	2	2	4	3	2	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:13795513T>G	uc004cvz.2	-	5	900	c.609A>C	c.(607-609)AAA>AAC	p.K203N	GPM6B_uc004cvx.2_Missense_Mutation_p.K184N|GPM6B_uc011min.1_Missense_Mutation_p.K117N|GPM6B_uc004cwa.2_Missense_Mutation_p.K184N|GPM6B_uc004cvw.2_Missense_Mutation_p.K243N|GPM6B_uc011mim.1_Missense_Mutation_p.K217N|GPM6B_uc004cvy.2_Missense_Mutation_p.K243N	NM_005278	NP_005269	Q13491	GPM6B_HUMAN	glycoprotein M6B isoform 3	203					cell differentiation|nervous system development	integral to membrane					0						AGCCACATATTTTTCCGGGGA	0.428													6	15					0	0	0.001168	0	0		G	13795513	G	G	13795513	3	3	58	1	0	0	0	0	1	0	0	0	6631	1838	64	5	354	5	GPM6B	23	13795513	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08		13795513	141475047	700	41690											
CDKL5	6792	broad.mit.edu	37	chrX	18598025	18598025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccacctgagaaagtaaaaAgctacatctatcagctaatc	16	10	5	10	0	2	1	1	1	1	1	4	2	3	1	2	0	3	3	2	0	7	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:18598025A>G	uc004cym.2	+	6	593	c.340A>G	c.(340-342)AGC>GGC	p.S114G	CDKL5_uc004cyn.2_Missense_Mutation_p.S114G	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	114	Protein kinase.				neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					GAAAGTAAAAAGCTACATCTA	0.343													10	31					0	0	0.008291	0	0		G	18598025	G	G	18598025	3	3	58	1	0	0	0	0	1	0	0	0	3160	72	3	3	358	3	CDKL5	23	18598025	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	4802512	18598025	136672535	701	41691											
SHROOM4	57477	broad.mit.edu	37	chrX	50378091	50378091	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacttggtcatgcccactgaGgcaacagaacctattagggt	11	9	10	11	0	1	2	1	1	0	1	1	2	1	2	2	3	3	1	2	3	4	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:50378091G>T	uc004dpe.2	-	4	1008	c.982C>A	c.(982-984)CTC>ATC	p.L328I	SHROOM4_uc004dpd.3_RNA|SHROOM4_uc004dpf.1_Missense_Mutation_p.L212I	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	328					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					TGCCCACTGAGGCAACAGAAC	0.552													3	10					0.004672	0.00482621	0.004672	1	0		T	50378091	T	T	50378091	3	4	58	1	0	0	0	0	1	0	0	0	14321	1000	35	5	3523	5	SHROOM4	23	50378091	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	31780066	50378091	104892469	702	41692											
GSPT2	23708	broad.mit.edu	37	chrX	51487718	51487718	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggacagacaagagaacaTgcgatgttggcaaaaacggc	15	5	14	7	2	0	2	0	0	0	2	0	5	0	3	0	4	3	2	0	4	4	1			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:51487718T>C	uc004dpl.2	+	1	1222	c.996T>C	c.(994-996)CAT>CAC	p.H332H		NM_018094	NP_060564	Q8IYD1	ERF3B_HUMAN	peptide chain release factor 3	332					cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|translational termination	cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1	Ovarian(276;0.236)					CAAGAGAACATGCGATGTTGG	0.418													12	44					0	0	0.001368	0	0		C	51487718	C	C	51487718	2	2	58	1	0	0	0	0	0	0	0	1	6843	1461	51	3		3	GSPT2	23	51487718	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1109627	51487718	103782842	703	41693											
TSPYL2	64061	broad.mit.edu	37	chrX	53113997	53113997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agctgtacttccagactaacCcctacttcacaaacatggtg	12	10	6	13	0	1	1	1	0	0	1	2	1	2	1	3	1	5	2	3	1	4	5			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:53113997C>T	uc004drw.2	+	3	1078	c.946C>T	c.(946-948)CCC>TCC	p.P316S	TSPYL2_uc004drv.2_Missense_Mutation_p.P360S|TSPYL2_uc004drx.1_5'UTR	NM_022117	NP_071400	Q9H2G4	TSYL2_HUMAN	TSPY-like 2	316					cell cycle|chromatin modification|negative regulation of cell cycle|negative regulation of cell growth|negative regulation of DNA replication|nucleosome assembly|regulation of protein kinase activity|regulation of signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|rDNA binding				0						CCAGACTAACCCCTACTTCAC	0.522													4	32					0	0	0.009096	0	0		T	53113997	T	T	53113997	3	4	58	1	0	0	0	0	1	0	0	0	16686	623	22	4	956	4	TSPYL2	23	53113997	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	1626279	53113997	102156563	704	41694											
MAGEE2	139599	broad.mit.edu	37	chrX	75004886	75004886	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctggcttaccagagacaTggttccaggagacaggagcg	11	8	13	9	1	1	2	0	0	1	2	2	5	2	3	2	4	2	2	2	4	1	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:75004886T>C	uc004ecj.1	-	1	186	c.1A>G	c.(1-3)ATG>GTG	p.M1V		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	1										ovary(1)|skin(1)	2						ACCAGAGACATGGTTCCAGGA	0.582													5	7					0	0	0.000602	0	0		C	75004886	C	C	75004886	3	2	58	1	0	0	0	0	1	0	0	0	9204	1464	51	3	1574	3	MAGEE2	23	75004886	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	21890889	75004886	80265674	705	41695											
MAP7D3	79649	broad.mit.edu	37	chrX	135313820	135313820	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccatgctctccttgggtgaCcctttcacactctccttggg	4	14	8	15	0	3	1	1	1	2	0	6	1	4	1	4	2	1	1	4	2	0	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:135313820C>A	uc004ezt.2	-	8	1387	c.1296G>T	c.(1294-1296)GGG>GGT	p.G432G	MAP7D3_uc004ezs.2_Silent_p.G396G|MAP7D3_uc011mwc.1_Silent_p.G414G|MAP7D3_uc010nsa.1_Silent_p.G390G	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	432						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					CCTTGGGTGACCCTTTCACAC	0.587													29	38					2.65835e-16	3.09408e-16	0.007291	1	0		A	135313820	A	A	135313820	2	1	58	1	0	0	0	0	0	0	0	1	9287	494	18	5		5	MAP7D3	23	135313820	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	60308934	135313820	19956740	706	41696											
MAGEC1	9947	broad.mit.edu	37	chrX	140994648	140994648	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctgtgagctcctcctcCtcctcctccactttattgag	5	15	5	16	0	0	2	0	2	0	0	7	2	7	2	7	0	1	1	7	0	1	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:140994648C>A	uc004fbt.2	+	4	1744	c.1458C>A	c.(1456-1458)TCC>TCA	p.S486S	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	486							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GCTCCTCCTCCTCCTCCTCCA	0.478										HNSCC(15;0.026)			51	98					2.01807e-28	2.37503e-28	0.00361	1	0		A	140994648	A	A	140994648	2	1	58	1	0	0	0	0	0	0	0	1	9198	668	24	5		5	MAGEC1	23	140994648	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08	5680828	140994648	14275912	707	41697											
IDS	3423	broad.mit.edu	37	chrX	148577905	148577905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacaggaattggaccatacGgcacactgatgtttaaggct	12	9	10	10	1	0	1	0	1	0	0	0	3	0	3	2	4	1	3	2	4	3	4			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:148577905G>A	uc011mxe.1	-	6	1049	c.851C>T	c.(850-852)CCG>CTG	p.P284L	IDS_uc011mxf.1_Missense_Mutation_p.P194L|IDS_uc011mxg.1_Missense_Mutation_p.P73L|IDS_uc010nsu.1_Intron|IDS_uc004fcw.3_Missense_Mutation_p.P73L|IDS_uc011mxh.1_Missense_Mutation_p.P284L|IDS_uc011mxi.1_RNA	NM_000202	NP_000193	P22304	IDS_HUMAN	iduronate-2-sulfatase isoform a precursor	284						lysosome	iduronate-2-sulfatase activity|metal ion binding				0	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					TGGACCATACGGCACACTGAT	0.522													20	21					0	0	0.007413	0	0		A	148577905	A	A	148577905	3	1	58	1	0	0	0	0	1	0	0	0	7519	1116	39	1	847	1	IDS	23	148577905	Missense_Mutation	SNP	G	TCGA-BR-8059-01A-11D-2340-08	7583257	148577905	6692655	708	41698											
CD99L2	83692	broad.mit.edu	37	chrX	149938842	149938842	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtagtctgcgttgagacccTctgcaaagggaaaagggcag	11	7	14	9	2	2	1	0	1	2	1	2	3	2	2	1	2	2	4	1	2	4	2			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:149938842T>A	uc004fel.2	-	10	774	c.656A>T	c.(655-657)CAG>CTG	p.Q219L	CD99L2_uc004fek.2_RNA|CD99L2_uc004fem.2_Missense_Mutation_p.Q170L|CD99L2_uc004fen.2_Missense_Mutation_p.Q147L|CD99L2_uc004feo.2_RNA|CD99L2_uc011myb.1_Missense_Mutation_p.Q146L	NM_031462	NP_113650	Q8TCZ2	C99L2_HUMAN	CD99 antigen-like 2 isoform E3'-E4'-E3-E4	219	Cytoplasmic (Potential).				cell adhesion	cell junction|integral to membrane				large_intestine(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GTTGAGACCCTCTGCAAAGGG	0.532													3	25					0	0	0.004672	0	0		A	149938842	A	A	149938842	3	1	58	1	0	0	0	0	1	0	0	0	3054	1565	54	5	140	5	CD99L2	23	149938842	Missense_Mutation	SNP	T	TCGA-BR-8059-01A-11D-2340-08	1360937	149938842	5331718	709	41699											
PASD1	139135	broad.mit.edu	37	chrX	150817162	150817162	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgctgctgctgctgcTgctatctcagacgtatgtac	5	13	11	12	1	1	1	1	0	1	1	2	1	1	1	0	0	8	10	0	0	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:150817162T>A	uc004fev.3	+	9	1037	c.705T>A	c.(703-705)GCT>GCA	p.A235A		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	235	Poly-Ala.					nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ctgctgctgctgctATCTCAG	0.343													24	35					0	0	0.00278	0	0		A	150817162	A	A	150817162	2	1	58	1	0	0	0	0	0	0	0	1	11490	1567	55	5		5	PASD1	23	150817162	Silent	SNP	T	TCGA-BR-8059-01A-11D-2340-08	878320	150817162	4453398	710	41700											
CNGA2	1260	broad.mit.edu	37	chrX	150912810	150912810	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccaacatggaaaccttgtAcactcgctttggccgcctgc	9	9	9	14	2	0	0	0	0	0	0	1	2	0	1	4	2	4	2	4	2	3	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:150912810A>G	uc004fey.1	+	7	2059	c.1835A>G	c.(1834-1836)TAC>TGC	p.Y612C		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	612	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GAAACCTTGTACACTCGCTTT	0.547													8	67					0	0	0.00308	0	0		G	150912810	G	G	150912810	3	3	58	1	0	0	0	0	1	0	0	0	3600	391	14	3	1857	3	CNGA2	23	150912810	Missense_Mutation	SNP	A	TCGA-BR-8059-01A-11D-2340-08	95648	150912810	4357750	711	41701											
HCFC1	3054	broad.mit.edu	37	chrX	153228859	153228859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccagagcctggccgtaattCcaggatatataagtcattca	12	11	8	10	1	2	1	2	0	0	1	4	2	4	2	4	2	1	1	4	2	4	6			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:153228859C>T	uc004fjp.2	-	4	1057	c.529G>A	c.(529-531)GAA>AAA	p.E177K		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	177	Kelch 3.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGCCGTAATTCCAGGATATAT	0.547													12	12					0	0	0.000978	0	0		T	153228859	T	T	153228859	3	4	58	1	0	0	0	0	1	0	0	0	7007	864	30	4	5670	4	HCFC1	23	153228859	Missense_Mutation	SNP	C	TCGA-BR-8059-01A-11D-2340-08	2316049	153228859	2041701	712	41702											
FLNA	2316	broad.mit.edu	37	chrX	153588107	153588107	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccagcacgcaccctcctcGtaaggcgtgtactccacttt	7	9	7	18	3	0	0	0	0	0	0	3	0	2	0	5	1	2	4	5	1	2	3			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:153588107G>A	uc004fkk.2	-	23	4221	c.3972C>T	c.(3970-3972)TAC>TAT	p.Y1324Y	FLNA_uc011mzn.1_5'Flank|FLNA_uc010nuu.1_Silent_p.Y1324Y	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1324	Filamin 11.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CACCCTCCTCGTAAGGCGTGT	0.662													10	19					0	0	0.006214	0	0		A	153588107	A	A	153588107	2	1	58	1	0	0	0	0	0	0	0	1	5947	1140	40	1		1	FLNA	23	153588107	Silent	SNP	G	TCGA-BR-8059-01A-11D-2340-08	359248	153588107	1682453	713	41703											
USP9Y	8287	broad.mit.edu	37	chrY	14848463	14848463	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgaggaggaagaatggCtgacagctgagcgaatggca	13	6	15	7	1	0	4	0	3	0	1	1	7	1	6	1	4	2	3	1	4	3	0			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrY:14848463C>T	uc004fst.1	+	10	2089	c.1144C>T	c.(1144-1146)CTG>TTG	p.L382L	USP9Y_uc010nwu.1_RNA	NM_004654	NP_004645	O00507	USP9Y_HUMAN	ubiquitin specific protease 9, Y-linked	382					BMP signaling pathway|protein deubiquitination|spermatogenesis|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						GGAAGAATGGCTGACAGCTGA	0.328													7	10					0	0	0.004482	0	0		T	14848463	T	T	14848463	2	4	58	1	0	0	0	0	0	0	0	1	17117	796	28	2		2	USP9Y	24	14848463	Silent	SNP	C	TCGA-BR-8059-01A-11D-2340-08		14848463	44525103	714	41704											
S100PBP	64766	broad.mit.edu	37	chr1	33318765	33318765	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccttcggacctcaccacGcggtgagtgggtgattagaa	9	9	12	11	3	1	3	1	2	0	1	3	4	2	4	3	3	0	0	3	3	2	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:33318765G>A	uc001bvz.2	+	6	1387	c.1110G>A	c.(1108-1110)ACG>ACA	p.T370T	S100PBP_uc001bwc.2_Silent_p.T370T|S100PBP_uc001bwd.2_RNA	NM_022753	NP_073590	Q96BU1	S1PBP_HUMAN	S100P binding protein isoform a	370						nucleus	calcium-dependent protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				ACCTCACCACGCGGTGAGTGG	0.348													8	26					0	0	0.00308	0	0		A	33318765	A	A	33318765	2	1	59	1	0	0	0	0	0	0	0	1	13816	1074	38	1		1	S100PBP	1	33318765	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08		33318765	215931856	1	41705											
MACF1	23499	broad.mit.edu	37	chr1	39776014	39776014	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtcgtgactctgtgctgtTctcagtggctgatcgcttgc	4	15	12	10	2	2	2	1	2	2	0	5	2	2	2	0	1	2	4	0	1	1	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:39776014T>G	uc010ois.1	+	26	3234	c.3029T>G	c.(3028-3030)TTC>TGC	p.F1010C	MACF1_uc001cda.1_Missense_Mutation_p.F918C|MACF1_uc001cdc.1_Missense_Mutation_p.F97C|MACF1_uc009vvq.1_Missense_Mutation_p.F67C|MACF1_uc001cdb.1_Missense_Mutation_p.F97C	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1010					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TCTGTGCTGTTCTCAGTGGCT	0.527													18	44					0	0	0.007413	0	0		G	39776014	G	G	39776014	3	3	59	1	0	0	0	0	1	0	0	0	9162	1783	62	5	3123	5	MACF1	1	39776014	Missense_Mutation	SNP	T	TCGA-BR-8077-01A-11D-2340-08	6457249	39776014	209474607	2	41706											
GTF2B	2959	broad.mit.edu	37	chr1	89329732	89329732	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agaatctccaactcgagatgGatcttttgttgctttgtcat	9	16	8	8	1	3	2	1	0	2	2	5	4	3	3	1	1	2	2	1	1	2	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:89329732G>C	uc001dmo.3	-	3	309	c.190C>G	c.(190-192)CCA>GCA	p.P64A	GTF2B_uc009wcw.1_Intron	NM_001514	NP_001505	Q00403	TF2B_HUMAN	general transcription factor IIB	64					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	thyroid hormone receptor binding|translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0131)|Epithelial(280;0.0255)		ACTCGAGATGGATCTTTTGTT	0.398													13	38					0	0	0.013537	0	0		C	89329732	C	C	89329732	3	2	59	1	0	0	0	0	1	0	0	0	6871	1174	41	5	780	5	GTF2B	1	89329732	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	49553718	89329732	159920889	3	41707											
AHCYL1	10768	broad.mit.edu	37	chr1	110561048	110561048	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcgcatgaaaaacagttgtAtcgtatgcaatatgggccac	14	10	9	8	2	0	1	0	1	0	0	2	1	0	1	1	1	2	5	1	1	6	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:110561048A>C	uc001dyx.2	+	12	1544	c.1177A>C	c.(1177-1179)ATC>CTC	p.I393L	AHCYL1_uc010ovw.1_Missense_Mutation_p.I346L|AHCYL1_uc001dyy.2_Missense_Mutation_p.I346L|AHCYL1_uc010ovx.1_Missense_Mutation_p.I346L	NM_006621	NP_006612	O43865	SAHH2_HUMAN	S-adenosylhomocysteine hydrolase-like 1	393	NAD binding (By similarity).				one-carbon metabolic process	endoplasmic reticulum	adenosylhomocysteinase activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0259)|Colorectal(144;0.123)|all cancers(265;0.134)|Epithelial(280;0.141)|LUSC - Lung squamous cell carcinoma(189;0.143)		AAACAGTTGTATCGTATGCAA	0.408													3	19					0	0	0.004672	0	0		C	110561048	C	C	110561048	3	2	59	1	0	0	0	0	1	0	0	0	410	449	16	5	1223	5	AHCYL1	1	110561048	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	21231316	110561048	138689573	4	41708											
POGZ	23126	broad.mit.edu	37	chr1	151413529	151413529	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcatgggcagcgatgggcActggagccgagactggctgc	9	5	17	10	2	0	1	0	0	0	1	0	4	0	2	1	4	4	4	1	4	1	0			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:151413529A>T	uc001eyd.1	-	3	464	c.158T>A	c.(157-159)GTG>GAG	p.V53E	POGZ_uc001eye.1_Intron|POGZ_uc010pdb.1_Missense_Mutation_p.V53E|POGZ_uc001eyf.1_Intron|POGZ_uc010pdc.1_Intron|POGZ_uc009wmv.1_Missense_Mutation_p.V53E|POGZ_uc010pdd.1_Intron|POGZ_uc001eyg.1_Missense_Mutation_p.V53E	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	53					cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			AGCGATGGGCACTGGAGCCGA	0.547													14	36					0	0	0.016723	0	0		T	151413529	T	T	151413529	3	4	59	1	0	0	0	0	1	0	0	0	12205	159	6	5	4156	5	POGZ	1	151413529	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	40852481	151413529	97837092	5	41709											
S100A7L2	645922	broad.mit.edu	37	chr1	153410796	153410796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catgactttctcacctagagGgatattcatctttgctttca	9	16	6	10	0	4	2	3	1	2	1	5	3	4	3	1	1	1	1	1	1	2	6			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:153410796G>A	uc010pdx.1	-	2	121	c.43C>T	c.(43-45)CCT>TCT	p.P15S		NM_001045479	NP_001038944			S100 calcium binding protein A7-like 2											ovary(1)	1	all_lung(78;2.4e-33)|Lung NSC(65;8.13e-32)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			TCACCTAGAGGGATATTCATC	0.398													10	35					0	0	0.008291	0	0		A	153410796	A	A	153410796	3	1	59	1	0	0	0	0	1	0	0	0	13810	1232	43	4	303	4	S100A7L2	1	153410796	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	1997267	153410796	95839825	6	41710											
APOA2	336	broad.mit.edu	37	chr1	161192255	161192255	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagaagttaaccagttcCgttccagccttcttgatcag	10	12	7	12	1	3	2	2	1	1	1	5	2	5	2	4	0	2	3	4	0	3	5	rs138452270		TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:161192255C>T	uc001fzc.1	-	4	301	c.243G>A	c.(241-243)ACG>ACA	p.T81T	APOA2_uc001fzb.1_RNA	NM_001643	NP_001634	P02652	APOA2_HUMAN	apolipoprotein A-II preproprotein	81					cholesterol efflux|cholesterol homeostasis|diacylglycerol catabolic process|high-density lipoprotein particle assembly|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|interspecies interaction between organisms|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of cholesterol import|negative regulation of cholesterol transporter activity|negative regulation of cytokine secretion involved in immune response|negative regulation of lipase activity|negative regulation of lipid catabolic process|negative regulation of very-low-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|phospholipid catabolic process|phospholipid efflux|positive regulation of cholesterol esterification|positive regulation of interleukin-8 biosynthetic process|positive regulation of lipid catabolic process|protein folding|regulation of protein stability|response to glucose stimulus|reverse cholesterol transport|triglyceride metabolic process|triglyceride-rich lipoprotein particle remodeling	chylomicron|endoplasmic reticulum lumen|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	apolipoprotein receptor binding|cholesterol binding|high-density lipoprotein particle receptor binding|lipase inhibitor activity|phosphatidylcholine binding|phosphatidylcholine-sterol O-acyltransferase activator activity|protein heterodimerization activity|protein homodimerization activity			skin(1)	1	all_cancers(52;1.86e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			TAACCAGTTCCGTTCCAGCCT	0.498													66	93					0	0	0.01441	0	0		T	161192255	T	T	161192255	2	4	59	1	0	0	0	0	0	0	0	1	782	639	23	1		1	APOA2	1	161192255	Silent	SNP	C	TCGA-BR-8077-01A-11D-2340-08	7781459	161192255	88058366	7	41711											
ATP1B1	481	broad.mit.edu	37	chr1	169099314	169099314	+	RNA	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaaatgtccttcccgttCagtgcactggcaaggtaaag	11	9	9	12	1	1	0	1	0	0	0	3	0	3	0	3	2	1	4	3	2	4	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:169099314C>A	uc001gfs.1	+	5		c.759C>A						P05026	AT1B1_HUMAN	Synthetic construct DNA, clone: pF1KB8186, Homo sapiens ATP1B1 gene for ATPase, Na+/K+ transporting, beta 1 polypeptide, without stop codon, in Flexi system.						ATP biosynthetic process|blood coagulation|leukocyte migration	sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	all_hematologic(923;0.208)					CCTTCCCGTTCAGTGCACTGG	0.443													11	36					4.36969e-10	4.78193e-10	0.016723	1	0		A	169099314	A	A	169099314	1	1	59	0	1	0	0	0	0	0	0	0	1133	827	29	5		5	ATP1B1	1	169099314	RNA	SNP	C	TCGA-BR-8077-01A-11D-2340-08	7907059	169099314	80151307	8	41712											
CACNA1E	777	broad.mit.edu	37	chr1	181546939	181546939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacccacttcaatactcacGtggacctgaggaccctccgg	10	7	9	15	2	2	1	2	1	0	0	3	4	3	3	4	3	2	0	4	3	3	2	rs140645319	by1000genomes	TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:181546939G>A	uc001gow.2	+	4	715	c.550G>A	c.(550-552)GTG>ATG	p.V184M	CACNA1E_uc009wxr.2_Missense_Mutation_p.V91M|CACNA1E_uc009wxs.2_Missense_Mutation_p.V91M	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	184	I.|Extracellular (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CAATACTCACGTGGACCTGAG	0.547													3	19					0	0	0.009096	0	0		A	181546939	A	A	181546939	3	1	59	1	0	0	0	0	1	0	0	0	2545	1145	40	1	564	1	CACNA1E	1	181546939	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	12447625	181546939	67703682	9	41713											
SLC26A9	115019	broad.mit.edu	37	chr1	205901913	205901913	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggccattgactgcaggaAggttggccagcagagcaaat	13	6	14	8	0	0	3	0	1	0	2	0	4	0	4	2	4	3	4	2	4	2	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:205901913A>T	uc001hdq.2	-	4	407	c.293T>A	c.(292-294)CTT>CAT	p.L98H	SLC26A9_uc001hdp.2_Missense_Mutation_p.L98H	NM_052934	NP_443166	Q7LBE3	S26A9_HUMAN	solute carrier family 26, member 9 isoform a	98	Helical; (Potential).					integral to membrane	chloride channel activity|secondary active sulfate transmembrane transporter activity			ovary(1)|skin(1)	2	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0458)			GACTGCAGGAAGGTTGGCCAG	0.572													4	54					0	0	0.009096	0	0		T	205901913	T	T	205901913	3	4	59	1	0	0	0	0	1	0	0	0	14549	72	3	5	2450	5	SLC26A9	1	205901913	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	24354974	205901913	43348708	10	41714											
TRAF3IP3	80342	broad.mit.edu	37	chr1	209933473	209933473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcgcaggcaagagatccGtgaaagccgccgctgccgtc	9	5	14	13	5	0	3	0	2	0	1	2	4	1	3	4	1	3	3	4	1	2	0	rs142003331	byFrequency	TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:209933473G>A	uc001hho.2	+	3	379	c.89G>A	c.(88-90)CGT>CAT	p.R30H	TRAF3IP3_uc001hhl.2_Missense_Mutation_p.R30H|TRAF3IP3_uc001hhm.1_Missense_Mutation_p.R30H|TRAF3IP3_uc001hhn.2_Missense_Mutation_p.R30H|TRAF3IP3_uc009xcr.2_Missense_Mutation_p.R30H	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	30	Cytoplasmic (Potential).					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		CAAGAGATCCGTGAAAGCCGC	0.627													3	39					0	0	0.004672	0	0		A	209933473	A	A	209933473	3	1	59	1	0	0	0	0	1	0	0	0	16468	1145	40	1	91	1	TRAF3IP3	1	209933473	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	4031560	209933473	39317148	11	41715											
SLC30A10	55532	broad.mit.edu	37	chr1	220091652	220091652	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtagcagaatggcagcggtCtccttgataagcgggaaggc	10	8	15	8	2	1	2	0	1	1	1	2	3	1	3	1	4	3	3	1	4	4	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:220091652C>T	uc001hlw.2	-	3	1114	c.903G>A	c.(901-903)GAG>GAA	p.E301E	SLC30A10_uc001hlu.1_RNA|SLC30A10_uc001hlv.2_Silent_p.E56E|SLC30A10_uc001hlx.2_Silent_p.E76E	NM_018713	NP_061183	Q6XR72	ZNT10_HUMAN	solute carrier family 30 (zinc transporter),	301	Cytoplasmic (Potential).				zinc ion transport	integral to membrane|plasma membrane	cation transmembrane transporter activity				0				GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.209)		TGGCAGCGGTCTCCTTGATAA	0.468													7	78					0	0	0.001984	0	0		T	220091652	T	T	220091652	2	4	59	1	0	0	0	0	0	0	0	1	14579	912	32	4		4	SLC30A10	1	220091652	Silent	SNP	C	TCGA-BR-8077-01A-11D-2340-08	10158179	220091652	29158969	12	41716											
ARID4B	51742	broad.mit.edu	37	chr1	235377337	235377337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcttcttctttattcgtttCatctcttgaaaggtttaaaa	10	20	4	7	1	5	1	1	1	4	0	7	1	5	1	0	1	0	2	0	1	4	9			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr1:235377337C>T	uc001hwq.2	-	17	2086	c.1588G>A	c.(1588-1590)GAA>AAA	p.E530K	ARID4B_uc001hwr.2_Intron|ARID4B_uc001hws.3_Intron|ARID4B_uc001hwt.3_Missense_Mutation_p.E211K	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	530	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			tTATTCGTTTCATCTCTTGAA	0.189													10	23					0	0	0.006214	0	0		T	235377337	T	T	235377337	3	4	59	1	0	0	0	0	1	0	0	0	920	835	29	4	2382	4	ARID4B	1	235377337	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	15285685	235377337	13873284	13	41717											
SRBD1	55133	broad.mit.edu	37	chr2	45620206	45620207	+	Frame_Shift_Ins	INS	-	T	T																															cttttcaaggaatgaatttaINSttttttgttgcatttcaggc																										TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr2:45620206_45620207insT	uc002rus.2	-	20	2651_2652	c.2575_2576insA	c.(2575-2577)ATAfs	p.I859fs	SRBD1_uc010yoc.1_Frame_Shift_Ins_p.I378fs	NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	859					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			GAATGAATTTATTTTTTGTTGC	0.386													26	30	---	---	---	---						.	T	45620207	T	T	45620206	7	5	59	1	0	1	1	0	0	0	0	0	15158	449	16	0	419	0	SRBD1	2	45620206	Frame_Shift_Ins	INS	-	TCGA-BR-8077-01A-11D-2340-08		45620206	197579167	14	41718											
PNPT1	87178	broad.mit.edu	37	chr2	55874501	55874501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaaatatctgtcagcaaaCgataatcttctatttcaccc	14	12	3	12	1	5	0	2	0	3	0	5	1	5	0	2	0	2	1	2	0	6	5			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr2:55874501C>T	uc002rzf.2	-	19	1636	c.1583G>A	c.(1582-1584)CGT>CAT	p.R528H	PNPT1_uc002rzg.2_RNA	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1	528					mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TGTCAGCAAACGATAATCTTC	0.289													6	47					0	0	0.001168	0	0		T	55874501	T	T	55874501	3	4	59	1	0	0	0	0	1	0	0	0	12192	536	19	1	808	1	PNPT1	2	55874501	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	10254295	55874501	187324872	15	41719											
RETSAT	54884	broad.mit.edu	37	chr2	85571127	85571127	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tactttaccccctaccttccCctccagctgtgggaacagtt	7	12	6	16	0	0	0	0	0	0	0	2	1	2	1	6	1	5	2	6	1	4	6			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr2:85571127C>A	uc002spd.2	-	9	1719	c.1528G>T	c.(1528-1530)GGG>TGG	p.G510W	RETSAT_uc010fge.2_Intron|RETSAT_uc010ysm.1_Missense_Mutation_p.G449W|RETSAT_uc010fgf.2_Missense_Mutation_p.G301W	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	510					retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(2)	2					Vitamin A(DB00162)	CCTACCTTCCCCTCCAGCTGT	0.542													58	101					8.72158e-25	9.91866e-25	0.01441	1	0		A	85571127	A	A	85571127	3	1	59	1	0	0	0	0	1	0	0	0	13263	623	22	5	316	5	RETSAT	2	85571127	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	29696626	85571127	157628246	16	41720											
NEB	4703	broad.mit.edu	37	chr2	152483704	152483704	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcctctcagccactggagatCagatttgtaaatgttctgga	10	12	10	9	0	3	2	2	0	2	2	4	4	3	3	2	2	1	2	2	2	2	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr2:152483704C>G	uc010fnx.2	-	66	9621	c.9430G>C	c.(9430-9432)GAT>CAT	p.D3144H		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3144	Nebulin 85.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CACTGGAGATCAGATTTGTAA	0.393													29	12					0	0	0.00632	0	0		G	152483704	G	G	152483704	3	3	59	1	0	0	0	0	1	0	0	0	10321	826	29	5	15979	5	NEB	2	152483704	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	66912577	152483704	90715669	17	41721											
LRP2	4036	broad.mit.edu	37	chr2	170072858	170072858	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcccagtaaagagagtttTcacagatgtgccatccatgt	11	12	9	9	0	1	2	1	0	0	2	3	3	3	2	3	0	1	3	3	0	2	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr2:170072858T>C	uc002ues.2	-	35	5944	c.5731A>G	c.(5731-5733)AAA>GAA	p.K1911E		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1911	LDL-receptor class B 17.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AAGAGAGTTTTCACAGATGTG	0.493													20	25					0	0	0.007413	0	0		C	170072858	C	C	170072858	3	2	59	1	0	0	0	0	1	0	0	0	8974	1792	62	3	8416	3	LRP2	2	170072858	Missense_Mutation	SNP	T	TCGA-BR-8077-01A-11D-2340-08	17589154	170072858	73126515	18	41722											
DNAH7	56171	broad.mit.edu	37	chr2	196729342	196729342	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atctggtgacagactgccttCcactccctccaacccctact	8	10	5	18	0	1	2	0	1	1	1	4	2	4	2	6	1	3	0	6	1	2	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr2:196729342C>G	uc002utj.3	-	41	7138	c.7037G>C	c.(7036-7038)GGA>GCA	p.G2346A		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2346	ATP (Potential).|AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AGACTGCCTTCCACTCCCTCC	0.473													6	62					0	0	0.001984	0	0		G	196729342	G	G	196729342	3	3	59	1	0	0	0	0	1	0	0	0	4612	855	30	5	5137	5	DNAH7	2	196729342	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	26656484	196729342	46470031	19	41723											
CCNYL1	151195	broad.mit.edu	37	chr2	208611776	208611776	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctctattttacaggtttaCttagaaaggcttttaactta	11	18	6	6	0	1	1	0	0	1	1	1	1	1	1	0	2	4	3	0	2	7	9			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr2:208611776C>T	uc002vci.2	+	6	849	c.492C>T	c.(490-492)TAC>TAT	p.Y164Y	CCNYL1_uc002vch.2_Silent_p.Y145Y	NM_001142300	NP_001135772	Q8N7R7	CCYL1_HUMAN	cyclin Y-like 1 isoform 1	215	Cyclin N-terminal.				regulation of cyclin-dependent protein kinase activity		protein kinase binding				0				LUSC - Lung squamous cell carcinoma(261;0.0731)|Epithelial(149;0.139)|Lung(261;0.14)		TACAGGTTTACTTAGAAAGGC	0.318													13	36					0	0	0.013537	0	0		T	208611776	T	T	208611776	2	4	59	1	0	0	0	0	0	0	0	1	2940	576	20	4		4	CCNYL1	2	208611776	Silent	SNP	C	TCGA-BR-8077-01A-11D-2340-08	11882434	208611776	34587597	20	41724											
GMPS	8833	broad.mit.edu	37	chr3	155649637	155649637	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcacttatttttctggctagGcttatacctcgcatgtgtca	7	17	7	10	1	3	0	2	0	1	0	4	0	3	0	1	2	1	3	1	2	4	6			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr3:155649637G>C	uc003faq.2	+	13	1979	c.1644G>C	c.(1642-1644)AGG>AGC	p.R548S	GMPS_uc011bom.1_Missense_Mutation_p.R449S	NM_003875	NP_003866	P49915	GUAA_HUMAN	guanine monophosphate synthetase	548					glutamine metabolic process|purine base biosynthetic process	cytosol	ATP binding|GMP synthase (glutamine-hydrolyzing) activity|GMP synthase activity			ovary(2)|lung(1)	3			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TTCTGGCTAGGCTTATACCTC	0.428			T	MLL	AML								24	48					0	0	0.016522	0	0		C	155649637	C	C	155649637	3	2	59	1	0	0	0	0	1	0	0	0	6513	1194	42	5	1694	5	GMPS	3	155649637	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08		155649637	42372793	21	41725											
CRIPAK	285464	broad.mit.edu	37	chr4	1388392	1388392	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcatgtgcccatgtggaGtgcccgcctgctcacacatg	6	10	11	14	1	2	0	2	0	0	0	2	1	2	1	3	1	4	2	3	1	0	0			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr4:1388392G>A	uc003gdf.2	+	1	3053	c.93G>A	c.(91-93)GAG>GAA	p.E31E		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	31					ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			CCCATGTGGAGTGCCCGCCTG	0.622													29	452					0	0	0.009718	0	0		A	1388392	A	A	1388392	2	1	59	1	0	0	0	0	0	0	0	1	3880	1020	36	4		4	CRIPAK	4	1388392	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08		1388392	189765884	22	41726											
PI4K2B	55300	broad.mit.edu	37	chr4	25256828	25256828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaatcaggggtacctttccGaagcgggtgcctatcttgtg	7	12	12	10	2	2	0	1	0	1	0	3	1	3	0	3	3	3	1	3	3	4	5			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr4:25256828G>A	uc003grk.2	+	3	698	c.565G>A	c.(565-567)GAA>AAA	p.E189K	PI4K2B_uc011bxs.1_Missense_Mutation_p.E93K	NM_018323	NP_060793	Q8TCG2	P4K2B_HUMAN	phosphatidylinositol 4-kinase type 2 beta	189	PI3K/PI4K.					cytoplasm|membrane	1-phosphatidylinositol 4-kinase activity|ATP binding			ovary(2)|skin(2)	4		Breast(46;0.173)				GTACCTTTCCGAAGCGGGTGC	0.443													35	15					0	0	0.007835	0	0		A	25256828	A	A	25256828	3	1	59	1	0	0	0	0	1	0	0	0	11891	1059	37	1	575	1	PI4K2B	4	25256828	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	23868436	25256828	165897448	23	41727											
CDH9	1007	broad.mit.edu	37	chr5	26903778	26903778	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tataatcccttcctgtgtatCcttgtcagtgatgacatcga	9	15	7	10	1	1	2	1	2	0	0	5	3	4	2	3	0	0	1	3	0	3	5			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr5:26903778C>A	uc003jgs.1	-	6	1136	c.967G>T	c.(967-969)GAT>TAT	p.D323Y	CDH9_uc010iug.2_Missense_Mutation_p.D323Y	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	323	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TCCTGTGTATCCTTGTCAGTG	0.403													10	252					2.17888e-05	2.31174e-05	0.006214	1	0		A	26903778	A	A	26903778	3	1	59	1	0	0	0	0	1	0	0	0	3120	855	30	5	1430	5	CDH9	5	26903778	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08		26903778	154011482	24	41728											
RXFP3	51289	broad.mit.edu	37	chr5	33937437	33937437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accggacccgaggacacggcCggggcgactgctgcggccgg	6	2	18	15	7	0	0	0	0	0	0	0	4	0	2	4	7	2	1	4	7	0	0			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr5:33937437C>T	uc003jic.1	+	1	949	c.592C>T	c.(592-594)CGG>TGG	p.R198W		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	198	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						AGGACACGGCCGGGGCGACTG	0.672													5	116					0	0	0.014758	0	0		T	33937437	T	T	33937437	3	4	59	1	0	0	0	0	1	0	0	0	13786	643	23	1	594	1	RXFP3	5	33937437	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	7033659	33937437	146977823	25	41729											
AGXT2	64902	broad.mit.edu	37	chr5	35035360	35035360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctatgttgtttgagtgcGccctggccatcagcatggcc	5	13	12	11	1	2	1	1	1	1	0	2	1	2	1	3	2	2	3	3	2	1	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr5:35035360G>A	uc003jjf.2	-	5	627	c.548C>T	c.(547-549)GCG>GTG	p.A183V	AGXT2_uc011com.1_Missense_Mutation_p.A183V|AGXT2_uc011con.1_Missense_Mutation_p.A91V	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	183					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	GTTTGAGTGCGCCCTGGCCAT	0.433													107	80					0	0	0.01441	0	0		A	35035360	A	A	35035360	3	1	59	1	0	0	0	0	1	0	0	0	405	1087	38	1	1036	1	AGXT2	5	35035360	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	1097923	35035360	145879900	26	41730											
UGT3A2	167127	broad.mit.edu	37	chr5	36037997	36037997	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aactttttggcttctactcgGaccatgttttcaggctggtc	6	16	9	10	1	2	0	1	0	1	0	4	1	2	1	1	4	2	3	1	4	2	6			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr5:36037997G>A	uc003jjz.1	-	6	1290	c.1197C>T	c.(1195-1197)GTC>GTT	p.V399V	UGT3A2_uc011cos.1_Silent_p.V365V|UGT3A2_uc011cot.1_Silent_p.V97V	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	399	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTTCTACTCGGACCATGTTTT	0.478													12	188					0	0	0.016723	0	0		A	36037997	A	A	36037997	2	1	59	1	0	0	0	0	0	0	0	1	16990	1161	41	4		4	UGT3A2	5	36037997	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08	1002637	36037997	144877263	27	41731											
CDC20B	166979	broad.mit.edu	37	chr5	54415675	54415675	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggacaggtccacacagtCacatcattcttgggagtacc	10	9	11	11	0	3	0	2	0	1	0	4	2	4	2	2	3	1	1	2	3	1	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr5:54415675C>A	uc003jpo.1	-	11	1588	c.1413G>T	c.(1411-1413)GTG>GTT	p.V471V	CDC20B_uc003jpn.1_Silent_p.V471V|CDC20B_uc010ivu.1_Silent_p.V429V	NM_152623	NP_689836	Q86Y33	CD20B_HUMAN	CDC20 cell division cycle 20 homolog B isoform	471	WD 6.										0		Lung NSC(810;0.000744)|Breast(144;0.159)|Prostate(74;0.194)	LUSC - Lung squamous cell carcinoma(15;0.225)			TCCACACAGTCACATCATTCT	0.423													13	63					1.05317e-09	1.13821e-09	0.020292	1	0		A	54415675	A	A	54415675	2	1	59	1	0	0	0	0	0	0	0	1	3063	813	29	5		5	CDC20B	5	54415675	Silent	SNP	C	TCGA-BR-8077-01A-11D-2340-08	18377678	54415675	126499585	28	41732											
ZNF366	167465	broad.mit.edu	37	chr5	71757315	71757315	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgatcatcttcatttcCttctgcatccttggcaattt	6	20	4	11	0	5	1	2	1	3	0	7	1	7	1	2	1	1	2	2	1	1	6			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr5:71757315C>G	uc003kce.1	-	2	195	c.9G>C	c.(7-9)AAG>AAC	p.K3N		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	3					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		TCTTCATTTCCTTCTGCATCC	0.423													22	32					0	0	0.014323	0	0		G	71757315	G	G	71757315	3	3	59	1	0	0	0	0	1	0	0	0	17895	680	24	5	2241	5	ZNF366	5	71757315	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	17341640	71757315	109157945	29	41733											
GPR98	84059	broad.mit.edu	37	chr5	90024493	90024493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatttccttcaggtcttcaGgtggaatggaggaagcttcg	9	12	12	8	1	3	0	2	0	1	0	5	3	4	3	1	5	1	1	1	5	2	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr5:90024493G>A	uc003kju.2	+	49	10265	c.10169G>A	c.(10168-10170)AGG>AAG	p.R3390K	GPR98_uc003kjt.2_Missense_Mutation_p.R1096K|GPR98_uc003kjv.2_Missense_Mutation_p.R990K	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3390	Extracellular (Potential).|EAR 3.				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CAGGTCTTCAGGTGGAATGGA	0.433													26	64					0	0	0.008361	0	0		A	90024493	A	A	90024493	3	1	59	1	0	0	0	0	1	0	0	0	6737	1000	35	4	10363	4	GPR98	5	90024493	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	18267178	90024493	90890767	30	41734											
FER	2241	broad.mit.edu	37	chr5	108134020	108134020	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaagaatatgcatctacttTacagaacctttgtaatcaag	16	13	5	7	0	2	2	1	0	1	2	2	2	2	2	1	0	4	2	1	0	9	7			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr5:108134020T>A	uc003kop.1	+	3	521	c.137T>A	c.(136-138)TTA>TAA	p.L46*	FER_uc011cve.1_Intron|FER_uc011cvf.1_RNA|FER_uc003koq.2_Nonsense_Mutation_p.L46*|FER_uc011cvg.1_5'UTR	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	46	Important for interaction with membranes containing phosphoinositides.|FCH.				intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		GCATCTACTTTACAGAACCTT	0.328													4	21					0	0	0.009096	0	0		A	108134020	A	A	108134020	4	1	59	1	0	0	0	0	0	1	0	0	5827	1764	61	5	139	5	FER	5	108134020	Nonsense_Mutation	SNP	T	TCGA-BR-8077-01A-11D-2340-08	18109527	108134020	72781240	31	41735											
PCDHA11	56138	broad.mit.edu	37	chr5	140250469	140250469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtggtggcgaaggtgcGcgcagtggatgcggactcag	7	6	18	10	5	1	0	1	0	0	0	1	3	1	2	1	5	2	1	1	5	1	0			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr5:140250469G>A	uc003lia.2	+	1	2639	c.1781G>A	c.(1780-1782)CGC>CAC	p.R594H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.R594H	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	594	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGAAGGTGCGCGCAGTGGAT	0.687													18	119					0	0	0.007413	0	0		A	140250469	A	A	140250469	3	1	59	1	0	0	0	0	1	0	0	0	11540	1087	38	1	1783	1	PCDHA11	5	140250469	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	32116449	140250469	40664791	32	41736											
UIMC1	51720	broad.mit.edu	37	chr5	176395935	176395936	+	Missense_Mutation	DNP	AC	CT	CT																															gaataccccagaaatagttcAcagtgcccccagtgtcctgg																										TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr5:176395935_176395936AC>CT	uc011dfp.1	-	6	987_988	c.820_821GT>AG	c.(820-822)GTG>AGG	p.V274R	UIMC1_uc003mfc.1_Missense_Mutation_p.V151R|UIMC1_uc003mfd.1_Intron|UIMC1_uc003mfg.1_Intron|UIMC1_uc003mff.1_Intron	NM_016290	NP_057374	Q96RL1	UIMC1_HUMAN	ubiquitin interaction motif containing 1	274	AIR.				double-strand break repair|G2/M transition DNA damage checkpoint|histone H2A K63-linked deubiquitination|negative regulation of transcription, DNA-dependent|positive regulation of DNA repair|response to ionizing radiation|transcription, DNA-dependent	BRCA1-A complex	histone binding|K63-linked polyubiquitin binding			ovary(3)|skin(1)	4	all_cancers(89;7.96e-05)|Renal(175;0.000269)|Lung NSC(126;0.00476)|all_lung(126;0.00806)	Medulloblastoma(196;0.0145)|all_neural(177;0.0325)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GAAATAGTTCACAGTGCCCCCA	0.505													4	78					0	0	0.004672	0	0		CT	176395936	CT	CT	176395935	3	2	59	1	0	0	0	0	1	0	0	0	16997	159	6	5	1378	5	UIMC1	5	176395935	Missense_Mutation	DNP	AC	TCGA-BR-8077-01A-11D-2340-08	36145466	176395935	4519325	33	41737											
CDYL	9425	broad.mit.edu	37	chr6	4937947	4937947	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgacaggaaaagagaaaGcactaaaatggcagaagcta	21	4	11	5	0	0	4	0	1	0	3	0	6	0	5	0	2	2	3	0	2	7	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr6:4937947G>T	uc003mwi.2	+	6	1390	c.1259G>T	c.(1258-1260)AGC>ATC	p.S420I	CDYL_uc003mwj.2_Missense_Mutation_p.S366I|CDYL_uc003mwk.2_Missense_Mutation_p.S131I|CDYL_uc011dhx.1_Missense_Mutation_p.S234I|CDYL_uc011dhy.1_Missense_Mutation_p.S234I	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	420					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		AAAAGAGAAAGCACTAAAATG	0.403													13	28					5.50884e-06	5.9169e-06	0.013537	1	0		T	4937947	T	T	4937947	3	4	59	1	0	0	0	0	1	0	0	0	3188	971	34	5	1111	5	CDYL	6	4937947	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08		4937947	166177120	34	41738											
DNAH8	1769	broad.mit.edu	37	chr6	38840773	38840773	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgacaataaaactctgacGttagctaatggagatcgcat	15	10	9	7	2	1	3	0	2	1	1	2	5	1	3	0	1	2	3	0	1	5	3	rs114719419		TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr6:38840773G>T	uc003ooe.1	+	49	7278	c.6678G>T	c.(6676-6678)ACG>ACT	p.T2226T		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8									p.T2226M(1)		skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AAACTCTGACGTTAGCTAATG	0.428													4	74					0.00909568	0.00936478	0.009096	1	0		T	38840773	T	T	38840773	2	4	59	1	0	0	0	0	0	0	0	1	4613	1132	40	5		5	DNAH8	6	38840773	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08	33902826	38840773	132274294	35	41739											
SNAP91	9892	broad.mit.edu	37	chr6	84371281	84371281	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaaaagccttttcattcAaatatctactatagcgcctt	15	13	4	9	1	3	1	2	0	1	1	3	1	3	1	2	0	3	0	2	0	8	8			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr6:84371281A>C	uc011dze.1	-	5	709	c.392T>G	c.(391-393)TTG>TGG	p.L131W	SNAP91_uc003pkb.2_Missense_Mutation_p.L96W|SNAP91_uc003pkc.2_Missense_Mutation_p.L131W|SNAP91_uc003pkd.2_Missense_Mutation_p.L131W|SNAP91_uc003pka.2_Missense_Mutation_p.L131W|SNAP91_uc011dzf.1_Missense_Mutation_p.L12W	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	131	ENTH.				clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		CTTTTCATTCAAATATCTACT	0.328													4	8					0	0	0.014758	0	0		C	84371281	C	C	84371281	3	2	59	1	0	0	0	0	1	0	0	0	14858	131	5	5	2427	5	SNAP91	6	84371281	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	45530508	84371281	86743786	36	41740											
NCOA7	135112	broad.mit.edu	37	chr6	126176272	126176272	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atacagtagttttagagccaGacaagtgcaacattgctgtg	13	11	10	7	0	0	2	0	0	0	2	0	2	0	2	1	0	5	4	1	0	5	5			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr6:126176272G>C	uc010kes.2	+	5	606	c.157G>C	c.(157-159)GAC>CAC	p.D53H	NCOA7_uc003qae.3_Missense_Mutation_p.D53H|NCOA7_uc003qah.2_Missense_Mutation_p.D53H|NCOA7_uc003qai.2_Missense_Mutation_p.D53H|NCOA7_uc010ket.2_Intron|NCOA7_uc003qaf.2_Missense_Mutation_p.D53H|NCOA7_uc003qag.2_Missense_Mutation_p.D53H|NCOA7_uc003qaj.2_Missense_Mutation_p.D53H	NM_181782	NP_861447	Q8NI08	NCOA7_HUMAN	nuclear receptor coactivator 7 isoform 1	53					cell wall macromolecule catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)		TTTAGAGCCAGACAAGTGCAA	0.378													27	34					0	0	0.008361	0	0		C	126176272	C	C	126176272	3	2	59	1	0	0	0	0	1	0	0	0	10253	942	33	5	163	5	NCOA7	6	126176272	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	41804991	126176272	44938795	37	41741											
RAPGEF5	9771	broad.mit.edu	37	chr7	22190123	22190123	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggctgaagttcatgcttttCtttatttgaaaaaaaaaaaa	16	15	6	4	0	2	2	1	2	1	0	2	2	2	2	0	1	1	3	0	1	8	6			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr7:22190123C>T	uc003svg.2	-	18	1641	c.1328_splice	c.e18-1	p.E443_splice	RAPGEF5_uc011jyl.1_Splice_Site_p.E124_splice	NM_012294	NP_036426	Q92565	RPGF5_HUMAN	Rap guanine nucleotide exchange factor (GEF) 5						nervous system development|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	nucleus	GTP-dependent protein binding|Rap guanyl-nucleotide exchange factor activity			ovary(1)	1						TCATGCTTTTCTTTATTTGAA	0.378													19	114					0	0	0.019004	0	0		T	22190123	T	T	22190123	5	4	59	1	0	0	0	0	0	0	1	0	13072	927	32	4	901	4	RAPGEF5	7	22190123	Splice_Site	SNP	C	TCGA-BR-8077-01A-11D-2340-08		22190123	136948540	38	41742											
INMT	11185	broad.mit.edu	37	chr7	30795204	30795204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtagccttgatgcctacCgcgctgccctgtgcaacctt	5	11	10	15	2	0	1	0	1	0	0	0	1	0	1	5	0	6	4	5	0	3	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr7:30795204C>T	uc003tbs.1	+	3	545	c.529C>T	c.(529-531)CGC>TGC	p.R177C	FAM188B_uc010kwe.2_Intron|INMT_uc010kwc.1_RNA|INMT_uc010kwd.1_Missense_Mutation_p.R176C	NM_006774	NP_006765	O95050	INMT_HUMAN	indolethylamine N-methyltransferase	177						cytoplasm	amine N-methyltransferase activity				0						TGATGCCTACCGCGCTGCCCT	0.657													32	254					0	0	0.013726	0	0		T	30795204	T	T	30795204	3	4	59	1	0	0	0	0	1	0	0	0	7761	652	23	1	539	1	INMT	7	30795204	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	8605081	30795204	128343459	39	41743											
GCK	2645	broad.mit.edu	37	chr7	44191983	44191983	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcaccagcatcaccctgaAgttagtgccacccaggtcca	10	8	7	16	0	2	1	2	1	0	0	3	1	3	1	5	1	2	2	5	1	2	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr7:44191983A>C	uc003tkl.2	-	3	720	c.250T>G	c.(250-252)TTC>GTC	p.F84V	GCK_uc003tkj.1_Missense_Mutation_p.F83V|GCK_uc003tkk.1_Missense_Mutation_p.F85V	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	84					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						ATCACCCTGAAGTTAGTGCCA	0.597													15	158					0	0	0.020292	0	0		C	44191983	C	C	44191983	3	2	59	1	0	0	0	0	1	0	0	0	6308	72	3	5	1179	5	GCK	7	44191983	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	13396779	44191983	114946680	40	41744											
PON2	5445	broad.mit.edu	37	chr7	95035535	95035535	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aggatcaatagataaattatCcaccagtgtatccagctcaa	16	10	6	9	0	2	1	2	0	0	1	4	2	4	2	3	1	1	2	3	1	7	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr7:95035535C>G	uc003unv.2	-	8	923	c.802G>C	c.(802-804)GAT>CAT	p.D268H	PON2_uc003unu.2_Missense_Mutation_p.D256H|PON2_uc010lfk.2_RNA|PON2_uc003unw.2_Missense_Mutation_p.D181H	NM_000305	NP_000296	Q15165	PON2_HUMAN	paraoxonase 2 isoform 1	268		Calcium 1; catalytic (By similarity).			aromatic compound catabolic process	extracellular region|plasma membrane	arylesterase activity|identical protein binding|metal ion binding				0	all_cancers(62;9.35e-11)|all_epithelial(64;3.37e-09)		STAD - Stomach adenocarcinoma(171;0.0151)			GATAAATTATCCACCAGTGTA	0.428													4	54					0	0	0.014758	0	0		G	95035535	G	G	95035535	3	3	59	1	0	0	0	0	1	0	0	0	12268	855	30	5	270	5	PON2	7	95035535	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	50843552	95035535	64103128	41	41745											
DUS4L	11062	broad.mit.edu	37	chr7	107214184	107214184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgttcagtttgctgctaacGatgcaagacttttatctgat	9	17	8	7	1	2	2	1	1	1	1	2	3	2	2	0	0	4	5	0	0	3	6			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr7:107214184G>A	uc003veh.2	+	5	607	c.274G>A	c.(274-276)GAT>AAT	p.D92N	DUS4L_uc003veg.2_Intron|DUS4L_uc011klw.1_Intron|DUS4L_uc011klx.1_5'UTR|DUS4L_uc010ljl.2_5'Flank	NM_181581	NP_853559	O95620	DUS4L_HUMAN	dihydrouridine synthase 4-like	92					tRNA processing		flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity				0						TGCTGCTAACGATGCAAGACT	0.403													25	75					0	0	0.005443	0	0		A	107214184	A	A	107214184	3	1	59	1	0	0	0	0	1	0	0	0	4814	1058	37	1	284	1	DUS4L	7	107214184	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	12178649	107214184	51924479	42	41746											
CPA5	93979	broad.mit.edu	37	chr7	130008389	130008389	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccacggcccaggagacgtGgatggcgcttcggaccatca	8	5	13	15	4	1	1	1	0	0	1	2	4	1	3	4	5	0	1	4	5	0	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr7:130008389G>T	uc010lmd.1	+	14	1882	c.1262G>T	c.(1261-1263)TGG>TTG	p.W421L	CPA5_uc003vps.2_Missense_Mutation_p.W421L|CPA5_uc003vpt.2_Nonsense_Mutation_p.G393*|CPA5_uc010lme.1_Missense_Mutation_p.W421L|CPA5_uc003vpu.1_Missense_Mutation_p.W421L|uc003vpv.1_RNA	NM_001127441	NP_001120913	Q8WXQ8	CBPA5_HUMAN	carboxypeptidase A5 isoform 1	421					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2	Melanoma(18;0.0435)					CAGGAGACGTGGATGGCGCTT	0.607													5	96					0.000602214	0.000631237	0.014758	1	0		T	130008389	T	T	130008389	3	4	59	1	0	0	0	0	1	0	0	0	3796	1358	47	5	1304	5	CPA5	7	130008389	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	22794205	130008389	29130274	43	41747											
CLCN1	1180	broad.mit.edu	37	chr7	143027909	143027909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccacctactttgctgttCggaactactggagaggattc	8	12	9	12	1	0	1	0	0	0	1	3	4	1	3	3	3	4	2	3	3	3	5			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr7:143027909C>T	uc003wcr.1	+	8	985	c.898C>T	c.(898-900)CGG>TGG	p.R300W	CLCN1_uc011ktc.1_5'UTR|CLCN1_uc003wcs.1_RNA|CLCN1_uc010lox.1_RNA|CLCN1_uc010loy.1_Silent_p.F95F	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	300			R -> Q.		muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					CTTTGCTGTTCGGAACTACTG	0.557													11	36					0	0	0.013537	0	0		T	143027909	T	T	143027909	3	4	59	1	0	0	0	0	1	0	0	0	3465	875	31	1	928	1	CLCN1	7	143027909	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	13019520	143027909	16110754	44	41748											
KCNH2	3757	broad.mit.edu	37	chr7	150648871	150648871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtagcgatccagcttcCgcgccacgcgcaccagccgc	7	5	11	18	6	0	1	0	1	0	0	2	2	2	1	5	0	3	3	5	0	1	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr7:150648871C>T	uc003wic.2	-	7	1623	c.1610G>A	c.(1609-1611)CGG>CAG	p.R537Q	KCNH2_uc003wib.2_Missense_Mutation_p.R197Q|KCNH2_uc011kux.1_Missense_Mutation_p.R441Q|KCNH2_uc003wid.2_Missense_Mutation_p.R197Q|KCNH2_uc003wie.2_Missense_Mutation_p.R537Q	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	537	Helical; Voltage-sensor; Name=Segment S4; (Potential).				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	ATCCAGCTTCCGCGCCACGCG	0.657													7	33					0	0	0.001984	0	0		T	150648871	T	T	150648871	3	4	59	1	0	0	0	0	1	0	0	0	8048	652	23	1	2174	1	KCNH2	7	150648871	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	7620962	150648871	8489792	45	41749											
GALNT11	63917	broad.mit.edu	37	chr7	151805280	151805280	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tacagctcgtcccctgtcgtCcgcggagggttcaactgggg	5	9	14	13	4	1	0	1	0	0	0	5	1	3	1	3	4	3	2	3	4	2	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr7:151805280C>T	uc010lqg.1	+	6	1100	c.870C>T	c.(868-870)GTC>GTT	p.V290V	GALNT11_uc011kvm.1_Silent_p.V209V|GALNT11_uc003wku.2_Silent_p.V290V|GALNT11_uc011kvn.1_RNA|GALNT11_uc003wkw.1_Silent_p.V38V	NM_022087	NP_071370	Q8NCW6	GLT11_HUMAN	N-acetylgalactosaminyltransferase 11	290	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.214)	OV - Ovarian serous cystadenocarcinoma(82;0.00168)	UCEC - Uterine corpus endometrioid carcinoma (81;0.177)|BRCA - Breast invasive adenocarcinoma(188;0.0932)		CCCCTGTCGTCCGCGGAGGGT	0.602													5	92					0	0	0.014758	0	0		T	151805280	T	T	151805280	2	4	59	1	0	0	0	0	0	0	0	1	6224	842	30	4		4	GALNT11	7	151805280	Silent	SNP	C	TCGA-BR-8077-01A-11D-2340-08	1156409	151805280	7333383	46	41750											
DLC1	10395	broad.mit.edu	37	chr8	12957702	12957702	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccattgagggcggagatcTccacgcagttgagctgcttc	7	10	13	11	2	1	3	0	2	1	1	3	4	1	3	2	2	3	4	2	2	0	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr8:12957702T>C	uc003wwm.2	-	9	2588	c.2144A>G	c.(2143-2145)GAG>GGG	p.E715G	DLC1_uc003wwk.1_Missense_Mutation_p.E278G|DLC1_uc003wwl.1_Missense_Mutation_p.E312G|DLC1_uc011kxx.1_Missense_Mutation_p.E204G	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	715					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GGCGGAGATCTCCACGCAGTT	0.582													11	45					0	0	0.010729	0	0		C	12957702	C	C	12957702	3	2	59	1	0	0	0	0	1	0	0	0	4556	1551	54	3	2482	3	DLC1	8	12957702	Missense_Mutation	SNP	T	TCGA-BR-8077-01A-11D-2340-08		12957702	133406320	47	41751											
TUSC3	7991	broad.mit.edu	37	chr8	15397991	15397991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaagcggggcggcggctgCggtacctgcccaccgggagc	5	3	19	14	5	0	0	0	0	0	0	0	1	0	1	3	7	5	3	3	7	2	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr8:15397991C>T	uc003wwt.2	+	1	262	c.52C>T	c.(52-54)CGG>TGG	p.R18W	TUSC3_uc003wwr.2_Missense_Mutation_p.R18W|TUSC3_uc003wws.2_Missense_Mutation_p.R18W|TUSC3_uc003wwu.2_Missense_Mutation_p.R18W|TUSC3_uc003wwv.2_Missense_Mutation_p.R18W|TUSC3_uc003www.2_Missense_Mutation_p.R18W|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.R18W	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	18					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		GCGGCGGCTGCGGTACCTGCC	0.687													12	8					0	0	0.010729	0	0		T	15397991	T	T	15397991	3	4	59	1	0	0	0	0	1	0	0	0	16804	759	27	1	54	1	TUSC3	8	15397991	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	2440289	15397991	130966031	48	41752											
UNC5D	137970	broad.mit.edu	37	chr8	35541183	35541183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcggactcaggaaattacaCctgcatggcagccaacatcg	12	7	9	13	2	1	0	1	0	0	0	3	2	1	2	2	3	4	2	2	3	3	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr8:35541183C>T	uc003xjr.1	+	5	1017	c.689C>T	c.(688-690)ACC>ATC	p.T230I	UNC5D_uc003xjs.1_Missense_Mutation_p.T225I|UNC5D_uc003xjt.1_5'UTR	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	230	Extracellular (Potential).|Ig-like C2-type.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		GGAAATTACACCTGCATGGCA	0.537													8	25					0	0	0.006214	0	0		T	35541183	T	T	35541183	3	4	59	1	0	0	0	0	1	0	0	0	17021	507	18	4	707	4	UNC5D	8	35541183	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	20143192	35541183	110822839	49	41753											
MRPL15	29088	broad.mit.edu	37	chr8	55060008	55060008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaaaagaatgcttccacCagaagaactggtaccatatt	16	9	6	10	0	0	3	0	0	0	3	2	3	2	3	4	1	3	2	4	1	7	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr8:55060008C>T	uc003xsa.2	+	5	683	c.620C>T	c.(619-621)CCA>CTA	p.P207L		NM_014175	NP_054894	Q9P015	RM15_HUMAN	mitochondrial ribosomal protein L15 precursor	207					translation	large ribosomal subunit|mitochondrion	structural constituent of ribosome				0		Lung NSC(129;0.109)|all_epithelial(80;0.134)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;4.3e-07)|Epithelial(17;5.79e-05)|all cancers(17;0.000458)			ATGCTTCCACCAGAAGAACTG	0.413													26	71					0	0	0.004656	0	0		T	55060008	T	T	55060008	3	4	59	1	0	0	0	0	1	0	0	0	9798	594	21	4	638	4	MRPL15	8	55060008	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	19518825	55060008	91304014	50	41754											
CA3	761	broad.mit.edu	37	chr8	86360349	86360349	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggcgacctccacagcctatCaataacagggtggtgagagc	11	7	12	11	1	1	1	1	1	0	1	2	3	2	1	3	3	3	0	3	3	3	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr8:86360349C>G	uc003ydj.2	+	7	833	c.750C>G	c.(748-750)ATC>ATG	p.I250M	CA3_uc011lfv.1_RNA	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	250					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0						CACAGCCTATCAATAACAGGG	0.562													7	51					0	0	0.00308	0	0		G	86360349	G	G	86360349	3	3	59	1	0	0	0	0	1	0	0	0	2520	816	29	5	776	5	CA3	8	86360349	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	31300341	86360349	60003673	51	41755											
NECAB1	64168	broad.mit.edu	37	chr8	91940518	91940518	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaaattaattgatagactGgaaaagaaggtaggtgcttt	16	11	11	3	0	0	4	0	1	0	3	0	5	0	5	0	3	1	2	0	3	7	5			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr8:91940518G>T	uc011lgg.1	+	8	878	c.684G>T	c.(682-684)CTG>CTT	p.L228L		NM_022351	NP_071746	Q8N987	NECA1_HUMAN	N-terminal EF-hand calcium binding protein 1	228	Potential.				antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity			central_nervous_system(1)	1			BRCA - Breast invasive adenocarcinoma(11;0.0499)			TTGATAGACTGGAAAAGAAGG	0.403													13	55					9.05144e-12	9.96804e-12	0.016723	1	0		T	91940518	T	T	91940518	2	4	59	1	0	0	0	0	0	0	0	1	10323	1335	47	5		5	NECAB1	8	91940518	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08	5580169	91940518	54423504	52	41756											
ZFPM2	23414	broad.mit.edu	37	chr8	106815129	106815129	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccacctagcaaccctgcAaggcttgaaggtctttagtg	10	10	9	12	0	1	1	0	1	1	0	2	1	2	1	3	2	3	3	3	2	5	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr8:106815129A>G	uc003ymd.2	+	8	2842	c.2819A>G	c.(2818-2820)CAA>CGA	p.Q940R	ZFPM2_uc011lhs.1_Missense_Mutation_p.Q671R	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	940					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			GCAACCCTGCAAGGCTTGAAG	0.413													4	26					0	0	0.001168	0	0		G	106815129	G	G	106815129	3	3	59	1	0	0	0	0	1	0	0	0	17683	130	5	3	2849	3	ZFPM2	8	106815129	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	14874611	106815129	39548893	53	41757											
ZNF572	137209	broad.mit.edu	37	chr8	125990059	125990059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaactgttcaggggaaatgCccttcatctcttcattttcc	10	14	6	11	0	4	0	3	0	1	0	6	1	5	1	2	2	2	1	2	2	3	5			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr8:125990059C>T	uc003yrr.2	+	3	1704	c.1549C>T	c.(1549-1551)CCC>TCC	p.P517S		NM_152412	NP_689625	Q7Z3I7	ZN572_HUMAN	zinc finger protein 572	517					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			AGGGGAAATGCCCTTCATCTC	0.438										HNSCC(60;0.17)			7	85					0	0	0.001984	0	0		T	125990059	T	T	125990059	3	4	59	1	0	0	0	0	1	0	0	0	18029	739	26	2	1555	2	ZNF572	8	125990059	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	19174930	125990059	20373963	54	41758											
GPT	2875	broad.mit.edu	37	chr8	145731400	145731400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtaccaggacaacgtgtacgCcgcgggttcgcagttccact	8	8	12	13	5	0	0	0	0	0	0	2	1	1	1	3	2	3	5	3	2	3	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr8:145731400C>T	uc011lli.1	+	8	999	c.842C>T	c.(841-843)GCC>GTC	p.A281V	GPT_uc011llj.1_Silent_p.R303R|GPT_uc003zdh.3_Missense_Mutation_p.A281V	NM_005309	NP_005300	P24298	ALAT1_HUMAN	glutamic pyruvate transaminase	281					gluconeogenesis	cytosol	1-aminocyclopropane-1-carboxylate synthase activity|L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|central_nervous_system(1)	2	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)		L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AACGTGTACGCCGCGGGTTCG	0.677													19	55					0	0	0.010504	0	0		T	145731400	T	T	145731400	3	4	59	1	0	0	0	0	1	0	0	0	6753	739	26	2	868	2	GPT	8	145731400	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	19741341	145731400	632622	55	41759											
SETX	23064	broad.mit.edu	37	chr9	135202659	135202660	+	Nonsense_Mutation	DNP	AC	CT	CT																															ccatttaacactacagaatcAcactggttcaaagggcaagc																										TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr9:135202659_135202660AC>CT	uc004cbk.2	-	10	4508_4509	c.4325_4326GT>AG	c.(4324-4326)TGT>TAG	p.C1442*	SETX_uc004cbj.2_Nonsense_Mutation_p.C1061*|SETX_uc010mzt.2_Nonsense_Mutation_p.C1061*	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1442					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		CTACAGAATCACACTGGTTCAA	0.416													6	90					0	0	0.004672	0	0		CT	135202660	CT	CT	135202659	4	2	59	1	0	0	0	0	0	1	0	0	14166	157	6	5	3775	5	SETX	9	135202659	Nonsense_Mutation	DNP	AC	TCGA-BR-8077-01A-11D-2340-08		135202659	6010772	56	41760											
TRDMT1	1787	broad.mit.edu	37	chr10	17216575	17216575	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcttggcaagtaactgtGtgtgaggaaaattatacttg	11	14	11	5	1	1	1	0	1	1	0	2	2	1	2	0	2	2	2	0	2	6	5			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr10:17216575G>T	uc001iop.2	-	2	197	c.149C>A	c.(148-150)ACA>AAA	p.T50K	TRDMT1_uc001ioq.2_Missense_Mutation_p.T50K|TRDMT1_uc001ior.2_Missense_Mutation_p.T50K|TRDMT1_uc001ios.2_5'UTR|TRDMT1_uc009xjt.2_Missense_Mutation_p.H17N|TRDMT1_uc010qcd.1_Missense_Mutation_p.T50K|TRDMT1_uc009xjs.1_Missense_Mutation_p.H17N|TRDMT1_uc009xju.1_RNA	NM_004412	NP_004403	O14717	TRDMT_HUMAN	tRNA aspartic acid methyltransferase 1 isoform	50					tRNA processing	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|RNA binding			ovary(1)	1						AAGTAACTGTGTGTGAGGAAA	0.368													7	36					8.12818e-05	8.57154e-05	0.001984	1	0		T	17216575	T	T	17216575	3	4	59	1	0	0	0	0	1	0	0	0	16493	1377	48	5	1066	5	TRDMT1	10	17216575	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08		17216575	118318172	57	41761											
AIFM2	84883	broad.mit.edu	37	chr10	71874730	71874730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttgacgatgttggccaCggcgatgttggcgtggaggc	7	9	18	7	4	0	2	0	1	0	1	0	5	0	3	1	5	0	3	1	5	0	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr10:71874730C>T	uc010qjg.1	-	7	929	c.916G>A	c.(916-918)GTG>ATG	p.V306M	AIFM2_uc001jqp.1_Missense_Mutation_p.V306M	NM_032797	NP_116186	Q9BRQ8	AIFM2_HUMAN	apoptosis-inducing factor (AIF)-like	306					apoptotic mitochondrial changes|chromosome condensation|induction of apoptosis	cytosol|integral to membrane|mitochondrial outer membrane	DNA binding|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding			central_nervous_system(1)	1						ATGTTGGCCACGGCGATGTTG	0.592													16	23					0	0	0.00499	0	0		T	71874730	T	T	71874730	3	4	59	1	0	0	0	0	1	0	0	0	427	536	19	1	213	1	AIFM2	10	71874730	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	54658155	71874730	63660017	58	41762											
EBF3	253738	broad.mit.edu	37	chr10	131665478	131665478	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagggtcacttcgacgacGccaggaatgtgcctcggcgg	8	6	16	11	5	1	1	1	0	0	1	3	5	1	2	2	4	1	0	2	4	1	1	rs151206880		TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr10:131665478G>A	uc001lki.1	-	10	998	c.939C>T	c.(937-939)GGC>GGT	p.G313G		NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	322	IPT/TIG.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		CTTCGACGACGCCAGGAATGT	0.582													20	21					0	0	0.016522	0	0		A	131665478	A	A	131665478	2	1	59	1	0	0	0	0	0	0	0	1	4888	1074	38	1		1	EBF3	10	131665478	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08	59790748	131665478	3869269	59	41763											
PHRF1	57661	broad.mit.edu	37	chr11	601629	601629	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtccggaccatccgcaaaAagtaagagctcagcgacaag	14	4	10	13	4	1	1	1	0	0	1	3	3	3	2	4	1	2	3	4	1	4	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:601629A>T	uc001lqe.2	+	10	1211	c.1080A>T	c.(1078-1080)AAA>AAT	p.K360N	PHRF1_uc010qwc.1_Missense_Mutation_p.K360N|PHRF1_uc010qwd.1_Missense_Mutation_p.K359N|PHRF1_uc010qwe.1_Missense_Mutation_p.K356N|PHRF1_uc009ybz.1_Missense_Mutation_p.K151N	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	360	Arg-rich.						RNA polymerase binding|zinc ion binding				0						CATCCGCAAAAAGTAAGAGCT	0.512													10	35					0	0	0.006214	0	0		T	601629	T	T	601629	3	4	59	1	0	0	0	0	1	0	0	0	11880	11	1	5	1114	5	PHRF1	11	601629	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08		601629	134404887	60	41764											
TALDO1	6888	broad.mit.edu	37	chr11	760142	760142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctctcctttgataaagatgCgatggtggccagagccaggc	9	9	13	10	1	1	3	0	1	1	2	2	4	1	3	3	3	2	1	3	3	2	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:760142C>T	uc001lqz.2	+	4	400	c.350C>T	c.(349-351)GCG>GTG	p.A117V	TALDO1_uc010qwl.1_Missense_Mutation_p.A117V|TALDO1_uc001lra.2_Missense_Mutation_p.A117V	NM_006755	NP_006746	P37837	TALDO_HUMAN	transaldolase 1	117					energy reserve metabolic process|xylulose biosynthetic process	cytosol	protein binding|sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate glyceronetransferase activity				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;4.66e-26)|Epithelial(43;2.97e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.48e-19)|BRCA - Breast invasive adenocarcinoma(625;4.41e-05)|Lung(200;0.0595)|LUSC - Lung squamous cell carcinoma(625;0.0712)		GATAAAGATGCGATGGTGGCC	0.547													5	40					0	0	0.014758	0	0		T	760142	T	T	760142	3	4	59	1	0	0	0	0	1	0	0	0	15568	768	27	1	364	1	TALDO1	11	760142	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	158513	760142	134246374	61	41765											
C11orf41	25758	broad.mit.edu	37	chr11	33564658	33564658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacagagaatcatgcctccCcatctcctgtgccagaaatg	11	8	7	15	0	2	2	1	0	1	2	4	3	3	2	6	0	2	0	6	0	2	0			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:33564658C>T	uc001mup.3	+	1	782	c.658C>T	c.(658-660)CCA>TCA	p.P220S	C11orf41_uc001mun.1_Missense_Mutation_p.P220S	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	220						integral to membrane				ovary(2)	2						TCATGCCTCCCCATCTCCTGT	0.547											OREG0020868	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	93					0	0	0.014758	0	0		T	33564658	T	T	33564658	3	4	59	1	0	0	0	0	1	0	0	0	1643	623	22	4	660	4	C11orf41	11	33564658	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	32804516	33564658	101441858	62	41766											
GLYAT	10249	broad.mit.edu	37	chr11	58477426	58477426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccatggagccggtattccGgcaaggtgcctgccattctc	6	9	13	13	2	1	0	0	0	1	0	3	1	2	1	5	5	3	2	5	5	2	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:58477426G>A	uc001nnb.2	-	6	859	c.704C>T	c.(703-705)CCG>CTG	p.P235L		NM_201648	NP_964011	Q6IB77	GLYAT_HUMAN	glycine-N-acyltransferase isoform a	235					acyl-CoA metabolic process|response to toxin|xenobiotic metabolic process	mitochondrial matrix	glycine N-acyltransferase activity|glycine N-benzoyltransferase activity				0		Breast(21;0.0044)|all_epithelial(135;0.0157)			Glycine(DB00145)	CCGGTATTCCGGCAAGGTGCC	0.547													11	52					0	0	0.008291	0	0		A	58477426	A	A	58477426	3	1	59	1	0	0	0	0	1	0	0	0	6494	1116	39	1	190	1	GLYAT	11	58477426	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	24912768	58477426	76529090	63	41767											
MARK2	2011	broad.mit.edu	37	chr11	63666571	63666571	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagtttattgtccatagAgacttaaaggtaaggcatgc	14	11	10	6	0	0	2	0	0	0	2	1	3	1	2	1	2	1	3	1	2	6	6			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:63666571A>C	uc001nxw.2	+	7	1101	c.522A>C	c.(520-522)AGA>AGC	p.R174S	MARK2_uc001nxx.2_Missense_Mutation_p.R174S|MARK2_uc001nxy.2_Missense_Mutation_p.R174S|MARK2_uc001nxv.3_Missense_Mutation_p.R174S|MARK2_uc001nxz.3_Missense_Mutation_p.R141S|MARK2_uc009yoy.2_Missense_Mutation_p.R141S	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	174	Protein kinase.				cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						TTGTCCATAGAGACTTAAAGG	0.493													24	105					0	0	0.01892	0	0		C	63666571	C	C	63666571	3	2	59	1	0	0	0	0	1	0	0	0	9331	301	11	5	548	5	MARK2	11	63666571	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	5189145	63666571	71339945	64	41768											
EFEMP2	30008	broad.mit.edu	37	chr11	65635413	65635413	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gggtagacggaggtcgcctgGatctggaacacgtcagcggg	8	6	18	9	4	2	1	1	0	1	1	3	4	2	4	1	6	2	1	1	6	2	1	rs150435989		TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:65635413G>C	uc001ofy.3	-	10	1283	c.1089C>G	c.(1087-1089)ATC>ATG	p.I363M	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Missense_Mutation_p.I363M	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	363					blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		AGGTCGCCTGGATCTGGAACA	0.577													15	96					0	0	0.003163	0	0		C	65635413	C	C	65635413	3	2	59	1	0	0	0	0	1	0	0	0	4948	1164	41	5	250	5	EFEMP2	11	65635413	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	1968842	65635413	69371103	65	41769			1	16		2	2	14	N	T_G	5.585063e-05
EFEMP2	30008	broad.mit.edu	37	chr11	65635426	65635426	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcctggatctggaacacgTcagcgggcacgctccgctcc	6	7	12	16	5	2	0	1	0	1	0	5	2	4	2	3	3	2	3	3	3	1	0			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:65635426T>C	uc001ofy.3	-	10	1270	c.1076A>G	c.(1075-1077)GAC>GGC	p.D359G	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Missense_Mutation_p.D359G	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	359					blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		CTGGAACACGTCAGCGGGCAC	0.592													14	99					0	0	0.003163	0	0		C	65635426	C	C	65635426	3	2	59	1	0	0	0	0	1	0	0	0	4948	1667	58	3	263	3	EFEMP2	11	65635426	Missense_Mutation	SNP	T	TCGA-BR-8077-01A-11D-2340-08	13	65635426	69371090	66	41770			1	16		2	2	14	N	T_G	5.585063e-05
PC	5091	broad.mit.edu	37	chr11	66639309	66639309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgcggatgcccagctccGtgcaggcccggaacacacgg	7	4	15	15	5	0	0	0	0	0	0	1	2	1	2	3	5	5	2	3	5	1	0			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:66639309G>A	uc001ojn.1	-	3	219	c.170C>T	c.(169-171)ACG>ATG	p.T57M	PC_uc001ojo.1_Missense_Mutation_p.T57M|PC_uc001ojp.1_Missense_Mutation_p.T57M	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	57	Biotin carboxylation.				gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	GCCCAGCTCCGTGCAGGCCCG	0.577													8	17					0	0	0.006214	0	0		A	66639309	A	A	66639309	3	1	59	1	0	0	0	0	1	0	0	0	11516	1145	40	1	3442	1	PC	11	66639309	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	1003883	66639309	68367207	67	41771											
KCNE3	10008	broad.mit.edu	37	chr11	74168442	74168442	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagaatgtacatgtaggagTtgtcatcacggccaggtagg	12	9	14	6	1	2	1	2	0	0	1	2	3	2	2	1	4	1	4	1	4	4	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:74168442T>A	uc001ovc.2	-	3	514	c.167A>T	c.(166-168)AAC>ATC	p.N56I	KCNE3_uc001ovd.2_Missense_Mutation_p.N56I	NM_005472	NP_005463	Q9Y6H6	KCNE3_HUMAN	potassium voltage-gated channel, Isk-related	56						integral to membrane	voltage-gated potassium channel activity			ovary(1)	1	Breast(11;2.86e-06)					CATGTAGGAGTTGTCATCACG	0.562													9	71					0	0	0.010729	0	0		A	74168442	A	A	74168442	3	1	59	1	0	0	0	0	1	0	0	0	8040	1725	60	5	148	5	KCNE3	11	74168442	Missense_Mutation	SNP	T	TCGA-BR-8077-01A-11D-2340-08	7529133	74168442	60838074	68	41772											
PCF11	51585	broad.mit.edu	37	chr11	82879823	82879823	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaaggtcagctaggaggtGggtgtcctttgagatttgaa	10	11	14	6	0	1	2	1	2	0	1	2	4	2	3	1	4	1	1	1	4	3	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:82879823G>T	uc001ozx.3	+	8	2791	c.2446G>T	c.(2446-2448)GGG>TGG	p.G816W	PCF11_uc010rsu.1_Missense_Mutation_p.G947W	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	816	Gly-rich.				mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						GCTAGGAGGTGGGTGTCCTTT	0.562													3	38					0.004672	0.00486783	0.004672	1	0		T	82879823	T	T	82879823	3	4	59	1	0	0	0	0	1	0	0	0	11592	1348	47	5	2476	5	PCF11	11	82879823	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	8711381	82879823	52126693	69	41773											
KIAA1377	57562	broad.mit.edu	37	chr11	101849101	101849101	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctactgttatgagaagaaaaCgaattgctgaaactaagcgg	16	9	10	6	2	0	3	0	2	0	2	0	5	0	3	0	1	5	2	0	1	8	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:101849101C>T	uc001pgm.2	+	7	3139	c.2869C>T	c.(2869-2871)CGA>TGA	p.R957*	KIAA1377_uc001pgn.2_Nonsense_Mutation_p.R913*|KIAA1377_uc010run.1_Nonsense_Mutation_p.R758*	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	957							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		GAGAAGAAAACGAATTGCTGA	0.353													7	81					0	0	0.004482	0	0		T	101849101	T	T	101849101	4	4	59	1	0	0	0	0	0	1	0	0	8243	528	19	1	2895	1	KIAA1377	11	101849101	Nonsense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	18969278	101849101	33157415	70	41774											
CASP4	837	broad.mit.edu	37	chr11	104819260	104819260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccactgaaagatacatacGtggcgttgaagagcagaaag	15	7	12	7	2	0	5	0	2	0	3	0	5	0	5	1	1	4	2	1	1	5	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:104819260G>A	uc001pid.1	-	6	998	c.925C>T	c.(925-927)CAC>TAC	p.H309Y	CASP4_uc001pib.1_Missense_Mutation_p.H253Y|CASP4_uc009yxg.1_Missense_Mutation_p.H218Y	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor	309					apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		AGATACATACGTGGCGTTGAA	0.443													6	30					0	0	0.001168	0	0		A	104819260	A	A	104819260	3	1	59	1	0	0	0	0	1	0	0	0	2676	1159	40	1	220	1	CASP4	11	104819260	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	2970159	104819260	30187256	71	41775											
TMPRSS13	84000	broad.mit.edu	37	chr11	117780642	117780642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgctatccgaggccagcgCccctcccacgatccgcccgg	5	6	10	20	5	0	0	0	0	0	0	3	2	3	0	7	2	2	1	7	2	1	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:117780642C>T	uc001prs.1	-	8	1081	c.988G>A	c.(988-990)GCG>ACG	p.A330T	TMPRSS13_uc009yzr.1_Missense_Mutation_p.A9T|TMPRSS13_uc001prt.1_Missense_Mutation_p.A9T|TMPRSS13_uc001pru.1_Missense_Mutation_p.A330T	NM_001077263	NP_001070731	Q9BYE2	TMPSD_HUMAN	transmembrane protease, serine 13	325	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			pancreas(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.00106)		GAGGCCAGCGCCCCTCCCACG	0.617													14	48					0	0	0.006122	0	0		T	117780642	T	T	117780642	3	4	59	1	0	0	0	0	1	0	0	0	16270	739	26	2	739	2	TMPRSS13	11	117780642	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	12961382	117780642	17225874	72	41776											
C11orf63	79864	broad.mit.edu	37	chr11	122817220	122817220	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attaaggaaattccattcttCttctgacagccagacggtta	12	13	7	9	1	3	2	0	1	3	1	4	3	4	3	2	2	1	1	2	2	3	6			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:122817220C>G	uc001pym.2	+	6	1946	c.1649C>G	c.(1648-1650)TCT>TGT	p.S550C		NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	550										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		TTCCATTCTTCTTCTGACAGC	0.403													3	46					0	0	0.004672	0	0		G	122817220	G	G	122817220	3	3	59	1	0	0	0	0	1	0	0	0	1657	913	32	5	1731	5	C11orf63	11	122817220	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	5036578	122817220	12189296	73	41777											
TMEM45B	120224	broad.mit.edu	37	chr11	129725628	129725628	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttctactaccacgtccaCaaccggcctccgctggacca	8	8	6	19	3	2	0	0	0	2	0	4	1	4	1	6	2	3	1	6	2	3	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr11:129725628C>T	uc001qfe.1	+	4	472	c.411C>T	c.(409-411)CAC>CAT	p.H137H	TMEM45B_uc001qff.1_Silent_p.H137H	NM_138788	NP_620143	Q96B21	TM45B_HUMAN	transmembrane protein 45B	137						integral to membrane					0	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.012)|Lung(977;0.179)|LUSC - Lung squamous cell carcinoma(976;0.189)		ACCACGTCCACAACCGGCCTC	0.552													35	134					0	0	0.017118	0	0		T	129725628	T	T	129725628	2	4	59	1	0	0	0	0	0	0	0	1	16195	477	17	4		4	TMEM45B	11	129725628	Silent	SNP	C	TCGA-BR-8077-01A-11D-2340-08	6908408	129725628	5280888	74	41778											
ITPR2	3709	broad.mit.edu	37	chr12	26628350	26628350	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcattcttcatcacatccAcctatccaaaaaaaaaaaga	19	8	3	11	0	3	1	2	0	1	1	5	1	5	1	3	1	0	1	3	1	6	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr12:26628350A>C	uc001rhg.2	-	45	6638	c.6221T>G	c.(6220-6222)GTG>GGG	p.V2074G	ITPR2_uc009zjg.1_Missense_Mutation_p.V225G	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	2074	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					CATCACATCCACCTATCCAAA	0.358													5	8					0	0	0.004482	0	0		C	26628350	C	C	26628350	3	2	59	1	0	0	0	0	1	0	0	0	7937	173	6	5	1936	5	ITPR2	12	26628350	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08		26628350	107223545	75	41779											
OR6C75	390323	broad.mit.edu	37	chr12	55759444	55759444	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgactcttctccaatgctgCagctctcttgcacaaacact	9	12	6	14	0	3	1	0	1	3	0	5	1	3	1	1	0	5	4	1	0	2	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr12:55759444C>A	uc010spk.1	+	1	550	c.550C>A	c.(550-552)CAG>AAG	p.Q184K		NM_001005497	NP_001005497	A6NL08	O6C75_HUMAN	olfactory receptor, family 6, subfamily C,	184	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3						TCCAATGCTGCAGCTCTCTTG	0.408													35	36					1.22384e-17	1.37385e-17	0.013726	1	0		A	55759444	A	A	55759444	3	1	59	1	0	0	0	0	1	0	0	0	11218	711	25	5	552	5	OR6C75	12	55759444	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	29131094	55759444	78092451	76	41780											
CNOT2	4848	broad.mit.edu	37	chr12	70704765	70704765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacatgtactacagccagTcttctatgtttccacatcgg	12	12	6	11	1	2	0	0	0	2	0	4	0	3	0	2	1	4	2	2	1	5	5			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr12:70704765T>C	uc001svv.2	+	3	718	c.139T>C	c.(139-141)TCT>CCT	p.S47P	CNOT2_uc009zro.2_Missense_Mutation_p.S47P|CNOT2_uc009zrp.2_Missense_Mutation_p.S27P|CNOT2_uc009zrq.2_Missense_Mutation_p.S47P	NM_014515	NP_055330	Q9NZN8	CNOT2_HUMAN	CCR4-NOT transcription complex, subunit 2	47					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	protein binding|RNA polymerase II transcription cofactor activity				0	Renal(347;0.236)		GBM - Glioblastoma multiforme(1;4.77e-09)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			CTACAGCCAGTCTTCTATGTT	0.388													8	96					0	0	0.00308	0	0		C	70704765	C	C	70704765	3	2	59	1	0	0	0	0	1	0	0	0	3622	1667	58	3	145	3	CNOT2	12	70704765	Missense_Mutation	SNP	T	TCGA-BR-8077-01A-11D-2340-08	14945321	70704765	63147130	77	41781											
MYBPC1	4604	broad.mit.edu	37	chr12	102010978	102010978	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcttgtactttctacacAgaaccaagtaaagagaagga	16	10	8	7	0	1	2	0	0	1	2	1	4	1	3	1	1	4	3	1	1	8	6			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr12:102010978A>C	uc001tii.2	+	3	164	c.62_splice	c.e3-2	p.E21_splice	MYBPC1_uc001tif.1_Splice_Site_p.E21_splice|MYBPC1_uc001tig.2_Splice_Site_p.E21_splice|MYBPC1_uc010svq.1_Intron|MYBPC1_uc001tih.2_Splice_Site_p.E21_splice|MYBPC1_uc001tij.2_Splice_Site_p.E21_splice|MYBPC1_uc010svr.1_Splice_Site_p.E21_splice|MYBPC1_uc010svs.1_Splice_Site_p.E21_splice|MYBPC1_uc010svt.1_Splice_Site_p.E9_splice|MYBPC1_uc010svu.1_Splice_Site_p.E21_splice|MYBPC1_uc001tik.2_Intron	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3						cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						CTTTCTACACAGAACCAAGTA	0.433													5	14					0	0	0.001168	0	0		C	102010978	C	C	102010978	5	2	59	1	0	0	0	0	0	0	1	0	10029	202	7	5	70	5	MYBPC1	12	102010978	Splice_Site	SNP	A	TCGA-BR-8077-01A-11D-2340-08	31306213	102010978	31840917	78	41782											
SIAH3	283514	broad.mit.edu	37	chr13	46357872	46357872	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatgatccaatcagccggCgcggggaggtgcatgtccgt	8	8	15	10	4	1	2	1	2	0	0	3	3	3	3	3	4	2	1	3	4	1	0			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr13:46357872C>T	uc001vap.2	-	2	538	c.456G>A	c.(454-456)GCG>GCA	p.A152A		NM_198849	NP_942146	Q8IW03	SIAH3_HUMAN	seven in absentia homolog 3	152					multicellular organismal development|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding			ovary(1)|skin(1)	2						AATCAGCCGGCGCGGGGAGGT	0.612													44	26					0	0	0.00874	0	0		T	46357872	T	T	46357872	2	4	59	1	0	0	0	0	0	0	0	1	14326	755	27	1		1	SIAH3	13	46357872	Silent	SNP	C	TCGA-BR-8077-01A-11D-2340-08		46357872	68812006	79	41783											
HAUS4	54930	broad.mit.edu	37	chr14	23415837	23415837	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctgtcaaactcctccccaAggacctcataggagttcagg	10	8	9	14	0	3	0	3	0	0	0	5	2	5	2	5	3	1	1	5	3	3	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr14:23415837A>G	uc001whp.2	-	9	1020	c.989T>C	c.(988-990)CTT>CCT	p.L330P	HAUS4_uc001who.2_RNA|HAUS4_uc001whq.2_Missense_Mutation_p.L204P|HAUS4_uc001whr.2_Missense_Mutation_p.L330P|HAUS4_uc001whs.2_Missense_Mutation_p.L285P|HAUS4_uc001wht.2_Missense_Mutation_p.L330P|HAUS4_uc001whu.2_Missense_Mutation_p.L285P|HAUS4_uc001whv.2_Missense_Mutation_p.L206P|HAUS4_uc001whw.2_Missense_Mutation_p.L330P|HAUS4_uc001whx.2_Missense_Mutation_p.L285P	NM_017815	NP_060285	Q9H6D7	HAUS4_HUMAN	HAUS augmin-like complex, subunit 4	330					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				ovary(1)	1						CTCCTCCCCAAGGACCTCATA	0.557													6	30					0	0	0.001168	0	0		G	23415837	G	G	23415837	3	3	59	1	0	0	0	0	1	0	0	0	6984	72	3	3	106	3	HAUS4	14	23415837	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08		23415837	83933703	80	41784											
ACIN1	22985	broad.mit.edu	37	chr14	23532239	23532239	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaatggaaactccggactTctgctggctaatggaacgtc	10	10	12	9	2	1	0	0	0	1	0	3	3	2	3	1	5	3	3	1	5	4	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr14:23532239T>G	uc001wit.3	-	14	3284	c.2956A>C	c.(2956-2958)AAG>CAG	p.K986Q	ACIN1_uc001wio.3_RNA|ACIN1_uc001wip.3_Missense_Mutation_p.K228Q|ACIN1_uc001wiq.3_Missense_Mutation_p.K228Q|ACIN1_uc001wir.3_Missense_Mutation_p.K259Q|ACIN1_uc001wis.3_Missense_Mutation_p.K667Q|ACIN1_uc010akg.2_Missense_Mutation_p.K973Q	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	986					apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		ACTCCGGACTTCTGCTGGCTA	0.478													51	72					0	0	0.01441	0	0		G	23532239	G	G	23532239	3	3	59	1	0	0	0	0	1	0	0	0	142	1792	62	5	1093	5	ACIN1	14	23532239	Missense_Mutation	SNP	T	TCGA-BR-8077-01A-11D-2340-08	116402	23532239	83817301	81	41785											
AKAP6	9472	broad.mit.edu	37	chr14	33290766	33290766	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caacctgttatcccttccttGaagcttggagagacaagtaa	12	11	8	10	0	0	2	0	1	0	1	2	4	2	3	3	1	2	3	3	1	5	5			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr14:33290766G>A	uc001wrq.2	+	13	3917	c.3747G>A	c.(3745-3747)TTG>TTA	p.L1249L		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1249					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TCCCTTCCTTGAAGCTTGGAG	0.438													7	25					0	0	0.001984	0	0		A	33290766	A	A	33290766	2	1	59	1	0	0	0	0	0	0	0	1	455	1281	45	4		4	AKAP6	14	33290766	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08	9758527	33290766	74058774	82	41786											
SGPP1	81537	broad.mit.edu	37	chr14	64194098	64194098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccaacttgaccacgggcgGcgaggcgggcctcggccagc	6	4	15	16	5	0	1	0	1	0	0	2	2	1	1	4	5	2	0	4	5	1	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr14:64194098G>A	uc001xgj.2	-	1	659	c.565C>T	c.(565-567)CCG>TCG	p.P189S		NM_030791	NP_110418	Q9BX95	SGPP1_HUMAN	sphingosine-1-phosphate phosphatase 1	189						endoplasmic reticulum membrane|integral to membrane	dihydrosphingosine-1-phosphate phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0056)|all cancers(60;0.0141)|BRCA - Breast invasive adenocarcinoma(234;0.103)		ACCACGGGCGGCGAGGCGGGC	0.632													81	50					0	0	0.01441	0	0		A	64194098	A	A	64194098	3	1	59	1	0	0	0	0	1	0	0	0	14244	1203	42	2	772	2	SGPP1	14	64194098	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	30903332	64194098	43155442	83	41787											
SYNE2	23224	broad.mit.edu	37	chr14	64628976	64628976	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcagagatcctgcccccAgccctgcaggacataaaggt	10	6	11	14	0	0	1	0	0	0	1	1	3	1	2	4	3	3	2	4	3	2	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr14:64628976A>C	uc001xgm.2	+	88	16511	c.16281A>C	c.(16279-16281)CCA>CCC	p.P5427P	SYNE2_uc001xgl.2_Silent_p.P5427P|SYNE2_uc010apy.2_Silent_p.P1812P|SYNE2_uc001xgn.2_Silent_p.P389P|SYNE2_uc001xgo.2_RNA|SYNE2_uc001xgp.2_Silent_p.P156P|SYNE2_uc010aqa.2_5'UTR	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5427	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TCCTGCCCCCAGCCCTGCAGG	0.547													30	94					0	0	0.007291	0	0		C	64628976	C	C	64628976	2	2	59	1	0	0	0	0	0	0	0	1	15471	175	7	5		5	SYNE2	14	64628976	Silent	SNP	A	TCGA-BR-8077-01A-11D-2340-08	434878	64628976	42720564	84	41788											
KCNK13	56659	broad.mit.edu	37	chr14	90651236	90651236	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caactgtctgagatggccaaCggctgcccccaccagaccag	10	5	10	16	1	1	2	0	1	1	2	1	3	1	2	5	2	3	1	5	2	2	0	rs112153420	byFrequency	TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr14:90651236C>T	uc001xye.1	+	2	1558	c.1116C>T	c.(1114-1116)AAC>AAT	p.N372N		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	372	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				AGATGGCCAACGGCTGCCCCC	0.597													14	27					0	0	0.020292	0	0		T	90651236	T	T	90651236	2	4	59	1	0	0	0	0	0	0	0	1	8077	535	19	1		1	KCNK13	14	90651236	Silent	SNP	C	TCGA-BR-8077-01A-11D-2340-08	26022260	90651236	16698304	85	41789											
FBLN5	10516	broad.mit.edu	37	chr14	92343836	92343836	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccactccctcttacccgcaTgtaaaattctctgccctcat	8	12	3	18	1	3	0	1	0	2	0	5	0	4	0	4	0	2	2	4	0	3	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr14:92343836T>C	uc001xzx.3	-	10	1653	c.1180A>G	c.(1180-1182)ATG>GTG	p.M394V	FBLN5_uc010aud.2_Missense_Mutation_p.M399V|FBLN5_uc010aue.2_Missense_Mutation_p.M435V|FBLN5_uc001xzw.2_5'Flank	NM_006329	NP_006320	Q9UBX5	FBLN5_HUMAN	fibulin 5 precursor	394					cell-matrix adhesion|elastic fiber assembly|protein localization at cell surface|regulation of removal of superoxide radicals	extracellular space|proteinaceous extracellular matrix|soluble fraction	calcium ion binding|integrin binding|protein C-terminus binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		all_cancers(154;0.0722)				CTTACCCGCATGTAAAATTCT	0.537													33	34					0	0	0.021022	0	0		C	92343836	C	C	92343836	3	2	59	1	0	0	0	0	1	0	0	0	5714	1464	51	3	174	3	FBLN5	14	92343836	Missense_Mutation	SNP	T	TCGA-BR-8077-01A-11D-2340-08	1692600	92343836	15005704	86	41790											
SERPINA5	5104	broad.mit.edu	37	chr14	95056501	95056501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtatcactacctcctggaccGgaacctctcctgcagggtgg	7	9	11	14	1	2	0	1	0	1	0	4	2	3	2	5	4	3	2	5	4	3	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr14:95056501G>A	uc001ydm.2	+	4	953	c.743G>A	c.(742-744)CGG>CAG	p.R248Q	SERPINA5_uc010ave.2_Missense_Mutation_p.R248Q|SERPINA3_uc001ydo.3_5'Flank	NM_000624	NP_000615	P05154	IPSP_HUMAN	serine (or cysteine) proteinase inhibitor, clade	248					fusion of sperm to egg plasma membrane|regulation of proteolysis|spermatogenesis	extracellular region|membrane|protein complex	acrosin binding|heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(2)	2				COAD - Colon adenocarcinoma(157;0.21)	Drotrecogin alfa(DB00055)|Urokinase(DB00013)	CTCCTGGACCGGAACCTCTCC	0.577													7	41					0	0	0.001984	0	0		A	95056501	A	A	95056501	3	1	59	1	0	0	0	0	1	0	0	0	14117	1116	39	1	749	1	SERPINA5	14	95056501	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	2712665	95056501	12293039	87	41791											
MKRN3	7681	broad.mit.edu	37	chr15	23811198	23811198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccagtccgttgccaagccGaagcagcggcatttggacaa	10	6	12	13	3	0	0	0	0	0	0	1	2	1	1	4	2	4	3	4	2	3	2	rs140349866		TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr15:23811198G>A	uc001ywh.3	+	1	745	c.269G>A	c.(268-270)CGA>CAA	p.R90Q	MKRN3_uc001ywi.2_Missense_Mutation_p.R90Q|MKRN3_uc010ayi.1_Missense_Mutation_p.R90Q	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	90						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		TTGCCAAGCCGAAGCAGCGGC	0.602													19	34					0	0	0.007413	0	0		A	23811198	A	A	23811198	3	1	59	1	0	0	0	0	1	0	0	0	9626	1058	37	1	271	1	MKRN3	15	23811198	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08		23811198	78720194	88	41792											
MKRN3	7681	broad.mit.edu	37	chr15	23811962	23811962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctgtattaggtgtatcCgcaggtggagaagtgccaga	9	11	13	8	1	1	2	0	0	1	2	2	3	2	2	3	3	1	3	3	3	4	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr15:23811962C>T	uc001ywh.3	+	1	1509	c.1033C>T	c.(1033-1035)CGC>TGC	p.R345C	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.R345C	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	345	RING-type.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		TAGGTGTATCCGCAGGTGGAG	0.507													23	43					0	0	0.016522	0	0		T	23811962	T	T	23811962	3	4	59	1	0	0	0	0	1	0	0	0	9626	652	23	1	1035	1	MKRN3	15	23811962	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	764	23811962	78719430	89	41793											
GJD2	57369	broad.mit.edu	37	chr15	35045438	35045438	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgggagatggggaaggcGcggtcatagcaggcctggtt	8	8	19	6	2	1	1	1	0	0	1	1	3	1	2	1	7	1	2	1	7	2	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr15:35045438G>A	uc001zis.1	-	2	207	c.207C>T	c.(205-207)CGC>CGT	p.R69R	uc001zit.1_5'Flank	NM_020660	NP_065711	Q9UKL4	CXD2_HUMAN	gap junction protein, delta 2, 36kDa	69	Extracellular (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_lung(180;9.67e-07)		all cancers(64;2.75e-18)|GBM - Glioblastoma multiforme(113;1.9e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		TGGGGAAGGCGCGGTCATAGC	0.552													17	46					0	0	0.004007	0	0		A	35045438	A	A	35045438	2	1	59	1	0	0	0	0	0	0	0	1	6432	1074	38	1		1	GJD2	15	35045438	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08	11233476	35045438	67485954	90	41794											
DNAJC17	55192	broad.mit.edu	37	chr15	41067260	41067260	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gccgtaggaggacgtctttgGagtagccaccttttgactca	8	11	12	10	2	2	1	1	1	1	0	2	4	2	4	3	3	1	2	3	3	2	5			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr15:41067260G>C	uc001zms.1	-	8	580	c.569C>G	c.(568-570)TCC>TGC	p.S190C	DNAJC17_uc010bbz.1_RNA|DNAJC17_uc010bca.1_RNA|DNAJC17_uc010bcb.1_RNA	NM_018163	NP_060633	Q9NVM6	DJC17_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 17	190	RRM.				protein folding		heat shock protein binding|nucleotide binding|RNA binding|unfolded protein binding				0		all_cancers(109;4.16e-14)|all_epithelial(112;9.68e-12)|Lung NSC(122;3.19e-09)|all_lung(180;6.45e-08)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;2.91e-05)|COAD - Colon adenocarcinoma(120;0.153)|BRCA - Breast invasive adenocarcinoma(123;0.166)		GACGTCTTTGGAGTAGCCACC	0.502													3	24					0	0	0.004672	0	0		C	41067260	C	C	41067260	3	2	59	1	0	0	0	0	1	0	0	0	4642	1174	41	5	361	5	DNAJC17	15	41067260	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	6021822	41067260	61464132	91	41795											
KIAA1199	57214	broad.mit.edu	37	chr15	81230194	81230194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccacattctccatcctctCggatgttcacaatcgcctgc	8	11	5	17	2	3	0	1	0	2	0	7	1	4	1	4	1	1	1	4	1	1	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr15:81230194C>T	uc002bfw.1	+	24	3541	c.3281C>T	c.(3280-3282)TCG>TTG	p.S1094L	KIAA1199_uc010unn.1_Missense_Mutation_p.S1094L	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	1094										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						TCCATCCTCTCGGATGTTCAC	0.577													34	59					0	0	0.021022	0	0		T	81230194	T	T	81230194	3	4	59	1	0	0	0	0	1	0	0	0	8229	893	31	1	3371	1	KIAA1199	15	81230194	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	40162934	81230194	21301198	92	41796											
IQGAP1	8826	broad.mit.edu	37	chr15	91037964	91037964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagtctccaaaaagcctaggGaaatgaaaggaaagaaaagc	20	4	11	6	0	1	2	0	1	1	1	2	5	1	4	2	2	2	0	2	2	8	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr15:91037964G>A	uc002bpl.1	+	36	4749	c.4648G>A	c.(4648-4650)GAA>AAA	p.E1550K	IQGAP1_uc010uqg.1_Missense_Mutation_p.E171K	NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1550	C2.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			AAAGCCTAGGGAAATGAAAGG	0.358													10	60					0	0	0.006214	0	0		A	91037964	A	A	91037964	3	1	59	1	0	0	0	0	1	0	0	0	7830	1175	41	4	4790	4	IQGAP1	15	91037964	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	9807770	91037964	11493428	93	41797											
ST8SIA2	8128	broad.mit.edu	37	chr15	93007503	93007503	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacagcctcaagtatggctAcacctcccaggccagcccgc	9	6	9	17	1	1	1	1	1	0	0	2	1	2	1	5	2	3	2	5	2	3	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr15:93007503A>G	uc002bra.2	+	6	1171	c.1016A>G	c.(1015-1017)TAC>TGC	p.Y339C	ST8SIA2_uc002brb.2_Missense_Mutation_p.Y318C	NM_006011	NP_006002	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide	339	Lumenal (Potential).				axon guidance|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity				0	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			AAGTATGGCTACACCTCCCAG	0.532													28	187					0	0	0.010818	0	0		G	93007503	G	G	93007503	3	3	59	1	0	0	0	0	1	0	0	0	15257	391	14	3	1038	3	ST8SIA2	15	93007503	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	1969539	93007503	9523889	94	41798											
MSLNL	401827	broad.mit.edu	37	chr16	820288	820288	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcacgttgccaacatccagGctctgcggagaggggtgggg	7	7	17	10	2	2	1	1	0	1	1	3	2	3	1	2	6	3	2	2	6	1	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr16:820288G>A	uc002cjz.1	-	15	2697	c.2697C>T	c.(2695-2697)AGC>AGT	p.S899S		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	548	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						CAACATCCAGGCTCTGCGGAG	0.692													6	11					0	0	0.001168	0	0		A	820288	A	A	820288	2	1	59	1	0	0	0	0	0	0	0	1	9900	1194	42	2		2	MSLNL	16	820288	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08		820288	89534465	95	41799											
ABCC6	368	broad.mit.edu	37	chr16	16255323	16255325	+	Missense_Mutation	TNP	ACG	CGA	CGA																															cagcagagacagagaagcccAcgaggccagcactgaggtgg																										TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr16:16255323_16255325ACG>CGA	uc002den.3	-	25	3640_3642	c.3603_3605CGT>TCG	c.(3601-3606)CTCGTG>CTTCGG	p.V1202R	ABCC6_uc010bvo.2_RNA	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	1202	ABC transmembrane type-1 2.|Helical; Name=17; (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		AGAGAAGCCCACGAGGCCAGCAC	0.626													3	24					0	0	0.004672	0	0		CGA	16255325	CGA	CGA	16255323	3	2	59	1	0	0	0	0	1	0	0	0	57	159	6	5	934	5	ABCC6	16	16255323	Missense_Mutation	TNP	ACG	TCGA-BR-8077-01A-11D-2340-08	15435035	16255323	74099430	96	41800											
RBBP6	5930	broad.mit.edu	37	chr16	24581590	24581590	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gatactgaaaaaatggatagGacccctgaaaaggacaaaat	20	6	9	6	0	0	2	0	2	0	0	0	6	0	5	2	3	1	0	2	3	9	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr16:24581590G>A	uc002dmh.2	+	17	4619	c.3579G>A	c.(3577-3579)AGG>AGA	p.R1193R	RBBP6_uc010vcb.1_Silent_p.R1060R|RBBP6_uc002dmi.2_Silent_p.R1159R|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Silent_p.R1026R	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1193					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		AAATGGATAGGACCCCTGAAA	0.358													5	33					0	0	0.014758	0	0		A	24581590	A	A	24581590	2	1	59	1	0	0	0	0	0	0	0	1	13128	1165	41	4		4	RBBP6	16	24581590	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08	8326267	24581590	65773163	97	41801											
KLHL36	79786	broad.mit.edu	37	chr16	84693458	84693458	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccggaatgagaacggagcGctctcttcagtagagacgta	11	7	14	9	4	2	2	1	1	1	2	3	6	2	4	1	3	2	3	1	3	4	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr16:84693458G>A	uc002fig.2	+	4	1371	c.1230G>A	c.(1228-1230)GCG>GCA	p.A410A	KLHL36_uc010chl.2_Intron	NM_024731	NP_079007	Q8N4N3	KLH36_HUMAN	kelch-like 36	410	Kelch 3.									skin(2)	2						AGAACGGAGCGCTCTCTTCAG	0.582													37	39					0	0	0.005524	0	0		A	84693458	A	A	84693458	2	1	59	1	0	0	0	0	0	0	0	1	8405	1074	38	1		1	KLHL36	16	84693458	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08	60111868	84693458	5661295	98	41802											
TP53	7157	broad.mit.edu	37	chr17	7577094	7577094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attctcttcctctgtgcgccGgtctctcccaggacaggcac	5	11	9	16	2	3	0	0	0	3	0	7	1	5	1	3	3	1	1	3	3	0	2	rs28934574		TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr17:7577094G>A	uc002gim.2	-	8	1038	c.844C>T	c.(844-846)CGG>TGG	p.R282W	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R282W|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R150W|TP53_uc010cng.1_Missense_Mutation_p.R150W|TP53_uc002gii.1_Missense_Mutation_p.R150W|TP53_uc010cnh.1_Missense_Mutation_p.R282W|TP53_uc010cni.1_Missense_Mutation_p.R282W|TP53_uc002gij.2_Missense_Mutation_p.R282W	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	282	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|DR -> EW (in sporadic cancers; somatic mutation).|R -> Q (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> H (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R282W(367)|p.R282G(27)|p.R282Q(20)|p.R282P(14)|p.R282R(8)|p.0?(7)|p.R282L(3)|p.D281fs*63(2)|p.?(2)|p.R282fs*24(2)|p.D281_R282>EW(2)|p.A276_R283delACPGRDRR(1)|p.R280fs*62(1)|p.R282_E287delRRTEEE(1)|p.G279fs*59(1)|p.S269fs*21(1)|p.C275_R283delCACPGRDRR(1)|p.D281_R282insXX(1)|p.L265_K305del41(1)|p.R282H(1)|p.R283_T284>T(1)|p.V272_K292del21(1)|p.R282fs*63(1)|p.C275fs*20(1)|p.D281_R282delDR(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TCTGTGCGCCGGTCTCTCCCA	0.557		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			23	11					0	0	0.012319	0	0		A	7577094	A	A	7577094	3	1	59	1	0	0	0	0	1	0	0	0	16407	1115	39	1	442	1	TP53	17	7577094	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08		7577094	73618116	99	41803											
MYH10	4628	broad.mit.edu	37	chr17	8398465	8398466	+	In_Frame_Ins	INS	-	GTA	GTA																															agggaatacctgtgtatcctINSgtagttgagactcaagacta																										TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr17:8398465_8398466insGTA	uc002gll.2	-	29	4048_4049	c.3952_3953insTAC	c.(3952-3954)CAG>CTACAG	p.1317_1318insL	MYH10_uc002glm.2_In_Frame_Ins_p.1348_1349insL|MYH10_uc010cnx.2_In_Frame_Ins_p.1326_1327insL	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1317_1318	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						CTGTGTATCCTGTAGTTGAGAC	0.416													11	24	---	---	---	---						.	GTA	8398466	GTA	GTA	8398465	7	5	59	1	0	1	1	0	0	0	0	0	10048	1580	55	0	2029	0	MYH10	17	8398465	In_Frame_Ins	INS	-	TCGA-BR-8077-01A-11D-2340-08	821371	8398465	72796745	100	41804											
EFCAB5	374786	broad.mit.edu	37	chr17	28417544	28417544	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagagaacaggagaggctctGggagtcctcgattttaacat	12	9	13	7	1	1	2	0	0	1	2	3	7	2	3	1	3	2	1	1	3	2	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr17:28417544G>T	uc002het.2	+	20	3981	c.3789G>T	c.(3787-3789)CTG>CTT	p.L1263L	EFCAB5_uc010cse.2_Silent_p.L1018L|EFCAB5_uc010csf.2_Intron	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	1263							calcium ion binding			ovary(1)|skin(1)	2						GAGAGGCTCTGGGAGTCCTCG	0.428													4	81					1.23904e-05	1.32266e-05	0.014758	1	0		T	28417544	T	T	28417544	2	4	59	1	0	0	0	0	0	0	0	1	4944	1335	47	5		5	EFCAB5	17	28417544	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08	20019079	28417544	52777666	101	41805											
KRTAP9-9	81870	broad.mit.edu	37	chr17	39411934	39411934	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaaccagctgtgggtccagCtgtggccagagcagctcctg	8	7	13	13	0	0	1	0	0	0	1	2	1	2	1	4	2	5	4	4	2	1	0			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr17:39411934C>A	uc010wfq.1	+	3	254	c.252C>A	c.(250-252)AGC>AGA	p.S84R		NM_030975	NP_112237	B5MDD6	B5MDD6_HUMAN	keratin associated protein 9-9	99						keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			GTGGGTCCAGCTGTGGCCAGA	0.612													41	900					2.05212e-20	2.31863e-20	0.005524	1	0		A	39411934	A	A	39411934	3	1	59	1	0	0	0	0	1	0	0	0	8593	796	28	5	299	5	KRTAP9-9	17	39411934	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	10994390	39411934	41783276	102	41806											
IGF2BP1	10642	broad.mit.edu	37	chr17	47076502	47076502	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttacaaggaaaacgcttagaGattgaacattcggtgcccaa	15	9	9	8	2	0	2	0	1	0	1	1	4	0	3	1	2	4	1	1	2	7	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr17:47076502G>C	uc002iom.2	+	2	541	c.207G>C	c.(205-207)GAG>GAC	p.E69D	IGF2BP1_uc010dbj.2_Missense_Mutation_p.E69D	NM_006546	NP_006537	Q9NZI8	IF2B1_HUMAN	insulin-like growth factor 2 mRNA binding	69	RRM 1.				CRD-mediated mRNA stabilization|negative regulation of translation|regulation of mRNA stability involved in response to stress	CRD-mediated mRNA stability complex|cytosol|dendritic spine|lamellipodium|nucleus|plasma membrane|stress granule	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			kidney(1)	1						AACGCTTAGAGATTGAACATT	0.493													3	23					0	0	0.004672	0	0		C	47076502	C	C	47076502	3	2	59	1	0	0	0	0	1	0	0	0	7589	933	33	5	213	5	IGF2BP1	17	47076502	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	7664568	47076502	34118708	103	41807											
RNFT1	51136	broad.mit.edu	37	chr17	58040311	58040311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accatgatctccagattctgCggcagtatcatcagtcagcc	10	10	8	13	1	5	2	3	1	2	1	6	2	5	2	3	1	2	2	3	1	1	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr17:58040311C>T	uc002iya.2	-	2	484	c.391G>A	c.(391-393)GCA>ACA	p.A131T	uc002iye.1_5'Flank|RNFT1_uc002iyb.2_RNA|RNFT1_uc002iyc.2_5'UTR|RNFT1_uc010wop.1_Missense_Mutation_p.A131T|RNFT1_uc002iyd.3_Missense_Mutation_p.A131T	NM_016125	NP_057209	Q5M7Z0	RNFT1_HUMAN	PTD016 protein	131						integral to membrane	zinc ion binding				0	all_cancers(5;1.58e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;7.95e-12)|all cancers(12;1.34e-10)			CCAGATTCTGCGGCAGTATCA	0.463													17	47					0	0	0.004007	0	0		T	58040311	T	T	58040311	3	4	59	1	0	0	0	0	1	0	0	0	13526	768	27	1	948	1	RNFT1	17	58040311	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	10963809	58040311	23154899	104	41808											
POTEC	388468	broad.mit.edu	37	chr18	14543092	14543092	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccatcttgctcctgagatcGaatggcttcttcacagcaga	9	11	8	13	1	3	2	1	1	2	2	5	4	4	2	2	1	2	3	2	1	1	3	rs45502401		TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr18:14543092G>A	uc010dln.2	-	1	508	c.54C>T	c.(52-54)TTC>TTT	p.F18F	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	18										skin(3)	3						TCCTGAGATCGAATGGCTTCT	0.572													12	168					0	0	0.016522	0	0		A	14543092	A	A	14543092	2	1	59	1	0	0	0	0	0	0	0	1	12281	1049	37	1		1	POTEC	18	14543092	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08		14543092	63534156	105	41809											
ZNF536	9745	broad.mit.edu	37	chr19	30935864	30935864	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccatgaaggagaaggaagcGctggggaagctgctgtctcc	10	6	15	10	1	1	2	0	1	1	1	2	5	1	4	2	4	3	3	2	4	4	0			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr19:30935864G>C	uc002nsu.1	+	2	1533	c.1395G>C	c.(1393-1395)GCG>GCC	p.A465A	ZNF536_uc010edd.1_Silent_p.A465A	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	465					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					AGAAGGAAGCGCTGGGGAAGC	0.657													8	90					0	0	0.00308	0	0		C	30935864	C	C	30935864	2	2	59	1	0	0	0	0	0	0	0	1	17999	1074	38	5		5	ZNF536	19	30935864	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08		30935864	28193119	106	41810											
CYP2F1	1572	broad.mit.edu	37	chr19	41627980	41627980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtccacgaccaccaggcctCgctagaccccagatctcccc	8	5	7	21	3	1	2	0	0	1	2	4	3	2	2	8	1	0	1	8	1	1	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr19:41627980C>T	uc002opu.1	+	6	820	c.764C>T	c.(763-765)TCG>TTG	p.S255L	CYP2F1_uc010xvw.1_Missense_Mutation_p.S41L|CYP2F1_uc010xvv.1_Missense_Mutation_p.S255L|CYP2F1_uc002opv.1_RNA	NM_000774	NP_000765	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F,	255					naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0						CACCAGGCCTCGCTAGACCCC	0.587													29	41					0	0	0.009535	0	0		T	41627980	T	T	41627980	3	4	59	1	0	0	0	0	1	0	0	0	4174	893	31	1	782	1	CYP2F1	19	41627980	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	10692116	41627980	17501003	107	41811											
GPR32	2854	broad.mit.edu	37	chr19	51273919	51273919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacctggggtcctgacacGtgatcgctcttgttccagga	7	10	12	12	2	1	2	0	2	1	0	4	3	3	3	3	3	1	3	3	3	1	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr19:51273919G>A	uc010ycf.1	+	1	62	c.62G>A	c.(61-63)CGT>CAT	p.R21H		NM_001506	NP_001497	O75388	GPR32_HUMAN	G protein-coupled receptor 32	21	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		GTCCTGACACGTGATCGCTCT	0.522													6	10					0	0	0.001984	0	0		A	51273919	A	A	51273919	3	1	59	1	0	0	0	0	1	0	0	0	6703	1145	40	1	64	1	GPR32	19	51273919	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	9645939	51273919	7855064	108	41812											
VN1R2	317701	broad.mit.edu	37	chr19	53762763	53762763	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagatccaggctctgcAgtatctgctgcagaagaaat	12	8	10	11	0	2	3	0	0	2	3	3	3	3	3	2	1	4	6	2	1	3	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr19:53762763A>C	uc002qbi.2	+	1	1219	c.1135A>C	c.(1135-1137)AGT>CGT	p.S379R		NM_173856	NP_776255	Q8NFZ6	VN1R2_HUMAN	vomeronasal 1 receptor 2	379	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0				GBM - Glioblastoma multiforme(134;0.00301)		CAGGCTCTGCAGTATCTGCTG	0.458													16	42					0	0	0.00499	0	0		C	53762763	C	C	53762763	3	2	59	1	0	0	0	0	1	0	0	0	17205	188	7	5	1137	5	VN1R2	19	53762763	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	2488844	53762763	5366220	109	41813											
TNNT1	7138	broad.mit.edu	37	chr19	55645256	55645256	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagacggtcacactcacaActtctgggcgtggctgatgc	8	10	12	11	2	3	2	2	2	1	1	3	3	3	2	0	3	2	1	0	3	1	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr19:55645256A>C	uc002qjb.3	-	13	879	c.790T>G	c.(790-792)TTC>GTC	p.F264V	TNNT1_uc002qiz.3_Missense_Mutation_p.F178V|TNNT1_uc002qja.3_Missense_Mutation_p.F178V|TNNT1_uc002qjc.3_Missense_Mutation_p.F248V|TNNT1_uc002qje.3_Missense_Mutation_p.F237V|TNNT1_uc002qjd.3_Missense_Mutation_p.F237V	NM_003283	NP_003274	P13805	TNNT1_HUMAN	troponin T1, skeletal, slow isoform a	264					muscle filament sliding|negative regulation of muscle contraction	cytosol|troponin complex	tropomyosin binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.047)		CACACTCACAACTTCTGGGCG	0.632													8	26					0	0	0.00308	0	0		C	55645256	C	C	55645256	3	2	59	1	0	0	0	0	1	0	0	0	16355	57	2	5	54	5	TNNT1	19	55645256	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	1882493	55645256	3483727	110	41814											
PEG3	5178	broad.mit.edu	37	chr19	57326272	57326272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcatggattctctgatgctCgaaaaggaatgagctatgaa	13	12	10	6	1	2	3	1	3	1	0	4	6	2	5	0	2	2	2	0	2	5	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr19:57326272C>T	uc002qnu.2	-	7	3889	c.3538G>A	c.(3538-3540)GAG>AAG	p.E1180K	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.E1151K|PEG3_uc002qnv.2_Missense_Mutation_p.E1180K|PEG3_uc002qnw.2_Missense_Mutation_p.E1056K|PEG3_uc002qnx.2_Missense_Mutation_p.E1054K|PEG3_uc010etr.2_Missense_Mutation_p.E1180K	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1180	C2H2-type 7.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CTCTGATGCTCGAAAAGGAAT	0.458													38	30					0	0	0.017118	0	0		T	57326272	T	T	57326272	3	4	59	1	0	0	0	0	1	0	0	0	11739	893	31	1	1232	1	PEG3	19	57326272	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	1681016	57326272	1802711	111	41815											
SIRPD	128646	broad.mit.edu	37	chr20	1517875	1517875	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtttctctcaggcagggccGagaggcaggtatgggcatca	8	9	15	9	1	3	1	2	0	1	1	4	2	3	1	1	5	0	5	1	5	1	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr20:1517875G>A	uc002wfi.2	-	3	547	c.503C>T	c.(502-504)TCG>TTG	p.S168L		NM_178460	NP_848555	Q9H106	SIRPD_HUMAN	signal-regulatory protein delta precursor	168						extracellular region				ovary(1)|kidney(1)|skin(1)	3						AGGCAGGGCCGAGAGGCAGGT	0.597													14	228					0	0	0.016723	0	0		A	1517875	A	A	1517875	3	1	59	1	0	0	0	0	1	0	0	0	14360	1059	37	1	98	1	SIRPD	20	1517875	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08		1517875	61507645	112	41816											
PTPN1	5770	broad.mit.edu	37	chr20	49197803	49197803	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccctctgattcctcagcAtgagtcaagacactgaagtt	10	11	8	12	0	3	4	2	3	1	1	4	4	4	4	2	0	2	2	2	0	2	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr20:49197803A>G	uc002xvl.2	+	9	1264	c.1090A>G	c.(1090-1092)ATG>GTG	p.M364V	PTPN1_uc010zys.1_Missense_Mutation_p.M291V	NM_002827	NP_002818	P18031	PTN1_HUMAN	protein tyrosine phosphatase, non-receptor type	364					blood coagulation|interferon-gamma-mediated signaling pathway|negative regulation of insulin receptor signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol|endoplasmic reticulum membrane	protein tyrosine phosphatase activity|zinc ion binding				0		Lung NSC(126;0.163)			Clodronate(DB00720)|Tiludronate(DB01133)	ATTCCTCAGCATGAGTCAAGA	0.532													5	92					0	0	0.014758	0	0		G	49197803	G	G	49197803	3	3	59	1	0	0	0	0	1	0	0	0	12802	231	8	3	1124	3	PTPN1	20	49197803	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	47679928	49197803	13827717	113	41817											
DIDO1	11083	broad.mit.edu	37	chr20	61542508	61542508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggccatcgctgtcactatCggaggtgtcatcgtggtcat	7	11	12	11	3	3	0	3	0	0	0	6	1	3	1	1	4	0	1	1	4	1	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr20:61542508C>T	uc002ydr.1	-	3	721	c.457G>A	c.(457-459)GAT>AAT	p.D153N	DIDO1_uc002yds.1_Missense_Mutation_p.D153N|DIDO1_uc002ydt.1_Missense_Mutation_p.D153N|DIDO1_uc002ydu.1_Missense_Mutation_p.D153N|DIDO1_uc002ydv.1_Missense_Mutation_p.D153N|DIDO1_uc002ydw.1_Missense_Mutation_p.D153N|DIDO1_uc002ydx.1_Missense_Mutation_p.D153N|DIDO1_uc011aao.1_Missense_Mutation_p.D153N	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	153					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CTGTCACTATCGGAGGTGTCA	0.572													39	41					0	0	0.005524	0	0		T	61542508	T	T	61542508	3	4	59	1	0	0	0	0	1	0	0	0	4528	884	31	1	6451	1	DIDO1	20	61542508	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	12344705	61542508	1483012	114	41818											
KCNQ2	3785	broad.mit.edu	37	chr20	62046361	62046361	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	caccttgctggggctgtcctCgaggctctggtcggcgctgg	2	10	16	13	3	1	0	0	0	1	0	4	1	2	0	2	6	1	4	2	6	0	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr20:62046361C>G	uc002yey.1	-	13	1597	c.1420G>C	c.(1420-1422)GAG>CAG	p.E474Q	KCNQ2_uc002yez.1_Missense_Mutation_p.E444Q|KCNQ2_uc002yfa.1_Missense_Mutation_p.E456Q|KCNQ2_uc002yfb.1_Missense_Mutation_p.E446Q	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	474	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	GGGCTGTCCTCGAGGCTCTGG	0.692													10	64					0	0	0.006214	0	0		G	62046361	G	G	62046361	3	3	59	1	0	0	0	0	1	0	0	0	8099	893	31	5	1218	5	KCNQ2	20	62046361	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	503853	62046361	979159	115	41819											
NCAM2	4685	broad.mit.edu	37	chr21	22656515	22656515	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccatggctctttgcagcGattggtgaacctgaaagtat	9	14	10	8	1	1	2	0	2	1	0	2	3	2	2	2	2	3	3	2	2	3	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr21:22656515G>T	uc002yld.1	+	3	381	c.132G>T	c.(130-132)GCG>GCT	p.A44A	NCAM2_uc011acb.1_Intron|NCAM2_uc011acc.1_Silent_p.A69A	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	44	Ig-like C2-type 1.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TCTTTGCAGCGATTGGTGAAC	0.328													11	18					9.70103e-10	1.05499e-09	0.008291	1	0		T	22656515	T	T	22656515	2	4	59	1	0	0	0	0	0	0	0	1	10222	1072	37	5		5	NCAM2	21	22656515	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08		22656515	25473380	116	41820											
CSF2RB	1439	broad.mit.edu	37	chr22	37328890	37328890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacaatgaaaatgcgatacGaacacatagaccacacattt	20	7	5	9	2	0	2	0	1	0	1	0	4	0	2	1	0	4	0	1	0	7	3	rs146404001	by1000genomes	TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr22:37328890G>A	uc003aqa.3	+	9	1313	c.1096G>A	c.(1096-1098)GAA>AAA	p.E366K	CSF2RB_uc003aqc.3_Missense_Mutation_p.E372K	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	366	Extracellular (Potential).|Fibronectin type-III 2.				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	AATGCGATACGAACACATAGA	0.567													7	20					0	0	0.00308	0	0		A	37328890	A	A	37328890	3	1	59	1	0	0	0	0	1	0	0	0	3938	1059	37	1	1126	1	CSF2RB	22	37328890	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08		37328890	13975676	117	41821											
ADSL	158	broad.mit.edu	37	chr22	40754925	40754925	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttggattcaggatctttgCatggatctccagaacttgaa	10	14	9	8	0	3	2	1	1	2	1	4	5	3	5	1	3	2	1	1	3	2	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr22:40754925C>T	uc003ayp.3	+	5	599	c.540C>T	c.(538-540)TGC>TGT	p.C180C	ADSL_uc003ays.3_Silent_p.C180C|ADSL_uc003ayq.3_Silent_p.C180C|ADSL_uc003ayr.3_5'UTR|ADSL_uc003ayt.3_Silent_p.C165C|ADSL_uc010gyb.1_RNA	NM_000026	NP_000017	P30566	PUR8_HUMAN	adenylosuccinate lyase isoform a	180					AMP biosynthetic process|protein tetramerization|purine base metabolic process	cytosol	(S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate AMP-lyase (fumarate-forming) activity|N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity			ovary(1)	1						AGGATCTTTGCATGGATCTCC	0.532													29	28					0	0	0.008361	0	0		T	40754925	T	T	40754925	2	4	59	1	0	0	0	0	0	0	0	1	346	718	25	2		2	ADSL	22	40754925	Silent	SNP	C	TCGA-BR-8077-01A-11D-2340-08	3426035	40754925	10549641	118	41822											
PLXNB2	23654	broad.mit.edu	37	chr22	50717049	50717049	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgcataagggtgttgacGcgcttccaccggccctcccg	6	9	12	14	4	0	1	0	1	0	0	2	1	2	1	4	2	1	3	4	2	2	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chr22:50717049G>A	uc003bkv.3	-	29	4729	c.4623C>T	c.(4621-4623)CGC>CGT	p.R1541R	PLXNB2_uc003bkt.1_Silent_p.R333R|PLXNB2_uc003bku.1_Silent_p.R526R	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1541	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GGGTGTTGACGCGCTTCCACC	0.667													11	15					0	0	0.008291	0	0		A	50717049	A	A	50717049	2	1	59	1	0	0	0	0	0	0	0	1	12143	1074	38	1		1	PLXNB2	22	50717049	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08	9962124	50717049	587517	119	41823											
USP11	8237	broad.mit.edu	37	chrX	47092439	47092439	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtagaagagaacggacGgcgatggcgacggtcgcagc	10	4	18	9	6	0	2	0	0	0	2	1	6	0	3	0	5	2	3	0	5	3	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:47092439G>A	uc004dhp.2	+	1	126	c.126G>A	c.(124-126)ACG>ACA	p.T42T		NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	42					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						GAGAACGgacggcgatggcga	0.383													17	14					0	0	0.00499	0	0		A	47092439	A	A	47092439	2	1	59	1	0	0	0	0	0	0	0	1	17068	1103	39	1		1	USP11	23	47092439	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08		47092439	108178121	120	41824											
GAGE2A	729447	broad.mit.edu	37	chrX	49355893	49355893	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagctgctcaggagggaCaggatgagggagcatctgca	10	6	16	9	0	2	1	1	1	1	0	2	5	2	5	0	4	5	5	0	4	0	0	rs147803166	by1000genomes	TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:49355893C>G	uc004doi.3	+	3	272	c.175C>G	c.(175-177)CAG>GAG	p.Q59E	GAGE1_uc011mnu.1_Intron|GAGE1_uc004doj.2_Intron	NM_001127212	NP_001120684	Q6NT46	GAG2A_HUMAN	G antigen 2A	59											0	Ovarian(276;0.236)					TCAGGAGGGACAGGATGAGGG	0.443													9	253					0	0	0.008291	0	0		G	49355893	G	G	49355893	3	3	59	1	0	0	0	0	1	0	0	0	6204	479	17	5	1282	5	GAGE2A	23	49355893	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	2263454	49355893	105914667	121	41825											
AR	367	broad.mit.edu	37	chrX	66765885	66765885	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgctagacgacagcgcAggcaagagcactgaagatac	13	6	11	11	2	1	4	0	1	1	3	2	5	1	4	0	1	4	4	0	1	4	2			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:66765885A>T	uc004dwu.1	+	1	2012	c.897A>T	c.(895-897)GCA>GCT	p.A299A	AR_uc011mpd.1_Silent_p.A299A|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Silent_p.A299A	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	297	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	ACGACAGCGCAGGCAAGAGCA	0.567									Androgen_Insensitivity_Syndrome				29	29					0	0	0.007291	0	0		T	66765885	T	T	66765885	2	4	59	1	0	0	0	0	0	0	0	1	836	175	7	5		5	AR	23	66765885	Silent	SNP	A	TCGA-BR-8077-01A-11D-2340-08	17409992	66765885	88504675	122	41826											
NAP1L2	4674	broad.mit.edu	37	chrX	72432992	72432992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcaaggtttttgcaacaaGctttaacttcctcaattgca	11	14	5	11	0	2	0	2	0	0	0	3	0	3	0	2	1	5	4	2	1	5	6			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:72432992G>A	uc004ebi.2	-	1	1693	c.1337C>T	c.(1336-1338)GCT>GTT	p.A446V	NAP1L2_uc011mqj.1_Missense_Mutation_p.A304V	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	446					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					TTTGCAACAAGCTTTAACTTC	0.378													4	9					0	0	0.001168	0	0		A	72432992	A	A	72432992	3	1	59	1	0	0	0	0	1	0	0	0	10175	971	34	2	49	2	NAP1L2	23	72432992	Missense_Mutation	SNP	G	TCGA-BR-8077-01A-11D-2340-08	5667107	72432992	82837568	123	41827											
CDX4	1046	broad.mit.edu	37	chrX	72667379	72667379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtacaatgggcacagtgcCggtgaacgacgtgacctcta	11	8	12	10	3	1	2	0	2	1	0	1	3	1	2	2	2	3	2	2	2	5	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:72667379C>T	uc011mqk.1	+	1	290	c.290C>T	c.(289-291)CCG>CTG	p.P97L		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	97						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(35;0.156)					GGCACAGTGCCGGTGAACGAC	0.642													7	38					0	0	0.004482	0	0		T	72667379	T	T	72667379	3	4	59	1	0	0	0	0	1	0	0	0	3187	652	23	1	292	1	CDX4	23	72667379	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	234387	72667379	82603181	124	41828											
CYSLTR1	10800	broad.mit.edu	37	chrX	77529219	77529219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggcatgtggcagaagataCtgtcagatttcctgtttcat	10	14	10	7	0	2	3	2	0	0	3	3	3	3	3	1	2	1	3	1	2	2	3			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:77529219C>T	uc004edb.2	-	3	425	c.25G>A	c.(25-27)GTA>ATA	p.V9I	CYSLTR1_uc010nma.2_Missense_Mutation_p.V9I|CYSLTR1_uc010nmb.2_Missense_Mutation_p.V9I	NM_006639	NP_006630	Q9Y271	CLTR1_HUMAN	cysteinyl leukotriene receptor 1	9	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|respiratory gaseous exchange	integral to plasma membrane|membrane fraction	leukotriene receptor activity			ovary(1)	1					Amlexanox(DB01025)|Cinalukast(DB00587)|Montelukast(DB00471)|Nedocromil(DB00716)|Pranlukast(DB01411)|Zafirlukast(DB00549)	GCAGAAGATACTGTCAGATTT	0.363													4	72					0	0	0.009096	0	0		T	77529219	T	T	77529219	3	4	59	1	0	0	0	0	1	0	0	0	4204	565	20	4	992	4	CYSLTR1	23	77529219	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	4861840	77529219	77741341	125	41829											
PCDH11X	27328	broad.mit.edu	37	chrX	91131997	91131997	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtctttaaggagacagAgattgaagtcagtataccag	14	9	10	8	0	2	3	1	1	1	2	2	5	2	3	2	1	1	1	2	1	4	5			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:91131997A>C	uc004efk.1	+	2	1603	c.758A>C	c.(757-759)GAG>GCG	p.E253A	PCDH11X_uc004efl.1_Missense_Mutation_p.E253A|PCDH11X_uc004efo.1_Missense_Mutation_p.E253A|PCDH11X_uc010nmv.1_Missense_Mutation_p.E253A|PCDH11X_uc004efm.1_Missense_Mutation_p.E253A|PCDH11X_uc004efn.1_Missense_Mutation_p.E253A|PCDH11X_uc004efh.1_Missense_Mutation_p.E253A|PCDH11X_uc004efj.1_Missense_Mutation_p.E253A	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	253	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						AAGGAGACAGAGATTGAAGTC	0.438													5	81					0	0	0.014758	0	0		C	91131997	C	C	91131997	3	2	59	1	0	0	0	0	1	0	0	0	11527	304	11	5	764	5	PCDH11X	23	91131997	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	13602778	91131997	64138563	126	41830											
COL4A6	1288	broad.mit.edu	37	chrX	107412759	107412759	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccctctcaggcccggcttCcctggagctccgatgccaat	5	9	10	17	2	1	0	1	0	1	0	4	2	3	1	5	3	3	2	5	3	1	1			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:107412759C>A	uc004enw.3	-	37	3763	c.3660G>T	c.(3658-3660)GGG>GGT	p.G1220G	COL4A6_uc004env.3_Silent_p.G1219G|COL4A6_uc011msn.1_Silent_p.G1195G|COL4A6_uc010npk.2_Silent_p.G1195G	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1220	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						GGCCCGGCTTCCCTGGAGCTC	0.572									Alport_syndrome_with_Diffuse_Leiomyomatosis				38	69					1.32136e-16	1.47382e-16	0.00874	1	0		A	107412759	A	A	107412759	2	1	59	1	0	0	0	0	0	0	0	1	3698	842	30	5		5	COL4A6	23	107412759	Silent	SNP	C	TCGA-BR-8077-01A-11D-2340-08	16280762	107412759	47857801	127	41831											
HTR2C	3358	broad.mit.edu	37	chrX	114141785	114141785	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagagaaaaagcctcctgTcaggcagattccaagagttg	13	8	12	8	0	1	3	1	0	0	3	3	4	3	3	3	2	1	3	3	2	4	3	rs151266355		TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:114141785T>A	uc004epu.1	+	6	1912	c.1184T>A	c.(1183-1185)GTC>GAC	p.V395D	HTR2C_uc010nqc.1_Missense_Mutation_p.V395D|HTR2C_uc004epv.1_3'UTR	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	395	Cytoplasmic (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	AAGCCTCCTGTCAGGCAGATT	0.443													84	81					0	0	0.01441	0	0		A	114141785	A	A	114141785	3	1	59	1	0	0	0	0	1	0	0	0	7459	1667	58	5	1198	5	HTR2C	23	114141785	Missense_Mutation	SNP	T	TCGA-BR-8077-01A-11D-2340-08	6729026	114141785	41128775	128	41832											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299259	125299259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccatccgccacagagccaCggtgccgtcgcgggagccgc	6	4	14	17	6	0	1	0	0	0	1	3	2	2	2	6	2	3	0	6	2	0	0			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:125299259C>T	uc004euk.1	-	1	676	c.649G>A	c.(649-651)GTG>ATG	p.V217M		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	217	WD 2.									lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						CACAGAGCCACGGTGCCGTCG	0.637													38	38					0	0	0.009718	0	0		T	125299259	T	T	125299259	3	4	59	1	0	0	0	0	1	0	0	0	4268	536	19	1	746	1	DCAF12L2	23	125299259	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	11157474	125299259	29971301	129	41833											
MOSPD1	56180	broad.mit.edu	37	chrX	134025640	134025640	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcccaggaagacagttagtAaactaggtcctgaggataca	14	8	10	9	0	0	2	0	1	0	1	2	4	2	4	2	3	2	2	2	3	6	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:134025640A>G	uc004eyb.2	-	5	666	c.479T>C	c.(478-480)TTA>TCA	p.L160S	MOSPD1_uc004eya.2_Intron|MOSPD1_uc010nrv.2_RNA	NM_019556	NP_062456	Q9UJG1	MSPD1_HUMAN	motile sperm domain containing 1	160	Helical; (Potential).				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	integral to membrane|nucleus|perinuclear region of cytoplasm	structural molecule activity			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(192;0.000127)					GACAGTTAGTAAACTAGGTCC	0.453													26	57					0	0	0.01892	0	0		G	134025640	G	G	134025640	3	3	59	1	0	0	0	0	1	0	0	0	9733	372	13	3	170	3	MOSPD1	23	134025640	Missense_Mutation	SNP	A	TCGA-BR-8077-01A-11D-2340-08	8726381	134025640	21244920	130	41834											
MAP7D3	79649	broad.mit.edu	37	chrX	135314089	135314089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacaggcgacacgtccaCgctcaccacagggaatgagt	12	4	10	15	3	1	1	1	1	0	0	2	3	2	2	3	2	0	1	3	2	1	0			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:135314089C>T	uc004ezt.2	-	8	1118	c.1027G>A	c.(1027-1029)GTG>ATG	p.V343M	MAP7D3_uc004ezs.2_Missense_Mutation_p.V307M|MAP7D3_uc011mwc.1_Missense_Mutation_p.V325M|MAP7D3_uc010nsa.1_Missense_Mutation_p.V301M	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	343						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					GACACGTCCACGCTCACCACA	0.567													25	156					0	0	0.016522	0	0		T	135314089	T	T	135314089	3	4	59	1	0	0	0	0	1	0	0	0	9287	536	19	1	1647	1	MAP7D3	23	135314089	Missense_Mutation	SNP	C	TCGA-BR-8077-01A-11D-2340-08	1288449	135314089	19956471	131	41835											
MAGEA10	4109	broad.mit.edu	37	chrX	151303170	151303170	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatttcaggagactcatcTtcctaatttcagcatgagcc	13	12	6	10	0	4	2	3	1	1	1	5	3	5	2	2	1	2	1	2	1	3	4			TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:151303170T>G	uc004ffk.2	-	5	1331	c.923A>C	c.(922-924)AAG>ACG	p.K308T	MAGEA10_uc004ffl.2_Missense_Mutation_p.K308T	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	308	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					GAGACTCATCTTCCTAATTTC	0.507													32	110					0	0	0.009535	0	0		G	151303170	G	G	151303170	3	3	59	1	0	0	0	0	1	0	0	0	9182	1609	56	5	190	5	MAGEA10	23	151303170	Missense_Mutation	SNP	T	TCGA-BR-8077-01A-11D-2340-08	15989081	151303170	3967390	132	41836											
SLC10A3	8273	broad.mit.edu	37	chrX	153716440	153716440	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagatggccagggtgacGtcccctccaagaaggaggct	10	6	15	10	1	0	3	0	1	0	2	2	5	2	4	4	5	0	1	4	5	2	0	rs151043660		TCGA-BR-8077-01A-11D-2340-08	TCGA-BR-8077-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	141af187-b767-4e25-8b46-dfa8618b1794	4ff305bd-6a6a-4583-a89c-ddab140a042d	g.chrX:153716440G>A	uc004flq.2	-	3	1104	c.840C>T	c.(838-840)GAC>GAT	p.D280D	UBL4A_uc004flo.2_5'Flank|SLC10A3_uc004flr.2_Silent_p.D251D|SLC10A3_uc004flp.2_Silent_p.D280D	NM_001142392	NP_001135864	P09131	P3_HUMAN	solute carrier family 10, member 3 isoform 1	280					organic anion transport	integral to membrane	bile acid:sodium symporter activity	p.D280N(1)		ovary(1)|skin(1)	2	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCAGGGTGACGTCCCCTCCAA	0.622													23	60					0	0	0.014323	0	0		A	153716440	A	A	153716440	2	1	59	1	0	0	0	0	0	0	0	1	14400	1136	40	1		1	SLC10A3	23	153716440	Silent	SNP	G	TCGA-BR-8077-01A-11D-2340-08	2413270	153716440	1554120	133	41837											
LPHN2	23266	broad.mit.edu	37	chr1	82421583	82421583	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattgttgacacagtggacaAccttctgagacccgaagctt	12	10	9	10	1	1	2	0	2	1	1	1	5	1	3	2	1	2	2	2	1	3	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr1:82421583A>T	uc001dit.3	+	10	1986	c.1805A>T	c.(1804-1806)AAC>ATC	p.N602I	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.N602I|LPHN2_uc001div.2_Missense_Mutation_p.N602I|LPHN2_uc009wcd.2_Missense_Mutation_p.N602I|LPHN2_uc001diw.2_Missense_Mutation_p.N186I	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	615	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		ACAGTGGACAACCTTCTGAGA	0.388													10	88					0	0	0.006214	0	0		T	82421583	T	T	82421583	3	4	60	1	0	0	0	0	1	0	0	0	8934	43	2	5	1835	5	LPHN2	1	82421583	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08		82421583	166829038	1	41838											
PKN2	5586	broad.mit.edu	37	chr1	89273385	89273385	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtgcttttagctgaatatAaaaacacaaatgagatgttt	16	13	8	4	0	0	2	0	2	0	1	0	3	0	2	0	1	3	3	0	1	7	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr1:89273385A>T	uc001dmn.2	+	15	2371	c.2029A>T	c.(2029-2031)AAA>TAA	p.K677*	PKN2_uc010osp.1_Nonsense_Mutation_p.K661*|PKN2_uc010osq.1_Nonsense_Mutation_p.K520*|PKN2_uc009wcv.2_Nonsense_Mutation_p.K629*|PKN2_uc010osr.1_Nonsense_Mutation_p.K342*	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	677	Protein kinase.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		AGCTGAATATAAAAACACAAA	0.264													6	81					0	0	0.001168	0	0		T	89273385	T	T	89273385	4	4	60	1	0	0	0	0	0	1	0	0	11999	363	13	5	2087	5	PKN2	1	89273385	Nonsense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	6851802	89273385	159977236	2	41839											
LASS2	29956	broad.mit.edu	37	chr1	150940919	150940919	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaaatgttccaaggtggcGttgggaggtgcccgcagccg	8	8	16	9	3	0	1	0	0	0	1	1	2	1	2	3	4	2	3	3	4	3	3	rs143495079	byFrequency	TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr1:150940919G>A	uc001evy.2	-	3	630	c.243C>T	c.(241-243)AAC>AAT	p.N81N	LASS2_uc001evz.2_Silent_p.N81N|LASS2_uc009wmh.2_Translation_Start_Site	NM_181746	NP_859530	Q96G23	CERS2_HUMAN	LAG1 longevity assurance 2	81	Cytoplasmic (Potential).|Homeobox.					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity				0	all_lung(15;8.07e-35)|Lung NSC(24;7.93e-31)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CCAAGGTGGCGTTGGGAGGTG	0.557													10	33					0	0	0.008291	0	0		A	150940919	A	A	150940919	2	1	60	1	0	0	0	0	0	0	0	1	8655	1136	40	1		1	LASS2	1	150940919	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08	61667534	150940919	98309702	3	41840											
IQGAP3	128239	broad.mit.edu	37	chr1	156524092	156524092	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccaggctgctccagaaGccactggcatcccgggcctc	7	7	10	17	1	1	1	1	0	0	1	4	1	3	1	5	3	2	3	5	3	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr1:156524092G>A	uc001fpf.2	-	13	1458	c.1383C>T	c.(1381-1383)GGC>GGT	p.G461G	IQGAP3_uc009wsb.1_Silent_p.G418G	NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	461					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGCTCCAGAAGCCACTGGCAT	0.607													7	73					0	0	0.00308	0	0		A	156524092	A	A	156524092	2	1	60	1	0	0	0	0	0	0	0	1	7832	958	34	2		2	IQGAP3	1	156524092	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08	5583173	156524092	92726529	4	41841											
CD1C	911	broad.mit.edu	37	chr1	158261141	158261141	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttcgtttctacctcttTggattaactcgggagattca	8	18	7	8	2	3	1	1	0	2	1	5	3	3	2	1	2	2	1	1	2	3	7			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr1:158261141T>C	uc001fru.2	+	2	571	c.279T>C	c.(277-279)TTT>TTC	p.F93F	CD1C_uc001frv.2_5'Flank	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	93	Extracellular (Potential).				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					TCTACCTCTTTGGATTAACTC	0.378													25	67					0	0	0.016522	0	0		C	158261141	C	C	158261141	2	2	60	1	0	0	0	0	0	0	0	1	2979	1809	63	3		3	CD1C	1	158261141	Silent	SNP	T	TCGA-BR-8080-01A-11D-2340-08	1737049	158261141	90989480	5	41842											
SPTA1	6708	broad.mit.edu	37	chr1	158595998	158595998	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgccattggtctttaggcTtgtttccttatcagctaaaa	9	17	7	8	0	2	0	1	0	1	0	3	0	3	0	2	2	2	3	2	2	4	8			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr1:158595998T>G	uc001fst.1	-	42	6047	c.5848A>C	c.(5848-5850)AGC>CGC	p.S1950R		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1950	Spectrin 19.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					GTCTTTAGGCTTGTTTCCTTA	0.408													11	34					0	0	0.010729	0	0		G	158595998	G	G	158595998	3	3	60	1	0	0	0	0	1	0	0	0	15141	1609	56	5	1455	5	SPTA1	1	158595998	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	334857	158595998	90654623	6	41843											
SPTA1	6708	broad.mit.edu	37	chr1	158606546	158606546	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggagctcactcgtatcaacTtctccctaaaatcaaggaag	13	9	8	11	1	4	0	3	0	1	0	6	2	4	2	1	2	2	2	1	2	6	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr1:158606546T>G	uc001fst.1	-	37	5394	c.5195A>C	c.(5194-5196)AAG>ACG	p.K1732T		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1732	Spectrin 17.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCGTATCAACTTCTCCCTAAA	0.473													31	98					0	0	0.009535	0	0		G	158606546	G	G	158606546	3	3	60	1	0	0	0	0	1	0	0	0	15141	1609	56	5	2128	5	SPTA1	1	158606546	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	10548	158606546	90644075	7	41844											
LMX1A	4009	broad.mit.edu	37	chr1	165182992	165182992	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtccttgccttcctcagcAgttcctttccctgccccatg	3	14	7	17	0	1	0	1	0	0	0	5	0	5	0	7	1	3	2	7	1	0	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr1:165182992A>G	uc001gcy.1	-	4	776	c.555T>C	c.(553-555)ACT>ACC	p.T185T	LMX1A_uc001gcz.1_Silent_p.T185T|LMX1A_uc001gcw.1_5'Flank|LMX1A_uc001gcx.1_5'Flank	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	185						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					CTTCCTCAGCAGTTCCTTTCC	0.488													9	159					0	0	0.008291	0	0		G	165182992	G	G	165182992	2	3	60	1	0	0	0	0	0	0	0	1	8878	175	7	3		3	LMX1A	1	165182992	Silent	SNP	A	TCGA-BR-8080-01A-11D-2340-08	6576446	165182992	84067629	8	41845											
ASPM	259266	broad.mit.edu	37	chr1	197111713	197111713	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttacctcgtttttataacTcttagatttacttaatattg	10	21	4	6	1	1	1	0	0	1	1	2	1	1	1	1	0	3	2	1	0	7	11			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr1:197111713T>A	uc001gtu.2	-	3	1926	c.1669A>T	c.(1669-1671)AGT>TGT	p.S557C	ASPM_uc001gtv.2_Missense_Mutation_p.S557C|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	557					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TTTTTATAACTCTTAGATTTA	0.343													9	92					0	0	0.004482	0	0		A	197111713	A	A	197111713	3	1	60	1	0	0	0	0	1	0	0	0	1057	1551	54	5	8868	5	ASPM	1	197111713	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	31928721	197111713	52138908	9	41846											
PTPRC	5788	broad.mit.edu	37	chr1	198711490	198711490	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagatgcctgatggttcaAgtagaggtatgttctaacct	11	12	11	7	0	2	3	1	1	1	2	2	4	2	3	2	2	2	4	2	2	4	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr1:198711490A>C	uc001gur.1	+	25	2865	c.2685A>C	c.(2683-2685)CAA>CAC	p.Q895H	PTPRC_uc001gus.1_Missense_Mutation_p.Q847H|PTPRC_uc001gut.1_Missense_Mutation_p.Q734H	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	895	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.	Substrate (By similarity).			axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TGATGGTTCAAGTAGAGGTAT	0.363													6	80					0	0	0.001168	0	0		C	198711490	C	C	198711490	3	2	60	1	0	0	0	0	1	0	0	0	12822	69	3	5	2790	5	PTPRC	1	198711490	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	1599777	198711490	50539131	10	41847											
MYBPH	4608	broad.mit.edu	37	chr1	203144565	203144565	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcacatcatccagggtcAgcagcagtggggcactgggg	8	7	15	11	0	3	0	3	0	0	0	4	0	4	0	1	5	3	4	1	5	0	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr1:203144565A>G	uc001gzh.1	-	2	289	c.230T>C	c.(229-231)CTG>CCG	p.L77P	FMOD_uc010pqi.1_Intron	NM_004997	NP_004988	Q13203	MYBPH_HUMAN	myosin binding protein H	77	Fibronectin type-III 1.				cell adhesion|regulation of striated muscle contraction	myosin filament	structural constituent of muscle				0			BRCA - Breast invasive adenocarcinoma(75;0.153)	Colorectal(1306;0.0306)		ATCCAGGGTCAGCAGCAGTGG	0.652													6	98					0	0	0.001168	0	0		G	203144565	G	G	203144565	3	3	60	1	0	0	0	0	1	0	0	0	10032	188	7	3	1239	3	MYBPH	1	203144565	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	4433075	203144565	46106056	11	41848											
ESRRG	2104	broad.mit.edu	37	chr1	216692701	216692701	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatacgacaccaaggatcaAaatttccatccaagcactct	15	9	5	12	1	2	0	1	0	1	0	4	2	4	1	3	1	2	2	3	1	6	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr1:216692701A>C	uc001hkw.1	-	6	1091	c.925T>G	c.(925-927)TTG>GTG	p.L309V	ESRRG_uc001hky.1_Missense_Mutation_p.L286V|ESRRG_uc009xdp.1_Missense_Mutation_p.L286V|ESRRG_uc001hkz.1_Missense_Mutation_p.L247V|ESRRG_uc010puc.1_Missense_Mutation_p.L286V|ESRRG_uc001hla.1_Missense_Mutation_p.L286V|ESRRG_uc001hlb.1_Missense_Mutation_p.L286V|ESRRG_uc010pud.1_Missense_Mutation_p.L117V|ESRRG_uc001hlc.1_Missense_Mutation_p.L286V|ESRRG_uc001hld.1_Missense_Mutation_p.L286V|ESRRG_uc001hkx.1_Missense_Mutation_p.L321V|ESRRG_uc009xdo.1_Missense_Mutation_p.L286V|ESRRG_uc001hle.1_Missense_Mutation_p.L286V	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	309					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	CCAAGGATCAAAATTTCCATC	0.473													5	35					0	0	0.014758	0	0		C	216692701	C	C	216692701	3	2	60	1	0	0	0	0	1	0	0	0	5270	11	1	5	459	5	ESRRG	1	216692701	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	13548136	216692701	32557920	12	41849											
ALK	238	broad.mit.edu	37	chr2	29416759	29416759	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaagtggaccatattctatCggcaaagcggtgttgattac	12	11	10	8	2	1	1	0	1	1	0	2	2	1	2	1	3	2	2	1	3	5	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr2:29416759C>T	uc002rmy.2	-	29	5101	c.4194G>A	c.(4192-4194)CCG>CCA	p.P1398P	ALK_uc010ymo.1_Silent_p.P330P	NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	1398	Cytoplasmic (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	CATATTCTATCGGCAAAGCGG	0.398			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				5	40					0	0	0.001168	0	0		T	29416759	T	T	29416759	2	4	60	1	0	0	0	0	0	0	0	1	525	871	31	1		1	ALK	2	29416759	Silent	SNP	C	TCGA-BR-8080-01A-11D-2340-08		29416759	213782614	13	41850											
PCBP1	5093	broad.mit.edu	37	chr2	70315122	70315122	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgacaagctggaggaagatAtcaacagctccatgaccaac	15	6	9	11	1	1	2	1	1	0	1	3	5	2	4	2	2	4	2	2	2	5	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr2:70315122A>T	uc002sgf.2	+	1	538	c.247A>T	c.(247-249)ATC>TTC	p.I83F	ASPRV1_uc002sga.2_5'Flank|uc002sgb.1_5'Flank|uc002sgd.2_5'Flank|uc002sge.1_5'Flank	NM_006196	NP_006187	Q15365	PCBP1_HUMAN	poly(rC) binding protein 1	83					nuclear mRNA splicing, via spliceosome	cytoplasm|nucleoplasm|ribonucleoprotein complex	protein binding|RNA binding|single-stranded DNA binding				0						GGAGGAAGATATCAACAGCTC	0.592													10	114					0	0	0.008291	0	0		T	70315122	T	T	70315122	3	4	60	1	0	0	0	0	1	0	0	0	11519	449	16	5	249	5	PCBP1	2	70315122	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	40898363	70315122	172884251	14	41851											
DPP10	57628	broad.mit.edu	37	chr2	116503686	116503686	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaagtgaacccaacaataAaattatatgttgtaaacctg	17	11	6	7	0	1	1	1	1	0	0	1	1	1	1	2	0	3	2	2	0	10	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr2:116503686A>T	uc002tla.1	+	10	1334	c.877A>T	c.(877-879)AAA>TAA	p.K293*	DPP10_uc002tlb.1_Nonsense_Mutation_p.K243*|DPP10_uc002tlc.1_Nonsense_Mutation_p.K289*|DPP10_uc002tle.2_Nonsense_Mutation_p.K297*|DPP10_uc002tlf.1_Nonsense_Mutation_p.K286*	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	293	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						CCCAACAATAAAATTATATGT	0.333													5	47					0	0	0.014758	0	0		T	116503686	T	T	116503686	4	4	60	1	0	0	0	0	0	1	0	0	4733	15	1	5	1086	5	DPP10	2	116503686	Nonsense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	46188564	116503686	126695687	15	41852											
LRP1B	53353	broad.mit.edu	37	chr2	140995737	140995737	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctttgttgggtctatcAtaaagccaggatctaaaaga	13	12	8	8	0	3	1	1	0	2	1	3	2	3	2	2	2	2	1	2	2	6	6			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr2:140995737A>C	uc002tvj.1	-	89	14516	c.13544T>G	c.(13543-13545)ATG>AGG	p.M4515R		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4515	Cytoplasmic (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TGGGTCTATCATAAAGCCAGG	0.373										TSP Lung(27;0.18)			9	90					0	0	0.010729	0	0		C	140995737	C	C	140995737	3	2	60	1	0	0	0	0	1	0	0	0	8973	217	8	5	267	5	LRP1B	2	140995737	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	24492051	140995737	102203636	16	41853											
LRP1B	53353	broad.mit.edu	37	chr2	141093238	141093238	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagccatatttgttaagAgtctggtgcagttggggcca	8	12	12	9	0	1	1	0	0	1	1	2	1	2	1	3	3	2	3	3	3	2	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr2:141093238A>G	uc002tvj.1	-	78	13034	c.12062T>C	c.(12061-12063)CTC>CCC	p.L4021P		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4021	Extracellular (Potential).|LDL-receptor class B 34.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATTTGTTAAGAGTCTGGTGCA	0.413										TSP Lung(27;0.18)			8	101					0	0	0.00308	0	0		G	141093238	G	G	141093238	3	3	60	1	0	0	0	0	1	0	0	0	8973	304	11	3	1793	3	LRP1B	2	141093238	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	97501	141093238	102106135	17	41854											
SCN3A	6328	broad.mit.edu	37	chr2	166003271	166003271	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgaggggagcagaattttTtgtcactggtcagtctgttt	8	15	13	5	0	3	2	2	1	1	1	3	4	3	3	0	3	1	2	0	3	1	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr2:166003271T>C	uc002ucx.2	-	12	2141	c.1649A>G	c.(1648-1650)AAA>AGA	p.K550R	SCN3A_uc002ucy.2_Missense_Mutation_p.K550R|SCN3A_uc002ucz.2_Missense_Mutation_p.K550R|SCN3A_uc002uda.1_Missense_Mutation_p.K419R|SCN3A_uc002udb.1_Missense_Mutation_p.K419R	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	550						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	GCAGAATTTTTTGTCACTGGT	0.398													16	110					0	0	0.003163	0	0		C	166003271	C	C	166003271	3	2	60	1	0	0	0	0	1	0	0	0	13943	1841	64	3	4421	3	SCN3A	2	166003271	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	24910033	166003271	77196102	18	41855											
HOXD10	3236	broad.mit.edu	37	chr2	176981726	176981726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacctgtggactgctcccGtctctggccaaaagagaagt	11	8	10	12	1	1	1	0	0	1	1	3	3	2	2	3	2	2	1	3	2	4	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr2:176981726G>A	uc002ukj.2	+	1	235	c.165G>A	c.(163-165)CCG>CCA	p.P55P		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	55						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		GACTGCTCCCGTCTCTGGCCA	0.488													8	112					0	0	0.00308	0	0		A	176981726	A	A	176981726	2	1	60	1	0	0	0	0	0	0	0	1	7335	1132	40	1		1	HOXD10	2	176981726	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08	10978455	176981726	66217647	19	41856											
TTN	7273	broad.mit.edu	37	chr2	179413171	179413171	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgataacctgccaactaCggcgacttgcctctcgtttc	8	11	7	15	3	1	1	0	1	1	0	3	2	1	1	3	1	5	1	3	1	3	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr2:179413171C>T	uc010zfg.1	-	288	85702	c.85478G>A	c.(85477-85479)CGT>CAT	p.R28493H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R22188H|TTN_uc010zfi.1_Missense_Mutation_p.R22121H|TTN_uc010zfj.1_Missense_Mutation_p.R21996H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29420							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGCCAACTACGGCGACTTGC	0.498													13	249					0	0	0.016723	0	0		T	179413171	T	T	179413171	3	4	60	1	0	0	0	0	1	0	0	0	16761	536	19	1	14893	1	TTN	2	179413171	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	2431445	179413171	63786202	20	41857											
TTN	7273	broad.mit.edu	37	chr2	179424681	179424681	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaccaaccttattgacagaTtttactctgaaaacatattc	14	13	4	10	0	1	3	0	2	1	1	2	3	1	3	2	0	3	1	2	0	6	6			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr2:179424681T>G	uc010zfg.1	-	275	78698	c.78474A>C	c.(78472-78474)AAA>AAC	p.K26158N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K19853N|TTN_uc010zfi.1_Missense_Mutation_p.K19786N|TTN_uc010zfj.1_Missense_Mutation_p.K19661N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27085							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TATTGACAGATTTTACTCTGA	0.403													6	77					0	0	0.001984	0	0		G	179424681	G	G	179424681	3	3	60	1	0	0	0	0	1	0	0	0	16761	1490	52	5	21949	5	TTN	2	179424681	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	11510	179424681	63774692	21	41858											
TTN	7273	broad.mit.edu	37	chr2	179439187	179439187	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cataagcaataccatctgtaAgtccacttgatttgaaaatg	15	12	6	8	0	1	2	0	2	1	0	2	2	2	2	2	0	2	2	2	0	6	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr2:179439187A>G	uc010zfg.1	-	275	64192	c.63968T>C	c.(63967-63969)CTT>CCT	p.L21323P	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.L15018P|TTN_uc010zfi.1_Missense_Mutation_p.L14951P|TTN_uc010zfj.1_Missense_Mutation_p.L14826P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22250							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACCATCTGTAAGTCCACTTGA	0.418													25	341					0	0	0.009535	0	0		G	179439187	G	G	179439187	3	3	60	1	0	0	0	0	1	0	0	0	16761	72	3	3	36455	3	TTN	2	179439187	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	14506	179439187	63760186	22	41859											
TTN	7273	broad.mit.edu	37	chr2	179600580	179600580	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttggaagccttacaagaatAaactcctctatcttgaatgg	13	12	8	8	0	2	2	0	1	2	1	3	3	3	3	2	2	3	1	2	2	8	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr2:179600580A>G	uc010zfg.1	-	47	11085	c.10861T>C	c.(10861-10863)TAT>CAT	p.Y3621H	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.Y282H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4548							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTACAAGAATAAACTCCTCTA	0.413													10	63					0	0	0.010729	0	0		G	179600580	G	G	179600580	3	3	60	1	0	0	0	0	1	0	0	0	16761	362	13	3	90188	3	TTN	2	179600580	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	161393	179600580	63598793	23	41860											
ZDBF2	57683	broad.mit.edu	37	chr2	207172843	207172843	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaatcaatgttgtggttcTgaagtaagttttgattctga	11	16	9	5	0	3	3	1	3	2	0	3	3	3	3	0	1	0	4	0	1	4	6			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr2:207172843T>C	uc002vbp.2	+	5	3841	c.3591T>C	c.(3589-3591)TCT>TCC	p.S1197S		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1197							nucleic acid binding|zinc ion binding			ovary(3)	3						GTTGTGGTTCTGAAGTAAGTT	0.418													7	57					0	0	0.001984	0	0		C	207172843	C	C	207172843	2	2	60	1	0	0	0	0	0	0	0	1	17624	1567	55	3		3	ZDBF2	2	207172843	Silent	SNP	T	TCGA-BR-8080-01A-11D-2340-08	27572263	207172843	36026530	24	41861											
DAG1	1605	broad.mit.edu	37	chr3	49568587	49568587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgacctcctgcacaggatgCggagcttctcagaagtagag	10	9	12	10	1	1	3	1	1	1	2	3	5	2	5	2	2	3	3	2	2	2	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr3:49568587C>T	uc003cxc.3	+	3	1061	c.643C>T	c.(643-645)CGG>TGG	p.R215W		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	215	Required for laminin recognition.				cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GCACAGGATGCGGAGCTTCTC	0.507													5	45					0	0	0.014758	0	0		T	49568587	T	T	49568587	3	4	60	1	0	0	0	0	1	0	0	0	4228	759	27	1	649	1	DAG1	3	49568587	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08		49568587	148453843	25	41862											
LRTM1	57408	broad.mit.edu	37	chr3	54958847	54958847	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaggatgtgggaaggtggcTtatgttgtttgatgacaaat	11	13	14	3	0	0	2	0	2	0	0	0	4	0	4	0	4	0	3	0	4	4	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr3:54958847T>C	uc003dhl.2	-	2	537	c.403A>G	c.(403-405)AGC>GGC	p.S135G	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	135	LRR 4.|Extracellular (Potential).					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		GGAAGGTGGCTTATGTTGTTT	0.473													12	56					0	0	0.013537	0	0		C	54958847	C	C	54958847	3	2	60	1	0	0	0	0	1	0	0	0	9062	1609	56	3	642	3	LRTM1	3	54958847	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	5390260	54958847	143063583	26	41863											
FLNB	2317	broad.mit.edu	37	chr3	58109299	58109299	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccctgacggccggcatgtaCacgttgaccatgaagtatgg	9	8	12	12	3	0	3	0	3	0	0	0	3	0	3	4	3	1	4	4	3	3	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr3:58109299C>G	uc003djj.2	+	21	3771	c.3606C>G	c.(3604-3606)TAC>TAG	p.Y1202*	FLNB_uc010hne.2_Nonsense_Mutation_p.Y1202*|FLNB_uc003djk.2_Nonsense_Mutation_p.Y1202*|FLNB_uc010hnf.2_Nonsense_Mutation_p.Y1202*|FLNB_uc003djl.2_Nonsense_Mutation_p.Y1033*|FLNB_uc003djm.2_Nonsense_Mutation_p.Y1033*	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1202	Interaction with FBLP1.|Filamin 10.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		CCGGCATGTACACGTTGACCA	0.577													7	60					0	0	0.001984	0	0		G	58109299	G	G	58109299	4	3	60	1	0	0	0	0	0	1	0	0	5948	489	17	5	3688	5	FLNB	3	58109299	Nonsense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	3150452	58109299	139913131	27	41864											
OR5H14	403273	broad.mit.edu	37	chr3	97868494	97868494	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcaacttcttagctaagAgtaagatgatatctctctct	12	15	6	8	0	4	4	1	2	3	2	6	4	4	4	0	0	2	2	0	0	5	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr3:97868494A>G	uc003dsg.1	+	1	265	c.265A>G	c.(265-267)AGT>GGT	p.S89G		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CTTAGCTAAGAGTAAGATGAT	0.388													34	219					0	0	0.010818	0	0		G	97868494	G	G	97868494	3	3	60	1	0	0	0	0	1	0	0	0	11179	304	11	3	267	3	OR5H14	3	97868494	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	39759195	97868494	100153936	28	41865											
AMOTL2	51421	broad.mit.edu	37	chr3	134080535	134080535	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgagctgcccggccctgcGcattgcccagagcctgctcc	4	7	11	19	3	0	1	0	0	0	1	2	2	1	1	5	1	6	3	5	1	0	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr3:134080535G>A	uc003eqf.2	-	6	1685	c.1568C>T	c.(1567-1569)GCG>GTG	p.A523V	AMOTL2_uc003eqg.1_Missense_Mutation_p.A465V|AMOTL2_uc003eqh.1_Missense_Mutation_p.A465V|AMOTL2_uc003eqe.1_Missense_Mutation_p.A90V	NM_016201	NP_057285	Q9Y2J4	AMOL2_HUMAN	angiomotin like 2	465	Potential.									large_intestine(1)	1						CCGGCCCTGCGCATTGCCCAG	0.682													4	23					0	0	0.009096	0	0		A	134080535	A	A	134080535	3	1	60	1	0	0	0	0	1	0	0	0	584	1087	38	1	968	1	AMOTL2	3	134080535	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	36212041	134080535	63941895	29	41866											
PLD1	5337	broad.mit.edu	37	chr3	171330103	171330103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgaagtcctcgggcaaaccGgccagcttggtactcttttc	7	10	10	14	3	1	0	0	0	1	0	4	1	2	0	4	3	3	3	4	3	3	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr3:171330103G>A	uc003fhs.2	-	25	2964	c.2848C>T	c.(2848-2850)CGG>TGG	p.R950W	PLD1_uc003fht.2_Missense_Mutation_p.R912W|PLD1_uc003fhu.3_Missense_Mutation_p.R244W	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	950					cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	CGGGCAAACCGGCCAGCTTGG	0.542													5	49					0	0	0.014758	0	0		A	171330103	A	A	171330103	3	1	60	1	0	0	0	0	1	0	0	0	12064	1115	39	1	388	1	PLD1	3	171330103	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	37249568	171330103	26692327	30	41867											
GAK	2580	broad.mit.edu	37	chr4	861053	861053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtcctgctgcaccagccCtgctgccaggccggggggct	5	6	14	16	1	0	0	0	0	0	0	1	0	1	0	5	4	5	4	5	4	1	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:861053C>T	uc003gbm.3	-	21	2762	c.2563G>A	c.(2563-2565)GGG>AGG	p.G855R	GAK_uc003gbn.3_Missense_Mutation_p.G776R|GAK_uc010ibk.1_Missense_Mutation_p.G749R|GAK_uc010ibi.2_Missense_Mutation_p.G36R|GAK_uc010ibj.2_RNA|GAK_uc003gbl.3_Missense_Mutation_p.G719R	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	855					cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		TGCACCAGCCCTGCTGCCAGG	0.662													10	77					0	0	0.006214	0	0		T	861053	T	T	861053	3	4	60	1	0	0	0	0	1	0	0	0	6210	681	24	4	1404	4	GAK	4	861053	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08		861053	190293223	31	41868											
TADA2B	93624	broad.mit.edu	37	chr4	7056285	7056285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaggagaaggagctgcGcctgaagctgaggccgctgt	10	5	17	9	2	0	3	0	2	0	1	0	6	0	5	2	4	3	3	2	4	3	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:7056285G>A	uc003gjw.3	+	2	918	c.767G>A	c.(766-768)CGC>CAC	p.R256H	TADA2B_uc010idi.2_Missense_Mutation_p.R181H	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	256					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0						AAGGAGCTGCGCCTGAAGCTG	0.522													4	43					0	0	0.014758	0	0		A	7056285	A	A	7056285	3	1	60	1	0	0	0	0	1	0	0	0	15536	1087	38	1	773	1	TADA2B	4	7056285	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	6195232	7056285	184097991	32	41869											
PCDH7	5099	broad.mit.edu	37	chr4	30724803	30724803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatctttgccatcgatcccGattctggggacatcctggtc	6	12	11	12	2	2	0	0	0	2	0	6	4	4	2	3	4	1	0	3	4	0	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:30724803G>A	uc003gsk.1	+	1	2767	c.1759G>A	c.(1759-1761)GAT>AAT	p.D587N	PCDH7_uc011bxw.1_Missense_Mutation_p.D540N|PCDH7_uc011bxx.1_Missense_Mutation_p.D587N	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	587	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						CATCGATCCCGATTCTGGGGA	0.572													7	34					0	0	0.001984	0	0		A	30724803	A	A	30724803	3	1	60	1	0	0	0	0	1	0	0	0	11535	1058	37	1	1761	1	PCDH7	4	30724803	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	23668518	30724803	160429473	33	41870											
GRXCR1	389207	broad.mit.edu	37	chr4	42895621	42895621	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggcgtcaaatacaaagTgagtgctggccaggctctat	12	8	12	9	1	2	2	1	1	1	1	2	2	2	2	1	3	2	2	1	3	4	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:42895621T>C	uc003gwt.2	+	1	338	c.338T>C	c.(337-339)GTG>GCG	p.V113A		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	113					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						AAATACAAAGTGAGTGCTGGC	0.428													12	112					0	0	0.016723	0	0		C	42895621	C	C	42895621	3	2	60	1	0	0	0	0	1	0	0	0	6828	1696	59	3	340	3	GRXCR1	4	42895621	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	12170818	42895621	148258655	34	41871											
CXCL9	4283	broad.mit.edu	37	chr4	76925962	76925962	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcttccttttcaccaacCtgtttctcccactttttaat	7	19	2	13	0	3	1	1	1	2	0	5	1	4	1	4	0	1	1	4	0	2	7			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:76925962C>A	uc003hjh.1	-	3	315	c.276G>T	c.(274-276)CAG>CAT	p.Q92H		NM_002416	NP_002407	Q07325	CXCL9_HUMAN	small inducible cytokine B9 precursor	92					cell-cell signaling|cellular defense response|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|inflammatory response	extracellular space	chemokine activity			ovary(1)	1			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TTTCACCAACCTGTTTCTCCC	0.328													7	49					0.00198382	0.00204245	0.001984	1	0		A	76925962	A	A	76925962	3	1	60	1	0	0	0	0	1	0	0	0	4092	695	24	5	109	5	CXCL9	4	76925962	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	34030341	76925962	114228314	35	41872											
GRID2	2895	broad.mit.edu	37	chr4	94137982	94137982	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccagttccccagaacataAgtcagcggtgtttccgtggc	8	11	10	12	2	1	1	1	0	0	1	4	1	4	1	4	2	2	2	4	2	2	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:94137982A>C	uc011cdt.1	+	6	1141	c.883A>C	c.(883-885)AGT>CGT	p.S295R	GRID2_uc010ikx.2_Missense_Mutation_p.S295R|GRID2_uc011cdu.1_Missense_Mutation_p.S200R|GRID2_uc010ikz.1_5'UTR	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	295	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CCAGAACATAAGTCAGCGGTG	0.403													16	110					0	0	0.004007	0	0		C	94137982	C	C	94137982	3	2	60	1	0	0	0	0	1	0	0	0	6788	72	3	5	905	5	GRID2	4	94137982	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	17212020	94137982	97016294	36	41873											
C4orf31	79625	broad.mit.edu	37	chr4	121961132	121961132	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagctcctggaggctcagcTtccactccaaaggcgcatca	9	7	10	15	1	2	0	2	0	0	0	5	1	5	1	3	3	2	5	3	3	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:121961132T>A	uc003idq.1	-	3	793	c.266A>T	c.(265-267)AAG>ATG	p.K89M		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	89											0						GAGGCTCAGCTTCCACTCCAA	0.512													4	41					0	0	0.009096	0	0		A	121961132	A	A	121961132	3	1	60	1	0	0	0	0	1	0	0	0	2264	1609	56	5	1448	5	C4orf31	4	121961132	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	27823150	121961132	69193144	37	41874											
EDNRA	1909	broad.mit.edu	37	chr4	148407147	148407147	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaactctgctcaggatcaTttaccagaacaaatgtatga	14	11	7	9	0	3	2	2	1	1	1	3	3	3	3	1	1	5	3	1	1	5	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:148407147T>G	uc003iky.2	+	2	1006	c.314T>G	c.(313-315)ATT>AGT	p.I105S	EDNRA_uc011cid.1_Intron|EDNRA_uc010ipe.1_Missense_Mutation_p.I105S|EDNRA_uc010ipf.1_RNA|EDNRA_uc010ipg.1_Missense_Mutation_p.I105S	NM_001957	NP_001948	P25101	EDNRA_HUMAN	endothelin receptor type A isoform a precursor	105	Cytoplasmic (Potential).				activation of adenylate cyclase activity|artery smooth muscle contraction|cell proliferation|glucose transport|respiratory gaseous exchange	integral to plasma membrane	endothelin-A receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|breast(1)	2	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.154)	Bosentan(DB00559)	CTCAGGATCATTTACCAGAAC	0.418													17	124					0	0	0.006122	0	0		G	148407147	G	G	148407147	3	3	60	1	0	0	0	0	1	0	0	0	4925	1493	52	5	316	5	EDNRA	4	148407147	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	26446015	148407147	42747129	38	41875											
DCHS2	54798	broad.mit.edu	37	chr4	155254538	155254538	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaaccacgggctgcgtcTcgtgatccaggggcttccgg	6	7	14	14	4	1	1	0	1	1	0	4	1	3	1	3	4	2	3	3	4	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:155254538T>C	uc003inw.2	-	9	1325	c.1325A>G	c.(1324-1326)GAG>GGG	p.E442G	DCHS2_uc003inx.2_Missense_Mutation_p.E941G	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	442	Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GGGCTGCGTCTCGTGATCCAG	0.587													5	37					0	0	0.014758	0	0		C	155254538	C	C	155254538	3	2	60	1	0	0	0	0	1	0	0	0	4291	1551	54	3	7589	3	DCHS2	4	155254538	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	6847391	155254538	35899738	39	41876											
GLRB	2743	broad.mit.edu	37	chr4	158041808	158041808	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcccaggataagaccaaacTtcaaaggtttgtctccccca	13	9	6	13	0	2	1	1	0	1	1	4	2	3	2	4	2	1	1	4	2	3	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:158041808T>G	uc003ipj.2	+	3	425	c.223T>G	c.(223-225)TTC>GTC	p.F75V		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	75	Extracellular (Probable).				nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	AAGACCAAACTTCAAAGGTTT	0.343													4	35					0	0	0.009096	0	0		G	158041808	G	G	158041808	3	3	60	1	0	0	0	0	1	0	0	0	6473	1609	56	5	229	5	GLRB	4	158041808	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	2787270	158041808	33112468	40	41877											
RAPGEF2	9693	broad.mit.edu	37	chr4	160251157	160251157	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaaagggacacattgtcAtcaaggtaggacacaggacc	16	5	11	9	0	2	1	2	0	0	1	2	4	2	4	1	4	0	1	1	4	4	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:160251157A>T	uc003iqg.3	+	6	1124	c.814A>T	c.(814-816)ATC>TTC	p.I272F		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	272	N-terminal Ras-GEF.				cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		ACACATTGTCATCAAGGTAGG	0.393													7	89					0	0	0.001984	0	0		T	160251157	T	T	160251157	3	4	60	1	0	0	0	0	1	0	0	0	13069	217	8	5	836	5	RAPGEF2	4	160251157	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	2209349	160251157	30903119	41	41878											
WDR17	116966	broad.mit.edu	37	chr4	177052829	177052829	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgcagtgtgttgtttcttGgatggtggagttggacttta	6	17	14	4	0	1	0	0	0	1	0	1	3	1	3	0	4	1	4	0	4	1	6			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:177052829G>C	uc003iuj.2	+	8	1266	c.1110G>C	c.(1108-1110)TTG>TTC	p.L370F	WDR17_uc003iuk.2_Missense_Mutation_p.L346F|WDR17_uc003ium.3_Missense_Mutation_p.L346F|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	370										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		GTTGTTTCTTGGATGGTGGAG	0.383													17	178					0	0	0.007413	0	0		C	177052829	C	C	177052829	3	2	60	1	0	0	0	0	1	0	0	0	17303	1339	47	5	1136	5	WDR17	4	177052829	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	16801672	177052829	14101447	42	41879											
AGA	175	broad.mit.edu	37	chr4	178355641	178355641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattggtgagtctcctacaCggctttgagagggtattaac	9	13	12	7	1	1	2	0	2	1	1	2	3	1	2	1	3	2	3	1	3	4	6			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:178355641C>T	uc003iuu.1	-	7	763	c.701G>A	c.(700-702)CGT>CAT	p.R234H	AGA_uc010irt.1_RNA|AGA_uc003iuv.1_Missense_Mutation_p.V113M|AGA_uc003iuw.2_Intron	NM_000027	NP_000018	P20933	ASPG_HUMAN	aspartylglucosaminidase precursor	234					asparagine catabolic process via L-aspartate|protein deglycosylation|protein maturation	endoplasmic reticulum|intermediate filament cytoskeleton|lysosome|microtubule cytoskeleton	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0		all_lung(41;1.27e-09)|Lung NSC(41;1.1e-08)|Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Hepatocellular(41;0.148)|all_neural(102;0.164)|Colorectal(36;0.245)		all cancers(43;1.37e-22)|Epithelial(43;3.86e-20)|OV - Ovarian serous cystadenocarcinoma(60;3.8e-11)|Colorectal(24;6.98e-05)|GBM - Glioblastoma multiforme(59;0.000362)|COAD - Colon adenocarcinoma(29;0.000462)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0328)|READ - Rectum adenocarcinoma(43;0.163)		GTCTCCTACACGGCTTTGAGA	0.478													9	57					0	0	0.004482	0	0		T	178355641	T	T	178355641	3	4	60	1	0	0	0	0	1	0	0	0	365	536	19	1	351	1	AGA	4	178355641	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	1302812	178355641	12798635	43	41880											
ING2	3622	broad.mit.edu	37	chr4	184431507	184431507	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaaaccagaagaaacgtcTacagcagcttctccagagag	15	8	8	10	1	2	3	0	0	2	3	3	4	2	3	2	0	5	2	2	0	5	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr4:184431507T>C	uc003ivs.1	+	2	374	c.245T>C	c.(244-246)CTA>CCA	p.L82P	ING2_uc011ckk.1_Missense_Mutation_p.L42P	NM_001564	NP_001555	Q9H160	ING2_HUMAN	inhibitor of growth family, member 2	82	Potential.				chromatin modification|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of growth|signal transduction|transcription, DNA-dependent	CCAAT-binding factor complex|Sin3 complex	chromatin binding|DNA binding|protein complex binding|zinc ion binding			ovary(1)	1		all_lung(41;5.16e-14)|Lung NSC(41;1.33e-13)|Colorectal(36;0.00139)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|all_hematologic(60;0.0207)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.15e-26)|Epithelial(43;2.98e-22)|OV - Ovarian serous cystadenocarcinoma(60;7.64e-10)|GBM - Glioblastoma multiforme(59;4.22e-06)|Colorectal(24;5.87e-06)|STAD - Stomach adenocarcinoma(60;2.09e-05)|COAD - Colon adenocarcinoma(29;5.15e-05)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		AAGAAACGTCTACAGCAGCTT	0.333													8	119					0	0	0.00308	0	0		C	184431507	C	C	184431507	3	2	60	1	0	0	0	0	1	0	0	0	7752	1522	53	3	251	3	ING2	4	184431507	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	6075866	184431507	6722769	44	41881											
PLEKHG4B	153478	broad.mit.edu	37	chr5	156286	156286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggggggcaccgtcctggCgcggctgaggagagaagagc	8	3	21	9	3	0	3	0	1	0	2	1	6	1	5	2	7	1	2	2	7	1	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:156286C>T	uc003jak.2	+	8	1291	c.1241C>T	c.(1240-1242)GCG>GTG	p.A414V		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	414					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		ACCGTCCTGGCGCGGCTGAGG	0.617													7	36					0	0	0.001984	0	0		T	156286	T	T	156286	3	4	60	1	0	0	0	0	1	0	0	0	12091	768	27	1	1271	1	PLEKHG4B	5	156286	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08		156286	180758974	45	41882											
SLC9A3	6550	broad.mit.edu	37	chr5	483432	483432	+	Frame_Shift_Del	DEL	C	-	-																															aggagcacgaaggccgtgttCcaggtccagatgaacgggtt																										TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:483432delC	uc003jbe.2	-	6	1210	c.1098delG	c.(1096-1098)TGGfs	p.W366fs	SLC9A3_uc011clx.1_Frame_Shift_Del_p.W366fs	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	366	Cytoplasmic (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			AGGCCGTGTTCCAGGTCCAGA	0.647													2	4	---	---	---	---						.	-	483432	-	-	483432	7	5	60	1	0	1	0	1	0	0	0	0	14738	856	30	0	1454	0	SLC9A3	5	483432	Frame_Shift_Del	DEL	C	TCGA-BR-8080-01A-11D-2340-08	327146	483432	180431828	46	41883											
ADCY2	108	broad.mit.edu	37	chr5	7789859	7789859	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccgcgtgctgctggagaaCgtgcttcccgcgcacgtggc	6	7	14	14	6	0	1	0	0	0	1	1	2	1	1	2	2	5	4	2	2	2	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:7789859C>T	uc003jdz.1	+	20	2641	c.2574C>T	c.(2572-2574)AAC>AAT	p.N858N	ADCY2_uc011cmo.1_Silent_p.N678N|ADCY2_uc010itm.1_Silent_p.N54N	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	858	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding	p.N858N(1)		ovary(5)|pancreas(1)|skin(1)	7						TGCTGGAGAACGTGCTTCCCG	0.557													9	43					0	0	0.006214	0	0		T	7789859	T	T	7789859	2	4	60	1	0	0	0	0	0	0	0	1	294	535	19	1		1	ADCY2	5	7789859	Silent	SNP	C	TCGA-BR-8080-01A-11D-2340-08	7306427	7789859	173125401	47	41884											
ADCY2	108	broad.mit.edu	37	chr5	7820795	7820795	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaccggagtcctggacaAaatacaggtaatgcagagtg	14	6	12	9	1	0	1	0	0	0	1	1	3	1	3	2	3	3	3	2	3	4	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:7820795A>G	uc003jdz.1	+	24	3183	c.3116A>G	c.(3115-3117)AAA>AGA	p.K1039R	ADCY2_uc011cmo.1_Missense_Mutation_p.K859R|ADCY2_uc010itm.1_Missense_Mutation_p.K235R	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	1039	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						GTCCTGGACAAAATACAGGTA	0.443													6	49					0	0	0.001984	0	0		G	7820795	G	G	7820795	3	3	60	1	0	0	0	0	1	0	0	0	294	14	1	3	3210	3	ADCY2	5	7820795	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	30936	7820795	173094465	48	41885											
CTNND2	1501	broad.mit.edu	37	chr5	11022936	11022936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgatgccaccggcatcccGtaaggccttggcgttctcca	6	9	10	16	4	1	0	0	0	1	0	4	1	2	0	5	3	1	3	5	3	1	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:11022936G>A	uc003jfa.1	-	17	3089	c.2944C>T	c.(2944-2946)CGG>TGG	p.R982W	CTNND2_uc010itt.2_Missense_Mutation_p.R891W|CTNND2_uc011cmy.1_Missense_Mutation_p.R645W|CTNND2_uc011cmz.1_Missense_Mutation_p.R549W|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.R574W	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	982	ARM 9.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						CCGGCATCCCGTAAGGCCTTG	0.507													9	49					0	0	0.004482	0	0		A	11022936	A	A	11022936	3	1	60	1	0	0	0	0	1	0	0	0	4023	1144	40	1	757	1	CTNND2	5	11022936	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	3202141	11022936	169892324	49	41886											
JMY	133746	broad.mit.edu	37	chr5	78533384	78533384	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacacctgcggctggaagaTcctctcccaggtgctcttca	7	9	11	14	1	3	1	1	0	2	1	5	3	4	3	3	4	2	2	3	4	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:78533384T>A	uc003kfx.3	+	1	1431	c.911T>A	c.(910-912)ATC>AAC	p.I304N		NM_152405	NP_689618	Q8N9B5	JMY_HUMAN	junction-mediating and regulatory protein	304					'de novo' actin filament nucleation|actin polymerization-dependent cell motility|Arp2/3 complex-mediated actin nucleation|cell cycle arrest|DNA repair|induction of apoptosis|positive regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter	cell leading edge|cytoplasm|cytoskeleton|nucleus	actin binding|transcription coactivator activity				0		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;4.45e-45)|Epithelial(54;5.85e-40)|all cancers(79;2.89e-35)		GGCTGGAAGATCCTCTCCCAG	0.607													7	93					0	0	0.00308	0	0		A	78533384	A	A	78533384	3	1	60	1	0	0	0	0	1	0	0	0	7973	1435	50	5	913	5	JMY	5	78533384	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	67510448	78533384	102381876	50	41887											
VCAN	1462	broad.mit.edu	37	chr5	82836238	82836238	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaacatcctgaggtgccAagcgctaaagctgttactgc	13	8	10	10	1	0	1	0	1	0	0	1	2	1	1	2	1	6	3	2	1	6	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:82836238A>G	uc003kii.3	+	8	7772	c.7416A>G	c.(7414-7416)CCA>CCG	p.P2472P	VCAN_uc003kij.3_Silent_p.P1485P|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Silent_p.P1136P	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2472	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CTGAGGTGCCAAGCGCTAAAG	0.468													8	72					0	0	0.00308	0	0		G	82836238	G	G	82836238	2	3	60	1	0	0	0	0	0	0	0	1	17164	117	5	3		3	VCAN	5	82836238	Silent	SNP	A	TCGA-BR-8080-01A-11D-2340-08	4302854	82836238	98079022	51	41888											
HAPLN1	1404	broad.mit.edu	37	chr5	82937440	82937440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagagatggggtagcggaCgctgccatccgccaaccagc	9	5	13	14	3	0	1	0	0	0	1	1	3	1	2	5	3	4	2	5	3	3	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:82937440C>T	uc003kim.2	-	4	1011	c.940G>A	c.(940-942)GTC>ATC	p.V314I	HAPLN1_uc003kin.2_Missense_Mutation_p.V314I	NM_001884	NP_001875	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	314	Link 2.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)		GGGTAGCGGACGCTGCCATCC	0.537													8	127					0	0	0.00308	0	0		T	82937440	T	T	82937440	3	4	60	1	0	0	0	0	1	0	0	0	6970	536	19	1	128	1	HAPLN1	5	82937440	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	101202	82937440	97977820	52	41889											
SLCO4C1	353189	broad.mit.edu	37	chr5	101593707	101593707	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttctataaatttaggtaAaaatgtagcaaatccagtag	17	14	6	4	0	1	0	0	0	1	0	2	0	2	0	1	1	1	4	1	1	10	9			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:101593707A>C	uc003knm.2	-	7	1500	c.1213T>G	c.(1213-1215)TTA>GTA	p.L405V		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	405	Extracellular (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		AATTTAGGTAAAAATGTAGCA	0.294													5	59					0	0	0.014758	0	0		C	101593707	C	C	101593707	3	2	60	1	0	0	0	0	1	0	0	0	14755	11	1	5	989	5	SLCO4C1	5	101593707	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	18656267	101593707	79321553	53	41890											
CAMK4	814	broad.mit.edu	37	chr5	110712565	110712565	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatctttccctagataaaacTtaaagagatatttgaaaccc	16	13	4	8	0	1	3	0	1	1	2	2	4	2	3	2	0	2	0	2	0	8	7			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:110712565T>G	uc011cvj.1	+	5	410	c.311T>G	c.(310-312)CTT>CGT	p.L104R	CAMK4_uc003kpf.2_Missense_Mutation_p.L104R|CAMK4_uc010jbv.2_Intron	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	104	Protein kinase.				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		TAGATAAAACTTAAAGAGATA	0.343													14	82					0	0	0.00499	0	0		G	110712565	G	G	110712565	3	3	60	1	0	0	0	0	1	0	0	0	2608	1609	56	5	325	5	CAMK4	5	110712565	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	9118858	110712565	70202695	54	41891											
MATR3	9782	broad.mit.edu	37	chr5	138658622	138658622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtgaaaaaagatggaaGtgcttcagcagcagcaaaga	17	6	12	6	0	1	3	1	1	0	2	1	4	1	4	0	1	5	5	0	1	5	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:138658622G>A	uc003ldu.2	+	15	2541	c.2114G>A	c.(2113-2115)AGT>AAT	p.S705N	MATR3_uc010jfb.2_Missense_Mutation_p.S705N|MATR3_uc003ldt.2_Missense_Mutation_p.S367N|MATR3_uc003ldw.2_Missense_Mutation_p.S705N|MATR3_uc003ldx.2_Missense_Mutation_p.S705N|MATR3_uc010jfc.2_Missense_Mutation_p.S705N|MATR3_uc003ldy.2_Missense_Mutation_p.S382N|MATR3_uc011czb.1_Missense_Mutation_p.S417N|MATR3_uc003ldz.2_Missense_Mutation_p.S705N|MATR3_uc003lea.2_Missense_Mutation_p.S705N|MATR3_uc003leb.2_Missense_Mutation_p.S367N|MATR3_uc003lec.2_Missense_Mutation_p.S382N	NM_199189	NP_954659	P43243	MATR3_HUMAN	matrin 3	705						nuclear inner membrane|nuclear matrix	nucleotide binding|protein binding|RNA binding|structural molecule activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AAAGATGGAAGTGCTTCAGCA	0.363													6	51					0	0	0.001168	0	0		A	138658622	A	A	138658622	3	1	60	1	0	0	0	0	1	0	0	0	9355	1029	36	4	2156	4	MATR3	5	138658622	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	27946057	138658622	42256638	55	41892											
PCDHA13	56136	broad.mit.edu	37	chr5	140263637	140263637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtggtggcgaaggtgcGcgcggtggacgccgattcgg	5	6	19	11	8	0	0	0	0	0	0	1	3	0	1	2	6	1	0	2	6	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:140263637G>A	uc003lif.2	+	1	1784	c.1784G>A	c.(1783-1785)CGC>CAC	p.R595H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.R595H|PCDHA13_uc003lid.2_Missense_Mutation_p.R595H	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	595	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGAAGGTGCGCGCGGTGGAC	0.706													14	95					0	0	0.020292	0	0		A	140263637	A	A	140263637	3	1	60	1	0	0	0	0	1	0	0	0	11542	1087	38	1	1786	1	PCDHA13	5	140263637	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	1605015	140263637	40651623	56	41893											
PCDHB3	56132	broad.mit.edu	37	chr5	140480968	140480968	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaccagaatttgcacagccGctctatgaggttgcagttct	9	11	10	11	1	2	2	0	1	2	1	2	2	2	2	2	1	3	6	2	1	2	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:140480968G>T	uc003lio.2	+	1	735	c.735G>T	c.(733-735)CCG>CCT	p.P245P	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	245	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTGCACAGCCGCTCTATGAGG	0.498													8	76					0.000442599	0.000462516	0.006214	1	0		T	140480968	T	T	140480968	2	4	60	1	0	0	0	0	0	0	0	1	11562	1074	38	5		5	PCDHB3	5	140480968	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08	217331	140480968	40434292	57	41894											
PCDHB11	56125	broad.mit.edu	37	chr5	140579789	140579789	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatcccagagaacagtcccGttggtgctgtgttcttacta	10	12	9	10	1	1	1	0	0	1	1	3	2	3	1	2	1	3	3	2	1	4	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:140579789G>A	uc003liy.2	+	1	442	c.442G>A	c.(442-444)GTT>ATT	p.V148I	PCDHB11_uc011daj.1_Intron	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	148	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAACAGTCCCGTTGGTGCTGT	0.398													20	132					0	0	0.010504	0	0		A	140579789	A	A	140579789	3	1	60	1	0	0	0	0	1	0	0	0	11555	1145	40	1	444	1	PCDHB11	5	140579789	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	98821	140579789	40335471	58	41895											
JAKMIP2	9832	broad.mit.edu	37	chr5	147016608	147016608	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcttggagctgttcttGagcctggtgaaaccaaaatt	9	13	10	9	0	2	2	0	2	2	0	2	3	2	3	2	2	4	3	2	2	3	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:147016608G>T	uc003loq.1	-	11	1916	c.1534C>A	c.(1534-1536)CAA>AAA	p.Q512K	JAKMIP2_uc011dbx.1_Missense_Mutation_p.Q470K|JAKMIP2_uc003lor.1_Missense_Mutation_p.Q512K|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.Q512K	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	512	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCTGTTCTTGAGCCTGGTGA	0.433													10	105					4.68919e-08	5.21298e-08	0.008291	1	0		T	147016608	T	T	147016608	3	4	60	1	0	0	0	0	1	0	0	0	7957	1299	45	5	942	5	JAKMIP2	5	147016608	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	6436819	147016608	33898652	59	41896											
RANBP17	64901	broad.mit.edu	37	chr5	170722912	170722912	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcagtgaactgagagcaAgtttgataaacagccagccc	14	9	9	9	0	1	3	1	3	0	1	1	4	1	3	2	0	5	2	2	0	4	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr5:170722912A>C	uc003mba.2	+	27	3080	c.3064A>C	c.(3064-3066)AGT>CGT	p.S1022R	RANBP17_uc003mbb.2_Missense_Mutation_p.S347R|RANBP17_uc010jjs.2_RNA	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	1022					mRNA transport|protein import into nucleus|transmembrane transport	cytoplasm|nuclear pore	GTP binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00751)|all_lung(126;0.0123)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			ACTGAGAGCAAGTTTGATAAA	0.532			T	TRD@	ALL								5	59					0	0	0.001168	0	0		C	170722912	C	C	170722912	3	2	60	1	0	0	0	0	1	0	0	0	13052	72	3	5	3170	5	RANBP17	5	170722912	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	23706304	170722912	10192348	60	41897											
BTN1A1	696	broad.mit.edu	37	chr6	26508948	26508948	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcaatcggcgtgtgtaGggagaatgtgatgaagaaag	12	8	17	4	2	0	4	0	2	0	2	1	5	0	4	0	3	0	2	0	3	5	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr6:26508948G>T	uc003nif.3	+	7	1147	c.1127G>T	c.(1126-1128)AGG>ATG	p.R376M		NM_001732	NP_001723	Q13410	BT1A1_HUMAN	butyrophilin, subfamily 1, member A1 precursor	376	B30.2/SPRY.|Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2						GGCGTGTGTAGGGAGAATGTG	0.552													13	117					1.5842e-08	1.77058e-08	0.016723	1	0		T	26508948	T	T	26508948	3	4	60	1	0	0	0	0	1	0	0	0	1562	1000	35	5	1153	5	BTN1A1	6	26508948	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08		26508948	144606119	61	41898											
RARS2	57038	broad.mit.edu	37	chr6	88224725	88224725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagtgttttgtgtgccaCagctgcaagatgactgaaac	10	13	11	7	0	0	3	0	2	0	1	0	3	0	3	1	0	4	4	1	0	3	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr6:88224725C>T	uc003pme.2	-	19	1660	c.1600G>A	c.(1600-1602)GTG>ATG	p.V534M	RARS2_uc003pmb.2_Missense_Mutation_p.V359M|RARS2_uc003pmc.2_Missense_Mutation_p.V359M|RARS2_uc003pmd.2_Missense_Mutation_p.V146M|RARS2_uc003pmf.2_RNA	NM_020320	NP_064716	Q5T160	SYRM_HUMAN	arginyl-tRNA synthetase 2, mitochondrial	534					arginyl-tRNA aminoacylation	mitochondrial matrix	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|central_nervous_system(1)	3		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0456)		TTGTGTGCCACAGCTGCAAGA	0.393													6	59					0	0	0.001168	0	0		T	88224725	T	T	88224725	3	4	60	1	0	0	0	0	1	0	0	0	13084	478	17	4	144	4	RARS2	6	88224725	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	61715777	88224725	82890342	62	41899											
BEND3	57673	broad.mit.edu	37	chr6	107390253	107390253	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggtagggagaaggcacCgggaagtcaggcgaggggac	12	2	20	7	2	1	1	1	0	0	1	1	5	1	3	1	7	1	3	1	7	3	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr6:107390253C>T	uc003prs.2	-	5	2792	c.2142G>A	c.(2140-2142)CCG>CCA	p.P714P		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	714										ovary(3)	3						GAGAAGGCACCGGGAAGTCAG	0.647													5	61					0	0	0.014758	0	0		T	107390253	T	T	107390253	2	4	60	1	0	0	0	0	0	0	0	1	1400	639	23	1		1	BEND3	6	107390253	Silent	SNP	C	TCGA-BR-8080-01A-11D-2340-08	19165528	107390253	63724814	63	41900											
PLG	5340	broad.mit.edu	37	chr6	161143543	161143543	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggaaagaagtgtcagtcTtggtcatctatgacaccaca	14	9	9	9	0	4	2	2	1	2	1	4	3	4	3	1	2	0	0	1	2	3	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr6:161143543T>C	uc003qtm.3	+	10	1263	c.1200T>C	c.(1198-1200)TCT>TCC	p.S400S		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	400	Kringle 4.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	AGTGTCAGTCTTGGTCATCTA	0.517													16	98					0	0	0.006122	0	0		C	161143543	C	C	161143543	2	2	60	1	0	0	0	0	0	0	0	1	12105	1596	56	3		3	PLG	6	161143543	Silent	SNP	T	TCGA-BR-8080-01A-11D-2340-08	53753290	161143543	9971524	64	41901											
FOXK1	221937	broad.mit.edu	37	chr7	4800738	4800738	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtttgccacaatccccgcGgctggtggagtcatccagac	7	8	12	14	3	1	1	1	0	0	1	3	2	3	2	4	3	1	2	4	3	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr7:4800738G>A	uc003snc.1	+	8	1750	c.1740G>A	c.(1738-1740)GCG>GCA	p.A580A	FOXK1_uc003sna.1_Silent_p.A417A	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	forkhead box K1	580					cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		CAATCCCCGCGGCTGGTGGAG	0.652													9	83					0	0	0.004482	0	0		A	4800738	A	A	4800738	2	1	60	1	0	0	0	0	0	0	0	1	6028	1103	39	1		1	FOXK1	7	4800738	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08		4800738	154337925	65	41902											
RNF216	54476	broad.mit.edu	37	chr7	5780920	5780920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacctggtttgttatttcaCggggctgttggttcagagac	6	14	13	8	2	2	1	2	0	0	1	2	3	2	1	1	4	0	5	1	4	1	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr7:5780920C>T	uc003soy.1	-	4	747	c.557G>A	c.(556-558)CGT>CAT	p.R186H	RNF216_uc010ksz.1_Translation_Start_Site|RNF216_uc010kta.1_Intron|RNF216_uc011jwj.1_Intron|RNF216_uc003sox.1_Missense_Mutation_p.R243H	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	186					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		TGTTATTTCACGGGGCTGTTG	0.512													6	105					0	0	0.001168	0	0		T	5780920	T	T	5780920	3	4	60	1	0	0	0	0	1	0	0	0	13505	536	19	1	2099	1	RNF216	7	5780920	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	980182	5780920	153357743	66	41903											
EIF2AK1	27102	broad.mit.edu	37	chr7	6082613	6082613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagatggcaactcaatggCagctctgtctgctgaatgaa	12	9	11	9	0	3	3	1	2	2	1	3	4	3	3	0	2	3	4	0	2	4	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr7:6082613C>T	uc003spp.2	-	8	888	c.742G>A	c.(742-744)GCC>ACC	p.A248T	EIF2AK1_uc003spq.2_Missense_Mutation_p.A247T|EIF2AK1_uc011jwm.1_Missense_Mutation_p.A124T|EIF2AK1_uc003spr.1_Missense_Mutation_p.A40T	NM_014413	NP_055228	Q9BQI3	E2AK1_HUMAN	eukaryotic translation initiation factor 2-alpha	248	Protein kinase.				negative regulation of hemoglobin biosynthetic process|negative regulation of translational initiation by iron|protein autophosphorylation|response to external stimulus|response to stress	cytoplasm	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|heme binding|protein homodimerization activity			upper_aerodigestive_tract(1)|stomach(1)|lung(1)|central_nervous_system(1)	4		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.106)|OV - Ovarian serous cystadenocarcinoma(56;5.22e-14)		AACTCAATGGCAGCTCTGTCT	0.408													5	34					0	0	0.014758	0	0		T	6082613	T	T	6082613	3	4	60	1	0	0	0	0	1	0	0	0	5002	710	25	2	1182	2	EIF2AK1	7	6082613	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	301693	6082613	153056050	67	41904											
ZNF12	7559	broad.mit.edu	37	chr7	6731622	6731622	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttctcccctgtgtgtgtTctctgatgcacagtaagggt	5	14	12	10	0	2	1	0	1	2	0	4	1	2	1	2	2	1	4	2	2	1	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr7:6731622T>G	uc003sqt.1	-	5	1505	c.951A>C	c.(949-951)AGA>AGC	p.R317S	ZNF12_uc011jxa.1_Missense_Mutation_p.R155S|ZNF12_uc003sqs.1_Missense_Mutation_p.R279S	NM_016265	NP_057349	P17014	ZNF12_HUMAN	zinc finger protein 12 isoform a	317	C2H2-type 2.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0231)		CTGTGTGTGTTCTCTGATGCA	0.438													9	57					0	0	0.006214	0	0		G	6731622	G	G	6731622	3	3	60	1	0	0	0	0	1	0	0	0	17743	1780	62	5	1146	5	ZNF12	7	6731622	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	649009	6731622	152407041	68	41905											
ZPBP	11055	broad.mit.edu	37	chr7	50057879	50057879	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagttatggtctgtacatCgcttgggtcctttttcagtg	6	16	10	9	1	2	0	1	0	1	0	4	0	3	0	1	2	1	3	1	2	2	5	rs147255783		TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr7:50057879C>A	uc003tou.2	-	6	810	c.740G>T	c.(739-741)CGA>CTA	p.R247L	ZPBP_uc011kci.1_Missense_Mutation_p.R173L|ZPBP_uc010kyw.2_Missense_Mutation_p.R246L	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	247					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					GTCTGTACATCGCTTGGGTCC	0.313													6	49					2.0095e-06	2.17609e-06	0.001984	1	0		A	50057879	A	A	50057879	3	1	60	1	0	0	0	0	1	0	0	0	18244	884	31	5	327	5	ZPBP	7	50057879	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	43326257	50057879	109080784	69	41906											
AKAP9	10142	broad.mit.edu	37	chr7	91570197	91570198	+	Translation_Start_Site	INS	-	GGC	GGC																															gtttacgtggagacgaagatINSggcggcggcggcggcggtga																										TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr7:91570197_91570198insGGC	uc003ulg.2	+	1	9_10	c.-216_-215insGGC	c.(-218--213)GATGGC>GATGGCGGC		AKAP9_uc003uld.3_Translation_Start_Site|AKAP9_uc003ule.2_Translation_Start_Site|AKAP9_uc003ulf.2_Translation_Start_Site	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2						G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GAGACGAAGATggcggcggcgg	0.629			T	BRAF	papillary thyroid								4	6	---	---	---	---						.	GGC	91570198	GGC	GGC	91570197	6	5	60	1	0	1	1	0	0	0	0	0	459	1479	51	0		0	AKAP9	7	91570197	Translation_Start_Site	INS	-	TCGA-BR-8080-01A-11D-2340-08	41512318	91570197	67568466	70	41907											
NPTX2	4885	broad.mit.edu	37	chr7	98257796	98257796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatgggaccgcgtccttcGcgcacaagaaattgtcaaca	12	8	9	12	4	1	1	1	0	0	1	3	2	2	2	2	1	1	1	2	1	4	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr7:98257796G>A	uc003upl.2	+	5	1328	c.1151G>A	c.(1150-1152)CGC>CAC	p.R384H		NM_002523	NP_002514	P47972	NPTX2_HUMAN	neuronal pentraxin II precursor	384	Pentaxin.				synaptic transmission	extracellular region	metal ion binding|sugar binding			central_nervous_system(2)|skin(1)	3	all_cancers(62;2.28e-09)|all_epithelial(64;4.86e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0128)|all_lung(186;0.0142)		STAD - Stomach adenocarcinoma(171;0.215)			CGCGTCCTTCGCGCACAAGAA	0.567													3	12					0	0	0.004672	0	0		A	98257796	A	A	98257796	3	1	60	1	0	0	0	0	1	0	0	0	10622	1087	38	1	1169	1	NPTX2	7	98257796	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	6687599	98257796	60880867	71	41908											
AGK	55750	broad.mit.edu	37	chr7	141336807	141336807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagcagcccactttttcaGcactcttaaggtaaatgtga	13	11	7	10	0	2	1	1	1	1	0	2	1	2	1	1	1	3	3	1	1	4	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr7:141336807G>A	uc003vwi.2	+	11	887	c.716G>A	c.(715-717)AGC>AAC	p.S239N	AGK_uc011krg.1_RNA	NM_018238	NP_060708	Q53H12	AGK_HUMAN	acylglycerol kinase precursor	239					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway	mitochondrial membrane	acylglycerol kinase activity|ATP binding|diacylglycerol kinase activity|NAD+ kinase activity			ovary(1)|breast(1)	2	Melanoma(164;0.0171)					CACTTTTTCAGCACTCTTAAG	0.318													6	22					0	0	0.001168	0	0		A	141336807	A	A	141336807	3	1	60	1	0	0	0	0	1	0	0	0	383	971	34	2	754	2	AGK	7	141336807	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	43079011	141336807	17801856	72	41909											
CSMD1	64478	broad.mit.edu	37	chr8	2832041	2832041	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcgtgtcgttgcctatgAggctctcgctccctctgcag	3	13	10	15	3	3	1	0	1	3	0	7	1	4	1	2	1	2	4	2	1	1	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr8:2832041A>T	uc011kwk.1	-	56	9065	c.8675T>A	c.(8674-8676)CTC>CAC	p.L2892H	CSMD1_uc011kwj.1_Missense_Mutation_p.L2221H|CSMD1_uc010lrg.2_Missense_Mutation_p.L902H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2892	Sushi 21.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GTTGCCTATGAGGCTCTCGCT	0.602													4	15					0	0	0.009096	0	0		T	2832041	T	T	2832041	3	4	60	1	0	0	0	0	1	0	0	0	3947	304	11	5	2082	5	CSMD1	8	2832041	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08		2832041	143531981	73	41910											
PREX2	80243	broad.mit.edu	37	chr8	68995528	68995528	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctattaatggtgacctagtTtttatgagacctttcaatga	11	16	8	6	0	1	3	1	3	0	1	1	4	1	3	2	1	0	2	2	1	5	7			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr8:68995528T>A	uc003xxv.1	+	18	1959	c.1932T>A	c.(1930-1932)GTT>GTA	p.V644V	PREX2_uc003xxu.1_Silent_p.V644V|PREX2_uc011lez.1_Silent_p.V579V	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	644	PDZ 1.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GTGACCTAGTTTTTATGAGAC	0.348													6	81					0	0	0.001168	0	0		A	68995528	A	A	68995528	2	1	60	1	0	0	0	0	0	0	0	1	12499	1828	64	5		5	PREX2	8	68995528	Silent	SNP	T	TCGA-BR-8080-01A-11D-2340-08	66163487	68995528	77368494	74	41911											
C8orf34	116328	broad.mit.edu	37	chr8	69445301	69445301	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgcaatgctctctcaagAttcttttgagtccatccaca	9	12	7	13	1	3	2	1	1	2	1	6	2	5	2	3	1	1	2	3	1	2	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr8:69445301A>G	uc010lyz.2	+	7	813	c.764A>G	c.(763-765)GAT>GGT	p.D255G	C8orf34_uc010lyy.1_Missense_Mutation_p.D255G|C8orf34_uc003xyb.2_Missense_Mutation_p.D230G	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	255					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			CTCTCTCAAGATTCTTTTGAG	0.368													8	116					0	0	0.00308	0	0		G	69445301	G	G	69445301	3	3	60	1	0	0	0	0	1	0	0	0	2425	333	12	3	711	3	C8orf34	8	69445301	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	449773	69445301	76918721	75	41912											
CRISPLD1	83690	broad.mit.edu	37	chr8	75937820	75937820	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtatgcaagcaaatccacaTtatgctcgtgtaattggaac	13	12	8	8	1	0	0	0	0	0	0	2	1	1	1	1	1	4	5	1	1	6	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr8:75937820T>A	uc003yan.2	+	13	1659	c.1284T>A	c.(1282-1284)CAT>CAA	p.H428Q	CRISPLD1_uc011lfk.1_Missense_Mutation_p.H240Q|CRISPLD1_uc011lfl.1_Missense_Mutation_p.H240Q	NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	428	LCCL 2.					extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			CAAATCCACATTATGCTCGTG	0.254													5	73					0	0	0.001168	0	0		A	75937820	A	A	75937820	3	1	60	1	0	0	0	0	1	0	0	0	3885	1490	52	5	1330	5	CRISPLD1	8	75937820	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	6492519	75937820	70426202	76	41913											
RGS22	26166	broad.mit.edu	37	chr8	100999827	100999827	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgattttacaagatgaagaGatccacttactctccacagg	14	11	7	9	0	1	4	0	2	1	2	3	5	2	4	2	1	2	0	2	1	4	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr8:100999827G>T	uc003yjb.1	-	21	3234	c.3039C>A	c.(3037-3039)ATC>ATA	p.I1013I	RGS22_uc003yja.1_Silent_p.I832I|RGS22_uc003yjc.1_Silent_p.I1001I	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	1013					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			AAGATGAAGAGATCCACTTAC	0.353													4	43					1.23904e-05	1.31451e-05	0.014758	1	0		T	100999827	T	T	100999827	2	4	60	1	0	0	0	0	0	0	0	1	13330	932	33	5		5	RGS22	8	100999827	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08	25062007	100999827	45364195	77	41914											
DCAF13	25879	broad.mit.edu	37	chr8	104427572	104427572	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctccgcgagtcacgtgacTggaagtagtctgggaaaagc	10	7	14	10	4	2	1	1	1	1	0	3	4	3	3	1	2	1	2	1	2	4	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr8:104427572T>C	uc003yln.2	+	1	631	c.354T>C	c.(352-354)ACT>ACC	p.T118T	SLC25A32_uc003yll.2_5'Flank|SLC25A32_uc011lhr.1_5'Flank|DCAF13_uc003ylm.1_5'UTR|DCAF13_uc003ylo.2_5'UTR	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	Error:Variant_position_missing_in_Q9NV06_after_alignment					rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						GTCACGTGACTGGAAGTAGTC	0.637													11	45					0	0	0.020292	0	0		C	104427572	C	C	104427572	2	2	60	1	0	0	0	0	0	0	0	1	4269	1567	55	3		3	DCAF13	8	104427572	Silent	SNP	T	TCGA-BR-8080-01A-11D-2340-08	3427745	104427572	41936450	78	41915											
CSMD3	114788	broad.mit.edu	37	chr8	113421186	113421186	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaagataacagagaagatTgctgagttggcccatcatac	14	8	12	7	0	1	4	1	1	0	3	1	6	1	5	1	2	3	2	1	2	4	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr8:113421186T>C	uc003ynu.2	-	33	5630	c.5471A>G	c.(5470-5472)CAA>CGA	p.Q1824R	CSMD3_uc003yns.2_Intron|CSMD3_uc003ynt.2_Missense_Mutation_p.Q1784R|CSMD3_uc011lhx.1_Missense_Mutation_p.Q1720R	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1824	Extracellular (Potential).|CUB 10.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CAGAGAAGATTGCTGAGTTGG	0.428										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			10	145					0	0	0.006214	0	0		C	113421186	C	C	113421186	3	2	60	1	0	0	0	0	1	0	0	0	3949	1812	63	3	5808	3	CSMD3	8	113421186	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	8993614	113421186	32942836	79	41916											
CSMD3	114788	broad.mit.edu	37	chr8	113599416	113599416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catagttgagtggataatttGgagacagcaaaattccttca	14	12	9	6	0	1	2	1	1	0	1	2	4	2	3	1	2	1	2	1	2	4	6			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr8:113599416G>A	uc003ynu.2	-	23	3923	c.3764C>T	c.(3763-3765)CCA>CTA	p.P1255L	CSMD3_uc003yns.2_Missense_Mutation_p.P527L|CSMD3_uc003ynt.2_Missense_Mutation_p.P1215L|CSMD3_uc011lhx.1_Missense_Mutation_p.P1151L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1255	Extracellular (Potential).|CUB 7.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TGGATAATTTGGAGACAGCAA	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			7	127					0	0	0.00308	0	0		A	113599416	A	A	113599416	3	1	60	1	0	0	0	0	1	0	0	0	3949	1348	47	4	7555	4	CSMD3	8	113599416	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	178230	113599416	32764606	80	41917											
TLE4	7091	broad.mit.edu	37	chr9	82323081	82323081	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccaatacccctactccaCgaactgatgcgcccacccca	11	6	5	19	2	0	1	0	1	0	0	2	2	2	1	7	0	4	0	7	0	4	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr9:82323081C>A	uc004ald.2	+	13	1909	c.1060C>A	c.(1060-1062)CGA>AGA	p.R354R	TLE4_uc004alc.2_Silent_p.R329R|TLE4_uc010mpr.2_Silent_p.R208R|TLE4_uc004ale.2_5'UTR|TLE4_uc011lsq.1_Silent_p.R297R|TLE4_uc010mps.2_Silent_p.R253R|TLE4_uc004alf.2_Silent_p.R268R	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						CCCTACTCCACGAACTGATGC	0.443													7	74					0.00307968	0.00315516	0.00308	1	0		A	82323081	A	A	82323081	2	1	60	1	0	0	0	0	0	0	0	1	15966	528	19	5		5	TLE4	9	82323081	Silent	SNP	C	TCGA-BR-8080-01A-11D-2340-08		82323081	58890350	81	41918											
OR13F1	138805	broad.mit.edu	37	chr9	107267259	107267259	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcgaagtaaagccttttCaacgtgcacagcccacctga	12	8	9	12	2	1	1	1	1	0	0	2	2	1	1	3	1	4	2	3	1	4	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr9:107267259C>A	uc011lvm.1	+	1	716	c.716C>A	c.(715-717)TCA>TAA	p.S239*		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	239	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						AAAGCCTTTTCAACGTGCACA	0.478													13	111					0.000219431	0.000230458	0.020292	1	0		A	107267259	A	A	107267259	4	1	60	1	0	0	0	0	0	1	0	0	10960	838	29	5	718	5	OR13F1	9	107267259	Nonsense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	24944178	107267259	33946172	82	41919											
DBH	1621	broad.mit.edu	37	chr9	136507403	136507403	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggccatcaacggctcgggCctgcagatggggctgcagag	8	5	17	11	2	1	2	1	0	0	2	2	3	1	2	2	5	3	4	2	5	1	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr9:136507403C>T	uc004cel.2	+	3	570	c.561C>T	c.(559-561)GGC>GGT	p.G187G		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	187	Intragranular (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	ACGGCTCGGGCCTGCAGATGG	0.632													5	28					0	0	0.014758	0	0		T	136507403	T	T	136507403	2	4	60	1	0	0	0	0	0	0	0	1	4253	726	26	2		2	DBH	9	136507403	Silent	SNP	C	TCGA-BR-8080-01A-11D-2340-08	29240144	136507403	4706028	83	41920											
KIAA0649	9858	broad.mit.edu	37	chr9	138378506	138378506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgcagggagcccagggctgCgtgcaggaagaaggtcaggt	9	5	19	8	1	1	1	1	0	0	1	1	3	1	3	1	5	4	3	1	5	2	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr9:138378506C>T	uc004cfr.1	+	4	2699	c.2150C>T	c.(2149-2151)GCG>GTG	p.A717V		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	717						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		CCCAGGGCTGCGTGCAGGAAG	0.612													3	20					0	0	0.004672	0	0		T	138378506	T	T	138378506	3	4	60	1	0	0	0	0	1	0	0	0	8203	768	27	1	2152	1	KIAA0649	9	138378506	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	1871103	138378506	2834925	84	41921											
ABCA2	20	broad.mit.edu	37	chr9	139911417	139911417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgaggatgccatagaccaCggcgtccaccatcagcatgg	10	6	12	13	3	1	2	1	1	0	1	2	3	2	3	4	3	2	1	4	3	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr9:139911417C>T	uc011mem.1	-	18	2858	c.2710G>A	c.(2710-2712)GTG>ATG	p.V904M	ABCA2_uc011mel.1_Missense_Mutation_p.V905M|ABCA2_uc004ckl.1_Missense_Mutation_p.V835M|ABCA2_uc004ckm.1_Missense_Mutation_p.V935M|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	904	Helical; (Potential).				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CCATAGACCACGGCGTCCACC	0.652													6	66					0	0	0.001168	0	0		T	139911417	T	T	139911417	3	4	60	1	0	0	0	0	1	0	0	0	32	536	19	1	4721	1	ABCA2	9	139911417	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	1532911	139911417	1302014	85	41922											
CUBN	8029	broad.mit.edu	37	chr10	16918918	16918918	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attatcctataggaaaacttGaatccgaagtctgtgatttg	13	14	8	6	1	1	2	0	2	1	0	3	4	3	3	2	1	1	0	2	1	7	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr10:16918918G>C	uc001ioo.2	-	57	9136	c.9084C>G	c.(9082-9084)TTC>TTG	p.F3028L	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Missense_Mutation_p.F384L	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3028	CUB 22.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AGGAAAACTTGAATCCGAAGT	0.433													11	68					0	0	0.010729	0	0		C	16918918	C	C	16918918	3	2	60	1	0	0	0	0	1	0	0	0	4054	1281	45	5	1831	5	CUBN	10	16918918	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08		16918918	118615829	86	41923											
MYO3A	53904	broad.mit.edu	37	chr10	26463375	26463375	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaacactcataatttgtaTtcctatcccacaaaacatga	17	11	3	10	0	1	2	1	1	0	1	3	2	3	2	2	0	2	1	2	0	6	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr10:26463375T>A	uc001isn.2	+	30	4542	c.4182T>A	c.(4180-4182)TAT>TAA	p.Y1394*	MYO3A_uc009xkp.1_Intron|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1394					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						ATAATTTGTATTCCTATCCCA	0.383													11	114					0	0	0.010729	0	0		A	26463375	A	A	26463375	4	1	60	1	0	0	0	0	0	1	0	0	10094	1500	52	5	4292	5	MYO3A	10	26463375	Nonsense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	9544457	26463375	109071372	87	41924											
SORBS1	10580	broad.mit.edu	37	chr10	97141493	97141493	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggctgatattcgtaaatGctcttgggctctgcacgata	9	12	10	10	2	2	1	0	1	2	0	3	2	2	1	1	2	2	5	1	2	4	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr10:97141493G>A	uc001kkp.2	-	16	1647	c.1602C>T	c.(1600-1602)AGC>AGT	p.S534S	SORBS1_uc001kkk.2_Silent_p.S112S|SORBS1_uc001kkl.2_Silent_p.S136S|SORBS1_uc001kkn.2_Silent_p.S321S|SORBS1_uc001kkm.2_Silent_p.S390S|SORBS1_uc001kko.2_Silent_p.S556S|SORBS1_uc001kkq.2_Silent_p.S419S|SORBS1_uc001kkr.2_Silent_p.S324S|SORBS1_uc001kks.2_Silent_p.S324S|SORBS1_uc001kkt.2_RNA|SORBS1_uc001kku.2_Silent_p.S365S|SORBS1_uc001kkv.2_Silent_p.S456S|SORBS1_uc001kkw.2_Silent_p.S488S|SORBS1_uc010qoe.1_Silent_p.S333S|SORBS1_uc010qof.1_Silent_p.S686S	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	534					focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		ATTCGTAAATGCTCTTGGGCT	0.393													12	71					0	0	0.020292	0	0		A	97141493	A	A	97141493	2	1	60	1	0	0	0	0	0	0	0	1	14952	1310	46	2		2	SORBS1	10	97141493	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08	70678118	97141493	38393254	88	41925											
CPN1	1369	broad.mit.edu	37	chr10	101824989	101824989	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggggtgctggcggtgcGgcggacccctcggacccggt	2	6	20	13	6	0	0	0	0	0	0	1	2	0	2	3	8	2	1	3	8	0	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr10:101824989G>A	uc001kql.2	-	4	975	c.715C>T	c.(715-717)CGC>TGC	p.R239C		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	239	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		CTGGCGGTGCGGCGGACCCCT	0.607													7	83					0	0	0.001984	0	0		A	101824989	A	A	101824989	3	1	60	1	0	0	0	0	1	0	0	0	3812	1116	39	1	685	1	CPN1	10	101824989	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	4683496	101824989	33709758	89	41926											
OR51D1	390038	broad.mit.edu	37	chr11	4661157	4661157	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggctttcccactgtgttTtatgtatgccttggccaccc	4	15	9	13	0	0	0	0	0	0	0	1	0	1	0	4	2	1	4	4	2	2	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:4661157T>G	uc010qyk.1	+	1	137	c.137T>G	c.(136-138)TTT>TGT	p.F46C		NM_001004751	NP_001004751	Q8NGF3	O51D1_HUMAN	olfactory receptor, family 51, subfamily D,	46	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;2.74e-13)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|GBM - Glioblastoma multiforme(2;0.0841)|LUSC - Lung squamous cell carcinoma(625;0.19)		CCACTGTGTTTTATGTATGCC	0.522													6	76					0	0	0.001168	0	0		G	4661157	G	G	4661157	3	3	60	1	0	0	0	0	1	0	0	0	11112	1841	64	5	139	5	OR51D1	11	4661157	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08		4661157	130345359	90	41927											
TRIM6-TRIM34	445372	broad.mit.edu	37	chr11	5624861	5624861	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggagaaaaactgcagctcTtctgtcaggaggatgggaag	13	8	14	6	0	3	1	1	0	2	1	3	5	3	4	0	4	3	2	0	4	3	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:5624861T>C	uc001mbf.2	+	2	647	c.403T>C	c.(403-405)TTC>CTC	p.F135L	HBG2_uc001mak.1_Intron|TRIM6_uc009yeo.1_Intron|TRIM6_uc010qzj.1_5'UTR|TRIM6_uc001mbc.1_Missense_Mutation_p.F107L|TRIM6_uc001mbe.2_5'UTR|TRIM6_uc010qzk.1_Intron|TRIM6_uc010qzl.1_Intron|TRIM6_uc001mbd.2_Missense_Mutation_p.F135L|TRIM6_uc001mbg.1_5'Flank|TRIM6_uc009yep.1_5'Flank	NM_001003819	NP_001003819	B2RNG4	B2RNG4_HUMAN	tripartite motif-containing 6 and tripartite	135						intracellular	zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;1.01e-08)|BRCA - Breast invasive adenocarcinoma(625;0.145)		ACTGCAGCTCTTCTGTCAGGA	0.557													5	52					0	0	0.001168	0	0		C	5624861	C	C	5624861	3	2	60	1	0	0	0	0	1	0	0	0	16560	1609	56	3	409	3	TRIM6-TRIM34	11	5624861	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	963704	5624861	129381655	91	41928											
OR52N1	79473	broad.mit.edu	37	chr11	5809592	5809592	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacaagcatcacacccctaAgaaaagtgaggaacccagct	17	5	7	12	0	1	2	1	1	0	1	1	3	1	3	3	1	4	2	3	1	6	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:5809592A>G	uc010qzo.1	-	1	455	c.455T>C	c.(454-456)CTT>CCT	p.L152P	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001913	NP_001001913	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.05e-11)|LUSC - Lung squamous cell carcinoma(625;0.112)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.195)		CACACCCCTAAGAAAAGTGAG	0.517													4	46					0	0	0.009096	0	0		G	5809592	G	G	5809592	3	3	60	1	0	0	0	0	1	0	0	0	11146	72	3	3	510	3	OR52N1	11	5809592	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	184731	5809592	129196924	92	41929											
OR2AG2	338755	broad.mit.edu	37	chr11	6789842	6789842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctgtcataggccatgaagGccagtaggaggtcctcagcg	10	7	13	11	1	2	1	2	1	0	0	3	2	3	2	4	4	1	1	4	4	3	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:6789842G>A	uc001meq.1	-	1	347	c.347C>T	c.(346-348)GCC>GTC	p.A116V		NM_001004490	NP_001004490	A6NM03	O2AG2_HUMAN	olfactory receptor, family 2, subfamily AG,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GGCCATGAAGGCCAGTAGGAG	0.527													7	43					0	0	0.00308	0	0		A	6789842	A	A	6789842	3	1	60	1	0	0	0	0	1	0	0	0	11004	1203	42	2	607	2	OR2AG2	11	6789842	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	980250	6789842	128216674	93	41930											
SYT9	143425	broad.mit.edu	37	chr11	7439317	7439317	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgtccctcccgagaacaTtgaccaaatccacttgtcca	11	10	6	14	1	0	3	0	2	0	1	4	4	4	3	5	0	1	0	5	0	2	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:7439317T>C	uc001mfe.2	+	5	1532	c.1295T>C	c.(1294-1296)ATT>ACT	p.I432T	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_RNA	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	432	Cytoplasmic (Potential).|C2 2.					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		CCCGAGAACATTGACCAAATC	0.488													8	60					0	0	0.00308	0	0		C	7439317	C	C	7439317	3	2	60	1	0	0	0	0	1	0	0	0	15506	1493	52	3	1313	3	SYT9	11	7439317	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	649475	7439317	127567199	94	41931											
BTBD10	84280	broad.mit.edu	37	chr11	13441177	13441177	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcttacagctaccatctgaActtgactgactactgtttct	9	15	6	11	0	3	3	0	3	3	0	3	3	3	3	1	0	5	2	1	0	4	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:13441177A>C	uc001mkz.2	-	4	671	c.414T>G	c.(412-414)AGT>AGG	p.S138R	BTBD10_uc010rcl.1_Missense_Mutation_p.S146R|BTBD10_uc001mla.2_Missense_Mutation_p.S122R|BTBD10_uc009ygn.2_RNA|BTBD10_uc010rcm.1_Missense_Mutation_p.S90R|BTBD10_uc010rcn.1_Missense_Mutation_p.S107R|BTBD10_uc009ygo.2_Missense_Mutation_p.S90R	NM_032320	NP_115696	Q9BSF8	BTBDA_HUMAN	K+ channel tetramerization protein	138	Ser-rich.					nucleus					0				Epithelial(150;0.0214)		TACCATCTGAACTTGACTGAC	0.463													17	209					0	0	0.006122	0	0		C	13441177	C	C	13441177	3	2	60	1	0	0	0	0	1	0	0	0	1541	40	2	5	1037	5	BTBD10	11	13441177	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	6001860	13441177	121565339	95	41932											
TRAF6	7189	broad.mit.edu	37	chr11	36512115	36512115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagagtcgggtataacgCtcaaactatgaacagcctgg	13	7	10	11	2	1	2	1	1	0	1	2	2	1	2	2	2	4	2	2	2	5	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:36512115C>T	uc001mwr.1	-	8	1182	c.842G>A	c.(841-843)AGC>AAC	p.S281N	TRAF6_uc001mws.1_Missense_Mutation_p.S281N	NM_145803	NP_665802	Q9Y4K3	TRAF6_HUMAN	TNF receptor-associated factor 6	281	Interaction with TAX1BP1.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|ossification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell cytokine production|protein autoubiquitination|protein K63-linked ubiquitination|response to interleukin-1|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cell cortex|cytosol|endosome membrane|internal side of plasma membrane|nuclear membrane	histone deacetylase binding|mitogen-activated protein kinase kinase kinase binding|protein kinase B binding|protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				GGGTATAACGCTCAAACTATG	0.478													14	106					0	0	0.016723	0	0		T	36512115	T	T	36512115	3	4	60	1	0	0	0	0	1	0	0	0	16471	797	28	2	730	2	TRAF6	11	36512115	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	23070938	36512115	98494401	96	41933											
HSD17B12	51144	broad.mit.edu	37	chr11	43876699	43876699	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attctgtttccctagggctcGataatctcaaacctgccttc	8	14	6	13	1	2	0	1	0	2	0	6	1	3	0	3	1	2	2	3	1	3	5	rs139099004	byFrequency	TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:43876699G>A	uc001mxq.3	+	11	1075	c.840G>A	c.(838-840)TCG>TCA	p.S280S		NM_016142	NP_057226	Q53GQ0	DHB12_HUMAN	hydroxysteroid (17-beta) dehydrogenase 12	280	Helical; (Potential).				long-chain fatty-acyl-CoA biosynthetic process|steroid biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	estradiol 17-beta-dehydrogenase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity				0						CCTAGGGCTCGATAATCTCAA	0.333													11	80					0	0	0.008291	0	0		A	43876699	A	A	43876699	2	1	60	1	0	0	0	0	0	0	0	1	7397	1045	37	1		1	HSD17B12	11	43876699	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08	7364584	43876699	91129817	97	41934											
OR4P4	81300	broad.mit.edu	37	chr11	55405859	55405859	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagcaataatagcacttTgtttattctcttggggtttt	12	17	7	5	0	1	0	0	0	1	0	2	0	1	0	0	2	2	4	0	2	6	9			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:55405859T>C	uc010rij.1	+	1	26	c.26T>C	c.(25-27)TTG>TCG	p.L9S		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	9	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						AATAGCACTTTGTTTATTCTC	0.323													12	114					0	0	0.010729	0	0		C	55405859	C	C	55405859	3	2	60	1	0	0	0	0	1	0	0	0	11099	1821	63	3	28	3	OR4P4	11	55405859	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	11529160	55405859	79600657	98	41935											
PCNXL3	399909	broad.mit.edu	37	chr11	65387008	65387008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggggcctctctctgggcagCggccgaggagactggcaggc	5	5	19	12	2	2	1	0	0	2	1	3	3	2	1	2	7	1	2	2	7	0	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:65387008C>T	uc001oey.2	+	7	1706	c.1706C>T	c.(1705-1707)GCG>GTG	p.A569V		NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	569						integral to membrane					0						CTCTGGGCAGCGGCCGAGGAG	0.607													4	15					0	0	0.001168	0	0		T	65387008	T	T	65387008	3	4	60	1	0	0	0	0	1	0	0	0	11612	782	27	1	1732	1	PCNXL3	11	65387008	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	9981149	65387008	69619508	99	41936											
LRRC32	2615	broad.mit.edu	37	chr11	76371306	76371306	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccaggctcaggctgcggaggGaggtgatgccggagaaggcc	8	4	19	10	2	1	2	1	1	0	1	1	5	1	4	3	7	2	2	3	7	1	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:76371306G>C	uc001oxq.3	-	3	1574	c.1331C>G	c.(1330-1332)TCC>TGC	p.S444C	LRRC32_uc001oxr.3_Missense_Mutation_p.S444C|LRRC32_uc010rsf.1_Missense_Mutation_p.S444C	NM_005512	NP_005503	Q14392	LRC32_HUMAN	leucine rich repeat containing 32 precursor	444	LRR 16.|Extracellular (Potential).					integral to plasma membrane					0						GCTGCGGAGGGAGGTGATGCC	0.642													4	24					0	0	0.014758	0	0		C	76371306	C	C	76371306	3	2	60	1	0	0	0	0	1	0	0	0	9005	1174	41	5	661	5	LRRC32	11	76371306	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	10984298	76371306	58635210	100	41937											
CCDC89	220388	broad.mit.edu	37	chr11	85396349	85396349	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttcaatggacagctgcagCaactcctctttctctctagt	8	14	6	13	0	4	0	1	0	3	0	6	1	5	1	1	1	4	3	1	1	3	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:85396349C>A	uc001pau.1	-	1	972	c.825G>T	c.(823-825)TTG>TTT	p.L275F		NM_152723	NP_689936	Q8N998	CCD89_HUMAN	coiled-coil domain containing 89	275	Potential.					cytoplasm|nucleus					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				ACAGCTGCAGCAACTCCTCTT	0.532													6	92					0.00116845	0.00120894	0.001168	1	0		A	85396349	A	A	85396349	3	1	60	1	0	0	0	0	1	0	0	0	2869	709	25	5	303	5	CCDC89	11	85396349	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	9025043	85396349	49610167	101	41938											
PGR	5241	broad.mit.edu	37	chr11	100999184	100999184	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacggcttcactggggccccGgaccagtgagggctctcaga	7	6	15	13	2	2	2	2	1	1	1	3	4	2	3	3	5	0	2	3	5	0	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:100999184G>A	uc001pgh.2	-	1	1361	c.618C>T	c.(616-618)TCC>TCT	p.S206S	PGR_uc001pgi.2_Silent_p.S206S|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	206	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	CTGGGGCCCCGGACCAGTGAG	0.692													6	15					0	0	0.001984	0	0		A	100999184	A	A	100999184	2	1	60	1	0	0	0	0	0	0	0	1	11824	1103	39	1		1	PGR	11	100999184	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08	15602835	100999184	34007332	102	41939											
OR10G7	390265	broad.mit.edu	37	chr11	123908818	123908818	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttttcagcttcaacagAgctttctttacctccttgtt	7	18	4	12	0	3	1	2	0	1	1	4	1	4	1	3	0	4	3	3	0	2	8			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr11:123908818A>C	uc001pzq.1	-	1	891	c.891T>G	c.(889-891)GCT>GCG	p.A297A		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		GCTTCAACAGAGCTTTCTTTA	0.408													9	35					0	0	0.008291	0	0		C	123908818	C	C	123908818	2	2	60	1	0	0	0	0	0	0	0	1	10921	291	11	5		5	OR10G7	11	123908818	Silent	SNP	A	TCGA-BR-8080-01A-11D-2340-08	22909634	123908818	11097698	103	41940											
CD163	9332	broad.mit.edu	37	chr12	7639263	7639263	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtggcattaatggcctCtccacagcccagctgtctgc	8	9	9	15	0	2	0	0	0	2	0	3	0	2	0	4	2	3	2	4	2	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr12:7639263C>A	uc001qsz.3	-	10	2418	c.2290G>T	c.(2290-2292)GAG>TAG	p.E764*	CD163_uc001qta.3_Nonsense_Mutation_p.E764*|CD163_uc009zfw.2_Nonsense_Mutation_p.E797*	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	764	SRCR 7.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						TTAATGGCCTCTCCACAGCCC	0.532													22	142					1.2644e-06	1.38356e-06	0.010504	1	0		A	7639263	A	A	7639263	4	1	60	1	0	0	0	0	0	1	0	0	2970	922	32	5	1208	5	CD163	12	7639263	Nonsense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08		7639263	126212632	104	41941											
A2ML1	144568	broad.mit.edu	37	chr12	9004550	9004550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccttactcagtagtccGtggggaatcctttcgtctta	6	15	8	12	2	3	0	1	0	2	0	7	1	5	1	3	2	1	1	3	2	4	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr12:9004550G>A	uc001quz.3	+	19	2503	c.2405G>A	c.(2404-2406)CGT>CAT	p.R802H	A2ML1_uc001qva.1_Missense_Mutation_p.R382H|A2ML1_uc010sgm.1_Missense_Mutation_p.R302H	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	646						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TCAGTAGTCCGTGGGGAATCC	0.502													11	114					0	0	0.008291	0	0		A	9004550	A	A	9004550	3	1	60	1	0	0	0	0	1	0	0	0	5	1145	40	1	2479	1	A2ML1	12	9004550	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	1365287	9004550	124847345	105	41942											
SP1	6667	broad.mit.edu	37	chr12	53777235	53777235	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccagcagcagcaacaccactCtcacacccattgcctcagct	11	6	5	19	0	2	0	2	0	1	0	3	0	2	0	4	0	6	4	4	0	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr12:53777235C>G	uc001scw.2	+	3	1601	c.1504C>G	c.(1504-1506)CTC>GTC	p.L502V	SP1_uc010sog.1_Missense_Mutation_p.L495V	NM_138473	NP_612482	P08047	SP1_HUMAN	Sp1 transcription factor isoform a	502	Transactivation domain C (highly charged).				positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)		CAACACCACTCTCACACCCAT	0.552													6	83					0	0	0.001984	0	0		G	53777235	G	G	53777235	3	3	60	1	0	0	0	0	1	0	0	0	14984	913	32	5	1514	5	SP1	12	53777235	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	44772685	53777235	80074660	106	41943											
MYF6	4618	broad.mit.edu	37	chr12	81101535	81101535	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaaactggctcctatttcTtctacttggatggggaaaat	10	15	9	7	0	2	1	0	1	2	0	3	3	3	3	1	4	2	1	1	4	5	6			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr12:81101535T>G	uc001szf.1	+	1	90	c.37T>G	c.(37-39)TTC>GTC	p.F13V		NM_002469	NP_002460	P23409	MYF6_HUMAN	myogenic factor 6	13					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						CTCCTATTTCTTCTACTTGGA	0.493													7	61					0	0	0.004482	0	0		G	81101535	G	G	81101535	3	3	60	1	0	0	0	0	1	0	0	0	10046	1609	56	5	39	5	MYF6	12	81101535	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	27324300	81101535	52750360	107	41944											
OAS1	4938	broad.mit.edu	37	chr12	113346553	113346553	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctggggcaacccccgtgcGctcagcttcgtactgagttc	5	9	12	15	4	1	1	1	1	0	0	3	1	1	1	2	2	4	6	2	2	2	3	rs147639145	by1000genomes	TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr12:113346553G>A	uc001tud.2	+	2	499	c.393G>A	c.(391-393)GCG>GCA	p.A131A	OAS1_uc010syn.1_Silent_p.A130A|OAS1_uc010syo.1_Silent_p.A130A|OAS1_uc001tub.2_Silent_p.A131A|OAS1_uc001tuc.2_Silent_p.A131A|OAS1_uc009zwf.2_Silent_p.A130A	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	131	Necessary for binding to dsRNA.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						ACCCCCGTGCGCTCAGCTTCG	0.572													11	53					0	0	0.010729	0	0		A	113346553	A	A	113346553	2	1	60	1	0	0	0	0	0	0	0	1	10818	1074	38	1		1	OAS1	12	113346553	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08	32245018	113346553	20505342	108	41945											
POU4F1	5457	broad.mit.edu	37	chr13	79175862	79175862	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcatgttgttgtgcgagagCgtgagcgactcgaacctgca	9	10	13	9	4	1	2	1	1	0	1	2	5	1	2	1	0	5	3	1	0	1	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr13:79175862C>T	uc001vkv.2	-	2	1182	c.948G>A	c.(946-948)ACG>ACA	p.T316T	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	316	POU-specific.				axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		TGTGCGAGAGCGTGAGCGACT	0.652													3	16					0	0	0.004672	0	0		T	79175862	T	T	79175862	2	4	60	1	0	0	0	0	0	0	0	1	12297	755	27	1		1	POU4F1	13	79175862	Silent	SNP	C	TCGA-BR-8080-01A-11D-2340-08		79175862	35994016	109	41946											
NALCN	259232	broad.mit.edu	37	chr13	101717784	101717784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatggaaggtgacgtcgcCgccattgtggagcctctcca	8	9	12	12	3	2	1	1	1	1	0	4	3	2	3	4	3	1	0	4	3	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr13:101717784C>T	uc001vox.1	-	40	4765	c.4576G>A	c.(4576-4578)GGC>AGC	p.G1526S		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1526	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GTGACGTCGCCGCCATTGTGG	0.587													26	57					0	0	0.005443	0	0		T	101717784	T	T	101717784	3	4	60	1	0	0	0	0	1	0	0	0	10166	652	23	1	660	1	NALCN	13	101717784	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	22541922	101717784	13452094	110	41947											
NALCN	259232	broad.mit.edu	37	chr13	101747941	101747941	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccaaacacggggcacccAaaatccaggttttttctctc	11	11	6	13	1	1	0	0	0	1	0	4	0	2	0	3	3	2	2	3	3	4	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr13:101747941A>G	uc001vox.1	-	28	3442	c.3253T>C	c.(3253-3255)TGG>CGG	p.W1085R		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1085	Extracellular (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CGGGGCACCCAAAATCCAGGT	0.333													19	46					0	0	0.006122	0	0		G	101747941	G	G	101747941	3	3	60	1	0	0	0	0	1	0	0	0	10166	130	5	3	2031	3	NALCN	13	101747941	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	30157	101747941	13421937	111	41948											
SOS2	6655	broad.mit.edu	37	chr14	50666574	50666574	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actttgtaccctaatacttcCtgtgaaaagaataaataatt	16	14	4	7	0	0	2	0	1	0	1	1	2	1	2	2	0	2	1	2	0	9	8			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr14:50666574C>T	uc001wxs.3	-	4	444	c.346_splice	c.e4-1	p.E116_splice	SOS2_uc010tql.1_Splice_Site_p.E116_splice	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2						apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					CTAATACTTCCTGTGAAAAGA	0.294													18	64					0	0	0.010504	0	0		T	50666574	T	T	50666574	5	4	60	1	0	0	0	0	0	0	1	0	14962	695	24	4	3733	4	SOS2	14	50666574	Splice_Site	SNP	C	TCGA-BR-8080-01A-11D-2340-08		50666574	56682966	112	41949											
ACOT4	122970	broad.mit.edu	37	chr14	74060458	74060458	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttggtattggagggggcctCttggaatatcgagccagcct	7	12	14	8	1	1	0	0	0	1	0	2	3	1	2	3	5	2	1	3	5	3	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr14:74060458C>T	uc001xoo.2	+	2	764	c.510C>T	c.(508-510)CTC>CTT	p.L170L		NM_152331	NP_689544	Q8N9L9	ACOT4_HUMAN	acyl-CoA thioesterase 4	170					acyl-CoA metabolic process|dicarboxylic acid metabolic process|long-chain fatty acid metabolic process|saturated monocarboxylic acid metabolic process|short-chain fatty acid metabolic process|succinyl-CoA metabolic process|unsaturated monocarboxylic acid metabolic process|very long-chain fatty acid metabolic process	peroxisome	carboxylesterase activity|palmitoyl-CoA hydrolase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00331)		GAGGGGGCCTCTTGGAATATC	0.423													31	46					0	0	0.009535	0	0		T	74060458	T	T	74060458	2	4	60	1	0	0	0	0	0	0	0	1	153	900	32	4		4	ACOT4	14	74060458	Silent	SNP	C	TCGA-BR-8080-01A-11D-2340-08	23393884	74060458	33289082	113	41950											
FLRT2	23768	broad.mit.edu	37	chr14	86089626	86089626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcggaaagatgattattgcGaggcaggcaccaagaaggac	14	5	15	7	2	0	3	0	1	0	2	0	6	0	5	1	5	1	2	1	5	4	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr14:86089626G>A	uc001xvr.2	+	2	2535	c.1768G>A	c.(1768-1770)GAG>AAG	p.E590K	FLRT2_uc010atd.2_Missense_Mutation_p.E590K	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	590	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		TGATTATTGCGAGGCAGGCAC	0.488													21	105					0	0	0.012319	0	0		A	86089626	A	A	86089626	3	1	60	1	0	0	0	0	1	0	0	0	5953	1059	37	1	1770	1	FLRT2	14	86089626	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	12029168	86089626	21259914	114	41951											
KIAA1409	57578	broad.mit.edu	37	chr14	94088470	94088470	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaacctccgacagcgacTctcttgtatttgagcctctt	7	14	6	14	2	3	1	1	1	3	0	6	3	4	1	3	0	3	1	3	0	2	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr14:94088470T>G	uc001ybv.1	+	28	4509	c.4426T>G	c.(4426-4428)TCT>GCT	p.S1476A	KIAA1409_uc001ybs.1_Missense_Mutation_p.S1454A	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1631						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CGACAGCGACTCTCTTGTATT	0.488													16	71					0	0	0.00499	0	0		G	94088470	G	G	94088470	3	3	60	1	0	0	0	0	1	0	0	0	8246	1551	54	5	4466	5	KIAA1409	14	94088470	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	7998844	94088470	13261070	115	41952											
SERPINA5	5104	broad.mit.edu	37	chr14	95058443	95058443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgagtcgggaaccagagcagCggcagccacggggacaatat	12	3	15	11	4	0	1	0	0	0	1	1	4	0	3	2	4	4	2	2	4	3	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr14:95058443C>T	uc001ydm.2	+	6	1298	c.1088C>T	c.(1087-1089)GCG>GTG	p.A363V	SERPINA3_uc001ydo.3_5'UTR	NM_000624	NP_000615	P05154	IPSP_HUMAN	serine (or cysteine) proteinase inhibitor, clade	363					fusion of sperm to egg plasma membrane|regulation of proteolysis|spermatogenesis	extracellular region|membrane|protein complex	acrosin binding|heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(2)	2				COAD - Colon adenocarcinoma(157;0.21)	Drotrecogin alfa(DB00055)|Urokinase(DB00013)	ACCAGAGCAGCGGCAGCCACG	0.567													11	217					0	0	0.010729	0	0		T	95058443	T	T	95058443	3	4	60	1	0	0	0	0	1	0	0	0	14117	768	27	1	1102	1	SERPINA5	14	95058443	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	969973	95058443	12291097	116	41953											
MKRN3	7681	broad.mit.edu	37	chr15	23811873	23811873	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggtgtgtggcatctgcaTggaggttgtctatgagaagg	9	11	16	5	0	2	1	0	1	2	1	2	3	2	2	0	5	1	3	0	5	3	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr15:23811873T>C	uc001ywh.3	+	1	1420	c.944T>C	c.(943-945)ATG>ACG	p.M315T	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.M315T	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	315	RING-type.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		GGCATCTGCATGGAGGTTGTC	0.498													16	36					0	0	0.00499	0	0		C	23811873	C	C	23811873	3	2	60	1	0	0	0	0	1	0	0	0	9626	1464	51	3	946	3	MKRN3	15	23811873	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08		23811873	78719519	117	41954											
BAHD1	22893	broad.mit.edu	37	chr15	40754422	40754422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcgcccacgccctcgcCgccgccgtcgccgccgcact	3	4	10	24	9	0	0	0	0	0	0	3	0	1	0	8	0	1	1	8	0	0	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr15:40754422C>T	uc001zlu.2	+	3	1815	c.1744C>T	c.(1744-1746)CGC>TGC	p.R582C	BAHD1_uc001zlt.2_Missense_Mutation_p.R581C|BAHD1_uc010bbp.1_Missense_Mutation_p.R581C|BAHD1_uc001zlv.2_Missense_Mutation_p.R582C	NM_014952	NP_055767	Q8TBE0	BAHD1_HUMAN	bromo adjacent homology domain containing 1	582	Arg-rich.				heterochromatin formation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin silencing complex|chromosome	chromatin binding|DNA binding|protein binding				0		all_cancers(109;8.28e-19)|all_epithelial(112;2.64e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.46e-06)|BRCA - Breast invasive adenocarcinoma(123;0.08)		ACGCCCTCGCCGCCGCCGTCG	0.647													9	94					0	0	0.006214	0	0		T	40754422	T	T	40754422	3	4	60	1	0	0	0	0	1	0	0	0	1298	652	23	1	1750	1	BAHD1	15	40754422	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	16942549	40754422	61776970	118	41955											
PKM2	5315	broad.mit.edu	37	chr15	72511293	72511293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacccactcaccaatggtaCagatgatgccagtgttccgg	11	8	9	13	1	1	2	1	1	0	1	2	2	2	2	4	2	2	2	4	2	2	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr15:72511293C>T	uc002atx.1	-	2	387	c.146G>A	c.(145-147)TGT>TAT	p.C49Y	PKM2_uc010bit.1_Missense_Mutation_p.C54Y|PKM2_uc010uki.1_Missense_Mutation_p.C123Y|PKM2_uc002atv.1_Missense_Mutation_p.C84Y|PKM2_uc002atw.1_Missense_Mutation_p.C49Y|PKM2_uc002aty.1_Missense_Mutation_p.C49Y|PKM2_uc010ukj.1_Missense_Mutation_p.V65I|PKM2_uc010ukk.1_Missense_Mutation_p.C49Y|PKM2_uc010biu.1_Missense_Mutation_p.C70Y|PKM2_uc002atz.1_RNA	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	49					glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	ACCAATGGTACAGATGATGCC	0.527													3	19					0	0	0.004672	0	0		T	72511293	T	T	72511293	3	4	60	1	0	0	0	0	1	0	0	0	11996	478	17	4	1660	4	PKM2	15	72511293	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	31756871	72511293	30020099	119	41956											
BBS4	585	broad.mit.edu	37	chr15	73023934	73023934	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagccaactacttggcaccCtttgattggaagattctgta	10	12	9	10	1	1	2	0	1	1	1	1	4	1	3	2	2	3	2	2	2	4	6			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr15:73023934C>G	uc002avb.2	+	12	946	c.903C>G	c.(901-903)CCC>CCG	p.P301P	BBS4_uc010ukv.1_Silent_p.P289P|BBS4_uc002avc.2_Silent_p.P129P|BBS4_uc002avd.2_Silent_p.P309P|BBS4_uc010bja.2_Silent_p.P57P	NM_033028	NP_149017	Q96RK4	BBS4_HUMAN	Bardet-Biedl syndrome 4	301	Interaction with PCM1.|TPR 7.				adult behavior|brain morphogenesis|cell cycle cytokinesis|centrosome organization|cerebral cortex development|convergent extension involved in gastrulation|dendrite development|fat cell differentiation|heart looping|hippocampus development|intracellular transport|maintenance of protein location in nucleus|melanosome transport|microtubule anchoring at centrosome|neural tube closure|nonmotile primary cilium assembly|photoreceptor cell maintenance|pigment granule aggregation in cell center|positive regulation of flagellum assembly|regulation of cilium beat frequency involved in ciliary motility|regulation of cytokinesis|regulation of lipid metabolic process|retina homeostasis|retinal rod cell development|sensory perception of smell|sensory processing|spermatid development|striatum development	BBSome|centriolar satellite|centriole|cilium membrane|microtubule basal body|motile cilium|nonmotile primary cilium|nucleus|pericentriolar material	alpha-tubulin binding|beta-tubulin binding|dynactin binding|microtubule motor activity				0						ACTTGGCACCCTTTGATTGGA	0.473									Bardet-Biedl_syndrome				27	90					0	0	0.004656	0	0		G	73023934	G	G	73023934	2	3	60	1	0	0	0	0	0	0	0	1	1340	668	24	5		5	BBS4	15	73023934	Silent	SNP	C	TCGA-BR-8080-01A-11D-2340-08	512641	73023934	29507458	120	41957											
HAPLN3	145864	broad.mit.edu	37	chr15	89421211	89421211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccaggtcctagtgctggCggtagcagtaaacaccgtac	9	7	12	13	2	0	0	0	0	0	0	1	0	1	0	4	3	4	5	4	3	5	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr15:89421211C>T	uc002bnc.2	-	5	1201	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H	HAPLN3_uc002bne.2_RNA|HAPLN3_uc002bnd.2_Missense_Mutation_p.R420H	NM_178232	NP_839946	Q96S86	HPLN3_HUMAN	hyaluronan and proteoglycan link protein 3	358	Link 2.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	Lung NSC(78;0.0392)|all_lung(78;0.077)					CTAGTGCTGGCGGTAGCAGTA	0.587													6	21					0	0	0.001168	0	0		T	89421211	T	T	89421211	3	4	60	1	0	0	0	0	1	0	0	0	6972	768	27	1	13	1	HAPLN3	15	89421211	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	16397277	89421211	13110181	121	41958											
TRAF7	84231	broad.mit.edu	37	chr16	2223996	2223996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgtgtggtgtctctgcGtctactccatgggtgacctg	3	13	13	12	1	2	1	0	1	2	0	4	1	3	1	3	2	2	0	3	2	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr16:2223996G>A	uc002cow.2	+	13	1309	c.1210G>A	c.(1210-1212)GTC>ATC	p.V404I		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	404	WD 1.				activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						GTGTCTCTGCGTCTACTCCAT	0.597													24	103					0	0	0.01892	0	0		A	2223996	A	A	2223996	3	1	60	1	0	0	0	0	1	0	0	0	16472	1145	40	1	1256	1	TRAF7	16	2223996	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08		2223996	88130757	122	41959											
SULT1A2	6799	broad.mit.edu	37	chr16	28606764	28606764	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggagtcgtggggctggtGtgtttttcagagtctccatc	5	14	14	8	1	3	1	2	0	1	1	6	2	3	2	1	4	0	2	1	4	0	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr16:28606764G>T	uc002dqg.1	-	4	647	c.296C>A	c.(295-297)ACA>AAA	p.T99K	uc010vct.1_Intron|SULT1A2_uc002dqh.1_Missense_Mutation_p.T99K	NM_177528	NP_803564	P50226	ST1A2_HUMAN	sulfotransferase family, cytosolic, 1A,	99					3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine biosynthetic process|catecholamine metabolic process|steroid metabolic process|sulfation|xenobiotic metabolic process	cytosol	aryl sulfotransferase activity|flavonol 3-sulfotransferase activity				0						TGGGGCTGGTGTGTTTTTCAG	0.537													14	72					1.5842e-08	1.77058e-08	0.016723	1	0		T	28606764	T	T	28606764	3	4	60	1	0	0	0	0	1	0	0	0	15398	1377	48	5	611	5	SULT1A2	16	28606764	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	26382768	28606764	61747989	123	41960											
KIF22	3835	broad.mit.edu	37	chr16	29810471	29810471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccacccggctcaaccagcGctcctcccgcagtcatgctg	7	6	9	19	3	2	0	2	0	0	0	4	0	4	0	5	1	4	4	5	1	1	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr16:29810471G>A	uc002dts.3	+	5	749	c.725G>A	c.(724-726)CGC>CAC	p.R242H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|KIF22_uc010vdv.1_Missense_Mutation_p.R174H|KIF22_uc010vdw.1_Missense_Mutation_p.R174H|KIF22_uc010bzf.2_Missense_Mutation_p.R174H	NM_007317	NP_015556	Q14807	KIF22_HUMAN	kinesin family member 22	242	Kinesin-motor.				blood coagulation|DNA repair|microtubule-based movement|mitosis	cytosol|kinetochore|microtubule|nucleus	ATP binding|DNA binding|microtubule motor activity|protein binding				0						CTCAACCAGCGCTCCTCCCGC	0.612													18	24					0	0	0.006122	0	0		A	29810471	A	A	29810471	3	1	60	1	0	0	0	0	1	0	0	0	8306	1087	38	1	743	1	KIF22	16	29810471	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	1203707	29810471	60544282	124	41961											
SALL1	6299	broad.mit.edu	37	chr16	51173596	51173596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggataagctgtcttgggagGcgtctgcagacttaggtgta	9	11	15	6	1	2	1	0	0	2	1	2	3	2	3	0	4	2	3	0	4	3	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr16:51173596G>A	uc010vgs.1	-	2	2568	c.2537C>T	c.(2536-2538)GCC>GTC	p.A846V	SALL1_uc010vgr.1_Missense_Mutation_p.A749V|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	846					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GTCTTGGGAGGCGTCTGCAGA	0.478													25	103					0	0	0.01892	0	0		A	51173596	A	A	51173596	3	1	60	1	0	0	0	0	1	0	0	0	13835	1203	42	2	1445	2	SALL1	16	51173596	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	21363125	51173596	39181157	125	41962											
IRX6	79190	broad.mit.edu	37	chr16	55363013	55363013	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcccggcctaggccacgaAgtcctgagtgccgtatgatt	8	8	12	13	3	0	2	0	2	0	0	1	3	1	2	5	2	2	1	5	2	3	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr16:55363013A>C	uc002ehy.2	+	5	1656	c.1123A>C	c.(1123-1125)AGT>CGT	p.S375R	IRX6_uc002ehx.2_Missense_Mutation_p.S375R	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	375						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						TAGGCCACGAAGTCCTGAGTG	0.637													6	60					0	0	0.001168	0	0		C	55363013	C	C	55363013	3	2	60	1	0	0	0	0	1	0	0	0	7864	72	3	5	1141	5	IRX6	16	55363013	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	4189417	55363013	34991740	126	41963											
KARS	3735	broad.mit.edu	37	chr16	75665710	75665710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctcattccggaactggCgtccaatttcataaacccgg	9	10	7	15	3	2	0	2	0	0	0	5	1	5	1	5	3	2	0	5	3	4	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr16:75665710C>T	uc002feq.2	-	8	1007	c.959G>A	c.(958-960)CGC>CAC	p.R320H	KARS_uc002fer.2_Missense_Mutation_p.R348H|KARS_uc002fes.2_Missense_Mutation_p.R164H	NM_005548	NP_005539	Q15046	SYK_HUMAN	lysyl-tRNA synthetase isoform 2	320					interspecies interaction between organisms|lysyl-tRNA aminoacylation|tRNA processing	cytosol|extracellular region|mitochondrial matrix|nucleus|plasma membrane|soluble fraction	ATP binding|lysine-tRNA ligase activity|metal ion binding|tRNA binding			ovary(2)	2					L-Lysine(DB00123)	CCGGAACTGGCGTCCAATTTC	0.438													8	118					0	0	0.00308	0	0		T	75665710	T	T	75665710	3	4	60	1	0	0	0	0	1	0	0	0	7996	768	27	1	862	1	KARS	16	75665710	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	20302697	75665710	14689043	127	41964											
CNTNAP4	85445	broad.mit.edu	37	chr16	76569647	76569647	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggttcttttgtgactgcacTttctctgcatacacagggcc	6	14	10	11	0	2	1	0	1	2	0	3	1	2	1	1	2	3	3	1	2	1	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr16:76569647T>G	uc002feu.1	+	20	3346	c.2961T>G	c.(2959-2961)ACT>ACG	p.T987T	CNTNAP4_uc002fev.1_Silent_p.T851T|CNTNAP4_uc010chb.1_Silent_p.T914T|CNTNAP4_uc002fex.1_Silent_p.T990T	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	987	Extracellular (Potential).|EGF-like 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						GTGACTGCACTTTCTCTGCAT	0.458													4	19					0	0	0.009096	0	0		G	76569647	G	G	76569647	2	3	60	1	0	0	0	0	0	0	0	1	3652	1596	56	5		5	CNTNAP4	16	76569647	Silent	SNP	T	TCGA-BR-8080-01A-11D-2340-08	903937	76569647	13785106	128	41965											
SMG6	23293	broad.mit.edu	37	chr17	2202841	2202841	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaatgccacgaccacgaccCcgaagttcttgtttcgggtt	9	10	10	12	4	1	1	0	0	1	1	2	4	1	1	4	1	1	3	4	1	2	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr17:2202841C>A	uc002fub.1	-	2	1261	c.1206G>T	c.(1204-1206)CGG>CGT	p.R402R	SMG6_uc002fud.1_Silent_p.R371R	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	402	Interaction with telomeric DNA.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						GACCACGACCCCGAAGTTCTT	0.532													7	71					2.0095e-06	2.17609e-06	0.001984	1	0		A	2202841	A	A	2202841	2	1	60	1	0	0	0	0	0	0	0	1	14822	610	22	5		5	SMG6	17	2202841	Silent	SNP	C	TCGA-BR-8080-01A-11D-2340-08		2202841	78992369	129	41966											
TP53	7157	broad.mit.edu	37	chr17	7573994	7573994	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgagttccaaggcctcatTcagctctcggaacatctcga	9	11	8	13	2	4	1	2	1	2	0	7	3	5	2	2	2	2	2	2	2	2	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr17:7573994T>C	uc002gim.2	-	10	1227	c.1033A>G	c.(1033-1035)AAT>GAT	p.N345D	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_Missense_Mutation_p.N213D|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_Missense_Mutation_p.N345D	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	345	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Nuclear export signal.|Interaction with HIPK2.				activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.N345fs*25(3)|p.L344fs*23(2)|p.L344fs*22(1)|p.?(1)|p.R342_N345delRELN(1)|p.I332fs*5(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		AAGGCCTCATTCAGCTCTCGG	0.527		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			8	14					0	0	0.006214	0	0		C	7573994	C	C	7573994	3	2	60	1	0	0	0	0	1	0	0	0	16407	1783	62	3	156	3	TP53	17	7573994	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	5371153	7573994	73621216	130	41967											
MYH1	4619	broad.mit.edu	37	chr17	10399568	10399568	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acatatttaccttgaggatgGcttgggtgttcctatagttc	8	16	10	7	0	0	1	0	1	0	0	2	2	1	2	2	3	1	3	2	3	4	9			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr17:10399568G>C	uc002gmo.2	-	34	5049	c.4955C>G	c.(4954-4956)GCC>GGC	p.A1652G	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1652	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CTTGAGGATGGCTTGGGTGTT	0.493													7	106					0	0	0.004482	0	0		C	10399568	C	C	10399568	3	2	60	1	0	0	0	0	1	0	0	0	10047	1203	42	5	892	5	MYH1	17	10399568	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	2825574	10399568	70795642	131	41968											
SSH2	85464	broad.mit.edu	37	chr17	27999110	27999110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtagttatgcgctctggCgacttcacaagccttgtgta	8	13	11	9	2	2	0	1	0	1	0	2	1	2	0	1	1	2	5	1	1	5	6			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr17:27999110C>T	uc002heo.1	-	8	571	c.571G>A	c.(571-573)GCC>ACC	p.A191T	SSH2_uc010wbh.1_Missense_Mutation_p.A218T|SSH2_uc002hep.1_Missense_Mutation_p.A191T	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	191					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TGCGCTCTGGCGACTTCACAA	0.468													5	52					0	0	0.001168	0	0		T	27999110	T	T	27999110	3	4	60	1	0	0	0	0	1	0	0	0	15210	768	27	1	3732	1	SSH2	17	27999110	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	17599542	27999110	53196100	132	41969											
THRA	7067	broad.mit.edu	37	chr17	38244651	38244651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaagaatggcggcctgggcGtagtctccgacgccatcttt	7	10	12	12	4	3	1	1	0	2	1	4	2	3	1	3	3	0	1	3	3	3	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr17:38244651G>A	uc002htw.2	+	8	1363	c.880G>A	c.(880-882)GTA>ATA	p.V294I	THRA_uc010cwp.1_Missense_Mutation_p.V294I|THRA_uc002htv.2_Missense_Mutation_p.V294I|THRA_uc002htx.2_Missense_Mutation_p.V294I	NM_003250	NP_003241	P10827	THA_HUMAN	thyroid hormone receptor, alpha isoform 2	294	Ligand-binding.				negative regulation of RNA polymerase II transcriptional preinitiation complex assembly|negative regulation of transcription initiation, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription from RNA polymerase II promoter	cytosol|nucleoplasm	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|TBP-class protein binding|thyroid hormone binding|thyroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding				0	Colorectal(19;0.000442)	Myeloproliferative disorder(1115;0.0255)			Levothyroxine(DB00451)|Liothyronine(DB00279)	CGGCCTGGGCGTAGTCTCCGA	0.607													7	96					0	0	0.001984	0	0		A	38244651	A	A	38244651	3	1	60	1	0	0	0	0	1	0	0	0	15898	1145	40	1	906	1	THRA	17	38244651	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	10245541	38244651	42950559	133	41970											
COLEC12	81035	broad.mit.edu	37	chr18	321787	321787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccatgaccccagttatccGgctgtccagctttccaattt	7	12	8	14	1	0	1	0	1	0	0	3	1	3	1	6	2	1	3	6	2	2	3	rs138304922		TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr18:321787G>A	uc002kkm.2	-	9	2299	c.2084C>T	c.(2083-2085)CCG>CTG	p.P695L		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	695	Extracellular (Potential).|C-type lectin.				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				CCAGTTATCCGGCTGTCCAGC	0.428													32	129					0	0	0.008361	0	0		A	321787	A	A	321787	3	1	60	1	0	0	0	0	1	0	0	0	3715	1116	39	1	152	1	COLEC12	18	321787	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08		321787	77755461	134	41971											
DLGAP1	9229	broad.mit.edu	37	chr18	3879582	3879582	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggccttgcccccgttgaCgctgcccttggacggcccct	2	9	12	18	3	0	1	0	1	0	0	0	2	0	2	6	3	2	3	6	3	0	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr18:3879582C>T	uc002kmf.2	-	1	554	c.487G>A	c.(487-489)GTC>ATC	p.V163I	DLGAP1_uc010wyz.1_Missense_Mutation_p.V163I|DLGAP1_uc002kmk.2_Missense_Mutation_p.V163I|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	163					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				CCCCCGTTGACGCTGCCCTTG	0.716													10	99					0	0	0.016723	0	0		T	3879582	T	T	3879582	3	4	60	1	0	0	0	0	1	0	0	0	4565	536	19	1	2541	1	DLGAP1	18	3879582	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	3557795	3879582	74197666	135	41972											
ANKRD30B	374860	broad.mit.edu	37	chr18	14851842	14851842	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aattgaatcacaccatcctaGactggcttctgctttacaag	12	12	6	11	0	2	2	1	1	1	1	3	2	3	2	2	1	2	2	2	1	5	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr18:14851842G>C	uc010dlo.2	+	36	3722	c.3542G>C	c.(3541-3543)AGA>ACA	p.R1181T	ANKRD30B_uc010xal.1_Missense_Mutation_p.R323T	NM_001145029	NP_001138501	Q9BXX2	AN30B_HUMAN	ankyrin repeat domain 30B	1266										ovary(1)|skin(1)	2						CACCATCCTAGACTGGCTTCT	0.403													3	9					0	0	0.009096	0	0		C	14851842	C	C	14851842	3	2	60	1	0	0	0	0	1	0	0	0	659	942	33	5	3684	5	ANKRD30B	18	14851842	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	10972260	14851842	63225406	136	41973											
C18orf34	374864	broad.mit.edu	37	chr18	30847187	30847187	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcataaaaatcattaacTgcttccagatactgattttc	14	13	5	9	0	1	2	1	1	0	1	3	2	2	2	1	0	4	3	1	0	5	6			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr18:30847187T>A	uc002kxn.2	-	12	1393	c.1251A>T	c.(1249-1251)GCA>GCT	p.A417A	C18orf34_uc010dme.1_5'Flank|C18orf34_uc010xbr.1_Silent_p.A417A|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Silent_p.A417A|C18orf34_uc002kxp.2_Silent_p.A417A	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	417										ovary(1)	1						AATCATTAACTGCTTCCAGAT	0.318													9	73					0	0	0.004482	0	0		A	30847187	A	A	30847187	2	1	60	1	0	0	0	0	0	0	0	1	1905	1567	55	5		5	C18orf34	18	30847187	Silent	SNP	T	TCGA-BR-8080-01A-11D-2340-08	15995345	30847187	47230061	137	41974											
ASXL3	80816	broad.mit.edu	37	chr18	31324793	31324793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacttcatcccaggaatcttGtaacaaatgttgctcttcct	11	14	5	11	0	3	0	1	0	2	0	5	1	5	1	2	1	3	3	2	1	4	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr18:31324793G>A	uc010dmg.1	+	12	5036	c.4981G>A	c.(4981-4983)GTA>ATA	p.V1661I	ASXL3_uc002kxq.2_Missense_Mutation_p.V1368I	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1661					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CAGGAATCTTGTAACAAATGT	0.438													11	49					0	0	0.010729	0	0		A	31324793	A	A	31324793	3	1	60	1	0	0	0	0	1	0	0	0	1069	1377	48	4	5027	4	ASXL3	18	31324793	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	477606	31324793	46752455	138	41975											
CDH7	1005	broad.mit.edu	37	chr18	63511174	63511174	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgaagataattgtggaaGatgtagatgagccccctgtg	11	11	13	6	0	0	5	0	2	0	3	0	6	0	6	2	1	1	1	2	1	4	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr18:63511174G>T	uc002ljz.2	+	7	1433	c.1108G>T	c.(1108-1110)GAT>TAT	p.D370Y	CDH7_uc002lka.2_Missense_Mutation_p.D370Y|CDH7_uc002lkb.2_Missense_Mutation_p.D370Y	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	370	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				AATTGTGGAAGATGTAGATGA	0.493													8	84					0.00448238	0.00456984	0.004482	1	0		T	63511174	T	T	63511174	3	4	60	1	0	0	0	0	1	0	0	0	3118	942	33	5	1130	5	CDH7	18	63511174	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	32186381	63511174	14566074	139	41976											
CDH7	1005	broad.mit.edu	37	chr18	63547907	63547907	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catctttagggaatttatttGggaaagattaaaagaagccg	15	12	10	4	1	1	2	0	0	1	2	1	4	1	4	1	2	1	0	1	2	7	6			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr18:63547907G>T	uc002ljz.2	+	12	2460	c.2135G>T	c.(2134-2136)TGG>TTG	p.W712L	CDH7_uc002lkb.2_Missense_Mutation_p.W712L	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	712	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GAATTTATTTGGGAAAGATTA	0.438													8	130					5.18039e-06	5.55232e-06	0.00308	1	0		T	63547907	T	T	63547907	3	4	60	1	0	0	0	0	1	0	0	0	3118	1357	47	5	2177	5	CDH7	18	63547907	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	36733	63547907	14529341	140	41977											
DAPK3	1613	broad.mit.edu	37	chr19	3969700	3969700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcccccatctcataatGgtcctccacgtcctcctgcc	5	11	4	21	1	1	0	1	0	1	0	8	0	7	0	8	1	1	0	8	1	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr19:3969700G>A	uc002lzc.1	-	1	127	c.34C>T	c.(34-36)CAT>TAT	p.H12Y	DAPK3_uc002lzd.1_Missense_Mutation_p.H12Y	NM_001348	NP_001339	O43293	DAPK3_HUMAN	death-associated protein kinase 3	12					apoptosis|chromatin modification|induction of apoptosis|intracellular protein kinase cascade	cytoplasm|PML body	ATP binding|leucine zipper domain binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|ovary(1)|large_intestine(1)	7		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		ATCTCATAATGGTCCTCCACG	0.632											OREG0025158	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	48					0	0	0.001168	0	0		A	3969700	A	A	3969700	3	1	60	1	0	0	0	0	1	0	0	0	4240	1348	47	4	1362	4	DAPK3	19	3969700	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08		3969700	55159283	141	41978											
MUC16	94025	broad.mit.edu	37	chr19	9087815	9087815	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagagacctgagctgaacTtgtatccttaggatccgtag	10	12	11	8	1	0	3	0	2	0	1	2	5	2	4	3	1	2	4	3	1	5	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr19:9087815T>C	uc002mkp.2	-	1	4204	c.4000A>G	c.(4000-4002)AGT>GGT	p.S1334G		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1334	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGAGCTGAACTTGTATCCTTA	0.527													12	50					0	0	0.013537	0	0		C	9087815	C	C	9087815	3	2	60	1	0	0	0	0	1	0	0	0	9991	1609	56	3	39859	3	MUC16	19	9087815	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	5118115	9087815	50041168	142	41979											
ZNF208	7757	broad.mit.edu	37	chr19	22155381	22155381	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccttatgtgtagtaagggTtgagaccttactaaaggttt	10	15	11	5	0	0	1	0	1	0	1	0	2	0	1	2	2	2	4	2	2	6	7			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr19:22155381T>A	uc002nqp.2	-	5	2304	c.2155A>T	c.(2155-2157)ACC>TCC	p.T719S	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GTAGTAAGGGTTGAGACCTTA	0.353													11	87					0	0	0.010729	0	0		A	22155381	A	A	22155381	3	1	60	1	0	0	0	0	1	0	0	0	17791	1725	60	5	1391	5	ZNF208	19	22155381	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	13067566	22155381	36973602	143	41980											
HKR1	284459	broad.mit.edu	37	chr19	37853775	37853775	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcaagccttatgtgtgcAaggaatgtgggcagagcttt	9	11	14	7	0	1	1	1	0	0	1	1	2	1	2	1	3	3	4	1	3	4	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr19:37853775A>G	uc002ogb.2	+	6	1347	c.1078A>G	c.(1078-1080)AAG>GAG	p.K360E	HKR1_uc002ofx.2_Missense_Mutation_p.K76E|HKR1_uc002ofy.2_Missense_Mutation_p.K76E|HKR1_uc002oga.2_Missense_Mutation_p.K342E|HKR1_uc010xto.1_Missense_Mutation_p.K342E|HKR1_uc002ogc.2_Missense_Mutation_p.K341E|HKR1_uc010xtp.1_Missense_Mutation_p.K299E|HKR1_uc002ogd.2_Missense_Mutation_p.K299E	NM_181786	NP_861451	P10072	HKR1_HUMAN	GLI-Kruppel family member HKR1	360	C2H2-type 3.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTATGTGTGCAAGGAATGTGG	0.517													17	85					0	0	0.00499	0	0		G	37853775	G	G	37853775	3	3	60	1	0	0	0	0	1	0	0	0	7210	131	5	3	1092	3	HKR1	19	37853775	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	15698394	37853775	21275208	144	41981											
PSG4	5672	broad.mit.edu	37	chr19	43698670	43698670	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccgtgggttagactcggcGaagcaggacaagtagaggtt	10	7	16	8	3	0	2	0	0	0	2	1	4	0	3	1	4	1	4	1	4	4	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr19:43698670G>A	uc002ovy.2	-	5	1167	c.1065C>T	c.(1063-1065)TTC>TTT	p.F355F	PSG6_uc010xwk.1_Intron|PSG4_uc002owa.2_RNA|PSG4_uc002owb.2_Silent_p.F262F|PSG4_uc002ovz.2_Silent_p.F262F	NM_002780	NP_002771	Q00888	PSG4_HUMAN	pregnancy specific beta-1-glycoprotein 4 isoform	355	Ig-like C2-type 3.				defense response|female pregnancy	extracellular region				ovary(1)	1		Prostate(69;0.00682)				TAGACTCGGCGAAGCAGGACA	0.453													27	241					0	0	0.004656	0	0		A	43698670	A	A	43698670	2	1	60	1	0	0	0	0	0	0	0	1	12679	1049	37	1		1	PSG4	19	43698670	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08	5844895	43698670	15430313	145	41982											
CARD8	22900	broad.mit.edu	37	chr19	48733886	48733886	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagaaaggctccacccgggCtggatgctccaggaccatcc	10	6	11	14	1	0	1	0	0	0	1	3	3	3	3	5	4	1	3	5	4	2	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr19:48733886C>A	uc002pie.3	-	6	839	c.526G>T	c.(526-528)GCC>TCC	p.A176S	CARD8_uc002pii.3_Missense_Mutation_p.A282S|CARD8_uc010xzi.1_Missense_Mutation_p.A177S|CARD8_uc010els.2_Missense_Mutation_p.A215S|CARD8_uc010xzj.1_Missense_Mutation_p.A282S|CARD8_uc010xzk.1_Missense_Mutation_p.A201S|CARD8_uc002pif.3_Missense_Mutation_p.A176S|CARD8_uc002pig.3_Missense_Mutation_p.A7S|CARD8_uc002pih.3_Missense_Mutation_p.A232S|CARD8_uc010xzl.1_Missense_Mutation_p.A232S|CARD8_uc010xzm.1_Missense_Mutation_p.A282S	NM_014959	NP_055774	Q9Y2G2	CARD8_HUMAN	caspase recruitment domain family, member 8	176					negative regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion	cytoplasm|nucleus	caspase activator activity|NACHT domain binding|protein homodimerization activity				0		all_lung(116;0.000112)|Lung NSC(112;0.000192)|all_epithelial(76;0.000349)|all_neural(266;0.0228)|Ovarian(192;0.113)|Prostate(7;0.184)		OV - Ovarian serous cystadenocarcinoma(262;0.000112)|all cancers(93;0.000293)|Epithelial(262;0.0129)|GBM - Glioblastoma multiforme(486;0.0336)		TCCACCCGGGCTGGATGCTCC	0.577													22	111					8.10497e-08	8.96264e-08	0.010504	1	0		A	48733886	A	A	48733886	3	1	60	1	0	0	0	0	1	0	0	0	2654	797	28	5	789	5	CARD8	19	48733886	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	5035216	48733886	10395097	146	41983											
PTOV1	53635	broad.mit.edu	37	chr19	50360274	50360274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatctccccctgtgaggtgCgcgtgctcatgctcctgtac	5	11	10	15	2	2	1	1	1	1	0	4	1	3	1	3	1	4	3	3	1	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr19:50360274C>T	uc002pqf.1	+	6	771	c.601C>T	c.(601-603)CGC>TGC	p.R201C	PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Missense_Mutation_p.R169C|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	201	Interaction with FLOT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		CTGTGAGGTGCGCGTGCTCAT	0.657													13	125					0	0	0.016723	0	0		T	50360274	T	T	50360274	3	4	60	1	0	0	0	0	1	0	0	0	12792	768	27	1	623	1	PTOV1	19	50360274	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	1626388	50360274	8768709	147	41984											
ZNF534	147658	broad.mit.edu	37	chr19	52937331	52937331	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actacaggaacctggtctccCtaggtgaggataatgtccgt	10	10	11	10	1	1	1	0	1	1	0	3	3	2	3	3	4	2	0	3	4	4	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr19:52937331C>G	uc002pzk.2	+	2	200	c.139C>G	c.(139-141)CTA>GTA	p.L47V	ZNF534_uc002pzj.1_Missense_Mutation_p.L47V|ZNF534_uc010epo.1_Missense_Mutation_p.L47V|ZNF534_uc002pzl.2_Missense_Mutation_p.L47V	NM_001143939	NP_001137411	Q76KX8	ZN534_HUMAN	zinc finger protein 534 isoform 2	47	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCTGGTCTCCCTAGGTGAGGA	0.498													12	67					0	0	0.013537	0	0		G	52937331	G	G	52937331	3	3	60	1	0	0	0	0	1	0	0	0	17998	680	24	5	145	5	ZNF534	19	52937331	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	2577057	52937331	6191652	148	41985											
NLRP7	199713	broad.mit.edu	37	chr19	55449462	55449462	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttacgtggtcacaaagaatCcgcacagaagagtcactcag	14	7	10	10	2	3	3	3	0	0	3	4	3	4	3	1	1	1	2	1	1	4	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr19:55449462C>A	uc002qih.3	-	5	2155	c.2079G>T	c.(2077-2079)CGG>CGT	p.R693R	NLRP7_uc002qig.3_Silent_p.R665R|NLRP7_uc002qii.3_Silent_p.R693R|NLRP7_uc010esk.2_Silent_p.R693R|NLRP7_uc010esl.2_Silent_p.R721R	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	693	LRR 2.		R -> W (in HYDM).|R -> P (in HYDM).|R -> Q (in HYDM).				ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CACAAAGAATCCGCACAGAAG	0.468													24	230					3.28513e-13	3.77248e-13	0.021523	1	0		A	55449462	A	A	55449462	2	1	60	1	0	0	0	0	0	0	0	1	10501	842	30	5		5	NLRP7	19	55449462	Silent	SNP	C	TCGA-BR-8080-01A-11D-2340-08	2512131	55449462	3679521	149	41986											
USP29	57663	broad.mit.edu	37	chr19	57641627	57641627	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggtgaagaataacgagcaAgtttatattcccaaatcttt	14	13	7	7	1	1	2	0	1	1	1	2	3	2	2	1	1	2	2	1	1	7	6			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr19:57641627A>G	uc002qny.2	+	4	1940	c.1584A>G	c.(1582-1584)CAA>CAG	p.Q528Q		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	528					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ATAACGAGCAAGTTTATATTC	0.408													19	153					0	0	0.007413	0	0		G	57641627	G	G	57641627	2	3	60	1	0	0	0	0	0	0	0	1	17085	69	3	3		3	USP29	19	57641627	Silent	SNP	A	TCGA-BR-8080-01A-11D-2340-08	2192165	57641627	1487356	150	41987											
ZNF135	7694	broad.mit.edu	37	chr19	58578607	58578607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaatgcttaaaaggcttccGgaacagctcggcacttacca	12	8	9	12	3	0	0	0	0	0	0	2	2	1	1	2	3	4	4	2	3	5	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr19:58578607G>A	uc010yhq.1	+	5	887	c.791G>A	c.(790-792)CGG>CAG	p.R264Q	ZNF135_uc002qre.2_Missense_Mutation_p.R252Q|ZNF135_uc002qrd.1_Missense_Mutation_p.R210Q|ZNF135_uc002qrf.2_Missense_Mutation_p.R210Q|ZNF135_uc002qrg.2_Missense_Mutation_p.R222Q|ZNF135_uc010yhr.1_Missense_Mutation_p.R73Q	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	264					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		AAAGGCTTCCGGAACAGCTCG	0.507													22	100					0	0	0.014323	0	0		A	58578607	A	A	58578607	3	1	60	1	0	0	0	0	1	0	0	0	17750	1116	39	1	958	1	ZNF135	19	58578607	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	936980	58578607	550376	151	41988											
A1BG	1	broad.mit.edu	37	chr19	58862776	58862776	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatcgctcagaatcagctcGaccggcgcgctgtccccgga	7	6	11	17	6	2	1	2	0	0	1	5	3	3	2	4	2	1	3	4	2	1	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr19:58862776G>A	uc002qsd.3	-	5	953	c.891C>T	c.(889-891)GTC>GTT	p.V297V	NCRNA00181_uc002qse.2_Intron|A1BG_uc002qsf.1_RNA|NCRNA00181_uc002qsg.2_5'Flank	NM_130786	NP_570602	P04217	A1BG_HUMAN	alpha 1B-glycoprotein precursor	297	Ig-like V-type 3.					extracellular region					0		all_cancers(17;3.04e-16)|all_epithelial(17;7.77e-12)|Lung NSC(17;3.25e-05)|Colorectal(82;5.46e-05)|all_lung(17;0.000129)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(17;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0269)		GAATCAGCTCGACCGGCGCGC	0.662													8	92					0	0	0.004482	0	0		A	58862776	A	A	58862776	2	1	60	1	0	0	0	0	0	0	0	1	1	1045	37	1		1	A1BG	19	58862776	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08	284169	58862776	266207	152	41989											
PROKR2	128674	broad.mit.edu	37	chr20	5294674	5294674	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggagagctgccgtaccacGtagtagtccatctcgaaggg	10	7	13	11	3	1	1	0	0	1	1	3	3	2	1	3	2	3	4	3	2	4	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr20:5294674G>A	uc010zqw.1	-	1	342	c.342C>T	c.(340-342)TAC>TAT	p.Y114Y	PROKR2_uc010zqx.1_Silent_p.Y114Y|PROKR2_uc010zqy.1_Silent_p.Y114Y|uc002wly.1_5'Flank	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	114	Extracellular (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GCCGTACCACGTAGTAGTCCA	0.582										HNSCC(71;0.22)			6	50					0	0	0.00308	0	0		A	5294674	A	A	5294674	2	1	60	1	0	0	0	0	0	0	0	1	12575	1140	40	1		1	PROKR2	20	5294674	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08		5294674	57730846	153	41990											
DNMT3B	1789	broad.mit.edu	37	chr20	31387101	31387101	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcccgaaggcggcccattCgagtcctgtcattgtttgat	7	11	11	12	3	1	1	1	1	0	0	3	3	2	1	3	2	1	1	3	2	1	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr20:31387101C>T	uc002wyc.2	+	16	2047	c.1726C>T	c.(1726-1728)CGA>TGA	p.R576*	DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Nonsense_Mutation_p.R556*|DNMT3B_uc002wye.2_Nonsense_Mutation_p.R556*|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Nonsense_Mutation_p.R514*|DNMT3B_uc010zua.1_Nonsense_Mutation_p.R480*|DNMT3B_uc002wyf.2_Nonsense_Mutation_p.R568*|DNMT3B_uc002wyg.2_Nonsense_Mutation_p.R275*|DNMT3B_uc010geg.2_5'Flank|DNMT3B_uc010geh.2_5'Flank	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	576					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						GCGGCCCATTCGAGTCCTGTC	0.587													3	19					0	0	0.004672	0	0		T	31387101	T	T	31387101	4	4	60	1	0	0	0	0	0	1	0	0	4683	876	31	1	1824	1	DNMT3B	20	31387101	Nonsense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	26092427	31387101	31638419	154	41991											
DLGAP4	22839	broad.mit.edu	37	chr20	35125434	35125434	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtcccaccccgaggccGcccccaaaaggaaactgtca	11	4	9	17	2	1	1	1	1	0	0	2	3	2	2	6	2	1	0	6	2	3	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr20:35125434G>T	uc002xff.2	+	8	2410	c.1975G>T	c.(1975-1977)GCC>TCC	p.A659S	DLGAP4_uc010zvp.1_Missense_Mutation_p.A659S|DLGAP4_uc002xfg.2_5'UTR|DLGAP4_uc002xfh.2_Missense_Mutation_p.A120S|DLGAP4_uc002xfi.2_5'UTR|DLGAP4_uc002xfj.2_5'Flank	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	659					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				CCCCGAGGCCGCCCCCAAAAG	0.577													4	40					2.56e-06	2.75794e-06	0.009096	1	0		T	35125434	T	T	35125434	3	4	60	1	0	0	0	0	1	0	0	0	4568	1087	38	5	2032	5	DLGAP4	20	35125434	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	3738333	35125434	27900086	155	41992											
ZHX3	23051	broad.mit.edu	37	chr20	39830759	39830759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagctggcctcagggacaCggggctcccacgactcactg	7	6	13	15	2	2	1	2	1	0	0	3	3	3	2	2	4	1	2	2	4	0	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr20:39830759C>T	uc002xjs.1	-	3	3176	c.2798G>A	c.(2797-2799)CGT>CAT	p.R933H	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Intron|ZHX3_uc002xjt.1_Missense_Mutation_p.R933H|ZHX3_uc002xju.1_Missense_Mutation_p.R933H|ZHX3_uc010ggg.1_Missense_Mutation_p.R933H	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	933					negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				CTCAGGGACACGGGGCTCCCA	0.602													14	88					0	0	0.016723	0	0		T	39830759	T	T	39830759	3	4	60	1	0	0	0	0	1	0	0	0	17702	536	19	1	80	1	ZHX3	20	39830759	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	4705325	39830759	23194761	156	41993											
BCAS1	8537	broad.mit.edu	37	chr20	52674669	52674669	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtcgacaccaccactggaaCcccgttcagagcagacgcgt	10	5	11	15	4	1	2	1	0	0	2	2	4	1	3	4	2	2	2	4	2	1	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr20:52674669C>A	uc002xws.2	-	3	435	c.97G>T	c.(97-99)GTT>TTT	p.V33F	BCAS1_uc002xwt.2_Missense_Mutation_p.V33F|BCAS1_uc010gil.1_Missense_Mutation_p.V33F|BCAS1_uc010zzc.1_Intron	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	33						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			ACCACTGGAACCCCGTTCAGA	0.537													5	27					0.000602214	0.000626183	0.014758	1	0		A	52674669	A	A	52674669	3	1	60	1	0	0	0	0	1	0	0	0	1351	507	18	5	1697	5	BCAS1	20	52674669	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	12843910	52674669	10350851	157	41994											
MYH9	4627	broad.mit.edu	37	chr22	36696948	36696948	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcaggtgctggcagcgCtcctcctcctcctccaccct	3	9	9	20	1	0	0	0	0	0	0	5	0	5	0	7	2	3	4	7	2	0	0			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr22:36696948C>A	uc003apg.2	-	22	3018	c.2787G>T	c.(2785-2787)GAG>GAT	p.E929D	MYH9_uc003aph.1_Missense_Mutation_p.E793D	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	929	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GCTGGCAGCGCTCCTCCTCCT	0.667			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				10	72					7.48243e-07	8.23067e-07	0.006214	1	0		A	36696948	A	A	36696948	3	1	60	1	0	0	0	0	1	0	0	0	10060	796	28	5	3175	5	MYH9	22	36696948	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08		36696948	14607618	158	41995											
NAGA	4668	broad.mit.edu	37	chr22	42458989	42458989	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacagggccatctgggcccGggattgctctaagctgagac	8	7	13	13	1	2	1	0	1	2	1	2	3	2	2	3	3	2	2	3	3	1	2	rs138546784		TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chr22:42458989G>A	uc003bbx.2	-	8	936	c.799C>T	c.(799-801)CGG>TGG	p.R267W	NAGA_uc003bby.2_Missense_Mutation_p.R267W|NAGA_uc003bbw.3_Missense_Mutation_p.R267W	NM_000262	NP_000253	P17050	NAGAB_HUMAN	alpha-N-acetylgalactosaminidase precursor	267					glycoside catabolic process|glycosylceramide catabolic process|oligosaccharide metabolic process	lysosome	alpha-galactosidase activity|alpha-N-acetylgalactosaminidase activity|cation binding|protein homodimerization activity			central_nervous_system(1)	1						ATCTGGGCCCGGGATTGCTCT	0.582													4	35					0	0	0.009096	0	0		A	42458989	A	A	42458989	3	1	60	1	0	0	0	0	1	0	0	0	10159	1115	39	1	448	1	NAGA	22	42458989	Missense_Mutation	SNP	G	TCGA-BR-8080-01A-11D-2340-08	5762041	42458989	8845577	159	41996											
ARSD	414	broad.mit.edu	37	chrX	2826865	2826866	+	Missense_Mutation	DNP	GC	AT	AT																															ccctgcagcaagggtaccagGctgtggccatcaatcaccct																										TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chrX:2826865_2826866GC>AT	uc004cqy.2	-	9	1392_1393	c.1316_1317GC>AT	c.(1315-1317)AGC>AAT	p.S439N	ARSD_uc004cqz.1_Intron	NM_001669	NP_001660	P51689	ARSD_HUMAN	arylsulfatase D isoform a precursor	439						lysosome	arylsulfatase activity|metal ion binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AGGGTACCAGGCTGTGGCCATC	0.535													6	32					0	0	0.004672	0	0		AT	2826866	AT	AT	2826865	3	1	60	1	0	0	0	0	1	0	0	0	990	1194	42	2	472	2	ARSD	23	2826865	Missense_Mutation	DNP	GC	TCGA-BR-8080-01A-11D-2340-08		2826865	152443695	160	41997											
DMD	1756	broad.mit.edu	37	chrX	31515045	31515045	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcttccactggtcagaacTggcttccaaatgggacctga	10	9	10	12	1	1	2	1	1	0	1	3	3	3	3	3	3	1	2	3	3	2	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chrX:31515045T>C	uc004dda.1	-	57	8651	c.8407A>G	c.(8407-8409)AGT>GGT	p.S2803G	DMD_uc004dcq.1_Missense_Mutation_p.S74G|DMD_uc004dcr.1_Missense_Mutation_p.S343G|DMD_uc004dcs.1_Missense_Mutation_p.S343G|DMD_uc004dct.1_Missense_Mutation_p.S343G|DMD_uc004dcu.1_Missense_Mutation_p.S343G|DMD_uc004dcv.1_Missense_Mutation_p.S343G|DMD_uc004dcw.2_Missense_Mutation_p.S1459G|DMD_uc004dcx.2_Missense_Mutation_p.S1462G|DMD_uc004dcz.2_Missense_Mutation_p.S2680G|DMD_uc004dcy.1_Missense_Mutation_p.S2799G|DMD_uc004ddb.1_Missense_Mutation_p.S2795G	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2803					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGGTCAGAACTGGCTTCCAAA	0.438													4	17					0	0	0.009096	0	0		C	31515045	C	C	31515045	3	2	60	1	0	0	0	0	1	0	0	0	4586	1580	55	3	2856	3	DMD	23	31515045	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	28688180	31515045	123755515	161	41998											
FAM47A	158724	broad.mit.edu	37	chrX	34149532	34149532	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccaggctctgtgggttcGtcagttgtcttctcccggcc	3	14	11	13	2	4	0	1	0	3	0	6	0	4	0	3	3	1	3	3	3	1	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chrX:34149532G>A	uc004ddg.2	-	1	897	c.864C>T	c.(862-864)GAC>GAT	p.D288D		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	288										ovary(4)|central_nervous_system(1)	5						CTGTGGGTTCGTCAGTTGTCT	0.577													4	30					0	0	0.009096	0	0		A	34149532	A	A	34149532	2	1	60	1	0	0	0	0	0	0	0	1	5583	1136	40	1		1	FAM47A	23	34149532	Silent	SNP	G	TCGA-BR-8080-01A-11D-2340-08	2634487	34149532	121121028	162	41999											
ALAS2	212	broad.mit.edu	37	chrX	55052271	55052271	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acctcctccagcctttgttgCcttaaggtggatttgagaac	8	13	9	11	0	0	1	0	1	0	1	2	3	2	2	5	2	3	1	5	2	2	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chrX:55052271C>T	uc004dua.3	-	2	301	c.163G>A	c.(163-165)GCA>ACA	p.A55T	ALAS2_uc004dub.3_Missense_Mutation_p.A79T|ALAS2_uc004dud.3_Missense_Mutation_p.A55T	NM_000032	NP_000023	P22557	HEM0_HUMAN	5-aminolevulinate synthase 2 isoform a	55					cellular iron ion homeostasis|erythrocyte differentiation|heme biosynthetic process|hemoglobin biosynthetic process|oxygen homeostasis|response to hypoxia	mitochondrial inner membrane|mitochondrial matrix	5-aminolevulinate synthase activity|coenzyme binding|glycine binding|protein binding|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(1)	1					Glycine(DB00145)	GCCTTTGTTGCCTTAAGGTGG	0.493													7	63					0	0	0.001984	0	0		T	55052271	T	T	55052271	3	4	60	1	0	0	0	0	1	0	0	0	485	739	26	2	1640	2	ALAS2	23	55052271	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	20902739	55052271	100218289	163	42000											
TCEAL6	158931	broad.mit.edu	37	chrX	101395818	101395818	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatctctttgcatccaatgAaaaccacccattttctgttt	11	15	3	12	0	2	1	0	1	2	0	4	1	3	1	3	0	2	2	3	0	3	4			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chrX:101395818A>G	uc004eiq.2	-	3	647	c.486T>C	c.(484-486)TTT>TTC	p.F162F		NM_001006938	NP_001006939	Q6IPX3	TCAL6_HUMAN	transcription elongation factor A (SII)-like 6	162					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						GCATCCAATGAAAACCACCCA	0.512													9	67					0	0	0.013537	0	0		G	101395818	G	G	101395818	2	3	60	1	0	0	0	0	0	0	0	1	15700	243	9	3		3	TCEAL6	23	101395818	Silent	SNP	A	TCGA-BR-8080-01A-11D-2340-08	46343547	101395818	53874742	164	42001											
RAB40A	142684	broad.mit.edu	37	chrX	102755054	102755054	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtactggggagcgggagctTgtccaccagatgcacaggtg	8	7	17	9	1	0	1	0	0	0	1	1	3	1	3	2	5	4	3	2	5	1	2			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chrX:102755054T>C	uc004ekk.2	-	3	973	c.631A>G	c.(631-633)AAG>GAG	p.K211E		NM_080879	NP_543155	Q8WXH6	RB40A_HUMAN	RAB40A, member RAS oncogene family	211	SOCS box.				protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0						AGCGGGAGCTTGTCCACCAGA	0.587													15	71					0	0	0.004007	0	0		C	102755054	C	C	102755054	3	2	60	1	0	0	0	0	1	0	0	0	12964	1821	63	3	206	3	RAB40A	23	102755054	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	1359236	102755054	52515506	165	42002											
TRPC5	7224	broad.mit.edu	37	chrX	111155645	111155645	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttccctggagctccgagcTtggtccagcaggtctttggc	5	11	13	12	1	1	0	0	0	1	0	4	2	4	1	3	4	3	4	3	4	0	3			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chrX:111155645T>G	uc004epl.1	-	3	1693	c.774A>C	c.(772-774)CAA>CAC	p.Q258H	TRPC5_uc004epm.1_Missense_Mutation_p.Q258H	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	258	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						AGCTCCGAGCTTGGTCCAGCA	0.542													12	138					0	0	0.010729	0	0		G	111155645	G	G	111155645	3	3	60	1	0	0	0	0	1	0	0	0	16608	1606	56	5	2183	5	TRPC5	23	111155645	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	8400591	111155645	44114915	166	42003											
SLITRK4	139065	broad.mit.edu	37	chrX	142716880	142716880	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggaatgaaagcttctgtgCtcagtccatcttttttattg	8	17	9	7	0	3	1	1	1	2	0	4	2	4	2	1	1	2	2	1	1	3	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chrX:142716880C>A	uc004fbx.2	-	2	2421	c.2045G>T	c.(2044-2046)AGC>ATC	p.S682I	SLITRK4_uc004fby.2_Missense_Mutation_p.S682I	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	682	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					AGCTTCTGTGCTCAGTCCATC	0.473													25	158					5.35356e-11	6.11417e-11	0.016522	1	0		A	142716880	A	A	142716880	3	1	60	1	0	0	0	0	1	0	0	0	14770	797	28	5	472	5	SLITRK4	23	142716880	Missense_Mutation	SNP	C	TCGA-BR-8080-01A-11D-2340-08	31561235	142716880	12553680	167	42004											
FMR1NB	158521	broad.mit.edu	37	chrX	147088343	147088343	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaccacgagcttcaaatgTtttgctccatttagagatgg	10	12	11	8	1	1	1	1	0	0	1	2	4	2	2	2	2	2	3	2	2	2	5			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chrX:147088343T>G	uc004fcm.2	+	3	593	c.519T>G	c.(517-519)TGT>TGG	p.C173W		NM_152578	NP_689791	Q8N0W7	FMR1N_HUMAN	fragile X mental retardation 1 neighbor	173	P-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					GCTTCAAATGTTTTGCTCCAT	0.348													13	97					0	0	0.013537	0	0		G	147088343	G	G	147088343	3	3	60	1	0	0	0	0	1	0	0	0	5975	1731	60	5	529	5	FMR1NB	23	147088343	Missense_Mutation	SNP	T	TCGA-BR-8080-01A-11D-2340-08	4371463	147088343	8182217	168	42005											
CNGA2	1260	broad.mit.edu	37	chrX	150912264	150912264	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatgagcgagaaattctcaAgaatctgccagccaagctca	14	7	10	10	1	3	3	2	1	2	2	4	5	3	4	2	1	4	1	2	1	4	1			TCGA-BR-8080-01A-11D-2340-08	TCGA-BR-8080-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e4058de-9986-4dfe-b5f8-2503d0346e2e	b3aac2f9-d2de-4398-a22c-4b4a2509e824	g.chrX:150912264A>G	uc004fey.1	+	7	1513	c.1289A>G	c.(1288-1290)AAG>AGG	p.K430R		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	430	Extracellular (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GAAATTCTCAAGAATCTGCCA	0.498													15	51					0	0	0.003163	0	0		G	150912264	G	G	150912264	3	3	60	1	0	0	0	0	1	0	0	0	3600	72	3	3	1311	3	CNGA2	23	150912264	Missense_Mutation	SNP	A	TCGA-BR-8080-01A-11D-2340-08	3823921	150912264	4358296	169	42006											
MXRA8	54587	broad.mit.edu	37	chr1	1289837	1289837	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgctggaagaagtgggctcgGctctcggggacgatgacatt	8	9	16	8	3	1	2	0	1	1	1	3	5	1	4	0	5	1	3	0	5	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:1289837G>A	uc001aew.2	-	6	1033	c.1002C>T	c.(1000-1002)AGC>AGT	p.S334S	MXRA8_uc001aex.3_Silent_p.S334S|MXRA8_uc001aey.3_Silent_p.S334S|MXRA8_uc010nyl.1_Silent_p.S334S|MXRA8_uc001aez.2_Silent_p.S233S|MXRA8_uc001afa.2_Silent_p.S325S	NM_032348	NP_115724	Q9BRK3	MXRA8_HUMAN	matrix-remodelling associated 8 precursor	334	Extracellular (Potential).					integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		AGTGGGCTCGGCTCTCGGGGA	0.682													6	45					0	0	0.001168	0	0		A	1289837	A	A	1289837	2	1	61	1	0	0	0	0	0	0	0	1	10023	1194	42	2		2	MXRA8	1	1289837	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08		1289837	247960784	1	42007											
CCNL2	81669	broad.mit.edu	37	chr1	1328774	1328774	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacaaggaagctcaactcAccatgaggtctggaccaggt	15	6	10	10	0	3	1	2	1	1	0	3	3	3	3	2	4	3	1	2	4	5	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:1328774A>G	uc001afi.2	-	5	691	c.659_splice	c.e5+1	p.W220_splice	CCNL2_uc010nym.1_5'Flank|CCNL2_uc001aff.1_5'Flank|CCNL2_uc001afg.1_Splice_Site|CCNL2_uc001afh.2_Splice_Site_p.W220_splice|CCNL2_uc001afj.2_Splice_Site_p.W220_splice|CCNL2_uc001afk.2_Splice_Site_p.W220_splice	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A						regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		AGCTCAACTCACCATGAGGTC	0.498													13	80					0	0	0.001855	0	0		G	1328774	G	G	1328774	5	3	61	1	0	0	0	0	0	0	1	0	2935	173	6	3	955	3	CCNL2	1	1328774	Splice_Site	SNP	A	TCGA-BR-8081-01A-11D-2340-08	38937	1328774	247921847	2	42008											
ACTRT2	140625	broad.mit.edu	37	chr1	2939080	2939080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagccagagccccgggctctCgaatatggtctccagcagca	9	6	11	15	2	2	1	0	0	2	1	4	2	2	1	4	2	4	3	4	2	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:2939080C>T	uc001ajz.2	+	1	1035	c.830C>T	c.(829-831)TCG>TTG	p.S277L		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	277						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		CCCGGGCTCTCGAATATGGTC	0.642													22	92					0	0	0.00333	0	0		T	2939080	T	T	2939080	3	4	61	1	0	0	0	0	1	0	0	0	219	893	31	1	832	1	ACTRT2	1	2939080	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1610306	2939080	246311541	3	42009											
ARHGEF16	27237	broad.mit.edu	37	chr1	3390004	3390004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgagagagattgagaggcGgccggcgtgcgggggcctgc	6	5	20	10	4	0	3	0	2	0	3	0	6	0	3	3	5	2	0	3	5	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:3390004G>A	uc001akg.3	+	8	1471	c.1223G>A	c.(1222-1224)CGG>CAG	p.R408Q	ARHGEF16_uc001aki.2_Missense_Mutation_p.R120Q|ARHGEF16_uc001akj.2_Missense_Mutation_p.R120Q|ARHGEF16_uc009vli.1_Missense_Mutation_p.R112Q|ARHGEF16_uc010nzh.1_Missense_Mutation_p.R112Q	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	408	DH.|Required for RHOG activation and mediates interaction with EPHA2.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		ATTGAGAGGCGGCCGGCGTGC	0.647													20	61					0	0	0.010504	0	0		A	3390004	A	A	3390004	3	1	61	1	0	0	0	0	1	0	0	0	899	1116	39	1	1249	1	ARHGEF16	1	3390004	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	450924	3390004	245860617	4	42010											
CHD5	26038	broad.mit.edu	37	chr1	6215730	6215730	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgagaacaggtagtccacGtcgtccaggccccactcggc	8	6	11	16	4	0	1	0	0	0	1	5	2	3	1	5	3	1	1	5	3	2	1	rs140138233		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:6215730G>A	uc001amb.1	-	4	535	c.435C>T	c.(433-435)GAC>GAT	p.D145D		NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	145					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		GGTAGTCCACGTCGTCCAGGC	0.617													10	42					0	0	0.008291	0	0		A	6215730	A	A	6215730	2	1	61	1	0	0	0	0	0	0	0	1	3331	1136	40	1		1	CHD5	1	6215730	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2825726	6215730	243034891	5	42011											
NOL9	79707	broad.mit.edu	37	chr1	6585974	6585974	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctttatgtgcctcctcAggttctcttgctccaatttt	4	20	5	12	0	3	0	1	0	2	0	7	0	5	0	3	1	2	2	3	1	2	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:6585974A>G	uc001ans.2	-	12	2068	c.2049T>C	c.(2047-2049)CCT>CCC	p.P683P	NOL9_uc010nzs.1_RNA	NM_024654	NP_078930	Q5SY16	NOL9_HUMAN	nucleolar protein 9	683					maturation of 5.8S rRNA	nucleolus	ATP binding|polynucleotide 5'-hydroxyl-kinase activity|RNA binding			skin(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;2.46e-35)|all_epithelial(116;1.41e-22)|all_lung(118;7.59e-07)|Lung NSC(185;4.28e-06)|Colorectal(325;4.52e-05)|Breast(487;0.000353)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.47e-07)|COAD - Colon adenocarcinoma(227;1.47e-05)|Kidney(185;5.27e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|BRCA - Breast invasive adenocarcinoma(365;0.00113)|STAD - Stomach adenocarcinoma(132;0.0017)|READ - Rectum adenocarcinoma(331;0.0649)		GTGCCTCCTCAGGTTCTCTTG	0.423													29	117					0	0	0.007291	0	0		G	6585974	G	G	6585974	2	3	61	1	0	0	0	0	0	0	0	1	10547	175	7	3		3	NOL9	1	6585974	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	370244	6585974	242664647	6	42012											
THAP3	90326	broad.mit.edu	37	chr1	6692557	6692557	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaaggccacgtaaaacaggTaagactgagtgcaaaggtgg	15	5	14	7	2	0	2	0	1	0	1	0	3	0	2	1	4	2	3	1	4	5	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:6692557T>C	uc001aoc.2	+	5	597	c.438_splice	c.e5+2	p.Q146_splice	THAP3_uc001aod.2_Splice_Site_p.Q145_splice|THAP3_uc001aoe.1_Splice_Site_p.Q153_splice			Q8WTV1	THAP3_HUMAN	RecName: Full=THAP domain-containing protein 3;								DNA binding|metal ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		GTAAAACAGGTAAGACTGAGT	0.547													5	29					0	0	0.001168	0	0		C	6692557	C	C	6692557	5	2	61	1	0	0	0	0	0	0	1	0	15870	1652	57	3	475	3	THAP3	1	6692557	Splice_Site	SNP	T	TCGA-BR-8081-01A-11D-2340-08	106583	6692557	242558064	7	42013											
PIK3CD	5293	broad.mit.edu	37	chr1	9780209	9780209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaccccacgggcactgtgcGcagtaaccccaacacggata	12	4	10	15	3	0	0	0	0	0	0	0	2	0	1	4	2	4	3	4	2	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:9780209G>A	uc001aqb.3	+	11	1587	c.1379G>A	c.(1378-1380)CGC>CAC	p.R460H	PIK3CD_uc010oaf.1_Missense_Mutation_p.R460H|PIK3CD_uc001aqe.3_Missense_Mutation_p.R425H	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	460					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		GGCACTGTGCGCAGTAACCCC	0.637													11	45					0	0	0.010729	0	0		A	9780209	A	A	9780209	3	1	61	1	0	0	0	0	1	0	0	0	11934	1087	38	1	1413	1	PIK3CD	1	9780209	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3087652	9780209	239470412	8	42014											
KIF1B	23095	broad.mit.edu	37	chr1	10318557	10318557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttactctttacagcccgaaGatccctgttttgcatctcaa	9	15	5	12	1	2	1	1	0	2	1	4	2	3	1	2	0	4	2	2	0	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:10318557G>A	uc001aqx.3	+	4	392	c.190G>A	c.(190-192)GAT>AAT	p.D64N	KIF1B_uc001aqv.3_Missense_Mutation_p.D64N|KIF1B_uc001aqw.3_Missense_Mutation_p.D64N|KIF1B_uc001aqy.2_Missense_Mutation_p.D64N|KIF1B_uc001aqz.2_Missense_Mutation_p.D64N|KIF1B_uc001ara.2_Missense_Mutation_p.D64N|KIF1B_uc001arb.2_Missense_Mutation_p.D64N|KIF1B_uc009vmt.2_RNA	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	64	Kinesin-motor.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		ACAGCCCGAAGATCCCTGTTT	0.358													10	53					0	0	0.008291	0	0		A	10318557	A	A	10318557	3	1	61	1	0	0	0	0	1	0	0	0	8300	942	33	4	200	4	KIF1B	1	10318557	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	538348	10318557	238932064	9	42015											
PTCHD2	57540	broad.mit.edu	37	chr1	11579854	11579854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctccaacacgggcagccGcggccatctcatcgtgcagc	8	5	11	17	4	1	0	1	0	1	0	4	0	2	0	4	2	5	2	4	2	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:11579854G>A	uc001ash.3	+	9	2255	c.2117G>A	c.(2116-2118)CGC>CAC	p.R706H	PTCHD2_uc001asi.1_Missense_Mutation_p.R706H	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	706	Cytoplasmic (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		ACGGGCAGCCGCGGCCATCTC	0.667													11	73					0	0	0.010729	0	0		A	11579854	A	A	11579854	3	1	61	1	0	0	0	0	1	0	0	0	12755	1087	38	1	2147	1	PTCHD2	1	11579854	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1261297	11579854	237670767	10	42016											
FBXO44	93611	broad.mit.edu	37	chr1	11718602	11718602	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccagcacctgcctcaaGtcccaggtggtggacctcaa	8	6	10	17	0	2	0	2	0	0	0	3	1	3	1	6	3	2	1	6	3	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:11718602G>A	uc001asm.2	+	4	531	c.405G>A	c.(403-405)AAG>AAA	p.K135K	FBXO44_uc001ask.2_Intron|FBXO44_uc010oaq.1_3'UTR|FBXO44_uc001asl.2_Silent_p.K135K|FBXO44_uc001asn.2_Intron|FBXO44_uc010oar.1_Missense_Mutation_p.V126I|FBXO44_uc010oas.1_Intron	NM_033182	NP_149438	Q9H4M3	FBX44_HUMAN	F-box protein 44 isoform 1	135	FBA.				protein catabolic process	SCF ubiquitin ligase complex	protein binding			ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.41e-06)|COAD - Colon adenocarcinoma(227;0.000255)|BRCA - Breast invasive adenocarcinoma(304;0.0003)|Kidney(185;0.000758)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		CCTGCCTCAAGTCCCAGGTGG	0.657													14	30					0	0	0.001855	0	0		A	11718602	A	A	11718602	2	1	61	1	0	0	0	0	0	0	0	1	5767	1020	36	4		4	FBXO44	1	11718602	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	138748	11718602	237532019	11	42017											
VPS13D	55187	broad.mit.edu	37	chr1	12405567	12405567	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaattcatcttcctctacgGtgtgtgacattcaggaagtc	11	13	8	9	1	4	1	2	1	2	0	6	2	5	2	1	2	1	0	1	2	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:12405567G>A	uc001atv.2	+	43	9162	c.9021_splice	c.e43+1	p.T3007_splice	VPS13D_uc001atw.2_Splice_Site_p.T2982_splice|VPS13D_uc001atx.2_Splice_Site_p.T2194_splice	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1						protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TTCCTCTACGGTGTGTGACAT	0.433													20	58					0	0	0.007413	0	0		A	12405567	A	A	12405567	5	1	61	1	0	0	0	0	0	0	1	0	17218	1275	44	4	9188	4	VPS13D	1	12405567	Splice_Site	SNP	G	TCGA-BR-8081-01A-11D-2340-08	686965	12405567	236845054	12	42018											
LOC440563	440563	broad.mit.edu	37	chr1	13183433	13183433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaggtgtttcctgatatgCgctggtgtttcgagggcact	5	14	15	7	2	0	2	0	2	0	0	2	3	1	2	1	3	1	4	1	3	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:13183433C>T	uc010obg.1	-	1	535	c.440G>A	c.(439-441)CGC>CAC	p.R147H		NM_001136561	NP_001130033	B2RXH8	B2RXH8_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	147						ribonucleoprotein complex	nucleic acid binding|nucleotide binding				0						TCCTGATATGCGCTGGTGTTT	0.502													32	381					0	0	0.009535	0	0		T	13183433	T	T	13183433	3	4	61	1	0	0	0	0	1	0	0	0	8897	768	27	1	445	1	LOC440563	1	13183433	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	777866	13183433	236067188	13	42019											
PRDM2	7799	broad.mit.edu	37	chr1	14105136	14105136	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggatgaagaagaagaagaAgatgatgatgatgatgagtt	18	8	15	0	0	0	11	0	6	0	5	0	13	0	12	0	1	0	1	0	1	5	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:14105136A>T	uc001avi.2	+	8	1702	c.846A>T	c.(844-846)GAA>GAT	p.E282D	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.E282D|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.E39D|PRDM2_uc001avk.2_Missense_Mutation_p.E81D|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	282	Asp/Glu-rich (acidic).			EDEEEEEDDDDDELEDEG -> VGGGGGVVVVVSWKARGE (in Ref. 4; AAA87023).		Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		aagaagaagaagatgatgatg	0.259													7	37					0	0	0.001984	0	0		T	14105136	T	T	14105136	3	4	61	1	0	0	0	0	1	0	0	0	12480	69	3	5	872	5	PRDM2	1	14105136	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	921703	14105136	235145485	14	42020											
SPEN	23013	broad.mit.edu	37	chr1	16259385	16259385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtgaaacagagctggctgCggccatcggctccatcatca	11	7	11	12	2	2	2	2	1	0	1	4	2	3	2	2	3	3	3	2	3	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:16259385C>T	uc001axk.1	+	11	6854	c.6650C>T	c.(6649-6651)GCG>GTG	p.A2217V	SPEN_uc010obp.1_Missense_Mutation_p.A2176V	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2217	RID.|Interaction with MSX2 (By similarity).				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GAGCTGGCTGCGGCCATCGGC	0.577													11	72					0	0	0.008291	0	0		T	16259385	T	T	16259385	3	4	61	1	0	0	0	0	1	0	0	0	15063	768	27	1	6692	1	SPEN	1	16259385	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2154249	16259385	232991236	15	42021											
PADI3	51702	broad.mit.edu	37	chr1	17601227	17601227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcagccctccagtggtggCcaatgggaaagagtaccccc	9	6	13	13	0	1	1	1	0	0	1	2	2	2	2	5	4	2	1	5	4	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:17601227C>T	uc001bai.2	+	11	1293	c.1253C>T	c.(1252-1254)GCC>GTC	p.A418V		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	418					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	CCAGTGGTGGCCAATGGGAAA	0.607											OREG0013148	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	16					0	0	0.009096	0	0		T	17601227	T	T	17601227	3	4	61	1	0	0	0	0	1	0	0	0	11398	739	26	2	1295	2	PADI3	1	17601227	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1341842	17601227	231649394	16	42022											
PADI3	51702	broad.mit.edu	37	chr1	17609502	17609502	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccataccacatgctgcaTggggaggtgcactgtggcac	9	8	12	12	0	0	0	0	0	0	0	1	1	1	1	2	4	4	4	2	4	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:17609502T>C	uc001bai.2	+	16	1963	c.1923T>C	c.(1921-1923)CAT>CAC	p.H641H		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	641					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	ACATGCTGCATGGGGAGGTGC	0.592													6	38					0	0	0.001168	0	0		C	17609502	C	C	17609502	2	2	61	1	0	0	0	0	0	0	0	1	11398	1461	51	3		3	PADI3	1	17609502	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	8275	17609502	231641119	17	42023											
PADI6	353238	broad.mit.edu	37	chr1	17727905	17727905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatccgccgggtgccctttGccttcaaatggtggaagatg	8	10	12	11	2	1	1	1	0	0	1	2	2	2	2	4	3	2	0	4	3	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:17727905G>A	uc001bak.1	+	17	2056	c.2056G>A	c.(2056-2058)GCC>ACC	p.A686T		NM_207421	NP_997304	Q6TGC4	PADI6_HUMAN	peptidylarginine deiminase type 6	678				A -> T (in Ref. 1; AAR38850).	peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;7.59e-06)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.0134)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	GGTGCCCTTTGCCTTCAAATG	0.572													5	21					0	0	0.000602	0	0		A	17727905	A	A	17727905	3	1	61	1	0	0	0	0	1	0	0	0	11400	1319	46	2	2119	2	PADI6	1	17727905	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	118403	17727905	231522716	18	42024											
UBR4	23352	broad.mit.edu	37	chr1	19467976	19467976	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggggagaggggttgcCattgttgacattttcagctg	7	12	14	8	0	1	2	1	1	0	1	2	3	2	2	2	4	2	3	2	4	0	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:19467976C>A	uc001bbi.2	-	57	8357	c.8353G>T	c.(8353-8355)GGC>TGC	p.G2785C	UBR4_uc001bbk.1_Missense_Mutation_p.G467C	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2785					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GAGGGGTTGCCATTGTTGACA	0.557													10	50					6.40141e-05	6.75882e-05	0.010729	1	0		A	19467976	A	A	19467976	3	1	61	1	0	0	0	0	1	0	0	0	16930	594	21	5	7398	5	UBR4	1	19467976	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1740071	19467976	229782645	19	42025											
UBR4	23352	broad.mit.edu	37	chr1	19488197	19488197	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacactgtgcagacacccacGccatccaccattttacaggt	11	8	6	16	1	0	1	0	0	0	1	1	1	1	1	4	1	2	1	4	1	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:19488197G>A	uc001bbi.2	-	37	5065	c.5061C>T	c.(5059-5061)GGC>GGT	p.G1687G	UBR4_uc001bbm.1_Silent_p.G898G	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	1687	UBR-type.				interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		AGACACCCACGCCATCCACCA	0.483													5	36					0	0	0.000602	0	0		A	19488197	A	A	19488197	2	1	61	1	0	0	0	0	0	0	0	1	16930	1074	38	1		1	UBR4	1	19488197	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	20221	19488197	229762424	20	42026											
PQLC2	54896	broad.mit.edu	37	chr1	19652849	19652849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagggaagccttccgggggCgggcgctcctgtccgtggag	4	7	18	12	4	0	0	0	0	0	0	3	2	3	2	4	5	1	1	4	5	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:19652849C>T	uc001bby.2	+	6	845	c.493C>T	c.(493-495)CGG>TGG	p.R165W	PQLC2_uc001bbz.2_Missense_Mutation_p.R100W|PQLC2_uc001bca.2_Missense_Mutation_p.R165W|PQLC2_uc001bcb.2_Missense_Mutation_p.R54W|PQLC2_uc001bcc.2_Missense_Mutation_p.R54W	NM_017765	NP_060235	Q6ZP29	PQLC2_HUMAN	PQ loop repeat containing 2 isoform 1	165	Extracellular (Potential).					integral to membrane					0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;1.89e-05)|Kidney(64;0.000177)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CTTCCGGGGGCGGGCGCTCCT	0.692													3	9					0	0	0.004672	0	0		T	19652849	T	T	19652849	3	4	61	1	0	0	0	0	1	0	0	0	12441	759	27	1	507	1	PQLC2	1	19652849	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	164652	19652849	229597772	21	42027											
HP1BP3	50809	broad.mit.edu	37	chr1	21097459	21097459	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatttaattctcttttcagTgcttgtttaaggagataacc	10	18	6	7	0	2	1	1	0	1	1	3	2	2	1	1	1	2	2	1	1	4	10			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:21097459T>C	uc001bdw.1	-	6	758	c.618A>G	c.(616-618)GCA>GCG	p.A206A	HP1BP3_uc001bdv.1_Silent_p.A168A|HP1BP3_uc010odh.1_Silent_p.A168A|HP1BP3_uc001bdy.1_Silent_p.A206A|HP1BP3_uc001bdz.2_RNA|HP1BP3_uc001bea.2_Silent_p.A205A|HP1BP3_uc010odg.1_Silent_p.A54A	NM_016287	NP_057371	Q5SSJ5	HP1B3_HUMAN	HP1-BP74	206	H15 1.				nucleosome assembly	nucleosome|nucleus	DNA binding			central_nervous_system(1)|skin(1)	2		all_lung(284;6.55e-06)|Lung NSC(340;6.59e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.26e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00015)|GBM - Glioblastoma multiforme(114;0.000521)|Kidney(64;0.000529)|STAD - Stomach adenocarcinoma(196;0.00311)|KIRC - Kidney renal clear cell carcinoma(64;0.00687)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.201)		CTCTTTTCAGTGCTTGTTTAA	0.368													10	50					0	0	0.006214	0	0		C	21097459	C	C	21097459	2	2	61	1	0	0	0	0	0	0	0	1	7344	1683	59	3		3	HP1BP3	1	21097459	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	1444610	21097459	228153162	22	42028											
LDLRAD2	401944	broad.mit.edu	37	chr1	22140919	22140919	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggaactgtgcgggcagacGtggcagggggacgggctgct	6	5	21	9	4	0	1	0	0	0	1	0	3	0	3	0	6	3	4	0	6	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:22140919G>A	uc001bfg.1	+	2	301	c.114G>A	c.(112-114)ACG>ACA	p.T38T		NM_001013693	NP_001013715	Q5SZI1	LRAD2_HUMAN	low density lipoprotein receptor class A domain	38	Extracellular (Potential).					integral to membrane	receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.00166)|all_lung(284;0.00172)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;5.2e-26)|COAD - Colon adenocarcinoma(152;1.13e-05)|GBM - Glioblastoma multiforme(114;1.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00598)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)		GCGGGCAGACGTGGCAGGGGG	0.468													6	27					0	0	0.001168	0	0		A	22140919	A	A	22140919	2	1	61	1	0	0	0	0	0	0	0	1	8722	1132	40	1		1	LDLRAD2	1	22140919	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1043460	22140919	227109702	23	42029											
HSPG2	3339	broad.mit.edu	37	chr1	22188329	22188329	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggctctcacaggtgcGggaaaacctgggatcgggga	9	6	15	11	2	1	0	1	0	1	0	4	3	2	3	2	6	2	1	2	6	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:22188329G>T	uc001bfj.2	-	39	4916	c.4876C>A	c.(4876-4878)CGC>AGC	p.R1626S	HSPG2_uc009vqd.2_Missense_Mutation_p.R1627S	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	1626	Laminin EGF-like 11.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TCACAGGTGCGGGAAAACCTG	0.587													4	17					0.00024832	0.000259853	0.009096	1	0		T	22188329	T	T	22188329	3	4	61	1	0	0	0	0	1	0	0	0	7446	1116	39	5	8535	5	HSPG2	1	22188329	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	47410	22188329	227062292	24	42030											
ASAP3	55616	broad.mit.edu	37	chr1	23758199	23758199	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaccaacctgaatctgaCggggaggtacatctccgaag	11	7	10	13	2	3	2	1	2	2	0	4	4	3	3	4	3	2	1	4	3	4	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:23758199C>T	uc001bha.2	-	23	2660	c.2536G>A	c.(2536-2538)GTC>ATC	p.V846I	ASAP3_uc001bgy.1_Missense_Mutation_p.V350I|ASAP3_uc001bgz.1_RNA|ASAP3_uc010odz.1_Missense_Mutation_p.V736I|ASAP3_uc010oea.1_Missense_Mutation_p.V837I|ASAP3_uc001bhb.2_Intron	NM_017707	NP_060177	Q8TDY4	ASAP3_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	846					regulation of ARF GTPase activity	cytoplasm	ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						CTGAATCTGACGGGGAGGTAC	0.398													20	65					0	0	0.010504	0	0		T	23758199	T	T	23758199	3	4	61	1	0	0	0	0	1	0	0	0	1013	536	19	1	187	1	ASAP3	1	23758199	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1569870	23758199	225492422	25	42031											
C1orf63	57035	broad.mit.edu	37	chr1	25571717	25571717	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggaacagttctgagactaGctggcaagtcaatgttggtt	12	11	12	6	0	2	1	1	1	1	1	2	3	2	2	0	3	2	5	0	3	5	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:25571717G>T	uc001bjw.2	-	3	848	c.596C>A	c.(595-597)GCT>GAT	p.A199D		NM_020317	NP_064713	Q9BUV0	CA063_HUMAN	hypothetical protein LOC57035	199										pancreas(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.9e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000333)|BRCA - Breast invasive adenocarcinoma(304;0.000443)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000932)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TCTGAGACTAGCTGGCAAGTC	0.398													14	68					0.000219431	0.00022985	0.00245	1	0		T	25571717	T	T	25571717	3	4	61	1	0	0	0	0	1	0	0	0	2056	971	34	5	288	5	C1orf63	1	25571717	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1813518	25571717	223678904	26	42032											
MAP3K6	9064	broad.mit.edu	37	chr1	27687240	27687240	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgatggcgatgcgcaccctCgtgtggcgatcgcggcccgc	4	8	15	14	7	0	1	0	1	0	0	2	3	0	1	2	3	1	1	2	3	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:27687240C>T	uc001bny.1	-	15	2259	c.2010G>A	c.(2008-2010)ACG>ACA	p.T670T	MAP3K6_uc009vsw.1_Silent_p.T662T|MAP3K6_uc001bnz.1_Silent_p.T193T	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	670	Protein kinase.				activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		TGCGCACCCTCGTGTGGCGAT	0.701													3	17					0	0	0.009096	0	0		T	27687240	T	T	27687240	2	4	61	1	0	0	0	0	0	0	0	1	9272	871	31	1		1	MAP3K6	1	27687240	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2115523	27687240	221563381	27	42033											
MATN1	4146	broad.mit.edu	37	chr1	31189718	31189718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accgggggagctgatgcacaCctgctcacagtcatggtccc	8	7	12	14	1	2	1	2	1	0	0	3	2	3	2	3	3	3	3	3	3	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:31189718C>T	uc001brz.2	-	4	743	c.709G>A	c.(709-711)GTG>ATG	p.V237M	uc001bsb.1_5'Flank|MATN1_uc001bsa.1_Missense_Mutation_p.V155M	NM_002379	NP_002370	P21941	MATN1_HUMAN	matrilin 1, cartilage matrix protein precursor	237	EGF-like.				protein complex assembly	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			central_nervous_system(1)	1		Colorectal(325;0.00792)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)|Ovarian(437;0.0563)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-05)|COAD - Colon adenocarcinoma(152;0.000726)|STAD - Stomach adenocarcinoma(196;0.0183)|READ - Rectum adenocarcinoma(331;0.0649)		CTGATGCACACCTGCTCACAG	0.592													3	13					0	0	0.004672	0	0		T	31189718	T	T	31189718	3	4	61	1	0	0	0	0	1	0	0	0	9351	507	18	4	801	4	MATN1	1	31189718	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3502478	31189718	218060903	28	42034											
BAI2	576	broad.mit.edu	37	chr1	32207516	32207516	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgccagcctgtgtcacaCgtcttagagcacaggctcca	8	8	10	15	2	2	1	1	0	1	1	3	1	3	1	3	1	3	3	3	1	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:32207516C>T	uc001btn.2	-	9	1824	c.1470G>A	c.(1468-1470)ACG>ACA	p.T490T	BAI2_uc010ogo.1_Silent_p.T132T|BAI2_uc010ogp.1_Silent_p.T423T|BAI2_uc010ogq.1_Silent_p.T490T|BAI2_uc001bto.2_Silent_p.T490T|BAI2_uc001btq.1_Silent_p.T423T|BAI2_uc010ogr.1_Silent_p.T423T	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	490	TSP type-1 4.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		CTGTGTCACACGTCTTAGAGC	0.642													7	46					0	0	0.001984	0	0		T	32207516	T	T	32207516	2	4	61	1	0	0	0	0	0	0	0	1	1300	523	19	1		1	BAI2	1	32207516	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1017798	32207516	217043105	29	42035											
KPNA6	23633	broad.mit.edu	37	chr1	32623924	32623924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagagtggtggatcggttcGtggagtttctgaagaggaat	10	11	16	4	2	1	3	0	1	1	2	3	6	1	6	0	5	0	2	0	5	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:32623924G>A	uc001bug.2	+	5	476	c.388G>A	c.(388-390)GTG>ATG	p.V130M	KPNA6_uc001buh.2_Translation_Start_Site|KPNA6_uc010ogx.1_Missense_Mutation_p.V127M|KPNA6_uc010ogy.1_Missense_Mutation_p.V135M|KPNA6_uc009vtz.2_Missense_Mutation_p.V69M	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6	130	ARM 2.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GGATCGGTTCGTGGAGTTTCT	0.373													30	106					0	0	0.010818	0	0		A	32623924	A	A	32623924	3	1	61	1	0	0	0	0	1	0	0	0	8450	1145	40	1	406	1	KPNA6	1	32623924	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	416408	32623924	216626697	30	42036											
ZNF362	149076	broad.mit.edu	37	chr1	33764618	33764618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagaggacggagtcccccGgcatcccggtgcgaatctct	7	6	12	16	4	1	1	0	0	1	1	4	4	3	3	4	4	1	1	4	4	1	0	rs35620942	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:33764618G>A	uc001bxc.1	+	9	1404	c.1234G>A	c.(1234-1236)GGC>AGC	p.G412S		NM_152493	NP_689706	Q5T0B9	ZN362_HUMAN	zinc finger protein 362	412					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				GGAGTCCCCCGGCATCCCGGT	0.662											OREG0013343	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	48					0	0	0.000602	0	0		A	33764618	A	A	33764618	3	1	61	1	0	0	0	0	1	0	0	0	17893	1116	39	1	1264	1	ZNF362	1	33764618	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1140694	33764618	215486003	31	42037											
CSMD2	114784	broad.mit.edu	37	chr1	33985245	33985245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattggtgttctcgtggccaGcatagccattgaaaggaact	10	11	11	9	1	1	1	0	1	1	0	2	2	1	2	2	3	3	2	2	3	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:33985245G>A	uc001bxn.1	-	69	10366	c.10337C>T	c.(10336-10338)GCT>GTT	p.A3446V	CSMD2_uc001bxm.1_Missense_Mutation_p.A3590V	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3446	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CTCGTGGCCAGCATAGCCATT	0.542													33	174					0	0	0.013726	0	0		A	33985245	A	A	33985245	3	1	61	1	0	0	0	0	1	0	0	0	3948	971	34	2	130	2	CSMD2	1	33985245	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	220627	33985245	215265376	32	42038											
NCDN	23154	broad.mit.edu	37	chr1	36026370	36026370	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggctgctggctgctgcCgagacacagtgctggaagga	7	7	18	9	1	0	1	0	0	0	1	0	4	0	3	1	5	4	5	1	5	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:36026370C>T	uc001bza.2	+	4	745	c.618C>T	c.(616-618)GCC>GCT	p.A206A	KIAA0319L_uc010ohw.1_5'Flank|NCDN_uc001bzb.2_Silent_p.A206A|NCDN_uc001bzc.2_Silent_p.A189A	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	206					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TGGCTGCTGCCGAGACACAGT	0.637													10	38					0	0	0.006214	0	0		T	36026370	T	T	36026370	2	4	61	1	0	0	0	0	0	0	0	1	10233	639	23	1		1	NCDN	1	36026370	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2041125	36026370	213224251	33	42039											
NCDN	23154	broad.mit.edu	37	chr1	36028834	36028834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggctggtgccacctgaccGttgaagatgggccccgggag	6	7	16	12	2	0	3	0	2	0	1	0	4	0	4	5	4	1	2	5	4	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:36028834G>A	uc001bza.2	+	6	1544	c.1417G>A	c.(1417-1419)GTT>ATT	p.V473I	NCDN_uc001bzb.2_Missense_Mutation_p.V473I|NCDN_uc001bzc.2_Missense_Mutation_p.V456I	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	473					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CCACCTGACCGTTGAAGATGG	0.582													4	29					0	0	0.009096	0	0		A	36028834	A	A	36028834	3	1	61	1	0	0	0	0	1	0	0	0	10233	1145	40	1	1435	1	NCDN	1	36028834	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2464	36028834	213221787	34	42040											
MACF1	23499	broad.mit.edu	37	chr1	39910508	39910508	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtaagatggaagaaagaaagGtacagtgtatgatccccatg	16	8	12	5	0	0	4	0	1	0	3	1	5	1	5	2	2	1	3	2	2	6	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:39910508G>A	uc010oiu.1	+	45	15065	c.14934_splice	c.e45+1	p.K4978_splice	MACF1_uc010ois.1_Splice_Site_p.K4476_splice	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker						cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AGAAAGAAAGGTACAGTGTAT	0.413													4	45					0	0	0.001168	0	0		A	39910508	A	A	39910508	5	1	61	1	0	0	0	0	0	0	1	0	9162	1275	44	4	19882	4	MACF1	1	39910508	Splice_Site	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3881674	39910508	209340113	35	42041											
NT5C1A	84618	broad.mit.edu	37	chr1	40124850	40124850	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccggggtgtctgtgccacAccataaggcacatgggcggc	7	6	15	13	3	1	0	0	0	1	0	1	0	1	0	3	5	1	1	3	5	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:40124850A>G	uc001cdq.1	-	6	1050	c.1050T>C	c.(1048-1050)GGT>GGC	p.G350G		NM_032526	NP_115915	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	350					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TCTGTGCCACACCATAAGGCA	0.582													12	50					0	0	0.010729	0	0		G	40124850	G	G	40124850	2	3	61	1	0	0	0	0	0	0	0	1	10704	146	6	3		3	NT5C1A	1	40124850	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	214342	40124850	209125771	36	42042											
YBX1	4904	broad.mit.edu	37	chr1	43166532	43166532	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagatgagacccaaggtcAgcagccacctcaacgtcggt	12	5	12	12	2	2	2	2	1	0	2	3	4	2	2	3	3	3	1	3	3	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:43166532A>C	uc001chs.2	+	7	992	c.821A>C	c.(820-822)CAG>CCG	p.Q274P		NM_004559	NP_004550	P67809	YBOX1_HUMAN	nuclease sensitive element binding protein 1	274					CRD-mediated mRNA stabilization|negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|positive regulation of cell division|transcription from RNA polymerase II promoter	CRD-mediated mRNA stability complex|extracellular region|histone pre-mRNA 3'end processing complex|nucleoplasm|stress granule|U12-type spliceosomal complex	double-stranded DNA binding|protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			ovary(4)|upper_aerodigestive_tract(1)	5	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ACCCAAGGTCAGCAGCCACCT	0.517													6	41					0	0	0.001168	0	0		C	43166532	C	C	43166532	3	2	61	1	0	0	0	0	1	0	0	0	17495	188	7	5	847	5	YBX1	1	43166532	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	3041682	43166532	206084089	37	42043											
C1orf50	79078	broad.mit.edu	37	chr1	43240471	43240471	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttgtaatatagtgaaaaaaCctggcaacatttactatctc	15	13	5	8	0	1	1	0	1	1	0	2	1	1	1	1	1	3	2	1	1	9	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:43240471C>A	uc001cia.3	+	4	413	c.346C>A	c.(346-348)CCT>ACT	p.P116T		NM_024097	NP_077002	Q9BV19	CA050_HUMAN	hypothetical protein LOC79078	116										ovary(1)	1	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AGTGAAAAAACCTGGCAACAT	0.373													16	83					2.23348e-06	2.40372e-06	0.004007	1	0		A	43240471	A	A	43240471	3	1	61	1	0	0	0	0	1	0	0	0	2045	507	18	5	360	5	C1orf50	1	43240471	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	73939	43240471	206010150	38	42044											
PTPRF	5792	broad.mit.edu	37	chr1	44069443	44069443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatagatttcggcaaggatGaccagcacttcacagtcacc	12	8	8	13	1	2	2	2	1	0	1	3	3	2	3	3	2	1	2	3	2	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:44069443G>A	uc001cjr.2	+	16	2960	c.2620G>A	c.(2620-2622)GAC>AAC	p.D874N	PTPRF_uc001cjs.2_Missense_Mutation_p.D865N|PTPRF_uc001cju.2_Intron|PTPRF_uc009vwt.2_Missense_Mutation_p.D434N|PTPRF_uc001cjv.2_Missense_Mutation_p.D334N|PTPRF_uc001cjw.2_Missense_Mutation_p.D100N	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	874	Extracellular (Potential).|Fibronectin type-III 6.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CGGCAAGGATGACCAGCACTT	0.632													11	58					0	0	0.008291	0	0		A	44069443	A	A	44069443	3	1	61	1	0	0	0	0	1	0	0	0	12826	1290	45	4	2674	4	PTPRF	1	44069443	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	828972	44069443	205181178	39	42045											
SLC6A9	6536	broad.mit.edu	37	chr1	44482788	44482788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgagcgatcgcagcccgCgtgtctccgccgctcattca	5	7	13	16	7	3	0	2	0	1	0	5	2	3	0	3	1	2	2	3	1	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:44482788C>T	uc001cll.2	-	1	210	c.18G>A	c.(16-18)ACG>ACA	p.T6T	SLC6A9_uc009vxe.2_5'Flank|SLC6A9_uc010okm.1_Intron|SLC6A9_uc001clm.2_Silent_p.T6T|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Silent_p.T6T|SLC6A9_uc001cln.2_Intron|SLC6A9_uc010oko.1_Intron|SLC6A9_uc010okp.1_Intron	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	6	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	TCGCAGCCCGCGTGTCTCCGC	0.652													5	14					0	0	0.000602	0	0		T	44482788	T	T	44482788	2	4	61	1	0	0	0	0	0	0	0	1	14716	755	27	1		1	SLC6A9	1	44482788	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	413345	44482788	204767833	40	42046											
DMAP1	55929	broad.mit.edu	37	chr1	44680454	44680454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttgggctccaagaaggtgCggccttggaagtggatgcca	9	8	16	8	1	0	1	0	0	0	1	1	3	1	3	3	5	2	2	3	5	3	2	rs34697342	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:44680454C>T	uc001clq.1	+	4	357	c.277C>T	c.(277-279)CGG>TGG	p.R93W	DMAP1_uc010okq.1_Missense_Mutation_p.R119W|DMAP1_uc010okr.1_Missense_Mutation_p.R93W|DMAP1_uc010oks.1_Missense_Mutation_p.R93W|DMAP1_uc010okt.1_Missense_Mutation_p.R93W|DMAP1_uc001clr.1_Missense_Mutation_p.R93W|DMAP1_uc001cls.1_Missense_Mutation_p.R93W|DMAP1_uc010oku.1_Missense_Mutation_p.R93W	NM_001034024	NP_001029196	Q9NPF5	DMAP1_HUMAN	DNA methyltransferase 1 associated protein 1	93					DNA methylation|histone H2A acetylation|histone H4 acetylation|negative regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex	DNA binding|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					CAAGAAGGTGCGGCCTTGGAA	0.612													9	51					0	0	0.006214	0	0		T	44680454	T	T	44680454	3	4	61	1	0	0	0	0	1	0	0	0	4582	759	27	1	287	1	DMAP1	1	44680454	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	197666	44680454	204570167	41	42047											
ERI3	79033	broad.mit.edu	37	chr1	44713617	44713617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaagggactgaccaatgcCgctgtggggccggcctatgt	7	7	16	11	3	0	1	0	1	0	0	0	3	0	2	4	4	1	1	4	4	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:44713617C>T	uc001clt.2	-	8	1166	c.925G>A	c.(925-927)GGC>AGC	p.G309S	ERI3_uc010okv.1_Missense_Mutation_p.G132S|ERI3_uc009vxg.2_Missense_Mutation_p.G337S|ERI3_uc010okw.1_Missense_Mutation_p.G231S|ERI3_uc001clu.2_Intron	NM_024066	NP_076971	O43414	ERI3_HUMAN	prion protein interacting protein	309	Exonuclease.					intracellular	exonuclease activity|metal ion binding|nucleic acid binding			ovary(2)|large_intestine(1)	3						TGACCAATGCCGCTGTGGGGC	0.602													4	41					0	0	0.000602	0	0		T	44713617	T	T	44713617	3	4	61	1	0	0	0	0	1	0	0	0	5237	652	23	1	96	1	ERI3	1	44713617	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	33163	44713617	204537004	42	42048											
HPDL	84842	broad.mit.edu	37	chr1	45793416	45793416	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggtgaggatcccgagcTgggcctcgaaatgacagcag	10	5	14	12	2	0	2	0	2	0	0	2	5	1	3	3	3	2	2	3	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:45793416T>C	uc001cne.2	+	1	872	c.596T>C	c.(595-597)CTG>CCG	p.L199P		NM_032756	NP_116145	Q96IR7	HPDL_HUMAN	glyoxalase domain containing 1	199					aromatic amino acid family metabolic process		4-hydroxyphenylpyruvate dioxygenase activity|metal ion binding				0	Acute lymphoblastic leukemia(166;0.155)					GATCCCGAGCTGGGCCTCGAA	0.642													11	38					0	0	0.008291	0	0		C	45793416	C	C	45793416	3	2	61	1	0	0	0	0	1	0	0	0	7349	1580	55	3	598	3	HPDL	1	45793416	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	1079799	45793416	203457205	43	42049											
FAAH	2166	broad.mit.edu	37	chr1	46876093	46876093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgatttcgtggacccctGcctgggggacctggtctcaa	6	10	14	11	1	1	1	1	1	1	0	3	3	1	3	4	5	1	0	4	5	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:46876093G>A	uc001cpu.2	+	10	1281	c.1199G>A	c.(1198-1200)TGC>TAC	p.C400Y	FAAH_uc001cpv.2_RNA	NM_001441	NP_001432	O00519	FAAH1_HUMAN	fatty acid amide hydrolase	400	Cytoplasmic (By similarity).				fatty acid catabolic process	cytoplasm|cytoskeleton|endomembrane system|integral to membrane|organelle membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|fatty acid amide hydrolase activity			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(166;0.155)				Propofol(DB00818)|Thiopental(DB00599)	GTGGACCCCTGCCTGGGGGAC	0.592													54	200					0	0	0.01441	0	0		A	46876093	A	A	46876093	3	1	61	1	0	0	0	0	1	0	0	0	5364	1319	46	2	1237	2	FAAH	1	46876093	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1082677	46876093	202374528	44	42050											
C1orf87	127795	broad.mit.edu	37	chr1	60506705	60506705	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcaccatctgttccaaggaCcagtctctaagctttctcct	8	13	5	15	0	4	0	1	0	3	0	7	1	5	1	4	1	1	2	4	1	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:60506705C>T	uc001czs.1	-	4	533	c.441G>A	c.(439-441)TGG>TGA	p.W147*		NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	147							calcium ion binding			ovary(1)|breast(1)	2						GTTCCAAGGACCAGTCTCTAA	0.478													18	74					0	0	0.008871	0	0		T	60506705	T	T	60506705	4	4	61	1	0	0	0	0	0	1	0	0	2067	508	18	4	1235	4	C1orf87	1	60506705	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	13630612	60506705	188743916	45	42051											
USP1	7398	broad.mit.edu	37	chr1	62916034	62916034	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagctatggattatttgcGgttgtgatgcatagtggcat	9	14	13	5	1	0	1	0	1	0	0	0	3	0	2	0	3	3	4	0	3	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:62916034G>A	uc001daj.1	+	9	2068	c.1740G>A	c.(1738-1740)GCG>GCA	p.A580A	USP1_uc001dak.1_Silent_p.A580A|USP1_uc001dal.1_Silent_p.A580A	NM_001017415	NP_001017415	O94782	UBP1_HUMAN	ubiquitin specific protease 1	580					DNA repair|monoubiquitinated protein deubiquitination|regulation of DNA repair|response to UV|ubiquitin-dependent protein catabolic process	nucleoplasm	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1		all_neural(321;0.0281)		BRCA - Breast invasive adenocarcinoma(111;8.01e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00245)|OV - Ovarian serous cystadenocarcinoma(397;0.0535)		GATTATTTGCGGTTGTGATGC	0.383													17	83					0	0	0.006122	0	0		A	62916034	A	A	62916034	2	1	61	1	0	0	0	0	0	0	0	1	17066	1103	39	1		1	USP1	1	62916034	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2409329	62916034	186334587	46	42052											
LRRIQ3	127255	broad.mit.edu	37	chr1	74507249	74507249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcaaatgttcattaacagCtactctaactctttctcgag	12	15	4	10	1	5	0	2	0	3	0	6	1	5	0	0	0	4	2	0	0	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:74507249C>T	uc001dfy.3	-	7	1558	c.1366G>A	c.(1366-1368)GCT>ACT	p.A456T	LRRIQ3_uc001dfz.3_Intron	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	456										ovary(2)	2						TCATTAACAGCTACTCTAACT	0.318													15	80					0	0	0.004007	0	0		T	74507249	T	T	74507249	3	4	61	1	0	0	0	0	1	0	0	0	9048	797	28	2	516	2	LRRIQ3	1	74507249	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	11591215	74507249	174743372	47	42053											
LRRIQ3	127255	broad.mit.edu	37	chr1	74649285	74649285	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttcacaaaaacaaaatcTttttgaccttctcttatgtt	14	16	2	9	0	3	1	1	1	2	0	4	1	3	1	1	0	2	1	1	0	6	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:74649285T>C	uc001dfy.3	-	2	276	c.84A>G	c.(82-84)AAA>AAG	p.K28K	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	28										ovary(2)	2						aaacaAAATCTTTTTGACCTT	0.179													9	24					0	0	0.004482	0	0		C	74649285	C	C	74649285	2	2	61	1	0	0	0	0	0	0	0	1	9048	1606	56	3		3	LRRIQ3	1	74649285	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	142036	74649285	174601336	48	42054											
COL24A1	255631	broad.mit.edu	37	chr1	86591529	86591529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagtaatggcaaatgagtGccattgctcatcatgaacac	15	10	8	8	0	2	2	2	2	0	0	2	2	2	2	1	1	3	3	1	1	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:86591529G>A	uc001dlj.2	-	3	532	c.490C>T	c.(490-492)CAC>TAC	p.H164Y	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.H164Y	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	164	TSP N-terminal.|Laminin G-like.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		GCAAATGAGTGCCATTGCTCA	0.363													7	47					0	0	0.001984	0	0		A	86591529	A	A	86591529	3	1	61	1	0	0	0	0	1	0	0	0	3686	1319	46	2	4886	2	COL24A1	1	86591529	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	11942244	86591529	162659092	49	42055											
LMO4	8543	broad.mit.edu	37	chr1	87805253	87805253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgcttgcagcgcttgcGgacagtcgattcctgcgagt	5	10	15	11	5	0	0	0	0	0	0	2	3	1	1	1	2	5	3	1	2	0	3	rs149550347		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:87805253G>A	uc001dmi.2	+	3	1051	c.271G>A	c.(271-273)GGA>AGA	p.G91R	LMO4_uc001dmj.2_Missense_Mutation_p.G91R	NM_006769	NP_006760	P61968	LMO4_HUMAN	LIM domain only 4	91	LIM zinc-binding 2.				neural tube closure|transcription from RNA polymerase II promoter	transcription factor complex	sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding				0		Lung NSC(277;0.179)		all cancers(265;0.00456)|Epithelial(280;0.0148)|BRCA - Breast invasive adenocarcinoma(282;0.153)		CAGCGCTTGCGGACAGTCGAT	0.383													6	28					0	0	0.001168	0	0		A	87805253	A	A	87805253	3	1	61	1	0	0	0	0	1	0	0	0	8871	1117	39	1	277	1	LMO4	1	87805253	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1213724	87805253	161445368	50	42056											
LPPR4	9890	broad.mit.edu	37	chr1	99772446	99772446	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccatttcttcttcccgCgactccaccctgcggagaaa	7	11	7	16	3	2	1	0	0	2	1	5	3	5	1	4	1	1	0	4	1	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:99772446C>T	uc001dse.2	+	7	2278	c.2172C>T	c.(2170-2172)CGC>CGT	p.R724R	LPPR4_uc010oue.1_Silent_p.R666R	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	724							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		CTTCTTCCCGCGACTCCACCC	0.507													10	45					0	0	0.006214	0	0		T	99772446	T	T	99772446	2	4	61	1	0	0	0	0	0	0	0	1	8945	755	27	1		1	LPPR4	1	99772446	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	11967193	99772446	149478175	51	42057											
CLCC1	23155	broad.mit.edu	37	chr1	109484090	109484090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttaatggctccatcttggCgacttcagcctgatgctgtg	6	14	11	10	1	2	1	1	1	1	0	3	2	3	1	2	2	2	3	2	2	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:109484090C>T	uc001dwe.1	-	7	825	c.733G>A	c.(733-735)GCC>ACC	p.A245T	AKNAD1_uc010ovb.1_Intron|CLCC1_uc001dwf.1_Missense_Mutation_p.A245T|CLCC1_uc001dwg.1_Missense_Mutation_p.A195T|CLCC1_uc009wes.1_Missense_Mutation_p.A124T|CLCC1_uc009wet.1_Intron	NM_001048210	NP_001041675	Q96S66	CLCC1_HUMAN	Mid-1-related chloride channel 1 isoform 1	245						endoplasmic reticulum|Golgi apparatus|integral to membrane|nucleus				liver(1)	1		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.231)		TCCATCTTGGCGACTTCAGCC	0.468													9	44					0	0	0.004482	0	0		T	109484090	T	T	109484090	3	4	61	1	0	0	0	0	1	0	0	0	3463	768	27	1	942	1	CLCC1	1	109484090	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	9711644	109484090	139766531	52	42058											
GSTM3	2947	broad.mit.edu	37	chr1	110280306	110280306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggcaaaccatgagaatttcCccagaaacatggagaattgt	15	8	9	9	1	0	3	0	1	0	3	1	5	1	3	3	2	2	1	3	2	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:110280306C>T	uc001dyo.2	-	7	750	c.440G>A	c.(439-441)GGG>GAG	p.G147E	GSTM3_uc001dyp.2_Missense_Mutation_p.G144E|GSTM3_uc010ovv.1_Missense_Mutation_p.G147E	NM_000849	NP_000840	P21266	GSTM3_HUMAN	glutathione S-transferase mu 3	147	GST C-terminal.			G -> W (in Ref. 1; AAA60964).	establishment of blood-nerve barrier|glutathione metabolic process|response to estrogen stimulus	cytoplasm	glutathione transferase activity|identical protein binding				0		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Colorectal(144;0.0339)|Lung(183;0.0426)|all cancers(265;0.113)|Epithelial(280;0.125)|COAD - Colon adenocarcinoma(174;0.134)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	TGAGAATTTCCCCAGAAACAT	0.438													24	154					0	0	0.003954	0	0		T	110280306	T	T	110280306	3	4	61	1	0	0	0	0	1	0	0	0	6855	623	22	4	249	4	GSTM3	1	110280306	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	796216	110280306	138970315	53	42059											
DENND2C	163259	broad.mit.edu	37	chr1	115142883	115142883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggagagaggcacagacccGgatgagatgacacacactca	16	3	12	10	1	1	4	1	2	0	3	1	8	1	6	1	3	0	1	1	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:115142883G>A	uc001efd.1	-	15	2749	c.2047C>T	c.(2047-2049)CGG>TGG	p.R683W	DENND2C_uc001eez.2_Intron|DENND2C_uc001efc.1_Missense_Mutation_p.R626W	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	683	DENN.									skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCACAGACCCGGATGAGATGA	0.423													15	58					0	0	0.003163	0	0		A	115142883	A	A	115142883	3	1	61	1	0	0	0	0	1	0	0	0	4436	1115	39	1	767	1	DENND2C	1	115142883	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4862577	115142883	134107738	54	42060											
IGSF3	3321	broad.mit.edu	37	chr1	117156549	117156549	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggaaggtggtcctccccaGcttgtccagccgcacctccc	5	7	11	18	2	0	0	0	0	0	0	4	1	4	1	7	3	2	2	7	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:117156549G>A	uc001egr.1	-	4	1375	c.670C>T	c.(670-672)CTG>TTG	p.L224L	IGSF3_uc001egq.1_Silent_p.L224L	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	224	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		GTCCTCCCCAGCTTGTCCAGC	0.622													7	28					0	0	0.00308	0	0		A	117156549	A	A	117156549	2	1	61	1	0	0	0	0	0	0	0	1	7617	962	34	2		2	IGSF3	1	117156549	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2013666	117156549	132094072	55	42061											
CD101	9398	broad.mit.edu	37	chr1	117559831	117559831	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgtgagctggtggcacAtcccacgggaccagacacag	9	7	13	12	1	1	2	0	1	1	1	2	3	2	3	2	3	1	2	2	3	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:117559831A>G	uc010oxb.1	+	5	1406	c.1348A>G	c.(1348-1350)ATC>GTC	p.I450V	CD101_uc009whd.2_Missense_Mutation_p.I450V|CD101_uc010oxc.1_Missense_Mutation_p.I450V|CD101_uc010oxd.1_Missense_Mutation_p.I388V	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	450	Extracellular (Potential).|Ig-like C2-type 4.				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CTGGTGGCACATCCCACGGGA	0.572													7	40					0	0	0.001984	0	0		G	117559831	G	G	117559831	3	3	61	1	0	0	0	0	1	0	0	0	2965	217	8	3	1366	3	CD101	1	117559831	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	403282	117559831	131690790	56	42062											
CA14	23632	broad.mit.edu	37	chr1	150234016	150234016	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcaccgagcctttggacCtgcacaacaatggccacaca	11	6	9	15	1	0	0	0	0	0	0	0	2	0	1	4	3	3	2	4	3	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:150234016C>T	uc001etx.2	+	3	544	c.235C>T	c.(235-237)CTG>TTG	p.L79L		NM_012113	NP_036245	Q9ULX7	CAH14_HUMAN	carbonic anhydrase XIV precursor	79	Extracellular (Potential).					integral to membrane	carbonate dehydratase activity|metal ion binding			ovary(1)	1	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GCCTTTGGACCTGCACAACAA	0.473													11	28					0	0	0.013537	0	0		T	150234016	T	T	150234016	2	4	61	1	0	0	0	0	0	0	0	1	2518	680	24	4		4	CA14	1	150234016	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	32674185	150234016	99016605	57	42063											
SEMA6C	10500	broad.mit.edu	37	chr1	151106915	151106915	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccagactgactcccagtaGctccatctatgaagaaggga	12	7	11	11	0	1	4	0	2	1	2	3	5	3	5	3	2	1	2	3	2	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:151106915G>T	uc001ewu.2	-	18	2021	c.1721C>A	c.(1720-1722)GCT>GAT	p.A574D	SEMA6C_uc001ewv.2_Missense_Mutation_p.A574D|SEMA6C_uc001eww.2_Missense_Mutation_p.A534D|SEMA6C_uc010pcq.1_Missense_Mutation_p.A574D	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	574	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			ACTCCCAGTAGCTCCATCTAT	0.527													6	6					0.00198382	0.00204364	0.001984	1	0		T	151106915	T	T	151106915	3	4	61	1	0	0	0	0	1	0	0	0	14066	971	34	5	1179	5	SEMA6C	1	151106915	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	872899	151106915	98143706	58	42064											
SEMA6C	10500	broad.mit.edu	37	chr1	151108068	151108068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccctccaaaggcctcaccGggcagggctgtaggcatcaa	9	6	12	14	1	2	0	2	0	0	0	3	0	3	0	4	4	1	4	4	4	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:151108068G>A	uc001ewu.2	-	14	1732	c.1432C>T	c.(1432-1434)CGG>TGG	p.R478W	SEMA6C_uc001ewv.2_Missense_Mutation_p.R478W|SEMA6C_uc001eww.2_Missense_Mutation_p.R438W|SEMA6C_uc010pcq.1_Missense_Mutation_p.R478W	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	478	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			AGGCCTCACCGGGCAGGGCTG	0.597													21	92					0	0	0.012319	0	0		A	151108068	A	A	151108068	3	1	61	1	0	0	0	0	1	0	0	0	14066	1130	39	1	1484	1	SEMA6C	1	151108068	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1153	151108068	98142553	59	42065											
LINGO4	339398	broad.mit.edu	37	chr1	151773687	151773687	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccacctggatgacttccagCcaggtcctcagggagtcatt	8	10	10	13	0	2	1	2	1	0	0	5	3	5	3	5	3	1	0	5	3	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:151773687C>T	uc001ezf.1	-	2	1684	c.1494G>A	c.(1492-1494)TGG>TGA	p.W498*		NM_001004432	NP_001004432	Q6UY18	LIGO4_HUMAN	leucine rich repeat and Ig domain containing 4	498	Extracellular (Potential).|Ig-like C2-type.					integral to membrane				large_intestine(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			TGACTTCCAGCCAGGTCCTCA	0.567													29	159					0	0	0.007291	0	0		T	151773687	T	T	151773687	4	4	61	1	0	0	0	0	0	1	0	0	8834	740	26	2	291	2	LINGO4	1	151773687	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	665619	151773687	97476934	60	42066											
TCHH	7062	broad.mit.edu	37	chr1	152080052	152080052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggcggatgtgttcttcccGtaatttcctttcccgttcct	3	16	9	13	4	1	0	0	0	1	0	5	1	5	1	4	2	0	3	4	2	1	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:152080052G>A	uc001ezp.2	-	2	5641	c.5641C>T	c.(5641-5643)CGG>TGG	p.R1881W	TCHH_uc009wne.1_Missense_Mutation_p.R1881W	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1881	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTTCTTCCCGTAATTTCCTT	0.562													23	75					0	0	0.012319	0	0		A	152080052	A	A	152080052	3	1	61	1	0	0	0	0	1	0	0	0	15725	1144	40	1	194	1	TCHH	1	152080052	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	306365	152080052	97170569	61	42067											
FLG	2312	broad.mit.edu	37	chr1	152276179	152276179	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcttcctccagtactgggcCcagcccgtccatgggcagac	6	8	11	16	1	1	1	0	0	1	1	4	1	4	1	5	2	2	2	5	2	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:152276179C>A	uc001ezu.1	-	3	11219	c.11183G>T	c.(11182-11184)GGG>GTG	p.G3728V		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3728	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGTACTGGGCCCAGCCCGTCC	0.607									Ichthyosis				54	229					9.52127e-25	1.07725e-24	0.01441	1	0		A	152276179	A	A	152276179	3	1	61	1	0	0	0	0	1	0	0	0	5936	623	22	5	1006	5	FLG	1	152276179	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	196127	152276179	96974442	62	42068											
FLG	2312	broad.mit.edu	37	chr1	152277587	152277587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgtgaccggctctgtcttCgtgatgggacctggggtgtc	3	11	15	12	3	2	2	0	2	2	0	4	3	2	3	3	4	0	1	3	4	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:152277587C>T	uc001ezu.1	-	3	9811	c.9775G>A	c.(9775-9777)GAA>AAA	p.E3259K		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3259	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTCTGTCTTCGTGATGGGAC	0.582									Ichthyosis				81	290					0	0	0.01441	0	0		T	152277587	T	T	152277587	3	4	61	1	0	0	0	0	1	0	0	0	5936	893	31	1	2414	1	FLG	1	152277587	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1408	152277587	96973034	63	42069											
LCE1C	353133	broad.mit.edu	37	chr1	152777656	152777656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacagcagctggagccccccGagggctggctgcagcagcca	8	3	14	16	1	0	0	0	0	0	0	0	2	0	1	4	3	6	6	4	3	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:152777656G>A	uc001fap.1	-	2	350	c.299C>T	c.(298-300)TCG>TTG	p.S100L		NM_178351	NP_848128	Q5T751	LCE1C_HUMAN	late cornified envelope 1C	100	Gly-rich.				keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGAGCCCCCCGAGGGCTGGCT	0.667													10	40					0	0	0.003163	0	0		A	152777656	A	A	152777656	3	1	61	1	0	0	0	0	1	0	0	0	8677	1059	37	1	61	1	LCE1C	1	152777656	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	500069	152777656	96472965	64	42070											
S100A7A	338324	broad.mit.edu	37	chr1	153390574	153390574	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagatgagcaacactcaaGctgagaggtccataataggc	16	6	10	9	0	1	3	1	2	0	2	2	4	2	3	1	2	3	2	1	2	5	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:153390574G>T	uc001fbt.1	+	2	73	c.16G>T	c.(16-18)GCT>TCT	p.A6S		NM_176823	NP_789793	Q86SG5	S1A7A_HUMAN	S100 calcium binding protein A7-like 1	6						cytoplasm	calcium ion binding			skin(1)	1	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			CAACACTCAAGCTGAGAGGTC	0.418													13	99					0.00136819	0.0014122	0.013537	1	0		T	153390574	T	T	153390574	3	4	61	1	0	0	0	0	1	0	0	0	13809	971	34	5	18	5	S100A7A	1	153390574	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	612918	153390574	95860047	65	42071											
S100A6	6277	broad.mit.edu	37	chr1	153507253	153507253	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagttcacctcctggtcCttgttccggtccaagtcttc	5	14	9	13	1	2	0	1	0	1	0	7	1	6	1	5	3	0	2	5	3	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:153507253C>A	uc001fbw.1	-	3	506	c.192G>T	c.(190-192)AAG>AAT	p.K64N		NM_014624	NP_055439	P06703	S10A6_HUMAN	S100 calcium-binding protein A6	64	EF-hand 2.|2.				axonogenesis|positive regulation of fibroblast proliferation|signal transduction	cytosol|extrinsic to internal side of plasma membrane|nuclear envelope|perinuclear region of cytoplasm|ruffle	calcium ion binding|calcium-dependent protein binding|protein homodimerization activity|S100 beta binding|tropomyosin binding			ovary(1)	1	all_lung(78;1.66e-32)|Lung NSC(65;5.71e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			CCTCCTGGTCCTTGTTCCGGT	0.478													5	73					1.024e-07	1.11911e-07	0.000602	1	0		A	153507253	A	A	153507253	3	1	61	1	0	0	0	0	1	0	0	0	13807	680	24	5	84	5	S100A6	1	153507253	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	116679	153507253	95743368	66	42072											
DENND4B	9909	broad.mit.edu	37	chr1	153907390	153907390	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattccggagcttggcccaGcgcagacgcccacctggtgt	7	7	12	15	3	0	1	0	0	0	1	1	2	1	2	4	3	2	2	4	3	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:153907390G>A	uc001fdd.1	-	18	3020	c.2619C>T	c.(2617-2619)CGC>CGT	p.R873R	uc001fdc.1_RNA	NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	873										ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GCTTGGCCCAGCGCAGACGCC	0.502													12	111					0	0	0.00245	0	0		A	153907390	A	A	153907390	2	1	61	1	0	0	0	0	0	0	0	1	4440	958	34	2		2	DENND4B	1	153907390	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	400137	153907390	95343231	67	42073											
CREB3L4	148327	broad.mit.edu	37	chr1	153946103	153946103	+	Frame_Shift_Del	DEL	T	-	-																															tgcttcctcccagattcttcTtttttccctggctctcatca																										TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:153946103delT	uc001fdn.3	+	9	1171	c.905delT	c.(904-906)CTTfs	p.L302fs	CREB3L4_uc010pef.1_Frame_Shift_Del_p.L155fs|CREB3L4_uc001fdo.3_Frame_Shift_Del_p.L282fs|CREB3L4_uc001fdm.1_Frame_Shift_Del_p.L302fs|CREB3L4_uc001fdp.1_Frame_Shift_Del_p.L282fs|CREB3L4_uc001fdr.2_Frame_Shift_Del_p.L302fs|CREB3L4_uc001fdq.2_Frame_Shift_Del_p.L282fs	NM_130898	NP_570968	Q8TEY5	CR3L4_HUMAN	cAMP responsive element binding protein 3-like	302	Helical; Signal-anchor for type II membrane protein; (Potential).				response to unfolded protein	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			CAGATTCTTCTTTTTTCCCTG	0.552													6	13	---	---	---	---						.	-	153946103	-	-	153946103	7	5	61	1	0	1	0	1	0	0	0	0	3862	1609	56	0	935	0	CREB3L4	1	153946103	Frame_Shift_Del	DEL	T	TCGA-BR-8081-01A-11D-2340-08	38713	153946103	95304518	68	42074											
NUP210L	91181	broad.mit.edu	37	chr1	154125250	154125250	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taatactgctgaggcgtatcGgttgcgtagattcagcaatg	10	12	12	7	3	1	2	1	1	0	1	2	2	1	2	0	2	4	5	0	2	5	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:154125250G>A	uc001fdw.2	-	2	374	c.302C>T	c.(301-303)CCG>CTG	p.P101L	NUP210L_uc010peh.1_Missense_Mutation_p.P101L	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	101						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			GAGGCGTATCGGTTGCGTAGA	0.408													10	47					0	0	0.006214	0	0		A	154125250	A	A	154125250	3	1	61	1	0	0	0	0	1	0	0	0	10780	1116	39	1	5520	1	NUP210L	1	154125250	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	179147	154125250	95125371	69	42075											
PYGO2	90780	broad.mit.edu	37	chr1	154931946	154931946	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatcatctgcccactgggaGgactaaagttttgacccaga	11	9	10	11	0	2	2	1	1	1	1	2	4	2	4	2	2	1	2	2	2	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:154931946G>T	uc001fft.2	-	3	736	c.530C>A	c.(529-531)CCT>CAT	p.P177H		NM_138300	NP_612157	Q9BRQ0	PYGO2_HUMAN	pygopus homolog 2	177	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding|zinc ion binding			skin(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CCCACTGGGAGGACTAAAGTT	0.607													12	34					0.00136819	0.0014122	0.013537	1	0		T	154931946	T	T	154931946	3	4	61	1	0	0	0	0	1	0	0	0	12889	1000	35	5	694	5	PYGO2	1	154931946	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	806696	154931946	94318675	70	42076											
SHC1	6464	broad.mit.edu	37	chr1	154942610	154942610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggcgggtccactcctcGcccccaagctggcccccttc	3	7	10	21	3	0	0	0	0	0	0	4	0	2	0	7	3	1	1	7	3	1	1	rs150853919	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:154942610G>A	uc001ffv.2	-	1	614	c.393C>T	c.(391-393)GGC>GGT	p.G131G	SHC1_uc001ffz.1_5'Flank|SHC1_uc001ffw.2_Silent_p.G131G|SHC1_uc001ffx.2_Silent_p.G21G|SHC1_uc001ffy.2_Silent_p.G21G	NM_183001	NP_892113	P29353	SHC1_HUMAN	SHC-transforming protein 1 isoform 1	131					activation of MAPK activity|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|positive regulation of DNA replication|Ras protein signal transduction|regulation of epidermal growth factor receptor activity|regulation of growth	cytosol|mitochondrial matrix|Shc-EGFR complex	epidermal growth factor receptor binding|insulin receptor binding|insulin-like growth factor receptor binding|phospholipid binding|protein binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(1)|skin(1)	2	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TCCACTCCTCGCCCCCAAGCT	0.652													9	59					0	0	0.008291	0	0		A	154942610	A	A	154942610	2	1	61	1	0	0	0	0	0	0	0	1	14295	1074	38	1		1	SHC1	1	154942610	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	10664	154942610	94308011	71	42077											
CLK2	1196	broad.mit.edu	37	chr1	155233104	155233104	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagggcttcacccaaggTcagccgcttagctggttcat	8	10	11	12	1	3	1	3	1	0	0	3	1	3	1	2	3	2	4	2	3	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:155233104T>C	uc001fjy.2	-	13	1695	c.1405A>G	c.(1405-1407)ACC>GCC	p.T469A	RAG1AP1_uc010pey.1_Intron|SCAMP3_uc001fjr.2_5'Flank|SCAMP3_uc001fjs.2_5'Flank|SCAMP3_uc001fju.2_5'Flank|SCAMP3_uc001fjv.2_5'Flank|SCAMP3_uc001fjt.2_5'Flank|CLK2_uc001fjw.2_Missense_Mutation_p.T468A|CLK2_uc001fjx.2_Missense_Mutation_p.T241A|CLK2_uc009wqm.2_Missense_Mutation_p.T469A	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	469	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			TCACCCAAGGTCAGCCGCTTA	0.567								Other_conserved_DNA_damage_response_genes					5	41					0	0	0.000602	0	0		C	155233104	C	C	155233104	3	2	61	1	0	0	0	0	1	0	0	0	3540	1667	58	3	98	3	CLK2	1	155233104	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	290494	155233104	94017517	72	42078											
ARHGEF2	9181	broad.mit.edu	37	chr1	155920171	155920171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcactgctgtcttgcagccGctcttcggggctccccagtt	3	12	11	15	2	3	0	1	0	2	0	5	0	4	0	3	2	3	5	3	2	0	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:155920171G>A	uc001fmt.2	-	21	2924	c.2806C>T	c.(2806-2808)CGG>TGG	p.R936W	ARHGEF2_uc001fmq.2_Missense_Mutation_p.R174W|ARHGEF2_uc001fmr.2_Missense_Mutation_p.R908W|ARHGEF2_uc001fms.2_Missense_Mutation_p.R935W|ARHGEF2_uc001fmu.2_Missense_Mutation_p.R980W	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	936					actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					TCTTGCAGCCGCTCTTCGGGG	0.627													13	57					0	0	0.013537	0	0		A	155920171	A	A	155920171	3	1	61	1	0	0	0	0	1	0	0	0	903	1086	38	1	162	1	ARHGEF2	1	155920171	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	687067	155920171	93330450	73	42079											
SLC25A44	9673	broad.mit.edu	37	chr1	156169979	156169979	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacacagtcaaatcactggTggctggtggctcagcctccc	9	9	10	13	0	3	0	3	0	0	0	4	0	4	0	2	4	2	2	2	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:156169979T>C	uc001fnp.2	+	2	663	c.341T>C	c.(340-342)GTG>GCG	p.V114A	SLC25A44_uc010phc.1_Intron|SLC25A44_uc009wrr.2_Missense_Mutation_p.V114A|SLC25A44_uc010phd.1_Intron|SLC25A44_uc010phe.1_Intron	NM_014655	NP_055470	Q96H78	S2544_HUMAN	solute carrier family 25, member 44	114	Solcar 2.|Helical; Name=3; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			ovary(1)	1	Hepatocellular(266;0.158)					AAATCACTGGTGGCTGGTGGC	0.532													11	45					0	0	0.008291	0	0		C	156169979	C	C	156169979	3	2	61	1	0	0	0	0	1	0	0	0	14534	1696	59	3	343	3	SLC25A44	1	156169979	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	249808	156169979	93080642	74	42080											
BCAN	63827	broad.mit.edu	37	chr1	156622678	156622678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggagtggccgtggtccccGcatcaggtaattctgcccaa	7	9	13	12	2	2	0	1	0	1	0	3	1	3	1	4	4	1	2	4	4	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:156622678G>A	uc001fpp.2	+	8	2272	c.1936G>A	c.(1936-1938)GCA>ACA	p.A646T	BCAN_uc001fpo.2_Missense_Mutation_p.A646T	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	646	EGF-like.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CGTGGTCCCCGCATCAGGTAA	0.592													9	58					0	0	0.008291	0	0		A	156622678	A	A	156622678	3	1	61	1	0	0	0	0	1	0	0	0	1346	1087	38	1	1962	1	BCAN	1	156622678	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	452699	156622678	92627943	75	42081											
HDGF	3068	broad.mit.edu	37	chr1	156714905	156714905	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacttctccttggattcctcGtaagggaagaggtctttggg	8	13	12	8	1	2	1	0	0	2	1	5	3	3	3	2	4	1	1	2	4	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:156714905G>A	uc001fpy.3	-	3	520	c.198C>T	c.(196-198)TAC>TAT	p.Y66Y	HDGF_uc009wsd.2_Silent_p.Y34Y|HDGF_uc001fpz.3_Silent_p.Y59Y|HDGF_uc009wse.2_Silent_p.Y82Y|HDGF_uc010phr.1_Silent_p.Y82Y|HDGF_uc009wsf.2_Silent_p.Y34Y|HDGF_uc009wsg.2_Silent_p.Y66Y	NM_004494	NP_004485	P51858	HDGF_HUMAN	hepatoma-derived growth factor isoform a	66	PWWP.				cell proliferation|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus	DNA binding|growth factor activity|heparin binding|nucleotide binding	p.Y66D(1)		lung(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)	Breast(1374;0.198)		Colorectal(1306;0.018)		TGGATTCCTCGTAAGGGAAGA	0.582													9	40					0	0	0.004482	0	0		A	156714905	A	A	156714905	2	1	61	1	0	0	0	0	0	0	0	1	7034	1140	40	1		1	HDGF	1	156714905	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	92227	156714905	92535716	76	42082											
PEAR1	375033	broad.mit.edu	37	chr1	156883234	156883234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accctgagcggccaggtgggGcccaagggcatgataaccac	10	4	14	13	1	0	2	0	2	0	0	0	2	0	2	4	5	2	1	4	5	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:156883234G>A	uc001fqj.1	+	20	2679	c.2563G>A	c.(2563-2565)GCC>ACC	p.A855T	PEAR1_uc001fqk.1_Missense_Mutation_p.A480T	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	855	Pro-rich.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GCCAGGTGGGGCCCAAGGGCA	0.667													6	34					0	0	0.001168	0	0		A	156883234	A	A	156883234	3	1	61	1	0	0	0	0	1	0	0	0	11731	1203	42	2	2637	2	PEAR1	1	156883234	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	168329	156883234	92367387	77	42083											
OR10Z1	128368	broad.mit.edu	37	chr1	158577123	158577123	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggaatagggctatacagAcagctctgaggaatgctttc	13	10	11	7	0	1	2	0	1	1	1	2	4	1	4	0	3	3	3	0	3	6	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:158577123A>G	uc010pio.1	+	1	895	c.895A>G	c.(895-897)ACA>GCA	p.T299A		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					GGCTATACAGACAGCTCTGAG	0.453													24	155					0	0	0.00278	0	0		G	158577123	G	G	158577123	3	3	61	1	0	0	0	0	1	0	0	0	10942	275	10	3	897	3	OR10Z1	1	158577123	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1693889	158577123	90673498	78	42084											
SPTA1	6708	broad.mit.edu	37	chr1	158651438	158651438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcaggtcccacaggtggCgtagctcctctatatgggcc	8	8	12	13	1	1	0	0	0	1	0	3	0	3	0	3	4	2	3	3	4	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:158651438C>T	uc001fst.1	-	4	609	c.410G>A	c.(409-411)CGC>CAC	p.R137H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	137	Spectrin 2.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CCACAGGTGGCGTAGCTCCTC	0.552													11	89					0	0	0.010729	0	0		T	158651438	T	T	158651438	3	4	61	1	0	0	0	0	1	0	0	0	15141	768	27	1	7045	1	SPTA1	1	158651438	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	74315	158651438	90599183	79	42085											
ARHGAP30	257106	broad.mit.edu	37	chr1	161018315	161018315	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccgttccttgctgacctcCcctgctcctccttcagttgc	2	14	6	19	1	1	1	1	1	0	0	6	1	6	1	7	0	3	4	7	0	0	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:161018315C>T	uc001fxl.2	-	12	2842	c.2496G>A	c.(2494-2496)GGG>GGA	p.G832G	USF1_uc001fxi.2_5'Flank|USF1_uc001fxj.2_5'Flank|ARHGAP30_uc001fxk.2_Intron|ARHGAP30_uc001fxm.2_Silent_p.G678G|ARHGAP30_uc009wtx.2_Silent_p.G505G	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	832	Glu-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			TGCTGACCTCCCCTGCTCCTC	0.547													23	94					0	0	0.014323	0	0		T	161018315	T	T	161018315	2	4	61	1	0	0	0	0	0	0	0	1	879	610	22	4		4	ARHGAP30	1	161018315	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2366877	161018315	88232306	80	42086											
ADAMTS4	9507	broad.mit.edu	37	chr1	161166501	161166501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccccaggatcactagcCgagtcaccaccaagctgaca	12	5	8	16	1	2	2	2	2	0	0	2	4	2	3	5	1	2	1	5	1	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:161166501C>T	uc001fyt.3	-	2	1231	c.803G>A	c.(802-804)CGG>CAG	p.R268Q	ADAMTS4_uc001fyu.2_Missense_Mutation_p.R268Q|NDUFS2_uc001fyv.2_5'Flank	NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	268	Peptidase M12B.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GATCACTAGCCGAGTCACCAC	0.647													24	79					0	0	0.00278	0	0		T	161166501	T	T	161166501	3	4	61	1	0	0	0	0	1	0	0	0	268	652	23	1	1742	1	ADAMTS4	1	161166501	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	148186	161166501	88084120	81	42087											
C1orf111	284680	broad.mit.edu	37	chr1	162344047	162344047	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttgaggaagtccagggtggGgtacatgcggcagcaggcca	9	6	17	9	1	0	1	0	1	0	0	1	2	1	2	2	6	3	3	2	6	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:162344047G>T	uc001gbx.2	-	3	641	c.577C>A	c.(577-579)CCC>ACC	p.P193T		NM_182581	NP_872387	Q5T0L3	CA111_HUMAN	hypothetical protein LOC284680	193										ovary(1)	1	all_hematologic(112;0.15)		BRCA - Breast invasive adenocarcinoma(70;0.0938)			TCCAGGGTGGGGTACATGCGG	0.587													34	131					1.62565e-12	1.81791e-12	0.012213	1	0		T	162344047	T	T	162344047	3	4	61	1	0	0	0	0	1	0	0	0	1987	1232	43	5	212	5	C1orf111	1	162344047	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1177546	162344047	86906574	82	42088											
PBX1	5087	broad.mit.edu	37	chr1	164776856	164776856	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcccatctcagcaacccttAccccagtgaggaagccaaag	12	7	7	15	0	1	1	1	1	1	0	3	2	2	2	5	1	4	1	5	1	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:164776856A>G	uc001gct.2	+	5	1037	c.779A>G	c.(778-780)TAC>TGC	p.Y260C	PBX1_uc010pku.1_Missense_Mutation_p.Y260C|PBX1_uc010pkv.1_Missense_Mutation_p.Y177C|PBX1_uc001gcs.2_Missense_Mutation_p.Y260C|PBX1_uc010pkw.1_Missense_Mutation_p.Y150C	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	260	Homeobox; TALE-type.				negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						AGCAACCCTTACCCCAGTGAG	0.473			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								17	95					0	0	0.006122	0	0		G	164776856	G	G	164776856	3	3	61	1	0	0	0	0	1	0	0	0	11511	391	14	3	797	3	PBX1	1	164776856	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	2432809	164776856	84473765	83	42089											
BAT2L2	23215	broad.mit.edu	37	chr1	171494056	171494056	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcccaaatacctgcccaAccatcagtagcaaaagttcc	13	9	4	15	0	2	0	1	0	1	0	4	0	4	0	5	0	4	3	5	0	6	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:171494056A>G	uc010pmg.1	+	10	1412	c.1146A>G	c.(1144-1146)CAA>CAG	p.Q382Q	BAT2L2_uc001ghr.1_Silent_p.Q384Q	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	382							protein C-terminus binding				0						TACCTGCCCAACCATCAGTAG	0.388													3	14					0	0	0.004672	0	0		G	171494056	G	G	171494056	2	3	61	1	0	0	0	0	0	0	0	1	1322	40	2	3		3	BAT2L2	1	171494056	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	6717200	171494056	77756565	84	42090											
RASAL2	9462	broad.mit.edu	37	chr1	178063757	178063757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcccagtcagtggagccGtcgccggtggcatgttggat	5	11	15	10	3	1	0	1	0	0	0	3	2	2	2	3	4	1	2	3	4	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:178063757G>A	uc001glq.2	+	1	894	c.130G>A	c.(130-132)GTC>ATC	p.V44I	RASAL2_uc009wxb.2_Missense_Mutation_p.V44I|LOC100302401_uc001gln.1_5'Flank|LOC100302401_uc001glo.1_5'Flank|RASAL2_uc009wxa.2_RNA	NM_170692	NP_733793	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 2	Error:Variant_position_missing_in_Q9UJF2_after_alignment					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						CAGTGGAGCCGTCGCCGGTGG	0.672													4	14					0	0	0.009096	0	0		A	178063757	A	A	178063757	3	1	61	1	0	0	0	0	1	0	0	0	13089	1145	40	1	132	1	RASAL2	1	178063757	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	6569701	178063757	71186864	85	42091											
ZNF648	127665	broad.mit.edu	37	chr1	182025680	182025680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttggtgccgcttcagggtcGaagagcgggcaaaggcctgg	7	7	18	9	3	1	1	1	0	0	1	2	2	1	1	2	5	2	3	2	5	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:182025680G>A	uc001goz.2	-	2	1674	c.1466C>T	c.(1465-1467)TCG>TTG	p.S489L		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	489	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTTCAGGGTCGAAGAGCGGGC	0.667													3	21					0	0	0.009096	0	0		A	182025680	A	A	182025680	3	1	61	1	0	0	0	0	1	0	0	0	18088	1059	37	1	244	1	ZNF648	1	182025680	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3961923	182025680	67224941	86	42092											
C1orf14	81626	broad.mit.edu	37	chr1	182869270	182869270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgagagcttcttctgctaCgataaaaaactgttccattg	11	14	8	8	1	2	1	0	1	2	1	3	3	3	1	1	0	4	4	1	0	4	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:182869270C>T	uc001gpu.2	-	10	2095	c.1810G>A	c.(1810-1812)GTA>ATA	p.V604I	C1orf14_uc001gpv.2_Missense_Mutation_p.V485I|C1orf14_uc010pnz.1_Missense_Mutation_p.V462I|C1orf14_uc001gpw.2_Missense_Mutation_p.V324I	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	676											0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		TCTTCTGCTACGATAAAAAAC	0.343													7	25					0	0	0.00308	0	0		T	182869270	T	T	182869270	3	4	61	1	0	0	0	0	1	0	0	0	2003	536	19	1	155	1	C1orf14	1	182869270	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	843590	182869270	66381351	87	42093											
TPR	7175	broad.mit.edu	37	chr1	186328998	186328998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacgttcatattcctcaCgctggcgtttcaaaattggt	8	14	9	10	3	3	0	3	0	0	0	4	0	4	0	1	2	1	4	1	2	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:186328998C>T	uc001grv.2	-	12	1619	c.1322G>A	c.(1321-1323)CGT>CAT	p.R441H	TPR_uc010pop.1_Missense_Mutation_p.R517H	NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	441	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		ATATTCCTCACGCTGGCGTTT	0.383			T	NTRK1	papillary thyroid								14	53					0	0	0.001855	0	0		T	186328998	T	T	186328998	3	4	61	1	0	0	0	0	1	0	0	0	16442	536	19	1	5929	1	TPR	1	186328998	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3459728	186328998	62921623	88	42094											
FAM5C	339479	broad.mit.edu	37	chr1	190068096	190068096	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcggttgtctggtgcgcaTgtcaggcaggcagaggcgtc	5	9	18	9	3	2	1	1	0	1	1	3	1	2	1	0	5	2	4	0	5	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:190068096T>C	uc001gse.1	-	8	1585	c.1353A>G	c.(1351-1353)ACA>ACG	p.T451T	FAM5C_uc010pot.1_Silent_p.T349T	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	451						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CTGGTGCGCATGTCAGGCAGG	0.632													10	66					0	0	0.006214	0	0		C	190068096	C	C	190068096	2	2	61	1	0	0	0	0	0	0	0	1	5608	1451	51	3		3	FAM5C	1	190068096	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	3739098	190068096	59182525	89	42095											
CFHR3	10878	broad.mit.edu	37	chr1	196749098	196749098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctactcccagatgcatccGtgtcagtaagtacaccgctc	9	10	7	15	2	1	1	1	0	0	1	5	1	4	1	4	0	3	4	4	0	3	3	rs144960443		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:196749098G>A	uc001gtl.2	+	3	512	c.425G>A	c.(424-426)CGT>CAT	p.R142H	CFHR3_uc001gtk.2_Missense_Mutation_p.R142H|CFHR3_uc010poy.1_Missense_Mutation_p.R142H|CFHR1_uc001gtm.2_Intron	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	142	Sushi 2.					extracellular space					0						AGATGCATCCGTGTCAGTAAG	0.483													5	71					0	0	0.001168	0	0		A	196749098	A	A	196749098	3	1	61	1	0	0	0	0	1	0	0	0	3289	1145	40	1	435	1	CFHR3	1	196749098	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	6681002	196749098	52501523	90	42096											
ASPM	259266	broad.mit.edu	37	chr1	197093329	197093329	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaaaggaaccactatcccTtttgccttttttcttattaa	10	18	3	10	0	2	0	1	0	1	0	3	1	3	1	3	1	2	0	3	1	5	9			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:197093329T>C	uc001gtu.2	-	13	3558	c.3301A>G	c.(3301-3303)AGG>GGG	p.R1101G	ASPM_uc001gtv.2_Missense_Mutation_p.R1101G|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1101					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						CCACTATCCCTTTTGCCTTTT	0.303													11	56					0	0	0.010729	0	0		C	197093329	C	C	197093329	3	2	61	1	0	0	0	0	1	0	0	0	1057	1608	56	3	7196	3	ASPM	1	197093329	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	344231	197093329	52157292	91	42097											
ASPM	259266	broad.mit.edu	37	chr1	197108943	197108943	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaactggactgtgccacagcGataatgggttttgtcctttt	9	14	10	8	1	0	0	0	0	0	0	1	2	1	1	2	2	3	1	2	2	2	5	rs151087446		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:197108943G>A	uc001gtu.2	-	4	2237	c.1980C>T	c.(1978-1980)ATC>ATT	p.I660I	ASPM_uc001gtv.2_Silent_p.I660I|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	660					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GTGCCACAGCGATAATGGGTT	0.294													18	71					0	0	0.008871	0	0		A	197108943	A	A	197108943	2	1	61	1	0	0	0	0	0	0	0	1	1057	1048	37	1		1	ASPM	1	197108943	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	15614	197108943	52141678	92	42098											
KIF21B	23046	broad.mit.edu	37	chr1	200944791	200944791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtcacacactcgcccagctCgaacatctgtgggaggaggg	9	6	13	13	3	2	0	1	0	1	0	4	3	2	2	1	3	2	1	1	3	1	0	rs146030020	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:200944791C>T	uc001gvs.1	-	33	4767	c.4450G>A	c.(4450-4452)GAG>AAG	p.E1484K	KIF21B_uc001gvr.1_Missense_Mutation_p.E1471K|KIF21B_uc009wzl.1_Missense_Mutation_p.E1484K|KIF21B_uc010ppn.1_Missense_Mutation_p.E1471K	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	1484	WD 4.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						TCGCCCAGCTCGAACATCTGT	0.632													8	32					0	0	0.00308	0	0		T	200944791	T	T	200944791	3	4	61	1	0	0	0	0	1	0	0	0	8305	893	31	1	475	1	KIF21B	1	200944791	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3835848	200944791	48305830	93	42099											
IPO9	55705	broad.mit.edu	37	chr1	201840319	201840319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgttcgctcatctggtgCacactcagctagaacctctc	7	12	9	13	1	4	1	2	0	2	1	6	1	4	1	1	2	3	4	1	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:201840319C>T	uc001gwz.2	+	19	2490	c.2440C>T	c.(2440-2442)CAC>TAC	p.H814Y		NM_018085	NP_060555	Q96P70	IPO9_HUMAN	importin 9	814					protein import into nucleus	cytoplasm|nucleus	histone binding|protein transporter activity			ovary(2)	2						TCATCTGGTGCACACTCAGCT	0.493													19	99					0	0	0.010504	0	0		T	201840319	T	T	201840319	3	4	61	1	0	0	0	0	1	0	0	0	7815	710	25	2	2514	2	IPO9	1	201840319	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	895528	201840319	47410302	94	42100											
SYT2	127833	broad.mit.edu	37	chr1	202568475	202568475	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaggtggatcttcacgtaCgggtctgcggagggagaatc	9	9	15	8	3	4	1	2	0	2	1	5	4	4	3	0	5	2	1	0	5	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:202568475C>T	uc001gye.2	-	8	1117	c.924G>A	c.(922-924)CCG>CCA	p.P308P	SYT2_uc010pqb.1_Silent_p.P308P|SYT2_uc009xaf.2_Silent_p.P138P	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	308	Phospholipid binding (By similarity).|C2 2.|Cytoplasmic (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	TCTTCACGTACGGGTCTGCGG	0.552													8	78					0	0	0.006214	0	0		T	202568475	T	T	202568475	2	4	61	1	0	0	0	0	0	0	0	1	15499	523	19	1		1	SYT2	1	202568475	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	728156	202568475	46682146	95	42101											
PIK3C2B	5287	broad.mit.edu	37	chr1	204403573	204403573	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagatcacttaccgcttgAtgttgccaaacatctgggca	11	10	10	10	1	2	2	1	1	1	1	2	3	2	2	2	2	3	3	2	2	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:204403573A>G	uc001haw.2	-	25	4159	c.3680T>C	c.(3679-3681)ATC>ACC	p.I1227T	PIK3C2B_uc010pqv.1_Missense_Mutation_p.I1199T	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	1227	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			TTACCGCTTGATGTTGCCAAA	0.512													4	16					0	0	0.009096	0	0		G	204403573	G	G	204403573	3	3	61	1	0	0	0	0	1	0	0	0	11929	333	12	3	1264	3	PIK3C2B	1	204403573	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1835098	204403573	44847048	96	42102											
YOD1	55432	broad.mit.edu	37	chr1	207222856	207222856	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgctacaatttgtgctaTgaggcgtctcatctcagggg	7	13	12	9	1	2	1	2	1	2	0	4	1	2	1	0	3	3	3	0	3	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:207222856T>C	uc001hfe.1	-	2	603	c.556A>G	c.(556-558)ATA>GTA	p.I186V	PFKFB2_uc010psc.1_5'UTR|YOD1_uc001hff.1_Missense_Mutation_p.I142V	NM_018566	NP_061036	Q5VVQ6	OTU1_HUMAN	YOD1 OTU deubiquinating enzyme 1 homolog	186	OTU.				cellular amino acid metabolic process|endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|protein K48-linked deubiquitination|protein K63-linked deubiquitination	intracellular	protein binding|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1	Prostate(682;0.19)					ATTTGTGCTATGAGGCGTCTC	0.468													19	81					0	0	0.008871	0	0		C	207222856	C	C	207222856	3	2	61	1	0	0	0	0	1	0	0	0	17514	1464	51	3	494	3	YOD1	1	207222856	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	2819283	207222856	42027765	97	42103											
CR2	1380	broad.mit.edu	37	chr1	207646356	207646356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgctgtccagtgctcaCatgtccatattgcaaatgga	9	13	8	11	0	1	0	1	0	0	0	4	1	4	1	3	1	3	3	3	1	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:207646356C>T	uc001hfw.2	+	10	1904	c.1810C>T	c.(1810-1812)CAT>TAT	p.H604Y	CR2_uc001hfv.2_Missense_Mutation_p.H604Y|CR2_uc009xch.2_Missense_Mutation_p.H604Y|CR2_uc009xci.1_Missense_Mutation_p.H89Y	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	604	Sushi 10.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						CCAGTGCTCACATGTCCATAT	0.448													9	37					0	0	0.006214	0	0		T	207646356	T	T	207646356	3	4	61	1	0	0	0	0	1	0	0	0	3845	478	17	4	1848	4	CR2	1	207646356	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	423500	207646356	41604265	98	42104											
CR1	1378	broad.mit.edu	37	chr1	207748941	207748941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccattttttgcctttaggCaccgactcattggtcactca	7	16	6	12	1	3	0	3	0	0	0	4	1	4	0	3	2	1	1	3	2	1	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:207748941C>T	uc001hfy.2	+	20	3243	c.3103C>T	c.(3103-3105)CAC>TAC	p.H1035Y	CR1_uc009xcl.1_Missense_Mutation_p.H585Y|CR1_uc001hfx.2_Missense_Mutation_p.H1485Y	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1035	Extracellular (Potential).|Sushi 16.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TGCCTTTAGGCACCGACTCAT	0.423													31	142					0	0	0.010818	0	0		T	207748941	T	T	207748941	3	4	61	1	0	0	0	0	1	0	0	0	3843	724	25	2	4563	2	CR1	1	207748941	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	102585	207748941	41501680	99	42105											
CD46	4179	broad.mit.edu	37	chr1	207940426	207940426	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatttggaaaaaaattttacTacaaagcaacagttatgttt	17	14	6	4	0	0	0	0	0	0	0	0	2	0	1	0	1	4	3	0	1	8	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:207940426T>C	uc001hgc.2	+	6	898	c.742T>C	c.(742-744)TAC>CAC	p.Y248H	CD46_uc001hgd.2_Missense_Mutation_p.Y248H|CD46_uc001hge.2_Missense_Mutation_p.Y248H|CD46_uc001hgf.2_Missense_Mutation_p.Y248H|CD46_uc001hgg.2_Missense_Mutation_p.Y248H|CD46_uc001hgh.2_Missense_Mutation_p.Y248H|CD46_uc001hgi.2_Missense_Mutation_p.Y248H|CD46_uc001hgj.2_Missense_Mutation_p.Y248H|CD46_uc001hgk.2_Missense_Mutation_p.Y248H|CD46_uc001hgl.2_Missense_Mutation_p.Y248H|CD46_uc001hgm.2_Missense_Mutation_p.Y248H|CD46_uc001hgn.2_Missense_Mutation_p.Y248H|CD46_uc001hgo.2_Missense_Mutation_p.Y248H|CD46_uc001hgp.2_Missense_Mutation_p.Y248H	NM_002389	NP_002380	P15529	MCP_HUMAN	CD46 antigen, complement regulatory protein	248	Extracellular (Potential).|Sushi 4.				complement activation, classical pathway|innate immune response|interspecies interaction between organisms|single fertilization	inner acrosomal membrane|integral to plasma membrane	protein binding|receptor activity			large_intestine(2)|lung(1)|central_nervous_system(1)	4						AAAATTTTACTACAAAGCAAC	0.388													5	55					0	0	0.000602	0	0		C	207940426	C	C	207940426	3	2	61	1	0	0	0	0	1	0	0	0	3021	1522	53	3	764	3	CD46	1	207940426	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	191485	207940426	41310195	100	42106											
PLXNA2	5362	broad.mit.edu	37	chr1	208219401	208219401	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgtccaggccagggcggTagtccgtggtcagagagggt	7	7	18	9	2	1	1	1	0	0	1	3	2	3	1	3	5	0	1	3	5	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:208219401T>C	uc001hgz.2	-	18	4075	c.3317A>G	c.(3316-3318)TAC>TGC	p.Y1106C		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1106	Extracellular (Potential).|IPT/TIG 3.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GCCAGGGCGGTAGTCCGTGGT	0.507													10	43					0	0	0.006214	0	0		C	208219401	C	C	208219401	3	2	61	1	0	0	0	0	1	0	0	0	12139	1638	57	3	2427	3	PLXNA2	1	208219401	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	278975	208219401	41031220	101	42107											
RPS6KC1	26750	broad.mit.edu	37	chr1	213403856	213403856	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggttttacttgtaatggAcacaaggacagaacagactt	14	11	10	6	0	0	2	0	0	0	2	0	4	0	4	0	3	2	3	0	3	5	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:213403856A>G	uc010ptr.1	+	9	1220	c.1061A>G	c.(1060-1062)GAC>GGC	p.D354G	RPS6KC1_uc001hkd.2_Missense_Mutation_p.D342G|RPS6KC1_uc010pts.1_Missense_Mutation_p.D142G|RPS6KC1_uc010ptt.1_Missense_Mutation_p.D142G|RPS6KC1_uc010ptu.1_Missense_Mutation_p.D173G|RPS6KC1_uc010ptv.1_Intron|RPS6KC1_uc001hke.2_Missense_Mutation_p.D173G	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	354	Protein kinase 1.				cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		CTTGTAATGGACACAAGGACA	0.199													7	43					0	0	0.004482	0	0		G	213403856	G	G	213403856	3	3	61	1	0	0	0	0	1	0	0	0	13683	275	10	3	1095	3	RPS6KC1	1	213403856	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	5184455	213403856	35846765	102	42108											
USH2A	7399	broad.mit.edu	37	chr1	216419954	216419954	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acactgattacaccttcttcCttgacgattaggcacacaca	12	11	5	13	1	1	2	0	2	1	0	2	3	2	2	2	1	1	1	2	1	2	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:216419954C>A	uc001hku.1	-	13	3169	c.2782G>T	c.(2782-2784)GGA>TGA	p.G928*	USH2A_uc001hkv.2_Nonsense_Mutation_p.G928*	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	928	Laminin EGF-like 8.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CACCTTCTTCCTTGACGATTA	0.438										HNSCC(13;0.011)			6	103					3.59834e-05	3.81827e-05	0.001168	1	0		A	216419954	A	A	216419954	4	1	61	1	0	0	0	0	0	1	0	0	17062	690	24	5	13080	5	USH2A	1	216419954	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3016098	216419954	32830667	103	42109											
SPATA17	128153	broad.mit.edu	37	chr1	217955552	217955552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccgaagtattagaacaaCgctacaggcctttggagcca	13	8	9	11	2	1	1	1	0	0	1	1	3	1	2	3	2	4	2	3	2	6	4	rs145142638	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:217955552C>T	uc001hlh.1	+	8	786	c.760C>T	c.(760-762)CGC>TGC	p.R254C	SPATA17_uc009xdr.1_RNA|SPATA17_uc001hli.2_Missense_Mutation_p.R254C	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	254						cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		ATTAGAACAACGCTACAGGCC	0.458													7	37					0	0	0.001984	0	0		T	217955552	T	T	217955552	3	4	61	1	0	0	0	0	1	0	0	0	15027	536	19	1	790	1	SPATA17	1	217955552	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1535598	217955552	31295069	104	42110											
FBXO28	23219	broad.mit.edu	37	chr1	224301979	224301980	+	Frame_Shift_Ins	INS	-	C	C																															ggggtcccaggcgctcccagINScccccgcgctggctccggac																										TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:224301979_224301980insC	uc001hoh.2	+	1	189_190	c.148_149insC	c.(148-150)GCCfs	p.A50fs	FBXO28_uc009xef.2_Frame_Shift_Ins_p.A50fs|FBXO28_uc010pvc.1_5'UTR	NM_015176	NP_055991	Q9NVF7	FBX28_HUMAN	F-box protein 28 isoform a	50										ovary(2)|kidney(2)|lung(1)	5	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.0363)		GGCGCTCCCAGCCCCCGCGCTG	0.668													2	4	---	---	---	---						.	C	224301980	C	C	224301979	7	5	61	1	0	1	1	0	0	0	0	0	5752	971	34	0	150	0	FBXO28	1	224301979	Frame_Shift_Ins	INS	-	TCGA-BR-8081-01A-11D-2340-08	6346427	224301979	24948642	105	42111											
PARP1	142	broad.mit.edu	37	chr1	226576414	226576414	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttttttagatttcttcttCgccacttcatccactccatc	6	19	2	14	1	4	1	1	0	3	1	8	1	6	1	3	0	0	0	3	0	1	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:226576414C>T	uc001hqd.3	-	5	831	c.660G>A	c.(658-660)GCG>GCA	p.A220A		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	220					cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		ATTTCTTCTTCGCCACTTCAT	0.433								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					21	108					0	0	0.00278	0	0		T	226576414	T	T	226576414	2	4	61	1	0	0	0	0	0	0	0	1	11473	871	31	1		1	PARP1	1	226576414	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2274435	226576414	22674207	106	42112											
WNT3A	89780	broad.mit.edu	37	chr1	228210473	228210473	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccgcttctgcaggaactaCgtggagatcatgcccagcgt	8	9	11	13	3	2	1	1	0	1	1	3	3	3	2	2	2	5	2	2	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:228210473C>T	uc001hrq.1	+	2	255	c.177C>T	c.(175-177)TAC>TAT	p.Y59Y	WNT3A_uc001hrp.1_Silent_p.Y59Y	NM_033131	NP_149122	P56704	WNT3A_HUMAN	wingless-type MMTV integration site family,	59					axis specification|cell proliferation in forebrain|cell-cell signaling|cellular response to retinoic acid|convergent extension|dermatome development|dorsal/ventral neural tube patterning|embryonic pattern specification|extracellular matrix organization|hemopoietic stem cell proliferation|hippocampus development|inner ear morphogenesis|mammary gland development|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of neuron projection development|notochord development|palate development|paraxial mesodermal cell fate commitment|positive regulation of catenin import into nucleus|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of receptor internalization|positive regulation of transcription from RNA polymerase II promoter|signalosome assembly|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuroblast division|Wnt receptor signaling pathway, calcium modulating pathway	cell surface|early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled-2 binding|receptor agonist activity|signal transducer activity|transcription coactivator activity	p.Y59Y(1)		ovary(1)	1		Prostate(94;0.0405)				GCAGGAACTACGTGGAGATCA	0.652													12	27					0	0	0.013537	0	0		T	228210473	T	T	228210473	2	4	61	1	0	0	0	0	0	0	0	1	17415	547	19	1		1	WNT3A	1	228210473	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1634059	228210473	21040148	107	42113											
OBSCN	84033	broad.mit.edu	37	chr1	228495098	228495098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagggcgtggagctgcatgCgggccccaagtacgagatgc	8	5	18	10	3	0	1	0	0	0	1	0	4	0	3	2	4	5	3	2	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:228495098C>T	uc009xez.1	+	46	12376	c.12332C>T	c.(12331-12333)GCG>GTG	p.A4111V	OBSCN_uc001hsn.2_Missense_Mutation_p.A4111V	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4111	Ig-like 42.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GAGCTGCATGCGGGCCCCAAG	0.652													8	20					0	0	0.00308	0	0		T	228495098	T	T	228495098	3	4	61	1	0	0	0	0	1	0	0	0	10831	768	27	1	12510	1	OBSCN	1	228495098	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	284625	228495098	20755523	108	42114											
HIST3H2BB	128312	broad.mit.edu	37	chr1	228646120	228646120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtcccgcgaagtgcagaCggccgttcgcctgctgctgc	5	7	13	16	6	0	1	0	0	0	1	2	2	1	1	3	1	4	4	3	1	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:228646120C>T	uc001hsz.2	+	1	313	c.290C>T	c.(289-291)ACG>ATG	p.T97M	HIST3H2A_uc001hsy.2_5'Flank	NM_175055	NP_778225	Q8N257	H2B3B_HUMAN	histone cluster 3, H2bb	97					nucleosome assembly	nucleosome|nucleus	DNA binding			skin(1)	1		Prostate(94;0.183)				GAAGTGCAGACGGCCGTTCGC	0.637													14	76					0	0	0.00245	0	0		T	228646120	T	T	228646120	3	4	61	1	0	0	0	0	1	0	0	0	7199	536	19	1	292	1	HIST3H2BB	1	228646120	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	151022	228646120	20604501	109	42115											
ACTA1	58	broad.mit.edu	37	chr1	229567918	229567918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctccttgatgtcgcgcaCgatctcgcgctcagctgcgg	4	11	11	15	6	3	1	1	1	2	0	6	2	3	1	1	1	2	3	1	1	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:229567918C>T	uc001htm.2	-	5	736	c.631G>A	c.(631-633)GTG>ATG	p.V211M		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	211					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	ATGTCGCGCACGATCTCGCGC	0.483													7	19					0	0	0.001984	0	0		T	229567918	T	T	229567918	3	4	61	1	0	0	0	0	1	0	0	0	191	536	19	1	514	1	ACTA1	1	229567918	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	921798	229567918	19682703	110	42116											
RYR2	6262	broad.mit.edu	37	chr1	237659953	237659953	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggctgggcttccactgaaGgatattctccctaccctgga	7	11	11	12	0	1	1	0	1	1	0	3	3	2	3	3	4	1	2	3	4	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:237659953G>T	uc001hyl.1	+	20	2224	c.2104G>T	c.(2104-2106)GGA>TGA	p.G702*		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	702	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTCCACTGAAGGATATTCTCC	0.507													10	64					1.58986e-06	1.71278e-06	0.008291	1	0		T	237659953	T	T	237659953	4	4	61	1	0	0	0	0	0	1	0	0	13794	1001	35	5	2182	5	RYR2	1	237659953	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	8092035	237659953	11590668	111	42117											
RYR2	6262	broad.mit.edu	37	chr1	237806708	237806708	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgggagatttggtgggcGttatcagcatcgcttttcag	6	13	13	9	2	2	1	2	0	0	1	3	2	2	1	1	3	1	3	1	3	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:237806708G>A	uc001hyl.1	+	48	7423	c.7303G>A	c.(7303-7305)GTT>ATT	p.V2435I		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2435	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTTGGTGGGCGTTATCAGCAT	0.433													10	84					0	0	0.008291	0	0		A	237806708	A	A	237806708	3	1	61	1	0	0	0	0	1	0	0	0	13794	1145	40	1	7493	1	RYR2	1	237806708	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	146755	237806708	11443913	112	42118											
RYR2	6262	broad.mit.edu	37	chr1	237947057	237947057	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacgtggagatgattctcaaAttttttgacatgttcttaaa	13	16	7	5	1	2	3	1	2	2	1	3	4	2	3	0	1	1	1	0	1	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:237947057A>T	uc001hyl.1	+	90	12165	c.12045A>T	c.(12043-12045)AAA>AAT	p.K4015N	RYR2_uc010pya.1_Missense_Mutation_p.K430N	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4015					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TGATTCTCAAATTTTTTGACA	0.403													5	21					0	0	0.000602	0	0		T	237947057	T	T	237947057	3	4	61	1	0	0	0	0	1	0	0	0	13794	98	4	5	12403	5	RYR2	1	237947057	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	140349	237947057	11303564	113	42119											
PLD5	200150	broad.mit.edu	37	chr1	242277235	242277235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcaggtagtccatgacagCgatgtacacatactgcttgg	11	9	12	9	1	0	1	0	1	0	0	1	2	1	1	1	3	4	4	1	3	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:242277235C>T	uc001hzn.1	-	7	1154	c.1027G>A	c.(1027-1029)GCT>ACT	p.A343T	PLD5_uc001hzl.3_Missense_Mutation_p.A281T|PLD5_uc001hzm.3_Missense_Mutation_p.A133T|PLD5_uc001hzo.1_Missense_Mutation_p.A251T			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	343						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			TCCATGACAGCGATGTACACA	0.453													12	47					0	0	0.013537	0	0		T	242277235	T	T	242277235	3	4	61	1	0	0	0	0	1	0	0	0	12068	768	27	1	599	1	PLD5	1	242277235	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4330178	242277235	6973386	114	42120											
SCCPDH	51097	broad.mit.edu	37	chr1	246903516	246903516	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatcatgagaaagctgcaGacaaaggggtttatatcatt	15	11	10	5	0	2	2	2	1	0	2	2	3	2	2	0	2	2	4	0	2	5	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:246903516G>T	uc001ibr.2	+	4	774	c.427G>T	c.(427-429)GAC>TAC	p.D143Y		NM_016002	NP_057086	Q8NBX0	SCPDH_HUMAN	saccharopine dehydrogenase (putative)	143						midbody	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity			ovary(1)	1	all_cancers(71;6.8e-05)|all_epithelial(71;7.93e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0545)|Lung NSC(105;0.0618)	all_cancers(173;0.0343)	OV - Ovarian serous cystadenocarcinoma(106;0.00323)	GBM - Glioblastoma multiforme(49;0.0896)		GAAAGCTGCAGACAAAGGGGT	0.348													9	59					0.000442599	0.000461331	0.006214	1	0		T	246903516	T	T	246903516	3	4	61	1	0	0	0	0	1	0	0	0	13910	942	33	5	441	5	SCCPDH	1	246903516	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4626281	246903516	2347105	115	42121											
OR2B11	127623	broad.mit.edu	37	chr1	247614943	247614943	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggccaggacgatgcactcCgtgcatcccagccagtggaa	9	5	13	14	3	0	0	0	0	0	0	2	3	2	2	4	3	3	2	4	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:247614943C>T	uc010pyx.1	-	1	342	c.342G>A	c.(340-342)ACG>ACA	p.T114T		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	114	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CGATGCACTCCGTGCATCCCA	0.597													14	60					0	0	0.00245	0	0		T	247614943	T	T	247614943	2	4	61	1	0	0	0	0	0	0	0	1	11007	639	23	1		1	OR2B11	1	247614943	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	711427	247614943	1635678	116	42122											
OR2G3	81469	broad.mit.edu	37	chr1	247769083	247769083	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacttttttctcagcaacCtctctttactggacatctgc	7	17	5	12	0	3	0	1	0	3	0	5	1	3	1	1	1	5	2	1	1	3	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:247769083C>A	uc010pyz.1	+	1	196	c.196C>A	c.(196-198)CTC>ATC	p.L66I		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TCTCAGCAACCTCTCTTTACT	0.448													25	180					7.38237e-10	8.18631e-10	0.00632	1	0		A	247769083	A	A	247769083	3	1	61	1	0	0	0	0	1	0	0	0	11018	681	24	5	198	5	OR2G3	1	247769083	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	154140	247769083	1481538	117	42123											
OR11L1	391189	broad.mit.edu	37	chr1	248004808	248004808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcatgaggaaggggtagcGgagtgggctgcagatggcca	10	6	19	6	1	0	2	0	1	0	1	0	4	0	4	1	6	3	4	1	6	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:248004808G>A	uc001idn.1	-	1	391	c.391C>T	c.(391-393)CGC>TGC	p.R131C		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			AAGGGGTAGCGGAGTGGGCTG	0.587													8	34					0	0	0.00308	0	0		A	248004808	A	A	248004808	3	1	61	1	0	0	0	0	1	0	0	0	10949	1116	39	1	581	1	OR11L1	1	248004808	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	235725	248004808	1245813	118	42124											
OR2L8	391190	broad.mit.edu	37	chr1	248112563	248112563	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccactatctcatccgcaTgagcaaaagagtgtgtgtgc	10	11	9	11	1	2	2	1	1	2	1	5	2	3	2	2	0	2	2	2	0	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:248112563T>C	uc001idt.1	+	1	404	c.404T>C	c.(403-405)ATG>ACG	p.M135T	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			CTCATCCGCATGAGCAAAAGA	0.433													23	153					0	0	0.012319	0	0		C	248112563	C	C	248112563	3	2	61	1	0	0	0	0	1	0	0	0	11028	1464	51	3	406	3	OR2L8	1	248112563	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	107755	248112563	1138058	119	42125											
OR2T12	127064	broad.mit.edu	37	chr1	248458349	248458349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcaccaacacgggggcctCgcagaagaagtgatcgatct	12	5	12	12	4	1	3	0	1	1	2	3	4	1	3	2	2	1	2	2	2	3	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:248458349C>T	uc010pzj.1	-	1	532	c.532G>A	c.(532-534)GAG>AAG	p.E178K		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	178	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			ACGGGGGCCTCGCAGAAGAAG	0.567													17	56					0	0	0.006122	0	0		T	248458349	T	T	248458349	3	4	61	1	0	0	0	0	1	0	0	0	11038	893	31	1	433	1	OR2T12	1	248458349	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	345786	248458349	792272	120	42126											
OR2M7	391196	broad.mit.edu	37	chr1	248487386	248487386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtaggagaaggaaaatgtcGctacagcatcaatgattcca	16	8	10	7	1	1	2	1	1	0	1	3	4	2	3	1	2	2	3	1	2	6	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:248487386G>A	uc010pzk.1	-	1	485	c.485C>T	c.(484-486)GCG>GTG	p.A162V		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	162	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGAAAATGTCGCTACAGCATC	0.453													53	205					0	0	0.01441	0	0		A	248487386	A	A	248487386	3	1	61	1	0	0	0	0	1	0	0	0	11033	1087	38	1	456	1	OR2M7	1	248487386	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	29037	248487386	763235	121	42127											
ZNF692	55657	broad.mit.edu	37	chr1	249151606	249151606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttggccgccaggccccCgaagcccgggcaccaggctg	6	4	13	18	3	1	0	0	0	1	0	1	1	1	0	6	4	1	2	6	4	1	1	rs143513211		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:249151606C>T	uc001ifc.1	-	4	469	c.302G>A	c.(301-303)CGG>CAG	p.R101Q	ZNF692_uc001iez.1_5'Flank|ZNF692_uc001ifa.1_5'UTR|ZNF692_uc001ifb.1_5'UTR|ZNF692_uc001ifd.1_Missense_Mutation_p.R101Q|ZNF692_uc001ife.1_RNA|ZNF692_uc001iff.1_Missense_Mutation_p.R101Q|ZNF692_uc010pzr.1_Missense_Mutation_p.R106Q	NM_017865	NP_060335	Q9BU19	ZN692_HUMAN	zinc finger protein 692 isoform 2	101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			GCCAGGCCCCCGAAGCCCGGG	0.632													18	61					0	0	0.00499	0	0		T	249151606	T	T	249151606	3	4	61	1	0	0	0	0	1	0	0	0	18122	652	23	1	1293	1	ZNF692	1	249151606	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	664220	249151606	99015	122	42128											
PXDN	7837	broad.mit.edu	37	chr2	1652415	1652415	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgtggtactctcccagcGtcctcatgcccacctccccc	5	8	7	21	2	2	0	1	0	1	0	5	0	4	0	7	1	4	1	7	1	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:1652415G>A	uc002qxa.2	-	17	3201	c.3137C>T	c.(3136-3138)ACG>ATG	p.T1046M		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1046					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CTCTCCCAGCGTCCTCATGCC	0.602													3	11					0	0	0.004672	0	0		A	1652415	A	A	1652415	3	1	61	1	0	0	0	0	1	0	0	0	12872	1145	40	1	1330	1	PXDN	2	1652415	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08		1652415	241546958	123	42129											
GRHL1	29841	broad.mit.edu	37	chr2	10136026	10136026	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctctgtcttgaaaagggggCcgtacggcacagaagatgac	11	7	14	9	2	2	4	0	2	2	2	2	4	2	4	1	3	1	3	1	3	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:10136026C>A	uc002raa.2	+	13	1690	c.1519C>A	c.(1519-1521)CCG>ACG	p.P507T	GRHL1_uc002rab.2_RNA|GRHL1_uc002rad.2_Missense_Mutation_p.P318T|GRHL1_uc010yjb.1_Missense_Mutation_p.P356T	NM_198182	NP_937825	Q9NZI5	GRHL1_HUMAN	grainyhead-like 1	507					cellular lipid metabolic process|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding			pancreas(1)|skin(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.246)		GAAAAGGGGGCCGTACGGCAC	0.473													40	140					6.5261e-18	7.35228e-18	0.00874	1	0		A	10136026	A	A	10136026	3	1	61	1	0	0	0	0	1	0	0	0	6779	739	26	5	1569	5	GRHL1	2	10136026	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	8483611	10136026	233063347	124	42130											
GREB1	9687	broad.mit.edu	37	chr2	11780503	11780503	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaggacgagtggcagttcCggctgcgcgatgagttccag	7	8	16	10	5	0	1	0	1	0	0	3	5	2	2	2	3	1	4	2	3	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:11780503C>T	uc002rbk.1	+	33	6073	c.5773C>T	c.(5773-5775)CGG>TGG	p.R1925W	GREB1_uc002rbp.1_Missense_Mutation_p.R923W	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1925						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GTGGCAGTTCCGGCTGCGCGA	0.617													9	49					0	0	0.008291	0	0		T	11780503	T	T	11780503	3	4	61	1	0	0	0	0	1	0	0	0	6776	643	23	1	6007	1	GREB1	2	11780503	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1644477	11780503	231418870	125	42131											
MFSD2B	388931	broad.mit.edu	37	chr2	24247090	24247090	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcatcctcatggtcggctCcactccaaagacacccagtc	9	8	7	17	1	1	1	1	0	0	1	6	1	4	1	4	2	1	2	4	2	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:24247090C>A	uc002reo.1	+	13	1453	c.1439C>A	c.(1438-1440)TCC>TAC	p.S480Y		NM_001080473	NP_001073942	A6NFX1	MFS2B_HUMAN	major facilitator superfamily domain containing	480					transport	integral to membrane				ovary(2)	2						ATGGTCGGCTCCACTCCAAAG	0.647													3	9					6.4e-05	6.75882e-05	0.004672	1	0		A	24247090	A	A	24247090	3	1	61	1	0	0	0	0	1	0	0	0	9549	855	30	5	1489	5	MFSD2B	2	24247090	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	12466587	24247090	218952283	126	42132											
ITSN2	50618	broad.mit.edu	37	chr2	24524945	24524945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	actcttctgcttttagctgtCcatcaccatcaacgtcagcc	8	13	5	15	1	5	0	3	0	2	0	6	0	6	0	3	0	4	2	3	0	2	3	rs146161429	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:24524945C>T	uc002rfe.2	-	10	1142	c.884G>A	c.(883-885)GGA>GAA	p.G295E	ITSN2_uc002rff.2_Missense_Mutation_p.G295E|ITSN2_uc002rfg.2_Missense_Mutation_p.G295E|ITSN2_uc010eyd.2_Missense_Mutation_p.G320E	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	295	EH 2.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTTTAGCTGTCCATCACCATC	0.378													5	33					0	0	0.001168	0	0		T	24524945	T	T	24524945	3	4	61	1	0	0	0	0	1	0	0	0	7943	855	30	4	4384	4	ITSN2	2	24524945	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	277855	24524945	218674428	127	42133											
ADCY3	109	broad.mit.edu	37	chr2	25042948	25042948	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcctcacaaagcggaagccGtactctcggaggatgacttg	10	7	12	12	4	2	1	1	1	1	0	3	4	2	4	2	3	3	1	2	3	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:25042948G>A	uc002rfs.3	-	21	3487	c.3288C>T	c.(3286-3288)TAC>TAT	p.Y1096Y	ADCY3_uc002rfr.3_Silent_p.Y683Y|ADCY3_uc010ykm.1_Silent_p.Y1097Y	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	1096	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					AGCGGAAGCCGTACTCTCGGA	0.612													4	38					0	0	0.000602	0	0		A	25042948	A	A	25042948	2	1	61	1	0	0	0	0	0	0	0	1	295	1140	40	1		1	ADCY3	2	25042948	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	518003	25042948	218156425	128	42134											
ADCY3	109	broad.mit.edu	37	chr2	25061489	25061489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctgggagatgtgcacgCgcctggattgcagagagaga	9	8	16	8	2	1	3	0	0	1	3	1	7	1	4	1	2	3	3	1	2	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:25061489C>T	uc002rfs.3	-	7	1557	c.1358G>A	c.(1357-1359)CGC>CAC	p.R453H	ADCY3_uc002rfr.3_Missense_Mutation_p.R86H|ADCY3_uc010ykm.1_Missense_Mutation_p.R453H	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	453	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					GATGTGCACGCGCCTGGATTG	0.642													14	67					0	0	0.00245	0	0		T	25061489	T	T	25061489	3	4	61	1	0	0	0	0	1	0	0	0	295	768	27	1	2136	1	ADCY3	2	25061489	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	18541	25061489	218137884	129	42135											
DNAJC27	51277	broad.mit.edu	37	chr2	25194767	25194767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttccgcttcggcatgttggCctccatggccctggctctct	2	13	10	16	2	1	0	0	0	1	0	5	0	3	0	4	4	0	4	4	4	0	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:25194767C>T	uc002rft.1	-	1	58	c.7G>A	c.(7-9)GCC>ACC	p.A3T	DNAJC27_uc010ykn.1_5'Flank|DNAJC27_uc002rfu.1_RNA|DNAJC27_uc010eyg.1_Missense_Mutation_p.A3T|uc002rfv.2_5'Flank	NM_016544	NP_057628	Q9NZQ0	DJC27_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 27	3					protein folding|small GTPase mediated signal transduction		GTP binding|heat shock protein binding|unfolded protein binding			skin(1)	1						GGCATGTTGGCCTCCATGGCC	0.662													3	11					0	0	0.004672	0	0		T	25194767	T	T	25194767	3	4	61	1	0	0	0	0	1	0	0	0	4651	739	26	2	842	2	DNAJC27	2	25194767	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	133278	25194767	218004606	130	42136											
CAD	790	broad.mit.edu	37	chr2	27458503	27458503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctacactgagcatggcGtcaaggtgcaggaactctgg	10	9	12	10	1	3	1	1	1	2	0	3	2	3	2	0	4	4	2	0	4	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:27458503G>A	uc002rji.2	+	25	4231	c.4069G>A	c.(4069-4071)GTC>ATC	p.V1357I	CAD_uc010eyw.2_Missense_Mutation_p.V1294I	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1357	CPSase B.|CPSase (Carbamoyl-phosphate synthase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	TGAGCATGGCGTCAAGGTGCA	0.512													15	29					0	0	0.00245	0	0		A	27458503	A	A	27458503	3	1	61	1	0	0	0	0	1	0	0	0	2568	1145	40	1	4167	1	CAD	2	27458503	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2263736	27458503	215740870	131	42137											
PPM1G	5496	broad.mit.edu	37	chr2	27608664	27608664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcttcatcctcagtgggtCgccctgcaatctgtgccagc	6	11	9	15	1	4	0	2	0	2	0	6	0	5	0	3	1	3	1	3	1	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:27608664C>T	uc002rkl.2	-	5	466	c.359G>A	c.(358-360)CGA>CAA	p.R120Q	PPM1G_uc002rkm.2_5'UTR	NM_002707	NP_002698	O15355	PPM1G_HUMAN	protein phosphatase 1G	120					cell cycle arrest|protein dephosphorylation	cytoplasm|nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					CTCAGTGGGTCGCCCTGCAAT	0.408													10	52					0	0	0.010729	0	0		T	27608664	T	T	27608664	3	4	61	1	0	0	0	0	1	0	0	0	12362	884	31	1	1309	1	PPM1G	2	27608664	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	150161	27608664	215590709	132	42138											
CLIP4	79745	broad.mit.edu	37	chr2	29404624	29404624	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacttgagctccgaagcgcCaagggaaaaaatgatgggtc	13	6	14	8	2	0	2	0	2	0	0	2	5	1	4	2	3	2	1	2	3	5	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:29404624C>A	uc002rmv.2	+	16	2222	c.1983C>A	c.(1981-1983)GCC>GCA	p.A661A	CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	661	CAP-Gly 3.									ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TCCGAAGCGCCAAGGGAAAAA	0.527													10	59					3.86212e-05	4.0859e-05	0.008291	1	0		A	29404624	A	A	29404624	2	1	61	1	0	0	0	0	0	0	0	1	3538	581	21	5		5	CLIP4	2	29404624	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1795960	29404624	213794749	133	42139											
EHD3	30845	broad.mit.edu	37	chr2	31489099	31489099	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgctgaagagcaagctgctGgaggtagtggacgacatgct	10	7	15	9	2	0	2	0	1	0	1	0	5	0	4	1	3	4	6	1	3	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:31489099G>T	uc002rnu.2	+	6	1745	c.1137G>T	c.(1135-1137)CTG>CTT	p.L379L	EHD3_uc010ymt.1_3'UTR	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	379					blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					GCAAGCTGCTGGAGGTAGTGG	0.582													9	44					0.000274275	0.000286447	0.004482	1	0		T	31489099	T	T	31489099	2	4	61	1	0	0	0	0	0	0	0	1	4985	1335	47	5		5	EHD3	2	31489099	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2084475	31489099	211710274	134	42140											
XDH	7498	broad.mit.edu	37	chr2	31593290	31593290	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcccaggaacatcatcagcGgaaatgaaacaaacaaaccc	18	4	6	13	1	2	1	2	1	0	0	3	3	3	3	2	2	5	0	2	2	5	0	rs142197675	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:31593290G>A	uc002rnv.1	-	18	1990	c.1911C>T	c.(1909-1911)TCC>TCT	p.S637S		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	637					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	CATCATCAGCGGAAATGAAAC	0.418													9	32					0	0	0.006214	0	0		A	31593290	A	A	31593290	2	1	61	1	0	0	0	0	0	0	0	1	17452	1103	39	1		1	XDH	2	31593290	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	104191	31593290	211606083	135	42141											
LTBP1	4052	broad.mit.edu	37	chr2	33572473	33572473	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagtggggtgtgtggtgAagccttctgtgaaaacgtgg	7	11	17	6	1	2	2	1	2	1	0	2	2	2	2	1	4	2	1	1	4	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:33572473A>G	uc002ros.2	+	26	3899	c.3899A>G	c.(3898-3900)GAA>GGA	p.E1300G	LTBP1_uc002rot.2_Missense_Mutation_p.E974G|LTBP1_uc002rou.2_Missense_Mutation_p.E973G|LTBP1_uc002rov.2_Missense_Mutation_p.E920G|LTBP1_uc010ymz.1_Missense_Mutation_p.E931G|LTBP1_uc010yna.1_Missense_Mutation_p.E878G|LTBP1_uc010ynb.1_Missense_Mutation_p.E197G	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1299	EGF-like 14; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				GTGTGTGGTGAAGCCTTCTGT	0.527													6	60					0	0	0.001168	0	0		G	33572473	G	G	33572473	3	3	61	1	0	0	0	0	1	0	0	0	9091	246	9	3	4053	3	LTBP1	2	33572473	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1979183	33572473	209626900	136	42142											
SLC8A1	6546	broad.mit.edu	37	chr2	40656427	40656427	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggatgcttctgcttaagttCcttcagaatcctagccattt	8	16	7	10	0	2	1	1	0	1	1	4	2	4	2	3	1	3	3	3	1	3	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:40656427C>A	uc002rrx.2	-	1	1018	c.994G>T	c.(994-996)GAA>TAA	p.E332*	SLC8A1_uc002rry.2_Nonsense_Mutation_p.E332*|SLC8A1_uc002rrz.2_Nonsense_Mutation_p.E332*|SLC8A1_uc002rsa.2_Nonsense_Mutation_p.E332*|SLC8A1_uc002rsd.3_Nonsense_Mutation_p.E332*|SLC8A1_uc002rsb.1_Nonsense_Mutation_p.E332*|SLC8A1_uc010fan.1_Nonsense_Mutation_p.E332*|SLC8A1_uc002rsc.1_Nonsense_Mutation_p.E332*	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	332	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	TGCTTAAGTTCCTTCAGAATC	0.398													23	116					3.62473e-10	4.0279e-10	0.012319	1	0		A	40656427	A	A	40656427	4	1	61	1	0	0	0	0	0	1	0	0	14731	864	30	5	2075	5	SLC8A1	2	40656427	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	7083954	40656427	202542946	137	42143											
EFEMP1	2202	broad.mit.edu	37	chr2	56098186	56098186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggatttcgtggataacaaCggaagccgccatgataattc	14	9	10	8	3	0	1	0	1	0	0	2	4	0	4	2	3	3	0	2	3	5	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:56098186C>T	uc002rzh.2	-	9	1403	c.1073G>A	c.(1072-1074)CGT>CAT	p.R358H	EFEMP1_uc002rzi.2_Missense_Mutation_p.R358H|EFEMP1_uc002rzj.2_Missense_Mutation_p.R358H|EFEMP1_uc010ypc.1_Missense_Mutation_p.R220H	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	358	Mediates interaction with TIMP3.|EGF-like 6; calcium-binding (Potential).				negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TGGATAACAACGGAAGCCGCC	0.393													12	44					0	0	0.001855	0	0		T	56098186	T	T	56098186	3	4	61	1	0	0	0	0	1	0	0	0	4947	536	19	1	420	1	EFEMP1	2	56098186	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	15441759	56098186	187101187	138	42144											
USP34	9736	broad.mit.edu	37	chr2	61433932	61433932	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgtgtagacttcaaaacCgaaagaaatattgacagaag	17	7	11	6	2	1	4	1	1	0	3	1	5	1	4	1	1	1	1	1	1	7	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:61433932C>T	uc002sbe.2	-	71	9031	c.9009G>A	c.(9007-9009)TCG>TCA	p.S3003S	USP34_uc002sbd.2_5'Flank	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	3003					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ACTTCAAAACCGAAAGAAATA	0.373													13	26					0	0	0.013537	0	0		T	61433932	T	T	61433932	2	4	61	1	0	0	0	0	0	0	0	1	17091	639	23	1		1	USP34	2	61433932	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5335746	61433932	181765441	139	42145											
XPO1	7514	broad.mit.edu	37	chr2	61709583	61709583	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagaaagatttggttgttAactggatttccaggatttaa	13	15	10	3	0	0	3	0	1	0	2	1	5	1	5	1	3	1	2	1	3	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:61709583A>G	uc002sbj.2	-	23	3632	c.2904T>C	c.(2902-2904)GTT>GTC	p.V968V	XPO1_uc010fcl.2_Silent_p.V964V|XPO1_uc010ypn.1_Silent_p.V964V|XPO1_uc002sbk.2_Silent_p.V529V|XPO1_uc002sbg.2_Silent_p.V165V|XPO1_uc002sbh.2_Silent_p.V615V	NM_003400	NP_003391	O14980	XPO1_HUMAN	exportin 1	968					intracellular protein transport|mitotic prometaphase|mRNA metabolic process|mRNA transport|viral genome transport in host cell|viral infectious cycle	annulate lamellae|Cajal body|cytosol|kinetochore|nuclear envelope|nucleolus|ribonucleoprotein complex	protein binding|protein transporter activity|RNA binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(7;5.71e-05)|Epithelial(17;0.0662)|all cancers(80;0.226)			TTTGGTTGTTAACTGGATTTC	0.328													10	52					0	0	0.006214	0	0		G	61709583	G	G	61709583	2	3	61	1	0	0	0	0	0	0	0	1	17471	349	13	3		3	XPO1	2	61709583	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	275651	61709583	181489790	140	42146											
ARHGAP25	9938	broad.mit.edu	37	chr2	69049474	69049474	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccatttcttttctagacAagcgactctgatacaaccag	11	12	7	11	1	3	2	0	1	3	1	3	3	3	2	2	1	3	0	2	1	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:69049474A>G	uc002seu.2	+	10	1564	c.1200A>G	c.(1198-1200)ACA>ACG	p.T400T	ARHGAP25_uc010fdg.2_Silent_p.T401T|ARHGAP25_uc010yql.1_Silent_p.T361T|ARHGAP25_uc002sew.2_Silent_p.T393T|ARHGAP25_uc002sex.2_Silent_p.T394T|ARHGAP25_uc002sey.2_Silent_p.T127T	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	400					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						TTTTCTAGACAAGCGACTCTG	0.512													13	103					0	0	0.004007	0	0		G	69049474	G	G	69049474	2	3	61	1	0	0	0	0	0	0	0	1	874	117	5	3		3	ARHGAP25	2	69049474	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	7339891	69049474	174149899	141	42147											
AAK1	22848	broad.mit.edu	37	chr2	69732777	69732777	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggatcaaactctcagcTgagcctccaagcttctcggg	8	9	10	14	1	3	1	2	1	2	0	6	2	4	2	3	2	4	2	3	2	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:69732777T>C	uc002sfp.2	-	16	2698	c.2193A>G	c.(2191-2193)TCA>TCG	p.S731S	AAK1_uc010fdk.2_Silent_p.S731S|AAK1_uc010yqm.1_Silent_p.S732S	NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	731						coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0						AACTCTCAGCTGAGCCTCCAA	0.483													5	25					0	0	0.001168	0	0		C	69732777	C	C	69732777	2	2	61	1	0	0	0	0	0	0	0	1	16	1567	55	3		3	AAK1	2	69732777	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	683303	69732777	173466596	142	42148											
ZNF638	27332	broad.mit.edu	37	chr2	71576635	71576635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatgcgaaaaatggggcGccgattacctaatttacctt	14	10	9	8	3	0	1	0	0	0	1	0	3	0	1	3	2	3	0	3	2	7	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:71576635G>A	uc002shx.2	+	2	870	c.551G>A	c.(550-552)CGC>CAC	p.R184H	ZNF638_uc010fec.2_Missense_Mutation_p.R290H|ZNF638_uc010yqw.1_Intron|ZNF638_uc002shw.2_Missense_Mutation_p.R184H|ZNF638_uc002shy.2_Missense_Mutation_p.R184H|ZNF638_uc002shz.2_Missense_Mutation_p.R184H|ZNF638_uc002sia.2_Missense_Mutation_p.R184H|ZNF638_uc002sib.1_Missense_Mutation_p.R184H	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	184					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AAAATGGGGCGCCGATTACCT	0.373													9	45					0	0	0.004482	0	0		A	71576635	A	A	71576635	3	1	61	1	0	0	0	0	1	0	0	0	18080	1087	38	1	553	1	ZNF638	2	71576635	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1843858	71576635	171622738	143	42149											
FAM176A	84141	broad.mit.edu	37	chr2	75720679	75720679	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccagagcagccagggtcaGcaccagcccgatgcacacgc	11	2	11	17	2	1	1	1	0	0	1	1	2	1	1	4	1	5	3	4	1	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:75720679G>A	uc002sni.2	-	4	620	c.142C>T	c.(142-144)CTG>TTG	p.L48L	FAM176A_uc002snj.1_Silent_p.L35L|FAM176A_uc002snk.1_Silent_p.L48L	NM_001135032	NP_001128504	Q9H8M9	F176A_HUMAN	family with sequence similarity 176, member A	48	Necessary for the localization and biological activity.|Helical; (Potential).				apoptosis|autophagy	endoplasmic reticulum membrane|integral to membrane|lysosomal membrane|plasma membrane					0						GCCAGGGTCAGCACCAGCCCG	0.552													4	13					0	0	0.009096	0	0		A	75720679	A	A	75720679	2	1	61	1	0	0	0	0	0	0	0	1	5510	962	34	2		2	FAM176A	2	75720679	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4144044	75720679	167478694	144	42150											
LRRTM4	80059	broad.mit.edu	37	chr2	77746720	77746720	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctaatgtaattatggtcaAgataaagccatataagctgg	16	11	9	5	0	1	1	1	0	0	1	1	1	1	1	1	2	3	3	1	2	8	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:77746720A>C	uc002snr.2	-	3	690	c.275T>G	c.(274-276)CTT>CGT	p.L92R	LRRTM4_uc002snq.2_Missense_Mutation_p.L92R|LRRTM4_uc002sns.2_Missense_Mutation_p.L92R|LRRTM4_uc002snt.2_Missense_Mutation_p.L93R	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	92	LRR 2.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		ATTATGGTCAAGATAAAGCCA	0.388													12	58					0	0	0.010729	0	0		C	77746720	C	C	77746720	3	2	61	1	0	0	0	0	1	0	0	0	9060	72	3	5	1511	5	LRRTM4	2	77746720	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	2026041	77746720	165452653	145	42151											
CTNNA2	1496	broad.mit.edu	37	chr2	80101447	80101447	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggcatcggcgagctggcTgcggctcttaatgagtttga	7	10	15	9	4	1	2	0	2	1	0	2	3	1	2	0	4	2	5	0	4	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:80101447T>C	uc010ysh.1	+	5	836	c.831T>C	c.(829-831)GCT>GCC	p.A277A	CTNNA2_uc010yse.1_Silent_p.A277A|CTNNA2_uc010ysf.1_Silent_p.A277A|CTNNA2_uc010ysg.1_Silent_p.A277A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	277					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GCGAGCTGGCTGCGGCTCTTA	0.547													4	39					0	0	0.009096	0	0		C	80101447	C	C	80101447	2	2	61	1	0	0	0	0	0	0	0	1	4016	1567	55	3		3	CTNNA2	2	80101447	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	2354727	80101447	163097926	146	42152											
USP39	10713	broad.mit.edu	37	chr2	85846392	85846392	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggaggagccgccactgcccGtacctggacaccattaacag	10	5	11	15	3	0	0	0	0	0	0	0	3	0	3	5	3	4	1	5	3	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:85846392G>A	uc002sqe.2	+	2	354	c.318G>A	c.(316-318)CCG>CCA	p.P106P	USP39_uc002sqb.2_5'UTR|USP39_uc010ysu.1_Silent_p.P28P|USP39_uc010ysv.1_Silent_p.P28P|USP39_uc010fgn.1_Silent_p.P106P|USP39_uc002sqf.2_Silent_p.P106P|USP39_uc002sqg.2_Silent_p.P106P|USP39_uc010fgo.2_Silent_p.P106P	NM_006590	NP_006581	Q53GS9	SNUT2_HUMAN	ubiquitin specific protease 39	106					spliceosome assembly|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)	1						GCCACTGCCCGTACCTGGACA	0.473													6	16					0	0	0.001984	0	0		A	85846392	A	A	85846392	2	1	61	1	0	0	0	0	0	0	0	1	17096	1132	40	1		1	USP39	2	85846392	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	5744945	85846392	157352981	147	42153											
FER1L5	90342	broad.mit.edu	37	chr2	97370099	97370099	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacttcatctattcagctccGgtgagtggcagccatggggg	8	10	13	10	1	3	1	2	1	1	0	4	1	4	1	2	4	3	2	2	4	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:97370099G>A	uc010fia.2	+	51	6057	c.6057G>A	c.(6055-6057)CCG>CCA	p.P2019P	FER1L5_uc002sws.3_Silent_p.P728P|FER1L5_uc002swt.3_Silent_p.P728P|FER1L5_uc010yus.1_Silent_p.P727P	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	2019						integral to membrane				ovary(1)	1						ATTCAGCTCCGGTGAGTGGCA	0.483													17	118					0	0	0.007413	0	0		A	97370099	A	A	97370099	2	1	61	1	0	0	0	0	0	0	0	1	5828	1130	39	1		1	FER1L5	2	97370099	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	11523707	97370099	145829274	148	42154											
FOXD4L1	200350	broad.mit.edu	37	chr2	114257389	114257389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctactggagcctggaccccGcctcccaggacatgttcgac	7	7	10	17	2	0	0	0	0	0	0	2	4	1	3	6	3	2	1	6	3	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:114257389G>A	uc002tjw.3	+	1	729	c.556G>A	c.(556-558)GCC>ACC	p.A186T		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	186	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CCTGGACCCCGCCTCCCAGGA	0.652													41	202					0	0	0.010771	0	0		A	114257389	A	A	114257389	3	1	61	1	0	0	0	0	1	0	0	0	6014	1087	38	1	558	1	FOXD4L1	2	114257389	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	16887290	114257389	128941984	149	42155											
DPP10	57628	broad.mit.edu	37	chr2	116572537	116572537	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaagattaggttcagtagaAgtaaaggaccaaataacagc	18	7	10	6	1	1	2	1	0	0	2	1	4	1	3	1	2	2	3	1	2	8	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:116572537A>C	uc002tla.1	+	20	2326	c.1869A>C	c.(1867-1869)GAA>GAC	p.E623D	DPP10_uc002tlb.1_Missense_Mutation_p.E573D|DPP10_uc002tlc.1_Missense_Mutation_p.E619D|DPP10_uc002tle.2_Missense_Mutation_p.E627D|DPP10_uc002tlf.1_Missense_Mutation_p.E616D	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	623	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						GTTCAGTAGAAGTAAAGGACC	0.358													18	88					0	0	0.00499	0	0		C	116572537	C	C	116572537	3	2	61	1	0	0	0	0	1	0	0	0	4733	69	3	5	2118	5	DPP10	2	116572537	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	2315148	116572537	126626836	150	42156											
SMPD4	55627	broad.mit.edu	37	chr2	130930247	130930247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaatatgtaatactcgaacGgatctgagagcagcgtcagg	14	8	12	7	3	2	2	1	1	1	2	3	5	2	3	0	2	4	2	0	2	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:130930247G>A	uc002tqq.1	-	7	1095	c.575C>T	c.(574-576)CCG>CTG	p.P192L	SMPD4_uc002tqp.1_5'UTR|SMPD4_uc010yzy.1_Intron|SMPD4_uc010yzz.1_Intron|SMPD4_uc002tqr.1_Missense_Mutation_p.P192L|SMPD4_uc002tqs.1_Missense_Mutation_p.P60L|SMPD4_uc002tqt.1_Missense_Mutation_p.P70L|SMPD4_uc010zaa.1_Missense_Mutation_p.P79L|SMPD4_uc010zab.1_Missense_Mutation_p.P119L|SMPD4_uc010zac.1_Intron|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	153					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	atactcGAACGGATCTGAGAG	0.473													13	67					0	0	0.003163	0	0		A	130930247	A	A	130930247	3	1	61	1	0	0	0	0	1	0	0	0	14832	1116	39	1	2081	1	SMPD4	2	130930247	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	14357710	130930247	112269126	151	42157											
NCKAP5	344148	broad.mit.edu	37	chr2	133541594	133541594	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggacctgcctggagggggCggaggggaaggggatttcac	8	5	20	8	2	1	0	1	0	0	0	1	5	1	5	2	9	1	0	2	9	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:133541594C>T	uc002ttp.2	-	14	3164	c.2790G>A	c.(2788-2790)CCG>CCA	p.P930P	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	930	Poly-Pro.						protein binding				0						CTGGAGGGGGCGGAGGGGAAG	0.622													3	15					0	0	0.004672	0	0		T	133541594	T	T	133541594	2	4	61	1	0	0	0	0	0	0	0	1	10242	755	27	1		1	NCKAP5	2	133541594	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2611347	133541594	109657779	152	42158											
BAZ2B	29994	broad.mit.edu	37	chr2	160181327	160181327	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgatttacttactgtccActacttagtttctctctaat	11	18	3	9	0	2	1	0	1	2	0	4	1	3	1	1	0	3	1	1	0	6	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:160181327A>G	uc002uao.2	-	36	6700	c.6348T>C	c.(6346-6348)AGT>AGC	p.S2116S	BAZ2B_uc002uap.2_Silent_p.S2080S	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	2116	Bromo.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CTTACTGTCCACTACTTAGTT	0.199													6	22					0	0	0.001168	0	0		G	160181327	G	G	160181327	2	3	61	1	0	0	0	0	0	0	0	1	1333	156	6	3		3	BAZ2B	2	160181327	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	26639733	160181327	83018046	153	42159											
FAP	2191	broad.mit.edu	37	chr2	163099429	163099429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcttacctcttgaagggCgtaagacaatgcacatcacc	12	10	8	11	1	3	2	1	1	2	1	3	2	3	2	2	1	2	3	2	1	4	4	rs145562225		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:163099429C>T	uc002ucd.2	-	2	288	c.80G>A	c.(79-81)CGC>CAC	p.R27H	FAP_uc010zct.1_Missense_Mutation_p.R27H|FAP_uc010fpd.2_Intron|FAP_uc010fpe.1_Missense_Mutation_p.R27H	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	27	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						TCTTGAAGGGCGTAAGACAAT	0.388													3	15					0	0	0.004672	0	0		T	163099429	T	T	163099429	3	4	61	1	0	0	0	0	1	0	0	0	5687	768	27	1	2302	1	FAP	2	163099429	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2918102	163099429	80099944	154	42160											
XIRP2	129446	broad.mit.edu	37	chr2	168105457	168105457	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaacagattgcgcctcttAtaaaatctcattcatttcca	15	13	3	10	1	3	1	2	0	2	1	5	1	4	1	2	0	2	0	2	0	5	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:168105457A>G	uc002udx.2	+	8	7573	c.7555A>G	c.(7555-7557)ATA>GTA	p.I2519V	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.I2344V|XIRP2_uc010fpq.2_Missense_Mutation_p.I2297V|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2344					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TGCGCCTCTTATAAAATCTCA	0.348													10	76					0	0	0.013537	0	0		G	168105457	G	G	168105457	3	3	61	1	0	0	0	0	1	0	0	0	17456	449	16	3	7585	3	XIRP2	2	168105457	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	5006028	168105457	75093916	155	42161											
LRP2	4036	broad.mit.edu	37	chr2	169996081	169996081	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagagatgccttttgaaaaCgccatttcacaatattttcc	12	13	7	9	1	1	2	1	1	0	1	2	4	2	3	3	1	2	0	3	1	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:169996081C>T	uc002ues.2	-	73	13452	c.13239G>A	c.(13237-13239)GCG>GCA	p.A4413A		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4413	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CTTTTGAAAACGCCATTTCAC	0.398													15	117					0	0	0.00245	0	0		T	169996081	T	T	169996081	2	4	61	1	0	0	0	0	0	0	0	1	8974	523	19	1		1	LRP2	2	169996081	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1890624	169996081	73203292	156	42162											
FASTKD1	79675	broad.mit.edu	37	chr2	170416906	170416906	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaacttactgtttctttTcttcaggtcctgcaatgggt	7	17	8	9	0	3	1	1	1	2	0	4	1	4	1	1	2	3	2	1	2	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:170416906T>C	uc002uev.3	-	5	1350	c.962A>G	c.(961-963)GAA>GGA	p.E321G	FASTKD1_uc002uew.3_RNA|FASTKD1_uc002uex.3_Missense_Mutation_p.E307G|FASTKD1_uc002uey.2_Missense_Mutation_p.E284G	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	321					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4						CTGTTTCTTTTCTTCAGGTCC	0.383													23	80					0	0	0.00278	0	0		C	170416906	C	C	170416906	3	2	61	1	0	0	0	0	1	0	0	0	5699	1783	62	3	1625	3	FASTKD1	2	170416906	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	420825	170416906	72782467	157	42163											
GORASP2	26003	broad.mit.edu	37	chr2	171822458	171822458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcccgcccaccagcaacGcaccctccgaccctgccaca	8	3	5	25	3	0	0	0	0	0	0	2	1	2	0	8	0	3	2	8	0	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:171822458G>A	uc002ugk.2	+	10	1317	c.1177G>A	c.(1177-1179)GCA>ACA	p.A393T	GORASP2_uc002ugj.2_Missense_Mutation_p.A325T|GORASP2_uc010zdl.1_Missense_Mutation_p.A405T|GORASP2_uc010zdm.1_Missense_Mutation_p.A349T|GORASP2_uc002ugl.2_Missense_Mutation_p.A325T|GORASP2_uc002ugm.2_Missense_Mutation_p.A175T	NM_015530	NP_056345	Q9H8Y8	GORS2_HUMAN	golgi reassembly stacking protein 2	393						Golgi membrane				breast(1)|central_nervous_system(1)	2						CACCAGCAACGCACCCTCCGA	0.627													18	57					0	0	0.00499	0	0		A	171822458	A	A	171822458	3	1	61	1	0	0	0	0	1	0	0	0	6591	1087	38	1	1215	1	GORASP2	2	171822458	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1405552	171822458	71376915	158	42164											
CDCA7	83879	broad.mit.edu	37	chr2	174229545	174229545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcaaggagaccgcgaaggcGtacattcccgggtgttgctt	9	9	13	10	4	1	1	1	0	0	1	2	3	2	1	2	3	2	3	2	3	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:174229545G>A	uc002uid.1	+	5	616	c.485G>A	c.(484-486)CGT>CAT	p.R162H	CDCA7_uc002uic.1_Missense_Mutation_p.R241H|CDCA7_uc010zej.1_Missense_Mutation_p.R197H|CDCA7_uc010zek.1_Missense_Mutation_p.R120H	NM_145810	NP_665809	Q9BWT1	CDCA7_HUMAN	cell division cycle associated 7 isoform 2	162	Arg-rich.				regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.116)			CCGCGAAGGCGTACATTCCCG	0.498													16	67					0	0	0.00499	0	0		A	174229545	A	A	174229545	3	1	61	1	0	0	0	0	1	0	0	0	3093	1145	40	1	744	1	CDCA7	2	174229545	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2407087	174229545	68969828	159	42165											
RBM45	129831	broad.mit.edu	37	chr2	178977308	178977308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagctctgcgagcggcggggGcttccgcccgggcgtggaca	4	5	18	14	6	1	0	0	0	1	0	2	2	2	1	2	5	3	2	2	5	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:178977308G>A	uc002ulv.2	+	1	127	c.35G>A	c.(34-36)GGC>GAC	p.G12D		NM_152945	NP_694453	Q8IUH3	RBM45_HUMAN	RNA binding motif protein 45	12					cell differentiation|nervous system development	cytoplasm|nucleus	nucleotide binding|RNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.00957)|all cancers(119;0.037)			AGCGGCGGGGGCTTCCGCCCG	0.642											OREG0015102	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	39					0	0	0.000602	0	0		A	178977308	A	A	178977308	3	1	61	1	0	0	0	0	1	0	0	0	13164	1203	42	2	37	2	RBM45	2	178977308	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4747763	178977308	64222065	160	42166											
OSBPL6	114880	broad.mit.edu	37	chr2	179259111	179259111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggaactccagagatctcGgagacgatatatggaagaaa	17	6	12	6	2	1	4	0	0	1	4	3	9	2	6	1	3	1	0	1	3	5	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:179259111G>A	uc002ulx.2	+	24	3023	c.2645G>A	c.(2644-2646)CGG>CAG	p.R882Q	OSBPL6_uc002uly.2_Missense_Mutation_p.R907Q|OSBPL6_uc010zfe.1_Missense_Mutation_p.R851Q|OSBPL6_uc002ulz.2_Missense_Mutation_p.R846Q|OSBPL6_uc002uma.2_Missense_Mutation_p.R886Q	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	882					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			CAGAGATCTCGGAGACGATAT	0.358													18	90					0	0	0.007413	0	0		A	179259111	A	A	179259111	3	1	61	1	0	0	0	0	1	0	0	0	11300	1116	39	1	2853	1	OSBPL6	2	179259111	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	281803	179259111	63940262	161	42167											
TTN	7273	broad.mit.edu	37	chr2	179397429	179397429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cataatcaggagaaggtgtaCgccggcgggctggtctcact	9	8	14	10	3	2	1	2	0	1	1	3	2	2	1	1	5	1	2	1	5	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:179397429C>T	uc010zfg.1	-	307	96433	c.96209G>A	c.(96208-96210)CGT>CAT	p.R32070H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R25765H|TTN_uc010zfi.1_Missense_Mutation_p.R25698H|TTN_uc010zfj.1_Missense_Mutation_p.R25573H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32997							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGAAGGTGTACGCCGGCGGGC	0.458													8	47					0	0	0.00308	0	0		T	179397429	T	T	179397429	3	4	61	1	0	0	0	0	1	0	0	0	16761	536	19	1	4086	1	TTN	2	179397429	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	138318	179397429	63801944	162	42168											
TTN	7273	broad.mit.edu	37	chr2	179414715	179414715	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctattttaaaagtacctTgtactttcactttaatttct	12	19	3	7	0	2	0	1	0	1	0	2	0	2	0	1	0	3	3	1	0	7	10			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:179414715T>C	uc010zfg.1	-	286	84370	c.84146A>G	c.(84145-84147)CAA>CGA	p.Q28049R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q21744R|TTN_uc010zfi.1_Missense_Mutation_p.Q21677R|TTN_uc010zfj.1_Missense_Mutation_p.Q21552R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28976							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAAAGTACCTTGTACTTTCAC	0.353													5	38					0	0	0.000602	0	0		C	179414715	C	C	179414715	3	2	61	1	0	0	0	0	1	0	0	0	16761	1812	63	3	16233	3	TTN	2	179414715	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	17286	179414715	63784658	163	42169											
TTN	7273	broad.mit.edu	37	chr2	179590652	179590652	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcttgctgcttctgagttgCcgcttgtctttgtaccatac	4	18	8	11	1	3	1	0	1	3	0	3	1	3	1	2	0	5	5	2	0	2	8			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:179590652C>T	uc010zfg.1	-	67	16889	c.16665G>A	c.(16663-16665)CGG>CGA	p.R5555R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.R2216R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6482							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCTGAGTTGCCGCTTGTCTT	0.423													6	24					0	0	0.001168	0	0		T	179590652	T	T	179590652	2	4	61	1	0	0	0	0	0	0	0	1	16761	726	26	2		2	TTN	2	179590652	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	175937	179590652	63608721	164	42170											
ITGA4	3676	broad.mit.edu	37	chr2	182374394	182374394	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attttccttagaaagatgtgCgggacatcctcaccccaatt	11	12	7	11	1	1	2	1	0	0	2	3	3	3	3	4	1	1	0	4	1	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:182374394C>T	uc002unu.2	+	16	2468	c.1705C>T	c.(1705-1707)CGG>TGG	p.R569W	ITGA4_uc010frj.1_Missense_Mutation_p.R51W	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	569	Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	GAAAGATGTGCGGGACATCCT	0.398													12	50					0	0	0.010729	0	0		T	182374394	T	T	182374394	3	4	61	1	0	0	0	0	1	0	0	0	7894	759	27	1	1767	1	ITGA4	2	182374394	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2783742	182374394	60824979	165	42171											
NCKAP1	10787	broad.mit.edu	37	chr2	183860434	183860434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaatagaaccatacagtgtCggactgtgctggattaagca	15	9	10	7	1	0	1	0	0	0	1	1	3	0	3	1	2	4	2	1	2	6	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:183860434C>T	uc002upc.2	-	7	1138	c.736G>A	c.(736-738)GAC>AAC	p.D246N	NCKAP1_uc002upb.2_Missense_Mutation_p.D252N	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	246					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			CATACAGTGTCGGACTGTGCT	0.368													9	45					0	0	0.008291	0	0		T	183860434	T	T	183860434	3	4	61	1	0	0	0	0	1	0	0	0	10240	884	31	1	2750	1	NCKAP1	2	183860434	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1486040	183860434	59338939	166	42172											
COL5A2	1290	broad.mit.edu	37	chr2	189927977	189927977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcctggaggacctggacggCcatcttcccctggcgcaccc	6	6	12	17	2	1	0	0	0	1	0	2	3	2	3	6	5	1	1	6	5	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:189927977C>T	uc002uqk.2	-	27	2065	c.1790G>A	c.(1789-1791)GGC>GAC	p.G597D	COL5A2_uc010frx.2_Missense_Mutation_p.G173D	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	597					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			ACCTGGACGGCCATCTTCCCC	0.507													10	62					0	0	0.008291	0	0		T	189927977	T	T	189927977	3	4	61	1	0	0	0	0	1	0	0	0	3700	739	26	2	2821	2	COL5A2	2	189927977	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	6067543	189927977	53271396	167	42173											
ANKRD44	91526	broad.mit.edu	37	chr2	197986194	197986194	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaccgtagtcaatcaactcGttaaccacagcatcctgtcc	11	9	6	15	2	2	0	2	0	0	0	5	0	4	0	4	0	3	4	4	0	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:197986194G>A	uc002uuc.2	-	8	935	c.768C>T	c.(766-768)AAC>AAT	p.N256N	ANKRD44_uc002utz.3_Translation_Start_Site|ANKRD44_uc002uua.1_Silent_p.N231N|ANKRD44_uc002uub.2_Silent_p.N256N|ANKRD44_uc010zgw.1_Silent_p.N184N	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	256	ANK 8.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			CAATCAACTCGTTAACCACAG	0.463													4	40					0	0	0.009096	0	0		A	197986194	A	A	197986194	2	1	61	1	0	0	0	0	0	0	0	1	672	1136	40	1		1	ANKRD44	2	197986194	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	8058217	197986194	45213179	168	42174											
RFTN2	130132	broad.mit.edu	37	chr2	198540105	198540105	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgtctttgtttccacttgCggtctcttcagggtagaaaa	7	16	9	9	1	4	1	1	0	3	1	6	1	5	1	1	2	1	2	1	2	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:198540105C>T	uc002uuo.3	-	1	480	c.78G>A	c.(76-78)CCG>CCA	p.P26P		NM_144629	NP_653230	Q52LD8	RFTN2_HUMAN	raftlin family member 2	26						plasma membrane					0						TTTCCACTTGCGGTCTCTTCA	0.373													12	110					0	0	0.001855	0	0		T	198540105	T	T	198540105	2	4	61	1	0	0	0	0	0	0	0	1	13284	755	27	1		1	RFTN2	2	198540105	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	553911	198540105	44659268	169	42175											
KCTD18	130535	broad.mit.edu	37	chr2	201371662	201371662	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcggcacaaggactcccgCcgggctgtgtaaatacagcc	11	5	12	13	3	0	0	0	0	0	0	1	1	1	1	3	3	3	3	3	3	5	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:201371662C>T	uc002uvs.2	-	2	595	c.78G>A	c.(76-78)CGG>CGA	p.R26R	KCTD18_uc002uvt.2_Silent_p.R26R|KCTD18_uc002uvu.1_Silent_p.R26R	NM_152387	NP_689600	Q6PI47	KCD18_HUMAN	potassium channel tetramerization domain	26	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1						AGGACTCCCGCCGGGCTGTGT	0.502													9	28					0	0	0.006214	0	0		T	201371662	T	T	201371662	2	4	61	1	0	0	0	0	0	0	0	1	8121	726	26	2		2	KCTD18	2	201371662	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2831557	201371662	41827711	170	42176											
BMPR2	659	broad.mit.edu	37	chr2	203383560	203383560	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcagctgattggccgaggtCgatatggagcagtatataaa	12	10	13	6	2	0	1	0	1	0	0	1	4	0	2	1	3	3	4	1	3	5	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:203383560C>T	uc002uzf.3	+	6	1785	c.637C>T	c.(637-639)CGA>TGA	p.R213*	BMPR2_uc010ftr.2_Nonsense_Mutation_p.R213*	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	213	ATP.|Protein kinase.|Cytoplasmic (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						TGGCCGAGGTCGATATGGAGC	0.343													5	42					0	0	0.000602	0	0		T	203383560	T	T	203383560	4	4	61	1	0	0	0	0	0	1	0	0	1472	876	31	1	659	1	BMPR2	2	203383560	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2011898	203383560	39815813	171	42177											
FAM117B	150864	broad.mit.edu	37	chr2	203622015	203622015	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgcgcagcattgacacacAgacgcctggtggggcagaca	11	4	13	13	3	0	3	0	1	0	2	0	3	0	3	1	3	1	3	1	3	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:203622015A>C	uc010zhx.1	+	6	1194	c.1184A>C	c.(1183-1185)CAG>CCG	p.Q395P		NM_173511	NP_775782	Q6P1L5	F117B_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	395										ovary(1)	1						ATTGACACACAGACGCCTGGT	0.542													12	44					0	0	0.010729	0	0		C	203622015	C	C	203622015	3	2	61	1	0	0	0	0	1	0	0	0	5421	188	7	5	1206	5	FAM117B	2	203622015	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	238455	203622015	39577358	172	42178											
CTLA4	1493	broad.mit.edu	37	chr2	204735367	204735367	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgaggcatcgccagcttTgtgtgtgagtatgcatctcc	7	11	12	11	2	1	1	0	1	1	0	3	2	1	1	3	1	3	4	3	1	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:204735367T>A	uc002vak.1	+	2	325	c.168T>A	c.(166-168)TTT>TTA	p.F56L	CTLA4_uc002val.1_Missense_Mutation_p.F56L|CTLA4_uc010fty.1_Missense_Mutation_p.F56L|CTLA4_uc010ftz.1_Intron	NM_005214	NP_005205	P16410	CTLA4_HUMAN	cytotoxic T-lymphocyte-associated protein 4	56	Ig-like V-type.|Extracellular (Potential).				B cell receptor signaling pathway|immune response|negative regulation of B cell proliferation|negative regulation of regulatory T cell differentiation|positive regulation of apoptosis|response to DNA damage stimulus|T cell costimulation	clathrin-coated endocytic vesicle|external side of plasma membrane|Golgi apparatus|integral to plasma membrane|perinuclear region of cytoplasm					0					Abatacept(DB01281)	TCGCCAGCTTTGTGTGTGAGT	0.577													13	74					0	0	0.013537	0	0		A	204735367	A	A	204735367	3	1	61	1	0	0	0	0	1	0	0	0	4014	1809	63	5	174	5	CTLA4	2	204735367	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	1113352	204735367	38464006	173	42179											
PARD3B	117583	broad.mit.edu	37	chr2	206305302	206305302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggaccatttggttaccctCgggatggccatccactgtct	6	12	10	13	1	1	0	0	0	1	0	3	2	2	2	4	4	1	1	4	4	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:206305302C>T	uc002var.1	+	20	3157	c.2950C>T	c.(2950-2952)CGG>TGG	p.R984W	PARD3B_uc002vao.1_Intron|PARD3B_uc002vap.1_Missense_Mutation_p.R922W|PARD3B_uc002vaq.1_Missense_Mutation_p.R915W	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	984					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		TGGTTACCCTCGGGATGGCCA	0.507													18	68					0	0	0.00499	0	0		T	206305302	T	T	206305302	3	4	61	1	0	0	0	0	1	0	0	0	11463	875	31	1	3028	1	PARD3B	2	206305302	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1569935	206305302	36894071	174	42180											
MAP2	4133	broad.mit.edu	37	chr2	210560533	210560533	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccagatatatccatcacGccttctgatgttgcagagcc	10	10	7	14	1	2	3	1	1	1	2	3	3	3	3	5	0	2	2	5	0	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:210560533G>A	uc002vde.1	+	7	3887	c.3639G>A	c.(3637-3639)ACG>ACA	p.T1213T	MAP2_uc002vdc.1_Silent_p.T1213T|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.T1209T	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1213					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	TATCCATCACGCCTTCTGATG	0.453													6	26					0	0	0.001168	0	0		A	210560533	A	A	210560533	2	1	61	1	0	0	0	0	0	0	0	1	9253	1074	38	1		1	MAP2	2	210560533	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4255231	210560533	32638840	175	42181											
MAP2	4133	broad.mit.edu	37	chr2	210574923	210574923	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgccagacctgaagaatgTcaaatccaaaatcggatcaa	17	7	7	10	1	2	3	2	1	0	2	4	4	3	4	3	1	1	0	3	1	6	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:210574923T>A	uc002vde.1	+	12	5266	c.5018T>A	c.(5017-5019)GTC>GAC	p.V1673D	MAP2_uc002vdd.1_Missense_Mutation_p.V374D|MAP2_uc002vdf.1_Missense_Mutation_p.V317D|MAP2_uc002vdg.1_Missense_Mutation_p.V317D|MAP2_uc002vdh.1_Missense_Mutation_p.V374D|MAP2_uc002vdi.1_Missense_Mutation_p.V1669D	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1673	Tau/MAP 1.				central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CTGAAGAATGTCAAATCCAAA	0.438													4	16					0	0	0.000602	0	0		A	210574923	A	A	210574923	3	1	61	1	0	0	0	0	1	0	0	0	9253	1667	58	5	5227	5	MAP2	2	210574923	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	14390	210574923	32624450	176	42182											
RPE	6120	broad.mit.edu	37	chr2	210882238	210882238	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcccatctttggatatagaGgtcgatggtggagtaggtcc	8	13	13	7	1	1	1	0	0	1	1	4	4	3	3	2	5	0	1	2	5	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:210882238G>T	uc002vdn.2	+	5	524	c.519G>T	c.(517-519)GAG>GAT	p.E173D	RPE_uc002vdm.2_Missense_Mutation_p.E173D|RPE_uc002vdo.2_Missense_Mutation_p.E123D|RPE_uc010zjf.1_Intron|RPE_uc002vdp.2_Missense_Mutation_p.E120D|RPE_uc010fup.2_Missense_Mutation_p.E105D|RPE_uc002vdq.2_Missense_Mutation_p.E123D|RPE_uc002vdr.2_Missense_Mutation_p.E88D	NM_199229	NP_954699	Q96AT9	RPE_HUMAN	ribulose-5-phosphate-3-epimerase isoform 1	173					pentose-phosphate shunt	cytosol	metal ion binding|protein homodimerization activity|ribulose-phosphate 3-epimerase activity				0				Epithelial(149;0.00241)|Lung(261;0.041)|all cancers(144;0.0429)|LUSC - Lung squamous cell carcinoma(261;0.0431)		TGGATATAGAGGTCGATGGTG	0.403													8	46					3.86212e-05	4.0859e-05	0.008291	1	0		T	210882238	T	T	210882238	3	4	61	1	0	0	0	0	1	0	0	0	13569	991	35	5	595	5	RPE	2	210882238	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	307315	210882238	32317135	177	42183											
SPEG	10290	broad.mit.edu	37	chr2	220353375	220353375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcaccagctcctgtaccGtggctgtggcccgtgagcct	5	9	12	15	2	1	1	1	1	0	0	2	1	2	1	5	2	3	4	5	2	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:220353375G>A	uc010fwg.2	+	33	8014	c.8014G>A	c.(8014-8016)GTG>ATG	p.V2672M		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2672	Ig-like 9.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CTCCTGTACCGTGGCTGTGGC	0.672													8	32					0	0	0.00308	0	0		A	220353375	A	A	220353375	3	1	61	1	0	0	0	0	1	0	0	0	15061	1145	40	1	8156	1	SPEG	2	220353375	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	9471137	220353375	22845998	178	42184											
INHA	3623	broad.mit.edu	37	chr2	220439842	220439842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaggggagagagcccgacGctcaactcccctgatgtcct	8	7	13	13	2	1	2	1	1	0	1	3	6	3	4	4	3	2	1	4	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:220439842G>A	uc002vmk.1	+	2	839	c.695G>A	c.(694-696)CGC>CAC	p.R232H		NM_002191	NP_002182	P05111	INHA_HUMAN	inhibin alpha subunit precursor	232		Cleavage.		RR->EA: Loss of cleavage.	cell cycle arrest|cell surface receptor linked signaling pathway|cell-cell signaling|erythrocyte differentiation|hemoglobin biosynthetic process|induction of apoptosis|negative regulation of B cell differentiation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|regulation of cell proliferation|response to external stimulus|skeletal system development	inhibin A complex|inhibin-betaglycan-ActRII complex	cytokine activity|growth factor activity|hormone activity|signal transducer activity			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;4.58e-07)|all cancers(144;4.31e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		AGAGCCCGACGCTCAACTCCC	0.672													4	38					0	0	0.009096	0	0		A	220439842	A	A	220439842	3	1	61	1	0	0	0	0	1	0	0	0	7756	1087	38	1	701	1	INHA	2	220439842	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	86467	220439842	22759531	179	42185											
SLC4A3	6508	broad.mit.edu	37	chr2	220494917	220494917	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcctcccgactcgctggggaGaaaagccggccctggagccc	7	4	14	16	3	0	1	0	0	0	1	2	4	1	2	5	4	2	1	5	4	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:220494917G>A	uc002vmp.3	+	6	923	c.654G>A	c.(652-654)GAG>GAA	p.E218E	SLC4A3_uc002vmn.2_Silent_p.E245E|SLC4A3_uc002vmo.3_Silent_p.E245E|SLC4A3_uc010fwm.2_5'UTR|SLC4A3_uc010fwn.1_5'Flank	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	218	Cytoplasmic.				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCGCTGGGGAGAAAAGCCGGC	0.692													7	19					0	0	0.001984	0	0		A	220494917	A	A	220494917	2	1	61	1	0	0	0	0	0	0	0	1	14680	933	33	4		4	SLC4A3	2	220494917	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	55075	220494917	22704456	180	42186											
CUL3	8452	broad.mit.edu	37	chr2	225376167	225376167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatgagttccctttcaaccaCctttacaattggttcttccg	9	15	5	12	1	2	1	1	1	1	0	4	1	4	1	4	1	2	2	4	1	4	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:225376167C>T	uc002vny.2	-	6	1171	c.787G>A	c.(787-789)GTG>ATG	p.V263M	CUL3_uc010zls.1_Missense_Mutation_p.V197M|CUL3_uc010fwy.1_Missense_Mutation_p.V269M	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	263					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CTTTCAACCACCTTTACAATT	0.358													21	117					0	0	0.010504	0	0		T	225376167	T	T	225376167	3	4	61	1	0	0	0	0	1	0	0	0	4059	507	18	4	1563	4	CUL3	2	225376167	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4881250	225376167	17823206	181	42187											
SP110	3431	broad.mit.edu	37	chr2	231042288	231042288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagggtcattccttcacaaCgtatattccgtttccagttc	8	15	6	12	2	2	0	2	0	0	0	6	0	5	0	3	1	1	3	3	1	4	8	rs140285393	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:231042288C>T	uc002vqh.3	-	14	1796	c.1556G>A	c.(1555-1557)CGT>CAT	p.R519H	SP110_uc002vqg.3_Missense_Mutation_p.R519H|SP110_uc002vqi.3_Missense_Mutation_p.R519H|SP110_uc010fxk.2_Missense_Mutation_p.R517H|SP110_uc010fxj.2_Missense_Mutation_p.R162H	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	519	SAND.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		TCCTTCACAACGTATATTCCG	0.423													42	232					0	0	0.010771	0	0		T	231042288	T	T	231042288	3	4	61	1	0	0	0	0	1	0	0	0	14986	536	19	1	673	1	SP110	2	231042288	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5666121	231042288	12157085	182	42188											
GIGYF2	26058	broad.mit.edu	37	chr2	233715062	233715062	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatccaattttgaggctgtgCagagtggcaagaagaagaaa	16	8	12	5	0	0	5	0	1	0	4	1	5	1	5	1	2	1	3	1	2	6	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:233715062C>T	uc002vti.3	+	30	4112	c.3775C>T	c.(3775-3777)CAG>TAG	p.Q1259*	GIGYF2_uc002vtj.3_Nonsense_Mutation_p.Q1280*|GIGYF2_uc002vtk.3_Nonsense_Mutation_p.Q1259*|GIGYF2_uc002vth.3_Nonsense_Mutation_p.Q1253*|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc002vtq.3_Nonsense_Mutation_p.Q592*	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	1259					cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		TGAGGCTGTGCAGAGTGGCAA	0.468													11	52					0	0	0.008291	0	0		T	233715062	T	T	233715062	4	4	61	1	0	0	0	0	0	1	0	0	6393	711	25	2	3947	2	GIGYF2	2	233715062	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2672774	233715062	9484311	183	42189											
ANKMY1	51281	broad.mit.edu	37	chr2	241463633	241463633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggtgtcctggaagtggcCgccctcgtggctgcctgaga	4	8	15	14	3	0	1	0	1	0	1	2	3	1	2	5	4	1	1	5	4	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:241463633C>T	uc002vyz.1	-	7	1463	c.1234G>A	c.(1234-1236)GGC>AGC	p.G412S	ANKMY1_uc002vza.1_Missense_Mutation_p.G271S|ANKMY1_uc010fzd.1_Missense_Mutation_p.G501S|ANKMY1_uc002vzb.1_Intron|ANKMY1_uc002vzc.1_Missense_Mutation_p.G271S|ANKMY1_uc002vzd.1_Missense_Mutation_p.G271S|ANKMY1_uc010fze.1_Missense_Mutation_p.G81S|ANKMY1_uc002vze.2_Missense_Mutation_p.G173S	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	412							zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		TGGAAGTGGCCGCCCTCGTGG	0.637													15	43					0	0	0.00499	0	0		T	241463633	T	T	241463633	3	4	61	1	0	0	0	0	1	0	0	0	634	652	23	1	1635	1	ANKMY1	2	241463633	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	7748571	241463633	1735740	184	42190											
PASK	23178	broad.mit.edu	37	chr2	242066674	242066674	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccatcctcagctgggacTggagcttcagaatcttcgca	8	9	9	15	1	3	1	2	0	1	1	5	3	4	3	3	2	2	3	3	2	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:242066674T>C	uc002wao.1	-	10	1748	c.1656A>G	c.(1654-1656)CCA>CCG	p.P552P	PASK_uc010zol.1_Silent_p.P366P|PASK_uc010zom.1_Silent_p.P517P|PASK_uc010fzl.1_Silent_p.P552P|PASK_uc010zon.1_Silent_p.P333P|PASK_uc002wap.2_Silent_p.P95P|PASK_uc002waq.2_Silent_p.P552P	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	552					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CAGCTGGGACTGGAGCTTCAG	0.577													20	117					0	0	0.008871	0	0		C	242066674	C	C	242066674	2	2	61	1	0	0	0	0	0	0	0	1	11491	1567	55	3		3	PASK	2	242066674	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	603041	242066674	1132699	185	42191											
GAL3ST2	64090	broad.mit.edu	37	chr2	242741267	242741267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagacgcacaagacggccaGcagcacggtgctcaacatcc	13	3	11	14	3	1	2	1	0	0	2	2	3	2	2	2	2	4	4	2	2	3	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:242741267G>A	uc002wcj.1	+	3	322	c.191G>A	c.(190-192)AGC>AAC	p.S64N		NM_022134	NP_071417	Q9H3Q3	G3ST2_HUMAN	galactose-3-O-sulfotransferase 2	64	Lumenal (Potential).				biosynthetic process	Golgi cisterna membrane|integral to membrane	galactosylceramide sulfotransferase activity				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		AAGACGGCCAGCAGCACGGTG	0.667													8	47					0	0	0.00308	0	0		A	242741267	A	A	242741267	3	1	61	1	0	0	0	0	1	0	0	0	6213	971	34	2	201	2	GAL3ST2	2	242741267	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	674593	242741267	458106	186	42192											
BRPF1	7862	broad.mit.edu	37	chr3	9781452	9781452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caggttcagcacgccgactgCctgccctgtcccacagcgag	7	6	11	17	3	1	0	1	0	0	0	2	2	2	0	4	1	4	2	4	1	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:9781452C>T	uc003bse.2	+	3	1768	c.1369C>T	c.(1369-1371)CCT>TCT	p.P457S	BRPF1_uc003bsf.2_Missense_Mutation_p.P457S|BRPF1_uc003bsg.2_Missense_Mutation_p.P457S|BRPF1_uc011ati.1_Missense_Mutation_p.P457S	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	457					histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					ACGCCGACTGCCTGCCCTGTC	0.507													4	15					0	0	0.009096	0	0		T	9781452	T	T	9781452	3	4	61	1	0	0	0	0	1	0	0	0	1523	739	26	2	1375	2	BRPF1	3	9781452	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08		9781452	188240978	187	42193											
RAF1	5894	broad.mit.edu	37	chr3	12645699	12645699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacattaggtgtggatgtcGacctctgcctctgggagagg	7	10	16	8	1	2	1	0	0	2	1	3	5	2	3	2	5	1	0	2	5	1	1	rs80338796		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:12645699G>A	uc003bxf.3	-	7	1185	c.770C>T	c.(769-771)TCG>TTG	p.S257L	RAF1_uc011aut.1_Missense_Mutation_p.S42L|RAF1_uc011auu.1_Missense_Mutation_p.S175L	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	257			S -> L (in NS5 and LEOPARD2; shows in vitro greater kinase activity and enhanced ERK activation than wild-type).		activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	TGTGGATGTCGACCTCTGCCT	0.527			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				12	52					0	0	0.010729	0	0		A	12645699	A	A	12645699	3	1	61	1	0	0	0	0	1	0	0	0	13027	1059	37	1	1220	1	RAF1	3	12645699	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2864247	12645699	185376731	188	42194											
TMEM40	55287	broad.mit.edu	37	chr3	12790209	12790209	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggaagaggaggaggaGgaagaagacttgtttctctc	13	7	17	4	0	1	3	0	0	1	3	3	10	1	9	0	6	0	1	0	6	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:12790209G>A	uc003bxg.1	-	3	283	c.156C>T	c.(154-156)TCC>TCT	p.S52S	TMEM40_uc003bxh.1_Silent_p.S52S|TMEM40_uc003bxi.1_Intron|TMEM40_uc011auv.1_Silent_p.S68S	NM_018306	NP_060776	Q8WWA1	TMM40_HUMAN	transmembrane protein 40	52	Ser-rich.					integral to membrane					0						aggaggaggaggaagaagaCT	0.259													25	148					0	0	0.00278	0	0		A	12790209	A	A	12790209	2	1	61	1	0	0	0	0	0	0	0	1	16188	987	35	4		4	TMEM40	3	12790209	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	144510	12790209	185232221	189	42195											
EFHB	151651	broad.mit.edu	37	chr3	19975208	19975208	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcctggcaacagagaaggTtttgttccctgtgaagctga	9	12	11	9	0	0	3	0	2	0	1	2	4	2	3	2	2	2	4	2	2	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:19975208T>G	uc003cbl.3	-	1	499	c.303A>C	c.(301-303)AAA>AAC	p.K101N	EFHB_uc003cbm.2_Intron	NM_144715	NP_653316	Q8N7U6	EFHB_HUMAN	EF hand domain family, member B	101					signal transduction	proteinaceous extracellular matrix	calcium ion binding				0						ACAGAGAAGGTTTTGTTCCCT	0.463													12	94					0	0	0.003163	0	0		G	19975208	G	G	19975208	3	3	61	1	0	0	0	0	1	0	0	0	4951	1722	60	5	2250	5	EFHB	3	19975208	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	7184999	19975208	178047222	190	42196											
RBMS3	27303	broad.mit.edu	37	chr3	29925682	29925682	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgacctatgaccccacAgctgccatacagaatgggta	11	9	9	12	0	0	3	0	2	0	1	0	3	0	3	4	1	3	3	4	1	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:29925682A>G	uc003cel.2	+	8	1004	c.774A>G	c.(772-774)ACA>ACG	p.T258T	RBMS3_uc003cek.2_Silent_p.T258T|RBMS3_uc010hfq.2_Silent_p.T271T|RBMS3_uc003cem.2_Silent_p.T257T|RBMS3_uc010hfr.2_Silent_p.T258T	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	258						cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				ATGACCCCACAGCTGCCATAC	0.353													5	44					0	0	0.000602	0	0		G	29925682	G	G	29925682	2	3	61	1	0	0	0	0	0	0	0	1	13175	175	7	3		3	RBMS3	3	29925682	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	9950474	29925682	168096748	191	42197											
SLC22A14	9389	broad.mit.edu	37	chr3	38357085	38357085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaagtggccacgttgtcCggccacagagctgaaatcca	11	7	10	13	2	1	2	1	1	0	1	3	2	3	2	4	2	1	2	4	2	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:38357085C>T	uc010hhc.1	+	9	1457	c.1415C>T	c.(1414-1416)CCG>CTG	p.P472L	SLC22A14_uc003cib.2_Missense_Mutation_p.P472L|SLC22A14_uc011ayo.1_RNA	NM_004803	NP_004794	Q9Y267	S22AE_HUMAN	organic cation transporter like 4	472	Extracellular (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0554)|Kidney(284;0.0696)		CCACGTTGTCCGGCCACAGAG	0.582													8	52					0	0	0.006214	0	0		T	38357085	T	T	38357085	3	4	61	1	0	0	0	0	1	0	0	0	14470	652	23	1	1445	1	SLC22A14	3	38357085	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	8431403	38357085	159665345	192	42198											
EXOSC7	23016	broad.mit.edu	37	chr3	45038709	45038709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaccctctgcattagtcctCgggagcactgctgggttctc	6	11	11	13	1	2	1	0	0	2	1	5	2	3	2	2	2	3	4	2	2	1	2	rs150001306		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:45038709C>T	uc003coi.2	+	4	414	c.385C>T	c.(385-387)CGG>TGG	p.R129W	EXOSC7_uc003coh.1_Missense_Mutation_p.R64W|EXOSC7_uc011bae.1_Missense_Mutation_p.R129W|EXOSC7_uc010his.1_Missense_Mutation_p.R48W|EXOSC7_uc003coj.2_Missense_Mutation_p.R129W	NM_015004	NP_055819	Q15024	EXOS7_HUMAN	exosome component 7	129					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	3'-5'-exoribonuclease activity|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00911)|KIRC - Kidney renal clear cell carcinoma(197;0.0509)|Kidney(197;0.064)		CATTAGTCCTCGGGAGCACTG	0.468													8	43					0	0	0.00308	0	0		T	45038709	T	T	45038709	3	4	61	1	0	0	0	0	1	0	0	0	5327	875	31	1	399	1	EXOSC7	3	45038709	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	6681624	45038709	152983721	193	42199											
SACM1L	22908	broad.mit.edu	37	chr3	45780148	45780148	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattataagaacaacttttcCgatggatttagacaagtaag	16	13	7	5	1	0	2	0	0	0	2	1	4	1	3	1	1	2	1	1	1	8	8			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:45780148C>T	uc003cos.2	+	17	1665	c.1461C>T	c.(1459-1461)TCC>TCT	p.S487S	SACM1L_uc011bag.1_Silent_p.S384S|SACM1L_uc011bah.1_Silent_p.S421S|SACM1L_uc003cot.2_Silent_p.S130S	NM_014016	NP_054735	Q9NTJ5	SAC1_HUMAN	suppressor of actin 1	487						Golgi apparatus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0102)|KIRC - Kidney renal clear cell carcinoma(197;0.0234)|Kidney(197;0.0277)		ACAACTTTTCCGATGGATTTA	0.343													8	54					0	0	0.006214	0	0		T	45780148	T	T	45780148	2	4	61	1	0	0	0	0	0	0	0	1	13828	639	23	1		1	SACM1L	3	45780148	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	741439	45780148	152242282	194	42200											
CCR2	729230	broad.mit.edu	37	chr3	46399158	46399158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggcccaactcctgcctcCgctctactcgctggtgttca	4	11	10	16	2	2	0	1	0	1	0	5	0	4	0	4	3	3	3	4	3	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:46399158C>T	uc003cpn.3	+	2	625	c.140C>T	c.(139-141)CCG>CTG	p.P47L	CCR2_uc003cpm.3_Missense_Mutation_p.P47L	NM_001123041	NP_001116513	P41597	CCR2_HUMAN	chemokine (C-C motif) receptor 2 isoform A	47	Helical; Name=1; (Potential).				astrocyte cell migration|blood vessel remodeling|cellular defense response|chemokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response|interspecies interaction between organisms|JAK-STAT cascade|monocyte extravasation|negative regulation of adenylate cyclase activity|negative regulation of angiogenesis|negative regulation of eosinophil degranulation|negative regulation of type 2 immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of immune complex clearance by monocytes and macrophages|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-2 production|positive regulation of monocyte chemotaxis|positive regulation of T cell chemotaxis|positive regulation of T cell extravasation|positive regulation of T-helper 1 type immune response|positive regulation of tumor necrosis factor biosynthetic process|regulation of vascular endothelial growth factor production|T-helper 17 cell chemotaxis	cytosol|dendrite|integral to plasma membrane|perikaryon|perinuclear region of cytoplasm|soluble fraction	C-C chemokine receptor activity|CCR2 chemokine receptor binding|protein homodimerization activity			lung(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0174)|Kidney(197;0.0206)		CTCCTGCCTCCGCTCTACTCG	0.458													25	112					0	0	0.00333	0	0		T	46399158	T	T	46399158	3	4	61	1	0	0	0	0	1	0	0	0	2944	652	23	1	142	1	CCR2	3	46399158	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	619010	46399158	151623272	195	42201											
CCR5	1234	broad.mit.edu	37	chr3	46415343	46415343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcttccaaaagcacattgCcaaacgcttctgcaaatgct	12	11	5	13	1	2	0	0	0	2	0	3	0	3	0	2	0	5	4	2	0	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:46415343C>T	uc003cpo.3	+	3	1072	c.950C>T	c.(949-951)GCC>GTC	p.A317V	CCR5_uc010hjd.2_Missense_Mutation_p.A317V	NM_001100168	NP_001093638	P51681	CCR5_HUMAN	chemokine (C-C motif) receptor 5	317	Cytoplasmic (Potential).				cell-cell signaling|cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|immune response|inflammatory response|initiation of viral infection	endosome|external side of plasma membrane|integral to plasma membrane	actin binding|C-C chemokine receptor activity|coreceptor activity|phosphatidylinositol phospholipase C activity			lung(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.00112)|KIRC - Kidney renal clear cell carcinoma(197;0.017)|Kidney(197;0.02)	Maraviroc(DB04835)	AAGCACATTGCCAAACGCTTC	0.493													41	127					0	0	0.005524	0	0		T	46415343	T	T	46415343	3	4	61	1	0	0	0	0	1	0	0	0	2947	739	26	2	952	2	CCR5	3	46415343	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	16185	46415343	151607087	196	42202											
COL7A1	1294	broad.mit.edu	37	chr3	48622168	48622168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccttcccccttcacctaccGgctccccctttgggcctcga	3	10	6	22	2	1	0	1	0	0	0	4	1	3	0	8	2	1	1	8	2	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:48622168G>A	uc003ctz.2	-	34	4047	c.4046C>T	c.(4045-4047)CCG>CTG	p.P1349L		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1349	Triple-helical region.|Interrupted collagenous region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TTCACCTACCGGCTCCCCCTT	0.647													6	39					0	0	0.001168	0	0		A	48622168	A	A	48622168	3	1	61	1	0	0	0	0	1	0	0	0	3707	1130	39	1	5128	1	COL7A1	3	48622168	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2206825	48622168	149400262	197	42203											
CELSR3	1951	broad.mit.edu	37	chr3	48677486	48677486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggtcccttgagagttgccGctggggagacaggggcagag	7	6	20	8	1	0	3	0	1	0	3	1	5	1	3	2	6	1	3	2	6	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:48677486G>A	uc003cul.2	-	34	9813	c.9532C>T	c.(9532-9534)CGG>TGG	p.R3178W	CELSR3_uc003cuf.1_Missense_Mutation_p.R3276W|CELSR3_uc010hkf.2_Missense_Mutation_p.R468W|CELSR3_uc010hkg.2_Missense_Mutation_p.R1161W	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	3178	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GAGAGTTGCCGCTGGGGAGAC	0.682													8	18					0	0	0.004482	0	0		A	48677486	A	A	48677486	3	1	61	1	0	0	0	0	1	0	0	0	3226	1086	38	1	414	1	CELSR3	3	48677486	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	55318	48677486	149344944	198	42204											
DALRD3	55152	broad.mit.edu	37	chr3	49053239	49053239	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	attttgctgtgtgctcacccCcaggatgtgtacccggttgt	5	14	11	11	1	1	0	1	0	0	0	1	1	1	1	3	2	3	4	3	2	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:49053239C>A	uc003cvk.1	-	11	1530	c.1510G>T	c.(1510-1512)GGG>TGG	p.G504W	WDR6_uc003cvj.2_3'UTR|WDR6_uc011bby.1_3'UTR|WDR6_uc010hkn.2_3'UTR|WDR6_uc011bbz.1_3'UTR|DALRD3_uc003cvl.1_Missense_Mutation_p.G495V|DALRD3_uc003cvm.1_Missense_Mutation_p.G337W|DALRD3_uc010hko.1_Intron	NM_001009996	NP_001009996	Q5D0E6	DALD3_HUMAN	DALR anticodon binding domain containing 3	504					arginyl-tRNA aminoacylation	cytoplasm	arginine-tRNA ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GTGCTCACCCCCAGGATGTGT	0.522													15	83					1.3612e-06	1.47093e-06	0.003163	1	0		A	49053239	A	A	49053239	3	1	61	1	0	0	0	0	1	0	0	0	4232	623	22	5	129	5	DALRD3	3	49053239	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	375753	49053239	148969191	199	42205											
KLHDC8B	200942	broad.mit.edu	37	chr3	49212303	49212303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccatggctgaaggcagcGtctttagcctgggtggcctg	5	9	16	11	2	1	1	0	1	1	0	1	1	1	1	3	4	2	2	3	4	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:49212303G>A	uc003cwh.2	+	4	855	c.670G>A	c.(670-672)GTC>ATC	p.V224I	KLHDC8B_uc003cwi.1_Missense_Mutation_p.V97I	NM_173546	NP_775817	Q8IXV7	KLD8B_HUMAN	kelch domain containing 8B	224	Kelch 6.					cytoplasm					0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		TGAAGGCAGCGTCTTTAGCCT	0.592													7	43					0	0	0.00308	0	0		A	49212303	A	A	49212303	3	1	61	1	0	0	0	0	1	0	0	0	8379	1145	40	1	680	1	KLHDC8B	3	49212303	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	159064	49212303	148810127	200	42206											
MST1R	4486	broad.mit.edu	37	chr3	49940022	49940022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatagtacttcctggccctCggcgatgctcagctcagtgg	8	10	11	12	2	2	0	2	0	0	0	4	1	3	0	2	3	3	3	2	3	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:49940022C>T	uc003cxy.3	-	1	1285	c.1021G>A	c.(1021-1023)GAG>AAG	p.E341K	MST1R_uc011bdd.1_Missense_Mutation_p.E341K|MST1R_uc011bde.1_Missense_Mutation_p.E341K|MST1R_uc011bdf.1_Missense_Mutation_p.E341K|MST1R_uc011bdg.1_Missense_Mutation_p.E341K	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	341	Extracellular (Potential).|Sema.				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		TCCTGGCCCTCGGCGATGCTC	0.652													24	133					0	0	0.014323	0	0		T	49940022	T	T	49940022	3	4	61	1	0	0	0	0	1	0	0	0	9909	893	31	1	3261	1	MST1R	3	49940022	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	727719	49940022	148082408	201	42207											
RRP9	9136	broad.mit.edu	37	chr3	51968519	51968519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagagaaggtcaagctgcCggaagccttccccacactgc	11	5	10	15	1	1	1	1	0	0	1	2	3	2	2	4	2	4	1	4	2	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:51968519C>T	uc003dbw.1	-	13	1268	c.1229G>A	c.(1228-1230)CGG>CAG	p.R410Q		NM_004704	NP_004695	O43818	U3IP2_HUMAN	RNA, U3 small nucleolar interacting protein 2	410	WD 6.				rRNA processing	nucleolus|small nuclear ribonucleoprotein complex|small nucleolar ribonucleoprotein complex	RNA binding			breast(2)|ovary(1)	3				BRCA - Breast invasive adenocarcinoma(193;8.04e-05)|Kidney(197;0.000553)|KIRC - Kidney renal clear cell carcinoma(197;0.000724)		GTCAAGCTGCCGGAAGCCTTC	0.622													7	21					0	0	0.001984	0	0		T	51968519	T	T	51968519	3	4	61	1	0	0	0	0	1	0	0	0	13716	652	23	1	210	1	RRP9	3	51968519	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2028497	51968519	146053911	202	42208											
CACNA1D	776	broad.mit.edu	37	chr3	53531422	53531422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaacagccgacctgcccGcgcccttttctgtttatcac	6	11	7	17	3	2	0	1	0	1	0	3	1	3	0	5	0	3	1	5	0	2	4	rs144915770		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:53531422G>A	uc003dgv.3	+	2	474	c.311G>A	c.(310-312)CGC>CAC	p.R104H	CACNA1D_uc003dgu.3_Missense_Mutation_p.R104H|CACNA1D_uc003dgy.3_Missense_Mutation_p.R104H	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	104	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	CGACCTGCCCGCGCCCTTTTC	0.478													14	88					0	0	0.00499	0	0		A	53531422	A	A	53531422	3	1	61	1	0	0	0	0	1	0	0	0	2544	1087	38	1	317	1	CACNA1D	3	53531422	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1562903	53531422	144491008	203	42209											
CHDH	55349	broad.mit.edu	37	chr3	53854543	53854543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaccaatgcagaccttccGcaggggcttctgtgctgaat	9	9	11	12	1	1	3	0	1	1	2	2	3	2	3	3	2	2	4	3	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:53854543G>A	uc003dgz.2	-	6	1518	c.1078C>T	c.(1078-1080)CGG>TGG	p.R360W		NM_018397	NP_060867	Q8NE62	CHDH_HUMAN	choline dehydrogenase precursor	360					alcohol metabolic process		choline dehydrogenase activity|flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		Hepatocellular(537;0.152)		BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)	Choline(DB00122)	CAGACCTTCCGCAGGGGCTTC	0.552													16	65					0	0	0.006122	0	0		A	53854543	A	A	53854543	3	1	61	1	0	0	0	0	1	0	0	0	3336	1086	38	1	722	1	CHDH	3	53854543	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	323121	53854543	144167887	204	42210											
PDHB	5162	broad.mit.edu	37	chr3	58417706	58417706	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatttatagcatcacgaacTgtcacctgtcacaggtatgc	11	12	8	10	1	3	1	3	1	0	0	3	2	3	1	1	1	3	2	1	1	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:58417706T>A	uc003dkf.3	-	3	131	c.102A>T	c.(100-102)ACA>ACT	p.T34T	PDHB_uc003dke.3_5'UTR|PDHB_uc003dkg.3_Silent_p.T16T|PDHB_uc010hnl.2_Silent_p.T16T|PDHB_uc011bff.1_Silent_p.T34T	NM_000925	NP_000916	P11177	ODPB_HUMAN	pyruvate dehydrogenase (lipoamide) beta	34					glycolysis|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(55;0.000179)|Kidney(10;0.00231)|KIRC - Kidney renal clear cell carcinoma(10;0.00258)|OV - Ovarian serous cystadenocarcinoma(275;0.187)	NADH(DB00157)|Pyruvic acid(DB00119)	CATCACGAACTGTCACCTGTC	0.418													9	37					0	0	0.004482	0	0		A	58417706	A	A	58417706	2	1	61	1	0	0	0	0	0	0	0	1	11685	1567	55	5		5	PDHB	3	58417706	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	4563163	58417706	139604724	205	42211											
FAM3D	131177	broad.mit.edu	37	chr3	58639469	58639469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgaataaacatccatgtcGtgactatggcaaagatgagg	14	10	10	7	2	0	3	0	2	0	1	3	4	1	3	1	2	1	1	1	2	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:58639469G>A	uc003dkq.2	-	3	350	c.53C>T	c.(52-54)ACG>ATG	p.T18M		NM_138805	NP_620160	Q96BQ1	FAM3D_HUMAN	family with sequence similarity 3, member D	18					negative regulation of insulin secretion	extracellular region	cytokine activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000225)|Kidney(10;0.000667)|KIRC - Kidney renal clear cell carcinoma(10;0.000802)|OV - Ovarian serous cystadenocarcinoma(275;0.169)		CATCCATGTCGTGACTATGGC	0.567													13	71					0	0	0.013537	0	0		A	58639469	A	A	58639469	3	1	61	1	0	0	0	0	1	0	0	0	5573	1145	40	1	653	1	FAM3D	3	58639469	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	221763	58639469	139382961	206	42212											
MAGI1	9223	broad.mit.edu	37	chr3	65342220	65342220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaccgctctctcctgcgctCgggggagcgtgcgcgcctcc	2	7	15	17	6	1	0	0	0	1	0	5	2	3	2	4	3	3	2	4	3	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:65342220C>T	uc003dmn.2	-	23	4748	c.4222G>A	c.(4222-4224)GAG>AAG	p.E1408K	MAGI1_uc003dmm.2_3'UTR	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	1437					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		CTCCTGCGCTCGGGGGAGCGT	0.667													10	110					0	0	0.008291	0	0		T	65342220	T	T	65342220	3	4	61	1	0	0	0	0	1	0	0	0	9208	893	31	1	170	1	MAGI1	3	65342220	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	6702751	65342220	132680210	207	42213											
NIT2	56954	broad.mit.edu	37	chr3	100065064	100065064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcatctgctacgacatgcGgtttgcagagcttgcacaaa	10	9	12	10	2	1	1	0	0	1	1	1	2	1	1	0	2	6	6	0	2	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:100065064G>A	uc003dtv.2	+	6	544	c.470G>A	c.(469-471)CGG>CAG	p.R157Q	NIT2_uc011bha.1_Missense_Mutation_p.G126S	NM_020202	NP_064587	Q9NQR4	NIT2_HUMAN	nitrilase family, member 2	157	CN hydrolase.				nitrogen compound metabolic process		omega-amidase activity			ovary(1)	1						TACGACATGCGGTTTGCAGAG	0.493													3	22					0	0	0.009096	0	0		A	100065064	A	A	100065064	3	1	61	1	0	0	0	0	1	0	0	0	10453	1116	39	1	492	1	NIT2	3	100065064	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	34722844	100065064	97957366	208	42214											
KTELC1	56983	broad.mit.edu	37	chr3	119209485	119209485	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttttccatgttggtgaTgagtggctagaattcttcta	7	18	10	6	0	2	3	0	2	2	1	3	3	3	3	1	2	0	3	1	2	3	8			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:119209485T>C	uc003ecm.2	+	9	969	c.885T>C	c.(883-885)GAT>GAC	p.D295D	KTELC1_uc011biz.1_RNA|KTELC1_uc011bja.1_Silent_p.D136D	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	295						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		ATGTTGGTGATGAGTGGCTAG	0.443													15	122					0	0	0.00245	0	0		C	119209485	C	C	119209485	2	2	61	1	0	0	0	0	0	0	0	1	8599	1461	51	3		3	KTELC1	3	119209485	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	19144421	119209485	78812945	209	42215											
ILDR1	286676	broad.mit.edu	37	chr3	121720675	121720675	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtaatacactccatggTcccaccacatcacttcattt	11	12	4	14	0	2	0	2	0	0	0	4	0	4	0	3	1	2	2	3	1	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:121720675T>C	uc003ees.2	-	4	522	c.416A>G	c.(415-417)GAC>GGC	p.D139G	ILDR1_uc003eeq.2_Missense_Mutation_p.D151G|ILDR1_uc003eer.2_Missense_Mutation_p.D139G|ILDR1_uc010hrg.2_Intron	NM_175924	NP_787120	Q86SU0	ILDR1_HUMAN	immunoglobulin-like domain containing receptor	139	Extracellular (Potential).|Ig-like V-type.					cytosol|integral to membrane|plasma membrane	receptor activity			skin(1)	1				GBM - Glioblastoma multiforme(114;0.156)		CACTCCATGGTCCCACCACAT	0.502													15	51					0	0	0.00245	0	0		C	121720675	C	C	121720675	3	2	61	1	0	0	0	0	1	0	0	0	7725	1667	58	3	1108	3	ILDR1	3	121720675	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	2511190	121720675	76301755	210	42216											
ADCY5	111	broad.mit.edu	37	chr3	123021992	123021992	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgactccgccacgtgacaCgcgttgacctggctcgcgct	5	7	12	17	7	0	2	0	2	0	0	2	3	1	2	4	1	0	3	4	1	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:123021992C>T	uc003egh.1	-	14	2634	c.2634G>A	c.(2632-2634)GCG>GCA	p.A878A	ADCY5_uc003egg.1_Silent_p.A511A|ADCY5_uc003egi.1_Silent_p.A437A	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	878	Extracellular (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		CCACGTGACACGCGTTGACCT	0.642													7	37					0	0	0.001984	0	0		T	123021992	T	T	123021992	2	4	61	1	0	0	0	0	0	0	0	1	297	523	19	1		1	ADCY5	3	123021992	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1301317	123021992	75000438	211	42217											
MYLK	4638	broad.mit.edu	37	chr3	123419658	123419658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctcctgctggcggatcGcctcctcagtgtgctgcctc	3	10	10	18	2	1	0	1	0	0	0	5	1	3	1	6	2	3	2	6	2	0	0	rs140989388		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:123419658G>A	uc003ego.2	-	18	2939	c.2657C>T	c.(2656-2658)GCG>GTG	p.A886V	MYLK_uc011bjw.1_Missense_Mutation_p.A886V|MYLK_uc003egp.2_Missense_Mutation_p.A817V|MYLK_uc003egq.2_Missense_Mutation_p.A886V|MYLK_uc003egr.2_Missense_Mutation_p.A817V|MYLK_uc003egs.2_Missense_Mutation_p.A710V|MYLK_uc003egt.2_Missense_Mutation_p.A77V	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	886	5 X 28 AA approximate tandem repeats.|1-1.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CTGGCGGATCGCCTCCTCAGT	0.622													9	47					0	0	0.006214	0	0		A	123419658	A	A	123419658	3	1	61	1	0	0	0	0	1	0	0	0	10074	1087	38	1	3155	1	MYLK	3	123419658	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	397666	123419658	74602772	212	42218											
SEC61A1	29927	broad.mit.edu	37	chr3	127779411	127779411	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcaaaaaggatatggcCttggctctggtatttctctc	8	14	9	10	0	2	0	0	0	2	0	5	1	3	1	2	4	1	3	2	4	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:127779411C>A	uc003ekb.2	+	7	707	c.523C>A	c.(523-525)CTT>ATT	p.L175I	SEC61A1_uc003ekc.2_Missense_Mutation_p.L122I|SEC61A1_uc003ekd.2_Missense_Mutation_p.L55I	NM_013336	NP_037468	P61619	S61A1_HUMAN	Sec61 alpha 1 subunit	175	Helical; (Potential).				protein targeting to ER	integral to endoplasmic reticulum membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity|protein binding|ribosome binding			ovary(1)	1						AGGATATGGCCTTGGCTCTGG	0.428													8	80					5.18039e-06	5.56393e-06	0.00308	1	0		A	127779411	A	A	127779411	3	1	61	1	0	0	0	0	1	0	0	0	14025	681	24	5	549	5	SEC61A1	3	127779411	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4359753	127779411	70243019	213	42219											
CPNE4	131034	broad.mit.edu	37	chr3	131293941	131293941	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatttggcagccacccaTgatgtagtccaagaaagaat	13	9	10	9	0	0	3	0	1	0	2	1	4	1	4	3	2	1	2	3	2	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:131293941T>C	uc003eok.2	-	10	1336	c.901A>G	c.(901-903)ATG>GTG	p.M301V	CPNE4_uc011blq.1_Missense_Mutation_p.M319V|CPNE4_uc003eol.2_Missense_Mutation_p.M319V|CPNE4_uc003eom.2_Missense_Mutation_p.M301V	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	301										upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CAGCCACCCATGATGTAGTCC	0.438													9	59					0	0	0.008291	0	0		C	131293941	C	C	131293941	3	2	61	1	0	0	0	0	1	0	0	0	3817	1464	51	3	800	3	CPNE4	3	131293941	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	3514530	131293941	66728489	214	42220											
SLCO2A1	6578	broad.mit.edu	37	chr3	133661493	133661493	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtgggagatgcaggctatCagggacacgaaggagatgag	12	7	17	5	1	1	3	1	1	0	2	1	7	1	4	0	4	1	2	0	4	2	2	rs145832999	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:133661493C>T	uc003eqa.3	-	11	1855	c.1581G>A	c.(1579-1581)CTG>CTA	p.L527L	SLCO2A1_uc003eqb.3_Silent_p.L451L|SLCO2A1_uc011blv.1_Silent_p.L346L	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	527	Helical; Name=10; (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						TGCAGGCTATCAGGGACACGA	0.602													7	49					0	0	0.001984	0	0		T	133661493	T	T	133661493	2	4	61	1	0	0	0	0	0	0	0	1	14751	813	29	4		4	SLCO2A1	3	133661493	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2367552	133661493	64360937	215	42221											
GRK7	131890	broad.mit.edu	37	chr3	141497441	141497441	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacccaccaaagacagcgcGctgcaggggctggtggccac	9	3	15	14	2	0	1	0	0	0	1	0	2	0	2	3	5	2	3	3	5	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:141497441G>A	uc011bnd.1	+	1	399	c.315G>A	c.(313-315)GCG>GCA	p.A105A		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	105	RGS.				visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						AAGACAGCGCGCTGCAGGGGC	0.667													6	26					0	0	0.001984	0	0		A	141497441	A	A	141497441	2	1	61	1	0	0	0	0	0	0	0	1	6810	1074	38	1		1	GRK7	3	141497441	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	7835948	141497441	56524989	216	42222											
PLSCR4	57088	broad.mit.edu	37	chr3	145917640	145917640	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagaagcaacagcaggtgCatctgaagggtctctgcatt	13	8	11	9	0	2	2	0	1	2	1	3	2	2	2	0	2	6	4	0	2	4	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:145917640C>T	uc010huy.2	-	6	913	c.584G>A	c.(583-585)TGC>TAC	p.C195Y	PLSCR4_uc010huz.2_Missense_Mutation_p.C195Y|PLSCR4_uc003evt.3_Missense_Mutation_p.C195Y|PLSCR4_uc010hva.2_Intron|PLSCR4_uc003evu.3_Intron	NM_001128305	NP_001121777	Q9NRQ2	PLS4_HUMAN	phospholipid scramblase 4 isoform a	195	Cys-rich.|Cytoplasmic (By similarity).				blood coagulation|phospholipid scrambling	integral to membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding				0						ACAGCAGGTGCATCTGAAGGG	0.507													6	29					0	0	0.00308	0	0		T	145917640	T	T	145917640	3	4	61	1	0	0	0	0	1	0	0	0	12131	710	25	2	421	2	PLSCR4	3	145917640	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4420199	145917640	52104790	217	42223											
ZIC1	7545	broad.mit.edu	37	chr3	147128485	147128485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgctgcgccgcagctgcacGgctacgggcccatgaacgtg	7	6	14	14	5	0	1	0	1	0	0	0	1	0	1	2	2	6	5	2	2	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:147128485G>A	uc003ewe.2	+	1	1305	c.586G>A	c.(586-588)GGC>AGC	p.G196S		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	196					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GCAGCTGCACGGCTACGGGCC	0.652													7	38					0	0	0.00308	0	0		A	147128485	A	A	147128485	3	1	61	1	0	0	0	0	1	0	0	0	17703	1116	39	1	588	1	ZIC1	3	147128485	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1210845	147128485	50893945	218	42224											
FAM194A	131831	broad.mit.edu	37	chr3	150398595	150398595	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttttgccttgagtctgtcGacctcactaccatgggctgc	5	14	9	13	1	3	1	1	1	2	0	4	2	3	1	3	1	3	1	3	1	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:150398595G>A	uc003eyg.2	-	8	1062	c.1005C>T	c.(1003-1005)GTC>GTT	p.V335V	FAM194A_uc003eyh.2_Silent_p.V189V	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	335										skin(2)|ovary(1)	3						TGAGTCTGTCGACCTCACTAC	0.413													9	79					0	0	0.004482	0	0		A	150398595	A	A	150398595	2	1	61	1	0	0	0	0	0	0	0	1	5537	1045	37	1		1	FAM194A	3	150398595	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3270110	150398595	47623835	219	42225											
IGSF10	285313	broad.mit.edu	37	chr3	151174864	151174864	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagggattgtgtgaatgcCattgctgtgaagcatgagta	10	12	14	5	0	1	3	1	3	0	0	1	4	1	4	1	1	3	3	1	1	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:151174864C>A	uc011bod.1	-	2	274	c.274G>T	c.(274-276)GGC>TGC	p.G92C		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	92	LRR 2.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GTGTGAATGCCATTGCTGTGA	0.453													12	58					7.03913e-09	7.74085e-09	0.013537	1	0		A	151174864	A	A	151174864	3	1	61	1	0	0	0	0	1	0	0	0	7613	594	21	5	7665	5	IGSF10	3	151174864	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	776269	151174864	46847566	220	42226											
ARPM1	84517	broad.mit.edu	37	chr3	169485486	169485486	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaggaattcctcaggcCtgtatcacatttcattatgc	13	12	7	9	0	3	1	3	0	0	1	4	2	4	2	2	2	1	1	2	2	5	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:169485486C>A	uc003ffs.1	-	2	1228	c.853G>T	c.(853-855)GGC>TGC	p.G285C	TERC_uc003ffr.1_5'Flank	NM_032487	NP_115876	Q9BYD9	ARPM1_HUMAN	actin related protein M1	285						cytoplasm|cytoskeleton					0	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;5.01e-59)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			TTCCTCAGGCCTGTATCACAT	0.458													21	103					3.08376e-08	3.38415e-08	0.00333	1	0		A	169485486	A	A	169485486	3	1	61	1	0	0	0	0	1	0	0	0	977	681	24	5	269	5	ARPM1	3	169485486	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	18310622	169485486	28536944	221	42227											
PLD1	5337	broad.mit.edu	37	chr3	171392296	171392296	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaacttacttacctgtacGttagcatggacagacccagg	12	9	9	11	1	0	2	0	0	0	2	0	3	0	3	2	2	5	3	2	2	5	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:171392296G>A	uc003fhs.2	-	19	2339	c.2223C>T	c.(2221-2223)AAC>AAT	p.N741N	PLD1_uc003fht.2_Silent_p.N703N|PLD1_uc003fhu.3_Silent_p.N35N|PLD1_uc003fhv.1_Silent_p.N66N	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	741	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	TTACCTGTACGTTAGCATGGA	0.388													6	48					0	0	0.001168	0	0		A	171392296	A	A	171392296	2	1	61	1	0	0	0	0	0	0	0	1	12064	1136	40	1		1	PLD1	3	171392296	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1906810	171392296	26630134	222	42228											
PIK3CA	5290	broad.mit.edu	37	chr3	178952084	178952084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaacaaatgaatgatgcaCatcatggtggctggacaaca	16	8	10	7	0	1	3	1	3	0	0	1	4	1	4	0	3	3	2	0	3	4	0	rs121913281		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:178952084C>T	uc003fjk.2	+	21	3296	c.3139C>T	c.(3139-3141)CAT>TAT	p.H1047Y		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1047	PI3K/PI4K.		H -> L (in cancer).|H -> R (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; requires binding to p85 regulatory subunit to induce cellular transformation but not interaction with RAS; may mimic the conformatitonal change triggered by the interaction with RAS; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells; increases lipid kinase activity; may alter the interaction of the PI3K/ PI4K kinase domain with the cell membrane).|H -> Y (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.H1047R(1247)|p.H1047L(145)|p.H1047Y(31)|p.H1047Q(3)|p.H1047T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GAATGATGCACATCATGGTGG	0.373	H1047Y(MFE280_ENDOMETRIUM)|H1047Y(TOV21G_OVARY)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			11	74					0	0	0.008291	0	0		T	178952084	T	T	178952084	3	4	61	1	0	0	0	0	1	0	0	0	11932	478	17	4	3217	4	PIK3CA	3	178952084	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	7559788	178952084	19070346	223	42229											
FAM131A	131408	broad.mit.edu	37	chr3	184059734	184059734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgctcaggtgaatctcaGccccttctcccacccaaagg	8	9	7	17	0	3	1	2	1	2	0	5	1	3	1	5	2	2	1	5	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:184059734G>A	uc003fog.2	+	1	1477	c.113G>A	c.(112-114)AGC>AAC	p.S38N	FAM131A_uc003fob.1_Intron|FAM131A_uc003foc.2_Intron|FAM131A_uc003foe.2_Intron	NM_144635	NP_653236	Q6UXB0	F131A_HUMAN	hypothetical protein LOC131408 precursor	38						extracellular region				breast(1)	1	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GTGAATCTCAGCCCCTTCTCC	0.547													20	120					0	0	0.007413	0	0		A	184059734	A	A	184059734	3	1	61	1	0	0	0	0	1	0	0	0	5450	986	34	2		2	FAM131A	3	184059734	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	5107650	184059734	13962696	224	42230											
HRG	3273	broad.mit.edu	37	chr3	186390618	186390618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttcgtggacttctctgtgCggaactgccccagacaccat	8	10	9	14	2	1	1	0	0	1	1	3	3	1	3	3	2	3	0	3	2	1	2	rs140916341		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:186390618C>T	uc003fqq.2	+	5	624	c.601C>T	c.(601-603)CGG>TGG	p.R201W		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	201	Cystatin 2.				fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		CTTCTCTGTGCGGAACTGCCC	0.403													8	42					0	0	0.004482	0	0		T	186390618	T	T	186390618	3	4	61	1	0	0	0	0	1	0	0	0	7370	759	27	1	619	1	HRG	3	186390618	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2330884	186390618	11631812	225	42231											
BCL6	604	broad.mit.edu	37	chr3	187444578	187444578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcggaaggaggcctggcagCggtcacacttgtagggtttg	8	8	17	8	2	1	0	1	0	0	0	1	2	1	2	1	6	2	3	1	6	2	3	rs147650939		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:187444578C>T	uc003frp.3	-	7	2106	c.1649G>A	c.(1648-1650)CGC>CAC	p.R550H	BCL6_uc011bsf.1_Intron|BCL6_uc010hza.2_Missense_Mutation_p.R448H|BCL6_uc003frq.1_Missense_Mutation_p.R550H	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	550	C2H2-type 2.				negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		GGCCTGGCAGCGGTCACACTT	0.587			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								11	74					0	0	0.010729	0	0		T	187444578	T	T	187444578	3	4	61	1	0	0	0	0	1	0	0	0	1377	768	27	1	487	1	BCL6	3	187444578	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1053960	187444578	10577852	226	42232											
TFRC	7037	broad.mit.edu	37	chr3	195782167	195782168	+	Frame_Shift_Del	DEL	TG	-	-																															gtacccaaataaggataatcTgtgtcctgcaagacaacgcg																										TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:195782167_195782168delTG	uc003fvz.3	-	17	1965_1966	c.1682_1683delCA	c.(1681-1683)ACAfs	p.T561fs	TFRC_uc003fwa.3_Frame_Shift_Del_p.T561fs|TFRC_uc010hzy.2_Frame_Shift_Del_p.T480fs|TFRC_uc011btr.1_Frame_Shift_Del_p.T279fs	NM_003234	NP_003225	P02786	TFR1_HUMAN	transferrin receptor	561	Extracellular (Potential).				cellular iron ion homeostasis|endocytosis|interspecies interaction between organisms|proteolysis|transferrin transport|transmembrane transport	coated pit|endosome|integral to plasma membrane|melanosome	peptidase activity|transferrin receptor activity			ovary(3)	3	all_cancers(143;1.94e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.36e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.17e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00233)		AAGGATAATCTGTGTCCTGCAA	0.5			T	BCL6	NHL								21	43	---	---	---	---						.	-	195782168	-	-	195782167	7	5	61	1	0	1	0	1	0	0	0	0	15837	1567	55	0	611	0	TFRC	3	195782167	Frame_Shift_Del	DEL	TG	TCGA-BR-8081-01A-11D-2340-08	8337589	195782167	2240263	227	42233											
TCTEX1D2	255758	broad.mit.edu	37	chr3	196043062	196043062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttgccagttcctccttgaGcacagcatggatacagtctt	9	13	8	11	0	1	1	0	1	1	0	3	2	3	2	3	1	4	3	3	1	1	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:196043062G>A	uc003fwi.2	-	2	290	c.154C>T	c.(154-156)CTC>TTC	p.L52F	TM4SF19_uc003fwj.2_RNA|uc003fwk.1_5'Flank	NM_152773	NP_689986	Q8WW35	TC1D2_HUMAN	Tctex1 domain containing 2	52							protein binding			ovary(1)|breast(1)	2	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		TCCTCCTTGAGCACAGCATGG	0.403													4	34					0	0	0.009096	0	0		A	196043062	A	A	196043062	3	1	61	1	0	0	0	0	1	0	0	0	15745	971	34	2	290	2	TCTEX1D2	3	196043062	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	260895	196043062	1979368	228	42234											
DGKQ	1609	broad.mit.edu	37	chr4	959075	959075	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcaacgtccaacactacCgcgcctgcggcaggagccca	10	3	11	17	4	0	0	0	0	0	0	1	1	1	1	4	3	5	2	4	3	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:959075C>T	uc003gbw.2	-	15	1697	c.1623G>A	c.(1621-1623)GCG>GCA	p.A541A	DGKQ_uc010ibn.2_Silent_p.A528A	NM_001347	NP_001338	P52824	DGKQ_HUMAN	diacylglycerol kinase, theta	541					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|platelet activation|protein kinase C signaling cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to ATP|thrombin receptor signaling pathway	cytoskeleton|cytosol|nuclear speck|plasma membrane	activating transcription factor binding|ATP binding|diacylglycerol kinase activity|kinase binding|metal ion binding|phospholipase binding			kidney(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CCAACACTACCGCGCCTGCGG	0.682													4	20					0	0	0.009096	0	0		T	959075	T	T	959075	2	4	61	1	0	0	0	0	0	0	0	1	4479	639	23	1		1	DGKQ	4	959075	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08		959075	190195201	229	42235											
EVC2	132884	broad.mit.edu	37	chr4	5578094	5578094	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcccatcggccacccactGctgccagctcgccagggcct	5	5	12	19	2	0	0	0	0	0	0	2	0	0	0	6	3	3	2	6	3	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:5578094G>A	uc003gij.2	-	18	3199	c.3145C>T	c.(3145-3147)CAG>TAG	p.Q1049*	EVC2_uc011bwb.1_Nonsense_Mutation_p.Q489*|EVC2_uc003gik.2_Nonsense_Mutation_p.Q969*	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1049	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						GCCACCCACTGCTGCCAGCTC	0.627													8	30					0	0	0.00308	0	0		A	5578094	A	A	5578094	4	1	61	1	0	0	0	0	0	1	0	0	5294	1328	46	2	801	2	EVC2	4	5578094	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4619019	5578094	185576182	230	42236											
WFS1	7466	broad.mit.edu	37	chr4	6302887	6302887	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccatgcagagccctacacGcgcagggccctggccaccga	9	3	11	18	3	0	1	0	0	0	1	0	2	0	1	5	2	3	2	5	2	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:6302887G>A	uc003giy.2	+	8	1531	c.1365G>A	c.(1363-1365)ACG>ACA	p.T455T	WFS1_uc003gix.2_Silent_p.T455T|WFS1_uc003giz.2_Silent_p.T273T	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	455					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		AGCCCTACACGCGCAGGGCCC	0.637													23	62					0	0	0.00278	0	0		A	6302887	A	A	6302887	2	1	61	1	0	0	0	0	0	0	0	1	17386	1074	38	1		1	WFS1	4	6302887	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	724793	6302887	184851389	231	42237											
PPP2R2C	5522	broad.mit.edu	37	chr4	6325119	6325119	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcagccgggtgccaggcCgtgtgcaggatcttcttggt	4	12	14	11	2	3	0	1	0	3	0	4	1	3	1	3	4	3	1	3	4	0	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:6325119C>T	uc003gjc.2	-	9	1624	c.1254G>A	c.(1252-1254)ACG>ACA	p.T418T	PPP2R2C_uc003gjb.2_Silent_p.T401T|PPP2R2C_uc011bwd.1_Silent_p.T411T|PPP2R2C_uc011bwe.1_Silent_p.T411T|PPP2R2C_uc003gja.2_Silent_p.T418T	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	418	WD 7.				signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						GGTGCCAGGCCGTGTGCAGGA	0.587													9	39					0	0	0.008291	0	0		T	6325119	T	T	6325119	2	4	61	1	0	0	0	0	0	0	0	1	12408	639	23	1		1	PPP2R2C	4	6325119	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	22232	6325119	184829157	232	42238											
ZNF518B	85460	broad.mit.edu	37	chr4	10447064	10447064	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacttcatttggctcagacaGggtcattttatttggaatac	10	15	9	7	0	3	1	3	0	0	1	3	3	3	2	0	3	1	1	0	3	3	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:10447064G>T	uc003gmn.2	-	3	1376	c.889C>A	c.(889-891)CTG>ATG	p.L297M		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	297					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						GGCTCAGACAGGGTCATTTTA	0.373													33	155					3.62531e-18	4.08861e-18	0.004289	1	0		T	10447064	T	T	10447064	3	4	61	1	0	0	0	0	1	0	0	0	17988	991	35	5	2339	5	ZNF518B	4	10447064	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4121945	10447064	180707212	233	42239											
ZNF518B	85460	broad.mit.edu	37	chr4	10447911	10447911	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcaaggaattatgtccgccGttcaagtgtgtagtgtatag	10	13	12	6	2	2	0	2	0	0	0	3	1	3	1	2	1	0	3	2	1	7	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:10447911G>A	uc003gmn.2	-	3	529	c.42C>T	c.(40-42)AAC>AAT	p.N14N		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	14					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						TATGTCCGCCGTTCAAGTGTG	0.403													34	150					0	0	0.004878	0	0		A	10447911	A	A	10447911	2	1	61	1	0	0	0	0	0	0	0	1	17988	1136	40	1		1	ZNF518B	4	10447911	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	847	10447911	180706365	234	42240											
GPR125	166647	broad.mit.edu	37	chr4	22390560	22390560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccaaggagggttcccatgCcatccagcaactggaaaaga	13	6	10	12	0	0	1	0	0	0	1	3	3	3	3	4	3	3	2	4	3	4	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:22390560C>T	uc003gqm.1	-	19	2999	c.2734G>A	c.(2734-2736)GCA>ACA	p.A912T	GPR125_uc010ieo.1_Missense_Mutation_p.A768T|GPR125_uc003gql.1_Missense_Mutation_p.A39T	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	912	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				GGTTCCCATGCCATCCAGCAA	0.403													18	44					0	0	0.00499	0	0		T	22390560	T	T	22390560	3	4	61	1	0	0	0	0	1	0	0	0	6654	739	26	2	1235	2	GPR125	4	22390560	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	11942649	22390560	168763716	235	42241											
TLR10	81793	broad.mit.edu	37	chr4	38777063	38777063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggataaatccagtgtcgttGtggctggggtcaagtctgcg	8	11	15	7	2	2	0	1	0	1	0	4	1	3	1	1	4	1	2	1	4	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:38777063G>A	uc003gti.2	-	2	528	c.149C>T	c.(148-150)ACA>ATA	p.T50I	TLR10_uc003gtj.2_Missense_Mutation_p.T50I|TLR10_uc003gtk.2_Missense_Mutation_p.T50I	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	50	Extracellular (Potential).|LRR 2.				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						CAGTGTCGTTGTGGCTGGGGT	0.458													13	48					0	0	0.003163	0	0		A	38777063	A	A	38777063	3	1	61	1	0	0	0	0	1	0	0	0	15975	1377	48	4	2290	4	TLR10	4	38777063	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	16386503	38777063	152377213	236	42242											
LRRC66	339977	broad.mit.edu	37	chr4	52861526	52861526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccagctacagaagagacGcccactgaatgtgcactgag	12	6	12	11	1	0	4	0	2	0	2	0	5	0	4	2	0	4	2	2	0	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:52861526G>A	uc003gzi.2	-	4	1675	c.1662C>T	c.(1660-1662)GGC>GGT	p.G554G		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	554						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						CAGAAGAGACGCCCACTGAAT	0.512													18	104					0	0	0.007413	0	0		A	52861526	A	A	52861526	2	1	61	1	0	0	0	0	0	0	0	1	9036	1074	38	1		1	LRRC66	4	52861526	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	14084463	52861526	138292750	237	42243											
KDR	3791	broad.mit.edu	37	chr4	55964877	55964877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttacccgcttaacggtcCgtaggatgatgacaagaagt	11	12	10	8	3	0	3	0	2	0	1	1	4	1	4	2	2	2	2	2	2	5	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:55964877C>T	uc003has.2	-	16	2662	c.2360G>A	c.(2359-2361)CGG>CAG	p.R787Q	KDR_uc003hat.1_Missense_Mutation_p.R787Q	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	787	Helical; (Potential).			R -> G (in Ref. 4; AAA59459/CAA43837).	angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	CTTAACGGTCCGTAGGATGAT	0.433			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			9	40					0	0	0.004482	0	0		T	55964877	T	T	55964877	3	4	61	1	0	0	0	0	1	0	0	0	8155	652	23	1	1770	1	KDR	4	55964877	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3103351	55964877	135189399	238	42244											
YTHDC1	91746	broad.mit.edu	37	chr4	69184427	69184427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccatttaaaaacacatctCggcgaactcctgaaaatcgt	14	9	5	13	3	1	1	0	1	1	0	4	2	2	1	3	1	2	0	3	1	6	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:69184427C>T	uc003hdx.2	-	14	2095	c.1742G>A	c.(1741-1743)CGA>CAA	p.R581Q	YTHDC1_uc003hdy.2_Missense_Mutation_p.R563Q	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	581	Arg-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						AAACACATCTCGGCGAACTCC	0.308													7	32					0	0	0.00308	0	0		T	69184427	T	T	69184427	3	4	61	1	0	0	0	0	1	0	0	0	17522	884	31	1	457	1	YTHDC1	4	69184427	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	13219550	69184427	121969849	239	42245											
PPBP	5473	broad.mit.edu	37	chr4	74853698	74853698	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttcgccaagtttctcttAgtttgtcctttggtggagga	5	17	10	9	1	1	0	0	0	1	0	4	2	2	2	3	3	0	2	3	3	2	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:74853698A>G	uc003hhj.2	-	1	203	c.123T>C	c.(121-123)ACT>ACC	p.T41T		NM_002704	NP_002695	P02775	CXCL7_HUMAN	pro-platelet basic protein precursor	41					chemotaxis|defense response to bacterium|immune response|platelet activation|platelet degranulation|positive regulation of cell division	extracellular space|platelet alpha granule lumen	chemokine activity|glucose transmembrane transporter activity|growth factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(15;0.00136)		all cancers(17;0.00273)|Lung(101;0.196)			AGTTTCTCTTAGTTTGTCCTT	0.532													4	50					0	0	0.009096	0	0		G	74853698	G	G	74853698	2	3	61	1	0	0	0	0	0	0	0	1	12322	407	15	3		3	PPBP	4	74853698	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	5669271	74853698	116300578	240	42246											
PTPN13	5783	broad.mit.edu	37	chr4	87622904	87622904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtgctttggaccgaatccGagagagacaaaagaaacttc	16	7	10	8	2	0	3	0	0	0	3	2	7	1	4	2	1	2	1	2	1	5	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:87622904G>A	uc003hpz.2	+	7	1625	c.1145G>A	c.(1144-1146)CGA>CAA	p.R382Q	PTPN13_uc003hpy.2_Missense_Mutation_p.R382Q|PTPN13_uc003hqa.2_Missense_Mutation_p.R382Q|PTPN13_uc003hqb.2_Missense_Mutation_p.R382Q	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	382						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		GACCGAATCCGAGAGAGACAA	0.393													10	57					0	0	0.006214	0	0		A	87622904	A	A	87622904	3	1	61	1	0	0	0	0	1	0	0	0	12805	1058	37	1	1167	1	PTPN13	4	87622904	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	12769206	87622904	103531372	241	42247											
ADH1A	124	broad.mit.edu	37	chr4	100205900	100205900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaagcagtagttgctctccGggtttttacaaattctgcat	9	15	8	9	1	3	0	1	0	2	0	4	0	3	0	1	1	4	6	1	1	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:100205900G>A	uc003hur.1	-	4	391	c.320C>T	c.(319-321)CCG>CTG	p.P107L	uc003hum.1_Intron|ADH1A_uc011ceg.1_Missense_Mutation_p.P107L|ADH1A_uc010ilf.1_5'Flank|ADH1A_uc010ilg.1_Missense_Mutation_p.P107L	NM_000667	NP_000658	P07327	ADH1A_HUMAN	class I alcohol dehydrogenase, alpha subunit	107					ethanol oxidation|transcription, DNA-dependent|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|protein binding|zinc ion binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(123;9.56e-08)	Fomepizole(DB01213)|NADH(DB00157)	GTTGCTCTCCGGGTTTTTACA	0.418													8	51					0	0	0.00308	0	0		A	100205900	A	A	100205900	3	1	61	1	0	0	0	0	1	0	0	0	307	1116	39	1	831	1	ADH1A	4	100205900	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	12582996	100205900	90948376	242	42248											
TACR3	6870	broad.mit.edu	37	chr4	104640560	104640560	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgccaccaccacaccataCgccagggaccagagcgcgat	12	3	9	17	3	0	1	0	0	0	1	0	3	0	2	6	1	3	0	6	1	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:104640560C>T	uc003hxe.1	-	1	416	c.273G>A	c.(271-273)GCG>GCA	p.A91A		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	91	Helical; Name=1; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		CCACACCATACGCCAGGGACC	0.617													18	54					0	0	0.007413	0	0		T	104640560	T	T	104640560	2	4	61	1	0	0	0	0	0	0	0	1	15532	523	19	1		1	TACR3	4	104640560	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4434660	104640560	86513716	243	42249											
ANK2	287	broad.mit.edu	37	chr4	114277438	114277438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggttacacccaaaaccaCagatgtaagtacaccaaaac	18	6	6	11	0	0	2	0	1	0	1	0	2	0	2	3	1	4	3	3	1	7	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:114277438C>T	uc003ibe.3	+	38	7764	c.7664C>T	c.(7663-7665)ACA>ATA	p.T2555I	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Intron|ANK2_uc011cgb.1_Missense_Mutation_p.T2570I	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2522					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CCCAAAACCACAGATGTAAGT	0.493													23	109					0	0	0.00278	0	0		T	114277438	T	T	114277438	3	4	61	1	0	0	0	0	1	0	0	0	621	478	17	4	7879	4	ANK2	4	114277438	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	9636878	114277438	76876838	244	42250											
HSPA4L	22824	broad.mit.edu	37	chr4	128724950	128724950	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaaactaaagaagctaaTgagtgcaaatgcatcagatc	19	8	8	6	0	1	4	1	2	0	2	2	4	1	4	0	0	4	3	0	0	7	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:128724950T>C	uc003ifm.2	+	7	1083	c.830T>C	c.(829-831)ATG>ACG	p.M277T	HSPA4L_uc010iny.1_Missense_Mutation_p.M236T|HSPA4L_uc011cgr.1_Missense_Mutation_p.M244T	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	277					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						AAGAAGCTAATGAGTGCAAAT	0.343													11	43					0	0	0.010729	0	0		C	128724950	C	C	128724950	3	2	61	1	0	0	0	0	1	0	0	0	7429	1464	51	3	856	3	HSPA4L	4	128724950	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	14447512	128724950	62429326	245	42251											
PCDH10	57575	broad.mit.edu	37	chr4	134084187	134084187	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagctctgggccactcagaTcggtgctggatgccttcttt	7	12	11	11	1	3	1	1	0	2	1	4	2	3	2	2	3	3	2	2	3	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:134084187T>A	uc003iha.2	+	4	3679	c.2853T>A	c.(2851-2853)GAT>GAA	p.D951E		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	951	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GCCACTCAGATCGGTGCTGGA	0.488													5	71					0	0	0.000602	0	0		A	134084187	A	A	134084187	3	1	61	1	0	0	0	0	1	0	0	0	11526	1432	50	5	2927	5	PCDH10	4	134084187	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	5359237	134084187	57070089	246	42252											
PCDH18	54510	broad.mit.edu	37	chr4	138450912	138450912	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggagatgaagatggagaCgatctgtgatgagatctgat	13	10	15	3	1	2	7	0	4	2	4	2	11	2	7	0	2	0	1	0	2	2	1	rs140521915		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:138450912C>T	uc003ihe.3	-	1	2718	c.2331G>A	c.(2329-2331)TCG>TCA	p.S777S	PCDH18_uc003ihf.3_Silent_p.S770S|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Silent_p.S557S|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	777	Cytoplasmic (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					AAGATGGAGACGATCTGTGAT	0.502													5	40					0	0	0.000602	0	0		T	138450912	T	T	138450912	2	4	61	1	0	0	0	0	0	0	0	1	11532	523	19	1		1	PCDH18	4	138450912	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4366725	138450912	52703364	247	42253											
ABCE1	6059	broad.mit.edu	37	chr4	146044706	146044706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctatctagcggatcgcGtcatcgtttttgatggtgtt	6	15	10	10	4	2	1	1	1	1	0	4	2	2	2	2	2	1	2	2	2	2	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:146044706G>A	uc003ijx.2	+	16	2034	c.1594G>A	c.(1594-1596)GTC>ATC	p.V532I	ABCE1_uc003ijy.2_Missense_Mutation_p.V532I|ABCE1_uc010iot.2_RNA	NM_001040876	NP_001035809	P61221	ABCE1_HUMAN	ATP-binding cassette, sub-family E, member 1	532	ABC transporter 2.				interspecies interaction between organisms|response to virus|RNA catabolic process	mitochondrion	ATP binding|ATPase activity|electron carrier activity|iron-sulfur cluster binding|ribonuclease inhibitor activity			skin(1)	1	all_hematologic(180;0.151)					AGCGGATCGCGTCATCGTTTT	0.338													8	25					0	0	0.004482	0	0		A	146044706	A	A	146044706	3	1	61	1	0	0	0	0	1	0	0	0	64	1145	40	1	1652	1	ABCE1	4	146044706	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	7593794	146044706	45109570	248	42254											
ARHGAP10	79658	broad.mit.edu	37	chr4	148827846	148827846	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaaaggaagcagtggttGgaagctctgggtggaaagga	13	6	19	3	0	1	0	0	0	1	0	1	6	1	5	0	7	2	3	0	7	4	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:148827846G>A	uc003ilf.2	+	11	1092	c.1092G>A	c.(1090-1092)TTG>TTA	p.L364L	ARHGAP10_uc003ilg.2_Silent_p.L13L	NM_024605	NP_078881	A1A4S6	RHG10_HUMAN	Rho GTPase activating protein 10	364	PH.				apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			skin(2)|pancreas(1)|lung(1)	4	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)		AGCAGTGGTTGGAAGCTCTGG	0.418													11	65					0	0	0.008291	0	0		A	148827846	A	A	148827846	2	1	61	1	0	0	0	0	0	0	0	1	862	1339	47	4		4	ARHGAP10	4	148827846	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2783140	148827846	42326430	249	42255											
LRBA	987	broad.mit.edu	37	chr4	151199013	151199013	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccagtgttacctctggtcGtaagacagcgccatggcccg	7	10	11	13	3	1	1	0	0	1	1	3	1	2	1	4	2	2	2	4	2	2	3	rs76608264	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:151199013G>A	uc010ipj.2	-	57	8967	c.8493C>T	c.(8491-8493)TAC>TAT	p.Y2831Y	LRBA_uc010ipi.2_Silent_p.Y353Y|LRBA_uc003ils.3_Silent_p.Y726Y|LRBA_uc003ilt.3_Silent_p.Y1479Y|LRBA_uc003ilu.3_Silent_p.Y2819Y|LRBA_uc003ilr.3_Silent_p.Y251Y	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2831	WD 6.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					ACCTCTGGTCGTAAGACAGCG	0.443													22	125					0	0	0.004656	0	0		A	151199013	A	A	151199013	2	1	61	1	0	0	0	0	0	0	0	1	8949	1140	40	1		1	LRBA	4	151199013	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2371167	151199013	39955263	250	42256											
FHDC1	85462	broad.mit.edu	37	chr4	153897118	153897118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtggccaagtctgtgcGgaccctgaccgcctcagaga	8	6	14	13	2	2	2	1	1	1	1	2	4	2	3	4	3	1	1	4	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:153897118G>A	uc003inf.2	+	11	2750	c.2675G>A	c.(2674-2676)CGG>CAG	p.R892Q		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	892					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					AAGTCTGTGCGGACCCTGACC	0.672													6	37					0	0	0.001168	0	0		A	153897118	A	A	153897118	3	1	61	1	0	0	0	0	1	0	0	0	5890	1116	39	1	2717	1	FHDC1	4	153897118	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2698105	153897118	37257158	251	42257											
LRAT	9227	broad.mit.edu	37	chr4	155665779	155665779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaagcgtctcatcctgggcGttattgtcaaagtggccagc	9	10	11	11	2	2	0	2	0	1	0	4	0	3	0	2	2	2	1	2	2	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:155665779G>A	uc003iom.1	+	1	628	c.301G>A	c.(301-303)GTT>ATT	p.V101I	uc003iol.2_Intron|LRAT_uc003ion.1_Missense_Mutation_p.V101I	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	101	Cytoplasmic (By similarity).				response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)	CATCCTGGGCGTTATTGTCAA	0.572													6	26					0	0	0.001168	0	0		A	155665779	A	A	155665779	3	1	61	1	0	0	0	0	1	0	0	0	8948	1145	40	1	303	1	LRAT	4	155665779	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1768661	155665779	35488497	252	42258											
FAM198B	51313	broad.mit.edu	37	chr4	159092400	159092400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcccaagtagatggcacacGcagtgcccagcagaaggttt	12	6	12	11	1	0	2	0	0	0	2	0	2	0	2	2	2	3	5	2	2	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:159092400G>A	uc003ipp.3	-	2	580	c.128C>T	c.(127-129)GCG>GTG	p.A43V	uc003ipu.1_5'Flank|FAM198B_uc003ipq.3_Missense_Mutation_p.A43V|FAM198B_uc003ipr.3_Missense_Mutation_p.A43V|FAM198B_uc003ips.2_Missense_Mutation_p.A43V|uc003ipt.1_RNA	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	43	Helical; Signal-anchor for type II membrane protein; (Potential).					Golgi membrane|integral to membrane					0						GATGGCACACGCAGTGCCCAG	0.642													4	51					0	0	0.009096	0	0		A	159092400	A	A	159092400	3	1	61	1	0	0	0	0	1	0	0	0	5540	1087	38	1	1552	1	FAM198B	4	159092400	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3426621	159092400	32061876	253	42259											
GLRA3	8001	broad.mit.edu	37	chr4	175649729	175649729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcattggcaaagaacaaatCaggtttccaaatggagtcca	15	10	8	8	0	2	1	2	0	0	1	4	2	4	2	2	3	1	2	2	3	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:175649729C>T	uc003ity.1	-	4	891	c.388G>A	c.(388-390)GAT>AAT	p.D130N	GLRA3_uc003itz.1_Missense_Mutation_p.D130N	NM_006529	NP_006520	O75311	GLRA3_HUMAN	glycine receptor, alpha 3 isoform a	130	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(3)	3		Prostate(90;0.00601)|Breast(14;0.0091)|Melanoma(52;0.00959)|Renal(120;0.0183)|all_neural(102;0.0891)|all_hematologic(60;0.107)		all cancers(43;4.99e-18)|Epithelial(43;1.18e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.88e-09)|STAD - Stomach adenocarcinoma(60;0.00442)|GBM - Glioblastoma multiforme(59;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0421)	Glycine(DB00145)	AAGAACAAATCAGGTTTCCAA	0.408													13	82					0	0	0.001855	0	0		T	175649729	T	T	175649729	3	4	61	1	0	0	0	0	1	0	0	0	6471	826	29	4	1034	4	GLRA3	4	175649729	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	16557329	175649729	15504547	254	42260											
ODZ3	55714	broad.mit.edu	37	chr4	183713497	183713497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatgtgggaccgcctgtctgCcatcaccatgcccagtgtgg	6	10	12	13	1	2	0	1	0	1	0	2	1	2	1	5	2	2	0	5	2	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:183713497C>T	uc003ivd.1	+	25	5709	c.5672C>T	c.(5671-5673)GCC>GTC	p.A1891V		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1891	YD 7.|Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CGCCTGTCTGCCATCACCATG	0.522													12	51					0	0	0.010729	0	0		T	183713497	T	T	183713497	3	4	61	1	0	0	0	0	1	0	0	0	10855	739	26	2	5770	2	ODZ3	4	183713497	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	8063768	183713497	7440779	255	42261											
AHRR	57491	broad.mit.edu	37	chr5	427768	427768	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcccgggggtcacaggCttggcagctgcggctctgct	4	7	17	13	2	2	0	1	0	1	0	2	0	2	0	1	6	3	6	1	6	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:427768C>A	uc003jav.2	+	8	781	c.737C>A	c.(736-738)GCT>GAT	p.A246D	AHRR_uc003jaw.2_Intron|AHRR_uc010isy.2_Intron|AHRR_uc010isz.2_Intron|AHRR_uc003jax.2_Intron|AHRR_uc003jay.2_Intron	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			GGGTCACAGGCTTGGCAGCTG	0.512													15	60					1.99824e-07	2.17485e-07	0.00499	1	0		A	427768	A	A	427768	3	1	61	1	0	0	0	0	1	0	0	0	417	797	28	5	767	5	AHRR	5	427768	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08		427768	180487492	256	42262											
AHRR	57491	broad.mit.edu	37	chr5	434269	434269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagacccatgcgggatgtcGgtgaggaccaggtgcaccct	8	6	15	12	2	0	2	0	1	0	1	1	4	0	4	3	4	2	2	3	4	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:434269G>A	uc003jav.2	+	12	1524	c.1480G>A	c.(1480-1482)GGT>AGT	p.G494S	AHRR_uc003jaw.2_Missense_Mutation_p.G472S|AHRR_uc010isy.2_Missense_Mutation_p.G322S|AHRR_uc010isz.2_Missense_Mutation_p.G472S|AHRR_uc003jax.2_Missense_Mutation_p.G235S|AHRR_uc003jay.2_Missense_Mutation_p.G332S|AHRR_uc003jaz.2_Missense_Mutation_p.G93S	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	476					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			GCGGGATGTCGGTGAGGACCA	0.657													9	28					0	0	0.004482	0	0		A	434269	A	A	434269	3	1	61	1	0	0	0	0	1	0	0	0	417	1116	39	1	1526	1	AHRR	5	434269	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	6501	434269	180480991	257	42263											
SLC9A3	6550	broad.mit.edu	37	chr5	482775	482775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaaaggccacggccccgCgcaggcccccgtaggacagg	8	1	16	16	4	0	0	0	0	0	0	0	1	0	1	5	6	0	3	5	6	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:482775C>T	uc003jbe.2	-	7	1356	c.1244G>A	c.(1243-1245)CGC>CAC	p.R415H	SLC9A3_uc011clx.1_Missense_Mutation_p.R415H	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	415						cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CACGGCCCCGCGCAGGCCCCC	0.607													7	26					0	0	0.00308	0	0		T	482775	T	T	482775	3	4	61	1	0	0	0	0	1	0	0	0	14738	768	27	1	1304	1	SLC9A3	5	482775	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	48506	482775	180432485	258	42264											
SLC6A3	6531	broad.mit.edu	37	chr5	1409934	1409934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctggaactcatcgatgaGcccggtgatcactgactcca	10	8	10	13	2	2	3	2	3	0	0	4	5	3	4	2	2	3	1	2	2	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:1409934G>A	uc003jck.2	-	10	1421	c.1300C>T	c.(1300-1302)CTC>TTC	p.L434F		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	434					cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	TCATCGATGAGCCCGGTGATC	0.617													6	50					0	0	0.001168	0	0		A	1409934	A	A	1409934	3	1	61	1	0	0	0	0	1	0	0	0	14710	971	34	2	586	2	SLC6A3	5	1409934	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	927159	1409934	179505326	259	42265											
IRX1	79192	broad.mit.edu	37	chr5	3599501	3599501	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgctcaaggcctggctcAacgagcaccgcaagaatccc	11	4	10	16	3	2	1	2	0	0	1	3	2	3	1	3	2	2	5	3	2	4	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:3599501A>G	uc003jde.2	+	2	491	c.439A>G	c.(439-441)AAC>GAC	p.N147D		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	147	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GGCCTGGCTCAACGAGCACCG	0.632													10	64					0	0	0.008291	0	0		G	3599501	G	G	3599501	3	3	61	1	0	0	0	0	1	0	0	0	7859	130	5	3	445	3	IRX1	5	3599501	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	2189567	3599501	177315759	260	42266											
ADAMTS16	170690	broad.mit.edu	37	chr5	5232611	5232611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagtatctcataggagtcGcctctgcaccaaccccaagt	10	8	10	13	1	2	0	1	0	2	0	4	2	2	2	4	2	2	2	4	2	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:5232611G>A	uc003jdl.2	+	12	1970	c.1832G>A	c.(1831-1833)CGC>CAC	p.R611H	ADAMTS16_uc003jdk.1_Missense_Mutation_p.R611H|ADAMTS16_uc010itk.1_5'Flank	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	611	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CATAGGAGTCGCCTCTGCACC	0.572													5	78					0	0	0.000602	0	0		A	5232611	A	A	5232611	3	1	61	1	0	0	0	0	1	0	0	0	261	1087	38	1	1878	1	ADAMTS16	5	5232611	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1633110	5232611	175682649	261	42267											
CDH10	1008	broad.mit.edu	37	chr5	24505238	24505238	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactgatttcagcagcaataAcagtaagattatgccactga	15	11	7	8	0	1	3	1	2	0	1	1	3	1	3	1	0	5	3	1	0	5	5	rs13174039		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:24505238A>C	uc003jgr.1	-	8	1708	c.1376T>G	c.(1375-1377)GTT>GGT	p.V459G	CDH10_uc011cnu.1_Intron	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	459	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AGCAGCAATAACAGTAAGATT	0.294										HNSCC(23;0.051)			11	53					0	0	0.008291	0	0		C	24505238	C	C	24505238	3	2	61	1	0	0	0	0	1	0	0	0	3099	43	2	5	1010	5	CDH10	5	24505238	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	19272627	24505238	156410022	262	42268											
PDZD2	23037	broad.mit.edu	37	chr5	32058080	32058080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacacatgagcagatccGcctccccgaacttcaatacc	12	6	5	18	2	1	2	1	1	0	1	3	3	3	2	6	0	3	1	6	0	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:32058080G>A	uc003jhl.2	+	12	2459	c.2071G>A	c.(2071-2073)GCC>ACC	p.A691T	PDZD2_uc003jhm.2_Missense_Mutation_p.A691T|PDZD2_uc011cnx.1_Missense_Mutation_p.A517T	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	691					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GAGCAGATCCGCCTCCCCGAA	0.572													7	33					0	0	0.001984	0	0		A	32058080	A	A	32058080	3	1	61	1	0	0	0	0	1	0	0	0	11720	1087	38	1	2113	1	PDZD2	5	32058080	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	7552842	32058080	148857180	263	42269											
DAB2	1601	broad.mit.edu	37	chr5	39382876	39382876	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcttcccacaaaagggttCggggaggatttgacagagaa	12	7	15	7	1	0	2	0	1	0	1	2	5	1	4	1	5	0	2	1	5	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:39382876C>T	uc003jlx.2	-	10	1716	c.1185G>A	c.(1183-1185)CCG>CCA	p.P395P	DAB2_uc003jlw.2_Silent_p.P374P	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	395					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			CAAAAGGGTTCGGGGAGGATT	0.512													15	66					0	0	0.004007	0	0		T	39382876	T	T	39382876	2	4	61	1	0	0	0	0	0	0	0	1	4221	871	31	1		1	DAB2	5	39382876	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	7324796	39382876	141532384	264	42270											
PTGER4	5734	broad.mit.edu	37	chr5	40681632	40681632	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactggaccaccaacgtgacGgcgcacgccgcctactccta	9	5	10	17	5	0	1	0	1	0	0	1	3	1	2	5	2	2	1	5	2	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:40681632G>A	uc003jlz.2	+	2	1129	c.537G>A	c.(535-537)ACG>ACA	p.T179T		NM_000958	NP_000949	P35408	PE2R4_HUMAN	prostaglandin E receptor 4, subtype EP4	179	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|immune response	integral to membrane|plasma membrane	prostaglandin E receptor activity			lung(2)	2						CCAACGTGACGGCGCACGCCG	0.632													13	42					0	0	0.013537	0	0		A	40681632	A	A	40681632	2	1	61	1	0	0	0	0	0	0	0	1	12768	1103	39	1		1	PTGER4	5	40681632	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1298756	40681632	140233628	265	42271											
C5orf34	375444	broad.mit.edu	37	chr5	43506054	43506054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctctggacaggcagccacaGaccagcactgcttgacccat	10	6	9	16	0	1	2	0	1	1	1	1	3	1	3	4	2	3	3	4	2	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:43506054G>A	uc003jnz.1	-	5	1045	c.728C>T	c.(727-729)TCT>TTT	p.S243F	C5orf34_uc011cpx.1_Missense_Mutation_p.S129F	NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	243										breast(1)	1	Lung NSC(6;2.07e-05)					GGCAGCCACAGACCAGCACTG	0.413													24	100					0	0	0.00333	0	0		A	43506054	A	A	43506054	3	1	61	1	0	0	0	0	1	0	0	0	2296	942	33	4	1228	4	C5orf34	5	43506054	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2824422	43506054	137409206	266	42272											
GZMA	3001	broad.mit.edu	37	chr5	54404137	54404137	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagaaaagtctgcaatgAtcgaaatcactataatttta	18	11	6	6	1	2	3	1	1	1	2	3	4	2	3	0	0	1	1	0	0	7	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:54404137A>G	uc003jpm.2	+	4	579	c.542A>G	c.(541-543)GAT>GGT	p.D181G		NM_006144	NP_006135	P12544	GRAA_HUMAN	granzyme A precursor	181	Peptidase S1.				cleavage of lamin|cytolysis|immune response|negative regulation of DNA binding|negative regulation of endodeoxyribonuclease activity|negative regulation of oxidoreductase activity|positive regulation of apoptosis	extracellular region|immunological synapse|nucleus	protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				GTCTGCAATGATCGAAATCAC	0.428													15	44					0	0	0.003163	0	0		G	54404137	G	G	54404137	3	3	61	1	0	0	0	0	1	0	0	0	6931	333	12	3	556	3	GZMA	5	54404137	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	10898083	54404137	126511123	267	42273											
MAST4	375449	broad.mit.edu	37	chr5	66456371	66456371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaacagctataagagcCggatggtgaggcggagcaag	14	4	17	6	2	0	3	0	1	0	2	0	6	0	5	1	5	4	2	1	5	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:66456371C>T	uc003jut.1	+	26	3237	c.3169C>T	c.(3169-3171)CGG>TGG	p.R1057W	MAST4_uc003juw.2_Missense_Mutation_p.R985W	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1249						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		CTATAAGAGCCGGATGGTGAG	0.398													19	91					0	0	0.007413	0	0		T	66456371	T	T	66456371	3	4	61	1	0	0	0	0	1	0	0	0	9345	643	23	1	3972	1	MAST4	5	66456371	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	12052234	66456371	114458889	268	42274											
RAD17	5884	broad.mit.edu	37	chr5	68687822	68687822	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcttcagagctttggggAaaattctatattgtaaaagt	12	16	8	5	0	3	1	1	0	2	1	4	2	3	2	0	2	1	2	0	2	6	8			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:68687822A>G	uc003jwo.2	+	10	1266	c.1204A>G	c.(1204-1206)AAA>GAA	p.K402E	RAD17_uc003jwg.2_Missense_Mutation_p.K391E|RAD17_uc003jwh.2_Missense_Mutation_p.K391E|RAD17_uc003jwi.2_Missense_Mutation_p.K391E|RAD17_uc003jwj.2_Missense_Mutation_p.K391E|RAD17_uc003jwk.2_Missense_Mutation_p.K391E|RAD17_uc003jwl.2_Missense_Mutation_p.K391E|RAD17_uc003jwm.2_Missense_Mutation_p.K226E|RAD17_uc003jwn.2_Missense_Mutation_p.K305E|RAD17_uc003jwp.2_5'Flank	NM_133339	NP_579917	O75943	RAD17_HUMAN	RAD17 homolog isoform 2	402					cell cycle|DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint|mitotic cell cycle checkpoint|negative regulation of DNA replication|regulation of phosphorylation	nucleoplasm	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Lung NSC(167;5.19e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;9.36e-57)|Epithelial(20;1.21e-52)|all cancers(19;3.34e-48)|Lung(70;0.0183)		AGCTTTGGGGAAAATTCTATA	0.294								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					15	56					0	0	0.00499	0	0		G	68687822	G	G	68687822	3	3	61	1	0	0	0	0	1	0	0	0	13004	247	9	3	1255	3	RAD17	5	68687822	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	2231451	68687822	112227438	269	42275											
ZNF366	167465	broad.mit.edu	37	chr5	71756247	71756247	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttctcgcgcccactggcGtgcttggcttcgtgggcctt	2	13	13	13	4	1	0	0	0	1	0	3	0	1	0	2	3	1	3	2	3	0	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:71756247G>A	uc003kce.1	-	2	1263	c.1077C>T	c.(1075-1077)CAC>CAT	p.H359H		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	359	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		GCCCACTGGCGTGCTTGGCTT	0.662													6	28					0	0	0.001984	0	0		A	71756247	A	A	71756247	2	1	61	1	0	0	0	0	0	0	0	1	17895	1136	40	1		1	ZNF366	5	71756247	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3068425	71756247	109159013	270	42276											
GFM2	84340	broad.mit.edu	37	chr5	74028900	74028900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgggatcttcacgctgaaGacatttcaacgcatgttcca	11	11	8	11	2	3	2	2	1	1	1	4	3	4	3	1	1	1	3	1	1	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:74028900G>A	uc003kdh.1	-	16	1838	c.1534C>T	c.(1534-1536)CTT>TTT	p.L512F	GFM2_uc003kdi.1_Missense_Mutation_p.L465F|GFM2_uc010izj.1_Missense_Mutation_p.L544F|GFM2_uc010izk.1_RNA	NM_032380	NP_115756	Q969S9	RRF2M_HUMAN	mitochondrial elongation factor G2 isoform 1	512					mitochondrial translation|ribosome disassembly	mitochondrion	GTP binding|GTPase activity				0		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.86e-56)		TCACGCTGAAGACATTTCAAC	0.289													10	67					0	0	0.013537	0	0		A	74028900	A	A	74028900	3	1	61	1	0	0	0	0	1	0	0	0	6357	942	33	4	829	4	GFM2	5	74028900	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2272653	74028900	106886360	271	42277											
COL4A3BP	10087	broad.mit.edu	37	chr5	74698880	74698880	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attaatcagactgttagggcCttcctattccaacacacagt	12	12	6	11	0	1	1	1	0	0	1	3	1	3	1	3	1	1	1	3	1	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:74698880C>A	uc011csu.1	-	9	1356	c.934G>T	c.(934-936)GGC>TGC	p.G312C	COL4A3BP_uc003kds.2_Missense_Mutation_p.G312C|COL4A3BP_uc003kdt.2_Missense_Mutation_p.G440C|COL4A3BP_uc003kdu.2_Missense_Mutation_p.G312C	NM_005713	NP_005704	Q9Y5P4	C43BP_HUMAN	alpha 3 type IV collagen binding protein isoform	312					ER to Golgi ceramide transport|immune response	cytosol|endoplasmic reticulum membrane|Golgi apparatus	ceramide binding|phosphatidylinositol-4-phosphate binding|protein binding|protein kinase activity			skin(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;1e-53)		CTGTTAGGGCCTTCCTATTCC	0.333													5	55					1.23904e-05	1.32406e-05	0.000602	1	0		A	74698880	A	A	74698880	3	1	61	1	0	0	0	0	1	0	0	0	3695	681	24	5	976	5	COL4A3BP	5	74698880	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	669980	74698880	106216380	272	42278											
CAMK4	814	broad.mit.edu	37	chr5	110560283	110560283	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcgtcccggattactggatCgacggctccaacagggatgc	8	8	12	13	4	0	0	0	0	0	0	4	4	2	3	2	4	3	1	2	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:110560283C>T	uc011cvj.1	+	2	201	c.102C>T	c.(100-102)ATC>ATT	p.I34I	CAMK4_uc003kpf.2_Silent_p.I34I|CAMK4_uc010jbv.2_5'UTR	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	34					activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		ATTACTGGATCGACGGCTCCA	0.687													4	19					0	0	0.009096	0	0		T	110560283	T	T	110560283	2	4	61	1	0	0	0	0	0	0	0	1	2608	874	31	1		1	CAMK4	5	110560283	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	35861403	110560283	70354977	273	42279											
APC	324	broad.mit.edu	37	chr5	112177857	112177857	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctgaaagtaaaggaatcaAaggaggaaaaaaagtttata	22	8	9	2	0	2	1	1	1	1	0	2	4	2	4	0	3	0	2	0	3	10	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:112177857A>G	uc010jby.2	+	16	6946	c.6566A>G	c.(6565-6567)AAA>AGA	p.K2189R	APC_uc011cvt.1_Missense_Mutation_p.K2171R|APC_uc003kpz.3_Missense_Mutation_p.K2189R|APC_uc003kpy.3_Missense_Mutation_p.K2189R|APC_uc010jbz.2_Missense_Mutation_p.K1906R|APC_uc010jca.2_Missense_Mutation_p.K1489R	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	2189	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		AAAGGAATCAAAGGAGGAAAA	0.343		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			11	59					0	0	0.010729	0	0		G	112177857	G	G	112177857	3	3	61	1	0	0	0	0	1	0	0	0	763	14	1	3	6624	3	APC	5	112177857	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1617574	112177857	68737403	274	42280											
CHSY3	337876	broad.mit.edu	37	chr5	129241210	129241210	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcatcgcgctaccgggtgtgGacgactcctatcctccccag	6	9	10	16	4	1	0	1	0	0	0	5	2	4	1	5	2	1	1	5	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:129241210G>A	uc003kvd.2	+	1	688	c.688G>A	c.(688-690)GAC>AAC	p.D230N		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	230	Lumenal (Potential).|Pro-rich.					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		ACCGGGTGTGGACGACTCCTA	0.612													18	62					0	0	0.008871	0	0		A	129241210	A	A	129241210	3	1	61	1	0	0	0	0	1	0	0	0	3416	1174	41	4	690	4	CHSY3	5	129241210	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	17063353	129241210	51674050	275	42281											
TRPC7	57113	broad.mit.edu	37	chr5	135549172	135549172	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggtctttgtttaagttcTttccaaacttctcgctgagt	6	18	9	8	1	3	1	0	1	3	0	5	1	4	1	1	2	1	3	1	2	2	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:135549172T>G	uc003lbn.1	-	11	2540	c.2537A>C	c.(2536-2538)AAG>ACG	p.K846T	TRPC7_uc010jef.1_Missense_Mutation_p.K783T|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.K777T|TRPC7_uc010jei.1_Missense_Mutation_p.K722T|TRPC7_uc010jej.1_Missense_Mutation_p.K398T	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	847	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GTTTAAGTTCTTTCCAAACTT	0.488													7	24					0	0	0.001984	0	0		G	135549172	G	G	135549172	3	3	61	1	0	0	0	0	1	0	0	0	16610	1609	56	5	52	5	TRPC7	5	135549172	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	6307962	135549172	45366088	276	42282											
TRPC7	57113	broad.mit.edu	37	chr5	135692820	135692820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaggtgctcgttgcccaCggccagctgcagagcgttct	5	10	12	14	3	2	1	0	0	2	1	3	1	2	1	2	2	5	5	2	2	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:135692820C>T	uc003lbn.1	-	1	256	c.253G>A	c.(253-255)GTG>ATG	p.V85M	TRPC7_uc010jef.1_Missense_Mutation_p.V77M|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.V77M|TRPC7_uc010jei.1_Missense_Mutation_p.V77M|TRPC7_uc010jej.1_Translation_Start_Site	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	86	Cytoplasmic (Potential).|ANK 2.				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TCGTTGCCCACGGCCAGCTGC	0.597													12	86					0	0	0.00245	0	0		T	135692820	T	T	135692820	3	4	61	1	0	0	0	0	1	0	0	0	16610	536	19	1	2376	1	TRPC7	5	135692820	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	143648	135692820	45222440	277	42283											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139865292	139865292	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagatgtgtctcagctccCtccaccttctcaagatcagt	9	11	6	15	0	3	2	3	0	2	2	7	2	5	2	3	0	1	1	3	0	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:139865292C>A	uc003lfs.1	+	13	2241	c.2117C>A	c.(2116-2118)CCT>CAT	p.P706H	ANKHD1_uc003lfq.1_Missense_Mutation_p.P725H|ANKHD1_uc003lfr.2_Missense_Mutation_p.P706H|ANKHD1_uc003lft.1_Missense_Mutation_p.P186H|ANKHD1_uc003lfu.1_Missense_Mutation_p.P186H|ANKHD1_uc003lfv.1_Missense_Mutation_p.P36H	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	706						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTCAGCTCCCTCCACCTTCT	0.358													12	51					5.50884e-06	5.90471e-06	0.013537	1	0		A	139865292	A	A	139865292	3	1	61	1	0	0	0	0	1	0	0	0	629	681	24	5	2167	5	ANKHD1-EIF4EBP3	5	139865292	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4172472	139865292	41049968	278	42284											
PCDHA1	56147	broad.mit.edu	37	chr5	140166076	140166076	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgcctgttccgggtggcGtccaaaacacacagggacct	8	7	11	15	3	0	0	0	0	0	0	3	1	2	1	5	3	1	1	5	3	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140166076G>A	uc003lhb.2	+	1	201	c.201G>A	c.(199-201)GCG>GCA	p.A67A	PCDHA1_uc003lha.2_Silent_p.A67A|PCDHA1_uc003lgz.2_Silent_p.A67A	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	67	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCGGGTGGCGTCCAAAACAC	0.602													22	86					0	0	0.014323	0	0		A	140166076	A	A	140166076	2	1	61	1	0	0	0	0	0	0	0	1	11538	1132	40	1		1	PCDHA1	5	140166076	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	300784	140166076	40749184	279	42285											
PCDHA4	56144	broad.mit.edu	37	chr5	140188623	140188623	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagccggggactggtggCgcgcgcatcccgttccgcgt	3	7	16	15	7	0	0	0	0	0	0	2	1	2	1	3	4	2	3	3	4	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140188623C>T	uc003lhi.2	+	1	1952	c.1851C>T	c.(1849-1851)GGC>GGT	p.G617G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.G617G|PCDHA4_uc011daa.1_Silent_p.G617G	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	617	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACTGGTGGCGCGCGCATCC	0.682													12	70					0	0	0.001855	0	0		T	140188623	T	T	140188623	2	4	61	1	0	0	0	0	0	0	0	1	11545	755	27	1		1	PCDHA4	5	140188623	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	22547	140188623	40726637	280	42286											
PCDHA7	56141	broad.mit.edu	37	chr5	140215888	140215888	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacgagccctagatgagacGgacgcaccgcgccaccgcct	10	3	11	17	6	0	2	0	1	0	2	0	5	0	3	5	1	1	1	5	1	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140215888G>A	uc003lhq.2	+	1	1920	c.1920G>A	c.(1918-1920)ACG>ACA	p.T640T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.T640T	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	640	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGATGAGACGGACGCACCGC	0.652													14	60					0	0	0.00245	0	0		A	140215888	A	A	140215888	2	1	61	1	0	0	0	0	0	0	0	1	11548	1103	39	1		1	PCDHA7	5	140215888	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	27265	140215888	40699372	281	42287											
PCDHA11	56138	broad.mit.edu	37	chr5	140249016	140249016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatccacctggaggtgatcGtggacaggccgctgcaggtt	7	8	15	11	2	0	1	0	1	0	0	2	3	1	3	3	5	1	4	3	5	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140249016G>A	uc003lia.2	+	1	1186	c.328G>A	c.(328-330)GTG>ATG	p.V110M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.V110M	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	110	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAGGTGATCGTGGACAGGCC	0.552													43	181					0	0	0.00874	0	0		A	140249016	A	A	140249016	3	1	61	1	0	0	0	0	1	0	0	0	11540	1145	40	1	330	1	PCDHA11	5	140249016	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	33128	140249016	40666244	282	42288											
PCDHGA8	9708	broad.mit.edu	37	chr5	140773918	140773918	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaactctgacaccggtgTcctgtatgcgctgcaatctt	8	12	8	13	2	3	1	1	1	2	0	4	1	4	1	2	1	3	3	2	1	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140773918T>C	uc003lkd.1	+	1	2436	c.1538T>C	c.(1537-1539)GTC>GCC	p.V513A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.V513A	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	513	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACACCGGTGTCCTGTATGCG	0.592													16	50					0	0	0.003163	0	0		C	140773918	C	C	140773918	3	2	61	1	0	0	0	0	1	0	0	0	11579	1667	58	3	1540	3	PCDHGA8	5	140773918	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	524902	140773918	40141342	283	42289											
PCDHGB5	56101	broad.mit.edu	37	chr5	140779258	140779258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctttgactacgagcagctgCgcaccttcgaactcacacta	10	9	7	15	3	1	1	1	1	0	0	2	3	1	1	2	0	5	3	2	0	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140779258C>T	uc003lkf.1	+	1	1564	c.1564C>T	c.(1564-1566)CGC>TGC	p.R522C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.R522C	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	522	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAGCAGCTGCGCACCTTCGA	0.652													5	16					0	0	0.001168	0	0		T	140779258	T	T	140779258	3	4	61	1	0	0	0	0	1	0	0	0	11585	768	27	1	1566	1	PCDHGB5	5	140779258	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5340	140779258	40136002	284	42290											
MYOZ3	91977	broad.mit.edu	37	chr5	150051413	150051413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcgggggtcccgagggcGcccaccctgcagccgcccct	4	4	13	20	4	0	0	0	0	0	0	2	1	1	0	6	3	2	1	6	3	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:150051413G>A	uc003lss.2	+	5	954	c.367G>A	c.(367-369)GCC>ACC	p.A123T	MYOZ3_uc003lsr.2_Missense_Mutation_p.A123T	NM_001122853	NP_001116325	Q8TDC0	MYOZ3_HUMAN	myozenin 3	123						sarcomere	protein binding			skin(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCCCGAGGGCGCCCACCCTGC	0.746													5	12					0	0	0.000602	0	0		A	150051413	A	A	150051413	3	1	61	1	0	0	0	0	1	0	0	0	10115	1087	38	1	381	1	MYOZ3	5	150051413	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	9272155	150051413	30863847	285	42291											
GRIA1	2890	broad.mit.edu	37	chr5	153085479	153085479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcctcttcctggtcagcCgcttcagtccctatgaatgg	5	14	9	13	1	3	1	2	1	1	0	6	1	6	1	4	2	1	1	4	2	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:153085479C>T	uc003lva.3	+	11	2040	c.1675C>T	c.(1675-1677)CGC>TGC	p.R559C	GRIA1_uc003luy.3_Missense_Mutation_p.R559C|GRIA1_uc003luz.3_Missense_Mutation_p.R464C|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.R479C|GRIA1_uc011dcx.1_Missense_Mutation_p.R490C|GRIA1_uc011dcy.1_Missense_Mutation_p.R569C|GRIA1_uc011dcz.1_Missense_Mutation_p.R569C|GRIA1_uc010jia.1_Missense_Mutation_p.R539C	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	559	Cytoplasmic (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CCTGGTCAGCCGCTTCAGTCC	0.483													23	79					0	0	0.00278	0	0		T	153085479	T	T	153085479	3	4	61	1	0	0	0	0	1	0	0	0	6783	652	23	1	1717	1	GRIA1	5	153085479	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3034066	153085479	27829781	286	42292											
FGFR4	2264	broad.mit.edu	37	chr5	176524326	176524326	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgagtgctggcacgcagcGccctcccagaggcctacctt	6	7	12	16	3	0	2	0	1	0	1	1	2	1	2	4	2	3	3	4	2	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:176524326G>A	uc003mfl.2	+	17	2354	c.2187G>A	c.(2185-2187)GCG>GCA	p.A729A	FGFR4_uc003mfm.2_Silent_p.A729A|FGFR4_uc011dfu.1_Silent_p.A661A|FGFR4_uc003mfo.2_Silent_p.A689A	NM_002011	NP_002002	P22455	FGFR4_HUMAN	fibroblast growth factor receptor 4 isoform 1	729	Protein kinase.|Cytoplasmic (Potential).				insulin receptor signaling pathway|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity	p.A689A(1)|p.A729A(1)		lung(11)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|prostate(1)	16	all_cancers(89;5.93e-05)|Renal(175;0.000269)|Lung NSC(126;0.0088)|all_lung(126;0.0142)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Palifermin(DB00039)	GGCACGCAGCGCCCTCCCAGA	0.687										TSP Lung(9;0.080)			4	12					0	0	0.009096	0	0		A	176524326	A	A	176524326	2	1	61	1	0	0	0	0	0	0	0	1	5882	1074	38	1		1	FGFR4	5	176524326	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	23438847	176524326	4390934	287	42293											
HNRNPH1	3187	broad.mit.edu	37	chr5	179042578	179042578	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgattgaaaatcactggagTtttcctgtaaaacttggtct	11	16	8	6	0	2	2	1	2	1	0	3	3	3	3	1	2	1	2	1	2	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:179042578T>A	uc003mkf.3	-	13	1425	c.1319A>T	c.(1318-1320)AAC>ATC	p.N440I	HNRNPH1_uc011dgn.1_Missense_Mutation_p.N150I|HNRNPH1_uc003mkg.3_Missense_Mutation_p.N348I|HNRNPH1_uc003mke.3_Missense_Mutation_p.N440I|HNRNPH1_uc003mkh.3_Missense_Mutation_p.N440I	NM_005520	NP_005511	P31943	HNRH1_HUMAN	heterogeneous nuclear ribonucleoprotein H1	440					regulation of RNA splicing	actin cytoskeleton|catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|poly(U) RNA binding|protein binding				0						ATCACTGGAGTTTTCCTGTAA	0.274													7	26					0	0	0.00308	0	0		A	179042578	A	A	179042578	3	1	61	1	0	0	0	0	1	0	0	0	7282	1725	60	5	34	5	HNRNPH1	5	179042578	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	2518252	179042578	1872682	288	42294											
MGAT4B	11282	broad.mit.edu	37	chr5	179226099	179226099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacatgctccttccgcagcGcctgctttccaaagtctttg	6	13	7	15	2	2	0	1	0	1	0	5	0	5	0	4	0	3	3	4	0	1	3	rs146600579		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:179226099G>A	uc003mks.2	-	11	1541	c.1172C>T	c.(1171-1173)GCG>GTG	p.A391V	MGAT4B_uc003mkp.2_Missense_Mutation_p.A245V|MGAT4B_uc003mkq.2_Silent_p.G166G|MGAT4B_uc003mkr.2_Missense_Mutation_p.A406V|MIR1229_hsa-mir-1229|MI0006319_5'Flank	NM_014275	NP_055090	Q9UQ53	MGT4B_HUMAN	alpha-1,3-mannosyl-glycoprotein	391	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding				0	all_cancers(89;0.000201)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0525)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTTCCGCAGCGCCTGCTTTCC	0.622													19	65					0	0	0.006122	0	0		A	179226099	A	A	179226099	3	1	61	1	0	0	0	0	1	0	0	0	9564	1087	38	1	494	1	MGAT4B	5	179226099	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	183521	179226099	1689161	289	42295											
TBC1D9B	23061	broad.mit.edu	37	chr5	179290483	179290483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgctcatggtcactggCggtgctgaactgtctctcca	6	11	12	12	1	3	1	2	1	1	0	5	1	4	1	1	4	3	3	1	4	1	0	rs151265651	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:179290483C>T	uc003mlh.2	-	22	3755	c.3718G>A	c.(3718-3720)GCC>ACC	p.A1240T	TBC1D9B_uc003mli.2_Missense_Mutation_p.A1223T|TBC1D9B_uc003mlj.2_Missense_Mutation_p.A1222T|TBC1D9B_uc003mlf.2_Missense_Mutation_p.A314T|TBC1D9B_uc003mlg.2_Missense_Mutation_p.A399T|TBC1D9B_uc011dgv.1_Missense_Mutation_p.A399T	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	1240						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGGTCACTGGCGGTGCTGAAC	0.562													7	51					0	0	0.001984	0	0		T	179290483	T	T	179290483	3	4	61	1	0	0	0	0	1	0	0	0	15653	768	27	1	38	1	TBC1D9B	5	179290483	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	64384	179290483	1624777	290	42296											
MGAT1	4245	broad.mit.edu	37	chr5	180219400	180219400	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagacctggcccagcgccCagcggtagtggcgcgcgatc	7	4	16	14	5	0	1	0	0	0	1	1	3	0	2	3	4	2	1	3	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:180219400C>T	uc003mmg.3	-	2	1067	c.572G>A	c.(571-573)TGG>TAG	p.W191*	MGAT1_uc010jlf.2_Nonsense_Mutation_p.W191*|MGAT1_uc010jlg.2_Nonsense_Mutation_p.W191*|MGAT1_uc003mmh.3_Nonsense_Mutation_p.W191*|MGAT1_uc010jlh.2_Nonsense_Mutation_p.W191*|MGAT1_uc003mmi.3_Nonsense_Mutation_p.W191*	NM_002406	NP_002397	P26572	MGAT1_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	191	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(1)	1	all_cancers(89;1.11e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.0027)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00356)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCCCAGCGCCCAGCGGTAGTG	0.677													9	45					0	0	0.004482	0	0		T	180219400	T	T	180219400	4	4	61	1	0	0	0	0	0	1	0	0	9560	595	21	4	769	4	MGAT1	5	180219400	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	928917	180219400	695860	291	42297											
RIPK1	8737	broad.mit.edu	37	chr6	3077208	3077208	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaaaacagtgtacaaggggCccaactgcattgagtgagta	14	8	12	7	0	0	3	0	3	0	0	0	3	0	3	1	2	4	3	1	2	6	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:3077208C>A	uc010jni.2	+	2	383	c.151C>A	c.(151-153)CCC>ACC	p.P51T	RIPK1_uc003muv.3_5'UTR|RIPK1_uc003muw.3_Intron|RIPK1_uc011dhs.1_Missense_Mutation_p.P51T|RIPK1_uc003mux.2_Missense_Mutation_p.P51T	NM_003804	NP_003795	Q13546	RIPK1_HUMAN	receptor (TNFRSF)-interacting serine-threonine	51	Protein kinase.				activation of caspase activity|activation of JUN kinase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|induction of necroptosis by extracellular signals|innate immune response|MyD88-independent toll-like receptor signaling pathway|positive regulation of anti-apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|protein autophosphorylation|regulation of ATP:ADP antiporter activity|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|death-inducing signaling complex|endosome membrane|mitochondrion|receptor complex	ATP binding|death domain binding|death receptor binding|protein serine/threonine kinase activity			large_intestine(3)|lung(1)|skin(1)	5	Ovarian(93;0.0386)	all_hematologic(90;0.0895)				GTACAAGGGGCCCAACTGCAT	0.582													7	36					8.12818e-05	8.54791e-05	0.001984	1	0		A	3077208	A	A	3077208	3	1	61	1	0	0	0	0	1	0	0	0	13405	739	26	5	153	5	RIPK1	6	3077208	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08		3077208	168037859	292	42298											
HIVEP1	3096	broad.mit.edu	37	chr6	12124092	12124092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctggcttgaatactctgaAtgttcctggatgtcaccggg	8	12	12	9	1	2	2	1	2	1	0	3	3	3	3	2	3	2	3	2	3	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:12124092A>G	uc003nac.2	+	4	4243	c.4064A>G	c.(4063-4065)AAT>AGT	p.N1355S	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1355					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				AATACTCTGAATGTTCCTGGA	0.428													11	52					0	0	0.008291	0	0		G	12124092	G	G	12124092	3	3	61	1	0	0	0	0	1	0	0	0	7202	101	4	3	4074	3	HIVEP1	6	12124092	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	9046884	12124092	158990975	293	42299											
HIST1H3C	8352	broad.mit.edu	37	chr6	26046023	26046023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagatatccagctggcaCgtcgcatccgtggggaaagg	11	6	13	11	3	0	1	0	0	0	1	3	2	2	2	3	4	1	3	3	4	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:26046023C>T	uc003nfv.2	+	1	385	c.385C>T	c.(385-387)CGT>TGT	p.R129C	HIST1H2BB_uc003nfu.2_5'Flank	NM_003531	NP_003522	P68431	H31_HUMAN	histone cluster 1, H3c	129					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1						CCAGCTGGCACGTCGCATCCG	0.498													7	43					0	0	0.001984	0	0		T	26046023	T	T	26046023	3	4	61	1	0	0	0	0	1	0	0	0	7173	536	19	1	387	1	HIST1H3C	6	26046023	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	13921931	26046023	145069044	294	42300											
BTN2A1	11120	broad.mit.edu	37	chr6	26468713	26468713	+	Missense_Mutation	SNP	A	G	G																															ccctgcactcacaggagccaAtggggtcacggtgcctgaag																								rs149725979	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:26468713A>G	uc003nib.1	+	8	1732	c.1520A>G	c.(1519-1521)AAT>AGT	p.N507S	BTN2A1_uc003nic.1_3'UTR|BTN2A1_uc003nid.1_Missense_Mutation_p.N355S|BTN2A1_uc011dko.1_Missense_Mutation_p.N446S|BTN2A1_uc010jqk.1_Intron	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1	507	Cytoplasmic (Potential).				lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						ACAGGAGCCAATGGGGTCACG	0.567													14	71					0	0	0.00245	0	0		G	26468713	G	G	26468713	3	3	61	1	0	0	0	0	1	0	0	0	1563	101	4	3	1573	3	BTN2A1	6	26468713	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	422690	26468713	144646354	295	42301	84	2									
BTN2A1	11120	broad.mit.edu	37	chr6	26468722	26468722	+	Missense_Mutation	SNP	C	T	T																															cacaggagccaatggggtcaCggtgcctgaagagggcctga																								rs145758816	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:26468722C>T	uc003nib.1	+	8	1741	c.1529C>T	c.(1528-1530)ACG>ATG	p.T510M	BTN2A1_uc003nic.1_3'UTR|BTN2A1_uc003nid.1_Missense_Mutation_p.T358M|BTN2A1_uc011dko.1_Missense_Mutation_p.T449M|BTN2A1_uc010jqk.1_Intron	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1	510	Cytoplasmic (Potential).				lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						AATGGGGTCACGGTGCCTGAA	0.567													13	67					0	0	0.013537	0	0		T	26468722	T	T	26468722	3	4	61	1	0	0	0	0	1	0	0	0	1563	536	19	1	1582	1	BTN2A1	6	26468722	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	9	26468722	144646345	296	42302	84	2									
SCAND3	114821	broad.mit.edu	37	chr6	28540669	28540669	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agactttctcgatgaatgaaGcaatgtgttgttttacattc	11	16	8	6	1	1	3	0	2	1	1	3	4	1	3	0	0	2	3	0	0	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:28540669G>A	uc003nlo.2	-	4	3615	c.2997C>T	c.(2995-2997)TGC>TGT	p.C999C		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	999					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						gatgaatgaagcaatgtgttg	0													25	80					0	0	0.003954	0	0		A	28540669	A	A	28540669	2	1	61	1	0	0	0	0	0	0	0	1	13901	963	34	2		2	SCAND3	6	28540669	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2071947	28540669	142574398	297	42303											
OR11A1	26531	broad.mit.edu	37	chr6	29394924	29394924	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggccacagaacctcagctgGgccaccagggccacaaccag	11	2	12	16	0	1	1	1	0	0	1	1	1	1	1	6	3	3	1	6	3	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:29394924G>T	uc003nmg.2	-	1	586	c.495C>A	c.(493-495)GCC>GCA	p.A165A		NM_013937	NP_039225	Q9GZK7	O11A1_HUMAN	olfactory receptor, family 11, subfamily A,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACCTCAGCTGGGCCACCAGGG	0.572													9	26					9.70103e-10	1.07462e-09	0.008291	1	0		T	29394924	T	T	29394924	2	4	61	1	0	0	0	0	0	0	0	1	10943	1219	43	5		5	OR11A1	6	29394924	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	854255	29394924	141720143	298	42304											
TRIM26	7726	broad.mit.edu	37	chr6	30166814	30166814	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggtcacagggtcccgcaGgtaatcaagacagatggagc	13	6	13	9	1	2	2	2	0	0	2	3	3	3	3	1	4	1	2	1	4	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:30166814G>T	uc003npr.2	-	3	276	c.67C>A	c.(67-69)CTG>ATG	p.L23M	TRIM26_uc003nps.2_Missense_Mutation_p.L23M|TRIM26_uc010jry.2_Translation_Start_Site|TRIM26_uc003npt.2_Missense_Mutation_p.L23M|TRIM26_uc003npu.1_Missense_Mutation_p.L23M	NM_003449	NP_003440	Q12899	TRI26_HUMAN	tripartite motif-containing 26	23	RING-type.						DNA binding|zinc ion binding			ovary(2)|lung(1)	3						GGGTCCCGCAGGTAATCAAGA	0.612													5	35					3.59834e-05	3.81827e-05	0.001168	1	0		T	30166814	T	T	30166814	3	4	61	1	0	0	0	0	1	0	0	0	16526	991	35	5	1580	5	TRIM26	6	30166814	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	771890	30166814	140948253	299	42305											
MUC21	394263	broad.mit.edu	37	chr6	30955787	30955787	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttttagagaaacagccTgtccctgagaaacaccttta	12	13	6	10	0	0	2	0	1	0	2	1	4	1	2	3	0	3	0	3	0	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:30955787T>G	uc003nsh.2	+	3	1768	c.1517T>G	c.(1516-1518)CTG>CGG	p.L506R	MUC21_uc003nsi.1_RNA	NM_001010909	NP_001010909	Q5SSG8	MUC21_HUMAN	mucin 21 precursor	506	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)|skin(1)	2						AGAAACAGCCTGTCCCTGAGA	0.522													9	42					0	0	0.004482	0	0		G	30955787	G	G	30955787	3	3	61	1	0	0	0	0	1	0	0	0	9995	1580	55	5	1527	5	MUC21	6	30955787	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	788973	30955787	140159280	300	42306											
NFKBIL1	4795	broad.mit.edu	37	chr6	31525449	31525449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctaagccgctgtccctccGccatgggaataaagaataag	12	8	10	11	2	0	1	0	0	0	1	2	2	2	2	4	1	2	2	4	1	6	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:31525449G>A	uc003nub.2	+	3	498	c.379G>A	c.(379-381)GCC>ACC	p.A127T	NFKBIL1_uc011dnr.1_Missense_Mutation_p.A104T|NFKBIL1_uc011dns.1_Missense_Mutation_p.A104T|NFKBIL1_uc011dnt.1_RNA|NFKBIL1_uc003nuc.2_Missense_Mutation_p.A127T	NM_005007	NP_004998	Q9UBC1	IKBL1_HUMAN	nuclear factor of kappa light polypeptide gene	127	ANK 2.				cytoplasmic sequestering of transcription factor		protein binding				0						CTGTCCCTCCGCCATGGGAAT	0.577													7	31					0	0	0.001984	0	0		A	31525449	A	A	31525449	3	1	61	1	0	0	0	0	1	0	0	0	10400	1087	38	1	389	1	NFKBIL1	6	31525449	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	569662	31525449	139589618	301	42307											
RXRB	6257	broad.mit.edu	37	chr6	33163388	33163388	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgaatgggctgagttGcggtgcacgtgaagacctgt	7	10	15	9	2	0	4	0	3	0	1	0	4	0	4	2	2	3	4	2	2	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:33163388G>A	uc003odb.2	-	7	1394	c.1215C>T	c.(1213-1215)CGC>CGT	p.R405R	RXRB_uc003odc.2_Silent_p.R405R|RXRB_uc003odd.2_Silent_p.R309R|RXRB_uc011dqr.1_Silent_p.R215R|RXRB_uc011dqs.1_3'UTR	NM_021976	NP_068811	P28702	RXRB_HUMAN	retinoid X receptor, beta	405	Ligand-binding (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			ovary(3)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Bexarotene(DB00307)|Etretinate(DB00926)|Tazarotene(DB00799)|Tretinoin(DB00755)	GGGCTGAGTTGCGGTGCACGT	0.572													10	40					0	0	0.008291	0	0		A	33163388	A	A	33163388	2	1	61	1	0	0	0	0	0	0	0	1	13789	1306	46	2		2	RXRB	6	33163388	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1637939	33163388	137951679	302	42308											
ZBTB9	221504	broad.mit.edu	37	chr6	33424018	33424018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggggacaccccctgcagatGgaaaacgctttggttgcctg	8	8	14	11	1	0	1	0	0	0	1	0	3	0	3	3	4	3	3	3	4	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:33424018G>A	uc003oeq.2	+	2	1409	c.1141G>A	c.(1141-1143)GGA>AGA	p.G381R		NM_152735	NP_689948	Q96C00	ZBTB9_HUMAN	zinc finger and BTB domain containing 9	381	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCCTGCAGATGGAAAACGCTT	0.597													4	28					0	0	0.009096	0	0		A	33424018	A	A	33424018	3	1	61	1	0	0	0	0	1	0	0	0	17583	1349	47	4	1143	4	ZBTB9	6	33424018	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	260630	33424018	137691049	303	42309											
SPDEF	25803	broad.mit.edu	37	chr6	34512112	34512112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggactgggactccagtcccGtctctcgagacccactgccc	6	8	10	17	2	1	1	0	0	1	1	5	4	3	3	4	2	1	0	4	2	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:34512112G>A	uc003ojq.1	-	2	536	c.121C>T	c.(121-123)CGG>TGG	p.R41W	SPDEF_uc011dsq.1_Missense_Mutation_p.R41W	NM_012391	NP_036523	O95238	SPDEF_HUMAN	SAM pointed domain containing ets transcription	41					negative regulation of survival gene product expression|negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(3)|ovary(1)|central_nervous_system(1)	5						CTCCAGTCCCGTCTCTCGAGA	0.672													8	18					0	0	0.00308	0	0		A	34512112	A	A	34512112	3	1	61	1	0	0	0	0	1	0	0	0	15051	1144	40	1	906	1	SPDEF	6	34512112	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1088094	34512112	136602955	304	42310											
ZNF76	7629	broad.mit.edu	37	chr6	35259412	35259412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatccgcaaggtacatgtgCgcacccacacaggcgagagg	12	4	12	13	3	0	1	0	0	0	1	1	2	1	1	2	3	2	3	2	3	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:35259412C>T	uc003oki.1	+	9	1034	c.829C>T	c.(829-831)CGC>TGC	p.R277C	ZNF76_uc011dsy.1_Missense_Mutation_p.R277C|ZNF76_uc011dsz.1_Missense_Mutation_p.R277C|ZNF76_uc003okj.1_Missense_Mutation_p.R277C	NM_003427	NP_003418	P36508	ZNF76_HUMAN	zinc finger protein 76 (expressed in testis)	277	C2H2-type 4.				regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGTACATGTGCGCACCCACAC	0.602													11	49					0	0	0.010729	0	0		T	35259412	T	T	35259412	3	4	61	1	0	0	0	0	1	0	0	0	18160	768	27	1	859	1	ZNF76	6	35259412	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	747300	35259412	135855655	305	42311											
STK38	11329	broad.mit.edu	37	chr6	36475326	36475326	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctataaaattctgtcctAtgtgcttttttcagtcctgt	7	20	5	9	0	2	0	1	0	1	0	5	0	5	0	3	0	1	1	3	0	4	8			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:36475326A>G	uc003omg.2	-	7	1311	c.723T>C	c.(721-723)CAT>CAC	p.H241H	STK38_uc003omh.2_Silent_p.H241H|STK38_uc003omi.2_Silent_p.H241H	NM_007271	NP_009202	Q15208	STK38_HUMAN	serine/threonine kinase 38	241	Protein kinase.				intracellular protein kinase cascade|negative regulation of MAP kinase activity	cytoplasm|MLL5-L complex	ATP binding|magnesium ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6						ATTCTGTCCTATGTGCTTTTT	0.423													55	219					0	0	0.01441	0	0		G	36475326	G	G	36475326	2	3	61	1	0	0	0	0	0	0	0	1	15328	446	16	3		3	STK38	6	36475326	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1215914	36475326	134639741	306	42312											
MTCH1	23787	broad.mit.edu	37	chr6	36946332	36946332	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agggcgttggacatcagccgGggactcaggcctcggaacag	9	5	16	11	3	2	0	2	0	0	0	3	3	2	3	2	6	2	1	2	6	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:36946332G>T	uc003ond.1	-	3	462	c.462C>A	c.(460-462)CCC>CCA	p.P154P	MTCH1_uc003onc.1_Silent_p.P154P|MTCH1_uc010jwo.1_RNA|MTCH1_uc003one.3_Silent_p.P154P|MTCH1_uc011dtt.1_5'UTR	NM_014341	NP_055156	Q9NZJ7	MTCH1_HUMAN	mitochondrial carrier homolog 1	154	Solcar 1.				activation of caspase activity|neuronal ion channel clustering|positive regulation of apoptosis|regulation of signal transduction|transport	integral to membrane|mitochondrial inner membrane	protein binding				0						ACATCAGCCGGGGACTCAGGC	0.557													13	94					1.15088e-07	1.25518e-07	0.004007	1	0		T	36946332	T	T	36946332	2	4	61	1	0	0	0	0	0	0	0	1	9931	1219	43	5		5	MTCH1	6	36946332	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	471006	36946332	134168735	307	42313											
MDGA1	266727	broad.mit.edu	37	chr6	37613720	37613720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtctcacctgaaaggttcGgagagttgatggctgagaaa	12	9	14	6	1	1	4	1	3	1	2	3	7	1	4	1	3	0	3	1	3	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:37613720G>A	uc003onu.1	-	12	3416	c.2237C>T	c.(2236-2238)CCG>CTG	p.P746L	MDGA1_uc003onv.1_Missense_Mutation_p.P15L	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	746					brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						TGAAAGGTTCGGAGAGTTGAT	0.547													5	31					0	0	0.000602	0	0		A	37613720	A	A	37613720	3	1	61	1	0	0	0	0	1	0	0	0	9424	1116	39	1	654	1	MDGA1	6	37613720	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	667388	37613720	133501347	308	42314											
ZFAND3	60685	broad.mit.edu	37	chr6	38084410	38084410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactacttgagaatacggaaCggtccgaggaaaccagtcga	14	6	12	9	4	0	1	0	1	0	1	2	7	1	3	2	3	4	0	2	3	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:38084410C>T	uc003onx.2	+	5	839	c.424C>T	c.(424-426)CGG>TGG	p.R142W		NM_021943	NP_068762	Q9H8U3	ZFAN3_HUMAN	zinc finger, AN1-type domain 3	142							DNA binding|zinc ion binding			ovary(1)	1						GAATACGGAACGGTCCGAGGA	0.498													7	48					0	0	0.001984	0	0		T	38084410	T	T	38084410	3	4	61	1	0	0	0	0	1	0	0	0	17654	527	19	1	442	1	ZFAND3	6	38084410	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	470690	38084410	133030657	309	42315											
DAAM2	23500	broad.mit.edu	37	chr6	39869739	39869739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggacttatgcaagctcaagCgcagccgcaagcgatcaggg	12	5	13	11	3	2	0	2	0	0	0	2	2	2	1	1	2	5	4	1	2	4	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:39869739C>T	uc003oow.2	+	25	3289	c.3133C>T	c.(3133-3135)CGC>TGC	p.R1045C	DAAM2_uc003oox.2_Missense_Mutation_p.R1044C	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	1045	DAD.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CAAGCTCAAGCGCAGCCGCAA	0.612													7	40					0	0	0.004482	0	0		T	39869739	T	T	39869739	3	4	61	1	0	0	0	0	1	0	0	0	4219	768	27	1	3224	1	DAAM2	6	39869739	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1785329	39869739	131245328	310	42316											
PGC	5225	broad.mit.edu	37	chr6	41712453	41712453	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaccaaagcggtacttccaAgcaggatcatacttgtgggt	11	10	10	10	1	2	0	2	0	0	0	3	1	3	1	2	3	4	2	2	3	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:41712453A>T	uc003ora.1	-	2	202	c.153T>A	c.(151-153)GCT>GCA	p.A51A		NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor	51					digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GGTACTTCCAAGCAGGATCAT	0.537													5	33					0	0	0.001168	0	0		T	41712453	T	T	41712453	2	4	61	1	0	0	0	0	0	0	0	1	11804	59	3	5		5	PGC	6	41712453	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1842714	41712453	129402614	311	42317											
BYSL	705	broad.mit.edu	37	chr6	41900303	41900303	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtccagcgctacaaggcCgacttggccacagaccagaa	11	6	11	13	2	0	2	0	0	0	2	1	3	1	2	4	3	2	1	4	3	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:41900303C>T	uc003orl.2	+	7	1509	c.1173C>T	c.(1171-1173)GCC>GCT	p.A391A		NM_004053	NP_004044	Q13895	BYST_HUMAN	bystin	391					cell adhesion|female pregnancy|ribosome biogenesis	cytoplasm|nucleolus					0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000473)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GCTACAAGGCCGACTTGGCCA	0.592													13	66					0	0	0.013537	0	0		T	41900303	T	T	41900303	2	4	61	1	0	0	0	0	0	0	0	1	1579	639	23	1		1	BYSL	6	41900303	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	187850	41900303	129214764	312	42318											
CUL9	23113	broad.mit.edu	37	chr6	43166460	43166460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggagcgtgtgctgtgcCgtgagggcagccccggaggt	5	8	18	10	3	0	1	0	1	0	0	0	3	0	3	3	4	4	2	3	4	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:43166460C>T	uc003ouk.2	+	12	2992	c.2917C>T	c.(2917-2919)CGT>TGT	p.R973C	CUL9_uc003oul.2_Missense_Mutation_p.R973C|CUL9_uc010jyk.2_Missense_Mutation_p.R125C	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	973					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TGTGCTGTGCCGTGAGGGCAG	0.642													19	101					0	0	0.012319	0	0		T	43166460	T	T	43166460	3	4	61	1	0	0	0	0	1	0	0	0	4064	652	23	1	2959	1	CUL9	6	43166460	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1266157	43166460	127948607	313	42319											
TDRD6	221400	broad.mit.edu	37	chr6	46656498	46656498	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgttcgctgctggagcgCtatctcacagcggccactgc	5	10	11	15	4	1	0	1	0	1	0	4	1	2	1	2	2	4	4	2	2	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:46656498C>T	uc003oyj.2	+	1	633	c.633C>T	c.(631-633)CGC>CGT	p.R211R	TDRD6_uc010jze.2_Silent_p.R205R	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	211					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			TGCTGGAGCGCTATCTCACAG	0.647													10	54					0	0	0.006214	0	0		T	46656498	T	T	46656498	2	4	61	1	0	0	0	0	0	0	0	1	15759	784	28	2		2	TDRD6	6	46656498	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3490038	46656498	124458569	314	42320											
TDRD6	221400	broad.mit.edu	37	chr6	46661523	46661523	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagagtgtgtcacaaaaggCgccatggagctatttacact	13	9	10	9	1	1	1	1	0	0	1	1	2	1	2	1	2	2	1	1	2	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:46661523C>T	uc003oyj.2	+	1	5658	c.5658C>T	c.(5656-5658)GGC>GGT	p.G1886G	TDRD6_uc010jze.2_Silent_p.G1880G	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1886					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			TCACAAAAGGCGCCATGGAGC	0.498													10	50					0	0	0.006214	0	0		T	46661523	T	T	46661523	2	4	61	1	0	0	0	0	0	0	0	1	15759	755	27	1		1	TDRD6	6	46661523	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5025	46661523	124453544	315	42321											
EFHC1	114327	broad.mit.edu	37	chr6	52329890	52329890	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgtattgatgtgagcaagCgggaaccacctccagtaaaa	14	7	10	10	2	0	2	0	2	0	0	1	3	1	3	3	1	3	3	3	1	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:52329890C>T	uc003pap.3	+	6	1329	c.1114C>T	c.(1114-1116)CGG>TGG	p.R372W	EFHC1_uc011dwv.1_Missense_Mutation_p.R281W|EFHC1_uc011dww.1_Missense_Mutation_p.R353W	NM_018100	NP_060570	Q5JVL4	EFHC1_HUMAN	EF-hand domain (C-terminal) containing 1	372						axoneme|neuronal cell body	calcium ion binding|protein C-terminus binding			ovary(2)|skin(1)	3	Lung NSC(77;0.109)					TGTGAGCAAGCGGGAACCACC	0.353													14	32					0	0	0.003163	0	0		T	52329890	T	T	52329890	3	4	61	1	0	0	0	0	1	0	0	0	4952	759	27	1	1146	1	EFHC1	6	52329890	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5668367	52329890	118785177	316	42322											
ICK	22858	broad.mit.edu	37	chr6	52878462	52878462	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatctgggctgctcaccgActgtggatgcttgttgtgga	6	13	14	8	1	2	1	1	1	1	0	2	4	2	3	1	3	2	4	1	3	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:52878462A>G	uc003pbh.2	-	10	1640	c.1150T>C	c.(1150-1152)TCG>CCG	p.S384P	ICK_uc003pbi.2_Missense_Mutation_p.S384P	NM_016513	NP_057597	Q9UPZ9	ICK_HUMAN	intestinal cell kinase	384					intracellular protein kinase cascade|multicellular organismal development	cytosol|nucleus	ATP binding|cyclin-dependent protein kinase activity|magnesium ion binding			ovary(1)|large_intestine(1)|lung(1)|kidney(1)|central_nervous_system(1)	5	Lung NSC(77;0.103)					CTGCTCACCGACTGTGGATGC	0.493													17	97					0	0	0.006122	0	0		G	52878462	G	G	52878462	3	3	61	1	0	0	0	0	1	0	0	0	7500	275	10	3	772	3	ICK	6	52878462	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	548572	52878462	118236605	317	42323											
PHIP	55023	broad.mit.edu	37	chr6	79752650	79752650	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgcattttcatgtgctgAtacactgcagttggaacaag	11	14	9	7	0	1	1	1	1	0	0	1	2	1	2	0	1	5	4	0	1	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:79752650A>G	uc003pir.2	-	7	736	c.510T>C	c.(508-510)TAT>TAC	p.Y170Y	PHIP_uc011dyp.1_Silent_p.Y170Y	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	170					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		TCATGTGCTGATACACTGCAG	0.378													18	115					0	0	0.014323	0	0		G	79752650	G	G	79752650	2	3	61	1	0	0	0	0	0	0	0	1	11861	340	12	3		3	PHIP	6	79752650	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	26874188	79752650	91362417	318	42324											
SNAP91	9892	broad.mit.edu	37	chr6	84417539	84417539	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccaggtgctttttcttgggGcccattacttcatgagtagt	6	16	10	9	0	2	1	1	1	1	0	3	1	3	1	2	3	2	2	2	3	2	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:84417539G>A	uc011dze.1	-	2	425	c.108C>T	c.(106-108)GGC>GGT	p.G36G	SNAP91_uc003pkb.2_5'UTR|SNAP91_uc003pkc.2_Silent_p.G36G|SNAP91_uc003pkd.2_Silent_p.G36G|SNAP91_uc003pka.2_Silent_p.G36G|SNAP91_uc011dzf.1_5'UTR	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	36	ENTH.				clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		TTTTCTTGGGGCCCATTACTT	0.572													13	110					0	0	0.00499	0	0		A	84417539	A	A	84417539	2	1	61	1	0	0	0	0	0	0	0	1	14858	1190	42	2		2	SNAP91	6	84417539	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4664889	84417539	86697528	319	42325											
C6orf165	154313	broad.mit.edu	37	chr6	88138405	88138405	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agacgaaactattgtggttgGtgtcctcagtaatttattca	11	15	9	6	1	2	1	2	0	0	1	3	2	3	1	1	2	1	2	1	2	4	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:88138405G>T	uc003plv.2	+	9	1114	c.1022G>T	c.(1021-1023)GGT>GTT	p.G341V	C6orf165_uc003plw.2_Missense_Mutation_p.G153V|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.G341V	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	341										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		ATTGTGGTTGGTGTCCTCAGT	0.408													19	96					1.10513e-12	1.23714e-12	0.014323	1	0		T	88138405	T	T	88138405	3	4	61	1	0	0	0	0	1	0	0	0	2344	1261	44	5	1052	5	C6orf165	6	88138405	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3720866	88138405	82976662	320	42326											
RRAGD	58528	broad.mit.edu	37	chr6	90097137	90097137	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaaattgacaaaggagctGttggaaacatcttcccggca	14	9	10	8	1	1	2	0	2	1	0	2	4	2	4	1	3	2	3	1	3	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:90097137G>A	uc003pnd.3	-	2	604	c.321C>T	c.(319-321)AAC>AAT	p.N107N	RRAGD_uc010kcc.2_Intron	NM_021244	NP_067067	Q9NQL2	RRAGD_HUMAN	Ras-related GTP binding D	107					cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade	lysosome|nucleus	GTP binding|protein heterodimerization activity			ovary(2)|central_nervous_system(1)	3		all_cancers(76;7.01e-07)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00139)		BRCA - Breast invasive adenocarcinoma(108;0.0144)		CAAAGGAGCTGTTGGAAACAT	0.428													34	180					0	0	0.012213	0	0		A	90097137	A	A	90097137	2	1	61	1	0	0	0	0	0	0	0	1	13700	1368	48	4		4	RRAGD	6	90097137	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1958732	90097137	81017930	321	42327											
MDN1	23195	broad.mit.edu	37	chr6	90461284	90461284	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctggataagccgacctccTtttggctctggaataggctg	8	11	11	11	1	1	0	0	0	1	0	2	3	2	2	4	4	1	2	4	4	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:90461284T>G	uc003pnn.1	-	23	3209	c.3093A>C	c.(3091-3093)AAA>AAC	p.K1031N	MDN1_uc003pno.1_Missense_Mutation_p.K450N	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1031					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GCCGACCTCCTTTTGGCTCTG	0.458													6	43					0	0	0.001984	0	0		G	90461284	G	G	90461284	3	3	61	1	0	0	0	0	1	0	0	0	9433	1606	56	5	14017	5	MDN1	6	90461284	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	364147	90461284	80653783	322	42328											
CASP8AP2	9994	broad.mit.edu	37	chr6	90573907	90573907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agttaatggaccacagaatgGcaactggtgaaacaaactca	17	7	9	8	0	1	2	1	1	0	1	1	3	1	3	1	3	3	2	1	3	5	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:90573907G>A	uc003pnr.2	+	7	2675	c.2479G>A	c.(2479-2481)GCA>ACA	p.A827T	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.A827T|CASP8AP2_uc011dzz.1_Missense_Mutation_p.A827T	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	827					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		CCACAGAATGGCAACTGGTGA	0.433													15	42					0	0	0.00245	0	0		A	90573907	A	A	90573907	3	1	61	1	0	0	0	0	1	0	0	0	2681	1203	42	2	2501	2	CASP8AP2	6	90573907	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	112623	90573907	80541160	323	42329											
ASCC3	10973	broad.mit.edu	37	chr6	101077033	101077033	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atggatttcatatcaggagtCacatcccctgttagttcaat	11	14	7	9	0	4	0	4	0	0	0	5	2	5	2	2	2	0	2	2	2	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:101077033C>T	uc003pqk.2	-	27	4562	c.4233G>A	c.(4231-4233)GTG>GTA	p.V1411V		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1411	Helicase ATP-binding 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		TATCAGGAGTCACATCCCCTG	0.423													4	39					0	0	0.009096	0	0		T	101077033	T	T	101077033	2	4	61	1	0	0	0	0	0	0	0	1	1034	813	29	4		4	ASCC3	6	101077033	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	10503126	101077033	70038034	324	42330											
NR2E1	7101	broad.mit.edu	37	chr6	108492665	108492665	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttcctgcgatttcaggccGcattttagatatcccctgca	7	14	7	13	2	1	1	1	0	0	1	3	2	3	1	4	1	2	2	4	1	2	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:108492665G>A	uc003psg.2	+	2	784	c.29G>A	c.(28-30)CGC>CAC	p.R10H		NM_003269	NP_003260	Q9Y466	NR2E1_HUMAN	nuclear receptor subfamily 2, group E, member 1	10					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(87;8.13e-05)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00866)|Colorectal(196;0.0637)		BRCA - Breast invasive adenocarcinoma(108;0.013)|Epithelial(106;0.0521)|all cancers(137;0.068)|OV - Ovarian serous cystadenocarcinoma(136;0.0689)		ATTTCAGGCCGCATTTTAGAT	0.363													12	80					0	0	0.013537	0	0		A	108492665	A	A	108492665	3	1	61	1	0	0	0	0	1	0	0	0	10644	1087	38	1	35	1	NR2E1	6	108492665	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	7415632	108492665	62622402	325	42331											
AKD1	221264	broad.mit.edu	37	chr6	109867151	109867151	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttgtttggcagcttgctcGttctcagaatcttcctcaaa	7	16	7	11	1	4	1	2	0	3	1	7	1	5	1	1	1	2	5	1	1	2	5	rs151316525		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:109867151G>A	uc003ptn.2	-	26	3221	c.3144C>T	c.(3142-3144)AAC>AAT	p.N1048N	AKD1_uc011eat.1_Silent_p.N127N	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1048					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						CAGCTTGCTCGTTCTCAGAAT	0.348													18	64					0	0	0.00499	0	0		A	109867151	A	A	109867151	2	1	61	1	0	0	0	0	0	0	0	1	460	1136	40	1		1	AKD1	6	109867151	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1374486	109867151	61247916	326	42332											
SLC16A10	117247	broad.mit.edu	37	chr6	111409136	111409136	+	Frame_Shift_Del	DEL	C	-	-																															cgaccgcggagccccatgagCcccccgaaccccccgagggc																										TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:111409136delC	uc003pus.2	+	1	356	c.181delC	c.(181-183)CCCfs	p.P61fs	SLC16A10_uc003pur.3_Frame_Shift_Del_p.P61fs	NM_018593	NP_061063	Q8TF71	MOT10_HUMAN	solute carrier family 16, member 10	61	Extracellular (Potential).				aromatic amino acid transport|cellular nitrogen compound metabolic process|ion transport	basolateral plasma membrane|integral to membrane	amino acid transmembrane transporter activity				0		all_cancers(87;0.00172)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0313)|Colorectal(196;0.0466)		OV - Ovarian serous cystadenocarcinoma(136;0.0703)|Epithelial(106;0.12)|all cancers(137;0.132)		GCCCCATGAGCCCCCCGAACC	0.652													5	11	---	---	---	---						.	-	111409136	-	-	111409136	7	5	61	1	0	1	0	1	0	0	0	0	14428	739	26	0	183	0	SLC16A10	6	111409136	Frame_Shift_Del	DEL	C	TCGA-BR-8081-01A-11D-2340-08	1541985	111409136	59705931	327	42333											
TRAF3IP2	10758	broad.mit.edu	37	chr6	111896928	111896928	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaggcacagcagctggggaCggaggctggggaacctgtgg	8	5	19	9	1	0	0	0	0	0	0	0	3	0	3	1	8	3	4	1	8	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:111896928C>T	uc011ebc.1	-	5	1734	c.1119G>A	c.(1117-1119)CCG>CCA	p.P373P	TRAF3IP2_uc003pvd.2_5'Flank|TRAF3IP2_uc003pvg.2_Silent_p.P373P|TRAF3IP2_uc003pvf.2_Silent_p.P373P|TRAF3IP2_uc010kdw.2_Silent_p.P373P|TRAF3IP2_uc010kdx.2_Silent_p.P373P	NM_147686	NP_679211	O43734	CIKS_HUMAN	TRAF3 interacting protein 2 isoform 2	382					intracellular signal transduction|positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular				ovary(2)|central_nervous_system(1)	3		all_cancers(87;7.87e-06)|Acute lymphoblastic leukemia(125;3.61e-09)|all_hematologic(75;2.63e-07)|all_epithelial(87;0.0024)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.033)|all cancers(137;0.0412)|Epithelial(106;0.0732)		CAGCTGGGGACGGAGGCTGGG	0.557													5	51					0	0	0.001168	0	0		T	111896928	T	T	111896928	2	4	61	1	0	0	0	0	0	0	0	1	16467	523	19	1		1	TRAF3IP2	6	111896928	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	487792	111896928	59218139	328	42334											
NUS1	116150	broad.mit.edu	37	chr6	118015303	118015303	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagcccagaagcaaaagagAcccacagatttggatgtaga	16	6	11	8	0	0	4	0	0	0	4	0	6	0	5	2	1	2	3	2	1	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:118015303A>G	uc003pxw.2	+	3	868	c.651A>G	c.(649-651)AGA>AGG	p.R217R		NM_138459	NP_612468	Q96E22	NGBR_HUMAN	nuclear undecaprenyl pyrophosphate synthase 1	217	Cytoplasmic (Potential).				angiogenesis|cell differentiation	integral to membrane	receptor activity|transferase activity, transferring alkyl or aryl (other than methyl) groups			central_nervous_system(1)	1		all_cancers(87;0.0395)|all_epithelial(87;0.0301)		GBM - Glioblastoma multiforme(226;0.02)|OV - Ovarian serous cystadenocarcinoma(136;0.115)|all cancers(137;0.146)		AGCAAAAGAGACCCACAGATT	0.333													17	100					0	0	0.007413	0	0		G	118015303	G	G	118015303	2	3	61	1	0	0	0	0	0	0	0	1	10796	272	10	3		3	NUS1	6	118015303	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	6118375	118015303	53099764	329	42335											
C6orf174	387104	broad.mit.edu	37	chr6	127796990	127796990	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatgttggacataagcacGcggttctcgtactgcagctg	8	11	12	10	3	1	0	0	0	1	0	2	1	1	1	0	2	5	7	0	2	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:127796990G>A	uc003qbd.2	-	6	3046	c.2181C>T	c.(2179-2181)CGC>CGT	p.R727R	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	727						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		ACATAAGCACGCGGTTCTCGT	0.667													8	99					0	0	0.004482	0	0		A	127796990	A	A	127796990	2	1	61	1	0	0	0	0	0	0	0	1	2348	1074	38	1		1	C6orf174	6	127796990	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	9781687	127796990	43318077	330	42336											
HIVEP2	3097	broad.mit.edu	37	chr6	143091558	143091558	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actggctggagaaagcattcGcttgctacctcccagggtgg	8	9	13	11	1	0	1	0	0	0	1	2	2	1	1	2	4	3	4	2	4	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:143091558G>A	uc003qjd.2	-	5	5061	c.4318C>T	c.(4318-4320)CGA>TGA	p.R1440*		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1440					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GAAAGCATTCGCTTGCTACCT	0.517													8	41					0	0	0.00308	0	0		A	143091558	A	A	143091558	4	1	61	1	0	0	0	0	0	1	0	0	7203	1095	38	1	3046	1	HIVEP2	6	143091558	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	15294568	143091558	28023509	331	42337											
TIAM2	26230	broad.mit.edu	37	chr6	155574136	155574136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggacccatttaaattcCgctggttgatccccatctcc	8	13	6	14	1	1	1	0	1	1	0	4	2	3	2	5	2	0	2	5	2	2	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:155574136C>T	uc003qqb.2	+	26	5447	c.4174C>T	c.(4174-4176)CGC>TGC	p.R1392C	TIAM2_uc003qqe.2_Missense_Mutation_p.R1392C|TIAM2_uc010kjj.2_Missense_Mutation_p.R954C|TIAM2_uc003qqf.2_Missense_Mutation_p.R768C|TIAM2_uc011efl.1_Missense_Mutation_p.R728C|TIAM2_uc003qqg.2_Missense_Mutation_p.R704C|TIAM2_uc003qqh.2_Missense_Mutation_p.R317C	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1392	PH 2.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		ATTTAAATTCCGCTGGTTGAT	0.488													6	23					0	0	0.001984	0	0		T	155574136	T	T	155574136	3	4	61	1	0	0	0	0	1	0	0	0	15916	652	23	1	4256	1	TIAM2	6	155574136	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	12482578	155574136	15540931	332	42338											
TFB1M	51106	broad.mit.edu	37	chr6	155581523	155581523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggagtgaagtgcaccacGcccacgtccaccttcgttgt	9	8	11	13	3	0	1	0	1	0	0	2	2	1	2	4	1	1	2	4	1	2	2	rs149796947	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:155581523G>A	uc003qqj.3	-	6	742	c.678C>T	c.(676-678)GGC>GGT	p.G226G	TFB1M_uc003qqk.2_Intron	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	226					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		AGTGCACCACGCCCACGTCCA	0.438													11	42					0	0	0.010729	0	0		A	155581523	A	A	155581523	2	1	61	1	0	0	0	0	0	0	0	1	15818	1074	38	1		1	TFB1M	6	155581523	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	7387	155581523	15533544	333	42339											
SMOC2	64094	broad.mit.edu	37	chr6	168999659	168999659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcctggtggacacggggCgccccattcccggcacatcc	5	6	13	17	4	0	0	0	0	0	0	3	1	3	1	5	5	0	1	5	5	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:168999659C>T	uc003qws.1	+	8	819	c.799C>T	c.(799-801)CGC>TGC	p.R267C	SMOC2_uc003qwr.1_Missense_Mutation_p.R278C	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	267	Thyroglobulin type-1 2.				signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		GGACACGGGGCGCCCCATTCC	0.652													3	9					0	0	0.004672	0	0		T	168999659	T	T	168999659	3	4	61	1	0	0	0	0	1	0	0	0	14827	768	27	1	862	1	SMOC2	6	168999659	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	13418136	168999659	2115408	334	42340											
PRKAR1B	5575	broad.mit.edu	37	chr7	618981	618981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgggctccagcgcatccGccacggtcagacgctcccac	7	4	12	18	5	1	1	1	0	0	1	4	2	4	2	4	3	1	3	4	3	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:618981G>A	uc003siu.1	-	10	909	c.803C>T	c.(802-804)GCG>GTG	p.A268V	PRKAR1B_uc003siv.2_Missense_Mutation_p.A268V|PRKAR1B_uc003siw.1_Missense_Mutation_p.A268V|PRKAR1B_uc003six.1_RNA	NM_002735	NP_002726	P31321	KAP1_HUMAN	protein kinase, cAMP-dependent, regulatory, type	268	cAMP 2.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)		CAGCGCATCCGCCACGGTCAG	0.607													11	49					0	0	0.010729	0	0		A	618981	A	A	618981	3	1	61	1	0	0	0	0	1	0	0	0	12526	1087	38	1	354	1	PRKAR1B	7	618981	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08		618981	158519682	335	42341											
INTS1	26173	broad.mit.edu	37	chr7	1523451	1523451	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcatggtggctgtctccccGctgctccagcgtaggaagac	6	9	13	13	2	1	1	0	0	1	1	3	2	2	2	3	3	3	5	3	3	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:1523451G>A	uc003skn.2	-	26	3569	c.3468C>T	c.(3466-3468)AGC>AGT	p.S1156S	INTS1_uc003skp.1_Silent_p.S503S	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	1156					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CTGTCTCCCCGCTGCTCCAGC	0.662													8	34					0	0	0.00308	0	0		A	1523451	A	A	1523451	2	1	61	1	0	0	0	0	0	0	0	1	7791	1078	38	1		1	INTS1	7	1523451	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	904470	1523451	157615212	336	42342											
TMEM184A	202915	broad.mit.edu	37	chr7	1590549	1590549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgaaggcgtagatgggcaCgatgaggagcaggcggatga	11	5	19	6	4	0	3	0	2	0	1	1	7	0	5	0	5	1	3	0	5	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:1590549C>T	uc003skv.3	-	3	606	c.289G>A	c.(289-291)GTG>ATG	p.V97M	TMEM184A_uc003skt.3_Translation_Start_Site|TMEM184A_uc003skw.3_Translation_Start_Site	NM_001097620	NP_001091089	Q6ZMB5	T184A_HUMAN	transmembrane protein 184A	97	Helical; (Potential).					integral to membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;5.88e-15)		TAGATGGGCACGATGAGGAGC	0.612													5	22					0	0	0.001168	0	0		T	1590549	T	T	1590549	3	4	61	1	0	0	0	0	1	0	0	0	16129	536	19	1	980	1	TMEM184A	7	1590549	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	67098	1590549	157548114	337	42343											
AMZ1	155185	broad.mit.edu	37	chr7	2752350	2752350	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgctgggagatgttcacgggCcagctcccggccaccaggca	7	5	14	15	3	1	1	1	0	0	1	2	2	2	1	4	4	1	4	4	4	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:2752350C>T	uc003smr.1	+	7	1696	c.1335C>T	c.(1333-1335)GGC>GGT	p.G445G	AMZ1_uc003sms.1_3'UTR|AMZ1_uc011jwa.1_Silent_p.G194G	NM_133463	NP_597720	Q400G9	AMZ1_HUMAN	archaelysin family metallopeptidase 1	445							metallopeptidase activity|zinc ion binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;5.03e-14)		TGTTCACGGGCCAGCTCCCGG	0.677													5	27					0	0	0.000602	0	0		T	2752350	T	T	2752350	2	4	61	1	0	0	0	0	0	0	0	1	596	726	26	2		2	AMZ1	7	2752350	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1161801	2752350	156386313	338	42344											
PMS2	5395	broad.mit.edu	37	chr7	6026895	6026895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaacccctcagaatccaCggaagtgctgccgtgccccg	8	6	11	16	3	1	2	1	1	0	1	2	3	2	3	6	1	4	2	6	1	3	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:6026895C>T	uc003spl.2	-	11	1588	c.1501G>A	c.(1501-1503)GTG>ATG	p.V501M	PMS2_uc003spj.2_Missense_Mutation_p.V395M|PMS2_uc003spk.2_Missense_Mutation_p.V366M|PMS2_uc011jwl.1_Missense_Mutation_p.V366M|PMS2_uc010ktg.2_Missense_Mutation_p.V190M|PMS2_uc010kte.2_Intron|PMS2_uc010ktf.1_Missense_Mutation_p.V501M	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	501					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		TCAGAATCCACGGAAGTGCTG	0.627			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				17	71					0	0	0.00499	0	0		T	6026895	T	T	6026895	3	4	61	1	0	0	0	0	1	0	0	0	12162	536	19	1	1107	1	PMS2	7	6026895	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3274545	6026895	153111768	339	42345											
PMS2	5395	broad.mit.edu	37	chr7	6042145	6042145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggaaaataactgctgcAcgctgactgtggtccctctg	8	11	12	10	1	1	1	0	1	1	0	2	2	2	2	1	2	3	3	1	2	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:6042145A>G	uc003spl.2	-	5	563	c.476T>C	c.(475-477)GTG>GCG	p.V159A	PMS2_uc003spj.2_Missense_Mutation_p.V53A|PMS2_uc003spk.2_Missense_Mutation_p.V24A|PMS2_uc011jwl.1_Missense_Mutation_p.V24A|PMS2_uc010ktg.2_5'UTR|PMS2_uc010kte.2_Missense_Mutation_p.V159A|PMS2_uc010ktf.1_Missense_Mutation_p.V159A	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	159					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		TAACTGCTGCACGCTGACTGT	0.453			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				19	115					0	0	0.007413	0	0		G	6042145	G	G	6042145	3	3	61	1	0	0	0	0	1	0	0	0	12162	159	6	3	2156	3	PMS2	7	6042145	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	15250	6042145	153096518	340	42346											
THSD7A	221981	broad.mit.edu	37	chr7	11441596	11441596	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttcaaataacagtcacCtgtaaaacacatatttgtaa	16	12	4	9	0	2	0	2	0	0	0	3	0	3	0	2	0	2	2	2	0	6	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:11441596C>A	uc003ssf.3	-	22	4490	c.4238_splice	c.e22-1	p.G1413_splice		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A							integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TAACAGTCACCTGTAAAACAC	0.443										HNSCC(18;0.044)			6	76					0.00116845	0.00120956	0.001168	1	0		A	11441596	A	A	11441596	5	1	61	1	0	0	0	0	0	0	1	0	15904	695	24	5	760	5	THSD7A	7	11441596	Splice_Site	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5399451	11441596	147697067	341	42347											
OSBPL3	26031	broad.mit.edu	37	chr7	24874117	24874117	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcctcaccatcctttccagGgggctgggaatctgcgcggc	5	9	12	15	2	2	0	1	0	1	0	5	1	5	1	4	4	1	1	4	4	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:24874117G>T	uc003sxf.2	-	15	2139	c.1734C>A	c.(1732-1734)CCC>CCA	p.P578P	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Silent_p.P542P|OSBPL3_uc003sxh.2_Silent_p.P547P|OSBPL3_uc003sxi.2_Silent_p.P511P|OSBPL3_uc003sxj.1_Silent_p.P307P|OSBPL3_uc003sxk.1_Silent_p.P276P	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	578					lipid transport		lipid binding|protein binding			skin(1)	1						TCCTTTCCAGGGGGCTGGGAA	0.647													9	68					7.48243e-07	8.09386e-07	0.006214	1	0		T	24874117	T	T	24874117	2	4	61	1	0	0	0	0	0	0	0	1	11298	1219	43	5		5	OSBPL3	7	24874117	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	13432521	24874117	134264546	342	42348											
CCDC129	223075	broad.mit.edu	37	chr7	31690787	31690787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagatggaagccatgaagaCgatatgccaaagtttccggg	13	8	13	7	2	0	3	0	2	0	2	1	6	1	4	3	2	2	1	3	2	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:31690787C>T	uc003tcj.1	+	12	3608	c.2615C>T	c.(2614-2616)ACG>ATG	p.T872M	CCDC129_uc011kad.1_Missense_Mutation_p.T882M|CCDC129_uc003tci.1_Missense_Mutation_p.T723M|CCDC129_uc011kae.1_Missense_Mutation_p.T898M|CCDC129_uc003tck.1_Missense_Mutation_p.T780M	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	872											0						GCCATGAAGACGATATGCCAA	0.468													12	70					0	0	0.003163	0	0		T	31690787	T	T	31690787	3	4	61	1	0	0	0	0	1	0	0	0	2767	536	19	1	2657	1	CCDC129	7	31690787	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	6816670	31690787	127447876	343	42349											
AEBP1	165	broad.mit.edu	37	chr7	44153500	44153500	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcggctgcggcgcctcaaCgccaccaccaccctaggccc	7	4	10	20	4	1	0	1	0	0	0	1	0	1	0	6	3	3	1	6	3	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:44153500C>T	uc003tkb.2	+	21	3422	c.3117C>T	c.(3115-3117)AAC>AAT	p.N1039N	AEBP1_uc003tkc.3_Silent_p.N614N|AEBP1_uc003tkd.2_Silent_p.N289N	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	1039	Required for transcriptional repression (By similarity).|Interaction with MAPK1 and MAPK3 (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GGCGCCTCAACGCCACCACCA	0.697													7	27					0	0	0.001984	0	0		T	44153500	T	T	44153500	2	4	61	1	0	0	0	0	0	0	0	1	349	535	19	1		1	AEBP1	7	44153500	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	12462713	44153500	114985163	344	42350											
ADCY1	107	broad.mit.edu	37	chr7	45632428	45632428	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgcggattctgactgagcGttcacagaggaaggcgttcc	8	10	14	9	3	2	3	1	2	1	1	3	5	3	5	1	3	2	2	1	3	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:45632428G>A	uc003tne.3	+	2	728	c.710G>A	c.(709-711)CGT>CAT	p.R237H	ADCY1_uc003tnd.2_Missense_Mutation_p.R12H	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	237	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CTGACTGAGCGTTCACAGAGG	0.577													12	80					0	0	0.001855	0	0		A	45632428	A	A	45632428	3	1	61	1	0	0	0	0	1	0	0	0	292	1145	40	1	716	1	ADCY1	7	45632428	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1478928	45632428	113506235	345	42351											
ADCY1	107	broad.mit.edu	37	chr7	45742987	45742987	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccccaggcagaggaggagCgagaggacatggagaaggtg	13	3	18	7	1	0	3	0	0	0	3	0	8	0	6	2	6	2	1	2	6	2	1	rs61738404		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:45742987C>T	uc003tne.3	+	15	2485	c.2467C>T	c.(2467-2469)CGA>TGA	p.R823*		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	823	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	AGAGGAGGAGCGAGAGGACAT	0.567													17	52					0	0	0.00499	0	0		T	45742987	T	T	45742987	4	4	61	1	0	0	0	0	0	1	0	0	292	760	27	1	2525	1	ADCY1	7	45742987	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	110559	45742987	113395676	346	42352											
PKD1L1	168507	broad.mit.edu	37	chr7	47851593	47851593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacagacacagccctggtgCtgcggtcaatccacatgctg	9	7	11	14	1	1	1	1	0	0	1	2	1	2	1	2	2	4	3	2	2	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:47851593C>T	uc003tny.1	-	50	7403	c.7403G>A	c.(7402-7404)AGC>AAC	p.S2468N	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron|PKD1L1_uc003tob.2_Missense_Mutation_p.S195N	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2468	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AGCCCTGGTGCTGCGGTCAAT	0.587													7	7					0	0	0.001984	0	0		T	47851593	T	T	47851593	3	4	61	1	0	0	0	0	1	0	0	0	11983	797	28	2	1178	2	PKD1L1	7	47851593	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2108606	47851593	111287070	347	42353											
ZNF713	349075	broad.mit.edu	37	chr7	56007543	56007543	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcaacatgaaagaactcaTacaggagagaaaccctataa	21	6	6	8	0	2	3	2	1	0	2	2	5	2	4	1	1	4	0	1	1	8	3	rs113149662		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:56007543T>C	uc003trc.1	+	4	1175	c.1137T>C	c.(1135-1137)CAT>CAC	p.H379H	ZNF713_uc003tra.1_Silent_p.H392H|MRPS17_uc003trb.2_Intron	NM_182633	NP_872439	Q8N859	ZN713_HUMAN	zinc finger protein 713	379	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			AAAGAACTCATACAGGAGAGA	0.413													18	48					0	0	0.006122	0	0		C	56007543	C	C	56007543	2	2	61	1	0	0	0	0	0	0	0	1	18142	1403	49	3		3	ZNF713	7	56007543	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	8155950	56007543	103131120	348	42354											
TYW1B	441250	broad.mit.edu	37	chr7	72281204	72281204	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactttcggttggtaggccGtcagtgtatgtcgcaaccag	7	11	13	10	3	1	0	1	0	0	0	3	0	1	0	2	3	1	5	2	3	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:72281204G>A	uc011kej.1	-	4	444	c.285C>T	c.(283-285)GAC>GAT	p.D95D	TYW1B_uc011keh.1_Intron|TYW1B_uc011kek.1_Intron	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform	95	Flavodoxin-like.				tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						TTGGTAGGCCGTCAGTGTATG	0.413													15	77					0	0	0.00245	0	0		A	72281204	A	A	72281204	2	1	61	1	0	0	0	0	0	0	0	1	16845	1136	40	1		1	TYW1B	7	72281204	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	16273661	72281204	86857459	349	42355											
ABHD11	83451	broad.mit.edu	37	chr7	73153053	73153053	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgaagctagggccgtggggGccgagtccctcacgcgggag	6	4	19	12	5	1	0	1	0	0	0	2	3	2	1	3	4	1	1	3	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:73153053G>A	uc003tzb.2	-	1	132	c.75C>T	c.(73-75)GGC>GGT	p.G25G	RFC2_uc011kfa.1_Intron|ABHD11_uc011kfb.1_Silent_p.G25G|ABHD11_uc003tzc.2_Silent_p.G25G|ABHD11_uc003tza.2_5'UTR|ABHD11_uc003tzf.2_Silent_p.G25G|ABHD11_uc011kfc.1_Silent_p.G25G	NM_148912	NP_683710	Q8NFV4	ABHDB_HUMAN	abhydrolase domain containing 11 isoform 1	25							hydrolase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				GGCCGTGGGGGCCGAGTCCCT	0.692													4	8					0	0	0.009096	0	0		A	73153053	A	A	73153053	2	1	61	1	0	0	0	0	0	0	0	1	75	1190	42	2		2	ABHD11	7	73153053	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	871849	73153053	85985610	350	42356											
WBSCR28	135886	broad.mit.edu	37	chr7	73280112	73280112	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggttgaaccccaggaggTctcagggtcttccttgctgc	6	10	14	11	0	2	1	1	1	2	0	4	3	3	3	3	5	3	2	3	5	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:73280112T>C	uc003tzk.2	+	3	743	c.707T>C	c.(706-708)GTC>GCC	p.V236A	RFC2_uc011kfa.1_Intron|WBSCR28_uc003tzl.2_Missense_Mutation_p.V135A	NM_182504	NP_872310	Q6UE05	WBS28_HUMAN	hypothetical protein LOC135886	236						integral to membrane				breast(1)	1		Lung NSC(55;0.159)				CCCCAGGAGGTCTCAGGGTCT	0.592													45	136					0	0	0.013114	0	0		C	73280112	C	C	73280112	3	2	61	1	0	0	0	0	1	0	0	0	17293	1667	58	3	717	3	WBSCR28	7	73280112	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	127059	73280112	85858551	351	42357											
ZNF804B	219578	broad.mit.edu	37	chr7	88963218	88963218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaattttgcaagacaaacacGactctattgatgagacacta	17	10	6	8	1	1	3	0	2	1	2	1	5	1	3	0	0	2	1	0	0	5	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:88963218G>A	uc011khi.1	+	4	1460	c.922G>A	c.(922-924)GAC>AAC	p.D308N		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	308						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AGACAAACACGACTCTATTGA	0.358										HNSCC(36;0.09)			5	29					0	0	0.000602	0	0		A	88963218	A	A	88963218	3	1	61	1	0	0	0	0	1	0	0	0	18196	1058	37	1	936	1	ZNF804B	7	88963218	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	15683106	88963218	70175445	352	42358											
SAMD9	54809	broad.mit.edu	37	chr7	92733171	92733171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcccagagaatgtgcataGccaaggtagttcccccacag	11	8	10	12	0	0	1	0	0	0	1	2	2	2	1	4	1	2	4	4	1	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:92733171G>A	uc003umf.2	-	3	2496	c.2240C>T	c.(2239-2241)GCT>GTT	p.A747V	SAMD9_uc003umg.2_Missense_Mutation_p.A747V	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	747						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			AATGTGCATAGCCAAGGTAGT	0.393													42	173					0	0	0.010771	0	0		A	92733171	A	A	92733171	3	1	61	1	0	0	0	0	1	0	0	0	13851	971	34	2	2533	2	SAMD9	7	92733171	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3769953	92733171	66405492	353	42359											
COL1A2	1278	broad.mit.edu	37	chr7	94041414	94041414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggaaatatcggccccgCtggaaaagaaggtcctgtcg	10	7	12	12	3	0	1	0	0	0	1	3	3	1	3	4	4	0	1	4	4	5	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:94041414C>T	uc003ung.1	+	24	1856	c.1385C>T	c.(1384-1386)GCT>GTT	p.A462V	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	462			Missing (in OI2A).		axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	ATCGGCCCCGCTGGAAAAGAA	0.368										HNSCC(75;0.22)			7	23					0	0	0.00308	0	0		T	94041414	T	T	94041414	3	4	61	1	0	0	0	0	1	0	0	0	3681	797	28	2	1479	2	COL1A2	7	94041414	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1308243	94041414	65097249	354	42360											
DYNC1I1	1780	broad.mit.edu	37	chr7	95499216	95499216	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagactgcataaactgggCgtgtcaaaggtcacccaagt	14	7	11	9	1	2	2	2	0	0	2	2	2	2	2	1	2	2	1	1	2	5	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:95499216C>A	uc003uoc.3	+	6	724	c.447C>A	c.(445-447)GGC>GGA	p.G149G	DYNC1I1_uc003uod.3_Silent_p.G132G|DYNC1I1_uc003uob.2_Silent_p.G112G|DYNC1I1_uc003uoe.3_Silent_p.G129G|DYNC1I1_uc010lfl.2_Silent_p.G138G	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	149					vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			ATAAACTGGGCGTGTCAAAGG	0.453													12	81					0.00400662	0.00411943	0.004007	1	0		A	95499216	A	A	95499216	2	1	61	1	0	0	0	0	0	0	0	1	4848	755	27	5		5	DYNC1I1	7	95499216	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1457802	95499216	63639447	355	42361											
TRRAP	8295	broad.mit.edu	37	chr7	98540640	98540640	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccagaggagcgacggaaaCgtgagtgacttgtttgtttc	9	10	15	7	3	0	3	0	2	0	1	1	6	0	5	1	3	2	2	1	3	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:98540640C>T	uc003upp.2	+	31	4682	c.4473C>T	c.(4471-4473)AAC>AAT	p.N1491N	TRRAP_uc011kis.1_Silent_p.N1491N|TRRAP_uc003upr.2_Silent_p.N1183N	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1491					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GCGACGGAAACGTGAGTGACT	0.522													4	26					0	0	0.009096	0	0		T	98540640	T	T	98540640	2	4	61	1	0	0	0	0	0	0	0	1	16627	550	19	1		1	TRRAP	7	98540640	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3041424	98540640	60598023	356	42362											
TRRAP	8295	broad.mit.edu	37	chr7	98574288	98574288	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacctctggttccggtccacGctgatgttggagcaccaggc	7	9	12	13	2	1	1	0	1	1	0	3	2	3	2	4	4	2	4	4	4	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:98574288G>A	uc003upp.2	+	54	8330	c.8121G>A	c.(8119-8121)ACG>ACA	p.T2707T	TRRAP_uc011kis.1_Silent_p.T2689T|TRRAP_uc003upr.2_Silent_p.T2406T	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2707	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TCCGGTCCACGCTGATGTTGG	0.562													10	55					0	0	0.008291	0	0		A	98574288	A	A	98574288	2	1	61	1	0	0	0	0	0	0	0	1	16627	1074	38	1		1	TRRAP	7	98574288	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	33648	98574288	60564375	357	42363											
SMURF1	57154	broad.mit.edu	37	chr7	98649848	98649848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtagccttcgggcagttccGgggactggtggccgtgtggt	3	10	18	10	4	0	0	0	0	0	0	2	1	1	1	3	6	1	3	3	6	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:98649848G>A	uc003upu.1	-	7	1021	c.701C>T	c.(700-702)CCG>CTG	p.P234L	SMURF1_uc003upv.1_Missense_Mutation_p.P234L|SMURF1_uc003upt.2_Missense_Mutation_p.P234L	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	234	WW 1.				BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			GGGCAGTTCCGGGGACTGGTG	0.502													12	82					0	0	0.010729	0	0		A	98649848	A	A	98649848	3	1	61	1	0	0	0	0	1	0	0	0	14844	1116	39	1	1624	1	SMURF1	7	98649848	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	75560	98649848	60488815	358	42364											
MUC17	140453	broad.mit.edu	37	chr7	100676090	100676090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtcagcaccactccagtgGccagttctgaggctagcaac	9	8	10	14	0	2	1	1	1	1	0	3	1	3	1	3	2	3	4	3	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:100676090G>A	uc003uxp.1	+	3	1446	c.1393G>A	c.(1393-1395)GCC>ACC	p.A465T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	465	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|5.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CACTCCAGTGGCCAGTTCTGA	0.488													79	334					0	0	0.01441	0	0		A	100676090	A	A	100676090	3	1	61	1	0	0	0	0	1	0	0	0	9992	1203	42	2	1403	2	MUC17	7	100676090	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2026242	100676090	58462573	359	42365											
CUX1	1523	broad.mit.edu	37	chr7	101840004	101840004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcagttgccccgcaaccCgggggagcaggcttccaata	8	8	11	14	2	1	0	1	0	1	0	3	1	2	1	4	3	3	4	4	3	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:101840004C>T	uc003uyx.3	+	15	1351	c.1313C>T	c.(1312-1314)CCG>CTG	p.P438L	CUX1_uc003uys.3_Missense_Mutation_p.P449L|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	438					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						CCCCGCAACCCGGGGGAGCAG	0.592													14	73					0	0	0.00245	0	0		T	101840004	T	T	101840004	3	4	61	1	0	0	0	0	1	0	0	0	4067	652	23	1	1438	1	CUX1	7	101840004	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1163914	101840004	57298659	360	42366											
RELN	5649	broad.mit.edu	37	chr7	103179672	103179672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accagtagagccacacacggGcatcttggtgcctcctgggt	8	8	12	13	1	1	1	0	0	1	1	2	1	2	1	4	3	2	2	4	3	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:103179672G>A	uc003vca.2	-	45	7193	c.7033C>T	c.(7033-7035)CCC>TCC	p.P2345S	RELN_uc010liz.2_Missense_Mutation_p.P2345S	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2345					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCACACACGGGCATCTTGGTG	0.493													5	36					0	0	0.000602	0	0		A	103179672	A	A	103179672	3	1	61	1	0	0	0	0	1	0	0	0	13245	1203	42	2	3433	2	RELN	7	103179672	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1339668	103179672	55958991	361	42367											
PUS7	54517	broad.mit.edu	37	chr7	105135657	105135657	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccttatatagtacgaagtgGcagtaacttcccctagattt	11	14	7	9	1	0	1	0	0	0	1	2	2	2	1	3	1	2	3	3	1	7	8			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:105135657G>T	uc003vcx.2	-	6	993	c.774C>A	c.(772-774)TGC>TGA	p.C258*	PUS7_uc010lji.2_Nonsense_Mutation_p.C264*|PUS7_uc003vcy.2_Nonsense_Mutation_p.C258*|PUS7_uc003vcz.1_Nonsense_Mutation_p.C258*	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog	258					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						GTACGAAGTGGCAGTAACTTC	0.318													25	139					1.33986e-20	1.51432e-20	0.004656	1	0		T	105135657	T	T	105135657	4	4	61	1	0	0	0	0	0	1	0	0	12858	1195	42	5	1255	5	PUS7	7	105135657	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1955985	105135657	54003006	362	42368											
CTTNBP2	83992	broad.mit.edu	37	chr7	117432324	117432324	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttctgtcactaggtctGtctggcatgcaacagacctt	8	14	8	11	0	4	1	1	0	3	1	4	1	4	1	1	2	2	2	1	2	2	4	rs151077142		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:117432324G>T	uc003vjf.2	-	4	1018	c.926C>A	c.(925-927)ACA>AAA	p.T309K		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	309										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		CACTAGGTCTGTCTGGCATGC	0.453													28	129					1.77063e-15	1.99267e-15	0.005443	1	0		T	117432324	T	T	117432324	3	4	61	1	0	0	0	0	1	0	0	0	4048	1377	48	5	4145	5	CTTNBP2	7	117432324	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	12296667	117432324	41706339	363	42369											
AASS	10157	broad.mit.edu	37	chr7	121755182	121755182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgagaacttgcccggaGccaggagactctgagcatct	10	7	13	11	1	2	3	0	2	2	2	2	6	2	4	2	3	4	1	2	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:121755182G>A	uc003vka.2	-	8	1085	c.989C>T	c.(988-990)GCT>GTT	p.A330V	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.A330V|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	330	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	CTTGCCCGGAGCCAGGAGACT	0.488													14	44					0	0	0.001855	0	0		A	121755182	A	A	121755182	3	1	61	1	0	0	0	0	1	0	0	0	24	971	34	2	1855	2	AASS	7	121755182	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4322858	121755182	37383481	364	42370											
ZNF800	168850	broad.mit.edu	37	chr7	127014561	127014561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactagaacattcttactgcGtcctttagaggattggtttg	10	15	9	7	1	1	2	0	0	1	2	2	3	2	3	1	2	4	1	1	2	5	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:127014561G>A	uc003vlx.1	-	5	1092	c.829C>T	c.(829-831)CGC>TGC	p.R277C	ZNF800_uc003vlw.1_Missense_Mutation_p.R180C|ZNF800_uc003vly.1_Missense_Mutation_p.R277C|ZNF800_uc010lla.2_Missense_Mutation_p.R277C	NM_176814	NP_789784	Q2TB10	ZN800_HUMAN	zinc finger protein 800	277					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTCTTACTGCGTCCTTTAGAG	0.368													16	70					0	0	0.004007	0	0		A	127014561	A	A	127014561	3	1	61	1	0	0	0	0	1	0	0	0	18194	1145	40	1	1173	1	ZNF800	7	127014561	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	5259379	127014561	32124102	365	42371											
FAM40B	57464	broad.mit.edu	37	chr7	129096467	129096467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctccaagctgcgaggccGccgtggctctcgaagggtat	7	7	13	14	4	1	0	0	0	1	0	3	2	2	0	4	3	2	3	4	3	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:129096467G>A	uc011koy.1	+	9	1062	c.1022G>A	c.(1021-1023)CGC>CAC	p.R341H	FAM40B_uc003vow.2_Missense_Mutation_p.R341H|FAM40B_uc011koz.1_5'Flank	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	341											0						CTGCGAGGCCGCCGTGGCTCT	0.562													5	35					0	0	0.000602	0	0		A	129096467	A	A	129096467	3	1	61	1	0	0	0	0	1	0	0	0	5575	1087	38	1	1056	1	FAM40B	7	129096467	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2081906	129096467	30042196	366	42372											
AKR1B15	441282	broad.mit.edu	37	chr7	134254170	134254170	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctacactctttgcaggtgtgGcccactttctttgagagacc	7	13	9	12	0	2	2	0	1	2	1	2	3	2	2	2	2	2	1	2	2	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:134254170G>A	uc011kpr.1	+	5	623	c.324G>A	c.(322-324)TGG>TGA	p.W108*	AKR1B15_uc003vrt.2_Nonsense_Mutation_p.W80*|AKR1B15_uc011kps.1_Nonsense_Mutation_p.W80*	NM_001080538	NP_001074007	C9JRZ8	AK1BF_HUMAN	aldo-keto reductase family 1, member B15	108							oxidoreductase activity			ovary(1)	1						TGCAGGTGTGGCCCACTTTCT	0.463													8	61					0	0	0.00308	0	0		A	134254170	A	A	134254170	4	1	61	1	0	0	0	0	0	1	0	0	468	1212	42	2	334	2	AKR1B15	7	134254170	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	5157703	134254170	24884493	367	42373											
KIAA1549	57670	broad.mit.edu	37	chr7	138566238	138566238	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagaggtcctggcagtggCgctggctcatgaataatcaa	10	10	12	9	1	3	2	3	1	0	1	4	2	4	2	1	4	0	3	1	4	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:138566238C>T	uc011kql.1	-	11	4174	c.4125G>A	c.(4123-4125)GCG>GCA	p.A1375A	KIAA1549_uc011kqi.1_Silent_p.A159A|KIAA1549_uc003vuk.3_Silent_p.A1325A|KIAA1549_uc011kqj.1_Silent_p.A1375A|KIAA1549_uc011kqk.1_Silent_p.A159A	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1375						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						CTGGCAGTGGCGCTGGCTCAT	0.507			O	BRAF	pilocytic astrocytoma								8	46					0	0	0.004482	0	0		T	138566238	T	T	138566238	2	4	61	1	0	0	0	0	0	0	0	1	8260	755	27	1		1	KIAA1549	7	138566238	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4312068	138566238	20572425	368	42374											
KIAA1549	57670	broad.mit.edu	37	chr7	138603140	138603140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggtctgaatgaggacaccGggctcaggatatgagtgttg	10	10	15	6	1	2	3	1	3	1	0	2	5	2	5	1	4	0	2	1	4	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:138603140G>A	uc011kql.1	-	2	1281	c.1232C>T	c.(1231-1233)CCG>CTG	p.P411L	KIAA1549_uc003vuk.3_Missense_Mutation_p.P361L|KIAA1549_uc011kqj.1_Missense_Mutation_p.P411L	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	411						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TGAGGACACCGGGCTCAGGAT	0.542			O	BRAF	pilocytic astrocytoma								15	60					0	0	0.003163	0	0		A	138603140	A	A	138603140	3	1	61	1	0	0	0	0	1	0	0	0	8260	1116	39	1	4696	1	KIAA1549	7	138603140	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	36902	138603140	20535523	369	42375											
RAB19	401409	broad.mit.edu	37	chr7	140107546	140107546	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgtggggaagacgtgtgtgGtgcagcatttcaagtctgga	9	11	16	5	1	2	1	1	0	1	1	2	3	2	3	0	4	2	2	0	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:140107546G>T	uc010lni.2	+	2	298	c.100G>T	c.(100-102)GTG>TTG	p.V34L	RAB19_uc011krc.1_Missense_Mutation_p.V34L	NM_001008749	NP_001008749	A4D1S5	RAB19_HUMAN	RAB19, member RAS oncogene family	34					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0	Melanoma(164;0.0142)					GACGTGTGTGGTGCAGCATTT	0.473													14	38					4.3838e-07	4.76637e-07	0.001855	1	0		T	140107546	T	T	140107546	3	4	61	1	0	0	0	0	1	0	0	0	12929	1261	44	5	102	5	RAB19	7	140107546	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1504406	140107546	19031117	370	42376											
EPHA1	2041	broad.mit.edu	37	chr7	143092451	143092451	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagatgcagaatatgcgggtGgctaaactggcccatgatag	12	8	13	8	1	0	3	0	1	0	2	0	3	0	3	1	3	3	2	1	3	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:143092451G>T	uc003wcz.2	-	12	2131	c.2044C>A	c.(2044-2046)CAC>AAC	p.H682N		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	682	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				ATATGCGGGTGGCTAAACTGG	0.547											OREG0018405	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	287					2.32078e-09	2.56279e-09	0.003163	1	0		T	143092451	T	T	143092451	3	4	61	1	0	0	0	0	1	0	0	0	5173	1348	47	5	914	5	EPHA1	7	143092451	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2984905	143092451	16046212	371	42377											
SLC4A2	6522	broad.mit.edu	37	chr7	150759083	150759083	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taagattcggccatgagcagCgcccctcggcgccccgccaa	8	5	11	17	5	0	2	0	1	0	1	2	2	0	2	6	2	2	1	6	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:150759083C>T	uc003wit.3	+	2	265	c.9C>T	c.(7-9)AGC>AGT	p.S3S	SLC4A2_uc011kve.1_5'Flank|SLC4A2_uc003wiu.3_5'Flank	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	3	Cytoplasmic (Potential).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CCATGAGCAGCGCCCCTCGGC	0.652													3	15					0	0	0.009096	0	0		T	150759083	T	T	150759083	2	4	61	1	0	0	0	0	0	0	0	1	14679	767	27	1		1	SLC4A2	7	150759083	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	7666632	150759083	8379580	372	42378											
CRYGN	155051	broad.mit.edu	37	chr7	151135100	151135100	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accattcctacaggccgacaGgagcccatgtggtcactgtg	9	8	11	13	1	1	0	1	0	0	0	2	2	2	1	4	3	2	0	4	3	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:151135100G>T	uc003wke.2	-	2	348	c.252C>A	c.(250-252)TCC>TCA	p.S84S	CRYGN_uc003wkf.2_Silent_p.S84S|CRYGN_uc003wkg.2_RNA|CRYGN_uc010lqd.1_5'Flank	NM_144727	NP_653328	Q8WXF5	CRGN_HUMAN	gammaN-crystallin	84	Beta/gamma crystallin 'Greek key' 2.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00358)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CAGGCCGACAGGAGCCCATGT	0.622													6	28					0.00116845	0.00120956	0.001168	1	0		T	151135100	T	T	151135100	2	4	61	1	0	0	0	0	0	0	0	1	3921	987	35	5		5	CRYGN	7	151135100	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	376017	151135100	8003563	373	42379											
NOM1	64434	broad.mit.edu	37	chr7	156762322	156762322	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcccacagaagcgccgaCgaagccaacgtgctgagaga	13	2	13	13	4	0	3	0	1	0	2	0	6	0	3	3	1	4	1	3	1	3	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:156762322C>T	uc003wmy.2	+	11	2523	c.2508C>T	c.(2506-2508)GAC>GAT	p.D836D		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	836					RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		GAAGCGCCGACGAAGCCAACG	0.527													11	94					0	0	0.013537	0	0		T	156762322	T	T	156762322	2	4	61	1	0	0	0	0	0	0	0	1	10549	535	19	1		1	NOM1	7	156762322	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5627222	156762322	2376341	374	42380											
MYOM2	9172	broad.mit.edu	37	chr8	2064029	2064029	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcattcaagactgtgctggaAgaggctgagtttcaaaggaa	13	9	13	6	0	2	3	2	1	0	2	2	5	2	5	0	3	1	4	0	3	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:2064029A>C	uc003wpx.3	+	27	3483	c.3345A>C	c.(3343-3345)GAA>GAC	p.E1115D	MYOM2_uc011kwi.1_Missense_Mutation_p.E540D	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1115					muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CTGTGCTGGAAGAGGCTGAGT	0.378													5	20					0	0	0.000602	0	0		C	2064029	C	C	2064029	3	2	61	1	0	0	0	0	1	0	0	0	10110	69	3	5	3447	5	MYOM2	8	2064029	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08		2064029	144299993	375	42381											
CSMD1	64478	broad.mit.edu	37	chr8	3253820	3253820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaactggggtgcctgggtgCcgtggtactcgccgatcagt	5	9	17	10	3	1	0	1	0	0	0	2	2	1	1	3	5	4	1	3	5	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:3253820C>T	uc011kwk.1	-	17	2882	c.2492G>A	c.(2491-2493)GGC>GAC	p.G831D	CSMD1_uc011kwj.1_Missense_Mutation_p.G223D|CSMD1_uc003wqe.2_5'UTR	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	831	Extracellular (Potential).|CUB 5.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TGCCTGGGTGCCGTGGTACTC	0.537													3	8					0	0	0.009096	0	0		T	3253820	T	T	3253820	3	4	61	1	0	0	0	0	1	0	0	0	3947	739	26	2	8421	2	CSMD1	8	3253820	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1189791	3253820	143110202	376	42382											
MCPH1	79648	broad.mit.edu	37	chr8	6266828	6266828	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctatgttgaagtgtggtcAtccaatggaacagaaaatta	14	11	10	6	0	1	2	1	1	0	1	2	3	2	3	2	2	1	1	2	2	7	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:6266828A>G	uc003wqi.2	+	2	119	c.51A>G	c.(49-51)TCA>TCG	p.S17S	MCPH1_uc003wqh.2_Silent_p.S17S|MCPH1_uc011kwl.1_Silent_p.S17S|uc003wqf.2_5'Flank	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	17	BRCT 1.					microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		AAGTGTGGTCATCCAATGGAA	0.368													4	40					0	0	0.001168	0	0		G	6266828	G	G	6266828	2	3	61	1	0	0	0	0	0	0	0	1	9416	204	8	3		3	MCPH1	8	6266828	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	3013008	6266828	140097194	377	42383											
SGK223	157285	broad.mit.edu	37	chr8	8234263	8234263	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacggtgacaccggggacccTacagggctactcttggacaa	10	6	13	12	2	1	1	0	1	1	0	1	4	1	3	2	5	2	1	2	5	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:8234263T>C	uc003wsh.3	-	2	1656	c.1656A>G	c.(1654-1656)GTA>GTG	p.V552V		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	552							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						CCGGGGACCCTACAGGGCTAC	0.652													11	37					0	0	0.010729	0	0		C	8234263	C	C	8234263	2	2	61	1	0	0	0	0	0	0	0	1	14235	1509	53	3		3	SGK223	8	8234263	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	1967435	8234263	138129759	378	42384											
SGK223	157285	broad.mit.edu	37	chr8	8234544	8234544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttgggtctgggctgtcccGgccccagccagatgctgctt	4	10	14	13	1	1	1	0	0	1	1	2	1	2	1	4	3	3	4	4	3	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:8234544G>A	uc003wsh.3	-	2	1375	c.1375C>T	c.(1375-1377)CGG>TGG	p.R459W		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	459							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GGGCTGTCCCGGCCCCAGCCA	0.622													5	22					0	0	0.000602	0	0		A	8234544	A	A	8234544	3	1	61	1	0	0	0	0	1	0	0	0	14235	1115	39	1	2849	1	SGK223	8	8234544	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	281	8234544	138129478	379	42385											
FAM167A	83648	broad.mit.edu	37	chr8	11282093	11282093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcttgttgatgtcgccaCgcaggcgcatgagctgtctg	6	11	13	11	3	2	2	1	2	1	0	3	2	2	2	1	1	2	5	1	1	0	2	rs145481836	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:11282093C>T	uc010lry.1	-	3	1054	c.434G>A	c.(433-435)CGT>CAT	p.R145H	C8orf12_uc003wtu.2_Intron|C8orf12_uc003wtv.2_Intron|FAM167A_uc003wtw.2_Missense_Mutation_p.R145H	NM_053279	NP_444509	Q96KS9	F167A_HUMAN	hypothetical protein LOC83648	145	Potential.										0						GATGTCGCCACGCAGGCGCAT	0.627													7	35					0	0	0.00308	0	0		T	11282093	T	T	11282093	3	4	61	1	0	0	0	0	1	0	0	0	5494	536	19	1	214	1	FAM167A	8	11282093	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3047549	11282093	135081929	380	42386											
DLC1	10395	broad.mit.edu	37	chr8	12957132	12957132	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagaggatgtcgtccagcTcggggaagatgtcctcgttc	7	10	15	9	3	0	2	0	0	0	2	6	4	2	4	2	4	1	3	2	4	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:12957132T>G	uc003wwm.2	-	9	3158	c.2714A>C	c.(2713-2715)GAG>GCG	p.E905A	DLC1_uc003wwk.1_Missense_Mutation_p.E468A|DLC1_uc003wwl.1_Missense_Mutation_p.E502A|DLC1_uc011kxx.1_Missense_Mutation_p.E394A	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	905					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GTCGTCCAGCTCGGGGAAGAT	0.577													8	25					0	0	0.00308	0	0		G	12957132	G	G	12957132	3	3	61	1	0	0	0	0	1	0	0	0	4556	1551	54	5	1912	5	DLC1	8	12957132	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	1675039	12957132	133406890	381	42387											
BMP1	649	broad.mit.edu	37	chr8	22053003	22053003	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgctctcggcccaaccgCgggggctgtgagcagcggtg	5	6	18	12	4	1	1	0	1	1	0	2	2	1	1	2	4	4	3	2	4	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:22053003C>T	uc003xbg.2	+	13	1912	c.1668C>T	c.(1666-1668)CGC>CGT	p.R556R	BMP1_uc003xba.2_Silent_p.R556R|BMP1_uc003xbb.2_Silent_p.R556R|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Silent_p.R305R|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Silent_p.R305R|BMP1_uc011kzc.1_Silent_p.R305R|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	556	EGF-like 1; calcium-binding (Potential).				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		GGCCCAACCGCGGGGGCTGTG	0.637													8	58					0	0	0.006214	0	0		T	22053003	T	T	22053003	2	4	61	1	0	0	0	0	0	0	0	1	1457	755	27	1		1	BMP1	8	22053003	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	9095871	22053003	124311019	382	42388											
TNFRSF10D	8793	broad.mit.edu	37	chr8	23002133	23002133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcgtgaaggacatgaacGccgccggaaaaggaccttgg	13	5	13	10	4	0	2	0	2	0	0	1	5	0	5	3	4	2	0	3	4	5	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:23002133G>A	uc003xcz.1	-	7	876	c.784C>T	c.(784-786)CGT>TGT	p.R262C		NM_003840	NP_003831	Q9UBN6	TR10D_HUMAN	tumor necrosis factor receptor superfamily,	262	Cytoplasmic (Potential).				anti-apoptosis|apoptosis	integral to membrane	TRAIL binding|transmembrane receptor activity				0		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0147)|COAD - Colon adenocarcinoma(73;0.0612)		GGACATGAACGCCGCCGGAAA	0.592													5	29					0	0	0.000602	0	0		A	23002133	A	A	23002133	3	1	61	1	0	0	0	0	1	0	0	0	16308	1087	38	1	388	1	TNFRSF10D	8	23002133	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	949130	23002133	123361889	383	42389											
LOXL2	4017	broad.mit.edu	37	chr8	23198632	23198632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgccctccttcacctccaCgtagccctccatcactgggg	5	10	7	19	1	2	0	2	0	0	0	5	0	5	0	6	2	2	1	6	2	1	3	rs140591037		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:23198632C>T	uc003xdh.1	-	4	955	c.616G>A	c.(616-618)GTG>ATG	p.V206M	uc003xdj.2_RNA|uc003xdi.2_RNA	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	206	SRCR 2.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		TTCACCTCCACGTAGCCCTCC	0.577													13	85					0	0	0.001855	0	0		T	23198632	T	T	23198632	3	4	61	1	0	0	0	0	1	0	0	0	8918	536	19	1	1752	1	LOXL2	8	23198632	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	196499	23198632	123165390	384	42390											
PPP2R2A	5520	broad.mit.edu	37	chr8	26221281	26221281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaacaggtcatttttttccGaaatcatctcctctatttcg	9	17	5	10	2	4	0	2	0	2	0	7	1	5	0	2	1	1	1	2	1	3	6	rs146354435		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:26221281G>A	uc003xeu.2	+	8	1149	c.847G>A	c.(847-849)GAA>AAA	p.E283K	PPP2R2A_uc003xek.2_Missense_Mutation_p.E284K|PPP2R2A_uc011laf.1_Missense_Mutation_p.E293K	NM_002717	NP_002708	P63151	2ABA_HUMAN	alpha isoform of regulatory subunit B55, protein	283	WD 5.				protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)		ATTTTTTTCCGAAATCATCTC	0.333													7	36					0	0	0.001984	0	0		A	26221281	A	A	26221281	3	1	61	1	0	0	0	0	1	0	0	0	12406	1059	37	1	918	1	PPP2R2A	8	26221281	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3022649	26221281	120142741	385	42391											
CHRNA2	1135	broad.mit.edu	37	chr8	27321182	27321182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcggcagccgccggatgaCgaaggcgtaggtgacgtcgg	8	4	19	10	7	0	2	0	2	0	0	1	5	0	3	2	5	2	2	2	5	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:27321182C>T	uc010lur.2	-	6	1387	c.778G>A	c.(778-780)GTC>ATC	p.V260I	CHRNA2_uc011lal.1_Missense_Mutation_p.V245I|CHRNA2_uc010lus.2_Missense_Mutation_p.V62I	NM_000742	NP_000733	Q15822	ACHA2_HUMAN	cholinergic receptor, nicotinic, alpha	260	Extracellular.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)	1		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0208)|Epithelial(17;2.77e-10)|Colorectal(74;0.136)	Atracurium(DB00732)|Biperiden(DB00810)|Carbachol(DB00411)|Cisatracurium Besylate(DB00565)|Decamethonium(DB01245)|Dextromethorphan(DB00514)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Gallamine Triethiodide(DB00483)|Levallorphan(DB00504)|Mecamylamine(DB00657)|Metocurine(DB01336)|Metocurine Iodide(DB00416)|Mivacurium(DB01226)|Nicotine(DB00184)|Pancuronium(DB01337)|Pipecuronium(DB01338)|Rocuronium(DB00728)|Tubocurarine(DB01199)	CGCCGGATGACGAAGGCGTAG	0.612													10	37					0	0	0.008291	0	0		T	27321182	T	T	27321182	3	4	61	1	0	0	0	0	1	0	0	0	3386	536	19	1	819	1	CHRNA2	8	27321182	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1099901	27321182	119042840	386	42392											
KIF13B	23303	broad.mit.edu	37	chr8	28974486	28974486	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctgctgagctgagggcaGccatgcaccgcggagtccca	7	5	13	16	2	0	2	0	2	0	0	1	3	1	3	5	2	4	4	5	2	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:28974486G>A	uc003xhh.3	-	31	3758	c.3699C>T	c.(3697-3699)GGC>GGT	p.G1233G	uc003xhi.1_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1233					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		GCTGAGGGCAGCCATGCACCG	0.577													17	48					0	0	0.008871	0	0		A	28974486	A	A	28974486	2	1	61	1	0	0	0	0	0	0	0	1	8291	958	34	2		2	KIF13B	8	28974486	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1653304	28974486	117389536	387	42393											
KIF13B	23303	broad.mit.edu	37	chr8	29035015	29035015	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcccttccttcagcctgtcCcctgcagcgcctgtcttcgt	2	13	7	19	2	2	0	1	0	1	0	6	0	5	0	6	0	3	1	6	0	0	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:29035015C>T	uc003xhh.3	-	9	860	c.801G>A	c.(799-801)GGG>GGA	p.G267G	KIF13B_uc003xhj.2_Silent_p.G164G|KIF13B_uc010lvf.1_Silent_p.G203G	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	267	Kinesin-motor.				microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		TCAGCCTGTCCCCTGCAGCGC	0.438											OREG0018684	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	82					0	0	0.001855	0	0		T	29035015	T	T	29035015	2	4	61	1	0	0	0	0	0	0	0	1	8291	610	22	4		4	KIF13B	8	29035015	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	60529	29035015	117329007	388	42394											
BRF2	55290	broad.mit.edu	37	chr8	37704629	37704629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgttggtagtaggcaacCgcggtatcctcaaatgttgg	8	11	13	9	2	1	0	1	0	0	0	2	0	2	0	3	4	1	6	3	4	5	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:37704629C>T	uc003xkk.2	-	3	389	c.279G>A	c.(277-279)GCG>GCA	p.A93A		NM_018310	NP_060780	Q9HAW0	BRF2_HUMAN	RNA polymerase III transcription initiation	93	1.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter|transcription initiation, DNA-dependent	nucleoplasm	protein binding|zinc ion binding				0		Lung NSC(58;0.118)|all_lung(54;0.195)	BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;1.81e-10)			AGTAGGCAACCGCGGTATCCT	0.552													19	93					0	0	0.007413	0	0		T	37704629	T	T	37704629	2	4	61	1	0	0	0	0	0	0	0	1	1514	639	23	1		1	BRF2	8	37704629	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	8669614	37704629	108659393	389	42395											
SLC20A2	6575	broad.mit.edu	37	chr8	42323320	42323320	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgacaagctccatccactgCacacctttggtaccgattgc	9	11	7	14	1	0	1	0	1	0	0	2	2	2	1	4	1	4	3	4	1	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:42323320C>T	uc010lxl.2	-	3	1099	c.405G>A	c.(403-405)GTG>GTA	p.V135V	SLC20A2_uc010lxm.2_Silent_p.V135V|SLC20A2_uc003xpe.2_Silent_p.V135V	NM_006749	NP_006740	Q08357	S20A2_HUMAN	solute carrier family 20, member 2	135	Extracellular (Potential).				interspecies interaction between organisms	integral to plasma membrane|membrane fraction	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			ovary(2)	2	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;5.73e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00419)|Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			CCATCCACTGCACACCTTTGG	0.408													15	68					0	0	0.006122	0	0		T	42323320	T	T	42323320	2	4	61	1	0	0	0	0	0	0	0	1	14464	697	25	2		2	SLC20A2	8	42323320	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4618691	42323320	104040702	390	42396											
PXDNL	137902	broad.mit.edu	37	chr8	52284448	52284448	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacctgcacagcagtcttGccacactcgcaggtccacct	8	8	8	17	1	1	1	0	1	1	0	3	1	2	1	4	1	3	3	4	1	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:52284448G>T	uc003xqu.3	-	19	3987	c.3886C>A	c.(3886-3888)CAA>AAA	p.Q1296K	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1296					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CAGCAGTCTTGCCACACTCGC	0.468													4	19					1.23904e-05	1.32406e-05	0.000602	1	0		T	52284448	T	T	52284448	3	4	61	1	0	0	0	0	1	0	0	0	12873	1328	46	5	525	5	PXDNL	8	52284448	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	9961128	52284448	94079574	391	42397											
ATP6V1H	51606	broad.mit.edu	37	chr8	54742014	54742014	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatacctacctgcagcataTcatccaccatagttagtata	14	12	4	11	0	1	0	1	0	0	0	2	0	2	0	4	0	4	4	4	0	8	8			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:54742014T>A	uc003xrl.2	-	4	448	c.296A>T	c.(295-297)GAT>GTT	p.D99V	ATP6V1H_uc003xrk.2_Missense_Mutation_p.D59V|ATP6V1H_uc003xrm.2_Missense_Mutation_p.D99V|ATP6V1H_uc003xrn.2_Missense_Mutation_p.D99V|ATP6V1H_uc011ldv.1_Missense_Mutation_p.D19V|ATP6V1H_uc010lyd.2_Missense_Mutation_p.D35V	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	99					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)			CTGCAGCATATCATCCACCAT	0.318													11	54					0	0	0.010729	0	0		A	54742014	A	A	54742014	3	1	61	1	0	0	0	0	1	0	0	0	1190	1435	50	5	1199	5	ATP6V1H	8	54742014	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	2457566	54742014	91622008	392	42398											
RP1	6101	broad.mit.edu	37	chr8	55537789	55537789	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcatcgtttttataggccCcctacacctggactaagaag	12	10	8	11	1	0	1	0	0	0	1	1	2	0	2	3	2	2	2	3	2	6	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:55537789C>T	uc003xsd.1	+	4	1495	c.1347C>T	c.(1345-1347)CCC>CCT	p.P449P	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	449					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TTTATAGGCCCCCTACACCTG	0.438													15	64					0	0	0.00245	0	0		T	55537789	T	T	55537789	2	4	61	1	0	0	0	0	0	0	0	1	13557	610	22	4		4	RP1	8	55537789	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	795775	55537789	90826233	393	42399											
MOS	4342	broad.mit.edu	37	chr8	57025637	57025637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggagcgagtcctcgaagacgGcagcggagagggacgggcgc	9	2	20	10	6	0	2	0	0	0	2	2	7	1	4	1	5	2	1	1	5	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:57025637G>A	uc011leb.1	-	1	905	c.905C>T	c.(904-906)GCC>GTC	p.A302V		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	302	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			CTCGAAGACGGCAGCGGAGAG	0.687													8	37					0	0	0.004482	0	0		A	57025637	A	A	57025637	3	1	61	1	0	0	0	0	1	0	0	0	9730	1203	42	2	138	2	MOS	8	57025637	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1487848	57025637	89338385	394	42400											
VCPIP1	80124	broad.mit.edu	37	chr8	67577678	67577678	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagggaaagctgtaattttTgtcagtcctcagctgtccat	10	13	9	9	0	2	0	2	0	0	0	4	1	4	1	2	1	2	3	2	1	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:67577678T>C	uc003xwn.2	-	1	1775	c.1516A>G	c.(1516-1518)AAA>GAA	p.K506E	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	506					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			CTGTAATTTTTGTCAGTCCTC	0.423													33	160					0	0	0.009535	0	0		C	67577678	C	C	67577678	3	2	61	1	0	0	0	0	1	0	0	0	17167	1821	63	3	2164	3	VCPIP1	8	67577678	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	10552041	67577678	78786344	395	42401											
SLCO5A1	81796	broad.mit.edu	37	chr8	70617426	70617426	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttataatgtagcctccgaGgacaataccaacaccagcac	14	9	6	12	1	0	0	0	0	0	0	1	2	1	1	4	1	4	2	4	1	6	5	rs138620020		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:70617426G>T	uc003xyl.2	-	6	2169	c.1462C>A	c.(1462-1464)CTC>ATC	p.L488I	SLCO5A1_uc010lzb.2_Missense_Mutation_p.L433I|SLCO5A1_uc011lfa.1_Intron|SLCO5A1_uc003xyk.2_Missense_Mutation_p.L488I|SLCO5A1_uc010lzc.2_Missense_Mutation_p.L433I	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	488	Helical; Name=8; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			TAGCCTCCGAGGACAATACCA	0.398													10	60					3.86212e-05	4.0859e-05	0.008291	1	0		T	70617426	T	T	70617426	3	4	61	1	0	0	0	0	1	0	0	0	14756	1000	35	5	1104	5	SLCO5A1	8	70617426	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3039748	70617426	75746596	396	42402											
GDAP1	54332	broad.mit.edu	37	chr8	75276270	75276270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccttcaccctggcagacGtctcactcgctgtcacattg	8	11	7	15	2	3	1	3	0	1	1	6	1	4	1	2	1	0	2	2	1	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:75276270G>A	uc003yah.2	+	6	824	c.745G>A	c.(745-747)GTC>ATC	p.V249I	GDAP1_uc011lfj.1_Missense_Mutation_p.V134I|GDAP1_uc003yai.2_Missense_Mutation_p.V181I	NM_018972	NP_061845	Q8TB36	GDAP1_HUMAN	ganglioside-induced differentiation-associated	249	GST C-terminal.					cytoplasm					0	Breast(64;0.00769)	Myeloproliferative disorder(644;0.0122)	BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.104)|all cancers(69;0.234)			CCTGGCAGACGTCTCACTCGC	0.502													7	35					0	0	0.001984	0	0		A	75276270	A	A	75276270	3	1	61	1	0	0	0	0	1	0	0	0	6322	1145	40	1	767	1	GDAP1	8	75276270	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4658844	75276270	71087752	397	42403											
RBM12B	389677	broad.mit.edu	37	chr8	94746562	94746562	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtcatcctcgggtggtcGcctccattctccctgaagag	7	10	11	13	2	2	2	1	1	1	1	7	3	4	2	4	2	0	0	4	2	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:94746562G>A	uc003yfz.2	-	3	2270	c.2077C>T	c.(2077-2079)CGA>TGA	p.R693*		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	693							nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			TCGGGTGGTCGCCTCCATTCT	0.627													27	144					0	0	0.007291	0	0		A	94746562	A	A	94746562	4	1	61	1	0	0	0	0	0	1	0	0	13139	1095	38	1	932	1	RBM12B	8	94746562	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	19470292	94746562	51617460	398	42404											
INTS8	55656	broad.mit.edu	37	chr8	95837172	95837172	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggaacaggcttccaaacCttcagttaatgaacaaaacc	15	10	6	10	0	1	1	1	1	0	0	2	2	2	2	3	2	4	2	3	2	6	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:95837172C>A	uc003yhb.2	+	2	308	c.182C>A	c.(181-183)CCT>CAT	p.P61H	INTS8_uc003yha.1_Missense_Mutation_p.P61H|INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	61					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					GCTTCCAAACCTTCAGTTAAT	0.328													5	46					3.59834e-05	3.81827e-05	0.001168	1	0		A	95837172	A	A	95837172	3	1	61	1	0	0	0	0	1	0	0	0	7800	681	24	5	188	5	INTS8	8	95837172	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1090610	95837172	50526850	399	42405											
KCNS2	3788	broad.mit.edu	37	chr8	99440481	99440481	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacaccggcaagcttcacGtcatggctgagctatgtgtc	9	10	10	12	2	3	1	3	1	0	0	4	1	3	1	1	2	2	4	1	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:99440481G>A	uc003yin.2	+	2	624	c.274G>A	c.(274-276)GTC>ATC	p.V92I		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	92	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			CAAGCTTCACGTCATGGCTGA	0.547													12	56					0	0	0.001855	0	0		A	99440481	A	A	99440481	3	1	61	1	0	0	0	0	1	0	0	0	8105	1145	40	1	276	1	KCNS2	8	99440481	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3603309	99440481	46923541	400	42406											
RRM2B	50484	broad.mit.edu	37	chr8	103220371	103220371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaggttttttaaaaatctGcatccaaggtgaagacgtta	15	12	9	5	1	1	3	0	1	1	2	2	3	2	3	1	2	1	3	1	2	7	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:103220371G>A	uc003ykn.2	-	9	1290	c.1046C>T	c.(1045-1047)GCA>GTA	p.A349V	RRM2B_uc003yko.2_RNA|RRM2B_uc010mbv.1_Missense_Mutation_p.A297V|RRM2B_uc010mbw.1_Missense_Mutation_p.A137V|RRM2B_uc010mbx.1_RNA|RRM2B_uc010mby.1_RNA	NM_015713	NP_056528	Q7LG56	RIR2B_HUMAN	ribonucleotide reductase M2 B (TP53 inducible)	349					deoxyribonucleoside diphosphate metabolic process|DNA repair|nucleobase, nucleoside and nucleotide interconversion	nucleoplasm	ribonucleoside-diphosphate reductase activity|transition metal ion binding			ovary(2)	2	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000728)			TTAAAAATCTGCATCCAAGGT	0.308								Direct_reversal_of_damage|Modulation_of_nucleotide_pools					17	40					0	0	0.006122	0	0		A	103220371	A	A	103220371	3	1	61	1	0	0	0	0	1	0	0	0	13708	1319	46	2	13	2	RRM2B	8	103220371	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3779890	103220371	43143651	401	42407											
UBR5	51366	broad.mit.edu	37	chr8	103289205	103289205	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcttagcaaatacctgaaAgatgtgagaggtggcccttc	11	10	12	8	0	1	3	0	2	1	2	2	4	1	3	2	3	2	1	2	3	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:103289205A>G	uc003ykr.1	-	45	6537	c.6504T>C	c.(6502-6504)TCT>TCC	p.S2168S	UBR5_uc003yks.1_Silent_p.S2168S	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	2168					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			AATACCTGAAAGATGTGAGAG	0.378													8	51					0	0	0.00308	0	0		G	103289205	G	G	103289205	2	3	61	1	0	0	0	0	0	0	0	1	16931	59	3	3		3	UBR5	8	103289205	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	68834	103289205	43074817	402	42408											
AZIN1	51582	broad.mit.edu	37	chr8	103855874	103855874	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgcatcatcaataaatcCtttcatctcagccgtattcc	10	15	4	12	1	4	0	4	0	1	0	7	0	6	0	3	0	2	3	3	0	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:103855874C>A	uc003ykx.2	-	4	749	c.7G>T	c.(7-9)GGA>TGA	p.G3*	AZIN1_uc003yky.2_Nonsense_Mutation_p.G3*	NM_015878	NP_056962	O14977	AZIN1_HUMAN	ornithine decarboxylase antizyme inhibitor	3					polyamine biosynthetic process|regulation of cellular amino acid metabolic process	cytosol	catalytic activity|protein binding				0	Lung NSC(17;0.000143)|all_lung(17;0.000294)		OV - Ovarian serous cystadenocarcinoma(57;0.000196)|STAD - Stomach adenocarcinoma(118;0.0414)			TCAATAAATCCTTTCATCTCA	0.418													5	54					5.9392e-07	6.44428e-07	0.001168	1	0		A	103855874	A	A	103855874	4	1	61	1	0	0	0	0	0	1	0	0	1243	690	24	5	1379	5	AZIN1	8	103855874	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	566669	103855874	42508148	403	42409											
LRP12	29967	broad.mit.edu	37	chr8	105503269	105503269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taatgtaaaacgtacccagcGtagcccctgagtcatacgac	13	8	8	12	3	1	1	1	1	0	0	1	2	1	1	3	0	5	3	3	0	6	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:105503269G>A	uc003yma.2	-	7	2307	c.2212C>T	c.(2212-2214)CGC>TGC	p.R738C	LRP12_uc003ymb.2_Missense_Mutation_p.R719C|LRP12_uc003ylz.2_Missense_Mutation_p.R144C	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	738	Cytoplasmic (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CGTACCCAGCGTAGCCCCTGA	0.478													14	55					0	0	0.003163	0	0		A	105503269	A	A	105503269	3	1	61	1	0	0	0	0	1	0	0	0	8972	1145	40	1	371	1	LRP12	8	105503269	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1647395	105503269	40860753	404	42410											
EFR3A	23167	broad.mit.edu	37	chr8	133015532	133015532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatattggaactcaccatacGgtaagggttttgttatcaca	13	13	8	7	1	2	0	2	0	0	0	2	1	2	1	1	3	2	3	1	3	6	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:133015532G>A	uc003yte.2	+	22	2561	c.2360G>A	c.(2359-2361)CGT>CAT	p.R787H		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	787						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			CTCACCATACGGTAAGGGTTT	0.328													10	53					0	0	0.008291	0	0		A	133015532	A	A	133015532	3	1	61	1	0	0	0	0	1	0	0	0	4964	1130	39	1	2446	1	EFR3A	8	133015532	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	27512263	133015532	13348490	405	42411											
KCNK9	51305	broad.mit.edu	37	chr8	140631097	140631097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcacactgggagaaggCggccgccccgatgcacagcg	8	4	13	16	4	1	1	1	0	0	1	2	3	2	1	4	3	2	1	4	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:140631097C>T	uc003yvf.1	-	2	593	c.529G>A	c.(529-531)GCC>ACC	p.A177T	KCNK9_uc003yvg.1_Missense_Mutation_p.A177T|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	177	Helical; (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			TGGGAGAAGGCGGCCGCCCCG	0.572													9	41					0	0	0.004482	0	0		T	140631097	T	T	140631097	3	4	61	1	0	0	0	0	1	0	0	0	8088	768	27	1	599	1	KCNK9	8	140631097	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	7615565	140631097	5732925	406	42412											
EPPK1	83481	broad.mit.edu	37	chr8	144945087	144945087	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcgctccagaagctgcaGgtacgtgaggttctcgtgcg	8	8	14	11	4	1	2	0	1	1	1	3	2	2	2	1	2	5	5	1	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:144945087G>T	uc003zaa.1	-	1	2348	c.2335C>A	c.(2335-2337)CTG>ATG	p.L779M		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	779	Plectin 15.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			AGAAGCTGCAGGTACGTGAGG	0.617													11	59					0.000978159	0.00101656	0.010729	1	0		T	144945087	T	T	144945087	3	4	61	1	0	0	0	0	1	0	0	0	5198	991	35	5	4931	5	EPPK1	8	144945087	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4313990	144945087	1418935	407	42413											
PLEC	5339	broad.mit.edu	37	chr8	144999695	144999695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccccctcagccccgccacGctggcgctcggtggcctcca	3	6	10	22	4	1	0	1	0	0	0	4	0	3	0	7	3	1	2	7	3	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:144999695G>A	uc003zaf.1	-	31	4983	c.4813C>T	c.(4813-4815)CGT>TGT	p.R1605C	PLEC_uc003zab.1_Missense_Mutation_p.R1468C|PLEC_uc003zac.1_Missense_Mutation_p.R1472C|PLEC_uc003zad.2_Missense_Mutation_p.R1468C|PLEC_uc003zae.1_Missense_Mutation_p.R1436C|PLEC_uc003zag.1_Missense_Mutation_p.R1446C|PLEC_uc003zah.2_Missense_Mutation_p.R1454C|PLEC_uc003zaj.2_Missense_Mutation_p.R1495C	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	1605	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GCCCCGCCACGCTGGCGCTCG	0.731													3	14					0	0	0.004672	0	0		A	144999695	A	A	144999695	3	1	61	1	0	0	0	0	1	0	0	0	12071	1087	38	1	9249	1	PLEC	8	144999695	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	54608	144999695	1364327	408	42414											
SLC39A4	55630	broad.mit.edu	37	chr8	145638296	145638296	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagcagtgcttggcgcacGgacagccccgcgtgcagcaa	9	4	14	14	4	0	0	0	0	0	0	0	1	0	1	2	2	6	6	2	2	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:145638296G>A	uc003zcq.2	-	11	1762	c.1662C>T	c.(1660-1662)TCC>TCT	p.S554S	SLC39A4_uc003zcm.1_Silent_p.S56S|SLC39A4_uc003zcn.2_Silent_p.S56S|SLC39A4_uc003zco.2_Silent_p.S278S|SLC39A4_uc003zcp.2_Silent_p.S529S	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	554	Cytoplasmic (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|recycling endosome membrane	zinc ion transmembrane transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			CTTGGCGCACGGACAGCCCCG	0.672													4	17					0	0	0.009096	0	0		A	145638296	A	A	145638296	2	1	61	1	0	0	0	0	0	0	0	1	14645	1103	39	1		1	SLC39A4	8	145638296	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	638601	145638296	725726	409	42415											
KIAA0020	9933	broad.mit.edu	37	chr9	2829847	2829847	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctccaaaatggctttgtcaTtgtatgcgtactccacgatg	9	13	9	10	2	1	0	1	0	0	0	3	1	3	0	2	1	2	4	2	1	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:2829847T>C	uc003zhp.1	-	8	875	c.779A>G	c.(778-780)AAT>AGT	p.N260S	KIAA0020_uc010mhc.1_Missense_Mutation_p.N259S|KIAA0020_uc003zhq.1_Missense_Mutation_p.N259S	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	260	Pumilio 3.|PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		GGCTTTGTCATTGTATGCGTA	0.458													35	172					0	0	0.003755	0	0		C	2829847	C	C	2829847	3	2	61	1	0	0	0	0	1	0	0	0	8168	1493	52	3	1211	3	KIAA0020	9	2829847	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08		2829847	138383584	410	42416											
RFX3	5991	broad.mit.edu	37	chr9	3225156	3225156	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttggttgcacgccagtctcGagaacaggctgcatgcagcc	8	8	12	13	2	1	1	0	0	1	1	2	2	1	1	2	2	5	5	2	2	1	2	rs113424988		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:3225156G>A	uc003zhr.2	-	18	2448	c.2136C>T	c.(2134-2136)CTC>CTT	p.L712L	RFX3_uc010mhd.2_Silent_p.L712L	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	712					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		CGCCAGTCTCGAGAACAGGCT	0.498													7	34					0	0	0.001984	0	0		A	3225156	A	A	3225156	2	1	61	1	0	0	0	0	0	0	0	1	13289	1045	37	1		1	RFX3	9	3225156	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	395309	3225156	137988275	411	42417											
GLIS3	169792	broad.mit.edu	37	chr9	4118080	4118080	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctccgggtggtgaaggtgCgcatgggcatggtaaggggg	7	7	21	6	2	0	1	0	1	0	0	1	1	1	1	1	7	2	4	1	7	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:4118080C>T	uc003zhw.1	-	3	1127	c.933G>A	c.(931-933)GCG>GCA	p.A311A	GLIS3_uc003zhx.1_Silent_p.A466A|GLIS3_uc003zic.1_Silent_p.A466A|GLIS3_uc003zie.1_Silent_p.A466A|GLIS3_uc010mhh.1_Silent_p.A341A|GLIS3_uc003zid.1_Silent_p.A244A|GLIS3_uc010mhi.1_Silent_p.A273A|GLIS3_uc003zif.1_Silent_p.A244A|GLIS3_uc003zig.1_Silent_p.A310A|GLIS3_uc003zih.1_Silent_p.A244A|GLIS3_uc003zhy.1_Silent_p.A244A|GLIS3_uc003zhz.1_Silent_p.A244A|GLIS3_uc003zib.1_Silent_p.A310A|GLIS3_uc010mhg.1_Silent_p.A244A	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	311					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		GGTGAAGGTGCGCATGGGCAT	0.507													9	32					0	0	0.006214	0	0		T	4118080	T	T	4118080	2	4	61	1	0	0	0	0	0	0	0	1	6462	755	27	1		1	GLIS3	9	4118080	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	892924	4118080	137095351	412	42418											
JAK2	3717	broad.mit.edu	37	chr9	5072572	5072572	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagactacggtcaactgcaTgaaacagaagttcttttaaa	15	10	9	7	1	2	3	1	1	1	2	2	4	2	3	0	2	4	2	0	2	6	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:5072572T>C	uc010mhm.2	+	12	1835	c.1722T>C	c.(1720-1722)CAT>CAC	p.H574H	JAK2_uc003ziw.2_Silent_p.H574H	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	574	Protein kinase 1.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		GTCAACTGCATGAAACAGAAG	0.353		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				13	38					0	0	0.013537	0	0		C	5072572	C	C	5072572	2	2	61	1	0	0	0	0	0	0	0	1	7954	1461	51	3		3	JAK2	9	5072572	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	954492	5072572	136140859	413	42419											
MPDZ	8777	broad.mit.edu	37	chr9	13150616	13150616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacttctccattgcttagcCgactccccatccctcgtcca	6	12	4	19	2	2	0	1	0	1	0	7	1	5	0	6	0	2	1	6	0	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:13150616C>T	uc010mia.1	-	24	3581	c.3524G>A	c.(3523-3525)CGG>CAG	p.R1175Q	MPDZ_uc010mhx.2_Missense_Mutation_p.R67Q|MPDZ_uc011lmm.1_Missense_Mutation_p.R67Q|MPDZ_uc003zkz.3_Intron|MPDZ_uc010mhy.2_Missense_Mutation_p.R1175Q|MPDZ_uc010mhz.2_Missense_Mutation_p.R1175Q|MPDZ_uc011lmn.1_Missense_Mutation_p.R1175Q|MPDZ_uc003zlb.3_Missense_Mutation_p.R1175Q	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1175	PDZ 7.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		ATTGCTTAGCCGACTCCCCAT	0.418													16	70					0	0	0.003163	0	0		T	13150616	T	T	13150616	3	4	61	1	0	0	0	0	1	0	0	0	9740	652	23	1	2689	1	MPDZ	9	13150616	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	8078044	13150616	128062815	414	42420											
FREM1	158326	broad.mit.edu	37	chr9	14813042	14813042	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcctttaagactggtggCtcatcgttgacagggaatac	10	11	11	9	1	2	2	2	1	0	1	3	3	2	3	1	3	2	2	1	3	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:14813042C>T	uc003zlm.2	-	16	3251	c.2661G>A	c.(2659-2661)GAG>GAA	p.E887E	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	887	CSPG 6.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		AGACTGGTGGCTCATCGTTGA	0.418													19	69					0	0	0.008871	0	0		T	14813042	T	T	14813042	2	4	61	1	0	0	0	0	0	0	0	1	6058	796	28	2		2	FREM1	9	14813042	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1662426	14813042	126400389	415	42421											
IFNA13	3447	broad.mit.edu	37	chr9	21367455	21367455	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttattccttcctccttaaTctttcttgcaagtttgttga	6	21	5	9	0	2	1	0	1	2	0	5	1	5	1	3	0	1	4	3	0	3	8			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:21367455T>C	uc003zpa.2	-	1	621	c.555A>G	c.(553-555)AGA>AGG	p.R185R		NM_006900	NP_008831	P01562	IFNA1_HUMAN	interferon, alpha 13 precursor	184					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			ovary(1)	1				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.0173)		TCCTCCTTAATCTTTCTTGCA	0.413													12	135					0	0	0.00245	0	0		C	21367455	C	C	21367455	2	2	61	1	0	0	0	0	0	0	0	1	7549	1432	50	3		3	IFNA13	9	21367455	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	6554413	21367455	119845976	416	42422											
TLN1	7094	broad.mit.edu	37	chr9	35713993	35713993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgccatctcgagctgctGccttcacttcctgtagatct	5	14	8	14	1	3	1	1	0	2	1	5	2	4	1	3	0	4	4	3	0	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:35713993G>A	uc003zxt.2	-	25	3560	c.3206C>T	c.(3205-3207)GCA>GTA	p.A1069V		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1069					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TCGAGCTGCTGCCTTCACTTC	0.453													6	57					0	0	0.001984	0	0		A	35713993	A	A	35713993	3	1	61	1	0	0	0	0	1	0	0	0	15972	1319	46	2	4551	2	TLN1	9	35713993	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	14346538	35713993	105499438	417	42423											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													8	68					0	0	0.006214	0	0		G	70993145	G	G	70993145	3	3	61	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	35279152	70993145	70220286	418	42424											
TRPM3	80036	broad.mit.edu	37	chr9	73233803	73233803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgaggcctgagttcttgcGcatgcggagccggcccatcc	5	9	13	14	3	1	2	0	2	1	0	2	3	2	3	4	3	3	2	4	3	0	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:73233803G>A	uc004aid.2	-	16	2546	c.2302C>T	c.(2302-2304)CGC>TGC	p.R768C	TRPM3_uc004ahu.2_Missense_Mutation_p.R598C|TRPM3_uc004ahv.2_Missense_Mutation_p.R570C|TRPM3_uc004ahw.2_Missense_Mutation_p.R640C|TRPM3_uc004ahx.2_Missense_Mutation_p.R627C|TRPM3_uc004ahy.2_Missense_Mutation_p.R630C|TRPM3_uc004ahz.2_Missense_Mutation_p.R617C|TRPM3_uc004aia.2_Missense_Mutation_p.R615C|TRPM3_uc004aib.2_Missense_Mutation_p.R605C|TRPM3_uc004aic.2_Missense_Mutation_p.R768C	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	793	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GAGTTCTTGCGCATGCGGAGC	0.622													7	41					0	0	0.00308	0	0		A	73233803	A	A	73233803	3	1	61	1	0	0	0	0	1	0	0	0	16613	1087	38	1	2861	1	TRPM3	9	73233803	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2240658	73233803	67979628	419	42425											
GNAQ	2776	broad.mit.edu	37	chr9	80336284	80336284	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaactggaggatggtgtcCttgacggcagcaaagacaaa	13	8	12	8	1	1	2	1	1	0	1	2	4	2	4	1	4	2	2	1	4	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:80336284C>A	uc004akw.2	-	7	1076	c.1035G>T	c.(1033-1035)AAG>AAT	p.K345N	GNAQ_uc011lso.1_Missense_Mutation_p.K143N|GNAQ_uc004akv.1_5'Flank	NM_002072	NP_002063	P50148	GNAQ_HUMAN	guanine nucleotide binding protein (G protein),	345					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|glutamate signaling pathway|negative regulation of protein kinase activity|platelet activation|protein ADP-ribosylation|protein stabilization|regulation of action potential|regulation of catenin import into nucleus	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activator activity|GTPase activity|signal transducer activity			eye(136)|skin(44)|meninges(11)|ovary(1)|kidney(1)	193						GGATGGTGTCCTTGACGGCAG	0.517			Mis		uveal melanoma								10	41					1.58986e-06	1.71278e-06	0.008291	1	0		A	80336284	A	A	80336284	3	1	61	1	0	0	0	0	1	0	0	0	6524	680	24	5	48	5	GNAQ	9	80336284	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	7102481	80336284	60877147	420	42426											
CDK20	23552	broad.mit.edu	37	chr9	90585494	90585494	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtctcaccacagatcgacGccctggtcatactggcgggc	7	7	13	14	3	2	1	2	0	1	1	4	2	2	1	2	4	1	0	2	4	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:90585494G>A	uc004apr.2	-	5	858	c.552C>T	c.(550-552)GGC>GGT	p.G184G	CDK20_uc004aps.2_Intron|CDK20_uc004apt.2_Intron|CDK20_uc004apu.2_Intron	NM_001039803	NP_001034892	Q8IZL9	CDK20_HUMAN	cell cycle related kinase isoform 3	184	Protein kinase.				cell division|multicellular organismal development	cilium|mitochondrion|nucleus	ATP binding|cyclin-dependent protein kinase activity			skin(1)	1						ACAGATCGACGCCCTGGTCAT	0.592													6	17					0	0	0.001984	0	0		A	90585494	A	A	90585494	2	1	61	1	0	0	0	0	0	0	0	1	3140	1074	38	1		1	CDK20	9	90585494	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	10249210	90585494	50627937	421	42427											
ASPN	54829	broad.mit.edu	37	chr9	95228784	95228784	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggacagatacagccttcGcaacttctttgtggttagaa	10	12	11	8	1	1	2	0	0	1	2	2	3	1	3	1	2	3	2	1	2	4	5	rs143358512	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:95228784G>A	uc004ase.1	-	4	701	c.457C>T	c.(457-459)CGA>TGA	p.R153*	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ASPN_uc010mqy.1_Nonsense_Mutation_p.R153*	NM_017680	NP_060150	Q9BXN1	ASPN_HUMAN	asporin precursor	153	LRR 3.				bone mineralization|negative regulation of tooth mineralization|negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	calcium ion binding				0						TACAGCCTTCGCAACTTCTTT	0.358													18	106					0	0	0.006122	0	0		A	95228784	A	A	95228784	4	1	61	1	0	0	0	0	0	1	0	0	1058	1095	38	1	705	1	ASPN	9	95228784	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4643290	95228784	45984647	422	42428											
ANKS6	203286	broad.mit.edu	37	chr9	101552769	101552769	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcttccaggagcagcttcAccacacccaggtggccgccc	7	5	11	18	2	1	0	1	0	0	0	2	1	2	1	5	4	2	3	5	4	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:101552769A>G	uc004ayu.2	-	2	500	c.479T>C	c.(478-480)GTG>GCG	p.V160A	ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	160	ANK 4.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				GAGCAGCTTCACCACACCCAG	0.637													3	14					0	0	0.004672	0	0		G	101552769	G	G	101552769	3	3	61	1	0	0	0	0	1	0	0	0	692	159	6	3	2192	3	ANKS6	9	101552769	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	6323985	101552769	39660662	423	42429											
IKBKAP	8518	broad.mit.edu	37	chr9	111644449	111644449	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctccttctaacagcaagaGcacagcttcttcataatcct	12	11	5	13	0	3	1	1	0	2	1	5	1	5	1	2	0	5	4	2	0	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:111644449G>T	uc004bdm.3	-	30	3761	c.3241C>A	c.(3241-3243)CTC>ATC	p.L1081I	IKBKAP_uc004bdl.2_Missense_Mutation_p.L732I|IKBKAP_uc011lwc.1_Missense_Mutation_p.L967I|IKBKAP_uc010mtq.2_Missense_Mutation_p.L732I|IKBKAP_uc004bdk.2_Missense_Mutation_p.L85I|IKBKAP_uc010mtp.2_RNA	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	1081					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						AACAGCAAGAGCACAGCTTCT	0.458													9	57					7.48243e-07	8.09386e-07	0.006214	1	0		T	111644449	T	T	111644449	3	4	61	1	0	0	0	0	1	0	0	0	7626	971	34	5	789	5	IKBKAP	9	111644449	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	10091680	111644449	29568982	424	42430											
CTNNAL1	8727	broad.mit.edu	37	chr9	111746708	111746708	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgcctttttcttttcatcTttcaaatcctaaatatgaaa	11	20	2	8	0	4	1	2	1	2	0	5	1	5	1	2	0	1	0	2	0	5	8			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:111746708T>A	uc004bdo.1	-	5	690	c.648A>T	c.(646-648)AAA>AAT	p.K216N	CTNNAL1_uc010mts.1_5'Flank|CTNNAL1_uc010mtt.1_Missense_Mutation_p.K216N|CTNNAL1_uc004bdp.1_Missense_Mutation_p.K216N	NM_003798	NP_003789	Q9UBT7	CTNL1_HUMAN	catenin, alpha-like 1	216					cell adhesion|Rho protein signal transduction	actin cytoskeleton|cytosol|plasma membrane	cadherin binding|structural molecule activity			ovary(1)	1				STAD - Stomach adenocarcinoma(157;0.0768)		TCTTTTCATCTTTCAAATCCT	0.333													11	68					0	0	0.008291	0	0		A	111746708	A	A	111746708	3	1	61	1	0	0	0	0	1	0	0	0	4018	1606	56	5	1616	5	CTNNAL1	9	111746708	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	102259	111746708	29466723	425	42431											
RGS3	5998	broad.mit.edu	37	chr9	116269637	116269637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaagccaggaccagatggcGgggtcctgcggcgggcctcc	6	5	16	14	3	1	1	1	0	0	1	3	2	3	2	5	6	2	0	5	6	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:116269637G>A	uc004bhq.2	+	14	1365	c.1156G>A	c.(1156-1158)GGG>AGG	p.G386R	RGS3_uc004bhr.2_Missense_Mutation_p.G274R|RGS3_uc004bhs.2_Missense_Mutation_p.G276R|RGS3_uc004bht.2_Missense_Mutation_p.G105R|RGS3_uc010muy.2_Missense_Mutation_p.G105R|RGS3_uc004bhu.2_Missense_Mutation_p.G12R	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	386					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						ACCAGATGGCGGGGTCCTGCG	0.632													6	24					0	0	0.001984	0	0		A	116269637	A	A	116269637	3	1	61	1	0	0	0	0	1	0	0	0	13331	1116	39	1	1347	1	RGS3	9	116269637	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4522929	116269637	24943794	426	42432											
C9orf91	203197	broad.mit.edu	37	chr9	117405501	117405501	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctcaggcaatggggacaCgacacacgaactctccgaga	12	5	10	14	3	2	1	1	0	1	1	4	5	3	2	2	3	1	1	2	3	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:117405501C>T	uc004bjd.3	+	9	1154	c.937C>T	c.(937-939)CGA>TGA	p.R313*	C9orf91_uc004bje.3_Nonsense_Mutation_p.R292*|C9orf91_uc004bjf.3_Nonsense_Mutation_p.R212*	NM_153045	NP_694590	Q5VZI3	CI091_HUMAN	hypothetical protein LOC203197	313						integral to membrane				pancreas(1)	1						AATGGGGACACGACACACGAA	0.597													15	73					0	0	0.00245	0	0		T	117405501	T	T	117405501	4	4	61	1	0	0	0	0	0	1	0	0	2508	528	19	1	967	1	C9orf91	9	117405501	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1135864	117405501	23807930	427	42433											
TNC	3371	broad.mit.edu	37	chr9	117846648	117846648	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccaccctcgtgggtgggCgtgtacacgacaaggtactc	9	7	13	12	3	0	1	0	0	0	1	2	2	0	1	2	3	2	2	2	3	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:117846648C>T	uc004bjj.3	-	4	2333	c.1971G>A	c.(1969-1971)ACG>ACA	p.T657T	TNC_uc010mvf.2_Silent_p.T657T	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	657	Fibronectin type-III 1.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CGTGGGTGGGCGTGTACACGA	0.577													18	49					0	0	0.00499	0	0		T	117846648	T	T	117846648	2	4	61	1	0	0	0	0	0	0	0	1	16295	755	27	1		1	TNC	9	117846648	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	441147	117846648	23366783	428	42434											
OR1J4	26219	broad.mit.edu	37	chr9	125281745	125281745	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttcatatttttcactgAtctagacaatttccttctca	9	21	2	9	0	4	2	3	1	2	1	6	2	5	2	1	0	0	0	1	0	3	9			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:125281745A>G	uc011lyw.1	+	1	326	c.326A>G	c.(325-327)GAT>GGT	p.D109G		NM_001004452	NP_001004452	Q8NGS1	OR1J4_HUMAN	olfactory receptor, family 1, subfamily J,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTTTTCACTGATCTAGACAAT	0.418													24	111					0	0	0.00333	0	0		G	125281745	G	G	125281745	3	3	61	1	0	0	0	0	1	0	0	0	10980	333	12	3	328	3	OR1J4	9	125281745	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	7435097	125281745	15931686	429	42435											
LHX2	9355	broad.mit.edu	37	chr9	126783526	126783526	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccattaaccacaaccccgaCgccaaggacttgaagcagct	13	5	8	15	2	0	1	0	1	0	0	0	3	0	2	5	1	4	2	5	1	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:126783526C>T	uc004boe.1	+	4	1615	c.876C>T	c.(874-876)GAC>GAT	p.D292D	LHX2_uc010mwi.1_Silent_p.D300D	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	292	Homeobox.					nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ACAACCCCGACGCCAAGGACT	0.607													5	36					0	0	0.001168	0	0		T	126783526	T	T	126783526	2	4	61	1	0	0	0	0	0	0	0	1	8787	535	19	1		1	LHX2	9	126783526	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1501781	126783526	14429905	430	42436											
LRSAM1	90678	broad.mit.edu	37	chr9	130223460	130223460	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctttcttaggtcttaaaCgtggaaaggaatcaactgat	12	13	8	8	1	4	1	1	1	3	0	4	3	4	3	1	3	2	0	1	3	6	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:130223460C>T	uc004brb.1	+	8	675	c.330C>T	c.(328-330)AAC>AAT	p.N110N	LRSAM1_uc010mxk.1_Silent_p.N110N|LRSAM1_uc004brc.1_Silent_p.N110N|LRSAM1_uc004brd.1_Silent_p.N110N	NM_001005373	NP_001005373	Q6UWE0	LRSM1_HUMAN	leucine rich repeat and sterile alpha motif	110	LRR 4.				negative regulation of endocytosis|non-lytic virus budding|protein autoubiquitination|protein catabolic process|protein polyubiquitination|protein transport|ubiquitin-dependent endocytosis	cytoplasm|extracellular region|membrane part	hormone activity|ubiquitin-protein ligase activity|zinc ion binding				0						AGGTCTTAAACGTGGAAAGGA	0.323													10	62					0	0	0.008291	0	0		T	130223460	T	T	130223460	2	4	61	1	0	0	0	0	0	0	0	1	9061	535	19	1		1	LRSAM1	9	130223460	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3439934	130223460	10989971	431	42437											
C9orf119	375757	broad.mit.edu	37	chr9	131038608	131038608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgcacctgagaggtcgctctCcgactcccgcgctggaccct	5	8	11	17	4	1	1	0	1	1	1	4	4	2	2	4	2	1	3	4	2	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:131038608C>T	uc004bup.2	+	1	184	c.184C>T	c.(184-186)CCG>TCG	p.P62S	GOLGA2_uc011maw.1_5'Flank|GOLGA2_uc010mxw.2_5'Flank|GOLGA2_uc004bul.1_5'Flank|C9orf119_uc010mxx.1_Missense_Mutation_p.P62S	NM_001040011	NP_001035100	Q1ZZU3	SWI5_HUMAN	hypothetical protein LOC375757	62					double-strand break repair via homologous recombination	Swi5-Sfr1 complex	protein binding				0						AGGTCGCTCTCCGACTCCCGC	0.682													6	14					0	0	0.001984	0	0		T	131038608	T	T	131038608	3	4	61	1	0	0	0	0	1	0	0	0	2455	855	30	4	186	4	C9orf119	9	131038608	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	815148	131038608	10174823	432	42438											
FAM73B	84895	broad.mit.edu	37	chr9	131830576	131830576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcggtgctcgccgtcctgCggaaccgctggctgtcagac	4	8	13	16	5	1	1	1	0	0	1	4	2	2	2	4	3	3	3	4	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:131830576C>T	uc004bxa.2	+	13	1555	c.1369C>T	c.(1369-1371)CGG>TGG	p.R457W	FAM73B_uc004bwy.2_RNA|FAM73B_uc004bwz.2_RNA|FAM73B_uc011mbn.1_Missense_Mutation_p.R457W|FAM73B_uc004bxb.2_5'Flank	NM_032809	NP_116198	Q7L4E1	FA73B_HUMAN	hypothetical protein LOC84895	457						integral to membrane				skin(1)	1						CGCCGTCCTGCGGAACCGCTG	0.617													8	39					0	0	0.004482	0	0		T	131830576	T	T	131830576	3	4	61	1	0	0	0	0	1	0	0	0	5632	759	27	1	1415	1	FAM73B	9	131830576	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	791968	131830576	9382855	433	42439											
CRAT	1384	broad.mit.edu	37	chr9	131862207	131862207	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctccgctgcagcatgctcGtacacaagcccacaggagcc	9	5	9	18	2	0	0	0	0	0	0	2	1	1	1	4	1	6	5	4	1	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:131862207G>A	uc004bxh.2	-	8	1305	c.1023C>T	c.(1021-1023)TAC>TAT	p.Y341Y	CRAT_uc004bxg.2_Silent_p.Y320Y|CRAT_uc004bxk.3_Silent_p.Y320Y	NM_000755	NP_000746	P43155	CACP_HUMAN	carnitine acetyltransferase precursor	341					energy derivation by oxidation of organic compounds|fatty acid beta-oxidation using acyl-CoA oxidase|transport	endoplasmic reticulum|mitochondrial inner membrane|peroxisomal matrix	carnitine O-acetyltransferase activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)	L-Carnitine(DB00583)	CAGCATGCTCGTACACAAGCC	0.607													14	46					0	0	0.003163	0	0		A	131862207	A	A	131862207	2	1	61	1	0	0	0	0	0	0	0	1	3850	1140	40	1		1	CRAT	9	131862207	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	31631	131862207	9351224	434	42440											
USP20	10868	broad.mit.edu	37	chr9	132630616	132630616	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccagcagcgtacaaactcGgagcaagtggacgaggacgc	12	3	15	11	4	0	0	0	0	0	0	1	4	0	3	1	4	5	3	1	4	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:132630616G>A	uc004bys.2	+	11	1234	c.1023G>A	c.(1021-1023)TCG>TCA	p.S341S	USP20_uc004byr.2_Silent_p.S341S|USP20_uc004byt.1_Silent_p.S341S	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	341					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				GTACAAACTCGGAGCAAGTGG	0.652													7	53					0	0	0.001984	0	0		A	132630616	A	A	132630616	2	1	61	1	0	0	0	0	0	0	0	1	17078	1103	39	1		1	USP20	9	132630616	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	768409	132630616	8582815	435	42441											
GTF3C4	9329	broad.mit.edu	37	chr9	135553410	135553410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgcaaggagaaattcgccgCctccaaggaccccacggtca	11	5	11	14	3	1	1	1	0	0	1	3	3	2	2	5	3	1	1	5	3	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:135553410C>T	uc010mzv.2	+	2	662	c.404C>T	c.(403-405)GCC>GTC	p.A135V	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	135					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		AAATTCGCCGCCTCCAAGGAC	0.463													13	55					0	0	0.001855	0	0		T	135553410	T	T	135553410	3	4	61	1	0	0	0	0	1	0	0	0	6891	739	26	2	410	2	GTF3C4	9	135553410	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2922794	135553410	5660021	436	42442											
MED22	6837	broad.mit.edu	37	chr9	136208458	136208458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggacgccagcagaggggccGagaggccatcagcagagtct	10	3	17	11	2	2	3	1	0	1	3	2	5	2	4	3	4	2	2	3	4	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:136208458G>A	uc004cdc.2	-	5	734	c.500C>T	c.(499-501)TCG>TTG	p.S167L	MED22_uc004cdd.2_3'UTR	NM_133640	NP_598395	Q15528	MED22_HUMAN	mediator complex subunit 22 isoform b	167					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|mediator complex|soluble fraction	protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.14e-06)|Epithelial(140;8.2e-06)|all cancers(34;6.94e-05)		CAGAGGGGCCGAGAGGCCATC	0.657													3	21					0	0	0.004672	0	0		A	136208458	A	A	136208458	3	1	61	1	0	0	0	0	1	0	0	0	9458	1059	37	1	106	1	MED22	9	136208458	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	655048	136208458	5004973	437	42443											
SNAPC4	6621	broad.mit.edu	37	chr9	139272011	139272011	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctacctgaatggggcatgtgGctgtcgtgcagcccggctgc	5	9	15	12	2	0	1	0	1	0	0	1	1	0	1	2	4	4	4	2	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:139272011G>T	uc004chh.2	-	21	4277	c.4268C>A	c.(4267-4269)GCC>GAC	p.A1423D		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	1423					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		GGGGCATGTGGCTGTCGTGCA	0.672													6	25					8.12818e-05	8.54791e-05	0.001984	1	0		T	139272011	T	T	139272011	3	4	61	1	0	0	0	0	1	0	0	0	14862	1203	42	5	149	5	SNAPC4	9	139272011	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3063553	139272011	1941420	438	42444											
SNAPC4	6621	broad.mit.edu	37	chr9	139287157	139287157	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctccttctcggcttccctGccctgcttctccagggcttg	2	14	8	17	1	3	0	0	0	3	0	7	0	4	0	4	2	2	3	4	2	0	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:139287157G>A	uc004chh.2	-	7	714	c.705C>T	c.(703-705)GGC>GGT	p.G235G		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	235					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		CGGCTTCCCTGCCCTGCTTCT	0.627													11	75					0	0	0.013537	0	0		A	139287157	A	A	139287157	2	1	61	1	0	0	0	0	0	0	0	1	14862	1306	46	2		2	SNAPC4	9	139287157	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	15146	139287157	1926274	439	42445											
SEC16A	9919	broad.mit.edu	37	chr9	139358902	139358902	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacctccaccaaggccggCtgtccttctgaaggcagatt	8	9	11	13	1	1	2	0	1	1	1	3	3	3	3	5	4	0	2	5	4	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:139358902C>T	uc004chx.2	-	9	4725	c.4416G>A	c.(4414-4416)CAG>CAA	p.Q1472Q	SEC16A_uc004chv.3_Silent_p.Q862Q|SEC16A_uc004chw.2_Silent_p.Q1472Q|SEC16A_uc010nbn.2_Silent_p.Q1472Q	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1294					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		CCAAGGCCGGCTGTCCTTCTG	0.542													3	23					0	0	0.004672	0	0		T	139358902	T	T	139358902	2	4	61	1	0	0	0	0	0	0	0	1	14011	796	28	2		2	SEC16A	9	139358902	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	71745	139358902	1854529	440	42446											
FAM69B	138311	broad.mit.edu	37	chr9	139612048	139612048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggccggctcccaggcctcaGggtccgctgcatcttcctgg	3	8	14	16	2	2	0	1	0	1	0	5	0	5	0	5	5	1	3	5	5	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:139612048G>A	uc004cik.2	+	2	177	c.83G>A	c.(82-84)AGG>AAG	p.R28K		NM_152421	NP_689634	Q5VUD6	FA69B_HUMAN	hypothetical protein LOC138311	28	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane					0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.03e-05)|Epithelial(140;0.00013)		CCAGGCCTCAGGGTCCGCTGC	0.677													6	17					0	0	0.001168	0	0		A	139612048	A	A	139612048	3	1	61	1	0	0	0	0	1	0	0	0	5617	1000	35	4	89	4	FAM69B	9	139612048	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	253146	139612048	1601383	441	42447											
ABCA2	20	broad.mit.edu	37	chr9	139907311	139907311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggagaagccggtgccctgcGcagagcaggtgcagcggacg	9	3	18	11	4	0	2	0	0	0	2	0	4	0	3	2	4	6	3	2	4	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:139907311G>A	uc011mem.1	-	30	5079	c.4931C>T	c.(4930-4932)GCG>GTG	p.A1644V	ABCA2_uc011mel.1_Missense_Mutation_p.A1645V|ABCA2_uc004ckl.1_Missense_Mutation_p.A1575V|ABCA2_uc004ckm.1_Missense_Mutation_p.A1675V|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1644					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GGTGCCCTGCGCAGAGCAGGT	0.687													3	11					0	0	0.004672	0	0		A	139907311	A	A	139907311	3	1	61	1	0	0	0	0	1	0	0	0	32	1087	38	1	2452	1	ABCA2	9	139907311	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	295263	139907311	1306120	442	42448											
EXD3	54932	broad.mit.edu	37	chr9	140243958	140243958	+	Frame_Shift_Del	DEL	G	-	-																															ccctggccctgtccacggctGgggctggcacgctcgccacc																										TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:140243958delG	uc004cmp.2	-	15	1716	c.1520delC	c.(1519-1521)CCAfs	p.P507fs	C9orf167_uc011mew.1_Intron|EXD3_uc010ncf.1_Frame_Shift_Del_p.P187fs|EXD3_uc004cmq.1_RNA	NM_017820	NP_060290	Q8N9H8	MUT7_HUMAN	exonuclease 3'-5' domain containing 3	507					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						GTCCACGGCTGGGGCTGGCAC	0.682													7	15	---	---	---	---						.	-	140243958	-	-	140243958	7	5	61	1	0	1	0	1	0	0	0	0	5307	1348	47	0	1142	0	EXD3	9	140243958	Frame_Shift_Del	DEL	G	TCGA-BR-8081-01A-11D-2340-08	336647	140243958	969473	443	42449											
ARRDC1	92714	broad.mit.edu	37	chr9	140508544	140508544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggtgaagacgggcagcGtggtcctcacagccagcact	9	6	14	12	2	1	2	1	1	0	1	2	2	2	2	2	3	4	3	2	3	1	0	rs146599172		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:140508544G>A	uc004cns.2	+	5	570	c.496G>A	c.(496-498)GTG>ATG	p.V166M	ARRDC1_uc004cnt.2_Missense_Mutation_p.V41M|ARRDC1_uc004cnu.2_RNA|ARRDC1_uc004cnv.2_Missense_Mutation_p.V146M|ARRDC1_uc004cnw.2_Missense_Mutation_p.V41M|ARRDC1_uc004cnp.1_Missense_Mutation_p.V166M|ARRDC1_uc004cnq.1_Missense_Mutation_p.V148M|ARRDC1_uc011mfb.1_Missense_Mutation_p.V41M|ARRDC1_uc004cnx.1_Missense_Mutation_p.V41M|ARRDC1_uc004cny.2_RNA	NM_152285	NP_689498	Q8N5I2	ARRD1_HUMAN	arrestin domain containing 1	166											0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000273)|Epithelial(140;0.000464)		GACGGGCAGCGTGGTCCTCAC	0.637													21	97					0	0	0.008871	0	0		A	140508544	A	A	140508544	3	1	61	1	0	0	0	0	1	0	0	0	983	1145	40	1	514	1	ARRDC1	9	140508544	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	264586	140508544	704887	444	42450											
ZMYND11	10771	broad.mit.edu	37	chr10	255984	255984	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattggttgccaggagatgAgattgtaagtacattttatt	12	16	10	3	0	0	2	0	1	0	2	0	4	0	2	1	2	2	3	1	2	4	9			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:255984A>G	uc010pzt.1	+	3	700	c.272A>G	c.(271-273)GAG>GGG	p.E91G	ZMYND11_uc001ifk.2_Missense_Mutation_p.E91G|ZMYND11_uc010pzu.1_Missense_Mutation_p.E91G|ZMYND11_uc010pzv.1_Missense_Mutation_p.E91G|ZMYND11_uc010pzw.1_Missense_Mutation_p.E91G|ZMYND11_uc001ifm.2_Missense_Mutation_p.E91G|ZMYND11_uc010pzx.1_Missense_Mutation_p.E91G|ZMYND11_uc001ifn.2_Missense_Mutation_p.E91G|ZMYND11_uc009xhg.2_Missense_Mutation_p.E74G|ZMYND11_uc009xhh.2_Missense_Mutation_p.E45G|ZMYND11_uc010pzy.1_Missense_Mutation_p.E45G	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	51					cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CCAGGAGATGAGATTGTAAGT	0.323													11	61					0	0	0.013537	0	0		G	255984	G	G	255984	3	3	61	1	0	0	0	0	1	0	0	0	17731	304	11	3	278	3	ZMYND11	10	255984	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08		255984	135278763	445	42451											
DIP2C	22982	broad.mit.edu	37	chr10	394598	394598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctccacaatcatcttgaCggtaggcaacgtcgtcgcga	10	9	9	13	5	2	1	1	1	1	0	5	2	3	1	2	2	2	2	2	2	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:394598C>T	uc001ifp.2	-	26	3304	c.3214G>A	c.(3214-3216)GTC>ATC	p.V1072I	DIP2C_uc009xhi.1_Missense_Mutation_p.V458I	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	1072						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		ATCATCTTGACGGTAGGCAAC	0.572													23	89					0	0	0.00278	0	0		T	394598	T	T	394598	3	4	61	1	0	0	0	0	1	0	0	0	4535	536	19	1	1504	1	DIP2C	10	394598	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	138614	394598	135140149	446	42452											
C10orf18	54906	broad.mit.edu	37	chr10	5777426	5777426	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccaagggctaagccacCtgtgaagaaatctccacaaa	14	8	8	11	0	1	2	0	1	1	1	3	2	2	2	4	1	1	2	4	1	5	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:5777426C>A	uc001iij.2	+	12	1989	c.1364C>A	c.(1363-1365)CCT>CAT	p.P455H	C10orf18_uc001iik.2_Intron	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	455										ovary(1)|central_nervous_system(1)	2						GCTAAGCCACCTGTGAAGAAA	0.408													18	88					1.99824e-07	2.17485e-07	0.00499	1	0		A	5777426	A	A	5777426	3	1	61	1	0	0	0	0	1	0	0	0	1599	681	24	5	1398	5	C10orf18	10	5777426	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5382828	5777426	129757321	447	42453											
CDC123	8872	broad.mit.edu	37	chr10	12288245	12288245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atctgagaacaacttaaacgGcgattttagtgaagttgacg	14	11	10	6	3	1	3	0	3	1	1	1	5	1	3	0	1	3	1	0	1	6	4	rs142243159		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:12288245G>A	uc001ill.2	+	11	1099	c.815G>A	c.(814-816)GGC>GAC	p.G272D	CDC123_uc001ilm.2_Missense_Mutation_p.G284D	NM_006023	NP_006014	O75794	CD123_HUMAN	cell division cycle 123	272					cell cycle arrest|cell division|positive regulation of cell proliferation|regulation of mitotic cell cycle	cytoplasm				central_nervous_system(1)	1						AACTTAAACGGCGATTTTAGT	0.418													14	101					0	0	0.001855	0	0		A	12288245	A	A	12288245	3	1	61	1	0	0	0	0	1	0	0	0	3058	1203	42	2	857	2	CDC123	10	12288245	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	6510819	12288245	123246502	448	42454											
CUBN	8029	broad.mit.edu	37	chr10	17061870	17061870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaaatcctttctcacggCggccaaccccatctgtaagg	9	10	8	14	2	3	1	1	1	3	0	5	1	4	1	4	3	1	1	4	3	3	2	rs139600855		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:17061870C>T	uc001ioo.2	-	28	4182	c.4130G>A	c.(4129-4131)CGC>CAC	p.R1377H		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1377	CUB 8.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTTCTCACGGCGGCCAACCCC	0.502													9	40					0	0	0.004482	0	0		T	17061870	T	T	17061870	3	4	61	1	0	0	0	0	1	0	0	0	4054	768	27	1	6901	1	CUBN	10	17061870	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4773625	17061870	118472877	449	42455											
ARMC3	219681	broad.mit.edu	37	chr10	23235188	23235188	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttataaatttgctttaaAaggtttggatttttttcagt	11	21	6	3	0	1	0	1	0	0	0	1	1	1	1	0	2	1	2	0	2	5	10			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:23235188A>C	uc001irm.3	+	3	247	c.164A>C	c.(163-165)AAA>ACA	p.K55T	ARMC3_uc010qcv.1_Missense_Mutation_p.K55T|ARMC3_uc010qcw.1_Intron	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	55							binding				0						TTTGCTTTAAAAGGTTTGGAT	0.308													6	30					0	0	0.001168	0	0		C	23235188	C	C	23235188	3	2	61	1	0	0	0	0	1	0	0	0	953	14	1	5	170	5	ARMC3	10	23235188	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	6173318	23235188	112299559	450	42456											
MYO3A	53904	broad.mit.edu	37	chr10	26385330	26385330	+	Frame_Shift_Del	DEL	T	-	-																															tggagaaaaaaattttcataTtttttactacatttatgctg																										TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:26385330delT	uc001isn.2	+	16	1943	c.1583delT	c.(1582-1584)ATTfs	p.I528fs	MYO3A_uc009xko.1_Frame_Shift_Del_p.I528fs|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Frame_Shift_Del_p.I528fs	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	528	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						AATTTTCATATTTTTTACTAC	0.313													10	23	---	---	---	---						.	-	26385330	-	-	26385330	7	5	61	1	0	1	0	1	0	0	0	0	10094	1493	52	0	1637	0	MYO3A	10	26385330	Frame_Shift_Del	DEL	T	TCGA-BR-8081-01A-11D-2340-08	3150142	26385330	109149417	451	42457											
ANKRD26	22852	broad.mit.edu	37	chr10	27311608	27311608	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttgtcatttttaagaggTtcttaaatctgcaggaaggt	10	17	9	5	0	4	1	1	0	3	1	4	2	4	2	0	3	1	2	0	3	4	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:27311608T>C	uc001ith.2	-	29	4263	c.4091A>G	c.(4090-4092)AAC>AGC	p.N1364S	ANKRD26_uc001itg.2_Missense_Mutation_p.N1051S|ANKRD26_uc009xku.1_Missense_Mutation_p.N1365S	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1364	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TTTTAAGAGGTTCTTAAATCT	0.259													7	39					0	0	0.001984	0	0		C	27311608	C	C	27311608	3	2	61	1	0	0	0	0	1	0	0	0	654	1725	60	3	1062	3	ANKRD26	10	27311608	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	926278	27311608	108223139	452	42458											
SVIL	6840	broad.mit.edu	37	chr10	29821496	29821496	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgttggcagatgccaggaaCgcacttcggagctgggcgac	8	6	16	11	4	0	1	0	0	0	1	1	4	0	3	1	4	3	4	1	4	1	2	rs144823074		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:29821496C>T	uc001iut.1	-	8	2553	c.1800G>A	c.(1798-1800)GCG>GCA	p.A600A	SVIL_uc001iuu.1_Intron|SVIL_uc009xld.1_Silent_p.A600A	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	600					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				ATGCCAGGAACGCACTTCGGA	0.582													5	34					0	0	0.001168	0	0		T	29821496	T	T	29821496	2	4	61	1	0	0	0	0	0	0	0	1	15446	523	19	1		1	SVIL	10	29821496	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2509888	29821496	105713251	453	42459											
C10orf68	79741	broad.mit.edu	37	chr10	33018260	33018260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctatttttttctatttagCgtttcctttagaaatcaaaa	12	20	3	6	1	3	1	1	0	2	1	4	1	4	1	1	0	1	1	1	0	7	10			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:33018260C>T	uc001iwn.3	+	10	1174	c.701C>T	c.(700-702)ACG>ATG	p.T234M	C10orf68_uc001iwl.1_Missense_Mutation_p.T242M|C10orf68_uc001iwm.1_Missense_Mutation_p.T210M|C10orf68_uc010qei.1_Missense_Mutation_p.T146M|C10orf68_uc001iwo.3_RNA	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	234										skin(2)|ovary(1)	3						TTCTATTTAGCGTTTCCTTTA	0.313													11	46					0	0	0.013537	0	0		T	33018260	T	T	33018260	3	4	61	1	0	0	0	0	1	0	0	0	1616	782	27	1	731	1	C10orf68	10	33018260	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3196764	33018260	102516487	454	42460											
CUL2	8453	broad.mit.edu	37	chr10	35299267	35299267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtagctgtattcatctgccGacgcctggctgcgttctatg	5	13	11	12	4	3	0	1	0	2	0	3	1	3	0	2	1	3	5	2	1	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:35299267G>A	uc001ixv.2	-	21	2420	c.2210C>T	c.(2209-2211)TCG>TTG	p.S737L	CUL2_uc009xma.2_Missense_Mutation_p.S606L|CUL2_uc010qer.1_Missense_Mutation_p.S756L|CUL2_uc001ixw.2_Missense_Mutation_p.S737L	NM_003591	NP_003582	Q13617	CUL2_HUMAN	cullin 2	737					cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding			ovary(3)	3						TTCATCTGCCGACGCCTGGCT	0.463													8	29					0	0	0.00308	0	0		A	35299267	A	A	35299267	3	1	61	1	0	0	0	0	1	0	0	0	4058	1059	37	1	31	1	CUL2	10	35299267	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2281007	35299267	100235480	455	42461											
GJD4	219770	broad.mit.edu	37	chr10	35896743	35896743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctatgtcctgcaccgaggagCcacgctcgccgcgctgggcc	5	6	13	17	5	0	0	0	0	0	0	2	2	1	1	5	2	2	3	5	2	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:35896743C>T	uc001iyy.1	+	2	460	c.302C>T	c.(301-303)GCC>GTC	p.A101V		NM_153368	NP_699199	Q96KN9	CXD4_HUMAN	connexin40.1	101	Cytoplasmic (Potential).				cell communication	connexon complex|integral to membrane				large_intestine(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CACCGAGGAGCCACGCTCGCC	0.746													7	41					0	0	0.00308	0	0		T	35896743	T	T	35896743	3	4	61	1	0	0	0	0	1	0	0	0	6434	739	26	2	308	2	GJD4	10	35896743	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	597476	35896743	99638004	456	42462											
PCDH15	65217	broad.mit.edu	37	chr10	55582606	55582606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaatttgcctcttcagttGtaagcaatggattgctgcta	10	15	8	8	0	3	0	2	0	1	0	3	1	3	1	1	1	4	5	1	1	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:55582606G>A	uc001jju.1	-	33	5275	c.4880C>T	c.(4879-4881)ACA>ATA	p.T1627I	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.T1624I|PCDH15_uc010qhw.1_Missense_Mutation_p.T1587I|PCDH15_uc010qhx.1_Missense_Mutation_p.T1558I|PCDH15_uc010qhy.1_Missense_Mutation_p.T1634I|PCDH15_uc010qhz.1_Missense_Mutation_p.T1629I|PCDH15_uc010qia.1_Missense_Mutation_p.T1607I|PCDH15_uc010qib.1_Missense_Mutation_p.T1604I	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1627	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CTCTTCAGTTGTAAGCAATGG	0.413										HNSCC(58;0.16)			21	102					0	0	0.012319	0	0		A	55582606	A	A	55582606	3	1	61	1	0	0	0	0	1	0	0	0	11530	1377	48	4	2597	4	PCDH15	10	55582606	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	19685863	55582606	79952141	457	42463											
ANK3	288	broad.mit.edu	37	chr10	61833777	61833777	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacagacctgccagttcttTggaaggatcccgcccggact	10	8	10	13	2	1	1	0	0	1	1	2	4	2	4	4	3	2	1	4	3	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:61833777T>C	uc001jky.2	-	37	7054	c.6862A>G	c.(6862-6864)AAA>GAA	p.K2288E	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2288					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GCCAGTTCTTTGGAAGGATCC	0.502													19	124					0	0	0.006122	0	0		C	61833777	C	C	61833777	3	2	61	1	0	0	0	0	1	0	0	0	622	1821	63	3	6612	3	ANK3	10	61833777	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	6251171	61833777	73700970	458	42464											
ZNF365	22891	broad.mit.edu	37	chr10	64403708	64403708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtctgcgctgggtcagataaCcatcactgtctccaggtaaa	10	10	10	11	1	4	1	2	0	2	1	5	1	4	1	2	2	2	2	2	2	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:64403708C>T	uc001jmd.1	+	2	357	c.23C>T	c.(22-24)ACC>ATC	p.T8I	ZNF365_uc001jmc.2_Intron|ZNF365_uc001jme.1_RNA|ZNF365_uc001jmf.1_RNA|ZNF365_uc009xpg.1_RNA	NM_199452	NP_955524	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform D	8										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GGTCAGATAACCATCACTGTC	0.458													9	57					0	0	0.006214	0	0		T	64403708	T	T	64403708	3	4	61	1	0	0	0	0	1	0	0	0	17894	507	18	4	1503	4	ZNF365	10	64403708	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2569931	64403708	71131039	459	42465											
EGR2	1959	broad.mit.edu	37	chr10	64574120	64574120	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaatggagaacttgcccAtgtaagtgaaggtctggttt	10	12	13	6	0	2	2	1	1	1	1	2	3	2	2	1	4	2	2	1	4	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:64574120A>G	uc010qim.1	-	3	432	c.278T>C	c.(277-279)ATG>ACG	p.M93T	EGR2_uc010qin.1_Missense_Mutation_p.M43T|EGR2_uc001jmi.2_Missense_Mutation_p.M93T|EGR2_uc010qio.1_Missense_Mutation_p.M106T|EGR2_uc009xph.2_Missense_Mutation_p.M93T	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	93					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GAACTTGCCCATGTAAGTGAA	0.507													11	53					0	0	0.008291	0	0		G	64574120	G	G	64574120	3	3	61	1	0	0	0	0	1	0	0	0	4978	217	8	3	1156	3	EGR2	10	64574120	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	170412	64574120	70960627	460	42466											
DLG5	9231	broad.mit.edu	37	chr10	79614032	79614032	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcacacctcttcaaggcGttggtgtgctggttctgcag	5	13	11	12	1	4	0	2	0	2	0	5	0	5	0	2	3	2	4	2	3	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:79614032G>A	uc001jzk.2	-	4	703	c.633C>T	c.(631-633)AAC>AAT	p.N211N	DLG5_uc001jzj.2_5'Flank|DLG5_uc009xru.1_RNA	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	211					cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			TCTTCAAGGCGTTGGTGTGCT	0.592													11	31					0	0	0.010729	0	0		A	79614032	A	A	79614032	2	1	61	1	0	0	0	0	0	0	0	1	4564	1136	40	1		1	DLG5	10	79614032	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	15039912	79614032	55920715	461	42467											
IFIT2	3433	broad.mit.edu	37	chr10	91066903	91066903	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatccaccactttatagAgggtgtaaaaataaaccaga	16	8	8	9	0	0	2	0	0	0	2	1	2	1	2	4	2	1	1	4	2	7	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:91066903A>C	uc009xts.2	+	2	1365	c.1190A>C	c.(1189-1191)GAG>GCG	p.E397A	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron	NM_001547	NP_001538	P09913	IFIT2_HUMAN	interferon-induced protein with	397	TPR 6.				negative regulation of protein binding|response to virus|type I interferon-mediated signaling pathway		protein binding			ovary(1)|skin(1)	2		Colorectal(252;0.0161)				CACTTTATAGAGGGTGTAAAA	0.403													14	71					0	0	0.003163	0	0		C	91066903	C	C	91066903	3	2	61	1	0	0	0	0	1	0	0	0	7539	304	11	5	1196	5	IFIT2	10	91066903	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	11452871	91066903	44467844	462	42468											
RPP30	10556	broad.mit.edu	37	chr10	92656136	92656136	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaccaactgccgagcagcGcttctccatggaggtaagca	10	7	10	14	2	1	0	0	0	1	0	3	2	2	1	4	2	5	4	4	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:92656136G>A	uc009xtx.2	+	10	719	c.684G>A	c.(682-684)GCG>GCA	p.A228A	RPP30_uc001khd.2_Silent_p.A228A	NM_006413	NP_006404	P78346	RPP30_HUMAN	ribonuclease P/MRP 30kDa subunit isoform b	228					tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity				0						GCCGAGCAGCGCTTCTCCATG	0.478													7	29					0	0	0.001984	0	0		A	92656136	A	A	92656136	2	1	61	1	0	0	0	0	0	0	0	1	13637	1074	38	1		1	RPP30	10	92656136	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1589233	92656136	42878611	463	42469											
MYOF	26509	broad.mit.edu	37	chr10	95076536	95076536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatcagcctgggtgggattCgaaattccgtttggtcaata	9	13	12	7	2	2	1	2	1	0	0	4	3	3	2	2	3	1	1	2	3	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:95076536C>T	uc001kin.2	-	50	5756	c.5633G>A	c.(5632-5634)CGA>CAA	p.R1878Q	MYOF_uc001kio.2_Missense_Mutation_p.R1865Q|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1878	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						GGGTGGGATTCGAAATTCCGT	0.403													8	49					0	0	0.00308	0	0		T	95076536	T	T	95076536	3	4	61	1	0	0	0	0	1	0	0	0	10107	884	31	1	572	1	MYOF	10	95076536	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2420400	95076536	40458211	464	42470											
CNNM1	26507	broad.mit.edu	37	chr10	101147941	101147941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgggctgagaagccccagcGaggtagtgtacctgaggatg	10	6	16	9	2	0	2	0	2	0	1	0	5	0	3	3	3	3	3	3	3	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:101147941G>A	uc001kpp.3	+	9	2846	c.2557G>A	c.(2557-2559)GAG>AAG	p.E853K	CNNM1_uc010qpi.1_Missense_Mutation_p.E874K|CNNM1_uc009xwf.2_Intron|CNNM1_uc009xwg.2_Missense_Mutation_p.E253K	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	853					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		AAGCCCCAGCGAGGTAGTGTA	0.607													7	42					0	0	0.001984	0	0		A	101147941	A	A	101147941	3	1	61	1	0	0	0	0	1	0	0	0	3615	1059	37	1	2591	1	CNNM1	10	101147941	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	6071405	101147941	34386806	465	42471											
CPN1	1369	broad.mit.edu	37	chr10	101824970	101824970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagcttgtcgtcaggcGtgggggtgctggcggtgcgg	4	8	22	7	4	1	1	1	0	0	1	2	2	1	2	0	7	3	2	0	7	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:101824970G>A	uc001kql.2	-	4	994	c.734C>T	c.(733-735)ACG>ATG	p.T245M		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	245	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		GTCGTCAGGCGTGGGGGTGCT	0.607													22	80					0	0	0.012319	0	0		A	101824970	A	A	101824970	3	1	61	1	0	0	0	0	1	0	0	0	3812	1145	40	1	666	1	CPN1	10	101824970	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	677029	101824970	33709777	466	42472											
C10orf2	56652	broad.mit.edu	37	chr10	102749148	102749148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctggcctccgctggagccGctttccagacctcaatcgta	7	9	10	15	3	1	1	1	0	0	1	4	2	3	2	5	2	2	4	5	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:102749148G>A	uc001ksf.2	+	1	1856	c.1181G>A	c.(1180-1182)CGC>CAC	p.R394H	MRPL43_uc001kry.1_5'Flank|MRPL43_uc010qpu.1_5'Flank|MRPL43_uc001krz.1_5'Flank|MRPL43_uc001ksa.1_5'Flank|MRPL43_uc001ksb.1_5'Flank|MRPL43_uc001ksd.1_5'Flank|MRPL43_uc001ksc.2_5'Flank|MRPL43_uc001kse.2_5'Flank|C10orf2_uc001ksg.2_Missense_Mutation_p.R394H|C10orf2_uc001ksi.2_Intron|C10orf2_uc010qpv.1_Intron|C10orf2_uc001ksh.2_Intron	NM_021830	NP_068602	Q96RR1	PEO1_HUMAN	twinkle isoform A	394	SF4 helicase.				cell death|mitochondrial DNA replication|protein hexamerization|protein homooligomerization|transcription from mitochondrial promoter	mitochondrial nucleoid	5'-3' DNA helicase activity|ATP binding|protease binding|single-stranded DNA binding			ovary(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CGCTGGAGCCGCTTTCCAGAC	0.542													7	58					0	0	0.004482	0	0		A	102749148	A	A	102749148	3	1	61	1	0	0	0	0	1	0	0	0	1600	1087	38	1	1183	1	C10orf2	10	102749148	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	924178	102749148	32785599	467	42473											
PDCD11	22984	broad.mit.edu	37	chr10	105178275	105178275	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacaacatccgtgctttcCtccccacatctcatctgtcg	7	11	4	19	2	2	0	1	0	2	0	7	0	5	0	5	0	2	1	5	0	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:105178275C>A	uc001kwy.1	+	15	2077	c.1990C>A	c.(1990-1992)CTC>ATC	p.L664I		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	664	S1 motif 7.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		CCGTGCTTTCCTCCCCACATC	0.537													14	66					3.27435e-08	3.58587e-08	0.00245	1	0		A	105178275	A	A	105178275	3	1	61	1	0	0	0	0	1	0	0	0	11636	681	24	5	2044	5	PDCD11	10	105178275	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2429127	105178275	30356472	468	42474											
ABLIM1	3983	broad.mit.edu	37	chr10	116247743	116247743	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcctcggtcttcgtagAttgcttacagtcgggatgcc	5	15	10	11	3	1	1	0	0	1	1	5	2	2	2	2	2	3	2	2	2	2	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:116247743A>T	uc010qsg.1	-	8	1114	c.1015T>A	c.(1015-1017)TCT>ACT	p.S339T	ABLIM1_uc010qsh.1_Missense_Mutation_p.S279T|ABLIM1_uc010qsi.1_Missense_Mutation_p.S279T|ABLIM1_uc010qsk.1_Missense_Mutation_p.S263T|ABLIM1_uc009xyp.2_Missense_Mutation_p.S273T|ABLIM1_uc010qsf.1_Missense_Mutation_p.S23T|ABLIM1_uc009xyn.2_Missense_Mutation_p.S16T|ABLIM1_uc010qsj.1_Missense_Mutation_p.S16T|ABLIM1_uc009xyo.2_Missense_Mutation_p.S187T	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	339	LIM zinc-binding 4.				axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		GTCTTCGTAGATTGCTTACAG	0.483													29	126					0	0	0.008361	0	0		T	116247743	T	T	116247743	3	4	61	1	0	0	0	0	1	0	0	0	94	333	12	5	1469	5	ABLIM1	10	116247743	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	11069468	116247743	19287004	469	42475											
BAG3	9531	broad.mit.edu	37	chr10	121429568	121429568	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgaactgaggcggcagcagCggctcctcagaggtcccagt	8	5	14	14	3	1	2	1	1	0	1	3	3	3	2	3	4	3	3	3	4	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:121429568C>T	uc001lem.2	+	2	692	c.386C>T	c.(385-387)GCG>GTG	p.A129V	BAG3_uc001lel.2_Missense_Mutation_p.A129V	NM_004281	NP_004272	O95817	BAG3_HUMAN	BCL2-associated athanogene 3	129	WW 2.				anti-apoptosis|apoptosis|protein folding	cytosol				ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)		GCGGCAGCAGCGGCTCCTCAG	0.632													6	93					0	0	0.001984	0	0		T	121429568	T	T	121429568	3	4	61	1	0	0	0	0	1	0	0	0	1289	768	27	1	392	1	BAG3	10	121429568	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5181825	121429568	14105179	470	42476											
SEC23IP	11196	broad.mit.edu	37	chr10	121691686	121691686	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtatgggatctgatttgaagCagggttttattagctctctc	8	16	11	6	0	2	2	0	2	2	0	4	3	2	3	0	2	2	4	0	2	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:121691686C>T	uc001leu.1	+	16	2686	c.2614C>T	c.(2614-2616)CAG>TAG	p.Q872*	SEC23IP_uc010qtc.1_Nonsense_Mutation_p.Q661*|SEC23IP_uc009xzk.1_RNA	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	872	DDHD.				Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		TGATTTGAAGCAGGGTTTTAT	0.408													9	65					0	0	0.008291	0	0		T	121691686	T	T	121691686	4	4	61	1	0	0	0	0	0	1	0	0	14018	711	25	2	2676	2	SEC23IP	10	121691686	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	262118	121691686	13843061	471	42477											
TACC2	10579	broad.mit.edu	37	chr10	123842944	123842944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggaattcctcagggcctGccatctccctaggagcaatt	8	11	9	13	0	2	0	1	0	1	0	4	2	3	2	4	3	2	1	4	3	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:123842944G>A	uc001lfv.2	+	4	1289	c.929G>A	c.(928-930)TGC>TAC	p.C310Y	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.C310Y|TACC2_uc010qtv.1_Missense_Mutation_p.C310Y	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	310						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				CTCAGGGCCTGCCATCTCCCT	0.582													16	71					0	0	0.003163	0	0		A	123842944	A	A	123842944	3	1	61	1	0	0	0	0	1	0	0	0	15527	1319	46	2	939	2	TACC2	10	123842944	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2151258	123842944	11691803	472	42478											
MTG1	92170	broad.mit.edu	37	chr10	135233048	135233048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcgcgtgctgaagagtgtgGctgtgaagctggggaagacg	9	7	19	6	3	0	4	0	2	0	2	0	5	0	5	0	3	3	3	0	3	3	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:135233048G>A	uc001lnd.2	+	10	921	c.817G>A	c.(817-819)GCT>ACT	p.A273T	MTG1_uc010qve.1_Missense_Mutation_p.A138T	NM_138384	NP_612393	Q9BT17	MTG1_HUMAN	GTP_binding protein precursor	273						mitochondrion	GTP binding|protein binding			skin(1)	1		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|all cancers(32;1.69e-06)|Epithelial(32;1.94e-06)		GAAGAGTGTGGCTGTGAAGCT	0.647													3	13					0	0	0.004672	0	0		A	135233048	A	A	135233048	3	1	61	1	0	0	0	0	1	0	0	0	9944	1203	42	2	855	2	MTG1	10	135233048	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	11390104	135233048	301699	473	42479											
RNH1	6050	broad.mit.edu	37	chr11	502099	502099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggagcagagggaggagctCggcccatctagcgtcgctca	8	6	15	12	3	2	1	1	0	1	1	4	4	2	4	1	4	3	3	1	4	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:502099C>T	uc001lpk.1	-	1	1472	c.64G>A	c.(64-66)GAG>AAG	p.E22K	RNH1_uc001lpl.1_Missense_Mutation_p.E22K|RNH1_uc001lpm.1_Missense_Mutation_p.E22K|RNH1_uc001lpn.1_Missense_Mutation_p.E22K|RNH1_uc001lpo.1_Missense_Mutation_p.E22K|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Missense_Mutation_p.E22K|RNH1_uc001lpt.1_5'UTR|RNH1_uc001lpq.1_Missense_Mutation_p.E22K|RNH1_uc001lpr.1_Missense_Mutation_p.E22K|RNH1_uc001lps.1_Missense_Mutation_p.E22K|RNH1_uc009ybx.1_Missense_Mutation_p.E22K	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	22	LRR 1.				mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGGAGGAGCTCGGCCCATCTA	0.667													4	21					0	0	0.001168	0	0		T	502099	T	T	502099	3	4	61	1	0	0	0	0	1	0	0	0	13529	893	31	1	1357	1	RNH1	11	502099	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08		502099	134504417	474	42480											
PHRF1	57661	broad.mit.edu	37	chr11	598487	598487	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgcgcactcccgcccgaCggaagaggaagacaagtaag	12	2	13	14	6	0	2	0	0	0	2	1	5	1	4	3	2	0	2	3	2	4	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:598487C>T	uc001lqe.2	+	9	1140	c.1009C>T	c.(1009-1011)CGG>TGG	p.R337W	PHRF1_uc010qwc.1_Missense_Mutation_p.R337W|PHRF1_uc010qwd.1_Missense_Mutation_p.R336W|PHRF1_uc010qwe.1_Missense_Mutation_p.R333W|PHRF1_uc009ybz.1_Missense_Mutation_p.R128W	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	337	Arg-rich.						RNA polymerase binding|zinc ion binding				0						TCCCGCCCGACGGAAGAGGAA	0.657													6	19					0	0	0.001984	0	0		T	598487	T	T	598487	3	4	61	1	0	0	0	0	1	0	0	0	11880	527	19	1	1039	1	PHRF1	11	598487	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	96388	598487	134408029	475	42481											
OR51G1	79324	broad.mit.edu	37	chr11	4945194	4945194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgggttgcagacggccaCgtagcggtcaatggacatgg	9	7	16	9	3	1	1	1	0	0	1	1	2	1	2	1	5	2	3	1	5	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:4945194C>T	uc010qyr.1	-	1	376	c.376G>A	c.(376-378)GTG>ATG	p.V126M		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		CAGACGGCCACGTAGCGGTCA	0.507													6	41					0	0	0.001168	0	0		T	4945194	T	T	4945194	3	4	61	1	0	0	0	0	1	0	0	0	11117	536	19	1	591	1	OR51G1	11	4945194	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4346707	4945194	130061322	476	42482											
DENND5A	23258	broad.mit.edu	37	chr11	9161272	9161272	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgtgatgttgaactcctgCaatgtctgcagcacacgaat	11	10	10	10	2	1	2	0	2	1	0	2	3	2	2	1	0	5	4	1	0	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:9161272C>T	uc001mhl.2	-	23	4065	c.3810G>A	c.(3808-3810)TTG>TTA	p.L1270L	DENND5A_uc001mhk.2_Silent_p.L613L|DENND5A_uc010rbw.1_3'UTR	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	1270	RUN 2.									liver(1)	1						TGAACTCCTGCAATGTCTGCA	0.532													3	19					0	0	0.004672	0	0		T	9161272	T	T	9161272	2	4	61	1	0	0	0	0	0	0	0	1	4442	709	25	2		2	DENND5A	11	9161272	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4216078	9161272	125845244	477	42483											
LGR4	55366	broad.mit.edu	37	chr11	27390555	27390555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcctataaacaatttggacGaaggcagtgatgtacaagat	16	9	10	6	1	0	2	0	1	0	1	0	4	0	3	1	2	3	2	1	2	7	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:27390555G>A	uc001mrj.3	-	18	2200	c.1715C>T	c.(1714-1716)TCG>TTG	p.S572L	LGR4_uc001mrk.3_Missense_Mutation_p.S548L	NM_018490	NP_060960	Q9BXB1	LGR4_HUMAN	leucine-rich repeat-containing G protein-coupled	572	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1						CAATTTGGACGAAGGCAGTGA	0.378													15	55					0	0	0.004007	0	0		A	27390555	A	A	27390555	3	1	61	1	0	0	0	0	1	0	0	0	8772	1059	37	1	1144	1	LGR4	11	27390555	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	18229283	27390555	107615961	478	42484											
HIPK3	10114	broad.mit.edu	37	chr11	33362656	33362656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaaattttactaaaatcGgaacattaagaagtcaggta	17	11	7	6	1	1	1	1	0	0	1	2	2	1	2	0	2	3	2	0	2	8	5	rs140757794	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:33362656G>A	uc001mul.1	+	7	2026	c.1756G>A	c.(1756-1758)GGA>AGA	p.G586R	HIPK3_uc001mum.1_Missense_Mutation_p.G586R|HIPK3_uc009yjv.1_Missense_Mutation_p.G586R	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	586					anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						TACTAAAATCGGAACATTAAG	0.318													10	32					0	0	0.008291	0	0		A	33362656	A	A	33362656	3	1	61	1	0	0	0	0	1	0	0	0	7134	1117	39	1	1778	1	HIPK3	11	33362656	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	5972101	33362656	101643860	479	42485											
C11orf41	25758	broad.mit.edu	37	chr11	33565180	33565180	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggagacatgaaaaagccaGcaaccacagatgttttctgg	15	8	10	8	0	1	3	0	1	1	2	1	4	1	3	2	2	3	2	2	2	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:33565180G>T	uc001mup.3	+	1	1304	c.1180G>T	c.(1180-1182)GCA>TCA	p.A394S	C11orf41_uc001mun.1_Missense_Mutation_p.A394S	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	394						integral to membrane				ovary(2)	2						GAAAAAGCCAGCAACCACAGA	0.428											OREG0020868	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	34					0.00116845	0.00120956	0.001168	1	0		T	33565180	T	T	33565180	3	4	61	1	0	0	0	0	1	0	0	0	1643	971	34	5	1182	5	C11orf41	11	33565180	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	202524	33565180	101441336	480	42486											
C11orf41	25758	broad.mit.edu	37	chr11	33565323	33565323	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaagttgggaaactcatttAgctccaacagctcctcccaa	13	9	6	13	0	1	0	1	0	0	0	4	1	4	1	3	1	4	3	3	1	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:33565323A>G	uc001mup.3	+	1	1447	c.1323A>G	c.(1321-1323)TTA>TTG	p.L441L	C11orf41_uc001mun.1_Silent_p.L441L	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	441						integral to membrane				ovary(2)	2						AAACTCATTTAGCTCCAACAG	0.418											OREG0020868	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	85					0	0	0.009535	0	0		G	33565323	G	G	33565323	2	3	61	1	0	0	0	0	0	0	0	1	1643	417	15	3		3	C11orf41	11	33565323	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	143	33565323	101441193	481	42487											
PHF21A	51317	broad.mit.edu	37	chr11	46001356	46001356	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagctgactgctgggcGtggtggtggtggtactgctg	3	11	19	8	1	0	1	0	1	0	0	0	1	0	1	0	5	5	6	0	5	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:46001356G>A	uc001ncc.3	-	6	939	c.315C>T	c.(313-315)CAC>CAT	p.H105H	PHF21A_uc001ncb.3_Silent_p.H105H|PHF21A_uc009ykx.2_Silent_p.H105H|PHF21A_uc001nce.2_Silent_p.H105H	NM_001101802	NP_001095272	Q96BD5	PF21A_HUMAN	BRAF35/HDAC2 complex isoform a	105	Gln-rich.				blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						actgctgggcgtggtggtggt	0.259													10	52					0	0	0.006214	0	0		A	46001356	A	A	46001356	2	1	61	1	0	0	0	0	0	0	0	1	11852	1136	40	1		1	PHF21A	11	46001356	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	12436033	46001356	89005160	482	42488											
AMBRA1	55626	broad.mit.edu	37	chr11	46455113	46455113	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtgcagcaggatccttcGtgaggccaagcccaccatta	9	7	13	12	1	0	1	0	1	0	0	2	2	1	2	4	4	3	2	4	4	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:46455113G>A	uc010rgu.1	-	14	3247	c.2887C>T	c.(2887-2889)CGA>TGA	p.R963*	AMBRA1_uc010rgt.1_Nonsense_Mutation_p.R529*|AMBRA1_uc009ylc.1_Nonsense_Mutation_p.R934*|AMBRA1_uc001ncu.1_Nonsense_Mutation_p.R873*|AMBRA1_uc001ncv.2_Nonsense_Mutation_p.R966*|AMBRA1_uc001ncw.2_Nonsense_Mutation_p.R844*|AMBRA1_uc001ncx.2_Nonsense_Mutation_p.R903*	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	963					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle		p.R873*(1)		large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		AGGATCCTTCGTGAGGCCAAG	0.562													9	36					0	0	0.004482	0	0		A	46455113	A	A	46455113	4	1	61	1	0	0	0	0	0	1	0	0	565	1153	40	1	1029	1	AMBRA1	11	46455113	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	453757	46455113	88551403	483	42489											
LRP4	4038	broad.mit.edu	37	chr11	46895077	46895077	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacccagtccactgccaGcccgtcagtggtcttcagcc	6	7	10	18	1	3	0	2	0	1	0	4	0	4	0	6	2	3	0	6	2	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:46895077G>T	uc001ndn.3	-	29	4443	c.4297C>A	c.(4297-4299)CTG>ATG	p.L1433M	uc001ndl.2_RNA	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1433	Extracellular (Potential).|LDL-receptor class B 16.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		TCCACTGCCAGCCCGTCAGTG	0.587													7	59					0.000274275	0.000286447	0.004482	1	0		T	46895077	T	T	46895077	3	4	61	1	0	0	0	0	1	0	0	0	8977	962	34	5	1460	5	LRP4	11	46895077	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	439964	46895077	88111439	484	42490											
PSMC3	5702	broad.mit.edu	37	chr11	47444173	47444173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatgaagatgatagagggcGctttctccttggccagggca	10	9	13	9	1	1	4	0	2	1	2	2	4	1	4	2	3	0	2	2	3	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:47444173G>A	uc001nfh.2	-	8	1030	c.836C>T	c.(835-837)GCG>GTG	p.A279V	PSMC3_uc009ylr.1_Missense_Mutation_p.A237V	NM_002804	NP_002795	P17980	PRS6A_HUMAN	proteasome 26S ATPase subunit 3	279					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|nucleoside-triphosphatase activity|protein binding|transcription coactivator activity|transcription corepressor activity			ovary(4)	4				Lung(87;0.0932)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GATAGAGGGCGCTTTCTCCTT	0.587													18	75					0	0	0.00499	0	0		A	47444173	A	A	47444173	3	1	61	1	0	0	0	0	1	0	0	0	12709	1087	38	1	503	1	PSMC3	11	47444173	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	549096	47444173	87562343	485	42491											
RAPSN	5913	broad.mit.edu	37	chr11	47470379	47470379	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctgtgaccaggcagccCagcacgcggaagcgccccat	8	4	14	15	3	0	1	0	1	0	0	0	2	0	2	4	3	3	3	4	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:47470379C>T	uc001nfi.1	-	1	352	c.138G>A	c.(136-138)CTG>CTA	p.L46L	RAPSN_uc001nfj.1_Silent_p.L46L|RAPSN_uc009yls.1_Silent_p.L46L	NM_005055	NP_005046	Q13702	RAPSN_HUMAN	43 kD receptor-associated protein of the synapse	46					synaptic transmission, cholinergic	cell junction|cytoskeleton|postsynaptic membrane	acetylcholine receptor binding|zinc ion binding			ovary(1)	1						CCAGGCAGCCCAGCACGCGGA	0.647													15	49					0	0	0.003163	0	0		T	47470379	T	T	47470379	2	4	61	1	0	0	0	0	0	0	0	1	13076	581	21	4		4	RAPSN	11	47470379	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	26206	47470379	87536137	486	42492											
PTPRJ	5795	broad.mit.edu	37	chr11	48149351	48149351	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctattcaggtttttgaCgtcaccgctgtgaacatcag	9	13	10	9	2	3	2	3	2	0	0	3	3	3	2	1	1	2	3	1	1	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:48149351C>T	uc001ngp.3	+	7	1468	c.1113C>T	c.(1111-1113)GAC>GAT	p.D371D	PTPRJ_uc001ngo.3_Silent_p.D371D	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	371	Extracellular (Potential).|Fibronectin type-III 4.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						AGGTTTTTGACGTCACCGCTG	0.493													20	57					0	0	0.008871	0	0		T	48149351	T	T	48149351	2	4	61	1	0	0	0	0	0	0	0	1	12829	535	19	1		1	PTPRJ	11	48149351	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	678972	48149351	86857165	487	42493											
OR5D13	390142	broad.mit.edu	37	chr11	55541171	55541171	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacctaaactgttggagaaCttggttgtggaatacagaac	14	10	10	7	0	0	2	0	0	0	2	0	4	0	3	1	3	4	2	1	3	6	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:55541171C>T	uc010ril.1	+	1	258	c.258C>T	c.(256-258)AAC>AAT	p.N86N		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	86	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				TGTTGGAGAACTTGGTTGTGG	0.383													26	100					0	0	0.003954	0	0		T	55541171	T	T	55541171	2	4	61	1	0	0	0	0	0	0	0	1	11173	564	20	4		4	OR5D13	11	55541171	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	7391820	55541171	79465345	488	42494											
OR5R1	219479	broad.mit.edu	37	chr11	56185444	56185444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggaaaggaatggtgttgcGttccacaacaaaattcacca	15	9	9	8	1	1	0	1	0	0	0	2	2	2	2	2	3	2	2	2	3	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:56185444G>A	uc010rji.1	-	1	265	c.265C>T	c.(265-267)CGC>TGC	p.R89C		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					ATGGTGTTGCGTTCCACAACA	0.463													9	42					0	0	0.004482	0	0		A	56185444	A	A	56185444	3	1	61	1	0	0	0	0	1	0	0	0	11199	1145	40	1	711	1	OR5R1	11	56185444	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	644273	56185444	78821072	489	42495											
OR5M9	390162	broad.mit.edu	37	chr11	56230791	56230791	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgatcatgtaaaccgctagGaacaccacaaaaaagagaac	19	5	8	9	1	1	2	1	1	0	1	1	4	1	3	2	1	3	2	2	1	8	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:56230791G>T	uc010rjj.1	-	1	87	c.87C>A	c.(85-87)TTC>TTA	p.F29L		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	29	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					AAACCGCTAGGAACACCACAA	0.438													7	30					8.12818e-05	8.54791e-05	0.001984	1	0		T	56230791	T	T	56230791	3	4	61	1	0	0	0	0	1	0	0	0	11196	1165	41	5	847	5	OR5M9	11	56230791	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	45347	56230791	78775725	490	42496											
OR4D9	390199	broad.mit.edu	37	chr11	59282922	59282922	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcttgacactttctactgCgatgtcccccaggtcctcaa	7	13	7	14	1	3	1	1	1	2	0	5	2	5	1	3	1	2	1	3	1	2	4	rs145873782		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:59282922C>T	uc010rkv.1	+	1	537	c.537C>T	c.(535-537)TGC>TGT	p.C179C		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	179	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTTCTACTGCGATGTCCCCC	0.493													28	108					0	0	0.008361	0	0		T	59282922	T	T	59282922	2	4	61	1	0	0	0	0	0	0	0	1	11078	776	27	1		1	OR4D9	11	59282922	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3052131	59282922	75723594	491	42497											
ATG2A	23130	broad.mit.edu	37	chr11	64679671	64679671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaatcagccacaggtcttCggcacctagcgggcggctct	7	8	11	15	3	4	0	2	0	2	0	5	0	4	0	2	4	2	2	2	4	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:64679671C>T	uc001obx.2	-	8	1088	c.973G>A	c.(973-975)GAA>AAA	p.E325K		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	325							protein binding			ovary(1)|central_nervous_system(1)	2						CACAGGTCTTCGGCACCTAGC	0.652													15	61					0	0	0.00245	0	0		T	64679671	T	T	64679671	3	4	61	1	0	0	0	0	1	0	0	0	1094	893	31	1	4979	1	ATG2A	11	64679671	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5396749	64679671	70326845	492	42498											
DKFZp761E198	91056	broad.mit.edu	37	chr11	65545526	65545526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaaaaggctccaggtggCgggacaccaagccctccagg	11	3	12	15	1	0	0	0	0	0	0	2	1	2	1	5	5	1	1	5	5	3	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:65545526C>T	uc001ofo.3	-	1	2297	c.2267G>A	c.(2266-2268)CGC>CAC	p.R756H		NM_138368	NP_612377	Q2VPB7	YK046_HUMAN	hypothetical protein LOC91056	756							protein binding				0				READ - Rectum adenocarcinoma(159;0.167)		CTCCAGGTGGCGGGACACCAA	0.637													7	38					0	0	0.001984	0	0		T	65545526	T	T	65545526	3	4	61	1	0	0	0	0	1	0	0	0	4549	768	27	1	202	1	DKFZp761E198	11	65545526	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	865855	65545526	69460990	493	42499											
CNIH2	254263	broad.mit.edu	37	chr11	66050763	66050763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctgaggtcatgtatgatgCggtctccatcatgaatgctg	8	13	11	9	1	4	3	2	3	2	0	5	3	4	3	1	2	2	2	1	2	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:66050763C>T	uc001ohi.1	+	5	588	c.356C>T	c.(355-357)GCG>GTG	p.A119V	CNIH2_uc001ohh.2_Missense_Mutation_p.A119V|CNIH2_uc009yrb.1_RNA	NM_182553	NP_872359	Q6PI25	CNIH2_HUMAN	cornichon homolog 2	119	Cytoplasmic (Potential).				intracellular signal transduction|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic shaft|dendritic spine|endoplasmic reticulum membrane|postsynaptic density|postsynaptic membrane	protein binding				0						ATGTATGATGCGGTCTCCATC	0.547											OREG0021100	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	137					0	0	0.010504	0	0		T	66050763	T	T	66050763	3	4	61	1	0	0	0	0	1	0	0	0	3606	768	27	1	374	1	CNIH2	11	66050763	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	505237	66050763	68955753	494	42500											
TBX10	347853	broad.mit.edu	37	chr11	67402652	67402652	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgggaatggtgaccccagCcggggctcccagccagagct	8	5	15	13	1	0	2	0	1	0	1	1	4	1	3	5	4	3	2	5	4	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:67402652C>T	uc001omp.2	-	2	178	c.90G>A	c.(88-90)CGG>CGA	p.R30R		NM_005995	NP_005986	O75333	TBX10_HUMAN	T-box 10	30					anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GTGACCCCAGCCGGGGCTCCC	0.642													14	44					0	0	0.00245	0	0		T	67402652	T	T	67402652	2	4	61	1	0	0	0	0	0	0	0	1	15676	726	26	2		2	TBX10	11	67402652	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1351889	67402652	67603864	495	42501											
SAPS3	55291	broad.mit.edu	37	chr11	68338536	68338536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaatgtcaattaatagaacGaatacttgaagcctgggaaa	19	9	8	5	1	1	2	1	1	0	1	1	4	1	3	1	1	3	0	1	1	10	4	rs148673066		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:68338536G>A	uc001onw.2	+	12	1574	c.1307G>A	c.(1306-1308)CGA>CAA	p.R436Q	SAPS3_uc001onv.2_Missense_Mutation_p.R436Q|SAPS3_uc001ony.3_Missense_Mutation_p.R436Q|SAPS3_uc001onx.2_Missense_Mutation_p.R436Q|SAPS3_uc009ysh.2_Missense_Mutation_p.R385Q|SAPS3_uc001onu.2_Missense_Mutation_p.R385Q|SAPS3_uc010rqc.1_Missense_Mutation_p.R204Q|SAPS3_uc010rqd.1_Missense_Mutation_p.R148Q	NM_001164161	NP_001157633	Q5H9R7	PP6R3_HUMAN	SAPS domain family, member 3 isoform 6	436					regulation of phosphoprotein phosphatase activity	cytoplasm|nucleus	protein phosphatase binding				0			LUAD - Lung adenocarcinoma(13;0.102)			TTAATAGAACGAATACTTGAA	0.284													5	25					0	0	0.001984	0	0		A	68338536	A	A	68338536	3	1	61	1	0	0	0	0	1	0	0	0	13863	1058	37	1	1345	1	SAPS3	11	68338536	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	935884	68338536	66667980	496	42502											
MRGPRD	116512	broad.mit.edu	37	chr11	68748320	68748320	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagccagatcaccatgcTgttgcctgccatcccgcaca	9	7	8	17	1	1	1	1	0	0	1	2	1	2	1	5	0	5	4	5	0	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:68748320T>G	uc010rqf.1	-	1	136	c.136A>C	c.(136-138)AGC>CGC	p.S46R		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	46	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			ATCACCATGCTGTTGCCTGCC	0.582													6	35					0	0	0.001168	0	0		G	68748320	G	G	68748320	3	3	61	1	0	0	0	0	1	0	0	0	9781	1580	55	5	832	5	MRGPRD	11	68748320	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	409784	68748320	66258196	497	42503											
TPCN2	219931	broad.mit.edu	37	chr11	68835058	68835058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctggtgctgctgaccacgGccaacaaccccgatggtgcg	7	7	12	15	3	0	1	0	1	0	0	1	2	1	1	5	3	5	2	5	3	2	0	rs142288453	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:68835058G>A	uc001oos.2	+	8	930	c.814G>A	c.(814-816)GCC>ACC	p.A272T	TPCN2_uc009ysk.1_Intron|TPCN2_uc001oor.2_Missense_Mutation_p.A187T|TPCN2_uc010rqg.1_Missense_Mutation_p.A272T	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	272					cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			GCTGACCACGGCCAACAACCC	0.637													15	30					0	0	0.003163	0	0		A	68835058	A	A	68835058	3	1	61	1	0	0	0	0	1	0	0	0	16422	1203	42	2	844	2	TPCN2	11	68835058	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	86738	68835058	66171458	498	42504											
CTTN	2017	broad.mit.edu	37	chr11	70266595	70266595	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggatcaccaggagaaattgCagctgcatgaatcccaaaaa	16	6	10	9	0	1	2	1	1	0	1	2	4	2	3	2	2	3	3	2	2	4	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:70266595C>T	uc001opv.3	+	10	975	c.769C>T	c.(769-771)CAG>TAG	p.Q257*	CTTN_uc001opu.2_Nonsense_Mutation_p.Q257*|CTTN_uc001opw.3_Nonsense_Mutation_p.Q257*|CTTN_uc010rqm.1_5'UTR|CTTN_uc001opx.2_5'Flank	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	257	Cortactin 5.					cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		GGAGAAATTGCAGCTGCATGA	0.448													14	40					0	0	0.00245	0	0		T	70266595	T	T	70266595	4	4	61	1	0	0	0	0	0	1	0	0	4047	711	25	2	799	2	CTTN	11	70266595	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1431537	70266595	64739921	499	42505											
FOLR1	2348	broad.mit.edu	37	chr11	71906954	71906954	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctacagggtttaacaagtgCgcagtgggagctgcctgcca	9	9	13	10	1	1	0	0	0	1	0	1	1	1	1	2	2	6	3	2	2	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:71906954C>T	uc001orz.1	+	6	645	c.507C>T	c.(505-507)TGC>TGT	p.C169C	FOLR1_uc001osa.1_Silent_p.C169C|FOLR1_uc001osb.1_Silent_p.C169C|FOLR1_uc001osc.1_Silent_p.C169C|FOLR1_uc001osd.1_Silent_p.C169C	NM_016724	NP_057936	P15328	FOLR1_HUMAN	folate receptor 1 precursor	169					cell death|folic acid transport|receptor-mediated endocytosis	anchored to membrane|extracellular region|integral to plasma membrane|membrane fraction	folic acid binding|receptor activity			ovary(1)	1						TTAACAAGTGCGCAGTGGGAG	0.512													5	74					0	0	0.000602	0	0		T	71906954	T	T	71906954	2	4	61	1	0	0	0	0	0	0	0	1	5995	776	27	1		1	FOLR1	11	71906954	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1640359	71906954	63099562	500	42506											
RELT	84957	broad.mit.edu	37	chr11	73106534	73106534	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagagcaacctggtcatcTgaggggcggtctagtctaag	9	9	15	8	1	4	2	1	2	3	1	4	3	4	2	1	4	2	1	1	4	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:73106534T>C	uc001otv.2	+	11	1456	c.1291T>C	c.(1291-1293)TGA>CGA	p.*431R	RELT_uc001otw.2_Nonstop_Mutation_p.*431R|RELT_uc001otx.2_RNA	NM_152222	NP_689408	Q969Z4	TR19L_HUMAN	RELT tumor necrosis factor receptor precursor	431						cytoplasm|integral to membrane|plasma membrane	binding|receptor activity			upper_aerodigestive_tract(1)	1						cctggtcatctgaggggcggt	0.03													11	48					0	0	0.013537	0	0		C	73106534	C	C	73106534	4	2	61	1	0	0	0	0	0	0	0	0	13246	1593	55	3	1329	3	RELT	11	73106534	Nonstop_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	1199580	73106534	61899982	501	42507											
NEU3	10825	broad.mit.edu	37	chr11	74717419	74717419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtttgtttgaatgtgggaCcaagcaagagtgtgagcaga	11	11	15	4	0	0	4	0	2	0	2	0	5	0	5	1	1	2	4	1	1	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:74717419C>T	uc001ovw.2	+	3	1424	c.1268C>T	c.(1267-1269)ACC>ATC	p.T423I	NEU3_uc001ovv.2_Missense_Mutation_p.T413I|NEU3_uc010rrl.1_Missense_Mutation_p.T314I	NM_006656	NP_006647	A8K327	A8K327_HUMAN	sialidase 3	423										ovary(2)	2						GAATGTGGGACCAAGCAAGAG	0.587													16	88					0	0	0.00499	0	0		T	74717419	T	T	74717419	3	4	61	1	0	0	0	0	1	0	0	0	10362	507	18	4	1278	4	NEU3	11	74717419	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1610885	74717419	60289097	502	42508											
PRKRIR	5612	broad.mit.edu	37	chr11	76062779	76062779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaaaatctgacactgcaCtgcagagtacaaatgctcgg	15	8	8	10	1	2	2	1	1	1	1	3	2	2	2	0	1	4	4	0	1	5	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:76062779C>T	uc001oxh.1	-	5	1415	c.1415G>A	c.(1414-1416)AGT>AAT	p.S472N	PRKRIR_uc010rrz.1_Missense_Mutation_p.S297N	NM_004705	NP_004696	O43422	P52K_HUMAN	protein-kinase, interferon-inducible double	472					negative regulation of cell proliferation|response to stress|signal transduction		DNA binding|metal ion binding|protein dimerization activity			ovary(2)|pancreas(1)	3						TGACACTGCACTGCAGAGTAC	0.368													14	69					0	0	0.003163	0	0		T	76062779	T	T	76062779	3	4	61	1	0	0	0	0	1	0	0	0	12548	565	20	4	874	4	PRKRIR	11	76062779	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1345360	76062779	58943737	503	42509											
LRRC32	2615	broad.mit.edu	37	chr11	76372210	76372210	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtgcctcccccagcagccGctccagcaggccgctgtaca	6	5	12	18	2	0	0	0	0	0	0	2	0	2	0	6	2	5	5	6	2	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:76372210G>A	uc001oxq.3	-	3	670	c.427C>T	c.(427-429)CGG>TGG	p.R143W	LRRC32_uc001oxr.3_Missense_Mutation_p.R143W|LRRC32_uc010rsf.1_Missense_Mutation_p.R143W	NM_005512	NP_005503	Q14392	LRC32_HUMAN	leucine rich repeat containing 32 precursor	143	Extracellular (Potential).|LRR 4.					integral to plasma membrane					0						CCCAGCAGCCGCTCCAGCAGG	0.687													8	28					0	0	0.004482	0	0		A	76372210	A	A	76372210	3	1	61	1	0	0	0	0	1	0	0	0	9005	1086	38	1	1565	1	LRRC32	11	76372210	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	309431	76372210	58634306	504	42510											
CCDC90B	60492	broad.mit.edu	37	chr11	82989836	82989836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttgataaagcagttaacGctgatacaattgtttctgct	12	15	7	7	1	1	2	0	2	1	0	1	2	1	2	0	0	4	5	0	0	5	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:82989836G>A	uc001pae.2	-	3	619	c.257C>T	c.(256-258)GCG>GTG	p.A86V	CCDC90B_uc001pac.2_5'UTR|CCDC90B_uc001pad.2_5'UTR|CCDC90B_uc001paf.2_Missense_Mutation_p.A77V	NM_021825	NP_068597	Q9GZT6	CC90B_HUMAN	coiled-coil domain containing 90B precursor	86						integral to membrane|mitochondrion|mitochondrion					0		Acute lymphoblastic leukemia(157;0.103)				AGCAGTTAACGCTGATACAAT	0.333													11	84					0	0	0.013537	0	0		A	82989836	A	A	82989836	3	1	61	1	0	0	0	0	1	0	0	0	2872	1087	38	1	535	1	CCDC90B	11	82989836	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	6617626	82989836	52016680	505	42511											
HEPHL1	341208	broad.mit.edu	37	chr11	93796776	93796776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccggtgagagaagaatatgCacctactccagccgatgcca	12	6	11	12	2	0	3	0	1	0	2	1	5	1	3	5	1	4	1	5	1	4	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:93796776C>T	uc001pep.2	+	3	675	c.518C>T	c.(517-519)GCA>GTA	p.A173V		NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	173	Plastocyanin-like 1.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				GAAGAATATGCACCTACTCCA	0.537													7	55					0	0	0.00308	0	0		T	93796776	T	T	93796776	3	4	61	1	0	0	0	0	1	0	0	0	7071	710	25	2	528	2	HEPHL1	11	93796776	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	10806940	93796776	41209740	506	42512											
KBTBD3	143879	broad.mit.edu	37	chr11	105929633	105929633	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaacacacaacgatgacaCgggattatttcatctttcat	13	12	6	10	2	3	1	2	1	1	0	3	3	3	2	0	1	2	1	0	1	3	4	rs73554750	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:105929633C>T	uc001pja.2	-	3	832	c.192G>A	c.(190-192)CCG>CCA	p.P64P	KBTBD3_uc001pjb.2_Silent_p.P64P|KBTBD3_uc009yxm.2_Intron	NM_198439	NP_940841	Q8NAB2	KBTB3_HUMAN	BTB and kelch domain containing 3	60	BTB.									ovary(1)|central_nervous_system(1)	2		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.43e-05)|Epithelial(105;0.00418)|all cancers(92;0.0299)		AACGATGACACGGGATTATTT	0.303													7	35					0	0	0.001984	0	0		T	105929633	T	T	105929633	2	4	61	1	0	0	0	0	0	0	0	1	8010	523	19	1		1	KBTBD3	11	105929633	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	12132857	105929633	29076883	507	42513											
ATM	472	broad.mit.edu	37	chr11	108160475	108160475	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtggcttaggaggagcttgGgcctttgttcttcgagacgt	6	13	15	7	2	1	1	0	0	1	1	2	4	1	3	1	4	1	3	1	4	1	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:108160475G>T	uc001pkb.1	+	29	4768	c.4383G>T	c.(4381-4383)TGG>TGT	p.W1461C	ATM_uc009yxr.1_Missense_Mutation_p.W1461C|ATM_uc001pkd.3_Missense_Mutation_p.W113C|ATM_uc001pke.1_Missense_Mutation_p.W113C|ATM_uc010rvw.1_Missense_Mutation_p.W113C|ATM_uc001pkf.2_Missense_Mutation_p.W113C	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1461					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		GAGGAGCTTGGGCCTTTGTTC	0.299			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			9	39					0.000442599	0.000461331	0.006214	1	0		T	108160475	T	T	108160475	3	4	61	1	0	0	0	0	1	0	0	0	1110	1241	43	5	4493	5	ATM	11	108160475	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2230842	108160475	26846041	508	42514											
ZC3H12C	85463	broad.mit.edu	37	chr11	110035729	110035729	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgggagcagtgactcctAcgtgggttacaatgaccggt	8	10	14	9	2	0	2	0	2	0	0	1	3	1	3	2	3	3	2	2	3	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:110035729A>G	uc009yxw.2	+	6	1970	c.1919A>G	c.(1918-1920)TAC>TGC	p.Y640C	ZC3H12C_uc010rwc.1_Missense_Mutation_p.Y641C|ZC3H12C_uc010rwd.1_Missense_Mutation_p.Y641C|ZC3H12C_uc001pkr.3_Missense_Mutation_p.Y609C	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	640							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		AGTGACTCCTACGTGGGTTAC	0.512													13	57					0	0	0.013537	0	0		G	110035729	G	G	110035729	3	3	61	1	0	0	0	0	1	0	0	0	17588	391	14	3	1941	3	ZC3H12C	11	110035729	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1875254	110035729	24970787	509	42515											
ARHGAP20	57569	broad.mit.edu	37	chr11	110451319	110451319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcacgtgatttccttcactaCcagacaagcttttcttctta	9	16	4	12	1	4	2	2	1	2	1	5	2	5	2	2	0	2	1	2	0	3	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:110451319C>T	uc001pkz.1	-	16	2636	c.2351G>A	c.(2350-2352)GGT>GAT	p.G784D	ARHGAP20_uc001pky.1_Missense_Mutation_p.G761D|ARHGAP20_uc009yyb.1_Missense_Mutation_p.G748D|ARHGAP20_uc001pla.1_Missense_Mutation_p.G748D|ARHGAP20_uc001plb.2_Missense_Mutation_p.G327D	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	784					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		TCCTTCACTACCAGACAAGCT	0.413													12	99					0	0	0.013537	0	0		T	110451319	T	T	110451319	3	4	61	1	0	0	0	0	1	0	0	0	870	507	18	4	1228	4	ARHGAP20	11	110451319	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	415590	110451319	24555197	510	42516											
USP28	57646	broad.mit.edu	37	chr11	113699980	113699980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caacatcaccctccaccatgGccccttccaaacactcgtct	10	8	3	20	1	2	0	1	0	1	0	5	0	4	0	6	1	2	0	6	1	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:113699980G>A	uc001poh.2	-	10	1031	c.998C>T	c.(997-999)GCC>GTC	p.A333V	USP28_uc001pog.2_Missense_Mutation_p.A41V|USP28_uc010rwy.1_Missense_Mutation_p.A208V|USP28_uc001poi.2_5'UTR|USP28_uc001poj.3_Missense_Mutation_p.A333V	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	333					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		CTCCACCATGGCCCCTTCCAA	0.478													10	38					0	0	0.010729	0	0		A	113699980	A	A	113699980	3	1	61	1	0	0	0	0	1	0	0	0	17084	1203	42	2	2299	2	USP28	11	113699980	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3248661	113699980	21306536	511	42517											
IL10RA	3587	broad.mit.edu	37	chr11	117869725	117869725	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagcagcaatagcacagAcagcgggatctgcctgcagg	11	5	14	11	1	1	1	0	0	1	1	1	2	1	2	1	3	6	5	1	3	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:117869725A>C	uc001prv.2	+	7	1183	c.1106A>C	c.(1105-1107)GAC>GCC	p.D369A	IL10RA_uc010rxl.1_Missense_Mutation_p.D349A|IL10RA_uc010rxm.1_Missense_Mutation_p.D349A|IL10RA_uc010rxn.1_Missense_Mutation_p.D220A|IL10RA_uc001prw.2_Missense_Mutation_p.D220A	NM_001558	NP_001549	Q13651	I10R1_HUMAN	interleukin 10 receptor, alpha precursor	369	Cytoplasmic (Potential).					integral to membrane|plasma membrane	interleukin-10 receptor activity			ovary(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)|Epithelial(105;0.00108)		AATAGCACAGACAGCGGGATC	0.662													6	22					0	0	0.001168	0	0		C	117869725	C	C	117869725	3	2	61	1	0	0	0	0	1	0	0	0	7636	275	10	5	1132	5	IL10RA	11	117869725	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	4169745	117869725	17136791	512	42518											
MPZL3	196264	broad.mit.edu	37	chr11	118122995	118122995	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccacggcttccagctgcTcctctctgctgcatcccggc	4	9	9	19	2	1	0	0	0	1	0	5	0	4	0	4	2	5	5	4	2	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:118122995T>G	uc001psm.2	-	1	17	c.15A>C	c.(13-15)GGA>GGC	p.G5G	MPZL3_uc010rxy.1_Silent_p.G5G|MPZL3_uc010rxz.1_RNA|MPZL3_uc009yzy.2_RNA	NM_198275	NP_938016	Q6UWV2	MPZL3_HUMAN	myelin protein zero-like 3 precursor	5					cell adhesion	integral to membrane					0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		TTCCAGCTGCTCCTCTCTGCT	0.622													7	53					0	0	0.001984	0	0		G	118122995	G	G	118122995	2	3	61	1	0	0	0	0	0	0	0	1	9769	1538	54	5		5	MPZL3	11	118122995	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	253270	118122995	16883521	513	42519											
MLL	4297	broad.mit.edu	37	chr11	118343010	118343010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagcaactcttacagagggCaaaaaagggggctcaaaaga	18	5	11	7	0	2	2	1	0	1	2	2	2	2	2	0	3	3	3	0	3	8	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:118343010C>T	uc001pta.2	+	3	1159	c.1136C>T	c.(1135-1137)GCA>GTA	p.A379V	MLL_uc001ptb.2_Missense_Mutation_p.A379V|MLL_uc001psz.1_Missense_Mutation_p.A412V|MLL_uc001ptd.1_Intron	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	379					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TTACAGAGGGCAAAAAAGGGG	0.423			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								15	52					0	0	0.003163	0	0		T	118343010	T	T	118343010	3	4	61	1	0	0	0	0	1	0	0	0	9638	710	25	2	1146	2	MLL	11	118343010	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	220015	118343010	16663506	514	42520											
MFRP	83552	broad.mit.edu	37	chr11	119212679	119212679	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcacatctccacctggacaGgctcacaggccagctctgca	9	6	10	16	0	3	0	1	0	2	0	4	1	3	1	3	4	2	4	3	4	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:119212679G>T	uc001pwj.2	-	12	1563	c.1403C>A	c.(1402-1404)CCT>CAT	p.P468H	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Intron	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		CACCTGGACAGGCTCACAGGC	0.622													4	40					0.000602214	0.000627085	0.000602	1	0		T	119212679	T	T	119212679	3	4	61	1	0	0	0	0	1	0	0	0	9544	1000	35	5	344	5	MFRP	11	119212679	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	869669	119212679	15793837	515	42521											
GRIK4	2900	broad.mit.edu	37	chr11	120827494	120827494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttttctcccacaggttgaCgccctacgagtggtacagcc	7	10	9	15	2	1	1	0	1	1	0	2	2	1	1	4	2	3	2	4	2	2	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:120827494C>T	uc001pxn.2	+	16	1993	c.1706C>T	c.(1705-1707)ACG>ATG	p.T569M	GRIK4_uc009zav.1_Missense_Mutation_p.T569M|GRIK4_uc009zaw.1_Missense_Mutation_p.T569M|GRIK4_uc009zax.1_Missense_Mutation_p.T569M	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	569	Cytoplasmic (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	CACAGGTTGACGCCCTACGAG	0.418													11	63					0	0	0.010729	0	0		T	120827494	T	T	120827494	3	4	61	1	0	0	0	0	1	0	0	0	6792	536	19	1	1760	1	GRIK4	11	120827494	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1614815	120827494	14179022	516	42522											
TECTA	7007	broad.mit.edu	37	chr11	121016339	121016339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttcctttggcttccacGtggtggtggaaactgatttt	5	18	10	8	1	1	1	0	1	1	0	3	2	3	2	2	4	1	1	2	4	1	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:121016339G>A	uc010rzo.1	+	11	3619	c.3619G>A	c.(3619-3621)GTG>ATG	p.V1207M		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1207	VWFD 3.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TGGCTTCCACGTGGTGGTGGA	0.502													20	142					0	0	0.008871	0	0		A	121016339	A	A	121016339	3	1	61	1	0	0	0	0	1	0	0	0	15772	1145	40	1	3661	1	TECTA	11	121016339	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	188845	121016339	13990177	517	42523											
C11orf63	79864	broad.mit.edu	37	chr11	122817342	122817342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaggggccttatccagcGtcacgcttccacctatactg	8	10	10	13	2	1	1	1	1	0	0	3	1	3	1	4	2	2	1	4	2	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:122817342G>A	uc001pym.2	+	6	2068	c.1771G>A	c.(1771-1773)GTC>ATC	p.V591I		NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	591										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		CTTATCCAGCGTCACGCTTCC	0.502													11	41					0	0	0.008291	0	0		A	122817342	A	A	122817342	3	1	61	1	0	0	0	0	1	0	0	0	1657	1145	40	1	1853	1	C11orf63	11	122817342	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1801003	122817342	12189174	518	42524											
SRPR	6734	broad.mit.edu	37	chr11	126135176	126135176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgaccttggcaagattaGtagatttccccactccatta	11	12	6	12	0	0	3	0	1	0	2	2	3	2	3	4	1	0	2	4	1	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:126135176G>A	uc001qdh.2	-	10	1349	c.1298C>T	c.(1297-1299)ACT>ATT	p.T433I	SRPR_uc010sbm.1_Missense_Mutation_p.T405I	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	433					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		GGCAAGATTAGTAGATTTCCC	0.507													8	37					0	0	0.004482	0	0		A	126135176	A	A	126135176	3	1	61	1	0	0	0	0	1	0	0	0	15187	1029	36	4	638	4	SRPR	11	126135176	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3317834	126135176	8871340	519	42525											
KIRREL3	84623	broad.mit.edu	37	chr11	126314880	126314880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgagggtcttaccattgaCggtcagggtcacctctctct	7	11	11	12	2	5	1	2	1	3	0	6	2	5	1	2	3	2	0	2	3	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:126314880C>T	uc001qea.2	-	10	1607	c.1246G>A	c.(1246-1248)GTC>ATC	p.V416I	KIRREL3_uc001qeb.2_Missense_Mutation_p.V416I|KIRREL3_uc001qec.1_Missense_Mutation_p.V416I	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	416	Extracellular (Potential).				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		TTACCATTGACGGTCAGGGTC	0.652													9	47					0	0	0.004482	0	0		T	126314880	T	T	126314880	3	4	61	1	0	0	0	0	1	0	0	0	8342	536	19	1	1229	1	KIRREL3	11	126314880	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	179704	126314880	8691636	520	42526											
ETS1	2113	broad.mit.edu	37	chr11	128391832	128391832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaggggaaaagctccagatCgactttttccgtcttgatga	10	11	12	8	2	1	3	0	2	1	1	4	6	3	5	2	3	1	1	2	3	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:128391832C>T	uc010sbs.1	-	1	374	c.58G>A	c.(58-60)GAT>AAT	p.D20N	ETS1_uc001qej.2_Intron|ETS1_uc009zch.2_Missense_Mutation_p.D20N|ETS1_uc009zcg.2_Missense_Mutation_p.D20N	NM_005238	NP_005229	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	20					cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)		AGCTCCAGATCGACTTTTTCC	0.627													4	43					0	0	0.009096	0	0		T	128391832	T	T	128391832	3	4	61	1	0	0	0	0	1	0	0	0	5283	884	31	1	1299	1	ETS1	11	128391832	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2076952	128391832	6614684	521	42527											
ARHGAP32	9743	broad.mit.edu	37	chr11	128842462	128842462	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggggacgattagttctgtgCgtgcgctgaagtgtggcagc	7	10	17	7	3	1	1	0	1	1	0	1	3	1	2	0	3	3	3	0	3	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:128842462C>T	uc009zcp.2	-	21	3897	c.3897G>A	c.(3895-3897)ACG>ACA	p.T1299T	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Silent_p.T258T|ARHGAP32_uc001qez.2_Silent_p.T950T	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1299					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TAGTTCTGTGCGTGCGCTGAA	0.552													13	60					0	0	0.013537	0	0		T	128842462	T	T	128842462	2	4	61	1	0	0	0	0	0	0	0	1	881	755	27	1		1	ARHGAP32	11	128842462	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	450630	128842462	6164054	522	42528											
KCNA1	3736	broad.mit.edu	37	chr12	5021217	5021217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagaccccttcttcatcgtgGaaacgctgtgtatcatctgg	8	12	9	12	2	4	1	2	0	2	1	5	2	4	2	2	2	1	2	2	2	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:5021217G>A	uc001qnh.2	+	2	1778	c.673G>A	c.(673-675)GAA>AAA	p.E225K		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	225	Helical; Name=Segment S2; (Potential).				synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CTTCATCGTGGAAACGCTGTG	0.512													8	65					0	0	0.00308	0	0		A	5021217	A	A	5021217	3	1	61	1	0	0	0	0	1	0	0	0	8017	1175	41	4	675	4	KCNA1	12	5021217	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08		5021217	128830678	523	42529											
VWF	7450	broad.mit.edu	37	chr12	6120863	6120863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacgaaggcctcagccccCggtcacagttgacccgatga	9	5	12	15	3	2	2	2	2	0	0	2	4	2	2	4	3	1	2	4	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:6120863C>T	uc001qnn.1	-	34	6012	c.5762G>A	c.(5761-5763)CGG>CAG	p.R1921Q	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1921					blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CCTCAGCCCCCGGTCACAGTT	0.617													5	18					0	0	0.000602	0	0		T	6120863	T	T	6120863	3	4	61	1	0	0	0	0	1	0	0	0	17272	652	23	1	2755	1	VWF	12	6120863	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1099646	6120863	127731032	524	42530											
CHD4	1108	broad.mit.edu	37	chr12	6703729	6703729	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgagcccaggagaagcgcaAccaattcaggccctccattt	11	7	9	14	1	1	2	1	1	0	1	2	3	2	2	4	2	3	1	4	2	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:6703729A>G	uc001qpo.2	-	15	2373	c.2209T>C	c.(2209-2211)TTG>CTG	p.L737L	CHD4_uc001qpn.2_Silent_p.L730L|CHD4_uc001qpp.2_Silent_p.L734L	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	737					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						GAGAAGCGCAACCAATTCAGG	0.517													12	48					0	0	0.013537	0	0		G	6703729	G	G	6703729	2	3	61	1	0	0	0	0	0	0	0	1	3330	40	2	3		3	CHD4	12	6703729	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	582866	6703729	127148166	525	42531											
LPAR5	57121	broad.mit.edu	37	chr12	6729440	6729440	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgcgcgagcgccgcccgCgtcccgttggtggccgaggt	3	7	17	14	8	0	0	0	0	0	0	1	3	1	0	4	3	2	1	4	3	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:6729440C>T	uc009zer.2	-	2	1256	c.975G>A	c.(973-975)ACG>ACA	p.T325T	LPAR5_uc001qps.2_Silent_p.T325T|LPAR5_uc010sff.1_Silent_p.T325T	NM_001142961	NP_001136433	Q9H1C0	LPAR5_HUMAN	lysophosphatidic acid receptor 5	325	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2						GCGCCGCCCGCGTCCCGTTGG	0.716													3	13					0	0	0.004672	0	0		T	6729440	T	T	6729440	2	4	61	1	0	0	0	0	0	0	0	1	8926	755	27	1		1	LPAR5	12	6729440	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	25711	6729440	127122455	526	42532											
ENO2	2026	broad.mit.edu	37	chr12	7030885	7030885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgggcagtggaagaaaaggCctgcaactgtctgctgctca	10	7	14	10	1	2	1	1	0	1	1	2	2	2	2	1	3	4	4	1	3	4	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:7030885C>T	uc001qru.1	+	9	1229	c.1007C>T	c.(1006-1008)GCC>GTC	p.A336V	ENO2_uc009zfi.1_Missense_Mutation_p.A336V|ENO2_uc010sfq.1_Missense_Mutation_p.A293V|ENO2_uc001qrv.1_Missense_Mutation_p.A336V|ATN1_uc001qrw.1_5'Flank	NM_001975	NP_001966	P09104	ENOG_HUMAN	enolase 2	336					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex|plasma membrane	magnesium ion binding|phosphopyruvate hydratase activity				0						GAAGAAAAGGCCTGCAACTGT	0.547													11	47					0	0	0.010729	0	0		T	7030885	T	T	7030885	3	4	61	1	0	0	0	0	1	0	0	0	5130	739	26	2	1037	2	ENO2	12	7030885	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	301445	7030885	126821010	527	42533											
PHB2	11331	broad.mit.edu	37	chr12	7075615	7075615	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actttcatcctgtaggttcaGcacaaggttgtcagctgtga	9	13	10	9	0	3	1	3	1	0	0	4	1	4	1	1	2	2	5	1	2	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:7075615G>A	uc001qsd.2	-	8	1048	c.838C>T	c.(838-840)CTG>TTG	p.L280L	PHB2_uc010sft.1_Silent_p.L242L|PHB2_uc001qse.1_RNA|PHB2_uc001qsf.1_RNA|PHB2_uc009zfn.1_Intron	NM_001144831	NP_001138303	Q99623	PHB2_HUMAN	prohibitin 2 isoform 1	280					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial inner membrane|nucleus	estrogen receptor binding|receptor activity			ovary(2)|pancreas(1)	3						TGTAGGTTCAGCACAAGGTTG	0.483													14	61					0	0	0.00245	0	0		A	7075615	A	A	7075615	2	1	61	1	0	0	0	0	0	0	0	1	11834	962	34	2		2	PHB2	12	7075615	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	44730	7075615	126776280	528	42534											
FAM90A1	55138	broad.mit.edu	37	chr12	8374554	8374554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgagcgaggaaggctcccGgcttctcaggagagtgaaat	10	8	14	9	2	2	3	1	2	2	1	4	6	3	4	1	4	1	2	1	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:8374554G>A	uc001qui.2	-	7	1818	c.1259C>T	c.(1258-1260)CCG>CTG	p.P420L	FAM90A1_uc001quh.2_Missense_Mutation_p.P420L	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	420							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		GAAGGCTCCCGGCTTCTCAGG	0.602													6	26					0	0	0.001168	0	0		A	8374554	A	A	8374554	3	1	61	1	0	0	0	0	1	0	0	0	5664	1116	39	1	139	1	FAM90A1	12	8374554	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1298939	8374554	125477341	529	42535											
MFAP5	8076	broad.mit.edu	37	chr12	8803134	8803134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgaatgcattgtttaaccGgccgatgcacagagtagagc	12	9	12	8	2	0	3	0	1	0	2	0	5	0	3	2	1	4	4	2	1	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:8803134G>A	uc001qut.1	-	8	512	c.299C>T	c.(298-300)CCG>CTG	p.P100L	MFAP5_uc001qus.2_Missense_Mutation_p.P90L|MFAP5_uc009zge.1_Missense_Mutation_p.P75L	NM_003480	NP_003471	Q13361	MFAP5_HUMAN	microfibrillar associated protein 5 precursor	100						microfibril	extracellular matrix structural constituent			breast(1)	1	Lung SC(5;0.184)					TTGTTTAACCGGCCGATGCAC	0.433													9	53					0	0	0.010729	0	0		A	8803134	A	A	8803134	3	1	61	1	0	0	0	0	1	0	0	0	9536	1116	39	1	234	1	MFAP5	12	8803134	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	428580	8803134	125048761	530	42536											
A2ML1	144568	broad.mit.edu	37	chr12	8988128	8988128	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatagcaacaggattgcacAgtggctggaagtggtacctg	13	8	13	7	0	0	0	0	0	0	0	0	2	0	2	1	4	4	4	1	4	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:8988128A>C	uc001quz.3	+	6	607	c.509A>C	c.(508-510)CAG>CCG	p.Q170P		NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	14						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						AGGATTGCACAGTGGCTGGAA	0.522													5	59					0	0	0.000602	0	0		C	8988128	C	C	8988128	3	2	61	1	0	0	0	0	1	0	0	0	5	188	7	5	531	5	A2ML1	12	8988128	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	184994	8988128	124863767	531	42537											
STYK1	55359	broad.mit.edu	37	chr12	10782235	10782235	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattgatggaattggattcGccctaagaaatcttgtacct	11	14	9	7	1	1	2	0	1	1	1	2	4	1	4	2	2	1	2	2	2	5	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:10782235G>A	uc001qys.2	-	6	1011	c.490C>T	c.(490-492)CGA>TGA	p.R164*		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	164	Protein kinase.					integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						AATTGGATTCGCCCTAAGAAA	0.512										HNSCC(73;0.22)			10	35					0	0	0.006214	0	0		A	10782235	A	A	10782235	4	1	61	1	0	0	0	0	0	1	0	0	15384	1095	38	1	802	1	STYK1	12	10782235	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1794107	10782235	123069660	532	42538											
GRIN2B	2904	broad.mit.edu	37	chr12	13716277	13716277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcgtaggagtgctgccggcGcagtttgttccggttcttct	3	14	14	10	4	2	0	0	0	2	0	4	1	3	1	2	3	2	6	2	3	1	5	rs45540034		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:13716277G>A	uc001rbt.2	-	13	4074	c.3895C>T	c.(3895-3897)CGC>TGC	p.R1299C		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1299	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TGCTGCCGGCGCAGTTTGTTC	0.612													14	98					0	0	0.003163	0	0		A	13716277	A	A	13716277	3	1	61	1	0	0	0	0	1	0	0	0	6796	1087	38	1	563	1	GRIN2B	12	13716277	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2934042	13716277	120135618	533	42539											
C12orf69	440087	broad.mit.edu	37	chr12	14959221	14959221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagcccacaagtttaacagCgactgcactggctgcagatg	11	8	11	11	1	0	2	0	1	0	1	0	3	0	2	1	1	5	4	1	1	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:14959221C>T	uc001rck.1	-	2	467	c.394G>A	c.(394-396)GCT>ACT	p.A132T	WBP11_uc001rci.2_5'Flank|C12orf60_uc001rcj.3_Intron	NM_001013698	NP_001013720	A2RU48	CL069_HUMAN	hypothetical protein LOC440087	132						integral to membrane					0						AGTTTAACAGCGACTGCACTG	0.418													7	98					0	0	0.00308	0	0		T	14959221	T	T	14959221	3	4	61	1	0	0	0	0	1	0	0	0	1714	768	27	1	287	1	C12orf69	12	14959221	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1242944	14959221	118892674	534	42540											
TMTC1	83857	broad.mit.edu	37	chr12	29757135	29757135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtaaaggactctctccGccaccacaaaacccaccctg	12	6	6	17	1	1	0	0	0	1	0	3	1	2	1	5	1	1	2	5	1	4	1	rs144467040		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:29757135G>A	uc001rjb.2	-	7	1376	c.902C>T	c.(901-903)GCG>GTG	p.A301V	TMTC1_uc001riz.2_Missense_Mutation_p.A58V|TMTC1_uc001rja.2_Missense_Mutation_p.A145V|TMTC1_uc001rjc.1_Missense_Mutation_p.A363V	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	409	Helical; (Potential).					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					GACTCTCTCCGCCACCACAAA	0.507													4	36					0	0	0.000602	0	0		A	29757135	A	A	29757135	3	1	61	1	0	0	0	0	1	0	0	0	16285	1087	38	1	1470	1	TMTC1	12	29757135	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	14797914	29757135	104094760	535	42541											
DDX11	1663	broad.mit.edu	37	chr12	31245812	31245812	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattcccagctgctgcagtaCgtggagcgatacgggtgaga	9	8	14	10	3	0	1	0	1	0	1	1	4	1	2	1	2	6	4	1	2	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:31245812C>T	uc001rjt.1	+	11	1526	c.1275C>T	c.(1273-1275)TAC>TAT	p.Y425Y	DDX11_uc010sjx.1_RNA|DDX11_uc001rjr.1_Silent_p.Y425Y|DDX11_uc001rjs.1_Silent_p.Y425Y|DDX11_uc001rju.1_Silent_p.Y103Y|DDX11_uc001rjv.1_Silent_p.Y425Y|DDX11_uc001rjw.1_Silent_p.Y399Y|DDX11_uc001rjx.1_Silent_p.Y103Y|DDX11_uc009zjn.1_RNA	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	425	Helicase ATP-binding.				G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					TGCTGCAGTACGTGGAGCGAT	0.587										Multiple Myeloma(12;0.14)			4	41					0	0	0.000602	0	0		T	31245812	T	T	31245812	2	4	61	1	0	0	0	0	0	0	0	1	4346	547	19	1		1	DDX11	12	31245812	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1488677	31245812	102606083	536	42542											
BICD1	636	broad.mit.edu	37	chr12	32446952	32446952	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagatggtggagctacagAgaatacggatgaaggatgaa	16	7	15	3	1	0	4	0	3	0	2	0	9	0	7	0	4	3	1	0	4	5	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:32446952A>G	uc001rku.2	+	3	532	c.451A>G	c.(451-453)AGA>GGA	p.R151G	BICD1_uc001rkv.2_Missense_Mutation_p.R151G|BICD1_uc010skd.1_RNA	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	151	Potential.				anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			GGAGCTACAGAGAATACGGAT	0.383													6	40					0	0	0.001984	0	0		G	32446952	G	G	32446952	3	3	61	1	0	0	0	0	1	0	0	0	1429	296	11	3	461	3	BICD1	12	32446952	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1201140	32446952	101404943	537	42543											
BICD1	636	broad.mit.edu	37	chr12	32490545	32490545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctatccagcaaaaactcGccctgacccagaggctggag	11	6	11	13	1	0	2	0	1	0	1	2	3	1	3	3	3	2	3	3	3	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:32490545G>A	uc001rku.2	+	7	2446	c.2365G>A	c.(2365-2367)GCC>ACC	p.A789T	BICD1_uc001rkv.2_Missense_Mutation_p.A789T|BICD1_uc010skd.1_RNA|BICD1_uc001rkw.1_Missense_Mutation_p.A71T	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	789	Potential.|Interacts with RAB6A.				anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			GCAAAAACTCGCCCTGACCCA	0.502													8	39					0	0	0.00308	0	0		A	32490545	A	A	32490545	3	1	61	1	0	0	0	0	1	0	0	0	1429	1087	38	1	2391	1	BICD1	12	32490545	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	43593	32490545	101361350	538	42544											
FGD4	121512	broad.mit.edu	37	chr12	32777996	32777996	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gataatgacattcactcagaGgtttctgtgagttgaattaa	13	14	9	5	0	3	4	2	3	1	1	3	5	3	4	0	1	0	2	0	1	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:32777996G>T	uc001rkz.2	+	13	2106	c.1629G>T	c.(1627-1629)GAG>GAT	p.E543D	FGD4_uc001rlc.2_Missense_Mutation_p.E628D|FGD4_uc001rky.2_Missense_Mutation_p.E295D|FGD4_uc001rla.2_Missense_Mutation_p.E199D|FGD4_uc010ske.1_Missense_Mutation_p.E655D|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	543					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					TTCACTCAGAGGTTTCTGTGA	0.358													11	93					1.58986e-06	1.71278e-06	0.008291	1	0		T	32777996	T	T	32777996	3	4	61	1	0	0	0	0	1	0	0	0	5849	991	35	5	1671	5	FGD4	12	32777996	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	287451	32777996	101073899	539	42545											
KIF21A	55605	broad.mit.edu	37	chr12	39756911	39756911	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcatacctattacccccGagggaatcctgtagtagtct	10	12	8	11	1	1	0	0	0	1	0	2	2	2	1	4	1	3	3	4	1	7	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:39756911G>T	uc001rly.2	-	7	1154	c.1008C>A	c.(1006-1008)CTC>CTA	p.L336L	KIF21A_uc001rlx.2_Silent_p.L336L|KIF21A_uc001rlz.2_Silent_p.L336L|KIF21A_uc010skl.1_Silent_p.L336L|KIF21A_uc001rma.1_Silent_p.L344L	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	336					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TATTACCCCCGAGGGAATCCT	0.378													15	87					4.7546e-09	5.23946e-09	0.004007	1	0		T	39756911	T	T	39756911	2	4	61	1	0	0	0	0	0	0	0	1	8304	1045	37	5		5	KIF21A	12	39756911	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	6978915	39756911	94094984	540	42546											
PDZRN4	29951	broad.mit.edu	37	chr12	41966842	41966842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactccgctcactgtagaccGttcccctgacagttcccttc	6	12	6	17	2	1	2	1	1	0	1	5	2	4	2	5	0	1	4	5	0	2	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:41966842G>A	uc010skn.1	+	10	1732	c.1664G>A	c.(1663-1665)CGT>CAT	p.R555H	PDZRN4_uc001rmq.3_Missense_Mutation_p.R496H|PDZRN4_uc009zjz.2_Missense_Mutation_p.R494H|PDZRN4_uc001rmr.2_Missense_Mutation_p.R381H	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	754							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				ACTGTAGACCGTTCCCCTGAC	0.502													16	92					0	0	0.003163	0	0		A	41966842	A	A	41966842	3	1	61	1	0	0	0	0	1	0	0	0	11729	1145	40	1	2372	1	PDZRN4	12	41966842	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2209931	41966842	91885053	541	42547											
PRICKLE1	144165	broad.mit.edu	37	chr12	42854270	42854270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagcactggcagatgtactgGcttctcttcaggcaggattt	8	12	12	9	0	2	1	1	0	1	1	3	3	2	2	0	4	2	5	0	4	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:42854270G>A	uc010skv.1	-	8	2124	c.1837C>T	c.(1837-1839)CCA>TCA	p.P613S	PRICKLE1_uc001rnl.2_Missense_Mutation_p.P613S|PRICKLE1_uc010skw.1_Missense_Mutation_p.P613S|PRICKLE1_uc001rnm.2_Missense_Mutation_p.P613S|PRICKLE1_uc001rnk.1_5'Flank	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	613					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		AGATGTACTGGCTTCTCTTCA	0.458													14	93					0	0	0.00499	0	0		A	42854270	A	A	42854270	3	1	61	1	0	0	0	0	1	0	0	0	12508	1203	42	2	662	2	PRICKLE1	12	42854270	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	887428	42854270	90997625	542	42548											
ANO6	196527	broad.mit.edu	37	chr12	45771877	45771877	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggaaccctggtctttgcAgtatttatgggagtatgggg	7	15	14	5	0	1	0	0	0	1	0	1	2	1	2	1	5	2	3	1	5	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:45771877A>G	uc001roo.2	+	10	1481	c.1146A>G	c.(1144-1146)GCA>GCG	p.A382A	ANO6_uc010sld.1_Silent_p.A382A|ANO6_uc010sle.1_Silent_p.A382A|ANO6_uc010slf.1_Silent_p.A403A|ANO6_uc010slg.1_Silent_p.A364A	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	382	Helical; (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						TGGTCTTTGCAGTATTTATGG	0.323													13	65					0	0	0.001855	0	0		G	45771877	G	G	45771877	2	3	61	1	0	0	0	0	0	0	0	1	701	175	7	3		3	ANO6	12	45771877	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	2917607	45771877	88080018	543	42549											
ANO6	196527	broad.mit.edu	37	chr12	45822989	45822989	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaaatacctaacccaaaaGcttcttcatgagaatcacct	17	9	4	11	0	3	1	2	1	1	1	3	3	3	1	3	0	3	1	3	0	7	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:45822989G>T	uc001roo.2	+	20	2963	c.2628G>T	c.(2626-2628)AAG>AAT	p.K876N	ANO6_uc010sld.1_Intron|ANO6_uc010sle.1_Intron|ANO6_uc010slf.1_Missense_Mutation_p.K897N|ANO6_uc010slg.1_Missense_Mutation_p.K858N	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	876	Cytoplasmic (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						TAACCCAAAAGCTTCTTCATG	0.383													7	35					0.000157383	0.000165019	0.00308	1	0		T	45822989	T	T	45822989	3	4	61	1	0	0	0	0	1	0	0	0	701	962	34	5	2726	5	ANO6	12	45822989	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	51112	45822989	88028906	544	42550											
ASB8	140461	broad.mit.edu	37	chr12	48547247	48547247	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagagtatttgctctgaatGctctgcataatataccacat	13	13	7	8	0	2	2	0	1	2	1	2	3	2	2	1	0	4	4	1	0	5	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:48547247G>A	uc001rrh.2	-	2	202	c.33C>T	c.(31-33)AGC>AGT	p.S11S	ASB8_uc010slr.1_Silent_p.S7S	NM_024095	NP_077000	Q9H765	ASB8_HUMAN	ankyrin repeat and SOCS box-containing 8	11					intracellular signal transduction	cytoplasm|nucleus				kidney(1)	1						TGCTCTGAATGCTCTGCATAA	0.443													13	74					0	0	0.013537	0	0		A	48547247	A	A	48547247	2	1	61	1	0	0	0	0	0	0	0	1	1030	1310	46	2		2	ASB8	12	48547247	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2724258	48547247	85304648	545	42551											
CCNT1	904	broad.mit.edu	37	chr12	49086828	49086828	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttctttttttacttaggaagGggtggaagtggtggaggagg	8	14	17	2	0	1	0	0	0	1	0	1	4	1	4	0	8	1	0	0	8	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:49086828G>A	uc001rse.1	-	9	2492	c.2169C>T	c.(2167-2169)CCC>CCT	p.P723P	LOC144438_uc001rsd.3_5'Flank|CCNT1_uc009zkz.1_Silent_p.P438P	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	723	Pro-rich.				cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						ACTTAGGAAGGGGTGGAAGTG	0.388													5	19					0	0	0.000602	0	0		A	49086828	A	A	49086828	2	1	61	1	0	0	0	0	0	0	0	1	2937	1219	43	4		4	CCNT1	12	49086828	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	539581	49086828	84765067	546	42552											
ADCY6	112	broad.mit.edu	37	chr12	49176653	49176653	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgagccccacgaacagggCggcggcacaggccaacagtg	11	2	14	14	3	0	1	0	1	0	0	0	2	0	1	3	4	3	1	3	4	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:49176653C>T	uc001rsh.3	-	1	1225	c.565G>A	c.(565-567)GCC>ACC	p.A189T	ADCY6_uc001rsj.3_Missense_Mutation_p.A189T|ADCY6_uc001rsi.3_Missense_Mutation_p.A189T	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	189	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						ACGAACAGGGCGGCGGCACAG	0.667													7	21					0	0	0.001984	0	0		T	49176653	T	T	49176653	3	4	61	1	0	0	0	0	1	0	0	0	298	768	27	1	3025	1	ADCY6	12	49176653	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	89825	49176653	84675242	547	42553											
MLL2	8085	broad.mit.edu	37	chr12	49444688	49444688	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtggcatcagctgaggCgacaaggatggctccccaga	9	6	14	12	1	1	2	1	1	0	1	2	4	2	3	3	5	1	3	3	5	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:49444688C>T	uc001rta.3	-	10	2778	c.2778G>A	c.(2776-2778)TCG>TCA	p.S926S		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	926	Pro-rich.			Missing (in Ref. 1; AAC51734).	chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TCAGCTGAGGCGACAAGGATG	0.547			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			17	73					0	0	0.006122	0	0		T	49444688	T	T	49444688	2	4	61	1	0	0	0	0	0	0	0	1	9639	755	27	1		1	MLL2	12	49444688	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	268035	49444688	84407207	548	42554											
AQP5	362	broad.mit.edu	37	chr12	50357276	50357276	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgctatccccttgcagcTcaacaacaacacaacgcagg	13	5	6	17	2	1	0	1	0	0	0	2	0	2	0	3	1	6	4	3	1	5	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:50357276T>G	uc001rvo.2	+	2	887	c.365T>G	c.(364-366)CTC>CGC	p.L122R		NM_001651	NP_001642	P55064	AQP5_HUMAN	aquaporin 5	122	Extracellular (Potential).				carbon dioxide transport|excretion|odontogenesis|pancreatic juice secretion	apical plasma membrane|integral to plasma membrane	protein binding|water channel activity				0						CCCTTGCAGCTCAACAACAAC	0.617													18	82					0	0	0.00499	0	0		G	50357276	G	G	50357276	3	3	61	1	0	0	0	0	1	0	0	0	829	1565	54	5	371	5	AQP5	12	50357276	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	912588	50357276	83494619	549	42555											
ESPL1	9700	broad.mit.edu	37	chr12	53668729	53668729	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaacacatggctgagccAgtcactttctgggttcgggt	7	11	12	11	1	2	2	1	2	1	0	3	2	2	2	2	3	2	2	2	3	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:53668729A>G	uc001sck.2	+	7	1726	c.1635A>G	c.(1633-1635)CCA>CCG	p.P545P	ESPL1_uc001scj.2_Silent_p.P220P	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	545					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						TGGCTGAGCCAGTCACTTTCT	0.478													6	30					0	0	0.001168	0	0		G	53668729	G	G	53668729	2	3	61	1	0	0	0	0	0	0	0	1	5261	175	7	3		3	ESPL1	12	53668729	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	3311453	53668729	80183166	550	42556											
LRP1	4035	broad.mit.edu	37	chr12	57592321	57592321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgggtccagccgcagcGtcatcgtggacaccaagatc	9	7	13	12	3	1	1	1	0	0	1	4	3	2	3	3	3	2	1	3	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:57592321G>A	uc001snd.2	+	60	10010	c.9544G>A	c.(9544-9546)GTC>ATC	p.V3182I		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3182	LDL-receptor class B 28.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CAGCCGCAGCGTCATCGTGGA	0.597													4	15					0	0	0.009096	0	0		A	57592321	A	A	57592321	3	1	61	1	0	0	0	0	1	0	0	0	8969	1145	40	1	9782	1	LRP1	12	57592321	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3923592	57592321	76259574	551	42557											
SHMT2	6472	broad.mit.edu	37	chr12	57626343	57626343	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgctcgcctcattgactaCgcccgcatgagagaggttgg	8	10	12	11	3	1	3	1	2	0	1	2	4	1	3	2	2	2	3	2	2	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:57626343C>T	uc001snf.1	+	6	712	c.702C>T	c.(700-702)TAC>TAT	p.Y234Y	SHMT2_uc001sng.1_Silent_p.Y130Y|SHMT2_uc001snh.1_Silent_p.Y73Y|SHMT2_uc009zpk.1_Silent_p.Y224Y|SHMT2_uc001sni.1_Silent_p.Y213Y|SHMT2_uc010srg.1_Silent_p.Y243Y|SHMT2_uc001snj.1_Silent_p.Y138Y|SHMT2_uc010srh.1_Silent_p.Y213Y|SHMT2_uc001snk.1_Silent_p.Y138Y|SHMT2_uc010sri.1_Silent_p.Y213Y|SHMT2_uc001snl.2_Silent_p.Y138Y|SHMT2_uc010srj.1_5'Flank	NM_005412	NP_005403	P34897	GLYM_HUMAN	serine hydroxymethyltransferase 2	234						microtubule cytoskeleton|mitochondrial nucleoid	glycine hydroxymethyltransferase activity|methyltransferase activity			ovary(1)|central_nervous_system(1)	2					Glycine(DB00145)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	TCATTGACTACGCCCGCATGA	0.642													18	106					0	0	0.008871	0	0		T	57626343	T	T	57626343	2	4	61	1	0	0	0	0	0	0	0	1	14311	547	19	1		1	SHMT2	12	57626343	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	34022	57626343	76225552	552	42558											
FRS2	10818	broad.mit.edu	37	chr12	69968091	69968091	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggctatgacagtgatgaaCgaagagatgcaccctctgtt	11	10	11	9	1	1	4	0	3	1	1	1	6	1	4	1	1	2	3	1	1	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:69968091C>T	uc001suy.2	+	10	1393	c.883C>T	c.(883-885)CGA>TGA	p.R295*	FRS2_uc001suz.2_Nonsense_Mutation_p.R295*|FRS2_uc009zrj.2_Nonsense_Mutation_p.R295*|FRS2_uc009zrk.2_Nonsense_Mutation_p.R295*	NM_006654	NP_006645	Q8WU20	FRS2_HUMAN	fibroblast growth factor receptor substrate 2	295					activation of MAPKK activity|activation of phospholipase C activity|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|transmembrane receptor protein tyrosine phosphatase signaling pathway	endomembrane system|endosome|integral to plasma membrane|membrane fraction	fibroblast growth factor receptor binding|insulin receptor binding|phosphatase activator activity|transmembrane receptor protein tyrosine kinase adaptor activity			prostate(1)|kidney(1)	2	Breast(13;2.15e-06)|Esophageal squamous(21;0.187)		Epithelial(6;2.94e-18)|Lung(24;9.68e-05)|OV - Ovarian serous cystadenocarcinoma(12;0.000984)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			CAGTGATGAACGAAGAGATGC	0.443													14	62					0	0	0.004007	0	0		T	69968091	T	T	69968091	4	4	61	1	0	0	0	0	0	1	0	0	6075	528	19	1	901	1	FRS2	12	69968091	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	12341748	69968091	63883804	553	42559											
TMTC2	160335	broad.mit.edu	37	chr12	83250837	83250837	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcccagaaactccatggacGcacattttctacaatgattt	12	12	5	12	1	1	2	0	1	1	1	3	3	3	3	2	1	2	1	2	1	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:83250837G>A	uc001szt.2	+	2	564	c.132G>A	c.(130-132)ACG>ACA	p.T44T	TMTC2_uc001szr.1_Silent_p.T44T|TMTC2_uc001szs.1_Silent_p.T44T|TMTC2_uc010suk.1_Intron	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	44						endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						CTCCATGGACGCACATTTTCT	0.423													17	106					0	0	0.012319	0	0		A	83250837	A	A	83250837	2	1	61	1	0	0	0	0	0	0	0	1	16286	1074	38	1		1	TMTC2	12	83250837	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	13282746	83250837	50601058	554	42560											
SLC6A15	55117	broad.mit.edu	37	chr12	85264301	85264301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaagtgtccacaataggcGtgacaatcccttcaatggtt	12	11	9	9	1	1	2	1	2	0	0	3	2	3	2	2	2	0	1	2	2	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:85264301G>A	uc001szv.2	-	9	1944	c.1451C>T	c.(1450-1452)ACG>ATG	p.T484M	SLC6A15_uc010sul.1_Missense_Mutation_p.T377M|SLC6A15_uc001szw.1_Missense_Mutation_p.T192M	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	484					cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						CACAATAGGCGTGACAATCCC	0.403													14	58					0	0	0.001855	0	0		A	85264301	A	A	85264301	3	1	61	1	0	0	0	0	1	0	0	0	14703	1145	40	1	757	1	SLC6A15	12	85264301	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2013464	85264301	48587594	555	42561											
CEP290	80184	broad.mit.edu	37	chr12	88478558	88478558	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaatcgaagcctcagttcAttgattactttgtctcttga	9	15	8	9	1	3	2	2	2	1	0	5	3	3	2	1	1	2	2	1	1	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:88478558A>G	uc001tar.2	-	35	4853	c.4509T>C	c.(4507-4509)AAT>AAC	p.N1503N	CEP290_uc001taq.2_Silent_p.N563N	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1503					cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						GCCTCAGTTCATTGATTACTT	0.353													4	23					0	0	0.009096	0	0		G	88478558	G	G	88478558	2	3	61	1	0	0	0	0	0	0	0	1	3256	214	8	3		3	CEP290	12	88478558	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	3214257	88478558	45373337	556	42562											
ATP2B1	490	broad.mit.edu	37	chr12	90028814	90028814	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccaacagtaatgtcagcTacaggtatctgaatgacctg	12	11	8	10	0	3	2	1	2	2	0	4	2	3	2	2	1	3	3	2	1	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:90028814T>C	uc001tbh.2	-	3	802	c.621A>G	c.(619-621)GTA>GTG	p.V207V	ATP2B1_uc001tbg.2_Silent_p.V207V	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	207	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						TAATGTCAGCTACAGGTATCT	0.378													12	85					0	0	0.013537	0	0		C	90028814	C	C	90028814	2	2	61	1	0	0	0	0	0	0	0	1	1140	1509	53	3		3	ATP2B1	12	90028814	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	1550256	90028814	43823081	557	42563											
PLXNC1	10154	broad.mit.edu	37	chr12	94648663	94648663	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccggaaagagatacgtgaCggtaggctccaaaattgtgt	12	9	12	8	3	0	2	0	1	0	1	2	4	2	3	2	3	1	2	2	3	5	3	rs115290199	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:94648663C>T	uc001tdc.2	+	16	3231	c.2982C>T	c.(2980-2982)GAC>GAT	p.D994D	PLXNC1_uc010sut.1_Silent_p.D41D	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	994	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						AGATACGTGACGGTAGGCTCC	0.433													3	12					0	0	0.004672	0	0		T	94648663	T	T	94648663	2	4	61	1	0	0	0	0	0	0	0	1	12145	550	19	1		1	PLXNC1	12	94648663	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4619849	94648663	39203232	558	42564											
APAF1	317	broad.mit.edu	37	chr12	99102474	99102474	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagttgaccatataagaCgtctgcaagtgagtattttt	11	15	9	6	1	1	3	0	2	1	1	1	3	1	3	1	0	2	4	1	0	4	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:99102474C>T	uc001tfz.2	+	20	3410	c.2833C>T	c.(2833-2835)CGT>TGT	p.R945C	APAF1_uc001tfy.2_Missense_Mutation_p.R934C|APAF1_uc001tga.2_Missense_Mutation_p.R891C|APAF1_uc001tgb.2_Missense_Mutation_p.R902C|APAF1_uc001tgc.2_Intron|APAF1_uc009zto.2_Missense_Mutation_p.R311C	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	945					activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	CCATATAAGACGTCTGCAAGT	0.318													5	18					0	0	0.000602	0	0		T	99102474	T	T	99102474	3	4	61	1	0	0	0	0	1	0	0	0	755	536	19	1	2907	1	APAF1	12	99102474	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4453811	99102474	34749421	559	42565											
NUAK1	9891	broad.mit.edu	37	chr12	106461214	106461214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttggggctgagttttcccGgcacctctgcctctggtgag	3	12	14	12	1	2	2	0	2	2	0	3	2	3	2	3	4	1	4	3	4	0	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:106461214G>A	uc001tlj.1	-	7	2732	c.1352C>T	c.(1351-1353)CCG>CTG	p.P451L		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	451							ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						GAGTTTTCCCGGCACCTCTGC	0.557													11	35					0	0	0.010729	0	0		A	106461214	A	A	106461214	3	1	61	1	0	0	0	0	1	0	0	0	10731	1116	39	1	637	1	NUAK1	12	106461214	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	7358740	106461214	27390681	560	42566											
POLR3B	55703	broad.mit.edu	37	chr12	106786837	106786837	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgagagtgaccaggaaaTtgtgcagatgattggaacag	13	10	14	4	0	0	4	0	3	0	2	0	7	0	6	1	2	2	2	1	2	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:106786837T>C	uc001tlp.2	+	10	974	c.752T>C	c.(751-753)ATT>ACT	p.I251T	POLR3B_uc001tlq.2_Missense_Mutation_p.I193T	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	251					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						GACCAGGAAATTGTGCAGATG	0.453													15	85					0	0	0.00245	0	0		C	106786837	C	C	106786837	3	2	61	1	0	0	0	0	1	0	0	0	12248	1493	52	3	790	3	POLR3B	12	106786837	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	325623	106786837	27065058	561	42567											
SELPLG	6404	broad.mit.edu	37	chr12	109016933	109016933	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggctcttggccttggacAggcccccattggctgtggca	4	9	14	14	1	1	0	0	0	1	0	1	1	1	1	4	6	0	3	4	6	0	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:109016933A>G	uc001tni.2	-	2	1311	c.1151T>C	c.(1150-1152)CTG>CCG	p.L384P	SELPLG_uc001tnh.2_Missense_Mutation_p.L374P|SELPLG_uc010sxe.1_Missense_Mutation_p.L400P	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	384	Cytoplasmic (Potential).				blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0						GGCCTTGGACAGGCCCCCATT	0.637													4	15					0	0	0.009096	0	0		G	109016933	G	G	109016933	3	3	61	1	0	0	0	0	1	0	0	0	14045	188	7	3	91	3	SELPLG	12	109016933	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	2230096	109016933	24834962	562	42568											
SSH1	54434	broad.mit.edu	37	chr12	109192889	109192889	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctttttccagaggccagccGaattccttcattgcataggc	8	12	9	12	1	1	1	1	0	0	1	3	2	3	1	4	2	2	2	4	2	2	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:109192889G>A	uc001tnm.2	-	13	1323	c.1236C>T	c.(1234-1236)TTC>TTT	p.F412F	SSH1_uc001tnl.2_Silent_p.F100F|SSH1_uc010sxg.1_Silent_p.F423F|SSH1_uc001tnn.3_Silent_p.F412F	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	412	Tyrosine-protein phosphatase.				actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						GAGGCCAGCCGAATTCCTTCA	0.542													4	23					0	0	0.009096	0	0		A	109192889	A	A	109192889	2	1	61	1	0	0	0	0	0	0	0	1	15209	1049	37	1		1	SSH1	12	109192889	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	175956	109192889	24659006	563	42569											
ACACB	32	broad.mit.edu	37	chr12	109704115	109704115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacatcagcccagctgagcGggcgcaggtcgttcacctgc	7	6	13	15	3	2	1	2	1	0	0	3	1	2	1	2	2	4	4	2	2	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:109704115G>A	uc001tob.2	+	53	7444	c.7325G>A	c.(7324-7326)CGG>CAG	p.R2442Q	ACACB_uc001toc.2_Missense_Mutation_p.R2442Q|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.R1108Q	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	2442					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CCAGCTGAGCGGGCGCAGGTC	0.652													7	41					0	0	0.001984	0	0		A	109704115	A	A	109704115	3	1	61	1	0	0	0	0	1	0	0	0	107	1116	39	1	7531	1	ACACB	12	109704115	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	511226	109704115	24147780	564	42570											
MYL2	4633	broad.mit.edu	37	chr12	111348961	111348961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcacgtcaggggggaaggCggcgaacatctggtcaacct	10	6	15	10	3	4	0	3	0	1	0	4	2	4	1	1	6	2	0	1	6	3	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:111348961C>T	uc001try.3	-	7	492	c.421G>A	c.(421-423)GCC>ACC	p.A141T	MYL2_uc001trx.3_Missense_Mutation_p.A122T	NM_000432	NP_000423	P10916	MLRV_HUMAN	slow cardiac myosin regulatory light chain 2	141	EF-hand 3.				cardiac myofibril assembly|heart contraction|muscle filament sliding|negative regulation of cell growth|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	cytosol|myosin complex|sarcomere	actin monomer binding|calcium ion binding|myosin heavy chain binding|structural constituent of muscle			ovary(1)	1						GGGGGGAAGGCGGCGAACATC	0.627													9	73					0	0	0.008291	0	0		T	111348961	T	T	111348961	3	4	61	1	0	0	0	0	1	0	0	0	10065	768	27	1	83	1	MYL2	12	111348961	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1644846	111348961	22502934	565	42571											
NAA25	80018	broad.mit.edu	37	chr12	112485518	112485518	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttaagtctctgttgtctcGcaaatcttcccatggaatgt	9	16	7	9	1	3	0	0	0	3	0	6	1	4	1	1	1	0	2	1	1	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:112485518G>A	uc001ttm.2	-	17	1977	c.1957C>T	c.(1957-1959)CGA>TGA	p.R653*	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Nonsense_Mutation_p.R625*|NAA25_uc009zwa.1_Nonsense_Mutation_p.R653*	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	653						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						CTGTTGTCTCGCAAATCTTCC	0.353													31	160					0	0	0.004878	0	0		A	112485518	A	A	112485518	4	1	61	1	0	0	0	0	0	1	0	0	10139	1095	38	1	993	1	NAA25	12	112485518	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1136557	112485518	21366377	566	42572											
NOS1	4842	broad.mit.edu	37	chr12	117664550	117664550	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagccaggaggagcatacGccgtggtgaattggtccttc	8	10	14	9	2	0	2	0	2	0	0	2	4	1	4	3	4	3	1	3	4	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:117664550G>A	uc001twm.1	-	24	4328	c.3642C>T	c.(3640-3642)GGC>GGT	p.G1214G		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1214	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	AGGAGCATACGCCGTGGTGAA	0.542													6	38					0	0	0.001984	0	0		A	117664550	A	A	117664550	2	1	61	1	0	0	0	0	0	0	0	1	10560	1074	38	1		1	NOS1	12	117664550	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	5179032	117664550	16187345	567	42573											
MLXIP	22877	broad.mit.edu	37	chr12	122614587	122614587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acacagacatgctcatgtcgGaattcagcgacaccctcttc	11	9	7	14	2	3	1	2	0	1	1	5	3	3	2	1	1	2	1	1	1	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:122614587G>A	uc001ubq.2	+	6	838	c.838G>A	c.(838-840)GAA>AAA	p.E280K	MLXIP_uc001ubr.2_Missense_Mutation_p.E31K|MLXIP_uc001ubs.1_5'Flank	NM_014938	NP_055753	Q9HAP2	MLXIP_HUMAN	MLX interacting protein	280	Required for cytoplasmic localization.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)		GCTCATGTCGGAATTCAGCGA	0.582													10	27					0	0	0.006214	0	0		A	122614587	A	A	122614587	3	1	61	1	0	0	0	0	1	0	0	0	9654	1175	41	4	860	4	MLXIP	12	122614587	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4950037	122614587	11237308	568	42574											
VPS33A	65082	broad.mit.edu	37	chr12	122723199	122723199	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccactattacacacggattGgaggcaaactagtcttaaca	14	9	7	11	1	1	0	0	0	1	0	1	2	1	2	1	3	3	1	1	3	5	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:122723199G>A	uc001ucd.2	-	10	1350	c.1237C>T	c.(1237-1239)CAA>TAA	p.Q413*	VPS33A_uc001ucc.2_RNA	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	413					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		CACACGGATTGGAGGCAAACT	0.338													12	110					0	0	0.013537	0	0		A	122723199	A	A	122723199	4	1	61	1	0	0	0	0	0	1	0	0	17227	1357	47	4	569	4	VPS33A	12	122723199	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	108612	122723199	11128696	569	42575											
CLIP1	6249	broad.mit.edu	37	chr12	122845598	122845598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctgcgcttcaggctggCggacgtggtcgccatcactc	5	8	15	13	4	2	0	2	0	0	0	4	1	2	1	1	5	1	3	1	5	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:122845598C>T	uc001ucg.1	-	4	1019	c.913G>A	c.(913-915)GCC>ACC	p.A305T	CLIP1_uc001uch.1_Missense_Mutation_p.A305T|CLIP1_uc001uci.1_Missense_Mutation_p.A305T|CLIP1_uc001ucj.1_Missense_Mutation_p.A6T|CLIP1_uc010tae.1_Missense_Mutation_p.A305T	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	305	Ser-rich.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		TTCAGGCTGGCGGACGTGGTC	0.602													15	35					0	0	0.00245	0	0		T	122845598	T	T	122845598	3	4	61	1	0	0	0	0	1	0	0	0	3535	768	27	1	3454	1	CLIP1	12	122845598	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	122399	122845598	11006297	570	42576											
NCOR2	9612	broad.mit.edu	37	chr12	124827627	124827627	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgcgatacaggtccacGccactcacgccccgaagcag	9	5	11	16	4	1	0	1	0	0	0	2	2	2	0	4	2	3	2	4	2	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:124827627G>T	uc010tba.1	-	33	5001	c.4884C>A	c.(4882-4884)GGC>GGA	p.G1628G	NCOR2_uc010tay.1_Silent_p.G1627G|NCOR2_uc010taz.1_Silent_p.G1611G|NCOR2_uc010tbb.1_Silent_p.G1620G|NCOR2_uc010tbc.1_Silent_p.G1610G|NCOR2_uc010tax.1_5'Flank	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1628					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		ACAGGTCCACGCCACTCACGC	0.672													3	19					0.004672	0.00479423	0.004672	1	0		T	124827627	T	T	124827627	2	4	61	1	0	0	0	0	0	0	0	1	10255	1074	38	5		5	NCOR2	12	124827627	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1982029	124827627	9024268	571	42577											
PIWIL1	9271	broad.mit.edu	37	chr12	130855769	130855769	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagaagtggtagtgtttcTcccacacattacaatgtcat	11	13	9	8	0	2	1	1	1	1	1	3	2	2	1	1	1	1	2	1	1	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:130855769T>G	uc001uik.2	+	20	2460	c.2370T>G	c.(2368-2370)TCT>TCG	p.S790S	PIWIL1_uc001uij.1_Silent_p.S790S	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	790	Piwi.				gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		GTAGTGTTTCTCCCACACATT	0.448													22	100					0	0	0.004656	0	0		G	130855769	G	G	130855769	2	3	61	1	0	0	0	0	0	0	0	1	11976	1538	54	5		5	PIWIL1	12	130855769	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	6028142	130855769	2996126	572	42578											
GALNT9	50614	broad.mit.edu	37	chr12	132688125	132688125	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctcggcggcgcgcagggcGttgcgcttggcatagtagtc	5	8	16	12	6	0	0	0	0	0	0	2	0	0	0	1	4	1	5	1	4	2	4	rs149887053	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:132688125G>A	uc001ukc.3	-	7	1304	c.1188C>T	c.(1186-1188)AAC>AAT	p.N396N	GALNT9_uc009zyr.2_Silent_p.N170N|GALNT9_uc001ukb.2_Silent_p.N253N|GALNT9_uc001uka.2_Silent_p.N30N	NM_001122636	NP_001116108	Q9HCQ5	GALT9_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	396	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.241)		OV - Ovarian serous cystadenocarcinoma(86;7.49e-08)|Epithelial(86;3.55e-07)|all cancers(50;2.09e-05)		CGCGCAGGGCGTTGCGCTTGG	0.642													14	52					0	0	0.001855	0	0		A	132688125	A	A	132688125	2	1	61	1	0	0	0	0	0	0	0	1	6235	1136	40	1		1	GALNT9	12	132688125	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1832356	132688125	1163770	573	42579											
GOLGA3	2802	broad.mit.edu	37	chr12	133351739	133351739	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtaccgtcttggccgcGccgcggcgtaggtccagctt	4	9	14	14	6	1	1	0	1	1	0	2	1	2	1	4	3	2	3	4	3	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:133351739G>A	uc001ukz.1	-	22	4690	c.4131C>T	c.(4129-4131)GGC>GGT	p.G1377G	GOLGA3_uc001ula.1_Silent_p.G1377G	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1377	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		TCTTGGCCGCGCCGCGGCGTA	0.592													7	51					0	0	0.00308	0	0		A	133351739	A	A	133351739	2	1	61	1	0	0	0	0	0	0	0	1	6569	1074	38	1		1	GOLGA3	12	133351739	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	663614	133351739	500156	574	42580											
TUBA3C	7278	broad.mit.edu	37	chr13	19751314	19751314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agatgaccggggcgtaggtgGccagggggaagtggatgcgg	8	5	22	6	3	0	2	0	1	0	1	0	4	0	4	2	8	1	1	2	8	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:19751314G>A	uc009zzj.2	-	4	858	c.809C>T	c.(808-810)GCC>GTC	p.A270V		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	270					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		GGCGTAGGTGGCCAGGGGGAA	0.612													10	115					0	0	0.008291	0	0		A	19751314	A	A	19751314	3	1	61	1	0	0	0	0	1	0	0	0	16772	1203	42	2	551	2	TUBA3C	13	19751314	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08		19751314	95418564	575	42581											
ATP12A	479	broad.mit.edu	37	chr13	25280558	25280558	+	Frame_Shift_Del	DEL	C	-	-																															gattgtctttgcccggacatCcccccagcagaagctgatca																										TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:25280558delC	uc001upp.2	+	15	2313	c.2126delC	c.(2125-2127)TCCfs	p.S709fs	ATP12A_uc010aaa.2_Frame_Shift_Del_p.S715fs	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	709	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	GCCCGGACATCCCCCCAGCAG	0.567													18	29	---	---	---	---						.	-	25280558	-	-	25280558	7	5	61	1	0	1	0	1	0	0	0	0	1123	855	30	0	2202	0	ATP12A	13	25280558	Frame_Shift_Del	DEL	C	TCGA-BR-8081-01A-11D-2340-08	5529244	25280558	89889320	576	42582											
MTUS2	23281	broad.mit.edu	37	chr13	29600969	29600969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccaagggtcttcagttccGgattgatggtgtctggaatc	8	12	13	8	1	3	1	1	1	2	0	5	3	4	3	2	4	1	1	2	4	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:29600969G>A	uc001usl.3	+	1	2222	c.2164G>A	c.(2164-2166)GGA>AGA	p.G722R		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	712	Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						CTTCAGTTCCGGATTGATGGT	0.483													15	31					0	0	0.004007	0	0		A	29600969	A	A	29600969	3	1	61	1	0	0	0	0	1	0	0	0	9984	1117	39	1	2166	1	MTUS2	13	29600969	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4320411	29600969	85568909	577	42583											
KIAA0564	23078	broad.mit.edu	37	chr13	42144798	42144798	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatgttctgtcccttctaaCgtgtggtccccactcatgca	6	13	8	14	1	3	0	1	0	2	0	5	0	5	0	3	1	2	3	3	1	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:42144798C>T	uc001uyj.2	-	44	5485	c.5415G>A	c.(5413-5415)ACG>ACA	p.T1805T		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1805	VWFA.					extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		TCCCTTCTAACGTGTGGTCCC	0.423													9	51					0	0	0.004482	0	0		T	42144798	T	T	42144798	2	4	61	1	0	0	0	0	0	0	0	1	8201	523	19	1		1	KIAA0564	13	42144798	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	12543829	42144798	73025080	578	42584											
EPSTI1	94240	broad.mit.edu	37	chr13	43544769	43544769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttgtatctcatttctccGgtttatatttggtgctatca	6	21	6	8	1	4	0	2	0	3	0	6	0	4	0	1	2	1	3	1	2	4	8			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:43544769G>A	uc001uyw.1	-	2	302	c.226C>T	c.(226-228)CGG>TGG	p.R76W	EPSTI1_uc001uyx.1_Missense_Mutation_p.R76W	NM_001002264	NP_001002264	Q96J88	ESIP1_HUMAN	epithelial stromal interaction 1 isoform 1	76	Potential.									ovary(1)	1		Lung NSC(96;3.6e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000528)|BRCA - Breast invasive adenocarcinoma(63;0.0858)		TCATTTCTCCGGTTTATATTT	0.323													21	64					0	0	0.012319	0	0		A	43544769	A	A	43544769	3	1	61	1	0	0	0	0	1	0	0	0	5206	1115	39	1	1054	1	EPSTI1	13	43544769	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1399971	43544769	71625109	579	42585											
PCDH17	27253	broad.mit.edu	37	chr13	58207391	58207391	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaaggtgattgactccaaCgacaacagcccggtcttcga	11	8	11	11	3	1	3	0	3	1	0	3	5	2	3	2	2	3	0	2	2	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:58207391C>T	uc001vhq.1	+	1	1603	c.711C>T	c.(709-711)AAC>AAT	p.N237N	PCDH17_uc010aec.1_Silent_p.N237N	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	237	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TTGACTCCAACGACAACAGCC	0.602													16	40					0	0	0.00499	0	0		T	58207391	T	T	58207391	2	4	61	1	0	0	0	0	0	0	0	1	11531	535	19	1		1	PCDH17	13	58207391	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	14662622	58207391	56962487	580	42586											
TBC1D4	9882	broad.mit.edu	37	chr13	76055542	76055542	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagatatgctgcgccttgTgctcgaagatgaataccgcc	9	9	12	11	4	0	3	0	1	0	2	1	5	0	3	3	0	4	2	3	0	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:76055542T>C	uc001vjl.1	-	1	709	c.362A>G	c.(361-363)CAC>CGC	p.H121R	TBC1D4_uc010aer.2_Missense_Mutation_p.H121R|TBC1D4_uc010aes.2_Missense_Mutation_p.H121R	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	121	PID 1.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		CTGCGCCTTGTGCTCGAAGAT	0.667													6	62					0	0	0.001984	0	0		C	76055542	C	C	76055542	3	2	61	1	0	0	0	0	1	0	0	0	15647	1696	59	3	3618	3	TBC1D4	13	76055542	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	17848151	76055542	39114336	581	42587											
SLITRK5	26050	broad.mit.edu	37	chr13	88328684	88328684	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggtgcgccccacctctcgGcagccctctaaggacttggg	6	7	13	15	2	2	0	0	0	2	0	3	1	2	1	4	4	2	1	4	4	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:88328684G>A	uc001vln.2	+	2	1260	c.1041G>A	c.(1039-1041)CGG>CGA	p.R347R	SLITRK5_uc010tic.1_Silent_p.R106R	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	347	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CCACCTCTCGGCAGCCCTCTA	0.592													42	57					0	0	0.007835	0	0		A	88328684	A	A	88328684	2	1	61	1	0	0	0	0	0	0	0	1	14771	1190	42	2		2	SLITRK5	13	88328684	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	12273142	88328684	26841194	582	42588											
ABCC4	10257	broad.mit.edu	37	chr13	95726498	95726498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatcagggacccaaaggcaaCgatgatgacaaacatggcac	17	4	10	10	1	1	2	1	2	0	0	1	4	1	3	1	3	2	2	1	3	4	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:95726498C>T	uc001vmd.3	-	23	3006	c.2887G>A	c.(2887-2889)GTT>ATT	p.V963I	ABCC4_uc010afk.2_Missense_Mutation_p.V916I	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	963	Helical; (Potential).|ABC transmembrane type-1 2.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	CCAAAGGCAACGATGATGACA	0.403													5	19					0	0	0.000602	0	0		T	95726498	T	T	95726498	3	4	61	1	0	0	0	0	1	0	0	0	55	536	19	1	1126	1	ABCC4	13	95726498	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	7397814	95726498	19443380	583	42589											
PROZ	8858	broad.mit.edu	37	chr13	113818958	113818958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaacagtgtgtgccccacGgtgagtgctcagaccacagc	11	6	11	13	1	1	2	1	1	0	1	1	2	1	2	3	1	4	1	3	1	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:113818958G>A	uc001vta.1	+	5	512	c.505G>A	c.(505-507)GAC>AAC	p.D169N	PROZ_uc010agr.1_Missense_Mutation_p.D191N	NM_003891	NP_003882	P22891	PROZ_HUMAN	protein Z, vitamin K-dependent plasma	169					blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.216)	all cancers(43;0.104)		Menadione(DB00170)	TGTGCCCCACGGTGAGTGCTC	0.587													5	24					0	0	0.000602	0	0		A	113818958	A	A	113818958	3	1	61	1	0	0	0	0	1	0	0	0	12584	1130	39	1	523	1	PROZ	13	113818958	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	18092460	113818958	1350920	584	42590											
OR4Q3	441669	broad.mit.edu	37	chr14	20215900	20215900	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcccagatctacttccTccactttctaggagccagtg	7	11	8	15	0	2	1	0	0	2	1	4	2	4	2	5	2	2	0	5	2	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:20215900T>G	uc010tkt.1	+	1	314	c.314T>G	c.(313-315)CTC>CGC	p.L105R		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATCTACTTCCTCCACTTTCTA	0.483													6	32					0	0	0.001168	0	0		G	20215900	G	G	20215900	3	3	61	1	0	0	0	0	1	0	0	0	11100	1551	54	5	316	5	OR4Q3	14	20215900	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08		20215900	87133640	585	42591											
OR4K2	390431	broad.mit.edu	37	chr14	20344817	20344817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcaatatgcaagcccctgCactatgcttctgtcattagt	9	14	7	11	0	2	0	1	0	1	0	2	0	2	0	2	0	5	4	2	0	5	5	rs145217057		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:20344817C>T	uc001vwh.1	+	1	391	c.391C>T	c.(391-393)CAC>TAC	p.H131Y		NM_001005501	NP_001005501	Q8NGD2	OR4K2_HUMAN	olfactory receptor, family 4, subfamily K,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CAAGCCCCTGCACTATGCTTC	0.453													25	119					0	0	0.00333	0	0		T	20344817	T	T	20344817	3	4	61	1	0	0	0	0	1	0	0	0	11091	710	25	2	393	2	OR4K2	14	20344817	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	128917	20344817	87004723	586	42592											
ACIN1	22985	broad.mit.edu	37	chr14	23530554	23530554	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcgcacgttccttgcggCggcggtcacgggaccttgat	5	10	13	13	6	1	1	1	1	0	0	3	2	2	2	2	4	1	2	2	4	0	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:23530554C>A	uc001wit.3	-	17	3879	c.3551G>T	c.(3550-3552)CGC>CTC	p.R1184L	ACIN1_uc001wio.3_RNA|ACIN1_uc001wip.3_Missense_Mutation_p.R426L|ACIN1_uc001wiq.3_Missense_Mutation_p.R426L|ACIN1_uc001wir.3_Missense_Mutation_p.R457L|ACIN1_uc001wis.3_Missense_Mutation_p.R865L|ACIN1_uc010akg.2_Missense_Mutation_p.R1171L	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	1184	Arg/Asp/Glu/Lys-rich.				apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		TTCCTTGCGGCGGCGGTCACG	0.567													20	90					0.00229938	0.00236641	0.014323	1	0		A	23530554	A	A	23530554	3	1	61	1	0	0	0	0	1	0	0	0	142	768	27	5	486	5	ACIN1	14	23530554	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3185737	23530554	83818986	587	42593											
CIDEB	27141	broad.mit.edu	37	chr14	24775286	24775286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtcaaaggtgaatcgggCgatgtccttgctgtgcttgg	7	11	14	9	3	1	1	1	1	0	0	3	2	2	1	1	3	2	2	1	3	2	2	rs147369401		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:24775286C>T	uc001won.2	-	4	518	c.394G>A	c.(394-396)GCC>ACC	p.A132T	CIDEB_uc001woo.2_Missense_Mutation_p.A132T|CIDEB_uc001wop.2_Missense_Mutation_p.A132T|LTB4R2_uc001woq.1_5'Flank	NM_014430	NP_055245	Q9UHD4	CIDEB_HUMAN	cell death-inducing DFFA-like effector b	132				A -> G (in Ref. 1; AAF23324).	apoptosis|DNA damage response, signal transduction resulting in induction of apoptosis	cytosol					0				GBM - Glioblastoma multiforme(265;0.0181)		GTGAATCGGGCGATGTCCTTG	0.527													7	73					0	0	0.001984	0	0		T	24775286	T	T	24775286	3	4	61	1	0	0	0	0	1	0	0	0	3429	768	27	1	273	1	CIDEB	14	24775286	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1244732	24775286	82574254	588	42594											
CTAGE5	4253	broad.mit.edu	37	chr14	39815175	39815175	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgttctaattctggtagActgtctggaccagcagaact	9	15	9	8	0	3	2	0	0	3	2	3	3	3	3	1	2	2	3	1	2	3	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:39815175A>T	uc001wvg.3	+	21	2235	c.1899A>T	c.(1897-1899)AGA>AGT	p.R633S	CTAGE5_uc010tqe.1_Missense_Mutation_p.R595S|CTAGE5_uc001wuz.3_Missense_Mutation_p.R621S|CTAGE5_uc001wuy.3_Missense_Mutation_p.R553S|CTAGE5_uc001wvb.3_Missense_Mutation_p.R561S|CTAGE5_uc001wvc.3_Missense_Mutation_p.R535S|CTAGE5_uc001wva.3_Missense_Mutation_p.R604S|CTAGE5_uc001wvh.3_Missense_Mutation_p.R590S|CTAGE5_uc001wvf.3_Missense_Mutation_p.R558S|CTAGE5_uc001wvi.3_Missense_Mutation_p.R638S|CTAGE5_uc010amz.2_Missense_Mutation_p.R249S|CTAGE5_uc001wvj.3_Missense_Mutation_p.R604S	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	633	Pro-rich.						enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		ATTCTGGTAGACTGTCTGGAC	0.348													18	59					0	0	0.007413	0	0		T	39815175	T	T	39815175	3	4	61	1	0	0	0	0	1	0	0	0	3997	272	10	5	2012	5	CTAGE5	14	39815175	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	15039889	39815175	67534365	589	42595											
C14orf106	55320	broad.mit.edu	37	chr14	45711523	45711523	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaattagtactgagagtcTcagcattagtattttgaaat	14	15	7	5	0	1	2	1	2	1	1	2	3	1	2	0	0	3	3	0	0	7	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:45711523T>C	uc001wwf.2	-	4	1316	c.857A>G	c.(856-858)GAG>GGG	p.E286G	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	286					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						ACTGAGAGTCTCAGCATTAGT	0.368													15	67					0	0	0.004007	0	0		C	45711523	C	C	45711523	3	2	61	1	0	0	0	0	1	0	0	0	1741	1551	54	3	2597	3	C14orf106	14	45711523	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	5896348	45711523	61638017	590	42596											
SOS2	6655	broad.mit.edu	37	chr14	50666416	50666416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtaacacttaccttatccGcacacattgacactttaatg	12	14	4	11	1	0	1	0	1	0	0	1	1	1	1	2	0	2	2	2	0	4	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:50666416G>A	uc001wxs.3	-	4	601	c.503C>T	c.(502-504)GCG>GTG	p.A168V	SOS2_uc010tql.1_Missense_Mutation_p.A168V	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	168					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TACCTTATCCGCACACATTGA	0.299													8	41					0	0	0.00308	0	0		A	50666416	A	A	50666416	3	1	61	1	0	0	0	0	1	0	0	0	14962	1087	38	1	3575	1	SOS2	14	50666416	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4954893	50666416	56683124	591	42597											
PTGDR	5729	broad.mit.edu	37	chr14	52735102	52735102	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttatccagatggtccacgaGgagggctcgctgtcggtgct	6	11	14	10	3	0	1	0	0	0	1	4	3	2	2	2	4	1	3	2	4	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:52735102G>A	uc001wzq.2	+	1	672	c.570G>A	c.(568-570)GAG>GAA	p.E190E		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	190	Extracellular (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding	p.E190K(1)		ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	TGGTCCACGAGGAGGGCTCGC	0.637													8	63					0	0	0.00308	0	0		A	52735102	A	A	52735102	2	1	61	1	0	0	0	0	0	0	0	1	12763	991	35	4		4	PTGDR	14	52735102	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2068686	52735102	54614438	592	42598											
PTGER2	5732	broad.mit.edu	37	chr14	52781549	52781549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtactggcttcgtacgcgCggaaccagaccctggtggca	7	8	14	12	4	0	1	0	0	0	1	1	2	0	2	2	5	3	4	2	5	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:52781549C>T	uc001wzr.2	+	1	534	c.283C>T	c.(283-285)CGG>TGG	p.R95W		NM_000956	NP_000947	P43116	PE2R2_HUMAN	prostaglandin E receptor 2 (subtype EP2), 53kDa	95	Extracellular (Potential).					integral to plasma membrane	prostaglandin E receptor activity			lung(1)|breast(1)	2	Breast(41;0.0639)|all_epithelial(31;0.0729)				Alprostadil(DB00770)|Iloprost(DB01088)	TTCGTACGCGCGGAACCAGAC	0.632													6	40					0	0	0.001168	0	0		T	52781549	T	T	52781549	3	4	61	1	0	0	0	0	1	0	0	0	12766	759	27	1	285	1	PTGER2	14	52781549	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	46447	52781549	54567991	593	42599											
DDHD1	80821	broad.mit.edu	37	chr14	53539354	53539354	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagtataatacattatgtcCattgcactgctgttcagcat	11	15	6	9	0	1	0	1	0	0	0	2	0	2	0	1	0	4	5	1	0	5	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:53539354C>A	uc001xai.2	-	6	1694	c.1464G>T	c.(1462-1464)ATG>ATT	p.M488I	DDHD1_uc001xaj.2_Missense_Mutation_p.M495I|DDHD1_uc001xah.2_Missense_Mutation_p.M488I|DDHD1_uc001xag.2_Missense_Mutation_p.M70I	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	488					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					ACATTATGTCCATTGCACTGC	0.343													6	34					3.59834e-05	3.81827e-05	0.001168	1	0		A	53539354	A	A	53539354	3	1	61	1	0	0	0	0	1	0	0	0	4329	594	21	5	1270	5	DDHD1	14	53539354	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	757805	53539354	53810186	594	42600											
CNIH	10175	broad.mit.edu	37	chr14	54896992	54896992	+	Frame_Shift_Del	DEL	A	-	-																															aacttacccatataggtagtAaaaaaatgctagaagataaa																										TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:54896992delA	uc001xat.1	-	4	497	c.394delT	c.(394-396)TACfs	p.Y132fs	CNIH_uc001xav.1_Intron	NM_005776	NP_005767	O95406	CNIH_HUMAN	cornichon-like	132	Helical; (Potential).				immune response|intracellular signal transduction|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane|integral to membrane					0				GBM - Glioblastoma multiforme(112;0.00341)		TATAGGTAGTAAAAAAATGCT	0.348													20	35	---	---	---	---						.	-	54896992	-	-	54896992	7	5	61	1	0	1	0	1	0	0	0	0	3605	362	13	0	48	0	CNIH	14	54896992	Frame_Shift_Del	DEL	A	TCGA-BR-8081-01A-11D-2340-08	1357638	54896992	52452548	595	42601											
JKAMP	51528	broad.mit.edu	37	chr14	59954419	59954419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagaggacagagaacgaatGcacagaaatattgtcagcct	17	6	10	8	1	1	3	1	0	0	3	1	6	1	4	1	1	3	1	1	1	5	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:59954419G>A	uc001xei.3	+	3	668	c.166G>A	c.(166-168)GCA>ACA	p.A56T	JKAMP_uc001xef.3_Missense_Mutation_p.A42T|JKAMP_uc001xeh.3_Missense_Mutation_p.A36T|JKAMP_uc001xeg.3_Missense_Mutation_p.A50T|JKAMP_uc010try.1_5'UTR|JKAMP_uc001xej.3_5'UTR	NM_001098625	NP_001092095	Q9P055	JKAMP_HUMAN	JNK1-associated membrane protein isoform 2	57	Lumenal (Potential).				ER-associated protein catabolic process|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ubiquitin protein ligase binding			breast(1)	1						GAGAACGAATGCACAGAAATA	0.358													27	144					0	0	0.00632	0	0		A	59954419	A	A	59954419	3	1	61	1	0	0	0	0	1	0	0	0	7965	1319	46	2	134	2	JKAMP	14	59954419	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	5057427	59954419	47395121	596	42602											
SYNE2	23224	broad.mit.edu	37	chr14	64632037	64632037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttaaggattttggagtccGgctggaatctttaaaaggtc	10	14	12	5	1	1	0	0	0	1	0	3	3	2	3	1	5	0	2	1	5	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:64632037G>A	uc001xgm.2	+	90	16744	c.16514G>A	c.(16513-16515)CGG>CAG	p.R5505Q	SYNE2_uc001xgl.2_Missense_Mutation_p.R5505Q|SYNE2_uc010apy.2_Missense_Mutation_p.R1890Q|SYNE2_uc001xgn.2_Missense_Mutation_p.R467Q|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_5'UTR|SYNE2_uc001xgq.2_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5505	Cytoplasmic (Potential).|Potential.				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TTTGGAGTCCGGCTGGAATCT	0.338													11	51					0	0	0.010729	0	0		A	64632037	A	A	64632037	3	1	61	1	0	0	0	0	1	0	0	0	15471	1116	39	1	16868	1	SYNE2	14	64632037	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4677618	64632037	42717503	597	42603											
GALNTL1	57452	broad.mit.edu	37	chr14	69798192	69798192	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcctaggaccacacccgCgtggtgagtcccatcattga	8	9	9	15	2	2	2	1	2	1	0	4	3	3	3	4	2	0	0	4	2	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:69798192C>T	uc010aqu.1	+	7	795	c.702C>T	c.(700-702)CGC>CGT	p.R234R	GALNTL1_uc001xla.1_Silent_p.R234R|GALNTL1_uc001xlb.1_Silent_p.R234R	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	234	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		ACCACACCCGCGTGGTGAGTC	0.562													28	134					0	0	0.010818	0	0		T	69798192	T	T	69798192	2	4	61	1	0	0	0	0	0	0	0	1	6236	755	27	1		1	GALNTL1	14	69798192	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5166155	69798192	37551348	598	42604											
PCNX	22990	broad.mit.edu	37	chr14	71514590	71514590	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcttttagcagccctacAtatcagtatgttacagtcat	10	15	5	11	0	3	0	2	0	1	0	4	0	4	0	2	0	4	3	2	0	5	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:71514590A>T	uc001xmo.2	+	22	4673	c.4227A>T	c.(4225-4227)ACA>ACT	p.T1409T	PCNX_uc010are.1_Silent_p.T1298T|PCNX_uc010arf.1_Silent_p.T269T	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1409						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		GCAGCCCTACATATCAGTATG	0.378													17	78					0	0	0.00499	0	0		T	71514590	T	T	71514590	2	4	61	1	0	0	0	0	0	0	0	1	11610	204	8	5		5	PCNX	14	71514590	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1716398	71514590	35834950	599	42605											
C14orf169	79697	broad.mit.edu	37	chr14	73959112	73959112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcatggattacatgggggCccagcattcagattctaagg	10	11	11	9	0	3	1	2	0	1	1	3	2	3	2	1	4	2	1	1	4	2	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:73959112C>T	uc001xok.1	+	3	1470	c.1391C>T	c.(1390-1392)GCC>GTC	p.A464V	HEATR4_uc010tua.1_Intron	NM_024644	NP_078920	Q9H6W3	NO66_HUMAN	chromosome 14 open reading frame 169	464					negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K4 specific)|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0				BRCA - Breast invasive adenocarcinoma(234;0.0033)|OV - Ovarian serous cystadenocarcinoma(108;0.215)		TACATGGGGGCCCAGCATTCA	0.547													10	40					0	0	0.006214	0	0		T	73959112	T	T	73959112	3	4	61	1	0	0	0	0	1	0	0	0	1761	739	26	2	1392	2	C14orf169	14	73959112	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2444522	73959112	33390428	600	42606											
LTBP2	4053	broad.mit.edu	37	chr14	74969585	74969585	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggccggaagtggaccccGgcctcccgctctgcctcaat	5	7	11	18	3	2	0	1	0	1	0	3	2	3	2	7	4	1	1	7	4	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:74969585G>A	uc001xqa.2	-	34	5328	c.4941C>T	c.(4939-4941)GCC>GCT	p.A1647A		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1647					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		AGTGGACCCCGGCCTCCCGCT	0.627													10	60					0	0	0.008291	0	0		A	74969585	A	A	74969585	2	1	61	1	0	0	0	0	0	0	0	1	9092	1103	39	1		1	LTBP2	14	74969585	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1010473	74969585	32379955	601	42607											
LTBP2	4053	broad.mit.edu	37	chr14	74995322	74995322	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgccagttcctcctcctcGgctttcctcatggacaggcg	4	12	9	16	2	1	0	1	0	0	0	6	1	5	1	5	3	1	2	5	3	0	3	rs150924217		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:74995322G>A	uc001xqa.2	-	12	2619	c.2232C>T	c.(2230-2232)GCC>GCT	p.A744A		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	744					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CCTCCTCCTCGGCTTTCCTCA	0.672													8	66					0	0	0.004482	0	0		A	74995322	A	A	74995322	2	1	61	1	0	0	0	0	0	0	0	1	9092	1103	39	1		1	LTBP2	14	74995322	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	25737	74995322	32354218	602	42608											
KIAA0317	9870	broad.mit.edu	37	chr14	75130503	75130503	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttcataggagtcatatgTagggaggcacagctggttaa	11	11	12	7	0	3	0	2	0	1	0	3	2	3	2	0	4	1	4	0	4	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:75130503T>C	uc001xqb.2	-	20	2897	c.2392A>G	c.(2392-2394)ACA>GCA	p.T798A		NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870	798	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		GAGTCATATGTAGGGAGGCAC	0.532													15	99					0	0	0.00499	0	0		C	75130503	C	C	75130503	3	2	61	1	0	0	0	0	1	0	0	0	8183	1638	57	3	83	3	KIAA0317	14	75130503	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	135181	75130503	32219037	603	42609											
ISM2	145501	broad.mit.edu	37	chr14	77948722	77948722	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagccagccctggtcccAgttgtctgtagttccattga	6	11	11	13	0	1	1	0	1	1	0	3	1	3	1	5	2	2	3	5	2	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:77948722A>G	uc001xtz.2	-	4	990	c.916T>C	c.(916-918)TGG>CGG	p.W306R	ISM2_uc001xua.2_Intron|ISM2_uc001xty.2_Missense_Mutation_p.W218R|ISM2_uc010tvl.1_Missense_Mutation_p.W225R	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	306						extracellular region				skin(1)	1						CCCTGGTCCCAGTTGTCTGTA	0.393													12	37					0	0	0.013537	0	0		G	77948722	G	G	77948722	3	3	61	1	0	0	0	0	1	0	0	0	7877	188	7	3	815	3	ISM2	14	77948722	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	2818219	77948722	29400818	604	42610											
FLRT2	23768	broad.mit.edu	37	chr14	86089442	86089442	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcagcaacacagcgtccagCcatgagcagacgacgtccca	12	3	11	15	3	0	2	0	1	0	1	2	3	2	2	3	1	5	3	3	1	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:86089442C>T	uc001xvr.2	+	2	2351	c.1584C>T	c.(1582-1584)AGC>AGT	p.S528S	FLRT2_uc010atd.2_Silent_p.S528S	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	528	Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		CAGCGTCCAGCCATGAGCAGA	0.582													10	94					0	0	0.006214	0	0		T	86089442	T	T	86089442	2	4	61	1	0	0	0	0	0	0	0	1	5953	738	26	2		2	FLRT2	14	86089442	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	8140720	86089442	21260098	605	42611											
CCDC88C	440193	broad.mit.edu	37	chr14	91760652	91760652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaagttccccttgagaCgggagagcagctagaacaca	12	6	10	13	1	0	3	0	1	0	3	2	5	2	3	4	1	3	3	4	1	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:91760652C>T	uc010aty.2	-	23	4076	c.3977G>A	c.(3976-3978)CGT>CAT	p.R1326H		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	1326	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				CCCCTTGAGACGGGAGAGCAG	0.363													12	31					0	0	0.010729	0	0		T	91760652	T	T	91760652	3	4	61	1	0	0	0	0	1	0	0	0	2868	536	19	1	2141	1	CCDC88C	14	91760652	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5671210	91760652	15588888	606	42612											
SLC24A4	123041	broad.mit.edu	37	chr14	92790234	92790234	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaggcgagagatgctgccGcagcaagtcggcttcgtgtg	8	7	17	9	4	0	1	0	0	0	1	2	4	0	2	1	3	3	4	1	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:92790234G>A	uc001yak.2	+	1	33	c.9G>A	c.(7-9)CCG>CCA	p.P3P	SLC24A4_uc001yai.2_Intron|SLC24A4_uc010twm.1_Silent_p.P20P|SLC24A4_uc001yaj.2_Silent_p.P3P	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	20						integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		AGATGCTGCCGCAGCAAGTCG	0.697													4	9					0	0	0.009096	0	0		A	92790234	A	A	92790234	2	1	61	1	0	0	0	0	0	0	0	1	14493	1074	38	1		1	SLC24A4	14	92790234	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1029582	92790234	14559306	607	42613											
SERPINA6	866	broad.mit.edu	37	chr14	94770841	94770841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgaagggctggttgaaacGcaagatgataggcttggacg	12	8	16	5	2	0	4	0	3	0	1	0	6	0	5	0	4	1	4	0	4	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:94770841G>A	uc001ycv.2	-	5	1236	c.1132C>T	c.(1132-1134)CGT>TGT	p.R378C	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	378					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	TGGTTGAAACGCAAGATGATA	0.542													10	42					0	0	0.006214	0	0		A	94770841	A	A	94770841	3	1	61	1	0	0	0	0	1	0	0	0	14118	1087	38	1	89	1	SERPINA6	14	94770841	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1980607	94770841	12578699	608	42614											
SERPINA6	866	broad.mit.edu	37	chr14	94772522	94772522	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaggtcatagactccagaGatggtgacctttggaatgta	11	10	12	8	1	1	3	1	1	0	2	2	6	2	4	3	3	0	1	3	3	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:94772522G>T	uc001ycv.2	-	4	1022	c.918C>A	c.(916-918)ATC>ATA	p.I306I	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	306					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	AGACTCCAGAGATGGTGACCT	0.567													9	40					0.00621372	0.00637011	0.006214	1	0		T	94772522	T	T	94772522	2	4	61	1	0	0	0	0	0	0	0	1	14118	932	33	5		5	SERPINA6	14	94772522	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1681	94772522	12577018	609	42615											
DICER1	23405	broad.mit.edu	37	chr14	95569709	95569709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttctcatatatgaaaggcGgccctcatgcgcatcagggt	9	10	11	11	2	3	1	3	1	1	0	4	1	3	1	1	3	1	2	1	3	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:95569709G>A	uc001ydw.2	-	22	4206	c.4024C>T	c.(4024-4026)CGC>TGC	p.R1342C	DICER1_uc010avh.1_Missense_Mutation_p.R240C|DICER1_uc001ydv.2_Missense_Mutation_p.R1332C|DICER1_uc001ydx.2_Missense_Mutation_p.R1342C|DICER1_uc001ydy.1_Missense_Mutation_p.R194C	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1342	RNase III 1.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		TATGAAAGGCGGCCCTCATGC	0.403			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				16	70					0	0	0.00499	0	0		A	95569709	A	A	95569709	3	1	61	1	0	0	0	0	1	0	0	0	4527	1116	39	1	1772	1	DICER1	14	95569709	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	797187	95569709	11779831	610	42616											
PPP1R13B	23368	broad.mit.edu	37	chr14	104216136	104216136	+	Frame_Shift_Del	DEL	T	-	-																															aactttttcacatgcctgaaTttttttcccatagagacgtt																										TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:104216136delT	uc001yof.1	-	8	1247	c.964delA	c.(964-966)ATTfs	p.I322fs	PPP1R13B_uc001yog.1_Frame_Shift_Del_p.I189fs	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	322					apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				CATGCCTGAATTTTTTTCCCA	0.428													22	39	---	---	---	---						.	-	104216136	-	-	104216136	7	5	61	1	0	1	0	1	0	0	0	0	12379	1493	52	0	2348	0	PPP1R13B	14	104216136	Frame_Shift_Del	DEL	T	TCGA-BR-8081-01A-11D-2340-08	8646427	104216136	3133404	611	42617											
AHNAK2	113146	broad.mit.edu	37	chr14	105407181	105407181	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggggactgaaaacacaaaCtttggtttatagaatttagg	14	12	11	4	0	0	2	0	1	0	1	0	3	0	3	0	4	2	1	0	4	7	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:105407181C>T	uc010axc.1	-	7	14727	c.14607G>A	c.(14605-14607)AAG>AAA	p.K4869K	AHNAK2_uc001ypx.2_Silent_p.K4769K	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4869						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			AAAACACAAACTTTGGTTTAT	0.478													6	24					0	0	0.001168	0	0		T	105407181	T	T	105407181	2	4	61	1	0	0	0	0	0	0	0	1	415	564	20	4		4	AHNAK2	14	105407181	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1191045	105407181	1942359	612	42618											
AHNAK2	113146	broad.mit.edu	37	chr14	105413931	105413931	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctttgctctcggggcCtggacgtccacctccatgct	4	11	10	16	2	1	0	0	0	1	0	5	1	4	1	5	3	3	3	5	3	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:105413931C>A	uc010axc.1	-	7	7977	c.7857G>T	c.(7855-7857)CAG>CAT	p.Q2619H	AHNAK2_uc001ypx.2_Missense_Mutation_p.Q2519H	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2619						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CTCTCGGGGCCTGGACGTCCA	0.602													44	172					1.52319e-26	1.72519e-26	0.00874	1	0		A	105413931	A	A	105413931	3	1	61	1	0	0	0	0	1	0	0	0	415	680	24	5	9534	5	AHNAK2	14	105413931	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	6750	105413931	1935609	613	42619											
MTA1	9112	broad.mit.edu	37	chr14	105936409	105936409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgcccacaggaagatcCgcaagctgctctcatcctcg	8	8	8	17	2	2	1	1	0	2	1	6	2	4	2	4	1	3	3	4	1	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:105936409C>T	uc001yqx.2	+	21	2192	c.2005C>T	c.(2005-2007)CGC>TGC	p.R669C	MTA1_uc001yqy.2_RNA|MTA1_uc001yrb.2_Missense_Mutation_p.R434C|CRIP2_uc010tyr.1_5'Flank|CRIP2_uc001yrc.2_5'Flank	NM_004689	NP_004680	Q13330	MTA1_HUMAN	metastasis associated protein	669					signal transduction	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		CAGGAAGATCCGCAAGCTGCT	0.716													14	18					0	0	0.004007	0	0		T	105936409	T	T	105936409	3	4	61	1	0	0	0	0	1	0	0	0	9926	652	23	1	2087	1	MTA1	14	105936409	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	522478	105936409	1413131	614	42620											
MTA1	9112	broad.mit.edu	37	chr14	105936528	105936528	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgcgcccgtcaacgaCgagcccatcgtcatcgagga	9	5	10	17	6	2	0	2	0	0	0	4	4	2	1	4	1	3	0	4	1	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:105936528C>T	uc001yqx.2	+	21	2311	c.2124C>T	c.(2122-2124)GAC>GAT	p.D708D	MTA1_uc001yqy.2_RNA|MTA1_uc001yrb.2_Silent_p.D473D|CRIP2_uc010tyr.1_5'Flank|CRIP2_uc001yrc.2_5'Flank	NM_004689	NP_004680	Q13330	MTA1_HUMAN	metastasis associated protein	708					signal transduction	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		CCGTCAACGACGAGCCCATCG	0.488													3	8					0	0	0.004672	0	0		T	105936528	T	T	105936528	2	4	61	1	0	0	0	0	0	0	0	1	9926	535	19	1		1	MTA1	14	105936528	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	119	105936528	1413012	615	42621											
C14orf80	283643	broad.mit.edu	37	chr14	105958492	105958492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actatgctcccagggctaccCgaggctggcactggcacaac	9	6	11	15	1	0	0	0	0	0	0	1	1	1	0	2	4	3	5	2	4	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:105958492C>T	uc001yrm.2	+	3	402	c.275C>T	c.(274-276)CCG>CTG	p.P92L	C14orf80_uc001yrj.2_Missense_Mutation_p.P53L|C14orf80_uc001yrk.2_Missense_Mutation_p.P51L|C14orf80_uc001yrn.2_Missense_Mutation_p.P92L|C14orf80_uc001yro.2_Missense_Mutation_p.P92L|C14orf80_uc010tys.1_5'UTR	NM_001134875	NP_001128347	Q86SX3	CN080_HUMAN	hypothetical protein LOC283643 isoform 1	92											0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0188)	Epithelial(152;0.239)		CAGGGCTACCCGAGGCTGGCA	0.642													5	17					0	0	0.000602	0	0		T	105958492	T	T	105958492	3	4	61	1	0	0	0	0	1	0	0	0	1784	652	23	1	313	1	C14orf80	14	105958492	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	21964	105958492	1391048	616	42622											
MTMR15	22909	broad.mit.edu	37	chr15	31202890	31202890	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaaatccctagccaagacCttccacttggtgaatcccaa	13	9	5	14	0	0	2	0	1	0	1	3	2	3	2	5	1	1	0	5	1	6	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:31202890C>A	uc001zff.2	+	4	1740	c.1449C>A	c.(1447-1449)ACC>ACA	p.T483T	MTMR15_uc001zfc.3_Silent_p.T483T|MTMR15_uc010azw.2_Silent_p.T483T|MTMR15_uc001zfd.3_Silent_p.T483T|MTMR15_uc001zfe.2_Silent_p.T88T	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a	483					double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		TAGCCAAGACCTTCCACTTGG	0.433								Direct_reversal_of_damage|Editing_and_processing_nucleases					10	58					1.61879e-10	1.80643e-10	0.013537	1	0		A	31202890	A	A	31202890	2	1	61	1	0	0	0	0	0	0	0	1	9961	668	24	5		5	MTMR15	15	31202890	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08		31202890	71328502	617	42623											
FMN1	342184	broad.mit.edu	37	chr15	33194232	33194232	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggaatctgggctaactcAtgtaaaaatctgtaaaaaag	17	11	8	5	0	3	0	1	0	2	0	3	1	3	1	0	2	1	3	0	2	9	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:33194232A>G	uc001zhf.3	-	9	2718	c.2718T>C	c.(2716-2718)CAT>CAC	p.H906H		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	1129	FH2.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		GGGCTAACTCATGTAAAAATC	0.383													8	37					0	0	0.004482	0	0		G	33194232	G	G	33194232	2	3	61	1	0	0	0	0	0	0	0	1	5963	214	8	3		3	FMN1	15	33194232	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1991342	33194232	69337160	618	42624											
RYR3	6263	broad.mit.edu	37	chr15	34030749	34030749	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaagagctgcacctaacGgagaagcttttctgggggat	12	8	14	7	1	1	3	0	0	1	3	1	6	1	4	1	3	4	3	1	3	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:34030749G>A	uc001zhi.2	+	50	7684	c.7614G>A	c.(7612-7614)ACG>ACA	p.T2538T	RYR3_uc010bar.2_Silent_p.T2538T	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2538	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGCACCTAACGGAGAAGCTTT	0.478											OREG0023032	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	42					0	0	0.004482	0	0		A	34030749	A	A	34030749	2	1	61	1	0	0	0	0	0	0	0	1	13795	1103	39	1		1	RYR3	15	34030749	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	836517	34030749	68500643	619	42625											
IVD	3712	broad.mit.edu	37	chr15	40708280	40708280	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccctttgtgcccagttgAtgcaggggaagatggctgac	8	10	13	10	0	0	3	0	2	0	1	1	4	1	4	2	3	2	3	2	3	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:40708280A>G	uc001zls.3	+	10	1307	c.973A>G	c.(973-975)ATG>GTG	p.M325V	IVD_uc001zlq.2_Missense_Mutation_p.M295V|IVD_uc001zlr.2_Missense_Mutation_p.M28V	NM_002225	NP_002216	P26440	IVD_HUMAN	isovaleryl Coenzyme A dehydrogenase isoform 1	322					leucine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|isovaleryl-CoA dehydrogenase activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;1.52e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.65e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0808)		TGCCCAGTTGATGCAGGGGAA	0.532													8	17					0	0	0.00308	0	0		G	40708280	G	G	40708280	3	3	61	1	0	0	0	0	1	0	0	0	7944	333	12	3	1011	3	IVD	15	40708280	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	6677531	40708280	61823112	620	42626											
CASC5	57082	broad.mit.edu	37	chr15	40912959	40912959	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgattaccaaaggcctttTagataatcccataagtgaaa	17	11	6	7	0	0	3	0	2	0	1	1	3	1	3	3	1	1	0	3	1	7	5	rs7169142		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:40912959T>A	uc010bbs.1	+	11	736	c.575T>A	c.(574-576)TTA>TAA	p.L192*	CASC5_uc010ucq.1_Nonsense_Mutation_p.L16*|CASC5_uc001zme.2_Nonsense_Mutation_p.L166*|CASC5_uc010bbt.1_Nonsense_Mutation_p.L166*	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	192	Interaction with BUB1 and BUB1B.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		AAAGGCCTTTTAGATAATCCC	0.373													13	60					0	0	0.001855	0	0		A	40912959	A	A	40912959	4	1	61	1	0	0	0	0	0	1	0	0	2666	1764	61	5	613	5	CASC5	15	40912959	Nonsense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	204679	40912959	61618433	621	42627											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42138489	42138489	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcaccgatcttctgacgtgGcgtccactggcccaggccac	6	9	10	16	3	3	1	1	1	2	0	4	2	4	1	4	3	0	0	4	3	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:42138489G>T	uc010bco.2	+	17	1790	c.1689G>T	c.(1687-1689)TGG>TGT	p.W563C	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.W794C|JMJD7-PLA2G4B_uc010bcn.2_Missense_Mutation_p.W794C|JMJD7-PLA2G4B_uc001zoq.3_Missense_Mutation_p.W264C|JMJD7-PLA2G4B_uc001zor.1_3'UTR	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	563	PLA2c.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						TTCTGACGTGGCGTCCACTGG	0.522													17	78					1.5739e-10	1.75818e-10	0.004007	1	0		T	42138489	T	T	42138489	3	4	61	1	0	0	0	0	1	0	0	0	7971	1212	42	5	2468	5	JMJD7-PLA2G4B	15	42138489	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1225530	42138489	60392903	622	42628											
EHD4	30844	broad.mit.edu	37	chr15	42211660	42211660	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcgtgtccacttggtcGgccttgttcagcacgacacg	5	11	12	13	4	1	0	1	0	0	0	3	1	2	0	2	2	3	3	2	2	0	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:42211660G>A	uc001zot.2	-	4	735	c.672C>T	c.(670-672)GCC>GCT	p.A224A		NM_139265	NP_644670	Q9H223	EHD4_HUMAN	EH-domain containing 4	224					endocytic recycling|protein homooligomerization	early endosome membrane|endoplasmic reticulum|nucleus|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			ovary(2)	2		all_cancers(109;2.54e-12)|all_epithelial(112;6.59e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		OV - Ovarian serous cystadenocarcinoma(18;1.6e-19)|GBM - Glioblastoma multiforme(94;3.77e-06)|COAD - Colon adenocarcinoma(120;0.0474)|Colorectal(105;0.0538)		CCACTTGGTCGGCCTTGTTCA	0.582													6	43					0	0	0.001168	0	0		A	42211660	A	A	42211660	2	1	61	1	0	0	0	0	0	0	0	1	4986	1103	39	1		1	EHD4	15	42211660	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	73171	42211660	60319732	623	42629											
ZFP106	64397	broad.mit.edu	37	chr15	42743852	42743852	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactatttgaaagccaaccAcctccagaattactatggtt	13	11	5	12	0	0	2	0	1	0	1	1	2	1	2	5	1	3	1	5	1	6	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:42743852A>G	uc001zpw.2	-	2	884	c.549T>C	c.(547-549)GGT>GGC	p.G183G	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_5'UTR|ZFP106_uc001zpy.1_Silent_p.G206G	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	183						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		AAAGCCAACCACCTCCAGAAT	0.488													14	80					0	0	0.001855	0	0		G	42743852	G	G	42743852	2	3	61	1	0	0	0	0	0	0	0	1	17662	146	6	3		3	ZFP106	15	42743852	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	532192	42743852	59787540	624	42630											
MAP1A	4130	broad.mit.edu	37	chr15	43820988	43820988	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccccagggatgtgccacTgagcctcggccccatcgtgg	5	6	15	15	2	0	1	0	1	0	0	2	2	0	2	6	4	2	0	6	4	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:43820988T>C	uc001zrt.2	+	4	7784	c.7317T>C	c.(7315-7317)ACT>ACC	p.T2439T		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	2439						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	GATGTGCCACTGAGCCTCGGC	0.652													14	36					0	0	0.00499	0	0		C	43820988	C	C	43820988	2	2	61	1	0	0	0	0	0	0	0	1	9245	1567	55	3		3	MAP1A	15	43820988	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	1077136	43820988	58710404	625	42631											
TMOD3	29766	broad.mit.edu	37	chr15	52161500	52161500	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatagagagcatctcctttcAtatctggagaaagaagcatt	14	11	9	7	0	3	3	1	0	2	3	4	6	3	3	1	1	2	2	1	1	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:52161500A>T	uc002abm.2	+	3	432	c.213A>T	c.(211-213)TCA>TCT	p.S71S		NM_014547	NP_055362	Q9NYL9	TMOD3_HUMAN	tropomodulin 3 (ubiquitous)	71						cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(1)	1				all cancers(107;0.00194)		ATCTCCTTTCATATCTGGAGA	0.453													12	86					0	0	0.003163	0	0		T	52161500	T	T	52161500	2	4	61	1	0	0	0	0	0	0	0	1	16260	204	8	5		5	TMOD3	15	52161500	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	8340512	52161500	50369892	626	42632											
ONECUT1	3175	broad.mit.edu	37	chr15	53049924	53049924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcaattctttggatggaCgcttattttccttgaatatt	8	20	7	6	1	1	1	0	1	1	0	2	3	2	3	1	2	1	2	1	2	4	9			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:53049924C>T	uc002aci.1	-	2	1354	c.1226G>A	c.(1225-1227)CGT>CAT	p.R409H		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	409	Homeobox.				endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		TTTGGATGGACGCTTATTTTC	0.483													20	117					0	0	0.007413	0	0		T	53049924	T	T	53049924	3	4	61	1	0	0	0	0	1	0	0	0	10887	536	19	1	175	1	ONECUT1	15	53049924	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	888424	53049924	49481468	627	42633											
ONECUT1	3175	broad.mit.edu	37	chr15	53049957	53049957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaatattgcatgtagagttCgacgctggacatctgtgaag	11	12	12	6	2	1	3	0	2	1	1	2	5	1	4	0	1	1	4	0	1	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:53049957C>T	uc002aci.1	-	2	1321	c.1193G>A	c.(1192-1194)CGA>CAA	p.R398Q		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	398	Homeobox.				endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		ATGTAGAGTTCGACGCTGGAC	0.463													21	141					0	0	0.014323	0	0		T	53049957	T	T	53049957	3	4	61	1	0	0	0	0	1	0	0	0	10887	884	31	1	208	1	ONECUT1	15	53049957	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	33	53049957	49481435	628	42634											
PRTG	283659	broad.mit.edu	37	chr15	55912281	55912281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggactcatgagaaaaccGcccagaatccccagtctcat	12	8	8	13	1	2	2	2	1	1	2	4	4	3	3	4	1	1	1	4	1	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:55912281G>A	uc002adg.2	-	20	3430	c.3382C>T	c.(3382-3384)CGG>TGG	p.R1128W		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	1128					multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		TGAGAAAACCGCCCAGAATCC	0.493													12	55					0	0	0.010729	0	0		A	55912281	A	A	55912281	3	1	61	1	0	0	0	0	1	0	0	0	12660	1086	38	1	74	1	PRTG	15	55912281	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2862324	55912281	46619111	629	42635											
FOXB1	27023	broad.mit.edu	37	chr15	60297516	60297516	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaagtccgaccacctggcGcccagcaagccagccgacgc	9	4	10	18	4	0	0	0	0	0	0	1	2	1	0	6	1	3	1	6	1	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:60297516G>A	uc002agj.1	+	2	833	c.354G>A	c.(352-354)GCG>GCA	p.A118A	FOXB1_uc010bgh.1_Intron	NM_012182	NP_036314	Q99853	FOXB1_HUMAN	forkhead box B1	118					axon target recognition|cell migration in diencephalon|epithelial cell differentiation involved in mammary gland alveolus development|floor plate development|hypothalamus cell migration|inferior colliculus development|lactation|mammillothalamic axonal tract development|negative regulation of neuron apoptosis|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|telencephalon cell migration|visual learning	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|central_nervous_system(1)	2						ACCACCTGGCGCCCAGCAAGC	0.697													5	18					0	0	0.000602	0	0		A	60297516	A	A	60297516	2	1	61	1	0	0	0	0	0	0	0	1	6006	1074	38	1		1	FOXB1	15	60297516	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4385235	60297516	42233876	630	42636											
ANXA2	302	broad.mit.edu	37	chr15	60641281	60641281	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctcgggcttacctggataTaatagtacagggacttgccg	10	10	11	10	2	0	0	0	0	0	0	1	2	0	2	3	3	3	2	3	3	5	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:60641281T>A	uc002agn.2	-	13	1113	c.953A>T	c.(952-954)TAT>TTT	p.Y318F	ANXA2_uc002agk.2_Missense_Mutation_p.Y318F|ANXA2_uc002agl.2_Missense_Mutation_p.Y318F|ANXA2_uc002agm.2_Missense_Mutation_p.Y336F|ANXA2_uc010uhd.1_RNA	NM_001136015	NP_001129487	P07355	ANXA2_HUMAN	annexin A2 isoform 2	318	Annexin 4.				angiogenesis|positive regulation of vesicle fusion|skeletal system development	basement membrane|melanosome|midbody|soluble fraction	calcium ion binding|calcium-dependent phospholipid binding|cytoskeletal protein binding|phospholipase inhibitor activity			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Tenecteplase(DB00031)	TACCTGGATATAATAGTACAG	0.532													5	42					0	0	0.001984	0	0		A	60641281	A	A	60641281	3	1	61	1	0	0	0	0	1	0	0	0	718	1406	49	5	74	5	ANXA2	15	60641281	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	343765	60641281	41890111	631	42637											
DPP8	54878	broad.mit.edu	37	chr15	65793059	65793059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caattccgactgttccaatgCgttttctttctcttaatagt	8	18	5	10	2	2	0	0	0	2	0	5	1	4	0	2	0	1	2	2	0	4	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:65793059C>T	uc002aov.2	-	4	2057	c.479G>A	c.(478-480)CGC>CAC	p.R160H	DPP8_uc002aow.2_Missense_Mutation_p.R160H|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.R144H|DPP8_uc002aoy.2_Missense_Mutation_p.R160H|DPP8_uc002aoz.2_Missense_Mutation_p.R144H|DPP8_uc010bhj.2_Missense_Mutation_p.R160H|DPP8_uc002apa.2_Missense_Mutation_p.R57H	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	160					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						TGTTCCAATGCGTTTTCTTTC	0.393													23	133					0	0	0.00278	0	0		T	65793059	T	T	65793059	3	4	61	1	0	0	0	0	1	0	0	0	4738	768	27	1	2285	1	DPP8	15	65793059	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5151778	65793059	36738333	632	42638											
NOX5	79400	broad.mit.edu	37	chr15	69347808	69347808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcacggggctgcagacgCgcacccagcctgggcggcct	6	4	14	17	4	1	1	1	0	0	1	1	1	1	1	4	4	2	3	4	4	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:69347808C>T	uc002ars.1	+	15	2154	c.2134C>T	c.(2134-2136)CGC>TGC	p.R712C	NOX5_uc002arp.1_Missense_Mutation_p.R694C|NOX5_uc002arq.1_Missense_Mutation_p.R666C|NOX5_uc010bid.1_Missense_Mutation_p.R677C|NOX5_uc002arr.1_Missense_Mutation_p.R684C|NOX5_uc010bie.1_Missense_Mutation_p.R512C|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	712	Extracellular (Potential).				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						GCTGCAGACGCGCACCCAGCC	0.607													5	35					0	0	0.001984	0	0		T	69347808	T	T	69347808	3	4	61	1	0	0	0	0	1	0	0	0	10578	768	27	1	2225	1	NOX5	15	69347808	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3554749	69347808	33183584	633	42639											
LOXL1	4016	broad.mit.edu	37	chr15	74219771	74219771	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcggcgtgggcgcgggggCggcggccgtggcctcggcgg	0	3	25	13	10	0	0	0	0	0	0	1	0	0	0	2	10	0	0	2	10	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:74219771C>G	uc002awc.1	+	1	983	c.647C>G	c.(646-648)GCG>GGG	p.A216G	uc002awa.1_Intron|uc002awb.1_Intron	NM_005576	NP_005567	Q08397	LOXL1_HUMAN	lysyl oxidase-like 1 preproprotein	216					protein deamination	extracellular space	copper ion binding				0						ggcgcgggggcggcggccgtg	0.473													4	1					0	0	0.009096	0	0		G	74219771	G	G	74219771	3	3	61	1	0	0	0	0	1	0	0	0	8917	768	27	5	649	5	LOXL1	15	74219771	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4871963	74219771	28311621	634	42640											
SEMA7A	8482	broad.mit.edu	37	chr15	74702973	74702973	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcgggaggccctagtggaCcagcaagccaagagtgagtg	10	5	15	11	1	0	2	0	1	0	1	1	4	0	4	4	3	2	1	4	3	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:74702973C>A	uc002axv.2	-	14	2033	c.1993G>T	c.(1993-1995)GTC>TTC	p.V665F	SEMA7A_uc010ulk.1_Missense_Mutation_p.V500F|SEMA7A_uc010ull.1_Missense_Mutation_p.V651F	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	665					axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						CCCTAGTGGACCAGCAAGCCA	0.677													12	63					3.07112e-06	3.30184e-06	0.010729	1	0		A	74702973	A	A	74702973	3	1	61	1	0	0	0	0	1	0	0	0	14068	507	18	5	11	5	SEMA7A	15	74702973	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	483202	74702973	27828419	635	42641											
KIAA1199	57214	broad.mit.edu	37	chr15	81229194	81229194	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaccagacggcccccgcCgaactcgccatctggctcat	7	6	11	17	4	2	1	1	0	1	1	3	3	2	2	5	3	1	1	5	3	1	0	rs79713495	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:81229194C>T	uc002bfw.1	+	23	3449	c.3189C>T	c.(3187-3189)GCC>GCT	p.A1063A	KIAA1199_uc010unn.1_Silent_p.A1063A	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	1063										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CGGCCCCCGCCGAACTCGCCA	0.582													7	58					0	0	0.004482	0	0		T	81229194	T	T	81229194	2	4	61	1	0	0	0	0	0	0	0	1	8229	639	23	1		1	KIAA1199	15	81229194	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	6526221	81229194	21302198	636	42642											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84651707	84651707	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagtcagctcatggaaacCggagaggtcagcgatgatct	12	8	13	8	2	4	3	3	2	1	1	4	6	4	4	1	3	3	1	1	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:84651707C>T	uc002bjz.3	+	21	3551	c.3327C>T	c.(3325-3327)ACC>ACT	p.T1109T	ADAMTSL3_uc010bmt.1_Silent_p.T1109T|ADAMTSL3_uc010bmu.1_Silent_p.T1109T	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	1109						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			TCATGGAAACCGGAGAGGTCA	0.498													7	55					0	0	0.004482	0	0		T	84651707	T	T	84651707	2	4	61	1	0	0	0	0	0	0	0	1	276	639	23	1		1	ADAMTSL3	15	84651707	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3422513	84651707	17879685	637	42643											
POLG	5428	broad.mit.edu	37	chr15	89864210	89864210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagtgcccctgctcttcctgCcctgcagtgtcatccaccca	5	10	7	19	0	2	0	1	0	1	0	4	0	4	0	6	0	4	2	6	0	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:89864210C>T	uc002bns.3	-	18	3050	c.2768G>A	c.(2767-2769)GGC>GAC	p.G923D	POLG_uc002bnr.3_Missense_Mutation_p.G923D	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	923			G -> D (in PEOA1).		base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			GCTCTTCCTGCCCTGCAGTGT	0.527								DNA_polymerases_(catalytic_subunits)					13	71					0	0	0.013537	0	0		T	89864210	T	T	89864210	3	4	61	1	0	0	0	0	1	0	0	0	12219	739	26	2	975	2	POLG	15	89864210	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5212503	89864210	12667182	638	42644											
FES	2242	broad.mit.edu	37	chr15	91432867	91432867	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagagcgtgcagcacacGtgggtggtggctttgcacct	6	9	17	9	2	0	1	0	0	0	1	0	2	0	1	1	4	4	4	1	4	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:91432867G>A	uc002bpv.2	+	7	1022	c.926_splice	c.e7+1	p.T309_splice	FES_uc010uqj.1_Splice_Site_p.T251_splice|FES_uc010uqk.1_Splice_Site_p.T291_splice|FES_uc002bpw.2_Splice_Site|FES_uc010bny.2_Splice_Site_p.T251_splice|FES_uc002bpx.2_Splice_Site_p.T309_splice|FES_uc002bpy.2_Splice_Site_p.T251_splice	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1						axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			TGCAGCACACGTGGGTGGTGG	0.622													23	78					0	0	0.012319	0	0		A	91432867	A	A	91432867	5	1	61	1	0	0	0	0	0	0	1	0	5834	1159	40	1	949	1	FES	15	91432867	Splice_Site	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1568657	91432867	11098525	639	42645											
ARHGDIG	398	broad.mit.edu	37	chr16	332056	332056	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccaatgtgcaggtgaccagGctgacactcctgtcggaaca	10	7	11	13	1	0	2	0	2	0	0	2	3	1	3	3	3	2	2	3	3	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:332056G>A	uc002cgm.1	+	3	360	c.285G>A	c.(283-285)AGG>AGA	p.R95R	PDIA2_uc002cgn.1_5'UTR|PDIA2_uc010bqt.1_5'Flank|PDIA2_uc002cgo.1_5'Flank	NM_001176	NP_001167	Q99819	GDIR3_HUMAN	Rho GDP dissociation inhibitor (GDI) gamma	95					negative regulation of cell adhesion|regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytoplasmic membrane-bounded vesicle|cytosol	GTPase activator activity|Rho GDP-dissociation inhibitor activity			central_nervous_system(1)	1		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				AGGTGACCAGGCTGACACTCC	0.642													8	73					0	0	0.004482	0	0		A	332056	A	A	332056	2	1	61	1	0	0	0	0	0	0	0	1	892	1194	42	2		2	ARHGDIG	16	332056	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08		332056	90022697	640	42646											
WFIKKN1	117166	broad.mit.edu	37	chr16	682785	682785	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctgtgagaaggagcccagCttcacctgcgcctcggacgg	7	6	14	14	4	1	1	1	1	0	1	2	4	1	3	3	3	3	2	3	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:682785C>T	uc002cht.1	+	2	617	c.375C>T	c.(373-375)AGC>AGT	p.S125S	WFIKKN1_uc002chs.1_3'UTR	NM_053284	NP_444514	Q96NZ8	WFKN1_HUMAN	WAP, follistatin/kazal, immunoglobulin, kunitz	125	Kazal-like.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity				0		Hepatocellular(780;0.00335)				AGGAGCCCAGCTTCACCTGCG	0.682													4	27					0	0	0.000602	0	0		T	682785	T	T	682785	2	4	61	1	0	0	0	0	0	0	0	1	17384	796	28	2		2	WFIKKN1	16	682785	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	350729	682785	89671968	641	42647											
METRN	79006	broad.mit.edu	37	chr16	767217	767218	+	Frame_Shift_Ins	INS	-	C	C																															ggggctgacctccattcgtaINSccccactgcgctgtggcgtc																										TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:767217_767218insC	uc002cjd.2	+	4	829_830	c.712_713insC	c.(712-714)ACCfs	p.T238fs	uc010bra.1_5'Flank	NM_024042	NP_076947	Q9UJH8	METRN_HUMAN	meteorin, glial cell differentiation regulator	238											0		Hepatocellular(780;0.00335)				CTCCATTCGTACCCCACTGCGC	0.698													4	9	---	---	---	---						.	C	767218	C	C	767217	7	5	61	1	0	1	1	0	0	0	0	0	9506	391	14	0	726	0	METRN	16	767217	Frame_Shift_Ins	INS	-	TCGA-BR-8081-01A-11D-2340-08	84432	767217	89587536	642	42648											
CACNA1H	8912	broad.mit.edu	37	chr16	1257285	1257285	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcccccagatcctgacccAggaggactggaacgtggtcc	9	7	11	14	1	0	2	0	1	0	1	3	5	3	5	5	4	1	0	5	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:1257285A>G	uc002cks.2	+	14	3166	c.2918A>G	c.(2917-2919)CAG>CGG	p.Q973R	CACNA1H_uc002ckt.2_Missense_Mutation_p.Q973R|CACNA1H_uc002cku.2_5'Flank|CACNA1H_uc010brj.2_5'Flank|CACNA1H_uc002ckv.2_5'Flank	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	973	II.|Extracellular (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	ATCCTGACCCAGGAGGACTGG	0.642													5	13					0	0	0.000602	0	0		G	1257285	G	G	1257285	3	3	61	1	0	0	0	0	1	0	0	0	2548	188	7	3	2968	3	CACNA1H	16	1257285	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	490068	1257285	89097468	643	42649											
IFT140	9742	broad.mit.edu	37	chr16	1616233	1616233	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagtcttgaagtcaaagacGgtcactgtgtccatttcaac	11	11	8	11	1	4	2	3	1	1	1	5	2	5	2	2	1	1	0	2	1	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:1616233G>A	uc002cmb.2	-	16	2192	c.1830C>T	c.(1828-1830)ACC>ACT	p.T610T	IFT140_uc002clz.2_Silent_p.T261T	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	610										ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				AGTCAAAGACGGTCACTGTGT	0.448													30	115					0	0	0.007291	0	0		A	1616233	A	A	1616233	2	1	61	1	0	0	0	0	0	0	0	1	7572	1103	39	1		1	IFT140	16	1616233	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	358948	1616233	88738520	644	42650											
IGFALS	3483	broad.mit.edu	37	chr16	1841073	1841073	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaagaggcggtggggcAggtgcgtgagctggttggag	6	7	22	6	2	0	2	0	1	0	1	0	4	0	4	1	8	2	3	1	8	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:1841073A>G	uc002cmy.2	-	2	1427	c.1346T>C	c.(1345-1347)CTG>CCG	p.L449P	IGFALS_uc010uvn.1_Missense_Mutation_p.L487P|IGFALS_uc010uvo.1_Missense_Mutation_p.L83P	NM_004970	NP_004961	P35858	ALS_HUMAN	insulin-like growth factor binding protein, acid	449	LRR 16.				cell adhesion|signal transduction	soluble fraction	insulin-like growth factor binding				0						GCGGTGGGGCAGGTGCGTGAG	0.692													10	15					0	0	0.006214	0	0		G	1841073	G	G	1841073	3	3	61	1	0	0	0	0	1	0	0	0	7593	188	7	3	475	3	IGFALS	16	1841073	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	224840	1841073	88513680	645	42651											
NTHL1	4913	broad.mit.edu	37	chr16	2090230	2090230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgattctgtgcacatgcGtgtccactgctgctgggagg	5	11	15	10	2	1	0	0	0	1	0	2	2	2	1	1	3	4	3	1	3	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:2090230G>A	uc002col.1	-	5	738	c.719C>T	c.(718-720)ACG>ATG	p.T240M	NTHL1_uc002com.1_Missense_Mutation_p.T241M	NM_002528	NP_002519	P78549	NTHL1_HUMAN	nth endonuclease III-like 1	240					depyrimidination|nucleotide-excision repair, DNA incision, 5'-to lesion	nucleoplasm	4 iron, 4 sulfur cluster binding|double-stranded DNA binding|endonuclease activity|metal ion binding|oxidized pyrimidine base lesion DNA N-glycosylase activity|protein binding			lung(1)	1						GTGCACATGCGTGTCCACTGC	0.667								BER_DNA_glycosylases					7	100					0	0	0.001984	0	0		A	2090230	A	A	2090230	3	1	61	1	0	0	0	0	1	0	0	0	10717	1145	40	1	227	1	NTHL1	16	2090230	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	249157	2090230	88264523	646	42652											
TSC2	7249	broad.mit.edu	37	chr16	2124276	2124276	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcgtggccttgtccatcTgcagcgtggagatgcctgac	5	10	14	12	3	1	2	0	1	1	1	3	3	2	2	3	2	3	1	3	2	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:2124276T>C	uc002con.2	+	22	2537	c.2431T>C	c.(2431-2433)TGC>CGC	p.C811R	TSC2_uc010bsd.2_Missense_Mutation_p.C811R|TSC2_uc002coo.2_Missense_Mutation_p.C811R|TSC2_uc010uvv.1_Missense_Mutation_p.C774R|TSC2_uc010uvw.1_Missense_Mutation_p.C762R|TSC2_uc002cop.2_Missense_Mutation_p.C611R	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	811					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				CTTGTCCATCTGCAGCGTGGA	0.622			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				8	35					0	0	0.004482	0	0		C	2124276	C	C	2124276	3	2	61	1	0	0	0	0	1	0	0	0	16632	1580	55	3	2513	3	TSC2	16	2124276	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	34046	2124276	88230477	647	42653											
PKD1	5310	broad.mit.edu	37	chr16	2159842	2159842	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcatggtgaccaagtgcaGgccgggtgtggggaagctat	8	8	17	8	2	1	1	1	1	0	0	1	2	1	2	2	5	2	2	2	5	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:2159842G>T	uc002cos.1	-	15	5535	c.5326C>A	c.(5326-5328)CTG>ATG	p.L1776M	PKD1_uc002cot.1_Missense_Mutation_p.L1776M	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1776	PKD 13.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						ACCAAGTGCAGGCCGGGTGTG	0.632													4	27					5.9392e-07	6.44428e-07	0.001168	1	0		T	2159842	T	T	2159842	3	4	61	1	0	0	0	0	1	0	0	0	11982	991	35	5	7713	5	PKD1	16	2159842	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	35566	2159842	88194911	648	42654											
PKD1	5310	broad.mit.edu	37	chr16	2162823	2162823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggccgagtccaccagcaCgcccgccgtcagtgctagcg	7	4	12	18	6	1	0	1	0	0	0	2	1	2	0	5	1	3	2	5	1	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:2162823C>T	uc002cos.1	-	13	3336	c.3127G>A	c.(3127-3129)GTG>ATG	p.V1043M	PKD1_uc002cot.1_Missense_Mutation_p.V1043M	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1043	PKD 5.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						TCCACCAGCACGCCCGCCGTC	0.672													6	32					0	0	0.001168	0	0		T	2162823	T	T	2162823	3	4	61	1	0	0	0	0	1	0	0	0	11982	536	19	1	9920	1	PKD1	16	2162823	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2981	2162823	88191930	649	42655											
E4F1	1877	broad.mit.edu	37	chr16	2285285	2285285	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcgccggccaccagatcatCgtgcagaacgtcaccatgga	11	5	11	14	4	2	2	2	0	0	2	3	3	2	3	4	2	3	1	4	2	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:2285285C>T	uc002cpm.2	+	14	2115	c.2067C>T	c.(2065-2067)ATC>ATT	p.I689I	E4F1_uc010bsi.2_3'UTR|E4F1_uc010bsj.2_Silent_p.I512I|DNASE1L2_uc002cpn.2_5'Flank|DNASE1L2_uc002cpo.2_5'Flank|DNASE1L2_uc002cpp.2_5'Flank|DNASE1L2_uc002cpq.2_5'Flank	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	689					cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						ACCAGATCATCGTGCAGAACG	0.662													13	59					0	0	0.003163	0	0		T	2285285	T	T	2285285	2	4	61	1	0	0	0	0	0	0	0	1	4880	874	31	1		1	E4F1	16	2285285	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	122462	2285285	88069468	650	42656											
ZNF205	7755	broad.mit.edu	37	chr16	3170202	3170202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtgcggcaagagcttcaGccggcgctccaacctgcacc	7	7	12	15	3	1	1	1	0	0	1	2	1	2	1	4	2	5	5	4	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:3170202G>A	uc002cub.2	+	7	1676	c.1541G>A	c.(1540-1542)AGC>AAC	p.S514N	ZNF205_uc002cua.2_Missense_Mutation_p.S514N	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	514	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						AAGAGCTTCAGCCGGCGCTCC	0.617													12	30					0	0	0.013537	0	0		A	3170202	A	A	3170202	3	1	61	1	0	0	0	0	1	0	0	0	17789	971	34	2	1563	2	ZNF205	16	3170202	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	884917	3170202	87184551	651	42657											
TRAP1	10131	broad.mit.edu	37	chr16	3740886	3740886	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttcctccttgtcctcggcGgtctgcgtgctgaacagtcg	3	12	13	13	4	1	1	0	1	1	0	6	1	4	1	3	3	3	2	3	3	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:3740886G>A	uc002cvt.3	-	2	278	c.189C>T	c.(187-189)ACC>ACT	p.T63T	TRAP1_uc010uxf.1_Intron	NM_016292	NP_057376	Q12931	TRAP1_HUMAN	TNF receptor-associated protein 1 precursor	63					cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)				TGTCCTCGGCGGTCTGCGTGC	0.597											OREG0023572	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	45					0	0	0.008291	0	0		A	3740886	A	A	3740886	2	1	61	1	0	0	0	0	0	0	0	1	16481	1103	39	1		1	TRAP1	16	3740886	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	570684	3740886	86613867	652	42658											
CREBBP	1387	broad.mit.edu	37	chr16	3823777	3823777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacgcctgtttgggctggcGgctgccccatgcccacactc	5	8	11	17	2	0	0	0	0	0	0	1	0	0	0	4	3	2	3	4	3	0	1	rs150767375		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:3823777G>A	uc002cvv.2	-	13	2642	c.2438C>T	c.(2437-2439)CCG>CTG	p.P813L	CREBBP_uc002cvw.2_Missense_Mutation_p.P775L	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	813					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TTGGGCTGGCGGCTGCCCCAT	0.552			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				11	40					0	0	0.008291	0	0		A	3823777	A	A	3823777	3	1	61	1	0	0	0	0	1	0	0	0	3864	1116	39	1	4966	1	CREBBP	16	3823777	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	82891	3823777	86530976	653	42659											
MKL2	57496	broad.mit.edu	37	chr16	14341277	14341277	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccaggctttactgaccacGcagactgctcagctgctgct	7	9	9	16	1	1	2	1	1	0	1	1	2	1	2	3	1	5	6	3	1	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:14341277G>A	uc010uza.1	+	12	2315	c.2160G>A	c.(2158-2160)ACG>ACA	p.T720T	MKL2_uc002dcg.2_Intron|MKL2_uc002dcj.2_5'UTR	NM_014048	NP_054767	Q9ULH7	MKL2_HUMAN	megakaryoblastic leukemia 2 protein	709	Gln-rich.				cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5						TACTGACCACGCAGACTGCTC	0.587													5	18					0	0	0.000602	0	0		A	14341277	A	A	14341277	2	1	61	1	0	0	0	0	0	0	0	1	9620	1102	38	1		1	MKL2	16	14341277	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	10517500	14341277	76013476	654	42660											
NOMO1	23420	broad.mit.edu	37	chr16	14932348	14932348	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttatgatccctttgtatGataaggtaagaggggactgc	11	13	11	6	0	0	3	0	2	0	1	1	4	1	4	1	3	1	2	1	3	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:14932348G>T	uc002dcv.2	+	2	316	c.250G>T	c.(250-252)GAT>TAT	p.D84Y		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor	84	Extracellular (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						CCCTTTGTATGATAAGGTAAG	0.443													25	124					1.39806e-14	1.5717e-14	0.008361	1	0		T	14932348	T	T	14932348	3	4	61	1	0	0	0	0	1	0	0	0	10550	1290	45	5	256	5	NOMO1	16	14932348	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	591071	14932348	75422405	655	42661											
C16orf88	400506	broad.mit.edu	37	chr16	19725713	19725713	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctcctggtggatttttttTttcttcttcaccttcccatt	3	21	4	13	0	3	0	1	0	2	0	5	1	5	1	4	2	0	0	4	2	0	9			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:19725713T>C	uc002dgq.2	-	2	660	c.645A>G	c.(643-645)AAA>AAG	p.K215K	IQCK_uc002dgr.2_5'Flank|IQCK_uc002dgs.2_5'Flank	NM_001012991	NP_001013009	Q1ED39	CP088_HUMAN	hypothetical protein LOC400506	215	Lys-rich.					nucleolus					0						GGATTTTTTTTTTCTTCTTCA	0.537													13	59					0	0	0.001855	0	0		C	19725713	C	C	19725713	2	2	61	1	0	0	0	0	0	0	0	1	1844	1838	64	3		3	C16orf88	16	19725713	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	4793365	19725713	70629040	656	42662											
ACSM2B	348158	broad.mit.edu	37	chr16	20548586	20548586	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctcctagacgcctcactgCgcacgggcttttccggacat	6	10	10	15	4	2	1	1	0	1	1	4	2	3	2	3	2	1	2	3	2	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:20548586C>T	uc002dhj.3	-	15	1938	c.1728G>A	c.(1726-1728)GCG>GCA	p.A576A	ACSM2B_uc002dhk.3_Silent_p.A576A	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	576					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						CGCCTCACTGCGCACGGGCTT	0.458													27	148					0	0	0.004656	0	0		T	20548586	T	T	20548586	2	4	61	1	0	0	0	0	0	0	0	1	184	755	27	1		1	ACSM2B	16	20548586	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	822873	20548586	69806167	657	42663											
CRYM	1428	broad.mit.edu	37	chr16	21278978	21278978	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccacagcctcctggacCgaagaacagacccgtacctc	10	5	8	18	2	0	2	0	0	0	2	2	4	1	3	7	1	4	1	7	1	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:21278978C>T	uc002dik.2	-	5	655	c.570G>A	c.(568-570)TCG>TCA	p.S190S	CRYM_uc010bwq.1_RNA|CRYM_uc002dil.2_Silent_p.S148S|CRYM_uc002dim.2_Silent_p.S190S	NM_001888	NP_001879	Q14894	CRYM_HUMAN	crystallin, mu isoform 1	190					negative regulation of transcription from RNA polymerase II promoter|sensory perception of sound|thyroid hormone transport	cytoplasm|nucleus|plasma membrane	NADP binding|protein homodimerization activity|thyroid hormone binding|transcription corepressor activity				0				GBM - Glioblastoma multiforme(48;0.0573)	Levothyroxine(DB00451)	CCTCCTGGACCGAAGAACAGA	0.512													6	51					0	0	0.001984	0	0		T	21278978	T	T	21278978	2	4	61	1	0	0	0	0	0	0	0	1	3924	639	23	1		1	CRYM	16	21278978	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	730392	21278978	69075775	658	42664											
GGA2	23062	broad.mit.edu	37	chr16	23505687	23505687	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgggccagtagccagggCgcatgtgtggggctacaggg	6	8	19	8	1	0	0	0	0	0	0	0	0	0	0	2	5	2	3	2	5	2	3	rs150275766	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:23505687C>T	uc002dlq.2	-	3	265	c.189G>A	c.(187-189)GCG>GCA	p.A63A	GGA2_uc010bxo.1_RNA	NM_015044	NP_055859	Q9UJY4	GGA2_HUMAN	ADP-ribosylation factor binding protein 2	63	VHS.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|clathrin-coated vesicle|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.0386)		GTAGCCAGGGCGCATGTGTGG	0.502													6	33					0	0	0.001168	0	0		T	23505687	T	T	23505687	2	4	61	1	0	0	0	0	0	0	0	1	6368	755	27	1		1	GGA2	16	23505687	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2226709	23505687	66849066	659	42665											
EARS2	124454	broad.mit.edu	37	chr16	23544081	23544081	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcagggtcctgcccatttGgttctctgcaaagaagagag	9	9	13	10	1	1	2	0	0	1	2	3	3	2	2	2	3	2	3	2	3	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:23544081G>T	uc002dlt.3	-	5	996	c.964C>A	c.(964-966)CAA>AAA	p.Q322K	EARS2_uc002dlr.3_RNA|EARS2_uc002dls.3_RNA|EARS2_uc002dlu.2_Missense_Mutation_p.Q322K	NM_001083614	NP_001077083	Q5JPH6	SYEM_HUMAN	glutamyl-tRNA synthetase 2 precursor	322					glutamyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|glutamate-tRNA ligase activity|RNA binding				0				GBM - Glioblastoma multiforme(48;0.0353)	L-Glutamic Acid(DB00142)	CTGCCCATTTGGTTCTCTGCA	0.453													3	21					0.004672	0.00479423	0.004672	1	0		T	23544081	T	T	23544081	3	4	61	1	0	0	0	0	1	0	0	0	4884	1357	47	5	627	5	EARS2	16	23544081	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	38394	23544081	66810672	660	42666											
ARHGAP17	55114	broad.mit.edu	37	chr16	24950837	24950837	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgggcggaagtggcggCtggaaagcgggggatatgtg	7	8	21	5	3	1	0	0	0	1	0	1	3	1	3	0	7	1	1	0	7	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:24950837C>T	uc002dnb.2	-	17	1665	c.1572G>A	c.(1570-1572)CAG>CAA	p.Q524Q	ARHGAP17_uc002dmy.2_5'Flank|ARHGAP17_uc002dmz.2_Silent_p.Q48Q|ARHGAP17_uc002dna.2_Silent_p.Q251Q|ARHGAP17_uc002dnc.2_Intron|ARHGAP17_uc010vcf.1_Intron	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	524	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		GAAGTGGCGGCTGGAAAGCGG	0.612													3	8					0	0	0.004672	0	0		T	24950837	T	T	24950837	2	4	61	1	0	0	0	0	0	0	0	1	867	796	28	2		2	ARHGAP17	16	24950837	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1406756	24950837	65403916	661	42667											
GTF3C1	2975	broad.mit.edu	37	chr16	27497443	27497443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcggcttcatcatggtagcGcagccttttgcttttttctc	4	17	9	11	2	3	0	2	0	1	0	5	0	3	0	1	2	3	4	1	2	1	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:27497443G>A	uc002dov.1	-	24	3773	c.3733C>T	c.(3733-3735)CGC>TGC	p.R1245C	GTF3C1_uc002dou.2_Missense_Mutation_p.R1245C	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1245						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TCATGGTAGCGCAGCCTTTTG	0.562													31	161					0	0	0.010818	0	0		A	27497443	A	A	27497443	3	1	61	1	0	0	0	0	1	0	0	0	6888	1087	38	1	2652	1	GTF3C1	16	27497443	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2546606	27497443	62857310	662	42668											
ZNF48	197407	broad.mit.edu	37	chr16	30410362	30410362	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggcacctggtcctgacGccctttgggataggggatgg	5	9	17	10	2	0	1	0	1	0	0	1	3	1	3	3	6	0	1	3	6	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:30410362G>A	uc002dya.1	+	2	1850	c.1791G>A	c.(1789-1791)ACG>ACA	p.T597T	ZNF48_uc002dxz.1_Silent_p.T474T	NM_152652	NP_689865	Q96MX3	ZNF48_HUMAN	zinc finger protein 48	597					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGGTCCTGACGCCCTTTGGGA	0.622													13	60					0	0	0.004007	0	0		A	30410362	A	A	30410362	2	1	61	1	0	0	0	0	0	0	0	1	17959	1074	38	1		1	ZNF48	16	30410362	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2912919	30410362	59944391	663	42669											
C16orf93	90835	broad.mit.edu	37	chr16	30768881	30768881	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctgctgagcctttcctcGctggccttgagccgctcctc	2	13	10	16	2	0	2	0	2	0	0	4	2	2	2	5	1	4	4	5	1	0	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:30768881G>A	uc002dzm.2	-	9	1243	c.912C>T	c.(910-912)AGC>AGT	p.S304S	C16orf93_uc002dzn.2_Silent_p.S369S|C16orf93_uc002dzo.2_Silent_p.S267S	NM_001014979	NP_001014979	A1A4V9	CP093_HUMAN	hypothetical protein LOC90835	304	Potential.										0						GCCTTTCCTCGCTGGCCTTGA	0.592													17	100					0	0	0.004007	0	0		A	30768881	A	A	30768881	2	1	61	1	0	0	0	0	0	0	0	1	1849	1078	38	1		1	C16orf93	16	30768881	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	358519	30768881	59585872	664	42670											
ZNF629	23361	broad.mit.edu	37	chr16	30794106	30794106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccgcagtcggagcacaCgaacaggttctcgtccatgt	8	9	10	14	4	1	0	0	0	1	0	5	2	3	1	2	2	2	3	2	2	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:30794106C>T	uc002dzs.1	-	3	1751	c.1543G>A	c.(1543-1545)GTG>ATG	p.V515M		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	515	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			TCGGAGCACACGAACAGGTTC	0.642													6	39					0	0	0.001168	0	0		T	30794106	T	T	30794106	3	4	61	1	0	0	0	0	1	0	0	0	18078	536	19	1	1070	1	ZNF629	16	30794106	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	25225	30794106	59560647	665	42671											
SETD1A	9739	broad.mit.edu	37	chr16	30982826	30982826	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcctcctcctcctcctcGtcctcatcctcctcgtcctc	2	14	2	23	2	2	0	2	0	0	0	14	0	11	0	9	0	0	0	9	0	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:30982826G>A	uc002ead.1	+	13	3830	c.3144G>A	c.(3142-3144)TCG>TCA	p.S1048S		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1048	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						cctcctcctcgtcctcatcct	0.418													11	50					0	0	0.008291	0	0		A	30982826	A	A	30982826	2	1	61	1	0	0	0	0	0	0	0	1	14155	1132	40	1		1	SETD1A	16	30982826	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	188720	30982826	59371927	666	42672											
ZNF423	23090	broad.mit.edu	37	chr16	49764857	49764857	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacggctggttttctgatcGcactctggctctccttctag	4	14	10	13	2	4	1	0	1	4	0	6	1	4	1	1	3	0	5	1	3	1	4	rs139517505		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:49764857G>A	uc002efs.2	-	4	400	c.102C>T	c.(100-102)TGC>TGT	p.C34C		NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	34					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				TTTTCTGATCGCACTCTGGCT	0.493													26	137					0	0	0.003954	0	0		A	49764857	A	A	49764857	2	1	61	1	0	0	0	0	0	0	0	1	17923	1079	38	1		1	ZNF423	16	49764857	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	18782031	49764857	40589896	667	42673											
CYLD	1540	broad.mit.edu	37	chr16	50813710	50813710	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaccattcagtctcaccAagatgcccaataccaatgga	13	10	5	13	0	2	1	2	0	1	1	3	2	2	2	4	1	3	0	4	1	5	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:50813710A>G	uc002egp.1	+	9	1688	c.1273A>G	c.(1273-1275)AAG>GAG	p.K425E	CYLD_uc002ego.2_Missense_Mutation_p.K422E|CYLD_uc010cbs.1_Missense_Mutation_p.K422E|CYLD_uc002egq.1_Missense_Mutation_p.K422E|CYLD_uc002egr.1_Missense_Mutation_p.K422E|CYLD_uc002egs.1_Missense_Mutation_p.K422E	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	425	Interaction with TRAF2.|Interaction with TRIP.				cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				CAGTCTCACCAAGATGCCCAA	0.498			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				31	121					0	0	0.008361	0	0		G	50813710	G	G	50813710	3	3	61	1	0	0	0	0	1	0	0	0	4146	131	5	3	1299	3	CYLD	16	50813710	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1048853	50813710	39541043	668	42674											
CHD9	80205	broad.mit.edu	37	chr16	53276823	53276823	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatgattcttggaggctgTggagagcttaatgcaattga	12	12	13	4	0	1	3	0	2	1	1	1	6	1	4	0	3	2	3	0	3	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:53276823T>A	uc002ehb.2	+	12	3113	c.2949T>A	c.(2947-2949)TGT>TGA	p.C983*	CHD9_uc002egy.2_Nonsense_Mutation_p.C983*|CHD9_uc002eha.1_Nonsense_Mutation_p.C983*|CHD9_uc002ehc.2_Nonsense_Mutation_p.C983*|CHD9_uc002ehf.2_Nonsense_Mutation_p.C97*|CHD9_uc002ehd.2_Nonsense_Mutation_p.C509*|CHD9_uc002ehe.1_Nonsense_Mutation_p.C97*	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	983	Helicase ATP-binding.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				TTGGAGGCTGTGGAGAGCTTA	0.368													23	114					0	0	0.00333	0	0		A	53276823	A	A	53276823	4	1	61	1	0	0	0	0	0	1	0	0	3335	1702	59	5	2995	5	CHD9	16	53276823	Nonsense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	2463113	53276823	37077930	669	42675											
NUDT21	11051	broad.mit.edu	37	chr16	56485037	56485037	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggtgaggggcttcgtctgCtggatgtacttgttgccgaa	6	12	16	7	2	1	1	0	1	1	0	2	3	1	2	1	4	3	4	1	4	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:56485037C>T	uc002eja.2	-	1	225	c.78G>A	c.(76-78)CAG>CAA	p.Q26Q	OGFOD1_uc002ejb.2_5'Flank|OGFOD1_uc002ejc.2_5'Flank	NM_007006	NP_008937	O43809	CPSF5_HUMAN	cleavage and polyadenylation specific factor 5	26	Necessary for RNA-binding.				mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|protein tetramerization|termination of RNA polymerase II transcription	centrosome|mRNA cleavage factor complex|paraspeckles	AU-rich element binding|histone deacetylase binding|hydrolase activity|mRNA binding|protein homodimerization activity				0						GCTTCGTCTGCTGGATGTACT	0.637													18	92					0	0	0.010504	0	0		T	56485037	T	T	56485037	2	4	61	1	0	0	0	0	0	0	0	1	10757	796	28	2		2	NUDT21	16	56485037	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3208214	56485037	33869716	670	42676											
NUP93	9688	broad.mit.edu	37	chr16	56864565	56864565	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgggagagtttaaaacctgGttccaggagtacatgaacag	13	9	12	7	0	0	2	0	1	0	1	1	4	1	3	2	3	3	3	2	3	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:56864565G>A	uc002eka.2	+	10	1174	c.1053G>A	c.(1051-1053)TGG>TGA	p.W351*	NUP93_uc002ekb.2_Nonsense_Mutation_p.W228*|NUP93_uc010vhi.1_Nonsense_Mutation_p.W228*	NM_014669	NP_055484	Q8N1F7	NUP93_HUMAN	nucleoporin 93kDa	351					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(1)|lung(1)	2						TTAAAACCTGGTTCCAGGAGT	0.532													13	55					0	0	0.013537	0	0		A	56864565	A	A	56864565	4	1	61	1	0	0	0	0	0	1	0	0	10791	1270	44	4	1087	4	NUP93	16	56864565	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	379528	56864565	33490188	671	42677											
SLC12A3	6559	broad.mit.edu	37	chr16	56906652	56906652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttctccatcttcttcccctCggccacaggcatcctggcag	5	11	8	17	1	3	0	0	0	3	0	7	0	5	0	5	3	0	3	5	3	0	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:56906652C>T	uc010ccm.2	+	8	1078	c.1049C>T	c.(1048-1050)TCG>TTG	p.S350L	SLC12A3_uc002ekd.3_Missense_Mutation_p.S350L|SLC12A3_uc010ccn.2_Missense_Mutation_p.S349L	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	350	Helical; (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	TTCTTCCCCTCGGCCACAGGC	0.572													11	47					0	0	0.013537	0	0		T	56906652	T	T	56906652	3	4	61	1	0	0	0	0	1	0	0	0	14409	893	31	1	1079	1	SLC12A3	16	56906652	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	42087	56906652	33448101	672	42678											
CCL22	6367	broad.mit.edu	37	chr16	57394460	57394460	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacctcagactcctgcccgaGgcctggcgtggtgtgagtag	6	8	15	12	2	1	2	1	1	0	1	2	4	2	2	4	3	1	1	4	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:57394460G>T	uc002elh.2	+	2	196	c.185G>T	c.(184-186)AGG>ATG	p.R62M		NM_002990	NP_002981	O00626	CCL22_HUMAN	small inducible cytokine A22 precursor	62					cell-cell signaling|chemotaxis|immune response|inflammatory response|response to virus|signal transduction	extracellular space	chemokine activity				0						TCCTGCCCGAGGCCTGGCGTG	0.647													13	36					3.27435e-08	3.58587e-08	0.00245	1	0		T	57394460	T	T	57394460	3	4	61	1	0	0	0	0	1	0	0	0	2897	1000	35	5	191	5	CCL22	16	57394460	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	487808	57394460	32960293	673	42679											
KATNB1	10300	broad.mit.edu	37	chr16	57789377	57789377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaagaacctggacactgtgCgggctgtgtggaccatgggc	9	7	15	10	1	0	1	0	0	0	1	0	3	0	3	2	4	2	1	2	4	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:57789377C>T	uc002eml.1	+	16	1911	c.1537C>T	c.(1537-1539)CGG>TGG	p.R513W		NM_005886	NP_005877	Q9BVA0	KTNB1_HUMAN	katanin p80 subunit B 1	513	Interaction with KATNA1 and NDEL1 (By similarity).				cell division|mitosis|negative regulation of microtubule depolymerization|positive regulation of microtubule depolymerization|protein targeting	katanin complex|microtubule|spindle pole	microtubule binding|protein heterodimerization activity				0		all_neural(199;0.223)				GGACACTGTGCGGGCTGTGTG	0.657													8	60					0	0	0.004482	0	0		T	57789377	T	T	57789377	3	4	61	1	0	0	0	0	1	0	0	0	8003	759	27	1	1595	1	KATNB1	16	57789377	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	394917	57789377	32565376	674	42680											
TEPP	374739	broad.mit.edu	37	chr16	58019155	58019155	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtacttgaagcccgacgTgacccagacctggcgggtag	8	6	15	12	4	0	3	0	2	0	1	0	4	0	3	3	3	2	2	3	3	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:58019155T>C	uc002emw.3	+	5	708	c.671T>C	c.(670-672)GTG>GCG	p.V224A	TEPP_uc002emv.3_Missense_Mutation_p.V224A	NM_199456	NP_955535	Q6URK8	TEPP_HUMAN	testis/prostate/placenta-expressed protein	224						extracellular region				kidney(1)|central_nervous_system(1)|skin(1)	3						AAGCCCGACGTGACCCAGACC	0.716													3	15					0	0	0.004672	0	0		C	58019155	C	C	58019155	3	2	61	1	0	0	0	0	1	0	0	0	15785	1696	59	3	689	3	TEPP	16	58019155	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	229778	58019155	32335598	675	42681											
FBXL8	55336	broad.mit.edu	37	chr16	67197644	67197644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgctggacgccttccgcgCgcactgcccgcgcctgcgca	3	6	14	18	7	0	0	0	0	0	0	1	1	1	1	4	2	3	3	4	2	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:67197644C>T	uc002erj.1	+	3	1166	c.1046C>T	c.(1045-1047)GCG>GTG	p.A349V	FBXL8_uc002erk.1_Missense_Mutation_p.A349V|HSF4_uc002erl.1_5'UTR|HSF4_uc002erm.1_5'UTR|HSF4_uc002ern.1_5'Flank|HSF4_uc010cec.1_5'Flank	NM_018378	NP_060848	Q96CD0	FBXL8_HUMAN	F-box and leucine-rich repeat protein 8	349							protein binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0144)|Epithelial(162;0.0338)|all cancers(182;0.185)		GCCTTCCGCGCGCACTGCCCG	0.706													6	21					0	0	0.001984	0	0		T	67197644	T	T	67197644	3	4	61	1	0	0	0	0	1	0	0	0	5739	768	27	1	1052	1	FBXL8	16	67197644	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	9178489	67197644	23157109	676	42682											
ACD	65057	broad.mit.edu	37	chr16	67691945	67691945	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccggtcctgggaaaaggcgGccgattcttgcagggcaacc	8	7	14	12	3	1	0	0	0	1	0	3	2	3	1	4	5	2	2	4	5	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:67691945G>A	uc002etq.3	-	10	1745	c.1408C>T	c.(1408-1410)CCG>TCG	p.P470S	ACD_uc002etp.3_Missense_Mutation_p.P467S|ACD_uc002etr.3_Missense_Mutation_p.P467S|ACD_uc010vjt.1_3'UTR|PARD6A_uc002ets.2_5'Flank|PARD6A_uc002ett.2_5'Flank	NM_001082486	NP_001075955	Q96AP0	ACD_HUMAN	adrenocortical dysplasia homolog isoform 1	470					intracellular protein transport|negative regulation of telomere maintenance via telomerase|positive regulation of single-stranded telomeric DNA binding|positive regulation of telomerase activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|telomere assembly	nuclear telomere cap complex|nucleoplasm	DNA binding|DNA polymerase binding			pancreas(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		GGAAAAGGCGGCCGATTCTTG	0.612													7	35					0	0	0.001984	0	0		A	67691945	A	A	67691945	3	1	61	1	0	0	0	0	1	0	0	0	135	1203	42	2	238	2	ACD	16	67691945	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	494301	67691945	22662808	677	42683											
C16orf48	84080	broad.mit.edu	37	chr16	67699037	67699037	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaatctccctgatccgcctCaggttctccttctcatggtc	5	14	7	15	1	4	2	2	2	3	0	9	2	5	2	4	2	0	1	4	2	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:67699037C>T	uc002etw.1	-	3	598	c.315G>A	c.(313-315)CTG>CTA	p.L105L	C16orf48_uc002etv.1_5'Flank|C16orf48_uc010cem.1_Silent_p.L105L|C16orf86_uc002etx.1_5'Flank|C16orf86_uc002ety.2_5'Flank|C16orf86_uc002etz.2_5'Flank	NM_032140	NP_115516	Q9H0I2	CP048_HUMAN	hypothetical protein LOC84080	105						microtubule cytoskeleton	protein binding				0		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		TGATCCGCCTCAGGTTCTCCT	0.597													28	179					0	0	0.008361	0	0		T	67699037	T	T	67699037	2	4	61	1	0	0	0	0	0	0	0	1	1819	813	29	4		4	C16orf48	16	67699037	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	7092	67699037	22655716	678	42684											
C16orf86	388284	broad.mit.edu	37	chr16	67701280	67701280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaccagcgcccagcaggcGcagcttcggagtcggagctc	9	4	14	14	4	0	1	0	0	0	1	3	3	0	3	2	3	4	4	2	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:67701280G>A	uc002ety.2	+	2	341	c.184G>A	c.(184-186)GCA>ACA	p.A62T	C16orf48_uc002etv.1_5'Flank|C16orf48_uc002etw.1_5'Flank|C16orf48_uc010cem.1_5'Flank|C16orf86_uc002etx.1_5'UTR|C16orf86_uc002etz.2_RNA	NM_001012984	NP_001013002	Q6ZW13	CP086_HUMAN	hypothetical protein LOC388284	62											0		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		CCCAGCAGGCGCAGCTTCGGA	0.682													9	17					0	0	0.004482	0	0		A	67701280	A	A	67701280	3	1	61	1	0	0	0	0	1	0	0	0	1842	1087	38	1	190	1	C16orf86	16	67701280	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2243	67701280	22653473	679	42685											
ESRP2	80004	broad.mit.edu	37	chr16	68265946	68265946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccgagaagggcagtcccCgcagccgcaggatcacttgg	9	4	14	14	3	1	1	1	0	0	1	2	3	2	2	4	3	2	3	4	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:68265946C>T	uc010cfa.1	-	10	1276	c.1088G>A	c.(1087-1089)CGG>CAG	p.R363Q	ESRP2_uc002evp.1_RNA|ESRP2_uc002evq.1_Missense_Mutation_p.R353Q	NM_024939	NP_079215	Q9H6T0	ESRP2_HUMAN	RNA binding motif protein 35B	363	RRM 2.				mRNA processing|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding|nucleotide binding			ovary(1)	1						GGGCAGTCCCCGCAGCCGCAG	0.612													5	30					0	0	0.000602	0	0		T	68265946	T	T	68265946	3	4	61	1	0	0	0	0	1	0	0	0	5267	652	23	1	1119	1	ESRP2	16	68265946	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	564666	68265946	22088807	680	42686											
SNTB2	6645	broad.mit.edu	37	chr16	69334794	69334794	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgttgcacacgtttttatcGgccaaagtcactcgtatggg	8	13	11	9	3	1	0	1	0	0	0	3	0	1	0	1	2	1	4	1	2	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:69334794G>A	uc002ewu.2	+	7	1610	c.1590G>A	c.(1588-1590)TCG>TCA	p.S530S	SNTB2_uc010cfk.2_5'Flank	NM_006750	NP_006741	Q13425	SNTB2_HUMAN	basic beta 2 syntrophin	530	Calmodulin-binding (By similarity).|SU.					cell junction|dystrophin-associated glycoprotein complex|membrane fraction|microtubule|transport vesicle membrane	actin binding|calmodulin binding|protein binding				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.208)		CGTTTTTATCGGCCAAAGTCA	0.423													11	40					0	0	0.013537	0	0		A	69334794	A	A	69334794	2	1	61	1	0	0	0	0	0	0	0	1	14898	1103	39	1		1	SNTB2	16	69334794	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1068848	69334794	21019959	681	42687											
PHLPP2	23035	broad.mit.edu	37	chr16	71689196	71689196	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgtgtcattagttgactgCtgtacctcttctaaaagcac	10	14	7	10	0	3	1	1	1	2	0	3	1	3	1	1	0	3	4	1	0	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:71689196C>T	uc002fax.2	-	16	2538	c.2532G>A	c.(2530-2532)CAG>CAA	p.Q844Q	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Silent_p.Q777Q	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	844	PP2C-like.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						TAGTTGACTGCTGTACCTCTT	0.478													7	115					0	0	0.001984	0	0		T	71689196	T	T	71689196	2	4	61	1	0	0	0	0	0	0	0	1	11874	796	28	2		2	PHLPP2	16	71689196	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2354402	71689196	18665557	682	42688											
AP1G1	164	broad.mit.edu	37	chr16	71779115	71779115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagatggtttgcttgtaggcGcagttggaataacaggtgtt	10	13	14	4	1	0	1	0	0	0	1	0	2	0	2	0	4	2	6	0	4	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:71779115G>A	uc010cgg.2	-	19	2245	c.1931C>T	c.(1930-1932)GCG>GTG	p.A644V	AP1G1_uc002fba.2_Missense_Mutation_p.A647V|AP1G1_uc002fbb.2_Missense_Mutation_p.A667V|AP1G1_uc002faz.2_Missense_Mutation_p.A61V	NM_001128	NP_001119	O43747	AP1G1_HUMAN	adaptor-related protein complex 1, gamma 1	644					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|recycling endosome	kinesin binding|protein transporter activity			ovary(2)	2		Ovarian(137;0.125)				GCTTGTAGGCGCAGTTGGAAT	0.408													10	45					0	0	0.006214	0	0		A	71779115	A	A	71779115	3	1	61	1	0	0	0	0	1	0	0	0	732	1087	38	1	557	1	AP1G1	16	71779115	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	89919	71779115	18575638	683	42689											
ATMIN	23300	broad.mit.edu	37	chr16	81078429	81078429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gttctgggtttgaaaccctgGggagcttgttcttcaccagc	6	13	12	10	0	3	1	1	1	2	0	3	2	3	2	2	3	3	4	2	3	1	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:81078429G>A	uc002ffz.1	+	4	2344	c.2326G>A	c.(2326-2328)GGG>AGG	p.G776R	ATMIN_uc002fga.2_Missense_Mutation_p.G618R|ATMIN_uc010vnn.1_Missense_Mutation_p.G547R|ATMIN_uc002fgb.1_Missense_Mutation_p.G618R	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	776					response to DNA damage stimulus	nucleus	zinc ion binding				0						TGAAACCCTGGGGAGCTTGTT	0.463													24	64					0	0	0.00333	0	0		A	81078429	A	A	81078429	3	1	61	1	0	0	0	0	1	0	0	0	1111	1232	43	4	2340	4	ATMIN	16	81078429	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	9299314	81078429	9276324	684	42690											
CDH13	1012	broad.mit.edu	37	chr16	83378583	83378583	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcgggaaggcccctacatCggccacgtcatggaagggtc	8	8	13	12	3	1	0	1	0	0	0	4	2	1	2	3	5	1	0	3	5	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:83378583C>T	uc002fgx.2	+	6	873	c.753C>T	c.(751-753)ATC>ATT	p.I251I	CDH13_uc010vns.1_Silent_p.I298I|CDH13_uc010vnt.1_5'UTR|CDH13_uc010vnu.1_Silent_p.I212I	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	251	Cadherin 2.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		GCCCCTACATCGGCCACGTCA	0.507													11	71					0	0	0.013537	0	0		T	83378583	T	T	83378583	2	4	61	1	0	0	0	0	0	0	0	1	3102	874	31	1		1	CDH13	16	83378583	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2300154	83378583	6976170	685	42691											
KLHL36	79786	broad.mit.edu	37	chr16	84684525	84684525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcggccatacaagatcagcGaatcatcaaaggtctgtgaa	14	8	9	10	2	4	2	3	1	1	1	5	3	4	2	1	2	2	0	1	2	5	1	rs79842977	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:84684525G>A	uc002fig.2	+	2	193	c.52G>A	c.(52-54)GAA>AAA	p.E18K	KLHL36_uc010chl.2_Missense_Mutation_p.E17K	NM_024731	NP_079007	Q8N4N3	KLH36_HUMAN	kelch-like 36	18										skin(2)	2						CAAGATCAGCGAATCATCAAA	0.438													9	45					0	0	0.006214	0	0		A	84684525	A	A	84684525	3	1	61	1	0	0	0	0	1	0	0	0	8405	1059	37	1	54	1	KLHL36	16	84684525	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1305942	84684525	5670228	686	42692											
FOXF1	2294	broad.mit.edu	37	chr16	86544715	86544715	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcggccggcggcctctcGtgcccgcccaacagcctggc	3	5	14	19	5	1	0	0	0	1	0	3	0	1	0	5	5	3	1	5	5	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:86544715G>A	uc002fjl.2	+	1	583	c.540G>A	c.(538-540)TCG>TCA	p.S180S	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	180					branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						GCGGCCTCTCGTGCCCGCCCA	0.687													4	19					0	0	0.000602	0	0		A	86544715	A	A	86544715	2	1	61	1	0	0	0	0	0	0	0	1	6019	1132	40	1		1	FOXF1	16	86544715	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1860190	86544715	3810038	687	42693											
SMG6	23293	broad.mit.edu	37	chr17	2202634	2202634	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagaaatgtagctggggCgtctgagtctttagagcagg	10	10	14	7	1	2	3	0	1	2	2	3	3	3	3	1	3	2	3	1	3	4	3	rs149206280	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:2202634C>T	uc002fub.1	-	2	1468	c.1413G>A	c.(1411-1413)ACG>ACA	p.T471T	SMG6_uc002fud.1_Silent_p.T440T	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	471	Interaction with telomeric DNA.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						GTAGCTGGGGCGTCTGAGTCT	0.517													29	170					0	0	0.00632	0	0		T	2202634	T	T	2202634	2	4	61	1	0	0	0	0	0	0	0	1	14822	755	27	1		1	SMG6	17	2202634	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08		2202634	78992576	688	42694											
ATP2A3	489	broad.mit.edu	37	chr17	3850715	3850715	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacatctgattggtggtgagCgtgcccgtcttgtcggagca	6	11	15	9	3	2	2	0	2	2	0	3	4	2	3	1	3	3	1	1	3	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:3850715C>T	uc002fxb.1	-	8	1216	c.1065G>A	c.(1063-1065)ACG>ACA	p.T355T	ATP2A3_uc002fwx.1_Silent_p.T355T|ATP2A3_uc002fwy.1_Silent_p.T355T|ATP2A3_uc002fwz.1_Silent_p.T355T|ATP2A3_uc002fxa.1_Silent_p.T355T|ATP2A3_uc002fxc.1_Silent_p.T355T|ATP2A3_uc002fxd.1_Silent_p.T355T	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	355	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		TGGTGGTGAGCGTGCCCGTCT	0.647													11	35					0	0	0.001855	0	0		T	3850715	T	T	3850715	2	4	61	1	0	0	0	0	0	0	0	1	1139	755	27	1		1	ATP2A3	17	3850715	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1648081	3850715	77344495	689	42695											
MYBBP1A	10514	broad.mit.edu	37	chr17	4446270	4446270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcttctcctgtgtctcatGcacgcagccctcagcagtgt	5	12	9	15	1	3	0	2	0	2	0	5	0	3	0	2	0	4	4	2	0	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:4446270G>A	uc002fyb.3	-	20	2892	c.2830C>T	c.(2830-2832)CAT>TAT	p.H944Y	MYBBP1A_uc002fxz.3_Missense_Mutation_p.H944Y|MYBBP1A_uc002fya.3_5'Flank|MYBBP1A_uc010vsa.1_5'UTR	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	944					nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						TGTGTCTCATGCACGCAGCCC	0.662													16	89					0	0	0.00499	0	0		A	4446270	A	A	4446270	3	1	61	1	0	0	0	0	1	0	0	0	10026	1319	46	2	1224	2	MYBBP1A	17	4446270	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	595555	4446270	76748940	690	42696											
PELP1	27043	broad.mit.edu	37	chr17	4576294	4576294	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggggcccggaggatggaaCggtggggccctgaagggcga	8	4	21	8	3	0	1	0	1	0	0	0	5	0	4	2	9	1	0	2	9	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:4576294C>T	uc002fyi.3	-	16	2218	c.1992G>A	c.(1990-1992)CCG>CCA	p.P664P	PELP1_uc010vsf.1_Silent_p.P517P	NM_014389	NP_055204	Q8IZL8	PELP1_HUMAN	proline, glutamic acid and leucine rich protein	664	Pro-rich.				transcription, DNA-dependent	cytoplasm|MLL1 complex	protein binding			ovary(1)|central_nervous_system(1)	2						GAGGATGGAACGGTGGGGCCC	0.721													5	28					0	0	0.000602	0	0		T	4576294	T	T	4576294	2	4	61	1	0	0	0	0	0	0	0	1	11744	523	19	1		1	PELP1	17	4576294	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	130024	4576294	76618916	691	42697											
ZMYND15	84225	broad.mit.edu	37	chr17	4647919	4647919	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccactcctggggcccctcaGgacagcctggaggtgtctgt	5	8	13	15	0	2	0	1	0	1	0	3	2	3	2	5	5	1	0	5	5	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:4647919G>T	uc002fyt.2	+	10	1606	c.1567_splice	c.e10-1	p.D523_splice	ZMYND15_uc002fyv.2_Splice_Site_p.D562_splice|ZMYND15_uc002fyu.2_Splice_Site_p.D562_splice	NM_032265	NP_115641	Q9H091	ZMY15_HUMAN	zinc finger, MYND-type containing 15 isoform 2								zinc ion binding				0						GGGCCCCTCAGGACAGCCTGG	0.642													22	78					3.28513e-13	3.68143e-13	0.003954	1	0		T	4647919	T	T	4647919	5	4	61	1	0	0	0	0	0	0	1	0	17733	1014	35	5	1721	5	ZMYND15	17	4647919	Splice_Site	SNP	G	TCGA-BR-8081-01A-11D-2340-08	71625	4647919	76547291	692	42698											
CAMTA2	23125	broad.mit.edu	37	chr17	4875560	4875560	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcctgtgggctgtcagcGtcctctggagcagccccatc	6	8	12	15	1	2	0	1	0	1	0	4	1	3	1	4	2	4	2	4	2	0	0	rs147321617		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:4875560G>A	uc002gah.1	-	16	2883	c.2775C>T	c.(2773-2775)GAC>GAT	p.D925D	CAMTA2_uc010cku.1_Silent_p.D948D|CAMTA2_uc002gag.1_Silent_p.D924D|CAMTA2_uc002gai.1_Silent_p.D927D|CAMTA2_uc010ckv.1_Silent_p.D572D	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	925					cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						GGCTGTCAGCGTCCTCTGGAG	0.577													13	66					0	0	0.00245	0	0		A	4875560	A	A	4875560	2	1	61	1	0	0	0	0	0	0	0	1	2617	1136	40	1		1	CAMTA2	17	4875560	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	227641	4875560	76319650	693	42699											
NUP88	4927	broad.mit.edu	37	chr17	5314064	5314064	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcttcggcttctgaaagTattatcacgttagtgggtgt	7	16	10	8	2	3	1	1	1	2	0	5	1	4	1	1	2	0	3	1	2	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:5314064T>C	uc002gbo.1	-	4	665	c.639A>G	c.(637-639)ATA>ATG	p.I213M	NUP88_uc010vsx.1_Missense_Mutation_p.I213M|NUP88_uc010cle.1_Missense_Mutation_p.I213M|NUP88_uc010vsy.1_Missense_Mutation_p.I213M	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	213					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1						CTTCTGAAAGTATTATCACGT	0.348													12	154					0	0	0.001855	0	0		C	5314064	C	C	5314064	3	2	61	1	0	0	0	0	1	0	0	0	10790	1628	57	3	1642	3	NUP88	17	5314064	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	438504	5314064	75881146	694	42700											
C17orf81	23587	broad.mit.edu	37	chr17	7158035	7158035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcctgtcaccattgctctcGattcactcagctggctgcta	6	14	7	14	1	4	0	3	0	1	0	6	1	5	0	2	1	3	4	2	1	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:7158035G>A	uc002gfg.1	+	5	477	c.370G>A	c.(370-372)GAT>AAT	p.D124N	DULLARD_uc002gfe.2_5'Flank|DULLARD_uc002gff.2_5'Flank|C17orf81_uc002gfj.2_Missense_Mutation_p.D124N|C17orf81_uc010cmb.2_Missense_Mutation_p.D124N|C17orf81_uc002gfh.1_Missense_Mutation_p.D124N|C17orf81_uc002gfi.1_Missense_Mutation_p.D124N|C17orf81_uc002gfk.1_Missense_Mutation_p.D124N|C17orf81_uc002gfl.1_Missense_Mutation_p.D124N	NM_203415	NP_981960	Q8TE02	DERP6_HUMAN	S-phase 2 protein isoform 4	124					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding				0						CATTGCTCTCGATTCACTCAG	0.582													9	53					0	0	0.008291	0	0		A	7158035	A	A	7158035	3	1	61	1	0	0	0	0	1	0	0	0	1889	1058	37	1	384	1	C17orf81	17	7158035	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1843971	7158035	74037175	695	42701											
SLC2A4	6517	broad.mit.edu	37	chr17	7186563	7186563	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttgtgtctgcctgttcaGgatggggaaccccctcagca	6	12	11	12	0	4	0	2	0	2	0	4	2	4	2	3	3	3	2	3	3	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:7186563G>T	uc002gfp.2	+	2	234	c.34_splice	c.e2-1	p.D12_splice	SLC2A4_uc002gfo.2_Splice_Site_p.D12_splice|SLC2A4_uc010cmd.2_Splice_Site	NM_001042	NP_001033	P14672	GTR4_HUMAN	glucose transporter 4						carbohydrate metabolic process|glucose homeostasis|glucose import	external side of plasma membrane|integral to plasma membrane|perinuclear region of cytoplasm	D-glucose transmembrane transporter activity|protein binding				0						TGCCTGTTCAGGATGGGGAAC	0.572													27	107					3.80469e-20	4.29549e-20	0.009535	1	0		T	7186563	T	T	7186563	5	4	61	1	0	0	0	0	0	0	1	0	14571	1014	35	5	39	5	SLC2A4	17	7186563	Splice_Site	SNP	G	TCGA-BR-8081-01A-11D-2340-08	28528	7186563	74008647	696	42702											
NLGN2	57555	broad.mit.edu	37	chr17	7319189	7319189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgggtggcaccagctgtggCcactgccaagctgcacgccg	7	6	14	14	2	0	0	0	0	0	0	0	0	0	0	4	3	4	4	4	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:7319189C>T	uc002ggt.1	+	6	1470	c.1397C>T	c.(1396-1398)GCC>GTC	p.A466V		NM_020795	NP_065846	Q8NFZ4	NLGN2_HUMAN	neuroligin 2 precursor	466	Extracellular (Potential).				cell-cell junction maintenance|neuron cell-cell adhesion|positive regulation of synaptogenesis|regulation of inhibitory postsynaptic membrane potential|synapse assembly	cell surface|integral to plasma membrane|postsynaptic membrane	neurexin binding|receptor activity			central_nervous_system(1)	1		Prostate(122;0.157)				CCAGCTGTGGCCACTGCCAAG	0.612													7	39					0	0	0.001984	0	0		T	7319189	T	T	7319189	3	4	61	1	0	0	0	0	1	0	0	0	10481	739	26	2	1419	2	NLGN2	17	7319189	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	132626	7319189	73876021	697	42703											
CHRNB1	1140	broad.mit.edu	37	chr17	7351982	7351982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagggagggaaggacagcGccaggaagtcatcttctacc	11	5	16	9	1	3	0	1	0	2	0	3	5	3	5	2	5	2	0	2	5	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:7351982G>A	uc002ghb.2	+	7	736	c.695G>A	c.(694-696)CGC>CAC	p.R232H	CHRNB1_uc010vty.1_Missense_Mutation_p.R160H|CHRNB1_uc010vtz.1_Missense_Mutation_p.R66H	NM_000747	NP_000738	P11230	ACHB_HUMAN	nicotinic acetylcholine receptor beta 1 subunit	232	Extracellular (Potential).				behavioral response to nicotine|muscle contraction|muscle fiber development|neuromuscular synaptic transmission|postsynaptic membrane organization|regulation of membrane potential|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine binding|receptor activity			ovary(2)	2		Prostate(122;0.157)				GAAGGACAGCGCCAGGAAGTC	0.562													5	31					0	0	0.000602	0	0		A	7351982	A	A	7351982	3	1	61	1	0	0	0	0	1	0	0	0	3393	1087	38	1	721	1	CHRNB1	17	7351982	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	32793	7351982	73843228	698	42704											
LSMD1	84316	broad.mit.edu	37	chr17	7760760	7760760	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctcttctcgtagcagcaTggtcggtccagctccggcca	6	11	10	14	3	2	0	0	0	2	0	7	0	4	0	3	3	3	4	3	3	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:7760760T>C	uc002giz.2	-	1	121	c.22A>G	c.(22-24)ATG>GTG	p.M8V	LSMD1_uc002gja.2_5'UTR|CYB5D1_uc010cnn.1_5'Flank|CYB5D1_uc002gjb.3_5'Flank			Q9BRA0	LSMD1_HUMAN	RecName: Full=LSM domain-containing protein 1; AltName: Full=Phosphonoformate immuno-associated protein 2;	8						cytoplasm|nucleus				ovary(1)	1		all_cancers(10;0.11)|Prostate(122;0.219)				CGTAGCAGCATGGTCGGTCCA	0.612													8	50					0	0	0.006214	0	0		C	7760760	C	C	7760760	3	2	61	1	0	0	0	0	1	0	0	0	9080	1479	51	3		3	LSMD1	17	7760760	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	408778	7760760	73434450	699	42705											
CNTROB	116840	broad.mit.edu	37	chr17	7852792	7852792	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaagtgggcaccctgccccGagtagcatgaggagccgggg	10	4	16	11	2	0	1	0	1	0	0	0	3	0	2	4	4	3	3	4	4	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:7852792G>A	uc002gjq.2	+	20	3595	c.2676G>A	c.(2674-2676)CCG>CCA	p.P892P	CNTROB_uc002gjp.2_Silent_p.P914P|CNTROB_uc002gjr.2_Silent_p.P795P	NM_053051	NP_444279	Q8N137	CNTRB_HUMAN	centrobin, centrosomal BRCA2 interacting protein	892	Required for centrosome localization.				centriole replication|centrosome separation|cytokinesis	centriole	protein domain specific binding			breast(1)|central_nervous_system(1)	2		Prostate(122;0.173)				ACCCTGCCCCGAGTAGCATGA	0.547													9	52					0	0	0.004482	0	0		A	7852792	A	A	7852792	2	1	61	1	0	0	0	0	0	0	0	1	3654	1045	37	1		1	CNTROB	17	7852792	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	92032	7852792	73342418	700	42706											
ARHGEF15	22899	broad.mit.edu	37	chr17	8215445	8215445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccctccttctcgttccaggGctgcccagtccccagggcct	3	9	10	19	1	1	0	0	0	1	0	5	0	4	0	7	2	1	2	7	2	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:8215445G>A	uc002glc.2	+	2	209	c.88G>A	c.(88-90)GCT>ACT	p.A30T	ARHGEF15_uc002glb.1_Missense_Mutation_p.A30T|ARHGEF15_uc002gld.2_Missense_Mutation_p.A30T|ARHGEF15_uc010vuw.1_Missense_Mutation_p.A30T	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	30	Pro-rich.				negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						TCGTTCCAGGGCTGCCCAGTC	0.622													12	78					0	0	0.013537	0	0		A	8215445	A	A	8215445	3	1	61	1	0	0	0	0	1	0	0	0	898	1203	42	2	90	2	ARHGEF15	17	8215445	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	362653	8215445	72979765	701	42707											
PIK3R5	23533	broad.mit.edu	37	chr17	8790929	8790929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagggctggtcccatgacttCgcttcacaggcacgtagaag	9	8	12	12	2	1	2	1	1	0	1	3	2	2	2	1	3	0	4	1	3	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:8790929C>T	uc002glt.2	-	11	1755	c.1688G>A	c.(1687-1689)CGA>CAA	p.R563Q	PIK3R5_uc010vuz.1_Missense_Mutation_p.R563Q|PIK3R5_uc002glu.3_Missense_Mutation_p.R177Q	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	563					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						CCCATGACTTCGCTTCACAGG	0.607													3	9					0	0	0.004672	0	0		T	8790929	T	T	8790929	3	4	61	1	0	0	0	0	1	0	0	0	11941	884	31	1	990	1	PIK3R5	17	8790929	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	575484	8790929	72404281	702	42708											
MYH13	8735	broad.mit.edu	37	chr17	10258072	10258072	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggctcacgaaggggaagtcGaaggggttggtggagatcag	10	7	19	5	2	2	1	2	0	0	1	3	5	2	2	0	7	0	2	0	7	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:10258072G>A	uc002gmk.1	-	11	1020	c.930C>T	c.(928-930)TTC>TTT	p.F310F		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	310	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						AGGGGAAGTCGAAGGGGTTGG	0.463													7	39					0	0	0.001984	0	0		A	10258072	A	A	10258072	2	1	61	1	0	0	0	0	0	0	0	1	10050	1049	37	1		1	MYH13	17	10258072	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1467143	10258072	70937138	703	42709											
MYH8	4626	broad.mit.edu	37	chr17	10296236	10296236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctgcaggtccttcaccGtctgctccaggttcttcttc	4	14	9	14	1	4	0	1	0	3	0	7	1	6	0	3	2	3	4	3	2	0	4	rs144962215		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:10296236G>A	uc002gmm.2	-	37	5470	c.5375C>T	c.(5374-5376)ACG>ATG	p.T1792M	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1792	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GTCCTTCACCGTCTGCTCCAG	0.557									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				21	135					0	0	0.010504	0	0		A	10296236	A	A	10296236	3	1	61	1	0	0	0	0	1	0	0	0	10059	1145	40	1	454	1	MYH8	17	10296236	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	38164	10296236	70898974	704	42710											
MYH1	4619	broad.mit.edu	37	chr17	10404747	10404747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcccgggagagatcagagcGctgcttctctgctttggccc	5	10	12	14	2	2	2	1	0	1	2	4	4	3	3	2	2	3	3	2	2	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:10404747G>A	uc002gmo.2	-	27	3512	c.3418C>T	c.(3418-3420)CGC>TGC	p.R1140C	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1140	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						AGATCAGAGCGCTGCTTCTCT	0.587													10	72					0	0	0.008291	0	0		A	10404747	A	A	10404747	3	1	61	1	0	0	0	0	1	0	0	0	10047	1087	38	1	2457	1	MYH1	17	10404747	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	108511	10404747	70790463	705	42711											
MYH2	4620	broad.mit.edu	37	chr17	10441021	10441021	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggcagccaggtccatcccGaagtcgatgaacgtccactc	10	6	10	15	3	0	1	0	1	0	0	5	3	3	1	4	2	2	1	4	2	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:10441021G>A	uc010coi.2	-	15	1676	c.1548C>T	c.(1546-1548)TTC>TTT	p.F516F	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.F516F|MYH2_uc010coj.2_Silent_p.F516F	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	516	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GGTCCATCCCGAAGTCGATGA	0.463													26	123					0	0	0.007291	0	0		A	10441021	A	A	10441021	2	1	61	1	0	0	0	0	0	0	0	1	10053	1049	37	1		1	MYH2	17	10441021	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	36274	10441021	70754189	706	42712											
DNAH9	1770	broad.mit.edu	37	chr17	11775053	11775053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcttcacaaagaaatacCggcagagcctcctggacaga	13	7	9	12	1	2	3	1	0	1	3	3	4	3	4	3	2	2	2	3	2	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:11775053C>T	uc002gne.2	+	52	10260	c.10192C>T	c.(10192-10194)CGG>TGG	p.R3398W	DNAH9_uc010coo.2_Missense_Mutation_p.R2692W	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3398					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AAAGAAATACCGGCAGAGCCT	0.383													19	89					0	0	0.012319	0	0		T	11775053	T	T	11775053	3	4	61	1	0	0	0	0	1	0	0	0	4614	643	23	1	10398	1	DNAH9	17	11775053	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1334032	11775053	69420157	707	42713											
TEKT3	64518	broad.mit.edu	37	chr17	15212047	15212047	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgctcatccagtctggtcTgagccaccttcaggaaggca	8	9	11	13	1	4	1	2	1	2	0	5	2	5	2	3	3	2	2	3	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:15212047T>C	uc002gon.2	-	8	1377	c.1190A>G	c.(1189-1191)CAG>CGG	p.Q397R		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	397					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		CAGTCTGGTCTGAGCCACCTT	0.547													12	69					0	0	0.001855	0	0		C	15212047	C	C	15212047	3	2	61	1	0	0	0	0	1	0	0	0	15779	1580	55	3	290	3	TEKT3	17	15212047	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	3436994	15212047	65983163	708	42714											
TOM1L2	146691	broad.mit.edu	37	chr17	17788064	17788064	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgagatcaggactgcttcGaaaggcatcagcccatgcct	10	8	12	11	1	2	1	2	1	0	1	3	4	2	2	2	3	3	2	2	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:17788064G>A	uc002grz.3	-	5	542	c.385C>T	c.(385-387)CGA>TGA	p.R129*	TOM1L2_uc002gry.3_Nonsense_Mutation_p.R79*|TOM1L2_uc010vwy.1_Nonsense_Mutation_p.R129*|TOM1L2_uc010cpr.2_Intron|TOM1L2_uc010vwz.1_Intron|TOM1L2_uc010vxa.1_Intron|TOM1L2_uc010vxb.1_Nonsense_Mutation_p.R79*	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	129	VHS.				intracellular protein transport	intracellular					0	all_neural(463;0.228)					GGACTGCTTCGAAAGGCATCA	0.512													20	79					0	0	0.010504	0	0		A	17788064	A	A	17788064	4	1	61	1	0	0	0	0	0	1	0	0	16378	1066	37	1	1182	1	TOM1L2	17	17788064	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2576017	17788064	63407146	709	42715											
MYO15A	51168	broad.mit.edu	37	chr17	18058634	18058634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctctgccccagggcagcGtgggcactggtgtgcagctc	5	8	14	14	1	1	0	0	0	1	0	3	0	1	0	2	3	4	4	2	3	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:18058634G>A	uc010vxh.1	+	46	8685	c.8347G>A	c.(8347-8349)GTG>ATG	p.V2783M	MYO15A_uc010vxi.1_Missense_Mutation_p.V47M|MYO15A_uc010vxj.1_Translation_Start_Site|MYO15A_uc010vxk.1_Intron|MYO15A_uc010vxl.1_5'Flank	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	2783	Tail.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCAGGGCAGCGTGGGCACTGG	0.647													10	48					0	0	0.006214	0	0		A	18058634	A	A	18058634	3	1	61	1	0	0	0	0	1	0	0	0	10081	1145	40	1	8525	1	MYO15A	17	18058634	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	270570	18058634	63136576	710	42716											
CYTSB	92521	broad.mit.edu	37	chr17	20109123	20109123	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caagaaatgttgaaagtagcCcgagcagagaaagatctact	17	7	10	7	1	1	4	0	1	1	3	1	6	1	4	1	0	3	3	1	0	6	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:20109123C>A	uc002gwq.2	+	4	1906	c.1761C>A	c.(1759-1761)GCC>GCA	p.A587A	CYTSB_uc010cqx.2_Silent_p.A587A|CYTSB_uc002gwr.2_Silent_p.A587A|CYTSB_uc002gws.2_Silent_p.A587A|CYTSB_uc002gwv.2_Silent_p.A506A|CYTSB_uc010vzf.1_Intron|CYTSB_uc002gww.2_Silent_p.A363A|CYTSB_uc002gwt.2_Silent_p.A506A|CYTSB_uc002gwu.2_Silent_p.A506A	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	587	Potential.					nucleus					0						TGAAAGTAGCCCGAGCAGAGA	0.473													15	84					1.05317e-09	1.16542e-09	0.00245	1	0		A	20109123	A	A	20109123	2	1	61	1	0	0	0	0	0	0	0	1	4213	610	22	5		5	CYTSB	17	20109123	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2050489	20109123	61086087	711	42717											
LGALS9B	284194	broad.mit.edu	37	chr17	20354904	20354904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagcattctcatcaaaacGggggttcatgtggaaggcga	12	8	12	9	2	3	0	3	0	1	0	4	2	3	1	0	4	2	2	0	4	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:20354904G>A	uc002gxa.1	-	10	879	c.814C>T	c.(814-816)CGT>TGT	p.R272C	LGALS9B_uc002gwz.1_Missense_Mutation_p.R271C|LGALS9B_uc010vzh.1_Missense_Mutation_p.R184C	NM_001042685	NP_001036150	Q3B8N2	LEG9B_HUMAN	galectin-9 like	272	Galectin 2.						sugar binding			skin(1)	1						TCATCAAAACGGGGGTTCATG	0.572													10	70					0	0	0.013537	0	0		A	20354904	A	A	20354904	3	1	61	1	0	0	0	0	1	0	0	0	8765	1116	39	1	264	1	LGALS9B	17	20354904	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	245781	20354904	60840306	712	42718											
DHRS7B	25979	broad.mit.edu	37	chr17	21087756	21087756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcatccagggcaagatgaGcattccttttcgatcagcat	11	10	9	11	1	1	2	1	1	0	1	4	3	3	2	2	1	3	4	2	1	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:21087756G>A	uc002gyo.2	+	5	626	c.599G>A	c.(598-600)AGC>AAC	p.S200N		NM_015510	NP_056325	Q6IAN0	DRS7B_HUMAN	dehydrogenase/reductase (SDR family) member 7B	200	Peroxisomal (Potential).					integral to membrane|peroxisomal membrane	binding|oxidoreductase activity			pancreas(1)	1						GGCAAGATGAGCATTCCTTTT	0.448													15	44					0	0	0.004007	0	0		A	21087756	A	A	21087756	3	1	61	1	0	0	0	0	1	0	0	0	4502	971	34	2	617	2	DHRS7B	17	21087756	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	732852	21087756	60107454	713	42719											
SEZ6	124925	broad.mit.edu	37	chr17	27287983	27287983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcattgcggatcactccgcCgcaagcagctgttaagacca	10	7	11	13	3	1	1	1	0	0	1	2	2	2	2	3	2	3	5	3	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:27287983C>T	uc002hdp.2	-	6	1443	c.1249G>A	c.(1249-1251)GGC>AGC	p.G417S	SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Missense_Mutation_p.G417S|SEZ6_uc002hdq.1_Missense_Mutation_p.G292S	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	417	Extracellular (Potential).|CUB 1.			AACG -> GECP (in Ref. 1; AAM22213/ AAK71497).|G -> P (in Ref. 1; AAM22213/AAK71497).		integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			ATCACTCCGCCGCAAGCAGCT	0.607													15	74					0	0	0.003163	0	0		T	27287983	T	T	27287983	3	4	61	1	0	0	0	0	1	0	0	0	14167	652	23	1	1796	1	SEZ6	17	27287983	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	6200227	27287983	53907227	714	42720											
ABHD15	116236	broad.mit.edu	37	chr17	27889934	27889934	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgcagatacacagcacaGgcacggctgcctcatcgaca	12	5	9	15	2	1	1	1	0	0	1	2	2	1	1	1	2	4	4	1	2	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:27889934G>T	uc002hed.1	-	2	1116	c.1052C>A	c.(1051-1053)CCT>CAT	p.P351H		NM_198147	NP_937790	Q6UXT9	ABH15_HUMAN	abhydrolase domain containing 15 precursor	351						extracellular region	carboxylesterase activity				0						ACACAGCACAGGCACGGCTGC	0.592													10	38					2.74318e-10	3.0515e-10	0.006214	1	0		T	27889934	T	T	27889934	3	4	61	1	0	0	0	0	1	0	0	0	81	1000	35	5	358	5	ABHD15	17	27889934	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	601951	27889934	53305276	715	42721											
SSH2	85464	broad.mit.edu	37	chr17	27994231	27994231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagcctttctgttcgttcacGttcagtaggtctgagaagag	8	14	11	8	2	4	2	2	1	2	2	5	3	4	2	1	1	1	4	1	1	3	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:27994231G>A	uc002heo.1	-	9	739	c.739C>T	c.(739-741)CGT>TGT	p.R247C	SSH2_uc010wbh.1_Missense_Mutation_p.R274C|SSH2_uc002hep.1_Missense_Mutation_p.R247C	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	247					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						GTTCGTTCACGTTCAGTAGGT	0.343													5	32					0	0	0.000602	0	0		A	27994231	A	A	27994231	3	1	61	1	0	0	0	0	1	0	0	0	15210	1145	40	1	3560	1	SSH2	17	27994231	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	104297	27994231	53200979	716	42722											
GAS2L2	246176	broad.mit.edu	37	chr17	34077256	34077256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaaagcgccacgcccggCggcccagctccagcaaacac	11	1	9	20	4	0	0	0	0	0	0	1	0	1	0	5	2	4	2	5	2	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:34077256C>T	uc002hjv.1	-	2	495	c.467G>A	c.(466-468)CGC>CAC	p.R156H		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	156	CH.				cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCACGCCCGGCGGCCCAGCTC	0.677													32	144					0	0	0.004289	0	0		T	34077256	T	T	34077256	3	4	61	1	0	0	0	0	1	0	0	0	6262	768	27	1	2195	1	GAS2L2	17	34077256	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	6083025	34077256	47117954	717	42723											
ACACA	31	broad.mit.edu	37	chr17	35478397	35478397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgggaaccaaacctggcCagcctgctggattatctatt	10	11	9	11	0	2	0	0	0	2	0	2	2	2	2	4	3	4	1	4	3	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:35478397C>T	uc002hnm.2	-	50	6234	c.6043G>A	c.(6043-6045)GGC>AGC	p.G2015S	ACACA_uc002hnk.2_Missense_Mutation_p.G1937S|ACACA_uc002hnl.2_Missense_Mutation_p.G1957S|ACACA_uc002hnn.2_Missense_Mutation_p.G2015S|ACACA_uc002hno.2_Missense_Mutation_p.G2052S|ACACA_uc010cuy.2_Missense_Mutation_p.G660S|ACACA_uc010wdb.1_Missense_Mutation_p.G53S|ACACA_uc010wdc.1_Missense_Mutation_p.G141S	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	2015	Carboxyltransferase.				acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	CAAACCTGGCCAGCCTGCTGG	0.458													15	61					0	0	0.00499	0	0		T	35478397	T	T	35478397	3	4	61	1	0	0	0	0	1	0	0	0	106	594	21	4	1025	4	ACACA	17	35478397	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1401141	35478397	45716813	718	42724											
ACACA	31	broad.mit.edu	37	chr17	35614709	35614709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgaagtccccctgcagcaGcaacactgaaatatccccaa	14	6	6	15	0	0	2	0	2	0	0	2	2	2	2	4	0	4	3	4	0	5	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:35614709G>A	uc002hnm.2	-	14	1822	c.1631C>T	c.(1630-1632)GCT>GTT	p.A544V	ACACA_uc002hnk.2_Missense_Mutation_p.A466V|ACACA_uc002hnl.2_Missense_Mutation_p.A486V|ACACA_uc002hnn.2_Missense_Mutation_p.A544V|ACACA_uc002hno.2_Missense_Mutation_p.A581V|ACACA_uc010cuz.2_Missense_Mutation_p.A544V	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	544	Biotin carboxylation.				acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	CCCTGCAGCAGCAACACTGAA	0.418													9	54					0	0	0.004482	0	0		A	35614709	A	A	35614709	3	1	61	1	0	0	0	0	1	0	0	0	106	971	34	2	5581	2	ACACA	17	35614709	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	136312	35614709	45580501	719	42725											
PNMT	5409	broad.mit.edu	37	chr17	37826401	37826401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctggaccacatcaccaCgctgctgaggcctggggggc	6	5	15	15	1	1	1	1	1	0	0	1	2	1	2	4	6	1	2	4	6	0	0	rs111272760		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:37826401C>T	uc002hsi.1	+	3	830	c.608C>T	c.(607-609)ACG>ATG	p.T203M		NM_002686	NP_002677	P11086	PNMT_HUMAN	phenylethanolamine N-methyltransferase	203					catecholamine biosynthetic process|hormone biosynthetic process	cytosol	phenylethanolamine N-methyltransferase activity			ovary(1)	1	all_cancers(6;6.59e-85)|all_epithelial(6;2.89e-103)|Breast(7;1.05e-86)|Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;3.87e-45)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CACATCACCACGCTGCTGAGG	0.672													8	22					0	0	0.006214	0	0		T	37826401	T	T	37826401	3	4	61	1	0	0	0	0	1	0	0	0	12178	536	19	1	618	1	PNMT	17	37826401	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2211692	37826401	43368809	720	42726											
MED24	9862	broad.mit.edu	37	chr17	38183270	38183270	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacctcagctcctgtgcgCgactcggacagaatcacctg	8	7	11	15	3	2	1	2	0	0	1	4	3	3	2	3	2	2	2	3	2	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:38183270C>T	uc002htt.2	-	17	1861	c.1548G>A	c.(1546-1548)TCG>TCA	p.S516S	MED24_uc010wes.1_Silent_p.S376S|MED24_uc010wet.1_Intron|MED24_uc002hts.2_Silent_p.S541S|MED24_uc002htu.2_Silent_p.S503S|MED24_uc010cwn.2_Silent_p.S503S|MED24_uc010weu.1_Silent_p.S426S|MED24_uc010wev.1_Silent_p.S466S|MED24_uc010wew.1_Silent_p.S457S|MED24_uc010wex.1_Silent_p.S221S|SNORD124_uc010wey.1_5'Flank	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	516					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)					CTCCTGTGCGCGACTCGGACA	0.672											OREG0024386	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	23					0	0	0.001168	0	0		T	38183270	T	T	38183270	2	4	61	1	0	0	0	0	0	0	0	1	9460	755	27	1		1	MED24	17	38183270	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	356869	38183270	43011940	721	42727											
KRT16	3868	broad.mit.edu	37	chr17	39767342	39767342	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctcaggaaccaggtctcAgcgtctctgcggtttttctc	5	14	10	12	2	4	0	2	0	3	0	7	1	4	1	1	3	4	2	1	3	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:39767342A>G	uc002hxg.3	-	4	1051	c.912T>C	c.(910-912)GCT>GCC	p.A304A	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	304	Rod.|Coil 2.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				ACCAGGTCTCAGCGTCTCTGC	0.602													26	138					0	0	0.005443	0	0		G	39767342	G	G	39767342	2	3	61	1	0	0	0	0	0	0	0	1	8469	175	7	3		3	KRT16	17	39767342	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1584072	39767342	41427868	722	42728											
HDAC5	10014	broad.mit.edu	37	chr17	42165936	42165936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggccacacgttcacccGtcactagtggggactgcccg	6	8	13	14	3	2	0	2	0	0	0	2	1	2	1	3	4	1	1	3	4	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:42165936G>A	uc002ifd.1	-	12	1629	c.1418C>T	c.(1417-1419)ACG>ATG	p.T473M	HDAC5_uc002ife.1_Missense_Mutation_p.T473M|HDAC5_uc002iff.1_Missense_Mutation_p.T474M|HDAC5_uc010czp.1_Missense_Mutation_p.T473M|HDAC5_uc002ifh.2_Missense_Mutation_p.T473M	NM_005474	NP_005465	Q9UQL6	HDAC5_HUMAN	histone deacetylase 5 isoform 1	473					B cell differentiation|cellular response to insulin stimulus|chromatin remodeling|chromatin silencing|inflammatory response|negative regulation of cell migration involved in sprouting angiogenesis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			ovary(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.118)		ACGTTCACCCGTCACTAGTGG	0.657													4	18					0	0	0.009096	0	0		A	42165936	A	A	42165936	3	1	61	1	0	0	0	0	1	0	0	0	7026	1145	40	1	2014	1	HDAC5	17	42165936	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2398594	42165936	39029274	723	42729											
GPATCH8	23131	broad.mit.edu	37	chr17	42513884	42513884	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcccatgacatcatactTgacaacgattggaatgggat	13	10	9	9	1	1	2	1	2	0	0	1	5	1	4	1	2	3	0	1	2	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:42513884T>C	uc002igw.1	-	4	287	c.223A>G	c.(223-225)AAG>GAG	p.K75E	GPATCH8_uc002igv.1_5'UTR|GPATCH8_uc010wiz.1_5'UTR	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	75	G-patch.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		ACATCATACTTGACAACGATT	0.373													6	56					0	0	0.006214	0	0		C	42513884	C	C	42513884	3	2	61	1	0	0	0	0	1	0	0	0	6609	1821	63	3	4305	3	GPATCH8	17	42513884	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	347948	42513884	38681326	724	42730											
FZD2	2535	broad.mit.edu	37	chr17	42635443	42635443	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccctcatgaacaagttcggTtttcagtggcccgagcgcct	7	10	11	13	3	2	1	2	1	0	0	3	2	2	1	3	2	2	2	3	2	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:42635443T>C	uc002igx.1	+	1	519	c.387T>C	c.(385-387)GGT>GGC	p.G129G		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	129	FZ.|Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		ACAAGTTCGGTTTTCAGTGGC	0.692													5	62					0	0	0.000602	0	0		C	42635443	C	C	42635443	2	2	61	1	0	0	0	0	0	0	0	1	6144	1712	60	3		3	FZD2	17	42635443	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	121559	42635443	38559767	725	42731											
PLCD3	113026	broad.mit.edu	37	chr17	43196222	43196222	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgaatgagctgctgggcGcgggccagtgtggcgccctc	4	8	17	12	3	1	2	0	2	1	0	2	2	1	2	2	3	2	2	2	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:43196222G>A	uc002iib.2	-	5	987	c.873C>T	c.(871-873)CGC>CGT	p.R291R		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	291					intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	GCTGCTGGGCGCGGGCCAGTG	0.423													3	22					0	0	0.004672	0	0		A	43196222	A	A	43196222	2	1	61	1	0	0	0	0	0	0	0	1	12051	1074	38	1		1	PLCD3	17	43196222	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	560779	43196222	37998988	726	42732											
ACBD4	79777	broad.mit.edu	37	chr17	43221001	43221001	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgccctgagccttcctaGggtttagaagaacagcattc	9	11	10	11	0	0	3	0	1	0	2	2	3	1	3	3	1	4	2	3	1	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:43221001G>T	uc010wjj.1	+	12	1488	c.1019G>T	c.(1018-1020)AGG>ATG	p.R340M	ACBD4_uc002iie.2_Missense_Mutation_p.R340M|ACBD4_uc002iif.2_3'UTR|ACBD4_uc002iic.2_3'UTR|ACBD4_uc010dae.2_Missense_Mutation_p.R262M	NM_001135704	NP_001129176	Q8NC06	ACBD4_HUMAN	acyl-Coenzyme A binding domain containing 4	Error:Variant_position_missing_in_Q8NC06_after_alignment							fatty-acyl-CoA binding			ovary(1)|kidney(1)	2						AGCCTTCCTAGGGTTTAGAAG	0.547													8	43					0.000157383	0.000165019	0.00308	1	0		T	43221001	T	T	43221001	3	4	61	1	0	0	0	0	1	0	0	0	124	1000	35	5	1085	5	ACBD4	17	43221001	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	24779	43221001	37974209	727	42733											
FMNL1	752	broad.mit.edu	37	chr17	43321564	43321564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgaatgccatcattgcaGcctcaatgtccatcaagtcc	12	10	6	13	0	3	1	3	1	0	0	5	1	5	1	4	0	4	1	4	0	4	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:43321564G>A	uc002iin.2	+	19	2670	c.2470G>A	c.(2470-2472)GCC>ACC	p.A824T	FMNL1_uc002iiq.2_Missense_Mutation_p.A402T|FMNL1_uc010dag.2_RNA	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	824	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						CATCATTGCAGCCTCAATGTC	0.582													6	11					0	0	0.001168	0	0		A	43321564	A	A	43321564	3	1	61	1	0	0	0	0	1	0	0	0	5965	971	34	2	2544	2	FMNL1	17	43321564	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	100563	43321564	37873646	728	42734											
DLX3	1747	broad.mit.edu	37	chr17	48072218	48072218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggctggcccgagtagtaatCgtgctggggagcgctgtagt	6	9	18	8	3	0	0	0	0	0	0	1	2	0	1	1	4	2	6	1	4	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:48072218C>T	uc002ipy.2	-	1	371	c.145G>A	c.(145-147)GAT>AAT	p.D49N		NM_005220	NP_005211	O60479	DLX3_HUMAN	distal-less homeobox 3	49						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GAGTAGTAATCGTGCTGGGGA	0.607													9	60					0	0	0.004482	0	0		T	48072218	T	T	48072218	3	4	61	1	0	0	0	0	1	0	0	0	4578	884	31	1	730	1	DLX3	17	48072218	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4750654	48072218	33122992	729	42735											
LPO	4025	broad.mit.edu	37	chr17	56329565	56329565	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacccaatgaccccaaggCggggactcaagggaaatgca	13	3	11	14	1	1	1	1	1	0	0	1	3	1	3	4	4	1	1	4	4	4	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:56329565C>T	uc002ivt.2	+	8	1119	c.803C>T	c.(802-804)GCG>GTG	p.A268V	LPO_uc010wns.1_Missense_Mutation_p.A209V|LPO_uc010dcp.2_Missense_Mutation_p.A185V|LPO_uc010dcq.2_Intron|LPO_uc010dcr.2_5'UTR	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	268					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						GACCCCAAGGCGGGGACTCAA	0.607													4	32					0	0	0.009096	0	0		T	56329565	T	T	56329565	3	4	61	1	0	0	0	0	1	0	0	0	8940	768	27	1	829	1	LPO	17	56329565	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	8257347	56329565	24865645	730	42736											
MTMR4	9110	broad.mit.edu	37	chr17	56585898	56585898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccatccttgcaagctccGcctcctgtcgacaacgtatg	8	9	8	16	3	0	0	0	0	0	0	4	1	3	0	5	0	4	3	5	0	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:56585898G>A	uc002iwj.2	-	7	592	c.482C>T	c.(481-483)GCG>GTG	p.A161V		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	161	Myotubularin phosphatase.					cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGCAAGCTCCGCCTCCTGTCG	0.542													8	46					0	0	0.004482	0	0		A	56585898	A	A	56585898	3	1	61	1	0	0	0	0	1	0	0	0	9964	1087	38	1	3157	1	MTMR4	17	56585898	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	256333	56585898	24609312	731	42737											
DHX40	79665	broad.mit.edu	37	chr17	57676787	57676787	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggattcattggaggtgcttAttttctgcatttcgtgtgga	6	18	12	5	1	2	0	1	0	1	0	3	3	2	3	0	4	2	2	0	4	1	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:57676787A>G	uc002ixn.1	+	14	1896	c.1749A>G	c.(1747-1749)TTA>TTG	p.L583L	DHX40_uc010woe.1_Silent_p.L506L|DHX40_uc010wof.1_Silent_p.L98L	NM_024612	NP_078888	Q8IX18	DHX40_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 40	583							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					GGAGGTGCTTATTTTCTGCAT	0.383													5	27					0	0	0.004482	0	0		G	57676787	G	G	57676787	2	3	61	1	0	0	0	0	0	0	0	1	4518	446	16	3		3	DHX40	17	57676787	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1090889	57676787	23518423	732	42738											
DHX40	79665	broad.mit.edu	37	chr17	57679954	57679954	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagatgtctttgtgcgggCtatttcaaaaatgtagctcg	10	13	11	7	3	2	1	1	0	1	1	3	2	2	1	0	1	2	3	0	1	5	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:57679954C>T	uc002ixn.1	+	15	2025	c.1878C>T	c.(1876-1878)GGC>GGT	p.G626G	DHX40_uc010woe.1_Silent_p.G549G|DHX40_uc010wof.1_Silent_p.G141G	NM_024612	NP_078888	Q8IX18	DHX40_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 40	626							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TTTGTGCGGGCTATTTCAAAA	0.328													8	44					0	0	0.004482	0	0		T	57679954	T	T	57679954	2	4	61	1	0	0	0	0	0	0	0	1	4518	784	28	2		2	DHX40	17	57679954	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3167	57679954	23515256	733	42739											
BCAS3	54828	broad.mit.edu	37	chr17	58786631	58786631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatagtactgggaatgaacCgcctttgttgattatgattg	11	14	10	6	1	0	3	0	3	0	0	0	4	0	4	2	1	2	2	2	1	5	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:58786631C>T	uc002iyv.3	+	5	375	c.266C>T	c.(265-267)CCG>CTG	p.P89L	BCAS3_uc010wow.1_Intron|BCAS3_uc002iyu.3_Missense_Mutation_p.P89L|BCAS3_uc002iyw.3_Missense_Mutation_p.P85L	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	89	WD 1.					nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			GGGAATGAACCGCCTTTGTTG	0.368													5	51					0	0	0.000602	0	0		T	58786631	T	T	58786631	3	4	61	1	0	0	0	0	1	0	0	0	1353	652	23	1	280	1	BCAS3	17	58786631	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1106677	58786631	22408579	734	42740											
ACE	1636	broad.mit.edu	37	chr17	61573866	61573866	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taccagtccaaggaggccggGcagcgcctggcgtgagtgtc	7	6	16	12	3	0	1	0	1	0	0	2	2	1	2	4	4	2	1	4	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:61573866G>A	uc002jau.1	+	23	3514	c.3492G>A	c.(3490-3492)GGG>GGA	p.G1164G	ACE_uc002jav.1_Silent_p.G590G|ACE_uc010ddv.1_Silent_p.G391G|ACE_uc010wpj.1_Intron|ACE_uc002jaw.1_RNA|ACE_uc010wpk.1_Intron	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	1164	Extracellular (Potential).|Peptidase M2 2.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	AGGAGGCCGGGCAGCGCCTGG	0.627													17	67					0	0	0.004007	0	0		A	61573866	A	A	61573866	2	1	61	1	0	0	0	0	0	0	0	1	136	1190	42	2		2	ACE	17	61573866	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2787235	61573866	19621344	735	42741											
NOL11	25926	broad.mit.edu	37	chr17	65720271	65720271	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttataaagagttttactgCatctgtagatcggaaattca	13	15	8	5	1	2	2	1	0	1	2	3	3	2	3	0	1	2	4	0	1	6	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:65720271C>T	uc002jgd.1	+	6	629	c.626C>T	c.(625-627)GCA>GTA	p.A209V	NOL11_uc010wql.1_Missense_Mutation_p.A27V|NOL11_uc010deu.1_5'UTR	NM_015462	NP_056277	Q9H8H0	NOL11_HUMAN	nucleolar protein 11	209						nucleolus					0	all_cancers(12;1.54e-10)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0518)|COAD - Colon adenocarcinoma(4;0.0977)|LUSC - Lung squamous cell carcinoma(166;0.24)			AGTTTTACTGCATCTGTAGAT	0.303													5	31					0	0	0.000602	0	0		T	65720271	T	T	65720271	3	4	61	1	0	0	0	0	1	0	0	0	10540	710	25	2	648	2	NOL11	17	65720271	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4146405	65720271	15474939	736	42742											
BPTF	2186	broad.mit.edu	37	chr17	65942195	65942195	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggttgtggctcagatacaGgctcagcaaagtggtgtgcc	9	9	14	9	0	2	1	2	0	0	1	2	1	2	1	1	4	3	4	1	4	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:65942195G>T	uc002jgf.2	+	21	7432	c.7371G>T	c.(7369-7371)CAG>CAT	p.Q2457H	BPTF_uc002jge.2_Intron|BPTF_uc002jgg.2_Intron|BPTF_uc002jgh.2_5'Flank	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2583					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			CTCAGATACAGGCTCAGCAAA	0.493													13	41					5.50884e-06	5.90471e-06	0.013537	1	0		T	65942195	T	T	65942195	3	4	61	1	0	0	0	0	1	0	0	0	1498	991	35	5	7839	5	BPTF	17	65942195	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	221924	65942195	15253015	737	42743											
C17orf77	146723	broad.mit.edu	37	chr17	72588709	72588709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactgcctggaggagaggaCggacaaggccagccatgagg	11	4	16	10	1	0	2	0	1	0	1	0	6	0	5	3	6	3	0	3	6	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:72588709C>T	uc002jla.1	+	3	886	c.524C>T	c.(523-525)ACG>ATG	p.T175M	CD300LD_uc002jkz.2_5'Flank	NM_152460	NP_689673	Q96MU5	CQ077_HUMAN	hypothetical protein LOC146723	175						extracellular region					0						GAGGAGAGGACGGACAAGGCC	0.612													4	30					0	0	0.009096	0	0		T	72588709	T	T	72588709	3	4	61	1	0	0	0	0	1	0	0	0	1885	536	19	1	526	1	C17orf77	17	72588709	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	6646514	72588709	8606501	738	42744											
GGA3	23163	broad.mit.edu	37	chr17	73235131	73235131	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagaggatgcggaagccgTttttatcgtaggctgtcaca	10	10	14	7	3	1	1	1	0	0	1	2	4	1	4	1	4	2	3	1	4	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:73235131T>G	uc002jni.1	-	15	1823	c.1814A>C	c.(1813-1815)AAC>ACC	p.N605T	GGA3_uc002jnj.1_Missense_Mutation_p.N572T|GGA3_uc010wrw.1_Missense_Mutation_p.N483T|GGA3_uc002jnk.1_Missense_Mutation_p.N533T|GGA3_uc010wrx.1_Missense_Mutation_p.N483T|GGA3_uc010wry.1_Missense_Mutation_p.N533T	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	605	GAE.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			GCGGAAGCCGTTTTTATCGTA	0.592											OREG0024729	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	25					0	0	0.006214	0	0		G	73235131	G	G	73235131	3	3	61	1	0	0	0	0	1	0	0	0	6369	1725	60	5	457	5	GGA3	17	73235131	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	646422	73235131	7960079	739	42745											
GGA3	23163	broad.mit.edu	37	chr17	73237561	73237561	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttttgtaagagttgatgAcccgggagaggttgtcactg	8	14	14	5	1	1	4	1	2	0	2	1	5	1	4	1	2	0	4	1	2	1	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:73237561A>G	uc002jni.1	-	10	875	c.866T>C	c.(865-867)GTC>GCC	p.V289A	GGA3_uc002jnj.1_Missense_Mutation_p.V256A|GGA3_uc010wrw.1_Missense_Mutation_p.V167A|GGA3_uc002jnk.1_Missense_Mutation_p.V217A|GGA3_uc010wrx.1_Missense_Mutation_p.V167A|GGA3_uc010wry.1_Missense_Mutation_p.V217A	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	289	GAT.|Binds to ARF1 (in long isoform).				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			AGAGTTGATGACCCGGGAGAG	0.522													23	147					0	0	0.014323	0	0		G	73237561	G	G	73237561	3	3	61	1	0	0	0	0	1	0	0	0	6369	275	10	3	1425	3	GGA3	17	73237561	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	2430	73237561	7957649	740	42746											
ITGB4	3691	broad.mit.edu	37	chr17	73748326	73748326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgcttattgagaaccttCgggagtcccagccctaccgc	7	10	10	14	2	0	1	0	1	0	1	2	3	1	2	4	1	5	2	4	1	3	4	rs34092482		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:73748326C>T	uc002jpg.2	+	31	4052	c.3865C>T	c.(3865-3867)CGG>TGG	p.R1289W	ITGB4_uc002jph.2_Missense_Mutation_p.R1289W|ITGB4_uc002jpi.3_Missense_Mutation_p.R1289W|ITGB4_uc002jpj.2_Missense_Mutation_p.R1289W|GALK1_uc010wsi.1_Intron	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1289	Fibronectin type-III 2.|Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			TGAGAACCTTCGGGAGTCCCA	0.617													37	131					0	0	0.004878	0	0		T	73748326	T	T	73748326	3	4	61	1	0	0	0	0	1	0	0	0	7913	875	31	1	3983	1	ITGB4	17	73748326	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	510765	73748326	7446884	741	42747											
FBF1	85302	broad.mit.edu	37	chr17	73922938	73922938	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatcataggagagaagtcCtctcaatgggtcttccaagt	11	12	9	9	0	4	1	3	0	2	1	7	3	6	2	2	2	0	0	2	2	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:73922938C>A	uc002jqc.2	-	9	728	c.454G>T	c.(454-456)GGA>TGA	p.G152*	FBF1_uc002jqa.1_RNA|FBF1_uc010wsp.1_Nonsense_Mutation_p.G142*|FBF1_uc002jqd.1_Nonsense_Mutation_p.G152*	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1	152											0						GAGAGAAGTCCTCTCAATGGG	0.522													4	10					0.00909568	0.00928865	0.009096	1	0		A	73922938	A	A	73922938	4	1	61	1	0	0	0	0	0	1	0	0	5709	690	24	5	3031	5	FBF1	17	73922938	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	174612	73922938	7272272	742	42748											
GALR2	8811	broad.mit.edu	37	chr17	74071298	74071298	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctcaccatgcacgccAgcagcttcacgctggccgcc	6	8	8	19	3	3	0	2	0	1	0	4	0	4	0	5	1	3	4	5	1	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:74071298A>G	uc002jqm.1	+	1	415	c.334A>G	c.(334-336)AGC>GGC	p.S112G	SRP68_uc010wsu.1_5'Flank|SRP68_uc002jqk.1_5'Flank|SRP68_uc002jql.1_5'Flank	NM_003857	NP_003848	O43603	GALR2_HUMAN	galanin receptor 2	112	Helical; Name=3; (Potential).				digestion|elevation of cytosolic calcium ion concentration|feeding behavior|learning or memory|muscle contraction	integral to membrane|plasma membrane	galanin receptor activity				0						CATGCACGCCAGCAGCTTCAC	0.677													9	38					0	0	0.006214	0	0		G	74071298	G	G	74071298	3	3	61	1	0	0	0	0	1	0	0	0	6243	188	7	3	336	3	GALR2	17	74071298	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	148360	74071298	7123912	743	42749											
RHBDF2	79651	broad.mit.edu	37	chr17	74475291	74475291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgctgcagtggtgcaggCtgcggcgctgccactgctgc	4	8	16	13	2	0	0	0	0	0	0	0	0	0	0	1	3	7	7	1	3	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:74475291C>T	uc002jrq.1	-	5	721	c.428G>A	c.(427-429)AGC>AAC	p.S143N	RHBDF2_uc002jrp.1_Missense_Mutation_p.S114N|RHBDF2_uc002jrr.1_5'UTR|RHBDF2_uc010wtf.1_Missense_Mutation_p.S114N|RHBDF2_uc002jrs.1_Missense_Mutation_p.S114N	NM_024599	NP_078875	Q6PJF5	RHDF2_HUMAN	rhomboid, veinlet-like 6 isoform 1	143	Cytoplasmic (Potential).				negative regulation of protein secretion|protein transport|proteolysis	endoplasmic reticulum membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity				0						GTGGTGCAGGCTGCGGCGCTG	0.692													5	19					0	0	0.001168	0	0		T	74475291	T	T	74475291	3	4	61	1	0	0	0	0	1	0	0	0	13345	797	28	2	2202	2	RHBDF2	17	74475291	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	403993	74475291	6719919	744	42750											
TMC8	147138	broad.mit.edu	37	chr17	76137013	76137013	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaagtaccctgcctcccaAgcttcgcgcccgcagtcctt	6	8	7	20	3	0	0	0	0	0	0	3	0	2	0	6	0	3	3	6	0	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:76137013A>T	uc002jup.2	+	16	2383	c.2001A>T	c.(1999-2001)CAA>CAT	p.Q667H	TMC8_uc002juq.2_Missense_Mutation_p.Q444H	NM_152468	NP_689681	Q8IU68	TMC8_HUMAN	transmembrane channel-like 8	667	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.192)			CTGCCTCCCAAGCTTCGCGCC	0.731									Epidermodysplasia_Verruciformis_Familial_Clustering_of				3	4					0	0	0.004672	0	0		T	76137013	T	T	76137013	3	4	61	1	0	0	0	0	1	0	0	0	16016	69	3	5	2059	5	TMC8	17	76137013	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1661722	76137013	5058197	745	42751											
LGALS3BP	3959	broad.mit.edu	37	chr17	76970808	76970808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcgtctctctcgtgcctgCagttgctcttcagccagccc	4	11	9	17	2	4	0	1	0	3	0	6	0	4	0	3	0	6	3	3	0	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:76970808C>T	uc002jwh.2	-	4	517	c.338G>A	c.(337-339)TGC>TAC	p.C113Y	LGALS3BP_uc002jwi.2_Intron|LGALS3BP_uc010dhr.2_Intron	NM_005567	NP_005558	Q08380	LG3BP_HUMAN	galectin 3 binding protein	113	SRCR.				cell adhesion|cellular defense response	extracellular space|membrane|proteinaceous extracellular matrix	protein binding|scavenger receptor activity			central_nervous_system(3)|ovary(1)	4			BRCA - Breast invasive adenocarcinoma(99;0.0677)|OV - Ovarian serous cystadenocarcinoma(97;0.139)			CTCGTGCCTGCAGTTGCTCTT	0.672													9	18					0	0	0.004482	0	0		T	76970808	T	T	76970808	3	4	61	1	0	0	0	0	1	0	0	0	8760	710	25	2	1431	2	LGALS3BP	17	76970808	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	833795	76970808	4224402	746	42752											
RNF213	57674	broad.mit.edu	37	chr17	78345759	78345759	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaagataaaactgaactgTacatgctcttcatcaactgc	14	11	6	10	0	3	3	2	2	1	1	3	3	3	3	0	0	6	2	0	0	6	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:78345759T>C	uc002jyh.1	+	22	6953	c.6730T>C	c.(6730-6732)TAC>CAC	p.Y2244H	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.Y626H	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			AACTGAACTGTACATGCTCTT	0.333													5	20					0	0	0.000602	0	0		C	78345759	C	C	78345759	3	2	61	1	0	0	0	0	1	0	0	0	13502	1638	57	3	13012	3	RNF213	17	78345759	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	1374951	78345759	2849451	747	42753											
SMCHD1	23347	broad.mit.edu	37	chr18	2700849	2700849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagcacaaataaattgaCgtttatggatcttgagctaa	14	12	9	6	1	2	2	1	2	1	0	2	3	2	3	0	2	2	3	0	2	5	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:2700849C>T	uc002klm.3	+	12	1769	c.1580C>T	c.(1579-1581)ACG>ATG	p.T527M	SMCHD1_uc002klk.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	527					chromosome organization		ATP binding				0						AATAAATTGACGTTTATGGAT	0.328													10	54					0	0	0.008291	0	0		T	2700849	T	T	2700849	3	4	61	1	0	0	0	0	1	0	0	0	14813	536	19	1	1626	1	SMCHD1	18	2700849	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08		2700849	75376399	748	42754											
SMCHD1	23347	broad.mit.edu	37	chr18	2706440	2706440	+	Frame_Shift_Del	DEL	A	-	-																															cagttgctgagaaagctgttAaaaaatatgtagaagatgaa																										TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:2706440delA	uc002klm.3	+	15	2224	c.2035delA	c.(2035-2037)AAAfs	p.K679fs	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	679					chromosome organization		ATP binding				0						GAAAGCTGTTAAAAAATATGT	0.353													3	4	---	---	---	---						.	-	2706440	-	-	2706440	7	5	61	1	0	1	0	1	0	0	0	0	14813	363	13	0	2093	0	SMCHD1	18	2706440	Frame_Shift_Del	DEL	A	TCGA-BR-8081-01A-11D-2340-08	5591	2706440	75370808	749	42755											
DLGAP1	9229	broad.mit.edu	37	chr18	3879724	3879724	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagggtgtgatagccatcGcggctgagtggcagctgccg	6	8	17	10	3	0	2	0	2	0	0	1	2	0	2	2	3	4	4	2	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:3879724G>A	uc002kmf.2	-	1	412	c.345C>T	c.(343-345)CGC>CGT	p.R115R	DLGAP1_uc010wyz.1_Silent_p.R115R|DLGAP1_uc002kmk.2_Silent_p.R115R|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	115					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				GATAGCCATCGCGGCTGAGTG	0.687													20	64					0	0	0.010504	0	0		A	3879724	A	A	3879724	2	1	61	1	0	0	0	0	0	0	0	1	4565	1074	38	1		1	DLGAP1	18	3879724	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1173284	3879724	74197524	750	42756											
SEH1L	81929	broad.mit.edu	37	chr18	12951893	12951893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggtgattggcattgtactGctagctggaaggttagtatt	8	15	14	4	0	0	1	0	1	0	0	0	2	0	2	0	4	3	6	0	4	5	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:12951893G>A	uc002krr.2	+	2	289	c.151G>A	c.(151-153)GCT>ACT	p.A51T	SEH1L_uc002krq.2_Missense_Mutation_p.A51T	NM_031216	NP_112493	Q96EE3	SEH1_HUMAN	sec13-like protein isoform 2	51					attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|carbohydrate metabolic process|cell division|glucose transport|mitotic metaphase plate congression|mitotic prometaphase|mRNA transport|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex					0						GCATTGTACTGCTAGCTGGAA	0.249													20	98					0	0	0.010504	0	0		A	12951893	A	A	12951893	3	1	61	1	0	0	0	0	1	0	0	0	14034	1319	46	2	157	2	SEH1L	18	12951893	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	9072169	12951893	65125355	751	42757											
ZNF521	25925	broad.mit.edu	37	chr18	22806905	22806905	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgactgtccatgtggctgTacagttcctcaactgtgtgg	6	13	13	9	0	1	1	1	1	0	0	3	1	3	1	2	3	2	3	2	3	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:22806905T>C	uc002kvk.2	-	4	1224	c.977A>G	c.(976-978)TAC>TGC	p.Y326C	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.Y326C|ZNF521_uc002kvl.2_Missense_Mutation_p.Y106C	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	326	C2H2-type 8.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					CATGTGGCTGTACAGTTCCTC	0.537			T	PAX5	ALL								6	38					0	0	0.001168	0	0		C	22806905	C	C	22806905	3	2	61	1	0	0	0	0	1	0	0	0	17990	1638	57	3	2978	3	ZNF521	18	22806905	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	9855012	22806905	55270343	752	42758											
GALNT1	2589	broad.mit.edu	37	chr18	33243730	33243730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatggcaagtgagatgattgCactcaacagatctttaccag	14	10	9	8	0	2	3	1	2	1	2	2	4	2	3	1	1	3	2	1	1	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:33243730C>T	uc010dmu.2	+	3	331	c.278C>T	c.(277-279)GCA>GTA	p.A93V	GALNT1_uc002kyz.3_Missense_Mutation_p.A33V|GALNT1_uc002kza.2_Missense_Mutation_p.A93V|GALNT1_uc002kzb.2_Missense_Mutation_p.A93V	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	93	Lumenal (Potential).				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						GAGATGATTGCACTCAACAGA	0.343													38	52					0	0	0.009718	0	0		T	33243730	T	T	33243730	3	4	61	1	0	0	0	0	1	0	0	0	6222	710	25	2	284	2	GALNT1	18	33243730	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	10436825	33243730	44833518	753	42759											
SLC14A2	8170	broad.mit.edu	37	chr18	43253755	43253755	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctacgtcatcacctggCagacgcacctcctcgccatc	7	10	7	17	3	3	1	2	0	1	1	6	1	4	1	4	1	1	3	4	1	1	2	rs151319242		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:43253755C>T	uc010dnj.2	+	19	2806	c.2485C>T	c.(2485-2487)CAG>TAG	p.Q829*	SLC14A2_uc002lbe.2_Nonsense_Mutation_p.Q829*	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	829						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						CATCACCTGGCAGACGCACCT	0.478													5	40					0	0	0.000602	0	0		T	43253755	T	T	43253755	4	4	61	1	0	0	0	0	0	1	0	0	14422	711	25	2	2551	2	SLC14A2	18	43253755	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	10010025	43253755	34823493	754	42760											
C18orf25	147339	broad.mit.edu	37	chr18	43795786	43795786	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgtacaggttgctttcCtgttgcatctttgatatcat	6	21	7	7	0	2	1	1	1	1	0	3	1	3	1	1	1	3	5	1	1	2	8			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:43795786C>A	uc002lbw.2	+	2	319	c.-60C>A	c.(-62--58)TCCTG>TCATG		C18orf25_uc002lbx.2_Translation_Start_Site	NM_145055	NP_659492	Q96B23	CR025_HUMAN	ARKadia-like 1 isoform a											central_nervous_system(2)	2						GGTTGCTTTCCTGTTGCATCT	0.383													5	33					3.59834e-05	3.81827e-05	0.001168	1	0		A	43795786	A	A	43795786	1	1	61	1	0	0	0	0	0	0	0	0	1902	696	24	5		5	C18orf25	18	43795786	Translation_Start_Site	SNP	C	TCGA-BR-8081-01A-11D-2340-08	542031	43795786	34281462	755	42761											
DCC	1630	broad.mit.edu	37	chr18	50936877	50936877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaattgatgactggattatGgaaacaatcagtggtgatag	14	11	11	5	0	1	3	1	3	0	0	1	5	1	5	1	3	1	0	1	3	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:50936877G>A	uc002lfe.1	+	20	3578	c.2991G>A	c.(2989-2991)ATG>ATA	p.M997I	DCC_uc010xdr.1_Missense_Mutation_p.M825I|DCC_uc010dpf.1_Missense_Mutation_p.M632I	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	997	Extracellular (Potential).|Fibronectin type-III 6.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		ACTGGATTATGGAAACAATCA	0.363													31	92					0	0	0.003755	0	0		A	50936877	A	A	50936877	3	1	61	1	0	0	0	0	1	0	0	0	4285	1348	47	4	3069	4	DCC	18	50936877	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	7141091	50936877	27140371	756	42762											
SERPINB4	6318	broad.mit.edu	37	chr18	61306894	61306894	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccaaaatttttcctcttTagtgttttcttttttaaatt	8	23	4	6	0	2	0	0	0	2	0	3	0	3	0	2	1	0	1	2	1	5	10			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:61306894T>C	uc002ljf.2	-	6	672	c.586A>G	c.(586-588)AAA>GAA	p.K196E	SERPINB4_uc002lje.2_Missense_Mutation_p.K196E|SERPINB4_uc002ljg.2_Intron	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	196					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						TTTTCCTCTTTAGTGTTTTCT	0.308													10	25					0	0	0.008291	0	0		C	61306894	C	C	61306894	3	2	61	1	0	0	0	0	1	0	0	0	14128	1763	61	3	598	3	SERPINB4	18	61306894	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	10370017	61306894	16770354	757	42763											
CDH7	1005	broad.mit.edu	37	chr18	63547708	63547708	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgacgaagaaagagacAtcagagaaaatattgtgaga	18	10	10	3	1	1	5	1	2	0	4	1	9	1	5	0	0	0	0	0	0	5	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:63547708A>G	uc002ljz.2	+	12	2261	c.1936A>G	c.(1936-1938)ATC>GTC	p.I646V	CDH7_uc002lkb.2_Missense_Mutation_p.I646V	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	646	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				AGAAAGAGACATCAGAGAAAA	0.453													8	32					0	0	0.00308	0	0		G	63547708	G	G	63547708	3	3	61	1	0	0	0	0	1	0	0	0	3118	217	8	3	1978	3	CDH7	18	63547708	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	2240814	63547708	14529540	758	42764											
CDH19	28513	broad.mit.edu	37	chr18	64235727	64235727	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcattgtcattgatatccGaaactttgatgacaaactca	13	14	6	8	1	3	3	3	3	0	0	4	4	4	3	1	0	2	1	1	0	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:64235727G>A	uc002lkc.1	-	3	554	c.416C>T	c.(415-417)TCG>TTG	p.S139L	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Missense_Mutation_p.S139L|CDH19_uc002lkd.2_Missense_Mutation_p.S139L	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	139	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				ATTGATATCCGAAACTTTGAT	0.418													13	70					0	0	0.001855	0	0		A	64235727	A	A	64235727	3	1	61	1	0	0	0	0	1	0	0	0	3107	1059	37	1	1942	1	CDH19	18	64235727	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	688019	64235727	13841521	759	42765											
NETO1	81832	broad.mit.edu	37	chr18	70450955	70450955	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catctgaaatcggctgtttcGactgccctcatctgcccaca	8	11	7	15	2	3	1	1	1	2	0	5	2	3	1	2	1	2	2	2	1	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:70450955G>A	uc002lkw.2	-	7	1110	c.826C>T	c.(826-828)CGA>TGA	p.R276*	NETO1_uc002lkx.1_Nonsense_Mutation_p.R275*|NETO1_uc002lky.1_Nonsense_Mutation_p.R276*	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	276	CUB 2.|Extracellular (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		CGGCTGTTTCGACTGCCCTCA	0.468													16	95					0	0	0.004007	0	0		A	70450955	A	A	70450955	4	1	61	1	0	0	0	0	0	1	0	0	10358	1066	37	1	791	1	NETO1	18	70450955	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	6215228	70450955	7626293	760	42766											
MBP	4155	broad.mit.edu	37	chr18	74729219	74729219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attgttctggttcgcatctgCctctcctgcaaacaacaatg	9	13	7	12	1	3	0	0	0	3	0	5	0	3	0	2	1	4	4	2	1	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:74729219C>T	uc010xfd.1	-	4	409	c.145G>A	c.(145-147)GCA>ACA	p.A49T	MBP_uc002lml.2_5'Flank|MBP_uc002lmn.2_5'Flank|MBP_uc002lmp.2_5'Flank|MBP_uc010xfe.1_5'UTR|MBP_uc002lmr.2_Missense_Mutation_p.A49T	NM_001025101	NP_001020272	P02686	MBP_HUMAN	Golli-mbp isoform 1	49					central nervous system development|immune response|synaptic transmission	plasma membrane	structural constituent of myelin sheath			haematopoietic_and_lymphoid_tissue(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.79e-06)|BRCA - Breast invasive adenocarcinoma(31;0.113)|READ - Rectum adenocarcinoma(1;0.188)		TTCGCATCTGCCTCTCCTGCA	0.562													4	35					0	0	0.009096	0	0		T	74729219	T	T	74729219	3	4	61	1	0	0	0	0	1	0	0	0	9377	739	26	2	893	2	MBP	18	74729219	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4278264	74729219	3348029	761	42767											
MIER2	54531	broad.mit.edu	37	chr19	327209	327209	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtcgtcagcagatgattgCgtctcttcctcttcttcccc	5	14	8	14	2	4	2	1	1	3	1	8	2	6	2	3	1	2	1	3	1	0	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:327209C>T	uc002lok.1	-	5	426	c.417G>A	c.(415-417)ACG>ACA	p.T139T		NM_017550	NP_060020	Q8N344	MIER2_HUMAN	mesoderm induction early response 1, family	139					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		all_cancers(10;1.05e-30)|all_epithelial(18;3.04e-19)|Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;2.49e-05)|all_lung(49;4.36e-05)|Breast(49;0.000304)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGATGATTGCGTCTCTTCCT	0.463													35	172					0	0	0.003271	0	0		T	327209	T	T	327209	2	4	61	1	0	0	0	0	0	0	0	1	9599	755	27	1		1	MIER2	19	327209	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08		327209	58801774	762	42768											
GNA11	2767	broad.mit.edu	37	chr19	3119273	3119273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggttccagaactcctccGtcatcctcttcctcaacaag	8	11	5	17	1	3	1	2	0	1	1	8	1	8	1	6	1	2	1	6	1	3	2	rs144829732		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:3119273G>A	uc002lxd.2	+	6	1047	c.805G>A	c.(805-807)GTC>ATC	p.V269I	uc010xhe.1_5'Flank	NM_002067	NP_002058	P29992	GNA11_HUMAN	guanine nucleotide binding protein (G protein),	269					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation|regulation of action potential	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			eye(70)|skin(16)	86		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.79e-05)|OV - Ovarian serous cystadenocarcinoma(105;2.68e-113)|Epithelial(107;1.22e-111)|all cancers(105;5.78e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00141)|STAD - Stomach adenocarcinoma(1328;0.181)		GAACTCCTCCGTCATCCTCTT	0.597			Mis		uveal melanoma								9	85					0	0	0.004482	0	0		A	3119273	A	A	3119273	3	1	61	1	0	0	0	0	1	0	0	0	6514	1145	40	1	827	1	GNA11	19	3119273	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2792064	3119273	56009710	763	42769											
TJP3	27134	broad.mit.edu	37	chr19	3748014	3748014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccggtcctcggagcccGtgcaggcagatgagtcccag	6	6	15	14	3	0	2	0	1	0	1	3	3	2	3	4	4	2	2	4	4	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:3748014G>A	uc010xhv.1	+	18	2644	c.2644G>A	c.(2644-2646)GTG>ATG	p.V882M	TJP3_uc010xhs.1_Missense_Mutation_p.V849M|TJP3_uc010xht.1_Missense_Mutation_p.V813M|TJP3_uc010xhu.1_Missense_Mutation_p.V858M|TJP3_uc010xhw.1_Missense_Mutation_p.V868M	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	863						tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCGGAGCCCGTGCAGGCAGA	0.692													4	11					0	0	0.009096	0	0		A	3748014	A	A	3748014	3	1	61	1	0	0	0	0	1	0	0	0	15956	1145	40	1	2714	1	TJP3	19	3748014	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	628741	3748014	55380969	764	42770											
MAP2K2	5605	broad.mit.edu	37	chr19	4117450	4117450	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaggcccgagggtctgtgCtggactttggtgaccacccc	6	9	14	12	1	1	2	0	2	1	0	1	4	1	3	4	4	1	1	4	4	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:4117450C>T	uc002lzk.2	-	2	524	c.270G>A	c.(268-270)CAG>CAA	p.Q90Q		NM_030662	NP_109587	P36507	MP2K2_HUMAN	mitogen-activated protein kinase kinase 2	90	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|extracellular region	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGGTCTGTGCTGGACTTTGG	0.632									Cardiofaciocutaneous_syndrome				8	39					0	0	0.004482	0	0		T	4117450	T	T	4117450	2	4	61	1	0	0	0	0	0	0	0	1	9255	796	28	2		2	MAP2K2	19	4117450	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	369436	4117450	55011533	765	42771											
MPND	84954	broad.mit.edu	37	chr19	4357406	4357406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcttccagccctgcctcGccctgctctgctgtacgcgg	3	10	11	17	3	1	0	0	0	1	0	3	0	2	0	4	2	5	4	4	2	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:4357406G>A	uc002mae.2	+	9	1220	c.1153G>A	c.(1153-1155)GCC>ACC	p.A385T	MPND_uc010dtx.2_RNA|MPND_uc002mag.2_Missense_Mutation_p.A335T|MPND_uc002maf.2_Missense_Mutation_p.A385T|MPND_uc002mah.2_Missense_Mutation_p.A273T|MPND_uc002mai.2_Missense_Mutation_p.A244T	NM_032868	NP_116257	Q8N594	MPND_HUMAN	MPN domain containing isoform 1	385							peptidase activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCCTGCCTCGCCCTGCTCTG	0.692													6	22					0	0	0.001168	0	0		A	4357406	A	A	4357406	3	1	61	1	0	0	0	0	1	0	0	0	9749	1087	38	1	1187	1	MPND	19	4357406	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	239956	4357406	54771577	766	42772											
GTF2F1	2962	broad.mit.edu	37	chr19	6380326	6380326	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtgcattttgtcgttgAtcatcttgcgctcggggttg	6	15	13	7	3	2	2	1	1	1	1	4	2	2	2	0	2	2	4	0	2	1	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:6380326A>C	uc002meq.2	-	13	1805	c.1520T>G	c.(1519-1521)ATC>AGC	p.I507S	GTF2F1_uc010xjb.1_Missense_Mutation_p.I328S|GTF2F1_uc010xjc.1_Missense_Mutation_p.I422S	NM_002096	NP_002087	P35269	T2FA_HUMAN	general transcription factor IIF, polypeptide 1,	507					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|response to virus|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cell junction|transcription factor TFIIF complex	catalytic activity|DNA binding|phosphatase activator activity|transcription coactivator activity|transcription factor binding				0						TTTGTCGTTGATCATCTTGCG	0.542													32	155					0	0	0.010818	0	0		C	6380326	C	C	6380326	3	2	61	1	0	0	0	0	1	0	0	0	6874	333	12	5	37	5	GTF2F1	19	6380326	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	2022920	6380326	52748657	767	42773											
C3	718	broad.mit.edu	37	chr19	6680187	6680187	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccaggttgtaataggcgtAgaccttgactgctccaggct	9	10	11	11	1	0	2	0	1	0	1	1	2	1	2	3	3	1	5	3	3	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:6680187A>G	uc002mfm.2	-	36	4500	c.4438T>C	c.(4438-4440)TAC>CAC	p.Y1480H	C3_uc002mfl.2_Missense_Mutation_p.Y216H	NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	1480					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TAATAGGCGTAGACCTTGACT	0.512													15	67					0	0	0.003163	0	0		G	6680187	G	G	6680187	3	3	61	1	0	0	0	0	1	0	0	0	2207	420	15	3	577	3	C3	19	6680187	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	299861	6680187	52448796	768	42774											
LRRC8E	80131	broad.mit.edu	37	chr19	7964276	7964276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcctgtagggtggagaCgtcagaggtcacgggctacg	7	7	19	8	3	2	2	2	0	0	2	2	3	2	2	1	6	1	2	1	6	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:7964276C>T	uc002mir.2	+	3	970	c.869C>T	c.(868-870)ACG>ATG	p.T290M		NM_025061	NP_079337	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member	290						integral to membrane				lung(1)|pancreas(1)	2						AGGGTGGAGACGTCAGAGGTC	0.547													8	34					0	0	0.00308	0	0		T	7964276	T	T	7964276	3	4	61	1	0	0	0	0	1	0	0	0	9043	536	19	1	875	1	LRRC8E	19	7964276	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1284089	7964276	51164707	769	42775											
ACTL9	284382	broad.mit.edu	37	chr19	8808894	8808894	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcctgtgcccatgtcaataAccaccacgccggtctttggt	7	11	9	14	2	2	0	1	0	1	0	2	0	2	0	5	2	3	0	5	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:8808894A>T	uc002mkl.2	-	1	279	c.158T>A	c.(157-159)GTT>GAT	p.V53D		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	53						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						CATGTCAATAACCACCACGCC	0.647													15	68					0	0	0.00499	0	0		T	8808894	T	T	8808894	3	4	61	1	0	0	0	0	1	0	0	0	203	43	2	5	1096	5	ACTL9	19	8808894	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	844618	8808894	50320089	770	42776											
MUC16	94025	broad.mit.edu	37	chr19	9060506	9060506	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaagcaggtatggttgtAgaaacaatgtcttttatggt	12	13	13	3	0	1	1	0	0	1	1	1	3	1	2	0	4	2	4	0	4	6	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:9060506A>G	uc002mkp.2	-	3	27144	c.26940T>C	c.(26938-26940)TCT>TCC	p.S8980S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8982	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTATGGTTGTAGAAACAATGT	0.498													35	142					0	0	0.004289	0	0		G	9060506	G	G	9060506	2	3	61	1	0	0	0	0	0	0	0	1	9991	407	15	3		3	MUC16	19	9060506	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	251612	9060506	50068477	771	42777											
YIPF2	78992	broad.mit.edu	37	chr19	11038348	11038348	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagctctgatagtagctgaaGgtccagaatcccggctgctg	10	9	12	10	1	1	3	0	2	1	1	3	3	3	3	2	2	3	5	2	2	5	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:11038348G>T	uc002mqb.2	-	4	361	c.237C>A	c.(235-237)ACC>ACA	p.T79T	YIPF2_uc002mqc.2_Silent_p.T79T|C19orf52_uc002mqd.1_5'Flank	NM_024029	NP_076934	Q9BWQ6	YIPF2_HUMAN	Yip1 domain family, member 2	79	Cytoplasmic (Potential).					integral to membrane|transport vesicle					0						AGTAGCTGAAGGTCCAGAATC	0.527													6	49					1.6384e-10	1.82638e-10	0.001984	1	0		T	11038348	T	T	11038348	2	4	61	1	0	0	0	0	0	0	0	1	17504	987	35	5		5	YIPF2	19	11038348	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1977842	11038348	48090635	772	42778											
SMARCA4	6597	broad.mit.edu	37	chr19	11138595	11138595	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcatggaagattactttgcGtatcgcggctttaaatacct	11	14	8	8	3	1	1	1	0	0	1	2	2	1	2	1	2	3	2	1	2	6	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:11138595G>A	uc002mqf.3	+	24	3635	c.3351G>A	c.(3349-3351)GCG>GCA	p.A1117A	SMARCA4_uc010dxp.2_Silent_p.A1117A|SMARCA4_uc010dxo.2_Silent_p.A1117A|SMARCA4_uc002mqg.1_Silent_p.A1117A|SMARCA4_uc010dxq.2_Silent_p.A1117A|SMARCA4_uc010dxr.2_Silent_p.A1117A|SMARCA4_uc002mqj.3_Silent_p.A1117A|SMARCA4_uc010dxs.2_Silent_p.A1117A|SMARCA4_uc010dxt.1_Silent_p.A337A|SMARCA4_uc002mqh.3_Silent_p.A240A|SMARCA4_uc002mqi.1_Silent_p.A320A	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	1117	Helicase C-terminal.				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(2)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				ATTACTTTGCGTATCGCGGCT	0.473			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				31	129					0	0	0.010818	0	0		A	11138595	A	A	11138595	2	1	61	1	0	0	0	0	0	0	0	1	14795	1132	40	1		1	SMARCA4	19	11138595	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	100247	11138595	47990388	773	42779											
KANK2	25959	broad.mit.edu	37	chr19	11280823	11280823	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatgagggccgtggagccGtcatcatcttgcacgttgac	8	9	12	12	3	3	2	2	2	1	0	3	3	3	3	2	2	2	2	2	2	0	2	rs146928170		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:11280823G>A	uc010dxv.2	-	13	2871	c.2313C>T	c.(2311-2313)GAC>GAT	p.D771D	KANK2_uc002mqm.2_Silent_p.D779D|KANK2_uc002mqo.3_Silent_p.D771D|KANK2_uc002mqp.1_Silent_p.D580D	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	771	ANK 4.										0						CCGTGGAGCCGTCATCATCTT	0.647													12	64					0	0	0.013537	0	0		A	11280823	A	A	11280823	2	1	61	1	0	0	0	0	0	0	0	1	7993	1136	40	1		1	KANK2	19	11280823	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	142228	11280823	47848160	774	42780											
MAN2B1	4125	broad.mit.edu	37	chr19	12774530	12774530	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctaccagtgaagaggtcCgcggtcgggggcttcaggct	6	7	15	13	3	1	2	1	1	0	1	3	2	2	2	4	5	1	2	4	5	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:12774530C>T	uc002mub.2	-	5	826	c.750G>A	c.(748-750)GCG>GCA	p.A250A	MAN2B1_uc010dyv.1_Silent_p.A250A	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	250					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						TGAAGAGGTCCGCGGTCGGGG	0.443													5	18					0	0	0.000602	0	0		T	12774530	T	T	12774530	2	4	61	1	0	0	0	0	0	0	0	1	9234	639	23	1		1	MAN2B1	19	12774530	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1493707	12774530	46354453	775	42781											
MAST1	22983	broad.mit.edu	37	chr19	12985409	12985409	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccccggggccgggagcgcTgggtgttggaggtggtggag	3	6	22	10	3	0	0	0	0	0	0	0	3	0	3	4	8	1	2	4	8	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:12985409T>C	uc002mvm.2	+	26	4566	c.4438T>C	c.(4438-4440)TGG>CGG	p.W1480R		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1480					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						CCGGGAGCGCTGGGTGTTGGA	0.731													3	15					0	0	0.004672	0	0		C	12985409	C	C	12985409	3	2	61	1	0	0	0	0	1	0	0	0	9342	1580	55	3	4540	3	MAST1	19	12985409	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	210879	12985409	46143574	776	42782											
PRKACA	5566	broad.mit.edu	37	chr19	14211688	14211688	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacatctccccgccgggcacGtactccatgaccatgtataa	11	8	7	15	3	1	1	0	1	1	0	3	1	2	1	5	1	2	3	5	1	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:14211688G>A	uc002myc.2	-	5	569	c.369C>T	c.(367-369)TAC>TAT	p.Y123Y	PRKACA_uc002myb.2_Silent_p.Y115Y|PRKACA_uc010xnm.1_Silent_p.Y65Y|PRKACA_uc002myd.2_Silent_p.Y65Y	NM_002730	NP_002721	P17612	KAPCA_HUMAN	cAMP-dependent protein kinase catalytic subunit	123	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|regulation of insulin secretion|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|cAMP-dependent protein kinase inhibitor activity|protein kinase binding			lung(1)	1						CGCCGGGCACGTACTCCATGA	0.602													7	41					0	0	0.001984	0	0		A	14211688	A	A	14211688	2	1	61	1	0	0	0	0	0	0	0	1	12519	1140	40	1		1	PRKACA	19	14211688	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1226279	14211688	44917295	777	42783											
PKN1	5585	broad.mit.edu	37	chr19	14574680	14574680	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcagatgaacatcgatgtCgccacgtgggtgcggctgct	8	8	15	10	4	0	2	0	1	0	1	2	3	0	2	1	3	3	3	1	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:14574680C>T	uc002myp.2	+	11	1704	c.1536C>T	c.(1534-1536)GTC>GTT	p.V512V	PKN1_uc002myq.2_Silent_p.V518V	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	512					activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						ACATCGATGTCGCCACGTGGG	0.682													8	34					0	0	0.006214	0	0		T	14574680	T	T	14574680	2	4	61	1	0	0	0	0	0	0	0	1	11998	871	31	1		1	PKN1	19	14574680	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	362992	14574680	44554303	778	42784											
EMR2	30817	broad.mit.edu	37	chr19	14854579	14854579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatgaacagctgagctgtcGctttaaatgccagcatcctg	10	10	11	10	1	0	2	0	2	0	0	2	3	1	3	2	1	5	4	2	1	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:14854579G>A	uc002mzp.1	-	19	2657	c.2201C>T	c.(2200-2202)GCG>GTG	p.A734V	EMR2_uc010dzs.1_Missense_Mutation_p.A193V|EMR2_uc010xnw.1_Missense_Mutation_p.A676V|EMR2_uc002mzo.1_Missense_Mutation_p.A723V|EMR2_uc002mzq.1_Missense_Mutation_p.A674V|EMR2_uc002mzr.1_Missense_Mutation_p.A685V|EMR2_uc002mzs.1_Missense_Mutation_p.A592V|EMR2_uc002mzt.1_Missense_Mutation_p.A630V|EMR2_uc002mzu.1_Missense_Mutation_p.A641V|EMR2_uc010xnx.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	734	Cytoplasmic (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						CTGAGCTGTCGCTTTAAATGC	0.547													5	58					0	0	0.000602	0	0		A	14854579	A	A	14854579	3	1	61	1	0	0	0	0	1	0	0	0	5113	1087	38	1	282	1	EMR2	19	14854579	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	279899	14854579	44274404	779	42785											
SLC1A6	6511	broad.mit.edu	37	chr19	15079275	15079275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtagtacacagctgcccGcatccccatccgccccgtgg	7	7	9	18	3	0	0	0	0	0	0	2	0	2	0	6	1	3	4	6	1	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:15079275G>A	uc002naa.1	-	3	396	c.388C>T	c.(388-390)CGG>TGG	p.R130W	SLC1A6_uc010dzu.1_Missense_Mutation_p.R130W|SLC1A6_uc010xod.1_Intron|SLC1A6_uc002nab.2_Missense_Mutation_p.R130W|SLC1A6_uc002nac.2_Missense_Mutation_p.R130W|SLC1A6_uc002nad.1_Missense_Mutation_p.R130W	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	130					synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	ACAGCTGCCCGCATCCCCATC	0.607													9	14					0	0	0.004482	0	0		A	15079275	A	A	15079275	3	1	61	1	0	0	0	0	1	0	0	0	14461	1086	38	1	1334	1	SLC1A6	19	15079275	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	224696	15079275	44049708	780	42786											
BRD4	23476	broad.mit.edu	37	chr19	15383721	15383721	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccactctgagcaggtattGcagttggttggtctgcctct	6	13	11	11	0	3	1	0	1	3	0	3	1	3	1	2	3	3	5	2	3	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:15383721G>A	uc002nar.2	-	2	412	c.190C>T	c.(190-192)CAA>TAA	p.Q64*	BRD4_uc002nas.2_Nonsense_Mutation_p.Q64*|BRD4_uc002nat.3_Nonsense_Mutation_p.Q64*|BRD4_uc002nau.3_Nonsense_Mutation_p.Q64*	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	64					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			AGCAGGTATTGCAGTTGGTTG	0.602			T	NUT|C15orf55	lethal midline carcinoma of young people								14	51					0	0	0.003163	0	0		A	15383721	A	A	15383721	4	1	61	1	0	0	0	0	0	1	0	0	1507	1328	46	2	3989	2	BRD4	19	15383721	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	304446	15383721	43745262	781	42787											
CYP4F3	4051	broad.mit.edu	37	chr19	15752261	15752261	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtcctcgctgggcctttgGccaatggcagcatccccgtg	4	10	12	15	2	0	0	0	0	0	0	3	0	2	0	5	3	1	3	5	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:15752261G>A	uc002nbj.2	+	2	86	c.36G>A	c.(34-36)TGG>TGA	p.W12*	CYP4F3_uc010xok.1_Nonsense_Mutation_p.W12*|CYP4F3_uc010xol.1_Nonsense_Mutation_p.W12*|CYP4F3_uc010xom.1_5'UTR|CYP4F3_uc002nbk.2_Nonsense_Mutation_p.W12*	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	12	Helical; (Potential).				leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						TGGGCCTTTGGCCAATGGCAG	0.652													8	49					0	0	0.006214	0	0		A	15752261	A	A	15752261	4	1	61	1	0	0	0	0	0	1	0	0	4193	1212	42	2	38	2	CYP4F3	19	15752261	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	368540	15752261	43376722	782	42788											
SIN3B	23309	broad.mit.edu	37	chr19	16976446	16976446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accctgtcaccgctgtccccGttgtcctgaaaaggtgccct	6	10	9	16	2	1	1	1	1	0	0	3	1	3	1	6	1	1	2	6	1	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:16976446G>A	uc002ney.1	+	12	1719	c.1705G>A	c.(1705-1707)GTT>ATT	p.V569I	SIN3B_uc002nez.1_Missense_Mutation_p.V537I|SIN3B_uc010xpi.1_Missense_Mutation_p.V127I	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	569	Interaction with SDS3 and HDAC1 (By similarity).				cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						CGCTGTCCCCGTTGTCCTGAA	0.448													7	16					0	0	0.001984	0	0		A	16976446	A	A	16976446	3	1	61	1	0	0	0	0	1	0	0	0	14351	1145	40	1	1751	1	SIN3B	19	16976446	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1224185	16976446	42152537	783	42789											
USHBP1	83878	broad.mit.edu	37	chr19	17361173	17361173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgctccaacttccggCgttgctcttcctgcttccgg	2	14	9	16	3	2	0	0	0	2	0	6	0	6	0	4	2	5	5	4	2	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:17361173C>T	uc002nfs.1	-	13	2086	c.1973G>A	c.(1972-1974)CGC>CAC	p.R658H	USHBP1_uc002nfr.1_Missense_Mutation_p.R284H|USHBP1_uc002nft.1_RNA|USHBP1_uc010xpk.1_Missense_Mutation_p.R594H	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	658	Potential.						PDZ domain binding			ovary(1)	1						CAACTTCCGGCGTTGCTCTTC	0.672													12	45					0	0	0.010729	0	0		T	17361173	T	T	17361173	3	4	61	1	0	0	0	0	1	0	0	0	17063	768	27	1	142	1	USHBP1	19	17361173	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	384727	17361173	41767810	784	42790											
PIK3R2	5296	broad.mit.edu	37	chr19	18277076	18277076	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaaggaatacctggagcGcttccggcgtgagggcaacg	10	5	15	11	4	0	1	0	1	0	0	1	3	1	3	2	4	4	3	2	4	4	2	rs143821279		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:18277076G>A	uc002nia.1	+	12	2035	c.1523G>A	c.(1522-1524)CGC>CAC	p.R508H	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	508					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						TACCTGGAGCGCTTCCGGCGT	0.502													4	31					0	0	0.009096	0	0		A	18277076	A	A	18277076	3	1	61	1	0	0	0	0	1	0	0	0	11938	1087	38	1	1565	1	PIK3R2	19	18277076	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	915903	18277076	40851907	785	42791											
KIAA1683	80726	broad.mit.edu	37	chr19	18376403	18376403	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacagccatgtctacaggCacatacacgtgaggtggctt	10	9	12	10	1	1	2	0	2	1	0	1	2	1	2	1	3	3	2	1	3	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:18376403C>T	uc002nin.2	-	3	2163	c.1947G>A	c.(1945-1947)GTG>GTA	p.V649V	KIAA1683_uc010ebn.2_Silent_p.V649V|KIAA1683_uc010xqe.1_Silent_p.V603V	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	649						mitochondrion				ovary(2)	2						TGTCTACAGGCACATACACGT	0.587													11	49					0	0	0.010729	0	0		T	18376403	T	T	18376403	2	4	61	1	0	0	0	0	0	0	0	1	8267	697	25	2		2	KIAA1683	19	18376403	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	99327	18376403	40752580	786	42792											
KIAA0892	23383	broad.mit.edu	37	chr19	19431805	19431805	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccgcccaaaatccgccTgtgcgtgcactgcctgcagg	7	6	11	17	3	0	0	0	0	0	0	1	0	1	0	5	1	5	2	5	1	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:19431805T>C	uc002nmk.3	+	1	176	c.137T>C	c.(136-138)CTG>CCG	p.L46P	SF4_uc002nmh.2_5'Flank|SF4_uc002nmi.2_5'Flank|SF4_uc002nmj.2_5'Flank|SF4_uc010xqr.1_5'Flank|SF4_uc010xqs.1_5'Flank	NM_015329	NP_056144	Q9Y6X3	SCC4_HUMAN	hypothetical protein LOC23383 precursor	46	Sufficient for interaction with NIPBL.				cell division|maintenance of mitotic sister chromatid cohesion	chromatin|nucleoplasm|SMC loading complex	protein N-terminus binding				0						AAAATCCGCCTGTGCGTGCAC	0.557													3	11					0	0	0.009096	0	0		C	19431805	C	C	19431805	3	2	61	1	0	0	0	0	1	0	0	0	8212	1580	55	3	139	3	KIAA0892	19	19431805	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	1055402	19431805	39697178	787	42793											
RHPN2	85415	broad.mit.edu	37	chr19	33493301	33493301	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgtagctgttggtagacCtctcccacctgaaatagaag	10	10	11	10	1	1	3	0	1	1	2	2	3	1	3	3	1	1	4	3	1	5	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:33493301C>G	uc002nuf.2	-	9	1023	c.957G>C	c.(955-957)GAG>GAC	p.E319D	RHPN2_uc010xro.1_Missense_Mutation_p.E168D|RHPN2_uc002nue.2_Missense_Mutation_p.E49D	NM_033103	NP_149094	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	319	BRO1.				signal transduction	perinuclear region of cytoplasm	protein binding			central_nervous_system(5)|ovary(1)	6	Esophageal squamous(110;0.137)					GTTGGTAGACCTCTCCCACCT	0.587													14	62					0	0	0.001855	0	0		G	33493301	G	G	33493301	3	3	61	1	0	0	0	0	1	0	0	0	13376	680	24	5	1131	5	RHPN2	19	33493301	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	14061496	33493301	25635682	788	42794											
LRP3	4037	broad.mit.edu	37	chr19	33697253	33697253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcaagctctactcactgcGcacgcaggaatacaggtggg	10	8	11	12	2	3	0	2	0	1	0	3	1	3	1	0	3	4	3	0	3	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:33697253G>A	uc010edh.2	+	5	1670	c.1577G>A	c.(1576-1578)CGC>CAC	p.R526H	LRP3_uc010xrp.1_Missense_Mutation_p.R400H|LRP3_uc002nuk.3_Missense_Mutation_p.R400H	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	526	Cytoplasmic (Potential).				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					TACTCACTGCGCACGCAGGAA	0.657													3	10					0	0	0.004672	0	0		A	33697253	A	A	33697253	3	1	61	1	0	0	0	0	1	0	0	0	8976	1087	38	1	1595	1	LRP3	19	33697253	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	203952	33697253	25431730	789	42795											
KCTD15	79047	broad.mit.edu	37	chr19	34297878	34297878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacgtcctgagcttcctgcGgacgtccaagctgctgcttc	5	11	10	15	3	0	1	0	1	0	0	4	2	3	2	3	1	6	4	3	1	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:34297878G>A	uc002nuy.3	+	5	621	c.353G>A	c.(352-354)CGG>CAG	p.R118Q	KCTD15_uc002nuv.2_Missense_Mutation_p.R118Q|KCTD15_uc002nuw.3_Missense_Mutation_p.R118Q|KCTD15_uc010xrt.1_Missense_Mutation_p.R118Q|KCTD15_uc002nux.3_Missense_Mutation_p.R118Q	NM_001129994	NP_001123466	Q96SI1	KCD15_HUMAN	potassium channel tetramerisation domain	118	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	Esophageal squamous(110;0.162)					AGCTTCCTGCGGACGTCCAAG	0.542													16	60					0	0	0.004007	0	0		A	34297878	A	A	34297878	3	1	61	1	0	0	0	0	1	0	0	0	8118	1116	39	1	363	1	KCTD15	19	34297878	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	600625	34297878	24831105	790	42796											
KCTD15	79047	broad.mit.edu	37	chr19	34302307	34302307	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgacttgggcgagcggatCgcactcagcggcgagaaggc	8	4	16	13	6	1	1	1	0	0	1	2	5	1	2	1	4	2	1	1	4	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:34302307C>T	uc002nuy.3	+	6	811	c.543C>T	c.(541-543)ATC>ATT	p.I181I	KCTD15_uc002nuv.2_Silent_p.I181I|KCTD15_uc002nuw.3_Silent_p.I181I|KCTD15_uc010xrt.1_Silent_p.I181I|KCTD15_uc002nux.3_Silent_p.I181I	NM_001129994	NP_001123466	Q96SI1	KCD15_HUMAN	potassium channel tetramerisation domain	181						voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	Esophageal squamous(110;0.162)					GCGAGCGGATCGCACTCAGCG	0.701													4	13					0	0	0.009096	0	0		T	34302307	T	T	34302307	2	4	61	1	0	0	0	0	0	0	0	1	8118	874	31	1		1	KCTD15	19	34302307	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4429	34302307	24826676	791	42797											
FAM187B	148109	broad.mit.edu	37	chr19	35719411	35719411	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggtgagcctgcccttcttgCcttgtgtgaataaatagtac	8	14	10	9	0	1	2	0	2	1	0	1	2	1	2	3	1	4	1	3	1	5	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:35719411C>G	uc002nyk.1	-	1	218	c.173G>C	c.(172-174)GGC>GCC	p.G58A		NM_152481	NP_689694	Q17R55	F187B_HUMAN	family with sequence similarity 187, member B	58	Extracellular (Potential).					integral to membrane				ovary(2)	2						GCCCTTCTTGCCTTGTGTGAA	0.517													9	45					0	0	0.004482	0	0		G	35719411	G	G	35719411	3	3	61	1	0	0	0	0	1	0	0	0	5524	739	26	5	944	5	FAM187B	19	35719411	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1417104	35719411	23409572	792	42798											
MLL4	9757	broad.mit.edu	37	chr19	36229305	36229305	+	Frame_Shift_Del	DEL	C	-	-																															tgcttctctcgggtcatccaCgtggagggccagaaacacat																										TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:36229305delC	uc010eei.2	+	38	7995	c.7995delC	c.(7993-7995)CACfs	p.H2665fs		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2665	SET.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGGTCATCCACGTGGAGGGCC	0.572													8	16	---	---	---	---						.	-	36229305	-	-	36229305	7	5	61	1	0	1	0	1	0	0	0	0	9641	535	19	0	8141	0	MLL4	19	36229305	Frame_Shift_Del	DEL	C	TCGA-BR-8081-01A-11D-2340-08	509894	36229305	22899678	793	42799											
LRFN3	79414	broad.mit.edu	37	chr19	36435744	36435744	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacggcggccagcccccCggcaaggccaagattcccgc	7	3	13	18	4	0	1	0	0	0	1	1	1	1	1	6	4	2	2	6	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:36435744C>T	uc002oco.2	+	3	2162	c.1710C>T	c.(1708-1710)CCC>CCT	p.P570P		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	570	Cytoplasmic (Potential).				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GCCAGCCCCCCGGCAAGGCCA	0.468													7	29					0	0	0.001984	0	0		T	36435744	T	T	36435744	2	4	61	1	0	0	0	0	0	0	0	1	8957	639	23	1		1	LRFN3	19	36435744	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	206439	36435744	22693239	794	42800											
ZNF793	390927	broad.mit.edu	37	chr19	38028433	38028433	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttttttttgtgggaaagcCtttacccagaagtcacaccg	9	14	9	9	1	1	1	1	0	0	1	1	2	1	2	3	1	2	1	3	1	3	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:38028433C>T	uc010efm.2	+	8	1315	c.873C>T	c.(871-873)GCC>GCT	p.A291A	ZNF793_uc010xts.1_Silent_p.A291A|ZNF793_uc010efo.2_Intron	NM_001013659	NP_001013681	Q6ZN11	ZN793_HUMAN	zinc finger protein 793	291	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTGGGAAAGCCTTTACCCAGA	0.458													4	42					0	0	0.009096	0	0		T	38028433	T	T	38028433	2	4	61	1	0	0	0	0	0	0	0	1	18190	668	24	4		4	ZNF793	19	38028433	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1592689	38028433	21100550	795	42801											
PLD3	23646	broad.mit.edu	37	chr19	40877625	40877625	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaactgcagctgcctggctCgagacctgaccaagatcttt	10	9	9	13	1	1	3	0	1	1	2	2	4	1	3	3	1	4	3	3	1	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:40877625C>T	uc002onm.3	+	9	1122	c.724C>T	c.(724-726)CGA>TGA	p.R242*	PLD3_uc002onj.3_Nonsense_Mutation_p.R242*|PLD3_uc002onk.3_Nonsense_Mutation_p.R242*|PLD3_uc002onl.3_Nonsense_Mutation_p.R242*|PLD3_uc002onn.2_Nonsense_Mutation_p.R242*	NM_001031696	NP_001026866	Q8IV08	PLD3_HUMAN	phospholipase D3	242	Lumenal (Potential).				lipid catabolic process	endoplasmic reticulum membrane|integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity|protein binding			skin(2)|ovary(1)	3			Lung(22;0.000636)|LUSC - Lung squamous cell carcinoma(20;0.00248)			CTGCCTGGCTCGAGACCTGAC	0.587													4	21					0	0	0.001168	0	0		T	40877625	T	T	40877625	4	4	61	1	0	0	0	0	0	1	0	0	12066	876	31	1	750	1	PLD3	19	40877625	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2849192	40877625	18251358	796	42802											
NUMBL	9253	broad.mit.edu	37	chr19	41188832	41188832	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccgcatcttcacacacGtgcattccccgggactcctc	7	10	6	18	3	3	0	2	0	1	0	6	1	5	1	4	1	1	2	4	1	0	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:41188832G>A	uc002oon.2	-	4	459	c.291C>T	c.(289-291)CAC>CAT	p.H97H	NUMBL_uc010xvq.1_Silent_p.H56H|NUMBL_uc002ooo.2_Silent_p.H97H|NUMBL_uc010xvr.1_Silent_p.H56H	NM_004756	NP_004747	Q9Y6R0	NUMBL_HUMAN	numb homolog (Drosophila)-like	97	PID.				cytokine-mediated signaling pathway|lateral ventricle development|neuroblast division in subventricular zone|protein metabolic process	cytoplasm	protein binding			lung(3)|ovary(1)|breast(1)	5			Lung(22;0.000393)|LUSC - Lung squamous cell carcinoma(20;0.00105)			CTTCACACACGTGCATTCCCC	0.597													13	61					0	0	0.003163	0	0		A	41188832	A	A	41188832	2	1	61	1	0	0	0	0	0	0	0	1	10771	1136	40	1		1	NUMBL	19	41188832	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	311207	41188832	17940151	797	42803											
CYP2A7	1549	broad.mit.edu	37	chr19	41386388	41386388	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggaaccttactcaccgtgCgtgctccggatggcctcgat	6	9	13	13	4	1	0	1	0	0	0	3	3	2	2	4	4	4	1	4	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:41386388C>T	uc002opm.2	-	3	1031	c.489G>A	c.(487-489)ACG>ACA	p.T163T	CYP2A7_uc002opo.2_Silent_p.T163T|CYP2A7_uc002opn.2_Silent_p.T112T	NM_000764	NP_000755	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A,	163				T -> S (in Ref. 1; AAA52138).		endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			ACTCACCGTGCGTGCTCCGGA	0.662													10	59					0	0	0.010729	0	0		T	41386388	T	T	41386388	2	4	61	1	0	0	0	0	0	0	0	1	4166	755	27	1		1	CYP2A7	19	41386388	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	197556	41386388	17742595	798	42804											
PSG9	5678	broad.mit.edu	37	chr19	43772054	43772054	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctggatcagcagggatgcGttggaatatactgtttctct	8	15	11	7	1	3	0	1	0	2	0	4	3	3	3	0	3	3	3	0	3	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:43772054G>A	uc002owd.3	-	2	411	c.312C>T	c.(310-312)AAC>AAT	p.N104N	PSG9_uc002owe.3_Silent_p.N104N|PSG9_uc010xwm.1_Silent_p.N104N|PSG9_uc002owf.3_Silent_p.N104N|PSG9_uc002owg.2_Silent_p.N104N|PSG9_uc002owh.2_Silent_p.N104N	NM_002784	NP_002775	Q00887	PSG9_HUMAN	pregnancy specific beta-1-glycoprotein 9	104	Ig-like V-type.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				GCAGGGATGCGTTGGAATATA	0.403													52	222					0	0	0.01441	0	0		A	43772054	A	A	43772054	2	1	61	1	0	0	0	0	0	0	0	1	12684	1136	40	1		1	PSG9	19	43772054	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2385666	43772054	15356929	799	42805											
APOE	348	broad.mit.edu	37	chr19	45411139	45411139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgcttttgggattacctgCgctgggtgcagacactgtct	5	13	13	10	2	1	1	0	0	1	1	2	2	1	2	1	2	3	3	1	2	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:45411139C>T	uc002pab.2	+	3	249	c.166C>T	c.(166-168)CGC>TGC	p.R56C		NM_000041	NP_000032	P02649	APOE_HUMAN	apolipoprotein E precursor	56					anti-apoptosis|Cdc42 protein signal transduction|cell death|cGMP-mediated signaling|cholesterol efflux|cholesterol homeostasis|chylomicron remnant clearance|cytoskeleton organization|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|induction of apoptosis|intracellular transport|negative regulation of blood vessel endothelial cell migration|negative regulation of cholesterol biosynthetic process|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of platelet activation|nitric oxide mediated signal transduction|phospholipid efflux|positive regulation of cGMP biosynthetic process|positive regulation of cholesterol efflux|positive regulation of cholesterol esterification|positive regulation of low-density lipoprotein particle receptor catabolic process|positive regulation of membrane protein ectodomain proteolysis|positive regulation of nitric-oxide synthase activity|receptor-mediated endocytosis|regulation of axon extension|regulation of neuronal synaptic plasticity|response to reactive oxygen species|reverse cholesterol transport|synaptic transmission, cholinergic|triglyceride metabolic process|very-low-density lipoprotein particle clearance|very-low-density lipoprotein particle remodeling	chylomicron|dendrite|high-density lipoprotein particle|intermediate-density lipoprotein particle|low-density lipoprotein particle|neuronal cell body|very-low-density lipoprotein particle	antioxidant activity|beta-amyloid binding|heparin binding|low-density lipoprotein particle receptor binding|metal chelating activity|phosphatidylcholine-sterol O-acyltransferase activator activity|phospholipid binding|protein heterodimerization activity|protein homodimerization activity|tau protein binding|very-low-density lipoprotein particle receptor binding				0	Lung NSC(12;0.0018)|all_lung(12;0.00481)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00327)|Epithelial(262;0.174)	Human Serum Albumin(DB00062)|Serum albumin iodonated(DB00064)	GGATTACCTGCGCTGGGTGCA	0.652													6	28					0	0	0.001984	0	0		T	45411139	T	T	45411139	3	4	61	1	0	0	0	0	1	0	0	0	802	768	27	1	172	1	APOE	19	45411139	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1639085	45411139	13717844	800	42806											
SFRS16	11129	broad.mit.edu	37	chr19	45543570	45543570	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagtattatgaaaagatcGtgagtaactggccttttgtc	11	13	12	5	1	0	3	0	2	0	1	2	4	0	4	1	2	1	2	1	2	5	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:45543570G>A	uc002pak.2	+	2	197	c.99_splice	c.e2+1	p.I33_splice	SFRS16_uc002pal.2_Splice_Site|SFRS16_uc010xxh.1_Splice_Site_p.I33_splice|SFRS16_uc002pam.2_Splice_Site_p.I33_splice|SFRS16_uc002pan.1_Splice_Site	NM_007056	NP_008987	Q8N2M8	CLASR_HUMAN	splicing factor, arginine/serine-rich 16						mRNA processing|RNA splicing	nucleus					0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		TGAAAAGATCGTGAGTAACTG	0.542													3	9					0	0	0.004672	0	0		A	45543570	A	A	45543570	5	1	61	1	0	0	0	0	0	0	1	0	14197	1159	40	1	102	1	SFRS16	19	45543570	Splice_Site	SNP	G	TCGA-BR-8081-01A-11D-2340-08	132431	45543570	13585413	801	42807											
GIPR	2696	broad.mit.edu	37	chr19	46180981	46180981	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaggtgctgggagcgcAacgaagtcaaggccatttgg	9	7	14	11	2	1	0	1	0	0	0	2	2	2	1	3	4	3	2	3	4	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:46180981A>G	uc002pcu.1	+	10	967	c.868A>G	c.(868-870)AAC>GAC	p.N290D	GIPR_uc002pct.1_Missense_Mutation_p.N290D|GIPR_uc010xxp.1_Missense_Mutation_p.N254D|GIPR_uc010xxq.1_Intron	NM_000164	NP_000155	P48546	GIPR_HUMAN	gastric inhibitory polypeptide receptor	290	Extracellular (Potential).				generation of precursor metabolites and energy|response to nutrient	integral to membrane|plasma membrane				skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0056)|GBM - Glioblastoma multiforme(486;0.0832)|Epithelial(262;0.199)		CTGGGAGCGCAACGAAGTCAA	0.577													15	126					0	0	0.007413	0	0		G	46180981	G	G	46180981	3	3	61	1	0	0	0	0	1	0	0	0	6410	130	5	3	902	3	GIPR	19	46180981	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	637411	46180981	12948002	802	42808											
PNMAL2	57469	broad.mit.edu	37	chr19	46998569	46998569	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcaaagccttcatgtgtcGcaacctgaacgtgcccaggg	10	8	10	13	2	2	1	2	1	0	0	3	1	2	1	3	1	4	1	3	1	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:46998569G>A	uc002pes.2	-	1	601	c.154C>T	c.(154-156)CGA>TGA	p.R52*	uc002peu.1_3'UTR	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	52										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		ttcatgtgtcgcaacctgaac	0													15	74					0	0	0.00499	0	0		A	46998569	A	A	46998569	4	1	61	1	0	0	0	0	0	1	0	0	12177	1095	38	1	1757	1	PNMAL2	19	46998569	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	817588	46998569	12130414	803	42809											
ZC3H4	23211	broad.mit.edu	37	chr19	47572412	47572412	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cctcgctctctcctcctcctCctgctgcttctgctggatcc	1	14	6	20	1	2	0	0	0	2	0	9	1	7	1	6	1	3	4	6	1	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:47572412C>G	uc002pga.3	-	14	2373	c.2335G>C	c.(2335-2337)GAG>CAG	p.E779Q	ZC3H4_uc002pgb.1_Intron	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	779	Potential.						nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		TCCTCCTCCTCCTGCTGCTTC	0.701													15	74					0	0	0.003163	0	0		G	47572412	G	G	47572412	3	3	61	1	0	0	0	0	1	0	0	0	17595	864	30	5	1584	5	ZC3H4	19	47572412	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	573843	47572412	11556571	804	42810											
GLTSCR1	29998	broad.mit.edu	37	chr19	48184029	48184029	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgttggccccccactcCggggcccacagcgcgcacat	5	5	11	20	4	0	0	0	0	0	0	1	0	1	0	6	3	1	2	6	3	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:48184029C>T	uc002phh.3	+	6	1796	c.1602C>T	c.(1600-1602)TCC>TCT	p.S534S	GLTSCR1_uc002phi.3_Silent_p.S292S	NM_015711	NP_056526	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	534							protein binding			pancreas(3)	3		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		CCCCCCACTCCGGGGCCCACA	0.711													9	37					0	0	0.008291	0	0		T	48184029	T	T	48184029	2	4	61	1	0	0	0	0	0	0	0	1	6489	639	23	1		1	GLTSCR1	19	48184029	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	611617	48184029	10944954	805	42811											
KCNA7	3743	broad.mit.edu	37	chr19	49575417	49575417	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagactacggcgagcacgcgCgcggcctgagagctctcggg	7	4	17	13	7	1	2	0	1	1	2	2	5	1	2	1	3	3	2	1	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:49575417C>T	uc002pmg.2	-	1	782	c.426G>A	c.(424-426)GCG>GCA	p.A142A		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	142						voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)		CGAGCACGCGCGCGGCCTGAG	0.711													5	23					0	0	0.001984	0	0		T	49575417	T	T	49575417	2	4	61	1	0	0	0	0	0	0	0	1	8024	755	27	1		1	KCNA7	19	49575417	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1391388	49575417	9553566	806	42812											
SYT3	84258	broad.mit.edu	37	chr19	51129177	51129177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagccagtgaggtccatcGctttgaggttagaggctttg	9	11	14	7	1	0	4	0	2	0	2	2	4	1	4	2	3	1	3	2	3	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:51129177G>A	uc002pst.2	-	5	2013	c.1379C>T	c.(1378-1380)GCG>GTG	p.A460V	SYT3_uc002psv.2_Missense_Mutation_p.A460V|SYT3_uc010ycd.1_Missense_Mutation_p.A460V	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	460	C2 2.|Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		GAGGTCCATCGCTTTGAGGTT	0.373													3	16					0	0	0.004672	0	0		A	51129177	A	A	51129177	3	1	61	1	0	0	0	0	1	0	0	0	15500	1087	38	1	409	1	SYT3	19	51129177	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1553760	51129177	7999806	807	42813											
ACPT	93650	broad.mit.edu	37	chr19	51297840	51297840	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccgccaaagatggagggTgagaatggtttggtgcccag	10	8	15	8	1	0	2	0	1	0	2	1	4	1	3	3	4	1	1	3	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:51297840T>C	uc002pta.1	+	9	986	c.986_splice	c.e9+2	p.G329_splice		NM_033068	NP_149059	Q9BZG2	PPAT_HUMAN	testicular acid phosphatase precursor							integral to membrane	acid phosphatase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		AGATGGAGGGTGAGAATGGTT	0.617													4	29					0	0	0.009096	0	0		C	51297840	C	C	51297840	5	2	61	1	0	0	0	0	0	0	1	0	168	1710	59	3	1022	3	ACPT	19	51297840	Splice_Site	SNP	T	TCGA-BR-8081-01A-11D-2340-08	168663	51297840	7831143	808	42814											
ZNF665	79788	broad.mit.edu	37	chr19	53667933	53667933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attttgagtgaagaccttgcCacattcattacatttgtaag	12	15	7	7	0	1	3	1	2	0	1	1	3	1	3	2	0	2	1	2	0	3	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:53667933C>T	uc010eqm.1	-	4	1910	c.1810G>A	c.(1810-1812)GGC>AGC	p.G604S		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	539	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		AAGACCTTGCCACATTCATTA	0.388													13	87					0	0	0.013537	0	0		T	53667933	T	T	53667933	3	4	61	1	0	0	0	0	1	0	0	0	18098	594	21	4	230	4	ZNF665	19	53667933	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2370093	53667933	5461050	809	42815											
LENG9	94059	broad.mit.edu	37	chr19	54973657	54973657	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcagcggcctcctccccAgcgcctgccagtcgcagcag	6	5	12	18	3	0	0	0	0	0	0	3	0	2	0	6	2	4	3	6	2	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:54973657A>G	uc010yez.1	-	1	1238	c.1119T>C	c.(1117-1119)GCT>GCC	p.A373A		NM_198988	NP_945339	Q96B70	LENG9_HUMAN	leukocyte receptor cluster (LRC) member 9	373					RNA metabolic process	intracellular	catalytic activity|nucleic acid binding|zinc ion binding				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.134)		CCTCCTCCCCAGCGCCTGCCA	0.652													8	56					0	0	0.00308	0	0		G	54973657	G	G	54973657	2	3	61	1	0	0	0	0	0	0	0	1	8741	175	7	3		3	LENG9	19	54973657	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1305724	54973657	4155326	810	42816											
KIR2DL1	3802	broad.mit.edu	37	chr19	55286906	55286906	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacccactgcttgtttctgtCacaggtgaggaaagcccatg	9	10	11	11	0	2	1	1	1	1	0	2	3	2	2	2	2	2	2	2	2	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:55286906C>T	uc002qhb.1	+	4	698	c.660C>T	c.(658-660)GTC>GTT	p.V220V	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_RNA|KIR3DP1_uc010yfi.1_Intron|KIR2DL1_uc010erz.1_Silent_p.V220V	NM_014218	NP_055033	P43626	KI2L1_HUMAN	killer cell immunoglobulin-like receptor, two	220	Extracellular (Potential).				immune response|natural killer cell inhibitory signaling pathway	integral to plasma membrane	protein binding|receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		TTGTTTCTGTCACAGGTGAGG	0.547													12	138					0	0	0.00245	0	0		T	55286906	T	T	55286906	2	4	61	1	0	0	0	0	0	0	0	1	8332	813	29	4		4	KIR2DL1	19	55286906	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	313249	55286906	3842077	811	42817											
ZNF606	80095	broad.mit.edu	37	chr19	58490991	58490991	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaggatgagaaataaaagaTattctcatattctttgtaat	18	14	6	3	0	2	2	1	1	2	2	3	4	2	3	0	1	0	1	0	1	7	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:58490991T>C	uc002qqw.2	-	7	1675	c.1057A>G	c.(1057-1059)ATC>GTC	p.I353V	ZNF606_uc010yhp.1_Missense_Mutation_p.I263V	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	353					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		AAATAAAAGATATTCTCATAT	0.333													21	63					0	0	0.008871	0	0		C	58490991	C	C	58490991	3	2	61	1	0	0	0	0	1	0	0	0	18057	1406	49	3	1325	3	ZNF606	19	58490991	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	3204085	58490991	637992	812	42818											
C20orf54	113278	broad.mit.edu	37	chr20	744159	744159	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctgttaggcaggaacatGgagaccaacgaggcaagagg	14	4	14	9	1	0	2	0	0	0	2	0	5	0	3	2	5	2	3	2	5	4	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:744159G>A	uc002wed.3	-	3	1395	c.1056C>T	c.(1054-1056)TCC>TCT	p.S352S	C20orf54_uc002wee.2_Silent_p.S352S	NM_033409	NP_212134	Q9NQ40	RFT2_HUMAN	hypothetical protein LOC113278 precursor	352	Helical; (Potential).				sensory perception of sound	integral to plasma membrane	riboflavin transporter activity			ovary(2)	2						GCAGGAACATGGAGACCAACG	0.567													6	35					0	0	0.001168	0	0		A	744159	A	A	744159	2	1	61	1	0	0	0	0	0	0	0	1	2117	1335	47	4		4	C20orf54	20	744159	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08		744159	62281361	813	42819											
SNPH	9751	broad.mit.edu	37	chr20	1285978	1285978	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgacacactgagccggacGgacgcgctggaagccagcag	11	3	15	12	4	0	2	0	2	0	0	0	6	0	5	2	3	3	2	2	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:1285978G>A	uc002wes.2	+	6	1001	c.765G>A	c.(763-765)ACG>ACA	p.T255T	SNPH_uc002wet.2_Silent_p.T299T	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	255					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						TGAGCCGGACGGACGCGCTGG	0.682													4	33					0	0	0.009096	0	0		A	1285978	A	A	1285978	2	1	61	1	0	0	0	0	0	0	0	1	14875	1103	39	1		1	SNPH	20	1285978	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	541819	1285978	61739542	814	42820											
MCM8	84515	broad.mit.edu	37	chr20	5974312	5974312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatttcaatttcatcaacttCggcagattgccaaagaacta	14	13	5	9	1	3	2	3	0	0	2	4	2	3	2	1	1	3	1	1	1	6	6	rs147649536		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:5974312C>T	uc002wmi.2	+	18	2778	c.2401C>T	c.(2401-2403)CGG>TGG	p.R801W	MCM8_uc002wmj.2_Missense_Mutation_p.R785W|MCM8_uc002wmk.2_Missense_Mutation_p.R841W|MCM8_uc002wml.2_Missense_Mutation_p.R801W|MCM8_uc010gbp.2_Missense_Mutation_p.R754W|MCM8_uc002wmm.2_Missense_Mutation_p.R339W	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	801					cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						TCATCAACTTCGGCAGATTGC	0.318													6	47					0	0	0.001168	0	0		T	5974312	T	T	5974312	3	4	61	1	0	0	0	0	1	0	0	0	9411	875	31	1	2467	1	MCM8	20	5974312	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4688334	5974312	57051208	815	42821											
CRLS1	54675	broad.mit.edu	37	chr20	6012658	6012658	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttttggtcctctgccagCgaacacttgccaagtatttc	7	15	7	12	1	1	0	0	0	1	0	3	1	2	0	3	1	4	1	3	1	3	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:6012658C>T	uc002wmn.3	+	5	815	c.661C>T	c.(661-663)CGA>TGA	p.R221*	CRLS1_uc010gbq.2_RNA|CRLS1_uc010gbr.2_Nonsense_Mutation_p.R122*	NM_019095	NP_061968	Q9UJA2	CRLS1_HUMAN	cardiolipin synthase 1 isoform 1	221					phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphotransferase activity, for other substituted phosphate groups				0						CCTCTGCCAGCGAACACTTGC	0.303													9	94					0	0	0.004482	0	0		T	6012658	T	T	6012658	4	4	61	1	0	0	0	0	0	1	0	0	3892	782	27	1	692	1	CRLS1	20	6012658	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	38346	6012658	57012862	816	42822											
RRBP1	6238	broad.mit.edu	37	chr20	17641004	17641004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctggtggtgagttttcGccatctccttgcgctggttg	2	17	12	10	2	2	1	0	1	2	0	4	1	2	1	2	3	1	3	2	3	0	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:17641004G>A	uc010zrq.1	-	3	503	c.149C>T	c.(148-150)GCG>GTG	p.A50V	RRBP1_uc002wpu.2_5'Flank|RRBP1_uc002wpv.1_Missense_Mutation_p.A50V|RRBP1_uc002wpw.1_Missense_Mutation_p.A50V|RRBP1_uc010gcl.1_Intron|RRBP1_uc010zrr.1_Missense_Mutation_p.A50V			Q9P2E9	RRBP1_HUMAN	SubName: Full=RRBP1 protein; Flags: Fragment;	50	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						GTGAGTTTTCGCCATCTCCTT	0.333													9	25					0	0	0.004482	0	0		A	17641004	A	A	17641004	3	1	61	1	0	0	0	0	1	0	0	0	13703	1087	38	1	2880	1	RRBP1	20	17641004	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	11628346	17641004	45384516	817	42823											
CD93	22918	broad.mit.edu	37	chr20	23066077	23066077	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagagggggcccgagctGccccagtcgaacacatcggg	10	3	14	14	3	0	1	0	0	0	1	2	3	0	1	3	3	3	1	3	3	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:23066077G>A	uc002wsv.2	-	1	901	c.753C>T	c.(751-753)GGC>GGT	p.G251G		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	251	Extracellular (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GGCCCGAGCTGCCCCAGTCGA	0.592													24	101					0	0	0.00333	0	0		A	23066077	A	A	23066077	2	1	61	1	0	0	0	0	0	0	0	1	3050	1306	46	2		2	CD93	20	23066077	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	5425073	23066077	39959443	818	42824											
GZF1	64412	broad.mit.edu	37	chr20	23350271	23350271	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagcagttcacccagctcAacgccctccagcgccaccgc	9	4	8	20	3	2	0	2	0	0	0	3	0	3	0	5	0	4	4	5	0	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:23350271A>G	uc010gdb.2	+	6	1852	c.1678A>G	c.(1678-1680)AAC>GAC	p.N560D	GZF1_uc002wsy.2_Missense_Mutation_p.N560D|GZF1_uc010zsq.1_Missense_Mutation_p.N84D|GZF1_uc010zsr.1_Missense_Mutation_p.N69D|GZF1_uc002wsz.2_Missense_Mutation_p.N560D	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	560	C2H2-type 9.				transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					CACCCAGCTCAACGCCCTCCA	0.632													18	87					0	0	0.010504	0	0		G	23350271	G	G	23350271	3	3	61	1	0	0	0	0	1	0	0	0	6930	130	5	3	1692	3	GZF1	20	23350271	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	284194	23350271	39675249	819	42825											
NINL	22981	broad.mit.edu	37	chr20	25507059	25507059	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaccctggcgaaatggtcGtttccgagaagcgtctgcag	8	9	12	12	4	2	1	1	0	1	1	4	3	3	1	2	2	2	2	2	2	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:25507059G>A	uc002wux.1	-	2	239	c.165C>T	c.(163-165)AAC>AAT	p.N55N	NINL_uc010gdn.1_Silent_p.N55N|NINL_uc010gdo.1_Translation_Start_Site|NINL_uc010ztf.1_Silent_p.N71N	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	55	EF-hand 2.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CGAAATGGTCGTTTCCGAGAA	0.532													18	135					0	0	0.007413	0	0		A	25507059	A	A	25507059	2	1	61	1	0	0	0	0	0	0	0	1	10439	1136	40	1		1	NINL	20	25507059	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2156788	25507059	37518461	820	42826											
HM13	81502	broad.mit.edu	37	chr20	30132838	30132838	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttctggggaaaacaaggaaGgtcagtgctaaccactttcc	12	9	11	9	0	2	0	1	0	1	0	3	2	3	2	2	4	3	2	2	4	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:30132838G>T	uc002wwe.2	+	4	568	c.454G>T	c.(454-456)GAG>TAG	p.E152*	HM13_uc002wwc.2_Nonsense_Mutation_p.E152*|HM13_uc002wwd.2_Nonsense_Mutation_p.E152*|HM13_uc002wwf.2_5'Flank|HM13_uc010gdu.2_5'Flank|PSIMCT-1_uc010gdt.2_5'Flank	NM_030789	NP_110416	Q8TCT9	HM13_HUMAN	minor histocompatibility antigen 13 isoform 1	152	Cytoplasmic (Potential).				membrane protein proteolysis	cell surface|endoplasmic reticulum membrane|integral to membrane|plasma membrane	aspartic-type endopeptidase activity|protein binding			breast(1)	1	all_cancers(5;3.44e-05)|Lung NSC(7;4.38e-06)|all_lung(7;7.65e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		all cancers(5;0.000479)|Colorectal(19;0.00202)|COAD - Colon adenocarcinoma(19;0.0264)			AAACAAGGAAGGTCAGTGCTA	0.453													4	42					0.00909568	0.00928865	0.009096	1	0		T	30132838	T	T	30132838	4	4	61	1	0	0	0	0	0	1	0	0	7233	1014	35	5	535	5	HM13	20	30132838	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4625779	30132838	32892682	821	42827											
CBFA2T2	9139	broad.mit.edu	37	chr20	32232206	32232206	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatgcagtggctgcaatatCgcgcgatactgtggctcttt	8	12	11	10	3	1	0	0	0	1	0	2	1	1	0	0	2	3	4	0	2	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:32232206C>T	uc002wzg.1	+	12	2106	c.1569C>T	c.(1567-1569)ATC>ATT	p.I523I	CBFA2T2_uc010zug.1_Silent_p.I297I|CBFA2T2_uc002wze.1_Silent_p.I514I|CBFA2T2_uc002wzf.1_RNA|CBFA2T2_uc002wzh.1_Silent_p.I494I|CBFA2T2_uc002wzi.1_RNA|CBFA2T2_uc002wzj.1_RNA|CBFA2T2_uc002wzk.1_Silent_p.I71I	NM_005093	NP_005084	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit	523	MYND-type.					nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2						GCTGCAATATCGCGCGATACT	0.612													9	61					0	0	0.004482	0	0		T	32232206	T	T	32232206	2	4	61	1	0	0	0	0	0	0	0	1	2700	874	31	1		1	CBFA2T2	20	32232206	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2099368	32232206	30793314	822	42828											
RALY	22913	broad.mit.edu	37	chr20	32663747	32663747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtccctgtgaagcgacccCgggtcacagtccctttggtc	5	9	12	15	3	1	1	1	1	0	0	4	2	3	1	4	3	1	0	4	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:32663747C>T	uc002xab.2	+	6	743	c.445C>T	c.(445-447)CGG>TGG	p.R149W	RALY_uc002xac.2_Missense_Mutation_p.R133W|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Missense_Mutation_p.R149W	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	149						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1						GAAGCGACCCCGGGTCACAGT	0.627													12	29					0	0	0.010729	0	0		T	32663747	T	T	32663747	3	4	61	1	0	0	0	0	1	0	0	0	13044	643	23	1	459	1	RALY	20	32663747	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	431541	32663747	30361773	823	42829											
RALGAPB	57148	broad.mit.edu	37	chr20	37203485	37203485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggaaagtgactcctacagtCccccccatgtccgccggaaa	10	7	9	15	2	0	1	0	1	0	0	3	3	3	3	6	2	1	0	6	2	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:37203485C>T	uc002xiw.2	+	30	4617	c.4360C>T	c.(4360-4362)CCC>TCC	p.P1454S	RALGAPB_uc002xix.2_Missense_Mutation_p.P1451S|RALGAPB_uc002xiy.1_Intron|RALGAPB_uc002xiz.2_Missense_Mutation_p.P1233S	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	1454					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						CTCCTACAGTCCCCCCCATGT	0.428													19	64					0	0	0.006122	0	0		T	37203485	T	T	37203485	3	4	61	1	0	0	0	0	1	0	0	0	13040	855	30	4	4474	4	RALGAPB	20	37203485	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4539738	37203485	25822035	824	42830											
PTPRT	11122	broad.mit.edu	37	chr20	40980779	40980779	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccaaagccctttgctgtGctggccttgatggtgaagga	7	10	14	10	0	0	2	0	2	0	0	0	3	0	3	3	4	3	2	3	4	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:40980779G>A	uc002xkg.2	-	10	1891	c.1707C>T	c.(1705-1707)AGC>AGT	p.S569S	PTPRT_uc010ggj.2_Silent_p.S569S	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	569	Extracellular (Potential).|Fibronectin type-III 3.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CCTTTGCTGTGCTGGCCTTGA	0.522													13	57					0	0	0.003163	0	0		A	40980779	A	A	40980779	2	1	61	1	0	0	0	0	0	0	0	1	12837	1310	46	2		2	PTPRT	20	40980779	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3777294	40980779	22044741	825	42831											
C20orf111	51526	broad.mit.edu	37	chr20	42825844	42825844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccagacagagttctggCgtgcagcgactgagagtagt	11	7	15	8	2	1	4	0	1	1	4	1	6	1	4	1	1	3	3	1	1	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:42825844C>T	uc002xlk.2	-	4	864	c.727G>A	c.(727-729)GCC>ACC	p.A243T		NM_016470	NP_057554	Q9NX31	CT111_HUMAN	oxidative stress responsive 1	243											0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			AGAGTTCTGGCGTGCAGCGAC	0.522													18	55					0	0	0.007413	0	0		T	42825844	T	T	42825844	3	4	61	1	0	0	0	0	1	0	0	0	2083	768	27	1	155	1	C20orf111	20	42825844	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1845065	42825844	20199676	826	42832											
RBPJL	11317	broad.mit.edu	37	chr20	43938299	43938299	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgcggatcctgcatgccaAggtggcccagaaatcatacg	10	8	12	11	2	1	1	1	0	0	1	2	2	2	2	3	3	4	1	3	3	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:43938299A>C	uc002xns.2	+	3	296	c.224A>C	c.(223-225)AAG>ACG	p.K75T	MATN4_uc002xnn.2_5'Flank|MATN4_uc002xno.2_5'Flank|MATN4_uc002xnp.2_5'Flank|MATN4_uc002xnr.1_5'Flank|RBPJL_uc002xnt.2_Missense_Mutation_p.K75T	NM_014276	NP_055091	Q9UBG7	RBPJL_HUMAN	recombining binding protein L	75					signal transduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CTGCATGCCAAGGTGGCCCAG	0.602													5	19					0	0	0.000602	0	0		C	43938299	C	C	43938299	3	2	61	1	0	0	0	0	1	0	0	0	13187	72	3	5	234	5	RBPJL	20	43938299	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1112455	43938299	19087221	827	42833											
ZNF334	55713	broad.mit.edu	37	chr20	45130815	45130815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcagtaagggctgactgaCagaagaaggttttcccacat	12	8	12	9	1	0	4	0	2	0	2	1	4	1	4	1	2	0	4	1	2	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:45130815C>T	uc002xsc.2	-	5	1347	c.1163G>A	c.(1162-1164)TGT>TAT	p.C388Y	ZNF334_uc002xsa.2_Missense_Mutation_p.C411Y|ZNF334_uc002xsb.2_Missense_Mutation_p.C350Y|ZNF334_uc002xsd.2_Missense_Mutation_p.C350Y|ZNF334_uc010ghl.2_Missense_Mutation_p.C387Y	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	388	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				GGCTGACTGACAGAAGAAGGT	0.418													22	111					0	0	0.014323	0	0		T	45130815	T	T	45130815	3	4	61	1	0	0	0	0	1	0	0	0	17876	478	17	4	883	4	ZNF334	20	45130815	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1192516	45130815	17894705	828	42834											
ZNF334	55713	broad.mit.edu	37	chr20	45131154	45131154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgaggcttgtcttcacaCgaaaagttttcctacaatca	12	12	8	9	1	3	1	2	1	1	0	4	3	4	1	1	1	1	2	1	1	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:45131154C>T	uc002xsc.2	-	5	1008	c.824G>A	c.(823-825)CGT>CAT	p.R275H	ZNF334_uc002xsa.2_Missense_Mutation_p.R298H|ZNF334_uc002xsb.2_Missense_Mutation_p.R237H|ZNF334_uc002xsd.2_Missense_Mutation_p.R237H|ZNF334_uc010ghl.2_Missense_Mutation_p.R274H	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	275	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				TGTCTTCACACGAAAAGTTTT	0.413													17	95					0	0	0.00499	0	0		T	45131154	T	T	45131154	3	4	61	1	0	0	0	0	1	0	0	0	17876	536	19	1	1222	1	ZNF334	20	45131154	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	339	45131154	17894366	829	42835											
MC3R	4159	broad.mit.edu	37	chr20	54824345	54824345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacgtcaccatcttttacgCgctccgctaccacagcatca	9	10	6	16	4	3	0	2	0	1	0	4	0	4	0	3	0	4	4	3	0	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:54824345C>T	uc002xxb.2	+	1	558	c.446C>T	c.(445-447)GCG>GTG	p.A149V		NM_019888	NP_063941	P41968	MC3R_HUMAN	melanocortin 3 receptor	186	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|protein binding			ovary(2)|breast(2)	4			Colorectal(105;0.202)			ATCTTTTACGCGCTCCGCTAC	0.582													14	69					0	0	0.001855	0	0		T	54824345	T	T	54824345	3	4	61	1	0	0	0	0	1	0	0	0	9383	768	27	1	448	1	MC3R	20	54824345	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	9693191	54824345	8201175	830	42836											
LAMA5	3911	broad.mit.edu	37	chr20	60890152	60890152	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctcgtactggccctgcCaccgctccacattctcctgc	4	9	8	20	2	1	0	0	0	1	0	4	0	2	0	6	2	3	2	6	2	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:60890152C>A	uc002ycq.2	-	59	8046	c.7979G>T	c.(7978-7980)TGG>TTG	p.W2660L		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2660	Potential.|Domain II and I.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTGGCCCTGCCACCGCTCCAC	0.677													8	21					5.4927e-09	6.04654e-09	0.004482	1	0		A	60890152	A	A	60890152	3	1	61	1	0	0	0	0	1	0	0	0	8625	595	21	5	3196	5	LAMA5	20	60890152	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	6065807	60890152	2135368	831	42837											
DIDO1	11083	broad.mit.edu	37	chr20	61513091	61513091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttccacctcgtggcgcCgccctcgctccacaagctga	5	8	8	20	4	0	1	0	1	0	0	4	1	2	1	6	1	1	2	6	1	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:61513091C>T	uc002ydr.1	-	16	4481	c.4217G>A	c.(4216-4218)CGG>CAG	p.R1406Q	DIDO1_uc002yds.1_Missense_Mutation_p.R1406Q	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1406					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CTCGTGGCGCCGCCCTCGCTC	0.607													21	75					0	0	0.008871	0	0		T	61513091	T	T	61513091	3	4	61	1	0	0	0	0	1	0	0	0	4528	652	23	1	2509	1	DIDO1	20	61513091	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	622939	61513091	1512429	832	42838											
C20orf135	140701	broad.mit.edu	37	chr20	62493649	62493649	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtctgttggcggcttcacGgccacctgggccaccatgac	5	9	13	14	2	2	1	1	1	1	0	2	1	2	1	4	5	0	2	4	5	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:62493649G>A	uc002ygx.1	+	1	1084	c.756G>A	c.(754-756)ACG>ACA	p.T252T	TPD52L2_uc002ygy.2_5'Flank|TPD52L2_uc002ygz.2_5'Flank|TPD52L2_uc002yha.2_5'Flank|TPD52L2_uc002yhb.2_5'Flank|TPD52L2_uc002yhc.2_5'Flank|TPD52L2_uc002yhd.2_5'Flank|TPD52L2_uc011abk.1_5'Flank|TPD52L2_uc011abl.1_5'Flank	NM_080622	NP_542189	Q9H3Z7	ABHGB_HUMAN	hypothetical protein LOC140701	252							hydrolase activity				0	all_cancers(38;1.77e-12)|all_epithelial(29;3.12e-14)|Lung NSC(23;5.92e-10)|all_lung(23;2.08e-09)					GCGGCTTCACGGCCACCTGGG	0.672													4	12					0	0	0.009096	0	0		A	62493649	A	A	62493649	2	1	61	1	0	0	0	0	0	0	0	1	2091	1103	39	1		1	C20orf135	20	62493649	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	980558	62493649	531871	833	42839											
PCMTD2	55251	broad.mit.edu	37	chr20	62904787	62904787	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggatttccaacccctcagAtgacaacagctgtgaagact	12	9	8	12	1	1	4	1	2	0	2	3	5	2	5	3	1	3	1	3	1	3	1	rs149434467	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:62904787A>G	uc002yil.3	+	6	1120	c.920A>G	c.(919-921)GAT>GGT	p.D307G	PCMTD2_uc002yim.3_Missense_Mutation_p.D280G	NM_018257	NP_060727	Q9NV79	PCMD2_HUMAN	protein-L-isoaspartate (D-aspartate)	307						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					AACCCCTCAGATGACAACAGC	0.522													8	85					0	0	0.00308	0	0		G	62904787	G	G	62904787	3	3	61	1	0	0	0	0	1	0	0	0	11606	333	12	3	938	3	PCMTD2	20	62904787	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	411138	62904787	120733	834	42840											
TMPRSS15	5651	broad.mit.edu	37	chr21	19666643	19666643	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgacgagagatgcgccGcagagcagtcggccgccata	9	5	14	13	5	0	3	0	1	0	2	1	5	0	3	3	1	3	3	3	1	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:19666643G>A	uc002ykw.2	-	21	2461	c.2430C>T	c.(2428-2430)TGC>TGT	p.C810C		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	810	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						GAGATGCGCCGCAGAGCAGTC	0.567													17	72					0	0	0.006122	0	0		A	19666643	A	A	19666643	2	1	61	1	0	0	0	0	0	0	0	1	16271	1079	38	1		1	TMPRSS15	21	19666643	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08		19666643	28463252	835	42841											
TMPRSS15	5651	broad.mit.edu	37	chr21	19737468	19737468	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtattaccgtatgatccaCtggcagacaacacttgtttc	10	14	7	10	1	0	2	0	1	0	1	2	2	1	2	2	1	2	4	2	1	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:19737468C>T	uc002ykw.2	-	7	793	c.762G>A	c.(760-762)CAG>CAA	p.Q254Q		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	254	Extracellular (Potential).|CUB 1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						GTATGATCCACTGGCAGACAA	0.363													9	72					0	0	0.008291	0	0		T	19737468	T	T	19737468	2	4	61	1	0	0	0	0	0	0	0	1	16271	564	20	4		4	TMPRSS15	21	19737468	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	70825	19737468	28392427	836	42842											
NCAM2	4685	broad.mit.edu	37	chr21	22881276	22881276	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctgcttctttattcggCaatgtgggttgctgatgtgc	5	16	12	8	1	2	1	1	1	1	0	3	1	2	1	0	2	4	5	0	2	2	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:22881276C>T	uc002yld.1	+	16	2431	c.2182C>T	c.(2182-2184)CAA>TAA	p.Q728*	NCAM2_uc011acb.1_Nonsense_Mutation_p.Q586*	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	728	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		CTTTATTCGGCAATGTGGGTT	0.468													5	55					0	0	0.000602	0	0		T	22881276	T	T	22881276	4	4	61	1	0	0	0	0	0	1	0	0	10222	711	25	2	2244	2	NCAM2	21	22881276	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3143808	22881276	25248619	837	42843											
APP	351	broad.mit.edu	37	chr21	27327992	27327992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaccatgcgcacatgctcGaaatgctttagggtgtgctg	8	11	11	11	2	0	0	0	0	0	0	2	1	1	0	2	1	4	4	2	1	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:27327992G>A	uc002ylz.2	-	12	1736	c.1536C>T	c.(1534-1536)TTC>TTT	p.F512F	APP_uc011acg.1_Silent_p.F20F|APP_uc010glk.2_Silent_p.F488F|APP_uc002yma.2_Silent_p.F493F|APP_uc011ach.1_Silent_p.F456F|APP_uc002ymb.2_Silent_p.F437F|APP_uc010glj.2_Silent_p.F381F|APP_uc011aci.1_Silent_p.F402F	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	512	Heparin-binding.|Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				GCACATGCTCGAAATGCTTTA	0.493													14	60					0	0	0.001855	0	0		A	27327992	A	A	27327992	2	1	61	1	0	0	0	0	0	0	0	1	815	1049	37	1		1	APP	21	27327992	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	4446716	27327992	20801903	838	42844											
RWDD2B	10069	broad.mit.edu	37	chr21	30380391	30380391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaatgtttttgcaggaatGcagtcagatctgtgttcagc	10	13	11	7	0	3	1	2	0	1	1	3	3	3	2	0	1	3	4	0	1	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:30380391G>A	uc002yms.2	-	4	503	c.416C>T	c.(415-417)GCA>GTA	p.A139V	RWDD2B_uc002ymt.2_Missense_Mutation_p.A110V|RWDD2B_uc002ymu.2_RNA|RWDD2B_uc002ymv.2_Missense_Mutation_p.A59V	NM_016940	NP_058636	P57060	RWD2B_HUMAN	RWD domain containing 2B	139	RWD.										0						TTGCAGGAATGCAGTCAGATC	0.393													15	53					0	0	0.003163	0	0		A	30380391	A	A	30380391	3	1	61	1	0	0	0	0	1	0	0	0	13781	1319	46	2	551	2	RWDD2B	21	30380391	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3052399	30380391	17749504	839	42845											
SON	6651	broad.mit.edu	37	chr21	34923165	34923165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggggcagcctgaggcaaCgatggtgctggagttgccag	7	7	18	9	1	0	1	0	1	0	0	0	3	0	2	2	5	4	5	2	5	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:34923165C>T	uc002yse.1	+	3	1677	c.1628C>T	c.(1627-1629)ACG>ATG	p.T543M	SON_uc002ysb.1_Missense_Mutation_p.T543M|SON_uc002ysc.2_Missense_Mutation_p.T543M|SON_uc002ysd.2_Translation_Start_Site|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	543					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						CCTGAGGCAACGATGGTGCTG	0.632													21	99					0	0	0.012319	0	0		T	34923165	T	T	34923165	3	4	61	1	0	0	0	0	1	0	0	0	14951	536	19	1	1638	1	SON	21	34923165	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4542774	34923165	13206730	840	42846											
DOPEY2	9980	broad.mit.edu	37	chr21	37617398	37617398	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctctttcagagaggcatgCgcagtgcccgagcctcagga	9	7	12	13	2	3	1	2	0	1	1	3	4	3	2	3	2	3	2	3	2	0	1	rs145948712		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:37617398C>T	uc002yvg.2	+	19	3199	c.3120C>T	c.(3118-3120)TGC>TGT	p.C1040C	DOPEY2_uc011aeb.1_Silent_p.C989C|DOPEY2_uc002yvh.2_5'UTR	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	1040					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						GAGAGGCATGCGCAGTGCCCG	0.512													3	23					0	0	0.004672	0	0		T	37617398	T	T	37617398	2	4	61	1	0	0	0	0	0	0	0	1	4714	776	27	1		1	DOPEY2	21	37617398	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2694233	37617398	10512497	841	42847											
HLCS	3141	broad.mit.edu	37	chr21	38269298	38269298	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctccatgttggtcaccacaGgtatacaagatggggttatt	10	12	10	9	0	1	1	1	0	0	1	2	1	2	1	3	4	1	3	3	4	4	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:38269298G>T	uc010gnb.2	-	6	2514	c.1313C>A	c.(1312-1314)CCT>CAT	p.P438H	HLCS_uc002yvs.2_Missense_Mutation_p.P438H	NM_000411	NP_000402	P50747	BPL1_HUMAN	holocarboxylase synthetase	438					cell proliferation|histone biotinylation|response to biotin	chromatin|cytosol|mitochondrion|nuclear lamina|nuclear matrix	ATP binding|biotin binding|biotin-[acetyl-CoA-carboxylase] ligase activity|biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity|biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity|biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity|enzyme binding			ovary(2)|breast(1)|kidney(1)|liver(1)	5		Myeloproliferative disorder(46;0.0422)			Biotin(DB00121)	GGTCACCACAGGTATACAAGA	0.423													17	98					6.94344e-10	7.70766e-10	0.006122	1	0		T	38269298	T	T	38269298	3	4	61	1	0	0	0	0	1	0	0	0	7229	1000	35	5	891	5	HLCS	21	38269298	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	651900	38269298	9860597	842	42848											
DSCAM	1826	broad.mit.edu	37	chr21	41385265	41385265	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgcctggaccacctcggTttaacaaaaagtccattcta	11	11	8	11	1	1	0	0	0	1	0	3	1	2	1	4	3	2	1	4	3	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:41385265T>C	uc002yyq.1	-	33	6187	c.5735A>G	c.(5734-5736)AAC>AGC	p.N1912S	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1912	Cytoplasmic (Potential).			HRPGDLIHLPPYLRMDFLLNRGGPGTSRDLSLGQACLEPQK SRTLKRPTVLEPIPMEAASSASSTREGQSWQPGAVATLPQR EGAELGQAAKMSSSQESLLDSRGHLKGNNPYAKSYTLV -> IGQVTSYICLHTLEWTFC (in Ref. 1; AAC17966).	cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				ACCACCTCGGTTTAACAAAAA	0.517													5	45					0	0	0.001168	0	0		C	41385265	C	C	41385265	3	2	61	1	0	0	0	0	1	0	0	0	4774	1725	60	3	307	3	DSCAM	21	41385265	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	3115967	41385265	6744630	843	42849											
U2AF1	7307	broad.mit.edu	37	chr21	44515560	44515560	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcctaccttgacgtacacGttccccaccaggtggtctcc	6	10	8	17	2	1	1	0	1	1	0	4	1	3	1	6	2	2	3	6	2	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:44515560G>A	uc002zda.1	-	5	420	c.336C>T	c.(334-336)AAC>AAT	p.N112N	U2AF1_uc002zcy.1_Silent_p.N39N|U2AF1_uc002zcz.1_Silent_p.N39N|U2AF1_uc002zdb.1_Silent_p.N112N|U2AF1_uc010gpi.1_Silent_p.N112N	NM_001025203	NP_001020374	Q01081	U2AF1_HUMAN	U2 small nuclear RNA auxillary factor 1 isoform	112	RRM.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	Cajal body|catalytic step 2 spliceosome|nuclear speck	nucleotide binding|RNA binding|zinc ion binding				0						TGACGTACACGTTCCCCACCA	0.587													18	89					0	0	0.006122	0	0		A	44515560	A	A	44515560	2	1	61	1	0	0	0	0	0	0	0	1	16847	1136	40	1		1	U2AF1	21	44515560	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3130295	44515560	3614335	844	42850											
PWP2	5822	broad.mit.edu	37	chr21	45546795	45546795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccaggtgacatgagttctCggcacttcaaacctgagatc	10	9	9	13	1	2	3	1	3	1	1	4	4	2	3	3	2	1	2	3	2	1	2	rs138442552		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:45546795C>T	uc002zeb.2	+	17	2179	c.2089C>T	c.(2089-2091)CGG>TGG	p.R697W		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	697						cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		CATGAGTTCTCGGCACTTCAA	0.567													26	110					0	0	0.00632	0	0		T	45546795	T	T	45546795	3	4	61	1	0	0	0	0	1	0	0	0	12869	875	31	1	2155	1	PWP2	21	45546795	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1031235	45546795	2583100	845	42851											
ITGB2	3689	broad.mit.edu	37	chr21	46308785	46308785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcccaaaggggcccttttCgaacttcaggcactcggcgc	7	9	10	15	3	1	0	1	0	0	0	4	1	2	0	2	4	1	1	2	4	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:46308785C>T	uc002zgd.2	-	13	1947	c.1903G>A	c.(1903-1905)GAA>AAA	p.E635K	ITGB2_uc002zge.2_Missense_Mutation_p.E635K|ITGB2_uc002zgf.3_Missense_Mutation_p.E635K|ITGB2_uc011afl.1_Missense_Mutation_p.E557K|ITGB2_uc010gpw.2_Missense_Mutation_p.E578K|ITGB2_uc002zgg.2_Missense_Mutation_p.E635K	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	635	Extracellular (Potential).				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	GGGCCCTTTTCGAACTTCAGG	0.672													9	26					0	0	0.008291	0	0		T	46308785	T	T	46308785	3	4	61	1	0	0	0	0	1	0	0	0	7910	893	31	1	418	1	ITGB2	21	46308785	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	761990	46308785	1821110	846	42852											
GAB4	128954	broad.mit.edu	37	chr22	17488876	17488876	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgacttcctcagccagccGctgtacagcacgtggccact	7	7	11	16	3	1	0	1	0	0	0	2	1	2	0	4	2	4	3	4	2	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:17488876G>A	uc002zlw.2	-	1	237	c.129C>T	c.(127-129)AGC>AGT	p.S43S	GAB4_uc010gqs.1_Silent_p.S43S	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	43	PH.									large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				TCAGCCAGCCGCTGTACAGCA	0.677													3	9					0	0	0.004672	0	0		A	17488876	A	A	17488876	2	1	61	1	0	0	0	0	0	0	0	1	6165	1078	38	1		1	GAB4	22	17488876	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08		17488876	33815690	847	42853											
IL17RA	23765	broad.mit.edu	37	chr22	17590340	17590340	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacctccttccagaggacgTgagggagcacctcgaaggct	9	7	13	12	2	0	3	0	2	0	1	3	6	2	5	4	3	1	2	4	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:17590340T>C	uc002zly.2	+	13	2364	c.2231T>C	c.(2230-2232)GTG>GCG	p.V744A	IL17RA_uc010gqt.2_Missense_Mutation_p.V692A	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	744	Cytoplasmic (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		CCAGAGGACGTGAGGGAGCAC	0.652													4	27					0	0	0.009096	0	0		C	17590340	C	C	17590340	3	2	61	1	0	0	0	0	1	0	0	0	7655	1696	59	3	2281	3	IL17RA	22	17590340	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	101464	17590340	33714226	848	42854											
PPIL2	23759	broad.mit.edu	37	chr22	22024875	22024875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctcccacaaacaaattttCgtcgtttaccttttgaccac	11	14	3	13	2	1	1	0	1	1	0	4	1	1	1	3	0	2	1	3	0	3	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:22024875C>T	uc010gtj.1	+	3	219	c.103C>T	c.(103-105)CGT>TGT	p.R35C	PPIL2_uc002zvh.3_Missense_Mutation_p.R35C|PPIL2_uc002zvi.3_Missense_Mutation_p.R35C|PPIL2_uc002zvg.3_Missense_Mutation_p.R35C|PPIL2_uc011aij.1_Missense_Mutation_p.R35C	NM_148175	NP_680480	Q13356	PPIL2_HUMAN	peptidylprolyl isomerase-like 2 isoform a	35					blood coagulation|leukocyte migration|protein folding|protein polyubiquitination	Golgi lumen|nucleus|ubiquitin ligase complex	peptidyl-prolyl cis-trans isomerase activity|ubiquitin-ubiquitin ligase activity			ovary(2)	2	Colorectal(54;0.105)					AACAAATTTTCGTCGTTTACC	0.368													17	76					0	0	0.00499	0	0		T	22024875	T	T	22024875	3	4	61	1	0	0	0	0	1	0	0	0	12349	884	31	1	113	1	PPIL2	22	22024875	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4434535	22024875	29279691	849	42855											
PRAME	23532	broad.mit.edu	37	chr22	22892556	22892556	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggcaccttccttgaggAacaggtctacgagcacctct	10	8	9	14	1	2	1	0	1	2	0	3	3	3	2	3	3	3	2	3	3	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:22892556A>G	uc002zwf.2	-	4	701	c.545T>C	c.(544-546)TTC>TCC	p.F182S	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Missense_Mutation_p.F166S|PRAME_uc010gtr.2_Missense_Mutation_p.F182S|PRAME_uc002zwg.2_Missense_Mutation_p.F182S|PRAME_uc002zwh.2_Missense_Mutation_p.F182S|PRAME_uc002zwi.2_Missense_Mutation_p.F182S|PRAME_uc002zwj.2_Missense_Mutation_p.F182S|PRAME_uc002zwk.2_Missense_Mutation_p.F182S	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	182					apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		TTCCTTGAGGAACAGGTCTAC	0.473													16	89					0	0	0.006122	0	0		G	22892556	G	G	22892556	3	3	61	1	0	0	0	0	1	0	0	0	12446	246	9	3	992	3	PRAME	22	22892556	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	867681	22892556	28412010	850	42856											
GGT1	2678	broad.mit.edu	37	chr22	25010758	25010758	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagggatgcactgcgggaCggtggctctgcggtggatgc	5	7	20	9	3	1	0	0	0	1	0	1	3	1	3	0	7	4	3	0	7	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:25010758C>T	uc003aan.1	+	6	667	c.180C>T	c.(178-180)GAC>GAT	p.D60D	GGT1_uc003aas.1_Silent_p.D60D|GGT1_uc003aat.1_Silent_p.D60D|GGT1_uc003aau.1_Silent_p.D60D|GGT1_uc003aav.1_Silent_p.D60D|GGT1_uc003aaw.1_Silent_p.D60D|GGT1_uc003aax.1_Silent_p.D60D	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor	60	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	CACTGCGGGACGGTGGCTCTG	0.622													7	49					0	0	0.001984	0	0		T	25010758	T	T	25010758	2	4	61	1	0	0	0	0	0	0	0	1	6376	535	19	1		1	GGT1	22	25010758	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2118202	25010758	26293808	851	42857											
MN1	4330	broad.mit.edu	37	chr22	28195359	28195359	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctccgtcctgcaggccGccgctgggcgtgcccgcctc	1	6	15	19	5	0	0	0	0	0	0	3	0	2	0	7	3	2	2	7	3	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:28195359G>A	uc003adj.2	-	1	2128	c.1173C>T	c.(1171-1173)GGC>GGT	p.G391G		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	391							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						CCTGCAGGCCGCCGCTGGGCG	0.612			T	ETV6	AML|meningioma								4	8					0	0	0.009096	0	0		A	28195359	A	A	28195359	2	1	61	1	0	0	0	0	0	0	0	1	9691	1074	38	1		1	MN1	22	28195359	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	3184601	28195359	23109207	852	42858											
PES1	23481	broad.mit.edu	37	chr22	30977552	30977552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgagcaactggtaaaggCggaagttgacaaagcccagc	13	6	14	8	1	0	2	0	2	0	0	0	3	0	3	1	4	4	4	1	4	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:30977552C>T	uc003aij.1	-	7	784	c.710G>A	c.(709-711)CGC>CAC	p.R237H	PES1_uc003aik.1_Missense_Mutation_p.R237H|PES1_uc003ail.1_Missense_Mutation_p.R220H|PES1_uc003aim.1_Missense_Mutation_p.R237H|PES1_uc003ain.1_Missense_Mutation_p.R98H|PES1_uc003aio.1_Missense_Mutation_p.R98H	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain	237	Sufficient for nucleolar localization.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						CTGGTAAAGGCGGAAGTTGAC	0.597													7	19					0	0	0.001984	0	0		T	30977552	T	T	30977552	3	4	61	1	0	0	0	0	1	0	0	0	11752	768	27	1	1092	1	PES1	22	30977552	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2782193	30977552	20327014	853	42859											
INPP5J	27124	broad.mit.edu	37	chr22	31522407	31522407	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactgccatgcccccagaCgatgtcacatccctcctcca	8	7	7	19	1	1	1	1	0	0	1	4	2	4	1	6	1	2	1	6	1	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:31522407C>T	uc003aju.3	+	3	1409	c.1317C>T	c.(1315-1317)GAC>GAT	p.D439D	INPP5J_uc010gwf.2_Silent_p.D439D|INPP5J_uc003ajv.3_Silent_p.D72D|INPP5J_uc003ajs.3_Silent_p.D72D|INPP5J_uc011alk.1_Silent_p.D372D|INPP5J_uc010gwg.2_Silent_p.D4D|INPP5J_uc003ajw.2_Translation_Start_Site|INPP5J_uc003ajt.3_Silent_p.D71D|INPP5J_uc003ajx.2_5'Flank|INPP5J_uc003ajy.2_5'Flank|INPP5J_uc003ajz.2_5'Flank	NM_001002837	NP_001002837	Q15735	PI5PA_HUMAN	phosphatidylinositol (4,5) bisphosphate	439	Catalytic (Potential).					cytoplasm|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|SH3 domain binding			skin(1)	1						TGCCCCCAGACGATGTCACAT	0.632													21	121					0	0	0.014323	0	0		T	31522407	T	T	31522407	2	4	61	1	0	0	0	0	0	0	0	1	7775	535	19	1		1	INPP5J	22	31522407	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	544855	31522407	19782159	854	42860											
DEPDC5	9681	broad.mit.edu	37	chr22	32210985	32210985	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttgcctggcagatctgtgCgagagcgagagagtcacagt	9	9	14	9	2	3	3	1	0	2	3	3	6	3	3	1	1	3	1	1	1	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:32210985C>T	uc003als.2	+	21	1595	c.1453C>T	c.(1453-1455)CGA>TGA	p.R485*	DEPDC5_uc011als.1_Nonsense_Mutation_p.R485*|DEPDC5_uc011alu.1_Nonsense_Mutation_p.R485*|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Nonsense_Mutation_p.R485*|DEPDC5_uc003alr.1_Nonsense_Mutation_p.R485*|DEPDC5_uc011alt.1_Nonsense_Mutation_p.R457*	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	485					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						CAGATCTGTGCGAGAGCGAGA	0.527													14	53					0	0	0.00245	0	0		T	32210985	T	T	32210985	4	4	61	1	0	0	0	0	0	1	0	0	4448	760	27	1	1531	1	DEPDC5	22	32210985	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	688578	32210985	19093581	855	42861											
HMGXB4	10042	broad.mit.edu	37	chr22	35660704	35660704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcccacagtctactgataCagctatggacctgttgaaag	12	9	9	11	0	1	2	0	2	1	0	1	3	1	3	2	1	4	2	2	1	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:35660704C>T	uc003anl.2	+	5	497	c.323C>T	c.(322-324)ACA>ATA	p.T108I	HMGXB4_uc011amh.1_5'UTR|HMGXB4_uc003ank.2_5'UTR	NM_001003681	NP_001003681	Q9UGU5	HMGX4_HUMAN	high-mobility group protein 2-like 1	108					endosome to lysosome transport|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	NURF complex	DNA binding			breast(1)|skin(1)	2						TCTACTGATACAGCTATGGAC	0.448													9	125					0	0	0.006214	0	0		T	35660704	T	T	35660704	3	4	61	1	0	0	0	0	1	0	0	0	7255	478	17	4	337	4	HMGXB4	22	35660704	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3449719	35660704	15643862	856	42862											
APOL2	23780	broad.mit.edu	37	chr22	36624092	36624092	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggatgccagaggtagtGccaacagagttggacaccac	12	6	13	10	0	1	2	1	0	0	2	1	4	1	4	3	3	3	2	3	3	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:36624092G>A	uc003aoz.2	-	5	708	c.372C>T	c.(370-372)GGC>GGT	p.G124G	APOL2_uc011amm.1_Silent_p.G236G|APOL2_uc003apa.2_Silent_p.G124G	NM_030882	NP_112092	Q9BQE5	APOL2_HUMAN	apolipoprotein L2	124					acute-phase response|cholesterol metabolic process|lipid transport|lipoprotein metabolic process|maternal process involved in female pregnancy|multicellular organismal development	endoplasmic reticulum membrane|extracellular region	high-density lipoprotein particle binding|lipid binding|receptor binding				0						CAGAGGTAGTGCCAACAGAGT	0.567													11	53					0	0	0.008291	0	0		A	36624092	A	A	36624092	2	1	61	1	0	0	0	0	0	0	0	1	806	1306	46	2		2	APOL2	22	36624092	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	963388	36624092	14680474	857	42863											
ELFN2	114794	broad.mit.edu	37	chr22	37771205	37771205	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcaggcggctcatgcctcGcagcatgccctccgtcaggt	5	8	12	16	3	2	0	2	0	0	0	4	0	3	0	3	3	4	4	3	3	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:37771205G>A	uc003asq.3	-	3	1156	c.370C>T	c.(370-372)CGA>TGA	p.R124*		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	124	LRR 3.|Extracellular (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					CTCATGCCTCGCAGCATGCCC	0.622													8	67					0	0	0.004482	0	0		A	37771205	A	A	37771205	4	1	61	1	0	0	0	0	0	1	0	0	5066	1095	38	1	2096	1	ELFN2	22	37771205	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1147113	37771205	13533361	858	42864											
KCNJ4	3761	broad.mit.edu	37	chr22	38823343	38823343	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaagcgggctgtcctcgtcGatctcgtggacaatgatgat	9	11	12	9	4	1	2	0	2	1	0	5	4	2	3	1	2	1	1	1	2	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:38823343G>A	uc003avs.1	-	2	892	c.795C>T	c.(793-795)ATC>ATT	p.I265I	KCNJ4_uc003avt.1_Silent_p.I265I	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	265	Cytoplasmic (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					TGTCCTCGTCGATCTCGTGGA	0.617													7	40					0	0	0.00308	0	0		A	38823343	A	A	38823343	2	1	61	1	0	0	0	0	0	0	0	1	8069	1048	37	1		1	KCNJ4	22	38823343	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1052138	38823343	12481223	859	42865											
APOBEC3B	9582	broad.mit.edu	37	chr22	39388072	39388072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggacacctttgtgtaccGccagggatgtcccttccagc	6	10	11	14	1	0	0	0	0	0	0	2	2	2	2	5	2	2	1	5	2	1	3	rs1053813	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:39388072G>A	uc003awo.1	+	7	1106	c.1052G>A	c.(1051-1053)CGC>CAC	p.R351H	APOBEC3A_uc011aoc.1_Intron|APOBEC3B_uc003awp.1_Missense_Mutation_p.R326H|APOBEC3B_uc003awq.1_RNA|APOBEC3D_uc011aod.1_Intron|APOBEC3D_uc011aoe.1_Intron|APOBEC3D_uc011aof.1_Intron	NM_004900	NP_004891	Q9UH17	ABC3B_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	351					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(58;0.04)					TTTGTGTACCGCCAGGGATGT	0.612													5	22					0	0	0.001168	0	0		A	39388072	A	A	39388072	3	1	61	1	0	0	0	0	1	0	0	0	790	1087	38	1	1078	1	APOBEC3B	22	39388072	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	564729	39388072	11916494	860	42866											
ST13	6767	broad.mit.edu	37	chr22	41222545	41222545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatttatcagaaggacattaCgcttgacctccaaatttggc	12	13	7	9	1	1	2	1	1	0	1	2	3	2	3	2	2	1	1	2	2	5	6	rs12373984		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:41222545C>T	uc003aze.2	-	12	1250	c.1107G>A	c.(1105-1107)GCG>GCA	p.A369A	ST13_uc011aow.1_Silent_p.A359A	NM_003932	NP_003923	P50502	F10A1_HUMAN	heat shock 70kD protein binding protein	369							protein binding, bridging				0						AAGGACATTACGCTTGACCTC	0.413													24	129					0	0	0.007291	0	0		T	41222545	T	T	41222545	2	4	61	1	0	0	0	0	0	0	0	1	15235	523	19	1		1	ST13	22	41222545	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1834473	41222545	10082021	861	42867											
TEF	7008	broad.mit.edu	37	chr22	41790186	41790186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacttcaatccggaccccGccgacctggtgctctccagt	7	9	9	16	3	2	1	1	1	1	0	4	3	3	2	6	2	2	1	6	2	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:41790186G>A	uc003azy.2	+	3	648	c.562G>A	c.(562-564)GCC>ACC	p.A188T	TEF_uc003azx.2_Missense_Mutation_p.A158T|TEF_uc011apa.1_Missense_Mutation_p.A193T	NM_003216	NP_003207	Q10587	TEF_HUMAN	thyrotrophic embryonic factor isoform 1	188	Pro-rich (proline/acidic region (PAR)).				rhythmic process	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TCCGGACCCCGCCGACCTGGT	0.552													16	79					0	0	0.004007	0	0		A	41790186	A	A	41790186	3	1	61	1	0	0	0	0	1	0	0	0	15775	1087	38	1	643	1	TEF	22	41790186	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	567641	41790186	9514380	862	42868											
TOB2	10766	broad.mit.edu	37	chr22	41833202	41833202	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggaagccagagcctttcaGtggcttctcagggtaccagt	8	9	13	11	1	2	1	2	0	1	1	3	2	2	2	3	3	3	2	3	3	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:41833202G>A	uc003azz.1	-	2	855	c.148C>T	c.(148-150)CTG>TTG	p.L50L		NM_016272	NP_057356	Q14106	TOB2_HUMAN	transducer of ERBB2, 2	50					female gamete generation|negative regulation of cell proliferation	cytoplasm|nucleus				ovary(1)	1						GAGCCTTTCAGTGGCTTCTCA	0.602													6	36					0	0	0.001984	0	0		A	41833202	A	A	41833202	2	1	61	1	0	0	0	0	0	0	0	1	16373	1020	36	4		4	TOB2	22	41833202	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	43016	41833202	9471364	863	42869											
MCAT	27349	broad.mit.edu	37	chr22	43529111	43529111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgcagcacatccacggCgctgtaggacttccaggcct	7	8	12	14	2	1	0	0	0	1	0	3	1	3	1	3	4	2	4	3	4	1	2	rs143026395		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:43529111C>T	uc003bdl.1	-	4	1160	c.1111G>A	c.(1111-1113)GCC>ACC	p.A371T	MCAT_uc003bdm.1_3'UTR	NM_173467	NP_775738	Q8IVS2	FABD_HUMAN	mitochondrial malonyltransferase isoform a	371					fatty acid biosynthetic process	mitochondrion	[acyl-carrier-protein] S-malonyltransferase activity|binding			ovary(1)	1		Ovarian(80;0.0694)				ACATCCACGGCGCTGTAGGAC	0.612													31	100					0	0	0.010818	0	0		T	43529111	T	T	43529111	3	4	61	1	0	0	0	0	1	0	0	0	9390	768	27	1	65	1	MCAT	22	43529111	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1695909	43529111	7775455	864	42870											
SCUBE1	80274	broad.mit.edu	37	chr22	43619155	43619155	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagcagctctccacaccGcctgccttgctgcaggacag	9	6	11	15	1	1	0	0	0	1	0	2	2	1	2	4	2	5	4	4	2	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:43619155G>A	uc003bdt.1	-	11	1363	c.1275C>T	c.(1273-1275)GGC>GGT	p.G425G		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	425					adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				TCTCCACACCGCCTGCCTTGC	0.627													27	116					0	0	0.007291	0	0		A	43619155	A	A	43619155	2	1	61	1	0	0	0	0	0	0	0	1	13969	1074	38	1		1	SCUBE1	22	43619155	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	90044	43619155	7685411	865	42871											
EFCAB6	64800	broad.mit.edu	37	chr22	44031028	44031028	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagctcatcccttccttctcGaagcctattttagtggtcag	7	15	7	12	1	3	0	2	0	1	0	6	1	5	0	3	1	2	1	3	1	4	6			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:44031028G>A	uc003bdy.1	-	18	2267	c.2052C>T	c.(2050-2052)TTC>TTT	p.F684F	EFCAB6_uc003bdz.1_Silent_p.F532F|EFCAB6_uc010gzi.1_Silent_p.F532F|EFCAB6_uc010gzj.1_Intron|EFCAB6_uc010gzk.1_Intron	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	684					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CTTCCTTCTCGAAGCCTATTT	0.537													4	51					0	0	0.000602	0	0		A	44031028	A	A	44031028	2	1	61	1	0	0	0	0	0	0	0	1	4945	1049	37	1		1	EFCAB6	22	44031028	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	411873	44031028	7273538	866	42872											
SAMM50	25813	broad.mit.edu	37	chr22	44368144	44368144	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacttccaaatgggttagaCgttacctttgaagtaactga	12	12	9	8	1	0	3	0	2	0	1	1	3	1	3	2	1	2	4	2	1	5	5	rs142640319		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:44368144C>T	uc003bej.2	+	5	548	c.351C>T	c.(349-351)GAC>GAT	p.D117D	SAMM50_uc011aqd.1_Intron|SAMM50_uc003bek.2_5'Flank	NM_015380	NP_056195	Q9Y512	SAM50_HUMAN	sorting and assembly machinery component 50	117					protein import into mitochondrial outer membrane	integral to membrane|integral to membrane of membrane fraction|mitochondrial sorting and assembly machinery complex	protein binding			skin(1)	1		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				ATGGGTTAGACGTTACCTTTG	0.363													9	43					0	0	0.006214	0	0		T	44368144	T	T	44368144	2	4	61	1	0	0	0	0	0	0	0	1	13854	535	19	1		1	SAMM50	22	44368144	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	337116	44368144	6936422	867	42873											
GRAMD4	23151	broad.mit.edu	37	chr22	47033823	47033823	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgaatgagatcaaaggtcaCctggaaattgccttattgga	13	11	10	7	0	2	2	2	2	0	1	2	5	2	4	2	3	1	0	2	3	4	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:47033823C>A	uc003bhx.2	+	2	288	c.249C>A	c.(247-249)CAC>CAA	p.H83Q	GRAMD4_uc010had.2_Missense_Mutation_p.H22Q	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	83	Potential.				apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		TCAAAGGTCACCTGGAAATTG	0.502													16	93					3.45872e-05	3.69232e-05	0.004007	1	0		A	47033823	A	A	47033823	3	1	61	1	0	0	0	0	1	0	0	0	6768	506	18	5	255	5	GRAMD4	22	47033823	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2665679	47033823	4270743	868	42874											
CRELD2	79174	broad.mit.edu	37	chr22	50318101	50318101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagggagcacggacagtgtgCaggtcagtgacggggtctgt	8	7	19	7	2	2	1	1	1	1	0	2	4	2	3	0	5	2	2	0	5	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:50318101C>T	uc003bja.2	+	8	1001	c.866C>T	c.(865-867)GCA>GTA	p.A289V	CRELD2_uc010haj.2_Missense_Mutation_p.A289V|CRELD2_uc010hal.2_Missense_Mutation_p.A338V|CRELD2_uc010hak.2_Missense_Mutation_p.A261V|CRELD2_uc010ham.2_Intron	NM_024324	NP_077300	Q6UXH1	CREL2_HUMAN	cysteine-rich with EGF-like domains 2 isoform b	289	FU 2.					endoplasmic reticulum|extracellular region	calcium ion binding				0		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.198)|LUAD - Lung adenocarcinoma(64;0.247)		GGACAGTGTGCAGGTCAGTGA	0.592													3	11					0	0	0.004672	0	0		T	50318101	T	T	50318101	3	4	61	1	0	0	0	0	1	0	0	0	3870	710	25	2	1047	2	CRELD2	22	50318101	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3284278	50318101	986465	869	42875											
TRABD	80305	broad.mit.edu	37	chr22	50635771	50635771	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcgagttcagggaggcCttcaaggaggtgggcacagg	8	6	20	7	1	2	0	2	0	0	0	2	3	2	2	1	8	0	2	1	8	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:50635771C>A	uc003bjq.1	+	6	608	c.522C>A	c.(520-522)GCC>GCA	p.A174A	TRABD_uc003bjr.1_Silent_p.A58A|TRABD_uc003bjs.1_Silent_p.A174A|TRABD_uc003bjt.1_Silent_p.A174A|TRABD_uc003bju.1_Silent_p.A174A|TRABD_uc003bjv.2_Silent_p.A174A|TRABD_uc003bjw.1_Silent_p.A174A	NM_025204	NP_079480	Q9H4I3	TRABD_HUMAN	TraB domain containing	174											0		all_cancers(38;1.07e-07)|all_epithelial(38;9.6e-07)|all_lung(38;0.00141)|Breast(42;0.00387)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		LUAD - Lung adenocarcinoma(64;0.105)		TCAGGGAGGCCTTCAAGGAGG	0.652													12	55					1.08611e-07	1.18576e-07	0.010729	1	0		A	50635771	A	A	50635771	2	1	61	1	0	0	0	0	0	0	0	1	16461	668	24	5		5	TRABD	22	50635771	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	317670	50635771	668795	870	42876											
SBF1	6305	broad.mit.edu	37	chr22	50892961	50892961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagcaggcgtgagatggCgtcaggctgggcccgcgggc	5	5	18	13	4	1	1	1	1	0	1	2	2	2	1	2	5	1	2	2	5	0	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:50892961C>T	uc003blh.2	-	36	5218	c.5023G>A	c.(5023-5025)GCC>ACC	p.A1675T	SBF1_uc003ble.2_Missense_Mutation_p.A139T|SBF1_uc003blf.2_Missense_Mutation_p.A151T|SBF1_uc011arx.1_Missense_Mutation_p.A1313T	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1649					protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		CGTGAGATGGCGTCAGGCTGG	0.672													12	52					0	0	0.001855	0	0		T	50892961	T	T	50892961	3	4	61	1	0	0	0	0	1	0	0	0	13883	768	27	1	682	1	SBF1	22	50892961	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	257190	50892961	411605	871	42877											
SHANK3	85358	broad.mit.edu	37	chr22	51160524	51160524	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcccaagctcaagtccccGctggggaaggggccggtgac	9	4	15	13	2	1	1	1	1	0	0	2	2	2	2	4	5	2	2	4	5	4	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:51160524G>A	uc003bne.1	+	22	4311	c.4311G>A	c.(4309-4311)CCG>CCA	p.P1437P	SHANK3_uc003bnf.1_Silent_p.P884P|SHANK3_uc010hbg.1_Silent_p.P619P	NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	1437										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		TCAAGTCCCCGCTGGGGAAGG	0.652													6	22					0	0	0.001168	0	0		A	51160524	A	A	51160524	2	1	61	1	0	0	0	0	0	0	0	1	14291	1074	38	1		1	SHANK3	22	51160524	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	267563	51160524	144042	872	42878											
P2RY8	286530	broad.mit.edu	37	chrX	1584880	1584880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agatggtgaagaggaacacgGcccacatggccacgctgggg	11	4	16	10	2	0	3	0	1	0	2	0	4	0	4	2	6	1	1	2	6	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:1584880G>A	uc004cpz.2	-	2	820	c.572C>T	c.(571-573)GCC>GTC	p.A191V		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	191	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GAGGAACACGGCCCACATGGC	0.612			T	CRLF2	B-ALL|Downs associated ALL								5	35					0	0	0.000602	0	0		A	1584880	A	A	1584880	3	1	61	1	0	0	0	0	1	0	0	0	11374	1203	42	2	511	2	P2RY8	23	1584880	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08		1584880	153685680	873	42879											
NLGN4X	57502	broad.mit.edu	37	chrX	5821701	5821701	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgtcgatcaccggcccgaAggctatgtggtaggtggccg	6	7	16	12	5	1	0	1	0	0	0	2	2	1	0	4	5	0	2	4	5	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:5821701A>T	uc010ndh.2	-	5	1519	c.1018T>A	c.(1018-1020)TTC>ATC	p.F340I	NLGN4X_uc004crp.2_Missense_Mutation_p.F360I|NLGN4X_uc004crq.2_Missense_Mutation_p.F340I|NLGN4X_uc010ndi.2_Missense_Mutation_p.F377I|NLGN4X_uc004crr.2_Missense_Mutation_p.F340I|NLGN4X_uc010ndj.2_Missense_Mutation_p.F340I	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	340	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						ACCGGCCCGAAGGCTATGTGG	0.582													8	80					0	0	0.00308	0	0		T	5821701	T	T	5821701	3	4	61	1	0	0	0	0	1	0	0	0	10483	72	3	5	1440	5	NLGN4X	23	5821701	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	4236821	5821701	149448859	874	42880											
WWC3	55841	broad.mit.edu	37	chrX	10077877	10077877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagtcctggccaagcacggCcgaggctgacagggaccggc	8	4	16	13	3	0	2	0	2	0	0	1	4	1	3	4	5	1	2	4	5	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:10077877C>T	uc004csx.3	+	9	989	c.791C>T	c.(790-792)GCC>GTC	p.A264V	WWC3_uc010nds.2_5'UTR|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	264	Potential.									ovary(4)	4						CCAAGCACGGCCGAGGCTGAC	0.617													18	89					0	0	0.006122	0	0		T	10077877	T	T	10077877	3	4	61	1	0	0	0	0	1	0	0	0	17439	739	26	2	821	2	WWC3	23	10077877	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4256176	10077877	145192683	875	42881											
TLR8	51311	broad.mit.edu	37	chrX	12939421	12939421	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaaaacaatcaacaaatcCgcacttgaaactaagaccac	20	6	3	12	1	1	2	1	1	0	1	2	2	2	2	2	0	3	1	2	0	8	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:12939421C>T	uc004cve.2	+	2	2330	c.2262C>T	c.(2260-2262)TCC>TCT	p.S754S	TLR8_uc004cvd.2_Silent_p.S772S	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	754	LRR 23.|Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						TCAACAAATCCGCACTTGAAA	0.423													28	93					0	0	0.005443	0	0		T	12939421	T	T	12939421	2	4	61	1	0	0	0	0	0	0	0	1	15982	639	23	1		1	TLR8	23	12939421	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2861544	12939421	142331139	876	42882											
GRPR	2925	broad.mit.edu	37	chrX	16142438	16142438	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgatcccctttatacagcTtacctctgttggggtgtctg	6	15	9	11	0	2	1	0	1	2	0	3	1	3	1	3	2	3	2	3	2	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:16142438T>C	uc004cxj.2	+	1	1015	c.362T>C	c.(361-363)CTT>CCT	p.L121P		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	121	Helical; Name=3; (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					TTTATACAGCTTACCTCTGTT	0.527											OREG0019682	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	89					0	0	0.00278	0	0		C	16142438	C	C	16142438	3	2	61	1	0	0	0	0	1	0	0	0	6824	1609	56	3	364	3	GRPR	23	16142438	Missense_Mutation	SNP	T	TCGA-BR-8081-01A-11D-2340-08	3203017	16142438	139128122	877	42883											
CTPS2	56474	broad.mit.edu	37	chrX	16717193	16717193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctaaatcaacttctccacCatcatttaagacgaagactt	14	12	4	11	1	4	2	2	0	2	2	5	3	4	2	2	0	1	0	2	0	5	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:16717193C>T	uc004cxk.2	-	3	934	c.190G>A	c.(190-192)GGT>AGT	p.G64S	CTPS2_uc004cxl.2_Missense_Mutation_p.G64S|CTPS2_uc004cxm.2_Missense_Mutation_p.G64S	NM_001144002	NP_001137474	Q9NRF8	PYRG2_HUMAN	cytidine triphosphate synthase II	64					glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine nucleotide biosynthetic process	cytosol	ATP binding|CTP synthase activity			ovary(1)	1	Hepatocellular(33;0.0997)					ACTTCTCCACCATCATTTAAG	0.313													20	126					0	0	0.008871	0	0		T	16717193	T	T	16717193	3	4	61	1	0	0	0	0	1	0	0	0	4026	594	21	4	1634	4	CTPS2	23	16717193	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	574755	16717193	138553367	878	42884											
SYAP1	94056	broad.mit.edu	37	chrX	16778386	16778386	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattgggaaaaagaactgcaGcaggaacttcaagaatatga	18	7	11	5	0	1	3	1	1	0	2	1	6	1	5	0	2	4	2	0	2	7	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:16778386G>T	uc004cxp.2	+	9	1056	c.963G>T	c.(961-963)CAG>CAT	p.Q321H	SYAP1_uc004cxo.2_Missense_Mutation_p.A321S|SYAP1_uc011miv.1_Missense_Mutation_p.Q287H	NM_032796	NP_116185	Q96A49	SYAP1_HUMAN	SYAP1 protein	321										skin(1)	1	Hepatocellular(33;0.0997)					AAGAACTGCAGCAGGAACTTC	0.373													25	108					1.10923e-09	1.22618e-09	0.00278	1	0		T	16778386	T	T	16778386	3	4	61	1	0	0	0	0	1	0	0	0	15451	962	34	5	997	5	SYAP1	23	16778386	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	61193	16778386	138492174	879	42885											
SH3KBP1	30011	broad.mit.edu	37	chrX	19610206	19610206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttttcttctgttctgtttgGaagcatttctggtctttcag	4	22	8	7	0	6	0	1	0	5	0	6	1	6	1	0	2	1	3	0	2	1	7			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:19610206G>A	uc004czm.2	-	11	1433	c.1117C>T	c.(1117-1119)CCA>TCA	p.P373S	SH3KBP1_uc011mje.1_Missense_Mutation_p.P112S|SH3KBP1_uc011mjf.1_Missense_Mutation_p.P135S|SH3KBP1_uc004czl.2_Missense_Mutation_p.P336S	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	373	Pro-rich.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						GTTCTGTTTGGAAGCATTTCT	0.408													17	73					0	0	0.004007	0	0		A	19610206	A	A	19610206	3	1	61	1	0	0	0	0	1	0	0	0	14280	1174	41	4	912	4	SH3KBP1	23	19610206	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2831820	19610206	135660354	880	42886											
PTCHD1	139411	broad.mit.edu	37	chrX	23397938	23397938	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggcaccagcttgggggCgtcactgtgcacagcaaaga	11	6	14	10	1	1	1	1	0	0	1	1	1	1	1	1	3	3	4	1	3	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:23397938C>T	uc004dal.3	+	2	590	c.582C>T	c.(580-582)GGC>GGT	p.G194G	PTCHD1_uc010nfu.1_Silent_p.G194G	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	194					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						AGCTTGGGGGCGTCACTGTGC	0.527													14	147					0	0	0.003163	0	0		T	23397938	T	T	23397938	2	4	61	1	0	0	0	0	0	0	0	1	12754	755	27	1		1	PTCHD1	23	23397938	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3787732	23397938	131872622	881	42887											
ZFX	7543	broad.mit.edu	37	chrX	24226349	24226349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttagatgttgctgaaatcGctgacgaagtttatatggaa	13	13	10	5	2	0	3	0	2	0	1	1	5	0	4	0	1	1	4	0	1	6	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:24226349G>A	uc004dbf.2	+	7	1213	c.955G>A	c.(955-957)GCT>ACT	p.A319T	ZFX_uc004dbd.1_Missense_Mutation_p.A319T|ZFX_uc010nfx.1_Missense_Mutation_p.A90T|ZFX_uc004dbe.2_Missense_Mutation_p.A319T|ZFX_uc011mjv.1_Missense_Mutation_p.A358T|ZFX_uc010nfy.1_Intron|ZFX_uc010nfz.2_Missense_Mutation_p.A22T	NM_003410	NP_003401	P17010	ZFX_HUMAN	zinc finger protein, X-linked	319					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(2)	2						TGCTGAAATCGCTGACGAAGT	0.438													14	58					0	0	0.001855	0	0		A	24226349	A	A	24226349	3	1	61	1	0	0	0	0	1	0	0	0	17686	1087	38	1	973	1	ZFX	23	24226349	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	828411	24226349	131044211	882	42888											
DCAF8L1	139425	broad.mit.edu	37	chrX	27999217	27999217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccatgctttcaagttcgaCgtcttcacttgaactttctg	8	15	6	12	2	4	1	2	1	2	0	5	2	4	1	1	0	2	2	1	0	2	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:27999217C>T	uc004dbx.1	-	1	350	c.235G>A	c.(235-237)GTC>ATC	p.V79I		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	79	Glu-rich.									ovary(3)|skin(1)	4						TCAAGTTCGACGTCTTCACTT	0.393													17	110					0	0	0.007413	0	0		T	27999217	T	T	27999217	3	4	61	1	0	0	0	0	1	0	0	0	4280	536	19	1	1571	1	DCAF8L1	23	27999217	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3772868	27999217	127271343	883	42889											
DMD	1756	broad.mit.edu	37	chrX	31986498	31986498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgcagacctcctgccacCgcagattcaggcttcccaat	8	10	8	15	1	1	2	1	0	0	2	3	2	3	2	5	1	2	4	5	1	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:31986498C>T	uc004dda.1	-	45	6816	c.6572G>A	c.(6571-6573)CGG>CAG	p.R2191Q	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Missense_Mutation_p.R847Q|DMD_uc004dcx.2_Missense_Mutation_p.R850Q|DMD_uc004dcz.2_Missense_Mutation_p.R2068Q|DMD_uc004dcy.1_Missense_Mutation_p.R2187Q|DMD_uc004ddb.1_Missense_Mutation_p.R2183Q|DMD_uc010ngo.1_Missense_Mutation_p.R100Q|DMD_uc010ngn.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2191	Spectrin 15.		R -> W.		muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTCCTGCCACCGCAGATTCAG	0.408													21	87					0	0	0.00278	0	0		T	31986498	T	T	31986498	3	4	61	1	0	0	0	0	1	0	0	0	4586	652	23	1	4773	1	DMD	23	31986498	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	3987281	31986498	123284062	884	42890											
DMD	1756	broad.mit.edu	37	chrX	32481587	32481587	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgatcccactgagtgttaAgttctttgagttctgtctca	7	17	9	8	0	3	3	1	3	3	0	5	3	4	3	1	0	0	3	1	0	1	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:32481587A>C	uc004dda.1	-	25	3645	c.3401T>G	c.(3400-3402)CTT>CGT	p.L1134R	DMD_uc004dcz.2_Missense_Mutation_p.L1011R|DMD_uc004dcy.1_Missense_Mutation_p.L1130R|DMD_uc004ddb.1_Missense_Mutation_p.L1126R|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1134	Spectrin 7.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTGAGTGTTAAGTTCTTTGAG	0.433													7	22					0	0	0.00308	0	0		C	32481587	C	C	32481587	3	2	61	1	0	0	0	0	1	0	0	0	4586	72	3	5	8119	5	DMD	23	32481587	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	495089	32481587	122788973	885	42891											
CYBB	1536	broad.mit.edu	37	chrX	37655252	37655252	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccctgttggcaggcatcActggagttgtcatcacgctg	7	11	12	11	1	3	1	3	1	0	0	3	2	3	2	1	3	0	5	1	3	0	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:37655252A>G	uc004ddr.2	+	6	593	c.532A>G	c.(532-534)ACT>GCT	p.T178A	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Missense_Mutation_p.T146A|CYBB_uc011mkg.1_Intron	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	178	Helical; (Potential).|Ferric oxidoreductase.		T -> P (in AMCBX2).		electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						GGCAGGCATCACTGGAGTTGT	0.368													6	74					0	0	0.001984	0	0		G	37655252	G	G	37655252	3	3	61	1	0	0	0	0	1	0	0	0	4136	159	6	3	554	3	CYBB	23	37655252	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	5173665	37655252	117615308	886	42892											
MED14	9282	broad.mit.edu	37	chrX	40522275	40522275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtaactacctgccaggccggGcacaaggcctggagttggag	9	6	15	11	1	0	0	0	0	0	0	0	2	0	2	4	5	3	3	4	5	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:40522275G>A	uc004dex.3	-	26	3726	c.3586C>T	c.(3586-3588)CCC>TCC	p.P1196S	MED14_uc004dey.1_Missense_Mutation_p.P98S	NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	1196					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						GCCAGGCCGGGCACAAGGCCT	0.488													4	23					0	0	0.000602	0	0		A	40522275	A	A	40522275	3	1	61	1	0	0	0	0	1	0	0	0	9450	1203	42	2	802	2	MED14	23	40522275	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2867023	40522275	114748285	887	42893											
ZNF674	641339	broad.mit.edu	37	chrX	46387797	46387797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctcacctgcacaggtccGtaccggggtccctccatctg	5	9	10	17	2	2	0	1	0	1	0	6	0	6	0	6	3	2	2	6	3	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:46387797G>A	uc004dgr.2	-	5	453	c.226C>T	c.(226-228)CGG>TGG	p.R76W	ZNF674_uc011mlg.1_Missense_Mutation_p.R76W|ZNF674_uc010nhm.2_Missense_Mutation_p.R76W	NM_001039891	NP_001034980	Q2M3X9	ZN674_HUMAN	zinc finger family member 674 isoform 1	76	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)	2						GCACAGGTCCGTACCGGGGTC	0.587													17	62					0	0	0.006122	0	0		A	46387797	A	A	46387797	3	1	61	1	0	0	0	0	1	0	0	0	18106	1144	40	1	1527	1	ZNF674	23	46387797	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	5865522	46387797	108882763	888	42894											
TBC1D25	4943	broad.mit.edu	37	chrX	48417659	48417659	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcacacgtacctgaaccaCgagggccagctctcccgacc	9	7	8	17	3	2	1	1	1	1	0	3	3	2	1	5	1	3	2	5	1	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:48417659C>T	uc004dka.1	+	5	741	c.630C>T	c.(628-630)CAC>CAT	p.H210H	TBC1D25_uc011mly.1_Silent_p.H152H|TBC1D25_uc004dkb.1_Translation_Start_Site|TBC1D25_uc011mlz.1_Translation_Start_Site|TBC1D25_uc011mma.1_Translation_Start_Site|TBC1D25_uc004dkc.1_Translation_Start_Site|TBC1D25_uc011mmb.1_Silent_p.H214H|TBC1D25_uc011mmc.1_Translation_Start_Site|TBC1D25_uc011mmd.1_Translation_Start_Site	NM_002536	NP_002527	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	210						intracellular	Rab GTPase activator activity			ovary(1)	1						ACCTGAACCACGAGGGCCAGC	0.582													7	16					0	0	0.00308	0	0		T	48417659	T	T	48417659	2	4	61	1	0	0	0	0	0	0	0	1	15640	535	19	1		1	TBC1D25	23	48417659	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2029862	48417659	106852901	889	42895											
HDAC6	10013	broad.mit.edu	37	chrX	48674553	48674553	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccccactgctagccaccAccctgaggtaccccagcgca	8	7	7	19	1	0	1	0	1	0	0	1	1	1	1	7	1	4	3	7	1	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:48674553A>G	uc011mmi.1	+	18	1594	c.1499A>G	c.(1498-1500)CAC>CGC	p.H500R	HDAC6_uc004dks.1_Missense_Mutation_p.H500R|HDAC6_uc010nig.1_Missense_Mutation_p.H348R|HDAC6_uc004dkt.1_Missense_Mutation_p.H500R|HDAC6_uc011mmk.1_Missense_Mutation_p.H481R|HDAC6_uc004dkv.1_Missense_Mutation_p.H148R|HDAC6_uc004dkw.1_Missense_Mutation_p.H148R	NM_006044	NP_006035	Q9UBN7	HDAC6_HUMAN	histone deacetylase 6	500	Histone deacetylase 2.				aggresome assembly|cellular response to hydrogen peroxide|Hsp90 deacetylation|lysosome localization|macroautophagy|misfolded or incompletely synthesized protein catabolic process|negative regulation of proteolysis|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|polyubiquitinated misfolded protein transport|positive regulation of apoptosis|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of epithelial cell migration|positive regulation of receptor biosynthetic process|positive regulation of signal transduction|regulation of androgen receptor signaling pathway|regulation of receptor activity|response to growth factor stimulus|response to toxin|transcription, DNA-dependent|tubulin deacetylation	aggresome|caveola|cell leading edge|cytosol|histone deacetylase complex|microtubule associated complex|perinuclear region of cytoplasm	actin binding|alpha-tubulin binding|beta-catenin binding|dynein complex binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|Hsp90 protein binding|microtubule binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|polyubiquitin binding|tau protein binding|tubulin deacetylase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4					Vorinostat(DB02546)	GCTAGCCACCACCCTGAGGTA	0.647													18	67					0	0	0.008871	0	0		G	48674553	G	G	48674553	3	3	61	1	0	0	0	0	1	0	0	0	7027	159	6	3	1565	3	HDAC6	23	48674553	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	256894	48674553	106596007	890	42896											
PQBP1	10084	broad.mit.edu	37	chrX	48759692	48759692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagagagcgagacagggaaCgggatcgggaccgcgggtat	12	3	19	7	5	0	3	0	0	0	3	1	8	0	6	1	4	2	1	1	4	2	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:48759692C>T	uc004dle.2	+	5	664	c.475C>T	c.(475-477)CGG>TGG	p.R159W	PQBP1_uc004dlf.2_Missense_Mutation_p.R159W|PQBP1_uc004dlg.2_Missense_Mutation_p.R159W|PQBP1_uc004dld.2_Intron|PQBP1_uc004dlh.2_Missense_Mutation_p.R159W|PQBP1_uc004dli.2_Missense_Mutation_p.R159W|PQBP1_uc004dlj.1_Missense_Mutation_p.R159W|PQBP1_uc004dln.2_Missense_Mutation_p.R159W|PQBP1_uc010nih.2_RNA|PQBP1_uc010nii.2_Missense_Mutation_p.R117W|PQBP1_uc004dlk.2_Intron|PQBP1_uc004dll.2_Intron|PQBP1_uc004dlm.2_Missense_Mutation_p.R117W|PQBP1_uc010nij.2_Intron	NM_001032382	NP_001027554	O60828	PQBP1_HUMAN	polyglutamine binding protein 1	159	3-5.|Arg-rich.|7 X 2 AA tandem repeats of [DE]-R.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|transcription coactivator activity			large_intestine(1)	1						AGACAGGGAACGGGATCGGGA	0.617													5	22					0	0	0.000602	0	0		T	48759692	T	T	48759692	3	4	61	1	0	0	0	0	1	0	0	0	12439	527	19	1	489	1	PQBP1	23	48759692	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	85139	48759692	106510868	891	42897											
WDR45	11152	broad.mit.edu	37	chrX	48933234	48933234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagggtcagtgcctcggCgcagctccaccagtttctcc	5	9	12	15	2	2	0	1	0	1	0	5	0	3	0	4	3	2	4	4	3	0	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:48933234C>T	uc004dmk.1	-	8	867	c.695G>A	c.(694-696)CGC>CAC	p.R232H	PRAF2_uc004dmh.2_5'Flank|PRAF2_uc004dmi.2_5'Flank|PRAF2_uc011mmt.1_Missense_Mutation_p.R130H|WDR45_uc004dmj.1_Missense_Mutation_p.R193H|WDR45_uc004dml.1_Missense_Mutation_p.R233H|WDR45_uc004dmm.1_Missense_Mutation_p.R197H|WDR45_uc010nim.1_Missense_Mutation_p.R232H|WDR45_uc004dmn.1_Missense_Mutation_p.R123H|WDR45_uc004dmo.1_Missense_Mutation_p.R255H|WDR45_uc004dmp.1_Missense_Mutation_p.R233H	NM_001029896	NP_001025067	Q9Y484	WIPI4_HUMAN	WD repeat domain 45 isoform 2	232					autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1						AGTGCCTCGGCGCAGCTCCAC	0.567													5	34					0	0	0.001168	0	0		T	48933234	T	T	48933234	3	4	61	1	0	0	0	0	1	0	0	0	17323	768	27	1	403	1	WDR45	23	48933234	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	173542	48933234	106337326	892	42898											
GPKOW	27238	broad.mit.edu	37	chrX	48973467	48973467	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcaccacccggctccccAcagccagacgaaccatggcc	10	3	8	20	2	1	1	1	0	0	1	2	2	2	1	7	2	2	1	7	2	1	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:48973467A>G	uc004dmr.2	-	6	837	c.830T>C	c.(829-831)GTG>GCG	p.V277A		NM_015698	NP_056513	Q92917	GPKOW_HUMAN	G patch domain and KOW motifs	277						nucleus	nucleic acid binding			ovary(2)	2						CCGGCTCCCCACAGCCAGACG	0.552													6	49					0	0	0.001168	0	0		G	48973467	G	G	48973467	3	3	61	1	0	0	0	0	1	0	0	0	6628	159	6	3	624	3	GPKOW	23	48973467	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	40233	48973467	106297093	893	42899											
DGKK	139189	broad.mit.edu	37	chrX	50136226	50136226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaattttcggaggaagaCgatcccctgatgatcgccac	10	10	10	11	3	0	4	0	3	0	1	3	7	1	6	3	2	0	0	3	2	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:50136226C>T	uc010njr.1	-	9	1579	c.1519G>A	c.(1519-1521)GTC>ATC	p.V507I		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	507	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					CGGAGGAAGACGATCCCCTGA	0.453													12	17					0	0	0.010729	0	0		T	50136226	T	T	50136226	3	4	61	1	0	0	0	0	1	0	0	0	4478	536	19	1	2375	1	DGKK	23	50136226	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	1162759	50136226	105134334	894	42900											
KDM5C	8242	broad.mit.edu	37	chrX	53240993	53240993	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggcatgttgaagtagtcAgctttaaaggagtcggccat	11	10	13	7	2	1	1	1	1	0	0	2	2	1	2	1	3	1	4	1	3	4	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:53240993A>G	uc004drz.2	-	9	1751	c.1218T>C	c.(1216-1218)GCT>GCC	p.A406A	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Silent_p.A339A|KDM5C_uc004dsa.2_Silent_p.A405A	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	406					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						TGAAGTAGTCAGCTTTAAAGG	0.537			N|F|S		clear cell renal carcinoma								7	32					0	0	0.00308	0	0		G	53240993	G	G	53240993	2	3	61	1	0	0	0	0	0	0	0	1	8151	175	7	3		3	KDM5C	23	53240993	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	3104767	53240993	102029567	895	42901											
IQSEC2	23096	broad.mit.edu	37	chrX	53279577	53279577	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taagtctgcttgcacaggccGgtagccggaggctcccttag	7	9	13	12	2	1	0	0	0	1	0	2	1	2	1	3	4	3	4	3	4	3	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:53279577G>A	uc004dsd.2	-	5	2382	c.2181C>T	c.(2179-2181)ACC>ACT	p.T727T	IQSEC2_uc004dsc.2_Silent_p.T522T	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	717					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						TGCACAGGCCGGTAGCCGGAG	0.577													9	23					0	0	0.004482	0	0		A	53279577	A	A	53279577	2	1	61	1	0	0	0	0	0	0	0	1	7834	1103	39	1		1	IQSEC2	23	53279577	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	38584	53279577	101990983	896	42902											
FAM120C	54954	broad.mit.edu	37	chrX	54209257	54209257	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgccatagagccgcggcagCgccgagccggcgtccaccag	7	2	14	18	7	0	1	0	0	0	1	1	2	1	1	7	2	3	1	7	2	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:54209257C>T	uc004dsz.3	-	1	458	c.375G>A	c.(373-375)GCG>GCA	p.A125A	FAM120C_uc011moh.1_Silent_p.A125A|FAM120C_uc004dta.2_Silent_p.A125A	NM_017848	NP_060318	Q9NX05	F120C_HUMAN	hypothetical protein LOC54954	125										ovary(1)|central_nervous_system(1)	2						GCCGCGGCAGCGCCGAGCCGG	0.721													3	7					0	0	0.009096	0	0		T	54209257	T	T	54209257	2	4	61	1	0	0	0	0	0	0	0	1	5429	755	27	1		1	FAM120C	23	54209257	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	929680	54209257	101061303	897	42903											
PFKFB1	5207	broad.mit.edu	37	chrX	54986275	54986275	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaccgcaacatgaccttcCtcatggctgagatagttgtg	9	13	9	10	1	1	2	1	2	0	1	2	3	2	2	3	1	2	3	3	1	3	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:54986275C>T	uc004dty.1	-	4	440	c.369G>A	c.(367-369)GAG>GAA	p.E123E	PFKFB1_uc010nkd.1_Silent_p.E109E|PFKFB1_uc011mol.1_Silent_p.E58E	NM_002625	NP_002616	P16118	F261_HUMAN	6-phosphofructo-2-kinase/fructose-2,	123	6-phosphofructo-2-kinase.				energy reserve metabolic process|fructose 2,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|intracellular protein kinase cascade	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(1)	1						CATGACCTTCCTCATGGCTGA	0.378													4	13					0	0	0.000602	0	0		T	54986275	T	T	54986275	2	4	61	1	0	0	0	0	0	0	0	1	11779	680	24	4		4	PFKFB1	23	54986275	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	777018	54986275	100284285	898	42904											
ALAS2	212	broad.mit.edu	37	chrX	55042055	55042055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttatgcataattccatcaCgctccccaatcccagcgccc	9	10	4	18	2	2	0	1	0	1	0	5	0	5	0	5	0	2	2	5	0	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:55042055C>T	uc004dua.3	-	8	1262	c.1124G>A	c.(1123-1125)CGT>CAT	p.R375H	ALAS2_uc004dub.3_Missense_Mutation_p.R362H|ALAS2_uc004dud.3_Missense_Mutation_p.R338H	NM_000032	NP_000023	P22557	HEM0_HUMAN	5-aminolevulinate synthase 2 isoform a	375					cellular iron ion homeostasis|erythrocyte differentiation|heme biosynthetic process|hemoglobin biosynthetic process|oxygen homeostasis|response to hypoxia	mitochondrial inner membrane|mitochondrial matrix	5-aminolevulinate synthase activity|coenzyme binding|glycine binding|protein binding|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(1)	1					Glycine(DB00145)	AATTCCATCACGCTCCCCAAT	0.517													6	46					0	0	0.001984	0	0		T	55042055	T	T	55042055	3	4	61	1	0	0	0	0	1	0	0	0	485	536	19	1	655	1	ALAS2	23	55042055	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	55780	55042055	100228505	899	42905											
ALAS2	212	broad.mit.edu	37	chrX	55052394	55052394	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttgtggggccccgggcaaGcactgggcagcactgtagca	7	6	16	12	1	0	0	0	0	0	0	0	0	0	0	2	4	3	7	2	4	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:55052394G>A	uc004dua.3	-	2	178	c.40C>T	c.(40-42)CTT>TTT	p.L14F	ALAS2_uc004dub.3_Missense_Mutation_p.L38F|ALAS2_uc004dud.3_Missense_Mutation_p.L14F	NM_000032	NP_000023	P22557	HEM0_HUMAN	5-aminolevulinate synthase 2 isoform a	14					cellular iron ion homeostasis|erythrocyte differentiation|heme biosynthetic process|hemoglobin biosynthetic process|oxygen homeostasis|response to hypoxia	mitochondrial inner membrane|mitochondrial matrix	5-aminolevulinate synthase activity|coenzyme binding|glycine binding|protein binding|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(1)	1					Glycine(DB00145)	CCCCGGGCAAGCACTGGGCAG	0.557													7	35					0	0	0.001984	0	0		A	55052394	A	A	55052394	3	1	61	1	0	0	0	0	1	0	0	0	485	971	34	2	1763	2	ALAS2	23	55052394	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	10339	55052394	100218166	900	42906											
USP51	158880	broad.mit.edu	37	chrX	55515175	55515175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcaagttctcctccggcgcGggctcacgctcttgtaatgg	5	11	12	13	4	4	0	2	0	2	0	6	0	5	0	2	3	0	4	2	3	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:55515175G>A	uc004dun.1	-	2	277	c.198C>T	c.(196-198)CCC>CCT	p.P66P	USP51_uc011moo.1_Silent_p.P11P	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	66					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						CCTCCGGCGCGGGCTCACGCT	0.647													5	17					0	0	0.001168	0	0		A	55515175	A	A	55515175	2	1	61	1	0	0	0	0	0	0	0	1	17109	1103	39	1		1	USP51	23	55515175	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	462781	55515175	99755385	901	42907											
MSN	4478	broad.mit.edu	37	chrX	64887722	64887722	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaccatgcccaaaacggTgagtgccggaggtgggcgct	8	5	15	13	4	0	1	0	1	0	0	0	2	0	2	4	4	3	1	4	4	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:64887722T>C	uc004dwf.2	+	1	210	c.12_splice	c.e1+2	p.T4_splice		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin						leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						CCCAAAACGGTGAGTGCCGGA	0.642			T	ALK	ALCL								5	21					0	0	0.001168	0	0		C	64887722	C	C	64887722	5	2	61	1	0	0	0	0	0	0	1	0	9903	1710	59	3	16	3	MSN	23	64887722	Splice_Site	SNP	T	TCGA-BR-8081-01A-11D-2340-08	9372547	64887722	90382838	902	42908											
RAB41	347517	broad.mit.edu	37	chrX	69502190	69502190	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttattcctgggagagcagagCggtgtgggtctgggttgggc	5	11	19	6	1	1	2	0	0	1	2	2	3	2	2	1	5	2	2	1	5	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:69502190C>T	uc004dyc.2	+	1	123	c.123C>T	c.(121-123)AGC>AGT	p.S41S	RAB41_uc010nkv.2_Silent_p.S31S	NM_001032726	NP_001027898	Q5JT25	RAB41_HUMAN	RAB41, member RAS oncogene family	41	GTP (By similarity).				protein transport|small GTPase mediated signal transduction		GTP binding			ovary(2)|breast(2)	4						GAGAGCAGAGCGGTGTGGGTC	0.552													5	37					0	0	0.001168	0	0		T	69502190	T	T	69502190	2	4	61	1	0	0	0	0	0	0	0	1	12968	782	27	1		1	RAB41	23	69502190	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4614468	69502190	85768370	903	42909											
SLC7A3	84889	broad.mit.edu	37	chrX	70149828	70149828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcttttgaccaaatctgCgaaatgcttgccacggcatc	10	10	8	13	2	1	1	0	1	1	0	2	2	1	1	3	1	4	3	3	1	2	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:70149828C>T	uc004dyn.2	-	2	178	c.20G>A	c.(19-21)CGC>CAC	p.R7H	SLC7A3_uc004dyo.2_Missense_Mutation_p.R7H	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	7	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	ACCAAATCTGCGAAATGCTTG	0.502													9	55					0	0	0.010729	0	0		T	70149828	T	T	70149828	3	4	61	1	0	0	0	0	1	0	0	0	14723	768	27	1	1883	1	SLC7A3	23	70149828	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	647638	70149828	85120732	904	42910											
FOXO4	4303	broad.mit.edu	37	chrX	70316714	70316714	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgcagaactcatcagccaGgccattgaaagcgccccgga	12	6	10	13	2	2	2	2	1	0	1	2	3	2	3	4	2	4	1	4	2	3	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:70316714G>T	uc004dys.1	+	1	689	c.336G>T	c.(334-336)CAG>CAT	p.Q112H	FOXO4_uc010nkz.2_Missense_Mutation_p.Q112H|FOXO4_uc004dyt.1_Splice_Site_p.A58_splice	NM_005938	NP_005929	P98177	FOXO4_HUMAN	forkhead box O4	112	Fork-head.				cell cycle arrest|cell differentiation|embryo development|G1 phase of mitotic cell cycle|insulin receptor signaling pathway|mitotic cell cycle G2/M transition DNA damage checkpoint|muscle organ development|negative regulation of angiogenesis|negative regulation of cell proliferation|negative regulation of smooth muscle cell differentiation|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			central_nervous_system(2)|prostate(1)	3	Renal(35;0.156)					TCATCAGCCAGGCCATTGAAA	0.587													4	13					0.00909568	0.00928865	0.009096	1	0		T	70316714	T	T	70316714	3	4	61	1	0	0	0	0	1	0	0	0	6039	1014	35	5	338	5	FOXO4	23	70316714	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	166886	70316714	84953846	905	42911											
CXorf65	158830	broad.mit.edu	37	chrX	70326403	70326403	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccatgtttgatgaagatgaAcatgccctcaagatcgcctc	11	11	8	11	1	1	5	1	3	0	2	4	5	2	5	3	0	2	1	3	0	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:70326403A>G	uc011mpo.1	-	1	18	c.4T>C	c.(4-6)TTC>CTC	p.F2L	CXorf65_uc011mpp.1_5'UTR	NM_001025265	NP_001020436	A6NEN9	CX065_HUMAN	hypothetical protein LOC158830	2										central_nervous_system(1)	1						ATGAAGATGAACATGCCCTCA	0.537													17	110					0	0	0.00499	0	0		G	70326403	G	G	70326403	3	3	61	1	0	0	0	0	1	0	0	0	4120	43	2	3	571	3	CXorf65	23	70326403	Missense_Mutation	SNP	A	TCGA-BR-8081-01A-11D-2340-08	9689	70326403	84944157	906	42912											
ATP7A	538	broad.mit.edu	37	chrX	77267084	77267084	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaagaaatgatcaacctTcattcttctatgttcctgga	14	13	6	8	0	4	3	2	1	2	2	5	4	5	4	2	1	1	1	2	1	5	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:77267084T>C	uc004ecx.3	+	9	2245	c.2085T>C	c.(2083-2085)CTT>CTC	p.L695L	ATP7A_uc004ecw.2_3'UTR	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	695	Extracellular (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						TGATCAACCTTCATTCTTCTA	0.388													31	186					0	0	0.009535	0	0		C	77267084	C	C	77267084	2	2	61	1	0	0	0	0	0	0	0	1	1191	1770	62	3		3	ATP7A	23	77267084	Silent	SNP	T	TCGA-BR-8081-01A-11D-2340-08	6940681	77267084	78003476	907	42913											
NAP1L3	4675	broad.mit.edu	37	chrX	92927974	92927974	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcttgaatgtttctaagCgcttgcacacgatttctaac	10	15	6	10	2	4	1	1	1	3	0	4	2	4	1	0	0	3	3	0	0	3	6	rs139070318		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:92927974C>T	uc004efq.2	-	1	635	c.330G>A	c.(328-330)GCG>GCA	p.A110A	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	110					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						TGTTTCTAAGCGCTTGCACAC	0.468													4	33					0	0	0.009096	0	0		T	92927974	T	T	92927974	2	4	61	1	0	0	0	0	0	0	0	1	10176	755	27	1		1	NAP1L3	23	92927974	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	15660890	92927974	62342586	908	42914											
TNMD	64102	broad.mit.edu	37	chrX	99854133	99854133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaaagtagagaagacccGtcacgccagacaagcaagtg	16	4	12	9	2	1	4	1	1	0	3	1	5	1	4	2	0	1	2	2	0	5	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:99854133G>A	uc004efy.3	+	6	924	c.698G>A	c.(697-699)CGT>CAT	p.R233H	TNMD_uc004efz.2_3'UTR	NM_022144	NP_071427	Q9H2S6	TNMD_HUMAN	tenomodulin	233	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						GAGAAGACCCGTCACGCCAGA	0.428													4	20					0	0	0.009096	0	0		A	99854133	A	A	99854133	3	1	61	1	0	0	0	0	1	0	0	0	16347	1145	40	1	720	1	TNMD	23	99854133	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	6926159	99854133	55416427	909	42915											
MID2	11043	broad.mit.edu	37	chrX	107169389	107169389	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatctccaatgatggattgCagatggagaaggatgaaagc	15	8	13	5	0	1	5	0	2	1	3	2	8	1	7	1	3	2	1	1	3	3	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:107169389C>T	uc004enl.2	+	9	2236	c.1663C>T	c.(1663-1665)CAG>TAG	p.Q555*	MID2_uc004enk.2_Nonsense_Mutation_p.Q525*	NM_012216	NP_036348	Q9UJV3	TRIM1_HUMAN	midline 2 isoform 1	555	B30.2/SPRY.					centrosome|microtubule	ligase activity|zinc ion binding			ovary(1)	1						TGATGGATTGCAGATGGAGAA	0.408													24	102					0	0	0.00333	0	0		T	107169389	T	T	107169389	4	4	61	1	0	0	0	0	0	1	0	0	9596	711	25	2	1697	2	MID2	23	107169389	Nonsense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	7315256	107169389	48101171	910	42916											
COL4A6	1288	broad.mit.edu	37	chrX	107423838	107423838	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggggtcccagggaggcctcGagaccctttagggcctgaaa	8	7	15	11	1	0	2	0	1	0	1	2	4	1	3	4	5	0	0	4	5	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:107423838G>A	uc004enw.3	-	25	2144	c.2041C>T	c.(2041-2043)CGA>TGA	p.R681*	COL4A6_uc004env.3_Nonsense_Mutation_p.R680*|COL4A6_uc011msn.1_Nonsense_Mutation_p.R680*|COL4A6_uc010npk.2_Nonsense_Mutation_p.R680*	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	681	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						GGGAGGCCTCGAGACCCTTTA	0.507									Alport_syndrome_with_Diffuse_Leiomyomatosis				3	24					0	0	0.004672	0	0		A	107423838	A	A	107423838	4	1	61	1	0	0	0	0	0	1	0	0	3698	1066	37	1	3118	1	COL4A6	23	107423838	Nonsense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	254449	107423838	47846722	911	42917											
GUCY2F	2986	broad.mit.edu	37	chrX	108635326	108635326	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttttgagagattcagcAactgatctgaaaagcagaca	14	10	8	9	0	2	5	1	3	1	2	2	6	2	5	1	0	3	2	1	0	3	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:108635326A>G	uc004eod.3	-	14	2871	c.2595T>C	c.(2593-2595)GTT>GTC	p.V865V	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	865	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						GAGATTCAGCAACTGATCTGA	0.443													9	44					0	0	0.004482	0	0		G	108635326	G	G	108635326	2	3	61	1	0	0	0	0	0	0	0	1	6914	117	5	3		3	GUCY2F	23	108635326	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	1211488	108635326	46635234	912	42918											
SLC25A43	203427	broad.mit.edu	37	chrX	118540544	118540544	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagacctcatcaaaaccCggttgatcatgcagaacata	15	8	6	12	1	3	3	3	1	0	2	3	3	3	3	2	1	4	2	2	1	5	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:118540544C>A	uc004erd.2	+	2	741	c.397C>A	c.(397-399)CGG>AGG	p.R133R	SLC25A43_uc004erc.1_RNA|SLC25A43_uc011mtt.1_Silent_p.R133R	NM_145305	NP_660348	Q8WUT9	S2543_HUMAN	mitochondrial solute carrier protein	133	Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			skin(1)	1						CATCAAAACCCGGTTGATCAT	0.502													20	61					8.00594e-06	8.57259e-06	0.007413	1	0		A	118540544	A	A	118540544	2	1	61	1	0	0	0	0	0	0	0	1	14533	643	23	5		5	SLC25A43	23	118540544	Silent	SNP	C	TCGA-BR-8081-01A-11D-2340-08	9905218	118540544	36730016	913	42919											
ODZ1	10178	broad.mit.edu	37	chrX	123787483	123787483	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccataaattcccagcagaGagtccttggctaaagaaata	15	9	8	9	0	0	2	0	0	0	2	2	3	2	2	3	1	2	2	3	1	6	5			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:123787483G>T	uc004euj.2	-	7	1383	c.1319C>A	c.(1318-1320)TCT>TAT	p.S440Y	ODZ1_uc011muj.1_Missense_Mutation_p.S439Y|ODZ1_uc010nqy.2_Missense_Mutation_p.S440Y	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	440	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TCCCAGCAGAGAGTCCTTGGC	0.393													26	147					3.28513e-13	3.68143e-13	0.003954	1	0		T	123787483	T	T	123787483	3	4	61	1	0	0	0	0	1	0	0	0	10853	942	33	5	6983	5	ODZ1	23	123787483	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	5246939	123787483	31483077	914	42920											
BCORL1	63035	broad.mit.edu	37	chrX	129147983	129147983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccacctctgcacccatccCggcctccttcagtttgagta	6	11	6	18	1	2	1	1	1	1	0	5	1	5	1	6	1	1	3	6	1	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:129147983C>T	uc004evb.1	+	4	1349	c.1235C>T	c.(1234-1236)CCG>CTG	p.P412L	BCORL1_uc010nrd.1_Missense_Mutation_p.P314L	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	412	Pro-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						gcacccatcccggcctccTTC	0.254													7	17					0	0	0.001984	0	0		T	129147983	T	T	129147983	3	4	61	1	0	0	0	0	1	0	0	0	1388	652	23	1	1245	1	BCORL1	23	129147983	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	5360500	129147983	26122577	915	42921											
ZNF280C	55609	broad.mit.edu	37	chrX	129364678	129364678	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaattactcccaaaaatttAgttatcatgtctggacaaca	16	12	4	9	0	2	0	1	0	1	0	3	1	3	1	1	1	2	1	1	1	7	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:129364678A>G	uc004evm.2	-	9	949	c.795T>C	c.(793-795)ACT>ACC	p.T265T	ZNF280C_uc010nrf.1_Silent_p.T265T	NM_017666	NP_060136	Q8ND82	Z280C_HUMAN	zinc finger protein 280C	265					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)	3						CCAAAAATTTAGTTATCATGT	0.323													12	48					0	0	0.001855	0	0		G	129364678	G	G	129364678	2	3	61	1	0	0	0	0	0	0	0	1	17841	407	15	3		3	ZNF280C	23	129364678	Silent	SNP	A	TCGA-BR-8081-01A-11D-2340-08	216695	129364678	25905882	916	42922											
HS6ST2	90161	broad.mit.edu	37	chrX	132092382	132092382	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagcgcgaaaagcggggcGcacgcggctcccgccaggga	9	1	17	14	7	0	0	0	0	0	0	1	2	1	1	2	4	3	3	2	4	2	0			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:132092382G>A	uc011mve.1	-	2	665	c.249C>T	c.(247-249)TGC>TGT	p.C83C	HS6ST2_uc011mvb.1_5'Flank|HS6ST2_uc011mvc.1_5'Flank|HS6ST2_uc011mvd.1_Silent_p.C83C	NM_147175	NP_671704	Q96MM7	H6ST2_HUMAN	heparan sulfate 6-O-sulfotransferase 2 isoform	83	Lumenal (Potential).					integral to membrane	sulfotransferase activity				0	Acute lymphoblastic leukemia(192;0.000127)					AAAGCGGGGCGCACGCGGCTC	0.721													3	8					0	0	0.004672	0	0		A	132092382	A	A	132092382	2	1	61	1	0	0	0	0	0	0	0	1	7387	1079	38	1		1	HS6ST2	23	132092382	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	2727704	132092382	23178178	917	42923											
FAM127C	441518	broad.mit.edu	37	chrX	134156235	134156235	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggagggggctctccttCttgatgtaggggatcaccca	7	10	14	10	0	3	2	1	2	2	0	4	4	3	4	2	5	0	2	2	5	1	3			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:134156235C>A	uc004eyc.1	-	1	332	c.255G>T	c.(253-255)AAG>AAT	p.K85N		NM_001078173	NP_001071641	Q17RB0	F127C_HUMAN	family with sequence similarity 127, member C	85											0	Acute lymphoblastic leukemia(192;0.000127)					GGCTCTCCTTCTTGATGTAGG	0.617													12	45					0.00010058	0.000105669	0.013537	1	0		A	134156235	A	A	134156235	3	1	61	1	0	0	0	0	1	0	0	0	5444	912	32	5	90	5	FAM127C	23	134156235	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	2063853	134156235	21114325	918	42924											
FMR1NB	158521	broad.mit.edu	37	chrX	147062865	147062865	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccggaagcttctgggccaCggactgccggaccgttgggc	5	6	15	15	4	1	0	0	0	1	0	1	3	1	3	5	5	2	2	5	5	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:147062865C>T	uc004fcm.2	+	1	17	c.-57C>T	c.(-59--55)CACGG>CATGG			NM_152578	NP_689791	Q8N0W7	FMR1N_HUMAN	fragile X mental retardation 1 neighbor							integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TTCTGGGCCACGGACTGCCGG	0.662													6	38					0	0	0.001168	0	0		T	147062865	T	T	147062865	1	4	61	1	0	0	0	0	0	0	0	0	5975	551	19	1		1	FMR1NB	23	147062865	Translation_Start_Site	SNP	C	TCGA-BR-8081-01A-11D-2340-08	12906630	147062865	8207695	919	42925											
MAGEA11	4110	broad.mit.edu	37	chrX	148797716	148797716	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gccatggatgccatctttggGagcctatctgatgagggctc	7	11	13	10	0	2	2	0	2	2	0	3	4	2	4	3	3	2	1	3	3	1	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:148797716G>A	uc004fdq.2	+	5	672	c.570G>A	c.(568-570)GGG>GGA	p.G190G	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Silent_p.G161G	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	190						cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CCATCTTTGGGAGCCTATCTG	0.547													20	66					0	0	0.008871	0	0		A	148797716	A	A	148797716	2	1	61	1	0	0	0	0	0	0	0	1	9183	1161	41	4		4	MAGEA11	23	148797716	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	1734851	148797716	6472844	920	42926											
FAM58A	92002	broad.mit.edu	37	chrX	152860096	152860096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcccggagttcccagaagCgggagtccaattccaggggc	8	7	14	12	2	0	1	0	0	0	1	4	3	4	3	4	4	1	1	4	4	2	2	rs150562029	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:152860096C>T	uc010nug.2	-	2	255	c.152G>A	c.(151-153)CGC>CAC	p.R51H				Q8N1B3	FA58A_HUMAN	RecName: Full=Cyclin-related protein FAM58B;	113					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TTCCCAGAAGCGGGAGTCCAA	0.562													8	53					0	0	0.00308	0	0		T	152860096	T	T	152860096	3	4	61	1	0	0	0	0	1	0	0	0	5604	768	27	1	420	1	FAM58A	23	152860096	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	4062380	152860096	2410464	921	42927											
L1CAM	3897	broad.mit.edu	37	chrX	153128940	153128940	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccggctcacctgtactcGccgaaggtctcatctttcat	6	11	8	16	3	4	0	3	0	2	0	6	1	4	0	4	2	1	2	4	2	2	2			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:153128940G>A	uc004fjb.2	-	26	3630	c.3522C>T	c.(3520-3522)GGC>GGT	p.G1174G	L1CAM_uc004fjc.2_Silent_p.G1174G|L1CAM_uc010nuo.2_Silent_p.G1169G	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	1174	Cytoplasmic (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACCTGTACTCGCCGAAGGTCT	0.612													10	19					0	0	0.010729	0	0		A	153128940	A	A	153128940	2	1	61	1	0	0	0	0	0	0	0	1	8604	1074	38	1		1	L1CAM	23	153128940	Silent	SNP	G	TCGA-BR-8081-01A-11D-2340-08	268844	153128940	2141620	922	42928											
HCFC1	3054	broad.mit.edu	37	chrX	153228708	153228708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccacaggtcccccagcctgCagccactcatcccgccgtag	7	6	8	20	2	1	0	1	0	0	0	4	0	4	0	7	1	3	2	7	1	1	1			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:153228708C>T	uc004fjp.2	-	4	1208	c.680G>A	c.(679-681)TGC>TAC	p.C227Y		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	227	Kelch 4.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCCCAGCCTGCAGCCACTCAT	0.607													10	107					0	0	0.013537	0	0		T	153228708	T	T	153228708	3	4	61	1	0	0	0	0	1	0	0	0	7007	710	25	2	5519	2	HCFC1	23	153228708	Missense_Mutation	SNP	C	TCGA-BR-8081-01A-11D-2340-08	99768	153228708	2041852	923	42929											
UBL4A	8266	broad.mit.edu	37	chrX	153714222	153714222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggagtcggccagcctctggGcctcgccttcttctagtagc	4	10	13	14	2	3	0	0	0	3	0	5	1	3	1	4	3	2	1	4	3	2	4			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:153714222G>A	uc004flo.2	-	3	260	c.251C>T	c.(250-252)GCC>GTC	p.A84V		NM_014235	NP_055050	P11441	UBL4A_HUMAN	ubiquitin-like 4	84					protein modification process|tail-anchored membrane protein insertion into ER membrane|transport	BAT3 complex	small conjugating protein ligase activity				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CAGCCTCTGGGCCTCGCCTTC	0.602													25	110					0	0	0.004656	0	0		A	153714222	A	A	153714222	3	1	61	1	0	0	0	0	1	0	0	0	16913	1203	42	2	230	2	UBL4A	23	153714222	Missense_Mutation	SNP	G	TCGA-BR-8081-01A-11D-2340-08	485514	153714222	1556338	924	42930											
DFFB	1677	broad.mit.edu	37	chr1	3775293	3775293	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctgcagctccctgagcgCggttcccggctgtgcctgta	3	10	12	16	3	0	1	0	1	0	0	3	1	3	1	4	2	4	5	4	2	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:3775293C>T	uc001alc.2	+	2	449	c.126C>T	c.(124-126)CGC>CGT	p.R42R	DFFB_uc001ale.2_RNA|DFFB_uc009vlp.2_RNA|DFFB_uc001alb.2_RNA|DFFB_uc010nzn.1_Silent_p.R42R|DFFB_uc009vlq.2_RNA|DFFB_uc009vlr.2_5'UTR|DFFB_uc001ald.2_5'UTR|KIAA0562_uc001aky.2_5'Flank|KIAA0562_uc010nzm.1_5'Flank|KIAA0562_uc001akz.2_5'Flank|DFFB_uc009vln.1_Silent_p.R42R|DFFB_uc001ala.1_Silent_p.R42R|DFFB_uc009vlo.1_Silent_p.R42R	NM_004402	NP_004393	O76075	DFFB_HUMAN	DNA fragmentation factor, 40 kD, beta	42	CIDE-N.				apoptotic chromosome condensation|DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction	cytosol|nucleoplasm	deoxyribonuclease activity|enzyme binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;2.05e-30)|all_epithelial(116;6.22e-21)|all_lung(118;2.65e-08)|Lung NSC(185;6.25e-06)|Breast(487;0.000659)|Renal(390;0.00121)|all_neural(13;0.0019)|Hepatocellular(190;0.00705)|Colorectal(325;0.0113)|all_hematologic(16;0.0194)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0548)|Medulloblastoma(700;0.211)		Epithelial(90;1.18e-39)|OV - Ovarian serous cystadenocarcinoma(86;7.28e-23)|GBM - Glioblastoma multiforme(42;2.95e-17)|Colorectal(212;1.23e-05)|COAD - Colon adenocarcinoma(227;5.94e-05)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00038)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		TCCCTGAGCGCGGTTCCCGGC	0.617													8	56					0	0	0.00308	0	0		T	3775293	T	T	3775293	2	4	62	1	0	0	0	0	0	0	0	1	4459	755	27	1		1	DFFB	1	3775293	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08		3775293	245475328	1	42931											
CHD5	26038	broad.mit.edu	37	chr1	6189120	6189120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggccgatgcggtgggcgcGgctgaaggcctggggagacc	5	5	20	11	4	0	2	0	1	0	1	0	4	0	2	3	7	1	1	3	7	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:6189120G>A	uc001amb.1	-	23	3497	c.3397C>T	c.(3397-3399)CGC>TGC	p.R1133C	CHD5_uc001alz.1_5'UTR|CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA|CHD5_uc009vlx.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1133	Helicase C-terminal.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		CGGTGGGCGCGGCTGAAGGCC	0.627													5	24					0	0	0.000602	0	0		A	6189120	A	A	6189120	3	1	62	1	0	0	0	0	1	0	0	0	3331	1116	39	1	2543	1	CHD5	1	6189120	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2413827	6189120	243061501	2	42932											
PRDM2	7799	broad.mit.edu	37	chr1	14107267	14107267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccctcccctccttcctaccGtacctcttccagccccctct	3	11	2	25	1	2	0	0	0	2	0	6	0	6	0	11	0	3	1	11	0	2	4	rs150941804	byFrequency	TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:14107267G>A	uc001avi.2	+	8	3833	c.2977G>A	c.(2977-2979)GTA>ATA	p.V993I	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.V993I|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.V792I|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	993	Pro-rich.|SH3-binding (Potential).					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		CCTTCCTACCGTACCTCTTCC	0.602													11	101					0	0	0.010729	0	0		A	14107267	A	A	14107267	3	1	62	1	0	0	0	0	1	0	0	0	12480	1145	40	1	3003	1	PRDM2	1	14107267	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	7918147	14107267	235143354	3	42933											
PAX7	5081	broad.mit.edu	37	chr1	19062320	19062320	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccacctacagcaccacCggctacagcgtggaccccgt	9	4	8	20	3	0	0	0	0	0	0	0	1	0	1	7	2	4	2	7	2	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:19062320C>T	uc001bay.2	+	8	1948	c.1350C>T	c.(1348-1350)ACC>ACT	p.T450T	PAX7_uc001baz.2_Silent_p.T448T|PAX7_uc010oct.1_Silent_p.T450T	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	450					anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		ACAGCACCACCGGCTACAGCG	0.677			T	FOXO1A	alveolar rhabdomyosarcoma								5	82					0	0	0.000602	0	0		T	19062320	T	T	19062320	2	4	62	1	0	0	0	0	0	0	0	1	11503	639	23	1		1	PAX7	1	19062320	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	4955053	19062320	230188301	4	42934											
EPHB2	2048	broad.mit.edu	37	chr1	23191577	23191577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctaggcctgaccgagccacGcatttacatcagtgacctgc	9	8	10	14	2	1	2	1	2	0	0	1	3	1	2	4	1	3	2	4	1	2	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:23191577G>A	uc009vqj.1	+	5	1320	c.1175G>A	c.(1174-1176)CGC>CAC	p.R392H	EPHB2_uc001bge.2_Missense_Mutation_p.R392H|EPHB2_uc001bgf.2_Missense_Mutation_p.R392H|EPHB2_uc010odu.1_Missense_Mutation_p.R392H|hsa-mir-4253|MI0015860_5'Flank	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	392	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		ACCGAGCCACGCATTTACATC	0.617									Hereditary_Prostate_Cancer				8	53					0	0	0.00308	0	0		A	23191577	A	A	23191577	3	1	62	1	0	0	0	0	1	0	0	0	5183	1087	38	1	1193	1	EPHB2	1	23191577	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	4129257	23191577	226059044	5	42935											
EPHB2	2048	broad.mit.edu	37	chr1	23233321	23233321	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcgccgggacttcctgagCgaagcctccatcatgggcca	8	6	12	15	3	1	1	1	1	0	0	3	3	3	2	5	2	3	0	5	2	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:23233321C>T	uc009vqj.1	+	11	2152	c.2007C>T	c.(2005-2007)AGC>AGT	p.S669S	EPHB2_uc001bge.2_Silent_p.S670S|EPHB2_uc001bgf.2_Silent_p.S669S|EPHB2_uc010odu.1_Silent_p.S611S	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	669	Cytoplasmic (Potential).|Protein kinase.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		ACTTCCTGAGCGAAGCCTCCA	0.582									Hereditary_Prostate_Cancer				7	45					0	0	0.001984	0	0		T	23233321	T	T	23233321	2	4	62	1	0	0	0	0	0	0	0	1	5183	767	27	1		1	EPHB2	1	23233321	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	41744	23233321	226017300	6	42936											
RHD	6007	broad.mit.edu	37	chr1	25617155	25617155	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggctggccaccatgagtgCtttgtcggtgctgatctcag	5	12	13	11	2	1	2	1	2	1	0	4	2	1	2	2	3	2	3	2	3	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:25617155C>A	uc001bjz.2	+	3	417	c.359C>A	c.(358-360)GCT>GAT	p.A120D	RHD_uc010oep.1_Missense_Mutation_p.A120D|RHD_uc001bkc.2_Missense_Mutation_p.A120D|RHD_uc009vrm.2_5'UTR|RHD_uc001bka.2_Missense_Mutation_p.A120D|RHD_uc001bkb.2_Missense_Mutation_p.A120D|RHD_uc009vrn.2_Missense_Mutation_p.A120D|RHD_uc009vro.2_Missense_Mutation_p.A120D|RHD_uc009vrp.2_Missense_Mutation_p.A120D	NM_016124	NP_057208	Q02161	RHD_HUMAN	Rh blood group D antigen isoform 1	120	Helical; (Potential).					integral to plasma membrane				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.39e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000332)|BRCA - Breast invasive adenocarcinoma(304;0.000438)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000908)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		ACCATGAGTGCTTTGTCGGTG	0.493													11	80					2.27111e-07	2.48365e-07	0.013537	1	0		A	25617155	A	A	25617155	3	1	62	1	0	0	0	0	1	0	0	0	13352	797	28	5	369	5	RHD	1	25617155	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2383834	25617155	223633466	7	42937											
ARID1A	8289	broad.mit.edu	37	chr1	27105513	27105513	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctgttctttctctttttaGctcccagggttgctagagct	4	18	8	11	0	2	1	0	0	2	1	5	1	4	1	2	1	3	5	2	1	2	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:27105513G>A	uc001bmv.1	+	20	5498	c.5125_splice	c.e20-1	p.L1709_splice	ARID1A_uc001bmu.1_Splice_Site_p.L1492_splice|ARID1A_uc001bmx.1_Splice_Site_p.L555_splice|ARID1A_uc009vsm.1_Splice_Site_p.L37_splice|ARID1A_uc009vsn.1_Splice_Site	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a						androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TCTCTTTTTAGCTCCCAGGGT	0.433			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								146	156					0	0	0.01441	0	0		A	27105513	A	A	27105513	5	1	62	1	0	0	0	0	0	0	1	0	913	985	34	2	5202	2	ARID1A	1	27105513	Splice_Site	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1488358	27105513	222145108	8	42938											
MAP3K6	9064	broad.mit.edu	37	chr1	27685227	27685227	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggcagcctgtgggctcccGagctcgtggaagggggggcg	5	6	20	10	3	0	0	0	0	0	0	2	2	1	1	2	6	2	3	2	6	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:27685227G>A	uc001bny.1	-	19	2805	c.2556C>T	c.(2554-2556)CTC>CTT	p.L852L	MAP3K6_uc009vsw.1_Silent_p.L844L|MAP3K6_uc001bnz.1_Silent_p.L375L	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	852	Protein kinase.				activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		GTGGGCTCCCGAGCTCGTGGA	0.617													6	42					0	0	0.00308	0	0		A	27685227	A	A	27685227	2	1	62	1	0	0	0	0	0	0	0	1	9272	1045	37	1		1	MAP3K6	1	27685227	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	579714	27685227	221565394	9	42939											
PTPRU	10076	broad.mit.edu	37	chr1	29630479	29630479	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggggcagctgcaccctgcGgtgcgtgtcgcagaccttct	5	8	14	14	4	1	1	0	0	1	1	2	1	1	1	2	3	4	4	2	3	0	1	rs145675393		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:29630479G>A	uc001bru.2	+	17	2729	c.2619G>A	c.(2617-2619)GCG>GCA	p.A873A	PTPRU_uc001brv.2_Silent_p.A863A|PTPRU_uc001brw.2_Silent_p.A863A|PTPRU_uc009vtq.2_Silent_p.A863A|PTPRU_uc009vtr.2_Silent_p.A863A	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	873	Mediates interaction with CTNNB1 (By similarity).|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		TGCACCCTGCGGTGCGTGTCG	0.687													13	36					0	0	0.013537	0	0		A	29630479	A	A	29630479	2	1	62	1	0	0	0	0	0	0	0	1	12838	1103	39	1		1	PTPRU	1	29630479	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1945252	29630479	219620142	10	42940											
ZNF362	149076	broad.mit.edu	37	chr1	33741707	33741707	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcttcccgcaggatggcCgagcctcgatttaacaaccc	8	9	8	16	3	1	0	0	0	1	0	4	3	2	1	4	2	3	1	4	2	2	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:33741707C>T	uc001bxc.1	+	3	215	c.45C>T	c.(43-45)GCC>GCT	p.A15A		NM_152493	NP_689706	Q5T0B9	ZN362_HUMAN	zinc finger protein 362	15					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				GCAGGATGGCCGAGCCTCGAT	0.662													5	51					0	0	0.00308	0	0		T	33741707	T	T	33741707	2	4	62	1	0	0	0	0	0	0	0	1	17893	639	23	1		1	ZNF362	1	33741707	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	4111228	33741707	215508914	11	42941											
MACF1	23499	broad.mit.edu	37	chr1	39851472	39851472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttggagcagttagaccacGaggttaaggaggctcagaca	13	7	13	8	1	1	2	1	0	0	2	1	5	1	4	1	4	1	4	1	4	2	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:39851472G>A	uc010oiu.1	+	21	9666	c.9535G>A	c.(9535-9537)GAG>AAG	p.E3179K	MACF1_uc010ois.1_Missense_Mutation_p.E2677K|MACF1_uc001cda.1_Missense_Mutation_p.E2564K|MACF1_uc001cdc.1_Missense_Mutation_p.E1743K	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	4744					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GTTAGACCACGAGGTTAAGGA	0.502													4	56					0	0	0.009096	0	0		A	39851472	A	A	39851472	3	1	62	1	0	0	0	0	1	0	0	0	9162	1059	37	1	14386	1	MACF1	1	39851472	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	6109765	39851472	209399149	12	42942											
PTCH2	8643	broad.mit.edu	37	chr1	45292608	45292608	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtggtgtcgtatttgtcGtgcagccattcaggaggtgg	5	12	15	9	3	1	0	1	0	0	0	3	1	1	1	2	4	2	2	2	4	1	3	rs149815763	byFrequency	TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:45292608G>A	uc010olf.1	-	17	2673	c.2661C>T	c.(2659-2661)CAC>CAT	p.H887H	PTCH2_uc010olg.1_Silent_p.H585H	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	887	Extracellular (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					CGTATTTGTCGTGCAGCCATT	0.632									Basal_Cell_Nevus_syndrome				12	230					0	0	0.010729	0	0		A	45292608	A	A	45292608	2	1	62	1	0	0	0	0	0	0	0	1	12753	1136	40	1		1	PTCH2	1	45292608	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	5441136	45292608	203958013	13	42943											
TNNI3K	51086	broad.mit.edu	37	chr1	74957799	74957799	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgatgtctcctgcatcaAgtaacagcagtgggtctctc	9	11	10	11	0	3	1	1	1	2	0	6	1	3	1	1	1	4	4	1	1	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:74957799A>C	uc001dgf.1	+	23	2251	c.2200A>C	c.(2200-2202)AGT>CGT	p.S734R	TNNI3K_uc001dge.1_Missense_Mutation_p.S835R	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	734	Poly-Ser.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						TCCTGCATCAAGTAACAGCAG	0.453													49	158					0	0	0.01441	0	0		C	74957799	C	C	74957799	3	2	62	1	0	0	0	0	1	0	0	0	16354	72	3	5	2645	5	TNNI3K	1	74957799	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	29665191	74957799	174292822	14	42944											
LRRC8C	84230	broad.mit.edu	37	chr1	90178606	90178606	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaaatagaacatttcatCtccattctggggaagtgttt	12	14	7	8	0	3	1	1	0	2	1	5	2	4	2	2	2	1	1	2	2	5	4	rs34247046	byFrequency	TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:90178606C>A	uc001dnl.3	+	3	719	c.477C>A	c.(475-477)ATC>ATA	p.I159I		NM_032270	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member	159						endoplasmic reticulum membrane|integral to membrane				ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		AACATTTCATCTCCATTCTGG	0.448													21	108					2.4624e-09	2.75923e-09	0.008871	1	0		A	90178606	A	A	90178606	2	1	62	1	0	0	0	0	0	0	0	1	9041	903	32	5		5	LRRC8C	1	90178606	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	15220807	90178606	159072015	15	42945											
LRRC8D	55144	broad.mit.edu	37	chr1	90400677	90400677	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagtttccagcatttaaaaCgactgacttgtttaaaatta	14	15	5	7	1	1	1	1	1	0	0	2	2	2	1	1	0	2	3	1	0	5	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:90400677C>T	uc001dnm.2	+	3	2475	c.2050C>T	c.(2050-2052)CGA>TGA	p.R684*	LRRC8D_uc001dnn.2_Nonsense_Mutation_p.R684*	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	684	LRR 8.					integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		GCATTTAAAACGACTGACTTG	0.343													6	90					0	0	0.001168	0	0		T	90400677	T	T	90400677	4	4	62	1	0	0	0	0	0	1	0	0	9042	528	19	1	2052	1	LRRC8D	1	90400677	Nonsense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	222071	90400677	158849944	16	42946											
TGFBR3	7049	broad.mit.edu	37	chr1	92177810	92177810	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccacaaaccttaggcaacTtctgggggtgcttctccatc	8	10	9	14	0	2	0	0	0	2	0	4	0	2	0	3	3	3	2	3	3	3	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:92177810T>C	uc001doh.2	-	13	2622	c.2156A>G	c.(2155-2157)AAG>AGG	p.K719R	TGFBR3_uc009wde.2_Missense_Mutation_p.K414R|TGFBR3_uc010osy.1_Missense_Mutation_p.K677R|TGFBR3_uc001doi.2_Missense_Mutation_p.K718R|TGFBR3_uc001doj.2_Missense_Mutation_p.K718R	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	719	ZP.|Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		CTTAGGCAACTTCTGGGGGTG	0.468													9	32					0	0	0.006214	0	0		C	92177810	C	C	92177810	3	2	62	1	0	0	0	0	1	0	0	0	15848	1609	56	3	419	3	TGFBR3	1	92177810	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	1777133	92177810	157072811	17	42947											
RPAP2	79871	broad.mit.edu	37	chr1	92846337	92846337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggtatggtgtttacacGgtttctagacaccctccttg	8	13	11	9	1	1	1	0	0	1	1	2	2	2	2	2	4	1	3	2	4	4	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:92846337G>A	uc001dot.2	+	12	1854	c.1745G>A	c.(1744-1746)CGG>CAG	p.R582Q	RPAP2_uc009wdh.2_RNA	NM_024813	NP_079089	Q8IXW5	RPAP2_HUMAN	RNA polymerase II associated protein 2	582						integral to membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		all_lung(203;0.0565)|Lung NSC(277;0.152)|Glioma(108;0.222)		all cancers(265;0.00647)|GBM - Glioblastoma multiforme(16;0.0234)|Epithelial(280;0.115)		GTGTTTACACGGTTTCTAGAC	0.363													6	112					0	0	0.001168	0	0		A	92846337	A	A	92846337	3	1	62	1	0	0	0	0	1	0	0	0	13567	1116	39	1	1791	1	RPAP2	1	92846337	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	668527	92846337	156404284	18	42948											
HIST2H3D	653604	broad.mit.edu	37	chr1	149785231	149785231	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgggcagtctgcttagtacgGgccatgctgtctcattgata	7	12	12	10	2	2	1	1	1	2	0	3	1	2	1	1	2	3	4	1	2	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:149785231G>C	uc010pbl.1	-	1	6	c.6C>G	c.(4-6)GCC>GCG	p.A2A	HIST2H2BF_uc010pbj.1_5'Flank|HIST2H2BF_uc010pbk.1_5'Flank|HIST2H2BF_uc001esr.2_5'Flank	NM_001123375	NP_001116847	Q71DI3	H32_HUMAN	histone cluster 2, H3d	2					blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding|protein binding				0						GCTTAGTACGGGCCATGCTGT	0.567													7	43					0	0	0.013537	0	0		C	149785231	C	C	149785231	2	2	62	1	0	0	0	0	0	0	0	1	7197	1219	43	5		5	HIST2H3D	1	149785231	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	56938894	149785231	99465390	19	42949											
POGZ	23126	broad.mit.edu	37	chr1	151378718	151378718	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggctccctctgtagccagCggtggaagggctaaagcctg	7	8	14	12	2	1	0	0	0	1	0	3	1	2	1	3	4	3	3	3	4	4	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:151378718C>T	uc001eyd.1	-	19	3099	c.2793G>A	c.(2791-2793)CCG>CCA	p.P931P	POGZ_uc001eye.1_Silent_p.P878P|POGZ_uc010pdb.1_Silent_p.P922P|POGZ_uc001eyf.1_Silent_p.P887P|POGZ_uc010pdc.1_Silent_p.P869P|POGZ_uc009wmv.1_Silent_p.P836P|POGZ_uc010pdd.1_Silent_p.P422P	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	931	Pro-rich.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CTGTAGCCAGCGGTGGAAGGG	0.572													13	72					0	0	0.001855	0	0		T	151378718	T	T	151378718	2	4	62	1	0	0	0	0	0	0	0	1	12205	755	27	1		1	POGZ	1	151378718	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1593487	151378718	97871903	20	42950											
INTS3	65123	broad.mit.edu	37	chr1	153745683	153745683	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccaggaagaggaagacacGaaaccgaagcctaccaagcg	16	3	11	11	3	0	2	0	0	0	2	1	6	1	4	4	2	4	0	4	2	6	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:153745683G>A	uc009wom.2	+	31	3287	c.3066G>A	c.(3064-3066)ACG>ACA	p.T1022T	INTS3_uc001fct.2_Silent_p.T1022T|INTS3_uc001fcu.2_Silent_p.T714T|INTS3_uc001fcv.2_Silent_p.T816T|INTS3_uc010peb.1_Silent_p.T882T|INTS3_uc001fcw.2_Silent_p.T535T|INTS3_uc010pec.1_Silent_p.T535T|INTS3_uc001fcy.2_Silent_p.T385T|INTS3_uc001fcx.2_Silent_p.T319T	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	1023					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			AGGAAGACACGAAACCGAAGC	0.602													16	135					0	0	0.008871	0	0		A	153745683	A	A	153745683	2	1	62	1	0	0	0	0	0	0	0	1	7795	1045	37	1		1	INTS3	1	153745683	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2366965	153745683	95504938	21	42951											
SEMA4A	64218	broad.mit.edu	37	chr1	156132886	156132886	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacccccggccaggcagtGtgagtactaccccccacact	9	5	8	19	1	0	1	0	1	0	0	0	1	0	1	7	2	3	2	7	2	3	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:156132886G>A	uc001fnl.2	+	10	1238	c.1134_splice	c.e10+1	p.S378_splice	SEMA4A_uc009wrq.2_Splice_Site_p.S378_splice|SEMA4A_uc001fnm.2_Splice_Site_p.S378_splice|SEMA4A_uc001fnn.2_Splice_Site_p.S246_splice|SEMA4A_uc001fno.2_Splice_Site_p.S378_splice	NM_022367	NP_071762	Q9H3S1	SEM4A_HUMAN	semaphorin B precursor						axon guidance	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					GCCAGGCAGTGTGAGTACTAC	0.453													8	58					0	0	0.00308	0	0		A	156132886	A	A	156132886	5	1	62	1	0	0	0	0	0	0	1	0	14056	1391	48	4	1169	4	SEMA4A	1	156132886	Splice_Site	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2387203	156132886	93117735	22	42952											
TMEM79	84283	broad.mit.edu	37	chr1	156255196	156255196	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatctcccacagccatagAgggggctgaggatggtctag	9	8	15	9	0	2	2	0	1	2	1	3	4	2	4	2	5	1	1	2	5	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:156255196A>G	uc010phi.1	+	2	375	c.179A>G	c.(178-180)GAG>GGG	p.E60G	SMG5_uc001foc.3_5'Flank|TMEM79_uc001fod.2_Intron|TMEM79_uc009wrw.2_Missense_Mutation_p.E60G	NM_032323	NP_115699	Q9BSE2	TMM79_HUMAN	transmembrane protein 79	60						integral to membrane				central_nervous_system(1)	1	Hepatocellular(266;0.158)					ACAGCCATAGAGGGGGCTGAG	0.652													12	43					0	0	0.013537	0	0		G	156255196	G	G	156255196	3	3	62	1	0	0	0	0	1	0	0	0	16228	304	11	3	181	3	TMEM79	1	156255196	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	122310	156255196	92995425	23	42953											
ETV3L	440695	broad.mit.edu	37	chr1	157068996	157068996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcctgcggccccagaggCgggccacctcatctggatcc	6	8	11	16	2	2	1	1	0	1	1	4	2	4	2	6	4	1	0	6	4	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:157068996C>T	uc001fqq.1	-	2	518	c.233G>A	c.(232-234)CGC>CAC	p.R78H		NM_001004341	NP_001004341	Q6ZN32	ETV3L_HUMAN	ets variant 3-like	78	ETS.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Hepatocellular(266;0.158)	Prostate(1639;0.184)				GCCCCAGAGGCGGGCCACCTC	0.587													7	52					0	0	0.001984	0	0		T	157068996	T	T	157068996	3	4	62	1	0	0	0	0	1	0	0	0	5288	768	27	1	868	1	ETV3L	1	157068996	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	813800	157068996	92181625	24	42954											
FCRL2	79368	broad.mit.edu	37	chr1	157740399	157740399	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttctgttctccctggcatTtcagaacgatgctgtctcct	6	15	8	12	1	4	1	1	0	3	1	6	2	4	1	2	1	2	4	2	1	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:157740399T>G	uc001fre.2	-	3	169	c.110A>C	c.(109-111)AAA>ACA	p.K37T	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Missense_Mutation_p.K37T|FCRL2_uc009wsp.2_Missense_Mutation_p.K37T|FCRL2_uc010pia.1_Missense_Mutation_p.K37T	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	37	Ig-like C2-type 1.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TCCCTGGCATTTCAGAACGAT	0.438													8	42					0	0	0.00308	0	0		G	157740399	G	G	157740399	3	3	62	1	0	0	0	0	1	0	0	0	5809	1841	64	5	1456	5	FCRL2	1	157740399	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	671403	157740399	91510222	25	42955											
FCRL6	343413	broad.mit.edu	37	chr1	159779472	159779472	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaagaagctgtctctgaaGggtgtgttttgttctccaac	8	13	10	10	0	2	2	0	1	2	1	4	2	2	2	2	1	2	3	2	1	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:159779472G>T	uc001fud.3	+	5	927	c.885G>T	c.(883-885)AAG>AAT	p.K295N	FCRL6_uc001fuc.2_Missense_Mutation_p.K302N|FCRL6_uc009wsz.1_Missense_Mutation_p.K200N|FCRL6_uc009wta.2_Missense_Mutation_p.K295N	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	295	Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					TGTCTCTGAAGGGTGTGTTTT	0.552													4	46					0.00024832	0.000259752	0.009096	1	0		T	159779472	T	T	159779472	3	4	62	1	0	0	0	0	1	0	0	0	5813	1014	35	5	903	5	FCRL6	1	159779472	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2039073	159779472	89471149	26	42956											
SELE	6401	broad.mit.edu	37	chr1	169696647	169696647	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatctttcccggaactgcCaggcttgaacattttaccac	9	13	7	12	1	1	2	0	2	1	0	2	3	2	3	3	2	4	1	3	2	3	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:169696647C>A	uc001ggm.3	-	10	1645	c.1488G>T	c.(1486-1488)CTG>CTT	p.L496L	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	496	Extracellular (Potential).|Sushi 6.				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					CCGGAACTGCCAGGCTTGAAC	0.468													5	46					3.59834e-05	3.80289e-05	0.001168	1	0		A	169696647	A	A	169696647	2	1	62	1	0	0	0	0	0	0	0	1	14038	581	21	5		5	SELE	1	169696647	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	9917175	169696647	79553974	27	42957											
CACNA1E	777	broad.mit.edu	37	chr1	181727101	181727101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggcgtgcatcgacttcGccatcagcgccaaacctctc	9	7	10	15	4	2	1	1	0	1	1	5	2	2	1	3	1	3	1	3	1	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:181727101G>A	uc001gow.2	+	31	4513	c.4348G>A	c.(4348-4350)GCC>ACC	p.A1450T	CACNA1E_uc009wxs.2_Missense_Mutation_p.A1338T|CACNA1E_uc001gox.1_Missense_Mutation_p.A676T|CACNA1E_uc009wxt.2_Missense_Mutation_p.A676T	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1450	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CATCGACTTCGCCATCAGCGC	0.527													5	86					0	0	0.001168	0	0		A	181727101	A	A	181727101	3	1	62	1	0	0	0	0	1	0	0	0	2545	1087	38	1	4470	1	CACNA1E	1	181727101	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	12030454	181727101	67523520	28	42958											
PRELP	5549	broad.mit.edu	37	chr1	203455927	203455927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacacctgcgctacctgcGgctggatggaaactacttga	9	8	11	13	2	0	1	0	1	0	0	0	3	0	3	3	3	5	2	3	3	3	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:203455927G>A	uc001gzs.2	+	3	1267	c.1067G>A	c.(1066-1068)CGG>CAG	p.R356Q	PRELP_uc001gzt.2_Missense_Mutation_p.R356Q	NM_002725	NP_002716	P51888	PRELP_HUMAN	proline arginine-rich end leucine-rich repeat	356	LRR 11.				skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent			ovary(1)|central_nervous_system(1)|pancreas(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.109)			CGCTACCTGCGGCTGGATGGA	0.597													5	58					0	0	0.001168	0	0		A	203455927	A	A	203455927	3	1	62	1	0	0	0	0	1	0	0	0	12495	1116	39	1	1073	1	PRELP	1	203455927	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	21728826	203455927	45794694	29	42959											
KIF26B	55083	broad.mit.edu	37	chr1	245704126	245704126	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacatcggccttccacttcTtccgctgccgaaccaccgct	8	9	6	18	4	1	0	0	0	1	0	4	1	3	0	6	1	3	2	6	1	2	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:245704126T>G	uc001ibf.1	+	5	1664	c.1224T>G	c.(1222-1224)TCT>TCG	p.S408S	KIF26B_uc010pyq.1_Silent_p.S408S|KIF26B_uc001ibg.1_Silent_p.S26S	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	408					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CTTCCACTTCTTCCGCTGCCG	0.522													9	105					0	0	0.008291	0	0		G	245704126	G	G	245704126	2	3	62	1	0	0	0	0	0	0	0	1	8311	1596	56	5		5	KIF26B	1	245704126	Silent	SNP	T	TCGA-BR-8284-01A-11D-2340-08	42248199	245704126	3546495	30	42960											
OR2W3	343171	broad.mit.edu	37	chr1	248059005	248059005	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcgcgtacctcctgaccctCgtaggcaacaccaccatcat	10	8	6	17	3	1	1	1	1	0	0	4	1	2	1	5	1	2	3	5	1	3	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:248059005C>T	uc001idp.1	+	3	386	c.117C>T	c.(115-117)CTC>CTT	p.L39L	OR2W3_uc010pzb.1_Silent_p.L39L	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TCCTGACCCTCGTAGGCAACA	0.577													39	120					0	0	0.005524	0	0		T	248059005	T	T	248059005	2	4	62	1	0	0	0	0	0	0	0	1	11052	871	31	1		1	OR2W3	1	248059005	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2354879	248059005	1191616	31	42961											
OR2L13	284521	broad.mit.edu	37	chr1	248263219	248263219	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttcttctgcgatgtccCagccatgttgcttcttgcct	4	16	7	14	1	3	0	0	0	3	0	4	1	4	0	4	0	4	2	4	0	0	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:248263219C>A	uc001ids.2	+	3	879	c.542C>A	c.(541-543)CCA>CAA	p.P181Q		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			TGCGATGTCCCAGCCATGTTG	0.458													36	163					6.29468e-14	7.19141e-14	0.004878	1	0		A	248263219	A	A	248263219	3	1	62	1	0	0	0	0	1	0	0	0	11025	594	21	5	544	5	OR2L13	1	248263219	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	204214	248263219	987402	32	42962											
OR2T3	343173	broad.mit.edu	37	chr1	248637256	248637256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgtctccctctataagaCgctcatgtacctgtgctgca	8	12	8	13	2	3	2	1	1	2	1	4	2	3	2	2	0	3	4	2	0	3	3	rs79885009	byFrequency	TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr1:248637256C>T	uc001iel.1	+	1	605	c.605C>T	c.(604-606)ACG>ATG	p.T202M		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	202	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTCTATAAGACGCTCATGTAC	0.507													16	249					0	0	0.00499	0	0		T	248637256	T	T	248637256	3	4	62	1	0	0	0	0	1	0	0	0	11042	536	19	1	607	1	OR2T3	1	248637256	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	374037	248637256	613365	33	42963											
OSR1	130497	broad.mit.edu	37	chr2	19552099	19552099	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtagcgtcttgtggacagcGagagtcctggactggcagaa	9	9	15	8	2	1	2	0	0	1	2	2	5	2	4	1	3	2	2	1	3	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:19552099G>A	uc002rdc.2	-	3	1041	c.738C>T	c.(736-738)CTC>CTT	p.L246L		NM_145260	NP_660303	Q8TAX0	OSR1_HUMAN	odd-skipped related 1	246	C2H2-type 3.				chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|heart development|mesangial cell development|mesonephric duct morphogenesis|metanephric cap mesenchymal cell proliferation involved in metanephros development|metanephric glomerulus vasculature development|metanephric interstitial cell development|metanephric mesenchymal cell differentiation|metanephric nephron tubule development|metanephric smooth muscle tissue development|middle ear morphogenesis|negative regulation of apoptosis|negative regulation of nephron tubule epithelial cell differentiation|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|pattern specification involved in metanephros development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of gastrulation|positive regulation of transcription from RNA polymerase II promoter|pronephros development|renal vesicle progenitor cell differentiation|specification of anterior mesonephric tubule identity|specification of posterior mesonephric tubule identity|stem cell differentiation|transcription, DNA-dependent|ureter urothelium development|ureteric bud development	nucleolus	nucleic acid binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	Acute lymphoblastic leukemia(84;0.221)				TGTGGACAGCGAGAGTCCTGG	0.498													6	100					0	0	0.001168	0	0		A	19552099	A	A	19552099	2	1	62	1	0	0	0	0	0	0	0	1	11312	1045	37	1		1	OSR1	2	19552099	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08		19552099	223647274	34	42964											
SOCS5	9655	broad.mit.edu	37	chr2	46985797	46985797	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtttgtctgtcaaagagaAaaacatcagcataggagact	16	10	9	6	0	3	2	2	0	1	2	3	4	3	2	0	1	2	2	0	1	4	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:46985797A>G	uc002rvf.2	+	2	292	c.128A>G	c.(127-129)AAA>AGA	p.K43R	SOCS5_uc010yoe.1_Missense_Mutation_p.K12R|SOCS5_uc002rvg.2_Missense_Mutation_p.K43R	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	43					cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			GTCAAAGAGAAAAACATCAGC	0.418													8	43					0	0	0.004482	0	0		G	46985797	G	G	46985797	3	3	62	1	0	0	0	0	1	0	0	0	14942	14	1	3	130	3	SOCS5	2	46985797	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	27433698	46985797	196213576	35	42965											
MSH2	4436	broad.mit.edu	37	chr2	47630387	47630387	+	Frame_Shift_Del	DEL	C	-	-																															agcgcggccgaggtcggcttCgtgcgcttctttcagggcat																										TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:47630387delC	uc002rvy.1	+	1	125	c.57delC	c.(55-57)TTCfs	p.F19fs	MSH2_uc010yoh.1_Intron|MSH2_uc002rvz.2_Frame_Shift_Del_p.F19fs|MSH2_uc010fbf.1_Frame_Shift_Del_p.F19fs	NM_000251	NP_000242	P43246	MSH2_HUMAN	mutS homolog 2	19					B cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|double-strand break repair|intra-S DNA damage checkpoint|isotype switching|maintenance of DNA repeat elements|male gonad development|meiotic gene conversion|meiotic mismatch repair|negative regulation of neuron apoptosis|negative regulation of reciprocal meiotic recombination|positive regulation of helicase activity|postreplication repair|response to UV-B|response to X-ray|somatic hypermutation of immunoglobulin genes	MutSalpha complex|MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|guanine/thymine mispair binding|loop DNA binding|protein C-terminus binding|protein homodimerization activity|protein kinase binding|Y-form DNA binding			large_intestine(33)|haematopoietic_and_lymphoid_tissue(6)|endometrium(4)|ovary(3)|cervix(2)|central_nervous_system(2)|stomach(1)|small_intestine(1)|breast(1)|skin(1)|prostate(1)	55		all_hematologic(82;0.0359)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AGGTCGGCTTCGTGCGCTTCT	0.647			D|Mis|N|F|S		colorectal|endometrial|ovarian	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				2	4	---	---	---	---						.	-	47630387	-	-	47630387	7	5	62	1	0	1	0	1	0	0	0	0	9888	883	31	0	59	0	MSH2	2	47630387	Frame_Shift_Del	DEL	C	TCGA-BR-8284-01A-11D-2340-08	644590	47630387	195568986	36	42966											
VRK2	7444	broad.mit.edu	37	chr2	58366924	58366924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaccactggacttttccaCaaaaggacagagtataaatg	16	8	9	8	0	0	1	0	0	0	1	1	4	1	4	2	3	0	1	2	3	5	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:58366924C>T	uc002rzo.2	+	14	1725	c.980C>T	c.(979-981)ACA>ATA	p.T327I	VRK2_uc010fcb.2_Missense_Mutation_p.T327I|VRK2_uc002rzs.2_Missense_Mutation_p.T327I|VRK2_uc002rzr.2_Missense_Mutation_p.T327I|VRK2_uc010fcc.2_Missense_Mutation_p.T209I|VRK2_uc002rzv.2_Missense_Mutation_p.T327I|VRK2_uc010fcd.2_Missense_Mutation_p.T304I|VRK2_uc002rzp.2_Missense_Mutation_p.T327I|VRK2_uc010ypg.1_Missense_Mutation_p.T327I|VRK2_uc002rzq.2_Missense_Mutation_p.T327I|VRK2_uc002rzu.2_Missense_Mutation_p.T327I|VRK2_uc002rzt.2_Missense_Mutation_p.T209I	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	327						integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						GACTTTTCCACAAAAGGACAG	0.363													10	54					0	0	0.006214	0	0		T	58366924	T	T	58366924	3	4	62	1	0	0	0	0	1	0	0	0	17246	478	17	4	1018	4	VRK2	2	58366924	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	10736537	58366924	184832449	37	42967											
DCTN1	1639	broad.mit.edu	37	chr2	74598237	74598237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttgctttgtcttctgcccGtttcagtctcagggtctcta	3	18	8	12	1	5	0	2	0	4	0	7	0	5	0	1	1	2	2	1	1	1	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:74598237G>A	uc002skx.2	-	9	1023	c.712C>T	c.(712-714)CGG>TGG	p.R238W	DCTN1_uc002skv.2_Missense_Mutation_p.R104W|DCTN1_uc002sku.2_Missense_Mutation_p.R104W|DCTN1_uc002skw.1_Missense_Mutation_p.R214W|DCTN1_uc010ffd.2_Missense_Mutation_p.R218W|DCTN1_uc002sky.2_Missense_Mutation_p.R201W	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	238	Potential.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						TCTTCTGCCCGTTTCAGTCTC	0.552													24	324					0	0	0.003954	0	0		A	74598237	A	A	74598237	3	1	62	1	0	0	0	0	1	0	0	0	4309	1144	40	1	3220	1	DCTN1	2	74598237	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	16231313	74598237	168601136	38	42968											
LRRTM1	347730	broad.mit.edu	37	chr2	80530368	80530368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcttgagctgattgtatcCgatgtcgagaaacttgaggc	10	12	11	8	2	1	4	0	3	1	1	3	6	2	4	1	1	2	2	1	1	2	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:80530368C>T	uc002sok.1	-	2	847	c.577G>A	c.(577-579)GGA>AGA	p.G193R	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	193	LRR 5.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						TGATTGTATCCGATGTCGAGA	0.572										HNSCC(69;0.2)			8	83					0	0	0.004482	0	0		T	80530368	T	T	80530368	3	4	62	1	0	0	0	0	1	0	0	0	9057	661	23	1	995	1	LRRTM1	2	80530368	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	5932131	80530368	162669005	39	42969											
GPR45	11250	broad.mit.edu	37	chr2	105859168	105859168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctggctgccccactccGtctacagcctcctgtctgtg	3	12	9	17	1	3	0	0	0	3	0	5	0	5	0	5	1	4	2	5	1	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:105859168G>A	uc002tco.1	+	1	969	c.853G>A	c.(853-855)GTC>ATC	p.V285I		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	285	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding	p.V285I(1)		ovary(1)|breast(1)|central_nervous_system(1)	3						GCCCCACTCCGTCTACAGCCT	0.582													46	139					0	0	0.01441	0	0		A	105859168	A	A	105859168	3	1	62	1	0	0	0	0	1	0	0	0	6711	1145	40	1	855	1	GPR45	2	105859168	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	25328800	105859168	137340205	40	42970											
C2orf40	84417	broad.mit.edu	37	chr2	106690499	106690499	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacatgggctttgacgaagcGgtaggtgttgcctccggctg	6	11	15	9	3	0	1	0	1	0	0	1	2	1	1	2	4	3	4	2	4	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:106690499G>A	uc010fjf.2	+	3	393	c.285G>A	c.(283-285)GCG>GCA	p.A95A		NM_032411	NP_115787	Q9H1Z8	AUGN_HUMAN	esophageal cancer related gene 4 protein	95						extracellular region|transport vesicle					0						TTGACGAAGCGGTAGGTGTTG	0.612													8	79					0	0	0.00308	0	0		A	106690499	A	A	106690499	2	1	62	1	0	0	0	0	0	0	0	1	2168	1130	39	1		1	C2orf40	2	106690499	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	831331	106690499	136508874	41	42971											
FBLN7	129804	broad.mit.edu	37	chr2	112944983	112944983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacctggaggggcctcagaCgctggaggtggacgtcgaca	9	5	17	10	3	1	1	1	0	0	1	2	6	1	4	2	6	1	1	2	6	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:112944983C>T	uc002tho.1	+	8	1491	c.1220C>T	c.(1219-1221)ACG>ATG	p.T407M	FBLN7_uc002thn.2_Missense_Mutation_p.R323C|FBLN7_uc010fki.1_Missense_Mutation_p.T361M|FBLN7_uc010fkj.1_Missense_Mutation_p.T273M	NM_153214	NP_694946	Q53RD9	FBLN7_HUMAN	fibulin 7 isoform 1	407					cell adhesion	proteinaceous extracellular matrix	calcium ion binding|heparin binding	p.T407M(1)		ovary(1)|central_nervous_system(1)	2						GGGCCTCAGACGCTGGAGGTG	0.592													8	113					0	0	0.004482	0	0		T	112944983	T	T	112944983	3	4	62	1	0	0	0	0	1	0	0	0	5715	536	19	1	1250	1	FBLN7	2	112944983	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	6254484	112944983	130254390	42	42972											
THSD7B	80731	broad.mit.edu	37	chr2	137990641	137990641	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagaagccacgtgtggtgtAggcattcagactcggagagt	10	8	16	7	2	1	3	1	0	0	3	2	5	1	3	1	4	1	2	1	4	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:137990641A>G	uc002tva.1	+	8	1995	c.1995A>G	c.(1993-1995)GTA>GTG	p.V665V	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Silent_p.V555V	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CGTGTGGTGTAGGCATTCAGA	0.468													5	29					0	0	0.000602	0	0		G	137990641	G	G	137990641	2	3	62	1	0	0	0	0	0	0	0	1	15905	407	15	3		3	THSD7B	2	137990641	Silent	SNP	A	TCGA-BR-8284-01A-11D-2340-08	25045658	137990641	105208732	43	42973											
STAM2	10254	broad.mit.edu	37	chr2	152992113	152992113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctttccaccaattggCatcactaaaaatacagtgca	13	12	4	12	0	2	0	1	0	1	0	4	0	3	0	3	1	2	2	3	1	5	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:152992113C>T	uc002tyc.3	-	8	1059	c.709G>A	c.(709-711)GCC>ACC	p.A237T	STAM2_uc010foa.1_Missense_Mutation_p.A237T|STAM2_uc002tyd.2_Missense_Mutation_p.A237T	NM_005843	NP_005834	O75886	STAM2_HUMAN	signal transducing adaptor molecule 2	237	SH3.				cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.22)		CACCAATTGGCATCACTAAAA	0.303													6	104					0	0	0.001168	0	0		T	152992113	T	T	152992113	3	4	62	1	0	0	0	0	1	0	0	0	15274	710	25	2	896	2	STAM2	2	152992113	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	15001472	152992113	90207260	44	42974											
TTN	7273	broad.mit.edu	37	chr2	179408275	179408275	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagcagcttcacgcttctcaAcgatgtaattgttgactgga	10	13	9	9	2	2	1	2	1	1	0	3	3	2	2	0	1	3	5	0	1	3	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:179408275A>G	uc010zfg.1	-	296	88945	c.88721T>C	c.(88720-88722)GTT>GCT	p.V29574A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V23269A|TTN_uc010zfi.1_Missense_Mutation_p.V23202A|TTN_uc010zfj.1_Missense_Mutation_p.V23077A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30501							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACGCTTCTCAACGATGTAATT	0.408													4	30					0	0	0.009096	0	0		G	179408275	G	G	179408275	3	3	62	1	0	0	0	0	1	0	0	0	16761	43	2	3	11618	3	TTN	2	179408275	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	26416162	179408275	63791098	45	42975											
C2orf69	205327	broad.mit.edu	37	chr2	200790353	200790353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacaatgtattggctggatgGtggtcattctggaggaagca	11	11	14	5	0	2	0	1	0	1	0	2	3	2	3	0	6	2	3	0	6	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:200790353G>A	uc010zhb.1	+	2	1085	c.902G>A	c.(901-903)GGT>GAT	p.G301D		NM_153689	NP_710156	Q8N8R5	CB069_HUMAN	hypothetical protein LOC205327 precursor	301						extracellular region				central_nervous_system(1)	1						TGGCTGGATGGTGGTCATTCT	0.363													5	62					0	0	0.000602	0	0		A	200790353	A	A	200790353	3	1	62	1	0	0	0	0	1	0	0	0	2191	1261	44	4	908	4	C2orf69	2	200790353	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	21382078	200790353	42409020	46	42976											
CPO	130749	broad.mit.edu	37	chr2	207820188	207820188	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcccttgctgtttcagaTctatgagtggatgagagaga	9	13	11	8	0	2	4	1	2	1	3	4	7	4	5	2	1	1	2	2	1	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:207820188T>A	uc002vby.2	+	3	213	c.167T>A	c.(166-168)ATC>AAC	p.I56N		NM_173077	NP_775100	Q8IVL8	CBPO_HUMAN	carboxypeptidase O precursor	56					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				LUSC - Lung squamous cell carcinoma(261;0.0744)|Epithelial(149;0.0807)|Lung(261;0.142)		CTGTTTCAGATCTATGAGTGG	0.438													9	78					0	0	0.006214	0	0		A	207820188	A	A	207820188	3	1	62	1	0	0	0	0	1	0	0	0	3823	1449	50	5	177	5	CPO	2	207820188	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	7029835	207820188	35379185	47	42977											
IRS1	3667	broad.mit.edu	37	chr2	227662669	227662669	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgcgagggcggaactcAtcactcatggcccgcatggc	7	8	13	13	3	3	0	3	0	0	0	3	2	3	1	1	4	3	2	1	4	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:227662669A>G	uc002voh.3	-	1	838	c.786T>C	c.(784-786)GAT>GAC	p.D262D		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	262	IRS-type PTB.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GGCGGAACTCATCACTCATGG	0.647											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	81					0	0	0.006214	0	0		G	227662669	G	G	227662669	2	3	62	1	0	0	0	0	0	0	0	1	7856	214	8	3		3	IRS1	2	227662669	Silent	SNP	A	TCGA-BR-8284-01A-11D-2340-08	19842481	227662669	15536704	48	42978											
CHRND	1144	broad.mit.edu	37	chr2	233396134	233396134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgctcatctccaagcGtctgcctgccacatccatgg	6	10	8	17	1	3	0	1	0	2	0	5	0	4	0	5	1	5	2	5	1	1	0	rs139722128		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr2:233396134G>A	uc002vsw.2	+	8	897	c.893G>A	c.(892-894)CGT>CAT	p.R298H	CHRND_uc010zmg.1_Missense_Mutation_p.R283H|CHRND_uc010fyc.2_Missense_Mutation_p.R171H|CHRND_uc010zmh.1_Missense_Mutation_p.R104H	NM_000751	NP_000742	Q07001	ACHD_HUMAN	nicotinic acetylcholine receptor delta	298	Helical; (Potential).				muscle contraction|musculoskeletal movement|neuromuscular process|skeletal muscle tissue growth|synaptic transmission	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)|breast(1)|skin(1)	3		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.89e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00078)|Lung(119;0.00579)|LUSC - Lung squamous cell carcinoma(224;0.00754)		ATCTCCAAGCGTCTGCCTGCC	0.612													15	59					0	0	0.003163	0	0		A	233396134	A	A	233396134	3	1	62	1	0	0	0	0	1	0	0	0	3397	1145	40	1	923	1	CHRND	2	233396134	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	5733465	233396134	9803239	49	42979											
CNTN4	152330	broad.mit.edu	37	chr3	2967352	2967352	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaacactcttgaaaagagTaactcttgtcaaagtgggag	16	9	10	6	0	3	3	1	1	2	2	3	4	3	4	0	1	2	1	0	1	6	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:2967352T>C	uc003bpc.2	+	12	1468	c.1247T>C	c.(1246-1248)GTA>GCA	p.V416A	CNTN4_uc003bpb.1_Missense_Mutation_p.V88A|CNTN4_uc003bpd.1_Missense_Mutation_p.V416A|CNTN4_uc003bpe.2_Missense_Mutation_p.V88A|CNTN4_uc003bpf.2_Missense_Mutation_p.V88A	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	416	Ig-like C2-type 5.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		TTGAAAAGAGTAACTCTTGTC	0.368													12	100					0	0	0.013537	0	0		C	2967352	C	C	2967352	3	2	62	1	0	0	0	0	1	0	0	0	3646	1638	57	3	1285	3	CNTN4	3	2967352	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08		2967352	195055078	50	42980											
RAB5A	5868	broad.mit.edu	37	chr3	20017628	20017628	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttatcgggaaacaaggcCgacctagcaaataaaagagc	16	6	10	9	2	0	1	0	0	0	1	1	3	0	2	2	2	3	2	2	2	7	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:20017628C>T	uc003cbn.2	+	4	940	c.405C>T	c.(403-405)GCC>GCT	p.A135A	RAB5A_uc010hey.2_RNA|RAB5A_uc011awg.1_Silent_p.A121A	NM_004162	NP_004153	P20339	RAB5A_HUMAN	RAB5A, member RAS oncogene family	135	GTP.				blood coagulation|protein transport|receptor internalization|regulation of filopodium assembly|small GTPase mediated signal transduction	early endosome membrane|melanosome|plasma membrane	GDP binding|GTP binding|GTPase activity				0						GAAACAAGGCCGACCTAGCAA	0.363													4	49					0	0	0.009096	0	0		T	20017628	T	T	20017628	2	4	62	1	0	0	0	0	0	0	0	1	12973	639	23	1		1	RAB5A	3	20017628	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	17050276	20017628	178004802	51	42981											
SUSD5	26032	broad.mit.edu	37	chr3	33195442	33195442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcctcatctgcctctgtccGggaatcctccatgagctctc	5	12	8	16	1	4	1	1	1	3	0	9	2	8	2	5	1	2	1	5	1	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:33195442G>A	uc003cfo.1	-	5	1100	c.682C>T	c.(682-684)CGG>TGG	p.R228W		NM_015551	NP_056366	O60279	SUSD5_HUMAN	sushi domain containing 5 precursor	228	Extracellular (Potential).				cell adhesion	integral to membrane	hyaluronic acid binding			ovary(1)|central_nervous_system(1)	2						GCCTCTGTCCGGGAATCCTCC	0.512													5	30					0	0	0.000602	0	0		A	33195442	A	A	33195442	3	1	62	1	0	0	0	0	1	0	0	0	15436	1115	39	1	1211	1	SUSD5	3	33195442	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	13177814	33195442	164826988	52	42982											
ZNF621	285268	broad.mit.edu	37	chr3	40574034	40574034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcatcagagattacacaCgggagagaaactctataaat	17	7	9	8	1	2	2	1	0	1	2	2	5	2	3	0	1	3	2	0	1	5	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:40574034C>T	uc003ckm.2	+	5	989	c.773C>T	c.(772-774)ACG>ATG	p.T258M	ZNF621_uc003ckn.2_Missense_Mutation_p.T258M|ZNF621_uc003cko.2_Missense_Mutation_p.T223M|ZNF621_uc011aze.1_Missense_Mutation_p.T250M	NM_001098414	NP_001091884	Q6ZSS3	ZN621_HUMAN	zinc finger protein 621	258					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0515)|Kidney(284;0.0648)		AGATTACACACGGGAGAGAAA	0.433													11	51					0	0	0.013537	0	0		T	40574034	T	T	40574034	3	4	62	1	0	0	0	0	1	0	0	0	18070	536	19	1	787	1	ZNF621	3	40574034	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	7378592	40574034	157448396	53	42983											
LOC646498	646498	broad.mit.edu	37	chr3	49227333	49227333	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgacatctcagagaagaaAggtaaagcctgtcccaggga	14	7	11	9	0	2	3	1	1	2	2	4	5	3	4	2	2	1	1	2	2	4	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:49227333A>C	uc011bcj.1	-	1	95	c.89T>G	c.(88-90)CTT>CGT	p.L30R		NM_001080528	NP_001073997			hypothetical LOC646498												0				BRCA - Breast invasive adenocarcinoma(193;8.04e-05)|Kidney(197;0.00221)|KIRC - Kidney renal clear cell carcinoma(197;0.00247)		CAGAGAAGAAAGGTAAAGCCT	0.507													21	151					0	0	0.008871	0	0		C	49227333	C	C	49227333	3	2	62	1	0	0	0	0	1	0	0	0	8902	87	3	5		5	LOC646498	3	49227333	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	8653299	49227333	148795097	54	42984											
STAB1	23166	broad.mit.edu	37	chr3	52556204	52556204	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcacagatggccaccgCgggggctgcagcgagcacgc	7	3	15	16	4	0	1	0	0	0	1	0	2	0	1	3	3	4	4	3	3	0	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:52556204C>T	uc003dej.2	+	59	6497	c.6423C>T	c.(6421-6423)CGC>CGT	p.R2141R	STAB1_uc003dek.1_Silent_p.R156R|STAB1_uc003del.2_Silent_p.R28R	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2141	EGF-like 16.|Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		ATGGCCACCGCGGGGGCTGCA	0.667													9	45					0	0	0.006214	0	0		T	52556204	T	T	52556204	2	4	62	1	0	0	0	0	0	0	0	1	15262	755	27	1		1	STAB1	3	52556204	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	3328871	52556204	145466226	55	42985											
PBRM1	55193	broad.mit.edu	37	chr3	52610695	52610695	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaatatgcagctccatctcGaacccatactttttcaattc	13	13	3	12	1	2	0	1	0	1	0	5	1	3	0	2	0	4	2	2	0	6	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:52610695G>A	uc003des.2	-	22	3565	c.3553C>T	c.(3553-3555)CGA>TGA	p.R1185*	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Nonsense_Mutation_p.R1185*|PBRM1_uc003der.2_Nonsense_Mutation_p.R1153*|PBRM1_uc003det.2_Nonsense_Mutation_p.R1200*|PBRM1_uc003deu.2_Nonsense_Mutation_p.R1200*|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Nonsense_Mutation_p.R1185*|PBRM1_uc010hmk.1_Nonsense_Mutation_p.R1160*|PBRM1_uc003dey.2_Nonsense_Mutation_p.R1160*|PBRM1_uc003dez.1_Nonsense_Mutation_p.R1184*	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	1185	BAH 2.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding	p.R1185*(1)		kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		GCTCCATCTCGAACCCATACT	0.338			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								12	36					0	0	0.013537	0	0		A	52610695	A	A	52610695	4	1	62	1	0	0	0	0	0	1	0	0	11510	1066	37	1	1383	1	PBRM1	3	52610695	Nonsense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	54491	52610695	145411735	56	42986											
ABHD6	57406	broad.mit.edu	37	chr3	58260420	58260420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgacaatcaatttgtacaaCggctcaaagaactgcagggc	14	8	9	10	1	2	2	2	1	0	1	2	2	2	2	0	2	4	3	0	2	6	2	rs34260150		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:58260420C>T	uc003djs.3	+	6	969	c.559C>T	c.(559-561)CGG>TGG	p.R187W	ABHD6_uc003djr.2_Missense_Mutation_p.R187W|ABHD6_uc003djt.3_Missense_Mutation_p.R187W	NM_020676	NP_065727	Q9BV23	ABHD6_HUMAN	abhydrolase domain containing 6	187	Cytoplasmic (Potential).					integral to membrane	acylglycerol lipase activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(55;0.000225)|KIRC - Kidney renal clear cell carcinoma(284;0.0471)|Kidney(284;0.0589)|OV - Ovarian serous cystadenocarcinoma(275;0.209)		ATTTGTACAACGGCTCAAAGA	0.468													11	86					0	0	0.008291	0	0		T	58260420	T	T	58260420	3	4	62	1	0	0	0	0	1	0	0	0	86	527	19	1	577	1	ABHD6	3	58260420	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	5649725	58260420	139762010	57	42987											
PROS1	5627	broad.mit.edu	37	chr3	93619668	93619668	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacaagactttgatttgAgattatatctgtagccttcg	10	16	7	8	1	2	3	1	2	1	2	3	4	2	3	1	0	1	1	1	0	4	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:93619668A>G	uc003drb.3	-	7	1048	c.707T>C	c.(706-708)CTC>CCC	p.L236P	PROS1_uc010hoo.2_Missense_Mutation_p.L105P|PROS1_uc003dqz.3_Missense_Mutation_p.L105P	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	236	EGF-like 3; calcium-binding (Potential).				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	CTTTGATTTGAGATTATATCT	0.433													4	58					0	0	0.009096	0	0		G	93619668	G	G	93619668	3	3	62	1	0	0	0	0	1	0	0	0	12580	304	11	3	1359	3	PROS1	3	93619668	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	35359248	93619668	104402762	58	42988											
TOMM70A	9868	broad.mit.edu	37	chr3	100093959	100093959	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggctgctgctgttgcatgTacatgctgcctcttttgatg	6	15	11	9	0	1	1	0	1	1	0	1	1	1	1	1	1	6	7	1	1	2	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:100093959T>A	uc003dtw.2	-	7	1562	c.1130A>T	c.(1129-1131)TAC>TTC	p.Y377F		NM_014820	NP_055635	O94826	TOM70_HUMAN	translocase of outer mitochondrial membrane 70	377	Cytoplasmic (Potential).|TPR 5.				protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane translocase complex	protein binding|protein transmembrane transporter activity			ovary(1)	1						CTGTTGCATGTACATGCTGCC	0.428													8	109					0	0	0.004482	0	0		A	100093959	A	A	100093959	3	1	62	1	0	0	0	0	1	0	0	0	16388	1638	57	5	720	5	TOMM70A	3	100093959	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	6474291	100093959	97928471	59	42989											
ALCAM	214	broad.mit.edu	37	chr3	105264131	105264131	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggtgatgccctacccgtGtcatgcacaatatctgctag	9	12	9	11	1	2	1	1	1	1	0	2	1	2	1	2	1	4	2	2	1	4	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:105264131G>A	uc003dvx.2	+	9	1596	c.1056G>A	c.(1054-1056)GTG>GTA	p.V352V	ALCAM_uc003dvw.1_Silent_p.V352V|ALCAM_uc003dvy.2_Silent_p.V352V|ALCAM_uc011bhh.1_3'UTR|ALCAM_uc010hpp.2_Silent_p.V74V|ALCAM_uc003dvz.2_5'UTR	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	352	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						CCCTACCCGTGTCATGCACAA	0.403													13	83					0	0	0.001855	0	0		A	105264131	A	A	105264131	2	1	62	1	0	0	0	0	0	0	0	1	487	1364	48	4		4	ALCAM	3	105264131	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	5170172	105264131	92758299	60	42990											
ZBTB20	26137	broad.mit.edu	37	chr3	114058128	114058128	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtggaggcgcatgtgcacGttgagggagctcttctgggt	5	10	18	8	3	2	1	0	1	2	0	2	3	2	3	0	5	2	4	0	5	0	2	rs144019743	byFrequency	TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:114058128G>A	uc003ebi.2	-	5	2130	c.1950C>T	c.(1948-1950)AAC>AAT	p.N650N	ZBTB20_uc003ebj.2_Silent_p.N577N|ZBTB20_uc010hqp.2_Silent_p.N577N|ZBTB20_uc003ebk.2_Silent_p.N577N|ZBTB20_uc003ebl.2_Silent_p.N577N|ZBTB20_uc003ebm.2_Silent_p.N577N|ZBTB20_uc003ebn.2_Silent_p.N577N	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	650	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GCATGTGCACGTTGAGGGAGC	0.532													9	119					0	0	0.006214	0	0		A	114058128	A	A	114058128	2	1	62	1	0	0	0	0	0	0	0	1	17554	1136	40	1		1	ZBTB20	3	114058128	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	8793997	114058128	83964302	61	42991											
SEMA5B	54437	broad.mit.edu	37	chr3	122632748	122632748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagatgcggcccccgtggcGgggagcagggttgctgcaac	6	5	18	12	3	0	1	0	0	0	1	0	2	0	2	2	5	5	5	2	5	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:122632748G>A	uc003efz.1	-	15	2393	c.2089C>T	c.(2089-2091)CGC>TGC	p.R697C	SEMA5B_uc011bju.1_Missense_Mutation_p.R639C|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.R697C|SEMA5B_uc010hro.1_Missense_Mutation_p.R639C|SEMA5B_uc003efy.1_5'Flank	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	697	Extracellular (Potential).|TSP type-1 1.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		CCCCCGTGGCGGGGAGCAGGG	0.672													7	63					0	0	0.00308	0	0		A	122632748	A	A	122632748	3	1	62	1	0	0	0	0	1	0	0	0	14063	1116	39	1	1402	1	SEMA5B	3	122632748	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	8574620	122632748	75389682	62	42992											
KALRN	8997	broad.mit.edu	37	chr3	124103819	124103819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcatccaagacttcgtgcGcagggtggagcagcggaagc	9	5	16	11	4	0	1	0	0	0	1	2	3	1	3	1	3	4	3	1	3	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:124103819G>A	uc003ehg.2	+	11	2019	c.1892G>A	c.(1891-1893)CGC>CAC	p.R631H	KALRN_uc010hrv.1_Missense_Mutation_p.R631H|KALRN_uc003ehf.1_Missense_Mutation_p.R631H|KALRN_uc011bjy.1_Missense_Mutation_p.R631H|KALRN_uc003ehh.1_5'UTR	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	631	Spectrin 3.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GACTTCGTGCGCAGGGTGGAG	0.572													7	72					0	0	0.00308	0	0		A	124103819	A	A	124103819	3	1	62	1	0	0	0	0	1	0	0	0	7991	1087	38	1	1934	1	KALRN	3	124103819	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1471071	124103819	73918611	63	42993											
UROC1	131669	broad.mit.edu	37	chr3	126229550	126229550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtacatgtagatgtgtcCgtacagttgcagctcctggg	7	11	13	10	2	0	1	0	0	0	1	2	1	2	1	3	2	4	6	3	2	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:126229550C>T	uc003eiz.1	-	2	246	c.214G>A	c.(214-216)GGA>AGA	p.G72R	UROC1_uc010hsi.1_Missense_Mutation_p.G72R	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	72					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		TAGATGTGTCCGTACAGTTGC	0.612													4	37					0	0	0.009096	0	0		T	126229550	T	T	126229550	3	4	62	1	0	0	0	0	1	0	0	0	17054	661	23	1	2076	1	UROC1	3	126229550	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2125731	126229550	71792880	64	42994											
CPNE4	131034	broad.mit.edu	37	chr3	131442406	131442406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacctcctcaaagtaaaagtCcacagtaaacagttttgagt	15	10	6	10	0	1	1	1	1	0	0	3	1	3	1	3	0	1	3	3	0	5	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:131442406C>T	uc003eok.2	-	3	679	c.244G>A	c.(244-246)GAC>AAC	p.D82N	CPNE4_uc011blq.1_Missense_Mutation_p.D100N|CPNE4_uc003eol.2_Missense_Mutation_p.D100N|CPNE4_uc003eom.2_Missense_Mutation_p.D82N	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	82	C2 1.									upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						AAGTAAAAGTCCACAGTAAAC	0.493													12	140					0	0	0.013537	0	0		T	131442406	T	T	131442406	3	4	62	1	0	0	0	0	1	0	0	0	3817	855	30	4	1485	4	CPNE4	3	131442406	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	5212856	131442406	66580024	65	42995											
BCHE	590	broad.mit.edu	37	chr3	165547539	165547539	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgaactccaaggcagggCatatgaaattataatcccca	14	9	9	9	0	0	2	0	2	0	0	2	2	2	2	3	3	1	2	3	3	6	3	rs149097236		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:165547539C>A	uc003fem.3	-	2	1443	c.1283G>T	c.(1282-1284)TGC>TTC	p.C428F	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	428					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	CAAGGCAGGGCATATGAAATT	0.438													26	106					8.24728e-16	9.5018e-16	0.004656	1	0		A	165547539	A	A	165547539	3	1	62	1	0	0	0	0	1	0	0	0	1359	710	25	5	537	5	BCHE	3	165547539	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	34105133	165547539	32474891	66	42996											
SERPINI2	5276	broad.mit.edu	37	chr3	167183292	167183292	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgttctcagaagagccttCatcattggaattttgacagt	10	16	8	7	0	3	3	3	1	1	2	4	4	3	4	1	1	1	1	1	1	2	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:167183292C>A	uc003fer.1	-	3	706	c.648G>T	c.(646-648)ATG>ATT	p.M216I	SERPINI2_uc003fes.1_Missense_Mutation_p.M226I|SERPINI2_uc003fet.1_Missense_Mutation_p.M216I	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),	216					cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						GAAGAGCCTTCATCATTGGAA	0.313													18	75					2.94398e-08	3.27198e-08	0.007413	1	0		A	167183292	A	A	167183292	3	1	62	1	0	0	0	0	1	0	0	0	14144	826	29	5	593	5	SERPINI2	3	167183292	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1635753	167183292	30839138	67	42997											
PIK3CA	5290	broad.mit.edu	37	chr3	178936082	178936082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctacacgagatcctctctctGaaatcactgagcaggagaaa	14	8	8	11	1	3	4	1	2	2	2	5	6	4	4	1	1	2	1	1	1	3	1	rs121913273		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:178936082G>A	uc003fjk.2	+	10	1781	c.1624G>A	c.(1624-1626)GAA>AAA	p.E542K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	542	PI3K helical.		E -> V (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation).|E -> Q (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E542K(481)|p.E542V(8)|p.E542Q(6)|p.E542G(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCCTCTCTCTGAAATCACTGA	0.333	E542K(SW948_LARGE_INTESTINE)|E542K(T84_LARGE_INTESTINE)|E542K(CAL51_BREAST)|E542K(JHUEM1_ENDOMETRIUM)|E542K(NCIH1341_LUNG)|E542K(VMCUB1_URINARY_TRACT)|E542K(BT483_BREAST)|E542K(HGC27_STOMACH)|E542K(IM95_STOMACH)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			4	58					0	0	0.009096	0	0		A	178936082	A	A	178936082	3	1	62	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1658	4	PIK3CA	3	178936082	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	11752790	178936082	19086348	68	42998											
PIK3CA	5290	broad.mit.edu	37	chr3	178936094	178936094	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctctctgaaatcactgagCaggagaaagattttctatgg	12	12	9	8	0	4	4	1	2	3	2	5	5	4	4	0	2	1	1	0	2	3	3	rs121913286		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:178936094C>A	uc003fjk.2	+	10	1793	c.1636C>A	c.(1636-1638)CAG>AAG	p.Q546K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	546	PI3K helical.		Q -> K (in cancer).|Q -> P (in cancer).|Q -> E (in cancer).|Q -> R (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.Q546K(54)|p.Q546R(17)|p.Q546P(10)|p.Q546E(9)|p.Q546L(6)|p.Q546H(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AATCACTGAGCAGGAGAAAGA	0.358		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			4	57					0.00909568	0.00925406	0.009096	1	0		A	178936094	A	A	178936094	3	1	62	1	0	0	0	0	1	0	0	0	11932	711	25	5	1670	5	PIK3CA	3	178936094	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	12	178936094	19086336	69	42999											
VPS8	23355	broad.mit.edu	37	chr3	184573526	184573526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttccagtgtgccactgctgGcctggcactttgtagcagta	6	12	11	12	0	0	0	0	0	0	0	1	0	1	0	3	2	3	5	3	2	2	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:184573526G>A	uc003fpb.1	+	13	1228	c.1057G>A	c.(1057-1059)GCC>ACC	p.A353T	VPS8_uc010hyd.1_Missense_Mutation_p.A353T	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	355							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			GCCACTGCTGGCCTGGCACTT	0.388													23	186					0	0	0.00333	0	0		A	184573526	A	A	184573526	3	1	62	1	0	0	0	0	1	0	0	0	17244	1203	42	2	1109	2	VPS8	3	184573526	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	5637432	184573526	13448904	70	43000											
ATP13A5	344905	broad.mit.edu	37	chr3	193080199	193080199	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcttcactggtcagaccCaatccaaatgtctgatggat	10	12	8	11	0	4	2	2	1	2	1	5	3	5	3	2	2	1	1	2	2	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:193080199C>T	uc011bsq.1	-	5	507	c.507G>A	c.(505-507)TTG>TTA	p.L169L		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	169					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		TGGTCAGACCCAATCCAAATG	0.418													13	100					0	0	0.003163	0	0		T	193080199	T	T	193080199	2	4	62	1	0	0	0	0	0	0	0	1	1128	593	21	4		4	ATP13A5	3	193080199	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	8506673	193080199	4942231	71	43001											
UBXN7	26043	broad.mit.edu	37	chr3	196098766	196098766	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgattaactctccttctcaCctgccagaaaatgaaatgtt	12	13	5	11	0	2	3	1	2	2	1	4	3	2	3	3	0	2	1	3	0	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr3:196098766C>T	uc003fwm.3	-	6	690	c.615_splice	c.e6+1	p.Q205_splice	UBXN7_uc003fwn.3_Splice_Site_p.Q57_splice|UBXN7_uc010iae.2_Splice_Site_p.Q43_splice	NM_015562	NP_056377	O94888	UBXN7_HUMAN	UBX domain containing 7								protein binding			ovary(2)|pancreas(1)	3						CTCCTTCTCACCTGCCAGAAA	0.378													12	107					0	0	0.001855	0	0		T	196098766	T	T	196098766	5	4	62	1	0	0	0	0	0	0	1	0	16944	521	18	4	877	4	UBXN7	3	196098766	Splice_Site	SNP	C	TCGA-BR-8284-01A-11D-2340-08	3018567	196098766	1923664	72	43002											
C4orf44	345222	broad.mit.edu	37	chr4	3251104	3251104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacggacgccgagatgcGcggcctcatgctggtctggg	5	7	17	12	5	2	1	1	0	1	1	2	4	2	3	2	5	2	1	2	5	0	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:3251104G>A	uc003ggs.2	+	1	338	c.155G>A	c.(154-156)CGC>CAC	p.R52H	C4orf44_uc003ggt.2_Missense_Mutation_p.R52H	NM_001042690	NP_001036155	Q6ZTZ1	CD044_HUMAN	hypothetical protein LOC345222 isoform a	52											0						GCCGAGATGCGCGGCCTCATG	0.677													3	6					0	0	0.009096	0	0		A	3251104	A	A	3251104	3	1	62	1	0	0	0	0	1	0	0	0	2275	1087	38	1	157	1	C4orf44	4	3251104	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08		3251104	187903172	73	43003											
EVC2	132884	broad.mit.edu	37	chr4	5627539	5627539	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagctttttcttttcctgCtttaagtcattgtccaactt	6	20	6	9	0	2	0	1	0	1	0	4	1	4	1	2	1	3	2	2	1	2	8			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:5627539C>A	uc003gij.2	-	13	2037	c.1983G>T	c.(1981-1983)AAG>AAT	p.K661N	EVC2_uc011bwb.1_Missense_Mutation_p.K101N|EVC2_uc003gik.2_Missense_Mutation_p.K581N	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	661	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						TCTTTTCCTGCTTTAAGTCAT	0.368													15	69					2.61681e-11	2.95657e-11	0.00245	1	0		A	5627539	A	A	5627539	3	1	62	1	0	0	0	0	1	0	0	0	5294	796	28	5	1983	5	EVC2	4	5627539	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2376435	5627539	185526737	74	43004											
EVC	2121	broad.mit.edu	37	chr4	5803748	5803748	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagccgcctggtgcaggcGtattaccagcaaatcggaag	10	7	13	11	3	1	0	1	0	0	0	2	1	1	1	3	3	4	3	3	3	4	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:5803748G>A	uc003gil.1	+	16	2560	c.2376G>A	c.(2374-2376)GCG>GCA	p.A792A	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	792					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				TGGTGCAGGCGTATTACCAGC	0.607													7	39					0	0	0.001984	0	0		A	5803748	A	A	5803748	2	1	62	1	0	0	0	0	0	0	0	1	5293	1132	40	1		1	EVC	4	5803748	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	176209	5803748	185350528	75	43005											
MAN2B2	23324	broad.mit.edu	37	chr4	6606906	6606906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagagggcacccaggagcCggctgccactgtggcgagca	9	3	15	14	2	0	1	0	0	0	1	0	3	0	2	4	4	3	3	4	4	1	0	rs142864633		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:6606906C>T	uc003gjf.1	+	11	1700	c.1664C>T	c.(1663-1665)CCG>CTG	p.P555L	MAN2B2_uc003gje.1_Missense_Mutation_p.P555L|MAN2B2_uc011bwf.1_Missense_Mutation_p.P504L	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	555					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						ACCCAGGAGCCGGCTGCCACT	0.607													10	86					0	0	0.008291	0	0		T	6606906	T	T	6606906	3	4	62	1	0	0	0	0	1	0	0	0	9235	652	23	1	1706	1	MAN2B2	4	6606906	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	803158	6606906	184547370	76	43006											
BOD1L	259282	broad.mit.edu	37	chr4	13606646	13606646	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccgggcaggtttacttggTtcactttttgcatgaacatg	7	15	10	9	1	1	1	1	1	0	0	2	1	2	1	1	3	3	4	1	3	2	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:13606646T>C	uc003gmz.1	-	10	1995	c.1878A>G	c.(1876-1878)GAA>GAG	p.E626E	BOD1L_uc010idr.1_5'UTR	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	626	Lys-rich.						DNA binding			ovary(5)|breast(1)	6						GTTTACTTGGTTCACTTTTTG	0.343													11	44					0	0	0.010729	0	0		C	13606646	C	C	13606646	2	2	62	1	0	0	0	0	0	0	0	1	1484	1722	60	3		3	BOD1L	4	13606646	Silent	SNP	T	TCGA-BR-8284-01A-11D-2340-08	6999740	13606646	177547630	77	43007											
PPARGC1A	10891	broad.mit.edu	37	chr4	23803856	23803856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagattctcacccatcatccCgcagatttactgtgcactcc	10	11	5	15	1	2	2	2	0	1	2	5	2	4	2	3	0	2	2	3	0	2	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:23803856C>T	uc003gqs.2	-	11	2252	c.2132G>A	c.(2131-2133)CGG>CAG	p.R711Q	PPARGC1A_uc003gqt.2_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	711	RRM.				androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				CCCATCATCCCGCAGATTTAC	0.403													11	81					0	0	0.013537	0	0		T	23803856	T	T	23803856	3	4	62	1	0	0	0	0	1	0	0	0	12319	652	23	1	276	1	PPARGC1A	4	23803856	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	10197210	23803856	167350420	78	43008											
GABRA4	2557	broad.mit.edu	37	chr4	46995377	46995377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaccgccaggcacaggaagCgcaggagggcgaaactgacc	14	1	14	12	3	0	1	0	1	0	0	0	4	0	3	3	4	3	2	3	4	3	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:46995377C>T	uc003gxg.2	-	1	204	c.65G>A	c.(64-66)CGC>CAC	p.R22H		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	22					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GCACAGGAAGCGCAGGAGGGC	0.592													8	80					0	0	0.006214	0	0		T	46995377	T	T	46995377	3	4	62	1	0	0	0	0	1	0	0	0	6177	768	27	1	1635	1	GABRA4	4	46995377	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	23191521	46995377	144158899	79	43009											
ATP10D	57205	broad.mit.edu	37	chr4	47517498	47517498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgtttgggttgcagagctgCcaatttatatttcctgttcc	6	17	10	8	0	0	1	0	0	0	1	2	1	2	1	3	1	3	5	3	1	3	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:47517498C>T	uc003gxk.1	+	3	460	c.296C>T	c.(295-297)GCC>GTC	p.A99V	ATP10D_uc003gxj.3_Missense_Mutation_p.A99V	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	99	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						TGCAGAGCTGCCAATTTATAT	0.418													10	61					0	0	0.008291	0	0		T	47517498	T	T	47517498	3	4	62	1	0	0	0	0	1	0	0	0	1119	739	26	2	302	2	ATP10D	4	47517498	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	522121	47517498	143636778	80	43010											
YTHDC1	91746	broad.mit.edu	37	chr4	69184574	69184574	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggtatcgtggatcctttAaataccctgttcaaacatca	11	13	6	11	1	2	0	2	0	0	0	4	1	3	1	3	2	2	2	3	2	5	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:69184574A>G	uc003hdx.2	-	13	2044	c.1691T>C	c.(1690-1692)TTA>TCA	p.L564S	YTHDC1_uc003hdy.2_Missense_Mutation_p.L546S	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	564	Arg-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						TGGATCCTTTAAATACCCTGT	0.323													8	71					0	0	0.00308	0	0		G	69184574	G	G	69184574	3	3	62	1	0	0	0	0	1	0	0	0	17522	372	13	3	512	3	YTHDC1	4	69184574	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	21667076	69184574	121969702	81	43011											
NPFFR2	10886	broad.mit.edu	37	chr4	72897896	72897896	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggattctggttcctgccgCcgacagggctcgccgggaga	5	8	16	12	4	1	1	0	0	1	1	3	4	2	2	4	4	1	2	4	4	0	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:72897896C>A	uc003hgg.2	+	1	376	c.278C>A	c.(277-279)GCC>GAC	p.A93D	NPFFR2_uc010iig.1_5'UTR	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	93	Extracellular (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			GTTCCTGCCGCCGACAGGGCT	0.642													8	15					2.74318e-10	3.0908e-10	0.006214	1	0		A	72897896	A	A	72897896	3	1	62	1	0	0	0	0	1	0	0	0	10597	739	26	5	280	5	NPFFR2	4	72897896	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	3713322	72897896	118256380	82	43012											
FRAS1	80144	broad.mit.edu	37	chr4	79461950	79461950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccctgtcacagactggggCgtccattggcagtgccctgg	5	9	14	13	1	1	1	1	0	0	1	3	1	3	1	3	4	1	1	3	4	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:79461950C>T	uc003hlb.2	+	74	12151	c.11711C>T	c.(11710-11712)GCG>GTG	p.A3904V		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	3899	Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						CAGACTGGGGCGTCCATTGGC	0.493													5	28					0	0	0.001168	0	0		T	79461950	T	T	79461950	3	4	62	1	0	0	0	0	1	0	0	0	6056	768	27	1	12080	1	FRAS1	4	79461950	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	6564054	79461950	111692326	83	43013											
SLC10A6	345274	broad.mit.edu	37	chr4	87744985	87744985	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagtcgatttcctcgtatgGcagacttctgtgcaacctga	9	12	10	10	2	1	2	0	1	1	1	4	4	2	2	2	1	2	3	2	1	3	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:87744985G>A	uc003hqd.2	-	6	1138	c.990C>T	c.(988-990)TGC>TGT	p.C330C		NM_197965	NP_932069	Q3KNW5	SOAT_HUMAN	sodium-dependent organic anion transporter	330	Cytoplasmic (Potential).					integral to membrane|plasma membrane	bile acid:sodium symporter activity				0		Acute lymphoblastic leukemia(40;0.244)|all_hematologic(202;0.248)		OV - Ovarian serous cystadenocarcinoma(123;0.00099)		TCCTCGTATGGCAGACTTCTG	0.448													9	63					0	0	0.006214	0	0		A	87744985	A	A	87744985	2	1	62	1	0	0	0	0	0	0	0	1	14403	1195	42	2		2	SLC10A6	4	87744985	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	8283035	87744985	103409291	84	43014											
ABCG2	9429	broad.mit.edu	37	chr4	89034556	89034556	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtgtagctgatctcctTgaagactgtgatcttcttct	6	16	11	8	0	4	4	0	3	4	1	5	4	4	4	1	2	1	2	1	2	2	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:89034556T>C	uc003hrg.2	-	9	1586	c.1093A>G	c.(1093-1095)AAG>GAG	p.K365E	ABCG2_uc003hrh.2_Missense_Mutation_p.K365E|ABCG2_uc003hrf.2_Missense_Mutation_p.K233E	NM_004827	NP_004818	Q9UNQ0	ABCG2_HUMAN	ATP-binding cassette, sub-family G, member 2	365	Cytoplasmic (Potential).				cellular iron ion homeostasis|urate metabolic process	integral to membrane|plasma membrane	ATP binding|heme transporter activity|protein homodimerization activity|xenobiotic-transporting ATPase activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Imatinib(DB00619)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nitrendipine(DB01054)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Topotecan(DB01030)	CTGATCTCCTTGAAGACTGTG	0.443													27	168					0	0	0.005443	0	0		C	89034556	C	C	89034556	3	2	62	1	0	0	0	0	1	0	0	0	69	1821	63	3	906	3	ABCG2	4	89034556	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	1289571	89034556	102119720	85	43015											
DDIT4L	115265	broad.mit.edu	37	chr4	101109029	101109029	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctcaaaagtaggtacgacGctagaatcacacacaatcct	16	7	7	11	2	2	1	2	0	0	1	3	2	3	1	1	1	2	4	1	1	7	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:101109029G>A	uc003hvq.2	-	3	590	c.387C>T	c.(385-387)AGC>AGT	p.S129S		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	129					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		TAGGTACGACGCTAGAATCAC	0.453													6	55					0	0	0.001168	0	0		A	101109029	A	A	101109029	2	1	62	1	0	0	0	0	0	0	0	1	4335	1078	38	1		1	DDIT4L	4	101109029	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	12074473	101109029	90045247	86	43016											
C4orf31	79625	broad.mit.edu	37	chr4	121966924	121966924	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaagttcctcatcccgggtGggtaacttctgggtccttga	8	12	11	10	1	2	1	1	1	1	0	5	1	5	1	3	3	1	2	3	3	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:121966924G>A	uc003idq.1	-	2	596	c.69C>T	c.(67-69)CCC>CCT	p.P23P		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	23											0						CATCCCGGGTGGGTAACTTCT	0.473													5	63					0	0	0.000602	0	0		A	121966924	A	A	121966924	2	1	62	1	0	0	0	0	0	0	0	1	2264	1335	47	4		4	C4orf31	4	121966924	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	20857895	121966924	69187352	87	43017											
PCDH10	57575	broad.mit.edu	37	chr4	134073201	134073201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgcatggactggcgcaccGgggagctgcgcacagcacgc	7	5	15	14	5	0	0	0	0	0	0	1	2	0	2	1	4	3	5	1	4	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:134073201G>A	uc003iha.2	+	1	2732	c.1906G>A	c.(1906-1908)GGG>AGG	p.G636R	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.G636R	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	636	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CTGGCGCACCGGGGAGCTGCG	0.682													10	53					0	0	0.008291	0	0		A	134073201	A	A	134073201	3	1	62	1	0	0	0	0	1	0	0	0	11526	1116	39	1	1908	1	PCDH10	4	134073201	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	12106277	134073201	57081075	88	43018											
TLL1	7092	broad.mit.edu	37	chr4	166986858	166986858	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaatatgattatgtggaGatctggagtggtctttcctc	9	15	11	6	0	2	2	0	1	2	1	4	4	3	3	1	3	1	1	1	3	3	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:166986858G>T	uc003irh.1	+	16	2678	c.2031G>T	c.(2029-2031)GAG>GAT	p.E677D	TLL1_uc011cjn.1_Missense_Mutation_p.E700D|TLL1_uc011cjo.1_Missense_Mutation_p.E501D	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	677	CUB 3.				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		ATTATGTGGAGATCTGGAGTG	0.373													13	68					2.27111e-07	2.48365e-07	0.013537	1	0		T	166986858	T	T	166986858	3	4	62	1	0	0	0	0	1	0	0	0	15970	933	33	5	2093	5	TLL1	4	166986858	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	32913657	166986858	24167418	89	43019											
FAM149A	25854	broad.mit.edu	37	chr4	187074826	187074826	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagacagctgatcctgccCactgacaaaggcgtccagca	12	5	11	13	1	0	3	0	2	0	1	2	4	2	4	3	2	3	2	3	2	2	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:187074826C>T	uc003iyt.3	+	5	693	c.114C>T	c.(112-114)CCC>CCT	p.P38P	FAM149A_uc011cla.1_Silent_p.P38P|FAM149A_uc010isj.2_Silent_p.P38P|FAM149A_uc010isk.2_RNA|FAM149A_uc003iyu.3_Silent_p.P38P|FAM149A_uc010isl.2_Silent_p.P38P|FAM149A_uc011clb.1_Silent_p.P38P	NM_015398	NP_056213	A5PLN7	F149A_HUMAN	hypothetical protein LOC25854	329										breast(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.19e-10)|BRCA - Breast invasive adenocarcinoma(30;1.22e-05)|GBM - Glioblastoma multiforme(59;0.000122)|STAD - Stomach adenocarcinoma(60;0.000288)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.166)		TGATCCTGCCCACTGACAAAG	0.507													37	132					0	0	0.00623	0	0		T	187074826	T	T	187074826	2	4	62	1	0	0	0	0	0	0	0	1	5466	581	21	4		4	FAM149A	4	187074826	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	20087968	187074826	4079450	90	43020											
ZFP42	132625	broad.mit.edu	37	chr4	188924094	188924094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaaatagaacctgtcagcGcggtgtgggccttatgtgat	9	10	14	8	3	1	2	1	1	0	1	1	3	1	3	2	3	2	0	2	3	4	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr4:188924094G>A	uc003izg.1	+	3	378	c.133G>A	c.(133-135)GCG>ACG	p.A45T	ZFP42_uc003izh.1_Missense_Mutation_p.A45T|ZFP42_uc003izi.1_Missense_Mutation_p.A45T	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	45					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		ACCTGTCAGCGCGGTGTGGGC	0.557													7	58					0	0	0.001984	0	0		A	188924094	A	A	188924094	3	1	62	1	0	0	0	0	1	0	0	0	17675	1087	38	1	135	1	ZFP42	4	188924094	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1849268	188924094	2230182	91	43021											
NDUFS6	4726	broad.mit.edu	37	chr5	1814513	1814513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgtgagcgaggtggagactCgggtgatagcgtgcgatggc	7	7	19	8	5	0	3	0	2	0	1	1	6	0	3	1	4	3	0	1	4	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:1814513C>T	uc003jcy.2	+	3	270	c.247C>T	c.(247-249)CGG>TGG	p.R83W		NM_004553	NP_004544	O75380	NDUS6_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 6,	83					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I	electron carrier activity|NADH dehydrogenase (ubiquinone) activity			central_nervous_system(1)	1					NADH(DB00157)	GGTGGAGACTCGGGTGATAGC	0.507													21	80					0	0	0.00333	0	0		T	1814513	T	T	1814513	3	4	62	1	0	0	0	0	1	0	0	0	10315	875	31	1	257	1	NDUFS6	5	1814513	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08		1814513	179100747	92	43022											
ADCY2	108	broad.mit.edu	37	chr5	7626396	7626396	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtaattgcatcaagtcGcggatcaagttggaatttga	12	12	10	7	2	2	1	2	1	0	0	3	3	2	3	1	2	1	3	1	2	4	4	rs149422716		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:7626396G>A	uc003jdz.1	+	4	754	c.687G>A	c.(685-687)TCG>TCA	p.S229S		NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	229	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						GCATCAAGTCGCGGATCAAGT	0.393													22	70					0	0	0.012319	0	0		A	7626396	A	A	7626396	2	1	62	1	0	0	0	0	0	0	0	1	294	1074	38	1		1	ADCY2	5	7626396	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	5811883	7626396	173288864	93	43023											
DNAH5	1767	broad.mit.edu	37	chr5	13717570	13717570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagtgcaggaaagccactgCgtacagcatgggcttccact	10	7	13	11	1	0	0	0	0	0	0	1	2	1	2	2	3	5	4	2	3	2	2	rs141993196		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:13717570C>T	uc003jfd.2	-	73	12601	c.12559G>A	c.(12559-12561)GCA>ACA	p.A4187T	DNAH5_uc003jfc.2_Missense_Mutation_p.A355T	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4187	AAA 6 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AAAGCCACTGCGTACAGCATG	0.537									Kartagener_syndrome				5	46					0	0	0.000602	0	0		T	13717570	T	T	13717570	3	4	62	1	0	0	0	0	1	0	0	0	4610	768	27	1	1343	1	DNAH5	5	13717570	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	6091174	13717570	167197690	94	43024											
MYO10	4651	broad.mit.edu	37	chr5	16701576	16701576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaagttgggcttctcctcGcatgcgctctcagccagctc	5	12	10	14	2	2	1	1	1	2	0	6	1	2	1	2	1	3	5	2	1	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:16701576G>A	uc003jft.3	-	25	3396	c.2928C>T	c.(2926-2928)TGC>TGT	p.C976C	MYO10_uc011cnc.1_5'Flank|MYO10_uc011cnd.1_Silent_p.C333C|MYO10_uc011cne.1_Silent_p.C333C|MYO10_uc010itx.2_Silent_p.C599C	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	976					axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						GCTTCTCCTCGCATGCGCTCT	0.592													4	47					0	0	0.009096	0	0		A	16701576	A	A	16701576	2	1	62	1	0	0	0	0	0	0	0	1	10080	1079	38	1		1	MYO10	5	16701576	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2984006	16701576	164213684	95	43025											
RANBP3L	202151	broad.mit.edu	37	chr5	36257585	36257585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaagttgacaggaaatttcGgaatggatttgaatggtttt	14	14	11	2	1	0	2	0	2	0	0	1	5	0	5	0	4	0	2	0	4	5	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:36257585G>A	uc003jkh.2	-	9	1236	c.743C>T	c.(742-744)CCG>CTG	p.P248L	RANBP3L_uc011cow.1_Missense_Mutation_p.P273L	NM_145000	NP_659437	Q86VV4	RNB3L_HUMAN	RAN binding protein 3-like isoform 2	248					intracellular transport					ovary(1)	1	all_lung(31;4.52e-05)		Epithelial(62;0.0543)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.149)|Colorectal(62;0.202)			AGGAAATTTCGGAATGGATTT	0.313													15	40					0	0	0.003163	0	0		A	36257585	A	A	36257585	3	1	62	1	0	0	0	0	1	0	0	0	13055	1116	39	1	678	1	RANBP3L	5	36257585	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	19556009	36257585	144657675	96	43026											
CMYA5	202333	broad.mit.edu	37	chr5	79024982	79024982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggatgaagtgaaaaaggttCggaaaaggactcataagtca	17	8	12	4	1	2	2	2	2	0	0	3	5	2	5	0	4	0	1	0	4	6	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:79024982C>T	uc003kgc.2	+	2	466	c.394C>T	c.(394-396)CGG>TGG	p.R132W		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	132						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GAAAAAGGTTCGGAAAAGGAC	0.408													10	123					0	0	0.006214	0	0		T	79024982	T	T	79024982	3	4	62	1	0	0	0	0	1	0	0	0	3593	875	31	1	400	1	CMYA5	5	79024982	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	42767397	79024982	101890278	97	43027											
FBN2	2201	broad.mit.edu	37	chr5	127671202	127671202	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcactgcagctgcattcGtagcttccctctgaatttgt	6	14	7	14	1	2	1	1	1	1	0	4	1	3	1	2	0	4	5	2	0	2	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:127671202G>C	uc003kuu.2	-	29	4231	c.3792C>G	c.(3790-3792)TAC>TAG	p.Y1264*	FBN2_uc003kuv.2_Nonsense_Mutation_p.Y1231*	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1264	EGF-like 19; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		AGCTGCATTCGTAGCTTCCCT	0.438													13	182					0	0	0.00245	0	0		C	127671202	C	C	127671202	4	2	62	1	0	0	0	0	0	1	0	0	5717	1140	40	5	5094	5	FBN2	5	127671202	Nonsense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	48646220	127671202	53244058	98	43028											
VDAC1	7416	broad.mit.edu	37	chr5	133311636	133311636	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttactgtttcctgctgtccAggcaagattgacagcggtct	7	13	11	10	1	1	2	0	1	1	1	3	2	3	2	2	2	3	4	2	2	2	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:133311636A>G	uc003kyp.1	-	7	727	c.628T>C	c.(628-630)TGG>CGG	p.W210R	VDAC1_uc003kyq.1_Missense_Mutation_p.W210R|VDAC1_uc003kyr.1_Missense_Mutation_p.W210R	NM_003374	NP_003365	P21796	VDAC1_HUMAN	voltage-dependent anion channel 1	210	Beta stranded.				apoptosis|interspecies interaction between organisms	mitochondrial nucleoid|mitochondrial outer membrane|plasma membrane|pore complex	porin activity|protein binding|voltage-gated anion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00806)|Kidney(363;0.02)		Dihydroxyaluminium(DB01375)	CCTGCTGTCCAGGCAAGATTG	0.512													10	176					0	0	0.006214	0	0		G	133311636	G	G	133311636	3	3	62	1	0	0	0	0	1	0	0	0	17172	188	7	3	235	3	VDAC1	5	133311636	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	5640434	133311636	47603624	99	43029											
SMAD5	4090	broad.mit.edu	37	chr5	135513027	135513027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatctgttcattttcataggGttggggagcagaatatcacc	10	14	10	7	0	4	1	3	0	1	1	4	2	4	2	1	3	1	3	1	3	4	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:135513027G>A	uc003lbj.1	+	9	1700	c.1256G>A	c.(1255-1257)GGT>GAT	p.G419D	SMAD5_uc003lbk.1_Missense_Mutation_p.G419D|SMAD5_uc003lbl.1_Missense_Mutation_p.G419D	NM_001001419	NP_001001419	Q99717	SMAD5_HUMAN	SMAD family member 5	419	MH2.			G->S: Loss of phosphorylation.	BMP signaling pathway|embryonic pattern specification|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|ubiquitin protein ligase binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TTTTCATAGGGTTGGGGAGCA	0.408													3	23					0	0	0.004672	0	0		A	135513027	A	A	135513027	3	1	62	1	0	0	0	0	1	0	0	0	14786	1275	44	4	1278	4	SMAD5	5	135513027	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2201391	135513027	45402233	100	43030											
CXXC5	51523	broad.mit.edu	37	chr5	139060342	139060342	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctgcgccgctcccgcccGctctcccactactcttcttt	3	11	6	21	4	3	0	0	0	3	0	5	0	4	0	5	0	3	2	5	0	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:139060342G>A	uc010jfg.1	+	2	524	c.234G>A	c.(232-234)CCG>CCA	p.P78P	CXXC5_uc003let.2_Silent_p.P78P	NM_016463	NP_057547	Q7LFL8	CXXC5_HUMAN	CXXC finger 5	78					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|nucleus	DNA binding|signal transducer activity|zinc ion binding			central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTCCCGCCCGCTCTCCCACT	0.637													14	114					0	0	0.003163	0	0		A	139060342	A	A	139060342	2	1	62	1	0	0	0	0	0	0	0	1	4102	1074	38	1		1	CXXC5	5	139060342	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	3547315	139060342	41854918	101	43031											
NRG2	9542	broad.mit.edu	37	chr5	139231209	139231209	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcgctgtgtggggagtcGcgaagggagtccacggaatc	7	8	16	10	4	1	0	0	0	1	0	5	4	2	3	1	4	0	1	1	4	2	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:139231209G>A	uc003lex.1	-	9	1977	c.1752C>T	c.(1750-1752)CGC>CGT	p.R584R	NRG2_uc003lev.1_Silent_p.R592R|NRG2_uc003lew.1_Silent_p.R586R|NRG2_uc003ley.1_Silent_p.R578R	NM_004883	NP_004874	O14511	NRG2_HUMAN	neuregulin 2 isoform 1	584	Cytoplasmic (Potential).				embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGGGAGTCGCGAAGGGAGT	0.672													14	63					0	0	0.00245	0	0		A	139231209	A	A	139231209	2	1	62	1	0	0	0	0	0	0	0	1	10667	1074	38	1		1	NRG2	5	139231209	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	170867	139231209	41684051	102	43032											
PCDHAC2	56134	broad.mit.edu	37	chr5	140346661	140346661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcgctcttcgtcaacgagCgcattgatcgggaggcgctg	7	8	15	11	6	2	1	1	1	1	0	4	4	2	2	0	2	3	3	0	2	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:140346661C>T	uc003lii.2	+	1	550	c.310C>T	c.(310-312)CGC>TGC	p.R104C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Missense_Mutation_p.R104C	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	104	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTCAACGAGCGCATTGATCG	0.667													3	25					0	0	0.004672	0	0		T	140346661	T	T	140346661	3	4	62	1	0	0	0	0	1	0	0	0	11552	768	27	1	312	1	PCDHAC2	5	140346661	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1115452	140346661	40568599	103	43033											
PCDHB10	56126	broad.mit.edu	37	chr5	140574118	140574118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcacttgctcctggtggacGgcttctcccagccctacctg	4	11	10	16	1	1	0	0	0	1	0	3	1	2	1	4	3	4	3	4	3	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:140574118G>A	uc003lix.2	+	1	2167	c.1993G>A	c.(1993-1995)GGC>AGC	p.G665S		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	665	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTGGTGGACGGCTTCTCCCA	0.701													7	98					0	0	0.001984	0	0		A	140574118	A	A	140574118	3	1	62	1	0	0	0	0	1	0	0	0	11554	1116	39	1	1995	1	PCDHB10	5	140574118	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	227457	140574118	40341142	104	43034											
PCDHB15	56121	broad.mit.edu	37	chr5	140627116	140627116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcgctcggccaccgccaCgctgcaagtgctcctggtgg	4	7	13	17	5	0	0	0	0	0	0	3	0	2	0	5	3	2	4	5	3	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:140627116C>T	uc003lje.2	+	1	1970	c.1970C>T	c.(1969-1971)ACG>ATG	p.T657M		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	657	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCACCGCCACGCTGCAAGTG	0.697													7	95					0	0	0.00308	0	0		T	140627116	T	T	140627116	3	4	62	1	0	0	0	0	1	0	0	0	11559	536	19	1	1972	1	PCDHB15	5	140627116	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	52998	140627116	40288144	105	43035											
TAF7	6879	broad.mit.edu	37	chr5	140699167	140699167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcttctttgctgtcttccGgaaccttctcttcctgacat	4	19	5	13	1	4	1	0	1	4	0	7	2	6	2	3	1	2	1	3	1	1	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:140699167G>A	uc003ljg.2	-	1	1185	c.445C>T	c.(445-447)CGG>TGG	p.R149W		NM_005642	NP_005633	Q15545	TAF7_HUMAN	TATA box-binding protein-associated factor 2F	149					negative regulation of histone acetylation|negative regulation of protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|spermine transport|transcription initiation from RNA polymerase II promoter	Golgi apparatus|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	histone acetyltransferase binding|thyroid hormone receptor binding|transcription coactivator activity|transcription regulatory region DNA binding|vitamin D receptor binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGTCTTCCGGAACCTTCTC	0.398													6	122					0	0	0.004482	0	0		A	140699167	A	A	140699167	3	1	62	1	0	0	0	0	1	0	0	0	15557	1115	39	1	608	1	TAF7	5	140699167	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	72051	140699167	40216093	106	43036											
PCDHGA2	56113	broad.mit.edu	37	chr5	140720916	140720916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaaaggattttttatcagCgcctcaatctctactcgaag	13	12	7	9	2	3	0	2	0	1	0	5	3	3	1	1	1	2	0	1	1	6	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:140720916C>T	uc003ljk.1	+	1	2563	c.2378C>T	c.(2377-2379)GCG>GTG	p.A793V	PCDHGA1_uc003lji.1_Intron|PCDHGA3_uc003ljm.1_5'Flank|PCDHGA3_uc010jfx.1_5'Flank|PCDHGA2_uc011dao.1_Missense_Mutation_p.A793V|PCDHGA3_uc011dap.1_5'Flank	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	793	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTTTATCAGCGCCTCAATCT	0.453													9	152					0	0	0.004482	0	0		T	140720916	T	T	140720916	3	4	62	1	0	0	0	0	1	0	0	0	11573	768	27	1	2380	1	PCDHGA2	5	140720916	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	21749	140720916	40194344	107	43037											
PCDHGA12	26025	broad.mit.edu	37	chr5	140812130	140812130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagactccggccagaacGcctggctgtcctaccgtctg	8	7	11	15	3	1	2	0	0	1	2	3	3	3	2	5	2	2	1	5	2	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:140812130G>A	uc003lkt.1	+	1	1973	c.1804G>A	c.(1804-1806)GCC>ACC	p.A602T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.A602T	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	602	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGCCAGAACGCCTGGCTGTC	0.697													12	122					0	0	0.010729	0	0		A	140812130	A	A	140812130	3	1	62	1	0	0	0	0	1	0	0	0	11572	1087	38	1	1806	1	PCDHGA12	5	140812130	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	91214	140812130	40103130	108	43038											
PDE6A	5145	broad.mit.edu	37	chr5	149294523	149294523	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgggatgactttgatgtcCtctttgccatgcaggatgta	8	14	11	8	1	1	2	0	2	1	0	2	4	2	4	2	2	3	2	2	2	2	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:149294523C>A	uc003lrg.3	-	6	1101	c.981G>T	c.(979-981)GAG>GAT	p.E327D		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	327	GAF 2.				cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CTTTGATGTCCTCTTTGCCAT	0.194													7	90					8.12818e-05	8.56811e-05	0.001984	1	0		A	149294523	A	A	149294523	3	1	62	1	0	0	0	0	1	0	0	0	11664	680	24	5	1669	5	PDE6A	5	149294523	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	8482393	149294523	31620737	109	43039											
KIF4B	285643	broad.mit.edu	37	chr5	154396439	154396439	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagacagaaacatcttcCtaatgatacccttctatctc	13	11	4	13	0	3	3	0	1	3	2	5	3	4	3	2	0	3	1	2	0	4	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:154396439C>A	uc010jih.1	+	1	3180	c.3020C>A	c.(3019-3021)CCT>CAT	p.P1007H		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	1007	Interaction with PRC1 (By similarity).|Globular (By similarity).				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			AAACATCTTCCTAATGATACC	0.428													7	129					1.06961e-07	1.18236e-07	0.00308	1	0		A	154396439	A	A	154396439	3	1	62	1	0	0	0	0	1	0	0	0	8320	681	24	5	3022	5	KIF4B	5	154396439	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	5101916	154396439	26518821	110	43040											
FAM71B	153745	broad.mit.edu	37	chr5	156589984	156589984	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtccttcttttctcttCtttccttgttttcattccag	2	23	4	12	0	5	0	1	0	4	0	9	0	8	0	3	0	0	1	3	0	0	9			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:156589984C>A	uc003lwn.2	-	2	1392	c.1292G>T	c.(1291-1293)AGA>ATA	p.R431I		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	431						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTTTTCTCTTCTTTCCTTGTT	0.498													8	103					0.00307968	0.00314897	0.00308	1	0		A	156589984	A	A	156589984	3	1	62	1	0	0	0	0	1	0	0	0	5622	913	32	5	529	5	FAM71B	5	156589984	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2193545	156589984	24325276	111	43041											
EBF1	1879	broad.mit.edu	37	chr5	158141123	158141123	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctagacacccacagcgctcAcctggttgttgtgtggcatc	7	10	11	13	1	1	1	1	0	0	1	2	1	1	1	2	2	1	5	2	2	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:158141123A>G	uc010jip.2	-	12	1493	c.1191_splice	c.e12+1	p.Q397_splice	EBF1_uc011ddw.1_Splice_Site_p.Q265_splice|EBF1_uc011ddx.1_Splice_Site_p.Q398_splice|EBF1_uc003lxl.3_Splice_Site_p.Q366_splice	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor						multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CACAGCGCTCACCTGGTTGTT	0.448			T	HMGA2	lipoma								21	122					0	0	0.010504	0	0		G	158141123	G	G	158141123	5	3	62	1	0	0	0	0	0	0	1	0	4886	173	6	3	602	3	EBF1	5	158141123	Splice_Site	SNP	A	TCGA-BR-8284-01A-11D-2340-08	1551139	158141123	22774137	112	43042											
LCP2	3937	broad.mit.edu	37	chr5	169680150	169680150	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcgggggatgggggccgAggtttgtttggaagtggcaa	6	9	20	6	3	0	0	0	0	0	0	1	3	1	2	2	7	0	3	2	7	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:169680150A>C	uc003man.1	-	18	1425	c.1218T>G	c.(1216-1218)CCT>CCG	p.P406P	LCP2_uc011des.1_Silent_p.P201P|LCP2_uc011det.1_Silent_p.P235P	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	406					immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		ATGGGGGCCGAGGTTTGTTTG	0.453													4	12					0	0	0.009096	0	0		C	169680150	C	C	169680150	2	2	62	1	0	0	0	0	0	0	0	1	8708	291	11	5		5	LCP2	5	169680150	Silent	SNP	A	TCGA-BR-8284-01A-11D-2340-08	11539027	169680150	11235110	113	43043											
CPEB4	80315	broad.mit.edu	37	chr5	173317108	173317108	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatcaaggggacaattcttcGgaaaatggcaatgggaagga	16	7	13	5	1	2	0	1	0	1	0	3	4	2	4	0	6	0	1	0	6	7	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr5:173317108G>A	uc003mcs.3	+	1	1778	c.372G>A	c.(370-372)TCG>TCA	p.S124S	CPEB4_uc010jju.1_Silent_p.S124S|CPEB4_uc010jjv.2_Silent_p.S124S|CPEB4_uc011dfg.1_Silent_p.S124S|CPEB4_uc003mct.3_5'Flank|CPEB4_uc003mcu.3_5'Flank	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	124							nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			ACAATTCTTCGGAAAATGGCA	0.453													12	73					0	0	0.001855	0	0		A	173317108	A	A	173317108	2	1	62	1	0	0	0	0	0	0	0	1	3806	1103	39	1		1	CPEB4	5	173317108	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	3636958	173317108	7598152	114	43044											
SERPINB6	5269	broad.mit.edu	37	chr6	2948552	2948552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacggagaggaaaagcggcCgcagaagagaatcccgttgg	13	4	15	9	4	1	3	1	0	0	3	2	6	2	4	2	4	1	2	2	4	4	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:2948552C>T	uc003muk.2	-	6	3106	c.1111G>A	c.(1111-1113)GGC>AGC	p.G371S	SERPINB6_uc003mui.2_Missense_Mutation_p.G254S|SERPINB6_uc003muj.2_RNA|SERPINB6_uc003mul.2_Missense_Mutation_p.G371S|SERPINB6_uc003mum.2_Missense_Mutation_p.G371S|SERPINB6_uc003mun.2_Missense_Mutation_p.G371S|SERPINB6_uc003muo.2_Missense_Mutation_p.G371S	NM_004568	NP_004559	P35237	SPB6_HUMAN	serine (or cysteine) proteinase inhibitor, clade	371					regulation of proteolysis	centrosome|cytosol|protein complex	protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Drotrecogin alfa(DB00055)	GAAAAGCGGCCGCAGAAGAGA	0.597													5	66					0	0	0.000602	0	0		T	2948552	T	T	2948552	3	4	62	1	0	0	0	0	1	0	0	0	14130	652	23	1	23	1	SERPINB6	6	2948552	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08		2948552	168166515	115	43045											
HIVEP1	3096	broad.mit.edu	37	chr6	12164647	12164647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcccactgtgcacttcagcGacgtgagcagcgatgatgac	10	7	12	12	3	1	3	1	3	0	0	1	5	1	3	1	0	5	2	1	0	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:12164647G>A	uc003nac.2	+	9	8289	c.8110G>A	c.(8110-8112)GAC>AAC	p.D2704N	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2704					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				GCACTTCAGCGACGTGAGCAG	0.468													7	51					0	0	0.004482	0	0		A	12164647	A	A	12164647	3	1	62	1	0	0	0	0	1	0	0	0	7202	1058	37	1	8140	1	HIVEP1	6	12164647	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	9216095	12164647	158950420	116	43046											
BTN3A2	11118	broad.mit.edu	37	chr6	26370758	26370758	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatcatgagaggcggctcCggggagggtgtatcctgcat	7	9	17	8	2	1	2	1	2	0	1	3	4	3	3	2	5	1	3	2	5	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:26370758C>T	uc010jqh.1	+	5	901	c.642C>T	c.(640-642)TCC>TCT	p.S214S	BTN3A2_uc003nho.1_Silent_p.S212S|BTN3A2_uc003nhp.2_Silent_p.S214S|BTN3A2_uc011dkd.1_Silent_p.S172S|BTN3A2_uc011dke.1_Silent_p.S191S|BTN3A2_uc010jqi.1_Silent_p.S212S	NM_007047	NP_008978	P78410	BT3A2_HUMAN	butyrophilin, subfamily 3, member A2 precursor	214	Extracellular (Potential).					integral to membrane					0						GAGGCGGCTCCGGGGAGGGTG	0.547													12	119					0	0	0.003163	0	0		T	26370758	T	T	26370758	2	4	62	1	0	0	0	0	0	0	0	1	1566	639	23	1		1	BTN3A2	6	26370758	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	14206111	26370758	144744309	117	43047											
BTN2A2	10385	broad.mit.edu	37	chr6	26388404	26388404	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttccatcgctgatgctgaCggcctcttcatggtcaccac	6	12	9	14	2	3	2	2	2	1	0	5	2	4	2	3	2	1	3	3	2	0	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:26388404C>T	uc003nhq.2	+	4	692	c.606C>T	c.(604-606)GAC>GAT	p.D202D	BTN2A2_uc011dkf.1_Silent_p.D86D|BTN2A2_uc011dkg.1_Intron|BTN2A2_uc003nhr.2_Silent_p.D86D|BTN2A2_uc011dkh.1_Intron|BTN2A2_uc003nhs.2_Silent_p.D202D|BTN2A2_uc003nht.2_Silent_p.D202D|BTN2A2_uc011dki.1_5'Flank	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	202	Extracellular (Potential).|Ig-like C2-type.				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						CTGATGCTGACGGCCTCTTCA	0.567													12	106					0	0	0.013537	0	0		T	26388404	T	T	26388404	2	4	62	1	0	0	0	0	0	0	0	1	1564	535	19	1		1	BTN2A2	6	26388404	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	17646	26388404	144726663	118	43048											
HIST1H2BJ	8970	broad.mit.edu	37	chr6	27100525	27100525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcagacttcgctggctctGgcatagcactgtgtagctat	8	11	12	10	1	1	1	0	0	1	1	2	2	1	1	0	2	3	7	0	2	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:27100525G>A	uc003niv.2	-	1	51	c.5C>T	c.(4-6)CCA>CTA	p.P2L	HIST1H2BJ_uc003niu.1_RNA|HIST1H2AG_uc003niw.2_5'Flank	NM_021058	NP_066402	P06899	H2B1J_HUMAN	histone cluster 1, H2bj	2					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						CGCTGGCTCTGGCATAGCACT	0.522													27	53					0	0	0.005443	0	0		A	27100525	A	A	27100525	3	1	62	1	0	0	0	0	1	0	0	0	7165	1348	47	4	379	4	HIST1H2BJ	6	27100525	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	712121	27100525	144014542	119	43049											
HIST1H1B	3009	broad.mit.edu	37	chr6	27834673	27834673	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcctttgcagctttaggtTttgctgctttgggcttagcg	3	17	13	8	1	0	0	0	0	0	0	0	0	0	0	1	3	5	6	1	3	2	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:27834673T>C	uc003njx.2	-	1	687	c.635A>G	c.(634-636)AAA>AGA	p.K212R		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	212					nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						AGCTTTAGGTTTTGCTGCTTT	0.547													7	29					0	0	0.001984	0	0		C	27834673	C	C	27834673	3	2	62	1	0	0	0	0	1	0	0	0	7139	1841	64	3	49	3	HIST1H1B	6	27834673	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	734148	27834673	143280394	120	43050											
USP49	25862	broad.mit.edu	37	chr6	41774530	41774530	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccggacttccatggctagCgggtgtcccgtctcctcaaa	6	10	10	15	3	2	0	1	0	1	0	6	1	5	1	4	3	1	1	4	3	2	2	rs139392645		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:41774530C>T	uc003ori.2	-	4	414	c.192G>A	c.(190-192)CCG>CCA	p.P64P		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	64	UBP-type.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CCATGGCTAGCGGGTGTCCCG	0.582													19	155					0	0	0.007413	0	0		T	41774530	T	T	41774530	2	4	62	1	0	0	0	0	0	0	0	1	17106	755	27	1		1	USP49	6	41774530	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	13939857	41774530	129340537	121	43051											
CUL7	9820	broad.mit.edu	37	chr6	43013989	43013989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacctgatgaggatgcccCggcgcatgtgcagggtgatg	7	9	16	9	2	0	3	0	3	0	0	0	4	0	4	3	3	3	3	3	3	1	1	rs45574335	byFrequency	TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:43013989C>T	uc003otq.2	-	12	2948	c.2645G>A	c.(2644-2646)CGG>CAG	p.R882Q	CUL7_uc010jyg.2_Missense_Mutation_p.R161Q|CUL7_uc011dvb.1_Missense_Mutation_p.R966Q|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	882	DOC.				interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GAGGATGCCCCGGCGCATGTG	0.612													5	58					0	0	0.000602	0	0		T	43013989	T	T	43013989	3	4	62	1	0	0	0	0	1	0	0	0	4063	652	23	1	2511	1	CUL7	6	43013989	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1239459	43013989	128101078	122	43052											
CRISP1	167	broad.mit.edu	37	chr6	49803156	49803156	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catagtagatgcaggggttaGctgaaagaaaatagtatggt	15	10	13	3	0	0	3	0	1	0	2	0	3	0	3	0	3	2	5	0	3	8	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:49803156G>T	uc003ozw.2	-	8	702	c.623C>A	c.(622-624)ACT>AAT	p.T208N	CRISP1_uc003ozx.2_Missense_Mutation_p.D178E	NM_001131	NP_001122	P54107	CRIS1_HUMAN	acidic epididymal glycoprotein-like 1 isoform 1	208					fusion of sperm to egg plasma membrane	extracellular space					0	Lung NSC(77;0.0358)					GCAGGGGTTAGCTGAAAGAAA	0.348													7	96					1.06961e-07	1.18236e-07	0.00308	1	0		T	49803156	T	T	49803156	3	4	62	1	0	0	0	0	1	0	0	0	3882	985	34	5	130	5	CRISP1	6	49803156	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	6789167	49803156	121311911	123	43053											
LMBRD1	55788	broad.mit.edu	37	chr6	70423555	70423555	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcaggggacgcagagcGccacaaaattttgtccacca	12	7	9	13	2	1	1	1	0	0	1	2	2	2	2	4	2	1	1	4	2	2	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:70423555G>A	uc003pfa.2	-	9	1012	c.897C>T	c.(895-897)GGC>GGT	p.G299G	LMBRD1_uc003pey.2_Silent_p.G95G|LMBRD1_uc003pez.2_Silent_p.G226G|LMBRD1_uc010kal.2_Silent_p.G226G|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	299	Cytoplasmic (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						GACGCAGAGCGCCACAAAATT	0.393													5	69					0	0	0.00308	0	0		A	70423555	A	A	70423555	2	1	62	1	0	0	0	0	0	0	0	1	8859	1074	38	1		1	LMBRD1	6	70423555	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	20620399	70423555	100691512	124	43054											
MDN1	23195	broad.mit.edu	37	chr6	90402780	90402780	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctcctgaaccagggactcGtaggcaggcagctggggtct	8	8	14	11	1	2	1	0	1	2	0	4	2	2	2	2	5	2	4	2	5	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:90402780G>A	uc003pnn.1	-	63	10085	c.9969C>T	c.(9967-9969)TAC>TAT	p.Y3323Y		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	3323					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CCAGGGACTCGTAGGCAGGCA	0.552													3	29					0	0	0.004672	0	0		A	90402780	A	A	90402780	2	1	62	1	0	0	0	0	0	0	0	1	9433	1140	40	1		1	MDN1	6	90402780	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	19979225	90402780	80712287	125	43055											
C6orf182	285753	broad.mit.edu	37	chr6	109466443	109466443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatggattctgaattaatgCatagtatagtaggaagctat	15	14	9	3	0	1	1	0	1	1	0	1	3	1	3	0	2	2	4	0	2	9	8			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:109466443C>T	uc010kdk.2	+	4	596	c.19C>T	c.(19-21)CAT>TAT	p.H7Y	C6orf182_uc003psv.3_Missense_Mutation_p.H7Y|C6orf182_uc003psw.3_Missense_Mutation_p.H7Y|C6orf182_uc003psx.3_Missense_Mutation_p.H7Y|C6orf182_uc010kdl.2_Missense_Mutation_p.H7Y|C6orf182_uc003psy.3_Missense_Mutation_p.H7Y	NM_001083535	NP_001077004	Q8IYX8	CE57L_HUMAN	hypothetical protein LOC285753	7						microtubule|microtubule organizing center					0		all_cancers(87;4.45e-07)|Acute lymphoblastic leukemia(125;2.15e-10)|all_hematologic(75;3.25e-08)|all_epithelial(87;0.000254)|Colorectal(196;0.0293)|all_lung(197;0.11)		BRCA - Breast invasive adenocarcinoma(108;0.00123)|Epithelial(106;0.0022)|all cancers(137;0.00405)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)		TGAATTAATGCATAGTATAGT	0.338													14	168					0	0	0.003163	0	0		T	109466443	T	T	109466443	3	4	62	1	0	0	0	0	1	0	0	0	2349	710	25	2	21	2	C6orf182	6	109466443	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	19063663	109466443	61648624	126	43056											
MICAL1	64780	broad.mit.edu	37	chr6	109771540	109771540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagtcccagcagcaggCgggcgccatgcttctcttgc	6	7	11	17	2	1	0	0	0	1	0	3	0	2	0	4	2	4	3	4	2	0	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:109771540C>T	uc003ptj.2	-	7	1408	c.1154G>A	c.(1153-1155)CGC>CAC	p.R385H	MICAL1_uc003ptk.2_Missense_Mutation_p.R385H|MICAL1_uc010kdr.2_Intron|MICAL1_uc011eaq.1_Missense_Mutation_p.R404H	NM_022765	NP_073602	Q8TDZ2	MICA1_HUMAN	microtubule associated monoxygenase, calponin	385					cytoskeleton organization|signal transduction	cytoplasm|intermediate filament	SH3 domain binding|zinc ion binding			breast(2)|ovary(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		CAGCAGCAGGCGGGCGCCATG	0.617													8	84					0	0	0.00308	0	0		T	109771540	T	T	109771540	3	4	62	1	0	0	0	0	1	0	0	0	9587	768	27	1	2121	1	MICAL1	6	109771540	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	305097	109771540	61343527	127	43057											
RSPO3	84870	broad.mit.edu	37	chr6	127440347	127440347	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgggttactatgcacttgCgactgatttcttggcttttt	6	18	9	8	1	1	1	0	1	1	0	1	2	1	1	0	2	3	3	0	2	2	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:127440347C>T	uc003qar.2	+	1	300	c.10C>T	c.(10-12)CGA>TGA	p.R4*	uc003qaq.1_Intron|RSPO3_uc003qas.1_Nonsense_Mutation_p.R4*	NM_032784	NP_116173	Q9BXY4	RSPO3_HUMAN	R-spondin 3 precursor	4						extracellular region	heparin binding				0				GBM - Glioblastoma multiforme(226;0.0555)		TATGCACTTGCGACTGATTTC	0.398													12	88					0	0	0.010729	0	0		T	127440347	T	T	127440347	4	4	62	1	0	0	0	0	0	1	0	0	13736	760	27	1	12	1	RSPO3	6	127440347	Nonsense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	17668807	127440347	43674720	128	43058											
TCF21	6943	broad.mit.edu	37	chr6	134210545	134210545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcccccaaacatgtccaccGgctccctcagcgatgtggag	8	7	9	17	2	1	0	1	0	0	0	4	2	4	1	5	2	2	1	5	2	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:134210545G>A	uc003qei.3	+	1	286	c.10G>A	c.(10-12)GGC>AGC	p.G4S	uc003qeg.1_5'Flank|TCF21_uc003qej.2_Missense_Mutation_p.G4S	NM_003206	NP_003197	O43680	TCF21_HUMAN	transcription factor 21	4					branching involved in ureteric bud morphogenesis|mesoderm development|negative regulation of androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus	androgen receptor binding|E-box binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity				0	Colorectal(23;0.221)|Breast(56;0.247)			GBM - Glioblastoma multiforme(68;0.00518)|OV - Ovarian serous cystadenocarcinoma(155;0.00783)		CATGTCCACCGGCTCCCTCAG	0.343													8	82					0	0	0.008291	0	0		A	134210545	A	A	134210545	3	1	62	1	0	0	0	0	1	0	0	0	15716	1116	39	1	12	1	TCF21	6	134210545	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	6770198	134210545	36904522	129	43059											
ALDH8A1	64577	broad.mit.edu	37	chr6	135239833	135239833	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggggacgacacacgtcactGgaccaaatatctcttccgtc	11	8	9	13	3	2	0	1	0	1	0	5	3	3	2	2	3	0	0	2	3	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:135239833G>T	uc003qew.2	-	7	1237	c.1184C>A	c.(1183-1185)CCA>CAA	p.P395Q	ALDH8A1_uc003qex.2_Missense_Mutation_p.P341Q|ALDH8A1_uc010kgh.2_Missense_Mutation_p.P173Q|ALDH8A1_uc011ecx.1_Missense_Mutation_p.P345Q	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	395					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		ACACGTCACTGGACCAAATAT	0.512													11	95					2.27111e-07	2.48365e-07	0.013537	1	0		T	135239833	T	T	135239833	3	4	62	1	0	0	0	0	1	0	0	0	505	1348	47	5	283	5	ALDH8A1	6	135239833	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1029288	135239833	35875234	130	43060											
MYCT1	80177	broad.mit.edu	37	chr6	153043061	153043061	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacagaactggattttaccgCcacagtggctgtgaacgtcg	11	9	11	10	3	0	2	0	1	0	1	1	3	0	3	2	2	4	1	2	2	4	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:153043061C>A	uc003qpd.3	+	2	389	c.381C>A	c.(379-381)CGC>CGA	p.R127R	MYCT1_uc010kjc.1_Intron|MYCT1_uc003qpc.3_Silent_p.R127R	NM_025107	NP_079383	Q8N699	MYCT1_HUMAN	myc target 1	127						nucleus				ovary(1)	1		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;1.33e-10)|BRCA - Breast invasive adenocarcinoma(81;0.143)		GATTTTACCGCCACAGTGGCT	0.512													11	99					2.80697e-09	3.13676e-09	0.010729	1	0		A	153043061	A	A	153043061	2	1	62	1	0	0	0	0	0	0	0	1	10040	726	26	5		5	MYCT1	6	153043061	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	17803228	153043061	18072006	131	43061											
IPCEF1	26034	broad.mit.edu	37	chr6	154520863	154520863	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaagatggtcatgattgctActcaatgaagaagtatcatc	14	12	9	6	0	3	4	3	2	0	2	4	4	3	4	0	1	2	3	0	1	6	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:154520863A>G	uc003qpx.2	-	10	1002	c.846T>C	c.(844-846)AGT>AGC	p.S282S	OPRM1_uc003qpt.1_Intron|IPCEF1_uc003qpv.2_Silent_p.S153S|IPCEF1_uc003qpw.2_Silent_p.S283S|IPCEF1_uc010kjh.2_Silent_p.S283S	NM_015553	NP_056368	Q8WWN9	ICEF1_HUMAN	phosphoinositide-binding protein PIP3-E isoform	282	Ser-rich.				response to oxidative stress	cytoplasm|plasma membrane	oxygen transporter activity|peroxidase activity				0						CATGATTGCTACTCAATGAAG	0.393													15	94					0	0	0.00245	0	0		G	154520863	G	G	154520863	2	3	62	1	0	0	0	0	0	0	0	1	7807	388	14	3		3	IPCEF1	6	154520863	Silent	SNP	A	TCGA-BR-8284-01A-11D-2340-08	1477802	154520863	16594204	132	43062											
ARID1B	57492	broad.mit.edu	37	chr6	157222537	157222537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtatggacagcaaggtGtgagtggttactgccagcag	10	9	14	8	0	1	1	1	1	0	0	1	2	1	2	1	3	4	4	1	3	3	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:157222537G>A	uc003qqn.2	+	3	1743	c.1591G>A	c.(1591-1593)GTG>ATG	p.V531M	ARID1B_uc003qqo.2_Missense_Mutation_p.V544M|ARID1B_uc003qqp.2_Missense_Mutation_p.V531M	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	589	Gln-rich.				chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		ACAGCAAGGTGTGAGTGGTTA	0.502													10	26					0	0	0.013537	0	0		A	157222537	A	A	157222537	3	1	62	1	0	0	0	0	1	0	0	0	914	1377	48	4	1818	4	ARID1B	6	157222537	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2701674	157222537	13892530	133	43063											
IGF2R	3482	broad.mit.edu	37	chr6	160468929	160468929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccacgctggagcagtacGacctctccaggtgaggcaga	9	6	12	14	2	1	2	0	1	1	1	3	4	2	3	4	3	2	4	4	3	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:160468929G>A	uc003qta.2	+	17	2483	c.2335G>A	c.(2335-2337)GAC>AAC	p.D779N		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	779	5.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GGAGCAGTACGACCTCTCCAG	0.577													4	48					0	0	0.009096	0	0		A	160468929	A	A	160468929	3	1	62	1	0	0	0	0	1	0	0	0	7592	1058	37	1	2401	1	IGF2R	6	160468929	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	3246392	160468929	10646138	134	43064											
LPA	4018	broad.mit.edu	37	chr6	161006078	161006078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctaacatgatagacatacGcatttggatagtataatggg	14	11	11	5	1	0	2	0	1	0	1	0	3	0	3	0	3	2	3	0	3	6	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:161006078G>A	uc003qtl.2	-	27	4409	c.4289C>T	c.(4288-4290)GCT>GTT	p.A1430V		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3938	Kringle 35.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	ATAGACATACGCATTTGGATA	0.433													12	186					0	0	0.001855	0	0		A	161006078	A	A	161006078	3	1	62	1	0	0	0	0	1	0	0	0	8921	1101	38	1	1889	1	LPA	6	161006078	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	537149	161006078	10108989	135	43065											
PARK2	5071	broad.mit.edu	37	chr6	161781145	161781145	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttccactggtacatggcaGcggggacagggcttggtggt	6	11	16	8	1	0	0	0	0	0	0	1	1	1	1	1	7	2	3	1	7	1	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr6:161781145G>A	uc003qtx.3	-	11	1394	c.1260C>T	c.(1258-1260)CGC>CGT	p.R420R	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Silent_p.R229R|PARK2_uc003qtw.3_Intron|PARK2_uc003qty.3_Silent_p.R392R|PARK2_uc003qtz.3_Silent_p.R271R|PARK2_uc011egf.1_Silent_p.R94R	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	420	RING-type 2.				aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GTACATGGCAGCGGGGACAGG	0.458													13	134					0	0	0.003163	0	0		A	161781145	A	A	161781145	2	1	62	1	0	0	0	0	0	0	0	1	11468	958	34	2		2	PARK2	6	161781145	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	775067	161781145	9333922	136	43066											
SUN1	23353	broad.mit.edu	37	chr7	892494	892494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcttttcgttcttgcccGtgttgaactgggcaagcatg	6	16	10	9	2	2	1	0	1	2	0	3	1	2	1	1	1	3	4	1	1	2	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:892494G>A	uc011jvp.1	+	10	1037	c.958G>A	c.(958-960)GTG>ATG	p.V320M	GET4_uc003sjj.1_RNA|SUN1_uc003sjf.2_Missense_Mutation_p.V237M|SUN1_uc011jvq.1_Missense_Mutation_p.V217M|SUN1_uc003sjg.2_Missense_Mutation_p.V225M|SUN1_uc011jvr.1_Missense_Mutation_p.V129M|SUN1_uc003sji.2_Missense_Mutation_p.V158M|SUN1_uc003sjk.2_Translation_Start_Site	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	347	Perinuclear space.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						GTTCTTGCCCGTGTTGAACTG	0.532													7	147					0	0	0.001984	0	0		A	892494	A	A	892494	3	1	62	1	0	0	0	0	1	0	0	0	15416	1145	40	1	1175	1	SUN1	7	892494	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08		892494	158246169	137	43067											
SDK1	221935	broad.mit.edu	37	chr7	4185509	4185509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agacgaggcagggctgggggGagccactggaggccaccgtc	8	3	19	11	2	0	1	0	0	0	1	1	4	0	3	3	7	1	2	3	7	0	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:4185509G>A	uc003smx.2	+	29	4523	c.4384G>A	c.(4384-4386)GAG>AAG	p.E1462K	SDK1_uc010kso.2_Missense_Mutation_p.E738K|SDK1_uc003smy.2_5'UTR	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1462	Fibronectin type-III 8.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GGGCTGGGGGGAGCCACTGGA	0.642													5	51					0	0	0.001168	0	0		A	4185509	A	A	4185509	3	1	62	1	0	0	0	0	1	0	0	0	13993	1175	41	4	4498	4	SDK1	7	4185509	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	3293015	4185509	154953154	138	43068											
USP42	84132	broad.mit.edu	37	chr7	6187480	6187480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcaccaacaaacaggctgCgccaggctttatcggaccac	11	7	9	14	2	1	0	1	0	0	0	2	1	1	1	3	3	3	2	3	3	3	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:6187480C>T	uc011jwo.1	+	12	1466	c.1343C>T	c.(1342-1344)GCG>GTG	p.A448V	USP42_uc010kth.1_Missense_Mutation_p.A381V|USP42_uc011jwp.1_Missense_Mutation_p.A448V|USP42_uc011jwq.1_Missense_Mutation_p.A255V|USP42_uc011jwr.1_Missense_Mutation_p.A293V	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	448					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		AAACAGGCTGCGCCAGGCTTT	0.478													7	127					0	0	0.001984	0	0		T	6187480	T	T	6187480	3	4	62	1	0	0	0	0	1	0	0	0	17099	768	27	1	1385	1	USP42	7	6187480	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2001971	6187480	152951183	139	43069											
DAGLB	221955	broad.mit.edu	37	chr7	6485687	6485687	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaggctccaccagcacaGtccagctttcctctgtgcat	9	9	8	15	0	1	0	0	0	1	0	4	0	4	0	4	1	4	5	4	1	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:6485687G>A	uc003sqa.2	-	2	314	c.144C>T	c.(142-144)GAC>GAT	p.D48D	DAGLB_uc011jwu.1_Silent_p.D48D|DAGLB_uc003sqb.2_Intron|DAGLB_uc003sqc.2_5'UTR|DAGLB_uc011jwv.1_RNA|DAGLB_uc003sqd.3_Silent_p.D7D|DAGLB_uc011jww.1_RNA	NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1	48	Extracellular (Potential).				lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		CACCAGCACAGTCCAGCTTTC	0.473													7	81					0	0	0.001984	0	0		A	6485687	A	A	6485687	2	1	62	1	0	0	0	0	0	0	0	1	4230	1020	36	4		4	DAGLB	7	6485687	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	298207	6485687	152652976	140	43070											
AGR3	155465	broad.mit.edu	37	chr7	16900207	16900207	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaactgttaaagaagggTctgtcaaggaaaaaaccaag	17	8	9	7	0	3	1	1	0	2	1	3	2	3	2	1	2	2	1	1	2	9	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:16900207T>C	uc003sts.2	-	7	441	c.368A>G	c.(367-369)GAC>GGC	p.D123G		NM_176813	NP_789783	Q8TD06	AGR3_HUMAN	breast cancer membrane protein 11 precursor	123						extracellular region					0	Lung NSC(10;0.0376)|all_lung(11;0.0721)|all_epithelial(12;0.202)			UCEC - Uterine corpus endometrioid carcinoma (126;0.184)		TAAAGAAGGGTCTGTCAAGGA	0.303													8	94					0	0	0.004482	0	0		C	16900207	C	C	16900207	3	2	62	1	0	0	0	0	1	0	0	0	396	1681	58	3	140	3	AGR3	7	16900207	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	10414520	16900207	142238456	141	43071											
SP4	6671	broad.mit.edu	37	chr7	21521594	21521594	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatctgtcatattgaaggaTgtggtaaagtttatggcaaa	14	14	10	3	0	2	1	1	1	1	0	2	2	2	2	0	3	0	3	0	3	7	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:21521594T>C	uc003sva.2	+	5	2141	c.1960T>C	c.(1960-1962)TGT>CGT	p.C654R	SP4_uc003svb.2_Missense_Mutation_p.C341R	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	654	C2H2-type 1.				regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						TATTGAAGGATGTGGTAAAGT	0.378													11	125					0	0	0.013537	0	0		C	21521594	C	C	21521594	3	2	62	1	0	0	0	0	1	0	0	0	14991	1464	51	3	1978	3	SP4	7	21521594	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	4621387	21521594	137617069	142	43072											
DNAH11	8701	broad.mit.edu	37	chr7	21779241	21779241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccataactgccagtatgtcGcctgcatgaatccgatggtg	9	11	10	11	2	0	1	0	1	0	0	3	2	2	1	4	1	3	2	4	1	3	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:21779241G>A	uc003svc.2	+	49	7916	c.7885G>A	c.(7885-7887)GCC>ACC	p.A2629T		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2629	AAA 3 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CCAGTATGTCGCCTGCATGAA	0.423									Kartagener_syndrome				14	65					0	0	0.006122	0	0		A	21779241	A	A	21779241	3	1	62	1	0	0	0	0	1	0	0	0	4605	1087	38	1	8076	1	DNAH11	7	21779241	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	257647	21779241	137359422	143	43073											
DNAH11	8701	broad.mit.edu	37	chr7	21923928	21923928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcccatgggaagatctccGttatctctttggtgagatca	8	13	11	9	1	3	2	1	1	2	2	6	4	4	3	2	3	0	1	2	3	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:21923928G>A	uc003svc.2	+	77	12459	c.12428G>A	c.(12427-12429)CGT>CAT	p.R4143H		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4143					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GAAGATCTCCGTTATCTCTTT	0.488									Kartagener_syndrome				6	69					0	0	0.001168	0	0		A	21923928	A	A	21923928	3	1	62	1	0	0	0	0	1	0	0	0	4605	1145	40	1	12731	1	DNAH11	7	21923928	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	144687	21923928	137214735	144	43074											
OSBPL3	26031	broad.mit.edu	37	chr7	24901354	24901354	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaattaggattggaggagTgtagtcttactgggccagaa	13	10	13	5	0	1	1	0	0	1	1	1	4	1	4	1	4	1	1	1	4	5	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:24901354T>C	uc003sxf.2	-	10	1310	c.905A>G	c.(904-906)CAC>CGC	p.H302R	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Missense_Mutation_p.H302R|OSBPL3_uc003sxh.2_Missense_Mutation_p.H271R|OSBPL3_uc003sxi.2_Missense_Mutation_p.H271R|OSBPL3_uc003sxj.1_Missense_Mutation_p.H67R|OSBPL3_uc003sxk.1_Missense_Mutation_p.H36R	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	302					lipid transport		lipid binding|protein binding			skin(1)	1						ATTGGAGGAGTGTAGTCTTAC	0.368													16	96					0	0	0.003163	0	0		C	24901354	C	C	24901354	3	2	62	1	0	0	0	0	1	0	0	0	11298	1696	59	3	1814	3	OSBPL3	7	24901354	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	2977426	24901354	134237309	145	43075											
SFRP4	6424	broad.mit.edu	37	chr7	37951870	37951870	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttacatccaccaccgttgtGacctcattgcagccactcct	8	12	5	16	1	1	1	1	1	0	0	3	1	3	1	6	0	3	2	6	0	1	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:37951870G>A	uc003tfo.3	-	4	1028	c.642C>T	c.(640-642)GTC>GTT	p.V214V		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	214	NTR.				brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1						CCACCGTTGTGACCTCATTGC	0.418													31	76					0	0	0.010818	0	0		A	37951870	A	A	37951870	2	1	62	1	0	0	0	0	0	0	0	1	14188	1277	45	4		4	SFRP4	7	37951870	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	13050516	37951870	121186793	146	43076											
NPC1L1	29881	broad.mit.edu	37	chr7	44579712	44579712	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcttccagtgataccagcTgcttggcggagcagcaggct	7	9	13	12	2	0	1	0	1	0	0	2	2	1	2	2	3	5	6	2	3	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:44579712T>A	uc003tlb.2	-	2	340	c.284A>T	c.(283-285)CAG>CTG	p.Q95L	NPC1L1_uc003tlc.2_Missense_Mutation_p.Q95L|NPC1L1_uc011kbw.1_Missense_Mutation_p.Q95L|NPC1L1_uc003tld.2_Missense_Mutation_p.Q95L	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	95	Extracellular (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	TGATACCAGCTGCTTGGCGGA	0.597													5	49					0	0	0.000602	0	0		A	44579712	A	A	44579712	3	1	62	1	0	0	0	0	1	0	0	0	10590	1580	55	5	3871	5	NPC1L1	7	44579712	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	6627842	44579712	114558951	147	43077											
PKD1L1	168507	broad.mit.edu	37	chr7	47968815	47968815	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttaccttttgagtactggTggtaggcagtcaccgccatt	7	13	10	11	1	1	1	1	1	0	0	1	1	1	1	4	3	2	3	4	3	3	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:47968815T>C	uc003tny.1	-	7	1046	c.1046A>G	c.(1045-1047)CAC>CGC	p.H349R		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	349	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						TGAGTACTGGTGGTAGGCAGT	0.522													9	124					0	0	0.006214	0	0		C	47968815	C	C	47968815	3	2	62	1	0	0	0	0	1	0	0	0	11983	1696	59	3	7707	3	PKD1L1	7	47968815	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	3389103	47968815	111169848	148	43078											
ABCA13	154664	broad.mit.edu	37	chr7	48391962	48391962	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgggttcaaatataactaCgtctttgccccactgcaaga	12	11	8	10	1	2	1	1	0	1	1	2	2	2	1	2	1	4	2	2	1	5	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:48391962C>A	uc003toq.2	+	31	10591	c.10566C>A	c.(10564-10566)TAC>TAA	p.Y3522*	ABCA13_uc010kys.1_Nonsense_Mutation_p.Y596*|ABCA13_uc003tos.1_Nonsense_Mutation_p.Y348*	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3522					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AATATAACTACGTCTTTGCCC	0.502													6	41					3.59834e-05	3.80289e-05	0.001168	1	0		A	48391962	A	A	48391962	4	1	62	1	0	0	0	0	0	1	0	0	31	547	19	5	10517	5	ABCA13	7	48391962	Nonsense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	423147	48391962	110746701	149	43079											
AKAP9	10142	broad.mit.edu	37	chr7	91694563	91694563	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattactacaggagacagAaaaattaatgaaggaaaaac	23	6	8	4	0	0	4	0	1	0	3	0	6	0	5	0	2	3	0	0	2	9	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:91694563A>G	uc003ulg.2	+	25	6221	c.5996A>G	c.(5995-5997)GAA>GGA	p.E1999G	AKAP9_uc003ulf.2_Missense_Mutation_p.E1999G|AKAP9_uc003uli.2_Missense_Mutation_p.E1622G	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2011	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CAGGAGACAGAAAAATTAATG	0.289			T	BRAF	papillary thyroid								4	41					0	0	0.009096	0	0		G	91694563	G	G	91694563	3	3	62	1	0	0	0	0	1	0	0	0	459	246	9	3	6094	3	AKAP9	7	91694563	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	43302601	91694563	67444100	150	43080											
ZAN	7455	broad.mit.edu	37	chr7	100348417	100348417	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcctgggaagtcctgcGgggagtcccccgattcctct	4	10	11	16	2	1	0	0	0	1	0	6	3	6	2	6	3	1	0	6	3	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:100348417G>A	uc003uwj.2	+	12	1584	c.1419G>A	c.(1417-1419)GCG>GCA	p.A473A	ZAN_uc003uwk.2_Silent_p.A473A|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	473	MAM 3.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GAAGTCCTGCGGGGAGTCCCC	0.622													3	28					0	0	0.004672	0	0		A	100348417	A	A	100348417	2	1	62	1	0	0	0	0	0	0	0	1	17539	1103	39	1		1	ZAN	7	100348417	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	8653854	100348417	58790246	151	43081											
SLC26A4	5172	broad.mit.edu	37	chr7	107303837	107303837	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaatggctgcttagtgaCgtcatttcgggagttagtac	10	12	13	6	2	1	1	1	1	0	0	2	3	1	3	0	3	2	4	0	3	5	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:107303837C>T	uc003vep.2	+	3	485	c.261C>T	c.(259-261)GAC>GAT	p.D87D	LOC286002_uc003veo.3_5'Flank	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	87	Cytoplasmic (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						TGCTTAGTGACGTCATTTCGG	0.498									Pendred_syndrome				24	110					0	0	0.014323	0	0		T	107303837	T	T	107303837	2	4	62	1	0	0	0	0	0	0	0	1	14544	535	19	1		1	SLC26A4	7	107303837	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	6955420	107303837	51834826	152	43082											
DOCK4	9732	broad.mit.edu	37	chr7	111368486	111368486	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggagaggctgtgaggtagCgggacggggcgccgcagagt	8	5	21	7	4	0	3	0	1	0	2	0	5	0	4	1	6	1	3	1	6	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:111368486C>T	uc003vfx.2	-	52	6014	c.5745G>A	c.(5743-5745)CCG>CCA	p.P1915P	DOCK4_uc011kml.1_Silent_p.P796P|DOCK4_uc011kmm.1_Silent_p.P784P|DOCK4_uc003vfw.2_Silent_p.P1327P|DOCK4_uc003vfy.2_Silent_p.P1960P|DOCK4_uc003vfv.2_Silent_p.P228P	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1915	Pro-rich.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				TGTGAGGTAGCGGGACGGGGC	0.716													5	54					0	0	0.000602	0	0		T	111368486	T	T	111368486	2	4	62	1	0	0	0	0	0	0	0	1	4695	755	27	1		1	DOCK4	7	111368486	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	4064649	111368486	47770177	153	43083											
PLXNA4	91584	broad.mit.edu	37	chr7	131830026	131830026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gatggtctcaaagaggtcatCcacaaacttctgcagtgtgc	11	10	10	10	0	3	1	2	0	2	1	5	2	4	1	1	2	3	1	1	2	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:131830026C>T	uc003vra.3	-	29	5306	c.5077G>A	c.(5077-5079)GAT>AAT	p.D1693N	PLXNA4_uc003vqz.3_5'UTR	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1693	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						AAGAGGTCATCCACAAACTTC	0.537													5	75					0	0	0.000602	0	0		T	131830026	T	T	131830026	3	4	62	1	0	0	0	0	1	0	0	0	12141	855	30	4	623	4	PLXNA4	7	131830026	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	20461540	131830026	27308637	154	43084											
OR2A5	393046	broad.mit.edu	37	chr7	143747978	143747978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggccctggtccatgtggttCtcatcctgaggctgcccttc	3	13	11	14	0	1	1	1	1	1	0	5	1	3	1	4	4	1	2	4	4	0	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:143747978C>T	uc011ktw.1	+	1	484	c.484C>T	c.(484-486)CTC>TTC	p.L162F		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	162	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					CCATGTGGTTCTCATCCTGAG	0.537													30	254					0	0	0.007291	0	0		T	143747978	T	T	143747978	3	4	62	1	0	0	0	0	1	0	0	0	11000	913	32	4	486	4	OR2A5	7	143747978	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	11917952	143747978	15390685	155	43085											
OR2A25	392138	broad.mit.edu	37	chr7	143772113	143772113	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccagtatgagagccccaaGgagcagaagaaatatctcct	14	6	9	12	0	1	3	0	1	1	3	2	5	1	4	5	1	2	2	5	1	5	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:143772113G>T	uc011ktx.1	+	1	801	c.801G>T	c.(799-801)AAG>AAT	p.K267N		NM_001004488	NP_001004488	A4D2G3	O2A25_HUMAN	olfactory receptor, family 2, subfamily A,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					AGAGCCCCAAGGAGCAGAAGA	0.463													25	272					6.32553e-13	7.1666e-13	0.004656	1	0		T	143772113	T	T	143772113	3	4	62	1	0	0	0	0	1	0	0	0	10997	991	35	5	803	5	OR2A25	7	143772113	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	24135	143772113	15366550	156	43086											
GIMAP6	474344	broad.mit.edu	37	chr7	150325544	150325544	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcttcccactccctgtttTccccatgagaatgagcctca	8	12	5	16	0	2	2	1	2	1	1	5	3	5	2	5	0	1	1	5	0	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr7:150325544T>C	uc003whn.2	-	3	566	c.142A>G	c.(142-144)AAA>GAA	p.K48E	GIMAP6_uc003whm.2_Intron	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	48	GTP (Potential).						GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTCCCTGTTTTCCCCATGAGA	0.532													33	415					0	0	0.003271	0	0		C	150325544	C	C	150325544	3	2	62	1	0	0	0	0	1	0	0	0	6398	1792	62	3	740	3	GIMAP6	7	150325544	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	6553431	150325544	8813119	157	43087											
SGK223	157285	broad.mit.edu	37	chr8	8176049	8176049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcggcaggtcctcctgcCggtagtctctctcccgcagc	3	8	13	17	4	2	0	0	0	2	0	6	0	4	0	4	4	2	3	4	4	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr8:8176049C>T	uc003wsh.3	-	5	3836	c.3836G>A	c.(3835-3837)CGG>CAG	p.R1279Q		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	1279	Protein kinase.						ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GTCCTCCTGCCGGTAGTCTCT	0.647													5	31					0	0	0.001168	0	0		T	8176049	T	T	8176049	3	4	62	1	0	0	0	0	1	0	0	0	14235	652	23	1	376	1	SGK223	8	8176049	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08		8176049	138187973	158	43088											
GNRH1	2796	broad.mit.edu	37	chr8	25280807	25280807	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccttccacgcaccaagtcaGtagaataaggccagctagga	13	6	10	12	1	1	1	1	0	0	1	2	2	2	2	4	2	1	3	4	2	5	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr8:25280807G>T	uc003xem.3	-	2	881	c.40C>A	c.(40-42)CTG>ATG	p.L14M	PPP2R2A_uc003xek.2_Intron|GNRH1_uc003xen.3_Missense_Mutation_p.L14M	NM_001083111	NP_001076580	P01148	GON1_HUMAN	gonadotropin-releasing hormone 1 precursor	14					cell-cell signaling|multicellular organismal development|negative regulation of cell proliferation|signal transduction	soluble fraction	gonadotropin hormone-releasing hormone activity			large_intestine(1)	1		all_cancers(63;0.0423)|Ovarian(32;0.000626)|all_epithelial(46;0.0186)|Hepatocellular(4;0.114)|Breast(100;0.14)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0201)|Epithelial(17;1.25e-12)|Colorectal(74;0.0113)|COAD - Colon adenocarcinoma(73;0.0385)		CACCAAGTCAGTAGAATAAGG	0.443													12	93					0.000978159	0.00101283	0.010729	1	0		T	25280807	T	T	25280807	3	4	62	1	0	0	0	0	1	0	0	0	6562	1020	36	5	250	5	GNRH1	8	25280807	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	17104758	25280807	121083215	159	43089											
DUSP26	78986	broad.mit.edu	37	chr8	33449592	33449592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgcctcaggaagcccCggttggggatgatgcctcgg	6	7	17	11	2	1	1	1	1	0	0	2	4	1	4	4	6	4	2	4	6	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr8:33449592C>T	uc003xjp.2	-	4	908	c.575G>A	c.(574-576)CGG>CAG	p.R192Q	DUSP26_uc003xjq.2_Missense_Mutation_p.R192Q	NM_024025	NP_076930	Q9BV47	DUS26_HUMAN	dual specificity phosphatase 26	192	Tyrosine-protein phosphatase.					Golgi apparatus|nucleus	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0				KIRC - Kidney renal clear cell carcinoma(67;0.0918)|Kidney(114;0.111)		CAGGAAGCCCCGGTTGGGGAT	0.647													6	66					0	0	0.001984	0	0		T	33449592	T	T	33449592	3	4	62	1	0	0	0	0	1	0	0	0	4829	652	23	1	64	1	DUSP26	8	33449592	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	8168785	33449592	112914430	160	43090											
PXDNL	137902	broad.mit.edu	37	chr8	52321502	52321502	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgtaaacgttggagccatcGatgtaggctgtttgctggtt	7	13	13	8	3	0	0	0	0	0	0	1	2	0	1	2	3	3	7	2	3	3	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr8:52321502G>A	uc003xqu.3	-	17	2783	c.2682C>T	c.(2680-2682)ATC>ATT	p.I894I	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	894					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TGGAGCCATCGATGTAGGCTG	0.622													6	37					0	0	0.001984	0	0		A	52321502	A	A	52321502	2	1	62	1	0	0	0	0	0	0	0	1	12873	1048	37	1		1	PXDNL	8	52321502	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	18871910	52321502	94042520	161	43091											
XKR4	114786	broad.mit.edu	37	chr8	56436682	56436682	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttttggaccgaagcctcCgaaaggctattttagctttt	9	15	9	8	2	0	0	0	0	0	0	1	3	1	1	3	2	2	3	3	2	4	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr8:56436682C>T	uc003xsf.2	+	3	1881	c.1849C>T	c.(1849-1851)CGA>TGA	p.R617*		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	617						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			CCGAAGCCTCCGAAAGGCTAT	0.458													7	108					0	0	0.001984	0	0		T	56436682	T	T	56436682	4	4	62	1	0	0	0	0	0	1	0	0	17459	644	23	1	1859	1	XKR4	8	56436682	Nonsense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	4115180	56436682	89927340	162	43092											
CSMD3	114788	broad.mit.edu	37	chr8	113702268	113702268	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggatcaccacaactttCtttctcaatttctggaaaaa	14	12	4	11	0	4	0	2	0	3	0	5	2	4	2	2	2	1	0	2	2	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr8:113702268C>A	uc003ynu.2	-	14	2143	c.1984G>T	c.(1984-1986)GAA>TAA	p.E662*	CSMD3_uc003yns.2_5'UTR|CSMD3_uc003ynt.2_Nonsense_Mutation_p.E622*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.E558*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	662	Extracellular (Potential).|Sushi 3.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCACAACTTTCTTTCTCAATT	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			17	145					3.41278e-10	3.83469e-10	0.00499	1	0		A	113702268	A	A	113702268	4	1	62	1	0	0	0	0	0	1	0	0	3949	922	32	5	9371	5	CSMD3	8	113702268	Nonsense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	57265586	113702268	32661754	163	43093											
SLC45A4	57210	broad.mit.edu	37	chr8	142228927	142228927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcggctcgcccccatccaggGcgccgggctcctcagcgctg	3	5	14	19	5	1	0	1	0	0	0	4	0	3	0	5	3	1	3	5	3	0	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr8:142228927G>A	uc003ywd.1	-	4	967	c.659C>T	c.(658-660)GCC>GTC	p.A220V	SLC45A4_uc003ywc.1_Missense_Mutation_p.A220V|SLC45A4_uc010meq.1_Missense_Mutation_p.A218V	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	271					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CCCATCCAGGGCGCCGGGCTC	0.687													14	97					0	0	0.00245	0	0		A	142228927	A	A	142228927	3	1	62	1	0	0	0	0	1	0	0	0	14668	1203	42	2	1757	2	SLC45A4	8	142228927	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	28526659	142228927	4135095	164	43094											
PLEC	5339	broad.mit.edu	37	chr8	144990986	144990986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaggcccttgttgacggCgtcggtgacagggaagcgct	7	7	15	12	4	0	2	0	2	0	0	1	3	0	3	2	4	1	2	2	4	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr8:144990986C>T	uc003zaf.1	-	32	13584	c.13414G>A	c.(13414-13416)GCC>ACC	p.A4472T	PLEC_uc003zab.1_Missense_Mutation_p.A4335T|PLEC_uc003zac.1_Missense_Mutation_p.A4339T|PLEC_uc003zad.2_Missense_Mutation_p.A4335T|PLEC_uc003zae.1_Missense_Mutation_p.A4303T|PLEC_uc003zag.1_Missense_Mutation_p.A4313T|PLEC_uc003zah.2_Missense_Mutation_p.A4321T|PLEC_uc003zaj.2_Missense_Mutation_p.A4362T	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4472	Globular 2.|Plectin 30.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TTGTTGACGGCGTCGGTGACA	0.647													8	80					0	0	0.004482	0	0		T	144990986	T	T	144990986	3	4	62	1	0	0	0	0	1	0	0	0	12071	768	27	1	644	1	PLEC	8	144990986	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2762059	144990986	1373036	165	43095											
FREM1	158326	broad.mit.edu	37	chr9	14859271	14859271	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggccatgggctggcagccGagttctcgcagtgtccaggc	5	8	15	13	2	1	0	0	0	1	0	3	1	2	0	3	4	1	4	3	4	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr9:14859271G>A	uc003zlm.2	-	4	1131	c.541C>T	c.(541-543)CGG>TGG	p.R181W	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	181					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GCTGGCAGCCGAGTTCTCGCA	0.527													19	71					0	0	0.006122	0	0		A	14859271	A	A	14859271	3	1	62	1	0	0	0	0	1	0	0	0	6058	1057	37	1	6184	1	FREM1	9	14859271	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08		14859271	126354160	166	43096											
MLLT3	4300	broad.mit.edu	37	chr9	20620722	20620722	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaagtgctgtatgttacTgtgctccggaccgcgtacga	9	10	11	11	4	0	0	0	0	0	0	1	2	1	1	2	1	4	5	2	1	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr9:20620722T>C	uc003zoe.2	-	2	383	c.124A>G	c.(124-126)AGT>GGT	p.S42G	MLLT3_uc011lne.1_Missense_Mutation_p.S10G|MLLT3_uc011lnf.1_Missense_Mutation_p.S39G|MLLT3_uc003zof.2_5'UTR|MLLT3_uc011lng.1_Missense_Mutation_p.S10G	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	42	YEATS.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		TGTATGTTACTGTGCTCCGGA	0.542			T	MLL	ALL								9	133					0	0	0.004482	0	0		C	20620722	C	C	20620722	3	2	62	1	0	0	0	0	1	0	0	0	9646	1580	55	3	1622	3	MLLT3	9	20620722	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	5761451	20620722	120592709	167	43097											
TAF1L	138474	broad.mit.edu	37	chr9	32634323	32634323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcaccatcaggaagttttCgtcagccagaagatcagtgc	11	10	10	10	1	4	2	4	0	0	2	5	3	4	3	2	1	2	1	2	1	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr9:32634323C>T	uc003zrg.1	-	1	1345	c.1255G>A	c.(1255-1257)GAA>AAA	p.E419K	uc003zrh.1_RNA	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	419					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		AGGAAGTTTTCGTCAGCCAGA	0.443													25	228					0	0	0.004656	0	0		T	32634323	T	T	32634323	3	4	62	1	0	0	0	0	1	0	0	0	15548	893	31	1	4229	1	TAF1L	9	32634323	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	12013601	32634323	108579108	168	43098											
FRMPD1	22844	broad.mit.edu	37	chr9	37740286	37740286	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgacagacagtgccgagtcCgaggcgtccgactcagccaa	11	4	12	14	5	1	1	1	0	0	1	3	5	3	1	4	1	2	0	4	1	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr9:37740286C>T	uc004aag.1	+	15	1805	c.1761C>T	c.(1759-1761)TCC>TCT	p.S587S	FRMPD1_uc004aah.1_Silent_p.S587S|FRMPD1_uc011lqm.1_Silent_p.S409S|FRMPD1_uc011lqn.1_Silent_p.S456S	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	587						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		GTGCCGAGTCCGAGGCGTCCG	0.637													4	51					0	0	0.009096	0	0		T	37740286	T	T	37740286	2	4	62	1	0	0	0	0	0	0	0	1	6071	639	23	1		1	FRMPD1	9	37740286	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	5105963	37740286	103473145	169	43099											
NTRK2	4915	broad.mit.edu	37	chr9	87339221	87339221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagatctcttgtgtggCggaaaatcttgtaggagaag	12	10	14	5	1	2	2	0	0	2	2	3	5	2	3	0	3	1	2	0	3	5	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr9:87339221C>T	uc004aoa.1	+	10	1741	c.803C>T	c.(802-804)GCG>GTG	p.A268V	NTRK2_uc004anv.1_Missense_Mutation_p.A268V|NTRK2_uc004any.1_Missense_Mutation_p.A268V|NTRK2_uc004anz.1_Missense_Mutation_p.A268V|NTRK2_uc011lsz.1_Missense_Mutation_p.A268V|NTRK2_uc011lta.1_Missense_Mutation_p.A268V|NTRK2_uc004aob.1_Missense_Mutation_p.A268V|NTRK2_uc011ltb.1_Missense_Mutation_p.A112V	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	neurotrophic tyrosine kinase, receptor, type 2	268	Extracellular (Potential).|Ig-like C2-type 1.				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16						TCTTGTGTGGCGGAAAATCTT	0.408										TSP Lung(25;0.17)			50	138					0	0	0.01441	0	0		T	87339221	T	T	87339221	3	4	62	1	0	0	0	0	1	0	0	0	10726	768	27	1	829	1	NTRK2	9	87339221	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	49598935	87339221	53874210	170	43100											
NTRK2	4915	broad.mit.edu	37	chr9	87549188	87549188	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctctgtcctgagcaggacaAgatcttggtggcagtgaagg	9	9	14	9	0	2	3	0	2	2	1	3	4	3	4	2	4	1	2	2	4	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr9:87549188A>C	uc004aoa.1	+	16	2635	c.1697A>C	c.(1696-1698)AAG>ACG	p.K566T	NTRK2_uc004any.1_Missense_Mutation_p.K566T|NTRK2_uc004anz.1_Missense_Mutation_p.K582T	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	neurotrophic tyrosine kinase, receptor, type 2	566	Protein kinase.|Cytoplasmic (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16						GAGCAGGACAAGATCTTGGTG	0.403										TSP Lung(25;0.17)			6	54					0	0	0.00308	0	0		C	87549188	C	C	87549188	3	2	62	1	0	0	0	0	1	0	0	0	10726	72	3	5	1874	5	NTRK2	9	87549188	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	209967	87549188	53664243	171	43101											
BICD2	23299	broad.mit.edu	37	chr9	95491364	95491364	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccgactgcgtgttggtgAggacattgcgcaactgcttc	6	12	12	11	3	1	1	0	1	1	0	3	3	1	2	1	2	4	3	1	2	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr9:95491364A>G	uc004aso.1	-	2	452	c.395T>C	c.(394-396)CTC>CCC	p.L132P	BICD2_uc004asp.1_Missense_Mutation_p.L132P	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	132	Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						CGTGTTGGTGAGGACATTGCG	0.627													4	44					0	0	0.001168	0	0		G	95491364	G	G	95491364	3	3	62	1	0	0	0	0	1	0	0	0	1430	304	11	3	2206	3	BICD2	9	95491364	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	7942176	95491364	45722067	172	43102											
PTCH1	5727	broad.mit.edu	37	chr9	98278952	98278952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcgtctttttcttctcCtccgttttcttcttcttctt	0	24	3	14	2	7	0	0	0	7	0	10	0	8	0	3	0	0	1	3	0	0	9			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr9:98278952C>T	uc004avm.3	-	1	296	c.151G>A	c.(151-153)GGA>AGA	p.G51R	PTCH1_uc010mrr.2_5'UTR|PTCH1_uc004avo.2_5'UTR|PTCH1_uc010mrv.1_RNA|PTCH1_uc010mrw.1_RNA	NM_001083603	NP_001077072	Q13635	PTC1_HUMAN	patched isoform L'	Error:Variant_position_missing_in_Q13635_after_alignment					embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				ttttcttctcctccgttttct	0.468									Basal_Cell_Nevus_syndrome				5	48					0	0	0.000602	0	0		T	98278952	T	T	98278952	3	4	62	1	0	0	0	0	1	0	0	0	12752	690	24	4	4493	4	PTCH1	9	98278952	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2787588	98278952	42934479	173	43103											
NR4A3	8013	broad.mit.edu	37	chr9	102590482	102590482	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcacggctacagccaccaCgtccctgcccagcatcagta	10	6	8	17	2	2	0	2	0	0	0	3	1	3	0	4	1	4	3	4	1	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr9:102590482C>T	uc004baf.1	+	3	887	c.158C>T	c.(157-159)ACG>ATG	p.T53M	NR4A3_uc004bae.2_Missense_Mutation_p.T53M|NR4A3_uc004bag.1_Missense_Mutation_p.T53M|NR4A3_uc004bai.2_Missense_Mutation_p.T64M	NM_006981	NP_008912	Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	53					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		EWSR1/NR4A3(140)|TAF15/NR4A3(33)	bone(173)	173		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				ACAGCCACCACGTCCCTGCCC	0.557			T	EWSR1	extraskeletal myxoid chondrosarcoma								10	75					0	0	0.008291	0	0		T	102590482	T	T	102590482	3	4	62	1	0	0	0	0	1	0	0	0	10653	536	19	1	197	1	NR4A3	9	102590482	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	4311530	102590482	38622949	174	43104											
NIPSNAP3B	55335	broad.mit.edu	37	chr9	107533147	107533147	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggagtctatgaactagctGtttttcagatgaaacctggt	11	14	10	6	0	2	3	1	2	1	1	2	4	2	4	1	2	3	2	1	2	5	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr9:107533147G>T	uc004bci.2	+	4	519	c.448G>T	c.(448-450)GTT>TTT	p.V150F	NIPSNAP3A_uc011lvu.1_Intron|NIPSNAP3B_uc004bcj.1_RNA	NM_018376	NP_060846	Q9BS92	NPS3B_HUMAN	nipsnap homolog 3B	150										pancreas(1)|skin(1)	2						TGAACTAGCTGTTTTTCAGAT	0.383													15	66					2.62699e-14	3.00963e-14	0.003163	1	0		T	107533147	T	T	107533147	3	4	62	1	0	0	0	0	1	0	0	0	10450	1377	48	5	462	5	NIPSNAP3B	9	107533147	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	4942665	107533147	33680284	175	43105											
GAPVD1	26130	broad.mit.edu	37	chr9	128064646	128064646	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttttctgaaggactgttTtctgccaaacttttcctcac	7	18	5	11	0	3	1	1	1	2	0	4	2	4	2	2	1	2	1	2	1	2	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr9:128064646T>C	uc010mwx.2	+	5	896	c.570T>C	c.(568-570)TTT>TTC	p.F190F	GAPVD1_uc004bpo.2_Silent_p.F190F|GAPVD1_uc011lzs.1_Silent_p.F190F|GAPVD1_uc004bpp.2_Silent_p.F190F|GAPVD1_uc004bpq.2_Silent_p.F190F|GAPVD1_uc004bpr.2_Silent_p.F190F|GAPVD1_uc004bps.2_Silent_p.F190F|GAPVD1_uc010mwy.1_Silent_p.F49F	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	190	Ras-GAP.				endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						AAGGACTGTTTTCTGCCAAAC	0.388													7	67					0	0	0.004482	0	0		C	128064646	C	C	128064646	2	2	62	1	0	0	0	0	0	0	0	1	6254	1838	64	3		3	GAPVD1	9	128064646	Silent	SNP	T	TCGA-BR-8284-01A-11D-2340-08	20531499	128064646	13148785	176	43106											
ANAPC2	29882	broad.mit.edu	37	chr9	140074684	140074684	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagggctgccctgatatcCtcggggacctccagcttctc	5	10	10	16	1	1	1	0	1	1	0	6	2	4	2	5	3	2	2	5	3	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr9:140074684C>A	uc004clr.1	-	10	1912	c.1839G>T	c.(1837-1839)GAG>GAT	p.E613D	ANAPC2_uc004clq.1_Missense_Mutation_p.E469D	NM_013366	NP_037498	Q9UJX6	ANC2_HUMAN	anaphase-promoting complex subunit 2	613					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cyclin catabolic process|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of synapse maturation|positive regulation of synaptic plasticity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of cyclin-dependent protein kinase activity	anaphase-promoting complex|cytosol|nucleoplasm	ubiquitin protein ligase binding|ubiquitin-protein ligase activity			ovary(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.000858)		CCCTGATATCCTCGGGGACCT	0.622													4	46					0.000602214	0.000625141	0.000602	1	0		A	140074684	A	A	140074684	3	1	62	1	0	0	0	0	1	0	0	0	603	680	24	5	645	5	ANAPC2	9	140074684	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	12010038	140074684	1138747	177	43107											
MKX	283078	broad.mit.edu	37	chr10	28023608	28023608	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtcctcactggcccgtgaCtctggcctcactcccgcttt	4	12	8	17	2	3	1	2	1	1	0	5	1	5	1	4	2	0	1	4	2	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr10:28023608C>A	uc001ity.3	-	5	840	c.615G>T	c.(613-615)GAG>GAT	p.E205D	MKX_uc001itx.3_Missense_Mutation_p.E205D	NM_173576	NP_775847	Q8IYA7	MKX_HUMAN	mohawk homeobox	205					muscle organ development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGGCCCGTGACTCTGGCCTCA	0.502													12	95					2.27111e-07	2.48365e-07	0.013537	1	0		A	28023608	A	A	28023608	3	1	62	1	0	0	0	0	1	0	0	0	9628	564	20	5	455	5	MKX	10	28023608	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08		28023608	107511139	178	43108											
EPC1	80314	broad.mit.edu	37	chr10	32576130	32576130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtctgttggggagtagcagCggcagacgatggtaagactt	9	9	16	7	3	1	2	0	0	1	2	1	4	1	3	0	4	2	5	0	4	2	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr10:32576130C>T	uc001iwg.1	-	7	1318	c.1048G>A	c.(1048-1050)GCT>ACT	p.A350T	EPC1_uc001iwi.3_Missense_Mutation_p.A300T|EPC1_uc009xlt.2_Missense_Mutation_p.A300T|EPC1_uc001iwh.1_Missense_Mutation_p.A350T	NM_025209	NP_079485	Q9H2F5	EPC1_HUMAN	enhancer of polycomb 1	350					histone H2A acetylation|histone H4 acetylation|negative regulation of gene expression, epigenetic|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear membrane|Piccolo NuA4 histone acetyltransferase complex				ovary(3)|central_nervous_system(1)	4		Prostate(175;0.0199)				GGAGTAGCAGCGGCAGACGAT	0.453													10	78					0	0	0.008291	0	0		T	32576130	T	T	32576130	3	4	62	1	0	0	0	0	1	0	0	0	5168	768	27	1	1498	1	EPC1	10	32576130	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	4552522	32576130	102958617	179	43109											
ARID5B	84159	broad.mit.edu	37	chr10	63851485	63851485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatcagtgattcagcacGtccagagtttcagaagcaag	12	8	11	10	1	3	3	3	1	0	2	4	3	4	3	2	1	2	3	2	1	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr10:63851485G>A	uc001jlt.1	+	10	2289	c.2263G>A	c.(2263-2265)GTC>ATC	p.V755I		NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	755					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					GATTCAGCACGTCCAGAGTTT	0.512													9	116					0	0	0.004482	0	0		A	63851485	A	A	63851485	3	1	62	1	0	0	0	0	1	0	0	0	922	1145	40	1	2301	1	ARID5B	10	63851485	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	31275355	63851485	71683262	180	43110											
PTEN	5728	broad.mit.edu	37	chr10	89717672	89717672	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaattcaggacccacaCgacgggaagacaagttcatg	13	6	9	13	2	2	1	2	0	0	1	3	4	3	3	3	2	0	1	3	2	3	2	rs121909219		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr10:89717672C>T	uc001kfb.2	+	8	1728	c.697C>T	c.(697-699)CGA>TGA	p.R233*		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	233	C2 tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.R233*(61)|p.R233fs*10(4)|p.R55fs*1(4)|p.N212fs*1(2)|p.Y27fs*1(2)|p.G165_*404del(1)|p.?(1)|p.R233fs*12(1)|p.R233fs*20(1)|p.R233fs*25(1)|p.R233fs*23(1)|p.R233R(1)|p.G165_K342del(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		AGGACCCACACGACGGGAAGA	0.423	R233*(JHUEM1_ENDOMETRIUM)|R233*(SW1783_CENTRAL_NERVOUS_SYSTEM)|R233*(NCIH1155_LUNG)|R233*(SF295_CENTRAL_NERVOUS_SYSTEM)|R233*(HEC59_ENDOMETRIUM)	31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			16	78					0	0	0.004007	0	0		T	89717672	T	T	89717672	4	4	62	1	0	0	0	0	0	1	0	0	12760	528	19	1	723	1	PTEN	10	89717672	Nonsense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	25866187	89717672	45817075	181	43111											
DNTT	1791	broad.mit.edu	37	chr10	98079101	98079101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaaagatctcccagtatgCgtgtcagagaagaaccactt	15	8	8	10	1	2	3	1	0	1	3	3	4	2	3	2	0	2	1	2	0	5	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr10:98079101C>T	uc001kmf.2	+	3	631	c.461C>T	c.(460-462)GCG>GTG	p.A154V	DNTT_uc001kmg.2_Missense_Mutation_p.A154V	NM_004088	NP_004079	P04053	TDT_HUMAN	terminal deoxynucleotidyltransferase isoform 1	154	Mediates interaction with DNTTIP2.				DNA modification	nucleus	DNA binding|DNA nucleotidylexotransferase activity|DNA-directed DNA polymerase activity|metal ion binding			ovary(1)	1		Colorectal(252;0.0815)|all_hematologic(284;0.224)		Epithelial(162;7.97e-08)|all cancers(201;1.89e-06)		TCCCAGTATGCGTGTCAGAGA	0.463													9	157					0	0	0.006214	0	0		T	98079101	T	T	98079101	3	4	62	1	0	0	0	0	1	0	0	0	4686	768	27	1	471	1	DNTT	10	98079101	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	8361429	98079101	37455646	182	43112											
EXOSC1	51013	broad.mit.edu	37	chr10	99196230	99196230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaagaattcgggttgtactCgggctactttccggaattct	8	13	11	9	3	1	1	0	0	1	1	4	2	2	2	1	3	2	4	1	3	5	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr10:99196230C>T	uc001kni.2	-	8	586	c.560G>A	c.(559-561)CGA>CAA	p.R187Q	EXOSC1_uc009xvp.1_RNA	NM_016046	NP_057130	Q9Y3B2	EXOS1_HUMAN	exosomal core protein CSL4	187					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	protein binding|RNA binding				0		Renal(717;0.000147)|Colorectal(252;0.00205)|Ovarian(717;0.00965)		all cancers(201;8.29e-42)|Epithelial(162;5.7e-33)|BRCA - Breast invasive adenocarcinoma(275;0.000315)|Kidney(138;0.000832)|KIRC - Kidney renal clear cell carcinoma(50;0.00269)|STAD - Stomach adenocarcinoma(243;0.202)		GGGTTGTACTCGGGCTACTTT	0.483													10	128					0	0	0.010729	0	0		T	99196230	T	T	99196230	3	4	62	1	0	0	0	0	1	0	0	0	5321	884	31	1	31	1	EXOSC1	10	99196230	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1117129	99196230	36338517	183	43113											
C10orf90	118611	broad.mit.edu	37	chr10	128149986	128149986	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttacttgcaaggtcaaagatCttgcaggcgtttgctgagac	10	12	11	8	1	2	2	1	1	1	2	2	3	2	2	0	2	4	4	0	2	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr10:128149986C>G	uc001ljq.2	-	5	1824	c.1703G>C	c.(1702-1704)AGA>ACA	p.R568T	C10orf90_uc001ljp.2_Missense_Mutation_p.R424T|C10orf90_uc010qum.1_Missense_Mutation_p.R665T|C10orf90_uc001ljo.2_RNA	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	568										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		GGTCAAAGATCTTGCAGGCGT	0.587													8	25					0	0	0.00308	0	0		G	128149986	G	G	128149986	3	3	62	1	0	0	0	0	1	0	0	0	1626	913	32	5	416	5	C10orf90	10	128149986	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	28953756	128149986	7384761	184	43114											
KNDC1	85442	broad.mit.edu	37	chr10	135011860	135011860	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcttcctgccggtgaacagCgacaccgggcttgtggctgt	5	9	15	12	3	0	1	0	1	0	0	1	2	1	1	3	4	3	3	3	4	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr10:135011860C>T	uc001llz.1	+	13	1927	c.1926C>T	c.(1924-1926)AGC>AGT	p.S642S	KNDC1_uc001lma.1_Silent_p.S577S|KNDC1_uc001lmb.1_Silent_p.S54S	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	642					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		CGGTGAACAGCGACACCGGGC	0.726													3	4					0	0	0.004672	0	0		T	135011860	T	T	135011860	2	4	62	1	0	0	0	0	0	0	0	1	8442	767	27	1		1	KNDC1	10	135011860	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	6861874	135011860	522887	185	43115											
CDHR5	53841	broad.mit.edu	37	chr11	619478	619478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccctgccccgcacctctGcgtagaaggctcccgcctgt	4	8	10	19	3	1	1	0	0	1	1	2	1	2	1	6	1	3	3	6	1	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:619478G>A	uc001lqj.2	-	11	1394	c.1289C>T	c.(1288-1290)GCA>GTA	p.A430V	CDHR5_uc001lqk.2_Missense_Mutation_p.A430V|CDHR5_uc009ycc.2_Missense_Mutation_p.A264V|CDHR5_uc009ycd.2_Missense_Mutation_p.A430V|CDHR5_uc001lql.2_Missense_Mutation_p.A430V|CDHR5_uc001lqm.2_Missense_Mutation_p.A264V|CDHR5_uc009yce.1_Missense_Mutation_p.A399V	NM_021924	NP_068743	Q9HBB8	CDHR5_HUMAN	mucin and cadherin-like isoform 1	430	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						CCGCACCTCTGCGTAGAAGGC	0.607													7	73					0	0	0.00308	0	0		A	619478	A	A	619478	3	1	62	1	0	0	0	0	1	0	0	0	3125	1319	46	2	1268	2	CDHR5	11	619478	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08		619478	134387038	186	43116											
TRPM5	29850	broad.mit.edu	37	chr11	2432908	2432908	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggcccagctgcttgtgtAtggcaaagatatggatcagc	9	10	14	8	0	1	1	1	0	0	1	1	2	1	2	1	4	3	4	1	4	3	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:2432908A>T	uc001lwm.3	-	17	2573	c.2564T>A	c.(2563-2565)ATA>AAA	p.I855K	TRPM5_uc010qxl.1_Missense_Mutation_p.I855K|TRPM5_uc009ydn.2_Missense_Mutation_p.I857K	NM_014555	NP_055370	Q9NZQ8	TRPM5_HUMAN	transient receptor potential cation channel,	855	Helical; (Potential).					integral to membrane|plasma membrane	receptor activity|voltage-gated ion channel activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Medulloblastoma(188;0.0049)|Breast(177;0.00586)|all_epithelial(84;0.0075)|Ovarian(85;0.0256)|all_neural(188;0.0311)		BRCA - Breast invasive adenocarcinoma(625;0.00147)|LUSC - Lung squamous cell carcinoma(625;0.191)		CTGCTTGTGTATGGCAAAGAT	0.642													14	55					0	0	0.00245	0	0		T	2432908	T	T	2432908	3	4	62	1	0	0	0	0	1	0	0	0	16615	449	16	5	965	5	TRPM5	11	2432908	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	1813430	2432908	132573608	187	43117											
OR51E1	143503	broad.mit.edu	37	chr11	4674130	4674130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggccatggcttttgaccGctatgtggccatctgtcacc	5	12	11	13	1	2	1	1	1	1	0	2	1	2	1	4	3	0	3	4	3	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:4674130G>A	uc001lzi.3	+	2	518	c.374G>A	c.(373-375)CGC>CAC	p.R125H		NM_152430	NP_689643	Q8TCB6	O51E1_HUMAN	olfactory receptor, family 51, subfamily E,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(3)|pancreas(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;7.37e-14)|GBM - Glioblastoma multiforme(2;2.85e-05)|BRCA - Breast invasive adenocarcinoma(625;0.00222)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCTTTTGACCGCTATGTGGCC	0.547													10	64					0	0	0.006214	0	0		A	4674130	A	A	4674130	3	1	62	1	0	0	0	0	1	0	0	0	11113	1087	38	1	376	1	OR51E1	11	4674130	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2241222	4674130	130332386	188	43118											
OR52A4	390053	broad.mit.edu	37	chr11	5142343	5142343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggaattaccagaatggcagGccgcaatgtcactccaacta	13	8	9	11	1	1	1	1	0	0	1	2	2	2	2	3	3	2	2	3	3	6	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:5142343G>A	uc001lzz.1	-	1	466	c.466C>T	c.(466-468)CCT>TCT	p.P156S		NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		AGAATGGCAGGCCGCAATGTC	0.463													6	48					0	0	0.001168	0	0		A	5142343	A	A	5142343	3	1	62	1	0	0	0	0	1	0	0	0	11128	1203	42	2	452	2	OR52A4	11	5142343	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	468213	5142343	129864173	189	43119											
OR52L1	338751	broad.mit.edu	37	chr11	6008025	6008025	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggatgcccaggggcagtgCaatccagtgctggctttcct	8	9	13	11	0	0	0	0	0	0	0	2	1	2	1	3	4	3	4	3	4	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:6008025C>A	uc001mcd.2	-	1	191	c.136G>T	c.(136-138)GCA>TCA	p.A46S		NM_001005173	NP_001005173	Q8NGH7	O52L1_HUMAN	olfactory receptor, family 52, subfamily L,	46	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.98e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGGGGCAGTGCAATCCAGTGC	0.488													11	29					0.00136819	0.00140248	0.013537	1	0		A	6008025	A	A	6008025	3	1	62	1	0	0	0	0	1	0	0	0	11144	710	25	5	857	5	OR52L1	11	6008025	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	865682	6008025	128998491	190	43120											
SCUBE2	57758	broad.mit.edu	37	chr11	9082038	9082038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgaagtatccttacaggtgCggtcacagcctccattgttg	8	12	10	11	2	1	0	1	0	0	0	4	1	3	0	3	2	3	2	3	2	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:9082038C>T	uc001mhh.1	-	8	964	c.884G>A	c.(883-885)CGC>CAC	p.R295H	SCUBE2_uc001mhi.1_Missense_Mutation_p.R295H|SCUBE2_uc001mhj.1_Missense_Mutation_p.R295H	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	295	EGF-like 6 (Potential).					extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		CTTACAGGTGCGGTCACAGCC	0.498													13	114					0	0	0.00245	0	0		T	9082038	T	T	9082038	3	4	62	1	0	0	0	0	1	0	0	0	13970	768	27	1	2266	1	SCUBE2	11	9082038	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	3074013	9082038	125924478	191	43121											
AMPD3	272	broad.mit.edu	37	chr11	10526171	10526171	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacctgtgtgagatcgccAggaacagcgtgctgcagagc	9	6	15	11	3	0	2	0	1	0	2	1	5	0	3	2	1	5	2	2	1	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:10526171A>G	uc001mio.1	+	14	2427	c.2092A>G	c.(2092-2094)AGG>GGG	p.R698G	AMPD3_uc010rbz.1_Missense_Mutation_p.R539G|AMPD3_uc001min.1_Missense_Mutation_p.R707G|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.R705G|AMPD3_uc009yfy.2_Missense_Mutation_p.R698G	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	698					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		TGAGATCGCCAGGAACAGCGT	0.512													9	107					0	0	0.004482	0	0		G	10526171	G	G	10526171	3	3	62	1	0	0	0	0	1	0	0	0	587	179	7	3	2193	3	AMPD3	11	10526171	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	1444133	10526171	124480345	192	43122											
SOX6	55553	broad.mit.edu	37	chr11	16007846	16007846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccatcaacaatgcaggtgCgtttcggtcggggtttgtat	7	13	13	8	3	1	0	1	0	0	0	3	0	1	0	1	4	4	4	1	4	3	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:16007846C>T	uc001mme.2	-	15	2159	c.2126G>A	c.(2125-2127)CGC>CAC	p.R709H	SOX6_uc001mmd.2_Missense_Mutation_p.R672H|SOX6_uc001mmf.2_Missense_Mutation_p.R669H|SOX6_uc001mmg.2_Missense_Mutation_p.R676H	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	696					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						AATGCAGGTGCGTTTCGGTCG	0.473													14	160					0	0	0.001855	0	0		T	16007846	T	T	16007846	3	4	62	1	0	0	0	0	1	0	0	0	14980	768	27	1	407	1	SOX6	11	16007846	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	5481675	16007846	118998670	193	43123											
UEVLD	55293	broad.mit.edu	37	chr11	18579822	18579822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagatttcaaggtccatcGtggctcctttagtcccttct	7	15	8	11	1	2	2	1	1	1	1	6	2	5	2	3	2	0	1	3	2	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:18579822G>A	uc001mot.2	-	7	748	c.668C>T	c.(667-669)ACG>ATG	p.T223M	UEVLD_uc001mou.2_Missense_Mutation_p.T223M|UEVLD_uc010rde.1_Missense_Mutation_p.T93M|UEVLD_uc010rdf.1_Missense_Mutation_p.T201M|UEVLD_uc010rdg.1_Missense_Mutation_p.T93M|UEVLD_uc001mov.2_Missense_Mutation_p.T201M	NM_001040697	NP_001035787	Q8IX04	UEVLD_HUMAN	ubiquitin-conjugating enzyme E2-like isoform a	223					cellular carbohydrate metabolic process|protein modification process|protein transport		binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor				0						AAGGTCCATCGTGGCTCCTTT	0.408													7	66					0	0	0.001984	0	0		A	18579822	A	A	18579822	3	1	62	1	0	0	0	0	1	0	0	0	16959	1145	40	1	771	1	UEVLD	11	18579822	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2571976	18579822	116426694	194	43124											
SPTY2D1	144108	broad.mit.edu	37	chr11	18636447	18636447	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggccacgagagctgcccaaGggtcttgcagaactaactga	11	6	13	11	1	1	3	0	1	1	2	1	4	1	3	2	2	5	2	2	2	3	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:18636447G>T	uc001moy.2	-	3	1590	c.1374C>A	c.(1372-1374)CCC>CCA	p.P458P	SPTY2D1_uc010rdi.1_Silent_p.P458P	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	458	Ser-rich.									breast(1)	1						AGCTGCCCAAGGGTCTTGCAG	0.637													9	69					0.000274275	0.00028617	0.004482	1	0		T	18636447	T	T	18636447	2	4	62	1	0	0	0	0	0	0	0	1	15151	987	35	5		5	SPTY2D1	11	18636447	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	56625	18636447	116370069	195	43125											
HTATIP2	10553	broad.mit.edu	37	chr11	20398124	20398124	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatgtccttttcccccttAggagggatttgttcgtgttg	4	17	10	10	1	1	0	1	0	0	0	4	2	3	2	3	2	0	2	3	2	1	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:20398124A>G	uc009yia.1	+	4	370	c.304_splice	c.e4-2	p.E102_splice	HTATIP2_uc009yib.1_Splice_Site_p.E102_splice|HTATIP2_uc001mpx.2_Splice_Site_p.E136_splice|HTATIP2_uc001mpz.2_Splice_Site_p.E102_splice	NM_006410	NP_006401	Q9BUP3	HTAI2_HUMAN	HIV-1 Tat interactive protein 2, 30kDa isoform						angiogenesis|anti-apoptosis|apoptosis|cell differentiation|cellular amino acid metabolic process|induction of apoptosis|interspecies interaction between organisms|nuclear import|regulation of angiogenesis|regulation of transcription from RNA polymerase II promoter	cytoplasm|nuclear envelope	NAD binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor|protein binding|transcription coactivator activity				0						TTTCCCCCTTAGGAGGGATTT	0.458													13	98					0	0	0.001855	0	0		G	20398124	G	G	20398124	5	3	62	1	0	0	0	0	0	0	1	0	7448	434	15	3	517	3	HTATIP2	11	20398124	Splice_Site	SNP	A	TCGA-BR-8284-01A-11D-2340-08	1761677	20398124	114608392	196	43126											
KCNA4	3739	broad.mit.edu	37	chr11	30033696	30033696	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacacatttatcaccacaCgttcacaacagtcactgtag	13	10	5	13	1	3	1	3	1	0	0	3	1	3	1	1	0	1	2	1	0	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:30033696C>A	uc001msk.2	-	2	1682	c.530G>T	c.(529-531)CGT>CTT	p.R177L		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	177						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TATCACCACACGTTCACAACA	0.517													13	43					7.93312e-07	8.62938e-07	0.00245	1	0		A	30033696	A	A	30033696	3	1	62	1	0	0	0	0	1	0	0	0	8021	536	19	5	1435	5	KCNA4	11	30033696	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	9635572	30033696	104972820	197	43127											
LMO2	4005	broad.mit.edu	37	chr11	33880991	33880991	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtatctgtcacctacacAgaaatgcttctgacaggcgg	11	9	11	10	1	3	2	1	1	2	1	3	3	3	2	1	3	2	2	1	3	3	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:33880991A>C	uc001mve.2	-	3	827	c.388T>G	c.(388-390)TGT>GGT	p.C130G	LMO2_uc001mvc.2_Missense_Mutation_p.C123G|LMO2_uc001mvd.2_Missense_Mutation_p.C123G|LMO2_uc010rel.1_Missense_Mutation_p.C130G|LMO2_uc010rem.1_Missense_Mutation_p.C199G	NM_001142316	NP_001135788	P25791	RBTN2_HUMAN	LIM domain only 2 isoform 2	130	LIM zinc-binding 2.				multicellular organismal development	nucleus	protein binding|zinc ion binding			lung(1)	1						TCACCTACACAGAAATGCTTC	0.483			T	TRD@	T-ALL								4	51					0	0	0.009096	0	0		C	33880991	C	C	33880991	3	2	62	1	0	0	0	0	1	0	0	0	8869	188	7	5	92	5	LMO2	11	33880991	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	3847295	33880991	101125525	198	43128											
EXT2	2132	broad.mit.edu	37	chr11	44129759	44129759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttaaccagaacacactgcGcatcaaggagacagcacaag	16	4	9	12	1	1	2	1	0	0	2	1	3	1	2	1	1	4	3	1	1	4	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:44129759G>A	uc001mxz.2	+	2	831	c.497G>A	c.(496-498)CGC>CAC	p.R166H	EXT2_uc010rfo.1_Missense_Mutation_p.R194H|EXT2_uc001mxy.2_Missense_Mutation_p.R179H|EXT2_uc009ykt.2_Missense_Mutation_p.R166H|EXT2_uc001mya.2_Missense_Mutation_p.R199H	NM_207122	NP_997005	Q93063	EXT2_HUMAN	exostosin 2 isoform 2	166	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity			lung(2)|breast(2)|skin(1)	5						AACACACTGCGCATCAAGGAG	0.532			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses				5	32					0	0	0.000602	0	0		A	44129759	A	A	44129759	3	1	62	1	0	0	0	0	1	0	0	0	5332	1087	38	1	602	1	EXT2	11	44129759	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	10248768	44129759	90876757	199	43129											
CHST1	8534	broad.mit.edu	37	chr11	45672345	45672345	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcctcgcacagtcgctcGgccagcccggcctctgccag	4	7	10	20	4	2	0	0	0	2	0	6	0	2	0	5	2	2	2	5	2	0	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:45672345G>A	uc001mys.1	-	4	800	c.129C>T	c.(127-129)GCC>GCT	p.A43A		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	43	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		ACAGTCGCTCGGCCAGCCCGG	0.662													16	46					0	0	0.003163	0	0		A	45672345	A	A	45672345	2	1	62	1	0	0	0	0	0	0	0	1	3400	1103	39	1		1	CHST1	11	45672345	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1542586	45672345	89334171	200	43130											
FOLH1	2346	broad.mit.edu	37	chr11	49208318	49208318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atagttaacatacactagatCgccctgttgagatcgggaat	13	11	9	8	2	0	2	0	1	0	2	2	4	0	3	1	1	2	2	1	1	5	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:49208318C>T	uc001ngy.2	-	5	778	c.517G>A	c.(517-519)GAT>AAT	p.D173N	FOLH1_uc001ngz.2_Missense_Mutation_p.D173N|FOLH1_uc009yly.2_Missense_Mutation_p.D158N|FOLH1_uc009ylz.2_Missense_Mutation_p.D158N|FOLH1_uc009yma.2_5'UTR	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	173	Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	TACACTAGATCGCCCTGTTGA	0.393													6	60					0	0	0.001984	0	0		T	49208318	T	T	49208318	3	4	62	1	0	0	0	0	1	0	0	0	5993	884	31	1	1795	1	FOLH1	11	49208318	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	3535973	49208318	85798198	201	43131											
OR5M3	219482	broad.mit.edu	37	chr11	56237824	56237824	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggggttgttaagctgaggActgaccttgattaacaccat	11	12	11	7	0	0	3	0	3	0	0	0	4	0	4	2	3	2	3	2	3	2	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:56237824A>G	uc010rjk.1	-	1	150	c.150T>C	c.(148-150)AGT>AGC	p.S50S		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	50	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TAAGCTGAGGACTGACCTTGA	0.433													7	122					0	0	0.001984	0	0		G	56237824	G	G	56237824	2	3	62	1	0	0	0	0	0	0	0	1	11194	272	10	3		3	OR5M3	11	56237824	Silent	SNP	A	TCGA-BR-8284-01A-11D-2340-08	7029506	56237824	78768692	202	43132											
MEN1	4221	broad.mit.edu	37	chr11	64572229	64572229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgggcttcctcgccccaCggctcctcggcctcggccgc	1	7	11	22	6	0	0	0	0	0	0	6	0	3	0	7	4	0	2	7	4	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:64572229C>T	uc001obj.2	-	10	1498	c.1425G>A	c.(1423-1425)CCG>CCA	p.P475P	MAP4K2_uc001obh.2_5'Flank|MAP4K2_uc001obi.2_5'Flank|MAP4K2_uc010rnp.1_5'Flank|MEN1_uc001obk.2_Silent_p.P475P|MEN1_uc001obl.2_Silent_p.P435P|MEN1_uc001obm.2_Silent_p.P470P|MEN1_uc001obn.2_Silent_p.P475P|MEN1_uc001obo.2_Silent_p.P475P|MEN1_uc001obp.2_Silent_p.P470P|MEN1_uc001obq.2_Silent_p.P475P|MEN1_uc001obr.2_Silent_p.P475P	NM_130800	NP_570712	O00255	MEN1_HUMAN	menin isoform 1	475					DNA repair|histone lysine methylation|MAPKKK cascade|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of JNK cascade|negative regulation of osteoblast differentiation|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of telomerase activity|negative regulation of transcription from RNA polymerase II promoter|osteoblast development|positive regulation of protein binding|positive regulation of transforming growth factor beta receptor signaling pathway|response to gamma radiation|response to UV|transcription, DNA-dependent	chromatin|cleavage furrow|cytosol|histone methyltransferase complex|nuclear matrix|soluble fraction	double-stranded DNA binding|four-way junction DNA binding|protein binding, bridging|protein N-terminus binding|R-SMAD binding|transcription regulatory region DNA binding|Y-form DNA binding			parathyroid(105)|pancreas(64)|gastrointestinal_tract_(site_indeterminate)(15)|small_intestine(13)|lung(9)|pituitary(7)|NS(7)|adrenal_gland(5)|soft_tissue(4)|central_nervous_system(4)|thymus(2)|stomach(1)|retroperitoneum(1)|skin(1)	238						CCTCGCCCCACGGCTCCTCGG	0.731			D|Mis|N|F|S		parathyroid tumors|Pancreatic neuroendocrine tumors	parathyroid adenoma|pituitary adenoma|pancreatic islet cell|carcinoid			Hyperparathyroidism_Familial_Isolated|Multiple_Endocrine_Neoplasia_type_1				6	39					0	0	0.001984	0	0		T	64572229	T	T	64572229	2	4	62	1	0	0	0	0	0	0	0	1	9490	523	19	1		1	MEN1	11	64572229	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	8334405	64572229	70434287	203	43133											
MYO7A	4647	broad.mit.edu	37	chr11	76900480	76900480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattctcgtgtctctctgcGtgggctgtttcgccccctcc	1	14	11	15	3	3	0	0	0	3	0	7	1	4	1	3	2	1	2	3	2	0	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:76900480G>A	uc001oyb.2	+	28	3867	c.3595G>A	c.(3595-3597)GTG>ATG	p.V1199M	MYO7A_uc010rsm.1_Missense_Mutation_p.V1188M|MYO7A_uc001oyc.2_Missense_Mutation_p.V1199M|MYO7A_uc009yus.1_RNA|MYO7A_uc009yut.1_Missense_Mutation_p.V410M	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	1199	MyTH4 1.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						GTCTCTCTGCGTGGGCTGTTT	0.622													7	53					0	0	0.00308	0	0		A	76900480	A	A	76900480	3	1	62	1	0	0	0	0	1	0	0	0	10100	1145	40	1	3735	1	MYO7A	11	76900480	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	12328251	76900480	58106036	204	43134											
PDGFD	80310	broad.mit.edu	37	chr11	103866942	103866942	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaataatggtactggtttCggatatatcttcaacttcca	11	16	6	8	1	3	0	1	0	2	0	5	1	4	1	1	3	2	2	1	3	6	8			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:103866942C>A	uc001phq.2	-	3	733	c.361G>T	c.(361-363)GAA>TAA	p.E121*	PDGFD_uc001php.2_Nonsense_Mutation_p.E115*	NM_025208	NP_079484	Q9GZP0	PDGFD_HUMAN	platelet derived growth factor D isoform 1	121	CUB.				positive regulation of cell division	endoplasmic reticulum lumen|extracellular region|Golgi membrane	growth factor activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Melanoma(852;0.0563)|all_neural(303;0.165)		BRCA - Breast invasive adenocarcinoma(274;0.00136)|Epithelial(105;0.111)		GTACTGGTTTCGGATATATCT	0.343													13	59					9.31168e-06	1.00223e-05	0.001855	1	0		A	103866942	A	A	103866942	4	1	62	1	0	0	0	0	0	1	0	0	11679	893	31	5	771	5	PDGFD	11	103866942	Nonsense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	26966462	103866942	31139574	205	43135											
DDI1	414301	broad.mit.edu	37	chr11	103908214	103908214	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaggaaatccggcagcaaAacattgaagaaaacatgaat	21	5	9	6	1	0	4	0	2	0	2	1	5	1	5	1	2	3	2	1	2	8	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:103908214A>T	uc001phr.2	+	1	907	c.664A>T	c.(664-666)AAC>TAC	p.N222Y	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	222					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		CCGGCAGCAAAACATTGAAGA	0.478													8	111					0	0	0.004482	0	0		T	103908214	T	T	103908214	3	4	62	1	0	0	0	0	1	0	0	0	4331	14	1	5	666	5	DDI1	11	103908214	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	41272	103908214	31098302	206	43136											
ANKK1	255239	broad.mit.edu	37	chr11	113268051	113268051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgcaagctgtcgctgcGccagcccggggaggtgagtg	5	7	17	12	3	0	1	0	1	0	0	2	2	1	2	3	3	4	3	3	3	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:113268051G>A	uc001pny.2	+	6	1038	c.944G>A	c.(943-945)CGC>CAC	p.R315H		NM_178510	NP_848605	Q8NFD2	ANKK1_HUMAN	ankyrin repeat and kinase domain containing 1	315							ATP binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|ovary(1)|breast(1)	8		all_cancers(61;1.53e-11)|all_epithelial(67;3e-06)|Melanoma(852;4.04e-05)|all_hematologic(158;0.000315)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0461)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Prostate(24;0.194)		BRCA - Breast invasive adenocarcinoma(274;4.82e-06)|Epithelial(105;5.41e-05)|all cancers(92;0.000442)|OV - Ovarian serous cystadenocarcinoma(223;0.238)		CTGTCGCTGCGCCAGCCCGGG	0.607													3	26					0	0	0.004672	0	0		A	113268051	A	A	113268051	3	1	62	1	0	0	0	0	1	0	0	0	631	1087	38	1	966	1	ANKK1	11	113268051	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	9359837	113268051	21738465	207	43137											
BACE1	23621	broad.mit.edu	37	chr11	117161234	117161234	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgacagcaaagccaattcGttttcgggcccgatcaaaga	12	8	10	11	3	1	2	1	1	0	1	3	3	1	2	2	1	2	3	2	1	3	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:117161234G>A	uc001pqz.2	-	8	1695	c.1234C>T	c.(1234-1236)CGA>TGA	p.R412*	BACE1_uc001pqw.2_Nonsense_Mutation_p.R387*|BACE1_uc001pqx.2_Nonsense_Mutation_p.R343*|BACE1_uc001pqy.2_Nonsense_Mutation_p.R368*|BACE1_uc010rxg.1_Nonsense_Mutation_p.R287*|BACE1_uc010rxh.1_Nonsense_Mutation_p.R312*|BACE1_uc009yzo.1_Silent_p.N79N|uc010rxi.1_5'Flank	NM_012104	NP_036236	P56817	BACE1_HUMAN	beta-site APP-cleaving enzyme 1 isoform A	412	Extracellular (Potential).				beta-amyloid metabolic process|membrane protein ectodomain proteolysis	cell surface|cytoplasmic vesicle membrane|endoplasmic reticulum|endosome|integral to plasma membrane|trans-Golgi network	aspartic-type endopeptidase activity|beta-aspartyl-peptidase activity|protein binding			ovary(1)	1	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000563)|all cancers(92;0.0032)		AAGCCAATTCGTTTTCGGGCC	0.498													5	40					0	0	0.000602	0	0		A	117161234	A	A	117161234	4	1	62	1	0	0	0	0	0	1	0	0	1282	1153	40	1	279	1	BACE1	11	117161234	Nonsense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	3893183	117161234	17845282	208	43138											
IL10RA	3587	broad.mit.edu	37	chr11	117860290	117860290	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgtggacggcagccggCactccaactggaccgtcacc	7	5	14	15	3	1	0	1	0	0	0	2	2	2	2	4	5	2	3	4	5	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:117860290C>A	uc001prv.2	+	3	399	c.322C>A	c.(322-324)CAC>AAC	p.H108N	IL10RA_uc010rxl.1_Missense_Mutation_p.H88N|IL10RA_uc010rxm.1_Missense_Mutation_p.H88N|IL10RA_uc010rxn.1_Intron|IL10RA_uc001prw.2_5'UTR	NM_001558	NP_001549	Q13651	I10R1_HUMAN	interleukin 10 receptor, alpha precursor	108	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-10 receptor activity			ovary(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)|Epithelial(105;0.00108)		CGGCAGCCGGCACTCCAACTG	0.582													10	42					0.00010058	0.000105751	0.013537	1	0		A	117860290	A	A	117860290	3	1	62	1	0	0	0	0	1	0	0	0	7636	710	25	5	332	5	IL10RA	11	117860290	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	699056	117860290	17146226	209	43139											
ROBO3	64221	broad.mit.edu	37	chr11	124747173	124747173	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttccccagtgtccttcccGcactcagagggcctctctgg	4	12	9	16	1	2	1	1	0	1	1	6	1	5	1	5	2	0	1	5	2	0	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr11:124747173G>A	uc001qbc.2	+	19	3006	c.2814G>A	c.(2812-2814)CCG>CCA	p.P938P	ROBO3_uc010saq.1_5'UTR|ROBO3_uc001qbd.2_5'UTR|ROBO3_uc010sar.1_Intron|ROBO3_uc001qbe.2_Intron|ROBO3_uc001qbf.1_5'Flank	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	938	Cytoplasmic (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		TGTCCTTCCCGCACTCAGAGG	0.612													13	99					0	0	0.001855	0	0		A	124747173	A	A	124747173	2	1	62	1	0	0	0	0	0	0	0	1	13540	1074	38	1		1	ROBO3	11	124747173	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	6886883	124747173	10259343	210	43140											
C1S	716	broad.mit.edu	37	chr12	7177276	7177276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacccatgggctggtggagCgctcattaatgagtactggg	9	9	14	9	1	1	1	1	1	0	0	1	2	1	2	1	4	3	3	1	4	3	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:7177276C>T	uc001qsj.2	+	15	2107	c.1388C>T	c.(1387-1389)GCG>GTG	p.A463V	C1S_uc001qsk.2_Missense_Mutation_p.A463V|C1S_uc001qsl.2_Missense_Mutation_p.A463V|C1S_uc009zfr.2_Missense_Mutation_p.A296V|C1S_uc009zfs.2_RNA	NM_201442	NP_958850	P09871	C1S_HUMAN	complement component 1, s subcomponent	463	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity			skin(1)	1					Abciximab(DB00054)|Adalimumab(DB00051)|Basiliximab(DB00074)|Cetuximab(DB00002)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Rituximab(DB00073)|Trastuzumab(DB00072)	GCTGGTGGAGCGCTCATTAAT	0.498													5	61					0	0	0.000602	0	0		T	7177276	T	T	7177276	3	4	62	1	0	0	0	0	1	0	0	0	1977	768	27	1	1430	1	C1S	12	7177276	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08		7177276	126674619	211	43141											
CD163	9332	broad.mit.edu	37	chr12	7640606	7640606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtccgaatcacagatggagcCccacgtgtcaccatgcttca	10	8	9	14	2	3	1	3	0	0	1	4	3	4	2	4	1	2	1	4	1	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:7640606C>T	uc001qsz.3	-	7	1626	c.1498G>A	c.(1498-1500)GGC>AGC	p.G500S	CD163_uc001qta.3_Missense_Mutation_p.G500S|CD163_uc009zfw.2_Missense_Mutation_p.G500S	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	500	SRCR 5.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						CAGATGGAGCCCCACGTGTCA	0.507													6	32					0	0	0.001168	0	0		T	7640606	T	T	7640606	3	4	62	1	0	0	0	0	1	0	0	0	2970	623	22	4	2012	4	CD163	12	7640606	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	463330	7640606	126211289	212	43142											
FAM90A1	55138	broad.mit.edu	37	chr12	8374624	8374624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgtccgttttccagtctccGaaagagcactctgagaggct	8	10	11	12	3	2	2	0	1	2	2	5	4	4	2	3	1	1	3	3	1	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:8374624G>A	uc001qui.2	-	7	1748	c.1189C>T	c.(1189-1191)CGG>TGG	p.R397W	FAM90A1_uc001quh.2_Missense_Mutation_p.R397W	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	397							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		TCCAGTCTCCGAAAGAGCACT	0.632													4	26					0	0	0.009096	0	0		A	8374624	A	A	8374624	3	1	62	1	0	0	0	0	1	0	0	0	5664	1057	37	1	209	1	FAM90A1	12	8374624	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	734018	8374624	125477271	213	43143											
FGD4	121512	broad.mit.edu	37	chr12	32755181	32755181	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatgtgaaaggatttgataAtgcaatggaattggttaaaa	17	13	10	1	0	0	2	0	2	0	0	0	4	0	4	0	3	1	2	0	3	7	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:32755181A>G	uc001rkz.2	+	7	1400	c.923A>G	c.(922-924)AAT>AGT	p.N308S	FGD4_uc001rlc.2_Missense_Mutation_p.N393S|FGD4_uc001rky.2_Missense_Mutation_p.N60S|FGD4_uc001rla.2_5'UTR|FGD4_uc010ske.1_Missense_Mutation_p.N420S|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	308	DH.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					GGATTTGATAATGCAATGGAA	0.353													9	88					0	0	0.006214	0	0		G	32755181	G	G	32755181	3	3	62	1	0	0	0	0	1	0	0	0	5849	101	4	3	941	3	FGD4	12	32755181	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	24380557	32755181	101096714	214	43144											
SYT10	341359	broad.mit.edu	37	chr12	33529822	33529822	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttgactatcaaaactggtCgcccggccaggtaactgaaa	12	8	9	12	2	1	2	1	2	0	0	2	2	1	2	3	3	2	1	3	3	5	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:33529822C>T	uc001rll.1	-	7	1812	c.1515G>A	c.(1513-1515)GCG>GCA	p.A505A	SYT10_uc009zju.1_Silent_p.A315A	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	505	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					CAAAACTGGTCGCCCGGCCAG	0.403													7	42					0	0	0.00308	0	0		T	33529822	T	T	33529822	2	4	62	1	0	0	0	0	0	0	0	1	15491	871	31	1		1	SYT10	12	33529822	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	774641	33529822	100322073	215	43145											
ALG10B	144245	broad.mit.edu	37	chr12	38714359	38714359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcttttctgtttgacttggCcctacatccttctgggattt	4	19	8	10	0	2	1	0	1	2	0	3	2	3	2	2	2	2	2	2	2	1	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:38714359C>T	uc001rln.3	+	3	905	c.766C>T	c.(766-768)CCC>TCC	p.P256S	ALG10B_uc001rlo.3_Missense_Mutation_p.P226S|ALG10B_uc010skk.1_Missense_Mutation_p.P196S	NM_001013620	NP_001013642	Q5I7T1	AG10B_HUMAN	asparagine-linked glycosylation 10 homolog B	256	Cytoplasmic (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|plasma membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			ovary(2)|skin(1)	3	Esophageal squamous(101;0.187)	Lung NSC(34;0.204)|all_lung(34;0.235)				TTTGACTTGGCCCTACATCCT	0.368													11	263					0	0	0.013537	0	0		T	38714359	T	T	38714359	3	4	62	1	0	0	0	0	1	0	0	0	512	739	26	2	776	2	ALG10B	12	38714359	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	5184537	38714359	95137536	216	43146											
KRT81	3887	broad.mit.edu	37	chr12	52681893	52681893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtccagcttgacaaccaCggaggtgtctgagatgtgcg	8	10	14	9	2	1	2	0	2	1	1	2	4	2	3	2	2	3	2	2	2	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:52681893C>T	uc001sab.2	-	5	825	c.775G>A	c.(775-777)GTG>ATG	p.V259M	KRT86_uc010snq.1_Intron|KRT86_uc009zmg.2_Intron|KRT81_uc001sac.2_Intron	NM_002281	NP_002272	Q14533	KRT81_HUMAN	keratin, hair, basic, 1	259	Linker 12.|Rod.					keratin filament	protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		TTGACAACCACGGAGGTGTCT	0.557													27	76					0	0	0.007291	0	0		T	52681893	T	T	52681893	3	4	62	1	0	0	0	0	1	0	0	0	8511	536	19	1	762	1	KRT81	12	52681893	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	13967534	52681893	81170002	217	43147											
KRT84	3890	broad.mit.edu	37	chr12	52776281	52776281	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggtatccacgttggcctcGagatcagacttgttcatgaa	10	11	11	9	2	2	3	2	1	0	2	4	4	3	3	2	2	0	3	2	2	2	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:52776281G>A	uc001sah.1	-	4	900	c.852C>T	c.(850-852)CTC>CTT	p.L284L		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	284	Rod.|Coil 1B.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		CGTTGGCCTCGAGATCAGACT	0.458													5	67					0	0	0.001168	0	0		A	52776281	A	A	52776281	2	1	62	1	0	0	0	0	0	0	0	1	8514	1045	37	1		1	KRT84	12	52776281	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	94388	52776281	81075614	218	43148											
IRAK3	11213	broad.mit.edu	37	chr12	66641720	66641720	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatgtttctgagcttggaCaaaaagccagagagcaagag	14	9	12	6	0	1	3	0	1	1	2	1	5	1	4	1	1	3	4	1	1	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:66641720C>T	uc001sth.2	+	12	1662	c.1560C>T	c.(1558-1560)GAC>GAT	p.D520D	IRAK3_uc010ssy.1_Silent_p.D459D	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	520					interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		TGAGCTTGGACAAAAAGCCAG	0.428													18	91					0	0	0.00499	0	0		T	66641720	T	T	66641720	2	4	62	1	0	0	0	0	0	0	0	1	7840	477	17	4		4	IRAK3	12	66641720	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	13865439	66641720	67210175	219	43149											
TMCC3	57458	broad.mit.edu	37	chr12	94976111	94976111	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcactagtttcagatactcCgcaacattcccatcgcgcga	10	11	6	14	4	2	1	2	0	0	1	5	2	4	1	2	0	2	2	2	0	3	5	rs140629808	byFrequency	TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:94976111C>T	uc001tdj.2	-	2	400	c.282G>A	c.(280-282)GCG>GCA	p.A94A	TMCC3_uc001tdi.2_Silent_p.A63A	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	94						integral to membrane				ovary(1)|skin(1)	2						TCAGATACTCCGCAACATTCC	0.458													14	113					0	0	0.004007	0	0		T	94976111	T	T	94976111	2	4	62	1	0	0	0	0	0	0	0	1	16019	639	23	1		1	TMCC3	12	94976111	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	28334391	94976111	38875784	220	43150											
UTP20	27340	broad.mit.edu	37	chr12	101720872	101720872	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcagaattttgtatgggCgaatgaagaataagactggg	13	13	12	3	1	1	4	1	1	0	3	1	5	1	4	0	2	0	1	0	2	6	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:101720872C>T	uc001tia.1	+	26	3211	c.3055C>T	c.(3055-3057)CGA>TGA	p.R1019*		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1019					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TTTGTATGGGCGAATGAAGAA	0.433													11	77					0	0	0.010729	0	0		T	101720872	T	T	101720872	4	4	62	1	0	0	0	0	0	1	0	0	17125	760	27	1	3157	1	UTP20	12	101720872	Nonsense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	6744761	101720872	32131023	221	43151											
CCDC60	160777	broad.mit.edu	37	chr12	119954458	119954458	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctggagatggttcgggAagatgcccggaggacagtca	9	7	16	9	2	1	2	1	0	0	2	3	6	2	5	2	5	1	2	2	5	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:119954458A>G	uc001txe.2	+	8	1379	c.914A>G	c.(913-915)GAA>GGA	p.E305G	uc001txf.2_Intron	NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60	305										ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		ATGGTTCGGGAAGATGCCCGG	0.493													6	42					0	0	0.00308	0	0		G	119954458	G	G	119954458	3	3	62	1	0	0	0	0	1	0	0	0	2834	246	9	3	944	3	CCDC60	12	119954458	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	18233586	119954458	13897437	222	43152											
CLIP1	6249	broad.mit.edu	37	chr12	122825399	122825399	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcatttccgatttaccttcGgaactggctttccgaagtgc	7	15	8	11	3	1	0	1	0	0	0	4	3	3	1	3	2	3	1	3	2	3	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:122825399G>A	uc001ucg.1	-	10	2458	c.2352C>T	c.(2350-2352)TCC>TCT	p.S784S	CLIP1_uc001uch.1_Silent_p.S773S|CLIP1_uc001uci.1_Silent_p.S738S|CLIP1_uc001ucj.1_Intron	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	784	Potential.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		ATTTACCTTCGGAACTGGCTT	0.388													21	131					0	0	0.012319	0	0		A	122825399	A	A	122825399	2	1	62	1	0	0	0	0	0	0	0	1	3535	1103	39	1		1	CLIP1	12	122825399	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2870941	122825399	11026496	223	43153											
ATP6V0A2	23545	broad.mit.edu	37	chr12	124209219	124209219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagcagttgcagaagctcGaggttgaactgagagaagtc	13	7	15	6	1	0	4	0	2	0	2	2	7	0	5	0	2	4	5	0	2	3	2	rs146676679		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:124209219G>A	uc001ufr.2	+	4	561	c.313G>A	c.(313-315)GAG>AAG	p.E105K	ATP6V0A2_uc001ufq.1_Missense_Mutation_p.E105K	NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	105	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		GCAGAAGCTCGAGGTTGAACT	0.388													16	153					0	0	0.004007	0	0		A	124209219	A	A	124209219	3	1	62	1	0	0	0	0	1	0	0	0	1170	1059	37	1	327	1	ATP6V0A2	12	124209219	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1383820	124209219	9642676	224	43154											
P2RX2	22953	broad.mit.edu	37	chr12	133196038	133196038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcaggtacgtattcatcGtgcagaaaagctaccaggag	12	7	11	11	3	1	1	1	0	0	1	2	2	1	2	2	2	4	5	2	2	5	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:133196038G>A	uc001ukj.1	+	2	187	c.187G>A	c.(187-189)GTG>ATG	p.V63M	P2RX2_uc001uki.1_Missense_Mutation_p.V63M|P2RX2_uc001ukk.1_Missense_Mutation_p.V63M|P2RX2_uc001ukl.1_Missense_Mutation_p.V63M|P2RX2_uc001ukm.1_Missense_Mutation_p.R40H|P2RX2_uc001ukn.1_Intron|P2RX2_uc009zyt.1_Missense_Mutation_p.V63M|P2RX2_uc001uko.1_Missense_Mutation_p.V63M	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	63	Helical; Name=1; (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		CGTATTCATCGTGCAGAAAAG	0.677													14	85					0	0	0.006122	0	0		A	133196038	A	A	133196038	3	1	62	1	0	0	0	0	1	0	0	0	11359	1145	40	1	193	1	P2RX2	12	133196038	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	8986819	133196038	655857	225	43155											
POLE	5426	broad.mit.edu	37	chr12	133237570	133237570	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaccttgctgtacagcacGtccagccagtagtcagccac	9	10	8	14	1	1	0	1	0	0	0	2	0	2	0	4	0	6	4	4	0	3	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr12:133237570G>A	uc001uks.1	-	25	3089	c.3045C>T	c.(3043-3045)GAC>GAT	p.D1015D	POLE_uc001ukr.1_5'Flank|POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Silent_p.D988D	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1015					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		TGTACAGCACGTCCAGCCAGT	0.567								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					12	107					0	0	0.010729	0	0		A	133237570	A	A	133237570	2	1	62	1	0	0	0	0	0	0	0	1	12215	1136	40	1		1	POLE	12	133237570	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	41532	133237570	614325	226	43156											
DCLK1	9201	broad.mit.edu	37	chr13	36686031	36686031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatccaacgtgtacaggCgtttcaccactcccgagtcc	8	9	7	17	3	1	0	1	0	0	0	5	1	5	0	5	1	2	2	5	1	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr13:36686031C>T	uc001uvf.2	-	3	931	c.698G>A	c.(697-699)CGC>CAC	p.R233H		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	233	Doublecortin 2.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		CGTGTACAGGCGTTTCACCAC	0.502													17	61					0	0	0.008871	0	0		T	36686031	T	T	36686031	3	4	62	1	0	0	0	0	1	0	0	0	4294	768	27	1	1555	1	DCLK1	13	36686031	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08		36686031	78483847	227	43157											
PCDH9	5101	broad.mit.edu	37	chr13	67801710	67801710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcaccaaaaatgtacCggatttcagcattactgcct	11	10	8	12	1	1	0	1	0	0	0	1	1	1	1	4	2	4	3	4	2	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr13:67801710C>T	uc001vik.2	-	2	1555	c.863G>A	c.(862-864)CGG>CAG	p.R288Q	PCDH9_uc001vil.2_Missense_Mutation_p.R288Q|PCDH9_uc010thl.1_Missense_Mutation_p.R288Q|PCDH9_uc001vin.3_Missense_Mutation_p.R288Q	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	288	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		AAAAATGTACCGGATTTCAGC	0.463													11	91					0	0	0.010729	0	0		T	67801710	T	T	67801710	3	4	62	1	0	0	0	0	1	0	0	0	11537	652	23	1	2866	1	PCDH9	13	67801710	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	31115679	67801710	47368168	228	43158											
NALCN	259232	broad.mit.edu	37	chr13	101712255	101712255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgggcgggttcagaaacCggctcagctcttgctgctga	6	10	14	11	2	3	2	2	1	1	1	3	2	3	2	1	3	5	6	1	3	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr13:101712255C>T	uc001vox.1	-	42	5009	c.4820G>A	c.(4819-4821)CGG>CAG	p.R1607Q		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1607	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GTTCAGAAACCGGCTCAGCTC	0.532													9	59					0	0	0.006214	0	0		T	101712255	T	T	101712255	3	4	62	1	0	0	0	0	1	0	0	0	10166	652	23	1	408	1	NALCN	13	101712255	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	33910545	101712255	13457623	229	43159											
COL4A2	1284	broad.mit.edu	37	chr13	111082904	111082904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccatagggacctcccggcCgccctgggcatgtgggacag	7	6	14	14	2	0	0	0	0	0	0	2	2	2	2	5	4	0	1	5	4	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr13:111082904C>T	uc001vqx.2	+	10	887	c.598C>T	c.(598-600)CGC>TGC	p.R200C		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	200	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			ACCTCCCGGCCGCCCTGGGCA	0.537													14	111					0	0	0.004007	0	0		T	111082904	T	T	111082904	3	4	62	1	0	0	0	0	1	0	0	0	3693	652	23	1	632	1	COL4A2	13	111082904	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	9370649	111082904	4086974	230	43160											
OR4K5	79317	broad.mit.edu	37	chr14	20389116	20389116	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagatggtgctacttgtttcGatggcctatgacaggtatgt	8	14	13	6	1	0	2	0	1	0	1	1	4	0	2	1	3	2	3	1	3	3	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr14:20389116G>A	uc010tkw.1	+	1	351	c.351G>A	c.(349-351)TCG>TCA	p.S117S		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TACTTGTTTCGATGGCCTATG	0.448													11	217					0	0	0.008291	0	0		A	20389116	A	A	20389116	2	1	62	1	0	0	0	0	0	0	0	1	11092	1045	37	1		1	OR4K5	14	20389116	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08		20389116	86960424	231	43161											
OR11H4	390442	broad.mit.edu	37	chr14	20711877	20711877	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtaataaggacatgaaactCgctctgagaaatgtcctgtt	13	11	9	8	2	1	2	0	2	1	1	3	4	2	3	1	1	1	3	1	1	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr14:20711877C>T	uc010tld.1	+	1	927	c.927C>T	c.(925-927)CTC>CTT	p.L309L		NM_001004479	NP_001004479	Q8NGC9	O11H4_HUMAN	olfactory receptor, family 11, subfamily H,	309	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.000888)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0146)		ACATGAAACTCGCTCTGAGAA	0.393													28	77					0	0	0.004656	0	0		T	20711877	T	T	20711877	2	4	62	1	0	0	0	0	0	0	0	1	10947	871	31	1		1	OR11H4	14	20711877	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	322761	20711877	86637663	232	43162											
FLJ10357	55701	broad.mit.edu	37	chr14	21549161	21549161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgggccctgcggctacagCgcttcttccagcaggtgcat	6	9	12	14	3	1	0	0	0	1	0	3	0	2	0	2	3	5	4	2	3	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr14:21549161C>T	uc001vzp.2	+	13	2655	c.2626C>T	c.(2626-2628)CGC>TGC	p.R876C	FLJ10357_uc001vzo.1_5'UTR|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_Missense_Mutation_p.R162C	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	876					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		GCGGCTACAGCGCTTCTTCCA	0.537													22	97					0	0	0.00278	0	0		T	21549161	T	T	21549161	3	4	62	1	0	0	0	0	1	0	0	0	5940	768	27	1	2676	1	FLJ10357	14	21549161	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	837284	21549161	85800379	233	43163											
RPGRIP1	57096	broad.mit.edu	37	chr14	21793997	21793997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacatctttccagttcagatCggagtcttgggaacctcaga	11	11	9	10	1	4	2	2	0	2	2	6	4	5	4	2	2	2	1	2	2	2	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr14:21793997C>T	uc001wag.2	+	16	2375	c.2375C>T	c.(2374-2376)TCG>TTG	p.S792L	RPGRIP1_uc001wah.2_Missense_Mutation_p.S434L|RPGRIP1_uc001wai.2_Intron|RPGRIP1_uc001wak.2_Missense_Mutation_p.S267L|RPGRIP1_uc010aim.2_Missense_Mutation_p.S175L|RPGRIP1_uc001wal.2_Missense_Mutation_p.S151L|RPGRIP1_uc001wam.2_Missense_Mutation_p.S109L	NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	792					response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		CAGTTCAGATCGGAGTCTTGG	0.507													4	39					0	0	0.009096	0	0		T	21793997	T	T	21793997	3	4	62	1	0	0	0	0	1	0	0	0	13574	893	31	1	2437	1	RPGRIP1	14	21793997	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	244836	21793997	85555543	234	43164											
SLC22A17	51310	broad.mit.edu	37	chr14	23817839	23817839	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccaccaactcccctgccaGggccacccgaagcctctggg	7	4	9	21	1	1	0	0	0	1	0	2	1	2	0	9	2	3	0	9	2	2	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr14:23817839G>T	uc001wjl.2	-	4	624	c.568C>A	c.(568-570)CTG>ATG	p.L190M	SLC22A17_uc010akk.2_Intron|SLC22A17_uc001wjn.2_Intron|SLC22A17_uc001wjm.2_Missense_Mutation_p.L190M|SLC22A17_uc010akl.1_3'UTR	NM_020372	NP_065105	Q8WUG5	S22AH_HUMAN	solute carrier family 22, member 17 isoform a	190	Helical; (Potential).				siderophore transport	integral to organelle membrane|integral to plasma membrane|vacuolar membrane	transmembrane receptor activity|transmembrane transporter activity				0	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00643)		TCCCCTGCCAGGGCCACCCGA	0.512													9	74					7.48243e-07	8.16084e-07	0.006214	1	0		T	23817839	T	T	23817839	3	4	62	1	0	0	0	0	1	0	0	0	14473	991	35	5	1072	5	SLC22A17	14	23817839	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2023842	23817839	83531701	235	43165											
ARHGAP5	394	broad.mit.edu	37	chr14	32561828	32561828	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagtcagttatggactgcCgcctttaaaccacatgggtg	9	12	11	9	1	1	1	1	1	0	0	1	2	1	2	3	2	2	1	3	2	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr14:32561828C>T	uc001wrl.2	+	2	2192	c.1953C>T	c.(1951-1953)GCC>GCT	p.A651A	ARHGAP5_uc001wrm.2_Silent_p.A651A|ARHGAP5_uc001wrn.2_Silent_p.A651A|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	651					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		TATGGACTGCCGCCTTTAAAC	0.393													20	132					0	0	0.008871	0	0		T	32561828	T	T	32561828	2	4	62	1	0	0	0	0	0	0	0	1	886	639	23	1		1	ARHGAP5	14	32561828	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	8743989	32561828	74787712	236	43166											
SNX6	58533	broad.mit.edu	37	chr14	35037121	35037121	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cataattgttgggaagtttcGgcctgtagaacatctttatt	10	16	9	6	1	1	1	0	0	1	1	2	2	1	2	1	2	1	3	1	2	5	8			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr14:35037121G>A	uc001wsf.1	-	12	1064	c.1056C>T	c.(1054-1056)GCC>GCT	p.A352A	SNX6_uc001wse.1_Silent_p.A224A|SNX6_uc010tpm.1_Silent_p.A228A|SNX6_uc010amm.1_Silent_p.A228A	NM_152233	NP_689419	Q9UNH7	SNX6_HUMAN	sorting nexin 6 isoform b	340					cell communication|intracellular protein transport|negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent|negative regulation of transforming growth factor beta receptor signaling pathway|retrograde transport, endosome to Golgi	cytoplasmic vesicle membrane|early endosome membrane|nucleus	phosphatidylinositol binding|protein homodimerization activity				0	Breast(36;0.0473)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00199)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.0245)		GGGAAGTTTCGGCCTGTAGAA	0.348													7	63					0	0	0.001984	0	0		A	35037121	A	A	35037121	2	1	62	1	0	0	0	0	0	0	0	1	14931	1103	39	1		1	SNX6	14	35037121	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2475293	35037121	72312419	237	43167											
C14orf101	54916	broad.mit.edu	37	chr14	57070685	57070685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactgtacattttgaggaagCagcaactgctaaggagagat	14	10	11	6	0	0	2	0	1	0	1	0	5	0	4	0	2	6	4	0	2	5	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr14:57070685C>T	uc001xcm.2	+	4	619	c.497C>T	c.(496-498)GCA>GTA	p.A166V	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xck.2_Missense_Mutation_p.A166V|C14orf101_uc010aot.1_Missense_Mutation_p.A166V|C14orf101_uc001xcl.1_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_Intron	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	166						integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		TTTGAGGAAGCAGCAACTGCT	0.373													5	95					0	0	0.000602	0	0		T	57070685	T	T	57070685	3	4	62	1	0	0	0	0	1	0	0	0	1737	710	25	2	511	2	C14orf101	14	57070685	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	22033564	57070685	50278855	238	43168											
RDH11	51109	broad.mit.edu	37	chr14	68151905	68151905	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccagggtgtacagaataCgtcgtaacgccagagcctgg	10	7	14	10	3	0	2	0	0	0	2	1	2	0	2	3	2	5	2	3	2	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr14:68151905C>T	uc001xjv.3	-	6	771	c.681G>A	c.(679-681)ACG>ACA	p.T227T	RDH11_uc001xjw.3_Silent_p.T214T|RDH11_uc001xjx.3_Silent_p.T157T	NM_016026	NP_057110	Q8TC12	RDH11_HUMAN	retinol dehydrogenase 11	227	Cytoplasmic (Potential).				retinol metabolic process|steroid metabolic process	endoplasmic reticulum membrane|integral to membrane	binding|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(1)	1				all cancers(60;0.00047)|OV - Ovarian serous cystadenocarcinoma(108;0.00206)|BRCA - Breast invasive adenocarcinoma(234;0.00924)	Vitamin A(DB00162)	GTACAGAATACGTCGTAACGC	0.468													6	42					0	0	0.001168	0	0		T	68151905	T	T	68151905	2	4	62	1	0	0	0	0	0	0	0	1	13215	523	19	1		1	RDH11	14	68151905	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	11081220	68151905	39197635	239	43169											
HERC2	8924	broad.mit.edu	37	chr15	28441687	28441687	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgctggggaaagtcgacAatgatatcttttccattggc	10	12	11	8	1	1	1	0	1	1	0	3	4	2	2	1	3	1	1	1	3	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr15:28441687A>G	uc001zbj.2	-	51	8146	c.8040T>C	c.(8038-8040)ATT>ATC	p.I2680I	HERC2_uc001zbk.1_Silent_p.I215I	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2680					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GAAAGTCGACAATGATATCTT	0.428													5	81					0	0	0.001168	0	0		G	28441687	G	G	28441687	2	3	62	1	0	0	0	0	0	0	0	1	7074	126	5	3		3	HERC2	15	28441687	Silent	SNP	A	TCGA-BR-8284-01A-11D-2340-08		28441687	74089705	240	43170											
MTMR15	22909	broad.mit.edu	37	chr15	31197648	31197648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctggattctcagataatgCgatcatgttattctcaccag	10	13	7	11	1	3	1	3	0	2	1	5	3	3	2	2	1	1	1	2	1	2	4	rs137920161		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr15:31197648C>T	uc001zff.2	+	2	1073	c.782C>T	c.(781-783)GCG>GTG	p.A261V	MTMR15_uc001zfc.3_Missense_Mutation_p.A261V|MTMR15_uc010azw.2_Missense_Mutation_p.A261V|MTMR15_uc001zfd.3_Missense_Mutation_p.A261V|MTMR15_uc001zfe.2_5'UTR	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a	261					double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		TCAGATAATGCGATCATGTTA	0.403								Direct_reversal_of_damage|Editing_and_processing_nucleases					6	53					0	0	0.001984	0	0		T	31197648	T	T	31197648	3	4	62	1	0	0	0	0	1	0	0	0	9961	768	27	1	784	1	MTMR15	15	31197648	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2755961	31197648	71333744	241	43171											
SPTBN5	51332	broad.mit.edu	37	chr15	42145505	42145505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgctgtccttcctgcCgcaggtcctgggcttgaagg	4	10	13	14	1	0	1	0	1	0	0	3	1	3	1	5	3	3	4	5	3	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr15:42145505C>T	uc001zos.2	-	59	10349	c.10016G>A	c.(10015-10017)CGG>CAG	p.R3339Q		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	3374	Spectrin 30.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		TCCTTCCTGCCGCAGGTCCTG	0.627													6	34					0	0	0.001984	0	0		T	42145505	T	T	42145505	3	4	62	1	0	0	0	0	1	0	0	0	15147	652	23	1	943	1	SPTBN5	15	42145505	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	10947857	42145505	60385887	242	43172											
SEMA6D	80031	broad.mit.edu	37	chr15	48059278	48059278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagattacaaaatatttggcGgtccaacatctggttagttt	12	14	8	7	1	1	1	0	0	1	1	2	1	2	1	1	3	2	2	1	3	6	5	rs150769593		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr15:48059278G>A	uc010bek.2	+	17	2113	c.1753G>A	c.(1753-1755)GGT>AGT	p.G585S	SEMA6D_uc001zvw.2_Intron|SEMA6D_uc001zvy.2_Missense_Mutation_p.G585S|SEMA6D_uc001zvz.2_Missense_Mutation_p.G585S|SEMA6D_uc001zwa.2_Intron|SEMA6D_uc001zwb.2_Intron|SEMA6D_uc001zwc.2_Intron	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	585	Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		AATATTTGGCGGTCCAACATC	0.338													6	43					0	0	0.001168	0	0		A	48059278	A	A	48059278	3	1	62	1	0	0	0	0	1	0	0	0	14067	1116	39	1	1858	1	SEMA6D	15	48059278	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	5913773	48059278	54472114	243	43173											
CCPG1	9236	broad.mit.edu	37	chr15	55724733	55724733	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgacagaatgctgttccaCgtcgtacatgtgccttcatt	8	14	9	10	2	1	2	1	1	0	1	3	2	2	2	2	0	3	4	2	0	2	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr15:55724733C>T	uc002acy.2	-	8	1370	c.-47G>A	c.(-49--45)ACGTG>ACATG		DYX1C1_uc010ugh.1_Intron|DYX1C1_uc010ugi.1_RNA|DYX1C1_uc002adb.2_Intron|DYX1C1_uc002adc.2_Missense_Mutation_p.R372H|DYX1C1_uc002add.2_Intron	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2						cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		TGCTGTTCCACGTCGTACATG	0.338													6	71					0	0	0.001168	0	0		T	55724733	T	T	55724733	1	4	62	1	0	0	0	0	0	0	0	0	2941	536	19	1		1	CCPG1	15	55724733	Translation_Start_Site	SNP	C	TCGA-BR-8284-01A-11D-2340-08	7665455	55724733	46806659	244	43174											
ITGA11	22801	broad.mit.edu	37	chr15	68649512	68649512	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaattcaatgccaaatgcCgtccgggtctctgttcctcc	8	11	8	14	2	2	0	1	0	1	0	6	0	5	0	5	1	2	2	5	1	3	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr15:68649512C>T	uc002ari.2	-	7	813	c.726G>A	c.(724-726)ACG>ACA	p.T242T	ITGA11_uc010bib.2_Silent_p.T242T	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	242	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	TGCCAAATGCCGTCCGGGTCT	0.363													6	40					0	0	0.001984	0	0		T	68649512	T	T	68649512	2	4	62	1	0	0	0	0	0	0	0	1	7890	639	23	1		1	ITGA11	15	68649512	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	12924779	68649512	33881880	245	43175											
ISLR2	57611	broad.mit.edu	37	chr15	74425596	74425596	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgctggcgcctggcaccttCgacgcgcttagcgcgctgtc	4	8	13	16	7	0	0	0	0	0	0	2	1	0	0	2	2	1	4	2	2	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr15:74425596C>T	uc002axd.2	+	4	1270	c.501C>T	c.(499-501)TTC>TTT	p.F167F	ISLR2_uc002axe.2_Silent_p.F167F|ISLR2_uc010bjg.2_Silent_p.F167F|ISLR2_uc010bjf.2_Silent_p.F167F	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	167	Extracellular (Potential).|LRR 5.				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CTGGCACCTTCGACGCGCTTA	0.677													6	81					0	0	0.001168	0	0		T	74425596	T	T	74425596	2	4	62	1	0	0	0	0	0	0	0	1	7875	883	31	1		1	ISLR2	15	74425596	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	5776084	74425596	28105796	246	43176											
IL16	3603	broad.mit.edu	37	chr15	81592262	81592262	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagagactgagcctccaGccctcctctggggaggcagc	7	5	13	16	0	1	2	0	1	1	1	3	4	3	3	5	3	3	1	5	3	0	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr15:81592262G>A	uc002bgh.3	+	14	2971	c.2595G>A	c.(2593-2595)CAG>CAA	p.Q865Q	IL16_uc010blq.1_Silent_p.Q819Q|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Silent_p.Q907Q|IL16_uc002bgg.2_Silent_p.Q865Q|IL16_uc002bgi.1_Silent_p.Q255Q|IL16_uc002bgj.2_Silent_p.Q359Q|IL16_uc002bgk.2_Silent_p.Q164Q|IL16_uc002bgl.1_Silent_p.Q164Q|IL16_uc010unq.1_Silent_p.Q164Q	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	865					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						TGAGCCTCCAGCCCTCCTCTG	0.522													4	47					0	0	0.009096	0	0		A	81592262	A	A	81592262	2	1	62	1	0	0	0	0	0	0	0	1	7649	962	34	2		2	IL16	15	81592262	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	7166666	81592262	20939130	247	43177											
ARRDC4	91947	broad.mit.edu	37	chr15	98514381	98514381	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgacccacatcctagcgaCgtagaagagagccagcctgt	11	7	11	12	2	0	3	0	1	0	2	1	5	1	3	4	0	3	2	4	0	3	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr15:98514381C>T	uc010bom.2	+	8	1380	c.1221C>T	c.(1219-1221)GAC>GAT	p.D407D	ARRDC4_uc002bui.3_Silent_p.D320D	NM_183376	NP_899232	Q8NCT1	ARRD4_HUMAN	arrestin domain containing 4	407					signal transduction						0	Melanoma(26;0.00539)|Lung NSC(78;0.0125)|all_lung(78;0.0222)		OV - Ovarian serous cystadenocarcinoma(32;0.0417)			ATCCTAGCGACGTAGAAGAGA	0.378													20	75					0	0	0.00278	0	0		T	98514381	T	T	98514381	2	4	62	1	0	0	0	0	0	0	0	1	986	535	19	1		1	ARRDC4	15	98514381	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	16922119	98514381	4017011	248	43178											
ZNF205	7755	broad.mit.edu	37	chr16	3168941	3168941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctttctgggcccctcaaGcgcacggcaagggtgaggcc	6	6	15	14	2	2	1	1	1	1	0	2	1	2	1	4	5	1	2	4	5	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:3168941G>A	uc002cub.2	+	6	655	c.520G>A	c.(520-522)GCG>ACG	p.A174T	ZNF205_uc002cua.2_Missense_Mutation_p.A174T	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	174	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GGCCCCTCAAGCGCACGGCAA	0.652													7	78					0	0	0.001984	0	0		A	3168941	A	A	3168941	3	1	62	1	0	0	0	0	1	0	0	0	17789	971	34	2	538	2	ZNF205	16	3168941	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08		3168941	87185812	249	43179											
TFAP4	7023	broad.mit.edu	37	chr16	4312613	4312613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgcgttgatgctctgcatgCgtctccgctcgttgctgttg	2	14	12	13	5	2	1	0	1	2	0	4	1	2	1	2	0	4	7	2	0	0	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:4312613C>T	uc010uxg.1	-	2	433	c.179G>A	c.(178-180)CGC>CAC	p.R60H		NM_003223	NP_003214	Q01664	TFAP4_HUMAN	transcription factor AP-4 (activating enhancer	60	Basic motif.				DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation by host of viral transcription|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|regulation of S phase of mitotic cell cycle	transcriptional repressor complex	E-box binding|histone deacetylase binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GCTCTGCATGCGTCTCCGCTC	0.622													12	110					0	0	0.010729	0	0		T	4312613	T	T	4312613	3	4	62	1	0	0	0	0	1	0	0	0	15817	768	27	1	861	1	TFAP4	16	4312613	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1143672	4312613	86042140	250	43180											
C16orf68	79091	broad.mit.edu	37	chr16	8722947	8722947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaagcacaaggcagccCgcacgatatcatcagaatag	16	4	11	10	2	2	2	2	0	0	2	2	4	2	3	1	2	2	3	1	2	5	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:8722947C>T	uc002cyz.2	+	3	770	c.494C>T	c.(493-495)CCG>CTG	p.P165L	C16orf68_uc002cza.2_Missense_Mutation_p.P109L	NM_024109	NP_077014	Q9BUU2	MET22_HUMAN	hypothetical protein LOC79091	165							methyltransferase activity				0						CAAGGCAGCCCGCACGATATC	0.532													22	264					0	0	0.010504	0	0		T	8722947	T	T	8722947	3	4	62	1	0	0	0	0	1	0	0	0	1830	652	23	1	500	1	C16orf68	16	8722947	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	4410334	8722947	81631806	251	43181											
GRIN2A	2903	broad.mit.edu	37	chr16	9857287	9857287	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaagcgttggtcatcccTgtgggagtggaggaaagggt	10	8	16	7	1	1	0	1	0	0	0	2	3	2	3	2	5	2	1	2	5	3	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:9857287T>G	uc002czo.3	-	13	4662	c.4114A>C	c.(4114-4116)AGG>CGG	p.R1372R	GRIN2A_uc010uym.1_Silent_p.R1372R|GRIN2A_uc010uyn.1_Intron|GRIN2A_uc002czr.3_Intron	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1372	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TGGTCATCCCTGTGGGAGTGG	0.542													10	53					0	0	0.006214	0	0		G	9857287	G	G	9857287	2	3	62	1	0	0	0	0	0	0	0	1	6795	1594	55	5		5	GRIN2A	16	9857287	Silent	SNP	T	TCGA-BR-8284-01A-11D-2340-08	1134340	9857287	80497466	252	43182											
CLEC16A	23274	broad.mit.edu	37	chr16	11260312	11260312	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcacagtcgccaccctcCgccagcgggagccccagcgg	6	4	11	20	4	1	0	1	0	0	0	4	1	3	1	7	2	3	0	7	2	0	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:11260312C>T	uc002dao.2	+	23	2939	c.2709C>T	c.(2707-2709)TCC>TCT	p.S903S	CLEC16A_uc002dap.2_5'UTR	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	903	Ser-rich.									ovary(1)|central_nervous_system(1)	2						CGCCACCCTCCGCCAGCGGGA	0.657													7	40					0	0	0.00308	0	0		T	11260312	T	T	11260312	2	4	62	1	0	0	0	0	0	0	0	1	3503	639	23	1		1	CLEC16A	16	11260312	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1403025	11260312	79094441	253	43183											
LOC81691	81691	broad.mit.edu	37	chr16	20855996	20855996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttgattgtgacaccctcGtgaatgagctggaaggagat	10	10	13	8	2	0	5	0	4	0	1	1	7	0	6	1	2	1	2	1	2	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:20855996G>A	uc002dhv.2	+	17	2028	c.1765G>A	c.(1765-1767)GTG>ATG	p.V589M	ERI2_uc002dht.3_Intron|LOC81691_uc002dhx.2_Missense_Mutation_p.V558M|LOC81691_uc002dhw.2_Missense_Mutation_p.V332M|LOC81691_uc002dhy.3_Missense_Mutation_p.V589M	NM_030941	NP_112203	Q96IC2	REXON_HUMAN	exonuclease NEF-sp isoform 1	589						nucleolus	exonuclease activity|nucleotide binding|RNA binding			ovary(1)|kidney(1)	2						TGACACCCTCGTGAATGAGCT	0.468													7	84					0	0	0.001984	0	0		A	20855996	A	A	20855996	3	1	62	1	0	0	0	0	1	0	0	0	8908	1145	40	1	1827	1	LOC81691	16	20855996	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	9595684	20855996	69498757	254	43184											
DNAH3	55567	broad.mit.edu	37	chr16	21042477	21042477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtgaagacgcttgctcccGgaaagcattggcaaggacac	12	6	13	10	2	0	2	0	1	0	1	1	5	1	4	1	3	2	4	1	3	3	2	rs142410393	byFrequency	TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:21042477G>A	uc010vbe.1	-	37	5329	c.5329C>T	c.(5329-5331)CGG>TGG	p.R1777W		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1777	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GCTTGCTCCCGGAAAGCATTG	0.483													10	59					0	0	0.006214	0	0		A	21042477	A	A	21042477	3	1	62	1	0	0	0	0	1	0	0	0	4609	1115	39	1	7124	1	DNAH3	16	21042477	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	186481	21042477	69312276	255	43185											
POLR3E	55718	broad.mit.edu	37	chr16	22319478	22319478	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccctccccagtaccctgtgCgtccagcctcgatgacctac	6	8	7	20	2	0	1	0	1	0	0	3	2	2	1	8	0	4	1	8	0	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:22319478C>T	uc002dkk.2	+	4	253	c.97C>T	c.(97-99)CGT>TGT	p.R33C	POLR3E_uc002dkj.1_Missense_Mutation_p.R33C|POLR3E_uc002dkm.2_5'UTR|POLR3E_uc010vbr.1_Missense_Mutation_p.R33C|POLR3E_uc002dkl.2_Missense_Mutation_p.R33C|POLR3E_uc010vbs.1_Intron|POLR3E_uc010vbt.1_5'UTR	NM_018119	NP_060589	Q9NVU0	RPC5_HUMAN	RNA polymerase III polypeptide E	33					innate immune response|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA-directed RNA polymerase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.012)		GTACCCTGTGCGTCCAGCCTC	0.622													6	46					0	0	0.00308	0	0		T	22319478	T	T	22319478	3	4	62	1	0	0	0	0	1	0	0	0	12251	768	27	1	107	1	POLR3E	16	22319478	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1277001	22319478	68035275	256	43186											
RBBP6	5930	broad.mit.edu	37	chr16	24579195	24579195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaaaagattcaaaaggagCgtaggcgctcattttccagg	15	8	10	8	2	2	1	2	0	0	1	3	2	3	2	1	3	1	2	1	3	5	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:24579195C>T	uc002dmh.2	+	16	3075	c.2035C>T	c.(2035-2037)CGT>TGT	p.R679C	RBBP6_uc010vcb.1_Missense_Mutation_p.R546C|RBBP6_uc002dmi.2_Intron|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Intron	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	679					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		TCAAAAGGAGCGTAGGCGCTC	0.348													4	40					0	0	0.009096	0	0		T	24579195	T	T	24579195	3	4	62	1	0	0	0	0	1	0	0	0	13128	768	27	1	2151	1	RBBP6	16	24579195	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2259717	24579195	65775558	257	43187											
SRCAP	10847	broad.mit.edu	37	chr16	30750774	30750774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagactgagaagttgcctcGcaaacgagcaggggccccag	12	4	14	11	2	0	2	0	1	0	2	1	5	0	2	3	2	3	3	3	2	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:30750774G>A	uc002dze.1	+	34	9798	c.9413G>A	c.(9412-9414)CGC>CAC	p.R3138H	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.R2933H	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	3138					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			AAGTTGCCTCGCAAACGAGCA	0.632													5	50					0	0	0.000602	0	0		A	30750774	A	A	30750774	3	1	62	1	0	0	0	0	1	0	0	0	15160	1087	38	1	9539	1	SRCAP	16	30750774	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	6171579	30750774	59603979	258	43188											
TRIM72	493829	broad.mit.edu	37	chr16	31234251	31234251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtggaggaagatgttcCgggctctgatgccaggtacc	8	9	16	8	1	1	2	0	1	1	1	2	4	2	4	3	5	2	3	3	5	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:31234251C>T	uc002ebn.1	+	6	1073	c.844C>T	c.(844-846)CGG>TGG	p.R282W	uc002ebp.1_5'Flank	NM_001008274	NP_001008275	Q6ZMU5	TRI72_HUMAN	tripartite motif-containing 72	282	B30.2/SPRY.				exocytosis|muscle organ development|muscle system process|plasma membrane repair|protein homooligomerization	cytoplasmic vesicle membrane|sarcolemma	phosphatidylserine binding|zinc ion binding				0						GAAGATGTTCCGGGCTCTGAT	0.597													29	79					0	0	0.007291	0	0		T	31234251	T	T	31234251	3	4	62	1	0	0	0	0	1	0	0	0	16571	643	23	1	862	1	TRIM72	16	31234251	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	483477	31234251	59120502	259	43189											
CES7	221223	broad.mit.edu	37	chr16	55903586	55903586	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcacgtcctcataggcaGccagggcggacccatcaaag	11	4	11	15	2	2	0	2	0	0	0	3	1	3	1	4	3	2	2	4	3	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:55903586G>T	uc002eip.2	-	4	637	c.488C>A	c.(487-489)GCT>GAT	p.A163D	CES7_uc002eio.2_Missense_Mutation_p.A163D|CES7_uc002eiq.2_Translation_Start_Site|CES7_uc002eir.2_Missense_Mutation_p.A57D	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	163						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		CTCATAGGCAGCCAGGGCGGA	0.557													6	19					0.00116845	0.00120074	0.001168	1	0		T	55903586	T	T	55903586	3	4	62	1	0	0	0	0	1	0	0	0	3275	971	34	5	1279	5	CES7	16	55903586	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	24669335	55903586	34451167	260	43190											
SLC9A5	6553	broad.mit.edu	37	chr16	67290943	67290943	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcgtcatcctactggataGgaccaaggtccctgccaagg	9	9	10	13	1	2	0	1	0	1	0	5	2	4	2	4	4	2	0	4	4	4	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:67290943G>T	uc002esm.2	+	7	1325	c.1262G>T	c.(1261-1263)AGG>ATG	p.R421M	SLC9A5_uc010cee.2_Missense_Mutation_p.R126M|SLC9A5_uc010vji.1_Translation_Start_Site	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	421					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		CTACTGGATAGGACCAAGGTC	0.567													16	124					4.7546e-09	5.29873e-09	0.004007	1	0		T	67290943	T	T	67290943	3	4	62	1	0	0	0	0	1	0	0	0	14742	1000	35	5	1288	5	SLC9A5	16	67290943	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	11387357	67290943	23063810	261	43191											
CTRL	1506	broad.mit.edu	37	chr16	67964638	67964638	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggcactcacccgagagacGgacagaacctgcaagggctc	12	3	12	14	2	1	2	1	0	0	2	2	5	1	3	2	3	2	3	2	3	2	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:67964638G>A	uc002euw.2	-	4	319	c.309C>T	c.(307-309)TCC>TCT	p.S103S		NM_001907	NP_001898	P40313	CTRL_HUMAN	chymotrypsin-like precursor	103	Peptidase S1.				digestion|proteolysis	extracellular space	serine-type endopeptidase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)		CCCGAGAGACGGACAGAACCT	0.607													15	49					0	0	0.003163	0	0		A	67964638	A	A	67964638	2	1	62	1	0	0	0	0	0	0	0	1	4031	1103	39	1		1	CTRL	16	67964638	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	673695	67964638	22390115	262	43192											
CHST5	23563	broad.mit.edu	37	chr16	75563965	75563965	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccatgtgcagcgttgccgcGctgccctgcgacagggtggt	4	8	16	13	4	0	0	0	0	0	0	0	1	0	0	3	2	5	3	3	2	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:75563965G>A	uc002fei.2	-	3	1713	c.318C>T	c.(316-318)AGC>AGT	p.S106S	CHST5_uc002fej.1_Silent_p.S112S	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	106	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						GCGTTGCCGCGCTGCCCTGCG	0.612													8	50					0	0	0.00308	0	0		A	75563965	A	A	75563965	2	1	62	1	0	0	0	0	0	0	0	1	3410	1078	38	1		1	CHST5	16	75563965	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	7599327	75563965	14790788	263	43193											
SLC7A5	8140	broad.mit.edu	37	chr16	87870208	87870208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgaagaagttgatgaCggagaagatgtccttggaga	14	8	15	4	1	0	7	0	3	0	4	1	10	1	7	1	2	1	2	1	2	4	2	rs149119495		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:87870208C>T	uc002fkm.2	-	8	1258	c.1186G>A	c.(1186-1188)GTC>ATC	p.V396I		NM_003486	NP_003477	Q01650	LAT1_HUMAN	solute carrier family 7 (cationic amino acid	396	Helical; (Potential).				blood coagulation|cell differentiation|cellular amino acid metabolic process|ion transport|leukocyte migration|nervous system development	apical plasma membrane|cytosol|integral to membrane	neutral amino acid transmembrane transporter activity|peptide antigen binding				0				BRCA - Breast invasive adenocarcinoma(80;0.049)		AAGTTGATGACGGAGAAGATG	0.602													4	33					0	0	0.009096	0	0		T	87870208	T	T	87870208	3	4	62	1	0	0	0	0	1	0	0	0	14725	536	19	1	349	1	SLC7A5	16	87870208	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	12306243	87870208	2484545	264	43194											
TUBB3	10381	broad.mit.edu	37	chr16	89986277	89986277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggctatgctggtgctcatggCcgtgctgtacgtccacatgc	5	11	13	12	2	1	0	1	0	0	0	2	0	2	0	2	3	5	5	2	3	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr16:89986277C>T	uc002fpf.2	+	1	1019	c.611C>T	c.(610-612)GCC>GTC	p.A204V	MC1R_uc002fpe.3_Missense_Mutation_p.A204V|TUBB3_uc010ciz.1_5'Flank	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	Error:Variant_position_missing_in_Q13509_after_alignment					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GTGCTCATGGCCGTGCTGTAC	0.657													7	40					0	0	0.001984	0	0		T	89986277	T	T	89986277	3	4	62	1	0	0	0	0	1	0	0	0	16783	739	26	2		2	TUBB3	16	89986277	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2116069	89986277	368476	265	43195											
USP6	9098	broad.mit.edu	37	chr17	5048857	5048857	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaccaatggacagttacaTggacttagaaataacaggta	17	9	8	7	0	0	1	0	0	0	1	0	3	0	3	1	3	3	2	1	3	7	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:5048857T>C	uc002gau.1	+	27	4380	c.2150T>C	c.(2149-2151)ATG>ACG	p.M717T	USP6_uc002gav.1_Missense_Mutation_p.M717T|USP6_uc010ckz.1_Missense_Mutation_p.M400T	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	717					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						GACAGTTACATGGACTTAGAA	0.333			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								7	57					0	0	0.00308	0	0		C	5048857	C	C	5048857	3	2	62	1	0	0	0	0	1	0	0	0	17112	1464	51	3	2220	3	USP6	17	5048857	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08		5048857	76146353	266	43196											
MYH4	4622	broad.mit.edu	37	chr17	10354172	10354172	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcctcgggatagctgagaAaccatagcatctttttcatc	10	13	8	10	1	2	1	1	1	1	1	4	3	2	2	2	1	4	2	2	1	3	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:10354172A>G	uc002gmn.2	-	29	4017	c.3906T>C	c.(3904-3906)GTT>GTC	p.V1302V	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1302	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						ATAGCTGAGAAACCATAGCAT	0.383													8	107					0	0	0.00308	0	0		G	10354172	G	G	10354172	2	3	62	1	0	0	0	0	0	0	0	1	10055	1	1	3		3	MYH4	17	10354172	Silent	SNP	A	TCGA-BR-8284-01A-11D-2340-08	5305315	10354172	70841038	267	43197											
DNAH9	1770	broad.mit.edu	37	chr17	11806090	11806090	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcgggacatagagggatctGctaagagctggaaaaagttt	14	9	13	5	1	1	2	0	0	1	2	2	5	1	5	0	3	2	3	0	3	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:11806090G>T	uc002gne.2	+	60	11529	c.11461G>T	c.(11461-11463)GCT>TCT	p.A3821S	DNAH9_uc010coo.2_Missense_Mutation_p.A3115S|DNAH9_uc002gnf.2_Missense_Mutation_p.A133S|DNAH9_uc010vvh.1_Missense_Mutation_p.A174S	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3821					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AGAGGGATCTGCTAAGAGCTG	0.468													20	74					2.37509e-13	2.69837e-13	0.010504	1	0		T	11806090	T	T	11806090	3	4	62	1	0	0	0	0	1	0	0	0	4614	1319	46	5	11699	5	DNAH9	17	11806090	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1451918	11806090	69389120	268	43198											
SSH2	85464	broad.mit.edu	37	chr17	27959108	27959108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatattcaatgatttctaccCtcttgggaaggggaagaggg	11	12	12	6	0	3	2	1	1	2	1	3	4	3	4	1	4	1	0	1	4	6	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:27959108C>T	uc002heo.1	-	15	3023	c.3023G>A	c.(3022-3024)AGG>AAG	p.R1008K	SSH2_uc010wbh.1_Missense_Mutation_p.R1035K	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1008					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						GATTTCTACCCTCTTGGGAAG	0.502													29	71					0	0	0.008361	0	0		T	27959108	T	T	27959108	3	4	62	1	0	0	0	0	1	0	0	0	15210	681	24	4	1252	4	SSH2	17	27959108	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	16153018	27959108	53236102	269	43199											
NF1	4763	broad.mit.edu	37	chr17	29552243	29552243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactcctggagcctctctccGgaagggaaaagggaactcct	10	8	11	12	1	1	0	0	0	1	0	5	4	4	4	4	4	3	0	4	4	5	1	rs151138158		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:29552243G>A	uc002hgg.2	+	17	2309	c.1976G>A	c.(1975-1977)CGG>CAG	p.R659Q	NF1_uc002hgh.2_Missense_Mutation_p.R659Q|NF1_uc010csn.1_Missense_Mutation_p.R519Q|NF1_uc002hgi.1_5'UTR	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	659					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		GCCTCTCTCCGGAAGGGAAAA	0.393			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			11	150					0	0	0.008291	0	0		A	29552243	A	A	29552243	3	1	62	1	0	0	0	0	1	0	0	0	10375	1116	39	1	2103	1	NF1	17	29552243	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1593135	29552243	51642967	270	43200											
PLXDC1	57125	broad.mit.edu	37	chr17	37235398	37235398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catccactcctggcgatagcGgtcaaagccactggagcatc	10	7	10	14	2	1	0	1	0	0	0	4	2	3	1	3	3	3	1	3	3	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:37235398G>A	uc002hrg.2	-	10	1221	c.1009C>T	c.(1009-1011)CGC>TGC	p.R337C	uc002hre.1_Intron|uc002hrf.1_Intron|PLXDC1_uc010cvr.1_Missense_Mutation_p.R45C|PLXDC1_uc002hrh.2_RNA|PLXDC1_uc002hri.2_RNA|PLXDC1_uc002hrj.1_RNA|PLXDC1_uc002hrk.1_RNA	NM_020405	NP_065138	Q8IUK5	PXDC1_HUMAN	plexin domain containing 1 precursor	337	Extracellular (Potential).				angiogenesis	cytoplasm|extracellular region|integral to membrane|tight junction				ovary(1)|kidney(1)|skin(1)	3						TGGCGATAGCGGTCAAAGCCA	0.527													8	67					0	0	0.00308	0	0		A	37235398	A	A	37235398	3	1	62	1	0	0	0	0	1	0	0	0	12136	1116	39	1	513	1	PLXDC1	17	37235398	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	7683155	37235398	43959812	271	43201											
CNTNAP1	8506	broad.mit.edu	37	chr17	40842152	40842152	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcggctcagtgggaaaacTtctggaaacttcaccattga	12	11	9	9	1	3	1	2	1	1	0	4	3	3	3	1	3	2	1	1	3	4	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:40842152T>G	uc002iay.2	+	12	1998	c.1782T>G	c.(1780-1782)ACT>ACG	p.T594T	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	594	Extracellular (Potential).|Fibrinogen C-terminal.				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		GTGGGAAAACTTCTGGAAACT	0.468													9	173					0	0	0.004482	0	0		G	40842152	G	G	40842152	2	3	62	1	0	0	0	0	0	0	0	1	3649	1596	56	5		5	CNTNAP1	17	40842152	Silent	SNP	T	TCGA-BR-8284-01A-11D-2340-08	3606754	40842152	40353058	272	43202											
HOXB5	3215	broad.mit.edu	37	chr17	46669802	46669802	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtccgggcccttttcccGtccggcccggtcatatctgg	2	10	13	16	5	2	0	1	0	1	0	5	0	5	0	5	5	0	0	5	5	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:46669802G>A	uc002inr.2	-	2	638	c.579C>T	c.(577-579)GAC>GAT	p.D193D	HOXB3_uc010wlm.1_5'Flank|HOXB3_uc010dbf.2_5'Flank|HOXB3_uc010dbg.2_5'Flank	NM_002147	NP_002138	P09067	HXB5_HUMAN	homeobox B5	193						nucleus	sequence-specific DNA binding				0						CCCTTTTCCCGTCCGGCCCGG	0.632													8	41					0	0	0.00308	0	0		A	46669802	A	A	46669802	2	1	62	1	0	0	0	0	0	0	0	1	7320	1136	40	1		1	HOXB5	17	46669802	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	5827650	46669802	34525408	273	43203											
CACNA1G	8913	broad.mit.edu	37	chr17	48701418	48701418	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggacacaggggctgggggCtccccaaagctcagtcaggt	8	6	16	11	0	2	0	2	0	0	0	3	1	3	1	2	6	1	3	2	6	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:48701418C>A	uc002irk.1	+	36	6583	c.6211C>A	c.(6211-6213)CTC>ATC	p.L2071I	CACNA1G_uc002irj.1_Missense_Mutation_p.L1944I|CACNA1G_uc002irl.1_Missense_Mutation_p.L1955I|CACNA1G_uc002irm.1_Missense_Mutation_p.L1992I|CACNA1G_uc002irn.1_Missense_Mutation_p.L1937I|CACNA1G_uc002iro.1_Missense_Mutation_p.L1944I|CACNA1G_uc002irp.1_Missense_Mutation_p.L2026I|CACNA1G_uc002irq.1_Missense_Mutation_p.L2048I|CACNA1G_uc002irr.1_Missense_Mutation_p.L1978I|CACNA1G_uc002irs.1_Missense_Mutation_p.L2015I|CACNA1G_uc002irt.1_Missense_Mutation_p.L1960I|CACNA1G_uc002irv.1_Missense_Mutation_p.L1967I|CACNA1G_uc002irw.1_Missense_Mutation_p.L2000I|CACNA1G_uc002iru.1_Missense_Mutation_p.L2037I|CACNA1G_uc002irx.1_Missense_Mutation_p.L1891I|CACNA1G_uc002iry.1_Missense_Mutation_p.L1880I|CACNA1G_uc002irz.1_Missense_Mutation_p.L1884I|CACNA1G_uc002isa.1_Missense_Mutation_p.L1857I|CACNA1G_uc002isb.1_Missense_Mutation_p.L1898I|CACNA1G_uc002isc.1_Missense_Mutation_p.L1973I|CACNA1G_uc002isd.1_Missense_Mutation_p.L1866I|CACNA1G_uc002ise.1_Missense_Mutation_p.L1894I|CACNA1G_uc002isf.1_Missense_Mutation_p.L1921I|CACNA1G_uc002isg.1_Missense_Mutation_p.L1839I|CACNA1G_uc002ish.1_Missense_Mutation_p.L1846I|CACNA1G_uc002isi.1_Missense_Mutation_p.L1834I	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	2071	Cytoplasmic (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GGGCTGGGGGCTCCCCAAAGC	0.617													8	44					5.18039e-06	5.59045e-06	0.00308	1	0		A	48701418	A	A	48701418	3	1	62	1	0	0	0	0	1	0	0	0	2547	797	28	5	6620	5	CACNA1G	17	48701418	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2031616	48701418	32493792	274	43204											
KIF2B	84643	broad.mit.edu	37	chr17	51901324	51901324	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagacgggaagtgggaagacGtacaccatgggtggagactt	12	6	16	7	2	0	3	0	0	0	3	0	6	0	5	1	4	1	1	1	4	3	2	rs139246128		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:51901324G>A	uc002iua.2	+	1	1086	c.930G>A	c.(928-930)ACG>ACA	p.T310T	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	310	ATP (By similarity).|Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						GTGGGAAGACGTACACCATGG	0.547													19	79					0	0	0.007413	0	0		A	51901324	A	A	51901324	2	1	62	1	0	0	0	0	0	0	0	1	8314	1132	40	1		1	KIF2B	17	51901324	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	3199906	51901324	29293886	275	43205											
DGKE	8526	broad.mit.edu	37	chr17	54923170	54923170	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcttgttgaatccagtccaGgtaactaaagaaaaaaactt	17	11	6	7	0	1	2	0	1	1	1	3	2	3	2	2	1	2	2	2	1	7	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:54923170G>T	uc002iur.2	+	4	924	c.744G>T	c.(742-744)CAG>CAT	p.Q248H	DGKE_uc002ius.1_Missense_Mutation_p.Q248H	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	248	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|phospholipid biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding|protein binding			breast(2)	2	Breast(9;3.59e-07)					ATCCAGTCCAGGTAACTAAAG	0.363													5	42					0.00116845	0.00120074	0.001168	1	0		T	54923170	T	T	54923170	3	4	62	1	0	0	0	0	1	0	0	0	4474	1014	35	5	754	5	DGKE	17	54923170	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	3021846	54923170	26272040	276	43206											
EPX	8288	broad.mit.edu	37	chr17	56272519	56272519	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgcccagctgcccccctgCtttcccatcaaggtacctac	6	9	7	19	1	1	0	1	0	0	0	2	0	2	0	6	1	6	3	6	1	3	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:56272519C>A	uc002ivq.2	+	6	875	c.789C>A	c.(787-789)TGC>TGA	p.C263*		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	263					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						TGCCCCCCTGCTTTCCCATCA	0.622													19	63					9.95505e-16	1.14371e-15	0.014323	1	0		A	56272519	A	A	56272519	4	1	62	1	0	0	0	0	0	1	0	0	5208	805	28	5	811	5	EPX	17	56272519	Nonsense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1349349	56272519	24922691	277	43207											
TRIM47	91107	broad.mit.edu	37	chr17	73871176	73871176	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggaacttgtctgctgtGtcgctgtccaaatccacaat	9	12	9	11	1	1	0	0	0	1	0	4	1	3	1	2	1	3	3	2	1	3	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:73871176G>A	uc002jpw.2	-	6	1332	c.1305C>T	c.(1303-1305)GAC>GAT	p.D435D	TRIM47_uc002jpv.2_Silent_p.D197D	NM_033452	NP_258411	Q96LD4	TRI47_HUMAN	tripartite motif-containing 47	435	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|prostate(1)|lung(1)|breast(1)	5			Epithelial(20;4.23e-06)|all cancers(21;5.24e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			TGTCTGCTGTGTCGCTGTCCA	0.572													7	60					0	0	0.001984	0	0		A	73871176	A	A	73871176	2	1	62	1	0	0	0	0	0	0	0	1	16548	1368	48	4		4	TRIM47	17	73871176	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	17598657	73871176	7324034	278	43208											
MGAT5B	146664	broad.mit.edu	37	chr17	74878309	74878309	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggtgaagcgcatggaCgcactggccaggctggagaa	10	6	16	9	2	0	3	0	2	0	1	0	5	0	4	1	5	1	3	1	5	2	0	rs149427118		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:74878309C>T	uc002jtg.3	+	3	572	c.258C>T	c.(256-258)GAC>GAT	p.D86D	MGAT5B_uc002jth.2_Silent_p.D86D|MGAT5B_uc002jti.2_Silent_p.D97D			Q3V5L5	MGT5B_HUMAN	Homo sapiens GnT-IX mRNA for N-Acetylglucosaminyltransferase IX, complete cds.	86	Lumenal (Potential).					Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						AGCGCATGGACGCACTGGCCA	0.677													10	25					0	0	0.006214	0	0		T	74878309	T	T	74878309	2	4	62	1	0	0	0	0	0	0	0	1	9567	535	19	1		1	MGAT5B	17	74878309	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1007133	74878309	6316901	279	43209											
CCDC40	55036	broad.mit.edu	37	chr17	78013909	78013909	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaggaggcatacgataGtgttagcggggaggctggtc	9	8	19	5	2	0	1	0	0	0	1	1	5	0	3	0	7	2	3	0	7	3	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:78013909G>T	uc010dht.2	+	3	419	c.392G>T	c.(391-393)AGT>ATT	p.S131I	CCDC40_uc010wub.1_Missense_Mutation_p.S131I	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	131					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GCATACGATAGTGTTAGCGGG	0.567													4	60					2.56e-06	2.76995e-06	0.009096	1	0		T	78013909	T	T	78013909	3	4	62	1	0	0	0	0	1	0	0	0	2815	1029	36	5	402	5	CCDC40	17	78013909	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	3135600	78013909	3181301	280	43210											
RNF213	57674	broad.mit.edu	37	chr17	78360611	78360611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggagggcagagagaccGtgcaggagttcgatctggag	10	6	19	6	2	1	2	0	0	1	2	2	8	1	6	1	5	1	3	1	5	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:78360611G>A	uc002jyh.1	+	38	9284	c.9061G>A	c.(9061-9063)GTG>ATG	p.V3021M	uc002jyi.1_Intron|RNF213_uc010dhx.1_Translation_Start_Site	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			CAGAGAGACCGTGCAGGAGTT	0.587													7	46					0	0	0.00308	0	0		A	78360611	A	A	78360611	3	1	62	1	0	0	0	0	1	0	0	0	13502	1145	40	1	15407	1	RNF213	17	78360611	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	346702	78360611	2834599	281	43211											
RPTOR	57521	broad.mit.edu	37	chr17	78857671	78857671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtgggtggccatctgcCtcggcaggatctggcagaac	7	7	15	12	1	2	1	0	0	2	1	3	2	2	2	3	5	2	2	3	5	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:78857671C>T	uc002jyt.1	+	16	2546	c.1741C>T	c.(1741-1743)CTC>TTC	p.L581F	RPTOR_uc010wug.1_Intron	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	581					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						GGCCATCTGCCTCGGCAGGAT	0.637													16	65					0	0	0.00499	0	0		T	78857671	T	T	78857671	3	4	62	1	0	0	0	0	1	0	0	0	13690	681	24	4	1803	4	RPTOR	17	78857671	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	497060	78857671	2337539	282	43212											
FASN	2194	broad.mit.edu	37	chr17	80044363	80044363	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggtcccgggggatctgggCcccatccagtccgggcacca	5	5	16	15	2	1	0	0	0	1	0	4	1	4	1	6	6	0	1	6	6	0	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:80044363C>A	uc002kdu.2	-	22	3616	c.3499G>T	c.(3499-3501)GCC>TCC	p.A1167S	FASN_uc002kdw.1_Missense_Mutation_p.A383S	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	1167					energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	GGGATCTGGGCCCCATCCAGT	0.682													10	29					2.17888e-05	2.32073e-05	0.006214	1	0		A	80044363	A	A	80044363	3	1	62	1	0	0	0	0	1	0	0	0	5697	739	26	5	4124	5	FASN	17	80044363	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1186692	80044363	1150847	283	43213											
CCDC57	284001	broad.mit.edu	37	chr17	80159471	80159471	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccagctgctgctgctgcTgcagctcctccaccttcctg	4	11	9	17	0	0	0	0	0	0	0	3	0	3	0	5	0	8	7	5	0	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr17:80159471T>A	uc002kdz.1	-	3	705	c.350A>T	c.(349-351)CAG>CTG	p.Q117L	CCDC57_uc002kdx.1_Missense_Mutation_p.Q117L	NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	117	Potential.									ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			CTGCTGCTGCTGCAGCTCCTC	0.662													3	25					0	0	0.004672	0	0		A	80159471	A	A	80159471	3	1	62	1	0	0	0	0	1	0	0	0	2830	1580	55	5	2461	5	CCDC57	17	80159471	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	115108	80159471	1035739	284	43214											
ANKRD29	147463	broad.mit.edu	37	chr18	21214092	21214092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgcccgtactgactggcagCcaacagggcggtgcccccgt	6	6	14	15	3	0	1	0	1	0	0	0	1	0	1	4	3	5	2	4	3	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr18:21214092C>T	uc002kun.2	-	5	509	c.352G>A	c.(352-354)GCT>ACT	p.A118T	ANKRD29_uc002kuo.2_Missense_Mutation_p.A118T	NM_173505	NP_775776	Q8N6D5	ANR29_HUMAN	ankyrin repeat domain 29	118	ANK 4.									ovary(3)|breast(1)	4	all_cancers(21;5.07e-05)|all_epithelial(16;2.49e-07)|Lung NSC(20;0.00211)|all_lung(20;0.00676)|Colorectal(14;0.0202)|Ovarian(20;0.127)					TGACTGGCAGCCAACAGGGCG	0.517													5	66					0	0	0.000602	0	0		T	21214092	T	T	21214092	3	4	62	1	0	0	0	0	1	0	0	0	657	739	26	2	577	2	ANKRD29	18	21214092	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08		21214092	56863156	285	43215											
LAMA3	3909	broad.mit.edu	37	chr18	21407422	21407422	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtcatggtggacctcagCgggagagaggtgggccagcc	7	6	17	11	1	2	1	2	0	0	1	2	4	2	3	4	5	2	0	4	5	0	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr18:21407422C>T	uc002kuq.2	+	23	2900	c.2814C>T	c.(2812-2814)AGC>AGT	p.S938S	LAMA3_uc002kur.2_Silent_p.S938S	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	938	Domain IV 1 (domain IV B).				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGGACCTCAGCGGGAGAGAGG	0.522													5	65					0	0	0.000602	0	0		T	21407422	T	T	21407422	2	4	62	1	0	0	0	0	0	0	0	1	8623	767	27	1		1	LAMA3	18	21407422	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	193330	21407422	56669826	286	43216											
ZNF521	25925	broad.mit.edu	37	chr18	22806394	22806394	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaaatccatgagaacatcgGatgtgttcctgaagagtgtt	12	11	11	7	1	0	3	0	2	0	2	3	5	2	4	2	1	1	3	2	1	3	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr18:22806394G>T	uc002kvk.2	-	4	1735	c.1488C>A	c.(1486-1488)ATC>ATA	p.I496I	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.I496I|ZNF521_uc002kvl.2_Silent_p.I276I	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	496	C2H2-type 11.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					GAGAACATCGGATGTGTTCCT	0.463			T	PAX5	ALL								9	71					0.00621372	0.00633768	0.006214	1	0		T	22806394	T	T	22806394	2	4	62	1	0	0	0	0	0	0	0	1	17990	1164	41	5		5	ZNF521	18	22806394	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1398972	22806394	55270854	287	43217											
DCC	1630	broad.mit.edu	37	chr18	51013255	51013255	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgtggatatccccacccGcagttcactctccggcctgt	6	10	8	17	2	2	0	1	0	1	0	4	1	3	1	6	2	0	2	6	2	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr18:51013255G>A	uc002lfe.1	+	26	4412	c.3825G>A	c.(3823-3825)CCG>CCA	p.P1275P	DCC_uc010dpf.1_Silent_p.P910P	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1275	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		ATCCCCACCCGCAGTTCACTC	0.537													7	95					0	0	0.001984	0	0		A	51013255	A	A	51013255	2	1	62	1	0	0	0	0	0	0	0	1	4285	1074	38	1		1	DCC	18	51013255	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	28206861	51013255	27063993	288	43218											
SERPINB12	89777	broad.mit.edu	37	chr18	61223522	61223522	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcccttggtatggtacgcTtgggtgctagaagtgacagt	7	12	14	8	1	0	2	0	1	0	1	0	2	0	2	1	3	3	4	1	3	4	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr18:61223522T>C	uc010xen.1	+	1	130	c.130T>C	c.(130-132)TTG>CTG	p.L44L	SERPINB12_uc010xeo.1_Silent_p.L44L	NM_080474	NP_536722	Q96P63	SPB12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	44					negative regulation of protein catabolic process|regulation of proteolysis	cytoplasm	enzyme binding|serine-type endopeptidase inhibitor activity				0						TATGGTACGCTTGGGTGCTAG	0.458													14	192					0	0	0.003163	0	0		C	61223522	C	C	61223522	2	2	62	1	0	0	0	0	0	0	0	1	14124	1606	56	3		3	SERPINB12	18	61223522	Silent	SNP	T	TCGA-BR-8284-01A-11D-2340-08	10210267	61223522	16853726	289	43219											
DSEL	92126	broad.mit.edu	37	chr18	65179723	65179723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatgttcagtattattgAcattgagagaaatctgaagt	15	13	8	5	0	2	4	1	3	1	1	2	5	2	4	0	0	1	2	0	0	5	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr18:65179723A>G	uc002lke.1	-	2	3377	c.2153T>C	c.(2152-2154)GTC>GCC	p.V718A		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	708						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				AGTATTATTGACATTGAGAGA	0.373													28	46					0	0	0.005443	0	0		G	65179723	G	G	65179723	3	3	62	1	0	0	0	0	1	0	0	0	4781	275	10	3	1519	3	DSEL	18	65179723	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	3956201	65179723	12897525	290	43220											
CNDP2	55748	broad.mit.edu	37	chr18	72180886	72180886	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcacaagctgtacgacGacatcgactttgacatagag	14	7	11	9	3	0	2	0	1	0	1	1	6	0	3	0	1	3	3	0	1	3	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr18:72180886G>T	uc002llm.1	+	8	997	c.835G>T	c.(835-837)GAC>TAC	p.D279Y	CNDP2_uc002lln.1_Missense_Mutation_p.D195Y|CNDP2_uc010dqs.2_Intron	NM_018235	NP_060705	Q96KP4	CNDP2_HUMAN	CNDP dipeptidase 2	279						cytoplasm	carboxypeptidase activity|metal ion binding|metallopeptidase activity|protein binding|tripeptidase activity			ovary(2)|skin(1)	3		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.22)		GCTGTACGACGACATCGACTT	0.597													5	89					1.23904e-05	1.32662e-05	0.000602	1	0		T	72180886	T	T	72180886	3	4	62	1	0	0	0	0	1	0	0	0	3597	1058	37	5	861	5	CNDP2	18	72180886	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	7001163	72180886	5896362	291	43221											
ZNF236	7776	broad.mit.edu	37	chr18	74620354	74620354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgtagaccagcagagcatGcaggcctccactcaaatgca	13	6	9	13	0	1	2	1	0	0	2	2	2	2	2	3	1	4	5	3	1	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr18:74620354G>A	uc002lmi.2	+	14	2568	c.2370G>A	c.(2368-2370)ATG>ATA	p.M790I	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	790					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		AGCAGAGCATGCAGGCCTCCA	0.572													7	138					0	0	0.001984	0	0		A	74620354	A	A	74620354	3	1	62	1	0	0	0	0	1	0	0	0	17814	1319	46	2	2424	2	ZNF236	18	74620354	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2439468	74620354	3456894	292	43222											
POLR2E	5434	broad.mit.edu	37	chr19	1093981	1093981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtccgtgcgccgcggccGcccctcactcggcttgtccc	2	7	13	19	6	1	0	1	0	0	0	4	1	3	0	6	3	1	1	6	3	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:1093981G>A	uc002lre.3	-	2	231	c.154C>T	c.(154-156)CGG>TGG	p.R52W	POLR2E_uc010xgf.1_Intron	NM_002695	NP_002686	P19388	RPAB1_HUMAN	DNA directed RNA polymerase II polypeptide E	52					interspecies interaction between organisms|mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase II promoter|transcription elongation from RNA polymerase III promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCCGCGGCCGCCCCTCACTC	0.647													4	30					0	0	0.009096	0	0		A	1093981	A	A	1093981	3	1	62	1	0	0	0	0	1	0	0	0	12237	1086	38	1	502	1	POLR2E	19	1093981	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08		1093981	58035002	293	43223											
C3	718	broad.mit.edu	37	chr19	6707183	6707183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccttcttgcacgcctcgcCcagggagatgaaacgggtcc	8	7	12	14	3	1	2	0	1	1	1	3	4	2	2	4	2	2	1	4	2	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:6707183C>T	uc002mfm.2	-	17	2211	c.2149G>A	c.(2149-2151)GGC>AGC	p.G717S		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	717	Anaphylatoxin-like.				complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		CACGCCTCGCCCAGGGAGATG	0.662													6	32					0	0	0.001984	0	0		T	6707183	T	T	6707183	3	4	62	1	0	0	0	0	1	0	0	0	2207	623	22	4	2942	4	C3	19	6707183	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	5613202	6707183	52421800	294	43224											
MYO1F	4542	broad.mit.edu	37	chr19	8620596	8620596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttggcggcaatggcgtcttCggtgatctggggaagaagca	8	9	17	7	3	2	2	0	1	2	1	3	3	2	3	0	6	1	3	0	6	3	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:8620596C>T	uc002mkg.2	-	2	202	c.88G>A	c.(88-90)GAA>AAA	p.E30K	MYO1F_uc002mkh.2_Missense_Mutation_p.E30K|MYO1F_uc010xkf.1_Missense_Mutation_p.E30K	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	30	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						ATGGCGTCTTCGGTGATCTGG	0.617													11	53					0	0	0.013537	0	0		T	8620596	T	T	8620596	3	4	62	1	0	0	0	0	1	0	0	0	10091	893	31	1	3316	1	MYO1F	19	8620596	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1913413	8620596	50508387	295	43225											
S1PR5	53637	broad.mit.edu	37	chr19	10625085	10625085	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atagcggccaggatgcccacGaaggcgagcacgcagaagag	13	2	15	11	4	0	2	0	0	0	2	0	5	0	3	2	3	3	2	2	3	3	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:10625085G>A	uc002mot.1	-	2	660	c.603C>T	c.(601-603)TTC>TTT	p.F201F	S1PR5_uc002mou.1_Silent_p.F201F	NM_030760	NP_110387	Q9H228	S1PR5_HUMAN	endothelial differentiation, sphingolipid	201	Helical; Name=5; (By similarity).					integral to membrane|plasma membrane	lysosphingolipid and lysophosphatidic acid receptor activity			central_nervous_system(1)|pancreas(1)	2						GGATGCCCACGAAGGCGAGCA	0.682													4	13					0	0	0.009096	0	0		A	10625085	A	A	10625085	2	1	62	1	0	0	0	0	0	0	0	1	13822	1049	37	1		1	S1PR5	19	10625085	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2004489	10625085	48503898	296	43226											
NOTCH3	4854	broad.mit.edu	37	chr19	15281167	15281167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagcgcgtcctggcccaCgggttcccgccggcccttgt	2	7	13	19	5	0	0	0	0	0	0	2	0	2	0	6	3	1	1	6	3	0	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:15281167C>T	uc002nan.2	-	27	5165	c.5089G>A	c.(5089-5091)GTG>ATG	p.V1697M		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1697	Cytoplasmic (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			TCCTGGCCCACGGGTTCCCGC	0.667													7	34					0	0	0.001984	0	0		T	15281167	T	T	15281167	3	4	62	1	0	0	0	0	1	0	0	0	10569	536	19	1	1904	1	NOTCH3	19	15281167	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	4656082	15281167	43847816	297	43227											
SLC5A5	6528	broad.mit.edu	37	chr19	17983472	17983472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttctaccgcctgggcctcaCcagcacctacgaggtaccgg	7	7	10	17	3	2	0	1	0	1	0	2	1	2	0	6	3	4	2	6	3	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:17983472C>T	uc002nhr.3	+	1	691	c.344C>T	c.(343-345)ACC>ATC	p.T115I		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	115	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						CTGGGCCTCACCAGCACCTAC	0.672													3	24					0	0	0.004672	0	0		T	17983472	T	T	17983472	3	4	62	1	0	0	0	0	1	0	0	0	14693	507	18	4	346	4	SLC5A5	19	17983472	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2702305	17983472	41145511	298	43228											
TSSK6	83983	broad.mit.edu	37	chr19	19625866	19625866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgatgatcgtgcaggtagCgcacggcgccggcgatctgc	6	7	17	11	6	1	2	0	2	1	0	2	3	1	2	1	4	3	3	1	4	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:19625866C>T	uc002nmr.2	-	1	604	c.371G>A	c.(370-372)CGC>CAC	p.R124H	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	124	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						GTGCAGGTAGCGCACGGCGCC	0.682													4	59					0	0	0.009096	0	0		T	19625866	T	T	19625866	3	4	62	1	0	0	0	0	1	0	0	0	16698	768	27	1	454	1	TSSK6	19	19625866	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1642394	19625866	39503117	299	43229											
ZNF626	199777	broad.mit.edu	37	chr19	20807757	20807757	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacatttgtagggtttttctCcagtatgaattatcttatgt	9	19	7	6	0	2	1	0	1	2	0	3	1	2	1	1	1	0	3	1	1	5	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:20807757C>A	uc002npb.1	-	4	1076	c.926G>T	c.(925-927)GGA>GTA	p.G309V	ZNF626_uc002npc.1_Missense_Mutation_p.G233V	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	309					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GGGTTTTTCTCCAGTATGAAT	0.368													6	107					3.59834e-05	3.80289e-05	0.001168	1	0		A	20807757	A	A	20807757	3	1	62	1	0	0	0	0	1	0	0	0	18075	855	30	5	664	5	ZNF626	19	20807757	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1181891	20807757	38321226	300	43230											
PLEKHF1	79156	broad.mit.edu	37	chr19	30165559	30165559	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtggagttctacgcctcgggGgtggcctggtctgccttcca	3	11	15	12	2	2	0	0	0	2	0	4	1	3	1	4	5	2	1	4	5	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:30165559G>C	uc002nsh.3	+	2	915	c.813G>C	c.(811-813)GGG>GGC	p.G271G	PLEKHF1_uc002nsi.3_Silent_p.G356G	NM_024310	NP_077286	Q96S99	PKHF1_HUMAN	apoptosis-inducing protein D	271					apoptosis	lysosome|nucleus|perinuclear region of cytoplasm	metal ion binding				0	Ovarian(5;0.000567)|Breast(6;0.0602)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0623)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.225)			ACGCCTCGGGGGTGGCCTGGT	0.667													4	10					0	0	0.001168	0	0		C	30165559	C	C	30165559	2	2	62	1	0	0	0	0	0	0	0	1	12085	1219	43	5		5	PLEKHF1	19	30165559	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	9357802	30165559	28963424	301	43231											
SIPA1L3	23094	broad.mit.edu	37	chr19	38572746	38572746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccctcagcgagtgtgacGcggaggacgcgggggagccg	7	4	18	12	6	2	1	2	1	0	0	2	5	2	4	2	4	2	0	2	4	0	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:38572746G>A	uc002ohk.2	+	3	1050	c.541G>A	c.(541-543)GCG>ACG	p.A181T		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	181					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CGAGTGTGACGCGGAGGACGC	0.736													7	45					0	0	0.00308	0	0		A	38572746	A	A	38572746	3	1	62	1	0	0	0	0	1	0	0	0	14356	1087	38	1	543	1	SIPA1L3	19	38572746	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	8407187	38572746	20556237	302	43232											
GRIK5	2901	broad.mit.edu	37	chr19	42566769	42566769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagcgaaggtactgaaggcGgggtgtctcctcgggaccca	9	6	16	10	3	1	1	0	1	1	0	3	4	1	2	2	5	2	1	2	5	4	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:42566769G>A	uc002osj.1	-	4	414	c.379C>T	c.(379-381)CGC>TGC	p.R127C	GRIK5_uc010eib.1_Missense_Mutation_p.R46C	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	127	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	TACTGAAGGCGGGGTGTCTCC	0.612													9	89					0	0	0.006214	0	0		A	42566769	A	A	42566769	3	1	62	1	0	0	0	0	1	0	0	0	6793	1116	39	1	2627	1	GRIK5	19	42566769	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	3994023	42566769	16562214	303	43233											
C19orf61	56006	broad.mit.edu	37	chr19	44237020	44237020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagctcttaccagttcttctCggtgaggatcgtgtgtgaca	7	13	12	9	2	3	2	0	2	3	0	5	4	3	3	1	2	2	2	1	2	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:44237020C>T	uc002oxj.2	-	13	1817	c.1474G>A	c.(1474-1476)GAG>AAG	p.E492K	C19orf61_uc002oxk.2_Missense_Mutation_p.E492K	NM_019108	NP_061981	Q9H0W8	SMG9_HUMAN	SMG9 protein	492					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	intracellular	protein binding				0		Prostate(69;0.0352)				CAGTTCTTCTCGGTGAGGATC	0.582													5	57					0	0	0.001168	0	0		T	44237020	T	T	44237020	3	4	62	1	0	0	0	0	1	0	0	0	1946	893	31	1	96	1	C19orf61	19	44237020	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1670251	44237020	14891963	304	43234											
TEAD2	8463	broad.mit.edu	37	chr19	49863201	49863201	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcaatgtctgggctccaCaccccctctgcatccgggcc	5	9	9	18	1	3	0	1	0	2	0	5	0	5	0	5	2	2	3	5	2	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:49863201C>T	uc002pnj.2	-	2	223	c.132G>A	c.(130-132)GTG>GTA	p.V44V	TEAD2_uc002png.2_Silent_p.V44V|TEAD2_uc002pnh.2_Silent_p.V44V|TEAD2_uc002pni.2_Silent_p.V44V|TEAD2_uc010yao.1_Intron|TEAD2_uc010emw.2_Silent_p.V44V	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	44	TEA.				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		CTGGGCTCCACACCCCCTCTG	0.632													10	72					0	0	0.008291	0	0		T	49863201	T	T	49863201	2	4	62	1	0	0	0	0	0	0	0	1	15764	465	17	4		4	TEAD2	19	49863201	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	5626181	49863201	9265782	305	43235											
LRRC4B	94030	broad.mit.edu	37	chr19	51022587	51022587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggcagcccgttgaaggcgCccacctcgatcttgcgcacc	6	7	12	16	4	1	1	0	1	1	0	2	2	1	1	4	2	2	3	4	2	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:51022587C>T	uc002pss.2	-	3	520	c.383G>A	c.(382-384)GGC>GAC	p.G128D		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	128	Extracellular (Potential).|LRR 2.					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		GTTGAAGGCGCCCACCTCGAT	0.627													9	38					0	0	0.006214	0	0		T	51022587	T	T	51022587	3	4	62	1	0	0	0	0	1	0	0	0	9025	739	26	2	1762	2	LRRC4B	19	51022587	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1159386	51022587	8106396	306	43236											
ZNF350	59348	broad.mit.edu	37	chr19	52469108	52469108	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatgcttctctaattttcGtgttttctgatgcttgggac	6	19	9	7	1	2	2	0	2	2	0	4	3	2	3	0	1	2	3	0	1	1	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:52469108G>A	uc002pyd.2	-	5	826	c.598C>T	c.(598-600)CGA>TGA	p.R200*	uc002pyb.2_Intron|uc002pyc.2_Intron	NM_021632	NP_067645	Q9GZX5	ZN350_HUMAN	zinc finger protein 350	200					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix|transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			breast(1)	1		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0179)		TCTAATTTTCGTGTTTTCTGA	0.418													21	159					0	0	0.012319	0	0		A	52469108	A	A	52469108	4	1	62	1	0	0	0	0	0	1	0	0	17888	1153	40	1	1004	1	ZNF350	19	52469108	Nonsense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1446521	52469108	6659875	307	43237											
ZNF415	55786	broad.mit.edu	37	chr19	53612518	53612518	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgaactctccaatgacgCgcaaggtttgatttttgact	10	14	9	8	2	1	4	0	4	1	0	2	4	1	4	1	1	1	3	1	1	4	4	rs142864555		TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:53612518C>T	uc002qax.2	-	7	1273	c.924G>A	c.(922-924)GCG>GCA	p.A308A	ZNF415_uc002qat.2_Silent_p.A272A|ZNF415_uc002qaw.2_Silent_p.A260A|ZNF415_uc010yds.1_Silent_p.A260A|ZNF415_uc010ydt.1_Silent_p.A260A|ZNF415_uc002qau.2_Silent_p.A247A|ZNF415_uc002qav.2_Silent_p.A272A|ZNF415_uc002qba.2_Silent_p.A30A|ZNF415_uc002qay.2_Silent_p.A247A|ZNF415_uc002qaz.2_Silent_p.A308A	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	308	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		TCCAATGACGCGCAAGGTTTG	0.423													8	66					0	0	0.006214	0	0		T	53612518	T	T	53612518	2	4	62	1	0	0	0	0	0	0	0	1	17917	755	27	1		1	ZNF415	19	53612518	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1143410	53612518	5516465	308	43238											
TFPT	29844	broad.mit.edu	37	chr19	54611352	54611352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaccggggccagctctGgagtcagcgcatttcctgct	5	9	12	15	2	2	0	1	0	1	0	3	1	3	1	4	3	4	4	4	3	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:54611352G>A	uc010yej.1	-	5	1029	c.623C>T	c.(622-624)CCA>CTA	p.P208L		NM_013342	NP_037474	P0C1Z6	TFPT_HUMAN	TCF3 (E2A) fusion partner	208					apoptosis|DNA recombination|DNA repair|induction of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex	DNA binding|protein binding				0	all_cancers(19;0.004)|all_epithelial(19;0.00195)|all_lung(19;0.0193)|Lung NSC(19;0.0358)|Breast(117;0.137)|Ovarian(34;0.19)					GGCCAGCTCTGGAGTCAGCGC	0.711			T	TCF3	pre-B ALL								5	61					0	0	0.001984	0	0		A	54611352	A	A	54611352	3	1	62	1	0	0	0	0	1	0	0	0	15835	1348	47	4	146	4	TFPT	19	54611352	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	998834	54611352	4517631	309	43239											
ZIM3	114026	broad.mit.edu	37	chr19	57647341	57647341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagtattttcttagatcCgtcacattctacacctttct	9	17	5	10	1	4	1	1	0	3	1	5	2	5	2	2	1	1	1	2	1	4	7			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:57647341C>T	uc002qnz.1	-	5	750	c.364G>A	c.(364-366)GGA>AGA	p.G122R		NM_052882	NP_443114	Q96PE6	ZIM3_HUMAN	zinc finger, imprinted 3	122					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.243)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TTCTTAGATCCGTCACATTCT	0.393													21	158					0	0	0.010504	0	0		T	57647341	T	T	57647341	3	4	62	1	0	0	0	0	1	0	0	0	17710	661	23	1	1058	1	ZIM3	19	57647341	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	3035989	57647341	1481642	310	43240											
ZNF324B	388569	broad.mit.edu	37	chr19	58967763	58967763	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaagcccttcgtgtgcacGcagtgtggccgcgccttccg	5	8	14	14	5	0	1	0	0	0	1	2	2	1	1	4	1	2	2	4	1	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr19:58967763G>A	uc002qsv.1	+	4	1559	c.1452G>A	c.(1450-1452)ACG>ACA	p.T484T	ZNF324B_uc002qsu.1_Silent_p.T474T|ZNF324B_uc010euq.1_Silent_p.T484T	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	484	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		TCGTGTGCACGCAGTGTGGCC	0.672													9	64					0	0	0.006214	0	0		A	58967763	A	A	58967763	2	1	62	1	0	0	0	0	0	0	0	1	17870	1074	38	1		1	ZNF324B	19	58967763	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1320422	58967763	161220	311	43241											
SLC23A2	9962	broad.mit.edu	37	chr20	4880333	4880333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggaagggcactgcgatcGtgccgctgaagcatgtcagg	10	6	15	10	3	1	1	1	1	0	0	2	3	1	2	1	3	3	3	1	3	2	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr20:4880333G>A	uc002wlg.1	-	6	725	c.350C>T	c.(349-351)ACG>ATG	p.T117M	SLC23A2_uc010zqr.1_Missense_Mutation_p.T116M|SLC23A2_uc002wlh.1_Missense_Mutation_p.T117M|SLC23A2_uc002wli.2_Missense_Mutation_p.T116M	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	117	Helical; (Potential).				L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						CACTGCGATCGTGCCGCTGAA	0.517													14	130					0	0	0.004007	0	0		A	4880333	A	A	4880333	3	1	62	1	0	0	0	0	1	0	0	0	14488	1145	40	1	1650	1	SLC23A2	20	4880333	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08		4880333	58145187	312	43242											
SNX5	27131	broad.mit.edu	37	chr20	17928170	17928170	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttgttcaaatttctggcaGcactcctgctggtgtgcctc	6	14	10	11	0	2	0	1	0	1	0	4	0	3	0	2	2	3	5	2	2	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr20:17928170G>A	uc002wqc.2	-	11	1124	c.1038C>T	c.(1036-1038)TGC>TGT	p.C346C	SNX5_uc002wqb.2_RNA|SNX5_uc002wqd.2_Silent_p.C346C|SNX5_uc002wqe.2_Silent_p.C241C|SNX5_uc010zrt.1_Silent_p.C346C	NM_014426	NP_055241	Q9Y5X3	SNX5_HUMAN	sorting nexin 5	346	BAR.				cell communication|pinocytosis|protein transport	cytoplasmic vesicle membrane|early endosome membrane|extrinsic to endosome membrane|extrinsic to internal side of plasma membrane|macropinocytic cup|phagocytic cup|ruffle	phosphatidylinositol binding			large_intestine(1)	1						ATTTCTGGCAGCACTCCTGCT	0.393													5	72					0	0	0.001168	0	0		A	17928170	A	A	17928170	2	1	62	1	0	0	0	0	0	0	0	1	14930	963	34	2		2	SNX5	20	17928170	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	13047837	17928170	45097350	313	43243											
TMEM90B	79953	broad.mit.edu	37	chr20	24524112	24524112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcccaccaaagacagcctcGagtacccggatgggaagttc	11	5	11	14	3	0	1	0	0	0	1	2	4	0	3	4	2	2	2	4	2	3	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr20:24524112G>A	uc002wtw.1	+	2	1012	c.379G>A	c.(379-381)GAG>AAG	p.E127K		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	127	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						AGACAGCCTCGAGTACCCGGA	0.597													12	106					0	0	0.001855	0	0		A	24524112	A	A	24524112	3	1	62	1	0	0	0	0	1	0	0	0	16244	1059	37	1	381	1	TMEM90B	20	24524112	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	6595942	24524112	38501408	314	43244											
XKR7	343702	broad.mit.edu	37	chr20	30585189	30585189	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggagtactcctcacctGccacgccccggttgcagtac	7	8	9	17	2	1	0	1	0	0	0	2	1	2	1	5	2	4	4	5	2	2	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr20:30585189G>T	uc002wxe.2	+	3	1843	c.1669G>T	c.(1669-1671)GCC>TCC	p.A557S		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	557						integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			CTCCTCACCTGCCACGCCCCG	0.592													10	55					0.000151284	0.000158655	0.001855	1	0		T	30585189	T	T	30585189	3	4	62	1	0	0	0	0	1	0	0	0	17462	1319	46	5	1679	5	XKR7	20	30585189	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	6061077	30585189	32440331	315	43245											
ZNF341	84905	broad.mit.edu	37	chr20	32344953	32344953	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgactgtgttgtcctcctaGgtgccaaaccagtgtgtgga	7	12	12	10	0	0	1	0	1	0	0	2	2	2	2	4	2	2	1	4	2	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr20:32344953G>T	uc002wzy.2	+	6	762	c.742_splice	c.e6-1	p.V248_splice	ZNF341_uc002wzx.2_Splice_Site_p.V248_splice|ZNF341_uc010geq.2_Splice_Site_p.V158_splice|ZNF341_uc010ger.2_Splice_Site	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TGTCCTCCTAGGTGCCAAACC	0.607													14	209					0.000566183	0.000589234	0.00499	1	0		T	32344953	T	T	32344953	5	4	62	1	0	0	0	0	0	0	1	0	17882	1014	35	5	763	5	ZNF341	20	32344953	Splice_Site	SNP	G	TCGA-BR-8284-01A-11D-2340-08	1759764	32344953	30680567	316	43246											
ACSS2	55902	broad.mit.edu	37	chr20	33509633	33509633	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaatcctgaatgagtcCggggaagagttggaaggtga	11	8	15	7	1	0	4	0	3	0	1	2	6	2	6	3	4	1	2	3	4	4	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr20:33509633C>T	uc002xbd.2	+	13	1633	c.1512C>T	c.(1510-1512)TCC>TCT	p.S504S	ACSS2_uc002xbc.2_Silent_p.S409S|ACSS2_uc010zum.1_Intron|ACSS2_uc010gey.2_Silent_p.S517S|ACSS2_uc002xbe.2_Silent_p.S212S|ACSS2_uc002xbf.2_Intron	NM_018677	NP_061147	Q9NR19	ACSA_HUMAN	acyl-CoA synthetase short-chain family member 2	504					ethanol oxidation|lipid biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	acetate-CoA ligase activity|ATP binding|protein binding				0					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TGAATGAGTCCGGGGAAGAGT	0.512													35	270					0	0	0.004289	0	0		T	33509633	T	T	33509633	2	4	62	1	0	0	0	0	0	0	0	1	189	639	23	1		1	ACSS2	20	33509633	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	1164680	33509633	29515887	317	43247											
PROCR	10544	broad.mit.edu	37	chr20	33764082	33764082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctttgtgagtttccggcCggagagagccttgtggcagg	5	11	15	10	2	0	2	0	1	0	1	2	4	2	3	4	4	1	2	4	4	0	3	rs144485700	byFrequency	TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr20:33764082C>T	uc002xbt.2	+	3	618	c.434C>T	c.(433-435)CCG>CTG	p.P145L	EDEM2_uc010zuv.1_Intron|PROCR_uc010zuw.1_Missense_Mutation_p.P182L	NM_006404	NP_006395	Q9UNN8	EPCR_HUMAN	endothelial protein C receptor precursor	145	Extracellular (Potential).				antigen processing and presentation|blood coagulation|immune response	integral to plasma membrane|MHC class I protein complex	receptor activity				0			BRCA - Breast invasive adenocarcinoma(18;0.0152)		Drotrecogin alfa(DB00055)	AGTTTCCGGCCGGAGAGAGCC	0.597													10	85					0	0	0.008291	0	0		T	33764082	T	T	33764082	3	4	62	1	0	0	0	0	1	0	0	0	12569	652	23	1	444	1	PROCR	20	33764082	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	254449	33764082	29261438	318	43248											
MMP24	10893	broad.mit.edu	37	chr20	33842535	33842535	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactccgatgagccatggacGctaggaaatgccaaccatga	13	6	11	11	2	0	2	0	2	0	0	1	6	1	4	4	2	3	1	4	2	3	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr20:33842535G>A	uc002xbu.2	+	4	798	c.795G>A	c.(793-795)ACG>ACA	p.T265T	EDEM2_uc010zuv.1_Intron	NM_006690	NP_006681	Q9Y5R2	MMP24_HUMAN	matrix metalloproteinase 24 preproprotein	265	Extracellular (Potential).				proteolysis	integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00252)			AGCCATGGACGCTAGGAAATG	0.562													9	94					0	0	0.004482	0	0		A	33842535	A	A	33842535	2	1	62	1	0	0	0	0	0	0	0	1	9679	1074	38	1		1	MMP24	20	33842535	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	78453	33842535	29182985	319	43249											
CPNE1	8904	broad.mit.edu	37	chr20	34214684	34214684	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgtgtggcttccacatcCgtcacagcaccatcagtcag	9	9	8	15	2	4	0	4	0	0	0	6	0	6	0	3	1	1	2	3	1	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr20:34214684C>T	uc002xdf.2	-	17	1641	c.1278G>A	c.(1276-1278)ACG>ACA	p.T426T	CPNE1_uc002xdc.2_Silent_p.T88T|CPNE1_uc010zvj.1_Silent_p.T431T|CPNE1_uc002xde.2_Silent_p.T402T|CPNE1_uc002xdg.2_Silent_p.T426T|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Silent_p.T426T|CPNE1_uc002xdi.2_Silent_p.T426T|CPNE1_uc002xdj.2_Silent_p.T426T|CPNE1_uc002xdk.2_Silent_p.T426T|CPNE1_uc002xdl.2_Silent_p.T426T|CPNE1_uc002xdm.2_Silent_p.T426T	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	426	VWFA.				lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			CTTCCACATCCGTCACAGCAC	0.557													10	47					0	0	0.008291	0	0		T	34214684	T	T	34214684	2	4	62	1	0	0	0	0	0	0	0	1	3814	639	23	1		1	CPNE1	20	34214684	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	372149	34214684	28810836	320	43250											
ZHX3	23051	broad.mit.edu	37	chr20	39831076	39831076	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcctcgcttatagtcttcGtaccatttgagttggccgtt	5	17	9	10	3	1	1	0	1	1	0	3	1	1	1	3	1	2	4	3	1	3	8			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr20:39831076G>A	uc002xjs.1	-	3	2859	c.2481C>T	c.(2479-2481)TAC>TAT	p.Y827Y	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Silent_p.Y827Y|ZHX3_uc002xjt.1_Silent_p.Y827Y|ZHX3_uc002xju.1_Silent_p.Y827Y|ZHX3_uc002xjv.1_Silent_p.Y827Y|ZHX3_uc002xjw.1_Silent_p.Y827Y|ZHX3_uc010ggg.1_Silent_p.Y827Y	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	827					negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				TATAGTCTTCGTACCATTTGA	0.557													7	120					0	0	0.00308	0	0		A	39831076	A	A	39831076	2	1	62	1	0	0	0	0	0	0	0	1	17702	1140	40	1		1	ZHX3	20	39831076	Silent	SNP	G	TCGA-BR-8284-01A-11D-2340-08	5616392	39831076	23194444	321	43251											
UCKL1	54963	broad.mit.edu	37	chr20	62571599	62571599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcataggccactgagtgcaCgcccatctctgccatgagca	9	8	10	14	1	1	2	0	2	1	0	2	2	1	2	3	1	4	3	3	1	1	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr20:62571599C>T	uc010gkn.2	-	14	1514	c.1471G>A	c.(1471-1473)GTG>ATG	p.V491M	UCKL1_uc002yhj.2_Missense_Mutation_p.V134M|UCKL1_uc011abm.1_Missense_Mutation_p.V476M|UCKL1_uc011abn.1_RNA	NM_017859	NP_060329	Q9NWZ5	UCKL1_HUMAN	uridine-cytidine kinase 1-like 1	491					interspecies interaction between organisms	endoplasmic reticulum|nucleus	ATP binding|phosphotransferase activity, alcohol group as acceptor|protein binding|uridine kinase activity				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					ACTGAGTGCACGCCCATCTCT	0.557													9	26					0	0	0.006214	0	0		T	62571599	T	T	62571599	3	4	62	1	0	0	0	0	1	0	0	0	16951	536	19	1	183	1	UCKL1	20	62571599	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	22740523	62571599	453921	322	43252											
CECR2	27443	broad.mit.edu	37	chr22	18028575	18028575	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctaccaccactatcagcgaActccttactatgcctgtcca	10	10	4	17	1	1	0	1	0	0	0	3	1	3	0	6	0	5	0	6	0	5	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr22:18028575A>G	uc010gqw.1	+	16	3658	c.3532A>G	c.(3532-3534)ACT>GCT	p.T1178A	CECR2_uc010gqv.1_Missense_Mutation_p.T1036A|CECR2_uc002zml.2_Missense_Mutation_p.T1037A|CECR2_uc002zmo.2_RNA	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	1220					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		CTATCAGCGAACTCCTTACTA	0.602													4	36					0	0	0.009096	0	0		G	18028575	G	G	18028575	3	3	62	1	0	0	0	0	1	0	0	0	3209	43	2	3	3596	3	CECR2	22	18028575	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08		18028575	33275991	323	43253											
DGCR8	54487	broad.mit.edu	37	chr22	20077195	20077195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtcttcctgtgcaggtcGtggccgcccacctacagagc	5	10	11	15	2	1	1	0	0	1	1	3	1	2	1	4	2	3	1	4	2	1	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr22:20077195G>A	uc002zri.2	+	4	1234	c.884G>A	c.(883-885)CGT>CAT	p.R295H	DGCR8_uc010grz.2_Missense_Mutation_p.R295H|DGCR8_uc002zrj.2_Translation_Start_Site	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	295	Necessary for heme-binding and pri-miRNA processing.|Necessary for interaction with NCL.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)					TGTGCAGGTCGTGGCCGCCCA	0.522													8	86					0	0	0.00308	0	0		A	20077195	A	A	20077195	3	1	62	1	0	0	0	0	1	0	0	0	4470	1145	40	1	894	1	DGCR8	22	20077195	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	2048620	20077195	31227371	324	43254											
PI4KA	5297	broad.mit.edu	37	chr22	21075694	21075694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcccacagaatatactcccGcacatagcccatctgcagga	12	7	7	15	1	1	1	0	0	1	1	2	2	2	2	3	1	4	2	3	1	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr22:21075694G>A	uc002zsz.3	-	43	5065	c.4834C>T	c.(4834-4836)CGG>TGG	p.R1612W	PI4KA_uc010gsp.2_Missense_Mutation_p.R5W|PI4KA_uc002zsy.3_Missense_Mutation_p.R422W	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1612					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			ATATACTCCCGCACATAGCCC	0.547													18	84					0	0	0.007413	0	0		A	21075694	A	A	21075694	3	1	62	1	0	0	0	0	1	0	0	0	11892	1086	38	1	1352	1	PI4KA	22	21075694	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	998499	21075694	30228872	325	43255											
AP1B1	162	broad.mit.edu	37	chr22	29745311	29745311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatccagatcatggcagcccGggcctcaggctcatccaggg	9	6	12	14	1	3	1	3	0	0	1	5	1	5	1	4	4	1	2	4	4	1	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr22:29745311G>A	uc003afj.2	-	11	1517	c.1333C>T	c.(1333-1335)CGG>TGG	p.R445W	AP1B1_uc003afi.2_Missense_Mutation_p.R445W|AP1B1_uc003afk.2_Missense_Mutation_p.R445W|AP1B1_uc003afl.2_Missense_Mutation_p.R445W|AP1B1_uc011ako.1_5'UTR	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	445					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						ATGGCAGCCCGGGCCTCAGGC	0.587													6	76					0	0	0.00308	0	0		A	29745311	A	A	29745311	3	1	62	1	0	0	0	0	1	0	0	0	731	1115	39	1	1568	1	AP1B1	22	29745311	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	8669617	29745311	21559255	326	43256											
DMC1	11144	broad.mit.edu	37	chr22	38935386	38935386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcatggtctacattaaagcGatcagcaatgtccctaaggc	13	10	8	10	1	3	0	2	0	1	0	4	1	4	0	1	2	3	1	1	2	5	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr22:38935386G>A	uc003avz.1	-	9	701	c.526C>T	c.(526-528)CGC>TGC	p.R176C	DMC1_uc011anv.1_Intron	NM_007068	NP_008999	Q14565	DMC1_HUMAN	DMC1 dosage suppressor of mck1 homolog	176					reciprocal meiotic recombination	condensed nuclear chromosome	ATP binding|DNA binding|DNA-dependent ATPase activity|protein binding			ovary(1)	1	Melanoma(58;0.0286)					ACATTAAAGCGATCAGCAATG	0.423								Homologous_recombination					6	56					0	0	0.001168	0	0		A	38935386	A	A	38935386	3	1	62	1	0	0	0	0	1	0	0	0	4585	1058	37	1	520	1	DMC1	22	38935386	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	9190075	38935386	12369180	327	43257											
MGAT3	4248	broad.mit.edu	37	chr22	39884327	39884327	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgagatcccggcccgtgaCggcgtccttttcctcaagct	6	9	11	15	5	1	2	1	1	0	1	4	4	4	2	4	2	1	1	4	2	1	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr22:39884327C>T	uc003axv.3	+	2	1214	c.975C>T	c.(973-975)GAC>GAT	p.D325D	MGAT3_uc010gxy.2_Silent_p.D325D	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	325	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					CGGCCCGTGACGGCGTCCTTT	0.647													11	144					0	0	0.008291	0	0		T	39884327	T	T	39884327	2	4	62	1	0	0	0	0	0	0	0	1	9562	535	19	1		1	MGAT3	22	39884327	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	948941	39884327	11420239	328	43258											
MCHR1	2847	broad.mit.edu	37	chr22	41075595	41075595	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcgctggaggctgccgcAgcctgcgtgggtggagggga	5	5	21	10	3	0	0	0	0	0	0	0	3	0	3	2	7	3	3	2	7	0	0			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr22:41075595A>G	uc003ayz.2	+	1	414	c.146A>G	c.(145-147)CAG>CGG	p.Q49R	MCHR1_uc003aza.2_Intron	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	49	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						AGGCTGCCGCAGCCTGCGTGG	0.701													4	50					0	0	0.009096	0	0		G	41075595	G	G	41075595	3	3	62	1	0	0	0	0	1	0	0	0	9400	188	7	3	148	3	MCHR1	22	41075595	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	1191268	41075595	10228971	329	43259											
EFCAB6	64800	broad.mit.edu	37	chr22	44022428	44022428	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactaagtctcaagccaagAaggccaaggaagcgctcaaa	17	4	9	11	1	2	1	2	0	1	1	3	2	2	2	2	2	2	1	2	2	7	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chr22:44022428A>G	uc003bdy.1	-	20	2579	c.2364T>C	c.(2362-2364)CTT>CTC	p.L788L	EFCAB6_uc003bdz.1_Silent_p.L636L|EFCAB6_uc010gzi.1_Silent_p.L636L|EFCAB6_uc010gzj.1_Silent_p.L86L|EFCAB6_uc010gzk.1_RNA	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	788					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				TCAAGCCAAGAAGGCCAAGGA	0.438													14	39					0	0	0.00245	0	0		G	44022428	G	G	44022428	2	3	62	1	0	0	0	0	0	0	0	1	4945	233	9	3		3	EFCAB6	22	44022428	Silent	SNP	A	TCGA-BR-8284-01A-11D-2340-08	2946833	44022428	7282138	330	43260											
PRKX	5613	broad.mit.edu	37	chrX	3573440	3573440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagaggaagcgctcgtcatGccacgtccagaacctgcggg	9	6	14	12	4	1	2	1	0	0	2	3	3	2	3	3	2	4	2	3	2	3	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:3573440G>A	uc010nde.2	-	3	716	c.349C>T	c.(349-351)CAT>TAT	p.H117Y		NM_005044	NP_005035	P51817	PRKX_HUMAN	protein kinase, X-linked	117	Protein kinase.						ATP binding|cAMP-dependent protein kinase activity			skin(2)|lung(1)	3		all_lung(23;0.000396)|Lung NSC(23;0.00123)				CGCTCGTCATGCCACGTCCAG	0.657													4	47					0	0	0.009096	0	0		A	3573440	A	A	3573440	3	1	62	1	0	0	0	0	1	0	0	0	12549	1319	46	2	751	2	PRKX	23	3573440	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08		3573440	151697120	331	43261											
DMD	1756	broad.mit.edu	37	chrX	31191669	31191669	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcatacctgctagcataatGttcaatgcgtgaatgagtat	12	13	8	8	1	2	2	2	2	0	0	2	2	2	2	1	0	4	4	1	0	6	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:31191669G>T	uc004dda.1	-	72	10559	c.10315C>A	c.(10315-10317)CAT>AAT	p.H3439N	DMD_uc004dcq.1_Missense_Mutation_p.H710N|DMD_uc004dcr.1_Intron|DMD_uc004dcs.1_Intron|DMD_uc004dct.1_Missense_Mutation_p.H979N|DMD_uc004dcu.1_Missense_Mutation_p.H979N|DMD_uc004dcv.1_Missense_Mutation_p.H966N|DMD_uc004dcw.2_Missense_Mutation_p.H2095N|DMD_uc004dcx.2_Missense_Mutation_p.H2098N|DMD_uc004dcz.2_Missense_Mutation_p.H3316N|DMD_uc004dcy.1_Missense_Mutation_p.H3435N|DMD_uc004ddb.1_Missense_Mutation_p.H3431N|DMD_uc004dcm.1_Missense_Mutation_p.H371N|DMD_uc004dcn.1_Missense_Mutation_p.H358N|DMD_uc004dco.1_Missense_Mutation_p.H371N|DMD_uc004dcp.1_Missense_Mutation_p.H358N|DMD_uc011mkb.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3439					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTAGCATAATGTTCAATGCGT	0.378													8	43					2.17888e-05	2.32073e-05	0.006214	1	0		T	31191669	T	T	31191669	3	4	62	1	0	0	0	0	1	0	0	0	4586	1377	48	5	860	5	DMD	23	31191669	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	27618229	31191669	124078891	332	43262											
FAM47A	158724	broad.mit.edu	37	chrX	34149433	34149433	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgggcggagactggacacCggagtcttgggaggctcctg	6	7	17	11	3	1	1	0	0	1	1	3	5	3	4	3	6	0	1	3	6	0	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:34149433C>T	uc004ddg.2	-	1	996	c.963G>A	c.(961-963)CCG>CCA	p.P321P		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	321										ovary(4)|central_nervous_system(1)	5						GACTGGACACCGGAGTCTTGG	0.612													10	41					0	0	0.006214	0	0		T	34149433	T	T	34149433	2	4	62	1	0	0	0	0	0	0	0	1	5583	639	23	1		1	FAM47A	23	34149433	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	2957764	34149433	121121127	333	43263											
CDK16	5127	broad.mit.edu	37	chrX	47088011	47088011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gattcagctacaaaaggaggCcagccttcggtcttcgtcga	10	9	11	11	3	2	0	1	0	1	0	5	3	2	1	2	3	3	1	2	3	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:47088011C>T	uc004dho.2	+	15	1817	c.1421C>T	c.(1420-1422)GCC>GTC	p.A474V	CDK16_uc011mli.1_Missense_Mutation_p.A480V|CDK16_uc011mlk.1_Missense_Mutation_p.A481V|CDK16_uc011mll.1_Missense_Mutation_p.A548V	NM_006201	NP_006192	Q00536	CDK16_HUMAN	PCTAIRE protein kinase 1 isoform 1	474							ATP binding|cyclin-dependent protein kinase activity|protein binding			lung(1)	1						CAAAAGGAGGCCAGCCTTCGG	0.537													7	82					0	0	0.001984	0	0		T	47088011	T	T	47088011	3	4	62	1	0	0	0	0	1	0	0	0	3135	739	26	2	1717	2	CDK16	23	47088011	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	12938578	47088011	108182549	334	43264											
MSN	4478	broad.mit.edu	37	chrX	64947739	64947739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtaccaggacactaaaGgtttctccacctggctgaaa	12	9	9	11	0	1	1	0	1	1	0	2	2	1	2	3	3	2	4	3	3	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:64947739G>A	uc004dwf.2	+	3	358	c.160G>A	c.(160-162)GGT>AGT	p.G54S	MSN_uc010nkp.1_RNA	NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	54	FERM.				leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						GGACACTAAAGGTTTCTCCAC	0.378			T	ALK	ALCL								9	70					0	0	0.006214	0	0		A	64947739	A	A	64947739	3	1	62	1	0	0	0	0	1	0	0	0	9903	1000	35	4	170	4	MSN	23	64947739	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	17859728	64947739	90322821	335	43265											
MSN	4478	broad.mit.edu	37	chrX	64959699	64959699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagacaaatacaagaccctgCgccagatccggcagggcaac	14	3	11	13	2	0	3	0	0	0	3	1	4	1	3	3	2	3	2	3	2	4	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:64959699C>T	uc004dwf.2	+	13	1876	c.1678C>T	c.(1678-1680)CGC>TGC	p.R560C		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	560					leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						CAAGACCCTGCGCCAGATCCG	0.542			T	ALK	ALCL								10	94					0	0	0.006214	0	0		T	64959699	T	T	64959699	3	4	62	1	0	0	0	0	1	0	0	0	9903	768	27	1	1728	1	MSN	23	64959699	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	11960	64959699	90310861	336	43266											
HEPH	9843	broad.mit.edu	37	chrX	65476119	65476119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccatgggtcccaggatcCaggcagtattaacctacagg	12	7	10	12	0	0	0	0	0	0	0	2	1	2	1	4	4	3	2	4	4	4	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:65476119C>T	uc011moz.1	+	17	2912	c.2852C>T	c.(2851-2853)CCA>CTA	p.P951L	HEPH_uc004dwn.2_Missense_Mutation_p.P951L|HEPH_uc004dwo.2_Missense_Mutation_p.P681L|HEPH_uc010nkr.2_Missense_Mutation_p.P759L|HEPH_uc011mpa.1_Missense_Mutation_p.P951L|HEPH_uc010nks.2_Missense_Mutation_p.P240L	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	948	Extracellular (Potential).|Plastocyanin-like 6.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						TCCCAGGATCCAGGCAGTATT	0.408													19	59					0	0	0.00278	0	0		T	65476119	T	T	65476119	3	4	62	1	0	0	0	0	1	0	0	0	7070	594	21	4	3071	4	HEPH	23	65476119	Missense_Mutation	SNP	C	TCGA-BR-8284-01A-11D-2340-08	516420	65476119	89794441	337	43267											
MAGEE1	57692	broad.mit.edu	37	chrX	75650837	75650837	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggcctggcaacaactttttGatgcaggtcctaagcttcat	10	12	9	10	0	1	1	1	1	0	0	2	1	2	1	2	3	4	3	2	3	3	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:75650837G>C	uc004ecm.1	+	1	2721	c.2514G>C	c.(2512-2514)TTG>TTC	p.L838F		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	838	Interaction with DTNA (By similarity).|MAGE 2.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						ACAACTTTTTGATGCAGGTCC	0.502													6	26					0	0	0.001984	0	0		C	75650837	C	C	75650837	3	2	62	1	0	0	0	0	1	0	0	0	9203	1281	45	5	2516	5	MAGEE1	23	75650837	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	10174718	75650837	79619723	338	43268											
ATP7A	538	broad.mit.edu	37	chrX	77245353	77245353	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatccatacgagtctcccTtgcaaatagcaatgggactg	14	9	8	10	1	1	0	0	0	1	0	3	2	2	1	2	1	3	2	2	1	6	3			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:77245353T>C	uc004ecx.3	+	4	1395	c.1235T>C	c.(1234-1236)CTT>CCT	p.L412P	ATP7A_uc004ecw.2_Missense_Mutation_p.L412P	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	412	HMA 4.|Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						CGAGTCTCCCTTGCAAATAGC	0.418													19	168					0	0	0.007413	0	0		C	77245353	C	C	77245353	3	2	62	1	0	0	0	0	1	0	0	0	1191	1609	56	3	1245	3	ATP7A	23	77245353	Missense_Mutation	SNP	T	TCGA-BR-8284-01A-11D-2340-08	1594516	77245353	78025207	339	43269											
P2RY10	27334	broad.mit.edu	37	chrX	78216864	78216864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgtcccgttgtccgaatcGcactgtatttccaccctttt	5	16	7	13	3	0	0	0	0	0	0	4	1	3	0	4	0	0	4	4	0	2	6			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:78216864G>A	uc004ede.2	+	4	1216	c.847G>A	c.(847-849)GCA>ACA	p.A283T	P2RY10_uc004edf.2_Missense_Mutation_p.A283T	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	283	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						TGTCCGAATCGCACTGTATTT	0.413													31	234					0	0	0.003755	0	0		A	78216864	A	A	78216864	3	1	62	1	0	0	0	0	1	0	0	0	11366	1087	38	1	849	1	P2RY10	23	78216864	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	971511	78216864	77053696	340	43270											
TBX22	50945	broad.mit.edu	37	chrX	79279618	79279618	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttggatccagggaagcagtAccatgtggccatcgatgtgg	9	9	15	8	1	0	0	0	0	0	0	2	3	1	2	3	4	2	3	3	4	2	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:79279618A>G	uc010nmg.1	+	4	547	c.413A>G	c.(412-414)TAC>TGC	p.Y138C	TBX22_uc004edi.1_Missense_Mutation_p.Y18C|TBX22_uc004edj.1_Missense_Mutation_p.Y138C	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	138	T-box.				multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						GGGAAGCAGTACCATGTGGCC	0.507													8	79					0	0	0.006214	0	0		G	79279618	G	G	79279618	3	3	62	1	0	0	0	0	1	0	0	0	15683	391	14	3	423	3	TBX22	23	79279618	Missense_Mutation	SNP	A	TCGA-BR-8284-01A-11D-2340-08	1062754	79279618	75990942	341	43271											
TGIF2LX	90316	broad.mit.edu	37	chrX	89177431	89177431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccggatatgcttcaacagcGtagaaacgaccccatcattg	12	8	8	13	3	2	1	2	0	0	1	2	3	2	2	3	1	4	2	3	1	4	4			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:89177431G>A	uc004efe.2	+	2	396	c.347G>A	c.(346-348)CGT>CAT	p.R116H		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	116						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						CTTCAACAGCGTAGAAACGAC	0.522													8	99					0	0	0.006214	0	0		A	89177431	A	A	89177431	3	1	62	1	0	0	0	0	1	0	0	0	15852	1145	40	1	349	1	TGIF2LX	23	89177431	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	9897813	89177431	66093129	342	43272											
FAM199X	139231	broad.mit.edu	37	chrX	103434340	103434340	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccttccgcaagaggcagCtgaaggagcagaggcaggcc	11	3	16	11	1	0	3	0	1	0	2	1	4	1	4	3	5	2	5	3	5	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:103434340C>T	uc004elw.2	+	6	1214	c.1048C>T	c.(1048-1050)CTG>TTG	p.L350L	FAM199X_uc004elx.2_Silent_p.L124L	NM_207318	NP_997201	Q6PEV8	F199X_HUMAN	hypothetical protein LOC139231	350										ovary(1)	1						CAAGAGGCAGCTGAAGGAGCA	0.483													6	114					0	0	0.001168	0	0		T	103434340	T	T	103434340	2	4	62	1	0	0	0	0	0	0	0	1	5541	796	28	2		2	FAM199X	23	103434340	Silent	SNP	C	TCGA-BR-8284-01A-11D-2340-08	14256909	103434340	51836220	343	43273											
HTATSF1	27336	broad.mit.edu	37	chrX	135581814	135581814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggcttctctaacgatggcGcatctagttctaccgcaaat	10	12	8	11	3	3	0	0	0	3	0	4	1	3	0	1	2	2	4	1	2	4	5			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:135581814G>A	uc004ezw.2	+	3	666	c.244G>A	c.(244-246)GCA>ACA	p.A82T	HTATSF1_uc004ezx.2_Missense_Mutation_p.A82T	NM_001163280	NP_001156752	O43719	HTSF1_HUMAN	HIV-1 Tat specific factor 1	82					regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|viral genome replication	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					TAACGATGGCGCATCTAGTTC	0.448													24	165					0	0	0.003954	0	0		A	135581814	A	A	135581814	3	1	62	1	0	0	0	0	1	0	0	0	7449	1087	38	1	250	1	HTATSF1	23	135581814	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	32147474	135581814	19688746	344	43274											
FMR1	2332	broad.mit.edu	37	chrX	147026475	147026475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggtcattagctccaacagagGaagagagggagagcttcctg	12	7	14	8	0	1	3	1	0	0	3	3	6	3	4	2	3	3	2	2	3	3	2			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:147026475G>A	uc010nst.2	+	15	1747	c.1558G>A	c.(1558-1560)GAA>AAA	p.E520K	FMR1_uc004fcj.2_Missense_Mutation_p.E497K|FMR1_uc004fck.3_Missense_Mutation_p.E474K|FMR1_uc004fcl.3_Missense_Mutation_p.E360K|FMR1_uc011mxa.1_Missense_Mutation_p.E167K	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	520	Interaction with RANBP9.				mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TCCAACAGAGGAAGAGAGGGA	0.373									Fragile_X_syndrome				4	19					0	0	0.009096	0	0		A	147026475	A	A	147026475	3	1	62	1	0	0	0	0	1	0	0	0	5974	1175	41	4	1616	4	FMR1	23	147026475	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	11444661	147026475	8244085	345	43275											
ATP2B3	492	broad.mit.edu	37	chrX	152823642	152823642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacaacttcaccagcatcGtcaaggcagtcatgtggggc	11	8	11	11	1	3	1	3	1	0	0	4	1	3	1	1	3	2	2	1	3	2	1			TCGA-BR-8284-01A-11D-2340-08	TCGA-BR-8284-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	1e07f553-454d-480d-8ae8-69c085d95ace	cb783f9c-9839-4d69-a4f5-56988bcb8b32	g.chrX:152823642G>A	uc004fht.1	+	15	2632	c.2506G>A	c.(2506-2508)GTC>ATC	p.V836I	ATP2B3_uc004fhs.1_Missense_Mutation_p.V836I|ATP2B3_uc010nuf.1_5'Flank	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	836	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CACCAGCATCGTCAAGGCAGT	0.572													33	78					0	0	0.003271	0	0		A	152823642	A	A	152823642	3	1	62	1	0	0	0	0	1	0	0	0	1142	1145	40	1	2564	1	ATP2B3	23	152823642	Missense_Mutation	SNP	G	TCGA-BR-8284-01A-11D-2340-08	5797167	152823642	2446918	346	43276											
MCOLN2	255231	broad.mit.edu	37	chr1	85424250	85424250	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatgctctcataggcatcctCttgagtatatacactgcagc	10	12	8	11	0	2	1	1	1	2	0	4	2	3	1	1	1	4	4	1	1	4	5			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:85424250C>G	uc001dkm.2	-	3	614	c.373G>C	c.(373-375)GAG>CAG	p.E125Q	MCOLN2_uc001dkn.2_RNA	NM_153259	NP_694991	Q8IZK6	MCLN2_HUMAN	mucolipin 2	125						integral to membrane	ion channel activity			ovary(3)|upper_aerodigestive_tract(1)	4				all cancers(265;0.0111)|Epithelial(280;0.0263)|OV - Ovarian serous cystadenocarcinoma(397;0.217)		TAGGCATCCTCTTGAGTATAT	0.353													14	111					0	0	1	0	0		G	85424250	G	G	85424250	3	3	63	1	0	0	0	0	1	0	0	0	9414	922	32	5	1375	5	MCOLN2	1	85424250	Missense_Mutation	SNP	C	TCGA-BR-8295-01A-11D-2340-08		85424250	163826371	1	43277											
NBPF9	400818	broad.mit.edu	37	chr1	144615237	144615237	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagaacaaacagcagttcgTaaacctcaaagagatgtttt	17	9	8	7	1	1	2	1	0	0	2	2	4	1	2	1	0	4	4	1	0	5	4	rs77154268	by1000genomes	TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:144615237T>G	uc009wig.1	+	3	183	c.107T>G	c.(106-108)GTA>GGA	p.V36G	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Intron|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_5'UTR|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_5'UTR|NBPF9_uc010oyg.1_Missense_Mutation_p.V36G|NBPF9_uc009wii.1_5'UTR|NBPF9_uc009wif.1_RNA|C1orf152_uc001elf.3_5'Flank	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	36						cytoplasm					0						CAGCAGTTCGTAAACCTCAAA	0.478													6	38					0	0	1	0	0		G	144615237	G	G	144615237	3	3	63	1	0	0	0	0	1	0	0	0	10218	1638	57	5	109	5	NBPF9	1	144615237	Missense_Mutation	SNP	T	TCGA-BR-8295-01A-11D-2340-08	59190987	144615237	104635384	2	43278											
POLR3C	10623	broad.mit.edu	37	chr1	145608112	145608112	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggttaaaattccttacctatCaagctgagtttaggaaccag	13	12	8	8	0	1	1	1	1	0	0	2	2	2	2	3	2	3	3	3	2	7	6			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:145608112C>G	uc001eoh.2	-	4	746	c.585G>C	c.(583-585)TTG>TTC	p.L195F	NBPF10_uc001emp.3_Intron|RNF115_uc001eoj.2_5'Flank|RNF115_uc001eok.2_5'Flank|RNF115_uc009wiy.2_5'Flank|POLR3C_uc001eog.2_Missense_Mutation_p.L208F|POLR3C_uc001eoi.2_RNA|POLR3C_uc009wix.2_Missense_Mutation_p.L195F	NM_006468	NP_006459	Q9BUI4	RPC3_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	195					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|regulation of transcription from RNA polymerase III promoter|response to virus	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)		Epithelial(2;7.55e-13)			CCTTACCTATCAAGCTGAGTT	0.413													22	113					0	0	1	0	0		G	145608112	G	G	145608112	3	3	63	1	0	0	0	0	1	0	0	0	12249	825	29	5	1067	5	POLR3C	1	145608112	Missense_Mutation	SNP	C	TCGA-BR-8295-01A-11D-2340-08	992875	145608112	103642509	3	43279											
F11R	50848	broad.mit.edu	37	chr1	160970514	160970514	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgtcttcccgtgtcaCggacttgaaggtgataccag	8	10	11	12	2	2	2	1	2	1	0	3	3	3	3	3	2	1	0	3	2	2	3			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:160970514C>G	uc009wtt.2	-	4	565	c.295G>C	c.(295-297)GTG>CTG	p.V99L	F11R_uc010pjv.1_Intron|F11R_uc001fxe.3_Missense_Mutation_p.V99L|F11R_uc009wtu.2_Missense_Mutation_p.V99L|F11R_uc010pjw.1_Missense_Mutation_p.V103L|F11R_uc001fxf.3_Missense_Mutation_p.V99L	NM_016946	NP_058642	Q9Y624	JAM1_HUMAN	F11 receptor precursor	99	Extracellular (Potential).|Ig-like V-type 1.				blood coagulation|inflammatory response|interspecies interaction between organisms|leukocyte migration|tight junction assembly	integral to membrane|tight junction				ovary(2)	2	all_cancers(52;6.73e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00207)			TCCCGTGTCACGGACTTGAAG	0.537													17	81					0	0	1	0	0		G	160970514	G	G	160970514	3	3	63	1	0	0	0	0	1	0	0	0	5346	536	19	5	632	5	F11R	1	160970514	Missense_Mutation	SNP	C	TCGA-BR-8295-01A-11D-2340-08	15362402	160970514	88280107	4	43280											
LHX9	56956	broad.mit.edu	37	chr1	197898303	197898303	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagacctgaccaatcccactAtcactgtagtgacatccgtg	11	9	7	14	1	1	3	1	2	0	1	3	3	3	3	4	0	0	1	4	0	3	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:197898303A>G	uc001guk.1	+	5	1545	c.1108A>G	c.(1108-1110)ATC>GTC	p.I370V	LHX9_uc001gui.1_Missense_Mutation_p.I361V|LHX9_uc001guj.1_Intron	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	370					motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						CAATCCCACTATCACTGTAGT	0.532													81	12					0	0	1	0	0		G	197898303	G	G	197898303	3	3	63	1	0	0	0	0	1	0	0	0	8793	449	16	3	1158	3	LHX9	1	197898303	Missense_Mutation	SNP	A	TCGA-BR-8295-01A-11D-2340-08	36927789	197898303	51352318	5	43281											
OR2W5	441932	broad.mit.edu	37	chr1	247654603	247654603	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcaggctccacacaccCatgtacttctttcttgggaa	9	12	8	12	0	3	0	1	0	2	0	4	2	4	1	2	2	1	2	2	2	2	4			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:247654603C>A	uc001icz.1	+	1	174	c.174C>A	c.(172-174)CCC>CCA	p.P58P		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TCCACACACCCATGTACTTCT	0.498													12	46					9.31168e-06	9.56679e-06	1	1	0		A	247654603	A	A	247654603	2	1	63	1	0	0	0	0	0	0	0	1	11053	581	21	5		5	OR2W5	1	247654603	Silent	SNP	C	TCGA-BR-8295-01A-11D-2340-08	49756300	247654603	1596018	6	43282											
OR2L13	284521	broad.mit.edu	37	chr1	248262671	248262671	+	Translation_Start_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcaacagttacagcagaaAgttttcatggagaaatggaa	16	11	9	5	0	2	2	2	0	0	2	2	4	2	3	0	2	3	3	0	2	5	4			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:248262671A>T	uc001ids.2	+	3	331	c.-6A>T	c.(-8--4)AAAGT>AATGT			NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			TACAGCAGAAAGTTTTCATGG	0.259													34	63					0	0	1	0	0		T	248262671	T	T	248262671	1	4	63	1	0	0	0	0	0	0	0	0	11025	87	3	5		5	OR2L13	1	248262671	Translation_Start_Site	SNP	A	TCGA-BR-8295-01A-11D-2340-08	608068	248262671	987950	7	43283											
RAD51AP2	729475	broad.mit.edu	37	chr2	17699573	17699573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctccaggctcctcaagaCagagccgcttgctactaggt	9	8	9	15	1	1	2	1	0	0	2	3	2	3	2	4	2	3	3	4	2	3	3			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr2:17699573C>T	uc002rcl.1	-	1	134	c.110G>A	c.(109-111)TGT>TAT	p.C37Y	RAD51AP2_uc010exn.1_Missense_Mutation_p.C28Y	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	37										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CTCCTCAAGACAGAGCCGCTT	0.612													54	63					0	0	1	0	0		T	17699573	T	T	17699573	3	4	63	1	0	0	0	0	1	0	0	0	13012	478	17	4	3381	4	RAD51AP2	2	17699573	Missense_Mutation	SNP	C	TCGA-BR-8295-01A-11D-2340-08		17699573	225499800	8	43284											
DGUOK	1716	broad.mit.edu	37	chr2	74173903	74173903	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtaccgggagccagcaCgatggtcctacacattccag	10	8	11	12	2	0	1	0	1	0	0	2	3	2	2	4	2	4	2	4	2	2	3	rs104893630		TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr2:74173903C>T	uc002sjx.2	+	3	398	c.313C>T	c.(313-315)CGA>TGA	p.R105*	DGUOK_uc002sjy.2_Nonsense_Mutation_p.R105*|DGUOK_uc002sjz.2_RNA	NM_080916	NP_550438	Q16854	DGUOK_HUMAN	deoxyguanosine kinase isoform a precursor	105					guanosine metabolic process|purine base metabolic process|purine deoxyribonucleoside metabolic process|purine-containing compound salvage	mitochondrial matrix	ATP binding|deoxyguanosine kinase activity|phosphotransferase activity, alcohol group as acceptor				0						GGAGCCAGCACGATGGTCCTA	0.478													22	54					0	0	1	0	0		T	74173903	T	T	74173903	4	4	63	1	0	0	0	0	0	1	0	0	4481	528	19	1	323	1	DGUOK	2	74173903	Nonsense_Mutation	SNP	C	TCGA-BR-8295-01A-11D-2340-08	56474330	74173903	169025470	9	43285											
ZAP70	7535	broad.mit.edu	37	chr2	98351812	98351812	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatcatgcaccagctggaCaacccctacatcgtgcggct	10	7	9	15	2	1	1	1	0	0	1	2	2	1	2	3	2	5	3	3	2	2	1			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr2:98351812C>T	uc002syd.1	+	10	1389	c.1182C>T	c.(1180-1182)GAC>GAT	p.D394D	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Silent_p.D284D|ZAP70_uc002syf.1_Silent_p.D87D	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	394	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						ACCAGCTGGACAACCCCTACA	0.632													32	70					0	0	1	0	0		T	98351812	T	T	98351812	2	4	63	1	0	0	0	0	0	0	0	1	17540	477	17	4		4	ZAP70	2	98351812	Silent	SNP	C	TCGA-BR-8295-01A-11D-2340-08	24177909	98351812	144847561	10	43286											
OBFC2A	64859	broad.mit.edu	37	chr2	192543750	192543750	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	accaaagacggccatgaagtGagatcgtgcaaagtagcaga	16	5	12	8	2	0	4	0	2	0	3	1	5	0	4	2	1	2	3	2	1	4	1			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr2:192543750G>C	uc002usx.2	+	2	606	c.126G>C	c.(124-126)GTG>GTC	p.V42V	OBFC2A_uc002usw.2_5'UTR|OBFC2A_uc002usy.2_RNA|OBFC2A_uc002usz.2_RNA|OBFC2A_uc002uta.2_5'UTR	NM_001031716	NP_001026886	Q96AH0	SOSB2_HUMAN	oligonucleotide/oligosaccharide-binding fold	42	OB.				double-strand break repair via homologous recombination|G2/M transition checkpoint|response to ionizing radiation	SOSS complex	single-stranded DNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.061)|Epithelial(96;0.244)			GCCATGAAGTGAGATCGTGCA	0.463													16	50					0	0	1	0	0		C	192543750	C	C	192543750	2	2	63	1	0	0	0	0	0	0	0	1	10827	1277	45	5		5	OBFC2A	2	192543750	Silent	SNP	G	TCGA-BR-8295-01A-11D-2340-08	94191938	192543750	50655623	11	43287											
ERBB4	2066	broad.mit.edu	37	chr2	212566719	212566719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcagcttttctgttgtcccGgattactattctctggttga	5	19	8	9	1	3	1	1	1	2	0	5	2	4	2	1	2	2	3	1	2	2	8			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr2:212566719G>A	uc002veg.1	-	12	1560	c.1462C>T	c.(1462-1464)CGG>TGG	p.R488W	ERBB4_uc002veh.1_Missense_Mutation_p.R488W|ERBB4_uc010zji.1_Missense_Mutation_p.R488W|ERBB4_uc010zjj.1_Missense_Mutation_p.R488W|ERBB4_uc010fut.1_Missense_Mutation_p.R488W	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	488	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CTGTTGTCCCGGATTACTATT	0.343										TSP Lung(8;0.080)			26	88					0	0	1	0	0		A	212566719	A	A	212566719	3	1	63	1	0	0	0	0	1	0	0	0	5217	1115	39	1	2532	1	ERBB4	2	212566719	Missense_Mutation	SNP	G	TCGA-BR-8295-01A-11D-2340-08	20022969	212566719	30632654	12	43288											
SPHKAP	80309	broad.mit.edu	37	chr2	228882483	228882483	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgacagaatctgggacatcTtcaaggttcatggactcatc	11	12	9	9	0	5	2	3	1	2	1	6	4	5	4	0	3	0	1	0	3	2	3			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr2:228882483T>A	uc002vpq.2	-	7	3134	c.3087A>T	c.(3085-3087)GAA>GAT	p.E1029D	SPHKAP_uc002vpp.2_Missense_Mutation_p.E1029D|SPHKAP_uc010zlx.1_Missense_Mutation_p.E1029D	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1029						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CTGGGACATCTTCAAGGTTCA	0.512													35	71					0	0	1	0	0		A	228882483	A	A	228882483	3	1	63	1	0	0	0	0	1	0	0	0	15073	1606	56	5	2039	5	SPHKAP	2	228882483	Missense_Mutation	SNP	T	TCGA-BR-8295-01A-11D-2340-08	16315764	228882483	14316890	13	43289											
KCNH8	131096	broad.mit.edu	37	chr3	19498281	19498281	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaggggatttaattggagCaaatctatcaattaaggacc	16	10	10	5	0	2	0	1	0	1	0	2	4	2	3	1	4	1	1	1	4	6	5			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr3:19498281C>G	uc003cbk.1	+	11	2042	c.1847C>G	c.(1846-1848)GCA>GGA	p.A616G	KCNH8_uc010hex.1_Missense_Mutation_p.A77G	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	616	cNMP.|Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						TTAATTGGAGCAAATCTATCA	0.378													13	60					0	0	1	0	0		G	19498281	G	G	19498281	3	3	63	1	0	0	0	0	1	0	0	0	8054	710	25	5	1889	5	KCNH8	3	19498281	Missense_Mutation	SNP	C	TCGA-BR-8295-01A-11D-2340-08		19498281	178524149	14	43290											
PHLDB2	90102	broad.mit.edu	37	chr3	111603422	111603422	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatgtctactctcttggaggGctggaaggtcggaaggcatc	9	10	14	8	1	2	0	0	0	2	0	5	3	2	3	0	6	1	2	0	6	4	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr3:111603422G>A	uc010hqa.2	+	2	909	c.498G>A	c.(496-498)GGG>GGA	p.G166G	PHLDB2_uc003dyc.2_Silent_p.G193G|PHLDB2_uc003dyd.2_Silent_p.G166G|PHLDB2_uc003dyg.2_Silent_p.G166G|PHLDB2_uc003dyh.2_Silent_p.G166G|PHLDB2_uc003dye.3_Silent_p.G166G|PHLDB2_uc003dyf.3_Silent_p.G166G	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	166						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						CTCTTGGAGGGCTGGAAGGTC	0.557													19	63					0	0	1	0	0		A	111603422	A	A	111603422	2	1	63	1	0	0	0	0	0	0	0	1	11871	1190	42	2		2	PHLDB2	3	111603422	Silent	SNP	G	TCGA-BR-8295-01A-11D-2340-08	92105141	111603422	86419008	15	43291											
ZBTB38	253461	broad.mit.edu	37	chr3	141161650	141161650	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgtattctgtattactgaAaagggagtggttaaagaaga	15	13	11	2	0	1	3	0	1	1	2	1	4	1	4	0	2	1	3	0	2	9	6			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr3:141161650A>G	uc003etw.2	+	8	1402	c.420A>G	c.(418-420)GAA>GAG	p.E140E	ZBTB38_uc010hun.2_Silent_p.E137E|ZBTB38_uc010huo.2_Silent_p.E140E|ZBTB38_uc003ety.2_Silent_p.E140E|ZBTB38_uc010hup.2_Silent_p.E141E	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	140					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						GTATTACTGAAAAGGGAGTGG	0.418													52	36					0	0	1	0	0		G	141161650	G	G	141161650	2	3	63	1	0	0	0	0	0	0	0	1	17564	11	1	3		3	ZBTB38	3	141161650	Silent	SNP	A	TCGA-BR-8295-01A-11D-2340-08	29558228	141161650	56860780	16	43292											
AGTR1	185	broad.mit.edu	37	chr3	148459062	148459062	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacttatgctttttactgacTttgccactatgggctgtcta	7	17	8	9	0	1	1	0	1	1	0	1	2	1	1	1	1	3	2	1	1	4	7			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr3:148459062T>G	uc003ewg.2	+	4	686	c.240T>G	c.(238-240)ACT>ACG	p.T80T	AGTR1_uc003ewh.2_Silent_p.T80T|AGTR1_uc003ewi.2_Silent_p.T80T|AGTR1_uc003ewj.2_Silent_p.T80T|AGTR1_uc003ewk.2_Silent_p.T80T	NM_031850	NP_114038	P30556	AGTR1_HUMAN	angiotensin II receptor, type 1	80	Helical; Name=2; (Potential).				calcium-mediated signaling|cell chemotaxis|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|kidney development|low-density lipoprotein particle remodeling|positive regulation of cellular protein metabolic process|positive regulation of cholesterol esterification|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of phospholipase A2 activity|positive regulation of reactive oxygen species metabolic process|regulation of cell growth|regulation of cell proliferation|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|Rho protein signal transduction		acetyltransferase activator activity|angiotensin type I receptor activity|angiotensin type II receptor activity|bradykinin receptor binding|protein heterodimerization activity				0			LUSC - Lung squamous cell carcinoma(72;0.127)|Lung(72;0.152)		Candesartan(DB00796)|Eprosartan(DB00876)|Forasartan(DB01342)|Irbesartan(DB01029)|Losartan(DB00678)|Olmesartan(DB00275)|Saprisartan(DB01347)|Spironolactone(DB00421)|Tasosartan(DB01349)|Telmisartan(DB00966)|Valsartan(DB00177)	TTTTACTGACTTTGCCACTAT	0.433													22	42					0	0	1	0	0		G	148459062	G	G	148459062	2	3	63	1	0	0	0	0	0	0	0	1	401	1596	56	5		5	AGTR1	3	148459062	Silent	SNP	T	TCGA-BR-8295-01A-11D-2340-08	7297412	148459062	49563368	17	43293											
SERPINI2	5276	broad.mit.edu	37	chr3	167189651	167189651	+	Translation_Start_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgtattgtttaaatcaaAatatattcattttcaaaata	16	18	2	5	0	4	0	3	0	1	0	4	0	4	0	0	0	0	2	0	0	10	10			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr3:167189651A>C	uc003fer.1	-	1	30	c.-28T>G	c.(-30--26)ATTTT>ATGTT		SERPINI2_uc003fes.1_Intron|SERPINI2_uc003fet.1_Intron	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),						cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						TTTAAATCAAAATATATTCAT	0.343													51	46					0	0	1	0	0		C	167189651	C	C	167189651	1	2	63	1	0	0	0	0	0	0	0	0	14144	29	1	5		5	SERPINI2	3	167189651	Translation_Start_Site	SNP	A	TCGA-BR-8295-01A-11D-2340-08	18730589	167189651	30832779	18	43294											
TLR6	10333	broad.mit.edu	37	chr4	38829331	38829331	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggtggcaccgatggtgacGatcagcagagttatgttgca	10	10	14	7	2	1	2	1	1	0	1	1	4	1	2	1	3	2	5	1	3	1	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr4:38829331G>A	uc003gtm.2	-	1	1830	c.1764C>T	c.(1762-1764)ATC>ATT	p.I588I	TLR6_uc010ifg.1_Silent_p.I588I	NM_006068	NP_006059	Q9Y2C9	TLR6_HUMAN	toll-like receptor 6 precursor	588	Helical; (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to diacyl bacterial lipopeptide|defense response to bacterium|detection of diacyl bacterial lipopeptide|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-6 biosynthetic process|positive regulation of JUN kinase activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	integral to plasma membrane|phagocytic vesicle membrane	lipopeptide binding|transmembrane receptor activity			ovary(2)	2						CGATGGTGACGATCAGCAGAG	0.493													27	57					0	0	1	0	0		A	38829331	A	A	38829331	2	1	63	1	0	0	0	0	0	0	0	1	15980	1048	37	1		1	TLR6	4	38829331	Silent	SNP	G	TCGA-BR-8295-01A-11D-2340-08		38829331	152324945	19	43295											
PRDM9	56979	broad.mit.edu	37	chr5	23522495	23522495	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacaaagaggtcagcgagccGcaggatgatgattacctctg	12	8	12	9	2	2	3	1	2	1	1	2	5	2	4	2	2	4	1	2	2	3	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr5:23522495G>A	uc003jgo.2	+	7	773	c.591G>A	c.(589-591)CCG>CCA	p.P197P		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	197					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						TCAGCGAGCCGCAGGATGATG	0.443										HNSCC(3;0.000094)			7	69					0	0	1	0	0		A	23522495	A	A	23522495	2	1	63	1	0	0	0	0	0	0	0	1	12485	1074	38	1		1	PRDM9	5	23522495	Silent	SNP	G	TCGA-BR-8295-01A-11D-2340-08		23522495	157392765	20	43296											
OCLN	4950	broad.mit.edu	37	chr5	68809860	68809860	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaactcgaagaaagatggAcaggtatgacaagtccaata	19	6	10	6	1	0	3	0	1	0	2	2	6	1	4	1	2	1	1	1	2	8	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr5:68809860A>G	uc003jwu.2	+	4	1251	c.815A>G	c.(814-816)GAC>GGC	p.D272G	OCLN_uc003jwv.3_Missense_Mutation_p.D272G	NM_002538	NP_002529			occludin												0		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		AGAAAGATGGACAGGTATGAC	0.393													10	24					0	0	1	0	0		G	68809860	G	G	68809860	3	3	63	1	0	0	0	0	1	0	0	0	10839	275	10	3	825	3	OCLN	5	68809860	Missense_Mutation	SNP	A	TCGA-BR-8295-01A-11D-2340-08	45287365	68809860	112105400	21	43297											
PCDHA12	56137	broad.mit.edu	37	chr5	140257093	140257093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggccaggccccaaagacgtCgtcgcgggcctcagtgggcg	6	4	16	15	6	1	1	1	0	0	1	3	1	1	1	4	4	0	0	4	4	1	0			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr5:140257093C>T	uc003lic.2	+	1	2163	c.2036C>T	c.(2035-2037)TCG>TTG	p.S679L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.S679L	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	679	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAAAGACGTCGTCGCGGGCC	0.657													17	6					0	0	1	0	0		T	140257093	T	T	140257093	3	4	63	1	0	0	0	0	1	0	0	0	11541	893	31	1	2038	1	PCDHA12	5	140257093	Missense_Mutation	SNP	C	TCGA-BR-8295-01A-11D-2340-08	71447233	140257093	40658167	22	43298											
NQO2	4835	broad.mit.edu	37	chr6	3017158	3017158	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtaaccacgggaggcacggCcgagatgtacacgaagacag	13	3	14	11	5	0	2	0	0	0	2	0	5	0	3	2	3	2	3	2	3	3	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr6:3017158C>G	uc003mus.2	+	6	796	c.458C>G	c.(457-459)GCC>GGC	p.A153G	NQO2_uc003mut.2_Missense_Mutation_p.A153G	NM_000904	NP_000895	P16083	NQO2_HUMAN	NAD(P)H dehydrogenase, quinone 2	153						cytoplasm|nucleus	coenzyme binding|dihydronicotinamide riboside quinone reductase activity|electron carrier activity|metal ion binding|NADPH dehydrogenase (quinone) activity			ovary(1)	1	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Menadione(DB00170)|NADH(DB00157)	GGAGGCACGGCCGAGATGTAC	0.527													5	17					0	0	1	0	0		G	3017158	G	G	3017158	3	3	63	1	0	0	0	0	1	0	0	0	10631	739	26	5	476	5	NQO2	6	3017158	Missense_Mutation	SNP	C	TCGA-BR-8295-01A-11D-2340-08		3017158	168097909	23	43299											
LRRC1	55227	broad.mit.edu	37	chr6	53764636	53764636	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcagtggcctgacttcatTaacggatttagtcatttccc	10	14	7	10	1	3	1	3	1	0	0	4	2	4	2	2	2	1	0	2	2	3	5			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr6:53764636T>A	uc003pcd.1	+	8	1011	c.734T>A	c.(733-735)TTA>TAA	p.L245*		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	245	LRR 11.					cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		CTGACTTCATTAACGGATTTA	0.403													17	64					0	0	1	0	0		A	53764636	A	A	53764636	4	1	63	1	0	0	0	0	0	1	0	0	8984	1764	61	5	764	5	LRRC1	6	53764636	Nonsense_Mutation	SNP	T	TCGA-BR-8295-01A-11D-2340-08	50747478	53764636	117350431	24	43300											
FAM46A	55603	broad.mit.edu	37	chr6	82461589	82461589	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggctgcagctcgagcgtgggGaagttgccgcgcccgtgaat	6	7	17	11	5	0	1	0	1	0	0	1	3	0	2	2	3	4	4	2	3	2	1			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr6:82461589G>T	uc003pjg.2	-	2	588	c.270C>A	c.(268-270)TTC>TTA	p.F90L	FAM46A_uc003pjf.2_Missense_Mutation_p.F109L|FAM46A_uc003pjh.1_Missense_Mutation_p.F90L	NM_017633	NP_060103	Q96IP4	FA46A_HUMAN	hypothetical protein LOC55603	90											0		all_cancers(76;6.74e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000282)|all_epithelial(107;0.0104)		BRCA - Breast invasive adenocarcinoma(397;0.0428)		CGAGCGTGGGGAAGTTGCCGC	0.667													14	34					4.7546e-09	4.95271e-09	1	1	0		T	82461589	T	T	82461589	3	4	63	1	0	0	0	0	1	0	0	0	5579	1165	41	5	1066	5	FAM46A	6	82461589	Missense_Mutation	SNP	G	TCGA-BR-8295-01A-11D-2340-08	28696953	82461589	88653478	25	43301											
MIOS	54468	broad.mit.edu	37	chr7	7612723	7612723	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccttgctggtatgcatcGtaacctagctatatttgatc	8	16	7	10	1	1	1	0	1	1	0	4	1	1	1	2	1	4	5	2	1	5	7			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr7:7612723G>C	uc003srf.2	+	4	925	c.617G>C	c.(616-618)CGT>CCT	p.R206P	MIOS_uc010ktp.1_Missense_Mutation_p.R206P	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	206	WD 3.										0						GGTATGCATCGTAACCTAGCT	0.413													12	53					0	0	1	0	0		C	7612723	C	C	7612723	3	2	63	1	0	0	0	0	1	0	0	0	9607	1145	40	5	619	5	MIOS	7	7612723	Missense_Mutation	SNP	G	TCGA-BR-8295-01A-11D-2340-08		7612723	151525940	26	43302											
WBSCR17	64409	broad.mit.edu	37	chr7	70800605	70800605	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggggccttccggctactcTttccccggctgaagaagaaa	9	8	12	12	2	1	3	0	1	1	2	3	3	3	3	4	4	1	2	4	4	4	3			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr7:70800605T>C	uc003tvy.2	+	2	308	c.308T>C	c.(307-309)CTT>CCT	p.L103P	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	103	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				CCGGCTACTCTTTCCCCGGCT	0.463													35	32					0	0	1	0	0		C	70800605	C	C	70800605	3	2	63	1	0	0	0	0	1	0	0	0	17290	1609	56	3	314	3	WBSCR17	7	70800605	Missense_Mutation	SNP	T	TCGA-BR-8295-01A-11D-2340-08	63187882	70800605	88338058	27	43303											
CAV2	858	broad.mit.edu	37	chr7	116140362	116140365	+	Frame_Shift_Del	DEL	GACA	-	-																															cggtgactacgcactcctttGacaaagtgtggatctgcagc																										TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr7:116140362_116140365delGACA	uc003vid.2	+	2	591_594	c.199_202delGACA	c.(199-204)GACAAAfs	p.D67fs	CAV2_uc003vhv.2_Intron|CAV2_uc003vhw.2_Intron|CAV2_uc003vhx.2_Intron|CAV2_uc010lkb.1_Intron|CAV2_uc010lkc.2_RNA|CAV2_uc003vib.2_Intron|CAV2_uc003vhz.2_RNA|CAV2_uc003via.2_RNA|CAV1_uc010lkd.1_Intron|CAV1_uc010lke.1_Intron|CAV2_uc003vie.2_Intron	NM_001233	NP_001224	P51636	CAV2_HUMAN	caveolin 2 isoform a and b	67_68	Cytoplasmic (Potential).				caveola assembly|endoplasmic reticulum organization|mitochondrion organization|negative regulation of endothelial cell proliferation|positive regulation of dopamine receptor signaling pathway|regulation of mitosis|skeletal muscle fiber development|vesicle docking|vesicle fusion	caveola|extrinsic to internal side of plasma membrane|Golgi membrane|integral to plasma membrane|membrane fraction|nucleus|perinuclear region of cytoplasm|transport vesicle	D1 dopamine receptor binding|protein homodimerization activity				0	all_epithelial(6;1.53e-06)|Lung NSC(10;0.00592)|all_lung(10;0.00642)		STAD - Stomach adenocarcinoma(10;0.00878)			GCACTCCTTTGACAAAGTGTGGAT	0.569													48	48	---	---	---	---						.	-	116140365	-	-	116140362	7	5	63	1	0	1	0	1	0	0	0	0	2697	1290	45	0	205	0	CAV2	7	116140362	Frame_Shift_Del	DEL	GACA	TCGA-BR-8295-01A-11D-2340-08	45339757	116140362	42998301	28	43304											
CFTR	1080	broad.mit.edu	37	chr7	117267653	117267653	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaagtcaaccaaaccataCaagaatggccaactctcgaa	18	5	5	13	1	2	1	1	0	1	1	3	2	2	1	4	1	4	0	4	1	8	1			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr7:117267653C>T	uc003vjd.2	+	22	3678	c.3546C>T	c.(3544-3546)TAC>TAT	p.Y1182Y	CFTR_uc011knq.1_Silent_p.Y588Y	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	1182	Cytoplasmic (Potential).				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	CCAAACCATACAAGAATGGCC	0.403									Cystic_Fibrosis				8	37					0	0	1	0	0		T	117267653	T	T	117267653	2	4	63	1	0	0	0	0	0	0	0	1	3297	489	17	4		4	CFTR	7	117267653	Silent	SNP	C	TCGA-BR-8295-01A-11D-2340-08	1127291	117267653	41871010	29	43305											
CNTNAP2	26047	broad.mit.edu	37	chr7	146536859	146536859	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaatggcttcaggttgacTttggcaatcggaagcagatc	11	11	11	8	1	2	2	2	1	0	1	4	3	2	3	0	4	1	4	0	4	3	3			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr7:146536859T>G	uc003weu.1	+	3	781	c.265T>G	c.(265-267)TTT>GTT	p.F89V		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	89	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TCAGGTTGACTTTGGCAATCG	0.488										HNSCC(39;0.1)			10	39					0	0	1	0	0		G	146536859	G	G	146536859	3	3	63	1	0	0	0	0	1	0	0	0	3650	1609	56	5	275	5	CNTNAP2	7	146536859	Missense_Mutation	SNP	T	TCGA-BR-8295-01A-11D-2340-08	29269206	146536859	12601804	30	43306											
ERLIN2	11160	broad.mit.edu	37	chr8	37611483	37611483	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaagtacaaggccattgcTtccaacagcaagatttactt	14	11	7	9	0	0	2	0	1	0	1	1	2	1	2	2	1	5	3	2	1	6	6			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr8:37611483T>A	uc003xke.3	+	12	985	c.870T>A	c.(868-870)GCT>GCA	p.A290A		NM_007175	NP_009106	O94905	ERLN2_HUMAN	ER lipid raft associated 2 isoform 1	290	Interaction with ERLIN1.|Lumenal (Potential).				ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	protein binding				0		Lung NSC(58;0.174)	BRCA - Breast invasive adenocarcinoma(5;6.14e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			AGGCCATTGCTTCCAACAGCA	0.418													17	36					0	0	1	0	0		A	37611483	A	A	37611483	2	1	63	1	0	0	0	0	0	0	0	1	5241	1596	56	5		5	ERLIN2	8	37611483	Silent	SNP	T	TCGA-BR-8295-01A-11D-2340-08		37611483	108752539	31	43307											
LAMC3	10319	broad.mit.edu	37	chr9	133901754	133901754	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatctacaagcgcagccgCgccgacggcccatgggagcc	8	3	13	17	5	1	0	0	0	1	0	1	2	1	1	5	2	4	1	5	2	2	1			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr9:133901754C>T	uc004caa.1	+	2	554	c.456C>T	c.(454-456)CGC>CGT	p.R152R		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	152	Laminin N-terminal.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		AGCGCAGCCGCGCCGACGGCC	0.642													38	21					0	0	1	0	0		T	133901754	T	T	133901754	2	4	63	1	0	0	0	0	0	0	0	1	8632	755	27	1		1	LAMC3	9	133901754	Silent	SNP	C	TCGA-BR-8295-01A-11D-2340-08		133901754	7311677	32	43308											
DMBT1	1755	broad.mit.edu	37	chr10	124377716	124377716	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagccccaggaaatgcccAgtttggccagggctcaggac	9	6	13	13	0	2	0	2	0	0	0	2	2	2	2	4	4	2	2	4	4	1	1			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr10:124377716A>G	uc001lgk.1	+	38	4794	c.4688A>G	c.(4687-4689)CAG>CGG	p.Q1563R	DMBT1_uc001lgl.1_Missense_Mutation_p.Q1553R|DMBT1_uc001lgm.1_Missense_Mutation_p.Q935R|DMBT1_uc009xzz.1_Missense_Mutation_p.Q1563R|DMBT1_uc010qtx.1_Missense_Mutation_p.Q414R|DMBT1_uc009yab.1_Missense_Mutation_p.Q266R|DMBT1_uc009yac.1_5'Flank	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1563	SRCR 12.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				GGAAATGCCCAGTTTGGCCAG	0.612													53	162					0	0	1	0	0		G	124377716	G	G	124377716	3	3	63	1	0	0	0	0	1	0	0	0	4583	188	7	3	4838	3	DMBT1	10	124377716	Missense_Mutation	SNP	A	TCGA-BR-8295-01A-11D-2340-08		124377716	11157031	33	43309											
MRVI1	10335	broad.mit.edu	37	chr11	10650316	10650316	+	Frame_Shift_Del	DEL	T	-	-																															acctggcggggtggggactgTaagtgagttgctccgagagg																										TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr11:10650316delT	uc010rcc.1	-	6	1020	c.634delA	c.(634-636)ACAfs	p.T212fs	MRVI1_uc001miw.2_Frame_Shift_Del_p.T203fs|MRVI1_uc010rcb.1_Frame_Shift_Del_p.T203fs|MRVI1_uc009ygb.1_5'UTR|MRVI1_uc001mix.2_5'UTR|MRVI1_uc001miz.2_Frame_Shift_Del_p.T121fs|MRVI1_uc009ygc.1_Frame_Shift_Del_p.T121fs|MRVI1_uc010rcd.1_Frame_Shift_Del_p.T212fs|MRVI1_uc009ygd.1_5'UTR|MRVI1_uc010rce.1_RNA	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	203					platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum				ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		GTGGGGACTGTAAGTGAGTTG	0.607													2	4	---	---	---	---						.	-	10650316	-	-	10650316	7	5	63	1	0	1	0	1	0	0	0	0	9871	1638	57	0	2168	0	MRVI1	11	10650316	Frame_Shift_Del	DEL	T	TCGA-BR-8295-01A-11D-2340-08		10650316	124356200	34	43310											
OR4A47	403253	broad.mit.edu	37	chr11	48510989	48510989	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctgctcttactcatctcTtatggtgtcatcttgcactc	5	19	5	12	0	6	0	2	0	4	0	8	0	6	0	0	1	3	2	0	1	2	4			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr11:48510989T>C	uc010rhx.1	+	1	645	c.645T>C	c.(643-645)TCT>TCC	p.S215S		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TACTCATCTCTTATGGTGTCA	0.463													25	69					0	0	1	0	0		C	48510989	C	C	48510989	2	2	63	1	0	0	0	0	0	0	0	1	11061	1596	56	3		3	OR4A47	11	48510989	Silent	SNP	T	TCGA-BR-8295-01A-11D-2340-08	37860673	48510989	86495527	35	43311											
OR5M3	219482	broad.mit.edu	37	chr11	56237826	56237826	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggttgttaagctgaggacTgaccttgattaacaccatca	11	11	11	8	0	1	3	1	3	0	0	1	4	1	4	2	3	2	3	2	3	2	4			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr11:56237826T>C	uc010rjk.1	-	1	148	c.148A>G	c.(148-150)AGT>GGT	p.S50G		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	50	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AGCTGAGGACTGACCTTGATT	0.433													26	82					0	0	1	0	0		C	56237826	C	C	56237826	3	2	63	1	0	0	0	0	1	0	0	0	11194	1580	55	3	777	3	OR5M3	11	56237826	Missense_Mutation	SNP	T	TCGA-BR-8295-01A-11D-2340-08	7726837	56237826	78768690	36	43312											
LRRK2	120892	broad.mit.edu	37	chr12	40692056	40692056	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttttcagactctgaagagTttgacacatttggacttgca	10	15	8	8	0	3	4	1	2	2	2	3	5	3	5	0	1	1	2	0	1	1	5			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr12:40692056T>G	uc001rmg.3	+	24	3229	c.3108T>G	c.(3106-3108)AGT>AGG	p.S1036R	LRRK2_uc001rmh.1_Missense_Mutation_p.S658R|LRRK2_uc009zjw.2_5'UTR	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1036	LRR 3.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CTCTGAAGAGTTTGACACATT	0.333													15	24					0	0	1	0	0		G	40692056	G	G	40692056	3	3	63	1	0	0	0	0	1	0	0	0	9051	1722	60	5	3202	5	LRRK2	12	40692056	Missense_Mutation	SNP	T	TCGA-BR-8295-01A-11D-2340-08		40692056	93159839	37	43313											
C12orf66	144577	broad.mit.edu	37	chr12	64587772	64587772	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtaaagtgaggttccgggcgGgttaggaagtaggtactctg	9	10	17	5	2	1	1	0	1	1	0	2	2	2	2	1	5	1	5	1	5	6	5			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr12:64587772G>C	uc001srw.3	-	3	1247	c.1188C>G	c.(1186-1188)ACC>ACG	p.T396T	C12orf66_uc009zql.2_Silent_p.T343T	NM_152440	NP_689653	Q96MD2	CL066_HUMAN	hypothetical protein LOC144577	396										ovary(1)	1						GTTCCGGGCGGGTTAGGAAGT	0.448													8	146					0	0	1	0	0		C	64587772	C	C	64587772	2	2	63	1	0	0	0	0	0	0	0	1	1712	1219	43	5		5	C12orf66	12	64587772	Silent	SNP	G	TCGA-BR-8295-01A-11D-2340-08	23895716	64587772	69264123	38	43314											
PLBD2	196463	broad.mit.edu	37	chr12	113812717	113812717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctgctccctggccagaGtgacctcctggttgcccaca	7	8	10	16	0	0	2	0	1	0	1	2	2	2	2	5	2	3	3	5	2	1	1			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr12:113812717G>A	uc001tve.2	+	5	799	c.764G>A	c.(763-765)AGT>AAT	p.S255N	PLBD2_uc001tvf.2_Missense_Mutation_p.S255N	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	255					lipid catabolic process	lysosomal lumen	hydrolase activity				0						CCTGGCCAGAGTGACCTCCTG	0.582													24	47					0	0	1	0	0		A	113812717	A	A	113812717	3	1	63	1	0	0	0	0	1	0	0	0	12045	1029	36	4	782	4	PLBD2	12	113812717	Missense_Mutation	SNP	G	TCGA-BR-8295-01A-11D-2340-08	49224945	113812717	20039178	39	43315											
GCN1L1	10985	broad.mit.edu	37	chr12	120575538	120575538	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcagggctgcgggtggcCtccagcagatactcgatgat	8	8	13	12	2	1	2	1	1	0	1	3	3	2	2	3	3	3	2	3	3	1	1			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr12:120575538C>G	uc001txo.2	-	49	6487	c.6474G>C	c.(6472-6474)GAG>GAC	p.E2158D		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	2158					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGCGGGTGGCCTCCAGCAGAT	0.572													12	37					0	0	1	0	0		G	120575538	G	G	120575538	3	3	63	1	0	0	0	0	1	0	0	0	6314	680	24	5	1581	5	GCN1L1	12	120575538	Missense_Mutation	SNP	C	TCGA-BR-8295-01A-11D-2340-08	6762821	120575538	13276357	40	43316											
RIMBP2	23504	broad.mit.edu	37	chr12	130898838	130898838	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtctggagaaaggcggtcTcgcccgtaatcgtctgcgag	9	8	14	10	5	3	1	0	0	3	1	5	3	3	1	1	3	1	1	1	3	3	1			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr12:130898838T>C	uc001uil.2	-	14	2648	c.2484A>G	c.(2482-2484)CGA>CGG	p.R828R		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	828						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		AAAGGCGGTCTCGCCCGTAAT	0.572													18	35					0	0	1	0	0		C	130898838	C	C	130898838	2	2	63	1	0	0	0	0	0	0	0	1	13388	1538	54	3		3	RIMBP2	12	130898838	Silent	SNP	T	TCGA-BR-8295-01A-11D-2340-08	10323300	130898838	2953057	41	43317											
C14orf145	145508	broad.mit.edu	37	chr14	81251532	81251532	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctgctcggatggcactcaGgtccttgatggactcttgca	7	12	11	11	1	3	1	1	1	2	0	5	3	4	3	1	4	2	3	1	4	0	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr14:81251532G>C	uc001xux.2	-	14	2089	c.1918C>G	c.(1918-1920)CTG>GTG	p.L640V	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	640	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		ATGGCACTCAGGTCCTTGATG	0.478													23	97					0	0	1	0	0		C	81251532	C	C	81251532	3	2	63	1	0	0	0	0	1	0	0	0	1752	991	35	5	1410	5	C14orf145	14	81251532	Missense_Mutation	SNP	G	TCGA-BR-8295-01A-11D-2340-08		81251532	26098008	42	43318											
C15orf26	161502	broad.mit.edu	37	chr15	81428957	81428957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagctgatgtgtttctgcGtggggacctgagcctgtgta	7	12	15	7	1	1	3	0	2	1	1	1	4	1	4	2	2	3	3	2	2	2	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr15:81428957G>A	uc002bgb.2	+	3	287	c.260G>A	c.(259-261)CGT>CAT	p.R87H	C15orf26_uc010blp.1_Missense_Mutation_p.R62H	NM_173528	NP_775799	Q6P656	CO026_HUMAN	hypothetical protein LOC161502	87											0						GTGTTTCTGCGTGGGGACCTG	0.473													16	47					0	0	1	0	0		A	81428957	A	A	81428957	3	1	63	1	0	0	0	0	1	0	0	0	1790	1145	40	1	270	1	C15orf26	15	81428957	Missense_Mutation	SNP	G	TCGA-BR-8295-01A-11D-2340-08		81428957	21102435	43	43319											
RANBP10	57610	broad.mit.edu	37	chr16	67763622	67763622	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	actactggggccatgtcgggGactgaggctgggggagccag	7	6	19	9	1	0	1	0	1	0	0	1	3	0	3	2	7	2	1	2	7	1	1	rs142221372		TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr16:67763622G>C	uc002eud.2	-	9	1224	c.1108C>G	c.(1108-1110)CCC>GCC	p.P370A	RANBP10_uc010ceo.2_Missense_Mutation_p.P141A|RANBP10_uc010vju.1_Missense_Mutation_p.P314A|RANBP10_uc010vjv.1_Missense_Mutation_p.P253A|RANBP10_uc010vjw.1_Missense_Mutation_p.P31A	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	370	Ser-rich.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		CCATGTCGGGGACTGAGGCTG	0.602													12	26					0	0	1	0	0		C	67763622	C	C	67763622	3	2	63	1	0	0	0	0	1	0	0	0	13051	1174	41	5	778	5	RANBP10	16	67763622	Missense_Mutation	SNP	G	TCGA-BR-8295-01A-11D-2340-08		67763622	22591131	44	43320											
TP53	7157	broad.mit.edu	37	chr17	7577554	7577562	+	In_Frame_Del	DEL	TGCAGGAAC	-	-																															cctccggttcatgccgcccaTgcaggaactgttacacatgt																								rs121912655		TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr17:7577554_7577562delTGCAGGAAC	uc002gim.2	-	7	913_921	c.719_727delGTTCCTGCA	c.(718-729)AGTTCCTGCATG>ATG	p.SSC240del	TP53_uc002gig.1_In_Frame_Del_p.SSC240del|TP53_uc002gih.2_In_Frame_Del_p.SSC240del|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_In_Frame_Del_p.SSC108del|TP53_uc010cng.1_In_Frame_Del_p.SSC108del|TP53_uc002gii.1_In_Frame_Del_p.SSC108del|TP53_uc010cnh.1_In_Frame_Del_p.SSC240del|TP53_uc010cni.1_In_Frame_Del_p.SSC240del|TP53_uc002gij.2_In_Frame_Del_p.SSC240del|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_In_Frame_Del_p.SSC147del|TP53_uc002gio.2_In_Frame_Del_p.SSC108del	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	240_242	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).	Zinc.	C -> F (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.S241F(73)|p.C242F(63)|p.C242Y(37)|p.C242S(25)|p.S241C(24)|p.C242fs*5(16)|p.S240G(14)|p.C242R(11)|p.M243L(10)|p.S240R(8)|p.S241fs*6(8)|p.C242W(7)|p.0?(7)|p.S241Y(7)|p.S240I(6)|p.S241A(6)|p.S241del(5)|p.S241T(5)|p.N239_C242delNSSC(3)|p.M243V(3)|p.C242*(3)|p.S241S(3)|p.S240C(3)|p.S241P(3)|p.N239_S240insX(2)|p.S240S(2)|p.S240T(2)|p.C242C(2)|p.C242G(2)|p.S240fs*7(2)|p.N239_S240delNS(2)|p.S241fs*22(2)|p.C242fs*20(1)|p.C242fs*23(1)|p.Y236_M243delYMCNSSCM(1)|p.N239_S240insN(1)|p.V225fs*23(1)|p.N239fs*6(1)|p.C242_M246>L(1)|p.N239fs*4(1)|p.S240>CSC(1)|p.C238_M246delCNSSCMGGM(1)|p.S240P(1)|p.S241_C242insX(1)|p.M243fs*4(1)|p.C238fs*21(1)|p.C242fs*98(1)|p.M243fs*18(1)|p.H233fs*6(1)|p.S241fs*7(1)|p.S240fs*26(1)|p.H233_C242del10(1)|p.N239_C242>S(1)|p.S241fs*23(1)|p.S241_G245delSCMGG(1)|p.S240fs*23(1)|p.N239_C242del(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ATGCCGCCCATGCAGGAACTGTTACACAT	0.579		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			12	23	---	---	---	---						.	-	7577562	-	-	7577554	7	5	63	1	0	1	0	1	0	0	0	0	16407	1464	51	0	563	0	TP53	17	7577554	In_Frame_Del	DEL	TGCAGGAAC	TCGA-BR-8295-01A-11D-2340-08		7577554	73617656	45	43321											
WFIKKN2	124857	broad.mit.edu	37	chr17	48917788	48917788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatgctggcctgcatgaGcgggccgctggccgcgtgca	4	7	16	14	4	0	1	0	1	0	0	0	1	0	1	3	3	5	5	3	3	0	0			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr17:48917788G>A	uc002isv.3	+	2	1833	c.1139G>A	c.(1138-1140)AGC>AAC	p.S380N	WFIKKN2_uc010dbu.2_Missense_Mutation_p.S287N	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	380						extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			GCCTGCATGAGCGGGCCGCTG	0.662													21	18					0	0	1	0	0		A	48917788	A	A	48917788	3	1	63	1	0	0	0	0	1	0	0	0	17385	971	34	2	1145	2	WFIKKN2	17	48917788	Missense_Mutation	SNP	G	TCGA-BR-8295-01A-11D-2340-08	41340234	48917788	32277422	46	43322											
LAMA1	284217	broad.mit.edu	37	chr18	7080363	7080363	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacctggcacatgctccacaAgtttgcagaacatctccggc	10	8	9	14	1	1	1	0	0	1	1	3	2	2	1	3	2	3	4	3	2	2	1			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr18:7080363A>T	uc002knm.2	-	2	249	c.155T>A	c.(154-156)CTT>CAT	p.L52H	LAMA1_uc010wzj.1_Translation_Start_Site	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	52	Laminin N-terminal.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATGCTCCACAAGTTTGCAGAA	0.562													30	41					0	0	1	0	0		T	7080363	T	T	7080363	3	4	63	1	0	0	0	0	1	0	0	0	8621	72	3	5	9320	5	LAMA1	18	7080363	Missense_Mutation	SNP	A	TCGA-BR-8295-01A-11D-2340-08		7080363	70996885	47	43323											
CEP192	55125	broad.mit.edu	37	chr18	13087566	13087566	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataatccatcagacagaggaAtcaataataaaactgcaaca	21	7	5	8	0	2	2	2	0	0	2	3	3	3	3	1	1	3	1	1	1	7	3	rs138701530		TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr18:13087566A>T	uc010xac.1	+	32	5994	c.5914A>T	c.(5914-5916)ATC>TTC	p.I1972F	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.I1497F|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Missense_Mutation_p.I394F|CEP192_uc002krw.2_Missense_Mutation_p.I121F|CEP192_uc002krx.2_5'UTR|CEP192_uc002kry.2_5'Flank	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1972										ovary(4)|pancreas(1)	5						AGACAGAGGAATCAATAATAA	0.284													12	79					0	0	1	0	0		T	13087566	T	T	13087566	3	4	63	1	0	0	0	0	1	0	0	0	3254	101	4	5	6036	5	CEP192	18	13087566	Missense_Mutation	SNP	A	TCGA-BR-8295-01A-11D-2340-08	6007203	13087566	64989682	48	43324											
DOK6	220164	broad.mit.edu	37	chr18	67406320	67406320	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgaaagattaatgctagAaatggaacagaaggcccggg	17	6	12	6	1	0	4	0	1	0	3	0	5	0	5	1	3	2	1	1	3	6	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr18:67406320A>T	uc002lkl.2	+	6	909	c.719A>T	c.(718-720)GAA>GTA	p.E240V		NM_152721	NP_689934	Q6PKX4	DOK6_HUMAN	docking protein 6	240							insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)				TTAATGCTAGAAATGGAACAG	0.458													22	132					0	0	1	0	0		T	67406320	T	T	67406320	3	4	63	1	0	0	0	0	1	0	0	0	4707	246	9	5	741	5	DOK6	18	67406320	Missense_Mutation	SNP	A	TCGA-BR-8295-01A-11D-2340-08	54318754	67406320	10670928	49	43325											
ZNF714	148206	broad.mit.edu	37	chr19	21300801	21300801	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaccttactacacataagaGaattcacactggagagaaac	19	7	6	9	0	1	2	1	0	0	2	1	5	1	3	1	1	4	0	1	1	6	4			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr19:21300801G>C	uc002npo.3	+	6	1694	c.1334G>C	c.(1333-1335)AGA>ACA	p.R445T	ZNF714_uc002npl.2_Missense_Mutation_p.R290T|ZNF714_uc010ecp.1_Missense_Mutation_p.R396T|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	445	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACACATAAGAGAATTCACACT	0.368													17	49					0	0	1	0	0		C	21300801	C	C	21300801	3	2	63	1	0	0	0	0	1	0	0	0	18143	942	33	5	1341	5	ZNF714	19	21300801	Missense_Mutation	SNP	G	TCGA-BR-8295-01A-11D-2340-08		21300801	37828182	50	43326											
PNMAL2	57469	broad.mit.edu	37	chr19	46997109	46997109	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccctgggggccgtgcgCgccctcttggcccggggctt	1	7	17	16	4	1	0	0	0	1	0	1	0	1	0	5	6	1	1	5	6	0	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr19:46997109C>T	uc002pes.2	-	1	2061	c.1614G>A	c.(1612-1614)GCG>GCA	p.A538A	uc002peu.1_5'Flank	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	538										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		GGGCCGTGCGCGCCCTCTTGG	0.761													6	11					0	0	1	0	0		T	46997109	T	T	46997109	2	4	63	1	0	0	0	0	0	0	0	1	12177	755	27	1		1	PNMAL2	19	46997109	Silent	SNP	C	TCGA-BR-8295-01A-11D-2340-08	25696308	46997109	12131874	51	43327											
ZNF324	25799	broad.mit.edu	37	chr19	58982721	58982721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagcggccctacgagtgcGcccagtgcggcaaggccttc	6	5	16	14	4	0	0	0	0	0	0	1	2	0	1	3	4	4	1	3	4	2	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr19:58982721G>A	uc002qsw.1	+	4	956	c.862G>A	c.(862-864)GCC>ACC	p.A288T	ZNF324_uc002qsx.1_Missense_Mutation_p.A65T	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	288	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		CTACGAGTGCGCCCAGTGCGG	0.662													8	24					0	0	1	0	0		A	58982721	A	A	58982721	3	1	63	1	0	0	0	0	1	0	0	0	17869	1087	38	1	872	1	ZNF324	19	58982721	Missense_Mutation	SNP	G	TCGA-BR-8295-01A-11D-2340-08	11985612	58982721	146262	52	43328											
CLDN8	9073	broad.mit.edu	37	chr21	31587611	31587611	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgctcggtgacttctttccGgtgtgataacttttttgggt	5	17	11	8	3	1	2	0	2	1	0	3	2	2	2	1	3	1	1	1	3	1	6			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr21:31587611G>A	uc002ynu.1	-	1	708	c.633C>T	c.(631-633)ACC>ACT	p.T211T		NM_199328	NP_955360	P56748	CLD8_HUMAN	claudin 8	211	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	endoplasmic reticulum|integral to membrane|tight junction	identical protein binding|structural molecule activity				0						ACTTCTTTCCGGTGTGATAAC	0.403													54	102					0	0	1	0	0		A	31587611	A	A	31587611	2	1	63	1	0	0	0	0	0	0	0	1	3494	1103	39	1		1	CLDN8	21	31587611	Silent	SNP	G	TCGA-BR-8295-01A-11D-2340-08		31587611	16542284	53	43329											
RFPL2	10739	broad.mit.edu	37	chr22	32588982	32588982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccagcctctctagctgccGattgcgcctgattttgttct	5	14	9	13	2	2	1	0	1	2	0	3	2	2	1	4	0	5	2	4	0	1	5			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr22:32588982G>A	uc003amg.3	-	4	1399	c.463C>T	c.(463-465)CGG>TGG	p.R155W	RFPL2_uc003ame.3_Missense_Mutation_p.R94W|RFPL2_uc003amf.3_Missense_Mutation_p.R65W|RFPL2_uc003amh.3_Missense_Mutation_p.R65W	NM_001098527	NP_001091997	O75678	RFPL2_HUMAN	ret finger protein-like 2 isoform 2	155							zinc ion binding			skin(1)	1						TCTAGCTGCCGATTGCGCCTG	0.517													41	40					0	0	1	0	0		A	32588982	A	A	32588982	3	1	63	1	0	0	0	0	1	0	0	0	13279	1057	37	1	681	1	RFPL2	22	32588982	Missense_Mutation	SNP	G	TCGA-BR-8295-01A-11D-2340-08		32588982	18715584	54	43330											
MAGEB1	4112	broad.mit.edu	37	chrX	30269583	30269583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccagtgttagagccaggCgtcgcactactgccacgact	9	8	11	13	3	0	1	0	0	0	1	2	3	1	1	3	1	3	2	3	1	2	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chrX:30269583C>T	uc004dcc.2	+	4	1293	c.973C>T	c.(973-975)CGT>TGT	p.R325C	MAGEB1_uc004dcd.2_Missense_Mutation_p.R325C|MAGEB1_uc004dce.2_Missense_Mutation_p.R325C	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	325											0						TAGAGCCAGGCGTCGCACTAC	0.527													17	19					0	0	1	0	0		T	30269583	T	T	30269583	3	4	63	1	0	0	0	0	1	0	0	0	9190	768	27	1	975	1	MAGEB1	23	30269583	Missense_Mutation	SNP	C	TCGA-BR-8295-01A-11D-2340-08		30269583	125000977	55	43331											
WAS	7454	broad.mit.edu	37	chrX	48544341	48544341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctatccacagacagacGccagctacccccaccaccaa	13	4	4	20	1	1	2	0	0	1	2	2	2	2	2	7	0	2	1	7	0	3	2			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chrX:48544341G>A	uc004dkm.3	+	5	527	c.470G>A	c.(469-471)CGC>CAC	p.R157H		NM_000377	NP_000368	P42768	WASP_HUMAN	Wiskott-Aldrich syndrome protein	157					blood coagulation|defense response|epidermis development|immune response|T cell receptor signaling pathway	actin cytoskeleton|cytosol	identical protein binding|small GTPase regulator activity			ovary(1)	1		all_lung(315;1.27e-10)				ACAGACAGACGCCAGCTACCC	0.567			Mis|N|F|S			lymphoma			Wiskott-Aldrich_syndrome				5	9					0	0	1	0	0		A	48544341	A	A	48544341	3	1	63	1	0	0	0	0	1	0	0	0	17277	1087	38	1	488	1	WAS	23	48544341	Missense_Mutation	SNP	G	TCGA-BR-8295-01A-11D-2340-08	18274758	48544341	106726219	56	43332											
TTC4	7268	broad.mit.edu	37	chr1	55186864	55186864	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgttctgctctcaatgatgtGacagctgccagaaagctaaa	12	10	9	10	1	2	3	1	2	2	1	3	3	2	3	1	0	4	4	1	0	4	2			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr1:55186864G>A	uc001cxx.3	+	4	473	c.420G>A	c.(418-420)GTG>GTA	p.V140V	C1orf175_uc001cxq.2_RNA|TTC4_uc001cxw.3_Silent_p.V140V|TTC4_uc001cxv.2_Silent_p.V151V	NM_004623	NP_004614	O95801	TTC4_HUMAN	tetratricopeptide repeat domain 4	140	TPR 2.						binding				0						TCAATGATGTGACAGCTGCCA	0.343													6	52					0	0	0.001168	0	0		A	55186864	A	A	55186864	2	1	64	1	0	0	0	0	0	0	0	1	16736	1277	45	4		4	TTC4	1	55186864	Silent	SNP	G	TCGA-BR-8296-01A-11D-2340-08		55186864	194063757	1	43333											
CFHR1	3078	broad.mit.edu	37	chr1	196799765	196799765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaacttgagggtaacaagcGaataacatgtagaaatggac	17	8	10	6	1	1	2	1	1	0	1	1	4	1	3	0	2	4	2	0	2	7	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr1:196799765G>A	uc001gtn.2	+	5	857	c.743G>A	c.(742-744)CGA>CAA	p.R248Q	CFHR1_uc001gtm.2_Missense_Mutation_p.R152Q	NM_002113	NP_002104	Q03591	FHR1_HUMAN	complement factor H-related 1 precursor	248	Sushi 4.				complement activation	extracellular space					0						GGTAACAAGCGAATAACATGT	0.403													36	93					0	0	0.01441	0	0		A	196799765	A	A	196799765	3	1	64	1	0	0	0	0	1	0	0	0	3287	1058	37	1	761	1	CFHR1	1	196799765	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	141612901	196799765	52450856	2	43334											
TLR5	7100	broad.mit.edu	37	chr1	223285764	223285764	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctatacaagctattagctgCgaggctaaaaaaggagagcg	15	7	12	7	2	0	1	0	0	0	1	0	3	0	1	0	2	5	4	0	2	8	5			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr1:223285764C>A	uc001hnv.1	-	4	1056	c.610G>T	c.(610-612)GCA>TCA	p.A204S	TLR5_uc001hnw.1_Missense_Mutation_p.A204S	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	204	Extracellular (Potential).				cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		CTATTAGCTGCGAGGCTAAAA	0.428													9	67					0.00448238	0.00451882	0.004482	1	0		A	223285764	A	A	223285764	3	1	64	1	0	0	0	0	1	0	0	0	15979	768	27	5	1970	5	TLR5	1	223285764	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	26485999	223285764	25964857	3	43335											
OBSCN	84033	broad.mit.edu	37	chr1	228481244	228481244	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagctgcagatccgcggcctCgtggcagaggacgctgggga	7	5	18	11	4	0	2	0	0	0	2	2	5	1	4	2	5	2	4	2	5	0	0			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr1:228481244C>T	uc009xez.1	+	41	11102	c.11058C>T	c.(11056-11058)CTC>CTT	p.L3686L	OBSCN_uc001hsn.2_Silent_p.L3686L|OBSCN_uc001hsq.1_Silent_p.L942L	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3686	Ig-like 37.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TCCGCGGCCTCGTGGCAGAGG	0.642													8	53					0	0	0.00308	0	0		T	228481244	T	T	228481244	2	4	64	1	0	0	0	0	0	0	0	1	10831	871	31	1		1	OBSCN	1	228481244	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08	5195480	228481244	20769377	4	43336											
MTR	4548	broad.mit.edu	37	chr1	237026774	237026774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacccttaccagggcaccatCgtgctggccactgttaaagg	9	8	11	13	1	0	0	0	0	0	0	1	1	0	0	4	3	2	3	4	3	3	2			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr1:237026774C>T	uc001hyi.3	+	22	2748	c.2325C>T	c.(2323-2325)ATC>ATT	p.I775I	MTR_uc010pxw.1_Silent_p.I368I|MTR_uc010pxx.1_Silent_p.I724I|MTR_uc010pxy.1_Silent_p.I629I	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	775	B12-binding.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	AGGGCACCATCGTGCTGGCCA	0.547													5	34					0	0	0.000602	0	0		T	237026774	T	T	237026774	2	4	64	1	0	0	0	0	0	0	0	1	9976	874	31	1		1	MTR	1	237026774	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08	8545530	237026774	12223847	5	43337											
RAB10	10890	broad.mit.edu	37	chr2	26332773	26332773	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggcttagaaacatagatGaggtaagacctagaacttgt	16	10	10	5	0	0	5	0	1	0	4	0	5	0	5	1	2	2	2	1	2	7	5			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr2:26332773G>T	uc002rgv.2	+	3	1074	c.325G>T	c.(325-327)GAG>TAG	p.E109*		NM_016131	NP_057215	P61026	RAB10_HUMAN	ras-related GTP-binding protein RAB10	109					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAACATAGATGAGGTAAGACC	0.368													9	53					1.76689e-08	1.87261e-08	0.006214	1	0		T	26332773	T	T	26332773	4	4	64	1	0	0	0	0	0	1	0	0	12915	1291	45	5	335	5	RAB10	2	26332773	Nonsense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08		26332773	216866600	6	43338											
PLB1	151056	broad.mit.edu	37	chr2	28812361	28812361	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtgggcgatatgacacaagGgaagattttactgtggttgt	11	12	14	4	1	0	2	0	1	0	1	0	4	0	3	0	3	1	1	0	3	4	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr2:28812361G>A	uc002rmb.1	+	27	1860	c.1860G>A	c.(1858-1860)AGG>AGA	p.R620R	PLB1_uc010ezj.1_Silent_p.R609R|PLB1_uc002rmc.2_Silent_p.R308R|PLB1_uc002rmd.1_Silent_p.R130R	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	620	4 X 308-326 AA approximate repeats.|2.|Extracellular (Potential).				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					ATGACACAAGGGAAGATTTTA	0.488													14	74					0	0	0.00245	0	0		A	28812361	A	A	28812361	2	1	64	1	0	0	0	0	0	0	0	1	12043	1223	43	4		4	PLB1	2	28812361	Silent	SNP	G	TCGA-BR-8296-01A-11D-2340-08	2479588	28812361	214387012	7	43339											
TMEM178	130733	broad.mit.edu	37	chr2	39893123	39893123	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgggaagccatggagccGcgggcgctcgtcacggcgct	5	4	19	13	7	1	0	1	0	0	0	2	2	1	2	2	5	2	2	2	5	1	0			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr2:39893123G>A	uc002rrt.2	+	1	34	c.9G>A	c.(7-9)CCG>CCA	p.P3P	TMEM178_uc010fam.1_Silent_p.P3P	NM_152390	NP_689603	Q8NBL3	TM178_HUMAN	transmembrane protein 178 precursor	3						integral to membrane					0		all_hematologic(82;0.248)				CCATGGAGCCGCGGGCGCTCG	0.473													2	2					0	0	0.004672	0	0		A	39893123	A	A	39893123	2	1	64	1	0	0	0	0	0	0	0	1	16120	1074	38	1		1	TMEM178	2	39893123	Silent	SNP	G	TCGA-BR-8296-01A-11D-2340-08	11080762	39893123	203306250	8	43340											
PSD4	23550	broad.mit.edu	37	chr2	113942985	113942985	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagagaggaggtcctttttGgccccaggtgactcttaact	8	11	12	10	0	1	2	0	1	1	1	2	4	2	3	3	4	1	1	3	4	1	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr2:113942985G>A	uc002tjc.2	+	4	1400	c.1217G>A	c.(1216-1218)TGG>TAG	p.W406*	PSD4_uc002tjd.2_5'UTR|PSD4_uc002tje.2_Nonsense_Mutation_p.W405*|PSD4_uc002tjf.2_5'UTR	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	406					regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						GGTCCTTTTTGGCCCCAGGTG	0.512													7	121					0	0	0.006214	0	0		A	113942985	A	A	113942985	4	1	64	1	0	0	0	0	0	1	0	0	12671	1357	47	4	1227	4	PSD4	2	113942985	Nonsense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	74049862	113942985	129256388	9	43341											
C2orf85	285093	broad.mit.edu	37	chr2	242814250	242814250	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggggtggcactggcacCgtctccaggggcaaaccgct	6	6	15	14	2	1	0	0	0	1	0	2	0	1	0	4	6	1	4	4	6	1	0			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr2:242814250C>T	uc010fzu.1	+	2	566	c.543C>T	c.(541-543)ACC>ACT	p.T181T		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	181						integral to membrane				ovary(1)	1						GCACTGGCACCGTCTCCAGGG	0.662													3	15					0	0	0.004672	0	0		T	242814250	T	T	242814250	2	4	64	1	0	0	0	0	0	0	0	1	2203	639	23	1		1	C2orf85	2	242814250	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08	128871265	242814250	385123	10	43342											
ATP2B2	491	broad.mit.edu	37	chr3	10417266	10417266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacggcttcttgttgaccaCgaaggtgtccacagtgaagt	9	10	11	11	2	1	2	0	2	1	0	2	3	2	2	3	2	0	2	3	2	2	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr3:10417266C>T	uc003bvt.2	-	11	1703	c.1264G>A	c.(1264-1266)GTG>ATG	p.V422M	ATP2B2_uc003bvv.2_Missense_Mutation_p.V377M|ATP2B2_uc003bvw.2_Missense_Mutation_p.V377M|ATP2B2_uc010hdo.2_Missense_Mutation_p.V127M	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	422	Extracellular (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						TTGTTGACCACGAAGGTGTCC	0.562													6	57					0	0	0.001984	0	0		T	10417266	T	T	10417266	3	4	64	1	0	0	0	0	1	0	0	0	1141	536	19	1	2519	1	ATP2B2	3	10417266	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08		10417266	187605164	11	43343											
FBLN2	2199	broad.mit.edu	37	chr3	13669425	13669425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactgccaggccaggcagcGctgcatggatggcttcctgc	6	8	13	14	1	0	0	0	0	0	0	1	1	1	1	3	4	5	4	3	4	1	2			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr3:13669425G>A	uc011avb.1	+	10	2509	c.2384G>A	c.(2383-2385)CGC>CAC	p.R795H	FBLN2_uc011auz.1_Missense_Mutation_p.R821H|FBLN2_uc011ava.1_Missense_Mutation_p.R842H|FBLN2_uc011avc.1_Missense_Mutation_p.R842H	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	795	EGF-like 4; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			GCCAGGCAGCGCTGCATGGAT	0.627													5	58					0	0	0.001168	0	0		A	13669425	A	A	13669425	3	1	64	1	0	0	0	0	1	0	0	0	5713	1087	38	1	1253	1	FBLN2	3	13669425	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	3252159	13669425	184353005	12	43344											
MBD4	8930	broad.mit.edu	37	chr3	129152786	129152786	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attaaaaggtgaccgaggagGtgtccatttcttaaaggctt	12	12	11	6	1	1	1	0	1	1	0	2	3	2	2	2	4	0	1	2	4	4	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr3:129152786G>T	uc003emh.1	-	5	1494	c.1318C>A	c.(1318-1320)CCT>ACT	p.P440T	MBD4_uc003emi.1_Missense_Mutation_p.P440T|MBD4_uc003emj.1_Missense_Mutation_p.P434T|MBD4_uc003emk.1_Missense_Mutation_p.P122T|MBD4_uc011bkw.1_Missense_Mutation_p.P440T	NM_003925	NP_003916	O95243	MBD4_HUMAN	methyl-CpG binding domain protein 4	440					depyrimidination	nucleoplasm	DNA N-glycosylase activity|endodeoxyribonuclease activity|protein binding|satellite DNA binding			ovary(1)|lung(1)	2						GACCGAGGAGGTGTCCATTTC	0.413								BER_DNA_glycosylases					15	99					0.000219431	0.000224872	0.00245	1	0		T	129152786	T	T	129152786	3	4	64	1	0	0	0	0	1	0	0	0	9364	1261	44	5	440	5	MBD4	3	129152786	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	115483361	129152786	68869644	13	43345											
EPHB1	2047	broad.mit.edu	37	chr3	134920403	134920403	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtacctggctgagatgaatTatgtgcatcgggacctggct	9	11	13	8	1	0	2	0	2	0	1	1	4	0	3	2	3	2	4	2	3	3	2			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr3:134920403T>C	uc003eqt.2	+	12	2438	c.2218T>C	c.(2218-2220)TAT>CAT	p.Y740H	EPHB1_uc003equ.2_Missense_Mutation_p.Y301H	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	740	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						TGAGATGAATTATGTGCATCG	0.532													21	140					0	0	0.014323	0	0		C	134920403	C	C	134920403	3	2	64	1	0	0	0	0	1	0	0	0	5182	1754	61	3	2264	3	EPHB1	3	134920403	Missense_Mutation	SNP	T	TCGA-BR-8296-01A-11D-2340-08	5767617	134920403	63102027	14	43346											
CLDN11	5010	broad.mit.edu	37	chr3	170150502	170150502	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccgtttctactacactgcGggctctagctccccgactca	8	10	7	16	3	3	0	1	0	2	0	4	1	4	0	3	1	5	3	3	1	4	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr3:170150502G>A	uc003fgx.2	+	3	784	c.582G>A	c.(580-582)GCG>GCA	p.A194A	CLDN11_uc011bpt.1_Intron|CLDN11_uc003fgy.2_Silent_p.A110A	NM_005602	NP_005593	O75508	CLD11_HUMAN	claudin 11	194	Cytoplasmic (Potential).			RFYYTAGSSSPTHAKSAHV -> VSTTLRALAPRLMRRVPT YKRAARLPTEVL (in Ref. 1; AAC25187).	calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			central_nervous_system(1)	1	all_cancers(22;5.62e-23)|all_epithelial(15;7.54e-28)|all_lung(20;2.51e-17)|Lung NSC(18;1.02e-16)|Ovarian(172;0.000567)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			ACTACACTGCGGGCTCTAGCT	0.612													13	99					0	0	0.003163	0	0		A	170150502	A	A	170150502	2	1	64	1	0	0	0	0	0	0	0	1	3476	1103	39	1		1	CLDN11	3	170150502	Silent	SNP	G	TCGA-BR-8296-01A-11D-2340-08	35230099	170150502	27871928	15	43347											
ECT2	1894	broad.mit.edu	37	chr3	172486836	172486836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagtcttctaaaagctccaCtccagttccttcaaagcagt	12	12	5	12	0	3	0	1	0	2	0	6	0	6	0	3	0	2	3	3	0	4	5			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr3:172486836C>T	uc003fii.2	+	12	1376	c.1238C>T	c.(1237-1239)ACT>ATT	p.T413I	ECT2_uc010hwv.1_Missense_Mutation_p.T444I|ECT2_uc003fih.2_Missense_Mutation_p.T412I|ECT2_uc003fij.1_Missense_Mutation_p.T413I|ECT2_uc003fik.1_Missense_Mutation_p.T413I|ECT2_uc003fil.1_Missense_Mutation_p.T444I	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	413					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			AAAAGCTCCACTCCAGTTCCT	0.348													18	94					0	0	0.006122	0	0		T	172486836	T	T	172486836	3	4	64	1	0	0	0	0	1	0	0	0	4907	565	20	4	1280	4	ECT2	3	172486836	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	2336334	172486836	25535594	16	43348											
EPHA5	2044	broad.mit.edu	37	chr4	66217148	66217148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggatcatcttccagtacccGggaaagtccaaagtcagaca	13	7	10	11	1	3	1	2	0	1	1	5	3	5	3	3	2	1	1	3	2	3	2			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr4:66217148G>A	uc003hcy.2	-	14	2660	c.2467C>T	c.(2467-2469)CGG>TGG	p.R823W	EPHA5_uc003hcx.2_Missense_Mutation_p.R755W|EPHA5_uc003hcz.2_Missense_Mutation_p.R801W|EPHA5_uc011cah.1_Missense_Mutation_p.R824W|EPHA5_uc011cai.1_Missense_Mutation_p.R802W|EPHA5_uc003hda.2_Missense_Mutation_p.R824W	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	823	Cytoplasmic (Potential).|Protein kinase.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TCCAGTACCCGGGAAAGTCCA	0.433										TSP Lung(17;0.13)			6	71					0	0	0.001168	0	0		A	66217148	A	A	66217148	3	1	64	1	0	0	0	0	1	0	0	0	5178	1115	39	1	666	1	EPHA5	4	66217148	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08		66217148	124937128	17	43349											
RG9MTD2	93587	broad.mit.edu	37	chr4	100470352	100470352	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atattcctcctcactggaatCactgtccgatccaccttcct	8	13	4	16	1	2	0	2	0	0	0	7	2	7	1	6	1	0	0	6	1	2	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr4:100470352C>T	uc003huy.2	-	8	1226	c.913G>A	c.(913-915)GAT>AAT	p.D305N	RG9MTD2_uc003huz.3_Missense_Mutation_p.D305N|RG9MTD2_uc003hva.3_Missense_Mutation_p.D305N	NM_152292	NP_689505	Q8TBZ6	RG9D2_HUMAN	RNA (guanine-9-) methyltransferase domain	305							methyltransferase activity			ovary(2)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;1.7e-08)		TCACTGGAATCACTGTCCGAT	0.463													20	124					0	0	0.012319	0	0		T	100470352	T	T	100470352	3	4	64	1	0	0	0	0	1	0	0	0	13297	826	29	4	110	4	RG9MTD2	4	100470352	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	34253204	100470352	90683924	18	43350											
PCDH10	57575	broad.mit.edu	37	chr4	134073378	134073378	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggcgggagcggaggcggaGggtcaggagagcaccagcgc	8	1	23	9	4	1	1	1	0	0	1	1	5	1	4	1	8	3	1	1	8	0	0			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr4:134073378G>C	uc003iha.2	+	1	2909	c.2083G>C	c.(2083-2085)GGG>CGG	p.G695R	PCDH10_uc003igz.2_Missense_Mutation_p.G695R	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	695	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		cggaggcggaggGTCAGGAGA	0.577													9	40					0	0	0.004482	0	0		C	134073378	C	C	134073378	3	2	64	1	0	0	0	0	1	0	0	0	11526	1000	35	5	2085	5	PCDH10	4	134073378	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	33603026	134073378	57080898	19	43351											
CTNND2	1501	broad.mit.edu	37	chr5	11364949	11364949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctggggactgcagggcccGcaactctgggcccaggtgcc	5	7	15	14	1	2	0	0	0	2	0	2	1	2	1	3	5	3	2	3	5	1	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr5:11364949G>A	uc003jfa.1	-	8	1376	c.1231C>T	c.(1231-1233)CGG>TGG	p.R411W	CTNND2_uc010itt.2_Missense_Mutation_p.R320W|CTNND2_uc011cmy.1_Missense_Mutation_p.R74W|CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_5'UTR	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	411	ARM 1.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						TGCAGGGCCCGCAACTCTGGG	0.577													9	65					0	0	0.006214	0	0		A	11364949	A	A	11364949	3	1	64	1	0	0	0	0	1	0	0	0	4023	1086	38	1	2506	1	CTNND2	5	11364949	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08		11364949	169550311	20	43352											
F2R	2149	broad.mit.edu	37	chr5	76028449	76028449	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcatcctgaaaatgaaggtCaagaagccggcggtggtgta	12	9	13	7	2	2	3	2	2	0	1	3	3	3	3	2	4	1	1	2	4	6	2			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr5:76028449C>T	uc003ken.3	+	2	664	c.399C>T	c.(397-399)GTC>GTT	p.V133V		NM_001992	NP_001983	P25116	PAR1_HUMAN	coagulation factor II receptor precursor	133	Cytoplasmic (Potential).				activation of caspase activity|anatomical structure morphogenesis|connective tissue replacement involved in inflammatory response wound healing|negative regulation of cell proliferation|platelet activation|positive regulation of blood coagulation|positive regulation of cell migration|positive regulation of collagen biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of JAK-STAT cascade|positive regulation of MAPKKK cascade|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of transcription, DNA-dependent|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	caveola|extracellular region|Golgi apparatus|integral to plasma membrane|platelet dense tubular network	receptor binding|thrombin receptor activity			ovary(3)	3		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Prostate(461;0.00955)|Ovarian(174;0.0129)		all cancers(79;4.43e-43)	Streptokinase(DB00086)	AAATGAAGGTCAAGAAGCCGG	0.512													28	137					0	0	0.005443	0	0		T	76028449	T	T	76028449	2	4	64	1	0	0	0	0	0	0	0	1	5351	813	29	4		4	F2R	5	76028449	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08	64663500	76028449	104886811	21	43353											
FKBP5	2289	broad.mit.edu	37	chr6	35586920	35586920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaatatccctctcctttcCgtttggttctccggataatg	6	17	7	11	2	2	1	0	1	2	0	6	2	4	2	4	2	0	2	4	2	3	6	rs140297532	byFrequency	TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr6:35586920C>T	uc011dte.1	-	5	664	c.461G>A	c.(460-462)CGG>CAG	p.R154Q	FKBP5_uc003okx.2_Missense_Mutation_p.R154Q|FKBP5_uc011dtf.1_Intron|FKBP5_uc003oky.2_Missense_Mutation_p.R154Q|FKBP5_uc003okz.2_Missense_Mutation_p.R154Q	NM_001145776	NP_001139248	Q13451	FKBP5_HUMAN	FK506 binding protein 5 isoform 1	154					protein folding	cytoplasm|membrane|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1						CTCTCCTTTCCGTTTGGTTCT	0.383													7	51					0	0	0.004482	0	0		T	35586920	T	T	35586920	3	4	64	1	0	0	0	0	1	0	0	0	5925	652	23	1	998	1	FKBP5	6	35586920	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08		35586920	135528147	22	43354											
MCHR2	84539	broad.mit.edu	37	chr6	100382330	100382330	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatagcataaaattaaaatAtagcacaccaaaatcaaggg	21	8	6	6	0	1	0	1	0	0	0	1	0	1	0	1	1	2	3	1	1	11	6			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr6:100382330A>G	uc003pqh.1	-	5	966	c.651T>C	c.(649-651)TAT>TAC	p.Y217Y	MCHR2_uc003pqi.1_Silent_p.Y217Y	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	217	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		AAATTAAAATATAGCACACCA	0.259													14	119					0	0	0.003163	0	0		G	100382330	G	G	100382330	2	3	64	1	0	0	0	0	0	0	0	1	9401	456	16	3		3	MCHR2	6	100382330	Silent	SNP	A	TCGA-BR-8296-01A-11D-2340-08	64795410	100382330	70732737	23	43355											
FAM162B	221303	broad.mit.edu	37	chr6	117083148	117083148	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagatactcacccttttggCtgacactatcacagcaaagc	12	9	8	12	0	2	2	2	1	0	1	2	3	2	2	1	2	3	2	1	2	3	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr6:117083148C>A	uc003pxi.2	-	3	529	c.382G>T	c.(382-384)GCC>TCC	p.A128S		NM_001085480	NP_001078949	Q5T6X4	F162B_HUMAN	hypothetical protein LOC221303	128						integral to membrane					0						ACCCTTTTGGCTGACACTATC	0.418													19	122					6.94344e-10	7.4223e-10	0.006122	1	0		A	117083148	A	A	117083148	3	1	64	1	0	0	0	0	1	0	0	0	5486	797	28	5	114	5	FAM162B	6	117083148	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	16700818	117083148	54031919	24	43356											
L3MBTL3	84456	broad.mit.edu	37	chr6	130425629	130425629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaccgtatttttccagacCgcttaagtggtgagatgcct	10	12	10	9	2	0	3	0	1	0	3	1	4	1	3	4	1	1	2	4	1	3	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr6:130425629C>T	uc003qbt.2	+	19	1965	c.1795C>T	c.(1795-1797)CGC>TGC	p.R599C	L3MBTL3_uc003qbu.2_Missense_Mutation_p.R574C	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	599					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		TTTTCCAGACCGCTTAAGTGG	0.373													12	118					0	0	0.013537	0	0		T	130425629	T	T	130425629	3	4	64	1	0	0	0	0	1	0	0	0	8609	652	23	1	1861	1	L3MBTL3	6	130425629	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	13342481	130425629	40689438	25	43357											
TULP4	56995	broad.mit.edu	37	chr6	158870124	158870124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgagtcagacggtgtcctcGgcatgtcctggaactacccg	8	8	12	13	4	1	1	1	0	0	1	4	3	3	2	3	3	2	1	3	3	2	1	rs35262826	byFrequency	TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr6:158870124G>A	uc003qrf.2	+	4	1997	c.640G>A	c.(640-642)GGC>AGC	p.G214S	TULP4_uc011efo.1_Missense_Mutation_p.G214S|TULP4_uc003qrg.2_Missense_Mutation_p.G214S	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	214					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CGGTGTCCTCGGCATGTCCTG	0.602													13	62					0	0	0.003163	0	0		A	158870124	A	A	158870124	3	1	64	1	0	0	0	0	1	0	0	0	16802	1116	39	1	654	1	TULP4	6	158870124	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	28444495	158870124	12244943	26	43358											
DLL1	28514	broad.mit.edu	37	chr6	170592399	170592399	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcacgcttgctgtgcgcGtccctgacggcggtgtcgtc	2	11	15	13	6	1	1	1	1	0	0	4	1	2	1	1	2	2	2	1	2	0	1	rs144070852		TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr6:170592399G>T	uc003qxm.2	-	9	2438	c.1968C>A	c.(1966-1968)GAC>GAA	p.D656E		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	656	Cytoplasmic (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		TGCTGTGCGCGTCCCTGACGG	0.677													7	47					2.7689e-08	2.90969e-08	0.001984	1	0		T	170592399	T	T	170592399	3	4	64	1	0	0	0	0	1	0	0	0	4572	1136	40	5	215	5	DLL1	6	170592399	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	11722275	170592399	522668	27	43359											
TMEM195	392636	broad.mit.edu	37	chr7	15584510	15584510	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctgtagttctcccagataTaaatataactggtcagttca	12	13	7	9	0	3	1	2	0	1	1	4	1	3	1	2	1	1	3	2	1	6	7			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr7:15584510T>A	uc003stb.1	-	3	466	c.296A>T	c.(295-297)TAT>TTT	p.Y99F		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	99					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						CTCCCAGATATAAATATAACT	0.353													22	110					0	0	0.00278	0	0		A	15584510	A	A	15584510	3	1	64	1	0	0	0	0	1	0	0	0	16142	1406	49	5	1085	5	TMEM195	7	15584510	Missense_Mutation	SNP	T	TCGA-BR-8296-01A-11D-2340-08		15584510	143554153	28	43360											
CAMK2B	816	broad.mit.edu	37	chr7	44259793	44259793	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgcccgtcaatgtactgCgtgagccggatgtaagcgat	8	9	12	12	4	1	1	1	1	0	0	1	3	1	2	3	1	5	2	3	1	3	2	rs149916298	byFrequency	TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr7:44259793C>T	uc003tkq.2	-	23	2079	c.1869G>A	c.(1867-1869)ACG>ACA	p.T623T	CAMK2B_uc003tkp.2_Silent_p.T499T|CAMK2B_uc003tkx.2_Silent_p.T459T|CAMK2B_uc010kyd.2_RNA|CAMK2B_uc003tkr.2_Silent_p.T475T|CAMK2B_uc003tks.2_Silent_p.T474T|CAMK2B_uc003tku.2_Silent_p.T460T|CAMK2B_uc003tkv.2_Silent_p.T436T|CAMK2B_uc003tkt.2_Silent_p.T449T|CAMK2B_uc003tkw.2_Silent_p.T406T|CAMK2B_uc010kyc.2_Silent_p.T499T|CAMK2B_uc003tkn.2_Silent_p.T256T	NM_001220	NP_001211	Q13554	KCC2B_HUMAN	calcium/calmodulin-dependent protein kinase II	623					interferon-gamma-mediated signaling pathway|synaptic transmission	cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)|ovary(1)	2						CAATGTACTGCGTGAGCCGGA	0.637													4	27					0	0	0.000602	0	0		T	44259793	T	T	44259793	2	4	64	1	0	0	0	0	0	0	0	1	2603	755	27	1		1	CAMK2B	7	44259793	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08	28675283	44259793	114878870	29	43361											
ABCA13	154664	broad.mit.edu	37	chr7	48559747	48559747	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatcagatcaaatatgacctGacccacaacttcggcattga	15	9	6	11	1	2	4	2	3	0	1	3	4	2	4	2	1	1	1	2	1	4	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr7:48559747G>C	uc003toq.2	+	53	13933	c.13908G>C	c.(13906-13908)CTG>CTC	p.L4636L	ABCA13_uc010kys.1_Silent_p.L1711L|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Silent_p.L366L	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4636					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AATATGACCTGACCCACAACT	0.448													4	48					0	0	0.009096	0	0		C	48559747	C	C	48559747	2	2	64	1	0	0	0	0	0	0	0	1	31	1277	45	5		5	ABCA13	7	48559747	Silent	SNP	G	TCGA-BR-8296-01A-11D-2340-08	4299954	48559747	110578916	30	43362											
SEMA3A	10371	broad.mit.edu	37	chr7	83614755	83614755	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacataatgatagtacctgCttagtggaaagctccattgc	13	12	8	8	0	0	1	0	1	0	0	1	2	1	2	2	1	5	3	2	1	6	6			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr7:83614755C>G	uc003uhz.2	-	13	1806	c.1491G>C	c.(1489-1491)AAG>AAC	p.K497N		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	497	Sema.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						ATAGTACCTGCTTAGTGGAAA	0.313													19	135					0	0	0.00278	0	0		G	83614755	G	G	83614755	3	3	64	1	0	0	0	0	1	0	0	0	14049	796	28	5	844	5	SEMA3A	7	83614755	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	35055008	83614755	75523908	31	43363											
MTUS1	57509	broad.mit.edu	37	chr8	17601257	17601257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgcctcaaaccgcaggagtCaggcttggatatattcctac	10	11	9	11	1	2	0	2	0	0	0	3	2	3	2	3	3	3	2	3	3	4	6			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr8:17601257C>T	uc003wxv.2	-	3	2617	c.2143G>A	c.(2143-2145)GAC>AAC	p.D715N	MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Missense_Mutation_p.D715N|MTUS1_uc010lsz.2_Missense_Mutation_p.D715N	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	715						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		CCGCAGGAGTCAGGCTTGGAT	0.418													15	61					0	0	0.003163	0	0		T	17601257	T	T	17601257	3	4	64	1	0	0	0	0	1	0	0	0	9983	826	29	4	2040	4	MTUS1	8	17601257	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08		17601257	128762765	32	43364											
PXDNL	137902	broad.mit.edu	37	chr8	52384808	52384808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccggcaggtgaagtagaCggtatttcctgatggtacct	8	10	13	10	3	0	3	0	2	0	1	1	3	1	3	3	4	1	4	3	4	4	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr8:52384808C>T	uc003xqu.3	-	8	852	c.751G>A	c.(751-753)GTC>ATC	p.V251I		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	251	Ig-like C2-type 1.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GTGAAGTAGACGGTATTTCCT	0.433													7	75					0	0	0.004482	0	0		T	52384808	T	T	52384808	3	4	64	1	0	0	0	0	1	0	0	0	12873	536	19	1	3704	1	PXDNL	8	52384808	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	34783551	52384808	93979214	33	43365											
PREX2	80243	broad.mit.edu	37	chr8	69009347	69009347	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacctggaatatggtgtcGtgtatgagtacgacagcaca	11	10	11	9	2	0	1	0	1	0	0	2	3	1	2	2	2	2	3	2	2	4	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr8:69009347G>A	uc003xxv.1	+	22	2491	c.2464G>A	c.(2464-2466)GTG>ATG	p.V822M	PREX2_uc003xxu.1_Missense_Mutation_p.V822M|PREX2_uc011lez.1_Missense_Mutation_p.V757M	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	822					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ATATGGTGTCGTGTATGAGTA	0.463													9	75					0	0	0.004482	0	0		A	69009347	A	A	69009347	3	1	64	1	0	0	0	0	1	0	0	0	12499	1145	40	1	2550	1	PREX2	8	69009347	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	16624539	69009347	77354675	34	43366											
APBA1	320	broad.mit.edu	37	chr9	72132004	72132004	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatagtgctgctgctgcggCggctgctgctgttcctcttc	3	13	12	13	2	1	0	0	0	1	0	3	0	2	0	1	2	6	7	1	2	1	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr9:72132004C>T	uc004ahh.2	-	2	399	c.123G>A	c.(121-123)CCG>CCA	p.P41P		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	41					axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						GCTGCTGCGGCGGCTGCTGCT	0.716													3	7					0	0	0.000602	0	0		T	72132004	T	T	72132004	2	4	64	1	0	0	0	0	0	0	0	1	756	755	27	1		1	APBA1	9	72132004	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08		72132004	69081427	35	43367											
FLJ46321	389763	broad.mit.edu	37	chr9	84609979	84609979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatccaaaccccacttgcCggcgtcaggtcagcctggtg	8	7	10	16	2	2	0	2	0	0	0	3	0	3	0	5	3	3	0	5	3	1	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr9:84609979C>T	uc004amn.2	+	4	4641	c.4594C>T	c.(4594-4596)CGG>TGG	p.R1532W		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1532						integral to membrane					0						CCCCACTTGCCGGCGTCAGGT	0.532													3	24					0	0	0.004672	0	0		T	84609979	T	T	84609979	3	4	64	1	0	0	0	0	1	0	0	0	5946	643	23	1	4608	1	FLJ46321	9	84609979	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	12477975	84609979	56603452	36	43368											
SLC2A6	11182	broad.mit.edu	37	chr9	136341384	136341384	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgtagagggacagggatccGaacactgccatgagctgggg	10	5	17	9	2	0	2	0	1	0	1	1	5	1	4	2	4	3	2	2	4	2	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr9:136341384G>A	uc004cee.2	-	4	632	c.537C>T	c.(535-537)TTC>TTT	p.F179F	SLC2A6_uc004cef.2_Silent_p.F179F|SLC2A6_uc004ceg.2_Silent_p.F179F|SLC2A6_uc011mdj.1_Silent_p.F179F	NM_017585	NP_060055	Q9UGQ3	GTR6_HUMAN	solute carrier family 2 (facilitated glucose	179	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	D-glucose transmembrane transporter activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.47e-08)|Epithelial(140;9.37e-07)|all cancers(34;1.03e-05)		ACAGGGATCCGAACACTGCCA	0.652													6	48					0	0	0.001168	0	0		A	136341384	A	A	136341384	2	1	64	1	0	0	0	0	0	0	0	1	14574	1049	37	1		1	SLC2A6	9	136341384	Silent	SNP	G	TCGA-BR-8296-01A-11D-2340-08	51731405	136341384	4872047	37	43369											
GAD2	2572	broad.mit.edu	37	chr10	26581413	26581413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggactaccgggtttgaagCgcatgttgataaatgtttgg	9	12	15	5	2	0	2	0	2	0	0	0	3	0	3	1	4	2	4	1	4	4	5			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr10:26581413C>T	uc001isp.2	+	14	1909	c.1406C>T	c.(1405-1407)GCG>GTG	p.A469V	GAD2_uc001isq.2_Missense_Mutation_p.A469V	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	469					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	GGGTTTGAAGCGCATGTTGAT	0.448													11	104					0	0	0.013537	0	0		T	26581413	T	T	26581413	3	4	64	1	0	0	0	0	1	0	0	0	6194	768	27	1	1460	1	GAD2	10	26581413	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08		26581413	108953334	38	43370											
PTCHD3	374308	broad.mit.edu	37	chr10	27688039	27688039	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatataaggccaggatgttAgtgatggtggtgattgtaat	11	14	14	2	0	0	2	0	2	0	0	0	3	0	3	1	4	0	3	1	4	5	6			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr10:27688039A>T	uc001itu.2	-	4	1606	c.1488T>A	c.(1486-1488)ACT>ACA	p.T496T		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	496	SSD.|Helical; (Potential).				spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CCAGGATGTTAGTGATGGTGG	0.398													8	139					0	0	0.004482	0	0		T	27688039	T	T	27688039	2	4	64	1	0	0	0	0	0	0	0	1	12756	407	15	5		5	PTCHD3	10	27688039	Silent	SNP	A	TCGA-BR-8296-01A-11D-2340-08	1106626	27688039	107846708	39	43371											
CHAT	1103	broad.mit.edu	37	chr10	50835788	50835788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggcctgctgacgtctgaCgggaggagcgagtgggccga	7	7	18	9	4	1	2	0	2	1	0	1	6	1	4	2	4	2	1	2	4	0	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr10:50835788C>T	uc001jhz.2	+	7	1221	c.1068C>T	c.(1066-1068)GAC>GAT	p.D356D	CHAT_uc001jhv.1_Silent_p.D238D|CHAT_uc001jhx.1_Silent_p.D238D|CHAT_uc001jhy.1_Silent_p.D238D|CHAT_uc001jia.2_Silent_p.D238D|CHAT_uc010qgs.1_Silent_p.D238D	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	356					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	TGACGTCTGACGGGAGGAGCG	0.582													6	79					0	0	0.001168	0	0		T	50835788	T	T	50835788	2	4	64	1	0	0	0	0	0	0	0	1	3316	535	19	1		1	CHAT	10	50835788	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08	23147749	50835788	84698959	40	43372											
RRP12	23223	broad.mit.edu	37	chr10	99141471	99141471	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctcagctaaagttgcagtaCcttgaggctctgcgtagcag	9	10	11	11	1	2	1	1	1	1	0	2	1	2	1	2	1	5	7	2	1	4	5			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr10:99141471C>G	uc001knf.2	-	11	1459	c.1320_splice	c.e11+1	p.K440_splice	RRP12_uc009xvm.2_Splice_Site_p.K158_splice|RRP12_uc010qou.1_Splice_Site_p.K379_splice|RRP12_uc009xvn.2_Splice_Site_p.K340_splice	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1							integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		AGTTGCAGTACCTTGAGGCTC	0.607													6	28					0	0	0.001168	0	0		G	99141471	G	G	99141471	5	3	64	1	0	0	0	0	0	0	1	0	13711	521	18	5	2668	5	RRP12	10	99141471	Splice_Site	SNP	C	TCGA-BR-8296-01A-11D-2340-08	48305683	99141471	36393276	41	43373											
MRGPRX4	117196	broad.mit.edu	37	chr11	18194966	18194966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctggctcctgggctacCgcatgcgcaggaacgctgtc	5	9	13	14	3	1	0	0	0	1	0	3	1	2	1	2	3	4	6	2	3	2	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr11:18194966C>T	uc001mnv.1	+	1	583	c.163C>T	c.(163-165)CGC>TGC	p.R55C		NM_054032	NP_473373	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	55	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						CCTGGGCTACCGCATGCGCAG	0.547													32	117					0	0	0.010818	0	0		T	18194966	T	T	18194966	3	4	64	1	0	0	0	0	1	0	0	0	9787	652	23	1	165	1	MRGPRX4	11	18194966	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08		18194966	116811550	42	43374											
DCDC1	341019	broad.mit.edu	37	chr11	31327931	31327931	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttaaagaagagaactctgCaaccctgaagaaaaagaaaa	21	7	7	6	0	1	5	0	1	1	4	1	6	1	5	1	0	3	1	1	0	10	2			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr11:31327931C>A	uc001msv.2	-	5	641	c.439G>T	c.(439-441)GCA>TCA	p.A147S	DCDC1_uc001msu.1_5'UTR	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	147					intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					GAGAACTCTGCAACCCTGAAG	0.318													13	45					4.36969e-10	4.71167e-10	0.001855	1	0		A	31327931	A	A	31327931	3	1	64	1	0	0	0	0	1	0	0	0	4287	710	25	5	645	5	DCDC1	11	31327931	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	13132965	31327931	103678585	43	43375											
RIN1	9610	broad.mit.edu	37	chr11	66099763	66099763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctactcctctgctgccCggcttccctctgcctctggt	3	12	8	18	1	3	0	0	0	3	0	5	0	5	0	4	2	5	3	4	2	2	2			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr11:66099763C>T	uc001ohn.1	-	10	2463	c.2336G>A	c.(2335-2337)CGG>CAG	p.R779Q	RIN1_uc010roy.1_Missense_Mutation_p.R410Q|RIN1_uc009yrd.1_Missense_Mutation_p.R472Q|RIN1_uc010roz.1_Missense_Mutation_p.R674Q|RIN1_uc010rpa.1_Missense_Mutation_p.R613Q	NM_004292	NP_004283	Q13671	RIN1_HUMAN	ras inhibitor RIN1	779					endocytosis|signal transduction	cytoplasm|cytoskeleton|plasma membrane	GTPase activator activity|protein binding			lung(2)|breast(1)	3						CTCTGCTGCCCGGCTTCCCTC	0.622													18	114					0	0	0.007413	0	0		T	66099763	T	T	66099763	3	4	64	1	0	0	0	0	1	0	0	0	13396	652	23	1	19	1	RIN1	11	66099763	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	34771832	66099763	68906753	44	43376											
DLG2	1740	broad.mit.edu	37	chr11	84634228	84634228	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcaagccccacacacaCgatcctgggcatgtgctact	10	6	9	16	2	0	0	0	0	0	0	1	1	1	0	3	1	4	3	3	1	2	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr11:84634228C>T	uc001paj.2	-	1	238	c.-65G>A	c.(-67--63)TCGTG>TCATG		DLG2_uc010rsz.1_Translation_Start_Site|DLG2_uc010rta.1_Translation_Start_Site|DLG2_uc001pak.2_Intron|DLG2_uc001pal.1_Translation_Start_Site	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2							cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				CCCACACACACGATCCTGGGC	0.458													10	20					0	0	0.006214	0	0		T	84634228	T	T	84634228	1	4	64	1	0	0	0	0	0	0	0	0	4561	551	19	1		1	DLG2	11	84634228	Translation_Start_Site	SNP	C	TCGA-BR-8296-01A-11D-2340-08	18534465	84634228	50372288	45	43377											
KDM4DL	390245	broad.mit.edu	37	chr11	94759385	94759385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacatggtcagcacctggaaCgcctggccagggagctcttc	9	7	12	13	1	2	0	1	0	1	0	3	2	2	2	3	4	4	2	3	4	2	1	rs61895517		TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr11:94759385C>T	uc010ruf.1	+	1	964	c.664C>T	c.(664-666)CGC>TGC	p.R222C		NM_001161630	NP_001155102	B2RXH2	KD4DL_HUMAN	lysine (K)-specific demethylase 4D-like	222	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GCACCTGGAACGCCTGGCCAG	0.567													7	53					0	0	0.001984	0	0		T	94759385	T	T	94759385	3	4	64	1	0	0	0	0	1	0	0	0	8148	536	19	1	666	1	KDM4DL	11	94759385	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	10125157	94759385	40247131	46	43378											
CLDN25	644672	broad.mit.edu	37	chr11	113650730	113650730	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcctttgaatccttcttGtctctgccccaggagctcca	7	12	8	14	0	2	1	0	1	2	0	5	2	4	2	5	2	2	1	5	2	2	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr11:113650730G>T	uc009yyw.1	+	1	213	c.213G>T	c.(211-213)TTG>TTT	p.L71F		NM_001101389	NP_001094859	C9JDP6	CLD25_HUMAN	claudin 25	71	Extracellular (Potential).					integral to membrane|tight junction	structural molecule activity				0						AATCCTTCTTGTCTCTGCCCC	0.567													15	102					3.27435e-08	3.41193e-08	0.00245	1	0		T	113650730	T	T	113650730	3	4	64	1	0	0	0	0	1	0	0	0	3488	1368	48	5	215	5	CLDN25	11	113650730	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	18891345	113650730	21355786	47	43379											
OR10G9	219870	broad.mit.edu	37	chr11	123893746	123893746	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaccagcctcgtgacagcGttcatcctcacgggccttcc	8	8	9	16	3	2	2	2	1	0	1	5	2	4	2	5	1	2	1	5	1	1	2			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr11:123893746G>A	uc010sad.1	+	1	27	c.27G>A	c.(25-27)GCG>GCA	p.A9A		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	9	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		TCGTGACAGCGTTCATCCTCA	0.542													16	158					0	0	0.006122	0	0		A	123893746	A	A	123893746	2	1	64	1	0	0	0	0	0	0	0	1	10923	1132	40	1		1	OR10G9	11	123893746	Silent	SNP	G	TCGA-BR-8296-01A-11D-2340-08	10243016	123893746	11112770	48	43380											
NTN4	59277	broad.mit.edu	37	chr12	96077367	96077367	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccccagtatcccaccatgCacctgtcacaacgtcgccct	9	7	6	19	2	1	0	1	0	0	0	3	0	2	0	6	0	3	2	6	0	2	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr12:96077367C>G	uc001tei.2	-	6	1750	c.1301G>C	c.(1300-1302)TGC>TCC	p.C434S	NTN4_uc009ztf.2_Missense_Mutation_p.C434S|NTN4_uc009ztg.2_Missense_Mutation_p.C397S	NM_021229	NP_067052	Q9HB63	NET4_HUMAN	netrin 4 precursor	434	Laminin EGF-like 3.				axon guidance	basement membrane|plasma membrane				upper_aerodigestive_tract(1)|ovary(1)	2						TCCCACCATGCACCTGTCACA	0.597													5	73					0	0	0.001984	0	0		G	96077367	G	G	96077367	3	3	64	1	0	0	0	0	1	0	0	0	10721	710	25	5	605	5	NTN4	12	96077367	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08		96077367	37774528	49	43381											
GAS2L3	283431	broad.mit.edu	37	chr12	101016092	101016092	+	Missense_Mutation	SNP	C	G	G																															accctccttgtagttgttctCatcgattttctattgagtat																										TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr12:101016092C>G	uc001thu.2	+	9	914	c.688C>G	c.(688-690)CAT>GAT	p.H230D	GAS2L3_uc009zty.2_Missense_Mutation_p.H230D|GAS2L3_uc001thv.2_Missense_Mutation_p.H126D	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	230	GAR.				cell cycle arrest					skin(1)	1						TAGTTGTTCTCATCGATTTTC	0.323													7	95					0	0	0.008291	0	0		G	101016092	G	G	101016092	3	3	64	1	0	0	0	0	1	0	0	0	6263	826	29	5	714	5	GAS2L3	12	101016092	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	4938725	101016092	32835803	50	43382	85	2	1	17		5	4	2266	N	C	4.42145e-08
GAS2L3	283431	broad.mit.edu	37	chr12	101016095	101016095	+	Nonsense_Mutation	SNP	C	T	T																															ctccttgtagttgttctcatCgattttctattgagtattta																										TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr12:101016095C>T	uc001thu.2	+	9	917	c.691C>T	c.(691-693)CGA>TGA	p.R231*	GAS2L3_uc009zty.2_Nonsense_Mutation_p.R231*|GAS2L3_uc001thv.2_Nonsense_Mutation_p.R127*	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	231	GAR.				cell cycle arrest					skin(1)	1						TTGTTCTCATCGATTTTCTAT	0.318													8	93					0	0	0.008291	0	0		T	101016095	T	T	101016095	4	4	64	1	0	0	0	0	0	1	0	0	6263	876	31	1	717	1	GAS2L3	12	101016095	Nonsense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	3	101016095	32835800	51	43383	85	2	1	17		5	4	2266	N	C	4.42145e-08
GAS2L3	283431	broad.mit.edu	37	chr12	101017925	101017925	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cccccaaggccaaggttattCcagcccagaattcagcagat	12	7	8	14	0	1	2	1	0	0	2	2	2	2	2	5	2	2	2	5	2	4	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr12:101017925C>G	uc001thu.2	+	10	1568	c.1342C>G	c.(1342-1344)CCA>GCA	p.P448A	GAS2L3_uc009zty.2_Missense_Mutation_p.P448A|GAS2L3_uc001thv.2_Missense_Mutation_p.P344A	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	448					cell cycle arrest					skin(1)	1						CAAGGTTATTCCAGCCCAGAA	0.413													21	142					0	0	0.010504	0	0		G	101017925	G	G	101017925	3	3	64	1	0	0	0	0	1	0	0	0	6263	855	30	5	1372	5	GAS2L3	12	101017925	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	1830	101017925	32833970	52	43384			1	17		5	4	2266	N	C	4.42145e-08
GAS2L3	283431	broad.mit.edu	37	chr12	101018070	101018070	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agctgcacattcaaattcatCctcaaaatgtcccaagctgc	13	10	5	13	0	3	0	3	0	0	0	5	0	5	0	2	0	4	3	2	0	4	2			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr12:101018070C>A	uc001thu.2	+	10	1713	c.1487C>A	c.(1486-1488)TCC>TAC	p.S496Y	GAS2L3_uc009zty.2_Missense_Mutation_p.S496Y|GAS2L3_uc001thv.2_Missense_Mutation_p.S392Y	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	496					cell cycle arrest					skin(1)	1						TCAAATTCATCCTCAAAATGT	0.353													14	75					2.61681e-11	2.84636e-11	0.00245	1	0		A	101018070	A	A	101018070	3	1	64	1	0	0	0	0	1	0	0	0	6263	855	30	5	1517	5	GAS2L3	12	101018070	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	145	101018070	32833825	53	43385			1	17		5	4	2266	N	C	4.42145e-08
GAS2L3	283431	broad.mit.edu	37	chr12	101018357	101018357	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagctaccaaaaagcagcctCagaataaaagtgcatttcag	17	7	7	10	0	2	1	2	0	0	1	2	1	2	1	2	0	5	3	2	0	6	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr12:101018357C>G	uc001thu.2	+	10	2000	c.1774C>G	c.(1774-1776)CAG>GAG	p.Q592E	GAS2L3_uc009zty.2_Missense_Mutation_p.Q592E|GAS2L3_uc001thv.2_Missense_Mutation_p.Q488E	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	592					cell cycle arrest					skin(1)	1						AAAGCAGCCTCAGAATAAAAG	0.443													5	48					0	0	0.000602	0	0		G	101018357	G	G	101018357	3	3	64	1	0	0	0	0	1	0	0	0	6263	827	29	5	1804	5	GAS2L3	12	101018357	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	287	101018357	32833538	54	43386			1	17		5	4	2266	N	C	4.42145e-08
GPR109A	338442	broad.mit.edu	37	chr12	123187315	123187315	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcacaaatttgcaccGccattctggatcggcatctt	8	12	8	13	2	2	0	0	0	2	0	3	1	2	1	2	2	3	4	2	2	1	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr12:123187315G>A	uc001ucx.1	-	1	590	c.516C>T	c.(514-516)GGC>GGT	p.G172G	GPR81_uc001ucw.1_Intron	NM_177551	NP_808219	Q8TDS4	HCAR2_HUMAN	G protein-coupled receptor 109A	172	Extracellular (Potential).				negative regulation of lipid catabolic process|neutrophil apoptosis|positive regulation of adiponectin secretion|positive regulation of neutrophil apoptosis	integral to membrane|plasma membrane	nicotinic acid receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	AATTTGCACCGCCATTCTGGA	0.542													12	88					0	0	0.010729	0	0		A	123187315	A	A	123187315	2	1	64	1	0	0	0	0	0	0	0	1	6640	1074	38	1		1	GPR109A	12	123187315	Silent	SNP	G	TCGA-BR-8296-01A-11D-2340-08	22168958	123187315	10664580	55	43387											
N4BP2L2	10443	broad.mit.edu	37	chr13	33016759	33016759	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggatgactatgtaaaatttCtggagaaataaaccctgcat	16	11	8	6	0	1	2	0	1	1	1	1	4	1	3	1	2	2	2	1	2	6	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr13:33016759C>G	uc010abe.1	-	7	1937	c.1915G>C	c.(1915-1917)GAA>CAA	p.E639Q	N4BP2L2_uc001uug.2_Missense_Mutation_p.E522Q|N4BP2L2_uc010abd.1_Missense_Mutation_p.E552Q|N4BP2L2_uc001uuh.2_Missense_Mutation_p.E470Q|N4BP2L2_uc001uuj.2_Intron|N4BP2L2_uc010tdz.1_Missense_Mutation_p.E624Q	NM_033111	NP_149102	Q92802	N42L2_HUMAN	phosphonoformate immuno-associated protein 5	Error:Variant_position_missing_in_Q92802_after_alignment											0		Lung SC(185;0.0262)		all cancers(112;9.5e-07)|Epithelial(112;5.07e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00196)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.243)		TGTAAAATTTCTGGAGAAATA	0.338													6	38					0	0	0.001984	0	0		G	33016759	G	G	33016759	3	3	64	1	0	0	0	0	1	0	0	0	10130	922	32	5	355	5	N4BP2L2	13	33016759	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08		33016759	82153119	56	43388											
GPC5	2262	broad.mit.edu	37	chr13	92101163	92101163	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctaatatctcgaaatgcGgctgcttttcaaggtaagtg	10	15	9	7	2	3	0	1	0	2	0	4	1	3	0	0	2	2	3	0	2	5	6			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr13:92101163G>A	uc010tif.1	+	2	678	c.312G>A	c.(310-312)GCG>GCA	p.A104A		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	104						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				CTCGAAATGCGGCTGCTTTTC	0.438													26	72					0	0	0.009535	0	0		A	92101163	A	A	92101163	2	1	64	1	0	0	0	0	0	0	0	1	6616	1103	39	1		1	GPC5	13	92101163	Silent	SNP	G	TCGA-BR-8296-01A-11D-2340-08	59084404	92101163	23068715	57	43389											
RASA3	22821	broad.mit.edu	37	chr13	114806557	114806557	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttctgcaagtcctccttctgGatggccaccttccctgcaac	6	12	7	16	0	2	0	0	0	2	0	5	1	5	1	5	2	3	2	5	2	2	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr13:114806557G>C	uc001vui.2	-	4	422	c.291C>G	c.(289-291)ATC>ATG	p.I97M	RASA3_uc010tkk.1_Missense_Mutation_p.I65M|RASA3_uc001vuj.2_Translation_Start_Site|RASA3_uc010tkl.1_Intron	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	97					intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			CCTCCTTCTGGATGGCCACCT	0.612													14	54					0	0	0.001855	0	0		C	114806557	C	C	114806557	3	2	64	1	0	0	0	0	1	0	0	0	13087	1164	41	5	2297	5	RASA3	13	114806557	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	22705394	114806557	363321	58	43390											
PRKD1	5587	broad.mit.edu	37	chr14	30100211	30100211	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttccagagacaaaattTcagataaaggaatttcctgt	14	12	8	7	0	1	2	1	0	0	2	3	4	3	3	2	2	0	1	2	2	5	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr14:30100211T>C	uc001wqh.2	-	10	1590	c.1409A>G	c.(1408-1410)GAA>GGA	p.E470G		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	470	PH.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		AGACAAAATTTCAGATAAAGG	0.318													6	55					0	0	0.001168	0	0		C	30100211	C	C	30100211	3	2	64	1	0	0	0	0	1	0	0	0	12540	1783	62	3	1365	3	PRKD1	14	30100211	Missense_Mutation	SNP	T	TCGA-BR-8296-01A-11D-2340-08		30100211	77249329	59	43391											
ARF6	382	broad.mit.edu	37	chr14	50360781	50360781	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcaccgcattatcaatgaCcgggagatgagggacgccat	11	7	12	11	3	1	3	1	2	0	1	1	5	1	4	3	2	1	2	3	2	2	1	rs117373659	by1000genomes	TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr14:50360781C>T	uc001wxg.3	+	2	948	c.327C>T	c.(325-327)GAC>GAT	p.D109D		NM_001663	NP_001654	P62330	ARF6_HUMAN	ADP-ribosylation factor 6	109					cell adhesion|cellular component movement|cortical actin cytoskeleton organization|negative regulation of receptor-mediated endocytosis|positive regulation of actin filament polymerization|positive regulation of establishment of protein localization in plasma membrane|protein localization at cell surface|protein transport|regulation of dendritic spine development|regulation of filopodium assembly|regulation of Rac protein signal transduction|ruffle organization|small GTPase mediated signal transduction|vesicle-mediated transport	cell cortex|endosome membrane|filopodium membrane|Golgi apparatus|membrane fraction|ruffle	GTP binding|GTPase activity|thioesterase binding				0	all_epithelial(31;0.000822)|Breast(41;0.0117)					TTATCAATGACCGGGAGATGA	0.582													4	48					0	0	0.009096	0	0		T	50360781	T	T	50360781	2	4	64	1	0	0	0	0	0	0	0	1	848	506	18	4		4	ARF6	14	50360781	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08	20260570	50360781	56988759	60	43392											
PAPLN	89932	broad.mit.edu	37	chr14	73730411	73730411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccctggggcagttggtgCggctctcctgctcagacgac	5	8	14	14	2	2	1	1	0	1	1	3	2	2	1	2	4	3	4	2	4	0	1	rs139258651	byFrequency	TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr14:73730411C>T	uc010ttx.1	+	19	2945	c.2782C>T	c.(2782-2784)CGG>TGG	p.R928W	PAPLN_uc001xnw.3_Missense_Mutation_p.R901W|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.R912W|PAPLN_uc010arm.2_Missense_Mutation_p.R127W|PAPLN_uc010arn.2_Missense_Mutation_p.R128W	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	928	Ig-like C2-type 1.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GCAGTTGGTGCGGCTCTCCTG	0.637													8	42					0	0	0.004482	0	0		T	73730411	T	T	73730411	3	4	64	1	0	0	0	0	1	0	0	0	11447	759	27	1	2771	1	PAPLN	14	73730411	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	23369630	73730411	33619129	61	43393											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1808983	1808983	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggacggctccctagtgcgCgatgatttctttggtaaggc	6	11	15	9	3	1	1	0	1	1	0	2	3	2	2	1	5	1	2	1	5	2	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr16:1808983C>T	uc002cmk.2	+	10	1350	c.1230C>T	c.(1228-1230)CGC>CGT	p.R410R	MAPK8IP3_uc002cml.2_Intron|MAPK8IP3_uc010uvl.1_Silent_p.R411R	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	410					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						CCCTAGTGCGCGATGATTTCT	0.602													6	58					0	0	0.001984	0	0		T	1808983	T	T	1808983	2	4	64	1	0	0	0	0	0	0	0	1	9304	755	27	1		1	MAPK8IP3	16	1808983	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08		1808983	88545770	62	43394											
ABCC1	4363	broad.mit.edu	37	chr16	16126992	16126992	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccagagtccagcgcttcCttcctgtcgaggatcacctt	6	11	9	15	2	1	1	1	0	0	1	5	3	4	2	5	1	2	1	5	1	0	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr16:16126992C>A	uc010bvi.2	+	6	817	c.642C>A	c.(640-642)TCC>TCA	p.S214S	ABCC1_uc010bvj.2_Silent_p.S214S|ABCC1_uc010bvk.2_Silent_p.S214S|ABCC1_uc010bvl.2_Silent_p.S214S|ABCC1_uc010bvm.2_Silent_p.S214S|ABCC1_uc002del.3_Silent_p.S98S|ABCC1_uc010bvn.2_Silent_p.S77S	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	214	Cytoplasmic.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	CCAGCGCTTCCTTCCTGTCGA	0.478													9	46					0.00010058	0.000103933	0.013537	1	0		A	16126992	A	A	16126992	2	1	64	1	0	0	0	0	0	0	0	1	49	668	24	5		5	ABCC1	16	16126992	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08	14318009	16126992	74227761	63	43395											
SPN	6693	broad.mit.edu	37	chr16	29675436	29675436	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctctaggatcccacacCgtgacaggtggaaccataac	13	7	8	13	1	1	1	0	1	1	0	3	3	2	3	3	3	3	0	3	3	4	2	rs139180392	byFrequency	TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr16:29675436C>T	uc002dtm.2	+	2	523	c.387C>T	c.(385-387)ACC>ACT	p.T129T	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SPN_uc002dtn.2_Silent_p.T129T|SPN_uc010bzd.2_RNA	NM_001030288	NP_001025459	P16150	LEUK_HUMAN	sialophorin precursor	129	Extracellular (Potential).				blood coagulation|cellular defense response|chemotaxis|defense response to bacterium|establishment or maintenance of cell polarity|immune response|leukocyte migration|negative regulation of cell adhesion|positive regulation of tumor necrosis factor biosynthetic process	extracellular space|integral to plasma membrane	bacterial cell surface binding|transmembrane receptor activity			central_nervous_system(2)	2						GATCCCACACCGTGACAGGTG	0.532													14	74					0	0	0.00245	0	0		T	29675436	T	T	29675436	2	4	64	1	0	0	0	0	0	0	0	1	15098	639	23	1		1	SPN	16	29675436	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08	13548444	29675436	60679317	64	43396											
MYBBP1A	10514	broad.mit.edu	37	chr17	4457494	4457494	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggccccactctcaccttcTtcacctgatgcaggtcatat	7	12	6	16	0	4	1	3	1	2	0	5	1	4	1	4	2	1	1	4	2	1	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr17:4457494T>C	uc002fyb.3	-	3	436	c.374A>G	c.(373-375)AAG>AGG	p.K125R	MYBBP1A_uc002fxz.3_Missense_Mutation_p.K125R	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	125	Interaction with MYB (By similarity).				nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						TCTCACCTTCTTCACCTGATG	0.567													5	63					0	0	0.000602	0	0		C	4457494	C	C	4457494	3	2	64	1	0	0	0	0	1	0	0	0	10026	1609	56	3	3748	3	MYBBP1A	17	4457494	Missense_Mutation	SNP	T	TCGA-BR-8296-01A-11D-2340-08		4457494	76737716	65	43397											
TP53	7157	broad.mit.edu	37	chr17	7577568	7577568	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcccatgcaggaactgttaCacatgtagttgtagtggatg	10	11	12	8	1	0	0	0	0	0	0	0	2	0	2	1	2	3	5	1	2	4	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr17:7577568C>A	uc002gim.2	-	7	907	c.713G>T	c.(712-714)TGT>TTT	p.C238F	TP53_uc002gig.1_Missense_Mutation_p.C238F|TP53_uc002gih.2_Missense_Mutation_p.C238F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C106F|TP53_uc010cng.1_Missense_Mutation_p.C106F|TP53_uc002gii.1_Missense_Mutation_p.C106F|TP53_uc010cnh.1_Missense_Mutation_p.C238F|TP53_uc010cni.1_Missense_Mutation_p.C238F|TP53_uc002gij.2_Missense_Mutation_p.C238F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C145F|TP53_uc002gio.2_Missense_Mutation_p.C106F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	238	|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	C -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|C -> F (in sporadic cancers; somatic mutation).|C -> S (in LFS; germline mutation and in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> H (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|C -> Y (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C238Y(47)|p.C238F(34)|p.C238S(18)|p.C238R(14)|p.0?(7)|p.C238*(4)|p.C238W(2)|p.Y236_M243delYMCNSSCM(1)|p.C238fs*2(1)|p.V225fs*23(1)|p.C238_N239insX(1)|p.C238_M246delCNSSCMGGM(1)|p.C238fs*9(1)|p.M237_N239delMCN(1)|p.C238fs*21(1)|p.C238del(1)|p.C238G(1)|p.C238C(1)|p.M237fs*1(1)|p.C145F(1)|p.H233fs*6(1)|p.H233_C242del10(1)|p.N239_C242del(1)|p.M237_C238insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGAACTGTTACACATGTAGTT	0.572		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			4	44					0.000602214	0.000612087	0.000602	1	0		A	7577568	A	A	7577568	3	1	64	1	0	0	0	0	1	0	0	0	16407	478	17	5	577	5	TP53	17	7577568	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	3120074	7577568	73617642	66	43398											
MYH1	4619	broad.mit.edu	37	chr17	10417440	10417440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccctgcgccagattctcCgctgtcaaagaccaaacgta	10	9	7	15	3	2	2	1	0	1	2	4	2	3	2	4	0	2	2	4	0	3	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr17:10417440C>T	uc002gmo.2	-	7	629	c.535G>A	c.(535-537)GGA>AGA	p.G179R	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	179	Myosin head-like.|ATP (Potential).					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CCAGATTCTCCGCTGTCAAAG	0.418													6	50					0	0	0.001168	0	0		T	10417440	T	T	10417440	3	4	64	1	0	0	0	0	1	0	0	0	10047	666	23	1	5420	1	MYH1	17	10417440	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	2839872	10417440	70777770	67	43399											
POLG2	11232	broad.mit.edu	37	chr17	62488810	62488810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaccactggagtcgatgacGtaaccagaaatcaagccact	14	6	8	13	2	1	2	1	1	0	1	2	4	1	3	4	1	2	1	4	1	3	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr17:62488810G>A	uc002jei.2	-	3	852	c.769C>T	c.(769-771)CGT>TGT	p.R257C	POLG2_uc010deg.1_Missense_Mutation_p.R257C	NM_007215	NP_009146	Q9UHN1	DPOG2_HUMAN	DNA polymerase subunit gamma-2, mitochondrial	257					DNA repair|DNA-dependent DNA replication|glycyl-tRNA aminoacylation	mitochondrial chromosome	ATP binding|DNA-directed DNA polymerase activity|glycine-tRNA ligase activity|identical protein binding|single-stranded DNA binding			central_nervous_system(1)	1	Breast(5;2.15e-14)		BRCA - Breast invasive adenocarcinoma(8;4.97e-11)			AGTCGATGACGTAACCAGAAA	0.358													4	36					0	0	0.009096	0	0		A	62488810	A	A	62488810	3	1	64	1	0	0	0	0	1	0	0	0	12220	1145	40	1	712	1	POLG2	17	62488810	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	52071370	62488810	18706400	68	43400											
APOH	350	broad.mit.edu	37	chr17	64212961	64212961	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtacattctatttcttcCgggccatccagagaatatcc	9	14	7	11	1	2	1	0	0	2	1	5	2	5	1	4	2	1	1	4	2	4	7			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr17:64212961C>T	uc002jfn.3	-	6	788	c.729G>A	c.(727-729)CCG>CCA	p.P243P		NM_000042	NP_000033	P02749	APOH_HUMAN	apolipoprotein H precursor	243	Sushi 4.				blood coagulation, intrinsic pathway|negative regulation of angiogenesis|negative regulation of blood coagulation|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of myeloid cell apoptosis|negative regulation of smooth muscle cell apoptosis|plasminogen activation|positive regulation of lipoprotein lipase activity|triglyceride metabolic process|triglyceride transport	cell surface|chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	eukaryotic cell surface binding|glycoprotein binding|heparin binding|lipoprotein lipase activator activity|phospholipid binding				0			BRCA - Breast invasive adenocarcinoma(6;9.74e-08)			CTATTTCTTCCGGGCCATCCA	0.423													21	97					0	0	0.014323	0	0		T	64212961	T	T	64212961	2	4	64	1	0	0	0	0	0	0	0	1	804	639	23	1		1	APOH	17	64212961	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08	1724151	64212961	16982249	69	43401											
KCNJ16	3773	broad.mit.edu	37	chr17	68128638	68128638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccataggatatggttatcGctgtgttactgaagaatgtt	11	14	10	6	1	0	2	0	1	0	1	1	3	0	3	1	2	1	4	1	2	6	5	rs144258139		TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr17:68128638G>A	uc002jin.2	+	5	896	c.410G>A	c.(409-411)CGC>CAC	p.R137H	KCNJ16_uc002jio.2_Missense_Mutation_p.R137H|KCNJ16_uc002jip.2_Missense_Mutation_p.R137H|KCNJ16_uc002jiq.2_Missense_Mutation_p.R169H	NM_018658	NP_061128	Q9NPI9	IRK16_HUMAN	potassium inwardly-rectifying channel J16	137	Extracellular (By similarity).				synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Breast(10;2.96e-09)					TATGGTTATCGCTGTGTTACT	0.458													7	82					0	0	0.00308	0	0		A	68128638	A	A	68128638	3	1	64	1	0	0	0	0	1	0	0	0	8066	1087	38	1	412	1	KCNJ16	17	68128638	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	3915677	68128638	13066572	70	43402											
SETBP1	26040	broad.mit.edu	37	chr18	42532485	42532485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttacacatcaatgcctatGatgaaccttggttattacgg	11	13	7	10	1	1	2	1	2	0	0	1	2	1	2	3	2	4	1	3	2	6	5			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr18:42532485G>A	uc010dni.2	+	4	3476	c.3180G>A	c.(3178-3180)ATG>ATA	p.M1060I		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1060						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		CAATGCCTATGATGAACCTTG	0.488									Schinzel-Giedion_syndrome				10	42					0	0	0.006214	0	0		A	42532485	A	A	42532485	3	1	64	1	0	0	0	0	1	0	0	0	14154	1290	45	4	3383	4	SETBP1	18	42532485	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08		42532485	35544763	71	43403											
CDH20	28316	broad.mit.edu	37	chr18	59221564	59221564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgaggccttcgacatcgCggccatgtggaacccccggg	7	5	13	16	5	0	0	0	0	0	0	2	3	0	1	5	4	1	0	5	4	1	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr18:59221564C>T	uc010dps.1	+	11	2054	c.2042C>T	c.(2041-2043)GCG>GTG	p.A681V	CDH20_uc002lif.2_Missense_Mutation_p.A675V	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	681	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				TTCGACATCGCGGCCATGTGG	0.667													10	96					0	0	0.008291	0	0		T	59221564	T	T	59221564	3	4	64	1	0	0	0	0	1	0	0	0	3109	768	27	1	2084	1	CDH20	18	59221564	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	16689079	59221564	18855684	72	43404											
RDH8	50700	broad.mit.edu	37	chr19	10132297	10132297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgaccacgctcaaaaccGtggattcctctggcagcctg	8	8	10	15	3	2	1	1	1	1	0	3	2	3	2	4	2	2	3	4	2	2	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr19:10132297G>A	uc002mmr.2	+	6	1057	c.808G>A	c.(808-810)GTG>ATG	p.V270M		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	270					estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	GCTCAAAACCGTGGATTCCTC	0.607													10	53					0	0	0.008291	0	0		A	10132297	A	A	10132297	3	1	64	1	0	0	0	0	1	0	0	0	13221	1145	40	1	830	1	RDH8	19	10132297	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08		10132297	48996686	73	43405											
CYP4F22	126410	broad.mit.edu	37	chr19	15651382	15651382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcggatgggcggaggttcCggcaggcctgtgacatggtg	5	7	20	9	4	0	1	0	1	0	0	1	3	1	3	2	8	0	2	2	8	0	1	rs144569785		TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr19:15651382C>T	uc002nbh.3	+	8	960	c.793C>T	c.(793-795)CGG>TGG	p.R265W		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	265						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						GCGGAGGTTCCGGCAGGCCTG	0.617													6	81					0	0	0.001168	0	0		T	15651382	T	T	15651382	3	4	64	1	0	0	0	0	1	0	0	0	4192	643	23	1	815	1	CYP4F22	19	15651382	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	5519085	15651382	43477601	74	43406											
NLRP12	91662	broad.mit.edu	37	chr19	54314031	54314031	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttgagctcatcgaagccGtcgatgatgaaaaggaggcg	11	7	15	8	4	1	3	1	3	0	0	3	6	1	4	1	3	2	2	1	3	3	1	rs147080557	by1000genomes	TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr19:54314031G>A	uc002qch.3	-	3	1102	c.882C>T	c.(880-882)GAC>GAT	p.D294D	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Silent_p.D294D|NLRP12_uc002qcj.3_Silent_p.D294D|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Silent_p.D294D	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	294	NACHT.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		CATCGAAGCCGTCGATGATGA	0.582													14	37					0	0	0.00245	0	0		A	54314031	A	A	54314031	2	1	64	1	0	0	0	0	0	0	0	1	10493	1136	40	1		1	NLRP12	19	54314031	Silent	SNP	G	TCGA-BR-8296-01A-11D-2340-08	38662649	54314031	4814952	75	43407											
LILRB5	10990	broad.mit.edu	37	chr19	54758651	54758651	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tggacagcaggtaggggtagGacctgattgcgctgtagcat	9	9	16	7	1	0	1	0	1	0	0	0	3	0	3	1	5	3	6	1	5	3	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr19:54758651G>C	uc002qex.2	-	6	1313	c.1202C>G	c.(1201-1203)TCC>TGC	p.S401C	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.S392C|LILRB5_uc002qey.2_Missense_Mutation_p.S401C|LILRB5_uc002qez.2_Missense_Mutation_p.S301C|LILRB5_uc002qfa.1_Missense_Mutation_p.S291C|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	401	Ig-like C2-type 4.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GTAGGGGTAGGACCTGATTGC	0.567													19	38					0	0	0.008871	0	0		C	54758651	C	C	54758651	3	2	64	1	0	0	0	0	1	0	0	0	8810	1174	41	5	605	5	LILRB5	19	54758651	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	444620	54758651	4370332	76	43408											
TTYH1	57348	broad.mit.edu	37	chr19	54932467	54932467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagcactggcattggcatcGgtttctatggcaacagtgag	9	11	12	9	1	2	1	1	1	1	0	3	1	2	1	0	4	2	5	0	4	2	3			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr19:54932467G>A	uc002qfq.2	+	3	414	c.322G>A	c.(322-324)GGT>AGT	p.G108S	TTYH1_uc010yey.1_Missense_Mutation_p.G157S|TTYH1_uc002qfr.2_Missense_Mutation_p.G108S|TTYH1_uc002qft.2_Missense_Mutation_p.G108S|TTYH1_uc002qfu.1_Missense_Mutation_p.G23S	NM_020659	NP_065710	Q9H313	TTYH1_HUMAN	tweety 1 isoform 1	108	Helical; Name=2; (Potential).				cell adhesion	chloride channel complex|plasma membrane	chloride channel activity|iron ion transmembrane transporter activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0767)		CATTGGCATCGGTTTCTATGG	0.642													9	48					0	0	0.008291	0	0		A	54932467	A	A	54932467	3	1	64	1	0	0	0	0	1	0	0	0	16765	1116	39	1	332	1	TTYH1	19	54932467	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	173816	54932467	4196516	77	43409											
KIAA0406	9675	broad.mit.edu	37	chr20	36627656	36627656	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacgagcgagggccaggcCtgatgagccaagggaagcag	12	3	17	9	2	0	3	0	3	0	0	0	6	0	4	3	3	4	1	3	3	3	0			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr20:36627656C>T	uc002xhl.2	-	6	2936	c.2727G>A	c.(2725-2727)CAG>CAA	p.Q909Q	KIAA0406_uc002xhm.2_Silent_p.Q909Q	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	909							binding				0		Myeloproliferative disorder(115;0.00874)				AGGGCCAGGCCTGATGAGCCA	0.557													8	75					0	0	0.004482	0	0		T	36627656	T	T	36627656	2	4	64	1	0	0	0	0	0	0	0	1	8189	680	24	4		4	KIAA0406	20	36627656	Silent	SNP	C	TCGA-BR-8296-01A-11D-2340-08		36627656	26397864	78	43410											
ZHX3	23051	broad.mit.edu	37	chr20	39833134	39833134	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgattgtctggcttggccacGttccacacaaagctggcttc	7	12	10	12	1	1	1	0	1	1	0	3	1	2	1	2	3	1	4	2	3	1	4	rs113667928	byFrequency	TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr20:39833134G>A	uc002xjs.1	-	3	801	c.423C>T	c.(421-423)AAC>AAT	p.N141N	ZHX3_uc002xjq.1_Silent_p.N141N|ZHX3_uc002xjr.1_Silent_p.N141N|ZHX3_uc002xjt.1_Silent_p.N141N|ZHX3_uc002xju.1_Silent_p.N141N|ZHX3_uc002xjv.1_Silent_p.N141N|ZHX3_uc002xjw.1_Silent_p.N141N|ZHX3_uc010ggg.1_Silent_p.N141N	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	141					negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				GCTTGGCCACGTTCCACACAA	0.567													13	116					0	0	0.013537	0	0		A	39833134	A	A	39833134	2	1	64	1	0	0	0	0	0	0	0	1	17702	1136	40	1		1	ZHX3	20	39833134	Silent	SNP	G	TCGA-BR-8296-01A-11D-2340-08	3205478	39833134	23192386	79	43411											
TOM1	10043	broad.mit.edu	37	chr22	35719519	35719519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcgttccgcagctcgcccGatctgacaggtgtggtcacc	6	8	12	15	5	2	1	1	1	1	0	4	2	3	1	3	2	1	3	3	2	0	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chr22:35719519G>A	uc003ann.2	+	5	522	c.397G>A	c.(397-399)GAT>AAT	p.D133N	TOM1_uc011ami.1_Missense_Mutation_p.D100N|TOM1_uc011amj.1_5'UTR|TOM1_uc003ans.2_5'UTR|TOM1_uc011amk.1_Missense_Mutation_p.D95N|TOM1_uc003anp.2_Missense_Mutation_p.D133N|TOM1_uc011aml.1_Intron|TOM1_uc003ano.2_RNA|TOM1_uc003anq.2_Missense_Mutation_p.D127N|TOM1_uc003anr.2_5'UTR	NM_005488	NP_005479	O60784	TOM1_HUMAN	target of myb1 isoform 1	133	VHS.				endocytosis|endosome transport|intracellular protein transport	cytosol|early endosome|membrane	protein binding			ovary(1)	1						CAGCTCGCCCGATCTGACAGG	0.617													22	94					0	0	0.012319	0	0		A	35719519	A	A	35719519	3	1	64	1	0	0	0	0	1	0	0	0	16376	1058	37	1	415	1	TOM1	22	35719519	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08		35719519	15585047	80	43412											
ZNF182	7569	broad.mit.edu	37	chrX	47836536	47836536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacattcattacattcataaGgtttttctcctgtgtgagtc	9	17	6	9	0	3	1	2	1	1	0	5	1	3	1	1	1	1	1	1	1	2	6			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chrX:47836536G>A	uc004dir.2	-	7	1296	c.950C>T	c.(949-951)CCT>CTT	p.P317L	ZNF182_uc004dis.2_Missense_Mutation_p.P298L|ZNF182_uc004dit.2_Missense_Mutation_p.P317L|ZNF182_uc011mlu.1_Missense_Mutation_p.P297L	NM_006962	NP_008893	P17025	ZN182_HUMAN	zinc finger protein 21 isoform 1	317					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3						ACATTCATAAGGTTTTTCTCC	0.413													7	97					0	0	0.001984	0	0		A	47836536	A	A	47836536	3	1	64	1	0	0	0	0	1	0	0	0	17775	1000	35	4	973	4	ZNF182	23	47836536	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08		47836536	107434024	81	43413											
HUWE1	10075	broad.mit.edu	37	chrX	53576261	53576261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagctcactctcactgctgcGctgcaagatggagagcagac	10	8	11	12	1	2	3	2	0	1	3	3	4	2	3	0	1	5	5	0	1	2	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chrX:53576261G>A	uc004dsp.2	-	67	10096	c.9694C>T	c.(9694-9696)CGC>TGC	p.R3232C	HUWE1_uc004dsn.2_Missense_Mutation_p.R2040C	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3232					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						TCACTGCTGCGCTGCAAGATG	0.512													19	148					0	0	0.007413	0	0		A	53576261	A	A	53576261	3	1	64	1	0	0	0	0	1	0	0	0	7477	1087	38	1	3502	1	HUWE1	23	53576261	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	5739725	53576261	101694299	82	43414											
USP51	158880	broad.mit.edu	37	chrX	55515254	55515254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcgtagcccccgccgccGcctcctccattttccccgcc	2	9	6	24	5	0	0	0	0	0	0	4	0	3	0	11	0	1	1	11	0	1	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chrX:55515254G>A	uc004dun.1	-	2	198	c.119C>T	c.(118-120)GCG>GTG	p.A40V	USP51_uc011moo.1_5'Flank	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	40					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						CCCCGCCGCCGCCTCCTCCAT	0.647													5	34					0	0	0.001168	0	0		A	55515254	A	A	55515254	3	1	64	1	0	0	0	0	1	0	0	0	17109	1087	38	1	2020	1	USP51	23	55515254	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	1938993	55515254	99755306	83	43415											
CAPN6	827	broad.mit.edu	37	chrX	110494255	110494255	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccgattccagctcctttcGgccaaaaatagggttgttca	10	11	8	12	2	1	0	1	0	0	0	4	1	3	0	4	2	1	3	4	2	3	5			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chrX:110494255G>A	uc004epc.1	-	8	1216	c.1048C>T	c.(1048-1050)CGA>TGA	p.R350*	CAPN6_uc011msu.1_Nonsense_Mutation_p.R95*	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	350	Domain III.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						AGCTCCTTTCGGCCAAAAATA	0.498													58	446					0	0	0.01441	0	0		A	110494255	A	A	110494255	4	1	64	1	0	0	0	0	0	1	0	0	2633	1124	39	1	901	1	CAPN6	23	110494255	Nonsense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	54979001	110494255	44776305	84	43416											
STAG2	10735	broad.mit.edu	37	chrX	123220506	123220506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctagctggtggtgatgatGacaccatgtcagtcattagt	9	13	12	7	0	2	3	2	3	0	0	2	3	2	3	1	2	2	2	1	2	2	2			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chrX:123220506G>A	uc004etz.3	+	29	3502	c.3163G>A	c.(3163-3165)GAC>AAC	p.D1055N	STAG2_uc004eua.2_Missense_Mutation_p.D1055N|STAG2_uc004eub.2_Missense_Mutation_p.D1055N|STAG2_uc004euc.2_Missense_Mutation_p.D1055N|STAG2_uc004eud.2_Missense_Mutation_p.D1055N|STAG2_uc004eue.2_Missense_Mutation_p.D1055N	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	1055					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						TGGTGATGATGACACCATGTC	0.458													10	100					0	0	0.008291	0	0		A	123220506	A	A	123220506	3	1	64	1	0	0	0	0	1	0	0	0	15268	1290	45	4	3273	4	STAG2	23	123220506	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	12726251	123220506	32050054	85	43417											
VGLL1	51442	broad.mit.edu	37	chrX	135631089	135631089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtcctcaggaatctgccGccagggagaatggcaaccct	9	6	11	15	2	2	1	1	0	1	1	3	3	3	2	5	3	2	1	5	3	3	0			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chrX:135631089G>A	uc004ezy.2	+	3	726	c.556G>A	c.(556-558)GCC>ACC	p.A186T	MIR934_hsa-mir-934|MI0005756_5'Flank	NM_016267	NP_057351	Q99990	VGLL1_HUMAN	vestigial like 1	186					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	transcription coactivator activity				0	Acute lymphoblastic leukemia(192;0.000127)					GGAATCTGCCGCCAGGGAGAA	0.577													8	159					0	0	0.00308	0	0		A	135631089	A	A	135631089	3	1	64	1	0	0	0	0	1	0	0	0	17184	1087	38	1	562	1	VGLL1	23	135631089	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	12410583	135631089	19639471	86	43418											
SLITRK2	84631	broad.mit.edu	37	chrX	144905642	144905642	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctcctgctaagcatgcagggGagatactaaaatttctgggg	11	10	12	8	0	1	1	0	0	1	1	2	2	2	1	1	4	4	3	1	4	4	4			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chrX:144905642G>C	uc004fcd.2	+	5	2689	c.1699G>C	c.(1699-1701)GAG>CAG	p.E567Q	SLITRK2_uc010nsp.2_Missense_Mutation_p.E567Q|SLITRK2_uc010nso.2_Missense_Mutation_p.E567Q|SLITRK2_uc011mwq.1_Missense_Mutation_p.E567Q|SLITRK2_uc011mwr.1_Missense_Mutation_p.E567Q|SLITRK2_uc011mws.1_Missense_Mutation_p.E567Q|SLITRK2_uc004fcg.2_Missense_Mutation_p.E567Q|SLITRK2_uc011mwt.1_Missense_Mutation_p.E567Q	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	567	Extracellular (Potential).|LRRCT 2.					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					GCATGCAGGGGAGATACTAAA	0.478													10	90					0	0	0.006214	0	0		C	144905642	C	C	144905642	3	2	64	1	0	0	0	0	1	0	0	0	14768	1175	41	5	1701	5	SLITRK2	23	144905642	Missense_Mutation	SNP	G	TCGA-BR-8296-01A-11D-2340-08	9274553	144905642	10364918	87	43419											
MTMR1	8776	broad.mit.edu	37	chrX	149905805	149905805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcgacggttgggaccgaaCagcccagctcacatctctgg	9	6	12	14	3	2	0	1	0	1	0	3	3	2	1	2	3	4	2	2	3	1	1			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chrX:149905805C>T	uc004fei.2	+	11	1469	c.1334C>T	c.(1333-1335)ACA>ATA	p.T445I	MTMR1_uc011mya.1_Missense_Mutation_p.T351I|MTMR1_uc004feh.1_Missense_Mutation_p.T453I|MTMR1_uc004fej.2_RNA|MTMR1_uc010ntf.2_RNA	NM_003828	NP_003819	Q13613	MTMR1_HUMAN	myotubularin-related protein 1	445	Myotubularin phosphatase.					plasma membrane	protein tyrosine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TGGGACCGAACAGCCCAGCTC	0.453													10	114					0	0	0.008291	0	0		T	149905805	T	T	149905805	3	4	64	1	0	0	0	0	1	0	0	0	9956	478	17	4	1376	4	MTMR1	23	149905805	Missense_Mutation	SNP	C	TCGA-BR-8296-01A-11D-2340-08	5000163	149905805	5364755	88	43420											
ATP2B3	492	broad.mit.edu	37	chrX	152845624	152845624	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgggcccccccgcccccGtcccccaaccagaacaacaa	9	2	6	24	3	0	1	0	0	0	1	2	1	2	1	9	1	3	0	9	1	4	0			TCGA-BR-8296-01A-11D-2340-08	TCGA-BR-8296-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	64c0f192-0cd5-4a42-98e9-da539ffbdb8e	97c72465-c307-4e73-8a74-9d5c6da3680e	g.chrX:152845624G>A	uc004fht.1	+	20	3657	c.3531G>A	c.(3529-3531)CCG>CCA	p.P1177P	ATP2B3_uc004fhs.1_3'UTR|ATP2B3_uc010nuf.1_Silent_p.P314P|ATP2B3_uc004fhu.1_Silent_p.P129P	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	1177	Cytoplasmic (Potential).|Poly-Pro.				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCCCGCCCCCGTCCCCCAACC	0.602													26	125					0	0	0.005443	0	0		A	152845624	A	A	152845624	2	1	64	1	0	0	0	0	0	0	0	1	1142	1132	40	1		1	ATP2B3	23	152845624	Silent	SNP	G	TCGA-BR-8296-01A-11D-2340-08	2939819	152845624	2424936	89	43421											
CPSF3L	54973	broad.mit.edu	37	chr1	1248900	1248900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccctcaccatgttcttttCgtttccggcccatttccgga	4	15	7	15	3	2	0	1	0	1	0	5	1	4	1	5	2	1	2	5	2	0	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:1248900C>T	uc001aee.1	-	10	1088	c.1030G>A	c.(1030-1032)GAA>AAA	p.E344K	CPSF3L_uc009vjy.1_RNA|CPSF3L_uc001aef.1_Missense_Mutation_p.E350K|CPSF3L_uc009vjz.1_Missense_Mutation_p.E322K|CPSF3L_uc010nyj.1_Missense_Mutation_p.E315K|CPSF3L_uc001aeg.1_Missense_Mutation_p.E220K|CPSF3L_uc001aeh.1_Missense_Mutation_p.E243K|CPSF3L_uc001aei.1_Missense_Mutation_p.E246K|CPSF3L_uc001aej.1_Missense_Mutation_p.E171K|CPSF3L_uc001aek.1_Missense_Mutation_p.E86K	NM_017871	NP_060341	Q5TA45	INT11_HUMAN	cleavage and polyadenylation specific factor	344						Golgi apparatus|nucleus	hydrolase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(86;4.35e-21)|Colorectal(212;0.000166)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.00235)|BRCA - Breast invasive adenocarcinoma(365;0.00255)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0349)|Lung(427;0.201)		ATGTTCTTTTCGTTTCCGGCC	0.592													16	44					0	0	0.007413	0	0		T	1248900	T	T	1248900	3	4	65	1	0	0	0	0	1	0	0	0	3830	893	31	1	804	1	CPSF3L	1	1248900	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08		1248900	248001721	1	43422											
PRDM16	63976	broad.mit.edu	37	chr1	3328286	3328286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcgcctcccacgttccccGcactcacccccggcttcccg	3	6	8	24	6	1	0	1	0	0	0	4	0	4	0	7	2	0	3	7	2	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:3328286G>A	uc001akf.2	+	9	1605	c.1525G>A	c.(1525-1527)GCA>ACA	p.A509T	PRDM16_uc001akc.2_Missense_Mutation_p.A509T|PRDM16_uc001akd.2_Missense_Mutation_p.A509T|PRDM16_uc001ake.2_Missense_Mutation_p.A509T|PRDM16_uc009vlh.2_Missense_Mutation_p.A210T	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	509	Pro-rich.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		CACGTTCCCCGCACTCACCCC	0.677			T	EVI1	MDS|AML								40	87					0	0	0.00874	0	0		A	3328286	A	A	3328286	3	1	65	1	0	0	0	0	1	0	0	0	12479	1087	38	1	1559	1	PRDM16	1	3328286	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2079386	3328286	245922335	2	43423											
ARHGEF16	27237	broad.mit.edu	37	chr1	3386085	3386085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagtccaaggagctgcGggcgaccgtgacccagatgg	8	5	15	13	3	0	2	0	1	0	1	1	4	1	3	4	3	3	2	4	3	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:3386085G>A	uc001akg.3	+	6	1198	c.950G>A	c.(949-951)CGG>CAG	p.R317Q	ARHGEF16_uc001aki.2_Missense_Mutation_p.R29Q|ARHGEF16_uc001akj.2_Missense_Mutation_p.R29Q|ARHGEF16_uc009vli.1_5'Flank|ARHGEF16_uc010nzh.1_5'Flank	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	317	DH.|Required for RHOG activation and mediates interaction with EPHA2.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		AAGGAGCTGCGGGCGACCGTG	0.612													9	40					0	0	0.004482	0	0		A	3386085	A	A	3386085	3	1	65	1	0	0	0	0	1	0	0	0	899	1116	39	1	968	1	ARHGEF16	1	3386085	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	57799	3386085	245864536	3	43424											
CCDC27	148870	broad.mit.edu	37	chr1	3669276	3669276	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagcatggccagccgggaCgcccggtgcccagaatggaa	10	3	15	13	3	0	2	0	0	0	2	0	4	0	4	4	4	3	1	4	4	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:3669276C>T	uc001akv.2	+	1	312	c.231C>T	c.(229-231)GAC>GAT	p.D77D		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	77										skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		CCAGCCGGGACGCCCGGTGCC	0.622													14	19					0	0	0.001855	0	0		T	3669276	T	T	3669276	2	4	65	1	0	0	0	0	0	0	0	1	2804	535	19	1		1	CCDC27	1	3669276	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	283191	3669276	245581345	4	43425											
CAMTA1	23261	broad.mit.edu	37	chr1	7797322	7797322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtcttctagatgtgggCgtgtgccctagggcacttgg	4	12	14	11	1	2	1	0	0	2	1	2	1	2	1	2	3	1	1	2	3	2	4	rs149702154		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:7797322C>T	uc001aoi.2	+	15	3557	c.3350C>T	c.(3349-3351)GCG>GTG	p.A1117V	CAMTA1_uc010nzv.1_Missense_Mutation_p.A204V|CAMTA1_uc001aok.3_Missense_Mutation_p.A160V|CAMTA1_uc001aoj.2_Missense_Mutation_p.A73V	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1117	ANK 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		TAGATGTGGGCGTGTGCCCTA	0.547													40	100					0	0	0.010771	0	0		T	7797322	T	T	7797322	3	4	65	1	0	0	0	0	1	0	0	0	2616	768	27	1	3408	1	CAMTA1	1	7797322	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	4128046	7797322	241453299	5	43426											
UBE4B	10277	broad.mit.edu	37	chr1	10190583	10190583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttgcggttgtggttgcCgaaatccttaagtcctggct	5	16	11	9	2	1	0	0	0	1	0	3	1	3	0	3	3	2	3	3	3	2	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:10190583C>T	uc001aqs.3	+	13	2434	c.1721C>T	c.(1720-1722)CCG>CTG	p.P574L	UBE4B_uc001aqr.3_Missense_Mutation_p.P445L|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Missense_Mutation_p.P29L|UBE4B_uc001aqt.1_5'Flank	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	574					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		TTGTGGTTGCCGAAATCCTTA	0.488													55	136					0	0	0.00361	0	0		T	10190583	T	T	10190583	3	4	65	1	0	0	0	0	1	0	0	0	16909	652	23	1	1771	1	UBE4B	1	10190583	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2393261	10190583	239060038	6	43427											
CASZ1	54897	broad.mit.edu	37	chr1	10725240	10725240	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttggagggctcctccgcGtggtcttcctcatcgctgca	3	12	11	15	3	2	0	1	0	1	0	7	1	6	1	4	3	1	3	4	3	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:10725240G>A	uc001aro.2	-	5	725	c.405C>T	c.(403-405)CAC>CAT	p.H135H	CASZ1_uc001arp.1_Silent_p.H135H|CASZ1_uc009vmx.2_Silent_p.H159H	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GCTCCTCCGCGTGGTCTTCCT	0.692													14	33					0	0	0.00245	0	0		A	10725240	A	A	10725240	2	1	65	1	0	0	0	0	0	0	0	1	2688	1136	40	1		1	CASZ1	1	10725240	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	534657	10725240	238525381	7	43428											
MIIP	60672	broad.mit.edu	37	chr1	12091856	12091856	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggccccacgtcccacggcaGaagccctgaggactgactcc	8	4	11	18	3	0	3	0	2	0	1	2	4	2	4	5	3	1	1	5	3	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:12091856G>A	uc001ato.1	+	10	1338	c.1158G>A	c.(1156-1158)CAG>CAA	p.Q386Q		NM_021933	NP_068752	Q5JXC2	MIIP_HUMAN	invasion inhibitory protein 45	386										ovary(1)	1						TCCCACGGCAGAAGCCCTGAG	0.677													25	52					0	0	0.00333	0	0		A	12091856	A	A	12091856	2	1	65	1	0	0	0	0	0	0	0	1	9603	933	33	4		4	MIIP	1	12091856	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1366616	12091856	237158765	8	43429											
SPEN	23013	broad.mit.edu	37	chr1	16263675	16263675	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggccctcctcctgaaggTgagcccctgcagcctcctca	6	7	10	18	0	1	2	1	2	0	0	4	2	4	2	7	2	3	1	7	2	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:16263675T>C	uc001axk.1	+	12	10248	c.10044T>C	c.(10042-10044)GGT>GGC	p.G3348G	SPEN_uc010obp.1_Silent_p.G3307G	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	3348	Pro-rich.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CTCCTGAAGGTGAGCCCCTGC	0.642													21	51					0	0	0.010504	0	0		C	16263675	C	C	16263675	2	2	65	1	0	0	0	0	0	0	0	1	15063	1683	59	3		3	SPEN	1	16263675	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	4171819	16263675	232986946	9	43430											
CLCNKA	1187	broad.mit.edu	37	chr1	16358730	16358730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtaggcatcgtgcagaggGcccagctggtgcaggccctc	6	7	16	12	1	0	1	0	0	0	1	2	1	0	1	2	5	3	5	2	5	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:16358730G>A	uc001axu.2	+	17	1869	c.1789G>A	c.(1789-1791)GCC>ACC	p.A597T	CLCNKA_uc001axt.2_RNA|CLCNKA_uc001axv.2_Missense_Mutation_p.A597T|CLCNKA_uc010obw.1_Missense_Mutation_p.A554T|CLCNKB_uc001axw.3_Intron|CLCNKA_uc010oby.1_3'UTR	NM_004070	NP_004061	P51800	CLCKA_HUMAN	chloride channel Ka isoform 1	597	CBS 1.				excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)	Niflumic Acid(DB04552)	CGTGCAGAGGGCCCAGCTGGT	0.642													12	39					0	0	0.010729	0	0		A	16358730	A	A	16358730	3	1	65	1	0	0	0	0	1	0	0	0	3472	1203	42	2	1851	2	CLCNKA	1	16358730	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	95055	16358730	232891891	10	43431											
CROCC	9696	broad.mit.edu	37	chr1	17272894	17272894	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggatctgaaccgccttgtCgcccaggtacgctgtgcacc	6	10	11	14	3	1	1	0	1	1	0	2	2	1	2	4	2	3	3	4	2	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:17272894C>T	uc001azt.2	+	16	2346	c.2277C>T	c.(2275-2277)GTC>GTT	p.V759V	CROCC_uc009voz.1_Silent_p.V522V|CROCC_uc001azu.2_Silent_p.V62V	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	759	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		ACCGCCTTGTCGCCCAGGTAC	0.597													16	127					0	0	0.00499	0	0		T	17272894	T	T	17272894	2	4	65	1	0	0	0	0	0	0	0	1	3896	871	31	1		1	CROCC	1	17272894	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	914164	17272894	231977727	11	43432											
PADI3	51702	broad.mit.edu	37	chr1	17597402	17597402	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcccctatcttcactgAcactgtggtgttccgagtgg	6	12	11	12	1	2	1	1	1	1	0	4	2	4	1	3	3	0	2	3	3	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:17597402A>G	uc001bai.2	+	8	900	c.860A>G	c.(859-861)GAC>GGC	p.D287G		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	287					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	ATCTTCACTGACACTGTGGTG	0.453													11	32					0	0	0.001855	0	0		G	17597402	G	G	17597402	3	3	65	1	0	0	0	0	1	0	0	0	11398	275	10	3	890	3	PADI3	1	17597402	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	324508	17597402	231653219	12	43433											
UBR4	23352	broad.mit.edu	37	chr1	19441312	19441312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctggcctcaccttcttcCggtcttcttcattctcaatg	5	16	6	14	1	7	0	3	0	5	0	9	1	8	0	3	2	0	0	3	2	1	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:19441312C>T	uc001bbi.2	-	75	11199	c.11195G>A	c.(11194-11196)CGG>CAG	p.R3732Q	UBR4_uc001bbj.1_Missense_Mutation_p.R147Q	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3732					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CACCTTCTTCCGGTCTTCTTC	0.527													47	89					0	0	0.00361	0	0		T	19441312	T	T	19441312	3	4	65	1	0	0	0	0	1	0	0	0	16930	652	23	1	4484	1	UBR4	1	19441312	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1843910	19441312	229809309	13	43434											
EPHA10	284656	broad.mit.edu	37	chr1	38227513	38227513	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctaggcggggacgcccacgGcccaggtcggcctcagtttc	5	6	14	16	4	1	0	1	0	0	0	3	1	1	1	4	6	0	1	4	6	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:38227513G>A	uc009vvi.2	-	3	500	c.414C>T	c.(412-414)GGC>GGT	p.G138G	EPHA10_uc001cbw.3_Silent_p.G138G	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	138	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GACGCCCACGGCCCAGGTCGG	0.657													24	39					0	0	0.00278	0	0		A	38227513	A	A	38227513	2	1	65	1	0	0	0	0	0	0	0	1	5174	1190	42	2		2	EPHA10	1	38227513	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	18786201	38227513	211023108	14	43435											
ZNF684	127396	broad.mit.edu	37	chr1	41012975	41012975	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatacaggagagaaaccttAcagttgtattgaatgtggca	14	11	10	6	0	1	2	1	1	0	1	1	4	1	3	1	2	3	3	1	2	5	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:41012975A>G	uc001cft.1	+	5	1231	c.980A>G	c.(979-981)TAC>TGC	p.Y327C		NM_152373	NP_689586	Q5T5D7	ZN684_HUMAN	zinc finger protein 684	327	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;5.42e-18)			GAGAAACCTTACAGTTGTATT	0.423													52	90					0	0	0.00361	0	0		G	41012975	G	G	41012975	3	3	65	1	0	0	0	0	1	0	0	0	18116	391	14	3	994	3	ZNF684	1	41012975	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	2785462	41012975	208237646	15	43436											
HIVEP3	59269	broad.mit.edu	37	chr1	42049392	42049392	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggccagcttctgcttaatCgtgtgggtgtcttcaggttt	5	15	13	8	1	3	0	1	0	2	0	4	0	3	0	1	3	2	3	1	3	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:42049392C>T	uc001cgz.3	-	4	2290	c.1077G>A	c.(1075-1077)ACG>ACA	p.T359T	HIVEP3_uc001cha.3_Silent_p.T359T|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	359	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				TCTGCTTAATCGTGTGGGTGT	0.567													29	57					0	0	0.008361	0	0		T	42049392	T	T	42049392	2	4	65	1	0	0	0	0	0	0	0	1	7204	871	31	1		1	HIVEP3	1	42049392	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1036417	42049392	207201229	16	43437											
CDC20	991	broad.mit.edu	37	chr1	43825904	43825904	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttctgggaatgtactggcCgtggcactggacaacagtgt	9	10	14	8	1	1	0	0	0	1	0	1	2	1	2	1	4	2	3	1	4	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:43825904C>T	uc001cix.2	+	6	698	c.597C>T	c.(595-597)GCC>GCT	p.A199A	CDC20_uc001ciy.2_Silent_p.A199A	NM_001255	NP_001246	Q12834	CDC20_HUMAN	cell division cycle 20	199	WD 1.				activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of synapse maturation|positive regulation of synaptic plasticity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	cytosol|nucleoplasm|spindle	enzyme binding|protein C-terminus binding				0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ATGTACTGGCCGTGGCACTGG	0.522													38	98					0	0	0.00623	0	0		T	43825904	T	T	43825904	2	4	65	1	0	0	0	0	0	0	0	1	3062	639	23	1		1	CDC20	1	43825904	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1776512	43825904	205424717	17	43438											
ZSWIM5	57643	broad.mit.edu	37	chr1	45501386	45501386	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacgtaaggctaatttataGgacaggtctggatcatgagg	12	10	13	6	1	2	1	1	1	1	0	2	3	2	3	0	5	0	3	0	5	4	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:45501386G>T	uc001cnd.2	-	10	2493	c.2265C>A	c.(2263-2265)TCC>TCA	p.S755S		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	755							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					CTAATTTATAGGACAGGTCTG	0.488													17	38					3.41278e-10	3.61322e-10	0.00499	1	0		T	45501386	T	T	45501386	2	4	65	1	0	0	0	0	0	0	0	1	18269	987	35	5		5	ZSWIM5	1	45501386	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1675482	45501386	203749235	18	43439											
LRRC41	10489	broad.mit.edu	37	chr1	46745250	46745250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcagaaattgggctgggCgcttctcaaacagacggcag	11	6	14	10	2	1	2	1	0	1	2	2	2	1	2	0	4	1	4	0	4	2	2	rs28363251		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:46745250C>T	uc001cpn.2	-	8	2101	c.2057G>A	c.(2056-2058)CGC>CAC	p.R686H	LRRC41_uc010omb.1_Missense_Mutation_p.R686H	NM_006369	NP_006360	Q15345	LRC41_HUMAN	MUF1 protein	686										ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(166;0.155)					TTGGGCTGGGCGCTTCTCAAA	0.557													7	121					0	0	0.00308	0	0		T	46745250	T	T	46745250	3	4	65	1	0	0	0	0	1	0	0	0	9017	768	27	1	393	1	LRRC41	1	46745250	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1243864	46745250	202505371	19	43440											
STIL	6491	broad.mit.edu	37	chr1	47717402	47717402	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaaggctgaatgggtcAcaattattttggttcgatcg	10	13	13	5	2	1	2	1	1	0	1	3	4	1	2	0	4	0	2	0	4	4	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:47717402A>G	uc001crc.1	-	17	3425	c.3270T>C	c.(3268-3270)TGT>TGC	p.C1090C	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Silent_p.C1044C|STIL_uc010omo.1_Silent_p.C1073C|STIL_uc001crd.1_Silent_p.C1091C|STIL_uc001cre.1_Silent_p.C1090C	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	1090					cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				TGAATGGGTCACAATTATTTT	0.373													42	186					0	0	0.010771	0	0		G	47717402	G	G	47717402	2	3	65	1	0	0	0	0	0	0	0	1	15307	157	6	3		3	STIL	1	47717402	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	972152	47717402	201533219	20	43441											
RAB3B	5865	broad.mit.edu	37	chr1	52403066	52403066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttgtgatggtccggtaccGctcctgcccagctgtgtcct	3	13	12	13	2	0	1	0	1	0	0	3	1	3	1	5	2	3	4	5	2	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:52403066G>A	uc001cth.2	-	3	372	c.247C>T	c.(247-249)CGG>TGG	p.R83W		NM_002867	NP_002858	P20337	RAB3B_HUMAN	RAB3B, member RAS oncogene family	83					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(1)	1						GTCCGGTACCGCTCCTGCCCA	0.468													41	75					0	0	0.010771	0	0		A	52403066	A	A	52403066	3	1	65	1	0	0	0	0	1	0	0	0	12957	1086	38	1	424	1	RAB3B	1	52403066	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4685664	52403066	196847555	21	43442											
WDR63	126820	broad.mit.edu	37	chr1	85592282	85592282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcccggagttttctacatcgGccgagaagatggatacattg	10	10	12	9	3	1	2	0	0	1	2	2	5	1	4	2	3	2	1	2	3	3	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:85592282G>A	uc001dkt.2	+	20	2392	c.2201G>A	c.(2200-2202)GGC>GAC	p.G734D	WDR63_uc009wcl.2_Missense_Mutation_p.G695D	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	734	WD 4.									upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		TTCTACATCGGCCGAGAAGAT	0.473													15	43					0	0	0.00245	0	0		A	85592282	A	A	85592282	3	1	65	1	0	0	0	0	1	0	0	0	17340	1203	42	2	2275	2	WDR63	1	85592282	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	33189216	85592282	163658339	22	43443											
GBP1	2633	broad.mit.edu	37	chr1	89528741	89528741	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcaccctttttctttccAgccagcttgttcatcaggta	7	15	5	14	0	4	0	3	0	1	0	5	0	5	0	3	1	2	3	3	1	1	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:89528741A>T	uc001dmx.2	-	2	397	c.177T>A	c.(175-177)GCT>GCA	p.A59A		NM_002053	NP_002044	P32455	GBP1_HUMAN	guanylate binding protein 1,	59					interferon-gamma-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0156)|Epithelial(280;0.0291)		TTTTCTTTCCAGCCAGCTTGT	0.498													18	53					0	0	0.008871	0	0		T	89528741	T	T	89528741	2	4	65	1	0	0	0	0	0	0	0	1	6288	175	7	5		5	GBP1	1	89528741	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	3936459	89528741	159721880	23	43444											
NTNG1	22854	broad.mit.edu	37	chr1	107691423	107691423	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaactcgatcctccggatAttacctgtggagaccctcct	9	11	8	13	2	0	2	0	1	0	1	4	5	3	3	5	2	2	0	5	2	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:107691423A>G	uc001dvh.3	+	2	926	c.208A>G	c.(208-210)ATT>GTT	p.I70V	NTNG1_uc001dvf.3_Missense_Mutation_p.I70V|NTNG1_uc010out.1_Missense_Mutation_p.I70V|NTNG1_uc001dvc.3_Missense_Mutation_p.I70V|NTNG1_uc001dvd.1_Missense_Mutation_p.I70V	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	70	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		TCCTCCGGATATTACCTGTGG	0.433													33	73					0	0	0.002836	0	0		G	107691423	G	G	107691423	3	3	65	1	0	0	0	0	1	0	0	0	10723	449	16	3	210	3	NTNG1	1	107691423	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	18162682	107691423	141559198	24	43445											
SARS	6301	broad.mit.edu	37	chr1	109772189	109772189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttctgtacccatcagtaacGatgaggtaggtggctgtgcc	8	11	12	10	1	2	1	1	1	1	0	2	2	2	1	2	3	3	4	2	3	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:109772189G>A	uc001dwu.1	+	4	517	c.442G>A	c.(442-444)GAT>AAT	p.D148N	SARS_uc001dwt.1_Missense_Mutation_p.D148N|SARS_uc001dwv.1_Missense_Mutation_p.D148N|SARS_uc001dww.1_Missense_Mutation_p.D81N|SARS_uc001dwx.1_Missense_Mutation_p.D148N|SARS_uc009wfa.1_Missense_Mutation_p.D148N|SARS_uc001dwy.1_5'UTR|SARS_uc001dwz.1_5'UTR	NM_006513	NP_006504	P49591	SYSC_HUMAN	seryl-tRNA synthetase	148					seryl-tRNA aminoacylation|tRNA processing	cytosol	ATP binding|protein binding|RNA binding|serine-tRNA ligase activity			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0301)|Lung(183;0.0677)|COAD - Colon adenocarcinoma(174;0.116)|Epithelial(280;0.233)	L-Serine(DB00133)	CATCAGTAACGATGAGGTAGG	0.582													38	109					0	0	0.00874	0	0		A	109772189	A	A	109772189	3	1	65	1	0	0	0	0	1	0	0	0	13869	1058	37	1	456	1	SARS	1	109772189	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2080766	109772189	139478432	25	43446											
SYPL2	284612	broad.mit.edu	37	chr1	110020512	110020512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctggggcaagggcctgaccGatgtcaagggggccacacga	9	4	16	12	2	1	1	1	1	0	0	1	3	1	1	4	5	0	1	4	5	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:110020512G>A	uc001dxp.2	+	5	895	c.529G>A	c.(529-531)GAT>AAT	p.D177N	SYPL2_uc001dxo.2_Missense_Mutation_p.D177N|SYPL2_uc010ovk.1_Intron|SYPL2_uc001dxq.2_Missense_Mutation_p.D85N	NM_001040709	NP_001035799	Q5VXT5	SYPL2_HUMAN	mitsugumin 29	177	Vesicular (Potential).|MARVEL.					integral to membrane|synaptic vesicle	transporter activity			ovary(1)	1		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Colorectal(144;0.0129)|Lung(183;0.0436)|READ - Rectum adenocarcinoma(129;0.0698)|Epithelial(280;0.0808)|all cancers(265;0.0869)|LUSC - Lung squamous cell carcinoma(189;0.231)		GGGCCTGACCGATGTCAAGGG	0.607													5	54					0	0	0.000602	0	0		A	110020512	A	A	110020512	3	1	65	1	0	0	0	0	1	0	0	0	15488	1058	37	1	547	1	SYPL2	1	110020512	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	248323	110020512	139230109	26	43447											
BCAS2	10286	broad.mit.edu	37	chr1	115123933	115123933	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacttacttcaaaggcagaaTaatccggggctgtcaggtag	12	10	11	8	1	2	1	2	0	0	1	3	1	3	1	1	4	2	3	1	4	6	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:115123933T>C	uc001efa.2	-	2	226	c.173A>G	c.(172-174)TAT>TGT	p.Y58C	DENND2C_uc001eez.2_RNA	NM_005872	NP_005863	O75934	SPF27_HUMAN	breast carcinoma amplified sequence 2	58					mRNA processing|RNA splicing, via transesterification reactions	nucleolus|spliceosomal complex	protein binding			large_intestine(1)	1	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		AAAGGCAGAATAATCCGGGGC	0.453													71	174					0	0	0.00361	0	0		C	115123933	C	C	115123933	3	2	65	1	0	0	0	0	1	0	0	0	1352	1406	49	3	528	3	BCAS2	1	115123933	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	5103421	115123933	134126688	27	43448											
IGSF3	3321	broad.mit.edu	37	chr1	117142915	117142915	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgcaagtcaaaggagtcGctgtaggtcacccccggtgt	9	8	12	12	2	2	0	2	0	0	0	3	1	2	1	2	3	1	3	2	3	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:117142915G>A	uc001egr.1	-	7	2382	c.1677C>T	c.(1675-1677)AGC>AGT	p.S559S	IGSF3_uc001egq.1_Silent_p.S579S|IGSF3_uc001egs.1_Silent_p.S232S	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	559	Ig-like C2-type 5.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		CAAAGGAGTCGCTGTAGGTCA	0.587													3	25					0	0	0.004672	0	0		A	117142915	A	A	117142915	2	1	65	1	0	0	0	0	0	0	0	1	7617	1078	38	1		1	IGSF3	1	117142915	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2018982	117142915	132107706	28	43449											
HAO2	51179	broad.mit.edu	37	chr1	119925576	119925576	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacctgagagatgtgtctgAggtggacaccagaaccacaa	13	7	12	9	0	1	4	0	2	1	2	1	6	1	5	3	2	2	1	3	2	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:119925576A>C	uc001ehq.1	+	4	522	c.170A>C	c.(169-171)GAG>GCG	p.E57A	HAO2_uc001ehr.1_Missense_Mutation_p.E57A	NM_001005783	NP_001005783	Q9NYQ3	HAOX2_HUMAN	hydroxyacid oxidase 2	57	FMN hydroxy acid dehydrogenase.				fatty acid alpha-oxidation	peroxisome	(S)-2-hydroxy-acid oxidase activity			ovary(2)|skin(2)	4	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.0155)|LUSC - Lung squamous cell carcinoma(189;0.0856)		GATGTGTCTGAGGTGGACACC	0.547													10	11					0	0	0.010729	0	0		C	119925576	C	C	119925576	3	2	65	1	0	0	0	0	1	0	0	0	6968	304	11	5	176	5	HAO2	1	119925576	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	2782661	119925576	129325045	29	43450											
NBPF9	400818	broad.mit.edu	37	chr1	144816644	144816644	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcattggctcatcctctcaTgttgaacgggaagatgctgt	8	13	10	10	1	3	2	3	1	1	1	5	3	4	3	1	2	2	3	1	2	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:144816644T>C	uc009wig.1	+	13	1627	c.1551T>C	c.(1549-1551)CAT>CAC	p.H517H	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Silent_p.H517H|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF9_uc009wii.1_Silent_p.H246H|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Silent_p.H177H	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	517	NBPF 2.					cytoplasm					0						CATCCTCTCATGTTGAACGGG	0.448													57	400					0	0	0.00361	0	0		C	144816644	C	C	144816644	2	2	65	1	0	0	0	0	0	0	0	1	10218	1461	51	3		3	NBPF9	1	144816644	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	24891068	144816644	104433977	30	43451											
PDE4DIP	9659	broad.mit.edu	37	chr1	144912234	144912234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccctcctaaatattggcGcagggcctgtaattctgaat	9	13	8	11	1	2	1	0	1	2	0	4	1	3	1	3	2	0	2	3	2	5	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:144912234G>A	uc001elw.3	-	15	2332	c.2041C>T	c.(2041-2043)CGC>TGC	p.R681C	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R747C|PDE4DIP_uc001emc.1_Missense_Mutation_p.R681C|PDE4DIP_uc001emd.1_Missense_Mutation_p.R681C|PDE4DIP_uc001emb.1_Missense_Mutation_p.R844C|PDE4DIP_uc001eme.1_Missense_Mutation_p.R210C|PDE4DIP_uc001emf.1_Missense_Mutation_p.R466C	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	681	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		AAATATTGGCGCAGGGCCTGT	0.443			T	PDGFRB	MPD								15	104					0	0	0.004007	0	0		A	144912234	A	A	144912234	3	1	65	1	0	0	0	0	1	0	0	0	11662	1087	38	1	5129	1	PDE4DIP	1	144912234	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	95590	144912234	104338387	31	43452											
PIAS3	10401	broad.mit.edu	37	chr1	145578250	145578250	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttccccggaagaccctgggGccctctgatctctcccttct	4	12	8	17	1	3	2	0	1	3	1	6	3	5	3	5	3	0	0	5	3	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:145578250G>A	uc001eoc.1	+	2	304	c.213G>A	c.(211-213)GGG>GGA	p.G71G	NBPF10_uc001emp.3_Intron|PIAS3_uc010oyy.1_Silent_p.G62G|PIAS3_uc001eod.1_5'Flank	NM_006099	NP_006090	Q9Y6X2	PIAS3_HUMAN	protein inhibitor of activated STAT, 3	71					positive regulation of protein sumoylation|protein sumoylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	enzyme binding|nucleic acid binding|protein C-terminus binding|zinc ion binding			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					AGACCCTGGGGCCCTCTGATC	0.607													152	104					0	0	0.00361	0	0		A	145578250	A	A	145578250	2	1	65	1	0	0	0	0	0	0	0	1	11896	1190	42	2		2	PIAS3	1	145578250	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	666016	145578250	103672371	32	43453											
HRNR	388697	broad.mit.edu	37	chr1	152191477	152191477	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcggccgcggcccgaagcGtgatgggaggcagactcatg	7	6	17	11	5	1	2	1	1	0	1	2	4	1	3	2	4	1	1	2	4	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:152191477G>A	uc001ezt.1	-	3	2704	c.2628C>T	c.(2626-2628)CAC>CAT	p.H876H		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	876	10.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGCCCGAAGCGTGATGGGAGG	0.612													38	129					0	0	0.004878	0	0		A	152191477	A	A	152191477	2	1	65	1	0	0	0	0	0	0	0	1	7375	1136	40	1		1	HRNR	1	152191477	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	6613227	152191477	97059144	33	43454											
FLG	2312	broad.mit.edu	37	chr1	152276878	152276878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtgcctggagccatctcctGattgttcgtcattacgagtt	7	14	10	10	2	2	1	1	1	1	0	4	3	2	2	3	1	3	2	3	1	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:152276878G>A	uc001ezu.1	-	3	10520	c.10484C>T	c.(10483-10485)TCA>TTA	p.S3495L		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3495	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCCATCTCCTGATTGTTCGTC	0.577									Ichthyosis				85	403					0	0	0.00361	0	0		A	152276878	A	A	152276878	3	1	65	1	0	0	0	0	1	0	0	0	5936	1294	45	4	1705	4	FLG	1	152276878	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	85401	152276878	96973743	34	43455											
FLG	2312	broad.mit.edu	37	chr1	152280586	152280586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggacgcagacccagacCgcctctcagaatcttctgag	9	9	9	14	2	4	4	1	1	4	3	5	5	4	5	3	1	0	1	3	1	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:152280586C>T	uc001ezu.1	-	3	6812	c.6776G>A	c.(6775-6777)CGG>CAG	p.R2259Q		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2259	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGACCCAGACCGCCTCTCAGA	0.587									Ichthyosis				86	387					0	0	0.00361	0	0		T	152280586	T	T	152280586	3	4	65	1	0	0	0	0	1	0	0	0	5936	652	23	1	5413	1	FLG	1	152280586	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3708	152280586	96970035	35	43456											
FLG	2312	broad.mit.edu	37	chr1	152282533	152282533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggaagccgactcagacCgcctctcagagtcttctgag	8	10	10	13	2	5	3	2	1	4	2	6	5	5	4	3	1	1	0	3	1	1	2	rs148200894	byFrequency	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:152282533C>T	uc001ezu.1	-	3	4865	c.4829G>A	c.(4828-4830)CGG>CAG	p.R1610Q		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1610	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGACTCAGACCGCCTCTCAGA	0.567									Ichthyosis				213	141					0	0	0.00361	0	0		T	152282533	T	T	152282533	3	4	65	1	0	0	0	0	1	0	0	0	5936	652	23	1	7360	1	FLG	1	152282533	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1947	152282533	96968088	36	43457											
LCE1D	353134	broad.mit.edu	37	chr1	152770396	152770396	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcttcctgctgcagtgtCagctccggaggctgctgtgg	3	12	14	12	1	2	0	1	0	1	0	5	1	4	1	2	3	4	5	2	3	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:152770396C>A	uc009wnp.2	+	2	169	c.126C>A	c.(124-126)GTC>GTA	p.V42V		NM_178352	NP_848129	Q5T752	LCE1D_HUMAN	late cornified envelope 1D	42	Cys-rich.				cellular response to calcium ion|keratinization	cornified envelope|perinuclear region of cytoplasm					0	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTGCAGTGTCAGCTCCGGAG	0.562													23	141					2.52088e-20	2.81238e-20	0.00278	1	0		A	152770396	A	A	152770396	2	1	65	1	0	0	0	0	0	0	0	1	8678	813	29	5		5	LCE1D	1	152770396	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	487863	152770396	96480225	37	43458											
NUP210L	91181	broad.mit.edu	37	chr1	154030659	154030659	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggaagagccaagaacccTcacagtcactaacacagttt	14	9	7	11	0	2	2	2	0	0	2	2	3	2	3	2	1	3	1	2	1	4	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:154030659T>G	uc001fdw.2	-	22	3085	c.3013A>C	c.(3013-3015)AGG>CGG	p.R1005R	NUP210L_uc009woq.2_Intron|NUP210L_uc010peh.1_Silent_p.R1005R	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	1005				R -> K (in Ref. 1; BAC87279).		integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			CCAAGAACCCTCACAGTCACT	0.398													87	96					0	0	0.00361	0	0		G	154030659	G	G	154030659	2	3	65	1	0	0	0	0	0	0	0	1	10780	1550	54	5		5	NUP210L	1	154030659	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1260263	154030659	95219962	38	43459											
ZBTB7B	51043	broad.mit.edu	37	chr1	154988174	154988174	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccgctcccagatgcctcaGgagtgccctgtctgccacaa	7	7	10	17	2	2	1	1	0	1	1	3	2	3	2	5	1	3	1	5	1	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:154988174G>A	uc001fgk.3	+	3	1196	c.1038G>A	c.(1036-1038)CAG>CAA	p.Q346Q	ZBTB7B_uc009wpa.2_Silent_p.Q346Q|ZBTB7B_uc001fgj.3_Silent_p.Q380Q|ZBTB7B_uc010peq.1_Silent_p.Q380Q|ZBTB7B_uc001fgl.3_Silent_p.Q346Q	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	346	C2H2-type 1.				cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			AGATGCCTCAGGAGTGCCCTG	0.622													8	71					0	0	0.00308	0	0		A	154988174	A	A	154988174	2	1	65	1	0	0	0	0	0	0	0	1	17579	991	35	4		4	ZBTB7B	1	154988174	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	957515	154988174	94262447	39	43460											
INSRR	3645	broad.mit.edu	37	chr1	156811544	156811544	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagccccttcccacccttgCggtaatagtctgtctcatac	7	11	7	16	1	2	0	1	0	2	0	4	0	3	0	4	1	3	2	4	1	3	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:156811544C>T	uc010pht.1	-	20	3694	c.3440G>A	c.(3439-3441)CGC>CAC	p.R1147H	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	1147	Cytoplasmic (Potential).|Protein kinase.				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CCCACCCTTGCGGTAATAGTC	0.612													19	130					0	0	0.010504	0	0		T	156811544	T	T	156811544	3	4	65	1	0	0	0	0	1	0	0	0	7790	768	27	1	464	1	INSRR	1	156811544	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1823370	156811544	92439077	40	43461											
CD1A	909	broad.mit.edu	37	chr1	158224939	158224939	+	Missense_Mutation	SNP	C	A	A																															tttacaaccattcctggaaaCaaaatctggtctcaggttgg																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:158224939C>A	uc001frt.2	+	2	657	c.124C>A	c.(124-126)CAA>AAA	p.Q42K		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	42	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	TTCCTGGAAACAAAATCTGGT	0.498													28	117					3.73148e-12	3.98762e-12	0.007291	1	0		A	158224939	A	A	158224939	3	1	65	1	0	0	0	0	1	0	0	0	2977	479	17	5	130	5	CD1A	1	158224939	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1413395	158224939	91025682	41	43462	86	2									
CD1A	909	broad.mit.edu	37	chr1	158224948	158224948	+	Missense_Mutation	SNP	G	A	A																															attcctggaaacaaaatctgGtctcaggttggctgagtgat																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:158224948G>A	uc001frt.2	+	2	666	c.133G>A	c.(133-135)GTC>ATC	p.V45I		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	45	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	ACAAAATCTGGTCTCAGGTTG	0.498													28	119					0	0	0.007291	0	0		A	158224948	A	A	158224948	3	1	65	1	0	0	0	0	1	0	0	0	2977	1261	44	4	139	4	CD1A	1	158224948	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	9	158224948	91025673	42	43463	86	2									
MNDA	4332	broad.mit.edu	37	chr1	158813818	158813818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagagcagagtaagccccCaggtccctcaggagccagca	12	3	11	15	0	1	2	1	0	0	2	2	3	2	3	5	2	4	3	5	2	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:158813818C>T	uc001fsz.1	+	4	676	c.476C>T	c.(475-477)CCA>CTA	p.P159L		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	159					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					AGTAAGCCCCCAGGTCCCTCA	0.463													34	215					0	0	0.012213	0	0		T	158813818	T	T	158813818	3	4	65	1	0	0	0	0	1	0	0	0	9694	594	21	4	486	4	MNDA	1	158813818	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	588870	158813818	90436803	43	43464											
CASQ1	844	broad.mit.edu	37	chr1	160165279	160165279	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccttcgaggatgcagctgaGgagtttcatccctacatccc	8	10	10	13	1	1	1	1	1	0	0	4	4	3	3	3	2	3	3	3	2	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:160165279G>T	uc010pja.1	+	5	863	c.606G>T	c.(604-606)GAG>GAT	p.E202D		NM_001231	NP_001222	P31415	CASQ1_HUMAN	calsequestrin 1	202						mitochondrial matrix|sarcoplasmic reticulum lumen|smooth endoplasmic reticulum	calcium ion binding			central_nervous_system(1)	1	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			ATGCAGCTGAGGAGTTTCATC	0.562													50	77					6.3237e-29	7.1363e-29	0.00361	1	0		T	160165279	T	T	160165279	3	4	65	1	0	0	0	0	1	0	0	0	2683	991	35	5	624	5	CASQ1	1	160165279	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1351461	160165279	89085342	44	43465											
VANGL2	57216	broad.mit.edu	37	chr1	160390844	160390844	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatcctgttcctgtgcagaaAacagcaccaacaactccact	13	9	5	14	0	0	1	0	0	0	1	3	1	3	1	4	0	5	3	4	0	5	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:160390844A>C	uc001fwb.1	+	7	1239	c.940A>C	c.(940-942)AAC>CAC	p.N314H	VANGL2_uc001fwc.1_Missense_Mutation_p.N314H	NM_020335	NP_065068	Q9ULK5	VANG2_HUMAN	vang-like 2	314	Cytoplasmic (Potential).				apical protein localization|heart looping|nonmotile primary cilium assembly	apical plasma membrane|integral to membrane				ovary(1)	1	all_cancers(52;1.08e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CTGTGCAGAAAACAGCACCAA	0.552													11	51					0	0	0.008291	0	0		C	160390844	C	C	160390844	3	2	65	1	0	0	0	0	1	0	0	0	17146	14	1	5	958	5	VANGL2	1	160390844	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	225565	160390844	88859777	45	43466											
SLAMF7	57823	broad.mit.edu	37	chr1	160721212	160721212	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccattctggagagaacacaGagtacgacacaatccctcac	14	6	7	14	1	2	2	1	0	1	2	3	5	3	3	2	1	2	1	2	1	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:160721212G>C	uc001fwq.2	+	5	862	c.847G>C	c.(847-849)GAG>CAG	p.E283Q	SLAMF7_uc010pjn.1_Missense_Mutation_p.E189Q|SLAMF7_uc001fws.2_Missense_Mutation_p.E176Q|SLAMF7_uc001fwr.2_Intron|SLAMF7_uc010pjo.1_Missense_Mutation_p.E152Q|SLAMF7_uc010pjp.1_Missense_Mutation_p.E136Q|SLAMF7_uc010pjq.1_Intron|SLAMF7_uc010pjr.1_Intron	NM_021181	NP_067004	Q9NQ25	SLAF7_HUMAN	SLAM family member 7	283	Cytoplasmic (Potential).				cell adhesion|natural killer cell activation|natural killer cell mediated cytotoxicity	integral to membrane	receptor activity			skin(2)|ovary(1)	3	all_cancers(52;2.63e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			AGAGAACACAGAGTACGACAC	0.453													57	165					0	0	0.00361	0	0		C	160721212	C	C	160721212	3	2	65	1	0	0	0	0	1	0	0	0	14394	943	33	5	865	5	SLAMF7	1	160721212	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	330368	160721212	88529409	46	43467											
ADAMTS4	9507	broad.mit.edu	37	chr1	161163914	161163914	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatggcgtgagtcgggcccGaaggtcagctggcactggcg	7	6	17	11	4	1	1	1	1	0	0	2	2	1	1	1	5	1	2	1	5	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:161163914G>A	uc001fyt.3	-	5	1787	c.1359C>T	c.(1357-1359)TTC>TTT	p.F453F		NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	453	Disintegrin.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			AGTCGGGCCCGAAGGTCAGCT	0.602													22	102					0	0	0.010504	0	0		A	161163914	A	A	161163914	2	1	65	1	0	0	0	0	0	0	0	1	268	1049	37	1		1	ADAMTS4	1	161163914	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	442702	161163914	88086707	47	43468											
SELE	6401	broad.mit.edu	37	chr1	169699580	169699580	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagggatttaccattgcaGgctggaataggagcactcca	12	8	12	9	0	0	1	0	0	0	1	1	4	1	4	2	4	3	3	2	4	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:169699580G>T	uc001ggm.3	-	5	865	c.708C>A	c.(706-708)GCC>GCA	p.A236A	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	236	Sushi 1.|Extracellular (Potential).				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					TACCATTGCAGGCTGGAATAG	0.448													25	106					7.87624e-14	8.55028e-14	0.00278	1	0		T	169699580	T	T	169699580	2	4	65	1	0	0	0	0	0	0	0	1	14038	987	35	5		5	SELE	1	169699580	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	8535666	169699580	79551041	48	43469											
KIFAP3	22920	broad.mit.edu	37	chr1	170024447	170024447	+	Frame_Shift_Del	DEL	T	-	-																															gcacaaataaagaacttacaTtttttgacattcttttcgtt																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:170024447delT	uc001ggv.2	-	2	434	c.163delA	c.(163-165)ATCfs	p.I55fs	KIFAP3_uc010ply.1_5'UTR|KIFAP3_uc001ggw.1_Intron	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	55					blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AGAACTTACATTTTTTGACAT	0.333													48	31	---	---	---	---						.	-	170024447	-	-	170024447	7	5	65	1	0	1	0	1	0	0	0	0	8327	1507	52	0	2291	0	KIFAP3	1	170024447	Frame_Shift_Del	DEL	T	TCGA-BR-8360-01A-11D-2340-08	324867	170024447	79226174	49	43470											
ASTN1	460	broad.mit.edu	37	chr1	177001771	177001771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctcccggatgctcagggtgCcactggagttgtggccctgc	4	10	14	13	1	2	0	1	0	1	0	3	2	2	2	3	4	3	2	3	4	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:177001771C>T	uc001glc.2	-	3	898	c.686G>A	c.(685-687)GGC>GAC	p.G229D	ASTN1_uc001glb.1_Missense_Mutation_p.G229D|ASTN1_uc001gld.1_Missense_Mutation_p.G229D|ASTN1_uc009wwx.1_Missense_Mutation_p.G229D|ASTN1_uc001gle.3_RNA	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	229					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GCTCAGGGTGCCACTGGAGTT	0.602													29	90					0	0	0.00632	0	0		T	177001771	T	T	177001771	3	4	65	1	0	0	0	0	1	0	0	0	1065	739	26	2	3286	2	ASTN1	1	177001771	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	6977324	177001771	72248850	50	43471											
DHX9	1660	broad.mit.edu	37	chr1	182844070	182844070	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaaggataaggatgatgAtggtggtgaggatgatgatg	14	9	18	0	0	0	6	0	5	0	1	0	10	0	9	0	5	0	0	0	5	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:182844070A>G	uc001gpr.2	+	16	1959	c.1796A>G	c.(1795-1797)GAT>GGT	p.D599G	DHX9_uc001gps.2_Missense_Mutation_p.D385G	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9	599					CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						aaggatgatgatggtggtgag	0.303													48	61					0	0	0.00361	0	0		G	182844070	G	G	182844070	3	3	65	1	0	0	0	0	1	0	0	0	4522	333	12	3	1854	3	DHX9	1	182844070	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	5842299	182844070	66406551	51	43472											
LAMC1	3915	broad.mit.edu	37	chr1	183079760	183079760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccggccgtggaggagggCaactgcggaaagtgccagtg	9	5	18	9	3	0	1	0	1	0	0	0	4	0	4	3	5	3	1	3	5	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:183079760C>T	uc001gpy.3	+	4	1249	c.992C>T	c.(991-993)GCA>GTA	p.A331V		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	331	Laminin EGF-like 1.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGGAGGAGGGCAACTGCGGAA	0.483													41	221					0	0	0.00874	0	0		T	183079760	T	T	183079760	3	4	65	1	0	0	0	0	1	0	0	0	8630	710	25	2	1006	2	LAMC1	1	183079760	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	235690	183079760	66170861	52	43473											
PRG4	10216	broad.mit.edu	37	chr1	186273298	186273298	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaccttcaggagcatcTcaaaccatcaaatcaacaac	15	7	3	16	0	4	0	4	0	1	0	6	1	5	1	4	1	4	1	4	1	4	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:186273298T>G	uc001gru.3	+	5	429	c.378T>G	c.(376-378)TCT>TCG	p.S126S	PRG4_uc001grt.3_Silent_p.S85S|PRG4_uc009wyl.2_Intron|PRG4_uc009wym.2_Intron|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	126					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CAGGAGCATCTCAAACCATCA	0.403													75	44					0	0	0.00361	0	0		G	186273298	G	G	186273298	2	3	65	1	0	0	0	0	0	0	0	1	12503	1538	54	5		5	PRG4	1	186273298	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	3193538	186273298	62977323	53	43474											
FAM5C	339479	broad.mit.edu	37	chr1	190233999	190233999	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaactcattcttacctttAtggcagtggatgcaatttga	11	15	8	7	0	2	1	1	1	1	0	2	2	2	2	1	2	3	3	1	2	5	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:190233999A>C	uc001gse.1	-	4	846	c.614T>G	c.(613-615)ATA>AGA	p.I205R	FAM5C_uc010pot.1_Missense_Mutation_p.I103R	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	205						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TCTTACCTTTATGGCAGTGGA	0.393													26	80					0	0	0.004656	0	0		C	190233999	C	C	190233999	3	2	65	1	0	0	0	0	1	0	0	0	5608	449	16	5	1706	5	FAM5C	1	190233999	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	3960701	190233999	59016622	54	43475											
RGS1	5996	broad.mit.edu	37	chr1	192548282	192548282	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagatcaatattgacttcCgcactcgagaatctacagcc	12	12	6	11	2	2	3	1	1	1	2	4	4	3	3	2	0	2	1	2	0	5	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:192548282C>A	uc001gsi.1	+	5	526	c.460C>A	c.(460-462)CGC>AGC	p.R154S		NM_002922	NP_002913	Q08116	RGS1_HUMAN	regulator of G-protein signalling 1	154	RGS.				immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|negative regulation of signal transduction	cytoplasm|plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity				0		Breast(1374;0.188)				TATTGACTTCCGCACTCGAGA	0.333													20	95					4.35082e-09	4.56403e-09	0.010504	1	0		A	192548282	A	A	192548282	3	1	65	1	0	0	0	0	1	0	0	0	13317	652	23	5	478	5	RGS1	1	192548282	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2314283	192548282	56702339	55	43476											
ASPM	259266	broad.mit.edu	37	chr1	197070110	197070110	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctctgatacatttttcaaTttttgtctaactttcatgcc	8	20	3	10	0	4	1	2	1	2	0	5	1	5	1	2	0	3	0	2	0	3	7			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:197070110T>A	uc001gtu.2	-	18	8528	c.8271A>T	c.(8269-8271)AAA>AAT	p.K2757N	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Missense_Mutation_p.K605N	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2757	IQ 31.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						CATTTTTCAATTTTTGTCTAA	0.348													53	46					0	0	0.00361	0	0		A	197070110	A	A	197070110	3	1	65	1	0	0	0	0	1	0	0	0	1057	1490	52	5	2206	5	ASPM	1	197070110	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	4521828	197070110	52180511	56	43477											
IGFN1	91156	broad.mit.edu	37	chr1	201186437	201186437	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccccaaggccccttccgcGccagccatcctgtcggcctc	4	7	8	22	3	0	0	0	0	0	0	5	0	3	0	9	2	1	0	9	2	1	1	rs142174046	byFrequency	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:201186437G>A	uc001gwc.2	+	6	1870	c.1098G>A	c.(1096-1098)GCG>GCA	p.A366A	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						CCCCTTCCGCGCCAGCCATCC	0.677													21	73					0	0	0.012319	0	0		A	201186437	A	A	201186437	2	1	65	1	0	0	0	0	0	0	0	1	7606	1074	38	1		1	IGFN1	1	201186437	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4116327	201186437	48064184	57	43478											
LEMD1	93273	broad.mit.edu	37	chr1	205388453	205388453	+	Frame_Shift_Del	DEL	T	-	-																															agaccaacaactgtactaacTttttttcatacaactttctg																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:205388453delT	uc001hcj.1	-	3	212	c.110delA	c.(109-111)AAGfs	p.K37fs	LEMD1_uc001hci.1_Frame_Shift_Del_p.K37fs|LEMD1_uc001hck.1_RNA|LEMD1_uc001hcl.1_Intron|LEMD1_uc001hcm.1_Intron|LEMD1_uc001hcn.1_Intron			Q68G75	LEMD1_HUMAN	RecName: Full=LEM domain-containing protein 1;          Short=LEMP-1; AltName: Full=Cancer/testis antigen 50;          Short=CT50;	37	LEM.					integral to membrane|nuclear envelope					0	Breast(84;0.247)		BRCA - Breast invasive adenocarcinoma(75;0.0938)			CTGTACTAACTTTTTTTCATA	0.433													62	95	---	---	---	---						.	-	205388453	-	-	205388453	7	5	65	1	0	1	0	1	0	0	0	0	8735	1609	56	0	224	0	LEMD1	1	205388453	Frame_Shift_Del	DEL	T	TCGA-BR-8360-01A-11D-2340-08	4202016	205388453	43862168	58	43479											
PLXNA2	5362	broad.mit.edu	37	chr1	208216456	208216456	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgcccgggaacaggactcGcatagcgtaggtacgatagt	11	7	14	9	4	0	0	0	0	0	0	1	4	0	2	1	3	4	3	1	3	5	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:208216456G>A	uc001hgz.2	-	21	4725	c.3967C>T	c.(3967-3969)CGA>TGA	p.R1323*		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1323	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		AACAGGACTCGCATAGCGTAG	0.602													21	30					0	0	0.010504	0	0		A	208216456	A	A	208216456	4	1	65	1	0	0	0	0	0	1	0	0	12139	1095	38	1	1765	1	PLXNA2	1	208216456	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2828003	208216456	41034165	59	43480											
C1orf107	27042	broad.mit.edu	37	chr1	210004282	210004282	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgaggaggaggaagaGgaagaagacagtattgtaga	18	5	17	1	0	0	6	0	1	0	5	0	11	0	10	0	4	0	2	0	4	6	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:210004282G>A	uc001hhr.1	+	3	358	c.282G>A	c.(280-282)GAG>GAA	p.E94E	C1orf107_uc009xcu.1_5'UTR	NM_014388	NP_055203	Q68CQ4	DIEXF_HUMAN	digestive-organ expansion factor homolog	94	Glu-rich.				multicellular organismal development	nucleus					0				OV - Ovarian serous cystadenocarcinoma(81;0.0367)		aggaggaagaggaagaagaCA	0.338													35	91					0	0	0.012213	0	0		A	210004282	A	A	210004282	2	1	65	1	0	0	0	0	0	0	0	1	1984	991	35	4		4	C1orf107	1	210004282	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1787826	210004282	39246339	60	43481											
KCNK2	3776	broad.mit.edu	37	chr1	215342563	215342563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttggaaacatctcaccacGcacagaaggcggcaaaatat	16	7	8	10	2	1	1	1	0	1	1	2	2	1	2	1	3	1	2	1	3	5	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:215342563G>A	uc001hkq.2	+	4	666	c.497G>A	c.(496-498)CGC>CAC	p.R166H	KCNK2_uc001hko.2_Missense_Mutation_p.R162H|KCNK2_uc009xdm.2_RNA|KCNK2_uc001hkp.2_RNA|KCNK2_uc010pua.1_RNA|KCNK2_uc001hkr.3_Missense_Mutation_p.R151H	NM_001017425	NP_001017425	O95069	KCNK2_HUMAN	potassium channel, subfamily K, member 2 isoform	166							outward rectifier potassium channel activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.0399)|all cancers(67;0.0556)|GBM - Glioblastoma multiforme(131;0.068)	Dofetilide(DB00204)	ATCTCACCACGCACAGAAGGC	0.294													10	78					0	0	0.001368	0	0		A	215342563	A	A	215342563	3	1	65	1	0	0	0	0	1	0	0	0	8082	1087	38	1	554	1	KCNK2	1	215342563	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	5338281	215342563	33908058	61	43482											
IARS2	55699	broad.mit.edu	37	chr1	220311323	220311323	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggtagctgattccaatGtcttcaccgaagttgcaatt	9	13	11	8	1	2	1	1	1	1	0	3	2	3	1	2	2	2	4	2	2	4	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:220311323G>T	uc001hmc.2	+	17	2217	c.2113G>T	c.(2113-2115)GTC>TTC	p.V705F	IARS2_uc001hmd.2_Missense_Mutation_p.V41F	NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase	705					isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	TGATTCCAATGTCTTCACCGA	0.413													36	105					1.69901e-12	1.82132e-12	0.005524	1	0		T	220311323	T	T	220311323	3	4	65	1	0	0	0	0	1	0	0	0	7490	1377	48	5	2179	5	IARS2	1	220311323	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4968760	220311323	28939298	62	43483											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220327384	220327384	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattgaagttaggtctttgaAaaatgcattttttccctaaa	14	16	6	5	0	1	2	0	2	1	0	2	2	2	2	1	1	1	2	1	1	7	7			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:220327384A>G	uc010puk.1	-	32	3735	c.3571T>C	c.(3571-3573)TTC>CTC	p.F1191L	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Missense_Mutation_p.F771L|RAB3GAP2_uc001hmh.2_Missense_Mutation_p.F135L	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	1191					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		AGGTCTTTGAAAAATGCATTT	0.318													34	112					0	0	0.002836	0	0		G	220327384	G	G	220327384	3	3	65	1	0	0	0	0	1	0	0	0	12961	14	1	3	626	3	RAB3GAP2	1	220327384	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	16061	220327384	28923237	63	43484											
EPHX1	2052	broad.mit.edu	37	chr1	226032198	226032198	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtgttctgcgttcccaGgaagttctccctggacgacc	5	13	10	13	2	2	0	0	0	2	0	4	3	3	2	3	2	1	3	3	2	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:226032198G>A	uc001hpk.2	+	8	1121	c.1041_splice	c.e8-1	p.R347_splice	EPHX1_uc001hpl.2_Splice_Site_p.R347_splice	NM_001136018	NP_001129490	P07099	HYEP_HUMAN	epoxide hydrolase 1						aromatic compound catabolic process|response to toxin	endoplasmic reticulum membrane|integral to membrane|microsome	cis-stilbene-oxide hydrolase activity|epoxide hydrolase activity			ovary(3)|lung(1)	4	Breast(184;0.197)					TGCGTTCCCAGGAAGTTCTCC	0.567													22	57					0	0	0.012319	0	0		A	226032198	A	A	226032198	5	1	65	1	0	0	0	0	0	0	1	0	5187	1014	35	4	1066	4	EPHX1	1	226032198	Splice_Site	SNP	G	TCGA-BR-8360-01A-11D-2340-08	5704814	226032198	23218423	64	43485											
ARF1	375	broad.mit.edu	37	chr1	228285130	228285130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagatccggcccctgtggcGccactacttccagaacacac	10	6	8	17	2	0	2	0	0	0	2	2	2	2	2	5	2	2	0	5	2	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:228285130G>A	uc001hrr.2	+	3	464	c.236G>A	c.(235-237)CGC>CAC	p.R79H	ARF1_uc001hrs.2_Missense_Mutation_p.R79H|ARF1_uc001hrt.2_Intron|ARF1_uc009xev.2_Intron|ARF1_uc001hru.2_Missense_Mutation_p.R79H|ARF1_uc001hrv.2_Missense_Mutation_p.R79H|ARF1_uc001hrw.2_Missense_Mutation_p.R79H	NM_001024226	NP_001019397	P84077	ARF1_HUMAN	ADP-ribosylation factor 1	79					cellular copper ion homeostasis|COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|protein transport|regulation of defense response to virus by virus|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction|viral reproduction	cytosol|Golgi membrane|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity|protein binding|receptor signaling protein activity				0		Prostate(94;0.0405)				CCCCTGTGGCGCCACTACTTC	0.602													27	64					0	0	0.005443	0	0		A	228285130	A	A	228285130	3	1	65	1	0	0	0	0	1	0	0	0	844	1087	38	1	242	1	ARF1	1	228285130	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2252932	228285130	20965491	65	43486											
OBSCN	84033	broad.mit.edu	37	chr1	228538598	228538598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgtggagggagaggacGcccagttcacctgcaccatc	8	8	12	13	1	1	1	1	0	0	1	2	4	1	3	4	3	1	2	4	3	0	2	rs151074400	by1000genomes	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:228538598G>A	uc009xez.1	+	77	18417	c.18373G>A	c.(18373-18375)GCC>ACC	p.A6125T	OBSCN_uc001hsn.2_Missense_Mutation_p.A6125T|OBSCN_uc001hsr.1_Missense_Mutation_p.A754T|OBSCN_uc009xfa.2_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	6125	Ig-like 53.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGGAGAGGACGCCCAGTTCAC	0.597													7	33					0	0	0.004482	0	0		A	228538598	A	A	228538598	3	1	65	1	0	0	0	0	1	0	0	0	10831	1087	38	1	18675	1	OBSCN	1	228538598	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	253468	228538598	20712023	66	43487											
NUP133	55746	broad.mit.edu	37	chr1	229619808	229619808	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacatgttatacctgcagtAttgcagaaaggcagctttca	14	11	8	8	0	1	1	1	0	0	1	1	1	1	1	1	1	5	6	1	1	5	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:229619808A>G	uc001htn.2	-	12	1677	c.1585T>C	c.(1585-1587)TAC>CAC	p.Y529H		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	529					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				TACCTGCAGTATTGCAGAAAG	0.348													18	36					0	0	0.006122	0	0		G	229619808	G	G	229619808	3	3	65	1	0	0	0	0	1	0	0	0	10773	449	16	3	1945	3	NUP133	1	229619808	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	1081210	229619808	19630813	67	43488											
OR2W5	441932	broad.mit.edu	37	chr1	247654684	247654684	+	Frame_Shift_Del	DEL	G	-	-																															cctcagctgctgtggaacctGgggggtccagagaagaccat																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:247654684delG	uc001icz.1	+	1	255	c.255delG	c.(253-255)CTGfs	p.L85fs		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	85					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TGTGGAACCTGGGGGGTCCAG	0.532													45	61	---	---	---	---						.	-	247654684	-	-	247654684	7	5	65	1	0	1	0	1	0	0	0	0	11053	1335	47	0	257	0	OR2W5	1	247654684	Frame_Shift_Del	DEL	G	TCGA-BR-8360-01A-11D-2340-08	18034876	247654684	1595937	68	43489											
OR6F1	343169	broad.mit.edu	37	chr1	247876039	247876039	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaaagtcctggggcagagTtttgttgcctgtgtccattg	7	13	14	7	0	0	2	0	0	0	2	2	3	2	2	3	2	1	3	3	2	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr1:247876039T>C	uc001idj.1	-	1	19	c.19A>G	c.(19-21)ACT>GCT	p.T7A		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	7	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TGGGGCAGAGTTTTGTTGCCT	0.448													57	55					0	0	0.00361	0	0		C	247876039	C	C	247876039	3	2	65	1	0	0	0	0	1	0	0	0	11220	1725	60	3	911	3	OR6F1	1	247876039	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	221355	247876039	1374582	69	43490											
PXDN	7837	broad.mit.edu	37	chr2	1652889	1652889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcatgagcagcgaagtcatgCcgctgccgcacacagggctg	9	6	13	13	3	2	1	2	1	0	0	2	2	2	1	2	1	4	4	2	1	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:1652889C>T	uc002qxa.2	-	17	2727	c.2663G>A	c.(2662-2664)GGC>GAC	p.G888D		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	888					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CGAAGTCATGCCGCTGCCGCA	0.632													7	16					0	0	0.004482	0	0		T	1652889	T	T	1652889	3	4	65	1	0	0	0	0	1	0	0	0	12872	739	26	2	1804	2	PXDN	2	1652889	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08		1652889	241546484	70	43491											
LPIN1	23175	broad.mit.edu	37	chr2	11907961	11907961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataatggagaagcattttttGttcaagaaacagataatgat	17	13	8	3	0	1	4	1	1	0	3	1	5	1	4	0	1	2	2	0	1	5	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:11907961G>A	uc010yjn.1	+	4	539	c.265G>A	c.(265-267)GTT>ATT	p.V89I	LPIN1_uc010yjm.1_Missense_Mutation_p.V138I|LPIN1_uc002rbt.2_Missense_Mutation_p.V89I|LPIN1_uc002rbs.2_Missense_Mutation_p.V89I	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	89	N-LIP.				fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		AGCATTTTTTGTTCAAGAAAC	0.393													19	51					0	0	0.008871	0	0		A	11907961	A	A	11907961	3	1	65	1	0	0	0	0	1	0	0	0	8936	1377	48	4	271	4	LPIN1	2	11907961	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	10255072	11907961	231291412	71	43492											
DTNB	1838	broad.mit.edu	37	chr2	25650468	25650468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctgctctcctgcagggccGacatcctctgctccagttca	5	10	9	17	1	3	0	1	0	2	0	6	1	5	0	5	1	3	4	5	1	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:25650468G>A	uc002rgh.2	-	15	1740	c.1490C>T	c.(1489-1491)TCG>TTG	p.S497L	DTNB_uc002rgg.2_Missense_Mutation_p.S126L|DTNB_uc010yko.1_Missense_Mutation_p.S440L|DTNB_uc010ykp.1_Missense_Mutation_p.S293L|DTNB_uc002rgo.2_Missense_Mutation_p.S288L|DTNB_uc002rgi.2_Missense_Mutation_p.S497L|DTNB_uc002rgj.2_Missense_Mutation_p.S497L|DTNB_uc002rgk.2_Missense_Mutation_p.S467L|DTNB_uc002rgl.2_Missense_Mutation_p.S467L|DTNB_uc002rgq.2_Missense_Mutation_p.S497L|DTNB_uc002rgm.2_Missense_Mutation_p.S467L|DTNB_uc002rgn.2_Missense_Mutation_p.S293L|DTNB_uc002rgr.1_Missense_Mutation_p.S486L|DTNB_uc010ykq.1_Missense_Mutation_p.S350L|DTNB_uc002rgp.1_Missense_Mutation_p.S2L	NM_021907	NP_068707	O60941	DTNB_HUMAN	dystrobrevin, beta isoform 1	497	Potential.					cytoplasm	calcium ion binding|zinc ion binding			large_intestine(2)|ovary(2)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGCAGGGCCGACATCCTCTG	0.473													16	42					0	0	0.007413	0	0		A	25650468	A	A	25650468	3	1	65	1	0	0	0	0	1	0	0	0	4795	1059	37	1	417	1	DTNB	2	25650468	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	13742507	25650468	217548905	72	43493											
OTOF	9381	broad.mit.edu	37	chr2	26699057	26699057	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccctgggctgccttgacCtcctggaagccacagggcag	7	6	14	14	0	0	1	0	1	0	0	1	2	1	2	5	4	2	2	5	4	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:26699057C>A	uc002rhk.2	-	23	2932	c.2805G>T	c.(2803-2805)GAG>GAT	p.E935D	OTOF_uc010yla.1_5'Flank|OTOF_uc002rhh.2_Missense_Mutation_p.E188D|OTOF_uc002rhi.2_Missense_Mutation_p.E245D|OTOF_uc002rhj.2_Missense_Mutation_p.E188D	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	935	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGCCTTGACCTCCTGGAAGC	0.652													7	24					8.12818e-05	8.34754e-05	0.001984	1	0		A	26699057	A	A	26699057	3	1	65	1	0	0	0	0	1	0	0	0	11322	680	24	5	3469	5	OTOF	2	26699057	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1048589	26699057	216500316	73	43494											
PREB	10113	broad.mit.edu	37	chr2	27355197	27355197	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtagcagggagggggcTggcgcaggcgcttgtgggga	6	6	23	6	2	0	1	0	1	0	0	0	3	0	3	0	8	1	5	0	8	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:27355197T>C	uc002rix.1	-	6	1080	c.827A>G	c.(826-828)CAG>CGG	p.Q276R	PREB_uc002riy.1_Missense_Mutation_p.Q204R|PREB_uc002riz.1_RNA|PREB_uc002rja.1_Intron	NM_013388	NP_037520	Q9HCU5	PREB_HUMAN	prolactin regulatory element binding protein	276	Cytoplasmic (Potential).				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|nucleus	DNA binding|guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGGAGGGGGCTGGCGCAGGCG	0.622													24	57					0	0	0.00333	0	0		C	27355197	C	C	27355197	3	2	65	1	0	0	0	0	1	0	0	0	12492	1580	55	3	442	3	PREB	2	27355197	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	656140	27355197	215844176	74	43495											
CCDC88A	55704	broad.mit.edu	37	chr2	55544857	55544857	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaatcatagagagattttaGgtcttctcgctctttgatta	11	16	8	6	1	4	4	1	1	3	3	5	5	4	4	0	1	0	1	0	1	4	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:55544857G>A	uc002ryv.2	-	20	4284	c.3442C>T	c.(3442-3444)CTA>TTA	p.L1148L	CCDC88A_uc010yoz.1_Silent_p.L1149L|CCDC88A_uc010ypa.1_Silent_p.L1148L|CCDC88A_uc002ryu.2_Silent_p.L431L|CCDC88A_uc002rys.2_Silent_p.L134L|CCDC88A_uc002ryw.2_Silent_p.L432L|CCDC88A_uc010fby.1_Silent_p.L28L	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	1149	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						AGAGATTTTAGGTCTTCTCGC	0.388													36	85					0	0	0.004289	0	0		A	55544857	A	A	55544857	2	1	65	1	0	0	0	0	0	0	0	1	2866	991	35	4		4	CCDC88A	2	55544857	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	28189660	55544857	187654516	75	43496											
DYSF	8291	broad.mit.edu	37	chr2	71797446	71797446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggtccacagacctcaacCgggctgtcgatgagcaaggt	11	7	12	11	2	1	2	1	1	0	1	3	3	2	2	3	3	2	2	3	3	3	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:71797446C>T	uc002sie.2	+	28	3389	c.3013C>T	c.(3013-3015)CGG>TGG	p.R1005W	DYSF_uc010feg.2_Missense_Mutation_p.R1036W|DYSF_uc010feh.2_Missense_Mutation_p.R991W|DYSF_uc002sig.3_Missense_Mutation_p.R991W|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.R1005W|DYSF_uc010fef.2_Missense_Mutation_p.R1022W|DYSF_uc010fei.2_Missense_Mutation_p.R1022W|DYSF_uc010fek.2_Missense_Mutation_p.R1023W|DYSF_uc010fej.2_Missense_Mutation_p.R992W|DYSF_uc010fel.2_Missense_Mutation_p.R992W|DYSF_uc010feo.2_Missense_Mutation_p.R1037W|DYSF_uc010fem.2_Missense_Mutation_p.R1006W|DYSF_uc010fen.2_Missense_Mutation_p.R1023W|DYSF_uc002sif.2_Missense_Mutation_p.R1006W	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1005	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						AGACCTCAACCGGGCTGTCGA	0.592													15	37					0	0	0.004007	0	0		T	71797446	T	T	71797446	3	4	65	1	0	0	0	0	1	0	0	0	4865	643	23	1	3315	1	DYSF	2	71797446	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	16252589	71797446	171401927	76	43497											
DYSF	8291	broad.mit.edu	37	chr2	71801367	71801367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcgagggctgggagtacGcctctctttttggctggaag	6	10	17	8	2	1	0	0	0	1	0	2	3	1	2	1	5	1	3	1	5	2	3	rs34660230		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:71801367G>A	uc002sie.2	+	30	3590	c.3214G>A	c.(3214-3216)GCC>ACC	p.A1072T	DYSF_uc010feg.2_Missense_Mutation_p.A1103T|DYSF_uc010feh.2_Missense_Mutation_p.A1058T|DYSF_uc002sig.3_Missense_Mutation_p.A1058T|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.A1072T|DYSF_uc010fef.2_Missense_Mutation_p.A1089T|DYSF_uc010fei.2_Missense_Mutation_p.A1089T|DYSF_uc010fek.2_Missense_Mutation_p.A1090T|DYSF_uc010fej.2_Missense_Mutation_p.A1059T|DYSF_uc010fel.2_Missense_Mutation_p.A1059T|DYSF_uc010feo.2_Missense_Mutation_p.A1104T|DYSF_uc010fem.2_Missense_Mutation_p.A1073T|DYSF_uc010fen.2_Missense_Mutation_p.A1090T|DYSF_uc002sif.2_Missense_Mutation_p.A1073T|DYSF_uc010yqy.1_5'Flank	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1072	Cytoplasmic (Potential).|Arg-rich.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CTGGGAGTACGCCTCTCTTTT	0.662													47	82					0	0	0.00361	0	0		A	71801367	A	A	71801367	3	1	65	1	0	0	0	0	1	0	0	0	4865	1087	38	1	3524	1	DYSF	2	71801367	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3921	71801367	171398006	77	43498											
C2orf51	200523	broad.mit.edu	37	chr2	88828731	88828731	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcacaggaacatgaggcCacgagggaggacgagcgcaa	14	2	14	11	3	1	1	1	1	0	0	1	6	1	4	2	4	2	1	2	4	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:88828731C>A	uc002stb.1	+	4	424	c.282C>A	c.(280-282)GCC>GCA	p.A94A		NM_152670	NP_689883	Q96LM6	TSC21_HUMAN	chromosome 2 open reading frame 51	94						nucleus				skin(1)	1						AACATGAGGCCACGAGGGAGG	0.582													37	63					5.71845e-15	6.24743e-15	0.005524	1	0		A	88828731	A	A	88828731	2	1	65	1	0	0	0	0	0	0	0	1	2176	581	21	5		5	C2orf51	2	88828731	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	17027364	88828731	154370642	78	43499											
EIF2AK3	9451	broad.mit.edu	37	chr2	88885399	88885399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagcctgcgcacaataaacGttgttgctatgatacaaaac	16	9	7	9	2	0	1	0	1	0	0	0	1	0	1	1	0	6	4	1	0	8	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:88885399G>A	uc002stc.3	-	9	1812	c.1610C>T	c.(1609-1611)ACG>ATG	p.T537M		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	537	Cytoplasmic (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						CACAATAAACGTTGTTGCTAT	0.333													14	41					0	0	0.00245	0	0		A	88885399	A	A	88885399	3	1	65	1	0	0	0	0	1	0	0	0	5004	1145	40	1	1776	1	EIF2AK3	2	88885399	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	56668	88885399	154313974	79	43500											
ASTL	431705	broad.mit.edu	37	chr2	96789817	96789817	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgccttgccgaggcctcTgcactgagctttttcagggc	4	11	13	13	1	2	1	1	1	1	0	2	2	2	1	3	3	4	3	3	3	0	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:96789817T>G	uc010yui.1	-	9	1068	c.1068A>C	c.(1066-1068)GCA>GCC	p.A356A		NM_001002036	NP_001002036	Q6HA08	ASTL_HUMAN	astacin-like metalloendopeptidase precursor	356					proteolysis		metalloendopeptidase activity|zinc ion binding				0						CCGAGGCCTCTGCACTGAGCT	0.672													16	52					0	0	0.00499	0	0		G	96789817	G	G	96789817	2	3	65	1	0	0	0	0	0	0	0	1	1064	1567	55	5		5	ASTL	2	96789817	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	7904418	96789817	146409556	80	43501											
CHST10	9486	broad.mit.edu	37	chr2	101023061	101023061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtctttaaaggtcaacGtgatgaacttgctagccacc	10	11	10	10	1	2	2	1	2	1	0	2	2	2	2	2	2	4	1	2	2	5	4	rs148953500		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:101023061G>A	uc002tam.2	-	3	436	c.77C>T	c.(76-78)ACG>ATG	p.T26M		NM_004854	NP_004845	O43529	CHSTA_HUMAN	HNK-1 sulfotransferase	26	Helical; Signal-anchor for type II membrane protein; (Potential).				carbohydrate biosynthetic process|cell adhesion	Golgi membrane|integral to membrane|membrane fraction				ovary(1)	1						AAAGGTCAACGTGATGAACTT	0.473													89	201					0	0	0.00361	0	0		A	101023061	A	A	101023061	3	1	65	1	0	0	0	0	1	0	0	0	3401	1145	40	1	1013	1	CHST10	2	101023061	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4233244	101023061	142176312	81	43502											
NPAS2	4862	broad.mit.edu	37	chr2	101606806	101606806	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgttcagcagcgccacagCtgcgctcccgccaagtctga	7	6	10	18	4	2	1	1	1	1	0	3	1	3	1	4	0	4	4	4	0	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:101606806C>A	uc002tap.1	+	18	2202	c.1916C>A	c.(1915-1917)GCT>GAT	p.A639D	NPAS2_uc010yvt.1_Missense_Mutation_p.A704D|NPAS2_uc010fit.1_Intron	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	639					central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						AGCGCCACAGCTGCGCTCCCG	0.612													18	42					2.94398e-08	3.07882e-08	0.007413	1	0		A	101606806	A	A	101606806	3	1	65	1	0	0	0	0	1	0	0	0	10582	797	28	5	1982	5	NPAS2	2	101606806	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	583745	101606806	141592567	82	43503											
GPR45	11250	broad.mit.edu	37	chr2	105858503	105858503	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatcgtgtaccagaggcCggctatgcgctcggccatca	8	8	11	14	4	2	1	2	0	0	1	4	1	2	1	3	3	2	3	3	3	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:105858503C>T	uc002tco.1	+	1	304	c.188C>T	c.(187-189)CCG>CTG	p.P63L		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	63	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						TACCAGAGGCCGGCTATGCGC	0.622													33	72					0	0	0.012213	0	0		T	105858503	T	T	105858503	3	4	65	1	0	0	0	0	1	0	0	0	6711	652	23	1	190	1	GPR45	2	105858503	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	4251697	105858503	137340870	83	43504											
INSIG2	51141	broad.mit.edu	37	chr2	118864334	118864334	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggatttcgataacaacAtacagttgtctctcacactg	13	12	7	9	1	2	0	1	0	1	0	4	2	2	1	0	1	3	1	0	1	4	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:118864334A>G	uc002tlk.2	+	4	597	c.391A>G	c.(391-393)ATA>GTA	p.I131V	INSIG2_uc010yye.1_Missense_Mutation_p.I23V|INSIG2_uc002tll.2_Missense_Mutation_p.I23V	NM_016133	NP_057217	Q9Y5U4	INSI2_HUMAN	insulin induced protein 2	131	Helical; (Potential).				ER-nuclear sterol response pathway	SREBP-SCAP-Insig complex				ovary(1)|central_nervous_system(1)	2						CGATAACAACATACAGTTGTC	0.373													27	70					0	0	0.004656	0	0		G	118864334	G	G	118864334	3	3	65	1	0	0	0	0	1	0	0	0	7782	217	8	3	401	3	INSIG2	2	118864334	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	13005831	118864334	124335039	84	43505											
STEAP3	55240	broad.mit.edu	37	chr2	120005667	120005667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaccactggctacagcaccGcaagcagatcgggctgctca	10	5	12	14	2	1	1	1	0	0	1	2	2	1	2	2	3	4	6	2	3	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:120005667G>A	uc002tlp.2	+	4	1062	c.905G>A	c.(904-906)CGC>CAC	p.R302H	STEAP3_uc002tlq.2_Missense_Mutation_p.R312H|STEAP3_uc002tlr.2_Missense_Mutation_p.R302H|STEAP3_uc010fle.2_Missense_Mutation_p.R302H	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	302	Ferric oxidoreductase.|Cytoplasmic (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						CTACAGCACCGCAAGCAGATC	0.687													16	27					0	0	0.00499	0	0		A	120005667	A	A	120005667	3	1	65	1	0	0	0	0	1	0	0	0	15304	1087	38	1	945	1	STEAP3	2	120005667	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1141333	120005667	123193706	85	43506											
GLI2	2736	broad.mit.edu	37	chr2	121684992	121684992	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctaccgattgacatgcgacaCcaggaaggaaggtaccatta	14	7	10	10	2	0	1	0	1	0	0	0	5	0	3	3	3	3	1	3	3	5	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:121684992C>T	uc010flp.2	+	2	234	c.204C>T	c.(202-204)CAC>CAT	p.H68H	GLI2_uc010yyu.1_Silent_p.H68H|GLI2_uc002tmp.1_Silent_p.H68H|GLI2_uc010fln.1_RNA|GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Intron|GLI2_uc002tmu.3_Intron|GLI2_uc002tmv.1_Silent_p.H68H|GLI2_uc010flo.1_Intron|GLI2_uc002tmw.1_Silent_p.H68H	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	68					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				ACATGCGACACCAGGAAGGAA	0.572													46	103					0	0	0.011902	0	0		T	121684992	T	T	121684992	2	4	65	1	0	0	0	0	0	0	0	1	6453	506	18	4		4	GLI2	2	121684992	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1679325	121684992	121514381	86	43507											
TUBA3E	112714	broad.mit.edu	37	chr2	130951495	130951495	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtacttgccatggcgaGggtcacacttgaccatctga	9	10	10	12	1	2	2	1	2	1	0	2	3	2	2	3	2	2	1	3	2	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:130951495G>T	uc002tqv.2	-	4	1021	c.920C>A	c.(919-921)CCT>CAT	p.P307H		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	307					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					GCCATGGCGAGGGTCACACTT	0.582													36	117					4.00102e-26	4.50773e-26	0.00623	1	0		T	130951495	T	T	130951495	3	4	65	1	0	0	0	0	1	0	0	0	16774	1000	35	5	440	5	TUBA3E	2	130951495	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	9266503	130951495	112247878	87	43508											
RAB3GAP1	22930	broad.mit.edu	37	chr2	135848572	135848572	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttattggtacatatagggtaTatttacttctggcacatggg	10	16	10	5	0	1	0	0	0	1	0	1	0	1	0	0	4	2	3	0	4	7	10			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:135848572T>C	uc002tuj.2	+	4	180	c.155T>C	c.(154-156)ATA>ACA	p.I52T	RAB3GAP1_uc010fnf.2_Missense_Mutation_p.I52T|RAB3GAP1_uc010fng.2_5'UTR|RAB3GAP1_uc010fnh.1_RNA	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein	52						centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		ATATAGGGTATATTTACTTCT	0.343													21	61					0	0	0.00333	0	0		C	135848572	C	C	135848572	3	2	65	1	0	0	0	0	1	0	0	0	12960	1406	49	3	169	3	RAB3GAP1	2	135848572	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	4897077	135848572	107350801	88	43509											
ZRANB3	84083	broad.mit.edu	37	chr2	135988401	135988401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactacagtattttcctcccGgaatctctttgattcgtcac	8	15	5	13	2	2	1	1	1	1	0	6	2	4	2	2	1	1	1	2	1	3	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:135988401G>A	uc002tum.2	-	13	1753	c.1636C>T	c.(1636-1638)CGG>TGG	p.R546W	ZRANB3_uc002tuk.2_Missense_Mutation_p.R89W|ZRANB3_uc002tul.2_Missense_Mutation_p.R546W	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	546						intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		TTTTCCTCCCGGAATCTCTTT	0.368													32	64					0	0	0.010818	0	0		A	135988401	A	A	135988401	3	1	65	1	0	0	0	0	1	0	0	0	18249	1115	39	1	1639	1	ZRANB3	2	135988401	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	139829	135988401	107210972	89	43510											
HNMT	3176	broad.mit.edu	37	chr2	138758556	138758558	+	In_Frame_Del	DEL	GTT	-	-																															gagtttgtatcaacaatgaaGttgttgagccaagtgctgaa																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:138758556_138758558delGTT	uc002tvc.2	+	4	407_409	c.259_261delGTT	c.(259-261)GTTdel	p.V88del	HNMT_uc002tvf.2_In_Frame_Del_p.V88del	NM_006895	NP_008826	P50135	HNMT_HUMAN	histamine N-methyltransferase isoform 1	88					respiratory gaseous exchange	cytoplasm	histamine N-methyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.125)	Amodiaquine(DB00613)|Histamine Phosphate(DB00667)|Quinacrine(DB01103)	CAACAATGAAGTTGTTGAGCCAA	0.399													22	46	---	---	---	---						.	-	138758558	-	-	138758556	7	5	65	1	0	1	0	1	0	0	0	0	7271	1029	36	0	487	0	HNMT	2	138758556	In_Frame_Del	DEL	GTT	TCGA-BR-8360-01A-11D-2340-08	2770155	138758556	104440817	90	43511											
MBD5	55777	broad.mit.edu	37	chr2	149227818	149227818	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatgcaaacactaactttgTtcacagtaacagtccagtcc	14	10	5	12	0	1	0	1	0	0	0	3	0	3	0	2	0	4	3	2	0	4	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:149227818T>C	uc002twm.3	+	9	3294	c.2306T>C	c.(2305-2307)GTT>GCT	p.V769A	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.V769A|MBD5_uc002twn.1_Missense_Mutation_p.V210A	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	769						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		ACTAACTTTGTTCACAGTAAC	0.473													35	87					0	0	0.003755	0	0		C	149227818	C	C	149227818	3	2	65	1	0	0	0	0	1	0	0	0	9365	1725	60	3	2320	3	MBD5	2	149227818	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	10469262	149227818	93971555	91	43512											
BAZ2B	29994	broad.mit.edu	37	chr2	160335159	160335161	+	In_Frame_Del	DEL	AGA	-	-																															tttgaaactactgaagccacAgaaggtgtcgaagatgaagt																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:160335159_160335161delAGA	uc002uao.2	-	3	422_424	c.70_72delTCT	c.(70-72)TCTdel	p.S24del	BAZ2B_uc002uap.2_In_Frame_Del_p.S24del|BAZ2B_uc002uas.1_In_Frame_Del_p.S24del|BAZ2B_uc002uau.1_In_Frame_Del_p.S24del|BAZ2B_uc002uat.3_In_Frame_Del_p.S24del|BAZ2B_uc010fop.1_In_Frame_Del_p.S24del	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	24					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CTGAAGCCACAGAAGGTGTCGAA	0.429													39	76	---	---	---	---						.	-	160335161	-	-	160335159	7	5	65	1	0	1	0	1	0	0	0	0	1333	175	7	0	6574	0	BAZ2B	2	160335159	In_Frame_Del	DEL	AGA	TCGA-BR-8360-01A-11D-2340-08	11107341	160335159	82864214	92	43513											
SCN2A	6326	broad.mit.edu	37	chr2	166245809	166245809	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggatcctcctcttctcatAgcaaaacccaacaaagtcca	13	9	4	15	0	2	0	1	0	2	0	6	1	5	1	4	1	3	1	4	1	5	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:166245809A>T	uc002udc.2	+	27	5783	c.5493A>T	c.(5491-5493)ATA>ATT	p.I1831I	SCN2A_uc002udd.2_Silent_p.I1831I|SCN2A_uc002ude.2_Silent_p.I1831I	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1831					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	CTCTTCTCATAGCAAAACCCA	0.463													42	107					0	0	0.00874	0	0		T	166245809	T	T	166245809	2	4	65	1	0	0	0	0	0	0	0	1	13941	410	15	5		5	SCN2A	2	166245809	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	5910650	166245809	76953564	93	43514											
SCN9A	6335	broad.mit.edu	37	chr2	167055493	167055493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacacatcctcttgtttccGttttagtgtggttgtgatgg	6	17	11	7	1	1	2	0	1	1	1	3	2	3	2	2	2	0	3	2	2	1	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:167055493G>A	uc010fpl.2	-	27	5964	c.5623C>T	c.(5623-5625)CGG>TGG	p.R1875W	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1886						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	TCTTGTTTCCGTTTTAGTGTG	0.403													43	106					0	0	0.00361	0	0		A	167055493	A	A	167055493	3	1	65	1	0	0	0	0	1	0	0	0	13950	1144	40	1	314	1	SCN9A	2	167055493	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	809684	167055493	76143880	94	43515											
XIRP2	129446	broad.mit.edu	37	chr2	168106617	168106617	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcgaagtcaagggcatacaAgagaaacaagtcttctctaa	16	8	8	9	1	3	1	1	0	2	1	5	3	3	1	0	1	2	1	0	1	7	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:168106617A>C	uc002udx.2	+	8	8733	c.8715A>C	c.(8713-8715)CAA>CAC	p.Q2905H	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.Q2730H|XIRP2_uc010fpq.2_Missense_Mutation_p.Q2683H|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.Q251H	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2730					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGGGCATACAAGAGAAACAAG	0.383													31	78					0	0	0.003271	0	0		C	168106617	C	C	168106617	3	2	65	1	0	0	0	0	1	0	0	0	17456	69	3	5	8745	5	XIRP2	2	168106617	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	1051124	168106617	75092756	95	43516											
LRP2	4036	broad.mit.edu	37	chr2	170058203	170058203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccattgcagataaactcaCgaggtatgcaccttctgtta	12	11	7	11	1	2	1	1	0	1	1	2	2	2	1	2	1	3	4	2	1	4	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:170058203C>T	uc002ues.2	-	44	8600	c.8387G>A	c.(8386-8388)CGT>CAT	p.R2796H		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2796	LDL-receptor class A 18.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GATAAACTCACGAGGTATGCA	0.433													12	53					0	0	0.001368	0	0		T	170058203	T	T	170058203	3	4	65	1	0	0	0	0	1	0	0	0	8974	536	19	1	5724	1	LRP2	2	170058203	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1951586	170058203	73141170	96	43517											
ALS2	57679	broad.mit.edu	37	chr2	202626188	202626188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgagacccaactgacaacCggtaccccatgcccaaatct	14	6	6	15	1	1	2	0	2	1	1	1	3	1	2	5	1	4	1	5	1	5	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:202626188C>T	uc002uyo.2	-	4	885	c.529G>A	c.(529-531)GGT>AGT	p.G177S	ALS2_uc002uyp.3_Missense_Mutation_p.G177S|ALS2_uc002uyq.2_Missense_Mutation_p.G177S|ALS2_uc002uyr.2_Missense_Mutation_p.G177S	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	177	RCC1 3.				cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						AACTGACAACCGGTACCCCAT	0.532													30	55					0	0	0.009535	0	0		T	202626188	T	T	202626188	3	4	65	1	0	0	0	0	1	0	0	0	550	652	23	1	4646	1	ALS2	2	202626188	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	32567985	202626188	40573185	97	43518											
PARD3B	117583	broad.mit.edu	37	chr2	206023539	206023539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attcaggttctgctggcctcGgggtgagcttaaaagggaac	9	10	14	8	1	2	1	1	1	1	0	3	2	2	2	1	5	3	3	1	5	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:206023539G>A	uc002var.1	+	11	1735	c.1528G>A	c.(1528-1530)GGG>AGG	p.G510R	PARD3B_uc010fub.1_Missense_Mutation_p.G510R|PARD3B_uc002vao.1_Missense_Mutation_p.G510R|PARD3B_uc002vap.1_Intron|PARD3B_uc002vaq.1_Missense_Mutation_p.G510R	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	510	PDZ 3.				cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		TGCTGGCCTCGGGGTGAGCTT	0.488													25	67					0	0	0.00333	0	0		A	206023539	A	A	206023539	3	1	65	1	0	0	0	0	1	0	0	0	11463	1116	39	1	1570	1	PARD3B	2	206023539	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3397351	206023539	37175834	98	43519											
RPE	6120	broad.mit.edu	37	chr2	210880764	210880764	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtagcaggagccaatcaGtacacctttcatctcgaggc	10	9	10	12	1	3	0	2	0	1	0	4	2	3	1	2	2	3	4	2	2	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:210880764G>A	uc002vdn.2	+	3	275	c.270G>A	c.(268-270)CAG>CAA	p.Q90Q	RPE_uc002vdm.2_Silent_p.Q90Q|RPE_uc002vdo.2_Silent_p.Q22Q|RPE_uc010zjf.1_Silent_p.Q90Q|RPE_uc002vdp.2_Silent_p.Q19Q|RPE_uc010fup.2_Silent_p.Q22Q|RPE_uc002vdq.2_Silent_p.Q22Q|RPE_uc002vdr.2_Silent_p.Q22Q	NM_199229	NP_954699	Q96AT9	RPE_HUMAN	ribulose-5-phosphate-3-epimerase isoform 1	90					pentose-phosphate shunt	cytosol	metal ion binding|protein homodimerization activity|ribulose-phosphate 3-epimerase activity				0				Epithelial(149;0.00241)|Lung(261;0.041)|all cancers(144;0.0429)|LUSC - Lung squamous cell carcinoma(261;0.0431)		GAGCCAATCAGTACACCTTTC	0.438													16	49					0	0	0.00499	0	0		A	210880764	A	A	210880764	2	1	65	1	0	0	0	0	0	0	0	1	13569	1020	36	4		4	RPE	2	210880764	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4857225	210880764	32318609	99	43520											
SMARCAL1	50485	broad.mit.edu	37	chr2	217279576	217279576	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcaacccattccaggccaAgcaaggcccatcccaaaatt	13	6	7	15	0	0	0	0	0	0	0	2	0	2	0	5	3	2	2	5	3	5	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:217279576A>G	uc002vgc.3	+	3	479	c.149A>G	c.(148-150)AAG>AGG	p.K50R	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.K50R|SMARCAL1_uc010fvg.2_Missense_Mutation_p.K50R	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	50					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		TTCCAGGCCAAGCAAGGCCCA	0.517									Schimke_Immuno-Osseous_Dysplasia				30	92					0	0	0.008361	0	0		G	217279576	G	G	217279576	3	3	65	1	0	0	0	0	1	0	0	0	14798	72	3	3	151	3	SMARCAL1	2	217279576	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	6398812	217279576	25919797	100	43521											
RNF25	64320	broad.mit.edu	37	chr2	219529010	219529010	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctttgggtgcctccgttcGggctgtcgccagggacctcg	2	10	14	15	4	0	0	0	0	0	0	4	1	1	1	5	3	1	2	5	3	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:219529010G>A	uc002vit.2	-	10	1138	c.1050C>T	c.(1048-1050)CCC>CCT	p.P350P	RNF25_uc010fvw.2_Silent_p.P238P	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	350					positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCCTCCGTTCGGGCTGTCGCC	0.617													36	54					0	0	0.003755	0	0		A	219529010	A	A	219529010	2	1	65	1	0	0	0	0	0	0	0	1	13510	1103	39	1		1	RNF25	2	219529010	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2249434	219529010	23670363	101	43522											
CRYBA2	1412	broad.mit.edu	37	chr2	219855029	219855029	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtgggcctgtgtgccgAgctcaccgtaagtacagaac	9	8	13	11	2	1	1	1	0	0	1	1	2	1	1	3	1	4	3	3	1	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:219855029A>C	uc002vjj.1	-	5	574	c.539T>G	c.(538-540)CTC>CGC	p.L180R	CRYBA2_uc002vjk.1_Missense_Mutation_p.L180R	NM_057094	NP_476435	P53672	CRBA2_HUMAN	crystallin, beta A2	180	Beta/gamma crystallin 'Greek key' 4.						structural constituent of eye lens				0		Renal(207;0.0474)		Epithelial(149;9.77e-07)|all cancers(144;0.000167)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTGTGTGCCGAGCTCACCGTA	0.612													9	39					0	0	0.004482	0	0		C	219855029	C	C	219855029	3	2	65	1	0	0	0	0	1	0	0	0	3911	304	11	5	58	5	CRYBA2	2	219855029	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	326019	219855029	23344344	102	43523											
SPEG	10290	broad.mit.edu	37	chr2	220332024	220332024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggtggattggctgtgcCgtggccgcctgctgcagcct	3	10	17	11	2	0	0	0	0	0	0	0	2	0	2	4	5	4	3	4	5	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:220332024C>T	uc010fwg.2	+	10	3010	c.3010C>T	c.(3010-3012)CGT>TGT	p.R1004C		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1004	Ig-like 4.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		TTGGCTGTGCCGTGGCCGCCT	0.627													16	45					0	0	0.004007	0	0		T	220332024	T	T	220332024	3	4	65	1	0	0	0	0	1	0	0	0	15061	652	23	1	3060	1	SPEG	2	220332024	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	476995	220332024	22867349	103	43524											
TM4SF20	79853	broad.mit.edu	37	chr2	228235653	228235653	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagttctgttgttgcagcacGctctttttcttgctgtcaag	5	17	9	10	1	4	0	1	0	3	0	4	0	4	0	0	0	3	7	0	0	1	6	rs138005777		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:228235653G>T	uc002vpb.2	-	2	265	c.227C>A	c.(226-228)GCG>GAG	p.A76E		NM_024795	NP_079071	Q53R12	T4S20_HUMAN	transmembrane 4 L six family member 20	76	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0		Renal(207;0.025)|all_lung(227;0.123)|Esophageal squamous(248;0.23)|all_hematologic(139;0.248)		Epithelial(121;3.8e-11)|all cancers(144;2.57e-08)|Lung(261;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0115)		GTTGCAGCACGCTCTTTTTCT	0.428													91	240					8.45e-40	9.63104e-40	0.00361	1	0		T	228235653	T	T	228235653	3	4	65	1	0	0	0	0	1	0	0	0	15994	1087	38	5	474	5	TM4SF20	2	228235653	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	7903629	228235653	14963720	104	43525											
ITM2C	81618	broad.mit.edu	37	chr2	231740484	231740484	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcctgtgccccagtttggCggcggtgaccctgcagacat	5	9	14	13	2	0	2	0	1	0	1	0	2	0	2	4	3	3	2	4	3	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:231740484C>T	uc002vqz.2	+	3	531	c.411C>T	c.(409-411)GGC>GGT	p.G137G	ITM2C_uc002vra.2_Silent_p.G90G|ITM2C_uc002vrb.2_Silent_p.G137G|ITM2C_uc002vrc.2_Silent_p.G26G|ITM2C_uc002vrd.2_Silent_p.G26G	NM_030926	NP_112188	Q9NQX7	ITM2C_HUMAN	integral membrane protein 2C isoform 1	137	BRICHOS.				negative regulation of neuron projection development|neuron differentiation	Golgi apparatus|integral to membrane|lysosomal membrane|perinuclear region of cytoplasm	beta-amyloid binding				0		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;8.47e-12)|all cancers(144;3.44e-09)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)		CCCAGTTTGGCGGCGGTGACC	0.632													16	84					0	0	0.004007	0	0		T	231740484	T	T	231740484	2	4	65	1	0	0	0	0	0	0	0	1	7930	755	27	1		1	ITM2C	2	231740484	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3504831	231740484	11458889	105	43526											
HJURP	55355	broad.mit.edu	37	chr2	234749823	234749823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcagatgtctgctgcgggcGagttgcgctgtgtgtggggt	3	12	19	7	3	2	1	1	0	1	1	2	2	2	1	0	3	3	3	0	3	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:234749823G>A	uc002vvg.2	-	8	1669	c.1603C>T	c.(1603-1605)CGC>TGC	p.R535C	HJURP_uc010znd.1_Missense_Mutation_p.R474C|HJURP_uc010zne.1_Missense_Mutation_p.R443C	NM_018410	NP_060880	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	535					cell cycle|CenH3-containing nucleosome assembly at centromere|centromeric core chromatin assembly|chromosome segregation|regulation of DNA binding|regulation of protein complex assembly	condensed chromosome kinetochore|cytoplasm|nucleolus|nucleoplasm	DNA binding|histone binding			ovary(1)	1		Breast(86;0.00204)|all_lung(227;0.00433)|Renal(207;0.00685)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0719)|Lung SC(224;0.128)		Epithelial(121;2.01e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000186)|Lung(119;0.00521)|LUSC - Lung squamous cell carcinoma(224;0.00829)		TGCTGCGGGCGAGTTGCGCTG	0.478													15	47					0	0	0.004007	0	0		A	234749823	A	A	234749823	3	1	65	1	0	0	0	0	1	0	0	0	7205	1058	37	1	651	1	HJURP	2	234749823	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3009339	234749823	8449550	106	43527											
UBE2F	140739	broad.mit.edu	37	chr2	238881818	238881818	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccggacggcagccacagcGtccgactcgactcggagggt	7	5	14	15	6	0	0	0	0	0	0	4	4	2	2	3	4	2	1	3	4	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:238881818G>A	uc002vxk.2	+	2	160	c.69G>A	c.(67-69)GCG>GCA	p.A23A	UBE2F_uc010znn.1_Silent_p.A23A|UBE2F_uc002vxl.2_RNA|UBE2F_uc010zno.1_RNA|UBE2F_uc010znp.1_Silent_p.A23A|SCLY_uc002vxm.3_5'UTR	NM_080678	NP_542409	Q969M7	UBE2F_HUMAN	NEDD8-conjugating enzyme	23	Interaction with UBA3.				protein neddylation		ATP binding|NEDD8 ligase activity|protein binding				0		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;6.7e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|Kidney(56;3.53e-09)|KIRC - Kidney renal clear cell carcinoma(57;9.79e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000136)|Lung(119;0.0126)|LUSC - Lung squamous cell carcinoma(224;0.0301)		CAGCCACAGCGTCCGACTCGA	0.458													29	54					0	0	0.008361	0	0		A	238881818	A	A	238881818	2	1	65	1	0	0	0	0	0	0	0	1	16881	1132	40	1		1	UBE2F	2	238881818	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4131995	238881818	4317555	107	43528											
ILKAP	80895	broad.mit.edu	37	chr2	239079235	239079235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccgagccccgctgcaccGccttgttggccagcctgttg	3	8	13	17	4	0	0	0	0	0	0	0	1	0	0	7	2	3	4	7	2	0	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:239079235G>A	uc002vxv.2	-	12	1251	c.1121C>T	c.(1120-1122)GCG>GTG	p.A374V	ILKAP_uc010zns.1_Missense_Mutation_p.A306V|ILKAP_uc002vxw.2_Missense_Mutation_p.A254V	NM_030768	NP_110395	Q9H0C8	ILKAP_HUMAN	integrin-linked kinase-associated protein	374	PP2C-like.					cytoplasm|protein serine/threonine phosphatase complex	metal ion binding|protein binding			ovary(3)	3		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_lung(227;0.152)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;5.49e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.93e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.82e-08)|BRCA - Breast invasive adenocarcinoma(100;0.00012)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0163)		CCGCTGCACCGCCTTGTTGGC	0.622													13	41					0	0	0.00245	0	0		A	239079235	A	A	239079235	3	1	65	1	0	0	0	0	1	0	0	0	7730	1087	38	1	61	1	ILKAP	2	239079235	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	197417	239079235	4120138	108	43529											
OR6B2	389090	broad.mit.edu	37	chr2	240969019	240969019	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtgacaacagtgtacacGgcagagatgagcttgttgga	11	8	15	7	2	0	3	0	2	0	1	0	5	0	4	0	3	3	4	0	3	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:240969019G>A	uc002vyr.2	-	2	874	c.828C>T	c.(826-828)GCC>GCT	p.A276A	OR6B2_uc010zoc.1_Silent_p.A276A	NM_001005853	NP_001005853	Q6IFH4	OR6B2_HUMAN	olfactory receptor, family 6, subfamily B,	276	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.4e-29)|all cancers(36;2.08e-27)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)		CAGTGTACACGGCAGAGATGA	0.488													29	33					0	0	0.00632	0	0		A	240969019	A	A	240969019	2	1	65	1	0	0	0	0	0	0	0	1	11207	1103	39	1		1	OR6B2	2	240969019	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1889784	240969019	2230354	109	43530											
KIF1A	547	broad.mit.edu	37	chr2	241726711	241726711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttggtcgtgtcgttgatcCgagagaagaggtcctcgcag	7	10	15	9	5	0	3	0	1	0	2	5	5	2	3	2	2	0	3	2	2	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:241726711C>T	uc002vzy.2	-	5	532	c.386G>A	c.(385-387)CGG>CAG	p.R129Q	KIF1A_uc010fzk.2_Missense_Mutation_p.R129Q|KIF1A_uc002vzz.1_Missense_Mutation_p.R129Q	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	129	Kinesin-motor.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		GTCGTTGATCCGAGAGAAGAG	0.652													12	20					0	0	0.004007	0	0		T	241726711	T	T	241726711	3	4	65	1	0	0	0	0	1	0	0	0	8299	652	23	1	4858	1	KIF1A	2	241726711	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	757692	241726711	1472662	110	43531											
ANO7	50636	broad.mit.edu	37	chr2	242135202	242135202	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacagaacagacatgcacaGgacctggcgggagacttttc	12	6	13	10	1	0	3	0	0	0	3	1	6	0	5	1	4	2	1	1	4	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr2:242135202G>T	uc002wax.2	+	4	516	c.413G>T	c.(412-414)AGG>ATG	p.R138M	ANO7_uc002waw.2_Missense_Mutation_p.R137M	NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	138	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						GACATGCACAGGACCTGGCGG	0.612													8	21					0.000274275	0.000280416	0.004482	1	0		T	242135202	T	T	242135202	3	4	65	1	0	0	0	0	1	0	0	0	702	1000	35	5	427	5	ANO7	2	242135202	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	408491	242135202	1064171	111	43532											
C3orf32	51066	broad.mit.edu	37	chr3	8669438	8669438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgggactgcttggctttgCgcttggctccgcagcaggat	4	11	14	12	3	0	0	0	0	0	0	2	2	2	2	2	4	3	6	2	4	0	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:8669438C>T	uc003bqu.2	-	8	800	c.554G>A	c.(553-555)CGC>CAC	p.R185H	C3orf32_uc003bqz.2_Missense_Mutation_p.R185H|C3orf32_uc003bqt.2_Missense_Mutation_p.R134H|C3orf32_uc011atg.1_Missense_Mutation_p.R207H|C3orf32_uc003bqv.2_Missense_Mutation_p.R134H|C3orf32_uc003bqw.2_RNA|C3orf32_uc003bqx.2_RNA|C3orf32_uc003bqy.2_Missense_Mutation_p.R185H	NM_015931	NP_057015	Q9Y2M2	CC032_HUMAN	hypothetical protein LOC51066	185	Cys-rich.									skin(1)	1						CTTGGCTTTGCGCTTGGCTCC	0.667													15	30					0	0	0.00499	0	0		T	8669438	T	T	8669438	3	4	65	1	0	0	0	0	1	0	0	0	2225	768	27	1	527	1	C3orf32	3	8669438	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08		8669438	189352992	112	43533											
SLC6A6	6533	broad.mit.edu	37	chr3	14489254	14489254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgcatggaggacaccatgCgcaagaacaagagtgtctgg	13	6	13	9	1	1	2	0	0	1	2	1	4	1	4	1	3	3	2	1	3	3	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:14489254C>T	uc010heg.2	+	12	820	c.529C>T	c.(529-531)CGC>TGC	p.R177C	SLC6A6_uc003byp.2_Missense_Mutation_p.R177C|SLC6A6_uc010hef.1_RNA|SLC6A6_uc003byq.2_Missense_Mutation_p.R177C|SLC6A6_uc003byr.2_RNA	NM_001134367	NP_001127839	P31641	SC6A6_HUMAN	solute carrier family 6 (neurotransmitter	177	Extracellular (Potential).				cellular amino acid metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity|taurine:sodium symporter activity			ovary(1)	1						GGACACCATGCGCAAGAACAA	0.557													6	123					0	0	0.001168	0	0		T	14489254	T	T	14489254	3	4	65	1	0	0	0	0	1	0	0	0	14713	768	27	1	539	1	SLC6A6	3	14489254	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	5819816	14489254	183533176	113	43534											
MRPS25	64432	broad.mit.edu	37	chr3	15094033	15094033	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggctggggcagggcaccTgcccttccacttcacagatg	7	7	12	15	0	1	1	1	0	0	1	2	1	2	1	4	4	1	3	4	4	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:15094033T>C	uc003bzl.2	-	4	552	c.437A>G	c.(436-438)CAG>CGG	p.Q146R	MRPS25_uc011avl.1_Missense_Mutation_p.R117G|MRPS25_uc011avm.1_Intron	NM_022497	NP_071942	P82663	RT25_HUMAN	mitochondrial ribosomal protein S25	146					translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0						GCAGGGCACCTGCCCTTCCAC	0.592													76	155					0	0	0.00361	0	0		C	15094033	C	C	15094033	3	2	65	1	0	0	0	0	1	0	0	0	9854	1580	55	3	88	3	MRPS25	3	15094033	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	604779	15094033	182928397	114	43535											
ZNF385D	79750	broad.mit.edu	37	chr3	21462764	21462764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgggtccaggagctggcCgcaggagtgccggaggaagc	9	4	19	9	2	0	0	0	0	0	0	1	5	1	4	3	6	3	2	3	6	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:21462764C>T	uc003cce.2	-	8	1538	c.1130G>A	c.(1129-1131)CGG>CAG	p.R377Q		NM_024697	NP_078973	Q9H6B1	Z385D_HUMAN	zinc finger protein 385D	377						nucleus	nucleic acid binding|zinc ion binding			large_intestine(2)|skin(2)|ovary(1)	5						AGGAGCTGGCCGCAGGAGTGC	0.453													8	17					0	0	0.006214	0	0		T	21462764	T	T	21462764	3	4	65	1	0	0	0	0	1	0	0	0	17903	652	23	1	61	1	ZNF385D	3	21462764	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	6368731	21462764	176559666	115	43536											
NEK10	152110	broad.mit.edu	37	chr3	27183068	27183068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggacacagcaattcctgCtgatgctgtgggtgataaat	10	11	12	8	0	0	2	0	2	0	0	1	3	1	3	1	2	3	3	1	2	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:27183068C>T	uc010hfk.2	-	12	1211	c.982G>A	c.(982-984)GCA>ACA	p.A328T	NEK10_uc010hfj.2_Missense_Mutation_p.A271T			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	1016							ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						GCAATTCCTGCTGATGCTGTG	0.348													23	49					0	0	0.002299	0	0		T	27183068	T	T	27183068	3	4	65	1	0	0	0	0	1	0	0	0	10341	812	28	2		2	NEK10	3	27183068	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	5720304	27183068	170839362	116	43537											
NEK10	152110	broad.mit.edu	37	chr3	27346260	27346260	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtaaaatatgaagaagctGtttgatgcctccccaaatgc	13	12	8	8	0	0	3	0	2	0	1	1	3	1	3	3	0	3	3	3	0	6	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:27346260G>A	uc003cdt.1	-	13	1280	c.1006C>T	c.(1006-1008)CAG>TAG	p.Q336*		NM_199347	NP_955379	Q6ZWH5	NEK10_HUMAN	NIMA-related kinase 10 isoform 3	336							ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						TGAAGAAGCTGTTTGATGCCT	0.483													20	27					0	0	0.008871	0	0		A	27346260	A	A	27346260	4	1	65	1	0	0	0	0	0	1	0	0	10341	1386	48	4	1184	4	NEK10	3	27346260	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	163192	27346260	170676170	117	43538											
CMTM7	112616	broad.mit.edu	37	chr3	32495741	32495741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttcccaagatgcagccGtctgatgaggccacaacccc	9	8	8	16	1	1	3	0	2	1	1	3	3	3	3	6	1	3	1	6	1	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:32495741G>A	uc003cey.1	+	5	759	c.523G>A	c.(523-525)GTC>ATC	p.V175I	CMTM7_uc003cez.1_Missense_Mutation_p.V142I	NM_138410	NP_612419	Q96FZ5	CKLF7_HUMAN	CKLF-like MARVEL transmembrane domain containing	175					chemotaxis	extracellular space|integral to membrane	cytokine activity				0						AGATGCAGCCGTCTGATGAGG	0.587													14	24					0	0	0.003163	0	0		A	32495741	A	A	32495741	3	1	65	1	0	0	0	0	1	0	0	0	3591	1145	40	1	541	1	CMTM7	3	32495741	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	5149481	32495741	165526689	118	43539											
TRANK1	9881	broad.mit.edu	37	chr3	36898206	36898206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacatgctccctgcccttctCggcctctgtgtcctccacat	4	12	7	18	1	2	0	0	0	2	0	6	1	5	0	5	1	2	1	5	1	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:36898206C>T	uc003cgj.2	-	3	1527	c.1225G>A	c.(1225-1227)GAG>AAG	p.E409K		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	959					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						CTGCCCTTCTCGGCCTCTGTG	0.483													69	124					0	0	0.00361	0	0		T	36898206	T	T	36898206	3	4	65	1	0	0	0	0	1	0	0	0	16480	893	31	1	5950	1	TRANK1	3	36898206	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	4402465	36898206	161124224	119	43540											
SCN10A	6336	broad.mit.edu	37	chr3	38768331	38768331	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccttggagctggagagtggGagtttcaccaccagctcagg	8	8	15	10	0	2	1	2	0	0	1	2	4	2	3	3	4	2	3	3	4	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:38768331G>T	uc003ciq.2	-	16	2853	c.2853C>A	c.(2851-2853)CTC>CTA	p.L951L		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	951					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	TGGAGAGTGGGAGTTTCACCA	0.602													4	67					0.00909568	0.00920316	0.009096	1	0		T	38768331	T	T	38768331	2	4	65	1	0	0	0	0	0	0	0	1	13937	1161	41	5		5	SCN10A	3	38768331	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1870125	38768331	159254099	120	43541											
LIMD1	8994	broad.mit.edu	37	chr3	45637565	45637565	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgatgtccaccctgcctgaGttatcttgtaaagagggtcc	8	12	11	10	0	1	3	0	2	1	1	3	3	3	3	4	1	1	2	4	1	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:45637565G>A	uc003coq.2	+	1	1243	c.1194G>A	c.(1192-1194)GAG>GAA	p.E398E		NM_014240	NP_055055	Q9UGP4	LIMD1_HUMAN	LIM domains containing 1	398					cytoplasmic mRNA processing body assembly|gene silencing by miRNA|multicellular organismal development|negative regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasmic mRNA processing body|nucleus|RNA-induced silencing complex	protein binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.011)|KIRC - Kidney renal clear cell carcinoma(197;0.0264)|Kidney(197;0.0315)		CCCTGCCTGAGTTATCTTGTA	0.622													9	22					0	0	0.008291	0	0		A	45637565	A	A	45637565	2	1	65	1	0	0	0	0	0	0	0	1	8814	1020	36	4		4	LIMD1	3	45637565	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	6869234	45637565	152384865	121	43542											
CCR3	1232	broad.mit.edu	37	chr3	46307111	46307111	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttttggtgtcatcaccagCatcgtcacctggggcctggc	6	11	11	13	1	3	0	3	0	0	0	4	0	3	0	3	4	1	1	3	4	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:46307111C>A	uc003cpg.1	+	4	1005	c.462C>A	c.(460-462)AGC>AGA	p.S154R	CCR3_uc003cpi.1_Missense_Mutation_p.S154R|CCR3_uc003cpj.1_Missense_Mutation_p.S154R|CCR3_uc003cpk.1_Missense_Mutation_p.S175R|CCR3_uc010hjb.1_Missense_Mutation_p.S172R|CCR3_uc003cpl.1_Missense_Mutation_p.S187R	NM_178329	NP_847899	P51677	CCR3_HUMAN	CC chemokine receptor 3 isoform 1	154	Helical; Name=4; (Potential).				cell adhesion|cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|inflammatory response|interspecies interaction between organisms|positive regulation of angiogenesis	integral to plasma membrane				ovary(3)|lung(3)|breast(1)|kidney(1)	8				BRCA - Breast invasive adenocarcinoma(193;0.00119)|KIRC - Kidney renal clear cell carcinoma(197;0.0183)|Kidney(197;0.0216)		TCATCACCAGCATCGTCACCT	0.488													37	64					9.17885e-22	1.03074e-21	0.003271	1	0		A	46307111	A	A	46307111	3	1	65	1	0	0	0	0	1	0	0	0	2945	709	25	5	531	5	CCR3	3	46307111	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	669546	46307111	151715319	122	43543											
KLHL18	23276	broad.mit.edu	37	chr3	47378106	47378106	+	Missense_Mutation	SNP	G	T	T																															tcccatgacaacagcccgcaGccgcgttggcgtggctgtgg																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:47378106G>T	uc003crd.2	+	7	1106	c.980G>T	c.(979-981)AGC>ATC	p.S327I	KLHL18_uc003crc.2_Missense_Mutation_p.S327I|KLHL18_uc011bav.1_Missense_Mutation_p.S215I|KLHL18_uc010hjq.1_Missense_Mutation_p.S183I	NM_025010	NP_079286	O94889	KLH18_HUMAN	kelch-like 18	327	Kelch 1.										0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)		ACAGCCCGCAGCCGCGTTGGC	0.567													17	34					1.33834e-09	1.40607e-09	0.007413	1	0		T	47378106	T	T	47378106	3	4	65	1	0	0	0	0	1	0	0	0	8389	971	34	5	1006	5	KLHL18	3	47378106	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1070995	47378106	150644324	123	43544	87	2									
KLHL18	23276	broad.mit.edu	37	chr3	47378108	47378108	+	Missense_Mutation	SNP	C	T	T																															ccatgacaacagcccgcagcCgcgttggcgtggctgtggtg																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:47378108C>T	uc003crd.2	+	7	1108	c.982C>T	c.(982-984)CGC>TGC	p.R328C	KLHL18_uc003crc.2_Missense_Mutation_p.R328C|KLHL18_uc011bav.1_Missense_Mutation_p.R216C|KLHL18_uc010hjq.1_Missense_Mutation_p.R184C	NM_025010	NP_079286	O94889	KLH18_HUMAN	kelch-like 18	328	Kelch 1.										0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)		AGCCCGCAGCCGCGTTGGCGT	0.567													18	32					0	0	0.006122	0	0		T	47378108	T	T	47378108	3	4	65	1	0	0	0	0	1	0	0	0	8389	652	23	1	1008	1	KLHL18	3	47378108	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2	47378108	150644322	124	43545	87	2									
LAMB2	3913	broad.mit.edu	37	chr3	49166186	49166186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccttcctgtagccgcaCgaagcctgagccagtccagg	8	7	11	15	2	0	2	0	2	0	0	2	3	2	2	6	1	3	2	6	1	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:49166186C>T	uc003cwe.2	-	14	2097	c.1798G>A	c.(1798-1800)GTG>ATG	p.V600M	LAMB2_uc003cwf.1_Missense_Mutation_p.V600M	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	600	Laminin IV type B.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TGTAGCCGCACGAAGCCTGAG	0.617													22	51					0	0	0.005443	0	0		T	49166186	T	T	49166186	3	4	65	1	0	0	0	0	1	0	0	0	8627	536	19	1	3674	1	LAMB2	3	49166186	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1788078	49166186	148856244	125	43546											
RNF123	63891	broad.mit.edu	37	chr3	49743092	49743092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatgatgtacaacctcagcGtacaccagcagctgggcaag	12	7	10	12	1	2	1	2	1	0	0	2	1	2	1	2	1	6	5	2	1	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:49743092G>A	uc003cxh.2	+	24	2370	c.2284G>A	c.(2284-2286)GTA>ATA	p.V762I	RNF123_uc010hky.1_Missense_Mutation_p.V424I|RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	762						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		CAACCTCAGCGTACACCAGCA	0.622													3	23					0	0	0.004672	0	0		A	49743092	A	A	49743092	3	1	65	1	0	0	0	0	1	0	0	0	13458	1145	40	1	2374	1	RNF123	3	49743092	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	576906	49743092	148279338	126	43547											
MON1A	84315	broad.mit.edu	37	chr3	49949043	49949043	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acccatagtgctggaaagtgCctcctcagacccatagcggg	10	7	11	13	1	1	1	1	0	0	1	2	2	2	2	4	2	3	1	4	2	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:49949043C>A	uc003cxz.2	-	3	946	c.820G>T	c.(820-822)GCA>TCA	p.A274S	MON1A_uc003cya.2_Intron|MON1A_uc003cyb.2_Intron	NM_032355	NP_115731	Q86VX9	MON1A_HUMAN	MON1 homolog A isoform a	177							protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		CTGGAAAGTGCCTCCTCAGAC	0.592													26	48					2.44723e-14	2.66511e-14	0.004656	1	0		A	49949043	A	A	49949043	3	1	65	1	0	0	0	0	1	0	0	0	9716	739	26	5	1154	5	MON1A	3	49949043	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	205951	49949043	148073387	127	43548											
MON1A	84315	broad.mit.edu	37	chr3	49949063	49949063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctcctcagacccatagcggGagtacacaggcttccctgcc	8	7	9	17	1	1	1	1	0	0	1	3	2	3	2	5	2	3	2	5	2	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:49949063G>A	uc003cxz.2	-	3	926	c.800C>T	c.(799-801)TCC>TTC	p.S267F	MON1A_uc003cya.2_Intron|MON1A_uc003cyb.2_Intron	NM_032355	NP_115731	Q86VX9	MON1A_HUMAN	MON1 homolog A isoform a	170							protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		CCCATAGCGGGAGTACACAGG	0.597													23	44					0	0	0.00333	0	0		A	49949063	A	A	49949063	3	1	65	1	0	0	0	0	1	0	0	0	9716	1174	41	4	1174	4	MON1A	3	49949063	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	20	49949063	148073367	128	43549											
GRM2	2912	broad.mit.edu	37	chr3	51749144	51749144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttggtgatggtattggccGctacaacatcttcacctatc	8	14	8	11	1	2	1	1	1	1	0	3	1	2	1	2	3	2	2	2	3	4	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:51749144G>A	uc010hlv.2	+	4	1594	c.1355G>A	c.(1354-1356)CGC>CAC	p.R452H	GRM2_uc003dbo.3_5'UTR|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	452	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	GGTATTGGCCGCTACAACATC	0.577													15	30					0	0	0.003163	0	0		A	51749144	A	A	51749144	3	1	65	1	0	0	0	0	1	0	0	0	6813	1087	38	1	1365	1	GRM2	3	51749144	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1800081	51749144	146273286	129	43550											
WNT5A	7474	broad.mit.edu	37	chr3	55513591	55513591	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggttattcatacctagcgAcctgcaagggggggagatgt	10	9	15	7	1	1	1	1	0	0	1	1	3	1	1	2	4	3	2	2	4	4	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:55513591A>G	uc003dhn.2	-	3	460	c.142T>C	c.(142-144)TCG>CCG	p.S48P	WNT5A_uc003dhm.2_Missense_Mutation_p.S33P|WNT5A_uc010hmw.2_Missense_Mutation_p.S33P|WNT5A_uc010hmx.2_Intron	NM_003392	NP_003383	P41221	WNT5A_HUMAN	wingless-type MMTV integration site family,	48					activation of JUN kinase activity|activation of protein kinase B activity|axon guidance|cartilage development|cellular protein localization|cellular response to calcium ion|cellular response to interferon-gamma|cellular response to lipopolysaccharide|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|cervix development|cochlea morphogenesis|convergent extension involved in organogenesis|dopaminergic neuron differentiation|dorsal/ventral axis specification|embryonic digit morphogenesis|embryonic skeletal system development|epithelial cell proliferation involved in mammary gland duct elongation|epithelial to mesenchymal transition|face development|genitalia development|heart looping|hemopoietic stem cell proliferation|keratinocyte differentiation|lateral sprouting involved in mammary gland duct morphogenesis|lens development in camera-type eye|male gonad development|mammary gland branching involved in thelarche|negative regulation of apoptosis|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of mesenchymal cell proliferation|negative regulation of transcription, DNA-dependent|neural tube closure|olfactory bulb interneuron development|optic cup formation involved in camera-type eye development|palate development|positive regulation of angiogenesis|positive regulation of cartilage development|positive regulation of cGMP metabolic process|positive regulation of chemokine biosynthetic process|positive regulation of cytokine secretion involved in immune response|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of macrophage activation|positive regulation of macrophage cytokine production|positive regulation of mesenchymal cell proliferation|positive regulation of neuron projection development|positive regulation of NF-kappaB transcription factor activity|positive regulation of ossification|positive regulation of protein catabolic process|positive regulation of protein kinase C signaling cascade|positive regulation of T cell chemotaxis|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|primitive streak formation|regulation of branching involved in mammary gland duct morphogenesis|somitogenesis|tail morphogenesis|type B pancreatic cell development|urinary bladder development|uterus development|vagina development|Wnt receptor signaling pathway, calcium modulating pathway|wound healing	extracellular space|membrane fraction|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|receptor tyrosine kinase-like orphan receptor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.00377)|Kidney(284;0.00408)|OV - Ovarian serous cystadenocarcinoma(275;0.204)		ATACCTAGCGACCTGCAAGGG	0.468													19	137					0	0	0.010504	0	0		G	55513591	G	G	55513591	3	3	65	1	0	0	0	0	1	0	0	0	17417	289	10	3	1012	3	WNT5A	3	55513591	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	3764447	55513591	142508839	130	43551											
PDZRN3	23024	broad.mit.edu	37	chr3	73450150	73450150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatcgtagtattcatgggCtgagggatgcctgaaaagag	11	10	15	5	1	1	3	1	2	0	1	2	5	1	5	1	3	1	3	1	3	4	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:73450150C>T	uc003dpl.1	-	5	1273	c.1177G>A	c.(1177-1179)GCC>ACC	p.A393T	PDZRN3_uc011bgh.1_Missense_Mutation_p.A50T|PDZRN3_uc010hoe.1_Missense_Mutation_p.A91T|PDZRN3_uc011bgf.1_Missense_Mutation_p.A110T|PDZRN3_uc011bgg.1_Missense_Mutation_p.A113T	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	393							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		TATTCATGGGCTGAGGGATGC	0.478													38	75					0	0	0.006999	0	0		T	73450150	T	T	73450150	3	4	65	1	0	0	0	0	1	0	0	0	11728	797	28	2	2047	2	PDZRN3	3	73450150	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	17936559	73450150	124572280	131	43552											
FILIP1L	11259	broad.mit.edu	37	chr3	99569681	99569681	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctcttcctcctgaactCtggcttcagcaagggctagt	6	13	9	13	0	4	1	1	1	3	0	6	1	6	1	2	2	3	4	2	2	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:99569681C>A	uc003dtm.2	-	5	1302	c.839G>T	c.(838-840)AGA>ATA	p.R280I	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.R280I|FILIP1L_uc010hpf.2_Intron|FILIP1L_uc010hpg.2_Missense_Mutation_p.R40I|FILIP1L_uc003dtn.2_Missense_Mutation_p.R40I|FILIP1L_uc003dtp.1_Missense_Mutation_p.R40I	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	280	Potential.					cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						CTCCTGAACTCTGGCTTCAGC	0.483													70	197					3.07281e-33	3.49068e-33	0.00361	1	0		A	99569681	A	A	99569681	3	1	65	1	0	0	0	0	1	0	0	0	5909	913	32	5	2597	5	FILIP1L	3	99569681	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	26119531	99569681	98452749	132	43553											
CEP97	79598	broad.mit.edu	37	chr3	101445494	101445494	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattaggtccaaatttacccTgtgaagctgatattcacact	13	13	6	9	0	1	2	1	2	0	0	2	2	2	2	2	1	2	1	2	1	6	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:101445494T>C	uc003dvk.1	+	2	127	c.100T>C	c.(100-102)TGT>CGT	p.C34R	CEP97_uc010hpm.1_Missense_Mutation_p.C34R|CEP97_uc011bhf.1_Missense_Mutation_p.C34R|CEP97_uc003dvl.1_5'Flank	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	34						centrosome|nucleus	protein binding			ovary(2)	2						AAATTTACCCTGTGAAGCTGA	0.328													17	32					0	0	0.006122	0	0		C	101445494	C	C	101445494	3	2	65	1	0	0	0	0	1	0	0	0	3266	1580	55	3	106	3	CEP97	3	101445494	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1875813	101445494	96576936	133	43554											
SEMA5B	54437	broad.mit.edu	37	chr3	122646705	122646705	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcccaggctgcggtagatgGcagggtcccgacctgagaag	8	6	16	11	2	0	2	0	1	0	2	1	4	1	2	3	4	2	3	3	4	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:122646705G>T	uc003efz.1	-	8	1086	c.782C>A	c.(781-783)GCC>GAC	p.A261D	SEMA5B_uc011bju.1_Missense_Mutation_p.A203D|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.A261D|SEMA5B_uc010hro.1_Missense_Mutation_p.A203D|SEMA5B_uc010hrp.1_RNA	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	261	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		GCGGTAGATGGCAGGGTCCCG	0.622													21	51					1.01871e-10	1.08021e-10	0.008871	1	0		T	122646705	T	T	122646705	3	4	65	1	0	0	0	0	1	0	0	0	14063	1203	42	5	2737	5	SEMA5B	3	122646705	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	21201211	122646705	75375725	134	43555											
ROPN1B	152015	broad.mit.edu	37	chr3	125701213	125701213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttccagtttctctacaCgtatattgccgaagtggatg	9	13	8	11	2	1	0	0	0	1	0	3	2	2	1	3	1	2	2	3	1	4	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:125701213C>T	uc003eih.2	+	5	725	c.497C>T	c.(496-498)ACG>ATG	p.T166M	ROPN1B_uc010hsb.2_Missense_Mutation_p.T166M|ROPN1B_uc010hsc.2_Missense_Mutation_p.T74M	NM_001012337	NP_001012337	Q9BZX4	ROP1B_HUMAN	ropporin, rhophilin associated protein 1B	166					acrosome reaction|cell-cell adhesion|cytokinesis|fusion of sperm to egg plasma membrane|Rho protein signal transduction|sperm motility|spermatogenesis	cytoplasm|flagellum	cAMP-dependent protein kinase regulator activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling complex scaffold activity				0				GBM - Glioblastoma multiforme(114;0.151)		TTTCTCTACACGTATATTGCC	0.438													26	51					0	0	0.003954	0	0		T	125701213	T	T	125701213	3	4	65	1	0	0	0	0	1	0	0	0	13549	536	19	1	511	1	ROPN1B	3	125701213	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3054508	125701213	72321217	135	43556											
ALDH1L1	10840	broad.mit.edu	37	chr3	125844513	125844513	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gccaggcaggcagctgtcttCcaggacagcatcatcagggg	9	6	14	12	0	3	0	2	0	1	0	4	1	4	1	2	5	2	4	2	5	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:125844513C>T	uc003eim.1	-	15	1936	c.1746G>A	c.(1744-1746)TGG>TGA	p.W582*	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Nonsense_Mutation_p.W481*	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	582	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	CAGCTGTCTTCCAGGACAGCA	0.587													14	46					0	0	0.003163	0	0		T	125844513	T	T	125844513	4	4	65	1	0	0	0	0	0	1	0	0	494	856	30	4	998	4	ALDH1L1	3	125844513	Nonsense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	143300	125844513	72177917	136	43557											
PLXNA1	5361	broad.mit.edu	37	chr3	126707619	126707619	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgcatgagcagacaggCgaggtgtatgtgggcgcagt	8	8	19	6	2	0	2	0	1	0	1	0	3	0	2	0	4	2	4	0	4	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:126707619C>T	uc003ejg.2	+	1	118	c.114C>T	c.(112-114)GGC>GGT	p.G38G		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	61	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		AGCAGACAGGCGAGGTGTATG	0.652													8	39					0	0	0.004482	0	0		T	126707619	T	T	126707619	2	4	65	1	0	0	0	0	0	0	0	1	12138	755	27	1		1	PLXNA1	3	126707619	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	863106	126707619	71314811	137	43558											
GMPS	8833	broad.mit.edu	37	chr3	155633847	155633849	+	In_Frame_Del	DEL	GAG	-	-																															gagaaatgaacttgaaaccaGaggaggttttccttgcccaa																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:155633847_155633849delGAG	uc003faq.2	+	9	1413_1415	c.1078_1080delGAG	c.(1078-1080)GAGdel	p.E361del	GMPS_uc011bom.1_In_Frame_Del_p.E262del	NM_003875	NP_003866	P49915	GUAA_HUMAN	guanine monophosphate synthetase	361					glutamine metabolic process|purine base biosynthetic process	cytosol	ATP binding|GMP synthase (glutamine-hydrolyzing) activity|GMP synthase activity			ovary(2)|lung(1)	3			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CTTGAAACCAGAGGAGGTTTTCC	0.379			T	MLL	AML								18	31	---	---	---	---						.	-	155633849	-	-	155633847	7	5	65	1	0	1	0	1	0	0	0	0	6513	943	33	0	1112	0	GMPS	3	155633847	In_Frame_Del	DEL	GAG	TCGA-BR-8360-01A-11D-2340-08	28926228	155633847	42388583	138	43559											
SERPINI1	5274	broad.mit.edu	37	chr3	167507093	167507093	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attgctcttgcaatgggaatGatggaacttggggcccaagg	10	10	14	7	0	1	1	0	1	1	0	1	3	1	3	1	5	3	2	1	5	4	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:167507093G>C	uc003ffa.3	+	2	375	c.177G>C	c.(175-177)ATG>ATC	p.M59I	SERPINI1_uc003ffb.3_Missense_Mutation_p.M59I	NM_001122752	NP_001116224	Q99574	NEUS_HUMAN	neuroserpin precursor	59					central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1						CAATGGGAATGATGGAACTTG	0.413													23	87					0	0	0.002299	0	0		C	167507093	C	C	167507093	3	2	65	1	0	0	0	0	1	0	0	0	14143	1290	45	5	179	5	SERPINI1	3	167507093	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	11873246	167507093	30515337	139	43560											
SERPINI1	5274	broad.mit.edu	37	chr3	167507159	167507159	+	Frame_Shift_Del	DEL	A	-	-																															tcaatgggatatgacagcctAaaaaatggtaagagtgatca																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:167507159delA	uc003ffa.3	+	2	441	c.243delA	c.(241-243)CTAfs	p.L81fs	SERPINI1_uc003ffb.3_Frame_Shift_Del_p.L81fs	NM_001122752	NP_001116224	Q99574	NEUS_HUMAN	neuroserpin precursor	81					central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1						ATGACAGCCTAAAAAATGGTA	0.388													29	63	---	---	---	---						.	-	167507159	-	-	167507159	7	5	65	1	0	1	0	1	0	0	0	0	14143	349	13	0	245	0	SERPINI1	3	167507159	Frame_Shift_Del	DEL	A	TCGA-BR-8360-01A-11D-2340-08	66	167507159	30515271	140	43561											
PSMD2	5708	broad.mit.edu	37	chr3	184025728	184025728	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accctctgcccctaccacagCgaccggcagcttatgagcca	9	6	8	18	2	1	1	0	1	1	0	1	2	1	1	6	1	5	2	6	1	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:184025728C>T	uc003fnn.1	+	19	2382	c.2349C>T	c.(2347-2349)AGC>AGT	p.S783S	PSMD2_uc011brj.1_Silent_p.S624S|PSMD2_uc011brk.1_Silent_p.S653S	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	783					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	CCTACCACAGCGACCGGCAGC	0.522													29	45					0	0	0.00632	0	0		T	184025728	T	T	184025728	2	4	65	1	0	0	0	0	0	0	0	1	12720	767	27	1		1	PSMD2	3	184025728	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	16518569	184025728	13996702	141	43562											
CHRD	8646	broad.mit.edu	37	chr3	184101309	184101309	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctccatccctgcccatcAggtgcaagtggtagggacaa	9	8	10	14	0	1	0	1	0	0	0	4	1	4	1	4	3	2	2	4	3	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:184101309A>G	uc003fov.2	+	12	1567	c.1321_splice	c.e12-2	p.V441_splice	CHRD_uc003fow.2_Splice_Site_p.V71_splice|CHRD_uc003fox.2_Splice_Site_p.V441_splice|CHRD_uc003foy.2_Splice_Site_p.V71_splice|CHRD_uc010hyc.2_Intron|CHRD_uc011brr.1_Splice_Site_p.V71_splice	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor						BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CCTGCCCATCAGGTGCAAGTG	0.637													8	30					0	0	0.004482	0	0		G	184101309	G	G	184101309	5	3	65	1	0	0	0	0	0	0	1	0	3375	202	7	3	1365	3	CHRD	3	184101309	Splice_Site	SNP	A	TCGA-BR-8360-01A-11D-2340-08	75581	184101309	13921121	142	43563											
GP5	2814	broad.mit.edu	37	chr3	194118899	194118899	+	Frame_Shift_Del	DEL	C	-	-																															cggagatgcgcgccacgtcgCcccccgagcactgcgcggcg																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr3:194118899delC	uc003ftv.1	-	2	144	c.113delG	c.(112-114)GGCfs	p.G38fs		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	38	LRRNT.|Extracellular (Potential).				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		CGCCACGTCGCCCCCCGAGCA	0.692													21	40	---	---	---	---						.	-	194118899	-	-	194118899	7	5	65	1	0	1	0	1	0	0	0	0	6598	739	26	0	1573	0	GP5	3	194118899	Frame_Shift_Del	DEL	C	TCGA-BR-8360-01A-11D-2340-08	10017590	194118899	3903531	143	43564											
PDE6B	5158	broad.mit.edu	37	chr4	656381	656381	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatgacatcgaccaccgCggcaccaacaacctgtacca	12	5	7	17	3	0	1	0	1	0	0	1	2	0	1	6	1	4	2	6	1	3	1	rs140849790		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:656381C>T	uc003gap.2	+	14	1859	c.1806C>T	c.(1804-1806)CGC>CGT	p.R602R	PDE6B_uc003gao.3_Silent_p.R602R|PDE6B_uc011buy.1_Silent_p.R323R|PDE6B_uc011buz.1_Silent_p.R34R	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	602					cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						TCGACCACCGCGGCACCAACA	0.577													9	29					0	0	0.004482	0	0		T	656381	T	T	656381	2	4	65	1	0	0	0	0	0	0	0	1	11665	755	27	1		1	PDE6B	4	656381	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08		656381	190497895	144	43565											
GAK	2580	broad.mit.edu	37	chr4	860221	860221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgggaaggatggtgggaCggtcacagagtccgaattga	12	6	17	6	3	1	3	1	1	0	2	2	7	2	6	1	5	0	0	1	5	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:860221C>T	uc003gbm.3	-	22	3173	c.2974G>A	c.(2974-2976)GTC>ATC	p.V992I	GAK_uc003gbn.3_Missense_Mutation_p.V913I|GAK_uc010ibi.2_Missense_Mutation_p.V173I|GAK_uc010ibj.2_RNA|GAK_uc003gbl.3_Missense_Mutation_p.V845I	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	992					cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		GATGGTGGGACGGTCACAGAG	0.617													8	19					0	0	0.00308	0	0		T	860221	T	T	860221	3	4	65	1	0	0	0	0	1	0	0	0	6210	536	19	1	989	1	GAK	4	860221	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	203840	860221	190294055	145	43566											
SPON2	10417	broad.mit.edu	37	chr4	1165659	1165659	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccagcagcgaagaccactgCgcaggggggcggaacagggg	10	1	18	12	3	0	1	0	0	0	1	0	3	0	2	2	6	4	2	2	6	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:1165659C>T	uc003gcn.3	-	1	228	c.201G>A	c.(199-201)GCG>GCA	p.A67A	SPON2_uc003gco.3_Silent_p.A67A|SPON2_uc010ibr.2_Silent_p.A67A|SPON2_uc003gcm.1_5'Flank	NM_012445	NP_036577	Q9BUD6	SPON2_HUMAN	spondin 2, extracellular matrix protein	67	Spondin.				axon guidance|cell adhesion|innate immune response	proteinaceous extracellular matrix	metal ion binding			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00805)	UCEC - Uterine corpus endometrioid carcinoma (64;0.139)|Colorectal(103;0.19)		AAGACCACTGCGCAGGGGGGC	0.687													21	28					0	0	0.010504	0	0		T	1165659	T	T	1165659	2	4	65	1	0	0	0	0	0	0	0	1	15108	755	27	1		1	SPON2	4	1165659	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	305438	1165659	189988617	146	43567											
FGFR3	2261	broad.mit.edu	37	chr4	1803616	1803616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccggccaaccagacggCggtgctgggcagcgacgtgg	6	4	18	13	5	0	1	0	0	0	1	0	2	0	1	3	5	4	3	3	5	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:1803616C>T	uc003gdr.3	+	7	1050	c.794C>T	c.(793-795)GCG>GTG	p.A265V	FGFR3_uc003gdu.2_Missense_Mutation_p.A265V|FGFR3_uc003gds.3_Missense_Mutation_p.A265V|FGFR3_uc003gdq.3_Missense_Mutation_p.A265V|FGFR3_uc010icb.1_Missense_Mutation_p.A107V|FGFR3_uc003gdt.1_Missense_Mutation_p.A107V	NM_000142	NP_000133	P22607	FGFR3_HUMAN	fibroblast growth factor receptor 3 isoform 1	265	Ig-like C2-type 3.|Extracellular (Potential).				bone maturation|cell growth|insulin receptor signaling pathway|JAK-STAT cascade|MAPKKK cascade|negative regulation of developmental growth|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|identical protein binding	p.A265T(2)		urinary_tract(2177)|skin(314)|upper_aerodigestive_tract(57)|haematopoietic_and_lymphoid_tissue(24)|prostate(9)|cervix(6)|central_nervous_system(4)|large_intestine(3)|lung(3)|testis(2)|pancreas(1)	2600		Breast(71;0.212)|all_epithelial(65;0.241)	all cancers(2;0.000145)|OV - Ovarian serous cystadenocarcinoma(23;0.0019)|Epithelial(3;0.00221)|GBM - Glioblastoma multiforme(2;0.234)		Palifermin(DB00039)	AACCAGACGGCGGTGCTGGGC	0.607		1	Mis|T	IGH@|ETV6	bladder|MM|T-cell lymphoma		Hypochondroplasia|Thanatophoric dysplasia		Muenke_syndrome|Saethre-Chotzen_syndrome				9	16					0	0	0.004482	0	0		T	1803616	T	T	1803616	3	4	65	1	0	0	0	0	1	0	0	0	5881	768	27	1	816	1	FGFR3	4	1803616	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	637957	1803616	189350660	147	43568											
WHSC1	7468	broad.mit.edu	37	chr4	1961359	1961359	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcaggtgtgtcccgcgggCgagttctgccagaaccagtg	6	7	15	13	4	1	1	0	0	1	1	2	2	2	1	4	2	2	2	4	2	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:1961359C>T	uc003gdz.3	+	17	3323	c.3147C>T	c.(3145-3147)GGC>GGT	p.G1049G	WHSC1_uc003geb.3_Silent_p.G1049G|WHSC1_uc003gec.3_Silent_p.G1049G|WHSC1_uc003ged.3_Silent_p.G1049G|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gei.3_Silent_p.G268G|WHSC1_uc011bvh.1_Silent_p.G110G|WHSC1_uc010icf.2_Silent_p.G397G	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	1049	AWS.				anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		GTCCCGCGGGCGAGTTCTGCC	0.567			T	IGH@	MM								26	41					0	0	0.00333	0	0		T	1961359	T	T	1961359	2	4	65	1	0	0	0	0	0	0	0	1	17388	755	27	1		1	WHSC1	4	1961359	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	157743	1961359	189192917	148	43569											
JAKMIP1	152789	broad.mit.edu	37	chr4	6107634	6107634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaatgtaggccgtgtgccGtcgctgctcctgctcgcgct	4	10	13	14	6	0	0	0	0	0	0	3	1	1	0	3	1	3	5	3	1	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:6107634G>A	uc003giu.3	-	3	466	c.190C>T	c.(190-192)CGG>TGG	p.R64W	JAKMIP1_uc010idb.1_Missense_Mutation_p.R64W|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Missense_Mutation_p.R64W|JAKMIP1_uc011bwc.1_Intron|JAKMIP1_uc003giv.3_Missense_Mutation_p.R64W|JAKMIP1_uc010ide.2_Missense_Mutation_p.R64W	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	64	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GCCGTGTGCCGTCGCTGCTCC	0.622													10	31					0	0	0.008291	0	0		A	6107634	A	A	6107634	3	1	65	1	0	0	0	0	1	0	0	0	7956	1144	40	1	2456	1	JAKMIP1	4	6107634	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4146275	6107634	185046642	149	43570											
WFS1	7466	broad.mit.edu	37	chr4	6296826	6296826	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaagaagtacgccaagggCgtcatccccagcagcctgtt	11	7	10	13	2	1	1	1	0	0	1	2	1	2	1	4	1	3	3	4	1	4	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:6296826C>T	uc003giy.2	+	7	937	c.771C>T	c.(769-771)GGC>GGT	p.G257G	WFS1_uc003gix.2_Silent_p.G257G|WFS1_uc003giz.2_Silent_p.G75G	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	257					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		ACGCCAAGGGCGTCATCCCCA	0.577													29	54					0	0	0.005443	0	0		T	6296826	T	T	6296826	2	4	65	1	0	0	0	0	0	0	0	1	17386	755	27	1		1	WFS1	4	6296826	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	189192	6296826	184857450	150	43571											
WFS1	7466	broad.mit.edu	37	chr4	6302499	6302499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacgcaccacatcaacgCgctcatcttcttcttcatcg	8	10	4	19	4	6	0	3	0	3	0	7	0	6	0	3	0	1	2	3	0	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:6302499C>T	uc003giy.2	+	8	1143	c.977C>T	c.(976-978)GCG>GTG	p.A326V	WFS1_uc003gix.2_Missense_Mutation_p.A326V|WFS1_uc003giz.2_Missense_Mutation_p.A144V	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	326	Helical; (Potential).		A -> V.		endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		CACATCAACGCGCTCATCTTC	0.542													31	65					0	0	0.012213	0	0		T	6302499	T	T	6302499	3	4	65	1	0	0	0	0	1	0	0	0	17386	768	27	1	1003	1	WFS1	4	6302499	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	5673	6302499	184851777	151	43572											
CCKAR	886	broad.mit.edu	37	chr4	26483548	26483548	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtcgtaggcccgccaggcGttggcgctgaagatgggcat	6	8	17	10	4	0	2	0	1	0	1	1	2	0	2	2	4	0	4	2	4	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:26483548G>A	uc003gse.1	-	5	1152	c.999C>T	c.(997-999)AAC>AAT	p.N333N		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	333	Helical; Name=6; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	CCCGCCAGGCGTTGGCGCTGA	0.617													30	61					0	0	0.007291	0	0		A	26483548	A	A	26483548	2	1	65	1	0	0	0	0	0	0	0	1	2883	1136	40	1		1	CCKAR	4	26483548	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	20181049	26483548	164670728	152	43573											
TLR10	81793	broad.mit.edu	37	chr4	38776168	38776168	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatttaaatattggaatttCgtaggataattcgggaaaag	17	13	9	2	2	0	0	0	0	0	0	2	3	0	3	0	3	0	1	0	3	9	8			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:38776168C>T	uc003gti.2	-	2	1423	c.1044G>A	c.(1042-1044)ACG>ACA	p.T348T	TLR10_uc003gtj.2_Silent_p.T348T|TLR10_uc003gtk.2_Silent_p.T348T	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	348	LRR 8.|Extracellular (Potential).				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						ATTGGAATTTCGTAGGATAAT	0.328													22	64					0	0	0.010504	0	0		T	38776168	T	T	38776168	2	4	65	1	0	0	0	0	0	0	0	1	15975	871	31	1		1	TLR10	4	38776168	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	12292620	38776168	152378108	153	43574											
KDR	3791	broad.mit.edu	37	chr4	55968171	55968171	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcggatagtgaggttcCggttcccatccttcaataca	8	12	9	12	2	2	1	1	1	1	0	5	2	5	2	3	3	2	2	3	3	3	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:55968171C>T	uc003has.2	-	15	2461	c.2159G>A	c.(2158-2160)CGG>CAG	p.R720Q	KDR_uc003hat.1_Missense_Mutation_p.R720Q	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	720	Ig-like C2-type 7.|Extracellular (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	AGTGAGGTTCCGGTTCCCATC	0.438			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			33	92					0	0	0.004878	0	0		T	55968171	T	T	55968171	3	4	65	1	0	0	0	0	1	0	0	0	8155	652	23	1	1975	1	KDR	4	55968171	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	17192003	55968171	135186105	154	43575											
UGT2B28	54490	broad.mit.edu	37	chr4	70148363	70148363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggactccactgcaaacctGccaaacccctacctaaggta	13	6	7	15	0	0	0	0	0	0	0	1	2	1	1	6	2	5	2	6	2	5	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:70148363G>A	uc003hej.2	+	2	855	c.853G>A	c.(853-855)GCC>ACC	p.A285T	UGT2B28_uc010ihr.2_Missense_Mutation_p.A285T	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	285					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	CTGCAAACCTGCCAAACCCCT	0.388													42	183					0	0	0.00361	0	0		A	70148363	A	A	70148363	3	1	65	1	0	0	0	0	1	0	0	0	16986	1319	46	2	859	2	UGT2B28	4	70148363	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	14180192	70148363	121005913	155	43576											
RASSF6	166824	broad.mit.edu	37	chr4	74442417	74442417	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtaggagcctctgcagtagCggaatgtctgtcttctttag	7	14	12	8	1	4	0	0	0	4	0	4	2	4	2	1	2	3	3	1	2	4	5	rs147932445	byFrequency	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:74442417C>T	uc003hhd.1	-	9	972	c.849G>A	c.(847-849)CCG>CCA	p.P283P	RASSF6_uc003hhc.1_Silent_p.P251P|RASSF6_uc010iik.1_Silent_p.P217P|RASSF6_uc010iil.1_Silent_p.P239P	NM_201431	NP_958834	Q6ZTQ3	RASF6_HUMAN	Ras association (RalGDS/AF-6) domain family 6	283	Ras-associating.				apoptosis|signal transduction		protein binding			pancreas(2)	2	Breast(15;0.00102)		all cancers(17;0.00104)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)			TCTGCAGTAGCGGAATGTCTG	0.403													37	152					0	0	0.006999	0	0		T	74442417	T	T	74442417	2	4	65	1	0	0	0	0	0	0	0	1	13115	755	27	1		1	RASSF6	4	74442417	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	4294054	74442417	116711859	156	43577											
PDLIM5	10611	broad.mit.edu	37	chr4	95496845	95496845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcacttccacaaacaacatgGcctacaataaggcaccacgg	15	6	6	14	1	1	0	1	0	0	0	2	0	2	0	3	3	3	1	3	3	5	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:95496845G>A	uc003hti.2	+	5	521	c.370G>A	c.(370-372)GCC>ACC	p.A124T	PDLIM5_uc003htf.2_Intron|PDLIM5_uc003htg.2_Intron|PDLIM5_uc011cdx.1_Intron|PDLIM5_uc003hth.2_Intron|PDLIM5_uc003htj.2_Intron|PDLIM5_uc003htk.2_Intron|PDLIM5_uc011cdy.1_Missense_Mutation_p.A2T	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	124					regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		AAACAACATGGCCTACAATAA	0.463													56	160					0	0	0.00361	0	0		A	95496845	A	A	95496845	3	1	65	1	0	0	0	0	1	0	0	0	11702	1203	42	2	384	2	PDLIM5	4	95496845	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	21054428	95496845	95657431	157	43578											
MANBA	4126	broad.mit.edu	37	chr4	103553381	103553381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccaaccaaacaaagggagCgacagctgaggtctccaggt	14	5	11	11	1	1	1	0	1	1	0	3	3	2	2	3	3	4	1	3	3	3	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:103553381C>T	uc003hwg.2	-	17	2573	c.2473G>A	c.(2473-2475)GCT>ACT	p.A825T	MANBA_uc011ces.1_Missense_Mutation_p.A768T	NM_005908	NP_005899	O00462	MANBA_HUMAN	mannosidase, beta A, lysosomal precursor	825					carbohydrate metabolic process|protein modification process	lysosome	beta-mannosidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;4.44e-08)		ACAAAGGGAGCGACAGCTGAG	0.413													21	84					0	0	0.00278	0	0		T	103553381	T	T	103553381	3	4	65	1	0	0	0	0	1	0	0	0	9237	768	27	1	170	1	MANBA	4	103553381	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	8056536	103553381	87600895	158	43579											
TET2	54790	broad.mit.edu	37	chr4	106157193	106157193	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaaacttatgtccccagtGttgaaacagcacttgaatca	15	10	7	9	0	1	2	1	2	0	0	2	3	2	2	2	0	3	2	2	0	5	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:106157193G>T	uc003hxk.2	+	3	2480	c.2094G>T	c.(2092-2094)GTG>GTT	p.V698V	TET2_uc011cez.1_Silent_p.V719V|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Silent_p.V698V|TET2_uc003hxi.1_Silent_p.V698V	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	698	Gln-rich.				cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		TGTCCCCAGTGTTGAAACAGC	0.418			Mis N|F		MDS								31	105					5.77227e-19	6.39807e-19	0.008361	1	0		T	106157193	T	T	106157193	2	4	65	1	0	0	0	0	0	0	0	1	15795	1364	48	5		5	TET2	4	106157193	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2603812	106157193	84997083	159	43580											
FAT4	79633	broad.mit.edu	37	chr4	126336826	126336826	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggcaacagatcgaggcagCacacccagaactgatacctc	14	4	9	14	1	0	3	0	1	0	2	2	4	0	3	2	2	4	3	2	2	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:126336826C>T	uc003ifj.3	+	5	6708	c.6708C>T	c.(6706-6708)AGC>AGT	p.S2236S	FAT4_uc011cgp.1_Silent_p.S534S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2236	Cadherin 21.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ATCGAGGCAGCACACCCAGAA	0.448													68	42					0	0	0.00361	0	0		T	126336826	T	T	126336826	2	4	65	1	0	0	0	0	0	0	0	1	5706	709	25	2		2	FAT4	4	126336826	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	20179633	126336826	64817450	160	43581											
INTU	27152	broad.mit.edu	37	chr4	128632225	128632225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcagtgttgtctttccattCgtgcagttttccaacagaca	9	15	7	10	1	2	1	1	0	1	1	5	1	4	1	2	0	2	3	2	0	1	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:128632225C>T	uc003ifk.1	+	14	2597	c.2527C>T	c.(2527-2529)CGT>TGT	p.R843C	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	843										ovary(1)	1						TCTTTCCATTCGTGCAGTTTT	0.413													25	18					0	0	0.005443	0	0		T	128632225	T	T	128632225	3	4	65	1	0	0	0	0	1	0	0	0	7802	884	31	1	2581	1	INTU	4	128632225	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2295399	128632225	62522051	161	43582											
CLGN	1047	broad.mit.edu	37	chr4	141327187	141327188	+	Frame_Shift_Del	DEL	CT	-	-																															tctagattttaataccagtcCtctgtcaccaggtacctggt																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:141327187_141327188delCT	uc011chi.1	-	6	545_546	c.327_328delAG	c.(325-330)AGAGGAfs	p.R109fs	CLGN_uc003iii.2_Frame_Shift_Del_p.R109fs	NM_001130675	NP_001124147	O14967	CLGN_HUMAN	calmegin precursor	109_110	Lumenal (Potential).				protein folding	endoplasmic reticulum membrane|integral to membrane	calcium ion binding|unfolded protein binding			ovary(2)|skin(1)	3	all_hematologic(180;0.162)					AATACCAGTCCTCTGTCACCAG	0.337													25	21	---	---	---	---						.	-	141327188	-	-	141327187	7	5	65	1	0	1	0	1	0	0	0	0	3527	690	24	0	1548	0	CLGN	4	141327187	Frame_Shift_Del	DEL	CT	TCGA-BR-8360-01A-11D-2340-08	12694962	141327187	49827089	162	43583											
ZNF827	152485	broad.mit.edu	37	chr4	146824292	146824292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccataggatgcttctgacGgagtctctgaagagtttcca	9	11	10	11	1	2	3	0	2	2	1	4	5	3	5	3	2	1	2	3	2	2	3	rs149206051		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:146824292G>A	uc003ikn.2	-	2	167	c.119C>T	c.(118-120)CCG>CTG	p.P40L	ZNF827_uc003ikm.2_Missense_Mutation_p.P40L|ZNF827_uc010iox.2_Intron	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	40					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					TGCTTCTGACGGAGTCTCTGA	0.532													23	85					0	0	0.00333	0	0		A	146824292	A	A	146824292	3	1	65	1	0	0	0	0	1	0	0	0	18205	1116	39	1	3162	1	ZNF827	4	146824292	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	5497105	146824292	44329984	163	43584											
FBXW7	55294	broad.mit.edu	37	chr4	153249385	153249385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatgaagatgcatacaacGcacagtggaagtatgcccat	14	9	9	9	1	1	2	1	1	0	1	1	3	1	3	1	1	4	3	1	1	5	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:153249385G>A	uc003ims.2	-	9	1542	c.1393C>T	c.(1393-1395)CGT>TGT	p.R465C	FBXW7_uc011cii.1_Missense_Mutation_p.R465C|FBXW7_uc003imt.2_Missense_Mutation_p.R465C|FBXW7_uc011cih.1_Missense_Mutation_p.R289C|FBXW7_uc003imq.2_Missense_Mutation_p.R385C|FBXW7_uc003imr.2_Missense_Mutation_p.R347C	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	465	WD 3.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in a acute lymphoblastic leukemia cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R465C(52)|p.R465H(36)|p.R465L(2)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TGCATACAACGCACAGTGGAA	0.413			Mis|N|D|F		colorectal|endometrial|T-ALL								56	149					0	0	0.00361	0	0		A	153249385	A	A	153249385	3	1	65	1	0	0	0	0	1	0	0	0	5783	1087	38	1	746	1	FBXW7	4	153249385	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	6425093	153249385	37904891	164	43585											
FHDC1	85462	broad.mit.edu	37	chr4	153881743	153881743	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttaaaagcgtttagtggCgacgtgtcgaagctgtctct	10	12	12	7	4	1	0	0	0	1	0	3	2	1	0	0	1	2	3	0	1	5	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:153881743C>T	uc003inf.2	+	4	765	c.690C>T	c.(688-690)GGC>GGT	p.G230G		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	230	FH2.				actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					CGTTTAGTGGCGACGTGTCGA	0.373													45	23					0	0	0.00361	0	0		T	153881743	T	T	153881743	2	4	65	1	0	0	0	0	0	0	0	1	5890	755	27	1		1	FHDC1	4	153881743	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	632358	153881743	37272533	165	43586											
HAND2	9464	broad.mit.edu	37	chr4	174450000	174450000	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtccatgaggtaggcgatGtagctggtggccaggcgcag	8	7	18	8	2	0	1	0	1	0	0	1	2	1	1	2	6	1	4	2	6	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:174450000G>A	uc003ith.1	-	1	1379	c.441C>T	c.(439-441)TAC>TAT	p.Y147Y	NBLA00301_uc011ckd.1_5'Flank|NBLA00301_uc003itl.3_5'Flank|NBLA00301_uc003itj.2_5'Flank|NBLA00301_uc010irf.2_5'Flank|NBLA00301_uc010irg.2_5'Flank|NBLA00301_uc010irh.2_5'Flank|NBLA00301_uc010iri.2_5'Flank|NBLA00301_uc010irj.2_5'Flank|NBLA00301_uc010irk.2_5'Flank|NBLA00301_uc010irl.2_5'Flank|NBLA00301_uc010irm.2_5'Flank|NBLA00301_uc010irn.2_5'Flank|NBLA00301_uc003itk.2_5'Flank|HAND2_uc003itg.1_Missense_Mutation_p.H113Y|HAND2_uc010ire.1_Silent_p.Y147Y	NM_021973	NP_068808	P61296	HAND2_HUMAN	basic helix-loop-helix transcription factor	147	Helix-loop-helix motif.				adult heart development|angiogenesis|apoptosis|cardiac neural crest cell development involved in outflow tract morphogenesis|heart looping|in utero embryonic development|negative regulation of cardiac muscle cell apoptosis|noradrenergic neuron differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|regulation of secondary heart field cardioblast proliferation|thymus development	nuclear chromatin|transcription factor complex	activating transcription factor binding|protein homodimerization activity|RNA polymerase II regulatory region sequence-specific DNA binding|transcription coactivator activity			skin(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0837)|all_hematologic(60;0.107)		all cancers(43;1.37e-18)|Epithelial(43;5.5e-17)|OV - Ovarian serous cystadenocarcinoma(60;3.3e-10)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		GGTAGGCGATGTAGCTGGTGG	0.592													42	25					0	0	0.009718	0	0		A	174450000	A	A	174450000	2	1	65	1	0	0	0	0	0	0	0	1	6966	1372	48	4		4	HAND2	4	174450000	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	20568257	174450000	16704276	166	43587											
C4orf41	60684	broad.mit.edu	37	chr4	184589196	184589196	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaagggctgcagctttatgCaatgcatgtgaactctcagg	11	10	12	8	0	1	1	1	1	1	0	2	2	1	1	0	2	5	5	0	2	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:184589196C>T	uc003ivx.2	+	5	662	c.486C>T	c.(484-486)TGC>TGT	p.C162C	C4orf41_uc003ivw.2_Silent_p.C162C|C4orf41_uc010isc.2_Intron	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	162											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		CAGCTTTATGCAATGCATGTG	0.383													27	84					0	0	0.009535	0	0		T	184589196	T	T	184589196	2	4	65	1	0	0	0	0	0	0	0	1	2273	718	25	2		2	C4orf41	4	184589196	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	10139196	184589196	6565080	167	43588											
IRF2	3660	broad.mit.edu	37	chr4	185340707	185340708	+	Frame_Shift_Ins	INS	-	A	A																															gcatgcatccaggggatctgINSaaaaatcttcttttcctgaa																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr4:185340707_185340708insA	uc003iwf.3	-	3	302_303	c.102_103insT	c.(100-105)TTTCAGfs	p.F34fs		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	34_35	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		CAGGGGATCTGAAAAATCTTCT	0.426													35	56	---	---	---	---						.	A	185340708	A	A	185340707	7	5	65	1	0	1	1	0	0	0	0	0	7844	1299	45	0	974	0	IRF2	4	185340707	Frame_Shift_Ins	INS	-	TCGA-BR-8360-01A-11D-2340-08	751511	185340707	5813569	168	43589											
SLC12A7	10723	broad.mit.edu	37	chr5	1075484	1075484	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggggggctgacagcgcttAcccgcggtactcgatgtact	8	8	14	11	4	0	1	0	1	0	0	1	2	0	1	1	4	4	4	1	4	4	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:1075484A>G	uc003jbu.2	-	15	2033	c.1967_splice	c.e15+1	p.G656_splice		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride						potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	GACAGCGCTTACCCGCGGTAC	0.657													10	24					0	0	0.001368	0	0		G	1075484	G	G	1075484	5	3	65	1	0	0	0	0	0	0	1	0	14413	405	14	3	1322	3	SLC12A7	5	1075484	Splice_Site	SNP	A	TCGA-BR-8360-01A-11D-2340-08		1075484	179839776	169	43590											
ADAMTS16	170690	broad.mit.edu	37	chr5	5232558	5232558	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccactggtcggactggtcTtcttggtccccatgctccag	4	11	12	14	1	2	0	0	0	2	0	5	1	4	1	4	5	1	1	4	5	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:5232558T>G	uc003jdl.2	+	12	1917	c.1779T>G	c.(1777-1779)TCT>TCG	p.S593S	ADAMTS16_uc003jdk.1_Silent_p.S593S|ADAMTS16_uc010itk.1_5'Flank	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	593	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CGGACTGGTCTTCTTGGTCCC	0.537													36	68					0	0	0.003271	0	0		G	5232558	G	G	5232558	2	3	65	1	0	0	0	0	0	0	0	1	261	1596	56	5		5	ADAMTS16	5	5232558	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	4157074	5232558	175682702	170	43591											
ADCY2	108	broad.mit.edu	37	chr5	7520977	7520977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcttagcgtctgcctgtctGcaacaccgggaggcaaggag	8	8	14	11	2	2	0	0	0	2	0	2	2	2	2	2	3	5	3	2	3	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:7520977G>A	uc003jdz.1	+	3	602	c.535G>A	c.(535-537)GCA>ACA	p.A179T		NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	179	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CTGCCTGTCTGCAACACCGGG	0.607													22	61					0	0	0.002299	0	0		A	7520977	A	A	7520977	3	1	65	1	0	0	0	0	1	0	0	0	294	1319	46	2	545	2	ADCY2	5	7520977	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2288419	7520977	173394283	171	43592											
MTRR	4552	broad.mit.edu	37	chr5	7873500	7873500	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagtatgacctaaaaacCgaaacagctcctcttgttgt	12	13	7	9	1	1	1	0	1	1	0	2	2	2	1	3	0	3	4	3	0	6	6	rs138612190	byFrequency	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:7873500C>T	uc003jed.2	+	3	255	c.225C>T	c.(223-225)ACC>ACT	p.T75T	MTRR_uc010itn.1_Intron|MTRR_uc003jee.3_Silent_p.T48T|MTRR_uc003jef.3_RNA|MTRR_uc003jeg.3_Intron|MTRR_uc010ito.2_RNA	NM_024010	NP_076915	Q9UBK8	MTRR_HUMAN	methionine synthase reductase isoform 2	75	Flavodoxin-like.				methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	ACCTAAAAACCGAAACAGCTC	0.448													43	115					0	0	0.007835	0	0		T	7873500	T	T	7873500	2	4	65	1	0	0	0	0	0	0	0	1	9979	639	23	1		1	MTRR	5	7873500	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	352523	7873500	173041760	172	43593											
MARCH11	441061	broad.mit.edu	37	chr5	16067654	16067654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcttcatggggcctcatccGattgaacaggtgcaataaca	11	10	10	10	1	3	1	2	1	1	0	4	2	4	1	2	3	3	1	2	3	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:16067654G>A	uc003jfo.2	-	4	1348	c.1135C>T	c.(1135-1137)CGG>TGG	p.R379W	MARCH11_uc010itw.1_Missense_Mutation_p.R135W	NM_001102562	NP_001096032	A6NNE9	MARHB_HUMAN	membrane-associated ring finger (C3HC4) 11	379						cytoplasmic vesicle membrane|integral to membrane	ligase activity|zinc ion binding				0						GGCCTCATCCGATTGAACAGG	0.478													57	110					0	0	0.00361	0	0		A	16067654	A	A	16067654	3	1	65	1	0	0	0	0	1	0	0	0	9318	1057	37	1	77	1	MARCH11	5	16067654	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	8194154	16067654	164847606	173	43594											
CDH10	1008	broad.mit.edu	37	chr5	24491847	24491847	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctctgaattgggtaatCattgtctgatatcaccacag	10	13	9	9	0	4	2	2	2	2	0	4	2	4	2	1	1	1	3	1	1	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:24491847C>A	uc003jgr.1	-	11	2046	c.1714G>T	c.(1714-1716)GAT>TAT	p.D572Y	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	572	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ATTGGGTAATCATTGTCTGAT	0.433										HNSCC(23;0.051)			17	34					1.15088e-07	1.20175e-07	0.004007	1	0		A	24491847	A	A	24491847	3	1	65	1	0	0	0	0	1	0	0	0	3099	826	29	5	660	5	CDH10	5	24491847	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	8424193	24491847	156423413	174	43595											
PDZD2	23037	broad.mit.edu	37	chr5	32089364	32089364	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgtcacagcggctccatgTagccgaccacgaggaccctg	9	6	12	14	3	1	0	1	0	0	0	2	3	2	1	4	2	2	2	4	2	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:32089364T>C	uc003jhl.2	+	20	6198	c.5810T>C	c.(5809-5811)GTA>GCA	p.V1937A	PDZD2_uc003jhm.2_Missense_Mutation_p.V1937A	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1937					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CGGCTCCATGTAGCCGACCAC	0.597													24	53					0	0	0.00278	0	0		C	32089364	C	C	32089364	3	2	65	1	0	0	0	0	1	0	0	0	11720	1638	57	3	5884	3	PDZD2	5	32089364	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	7597517	32089364	148825896	175	43596											
MAP3K1	4214	broad.mit.edu	37	chr5	56177584	56177584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccactcacttcaccaggatgCgtcgccgtttgatggctatt	7	12	9	13	3	2	1	2	1	0	0	3	2	2	2	3	2	1	2	3	2	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:56177584C>T	uc003jqw.3	+	14	3058	c.2557C>T	c.(2557-2559)CGT>TGT	p.R853C		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	853					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		CACCAGGATGCGTCGCCGTTT	0.468													28	69					0	0	0.007291	0	0		T	56177584	T	T	56177584	3	4	65	1	0	0	0	0	1	0	0	0	9261	768	27	1	2611	1	MAP3K1	5	56177584	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	24088220	56177584	124737676	176	43597											
MAP1B	4131	broad.mit.edu	37	chr5	71495988	71495988	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaagtctaagcccttggCagcttcaccaaaaccagcgg	11	7	11	12	1	2	0	1	0	1	0	2	1	2	1	3	3	4	2	3	3	4	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:71495988C>A	uc003kbw.3	+	5	7047	c.6806C>A	c.(6805-6807)GCA>GAA	p.A2269E	MAP1B_uc010iyw.1_Missense_Mutation_p.A2286E|MAP1B_uc010iyx.1_Missense_Mutation_p.A2143E|MAP1B_uc010iyy.1_Missense_Mutation_p.A2143E	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	2269						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		AAGCCCTTGGCAGCTTCACCA	0.453													42	114					1.02591e-13	1.11194e-13	0.010771	1	0		A	71495988	A	A	71495988	3	1	65	1	0	0	0	0	1	0	0	0	9246	710	25	5	6824	5	MAP1B	5	71495988	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	15318404	71495988	109419272	177	43598											
THBS4	7060	broad.mit.edu	37	chr5	79355673	79355673	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagagatggcttccagtgtgGgccctgccccgagggctaca	7	8	14	12	1	0	1	0	0	0	1	1	3	1	1	4	3	2	2	4	3	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:79355673G>T	uc003kgh.2	+	8	1255	c.932G>T	c.(931-933)GGG>GTG	p.G311V		NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	311	EGF-like 1.				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		TTCCAGTGTGGGCCCTGCCCC	0.562													39	108					9.88483e-10	1.04011e-09	0.007835	1	0		T	79355673	T	T	79355673	3	4	65	1	0	0	0	0	1	0	0	0	15881	1232	43	5	958	5	THBS4	5	79355673	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	7859685	79355673	101559587	178	43599											
RASGRF2	5924	broad.mit.edu	37	chr5	80363869	80363869	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttatgcagacattttgatTgagagggaagtattaatgca	14	13	11	3	0	0	3	0	2	0	2	0	5	0	4	0	1	2	4	0	1	4	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:80363869T>C	uc003kha.1	+	3	414	c.414T>C	c.(412-414)ATT>ATC	p.I138I	RASGRF2_uc011ctn.1_RNA|RASGRF2_uc003khb.1_5'Flank	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	138					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		ACATTTTGATTGAGAGGGAAG	0.328													31	70					0	0	0.012213	0	0		C	80363869	C	C	80363869	2	2	65	1	0	0	0	0	0	0	0	1	13098	1800	63	3		3	RASGRF2	5	80363869	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1008196	80363869	100551391	179	43600											
RASGRF2	5924	broad.mit.edu	37	chr5	80382675	80382675	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaatgcacgatgaagtcagCgacactgaaaacataaggaa	18	6	10	7	2	1	2	1	2	0	0	1	5	1	3	0	1	3	2	0	1	6	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:80382675C>T	uc003kha.1	+	9	1293	c.1293C>T	c.(1291-1293)AGC>AGT	p.S431S	RASGRF2_uc011ctn.1_RNA|RASGRF2_uc003khb.1_Silent_p.S259S	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	431					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		ATGAAGTCAGCGACACTGAAA	0.468													14	31					0	0	0.003163	0	0		T	80382675	T	T	80382675	2	4	65	1	0	0	0	0	0	0	0	1	13098	767	27	1		1	RASGRF2	5	80382675	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	18806	80382675	100532585	180	43601											
KCNN2	3781	broad.mit.edu	37	chr5	113798824	113798824	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataacttttctctccattggTtatggtgacatggtacctaa	10	16	7	8	0	1	1	0	1	1	0	3	1	2	1	2	3	2	2	2	3	4	7			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:113798824T>G	uc003kqo.2	+	4	1537	c.1080T>G	c.(1078-1080)GGT>GGG	p.G360G	KCNN2_uc003kqp.2_Silent_p.G12G|KCNN2_uc010jcg.2_RNA|uc003kqq.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	360						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		TCTCCATTGGTTATGGTGACA	0.378													45	122					0	0	0.011902	0	0		G	113798824	G	G	113798824	2	3	65	1	0	0	0	0	0	0	0	1	8095	1712	60	5		5	KCNN2	5	113798824	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	33416149	113798824	67116436	181	43602											
FAM13B	51306	broad.mit.edu	37	chr5	137284728	137284728	+	Frame_Shift_Del	DEL	T	-	-																															agggttgcttctttagatggTtttttctccttctgaatgac																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:137284728delT	uc003lbz.2	-	17	2544	c.2010delA	c.(2008-2010)AAAfs	p.K670fs	FAM13B_uc003lcb.2_Frame_Shift_Del_p.K574fs|FAM13B_uc003lca.2_Frame_Shift_Del_p.K670fs	NM_016603	NP_057687	Q9NYF5	FA13B_HUMAN	hypothetical protein LOC51306 isoform 1	670					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						CTTTAGATGGTTTTTTCTCCT	0.383													52	108	---	---	---	---						.	-	137284728	-	-	137284728	7	5	65	1	0	1	0	1	0	0	0	0	5464	1722	60	0	765	0	FAM13B	5	137284728	Frame_Shift_Del	DEL	T	TCGA-BR-8360-01A-11D-2340-08	23485904	137284728	43630532	182	43603											
CTNNA1	1495	broad.mit.edu	37	chr5	138160446	138160446	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcctcacagcaccagggTggaggaggaggagaactggc	11	4	17	9	0	1	1	1	0	0	1	1	6	1	4	2	6	3	1	2	6	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:138160446T>A	uc003ldh.2	+	6	911	c.816T>A	c.(814-816)GGT>GGA	p.G272G	CTNNA1_uc011cyx.1_Silent_p.G169G|CTNNA1_uc011cyy.1_Silent_p.G149G|CTNNA1_uc003ldi.2_Intron|CTNNA1_uc003ldj.2_Silent_p.G272G	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	272					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AGCACCAGGGTGGAGGAGGAG	0.522													25	88					0	0	0.007291	0	0		A	138160446	A	A	138160446	2	1	65	1	0	0	0	0	0	0	0	1	4015	1683	59	5		5	CTNNA1	5	138160446	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	875718	138160446	42754814	183	43604											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139918632	139918632	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaaccctatgataaaagtTatccaaaattcaactgaatg	17	11	6	7	0	1	2	1	2	0	0	2	3	2	3	2	1	2	1	2	1	9	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:139918632T>C	uc003lfs.1	+	33	7657	c.7533T>C	c.(7531-7533)GTT>GTC	p.V2511V	ANKHD1_uc003lfr.2_Silent_p.V2511V|ANKHD1-EIF4EBP3_uc011czh.1_Silent_p.V1267V|ANKHD1_uc003lfw.2_Silent_p.V1166V|ANKHD1_uc010jfl.2_Silent_p.V887V|ANKHD1-EIF4EBP3_uc003lfx.1_Silent_p.V656V	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	2511						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGATAAAAGTTATCCAAAATT	0.403													18	39					0	0	0.007413	0	0		C	139918632	C	C	139918632	2	2	65	1	0	0	0	0	0	0	0	1	629	1741	61	3		3	ANKHD1-EIF4EBP3	5	139918632	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1758186	139918632	40996628	184	43605											
PCDHA4	56144	broad.mit.edu	37	chr5	140188676	140188676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgagatcagcacaacgcGtgccctggacgaaacggacg	11	4	14	12	6	1	1	1	0	0	1	1	5	1	3	1	3	4	1	1	3	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:140188676G>A	uc003lhi.2	+	1	2005	c.1904G>A	c.(1903-1905)CGT>CAT	p.R635H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.R635H|PCDHA4_uc011daa.1_Missense_Mutation_p.R635H	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	635	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCACAACGCGTGCCCTGGAC	0.682													39	57					0	0	0.009718	0	0		A	140188676	A	A	140188676	3	1	65	1	0	0	0	0	1	0	0	0	11545	1145	40	1	1906	1	PCDHA4	5	140188676	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	270044	140188676	40726584	185	43606											
PCDHA5	56143	broad.mit.edu	37	chr5	140202836	140202836	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacgccctggtgtcctactcGctggtggagcggcgggtggg	4	8	18	11	4	0	0	0	0	0	0	2	1	1	1	2	6	3	1	2	6	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:140202836G>A	uc003lhl.2	+	1	1476	c.1476G>A	c.(1474-1476)TCG>TCA	p.S492S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.S492S|PCDHA5_uc003lhj.1_Silent_p.S492S	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	492	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCCTACTCGCTGGTGGAGC	0.667													21	51					0	0	0.009535	0	0		A	140202836	A	A	140202836	2	1	65	1	0	0	0	0	0	0	0	1	11546	1074	38	1		1	PCDHA5	5	140202836	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	14160	140202836	40712424	186	43607											
PCDHA9	9752	broad.mit.edu	37	chr5	140229691	140229691	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagttccaggtgagcgcGcgcgacgcgggcgtgccgcc	5	5	16	15	8	0	1	0	1	0	0	1	2	1	1	3	2	3	1	3	2	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:140229691G>A	uc003lhu.2	+	1	2335	c.1611G>A	c.(1609-1611)GCG>GCA	p.A537A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Silent_p.A537A	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	537	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGTGAGCGCGCGCGACGCGG	0.662													44	88					0	0	0.00361	0	0		A	140229691	A	A	140229691	2	1	65	1	0	0	0	0	0	0	0	1	11550	1074	38	1		1	PCDHA9	5	140229691	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	26855	140229691	40685569	187	43608											
PCDHB6	56130	broad.mit.edu	37	chr5	140530024	140530024	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagctggcttcgcggggCgctcgggttgttttcaaagg	4	10	19	8	4	1	0	1	0	0	0	3	1	1	1	0	7	1	5	0	7	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:140530024C>T	uc003lir.2	+	1	186	c.186C>T	c.(184-186)GGC>GGT	p.G62G	PCDHB6_uc011dah.1_Intron	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	62	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTTCGCGGGGCGCTCGGGTTG	0.517													41	73					0	0	0.011902	0	0		T	140530024	T	T	140530024	2	4	65	1	0	0	0	0	0	0	0	1	11565	755	27	1		1	PCDHB6	5	140530024	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	300333	140530024	40385236	188	43609											
PCDHGA4	56111	broad.mit.edu	37	chr5	140734826	140734826	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccagatctgccttctccTgggggttctggtggaaatca	6	12	12	11	0	4	1	1	0	3	1	6	2	5	2	3	4	1	2	3	4	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:140734826T>G	uc003ljq.1	+	1	59	c.59T>G	c.(58-60)CTG>CGG	p.L20R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.L20R	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	20					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCCTTCTCCTGGGGGTTCTG	0.622													11	47					0	0	0.001368	0	0		G	140734826	G	G	140734826	3	3	65	1	0	0	0	0	1	0	0	0	11575	1580	55	5	61	5	PCDHGA4	5	140734826	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	204802	140734826	40180434	189	43610											
PCDHGB6	56100	broad.mit.edu	37	chr5	140789059	140789059	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccactgacaggggcaagccGcctctttcttccagtagaag	9	8	11	13	1	2	2	0	1	2	1	3	2	3	2	4	2	1	2	4	2	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:140789059G>A	uc003lkj.1	+	1	1290	c.1290G>A	c.(1288-1290)CCG>CCA	p.P430P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Silent_p.P430P	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	430	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGGCAAGCCGCCTCTTTCTT	0.532													20	38					0	0	0.007413	0	0		A	140789059	A	A	140789059	2	1	65	1	0	0	0	0	0	0	0	1	11586	1074	38	1		1	PCDHGB6	5	140789059	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	54233	140789059	40126201	190	43611											
NDST1	3340	broad.mit.edu	37	chr5	149901098	149901098	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtggagagcctctactcGcaactgggccaggaggtggt	7	10	15	9	1	1	1	0	0	1	1	2	3	1	2	2	5	3	1	2	5	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:149901098G>A	uc003lsk.3	+	2	784	c.282G>A	c.(280-282)TCG>TCA	p.S94S	NDST1_uc011dcj.1_Silent_p.S94S|NDST1_uc003lsl.2_Silent_p.S94S	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	94	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCCTCTACTCGCAACTGGGCC	0.637													33	65					0	0	0.002836	0	0		A	149901098	A	A	149901098	2	1	65	1	0	0	0	0	0	0	0	1	10274	1074	38	1		1	NDST1	5	149901098	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	9112039	149901098	31014162	191	43612											
NDST1	3340	broad.mit.edu	37	chr5	149927851	149927851	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgattaccgccggctctgaCgcatcctcgaagctgcgtgc	6	9	12	14	5	1	2	0	2	1	0	3	3	2	2	3	1	4	3	3	1	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:149927851C>T	uc003lsk.3	+	12	2719	c.2217C>T	c.(2215-2217)GAC>GAT	p.D739D	NDST1_uc011dcj.1_Intron	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	739	Heparan sulfate N-sulfotransferase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCGGCTCTGACGCATCCTCGA	0.627													9	31					0	0	0.004482	0	0		T	149927851	T	T	149927851	2	4	65	1	0	0	0	0	0	0	0	1	10274	535	19	1		1	NDST1	5	149927851	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	26753	149927851	30987409	192	43613											
FAT2	2196	broad.mit.edu	37	chr5	150932777	150932777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtccgggtctgccctctaCgctgatgacccccaccatgt	6	9	10	16	2	2	2	0	2	2	0	3	3	3	2	5	1	2	1	5	1	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:150932777C>T	uc003lue.3	-	5	4130	c.4117G>A	c.(4117-4119)GTA>ATA	p.V1373I	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1373	Extracellular (Potential).|Cadherin 12.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTGCCCTCTACGCTGATGACC	0.587													23	52					0	0	0.004656	0	0		T	150932777	T	T	150932777	3	4	65	1	0	0	0	0	1	0	0	0	5704	536	19	1	9008	1	FAT2	5	150932777	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1004926	150932777	29982483	193	43614											
WWC1	23286	broad.mit.edu	37	chr5	167812251	167812251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatcctcgagtacaatggCggcgggagcaggaacatatg	12	6	15	8	3	0	0	0	0	0	0	2	4	1	3	1	5	3	2	1	5	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:167812251C>T	uc003lzu.2	+	3	358	c.265C>T	c.(265-267)CGG>TGG	p.R89W	WWC1_uc003lzv.2_Missense_Mutation_p.R89W|WWC1_uc011den.1_Missense_Mutation_p.R89W	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	89					cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		AGTACAATGGCGGCGGGAGCA	0.542													12	33					0	0	0.010729	0	0		T	167812251	T	T	167812251	3	4	65	1	0	0	0	0	1	0	0	0	17437	759	27	1	275	1	WWC1	5	167812251	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	16879474	167812251	13103009	194	43615											
SLIT3	6586	broad.mit.edu	37	chr5	168096822	168096822	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcgccgctaaagccgggctgGcacaggcagtagggctcccc	7	5	14	15	3	0	0	0	0	0	0	2	0	1	0	4	4	1	6	4	4	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:168096822G>A	uc003mab.2	-	35	4722	c.4302C>T	c.(4300-4302)TGC>TGT	p.C1434C	SLIT3_uc010jjg.2_Silent_p.C1441C	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	1434	EGF-like 9.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGCCGGGCTGGCACAGGCAGT	0.517													9	32					0	0	0.008291	0	0		A	168096822	A	A	168096822	2	1	65	1	0	0	0	0	0	0	0	1	14766	1195	42	2		2	SLIT3	5	168096822	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	284571	168096822	12818438	195	43616											
KCNIP1	30820	broad.mit.edu	37	chr5	169931586	169931586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgctgccatgggggccGtcatgggcaccttctcatct	4	12	11	14	2	4	0	2	0	3	0	6	0	4	0	3	3	1	2	3	3	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:169931586G>A	uc003mas.2	+	1	539	c.10G>A	c.(10-12)GTC>ATC	p.V4I	KCNIP1_uc003map.2_Intron|KCNIP1_uc003mat.2_Missense_Mutation_p.V4I|KCNIP1_uc010jjp.2_5'UTR|KCNIP1_uc010jjq.2_Missense_Mutation_p.V4I	NM_001034837	NP_001030009	Q9NZI2	KCIP1_HUMAN	Kv channel interacting protein 1 isoform 1	4					detection of calcium ion|signal transduction|synaptic transmission	plasma membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0191)|all_lung(126;0.0297)	Medulloblastoma(196;0.0109)|all_neural(177;0.0177)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CATGGGGGCCGTCATGGGCAC	0.577													16	57					0	0	0.004007	0	0		A	169931586	A	A	169931586	3	1	65	1	0	0	0	0	1	0	0	0	8055	1145	40	1	104	1	KCNIP1	5	169931586	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1834764	169931586	10983674	196	43617											
STC2	8614	broad.mit.edu	37	chr5	172744927	172744927	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtccctgagccccaaggcCcccgactctgcctcgggcat	6	6	11	18	2	1	1	0	1	1	0	3	2	2	1	6	3	2	1	6	3	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:172744927C>T	uc003mco.1	-	4	2142	c.832G>A	c.(832-834)GGC>AGC	p.G278S	STC2_uc003mcn.1_Missense_Mutation_p.G193S	NM_003714	NP_003705	O76061	STC2_HUMAN	stanniocalcin 2 precursor	278					cell surface receptor linked signaling pathway|cell-cell signaling	extracellular region	hormone activity			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.223)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GCCCCAAGGCCCCCGACTCTG	0.607													25	60					0	0	0.00278	0	0		T	172744927	T	T	172744927	3	4	65	1	0	0	0	0	1	0	0	0	15301	623	22	4	80	4	STC2	5	172744927	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2813341	172744927	8170333	197	43618											
HRH2	3274	broad.mit.edu	37	chr5	175110591	175110591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagcctcgaccggtactgcGctgtcatggacccactgcgg	6	8	12	15	4	2	0	2	0	0	0	3	2	2	1	3	3	4	2	3	3	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:175110591G>A	uc003mdd.2	+	1	2128	c.355G>A	c.(355-357)GCT>ACT	p.A119T	HRH2_uc003mdc.3_Missense_Mutation_p.A119T	NM_022304	NP_071640	P25021	HRH2_HUMAN	histamine receptor H2 isoform 2	119	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|immune response	integral to plasma membrane	histamine receptor activity			ovary(1)	1	all_cancers(89;0.00805)|Renal(175;0.000269)|Lung NSC(126;0.00419)|all_lung(126;0.00711)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Colorectal(1;0.0154)|COAD - Colon adenocarcinoma(1;0.149)	Betazole(DB00272)|Cimetidine(DB00501)|Doxepin(DB01142)|Epinastine(DB00751)|Famotidine(DB00927)|Histamine Phosphate(DB00667)|Nizatidine(DB00585)|Ranitidine(DB00863)	CCGGTACTGCGCTGTCATGGA	0.532													13	37					0	0	0.001855	0	0		A	175110591	A	A	175110591	3	1	65	1	0	0	0	0	1	0	0	0	7372	1087	38	1	357	1	HRH2	5	175110591	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2365664	175110591	5804669	198	43619											
GPRIN1	114787	broad.mit.edu	37	chr5	176025084	176025084	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccttccccgagggcacCgggactgtttttcctggagt	5	11	11	14	2	0	0	0	0	0	0	3	3	3	2	6	3	0	2	6	3	0	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:176025084C>T	uc003meo.1	-	2	1927	c.1752G>A	c.(1750-1752)CCG>CCA	p.P584P		NM_052899	NP_443131	Q7Z2K8	GRIN1_HUMAN	G protein-regulated inducer of neurite outgrowth	584						growth cone|plasma membrane				ovary(2)	2	all_cancers(89;0.00263)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCGAGGGCACCGGGACTGTTT	0.562													32	67					0	0	0.002836	0	0		T	176025084	T	T	176025084	2	4	65	1	0	0	0	0	0	0	0	1	6745	639	23	1		1	GPRIN1	5	176025084	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	914493	176025084	4890176	199	43620											
DOK3	79930	broad.mit.edu	37	chr5	176931829	176931829	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccctcagctggatggcgTctgggcccagcaccagcagg	6	6	13	16	1	2	0	1	0	1	0	3	1	3	1	4	4	3	3	4	4	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:176931829T>C	uc003mhk.2	-	5	733	c.728A>G	c.(727-729)GAC>GGC	p.D243G	DOK3_uc003mhh.3_Missense_Mutation_p.D73G|DOK3_uc003mhi.3_Missense_Mutation_p.D187G|DOK3_uc003mhj.3_Missense_Mutation_p.D85G|DOK3_uc003mhl.2_Missense_Mutation_p.D187G	NM_024872	NP_079148	Q7L591	DOK3_HUMAN	docking protein 3 isoform 1	243	IRS-type PTB.					cytoplasm|plasma membrane	insulin receptor binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			CTGGATGGCGTCTGGGCCCAG	0.687													10	27					0	0	0.006214	0	0		C	176931829	C	C	176931829	3	2	65	1	0	0	0	0	1	0	0	0	4704	1667	58	3	1122	3	DOK3	5	176931829	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	906745	176931829	3983431	200	43621											
GRM6	2916	broad.mit.edu	37	chr5	178413361	178413361	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgatggcgtagatgaggaAgatgccggtgaggaggacgt	10	7	20	4	3	0	5	0	3	0	2	0	8	0	8	1	6	1	1	1	6	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:178413361A>C	uc003mjr.2	-	8	2073	c.1894T>G	c.(1894-1896)TTC>GTC	p.F632V	GRM6_uc003mjq.2_5'Flank|GRM6_uc010jla.1_Missense_Mutation_p.F215V|GRM6_uc003mjs.1_Missense_Mutation_p.F252V	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	632	Helical; Name=2; (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		TAGATGAGGAAGATGCCGGTG	0.667													6	27					0	0	0.001984	0	0		C	178413361	C	C	178413361	3	2	65	1	0	0	0	0	1	0	0	0	6817	72	3	5	751	5	GRM6	5	178413361	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	1481532	178413361	2501899	201	43622											
ADAMTS2	9509	broad.mit.edu	37	chr5	178557042	178557042	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caatgaaggttttggaactgGcatccacgtcattctcttca	10	13	8	10	1	3	1	2	1	1	0	5	2	4	2	1	3	1	2	1	3	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:178557042G>T	uc003mjw.2	-	16	2348	c.2348C>A	c.(2347-2349)GCC>GAC	p.A783D		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	783	Spacer.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		TTTGGAACTGGCATCCACGTC	0.567													18	29					7.07596e-05	7.28877e-05	0.006122	1	0		T	178557042	T	T	178557042	3	4	65	1	0	0	0	0	1	0	0	0	265	1203	42	5	1315	5	ADAMTS2	5	178557042	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	143681	178557042	2358218	202	43623											
ADAMTS2	9509	broad.mit.edu	37	chr5	178634558	178634558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgtacgtgctccttccCgtggaactgcaccacagagt	7	11	9	14	2	1	1	0	0	1	1	3	2	3	2	3	1	4	3	3	1	2	3	rs35499429		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:178634558C>T	uc003mjw.2	-	4	847	c.847G>A	c.(847-849)GGG>AGG	p.G283R	ADAMTS2_uc011dgm.1_Missense_Mutation_p.G283R	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	283	Peptidase M12B.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		TGCTCCTTCCCGTGGAACTGC	0.632													31	77					0	0	0.010818	0	0		T	178634558	T	T	178634558	3	4	65	1	0	0	0	0	1	0	0	0	265	652	23	1	2939	1	ADAMTS2	5	178634558	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	77516	178634558	2280702	203	43624											
GNB2L1	10399	broad.mit.edu	37	chr5	180664659	180664659	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactggggtggttctgcctTgctgctggtactgataactt	5	14	13	9	0	1	1	0	1	1	0	1	1	1	1	1	4	5	5	1	4	2	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr5:180664659T>C	uc003mni.1	-	7	944	c.838A>G	c.(838-840)AAG>GAG	p.K280E	GNB2L1_uc003mnh.1_Missense_Mutation_p.K239E|GNB2L1_uc003mnk.1_Missense_Mutation_p.K202E|GNB2L1_uc003mnj.1_Missense_Mutation_p.K234E|GNB2L1_uc003mnl.1_Missense_Mutation_p.K64E	NM_006098	NP_006089	P63244	GBLP_HUMAN	guanine nucleotide binding protein (G protein),	280					apoptosis|cell cycle|gastrulation|interspecies interaction between organisms|negative regulation of cell growth|negative regulation of phagocytosis|negative regulation of translation|negative regulation of Wnt receptor signaling pathway|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of gastrulation|positive regulation of GTPase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein homooligomerization|positive regulation of protein phosphorylation|regulation of cell cycle|regulation of cell division|regulation of establishment of cell polarity|regulation of protein localization|rhythmic process	cytoskeleton|dendrite|midbody|nucleus|perikaryon|perinuclear region of cytoplasm|phagocytic cup|small ribosomal subunit	ion channel inhibitor activity|protein kinase C binding|protein phosphatase binding|protein tyrosine kinase inhibitor activity|receptor tyrosine kinase binding|SH2 domain binding				0	all_cancers(89;8.79e-06)|all_epithelial(37;1.13e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0654)	all_cancers(40;0.000209)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.101)|all cancers(165;0.11)		GGTTCTGCCTTGCTGCTGGTA	0.493													23	42					0	0	0.003954	0	0		C	180664659	C	C	180664659	3	2	65	1	0	0	0	0	1	0	0	0	6533	1821	63	3	123	3	GNB2L1	5	180664659	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	2030101	180664659	250601	204	43625											
ALDH5A1	7915	broad.mit.edu	37	chr6	24520684	24520684	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtctctatggagctgggcgGccttgctccatttatagtat	6	14	12	9	1	1	0	0	0	1	0	3	1	2	1	2	4	2	3	2	4	4	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:24520684G>A	uc003neg.2	+	6	954	c.926G>A	c.(925-927)GGC>GAC	p.G309D	ALDH5A1_uc003nef.2_Missense_Mutation_p.G322D	NM_001080	NP_001071	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5A1 isoform 2 precursor	309					acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)	GAGCTGGGCGGCCTTGCTCCA	0.512													38	38					0	0	0.004878	0	0		A	24520684	A	A	24520684	3	1	65	1	0	0	0	0	1	0	0	0	502	1203	42	2	991	2	ALDH5A1	6	24520684	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08		24520684	146594383	205	43626											
NKAPL	222698	broad.mit.edu	37	chr6	28228207	28228207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgcagaatggaggctgtacGactgcgtaaggagaaccaga	13	6	14	8	3	0	3	0	0	0	3	1	6	0	4	1	3	3	4	1	3	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:28228207G>A	uc003nkt.2	+	1	1110	c.1058G>A	c.(1057-1059)CGA>CAA	p.R353Q	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	353										upper_aerodigestive_tract(1)|ovary(1)	2						GAGGCTGTACGACTGCGTAAG	0.453													31	92					0	0	0.009535	0	0		A	28228207	A	A	28228207	3	1	65	1	0	0	0	0	1	0	0	0	10459	1058	37	1	1060	1	NKAPL	6	28228207	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3707523	28228207	142886860	206	43627											
PGBD1	84547	broad.mit.edu	37	chr6	28269950	28269950	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgatgtagccatgaacaaTgcatggcaactacacagagc	15	8	9	9	0	0	3	0	2	0	1	0	3	0	3	1	1	6	3	1	1	5	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:28269950T>C	uc003nky.2	+	7	2689	c.2319T>C	c.(2317-2319)AAT>AAC	p.N773N	PGBD1_uc003nkz.2_Silent_p.N773N	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	773					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						CCATGAACAATGCATGGCAAC	0.408													19	45					0	0	0.006122	0	0		C	28269950	C	C	28269950	2	2	65	1	0	0	0	0	0	0	0	1	11799	1461	51	3		3	PGBD1	6	28269950	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	41743	28269950	142845117	207	43628											
OR2H2	7932	broad.mit.edu	37	chr6	29556131	29556131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaccatcatccacccccGcctgtgctggcagctggcat	6	8	9	18	1	1	0	1	0	0	0	2	0	2	0	6	2	3	4	6	2	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:29556131G>A	uc003nmr.1	+	1	449	c.410G>A	c.(409-411)CGC>CAC	p.R137H	GABBR1_uc003nmp.3_Intron	NM_007160	NP_009091	O95918	OR2H2_HUMAN	olfactory receptor, family 2, subfamily H,	137	Cytoplasmic (Potential).				defense response|mating|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATCCACCCCCGCCTGTGCTGG	0.612													38	81					0	0	0.00874	0	0		A	29556131	A	A	29556131	3	1	65	1	0	0	0	0	1	0	0	0	11021	1087	38	1	412	1	OR2H2	6	29556131	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1286181	29556131	141558936	208	43629											
HLA-F	3134	broad.mit.edu	37	chr6	29692855	29692855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accccatctctgaccatgagGccaccctgaggtgctgggcc	7	7	11	16	0	1	3	0	3	1	0	2	3	1	3	6	3	1	1	6	3	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:29692855G>A	uc010jrl.2	+	4	782	c.658G>A	c.(658-660)GCC>ACC	p.A220T	HLA-F_uc003nnm.3_Intron|HLA-F_uc003nno.3_Missense_Mutation_p.A220T|HLA-F_uc011dlx.1_Missense_Mutation_p.A220T|HLA-F_uc011dly.1_RNA	NM_018950	NP_061823	P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	220	Alpha-3.|Extracellular (Potential).|Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity				0						TGACCATGAGGCCACCCTGAG	0.592													10	45					0	0	0.008291	0	0		A	29692855	A	A	29692855	3	1	65	1	0	0	0	0	1	0	0	0	7227	1203	42	2	672	2	HLA-F	6	29692855	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	136724	29692855	141422212	209	43630											
TRIM10	10107	broad.mit.edu	37	chr6	30121852	30121852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgggctctcgggtgacaGcgttggtgaaggtcacccag	8	8	16	9	2	2	3	1	2	1	1	3	3	2	3	1	4	1	2	1	4	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:30121852G>A	uc003npo.3	-	7	1416	c.1340C>T	c.(1339-1341)GCT>GTT	p.A447V	TRIM10_uc003npn.2_Intron	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	447	B30.2/SPRY.					cytoplasm	zinc ion binding				0						TCGGGTGACAGCGTTGGTGAA	0.612													13	32					0	0	0.001368	0	0		A	30121852	A	A	30121852	3	1	65	1	0	0	0	0	1	0	0	0	16512	971	34	2	197	2	TRIM10	6	30121852	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	428997	30121852	140993215	210	43631											
ABCF1	23	broad.mit.edu	37	chr6	30550906	30550906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgaaaatgacttctccGtgtcccaggcggagatgtcc	9	9	11	12	2	1	3	0	2	1	1	4	4	3	3	3	2	1	1	3	2	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:30550906G>A	uc003nql.2	+	10	951	c.856G>A	c.(856-858)GTG>ATG	p.V286M	ABCF1_uc003nqk.2_Missense_Mutation_p.V287M|ABCF1_uc003nqm.2_Missense_Mutation_p.V248M|ABCF1_uc010jsb.2_Intron|MIR877_hsa-mir-877|MI0005561_5'Flank	NM_001025091	NP_001020262	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F, member 1	286					inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2						TGACTTCTCCGTGTCCCAGGC	0.498													31	70					0	0	0.009535	0	0		A	30550906	A	A	30550906	3	1	65	1	0	0	0	0	1	0	0	0	65	1145	40	1	894	1	ABCF1	6	30550906	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	429054	30550906	140564161	211	43632											
ABCF1	23	broad.mit.edu	37	chr6	30552049	30552049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagctgctggaagaggagCggcggcttcagggacagctg	9	6	18	8	2	1	2	1	1	0	1	1	5	1	5	0	5	4	4	0	5	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:30552049C>T	uc003nql.2	+	13	1278	c.1183C>T	c.(1183-1185)CGG>TGG	p.R395W	ABCF1_uc003nqk.2_Missense_Mutation_p.R396W|ABCF1_uc003nqm.2_Missense_Mutation_p.R357W|ABCF1_uc010jsb.2_Intron|MIR877_hsa-mir-877|MI0005561_5'Flank	NM_001025091	NP_001020262	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F, member 1	395	ABC transporter 1.				inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2						GGAAGAGGAGCGGCGGCTTCA	0.592													24	42					0	0	0.002299	0	0		T	30552049	T	T	30552049	3	4	65	1	0	0	0	0	1	0	0	0	65	759	27	1	1233	1	ABCF1	6	30552049	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1143	30552049	140563018	212	43633											
BAT2	7916	broad.mit.edu	37	chr6	31600251	31600251	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaggaacgggagaatgcCgcaagggggtctgagggcaa	13	3	18	7	2	1	2	0	1	1	1	1	4	1	3	1	5	3	3	1	5	5	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:31600251C>T	uc003nvb.3	+	16	4050	c.3801C>T	c.(3799-3801)GCC>GCT	p.A1267A	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Silent_p.A1267A	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1267	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						GGGAGAATGCCGCAAGGGGGT	0.647													21	40					0	0	0.008871	0	0		T	31600251	T	T	31600251	2	4	65	1	0	0	0	0	0	0	0	1	1320	639	23	1		1	BAT2	6	31600251	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1048202	31600251	139514816	213	43634											
BAT2	7916	broad.mit.edu	37	chr6	31602658	31602658	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccccccaagaggcctggAggctcctcacccctgaatgc	8	5	11	17	0	1	2	1	1	0	1	2	4	2	4	7	4	1	1	7	4	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:31602658A>G	uc003nvb.3	+	21	5313	c.5064A>G	c.(5062-5064)GGA>GGG	p.G1688G	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Silent_p.G1688G	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1688	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						AGAGGCCTGGAGGCTCCTCAC	0.612													14	58					0	0	0.00245	0	0		G	31602658	G	G	31602658	2	3	65	1	0	0	0	0	0	0	0	1	1320	291	11	3		3	BAT2	6	31602658	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	2407	31602658	139512409	214	43635											
TNXB	7148	broad.mit.edu	37	chr6	32023769	32023769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacgcatcacctggggccGcccgtccctgtccttgtact	5	9	10	17	3	1	0	1	0	0	0	3	1	3	0	5	2	1	2	5	2	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:32023769G>A	uc003nzl.2	-	24	8528	c.8326C>T	c.(8326-8328)CGG>TGG	p.R2776W		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2834	Fibronectin type-III 20.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						ACCTGGGGCCGCCCGTCCCTG	0.657													12	40					0	0	0.010729	0	0		A	32023769	A	A	32023769	3	1	65	1	0	0	0	0	1	0	0	0	16371	1086	38	1	6471	1	TNXB	6	32023769	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	421111	32023769	139091298	215	43636											
PRRT1	80863	broad.mit.edu	37	chr6	32118218	32118218	+	Frame_Shift_Del	DEL	C	-	-																															ggtatccgggcgctacgtagCcccccagcggcagcgtgccc																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:32118218delC	uc003nzt.2	-	2	601	c.485delG	c.(484-486)GGCfs	p.G162fs	PRRT1_uc003nzs.2_Frame_Shift_Del_p.G203fs|PRRT1_uc003nzu.2_Frame_Shift_Del_p.G54fs	NM_030651	NP_085154	Q99946	PRRT1_HUMAN	NG5 protein	162					response to biotic stimulus	integral to membrane				breast(1)	1						CGCTACGTAGCCCCCCAGCGG	0.617													9	18	---	---	---	---						.	-	32118218	-	-	32118218	7	5	65	1	0	1	0	1	0	0	0	0	12631	739	26	0	447	0	PRRT1	6	32118218	Frame_Shift_Del	DEL	C	TCGA-BR-8360-01A-11D-2340-08	94449	32118218	138996849	216	43637											
B3GALT4	8705	broad.mit.edu	37	chr6	33246260	33246260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctgacggggaaaggactgCgcccttttgctcctggttcc	5	11	12	13	2	1	1	0	1	1	0	3	3	3	3	3	4	2	2	3	4	1	3	rs149120716		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:33246260C>T	uc003odr.2	+	1	1344	c.1064C>T	c.(1063-1065)GCG>GTG	p.A355V		NM_003782	NP_003773	O96024	B3GT4_HUMAN	UDP-Gal:betaGlcNAc beta	355	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	ganglioside galactosyltransferase activity|UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)|breast(1)	2						GAAAGGACTGCGCCCTTTTGC	0.612													33	80					0	0	0.004289	0	0		T	33246260	T	T	33246260	3	4	65	1	0	0	0	0	1	0	0	0	1250	768	27	1	1066	1	B3GALT4	6	33246260	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1128042	33246260	137868807	217	43638											
RGL2	5863	broad.mit.edu	37	chr6	33264042	33264042	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcaagctgacccttggcCtcagagccaaaatcctcagg	10	7	10	14	1	3	2	3	1	0	1	4	2	4	2	4	3	2	1	4	3	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:33264042C>G	uc003odv.2	-	6	664	c.531G>C	c.(529-531)GAG>GAC	p.E177D	RGL2_uc003odu.2_5'UTR|RGL2_uc010jur.2_Intron|RGL2_uc003odw.2_Missense_Mutation_p.E95D|RGL2_uc011drb.1_Missense_Mutation_p.E95D	NM_004761	NP_004752	O15211	RGL2_HUMAN	ral guanine nucleotide dissociation	177	N-terminal Ras-GEF.				Ras protein signal transduction|regulation of small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity			skin(3)|lung(1)|breast(1)|pancreas(1)	6						GACCCTTGGCCTCAGAGCCAA	0.577													19	92					0	0	0.00333	0	0		G	33264042	G	G	33264042	3	3	65	1	0	0	0	0	1	0	0	0	13302	680	24	5	1854	5	RGL2	6	33264042	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	17782	33264042	137851025	218	43639											
KIFC1	3833	broad.mit.edu	37	chr6	33371779	33371779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggagctgaagaacttgcGtgcttgtgtcctggagctgg	8	10	15	8	1	0	2	0	1	0	1	1	4	1	4	1	3	5	3	1	3	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:33371779G>A	uc003oef.3	+	6	1079	c.629G>A	c.(628-630)CGT>CAT	p.R210H	KIFC1_uc011drf.1_Missense_Mutation_p.R202H	NM_002263	NP_002254	Q9BW19	KIFC1_HUMAN	kinesin family member C1	210	Potential.				blood coagulation|cell division|microtubule-based movement|mitotic sister chromatid segregation	early endosome|microtubule|microtubule associated complex|microtubule organizing center|nucleus|spindle	ATP binding|microtubule motor activity				0						AAGAACTTGCGTGCTTGTGTC	0.587													27	67					0	0	0.004656	0	0		A	33371779	A	A	33371779	3	1	65	1	0	0	0	0	1	0	0	0	8328	1145	40	1	651	1	KIFC1	6	33371779	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	107737	33371779	137743288	219	43640											
SYNGAP1	8831	broad.mit.edu	37	chr6	33411708	33411708	+	Frame_Shift_Del	DEL	G	-	-																															gcagcggtggcggagggggtGgggggctgaagccctccatc																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:33411708delG	uc011dri.1	+	15	3574	c.3379delG	c.(3379-3381)GGGfs	p.G1127fs	SYNGAP1_uc010juy.2_Frame_Shift_Del_p.G1098fs|SYNGAP1_uc010juz.2_Frame_Shift_Del_p.G839fs	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	1127					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						CGGAGGGGGTGGGGGGCTGAA	0.677													8	4	---	---	---	---						.	-	33411708	-	-	33411708	7	5	65	1	0	1	0	1	0	0	0	0	15472	1348	47	0	3437	0	SYNGAP1	6	33411708	Frame_Shift_Del	DEL	G	TCGA-BR-8360-01A-11D-2340-08	39929	33411708	137703359	220	43641											
ITPR3	3710	broad.mit.edu	37	chr6	33653429	33653429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgcccacaggccgcgtggCctccttctcgatacctggct	4	9	10	18	4	1	0	0	0	1	0	4	1	2	0	5	3	1	1	5	3	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:33653429C>T	uc011drk.1	+	41	5711	c.5492C>T	c.(5491-5493)GCC>GTC	p.A1831V	ITPR3_uc003oey.2_5'Flank	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1831	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GGCCGCGTGGCCTCCTTCTCG	0.687													15	28					0	0	0.003163	0	0		T	33653429	T	T	33653429	3	4	65	1	0	0	0	0	1	0	0	0	7938	739	26	2	5654	2	ITPR3	6	33653429	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	241721	33653429	137461638	221	43642											
SLC26A8	116369	broad.mit.edu	37	chr6	35967813	35967813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaaaattacatagattaccGaagaacagaaagctgcataa	21	7	6	7	1	0	3	0	0	0	3	0	4	0	3	1	0	5	2	1	0	9	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:35967813G>A	uc003olm.2	-	4	512	c.401C>T	c.(400-402)TCG>TTG	p.S134L	SLC26A8_uc003oln.2_Missense_Mutation_p.S134L|SLC26A8_uc003oll.2_Missense_Mutation_p.S134L	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	134	Helical; (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						ATAGATTACCGAAGAACAGAA	0.393													31	97					0	0	0.004289	0	0		A	35967813	A	A	35967813	3	1	65	1	0	0	0	0	1	0	0	0	14548	1059	37	1	2579	1	SLC26A8	6	35967813	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2314384	35967813	135147254	222	43643											
DAAM2	23500	broad.mit.edu	37	chr6	39869799	39869799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggagcgggcaataaacCggctaaattattgacctggg	11	7	13	10	3	0	1	0	1	0	0	0	2	0	2	3	4	2	2	3	4	6	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:39869799C>T	uc003oow.2	+	25	3349	c.3193C>T	c.(3193-3195)CGG>TGG	p.R1065W	DAAM2_uc003oox.2_Missense_Mutation_p.R1064W	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	1065					actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GGCAATAAACCGGCTAAATTA	0.567													5	22					0	0	0.000602	0	0		T	39869799	T	T	39869799	3	4	65	1	0	0	0	0	1	0	0	0	4219	643	23	1	3284	1	DAAM2	6	39869799	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3901986	39869799	131245268	223	43644											
TFEB	7942	broad.mit.edu	37	chr6	41652368	41652368	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccctcctccatgctgaagCtgctccggcggctgctggcc	3	8	12	18	3	0	1	0	1	0	0	3	1	3	1	5	3	4	5	5	3	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:41652368C>A	uc003oqs.1	-	10	1702	c.1400G>T	c.(1399-1401)AGC>ATC	p.S467I	TFEB_uc003oqt.1_Missense_Mutation_p.S467I|TFEB_uc003oqu.1_Missense_Mutation_p.S481I|TFEB_uc003oqr.1_Missense_Mutation_p.S382I	NM_007162	NP_009093	P19484	TFEB_HUMAN	transcription factor EB	467				EPLAPGHGSPFPSLSKKDLDLMLLDDSLLPLASDPLLSTMS PEASKASSRRSSFSMEEGDVL -> DRN (in Ref. 1).	embryonic placenta development|humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;7.61e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			CATGCTGAAGCTGCTCCGGCG	0.687			T	ALPHA	renal (childhood epithelioid)								5	42					0.000602214	0.000613864	0.000602	1	0		A	41652368	A	A	41652368	3	1	65	1	0	0	0	0	1	0	0	0	15826	797	28	5	34	5	TFEB	6	41652368	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1782569	41652368	129462699	224	43645											
MED20	9477	broad.mit.edu	37	chr6	41877053	41877053	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccattgtgaccgtgcccAccttcaccaggaagtcacag	9	7	9	16	1	2	1	2	1	0	0	2	2	2	2	6	1	1	0	6	1	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:41877053A>G	uc003ork.2	-	3	498	c.377T>C	c.(376-378)GTG>GCG	p.V126A	MED20_uc003orj.2_Missense_Mutation_p.V61A|MED20_uc011duh.1_Intron|MED20_uc011dui.1_Intron|MED20_uc011duj.1_Missense_Mutation_p.V61A	NM_004275	NP_004266	Q9H944	MED20_HUMAN	Trf (TATA binding protein-related	126					regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	mediator complex	DNA-directed RNA polymerase activity|protein binding				0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000367)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GACCGTGCCCACCTTCACCAG	0.557													29	70					0	0	0.00632	0	0		G	41877053	G	G	41877053	3	3	65	1	0	0	0	0	1	0	0	0	9456	159	6	3	269	3	MED20	6	41877053	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	224685	41877053	129238014	225	43646											
GTPBP2	54676	broad.mit.edu	37	chr6	43589437	43589437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccttggtgacaccctcccGgaacagcagtttggcgccca	7	7	11	16	2	0	1	0	1	0	0	1	2	1	2	4	3	2	2	4	3	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:43589437G>A	uc003ovs.2	-	12	1760	c.1723C>T	c.(1723-1725)CGG>TGG	p.R575W	GTPBP2_uc010jyv.2_Missense_Mutation_p.R487W|GTPBP2_uc003ovt.1_Intron	NM_019096	NP_061969	Q9BX10	GTPB2_HUMAN	GTP binding protein 2	575							GTP binding|GTPase activity			liver(1)|skin(1)	2	all_cancers(18;9.36e-06)|Lung NSC(15;0.00161)|all_lung(25;0.004)		all cancers(41;0.000501)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0826)|OV - Ovarian serous cystadenocarcinoma(102;0.167)			ACACCCTCCCGGAACAGCAGT	0.572													31	55					0	0	0.010818	0	0		A	43589437	A	A	43589437	3	1	65	1	0	0	0	0	1	0	0	0	6896	1115	39	1	89	1	GTPBP2	6	43589437	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1712384	43589437	127525630	226	43647											
SUPT3H	8464	broad.mit.edu	37	chr6	44922295	44922295	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacaacattgggttttatCtccatactgctgcagtccaa	10	12	8	11	1	1	0	0	0	1	0	3	1	2	0	2	1	4	3	2	1	4	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:44922295C>A	uc003oxo.2	-	10	981	c.663G>T	c.(661-663)GAG>GAT	p.E221D	SUPT3H_uc003oxn.1_Missense_Mutation_p.E210D|SUPT3H_uc011dvv.1_Missense_Mutation_p.E58D|SUPT3H_uc003oxp.2_Missense_Mutation_p.E210D|SUPT3H_uc011dvw.1_Missense_Mutation_p.E124D	NM_181356	NP_852001	O75486	SUPT3_HUMAN	suppressor of Ty 3 homolog isoform 2	292					histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3						TGGGTTTTATCTCCATACTGC	0.378													27	57					7.38237e-10	7.79187e-10	0.00632	1	0		A	44922295	A	A	44922295	3	1	65	1	0	0	0	0	1	0	0	0	15422	912	32	5	339	5	SUPT3H	6	44922295	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1332858	44922295	126192772	227	43648											
BAI3	577	broad.mit.edu	37	chr6	69772890	69772890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcctgaacccaaaacaaccGattcgtttctggagatagaa	14	8	9	10	2	1	3	0	1	1	2	2	5	1	3	3	2	3	1	3	2	6	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:69772890G>A	uc003pev.3	+	16	2846	c.2398G>A	c.(2398-2400)GAT>AAT	p.D800N	BAI3_uc010kak.2_Missense_Mutation_p.D800N	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	800	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				CAAAACAACCGATTCGTTTCT	0.363													13	53					0	0	0.001855	0	0		A	69772890	A	A	69772890	3	1	65	1	0	0	0	0	1	0	0	0	1301	1058	37	1	2452	1	BAI3	6	69772890	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	24850595	69772890	101342177	228	43649											
C6orf221	154288	broad.mit.edu	37	chr6	74073542	74073542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcaaggcagtgacccagCggtttcgcgaggatgcccgg	8	5	15	13	4	0	1	0	1	0	0	1	3	0	2	3	4	3	3	3	4	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:74073542C>T	uc003pgt.3	+	3	666	c.613C>T	c.(613-615)CGG>TGG	p.R205W		NM_001017361	NP_001017361	Q587J8	ECAT1_HUMAN	hypothetical protein LOC154288	205										skin(2)	2						AGTGACCCAGCGGTTTCGCGA	0.617													6	51					0	0	0.001984	0	0		T	74073542	T	T	74073542	3	4	65	1	0	0	0	0	1	0	0	0	2358	759	27	1	623	1	C6orf221	6	74073542	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	4300652	74073542	97041525	229	43650											
IBTK	25998	broad.mit.edu	37	chr6	82909923	82909923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaactatctgaacgtttaCgtggcttctttttagctttt	8	18	7	8	2	2	2	0	1	2	1	2	2	2	2	0	1	4	3	0	1	5	9			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:82909923C>T	uc003pjl.1	-	21	3487	c.2960G>A	c.(2959-2961)CGT>CAT	p.R987H	IBTK_uc011dyu.1_5'UTR|IBTK_uc011dyv.1_Missense_Mutation_p.R987H|IBTK_uc011dyw.1_Missense_Mutation_p.R786H|IBTK_uc010kbi.1_Missense_Mutation_p.R681H|IBTK_uc003pjm.2_Missense_Mutation_p.R987H	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	987					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		TGAACGTTTACGTGGCTTCTT	0.299													52	135					0	0	0.00361	0	0		T	82909923	T	T	82909923	3	4	65	1	0	0	0	0	1	0	0	0	7492	536	19	1	1137	1	IBTK	6	82909923	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	8836381	82909923	88205144	230	43651											
HTR1E	3354	broad.mit.edu	37	chr6	87725581	87725581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagtcagtgcaccatccagCacgaccatgttatctacacc	11	9	6	15	1	2	0	1	0	1	0	3	1	3	0	4	0	3	3	4	0	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:87725581C>T	uc003pli.2	+	2	1232	c.529C>T	c.(529-531)CAC>TAC	p.H177Y		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	177	Extracellular (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	CACCATCCAGCACGACCATGT	0.522													29	47					0	0	0.012213	0	0		T	87725581	T	T	87725581	3	4	65	1	0	0	0	0	1	0	0	0	7455	710	25	2	531	2	HTR1E	6	87725581	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	4815658	87725581	83389486	231	43652											
ORC3L	23595	broad.mit.edu	37	chr6	88318943	88318943	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaagacttcataattatcAgcaggtagatggtgtattac	14	13	8	6	0	2	2	2	0	0	2	2	2	2	2	0	2	3	3	0	2	7	7			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:88318943A>G	uc003pmh.2	+	7	753	c.709A>G	c.(709-711)AGC>GGC	p.S237G	ORC3L_uc011dzl.1_Missense_Mutation_p.S237G|ORC3L_uc011dzm.1_Missense_Mutation_p.S237G|ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Missense_Mutation_p.S237G|ORC3L_uc003pmi.2_Missense_Mutation_p.S237G|ORC3L_uc011dzo.1_Missense_Mutation_p.S94G|ORC3L_uc011dzp.1_Missense_Mutation_p.S94G	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	237					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)		CATAATTATCAGCAGGTAGAT	0.343													31	57					0	0	0.009535	0	0		G	88318943	G	G	88318943	3	3	65	1	0	0	0	0	1	0	0	0	11282	188	7	3	735	3	ORC3L	6	88318943	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	593362	88318943	82796124	232	43653											
BACH2	60468	broad.mit.edu	37	chr6	90661243	90661243	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgctacggggatggcggcGgcctcaaagctgatgggctc	6	8	16	11	3	2	1	1	1	1	0	3	2	2	2	1	6	3	3	1	6	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:90661243G>A	uc011eab.1	-	7	1391	c.582C>T	c.(580-582)GCC>GCT	p.A194A	BACH2_uc003pnw.2_Silent_p.A194A|BACH2_uc010kch.2_Silent_p.A194A	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	194						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		GGATGGCGGCGGCCTCAAAGC	0.597													22	53					0	0	0.010504	0	0		A	90661243	A	A	90661243	2	1	65	1	0	0	0	0	0	0	0	1	1285	1103	39	1		1	BACH2	6	90661243	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2342300	90661243	80453824	233	43654											
BEND3	57673	broad.mit.edu	37	chr6	107391957	107391957	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacacgtttagcaggtccccCgagggaggattcttcttctc	7	12	10	12	2	3	0	0	0	3	0	5	3	4	2	2	3	2	2	2	3	2	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:107391957C>T	uc003prs.2	-	5	1088	c.438G>A	c.(436-438)TCG>TCA	p.S146S		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	146										ovary(3)	3						GCAGGTCCCCCGAGGGAGGAT	0.572													34	83					0	0	0.005524	0	0		T	107391957	T	T	107391957	2	4	65	1	0	0	0	0	0	0	0	1	1400	639	23	1		1	BEND3	6	107391957	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	16730714	107391957	63723110	234	43655											
NKAIN2	154215	broad.mit.edu	37	chr6	124125394	124125394	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatctttatctgtggcatgCaactggtaagtgacacttgg	9	15	10	7	0	2	1	0	1	2	0	2	1	2	1	0	3	2	3	0	3	4	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:124125394C>T	uc003pzo.2	+	1	326	c.49C>T	c.(49-51)CAA>TAA	p.Q17*	NKAIN2_uc003pzn.1_Nonsense_Mutation_p.Q17*|NKAIN2_uc003pzp.2_5'UTR|NKAIN2_uc010keq.2_Nonsense_Mutation_p.Q17*|NKAIN2_uc010kep.1_RNA	NM_001040214	NP_001035304	Q5VXU1	NKAI2_HUMAN	T-cell lymphoma breakpoint-associated target 1	17	Helical; (Potential).					integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)		CTGTGGCATGCAACTGGTAAG	0.537													24	55					0	0	0.002299	0	0		T	124125394	T	T	124125394	4	4	65	1	0	0	0	0	0	1	0	0	10455	711	25	2	51	2	NKAIN2	6	124125394	Nonsense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	16733437	124125394	46989673	235	43656											
C6orf191	253582	broad.mit.edu	37	chr6	130164727	130164727	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttgaaatcaaatggagcCaggacattcaactcatgcac	14	10	8	9	0	3	1	3	1	0	0	3	3	3	3	1	2	3	2	1	2	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:130164727C>A	uc003qbs.2	-	3	224	c.141G>T	c.(139-141)CTG>CTT	p.L47L		NM_001010876	NP_001010876	Q5VVB8	CF191_HUMAN	hypothetical protein LOC253582	47						integral to membrane				large_intestine(1)	1				GBM - Glioblastoma multiforme(226;0.0387)|all cancers(137;0.115)|OV - Ovarian serous cystadenocarcinoma(155;0.131)		CAAATGGAGCCAGGACATTCA	0.333													36	80					1.22674e-20	1.37307e-20	0.00874	1	0		A	130164727	A	A	130164727	2	1	65	1	0	0	0	0	0	0	0	1	2351	581	21	5		5	C6orf191	6	130164727	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	6039333	130164727	40950340	236	43657											
PLAGL1	5325	broad.mit.edu	37	chr6	144269239	144269239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctccagggtgaggaacGtcttgccacataactggcag	10	9	11	11	1	2	1	0	1	2	0	3	2	2	2	2	3	3	1	2	3	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:144269239G>A	uc003qjv.2	-	2	1301	c.35C>T	c.(34-36)ACG>ATG	p.T12M	PLAGL1_uc003qjx.2_Missense_Mutation_p.T12M|PLAGL1_uc003qjy.2_Missense_Mutation_p.T12M|PLAGL1_uc010khl.2_Missense_Mutation_p.T12M|PLAGL1_uc010khm.2_Missense_Mutation_p.T12M|PLAGL1_uc003qjz.2_Missense_Mutation_p.T12M|PLAGL1_uc003qka.2_Missense_Mutation_p.T12M|PLAGL1_uc003qkb.2_Intron|PLAGL1_uc003qkc.2_Missense_Mutation_p.T12M|PLAGL1_uc003qkd.2_Intron|PLAGL1_uc003qke.2_Missense_Mutation_p.T12M|PLAGL1_uc003qkf.2_Missense_Mutation_p.T12M|PLAGL1_uc003qkg.2_Intron|PLAGL1_uc003qkh.2_Missense_Mutation_p.T12M|PLAGL1_uc003qki.2_Intron|PLAGL1_uc003qkj.2_Missense_Mutation_p.T12M|PLAGL1_uc003qkk.2_Intron|PLAGL1_uc003qkl.2_Intron|PLAGL1_uc003qkm.2_Missense_Mutation_p.T12M|PLAGL1_uc010khn.2_Missense_Mutation_p.T12M|PLAGL1_uc003qkn.2_Intron|PLAGL1_uc003qko.2_Missense_Mutation_p.T12M|PLAGL1_uc003qkp.2_Intron|PLAGL1_uc003qjw.2_Intron	NM_002656	NP_002647	Q9UM63	PLAL1_HUMAN	pleiomorphic adenoma gene-like 1 isoform 1	12	C2H2-type 1.				cell cycle arrest|induction of apoptosis|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(155;5.74e-07)|GBM - Glioblastoma multiforme(68;0.0885)		GGTGAGGAACGTCTTGCCACA	0.512													12	38					0	0	0.001368	0	0		A	144269239	A	A	144269239	3	1	65	1	0	0	0	0	1	0	0	0	12038	1145	40	1	1364	1	PLAGL1	6	144269239	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	14104512	144269239	26845828	237	43658											
UTRN	7402	broad.mit.edu	37	chr6	145114977	145114977	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctctctttgcagatctcttTaaggaagttgcagggccaac	9	12	9	11	0	2	1	0	0	2	1	4	2	2	2	2	2	3	3	2	2	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:145114977T>C	uc003qkt.2	+	62	9020	c.8928T>C	c.(8926-8928)TTT>TTC	p.F2976F		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	2976	Interaction with SYNM.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		CAGATCTCTTTAAGGAAGTTG	0.453													25	78					0	0	0.003954	0	0		C	145114977	C	C	145114977	2	2	65	1	0	0	0	0	0	0	0	1	17129	1751	61	3		3	UTRN	6	145114977	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	845738	145114977	26000090	238	43659											
UST	10090	broad.mit.edu	37	chr6	149285691	149285691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcatgaggcaggaggagCgctacctggtaagtcctgtc	9	7	14	11	1	0	1	0	1	0	0	2	3	1	3	3	4	3	4	3	4	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:149285691C>T	uc003qmg.2	+	5	969	c.673C>T	c.(673-675)CGC>TGC	p.R225C	uc003qmh.1_Intron	NM_005715	NP_005706	Q9Y2C2	UST_HUMAN	uronyl-2-sulfotransferase	225	Lumenal (Potential).				protein sulfation	Golgi membrane|integral to membrane	sulfotransferase activity			ovary(2)	2		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.78e-10)|GBM - Glioblastoma multiforme(68;0.138)		GCAGGAGGAGCGCTACCTGGT	0.567													8	29					0	0	0.00308	0	0		T	149285691	T	T	149285691	3	4	65	1	0	0	0	0	1	0	0	0	17119	768	27	1	691	1	UST	6	149285691	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	4170714	149285691	21829376	239	43660											
AKAP12	9590	broad.mit.edu	37	chr6	151674332	151674332	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaggagaggaacctcaGgcctctgcacaggatgaaac	16	4	12	9	0	2	3	1	1	1	2	2	6	2	5	2	4	3	1	2	4	4	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:151674332G>A	uc011eep.1	+	4	5046	c.4806G>A	c.(4804-4806)CAG>CAA	p.Q1602Q	AKAP12_uc003qoe.2_Silent_p.Q1602Q|AKAP12_uc003qof.2_Silent_p.Q1504Q|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Silent_p.Q1497Q	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	1602				Q -> L (in Ref. 2; BAA19927).	G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		AGGAACCTCAGGCCTCTGCAC	0.488													17	40					0	0	0.00499	0	0		A	151674332	A	A	151674332	2	1	65	1	0	0	0	0	0	0	0	1	448	991	35	4		4	AKAP12	6	151674332	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2388641	151674332	19440735	240	43661											
C6orf97	80129	broad.mit.edu	37	chr6	151857472	151857472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaacttacgatcatctttCggaagtcccggtcacgcggg	9	9	12	11	5	3	0	2	0	1	0	5	3	4	2	1	4	2	0	1	4	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:151857472C>T	uc003qol.2	+	2	166	c.77C>T	c.(76-78)TCG>TTG	p.S26L		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	26											0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		GATCATCTTTCGGAAGTCCCG	0.428													23	40					0	0	0.003954	0	0		T	151857472	T	T	151857472	3	4	65	1	0	0	0	0	1	0	0	0	2377	893	31	1	83	1	C6orf97	6	151857472	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	183140	151857472	19257595	241	43662											
EZR	7430	broad.mit.edu	37	chr6	159206516	159206516	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagaaaagtttctgggTgatgtcctggatgagctcct	10	11	14	6	0	1	3	0	2	1	1	3	6	3	5	2	3	1	2	2	3	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:159206516T>C	uc003qrt.3	-	4	507	c.292A>G	c.(292-294)ACC>GCC	p.T98A	EZR_uc011efs.1_Missense_Mutation_p.T66A|EZR_uc003qru.3_Missense_Mutation_p.T98A	NM_003379	NP_003370	P15311	EZRI_HUMAN	ezrin	98	FERM.				actin filament bundle assembly|axon guidance|cytoskeletal anchoring at plasma membrane|leukocyte cell-cell adhesion|membrane to membrane docking|regulation of cell shape	actin filament|apical plasma membrane|basolateral plasma membrane|cortical cytoskeleton|cytosol|extrinsic to membrane|filopodium|microvillus membrane|nucleolus|ruffle membrane	actin filament binding|cell adhesion molecule binding			ovary(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-17)|BRCA - Breast invasive adenocarcinoma(81;6.58e-06)		AGTTTCTGGGTGATGTCCTGG	0.552													28	41					0	0	0.007291	0	0		C	159206516	C	C	159206516	3	2	65	1	0	0	0	0	1	0	0	0	5343	1696	59	3	1508	3	EZR	6	159206516	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	7349044	159206516	11908551	242	43663											
SLC22A2	6582	broad.mit.edu	37	chr6	160679635	160679635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcggccactccggggctcCggcagcggtggtcaggggtg	3	6	19	13	4	1	0	1	0	0	0	4	0	3	0	3	8	1	3	3	8	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:160679635C>T	uc003qtf.2	-	1	325	c.155G>A	c.(154-156)CGG>CAG	p.R52Q	SLC22A2_uc003qte.1_Missense_Mutation_p.R52Q|SLC22A2_uc003qth.1_Missense_Mutation_p.R52Q	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	52	Extracellular (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		TCCGGGGCTCCGGCAGCGGTG	0.647													21	49					0	0	0.00278	0	0		T	160679635	T	T	160679635	3	4	65	1	0	0	0	0	1	0	0	0	14475	652	23	1	1556	1	SLC22A2	6	160679635	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1473119	160679635	10435432	243	43664											
MLLT4	4301	broad.mit.edu	37	chr6	168352841	168352841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaccatgctgatcatgcagCgcctggaggctgaacgaaga	12	6	12	11	2	1	3	1	2	0	1	1	5	1	4	2	2	4	3	2	2	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:168352841C>T	uc003qwd.2	+	29	4925	c.4783C>T	c.(4783-4785)CGC>TGC	p.R1595C	MLLT4_uc003qwb.1_Missense_Mutation_p.R1580C|MLLT4_uc003qwc.1_Missense_Mutation_p.R1596C|MLLT4_uc003qwg.1_Missense_Mutation_p.R905C	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1596	Potential.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		GATCATGCAGCGCCTGGAGGC	0.408			T	MLL	AL								38	75					0	0	0.004289	0	0		T	168352841	T	T	168352841	3	4	65	1	0	0	0	0	1	0	0	0	9647	768	27	1	4900	1	MLLT4	6	168352841	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	7673206	168352841	2762226	244	43665											
THBS2	7058	broad.mit.edu	37	chr6	169622298	169622298	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccaacctcacctgcccCggcgtgttccccgtgtgcca	5	7	9	20	3	1	0	1	0	0	0	2	0	2	0	9	1	4	1	9	1	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr6:169622298C>T	uc003qwt.2	-	20	3515	c.3267G>A	c.(3265-3267)CCG>CCA	p.P1089P		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	1089	TSP C-terminal.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		TCACCTGCCCCGGCGTGTTCC	0.647													26	47					0	0	0.007291	0	0		T	169622298	T	T	169622298	2	4	65	1	0	0	0	0	0	0	0	1	15879	639	23	1		1	THBS2	6	169622298	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1269457	169622298	1492769	245	43666											
C7orf50	84310	broad.mit.edu	37	chr7	1037311	1037311	+	Frame_Shift_Del	DEL	G	-	-																															gcgctgggccctccccggcaGggggggatcagagccctcct																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:1037311delG	uc003sju.2	-	5	605	c.535delC	c.(535-537)CTGfs	p.L179fs	C7orf50_uc003sjs.2_RNA|C7orf50_uc011jvt.1_Frame_Shift_Del_p.L179fs|C7orf50_uc011jvu.1_Frame_Shift_Del_p.L179fs	NM_032350	NP_115726	Q9BRJ6	CG050_HUMAN	hypothetical protein LOC84310	179							protein binding				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0216)|OV - Ovarian serous cystadenocarcinoma(56;1.3e-15)		CTCCCCGGCAGGGGGGGATCA	0.721													15	26	---	---	---	---						.	-	1037311	-	-	1037311	7	5	65	1	0	1	0	1	0	0	0	0	2402	991	35	0	53	0	C7orf50	7	1037311	Frame_Shift_Del	DEL	G	TCGA-BR-8360-01A-11D-2340-08		1037311	158101352	246	43667											
MAD1L1	8379	broad.mit.edu	37	chr7	2255800	2255800	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaacccctcaccgcaggtgCgcgctctcctcccgcagctg	5	6	10	20	4	2	0	1	0	1	0	4	0	3	0	5	1	3	5	5	1	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:2255800C>T	uc003slh.1	-	8	1067	c.801G>A	c.(799-801)GCG>GCA	p.A267A	MAD1L1_uc003sle.1_5'Flank|MAD1L1_uc003slf.1_Silent_p.A267A|MAD1L1_uc003slg.1_Silent_p.A267A|MAD1L1_uc010ksh.1_Silent_p.A267A|MAD1L1_uc003sli.1_Silent_p.A175A|MAD1L1_uc010ksi.1_Silent_p.A220A|MAD1L1_uc010ksj.2_Silent_p.A267A	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	267	Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		ACCGCAGGTGCGCGCTCTCCT	0.632													36	50					0	0	0.005524	0	0		T	2255800	T	T	2255800	2	4	65	1	0	0	0	0	0	0	0	1	9165	755	27	1		1	MAD1L1	7	2255800	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1218489	2255800	156882863	247	43668											
TNRC18	84629	broad.mit.edu	37	chr7	5352370	5352370	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgcgggcgtcttcttgcCtggggagtgggccgagggcc	2	7	21	11	4	2	0	0	0	2	0	2	2	2	1	3	6	1	0	3	6	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:5352370C>A	uc003soi.3	-	27	8501	c.8152G>T	c.(8152-8154)GGC>TGC	p.G2718C		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2718							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GTCTTCTTGCCTGGGGAGTGG	0.761													7	13					0.00448238	0.0045623	0.004482	1	0		A	5352370	A	A	5352370	3	1	65	1	0	0	0	0	1	0	0	0	16364	681	24	5	770	5	TNRC18	7	5352370	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3096570	5352370	153786293	248	43669											
FBXL18	80028	broad.mit.edu	37	chr7	5540810	5540810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcgtcctccgccttgcGgagcagcgagtctggggaca	6	8	15	12	4	1	0	0	0	1	0	4	4	3	2	3	3	3	1	3	3	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:5540810G>A	uc003soo.2	-	3	1184	c.1090C>T	c.(1090-1092)CGC>TGC	p.R364C	FBXL18_uc003son.3_Missense_Mutation_p.R364C	NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	364										central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)		TCCGCCTTGCGGAGCAGCGAG	0.657													13	20					0	0	0.001368	0	0		A	5540810	A	A	5540810	3	1	65	1	0	0	0	0	1	0	0	0	5728	1116	39	1	1078	1	FBXL18	7	5540810	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	188440	5540810	153597853	249	43670											
DAGLB	221955	broad.mit.edu	37	chr7	6464452	6464452	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatccagagccactaaaaaCggcagctcgtaaacctgcag	14	6	9	12	2	0	2	0	1	0	1	2	2	1	2	3	1	5	4	3	1	5	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:6464452C>T	uc003sqa.2	-	8	1241	c.1071G>A	c.(1069-1071)CCG>CCA	p.P357P	DAGLB_uc003spz.2_5'Flank|DAGLB_uc011jwt.1_Silent_p.P171P|DAGLB_uc011jwu.1_Silent_p.P228P|DAGLB_uc003sqb.2_Silent_p.P76P|DAGLB_uc003sqc.2_Silent_p.P76P|DAGLB_uc011jwv.1_RNA|DAGLB_uc003sqd.3_Silent_p.P316P|DAGLB_uc011jww.1_RNA	NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1	357	Cytoplasmic (Potential).				lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		CCACTAAAAACGGCAGCTCGT	0.547													26	35					0	0	0.005443	0	0		T	6464452	T	T	6464452	2	4	65	1	0	0	0	0	0	0	0	1	4230	523	19	1		1	DAGLB	7	6464452	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	923642	6464452	152674211	250	43671											
GLCCI1	113263	broad.mit.edu	37	chr7	8043675	8043675	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacccttcatgcatgaaaGacaaagctactcaggtaaaa	17	8	6	10	0	2	2	2	1	0	1	2	2	2	2	1	1	4	3	1	1	6	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:8043675G>T	uc003srk.2	+	2	1154	c.595G>T	c.(595-597)GAC>TAC	p.D199Y		NM_138426	NP_612435	Q86VQ1	GLCI1_HUMAN	glucocorticoid induced transcript 1	199											0		Ovarian(82;0.0608)		UCEC - Uterine corpus endometrioid carcinoma (126;0.206)		ATGCATGAAAGACAAAGCTAC	0.388													30	56					5.77227e-19	6.39807e-19	0.008361	1	0		T	8043675	T	T	8043675	3	4	65	1	0	0	0	0	1	0	0	0	6446	942	33	5	601	5	GLCCI1	7	8043675	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1579223	8043675	151094988	251	43672											
ETV1	2115	broad.mit.edu	37	chr7	13949284	13949284	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttctgggacaacacaggTgtcatcataaaactgcctgg	11	12	9	9	0	3	0	2	0	1	0	3	1	3	1	1	3	3	0	1	3	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:13949284T>G	uc011jxq.1	-	11	1652	c.913A>C	c.(913-915)ACC>CCC	p.T305P	ETV1_uc011jxn.1_Missense_Mutation_p.T265P|ETV1_uc011jxo.1_Missense_Mutation_p.T202P|ETV1_uc011jxp.1_Missense_Mutation_p.T247P|ETV1_uc003ssw.3_Missense_Mutation_p.T282P|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Missense_Mutation_p.T287P|ETV1_uc011jxs.1_Missense_Mutation_p.T287P|ETV1_uc010ktv.2_Silent_p.T173T	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	305					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						ACAACACAGGTGTCATCATAA	0.373			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								25	75					0	0	0.007291	0	0		G	13949284	G	G	13949284	3	3	65	1	0	0	0	0	1	0	0	0	5285	1696	59	5	536	5	ETV1	7	13949284	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	5905609	13949284	145189379	252	43673											
HOXA9	3205	broad.mit.edu	37	chr7	27203381	27203381	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacagaaactctttctccagTtccagggtctggtgttttgt	8	15	9	9	0	3	1	0	0	3	1	5	1	4	1	2	2	2	2	2	2	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:27203381T>A	uc003syt.2	-	2	733	c.660A>T	c.(658-660)GAA>GAT	p.E220D		NM_152739	NP_689952	P31269	HXA9_HUMAN	homeobox A9	220	Homeobox.						protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	p.E220K(1)		lung(1)|central_nervous_system(1)	2						CTTTCTCCAGTTCCAGGGTCT	0.552			T	NUP98|MSI2	AML*								19	67					0	0	0.006122	0	0		A	27203381	A	A	27203381	3	1	65	1	0	0	0	0	1	0	0	0	7314	1722	60	5	162	5	HOXA9	7	27203381	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	13254097	27203381	131935282	253	43674											
CCDC129	223075	broad.mit.edu	37	chr7	31683217	31683217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgtgtgatcctgttaccGcaacagaaacaagactgggg	11	9	12	9	1	0	3	0	1	0	2	1	3	1	3	2	2	3	2	2	2	4	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:31683217G>A	uc003tcj.1	+	11	3226	c.2233G>A	c.(2233-2235)GCA>ACA	p.A745T	CCDC129_uc011kad.1_Missense_Mutation_p.A755T|CCDC129_uc003tci.1_Missense_Mutation_p.A596T|CCDC129_uc011kae.1_Missense_Mutation_p.A771T|CCDC129_uc003tck.1_Missense_Mutation_p.A653T	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	745											0						TCCTGTTACCGCAACAGAAAC	0.522													18	60					0	0	0.006122	0	0		A	31683217	A	A	31683217	3	1	65	1	0	0	0	0	1	0	0	0	2767	1087	38	1	2271	1	CCDC129	7	31683217	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4479836	31683217	127455446	254	43675											
C7orf10	79783	broad.mit.edu	37	chr7	40277271	40277271	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaatttctcagcgagctggTtatgatgctgttgcctcggc	6	13	11	11	2	1	1	1	1	1	0	3	2	1	1	2	2	4	4	2	2	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:40277271T>C	uc003thn.1	+	7	567	c.522T>C	c.(520-522)GGT>GGC	p.G174G	C7orf10_uc003thm.1_Silent_p.G144G|C7orf10_uc003tho.1_Silent_p.G174G	NM_024728	NP_079004	Q9HAC7	CG010_HUMAN	dermal papilla derived protein 13	181							transferase activity			ovary(2)	2						AGCGAGCTGGTTATGATGCTG	0.423													12	60					0	0	0.003163	0	0		C	40277271	C	C	40277271	2	2	65	1	0	0	0	0	0	0	0	1	2379	1712	60	3		3	C7orf10	7	40277271	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	8594054	40277271	118861392	255	43676											
ABCA13	154664	broad.mit.edu	37	chr7	48431646	48431646	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcaggacatcctgttggAcaacctcaccgtccgggaac	10	6	11	14	2	1	0	1	0	0	0	3	3	3	3	4	3	3	3	4	3	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:48431646A>G	uc003toq.2	+	38	11808	c.11783A>G	c.(11782-11784)GAC>GGC	p.D3928G	ABCA13_uc010kys.1_Missense_Mutation_p.D1002G|ABCA13_uc003tos.1_Missense_Mutation_p.D754G|ABCA13_uc010kyt.1_RNA	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3928	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ATCCTGTTGGACAACCTCACC	0.507													17	43					0	0	0.00499	0	0		G	48431646	G	G	48431646	3	3	65	1	0	0	0	0	1	0	0	0	31	275	10	3	11762	3	ABCA13	7	48431646	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	8154375	48431646	110707017	256	43677											
ZNF479	90827	broad.mit.edu	37	chr7	57188817	57188817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttggagtgaatctttgatgCcctgctctggctgaaggtct	6	15	12	8	0	3	3	0	3	3	0	3	4	3	4	1	3	2	2	1	3	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:57188817C>T	uc010kzo.2	-	5	576	c.305G>A	c.(304-306)GGC>GAC	p.G102D		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	102					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			ATCTTTGATGCCCTGCTCTGG	0.363													29	58					0	0	0.005524	0	0		T	57188817	T	T	57188817	3	4	65	1	0	0	0	0	1	0	0	0	17958	739	26	2	1273	2	ZNF479	7	57188817	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	8757171	57188817	101949846	257	43678											
CYP51A1	1595	broad.mit.edu	37	chr7	91752448	91752450	+	In_Frame_Del	DEL	AAG	-	-																															acaaacctggtcataagttaAaggaggcagattctctccac																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:91752448_91752450delAAG	uc003ulm.3	-	7	1232_1234	c.1070_1072delCTT	c.(1069-1074)CCTTTA>CTA	p.P357del	CYP51A1_uc011khn.1_In_Frame_Del_p.P252del|CYP51A1_uc003uln.3_In_Frame_Del_p.P294del	NM_000786	NP_000777	Q16850	CP51A_HUMAN	cytochrome P450, family 51, subfamily A,	351					cholesterol biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|sterol 14-demethylase activity				0	all_cancers(62;2.16e-09)|all_epithelial(64;3.86e-08)|Breast(17;0.00206)|all_lung(186;0.169)|all_hematologic(106;0.215)|Lung NSC(181;0.227)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)		Fluconazole(DB00196)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Miconazole(DB01110)|Terconazole(DB00251)	TCATAAGTTAAAGGAGGCAGATT	0.365													28	64	---	---	---	---						.	-	91752450	-	-	91752448	7	5	65	1	0	1	0	1	0	0	0	0	4198	11	1	0	473	0	CYP51A1	7	91752448	In_Frame_Del	DEL	AAG	TCGA-BR-8360-01A-11D-2340-08	34563631	91752448	67386215	258	43679											
BAIAP2L1	55971	broad.mit.edu	37	chr7	97946561	97946561	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtgttcatatttgagtgcGtttcggcttccttggctttt	3	21	10	7	2	1	1	1	1	0	0	3	1	2	1	1	2	1	4	1	2	1	9			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:97946561G>A	uc003upj.2	-	6	719	c.456C>T	c.(454-456)AAC>AAT	p.N152N		NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1	152	Potential.|IMD.				filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			ATTTGAGTGCGTTTCGGCTTC	0.348													41	99					0	0	0.00874	0	0		A	97946561	A	A	97946561	2	1	65	1	0	0	0	0	0	0	0	1	1303	1136	40	1		1	BAIAP2L1	7	97946561	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	6194113	97946561	61192102	259	43680											
LRRC17	10234	broad.mit.edu	37	chr7	102574941	102574941	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactacgccaagtgtgaaaGtccacaagaacaaaaaaata	21	5	7	8	1	0	2	0	1	0	1	1	3	1	2	2	0	3	0	2	0	10	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:102574941G>C	uc003vau.2	+	2	970	c.581G>C	c.(580-582)AGT>ACT	p.S194T	FBXL13_uc010liq.1_Intron|FBXL13_uc003vaq.2_Intron|FBXL13_uc010lir.1_Intron|FBXL13_uc003var.2_Intron|FBXL13_uc003vas.2_Intron|LRRC17_uc003vat.2_Missense_Mutation_p.S194T	NM_001031692	NP_001026862	Q8N6Y2	LRC17_HUMAN	leucine rich repeat containing 17 isoform 1	194	LRRCT 1.				bone marrow development|negative regulation of osteoclast differentiation|ossification	extracellular space				ovary(1)	1						AAGTGTGAAAGTCCACAAGAA	0.413													22	80					0	0	0.012319	0	0		C	102574941	C	C	102574941	3	2	65	1	0	0	0	0	1	0	0	0	8991	1029	36	5	583	5	LRRC17	7	102574941	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4628380	102574941	56563722	260	43681											
SLC26A5	375611	broad.mit.edu	37	chr7	103018957	103018957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttagcgtacttccgcatgGcctttctccttgctcccatg	4	14	7	16	2	1	0	0	0	1	0	4	0	3	0	5	1	3	3	5	1	2	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:103018957G>A	uc003vbz.2	-	17	1957	c.1721C>T	c.(1720-1722)GCC>GTC	p.A574V	SLC26A5_uc003vbt.1_Missense_Mutation_p.A574V|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Missense_Mutation_p.A542V|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_Intron	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	574	Cytoplasmic (Potential).|STAS.				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						CTTCCGCATGGCCTTTCTCCT	0.478													25	102					0	0	0.008361	0	0		A	103018957	A	A	103018957	3	1	65	1	0	0	0	0	1	0	0	0	14545	1203	42	2	570	2	SLC26A5	7	103018957	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	444016	103018957	56119706	261	43682											
SRPK2	6733	broad.mit.edu	37	chr7	104766779	104766779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcagctctatgatgtgggCtatgtggtctatggaggaga	9	12	15	5	0	2	2	0	1	2	1	2	4	2	3	0	4	2	3	0	4	4	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:104766779C>T	uc003vct.2	-	14	1985	c.1798G>A	c.(1798-1800)GCC>ACC	p.A600T	SRPK2_uc003vcu.2_Missense_Mutation_p.A600T|SRPK2_uc003vcv.2_Missense_Mutation_p.A611T|SRPK2_uc003vcs.1_RNA	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	600	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						ATGATGTGGGCTATGTGGTCT	0.413													11	55					0	0	0.001368	0	0		T	104766779	T	T	104766779	3	4	65	1	0	0	0	0	1	0	0	0	15185	797	28	2	276	2	SRPK2	7	104766779	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1747822	104766779	54371884	262	43683											
WNT2	7472	broad.mit.edu	37	chr7	116937798	116937798	+	Frame_Shift_Del	DEL	C	-	-																															gttcatgaccacctggatggCcccattgtacttcctccaga																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:116937798delC	uc003viz.2	-	4	1021	c.721delG	c.(721-723)GCCfs	p.A241fs	WNT2_uc003vja.2_Frame_Shift_Del_p.A145fs	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	241					atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		ACCTGGATGGCCCCATTGTAC	0.522													39	78	---	---	---	---						.	-	116937798	-	-	116937798	7	5	65	1	0	1	0	1	0	0	0	0	17412	739	26	0	369	0	WNT2	7	116937798	Frame_Shift_Del	DEL	C	TCGA-BR-8360-01A-11D-2340-08	12171019	116937798	42200865	263	43684											
SND1	27044	broad.mit.edu	37	chr7	127729669	127729669	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtttgcagattccaagggCgatgtggggctgggcttggt	6	11	17	7	1	0	1	0	0	0	1	1	2	1	1	1	5	1	4	1	5	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:127729669C>T	uc003vmi.2	+	22	2773	c.2547C>T	c.(2545-2547)GGC>GGT	p.G849G	SND1_uc010lle.2_Silent_p.G502G	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	849					gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						ATTCCAAGGGCGATGTGGGGC	0.587													12	37					0	0	0.001855	0	0		T	127729669	T	T	127729669	2	4	65	1	0	0	0	0	0	0	0	1	14869	755	27	1		1	SND1	7	127729669	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	10791871	127729669	31408994	264	43685											
RBM28	55131	broad.mit.edu	37	chr7	127973348	127973349	+	Frame_Shift_Ins	INS	-	A	A																															ggcagaaagacatacctgatINSaaaaacagttttcccttcat																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:127973348_127973349insA	uc003vmp.2	-	9	1129_1130	c.1014_1015insT	c.(1012-1017)TTTATCfs	p.F338fs	RBM28_uc003vmo.2_5'UTR|RBM28_uc011koj.1_Frame_Shift_Ins_p.F197fs|RBM28_uc011kok.1_Frame_Shift_Ins_p.F285fs	NM_018077	NP_060547	Q9NW13	RBM28_HUMAN	RNA binding motif protein 28	338_339	RRM 3.				mRNA processing|RNA splicing	Golgi apparatus|nucleolus|spliceosomal complex	nucleotide binding|RNA binding			ovary(2)	2						ACATACCTGATAAAAACAGTTT	0.386													19	38	---	---	---	---						.	A	127973349	A	A	127973348	7	5	65	1	0	1	1	0	0	0	0	0	13153	1406	49	0	1308	0	RBM28	7	127973348	Frame_Shift_Ins	INS	-	TCGA-BR-8360-01A-11D-2340-08	243679	127973348	31165315	265	43686											
FLNC	2318	broad.mit.edu	37	chr7	128495311	128495311	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcccagacagcccctttgtGgtgcctgtggcctccctctc	4	11	9	17	0	1	1	0	0	1	1	4	1	3	1	6	2	2	0	6	2	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:128495311G>T	uc003vnz.3	+	43	7403	c.7194G>T	c.(7192-7194)GTG>GTT	p.V2398V	FLNC_uc003voa.3_Silent_p.V2365V	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2398	Filamin 21.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GCCCCTTTGTGGTGCCTGTGG	0.587													31	52					1.61788e-16	1.77889e-16	0.012213	1	0		T	128495311	T	T	128495311	2	4	65	1	0	0	0	0	0	0	0	1	5949	1335	47	5		5	FLNC	7	128495311	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	521963	128495311	30643352	266	43687											
FLNC	2318	broad.mit.edu	37	chr7	128497221	128497221	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatgccggctcgggggcCttgtctgtcaccattgatgg	5	11	14	11	2	2	2	1	2	1	0	3	2	2	2	3	4	1	1	3	4	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:128497221C>A	uc003vnz.3	+	46	7820	c.7611C>A	c.(7609-7611)GCC>GCA	p.A2537A	FLNC_uc003voa.3_Silent_p.A2504A	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2537	Interaction with INPPL1.|Filamin 23.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GCTCGGGGGCCTTGTCTGTCA	0.607													45	71					6.34439e-16	6.94234e-16	0.00361	1	0		A	128497221	A	A	128497221	2	1	65	1	0	0	0	0	0	0	0	1	5949	668	24	5		5	FLNC	7	128497221	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1910	128497221	30641442	267	43688											
PLXNA4	91584	broad.mit.edu	37	chr7	131865401	131865401	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagcagctggacatctgAcacggtcacggtgcacggct	9	6	14	12	3	2	2	1	1	1	1	2	3	2	3	0	4	3	5	0	4	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:131865401A>T	uc003vra.3	-	19	3812	c.3583T>A	c.(3583-3585)TCA>ACA	p.S1195T		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1195	IPT/TIG 4.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TGGACATCTGACACGGTCACG	0.602													9	30					0	0	0.004482	0	0		T	131865401	T	T	131865401	3	4	65	1	0	0	0	0	1	0	0	0	12141	275	10	5	2157	5	PLXNA4	7	131865401	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	3368180	131865401	27273262	268	43689											
AKR1B10	57016	broad.mit.edu	37	chr7	134215432	134215432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaagaagcagtgaaggtggCcattgatgcaggatatcggc	13	7	15	6	1	0	3	0	2	0	1	1	5	0	4	1	4	2	2	1	4	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:134215432C>T	uc003vrr.2	+	2	424	c.104C>T	c.(103-105)GCC>GTC	p.A35V		NM_020299	NP_064695	O60218	AK1BA_HUMAN	aldo-keto reductase family 1, member B10	35					cellular aldehyde metabolic process|digestion|steroid metabolic process	cytoplasm	aldo-keto reductase (NADP) activity|protein binding			skin(5)	5						GTGAAGGTGGCCATTGATGCA	0.393													30	60					0	0	0.010818	0	0		T	134215432	T	T	134215432	3	4	65	1	0	0	0	0	1	0	0	0	467	739	26	2	110	2	AKR1B10	7	134215432	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2350031	134215432	24923231	269	43690											
MLL3	58508	broad.mit.edu	37	chr7	151917681	151917681	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggtctgaaggacggccacGctattctgatttataatctt	9	13	11	8	2	3	2	0	2	3	0	3	3	3	3	1	4	0	1	1	4	4	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:151917681G>A	uc003wla.2	-	23	3858	c.3639C>T	c.(3637-3639)AGC>AGT	p.S1213S	MLL3_uc003wkz.2_Silent_p.S274S	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1213					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGACGGCCACGCTATTCTGAT	0.398			N		medulloblastoma								16	39					0	0	0.003163	0	0		A	151917681	A	A	151917681	2	1	65	1	0	0	0	0	0	0	0	1	9640	1078	38	1		1	MLL3	7	151917681	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	17702249	151917681	7220982	270	43691											
HTR5A	3361	broad.mit.edu	37	chr7	154863212	154863212	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgcgagccttcctacgcCgtgttctccaccgtaggcgc	5	8	11	17	6	1	0	0	0	1	0	3	1	2	0	6	1	3	2	6	1	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:154863212C>T	uc003wlu.1	+	1	667	c.603C>T	c.(601-603)GCC>GCT	p.A201A	uc011kvt.1_5'UTR|uc003wlt.2_5'UTR	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	201	Helical; Name=5; (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		CTTCCTACGCCGTGTTCTCCA	0.612													5	27					0	0	0.001168	0	0		T	154863212	T	T	154863212	2	4	65	1	0	0	0	0	0	0	0	1	7466	639	23	1		1	HTR5A	7	154863212	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2945531	154863212	4275451	271	43692											
INSIG1	3638	broad.mit.edu	37	chr7	155093316	155093316	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgtatcgacagtcacctCggagaaccccacaaatttaa	13	8	6	14	2	1	1	1	0	0	1	3	3	1	1	4	1	1	1	4	1	4	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr7:155093316C>T	uc003wly.2	+	3	664	c.453C>T	c.(451-453)CTC>CTT	p.L151L	INSIG1_uc011kvu.1_Intron|INSIG1_uc003wlz.2_Intron	NM_005542	NP_005533	O15503	INSI1_HUMAN	insulin induced gene 1 isoform 1	151	Cytoplasmic.				cell proliferation|ER-nuclear sterol response pathway	endoplasmic reticulum membrane|integral to membrane	protein binding				0	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ACAGTCACCTCGGAGAACCCC	0.428													42	87					0	0	0.00361	0	0		T	155093316	T	T	155093316	2	4	65	1	0	0	0	0	0	0	0	1	7781	871	31	1		1	INSIG1	7	155093316	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	230104	155093316	4045347	272	43693											
CSMD1	64478	broad.mit.edu	37	chr8	3611465	3611465	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccttaccttggaactgagcGttaaatcctttgcgtcggtg	7	14	10	10	3	0	1	0	1	0	0	3	2	2	2	3	2	4	1	3	2	4	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:3611465G>A	uc011kwk.1	-	6	1308	c.918C>T	c.(916-918)AAC>AAT	p.N306N		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	306	Extracellular (Potential).|CUB 2.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GGAACTGAGCGTTAAATCCTT	0.418													12	22					0	0	0.010729	0	0		A	3611465	A	A	3611465	2	1	65	1	0	0	0	0	0	0	0	1	3947	1136	40	1		1	CSMD1	8	3611465	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08		3611465	142752557	273	43694											
MFHAS1	9258	broad.mit.edu	37	chr8	8749608	8749608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccagccacaaggtgagaaGccggcccaggcccgagataa	13	3	12	13	2	0	2	0	1	0	2	1	4	1	2	5	3	2	0	5	3	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:8749608G>A	uc003wsj.1	-	1	1524	c.961C>T	c.(961-963)CTT>TTT	p.L321F		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	321	LRR 12.										0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		AAGGTGAGAAGCCGGCCCAGG	0.637													10	35					0	0	0.006214	0	0		A	8749608	A	A	8749608	3	1	65	1	0	0	0	0	1	0	0	0	9539	971	34	2	2209	2	MFHAS1	8	8749608	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	5138143	8749608	137614414	274	43695											
AMAC1L2	83650	broad.mit.edu	37	chr8	11188791	11188791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcgtgggccccctttctcGtatggcttaccagggttcca	4	13	10	14	2	1	0	0	0	1	0	4	0	2	0	4	3	1	3	4	3	2	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:11188791G>A	uc003wtp.1	+	1	297	c.176G>A	c.(175-177)CGT>CAT	p.R59H		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	59	DUF6 1.					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		CCCCTTTCTCGTATGGCTTAC	0.647													22	72					0	0	0.00632	0	0		A	11188791	A	A	11188791	3	1	65	1	0	0	0	0	1	0	0	0	560	1145	40	1	178	1	AMAC1L2	8	11188791	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2439183	11188791	135175231	275	43696											
DLC1	10395	broad.mit.edu	37	chr8	12956978	12956978	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgctgggtgtggttcggtcGttgtccacatccaggtgtat	4	14	14	9	3	0	0	0	0	0	0	5	0	2	0	2	4	0	4	2	4	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:12956978G>A	uc003wwm.2	-	9	3312	c.2868C>T	c.(2866-2868)AAC>AAT	p.N956N	DLC1_uc003wwk.1_Silent_p.N519N|DLC1_uc003wwl.1_Silent_p.N553N|DLC1_uc011kxx.1_Silent_p.N445N	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	956					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TGGTTCGGTCGTTGTCCACAT	0.582													16	42					0	0	0.004007	0	0		A	12956978	A	A	12956978	2	1	65	1	0	0	0	0	0	0	0	1	4556	1136	40	1		1	DLC1	8	12956978	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1768187	12956978	133407044	276	43697											
ADRA1A	148	broad.mit.edu	37	chr8	26627887	26627887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaaatttccattcacaaaCgccatccgtcttggagatcc	13	10	6	12	2	2	1	1	0	1	1	5	3	5	1	4	1	1	0	4	1	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:26627887C>T	uc003xfh.1	-	2	1616	c.1180G>A	c.(1180-1182)GTT>ATT	p.V394I	ADRA1A_uc003xfc.1_Missense_Mutation_p.V394I|ADRA1A_uc010lul.1_Intron|ADRA1A_uc003xfd.1_Intron|ADRA1A_uc003xfe.1_Missense_Mutation_p.V394I|ADRA1A_uc010lum.1_Intron|ADRA1A_uc003xff.1_Intron|ADRA1A_uc003xfg.1_Missense_Mutation_p.V394I	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	394	Cytoplasmic (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	CATTCACAAACGCCATCCGTC	0.552													38	85					0	0	0.005524	0	0		T	26627887	T	T	26627887	3	4	65	1	0	0	0	0	1	0	0	0	334	536	19	1	515	1	ADRA1A	8	26627887	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	13670909	26627887	119736135	277	43698											
HMBOX1	79618	broad.mit.edu	37	chr8	28827712	28827712	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgatcaagagcatagtgAcaagtttggaagaaggtcca	14	10	11	6	0	2	4	1	2	1	2	3	5	3	5	1	2	1	2	1	2	5	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:28827712A>G	uc003xhd.3	+	3	518	c.176A>G	c.(175-177)GAC>GGC	p.D59G	HMBOX1_uc010lvd.2_Missense_Mutation_p.D59G|HMBOX1_uc003xhc.3_Missense_Mutation_p.D59G|HMBOX1_uc010lve.2_RNA|HMBOX1_uc003xhe.2_Missense_Mutation_p.D59G|HMBOX1_uc011lay.1_Missense_Mutation_p.D59G|HMBOX1_uc003xhf.2_Missense_Mutation_p.D47G|HMBOX1_uc003xhg.2_Missense_Mutation_p.D47G	NM_001135726	NP_001129198	Q6NT76	HMBX1_HUMAN	homeobox containing 1	59					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(32;0.0192)		KIRC - Kidney renal clear cell carcinoma(542;0.135)|Kidney(114;0.161)		GAGCATAGTGACAAGTTTGGA	0.453													29	58					0	0	0.008361	0	0		G	28827712	G	G	28827712	3	3	65	1	0	0	0	0	1	0	0	0	7234	275	10	3	182	3	HMBOX1	8	28827712	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	2199825	28827712	117536310	278	43699											
GPR124	25960	broad.mit.edu	37	chr8	37691605	37691605	+	Frame_Shift_Del	DEL	G	-	-																															tgggtgccctggagcgcattGggggggccgccctcagcccc																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:37691605delG	uc003xkj.2	+	11	1930	c.1567delG	c.(1567-1569)GGGfs	p.G523fs	GPR124_uc010lvy.2_Frame_Shift_Del_p.G523fs	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	523	Extracellular (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			GGAGCGCATTGGGGGGGCCGC	0.687													23	38	---	---	---	---						.	-	37691605	-	-	37691605	7	5	65	1	0	1	0	1	0	0	0	0	6653	1348	47	0	1588	0	GPR124	8	37691605	Frame_Shift_Del	DEL	G	TCGA-BR-8360-01A-11D-2340-08	8863893	37691605	108672417	279	43700											
ANK1	286	broad.mit.edu	37	chr8	41530179	41530179	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaacttccactcgtgacCtgtggcatcagagtcctcag	8	10	8	15	1	2	2	2	1	0	1	6	2	5	2	4	1	1	1	4	1	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:41530179C>A	uc003xok.2	-	38	4873	c.4789G>T	c.(4789-4791)GGT>TGT	p.G1597C	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Intron|ANK1_uc003xoi.2_Missense_Mutation_p.G1597C|ANK1_uc003xoj.2_Missense_Mutation_p.G1597C|ANK1_uc003xol.2_Intron|ANK1_uc003xom.2_Missense_Mutation_p.G1638C	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1597	55 kDa regulatory domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			CACTCGTGACCTGTGGCATCA	0.602													32	65					5.77227e-19	6.39807e-19	0.008361	1	0		A	41530179	A	A	41530179	3	1	65	1	0	0	0	0	1	0	0	0	620	681	24	5	1202	5	ANK1	8	41530179	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3838574	41530179	104833843	280	43701											
PRKDC	5591	broad.mit.edu	37	chr8	48743276	48743276	+	Frame_Shift_Del	DEL	T	-	-																															gacctgggcatcctgcttcaTttttaactcactcttgattt																								rs67313876		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:48743276delT	uc003xqi.2	-	62	8344	c.8287delA	c.(8287-8289)ATGfs	p.M2763fs	PRKDC_uc003xqj.2_Frame_Shift_Del_p.M2763fs|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2763	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TCCTGCTTCATTTTTAACTCA	0.483								NHEJ					34	57	---	---	---	---						.	-	48743276	-	-	48743276	7	5	65	1	0	1	0	1	0	0	0	0	12543	1493	52	0	4203	0	PRKDC	8	48743276	Frame_Shift_Del	DEL	T	TCGA-BR-8360-01A-11D-2340-08	7213097	48743276	97620746	281	43702											
GDF6	392255	broad.mit.edu	37	chr8	97156923	97156923	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctgggcggggtggagccGgggtccatggagttcatcag	6	7	19	9	2	2	0	2	0	0	0	3	2	3	2	2	7	2	2	2	7	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:97156923G>A	uc003yhp.2	-	2	1336	c.1236C>T	c.(1234-1236)CCC>CCT	p.P412P		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	412					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GGGTGGAGCCGGGGTCCATGG	0.597													7	23					0	0	0.001984	0	0		A	97156923	A	A	97156923	2	1	65	1	0	0	0	0	0	0	0	1	6332	1103	39	1		1	GDF6	8	97156923	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	48413647	97156923	49207099	282	43703											
VPS13B	157680	broad.mit.edu	37	chr8	100287380	100287380	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaagaccttcatagcaccAagtggctcaatgagagtaga	15	8	9	9	0	2	3	2	1	0	3	2	4	2	3	2	1	1	3	2	1	6	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:100287380A>G	uc003yiv.2	+	19	2833	c.2722A>G	c.(2722-2724)AAG>GAG	p.K908E	VPS13B_uc003yiw.2_Missense_Mutation_p.K908E|VPS13B_uc003yiu.1_Missense_Mutation_p.K908E|VPS13B_uc003yix.1_Missense_Mutation_p.K379E	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	908					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TCATAGCACCAAGTGGCTCAA	0.383													23	97					0	0	0.004656	0	0		G	100287380	G	G	100287380	3	3	65	1	0	0	0	0	1	0	0	0	17216	131	5	3	2915	3	VPS13B	8	100287380	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	3130457	100287380	46076642	283	43704											
RNF19A	25897	broad.mit.edu	37	chr8	101271170	101271170	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catactgtcactgagggatgGagcctcaaattcacttgagt	11	11	10	9	0	3	2	3	2	0	0	3	4	3	4	1	2	2	0	1	2	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:101271170G>T	uc003yjj.1	-	11	2448	c.2131C>A	c.(2131-2133)CCA>ACA	p.P711T	RNF19A_uc003yjk.1_Missense_Mutation_p.P711T	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	711	Interaction with CASR.				microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)			CTGAGGGATGGAGCCTCAAAT	0.403											OREG0018897	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	48	172					2.55665e-31	2.89951e-31	0.00361	1	0		T	101271170	T	T	101271170	3	4	65	1	0	0	0	0	1	0	0	0	13495	1174	41	5	389	5	RNF19A	8	101271170	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	983790	101271170	45092852	284	43705											
RIMS2	9699	broad.mit.edu	37	chr8	105105702	105105702	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaatctgtgttaacagtatCgatcaggatgggatcctcat	11	13	9	8	1	4	0	3	0	1	0	6	3	5	2	1	2	1	2	1	2	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:105105702C>T	uc003yls.2	+	21	2966	c.2725C>T	c.(2725-2727)CGA>TGA	p.R909*	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Nonsense_Mutation_p.R982*|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	365					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TTAACAGTATCGATCAGGATG	0.388										HNSCC(12;0.0054)			33	116					0	0	0.003755	0	0		T	105105702	T	T	105105702	4	4	65	1	0	0	0	0	0	1	0	0	13393	899	31	1		1	RIMS2	8	105105702	Nonsense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3834532	105105702	41258320	285	43706											
SLC30A8	169026	broad.mit.edu	37	chr8	118170071	118170071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttccagctgcgcagtggCggccaacattgtgtaagtca	8	10	12	11	3	1	0	1	0	0	0	2	0	2	0	2	2	3	4	2	2	2	3	rs141202988		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:118170071C>T	uc003yoh.2	+	4	790	c.560C>T	c.(559-561)GCG>GTG	p.A187V	SLC30A8_uc010mcz.2_Missense_Mutation_p.A138V|SLC30A8_uc011lia.1_Missense_Mutation_p.A138V|SLC30A8_uc003yog.2_Missense_Mutation_p.A138V	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	187	Helical; (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity	p.A187V(1)		ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			TGCGCAGTGGCGGCCAACATT	0.517													20	87					0	0	0.010504	0	0		T	118170071	T	T	118170071	3	4	65	1	0	0	0	0	1	0	0	0	14586	768	27	1	574	1	SLC30A8	8	118170071	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	13064369	118170071	28193951	286	43707											
MED30	90390	broad.mit.edu	37	chr8	118540959	118540959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagctacaggataatcttCgccaactttcagttctcttc	11	13	5	12	1	3	0	1	0	2	0	6	1	3	1	1	1	3	2	1	1	4	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:118540959C>T	uc003yoj.2	+	2	398	c.247C>T	c.(247-249)CGC>TGC	p.R83C	MED30_uc011lib.1_Missense_Mutation_p.R83C	NM_080651	NP_542382	Q96HR3	MED30_HUMAN	TRAP/Mediator complex component TRAP25	83	Potential.				androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding				0	all_cancers(13;3.41e-25)|Lung NSC(37;3.02e-05)|Ovarian(258;0.00163)		STAD - Stomach adenocarcinoma(47;0.0266)			GGATAATCTTCGCCAACTTTC	0.393													34	115					0	0	0.002836	0	0		T	118540959	T	T	118540959	3	4	65	1	0	0	0	0	1	0	0	0	9466	884	31	1	253	1	MED30	8	118540959	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	370888	118540959	27823063	287	43708											
MTBP	27085	broad.mit.edu	37	chr8	121463538	121463538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaagaagaagacagtaataGcagggaatcattatccttgg	16	9	11	5	0	1	4	1	1	0	3	2	5	2	5	1	2	1	2	1	2	7	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:121463538G>A	uc003ypc.1	+	4	446	c.401G>A	c.(400-402)AGC>AAC	p.S134N	MTBP_uc003ypb.1_Missense_Mutation_p.S134N|MTBP_uc011lie.1_RNA	NM_022045	NP_071328	Q96DY7	MTBP_HUMAN	Mdm2, transformed 3T3 cell double minute 2, p53	134					cell cycle arrest					skin(2)|ovary(1)	3	Lung NSC(37;5.68e-08)|Ovarian(258;0.00769)|all_neural(195;0.0804)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00503)			GACAGTAATAGCAGGGAATCA	0.299													20	46					0	0	0.008871	0	0		A	121463538	A	A	121463538	3	1	65	1	0	0	0	0	1	0	0	0	9930	971	34	2	415	2	MTBP	8	121463538	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2922579	121463538	24900484	288	43709											
ATAD2	29028	broad.mit.edu	37	chr8	124361578	124361578	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcaaagcgaccaggccttcGtaaagcaggatctatagaat	15	8	9	9	2	2	1	1	0	1	1	3	3	2	2	2	2	2	2	2	2	6	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:124361578G>A	uc003yqh.3	-	14	1861	c.1753C>T	c.(1753-1755)CGA>TGA	p.R585*	ATAD2_uc011lii.1_Nonsense_Mutation_p.R376*|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Nonsense_Mutation_p.R585*|MIR548D1_hsa-mir-548d-1|MI0003668_5'Flank	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	585					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			CCAGGCCTTCGTAAAGCAGGA	0.413													31	115					0	0	0.010818	0	0		A	124361578	A	A	124361578	4	1	65	1	0	0	0	0	0	1	0	0	1072	1153	40	1	2479	1	ATAD2	8	124361578	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2898040	124361578	22002444	289	43710											
RNF139	11236	broad.mit.edu	37	chr8	125499067	125499067	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgtagacattttcctgtgCtgtttgtctctgcttgcctg	3	19	9	10	1	1	1	0	0	1	1	4	1	2	1	2	0	3	4	2	0	1	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:125499067C>T	uc003yrc.2	+	2	1520	c.1177C>T	c.(1177-1179)CTG>TTG	p.L393L		NM_007218	NP_009149	Q8WU17	RN139_HUMAN	ring finger protein 139	393	Helical; (Potential).				negative regulation of cell proliferation|regulation of protein ubiquitination	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			TTTTCCTGTGCTGTTTGTCTC	0.398									Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				101	336					0	0	0.00361	0	0		T	125499067	T	T	125499067	2	4	65	1	0	0	0	0	0	0	0	1	13467	796	28	2		2	RNF139	8	125499067	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1137489	125499067	20864955	290	43711											
ZNF572	137209	broad.mit.edu	37	chr8	125989004	125989004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttataaatgctctgagtGtgcaaaatgtttttgtaaca	12	15	8	6	0	1	1	0	1	1	0	1	1	1	1	1	0	3	4	1	0	6	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:125989004G>A	uc003yrr.2	+	3	649	c.494G>A	c.(493-495)TGT>TAT	p.C165Y		NM_152412	NP_689625	Q7Z3I7	ZN572_HUMAN	zinc finger protein 572	165	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			TGCTCTGAGTGTGCAAAATGT	0.423										HNSCC(60;0.17)			33	77					0	0	0.010818	0	0		A	125989004	A	A	125989004	3	1	65	1	0	0	0	0	1	0	0	0	18029	1377	48	4	500	4	ZNF572	8	125989004	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	489937	125989004	20375018	291	43712											
ADCY8	114	broad.mit.edu	37	chr8	131848643	131848643	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaggacggagttcagcCggaggaaaactgcacaggtc	11	6	14	10	2	2	0	2	0	0	0	3	4	2	4	1	5	3	3	1	5	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:131848643C>A	uc003ytd.3	-	12	2811	c.2555G>T	c.(2554-2556)CGG>CTG	p.R852L	ADCY8_uc010mds.2_Missense_Mutation_p.R721L	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	852					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GGAGTTCAGCCGGAGGAAAAC	0.542										HNSCC(32;0.087)			9	67					0.000442599	0.000451834	0.006214	1	0		A	131848643	A	A	131848643	3	1	65	1	0	0	0	0	1	0	0	0	300	652	23	5	1228	5	ADCY8	8	131848643	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	5859639	131848643	14515379	292	43713											
DENND3	22898	broad.mit.edu	37	chr8	142186754	142186754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttaaaaatcagagtggCgtccaagaaagaagtcttcg	15	9	9	8	2	2	3	1	0	1	3	4	3	3	3	1	1	0	0	1	1	6	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:142186754C>T	uc003yvy.2	+	15	2638	c.2360C>T	c.(2359-2361)GCG>GTG	p.A787V	DENND3_uc010mep.2_Missense_Mutation_p.A748V	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	787										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			ATCAGAGTGGCGTCCAAGAAA	0.478													5	72					0	0	0.001168	0	0		T	142186754	T	T	142186754	3	4	65	1	0	0	0	0	1	0	0	0	4438	768	27	1	2414	1	DENND3	8	142186754	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	10338111	142186754	4177268	293	43714											
LY6E	4061	broad.mit.edu	37	chr8	144103156	144103156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcgtcaccctgctgggtGccgggctgctgctgagcctg	4	8	15	14	2	1	1	1	1	0	0	1	1	1	1	3	2	6	4	3	2	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:144103156G>A	uc003yxn.2	+	4	500	c.346G>A	c.(346-348)GCC>ACC	p.A116T	LY6E_uc003yxm.2_Missense_Mutation_p.A116T|LY6E_uc003yxo.2_RNA	NM_001127213	NP_001120685	Q16553	LY6E_HUMAN	lymphocyte antigen 6 complex, locus E precursor	116					cell surface receptor linked signaling pathway	anchored to membrane|integral to plasma membrane					0	all_cancers(97;1.94e-10)|all_epithelial(106;1.22e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					CCTGCTGGGTGCCGGGCTGCT	0.672													16	73					0	0	0.007413	0	0		A	144103156	A	A	144103156	3	1	65	1	0	0	0	0	1	0	0	0	9109	1319	46	2	356	2	LY6E	8	144103156	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1916402	144103156	2260866	294	43715											
FAM83H	286077	broad.mit.edu	37	chr8	144810317	144810317	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggaagcggaagtcgtcGccgtggctgaggaacgtctg	7	8	17	9	5	2	1	0	1	2	0	4	4	2	4	1	4	2	1	1	4	3	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:144810317G>A	uc003yzk.2	-	5	1383	c.1314C>T	c.(1312-1314)GGC>GGT	p.G438G	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	438					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GGAAGTCGTCGCCGTGGCTGA	0.706													8	19					0	0	0.004482	0	0		A	144810317	A	A	144810317	2	1	65	1	0	0	0	0	0	0	0	1	5654	1074	38	1		1	FAM83H	8	144810317	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	707161	144810317	1553705	295	43716											
PLEC	5339	broad.mit.edu	37	chr8	144993912	144993912	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgtcctccaggtagatGccggcgaggcagccactgcc	6	8	14	13	2	0	1	0	0	0	1	2	2	2	1	5	4	3	2	5	4	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:144993912G>A	uc003zaf.1	-	32	10658	c.10488C>T	c.(10486-10488)GGC>GGT	p.G3496G	PLEC_uc003zab.1_Silent_p.G3359G|PLEC_uc003zac.1_Silent_p.G3363G|PLEC_uc003zad.2_Silent_p.G3359G|PLEC_uc003zae.1_Silent_p.G3327G|PLEC_uc003zag.1_Silent_p.G3337G|PLEC_uc003zah.2_Silent_p.G3345G|PLEC_uc003zaj.2_Silent_p.G3386G	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3496	Plectin 12.|Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CCAGGTAGATGCCGGCGAGGC	0.662													19	41					0	0	0.007413	0	0		A	144993912	A	A	144993912	2	1	65	1	0	0	0	0	0	0	0	1	12071	1306	46	2		2	PLEC	8	144993912	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	183595	144993912	1370110	296	43717											
OPLAH	26873	broad.mit.edu	37	chr8	145113453	145113453	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcacgtagcgctggatggcGggcgtgaggtaggcgtcggc	5	7	20	9	6	0	1	0	1	0	0	1	2	0	2	0	6	2	4	0	6	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:145113453G>A	uc003zar.3	-	6	811	c.729C>T	c.(727-729)CCC>CCT	p.P243P	OPLAH_uc003zat.1_Silent_p.P21P	NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	243							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	GCTGGATGGCGGGCGTGAGGT	0.687													6	33					0	0	0.001984	0	0		A	145113453	A	A	145113453	2	1	65	1	0	0	0	0	0	0	0	1	10895	1103	39	1		1	OPLAH	8	145113453	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	119541	145113453	1250569	297	43718											
VPS28	51160	broad.mit.edu	37	chr8	145649444	145649444	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactggctgaccgtctggcgGccctcaaagtcgggtgggag	6	7	16	12	3	2	1	1	1	1	0	3	2	2	2	2	5	0	1	2	5	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr8:145649444G>A	uc003zcr.1	-	8	581	c.528C>T	c.(526-528)GGC>GGT	p.G176G	VPS28_uc003zcs.1_Silent_p.G176G|VPS28_uc003zct.1_Silent_p.G176G	NM_016208	NP_057292	Q9UK41	VPS28_HUMAN	vacuolar protein sorting 28 isoform 1	176	VPS28 C-terminal.				cellular membrane organization|endosome transport|negative regulation of protein ubiquitination|protein transport	cytosol|late endosome membrane|plasma membrane	protein binding				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CCGTCTGGCGGCCCTCAAAGT	0.697													24	71					0	0	0.00278	0	0		A	145649444	A	A	145649444	2	1	65	1	0	0	0	0	0	0	0	1	17225	1190	42	2		2	VPS28	8	145649444	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	535991	145649444	714578	298	43719											
TYRP1	7306	broad.mit.edu	37	chr9	12695537	12695537	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggagaaatcttctggacttAagtaaagaagaaaagaacca	20	7	9	5	0	2	4	0	0	2	4	2	6	2	5	1	2	1	1	1	2	8	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:12695537A>G	uc003zkv.3	+	3	586	c.408A>G	c.(406-408)TTA>TTG	p.L136L		NM_000550	NP_000541	P17643	TYRP1_HUMAN	tyrosinase-related protein 1 precursor	136	Lumenal, melanosome (Potential).				melanin biosynthetic process	clathrin-coated endocytic vesicle membrane|endosome membrane|integral to membrane|melanosome membrane	copper ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, another compound as one donor, and incorporation of one atom of oxygen|protein heterodimerization activity|protein homodimerization activity			lung(1)	1		all_cancers(3;3.1e-05)|all_lung(3;1.7e-06)|Lung NSC(3;2.09e-06)|all_epithelial(3;0.000695)|all_hematologic(3;0.0033)|Acute lymphoblastic leukemia(23;0.0744)		GBM - Glioblastoma multiforme(50;9.85e-06)		TTCTGGACTTAAGTAAAGAAG	0.423									Oculocutaneous_Albinism				31	61					0	0	0.002836	0	0		G	12695537	G	G	12695537	2	3	65	1	0	0	0	0	0	0	0	1	16842	359	13	3		3	TYRP1	9	12695537	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08		12695537	128517894	299	43720											
ZBTB5	9925	broad.mit.edu	37	chr9	37441517	37441517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcttgtgaggtcacatcGctcacttcatcctgaggctc	6	13	9	13	1	4	2	3	2	1	0	7	2	5	2	1	2	1	3	1	2	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:37441517G>A	uc003zzx.2	-	2	1232	c.1032C>T	c.(1030-1032)AGC>AGT	p.S344S		NM_014872	NP_055687	O15062	ZBTB5_HUMAN	zinc finger and BTB domain containing 5	344					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(29;0.00733)|Lung(182;0.226)		AGGTCACATCGCTCACTTCAT	0.537													30	63					0	0	0.009535	0	0		A	37441517	A	A	37441517	2	1	65	1	0	0	0	0	0	0	0	1	17576	1078	38	1		1	ZBTB5	9	37441517	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	24745980	37441517	103771914	300	43721											
APBA1	320	broad.mit.edu	37	chr9	72082835	72082835	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggagccaaggtaattggcGgcaaaaatgattccatcgat	13	9	12	7	2	0	1	0	1	0	0	2	3	1	2	2	4	1	2	2	4	4	3	rs141287424		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:72082835G>A	uc004ahh.2	-	5	1662	c.1386C>T	c.(1384-1386)GCC>GCT	p.A462A		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	462	PID.				axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						GGTAATTGGCGGCAAAAATGA	0.552													43	200					0	0	0.010771	0	0		A	72082835	A	A	72082835	2	1	65	1	0	0	0	0	0	0	0	1	756	1103	39	1		1	APBA1	9	72082835	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	34641318	72082835	69130596	301	43722											
TRPM3	80036	broad.mit.edu	37	chr9	73152148	73152148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtctgacgaggtcctcgagCggattttgttggactcggcc	6	11	14	10	4	1	1	0	1	1	0	4	5	2	3	2	4	1	1	2	4	0	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:73152148C>T	uc004aid.2	-	25	4089	c.3845G>A	c.(3844-3846)CGC>CAC	p.R1282H	TRPM3_uc004ahu.2_Missense_Mutation_p.R1124H|TRPM3_uc004ahv.2_Missense_Mutation_p.R1084H|TRPM3_uc004ahw.2_Missense_Mutation_p.R1154H|TRPM3_uc004ahx.2_Missense_Mutation_p.R1141H|TRPM3_uc004ahy.2_Missense_Mutation_p.R1144H|TRPM3_uc004ahz.2_Missense_Mutation_p.R1131H|TRPM3_uc004aia.2_Missense_Mutation_p.R1129H|TRPM3_uc004aib.2_Missense_Mutation_p.R1119H|TRPM3_uc004aic.2_Missense_Mutation_p.R1282H	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1307	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GGTCCTCGAGCGGATTTTGTT	0.612													23	86					0	0	0.003954	0	0		T	73152148	T	T	73152148	3	4	65	1	0	0	0	0	1	0	0	0	16613	768	27	1	1282	1	TRPM3	9	73152148	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1069313	73152148	68061283	302	43723											
KIF27	55582	broad.mit.edu	37	chr9	86452031	86452031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccaaggcggaaatttgaCgtaattcttttcgacacagt	11	13	9	8	3	1	1	0	1	1	0	3	3	2	2	1	2	0	2	1	2	3	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:86452031C>T	uc004ana.2	-	18	4235	c.4091G>A	c.(4090-4092)CGT>CAT	p.R1364H	KIF27_uc010mpw.2_Missense_Mutation_p.R1298H|KIF27_uc010mpx.2_Missense_Mutation_p.R1267H	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	1364					cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						GGAAATTTGACGTAATTCTTT	0.448													13	50					0	0	0.008871	0	0		T	86452031	T	T	86452031	3	4	65	1	0	0	0	0	1	0	0	0	8312	536	19	1	118	1	KIF27	9	86452031	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	13299883	86452031	54761400	303	43724											
SHC3	53358	broad.mit.edu	37	chr9	91656996	91656996	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcactgctgaccgcagccggCcaggcctgtggtgggatctg	5	7	16	13	2	1	1	0	1	1	0	1	2	1	2	4	4	2	3	4	4	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:91656996C>A	uc004aqg.2	-	10	1612	c.1305G>T	c.(1303-1305)TGG>TGT	p.W435C		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	435	CH1.				central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						CCGCAGCCGGCCAGGCCTGTG	0.562													21	78					2.37509e-13	2.56615e-13	0.010504	1	0		A	91656996	A	A	91656996	3	1	65	1	0	0	0	0	1	0	0	0	14297	740	26	5	491	5	SHC3	9	91656996	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	5204965	91656996	49556435	304	43725											
SECISBP2	79048	broad.mit.edu	37	chr9	91964783	91964783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctccagagggacacagagGcctcccaccttgctcccaat	10	6	9	16	0	0	2	0	0	0	2	3	3	3	3	5	2	2	2	5	2	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:91964783G>A	uc004aqj.1	+	13	1911	c.1831G>A	c.(1831-1833)GCC>ACC	p.A611T	SECISBP2_uc011ltk.1_Missense_Mutation_p.A610T|SECISBP2_uc004aqk.1_Missense_Mutation_p.A538T|SECISBP2_uc010mqo.1_Missense_Mutation_p.A316T|SECISBP2_uc011ltl.1_Missense_Mutation_p.A543T	NM_024077	NP_076982	Q96T21	SEBP2_HUMAN	SECIS binding protein 2	611					translation	nucleus	mRNA 3'-UTR binding			ovary(2)|skin(1)	3						GGACACAGAGGCCTCCCACCT	0.592													19	76					0	0	0.010504	0	0		A	91964783	A	A	91964783	3	1	65	1	0	0	0	0	1	0	0	0	14031	1203	42	2	1881	2	SECISBP2	9	91964783	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	307787	91964783	49248648	305	43726											
FGD3	89846	broad.mit.edu	37	chr9	95738953	95738953	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaacctgactctgagaacAccccccagaaggctgacaag	14	4	10	13	0	1	4	0	3	1	2	1	6	1	5	4	2	2	1	4	2	4	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:95738953A>G	uc004asw.2	+	3	1043	c.415A>G	c.(415-417)ACC>GCC	p.T139A	FGD3_uc004asx.2_Missense_Mutation_p.T139A|FGD3_uc004asz.2_Missense_Mutation_p.T139A	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	139					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						CTCTGAGAACACCCCCCAGAA	0.667													5	24					0	0	0.001168	0	0		G	95738953	G	G	95738953	3	3	65	1	0	0	0	0	1	0	0	0	5848	159	6	3	417	3	FGD3	9	95738953	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	3774170	95738953	45474478	306	43727											
ZNF169	169841	broad.mit.edu	37	chr9	97063569	97063569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtctgcagggagtgtgggCgtggctttagccagaagtct	7	11	16	7	1	2	1	0	0	2	1	2	2	2	2	1	3	2	2	1	3	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:97063569C>T	uc004aum.1	+	5	1834	c.1729C>T	c.(1729-1731)CGT>TGT	p.R577C		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	577	C2H2-type 13; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				GGAGTGTGGGCGTGGCTTTAG	0.557													17	43					0	0	0.004007	0	0		T	97063569	T	T	97063569	3	4	65	1	0	0	0	0	1	0	0	0	17767	768	27	1	1743	1	ZNF169	9	97063569	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1324616	97063569	44149862	307	43728											
PTCH1	5727	broad.mit.edu	37	chr9	98209385	98209385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgcccaggcccagggacagGcggcgggtgcacggcgacag	7	1	18	15	5	0	0	0	0	0	0	0	2	0	1	3	6	1	1	3	6	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:98209385G>A	uc004avk.3	-	23	4341	c.4153C>T	c.(4153-4155)CCT>TCT	p.P1385S	PTCH1_uc010mrn.2_Missense_Mutation_p.P177S|PTCH1_uc010mro.2_Missense_Mutation_p.P1234S|PTCH1_uc010mrp.2_Missense_Mutation_p.P1234S|PTCH1_uc010mrq.2_Missense_Mutation_p.P1234S|PTCH1_uc004avl.3_Missense_Mutation_p.P1234S|PTCH1_uc010mrr.2_Missense_Mutation_p.P1319S|PTCH1_uc004avm.3_Missense_Mutation_p.P1384S	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	1385	Cytoplasmic (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				CCAGGGACAGGCGGCGGGTGC	0.692									Basal_Cell_Nevus_syndrome				13	68					0	0	0.00245	0	0		A	98209385	A	A	98209385	3	1	65	1	0	0	0	0	1	0	0	0	12752	1203	42	2	194	2	PTCH1	9	98209385	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1145816	98209385	43004046	308	43729											
TRIM14	9830	broad.mit.edu	37	chr9	100857274	100857274	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacagctccccgaggctcAtctgctgctgcatctcctgc	5	9	10	17	1	3	0	1	0	2	0	5	1	4	0	3	2	5	6	3	2	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:100857274A>G	uc004ayd.2	-	4	593	c.575T>C	c.(574-576)ATG>ACG	p.M192T	TRIM14_uc004ayf.1_Missense_Mutation_p.M99T|TRIM14_uc011luz.1_5'Flank|TRIM14_uc011lva.1_5'Flank|TRIM14_uc004ayg.1_Missense_Mutation_p.M192T|TRIM14_uc004ayh.1_Missense_Mutation_p.M192T|TRIM14_uc004ayi.1_Missense_Mutation_p.M192T|TRIM14_uc004ayj.1_Missense_Mutation_p.M99T	NM_033220	NP_150089	Q14142	TRI14_HUMAN	tripartite motif protein TRIM14 isoform alpha	192						cytoplasm|intracellular	zinc ion binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.0559)				CCCGAGGCTCATCTGCTGCTG	0.622													18	57					0	0	0.006122	0	0		G	100857274	G	G	100857274	3	3	65	1	0	0	0	0	1	0	0	0	16515	217	8	3	765	3	TRIM14	9	100857274	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	2647889	100857274	40356157	309	43730											
COL15A1	1306	broad.mit.edu	37	chr9	101829281	101829281	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgagcattcttatcttccCatttgcaagatctgtccacc	9	13	5	14	1	3	1	0	0	3	1	5	2	5	1	4	0	2	2	4	0	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:101829281C>A	uc004azb.1	+	40	3975	c.3769C>A	c.(3769-3771)CAT>AAT	p.H1257N		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1257	Nonhelical region 10 (NC10).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				CTTATCTTCCCATTTGCAAGA	0.463													20	68					1.56452e-12	1.67978e-12	0.007413	1	0		A	101829281	A	A	101829281	3	1	65	1	0	0	0	0	1	0	0	0	3675	594	21	5	3927	5	COL15A1	9	101829281	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	972007	101829281	39384150	310	43731											
TEX10	54881	broad.mit.edu	37	chr9	103090122	103090122	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttagtaattctttatttgctCgtgctgcagcggtatgaatg	8	17	10	6	2	1	1	0	1	1	0	2	1	1	1	0	1	4	5	0	1	5	7			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:103090122C>T	uc004bas.2	-	8	1963	c.1748G>A	c.(1747-1749)CGA>CAA	p.R583Q	TEX10_uc011lvf.1_Missense_Mutation_p.R422Q|TEX10_uc011lvg.1_Missense_Mutation_p.R586Q	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	583						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		TTTATTTGCTCGTGCTGCAGC	0.433													8	62					0	0	0.004482	0	0		T	103090122	T	T	103090122	3	4	65	1	0	0	0	0	1	0	0	0	15797	884	31	1	1073	1	TEX10	9	103090122	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1260841	103090122	38123309	311	43732											
OR13C5	138799	broad.mit.edu	37	chr9	107360934	107360934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcatgtacatgaggaagatgGtcccacagaatgttatcacc	13	10	9	9	0	2	3	2	1	0	2	3	4	3	4	2	2	1	2	2	2	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:107360934G>A	uc011lvp.1	-	1	761	c.761C>T	c.(760-762)ACC>ATC	p.T254I		NM_001004482	NP_001004482	Q8NGS8	O13C5_HUMAN	olfactory receptor, family 13, subfamily C,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GAGGAAGATGGTCCCACAGAA	0.433													19	90					0	0	0.006122	0	0		A	107360934	A	A	107360934	3	1	65	1	0	0	0	0	1	0	0	0	10956	1261	44	4	197	4	OR13C5	9	107360934	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4270812	107360934	33852497	312	43733											
SVEP1	79987	broad.mit.edu	37	chr9	113242031	113242031	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacccgtggtttgcaaaacGtttttctagaaaatgttgga	12	13	10	6	2	1	1	0	0	1	1	1	3	1	2	1	2	3	4	1	2	6	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:113242031G>T	uc010mtz.2	-	13	2708	c.2371C>A	c.(2371-2373)CGT>AGT	p.R791S	SVEP1_uc010mua.1_Missense_Mutation_p.R791S|SVEP1_uc004beu.2_Missense_Mutation_p.R791S	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	791					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TTTGCAAAACGTTTTTCTAGA	0.338													37	224					1.36161e-19	1.51659e-19	0.004289	1	0		T	113242031	T	T	113242031	3	4	65	1	0	0	0	0	1	0	0	0	15445	1145	40	5	8488	5	SVEP1	9	113242031	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	5881097	113242031	27971400	313	43734											
SLC46A2	57864	broad.mit.edu	37	chr9	115642093	115642093	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggacttgtttataggcCacgatgctgtaagaattgac	12	12	11	6	1	0	2	0	1	0	1	0	4	0	3	1	2	1	3	1	2	5	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:115642093C>A	uc004bgk.2	-	4	1609	c.1377G>T	c.(1375-1377)GTG>GTT	p.V459V		NM_033051	NP_149040	Q9BY10	TSCOT_HUMAN	solute carrier family 46, member 2	459	Cytoplasmic (Potential).					integral to membrane|plasma membrane	symporter activity			central_nervous_system(1)	1						GTTTATAGGCCACGATGCTGT	0.368													24	108					3.28513e-13	3.5438e-13	0.003954	1	0		A	115642093	A	A	115642093	2	1	65	1	0	0	0	0	0	0	0	1	14670	581	21	5		5	SLC46A2	9	115642093	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2400062	115642093	25571338	314	43735											
TNC	3371	broad.mit.edu	37	chr9	117849317	117849317	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagatgcagactccatttacGcacttgccctggtcattgca	9	11	8	13	1	1	2	1	0	0	2	2	2	2	2	2	1	4	3	2	1	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:117849317G>A	uc004bjj.3	-	3	1055	c.693C>T	c.(691-693)TGC>TGT	p.C231C	TNC_uc010mvf.2_Silent_p.C231C	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	231	EGF-like 3.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CTCCATTTACGCACTTGCCCT	0.612													24	72					0	0	0.002299	0	0		A	117849317	A	A	117849317	2	1	65	1	0	0	0	0	0	0	0	1	16295	1079	38	1		1	TNC	9	117849317	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2207224	117849317	23364114	315	43736											
RABGAP1	23637	broad.mit.edu	37	chr9	125836582	125836582	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaatacattcctgacctgTacaaccacttcctggatata	13	11	6	11	0	0	1	0	1	0	0	2	3	2	3	4	2	3	1	4	2	6	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:125836582T>C	uc011lzh.1	+	17	2262	c.2128T>C	c.(2128-2130)TAC>CAC	p.Y710H	RABGAP1_uc004bnl.3_RNA|RABGAP1_uc011lzj.1_Missense_Mutation_p.Y49H	NM_012197	NP_036329	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	710	Rab-GAP TBC.				cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5						TCCTGACCTGTACAACCACTT	0.428													18	90					0	0	0.012319	0	0		C	125836582	C	C	125836582	3	2	65	1	0	0	0	0	1	0	0	0	12989	1638	57	3	2190	3	RABGAP1	9	125836582	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	7987265	125836582	15376849	316	43737											
NEK6	10783	broad.mit.edu	37	chr9	127101923	127101923	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcaagtccgacatctggtcCctgggctgtctgctgtacga	6	12	11	12	2	3	0	1	0	2	0	5	2	5	0	2	2	2	3	2	2	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:127101923C>T	uc004bog.2	+	8	845	c.696C>T	c.(694-696)TCC>TCT	p.S232S	NEK6_uc004bof.2_Silent_p.S250S|NEK6_uc004boh.2_Silent_p.S266S|NEK6_uc010mwj.2_Silent_p.S185S|NEK6_uc010mwk.2_Silent_p.S232S|NEK6_uc004boi.2_Silent_p.S232S	NM_014397	NP_055212	Q9HC98	NEK6_HUMAN	NIMA-related kinase 6 isoform 2	232	Protein kinase.				apoptosis|cell division|chromosome segregation|mitosis|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of mitotic metaphase/anaphase transition	cytoplasm|nucleus	ATP binding|kinesin binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|kidney(1)	3						ACATCTGGTCCCTGGGCTGTC	0.602													35	137					0	0	0.004878	0	0		T	127101923	T	T	127101923	2	4	65	1	0	0	0	0	0	0	0	1	10347	610	22	4		4	NEK6	9	127101923	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1265341	127101923	14111508	317	43738											
GOLGA2	2801	broad.mit.edu	37	chr9	131028142	131028142	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctgatacgaggatccCtatggtctgaatgtgaacct	9	14	9	9	1	2	3	0	3	2	0	4	5	3	4	2	2	2	0	2	2	4	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:131028142C>A	uc011maw.1	-	10	683	c.670G>T	c.(670-672)GGG>TGG	p.G224W	GOLGA2_uc010mxw.2_Intron|GOLGA2_uc004bul.1_Missense_Mutation_p.G125W|GOLGA2_uc004bum.1_Missense_Mutation_p.G98W	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	224	Potential.					Golgi cisterna membrane	protein binding			ovary(1)	1						ACGAGGATCCCTATGGTCTGA	0.512													28	80					2.65835e-16	2.91822e-16	0.007291	1	0		A	131028142	A	A	131028142	3	1	65	1	0	0	0	0	1	0	0	0	6567	681	24	5	2406	5	GOLGA2	9	131028142	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3926219	131028142	10185289	318	43739											
SPTAN1	6709	broad.mit.edu	37	chr9	131395598	131395598	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacgtggagttcacccgctcGcttttcgtgaactgagccac	7	11	10	13	4	1	2	1	2	0	0	3	3	1	3	2	1	3	3	2	1	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:131395598G>A	uc004bvl.3	+	56	7517	c.7404G>A	c.(7402-7404)TCG>TCA	p.S2468S	SPTAN1_uc004bvm.3_Silent_p.S2473S|SPTAN1_uc004bvn.3_Silent_p.S2448S|SPTAN1_uc004bvo.3_Silent_p.S235S|SPTAN1_uc004bvp.3_Silent_p.S211S	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	2468					actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						TCACCCGCTCGCTTTTCGTGA	0.632													24	63					0	0	0.00278	0	0		A	131395598	A	A	131395598	2	1	65	1	0	0	0	0	0	0	0	1	15142	1074	38	1		1	SPTAN1	9	131395598	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	367456	131395598	9817833	319	43740											
PKN3	29941	broad.mit.edu	37	chr9	131476529	131476529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcatggcggcctgggggCgcctcgtcatgaacctgctg	4	8	16	13	4	1	1	1	1	0	0	3	1	1	1	3	5	2	2	3	5	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:131476529C>T	uc004bvw.2	+	11	1759	c.1366C>T	c.(1366-1368)CGC>TGC	p.R456C	PKN3_uc010myh.2_Missense_Mutation_p.R456C|PKN3_uc011mbk.1_Missense_Mutation_p.R6C	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	456					signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4						GGCCTGGGGGCGCCTCGTCAT	0.662													37	151					0	0	0.00623	0	0		T	131476529	T	T	131476529	3	4	65	1	0	0	0	0	1	0	0	0	12000	768	27	1	1408	1	PKN3	9	131476529	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	80931	131476529	9736902	320	43741											
FAM73B	84895	broad.mit.edu	37	chr9	131825895	131825895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagatggtgacaggcctgatGaccaaggctgagaaggtagc	12	6	15	8	0	0	5	0	4	0	2	0	6	0	5	2	4	1	2	2	4	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:131825895G>A	uc004bxa.2	+	11	1341	c.1155G>A	c.(1153-1155)ATG>ATA	p.M385I	FAM73B_uc004bwy.2_RNA|FAM73B_uc004bwz.2_Intron|FAM73B_uc011mbn.1_Missense_Mutation_p.M385I	NM_032809	NP_116198	Q7L4E1	FA73B_HUMAN	hypothetical protein LOC84895	385						integral to membrane				skin(1)	1						CAGGCCTGATGACCAAGGCTG	0.582													21	59					0	0	0.010504	0	0		A	131825895	A	A	131825895	3	1	65	1	0	0	0	0	1	0	0	0	5632	1290	45	4	1193	4	FAM73B	9	131825895	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	349366	131825895	9387536	321	43742											
RAPGEF1	2889	broad.mit.edu	37	chr9	134501510	134501510	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagagatgttgtcatactGcgagggatgccgctcgtagg	8	9	14	10	3	1	1	1	0	0	1	2	4	1	2	2	2	3	3	2	2	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:134501510G>A	uc004cbc.2	-	10	1580	c.1450C>T	c.(1450-1452)CAG>TAG	p.Q484*	RAPGEF1_uc004cbb.2_Nonsense_Mutation_p.Q502*|RAPGEF1_uc010mzm.2_RNA|RAPGEF1_uc010mzn.2_Nonsense_Mutation_p.Q489*|RAPGEF1_uc004cbd.2_Nonsense_Mutation_p.Q489*	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	484					activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		TTGTCATACTGCGAGGGATGC	0.637													5	30					0	0	0.000602	0	0		A	134501510	A	A	134501510	4	1	65	1	0	0	0	0	0	1	0	0	13068	1328	46	2	1843	2	RAPGEF1	9	134501510	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2675615	134501510	6711921	322	43743											
SLC2A6	11182	broad.mit.edu	37	chr9	136340541	136340541	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtctccggacgttgtccTggatctgctcgaactcccag	5	11	10	15	3	2	0	0	0	2	0	6	3	4	2	4	2	2	2	4	2	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:136340541T>G	uc004cee.2	-	5	850	c.755A>C	c.(754-756)CAG>CCG	p.Q252P	SLC2A6_uc004cef.2_Missense_Mutation_p.Q252P|SLC2A6_uc004ceg.2_Missense_Mutation_p.Q229P|SLC2A6_uc011mdj.1_3'UTR	NM_017585	NP_060055	Q9UGQ3	GTR6_HUMAN	solute carrier family 2 (facilitated glucose	252	Cytoplasmic (Potential).					integral to membrane|plasma membrane	D-glucose transmembrane transporter activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.47e-08)|Epithelial(140;9.37e-07)|all cancers(34;1.03e-05)		GACGTTGTCCTGGATCTGCTC	0.672													8	24					0	0	0.00308	0	0		G	136340541	G	G	136340541	3	3	65	1	0	0	0	0	1	0	0	0	14574	1580	55	5	792	5	SLC2A6	9	136340541	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1839031	136340541	4872890	323	43744											
FCN2	2220	broad.mit.edu	37	chr9	137778363	137778363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaaggtggccgacgaggCggagaagtacaatctggtcc	11	7	14	9	3	2	1	1	0	1	1	3	4	3	1	2	5	1	1	2	5	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:137778363C>T	uc004cfg.1	+	7	657	c.647C>T	c.(646-648)GCG>GTG	p.A216V	FCN2_uc004cfh.1_Missense_Mutation_p.A178V	NM_004108	NP_004099	Q15485	FCN2_HUMAN	ficolin 2 isoform a precursor	216	Fibrinogen C-terminal.				complement activation, lectin pathway|opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|calcium-dependent protein binding|receptor binding|sugar binding			large_intestine(1)	1		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.58e-08)|Epithelial(140;6.41e-08)|all cancers(34;3.96e-07)		GCCGACGAGGCGGAGAAGTAC	0.572													25	103					0	0	0.00333	0	0		T	137778363	T	T	137778363	3	4	65	1	0	0	0	0	1	0	0	0	5806	768	27	1	673	1	FCN2	9	137778363	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1437822	137778363	3435068	324	43745											
KCNT1	57582	broad.mit.edu	37	chr9	138651678	138651678	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtggtcatcatgatctgCgtggccctcgtggtgctccc	3	12	13	13	2	3	1	2	1	1	0	5	1	4	1	2	4	2	1	2	4	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:138651678C>T	uc011mdq.1	+	11	1082	c.1008C>T	c.(1006-1008)TGC>TGT	p.C336C	KCNT1_uc011mdr.1_Silent_p.C163C|KCNT1_uc010nbf.2_Silent_p.C291C|KCNT1_uc004cgo.1_Silent_p.C85C	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	336						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		TCATGATCTGCGTGGCCCTCG	0.642													6	37					0	0	0.001984	0	0		T	138651678	T	T	138651678	2	4	65	1	0	0	0	0	0	0	0	1	8107	776	27	1		1	KCNT1	9	138651678	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	873315	138651678	2561753	325	43746											
FAM69B	138311	broad.mit.edu	37	chr9	139617657	139617657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcgcctggcacgcggccGcccttccacccctgttgcgc	3	7	12	19	5	0	0	0	0	0	0	1	0	1	0	6	3	1	2	6	3	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr9:139617657G>A	uc004cik.2	+	5	821	c.727G>A	c.(727-729)GCC>ACC	p.A243T	FAM69B_uc004cil.2_Missense_Mutation_p.A156T|SNHG7_uc004cim.2_Intron	NM_152421	NP_689634	Q5VUD6	FA69B_HUMAN	hypothetical protein LOC138311	243	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.03e-05)|Epithelial(140;0.00013)		GCACGCGGCCGCCCTTCCACC	0.706													10	66					0	0	0.001855	0	0		A	139617657	A	A	139617657	3	1	65	1	0	0	0	0	1	0	0	0	5617	1087	38	1	745	1	FAM69B	9	139617657	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	965979	139617657	1595774	326	43747											
IL2RA	3559	broad.mit.edu	37	chr10	6063591	6063591	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgataataaaccatctgccCcaccacgaaatgataaattc	16	9	4	12	1	1	2	0	2	1	0	2	3	1	2	4	0	2	0	4	0	6	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:6063591C>A	uc001iiz.1	-	4	592	c.433G>T	c.(433-435)GGG>TGG	p.G145W	IL2RA_uc009xih.1_Intron|IL2RA_uc001ija.1_Intron	NM_000417	NP_000408	P01589	IL2RA_HUMAN	interleukin 2 receptor, alpha chain precursor	145	Sushi 2.|Extracellular (Potential).				cell proliferation	integral to membrane	interleukin-2 receptor activity			ovary(1)|skin(1)	2					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	ACCATCTGCCCCACCACGAAA	0.512													29	69					5.60225e-13	6.03387e-13	0.009535	1	0		A	6063591	A	A	6063591	3	1	65	1	0	0	0	0	1	0	0	0	7702	623	22	5	405	5	IL2RA	10	6063591	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08		6063591	129471156	327	43748											
PRKCQ	5588	broad.mit.edu	37	chr10	6472782	6472782	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtccttaccactttcggcCggaacggtgggtcaatctcc	7	10	11	13	3	2	0	1	0	1	0	5	2	3	1	4	4	2	0	4	4	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:6472782C>T	uc001ijj.1	-	17	2030	c.1955G>A	c.(1954-1956)CGG>CAG	p.R652Q	PRKCQ_uc009xim.1_Missense_Mutation_p.R589Q|PRKCQ_uc001iji.1_Missense_Mutation_p.R685Q|PRKCQ_uc009xin.1_Missense_Mutation_p.R616Q|PRKCQ_uc010qax.1_Missense_Mutation_p.R527Q	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	652	AGC-kinase C-terminal.				axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						CACTTTCGGCCGGAACGGTGG	0.617													14	51					0	0	0.003163	0	0		T	6472782	T	T	6472782	3	4	65	1	0	0	0	0	1	0	0	0	12537	652	23	1	173	1	PRKCQ	10	6472782	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	409191	6472782	129061965	328	43749											
PTER	9317	broad.mit.edu	37	chr10	16528558	16528558	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaccatttcagattatcCgaatattgcaagaagcaggc	13	9	10	9	1	1	2	1	0	0	2	2	3	2	2	2	2	2	3	2	2	5	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:16528558C>T	uc001iog.1	+	4	847	c.640C>T	c.(640-642)CGA>TGA	p.R214*	PTER_uc001ioh.1_Nonsense_Mutation_p.R214*|PTER_uc001ioi.1_Nonsense_Mutation_p.R214*|PTER_uc009xjp.1_Nonsense_Mutation_p.R214*	NM_030664	NP_109589	Q96BW5	PTER_HUMAN	phosphotriesterase related	214					catabolic process		hydrolase activity, acting on ester bonds|zinc ion binding			ovary(2)	2						TCAGATTATCCGAATATTGCA	0.478													17	62					0	0	0.004007	0	0		T	16528558	T	T	16528558	4	4	65	1	0	0	0	0	0	1	0	0	12761	644	23	1	646	1	PTER	10	16528558	Nonsense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	10055776	16528558	119006189	329	43750											
CUBN	8029	broad.mit.edu	37	chr10	16955916	16955916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattctccactcgcagatcCggccatgaggatttgggttc	7	12	11	11	2	1	3	0	2	1	1	5	4	2	4	3	3	0	2	3	3	0	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:16955916C>T	uc001ioo.2	-	48	7479	c.7427G>A	c.(7426-7428)CGG>CAG	p.R2476Q		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2476	CUB 18.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CTCGCAGATCCGGCCATGAGG	0.532													12	65					0	0	0.001855	0	0		T	16955916	T	T	16955916	3	4	65	1	0	0	0	0	1	0	0	0	4054	652	23	1	3524	1	CUBN	10	16955916	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	427358	16955916	118578831	330	43751											
KIAA1462	57608	broad.mit.edu	37	chr10	30315148	30315148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggcccaatctctgggcaCggtccccactgccaggagac	8	6	12	15	1	1	1	0	0	1	1	3	2	2	1	4	4	1	1	4	4	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:30315148C>T	uc001iux.2	-	2	3988	c.3929G>A	c.(3928-3930)CGT>CAT	p.R1310H	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.R1172H|KIAA1462_uc009xle.1_Missense_Mutation_p.R1310H	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	1310										ovary(4)	4						TCTCTGGGCACGGTCCCCACT	0.612													32	70					0	0	0.003271	0	0		T	30315148	T	T	30315148	3	4	65	1	0	0	0	0	1	0	0	0	8250	536	19	1	158	1	KIAA1462	10	30315148	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	13359232	30315148	105219599	331	43752											
MAP3K8	1326	broad.mit.edu	37	chr10	30739267	30739267	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatcgcagagctgtatggCgcagtcctgtggggtgaaac	10	8	14	9	2	0	2	0	1	0	1	2	2	1	2	1	3	3	4	1	3	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:30739267C>T	uc001ivi.1	+	5	1281	c.585C>T	c.(583-585)GGC>GGT	p.G195G	MAP3K8_uc009xlf.1_Silent_p.G195G|MAP3K8_uc001ivj.1_Silent_p.G195G	NM_005204	NP_005195	P41279	M3K8_HUMAN	mitogen-activated protein kinase kinase kinase	195	Protein kinase.				cell cycle|T cell costimulation	cytosol	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			breast(3)|central_nervous_system(1)	4		Prostate(175;0.151)				AGCTGTATGGCGCAGTCCTGT	0.488													18	43					0	0	0.006122	0	0		T	30739267	T	T	30739267	2	4	65	1	0	0	0	0	0	0	0	1	9274	755	27	1		1	MAP3K8	10	30739267	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	424119	30739267	104795480	332	43753											
ZNF248	57209	broad.mit.edu	37	chr10	38121593	38121593	+	Frame_Shift_Del	DEL	A	-	-																															atctgagatctcttatttgtAaaaaatgctgcctcatcatg																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:38121593delA	uc001izd.1	-	6	1189	c.690delT	c.(688-690)TTTfs	p.F230fs	ZNF248_uc009xmc.2_Intron|ZNF248_uc001izb.2_Intron|ZNF248_uc001izc.2_Intron|ZNF248_uc010qeu.1_Frame_Shift_Del_p.F230fs	NM_021045	NP_066383	Q8NDW4	ZN248_HUMAN	zinc finger protein 248	230					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCTTATTTGTAAAAAATGCTG	0.363													28	62	---	---	---	---						.	-	38121593	-	-	38121593	7	5	65	1	0	1	0	1	0	0	0	0	17818	359	13	0	1053	0	ZNF248	10	38121593	Frame_Shift_Del	DEL	A	TCGA-BR-8360-01A-11D-2340-08	7382326	38121593	97413154	333	43754											
ZNF33B	7582	broad.mit.edu	37	chr10	43088761	43088761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggtttctcccctgtgtgcGttctctgatgtattgtgagg	4	16	13	8	1	2	2	0	2	2	0	4	2	2	2	2	2	1	3	2	2	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:43088761G>A	uc001jaf.1	-	5	1752	c.1637C>T	c.(1636-1638)ACG>ATG	p.T546M	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Missense_Mutation_p.T434M|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	546	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCCTGTGTGCGTTCTCTGATG	0.428													64	112					0	0	0.00361	0	0		A	43088761	A	A	43088761	3	1	65	1	0	0	0	0	1	0	0	0	17880	1145	40	1	703	1	ZNF33B	10	43088761	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4967168	43088761	92445986	334	43755											
PPYR1	5540	broad.mit.edu	37	chr10	47087582	47087582	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagcaggtcaatgtggtgCtggtggtgatggtggtggcc	6	11	19	5	0	1	2	1	2	0	0	1	2	1	2	1	7	2	2	1	7	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:47087582C>T	uc001jee.2	+	3	1218	c.799C>T	c.(799-801)CTG>TTG	p.L267L	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Silent_p.L267L	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	267	Helical; Name=6; (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						CAATGTGGTGCTGGTGGTGAT	0.602													11	77					0	0	0.001855	0	0		T	47087582	T	T	47087582	2	4	65	1	0	0	0	0	0	0	0	1	12438	796	28	2		2	PPYR1	10	47087582	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3998821	47087582	88447165	335	43756											
LRRTM3	347731	broad.mit.edu	37	chr10	68687864	68687864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaaaccccctttgccccCgacggtgggagccacagagc	9	4	12	16	2	0	1	0	0	0	1	0	4	0	2	5	2	5	1	5	2	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:68687864C>T	uc001jmz.1	+	2	1740	c.1190C>T	c.(1189-1191)CCG>CTG	p.P397L	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.P397L	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	397	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CCTTTGCCCCCGACGGTGGGA	0.602													23	36					0	0	0.00278	0	0		T	68687864	T	T	68687864	3	4	65	1	0	0	0	0	1	0	0	0	9059	652	23	1	1196	1	LRRTM3	10	68687864	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	21600282	68687864	66846883	336	43757											
ADAMTS14	140766	broad.mit.edu	37	chr10	72511878	72511878	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcaccaaatacggctgccGgcgcagacgagaccaccaca	12	4	10	15	4	1	2	1	0	0	2	1	3	1	2	4	2	2	3	4	2	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:72511878G>T	uc001jrh.2	+	18	2624	c.2624G>T	c.(2623-2625)CGG>CTG	p.R875L	ADAMTS14_uc001jrg.2_Missense_Mutation_p.R878L	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	875	TSP type-1 2.|Poly-Arg.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						TACGGCTGCCGGCGCAGACGA	0.667													10	25					0.00621372	0.00629644	0.006214	1	0		T	72511878	T	T	72511878	3	4	65	1	0	0	0	0	1	0	0	0	259	1116	39	5	2703	5	ADAMTS14	10	72511878	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3824014	72511878	63022869	337	43758											
SGPL1	8879	broad.mit.edu	37	chr10	72636413	72636413	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcctaaagcgaagaccacaGgaatggtagggacacttgga	15	6	12	8	1	0	1	0	0	0	1	1	5	1	4	2	4	1	1	2	4	5	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:72636413G>T	uc001jrm.2	+	14	1783	c.1561G>T	c.(1561-1563)GGA>TGA	p.G521*	SGPL1_uc009xqk.2_RNA	NM_003901	NP_003892	O95470	SGPL1_HUMAN	sphingosine-1-phosphate lyase 1	521	Cytoplasmic (Potential).				apoptosis|carboxylic acid metabolic process|ceramide metabolic process|sphingolipid catabolic process	integral to endoplasmic reticulum membrane	carboxy-lyase activity|pyridoxal phosphate binding|sphinganine-1-phosphate aldolase activity				0					Pyridoxal Phosphate(DB00114)	GAAGACCACAGGAATGGTAGG	0.358													33	71					6.90743e-12	7.37007e-12	0.003755	1	0		T	72636413	T	T	72636413	4	4	65	1	0	0	0	0	0	1	0	0	14243	1001	35	5	1611	5	SGPL1	10	72636413	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	124535	72636413	62898334	338	43759											
UNC5B	219699	broad.mit.edu	37	chr10	73047450	73047450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccggacctgcaccaaccccGctccactcaacggaggggcc	8	3	10	20	3	1	0	1	0	0	0	2	2	2	2	7	4	3	2	7	4	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:73047450G>A	uc001jro.2	+	6	1274	c.829G>A	c.(829-831)GCT>ACT	p.A277T	UNC5B_uc001jrp.2_Missense_Mutation_p.A277T	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	277	TSP type-1 1.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						CACCAACCCCGCTCCACTCAA	0.662													19	40					0	0	0.006122	0	0		A	73047450	A	A	73047450	3	1	65	1	0	0	0	0	1	0	0	0	17018	1087	38	1	851	1	UNC5B	10	73047450	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	411037	73047450	62487297	339	43760											
CDH23	64072	broad.mit.edu	37	chr10	73537990	73537990	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggactacgagatcagccaCggccgctacaccctgatcgt	9	7	10	15	4	1	2	1	1	0	1	2	4	1	3	3	2	3	1	3	2	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:73537990C>T	uc001jrx.3	+	38	5489	c.5112C>T	c.(5110-5112)CAC>CAT	p.H1704H		NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1704	Cadherin 16.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						AGATCAGCCACGGCCGCTACA	0.607													11	35					0	0	0.001855	0	0		T	73537990	T	T	73537990	2	4	65	1	0	0	0	0	0	0	0	1	3111	535	19	1		1	CDH23	10	73537990	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	490540	73537990	61996757	340	43761											
PPP3CB	5532	broad.mit.edu	37	chr10	75239252	75239252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacttcttcagatgtcaagcGatgtgttggggggaaaggga	10	11	15	5	1	3	1	2	0	1	1	3	4	3	3	0	4	2	1	0	4	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:75239252G>A	uc001jue.2	-	2	244	c.109C>T	c.(109-111)CGC>TGC	p.R37C	PPP3CB_uc001juf.2_Missense_Mutation_p.R37C|PPP3CB_uc001jug.2_Missense_Mutation_p.R37C|PPP3CB_uc001jui.2_Missense_Mutation_p.R37C|PPP3CB_uc001juh.2_5'UTR	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	37	Catalytic.									skin(1)	1	Prostate(51;0.0119)					GATGTCAAGCGATGTGTTGGG	0.358													23	85					0	0	0.00278	0	0		A	75239252	A	A	75239252	3	1	65	1	0	0	0	0	1	0	0	0	12420	1058	37	1	1520	1	PPP3CB	10	75239252	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1701262	75239252	60295495	341	43762											
USP54	159195	broad.mit.edu	37	chr10	75276308	75276308	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctggataggttacacaCgtatgggaatcatgagggga	11	10	13	7	1	2	1	1	1	1	0	3	4	2	4	0	5	1	2	0	5	4	3	rs138689241		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:75276308C>T	uc001juo.2	-	18	3893	c.3876G>A	c.(3874-3876)ACG>ACA	p.T1292T	USP54_uc010qkk.1_Silent_p.T474T|USP54_uc001juk.2_Silent_p.T380T|USP54_uc001jul.2_Silent_p.T380T|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	1292					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					AGGTTACACACGTATGGGAAT	0.478													31	74					0	0	0.010818	0	0		T	75276308	T	T	75276308	2	4	65	1	0	0	0	0	0	0	0	1	17111	523	19	1		1	USP54	10	75276308	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	37056	75276308	60258439	342	43763											
SYNPO2L	79933	broad.mit.edu	37	chr10	75407549	75407549	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcctgcaggatacccgTgcgggcagctggcacagaga	8	5	15	13	2	0	1	0	0	0	1	1	3	1	2	3	4	4	4	3	4	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:75407549T>C	uc001jut.3	-	4	2013	c.1861A>G	c.(1861-1863)ACG>GCG	p.T621A	SYNPO2L_uc001jus.3_Missense_Mutation_p.T397A	NM_001114133	NP_001107605	Q9H987	SYP2L_HUMAN	synaptopodin 2-like isoform a	621	Pro-rich.					cytoplasm|cytoskeleton	actin binding			ovary(1)	1	Prostate(51;0.0112)					AGGATACCCGTGCGGGCAGCT	0.711													21	58					0	0	0.005443	0	0		C	75407549	C	C	75407549	3	2	65	1	0	0	0	0	1	0	0	0	15483	1696	59	3	1076	3	SYNPO2L	10	75407549	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	131241	75407549	60127198	343	43764											
DLG5	9231	broad.mit.edu	37	chr10	79579711	79579711	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccggctggaatgcccaggCgagtaaggtgcccactcctg	7	7	14	13	2	0	0	0	0	0	0	1	2	1	1	4	4	3	2	4	4	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:79579711C>T	uc001jzk.2	-	16	3538	c.3468G>A	c.(3466-3468)TCG>TCA	p.S1156S	DLG5_uc001jzi.2_5'UTR|DLG5_uc001jzj.2_Silent_p.S571S|DLG5_uc009xru.1_RNA|DLG5_uc001jzl.3_Silent_p.S760S	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1156					cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			AATGCCCAGGCGAGTAAGGTG	0.627													28	75					0	0	0.008361	0	0		T	79579711	T	T	79579711	2	4	65	1	0	0	0	0	0	0	0	1	4564	755	27	1		1	DLG5	10	79579711	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	4172162	79579711	55955036	344	43765											
DYDC2	84332	broad.mit.edu	37	chr10	82122250	82122250	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaattgcctggcccaggcActggcagaggtggcgaaggt	9	6	17	9	1	0	1	0	0	0	1	0	3	0	2	2	7	1	2	2	7	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:82122250A>G	uc001kca.1	+	3	431	c.51A>G	c.(49-51)GCA>GCG	p.A17A	DYDC2_uc001kbz.1_RNA|DYDC2_uc001kcb.1_Silent_p.A17A	NM_032372	NP_115748	Q96IM9	DYDC2_HUMAN	DPY30 domain containing 2	17							protein binding				0			Colorectal(32;0.229)			TGGCCCAGGCACTGGCAGAGG	0.463													16	42					0	0	0.003163	0	0		G	82122250	G	G	82122250	2	3	65	1	0	0	0	0	0	0	0	1	4845	146	6	3		3	DYDC2	10	82122250	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	2542539	82122250	53412497	345	43766											
DYDC2	84332	broad.mit.edu	37	chr10	82126484	82126484	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacgaagaagaccatatTcatgcaggaggacacaaacc	16	6	8	11	1	1	2	1	0	0	2	2	5	2	4	3	2	2	1	3	2	4	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:82126484T>G	uc001kca.1	+	5	691	c.311T>G	c.(310-312)TTC>TGC	p.F104C	DYDC2_uc001kbz.1_RNA|DYDC2_uc001kcb.1_Missense_Mutation_p.F104C	NM_032372	NP_115748	Q96IM9	DYDC2_HUMAN	DPY30 domain containing 2	104							protein binding				0			Colorectal(32;0.229)			AAGACCATATTCATGCAGGAG	0.428													39	125					0	0	0.00623	0	0		G	82126484	G	G	82126484	3	3	65	1	0	0	0	0	1	0	0	0	4845	1783	62	5	321	5	DYDC2	10	82126484	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	4234	82126484	53408263	346	43767											
FAM190B	54462	broad.mit.edu	37	chr10	86132141	86132141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagagaaacatgaaaatgggCcaccacaggatatgtttgat	17	8	10	6	0	0	3	0	2	0	1	0	5	0	4	2	2	1	1	2	2	5	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:86132141C>T	uc001kdh.1	+	2	1527	c.1333C>T	c.(1333-1335)CCA>TCA	p.P445S	FAM190B_uc001kdg.1_Missense_Mutation_p.P445S|FAM190B_uc010qmd.1_Missense_Mutation_p.P445S	NM_018999	NP_061872	Q9H7U1	F190B_HUMAN	granule cell antiserum positive 14	445										ovary(3)|skin(1)	4						TGAAAATGGGCCACCACAGGA	0.353													58	73					0	0	0.00361	0	0		T	86132141	T	T	86132141	3	4	65	1	0	0	0	0	1	0	0	0	5533	739	26	2	1335	2	FAM190B	10	86132141	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	4005657	86132141	49402606	347	43768											
GRID1	2894	broad.mit.edu	37	chr10	87406989	87406989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttctgaaggactggacacGcagttgtcagcccctccgtt	7	10	10	14	2	2	1	1	1	1	0	3	3	3	3	4	2	1	3	4	2	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:87406989G>A	uc001kdl.1	-	13	2264	c.2163C>T	c.(2161-2163)TGC>TGT	p.C721C	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Silent_p.C292C|uc001kdm.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	721	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	GACTGGACACGCAGTTGTCAG	0.617										Multiple Myeloma(13;0.14)			69	166					0	0	0.00361	0	0		A	87406989	A	A	87406989	2	1	65	1	0	0	0	0	0	0	0	1	6787	1079	38	1		1	GRID1	10	87406989	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1274848	87406989	48127758	348	43769											
HTR7	3363	broad.mit.edu	37	chr10	92508761	92508761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atataaaagggttaatgagaGagtttgcatagcctagccac	15	10	10	6	0	0	2	0	1	0	1	0	3	0	2	2	1	3	3	2	1	6	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:92508761G>A	uc001kha.2	-	2	1373	c.1130C>T	c.(1129-1131)TCT>TTT	p.S377F	HTR7_uc001kgz.2_Missense_Mutation_p.S377F|HTR7_uc001khb.2_Missense_Mutation_p.S377F	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	377	Helical; Name=7; (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	GTTAATGAGAGAGTTTGCATA	0.532													40	97					0	0	0.005524	0	0		A	92508761	A	A	92508761	3	1	65	1	0	0	0	0	1	0	0	0	7468	942	33	4	325	4	HTR7	10	92508761	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	5101772	92508761	43025986	349	43770											
CYP26A1	1592	broad.mit.edu	37	chr10	94834167	94834167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgggcgcggacaatgtgCggcgcatcttgctcggagag	7	8	17	9	5	1	2	0	1	1	1	2	4	1	3	0	4	2	2	0	4	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:94834167C>T	uc001kil.2	+	2	337	c.292C>T	c.(292-294)CGG>TGG	p.R98W	CYP26A1_uc001kik.1_Missense_Mutation_p.R29W|CYP26A1_uc001kim.1_Silent_p.C2C	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	98					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding	p.W98*(1)		upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				GGACAATGTGCGGCGCATCTT	0.617													26	141					0	0	0.009535	0	0		T	94834167	T	T	94834167	3	4	65	1	0	0	0	0	1	0	0	0	4158	759	27	1	298	1	CYP26A1	10	94834167	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2325406	94834167	40700580	350	43771											
PLCE1	51196	broad.mit.edu	37	chr10	95791574	95791574	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagtgtgatcattgtgaCaccttgaatgataaatactt	12	14	8	7	0	1	4	1	4	0	0	1	4	1	4	1	0	2	1	1	0	4	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:95791574C>T	uc001kjk.2	+	2	1405	c.771C>T	c.(769-771)GAC>GAT	p.D257D	PLCE1_uc010qnx.1_Silent_p.D257D	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	257					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity	p.D257D(1)		ovary(2)|skin(1)	3		Colorectal(252;0.0458)				ATCATTGTGACACCTTGAATG	0.368													26	57					0	0	0.003954	0	0		T	95791574	T	T	95791574	2	4	65	1	0	0	0	0	0	0	0	1	12053	477	17	4		4	PLCE1	10	95791574	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	957407	95791574	39743173	351	43772											
CC2D2B	387707	broad.mit.edu	37	chr10	97779061	97779061	+	Frame_Shift_Del	DEL	A	-	-																															tttgacccgttttgtcccttAaaaagtgtagattgtttgtt																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:97779061delA	uc001kll.2	+	7	823	c.624delA	c.(622-624)TTAfs	p.L208fs	uc001klg.1_Intron|uc001klj.1_Intron|CC2D2B_uc001klk.2_Intron|CC2D2B_uc010qop.1_Frame_Shift_Del_p.L208fs|uc009xvb.1_RNA	NM_001001732	NP_001001732	Q6DHV5	C2D2B_HUMAN	coiled-coil and C2 domain containing 2B isoform	208										ovary(1)	1		Colorectal(252;0.158)		Epithelial(162;7.08e-08)|all cancers(201;2.71e-06)		TTTGTCCCTTAAAAAGTGTAG	0.313													31	66	---	---	---	---						.	-	97779061	-	-	97779061	7	5	65	1	0	1	0	1	0	0	0	0	2732	359	13	0	646	0	CC2D2B	10	97779061	Frame_Shift_Del	DEL	A	TCGA-BR-8360-01A-11D-2340-08	1987487	97779061	37755686	352	43773											
DHDPSL	112817	broad.mit.edu	37	chr10	99371277	99371277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctttgcaggtgacccggcGctttgggatcccagggctga	5	10	15	11	2	0	2	0	2	0	0	1	3	1	3	2	4	2	4	2	4	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:99371277G>A	uc001kny.2	+	7	1204	c.845G>A	c.(844-846)CGC>CAC	p.R282H	DHDPSL_uc001knz.2_Missense_Mutation_p.R119H|PI4K2A_uc010qoy.1_Intron	NM_138413	NP_612422	Q86XE5	HOGA1_HUMAN	DHDPS-like protein isoform 1	282					glyoxylate catabolic process	mitochondrion	4-hydroxy-2-oxoglutarate aldolase activity				0						GTGACCCGGCGCTTTGGGATC	0.552													16	35					0	0	0.004007	0	0		A	99371277	A	A	99371277	3	1	65	1	0	0	0	0	1	0	0	0	4486	1087	38	1	871	1	DHDPSL	10	99371277	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1592216	99371277	36163470	353	43774											
CWF19L1	55280	broad.mit.edu	37	chr10	101996719	101996719	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagagcagctgattgggacaGgaatgacctgggggttgggg	9	8	19	5	0	0	3	0	2	0	1	0	5	0	5	1	6	2	3	1	6	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:101996719G>T	uc001kqq.1	-	12	1349	c.1262C>A	c.(1261-1263)CCT>CAT	p.P421H	CWF19L1_uc001kqs.1_Missense_Mutation_p.P173H|CWF19L1_uc001kqr.1_Intron|CWF19L1_uc001kqt.1_Missense_Mutation_p.P125H|CWF19L1_uc010qpn.1_Missense_Mutation_p.P284H	NM_018294	NP_060764	Q69YN2	C19L1_HUMAN	CWF19-like 1, cell cycle control	421							catalytic activity				0		Colorectal(252;0.117)		Epithelial(162;3.78e-10)|all cancers(201;3.1e-08)		GATTGGGACAGGAATGACCTG	0.507													26	107					6.32553e-13	6.80218e-13	0.004656	1	0		T	101996719	T	T	101996719	3	4	65	1	0	0	0	0	1	0	0	0	4074	1000	35	5	366	5	CWF19L1	10	101996719	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2625442	101996719	33538028	354	43775											
POLL	27343	broad.mit.edu	37	chr10	103342587	103342587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcactgtaatgcttcaggCcgatggcctgctgggttgtc	6	12	13	10	1	2	0	2	0	0	0	3	1	2	0	2	3	2	4	2	3	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:103342587C>T	uc001ktg.1	-	6	1893	c.1127G>A	c.(1126-1128)GGC>GAC	p.G376D	DPCD_uc010qpz.1_Intron|POLL_uc001ktd.1_Missense_Mutation_p.G49D|POLL_uc001kte.1_Missense_Mutation_p.G68D|POLL_uc001kth.1_Missense_Mutation_p.G101D|POLL_uc001kti.1_Missense_Mutation_p.G376D|POLL_uc001ktj.1_Missense_Mutation_p.G376D|POLL_uc001ktf.2_Missense_Mutation_p.G284D|POLL_uc001ktk.1_Missense_Mutation_p.G115D|POLL_uc010qqa.1_Missense_Mutation_p.G115D|POLL_uc010qqb.1_RNA|POLL_uc001ktm.2_Missense_Mutation_p.G376D|POLL_uc001ktl.2_Missense_Mutation_p.G288D|POLL_uc010qqc.1_Missense_Mutation_p.G68D	NM_013274	NP_037406	Q9UGP5	DPOLL_HUMAN	DNA-directed DNA polymerase lambda	376					DNA replication|nucleotide-excision repair|somatic hypermutation of immunoglobulin genes	nucleus	DNA binding|DNA-directed DNA polymerase activity|lyase activity|metal ion binding				0		Colorectal(252;0.234)		Epithelial(162;1.55e-08)|all cancers(201;6.64e-07)		ATGCTTCAGGCCGATGGCCTG	0.567								DNA_polymerases_(catalytic_subunits)					21	68					0	0	0.012319	0	0		T	103342587	T	T	103342587	3	4	65	1	0	0	0	0	1	0	0	0	12224	739	26	2	612	2	POLL	10	103342587	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1345868	103342587	32192160	355	43776											
C10orf76	79591	broad.mit.edu	37	chr10	103716445	103716445	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggttggcagaaatgtgtcGccatatgtgataaacatatt	12	12	12	5	1	0	2	0	1	0	1	1	2	0	2	1	3	1	2	1	3	5	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:103716445G>A	uc009xwy.1	-	22	1716	c.1614C>T	c.(1612-1614)GGC>GGT	p.G538G	C10orf76_uc009xwx.1_RNA	NM_024541	NP_078817	Q5T2E6	CJ076_HUMAN	hypothetical protein LOC79591	538	Helical; (Potential).					integral to membrane					0		Colorectal(252;0.123)		Epithelial(162;2.41e-08)|all cancers(201;6.41e-07)		GAAATGTGTCGCCATATGTGA	0.383													18	30					0	0	0.007413	0	0		A	103716445	A	A	103716445	2	1	65	1	0	0	0	0	0	0	0	1	1619	1074	38	1		1	C10orf76	10	103716445	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	373858	103716445	31818302	356	43777											
ACTR1A	10121	broad.mit.edu	37	chr10	104248022	104248022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatagcggattgaaagcagcCctcggtgctcctgggaaaag	11	7	14	9	2	0	1	0	1	0	0	2	4	1	3	2	3	4	2	2	3	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:104248022C>T	uc001kvv.2	-	4	308	c.200G>A	c.(199-201)GGG>GAG	p.G67E	ACTR1A_uc010qqn.1_5'UTR|ACTR1A_uc010qqo.1_Missense_Mutation_p.G20E	NM_005736	NP_005727	P61163	ACTZ_HUMAN	ARP1 actin-related protein 1 homolog A,	67					G2/M transition of mitotic cell cycle|vesicle-mediated transport	centrosome|cytosol|dynactin complex	ATP binding			central_nervous_system(1)	1		Colorectal(252;0.122)		Epithelial(162;5.34e-09)|all cancers(201;1.43e-07)|BRCA - Breast invasive adenocarcinoma(275;0.222)		TGAAAGCAGCCCTCGGTGCTC	0.522													16	58					0	0	0.004007	0	0		T	104248022	T	T	104248022	3	4	65	1	0	0	0	0	1	0	0	0	209	623	22	4	962	4	ACTR1A	10	104248022	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	531577	104248022	31286725	357	43778											
CALHM2	51063	broad.mit.edu	37	chr10	105209370	105209370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtgacaggggccacagccGcacgtcccaggatggagctt	9	5	15	12	2	0	1	0	1	0	0	1	3	1	3	3	5	2	2	3	5	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:105209370G>A	uc001kwz.2	-	2	715	c.329C>T	c.(328-330)GCG>GTG	p.A110V	CALHM2_uc001kxa.2_Missense_Mutation_p.A110V|CALHM2_uc001kxc.2_Missense_Mutation_p.A110V|CALHM2_uc001kxb.2_Missense_Mutation_p.A110V|CALHM2_uc001kxd.1_Missense_Mutation_p.A110V	NM_015916	NP_057000	Q9HA72	CAHM2_HUMAN	calcium homeostasis modulator 2	110	Helical; (Potential).					integral to membrane				skin(1)	1						GGCCACAGCCGCACGTCCCAG	0.627													26	51					0	0	0.005443	0	0		A	105209370	A	A	105209370	3	1	65	1	0	0	0	0	1	0	0	0	2586	1087	38	1	650	1	CALHM2	10	105209370	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	961348	105209370	30325377	358	43779											
ADRA2A	150	broad.mit.edu	37	chr10	112838242	112838242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacctgaagcgcacgccgcGccgcatcaaggccatcatca	11	4	9	17	5	3	1	3	1	0	0	3	1	3	1	4	1	2	2	4	1	3	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:112838242G>A	uc001kzo.2	+	1	1453	c.488G>A	c.(487-489)CGC>CAC	p.R163H		NM_000681	NP_000672	P08913	ADA2A_HUMAN	alpha-2A-adrenergic receptor	148	Cytoplasmic (By similarity).				actin cytoskeleton organization|activation of MAPK activity by adrenergic receptor signaling pathway|activation of phospholipase C activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cellular component movement|cellular response to hormone stimulus|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|glucose homeostasis|inhibition of adenylate cyclase activity by adrenergic receptor signaling pathway|intestinal absorption|negative regulation of adrenergic receptor signaling pathway|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cAMP biosynthetic process|negative regulation of epinephrine secretion|negative regulation of insulin secretion involved in cellular response to glucose stimulus|negative regulation of lipid catabolic process|negative regulation of norepinephrine secretion|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cytokine production|positive regulation of membrane protein ectodomain proteolysis|positive regulation of potassium ion transport|positive regulation of wound healing|Rho protein signal transduction	basolateral plasma membrane|cytoplasm|integral to plasma membrane|receptor complex	alpha-1B adrenergic receptor binding|alpha-2C adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|heterotrimeric G-protein binding|norepinephrine binding|protein heterodimerization activity|protein homodimerization activity|protein kinase binding|thioesterase binding				0		Breast(234;0.0735)|Lung NSC(174;0.238)		Epithelial(162;0.000316)|all cancers(201;0.00501)|BRCA - Breast invasive adenocarcinoma(275;0.118)	Amitriptyline(DB00321)|Amphetamine(DB00182)|Apraclonidine(DB00964)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Brimonidine(DB00484)|Clonidine(DB00575)|Debrisoquin(DB04840)|Dexmedetomidine(DB00633)|Dipivefrin(DB00449)|Epinastine(DB00751)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanabenz(DB00629)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Lofexidine(DB04948)|Methyldopa(DB00968)|Mianserin(DB06148)|Mirtazapine(DB00370)|Norepinephrine(DB00368)|Oxymetazoline(DB00935)|Phentolamine(DB00692)|Phenylpropanolamine(DB00397)|Pseudoephedrine(DB00852)|Tizanidine(DB00697)|Trazodone(DB00656)|Yohimbine(DB01392)	CGCACGCCGCGCCGCATCAAG	0.547													12	23					0	0	0.001855	0	0		A	112838242	A	A	112838242	3	1	65	1	0	0	0	0	1	0	0	0	337	1087	38	1	490	1	ADRA2A	10	112838242	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	7628872	112838242	22696505	359	43780											
SLC18A2	6571	broad.mit.edu	37	chr10	119014792	119014792	+	Frame_Shift_Del	DEL	C	-	-																															ctttctctccctgcagtgggCccccccttcgggagtgtgct																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:119014792delC	uc001ldd.1	+	7	736	c.705delC	c.(703-705)GGCfs	p.G235fs	SLC18A2_uc009xyy.1_Frame_Shift_Del_p.G32fs	NM_003054	NP_003045	Q05940	VMAT2_HUMAN	solute carrier family 18 (vesicular monoamine),	235	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted monoamine transport vesicle membrane|integral to plasma membrane|membrane fraction	monoamine transmembrane transporter activity				0		Colorectal(252;0.19)		all cancers(201;0.029)	Alseroxylon(DB00386)|Reserpine(DB00206)|Tetrabenazine(DB04844)	CTGCAGTGGGCCCCCCCTTCG	0.572													17	35	---	---	---	---						.	-	119014792	-	-	119014792	7	5	65	1	0	1	0	1	0	0	0	0	14451	726	26	0	727	0	SLC18A2	10	119014792	Frame_Shift_Del	DEL	C	TCGA-BR-8360-01A-11D-2340-08	6176550	119014792	16519955	360	43781											
EIF3A	8661	broad.mit.edu	37	chr10	120801712	120801712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaccctcgcctgggacccCggtcatcatccatgcctcgc	6	7	8	20	3	2	0	2	0	0	0	5	1	3	1	7	2	2	0	7	2	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:120801712C>T	uc001ldu.2	-	19	3466	c.3320G>A	c.(3319-3321)CGG>CAG	p.R1107Q	EIF3A_uc010qsu.1_Missense_Mutation_p.R1073Q|EIF3A_uc009xzg.1_Missense_Mutation_p.R146Q	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	1107	Asp-rich.|25 X 10 AA approximate tandem repeats of [DE]-[DE]-[DE]-R-[SEVGFPILV]-[HPSN]- [RSW]-[RL]-[DRGTIHN]-[EPMANLGDT].|19.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		CCTGGGACCCCGGTCATCATC	0.627													43	108					0	0	0.013114	0	0		T	120801712	T	T	120801712	3	4	65	1	0	0	0	0	1	0	0	0	5018	652	23	1	844	1	EIF3A	10	120801712	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1786920	120801712	14733035	361	43782											
CHST15	51363	broad.mit.edu	37	chr10	125805494	125805494	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaaaaacgaggctacatcGcttcccctttttgaagcgca	11	10	7	13	3	0	1	0	1	0	0	3	2	2	1	3	1	3	3	3	1	4	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:125805494G>A	uc001lhl.2	-	1	748	c.235C>T	c.(235-237)CGA>TGA	p.R79*	CHST15_uc001lhm.2_Nonsense_Mutation_p.R79*|CHST15_uc001lhn.2_Nonsense_Mutation_p.R79*|CHST15_uc010que.1_Nonsense_Mutation_p.R79*|CHST15_uc001lho.2_Nonsense_Mutation_p.R79*	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	79	Cytoplasmic (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1						AGGCTACATCGCTTCCCCTTT	0.473													23	44					0	0	0.00278	0	0		A	125805494	A	A	125805494	4	1	65	1	0	0	0	0	0	1	0	0	3406	1095	38	1	1478	1	CHST15	10	125805494	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	5003782	125805494	9729253	362	43783											
OAT	4942	broad.mit.edu	37	chr10	126097148	126097148	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgtatttctgaatgccCttcacggtatagccccactt	7	15	7	12	1	2	1	1	1	1	0	2	1	2	1	3	1	2	3	3	1	4	7			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr10:126097148C>T	uc001lhp.2	-	4	590	c.483G>A	c.(481-483)AAG>AAA	p.K161K	OAT_uc001lhq.2_RNA|OAT_uc001lhr.2_Silent_p.K23K	NM_000274	NP_000265	P04181	OAT_HUMAN	ornithine aminotransferase precursor	161					cellular amino acid biosynthetic process|visual perception	mitochondrial matrix	ornithine-oxo-acid transaminase activity|protein binding|pyridoxal phosphate binding				0		all_lung(145;0.0271)|Lung NSC(174;0.0436)|Colorectal(57;0.102)|all_neural(114;0.116)			L-Ornithine(DB00129)|Pyridoxal Phosphate(DB00114)	TCTGAATGCCCTTCACGGTAT	0.328													18	49					0	0	0.008871	0	0		T	126097148	T	T	126097148	2	4	65	1	0	0	0	0	0	0	0	1	10822	680	24	4		4	OAT	10	126097148	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	291654	126097148	9437599	363	43784											
CEND1	51286	broad.mit.edu	37	chr11	788426	788426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtggtgggggctgctggcgGctgctgcttctcggccgggg	0	9	21	11	4	1	0	0	0	1	0	2	0	1	0	1	8	3	5	1	8	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:788426G>A	uc001lrh.1	-	2	330	c.151C>T	c.(151-153)CCG>TCG	p.P51S		NM_016564	NP_057648	Q8N111	CEND_HUMAN	cell cycle exit and neuronal differentiation 1	51	Cytoplasmic (Potential).					integral to membrane					0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;6.27e-26)|Epithelial(43;4.84e-25)|OV - Ovarian serous cystadenocarcinoma(40;2.72e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GCTGCTGGCGGCTGCTGCTTC	0.682													22	48					0	0	0.012319	0	0		A	788426	A	A	788426	3	1	65	1	0	0	0	0	1	0	0	0	3228	1203	42	2	302	2	CEND1	11	788426	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08		788426	134218090	364	43785											
OR51D1	390038	broad.mit.edu	37	chr11	4661386	4661386	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatccatgctctgtcagcCgtggagtcagctgtcctgct	5	13	10	13	1	3	0	2	0	1	0	5	1	5	1	3	1	4	3	3	1	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:4661386C>T	uc010qyk.1	+	1	366	c.366C>T	c.(364-366)GCC>GCT	p.A122A		NM_001004751	NP_001004751	Q8NGF3	O51D1_HUMAN	olfactory receptor, family 51, subfamily D,	122	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;2.74e-13)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|GBM - Glioblastoma multiforme(2;0.0841)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTCTGTCAGCCGTGGAGTCAG	0.552													16	42					0	0	0.00499	0	0		T	4661386	T	T	4661386	2	4	65	1	0	0	0	0	0	0	0	1	11112	639	23	1		1	OR51D1	11	4661386	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3872960	4661386	130345130	365	43786											
OR51Q1	390061	broad.mit.edu	37	chr11	5443929	5443929	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcccttttcttactcaagCgactgcctttctgccactcc	5	14	4	18	1	3	0	1	0	2	0	5	1	5	0	5	0	4	0	5	0	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:5443929C>T	uc010qzd.1	+	1	499	c.499C>T	c.(499-501)CGA>TGA	p.R167*	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTTACTCAAGCGACTGCCTTT	0.517													24	149					0	0	0.003271	0	0		T	5443929	T	T	5443929	4	4	65	1	0	0	0	0	0	1	0	0	11123	760	27	1	501	1	OR51Q1	11	5443929	Nonsense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	782543	5443929	129562587	366	43787											
OR52N2	390077	broad.mit.edu	37	chr11	5842064	5842064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattcactctcctcaccaagCgcctgccctattgccggggg	6	9	9	17	2	3	0	2	0	1	0	4	0	3	0	5	2	3	0	5	2	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:5842064C>T	uc010qzp.1	+	1	499	c.499C>T	c.(499-501)CGC>TGC	p.R167C	TRIM5_uc001mbq.1_Intron	NM_001005174	NP_001005174	Q8NGI0	O52N2_HUMAN	olfactory receptor, family 52, subfamily N,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.49e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCTCACCAAGCGCCTGCCCTA	0.517													38	108					0	0	0.004289	0	0		T	5842064	T	T	5842064	3	4	65	1	0	0	0	0	1	0	0	0	11147	768	27	1	501	1	OR52N2	11	5842064	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	398135	5842064	129164452	367	43788											
DNHD1	144132	broad.mit.edu	37	chr11	6520071	6520071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtggccctagaagaggCtgtgtggctggatggactta	8	10	16	7	0	1	2	1	0	0	2	1	4	1	4	1	6	0	2	1	6	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:6520071C>T	uc001mdw.3	+	3	1190	c.626C>T	c.(625-627)GCT>GTT	p.A209V	DNHD1_uc001mdp.2_Missense_Mutation_p.A209V	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	209					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		CTAGAAGAGGCTGTGTGGCTG	0.577													33	51					0	0	0.012213	0	0		T	6520071	T	T	6520071	3	4	65	1	0	0	0	0	1	0	0	0	4674	797	28	2	628	2	DNHD1	11	6520071	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	678007	6520071	128486445	368	43789											
RRP8	23378	broad.mit.edu	37	chr11	6622758	6622758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttgcggcttaatgtatgagGgggtttaggggaagtggacc	8	11	17	5	1	0	1	0	1	0	0	0	3	0	3	1	6	1	3	1	6	4	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:6622758G>A	uc001med.2	-	3	617	c.538C>T	c.(538-540)CCT>TCT	p.P180S	ILK_uc001mee.2_5'Flank|ILK_uc001mef.2_5'Flank|ILK_uc010rap.1_5'Flank|ILK_uc010raq.1_5'Flank|ILK_uc001meg.2_5'Flank|ILK_uc001meh.2_5'Flank	NM_015324	NP_056139	O43159	RRP8_HUMAN	ribosomal RNA processing 8, methyltransferase,	180					chromatin modification|chromatin silencing at rDNA|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	methylated histone residue binding|S-adenosylmethionine-dependent methyltransferase activity				0						AATGTATGAGGGGGTTTAGGG	0.542													17	76					0	0	0.004007	0	0		A	6622758	A	A	6622758	3	1	65	1	0	0	0	0	1	0	0	0	13715	1232	43	4	852	4	RRP8	11	6622758	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	102687	6622758	128383758	369	43790											
SYT9	143425	broad.mit.edu	37	chr11	7324372	7324372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actctgctgggttccgtggcGagaacgaggcctgccctctg	5	9	14	13	3	2	1	0	0	2	1	3	3	3	1	3	3	3	2	3	3	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:7324372G>A	uc001mfe.2	+	2	485	c.248G>A	c.(247-249)CGA>CAA	p.R83Q	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_RNA	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	83	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		GTTCCGTGGCGAGAACGAGGC	0.542													36	74					0	0	0.003755	0	0		A	7324372	A	A	7324372	3	1	65	1	0	0	0	0	1	0	0	0	15506	1058	37	1	254	1	SYT9	11	7324372	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	701614	7324372	127682144	370	43791											
OR5P3	120066	broad.mit.edu	37	chr11	7847414	7847414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attacccattaaggtgacaaCataaattcctagaaacacaa	19	9	4	9	0	0	2	0	1	0	1	1	2	1	2	2	1	3	0	2	1	8	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:7847414C>T	uc010rbg.1	-	1	106	c.106G>A	c.(106-108)GTT>ATT	p.V36I		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AAGGTGACAACATAAATTCCT	0.368													22	66					0	0	0.010504	0	0		T	7847414	T	T	7847414	3	4	65	1	0	0	0	0	1	0	0	0	11198	478	17	4	832	4	OR5P3	11	7847414	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	523042	7847414	127159102	371	43792											
MICAL2	9645	broad.mit.edu	37	chr11	12246337	12246337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagtgggttggccctgtgtgCcatcatccaccgcttccggc	4	10	12	15	2	1	0	1	0	0	0	3	0	3	0	5	3	1	2	5	3	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:12246337C>T	uc001mjz.2	+	13	1946	c.1658C>T	c.(1657-1659)GCC>GTC	p.A553V	MICAL2_uc010rch.1_Missense_Mutation_p.A553V|MICAL2_uc001mka.2_Missense_Mutation_p.A553V|MICAL2_uc010rci.1_Missense_Mutation_p.A553V|MICAL2_uc001mkb.2_Missense_Mutation_p.A553V|MICAL2_uc001mkc.2_Missense_Mutation_p.A553V|MICAL2_uc001mkd.2_Missense_Mutation_p.A382V|MICAL2_uc010rcj.1_5'UTR	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	553	CH.					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		GCCCTGTGTGCCATCATCCAC	0.622													17	26					0	0	0.007413	0	0		T	12246337	T	T	12246337	3	4	65	1	0	0	0	0	1	0	0	0	9588	739	26	2	1700	2	MICAL2	11	12246337	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	4398923	12246337	122760179	372	43793											
NAV2	89797	broad.mit.edu	37	chr11	20099098	20099098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggttgtgtcttcccctccagGctcaccttgtggcagccttt	3	14	10	14	0	2	0	1	0	1	0	4	0	4	0	5	3	1	3	5	3	0	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:20099098G>A	uc010rdm.1	+	25	5513	c.5152G>A	c.(5152-5154)GCT>ACT	p.A1718T	NAV2_uc001mpp.2_Missense_Mutation_p.A1598T|NAV2_uc001mpr.3_Missense_Mutation_p.A1662T|NAV2_uc001mpt.2_Missense_Mutation_p.A711T|NAV2_uc009yhx.2_Missense_Mutation_p.A726T|NAV2_uc009yhy.1_Missense_Mutation_p.A624T|NAV2_uc009yhz.2_Missense_Mutation_p.A307T|NAV2_uc001mpu.2_Missense_Mutation_p.A100T	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1718	Potential.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						TCCCCTCCAGGCTCACCTTGT	0.468													15	47					0	0	0.004007	0	0		A	20099098	A	A	20099098	3	1	65	1	0	0	0	0	1	0	0	0	10202	1217	42	2	5183	2	NAV2	11	20099098	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	7852761	20099098	114907418	373	43794											
C11orf46	120534	broad.mit.edu	37	chr11	30358285	30358285	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctgtgaccgcaagtggctGtatgagcaaattgaaattga	12	10	12	7	2	0	4	0	4	0	0	0	4	0	4	1	1	1	5	1	1	4	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:30358285G>A	uc001mso.1	+	4	890	c.726G>A	c.(724-726)CTG>CTA	p.L242L	C11orf46_uc001msp.2_5'Flank	NM_152316	NP_689529	Q8N8R7	CK046_HUMAN	hypothetical protein LOC120534	242											0						GCAAGTGGCTGTATGAGCAAA	0.433													40	81					0	0	0.006999	0	0		A	30358285	A	A	30358285	2	1	65	1	0	0	0	0	0	0	0	1	1646	1364	48	4		4	C11orf46	11	30358285	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	10259187	30358285	104648231	374	43795											
PTPMT1	114971	broad.mit.edu	37	chr11	47593071	47593071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taagagccatcgccaagatcCggtcatacatccacatcagg	13	7	8	13	2	2	2	2	0	0	2	5	2	4	2	4	2	2	0	4	2	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:47593071C>T	uc001nfs.3	+	4	689	c.496C>T	c.(496-498)CGG>TGG	p.R166W	PTPMT1_uc001nfv.3_Missense_Mutation_p.P138L|PTPMT1_uc009ylt.2_Missense_Mutation_p.R102W|PTPMT1_uc001nfu.3_3'UTR|NDUFS3_uc001nft.3_5'UTR	NM_175732	NP_783859	Q8WUK0	PTPM1_HUMAN	protein tyrosine phosphatase, mitochondrial 1	166	Tyrosine-protein phosphatase.				inositol phosphate dephosphorylation	mitochondrial inner membrane	phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(1)	1						CGCCAAGATCCGGTCATACAT	0.493													26	58					0	0	0.00333	0	0		T	47593071	T	T	47593071	3	4	65	1	0	0	0	0	1	0	0	0	12801	652	23	1	615	1	PTPMT1	11	47593071	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	17234786	47593071	87413445	375	43796											
OR4C13	283092	broad.mit.edu	37	chr11	49974661	49974661	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaaagacccacagcttagaGgcaaggcacgaagccctctc	13	6	9	13	1	1	2	0	0	1	2	2	3	1	2	2	2	2	3	2	2	5	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:49974661G>T	uc010rhz.1	+	1	687	c.687G>T	c.(685-687)GAG>GAT	p.E229D		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						ACAGCTTAGAGGCAAGGCACG	0.478													41	94					9.73076e-26	1.09451e-25	0.006999	1	0		T	49974661	T	T	49974661	3	4	65	1	0	0	0	0	1	0	0	0	11066	991	35	5	689	5	OR4C13	11	49974661	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2381590	49974661	85031855	376	43797											
OR5F1	338674	broad.mit.edu	37	chr11	55762042	55762042	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggataatctgtagctccagCgtgtctgctaatcccaatag	11	11	9	10	1	2	0	0	0	2	0	4	1	4	1	2	1	3	3	2	1	5	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:55762042C>T	uc010riv.1	-	1	60	c.60G>A	c.(58-60)ACG>ACA	p.T20T		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					GTAGCTCCAGCGTGTCTGCTA	0.363													13	64					0	0	0.004007	0	0		T	55762042	T	T	55762042	2	4	65	1	0	0	0	0	0	0	0	1	11177	755	27	1		1	OR5F1	11	55762042	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	5787381	55762042	79244474	377	43798											
P2RX3	5024	broad.mit.edu	37	chr11	57118321	57118321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccaaatactccttcacccGgctcgacagcgtttctgaga	9	9	7	16	3	2	1	1	1	1	1	4	3	3	1	4	1	2	2	4	1	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:57118321G>A	uc001nju.2	+	8	867	c.791G>A	c.(790-792)CGG>CAG	p.R264Q		NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3	264	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						TCCTTCACCCGGCTCGACAGC	0.572													24	38					0	0	0.00333	0	0		A	57118321	A	A	57118321	3	1	65	1	0	0	0	0	1	0	0	0	11360	1116	39	1	821	1	P2RX3	11	57118321	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1356279	57118321	77888195	378	43799											
PRPF19	27339	broad.mit.edu	37	chr11	60666067	60666067	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctgttccaaagatgagTccgtcagggtggaactgtgc	8	11	13	9	1	1	2	1	1	0	1	4	3	4	3	3	2	2	2	3	2	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:60666067T>C	uc001nqf.2	-	13	1293	c.1086A>G	c.(1084-1086)GGA>GGG	p.G362G		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	362	WD 4.				DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						CAAAGATGAGTCCGTCAGGGT	0.557													17	45					0	0	0.00499	0	0		C	60666067	C	C	60666067	2	2	65	1	0	0	0	0	0	0	0	1	12586	1654	58	3		3	PRPF19	11	60666067	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	3547746	60666067	74340449	379	43800											
SYT7	9066	broad.mit.edu	37	chr11	61290643	61290643	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgtggggatatcgaaggcGaaggactcattgaagatggg	11	8	16	6	3	1	2	1	1	0	1	3	6	2	4	1	5	0	0	1	5	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:61290643G>A	uc001nrv.2	-	8	1017	c.1011C>T	c.(1009-1011)TTC>TTT	p.F337F	SYT7_uc009ynr.2_Silent_p.F412F	NM_004200	NP_004191	O43581	SYT7_HUMAN	synaptotagmin VII	337	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|pancreas(1)	4						TATCGAAGGCGAAGGACTCAT	0.527													25	71					0	0	0.003954	0	0		A	61290643	A	A	61290643	2	1	65	1	0	0	0	0	0	0	0	1	15504	1049	37	1		1	SYT7	11	61290643	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	624576	61290643	73715873	380	43801											
FADS2	9415	broad.mit.edu	37	chr11	61624930	61624930	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtctctctcctgcagttggGccgccgctgctcatccccat	3	12	9	17	2	3	0	1	0	2	0	6	0	4	0	5	1	2	4	5	1	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:61624930G>C	uc001nsl.1	+	7	960	c.810G>C	c.(808-810)GGG>GGC	p.G270G	FADS2_uc001nsj.2_Silent_p.G248G|FADS2_uc010rlo.1_Silent_p.G239G|FADS2_uc001nsk.2_Silent_p.G270G	NM_004265	NP_004256	O95864	FADS2_HUMAN	fatty acid desaturase 2	270	Helical; (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	heme binding			ovary(1)|pancreas(1)	2					Alpha-Linolenic Acid(DB00132)	CTGCAGTTGGGCCGCCGCTGC	0.592													20	40					0	0	0.00278	0	0		C	61624930	C	C	61624930	2	2	65	1	0	0	0	0	0	0	0	1	5377	1190	42	5		5	FADS2	11	61624930	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	334287	61624930	73381586	381	43802											
SLC22A12	116085	broad.mit.edu	37	chr11	64359362	64359362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaccagctggagcgaggccGacacggagccgtgtgtggat	8	5	16	12	4	0	0	0	0	0	0	0	5	0	3	4	4	3	1	4	4	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:64359362G>A	uc001oam.1	+	1	1081	c.334G>A	c.(334-336)GAC>AAC	p.D112N	SLC22A12_uc009ypr.1_Missense_Mutation_p.D112N|SLC22A12_uc001oal.1_5'UTR|SLC22A12_uc009yps.1_Missense_Mutation_p.D112N|SLC22A12_uc001oan.1_Missense_Mutation_p.D112N|SLC22A12_uc009ypt.2_5'Flank	NM_144585	NP_653186	Q96S37	S22AC_HUMAN	urate anion exchanger 1 isoform a	112					cellular homeostasis|response to drug|urate metabolic process	apical plasma membrane|brush border membrane|integral to membrane	PDZ domain binding|urate transmembrane transporter activity			ovary(1)	1						GAGCGAGGCCGACACGGAGCC	0.677													16	15					0	0	0.00499	0	0		A	64359362	A	A	64359362	3	1	65	1	0	0	0	0	1	0	0	0	14468	1058	37	1	336	1	SLC22A12	11	64359362	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2734432	64359362	70647154	382	43803											
SNX32	254122	broad.mit.edu	37	chr11	65617684	65617684	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaagctacagaaattgggcGagggggacagctctgtcact	13	7	13	8	1	2	1	1	0	1	1	2	3	2	2	0	3	3	2	0	3	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:65617684G>A	uc001ofr.2	+	4	443	c.316G>A	c.(316-318)GAG>AAG	p.E106K	SNX32_uc009yqt.2_3'UTR|SNX32_uc010rop.1_Silent_p.A145A	NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B	106	PX.				cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		GAAATTGGGCGAGGGGGACAG	0.602													21	43					0	0	0.008871	0	0		A	65617684	A	A	65617684	3	1	65	1	0	0	0	0	1	0	0	0	14927	1059	37	1	330	1	SNX32	11	65617684	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1258322	65617684	69388832	383	43804											
ADRBK1	156	broad.mit.edu	37	chr11	67051203	67051203	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaggtgaaagagagccccTttttccgctccctggactgg	8	9	13	11	1	0	2	0	1	0	1	2	5	2	4	4	4	1	1	4	4	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:67051203T>C	uc009yrn.1	+	16	1620	c.1354T>C	c.(1354-1356)TTT>CTT	p.F452L	ADRBK1_uc009yrm.1_Intron	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	452	Protein kinase.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	AGAGAGCCCCTTTTTCCGCTC	0.532													18	45					0	0	0.007413	0	0		C	67051203	C	C	67051203	3	2	65	1	0	0	0	0	1	0	0	0	343	1609	56	3	1416	3	ADRBK1	11	67051203	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1433519	67051203	67955313	384	43805											
ODZ4	26011	broad.mit.edu	37	chr11	78440668	78440668	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatcttgcagccagagatAgagatttcctcctgcaaagc	11	10	8	12	0	2	2	1	0	1	2	4	4	4	2	3	0	4	2	3	0	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:78440668A>G	uc001ozl.3	-	22	3622	c.3159T>C	c.(3157-3159)TCT>TCC	p.S1053S		NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1053	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						AGCCAGAGATAGAGATTTCCT	0.582													27	52					0	0	0.008361	0	0		G	78440668	G	G	78440668	2	3	65	1	0	0	0	0	0	0	0	1	10856	407	15	3		3	ODZ4	11	78440668	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	11389465	78440668	56565848	385	43806											
FZD4	8322	broad.mit.edu	37	chr11	86662733	86662733	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgacaatggttttcactgcGgggatggcccaggctgcaat	9	10	13	9	1	1	1	1	1	0	0	1	2	1	2	1	5	2	3	1	5	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:86662733G>A	uc001pce.2	-	2	1371	c.1065C>T	c.(1063-1065)CCC>CCT	p.P355P	PRSS23_uc001pcc.1_RNA	NM_012193	NP_036325	Q9ULV1	FZD4_HUMAN	frizzled 4 precursor	355	Helical; Name=4; (Potential).				canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|negative regulation of cell-substrate adhesion|neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|progesterone secretion|regulation of vascular endothelial growth factor receptor signaling pathway|substrate adhesion-dependent cell spreading|vasculogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cell projection|cell surface|cytoplasm	cytokine binding|G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			large_intestine(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TTTTCACTGCGGGGATGGCCC	0.478													18	50					0	0	0.006122	0	0		A	86662733	A	A	86662733	2	1	65	1	0	0	0	0	0	0	0	1	6146	1103	39	1		1	FZD4	11	86662733	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	8222065	86662733	48343783	386	43807											
CCDC67	159989	broad.mit.edu	37	chr11	93088580	93088580	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaggaattaatggaacaaAttgacatcatggtaagcaac	17	10	8	6	0	2	1	2	1	0	0	2	3	2	3	0	3	3	2	0	3	6	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:93088580A>G	uc001pdq.2	+	3	173	c.73A>G	c.(73-75)ATT>GTT	p.I25V	CCDC67_uc001pdo.1_Missense_Mutation_p.I25V|CCDC67_uc001pdp.2_Missense_Mutation_p.I25V	NM_181645	NP_857596	Q05D60	CCD67_HUMAN	coiled-coil domain containing 67	25	Potential.									ovary(1)	1		Acute lymphoblastic leukemia(157;2.35e-05)|all_hematologic(158;0.00824)				AATGGAACAAATTGACATCAT	0.388													5	79					0	0	0.000602	0	0		G	93088580	G	G	93088580	3	3	65	1	0	0	0	0	1	0	0	0	2842	101	4	3	79	3	CCDC67	11	93088580	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	6425847	93088580	41917936	387	43808											
FOLR4	390243	broad.mit.edu	37	chr11	94040602	94040602	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcagggaagaaccgctGccccaaaggggcccagtgcc	9	3	13	16	1	0	1	0	0	0	1	0	2	0	2	6	3	4	2	6	3	3	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:94040602G>T	uc010rud.1	+	4	476	c.476G>T	c.(475-477)TGC>TTC	p.C159F		NM_001080486	NP_001073955	A6ND01	FOLR4_HUMAN	folate receptor 4 (delta) homolog	166						extracellular region	folic acid binding|receptor activity			ovary(1)	1						AAGAACCGCTGCCCCAAAGGG	0.597													22	37					1.28384e-07	1.33855e-07	0.012319	1	0		T	94040602	T	T	94040602	3	4	65	1	0	0	0	0	1	0	0	0	5998	1319	46	5	490	5	FOLR4	11	94040602	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	952022	94040602	40965914	388	43809											
PDGFD	80310	broad.mit.edu	37	chr11	103814312	103814312	+	Frame_Shift_Del	DEL	T	-	-																															cactgtatcaaattctgcaaTttttttgtccagagcatccg																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:103814312delT	uc001phq.2	-	5	1012	c.640delA	c.(640-642)ATTfs	p.I214fs	PDGFD_uc001php.2_Frame_Shift_Del_p.I208fs	NM_025208	NP_079484	Q9GZP0	PDGFD_HUMAN	platelet derived growth factor D isoform 1	214					positive regulation of cell division	endoplasmic reticulum lumen|extracellular region|Golgi membrane	growth factor activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Melanoma(852;0.0563)|all_neural(303;0.165)		BRCA - Breast invasive adenocarcinoma(274;0.00136)|Epithelial(105;0.111)		AATTCTGCAATTTTTTTGTCC	0.438													13	26	---	---	---	---						.	-	103814312	-	-	103814312	7	5	65	1	0	1	0	1	0	0	0	0	11679	1493	52	0	484	0	PDGFD	11	103814312	Frame_Shift_Del	DEL	T	TCGA-BR-8360-01A-11D-2340-08	9773710	103814312	31192204	389	43810											
CASP5	838	broad.mit.edu	37	chr11	104872817	104872817	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttgaagcagccttttcaTccccacgatgtcatagtgag	9	11	9	12	1	2	2	2	2	0	0	3	3	3	2	4	0	2	1	4	0	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:104872817T>C	uc010rva.1	-	5	687	c.655A>G	c.(655-657)ATG>GTG	p.M219V	CASP5_uc010ruz.1_Missense_Mutation_p.M232V|CASP5_uc010rvb.1_Missense_Mutation_p.M161V|CASP5_uc010rvc.1_Missense_Mutation_p.M77V|CASP5_uc009yxh.2_Missense_Mutation_p.M1V|CASP5_uc010rvd.1_Missense_Mutation_p.M1V	NM_004347	NP_004338	P51878	CASP5_HUMAN	caspase 5 isoform a precursor	219					apoptosis|cellular response to mechanical stimulus|proteolysis|regulation of apoptosis	intracellular	cysteine-type endopeptidase activity|protein binding			ovary(2)|lung(1)	3		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000943)|Epithelial(105;0.0104)|all cancers(92;0.042)		AGCCTTTTCATCCCCACGATG	0.502													19	64					0	0	0.007413	0	0		C	104872817	C	C	104872817	3	2	65	1	0	0	0	0	1	0	0	0	2677	1435	50	3	669	3	CASP5	11	104872817	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1058505	104872817	30133699	390	43811											
KBTBD3	143879	broad.mit.edu	37	chr11	105924527	105924527	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagttttgtgaatgaataTgtatttctcagttgtggatg	9	18	10	4	0	2	2	2	2	1	0	3	3	2	3	0	1	0	3	0	1	4	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:105924527T>C	uc001pja.2	-	4	1529	c.889A>G	c.(889-891)ATA>GTA	p.I297V	KBTBD3_uc001pjb.2_Missense_Mutation_p.I297V|KBTBD3_uc009yxm.2_Missense_Mutation_p.I218V	NM_198439	NP_940841	Q8NAB2	KBTB3_HUMAN	BTB and kelch domain containing 3	293	Kelch 1.									ovary(1)|central_nervous_system(1)	2		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.43e-05)|Epithelial(105;0.00418)|all cancers(92;0.0299)		TGAATGAATATGTATTTCTCA	0.368													27	59					0	0	0.005443	0	0		C	105924527	C	C	105924527	3	2	65	1	0	0	0	0	1	0	0	0	8010	1464	51	3	953	3	KBTBD3	11	105924527	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1051710	105924527	29081989	391	43812											
SIK2	23235	broad.mit.edu	37	chr11	111594498	111594498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctccacttccggtccccGggctgctcctcctctgccca	2	9	8	22	2	1	0	0	0	1	0	6	0	6	0	8	2	2	2	8	2	0	1	rs34223841	byFrequency	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:111594498G>A	uc001plt.2	+	15	2544	c.2426G>A	c.(2425-2427)CGG>CAG	p.R809Q		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	809					intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						TCCGGTCCCCGGGCTGCTCCT	0.522													43	100					0	0	0.011902	0	0		A	111594498	A	A	111594498	3	1	65	1	0	0	0	0	1	0	0	0	14343	1116	39	1	2484	1	SIK2	11	111594498	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	5669971	111594498	23412018	392	43813											
BCO2	83875	broad.mit.edu	37	chr11	112064635	112064635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactaatgtcaactatgtgcGgtacaagggtgattactacc	12	12	9	8	1	1	1	1	1	0	0	1	1	1	1	1	2	6	1	1	2	8	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:112064635G>A	uc001pnf.2	+	4	668	c.551G>A	c.(550-552)CGG>CAG	p.R184Q	BCO2_uc001pne.1_Missense_Mutation_p.R11Q|BCO2_uc001png.2_Intron|BCO2_uc001pnh.2_Missense_Mutation_p.R150Q|BCO2_uc010rwt.1_Missense_Mutation_p.R79Q|BCO2_uc009yyn.2_Missense_Mutation_p.R150Q|BCO2_uc001pni.2_Missense_Mutation_p.R150Q	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	184					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						AACTATGTGCGGTACAAGGGT	0.393													25	75					0	0	0.003954	0	0		A	112064635	A	A	112064635	3	1	65	1	0	0	0	0	1	0	0	0	1386	1116	39	1	565	1	BCO2	11	112064635	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	470137	112064635	22941881	393	43814											
USP2	9099	broad.mit.edu	37	chr11	119230349	119230349	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgagtgttgctcaggcactGcagaattgagttcatgaagc	10	10	12	9	1	2	3	2	2	0	1	2	4	2	3	1	1	3	5	1	1	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:119230349G>A	uc001pwm.3	-	4	1142	c.847C>T	c.(847-849)CAG>TAG	p.Q283*	USP2_uc001pwl.3_Nonsense_Mutation_p.Q74*|USP2_uc001pwn.3_Nonsense_Mutation_p.Q40*	NM_004205	NP_004196	O75604	UBP2_HUMAN	ubiquitin specific peptidase 2 isoform a	283					cell cycle|muscle organ development|negative regulation of transcription from RNA polymerase II promoter|positive regulation of mitotic cell cycle|protein deubiquitination|protein stabilization|ubiquitin-dependent protein catabolic process	nucleus|perinuclear region of cytoplasm	cyclin binding|cysteine-type endopeptidase activity|metal ion binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity			ovary(2)|urinary_tract(1)|skin(1)	4		all_hematologic(192;4.65e-05)|Breast(348;0.0101)|all_neural(223;0.0218)|Medulloblastoma(222;0.0425)|Renal(330;0.157)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.000513)|Colorectal(284;0.0116)|Lung(307;0.0853)|LUSC - Lung squamous cell carcinoma(976;0.0889)		CTCAGGCACTGCAGAATTGAG	0.547													14	35					0	0	0.003163	0	0		A	119230349	A	A	119230349	4	1	65	1	0	0	0	0	0	1	0	0	17077	1328	46	2	1010	2	USP2	11	119230349	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	7165714	119230349	15776167	394	43815											
TRIM29	23650	broad.mit.edu	37	chr11	120008124	120008124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggtctcggaaggcggCgccctccaggtggggcttga	4	8	18	11	3	1	1	0	1	1	0	3	2	2	2	2	8	0	1	2	8	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:120008124C>T	uc001pwz.2	-	1	740	c.616G>A	c.(616-618)GCC>ACC	p.A206T	TRIM29_uc001pxa.2_RNA	NM_012101	NP_036233	Q14134	TRI29_HUMAN	tripartite motif protein TRIM29	206					transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(109;0.00117)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)		CGGAAGGCGGCGCCCTCCAGG	0.642													10	26					0	0	0.006214	0	0		T	120008124	T	T	120008124	3	4	65	1	0	0	0	0	1	0	0	0	16529	768	27	1	1186	1	TRIM29	11	120008124	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	777775	120008124	14998392	395	43816											
TECTA	7007	broad.mit.edu	37	chr11	120980130	120980130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaagtacttcaaagacatgGcaaccttctctgccacttgg	11	10	9	11	0	2	1	1	0	1	1	3	2	2	2	2	3	3	2	2	3	4	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:120980130G>A	uc010rzo.1	+	3	409	c.409G>A	c.(409-411)GCA>ACA	p.A137T		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	137	NIDO.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CAAAGACATGGCAACCTTCTC	0.458													18	45					0	0	0.00499	0	0		A	120980130	A	A	120980130	3	1	65	1	0	0	0	0	1	0	0	0	15772	1203	42	2	419	2	TECTA	11	120980130	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	972006	120980130	14026386	396	43817											
SORL1	6653	broad.mit.edu	37	chr11	121393349	121393349	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcagtcagctcctcaacCtccagctccggagaatgccc	8	7	8	18	1	3	1	3	0	0	1	6	2	6	1	6	1	4	2	6	1	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:121393349C>A	uc001pxx.2	+	10	1539	c.1459C>A	c.(1459-1461)CTC>ATC	p.L487I		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	487	Extracellular (Potential).				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		GCTCCTCAACCTCCAGCTCCG	0.552													44	98					3.54909e-21	3.97893e-21	0.011902	1	0		A	121393349	A	A	121393349	3	1	65	1	0	0	0	0	1	0	0	0	14959	681	24	5	1497	5	SORL1	11	121393349	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	413219	121393349	13613167	397	43818											
ROBO3	64221	broad.mit.edu	37	chr11	124742441	124742441	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaaggccctgctggagatAaaaggaggtacgtgcccatg	11	6	14	10	1	0	1	0	0	0	1	0	3	0	2	3	4	3	2	3	4	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:124742441A>C	uc001qbc.2	+	8	1515	c.1323A>C	c.(1321-1323)ATA>ATC	p.I441I		NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	441	Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		TGCTGGAGATAAAAGGAGGTA	0.527													11	31					0	0	0.008291	0	0		C	124742441	C	C	124742441	2	2	65	1	0	0	0	0	0	0	0	1	13540	352	13	5		5	ROBO3	11	124742441	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	3349092	124742441	10264075	398	43819											
VPS26B	112936	broad.mit.edu	37	chr11	134109914	134109914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgctaccatcagccgccGcctcaatgatgttgtcaaag	9	10	9	13	3	3	1	3	1	0	0	4	1	3	1	4	0	3	2	4	0	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr11:134109914G>A	uc001qhe.2	+	3	866	c.410G>A	c.(409-411)CGC>CAC	p.R137H		NM_052875	NP_443107	Q4G0F5	VP26B_HUMAN	vacuolar protein sorting 26 homolog B	137					protein transport|vacuolar transport	cytosol|retromer complex					0	all_hematologic(175;0.127)	all_cancers(12;1.1e-21)|all_epithelial(12;3.77e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;2.43e-10)|all cancers(11;2.94e-09)|BRCA - Breast invasive adenocarcinoma(10;9.57e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00164)|Lung(977;0.216)		ATCAGCCGCCGCCTCAATGAT	0.468													17	47					0	0	0.00499	0	0		A	134109914	A	A	134109914	3	1	65	1	0	0	0	0	1	0	0	0	17224	1087	38	1	420	1	VPS26B	11	134109914	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	9367473	134109914	896602	399	43820											
CACNA2D4	93589	broad.mit.edu	37	chr12	1992068	1992068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcctctgtccagatgatgtCgtggtcgtggttgatgacca	6	12	14	9	2	1	4	0	3	1	1	4	4	2	4	3	3	0	1	3	3	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:1992068C>T	uc001qjp.2	-	13	1681	c.1450G>A	c.(1450-1452)GAC>AAC	p.D484N	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Missense_Mutation_p.D372N	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	484	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		CAGATGATGTCGTGGTCGTGG	0.592													4	16					0	0	0.009096	0	0		T	1992068	T	T	1992068	3	4	65	1	0	0	0	0	1	0	0	0	2554	884	31	1	2067	1	CACNA2D4	12	1992068	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08		1992068	131859827	400	43821											
KCNA1	3736	broad.mit.edu	37	chr12	5021641	5021641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgatgctttctggtgggCggtggtgtccatgaccactg	4	11	14	12	2	1	1	0	1	1	0	2	2	2	1	4	4	1	1	4	4	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:5021641C>T	uc001qnh.2	+	2	2202	c.1097C>T	c.(1096-1098)GCG>GTG	p.A366V		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	366					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TTCTGGTGGGCGGTGGTGTCC	0.542													34	191					0	0	0.012213	0	0		T	5021641	T	T	5021641	3	4	65	1	0	0	0	0	1	0	0	0	8017	768	27	1	1099	1	KCNA1	12	5021641	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3029573	5021641	128830254	401	43822											
KCNA1	3736	broad.mit.edu	37	chr12	5021769	5021769	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccgtacctgtcattgtgTccaatttcaactatttctac	8	16	5	12	1	3	0	2	0	1	0	4	0	4	0	3	0	4	1	3	0	5	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:5021769T>A	uc001qnh.2	+	2	2330	c.1225T>A	c.(1225-1227)TCC>ACC	p.S409T		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	409					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TGTCATTGTGTCCAATTTCAA	0.527													91	239					0	0	0.00361	0	0		A	5021769	A	A	5021769	3	1	65	1	0	0	0	0	1	0	0	0	8017	1667	58	5	1227	5	KCNA1	12	5021769	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	128	5021769	128830126	402	43823											
CHD4	1108	broad.mit.edu	37	chr12	6687228	6687228	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagcagccagtagtcatgcCgtcgatgccagatctcataa	11	9	9	12	2	2	1	2	0	1	1	4	2	2	1	3	0	4	2	3	0	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:6687228C>A	uc001qpo.2	-	36	5359	c.5195G>T	c.(5194-5196)CGG>CTG	p.R1732L	CHD4_uc001qpn.2_Missense_Mutation_p.R1725L|CHD4_uc001qpp.2_Missense_Mutation_p.R1757L|uc001qpq.1_5'Flank	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1732	Required for interaction with PCNT.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						GTAGTCATGCCGTCGATGCCA	0.473													30	91					1.55811e-20	1.74112e-20	0.008361	1	0		A	6687228	A	A	6687228	3	1	65	1	0	0	0	0	1	0	0	0	3330	652	23	5	563	5	CHD4	12	6687228	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1665459	6687228	127164667	403	43824											
CHD4	1108	broad.mit.edu	37	chr12	6692034	6692034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcaatattcccaccaacacGggccaacagaggaggcaatg	14	6	9	12	1	1	1	1	0	0	1	2	2	2	2	3	3	2	1	3	3	5	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:6692034G>A	uc001qpo.2	-	28	4380	c.4216C>T	c.(4216-4218)CGT>TGT	p.R1406C	CHD4_uc001qpn.2_Missense_Mutation_p.R1399C|CHD4_uc001qpp.2_Missense_Mutation_p.R1431C|uc001qpq.1_Silent_p.T79T|SCARNA11_uc001qpr.1_5'Flank	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1406					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						CCACCAACACGGGCCAACAGA	0.498													44	115					0	0	0.011902	0	0		A	6692034	A	A	6692034	3	1	65	1	0	0	0	0	1	0	0	0	3330	1116	39	1	1574	1	CHD4	12	6692034	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4806	6692034	127159861	404	43825											
GDF3	9573	broad.mit.edu	37	chr12	7842978	7842978	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctccaggaataacccgaaAtttttccgggggttgtcatt	10	13	9	9	2	2	0	1	0	1	0	4	2	3	1	3	3	1	1	3	3	3	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:7842978A>T	uc001qte.2	-	2	627	c.591T>A	c.(589-591)AAT>AAA	p.N197K		NM_020634	NP_065685	Q9NR23	GDF3_HUMAN	growth differentiation factor 3 precursor	197					eye development|growth|skeletal system development	extracellular space	cytokine activity|growth factor activity			skin(3)|ovary(1)|lung(1)|central_nervous_system(1)	6						ATAACCCGAAATTTTTCCGGG	0.473													20	61					0	0	0.002299	0	0		T	7842978	T	T	7842978	3	4	65	1	0	0	0	0	1	0	0	0	6330	98	4	5	507	5	GDF3	12	7842978	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	1150944	7842978	126008917	405	43826											
TAS2R10	50839	broad.mit.edu	37	chr12	10978047	10978047	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctagaattaagataaaTgagtgaccccagggatagat	15	11	9	6	0	0	5	0	2	0	3	1	6	1	6	3	1	0	0	3	1	6	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:10978047T>G	uc001qyy.1	-	1	822	c.822A>C	c.(820-822)TCA>TCC	p.S274S		NM_023921	NP_076410	Q9NYW0	T2R10_HUMAN	taste receptor, type 2, member 10	274	Helical; Name=7; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity				0						TTAAGATAAATGAGTGACCCC	0.413													29	80					0	0	0.007291	0	0		G	10978047	G	G	10978047	2	3	65	1	0	0	0	0	0	0	0	1	15591	1451	51	5		5	TAS2R10	12	10978047	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	3135069	10978047	122873848	406	43827											
PDE3A	5139	broad.mit.edu	37	chr12	20766597	20766597	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatacctgttctgactctgAagagagctctgaaaaagaca	14	10	8	9	0	3	5	0	3	3	2	3	6	3	5	1	0	2	2	1	0	5	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:20766597A>T	uc001reh.1	+	3	1254	c.1232A>T	c.(1231-1233)GAA>GTA	p.E411V		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	411					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	TCTGACTCTGAAGAGAGCTCT	0.428													16	49					0	0	0.004007	0	0		T	20766597	T	T	20766597	3	4	65	1	0	0	0	0	1	0	0	0	11656	246	9	5	1242	5	PDE3A	12	20766597	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	9788550	20766597	113085298	407	43828											
ABCC9	10060	broad.mit.edu	37	chr12	22035805	22035805	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgtttatagtttttggCtgctgcattccaaatggaaa	9	17	8	7	0	0	0	0	0	0	0	2	1	2	1	2	2	2	5	2	2	4	7			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:22035805C>A	uc001rfi.1	-	14	1934	c.1914G>T	c.(1912-1914)CAG>CAT	p.Q638H	ABCC9_uc001rfh.2_Missense_Mutation_p.Q638H|ABCC9_uc001rfj.1_Intron	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	638	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TAGTTTTTGGCTGCTGCATTC	0.403													31	64					3.99451e-17	4.40618e-17	0.009535	1	0		A	22035805	A	A	22035805	3	1	65	1	0	0	0	0	1	0	0	0	59	796	28	5	2977	5	ABCC9	12	22035805	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1269208	22035805	111816090	408	43829											
IFLTD1	160492	broad.mit.edu	37	chr12	25671789	25671789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctatccaatctgcctccagCggtggatgtattgtgtggtt	6	15	11	9	1	2	0	0	0	2	0	4	1	4	1	3	3	2	2	3	3	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:25671789C>T	uc001rgs.2	-	7	1216	c.1066G>A	c.(1066-1068)GCT>ACT	p.A356T	IFLTD1_uc001rgt.1_Missense_Mutation_p.A259T|IFLTD1_uc010sji.1_Missense_Mutation_p.A377T|IFLTD1_uc010sjj.1_Missense_Mutation_p.A293T|IFLTD1_uc009zjc.2_Missense_Mutation_p.A337T	NM_152590	NP_689803	Q8N9Z9	ILFT1_HUMAN	intermediate filament tail domain containing 1	356						intermediate filament	structural molecule activity			ovary(2)|central_nervous_system(1)	3	all_lung(3;2.75e-22)|Lung NSC(3;1.77e-21)|all_hematologic(7;0.00656)|Colorectal(261;0.0847)					CTGCCTCCAGCGGTGGATGTA	0.522											OREG0031252	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	30	80					0	0	0.008361	0	0		T	25671789	T	T	25671789	3	4	65	1	0	0	0	0	1	0	0	0	7546	768	27	1	108	1	IFLTD1	12	25671789	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3635984	25671789	108180106	409	43830											
DENND5B	160518	broad.mit.edu	37	chr12	31604972	31604973	+	Frame_Shift_Ins	INS	-	A	A																															taatctgcaaacatctgtgtINSaaaacggttagcaaagacct																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:31604972_31604973insA	uc001rki.1	-	5	1716_1717	c.1530_1531insT	c.(1528-1533)TTTACAfs	p.F510fs	DENND5B_uc001rkh.1_Frame_Shift_Ins_p.F545fs|DENND5B_uc009zjq.1_Intron|DENND5B_uc001rkj.2_Frame_Shift_Ins_p.F532fs|DENND5B_uc001rkk.1_Frame_Shift_Ins_p.F432fs	NM_144973	NP_659410	Q6ZUT9	DEN5B_HUMAN	DENN/MADD domain containing 5B	510_511	dDENN.					integral to membrane				ovary(1)|central_nervous_system(1)	2						AACATCTGTGTAAAACGGTTAG	0.45													27	59	---	---	---	---						.	A	31604973	A	A	31604972	7	5	65	1	0	1	1	0	0	0	0	0	4443	1638	57	0	2361	0	DENND5B	12	31604972	Frame_Shift_Ins	INS	-	TCGA-BR-8360-01A-11D-2340-08	5933183	31604972	102246923	410	43831											
ARID2	196528	broad.mit.edu	37	chr12	46245344	46245344	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtacaaactgtgcccatttcGaacttacaaatattgccagg	13	11	7	10	1	0	0	0	0	0	0	1	1	0	0	2	1	6	1	2	1	6	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:46245344G>A	uc001ros.1	+	15	3438	c.3438G>A	c.(3436-3438)TCG>TCA	p.S1146S	ARID2_uc001ror.2_Silent_p.S1146S|ARID2_uc009zkg.1_Silent_p.S602S|ARID2_uc009zkh.1_Silent_p.S773S|ARID2_uc001rou.1_Silent_p.S480S	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1146					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TGCCCATTTCGAACTTACAAA	0.483													27	68					0	0	0.005443	0	0		A	46245344	A	A	46245344	2	1	65	1	0	0	0	0	0	0	0	1	915	1045	37	1		1	ARID2	12	46245344	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	14640372	46245344	87606551	411	43832											
GPD1	2819	broad.mit.edu	37	chr12	50501526	50501526	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgttgctgacctgatcacTacctgctatggagggcggaa	8	10	14	9	1	1	2	1	2	0	0	1	4	1	4	2	4	3	3	2	4	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:50501526T>C	uc001rvz.2	+	6	822	c.789T>C	c.(787-789)ACT>ACC	p.T263T	GPD1_uc001rwa.2_Silent_p.T240T	NM_005276	NP_005267	P21695	GPDA_HUMAN	glycerol-3-phosphate dehydrogenase 1 (soluble)	263					glycerol-3-phosphate catabolic process|triglyceride biosynthetic process	cytosol|glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|protein homodimerization activity				0					NADH(DB00157)	ACCTGATCACTACCTGCTATG	0.597													5	107					0	0	0.000602	0	0		C	50501526	C	C	50501526	2	2	65	1	0	0	0	0	0	0	0	1	6619	1509	53	3		3	GPD1	12	50501526	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	4256182	50501526	83350369	412	43833											
ZBTB39	9880	broad.mit.edu	37	chr12	57398126	57398126	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcaggctatggttagcGtcactggcaacattcttctc	9	12	10	10	1	3	1	1	0	2	1	4	1	3	1	0	3	3	4	0	3	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:57398126G>A	uc001sml.1	-	2	662	c.576C>T	c.(574-576)GAC>GAT	p.D192D	RDH16_uc010sqx.1_5'Flank	NM_014830	NP_055645	O15060	ZBT39_HUMAN	zinc finger and BTB domain containing 39	192					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						TATGGTTAGCGTCACTGGCAA	0.542													51	99					0	0	0.00361	0	0		A	57398126	A	A	57398126	2	1	65	1	0	0	0	0	0	0	0	1	17565	1136	40	1		1	ZBTB39	12	57398126	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	6896600	57398126	76453769	413	43834											
LRP1	4035	broad.mit.edu	37	chr12	57570998	57570998	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggtgacattgagcaccCaagggcaatcgcactggatc	10	6	13	12	2	0	2	0	2	0	0	2	3	0	3	2	4	1	3	2	4	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:57570998C>A	uc001snd.2	+	25	4632	c.4166C>A	c.(4165-4167)CCA>CAA	p.P1389Q		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1389	Extracellular (Potential).|LDL-receptor class B 9.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	ATTGAGCACCCAAGGGCAATC	0.637													10	21					9.70103e-10	1.02234e-09	0.008291	1	0		A	57570998	A	A	57570998	3	1	65	1	0	0	0	0	1	0	0	0	8969	594	21	5	4264	5	LRP1	12	57570998	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	172872	57570998	76280897	414	43835											
R3HDM2	22864	broad.mit.edu	37	chr12	57648750	57648750	+	Frame_Shift_Del	DEL	C	-	-																															ctcagcagtcccactgttgtCccccccaccccctccaggca																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:57648750delC	uc009zpm.1	-	22	2772	c.2737delG	c.(2737-2739)GACfs	p.D913fs	R3HDM2_uc010srn.1_Intron|R3HDM2_uc001snu.2_Frame_Shift_Del_p.D608fs|R3HDM2_uc001snr.2_Frame_Shift_Del_p.D640fs|R3HDM2_uc001sns.2_Frame_Shift_Del_p.D913fs|R3HDM2_uc001snt.2_Frame_Shift_Del_p.D927fs|R3HDM2_uc009zpn.1_Intron	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	913						nucleus	nucleic acid binding			ovary(2)	2						CCACTGTTGTCCCCCCCACCC	0.632													17	39	---	---	---	---						.	-	57648750	-	-	57648750	7	5	65	1	0	1	0	1	0	0	0	0	12913	855	30	0	197	0	R3HDM2	12	57648750	Frame_Shift_Del	DEL	C	TCGA-BR-8360-01A-11D-2340-08	77752	57648750	76203145	415	43836											
LRIG3	121227	broad.mit.edu	37	chr12	59272641	59272641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttgcatttgctgaaatacttCctgcactgttctgagctgtg	7	16	9	9	0	1	2	0	2	1	0	2	2	2	2	1	0	5	5	1	0	2	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:59272641C>T	uc001sqr.2	-	14	2294	c.2048G>A	c.(2047-2049)GGA>GAA	p.G683E	LRIG3_uc009zqh.2_Missense_Mutation_p.G623E|LRIG3_uc010ssh.1_RNA	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like	683	Ig-like C2-type 2.					integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			TGAAATACTTCCTGCACTGTT	0.443													40	104					0	0	0.00874	0	0		T	59272641	T	T	59272641	3	4	65	1	0	0	0	0	1	0	0	0	8964	855	30	4	1335	4	LRIG3	12	59272641	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1623891	59272641	74579254	416	43837											
GRIP1	23426	broad.mit.edu	37	chr12	66814553	66814553	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgacgagggggtctcctggTtttctactggatggtgctgt	5	14	15	7	1	2	1	0	1	2	0	3	3	2	2	1	5	2	2	1	5	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:66814553T>G	uc001stk.2	-	14	1870	c.1629A>C	c.(1627-1629)AAA>AAC	p.K543N	GRIP1_uc010sta.1_Missense_Mutation_p.K487N|GRIP1_uc001stj.2_Missense_Mutation_p.K325N|GRIP1_uc001stl.1_Missense_Mutation_p.K435N|GRIP1_uc001stm.2_Missense_Mutation_p.K543N	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	595	PDZ 5.				androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		GGTCTCCTGGTTTTCTACTGG	0.368													36	84					0	0	0.005524	0	0		G	66814553	G	G	66814553	3	3	65	1	0	0	0	0	1	0	0	0	6803	1722	60	5	1645	5	GRIP1	12	66814553	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	7541912	66814553	67037342	417	43838											
PTPRB	5787	broad.mit.edu	37	chr12	70948972	70948972	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccaccactgtgaagtatTtcacagctccattggtgtcg	9	12	8	12	1	2	1	2	1	0	0	4	1	3	1	3	1	1	2	3	1	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:70948972T>A	uc001swb.3	-	18	4487	c.4457A>T	c.(4456-4458)AAA>ATA	p.K1486I	PTPRB_uc010sto.1_Missense_Mutation_p.K1396I|PTPRB_uc010stp.1_Missense_Mutation_p.K1396I|PTPRB_uc001swc.3_Missense_Mutation_p.K1704I|PTPRB_uc001swa.3_Missense_Mutation_p.K1616I	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1486	Fibronectin type-III 17.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			TGTGAAGTATTTCACAGCTCC	0.453													17	28					0	0	0.004007	0	0		A	70948972	A	A	70948972	3	1	65	1	0	0	0	0	1	0	0	0	12821	1841	64	5	1596	5	PTPRB	12	70948972	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	4134419	70948972	62902923	418	43839											
PTPRR	5801	broad.mit.edu	37	chr12	71286586	71286586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaattgacaatctggtggCgtttgcttacttgagcttcg	7	15	11	8	2	1	3	0	3	1	0	2	3	1	3	0	2	3	3	0	2	3	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:71286586C>T	uc001swi.1	-	2	646	c.230G>A	c.(229-231)CGC>CAC	p.R77H		NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	77	Extracellular (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		AATCTGGTGGCGTTTGCTTAC	0.448													47	131					0	0	0.00361	0	0		T	71286586	T	T	71286586	3	4	65	1	0	0	0	0	1	0	0	0	12835	768	27	1	1795	1	PTPRR	12	71286586	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	337614	71286586	62565309	419	43840											
MYF6	4618	broad.mit.edu	37	chr12	81102715	81102715	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggaacgcaaactcccctgCgtggaggaagtggtggagaa	12	5	16	8	2	0	1	0	0	0	1	1	6	1	4	2	5	3	1	2	5	4	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:81102715C>T	uc001szf.1	+	3	758	c.705C>T	c.(703-705)TGC>TGT	p.C235C		NM_002469	NP_002460	P23409	MYF6_HUMAN	myogenic factor 6	235					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						AACTCCCCTGCGTGGAGGAAG	0.537													14	42					0	0	0.001855	0	0		T	81102715	T	T	81102715	2	4	65	1	0	0	0	0	0	0	0	1	10046	776	27	1		1	MYF6	12	81102715	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	9816129	81102715	52749180	420	43841											
STAB2	55576	broad.mit.edu	37	chr12	104015889	104015889	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggacccagctgttcatcaGgtatgtctgatttttgtgta	7	17	10	7	0	3	1	2	1	1	0	3	2	3	2	1	2	1	4	1	2	2	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:104015889G>T	uc001tjw.2	+	5	673	c.487G>T	c.(487-489)GTG>TTG	p.V163L		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	163	Extracellular (Potential).|EGF-like 2.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTGTTCATCAGGTATGTCTGA	0.428													19	41					1.67942e-08	1.75902e-08	0.006122	1	0		T	104015889	T	T	104015889	3	4	65	1	0	0	0	0	1	0	0	0	15263	1014	35	5	505	5	STAB2	12	104015889	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	22913174	104015889	29836006	421	43842											
STAB2	55576	broad.mit.edu	37	chr12	104121068	104121068	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catttcgtgaaagatctggtCggcccaggccccttcactgt	7	11	10	13	2	2	2	1	1	1	1	4	2	2	2	3	3	0	0	3	3	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:104121068C>T	uc001tjw.2	+	47	5061	c.4875C>T	c.(4873-4875)GTC>GTT	p.V1625V	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1625	Extracellular (Potential).|FAS1 5.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						AAGATCTGGTCGGCCCAGGCC	0.527													61	143					0	0	0.00361	0	0		T	104121068	T	T	104121068	2	4	65	1	0	0	0	0	0	0	0	1	15263	871	31	1		1	STAB2	12	104121068	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	105179	104121068	29730827	422	43843											
PRDM4	11108	broad.mit.edu	37	chr12	108128295	108128295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgggacacttgatctggcGttctctaagaggaacacaag	11	10	11	9	1	2	2	0	1	2	1	3	4	2	4	0	3	1	1	0	3	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:108128295G>A	uc001tmp.2	-	12	2535	c.2098C>T	c.(2098-2100)CGC>TGC	p.R700C	PRDM4_uc010sww.1_Missense_Mutation_p.R107C|PRDM4_uc001tmq.2_RNA	NM_012406	NP_036538	Q9UKN5	PRDM4_HUMAN	PR domain containing 4	700					cell proliferation|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						TTGATCTGGCGTTCTCTAAGA	0.403													42	106					0	0	0.010771	0	0		A	108128295	A	A	108128295	3	1	65	1	0	0	0	0	1	0	0	0	12481	1145	40	1	311	1	PRDM4	12	108128295	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4007227	108128295	25723600	423	43844											
PRDM4	11108	broad.mit.edu	37	chr12	108134747	108134747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtatcttgaggtgggtccGcaggttgctgggatcactaa	8	12	14	7	1	2	1	1	1	1	0	3	2	3	2	1	4	1	4	1	4	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:108134747G>A	uc001tmp.2	-	10	2337	c.1900C>T	c.(1900-1902)CGG>TGG	p.R634W	PRDM4_uc010sww.1_Missense_Mutation_p.R41W|PRDM4_uc001tmq.2_RNA	NM_012406	NP_036538	Q9UKN5	PRDM4_HUMAN	PR domain containing 4	634	C2H2-type 2.				cell proliferation|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						AGGTGGGTCCGCAGGTTGCTG	0.448													24	63					0	0	0.00333	0	0		A	108134747	A	A	108134747	3	1	65	1	0	0	0	0	1	0	0	0	12481	1086	38	1	517	1	PRDM4	12	108134747	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	6452	108134747	25717148	424	43845											
GLTP	51228	broad.mit.edu	37	chr12	110293442	110293442	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctggaagatcttctgcacGatccagccatggtacttctt	9	12	8	12	1	3	1	0	0	3	1	4	3	4	2	3	2	3	2	3	2	2	4	rs138733952		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:110293442G>A	uc001tpm.2	-	4	543	c.429C>T	c.(427-429)ATC>ATT	p.I143I	GLTP_uc010sxt.1_RNA	NM_016433	NP_057517	Q9NZD2	GLTP_HUMAN	glycolipid transfer protein	143						cytoplasm	glycolipid binding|glycolipid transporter activity				0		Lung NSC(355;2.38e-06)|Breast(359;0.00354)|Myeloproliferative disorder(1001;0.0122)		BRCA - Breast invasive adenocarcinoma(302;0.0025)		TCTTCTGCACGATCCAGCCAT	0.617													8	29					0	0	0.00308	0	0		A	110293442	A	A	110293442	2	1	65	1	0	0	0	0	0	0	0	1	6486	1048	37	1		1	GLTP	12	110293442	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2158695	110293442	23558453	425	43846											
PPP1CC	5501	broad.mit.edu	37	chr12	111158936	111158936	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggcgttacaggtctcgtgGcatttggcttctttttctct	4	17	11	9	2	3	0	0	0	3	0	5	1	3	0	0	4	1	3	0	4	1	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:111158936G>T	uc001tru.2	-	7	1162	c.917C>A	c.(916-918)GCC>GAC	p.A306D		NM_002710	NP_002701	P36873	PP1G_HUMAN	protein phosphatase 1, catalytic subunit, gamma	306					cell division|glycogen metabolic process|mitotic prometaphase|triglyceride catabolic process	cleavage furrow|condensed chromosome kinetochore|cytosol|midbody|MLL5-L complex|nuclear speck|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|protein binding|protein kinase binding|protein serine/threonine phosphatase activity	p.A306S(1)		lung(2)|central_nervous_system(1)	3						AGGTCTCGTGGCATTTGGCTT	0.393													25	81					4.22769e-11	4.48988e-11	0.00632	1	0		T	111158936	T	T	111158936	3	4	65	1	0	0	0	0	1	0	0	0	12373	1203	42	5	58	5	PPP1CC	12	111158936	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	865494	111158936	22692959	426	43847											
SH2B3	10019	broad.mit.edu	37	chr12	111884789	111884789	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgaggtgggagacgagcAgcagctgaattcatggatgg	10	9	16	6	1	1	3	1	2	0	1	1	6	1	4	0	4	3	3	0	4	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:111884789A>G	uc001tse.2	+	4	1235	c.878A>G	c.(877-879)CAG>CGG	p.Q293R	SH2B3_uc010syf.1_Missense_Mutation_p.Q293R|SH2B3_uc001tsf.2_Missense_Mutation_p.Q293R|SH2B3_uc010syg.1_Missense_Mutation_p.Q91R	NM_005475	NP_005466	Q9UQQ2	SH2B3_HUMAN	SH2B adaptor protein 3	293	PH.				blood coagulation	cytosol	signal transducer activity			ovary(1)	1						GGAGACGAGCAGCAGCTGAAT	0.577													15	36					0	0	0.003163	0	0		G	111884789	G	G	111884789	3	3	65	1	0	0	0	0	1	0	0	0	14254	188	7	3	888	3	SH2B3	12	111884789	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	725853	111884789	21967106	427	43848											
ACAD10	80724	broad.mit.edu	37	chr12	112186136	112186136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaggcatcctggatcctcGttgccaactctgtgtgttta	6	13	11	11	1	1	0	0	0	1	0	4	1	3	1	3	3	2	4	3	3	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:112186136G>A	uc001tsq.2	+	17	2701	c.2501G>A	c.(2500-2502)CGT>CAT	p.R834H	ACAD10_uc001tsp.2_Missense_Mutation_p.R834H|ACAD10_uc009zvx.2_Missense_Mutation_p.R865H|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	834							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						CTGGATCCTCGTTGCCAACTC	0.532													26	92					0	0	0.003954	0	0		A	112186136	A	A	112186136	3	1	65	1	0	0	0	0	1	0	0	0	108	1145	40	1	2660	1	ACAD10	12	112186136	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	301347	112186136	21665759	428	43849											
C12orf51	283450	broad.mit.edu	37	chr12	112650376	112650376	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgcccgcagtatgtgaagTacacccggcccttggctggc	6	8	13	14	2	0	1	0	1	0	0	0	1	0	1	3	3	2	5	3	3	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:112650376T>C	uc009zwc.2	-	42	6296	c.6278A>G	c.(6277-6279)TAC>TGC	p.Y2093C	C12orf51_uc001ttr.1_Missense_Mutation_p.Y268C	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						GTATGTGAAGTACACCCGGCC	0.562													34	39					0	0	0.002836	0	0		C	112650376	C	C	112650376	3	2	65	1	0	0	0	0	1	0	0	0	1699	1638	57	3	5824	3	C12orf51	12	112650376	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	464240	112650376	21201519	429	43850											
RNF10	9921	broad.mit.edu	37	chr12	121002881	121002881	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttccaatgtaggatgttCgacagcgtcacagatatctc	10	14	8	9	2	2	1	1	0	1	1	5	3	3	2	1	1	1	2	1	1	3	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:121002881C>T	uc001typ.3	+	11	2155	c.1672C>T	c.(1672-1674)CGA>TGA	p.R558*	RNF10_uc010szk.1_RNA|RNF10_uc001tyq.3_Nonsense_Mutation_p.R469*	NM_014868	NP_055683	Q8N5U6	RNF10_HUMAN	ring finger protein 10	558					negative regulation of Schwann cell proliferation|positive regulation of myelination|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GTAGGATGTTCGACAGCGTCA	0.453													61	119					0	0	0.00361	0	0		T	121002881	T	T	121002881	4	4	65	1	0	0	0	0	0	1	0	0	13447	876	31	1	1714	1	RNF10	12	121002881	Nonsense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	8352505	121002881	12849014	430	43851											
WDR66	144406	broad.mit.edu	37	chr12	122386901	122386901	+	Frame_Shift_Del	DEL	T	-	-																															atatttcagaactacgttacTtttaacccaacaaataataa																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:122386901delT	uc009zxk.2	+	8	1345	c.1203delT	c.(1201-1203)ACTfs	p.T401fs		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	401	WD 3.						calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		ACTACGTTACTTTTAACCCAA	0.239													23	53	---	---	---	---						.	-	122386901	-	-	122386901	7	5	65	1	0	1	0	1	0	0	0	0	17343	1596	56	0	1229	0	WDR66	12	122386901	Frame_Shift_Del	DEL	T	TCGA-BR-8360-01A-11D-2340-08	1384020	122386901	11464994	431	43852											
ARL6IP4	51329	broad.mit.edu	37	chr12	123464969	123464970	+	Frame_Shift_Del	DEL	GC	-	-																															accagccggggaggagggcgGcgcgcgcgagggtcgccttc																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:123464969_123464970delGC	uc001ued.2	+	1	90_91	c.35_36delGC	c.(34-36)GGCfs	p.G12fs	ARL6IP4_uc001uec.2_Frame_Shift_Del_p.G12fs|ARL6IP4_uc001uee.2_Frame_Shift_Del_p.G12fs|ARL6IP4_uc001uef.2_Frame_Shift_Del_p.G12fs|ARL6IP4_uc001ueg.2_RNA|ARL6IP4_uc009zxt.2_5'Flank|ARL6IP4_uc001ueh.2_5'Flank|ARL6IP4_uc001uei.2_5'Flank	NM_018694	NP_061164	Q66PJ3	AR6P4_HUMAN	SRp25 nuclear protein isoform 1	12					RNA splicing	nucleus					0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.11e-05)|Epithelial(86;0.000127)|BRCA - Breast invasive adenocarcinoma(302;0.107)		GAGGAGGGCGGCGCGCGCGAGG	0.713													7	6	---	---	---	---						.	-	123464970	-	-	123464969	7	5	65	1	0	1	0	1	0	0	0	0	944	1203	42	0	37	0	ARL6IP4	12	123464969	Frame_Shift_Del	DEL	GC	TCGA-BR-8360-01A-11D-2340-08	1078068	123464969	10386926	432	43853											
SBNO1	55206	broad.mit.edu	37	chr12	123782547	123782547	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatccgttgcccatcttcCgttcttagccgcacgatctg	7	12	7	15	4	3	0	0	0	3	0	5	1	5	0	4	0	2	3	4	0	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:123782547C>T	uc010tap.1	-	30	4017	c.4017G>A	c.(4015-4017)ACG>ACA	p.T1339T	SBNO1_uc009zxv.2_RNA|SBNO1_uc010tao.1_Silent_p.T1338T|SBNO1_uc010taq.1_Silent_p.T290T	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	1339							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		GCCCATCTTCCGTTCTTAGCC	0.428													28	82					0	0	0.008361	0	0		T	123782547	T	T	123782547	2	4	65	1	0	0	0	0	0	0	0	1	13887	639	23	1		1	SBNO1	12	123782547	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	317578	123782547	10069348	433	43854											
UBC	7316	broad.mit.edu	37	chr12	125397684	125397684	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggactctttctggatgtTgtagtcagacagggtacgac	8	12	14	7	1	3	1	1	0	2	1	3	4	3	3	0	4	1	3	0	4	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:125397684T>C	uc001ugs.3	-	2	1082	c.634A>G	c.(634-636)AAC>GAC	p.N212D	UBC_uc001ugr.2_5'Flank|UBC_uc001ugu.1_Missense_Mutation_p.N212D|UBC_uc001ugt.2_Missense_Mutation_p.N212D|UBC_uc001ugv.2_Intron|UBC_uc001ugw.2_Missense_Mutation_p.N60D	NM_021009	NP_066289	P0CG48	UBC_HUMAN	ubiquitin C	212	Ubiquitin-like 3.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.17e-05)|Epithelial(86;0.000207)|all cancers(50;0.00308)		TTCTGGATGTTGTAGTCAGAC	0.498													41	177					0	0	0.007835	0	0		C	125397684	C	C	125397684	3	2	65	1	0	0	0	0	1	0	0	0	16868	1812	63	3	1427	3	UBC	12	125397684	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1615137	125397684	8454211	434	43855											
ANKLE2	23141	broad.mit.edu	37	chr12	133331306	133331306	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactggacacaccccatagtAcaggggcggctccttagacg	10	6	11	14	2	0	1	0	0	0	1	1	2	1	2	3	4	1	2	3	4	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr12:133331306A>G	uc001ukx.2	-	2	662	c.595T>C	c.(595-597)TAC>CAC	p.Y199H	ANKLE2_uc001uky.3_Missense_Mutation_p.Y137H	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	199						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		ACCCCATAGTACAGGGGCGGC	0.577													26	65					0	0	0.003954	0	0		G	133331306	G	G	133331306	3	3	65	1	0	0	0	0	1	0	0	0	633	391	14	3	2269	3	ANKLE2	12	133331306	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	7933622	133331306	520589	435	43856											
NUPL1	9818	broad.mit.edu	37	chr13	25882001	25882001	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtacttcaactccagcaacTacatctgctccttcaagtgg	11	11	6	13	0	3	0	2	0	1	0	5	0	5	0	2	1	6	3	2	1	5	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr13:25882001T>C	uc001uqi.2	+	2	411	c.165T>C	c.(163-165)ACT>ACC	p.T55T	NUPL1_uc001uqg.1_Silent_p.T55T|NUPL1_uc001uqj.2_Silent_p.T55T	NM_014089	NP_054808	Q9BVL2	NUPL1_HUMAN	nucleoporin like 1 isoform a	55	14 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore					0		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.0092)|Epithelial(112;0.0477)|OV - Ovarian serous cystadenocarcinoma(117;0.165)|GBM - Glioblastoma multiforme(144;0.244)		CTCCAGCAACTACATCTGCTC	0.423													23	71					0	0	0.00278	0	0		C	25882001	C	C	25882001	2	2	65	1	0	0	0	0	0	0	0	1	10793	1509	53	3		3	NUPL1	13	25882001	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08		25882001	89287877	436	43857											
MTUS2	23281	broad.mit.edu	37	chr13	29855999	29855999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaatccacttccacacccGctggtaagactttgtgcctt	10	11	6	14	1	0	1	0	0	0	1	2	1	2	1	4	1	1	2	4	1	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr13:29855999G>A	uc001usl.3	+	4	2891	c.2833G>A	c.(2833-2835)GCT>ACT	p.A945T		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	935	Localization to the growing distal tip of microtubules.|Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						TTCCACACCCGCTGGTAAGAC	0.542													21	46					0	0	0.00333	0	0		A	29855999	A	A	29855999	3	1	65	1	0	0	0	0	1	0	0	0	9984	1087	38	1	2847	1	MTUS2	13	29855999	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3973998	29855999	85313879	437	43858											
BRCA2	675	broad.mit.edu	37	chr13	32911073	32911074	+	Frame_Shift_Ins	INS	-	A	A																															cacaaatctaagagtaatccINSaaaaaaatcaagaagaaact																								rs80359335		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr13:32911073_32911074insA	uc001uub.1	+	11	2808_2809	c.2581_2582insA	c.(2581-2583)CAAfs	p.Q861fs		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	861	Interaction with NPM1.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AAGAGTAATCCAAAAAAATCAA	0.322			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			27	46	---	---	---	---						.	A	32911074	A	A	32911073	7	5	65	1	0	1	1	0	0	0	0	0	1502	595	21	0	2619	0	BRCA2	13	32911073	Frame_Shift_Ins	INS	-	TCGA-BR-8360-01A-11D-2340-08	3055074	32911073	82258805	438	43859											
ENOX1	55068	broad.mit.edu	37	chr13	43930092	43930092	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagagcggcttcgtgctcCgagtagtgcattatggcagg	8	9	15	9	3	0	1	0	0	0	1	2	2	1	1	1	3	4	6	1	3	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr13:43930092C>T	uc001uza.3	-	8	1086	c.786G>A	c.(784-786)TCG>TCA	p.S262S	ENOX1_uc001uzb.3_Silent_p.S262S|ENOX1_uc001uzc.3_Silent_p.S262S|ENOX1_uc001uyz.3_5'UTR|ENOX1_uc010tfm.1_Silent_p.S75S	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	262					electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		CTTCGTGCTCCGAGTAGTGCA	0.637													39	114					0	0	0.00361	0	0		T	43930092	T	T	43930092	2	4	65	1	0	0	0	0	0	0	0	1	5134	639	23	1		1	ENOX1	13	43930092	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	11019019	43930092	71239786	439	43860											
SLC25A30	253512	broad.mit.edu	37	chr13	45983139	45983139	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctcggtatctaatttcCttaaattttgcatcattcgt	9	19	4	9	2	2	0	1	0	1	0	6	0	4	0	2	1	1	2	2	1	4	8			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr13:45983139C>A	uc001vag.2	-	3	272	c.135G>T	c.(133-135)AAG>AAT	p.K45N	SLC25A30_uc010tfs.1_Intron|SLC25A30_uc001vah.2_Intron|SLC25A30_uc010tft.1_Translation_Start_Site	NM_001010875	NP_001010875	Q5SVS4	KMCP1_HUMAN	solute carrier family 25, member 30	45	Solcar 1.				mitochondrial transport	integral to membrane|mitochondrial inner membrane	binding			breast(1)	1		Lung NSC(96;0.00227)|Prostate(109;0.00578)|Breast(56;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.95e-05)		ATCTAATTTCCTTAAATTTTG	0.398													6	73					3.59834e-05	3.71774e-05	0.001168	1	0		A	45983139	A	A	45983139	3	1	65	1	0	0	0	0	1	0	0	0	14519	680	24	5	772	5	SLC25A30	13	45983139	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2053047	45983139	69186739	440	43861											
ZC3H13	23091	broad.mit.edu	37	chr13	46543661	46543661	+	Frame_Shift_Del	DEL	T	-	-																															tcacctttggattttttacgTtttttttcaatgcttttctt																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr13:46543661delT	uc010tfw.1	-	13	3024	c.3018delA	c.(3016-3018)AAAfs	p.K1006fs	ZC3H13_uc001vaq.2_5'Flank|ZC3H13_uc001vas.1_Frame_Shift_Del_p.K1006fs|ZC3H13_uc001vat.1_Frame_Shift_Del_p.K1006fs	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	1006	Lys-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		ATTTTTTACGTTTTTTTTCAA	0.373													27	54	---	---	---	---						.	-	46543661	-	-	46543661	7	5	65	1	0	1	0	1	0	0	0	0	17590	1722	60	0	1692	0	ZC3H13	13	46543661	Frame_Shift_Del	DEL	T	TCGA-BR-8360-01A-11D-2340-08	560522	46543661	68626217	441	43862											
SLITRK1	114798	broad.mit.edu	37	chr13	84455642	84455642	+	Frame_Shift_Del	DEL	T	-	-																															caacagaatccaaagcagcaTttttaaagcgagcaattcat																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr13:84455642delT	uc001vlk.2	-	1	887	c.1delA	c.(1-3)ATGfs	p.M1fs		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	1						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CAAAGCAGCATTTTTAAAGCG	0.458													29	61	---	---	---	---						.	-	84455642	-	-	84455642	7	5	65	1	0	1	0	1	0	0	0	0	14767	1493	52	0	2093	0	SLITRK1	13	84455642	Frame_Shift_Del	DEL	T	TCGA-BR-8360-01A-11D-2340-08	37911981	84455642	30714236	442	43863											
SLITRK5	26050	broad.mit.edu	37	chr13	88330333	88330333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaactatgacctgagacGcccccatcagtatttgcacc	10	8	6	17	1	1	2	1	2	0	1	1	3	1	2	6	0	2	2	6	0	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr13:88330333G>A	uc001vln.2	+	2	2909	c.2690G>A	c.(2689-2691)CGC>CAC	p.R897H	SLITRK5_uc010tic.1_Missense_Mutation_p.R656H	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	897	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GACCTGAGACGCCCCCATCAG	0.617													34	77					0	0	0.003755	0	0		A	88330333	A	A	88330333	3	1	65	1	0	0	0	0	1	0	0	0	14771	1087	38	1	2692	1	SLITRK5	13	88330333	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3874691	88330333	26839545	443	43864											
METT11D1	64745	broad.mit.edu	37	chr14	21464375	21464375	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtgttcacagtgtccccAtgaactcccttgtccccagt	7	13	7	14	0	1	1	1	1	0	0	4	1	4	1	5	0	1	1	5	0	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:21464375A>G	uc001vyn.2	+	12	1201	c.1004A>G	c.(1003-1005)CAT>CGT	p.H335R	METT11D1_uc001vym.2_Missense_Mutation_p.H335R|METT11D1_uc001vyo.2_Missense_Mutation_p.H335R|METT11D1_uc001vyp.2_Missense_Mutation_p.H177R|METT11D1_uc001vyq.2_Missense_Mutation_p.H177R	NM_022734	NP_073571	Q9H7H0	MET17_HUMAN	methyltransferase 11 domain containing 1 isoform	335					translation	mitochondrion|ribosome	copper ion binding|methyltransferase activity				0	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0191)		CAGTGTCCCCATGAACTCCCT	0.478													44	229					0	0	0.00361	0	0		G	21464375	G	G	21464375	3	3	65	1	0	0	0	0	1	0	0	0	9509	217	8	3	1050	3	METT11D1	14	21464375	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08		21464375	85885165	444	43865											
LRRC16B	90668	broad.mit.edu	37	chr14	24534215	24534215	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggactctcggaggcaccGctgcctccactccagaagaa	10	5	10	16	2	1	2	0	0	1	2	4	4	3	4	5	3	1	2	5	3	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:24534215G>A	uc001wlj.2	+	33	3286	c.3129G>A	c.(3127-3129)CCG>CCA	p.P1043P	LRRC16B_uc001wlk.2_Silent_p.P139P	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	1043										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		CGGAGGCACCGCTGCCTCCAC	0.647													42	70					0	0	0.00874	0	0		A	24534215	A	A	24534215	2	1	65	1	0	0	0	0	0	0	0	1	8990	1074	38	1		1	LRRC16B	14	24534215	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3069840	24534215	82815325	445	43866											
RNF31	55072	broad.mit.edu	37	chr14	24619997	24619997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccaagcctgggcccccacGacgccttagtgcccccctgc	5	5	9	22	2	0	0	0	0	0	0	0	1	0	0	9	1	3	0	9	1	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:24619997G>A	uc001wmn.1	+	8	1637	c.1388G>A	c.(1387-1389)CGA>CAA	p.R463Q	RNF31_uc001wml.1_Missense_Mutation_p.R312Q|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_Missense_Mutation_p.R278Q|RNF31_uc001wmo.1_5'Flank|RNF31_uc001wmp.2_5'Flank	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	463	Polyubiquitin-binding.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		GGGCCCCCACGACGCCTTAGT	0.612													23	39					0	0	0.002299	0	0		A	24619997	A	A	24619997	3	1	65	1	0	0	0	0	1	0	0	0	13512	1058	37	1	1418	1	RNF31	14	24619997	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	85782	24619997	82729543	446	43867											
CTSG	1511	broad.mit.edu	37	chr14	25042973	25042973	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actttccataggagacgatgCcgtgggccacattgttacac	10	10	10	11	2	0	1	0	0	0	1	1	3	1	1	3	2	2	1	3	2	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:25042973C>G	uc001wpq.2	-	5	675	c.638G>C	c.(637-639)GGC>GCC	p.G213A		NM_001911	NP_001902	P08311	CATG_HUMAN	cathepsin G preproprotein	213	Peptidase S1.				immune response|proteolysis	cell surface|extracellular space|plasma membrane|stored secretory granule	heparin binding|serine-type endopeptidase activity			ovary(2)	2				GBM - Glioblastoma multiforme(265;0.0269)		GGAGACGATGCCGTGGGCCAC	0.557													41	93					0	0	0.009718	0	0		G	25042973	G	G	25042973	3	3	65	1	0	0	0	0	1	0	0	0	4038	739	26	5	133	5	CTSG	14	25042973	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	422976	25042973	82306567	447	43868											
LRFN5	145581	broad.mit.edu	37	chr14	42356114	42356114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttattacacctcatgctttcGctgacctacgaaatttgagg	10	14	7	10	2	1	2	1	2	0	0	2	3	1	2	2	1	3	2	2	1	4	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:42356114G>A	uc001wvm.2	+	3	1484	c.286G>A	c.(286-288)GCT>ACT	p.A96T	LRFN5_uc010ana.2_Missense_Mutation_p.A96T	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	96	Extracellular (Potential).|LRR 2.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TCATGCTTTCGCTGACCTACG	0.348										HNSCC(30;0.082)			29	46					0	0	0.009535	0	0		A	42356114	A	A	42356114	3	1	65	1	0	0	0	0	1	0	0	0	8959	1087	38	1	288	1	LRFN5	14	42356114	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	17313141	42356114	64993426	448	43869											
SOS2	6655	broad.mit.edu	37	chr14	50616749	50616749	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagatcagactccaaaagTgtcagctgacgtgcaatttc	14	10	8	9	1	2	3	2	1	0	2	4	3	3	3	1	0	2	2	1	0	5	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:50616749T>C	uc001wxs.3	-	14	2459	c.2361A>G	c.(2359-2361)ACA>ACG	p.T787T	SOS2_uc010tql.1_Silent_p.T754T|SOS2_uc010tqm.1_RNA	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	787	Ras-GEF.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					ACTCCAAAAGTGTCAGCTGAC	0.353													54	99					0	0	0.00361	0	0		C	50616749	C	C	50616749	2	2	65	1	0	0	0	0	0	0	0	1	14962	1683	59	3		3	SOS2	14	50616749	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	8260635	50616749	56732791	449	43870											
NAA30	122830	broad.mit.edu	37	chr14	57863536	57863536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgcacaaaaagatgttcCgcagaggttatatagccatg	15	10	9	7	1	0	2	0	0	0	2	1	2	1	2	2	1	2	4	2	1	6	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:57863536C>T	uc001xcx.3	+	3	992	c.838C>T	c.(838-840)CGC>TGC	p.R280C	NAA30_uc010trk.1_Missense_Mutation_p.R22C|NAA30_uc010aow.2_RNA	NM_001011713	NP_001011713	Q147X3	NAA30_HUMAN	N-acetyltransferase 12	280	N-acetyltransferase.					cytoplasm	peptide alpha-N-acetyltransferase activity			skin(1)	1						AAAGATGTTCCGCAGAGGTTA	0.373													23	65					0	0	0.00333	0	0		T	57863536	T	T	57863536	3	4	65	1	0	0	0	0	1	0	0	0	10140	652	23	1	844	1	NAA30	14	57863536	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	7246787	57863536	49486004	450	43871											
C14orf135	64430	broad.mit.edu	37	chr14	60582091	60582091	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccgaaatcccttttatccGaaggatgtgcaaactgtgac	11	12	8	10	2	0	1	0	1	0	0	3	4	3	2	3	1	2	1	3	1	4	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:60582091G>A	uc001xer.3	+	3	1089	c.567G>A	c.(565-567)CCG>CCA	p.P189P	C14orf135_uc001xeq.2_Silent_p.P189P|C14orf135_uc010apm.2_5'Flank	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	423						integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		CCTTTTATCCGAAGGATGTGC	0.353													44	122					0	0	0.009718	0	0		A	60582091	A	A	60582091	2	1	65	1	0	0	0	0	0	0	0	1	1748	1045	37	1		1	C14orf135	14	60582091	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2718555	60582091	46767449	451	43872											
TRMT5	57570	broad.mit.edu	37	chr14	61446378	61446378	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcaagttttgtcatgcctcGgacatcagaaggtggtgaaa	12	11	11	7	1	3	2	3	1	0	1	4	3	3	3	1	3	1	1	1	3	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:61446378G>A	uc001xff.3	-	2	329	c.238C>T	c.(238-240)CGA>TGA	p.R80*	SLC38A6_uc001xfg.1_5'Flank|SLC38A6_uc001xfh.1_5'Flank|SLC38A6_uc001xfi.2_5'Flank|SLC38A6_uc001xfj.1_5'Flank|SLC38A6_uc001xfk.2_5'Flank|SLC38A6_uc010trz.1_5'Flank	NM_020810	NP_065861	Q32P41	TRMT5_HUMAN	tRNA methyltransferase 5	80						cytoplasm	tRNA (guanine-N1-)-methyltransferase activity			central_nervous_system(2)|large_intestine(1)	3				OV - Ovarian serous cystadenocarcinoma(108;0.0873)		GTCATGCCTCGGACATCAGAA	0.378													50	181					0	0	0.00361	0	0		A	61446378	A	A	61446378	4	1	65	1	0	0	0	0	0	1	0	0	16593	1124	39	1	1307	1	TRMT5	14	61446378	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	864287	61446378	45903162	452	43873											
C14orf43	91748	broad.mit.edu	37	chr14	74205773	74205773	+	Frame_Shift_Del	DEL	G	-	-																															tctgggttcatatctgggttGggggggaaggggtagggtgc																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:74205773delG	uc001xot.2	-	2	1722	c.939delC	c.(937-939)CCCfs	p.P313fs	C14orf43_uc001xou.2_Frame_Shift_Del_p.P313fs|C14orf43_uc010tud.1_Frame_Shift_Del_p.P313fs|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	313	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		TATCTGGGTTGGGGGGGAAGG	0.662													6	10	---	---	---	---						.	-	74205773	-	-	74205773	7	5	65	1	0	1	0	1	0	0	0	0	1777	1335	47	0	2242	0	C14orf43	14	74205773	Frame_Shift_Del	DEL	G	TCGA-BR-8360-01A-11D-2340-08	12759395	74205773	33143767	453	43874											
C14orf115	55237	broad.mit.edu	37	chr14	74823805	74823805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcctggagctgcgggccCgcaccgtggtagagatgctg	6	7	16	12	3	1	1	1	0	0	1	1	3	1	2	3	3	4	4	3	3	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:74823805C>T	uc001xpw.3	+	2	510	c.319C>T	c.(319-321)CGC>TGC	p.R107C		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	107					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		GCTGCGGGCCCGCACCGTGGT	0.642													7	23					0	0	0.001984	0	0		T	74823805	T	T	74823805	3	4	65	1	0	0	0	0	1	0	0	0	1743	652	23	1	321	1	C14orf115	14	74823805	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	618032	74823805	32525735	454	43875											
LTBP2	4053	broad.mit.edu	37	chr14	74978021	74978021	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggagccaggggaattgacGcatctcccatcagggcaggt	10	7	14	10	1	2	1	1	1	1	0	3	3	2	3	2	5	1	2	2	5	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:74978021G>A	uc001xqa.2	-	19	3342	c.2955C>T	c.(2953-2955)TGC>TGT	p.C985C		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	985	EGF-like 7; calcium-binding (Potential).|Cys-rich.				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GGGAATTGACGCATCTCCCAT	0.592													30	70					0	0	0.008361	0	0		A	74978021	A	A	74978021	2	1	65	1	0	0	0	0	0	0	0	1	9092	1079	38	1		1	LTBP2	14	74978021	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	154216	74978021	32371519	455	43876											
STON2	85439	broad.mit.edu	37	chr14	81743821	81743821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcattgaggcccaggcGgcactctgcgagcccagaca	9	6	13	13	2	2	2	1	1	1	1	2	4	2	2	2	3	2	1	2	3	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:81743821G>A	uc010tvu.1	-	4	2035	c.1834C>T	c.(1834-1836)CGC>TGC	p.R612C	STON2_uc001xvk.1_Missense_Mutation_p.R612C|STON2_uc010tvt.1_Missense_Mutation_p.R409C	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	612	MHD.				endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		AGGCCCAGGCGGCACTCTGCG	0.517													17	34					0	0	0.00499	0	0		A	81743821	A	A	81743821	3	1	65	1	0	0	0	0	1	0	0	0	15343	1116	39	1	889	1	STON2	14	81743821	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	6765800	81743821	25605719	456	43877											
ATXN3	4287	broad.mit.edu	37	chr14	92560113	92560113	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcgatcctgagcctctgAtactctggactgttgaacag	9	11	11	10	1	2	3	0	3	2	0	4	6	3	5	2	2	3	1	2	2	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:92560113A>G	uc001yac.3	-	4	366	c.297T>C	c.(295-297)TAT>TAC	p.Y99Y	ATXN3_uc010aug.2_Silent_p.Y84Y|ATXN3_uc001yad.3_Silent_p.Y44Y|ATXN3_uc010auh.2_Intron|ATXN3_uc001yae.3_Intron|ATXN3_uc010twl.1_Intron	NM_004993	NP_004984	P54252	ATX3_HUMAN	ataxin 3 reference isoform	99	Josephin.				cell death|nervous system development|nucleotide-excision repair|regulation of transcription, DNA-dependent|synaptic transmission|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleoplasm	cysteine-type peptidase activity|protein binding				0		all_cancers(154;0.0768)		COAD - Colon adenocarcinoma(157;0.224)		TGAGCCTCTGATACTCTGGAC	0.328													33	58					0	0	0.012213	0	0		G	92560113	G	G	92560113	2	3	65	1	0	0	0	0	0	0	0	1	1214	340	12	3		3	ATXN3	14	92560113	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	10816292	92560113	14789427	457	43878											
KIAA1409	57578	broad.mit.edu	37	chr14	94044213	94044213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttgcctctgatcctggccGacgagttcagcacaatatgc	8	11	10	12	2	2	1	1	1	1	0	3	3	3	1	3	1	3	3	3	1	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:94044213G>A	uc001ybv.1	+	15	1789	c.1706G>A	c.(1705-1707)CGA>CAA	p.R569Q	KIAA1409_uc001ybs.1_Missense_Mutation_p.R569Q	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	746						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GATCCTGGCCGACGAGTTCAG	0.443													58	123					0	0	0.00361	0	0		A	94044213	A	A	94044213	3	1	65	1	0	0	0	0	1	0	0	0	8246	1058	37	1	1764	1	KIAA1409	14	94044213	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1484100	94044213	13305327	458	43879											
KIAA1409	57578	broad.mit.edu	37	chr14	94121610	94121610	+	Frame_Shift_Del	DEL	G	-	-																															acaaaaagaatttaccagcaGggggtgctatgattcgctgt																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:94121610delG	uc001ybv.1	+	37	6048	c.5965delG	c.(5965-5967)GGGfs	p.G1989fs	KIAA1409_uc001ybs.1_Frame_Shift_Del_p.G1967fs	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2144						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TTTACCAGCAGGGGGTGCTAT	0.423													34	72	---	---	---	---						.	-	94121610	-	-	94121610	7	5	65	1	0	1	0	1	0	0	0	0	8246	1000	35	0	6041	0	KIAA1409	14	94121610	Frame_Shift_Del	DEL	G	TCGA-BR-8360-01A-11D-2340-08	77397	94121610	13227930	459	43880											
AHNAK2	113146	broad.mit.edu	37	chr14	105418203	105418203	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggaggggagactcacgtcGgcctccactttgggtgcaga	8	8	15	10	2	1	2	1	0	0	2	3	4	2	3	2	5	1	1	2	5	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr14:105418203G>A	uc010axc.1	-	7	3705	c.3585C>T	c.(3583-3585)GCC>GCT	p.A1195A	AHNAK2_uc001ypx.2_Silent_p.A1095A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1195						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GACTCACGTCGGCCTCCACTT	0.622													25	155					0	0	0.00361	0	0		A	105418203	A	A	105418203	2	1	65	1	0	0	0	0	0	0	0	1	415	1103	39	1		1	AHNAK2	14	105418203	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	11296593	105418203	1931337	460	43881											
OCA2	4948	broad.mit.edu	37	chr15	28273201	28273201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtaaacaggtatgcaccGtgacctggaaagcaagagag	15	6	13	7	1	0	2	0	1	0	1	0	4	0	3	2	3	3	4	2	3	5	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:28273201G>A	uc001zbh.3	-	4	441	c.331C>T	c.(331-333)CGG>TGG	p.R111W	OCA2_uc010ayv.2_Missense_Mutation_p.R111W	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	111	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		GGTATGCACCGTGACCTGGAA	0.488									Oculocutaneous_Albinism				20	45					0	0	0.010504	0	0		A	28273201	A	A	28273201	3	1	65	1	0	0	0	0	1	0	0	0	10834	1144	40	1	2269	1	OCA2	15	28273201	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08		28273201	74258191	461	43882											
GJD2	57369	broad.mit.edu	37	chr15	35044979	35044979	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaaccctgggacactaaaGccatagagaaaatattggcc	16	7	8	10	0	0	1	0	0	0	1	0	3	0	2	3	2	3	0	3	2	8	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:35044979G>A	uc001zis.1	-	2	666	c.666C>T	c.(664-666)GGC>GGT	p.G222G	uc001zit.1_5'Flank	NM_020660	NP_065711	Q9UKL4	CXD2_HUMAN	gap junction protein, delta 2, 36kDa	222	Extracellular (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_lung(180;9.67e-07)		all cancers(64;2.75e-18)|GBM - Glioblastoma multiforme(113;1.9e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		GGACACTAAAGCCATAGAGAA	0.488													17	35					0	0	0.004007	0	0		A	35044979	A	A	35044979	2	1	65	1	0	0	0	0	0	0	0	1	6432	958	34	2		2	GJD2	15	35044979	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	6771778	35044979	67486413	462	43883											
SPRED1	161742	broad.mit.edu	37	chr15	38643327	38643327	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactacagacatcctgacaTgtggaaaaatgacttggaaa	17	8	9	7	0	0	4	0	2	0	2	1	6	1	6	1	2	1	0	1	2	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:38643327T>C	uc001zka.3	+	7	1132	c.797T>C	c.(796-798)ATG>ACG	p.M266T		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	266	KBD.				inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		CATCCTGACATGTGGAAAAAT	0.393									Legius_syndrome				26	61					0	0	0.007291	0	0		C	38643327	C	C	38643327	3	2	65	1	0	0	0	0	1	0	0	0	15117	1464	51	3	823	3	SPRED1	15	38643327	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	3598348	38643327	63888065	463	43884											
BUB1B	701	broad.mit.edu	37	chr15	40468681	40468681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacacttctgttacaggggCgtttatgcaatgagcctttg	9	14	10	8	1	1	1	0	1	1	0	1	1	1	1	1	2	4	3	1	2	4	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:40468681C>T	uc001zkx.3	+	5	600	c.388C>T	c.(388-390)CGT>TGT	p.R130C	BUB1B_uc010ucl.1_5'UTR	NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	130	BUB1 N-terminal.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		GTTACAGGGGCGTTTATGCAA	0.398			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				13	50					0	0	0.003163	0	0		T	40468681	T	T	40468681	3	4	65	1	0	0	0	0	1	0	0	0	1574	768	27	1	406	1	BUB1B	15	40468681	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1825354	40468681	62062711	464	43885											
IVD	3712	broad.mit.edu	37	chr15	40703479	40703479	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgatcagtggtgagtacatCggagccctggccatgagtga	9	9	14	9	1	1	4	1	4	0	0	2	5	1	5	2	3	2	1	2	3	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:40703479C>T	uc001zls.3	+	5	820	c.486C>T	c.(484-486)ATC>ATT	p.I162I	IVD_uc001zlq.2_Silent_p.I132I	NM_002225	NP_002216	P26440	IVD_HUMAN	isovaleryl Coenzyme A dehydrogenase isoform 1	159					leucine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|isovaleryl-CoA dehydrogenase activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;1.52e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.65e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0808)		GTGAGTACATCGGAGCCCTGG	0.532													107	200					0	0	0.00361	0	0		T	40703479	T	T	40703479	2	4	65	1	0	0	0	0	0	0	0	1	7944	874	31	1		1	IVD	15	40703479	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	234798	40703479	61827913	465	43886											
MGA	23269	broad.mit.edu	37	chr15	42032360	42032360	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cactgcaacaaatcgccctgGgaagaatctgaaggcgtttg	12	8	11	10	2	1	2	0	1	1	1	2	3	1	3	1	2	2	2	1	2	5	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:42032360G>T	uc010ucy.1	+	14	4725	c.4544G>T	c.(4543-4545)GGG>GTG	p.G1515V	MGA_uc010ucz.1_Missense_Mutation_p.G1515V|MGA_uc010uda.1_Missense_Mutation_p.G131V	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1515						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		AATCGCCCTGGGAAGAATCTG	0.512													17	30					1.99824e-07	2.07707e-07	0.00499	1	0		T	42032360	T	T	42032360	3	4	65	1	0	0	0	0	1	0	0	0	9558	1232	43	5	4594	5	MGA	15	42032360	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1328881	42032360	60499032	466	43887											
PARP16	54956	broad.mit.edu	37	chr15	65578609	65578610	+	Frame_Shift_Del	DEL	AC	-	-																															accagggcttcaaagtccttAcagtcgccgcgggcgtagga																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:65578609_65578610delAC	uc002aoo.2	-	1	409_410	c.155_156delGT	c.(154-156)TGTfs	p.C52fs	PARP16_uc002aop.2_Frame_Shift_Del_p.C52fs|PARP16_uc002aoq.2_Frame_Shift_Del_p.C52fs	NM_017851	NP_060321	Q8N5Y8	PAR16_HUMAN	poly (ADP-ribose) polymerase family, member 16	52						integral to membrane	NAD+ ADP-ribosyltransferase activity			lung(2)	2						CAAAGTCCTTACAGTCGCCGCG	0.663													7	10	---	---	---	---						.	-	65578610	-	-	65578609	7	5	65	1	0	1	0	1	0	0	0	0	11479	389	14	0	839	0	PARP16	15	65578609	Frame_Shift_Del	DEL	AC	TCGA-BR-8360-01A-11D-2340-08	23546249	65578609	36952783	467	43888											
MYO9A	4649	broad.mit.edu	37	chr15	72146864	72146864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcggtcttcactggtcaaaCgggacagttcaaccccaaat	11	10	8	12	2	4	0	3	0	1	0	5	1	4	1	2	3	2	1	2	3	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:72146864C>T	uc002atl.3	-	35	6673	c.6200G>A	c.(6199-6201)CGT>CAT	p.R2067H	MYO9A_uc002atj.2_5'UTR|MYO9A_uc002atk.2_Missense_Mutation_p.R862H	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	2067	Tail.|Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						ACTGGTCAAACGGGACAGTTC	0.368													25	91					0	0	0.00333	0	0		T	72146864	T	T	72146864	3	4	65	1	0	0	0	0	1	0	0	0	10102	536	19	1	1478	1	MYO9A	15	72146864	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	6568255	72146864	30384528	468	43889											
PML	5371	broad.mit.edu	37	chr15	74325013	74325013	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcccggggcacaccccgTgccagtgtacgccttctcca	6	7	11	17	3	1	0	0	0	1	0	2	0	1	0	6	2	3	2	6	2	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:74325013T>C	uc002awv.2	+	5	1495	c.1355T>C	c.(1354-1356)GTG>GCG	p.V452A	PML_uc002awm.2_Missense_Mutation_p.V452A|PML_uc002awl.2_Intron|PML_uc002awj.1_Intron|PML_uc002awk.2_Missense_Mutation_p.V452A|PML_uc002awn.2_Missense_Mutation_p.V452A|PML_uc002awo.2_Intron|PML_uc002awp.2_Intron|PML_uc002awq.2_Missense_Mutation_p.V452A|PML_uc002awr.2_Missense_Mutation_p.V452A|PML_uc002aws.2_Intron|PML_uc002awt.2_Intron|PML_uc002awu.2_Intron|PML_uc010ule.1_Missense_Mutation_p.V13A|PML_uc002awx.2_Intron|PML_uc002awy.2_Intron	NM_033238	NP_150241	P29590	PML_HUMAN	promyelocytic leukemia protein isoform 1	452					cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction resulting in induction of apoptosis|endoplasmic reticulum calcium ion homeostasis|induction of apoptosis|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|maintenance of protein location in nucleus|negative regulation of angiogenesis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of mitotic cell cycle|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of telomerase activity|negative regulation of telomere maintenance via telomerase|negative regulation of transcription, DNA-dependent|negative regulation of translation in response to oxidative stress|PML body organization|PML body organization|positive regulation of defense response to virus by host|positive regulation of histone deacetylation|protein complex assembly|protein stabilization|protein targeting|regulation of calcium ion transport into cytosol|regulation of protein phosphorylation|response to hypoxia|response to virus|transcription, DNA-dependent	cytoplasm|cytosol|early endosome membrane|extrinsic to endoplasmic reticulum membrane|insoluble fraction|nuclear matrix|nuclear membrane|nucleolus|nucleus|PML body	cobalt ion binding|DNA binding|protein binding|protein binding|protein heterodimerization activity|protein homodimerization activity|SUMO binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding|zinc ion binding			central_nervous_system(2)|kidney(2)|breast(1)	5						GCACACCCCGTGCCAGTGTAC	0.627			T	RARA|PAX5	APL|ALL								12	28					0	0	0.001368	0	0		C	74325013	C	C	74325013	3	2	65	1	0	0	0	0	1	0	0	0	12154	1696	59	3	1373	3	PML	15	74325013	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	2178149	74325013	28206379	469	43890											
ADAMTS7	11173	broad.mit.edu	37	chr15	79089073	79089073	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agacgcctcagccgtggccgCcgccactgctgccgctgctc	4	6	12	19	5	1	1	1	0	0	1	2	1	1	1	6	1	4	3	6	1	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:79089073C>T	uc002bej.3	-	4	889	c.678G>A	c.(676-678)CGG>CGA	p.R226R	ADAMTS7_uc010und.1_Silent_p.R226R|ADAMTS7_uc002bek.1_Silent_p.R226R	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	226					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						gccgtggccgccgccactgct	0.433													10	37					0	0	0.010729	0	0		T	79089073	T	T	79089073	2	4	65	1	0	0	0	0	0	0	0	1	271	726	26	2		2	ADAMTS7	15	79089073	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	4764060	79089073	23442319	470	43891											
ADAMTS7	11173	broad.mit.edu	37	chr15	79090417	79090417	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcactgtccaggggctcAatgaagtagtcctcgttgga	8	9	15	9	1	1	1	1	1	0	0	4	2	3	2	2	5	0	4	2	5	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:79090417A>G	uc002bej.3	-	3	706	c.495T>C	c.(493-495)ATT>ATC	p.I165I	ADAMTS7_uc010und.1_Silent_p.I165I|ADAMTS7_uc002bek.1_Silent_p.I165I	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	165					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						CCAGGGGCTCAATGAAGTAGT	0.642													19	42					0	0	0.007413	0	0		G	79090417	G	G	79090417	2	3	65	1	0	0	0	0	0	0	0	1	271	126	5	3		3	ADAMTS7	15	79090417	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	1344	79090417	23440975	471	43892											
AKAP13	11214	broad.mit.edu	37	chr15	86123175	86123177	+	In_Frame_Del	DEL	GAA	-	-																															atttagcccttcttgggctgGaagaagatgtaatgccacac																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:86123175_86123177delGAA	uc002blv.1	+	7	2046_2048	c.1876_1878delGAA	c.(1876-1878)GAAdel	p.E627del	AKAP13_uc002blt.1_In_Frame_Del_p.E627del|AKAP13_uc002blu.1_In_Frame_Del_p.E627del|AKAP13_uc010bne.1_5'Flank	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	627					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TCTTGGGCTGGAAGAAGATGTAA	0.433													37	84	---	---	---	---						.	-	86123177	-	-	86123175	7	5	65	1	0	1	0	1	0	0	0	0	449	1175	41	0	1898	0	AKAP13	15	86123175	In_Frame_Del	DEL	GAA	TCGA-BR-8360-01A-11D-2340-08	7032758	86123175	16408217	472	43893											
C15orf58	390637	broad.mit.edu	37	chr15	90785087	90785087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgagtaattctgtgggcccGgaagtccagctttgggataa	9	10	13	9	2	1	0	0	0	1	0	2	3	2	2	3	3	1	2	3	3	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:90785087G>A	uc002bpc.2	+	4	1126	c.947G>A	c.(946-948)CGG>CAG	p.R316Q		NM_001013657	NP_001013679	Q6ZNW5	VTC2_HUMAN	hypothetical protein LOC390637	316					glucose metabolic process	cytoplasm	GDP-D-glucose phosphorylase activity				0						CTGTGGGCCCGGAAGTCCAGC	0.557													35	58					0	0	0.002836	0	0		A	90785087	A	A	90785087	3	1	65	1	0	0	0	0	1	0	0	0	1809	1116	39	1	949	1	C15orf58	15	90785087	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4661912	90785087	11746305	473	43894											
TM2D3	80213	broad.mit.edu	37	chr15	102182749	102182749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcaggacgtctatcagcGtccatattcccaggccaccg	9	8	10	14	3	2	1	1	1	1	0	4	2	4	2	4	2	2	1	4	2	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr15:102182749G>A	uc002bxi.2	-	6	707	c.677C>T	c.(676-678)ACG>ATG	p.T226M	TM2D3_uc010usg.1_Intron|TM2D3_uc002bxh.2_Missense_Mutation_p.T161M|TM2D3_uc002bxj.2_Missense_Mutation_p.T200M|TM2D3_uc002bxk.2_Missense_Mutation_p.T161M	NM_078474	NP_510883	Q9BRN9	TM2D3_HUMAN	TM2 domain containing 3 isoform a	226	Helical; (Potential).					integral to membrane				ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GTCTATCAGCGTCCATATTCC	0.557													24	52					0	0	0.00278	0	0		A	102182749	A	A	102182749	3	1	65	1	0	0	0	0	1	0	0	0	15990	1145	40	1	70	1	TM2D3	15	102182749	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	11397662	102182749	348643	474	43895											
PDIA2	64714	broad.mit.edu	37	chr16	335551	335551	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggccgacaatgagcacgtgCtgcagtactttggactcaag	10	8	12	11	3	1	1	1	1	0	0	1	3	1	2	1	2	4	4	1	2	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:335551C>T	uc002cgn.1	+	12	2075	c.967C>T	c.(967-969)CTG>TTG	p.L323L	PDIA2_uc010bqt.1_Silent_p.L168L|PDIA2_uc002cgo.1_Silent_p.L323L	NM_006849	NP_006840	Q13087	PDIA2_HUMAN	protein disulfide isomerase A2 precursor	323					apoptosis|cell redox homeostasis|glycerol ether metabolic process|protein folding|protein retention in ER lumen|response to hypoxia	endoplasmic reticulum lumen	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity|steroid binding			central_nervous_system(1)|skin(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				TGAGCACGTGCTGCAGTACTT	0.627													14	30					0	0	0.00499	0	0		T	335551	T	T	335551	2	4	65	1	0	0	0	0	0	0	0	1	11687	796	28	2		2	PDIA2	16	335551	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08		335551	90019202	475	43896											
RHBDL1	9028	broad.mit.edu	37	chr16	726836	726836	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggtggaccgccgctggtaCttctaccgtcaccgcagctg	6	8	13	14	4	2	0	1	0	1	0	2	2	2	1	4	3	3	4	4	3	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:726836C>T	uc002cis.1	+	2	588	c.561C>T	c.(559-561)TAC>TAT	p.Y187Y	RHBDL1_uc002cir.1_Silent_p.Y122Y|RHBDL1_uc010uun.1_Silent_p.Y122Y	NM_003961	NP_003952	O75783	RHBL1_HUMAN	rhomboid protease 1	187					proteolysis|signal transduction	integral to plasma membrane|membrane fraction	calcium ion binding|serine-type endopeptidase activity				0		Hepatocellular(780;0.0218)				GCCGCTGGTACTTCTACCGTC	0.687													28	55					0	0	0.007291	0	0		T	726836	T	T	726836	2	4	65	1	0	0	0	0	0	0	0	1	13346	576	20	4		4	RHBDL1	16	726836	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	391285	726836	89627917	476	43897											
WDR24	84219	broad.mit.edu	37	chr16	737628	737628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgaacatcctctcgcacCggtcgggacgccggatgtcc	6	8	12	15	5	1	1	0	1	1	0	5	3	3	3	4	3	1	1	4	3	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:737628C>T	uc002ciz.1	-	2	1353	c.593G>A	c.(592-594)CGG>CAG	p.R198Q		NM_032259	NP_115635	Q96S15	WDR24_HUMAN	WD repeat domain 24	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(1)|central_nervous_system(1)	2		Hepatocellular(780;0.0218)				CCTCTCGCACCGGTCGGGACG	0.627													8	15					0	0	0.006214	0	0		T	737628	T	T	737628	3	4	65	1	0	0	0	0	1	0	0	0	17307	652	23	1	1811	1	WDR24	16	737628	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	10792	737628	89617125	477	43898											
MLST8	64223	broad.mit.edu	37	chr16	2256622	2256622	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacggccgctggatgtacacGggcggcgaggactgcacagc	8	4	17	12	5	0	0	0	0	0	0	0	4	0	2	1	5	3	3	1	5	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:2256622G>A	uc002coz.2	+	4	425	c.306G>A	c.(304-306)ACG>ACA	p.T102T	MLST8_uc002coy.2_Silent_p.T102T|MLST8_uc002cpa.2_5'UTR|MLST8_uc002cpb.2_Silent_p.T101T|MLST8_uc010uvx.1_Silent_p.T36T|MLST8_uc002cpc.2_Silent_p.T102T|MLST8_uc002cpd.2_Silent_p.T36T|MLST8_uc002cpe.2_Silent_p.T102T|MLST8_uc010uvy.1_Silent_p.T102T|MLST8_uc002cpg.2_Silent_p.T121T|MLST8_uc002cph.2_RNA|MLST8_uc002cpf.2_Silent_p.T102T	NM_022372	NP_071767	Q9BVC4	LST8_HUMAN	G protein beta subunit-like	102	WD 3.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|T cell costimulation	cytosol	protein binding				0						GGATGTACACGGGCGGCGAGG	0.622													33	97					0	0	0.003271	0	0		A	2256622	A	A	2256622	2	1	65	1	0	0	0	0	0	0	0	1	9652	1103	39	1		1	MLST8	16	2256622	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1518994	2256622	88098131	478	43899											
E4F1	1877	broad.mit.edu	37	chr16	2282763	2282763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctctctgcagatgagcGcccctacaagtgctccaagt	8	10	10	13	1	2	2	0	1	2	1	4	2	3	2	3	1	4	3	3	1	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:2282763G>A	uc002cpm.2	+	6	785	c.737G>A	c.(736-738)CGC>CAC	p.R246H	E4F1_uc010bsi.2_Missense_Mutation_p.R246H|E4F1_uc010bsj.2_Missense_Mutation_p.R246H	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	246	Mediates dimerization, DNA-binding, transcription repression of CCNA2 and interaction with HMGA2.				cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						GCAGATGAGCGCCCCTACAAG	0.642													19	46					0	0	0.007413	0	0		A	2282763	A	A	2282763	3	1	65	1	0	0	0	0	1	0	0	0	4880	1087	38	1	759	1	E4F1	16	2282763	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	26141	2282763	88071990	479	43900											
CREBBP	1387	broad.mit.edu	37	chr16	3828749	3828749	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttccactttcttagcataGgctaccaggttttccatgcg	7	14	7	13	1	1	0	0	0	1	0	3	0	3	0	4	2	3	3	4	2	3	7			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:3828749G>T	uc002cvv.2	-	9	2097	c.1893C>A	c.(1891-1893)GCC>GCA	p.A631A	CREBBP_uc002cvw.2_Silent_p.A593A	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	631	KIX.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TCTTAGCATAGGCTACCAGGT	0.502			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				28	107					7.38237e-10	7.79187e-10	0.00632	1	0		T	3828749	T	T	3828749	2	4	65	1	0	0	0	0	0	0	0	1	3864	987	35	5		5	CREBBP	16	3828749	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1545986	3828749	86526004	480	43901											
USP7	7874	broad.mit.edu	37	chr16	8988969	8988969	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccactgtgacaagcatctcAttctctttgtctatgtccac	8	14	6	13	0	3	1	1	1	3	0	6	1	4	1	2	0	1	1	2	0	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:8988969A>G	uc002czl.2	-	28	3157	c.2958T>C	c.(2956-2958)AAT>AAC	p.N986N	USP7_uc010uyk.1_Silent_p.N887N|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Silent_p.N887N|USP7_uc002czk.2_Silent_p.N970N	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	986					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						CAAGCATCTCATTCTCTTTGT	0.493													76	145					0	0	0.00361	0	0		G	8988969	G	G	8988969	2	3	65	1	0	0	0	0	0	0	0	1	17114	214	8	3		3	USP7	16	8988969	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	5160220	8988969	81365784	481	43902											
C16orf72	29035	broad.mit.edu	37	chr16	9210617	9210617	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgaatgctagtcgaaggAgaaatggactccatgatgtc	13	9	12	7	2	0	2	0	1	0	1	4	7	1	3	1	2	1	1	1	2	4	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:9210617A>C	uc002czm.2	+	4	1041	c.676A>C	c.(676-678)AGA>CGA	p.R226R		NM_014117	NP_054836	Q14CZ0	CP072_HUMAN	hypothetical protein LOC29035	226										large_intestine(1)	1						TAGTCGAAGGAGAAATGGACT	0.478													51	91					0	0	0.00361	0	0		C	9210617	C	C	9210617	2	2	65	1	0	0	0	0	0	0	0	1	1834	296	11	5		5	C16orf72	16	9210617	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	221648	9210617	81144136	482	43903											
UMOD	7369	broad.mit.edu	37	chr16	20359631	20359631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatactgcactcctcacacGtcccctccacggagctgggg	7	8	9	17	2	1	0	1	0	0	0	4	1	4	1	4	3	3	2	4	3	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:20359631G>A	uc002dgz.2	-	4	1016	c.887C>T	c.(886-888)ACG>ATG	p.T296M	UMOD_uc002dha.2_Missense_Mutation_p.T296M|UMOD_uc002dhb.2_Missense_Mutation_p.T329M	NM_003361	NP_003352	P07911	UROM_HUMAN	uromodulin precursor	296					cellular defense response|negative regulation of cell proliferation	anchored to membrane|apical plasma membrane|basolateral plasma membrane|cilium membrane|extrinsic to membrane|primary cilium|spindle pole	calcium ion binding			ovary(1)|skin(1)	2						CTCCTCACACGTCCCCTCCAC	0.572													35	94					0	0	0.003271	0	0		A	20359631	A	A	20359631	3	1	65	1	0	0	0	0	1	0	0	0	17005	1145	40	1	1067	1	UMOD	16	20359631	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	11149014	20359631	69995122	483	43904											
RBBP6	5930	broad.mit.edu	37	chr16	24581781	24581781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggtcagacgaaaagtgactgGaactgaaggatccagctcaa	15	6	12	8	1	2	3	2	2	0	1	3	6	3	5	1	3	2	1	1	3	5	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:24581781G>A	uc002dmh.2	+	17	4810	c.3770G>A	c.(3769-3771)GGA>GAA	p.G1257E	RBBP6_uc010vcb.1_Missense_Mutation_p.G1124E|RBBP6_uc002dmi.2_Missense_Mutation_p.G1223E|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Missense_Mutation_p.G1090E	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1257					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		AAAGTGACTGGAACTGAAGGA	0.408													11	38					0	0	0.001855	0	0		A	24581781	A	A	24581781	3	1	65	1	0	0	0	0	1	0	0	0	13128	1174	41	4	3890	4	RBBP6	16	24581781	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4222150	24581781	65772972	484	43905											
ZNF689	115509	broad.mit.edu	37	chr16	30616471	30616471	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttgccacactggtcacaaAcataggggcactcgccggag	10	7	12	12	2	1	0	1	0	0	0	2	1	1	1	2	4	2	2	2	4	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:30616471A>G	uc002dyx.2	-	3	937	c.617T>C	c.(616-618)GTT>GCT	p.V206A	ZNF689_uc010bzy.2_5'UTR	NM_138447	NP_612456	Q96CS4	ZN689_HUMAN	zinc finger protein HIT-39	206	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			CTGGTCACAAACATAGGGGCA	0.582													16	56					0	0	0.004007	0	0		G	30616471	G	G	30616471	3	3	65	1	0	0	0	0	1	0	0	0	18119	43	2	3	889	3	ZNF689	16	30616471	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	6034690	30616471	59738282	485	43906											
ITGAD	3681	broad.mit.edu	37	chr16	31405644	31405644	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctttgggcagagcgtggTgcagttcggtggatctcggt	4	11	18	8	4	1	1	0	0	1	1	3	2	1	2	0	6	2	4	0	6	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:31405644T>C	uc002ebv.1	+	2	168	c.119T>C	c.(118-120)GTG>GCG	p.V40A	ITGAD_uc010vfl.1_Missense_Mutation_p.V40A|ITGAD_uc010cap.1_Missense_Mutation_p.V40A	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	40	Extracellular (Potential).|FG-GAP 1.				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						CAGAGCGTGGTGCAGTTCGGT	0.562													7	32					0	0	0.001984	0	0		C	31405644	C	C	31405644	3	2	65	1	0	0	0	0	1	0	0	0	7900	1696	59	3	125	3	ITGAD	16	31405644	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	789173	31405644	58949109	486	43907											
N4BP1	9683	broad.mit.edu	37	chr16	48595876	48595876	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaaaacagtttcatctctAgaaatattcagccctgtggc	12	12	7	10	0	3	1	2	0	1	1	4	1	3	1	1	1	3	2	1	1	5	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:48595876A>G	uc002efp.2	-	2	915	c.678T>C	c.(676-678)TCT>TCC	p.S226S		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	226					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				TTTCATCTCTAGAAATATTCA	0.408													13	45					0	0	0.00245	0	0		G	48595876	G	G	48595876	2	3	65	1	0	0	0	0	0	0	0	1	10127	407	15	3		3	N4BP1	16	48595876	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	17190232	48595876	41758877	487	43908											
SALL1	6299	broad.mit.edu	37	chr16	51173150	51173150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgtttttaaatttaccccGgtctctaaaagggaagagga	13	12	10	6	1	1	1	0	0	1	1	2	3	1	3	2	3	1	1	2	3	6	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:51173150G>A	uc010vgs.1	-	2	3014	c.2983C>T	c.(2983-2985)CGG>TGG	p.R995W	SALL1_uc010vgr.1_Missense_Mutation_p.R898W|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	995					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			AATTTACCCCGGTCTCTAAAA	0.433													32	54					0	0	0.012213	0	0		A	51173150	A	A	51173150	3	1	65	1	0	0	0	0	1	0	0	0	13835	1115	39	1	999	1	SALL1	16	51173150	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2577274	51173150	39181603	488	43909											
RSPRY1	89970	broad.mit.edu	37	chr16	57269043	57269043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttctactcaggcacaggCgtcttgctctgttgaagcaa	8	14	9	10	1	4	1	1	1	3	0	4	1	4	1	0	2	3	4	0	2	3	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:57269043C>T	uc002elb.2	+	14	1815	c.1537C>T	c.(1537-1539)CGT>TGT	p.R513C	RSPRY1_uc002elc.2_Missense_Mutation_p.R513C|RSPRY1_uc002eld.2_Missense_Mutation_p.R513C	NM_133368	NP_588609	Q96DX4	RSPRY_HUMAN	ring finger and SPRY domain containing 1	513						extracellular region	zinc ion binding			ovary(1)	1						CAGGCACAGGCGTCTTGCTCT	0.433													12	27					0	0	0.001368	0	0		T	57269043	T	T	57269043	3	4	65	1	0	0	0	0	1	0	0	0	13738	768	27	1	1587	1	RSPRY1	16	57269043	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	6095893	57269043	33085710	489	43910											
GPR97	222487	broad.mit.edu	37	chr16	57719834	57719834	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgcacttttcaactccttGcaaggtgaggcccctgcacc	7	12	8	14	0	1	1	1	1	0	0	2	1	2	1	4	2	4	3	4	2	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:57719834G>A	uc002emh.2	+	11	1639	c.1536G>A	c.(1534-1536)TTG>TTA	p.L512L	GPR97_uc010vhv.1_Silent_p.L392L|GPR97_uc010cdd.2_RNA|GPR97_uc010cde.2_Silent_p.L120L	NM_170776	NP_740746	Q86Y34	GPR97_HUMAN	G protein-coupled receptor 97 precursor	512	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1						TCAACTCCTTGCAAGGTGAGG	0.592													31	56					0	0	0.002836	0	0		A	57719834	A	A	57719834	2	1	65	1	0	0	0	0	0	0	0	1	6736	1310	46	2		2	GPR97	16	57719834	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	450791	57719834	32634919	490	43911											
PRSS54	221191	broad.mit.edu	37	chr16	58324946	58324946	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtgtgtactgggagtcCtgcagcgacaccacccacgg	8	7	14	12	2	0	0	0	0	0	0	1	2	1	1	3	3	3	2	3	3	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:58324946C>A	uc002enf.2	-	4	575	c.180G>T	c.(178-180)CAG>CAT	p.Q60H	PRSS54_uc002eng.2_Missense_Mutation_p.Q60H|PRSS54_uc010vie.1_Intron	NM_001080492	NP_001073961	Q6PEW0	PRS54_HUMAN	plasma kallikrein-like protein 4 precursor	60	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						ACTGGGAGTCCTGCAGCGACA	0.607													16	31					2.35188e-11	2.50161e-11	0.006122	1	0		A	58324946	A	A	58324946	3	1	65	1	0	0	0	0	1	0	0	0	12655	680	24	5	1023	5	PRSS54	16	58324946	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	605112	58324946	32029807	491	43912											
CDH8	1006	broad.mit.edu	37	chr16	61761058	61761058	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggatgcgaattcaggggcGttgtcattgacatccagcac	9	10	12	10	3	2	1	2	1	0	0	4	3	3	2	1	3	2	2	1	3	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:61761058G>A	uc002eog.1	-	9	1728	c.1476C>T	c.(1474-1476)AAC>AAT	p.N492N	CDH8_uc002eoh.2_Silent_p.N261N	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	492	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		ATTCAGGGGCGTTGTCATTGA	0.393													6	145					0	0	0.001168	0	0		A	61761058	A	A	61761058	2	1	65	1	0	0	0	0	0	0	0	1	3119	1136	40	1		1	CDH8	16	61761058	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3436112	61761058	28593695	492	43913											
CDH8	1006	broad.mit.edu	37	chr16	61851566	61851566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggccccctgccactgaagCgtgggtcaatatggacattg	9	8	13	11	1	1	1	1	1	0	0	1	2	1	2	3	3	2	0	3	3	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:61851566C>T	uc002eog.1	-	7	1346	c.1094G>A	c.(1093-1095)CGC>CAC	p.R365H	CDH8_uc002eoh.2_Missense_Mutation_p.R134H	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	365	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		GCCACTGAAGCGTGGGTCAAT	0.468													23	55					0	0	0.00278	0	0		T	61851566	T	T	61851566	3	4	65	1	0	0	0	0	1	0	0	0	3119	768	27	1	1329	1	CDH8	16	61851566	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	90508	61851566	28503187	493	43914											
CDH16	1014	broad.mit.edu	37	chr16	66947518	66947519	+	Splice_Site	INS	-	G	G																															acccccactccagtgtacctINSgggggggacaccccgggcca																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:66947518_66947519insG	uc002eql.2	-	8	854	c.781_splice	c.e8-1	p.V261_splice	CDH16_uc010cdy.2_Splice_Site_p.V261_splice|CDH16_uc002eqm.2_Splice_Site_p.V164_splice	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		CCAGTGTACCTGGGGGGGACAC	0.594													25	55	---	---	---	---						.	G	66947519	G	G	66947518	8	5	65	1	0	1	1	0	0	0	1	0	3104	1594	55	0	1754	0	CDH16	16	66947518	Splice_Site	INS	-	TCGA-BR-8360-01A-11D-2340-08	5095952	66947518	23407235	494	43915											
PLEKHG4	25894	broad.mit.edu	37	chr16	67321888	67321888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaggaagccatcaacgaccGcaccgtcaactatgtcctga	12	6	9	14	4	2	1	2	1	0	0	3	4	3	2	4	1	3	1	4	1	4	1	rs56077142	byFrequency	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:67321888G>A	uc002eso.3	+	18	5726	c.3191G>A	c.(3190-3192)CGC>CAC	p.R1064H	PLEKHG4_uc002esp.3_Missense_Mutation_p.R871H|PLEKHG4_uc002esq.3_Missense_Mutation_p.R1064H|PLEKHG4_uc010cef.2_Missense_Mutation_p.R1064H|PLEKHG4_uc002ess.3_Missense_Mutation_p.R1064H|PLEKHG4_uc010ceg.2_Missense_Mutation_p.R983H	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	1064					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		ATCAACGACCGCACCGTCAAC	0.602													16	60					0	0	0.004007	0	0		A	67321888	A	A	67321888	3	1	65	1	0	0	0	0	1	0	0	0	12090	1087	38	1	3261	1	PLEKHG4	16	67321888	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	374370	67321888	23032865	495	43916											
SLC12A4	6560	broad.mit.edu	37	chr16	67984960	67984960	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggtttgagccagccatgAtgcctccaaaaacagatgag	13	7	11	10	1	0	4	0	3	0	1	1	4	1	4	4	1	5	1	4	1	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:67984960A>G	uc002euz.2	-	10	1442	c.1301T>C	c.(1300-1302)ATC>ACC	p.I434T	SLC12A4_uc010ceu.2_Missense_Mutation_p.I428T|SLC12A4_uc010vkh.1_Missense_Mutation_p.I403T|SLC12A4_uc010vki.1_Missense_Mutation_p.I434T|SLC12A4_uc010vkj.1_Missense_Mutation_p.I436T|SLC12A4_uc002eva.2_Missense_Mutation_p.I434T|SLC12A4_uc002evb.2_Intron	NM_005072	NP_005063	Q9UP95	S12A4_HUMAN	solute carrier family 12, member 4 isoform a	434					cell volume homeostasis|potassium ion transport|sodium ion transport	integral to plasma membrane|membrane fraction	potassium:chloride symporter activity			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	GCCAGCCATGATGCCTCCAAA	0.582													18	49					0	0	0.010504	0	0		G	67984960	G	G	67984960	3	3	65	1	0	0	0	0	1	0	0	0	14410	333	12	3	2016	3	SLC12A4	16	67984960	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	663072	67984960	22369793	496	43917											
CDH3	1001	broad.mit.edu	37	chr16	68716319	68716319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacctaccttatcatgggcGgtgacgacggggaccatttt	8	10	11	12	3	1	1	1	1	0	0	1	3	1	2	4	4	1	0	4	4	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:68716319G>A	uc002ewf.2	+	9	2243	c.1111G>A	c.(1111-1113)GGT>AGT	p.G371S	CDH3_uc010vli.1_Missense_Mutation_p.G316S	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	371	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		TATCATGGGCGGTGACGACGG	0.602													12	28					0	0	0.001368	0	0		A	68716319	A	A	68716319	3	1	65	1	0	0	0	0	1	0	0	0	3114	1116	39	1	1145	1	CDH3	16	68716319	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	731359	68716319	21638434	497	43918											
LDHD	197257	broad.mit.edu	37	chr16	75146546	75146546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccctgcccagttcctcggCgtcatcagggttgaccagca	7	8	11	15	2	2	1	2	1	0	0	4	2	3	1	4	2	2	3	4	2	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:75146546C>T	uc002fdm.2	-	10	1359	c.1312G>A	c.(1312-1314)GCC>ACC	p.A438T	LDHD_uc002fdn.2_Missense_Mutation_p.A415T	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	438							D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						AGTTCCTCGGCGTCATCAGGG	0.612													11	17					0	0	0.001368	0	0		T	75146546	T	T	75146546	3	4	65	1	0	0	0	0	1	0	0	0	8719	768	27	1	219	1	LDHD	16	75146546	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	6430227	75146546	15208207	498	43919											
KIAA0513	9764	broad.mit.edu	37	chr16	85111120	85111120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgcaaacagctggctggccGaaaagaaggacatcgccgag	13	3	13	12	4	0	1	0	0	0	1	1	4	0	2	3	3	2	3	3	3	4	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:85111120G>A	uc002fiu.2	+	6	884	c.664G>A	c.(664-666)GAA>AAA	p.E222K	KIAA0513_uc002fis.3_Missense_Mutation_p.E222K|KIAA0513_uc010voj.1_Missense_Mutation_p.E222K|KIAA0513_uc002fit.2_Missense_Mutation_p.E222K	NM_014732	NP_055547	O60268	K0513_HUMAN	hypothetical protein LOC9764	222						cytoplasm				breast(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.234)		CTGGCTGGCCGAAAAGAAGGA	0.617													15	27					0	0	0.004007	0	0		A	85111120	A	A	85111120	3	1	65	1	0	0	0	0	1	0	0	0	8197	1059	37	1	682	1	KIAA0513	16	85111120	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	9964574	85111120	5243633	499	43920											
FOXL1	2300	broad.mit.edu	37	chr16	86612522	86612522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccatggcgatccaggacGcgcccgagcagagggtcacg	8	4	15	14	6	1	1	1	0	0	1	3	4	2	2	3	3	1	1	3	3	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:86612522G>A	uc002fjr.2	+	1	408	c.193G>A	c.(193-195)GCG>ACG	p.A65T		NM_005250	NP_005241	Q12952	FOXL1_HUMAN	forkhead box L1	65	Fork-head.				brain development|camera-type eye development|cartilage development|embryo development|forelimb morphogenesis|heart development|organ morphogenesis|pattern specification process|proteoglycan biosynthetic process|regulation of sequence-specific DNA binding transcription factor activity|regulation of Wnt receptor signaling pathway|visceral mesoderm-endoderm interaction involved in midgut development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1						GATCCAGGACGCGCCCGAGCA	0.662													28	60					0	0	0.008361	0	0		A	86612522	A	A	86612522	3	1	65	1	0	0	0	0	1	0	0	0	6030	1087	38	1	195	1	FOXL1	16	86612522	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1501402	86612522	3742231	500	43921											
KLHDC4	54758	broad.mit.edu	37	chr16	87742975	87742975	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgccggcctcaaacatgcccCcatagacgtagagcacccca	11	4	8	18	3	1	2	1	0	0	2	1	2	1	2	6	1	3	2	6	1	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:87742975C>G	uc002fki.2	-	10	1389	c.1343G>C	c.(1342-1344)GGG>GCG	p.G448A	KLHDC4_uc002fkh.1_RNA|KLHDC4_uc010cht.1_Intron|KLHDC4_uc002fkj.2_Missense_Mutation_p.G417A|KLHDC4_uc002fkk.2_Missense_Mutation_p.G267A|KLHDC4_uc002fkl.2_Missense_Mutation_p.G391A|KLHDC4_uc010chu.1_Missense_Mutation_p.G267A	NM_017566	NP_060036	Q8TBB5	KLDC4_HUMAN	kelch domain containing 4	448	Kelch 6.									pancreas(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0283)		AAACATGCCCCCATAGACGTA	0.657													11	69					0	0	0.010729	0	0		G	87742975	G	G	87742975	3	3	65	1	0	0	0	0	1	0	0	0	8374	623	22	5	227	5	KLHDC4	16	87742975	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1130453	87742975	2611778	501	43922											
TUBB3	10381	broad.mit.edu	37	chr16	90002028	90002028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagttcacggccatgttccGgcgcaaggccttcctgcact	6	9	11	15	3	1	0	1	0	0	0	3	0	3	0	4	3	1	5	4	3	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr16:90002028G>A	uc002fph.1	+	4	1234	c.1169G>A	c.(1168-1170)CGG>CAG	p.R390Q	TUBB3_uc002fpf.2_Missense_Mutation_p.R737Q|TUBB3_uc010ciz.1_Missense_Mutation_p.R318Q|TUBB3_uc002fpg.1_Missense_Mutation_p.R244Q|TUBB3_uc002fpi.1_Missense_Mutation_p.R318Q|TUBB3_uc002fpj.1_Missense_Mutation_p.R318Q|TUBB3_uc010cjb.1_Missense_Mutation_p.R244Q|TUBB3_uc002fpk.1_Missense_Mutation_p.R244Q	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	390					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GCCATGTTCCGGCGCAAGGCC	0.627													40	143					0	0	0.00361	0	0		A	90002028	A	A	90002028	3	1	65	1	0	0	0	0	1	0	0	0	16783	1116	39	1	1183	1	TUBB3	16	90002028	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2259053	90002028	352725	502	43923											
VPS53	55275	broad.mit.edu	37	chr17	465886	465886	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagtagacaaagaggtcggcGcagctggggagcacggcacc	11	4	16	10	3	0	2	0	0	0	2	1	3	0	3	1	5	2	5	1	5	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:465886G>A	uc002frn.2	-	14	1560	c.1413C>T	c.(1411-1413)TGC>TGT	p.C471C	VPS53_uc002frk.2_5'UTR|VPS53_uc010cjo.1_Silent_p.C471C|VPS53_uc002frl.2_RNA|VPS53_uc002frm.2_Silent_p.C442C|VPS53_uc002fro.2_Silent_p.C273C|VPS53_uc010cjp.1_Silent_p.C194C	NM_018289	NP_060759	Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 isoform 2	471					protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)		AGAGGTCGGCGCAGCTGGGGA	0.562													16	54					0	0	0.004007	0	0		A	465886	A	A	465886	2	1	65	1	0	0	0	0	0	0	0	1	17241	1079	38	1		1	VPS53	17	465886	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08		465886	80729324	503	43924											
ABR	29	broad.mit.edu	37	chr17	959308	959308	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcccttggcagagtggaCgatgacatgaaggaagccat	14	7	12	8	1	0	3	0	2	0	1	1	6	1	5	2	3	1	1	2	3	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:959308C>T	uc002fsd.2	-	14	1638	c.1528G>A	c.(1528-1530)GTC>ATC	p.V510I	ABR_uc002fse.2_Missense_Mutation_p.V464I|ABR_uc010vqg.1_Missense_Mutation_p.V292I|ABR_uc002fsg.2_Missense_Mutation_p.V473I|ABR_uc002fsh.1_Intron	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	510	C2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		GCAGAGTGGACGATGACATGA	0.577											OREG0024067	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	38					0	0	0.007413	0	0		T	959308	T	T	959308	3	4	65	1	0	0	0	0	1	0	0	0	99	536	19	1	1091	1	ABR	17	959308	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	493422	959308	80235902	504	43925											
ABR	29	broad.mit.edu	37	chr17	973307	973307	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgacacttccaccaggaaGccgtccttcaccagctgtcg	8	9	8	16	2	2	1	1	1	1	0	5	2	4	2	5	1	2	1	5	1	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:973307G>A	uc002fsd.2	-	9	1028	c.918C>T	c.(916-918)GGC>GGT	p.G306G	ABR_uc002fse.2_Silent_p.G260G|ABR_uc010vqg.1_Silent_p.G88G|ABR_uc002fsg.2_Silent_p.G269G|ABR_uc002fsh.1_Silent_p.G190G	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	306	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		CCACCAGGAAGCCGTCCTTCA	0.627													9	20					0	0	0.004482	0	0		A	973307	A	A	973307	2	1	65	1	0	0	0	0	0	0	0	1	99	958	34	2		2	ABR	17	973307	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	13999	973307	80221903	505	43926											
PRPF8	10594	broad.mit.edu	37	chr17	1582418	1582418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcatgttgtagccctggcGgcaaacctggagcccaacct	9	7	12	13	1	0	0	0	0	0	0	0	2	0	1	4	3	5	4	4	3	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:1582418G>A	uc002fte.2	-	11	1606	c.1492C>T	c.(1492-1494)CGC>TGC	p.R498C		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	498						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		TAGCCCTGGCGGCAAACCTGG	0.512													31	67					0	0	0.007291	0	0		A	1582418	A	A	1582418	3	1	65	1	0	0	0	0	1	0	0	0	12597	1116	39	1	5647	1	PRPF8	17	1582418	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	609111	1582418	79612792	506	43927											
PRPF8	10594	broad.mit.edu	37	chr17	1585245	1585245	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcagcatagtccaagggCggctcctcatcatcaaaagg	11	9	10	11	1	4	0	4	0	0	0	6	0	6	0	2	3	1	2	2	3	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:1585245C>T	uc002fte.2	-	5	636	c.522G>A	c.(520-522)CCG>CCA	p.P174P		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	174						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		AGTCCAAGGGCGGCTCCTCAT	0.517													25	51					0	0	0.00278	0	0		T	1585245	T	T	1585245	2	4	65	1	0	0	0	0	0	0	0	1	12597	755	27	1		1	PRPF8	17	1585245	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2827	1585245	79609965	507	43928											
KIAA0664	23277	broad.mit.edu	37	chr17	2601322	2601322	+	Frame_Shift_Del	DEL	G	-	-																															cgggcaggaagttgaggtccGgggggaaggtgcgcagcagg																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:2601322delG	uc002fuy.1	-	10	1801	c.1715delC	c.(1714-1716)CCGfs	p.P572fs	KIAA0664_uc002fux.1_Frame_Shift_Del_p.P504fs|KIAA0664_uc010ckc.1_5'Flank	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	572							binding			breast(2)	2						GTTGAGGTCCGGGGGGAAGGT	0.692													3	4	---	---	---	---						.	-	2601322	-	-	2601322	7	5	65	1	0	1	0	1	0	0	0	0	8205	1116	39	0	2282	0	KIAA0664	17	2601322	Frame_Shift_Del	DEL	G	TCGA-BR-8360-01A-11D-2340-08	1016077	2601322	78593888	508	43929											
SMTNL2	342527	broad.mit.edu	37	chr17	4510711	4510711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacatgatggtgatgggcCgcaagccggaccccatgtgt	9	7	15	10	2	0	2	0	2	0	0	0	4	0	4	4	4	1	1	4	4	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:4510711C>T	uc002fyf.1	+	8	1382	c.1315C>T	c.(1315-1317)CGC>TGC	p.R439C	SMTNL2_uc002fye.2_Missense_Mutation_p.R295C	NM_001114974	NP_001108446	Q2TAL5	SMTL2_HUMAN	smoothelin-like 2 isoform 1	439	CH.										0				READ - Rectum adenocarcinoma(115;0.0325)		GGTGATGGGCCGCAAGCCGGA	0.582													50	105					0	0	0.00361	0	0		T	4510711	T	T	4510711	3	4	65	1	0	0	0	0	1	0	0	0	14841	652	23	1	1345	1	SMTNL2	17	4510711	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1909389	4510711	76684499	509	43930											
USP6	9098	broad.mit.edu	37	chr17	5041527	5041527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagcatcttagggcctctaCgaagaaactaacaaggaagc	16	6	9	10	1	2	1	0	0	2	1	2	3	2	2	1	2	5	1	1	2	8	3	rs139849858	by1000genomes	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:5041527C>T	uc002gau.1	+	21	3267	c.1037C>T	c.(1036-1038)ACG>ATG	p.T346M	USP6_uc002gav.1_Missense_Mutation_p.T346M|USP6_uc010ckz.1_Translation_Start_Site|uc002gbd.2_5'Flank	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	346					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						AGGGCCTCTACGAAGAAACTA	0.582			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								56	116					0	0	0.00361	0	0		T	5041527	T	T	5041527	3	4	65	1	0	0	0	0	1	0	0	0	17112	536	19	1	1083	1	USP6	17	5041527	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	530816	5041527	76153683	510	43931											
NLGN2	57555	broad.mit.edu	37	chr17	7317671	7317671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccccacacagatatccgtGaccctgggaagaagcctgtg	10	7	10	14	1	0	3	0	1	0	2	2	4	2	4	5	1	1	0	5	1	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:7317671G>A	uc002ggt.1	+	3	590	c.517G>A	c.(517-519)GAC>AAC	p.D173N		NM_020795	NP_065846	Q8NFZ4	NLGN2_HUMAN	neuroligin 2 precursor	173	Extracellular (Potential).				cell-cell junction maintenance|neuron cell-cell adhesion|positive regulation of synaptogenesis|regulation of inhibitory postsynaptic membrane potential|synapse assembly	cell surface|integral to plasma membrane|postsynaptic membrane	neurexin binding|receptor activity			central_nervous_system(1)	1		Prostate(122;0.157)				AGATATCCGTGACCCTGGGAA	0.622													8	19					0	0	0.00308	0	0		A	7317671	A	A	7317671	3	1	65	1	0	0	0	0	1	0	0	0	10481	1290	45	4	527	4	NLGN2	17	7317671	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2276144	7317671	73877539	511	43932											
TP53	7157	broad.mit.edu	37	chr17	7574003	7574003	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggcctcattcagctctcGgaacatctcgaagcgctcac	10	8	8	15	3	5	0	3	0	2	0	7	2	5	1	1	2	3	2	1	2	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:7574003G>A	uc002gim.2	-	10	1218	c.1024C>T	c.(1024-1026)CGA>TGA	p.R342*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_Nonsense_Mutation_p.R210*|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_Nonsense_Mutation_p.R342*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	342	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Nuclear export signal.|Interaction with HIPK2.		R -> P (in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> L (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R342*(49)|p.0?(7)|p.R342fs*3(5)|p.R342P(3)|p.R342Q(2)|p.?(1)|p.R342_N345delRELN(1)|p.I332fs*5(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TTCAGCTCTCGGAACATCTCG	0.498		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			4	17					0	0	0.000602	0	0		A	7574003	A	A	7574003	4	1	65	1	0	0	0	0	0	1	0	0	16407	1124	39	1	165	1	TP53	17	7574003	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	256332	7574003	73621207	512	43933											
TP53	7157	broad.mit.edu	37	chr17	7574018	7574018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctcggaacatctcgaagcGctcacgcccacggatctgca	9	7	9	16	5	4	0	1	0	3	0	6	3	4	2	1	2	3	2	1	2	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:7574018G>A	uc002gim.2	-	10	1203	c.1009C>T	c.(1009-1011)CGC>TGC	p.R337C	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_Missense_Mutation_p.R205C|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_Missense_Mutation_p.R337C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	337	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Interaction with HIPK2.		R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R337C(12)|p.0?(7)|p.R337L(5)|p.R337H(2)|p.?(1)|p.I332fs*5(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ATCTCGAAGCGCTCACGCCCA	0.448		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			8	14					0	0	0.004482	0	0		A	7574018	A	A	7574018	3	1	65	1	0	0	0	0	1	0	0	0	16407	1087	38	1	180	1	TP53	17	7574018	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	15	7574018	73621192	513	43934											
DNAH2	146754	broad.mit.edu	37	chr17	7661896	7661896	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagaagatccacccgggacTcaagaaactgcactgggcct	13	6	10	12	1	1	3	1	0	0	3	2	4	2	4	3	2	2	1	3	2	4	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:7661896T>A	uc002giu.1	+	13	2149	c.2135T>A	c.(2134-2136)CTC>CAC	p.L712H		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	712	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CACCCGGGACTCAAGAAACTG	0.542													31	75					0	0	0.009535	0	0		A	7661896	A	A	7661896	3	1	65	1	0	0	0	0	1	0	0	0	4608	1551	54	5	2185	5	DNAH2	17	7661896	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	87878	7661896	73533314	514	43935											
MYH13	8735	broad.mit.edu	37	chr17	10214522	10214522	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgccagtttctgcaatctgCtcagttaagtcggaaatctc	9	14	8	10	1	4	0	1	0	3	0	6	1	4	1	1	1	3	4	1	1	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:10214522C>T	uc002gmk.1	-	33	4644	c.4554G>A	c.(4552-4554)GAG>GAA	p.E1518E		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1518	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						CTGCAATCTGCTCAGTTAAGT	0.463													8	48					0	0	0.00308	0	0		T	10214522	T	T	10214522	2	4	65	1	0	0	0	0	0	0	0	1	10050	796	28	2		2	MYH13	17	10214522	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2552626	10214522	70980688	515	43936											
MYH13	8735	broad.mit.edu	37	chr17	10222453	10222453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaatcttggctctgagcGtgtgttccgcttcaatttcc	5	16	8	12	2	4	1	2	1	3	0	7	1	6	1	2	1	1	3	2	1	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:10222453G>A	uc002gmk.1	-	27	3482	c.3392C>T	c.(3391-3393)ACG>ATG	p.T1131M		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1131	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GGCTCTGAGCGTGTGTTCCGC	0.557													28	54					0	0	0.004656	0	0		A	10222453	A	A	10222453	3	1	65	1	0	0	0	0	1	0	0	0	10050	1145	40	1	2484	1	MYH13	17	10222453	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	7931	10222453	70972757	516	43937											
MPRIP	23164	broad.mit.edu	37	chr17	17030057	17030057	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accatcaacatgaaccagtgCacagatgtggtggatgggga	13	7	13	8	0	1	2	1	1	0	1	1	4	1	4	2	4	3	1	2	4	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:17030057C>T	uc002gqu.1	+	4	365	c.309C>T	c.(307-309)TGC>TGT	p.C103C	MPRIP_uc002gqv.1_Silent_p.C103C	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	103	Interaction with F-actin (By similarity).|PH 1.					cytoplasm|cytoskeleton	actin binding				0						TGAACCAGTGCACAGATGTGG	0.597													18	34					0	0	0.006122	0	0		T	17030057	T	T	17030057	2	4	65	1	0	0	0	0	0	0	0	1	9761	718	25	2		2	MPRIP	17	17030057	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	6807604	17030057	64165153	517	43938											
TMEM11	8834	broad.mit.edu	37	chr17	21101952	21101952	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagaggcaggcggtgccCgccagcacggccgtcttgtg	6	6	17	12	4	1	2	0	1	1	1	1	2	1	2	3	4	2	2	3	4	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:21101952C>T	uc002gyp.2	-	2	707	c.264G>A	c.(262-264)GCG>GCA	p.A88A	TMEM11_uc002gyq.2_3'UTR	NM_003876	NP_003867	P17152	TMM11_HUMAN	transmembrane protein 11	88	Helical; (Potential).				mitochondrion organization	integral to mitochondrial inner membrane|integral to plasma membrane	protein binding				0						AGGCGGTGCCCGCCAGCACGG	0.622													5	40					0	0	0.000602	0	0		T	21101952	T	T	21101952	2	4	65	1	0	0	0	0	0	0	0	1	16051	639	23	1		1	TMEM11	17	21101952	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	4071895	21101952	60093258	518	43939											
SEZ6	124925	broad.mit.edu	37	chr17	27284223	27284224	+	Frame_Shift_Ins	INS	-	G	G																															gacttcgggcaccattctcaINSggggcactgagaccatggca																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:27284223_27284224insG	uc002hdp.2	-	13	2725_2726	c.2531_2532insC	c.(2530-2532)CCTfs	p.P844fs	SEZ6_uc010crx.1_Frame_Shift_Ins_p.P39fs|SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Frame_Shift_Ins_p.P844fs|SEZ6_uc002hdq.1_Frame_Shift_Ins_p.P719fs	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	844	Extracellular (Potential).|Sushi 5.					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			CACCATTCTCAGGGGCACTGAG	0.589													22	51	---	---	---	---						.	G	27284224	G	G	27284223	7	5	65	1	0	1	1	0	0	0	0	0	14167	175	7	0	485	0	SEZ6	17	27284223	Frame_Shift_Ins	INS	-	TCGA-BR-8360-01A-11D-2340-08	6182271	27284223	53910987	519	43940											
TAOK1	57551	broad.mit.edu	37	chr17	27857552	27857552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacaaagctgttctgaaacGgctcaaggaggaacagaccc	14	5	11	11	1	2	2	1	1	1	1	2	4	2	4	1	3	3	4	1	3	4	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:27857552G>A	uc002hdz.1	+	18	2470	c.2276G>A	c.(2275-2277)CGG>CAG	p.R759Q	TAOK1_uc010wbe.1_Missense_Mutation_p.R611Q|TAOK1_uc010wbf.1_Missense_Mutation_p.R759Q	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	759	Potential.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			GTTCTGAAACGGCTCAAGGAG	0.438													21	57					0	0	0.012319	0	0		A	27857552	A	A	27857552	3	1	65	1	0	0	0	0	1	0	0	0	15572	1116	39	1	2342	1	TAOK1	17	27857552	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	573329	27857552	53337658	520	43941											
OMG	4974	broad.mit.edu	37	chr17	29622153	29622153	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcttccctccataagttaagGgttgtgctttgttgaggcat	7	16	10	8	0	1	1	0	1	1	0	3	1	3	1	2	2	1	5	2	2	2	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:29622153G>T	uc002hgj.2	-	2	1410	c.1197C>A	c.(1195-1197)ACC>ACA	p.T399T	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron	NM_002544	NP_002535	P23515	OMGP_HUMAN	oligodendrocyte myelin glycoprotein precursor	399	Ser/Thr-rich.				cell adhesion|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	anchored to membrane|plasma membrane		p.?(2)		ovary(1)|central_nervous_system(1)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;1.81e-13)|Epithelial(4;4.04e-12)|OV - Ovarian serous cystadenocarcinoma(4;9.49e-12)|GBM - Glioblastoma multiforme(4;0.121)		ATAAGTTAAGGGTTGTGCTTT	0.413													74	206					1.39921e-30	1.58423e-30	0.00361	1	0		T	29622153	T	T	29622153	2	4	65	1	0	0	0	0	0	0	0	1	10885	1219	43	5		5	OMG	17	29622153	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1764601	29622153	51573057	521	43942											
ZNF830	91603	broad.mit.edu	37	chr17	33289068	33289068	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactccccgattatgaagaTgaggaggaggaggaagagga	14	7	15	5	1	0	4	0	2	0	2	1	10	1	9	2	5	1	0	2	5	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:33289068T>G	uc002hih.3	+	1	520	c.483T>G	c.(481-483)GAT>GAG	p.D161E	CCT6B_uc002hig.2_5'Flank|CCT6B_uc010ctg.2_5'Flank|CCT6B_uc010wcc.1_5'Flank	NM_052857	NP_443089	Q96NB3	ZN830_HUMAN	coiled-coil domain containing 16	161					cell division|mitosis	cytoplasm|nucleus	metal ion binding			breast(1)	1		Ovarian(249;0.17)				ATTATGAAGATgaggaggagg	0.438													6	50					0	0	0.001984	0	0		G	33289068	G	G	33289068	3	3	65	1	0	0	0	0	1	0	0	0	18209	1461	51	5	485	5	ZNF830	17	33289068	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	3666915	33289068	47906142	522	43943											
ZNF830	91603	broad.mit.edu	37	chr17	33289083	33289083	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagatgaggaggaggaggaAgaggaggaggaaggagatgg	16	2	23	0	0	0	4	0	1	0	3	0	13	0	11	0	9	0	0	0	9	3	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:33289083A>G	uc002hih.3	+	1	535	c.498A>G	c.(496-498)GAA>GAG	p.E166E	CCT6B_uc002hig.2_5'Flank|CCT6B_uc010ctg.2_5'Flank|CCT6B_uc010wcc.1_5'Flank	NM_052857	NP_443089	Q96NB3	ZN830_HUMAN	coiled-coil domain containing 16	166					cell division|mitosis	cytoplasm|nucleus	metal ion binding			breast(1)	1		Ovarian(249;0.17)				aggaggaggaagaggaggagg	0.443													4	45					0	0	0.000602	0	0		G	33289083	G	G	33289083	2	3	65	1	0	0	0	0	0	0	0	1	18209	69	3	3		3	ZNF830	17	33289083	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	15	33289083	47906127	523	43944											
THRA	7067	broad.mit.edu	37	chr17	38244713	38244713	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctttaacctggatgacacGgaagtggctctgctgcaggc	8	9	13	11	1	1	1	0	1	1	0	1	3	1	3	2	4	3	3	2	4	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:38244713G>T	uc002htw.2	+	8	1425	c.942G>T	c.(940-942)ACG>ACT	p.T314T	THRA_uc010cwp.1_Silent_p.T314T|THRA_uc002htv.2_Silent_p.T314T|THRA_uc002htx.2_Silent_p.T314T	NM_003250	NP_003241	P10827	THA_HUMAN	thyroid hormone receptor, alpha isoform 2	314	Ligand-binding.				negative regulation of RNA polymerase II transcriptional preinitiation complex assembly|negative regulation of transcription initiation, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription from RNA polymerase II promoter	cytosol|nucleoplasm	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|TBP-class protein binding|thyroid hormone binding|thyroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding				0	Colorectal(19;0.000442)	Myeloproliferative disorder(1115;0.0255)			Levothyroxine(DB00451)|Liothyronine(DB00279)	TGGATGACACGGAAGTGGCTC	0.572													30	95					1.45844e-13	1.57824e-13	0.002836	1	0		T	38244713	T	T	38244713	2	4	65	1	0	0	0	0	0	0	0	1	15898	1103	39	5		5	THRA	17	38244713	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4955630	38244713	42950497	524	43945											
KRT33A	3883	broad.mit.edu	37	chr17	39503321	39503321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagatgcccacctgcgtggCgaaccattgctccacttccc	7	10	8	16	2	0	1	0	0	0	1	2	2	2	1	5	1	4	1	5	1	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:39503321C>T	uc002hwk.1	-	4	779	c.742G>A	c.(742-744)GCC>ACC	p.A248T		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	248	Coil 2.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				ACCTGCGTGGCGAACCATTGC	0.622													12	40					0	0	0.006122	0	0		T	39503321	T	T	39503321	3	4	65	1	0	0	0	0	1	0	0	0	8485	768	27	1	488	1	KRT33A	17	39503321	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1258608	39503321	41691889	525	43946											
KRT33B	3884	broad.mit.edu	37	chr17	39520144	39520144	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaggaccacaaggattggTgacacaggatccaatgggct	13	6	13	9	1	0	1	0	1	0	0	1	5	1	4	2	5	0	1	2	5	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:39520144T>G	uc002hwl.2	-	7	1204	c.1159A>C	c.(1159-1161)ACC>CCC	p.T387P		NM_002279	NP_002270	Q14525	KT33B_HUMAN	type I hair keratin 3B	387	Tail.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				CAAGGATTGGTGACACAGGAT	0.547													19	39					0	0	0.008871	0	0		G	39520144	G	G	39520144	3	3	65	1	0	0	0	0	1	0	0	0	8486	1696	59	5	59	5	KRT33B	17	39520144	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	16823	39520144	41675066	526	43947											
DHX58	79132	broad.mit.edu	37	chr17	40256795	40256795	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcagaccttggcctggtActcggcctggtccattttct	4	13	10	14	1	1	1	0	0	1	1	3	1	2	1	5	4	2	2	5	4	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:40256795A>G	uc002hyw.3	-	11	1775	c.1552T>C	c.(1552-1554)TAC>CAC	p.Y518H	DHX58_uc002hyv.3_RNA|DHX58_uc010wgf.1_Missense_Mutation_p.Y511H	NM_024119	NP_077024	Q96C10	DHX58_HUMAN	RNA helicase LGP2	518	Potential.				innate immune response	cytoplasm	ATP binding|DNA binding|helicase activity|protein binding|RNA binding|zinc ion binding				0		all_cancers(22;9.73e-07)|all_epithelial(22;3.58e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TTGGCCTGGTACTCGGCCTGG	0.637													6	33					0	0	0.001168	0	0		G	40256795	G	G	40256795	3	3	65	1	0	0	0	0	1	0	0	0	4520	391	14	3	500	3	DHX58	17	40256795	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	736651	40256795	40938415	527	43948											
BRCA1	672	broad.mit.edu	37	chr17	41245719	41245719	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaagacttcctcctcagcCtattctttttaggtgctttt	7	18	6	10	0	2	2	1	0	1	2	4	2	4	2	3	1	2	1	3	1	4	9			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:41245719C>A	uc002icq.2	-	10	2061	c.1829G>T	c.(1828-1830)AGG>ATG	p.R610M	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.R539M|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.R563M|BRCA1_uc002ict.2_Missense_Mutation_p.R610M|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.R610M|BRCA1_uc002ide.1_Missense_Mutation_p.R441M|BRCA1_uc010cyy.1_Missense_Mutation_p.R610M|BRCA1_uc010whs.1_Missense_Mutation_p.R610M|BRCA1_uc010cyz.2_Missense_Mutation_p.R563M|BRCA1_uc010cza.2_Missense_Mutation_p.R584M|BRCA1_uc010wht.1_Missense_Mutation_p.R314M	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	610					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		CCTCCTCAGCCTATTCTTTTT	0.373			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			29	59					4.87955e-14	5.30555e-14	0.005443	1	0		A	41245719	A	A	41245719	3	1	65	1	0	0	0	0	1	0	0	0	1501	681	24	5	3888	5	BRCA1	17	41245719	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	988924	41245719	39949491	528	43949											
RUNDC3A	10900	broad.mit.edu	37	chr17	42390848	42390848	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaatacatcaccacggcTctgcgtgacacccggaccac	11	6	8	16	3	3	2	2	1	1	1	3	3	3	3	3	2	2	1	3	2	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:42390848T>G	uc002igl.3	+	4	709	c.435T>G	c.(433-435)GCT>GCG	p.A145A	RUNDC3A_uc002igi.2_Silent_p.A145A|RUNDC3A_uc002igj.2_Silent_p.A140A|RUNDC3A_uc002igk.2_Silent_p.A141A	NM_001144825	NP_001138297	Q59EK9	RUN3A_HUMAN	RUN domain containing 3A isoform 1	145	Interaction with RAP2A (By similarity).|RUN.				small GTPase mediated signal transduction		small GTPase regulator activity				0		Prostate(33;0.0233)		BRCA - Breast invasive adenocarcinoma(366;0.189)		TCACCACGGCTCTGCGTGACA	0.562													4	37					0	0	0.009096	0	0		G	42390848	G	G	42390848	2	3	65	1	0	0	0	0	0	0	0	1	13769	1538	54	5		5	RUNDC3A	17	42390848	Silent	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1145129	42390848	38804362	529	43950											
KIF18B	146909	broad.mit.edu	37	chr17	43008980	43008980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatacctactgcttagaacGgtccccatccagttcccgtg	9	10	8	14	2	0	2	0	0	0	2	3	2	3	2	5	1	4	2	5	1	4	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:43008980G>A	uc010wji.1	-	11	1644	c.1543C>T	c.(1543-1545)CGT>TGT	p.R515C	KIF18B_uc002iht.2_Missense_Mutation_p.R515C|KIF18B_uc010wjh.1_Missense_Mutation_p.R503C	NM_001080443	NP_001073912			kinesin family member 18B											ovary(2)	2		Prostate(33;0.155)				TGCTTAGAACGGTCCCCATCC	0.567													23	68					0	0	0.00333	0	0		A	43008980	A	A	43008980	3	1	65	1	0	0	0	0	1	0	0	0	8297	1116	39	1	1047	1	KIF18B	17	43008980	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	618132	43008980	38186230	530	43951											
NFE2L1	4779	broad.mit.edu	37	chr17	46135782	46135782	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtcagcctgcatcaggcGtccctggggggctgcagcca	7	7	14	13	1	2	0	2	0	0	0	3	0	3	0	3	4	4	3	3	4	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:46135782G>A	uc002imz.3	+	6	1749	c.1098G>A	c.(1096-1098)GCG>GCA	p.A366A	NFE2L1_uc002ina.3_Silent_p.A336A|NFE2L1_uc002inb.3_Silent_p.A336A|NFE2L1_uc010wle.1_Silent_p.A178A|NFE2L1_uc010wlf.1_Silent_p.A210A	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	366					anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						TGCATCAGGCGTCCCTGGGGG	0.612													24	67					0	0	0.003954	0	0		A	46135782	A	A	46135782	2	1	65	1	0	0	0	0	0	0	0	1	10386	1132	40	1		1	NFE2L1	17	46135782	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3126802	46135782	35059428	531	43952											
HOXB1	3211	broad.mit.edu	37	chr17	46607743	46607743	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtcgaaggtccgggccgtgGgggtgttaggttctgaaggg	6	9	20	6	3	1	1	0	1	1	0	3	2	2	1	2	6	0	2	2	6	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:46607743G>T	uc002ink.1	-	1	530	c.524C>A	c.(523-525)CCC>CAC	p.P175H		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	175						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCGGGCCGTGGGGGTGTTAGG	0.597													6	22					8.12818e-05	8.34754e-05	0.001984	1	0		T	46607743	T	T	46607743	3	4	65	1	0	0	0	0	1	0	0	0	7315	1232	43	5	389	5	HOXB1	17	46607743	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	471961	46607743	34587467	532	43953											
HOXB3	3213	broad.mit.edu	37	chr17	46629516	46629516	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccacttttgctgggcccGcccccattactgctgttgct	4	12	10	15	1	0	0	0	0	0	0	0	1	0	1	4	2	4	4	4	2	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:46629516G>A	uc002inn.2	-	1	721	c.321C>T	c.(319-321)GGC>GGT	p.G107G	HOXB3_uc010wlm.1_Silent_p.G34G|HOXB3_uc010dbf.2_Silent_p.G107G|HOXB3_uc010dbg.2_Silent_p.G107G|HOXB3_uc002ino.2_Silent_p.G107G|HOXB3_uc010wlk.1_Intron|HOXB3_uc010wll.1_Silent_p.G34G	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	107					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TGCTGGGCCCGCCCCCATTAC	0.652													57	108					0	0	0.00361	0	0		A	46629516	A	A	46629516	2	1	65	1	0	0	0	0	0	0	0	1	7318	1074	38	1		1	HOXB3	17	46629516	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	21773	46629516	34565694	533	43954											
HOXB13	10481	broad.mit.edu	37	chr17	46804349	46804349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccttgctgtacggaatgcGtttcttgcggccgcgacgaa	6	10	12	13	6	1	0	0	0	1	0	1	3	1	1	3	2	4	3	3	2	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:46804349G>A	uc002ioa.2	-	2	814	c.658C>T	c.(658-660)CGC>TGC	p.R220C	hsa-mir-3185|MI0014227_5'Flank	NM_006361	NP_006352	Q92826	HXB13_HUMAN	homeobox B13	220	Homeobox.				angiogenesis|epidermis development|response to wounding		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TACGGAATGCGTTTCTTGCGG	0.617													36	46					0	0	0.003271	0	0		A	46804349	A	A	46804349	3	1	65	1	0	0	0	0	1	0	0	0	7316	1145	40	1	200	1	HOXB13	17	46804349	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	174833	46804349	34390861	534	43955											
XYLT2	64132	broad.mit.edu	37	chr17	48433258	48433258	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggcggttctgactggtTcgtgctgacacgcagctttg	5	12	15	9	3	1	2	0	2	1	0	2	3	1	3	0	4	2	5	0	4	0	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:48433258T>C	uc002iqo.2	+	6	1314	c.1205T>C	c.(1204-1206)TTC>TCC	p.F402S	XYLT2_uc010dbo.2_RNA	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	402	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)					TCTGACTGGTTCGTGCTGACA	0.607													10	31					0	0	0.008291	0	0		C	48433258	C	C	48433258	3	2	65	1	0	0	0	0	1	0	0	0	17490	1783	62	3	1227	3	XYLT2	17	48433258	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1628909	48433258	32761952	535	43956											
CUEDC1	404093	broad.mit.edu	37	chr17	55945510	55945510	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccaggctggaaaggataCgactgatgcttcaacaagtg	12	8	13	8	1	1	1	1	1	0	0	1	4	1	3	1	3	4	2	1	3	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:55945510C>T	uc002ivd.1	-	8	1753	c.1034_splice	c.e8+1	p.S345_splice	CUEDC1_uc002ive.1_Splice_Site_p.S345_splice	NM_017949	NP_060419	Q9NWM3	CUED1_HUMAN	CUE domain-containing 1											skin(2)	2						GGAAAGGATACGACTGATGCT	0.572													13	28					0	0	0.001368	0	0		T	55945510	T	T	55945510	5	4	65	1	0	0	0	0	0	0	1	0	4055	550	19	1	137	1	CUEDC1	17	55945510	Splice_Site	SNP	C	TCGA-BR-8360-01A-11D-2340-08	7512252	55945510	25249700	536	43957											
C17orf71	55181	broad.mit.edu	37	chr17	57290673	57290673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattcctggaaagagaagtgCggttgtaatgggaagaggaa	14	9	15	3	1	0	2	0	0	0	2	1	6	1	5	1	4	1	2	1	4	6	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:57290673C>T	uc002ixi.2	+	3	2531	c.2489C>T	c.(2488-2490)GCG>GTG	p.A830V		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	830					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					AAGAGAAGTGCGGTTGTAATG	0.478													44	97					0	0	0.011902	0	0		T	57290673	T	T	57290673	3	4	65	1	0	0	0	0	1	0	0	0	1881	768	27	1	2499	1	C17orf71	17	57290673	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1345163	57290673	23904537	537	43958											
RPS6KB1	6198	broad.mit.edu	37	chr17	58022829	58022829	+	Frame_Shift_Del	DEL	A	-	-																															gaaaagttttcctttgaaccAaaaatccgatcacctcgaag																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:58022829delA	uc002ixy.2	+	14	1393	c.1290delA	c.(1288-1290)CCAfs	p.P430fs	RPS6KB1_uc010ddj.1_Frame_Shift_Del_p.P430fs|RPS6KB1_uc010wom.1_Frame_Shift_Del_p.P377fs|RPS6KB1_uc010won.1_Frame_Shift_Del_p.P407fs|RPS6KB1_uc010woo.1_Frame_Shift_Del_p.P365fs|RPS6KB1_uc002ixz.2_RNA	NM_003161	NP_003152	P23443	KS6B1_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	430	Autoinhibitory domain.				apoptosis|G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|negative regulation of apoptosis|phosphatidylinositol-mediated signaling|positive regulation of mitotic cell cycle|positive regulation of translational initiation|TOR signaling cascade	cell junction|cytoplasm|cytosol|mitochondrial outer membrane|nucleus|nucleus|synapse|synaptosome	ATP binding|protein binding|protein kinase activity			large_intestine(1)	1	all_cancers(5;1.63e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.57e-12)|all cancers(12;6.41e-11)			CCTTTGAACCAAAAATCCGAT	0.368													13	30	---	---	---	---						.	-	58022829	-	-	58022829	7	5	65	1	0	1	0	1	0	0	0	0	13681	117	5	0	1344	0	RPS6KB1	17	58022829	Frame_Shift_Del	DEL	A	TCGA-BR-8360-01A-11D-2340-08	732156	58022829	23172381	538	43959											
PPM1D	8493	broad.mit.edu	37	chr17	58740439	58740439	+	Frame_Shift_Del	DEL	T	-	-																															agcaatgccttctcagagaaTtttttagaggtttcagctga																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:58740439delT	uc002iyt.1	+	6	1566	c.1344delT	c.(1342-1344)AATfs	p.N448fs	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	448					negative regulation of cell proliferation|protein dephosphorylation|response to radiation	nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein binding|protein serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)			TCTCAGAGAATTTTTTAGAGG	0.448											OREG0031485	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	38	82	---	---	---	---						.	-	58740439	-	-	58740439	7	5	65	1	0	1	0	1	0	0	0	0	12359	1490	52	0	1366	0	PPM1D	17	58740439	Frame_Shift_Del	DEL	T	TCGA-BR-8360-01A-11D-2340-08	717610	58740439	22454771	539	43960											
PPM1D	8493	broad.mit.edu	37	chr17	58740617	58740617	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaattcaacaaacactgtcAtggaccaaaaaaatttgaag	19	9	5	8	0	2	1	2	1	0	0	2	2	2	2	1	1	2	0	1	1	7	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:58740617A>G	uc002iyt.1	+	6	1744	c.1522A>G	c.(1522-1524)ATG>GTG	p.M508V	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	508					negative regulation of cell proliferation|protein dephosphorylation|response to radiation	nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein binding|protein serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)			AAACACTGTCATGGACCAAAA	0.378											OREG0031485	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	30	71					0	0	0.009535	0	0		G	58740617	G	G	58740617	3	3	65	1	0	0	0	0	1	0	0	0	12359	217	8	3	1544	3	PPM1D	17	58740617	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	178	58740617	22454593	540	43961											
TEX2	55852	broad.mit.edu	37	chr17	62272340	62272340	+	Frame_Shift_Del	DEL	T	-	-																															agctggccctcctggatataTttttattgggctttgaaagt																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:62272340delT	uc002jec.2	-	3	1933	c.1760delA	c.(1759-1761)AATfs	p.N587fs	TEX2_uc002jed.2_Frame_Shift_Del_p.N587fs|TEX2_uc002jee.2_Frame_Shift_Del_p.N587fs	NM_018469	NP_060939	Q8IWB9	TEX2_HUMAN	testis expressed sequence 2	587					signal transduction|sphingolipid metabolic process	integral to membrane				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		CCTGGATATATTTTTATTGGG	0.443													32	68	---	---	---	---						.	-	62272340	-	-	62272340	7	5	65	1	0	1	0	1	0	0	0	0	15806	1493	52	0	1684	0	TEX2	17	62272340	Frame_Shift_Del	DEL	T	TCGA-BR-8360-01A-11D-2340-08	3531723	62272340	18922870	541	43962											
CCDC45	90799	broad.mit.edu	37	chr17	62532743	62532743	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaagaaactgtttgaagaAggtttaaacattcaaaagca	18	12	7	4	0	1	3	1	1	0	2	1	3	1	3	0	1	3	3	0	1	8	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:62532743A>C	uc002jem.2	+	18	2152	c.2094A>C	c.(2092-2094)GAA>GAC	p.E698D	CCDC45_uc002jen.2_RNA|CCDC45_uc010wqb.1_Missense_Mutation_p.E534D	NM_138363	NP_612372	Q96GE4	CEP95_HUMAN	coiled-coil domain containing 45	698						centrosome|spindle pole	protein binding				0	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			TGTTTGAAGAAGGTTTAAACA	0.348													17	41					0	0	0.008871	0	0		C	62532743	C	C	62532743	3	2	65	1	0	0	0	0	1	0	0	0	2819	69	3	5	2164	5	CCDC45	17	62532743	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	260403	62532743	18662467	542	43963											
CACNG5	27091	broad.mit.edu	37	chr17	64873462	64873462	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaggaagatgagtgcctgCgggaggaaggccctgaccct	9	6	15	11	1	0	3	0	2	0	1	1	6	1	6	4	4	2	0	4	4	2	0	rs138908277		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:64873462C>T	uc010wqi.1	+	2	249	c.12C>T	c.(10-12)TGC>TGT	p.C4C	CACNG5_uc002jfr.2_Silent_p.C4C|CACNG5_uc010wqj.1_Silent_p.C4C	NM_145811	NP_665810	Q9UF02	CCG5_HUMAN	voltage-dependent calcium channel gamma-5	4					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|postsynaptic density|postsynaptic membrane	voltage-gated calcium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(6;1.61e-08)			TGAGTGCCTGCGGGAGGAAGG	0.637													25	39					0	0	0.004656	0	0		T	64873462	T	T	64873462	2	4	65	1	0	0	0	0	0	0	0	1	2563	776	27	1		1	CACNG5	17	64873462	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2340719	64873462	16321748	543	43964											
PRKAR1A	5573	broad.mit.edu	37	chr17	66511682	66511682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcgacctgagagacccatgGcattcctcagggaatacttt	10	10	9	12	1	1	2	1	1	0	1	3	5	2	3	3	2	1	1	3	2	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:66511682G>A	uc002jhg.2	+	2	322	c.142G>A	c.(142-144)GCA>ACA	p.A48T	PRKAR1A_uc002jhh.2_Missense_Mutation_p.A48T|PRKAR1A_uc002jhi.2_Missense_Mutation_p.A48T|PRKAR1A_uc002jhj.2_Missense_Mutation_p.A48T|PRKAR1A_uc002jhk.2_5'UTR|PRKAR1A_uc002jhl.2_Missense_Mutation_p.A48T|PRKAR1A_uc002jhm.2_Missense_Mutation_p.A48T	NM_212471	NP_997636	P10644	KAP0_HUMAN	cAMP-dependent protein kinase, regulatory	48	Dimerization and phosphorylation.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity|protein binding			adrenal_gland(4)|lung(3)|thyroid(2)|soft_tissue(2)|breast(1)	12	Breast(10;1.64e-13)					GAGACCCATGGCATTCCTCAG	0.438			T|Mis|N|F|S	RET	papillary thyroid	myxoma|endocrine|papillary thyroid			Carney_Complex|Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial|Cardiac_Myxomas_Familial_Clustering_of				13	23					0	0	0.001855	0	0		A	66511682	A	A	66511682	3	1	65	1	0	0	0	0	1	0	0	0	12525	1203	42	2	144	2	PRKAR1A	17	66511682	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1638220	66511682	14683528	544	43965											
ABCA9	10350	broad.mit.edu	37	chr17	66980295	66980295	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgcccctctccgtgtttctAaaggtggcccgaatcacctg	6	10	10	15	3	3	0	1	0	2	0	4	1	3	0	5	2	0	1	5	2	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:66980295A>G	uc002jhu.2	-	35	4544	c.4401T>C	c.(4399-4401)TTT>TTC	p.F1467F	ABCA9_uc010dez.2_Silent_p.F1429F	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1467	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					CCGTGTTTCTAAAGGTGGCCC	0.507													22	39					0	0	0.012319	0	0		G	66980295	G	G	66980295	2	3	65	1	0	0	0	0	0	0	0	1	39	359	13	3		3	ABCA9	17	66980295	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	468613	66980295	14214915	545	43966											
UBE2O	63893	broad.mit.edu	37	chr17	74394635	74394635	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtccccagactgtaccacaCcgtagacagcagggtctgga	10	6	12	13	1	1	2	0	0	1	2	2	3	2	3	4	3	2	3	4	3	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:74394635C>A	uc002jrm.3	-	11	1879	c.1814G>T	c.(1813-1815)GGT>GTT	p.G605V	UBE2O_uc002jrn.3_Missense_Mutation_p.G605V|UBE2O_uc002jrl.3_Missense_Mutation_p.G208V	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	605							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						CTGTACCACACCGTAGACAGC	0.587											OREG0024751	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	48					1.99824e-07	2.07707e-07	0.00499	1	0		A	74394635	A	A	74394635	3	1	65	1	0	0	0	0	1	0	0	0	16894	507	18	5	2096	5	UBE2O	17	74394635	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	7414340	74394635	6800575	546	43967											
RNF213	57674	broad.mit.edu	37	chr17	78319303	78319303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccccaggccaccgaccccGacaaaacgtatgagctcaca	12	4	7	18	3	1	1	1	1	0	0	2	3	2	1	6	1	2	2	6	1	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:78319303G>A	uc002jyh.1	+	4	1610	c.1387G>A	c.(1387-1389)GAC>AAC	p.D463N		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			CACCGACCCCGACAAAACGTA	0.527													18	60					0	0	0.007413	0	0		A	78319303	A	A	78319303	3	1	65	1	0	0	0	0	1	0	0	0	13502	1058	37	1	7597	1	RNF213	17	78319303	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3924668	78319303	2875907	547	43968											
NPLOC4	55666	broad.mit.edu	37	chr17	79539094	79539094	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggccagctgggtgatctcGttgccaaacttgtctacgtc	6	11	12	12	3	2	1	0	1	2	0	4	1	2	1	2	2	4	2	2	2	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:79539094G>C	uc002kat.3	-	13	1484	c.1302C>G	c.(1300-1302)AAC>AAG	p.N434K	NPLOC4_uc002kau.3_Missense_Mutation_p.N434K|NPLOC4_uc010wur.1_Missense_Mutation_p.N273K|NPLOC4_uc002kas.2_5'Flank	NM_017921	NP_060391	Q8TAT6	NPL4_HUMAN	nuclear protein localization 4	434					cellular membrane fusion|ER-associated protein catabolic process|Golgi organization	cytosol|endoplasmic reticulum|nuclear outer membrane-endoplasmic reticulum membrane network|nucleus	zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GGGTGATCTCGTTGCCAAACT	0.542													5	12					0	0	0.000602	0	0		C	79539094	C	C	79539094	3	2	65	1	0	0	0	0	1	0	0	0	10605	1136	40	5	544	5	NPLOC4	17	79539094	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1219791	79539094	1656116	548	43969											
DCXR	51181	broad.mit.edu	37	chr17	79994478	79994478	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggctggagacattcacgatGgcccctgggactccccgggc	6	7	14	14	2	1	1	1	0	0	1	2	4	2	2	4	5	0	1	4	5	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:79994478G>A	uc002kdg.2	-	5	405	c.390C>T	c.(388-390)GCC>GCT	p.A130A		NM_016286	NP_057370	Q7Z4W1	DCXR_HUMAN	dicarbonyl/L-xylulose reductase	130					D-xylose metabolic process|glucose metabolic process|protein homotetramerization|xylulose metabolic process	membrane	binding|L-xylulose reductase (NADP+) activity				0	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			CATTCACGATGGCCCCTGGGA	0.532													21	43					0	0	0.012319	0	0		A	79994478	A	A	79994478	2	1	65	1	0	0	0	0	0	0	0	1	4322	1335	47	4		4	DCXR	17	79994478	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	455384	79994478	1200732	549	43970											
HEXDC	284004	broad.mit.edu	37	chr17	80397570	80397570	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcccgtccctggccgcctgCctgcagttgcttctacgcgg	2	10	12	17	4	1	0	0	0	1	0	3	0	3	0	5	2	4	3	5	2	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr17:80397570C>T	uc002kew.2	+	8	1014	c.963C>T	c.(961-963)TGC>TGT	p.C321C	HEXDC_uc002kev.3_Silent_p.C321C|HEXDC_uc010diq.2_Silent_p.C321C|HEXDC_uc010wvm.1_RNA|HEXDC_uc010wvn.1_Silent_p.C84C			Q8WVB3	HEXDC_HUMAN	SubName: Full=Hexosaminidase (Glycosyl hydrolase family 20, catalytic domain) containing, isoform CRA_c; SubName: Full=Hexosaminidase D;	321					carbohydrate metabolic process	cytoplasm|nucleus	beta-N-acetylhexosaminidase activity|cation binding			ovary(1)|skin(1)	2	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			TGGCCGCCTGCCTGCAGTTGC	0.682													21	64					0	0	0.012319	0	0		T	80397570	T	T	80397570	2	4	65	1	0	0	0	0	0	0	0	1	7091	747	26	2		2	HEXDC	17	80397570	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	403092	80397570	797640	550	43971											
ENOSF1	55556	broad.mit.edu	37	chr18	683287	683287	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaatgtcatcaggggaggTtggctcctcaatccacaatg	11	9	11	10	0	3	1	3	0	0	1	5	2	5	2	2	4	0	2	2	4	3	1	rs146518307	by1000genomes	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:683287T>A	uc002kku.3	-	11	910	c.835A>T	c.(835-837)ACC>TCC	p.T279S	ENOSF1_uc002kkt.3_Missense_Mutation_p.T197S|ENOSF1_uc010dke.2_RNA|ENOSF1_uc010dkf.2_Missense_Mutation_p.T300S|ENOSF1_uc002kkv.3_Missense_Mutation_p.T266S|ENOSF1_uc002kkw.3_Missense_Mutation_p.T98S|ENOSF1_uc002kkx.3_Missense_Mutation_p.T203S	NM_017512	NP_059982	Q7L5Y1	ENOF1_HUMAN	enolase superfamily 1 isoform rTS beta	279					cellular amino acid catabolic process	mitochondrion	isomerase activity|metal ion binding			ovary(1)	1						TCAGGGGAGGTTGGCTCCTCA	0.532													37	76					0	0	0.00623	0	0		A	683287	A	A	683287	3	1	65	1	0	0	0	0	1	0	0	0	5133	1725	60	5	520	5	ENOSF1	18	683287	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08		683287	77393961	551	43972											
LAMA1	284217	broad.mit.edu	37	chr18	6959369	6959369	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaccaaggagatggaatgCgcttgtccatcactgcaggt	10	9	12	10	1	1	2	1	1	0	1	2	4	2	3	2	3	2	2	2	3	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:6959369C>T	uc002knm.2	-	54	7843	c.7749G>A	c.(7747-7749)GCG>GCA	p.A2583A	LAMA1_uc002knk.2_5'Flank|LAMA1_uc002knl.2_Silent_p.A36A|LAMA1_uc010wzj.1_Silent_p.A2059A	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2583	Laminin G-like 3.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGATGGAATGCGCTTGTCCAT	0.562													30	81					0	0	0.007291	0	0		T	6959369	T	T	6959369	2	4	65	1	0	0	0	0	0	0	0	1	8621	755	27	1		1	LAMA1	18	6959369	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	6276082	6959369	71117879	552	43973											
TUBB6	84617	broad.mit.edu	37	chr18	12325590	12325590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgcgcctgcacttcttcatgCctggcttcgcgccgctcacc	3	10	9	19	5	3	0	2	0	1	0	4	0	3	0	4	1	2	3	4	1	0	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:12325590C>T	uc002kqw.2	+	4	847	c.802C>T	c.(802-804)CCT>TCT	p.P268S	TUBB6_uc002kqv.2_Missense_Mutation_p.P196S|TUBB6_uc010dld.2_RNA|TUBB6_uc002kqx.2_Missense_Mutation_p.P231S|TUBB6_uc002kqy.2_Intron	NM_032525	NP_115914	Q9BUF5	TBB6_HUMAN	tubulin, beta 6	268					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0				READ - Rectum adenocarcinoma(1;0.0649)		CTTCTTCATGCCTGGCTTCGC	0.672													8	58					0	0	0.004482	0	0		T	12325590	T	T	12325590	3	4	65	1	0	0	0	0	1	0	0	0	16786	739	26	2	816	2	TUBB6	18	12325590	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	5366221	12325590	65751658	553	43974											
MEP1B	4225	broad.mit.edu	37	chr18	29788119	29788119	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggactcgtgcagttttgaActggaaaatgtgtgtggcat	10	13	13	5	1	0	1	0	1	0	0	1	3	0	3	0	3	2	3	0	3	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:29788119A>G	uc002kxj.3	+	9	851	c.804A>G	c.(802-804)GAA>GAG	p.E268E		NM_005925	NP_005916	Q16820	MEP1B_HUMAN	meprin A beta precursor	268	Extracellular (Potential).|MAM.				digestion|proteolysis	extracellular space|integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)	2						GCAGTTTTGAACTGGAAAATG	0.413													57	131					0	0	0.00361	0	0		G	29788119	G	G	29788119	2	3	65	1	0	0	0	0	0	0	0	1	9494	40	2	3		3	MEP1B	18	29788119	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	17462529	29788119	48289129	554	43975											
FAM59A	64762	broad.mit.edu	37	chr18	29850274	29850274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtgcgaggagggatggaggGactggtggacaaaggctttg	9	8	20	4	1	0	0	0	0	0	0	0	6	0	5	0	7	1	1	0	7	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:29850274G>A	uc002kxl.2	-	5	1695	c.1639C>T	c.(1639-1641)CCC>TCC	p.P547S	FAM59A_uc002kxk.1_Missense_Mutation_p.P547S	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	547	Pro-rich.									ovary(1)|skin(1)	2						GGGATGGAGGGACTGGTGGAC	0.572													12	6					0	0	0.001368	0	0		A	29850274	A	A	29850274	3	1	65	1	0	0	0	0	1	0	0	0	5606	1174	41	4	996	4	FAM59A	18	29850274	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	62155	29850274	48226974	555	43976											
ELP2	55250	broad.mit.edu	37	chr18	33744530	33744530	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccacagtttgacagtcacGcagatggccttctcacctaa	10	11	7	13	1	2	2	2	1	1	1	4	2	3	2	3	1	0	2	3	1	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:33744530G>A	uc002kzk.1	+	18	1864	c.1854G>A	c.(1852-1854)ACG>ACA	p.T618T	ELP2_uc010xcg.1_Silent_p.T683T|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Silent_p.T592T|ELP2_uc010xch.1_Silent_p.T613T|ELP2_uc002kzn.1_Silent_p.T548T|ELP2_uc002kzo.1_Silent_p.T548T	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	618	WD 11.				regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						TGACAGTCACGCAGATGGCCT	0.433													34	89					0	0	0.003271	0	0		A	33744530	A	A	33744530	2	1	65	1	0	0	0	0	0	0	0	1	5088	1074	38	1		1	ELP2	18	33744530	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3894256	33744530	44332718	556	43977											
FHOD3	80206	broad.mit.edu	37	chr18	34349306	34349306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgatgagatcatggaccGcatcgtcaagtcagccaccc	11	7	10	13	2	3	2	3	2	0	1	4	4	3	3	3	1	2	2	3	1	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:34349306G>A	uc002kzt.1	+	23	4200	c.4103G>A	c.(4102-4104)CGC>CAC	p.R1368H	FHOD3_uc002kzs.1_Missense_Mutation_p.R1385H|FHOD3_uc010dmz.1_Missense_Mutation_p.R1100H|FHOD3_uc010dnb.1_Missense_Mutation_p.A306T	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	1368	DAD.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				ATCATGGACCGCATCGTCAAG	0.517													29	45					0	0	0.00632	0	0		A	34349306	A	A	34349306	3	1	65	1	0	0	0	0	1	0	0	0	5897	1087	38	1	4248	1	FHOD3	18	34349306	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	604776	34349306	43727942	557	43978											
SETBP1	26040	broad.mit.edu	37	chr18	42532660	42532660	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcatggagtacacctgcagGgacctgttagcatgggcctt	9	9	13	10	0	0	0	0	0	0	0	0	2	0	2	3	3	4	5	3	3	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:42532660G>T	uc010dni.2	+	4	3651	c.3355G>T	c.(3355-3357)GGA>TGA	p.G1119*		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1119						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		ACACCTGCAGGGACCTGTTAG	0.547									Schinzel-Giedion_syndrome				19	52					1.87028e-06	1.93526e-06	0.012319	1	0		T	42532660	T	T	42532660	4	4	65	1	0	0	0	0	0	1	0	0	14154	1233	43	5	3558	5	SETBP1	18	42532660	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	8183354	42532660	35544588	558	43979											
ZBTB7C	201501	broad.mit.edu	37	chr18	45567019	45567019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttcctcctcctcctcttCgtcctcctcatcatcatcat	4	16	1	20	1	6	0	4	0	2	0	13	0	12	0	6	0	0	0	6	0	0	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:45567019C>T	uc002lda.2	-	1	476	c.460G>A	c.(460-462)GAA>AAA	p.E154K	ZBTB7C_uc002ldb.2_Missense_Mutation_p.E154K|ZBTB7C_uc010dnu.2_Missense_Mutation_p.E163K|ZBTB7C_uc010dnv.2_Missense_Mutation_p.E176K|ZBTB7C_uc010dnw.2_Missense_Mutation_p.E154K|ZBTB7C_uc010dnx.1_Missense_Mutation_p.E154K|ZBTB7C_uc010dny.1_Missense_Mutation_p.E154K|ZBTB7C_uc010dnz.1_Missense_Mutation_p.E176K|ZBTB7C_uc010dob.1_Missense_Mutation_p.E154K|ZBTB7C_uc010doc.1_Missense_Mutation_p.E163K|ZBTB7C_uc010dod.1_Missense_Mutation_p.E176K|ZBTB7C_uc010doe.1_Missense_Mutation_p.E154K|ZBTB7C_uc010dof.1_Missense_Mutation_p.E154K|ZBTB7C_uc010dog.1_Missense_Mutation_p.E154K|ZBTB7C_uc010doh.1_Missense_Mutation_p.E163K|ZBTB7C_uc010doi.1_Missense_Mutation_p.E154K|ZBTB7C_uc010doj.1_Missense_Mutation_p.E163K|ZBTB7C_uc010dok.1_Missense_Mutation_p.E203K|ZBTB7C_uc010dol.1_Missense_Mutation_p.E163K|ZBTB7C_uc010doa.1_Missense_Mutation_p.E176K|ZBTB7C_uc010don.1_Missense_Mutation_p.E162K|ZBTB7C_uc010doo.1_Missense_Mutation_p.E154K|ZBTB7C_uc010dop.1_Missense_Mutation_p.E154K|ZBTB7C_uc010doq.1_Missense_Mutation_p.E163K|ZBTB7C_uc010dor.1_Missense_Mutation_p.E176K|ZBTB7C_uc010dos.1_Missense_Mutation_p.E154K|ZBTB7C_uc010dot.1_Missense_Mutation_p.E154K|ZBTB7C_uc010dou.1_Missense_Mutation_p.E163K|ZBTB7C_uc010dom.1_Missense_Mutation_p.E163K	NM_001039360	NP_001034449	A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	154	Glu-rich.|Asp-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						tcctcctcttcgtcctcctca	0.284													12	33					0	0	0.001368	0	0		T	45567019	T	T	45567019	3	4	65	1	0	0	0	0	1	0	0	0	17580	893	31	1	1407	1	ZBTB7C	18	45567019	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3034359	45567019	32510229	559	43980											
CXXC1	30827	broad.mit.edu	37	chr18	47809075	47809075	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatggctgtgcgcacattgCgctcctgctcaaacagctcg	7	10	10	14	3	2	0	2	0	0	0	4	0	3	0	1	1	5	5	1	1	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:47809075C>A	uc002leq.3	-	15	2592	c.1859G>T	c.(1858-1860)CGC>CTC	p.R620L	MBD1_uc002leg.2_5'Flank|MBD1_uc010dow.1_5'Flank|MBD1_uc010xdi.1_5'Flank|MBD1_uc002leh.3_5'Flank|MBD1_uc002len.2_5'Flank|MBD1_uc002lei.3_5'Flank|MBD1_uc002lej.3_5'Flank|MBD1_uc002lek.3_5'Flank|MBD1_uc002lel.3_5'Flank|MBD1_uc002lem.3_5'Flank|MBD1_uc010xdj.1_5'Flank|MBD1_uc010xdk.1_5'Flank|MBD1_uc010dox.1_5'Flank|MBD1_uc002leo.2_5'Flank|CXXC1_uc002lep.3_Missense_Mutation_p.R477L|CXXC1_uc002ler.3_Missense_Mutation_p.R624L|CXXC1_uc010doy.2_Missense_Mutation_p.A608S	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	620					histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GCGCACATTGCGCTCCTGCTC	0.642													14	24					4.3838e-07	4.54985e-07	0.001855	1	0		A	47809075	A	A	47809075	3	1	65	1	0	0	0	0	1	0	0	0	4100	768	27	5	115	5	CXXC1	18	47809075	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2242056	47809075	30268173	560	43981											
RAX	30062	broad.mit.edu	37	chr18	56939817	56939817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctcggccgtgcctcccCgggctccttggggcagtagg	2	8	17	14	3	0	0	0	0	0	0	3	0	2	0	5	6	1	4	5	6	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:56939817C>T	uc002lhx.2	-	2	506	c.319G>A	c.(319-321)GGG>AGG	p.G107R	RAX_uc010dpp.2_Intron	NM_013435	NP_038463	Q9Y2V3	RX_HUMAN	retina and anterior neural fold homeobox	107				G -> W (in Ref. 1; AAD23438).	visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1		Lung NSC(161;0.0804)|Colorectal(73;0.0946)		STAD - Stomach adenocarcinoma(84;0.18)		CGTGCCTCCCCGGGCTCCTTG	0.697													18	30					0	0	0.006122	0	0		T	56939817	T	T	56939817	3	4	65	1	0	0	0	0	1	0	0	0	13121	652	23	1	729	1	RAX	18	56939817	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	9130742	56939817	21137431	561	43982											
SERPINB3	6317	broad.mit.edu	37	chr18	61322973	61322973	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggaaagggtgattacaaTggaactcttcattagttgaa	15	12	10	4	0	2	2	1	2	1	0	2	4	2	4	0	3	2	1	0	3	7	5	rs61733404	byFrequency	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:61322973T>C	uc002lji.2	-	8	1235	c.1091A>G	c.(1090-1092)CAT>CGT	p.H364R	SERPINB4_uc002ljg.2_Intron|SERPINB3_uc010dqa.2_Missense_Mutation_p.H312R	NM_006919	NP_008850	P29508	SPB3_HUMAN	serine (or cysteine) proteinase inhibitor, clade	364					regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GTGATTACAATGGAACTCTTC	0.458													41	97					0	0	0.010771	0	0		C	61322973	C	C	61322973	3	2	65	1	0	0	0	0	1	0	0	0	14127	1464	51	3	85	3	SERPINB3	18	61322973	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	4383156	61322973	16754275	562	43983											
RTTN	25914	broad.mit.edu	37	chr18	67715346	67715346	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgcttcttcggtcaagAgaacagaaaggaattgcaag	13	11	10	7	1	2	2	1	0	1	2	3	4	2	3	0	2	3	2	0	2	5	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:67715346A>C	uc002lkp.2	-	40	5470	c.5402T>G	c.(5401-5403)CTC>CGC	p.L1801R	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.L889R|RTTN_uc010dqp.2_Missense_Mutation_p.L53R	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1801							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TTCGGTCAAGAGAACAGAAAG	0.443													13	48					0	0	0.001855	0	0		C	67715346	C	C	67715346	3	2	65	1	0	0	0	0	1	0	0	0	13762	304	11	5	1318	5	RTTN	18	67715346	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	6392373	67715346	10361902	563	43984											
SALL3	27164	broad.mit.edu	37	chr18	76754516	76754516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcatctccagcattgccgCcctggagaaccagatgaaga	11	7	11	12	1	2	4	1	1	1	3	3	5	2	4	4	2	3	1	4	2	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:76754516C>T	uc002lmt.2	+	2	2525	c.2525C>T	c.(2524-2526)GCC>GTC	p.A842V	SALL3_uc010dra.2_Missense_Mutation_p.A449V	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	842					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		AGCATTGCCGCCCTGGAGAAC	0.672													14	25					0	0	0.004007	0	0		T	76754516	T	T	76754516	3	4	65	1	0	0	0	0	1	0	0	0	13837	739	26	2	2531	2	SALL3	18	76754516	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	9039170	76754516	1322732	564	43985											
KCNG2	26251	broad.mit.edu	37	chr18	77659548	77659548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacggcgacatggtcccgcGcagcctgcccgggcaggtgg	5	5	16	15	5	0	0	0	0	0	0	1	1	1	0	3	5	3	2	3	5	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:77659548G>A	uc010xfl.1	+	2	1133	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H		NM_012283	NP_036415	Q9UJ96	KCNG2_HUMAN	potassium voltage-gated channel, subfamily G,	378					energy reserve metabolic process|regulation of heart contraction|regulation of insulin secretion	voltage-gated potassium channel complex	delayed rectifier potassium channel activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;6.92e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0244)		ATGGTCCCGCGCAGCCTGCCC	0.687													4	34					0	0	0.009096	0	0		A	77659548	A	A	77659548	3	1	65	1	0	0	0	0	1	0	0	0	8044	1087	38	1	1139	1	KCNG2	18	77659548	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	905032	77659548	417700	565	43986											
KCNG2	26251	broad.mit.edu	37	chr18	77659577	77659577	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggcaggtggtggcgctcAgcagcatcctcagcggcatc	6	6	15	14	3	2	0	2	0	0	0	4	0	3	0	2	5	3	5	2	5	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr18:77659577A>G	uc010xfl.1	+	2	1162	c.1162A>G	c.(1162-1164)AGC>GGC	p.S388G		NM_012283	NP_036415	Q9UJ96	KCNG2_HUMAN	potassium voltage-gated channel, subfamily G,	388	Helical; Name=Segment S6; (Potential).				energy reserve metabolic process|regulation of heart contraction|regulation of insulin secretion	voltage-gated potassium channel complex	delayed rectifier potassium channel activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;6.92e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0244)		GGTGGCGCTCAGCAGCATCCT	0.662													10	34					0	0	0.006214	0	0		G	77659577	G	G	77659577	3	3	65	1	0	0	0	0	1	0	0	0	8044	188	7	3	1168	3	KCNG2	18	77659577	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	29	77659577	417671	566	43987											
MIDN	90007	broad.mit.edu	37	chr19	1257208	1257208	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccggcttgggcctcgacttCgaggactccgtgtggaagcc	5	9	14	13	4	0	0	0	0	0	0	4	4	2	2	4	4	1	1	4	4	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:1257208C>T	uc002lrp.2	+	8	1859	c.1344C>T	c.(1342-1344)TTC>TTT	p.F448F		NM_177401	NP_796375	Q504T8	MIDN_HUMAN	midnolin	448						nucleolus					0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCTCGACTTCGAGGACTCCG	0.672													17	48					0	0	0.00499	0	0		T	1257208	T	T	1257208	2	4	65	1	0	0	0	0	0	0	0	1	9597	883	31	1		1	MIDN	19	1257208	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08		1257208	57871775	567	43988											
ZFR2	23217	broad.mit.edu	37	chr19	3823259	3823259	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctcctccacatattcCgggcccaccggctgcgcatc	6	9	7	19	3	0	0	0	0	0	0	4	0	3	0	6	2	2	2	6	2	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:3823259C>T	uc002lyw.2	-	8	1368	c.1356G>A	c.(1354-1356)CCG>CCA	p.P452P	ZFR2_uc010xhx.1_RNA	NM_015174	NP_055989	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2 isoform 1	452						intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		CCACATATTCCGGGCCCACCG	0.617													35	71					0	0	0.006999	0	0		T	3823259	T	T	3823259	2	4	65	1	0	0	0	0	0	0	0	1	17685	639	23	1		1	ZFR2	19	3823259	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2566051	3823259	55305724	568	43989											
SEMA6B	10501	broad.mit.edu	37	chr19	4548310	4548310	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtctcaaactcctccaggaaGacactgagcccagacgtccc	11	6	8	16	1	1	3	1	1	1	2	5	4	4	4	4	1	2	0	4	1	2	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:4548310G>A	uc010duc.1	-	12	1457	c.1419C>T	c.(1417-1419)GTC>GTT	p.V473V	SEMA6B_uc010dud.2_Silent_p.V473V|SEMA6B_uc010xih.1_Silent_p.V473V	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	473	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCCAGGAAGACACTGAGCC	0.627													14	41					0	0	0.003163	0	0		A	4548310	A	A	4548310	2	1	65	1	0	0	0	0	0	0	0	1	14065	929	33	4		4	SEMA6B	19	4548310	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	725051	4548310	54580673	569	43990											
KDM4B	23030	broad.mit.edu	37	chr19	5039897	5039897	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacgtatgatgacatcgaCgacgtggtgatcccggcgcc	9	7	13	12	6	0	4	0	3	0	1	2	6	1	4	2	2	0	1	2	2	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:5039897C>T	uc002mbq.3	+	4	418	c.192C>T	c.(190-192)GAC>GAT	p.D64D	KDM4B_uc010xil.1_Silent_p.D64D|KDM4B_uc010xim.1_Silent_p.D64D	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	64					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						ATGACATCGACGACGTGGTGA	0.612													27	48					0	0	0.007291	0	0		T	5039897	T	T	5039897	2	4	65	1	0	0	0	0	0	0	0	1	8145	535	19	1		1	KDM4B	19	5039897	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	491587	5039897	54089086	570	43991											
SAFB	6294	broad.mit.edu	37	chr19	5668284	5668284	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggcccagcgatgcccgCttcactcgccgctactgagt	7	7	11	16	4	1	1	1	1	0	0	2	2	1	1	3	1	4	3	3	1	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:5668284C>T	uc002mcf.2	+	21	2783	c.2730C>T	c.(2728-2730)CGC>CGT	p.R910R	SAFB_uc002mcg.2_Silent_p.R912R|SAFB_uc002mce.3_Silent_p.R911R|SAFB_uc010xir.1_Silent_p.R909R|SAFB_uc010xis.1_Silent_p.R843R|SAFB_uc010xit.1_Silent_p.R754R|SAFB_uc010xiu.1_Silent_p.R711R	NM_002967	NP_002958	Q15424	SAFB1_HUMAN	scaffold attachment factor B	910	Interaction with SAFB2.				chromatin organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding			ovary(1)|liver(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;0.000222)		GCGATGCCCGCTTCACTCGCC	0.592													19	27					0	0	0.006122	0	0		T	5668284	T	T	5668284	2	4	65	1	0	0	0	0	0	0	0	1	13831	784	28	2		2	SAFB	19	5668284	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	628387	5668284	53460699	571	43992											
C3	718	broad.mit.edu	37	chr19	6697481	6697481	+	Frame_Shift_Del	DEL	G	-	-																															ggaacggacaacgaggacttGggggggatggttacggtctg																								rs137956083		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:6697481delG	uc002mfm.2	-	21	2732	c.2670delC	c.(2668-2670)CCCfs	p.P890fs		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	890					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		ACGAGGACTTGGGGGGGATGG	0.572													17	38	---	---	---	---						.	-	6697481	-	-	6697481	7	5	65	1	0	1	0	1	0	0	0	0	2207	1335	47	0	2405	0	C3	19	6697481	Frame_Shift_Del	DEL	G	TCGA-BR-8360-01A-11D-2340-08	1029197	6697481	52431502	572	43993											
MAP2K7	5609	broad.mit.edu	37	chr19	7977071	7977073	+	In_Frame_Del	DEL	AAG	-	-																															ggaagagaccaaagtataatAagctacttgtgagtacctga																								rs139511301	by1000genomes	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:7977071_7977073delAAG	uc002mit.2	+	10	1182_1184	c.1117_1119delAAG	c.(1117-1119)AAGdel	p.K373del	MAP2K7_uc002miv.2_In_Frame_Del_p.K380del|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_In_Frame_Del_p.K380del|MAP2K7_uc010dvv.2_In_Frame_Del_p.K248del	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	373	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	AAAGTATAATAAGCTACTTGTGA	0.596													26	59	---	---	---	---						.	-	7977073	-	-	7977071	7	5	65	1	0	1	0	1	0	0	0	0	9260	363	13	0	1155	0	MAP2K7	19	7977071	In_Frame_Del	DEL	AAG	TCGA-BR-8360-01A-11D-2340-08	1279590	7977071	51151912	573	43994											
MYO1F	4542	broad.mit.edu	37	chr19	8616964	8616964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcattttgcatgaccaCgcgggacttctccagcaaga	10	12	8	11	2	2	2	1	1	1	1	3	3	2	3	2	1	2	2	2	1	1	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:8616964C>T	uc002mkg.2	-	7	703	c.589G>A	c.(589-591)GTG>ATG	p.V197M	MYO1F_uc002mkh.2_Missense_Mutation_p.V197M|MYO1F_uc010xkf.1_Missense_Mutation_p.V197M	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	197	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						TGCATGACCACGCGGGACTTC	0.577													20	63					0	0	0.008871	0	0		T	8616964	T	T	8616964	3	4	65	1	0	0	0	0	1	0	0	0	10091	536	19	1	2795	1	MYO1F	19	8616964	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	639893	8616964	50512019	574	43995											
MYO1F	4542	broad.mit.edu	37	chr19	8619568	8619568	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagaggtcgatctcacggtcGgtgaagtagggcatctgctt	8	11	14	8	3	2	2	1	1	2	1	5	3	2	2	0	4	1	3	0	4	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:8619568G>A	uc002mkg.2	-	3	315	c.201C>T	c.(199-201)ACC>ACT	p.T67T	MYO1F_uc002mkh.2_Silent_p.T67T|MYO1F_uc010xkf.1_Silent_p.T67T	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	67	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						TCTCACGGTCGGTGAAGTAGG	0.612													20	45					0	0	0.008871	0	0		A	8619568	A	A	8619568	2	1	65	1	0	0	0	0	0	0	0	1	10091	1103	39	1		1	MYO1F	19	8619568	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2604	8619568	50509415	575	43996											
OR7G2	390882	broad.mit.edu	37	chr19	9213400	9213400	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcacagaagaagagcgggaTttccaggtctgtgcagaagg	12	8	14	7	1	2	4	1	0	1	4	3	5	3	5	1	3	2	1	1	3	3	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:9213400T>G	uc010xkk.1	-	1	583	c.583A>C	c.(583-585)ATC>CTC	p.I195L		NM_001005193	NP_001005193	Q8NG99	OR7G2_HUMAN	olfactory receptor, family 7, subfamily G,	174	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AAGAGCGGGATTTCCAGGTCT	0.478													15	42					0	0	0.00245	0	0		G	9213400	G	G	9213400	3	3	65	1	0	0	0	0	1	0	0	0	11242	1493	52	5	456	5	OR7G2	19	9213400	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	593832	9213400	49915583	576	43997											
CDKN2D	1032	broad.mit.edu	37	chr19	10677793	10677793	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtcctgagcccctctctGcagtgccagctccaagggtg	6	8	13	14	0	1	1	0	1	1	0	4	2	3	1	5	2	4	2	5	2	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:10677793G>A	uc002mpa.2	-	2	744	c.442C>T	c.(442-444)CAG>TAG	p.Q148*	KRI1_uc002mox.1_5'Flank|KRI1_uc002moy.1_5'Flank|CDKN2D_uc002mpb.2_Nonsense_Mutation_p.Q148*	NM_001800	NP_001791	P55273	CDN2D_HUMAN	cyclin-dependent kinase inhibitor 2D	148	ANK 4.				anti-apoptosis|autophagic cell death|cell cycle arrest|DNA synthesis involved in DNA repair|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|negative regulation of caspase activity|negative regulation of cell growth|negative regulation of cell proliferation|regulation of cyclin-dependent protein kinase activity|response to retinoic acid|response to UV|response to vitamin D	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|protein kinase binding				0			Epithelial(33;1.58e-05)|all cancers(31;6.36e-05)			GCCCCTCTCTGCAGTGCCAGC	0.612									Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System				33	55					0	0	0.012213	0	0		A	10677793	A	A	10677793	4	1	65	1	0	0	0	0	0	1	0	0	3169	1328	46	2	62	2	CDKN2D	19	10677793	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1464393	10677793	48451190	577	43998											
ELAVL3	1995	broad.mit.edu	37	chr19	11565638	11565638	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacaggcccacgcccgccagGccgctcataccatcgatggc	8	4	11	18	4	1	0	1	0	0	0	2	2	1	0	5	3	1	1	5	3	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:11565638G>A	uc002mry.1	-	7	1187	c.807C>T	c.(805-807)GGC>GGT	p.G269G	ELAVL3_uc002mrx.1_Silent_p.G262G	NM_001420	NP_001411	Q14576	ELAV3_HUMAN	ELAV-like protein 3 isoform 1	269					cell differentiation|nervous system development		AU-rich element binding|nucleotide binding			ovary(1)|breast(1)|skin(1)	3						CGCCCGCCAGGCCGCTCATAC	0.577													36	117					0	0	0.005524	0	0		A	11565638	A	A	11565638	2	1	65	1	0	0	0	0	0	0	0	1	5059	1190	42	2		2	ELAVL3	19	11565638	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	887845	11565638	47563345	578	43999											
ZNF700	90592	broad.mit.edu	37	chr19	12059372	12059372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagaaagccttcaggtatcGcccatccattagaacacaag	15	8	7	11	1	1	2	1	0	0	2	3	2	2	2	3	1	2	1	3	1	6	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:12059372G>A	uc002msu.2	+	4	659	c.533G>A	c.(532-534)CGC>CAC	p.R178H	ZNF700_uc010xme.1_Missense_Mutation_p.R196H|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	178					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTCAGGTATCGCCCATCCATT	0.403													42	120					0	0	0.006999	0	0		A	12059372	A	A	12059372	3	1	65	1	0	0	0	0	1	0	0	0	18129	1087	38	1	547	1	ZNF700	19	12059372	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	493734	12059372	47069611	579	44000											
DAND5	199699	broad.mit.edu	37	chr19	13084268	13084268	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgctttggtcattgctcCtctctctacatccctggctc	3	16	7	15	0	3	0	1	0	2	0	7	0	5	0	2	2	3	3	2	2	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:13084268C>A	uc002mwc.1	+	2	433	c.390C>A	c.(388-390)TCC>TCA	p.S130S	DAND5_uc010dyz.1_3'UTR	NM_152654	NP_689867	Q8N907	DAND5_HUMAN	dante precursor	130	CTCK.					extracellular region				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(19;1.87e-18)			GTCATTGCTCCTCTCTCTACA	0.627													27	70					7.92952e-12	8.44747e-12	0.003954	1	0		A	13084268	A	A	13084268	2	1	65	1	0	0	0	0	0	0	0	1	4233	668	24	5		5	DAND5	19	13084268	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1024896	13084268	46044715	580	44001											
CC2D1A	54862	broad.mit.edu	37	chr19	14034616	14034616	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgagcaaaggaccttcagCgtcatcaagtaaggctcctg	11	10	10	10	1	3	1	3	1	0	0	4	2	4	2	2	2	2	3	2	2	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:14034616C>T	uc002mxo.2	+	17	2231	c.1932C>T	c.(1930-1932)AGC>AGT	p.S644S	CC2D1A_uc002mxp.2_Silent_p.S644S|CC2D1A_uc010dzh.2_Silent_p.S213S|CC2D1A_uc002mxq.1_Silent_p.S289S	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	644	C2.				positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			GGACCTTCAGCGTCATCAAGT	0.622													18	53					0	0	0.010504	0	0		T	14034616	T	T	14034616	2	4	65	1	0	0	0	0	0	0	0	1	2729	767	27	1		1	CC2D1A	19	14034616	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	950348	14034616	45094367	581	44002											
CYP4F22	126410	broad.mit.edu	37	chr19	15648181	15648181	+	Frame_Shift_Del	DEL	C	-	-																															gccctccacagctgccatcgCccccaaggatgacctcttct																								rs139235894		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:15648181delC	uc002nbh.3	+	5	544	c.377delC	c.(376-378)GCCfs	p.A126fs		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	126						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						GCTGCCATCGCCCCCAAGGAT	0.408													30	68	---	---	---	---						.	-	15648181	-	-	15648181	7	5	65	1	0	1	0	1	0	0	0	0	4192	739	26	0	387	0	CYP4F22	19	15648181	Frame_Shift_Del	DEL	C	TCGA-BR-8360-01A-11D-2340-08	1613565	15648181	43480802	582	44003											
CYP4F22	126410	broad.mit.edu	37	chr19	15651358	15651358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcgacttcatttactacCgctcggcggatgggcggagg	7	9	13	12	5	1	0	1	0	0	0	3	3	1	2	2	5	2	1	2	5	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:15651358C>T	uc002nbh.3	+	8	936	c.769C>T	c.(769-771)CGC>TGC	p.R257C		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	257						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						CATTTACTACCGCTCGGCGGA	0.582													21	71					0	0	0.002299	0	0		T	15651358	T	T	15651358	3	4	65	1	0	0	0	0	1	0	0	0	4192	652	23	1	791	1	CYP4F22	19	15651358	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3177	15651358	43477625	583	44004											
SIN3B	23309	broad.mit.edu	37	chr19	16980624	16980624	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggccttcggggatgccccGgccactgagcagccacccct	5	5	14	17	2	0	1	0	1	0	0	1	2	0	2	7	5	3	1	7	5	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:16980624G>A	uc002ney.1	+	14	2270	c.2256G>A	c.(2254-2256)CCG>CCA	p.P752P	SIN3B_uc002nez.1_Silent_p.P720P|SIN3B_uc010xpi.1_Silent_p.P310P	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	752					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						GGGATGCCCCGGCCACTGAGC	0.662													12	19					0	0	0.001368	0	0		A	16980624	A	A	16980624	2	1	65	1	0	0	0	0	0	0	0	1	14351	1103	39	1		1	SIN3B	19	16980624	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1329266	16980624	42148359	584	44005											
CPAMD8	27151	broad.mit.edu	37	chr19	17038831	17038831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgcaccgatgatggaggCggtggctcgctcagacccag	9	5	15	12	4	1	3	1	1	0	2	2	5	1	4	2	4	0	3	2	4	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:17038831C>T	uc002nfb.2	-	25	3531	c.3499G>A	c.(3499-3501)GCC>ACC	p.A1167T		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1120						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						ATGATGGAGGCGGTGGCTCGC	0.622													14	34					0	0	0.00245	0	0		T	17038831	T	T	17038831	3	4	65	1	0	0	0	0	1	0	0	0	3798	768	27	1	2371	1	CPAMD8	19	17038831	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	58207	17038831	42090152	585	44006											
LRRC25	126364	broad.mit.edu	37	chr19	18502843	18502843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcatccattggggcctggCccagtgactgcaggttacag	7	10	12	12	0	1	1	1	1	0	0	2	1	2	1	3	4	2	2	3	4	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:18502843C>T	uc002niw.2	-	2	1514	c.872G>A	c.(871-873)GGC>GAC	p.G291D	LRRC25_uc002nix.2_Missense_Mutation_p.G291D	NM_145256	NP_660299	Q8N386	LRC25_HUMAN	leucine rich repeat containing 25 precursor	291	Cytoplasmic (Potential).					integral to membrane					0						TGGGGCCTGGCCCAGTGACTG	0.532													5	21					0	0	0.000602	0	0		T	18502843	T	T	18502843	3	4	65	1	0	0	0	0	1	0	0	0	8998	739	26	2	49	2	LRRC25	19	18502843	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1464012	18502843	40626140	586	44007											
NCAN	1463	broad.mit.edu	37	chr19	19338531	19338531	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccacaacacctgagtcccCcagggcagacttcagagaaa	13	4	9	15	0	1	3	1	1	0	2	2	4	2	3	4	1	1	1	4	1	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:19338531C>G	uc002nlz.2	+	8	2201	c.2102C>G	c.(2101-2103)CCC>CGC	p.P701R	NCAN_uc010ecc.1_Missense_Mutation_p.P265R	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	701					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			CCTGAGTCCCCCAGGGCAGAC	0.587													23	61					0	0	0.012319	0	0		G	19338531	G	G	19338531	3	3	65	1	0	0	0	0	1	0	0	0	10223	623	22	5	2128	5	NCAN	19	19338531	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	835688	19338531	39790452	587	44008											
ZNF14	7561	broad.mit.edu	37	chr19	19822525	19822525	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttccagtgtgaatttttTcatgttctcgaagggaactt	9	18	8	6	1	2	1	1	1	1	0	4	3	3	2	1	1	1	1	1	1	4	7			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:19822525T>C	uc002nnk.1	-	4	1719	c.1565A>G	c.(1564-1566)GAA>GGA	p.E522G		NM_021030	NP_066358	P17017	ZNF14_HUMAN	zinc finger protein 14	522	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Renal(1328;0.0474)				GTGAATTTTTTCATGTTCTCG	0.408													8	147					0	0	0.00308	0	0		C	19822525	C	C	19822525	3	2	65	1	0	0	0	0	1	0	0	0	17753	1783	62	3	367	3	ZNF14	19	19822525	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	483994	19822525	39306458	588	44009											
ZNF626	199777	broad.mit.edu	37	chr19	20808310	20808310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attataaccttctttgtgcaCcttacactcatccacactta	11	15	2	13	0	2	0	1	0	1	0	3	0	3	0	3	0	3	1	3	0	4	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:20808310C>T	uc002npb.1	-	4	523	c.373G>A	c.(373-375)GTG>ATG	p.V125M	ZNF626_uc002npc.1_Missense_Mutation_p.V49M	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	125					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TCTTTGTGCACCTTACACTCA	0.318													25	102					0	0	0.00333	0	0		T	20808310	T	T	20808310	3	4	65	1	0	0	0	0	1	0	0	0	18075	507	18	4	1217	4	ZNF626	19	20808310	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	985785	20808310	38320673	589	44010											
CHST8	64377	broad.mit.edu	37	chr19	34263898	34263898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcggccctgcaaaggcagcGcacctacgacttctactaca	10	7	8	16	3	1	0	0	0	1	0	2	1	1	0	2	2	5	3	2	2	4	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:34263898G>A	uc002nus.3	+	5	1710	c.1205G>A	c.(1204-1206)CGC>CAC	p.R402H	CHST8_uc002nut.3_Missense_Mutation_p.R402H|CHST8_uc002nuu.2_Missense_Mutation_p.R402H	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	402	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)					CAAAGGCAGCGCACCTACGAC	0.622													13	19					0	0	0.001368	0	0		A	34263898	A	A	34263898	3	1	65	1	0	0	0	0	1	0	0	0	3413	1087	38	1	1215	1	CHST8	19	34263898	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	13455588	34263898	24865085	590	44011											
LSR	51599	broad.mit.edu	37	chr19	35741230	35741230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccctcagctcctgccagggCcatccaggtgaccgtgtcca	6	7	11	17	1	1	1	1	1	0	0	4	1	4	1	7	2	2	1	7	2	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:35741230C>T	uc002nyl.2	+	2	489	c.266C>T	c.(265-267)GCC>GTC	p.A89V	LSR_uc002nym.2_Missense_Mutation_p.A89V|LSR_uc002nyn.2_Missense_Mutation_p.A89V|LSR_uc002nyo.2_Missense_Mutation_p.A89V|LSR_uc010xsr.1_Missense_Mutation_p.A89V|LSR_uc002nyp.2_Missense_Mutation_p.A52V	NM_205834	NP_991403	Q86X29	LSR_HUMAN	lipolysis stimulated lipoprotein receptor	89	Extracellular (Potential).|Ig-like V-type.				embryo development|liver development	chylomicron|integral to membrane|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle	receptor activity				0	all_lung(56;3.91e-09)|Lung NSC(56;5.64e-09)|Esophageal squamous(110;0.162)		Epithelial(14;1.33e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.29e-18)|all cancers(14;7.11e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			CCTGCCAGGGCCATCCAGGTG	0.612													69	231					0	0	0.00361	0	0		T	35741230	T	T	35741230	3	4	65	1	0	0	0	0	1	0	0	0	9082	739	26	2	272	2	LSR	19	35741230	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1477332	35741230	23387753	591	44012											
USF2	7392	broad.mit.edu	37	chr19	35761435	35761435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgatttgcctatttcccagCgtccagtgtgggagatacta	9	12	10	10	2	0	1	0	0	0	1	2	3	2	1	3	1	3	0	3	1	3	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:35761435C>T	uc002nyq.1	+	5	624	c.515C>T	c.(514-516)GCG>GTG	p.A172V	USF2_uc010xss.1_Missense_Mutation_p.A172V|USF2_uc002nyr.1_Missense_Mutation_p.A105V|USF2_uc002nys.1_5'UTR|USF2_uc002nyt.1_Intron|USF2_uc002nyu.1_5'UTR|USF2_uc002nyv.1_5'UTR	NM_003367	NP_003358	Q15853	USF2_HUMAN	upstream stimulatory factor 2 isoform 1	172					lipid homeostasis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter by glucose	nucleus	bHLH transcription factor binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity				0	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)		Epithelial(14;7.4e-20)|OV - Ovarian serous cystadenocarcinoma(14;6.47e-19)|all cancers(14;4.17e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			TATTTCCCAGCGTCCAGTGTG	0.597													16	30					0	0	0.00499	0	0		T	35761435	T	T	35761435	3	4	65	1	0	0	0	0	1	0	0	0	17059	768	27	1	533	1	USF2	19	35761435	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	20205	35761435	23367548	592	44013											
GAPDHS	26330	broad.mit.edu	37	chr19	36027833	36027833	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccactgcctcctcacccCgctactcctcctcctaagat	7	9	3	22	1	1	1	1	0	0	1	5	1	5	1	9	0	2	1	9	0	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:36027833C>T	uc002oaf.1	+	2	302	c.186C>T	c.(184-186)CCC>CCT	p.P62P		NM_014364	NP_055179	O14556	G3PT_HUMAN	glyceraldehyde-3-phosphate dehydrogenase,	62					gluconeogenesis|glycolysis|positive regulation of glycolysis|sperm motility	cytosol	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity|NAD binding|protein binding				0	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		NADH(DB00157)	CTCCTCACCCCGCTACTCCTC	0.592													24	60					0	0	0.00632	0	0		T	36027833	T	T	36027833	2	4	65	1	0	0	0	0	0	0	0	1	6252	639	23	1		1	GAPDHS	19	36027833	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	266398	36027833	23101150	593	44014											
LRFN3	79414	broad.mit.edu	37	chr19	36430331	36430331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggacacccctgcccgcgatgGccatcctcccgttgctcctg	4	8	10	19	3	0	0	0	0	0	0	3	2	3	1	7	2	2	2	7	2	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:36430331G>A	uc002oco.2	+	2	456	c.4G>A	c.(4-6)GCC>ACC	p.A2T		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	2					cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GCCCGCGATGGCCATCCTCCC	0.697													34	42					0	0	0.003755	0	0		A	36430331	A	A	36430331	3	1	65	1	0	0	0	0	1	0	0	0	8957	1203	42	2	6	2	LRFN3	19	36430331	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	402498	36430331	22698652	594	44015											
ZNF585B	92285	broad.mit.edu	37	chr19	37676954	37676954	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctttccacatttggaacaTatataagatttctctcctgt	10	16	5	10	0	1	1	0	0	1	1	4	2	3	2	3	1	1	0	3	1	4	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:37676954T>C	uc002ofq.2	-	5	1739	c.1485A>G	c.(1483-1485)ATA>ATG	p.I495M	uc002ofp.1_5'Flank|ZNF585B_uc002ofr.1_Missense_Mutation_p.I309M	NM_152279	NP_689492	Q52M93	Z585B_HUMAN	zinc finger protein 585B	495	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ATTTGGAACATATATAAGATT	0.408													30	77					0	0	0.008361	0	0		C	37676954	C	C	37676954	3	2	65	1	0	0	0	0	1	0	0	0	18043	1396	49	3	828	3	ZNF585B	19	37676954	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1246623	37676954	21452029	595	44016											
ZNF569	148266	broad.mit.edu	37	chr19	37917233	37917233	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggatccaatctcttccaCtcctcctgagtgaagtcgat	9	11	8	13	1	1	2	0	2	1	0	7	4	5	3	4	1	0	1	4	1	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:37917233C>T	uc002ogi.2	-	4	621	c.63G>A	c.(61-63)GAG>GAA	p.E21E	ZNF569_uc002ogh.2_Intron|ZNF569_uc002ogj.2_Silent_p.E45E	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	21	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ATCTCTTCCACTCCTCCTGAG	0.398													25	64					0	0	0.00333	0	0		T	37917233	T	T	37917233	2	4	65	1	0	0	0	0	0	0	0	1	18025	564	20	4		4	ZNF569	19	37917233	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	240279	37917233	21211750	596	44017											
SIPA1L3	23094	broad.mit.edu	37	chr19	38621191	38621191	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcttcggcggaacgggctCgggcagctgggcttccacgt	5	7	16	13	6	0	0	0	0	0	0	3	1	1	1	1	5	2	5	1	5	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:38621191C>T	uc002ohk.2	+	10	3431	c.2922C>T	c.(2920-2922)CTC>CTT	p.L974L		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	974	PDZ.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GGAACGGGCTCGGGCAGCTGG	0.667													18	52					0	0	0.006122	0	0		T	38621191	T	T	38621191	2	4	65	1	0	0	0	0	0	0	0	1	14356	871	31	1		1	SIPA1L3	19	38621191	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	703958	38621191	20507792	597	44018											
ACTN4	81	broad.mit.edu	37	chr19	39191313	39191313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaacattgatgaggacttccGagacgggctcaagctcatgc	11	8	12	10	2	2	3	2	2	0	1	3	6	3	4	1	2	3	2	1	2	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:39191313G>A	uc002oja.1	+	2	295	c.236G>A	c.(235-237)CGA>CAA	p.R79Q	ACTN4_uc010egc.1_Missense_Mutation_p.R79Q	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	79	Actin-binding.|CH 1.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GAGGACTTCCGAGACGGGCTC	0.607													25	43					0	0	0.004656	0	0		A	39191313	A	A	39191313	3	1	65	1	0	0	0	0	1	0	0	0	207	1058	37	1	242	1	ACTN4	19	39191313	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	570122	39191313	19937670	598	44019											
FCGBP	8857	broad.mit.edu	37	chr19	40399803	40399803	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggggacggacagctggcCgggcagggtgagccacagac	9	2	19	11	2	0	2	0	1	0	1	0	4	0	4	2	6	2	3	2	6	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:40399803C>T	uc002omp.3	-	13	5900	c.5892G>A	c.(5890-5892)CCG>CCA	p.P1964P		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	1964	TIL 4.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GACAGCTGGCCGGGCAGGGTG	0.607													6	15					0	0	0.006122	0	0		T	40399803	T	T	40399803	2	4	65	1	0	0	0	0	0	0	0	1	5792	639	23	1		1	FCGBP	19	40399803	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1208490	40399803	18729180	599	44020											
C19orf47	126526	broad.mit.edu	37	chr19	40832311	40832311	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttgggcatgttgatgacGtacttcccctccatctcagc	6	13	8	14	1	1	2	1	2	1	0	4	2	3	2	4	1	2	3	4	1	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:40832311G>A	uc002oni.3	-	7	634	c.633C>T	c.(631-633)TAC>TAT	p.Y211Y	C19orf47_uc002ong.2_Silent_p.Y70Y|C19orf47_uc002onh.2_Silent_p.Y144Y	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526	211										ovary(1)|skin(1)	2			Lung(22;0.000636)			TGTTGATGACGTACTTCCCCT	0.647													6	29					0	0	0.001168	0	0		A	40832311	A	A	40832311	2	1	65	1	0	0	0	0	0	0	0	1	1933	1140	40	1		1	C19orf47	19	40832311	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	432508	40832311	18296672	600	44021											
CYP2A6	1548	broad.mit.edu	37	chr19	41349705	41349705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggcacagccctcgctcagCggggcaggaagctcatggtg	7	5	15	14	3	2	0	2	0	0	0	3	1	2	1	2	5	3	4	2	5	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:41349705C>T	uc002opl.3	-	9	1502	c.1481G>A	c.(1480-1482)CGC>CAC	p.R494H		NM_000762	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A,	494					coumarin catabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|enzyme binding|heme binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Chlorzoxazone(DB00356)|Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Formoterol(DB00983)|Halothane(DB01159)|Letrozole(DB01006)|Methoxsalen(DB00553)|Metyrapone(DB01011)|Nicotine(DB00184)|Pilocarpine(DB01085)|Tolbutamide(DB01124)|Tranylcypromine(DB00752)	CCTCGCTCAGCGGGGCAGGAA	0.652													23	62					0	0	0.00632	0	0		T	41349705	T	T	41349705	3	4	65	1	0	0	0	0	1	0	0	0	4165	768	27	1	7	1	CYP2A6	19	41349705	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	517394	41349705	17779278	601	44022											
AXL	558	broad.mit.edu	37	chr19	41726691	41726691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacagatcctggagctcgCggacagcacccagacccagg	10	4	13	14	2	0	2	0	0	0	2	2	5	1	5	3	4	2	2	3	4	0	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:41726691C>T	uc010ehj.2	+	2	426	c.236C>T	c.(235-237)GCG>GTG	p.A79V	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Missense_Mutation_p.A79V|AXL_uc010ehk.2_Missense_Mutation_p.A79V	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	79	Extracellular (Potential).|Interaction with GAS6.|Ig-like C2-type 1.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						CTGGAGCTCGCGGACAGCACC	0.637													14	20					0	0	0.001855	0	0		T	41726691	T	T	41726691	3	4	65	1	0	0	0	0	1	0	0	0	1239	768	27	1	242	1	AXL	19	41726691	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	376986	41726691	17402292	602	44023											
PSG11	5680	broad.mit.edu	37	chr19	43519387	43519387	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggataaagagcttttgtcctGatagctgaaacttcccatta	12	13	8	8	0	0	3	0	2	0	1	2	4	2	4	2	1	3	2	2	1	5	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:43519387G>T	uc002ovm.1	-	4	952	c.845C>A	c.(844-846)TCA>TAA	p.S282*	PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG11_uc002ovn.1_Nonsense_Mutation_p.S288*|PSG11_uc002ovo.1_Nonsense_Mutation_p.S160*|PSG11_uc002ovp.1_Nonsense_Mutation_p.S160*	NM_002785	NP_002776	Q9UQ72	PSG11_HUMAN	pregnancy specific beta-1-glycoprotein 11	282	Ig-like C2-type 2.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				CTTTTGTCCTGATAGCTGAAA	0.468													63	167					3.30712e-30	3.73824e-30	0.00361	1	0		T	43519387	T	T	43519387	4	4	65	1	0	0	0	0	0	1	0	0	12676	1294	45	5	170	5	PSG11	19	43519387	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1792696	43519387	15609596	603	44024											
ZNF284	342909	broad.mit.edu	37	chr19	44590402	44590402	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattacacacaggagaaaaAcctcatatttgtgaggaatg	18	9	8	6	0	1	2	1	1	0	1	1	4	1	3	1	2	2	0	1	2	6	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:44590402A>C	uc002oyg.1	+	5	987	c.771A>C	c.(769-771)AAA>AAC	p.K257N	ZNF284_uc010ejd.2_RNA	NM_001037813	NP_001032902	Q2VY69	ZN284_HUMAN	zinc finger protein 284	257					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				CAGGAGAAAAACCTCATATTT	0.418													35	78					0	0	0.012213	0	0		C	44590402	C	C	44590402	3	2	65	1	0	0	0	0	1	0	0	0	17846	40	2	5	785	5	ZNF284	19	44590402	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	1071015	44590402	14538581	604	44025											
BCAM	4059	broad.mit.edu	37	chr19	45316790	45316790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcaaggatgaccgagacGccagcttccactgcgccgcc	8	5	11	17	5	0	2	0	1	0	1	2	4	2	3	6	1	2	2	6	1	1	1	rs144233028		TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:45316790G>A	uc002ozu.2	+	6	741	c.697G>A	c.(697-699)GCC>ACC	p.A233T	BCAM_uc002ozt.1_Missense_Mutation_p.A233T	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	233	Extracellular (Potential).|Ig-like V-type 2.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				TGACCGAGACGCCAGCTTCCA	0.697													22	48					0	0	0.012319	0	0		A	45316790	A	A	45316790	3	1	65	1	0	0	0	0	1	0	0	0	1345	1087	38	1	719	1	BCAM	19	45316790	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	726388	45316790	13812193	605	44026											
IGFL4	444882	broad.mit.edu	37	chr19	46543796	46543796	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgtgactccttctgagtttGaacccaaaagttcaaaaatg	13	12	7	9	0	2	3	1	3	1	0	3	3	3	3	2	0	1	2	2	0	5	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:46543796G>C	uc002pdy.1	-	2	104	c.50C>G	c.(49-51)TCA>TGA	p.S17*		NM_001002923	NP_001002923	Q6B9Z1	IGFL4_HUMAN	IGF-like family member 4 precursor	17						extracellular region					0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.0036)|GBM - Glioblastoma multiforme(486;0.022)|Epithelial(262;0.208)		TTCTGAGTTTGAACCCAAAAG	0.517													16	49					0	0	0.004007	0	0		C	46543796	C	C	46543796	4	2	65	1	0	0	0	0	0	1	0	0	7605	1294	45	5	336	5	IGFL4	19	46543796	Nonsense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1227006	46543796	12585187	606	44027											
AP2A1	160	broad.mit.edu	37	chr19	50309974	50309974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcaccagcaaggagcccGtctcccgtcacctgtgtgag	7	7	12	15	3	2	1	1	1	1	0	3	2	2	2	4	1	3	2	4	1	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:50309974G>A	uc002ppn.2	+	24	3104	c.2893G>A	c.(2893-2895)GTC>ATC	p.V965I	AP2A1_uc002ppo.2_Missense_Mutation_p.V943I|AP2A1_uc010enk.2_Missense_Mutation_p.V96I	NM_014203	NP_055018	O95782	AP2A1_HUMAN	adaptor-related protein complex 2, alpha 1	965				ENFVGAGIIQTKALQVGCLLRLEPNAQAQMYRLTLRTSKEP VSRHLCELLAQQF -> GDREDTRVWGMPGTFLRPFVFLFL FICCCLHSGGLGGVPLPPFPPQAQRGEGPGKWMSPPLPPHP VVAPPTPSPSRGCVLL (in Ref. 4; AAH14214).	axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|Golgi to endosome transport|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|clathrin coat of trans-Golgi network vesicle|cytosol	protein binding|protein transporter activity			ovary(2)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0023)|GBM - Glioblastoma multiforme(134;0.0157)		CAAGGAGCCCGTCTCCCGTCA	0.667													19	43					0	0	0.002299	0	0		A	50309974	A	A	50309974	3	1	65	1	0	0	0	0	1	0	0	0	739	1145	40	1	2987	1	AP2A1	19	50309974	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	3766178	50309974	8819009	607	44028											
ZNF473	25888	broad.mit.edu	37	chr19	50548684	50548684	+	Frame_Shift_Del	DEL	T	-	-																															tgtaacgaatgcggcaaggcTtttacccggatcttccacct																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:50548684delT	uc002prn.2	+	5	1221	c.984delT	c.(982-984)GCTfs	p.A328fs	ZNF473_uc002prm.2_Frame_Shift_Del_p.A328fs|ZNF473_uc010ybo.1_Frame_Shift_Del_p.A316fs	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	328	Interaction with SLBP/pre-mRNA complex.|C2H2-type 3.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		GCGGCAAGGCTTTTACCCGGA	0.498													48	86	---	---	---	---						.	-	50548684	-	-	50548684	7	5	65	1	0	1	0	1	0	0	0	0	17956	1596	56	0	998	0	ZNF473	19	50548684	Frame_Shift_Del	DEL	T	TCGA-BR-8360-01A-11D-2340-08	238710	50548684	8580299	608	44029											
SYT3	84258	broad.mit.edu	37	chr19	51136065	51136065	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacagcaggctcacggagAtgtctggagagaacgaggac	12	4	15	10	3	2	2	1	0	1	2	2	8	2	4	1	4	2	2	1	4	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:51136065A>C	uc002pst.2	-	2	786	c.152T>G	c.(151-153)ATC>AGC	p.I51S	SYT3_uc002psv.2_Missense_Mutation_p.I51S|SYT3_uc010ycd.1_Missense_Mutation_p.I51S	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	51	Vesicular (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		GCTCACGGAGATGTCTGGAGA	0.512													5	65					0	0	0.000602	0	0		C	51136065	C	C	51136065	3	2	65	1	0	0	0	0	1	0	0	0	15500	333	12	5	1648	5	SYT3	19	51136065	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	587381	51136065	7992918	609	44030											
KLK7	5650	broad.mit.edu	37	chr19	51483543	51483543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cggagacagtacaggtggttCcagggggttcgcagcgggag	8	6	19	8	3	0	1	0	0	0	1	2	3	1	2	1	6	2	4	1	6	1	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:51483543C>T	uc002puo.2	-	4	524	c.422G>A	c.(421-423)GGA>GAA	p.G141E	KLK7_uc002pup.2_Missense_Mutation_p.G141E|KLK7_uc010yco.1_Missense_Mutation_p.G15E|KLK7_uc010eok.2_Missense_Mutation_p.G69E	NM_139277	NP_644806	P49862	KLK7_HUMAN	stratum corneum chymotryptic enzyme	141	Peptidase S1.				epidermis development|proteolysis	extracellular region	serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00382)|GBM - Glioblastoma multiforme(134;0.00895)		ACAGGTGGTTCCAGGGGGTTC	0.458													8	24					0	0	0.004482	0	0		T	51483543	T	T	51483543	3	4	65	1	0	0	0	0	1	0	0	0	8425	855	30	4	351	4	KLK7	19	51483543	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	347478	51483543	7645440	610	44031											
ZNF808	388558	broad.mit.edu	37	chr19	53050772	53050772	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcattttagggacgctTgactttcagggatgtggcta	7	16	12	6	1	2	1	2	1	0	0	2	3	2	3	0	3	0	3	0	3	2	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:53050772T>C	uc010epq.1	+	4	248	c.71T>C	c.(70-72)TTG>TCG	p.L24S	ZNF808_uc002pzq.2_Intron	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	24	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		TAGGGACGCTTGACTTTCAGG	0.393													45	100					0	0	0.00361	0	0		C	53050772	C	C	53050772	3	2	65	1	0	0	0	0	1	0	0	0	18198	1821	63	3	77	3	ZNF808	19	53050772	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	1567229	53050772	6078211	611	44032											
NLRP11	204801	broad.mit.edu	37	chr19	56320425	56320425	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccacttgaagctgtctacCatcggtagctggtatccaaa	11	11	8	11	1	1	1	0	1	1	0	3	1	2	1	3	2	4	4	3	2	6	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:56320425C>A	uc010ygf.1	-	5	2262	c.1551G>T	c.(1549-1551)ATG>ATT	p.M517I	NLRP11_uc002qlz.2_Missense_Mutation_p.M418I|NLRP11_uc002qmb.2_Missense_Mutation_p.M418I|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	517							ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		AGCTGTCTACCATCGGTAGCT	0.408													40	133					2.6416e-12	2.82734e-12	0.00623	1	0		A	56320425	A	A	56320425	3	1	65	1	0	0	0	0	1	0	0	0	10492	594	21	5	1582	5	NLRP11	19	56320425	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	3269653	56320425	2808558	612	44033											
ZNF71	58491	broad.mit.edu	37	chr19	57134038	57134038	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaccagcggatccacacGggcgagaagccctaccgatg	10	4	13	14	4	0	1	0	0	0	1	1	4	1	2	4	2	4	1	4	2	2	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:57134038G>A	uc002qnm.3	+	3	1621	c.1383G>A	c.(1381-1383)ACG>ACA	p.T461T		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	461						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		GGATCCACACGGGCGAGAAGC	0.637													15	44					0	0	0.00499	0	0		A	57134038	A	A	57134038	2	1	65	1	0	0	0	0	0	0	0	1	18139	1103	39	1		1	ZNF71	19	57134038	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	813613	57134038	1994945	613	44034											
ZNF530	348327	broad.mit.edu	37	chr19	58118568	58118568	+	Frame_Shift_Del	DEL	A	-	-																															gtgggaaatcttttacccgcAaaaatcacctcattcaacac																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:58118568delA	uc002qpk.2	+	3	1895	c.1675delA	c.(1675-1677)AAAfs	p.K559fs	ZNF547_uc002qpm.3_Intron|ZNF530_uc002qpl.2_RNA	NM_020880	NP_065931	Q6P9A1	ZN530_HUMAN	zinc finger protein 530	559	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0443)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TTTTACCCGCAAAAATCACCT	0.448													43	67	---	---	---	---						.	-	58118568	-	-	58118568	7	5	65	1	0	1	0	1	0	0	0	0	17996	131	5	0	1685	0	ZNF530	19	58118568	Frame_Shift_Del	DEL	A	TCGA-BR-8360-01A-11D-2340-08	984530	58118568	1010415	614	44035											
ZNF135	7694	broad.mit.edu	37	chr19	58579087	58579087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagaaaagccctatgagtGtggtgagtgtgggaaagcct	12	8	16	5	0	0	3	0	2	0	1	0	5	0	4	2	3	2	0	2	3	4	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:58579087G>A	uc010yhq.1	+	5	1367	c.1271G>A	c.(1270-1272)TGT>TAT	p.C424Y	ZNF135_uc002qre.2_Missense_Mutation_p.C412Y|ZNF135_uc002qrd.1_Intron|ZNF135_uc002qrf.2_Missense_Mutation_p.C370Y|ZNF135_uc002qrg.2_Missense_Mutation_p.C382Y|ZNF135_uc010yhr.1_Missense_Mutation_p.C233Y	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	424					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		CCCTATGAGTGTGGTGAGTGT	0.537													15	45					0	0	0.00245	0	0		A	58579087	A	A	58579087	3	1	65	1	0	0	0	0	1	0	0	0	17750	1377	48	4	1438	4	ZNF135	19	58579087	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	460519	58579087	549896	615	44036											
ZBTB45	84878	broad.mit.edu	37	chr19	59028938	59028938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgaatgcgcacagtcaCgtcacagaagtgtcccccaa	12	7	8	14	3	3	1	3	0	0	1	4	2	4	1	2	0	1	1	2	0	3	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr19:59028938C>T	uc002qtd.2	-	2	395	c.103G>A	c.(103-105)GTG>ATG	p.V35M	ZBTB45_uc002qte.2_Missense_Mutation_p.V35M|ZBTB45_uc002qtf.2_Missense_Mutation_p.V35M	NM_032792	NP_116181	Q96K62	ZBT45_HUMAN	zinc finger and BTB domain containing 45	35	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0165)|Lung(386;0.18)		CGCACAGTCACGTCACAGAAG	0.612											OREG0025700	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	30					0	0	0.00499	0	0		T	59028938	T	T	59028938	3	4	65	1	0	0	0	0	1	0	0	0	17571	536	19	1	1440	1	ZBTB45	19	59028938	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	449851	59028938	100045	616	44037											
PTPRA	5786	broad.mit.edu	37	chr20	3007405	3007405	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaacatgaagaagaacCgtgttttacagatcattcca	15	9	7	10	1	1	4	1	1	0	3	2	4	2	4	3	0	4	1	3	0	5	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr20:3007405C>T	uc010zqd.1	+	17	2037	c.1720C>T	c.(1720-1722)CGT>TGT	p.R574C	PTPRA_uc002whj.2_Missense_Mutation_p.R563C|PTPRA_uc002whk.2_Missense_Mutation_p.R554C|PTPRA_uc002whl.2_Missense_Mutation_p.R554C|PTPRA_uc002whm.2_Missense_Mutation_p.R330C|PTPRA_uc002whn.2_Missense_Mutation_p.R554C|PTPRA_uc002who.2_Missense_Mutation_p.R226C	NM_002836	NP_002827	P18433	PTPRA_HUMAN	protein tyrosine phosphatase, receptor type, A	563	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1						GAAGAAGAACCGTGTTTTACA	0.468													8	39					0	0	0.00308	0	0		T	3007405	T	T	3007405	3	4	65	1	0	0	0	0	1	0	0	0	12820	652	23	1	1745	1	PTPRA	20	3007405	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08		3007405	60018115	617	44038											
ProSAPiP1	9762	broad.mit.edu	37	chr20	3147530	3147530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaggtagagggagttggCgagacccttgtcctctgagg	8	10	16	7	1	1	4	0	2	1	2	2	6	2	5	2	4	0	2	2	4	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr20:3147530C>T	uc002wia.1	-	1	1678	c.280G>A	c.(280-282)GCC>ACC	p.A94T	ProSAPiP1_uc002wib.1_Missense_Mutation_p.A94T	NM_014731	NP_055546	O60299	PRIP1_HUMAN	ProSAPiP1 protein	94						cell junction|cytoplasm|postsynaptic density|postsynaptic membrane				pancreas(1)	1						AGGGAGTTGGCGAGACCCTTG	0.682													4	25					0	0	0.000602	0	0		T	3147530	T	T	3147530	3	4	65	1	0	0	0	0	1	0	0	0	12895	768	27	1	1753	1	ProSAPiP1	20	3147530	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	140125	3147530	59877990	618	44039											
ATRN	8455	broad.mit.edu	37	chr20	3543988	3543988	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgccaaatgcttctcttcAgatttcatggcctatgacat	9	13	8	11	1	3	2	2	1	1	1	4	2	3	2	2	2	1	1	2	2	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr20:3543988A>G	uc002wim.2	+	10	1854	c.1764A>G	c.(1762-1764)TCA>TCG	p.S588S	ATRN_uc002wil.2_Silent_p.S588S	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	588	Extracellular (Potential).|Kelch 5.				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						GCTTCTCTTCAGATTTCATGG	0.418													66	90					0	0	0.00361	0	0		G	3543988	G	G	3543988	2	3	65	1	0	0	0	0	0	0	0	1	1207	175	7	3		3	ATRN	20	3543988	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08	396458	3543988	59481532	619	44040											
CENPB	1059	broad.mit.edu	37	chr20	3766457	3766457	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgcatagcaggacgctcAggcgctgggtggcttgacgc	6	7	17	11	4	1	1	1	1	0	0	1	2	1	2	0	5	1	5	0	5	1	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr20:3766457A>G	uc002wjk.2	-	1	881	c.674T>C	c.(673-675)CTG>CCG	p.L225P	CDC25B_uc010zqk.1_5'Flank|CDC25B_uc010zql.1_5'Flank|CDC25B_uc010zqm.1_5'Flank	NM_001810	NP_001801	P07199	CENPB_HUMAN	centromere protein B	225					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|satellite DNA binding				0						CAGGACGCTCAGGCGCTGGGT	0.721													5	66					0	0	0.001168	0	0		G	3766457	G	G	3766457	3	3	65	1	0	0	0	0	1	0	0	0	3230	188	7	3	1129	3	CENPB	20	3766457	Missense_Mutation	SNP	A	TCGA-BR-8360-01A-11D-2340-08	222469	3766457	59259063	620	44041											
SSTR4	6754	broad.mit.edu	37	chr20	23016316	23016316	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggggctggtgggcaacGccctggtcatcttcgtgatc	4	11	16	10	2	2	1	1	1	1	0	4	1	2	1	1	6	1	2	1	6	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr20:23016316G>T	uc002wsr.2	+	1	260	c.196G>T	c.(196-198)GCC>TCC	p.A66S		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	66	Helical; Name=1; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GGTGGGCAACGCCCTGGTCAT	0.507													30	71					3.99451e-17	4.40618e-17	0.009535	1	0		T	23016316	T	T	23016316	3	4	65	1	0	0	0	0	1	0	0	0	15225	1087	38	5	198	5	SSTR4	20	23016316	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	19249859	23016316	40009204	621	44042											
NECAB3	63941	broad.mit.edu	37	chr20	32246607	32246607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcctgcaggccttcctctgCcacctggacctgcctctggg	3	10	11	17	0	2	0	0	0	2	0	4	1	4	1	7	3	3	1	7	3	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr20:32246607C>T	uc002wzn.3	-	9	1019	c.913G>A	c.(913-915)GCA>ACA	p.A305T	NECAB3_uc002wzl.2_Missense_Mutation_p.A50T|NECAB3_uc002wzm.3_Missense_Mutation_p.A271T|NECAB3_uc002wzo.3_RNA|NECAB3_uc002wzp.3_Missense_Mutation_p.A198T|NECAB3_uc002wzq.3_Missense_Mutation_p.A253T|NECAB3_uc002wzr.3_RNA|NECAB3_uc010geo.2_Missense_Mutation_p.A271T	NM_031232	NP_112509	Q96P71	NECA3_HUMAN	N-terminal EF-hand calcium binding protein 3	305	ABM.				antibiotic biosynthetic process|protein metabolic process|protein secretion|regulation of amyloid precursor protein biosynthetic process	endoplasmic reticulum membrane|Golgi cis cisterna|nucleus	calcium ion binding|oxidoreductase activity|protein binding			lung(1)	1						CCTTCCTCTGCCACCTGGACC	0.672													7	23					0	0	0.001984	0	0		T	32246607	T	T	32246607	3	4	65	1	0	0	0	0	1	0	0	0	10325	739	26	2	293	2	NECAB3	20	32246607	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	9230291	32246607	30778913	622	44043											
BPI	671	broad.mit.edu	37	chr20	36939000	36939000	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccaccatcacctgctccaGctgcagcagccacatcaaca	11	5	6	19	0	2	0	2	0	0	0	3	0	3	0	5	0	6	4	5	0	1	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr20:36939000G>A	uc002xib.2	+	4	556	c.494G>A	c.(493-495)AGC>AAC	p.S165N		NM_001725	NP_001716	P17213	BPI_HUMAN	bactericidal/permeability-increasing protein	165					defense response to bacterium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of macrophage activation|negative regulation of tumor necrosis factor production	extracellular region|integral to plasma membrane	lipid binding|lipopolysaccharide binding			ovary(4)	4		Myeloproliferative disorder(115;0.00878)				ACCTGCTCCAGCTGCAGCAGC	0.552													20	33					0	0	0.008871	0	0		A	36939000	A	A	36939000	3	1	65	1	0	0	0	0	1	0	0	0	1493	971	34	2	508	2	BPI	20	36939000	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	4692393	36939000	26086520	623	44044											
L3MBTL	26013	broad.mit.edu	37	chr20	42161428	42161428	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctagagtcccccacccctgGgcttccaggtgggcatgaag	7	7	12	15	0	0	2	0	1	0	1	2	2	2	2	6	3	0	2	6	3	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr20:42161428G>T	uc010zwh.1	+	12	1280	c.1234G>T	c.(1234-1236)GGC>TGC	p.G412C	L3MBTL_uc002xkl.2_Missense_Mutation_p.G344C|L3MBTL_uc002xkm.2_Missense_Mutation_p.G344C|L3MBTL_uc010ggl.2_Missense_Mutation_p.G344C|L3MBTL_uc002xkn.1_Missense_Mutation_p.G103C|L3MBTL_uc002xko.2_5'UTR	NM_015478	NP_056293	Q9Y468	LMBL1_HUMAN	l(3)mbt-like isoform I	344	MBT 2.				chromatin modification|hemopoiesis|negative regulation of transcription, DNA-dependent|regulation of megakaryocyte differentiation|regulation of mitosis	chromatin|condensed chromosome|nucleoplasm	identical protein binding|methylated histone residue binding|nucleosomal histone binding|SAM domain binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			CCCACCCCTGGGCTTCCAGGT	0.602													35	95					4.65686e-17	5.12854e-17	0.003755	1	0		T	42161428	T	T	42161428	3	4	65	1	0	0	0	0	1	0	0	0	8607	1232	43	5	1064	5	L3MBTL	20	42161428	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	5222428	42161428	20864092	624	44045											
MMP9	4318	broad.mit.edu	37	chr20	44639956	44639956	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttctgccccagcgagaGtgagtgagggggctcgccga	6	7	17	11	3	1	3	0	2	1	1	2	5	1	3	3	3	2	2	3	3	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr20:44639956G>A	uc002xqz.2	+	5	842	c.823_splice	c.e5+1	p.R275_splice		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein						collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	CCCAGCGAGAGTGAGTGAGGG	0.512													17	42					0	0	0.006122	0	0		A	44639956	A	A	44639956	5	1	65	1	0	0	0	0	0	0	1	0	9687	1043	36	4	842	4	MMP9	20	44639956	Splice_Site	SNP	G	TCGA-BR-8360-01A-11D-2340-08	2478528	44639956	18385564	625	44046											
MC3R	4159	broad.mit.edu	37	chr20	54824580	54824580	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcagcactgccacctgcCgacggggtggccccacagca	9	4	12	16	2	0	0	0	0	0	0	0	1	0	0	5	3	5	3	5	3	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr20:54824580C>T	uc002xxb.2	+	1	793	c.681C>T	c.(679-681)GCC>GCT	p.A227A		NM_019888	NP_063941	P41968	MC3R_HUMAN	melanocortin 3 receptor	264	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|protein binding			ovary(2)|breast(2)	4			Colorectal(105;0.202)			TGCCACCTGCCGACGGGGTGG	0.602													27	46					0	0	0.005443	0	0		T	54824580	T	T	54824580	2	4	65	1	0	0	0	0	0	0	0	1	9383	639	23	1		1	MC3R	20	54824580	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	10184624	54824580	8200940	626	44047											
KRTAP19-7	337974	broad.mit.edu	37	chr21	31933432	31933432	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttattcaatagaatccagaAgaccagtatcccccatagca	15	10	5	11	0	1	3	1	0	0	3	3	3	3	3	4	0	1	2	4	0	7	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr21:31933432A>C	uc011adb.1	-	1	177	c.177T>G	c.(175-177)TCT>TCG	p.S59S		NM_181614	NP_853645	Q3SYF9	KR197_HUMAN	keratin associated protein 19-7	59						intermediate filament					0						AGAATCCAGAAGACCAGTATC	0.443													40	94					0	0	0.00623	0	0		C	31933432	C	C	31933432	2	2	65	1	0	0	0	0	0	0	0	1	8550	59	3	5		5	KRTAP19-7	21	31933432	Silent	SNP	A	TCGA-BR-8360-01A-11D-2340-08		31933432	16196463	627	44048											
KRTAP11-1	337880	broad.mit.edu	37	chr21	32253783	32253783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtaacttgggccactggaaCaatgcagcgtcctccaatgg	10	8	12	11	1	0	0	0	0	0	0	2	1	2	1	3	4	4	2	3	4	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr21:32253783C>T	uc002yov.2	-	1	92	c.61G>A	c.(61-63)GTT>ATT	p.V21I		NM_175858	NP_787054	Q8IUC1	KR111_HUMAN	keratin associated protein 11-1	21						keratin filament	structural molecule activity			pancreas(1)	1						GCCACTGGAACAATGCAGCGT	0.547													24	53					0	0	0.00278	0	0		T	32253783	T	T	32253783	3	4	65	1	0	0	0	0	1	0	0	0	8533	478	17	4	434	4	KRTAP11-1	21	32253783	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	320351	32253783	15876112	628	44049											
HUNK	30811	broad.mit.edu	37	chr21	33370838	33370838	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttatgctttcttggtgtgcaGattcctttggctgccgcaat	5	17	10	9	1	1	1	0	0	1	1	2	1	2	1	2	2	3	4	2	2	2	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr21:33370838G>A	uc002yph.2	+	11	1847	c.1487_splice	c.e11-1	p.D496_splice		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase						multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						TTGGTGTGCAGATTCCTTTGG	0.537													20	64					0	0	0.002299	0	0		A	33370838	A	A	33370838	5	1	65	1	0	0	0	0	0	0	1	0	7474	956	33	4	1528	4	HUNK	21	33370838	Splice_Site	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1117055	33370838	14759057	629	44050											
SYNJ1	8867	broad.mit.edu	37	chr21	34012041	34012041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcttccagcagatgcccGcgcgtggctctgtggggcac	5	8	14	14	3	2	1	0	0	2	1	3	1	3	1	2	3	2	3	2	3	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr21:34012041G>A	uc002yqh.2	-	30	3754	c.3754C>T	c.(3754-3756)CGG>TGG	p.R1252W	SYNJ1_uc011ads.1_Missense_Mutation_p.R1166W|SYNJ1_uc002yqf.2_Missense_Mutation_p.R1197W|SYNJ1_uc002yqg.2_Missense_Mutation_p.R1166W|SYNJ1_uc002yqi.2_Missense_Mutation_p.R1252W|SYNJ1_uc002yqe.3_5'UTR	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	1213	Pro-rich.						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						GCAGATGCCCGCGCGTGGCTC	0.413													5	36					0	0	0.001168	0	0		A	34012041	A	A	34012041	3	1	65	1	0	0	0	0	1	0	0	0	15477	1086	38	1	1121	1	SYNJ1	21	34012041	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	641203	34012041	14117854	630	44051											
SLC5A3	6526	broad.mit.edu	37	chr21	35467627	35467627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggatacttcctggcggggCgctctatgacctgggtaaca	7	10	14	10	2	1	1	0	1	1	0	2	2	2	2	2	5	2	2	2	5	3	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr21:35467627C>T	uc002yto.2	+	2	642	c.130C>T	c.(130-132)CGC>TGC	p.R44C	MRPS6_uc002ytp.2_Intron	NM_006933	NP_008864	P53794	SC5A3_HUMAN	solute carrier family 5 (inositol transporters),	44	Helical; (Potential).					integral to plasma membrane	myo-inositol:sodium symporter activity			ovary(2)	2						CCTGGCGGGGCGCTCTATGAC	0.488													35	79					0	0	0.003755	0	0		T	35467627	T	T	35467627	3	4	65	1	0	0	0	0	1	0	0	0	14691	768	27	1	132	1	SLC5A3	21	35467627	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1455586	35467627	12662268	631	44052											
DSCAM	1826	broad.mit.edu	37	chr21	41559141	41559141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccacctgagcgtaattgtgCgtgctttgacatctttgatc	7	15	9	10	2	1	3	0	3	1	0	3	3	2	3	2	0	3	2	2	0	1	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr21:41559141C>T	uc002yyq.1	-	14	3148	c.2696G>A	c.(2695-2697)CGC>CAC	p.R899H	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	899	Extracellular (Potential).|Fibronectin type-III 1.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CGTAATTGTGCGTGCTTTGAC	0.438													8	38					0	0	0.004482	0	0		T	41559141	T	T	41559141	3	4	65	1	0	0	0	0	1	0	0	0	4774	768	27	1	3422	1	DSCAM	21	41559141	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	6091514	41559141	6570754	632	44053											
UMODL1	89766	broad.mit.edu	37	chr21	43496223	43496223	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcctatgtgtcctgcggCggctggatcccctggaggcg	4	9	15	13	4	0	0	0	0	0	0	3	2	3	2	4	5	1	1	4	5	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr21:43496223C>T	uc002zaf.1	+	2	186	c.186C>T	c.(184-186)GGC>GGT	p.G62G	UMODL1_uc002zad.1_5'UTR|UMODL1_uc002zae.1_5'UTR|UMODL1_uc002zag.1_Silent_p.G62G|uc002zah.1_RNA	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	62	Extracellular (Potential).|EMI.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						TGTCCTGCGGCGGCTGGATCC	0.607													21	65					0	0	0.012319	0	0		T	43496223	T	T	43496223	2	4	65	1	0	0	0	0	0	0	0	1	17006	755	27	1		1	UMODL1	21	43496223	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1937082	43496223	4633672	633	44054											
AIRE	326	broad.mit.edu	37	chr21	45706903	45706903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaggggaggaagcccccggCcgtccccaaggctttggtac	8	5	15	13	2	0	0	0	0	0	0	1	3	1	2	5	6	2	2	5	6	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr21:45706903C>T	uc002zei.2	+	3	477	c.350C>T	c.(349-351)GCC>GTC	p.A117V		NM_000383	NP_000374	O43918	AIRE_HUMAN	autoimmune regulator isoform 1	117					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	chromatin binding|histone binding|transcription regulatory region DNA binding|translation regulator activity|zinc ion binding			skin(1)	1				Colorectal(79;0.0806)		AAGCCCCCGGCCGTCCCCAAG	0.672									Autoimmune_PolyEndocrinopathy_Candidiasis_Ectodermal_Dystrophy				8	34					0	0	0.00308	0	0		T	45706903	T	T	45706903	3	4	65	1	0	0	0	0	1	0	0	0	437	739	26	2	360	2	AIRE	21	45706903	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	2210680	45706903	2422992	634	44055											
COL18A1	80781	broad.mit.edu	37	chr21	46888235	46888235	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacccagacggatgacccCgacgtcgggctggcctacgt	7	6	13	15	5	1	2	1	1	0	1	2	4	1	3	4	3	1	1	4	3	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr21:46888235C>T	uc011afs.1	+	2	1452	c.1431C>T	c.(1429-1431)CCC>CCT	p.P477P	COL18A1_uc002zhg.2_Silent_p.P62P|COL18A1_uc002zhi.2_Silent_p.P242P	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	477	TSP N-terminal.				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		CGGATGACCCCGACGTCGGGC	0.632													20	61					0	0	0.007413	0	0		T	46888235	T	T	46888235	2	4	65	1	0	0	0	0	0	0	0	1	3678	639	23	1		1	COL18A1	21	46888235	Silent	SNP	C	TCGA-BR-8360-01A-11D-2340-08	1181332	46888235	1241660	635	44056											
MICAL3	57553	broad.mit.edu	37	chr22	18387473	18387473	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcgtagatcatgtatggTgaatggccagagatgcaaga	13	9	12	7	1	1	4	1	1	0	3	2	5	1	4	2	2	1	3	2	2	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr22:18387473T>C	uc002zng.3	-	3	750	c.397A>G	c.(397-399)ACC>GCC	p.T133A	MICAL3_uc011agl.1_Missense_Mutation_p.T133A|MICAL3_uc002znh.2_Missense_Mutation_p.T133A|MICAL3_uc002znj.1_5'Flank|MICAL3_uc002znk.1_Missense_Mutation_p.T133A|MICAL3_uc002znl.1_5'UTR|MICAL3_uc010grf.2_Missense_Mutation_p.T133A|MICAL3_uc011agm.1_Missense_Mutation_p.T133A	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	133						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		TCATGTATGGTGAATGGCCAG	0.483													54	135					0	0	0.00361	0	0		C	18387473	C	C	18387473	3	2	65	1	0	0	0	0	1	0	0	0	9589	1696	59	3	6468	3	MICAL3	22	18387473	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08		18387473	32917093	636	44057											
CABIN1	23523	broad.mit.edu	37	chr22	24515545	24515545	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggctggtgctgaggagcaGcggcagtttctcacagagca	8	7	15	11	2	1	2	1	1	1	1	2	3	1	3	1	4	4	6	1	4	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr22:24515545G>A	uc002zzi.1	+	28	4639	c.4512G>A	c.(4510-4512)CAG>CAA	p.Q1504Q	CABIN1_uc002zzj.1_Silent_p.Q1425Q|CABIN1_uc002zzl.1_Silent_p.Q1504Q	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1504					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CTGAGGAGCAGCGGCAGTTTC	0.637													41	56					0	0	0.009718	0	0		A	24515545	A	A	24515545	2	1	65	1	0	0	0	0	0	0	0	1	2531	962	34	2		2	CABIN1	22	24515545	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	6128072	24515545	26789021	637	44058											
SNRPD3	6634	broad.mit.edu	37	chr22	24964106	24964106	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaataaaaaccaaggctcagGggctggccgaggaaaagctg	16	4	13	8	1	1	0	1	0	0	0	1	2	1	1	2	5	2	3	2	5	7	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr22:24964106G>T	uc003aam.1	+	3	721	c.281G>T	c.(280-282)GGG>GTG	p.G94V	SNRPD3_uc011aju.1_Missense_Mutation_p.G94V	NM_004175	NP_004166	P62318	SMD3_HUMAN	small nuclear ribonucleoprotein polypeptide D3	94	Arg/Lys-rich (basic).				histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	enzyme binding|histone pre-mRNA DCP binding			ovary(1)	1						CAAGGCTCAGGGGCTGGCCGA	0.448													11	53					1.58986e-06	1.64759e-06	0.008291	1	0		T	24964106	T	T	24964106	3	4	65	1	0	0	0	0	1	0	0	0	14891	1232	43	5	287	5	SNRPD3	22	24964106	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	448561	24964106	26340460	638	44059											
ASCC2	84164	broad.mit.edu	37	chr22	30189452	30189452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtagtagacactgtggtaggGcaggctctcgcctggctgca	7	9	15	10	1	1	1	0	0	1	1	2	1	1	1	1	4	1	7	1	4	3	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr22:30189452G>A	uc003agr.2	-	17	1921	c.1816C>T	c.(1816-1818)CCC>TCC	p.P606S	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Missense_Mutation_p.P606S|ASCC2_uc011akr.1_Missense_Mutation_p.P530S	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	606					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			CTGTGGTAGGGCAGGCTCTCG	0.607													5	37					0	0	0.001168	0	0		A	30189452	A	A	30189452	3	1	65	1	0	0	0	0	1	0	0	0	1033	1203	42	2	473	2	ASCC2	22	30189452	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	5225346	30189452	21115114	639	44060											
GAL3ST1	9514	broad.mit.edu	37	chr22	30951991	30951991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaacacgatgttgcgccgcGgctggcactcccccgccgag	7	5	13	16	6	0	1	0	0	0	1	1	3	1	1	4	2	2	3	4	2	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr22:30951991G>A	uc003aig.1	-	4	361	c.221C>T	c.(220-222)CCG>CTG	p.P74L	GAL3ST1_uc003aih.1_Missense_Mutation_p.P74L|GAL3ST1_uc003aii.1_Missense_Mutation_p.P74L|GAL3ST1_uc010gvz.1_Missense_Mutation_p.P74L	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	74	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						GTTGCGCCGCGGCTGGCACTC	0.672													16	50					0	0	0.008871	0	0		A	30951991	A	A	30951991	3	1	65	1	0	0	0	0	1	0	0	0	6212	1116	39	1	1054	1	GAL3ST1	22	30951991	Missense_Mutation	SNP	G	TCGA-BR-8360-01A-11D-2340-08	762539	30951991	20352575	640	44061											
DEPDC5	9681	broad.mit.edu	37	chr22	32270319	32270319	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtactgcttcatcagcgcGgaggtggtacactggttggt	6	11	14	10	3	2	0	2	0	0	0	2	1	2	1	1	5	4	4	1	5	2	4			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr22:32270319G>A	uc003als.2	+	35	3673	c.3531G>A	c.(3529-3531)GCG>GCA	p.A1177A	DEPDC5_uc011als.1_Silent_p.A1108A|DEPDC5_uc011alu.1_Silent_p.A1208A|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Silent_p.A1199A|DEPDC5_uc003alu.2_Silent_p.A626A|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Silent_p.A475A|DEPDC5_uc011alx.1_Silent_p.A25A|DEPDC5_uc010gwk.2_Silent_p.A203A|DEPDC5_uc011aly.1_Silent_p.A25A	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1177	DEP.				intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						TCATCAGCGCGGAGGTGGTAC	0.592													3	12					0	0	0.004672	0	0		A	32270319	A	A	32270319	2	1	65	1	0	0	0	0	0	0	0	1	4448	1103	39	1		1	DEPDC5	22	32270319	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	1318328	32270319	19034247	641	44062											
CYTH4	27128	broad.mit.edu	37	chr22	37699399	37699399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgctttgtgtccatgaacCgcggcatcaacaatggtagc	10	9	11	11	3	1	1	1	1	0	0	2	1	2	1	2	2	4	3	2	2	4	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr22:37699399C>T	uc003arf.2	+	8	768	c.652C>T	c.(652-654)CGC>TGC	p.R218C	CYTH4_uc003are.2_Missense_Mutation_p.R218C|CYTH4_uc011amw.1_Missense_Mutation_p.R161C|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	218	SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						GTCCATGAACCGCGGCATCAA	0.622													8	20					0	0	0.00308	0	0		T	37699399	T	T	37699399	3	4	65	1	0	0	0	0	1	0	0	0	4209	652	23	1	682	1	CYTH4	22	37699399	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	5429080	37699399	13605167	642	44063											
ELFN2	114794	broad.mit.edu	37	chr22	37769395	37769395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcttgaggaaggacacgCgctggctcaggctgtcggca	7	6	17	11	4	1	1	1	1	0	0	2	3	1	3	0	6	0	5	0	6	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr22:37769395C>T	uc003asq.3	-	3	2966	c.2180G>A	c.(2179-2181)CGC>CAC	p.R727H		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	727	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					GAAGGACACGCGCTGGCTCAG	0.647													10	8					0	0	0.006214	0	0		T	37769395	T	T	37769395	3	4	65	1	0	0	0	0	1	0	0	0	5066	768	27	1	286	1	ELFN2	22	37769395	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	69996	37769395	13535171	643	44064											
SCUBE1	80274	broad.mit.edu	37	chr22	43634962	43634963	+	Splice_Site	INS	-	G	G																															tattgactgcgcacgtctctINSggggagggaaagagacagag																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr22:43634962_43634963insG	uc003bdt.1	-	7	816	c.728_splice	c.e7-1	p.E243_splice	SCUBE1_uc003bdu.1_Intron	NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1						adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				CGCACGTCTCTGGGGAGGGAAA	0.485													20	15	---	---	---	---						.	G	43634963	G	G	43634962	8	5	65	1	0	1	1	0	0	0	1	0	13969	1594	55	0	2304	0	SCUBE1	22	43634962	Splice_Site	INS	-	TCGA-BR-8360-01A-11D-2340-08	5865567	43634962	7669604	644	44065											
LMF2	91289	broad.mit.edu	37	chr22	50942825	50942825	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctgggctcggacgtaggtGggcggctgcttgtggaaggg	4	8	21	8	4	0	0	0	0	0	0	1	2	0	2	0	7	1	5	0	7	2	2			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chr22:50942825G>T	uc003blp.2	-	12	1693	c.1662C>A	c.(1660-1662)CCC>CCA	p.P554P	LMF2_uc010hba.2_Silent_p.P376P|LMF2_uc003blo.2_Silent_p.P529P	NM_033200	NP_149977	Q9BU23	LMF2_HUMAN	lipase maturation factor 2	554						endoplasmic reticulum membrane|integral to membrane				breast(1)	1		all_cancers(38;1.31e-09)|all_epithelial(38;1.81e-08)|all_lung(38;0.000817)|Breast(42;0.00387)|Lung NSC(38;0.0124)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GGACGTAGGTGGGCGGCTGCT	0.632													3	7					0.00024832	0.000254259	0.009096	1	0		T	50942825	T	T	50942825	2	4	65	1	0	0	0	0	0	0	0	1	8863	1335	47	5		5	LMF2	22	50942825	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	7307863	50942825	361741	645	44066											
ASMTL	8623	broad.mit.edu	37	chrX	1536899	1536899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctgcactgcctgcggtcCggggggttggaagtgggcgg	4	8	20	9	3	1	0	0	0	1	0	2	2	2	1	2	7	3	2	2	7	1	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chrX:1536899C>T	uc004cpx.1	-	11	1600	c.1489G>A	c.(1489-1491)GGA>AGA	p.G497R	ASMTL_uc011mhe.1_Missense_Mutation_p.G421R|ASMTL_uc004cpy.1_Missense_Mutation_p.G481R|ASMTL_uc011mhf.1_Missense_Mutation_p.G439R	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	497	ASMT-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCCTGCGGTCCGGGGGGTTGG	0.597													8	29					0	0	0.00308	0	0		T	1536899	T	T	1536899	3	4	65	1	0	0	0	0	1	0	0	0	1047	661	23	1	388	1	ASMTL	23	1536899	Missense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08		1536899	153733661	646	44067											
ACOT9	23597	broad.mit.edu	37	chrX	23740851	23740851	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcggagtggattttgttGtgcatgtaacaaataagaac	12	13	12	4	1	0	1	0	0	0	1	0	3	0	3	0	3	3	3	0	3	4	6			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chrX:23740851G>A	uc004dap.2	-	6	539	c.393C>T	c.(391-393)CAC>CAT	p.H131H	ACOT9_uc004dao.2_Silent_p.H140H|ACOT9_uc004daq.2_Silent_p.H89H|ACOT9_uc004dar.2_Silent_p.H71H|ACOT9_uc011mjt.1_RNA|ACOT9_uc004das.2_Silent_p.H71H|ACOT9_uc004dat.1_Silent_p.H131H	NM_001033583	NP_001028755	Q9Y305	ACOT9_HUMAN	acyl-Coenzyme A thioesterase 2, mitochondrial	131					acyl-CoA metabolic process	mitochondrion	acetyl-CoA hydrolase activity|carboxylesterase activity			ovary(2)|pancreas(1)	3						GGATTTTGTTGTGCATGTAAC	0.368													35	26					0	0	0.004878	0	0		A	23740851	A	A	23740851	2	1	65	1	0	0	0	0	0	0	0	1	157	1368	48	4		4	ACOT9	23	23740851	Silent	SNP	G	TCGA-BR-8360-01A-11D-2340-08	22203952	23740851	131529709	647	44068											
ALAS2	212	broad.mit.edu	37	chrX	55040074	55040074	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgctgttgagtgctgcaTtgcccacctggactcaggag	6	11	13	11	0	1	1	1	1	0	0	1	3	1	3	2	2	4	5	2	2	0	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chrX:55040074T>G	uc004dua.3	-	10	1583	c.1445A>C	c.(1444-1446)AAT>ACT	p.N482T	ALAS2_uc004dub.3_Missense_Mutation_p.N469T|ALAS2_uc004dud.3_Missense_Mutation_p.N445T	NM_000032	NP_000023	P22557	HEM0_HUMAN	5-aminolevulinate synthase 2 isoform a	482					cellular iron ion homeostasis|erythrocyte differentiation|heme biosynthetic process|hemoglobin biosynthetic process|oxygen homeostasis|response to hypoxia	mitochondrial inner membrane|mitochondrial matrix	5-aminolevulinate synthase activity|coenzyme binding|glycine binding|protein binding|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(1)	1					Glycine(DB00145)	GAGTGCTGCATTGCCCACCTG	0.542													3	21					0	0	0.004672	0	0		G	55040074	G	G	55040074	3	3	65	1	0	0	0	0	1	0	0	0	485	1493	52	5	326	5	ALAS2	23	55040074	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	31299223	55040074	100230486	648	44069											
MAGEE2	139599	broad.mit.edu	37	chrX	75004754	75004754	+	Frame_Shift_Del	DEL	G	-	-																															gattggcgcctgagggcactGgggggcatcaacgactagca																								rs61732441	byFrequency	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chrX:75004754delG	uc004ecj.1	-	1	318	c.133delC	c.(133-135)CAGfs	p.Q45fs		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	45										ovary(1)|skin(1)	2						TGAGGGCACTGGGGGGCATCA	0.587													11	14	---	---	---	---						.	-	75004754	-	-	75004754	7	5	65	1	0	1	0	1	0	0	0	0	9204	1357	47	0	1442	0	MAGEE2	23	75004754	Frame_Shift_Del	DEL	G	TCGA-BR-8360-01A-11D-2340-08	19964680	75004754	80265806	649	44070											
NXF2B	728343	broad.mit.edu	37	chrX	101623733	101623733	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatctccatttggcctggcTtcaacttattcttcacagag	8	14	7	12	0	4	1	2	0	2	1	5	1	4	1	2	2	1	2	2	2	2	5			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chrX:101623733T>G	uc004ejb.3	-	19	2501	c.629A>C	c.(628-630)AAG>ACG	p.K210T	NXF2B_uc004eiz.3_Missense_Mutation_p.K122T|NXF2B_uc004eja.3_Missense_Mutation_p.K210T|NXF2_uc004eiy.3_Missense_Mutation_p.K210T	NM_001099686	NP_001093156	Q9GZY0	NXF2_HUMAN	nuclear RNA export factor 2B	210					mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|RNA binding			ovary(1)	1						TTGGCCTGGCTTCAACTTATT	0.478													7	50					0	0	0.00245	0	0		G	101623733	G	G	101623733	3	3	65	1	0	0	0	0	1	0	0	0	10803	1609	56	5	3280	5	NXF2B	23	101623733	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	26618979	101623733	53646827	650	44071											
GPRASP1	9737	broad.mit.edu	37	chrX	101909850	101909850	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggccaggcacagggccaagCgagaagcttgcattgatttc	10	7	14	10	1	0	2	0	1	0	1	1	3	0	2	2	3	3	3	2	3	2	3			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chrX:101909850C>T	uc004ejj.3	+	5	1810	c.1009C>T	c.(1009-1011)CGA>TGA	p.R337*	GPRASP1_uc004eji.3_Nonsense_Mutation_p.R337*|GPRASP1_uc010nod.2_Nonsense_Mutation_p.R337*	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	337						cytoplasm	protein binding			ovary(1)|lung(1)	2						CAGGGCCAAGCGAGAAGCTTG	0.478													15	48					0	0	0.004007	0	0		T	101909850	T	T	101909850	4	4	65	1	0	0	0	0	0	1	0	0	6738	760	27	1	1011	1	GPRASP1	23	101909850	Nonsense_Mutation	SNP	C	TCGA-BR-8360-01A-11D-2340-08	286117	101909850	53360710	651	44072											
RGAG1	57529	broad.mit.edu	37	chrX	109695155	109695155	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttccagcctctggagccaTgaccacctcactgatgacag	10	8	9	14	0	2	3	1	3	1	0	3	4	3	4	5	1	2	1	5	1	0	1			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chrX:109695155T>C	uc004eor.1	+	3	1556	c.1310T>C	c.(1309-1311)ATG>ACG	p.M437T	RGAG1_uc011msr.1_Missense_Mutation_p.M437T	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	437										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TCTGGAGCCATGACCACCTCA	0.507													68	38					0	0	0.00361	0	0		C	109695155	C	C	109695155	3	2	65	1	0	0	0	0	1	0	0	0	13299	1464	51	3	1312	3	RGAG1	23	109695155	Missense_Mutation	SNP	T	TCGA-BR-8360-01A-11D-2340-08	7785305	109695155	45575405	652	44073											
XPNPEP2	7512	broad.mit.edu	37	chrX	128873107	128873107	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctgctcgagcccaggaaaGgcctgaaggaagaggccggg	10	4	17	10	2	1	2	0	1	1	1	2	5	1	4	3	5	2	1	3	5	3	0			TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chrX:128873107G>T	uc004eut.1	+	1	162	c.-82G>T	c.(-84--80)AAGGC>AATGC		XPNPEP2_uc011mum.1_Translation_Start_Site	NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound						cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						GCCCAGGAAAGGCCTGAAGGA	0.637													3	33					0.004672	0.00474121	0.004672	1	0		T	128873107	T	T	128873107	1	4	65	1	0	0	0	0	0	0	0	0	17469	1015	35	5		5	XPNPEP2	23	128873107	Translation_Start_Site	SNP	G	TCGA-BR-8360-01A-11D-2340-08	19177952	128873107	26397453	653	44074											
SASH3	54440	broad.mit.edu	37	chrX	128922006	128922006	+	Frame_Shift_Del	DEL	C	-	-																															tgccaaatccaaacccagctCccccgtggtgagcgagaagg																										TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chrX:128922006delC	uc011mun.1	+	2	295	c.113delC	c.(112-114)TCCfs	p.S38fs	SASH3_uc004euu.2_Frame_Shift_Del_p.S38fs|SASH3_uc011muo.1_5'UTR	NM_018990	NP_061863	O75995	SASH3_HUMAN	SAM and SH3 domain containing 3	38										ovary(2)|pancreas(1)	3						AAACCCAGCTCCCCCGTGGTG	0.567													25	22	---	---	---	---						.	-	128922006	-	-	128922006	7	5	65	1	0	1	0	1	0	0	0	0	13874	855	30	0	119	0	SASH3	23	128922006	Frame_Shift_Del	DEL	C	TCGA-BR-8360-01A-11D-2340-08	48899	128922006	26348554	654	44075											
PRRG3	79057	broad.mit.edu	37	chrX	150869296	150869297	+	Frame_Shift_Ins	INS	-	G	G																															ggtggtgctggggcccagtcINSgggggggcaggaccacagtc																								rs139807152	byFrequency	TCGA-BR-8360-01A-11D-2340-08	TCGA-BR-8360-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	fdcd47c0-be85-4fef-81fa-0b9a2f02b76b	c4253b55-6a17-4168-9ec4-49773cb08f7f	g.chrX:150869296_150869297insG	uc004few.1	+	4	877_878	c.487_488insG	c.(487-489)CGGfs	p.R163fs		NM_024082	NP_076987	Q9BZD7	TMG3_HUMAN	proline rich Gla (G-carboxyglutamic acid) 3	163	Cytoplasmic (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GGGGCCCAGTCGGGGGGGCAGG	0.673													14	13	---	---	---	---						.	G	150869297	G	G	150869296	7	5	65	1	0	1	1	0	0	0	0	0	12629	875	31	0	497	0	PRRG3	23	150869296	Frame_Shift_Ins	INS	-	TCGA-BR-8360-01A-11D-2340-08	21947290	150869296	4401264	655	44076											
DVL1	1855	broad.mit.edu	37	chr1	1275518	1275518	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccgtctccacggtcgttgCtctgccccacgatgctgatg	4	10	11	16	5	2	1	0	1	2	0	4	2	2	1	4	1	3	3	4	1	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:1275518C>A	uc001aer.3	-	8	856	c.809G>T	c.(808-810)AGC>ATC	p.S270I	DVL1_uc002quu.2_5'UTR|DVL1_uc009vka.2_5'UTR|DVL1_uc001aeu.1_5'UTR	NM_004421	NP_004412	O14640	DVL1_HUMAN	dishevelled 1	270	PDZ.				canonical Wnt receptor signaling pathway|dendrite morphogenesis|intracellular signal transduction|negative regulation of protein binding|negative regulation of protein kinase activity|neural tube development|neuromuscular junction development|neurotransmitter secretion|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein localization to nucleus|receptor clustering|transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, planar cell polarity pathway	cytoplasmic membrane-bounded vesicle|cytosol|plasma membrane|synapse|synaptosome	frizzled binding|identical protein binding|protein kinase binding|signal transducer activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		ACGGTCGTTGCTCTGCCCCAC	0.657													15	35					3.32936e-07	3.4404e-07	1	1	0		A	1275518	A	A	1275518	3	1	66	1	0	0	0	0	1	0	0	0	4841	797	28	5	1235	5	DVL1	1	1275518	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08		1275518	247975103	1	44077											
MXRA8	54587	broad.mit.edu	37	chr1	1290695	1290695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtgatggtgcaggttgcagGtgtacagccccgcgtccgtc	6	9	15	11	3	0	1	0	1	0	0	2	1	1	1	3	3	4	4	3	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:1290695G>A	uc001aew.2	-	4	438	c.407C>T	c.(406-408)ACC>ATC	p.T136I	MXRA8_uc001aex.3_Missense_Mutation_p.T136I|MXRA8_uc001aey.3_Missense_Mutation_p.T136I|MXRA8_uc010nyl.1_Missense_Mutation_p.T136I|MXRA8_uc001aez.2_Missense_Mutation_p.T35I|MXRA8_uc001afa.2_Missense_Mutation_p.T127I	NM_032348	NP_115724	Q9BRK3	MXRA8_HUMAN	matrix-remodelling associated 8 precursor	136	Extracellular (Potential).|Ig-like V-type 1.					integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		CAGGTTGCAGGTGTACAGCCC	0.517													3	11					0	0	1	0	0		A	1290695	A	A	1290695	3	1	66	1	0	0	0	0	1	0	0	0	10023	1261	44	4	949	4	MXRA8	1	1290695	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	15177	1290695	247959926	2	44078											
ATAD3A	55210	broad.mit.edu	37	chr1	1464645	1464645	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactacgggaggaagtgctcGgaggtcgctcggctgacgga	8	6	18	9	5	0	1	0	1	0	0	3	6	0	5	0	6	2	3	0	6	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:1464645G>A	uc001afz.1	+	15	1786	c.1692G>A	c.(1690-1692)TCG>TCA	p.S564S	ATAD3A_uc001aga.1_Silent_p.S516S|ATAD3A_uc001agb.1_Silent_p.S437S|ATAD3A_uc001agc.1_5'Flank	NM_018188	NP_060658	Q9NVI7	ATD3A_HUMAN	ATPase family, AAA domain containing 3A	564							ATP binding|nucleoside-triphosphatase activity|protein binding			skin(1)	1	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.12e-36)|OV - Ovarian serous cystadenocarcinoma(86;2.18e-22)|Colorectal(212;0.000164)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00233)|BRCA - Breast invasive adenocarcinoma(365;0.00469)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0347)|Lung(427;0.147)		GGAAGTGCTCGGAGGTCGCTC	0.677													4	6					0	0	1	0	0		A	1464645	A	A	1464645	2	1	66	1	0	0	0	0	0	0	0	1	1074	1103	39	1		1	ATAD3A	1	1464645	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	173950	1464645	247785976	3	44079											
KIAA0562	9731	broad.mit.edu	37	chr1	3768978	3768978	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttgtggggcattctgcaCgtttgggctgtttataagag	7	15	13	6	1	2	1	0	0	2	1	2	1	2	1	0	3	1	5	0	3	2	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:3768978C>T	uc001aky.2	-	2	353	c.-6G>A	c.(-8--4)ACGTG>ACATG		KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Translation_Start_Site	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,							centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		GCATTCTGCACGTTTGGGCTG	0.463													10	24					0	0	1	0	0		T	3768978	T	T	3768978	1	4	66	1	0	0	0	0	0	0	0	0	8200	551	19	1		1	KIAA0562	1	3768978	Translation_Start_Site	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2304333	3768978	245481643	4	44080											
C1orf174	339448	broad.mit.edu	37	chr1	3809468	3809468	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacatgctgtcttggcagaCgtggaaccagcaacttcctg	10	9	11	11	1	1	2	0	0	1	2	2	3	2	3	2	2	4	3	2	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:3809468C>T	uc001alf.2	-	2	215	c.108G>A	c.(106-108)ACG>ACA	p.T36T	C1orf174_uc009vls.2_RNA	NM_207356	NP_997239	Q8IYL3	CA174_HUMAN	hypothetical protein LOC339448	36											0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;5.09e-25)|all_epithelial(116;9.35e-17)|all_lung(118;1.09e-06)|Lung NSC(185;0.000139)|all_neural(13;0.00287)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0219)|all_hematologic(16;0.027)|Colorectal(325;0.0276)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;1.55e-39)|OV - Ovarian serous cystadenocarcinoma(86;5.99e-23)|GBM - Glioblastoma multiforme(42;2.22e-17)|Colorectal(212;1.08e-05)|COAD - Colon adenocarcinoma(227;5.49e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000365)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.19)		TCTTGGCAGACGTGGAACCAG	0.542													9	12					0	0	1	0	0		T	3809468	T	T	3809468	2	4	66	1	0	0	0	0	0	0	0	1	2018	523	19	1		1	C1orf174	1	3809468	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	40490	3809468	245441153	5	44081											
AJAP1	55966	broad.mit.edu	37	chr1	4832466	4832466	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagcctggacatattcacGgcctataacgagaccctgca	12	7	9	13	2	1	1	1	0	0	1	1	3	1	2	3	2	4	2	3	2	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:4832466G>T	uc001alm.1	+	4	1425	c.1044G>T	c.(1042-1044)ACG>ACT	p.T348T	AJAP1_uc001aln.2_Silent_p.T348T	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	348	Targeting signals.|Cytoplasmic (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		ACATATTCACGGCCTATAACG	0.612													8	33					1.06961e-07	1.10658e-07	1	1	0		T	4832466	T	T	4832466	2	4	66	1	0	0	0	0	0	0	0	1	438	1103	39	5		5	AJAP1	1	4832466	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1022998	4832466	244418155	6	44082											
ESPN	83715	broad.mit.edu	37	chr1	6512002	6512002	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagcttggttcccgtgcCgcccactactcctgcgccgg	4	9	12	16	4	0	0	0	0	0	0	2	1	2	1	5	3	4	2	5	3	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:6512002C>A	uc001amy.2	+	10	2339	c.2171C>A	c.(2170-2172)CCG>CAG	p.P724Q	ESPN_uc001amz.2_Missense_Mutation_p.P158Q	NM_031475	NP_113663	B1AK53	ESPN_HUMAN	espin	724	Pro-rich.				sensory perception of sound	brush border|cytoplasm|filamentous actin|stereocilium	actin filament binding|SH3 domain binding				0	Ovarian(185;0.0386)|all_lung(157;0.154)	all_cancers(23;3.6e-37)|all_epithelial(116;2.56e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|all_hematologic(16;6.92e-06)|Colorectal(325;4.47e-05)|Acute lymphoblastic leukemia(12;4.92e-05)|Breast(487;7.61e-05)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)		Epithelial(90;1.82e-35)|GBM - Glioblastoma multiforme(13;3e-28)|Kidney(185;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(229;5.63e-08)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;1.41e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000109)|STAD - Stomach adenocarcinoma(132;0.00167)|Lung(427;0.0108)|LUSC - Lung squamous cell carcinoma(448;0.0253)|READ - Rectum adenocarcinoma(331;0.0419)		GTTCCCGTGCCGCCCACTACT	0.677													6	16					0.00116845	0.00118048	1	1	0		A	6512002	A	A	6512002	3	1	66	1	0	0	0	0	1	0	0	0	5262	652	23	5	2209	5	ESPN	1	6512002	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1679536	6512002	242738619	7	44083											
UBE4B	10277	broad.mit.edu	37	chr1	10166513	10166513	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccccaagtccccctgccctCgccagtagcccccaagcagt	7	6	7	21	1	0	0	0	0	0	0	3	0	2	0	8	0	3	2	8	0	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:10166513C>T	uc001aqs.3	+	7	1781	c.1068C>T	c.(1066-1068)CTC>CTT	p.L356L	UBE4B_uc001aqr.3_Intron|UBE4B_uc010oai.1_Intron|UBE4B_uc010oaj.1_Intron	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	356					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		CCCCTGCCCTCGCCAGTAGCC	0.672													24	62					0	0	1	0	0		T	10166513	T	T	10166513	2	4	66	1	0	0	0	0	0	0	0	1	16909	871	31	1		1	UBE4B	1	10166513	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3654511	10166513	239084108	8	44084											
CASZ1	54897	broad.mit.edu	37	chr1	10714551	10714551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcttcggtggctcggaagCgctggaagccgtcgttaatg	7	10	15	9	5	1	0	0	0	1	0	4	2	1	2	1	4	2	3	1	4	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:10714551C>T	uc001aro.2	-	10	2083	c.1763G>A	c.(1762-1764)CGC>CAC	p.R588H	CASZ1_uc001arp.1_Missense_Mutation_p.R588H|CASZ1_uc009vmx.2_Missense_Mutation_p.R612H	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	588					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GGCTCGGAAGCGCTGGAAGCC	0.582													30	51					0	0	1	0	0		T	10714551	T	T	10714551	3	4	66	1	0	0	0	0	1	0	0	0	2688	768	27	1	3568	1	CASZ1	1	10714551	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	548038	10714551	238536070	9	44085											
MTOR	2475	broad.mit.edu	37	chr1	11273588	11273588	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctcaatgagaagaatgatCgtgctctgaattgaggtgtt	11	13	12	5	1	2	5	1	4	1	2	3	6	2	5	0	1	2	3	0	1	4	2	rs147272284	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:11273588C>T	uc001asd.2	-	21	3274	c.3153G>A	c.(3151-3153)ACG>ACA	p.T1051T		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	1051					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GAAGAATGATCGTGCTCTGAA	0.458													32	72					0	0	1	0	0		T	11273588	T	T	11273588	2	4	66	1	0	0	0	0	0	0	0	1	9972	871	31	1		1	MTOR	1	11273588	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	559037	11273588	237977033	10	44086											
MTOR	2475	broad.mit.edu	37	chr1	11288885	11288885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactggtctcggaagatcCgcatcagggccaccatggac	9	7	13	12	2	2	2	1	1	1	1	4	4	3	4	3	4	0	1	3	4	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:11288885C>T	uc001asd.2	-	19	2991	c.2870G>A	c.(2869-2871)CGG>CAG	p.R957Q		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	957					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TCGGAAGATCCGCATCAGGGC	0.507													29	52					0	0	1	0	0		T	11288885	T	T	11288885	3	4	66	1	0	0	0	0	1	0	0	0	9972	652	23	1	4939	1	MTOR	1	11288885	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	15297	11288885	237961736	11	44087											
CLCN6	1185	broad.mit.edu	37	chr1	11888655	11888655	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaagtaccgtatgcgaaaCgtgcacccgaaacctaagct	14	6	9	12	4	0	0	0	0	0	0	0	2	0	0	3	0	6	5	3	0	6	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:11888655C>T	uc001ate.3	+	12	1208	c.1095C>T	c.(1093-1095)AAC>AAT	p.N365N	CLCN6_uc009vnh.1_Intron|CLCN6_uc010oat.1_Silent_p.N81N|CLCN6_uc010oau.1_Silent_p.N343N	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	365					cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		GTATGCGAAACGTGCACCCGA	0.597													12	123					0	0	1	0	0		T	11888655	T	T	11888655	2	4	66	1	0	0	0	0	0	0	0	1	3470	535	19	1		1	CLCN6	1	11888655	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	599770	11888655	237361966	12	44088											
CLCN6	1185	broad.mit.edu	37	chr1	11894370	11894370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcttgggcggggtggtccGcatgaccatcagcctcacgg	5	10	14	12	3	3	1	2	1	1	0	4	1	4	1	3	5	1	1	3	5	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:11894370G>A	uc001ate.3	+	16	1717	c.1604G>A	c.(1603-1605)CGC>CAC	p.R535H	CLCN6_uc010oat.1_Missense_Mutation_p.R251H|CLCN6_uc010oau.1_Missense_Mutation_p.R513H	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	535					cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		GGGGTGGTCCGCATGACCATC	0.557													14	25					0	0	1	0	0		A	11894370	A	A	11894370	3	1	66	1	0	0	0	0	1	0	0	0	3470	1087	38	1	1676	1	CLCN6	1	11894370	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5715	11894370	237356251	13	44089											
CLCN6	1185	broad.mit.edu	37	chr1	11897527	11897527	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttgtcaccctgcttgtcCgaggagtttgttactctgaa	7	14	10	10	1	2	1	1	1	1	0	3	3	3	2	2	1	3	4	2	1	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:11897527C>T	uc001ate.3	+	20	2379	c.2266C>T	c.(2266-2268)CGA>TGA	p.R756*	CLCN6_uc010oat.1_Nonsense_Mutation_p.R472*|CLCN6_uc010oau.1_Nonsense_Mutation_p.R734*|CLCN6_uc010oav.1_5'Flank|CLCN6_uc010oaw.1_5'Flank|CLCN6_uc010oax.1_5'Flank|CLCN6_uc010oay.1_5'Flank|CLCN6_uc010oaz.1_5'Flank|CLCN6_uc010oba.1_5'Flank	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	756	Cytoplasmic (By similarity).				cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		CCTGCTTGTCCGAGGAGTTTG	0.607													26	31					0	0	1	0	0		T	11897527	T	T	11897527	4	4	66	1	0	0	0	0	0	1	0	0	3470	644	23	1	2354	1	CLCN6	1	11897527	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3157	11897527	237353094	14	44090											
PRAMEF2	65122	broad.mit.edu	37	chr1	12920014	12920014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacgtcagataatgaactcGagggatggttagtcaccaga	14	8	11	8	2	2	3	2	1	0	2	3	5	2	4	1	2	1	1	1	2	3	2	rs3204808		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:12920014G>A	uc001aum.1	+	3	841	c.754G>A	c.(754-756)GAG>AAG	p.E252K		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	252											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TAATGAACTCGAGGGATGGTT	0.433													39	104					0	0	1	0	0		A	12920014	A	A	12920014	3	1	66	1	0	0	0	0	1	0	0	0	12457	1059	37	1	760	1	PRAMEF2	1	12920014	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1022487	12920014	236330607	15	44091											
RSC1A1	6248	broad.mit.edu	37	chr1	15986518	15986518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatcgcattgaacctaaagCtgtgaaggctttgaaggctt	12	11	11	7	1	0	4	0	3	0	1	1	4	0	4	1	2	2	4	1	2	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:15986518C>T	uc010obn.1	+	1	155	c.155C>T	c.(154-156)GCT>GTT	p.A52V	DDI2_uc001awx.1_3'UTR|DDI2_uc009voj.1_3'UTR	NM_006511	NP_006502	Q92681	RSCA1_HUMAN	regulatory solute carrier protein, family 1,	52					negative regulation of transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transport	cell junction|Golgi apparatus|nucleus	ion channel inhibitor activity			ovary(1)	1		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00276)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GAACCTAAAGCTGTGAAGGCT	0.448													73	144					0	0	1	0	0		T	15986518	T	T	15986518	3	4	66	1	0	0	0	0	1	0	0	0	13723	797	28	2	157	2	RSC1A1	1	15986518	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3066504	15986518	233264103	16	44092											
CLCNKA	1187	broad.mit.edu	37	chr1	16354587	16354587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcttcatcaagaccaatcGgtacagctccaaactgctgg	12	8	8	13	1	2	1	2	0	0	1	4	1	3	1	2	2	5	4	2	2	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:16354587G>A	uc001axu.2	+	10	1021	c.941G>A	c.(940-942)CGG>CAG	p.R314Q	CLCNKA_uc001axt.2_RNA|CLCNKA_uc001axv.2_Missense_Mutation_p.R314Q|CLCNKA_uc010obw.1_Missense_Mutation_p.R271Q|CLCNKB_uc001axw.3_Intron|CLCNKA_uc010obx.1_5'Flank|CLCNKA_uc010oby.1_5'Flank	NM_004070	NP_004061	P51800	CLCKA_HUMAN	chloride channel Ka isoform 1	314					excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)	Niflumic Acid(DB04552)	AAGACCAATCGGTACAGCTCC	0.562													17	46					0	0	1	0	0		A	16354587	A	A	16354587	3	1	66	1	0	0	0	0	1	0	0	0	3472	1116	39	1	975	1	CLCNKA	1	16354587	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	368069	16354587	232896034	17	44093											
CLCNKB	1188	broad.mit.edu	37	chr1	16380184	16380184	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccacagcatcaccacacTggccaaggacatgccactgg	13	4	9	15	0	1	0	1	0	0	0	1	2	1	1	4	3	3	1	4	3	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:16380184T>C	uc001axw.3	+	16	1753	c.1673T>C	c.(1672-1674)CTG>CCG	p.L558P	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Missense_Mutation_p.L558P|CLCNKB_uc001axy.3_Missense_Mutation_p.L389P	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1	558	CBS 1.				excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		ATCACCACACTGGCCAAGGAC	0.622													13	23					0	0	1	0	0		C	16380184	C	C	16380184	3	2	66	1	0	0	0	0	1	0	0	0	3473	1580	55	3	1879	3	CLCNKB	1	16380184	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	25597	16380184	232870437	18	44094											
ATP13A2	23400	broad.mit.edu	37	chr1	17331924	17331924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggccaggttgcagggcCggagccgcagccgcaccccc	5	3	16	17	4	0	0	0	0	0	0	0	1	0	1	6	4	3	4	6	4	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:17331924C>T	uc001baa.2	-	3	423	c.233G>A	c.(232-234)CGG>CAG	p.R78Q	ATP13A2_uc001bab.2_Missense_Mutation_p.R78Q|ATP13A2_uc001bac.2_Missense_Mutation_p.R78Q	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	78	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		GTTGCAGGGCCGGAGCCGCAG	0.572													7	6					0	0	1	0	0		T	17331924	T	T	17331924	3	4	66	1	0	0	0	0	1	0	0	0	1125	652	23	1	3653	1	ATP13A2	1	17331924	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	951740	17331924	231918697	19	44095											
SDHB	6390	broad.mit.edu	37	chr1	17380511	17380511	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagagggcgaccaccgccgCcatcttggctcctgacgtca	7	6	13	15	4	2	2	1	1	1	1	3	4	3	2	5	3	0	1	5	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:17380511C>G	uc001bae.2	-	1	155	c.4G>C	c.(4-6)GCG>CCG	p.A2P		NM_003000	NP_002991	P21912	DHSB_HUMAN	succinate dehydrogenase complex, subunit B, iron	2					respiratory electron transport chain|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	2 iron, 2 sulfur cluster binding|3 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|protein binding|succinate dehydrogenase (ubiquinone) activity|ubiquinone binding			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0049)|COAD - Colon adenocarcinoma(227;1.18e-05)|BRCA - Breast invasive adenocarcinoma(304;2.41e-05)|Kidney(64;0.000188)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)	Succinic acid(DB00139)	ACCACCGCCGCCATCTTGGCT	0.672			Mis|N|F			paraganglioma|pheochromocytoma			Familial_Paragangliomas|Carney-Stratakis_syndrome|Cowden_syndrome				4	15					0	0	1	0	0		G	17380511	G	G	17380511	3	3	66	1	0	0	0	0	1	0	0	0	13990	739	26	5	870	5	SDHB	1	17380511	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	48587	17380511	231870110	20	44096											
PADI2	11240	broad.mit.edu	37	chr1	17410241	17410241	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggatccagcgatcgcctcGgtttaggtactggaagcaga	9	9	13	10	3	0	1	0	0	0	1	3	4	1	3	2	4	3	3	2	4	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:17410241G>A	uc001baf.2	-	9	1112	c.1030C>T	c.(1030-1032)CGA>TGA	p.R344*	PADI2_uc010ocm.1_Nonsense_Mutation_p.R228*|PADI2_uc001bag.1_Nonsense_Mutation_p.R344*	NM_007365	NP_031391	Q9Y2J8	PADI2_HUMAN	peptidyl arginine deiminase, type II	344					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(3)|pancreas(1)|central_nervous_system(1)|skin(1)	6		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000422)|Renal(390;0.000518)|all_lung(284;0.000546)|Ovarian(437;0.00671)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;1.49e-05)|COAD - Colon adenocarcinoma(227;1.54e-05)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)	L-Citrulline(DB00155)	CGATCGCCTCGGTTTAGGTAC	0.522													28	49					0	0	1	0	0		A	17410241	A	A	17410241	4	1	66	1	0	0	0	0	0	1	0	0	11397	1124	39	1	999	1	PADI2	1	17410241	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	29730	17410241	231840380	21	44097											
PADI3	51702	broad.mit.edu	37	chr1	17603150	17603150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagctttgtccctgcccccGatgggaaggtaagaacttcg	8	10	12	11	2	0	2	0	1	0	1	2	4	1	3	3	2	3	2	3	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:17603150G>A	uc001bai.2	+	12	1484	c.1444G>A	c.(1444-1446)GAT>AAT	p.D482N		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	482					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	CCCTGCCCCCGATGGGAAGGT	0.597													16	48					0	0	1	0	0		A	17603150	A	A	17603150	3	1	66	1	0	0	0	0	1	0	0	0	11398	1058	37	1	1490	1	PADI3	1	17603150	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	192909	17603150	231647471	22	44098											
KLHDC7A	127707	broad.mit.edu	37	chr1	18809629	18809629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacccggatgccttccagtgCgccgtggtggacaacctcat	7	9	11	14	3	1	0	1	0	0	0	2	2	2	2	5	3	4	0	5	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:18809629C>T	uc001bax.2	+	1	2206	c.2154C>T	c.(2152-2154)TGC>TGT	p.C718C	KLHDC7A_uc009vpg.2_Silent_p.C500C	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	718						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CCTTCCAGTGCGCCGTGGTGG	0.657													30	36					0	0	1	0	0		T	18809629	T	T	18809629	2	4	66	1	0	0	0	0	0	0	0	1	8376	776	27	1		1	KLHDC7A	1	18809629	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1206479	18809629	230440992	23	44099											
KIAA0090	23065	broad.mit.edu	37	chr1	19546113	19546113	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgtagatacctcgcattcGagaaactgtctggttatagt	10	14	10	7	2	1	2	0	0	1	2	3	3	1	2	1	1	2	3	1	1	5	5	rs139335524		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:19546113G>A	uc001bbo.2	-	22	2795	c.2752C>T	c.(2752-2754)CGA>TGA	p.R918*	KIAA0090_uc001bbn.2_RNA|KIAA0090_uc001bbp.2_Nonsense_Mutation_p.R917*|KIAA0090_uc001bbq.2_Nonsense_Mutation_p.R917*|KIAA0090_uc001bbr.2_Nonsense_Mutation_p.R896*	NM_015047	NP_055862	Q8N766	K0090_HUMAN	hypothetical protein LOC23065 precursor	918	DUF1620.|Extracellular (Potential).					integral to membrane	protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|Breast(348;0.00366)|all_lung(284;0.00519)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;3.84e-05)|Kidney(64;0.000191)|KIRC - Kidney renal clear cell carcinoma(64;0.00274)|GBM - Glioblastoma multiforme(114;0.005)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0656)		CCTCGCATTCGAGAAACTGTC	0.498													19	52					0	0	1	0	0		A	19546113	A	A	19546113	4	1	66	1	0	0	0	0	0	1	0	0	8169	1066	37	1	237	1	KIAA0090	1	19546113	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	736484	19546113	229704508	24	44100											
PLA2G5	5322	broad.mit.edu	37	chr1	20412716	20412716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaacccccaaggatggcaccGattggtgagctgatcgctat	10	8	12	11	2	0	2	0	2	0	0	1	5	0	3	3	3	2	3	3	3	3	2	rs143614555		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:20412716G>A	uc001bcy.2	+	3	449	c.181G>A	c.(181-183)GAT>AAT	p.D61N	PLA2G5_uc001bcw.2_RNA|PLA2G5_uc001bcx.2_Missense_Mutation_p.D92N	NM_000929	NP_000920	P39877	PA2G5_HUMAN	phospholipase A2, group V precursor	61					lipid catabolic process	extracellular region	calcium ion binding|calcium-dependent phospholipase A2 activity			skin(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000249)|Lung NSC(340;0.000287)|Breast(348;0.000812)|Ovarian(437;0.00328)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.22e-05)|BRCA - Breast invasive adenocarcinoma(304;8.15e-05)|Kidney(64;0.000184)|GBM - Glioblastoma multiforme(114;0.00089)|KIRC - Kidney renal clear cell carcinoma(64;0.0027)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0652)		GGATGGCACCGATTGGTGAGC	0.403													27	42					0	0	1	0	0		A	20412716	A	A	20412716	3	1	66	1	0	0	0	0	1	0	0	0	12026	1058	37	1	187	1	PLA2G5	1	20412716	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	866603	20412716	228837905	25	44101											
LUZP1	7798	broad.mit.edu	37	chr1	23418572	23418572	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattggtatctgggagctccAtggtattggtggaggctctg	6	13	15	7	0	2	0	0	0	2	0	3	2	3	2	1	6	1	4	1	6	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:23418572A>G	uc001bgk.2	-	4	2567	c.2183T>C	c.(2182-2184)ATG>ACG	p.M728T	LUZP1_uc010odv.1_Missense_Mutation_p.M728T|LUZP1_uc001bgl.2_Missense_Mutation_p.M728T|LUZP1_uc001bgm.1_Missense_Mutation_p.M728T	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	728						nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		TGGGAGCTCCATGGTATTGGT	0.483													73	160					0	0	1	0	0		G	23418572	G	G	23418572	3	3	66	1	0	0	0	0	1	0	0	0	9104	217	8	3	1055	3	LUZP1	1	23418572	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3005856	23418572	225832049	26	44102											
HNRNPR	10236	broad.mit.edu	37	chr1	23637497	23637497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacctctccccccaccaCgaccccgacctctaattgga	9	7	4	21	2	2	0	0	0	2	0	4	3	3	1	9	1	0	0	9	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:23637497C>T	uc001bgr.3	-	11	1511	c.1352G>A	c.(1351-1353)CGT>CAT	p.R451H	HNRNPR_uc001bgo.2_Missense_Mutation_p.R61H|HNRNPR_uc001bgp.3_Missense_Mutation_p.R454H|HNRNPR_uc009vqk.2_Missense_Mutation_p.R353H|HNRNPR_uc001bgs.3_Missense_Mutation_p.R350H|HNRNPR_uc010odw.1_Missense_Mutation_p.R413H|HNRNPR_uc010odx.1_Missense_Mutation_p.R291H|HNRNPR_uc009vql.2_Missense_Mutation_p.R312H	NM_005826	NP_005817	O43390	HNRPR_HUMAN	heterogeneous nuclear ribonucleoprotein R	451	RNA-binding RGG-box.					catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00394)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;6.83e-27)|Colorectal(126;6.01e-08)|COAD - Colon adenocarcinoma(152;3.32e-06)|GBM - Glioblastoma multiforme(114;6.69e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00357)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0875)|LUSC - Lung squamous cell carcinoma(448;0.19)		CCCCCCACCACGACCCCGACC	0.448													26	69					0	0	1	0	0		T	23637497	T	T	23637497	3	4	66	1	0	0	0	0	1	0	0	0	7288	536	19	1	553	1	HNRNPR	1	23637497	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	218925	23637497	225613124	27	44103											
SRRM1	10250	broad.mit.edu	37	chr1	24995906	24995906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggaggcccgatcaccacaaCcaaacaaacggcattcgccc	13	3	9	16	3	1	0	1	0	0	0	2	2	1	1	4	3	3	1	4	3	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:24995906C>T	uc001bjm.2	+	14	2256	c.2032C>T	c.(2032-2034)CCA>TCA	p.P678S	SRRM1_uc010oel.1_Missense_Mutation_p.P690S|SRRM1_uc009vrh.1_Missense_Mutation_p.P651S|SRRM1_uc009vri.1_Missense_Mutation_p.P607S	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	678	Pro-rich.|Necessary for speckles and matrix localization.|Arg-rich.|Ser-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		ATCACCACAACCAAACAAACG	0.572													8	24					0	0	1	0	0		T	24995906	T	T	24995906	3	4	66	1	0	0	0	0	1	0	0	0	15193	507	18	4	2086	4	SRRM1	1	24995906	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1358409	24995906	224254715	28	44104											
TMEM57	55219	broad.mit.edu	37	chr1	25785241	25785241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacctcgaagtcatagcGccacaaatgggagcattcct	11	9	8	13	2	2	0	2	0	0	0	4	2	3	1	3	1	2	1	3	1	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:25785241G>A	uc001bkk.2	+	6	1214	c.1012G>A	c.(1012-1014)GCC>ACC	p.A338T	TMEM57_uc009vru.2_Intron|TMEM57_uc009vrv.2_Intron|TMEM57_uc009vrt.2_RNA	NM_018202	NP_060672	Q8N5G2	MACOI_HUMAN	transmembrane protein 57	338						axon|integral to membrane|neuron projection terminus|nuclear membrane|synapse part					0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00715)|all_lung(284;0.00989)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.201)		UCEC - Uterine corpus endometrioid carcinoma (279;0.042)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-26)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|GBM - Glioblastoma multiforme(114;0.0191)|READ - Rectum adenocarcinoma(331;0.0649)		AAGTCATAGCGCCACAAATGG	0.413													43	139					0	0	1	0	0		A	25785241	A	A	25785241	3	1	66	1	0	0	0	0	1	0	0	0	16209	1087	38	1	1034	1	TMEM57	1	25785241	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	789335	25785241	223465380	29	44105											
ARID1A	8289	broad.mit.edu	37	chr1	27106699	27106699	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagcccaggacccctttTccaccctgggccccaatgcc	7	7	8	19	0	0	1	0	1	0	0	1	2	1	2	8	2	2	0	8	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:27106699T>C	uc001bmv.1	+	20	6683	c.6310T>C	c.(6310-6312)TCC>CCC	p.S2104P	ARID1A_uc001bmu.1_Missense_Mutation_p.S1887P|ARID1A_uc001bmx.1_Missense_Mutation_p.S950P|ARID1A_uc009vsm.1_Missense_Mutation_p.S432P|ARID1A_uc009vsn.1_Missense_Mutation_p.S346P	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2104					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		GGACCCCTTTTCCACCCTGGG	0.577			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								31	66					0	0	1	0	0		C	27106699	C	C	27106699	3	2	66	1	0	0	0	0	1	0	0	0	913	1783	62	3	6388	3	ARID1A	1	27106699	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1321458	27106699	222143922	30	44106											
ARID1A	8289	broad.mit.edu	37	chr1	27106804	27106804	+	Frame_Shift_Del	DEL	C	-	-																															tggacctgattctggccacaCcccccttcagccgcctggag																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:27106804delC	uc001bmv.1	+	20	6788	c.6415delC	c.(6415-6417)CCCfs	p.P2139fs	ARID1A_uc001bmu.1_Frame_Shift_Del_p.P1922fs|ARID1A_uc001bmx.1_Frame_Shift_Del_p.P985fs|ARID1A_uc009vsm.1_Frame_Shift_Del_p.P467fs|ARID1A_uc009vsn.1_Frame_Shift_Del_p.P381fs	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2139					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.F2141fs*59(1)		ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TCTGGCCACACCCCCCTTCAG	0.587			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								40	90	---	---	---	---						.	-	27106804	-	-	27106804	7	5	66	1	0	1	0	1	0	0	0	0	913	507	18	0	6493	0	ARID1A	1	27106804	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	105	27106804	222143817	31	44107											
WASF2	10163	broad.mit.edu	37	chr1	27741399	27741399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttctcccactcttccttaCgtgtcttgattttacgtggg	4	19	7	11	2	3	1	0	1	3	0	5	1	4	1	2	1	2	0	2	1	2	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:27741399C>T	uc001bof.1	-	6	812	c.596G>A	c.(595-597)CGT>CAT	p.R199H	WASF2_uc010ofl.1_Missense_Mutation_p.R199H	NM_006990	NP_008921	Q9Y6W5	WASF2_HUMAN	WAS protein family, member 2	199					actin cytoskeleton organization|G-protein signaling, coupled to cAMP nucleotide second messenger	actin cytoskeleton|lamellipodium	actin binding			skin(2)|ovary(1)	3		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0446)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.7e-08)|COAD - Colon adenocarcinoma(152;2e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00139)|KIRC - Kidney renal clear cell carcinoma(1967;0.00204)|STAD - Stomach adenocarcinoma(196;0.00325)|READ - Rectum adenocarcinoma(331;0.0481)		CTCTTCCTTACGTGTCTTGAT	0.398													31	89					0	0	1	0	0		T	27741399	T	T	27741399	3	4	66	1	0	0	0	0	1	0	0	0	17279	536	19	1	916	1	WASF2	1	27741399	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	634595	27741399	221509222	32	44108											
PTAFR	5724	broad.mit.edu	37	chr1	28476590	28476590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcccgggagcatttccGgctactgcgcatgctgtaga	6	9	15	11	3	0	1	0	0	0	1	1	2	1	2	2	4	4	5	2	4	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:28476590G>A	uc001bpl.2	-	2	1070	c.943C>T	c.(943-945)CGG>TGG	p.R315W	PTAFR_uc001bpm.3_Missense_Mutation_p.R315W|PTAFR_uc009vte.2_Missense_Mutation_p.R315W	NM_000952	NP_000943	P25105	PTAFR_HUMAN	platelet-activating factor receptor	315	Cytoplasmic (Potential).				chemotaxis|inflammatory response|interferon-gamma-mediated signaling pathway|phosphatidylinositol-mediated signaling	integral to plasma membrane|nucleus	phospholipid binding|platelet activating factor receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00715)|all_lung(284;0.00732)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.215)|OV - Ovarian serous cystadenocarcinoma(117;6e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|STAD - Stomach adenocarcinoma(196;0.00678)|READ - Rectum adenocarcinoma(331;0.0649)		GAGCATTTCCGGCTACTGCGC	0.517													33	55					0	0	1	0	0		A	28476590	A	A	28476590	3	1	66	1	0	0	0	0	1	0	0	0	12745	1115	39	1	89	1	PTAFR	1	28476590	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	735191	28476590	220774031	33	44109											
MATN1	4146	broad.mit.edu	37	chr1	31194315	31194315	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgaaggctttggtgatagcGaactggatggccaggccggt	8	8	16	9	3	0	1	0	1	0	0	0	4	0	2	3	6	2	1	3	6	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:31194315G>A	uc001brz.2	-	2	412	c.378C>T	c.(376-378)TTC>TTT	p.F126F	uc001bsb.1_RNA|MATN1_uc001bsa.1_5'Flank	NM_002379	NP_002370	P21941	MATN1_HUMAN	matrilin 1, cartilage matrix protein precursor	126	VWFA 1.				protein complex assembly	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			central_nervous_system(1)	1		Colorectal(325;0.00792)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)|Ovarian(437;0.0563)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-05)|COAD - Colon adenocarcinoma(152;0.000726)|STAD - Stomach adenocarcinoma(196;0.0183)|READ - Rectum adenocarcinoma(331;0.0649)		TGGTGATAGCGAACTGGATGG	0.627													42	83					0	0	1	0	0		A	31194315	A	A	31194315	2	1	66	1	0	0	0	0	0	0	0	1	9351	1049	37	1		1	MATN1	1	31194315	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2717725	31194315	218056306	34	44110											
LCK	3932	broad.mit.edu	37	chr1	32745586	32745586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggacaacgagtacacaGccagggagggtacgtgtgag	12	6	16	7	2	0	2	0	2	0	0	0	5	0	4	1	3	4	2	1	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:32745586G>A	uc001bux.2	+	11	1324	c.1186G>A	c.(1186-1188)GCC>ACC	p.A396T	LCK_uc001buy.2_Missense_Mutation_p.A396T|LCK_uc001buz.2_Missense_Mutation_p.A426T|LCK_uc010ohc.1_Missense_Mutation_p.A440T|LCK_uc001bva.2_Missense_Mutation_p.A403T	NM_005356	NP_005347	P06239	LCK_HUMAN	lymphocyte-specific protein tyrosine kinase	396	Protein kinase.				activation of caspase activity|cellular zinc ion homeostasis|induction of apoptosis|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of T cell receptor signaling pathway|regulation of defense response to virus by virus|release of sequestered calcium ion into cytosol|response to drug|T cell costimulation|T cell differentiation|T cell receptor signaling pathway|viral reproduction	cytosol|Golgi apparatus|membrane raft|pericentriolar material|plasma membrane	ATP binding|ATPase binding|CD4 receptor binding|CD8 receptor binding|glycoprotein binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein kinase binding|protein serine/threonine phosphatase activity|SH2 domain binding			lung(3)|central_nervous_system(2)|ovary(1)	6		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)			Dasatinib(DB01254)	CGAGTACACAGCCAGGGAGGG	0.582			T	TRB@	T-ALL								12	34					0	0	1	0	0		A	32745586	A	A	32745586	3	1	66	1	0	0	0	0	1	0	0	0	8692	971	34	2	1224	2	LCK	1	32745586	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1551271	32745586	216505035	35	44111											
SFPQ	6421	broad.mit.edu	37	chr1	35653617	35653617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaactttcctctctttggCgcctcatttgttcttccatc	4	19	5	13	1	3	0	1	0	2	0	7	0	5	0	3	1	1	2	3	1	1	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:35653617C>T	uc001bys.2	-	7	1865	c.1772G>A	c.(1771-1773)CGC>CAC	p.R591H	SFPQ_uc001byr.2_RNA	NM_005066	NP_005057	P23246	SFPQ_HUMAN	splicing factor proline/glutamine rich	591					alternative nuclear mRNA splicing, via spliceosome|DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix|paraspeckles	DNA binding|nucleotide binding|protein binding|protein binding|RNA binding		SFPQ/TFE3(6)	kidney(4)|soft_tissue(2)|ovary(1)|skin(1)	8		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.196)				CTCTCTTTGGCGCCTCATTTG	0.458			T	TFE3	papillary renal cell								57	121					0	0	1	0	0		T	35653617	T	T	35653617	3	4	66	1	0	0	0	0	1	0	0	0	14185	768	27	1	367	1	SFPQ	1	35653617	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2908031	35653617	213597004	36	44112											
CLSPN	63967	broad.mit.edu	37	chr1	36229901	36229901	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttcttttttagctgtctaAttttttccatttttctctcc	4	24	2	11	0	3	0	0	0	3	0	6	0	5	0	3	0	1	1	3	0	2	10			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:36229901A>T	uc001bzi.2	-	3	628	c.548T>A	c.(547-549)ATT>AAT	p.I183N	CLSPN_uc009vux.2_Missense_Mutation_p.I183N	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	183	Potential.				activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TAGCTGTCTAATTTTTTCCAT	0.313													6	13					0	0	1	0	0		T	36229901	T	T	36229901	3	4	66	1	0	0	0	0	1	0	0	0	3563	101	4	5	3563	5	CLSPN	1	36229901	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	576284	36229901	213020720	37	44113											
GRIK3	2899	broad.mit.edu	37	chr1	37337827	37337827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgccatagtgtggctgcagtCgaagataatgcggaattccc	10	9	12	10	3	0	1	0	0	0	1	2	3	1	2	2	2	2	2	2	2	4	3	rs143358361		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:37337827C>T	uc001caz.2	-	4	829	c.694G>A	c.(694-696)GAC>AAC	p.D232N	GRIK3_uc001cba.1_Missense_Mutation_p.D232N	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	232	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity	p.D232N(1)		ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	TGGCTGCAGTCGAAGATAATG	0.612													10	27					0	0	1	0	0		T	37337827	T	T	37337827	3	4	66	1	0	0	0	0	1	0	0	0	6791	884	31	1	2117	1	GRIK3	1	37337827	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1107926	37337827	211912794	38	44114											
MTF1	4520	broad.mit.edu	37	chr1	38281160	38281160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttgcagagtcccggcatGcacactgacactgacatgcc	9	8	9	15	1	0	3	0	2	0	1	1	3	1	3	3	1	3	3	3	1	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:38281160G>A	uc001cce.1	-	11	2051	c.1910C>T	c.(1909-1911)GCA>GTA	p.A637V		NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	637						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GTCCCGGCATGCACACTGACA	0.607													13	22					0	0	1	0	0		A	38281160	A	A	38281160	3	1	66	1	0	0	0	0	1	0	0	0	9940	1319	46	2	355	2	MTF1	1	38281160	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	943333	38281160	210969461	39	44115											
MACF1	23499	broad.mit.edu	37	chr1	39934365	39934365	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgttggtggaggatggatgGccttggatgaatttttagtg	7	14	17	3	1	0	1	0	1	0	0	0	5	0	5	1	6	0	1	1	6	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:39934365G>T	uc010oiu.1	+	61	17310	c.17179G>T	c.(17179-17181)GCC>TCC	p.A5727S	MACF1_uc010ois.1_Missense_Mutation_p.A5219S|MACF1_uc001cde.1_Missense_Mutation_p.A96S|MACF1_uc001cdf.1_Missense_Mutation_p.A102S|MACF1_uc001cdg.2_Missense_Mutation_p.A10S|MACF1_uc001cdh.2_Missense_Mutation_p.A10S	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7177	C-terminal tail (By similarity).|GAR.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AGGATGGATGGCCTTGGATGA	0.468													17	29					2.23348e-06	2.2999e-06	1	1	0		T	39934365	T	T	39934365	3	4	66	1	0	0	0	0	1	0	0	0	9162	1203	42	5	22190	5	MACF1	1	39934365	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1653205	39934365	209316256	40	44116											
SLFNL1	200172	broad.mit.edu	37	chr1	41486058	41486058	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcacctgcaccagtgcatagGccttccgcggccgcctcacc	6	7	9	19	3	2	0	2	0	0	0	3	0	3	0	7	2	2	2	7	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:41486058G>T	uc001cgm.1	-	2	495	c.275C>A	c.(274-276)GCC>GAC	p.A92D	SLFNL1_uc009vwf.1_Missense_Mutation_p.A92D|SLFNL1_uc001cgn.1_Missense_Mutation_p.A92D|SLFNL1_uc009vwg.1_Missense_Mutation_p.A92D	NM_144990	NP_659427	Q499Z3	SLNL1_HUMAN	schlafen-like 1	92							ATP binding			skin(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0393)				CAGTGCATAGGCCTTCCGCGG	0.672													22	66					8.10497e-08	8.39002e-08	1	1	0		T	41486058	T	T	41486058	3	4	66	1	0	0	0	0	1	0	0	0	14763	1203	42	5	964	5	SLFNL1	1	41486058	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1551693	41486058	207764563	41	44117											
FOXJ3	22887	broad.mit.edu	37	chr1	42645437	42645437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatctggaggcagggaacGccgcatctggaaggcttggg	8	7	17	9	2	3	0	1	0	2	0	3	3	3	3	1	6	1	3	1	6	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:42645437G>A	uc001che.2	-	15	2125	c.1813C>T	c.(1813-1815)CGT>TGT	p.R605C	FOXJ3_uc001chf.2_Missense_Mutation_p.R605C|FOXJ3_uc001chg.2_Missense_Mutation_p.R605C	NM_014947	NP_055762	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	605					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)	2	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GGCAGGGAACGCCGCATCTGG	0.507													25	78					0	0	1	0	0		A	42645437	A	A	42645437	3	1	66	1	0	0	0	0	1	0	0	0	6027	1087	38	1	59	1	FOXJ3	1	42645437	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1159379	42645437	206605184	42	44118											
CCDC30	728621	broad.mit.edu	37	chr1	43108274	43108274	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggacgatatcttccatccAgagcaggtaggtgccatcct	10	10	10	11	1	1	1	0	0	1	1	4	3	4	2	4	3	2	2	4	3	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:43108274A>C	uc009vwk.1	+	12	1879	c.1769A>C	c.(1768-1770)CAG>CCG	p.Q590P	CCDC30_uc001chm.2_Missense_Mutation_p.Q288P|CCDC30_uc001chn.2_Missense_Mutation_p.Q379P	NM_001080850	NP_001074319	Q5VVM6	CCD30_HUMAN	coiled-coil domain containing 30	590	Potential.										0						TCTTCCATCCAGAGCAGGTAG	0.448													43	87					0	0	1	0	0		C	43108274	C	C	43108274	3	2	66	1	0	0	0	0	1	0	0	0	2808	188	7	5	1811	5	CCDC30	1	43108274	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	462837	43108274	206142347	43	44119											
SLC2A1	6513	broad.mit.edu	37	chr1	43392779	43392779	+	Frame_Shift_Del	DEL	C	-	-																															tcttgtcactttggctggctCccccctgccggaagccggaa																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:43392779delC	uc001cik.2	-	10	1937	c.1412delG	c.(1411-1413)GGAfs	p.G471fs		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	471	Cytoplasmic (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	TTGGCTGGCTCCCCCCTGCCG	0.587													23	48	---	---	---	---						.	-	43392779	-	-	43392779	7	5	66	1	0	1	0	1	0	0	0	0	14563	855	30	0	70	0	SLC2A1	1	43392779	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	284505	43392779	205857842	44	44120											
RNF220	55182	broad.mit.edu	37	chr1	45115379	45115379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtttgaggctctgaaggctCgggtcagagaacttgaacgg	9	9	15	8	3	2	4	1	3	1	1	3	5	2	4	0	4	2	3	0	4	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:45115379C>T	uc001clv.1	+	13	1852	c.1492C>T	c.(1492-1494)CGG>TGG	p.R498W	RNF220_uc001clw.1_Missense_Mutation_p.R498W|RNF220_uc010oky.1_Missense_Mutation_p.R285W|RNF220_uc010okz.1_Missense_Mutation_p.R240W|RNF220_uc001clx.1_Missense_Mutation_p.R214W|RNF220_uc001cly.1_Missense_Mutation_p.R178W|RNF220_uc001clz.1_Missense_Mutation_p.R177W|RNF220_uc001cma.1_Missense_Mutation_p.R177W|TMEM53_uc001cmb.1_Intron	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	498	Potential.				protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TCTGAAGGCTCGGGTCAGAGA	0.463													26	58					0	0	1	0	0		T	45115379	T	T	45115379	3	4	66	1	0	0	0	0	1	0	0	0	13508	875	31	1	1538	1	RNF220	1	45115379	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1722600	45115379	204135242	45	44121											
EIF2B3	8891	broad.mit.edu	37	chr1	45407191	45407191	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccttacctgctttttttttCcccttttgaccgggaacagg	5	17	7	12	1	0	1	0	1	0	0	2	2	2	2	5	2	3	1	5	2	2	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:45407191C>T	uc001cmt.1	-	4	568	c.441G>A	c.(439-441)GGG>GGA	p.G147G	EIF2B3_uc001cmu.1_Silent_p.G147G|EIF2B3_uc001cmv.1_Silent_p.G147G|EIF2B3_uc001cmw.2_Silent_p.G147G	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,	147					negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CTTTTTTTTTCCCCTTTTGAC	0.338													43	78					0	0	1	0	0		T	45407191	T	T	45407191	2	4	66	1	0	0	0	0	0	0	0	1	5008	842	30	4		4	EIF2B3	1	45407191	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	291812	45407191	203843430	46	44122											
LRRC41	10489	broad.mit.edu	37	chr1	46751470	46751470	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaaggtgaccgcttggtGccaggagcctcatgggaggt	8	7	17	9	1	1	2	1	1	0	1	1	4	1	4	3	5	2	2	3	5	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:46751470G>A	uc001cpn.2	-	4	1103	c.1059C>T	c.(1057-1059)GGC>GGT	p.G353G	LRRC41_uc010omb.1_Silent_p.G353G|LRRC41_uc001cpo.1_Silent_p.G353G	NM_006369	NP_006360	Q15345	LRC41_HUMAN	MUF1 protein	353										ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(166;0.155)					ACCGCTTGGTGCCAGGAGCCT	0.617													22	33					0	0	1	0	0		A	46751470	A	A	46751470	2	1	66	1	0	0	0	0	0	0	0	1	9017	1306	46	2		2	LRRC41	1	46751470	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1344279	46751470	202499151	47	44123											
MOBKL2C	148932	broad.mit.edu	37	chr1	47078721	47078721	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactcgtagcggggcccgccGgccatgaccgggcagctggt	5	6	16	14	5	0	1	0	1	0	0	1	1	0	1	4	5	3	3	4	5	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:47078721G>A	uc001cqf.3	-	2	504	c.273C>T	c.(271-273)GCC>GCT	p.A91A	MKNK1_uc010omf.1_Intron|MOBKL2C_uc001cqe.3_Silent_p.A143A	NM_201403	NP_958805	Q70IA8	MOL2C_HUMAN	MOB1, Mps One Binder kinase activator-like 2C	91							metal ion binding			pancreas(1)	1	Acute lymphoblastic leukemia(166;0.155)					GGGGCCCGCCGGCCATGACCG	0.652													9	22					0	0	1	0	0		A	47078721	A	A	47078721	2	1	66	1	0	0	0	0	0	0	0	1	9704	1103	39	1		1	MOBKL2C	1	47078721	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	327251	47078721	202171900	48	44124											
CYP4A11	1579	broad.mit.edu	37	chr1	47407043	47407043	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagaatgagcagggaggcCgcttggaggattccagagac	12	5	16	8	1	0	3	0	1	0	2	1	7	1	6	2	4	2	3	2	4	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:47407043C>T	uc001cqp.3	-	1	114	c.63G>A	c.(61-63)GCG>GCA	p.A21A	CYP4A11_uc001cqq.2_Silent_p.A21A|CYP4A11_uc010omm.1_RNA	NM_000778	NP_000769	Q02928	CP4AB_HUMAN	cytochrome P450, family 4, subfamily A,	21					long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|oxygen binding			ovary(2)|skin(2)	4					NADH(DB00157)	GCAGGGAGGCCGCTTGGAGGA	0.597													26	72					0	0	1	0	0		T	47407043	T	T	47407043	2	4	66	1	0	0	0	0	0	0	0	1	4186	639	23	1		1	CYP4A11	1	47407043	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	328322	47407043	201843578	49	44125											
OSBPL9	114883	broad.mit.edu	37	chr1	52253026	52253026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttacctctttgttttagcCtttggaaggatgtcactttc	6	19	7	9	0	3	0	1	0	2	0	4	2	3	2	2	2	2	1	2	2	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:52253026C>T	uc001cst.2	+	23	2021	c.2002C>T	c.(2002-2004)CTT>TTT	p.L668F	OSBPL9_uc001css.2_Missense_Mutation_p.L673F|OSBPL9_uc001csx.2_RNA|OSBPL9_uc009vza.2_Missense_Mutation_p.L669F|OSBPL9_uc001csu.2_Missense_Mutation_p.L678F|OSBPL9_uc001csv.2_Missense_Mutation_p.L503F|OSBPL9_uc001csw.2_Missense_Mutation_p.L655F|OSBPL9_uc001csy.2_Missense_Mutation_p.L490F|OSBPL9_uc001csz.2_Missense_Mutation_p.L490F|OSBPL9_uc001cta.2_Missense_Mutation_p.L558F|OSBPL9_uc001ctb.2_Missense_Mutation_p.L453F	NM_024586	NP_078862	Q96SU4	OSBL9_HUMAN	oxysterol binding protein-like 9 isoform e	668					lipid transport		lipid binding			central_nervous_system(1)	1						TTGTTTTAGCCTTTGGAAGGA	0.413													35	58					0	0	1	0	0		T	52253026	T	T	52253026	3	4	66	1	0	0	0	0	1	0	0	0	11303	695	24	4	2196	4	OSBPL9	1	52253026	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4845983	52253026	196997595	50	44126											
NRD1	4898	broad.mit.edu	37	chr1	52272466	52272466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggagggcaacattttacCtttggggattttgaatttgt	10	15	11	5	0	0	1	0	1	0	0	0	3	0	3	1	4	2	1	1	4	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:52272466C>T	uc001ctc.3	-	20	2636	c.2314G>A	c.(2314-2316)GCA>ACA	p.A772T	NRD1_uc009vzb.2_Missense_Mutation_p.A467T|NRD1_uc001ctd.3_Missense_Mutation_p.A704T|NRD1_uc001cte.2_Missense_Mutation_p.A640T|NRD1_uc001ctf.2_Missense_Mutation_p.A704T|NRD1_uc010ong.1_RNA	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	703					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						AACATTTTACCTTTGGGGATT	0.234													9	89					0	0	1	0	0		T	52272466	T	T	52272466	3	4	66	1	0	0	0	0	1	0	0	0	10664	695	24	4	1401	4	NRD1	1	52272466	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	19440	52272466	196978155	51	44127											
DIO1	1733	broad.mit.edu	37	chr1	54360030	54360030	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccatgggcgagaagacgggTatgaccaggaacccccattt	11	6	13	11	2	0	3	0	1	0	2	0	5	0	4	4	3	1	1	4	3	3	2	rs147857941		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:54360030T>C	uc010onx.1	+	1	170	c.147T>C	c.(145-147)GGT>GGC	p.G49G	DIO1_uc010onw.1_Splice_Site_p.G49_splice|DIO1_uc009vzl.2_Silent_p.G49G|DIO1_uc001cwb.2_Silent_p.G49G|DIO1_uc010ony.1_Silent_p.G49G|DIO1_uc001cwd.2_Splice_Site|DIO1_uc001cwe.2_Splice_Site|DIO1_uc001cwf.2_RNA|DIO1_uc001cwg.2_RNA	NM_000792	NP_000783	P49895	IOD1_HUMAN	deiodinase, iodothyronine, type I isoform a	49					hormone biosynthetic process|thyroid hormone generation	endoplasmic reticulum membrane|integral to membrane|plasma membrane	selenium binding|thyroxine 5'-deiodinase activity				0						AGAAGACGGGTATGACCAGGA	0.522													26	78					0	0	1	0	0		C	54360030	C	C	54360030	2	2	66	1	0	0	0	0	0	0	0	1	4530	1652	57	3		3	DIO1	1	54360030	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2087564	54360030	194890591	52	44128											
C1orf87	127795	broad.mit.edu	37	chr1	60456436	60456436	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtcgattttctgagggCtcagggacaggttgtaaatg	8	12	14	7	1	2	1	1	1	1	0	3	3	2	2	1	4	0	3	1	4	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:60456436C>A	uc001czs.1	-	12	1642	c.1550G>T	c.(1549-1551)AGC>ATC	p.S517I	C1orf87_uc001czr.1_Missense_Mutation_p.S109I	NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	517							calcium ion binding			ovary(1)|breast(1)	2						TTTCTGAGGGCTCAGGGACAG	0.493													81	170					1.92282e-43	2.09611e-43	1	1	0		A	60456436	A	A	60456436	3	1	66	1	0	0	0	0	1	0	0	0	2067	797	28	5	94	5	C1orf87	1	60456436	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	6096406	60456436	188794185	53	44129											
LEPROT	54741	broad.mit.edu	37	chr1	65895579	65895579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcgtcctgattttccacGccatctcccccatcccccat	6	13	3	19	2	1	1	0	1	1	0	6	1	4	1	7	0	0	0	7	0	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:65895579G>A	uc001dcf.2	+	3	216	c.127G>A	c.(127-129)GCC>ACC	p.A43T	LEPR_uc001dcg.2_Intron|LEPR_uc001dch.2_Intron|LEPR_uc001dci.2_Intron|LEPR_uc009waq.2_Intron|LEPROT_uc009wap.2_Missense_Mutation_p.A52T	NM_017526	NP_059996	O15243	OBRG_HUMAN	leptin receptor gene-related protein	43	Helical; (Potential).					endosome membrane|Golgi membrane|integral to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		GATTTTCCACGCCATCTCCCC	0.443													69	133					0	0	1	0	0		A	65895579	A	A	65895579	3	1	66	1	0	0	0	0	1	0	0	0	8748	1087	38	1	137	1	LEPROT	1	65895579	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5439143	65895579	183355042	54	44130											
C1orf141	400757	broad.mit.edu	37	chr1	67561960	67561960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttctatcaccttctaagaGaccaacagaatccaatggtt	14	12	5	10	0	3	2	1	0	2	2	4	3	4	2	3	1	1	1	3	1	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:67561960G>A	uc001ddl.1	-	5	502	c.391C>T	c.(391-393)CTC>TTC	p.L131F	C1orf141_uc001ddm.1_Missense_Mutation_p.L131F|C1orf141_uc001ddn.1_RNA	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	131										ovary(1)	1						CCTTCTAAGAGACCAACAGAA	0.264													4	26					0	0	1	0	0		A	67561960	A	A	67561960	3	1	66	1	0	0	0	0	1	0	0	0	2004	942	33	4	823	4	C1orf141	1	67561960	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1666381	67561960	181688661	55	44131											
C1orf173	127254	broad.mit.edu	37	chr1	75072545	75072545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttttctttcctagatttcGgcaaagacggttttttgtca	7	19	7	8	2	3	2	1	0	2	2	5	2	4	2	1	2	0	2	1	2	2	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:75072545G>A	uc001dgg.2	-	10	1448	c.1229C>T	c.(1228-1230)CCG>CTG	p.P410L	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.P204L	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	410										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CCTAGATTTCGGCAAAGACGG	0.408													41	154					0	0	1	0	0		A	75072545	A	A	75072545	3	1	66	1	0	0	0	0	1	0	0	0	2017	1116	39	1	3383	1	C1orf173	1	75072545	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	7510585	75072545	174178076	56	44132											
ASB17	127247	broad.mit.edu	37	chr1	76397757	76397757	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtatcctgatttttccaCaaatgcaatgtaatctgtga	12	14	7	8	1	1	2	0	2	1	0	3	2	3	2	2	1	1	3	2	1	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:76397757C>T	uc001dhe.1	-	1	360	c.220G>A	c.(220-222)GTG>ATG	p.V74M	ASB17_uc001dhf.1_RNA	NM_080868	NP_543144	Q8WXJ9	ASB17_HUMAN	ankyrin repeat and SOCS box-containing 17	74					intracellular signal transduction					ovary(1)	1						GATTTTTCCACAAATGCAATG	0.378													21	61					0	0	1	0	0		T	76397757	T	T	76397757	3	4	66	1	0	0	0	0	1	0	0	0	1022	478	17	4	679	4	ASB17	1	76397757	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1325212	76397757	172852864	57	44133											
CLCA4	22802	broad.mit.edu	37	chr1	87036905	87036905	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttgggaagagctgctgAtgaagcagtaatagagatga	13	10	14	4	0	0	5	0	3	0	2	0	7	0	6	0	1	4	5	0	1	4	3	rs2839932		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:87036905A>C	uc009wcs.2	+	8	1372	c.1328A>C	c.(1327-1329)GAT>GCT	p.D443A	CLCA4_uc009wct.2_Missense_Mutation_p.D206A|CLCA4_uc009wcu.2_Missense_Mutation_p.D263A	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	443	VWFA.					apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		AGAGCTGCTGATGAAGCAGTA	0.393													43	72					0	0	1	0	0		C	87036905	C	C	87036905	3	2	66	1	0	0	0	0	1	0	0	0	3462	333	12	5	1358	5	CLCA4	1	87036905	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	10639148	87036905	162213716	58	44134											
GTF2B	2959	broad.mit.edu	37	chr1	89323037	89323037	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgtacttgtttaggaagAcaaaggttggaacagaacct	14	11	10	6	0	1	2	0	0	1	2	1	4	1	4	1	3	3	3	1	3	6	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:89323037A>G	uc001dmo.3	-	6	788	c.669T>C	c.(667-669)TGT>TGC	p.C223C		NM_001514	NP_001505	Q00403	TF2B_HUMAN	general transcription factor IIB	223	2.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	thyroid hormone receptor binding|translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0131)|Epithelial(280;0.0255)		GTTTAGGAAGACAAAGGTTGG	0.468													19	41					0	0	1	0	0		G	89323037	G	G	89323037	2	3	66	1	0	0	0	0	0	0	0	1	6871	273	10	3		3	GTF2B	1	89323037	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2286132	89323037	159927584	59	44135											
TGFBR3	7049	broad.mit.edu	37	chr1	92185008	92185008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagggtgacgtccatccccGagtagccactggcctaaaac	11	6	10	14	2	0	1	0	1	0	0	2	2	2	1	5	2	2	1	5	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:92185008G>A	uc001doh.2	-	10	1893	c.1427C>T	c.(1426-1428)TCG>TTG	p.S476L	TGFBR3_uc009wde.2_Missense_Mutation_p.S253L|TGFBR3_uc010osy.1_Missense_Mutation_p.S434L|TGFBR3_uc001doi.2_Missense_Mutation_p.S475L|TGFBR3_uc001doj.2_Missense_Mutation_p.S475L	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	476	ZP.|Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		GTCCATCCCCGAGTAGCCACT	0.512													21	48					0	0	1	0	0		A	92185008	A	A	92185008	3	1	66	1	0	0	0	0	1	0	0	0	15848	1059	37	1	1160	1	TGFBR3	1	92185008	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2861971	92185008	157065613	60	44136											
SNX7	51375	broad.mit.edu	37	chr1	99156668	99156668	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactccagtgaatttgaagTtaggagacgatatcaagatt	14	12	10	5	1	1	5	1	3	0	2	2	7	2	5	1	1	0	1	1	1	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:99156668T>A	uc010ouc.1	+	3	453	c.401T>A	c.(400-402)GTT>GAT	p.V134D	SNX7_uc001dsa.2_Missense_Mutation_p.V70D|SNX7_uc010oud.1_Missense_Mutation_p.V134D	NM_015976	NP_057060	Q9UNH6	SNX7_HUMAN	sorting nexin 7 isoform a	70	PX.				cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		all_epithelial(167;7.64e-07)|all_lung(203;0.0006)|Lung NSC(277;0.00137)		Epithelial(280;0.0521)|all cancers(265;0.0687)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.207)|Colorectal(170;0.234)		GAATTTGAAGTTAGGAGACGA	0.363													14	31					0	0	1	0	0		A	99156668	A	A	99156668	3	1	66	1	0	0	0	0	1	0	0	0	14932	1725	60	5	411	5	SNX7	1	99156668	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	6971660	99156668	150093953	61	44137											
VCAM1	7412	broad.mit.edu	37	chr1	101194858	101194858	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccctgagccctgtgagttTtgagaacgaacactcttatc	10	11	9	11	1	1	3	0	3	1	1	2	6	1	3	2	0	3	1	2	0	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:101194858T>G	uc001dti.2	+	5	1244	c.1124T>G	c.(1123-1125)TTT>TGT	p.F375C	VCAM1_uc001dtj.2_Intron|VCAM1_uc010ouj.1_Missense_Mutation_p.F313C	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	375	Ig-like C2-type 4.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	CCTGTGAGTTTTGAGAACGAA	0.502													28	107					0	0	1	0	0		G	101194858	G	G	101194858	3	3	66	1	0	0	0	0	1	0	0	0	17163	1841	64	5	1142	5	VCAM1	1	101194858	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2038190	101194858	148055763	62	44138											
COL11A1	1301	broad.mit.edu	37	chr1	103352527	103352527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcaagaatattatcatctGcatctgcttgcatgccttca	12	14	5	10	0	5	1	3	0	2	1	5	1	5	1	1	0	4	3	1	0	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:103352527G>A	uc001dul.2	-	63	5012	c.4694C>T	c.(4693-4695)GCA>GTA	p.A1565V	COL11A1_uc001duk.2_Missense_Mutation_p.A761V|COL11A1_uc001dum.2_Missense_Mutation_p.A1577V|COL11A1_uc001dun.2_Missense_Mutation_p.A1526V|COL11A1_uc009weh.2_Missense_Mutation_p.A1449V	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1565					collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		ATTATCATCTGCATCTGCTTG	0.393													41	76					0	0	1	0	0		A	103352527	A	A	103352527	3	1	66	1	0	0	0	0	1	0	0	0	3670	1319	46	2	746	2	COL11A1	1	103352527	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2157669	103352527	145898094	63	44139											
NTNG1	22854	broad.mit.edu	37	chr1	107950324	107950325	+	Frame_Shift_Ins	INS	-	T	T																															tatccccagtatttccagtaINSttggtagtaagtaaaaacaa																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:107950324_107950325insT	uc001dvh.3	+	5	1799_1800	c.1081_1082insT	c.(1081-1083)ATTfs	p.I361fs	NTNG1_uc001dvf.3_Frame_Shift_Ins_p.I361fs|NTNG1_uc010out.1_Frame_Shift_Ins_p.I361fs|NTNG1_uc001dvc.3_Frame_Shift_Ins_p.I361fs|NTNG1_uc001dvi.2_5'UTR|NTNG1_uc001dve.2_RNA|NTNG1_uc009wek.2_RNA|NTNG1_uc001dvg.2_RNA|NTNG1_uc009wem.2_Intron|NTNG1_uc001dvd.1_Frame_Shift_Ins_p.I361fs	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	361					axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		TATTTCCAGTATTGGTAGTAAG	0.317													30	59	---	---	---	---						.	T	107950325	T	T	107950324	7	5	66	1	0	1	1	0	0	0	0	0	10723	449	16	0	1095	0	NTNG1	1	107950324	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	4597797	107950324	141300297	64	44140											
PRPF38B	55119	broad.mit.edu	37	chr1	109238368	109238368	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaggaagcaggaaaacagcGggccagacagggatgtgcgg	15	2	17	7	2	0	1	0	0	0	1	0	4	0	4	1	5	4	1	1	5	4	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:109238368G>A	uc001dvv.3	+	2	603	c.321G>A	c.(319-321)GCG>GCA	p.A107A	PRPF38B_uc001dvw.3_5'UTR|PRPF38B_uc010ouz.1_5'UTR	NM_018061	NP_060531	Q5VTL8	PR38B_HUMAN	PRP38 pre-mRNA processing factor 38 (yeast)	107					mRNA processing|RNA splicing	spliceosomal complex					0		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0149)|Lung(183;0.0888)|COAD - Colon adenocarcinoma(174;0.113)|Epithelial(280;0.161)		GGAAAACAGCGGGCCAGACAG	0.403													10	23					0	0	1	0	0		A	109238368	A	A	109238368	2	1	66	1	0	0	0	0	0	0	0	1	12590	1103	39	1		1	PRPF38B	1	109238368	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1288044	109238368	140012253	65	44141											
CELSR2	1952	broad.mit.edu	37	chr1	109805496	109805496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccgagagcttcccagtccGaatgcggcagttcgtgggct	6	8	14	13	4	0	1	0	0	0	1	3	3	2	1	3	2	2	4	3	2	1	2	rs148197539		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:109805496G>A	uc001dxa.3	+	7	4674	c.4613G>A	c.(4612-4614)CGA>CAA	p.R1538Q		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	1538	Extracellular (Potential).|Laminin G-like 1.				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		TTCCCAGTCCGAATGCGGCAG	0.627													25	45					0	0	1	0	0		A	109805496	A	A	109805496	3	1	66	1	0	0	0	0	1	0	0	0	3225	1058	37	1	4639	1	CELSR2	1	109805496	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	567128	109805496	139445125	66	44142											
FAM40A	85369	broad.mit.edu	37	chr1	110587676	110587676	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcccaggccaatccaCgaaagcatcaagactctgaa	13	5	10	13	1	2	2	1	1	1	1	3	3	3	2	3	2	2	2	3	2	4	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:110587676C>T	uc001dza.1	+	12	1411	c.1392C>T	c.(1390-1392)CAC>CAT	p.H464H	FAM40A_uc001dyz.1_Silent_p.H369H|FAM40A_uc009wfp.1_Silent_p.H288H	NM_033088	NP_149079	Q5VSL9	FA40A_HUMAN	hypothetical protein LOC85369	464						nucleus	protein binding			ovary(3)|large_intestine(1)	4		all_cancers(81;8.51e-05)|all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0154)|all cancers(265;0.0732)|Epithelial(280;0.0781)|Colorectal(144;0.115)|LUSC - Lung squamous cell carcinoma(189;0.137)		GGCCAATCCACGAAAGCATCA	0.517													16	23					0	0	1	0	0		T	110587676	T	T	110587676	2	4	66	1	0	0	0	0	0	0	0	1	5574	535	19	1		1	FAM40A	1	110587676	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	782180	110587676	138662945	67	44143											
KCNA3	3738	broad.mit.edu	37	chr1	111216807	111216807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcgcggcggggcaagggccGctcctcctcccgcaggaagc	5	4	16	16	5	0	0	0	0	0	0	4	1	3	1	4	5	1	3	4	5	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:111216807G>A	uc001dzv.1	-	1	849	c.625C>T	c.(625-627)CGG>TGG	p.R209W		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	209						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGCAAGGGCCGCTCCTCCTCC	0.682													4	51					0	0	1	0	0		A	111216807	A	A	111216807	3	1	66	1	0	0	0	0	1	0	0	0	8020	1086	38	1	1106	1	KCNA3	1	111216807	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	629131	111216807	138033814	68	44144											
KCNA3	3738	broad.mit.edu	37	chr1	111217049	111217049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggggtcgcccagcagcGtctcggggaactggcaaagg	7	6	17	11	3	1	0	0	0	1	0	3	1	1	1	1	6	3	3	1	6	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:111217049G>A	uc001dzv.1	-	1	607	c.383C>T	c.(382-384)ACG>ATG	p.T128M		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	128						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCCCAGCAGCGTCTCGGGGAA	0.662													30	53					0	0	1	0	0		A	111217049	A	A	111217049	3	1	66	1	0	0	0	0	1	0	0	0	8020	1145	40	1	1348	1	KCNA3	1	111217049	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	242	111217049	138033572	69	44145											
DRAM2	128338	broad.mit.edu	37	chr1	111663273	111663273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatgagcccataccaaaggTaagcacagctccacttacat	15	8	6	12	0	0	1	0	1	0	0	1	1	1	1	3	1	5	3	3	1	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:111663273T>C	uc001ead.3	-	6	639	c.382A>G	c.(382-384)ACC>GCC	p.T128A	DRAM2_uc001eae.3_Missense_Mutation_p.T128A|DRAM2_uc009wfy.2_RNA|DRAM2_uc001eaf.3_5'UTR	NM_178454	NP_848549	Q6UX65	DRAM2_HUMAN	transmembrane protein 77	128	Helical; (Potential).				apoptosis|induction of apoptosis	Golgi apparatus|integral to membrane|lysosomal membrane					0						ATACCAAAGGTAAGCACAGCT	0.403													16	49					0	0	1	0	0		C	111663273	C	C	111663273	3	2	66	1	0	0	0	0	1	0	0	0	4760	1638	57	3	434	3	DRAM2	1	111663273	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	446224	111663273	137587348	70	44146											
HIPK1	204851	broad.mit.edu	37	chr1	114483980	114483980	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaacatcatgctggttgaTccagttcgccagccctaccg	10	9	9	13	2	1	1	1	1	0	0	3	2	2	1	4	1	4	3	4	1	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:114483980T>C	uc001eem.2	+	2	1136	c.975T>C	c.(973-975)GAT>GAC	p.D325D	HIPK1_uc001eel.2_Silent_p.D325D|HIPK1_uc001een.2_Silent_p.D325D	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	325	Protein kinase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGCTGGTTGATCCAGTTCGCC	0.493													48	72					0	0	1	0	0		C	114483980	C	C	114483980	2	2	66	1	0	0	0	0	0	0	0	1	7132	1432	50	3		3	HIPK1	1	114483980	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2820707	114483980	134766641	71	44147											
PTGFRN	5738	broad.mit.edu	37	chr1	117492145	117492145	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaacaggagctggcacaaAgtggcagaggccgtgtcttc	11	6	13	11	1	1	1	0	0	1	1	2	2	1	2	1	4	2	3	1	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:117492145A>C	uc001egv.1	+	4	1301	c.1164A>C	c.(1162-1164)AAA>AAC	p.K388N		NM_020440	NP_065173	Q9P2B2	FPRP_HUMAN	prostaglandin F2 receptor negative regulator	388	Ig-like C2-type 3.|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	protein binding			liver(1)	1	Lung SC(450;0.225)	all_cancers(81;0.00104)|all_lung(203;8.97e-05)|all_epithelial(167;0.000139)|Lung NSC(69;0.000446)		Lung(183;0.0704)|LUSC - Lung squamous cell carcinoma(189;0.227)|Colorectal(144;0.248)		GCTGGCACAAAGTGGCAGAGG	0.542													22	49					0	0	1	0	0		C	117492145	C	C	117492145	3	2	66	1	0	0	0	0	1	0	0	0	12773	69	3	5	1178	5	PTGFRN	1	117492145	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3008165	117492145	131758476	72	44148											
PDE4DIP	9659	broad.mit.edu	37	chr1	144903085	144903085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagttccccacctccaatgGcggccagggtctccagcctg	6	7	10	18	1	1	0	0	0	1	0	4	0	3	0	8	3	1	1	8	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:144903085G>A	uc001elw.3	-	21	3098	c.2807C>T	c.(2806-2808)GCC>GTC	p.A936V	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.A1002V|PDE4DIP_uc001emc.1_Missense_Mutation_p.A936V|PDE4DIP_uc001emd.1_Missense_Mutation_p.A936V|PDE4DIP_uc001emb.1_Missense_Mutation_p.A1099V|PDE4DIP_uc001eme.1_Intron|PDE4DIP_uc001emf.1_Missense_Mutation_p.A721V	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	936	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		ACCTCCAATGGCGGCCAGGGT	0.552			T	PDGFRB	MPD								22	104					0	0	1	0	0		A	144903085	A	A	144903085	3	1	66	1	0	0	0	0	1	0	0	0	11662	1203	42	2	4339	2	PDE4DIP	1	144903085	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	27410940	144903085	104347536	73	44149											
PDE4DIP	9659	broad.mit.edu	37	chr1	145015939	145015939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaatatgtctgcacaaacGggaccttttcaccacttctc	11	11	7	12	1	3	0	1	0	2	0	4	2	3	2	2	2	2	1	2	2	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:145015939G>A	uc001elx.3	-	3	484	c.149C>T	c.(148-150)CCG>CTG	p.P50L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elm.3_5'UTR|PDE4DIP_uc001eln.3_Missense_Mutation_p.P50L|PDE4DIP_uc001elo.2_Missense_Mutation_p.P121L|PDE4DIP_uc001emh.2_Missense_Mutation_p.P121L|uc001emj.2_Intron	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	Error:Variant_position_missing_in_Q5VU43_after_alignment					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CTGCACAAACGGGACCTTTTC	0.443			T	PDGFRB	MPD								38	468					0	0	1	0	0		A	145015939	A	A	145015939	3	1	66	1	0	0	0	0	1	0	0	0	11662	1116	39	1	8442	1	PDE4DIP	1	145015939	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	112854	145015939	104234682	74	44150											
ECM1	1893	broad.mit.edu	37	chr1	150484010	150484010	+	Frame_Shift_Del	DEL	G	-	-																															cactggtgctgcacgcggcaGggggaggctcggttctcctg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:150484010delG	uc001eus.2	+	7	985	c.786delG	c.(784-786)CAGfs	p.Q262fs	ECM1_uc010pce.1_3'UTR|ECM1_uc010pcf.1_3'UTR|ECM1_uc001eut.2_Intron|ECM1_uc001euu.2_Frame_Shift_Del_p.Q291fs|ECM1_uc001euv.2_Frame_Shift_Del_p.Q289fs|ECM1_uc009wlu.2_Frame_Shift_Del_p.Q22fs	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	262	2 X approximate repeats.|1.				angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			GCACGCGGCAGGGGGAGGCTC	0.627													21	45	---	---	---	---						.	-	150484010	-	-	150484010	7	5	66	1	0	1	0	1	0	0	0	0	4903	991	35	0	812	0	ECM1	1	150484010	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	5468071	150484010	98766611	75	44151											
HORMAD1	84072	broad.mit.edu	37	chr1	150676776	150676776	+	Frame_Shift_Del	DEL	T	-	-																															caagttcagaagatgcagggTttttttcctgttcttccatt																								rs45439605		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:150676776delT	uc001evk.1	-	11	954	c.848delA	c.(847-849)AACfs	p.N283fs	HORMAD1_uc001evl.1_Frame_Shift_Del_p.N276fs|HORMAD1_uc001evm.1_Frame_Shift_Del_p.N203fs	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	283					blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			AGATGCAGGGTTTTTTTCCTG	0.289													11	13	---	---	---	---						.	-	150676776	-	-	150676776	7	5	66	1	0	1	0	1	0	0	0	0	7302	1725	60	0	356	0	HORMAD1	1	150676776	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	192766	150676776	98573845	76	44152											
PSMD4	5710	broad.mit.edu	37	chr1	151239749	151239749	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatgaagccattcgaaatgCtatgggctccctggcctccc	9	9	9	14	1	0	1	0	1	0	0	3	2	2	1	4	2	2	2	4	2	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:151239749C>A	uc001exl.2	+	10	1126	c.1064C>A	c.(1063-1065)GCT>GAT	p.A355D	PSMD4_uc001exn.2_Missense_Mutation_p.A358D	NM_002810	NP_002801	P55036	PSMD4_HUMAN	proteasome 26S non-ATPase subunit 4	355					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding|zinc ion binding				0	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			ATTCGAAATGCTATGGGCTCC	0.547													35	59					1.26612e-14	1.3494e-14	1	1	0		A	151239749	A	A	151239749	3	1	66	1	0	0	0	0	1	0	0	0	12722	797	28	5	1102	5	PSMD4	1	151239749	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	562973	151239749	98010872	77	44153											
POGZ	23126	broad.mit.edu	37	chr1	151377819	151377819	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgacaagtgagtgcgaTgacagtccatcacaagcatg	12	9	10	10	1	2	3	1	3	1	0	3	4	3	3	1	0	2	1	1	0	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:151377819T>C	uc001eyd.1	-	19	3998	c.3692A>G	c.(3691-3693)CAT>CGT	p.H1231R	POGZ_uc001eye.1_Missense_Mutation_p.H1178R|POGZ_uc010pdb.1_Missense_Mutation_p.H1222R|POGZ_uc001eyf.1_Missense_Mutation_p.H1187R|POGZ_uc010pdc.1_Missense_Mutation_p.H1169R|POGZ_uc009wmv.1_Missense_Mutation_p.H1136R|POGZ_uc010pdd.1_Missense_Mutation_p.H722R	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1231	DDE.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GTGAGTGCGATGACAGTCCAT	0.527													31	46					0	0	1	0	0		C	151377819	C	C	151377819	3	2	66	1	0	0	0	0	1	0	0	0	12205	1464	51	3	544	3	POGZ	1	151377819	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	138070	151377819	97872802	78	44154											
HRNR	388697	broad.mit.edu	37	chr1	152188393	152188393	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacccctagatgactgtccTgacctagagccgtgttgttc	7	12	9	13	1	1	4	1	2	0	2	3	4	2	4	5	0	1	2	5	0	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:152188393T>C	uc001ezt.1	-	3	5788	c.5712A>G	c.(5710-5712)TCA>TCG	p.S1904S		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1904	21.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATGACTGTCCTGACCTAGAGC	0.552													57	704					0	0	1	0	0		C	152188393	C	C	152188393	2	2	66	1	0	0	0	0	0	0	0	1	7375	1567	55	3		3	HRNR	1	152188393	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	810574	152188393	97062228	79	44155											
FLG	2312	broad.mit.edu	37	chr1	152281389	152281389	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcctgttcatgggatgaCgcagcctgtccacgagagga	8	9	13	11	2	1	2	1	1	0	1	2	5	2	4	3	2	2	2	3	2	0	2	rs138652718	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:152281389C>T	uc001ezu.1	-	3	6009	c.5973G>A	c.(5971-5973)GCG>GCA	p.A1991A		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1991	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CATGGGATGACGCAGCCTGTC	0.572									Ichthyosis				37	567					0	0	1	0	0		T	152281389	T	T	152281389	2	4	66	1	0	0	0	0	0	0	0	1	5936	523	19	1		1	FLG	1	152281389	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	92996	152281389	96969232	80	44156											
LCE2A	353139	broad.mit.edu	37	chr1	152671618	152671618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtctcttccaccggcacCggcaccagagccccgattgt	6	7	9	19	4	1	1	0	0	1	1	3	2	2	1	7	2	1	2	7	2	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:152671618C>T	uc001faj.2	+	2	292	c.241C>T	c.(241-243)CGG>TGG	p.R81W		NM_178428	NP_848515	Q5TA79	LCE2A_HUMAN	late cornified envelope 2A	81	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCACCGGCACCGGCACCAGAG	0.672													22	41					0	0	1	0	0		T	152671618	T	T	152671618	3	4	66	1	0	0	0	0	1	0	0	0	8681	643	23	1	243	1	LCE2A	1	152671618	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	390229	152671618	96579003	81	44157											
LCE1F	353137	broad.mit.edu	37	chr1	152749084	152749084	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcggctgttgcctgagccaCcacagacggcgtaggtccca	7	6	14	14	3	0	2	0	1	0	1	1	2	1	2	4	4	2	3	4	4	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:152749084C>T	uc010pdv.1	+	1	237	c.237C>T	c.(235-237)CAC>CAT	p.H79H		NM_178354	NP_848131	Q5T754	LCE1F_HUMAN	late cornified envelope 1F	79					keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCCTGAGCCACCACAGACGGC	0.706													7	29					0	0	1	0	0		T	152749084	T	T	152749084	2	4	66	1	0	0	0	0	0	0	0	1	8680	506	18	4		4	LCE1F	1	152749084	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	77466	152749084	96501537	82	44158											
LCE1A	353131	broad.mit.edu	37	chr1	152799957	152799957	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccaccgccgagatgtcctgCcagcagagccagcagcagtg	9	4	12	16	2	0	2	0	0	0	2	1	3	1	2	6	0	5	3	6	0	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:152799957C>T	uc010pdw.1	+	1	9	c.9C>T	c.(7-9)TGC>TGT	p.C3C		NM_178348	NP_848125	Q5T7P2	LCE1A_HUMAN	late cornified envelope 1A	3	Cys-rich.				keratinization					ovary(1)|skin(1)	2	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			AGATGTCCTGCCAGCAGAGCC	0.368													15	57					0	0	1	0	0		T	152799957	T	T	152799957	2	4	66	1	0	0	0	0	0	0	0	1	8675	747	26	2		2	LCE1A	1	152799957	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	50873	152799957	96450664	83	44159											
UBAP2L	9898	broad.mit.edu	37	chr1	154201200	154201200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggaaggaaacccagacaCggtagagtgcttatagagtg	13	8	13	7	1	1	3	0	0	1	3	1	5	1	5	1	3	2	2	1	3	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:154201200C>T	uc001fep.3	+	4	445	c.278C>T	c.(277-279)ACG>ATG	p.T93M	UBAP2L_uc009wot.2_Missense_Mutation_p.T93M|UBAP2L_uc010pek.1_Missense_Mutation_p.T92M|UBAP2L_uc010pel.1_Missense_Mutation_p.T92M|UBAP2L_uc001fen.1_Missense_Mutation_p.T92M|UBAP2L_uc010pem.1_Missense_Mutation_p.T92M|UBAP2L_uc010pen.1_Translation_Start_Site	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	93					binding of sperm to zona pellucida		protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AACCCAGACACGGTAGAGTGC	0.433													27	55					0	0	1	0	0		T	154201200	T	T	154201200	3	4	66	1	0	0	0	0	1	0	0	0	16864	550	19	1	288	1	UBAP2L	1	154201200	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1401243	154201200	95049421	84	44160											
DCST1	149095	broad.mit.edu	37	chr1	155007180	155007180	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catctacgaagaacagaagaTtatgttcttgtacagcttgg	13	12	9	7	1	2	3	0	0	2	3	2	4	2	3	0	1	4	3	0	1	6	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:155007180T>A	uc001fgn.1	+	4	335	c.239T>A	c.(238-240)ATT>AAT	p.I80N	DCST2_uc001fgm.2_5'Flank|DCST2_uc009wpb.2_5'Flank|DCST1_uc010per.1_Missense_Mutation_p.I105N|DCST1_uc010pes.1_Intron	NM_152494	NP_689707	Q5T197	DCST1_HUMAN	DC-STAMP domain containing 1 isoform 1	80	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(1)|skin(1)	2	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			GAACAGAAGATTATGTTCTTG	0.532													25	49					0	0	1	0	0		A	155007180	A	A	155007180	3	1	66	1	0	0	0	0	1	0	0	0	4305	1493	52	5	249	5	DCST1	1	155007180	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	805980	155007180	94243441	85	44161											
CLK2	1196	broad.mit.edu	37	chr1	155233110	155233110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcttcacccaaggtcagccGcttagctggttcatactcta	8	11	9	13	1	4	0	3	0	1	0	4	0	4	0	2	3	3	4	2	3	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:155233110G>A	uc001fjy.2	-	13	1689	c.1399C>T	c.(1399-1401)CGG>TGG	p.R467W	RAG1AP1_uc010pey.1_Intron|SCAMP3_uc001fjr.2_5'Flank|SCAMP3_uc001fjs.2_5'Flank|SCAMP3_uc001fju.2_5'Flank|SCAMP3_uc001fjv.2_5'Flank|SCAMP3_uc001fjt.2_5'Flank|CLK2_uc001fjw.2_Missense_Mutation_p.R466W|CLK2_uc001fjx.2_Missense_Mutation_p.R239W|CLK2_uc009wqm.2_Missense_Mutation_p.R467W	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	467	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			AAGGTCAGCCGCTTAGCTGGT	0.572								Other_conserved_DNA_damage_response_genes					10	27					0	0	1	0	0		A	155233110	A	A	155233110	3	1	66	1	0	0	0	0	1	0	0	0	3540	1086	38	1	104	1	CLK2	1	155233110	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	225930	155233110	94017511	86	44162											
RUSC1	23623	broad.mit.edu	37	chr1	155300301	155300301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtggatgaggactggctccGctgtgggcgggatggcatgg	6	8	20	7	2	0	1	0	1	0	0	1	4	1	4	1	7	0	3	1	7	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:155300301G>A	uc001fkj.2	+	10	2877	c.2648G>A	c.(2647-2649)CGC>CAC	p.R883H	RAG1AP1_uc010pey.1_Intron|RUSC1_uc001fkk.2_Missense_Mutation_p.R777H|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_Missense_Mutation_p.R414H|RUSC1_uc001fkl.2_Missense_Mutation_p.R473H|RUSC1_uc001fkp.2_Missense_Mutation_p.R414H|RUSC1_uc001fkq.2_Missense_Mutation_p.R308H|RUSC1_uc010pgb.1_Missense_Mutation_p.R381H|RUSC1_uc009wqp.1_Missense_Mutation_p.R408H|RUSC1_uc001fkn.2_Missense_Mutation_p.R192H|RUSC1_uc001fko.2_RNA|RUSC1_uc001fkr.2_Missense_Mutation_p.R414H|RUSC1_uc001fks.2_Missense_Mutation_p.R150H	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	883	SH3.					cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			GACTGGCTCCGCTGTGGGCGG	0.602													11	27					0	0	1	0	0		A	155300301	A	A	155300301	3	1	66	1	0	0	0	0	1	0	0	0	13775	1087	38	1	2813	1	RUSC1	1	155300301	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	67191	155300301	93950320	87	44163											
SSR2	6746	broad.mit.edu	37	chr1	155989860	155989860	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtctcgtccctccacggcGtatctgttcagcagtgattt	6	13	10	12	3	3	1	1	1	2	0	6	1	5	1	2	2	1	3	2	2	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:155989860G>A	uc001fmx.2	-	2	179	c.99C>T	c.(97-99)TAC>TAT	p.Y33Y	SSR2_uc001fmw.2_RNA|SSR2_uc001fmy.2_RNA|SSR2_uc010pgv.1_Silent_p.Y52Y|SSR2_uc010pgw.1_Silent_p.Y52Y	NM_003145	NP_003136	P43308	SSRB_HUMAN	signal sequence receptor, beta precursor	33	Lumenal (Potential).				cotranslational protein targeting to membrane	endoplasmic reticulum membrane|integral to membrane	signal sequence binding				0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					CCTCCACGGCGTATCTGTTCA	0.488													20	44					0	0	1	0	0		A	155989860	A	A	155989860	2	1	66	1	0	0	0	0	0	0	0	1	15216	1140	40	1		1	SSR2	1	155989860	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	689559	155989860	93260761	88	44164											
C1orf85	112770	broad.mit.edu	37	chr1	156264771	156264771	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatatgaagcaggttctgcaGggggcccagccagttaggga	10	8	15	8	0	1	1	0	1	1	0	1	2	1	2	2	4	3	4	2	4	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:156264771G>A	uc001foh.2	-	2	170	c.157C>T	c.(157-159)CTG>TTG	p.L53L	C1orf85_uc001fof.3_5'Flank|C1orf85_uc001fog.1_RNA|C1orf85_uc001foi.2_Silent_p.L53L|C1orf85_uc009wrx.2_Silent_p.L53L|C1orf85_uc001foj.2_Intron	NM_144580	NP_653181	Q8WWB7	NCUG1_HUMAN	kidney predominant protein NCU-G1 precursor	53	Lumenal (Potential).				positive regulation of transcription from RNA polymerase II promoter	cytosol|integral to membrane|lysosomal membrane|nucleus	ligand-dependent nuclear receptor activity|protein binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2	Hepatocellular(266;0.158)					AGGTTCTGCAGGGGGCCCAGC	0.567													16	23					0	0	1	0	0		A	156264771	A	A	156264771	2	1	66	1	0	0	0	0	0	0	0	1	2065	991	35	4		4	C1orf85	1	156264771	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	274911	156264771	92985850	89	44165											
IQGAP3	128239	broad.mit.edu	37	chr1	156498742	156498742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtggtccaggcaggcccGgatgtactggctgtagtagt	7	9	16	9	1	0	0	0	0	0	0	1	1	1	1	2	6	1	5	2	6	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:156498742G>A	uc001fpf.2	-	35	4612	c.4537C>T	c.(4537-4539)CGG>TGG	p.R1513W		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1513					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGGCAGGCCCGGATGTACTGG	0.582													23	41					0	0	1	0	0		A	156498742	A	A	156498742	3	1	66	1	0	0	0	0	1	0	0	0	7832	1115	39	1	374	1	IQGAP3	1	156498742	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	233971	156498742	92751879	90	44166											
NES	10763	broad.mit.edu	37	chr1	156642653	156642653	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccaggctcctctggtcCaggcaggacgctggcaggaa	7	5	14	15	1	1	0	0	0	1	0	3	2	3	2	4	6	0	4	4	6	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:156642653C>A	uc001fpq.2	-	4	1460	c.1327G>T	c.(1327-1329)GGA>TGA	p.G443*		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	443	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCCTCTGGTCCAGGCAGGACG	0.667													13	61					7.03913e-09	7.34698e-09	1	1	0		A	156642653	A	A	156642653	4	1	66	1	0	0	0	0	0	1	0	0	10356	603	21	5	3542	5	NES	1	156642653	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	143911	156642653	92607968	91	44167											
ETV3L	440695	broad.mit.edu	37	chr1	157062449	157062449	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttcctctctagttaaggagGatccaagggccacactgctt	9	11	9	12	0	1	0	0	0	1	0	4	2	3	2	3	3	1	2	3	3	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:157062449G>T	uc001fqq.1	-	5	1363	c.1078C>A	c.(1078-1080)CCT>ACT	p.P360T		NM_001004341	NP_001004341	Q6ZN32	ETV3L_HUMAN	ets variant 3-like	360						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Hepatocellular(266;0.158)	Prostate(1639;0.184)				AGTTAAGGAGGATCCAAGGGC	0.577													10	31					0.000673444	0.000680768	1	1	0		T	157062449	T	T	157062449	3	4	66	1	0	0	0	0	1	0	0	0	5288	1174	41	5	11	5	ETV3L	1	157062449	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	419796	157062449	92188172	92	44168											
CD1D	912	broad.mit.edu	37	chr1	158151369	158151369	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagctggagcaacgactcGgacaccgtccgctctctgaa	10	6	10	15	4	1	1	0	1	1	0	4	4	2	3	2	2	3	3	2	2	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:158151369G>A	uc001frr.2	+	3	685	c.186G>A	c.(184-186)TCG>TCA	p.S62S	CD1D_uc009wsr.1_Silent_p.S62S|CD1D_uc009wss.2_Silent_p.S62S|CD1D_uc009wst.1_5'UTR	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	62	Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					GCAACGACTCGGACACCGTCC	0.617													42	89					0	0	1	0	0		A	158151369	A	A	158151369	2	1	66	1	0	0	0	0	0	0	0	1	2980	1103	39	1		1	CD1D	1	158151369	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1088920	158151369	91099252	93	44169											
OR10R2	343406	broad.mit.edu	37	chr1	158449951	158449951	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgagaccttctacacctTtgtcattctacccaagatgc	10	13	5	13	0	4	2	1	1	3	2	4	3	4	2	3	0	3	0	3	0	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:158449951T>C	uc010pik.1	+	1	284	c.284T>C	c.(283-285)TTT>TCT	p.F95S	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	95	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					TTCTACACCTTTGTCATTCTA	0.433													62	135					0	0	1	0	0		C	158449951	C	C	158449951	3	2	66	1	0	0	0	0	1	0	0	0	10936	1841	64	3	286	3	OR10R2	1	158449951	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	298582	158449951	90800670	94	44170											
SLAMF9	89886	broad.mit.edu	37	chr1	159922266	159922266	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcacaccagggacatactGcaggcaccttccccagaact	12	5	9	15	0	0	1	0	0	0	1	1	3	1	2	4	2	4	3	4	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:159922266G>A	uc001fus.2	-	3	567	c.450C>T	c.(448-450)TGC>TGT	p.C150C	SLAMF9_uc009wtd.2_Intron|SLAMF9_uc001fut.2_Intron	NM_033438	NP_254273	Q96A28	SLAF9_HUMAN	SLAM family member 9 isoform 1	150	Ig-like C2-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GGGACATACTGCAGGCACCTT	0.537													38	72					0	0	1	0	0		A	159922266	A	A	159922266	2	1	66	1	0	0	0	0	0	0	0	1	14396	1311	46	2		2	SLAMF9	1	159922266	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1472315	159922266	89328355	95	44171											
CASQ1	844	broad.mit.edu	37	chr1	160168836	160168837	+	Frame_Shift_Ins	INS	-	C	C																															tggattgaccctgatgacttINSccccctggtaagaggcacag																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:160168836_160168837insC	uc010pja.1	+	9	1234_1235	c.977_978insC	c.(976-978)TTCfs	p.F326fs		NM_001231	NP_001222	P31415	CASQ1_HUMAN	calsequestrin 1	326						mitochondrial matrix|sarcoplasmic reticulum lumen|smooth endoplasmic reticulum	calcium ion binding			central_nervous_system(1)	1	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CCTGATGACTTCCCCCTGGTAA	0.505													23	51	---	---	---	---						.	C	160168837	C	C	160168836	7	5	66	1	0	1	1	0	0	0	0	0	2683	1783	62	0	1011	0	CASQ1	1	160168836	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	246570	160168836	89081785	96	44172											
PVRL4	81607	broad.mit.edu	37	chr1	161049551	161049551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcgtaagccgggctcaCatgaagcccgtatttggagt	8	9	12	12	3	1	1	1	1	0	0	2	2	1	2	3	2	2	3	3	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:161049551C>T	uc001fxo.2	-	2	567	c.268G>A	c.(268-270)GTG>ATG	p.V90M		NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	90	Ig-like V-type 1.|Extracellular (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			GCCGGGCTCACATGAAGCCCG	0.692													28	31					0	0	1	0	0		T	161049551	T	T	161049551	3	4	66	1	0	0	0	0	1	0	0	0	12867	478	17	4	1296	4	PVRL4	1	161049551	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	880715	161049551	88201070	97	44173											
PFDN2	5202	broad.mit.edu	37	chr1	161072141	161072141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggcctcgctgttcctgccGaaggcggttgaagccagcaa	8	7	13	13	3	0	1	0	1	0	0	2	2	1	1	4	3	3	4	4	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:161072141G>A	uc001fxu.2	-	2	150	c.100C>T	c.(100-102)CGG>TGG	p.R34W		NM_012394	NP_036526	Q9UHV9	PFD2_HUMAN	prefoldin subunit 2	34				GFNRLR -> SFNAF (in Ref. 3; AAF36151).	'de novo' posttranslational protein folding	prefoldin complex	unfolded protein binding				0	all_cancers(52;1.84e-19)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			TGTTCCTGCCGAAGGCGGTTG	0.527													19	53					0	0	1	0	0		A	161072141	A	A	161072141	3	1	66	1	0	0	0	0	1	0	0	0	11775	1057	37	1	376	1	PFDN2	1	161072141	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	22590	161072141	88178480	98	44174											
ADAMTS4	9507	broad.mit.edu	37	chr1	161167952	161167952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggtggagttcagccccccGatattgtaacacgcctaaca	11	8	10	12	2	1	0	1	0	0	0	1	3	1	1	4	2	3	2	4	2	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:161167952G>A	uc001fyt.3	-	1	894	c.466C>T	c.(466-468)CGG>TGG	p.R156W	ADAMTS4_uc001fyu.2_Missense_Mutation_p.R156W|NDUFS2_uc001fyv.2_5'Flank	NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	156					proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			TCAGCCCCCCGATATTGTAAC	0.632													13	63					0	0	1	0	0		A	161167952	A	A	161167952	3	1	66	1	0	0	0	0	1	0	0	0	268	1057	37	1	2083	1	ADAMTS4	1	161167952	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	95811	161167952	88082669	99	44175											
HSPA6	3310	broad.mit.edu	37	chr1	161494851	161494851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agatgaaggagacggccgagGcgtacctgggccagcccgtg	9	4	17	11	4	0	3	0	1	0	2	0	5	0	3	4	4	2	1	4	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:161494851G>A	uc001gap.2	+	2	1063	c.403G>A	c.(403-405)GCG>ACG	p.A135T	HSPA6_uc001gaq.2_Missense_Mutation_p.A135T	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	135					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			GACGGCCGAGGCGTACCTGGG	0.647													7	15					0	0	1	0	0		A	161494851	A	A	161494851	3	1	66	1	0	0	0	0	1	0	0	0	7431	1203	42	2	405	2	HSPA6	1	161494851	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	326899	161494851	87755770	100	44176											
DDR2	4921	broad.mit.edu	37	chr1	162749984	162749984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagagatacgaagaaccGtccctcattccaagaaatcc	16	6	8	11	2	1	4	1	0	0	4	4	7	4	4	4	0	2	0	4	0	6	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:162749984G>A	uc001gcf.2	+	19	2981	c.2516G>A	c.(2515-2517)CGT>CAT	p.R839H	DDR2_uc001gcg.2_Missense_Mutation_p.R839H|uc001gch.1_5'Flank	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	839	Cytoplasmic (Potential).|Protein kinase.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			ACGAAGAACCGTCCCTCATTC	0.498													33	79					0	0	1	0	0		A	162749984	A	A	162749984	3	1	66	1	0	0	0	0	1	0	0	0	4340	1145	40	1	2578	1	DDR2	1	162749984	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1255133	162749984	86500637	101	44177											
CEP350	9857	broad.mit.edu	37	chr1	180063462	180063462	+	Frame_Shift_Del	DEL	A	-	-																															gaagtcatcactaaatgaggAaaaaaagtcaaaacaacaac																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:180063462delA	uc001gnt.2	+	34	8605	c.8222delA	c.(8221-8223)GAAfs	p.E2741fs	CEP350_uc009wxl.2_Frame_Shift_Del_p.E2740fs|CEP350_uc001gnv.2_Frame_Shift_Del_p.E876fs|CEP350_uc001gnw.1_Frame_Shift_Del_p.E498fs|CEP350_uc001gnx.1_Frame_Shift_Del_p.E498fs	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	2741	Potential.					centrosome|nucleus|spindle				ovary(4)	4						CTAAATGAGGAAAAAAAGTCA	0.353													13	30	---	---	---	---						.	-	180063462	-	-	180063462	7	5	66	1	0	1	0	1	0	0	0	0	3257	246	9	0	8352	0	CEP350	1	180063462	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	17313478	180063462	69187159	102	44178											
RGS16	6004	broad.mit.edu	37	chr1	182571596	182571596	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaacgactctctccaccccAgcacatcttctgagaagttt	10	10	6	15	2	3	1	0	1	3	1	5	4	4	1	3	0	2	2	3	0	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:182571596A>G	uc001gpl.3	-	3	333	c.179T>C	c.(178-180)CTG>CCG	p.L60P	RGS16_uc010pnv.1_Missense_Mutation_p.L60P	NM_002928	NP_002919	O15492	RGS16_HUMAN	regulator of G-protein signalling 16	60					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity			ovary(1)	1						TCTCCACCCCAGCACATCTTC	0.383													5	34					0	0	1	0	0		G	182571596	G	G	182571596	3	3	66	1	0	0	0	0	1	0	0	0	13323	188	7	3	441	3	RGS16	1	182571596	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2508134	182571596	66679025	103	44179											
RGL1	23179	broad.mit.edu	37	chr1	183895311	183895311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactttgacttcattttgcGcaaaaagaactccatggaag	14	11	8	8	1	1	2	1	1	0	1	2	4	2	3	1	1	3	1	1	1	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:183895311G>A	uc001gqo.2	+	18	2349	c.2192G>A	c.(2191-2193)CGC>CAC	p.R731H	RGL1_uc001gqm.2_Missense_Mutation_p.R766H|RGL1_uc010pog.1_Missense_Mutation_p.R729H|RGL1_uc010poh.1_Missense_Mutation_p.R729H|RGL1_uc010poi.1_Missense_Mutation_p.R702H	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	731	Ras-associating.				cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						TTCATTTTGCGCAAAAAGAAC	0.453													21	73					0	0	1	0	0		A	183895311	A	A	183895311	3	1	66	1	0	0	0	0	1	0	0	0	13301	1087	38	1	2367	1	RGL1	1	183895311	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1323715	183895311	65355310	104	44180											
C1orf21	81563	broad.mit.edu	37	chr1	184567582	184567582	+	Frame_Shift_Del	DEL	A	-	-																															attcttcagaatgctggatgAaaaaattgaaaaggtaagaa																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:184567582delA	uc001gqv.1	+	5	791	c.314delA	c.(313-315)GAAfs	p.E105fs		NM_030806	NP_110433	Q9H246	CA021_HUMAN	chromosome 1 open reading frame 21	105											0		Breast(1374;0.00262)		Colorectal(1306;4.8e-08)|KIRC - Kidney renal clear cell carcinoma(1967;0.00314)		ATGCTGGATGAAAAAATTGAA	0.343													12	27	---	---	---	---						.	-	184567582	-	-	184567582	7	5	66	1	0	1	0	1	0	0	0	0	2031	246	9	0	328	0	C1orf21	1	184567582	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	672271	184567582	64683039	105	44181											
HMCN1	83872	broad.mit.edu	37	chr1	186106744	186106744	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttccagccaatggtgggaAgccctgccaaggttcagatt	9	9	11	12	0	1	1	1	0	0	1	2	2	2	2	5	3	3	1	5	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:186106744A>G	uc001grq.1	+	88	13926	c.13697A>G	c.(13696-13698)AAG>AGG	p.K4566R	HMCN1_uc001grs.1_Missense_Mutation_p.K135R	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4566	TSP type-1 1.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AATGGTGGGAAGCCCTGCCAA	0.493													14	32					0	0	1	0	0		G	186106744	G	G	186106744	3	3	66	1	0	0	0	0	1	0	0	0	7236	72	3	3	14047	3	HMCN1	1	186106744	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1539162	186106744	63143877	106	44182											
CFHR3	10878	broad.mit.edu	37	chr1	196759285	196759285	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgagtaccaatgccagcccTactatgaacttcagggttct	10	11	8	12	1	2	1	1	1	1	0	3	2	2	1	3	1	5	2	3	1	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:196759285T>C	uc001gtl.2	+	5	811	c.724T>C	c.(724-726)TAC>CAC	p.Y242H	CFHR3_uc010poy.1_Missense_Mutation_p.Y181H|CFHR1_uc001gtm.2_Intron	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	242	Sushi 4.					extracellular space					0						ATGCCAGCCCTACTATGAACT	0.433													60	35					0	0	1	0	0		C	196759285	C	C	196759285	3	2	66	1	0	0	0	0	1	0	0	0	3289	1522	53	3	742	3	CFHR3	1	196759285	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	10652541	196759285	52491336	107	44183											
ASPM	259266	broad.mit.edu	37	chr1	197073026	197073026	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtgctttgtatgcatgAtagtaattctgaatgacaat	12	15	8	6	0	1	3	0	3	1	0	1	3	1	3	1	0	2	4	1	0	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:197073026A>G	uc001gtu.2	-	18	5612	c.5355T>C	c.(5353-5355)TAT>TAC	p.Y1785Y	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1785					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TGTATGCATGATAGTAATTCT	0.368													7	136					0	0	1	0	0		G	197073026	G	G	197073026	2	3	66	1	0	0	0	0	0	0	0	1	1057	340	12	3		3	ASPM	1	197073026	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	313741	197073026	52177595	108	44184											
NR5A2	2494	broad.mit.edu	37	chr1	200017448	200017448	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgatccaagctatgccCtctgacctgaccatttcctc	8	11	7	15	0	1	3	0	3	1	0	4	3	3	3	5	1	2	1	5	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:200017448C>T	uc001gvb.2	+	5	818	c.612C>T	c.(610-612)CCC>CCT	p.P204P	NR5A2_uc001gvc.2_Silent_p.P158P|NR5A2_uc009wzh.2_Silent_p.P164P|NR5A2_uc010pph.1_Silent_p.P132P	NM_205860	NP_995582	O00482	NR5A2_HUMAN	nuclear receptor subfamily 5, group A, member 2	204					embryo development|positive regulation of viral genome replication|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	lipid binding|protein binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Prostate(682;0.19)					AAGCTATGCCCTCTGACCTGA	0.498													45	118					0	0	1	0	0		T	200017448	T	T	200017448	2	4	66	1	0	0	0	0	0	0	0	1	10655	668	24	4		4	NR5A2	1	200017448	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2944422	200017448	49233173	109	44185											
CACNA1S	779	broad.mit.edu	37	chr1	201012597	201012597	+	Frame_Shift_Del	DEL	G	-	-																															ggtctctgattggccatgacGgggggcagggagttggtcct																								rs41267497	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:201012597delG	uc001gvv.2	-	40	5087	c.4860delC	c.(4858-4860)CCCfs	p.P1620fs		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1620	Cytoplasmic (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TGGCCATGACGGGGGGCAGGG	0.572											OREG0014067	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	32	---	---	---	---						.	-	201012597	-	-	201012597	7	5	66	1	0	1	0	1	0	0	0	0	2550	1103	39	0	781	0	CACNA1S	1	201012597	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	995149	201012597	48238024	110	44186											
IGFN1	91156	broad.mit.edu	37	chr1	201184737	201184737	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtcaaggctgggaagccGgtgatagtgaagatcccctt	9	9	15	8	1	1	3	1	2	0	1	2	4	2	4	3	4	1	1	3	4	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:201184737G>A	uc001gwc.2	+	4	1318	c.546G>A	c.(544-546)CCG>CCA	p.P182P	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						CTGGGAAGCCGGTGATAGTGA	0.562													16	33					0	0	1	0	0		A	201184737	A	A	201184737	2	1	66	1	0	0	0	0	0	0	0	1	7606	1103	39	1		1	IGFN1	1	201184737	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	172140	201184737	48065884	111	44187											
NAV1	89796	broad.mit.edu	37	chr1	201751434	201751434	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccccctcgggcattgctcgCccctccacttcgggatcctt	3	10	8	20	3	0	0	0	0	0	0	5	1	2	1	7	2	1	2	7	2	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:201751434C>T	uc001gwu.2	+	6	2141	c.1794C>T	c.(1792-1794)CGC>CGT	p.R598R	NAV1_uc001gwv.1_Silent_p.R106R|NAV1_uc001gww.1_Silent_p.R207R|NAV1_uc001gwx.2_Silent_p.R207R|NAV1_uc001gwy.1_5'UTR	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	598					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						GCATTGCTCGCCCCTCCACTT	0.582													20	45					0	0	1	0	0		T	201751434	T	T	201751434	2	4	66	1	0	0	0	0	0	0	0	1	10201	726	26	2		2	NAV1	1	201751434	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	566697	201751434	47499187	112	44188											
LGR6	59352	broad.mit.edu	37	chr1	202276051	202276051	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacaccttcagccagctgAgctccctgcaagccctgtga	8	8	9	16	0	1	3	1	3	0	0	2	3	2	3	4	0	5	3	4	0	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:202276051A>G	uc001gxu.2	+	13	1192	c.1192A>G	c.(1192-1194)AGC>GGC	p.S398G	LGR6_uc001gxv.2_Missense_Mutation_p.S346G|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Missense_Mutation_p.S259G|LGR6_uc009xac.1_RNA	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	398	Extracellular (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						CAGCCAGCTGAGCTCCCTGCA	0.597													13	30					0	0	1	0	0		G	202276051	G	G	202276051	3	3	66	1	0	0	0	0	1	0	0	0	8774	304	11	3	1389	3	LGR6	1	202276051	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	524617	202276051	46974570	113	44189											
PPP1R12B	4660	broad.mit.edu	37	chr1	202462365	202462365	+	Frame_Shift_Del	DEL	G	-	-																															aagggcttgaggggagccctGagaagcatgagccctcagca																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:202462365delG	uc001gya.1	+	15	2209	c.2065delG	c.(2065-2067)GAGfs	p.E689fs	PPP1R12B_uc001gxz.1_Frame_Shift_Del_p.E689fs|PPP1R12B_uc001gyb.1_5'UTR|PPP1R12B_uc001gyc.1_5'UTR	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	689					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			GGGGAGCCCTGAGAAGCATGA	0.597													21	32	---	---	---	---						.	-	202462365	-	-	202462365	7	5	66	1	0	1	0	1	0	0	0	0	12377	1291	45	0	2213	0	PPP1R12B	1	202462365	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	186314	202462365	46788256	114	44190											
PPFIA4	8497	broad.mit.edu	37	chr1	203044748	203044748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcgccctcctggaggaagcGcttccggccgcgggagcacc	5	4	15	17	6	0	0	0	0	0	0	2	3	2	3	5	4	2	2	5	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:203044748G>A	uc001gyz.2	+	16	2512	c.1919G>A	c.(1918-1920)CGC>CAC	p.R640H	PPFIA4_uc009xaj.2_Missense_Mutation_p.R1271H|PPFIA4_uc010pqf.1_Missense_Mutation_p.R853H|PPFIA4_uc001gza.2_Missense_Mutation_p.R631H|PPFIA4_uc001gzb.1_Missense_Mutation_p.R326H|PPFIA4_uc001gzc.1_Missense_Mutation_p.R182H	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	640					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						TGGAGGAAGCGCTTCCGGCCG	0.706													7	17					0	0	1	0	0		A	203044748	A	A	203044748	3	1	66	1	0	0	0	0	1	0	0	0	12331	1087	38	1	1981	1	PPFIA4	1	203044748	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	582383	203044748	46205873	115	44191											
CHIT1	1118	broad.mit.edu	37	chr1	203192711	203192711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaggtcaaggccgtcaaagCtgtatttgcgcagaaacctg	12	8	11	10	2	2	1	2	0	0	1	2	1	2	1	2	2	3	3	2	2	5	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:203192711C>T	uc001gzn.2	-	5	488	c.392G>A	c.(391-393)AGC>AAC	p.S131N	FMOD_uc010pqi.1_Intron|CHIT1_uc001gzm.1_RNA|CHIT1_uc009xal.1_5'Flank|CHIT1_uc009xam.1_RNA|CHIT1_uc009xan.1_RNA|CHIT1_uc001gzo.2_Missense_Mutation_p.S122N	NM_003465	NP_003456	Q13231	CHIT1_HUMAN	chitotriosidase precursor	131					chitin catabolic process|immune response|response to bacterium	extracellular space|lysosome	cation binding|chitin binding|endochitinase activity				0						GCCGTCAAAGCTGTATTTGCG	0.562													25	67					0	0	1	0	0		T	203192711	T	T	203192711	3	4	66	1	0	0	0	0	1	0	0	0	3349	797	28	2	1036	2	CHIT1	1	203192711	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	147963	203192711	46057910	116	44192											
SLC26A9	115019	broad.mit.edu	37	chr1	205899107	205899107	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcaggatctgcaggccggcGgccgtcatgaagccccggat	8	6	14	13	4	3	1	2	1	1	0	3	3	3	3	4	5	2	1	4	5	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:205899107G>A	uc001hdq.2	-	6	744	c.630C>T	c.(628-630)GCC>GCT	p.A210A	SLC26A9_uc001hdo.2_5'Flank|SLC26A9_uc001hdp.2_Silent_p.A210A	NM_052934	NP_443166	Q7LBE3	S26A9_HUMAN	solute carrier family 26, member 9 isoform a	210	Helical; (Potential).					integral to membrane	chloride channel activity|secondary active sulfate transmembrane transporter activity			ovary(1)|skin(1)	2	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0458)			GCAGGCCGGCGGCCGTCATGA	0.572													14	24					0	0	1	0	0		A	205899107	A	A	205899107	2	1	66	1	0	0	0	0	0	0	0	1	14549	1103	39	1		1	SLC26A9	1	205899107	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2706396	205899107	43351514	117	44193											
CTSE	1510	broad.mit.edu	37	chr1	206331126	206331126	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggatgtcttcattcgacagTtttactcagtctttgaccgt	7	16	9	9	2	4	1	2	1	2	0	5	3	4	2	1	1	1	1	1	1	1	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:206331126T>C	uc001hdu.2	+	9	1250	c.1132T>C	c.(1132-1134)TTT>CTT	p.F378L	CTSE_uc001hdv.2_Silent_p.S330S|CTSE_uc010prs.1_Silent_p.S255S	NM_001910	NP_001901	P14091	CATE_HUMAN	cathepsin E isoform a preproprotein	383					antigen processing and presentation of exogenous peptide antigen via MHC class II|digestion|proteolysis	endosome	aspartic-type endopeptidase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(75;0.0754)			CATTCGACAGTTTTACTCAGT	0.567													41	70					0	0	1	0	0		C	206331126	C	C	206331126	3	2	66	1	0	0	0	0	1	0	0	0	4036	1725	60	3	1166	3	CTSE	1	206331126	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	432019	206331126	42919495	118	44194											
C1orf107	27042	broad.mit.edu	37	chr1	210016834	210016834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagattttgccacagtatcGtgatgcagtcatgtctcaca	11	12	8	10	1	2	2	2	1	1	1	4	2	2	2	1	0	2	2	1	0	2	3	rs138648804		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:210016834G>A	uc001hhr.1	+	11	1896	c.1820G>A	c.(1819-1821)CGT>CAT	p.R607H	C1orf107_uc009xcu.1_Missense_Mutation_p.R322H	NM_014388	NP_055203	Q68CQ4	DIEXF_HUMAN	digestive-organ expansion factor homolog	607					multicellular organismal development	nucleus					0				OV - Ovarian serous cystadenocarcinoma(81;0.0367)		CCACAGTATCGTGATGCAGTC	0.398													14	25					0	0	1	0	0		A	210016834	A	A	210016834	3	1	66	1	0	0	0	0	1	0	0	0	1984	1145	40	1	1862	1	C1orf107	1	210016834	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3685708	210016834	39233787	119	44195											
CENPF	1063	broad.mit.edu	37	chr1	214820743	214820743	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatgtcctttgttgaaaaAgtaagtggctatatctgttt	13	16	8	4	0	1	1	0	1	1	0	2	1	2	1	1	1	0	4	1	1	7	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:214820743A>C	uc001hkm.2	+	13	8004	c.7830A>C	c.(7828-7830)AAA>AAC	p.K2610N		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2706	Potential.|Sufficient for self-association.|Sufficient for centromere localization.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TTGTTGAAAAAGTAAGTGGCT	0.353													7	21					0	0	1	0	0		C	214820743	C	C	214820743	3	2	66	1	0	0	0	0	1	0	0	0	3234	86	3	5	7876	5	CENPF	1	214820743	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	4803909	214820743	34429878	120	44196											
USH2A	7399	broad.mit.edu	37	chr1	216496917	216496917	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaaatgaaaccttatttgCgtggcttttacgaactcttg	11	15	8	7	2	1	2	0	2	1	0	1	3	1	2	1	1	4	1	1	1	6	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:216496917C>T	uc001hku.1	-	8	1836	c.1449G>A	c.(1447-1449)ACG>ACA	p.T483T	USH2A_uc001hkv.2_Silent_p.T483T	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	483	Laminin N-terminal.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACCTTATTTGCGTGGCTTTTA	0.408										HNSCC(13;0.011)			28	99					0	0	1	0	0		T	216496917	T	T	216496917	2	4	66	1	0	0	0	0	0	0	0	1	17062	755	27	1		1	USH2A	1	216496917	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1676174	216496917	32753704	121	44197											
USH2A	7399	broad.mit.edu	37	chr1	216498890	216498890	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccagggcaacggcaatgTgattgggcatgcaatctgag	10	8	14	9	1	1	2	0	2	1	0	1	2	1	2	1	3	3	4	1	3	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:216498890T>C	uc001hku.1	-	6	1287	c.900A>G	c.(898-900)TCA>TCG	p.S300S	USH2A_uc001hkv.2_Silent_p.S300S	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	300	Laminin N-terminal.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AACGGCAATGTGATTGGGCAT	0.507										HNSCC(13;0.011)			21	34					0	0	1	0	0		C	216498890	C	C	216498890	2	2	66	1	0	0	0	0	0	0	0	1	17062	1683	59	3		3	USH2A	1	216498890	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1973	216498890	32751731	122	44198											
DUSP10	11221	broad.mit.edu	37	chr1	221879616	221879616	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccaggtcctgagcatccTgctcattgccaaggaacagg	9	9	11	12	0	1	1	1	1	0	0	4	2	4	2	4	3	4	2	4	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:221879616T>C	uc001hmy.1	-	3	1186	c.1004A>G	c.(1003-1005)CAG>CGG	p.Q335R	DUSP10_uc001hmx.1_5'UTR|DUSP10_uc001hmz.1_5'UTR	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	335					inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		CTGAGCATCCTGCTCATTGCC	0.582													49	82					0	0	1	0	0		C	221879616	C	C	221879616	3	2	66	1	0	0	0	0	1	0	0	0	4816	1580	55	3	452	3	DUSP10	1	221879616	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	5380726	221879616	27371005	123	44199											
FAM177B	400823	broad.mit.edu	37	chr1	222919894	222919895	+	Frame_Shift_Del	DEL	AT	-	-																															tgttttgtttcattatggagAttgacggtttccagcagtta																								rs2378607	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:222919894_222919895delAT	uc001hnt.2	+	3	273_274	c.7_8delAT	c.(7-9)ATTfs	p.I3fs	uc001hnr.1_Intron|FAM177B_uc009xeb.2_RNA	NM_207468	NP_997351	A6PVY3	F177B_HUMAN	hypothetical protein LOC400823	3										ovary(1)	1						CATTATGGAGATTGACGGTTTC	0.376													19	32	---	---	---	---						.	-	222919895	-	-	222919894	7	5	66	1	0	1	0	1	0	0	0	0	5513	333	12	0	9	0	FAM177B	1	222919894	Frame_Shift_Del	DEL	AT	TCGA-BR-8361-01A-11D-2340-08	1040278	222919894	26330727	124	44200											
LIN9	286826	broad.mit.edu	37	chr1	226483628	226483628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcagaaaaaagtcgacttCgttttgaatttctgaaaggc	14	12	8	7	2	2	3	1	2	1	1	4	4	2	3	0	1	0	1	0	1	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:226483628C>T	uc001hqa.2	-	4	537	c.227G>A	c.(226-228)CGA>CAA	p.R76Q	LIN9_uc001hqb.2_Intron|LIN9_uc001hqc.2_Missense_Mutation_p.R8Q|LIN9_uc009xel.1_Intron	NM_173083	NP_775106	Q5TKA1	LIN9_HUMAN	lin-9 homolog	60	Sufficient for interaction with RB1.				cell cycle|DNA replication	nucleoplasm					0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.131)		AAGTCGACTTCGTTTTGAATT	0.348													18	30					0	0	1	0	0		T	226483628	T	T	226483628	3	4	66	1	0	0	0	0	1	0	0	0	8830	884	31	1	1497	1	LIN9	1	226483628	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3563734	226483628	22766993	125	44201											
C1orf35	79169	broad.mit.edu	37	chr1	228290071	228290071	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcgggacatcgccacgcgGcccacggagccactgcaggg	7	4	14	16	5	1	0	0	0	1	0	3	2	1	2	3	4	2	1	3	4	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:228290071G>A	uc001hrx.2	-	5	481	c.387C>T	c.(385-387)GGC>GGT	p.G129G	C1orf35_uc009xew.2_RNA	NM_024319	NP_077295	Q9BU76	MMTA2_HUMAN	hypothetical protein LOC79169	129											0		Prostate(94;0.0488)				TCGCCACGCGGCCCACGGAGC	0.672													4	9					0	0	1	0	0		A	228290071	A	A	228290071	2	1	66	1	0	0	0	0	0	0	0	1	2041	1190	42	2		2	C1orf35	1	228290071	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1806443	228290071	20960550	126	44202											
MRPL55	128308	broad.mit.edu	37	chr1	228294543	228294543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgctcgtactccttcctcGactggagctgagcctcacgc	5	10	9	17	3	1	1	1	1	0	0	5	3	3	2	4	1	4	3	4	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:228294543G>A	uc001hry.2	-	3	1049	c.305C>T	c.(304-306)TCG>TTG	p.S102L	MRPL55_uc001hrz.3_Missense_Mutation_p.S138L|MRPL55_uc009xex.2_Missense_Mutation_p.S102L|MRPL55_uc001hsa.3_Missense_Mutation_p.S102L|MRPL55_uc001hsb.3_Missense_Mutation_p.S102L|MRPL55_uc001hsc.3_Missense_Mutation_p.S102L|MRPL55_uc001hsd.3_Missense_Mutation_p.S102L|MRPL55_uc001hse.3_Missense_Mutation_p.S102L|MRPL55_uc001hsf.3_Missense_Mutation_p.S102L|MRPL55_uc001hsg.3_Missense_Mutation_p.S102L	NM_181465	NP_852130	Q7Z7F7	RM55_HUMAN	mitochondrial ribosomal protein L55 isoform a	102					translation	mitochondrial large ribosomal subunit	structural constituent of ribosome			central_nervous_system(1)	1		Prostate(94;0.0405)				CTCCTTCCTCGACTGGAGCTG	0.612													29	35					0	0	1	0	0		A	228294543	A	A	228294543	3	1	66	1	0	0	0	0	1	0	0	0	9837	1059	37	1	85	1	MRPL55	1	228294543	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4472	228294543	20956078	127	44203											
GJC2	57165	broad.mit.edu	37	chr1	228345732	228345732	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtcatctccacgccctcGgtcatgtacctgggctacgc	5	10	11	15	3	3	0	2	0	1	0	5	0	3	0	3	3	2	2	3	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:228345732G>A	uc001hsk.2	+	2	448	c.273G>A	c.(271-273)TCG>TCA	p.S91S		NM_020435	NP_065168	Q5T442	CXG2_HUMAN	gap junction protein, gamma 2, 47kDa	91	Helical; (Potential).				cell death	connexon complex|integral to membrane					0		Prostate(94;0.0405)				CCACGCCCTCGGTCATGTACC	0.507													8	5					0	0	1	0	0		A	228345732	A	A	228345732	2	1	66	1	0	0	0	0	0	0	0	1	6430	1103	39	1		1	GJC2	1	228345732	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	51189	228345732	20904889	128	44204											
OBSCN	84033	broad.mit.edu	37	chr1	228509183	228509183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggcagctgtgaagatccagGctgcctttaagggctacaag	11	8	13	9	0	0	2	0	1	0	1	1	2	1	2	2	3	3	4	2	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:228509183G>A	uc009xez.1	+	55	14685	c.14641G>A	c.(14641-14643)GCT>ACT	p.A4881T	OBSCN_uc001hsn.2_Missense_Mutation_p.A4881T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4881	IQ.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GAAGATCCAGGCTGCCTTTAA	0.602													7	12					0	0	1	0	0		A	228509183	A	A	228509183	3	1	66	1	0	0	0	0	1	0	0	0	10831	1203	42	2	14855	2	OBSCN	1	228509183	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	163451	228509183	20741438	129	44205											
NUP133	55746	broad.mit.edu	37	chr1	229635470	229635470	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaagtcttatcacctccCgaatctacaaaagcctctgt	11	12	5	13	1	4	0	1	0	3	0	5	1	5	0	3	0	2	1	3	0	6	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:229635470C>T	uc001htn.2	-	5	701	c.609G>A	c.(607-609)TCG>TCA	p.S203S		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	203					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				TATCACCTCCCGAATCTACAA	0.433													20	46					0	0	1	0	0		T	229635470	T	T	229635470	2	4	66	1	0	0	0	0	0	0	0	1	10773	639	23	1		1	NUP133	1	229635470	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1126287	229635470	19615151	130	44206											
NUP133	55746	broad.mit.edu	37	chr1	229635528	229635528	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggcttggccaatagcggAtagatccttctctggtggca	9	10	12	10	1	1	1	0	0	1	1	3	2	2	2	2	5	1	2	2	5	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:229635528A>G	uc001htn.2	-	5	643	c.551T>C	c.(550-552)ATC>ACC	p.I184T		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	184					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				CCAATAGCGGATAGATCCTTC	0.453													15	37					0	0	1	0	0		G	229635528	G	G	229635528	3	3	66	1	0	0	0	0	1	0	0	0	10773	333	12	3	3007	3	NUP133	1	229635528	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	58	229635528	19615093	131	44207											
DISC1	27185	broad.mit.edu	37	chr1	231954073	231954073	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctctcccacaacgtgctgtAggaaaccatttctggacggc	9	10	9	13	2	2	0	0	0	2	0	4	2	3	2	2	3	3	2	2	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:231954073A>G	uc001huz.2	+	9	1846	c.1793_splice	c.e9-2	p.G598_splice	TSNAX-DISC1_uc010pwg.1_Splice_Site_p.G587_splice|TSNAX-DISC1_uc010pwh.1_Splice_Site_p.G553_splice|TSNAX-DISC1_uc010pwi.1_Splice_Site_p.G553_splice|TSNAX-DISC1_uc010pwj.1_Splice_Site_p.G587_splice|TSNAX-DISC1_uc010pwk.1_Splice_Site_p.E553_splice|TSNAX-DISC1_uc010pwl.1_Splice_Site|DISC1_uc010pwr.1_Splice_Site_p.G598_splice|DISC1_uc010pws.1_Splice_Site_p.E564_splice|DISC1_uc010pwt.1_Splice_Site_p.R545_splice|DISC1_uc010pwu.1_Splice_Site_p.R195_splice|DISC1_uc010pwv.1_Splice_Site|DISC1_uc010pww.1_Splice_Site_p.G598_splice|DISC1_uc010pwx.1_Splice_Site|DISC1_uc010pwy.1_Splice_Site|DISC1_uc010pwz.1_Splice_Site|DISC1_uc010pxa.1_Splice_Site|DISC1_uc001huy.2_Splice_Site_p.G598_splice|DISC1_uc010pxb.1_Splice_Site_p.G598_splice|DISC1_uc010pxc.1_Intron|DISC1_uc010pxd.1_Splice_Site_p.G243_splice|DISC1_uc010pxe.1_Splice_Site_p.G598_splice|DISC1_uc009xfr.2_Splice_Site_p.G553_splice|DISC1_uc010pxf.1_Splice_Site_p.G598_splice|DISC1_uc010pxg.1_Intron|DISC1_uc010pxh.1_Splice_Site_p.G630_splice|DISC1_uc010pxi.1_Splice_Site|DISC1_uc010pxj.1_Splice_Site_p.G243_splice|DISC1_uc010pxk.1_Splice_Site|DISC1_uc010pxl.1_Splice_Site|DISC1_uc010pxm.1_Splice_Site_p.G476_splice|DISC1_uc010pxn.1_Splice_Site_p.G243_splice|DISC1_uc001hva.2_Splice_Site_p.G598_splice|DISC2_uc001hvd.2_RNA	NM_018662	NP_061132	Q9NRI5	DISC1_HUMAN	disrupted in schizophrenia 1 isoform L						microtubule cytoskeleton organization|neuron migration|positive regulation of neuroblast proliferation|positive regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	centrosome|microtubule	protein binding			skin(1)	1		all_cancers(173;0.0208)|Prostate(94;0.0975)				AACGTGCTGTAGGAAACCATT	0.478													19	62					0	0	1	0	0		G	231954073	G	G	231954073	5	3	66	1	0	0	0	0	0	0	1	0	4544	434	15	3	2198	3	DISC1	1	231954073	Splice_Site	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2318545	231954073	17296548	132	44208											
NID1	4811	broad.mit.edu	37	chr1	236189268	236189268	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttgtacaggacgaacaCgctgtccaccgagagctgct	9	8	12	12	3	0	1	0	0	0	1	1	4	1	2	2	2	4	5	2	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:236189268C>T	uc001hxo.2	-	8	2014	c.1912G>A	c.(1912-1914)GTG>ATG	p.V638M	NID1_uc009xgd.2_Missense_Mutation_p.V638M	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	638	Nidogen G2 beta-barrel.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	AGGACGAACACGCTGTCCACC	0.597													55	106					0	0	1	0	0		T	236189268	T	T	236189268	3	4	66	1	0	0	0	0	1	0	0	0	10433	536	19	1	1883	1	NID1	1	236189268	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4235195	236189268	13061353	133	44209											
MTR	4548	broad.mit.edu	37	chr1	237001790	237001790	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaagggaagtgcattgTcaatagcattagtctgaagg	12	10	12	7	0	2	1	1	1	1	0	2	2	2	2	1	2	3	2	1	2	6	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:237001790T>C	uc001hyi.3	+	15	1829	c.1406T>C	c.(1405-1407)GTC>GCC	p.V469A	MTR_uc010pxw.1_Missense_Mutation_p.V62A|MTR_uc010pxx.1_Missense_Mutation_p.V469A|MTR_uc010pxy.1_Missense_Mutation_p.V469A	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	469	Pterin-binding.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	AAGTGCATTGTCAATAGCATT	0.443													34	96					0	0	1	0	0		C	237001790	C	C	237001790	3	2	66	1	0	0	0	0	1	0	0	0	9976	1667	58	3	1464	3	MTR	1	237001790	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	812522	237001790	12248831	134	44210											
RYR2	6262	broad.mit.edu	37	chr1	237919622	237919622	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaaaagcttctataccAgcaagcccgactccacgatc	15	6	6	14	2	1	0	0	0	1	0	3	2	2	0	3	0	5	3	3	0	6	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:237919622A>G	uc001hyl.1	+	81	11300	c.11180A>G	c.(11179-11181)CAG>CGG	p.Q3727R	RYR2_uc010pya.1_Missense_Mutation_p.Q142R	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3727					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CTTCTATACCAGCAAGCCCGA	0.468													9	30					0	0	1	0	0		G	237919622	G	G	237919622	3	3	66	1	0	0	0	0	1	0	0	0	13794	188	7	3	11502	3	RYR2	1	237919622	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	917832	237919622	11330999	135	44211											
FMN2	56776	broad.mit.edu	37	chr1	240255580	240255580	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggagggggcggcggcggCggcggggagtcgggcaagaa	6	1	27	7	6	0	1	0	0	0	1	1	3	0	3	0	11	0	1	0	11	2	0	rs72042337		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:240255580C>T	uc010pyd.1	+	1	396	c.171C>T	c.(169-171)GGC>GGT	p.G57G	FMN2_uc010pye.1_Silent_p.G57G	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	57					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			gcggcggcggcggcggggAGT	0.547													4	4					0	0	1	0	0		T	240255580	T	T	240255580	2	4	66	1	0	0	0	0	0	0	0	1	5964	755	27	1		1	FMN2	1	240255580	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2335958	240255580	8995041	136	44212											
WDR64	128025	broad.mit.edu	37	chr1	241850767	241850767	+	Frame_Shift_Del	DEL	A	-	-																															ttttcttaatccccagtgttAaaaggaagctacataatgac																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:241850767delA	uc001hze.1	+	7	1021	c.814delA	c.(814-816)AAAfs	p.K272fs	WDR64_uc001hzf.1_5'UTR			B1ANS9	WDR64_HUMAN	RecName: Full=WD repeat-containing protein 64;	272										skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			CCCCAGTGTTAAAAGGAAGCT	0.328													18	31	---	---	---	---						.	-	241850767	-	-	241850767	7	5	66	1	0	1	0	1	0	0	0	0	17341	363	13	0	840	0	WDR64	1	241850767	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	1595187	241850767	7399854	137	44213											
SDCCAG8	10806	broad.mit.edu	37	chr1	243480061	243480061	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttttgtgctgacagagaaAgagatgacttgatgtctgca	11	13	11	6	0	1	5	0	3	1	2	1	7	1	5	0	0	2	2	0	0	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:243480061A>G	uc001hzw.2	+	9	1090	c.934A>G	c.(934-936)AGA>GGA	p.R312G	SDCCAG8_uc010pyk.1_Missense_Mutation_p.R167G|SDCCAG8_uc010pyl.1_Missense_Mutation_p.R124G|SDCCAG8_uc001hzx.2_Missense_Mutation_p.R124G	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	312	Sufficient for homodimerization (By similarity).				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		TGACAGAGAAAGAGATGACTT	0.398													14	37					0	0	1	0	0		G	243480061	G	G	243480061	3	3	66	1	0	0	0	0	1	0	0	0	13984	64	3	3	968	3	SDCCAG8	1	243480061	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1629294	243480061	5770560	138	44214											
KIF26B	55083	broad.mit.edu	37	chr1	245850088	245850088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgagcctggatgagaaggCccaggacgcagggagcagac	12	3	17	9	1	0	3	0	2	0	2	0	8	0	6	2	4	2	2	2	4	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:245850088C>T	uc001ibf.1	+	12	4243	c.3803C>T	c.(3802-3804)GCC>GTC	p.A1268V	KIF26B_uc001ibg.1_Missense_Mutation_p.A886V|KIF26B_uc001ibh.1_Missense_Mutation_p.A510V	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1268					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			GATGAGAAGGCCCAGGACGCA	0.622													13	15					0	0	1	0	0		T	245850088	T	T	245850088	3	4	66	1	0	0	0	0	1	0	0	0	8311	739	26	2	3849	2	KIF26B	1	245850088	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2370027	245850088	3400533	139	44215											
OR2G2	81470	broad.mit.edu	37	chr1	247752385	247752385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggagacagaaagcattcGggacctgcttctcccacctg	10	7	10	14	1	1	2	0	0	1	2	3	4	1	3	4	2	2	2	4	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:247752385G>A	uc010pyy.1	+	1	724	c.724G>A	c.(724-726)GGG>AGG	p.G242R		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			GAAAGCATTCGGGACCTGCTT	0.403													34	58					0	0	1	0	0		A	247752385	A	A	247752385	3	1	66	1	0	0	0	0	1	0	0	0	11017	1116	39	1	726	1	OR2G2	1	247752385	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1902297	247752385	1498236	140	44216											
OR14C36	127066	broad.mit.edu	37	chr1	248512486	248512486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgtgatcgtgaactctcGaatctgcatccagatgacac	10	10	8	13	2	2	4	0	3	2	1	5	5	3	4	2	0	2	1	2	0	2	0	rs142744958		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr1:248512486G>A	uc010pzl.1	+	1	410	c.410G>A	c.(409-411)CGA>CAA	p.R137Q		NM_001001918	NP_001001918	Q8NHC7	O14CZ_HUMAN	olfactory receptor, family 14, subfamily C,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GTGAACTCTCGAATCTGCATC	0.512													18	47					0	0	1	0	0		A	248512486	A	A	248512486	3	1	66	1	0	0	0	0	1	0	0	0	10965	1058	37	1	412	1	OR14C36	1	248512486	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	760101	248512486	738135	141	44217											
PXDN	7837	broad.mit.edu	37	chr2	1652304	1652304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggaagttctcgtccagcCggtaaagcagtgggttgaca	9	9	14	9	2	1	1	0	1	1	0	3	2	2	2	2	3	2	5	2	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:1652304C>T	uc002qxa.2	-	17	3312	c.3248G>A	c.(3247-3249)CGG>CAG	p.R1083Q		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1083					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CTCGTCCAGCCGGTAAAGCAG	0.577													10	23					0	0	1	0	0		T	1652304	T	T	1652304	3	4	66	1	0	0	0	0	1	0	0	0	12872	652	23	1	1219	1	PXDN	2	1652304	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08		1652304	241547069	142	44218											
RNASEH1	246243	broad.mit.edu	37	chr2	3604479	3604479	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaaaccggtccacctgTgctctgcactcattcctgga	8	9	10	14	1	2	0	1	0	1	0	4	2	4	2	4	3	3	3	4	3	1	1	rs76089149		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:3604479T>C	uc002qxt.2	-	2	234	c.144A>G	c.(142-144)GCA>GCG	p.A48A	RNASEH1_uc002qxs.2_5'UTR|uc002qxu.2_5'Flank|uc002qxv.2_5'Flank	NM_002936	NP_002927	O60930	RNH1_HUMAN	ribonuclease H1	48					RNA catabolic process	cytoplasm	magnesium ion binding|ribonuclease H activity|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.0713)|Epithelial(75;0.167)|all cancers(51;0.22)		GGTCCACCTGTGCTCTGCACT	0.438													12	35					0	0	1	0	0		C	3604479	C	C	3604479	2	2	66	1	0	0	0	0	0	0	0	1	13436	1683	59	3		3	RNASEH1	2	3604479	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1952175	3604479	239594894	143	44219											
CMPK2	129607	broad.mit.edu	37	chr2	7001506	7001506	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccactgactgggtcacCgtggttttacctgcaggtca	6	12	11	12	1	3	1	2	1	1	0	3	1	3	1	3	3	3	2	3	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:7001506C>T	uc002qyo.2	-	3	910	c.801G>A	c.(799-801)ACG>ACA	p.T267T	CMPK2_uc010yis.1_Silent_p.T267T|CMPK2_uc010ewv.2_Silent_p.T267T	NM_207315	NP_997198	Q5EBM0	CMPK2_HUMAN	UMP-CMP kinase 2 precursor	267					dTDP biosynthetic process	mitochondrion	ATP binding|cytidylate kinase activity|thymidylate kinase activity|UMP kinase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					ACTGGGTCACCGTGGTTTTAC	0.448													8	19					0	0	1	0	0		T	7001506	T	T	7001506	2	4	66	1	0	0	0	0	0	0	0	1	3584	639	23	1		1	CMPK2	2	7001506	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3397027	7001506	236197867	144	44220											
RNF144A	9781	broad.mit.edu	37	chr2	7179767	7179767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttctttcttccaggttgtggGcatttttgcaggatttgggc	4	18	12	7	0	2	0	0	0	2	0	3	1	3	1	1	4	1	3	1	4	0	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:7179767G>A	uc002qys.2	+	9	1197	c.755G>A	c.(754-756)GGC>GAC	p.G252D	RNF144A_uc002qyt.2_Missense_Mutation_p.G101D	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	252	Helical; (Potential).					Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		CAGGTTGTGGGCATTTTTGCA	0.483													36	96					0	0	1	0	0		A	7179767	A	A	7179767	3	1	66	1	0	0	0	0	1	0	0	0	13470	1203	42	2	781	2	RNF144A	2	7179767	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	178261	7179767	236019606	145	44221											
ATP6V1C2	245973	broad.mit.edu	37	chr2	10908853	10908853	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcccaaaacagcaactggcGcagatcgagatggacctgaa	14	6	10	11	2	0	3	0	1	0	2	2	5	1	4	2	2	3	2	2	2	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:10908853G>A	uc002ras.2	+	6	496	c.387G>A	c.(385-387)GCG>GCA	p.A129A	ATP6V1C2_uc002rat.2_Silent_p.A129A	NM_001039362	NP_001034451	Q8NEY4	VATC2_HUMAN	vacuolar H+ ATPase C2 isoform a	129					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.15)|OV - Ovarian serous cystadenocarcinoma(76;0.152)		AGCAACTGGCGCAGATCGAGA	0.498													13	33					0	0	1	0	0		A	10908853	A	A	10908853	2	1	66	1	0	0	0	0	0	0	0	1	1182	1074	38	1		1	ATP6V1C2	2	10908853	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3729086	10908853	232290520	146	44222											
GREB1	9687	broad.mit.edu	37	chr2	11750856	11750856	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgatcaggacctttgttctCgtgcagcactacgcggccgc	6	10	12	13	4	2	1	1	1	1	0	3	2	2	2	2	2	3	3	2	2	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:11750856C>T	uc002rbk.1	+	18	3009	c.2709C>T	c.(2707-2709)CTC>CTT	p.L903L	GREB1_uc002rbo.1_Silent_p.L537L|GREB1_uc002rbp.1_5'Flank	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	903						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		CCTTTGTTCTCGTGCAGCACT	0.637													17	40					0	0	1	0	0		T	11750856	T	T	11750856	2	4	66	1	0	0	0	0	0	0	0	1	6776	871	31	1		1	GREB1	2	11750856	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	842003	11750856	231448517	147	44223											
RAD51AP2	729475	broad.mit.edu	37	chr2	17699325	17699326	+	Frame_Shift_Ins	INS	-	G	G																															tcagaatcaggactttgtgaINSggggggagactgcaaacagc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:17699325_17699326insG	uc002rcl.1	-	1	381_382	c.357_358insC	c.(355-360)CCCTCAfs	p.P119fs	RAD51AP2_uc010exn.1_Frame_Shift_Ins_p.P110fs	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	119_120										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GGACTTTGTGAGGGGGGAGACT	0.48													25	46	---	---	---	---						.	G	17699326	G	G	17699325	7	5	66	1	0	1	1	0	0	0	0	0	13012	304	11	0	3133	0	RAD51AP2	2	17699325	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	5948469	17699325	225500048	148	44224											
MSGN1	343930	broad.mit.edu	37	chr2	17997882	17997882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgggactggaaggacaggGcagggccctttgagctgaat	9	7	16	9	0	0	2	0	2	0	0	0	5	0	5	2	5	1	2	2	5	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:17997882G>A	uc010yjt.1	+	1	97	c.97G>A	c.(97-99)GCA>ACA	p.A33T		NM_001105569	NP_001099039	A6NI15	MSGN1_HUMAN	mesogenin 1	33					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GAAGGACAGGGCAGGGCCCTT	0.612													18	41					0	0	1	0	0		A	17997882	A	A	17997882	3	1	66	1	0	0	0	0	1	0	0	0	9887	1203	42	2	99	2	MSGN1	2	17997882	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	298557	17997882	225201491	149	44225											
HS1BP3	64342	broad.mit.edu	37	chr2	20845118	20845118	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagaactggacgacatcCtcgggcctgtgcttggccga	9	7	12	13	3	0	1	0	0	0	1	2	4	1	2	4	3	2	1	4	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:20845118C>A	uc002rdw.1	-	2	221	c.180G>T	c.(178-180)GAG>GAT	p.E60D	HS1BP3_uc002rdx.2_Missense_Mutation_p.E60D|HS1BP3_uc002rdy.2_Missense_Mutation_p.E60D	NM_022460	NP_071905	Q53T59	H1BP3_HUMAN	HCLS1 binding protein 3	60	PX.				cell communication		phosphatidylinositol binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGACGACATCCTCGGGCCTGT	0.632													15	45					3.27435e-08	3.40147e-08	1	1	0		A	20845118	A	A	20845118	3	1	66	1	0	0	0	0	1	0	0	0	7377	680	24	5	1022	5	HS1BP3	2	20845118	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2847236	20845118	222354255	150	44226											
DNMT3A	1788	broad.mit.edu	37	chr2	25523009	25523009	+	Frame_Shift_Del	DEL	G	-	-																															tgtaggatgtgacactcaccGgggggtgcttgcgcttcctc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:25523009delG	uc002rgc.2	-	3	433	c.176delC	c.(175-177)CCGfs	p.P59fs	DNMT3A_uc002rgd.2_Frame_Shift_Del_p.P59fs|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rge.2_Frame_Shift_Del_p.P56fs|DNMT3A_uc002rgf.2_Frame_Shift_Del_p.P59fs	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	59					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GACACTCACCGGGGGGTGCTT	0.647			Mis|F|N|S		AML								20	15	---	---	---	---						.	-	25523009	-	-	25523009	7	5	66	1	0	1	0	1	0	0	0	0	4682	1130	39	0	2779	0	DNMT3A	2	25523009	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	4677891	25523009	217676364	151	44227											
EPT1	85465	broad.mit.edu	37	chr2	26597961	26597961	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggagttgaggcctggtaTgaacctttcctgtttaattt	7	16	12	6	0	0	2	0	2	0	0	1	3	1	3	3	3	1	3	3	3	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:26597961T>C	uc010ykz.1	+	6	774	c.627T>C	c.(625-627)TAT>TAC	p.Y209Y	EPT1_uc010eyl.1_RNA	NM_033505	NP_277040	Q9C0D9	EPT1_HUMAN	selenoprotein I	209					phospholipid biosynthetic process	integral to membrane	ethanolaminephosphotransferase activity|metal ion binding				0						AGGCCTGGTATGAACCTTTCC	0.378													48	116					0	0	1	0	0		C	26597961	C	C	26597961	2	2	66	1	0	0	0	0	0	0	0	1	5207	1471	51	3		3	EPT1	2	26597961	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1074952	26597961	216601412	152	44228											
KCNK3	3777	broad.mit.edu	37	chr2	26950927	26950927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacgtggccttcagcttcGtctacatccttacgggcctc	6	12	9	14	3	2	0	1	0	1	0	5	0	3	0	3	2	4	2	3	2	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:26950927G>A	uc002rhn.2	+	2	839	c.676G>A	c.(676-678)GTC>ATC	p.V226I		NM_002246	NP_002237	O14649	KCNK3_HUMAN	potassium channel, subfamily K, member 3	226	Helical; (Potential).				synaptic transmission	integral to plasma membrane				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTCAGCTTCGTCTACATCCT	0.632													8	18					0	0	1	0	0		A	26950927	A	A	26950927	3	1	66	1	0	0	0	0	1	0	0	0	8083	1145	40	1	682	1	KCNK3	2	26950927	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	352966	26950927	216248446	153	44229											
SLC5A6	8884	broad.mit.edu	37	chr2	27424662	27424662	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgctggtcacgatgctcccGatgccaatccagaaggccat	10	8	10	13	2	1	1	1	0	0	1	3	3	3	1	4	2	3	2	4	2	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:27424662G>A	uc002rjd.2	-	14	1807	c.1416C>T	c.(1414-1416)ATC>ATT	p.I472I	SLC5A6_uc010eyv.1_Silent_p.I472I	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	472	Helical; (Potential).				biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	CGATGCTCCCGATGCCAATCC	0.617													16	23					0	0	1	0	0		A	27424662	A	A	27424662	2	1	66	1	0	0	0	0	0	0	0	1	14694	1048	37	1		1	SLC5A6	2	27424662	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	473735	27424662	215774711	154	44230											
IFT172	26160	broad.mit.edu	37	chr2	27683894	27683894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctagtacctttcatgaatgCgttgcctttacggtagcact	8	14	9	10	2	1	1	1	1	0	0	1	1	1	1	2	1	5	5	2	1	5	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:27683894C>T	uc002rku.2	-	23	2560	c.2509G>A	c.(2509-2511)GCA>ACA	p.A837T		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	837	TPR 3.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					TTCATGAATGCGTTGCCTTTA	0.428													42	102					0	0	1	0	0		T	27683894	T	T	27683894	3	4	66	1	0	0	0	0	1	0	0	0	7573	768	27	1	2844	1	IFT172	2	27683894	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	259232	27683894	215515479	155	44231											
ZNF512	84450	broad.mit.edu	37	chr2	27821012	27821012	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactccttaagtggttcatcGtctgcatcttcgtgtgaacc	7	14	9	11	2	3	1	1	1	2	0	6	2	4	1	2	1	2	2	2	1	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:27821012G>A	uc002rla.2	+	3	255	c.168G>A	c.(166-168)TCG>TCA	p.S56S	ZNF512_uc010ylv.1_5'UTR|ZNF512_uc010ylw.1_Silent_p.S55S|ZNF512_uc002rlb.2_5'UTR|ZNF512_uc010ylx.1_5'UTR|ZNF512_uc002rlc.2_5'UTR|ZNF512_uc010yly.1_RNA|ZNF512_uc010ylz.1_5'UTR	NM_032434	NP_115810	Q96ME7	ZN512_HUMAN	zinc finger protein 512	56					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					GTGGTTCATCGTCTGCATCTT	0.408													33	75					0	0	1	0	0		A	27821012	A	A	27821012	2	1	66	1	0	0	0	0	0	0	0	1	17981	1132	40	1		1	ZNF512	2	27821012	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	137118	27821012	215378361	156	44232											
CLIP4	79745	broad.mit.edu	37	chr2	29358489	29358489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacaacttgtgtgcaggtgCtgtgaagtgcctcttggagc	8	12	13	8	0	1	1	0	1	1	0	1	2	1	2	1	2	6	2	1	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:29358489C>T	uc002rmv.2	+	6	844	c.605C>T	c.(604-606)GCT>GTT	p.A202V	CLIP4_uc002rmu.2_Missense_Mutation_p.A202V|CLIP4_uc010ezm.1_Missense_Mutation_p.A202V|CLIP4_uc002rmw.2_RNA|CLIP4_uc010ymn.1_Missense_Mutation_p.A184V	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	202	ANK 3.									ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TGTGCAGGTGCTGTGAAGTGC	0.353													19	41					0	0	1	0	0		T	29358489	T	T	29358489	3	4	66	1	0	0	0	0	1	0	0	0	3538	797	28	2	623	2	CLIP4	2	29358489	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1537477	29358489	213840884	157	44233											
ALK	238	broad.mit.edu	37	chr2	29446357	29446357	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcagggctctgcagctccatCtgcatggcttgcagctcctg	5	11	11	14	0	3	0	1	0	2	0	5	0	5	0	2	2	5	7	2	2	0	1	rs138178848		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:29446357C>T	uc002rmy.2	-	20	4117	c.3210G>A	c.(3208-3210)CAG>CAA	p.Q1070Q	ALK_uc010ymo.1_Silent_p.Q2Q	NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	1070	Cytoplasmic (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	GCAGCTCCATCTGCATGGCTT	0.597			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				7	18					0	0	1	0	0		T	29446357	T	T	29446357	2	4	66	1	0	0	0	0	0	0	0	1	525	912	32	4		4	ALK	2	29446357	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	87868	29446357	213753016	158	44234											
LCLAT1	253558	broad.mit.edu	37	chr2	30682532	30682532	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaacccatggtcaattaaCgaggcagtttctagctactg	11	11	9	10	1	2	1	1	1	1	0	2	2	2	1	1	2	4	3	1	2	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:30682532C>T	uc002rnj.2	+	2	263	c.54C>T	c.(52-54)AAC>AAT	p.N18N	LCLAT1_uc010ymp.1_Intron|LCLAT1_uc002rnk.1_Silent_p.N18N|LCLAT1_uc002rnl.2_Intron|LCLAT1_uc010ymq.1_Translation_Start_Site	NM_182551	NP_872357	Q6UWP7	LCLT1_HUMAN	lysocardiolipin acyltransferase 1 isoform 1	18					multicellular organismal development|phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			ovary(2)	2						GGTCAATTAACGAGGCAGTTT	0.428													44	137					0	0	1	0	0		T	30682532	T	T	30682532	2	4	66	1	0	0	0	0	0	0	0	1	8693	535	19	1		1	LCLAT1	2	30682532	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1236175	30682532	212516841	159	44235											
NLRC4	58484	broad.mit.edu	37	chr2	32476259	32476259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgtctgcttcctgattgtgCcaggtatatccaggagttga	8	14	11	8	0	1	2	0	2	1	0	3	3	3	3	3	2	2	3	3	2	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:32476259C>T	uc002roi.2	-	4	920	c.674G>A	c.(673-675)GGC>GAC	p.G225D	NLRC4_uc002roj.1_Missense_Mutation_p.G225D|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	225	NACHT.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					CCTGATTGTGCCAGGTATATC	0.502													25	50					0	0	1	0	0		T	32476259	T	T	32476259	3	4	66	1	0	0	0	0	1	0	0	0	10488	739	26	2	2424	2	NLRC4	2	32476259	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1793727	32476259	210723114	160	44236											
LTBP1	4052	broad.mit.edu	37	chr2	33359928	33359928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtaaagtgacctgcaccaagGgcagctgtcagaacagctgt	12	7	12	10	0	1	2	1	1	0	1	1	2	1	2	2	1	4	5	2	1	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:33359928G>A	uc002ros.2	+	5	1102	c.1102G>A	c.(1102-1104)GGC>AGC	p.G368S	LTBP1_uc002rot.2_Missense_Mutation_p.G42S|LTBP1_uc002rou.2_Missense_Mutation_p.G42S|LTBP1_uc002rov.2_Missense_Mutation_p.G42S|LTBP1_uc010ymz.1_Missense_Mutation_p.G42S|LTBP1_uc010yna.1_Missense_Mutation_p.G42S	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	368					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CTGCACCAAGGGCAGCTGTCA	0.547													29	36					0	0	1	0	0		A	33359928	A	A	33359928	3	1	66	1	0	0	0	0	1	0	0	0	9091	1232	43	4	1175	4	LTBP1	2	33359928	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	883669	33359928	209839445	161	44237											
LTBP1	4052	broad.mit.edu	37	chr2	33488371	33488371	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcatatagtagtgattgaAaaaacatcacctcctgtgcc	13	11	6	11	0	2	2	2	2	0	0	3	2	3	2	4	0	2	1	4	0	6	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:33488371A>G	uc002ros.2	+	15	2532	c.2532A>G	c.(2530-2532)GAA>GAG	p.E844E	LTBP1_uc002rot.2_Silent_p.E518E|LTBP1_uc002rou.2_Silent_p.E517E|LTBP1_uc002rov.2_Silent_p.E464E|LTBP1_uc010ymz.1_Silent_p.E517E|LTBP1_uc010yna.1_Silent_p.E464E	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	843					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				TAGTGATTGAAAAAACATCAC	0.413													33	92					0	0	1	0	0		G	33488371	G	G	33488371	2	3	66	1	0	0	0	0	0	0	0	1	9091	11	1	3		3	LTBP1	2	33488371	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	128443	33488371	209711002	162	44238											
HEATR5B	54497	broad.mit.edu	37	chr2	37297376	37297376	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatacgtgttacaaacctgCgtaactccaactctcacttc	12	11	4	14	2	1	0	1	0	1	0	4	0	2	0	2	0	6	2	2	0	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:37297376C>T	uc002rpp.1	-	7	1020	c.924G>A	c.(922-924)ACG>ACA	p.T308T		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	308							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				TACAAACCTGCGTAACTCCAA	0.294													49	120					0	0	1	0	0		T	37297376	T	T	37297376	2	4	66	1	0	0	0	0	0	0	0	1	7048	755	27	1		1	HEATR5B	2	37297376	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3809005	37297376	205901997	163	44239											
ZFP36L2	678	broad.mit.edu	37	chr2	43452512	43452512	+	Frame_Shift_Del	DEL	C	-	-																															agttgatctgggagccgccgCcccccttctgctgctgctgc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:43452512delC	uc002rsv.3	-	2	722	c.431delG	c.(430-432)GGCfs	p.G144fs	LOC100129726_uc010ynx.1_5'Flank	NM_006887	NP_008818	P47974	TISD_HUMAN	zinc finger protein 36, C3H type-like 2	144	Poly-Gly.				cell proliferation	nucleus	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(82;0.00323)|all_hematologic(82;0.00824)				GGAGCCGCCGCCCCCCTTCTG	0.637													14	17	---	---	---	---						.	-	43452512	-	-	43452512	7	5	66	1	0	1	0	1	0	0	0	0	17672	739	26	0	1057	0	ZFP36L2	2	43452512	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	6155136	43452512	199746861	164	44240											
SRBD1	55133	broad.mit.edu	37	chr2	45778293	45778293	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaattatagctaatttgcaaCcatgtttataaccaggatcc	15	13	5	8	0	0	0	0	0	0	0	1	1	1	1	3	1	4	3	3	1	7	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:45778293C>G	uc002rus.2	-	12	1722	c.1646G>C	c.(1645-1647)GGT>GCT	p.G549A	SRBD1_uc010yoc.1_Missense_Mutation_p.G68A	NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	549					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			TAATTTGCAACCATGTTTATA	0.388													8	30					0	0	1	0	0		G	45778293	G	G	45778293	3	3	66	1	0	0	0	0	1	0	0	0	15158	507	18	5	1381	5	SRBD1	2	45778293	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2325781	45778293	197421080	165	44241											
SRBD1	55133	broad.mit.edu	37	chr2	45801772	45801772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagatactcacaagttcCgaatgaagtcaagcgtgtct	15	9	9	8	2	3	2	2	1	1	1	4	4	4	2	1	0	2	1	1	0	6	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:45801772C>T	uc002rus.2	-	8	1239	c.1163G>A	c.(1162-1164)CGG>CAG	p.R388Q		NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	388					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			TCACAAGTTCCGAATGAAGTC	0.378													23	84					0	0	1	0	0		T	45801772	T	T	45801772	3	4	66	1	0	0	0	0	1	0	0	0	15158	652	23	1	1880	1	SRBD1	2	45801772	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	23479	45801772	197397601	166	44242											
EPAS1	2034	broad.mit.edu	37	chr2	46607459	46607459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccatctgccccgaggagCggctcttggcggagaaccca	7	5	13	16	3	2	1	0	0	2	1	2	4	2	2	5	4	3	1	5	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:46607459C>T	uc002ruv.2	+	12	2136	c.1648C>T	c.(1648-1650)CGG>TGG	p.R550W	EPAS1_uc002ruw.2_Missense_Mutation_p.R16W	NM_001430	NP_001421	Q99814	EPAS1_HUMAN	endothelial PAS domain protein 1	550					angiogenesis|myoblast cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|response to hypoxia	transcription factor complex	histone acetyltransferase binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription coactivator activity|transcription factor binding			ovary(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	LUSC - Lung squamous cell carcinoma(58;0.151)			CCCCGAGGAGCGGCTCTTGGC	0.602													21	62					0	0	1	0	0		T	46607459	T	T	46607459	3	4	66	1	0	0	0	0	1	0	0	0	5158	759	27	1	1694	1	EPAS1	2	46607459	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	805687	46607459	196591914	167	44243											
FSHR	2492	broad.mit.edu	37	chr2	49216165	49216165	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagaatttctttcaattgTgtggatgtttatgttatctt	10	20	8	3	0	3	1	1	0	2	1	3	3	3	2	0	1	0	2	0	1	5	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:49216165T>A	uc002rww.2	-	6	549	c.475A>T	c.(475-477)ACA>TCA	p.T159S	FSHR_uc002rwx.2_Missense_Mutation_p.T159S|FSHR_uc010fbn.2_Intron|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	159	LRR 5.|Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	CTTTCAATTGTGTGGATGTTT	0.328									Gonadal_Dysgenesis_46_XX				10	20					0	0	1	0	0		A	49216165	A	A	49216165	3	1	66	1	0	0	0	0	1	0	0	0	6087	1696	59	5	1632	5	FSHR	2	49216165	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2608706	49216165	193983208	168	44244											
PSME4	23198	broad.mit.edu	37	chr2	54128645	54128645	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatacagtcccaatcatgaaGgtttgccaagcacacaccac	15	7	6	13	0	1	1	1	1	0	0	2	1	2	1	3	1	3	2	3	1	5	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:54128645G>T	uc002rxp.2	-	28	3183	c.3127C>A	c.(3127-3129)CTT>ATT	p.L1043I	PSME4_uc010yop.1_Missense_Mutation_p.L929I|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Missense_Mutation_p.L418I|PSME4_uc010fbv.1_Missense_Mutation_p.L187I	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	1043					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			CAATCATGAAGGTTTGCCAAG	0.428													15	101					1.02788e-11	1.08632e-11	1	1	0		T	54128645	T	T	54128645	3	4	66	1	0	0	0	0	1	0	0	0	12731	1000	35	5	2480	5	PSME4	2	54128645	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4912480	54128645	189070728	169	44245											
USP34	9736	broad.mit.edu	37	chr2	61508272	61508272	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaagaaatttcaataatgTtgaggcagccaatagcagaa	18	8	10	5	0	1	3	1	1	0	2	1	4	1	4	1	2	2	3	1	2	7	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:61508272T>C	uc002sbe.2	-	38	5126	c.5104A>G	c.(5104-5106)ACA>GCA	p.T1702A	USP34_uc002sbf.2_5'Flank	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	1702					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TTCAATAATGTTGAGGCAGCC	0.393													14	19					0	0	1	0	0		C	61508272	C	C	61508272	3	2	66	1	0	0	0	0	1	0	0	0	17091	1725	60	3	5708	3	USP34	2	61508272	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	7379627	61508272	181691101	170	44246											
USP34	9736	broad.mit.edu	37	chr2	61515896	61515896	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggccaggttcttttcctatgGctttccgctataccagacca	7	13	8	13	1	1	1	0	0	1	1	3	1	3	1	5	3	1	3	5	3	3	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:61515896G>A	uc002sbe.2	-	34	4687	c.4665C>T	c.(4663-4665)AGC>AGT	p.S1555S		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	1555					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TTTTCCTATGGCTTTCCGCTA	0.433													34	75					0	0	1	0	0		A	61515896	A	A	61515896	2	1	66	1	0	0	0	0	0	0	0	1	17091	1194	42	2		2	USP34	2	61515896	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	7624	61515896	181683477	171	44247											
APLF	200558	broad.mit.edu	37	chr2	68765314	68765314	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctacaaggttctgaaggaaAcaaggtcaagaggacatcct	15	8	10	8	0	3	2	1	1	2	1	4	4	4	4	1	4	2	1	1	4	6	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:68765314A>G	uc002sep.2	+	7	1288	c.1115A>G	c.(1114-1116)AAC>AGC	p.N372S	APLF_uc002seq.1_RNA|APLF_uc010fdf.2_Missense_Mutation_p.N348S|APLF_uc002ser.1_Missense_Mutation_p.N103S	NM_173545	NP_775816	Q8IW19	APLF_HUMAN	aprataxin and PNKP like factor	372					double-strand break repair|single strand break repair	cytosol|nucleus	3'-5' exonuclease activity|DNA-(apurinic or apyrimidinic site) lyase activity|endodeoxyribonuclease activity|metal ion binding|nucleotide binding|protein binding			ovary(2)	2						TCTGAAGGAAACAAGGTCAAG	0.403													21	44					0	0	1	0	0		G	68765314	G	G	68765314	3	3	66	1	0	0	0	0	1	0	0	0	776	43	2	3	1141	3	APLF	2	68765314	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	7249418	68765314	174434059	172	44248											
SNRNP27	11017	broad.mit.edu	37	chr2	70131385	70131385	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aattttctcttctcatcataGgcagtacatgaatcgaaaag	14	13	6	8	1	3	1	2	1	2	0	6	2	3	1	0	1	1	2	0	1	6	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:70131385G>A	uc002sfw.2	+	6	441	c.414_splice	c.e6-1	p.R138_splice	SNRNP27_uc002sfv.2_Splice_Site|SNRNP27_uc002sfx.2_Splice_Site_p.A117_splice	NM_006857	NP_006848	Q8WVK2	SNR27_HUMAN	small nuclear ribonucleoprotein 27kDa						mRNA processing|RNA splicing	nucleus	nucleic acid binding				0						TCTCATCATAGGCAGTACATG	0.318													29	60					0	0	1	0	0		A	70131385	A	A	70131385	5	1	66	1	0	0	0	0	0	0	1	0	14879	1014	35	4	435	4	SNRNP27	2	70131385	Splice_Site	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1366071	70131385	173067988	173	44249											
MXD1	4084	broad.mit.edu	37	chr2	70164405	70164405	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaaagccgttcaccaaatCgaccagcttcagcgagagca	15	5	9	12	3	2	2	2	0	0	2	3	4	2	2	3	0	4	3	3	0	3	2	rs141349752	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:70164405C>T	uc002sfy.2	+	5	617	c.357C>T	c.(355-357)ATC>ATT	p.I119I	MXD1_uc010yqp.1_Silent_p.I119I|MXD1_uc010yqq.1_Silent_p.I56I|MXD1_uc010yqr.1_RNA|MXD1_uc010yqs.1_Silent_p.I109I	NM_002357	NP_002348	Q05195	MAD1_HUMAN	MAX dimerization protein 1	119					cell proliferation|multicellular organismal development	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						TTCACCAAATCGACCAGCTTC	0.557													36	66					0	0	1	0	0		T	70164405	T	T	70164405	2	4	66	1	0	0	0	0	0	0	0	1	10017	874	31	1		1	MXD1	2	70164405	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	33020	70164405	173034968	174	44250											
C2orf42	54980	broad.mit.edu	37	chr2	70402837	70402837	+	Frame_Shift_Del	DEL	T	-	-																															acgaggaagcaaccacaggcTttttcaggccacttttcctt																								rs140054933		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:70402837delT	uc002sgh.2	-	5	1335	c.1007delA	c.(1006-1008)AAGfs	p.K336fs		NM_017880	NP_060350	Q9NWW7	CB042_HUMAN	hypothetical protein LOC54980	336											0						AACCACAGGCTTTTTCAGGCC	0.438													100	211	---	---	---	---						.	-	70402837	-	-	70402837	7	5	66	1	0	1	0	1	0	0	0	0	2169	1609	56	0	741	0	C2orf42	2	70402837	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	238432	70402837	172796536	175	44251											
ZNF638	27332	broad.mit.edu	37	chr2	71633328	71633328	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagatggacttcagtgtgTactttgtgttggacttcagt	8	15	13	5	0	2	1	2	0	0	1	2	4	2	4	0	3	1	2	0	3	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:71633328T>C	uc002shx.2	+	19	3390	c.3071T>C	c.(3070-3072)GTA>GCA	p.V1024A	ZNF638_uc010yqw.1_Missense_Mutation_p.V603A|ZNF638_uc002shy.2_Missense_Mutation_p.V1024A|ZNF638_uc002shz.2_Missense_Mutation_p.V1024A|ZNF638_uc002sia.2_Missense_Mutation_p.V1024A|ZNF638_uc002sib.1_Missense_Mutation_p.V1024A|ZNF638_uc010fed.2_RNA|ZNF638_uc002sic.2_Missense_Mutation_p.V121A	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1024					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						CTTCAGTGTGTACTTTGTGTT	0.338													26	65					0	0	1	0	0		C	71633328	C	C	71633328	3	2	66	1	0	0	0	0	1	0	0	0	18080	1638	57	3	3141	3	ZNF638	2	71633328	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1230491	71633328	171566045	176	44252											
INO80B	83444	broad.mit.edu	37	chr2	74683252	74683252	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacagtaatctctctccCtctccacttcgggacctatc	9	11	6	15	1	3	1	0	0	3	1	8	3	3	2	3	1	0	1	3	1	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:74683252C>A	uc002slg.2	+	4	438	c.393C>A	c.(391-393)CCC>CCA	p.P131P	INO80B_uc002slf.1_Silent_p.P118P|INO80B_uc010yrr.1_Intron|WBP1_uc002slh.1_RNA|INO80B_uc002sli.1_RNA|INO80B_uc010yrs.1_Silent_p.P149P|WBP1_uc002slj.1_5'Flank|WBP1_uc002slk.1_5'Flank|WBP1_uc002sll.1_5'Flank	NM_031288	NP_112578	Q9C086	IN80B_HUMAN	high mobility group AT-hook 1-like 4	131					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex|nucleolus	metal ion binding|protein binding			pancreas(1)	1						ATCTCTCTCCCTCTCCACTTC	0.512													15	30					1.49906e-05	1.53202e-05	1	1	0		A	74683252	A	A	74683252	2	1	66	1	0	0	0	0	0	0	0	1	7763	668	24	5		5	INO80B	2	74683252	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3049924	74683252	168516121	177	44253											
IMMT	10989	broad.mit.edu	37	chr2	86386713	86386713	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgaagtttaccctctgcAgcagttatatgaggcttggc	8	14	11	8	0	1	2	0	2	1	0	1	2	1	2	1	2	3	5	1	2	4	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:86386713A>G	uc002sqz.3	-	9	1366	c.978T>C	c.(976-978)GCT>GCC	p.A326A	IMMT_uc002sqy.3_Silent_p.A67A|IMMT_uc002srb.3_Silent_p.A315A|IMMT_uc002sra.3_Silent_p.A325A|IMMT_uc010ytd.1_Silent_p.A314A|IMMT_uc010yte.1_Silent_p.A279A|IMMT_uc002src.1_Silent_p.A67A|IMMT_uc002srd.2_Silent_p.A326A|IMMT_uc002sre.3_Silent_p.A314A|IMMT_uc010ytf.1_Silent_p.A248A|IMMT_uc010fgs.1_Silent_p.A323A	NM_006839	NP_006830	Q16891	IMMT_HUMAN	inner membrane protein, mitochondrial isoform 1	326	Mitochondrial intermembrane (Potential).					integral to mitochondrial inner membrane	protein binding			skin(1)	1						TACCCTCTGCAGCAGTTATAT	0.338													11	24					0	0	1	0	0		G	86386713	G	G	86386713	2	3	66	1	0	0	0	0	0	0	0	1	7734	175	7	3		3	IMMT	2	86386713	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	11703461	86386713	156812660	178	44254											
THNSL2	55258	broad.mit.edu	37	chr2	88474159	88474159	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccccactaccctcacagaTctgatcgaccgagccttcag	10	7	6	18	2	3	2	2	1	1	1	4	4	3	2	5	0	2	0	5	0	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:88474159T>C	uc002ssz.3	+	3	378	c.225T>C	c.(223-225)GAT>GAC	p.D75D	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_Silent_p.D75D|THNSL2_uc002ssx.3_Silent_p.D43D|THNSL2_uc002sta.3_Intron|THNSL2_uc002ssy.3_Silent_p.D75D|THNSL2_uc010fhe.2_5'UTR	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	75					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						CCCTCACAGATCTGATCGACC	0.517													15	45					0	0	1	0	0		C	88474159	C	C	88474159	2	2	66	1	0	0	0	0	0	0	0	1	15888	1449	50	3		3	THNSL2	2	88474159	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2087446	88474159	154725214	179	44255											
MRPS5	64969	broad.mit.edu	37	chr2	95766226	95766226	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttttaaagttacctttgggTtgtttcttcatcttgatatg	7	21	8	5	0	3	1	1	1	2	0	3	1	3	1	1	1	1	4	1	1	4	9			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:95766226T>C	uc002sub.2	-	10	1142	c.924A>G	c.(922-924)CAA>CAG	p.Q308Q	MRPS5_uc002suc.2_RNA	NM_031902	NP_114108	P82675	RT05_HUMAN	mitochondrial ribosomal protein S5	308					translation	mitochondrion|ribosome	protein binding|RNA binding|structural constituent of ribosome			ovary(2)|central_nervous_system(1)	3						TACCTTTGGGTTGTTTCTTCA	0.323													8	31					0	0	1	0	0		C	95766226	C	C	95766226	2	2	66	1	0	0	0	0	0	0	0	1	9864	1722	60	3		3	MRPS5	2	95766226	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	7292067	95766226	147433147	180	44256											
ADRA2B	151	broad.mit.edu	37	chr2	96780880	96780880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccaggagcacctggccacGtagggtggccagcacccggg	7	3	16	15	2	0	0	0	0	0	0	0	1	0	1	5	5	2	3	5	5	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:96780880G>A	uc002svi.2	-	3	1018	c.1018C>T	c.(1018-1020)CGT>TGT	p.R340C		NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor	340	Cytoplasmic (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	ACCTGGCCACGTAGGGTGGCC	0.662													7	1					0	0	1	0	0		A	96780880	A	A	96780880	3	1	66	1	0	0	0	0	1	0	0	0	338	1145	40	1	338	1	ADRA2B	2	96780880	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1014654	96780880	146418493	181	44257											
ANKRD36	375248	broad.mit.edu	37	chr2	97866080	97866080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttttcagtgtcttctcGgaaaaaaccatccttggagg	9	14	9	9	1	3	0	1	0	2	0	5	2	4	2	2	3	2	1	2	3	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:97866080G>A	uc010yva.1	+	45	3009	c.2765G>A	c.(2764-2766)CGG>CAG	p.R922Q	ANKRD36_uc002sxo.2_Missense_Mutation_p.R338Q|ANKRD36_uc002sxp.3_RNA|ANKRD36_uc002sxq.1_RNA	NM_001164315	NP_001157787	A6QL64	AN36A_HUMAN	ankyrin repeat domain 36	922											0						GTGTCTTCTCGGAAAAAACCA	0.338													5	53					0	0	1	0	0		A	97866080	A	A	97866080	3	1	66	1	0	0	0	0	1	0	0	0	665	1116	39	1	2943	1	ANKRD36	2	97866080	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1085200	97866080	145333293	182	44258											
ZAP70	7535	broad.mit.edu	37	chr2	98349407	98349407	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatctatgggaagacggtgTaccactacctcatcagccaa	12	9	8	12	1	4	1	3	0	1	1	4	2	4	2	3	2	3	1	3	2	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:98349407T>C	uc002syd.1	+	5	832	c.625T>C	c.(625-627)TAC>CAC	p.Y209H	ZAP70_uc010yvf.1_Missense_Mutation_p.Y209H|ZAP70_uc002sye.1_Missense_Mutation_p.Y99H|ZAP70_uc002syf.1_5'Flank	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	209	SH2 2.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						GAAGACGGTGTACCACTACCT	0.602													9	28					0	0	1	0	0		C	98349407	C	C	98349407	3	2	66	1	0	0	0	0	1	0	0	0	17540	1638	57	3	635	3	ZAP70	2	98349407	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	483327	98349407	144849966	183	44259											
TMEM131	23505	broad.mit.edu	37	chr2	98377288	98377288	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtagccagccgtgactgcaGcaaaagtggggttgccgttc	8	8	14	11	3	0	1	0	1	0	0	1	1	0	1	3	2	5	5	3	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:98377288G>T	uc002syh.3	-	37	5208	c.4979C>A	c.(4978-4980)GCT>GAT	p.A1660D	TMEM131_uc002syg.2_Missense_Mutation_p.A40D	NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1660						integral to membrane				ovary(4)|central_nervous_system(2)	6						CGTGACTGCAGCAAAAGTGGG	0.542													18	47					2.35188e-11	2.48114e-11	1	1	0		T	98377288	T	T	98377288	3	4	66	1	0	0	0	0	1	0	0	0	16069	971	34	5	692	5	TMEM131	2	98377288	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	27881	98377288	144822085	184	44260											
INPP4A	3631	broad.mit.edu	37	chr2	99170738	99170738	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgtgcacctgcagacacGgcagctggtcacggtctgcg	6	9	14	12	3	2	1	1	0	1	1	2	1	2	1	1	3	4	4	1	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:99170738G>T	uc002syy.2	+	16	1760	c.1367G>T	c.(1366-1368)CGG>CTG	p.R456L	INPP4A_uc010yvj.1_Missense_Mutation_p.R456L|INPP4A_uc010yvk.1_Missense_Mutation_p.R456L|INPP4A_uc002syx.2_Missense_Mutation_p.R451L|INPP4A_uc010fik.2_Intron	NM_001134224	NP_001127696	Q96PE3	INP4A_HUMAN	inositol polyphosphate-4-phosphatase, type 1	456					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			kidney(1)	1						CTGCAGACACGGCAGCTGGTC	0.612													3	3					0.004672	0.00470665	1	1	0		T	99170738	T	T	99170738	3	4	66	1	0	0	0	0	1	0	0	0	7768	1116	39	5	1421	5	INPP4A	2	99170738	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	793450	99170738	144028635	185	44261											
CHST10	9486	broad.mit.edu	37	chr2	101009849	101009849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttatacacggtaatgcccGgagggatagtcgggtatgac	10	10	14	7	3	0	1	0	1	0	0	1	3	0	3	1	4	2	3	1	4	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:101009849G>A	uc002tam.2	-	7	1288	c.929C>T	c.(928-930)CCG>CTG	p.P310L		NM_004854	NP_004845	O43529	CHSTA_HUMAN	HNK-1 sulfotransferase	310	Lumenal (Potential).				carbohydrate biosynthetic process|cell adhesion	Golgi membrane|integral to membrane|membrane fraction				ovary(1)	1						GGTAATGCCCGGAGGGATAGT	0.527													19	57					0	0	1	0	0		A	101009849	A	A	101009849	3	1	66	1	0	0	0	0	1	0	0	0	3401	1116	39	1	145	1	CHST10	2	101009849	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1839111	101009849	142189524	186	44262											
RNF149	284996	broad.mit.edu	37	chr2	101924856	101924856	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctccttgggcgagctgtcGccgaagcggccactctccga	5	7	12	17	5	1	0	0	0	1	0	4	3	2	0	5	2	2	1	5	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:101924856G>A	uc002taz.1	-	1	297	c.195C>T	c.(193-195)GGC>GGT	p.G65G	RNF149_uc002tax.1_RNA	NM_173647	NP_775918	Q8NC42	RN149_HUMAN	ring finger protein 149 precursor	65						integral to membrane	ligase activity|zinc ion binding			ovary(1)|breast(1)	2						GCGAGCTGTCGCCGAAGCGGC	0.672													8	25					0	0	1	0	0		A	101924856	A	A	101924856	2	1	66	1	0	0	0	0	0	0	0	1	13475	1074	38	1		1	RNF149	2	101924856	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	915007	101924856	141274517	187	44263											
GPR45	11250	broad.mit.edu	37	chr2	105858508	105858508	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtgtaccagaggccggctAtgcgctcggccatcaacctg	7	8	12	14	4	1	1	1	0	0	1	3	1	1	1	4	3	3	3	4	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:105858508A>G	uc002tco.1	+	1	309	c.193A>G	c.(193-195)ATG>GTG	p.M65V		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	65	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						GAGGCCGGCTATGCGCTCGGC	0.612													37	76					0	0	1	0	0		G	105858508	G	G	105858508	3	3	66	1	0	0	0	0	1	0	0	0	6711	449	16	3	195	3	GPR45	2	105858508	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3933652	105858508	137340865	188	44264											
GPR45	11250	broad.mit.edu	37	chr2	105859310	105859310	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagaatcaaaaaattccGcgaggcctgcatagagttgc	13	8	11	9	2	1	2	1	0	0	2	2	4	2	2	2	2	2	2	2	2	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:105859310G>A	uc002tco.1	+	1	1111	c.995G>A	c.(994-996)CGC>CAC	p.R332H		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	332	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						AAAAAATTCCGCGAGGCCTGC	0.557													34	61					0	0	1	0	0		A	105859310	A	A	105859310	3	1	66	1	0	0	0	0	1	0	0	0	6711	1087	38	1	997	1	GPR45	2	105859310	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	802	105859310	137340063	189	44265											
RANBP2	5903	broad.mit.edu	37	chr2	109389034	109389034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacccttggaagaaaatacaGcaggtatgttaagtgtaaag	16	9	11	5	0	0	1	0	0	0	1	0	3	0	2	1	2	2	4	1	2	8	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:109389034G>A	uc002tem.3	+	22	8236	c.8110G>A	c.(8110-8112)GCA>ACA	p.A2704T		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2704	Required for E3 SUMO-ligase activity.|Interaction with SUMO1.|2 X 50 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						AGAAAATACAGCAGGTATGTT	0.299													22	37					0	0	1	0	0		A	109389034	A	A	109389034	3	1	66	1	0	0	0	0	1	0	0	0	13053	971	34	2	8196	2	RANBP2	2	109389034	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3529724	109389034	133810339	190	44266											
IL1F10	84639	broad.mit.edu	37	chr2	113832828	113832828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaggcttgaggctgctGcctggcctggctggttcctg	2	12	14	13	0	1	1	1	1	0	0	2	1	2	1	4	5	2	5	4	5	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:113832828G>A	uc002tiu.2	+	5	421	c.346G>A	c.(346-348)GCC>ACC	p.A116T	IL1F10_uc002tiv.2_Missense_Mutation_p.A116T|IL1F10_uc002tiw.2_Missense_Mutation_p.A108T	NM_173161	NP_775184	Q8WWZ1	IL1FA_HUMAN	interleukin 1 family, member 10	116						extracellular space	cytokine activity|interleukin-1 receptor antagonist activity			ovary(1)	1						TGAGGCTGCTGCCTGGCCTGG	0.582													14	128					0	0	1	0	0		A	113832828	A	A	113832828	3	1	66	1	0	0	0	0	1	0	0	0	7668	1319	46	2	360	2	IL1F10	2	113832828	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4443794	113832828	129366545	191	44267											
INHBB	3625	broad.mit.edu	37	chr2	121104098	121104098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccctgcgcaagctgcacGcgggcaaggtgcgcgaggac	7	3	17	14	6	0	0	0	0	0	0	0	2	0	1	1	4	4	4	1	4	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:121104098G>A	uc002tmn.2	+	1	380	c.334G>A	c.(334-336)GCG>ACG	p.A112T		NM_002193	NP_002184	P09529	INHBB_HUMAN	inhibin beta B subunit preproprotein	112					activin receptor signaling pathway|cellular response to insulin stimulus|cellular response to starvation|defense response|fat cell differentiation|growth|negative regulation of follicle-stimulating hormone secretion|negative regulation of hepatocyte growth factor biosynthetic process|negative regulation of insulin secretion|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation	extracellular region|perinuclear region of cytoplasm	cytokine activity|growth factor activity|hormone activity|host cell surface receptor binding|protein homodimerization activity			pancreas(2)|skin(1)	3		Prostate(154;0.122)				CAAGCTGCACGCGGGCAAGGT	0.711													4	3					0	0	1	0	0		A	121104098	A	A	121104098	3	1	66	1	0	0	0	0	1	0	0	0	7758	1087	38	1	336	1	INHBB	2	121104098	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	7271270	121104098	122095275	192	44268											
CNTNAP5	129684	broad.mit.edu	37	chr2	125504943	125504943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcagcacttttgcaattgcGacgctgacaaggatgaatgg	11	11	11	8	2	1	2	1	2	0	0	1	4	1	3	0	2	3	3	0	2	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:125504943G>A	uc002tno.2	+	14	2576	c.2212G>A	c.(2212-2214)GAC>AAC	p.D738N	CNTNAP5_uc010flu.2_Missense_Mutation_p.D739N	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	738	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TTGCAATTGCGACGCTGACAA	0.478													36	97					0	0	1	0	0		A	125504943	A	A	125504943	3	1	66	1	0	0	0	0	1	0	0	0	3653	1058	37	1	2266	1	CNTNAP5	2	125504943	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4400845	125504943	117694430	193	44269											
ERCC3	2071	broad.mit.edu	37	chr2	128044555	128044555	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacagcgttttctgacagTgcatgcagcagtcacaccaa	12	8	9	12	1	2	2	1	1	1	1	2	2	2	2	1	0	4	4	1	0	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:128044555T>C	uc002toh.1	-	8	1161	c.1066A>G	c.(1066-1068)ACT>GCT	p.T356A	ERCC3_uc002toe.1_Missense_Mutation_p.T111A|ERCC3_uc002tof.1_Missense_Mutation_p.T292A|ERCC3_uc002tog.1_Missense_Mutation_p.T292A|ERCC3_uc010flx.1_Missense_Mutation_p.T111A	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	356	Helicase ATP-binding.				cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		TTTCTGACAGTGCATGCAGCA	0.527			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				23	33					0	0	1	0	0		C	128044555	C	C	128044555	3	2	66	1	0	0	0	0	1	0	0	0	5222	1696	59	3	1314	3	ERCC3	2	128044555	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2539612	128044555	115154818	194	44270											
WDR33	55339	broad.mit.edu	37	chr2	128471514	128471514	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaaaggccccctctcgggcCcatgctcaggcccgccgctc	5	5	12	19	3	2	0	1	0	1	0	4	1	2	1	5	4	1	2	5	4	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:128471514C>A	uc002tpg.1	-	18	3134	c.2951G>T	c.(2950-2952)GGG>GTG	p.G984V		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	984					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		CCTCTCGGGCCCATGCTCAGG	0.642													24	52					2.70639e-06	2.78525e-06	1	1	0		A	128471514	A	A	128471514	3	1	66	1	0	0	0	0	1	0	0	0	17313	623	22	5	1079	5	WDR33	2	128471514	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	426959	128471514	114727859	195	44271											
POTEE	445582	broad.mit.edu	37	chr2	132021676	132021676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcctagacctggctgggcGggaactgcctgactacctca	7	7	13	14	2	1	2	1	1	0	1	1	3	1	3	4	3	3	1	4	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:132021676G>A	uc002tsn.2	+	15	2700	c.2648G>A	c.(2647-2649)CGG>CAG	p.R883Q	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.R483Q|POTEE_uc002tsl.2_Missense_Mutation_p.R465Q|POTEE_uc010fmy.1_Missense_Mutation_p.R347Q	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	883	Actin-like.						ATP binding				0						CTGGCTGGGCGGGAACTGCCT	0.602													32	83					0	0	1	0	0		A	132021676	A	A	132021676	3	1	66	1	0	0	0	0	1	0	0	0	12283	1116	39	1	2706	1	POTEE	2	132021676	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3550162	132021676	111177697	196	44272											
TUBA3D	113457	broad.mit.edu	37	chr2	132238309	132238309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtttgtggattggtgccCgactggatttaaggtatgac	8	13	13	7	1	0	1	0	1	0	0	0	4	0	3	2	4	1	2	2	4	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:132238309C>T	uc002tsu.3	+	4	1150	c.1043C>T	c.(1042-1044)CCG>CTG	p.P348L		NM_080386	NP_525125	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	348					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(221;0.13)		GATTGGTGCCCGACTGGATTT	0.552													29	43					0	0	1	0	0		T	132238309	T	T	132238309	3	4	66	1	0	0	0	0	1	0	0	0	16773	652	23	1	1057	1	TUBA3D	2	132238309	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	216633	132238309	110961064	197	44273											
LCT	3938	broad.mit.edu	37	chr2	136567017	136567017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggccttcaccttcaaagctCggagcatattcagatcggca	11	9	9	12	2	3	1	3	0	0	1	5	2	3	2	2	3	2	3	2	3	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:136567017C>T	uc002tuu.1	-	8	2911	c.2900G>A	c.(2899-2901)CGA>CAA	p.R967Q		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	967	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CTTCAAAGCTCGGAGCATATT	0.493													24	52					0	0	1	0	0		T	136567017	T	T	136567017	3	4	66	1	0	0	0	0	1	0	0	0	8709	884	31	1	2923	1	LCT	2	136567017	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4328708	136567017	106632356	198	44274											
THSD7B	80731	broad.mit.edu	37	chr2	137990635	137990635	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatggagaagccacgtgTggtgtaggcattcagactcg	10	9	15	7	2	1	2	1	0	0	2	2	4	1	3	1	4	1	2	1	4	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:137990635T>C	uc002tva.1	+	8	1989	c.1989T>C	c.(1987-1989)TGT>TGC	p.C663C	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Silent_p.C553C	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AAGCCACGTGTGGTGTAGGCA	0.478													13	19					0	0	1	0	0		C	137990635	C	C	137990635	2	2	66	1	0	0	0	0	0	0	0	1	15905	1702	59	3		3	THSD7B	2	137990635	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1423618	137990635	105208738	199	44275											
LRP1B	53353	broad.mit.edu	37	chr2	141079561	141079561	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcatcattgcaggtgccaTtaatcaaatattttccttct	10	17	5	9	0	4	0	3	0	1	0	5	0	5	0	2	1	2	1	2	1	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:141079561T>C	uc002tvj.1	-	82	13583	c.12611A>G	c.(12610-12612)AAT>AGT	p.N4204S		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4204	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GCAGGTGCCATTAATCAAATA	0.383										TSP Lung(27;0.18)			19	43					0	0	1	0	0		C	141079561	C	C	141079561	3	2	66	1	0	0	0	0	1	0	0	0	8973	1493	52	3	1228	3	LRP1B	2	141079561	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3088926	141079561	102119812	200	44276											
LRP1B	53353	broad.mit.edu	37	chr2	141457908	141457908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtaaaagattcggttggtaCcttttcttctttgattatag	9	19	8	5	1	2	2	0	1	2	1	3	2	2	2	1	2	1	3	1	2	5	10			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:141457908C>T	uc002tvj.1	-	41	7682	c.6710G>A	c.(6709-6711)GGT>GAT	p.G2237D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2237	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TCGGTTGGTACCTTTTCTTCT	0.348										TSP Lung(27;0.18)			34	82					0	0	1	0	0		T	141457908	T	T	141457908	3	4	66	1	0	0	0	0	1	0	0	0	8973	507	18	4	7293	4	LRP1B	2	141457908	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	378347	141457908	101741465	201	44277											
LRP1B	53353	broad.mit.edu	37	chr2	141609279	141609279	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggcacgcacaggcagcActcctattgtgattgattag	9	10	13	9	1	0	2	0	2	0	0	1	2	1	2	1	3	1	4	1	3	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:141609279A>T	uc002tvj.1	-	28	5625	c.4653T>A	c.(4651-4653)AGT>AGA	p.S1551R	LRP1B_uc010fnl.1_Missense_Mutation_p.S733R	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1551	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CACAGGCAGCACTCCTATTGT	0.413										TSP Lung(27;0.18)			11	81					0	0	1	0	0		T	141609279	T	T	141609279	3	4	66	1	0	0	0	0	1	0	0	0	8973	156	6	5	9402	5	LRP1B	2	141609279	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	151371	141609279	101590094	202	44278											
KYNU	8942	broad.mit.edu	37	chr2	143685243	143685243	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagagcagcctatggtcaTgaagtggggaagcgtccttg	9	10	14	8	1	2	2	2	1	0	1	3	3	3	3	2	3	3	1	2	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:143685243T>C	uc002tvl.2	+	4	436	c.306T>C	c.(304-306)CAT>CAC	p.H102H	KYNU_uc002tvk.2_Silent_p.H102H|KYNU_uc010fnm.2_Silent_p.H102H	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	102					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	CCTATGGTCATGAAGTGGGGA	0.368													34	66					0	0	1	0	0		C	143685243	C	C	143685243	2	2	66	1	0	0	0	0	0	0	0	1	8603	1461	51	3		3	KYNU	2	143685243	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2075964	143685243	99514130	203	44279											
GTDC1	79712	broad.mit.edu	37	chr2	144903180	144903180	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatattggaaatccctctcCtgacatttcttgacaggata	11	13	6	11	0	2	2	0	2	2	0	4	4	3	4	3	2	0	0	3	2	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:144903180C>T	uc002tvp.2	-	5	585	c.306G>A	c.(304-306)CAG>CAA	p.Q102Q	GTDC1_uc002tvo.2_Silent_p.Q102Q|GTDC1_uc002tvq.2_Silent_p.Q102Q|GTDC1_uc002tvr.2_Silent_p.Q102Q|GTDC1_uc010fnn.2_Silent_p.Q102Q|GTDC1_uc002tvs.2_Silent_p.Q70Q|GTDC1_uc010fno.2_5'UTR|GTDC1_uc002tvt.1_Silent_p.Q102Q	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	102					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		AATCCCTCTCCTGACATTTCT	0.413													13	48					0	0	1	0	0		T	144903180	T	T	144903180	2	4	66	1	0	0	0	0	0	0	0	1	6867	680	24	4		4	GTDC1	2	144903180	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1217937	144903180	98296193	204	44280											
NEB	4703	broad.mit.edu	37	chr2	152500609	152500609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccgggcaccaatgtggtggCcgagctgcttgcgaaagcct	7	8	14	12	3	0	0	0	0	0	0	1	2	1	0	4	3	4	3	4	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:152500609C>T	uc010fnx.2	-	57	7870	c.7679G>A	c.(7678-7680)GGC>GAC	p.G2560D		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2560					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		AATGTGGTGGCCGAGCTGCTT	0.448													80	246					0	0	1	0	0		T	152500609	T	T	152500609	3	4	66	1	0	0	0	0	1	0	0	0	10321	739	26	2	18511	2	NEB	2	152500609	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	7597429	152500609	90698764	205	44281											
NR4A2	4929	broad.mit.edu	37	chr2	157182695	157182695	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggcagcaatgcaggagaAggcagaaatgtcgatgttca	14	6	14	7	1	1	2	1	0	0	2	2	4	1	2	0	3	2	5	0	3	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:157182695A>G	uc002tyz.3	-	7	1929	c.1507T>C	c.(1507-1509)TTC>CTC	p.F503L	NR4A2_uc002tyx.3_Missense_Mutation_p.F440L|NR4A2_uc010zcf.1_Missense_Mutation_p.F503L|NR4A2_uc010zcg.1_3'UTR	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	503					cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						ATGCAGGAGAAGGCAGAAATG	0.517													18	26					0	0	1	0	0		G	157182695	G	G	157182695	3	3	66	1	0	0	0	0	1	0	0	0	10652	72	3	3	297	3	NR4A2	2	157182695	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	4682086	157182695	86016678	206	44282											
KCNH7	90134	broad.mit.edu	37	chr2	163228392	163228392	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatgaagacccacgattcCtacagtgcttagggatgaat	12	10	9	10	1	0	3	0	2	0	1	1	5	1	4	3	1	2	1	3	1	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:163228392C>A	uc002uch.1	-	16	3750	c.3538G>T	c.(3538-3540)GGA>TGA	p.G1180*		NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	1180	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	CCCACGATTCCTACAGTGCTT	0.408													18	33					3.52763e-06	3.62198e-06	1	1	0		A	163228392	A	A	163228392	4	1	66	1	0	0	0	0	0	1	0	0	8053	690	24	5	56	5	KCNH7	2	163228392	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	6045697	163228392	79970981	207	44283											
SCN3A	6328	broad.mit.edu	37	chr2	165946887	165946887	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattgcctctttgttatagtTacttgatatattttttaacc	10	21	4	6	0	1	1	0	1	1	0	1	1	1	1	2	0	3	2	2	0	7	11			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:165946887T>A	uc002ucx.2	-	28	6268	c.5776A>T	c.(5776-5778)AAC>TAC	p.N1926Y	SCN3A_uc010zcy.1_Missense_Mutation_p.N409Y|SCN3A_uc002ucy.2_Missense_Mutation_p.N1877Y|SCN3A_uc002ucz.2_Missense_Mutation_p.N1877Y	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1926	IQ.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	TTGTTATAGTTACTTGATATA	0.338													14	25					0	0	1	0	0		A	165946887	A	A	165946887	3	1	66	1	0	0	0	0	1	0	0	0	13943	1754	61	5	230	5	SCN3A	2	165946887	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2718495	165946887	77252486	208	44284											
SCN2A	6326	broad.mit.edu	37	chr2	166171996	166171996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctaggcggcagctgcagccGcatctgctgaatcaagagac	10	7	12	12	2	3	2	1	1	2	1	3	3	3	2	1	2	4	5	1	2	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:166171996G>A	uc002udc.2	+	11	1689	c.1399G>A	c.(1399-1401)GCA>ACA	p.A467T	SCN2A_uc002udd.2_Missense_Mutation_p.A467T|SCN2A_uc002ude.2_Missense_Mutation_p.A467T	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	467					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	AGCTGCAGCCGCATCTGCTGA	0.408													21	51					0	0	1	0	0		A	166171996	A	A	166171996	3	1	66	1	0	0	0	0	1	0	0	0	13941	1087	38	1	1533	1	SCN2A	2	166171996	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	225109	166171996	77027377	209	44285											
SCN9A	6335	broad.mit.edu	37	chr2	167168191	167168191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgattttctttcagcaatgcGttgttcaatgagggcaagag	10	14	11	6	1	3	3	2	2	1	1	3	3	3	3	0	1	2	4	0	1	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:167168191G>A	uc010fpl.2	-	2	417	c.76C>T	c.(76-78)CGC>TGC	p.R26C		NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	26						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	TCAGCAATGCGTTGTTCAATG	0.428													29	55					0	0	1	0	0		A	167168191	A	A	167168191	3	1	66	1	0	0	0	0	1	0	0	0	13950	1145	40	1	5961	1	SCN9A	2	167168191	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	996195	167168191	76031182	210	44286											
ABCB11	8647	broad.mit.edu	37	chr2	169836427	169836427	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgcacgtccagttgcaaaGgcttccaaacaaggagaggc	12	6	12	11	1	0	1	0	0	0	1	2	2	2	1	2	3	3	5	2	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:169836427G>A	uc002ueo.1	-	11	1272	c.1146C>T	c.(1144-1146)GCC>GCT	p.A382A		NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	382	Cytoplasmic (Potential).|ABC transmembrane type-1 1.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	CAGTTGCAAAGGCTTCCAAAC	0.438													10	18					0	0	1	0	0		A	169836427	A	A	169836427	2	1	66	1	0	0	0	0	0	0	0	1	42	987	35	4		4	ABCB11	2	169836427	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2668236	169836427	73362946	211	44287											
PPIG	9360	broad.mit.edu	37	chr2	170493494	170493494	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggacagaagcagaagagtgCgatcaagaacccatgacaga	17	3	13	8	1	1	6	1	1	0	5	1	8	1	7	1	1	3	1	1	1	4	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:170493494C>T	uc002uez.2	+	14	1946	c.1726C>T	c.(1726-1728)CGA>TGA	p.R576*	PPIG_uc010fpx.2_Nonsense_Mutation_p.R561*|PPIG_uc010fpy.2_Nonsense_Mutation_p.R569*|PPIG_uc002ufb.2_Nonsense_Mutation_p.R576*|PPIG_uc002ufd.2_Nonsense_Mutation_p.R573*	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G	576	Arg/Ser-rich (RS domain).				protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	CAGAAGAGTGCGATCAAGAAC	0.448													11	22					0	0	1	0	0		T	170493494	T	T	170493494	4	4	66	1	0	0	0	0	0	1	0	0	12346	760	27	1	1772	1	PPIG	2	170493494	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	657067	170493494	72705879	212	44288											
METTL8	79828	broad.mit.edu	37	chr2	172195839	172195839	+	Frame_Shift_Del	DEL	T	-	-																															cagaacttttctcataatgaTttttttcatcaggcacagta																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:172195839delT	uc010zdo.1	-	4	602	c.461delA	c.(460-462)AATfs	p.N154fs	METTL8_uc002ugu.3_Frame_Shift_Del_p.N154fs|METTL8_uc002ugv.3_Frame_Shift_Del_p.N154fs|METTL8_uc002ugt.3_Frame_Shift_Del_p.N154fs|METTL8_uc002ugs.3_Frame_Shift_Del_p.N104fs|METTL8_uc010zdp.1_Frame_Shift_Del_p.N109fs	NM_024770	NP_079046	B3KW44	B3KW44_HUMAN	methyltransferase like 8	154							methyltransferase activity			ovary(1)	1						CTCATAATGATTTTTTTCATC	0.383													55	122	---	---	---	---						.	-	172195839	-	-	172195839	7	5	66	1	0	1	0	1	0	0	0	0	9525	1493	52	0	790	0	METTL8	2	172195839	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	1702345	172195839	71003534	213	44289											
HOXD1	3231	broad.mit.edu	37	chr2	177053943	177053943	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccactacgccacctcggcCgtcttctcgggcggcggctc	3	8	12	18	6	2	0	0	0	2	0	6	0	3	0	4	4	1	1	4	4	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:177053943C>T	uc002ukv.3	+	1	637	c.414C>T	c.(412-414)GCC>GCT	p.A138A	HOXD1_uc010fqy.2_Silent_p.A138A|HOXD1_uc010zez.1_Silent_p.A138A	NM_024501	NP_078777	Q9GZZ0	HXD1_HUMAN	homeobox D1	138						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.0226)		CCACCTCGGCCGTCTTCTCGG	0.706													5	3					0	0	1	0	0		T	177053943	T	T	177053943	2	4	66	1	0	0	0	0	0	0	0	1	7334	639	23	1		1	HOXD1	2	177053943	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4858104	177053943	66145430	214	44290											
TTC30B	150737	broad.mit.edu	37	chr2	178416457	178416457	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttataaatcaaatgggcattTtctgccaggacatctgctgc	11	13	8	9	0	3	0	1	0	2	0	3	1	3	1	1	2	3	2	1	2	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:178416457T>G	uc002uln.2	-	1	1068	c.1035A>C	c.(1033-1035)GAA>GAC	p.E345D	TTC30B_uc010zfc.1_Missense_Mutation_p.E117D	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	345					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			AATGGGCATTTTCTGCCAGGA	0.453													6	122					0	0	1	0	0		G	178416457	G	G	178416457	3	3	66	1	0	0	0	0	1	0	0	0	16725	1838	64	5	966	5	TTC30B	2	178416457	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1362514	178416457	64782916	215	44291											
DFNB59	494513	broad.mit.edu	37	chr2	179320767	179320767	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaccacagcttgatacgTcagtcaaggagcagcagaaa	14	8	10	9	1	2	3	2	2	0	1	2	4	2	4	1	1	4	3	1	1	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:179320767T>C	uc002umi.3	+	4	794	c.438T>C	c.(436-438)CGT>CGC	p.R146R	DFNB59_uc002umj.3_Silent_p.R146R	NM_001042702	NP_001036167	Q0ZLH3	PJVK_HUMAN	deafness, autosomal recessive 59	146					sensory perception of sound						0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			GCTTGATACGTCAGTCAAGGA	0.403													4	23					0	0	1	0	0		C	179320767	C	C	179320767	2	2	66	1	0	0	0	0	0	0	0	1	4462	1654	58	3		3	DFNB59	2	179320767	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	904310	179320767	63878606	216	44292											
TTN	7273	broad.mit.edu	37	chr2	179407141	179407141	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgattcagaaacgggcaGccatcctggacgatgagcgt	11	7	12	11	3	1	3	1	2	0	1	2	5	2	4	2	2	3	1	2	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:179407141G>A	uc010zfg.1	-	298	89862	c.89638C>T	c.(89638-89640)CTG>TTG	p.L29880L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.L23575L|TTN_uc010zfi.1_Silent_p.L23508L|TTN_uc010zfj.1_Silent_p.L23383L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30807							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAAACGGGCAGCCATCCTGGA	0.498													7	26					0	0	1	0	0		A	179407141	A	A	179407141	2	1	66	1	0	0	0	0	0	0	0	1	16761	962	34	2		2	TTN	2	179407141	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	86374	179407141	63792232	217	44293											
TTN	7273	broad.mit.edu	37	chr2	179612351	179612351	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actctggacaagctttgcctGgtctctggtgtctttagttt	5	17	10	9	0	3	0	0	0	3	0	4	1	3	1	1	3	2	2	1	3	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:179612351G>T	uc002unb.2	-	46	15000	c.14776C>A	c.(14776-14778)CAG>AAG	p.Q4926K	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGCTTTGCCTGGTCTCTGGTG	0.443													29	78					3.73988e-18	4.02476e-18	1	1	0		T	179612351	T	T	179612351	3	4	66	1	0	0	0	0	1	0	0	0	16761	1357	47	5	95521	5	TTN	2	179612351	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	205210	179612351	63587022	218	44294											
CERKL	375298	broad.mit.edu	37	chr2	182468728	182468728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgctgtttaacagaacaaCgccgtttcagtttcacagag	11	12	8	10	2	3	2	2	0	1	2	3	2	3	2	1	0	4	4	1	0	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:182468728C>T	uc002unx.2	-	2	418	c.317G>A	c.(316-318)CGT>CAT	p.R106H	CERKL_uc002uny.2_Missense_Mutation_p.R106H|CERKL_uc010zfm.1_Missense_Mutation_p.R106H|CERKL_uc002unz.2_5'UTR|CERKL_uc002uoa.2_Missense_Mutation_p.R106H|CERKL_uc002uob.2_5'UTR|CERKL_uc002uoc.2_Missense_Mutation_p.R106H|CERKL_uc010frk.2_RNA|CERKL_uc002uod.1_5'UTR|CERKL_uc002uoe.2_Missense_Mutation_p.R106H	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	106	Nuclear localization signal 2.		R -> S (in RP26).	KRR->GGG: Only cytoplasmic.	activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			AACAGAACAACGCCGTTTCAG	0.313													19	21					0	0	1	0	0		T	182468728	T	T	182468728	3	4	66	1	0	0	0	0	1	0	0	0	3271	536	19	1	1411	1	CERKL	2	182468728	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2856377	182468728	60730645	219	44295											
ZSWIM2	151112	broad.mit.edu	37	chr2	187693320	187693320	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctattttgttttaagacTaatccagtaccaggaataaa	15	14	6	6	0	1	1	0	0	1	1	2	2	2	2	2	1	1	2	2	1	7	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:187693320T>C	uc002upu.1	-	9	1333	c.1293A>G	c.(1291-1293)TTA>TTG	p.L431L		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	431					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			GTTTTAAGACTAATCCAGTAC	0.353													21	48					0	0	1	0	0		C	187693320	C	C	187693320	2	2	66	1	0	0	0	0	0	0	0	1	18266	1519	53	3		3	ZSWIM2	2	187693320	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	5224592	187693320	55506053	220	44296											
ZSWIM2	151112	broad.mit.edu	37	chr2	187713711	187713711	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcggaaatccatgtattcCggctcctcctccctcagcag	8	10	7	16	2	1	0	1	0	0	0	7	1	6	1	5	2	1	3	5	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:187713711C>T	uc002upu.1	-	1	187	c.147G>A	c.(145-147)CCG>CCA	p.P49P		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	49					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			CCATGTATTCCGGCTCCTCCT	0.622													24	25					0	0	1	0	0		T	187713711	T	T	187713711	2	4	66	1	0	0	0	0	0	0	0	1	18266	639	23	1		1	ZSWIM2	2	187713711	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	20391	187713711	55485662	221	44297											
ANKAR	150709	broad.mit.edu	37	chr2	190611170	190611170	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattctttgactttattaccTcctgtaactaacttcatggg	9	17	6	9	0	2	1	1	1	1	0	3	2	3	1	2	1	3	1	2	1	4	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:190611170T>G	uc002uqw.1	+	22	3909	c.3909T>G	c.(3907-3909)CCT>CCG	p.P1303P	ANKAR_uc002uqu.2_RNA|ANKAR_uc002uqx.1_RNA|ANKAR_uc002uqy.1_3'UTR	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	1374						integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			CTTTATTACCTCCTGTAACTA	0.323													44	118					0	0	1	0	0		G	190611170	G	G	190611170	2	3	66	1	0	0	0	0	0	0	0	1	623	1538	54	5		5	ANKAR	2	190611170	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2897459	190611170	52588203	222	44298											
GLS	2744	broad.mit.edu	37	chr2	191760352	191760352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actcaaatctacaggattgcGaacgtctgatcccaggttga	12	10	9	10	2	3	2	1	2	2	0	4	4	4	3	1	2	3	1	1	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:191760352G>A	uc002usf.2	+	3	770	c.506G>A	c.(505-507)CGA>CAA	p.R169Q	GLS_uc002usd.2_3'UTR|GLS_uc002use.2_Missense_Mutation_p.R169Q	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	169					cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	ACAGGATTGCGAACGTCTGAT	0.303													20	45					0	0	1	0	0		A	191760352	A	A	191760352	3	1	66	1	0	0	0	0	1	0	0	0	6478	1058	37	1	516	1	GLS	2	191760352	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1149182	191760352	51439021	223	44299											
TMEFF2	23671	broad.mit.edu	37	chr2	192863895	192863896	+	Frame_Shift_Ins	INS	-	T	T																															catcagaagcgcagaggggaINSttgaagttggtttgagaaca																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:192863895_192863896insT	uc002utc.2	-	6	969_970	c.575_576insA	c.(574-576)AATfs	p.N192fs		NM_016192	NP_057276	Q9UIK5	TEFF2_HUMAN	transmembrane protein with EGF-like and two	192	Kazal-like 2.|Extracellular (Potential).					extracellular region|integral to membrane				lung(2)|pancreas(1)|breast(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.0835)			CGCAGAGGGGATTGAAGTTGGT	0.351													42	79	---	---	---	---						.	T	192863896	T	T	192863895	7	5	66	1	0	1	1	0	0	0	0	0	16039	330	12	0	568	0	TMEFF2	2	192863895	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	1103543	192863895	50335478	224	44300											
HSPD1	3329	broad.mit.edu	37	chr2	198353864	198353864	+	Frame_Shift_Del	DEL	T	-	-																															tgagccttgtcaccttttccTtttaagagcatggcatcgtc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:198353864delT	uc002uui.2	-	9	1214	c.1077delA	c.(1075-1077)AAAfs	p.K359fs	HSPD1_uc002uuj.2_Frame_Shift_Del_p.K357fs|HSPD1_uc010zgx.1_Frame_Shift_Del_p.K350fs|HSPD1_uc010fsm.2_Frame_Shift_Del_p.K170fs|HSPD1_uc002uuk.2_Frame_Shift_Del_p.K359fs	NM_002156	NP_002147	P10809	CH60_HUMAN	chaperonin	359					'de novo' protein folding|activation of caspase activity|B cell cytokine production|B cell proliferation|chaperone-mediated protein complex assembly|interspecies interaction between organisms|isotype switching to IgG isotypes|MyD88-dependent toll-like receptor signaling pathway|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of interferon-alpha production|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of macrophage activation|positive regulation of T cell activation|positive regulation of T cell mediated immune response to tumor cell|protein maturation|protein refolding|protein stabilization|response to unfolded protein|T cell activation	cell surface|coated pit|coated vesicle|cytosol|early endosome|extracellular space|lipopolysaccharide receptor complex|mitochondrial inner membrane|mitochondrial matrix|stored secretory granule	ATP binding|ATPase activity|cell surface binding|chaperone binding|DNA replication origin binding|lipopolysaccharide binding|p53 binding|single-stranded DNA binding				0			Epithelial(96;0.225)			CACCTTTTCCTTTTAAGAGCA	0.393													34	76	---	---	---	---						.	-	198353864	-	-	198353864	7	5	66	1	0	1	0	1	0	0	0	0	7444	1606	56	0	660	0	HSPD1	2	198353864	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	5489969	198353864	44845509	225	44301											
ALS2CR11	151254	broad.mit.edu	37	chr2	202483623	202483623	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggcccccgctcactcacGttcagcagccggtgcccggt	5	6	11	19	4	3	0	3	0	0	0	3	0	3	0	5	3	3	3	5	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:202483623G>A	uc002uye.2	-	1	279	c.231C>T	c.(229-231)AAC>AAT	p.N77N	ALS2CR11_uc002uyf.2_Silent_p.N77N|ALS2CR11_uc010fti.2_Silent_p.N77N	NM_152525	NP_689738	Q53TS8	AL2SA_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	77										large_intestine(1)|ovary(1)|skin(1)	3						GCTCACTCACGTTCAGCAGCC	0.637													7	13					0	0	1	0	0		A	202483623	A	A	202483623	2	1	66	1	0	0	0	0	0	0	0	1	552	1159	40	1		1	ALS2CR11	2	202483623	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4129759	202483623	40715750	226	44302											
MPP4	58538	broad.mit.edu	37	chr2	202520921	202520921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtgcatgctgggacatacCcatgagcactatgaggcggt	10	8	13	10	1	0	2	0	2	0	0	0	3	0	3	1	3	4	3	1	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:202520921C>T	uc002uyk.3	-	17	1508	c.1300G>A	c.(1300-1302)GGA>AGA	p.G434R	MPP4_uc002uyi.3_Missense_Mutation_p.G52R|MPP4_uc010ftj.2_Missense_Mutation_p.G427R|MPP4_uc010zhq.1_Missense_Mutation_p.G403R|MPP4_uc010zhr.1_Missense_Mutation_p.G410R|MPP4_uc010zhs.1_Missense_Mutation_p.G359R|MPP4_uc002uyj.3_Missense_Mutation_p.G399R|MPP4_uc010zht.1_Missense_Mutation_p.G376R|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.G390R	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	434	Guanylate kinase-like.					cytoplasm	protein binding				0						TGGGACATACCCATGAGCACT	0.527													3	9					0	0	1	0	0		T	202520921	T	T	202520921	3	4	66	1	0	0	0	0	1	0	0	0	9754	637	22	4	637	4	MPP4	2	202520921	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	37298	202520921	40678452	227	44303											
ALS2	57679	broad.mit.edu	37	chr2	202575807	202575807	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaactctctagtgtctgagtCtgtgaacgactcagtatttc	10	14	8	9	1	4	2	1	2	3	0	6	3	4	2	0	0	2	1	0	0	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:202575807C>T	uc002uyo.2	-	26	4385	c.4029G>A	c.(4027-4029)CAG>CAA	p.Q1343Q	ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	1343					cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						GTGTCTGAGTCTGTGAACGAC	0.358													17	43					0	0	1	0	0		T	202575807	T	T	202575807	2	4	66	1	0	0	0	0	0	0	0	1	550	912	32	4		4	ALS2	2	202575807	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	54886	202575807	40623566	228	44304											
KLF7	8609	broad.mit.edu	37	chr2	207953238	207953238	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtgtttcctgtagtgcctCgtgagctcatcgcttcgtgc	3	15	12	11	3	1	1	1	1	0	0	5	1	2	1	2	0	3	4	2	0	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:207953238C>T	uc002vbz.1	-	3	1123	c.801G>A	c.(799-801)ACG>ACA	p.T267T	KLF7_uc002vca.1_Missense_Mutation_p.R200Q|KLF7_uc010zix.1_Silent_p.T239T	NM_003709	NP_003700	O75840	KLF7_HUMAN	Kruppel-like factor 7 (ubiquitous)	267	C2H2-type 2.				regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			central_nervous_system(1)|skin(1)	2				LUSC - Lung squamous cell carcinoma(261;0.0856)|Lung(261;0.166)|Epithelial(149;0.173)		TGTAGTGCCTCGTGAGCTCAT	0.522													33	53					0	0	1	0	0		T	207953238	T	T	207953238	2	4	66	1	0	0	0	0	0	0	0	1	8367	871	31	1		1	KLF7	2	207953238	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	5377431	207953238	35246135	229	44305											
PLEKHM3	389072	broad.mit.edu	37	chr2	208725856	208725856	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaaatatcctcaaaagggTagaggatctctccattgtta	13	13	8	7	0	2	2	1	1	1	1	5	3	4	3	2	2	0	2	2	2	6	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:208725856T>C	uc002vcl.2	-	7	2571	c.2081A>G	c.(2080-2082)TAC>TGC	p.Y694C		NM_001080475	NP_001073944	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M,	694	Phorbol-ester/DAG-type.				intracellular signal transduction		metal ion binding			ovary(1)	1						CTCAAAAGGGTAGAGGATCTC	0.408													52	103					0	0	1	0	0		C	208725856	C	C	208725856	3	2	66	1	0	0	0	0	1	0	0	0	12101	1638	57	3	212	3	PLEKHM3	2	208725856	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	772618	208725856	34473517	230	44306											
PIKFYVE	200576	broad.mit.edu	37	chr2	209209918	209209918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagggcttccaacaaataGgtgattcatgattgagtaga	15	10	11	5	0	1	5	1	3	0	2	2	5	2	5	1	2	1	2	1	2	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:209209918G>A	uc002vcz.2	+	33	5269	c.5111G>A	c.(5110-5112)AGT>AAT	p.S1704N		NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1704					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						CCAACAAATAGGTGATTCATG	0.333													13	23					0	0	1	0	0		A	209209918	A	A	209209918	3	1	66	1	0	0	0	0	1	0	0	0	11943	1014	35	4	5248	4	PIKFYVE	2	209209918	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	484062	209209918	33989455	231	44307											
PIKFYVE	200576	broad.mit.edu	37	chr2	209212722	209212722	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacgggcaaggaggggacCgagaatcaaggcgttgagcc	12	3	17	9	3	1	3	1	1	0	2	1	6	1	5	2	5	1	2	2	5	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:209212722C>T	uc002vcz.2	+	35	5507	c.5349C>T	c.(5347-5349)ACC>ACT	p.T1783T		NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1783	PIPK.				cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						AGGAGGGGACCGAGAATCAAG	0.448													14	40					0	0	1	0	0		T	209212722	T	T	209212722	2	4	66	1	0	0	0	0	0	0	0	1	11943	639	23	1		1	PIKFYVE	2	209212722	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2804	209212722	33986651	232	44308											
MAP2	4133	broad.mit.edu	37	chr2	210559225	210559225	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtaaaagctactggagaAgaaagtactcaagcggagat	19	6	11	5	1	1	3	1	0	0	3	1	5	1	3	0	2	4	3	0	2	8	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:210559225A>G	uc002vde.1	+	7	2579	c.2331A>G	c.(2329-2331)GAA>GAG	p.E777E	MAP2_uc002vdc.1_Silent_p.E777E|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.E773E	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	777					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CTACTGGAGAAGAAAGTACTC	0.443													42	74					0	0	1	0	0		G	210559225	G	G	210559225	2	3	66	1	0	0	0	0	0	0	0	1	9253	69	3	3		3	MAP2	2	210559225	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1346503	210559225	32640148	233	44309											
MAP2	4133	broad.mit.edu	37	chr2	210570373	210570373	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccattctccctcctcggCgaggtgtgtcaggagacaga	7	9	11	14	2	2	2	1	0	1	2	6	4	4	2	4	3	0	0	4	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:210570373C>T	uc002vde.1	+	11	4902	c.4654C>T	c.(4654-4656)CGA>TGA	p.R1552*	MAP2_uc002vdd.1_Nonsense_Mutation_p.R253*|MAP2_uc002vdf.1_Nonsense_Mutation_p.R196*|MAP2_uc002vdg.1_Nonsense_Mutation_p.R196*|MAP2_uc002vdh.1_Nonsense_Mutation_p.R253*|MAP2_uc002vdi.1_Nonsense_Mutation_p.R1548*	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1552					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CCCTCCTCGGCGAGGTGTGTC	0.473													33	111					0	0	1	0	0		T	210570373	T	T	210570373	4	4	66	1	0	0	0	0	0	1	0	0	9253	760	27	1	4859	1	MAP2	2	210570373	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	11148	210570373	32629000	234	44310											
ERBB4	2066	broad.mit.edu	37	chr2	212589893	212589893	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtagcatctgccgtcacAttgttctgcacacaccgtcc	7	11	7	16	3	3	0	1	0	2	0	5	0	5	0	4	0	3	4	4	0	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:212589893A>G	uc002veg.1	-	6	747	c.649T>C	c.(649-651)TGT>CGT	p.C217R	ERBB4_uc002veh.1_Missense_Mutation_p.C217R|ERBB4_uc010zji.1_Missense_Mutation_p.C217R|ERBB4_uc010zjj.1_Missense_Mutation_p.C217R|ERBB4_uc010fut.1_Missense_Mutation_p.C217R	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	217	Cys-rich.|Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CTGCCGTCACATTGTTCTGCA	0.507										TSP Lung(8;0.080)			19	43					0	0	1	0	0		G	212589893	G	G	212589893	3	3	66	1	0	0	0	0	1	0	0	0	5217	217	8	3	3369	3	ERBB4	2	212589893	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2019520	212589893	30609480	235	44311											
FN1	2335	broad.mit.edu	37	chr2	216257776	216257776	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatcctactgaggagtccAcaaaatcttcaaaaataggg	16	9	8	8	0	2	1	1	1	1	0	4	2	4	2	2	2	1	1	2	2	7	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:216257776A>G	uc002vfa.2	-	25	4213	c.3947T>C	c.(3946-3948)GTG>GCG	p.V1316A	FN1_uc002vfb.2_Intron|FN1_uc002vfc.2_Intron|FN1_uc002vfd.2_Missense_Mutation_p.V1316A|FN1_uc002vfe.2_Intron|FN1_uc002vff.2_Intron|FN1_uc002vfg.2_Intron|FN1_uc002vfh.2_Intron|FN1_uc002vfi.2_Missense_Mutation_p.V1316A|FN1_uc002vfj.2_Missense_Mutation_p.V1316A|FN1_uc002vez.2_5'Flank|FN1_uc010zjp.1_5'UTR	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1316	Fibronectin type-III 8.|Cell-attachment.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGAGGAGTCCACAAAATCTTC	0.507													16	43					0	0	1	0	0		G	216257776	G	G	216257776	3	3	66	1	0	0	0	0	1	0	0	0	5976	159	6	3	3574	3	FN1	2	216257776	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3667883	216257776	26941597	236	44312											
TNS1	7145	broad.mit.edu	37	chr2	218674687	218674687	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgagtgactccatgtccAcagagttgacgaagagcaca	13	7	11	10	1	0	5	0	3	0	2	2	6	2	5	2	0	1	2	2	0	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:218674687A>G	uc002vgt.2	-	30	5218	c.4820T>C	c.(4819-4821)GTG>GCG	p.V1607A	TNS1_uc002vgr.2_Missense_Mutation_p.V1593A|TNS1_uc002vgs.2_Missense_Mutation_p.V1586A|TNS1_uc002vgq.2_Missense_Mutation_p.V107A	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1607						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		CTCCATGTCCACAGAGTTGAC	0.552													7	23					0	0	1	0	0		G	218674687	G	G	218674687	3	3	66	1	0	0	0	0	1	0	0	0	16368	159	6	3	403	3	TNS1	2	218674687	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2416911	218674687	24524686	237	44313											
CCDC108	255101	broad.mit.edu	37	chr2	219900384	219900384	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagtgtccatggagcttgcGggctgttcaggtggcaggga	6	10	18	7	1	1	1	1	1	0	0	2	3	2	3	1	5	2	4	1	5	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:219900384G>A	uc002vjl.1	-	5	444	c.360C>T	c.(358-360)CCC>CCT	p.P120P	CCDC108_uc010zkp.1_Silent_p.P109P|CCDC108_uc010zkq.1_Silent_p.P55P|CCDC108_uc002vjn.2_Silent_p.P55P	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	120						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGGAGCTTGCGGGCTGTTCAG	0.567													14	40					0	0	1	0	0		A	219900384	A	A	219900384	2	1	66	1	0	0	0	0	0	0	0	1	2746	1103	39	1		1	CCDC108	2	219900384	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1225697	219900384	23298989	238	44314											
SLC23A3	151295	broad.mit.edu	37	chr2	220033482	220033482	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggggcccacagtgggggAacacgtggccgggactcccc	7	3	16	15	2	0	0	0	0	0	0	1	2	1	2	5	6	1	0	5	6	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:220033482A>G	uc010zks.1	-	5	677	c.566T>C	c.(565-567)TTC>TCC	p.F189S	NHEJ1_uc002vjq.3_RNA|SLC23A3_uc010zkr.1_Missense_Mutation_p.F197S|SLC23A3_uc010fwb.2_Missense_Mutation_p.F189S|SLC23A3_uc002vjs.1_Silent_p.V41V|SLC23A3_uc002vjt.1_Missense_Mutation_p.F47S	NM_001144889	NP_001138361	Q6PIS1	S23A3_HUMAN	solute carrier family 23 (nucleobase	189	Helical; (Potential).				transmembrane transport	integral to membrane	protein binding|transporter activity				0		Renal(207;0.0474)		Epithelial(149;9.27e-07)|all cancers(144;0.000156)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACAGTGGGGGAACACGTGGCC	0.647													8	22					0	0	1	0	0		G	220033482	G	G	220033482	3	3	66	1	0	0	0	0	1	0	0	0	14489	246	9	3	1298	3	SLC23A3	2	220033482	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	133098	220033482	23165891	239	44315											
ANKZF1	55139	broad.mit.edu	37	chr2	220098560	220098560	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggcaagggagcacccctgCaaaggggggatccccgactt	10	4	15	12	1	0	0	0	0	0	0	1	4	1	2	4	5	2	3	4	5	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:220098560C>T	uc002vkg.2	+	8	1117	c.943C>T	c.(943-945)CAA>TAA	p.Q315*	ANKZF1_uc010zkv.1_Nonsense_Mutation_p.Q259*|ANKZF1_uc010zkw.1_Nonsense_Mutation_p.Q105*|ANKZF1_uc002vkh.2_Nonsense_Mutation_p.Q105*|ANKZF1_uc002vki.2_Nonsense_Mutation_p.Q315*|ANKZF1_uc002vkj.1_Nonsense_Mutation_p.Q303*	NM_018089	NP_060559	Q9H8Y5	ANKZ1_HUMAN	ankyrin repeat and zinc finger domain containing	315						intracellular	zinc ion binding			ovary(2)	2		Renal(207;0.0474)		Epithelial(149;1.2e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGCACCCCTGCAAAGGGGGGA	0.602													30	70					0	0	1	0	0		T	220098560	T	T	220098560	4	4	66	1	0	0	0	0	0	1	0	0	693	711	25	2	969	2	ANKZF1	2	220098560	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	65078	220098560	23100813	240	44316											
SPEG	10290	broad.mit.edu	37	chr2	220331921	220331921	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaaagccggtccctggcCgtgctggcccccctgcagga	5	6	13	17	2	0	1	0	1	0	0	1	2	1	2	7	4	3	2	7	4	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:220331921C>T	uc010fwg.2	+	10	2907	c.2907C>T	c.(2905-2907)GCC>GCT	p.A969A		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	969	Ig-like 4.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GGTCCCTGGCCGTGCTGGCCC	0.677											OREG0004000	type=REGULATORY REGION|Gene=APEG1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	22	61					0	0	1	0	0		T	220331921	T	T	220331921	2	4	66	1	0	0	0	0	0	0	0	1	15061	639	23	1		1	SPEG	2	220331921	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	233361	220331921	22867452	241	44317											
ACCN4	55515	broad.mit.edu	37	chr2	220379897	220379897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagaccgggatgggcacCgtgcggctggcctgcgctac	7	5	15	14	4	0	1	0	0	0	1	0	2	0	2	4	4	3	3	4	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:220379897C>T	uc002vma.2	+	1	846	c.832C>T	c.(832-834)CGT>TGT	p.R278C	ACCN4_uc010fwi.1_Missense_Mutation_p.R278C|ACCN4_uc010fwj.1_Missense_Mutation_p.R278C|ACCN4_uc002vly.1_Missense_Mutation_p.R278C|ACCN4_uc002vlz.2_Missense_Mutation_p.R278C|ACCN4_uc002vmb.2_5'Flank	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	278	Extracellular (Potential).					integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		GGATGGGCACCGTGCGGCTGG	0.612													6	21					0	0	1	0	0		T	220379897	T	T	220379897	3	4	66	1	0	0	0	0	1	0	0	0	131	652	23	1	834	1	ACCN4	2	220379897	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	47976	220379897	22819476	242	44318											
SLC4A3	6508	broad.mit.edu	37	chr2	220502335	220502335	+	Frame_Shift_Del	DEL	C	-	-																															cacccactgctgccgttctaCccccctgagggggccctgga																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:220502335delC	uc002vmp.3	+	17	2837	c.2568delC	c.(2566-2568)TACfs	p.Y856fs	SLC4A3_uc002vmo.3_Frame_Shift_Del_p.Y883fs|SLC4A3_uc010fwm.2_Frame_Shift_Del_p.Y406fs|SLC4A3_uc010fwn.1_Frame_Shift_Del_p.Y365fs	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	856	Membrane (anion exchange).				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGCCGTTCTACCCCCCTGAGG	0.632													22	33	---	---	---	---						.	-	220502335	-	-	220502335	7	5	66	1	0	1	0	1	0	0	0	0	14680	518	18	0	2711	0	SLC4A3	2	220502335	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	122438	220502335	22697038	243	44319											
SERPINE2	5270	broad.mit.edu	37	chr2	224856607	224856607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgcgtttctttgtgttctCgggttggaaccgtgatttcc	4	17	12	8	3	2	1	0	1	2	0	4	2	3	2	2	2	2	3	2	2	1	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:224856607C>T	uc002vnu.2	-	4	841	c.598G>A	c.(598-600)GAG>AAG	p.E200K	SERPINE2_uc002vnt.2_Missense_Mutation_p.E200K|SERPINE2_uc010zlr.1_Missense_Mutation_p.E212K|SERPINE2_uc002vnv.2_Missense_Mutation_p.E200K	NM_006216	NP_006207	P07093	GDN_HUMAN	plasminogen activator inhibitor type 1, member 2	200					negative regulation of blood coagulation|negative regulation of plasminogen activation|negative regulation of platelet aggregation|positive regulation of astrocyte differentiation|regulation of cell migration	cytosol|extracellular matrix|extracellular space|extrinsic to external side of plasma membrane|neuromuscular junction|platelet alpha granule	heparin binding|receptor binding|serine-type endopeptidase inhibitor activity			breast(2)|ovary(1)|central_nervous_system(1)	4		Renal(207;0.025)|all_lung(227;0.0586)|Lung NSC(271;0.0682)|all_hematologic(139;0.0797)		Epithelial(121;5.68e-10)|all cancers(144;1.9e-07)|Lung(261;0.0088)|LUSC - Lung squamous cell carcinoma(224;0.00902)		TTTGTGTTCTCGGGTTGGAAC	0.527													12	31					0	0	1	0	0		T	224856607	T	T	224856607	3	4	66	1	0	0	0	0	1	0	0	0	14137	893	31	1	622	1	SERPINE2	2	224856607	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4354272	224856607	18342766	244	44320											
SERPINE2	5270	broad.mit.edu	37	chr2	224866442	224866442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcatccccaggaccgacGcaatcccatggggagagatc	12	4	12	13	2	0	1	0	0	0	1	3	6	2	3	4	3	1	2	4	3	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:224866442G>A	uc002vnu.2	-	2	419	c.176C>T	c.(175-177)GCG>GTG	p.A59V	SERPINE2_uc002vnt.2_Missense_Mutation_p.A59V|SERPINE2_uc010zlr.1_Missense_Mutation_p.A71V|SERPINE2_uc002vnv.2_Missense_Mutation_p.A59V	NM_006216	NP_006207	P07093	GDN_HUMAN	plasminogen activator inhibitor type 1, member 2	59					negative regulation of blood coagulation|negative regulation of plasminogen activation|negative regulation of platelet aggregation|positive regulation of astrocyte differentiation|regulation of cell migration	cytosol|extracellular matrix|extracellular space|extrinsic to external side of plasma membrane|neuromuscular junction|platelet alpha granule	heparin binding|receptor binding|serine-type endopeptidase inhibitor activity			breast(2)|ovary(1)|central_nervous_system(1)	4		Renal(207;0.025)|all_lung(227;0.0586)|Lung NSC(271;0.0682)|all_hematologic(139;0.0797)		Epithelial(121;5.68e-10)|all cancers(144;1.9e-07)|Lung(261;0.0088)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CAGGACCGACGCAATCCCATG	0.557													29	53					0	0	1	0	0		A	224866442	A	A	224866442	3	1	66	1	0	0	0	0	1	0	0	0	14137	1087	38	1	1052	1	SERPINE2	2	224866442	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	9835	224866442	18332931	245	44321											
DOCK10	55619	broad.mit.edu	37	chr2	225637972	225637972	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaaaccttcttggacaTctcgtcaattgccacttcaa	11	12	5	13	1	5	1	3	0	2	1	6	2	5	2	2	1	2	0	2	1	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:225637972T>C	uc010fwz.1	-	53	6345	c.6106A>G	c.(6106-6108)ATG>GTG	p.M2036V	DOCK10_uc002vob.2_Missense_Mutation_p.M2030V|DOCK10_uc002voa.2_Missense_Mutation_p.M692V	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	2036	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		TTCTTGGACATCTCGTCAATT	0.448													7	45					0	0	1	0	0		C	225637972	C	C	225637972	3	2	66	1	0	0	0	0	1	0	0	0	4691	1435	50	3	470	3	DOCK10	2	225637972	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	771530	225637972	17561401	246	44322											
SLC19A3	80704	broad.mit.edu	37	chr2	228560704	228560704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatgcatgagaaataaagaaCcggcattgacaactgagaag	19	6	10	6	1	0	4	0	3	0	3	0	6	0	4	1	1	3	2	1	1	7	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:228560704C>T	uc002vpi.2	-	4	1162	c.1073G>A	c.(1072-1074)GGT>GAT	p.G358D	SLC19A3_uc002vpj.2_RNA|SLC19A3_uc010zlv.1_Missense_Mutation_p.G354D	NM_025243	NP_079519	Q9BZV2	S19A3_HUMAN	solute carrier family 19, member 3	358	Helical; (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)	AAATAAAGAACCGGCATTGAC	0.468													26	67					0	0	1	0	0		T	228560704	T	T	228560704	3	4	66	1	0	0	0	0	1	0	0	0	14455	507	18	4	429	4	SLC19A3	2	228560704	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2922732	228560704	14638669	247	44323											
PID1	55022	broad.mit.edu	37	chr2	229890607	229890607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcggtgcagtaggcgatgCgggccacctggaaggtatcc	7	6	17	11	4	0	0	0	0	0	0	1	2	1	1	3	6	2	3	3	6	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:229890607C>T	uc002vpr.3	-	3	532	c.494G>A	c.(493-495)CGC>CAC	p.R165H	PID1_uc002vps.3_Missense_Mutation_p.R163H|PID1_uc002vpt.3_Missense_Mutation_p.R132H|PID1_uc002vpu.3_Missense_Mutation_p.R83H	NM_001100818	NP_001094288	Q7Z2X4	PCLI1_HUMAN	phosphotyrosine interaction domain containing 1	165	PID.					cytoplasm				breast(3)|skin(1)	4		Renal(207;0.0112)|all_lung(227;0.0191)|Lung NSC(271;0.0851)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.171)		Epithelial(121;3.08e-11)|all cancers(144;2.28e-08)|LUSC - Lung squamous cell carcinoma(224;0.0145)|Lung(261;0.0189)		GTAGGCGATGCGGGCCACCTG	0.582													26	60					0	0	1	0	0		T	229890607	T	T	229890607	3	4	66	1	0	0	0	0	1	0	0	0	11901	768	27	1	262	1	PID1	2	229890607	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1329903	229890607	13308766	248	44324											
PID1	55022	broad.mit.edu	37	chr2	230020538	230020538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccacgtgccccataccttgCagccactgtgagtccttgtc	6	10	9	16	1	0	1	0	1	0	0	2	1	1	1	6	0	4	1	6	0	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:230020538C>T	uc002vpr.3	-	2	310	c.272G>A	c.(271-273)TGC>TAC	p.C91Y	PID1_uc002vps.3_Missense_Mutation_p.C89Y|PID1_uc002vpt.3_Missense_Mutation_p.C58Y|PID1_uc002vpu.3_Intron	NM_001100818	NP_001094288	Q7Z2X4	PCLI1_HUMAN	phosphotyrosine interaction domain containing 1	91						cytoplasm				breast(3)|skin(1)	4		Renal(207;0.0112)|all_lung(227;0.0191)|Lung NSC(271;0.0851)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.171)		Epithelial(121;3.08e-11)|all cancers(144;2.28e-08)|LUSC - Lung squamous cell carcinoma(224;0.0145)|Lung(261;0.0189)		CCATACCTTGCAGCCACTGTG	0.517													19	45					0	0	1	0	0		T	230020538	T	T	230020538	3	4	66	1	0	0	0	0	1	0	0	0	11901	710	25	2	488	2	PID1	2	230020538	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	129931	230020538	13178835	249	44325											
ALPP	250	broad.mit.edu	37	chr2	233244007	233244007	+	Silent	SNP	A	G	G																															ctggccatggaccgcttcccAtatgtggctctgtccaaggt																								rs1130339		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:233244007A>G	uc002vsq.2	+	3	456	c.291A>G	c.(289-291)CCA>CCG	p.P97P	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	97						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		ACCGCTTCCCATATGTGGCTC	0.572													8	27					0	0	1	0	0		G	233244007	G	G	233244007	2	3	66	1	0	0	0	0	0	0	0	1	548	204	8	3		3	ALPP	2	233244007	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3223469	233244007	9955366	250	44326	88	2									
ALPP	250	broad.mit.edu	37	chr2	233244010	233244010	+	Silent	SNP	T	C	C																															gccatggaccgcttcccataTgtggctctgtccaaggtaag																								rs1130340		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:233244010T>C	uc002vsq.2	+	3	459	c.294T>C	c.(292-294)TAT>TAC	p.Y98Y	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	98						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		GCTTCCCATATGTGGCTCTGT	0.567													8	26					0	0	1	0	0		C	233244010	C	C	233244010	2	2	66	1	0	0	0	0	0	0	0	1	548	1471	51	3		3	ALPP	2	233244010	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3	233244010	9955363	251	44327	88	2									
ECEL1	9427	broad.mit.edu	37	chr2	233350967	233350967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtggcgccgcagccaacCgccgcaggcgaacgagtaga	9	2	16	14	7	0	1	0	0	0	1	0	3	0	1	4	3	3	3	4	3	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:233350967C>T	uc002vsv.2	-	2	602	c.397G>A	c.(397-399)GGT>AGT	p.G133S	ECEL1_uc010fya.1_Missense_Mutation_p.G133S|ECEL1_uc010fyb.1_5'UTR	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	133	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		CGCAGCCAACCGCCGCAGGCG	0.682													5	8					0	0	1	0	0		T	233350967	T	T	233350967	3	4	66	1	0	0	0	0	1	0	0	0	4897	652	23	1	1998	1	ECEL1	2	233350967	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	106957	233350967	9848406	252	44328											
SH3BP4	23677	broad.mit.edu	37	chr2	235950020	235950020	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcaggtacatcctccttcAccgaatccagctcagccacc	10	7	6	18	2	2	0	2	0	0	0	5	1	5	0	6	1	3	3	6	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:235950020A>G	uc002vvp.2	+	4	1000	c.607A>G	c.(607-609)ACC>GCC	p.T203A	SH3BP4_uc010fym.2_Missense_Mutation_p.T203A|SH3BP4_uc002vvq.2_Missense_Mutation_p.T203A	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	203					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		ATCCTCCTTCACCGAATCCAG	0.542													35	34					0	0	1	0	0		G	235950020	G	G	235950020	3	3	66	1	0	0	0	0	1	0	0	0	14271	159	6	3	613	3	SH3BP4	2	235950020	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2599053	235950020	7249353	253	44329											
HDAC4	9759	broad.mit.edu	37	chr2	240002823	240002823	+	Frame_Shift_Del	DEL	G	-	-																															aagtactcagcgtctcccatGggggggtccaggccgccggt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:240002823delG	uc002vyk.3	-	22	3495	c.2703delC	c.(2701-2703)CCCfs	p.P901fs	HDAC4_uc010fyy.2_Frame_Shift_Del_p.P858fs	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	901	Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		CGTCTCCCATGGGGGGGTCCA	0.602													5	7	---	---	---	---						.	-	240002823	-	-	240002823	7	5	66	1	0	1	0	1	0	0	0	0	7025	1335	47	0	575	0	HDAC4	2	240002823	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	4052803	240002823	3196550	254	44330											
PASK	23178	broad.mit.edu	37	chr2	242051830	242051830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggatgatgtccttcaagcGcaggtatcccactgctgaca	9	10	11	11	1	1	2	1	2	0	0	3	3	3	3	2	2	2	3	2	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:242051830G>A	uc002wao.1	-	15	3450	c.3358C>T	c.(3358-3360)CGC>TGC	p.R1120C	PASK_uc010zol.1_Missense_Mutation_p.R934C|PASK_uc010zom.1_Missense_Mutation_p.R1085C|PASK_uc010fzl.1_Missense_Mutation_p.R1127C|PASK_uc010zon.1_Missense_Mutation_p.R901C	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	1120	Protein kinase.				regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		TCCTTCAAGCGCAGGTATCCC	0.458													11	10					0	0	1	0	0		A	242051830	A	A	242051830	3	1	66	1	0	0	0	0	1	0	0	0	11491	1087	38	1	629	1	PASK	2	242051830	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2049007	242051830	1147543	255	44331											
THAP4	51078	broad.mit.edu	37	chr2	242573298	242573300	+	In_Frame_Del	DEL	TCT	-	-																															gccatggcctccagccccccTcttcttctcggtcaggtgga																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr2:242573298_242573300delTCT	uc002wbt.2	-	2	495_497	c.272_274delAGA	c.(271-276)AAGAGG>AGG	p.K91del		NM_015963	NP_057047	Q8WY91	THAP4_HUMAN	THAP domain containing 4 isoform 1	91							DNA binding|metal ion binding				0		all_cancers(19;2.09e-34)|all_epithelial(40;2.09e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Ovarian(221;0.069)|Lung NSC(271;0.0886)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.2)		Epithelial(32;2.3e-33)|all cancers(36;8.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.68e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.65e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0844)		CCAGCCCCCCTCTTCTTCTCGGT	0.631													37	63	---	---	---	---						.	-	242573300	-	-	242573298	7	5	66	1	0	1	0	1	0	0	0	0	15871	1550	54	0	1487	0	THAP4	2	242573298	In_Frame_Del	DEL	TCT	TCGA-BR-8361-01A-11D-2340-08	521468	242573298	626075	256	44332											
OXTR	5021	broad.mit.edu	37	chr3	8809680	8809680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgcttctggcgtgtggtgCgcagcgccagcagcacacac	7	7	14	13	3	1	0	0	0	1	0	1	0	1	0	1	2	5	4	1	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:8809680C>T	uc003brc.2	-	3	816	c.194G>A	c.(193-195)CGC>CAC	p.R65H		NM_000916	NP_000907	P30559	OXYR_HUMAN	oxytocin receptor	65	Cytoplasmic (Potential).				female pregnancy|lactation|muscle contraction	integral to plasma membrane	oxytocin receptor activity|vasopressin receptor activity				0				OV - Ovarian serous cystadenocarcinoma(96;0.15)	Carbetocin(DB01282)	GCGTGTGGTGCGCAGCGCCAG	0.662													3	8					0	0	1	0	0		T	8809680	T	T	8809680	3	4	66	1	0	0	0	0	1	0	0	0	11357	768	27	1	983	1	OXTR	3	8809680	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08		8809680	189212750	257	44333											
TTLL3	26140	broad.mit.edu	37	chr3	9870735	9870735	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccagacaacatgtggtctAgccagaggttccaggcccac	10	6	11	14	1	1	2	0	0	1	2	2	2	2	2	4	3	2	1	4	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:9870735A>C	uc003btg.2	+	10	1426	c.1210A>C	c.(1210-1212)AGC>CGC	p.S404R	ARPC4_uc003btc.1_Missense_Mutation_p.S48R|TTLL3_uc003btd.3_Missense_Mutation_p.S371R|TTLL3_uc003btf.3_Missense_Mutation_p.S136R|TTLL3_uc010hco.1_Missense_Mutation_p.S340R|TTLL3_uc003bth.3_Missense_Mutation_p.S192R|TTLL3_uc011atj.1_Missense_Mutation_p.S340R|TTLL3_uc003btj.3_Missense_Mutation_p.S192R|TTLL3_uc003bti.3_Missense_Mutation_p.S192R	NM_001025930	NP_001021100	Q9Y4R7	TTLL3_HUMAN	tubulin tyrosine ligase-like family, member 3	404	TTL.				axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)					CATGTGGTCTAGCCAGAGGTT	0.577													16	40					0	0	1	0	0		C	9870735	C	C	9870735	3	2	66	1	0	0	0	0	1	0	0	0	16754	420	15	5	1244	5	TTLL3	3	9870735	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1061055	9870735	188151695	258	44334											
ATP2B2	491	broad.mit.edu	37	chr3	10392233	10392233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggaccgtgatgcctgccCgctggcacttgcggatggct	4	9	15	13	4	0	1	0	1	0	0	0	3	0	3	3	4	4	3	3	4	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:10392233C>T	uc003bvt.2	-	15	2604	c.2165G>A	c.(2164-2166)CGG>CAG	p.R722Q	ATP2B2_uc003bvv.2_Missense_Mutation_p.R677Q|ATP2B2_uc003bvw.2_Missense_Mutation_p.R677Q|ATP2B2_uc010hdo.2_Missense_Mutation_p.R427Q	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	722	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						GATGCCTGCCCGCTGGCACTT	0.632													21	29					0	0	1	0	0		T	10392233	T	T	10392233	3	4	66	1	0	0	0	0	1	0	0	0	1141	652	23	1	1602	1	ATP2B2	3	10392233	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	521498	10392233	187630197	259	44335											
SYN2	6854	broad.mit.edu	37	chr3	12187285	12187285	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtatgcaggcctccccAgcatcaactcactggaatcc	10	8	8	15	0	2	0	2	0	0	0	4	1	4	1	4	2	4	4	4	2	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:12187285A>G	uc003bwm.2	+	8	798	c.634A>G	c.(634-636)AGC>GGC	p.S212G	SYN2_uc003bwl.1_Missense_Mutation_p.S212G	NM_133625	NP_598328	Q92777	SYN2_HUMAN	synapsin II isoform IIa	212					neurotransmitter secretion	synaptic vesicle	ATP binding|ligase activity			ovary(1)|central_nervous_system(1)	2						AGGCCTCCCCAGCATCAACTC	0.552													28	62					0	0	1	0	0		G	12187285	G	G	12187285	3	3	66	1	0	0	0	0	1	0	0	0	15466	188	7	3	649	3	SYN2	3	12187285	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1795052	12187285	185835145	260	44336											
FGD5	152273	broad.mit.edu	37	chr3	14862557	14862557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagcgcttcctggcactgaCgtttaagaagaagacggaga	13	8	12	8	3	0	5	0	1	0	4	1	6	1	5	1	2	1	3	1	2	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:14862557C>T	uc003bzc.2	+	1	2089	c.1979C>T	c.(1978-1980)ACG>ATG	p.T660M	FGD5_uc011avk.1_Missense_Mutation_p.T660M	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	660					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						CTGGCACTGACGTTTAAGAAG	0.507													20	40					0	0	1	0	0		T	14862557	T	T	14862557	3	4	66	1	0	0	0	0	1	0	0	0	5850	536	19	1	1981	1	FGD5	3	14862557	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2675272	14862557	183159873	261	44337											
ANKRD28	23243	broad.mit.edu	37	chr3	15726870	15726870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagacaggtgtataggcGtccggcccctgctatcccga	8	7	12	14	3	0	1	0	0	0	1	2	2	2	1	4	3	2	3	4	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:15726870G>A	uc003caj.1	-	21	2305	c.2162C>T	c.(2161-2163)ACG>ATG	p.T721M	ANKRD28_uc003cai.1_Missense_Mutation_p.T567M|ANKRD28_uc011avz.1_Missense_Mutation_p.T567M|ANKRD28_uc003cak.1_RNA|ANKRD28_uc011awa.1_RNA|ANKRD28_uc003cal.1_Missense_Mutation_p.T751M|ANKRD28_uc003cam.2_Missense_Mutation_p.T754M	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28	721	ANK 21.					nucleoplasm	protein binding			breast(1)	1						GTGTATAGGCGTCCGGCCCCT	0.473													41	86					0	0	1	0	0		A	15726870	A	A	15726870	3	1	66	1	0	0	0	0	1	0	0	0	656	1145	40	1	1031	1	ANKRD28	3	15726870	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	864313	15726870	182295560	262	44338											
PLCL2	23228	broad.mit.edu	37	chr3	17056204	17056204	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcattccatttaacagaatgCggtggtgtcattcaaggagc	11	12	10	8	1	3	1	3	0	0	1	4	2	4	2	1	3	3	0	1	3	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:17056204C>A	uc011awc.1	+	6	2900	c.2795C>A	c.(2794-2796)GCG>GAG	p.A932E	PLCL2_uc011awd.1_Missense_Mutation_p.A814E	NM_001144382	NP_001137854	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2 isoform 1	940					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(2)|ovary(1)|lung(1)	4						TAACAGAATGCGGTGGTGTCA	0.453													28	98					5.45727e-16	5.84447e-16	1	1	0		A	17056204	A	A	17056204	3	1	66	1	0	0	0	0	1	0	0	0	12059	768	27	5	2823	5	PLCL2	3	17056204	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1329334	17056204	180966226	263	44339											
KCNH8	131096	broad.mit.edu	37	chr3	19384076	19384079	+	Splice_Site	DEL	CAGA	-	-																															taatgagttttattttccccCagacaaagtcaaaggaagat																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:19384076_19384079delCAGA	uc003cbk.1	+	4	638	c.443_splice	c.e4-1	p.D148_splice	KCNH8_uc011awe.1_Splice_Site_p.D148_splice|KCNH8_uc010hex.1_Splice_Site	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,							integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						TATTTTCCCCCAGACAAAGTCAAA	0.446													17	38	---	---	---	---						.	-	19384079	-	-	19384076	8	5	66	1	0	1	0	1	0	0	1	0	8054	609	21	0		0	KCNH8	3	19384076	Splice_Site	DEL	CAGA	TCGA-BR-8361-01A-11D-2340-08	2327872	19384076	178638354	264	44340											
KCNH8	131096	broad.mit.edu	37	chr3	19389422	19389422	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaactcggagcacaaccgTcagtgacattgcagtggaga	13	6	11	11	2	1	2	1	1	0	1	2	4	1	3	1	2	4	2	1	2	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:19389422T>C	uc003cbk.1	+	5	971	c.776T>C	c.(775-777)GTC>GCC	p.V259A	KCNH8_uc011awe.1_Missense_Mutation_p.V259A|KCNH8_uc010hex.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	259	Helical; Name=Segment S2; (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						AGCACAACCGTCAGTGACATT	0.403													36	72					0	0	1	0	0		C	19389422	C	C	19389422	3	2	66	1	0	0	0	0	1	0	0	0	8054	1667	58	3	794	3	KCNH8	3	19389422	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	5346	19389422	178633008	265	44341											
SGOL1	151648	broad.mit.edu	37	chr3	20212216	20212216	+	Frame_Shift_Del	DEL	T	-	-																															tcattgtatttgtttcatacTttttttagaacgtctcaaat																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:20212216delT	uc003cbs.2	-	8	1751	c.1564delA	c.(1564-1566)AGAfs	p.R522fs	SGOL1_uc003cbr.2_Frame_Shift_Del_p.R253fs|SGOL1_uc010hfa.2_Intron|SGOL1_uc003cbt.2_Frame_Shift_Del_p.R270fs|SGOL1_uc003cbu.2_Frame_Shift_Del_p.R522fs|SGOL1_uc003cbv.2_Frame_Shift_Del_p.R270fs|SGOL1_uc003cbw.2_Frame_Shift_Del_p.R253fs|SGOL1_uc003cbx.2_Frame_Shift_Del_p.S270fs|SGOL1_uc003cby.2_Frame_Shift_Del_p.S253fs|SGOL1_uc003cbz.2_Frame_Shift_Del_p.S522fs|SGOL1_uc003cca.2_Frame_Shift_Del_p.S522fs|SGOL1_uc003ccb.2_Frame_Shift_Del_p.S270fs|SGOL1_uc003ccc.2_Frame_Shift_Del_p.S253fs	NM_001012410	NP_001012410	Q5FBB7	SGOL1_HUMAN	shugoshin-like 1 isoform A2	522					attachment of spindle microtubules to kinetochore|cell division|centriole-centriole cohesion|meiotic chromosome segregation|mitotic prometaphase	centrosome|condensed chromosome kinetochore|cytosol|mitotic cohesin complex|spindle pole	protein binding				0						TGTTTCATACTTTTTTTAGAA	0.343													16	37	---	---	---	---						.	-	20212216	-	-	20212216	7	5	66	1	0	1	0	1	0	0	0	0	14241	1623	56	0	149	0	SGOL1	3	20212216	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	822794	20212216	177810214	266	44342											
LRRC3B	116135	broad.mit.edu	37	chr3	26751645	26751645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagttctgaggagcatggCgtccaatcatgagacagccc	11	7	12	11	1	2	2	1	2	1	1	3	4	3	3	2	2	2	3	2	2	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:26751645C>T	uc003cdp.2	+	2	1071	c.482C>T	c.(481-483)GCG>GTG	p.A161V	LRRC3B_uc003cdq.2_Missense_Mutation_p.A161V	NM_052953	NP_443185	Q96PB8	LRC3B_HUMAN	leucine rich repeat containing 3B precursor	161	LRRCT.					integral to membrane				pancreas(2)|ovary(1)|skin(1)	4						AGGAGCATGGCGTCCAATCAT	0.517													7	32					0	0	1	0	0		T	26751645	T	T	26751645	3	4	66	1	0	0	0	0	1	0	0	0	9014	768	27	1	484	1	LRRC3B	3	26751645	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	6539429	26751645	171270785	267	44343											
NEK10	152110	broad.mit.edu	37	chr3	27152802	27152802	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttggtcccccatggataGgaatgatacctataagattc	11	13	8	9	0	1	2	0	1	1	1	3	4	2	4	3	3	1	0	3	3	5	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:27152802G>T	uc010hfk.2	-	17	1645	c.1416C>A	c.(1414-1416)TCC>TCA	p.S472S	NEK10_uc010hfj.2_Silent_p.S415S			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	1160							ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						CCCATGGATAGGAATGATACC	0.368													17	51					2.35188e-11	2.48114e-11	1	1	0		T	27152802	T	T	27152802	2	4	66	1	0	0	0	0	0	0	0	1	10341	1015	35	5		5	NEK10	3	27152802	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	401157	27152802	170869628	268	44344											
SLC4A7	9497	broad.mit.edu	37	chr3	27436549	27436549	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagcagctattaataaggTccaccaaggattatctccca	15	10	6	10	0	1	0	0	0	1	0	3	1	2	1	3	2	2	2	3	2	7	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:27436549T>G	uc003cdv.2	-	19	2805	c.2734A>C	c.(2734-2736)ACC>CCC	p.T912P	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Missense_Mutation_p.T793P|SLC4A7_uc011aww.1_Missense_Mutation_p.T921P|SLC4A7_uc011awx.1_Missense_Mutation_p.T908P|SLC4A7_uc011awy.1_Missense_Mutation_p.T904P|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Missense_Mutation_p.T793P|SLC4A7_uc011axb.1_Missense_Mutation_p.T908P|SLC4A7_uc010hfl.2_Missense_Mutation_p.T462P|SLC4A7_uc003cdw.2_Missense_Mutation_p.T788P	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	912	Helical; (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						ATTAATAAGGTCCACCAAGGA	0.363													23	67					0	0	1	0	0		G	27436549	G	G	27436549	3	3	66	1	0	0	0	0	1	0	0	0	14683	1667	58	5	938	5	SLC4A7	3	27436549	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	283747	27436549	170585881	269	44345											
SLC4A7	9497	broad.mit.edu	37	chr3	27460079	27460079	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aattcatcaattccagataaGaggtcatttctgtcttttgc	11	16	6	8	0	5	2	3	0	2	2	6	2	6	2	1	1	1	0	1	1	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:27460079G>C	uc003cdv.2	-	11	1601	c.1530C>G	c.(1528-1530)CTC>CTG	p.L510L	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Silent_p.L391L|SLC4A7_uc011aww.1_Silent_p.L519L|SLC4A7_uc011awx.1_Silent_p.L506L|SLC4A7_uc011awy.1_Silent_p.L502L|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Silent_p.L391L|SLC4A7_uc011axb.1_Silent_p.L506L|SLC4A7_uc010hfl.2_Silent_p.L60L|SLC4A7_uc003cdw.2_Silent_p.L386L	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	510	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						TTCCAGATAAGAGGTCATTTC	0.333													10	42					0	0	1	0	0		C	27460079	C	C	27460079	2	2	66	1	0	0	0	0	0	0	0	1	14683	929	33	5		5	SLC4A7	3	27460079	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	23530	27460079	170562351	270	44346											
SLC4A7	9497	broad.mit.edu	37	chr3	27465559	27465559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacagtactattttctctgCttccaccacttccattacct	9	15	2	15	0	1	0	0	0	1	0	4	0	3	0	4	0	4	2	4	0	4	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:27465559C>T	uc003cdv.2	-	8	1279	c.1208G>A	c.(1207-1209)AGC>AAC	p.S403N	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Missense_Mutation_p.S284N|SLC4A7_uc011aww.1_Missense_Mutation_p.S412N|SLC4A7_uc011awx.1_Missense_Mutation_p.S399N|SLC4A7_uc011awy.1_Missense_Mutation_p.S395N|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Missense_Mutation_p.S284N|SLC4A7_uc011axb.1_Missense_Mutation_p.S399N|SLC4A7_uc010hfm.2_Missense_Mutation_p.S284N|SLC4A7_uc010hfl.2_Missense_Mutation_p.A6T|SLC4A7_uc003cdw.2_Missense_Mutation_p.S279N	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	403	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						ATTTTCTCTGCTTCCACCACT	0.353													13	73					0	0	1	0	0		T	27465559	T	T	27465559	3	4	66	1	0	0	0	0	1	0	0	0	14683	797	28	2	2508	2	SLC4A7	3	27465559	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	5480	27465559	170556871	271	44347											
GLB1	2720	broad.mit.edu	37	chr3	33110382	33110382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccagctcatgagccagcCgaagaaaatattccacatca	14	7	7	13	1	2	2	2	1	0	1	4	3	4	2	4	0	3	1	4	0	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:33110382C>T	uc003cfi.1	-	3	443	c.326G>A	c.(325-327)CGG>CAG	p.R109Q	GLB1_uc003cfh.1_Missense_Mutation_p.R79Q|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Missense_Mutation_p.R157Q	NM_000404	NP_000395	P16278	BGAL_HUMAN	galactosidase, beta 1 isoform a preproprotein	109					carbohydrate metabolic process	lysosome|perinuclear region of cytoplasm	beta-galactosidase activity|cation binding|protein binding			large_intestine(1)	1		Melanoma(143;0.104)				ATGAGCCAGCCGAAGAAAATA	0.552													20	69					0	0	1	0	0		T	33110382	T	T	33110382	3	4	66	1	0	0	0	0	1	0	0	0	6442	652	23	1	1763	1	GLB1	3	33110382	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	5644823	33110382	164912048	272	44348											
SUSD5	26032	broad.mit.edu	37	chr3	33255514	33255514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctgcagatgccaggtgagCgcccctgctcttgcaggaaa	8	8	13	12	1	2	2	0	1	2	1	2	3	2	3	3	2	5	3	3	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:33255514C>T	uc003cfo.1	-	2	614	c.196G>A	c.(196-198)GCT>ACT	p.A66T		NM_015551	NP_056366	O60279	SUSD5_HUMAN	sushi domain containing 5 precursor	66	Extracellular (Potential).|Link.				cell adhesion	integral to membrane	hyaluronic acid binding			ovary(1)|central_nervous_system(1)	2						GCCAGGTGAGCGCCCCTGCTC	0.562													15	44					0	0	1	0	0		T	33255514	T	T	33255514	3	4	66	1	0	0	0	0	1	0	0	0	15436	768	27	1	1709	1	SUSD5	3	33255514	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	145132	33255514	164766916	273	44349											
DCLK3	85443	broad.mit.edu	37	chr3	36779387	36779387	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcacctccctcagccccTcctctgtgacaggaagaact	8	10	6	17	0	4	2	2	1	2	1	6	3	6	3	5	1	2	0	5	1	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:36779387T>C	uc003cgi.2	-	2	1255	c.764A>G	c.(763-765)GAG>GGG	p.E255G		NM_033403	NP_208382	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	255						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			lung(3)|large_intestine(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	9						CCTCAGCCCCTCCTCTGTGAC	0.582													48	125					0	0	1	0	0		C	36779387	C	C	36779387	3	2	66	1	0	0	0	0	1	0	0	0	4296	1551	54	3	1198	3	DCLK3	3	36779387	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3523873	36779387	161243043	274	44350											
ITGA9	3680	broad.mit.edu	37	chr3	37670704	37670704	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcaggacgtcatcagcccGatcgtgtttgaagcagccta	9	9	12	11	3	2	1	2	1	0	0	3	3	2	2	2	1	4	3	2	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:37670704G>A	uc003chd.2	+	16	1769	c.1716G>A	c.(1714-1716)CCG>CCA	p.P572P	ITGA9_uc003chc.2_Silent_p.P572P	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	572	Extracellular (Potential).				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		TCATCAGCCCGATCGTGTTTG	0.418													13	48					0	0	1	0	0		A	37670704	A	A	37670704	2	1	66	1	0	0	0	0	0	0	0	1	7899	1045	37	1		1	ITGA9	3	37670704	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	891317	37670704	160351726	275	44351											
ACAA1	30	broad.mit.edu	37	chr3	38170828	38170828	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccttctccatcaagcgCgaagtaatatttccagggtt	9	14	7	11	2	3	0	1	0	2	0	6	1	4	0	3	1	1	2	3	1	4	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:38170828C>T	uc003cht.2	-	6	705	c.498G>A	c.(496-498)TCG>TCA	p.S166S	ACAA1_uc003chu.2_Intron|ACAA1_uc010hgy.2_Silent_p.S125S|ACAA1_uc010hgz.2_Silent_p.S166S|ACAA1_uc003chv.2_Silent_p.S14S	NM_001607	NP_001598	P09110	THIK_HUMAN	acetyl-Coenzyme A acyltransferase 1 isoform a	166					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy	peroxisomal matrix	acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0523)|Kidney(284;0.0657)		CCATCAAGCGCGAAGTAATAT	0.572													11	47					0	0	1	0	0		T	38170828	T	T	38170828	2	4	66	1	0	0	0	0	0	0	0	1	104	755	27	1		1	ACAA1	3	38170828	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	500124	38170828	159851602	276	44352											
ACVR2B	93	broad.mit.edu	37	chr3	38523799	38523799	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggggttggtgctgtgggaGcttgtgtctcgctgcaaggc	4	12	18	7	1	1	0	0	0	1	0	2	1	1	1	0	5	3	5	0	5	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:38523799G>A	uc003cif.2	+	9	1209	c.1185G>A	c.(1183-1185)GAG>GAA	p.E395E	ACVR2B_uc003cig.2_Silent_p.E186E	NM_001106	NP_001097	Q13705	AVR2B_HUMAN	activin A receptor, type IIB precursor	395	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|anterior/posterior pattern formation|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|regulation of transcription, DNA-dependent	cell surface|cytoplasm|integral to plasma membrane	activin receptor activity|ATP binding|growth factor binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)		TGCTGTGGGAGCTTGTGTCTC	0.567													10	31					0	0	1	0	0		A	38523799	A	A	38523799	2	1	66	1	0	0	0	0	0	0	0	1	224	962	34	2		2	ACVR2B	3	38523799	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	352971	38523799	159498631	277	44353											
SCN5A	6331	broad.mit.edu	37	chr3	38592894	38592894	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcccgatgttgaagaGggcaggcagggacatcatga	12	5	15	9	1	1	3	1	2	0	1	1	5	1	4	1	3	2	4	1	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:38592894G>T	uc003cio.2	-	28	5163	c.4969C>A	c.(4969-4971)CTC>ATC	p.L1657I	SCN5A_uc003cin.2_Missense_Mutation_p.L1656I|SCN5A_uc003cil.3_Missense_Mutation_p.L1657I|SCN5A_uc010hhi.2_Missense_Mutation_p.L1639I|SCN5A_uc010hhk.2_Missense_Mutation_p.L1624I|SCN5A_uc011ayr.1_Missense_Mutation_p.L1603I	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1657				L -> P (in Ref. 6; ABR15763/ABR15764).	blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	ATGTTGAAGAGGGCAGGCAGG	0.582													25	121					9.57634e-11	1.00726e-10	1	1	0		T	38592894	T	T	38592894	3	4	66	1	0	0	0	0	1	0	0	0	13947	1000	35	5	1085	5	SCN5A	3	38592894	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	69095	38592894	159429536	278	44354											
SCN5A	6331	broad.mit.edu	37	chr3	38671808	38671808	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgcaaaggatatgagtgaAccagaatcttcacagccgct	14	8	9	10	1	2	3	1	2	1	1	2	4	2	4	2	1	3	2	2	1	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:38671808A>G	uc003cio.2	-	3	580	c.386T>C	c.(385-387)GTT>GCT	p.V129A	SCN5A_uc003cin.2_Missense_Mutation_p.V129A|SCN5A_uc003cil.3_Missense_Mutation_p.V129A|SCN5A_uc010hhi.2_Missense_Mutation_p.V129A|SCN5A_uc010hhk.2_Missense_Mutation_p.V129A|SCN5A_uc011ayr.1_Missense_Mutation_p.V129A	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	129	Helical; Name=S1 of repeat I; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	ATATGAGTGAACCAGAATCTT	0.557													12	54					0	0	1	0	0		G	38671808	G	G	38671808	3	3	66	1	0	0	0	0	1	0	0	0	13947	43	2	3	5864	3	SCN5A	3	38671808	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	78914	38671808	159350622	279	44355											
SCN11A	11280	broad.mit.edu	37	chr3	38924806	38924806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatttggtagcaggttttcCgcaggttccaccaaatgacc	9	12	9	11	1	0	1	0	1	0	0	2	1	2	1	4	3	1	5	4	3	3	6	rs147061364	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:38924806C>T	uc011ays.1	-	18	3336	c.3137G>A	c.(3136-3138)CGG>CAG	p.R1046Q	SCN11A_uc010hhn.1_Missense_Mutation_p.R124Q	NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1046					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	GCAGGTTTTCCGCAGGTTCCA	0.453													14	73					0	0	1	0	0		T	38924806	T	T	38924806	3	4	66	1	0	0	0	0	1	0	0	0	13938	652	23	1	2274	1	SCN11A	3	38924806	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	252998	38924806	159097624	280	44356											
XIRP1	165904	broad.mit.edu	37	chr3	39226595	39226595	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggaaccttccatgggctGctctcctgaggggccggggc	4	8	17	12	1	1	1	0	1	1	0	3	2	2	2	4	6	2	2	4	6	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:39226595G>A	uc003cjk.1	-	2	4563	c.4342C>T	c.(4342-4344)CAG>TAG	p.Q1448*	XIRP1_uc003cji.2_3'UTR|XIRP1_uc003cjj.2_Nonsense_Mutation_p.Q131*	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	1448							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		TCCATGGGCTGCTCTCCTGAG	0.627													21	101					0	0	1	0	0		A	39226595	A	A	39226595	4	1	66	1	0	0	0	0	0	1	0	0	17455	1328	46	2	1193	2	XIRP1	3	39226595	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	301789	39226595	158795835	281	44357											
RPSA	3921	broad.mit.edu	37	chr3	39453198	39453198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggaagttctgcgcatgcGtggcaccatttcccgtgaac	7	10	12	12	4	1	1	0	1	1	0	3	2	2	2	2	2	3	3	2	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:39453198G>A	uc003cjp.2	+	5	642	c.557G>A	c.(556-558)CGT>CAT	p.R186H	RPSA_uc003cjq.2_Missense_Mutation_p.R191H|RPSA_uc003cjr.2_Missense_Mutation_p.R186H|RPSA_uc003cjt.2_RNA	NM_002295	NP_002286	P08865	RSSA_HUMAN	ribosomal protein SA	186					cell adhesion|endocrine pancreas development|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosomal small subunit assembly|rRNA export from nucleus|translational elongation|translational termination|viral transcription	90S preribosome|cytosolic small ribosomal subunit|nucleus|plasma membrane	protein binding|receptor activity|ribosome binding|structural constituent of ribosome			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0509)|Kidney(284;0.064)		CTGCGCATGCGTGGCACCATT	0.502													17	62					0	0	1	0	0		A	39453198	A	A	39453198	3	1	66	1	0	0	0	0	1	0	0	0	13688	1145	40	1	571	1	RPSA	3	39453198	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	226603	39453198	158569232	282	44358											
CCBP2	1238	broad.mit.edu	37	chr3	42906947	42906947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtatgccttctccagtcaccGcttccgccagtacctgaagg	7	10	9	15	2	2	1	1	1	1	0	4	1	3	1	6	1	2	3	6	1	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:42906947G>A	uc003cme.2	+	3	1132	c.953G>A	c.(952-954)CGC>CAC	p.R318H	CCBP2_uc003cmd.1_Intron|CCBP2_uc003cmf.2_Missense_Mutation_p.R318H|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Intron	NM_001296	NP_001287	O00590	CCBP2_HUMAN	chemokine binding protein 2	318	Cytoplasmic (Potential).				chemotaxis|immune response|multicellular organismal development	integral to plasma membrane	C-X-C chemokine receptor activity			lung(4)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.241)		TCCAGTCACCGCTTCCGCCAG	0.582													36	78					0	0	1	0	0		A	42906947	A	A	42906947	3	1	66	1	0	0	0	0	1	0	0	0	2737	1087	38	1	955	1	CCBP2	3	42906947	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3453749	42906947	155115483	283	44359											
ZNF35	7584	broad.mit.edu	37	chr3	44692631	44692631	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggtgaaaaaggaggaggaAgaagaagaaaacttcccagg	20	3	14	4	0	0	4	0	1	0	3	1	7	1	7	1	5	1	0	1	5	8	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:44692631A>G	uc003cnq.2	+	2	293	c.72A>G	c.(70-72)GAA>GAG	p.E24E	ZNF35_uc003cnr.2_5'UTR	NM_003420	NP_003411	P13682	ZNF35_HUMAN	zinc finger protein 35	24	Globular domain.|Poly-Glu.				cellular response to retinoic acid|spermatogenesis	nucleus|perinuclear region of cytoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(412;0.0228)		OV - Ovarian serous cystadenocarcinoma(275;2.49e-27)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)		AGGAGGAGGAAGAAGAAGAAA	0.537													21	39					0	0	1	0	0		G	44692631	G	G	44692631	2	3	66	1	0	0	0	0	0	0	0	1	17887	69	3	3		3	ZNF35	3	44692631	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1785684	44692631	153329799	284	44360											
KIF15	56992	broad.mit.edu	37	chr3	44893702	44893702	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggattgattacctgcaggaGatggaaatgttaaggaagca	14	10	13	4	0	0	2	0	1	0	1	0	6	0	5	1	4	3	3	1	4	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:44893702G>C	uc003cnx.3	+	34	4124	c.3975G>C	c.(3973-3975)GAG>GAC	p.E1325D	KIF15_uc010hiq.2_Missense_Mutation_p.E1228D|KIF15_uc010hir.2_Missense_Mutation_p.E373D	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	1325	Potential.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		ACCTGCAGGAGATGGAAATGT	0.413													11	35					0	0	1	0	0		C	44893702	C	C	44893702	3	2	66	1	0	0	0	0	1	0	0	0	8293	933	33	5	4109	5	KIF15	3	44893702	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	201071	44893702	153128728	285	44361											
ALS2CL	259173	broad.mit.edu	37	chr3	46722846	46722846	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcaaggaccccaaatccGtgccgcaggccctcctggaa	9	6	9	17	2	1	0	1	0	1	0	4	2	3	2	6	3	1	1	6	3	3	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:46722846G>A	uc003cqa.1	-	13	1516	c.1326C>T	c.(1324-1326)CAC>CAT	p.H442H	ALS2CL_uc003cpz.1_Translation_Start_Site|ALS2CL_uc003cqb.1_Silent_p.H442H|ALS2CL_uc003cqc.1_RNA	NM_147129	NP_667340	Q60I27	AL2CL_HUMAN	ALS2 C-terminal like isoform 1	442	MORN 4.				endosome organization|regulation of Rho protein signal transduction		GTPase activator activity|identical protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)|central_nervous_system(2)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000726)|KIRC - Kidney renal clear cell carcinoma(197;0.0171)|Kidney(197;0.0202)		CCCCAAATCCGTGCCGCAGGC	0.647													42	66					0	0	1	0	0		A	46722846	A	A	46722846	2	1	66	1	0	0	0	0	0	0	0	1	551	1136	40	1		1	ALS2CL	3	46722846	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1829144	46722846	151299584	286	44362											
NBEAL2	23218	broad.mit.edu	37	chr3	47049819	47049819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgccgcggacagtttgtagCggcactacggcctctgggtg	6	8	15	12	5	1	0	0	0	1	0	1	1	1	1	2	4	2	3	2	4	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:47049819C>T	uc003cqp.2	+	51	7945	c.7766C>T	c.(7765-7767)GCG>GTG	p.A2589V	NBEAL2_uc010hjm.1_Missense_Mutation_p.A1966V|NBEAL2_uc010hjn.1_Missense_Mutation_p.A955V|NBEAL2_uc010hjo.1_Missense_Mutation_p.A149V	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	2589	WD 4.						binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		CAGTTTGTAGCGGCACTACGG	0.582													9	11					0	0	1	0	0		T	47049819	T	T	47049819	3	4	66	1	0	0	0	0	1	0	0	0	10207	768	27	1	7968	1	NBEAL2	3	47049819	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	326973	47049819	150972611	287	44363											
PTPN23	25930	broad.mit.edu	37	chr3	47449901	47449901	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttgatgcctacagccacatCccaccccagctcatggagaa	11	7	7	16	0	1	2	1	1	0	1	2	3	2	2	5	1	4	1	5	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:47449901C>T	uc003crf.1	+	15	1347	c.1251C>T	c.(1249-1251)ATC>ATT	p.I417I	PTPN23_uc011baw.1_Silent_p.I382I|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Silent_p.I287I	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	417					cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		ACAGCCACATCCCACCCCAGC	0.597													16	46					0	0	1	0	0		T	47449901	T	T	47449901	2	4	66	1	0	0	0	0	0	0	0	1	12813	845	30	4		4	PTPN23	3	47449901	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	400082	47449901	150572529	288	44364											
COL7A1	1294	broad.mit.edu	37	chr3	48608692	48608692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ataccttgaaacctttgggtCctggagcccctttctgaccc	7	12	8	14	0	1	2	0	2	1	0	2	3	2	3	6	2	3	0	6	2	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:48608692C>T	uc003ctz.2	-	92	7089	c.7088G>A	c.(7087-7089)GGA>GAA	p.G2363E		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2363	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		ACCTTTGGGTCCTGGAGCCCC	0.527													7	24					0	0	1	0	0		T	48608692	T	T	48608692	3	4	66	1	0	0	0	0	1	0	0	0	3707	855	30	4	1854	4	COL7A1	3	48608692	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1158791	48608692	149413738	289	44365											
COL7A1	1294	broad.mit.edu	37	chr3	48630567	48630567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcacgccaccagcagtcGtgcacactctccgggaaacg	10	4	11	16	4	1	0	0	0	1	0	3	1	1	1	3	2	3	3	3	2	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:48630567G>A	uc003ctz.2	-	5	651	c.650C>T	c.(649-651)ACG>ATG	p.T217M		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	217	Nonhelical region (NC1).				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		ACCAGCAGTCGTGCACACTCT	0.592													16	25					0	0	1	0	0		A	48630567	A	A	48630567	3	1	66	1	0	0	0	0	1	0	0	0	3707	1145	40	1	8640	1	COL7A1	3	48630567	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	21875	48630567	149391863	290	44366											
CELSR3	1951	broad.mit.edu	37	chr3	48694579	48694579	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgccccctacgtctgtgtcGttctggatgttgaagatgaa	7	13	12	9	2	2	3	0	2	2	1	3	4	2	4	2	1	2	2	2	1	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:48694579G>A	uc003cul.2	-	2	4232	c.3951C>T	c.(3949-3951)AAC>AAT	p.N1317N	CELSR3_uc003cuf.1_Silent_p.N1387N	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1317	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CGTCTGTGTCGTTCTGGATGT	0.667													13	24					0	0	1	0	0		A	48694579	A	A	48694579	2	1	66	1	0	0	0	0	0	0	0	1	3226	1136	40	1		1	CELSR3	3	48694579	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	64012	48694579	149327851	291	44367											
IMPDH2	3615	broad.mit.edu	37	chr3	49064248	49064248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaggctagtgggtagtcccGattcttcttcaggtctgtcc	5	13	13	10	1	4	0	1	0	3	0	6	2	6	1	2	4	0	2	2	4	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:49064248G>A	uc003cvt.2	-	7	783	c.691C>T	c.(691-693)CGG>TGG	p.R231W		NM_000884	NP_000875	P12268	IMDH2_HUMAN	inosine monophosphate dehydrogenase 2	231	CBS 2.				GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	IMP dehydrogenase activity|metal ion binding|nucleotide binding|protein binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)	GGGTAGTCCCGATTCTTCTTC	0.517													41	107					0	0	1	0	0		A	49064248	A	A	49064248	3	1	66	1	0	0	0	0	1	0	0	0	7743	1057	37	1	885	1	IMPDH2	3	49064248	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	369669	49064248	148958182	292	44368											
MST1	4485	broad.mit.edu	37	chr3	49724498	49724498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccattgcaccagacacacgCggctggagacaaagagccag	13	3	12	13	2	0	3	0	0	0	3	0	4	0	3	3	2	2	2	3	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:49724498C>T	uc003cxg.2	-	6	682	c.610G>A	c.(610-612)GCG>ACG	p.A204T	MST1_uc011bcs.1_Missense_Mutation_p.A204T|MST1_uc010hkx.2_Missense_Mutation_p.A125T|MST1_uc011bct.1_Missense_Mutation_p.A204T|MST1_uc011bcu.1_RNA|RNF123_uc003cxh.2_5'Flank	NM_020998	NP_066278	P26927	HGFL_HUMAN	macrophage stimulating 1 (hepatocyte growth	190					proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CAGACACACGCGGCTGGAGAC	0.657													13	40					0	0	1	0	0		T	49724498	T	T	49724498	3	4	66	1	0	0	0	0	1	0	0	0	9908	768	27	1	1619	1	MST1	3	49724498	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	660250	49724498	148297932	293	44369											
SLC38A3	10991	broad.mit.edu	37	chr3	50253036	50253036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaccccaggaaagctggcagCagccctggccatcacgctcc	9	4	11	17	1	1	0	1	0	0	0	2	2	2	1	5	3	3	4	5	3	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:50253036C>T	uc003cyn.3	+	6	575	c.434C>T	c.(433-435)GCA>GTA	p.A145V	SLC38A3_uc011bdl.1_Missense_Mutation_p.A120V|SLC38A3_uc011bdm.1_Missense_Mutation_p.A76V	NM_006841	NP_006832	Q99624	S38A3_HUMAN	solute carrier family 38, member 3	145	Helical; (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to plasma membrane	antiporter activity|L-alanine transmembrane transporter activity|L-asparagine transmembrane transporter activity|L-glutamine transmembrane transporter activity|L-histidine transmembrane transporter activity|symporter activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000275)|KIRC - Kidney renal clear cell carcinoma(197;0.00548)|Kidney(197;0.00615)	L-Asparagine(DB00174)|L-Glutamine(DB00130)|L-Histidine(DB00117)	AAGCTGGCAGCAGCCCTGGCC	0.622													11	26					0	0	1	0	0		T	50253036	T	T	50253036	3	4	66	1	0	0	0	0	1	0	0	0	14630	710	25	2	452	2	SLC38A3	3	50253036	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	528538	50253036	147769394	294	44370											
HYAL2	8692	broad.mit.edu	37	chr3	50355798	50355798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcatggccaggcactaggCggaaactgttggtgctgaga	9	8	16	8	1	0	1	0	1	0	1	0	3	0	2	1	5	3	4	1	5	2	2	rs143678537		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:50355798C>T	uc003czu.2	-	4	1404	c.1184G>A	c.(1183-1185)CGC>CAC	p.R395H	HYAL2_uc003czx.2_Missense_Mutation_p.R395H|HYAL2_uc003czv.2_Missense_Mutation_p.R395H|HYAL2_uc003czw.2_Missense_Mutation_p.R395H	NM_033158	NP_149348	Q12891	HYAL2_HUMAN	hyaluronoglucosaminidase 2 precursor	395	EGF-like.					anchored to membrane|lysosome|plasma membrane	hyalurononglucosaminidase activity|receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)	Hyaluronidase(DB00070)	AGGCACTAGGCGGAAACTGTT	0.632													12	46					0	0	1	0	0		T	50355798	T	T	50355798	3	4	66	1	0	0	0	0	1	0	0	0	7480	768	27	1	241	1	HYAL2	3	50355798	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	102762	50355798	147666632	295	44371											
GRM2	2912	broad.mit.edu	37	chr3	51749521	51749521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcaccatcgcctgcctcGgtgccctggccaccctcttt	3	11	8	19	2	2	0	1	0	1	0	4	0	2	0	6	2	2	0	6	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:51749521G>A	uc010hlv.2	+	4	1971	c.1732G>A	c.(1732-1734)GGT>AGT	p.G578S	GRM2_uc003dbo.3_5'UTR|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	578	Helical; Name=1; (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	CGCCTGCCTCGGTGCCCTGGC	0.642													14	47					0	0	1	0	0		A	51749521	A	A	51749521	3	1	66	1	0	0	0	0	1	0	0	0	6813	1116	39	1	1742	1	GRM2	3	51749521	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1393723	51749521	146272909	296	44372											
PCBP4	57060	broad.mit.edu	37	chr3	51992261	51992261	+	Frame_Shift_Del	DEL	G	-	-																															agggtgtgcccagcaggccaGggggagctgtgggcagggcc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:51992261delG	uc003dcd.1	-	12	1424	c.1028delC	c.(1027-1029)CCTfs	p.P343fs	PCBP4_uc003dcb.1_Frame_Shift_Del_p.P309fs|PCBP4_uc003dcc.1_Frame_Shift_Del_p.P364fs|PCBP4_uc003dce.1_Frame_Shift_Del_p.P344fs|PCBP4_uc003dcf.1_Frame_Shift_Del_p.P343fs|PCBP4_uc003dcg.1_Frame_Shift_Del_p.P309fs|PCBP4_uc003dch.1_Frame_Shift_Del_p.P343fs|PCBP4_uc003dci.1_Frame_Shift_Del_p.P183fs|PCBP4_uc003dcj.1_Frame_Shift_Del_p.P343fs|PCBP4_uc003dck.1_Frame_Shift_Del_p.P300fs|PCBP4_uc003dcl.1_Intron	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	343						cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CAGCAGGCCAGGGGGAGCTGT	0.687													19	35	---	---	---	---						.	-	51992261	-	-	51992261	7	5	66	1	0	1	0	1	0	0	0	0	11522	1000	35	0	187	0	PCBP4	3	51992261	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	242740	51992261	146030169	297	44373											
DNAH1	25981	broad.mit.edu	37	chr3	52406352	52406352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcctcaccttctcagcccGcacttcagccaaccagaccc	8	8	4	21	1	3	1	3	0	1	1	5	1	4	1	6	0	3	1	6	0	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:52406352G>A	uc011bef.1	+	43	7037	c.6776G>A	c.(6775-6777)CGC>CAC	p.R2259H		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2259	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TTCTCAGCCCGCACTTCAGCC	0.592													20	20					0	0	1	0	0		A	52406352	A	A	52406352	3	1	66	1	0	0	0	0	1	0	0	0	4603	1087	38	1	6942	1	DNAH1	3	52406352	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	414091	52406352	145616078	298	44374											
BAP1	8314	broad.mit.edu	37	chr3	52442054	52442054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgcagttcaggagcaCgctcagcaaggcatgagttg	9	8	14	10	1	2	1	2	1	0	0	2	2	2	2	0	2	4	9	0	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:52442054C>T	uc003ddx.2	-	5	410	c.295G>A	c.(295-297)GTG>ATG	p.V99M	PHF7_uc003ddy.2_5'Flank|PHF7_uc003ddz.2_5'Flank	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	99					monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		TTCAGGAGCACGCTCAGCAAG	0.557			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								7	15					0	0	1	0	0		T	52442054	T	T	52442054	3	4	66	1	0	0	0	0	1	0	0	0	1312	536	19	1	1946	1	BAP1	3	52442054	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	35702	52442054	145580376	299	44375											
ITIH4	3700	broad.mit.edu	37	chr3	52861195	52861195	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccttgatgatccctgggtaGgtcatgccatcgatgatcct	7	13	10	11	1	1	3	1	3	0	0	5	4	4	3	4	2	1	1	4	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:52861195G>T	uc003dfz.2	-	3	306	c.270C>A	c.(268-270)ACC>ACA	p.T90T	ITIH4_uc011bel.1_5'Flank|ITIH4_uc003dfy.2_5'Flank|ITIH4_uc011bem.1_Silent_p.T90T|ITIH4_uc011ben.1_Silent_p.T90T	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	90	VIT.				acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		TCCCTGGGTAGGTCATGCCAT	0.612													12	44					7.03913e-09	7.34698e-09	1	1	0		T	52861195	T	T	52861195	2	4	66	1	0	0	0	0	0	0	0	1	7922	987	35	5		5	ITIH4	3	52861195	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	419141	52861195	145161235	300	44376											
CHDH	55349	broad.mit.edu	37	chr3	53852023	53852023	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaccacggcagtgggatcGgagggctggcccatcttaca	8	7	13	13	2	1	0	0	0	1	0	3	2	2	2	3	5	1	2	3	5	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:53852023G>A	uc003dgz.2	-	9	2006	c.1566C>T	c.(1564-1566)TCC>TCT	p.S522S		NM_018397	NP_060867	Q8NE62	CHDH_HUMAN	choline dehydrogenase precursor	522					alcohol metabolic process		choline dehydrogenase activity|flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		Hepatocellular(537;0.152)		BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)	Choline(DB00122)	CAGTGGGATCGGAGGGCTGGC	0.592													28	74					0	0	1	0	0		A	53852023	A	A	53852023	2	1	66	1	0	0	0	0	0	0	0	1	3336	1103	39	1		1	CHDH	3	53852023	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	990828	53852023	144170407	301	44377											
CACNA2D3	55799	broad.mit.edu	37	chr3	54933814	54933814	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtgttttttcttttcacaGgaccagtcaataaaagcaat	12	15	7	7	0	3	0	2	0	1	0	3	1	3	1	1	2	1	2	1	2	4	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:54933814G>T	uc003dhf.2	+	27	2417	c.2369_splice	c.e27-1	p.G790_splice	CACNA2D3_uc003dhg.1_Splice_Site_p.G696_splice|CACNA2D3_uc003dhh.1_Splice_Site|uc003dhk.1_Intron	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha							integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		TCTTTTCACAGGACCAGTCAA	0.388													5	13					0.000602214	0.000609462	1	1	0		T	54933814	T	T	54933814	5	4	66	1	0	0	0	0	0	0	1	0	2553	1014	35	5	2474	5	CACNA2D3	3	54933814	Splice_Site	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1081791	54933814	143088616	302	44378											
ERC2	26059	broad.mit.edu	37	chr3	56052950	56052950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagcttcctctagcgtcGccagtgcagtatctgtatta	9	12	9	11	2	2	1	0	0	2	1	4	1	3	1	2	0	3	4	2	0	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:56052950G>A	uc003dhr.1	-	8	2007	c.1751C>T	c.(1750-1752)GCG>GTG	p.A584V	ERC2_uc003dht.1_Missense_Mutation_p.A55V	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	584	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		CTCTAGCGTCGCCAGTGCAGT	0.468													18	35					0	0	1	0	0		A	56052950	A	A	56052950	3	1	66	1	0	0	0	0	1	0	0	0	5219	1087	38	1	1152	1	ERC2	3	56052950	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1119136	56052950	141969480	303	44379											
FEZF2	55079	broad.mit.edu	37	chr3	62357717	62357717	+	Frame_Shift_Del	DEL	T	-	-																															cgcacacctcgcaggtgaagTttttgggcttgccatctgcg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:62357717delT	uc003dlh.2	-	1	1034	c.827delA	c.(826-828)AACfs	p.N276fs	FEZF2_uc003dli.2_Frame_Shift_Del_p.N276fs	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	276					transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		GCAGGTGAAGTTTTTGGGCTT	0.677													7	4	---	---	---	---						.	-	62357717	-	-	62357717	7	5	66	1	0	1	0	1	0	0	0	0	5840	1725	60	0	568	0	FEZF2	3	62357717	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	6304767	62357717	135664713	304	44380											
CADPS	8618	broad.mit.edu	37	chr3	62501777	62501777	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccgagaatagttgactaaCgcagcctgttccagacattt	12	10	9	10	2	0	3	0	1	0	2	1	4	1	3	3	0	3	3	3	0	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:62501777C>T	uc003dll.2	-	16	2898	c.2538G>A	c.(2536-2538)GCG>GCA	p.A846A	CADPS_uc003dlk.1_Silent_p.A350A|CADPS_uc003dlm.2_Silent_p.A846A|CADPS_uc003dln.2_Silent_p.A829A	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	846	Interaction with DRD2.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		AGTTGACTAACGCAGCCTGTT	0.438													22	62					0	0	1	0	0		T	62501777	T	T	62501777	2	4	66	1	0	0	0	0	0	0	0	1	2573	523	19	1		1	CADPS	3	62501777	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	144060	62501777	135520653	305	44381											
PRICKLE2	166336	broad.mit.edu	37	chr3	64138947	64138947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccctccttcatgatgtagCgctggccgcccagcactgtc	5	11	9	16	2	1	1	1	1	0	0	4	1	3	1	4	1	2	3	4	1	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:64138947C>T	uc003dmf.2	-	6	1284	c.698G>A	c.(697-699)CGC>CAC	p.R233H		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	233	LIM zinc-binding 2.					cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		CATGATGTAGCGCTGGCCGCC	0.507													38	81					0	0	1	0	0		T	64138947	T	T	64138947	3	4	66	1	0	0	0	0	1	0	0	0	12509	768	27	1	1848	1	PRICKLE2	3	64138947	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1637170	64138947	133883483	306	44382											
ADAMTS9	56999	broad.mit.edu	37	chr3	64526832	64526832	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactggaaaacccagcggcCgtgtaatccttccgacattg	12	8	9	12	3	0	0	0	0	0	0	2	2	2	1	4	2	3	1	4	2	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:64526832C>T	uc003dmg.2	-	36	5492	c.5460G>A	c.(5458-5460)ACG>ACA	p.T1820T	ADAMTS9_uc011bfo.1_Silent_p.T1792T|ADAMTS9_uc011bfp.1_Silent_p.T731T	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1820	GON.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		ACCCAGCGGCCGTGTAATCCT	0.463													20	65					0	0	1	0	0		T	64526832	T	T	64526832	2	4	66	1	0	0	0	0	0	0	0	1	273	639	23	1		1	ADAMTS9	3	64526832	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	387885	64526832	133495598	307	44383											
FRMD4B	23150	broad.mit.edu	37	chr3	69299230	69299230	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctaacttgaagatggtttcGctctctacttcgatttgccc	7	15	8	11	2	1	2	0	1	1	1	4	3	1	2	1	1	3	3	1	1	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:69299230G>A	uc003dnv.2	-	6	812	c.522C>T	c.(520-522)AGC>AGT	p.S174S	FRMD4B_uc003dnw.2_Intron|FRMD4B_uc003dnx.1_Silent_p.S120S|FRMD4B_uc011bga.1_Silent_p.S18S	NM_015123	NP_055938	Q9Y2L6	FRM4B_HUMAN	FERM domain containing 4B	174	FERM.					cytoplasm|cytoskeleton	binding			ovary(3)|central_nervous_system(1)	4		Lung NSC(201;0.0138)|Prostate(884;0.11)		BRCA - Breast invasive adenocarcinoma(55;0.000201)|Epithelial(33;0.00141)|LUSC - Lung squamous cell carcinoma(21;0.00999)|Lung(16;0.0182)		AGATGGTTTCGCTCTCTACTT	0.438													44	185					0	0	1	0	0		A	69299230	A	A	69299230	2	1	66	1	0	0	0	0	0	0	0	1	6066	1078	38	1		1	FRMD4B	3	69299230	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4772398	69299230	128723200	308	44384											
MITF	4286	broad.mit.edu	37	chr3	70005622	70005622	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagttgaacgaagaagaagAtttaacataaatgaccgcat	19	8	9	5	2	0	5	0	2	0	3	0	7	0	5	1	0	2	2	1	0	8	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:70005622A>C	uc003dnz.2	+	8	1070	c.954A>C	c.(952-954)AGA>AGC	p.R318S	MITF_uc011bgb.1_Missense_Mutation_p.R266S|MITF_uc003doa.2_Missense_Mutation_p.R317S|MITF_uc003dob.2_Missense_Mutation_p.R302S|MITF_uc003dod.2_Missense_Mutation_p.R293S|MITF_uc003doe.2_Missense_Mutation_p.R211S|MITF_uc003dof.2_Missense_Mutation_p.R217S	NM_198159	NP_937802	O75030	MITF_HUMAN	microphthalmia-associated transcription factor	324	Basic motif.		Missing (in WS2A).		melanocyte differentiation|multicellular organismal development|protein complex assembly	nucleus|protein complex	DNA binding|protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			ovary(2)	2		Lung NSC(201;0.0384)|Prostate(884;0.0526)		BRCA - Breast invasive adenocarcinoma(55;3.07e-05)|Epithelial(33;0.000138)|LUSC - Lung squamous cell carcinoma(21;0.008)|Lung(16;0.0107)|KIRC - Kidney renal clear cell carcinoma(39;0.204)|Kidney(39;0.239)		GAAGAAGAAGATTTAACATAA	0.363			A		melanoma 		Waardenburg syndrome type 2|Tietz syndrome						12	39					0	0	1	0	0		C	70005622	C	C	70005622	3	2	66	1	0	0	0	0	1	0	0	0	9614	330	12	5	1223	5	MITF	3	70005622	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	706392	70005622	128016808	309	44385											
PDZRN3	23024	broad.mit.edu	37	chr3	73432578	73432578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtccggggattttgtgcCgtgggttaagagttcttgga	5	13	16	7	3	1	1	0	0	1	1	2	3	2	3	3	4	1	2	3	4	1	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:73432578C>T	uc003dpl.1	-	10	3235	c.3139G>A	c.(3139-3141)GGC>AGC	p.G1047S	PDZRN3_uc011bgh.1_Missense_Mutation_p.G704S|PDZRN3_uc010hoe.1_Missense_Mutation_p.G745S|PDZRN3_uc011bgf.1_Missense_Mutation_p.G764S|PDZRN3_uc011bgg.1_Missense_Mutation_p.G767S	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	1047							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GATTTTGTGCCGTGGGTTAAG	0.408													68	210					0	0	1	0	0		T	73432578	T	T	73432578	3	4	66	1	0	0	0	0	1	0	0	0	11728	652	23	1	65	1	PDZRN3	3	73432578	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3426956	73432578	124589852	310	44386											
PROS1	5627	broad.mit.edu	37	chr3	93619652	93619652	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaccatcatcctaccttcAcaagactttgatttgagatt	12	13	4	12	0	2	3	2	2	0	2	3	4	3	3	4	0	1	0	4	0	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:93619652A>G	uc003drb.3	-	7	1064	c.723T>C	c.(721-723)TGT>TGC	p.C241C	PROS1_uc010hoo.2_Silent_p.C110C|PROS1_uc003dqz.3_Silent_p.C110C	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	241	EGF-like 3; calcium-binding (Potential).		C -> S (in PROS1D).		leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	TCCTACCTTCACAAGACTTTG	0.433													15	71					0	0	1	0	0		G	93619652	G	G	93619652	2	3	66	1	0	0	0	0	0	0	0	1	12580	157	6	3		3	PROS1	3	93619652	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	20187074	93619652	104402778	311	44387											
GABRR3	200959	broad.mit.edu	37	chr3	97705698	97705698	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcggtgctggggctgcatatCgattttcttctcatgaagtc	6	15	11	9	2	2	1	1	1	2	0	6	2	2	1	0	3	2	3	0	3	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:97705698C>T	uc011bgr.1	-	9	1233	c.1233G>A	c.(1231-1233)TCG>TCA	p.S411S		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	411	Cytoplasmic (Potential).|Interaction with SQSTM1 (By similarity).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0						GGCTGCATATCGATTTTCTTC	0.433													3	20					0	0	1	0	0		T	97705698	T	T	97705698	2	4	66	1	0	0	0	0	0	0	0	1	6192	871	31	1		1	GABRR3	3	97705698	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4086046	97705698	100316732	312	44388											
OR5H15	403274	broad.mit.edu	37	chr3	97887908	97887908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaacaatggcatatgatcGctatgtagccatatgcaaac	14	9	9	9	1	0	1	0	1	0	0	1	1	0	1	1	2	4	5	1	2	7	4	rs147604293	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:97887908G>A	uc011bgu.1	+	1	365	c.365G>A	c.(364-366)CGC>CAC	p.R122H		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCATATGATCGCTATGTAGCC	0.373													53	158					0	0	1	0	0		A	97887908	A	A	97887908	3	1	66	1	0	0	0	0	1	0	0	0	11180	1087	38	1	367	1	OR5H15	3	97887908	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	182210	97887908	100134522	313	44389											
FILIP1L	11259	broad.mit.edu	37	chr3	99567819	99567819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtaacctttatatgaagtgGctgcccaggtgtgtggctta	9	13	12	7	0	0	1	0	1	0	0	0	1	0	1	2	3	2	3	2	3	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:99567819G>A	uc003dtm.2	-	5	3164	c.2701C>T	c.(2701-2703)CCA>TCA	p.P901S	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.P901S|FILIP1L_uc010hpf.2_Missense_Mutation_p.P477S|FILIP1L_uc010hpg.2_Missense_Mutation_p.P661S|FILIP1L_uc003dtn.2_Missense_Mutation_p.P661S|FILIP1L_uc003dtp.1_Missense_Mutation_p.P661S	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	901						cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						ATATGAAGTGGCTGCCCAGGT	0.463													72	265					0	0	1	0	0		A	99567819	A	A	99567819	3	1	66	1	0	0	0	0	1	0	0	0	5909	1203	42	2	735	2	FILIP1L	3	99567819	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1679911	99567819	98454611	314	44390											
FILIP1L	11259	broad.mit.edu	37	chr3	99569276	99569276	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactgagtttttcaacctctAgtttaaagtctttactctgt	9	19	5	8	0	4	1	1	1	3	0	4	1	4	1	1	0	3	2	1	0	6	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:99569276A>G	uc003dtm.2	-	5	1707	c.1244T>C	c.(1243-1245)CTA>CCA	p.L415P	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.L415P|FILIP1L_uc010hpf.2_Intron|FILIP1L_uc010hpg.2_Missense_Mutation_p.L175P|FILIP1L_uc003dtn.2_Missense_Mutation_p.L175P|FILIP1L_uc003dtp.1_Missense_Mutation_p.L175P	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	415	Potential.					cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						TTCAACCTCTAGTTTAAAGTC	0.373													44	156					0	0	1	0	0		G	99569276	G	G	99569276	3	3	66	1	0	0	0	0	1	0	0	0	5909	420	15	3	2192	3	FILIP1L	3	99569276	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1457	99569276	98453154	315	44391											
ABI3BP	25890	broad.mit.edu	37	chr3	100567662	100567662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccaggtttggttcttggcGgtttgggccgggggcgtcgt	2	13	18	8	4	1	0	0	0	1	0	2	0	1	0	2	7	1	3	2	7	1	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:100567662G>A	uc003dun.2	-	16	1518	c.1433C>T	c.(1432-1434)CCG>CTG	p.P478L	ABI3BP_uc003duo.2_Missense_Mutation_p.P520L|ABI3BP_uc011bhd.1_5'Flank|ABI3BP_uc003dum.2_5'Flank	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	478	Pro-rich.					extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						GGTTCTTGGCGGTTTGGGCCG	0.353													9	47					0	0	1	0	0		A	100567662	A	A	100567662	3	1	66	1	0	0	0	0	1	0	0	0	91	1116	39	1	1874	1	ABI3BP	3	100567662	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	998386	100567662	97454768	316	44392											
ABI3BP	25890	broad.mit.edu	37	chr3	100593724	100593724	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctgaaatctcaaacattaGggatgcaggaagttttacag	15	11	9	6	0	2	1	1	1	2	0	3	3	2	3	0	2	3	2	0	2	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:100593724G>T	uc003dun.2	-	9	977	c.892C>A	c.(892-894)CTA>ATA	p.L298I	ABI3BP_uc003duo.2_Missense_Mutation_p.L291I|ABI3BP_uc003dup.3_Missense_Mutation_p.L291I	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	298						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						TCAAACATTAGGGATGCAGGA	0.353													4	10					1.23904e-05	1.26775e-05	1	1	0		T	100593724	T	T	100593724	3	4	66	1	0	0	0	0	1	0	0	0	91	991	35	5	2443	5	ABI3BP	3	100593724	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	26062	100593724	97428706	317	44393											
GUCA1C	9626	broad.mit.edu	37	chr3	108672475	108672475	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgattcagaccttgcagAcccaaaagtgtcttaaattc	12	13	6	10	0	3	3	1	1	2	2	4	3	3	3	2	0	1	1	2	0	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:108672475A>T	uc003dxj.2	-	1	203	c.135T>A	c.(133-135)GGT>GGA	p.G45G	GUCA1C_uc003dxk.2_Silent_p.G45G	NM_005459	NP_005450	O95843	GUC1C_HUMAN	guanylate cyclase activator 1C	45	EF-hand 1.				signal transduction|visual perception		calcium ion binding|calcium sensitive guanylate cyclase activator activity				0						GACCTTGCAGACCCAAAAGTG	0.368													7	144					0	0	1	0	0		T	108672475	T	T	108672475	2	4	66	1	0	0	0	0	0	0	0	1	6906	262	10	5		5	GUCA1C	3	108672475	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	8078751	108672475	89349955	318	44394											
PHLDB2	90102	broad.mit.edu	37	chr3	111603433	111603433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttggagggctggaaggtcGgaaggcatctggctcgctcc	6	9	16	10	2	2	0	0	0	2	0	5	3	3	3	1	7	0	4	1	7	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:111603433G>A	uc010hqa.2	+	2	920	c.509G>A	c.(508-510)CGG>CAG	p.R170Q	PHLDB2_uc003dyc.2_Missense_Mutation_p.R197Q|PHLDB2_uc003dyd.2_Missense_Mutation_p.R170Q|PHLDB2_uc003dyg.2_Missense_Mutation_p.R170Q|PHLDB2_uc003dyh.2_Missense_Mutation_p.R170Q|PHLDB2_uc003dye.3_Missense_Mutation_p.R170Q|PHLDB2_uc003dyf.3_Missense_Mutation_p.R170Q	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	170						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						CTGGAAGGTCGGAAGGCATCT	0.547													27	85					0	0	1	0	0		A	111603433	A	A	111603433	3	1	66	1	0	0	0	0	1	0	0	0	11871	1116	39	1	596	1	PHLDB2	3	111603433	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2930958	111603433	86418997	319	44395											
PHLDB2	90102	broad.mit.edu	37	chr3	111604167	111604167	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttcgggaacggaaaagcAgtattagctccatttcagga	12	9	10	10	2	1	0	1	0	0	0	3	3	2	3	2	3	3	3	2	3	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:111604167A>G	uc010hqa.2	+	2	1654	c.1243A>G	c.(1243-1245)AGT>GGT	p.S415G	PHLDB2_uc003dyc.2_Missense_Mutation_p.S442G|PHLDB2_uc003dyd.2_Missense_Mutation_p.S415G|PHLDB2_uc003dyg.2_Missense_Mutation_p.S415G|PHLDB2_uc003dyh.2_Missense_Mutation_p.S415G|PHLDB2_uc003dye.3_Missense_Mutation_p.S415G|PHLDB2_uc003dyf.3_Missense_Mutation_p.S415G	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	415						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						ACGGAAAAGCAGTATTAGCTC	0.517													23	92					0	0	1	0	0		G	111604167	G	G	111604167	3	3	66	1	0	0	0	0	1	0	0	0	11871	188	7	3	1330	3	PHLDB2	3	111604167	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	734	111604167	86418263	320	44396											
CD200	4345	broad.mit.edu	37	chr3	112063825	112063825	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagtgcaagtggtgacccaGgatgaaagagagcagctgta	14	7	14	6	0	0	3	0	2	0	1	0	5	0	4	1	2	3	4	1	2	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:112063825G>A	uc003dyw.2	+	4	330	c.186G>A	c.(184-186)CAG>CAA	p.Q62Q	CD200_uc010hqd.1_5'UTR|CD200_uc003dyx.2_Silent_p.Q37Q|CD200_uc003dyy.2_5'UTR|CD200_uc003dyz.2_5'UTR	NM_001004196	NP_001004196	P41217	OX2G_HUMAN	CD200 antigen isoform b	37	Ig-like V-type.|Extracellular (Potential).				regulation of immune response	integral to plasma membrane					0		Acute lymphoblastic leukemia(4;1.7e-08)|all_hematologic(4;8.82e-05)				TGGTGACCCAGGATGAAAGAG	0.363													15	53					0	0	1	0	0		A	112063825	A	A	112063825	2	1	66	1	0	0	0	0	0	0	0	1	2983	991	35	4		4	CD200	3	112063825	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	459658	112063825	85958605	321	44397											
BOC	91653	broad.mit.edu	37	chr3	112993431	112993431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcatcctcagctcgcccCgcacctccaagacagactca	10	6	5	20	2	3	2	3	0	0	2	6	2	5	2	6	0	1	2	6	0	1	0	rs138233485		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:112993431C>T	uc003dzx.2	+	9	2065	c.1444C>T	c.(1444-1446)CGC>TGC	p.R482C	BOC_uc003dzy.2_Missense_Mutation_p.R482C|BOC_uc003dzz.2_Missense_Mutation_p.R482C|BOC_uc003eab.2_Missense_Mutation_p.R183C	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	482	Fibronectin type-III 1.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			CAGCTCGCCCCGCACCTCCAA	0.652													16	40					0	0	1	0	0		T	112993431	T	T	112993431	3	4	66	1	0	0	0	0	1	0	0	0	1482	652	23	1	1470	1	BOC	3	112993431	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	929606	112993431	85028999	322	44398											
KIAA2018	205717	broad.mit.edu	37	chr3	113378335	113378335	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgagaattggcaggctggcTaatagacaattgtacacagc	13	10	11	7	0	0	2	0	1	0	2	0	3	0	2	0	3	2	4	0	3	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:113378335T>C	uc003eam.2	-	7	2605	c.2194A>G	c.(2194-2196)AGC>GGC	p.S732G	KIAA2018_uc003eal.2_Missense_Mutation_p.S676G	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	732					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						GCAGGCTGGCTAATAGACAAT	0.438													23	96					0	0	1	0	0		C	113378335	C	C	113378335	3	2	66	1	0	0	0	0	1	0	0	0	8284	1522	53	3	4547	3	KIAA2018	3	113378335	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	384904	113378335	84644095	323	44399											
QTRTD1	79691	broad.mit.edu	37	chr3	113795748	113795748	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggaggctagactacgcttGctgtcatcagtcactgcaga	9	10	11	11	1	3	2	3	0	0	2	3	3	3	3	0	2	3	4	0	2	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:113795748G>A	uc003eay.2	+	7	935	c.705G>A	c.(703-705)TTG>TTA	p.L235L	QTRTD1_uc003eaz.2_Silent_p.L247L|QTRTD1_uc011biq.1_Silent_p.L112L|QTRTD1_uc011bir.1_Silent_p.L129L|QTRTD1_uc003eba.2_Silent_p.L112L	NM_024638	NP_078914	Q9H974	QTRD1_HUMAN	queuine tRNA-ribosyltransferase domain	235					queuosine biosynthetic process	mitochondrion	metal ion binding|queuine tRNA-ribosyltransferase activity			central_nervous_system(1)|skin(1)	2						GACTACGCTTGCTGTCATCAG	0.587													13	38					0	0	1	0	0		A	113795748	A	A	113795748	2	1	66	1	0	0	0	0	0	0	0	1	12911	1310	46	2		2	QTRTD1	3	113795748	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	417413	113795748	84226682	324	44400											
ARHGAP31	57514	broad.mit.edu	37	chr3	119120749	119120749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacaaagatgcactccaccGgcaccggcagctcatgtgac	12	5	9	15	2	1	2	1	1	0	1	2	2	2	2	3	2	3	4	3	2	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:119120749G>A	uc003ecj.3	+	10	1682	c.1150G>A	c.(1150-1152)GGC>AGC	p.G384S		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	384					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						GCACTCCACCGGCACCGGCAG	0.532													15	71					0	0	1	0	0		A	119120749	A	A	119120749	3	1	66	1	0	0	0	0	1	0	0	0	880	1116	39	1	1188	1	ARHGAP31	3	119120749	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5325001	119120749	78901681	325	44401											
ARHGAP31	57514	broad.mit.edu	37	chr3	119121085	119121085	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgcggtatctgtgccgCtccgcgtgtccgcagtcatc	3	12	11	15	5	2	0	1	0	1	0	5	0	4	0	4	1	2	3	4	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:119121085C>A	uc003ecj.3	+	10	2018	c.1486C>A	c.(1486-1488)CTC>ATC	p.L496I		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	496					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						ATCTGTGCCGCTCCGCGTGTC	0.592													26	63					3.1745e-13	3.37314e-13	1	1	0		A	119121085	A	A	119121085	3	1	66	1	0	0	0	0	1	0	0	0	880	797	28	5	1524	5	ARHGAP31	3	119121085	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	336	119121085	78901345	326	44402											
ADPRH	141	broad.mit.edu	37	chr3	119305260	119305260	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgcatcggtctcaggttcCcacaccatagccaactggac	9	9	9	14	1	1	0	1	0	1	0	4	1	2	1	3	3	3	2	3	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:119305260C>A	uc003ecs.2	+	4	725	c.427C>A	c.(427-429)CCA>ACA	p.P143T	ADPRH_uc010hqv.2_Missense_Mutation_p.P143T|ADPRH_uc011bjb.1_Missense_Mutation_p.P36T|ADPRH_uc003ect.2_Missense_Mutation_p.P143T	NM_001125	NP_001116	P54922	ADPRH_HUMAN	ADP-ribosylarginine hydrolase	143					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding			ovary(1)	1		Lung NSC(201;0.0977)		GBM - Glioblastoma multiforme(114;0.23)		TCTCAGGTTCCCACACCATAG	0.622													41	161					9.62906e-15	1.02749e-14	1	1	0		A	119305260	A	A	119305260	3	1	66	1	0	0	0	0	1	0	0	0	331	623	22	5	433	5	ADPRH	3	119305260	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	184175	119305260	78717170	327	44403											
CD86	942	broad.mit.edu	37	chr3	121828232	121828232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaatggaagaagaagaagcGgcctcgcaactcttataaat	17	7	10	7	2	1	3	0	0	1	3	2	5	1	4	1	2	2	1	1	2	9	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:121828232G>A	uc003eet.2	+	5	940	c.824G>A	c.(823-825)CGG>CAG	p.R275Q	CD86_uc011bjo.1_Missense_Mutation_p.R193Q|CD86_uc011bjp.1_Missense_Mutation_p.R163Q|CD86_uc003eeu.2_Missense_Mutation_p.R269Q	NM_175862	NP_787058	P42081	CD86_HUMAN	CD86 antigen isoform 1	275	Cytoplasmic (Potential).				interspecies interaction between organisms|positive regulation of cell proliferation|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of lymphotoxin A biosynthetic process|positive regulation of T-helper 2 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation		coreceptor activity|protein binding			pancreas(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.156)	Abatacept(DB01281)	AAGAAGAAGCGGCCTCGCAAC	0.473													40	143					0	0	1	0	0		A	121828232	A	A	121828232	3	1	66	1	0	0	0	0	1	0	0	0	3046	1116	39	1	842	1	CD86	3	121828232	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2522972	121828232	76194198	328	44404											
SEMA5B	54437	broad.mit.edu	37	chr3	122658273	122658273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaagaaagcaatcgtaccTgaagaagagagacattggca	17	5	13	6	1	0	5	0	1	0	4	1	7	0	6	1	2	2	3	1	2	6	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:122658273T>C	uc003efz.1	-	5	777	c.473A>G	c.(472-474)CAG>CGG	p.Q158R	SEMA5B_uc011bju.1_Missense_Mutation_p.Q100R|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.Q158R|SEMA5B_uc010hro.1_Missense_Mutation_p.Q100R|SEMA5B_uc010hrp.1_RNA	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	158	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		CAATCGTACCTGAAGAAGAGA	0.502													13	41					0	0	1	0	0		C	122658273	C	C	122658273	3	2	66	1	0	0	0	0	1	0	0	0	14063	1594	55	3	3058	3	SEMA5B	3	122658273	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	830041	122658273	75364157	329	44405											
MYLK	4638	broad.mit.edu	37	chr3	123452835	123452835	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaagtcttctgaaggacCggggtctgcggggccgttct	5	10	16	10	3	4	1	0	1	4	0	4	3	4	3	2	6	1	1	2	6	2	2	rs143682943		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:123452835C>T	uc003ego.2	-	10	1290	c.1008G>A	c.(1006-1008)CCG>CCA	p.P336P	MYLK_uc011bjw.1_Silent_p.P336P|MYLK_uc003egp.2_Silent_p.P336P|MYLK_uc003egq.2_Silent_p.P336P|MYLK_uc003egr.2_Silent_p.P336P|MYLK_uc003egs.2_Silent_p.P160P	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	336					aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		TCTGAAGGACCGGGGTCTGCG	0.637													25	75					0	0	1	0	0		T	123452835	T	T	123452835	2	4	66	1	0	0	0	0	0	0	0	1	10074	639	23	1		1	MYLK	3	123452835	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	794562	123452835	74569595	330	44406											
ZNF148	7707	broad.mit.edu	37	chr3	124951658	124951658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agagaatgctggctgatttgGgagggtctggttatcagtca	9	12	15	5	0	3	2	2	1	1	1	3	4	3	3	0	4	1	3	0	4	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:124951658G>A	uc003ehx.3	-	9	2398	c.1912C>T	c.(1912-1914)CCA>TCA	p.P638S	SLC12A8_uc003ehw.3_Intron|ZNF148_uc003ehz.3_Missense_Mutation_p.P638S|ZNF148_uc010hsa.2_Missense_Mutation_p.P638S|ZNF148_uc003eia.3_Missense_Mutation_p.P638S|ZNF148_uc003ehy.2_Intron	NM_021964	NP_068799	Q9UQR1	ZN148_HUMAN	zinc finger protein 148	638					cellular defense response|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4						GGCTGATTTGGGAGGGTCTGG	0.453													66	241					0	0	1	0	0		A	124951658	A	A	124951658	3	1	66	1	0	0	0	0	1	0	0	0	17759	1232	43	4	476	4	ZNF148	3	124951658	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1498823	124951658	73070772	331	44407											
UROC1	131669	broad.mit.edu	37	chr3	126219563	126219563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaccaggtccttgaacaCagcagggttggaggccatga	10	7	14	10	0	0	2	0	2	0	0	1	4	1	4	3	5	2	2	3	5	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:126219563C>T	uc003eiz.1	-	11	1152	c.1120G>A	c.(1120-1122)GTG>ATG	p.V374M	UROC1_uc010hsi.1_Missense_Mutation_p.V434M	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	374					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		TCCTTGAACACAGCAGGGTTG	0.582													21	119					0	0	1	0	0		T	126219563	T	T	126219563	3	4	66	1	0	0	0	0	1	0	0	0	17054	478	17	4	950	4	UROC1	3	126219563	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1267905	126219563	71802867	332	44408											
UROC1	131669	broad.mit.edu	37	chr3	126226631	126226631	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatactccgtccgggaggAgtagttgggaatgacctgga	9	9	14	9	2	1	1	1	1	0	0	3	5	3	5	3	4	1	2	3	4	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:126226631A>G	uc003eiz.1	-	6	588	c.556T>C	c.(556-558)TCC>CCC	p.S186P	UROC1_uc010hsi.1_Missense_Mutation_p.S186P	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	186					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		GTCCGGGAGGAGTAGTTGGGA	0.562													39	85					0	0	1	0	0		G	126226631	G	G	126226631	3	3	66	1	0	0	0	0	1	0	0	0	17054	304	11	3	1718	3	UROC1	3	126226631	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	7068	126226631	71795799	333	44409											
PLXNA1	5361	broad.mit.edu	37	chr3	126736719	126736719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgaggcgcccaacctcactgGgcagcacaaggtcacggtgc	9	4	13	15	3	2	0	2	0	0	0	2	1	2	0	2	4	3	2	2	4	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:126736719G>A	uc003ejg.2	+	18	3579	c.3575G>A	c.(3574-3576)GGG>GAG	p.G1192E		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1215	Extracellular (Potential).|IPT/TIG 4.				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		AACCTCACTGGGCAGCACAAG	0.657													16	32					0	0	1	0	0		A	126736719	A	A	126736719	3	1	66	1	0	0	0	0	1	0	0	0	12138	1232	43	4	3714	4	PLXNA1	3	126736719	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	510088	126736719	71285711	334	44410											
ABTB1	80325	broad.mit.edu	37	chr3	127396615	127396615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagggggccccccagccGtcaccctgcatggcatctca	6	6	10	19	1	3	0	3	0	1	0	4	0	3	0	6	3	2	2	6	3	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:127396615G>A	uc003ejt.2	+	10	1046	c.958G>A	c.(958-960)GTC>ATC	p.V320I	ABTB1_uc003ejr.2_Missense_Mutation_p.V178I|ABTB1_uc003ejs.2_Missense_Mutation_p.V295I|ABTB1_uc003eju.2_Missense_Mutation_p.V178I|ABTB1_uc010hsm.2_Missense_Mutation_p.V47I	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	320	BTB 2.					cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						CCCCCCAGCCGTCACCCTGCA	0.632													4	15					0	0	1	0	0		A	127396615	A	A	127396615	3	1	66	1	0	0	0	0	1	0	0	0	102	1145	40	1	996	1	ABTB1	3	127396615	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	659896	127396615	70625815	335	44411											
RPN1	6184	broad.mit.edu	37	chr3	128344800	128344800	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgtgtccagataggtgtAgtgcagctcatctggggcac	10	10	13	8	0	2	1	1	0	1	1	3	1	3	1	1	3	2	4	1	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:128344800A>G	uc003ekr.1	-	7	1268	c.1192T>C	c.(1192-1194)TAC>CAC	p.Y398H	RPN1_uc011bkq.1_Missense_Mutation_p.Y226H	NM_002950	NP_002941	P04843	RPN1_HUMAN	ribophorin I precursor	398	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|melanosome|oligosaccharyltransferase complex|rough microsome	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(114;0.189)		AGATAGGTGTAGTGCAGCTCA	0.458			T	EVI1	AML								22	61					0	0	1	0	0		G	128344800	G	G	128344800	3	3	66	1	0	0	0	0	1	0	0	0	13632	420	15	3	647	3	RPN1	3	128344800	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	948185	128344800	69677630	336	44412											
ACAD9	28976	broad.mit.edu	37	chr3	128603583	128603583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgtggaaaaattcttcactGaagagggtatgtatggtttt	11	14	11	5	1	2	2	1	1	1	1	2	3	2	3	1	3	0	3	1	3	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:128603583G>A	uc003ela.3	+	2	440	c.238G>A	c.(238-240)GAA>AAA	p.E80K	ACAD9_uc010hsw.1_Intron|ACAD9_uc011bks.1_5'UTR|ACAD9_uc003elb.2_Intron	NM_014049	NP_054768	Q9H845	ACAD9_HUMAN	acyl-Coenzyme A dehydrogenase family, member 9	80						mitochondrion	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding			ovary(2)|central_nervous_system(1)	3						ATTCTTCACTGAAGAGGGTAT	0.343													26	77					0	0	1	0	0		A	128603583	A	A	128603583	3	1	66	1	0	0	0	0	1	0	0	0	111	1291	45	4	244	4	ACAD9	3	128603583	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	258783	128603583	69418847	337	44413											
ACAD9	28976	broad.mit.edu	37	chr3	128612407	128612407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcttggcagtggactcccGaaaaattgaccaggaaggga	12	7	12	10	1	1	1	0	1	1	0	2	5	2	4	3	4	0	1	3	4	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:128612407G>A	uc003ela.3	+	3	456	c.254G>A	c.(253-255)CGA>CAA	p.R85Q	ACAD9_uc010hsw.1_5'UTR|ACAD9_uc011bks.1_5'UTR|ACAD9_uc003elb.2_5'UTR	NM_014049	NP_054768	Q9H845	ACAD9_HUMAN	acyl-Coenzyme A dehydrogenase family, member 9	85						mitochondrion	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding			ovary(2)|central_nervous_system(1)	3						GTGGACTCCCGAAAAATTGAC	0.358													13	40					0	0	1	0	0		A	128612407	A	A	128612407	3	1	66	1	0	0	0	0	1	0	0	0	111	1058	37	1	264	1	ACAD9	3	128612407	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	8824	128612407	69410023	338	44414											
C3orf37	56941	broad.mit.edu	37	chr3	129023513	129023513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaaggaagactcaaaaacaCctcaaaaggaagagtcagat	22	4	8	7	0	3	3	3	0	0	3	3	5	3	5	1	2	1	0	1	2	8	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:129023513C>T	uc003elt.2	+	7	998	c.910C>T	c.(910-912)CCT>TCT	p.P304S	C3orf37_uc003elu.2_Missense_Mutation_p.P262S|C3orf37_uc003elv.2_Missense_Mutation_p.P304S|C3orf37_uc003elw.2_Missense_Mutation_p.P304S	NM_020187	NP_064572	Q96FZ2	CC037_HUMAN	hypothetical protein LOC56941	304										ovary(1)	1						CTCAAAAACACCTCAAAAGGA	0.507													36	88					0	0	1	0	0		T	129023513	T	T	129023513	3	4	66	1	0	0	0	0	1	0	0	0	2230	507	18	4	932	4	C3orf37	3	129023513	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	411106	129023513	68998917	339	44415											
COL6A6	131873	broad.mit.edu	37	chr3	130284028	130284028	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagtgataaattcactgagCatgggcataaataagtcaga	18	9	9	5	0	2	3	2	2	0	1	2	3	2	3	0	1	1	2	0	1	6	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:130284028C>T	uc010htl.2	+	3	883	c.852C>T	c.(850-852)AGC>AGT	p.S284S		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	284	Nonhelical region.|VWFA 2.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						ATTCACTGAGCATGGGCATAA	0.448													32	112					0	0	1	0	0		T	130284028	T	T	130284028	2	4	66	1	0	0	0	0	0	0	0	1	3706	709	25	2		2	COL6A6	3	130284028	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1260515	130284028	67738402	340	44416											
ATP2C1	27032	broad.mit.edu	37	chr3	130660493	130660493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttggttccaggtgatacaGtttgcctttctgttggggat	6	16	12	7	0	1	1	0	1	1	0	2	2	2	2	2	4	2	3	2	4	1	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:130660493G>A	uc003enl.2	+	8	703	c.481G>A	c.(481-483)GTT>ATT	p.V161I	ATP2C1_uc011blg.1_Missense_Mutation_p.V195I|ATP2C1_uc011blh.1_Missense_Mutation_p.V156I|ATP2C1_uc011bli.1_Missense_Mutation_p.V195I|ATP2C1_uc003enk.2_Missense_Mutation_p.V145I|ATP2C1_uc003enm.2_Missense_Mutation_p.V161I|ATP2C1_uc003enn.2_Missense_Mutation_p.V145I|ATP2C1_uc003eno.2_Missense_Mutation_p.V161I|ATP2C1_uc003enp.2_Missense_Mutation_p.V161I|ATP2C1_uc003enq.2_Missense_Mutation_p.V161I|ATP2C1_uc003enr.2_Missense_Mutation_p.V161I|ATP2C1_uc003ens.2_Missense_Mutation_p.V161I|ATP2C1_uc003ent.2_Missense_Mutation_p.V161I	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	161	Cytoplasmic (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	AGGTGATACAGTTTGCCTTTC	0.388									Hailey-Hailey_disease				14	63					0	0	1	0	0		A	130660493	A	A	130660493	3	1	66	1	0	0	0	0	1	0	0	0	1144	1029	36	4	507	4	ATP2C1	3	130660493	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	376465	130660493	67361937	341	44417											
ACAD11	84129	broad.mit.edu	37	chr3	132277865	132277865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcccgcagctccattgttgCgattgctgaaagatgaactt	9	12	10	10	2	0	3	0	2	0	1	2	4	2	3	2	0	4	4	2	0	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:132277865C>T	uc003eov.3	-	20	2673	c.2293G>A	c.(2293-2295)GCA>ACA	p.A765T		NM_032169	NP_115545	Q709F0	ACD11_HUMAN	putative acyl-CoA dehydrogenase	765						peroxisome	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|transferase activity, transferring phosphorus-containing groups			ovary(1)	1						TCCATTGTTGCGATTGCTGAA	0.468													18	48					0	0	1	0	0		T	132277865	T	T	132277865	3	4	66	1	0	0	0	0	1	0	0	0	109	768	27	1	53	1	ACAD11	3	132277865	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1617372	132277865	65744565	342	44418											
CCRL1	51554	broad.mit.edu	37	chr3	132320091	132320091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcaaacgcatggacatcGccatccaagtcacagaaagc	15	5	9	12	2	1	2	1	1	0	1	3	3	2	3	2	1	3	2	2	1	3	0	rs139794831		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:132320091G>A	uc003eow.2	+	2	933	c.850G>A	c.(850-852)GCC>ACC	p.A284T	ACAD11_uc003eov.3_Intron|ACAD11_uc011blr.1_Intron|CCRL1_uc003eox.2_Missense_Mutation_p.A284T	NM_016557	NP_057641	Q9NPB9	CCRL1_HUMAN	chemokine (C-C motif) receptor-like 1	284	Extracellular (Potential).				chemotaxis|immune response	integral to plasma membrane	C-C chemokine receptor activity				0						CATGGACATCGCCATCCAAGT	0.443													52	141					0	0	1	0	0		A	132320091	A	A	132320091	3	1	66	1	0	0	0	0	1	0	0	0	2952	1087	38	1	852	1	CCRL1	3	132320091	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	42226	132320091	65702339	343	44419											
C3orf36	80111	broad.mit.edu	37	chr3	133647304	133647304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctctccctgagagggcgCagagtgggtggttcccccca	6	7	13	15	1	1	2	0	1	1	2	3	3	2	2	5	3	0	2	5	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:133647304C>T	uc003epz.1	-	1	1353	c.344G>A	c.(343-345)TGC>TAC	p.C115Y		NM_025041	NP_079317	Q3SXR2	CC036_HUMAN	hypothetical protein LOC80111	115										ovary(1)	1						TGAGAGGGCGCAGAGTGGGTG	0.657													7	15					0	0	1	0	0		T	133647304	T	T	133647304	3	4	66	1	0	0	0	0	1	0	0	0	2229	710	25	2	157	2	C3orf36	3	133647304	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1327213	133647304	64375126	344	44420											
CEP63	80254	broad.mit.edu	37	chr3	134256014	134256014	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggaattccgtcagaaatcGctggactgggagaagcaacg	13	6	13	9	3	1	2	1	0	0	2	3	5	2	4	1	3	2	2	1	3	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:134256014G>A	uc003eqo.1	+	7	908	c.459G>A	c.(457-459)TCG>TCA	p.S153S	CEP63_uc003eql.1_Silent_p.S153S|CEP63_uc003eqm.2_Silent_p.S153S|CEP63_uc003eqn.1_Silent_p.S153S	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	153	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						GTCAGAAATCGCTGGACTGGG	0.443													20	84					0	0	1	0	0		A	134256014	A	A	134256014	2	1	66	1	0	0	0	0	0	0	0	1	3260	1074	38	1		1	CEP63	3	134256014	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	608710	134256014	63766416	345	44421											
DZIP1L	199221	broad.mit.edu	37	chr3	137822592	137822592	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtccacaggctgcccacaGcggctgcacacctcccggtc	6	5	12	18	2	0	0	0	0	0	0	3	0	2	0	4	4	3	3	4	4	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:137822592G>T	uc003erq.2	-	2	585	c.222C>A	c.(220-222)CGC>CGA	p.R74R	DZIP1L_uc003err.1_Silent_p.R74R	NM_173543	NP_775814	Q8IYY4	DZI1L_HUMAN	DAZ interacting protein 1-like	74						intracellular	zinc ion binding			ovary(1)|pancreas(1)	2						GCTGCCCACAGCGGCTGCACA	0.617													8	32					5.18039e-06	5.31276e-06	1	1	0		T	137822592	T	T	137822592	2	4	66	1	0	0	0	0	0	0	0	1	4870	958	34	5		5	DZIP1L	3	137822592	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3566578	137822592	60199838	346	44422											
MRPS22	56945	broad.mit.edu	37	chr3	139074583	139074583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctccatccagatggccagtCggctcaaggggccaaggatc	9	6	13	13	1	1	1	1	0	0	1	5	2	3	2	4	5	0	2	4	5	2	0	rs147932653	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:139074583C>T	uc003etb.2	+	7	946	c.938C>T	c.(937-939)TCG>TTG	p.S313L	MRPS22_uc003etc.2_RNA|MRPS22_uc003etd.2_Missense_Mutation_p.S312L|MRPS22_uc003ete.2_Missense_Mutation_p.S272L	NM_020191	NP_064576	P82650	RT22_HUMAN	mitochondrial ribosomal protein S22	313						mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(2)|skin(1)	3						GATGGCCAGTCGGCTCAAGGG	0.433													8	44					0	0	1	0	0		T	139074583	T	T	139074583	3	4	66	1	0	0	0	0	1	0	0	0	9851	893	31	1	964	1	MRPS22	3	139074583	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1251991	139074583	58947847	347	44423											
RASA2	5922	broad.mit.edu	37	chr3	141327408	141327408	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctaatgaatggatagaCgtactctgcagggtgagccg	12	8	14	7	2	1	3	0	2	1	1	1	5	1	4	1	2	4	3	1	2	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:141327408C>T	uc003etz.1	+	21	2094	c.2094C>T	c.(2092-2094)GAC>GAT	p.D698D	RASA2_uc010huq.1_Silent_p.D702D|RASA2_uc003eua.1_Silent_p.D699D	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	698	PH.				intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6						AATGGATAGACGTACTCTGCA	0.423													22	81					0	0	1	0	0		T	141327408	T	T	141327408	2	4	66	1	0	0	0	0	0	0	0	1	13086	535	19	1		1	RASA2	3	141327408	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2252825	141327408	56695022	348	44424											
XRN1	54464	broad.mit.edu	37	chr3	142051254	142051254	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggctgagagggtaatccAtattcatctcttctgttaga	10	15	9	7	0	3	2	1	1	2	2	5	3	4	2	1	2	0	3	1	2	4	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:142051254A>G	uc003eus.2	-	36	4249	c.4182T>C	c.(4180-4182)TAT>TAC	p.Y1394Y	XRN1_uc010huu.2_Silent_p.Y861Y|XRN1_uc003eut.2_Silent_p.Y1394Y|XRN1_uc003euu.2_Silent_p.Y1395Y	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	1394					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						AGGGTAATCCATATTCATCTC	0.289													27	67					0	0	1	0	0		G	142051254	G	G	142051254	2	3	66	1	0	0	0	0	0	0	0	1	17485	224	8	3		3	XRN1	3	142051254	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	723846	142051254	55971176	349	44425											
PAQR9	344838	broad.mit.edu	37	chr3	142681341	142681341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccaccagccagaagtagcGgcggtagaagtgcacgaaga	14	3	13	11	3	0	3	0	0	0	3	0	4	0	3	3	2	3	3	3	2	5	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:142681341G>A	uc003evg.2	-	1	838	c.838C>T	c.(838-840)CGC>TGC	p.R280C	PAQR9_uc003evf.1_RNA	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	280	Extracellular (Potential).					integral to membrane	receptor activity				0						CAGAAGTAGCGGCGGTAGAAG	0.607													25	61					0	0	1	0	0		A	142681341	A	A	142681341	3	1	66	1	0	0	0	0	1	0	0	0	11461	1116	39	1	299	1	PAQR9	3	142681341	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	630087	142681341	55341089	350	44426											
ZIC4	84107	broad.mit.edu	37	chr3	147114080	147114080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcgtcgctgcgggccgCaggccctggcgggaagggct	4	4	20	13	5	0	0	0	0	0	0	1	1	0	1	2	6	1	3	2	6	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:147114080C>T	uc003ewd.1	-	3	520	c.247G>A	c.(247-249)GCG>ACG	p.A83T	ZIC4_uc003ewc.1_Missense_Mutation_p.A13T|ZIC4_uc011bno.1_Missense_Mutation_p.A133T	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	83						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						CTGCGGGCCGCAGGCCCTGGC	0.716													9	23					0	0	1	0	0		T	147114080	T	T	147114080	3	4	66	1	0	0	0	0	1	0	0	0	17706	710	25	2	769	2	ZIC4	3	147114080	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4432739	147114080	50908350	351	44427											
CP	1356	broad.mit.edu	37	chr3	148916275	148916275	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttagctagacacacaggaTctgcattagtgggtcctact	10	12	9	10	0	2	1	0	0	2	1	3	2	3	2	1	2	3	2	1	2	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:148916275T>C	uc003ewy.3	-	9	1845	c.1592A>G	c.(1591-1593)GAT>GGT	p.D531G	CP_uc011bnr.1_RNA|CP_uc003ewx.3_Missense_Mutation_p.D312G|CP_uc003ewz.2_Missense_Mutation_p.D531G|CP_uc010hvf.1_Missense_Mutation_p.D257G	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	531	Plastocyanin-like 3.|F5/8 type A 2.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	ACACACAGGATCTGCATTAGT	0.448													17	50					0	0	1	0	0		C	148916275	C	C	148916275	3	2	66	1	0	0	0	0	1	0	0	0	3790	1435	50	3	1649	3	CP	3	148916275	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1802195	148916275	49106155	352	44428											
IGSF10	285313	broad.mit.edu	37	chr3	151161036	151161036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtttcttatatacaaagtcCcatttgaaaataagaacaac	17	12	5	7	0	1	2	0	1	1	1	2	2	2	2	1	1	3	1	1	1	9	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:151161036C>T	uc011bod.1	-	5	5699	c.5699G>A	c.(5698-5700)GGG>GAG	p.G1900E	IGSF10_uc011bob.1_5'Flank|IGSF10_uc011boc.1_5'Flank	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1900	Ig-like C2-type 5.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ATACAAAGTCCCATTTGAAAA	0.433													28	90					0	0	1	0	0		T	151161036	T	T	151161036	3	4	66	1	0	0	0	0	1	0	0	0	7613	623	22	4	2228	4	IGSF10	3	151161036	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2244761	151161036	46861394	353	44429											
PPM1L	151742	broad.mit.edu	37	chr3	160786870	160786870	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcatagttttacagtcattTtacagaggctgccctgacaa	12	12	8	9	0	1	2	1	1	0	1	1	2	1	2	1	1	4	3	1	1	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:160786870T>C	uc003fdr.2	+	4	1109	c.1008T>C	c.(1006-1008)TTT>TTC	p.F336F	PPM1L_uc003fds.2_Silent_p.F157F|PPM1L_uc003fdt.2_Silent_p.F209F|PPM1L_uc010hwf.2_RNA	NM_139245	NP_640338	Q5SGD2	PPM1L_HUMAN	protein phosphatase 1 (formerly 2C)-like	336	Cytoplasmic (Potential).|PP2C-like.				protein dephosphorylation|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(1)	1			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			TACAGTCATTTTACAGAGGCT	0.468													23	59					0	0	1	0	0		C	160786870	C	C	160786870	2	2	66	1	0	0	0	0	0	0	0	1	12366	1838	64	3		3	PPM1L	3	160786870	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	9625834	160786870	37235560	354	44430											
SI	6476	broad.mit.edu	37	chr3	164755741	164755741	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggatgatataacctcctctAagatgtaatcctattttgtc	11	15	7	8	0	1	2	0	1	1	1	4	3	3	3	3	1	1	1	3	1	5	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:164755741A>G	uc003fei.2	-	21	2435	c.2373T>C	c.(2371-2373)CTT>CTC	p.L791L		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	791	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	AACCTCCTCTAAGATGTAATC	0.328										HNSCC(35;0.089)			15	42					0	0	1	0	0		G	164755741	G	G	164755741	2	3	66	1	0	0	0	0	0	0	0	1	14322	349	13	3		3	SI	3	164755741	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3968871	164755741	33266689	355	44431											
FNDC3B	64778	broad.mit.edu	37	chr3	172115243	172115243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattttatttgcctttatatTacagtacttcttaatgaagt	11	20	4	6	0	1	1	0	1	1	0	1	1	1	1	1	0	3	1	1	0	7	10			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:172115243T>C	uc003fhy.2	+	26	3765	c.3593T>C	c.(3592-3594)TTA>TCA	p.L1198S	FNDC3B_uc003fhz.3_Missense_Mutation_p.L1198S	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	1198	Helical; (Potential).					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		GCCTTTATATTACAGTACTTC	0.343													20	45					0	0	1	0	0		C	172115243	C	C	172115243	3	2	66	1	0	0	0	0	1	0	0	0	5984	1764	61	3	3691	3	FNDC3B	3	172115243	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	7359502	172115243	25907187	356	44432											
GHSR	2693	broad.mit.edu	37	chr3	172166194	172166194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctcttcgctgggcgtcgCgttccacatgctgccggctc	2	10	13	16	6	1	0	0	0	1	0	5	0	2	0	2	3	2	5	2	3	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:172166194C>T	uc003fib.1	-	1	10	c.10G>A	c.(10-12)GCG>ACG	p.A4T	GHSR_uc011bpv.1_Missense_Mutation_p.A4T	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	4	Extracellular (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			CTGGGCGTCGCGTTCCACATG	0.682													6	14					0	0	1	0	0		T	172166194	T	T	172166194	3	4	66	1	0	0	0	0	1	0	0	0	6390	768	27	1	1172	1	GHSR	3	172166194	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	50951	172166194	25856236	357	44433											
SOX2	6657	broad.mit.edu	37	chr3	181430415	181430415	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggagacggagaagcggccGttcatcgacgaggctaagcg	10	5	16	10	7	1	2	1	0	0	2	3	6	1	2	1	4	2	2	1	4	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:181430415G>A	uc003fkx.2	+	1	694	c.267G>A	c.(265-267)CCG>CCA	p.P89P	SOX2OT_uc003fkv.2_Intron|SOX2OT_uc003fkw.3_Intron	NM_003106	NP_003097	P48431	SOX2_HUMAN	sex-determining region Y-box 2	89	HMG box.				cell cycle arrest|chromatin organization|eye development|glial cell fate commitment|inner ear development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell proliferation|negative regulation of neuron differentiation|osteoblast differentiation|pituitary gland development|positive regulation of MAPKKK cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of caspase activity|response to growth factor stimulus|response to wounding|somatic stem cell maintenance	cytosol|transcription factor complex	miRNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0	all_cancers(143;1.22e-16)|Ovarian(172;0.0283)		all cancers(12;1.82e-48)|Epithelial(37;9.85e-40)|OV - Ovarian serous cystadenocarcinoma(80;7.37e-23)|Lung(8;2.01e-21)|GBM - Glioblastoma multiforme(1;2.13e-08)			AGAAGCGGCCGTTCATCGACG	0.597			A		NSCLC|oesophageal squamous carcinoma		MICROPHTHALMIA AND ESOPHAGEAL ATRESIA SYNDROME						15	26					0	0	1	0	0		A	181430415	A	A	181430415	2	1	66	1	0	0	0	0	0	0	0	1	14974	1132	40	1		1	SOX2	3	181430415	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	9264221	181430415	16592015	358	44434											
ATP11B	23200	broad.mit.edu	37	chr3	182614514	182614514	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaactggacatttggcacTttggtcttcacagtcatggt	9	13	11	8	0	3	0	2	0	1	0	3	2	3	2	0	5	1	1	0	5	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:182614514T>G	uc003flb.2	+	26	3266	c.3009T>G	c.(3007-3009)ACT>ACG	p.T1003T	ATP11B_uc003flc.2_Silent_p.T587T|ATP11B_uc010hxf.1_Silent_p.T165T|ATP11B_uc010hxg.2_5'Flank|ATP11B_uc010hxh.1_5'Flank	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	1003	Helical; (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			CATTTGGCACTTTGGTCTTCA	0.318													61	139					0	0	1	0	0		G	182614514	G	G	182614514	2	3	66	1	0	0	0	0	0	0	0	1	1121	1596	56	5		5	ATP11B	3	182614514	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1184099	182614514	15407916	359	44435											
MCCC1	56922	broad.mit.edu	37	chr3	182735069	182735069	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttacctccatcttcatggcGatcataaccatgagggaatc	11	11	7	12	1	3	1	2	1	1	0	5	3	4	2	3	2	2	0	3	2	3	3	rs150305281		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:182735069G>A	uc003fle.2	-	18	2171	c.2034C>T	c.(2032-2034)ATC>ATT	p.I678I	MCCC1_uc010hxi.2_RNA|MCCC1_uc011bqo.1_RNA|MCCC1_uc003flf.2_Silent_p.I561I|MCCC1_uc003flg.2_Silent_p.I569I	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	678	Biotinyl-binding.				biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	TCTTCATGGCGATCATAACCA	0.378													58	123					0	0	1	0	0		A	182735069	A	A	182735069	2	1	66	1	0	0	0	0	0	0	0	1	9392	1048	37	1		1	MCCC1	3	182735069	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	120555	182735069	15287361	360	44436											
KLHL6	89857	broad.mit.edu	37	chr3	183273230	183273230	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacaagatgacatctgtcAgagcgttttccattcgcagg	11	10	9	11	2	2	3	1	1	1	2	4	3	3	3	1	1	1	2	1	1	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:183273230A>G	uc003flr.2	-	1	270	c.212T>C	c.(211-213)CTG>CCG	p.L71P	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_Missense_Mutation_p.L69P	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	71										haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			GACATCTGTCAGAGCGTTTTC	0.502													52	100					0	0	1	0	0		G	183273230	G	G	183273230	3	3	66	1	0	0	0	0	1	0	0	0	8409	188	7	3	1681	3	KLHL6	3	183273230	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	538161	183273230	14749200	361	44437											
ABCC5	10057	broad.mit.edu	37	chr3	183667870	183667870	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaagaacaccaggataacGttctggatgaacatctcggc	14	7	10	10	2	2	3	0	1	2	2	3	5	2	5	1	3	3	1	1	3	4	2	rs111257210		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:183667870G>A	uc003fmg.2	-	21	3153	c.2988C>T	c.(2986-2988)AAC>AAT	p.N996N	ABCC5_uc011bqt.1_Silent_p.N524N|ABCC5_uc010hxl.2_Silent_p.N996N	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	996	ABC transmembrane type-1 2.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			CCAGGATAACGTTCTGGATGA	0.502													11	26					0	0	1	0	0		A	183667870	A	A	183667870	2	1	66	1	0	0	0	0	0	0	0	1	56	1136	40	1		1	ABCC5	3	183667870	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	394640	183667870	14354560	362	44438											
HTR3E	285242	broad.mit.edu	37	chr3	183824131	183824131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacccccacccacctgcccGgtgagggaagtcacattcct	8	7	8	18	1	2	1	2	1	0	0	3	2	3	2	6	2	1	0	6	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:183824131G>A	uc010hxq.2	+	8	1607	c.1141G>A	c.(1141-1143)GGT>AGT	p.G381S	HTR3E_uc003fml.3_Missense_Mutation_p.G366S|HTR3E_uc003fmm.2_Missense_Mutation_p.G396S|HTR3E_uc010hxr.2_Missense_Mutation_p.G407S|HTR3E_uc003fmn.2_Missense_Mutation_p.G381S	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	381	Cytoplasmic (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			CCACCTGCCCGGTGAGGGAAG	0.448													5	11					0	0	1	0	0		A	183824131	A	A	183824131	3	1	66	1	0	0	0	0	1	0	0	0	7464	1130	39	1	1212	1	HTR3E	3	183824131	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	156261	183824131	14198299	363	44439											
EIF4G1	1981	broad.mit.edu	37	chr3	184044406	184044406	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggaggctcaggagccaagcCctcagacgcaggtatggagg	10	4	16	11	2	2	1	2	0	0	1	2	4	2	4	2	6	2	3	2	6	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:184044406C>A	uc003fnp.2	+	22	3512	c.3314C>A	c.(3313-3315)CCC>CAC	p.P1105H	EIF4G1_uc003fnt.2_Missense_Mutation_p.P816H|EIF4G1_uc003fnq.2_Missense_Mutation_p.P1018H|EIF4G1_uc003fnr.2_Missense_Mutation_p.P941H|EIF4G1_uc010hxx.2_Missense_Mutation_p.P1112H|EIF4G1_uc003fns.2_Missense_Mutation_p.P1065H|EIF4G1_uc010hxy.2_Missense_Mutation_p.P1112H|EIF4G1_uc003fnv.3_Missense_Mutation_p.P1106H|EIF4G1_uc003fnu.3_Missense_Mutation_p.P1105H|EIF4G1_uc003fnw.2_Missense_Mutation_p.P1112H|EIF4G1_uc003fnx.2_Missense_Mutation_p.P910H|EIF4G1_uc003fny.3_Missense_Mutation_p.P909H|EIF4G1_uc003foa.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1105					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GGAGCCAAGCCCTCAGACGCA	0.587													14	31					0.000151284	0.000153722	1	1	0		A	184044406	A	A	184044406	3	1	66	1	0	0	0	0	1	0	0	0	5044	623	22	5	3392	5	EIF4G1	3	184044406	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	220275	184044406	13978024	364	44440											
TPRG1	285386	broad.mit.edu	37	chr3	189038562	189038562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtcattcattggaaacCgcaacaaacttggctattcc	12	12	7	10	1	2	1	2	1	0	0	3	2	3	2	2	2	3	2	2	2	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:189038562C>T	uc003frv.1	+	11	2008	c.781C>T	c.(781-783)CGC>TGC	p.R261C	TPRG1_uc003frw.1_Missense_Mutation_p.R261C	NM_198485	NP_940887	Q6ZUI0	TPRG1_HUMAN	tumor protein p63 regulated 1	261											0	all_cancers(143;6.12e-12)|all_hematologic(3;0.0359)|Ovarian(172;0.0925)	all_lung(153;8.23e-09)|Lung NSC(153;3.55e-06)|all_neural(597;0.0019)|Myeloproliferative disorder(1037;0.0255)	Lung(62;6.93e-06)	GBM - Glioblastoma multiforme(93;4.77e-14)		CATTGGAAACCGCAACAAACT	0.408													8	28					0	0	1	0	0		T	189038562	T	T	189038562	3	4	66	1	0	0	0	0	1	0	0	0	16444	652	23	1	799	1	TPRG1	3	189038562	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4994156	189038562	8983868	365	44441											
UTS2D	257313	broad.mit.edu	37	chr3	190995910	190995910	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttattcagtagagccagCaatagttcctcacgatttgt	10	16	7	8	1	2	1	2	0	0	1	3	2	3	1	2	0	2	3	2	0	4	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:190995910C>T	uc003fsu.2	-	6	940	c.153G>A	c.(151-153)TTG>TTA	p.L51L		NM_198152	NP_937795	Q765I0	UTS2B_HUMAN	urotensin 2 domain containing precursor	51						extracellular region	hormone activity				0	all_cancers(143;1.77e-09)|Ovarian(172;0.103)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000214)		GTAGAGCCAGCAATAGTTCCT	0.269													4	14					0	0	1	0	0		T	190995910	T	T	190995910	2	4	66	1	0	0	0	0	0	0	0	1	17131	709	25	2		2	UTS2D	3	190995910	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1957348	190995910	7026520	366	44442											
MUC4	4585	broad.mit.edu	37	chr3	195498560	195498560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgaccagtggagaagtcaGcatcgtcccagaacggagcc	11	4	12	14	3	1	2	1	0	0	2	3	5	2	3	4	2	3	1	4	2	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:195498560G>A	uc011bto.1	-	6	13281	c.12821C>T	c.(12820-12822)GCT>GTT	p.A4274V	MUC4_uc003fuz.2_Silent_p.L82L|MUC4_uc003fva.2_5'UTR|MUC4_uc003fvb.2_5'UTR|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_5'UTR|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_5'UTR|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_5'UTR|MUC4_uc011bti.1_5'UTR|MUC4_uc011btj.1_Missense_Mutation_p.A143V|MUC4_uc011btk.1_5'UTR|MUC4_uc011btl.1_5'UTR|MUC4_uc011btm.1_Missense_Mutation_p.A143V|MUC4_uc011btn.1_5'UTR|MUC4_uc003fvo.2_Missense_Mutation_p.A166V|MUC4_uc003fvp.2_Missense_Mutation_p.A115V|MUC4_uc010hzu.1_Missense_Mutation_p.A1014V	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1159	NIDO.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGAGAAGTCAGCATCGTCCCA	0.592													18	25					0	0	1	0	0		A	195498560	A	A	195498560	3	1	66	1	0	0	0	0	1	0	0	0	9996	971	34	2	3117	2	MUC4	3	195498560	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4502650	195498560	2523870	367	44443											
RNF168	165918	broad.mit.edu	37	chr3	196199488	196199488	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttccttcatggtaccattcGgcaccacaggcacataacca	11	10	6	14	1	1	0	1	0	0	0	3	0	2	0	4	3	2	3	4	3	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:196199488G>A	uc003fwq.2	-	6	1456	c.918C>T	c.(916-918)GCC>GCT	p.A306A	RNF168_uc010iah.2_Silent_p.A139A|uc010iag.1_5'Flank	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	306					double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		GGTACCATTCGGCACCACAGG	0.458													17	54					0	0	1	0	0		A	196199488	A	A	196199488	2	1	66	1	0	0	0	0	0	0	0	1	13484	1103	39	1		1	RNF168	3	196199488	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	700928	196199488	1822942	368	44444											
KIAA0226	9711	broad.mit.edu	37	chr3	197444928	197444928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccatacttagaccagaCgttggggctgttggttgata	9	11	12	9	1	0	3	0	1	0	2	0	3	0	3	3	3	1	4	3	3	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr3:197444928C>T	uc003fyc.2	-	2	322	c.139G>A	c.(139-141)GTC>ATC	p.V47I	KIAA0226_uc003fyd.3_5'UTR|KIAA0226_uc003fyf.2_Intron|KIAA0226_uc003fyg.2_Missense_Mutation_p.V40I	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	47					autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		TTAGACCAGACGTTGGGGCTG	0.527													24	43					0	0	1	0	0		T	197444928	T	T	197444928	3	4	66	1	0	0	0	0	1	0	0	0	8178	536	19	1	2904	1	KIAA0226	3	197444928	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1245440	197444928	577502	369	44445											
PDE6B	5158	broad.mit.edu	37	chr4	656917	656917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accccttggctaagctccacGgctcctcgattttggagcgg	6	10	11	14	3	0	0	0	0	0	0	3	2	2	1	4	4	2	3	4	4	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:656917G>A	uc003gap.2	+	15	1914	c.1861G>A	c.(1861-1863)GGC>AGC	p.G621S	PDE6B_uc003gao.3_Missense_Mutation_p.G621S|PDE6B_uc011buy.1_Missense_Mutation_p.G342S|PDE6B_uc011buz.1_Missense_Mutation_p.G53S	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	621					cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						TAAGCTCCACGGCTCCTCGAT	0.642													12	31					0	0	1	0	0		A	656917	A	A	656917	3	1	66	1	0	0	0	0	1	0	0	0	11665	1116	39	1	1919	1	PDE6B	4	656917	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08		656917	190497359	370	44446											
SLC26A1	10861	broad.mit.edu	37	chr4	985310	985310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcccgcgggcggtactgaCgcagccagcgcgtggcgggg	5	4	18	14	7	0	1	0	1	0	0	1	1	1	1	2	5	3	2	2	5	1	1	rs138449255	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:985310C>T	uc003gcb.2	-	3	560	c.182G>A	c.(181-183)CGT>CAT	p.R61H	SLC26A1_uc003gbx.2_Missense_Mutation_p.R61H|IDUA_uc003gby.2_Intron|IDUA_uc003gbz.2_Intron|IDUA_uc003gca.2_Intron|SLC26A1_uc003gcc.2_Missense_Mutation_p.R61H	NM_213613	NP_998778	Q9H2B4	S26A1_HUMAN	solute carrier family 26, member 1 isoform a	61						integral to membrane|plasma membrane	secondary active sulfate transmembrane transporter activity			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GCGGTACTGACGCAGCCAGCG	0.677													9	43					0	0	1	0	0		T	985310	T	T	985310	3	4	66	1	0	0	0	0	1	0	0	0	14539	536	19	1	2034	1	SLC26A1	4	985310	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	328393	985310	190168966	371	44447											
CRIPAK	285464	broad.mit.edu	37	chr4	1389215	1389215	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcctgctcacacgtgcCgacgtggagtgcccgcctgc	4	6	13	18	5	1	0	1	0	0	0	1	2	1	1	5	1	4	1	5	1	0	0	rs112507956	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:1389215C>T	uc003gdf.2	+	1	3876	c.916C>T	c.(916-918)CGA>TGA	p.R306*		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	306					ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			TCACACGTGCCGACGTGGAGT	0.667													26	175					0	0	1	0	0		T	1389215	T	T	1389215	4	4	66	1	0	0	0	0	0	1	0	0	3880	644	23	1	918	1	CRIPAK	4	1389215	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	403905	1389215	189765061	372	44448											
POLN	353497	broad.mit.edu	37	chr4	2181141	2181141	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagagggtgtggcatcactaGgatctataagccatgcagca	13	8	12	8	0	2	1	1	0	1	1	2	2	2	2	1	3	3	3	1	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:2181141G>T	uc003ger.2	-	6	1073	c.1073C>A	c.(1072-1074)CCT>CAT	p.P358H	POLN_uc010ich.1_Intron|POLN_uc011bvi.1_Missense_Mutation_p.P358H	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	358					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			GGCATCACTAGGATCTATAAG	0.363								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					22	35					3.8784e-16	4.15611e-16	1	1	0		T	2181141	T	T	2181141	3	4	66	1	0	0	0	0	1	0	0	0	12226	1000	35	5	1705	5	POLN	4	2181141	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	791926	2181141	188973135	373	44449											
POLN	353497	broad.mit.edu	37	chr4	2230912	2230912	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgagcaacactggagagcGgtgtattacagagatcaaag	14	8	12	7	1	2	3	1	1	1	2	2	5	2	3	0	2	4	2	0	2	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:2230912G>A	uc003ger.2	-	1	47	c.47C>T	c.(46-48)CCG>CTG	p.P16L	POLN_uc011bvi.1_Missense_Mutation_p.P16L|HAUS3_uc011bvj.1_Intron|HAUS3_uc003ges.1_3'UTR|HAUS3_uc003get.1_3'UTR	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	16					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			ACTGGAGAGCGGTGTATTACA	0.343								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					35	88					0	0	1	0	0		A	2230912	A	A	2230912	3	1	66	1	0	0	0	0	1	0	0	0	12226	1116	39	1	2751	1	POLN	4	2230912	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	49771	2230912	188923364	374	44450											
RGS12	6002	broad.mit.edu	37	chr4	3318853	3318853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggttggttaccatgcagaCgaatgacgacgggagcctgg	9	7	16	9	4	0	2	0	1	0	1	0	5	0	3	2	4	3	3	2	4	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:3318853C>T	uc003ggw.2	+	2	1860	c.956C>T	c.(955-957)ACG>ATG	p.T319M	RGS12_uc003ggu.2_Missense_Mutation_p.T319M|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Missense_Mutation_p.T319M|RGS12_uc003ggx.1_Missense_Mutation_p.T319M	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	319	PID.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		ACCATGCAGACGAATGACGAC	0.622													25	92					0	0	1	0	0		T	3318853	T	T	3318853	3	4	66	1	0	0	0	0	1	0	0	0	13320	536	19	1	958	1	RGS12	4	3318853	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1087941	3318853	187835423	375	44451											
STK32B	55351	broad.mit.edu	37	chr4	5461854	5461854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccaaggatcctgagagcCgcgtgtccagccttcatgac	9	8	11	13	2	1	3	1	3	0	1	3	5	3	4	5	1	2	0	5	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:5461854C>T	uc003gih.1	+	9	872	c.808C>T	c.(808-810)CGC>TGC	p.R270C	STK32B_uc010ida.1_Missense_Mutation_p.R223C	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	270	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						TCCTGAGAGCCGCGTGTCCAG	0.567											OREG0016061	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	42					0	0	1	0	0		T	5461854	T	T	5461854	3	4	66	1	0	0	0	0	1	0	0	0	15323	652	23	1	842	1	STK32B	4	5461854	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2143001	5461854	185692422	376	44452											
EVC2	132884	broad.mit.edu	37	chr4	5624499	5624499	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgggtcatggctgagtTctgcaggcgccgcagctcgt	4	10	14	13	3	2	1	1	1	1	0	4	1	3	1	2	3	2	5	2	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:5624499T>C	uc003gij.2	-	14	2320	c.2266A>G	c.(2266-2268)AAC>GAC	p.N756D	EVC2_uc011bwb.1_Missense_Mutation_p.N196D|EVC2_uc003gik.2_Missense_Mutation_p.N676D	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	756	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						ATGGCTGAGTTCTGCAGGCGC	0.652													10	38					0	0	1	0	0		C	5624499	C	C	5624499	3	2	66	1	0	0	0	0	1	0	0	0	5294	1783	62	3	1696	3	EVC2	4	5624499	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	162645	5624499	185529777	377	44453											
JAKMIP1	152789	broad.mit.edu	37	chr4	6043924	6043924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatcttctgggtcagggCggcctcggtcccctctattt	4	12	11	14	2	4	0	1	0	3	0	6	0	5	0	3	4	1	1	3	4	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:6043924C>T	uc010idb.1	-	17	2545	c.2059G>A	c.(2059-2061)GCC>ACC	p.A687T	JAKMIP1_uc010idc.1_Missense_Mutation_p.A502T|JAKMIP1_uc010idd.1_Intron	NM_001099433	NP_001092903	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TGGGTCAGGGCGGCCTCGGTC	0.542													11	57					0	0	1	0	0		T	6043924	T	T	6043924	3	4	66	1	0	0	0	0	1	0	0	0	7956	768	27	1	456	1	JAKMIP1	4	6043924	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	419425	6043924	185110352	378	44454											
MAN2B2	23324	broad.mit.edu	37	chr4	6606969	6606969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggagacgcaccagccatgCgggcaggtacttggtgcctg	8	6	16	11	2	0	1	0	0	0	1	0	3	0	1	3	4	4	3	3	4	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:6606969C>T	uc003gjf.1	+	11	1763	c.1727C>T	c.(1726-1728)GCG>GTG	p.A576V	MAN2B2_uc003gje.1_Missense_Mutation_p.A576V|MAN2B2_uc011bwf.1_Missense_Mutation_p.A525V	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	576					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						ACCAGCCATGCGGGCAGGTAC	0.622													24	50					0	0	1	0	0		T	6606969	T	T	6606969	3	4	66	1	0	0	0	0	1	0	0	0	9235	768	27	1	1769	1	MAN2B2	4	6606969	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	563045	6606969	184547307	379	44455											
C1QTNF7	114905	broad.mit.edu	37	chr4	15444274	15444274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccacagtcatctatctgcagCcagaagatgaagtctggctg	11	9	10	11	0	4	3	1	1	3	2	4	3	4	3	2	1	2	2	2	1	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:15444274C>T	uc011bxb.1	+	3	948	c.721C>T	c.(721-723)CCA>TCA	p.P241S	C1QTNF7_uc003gno.2_Missense_Mutation_p.P248S|C1QTNF7_uc003gnp.2_Missense_Mutation_p.P241S	NM_001135171	NP_001128643	Q9BXJ2	C1QT7_HUMAN	C1q and tumor necrosis factor related protein 7	241	C1q.					collagen					0						CTATCTGCAGCCAGAAGATGA	0.498													36	82					0	0	1	0	0		T	15444274	T	T	15444274	3	4	66	1	0	0	0	0	1	0	0	0	1971	739	26	2	752	2	C1QTNF7	4	15444274	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	8837305	15444274	175710002	380	44456											
CC2D2A	57545	broad.mit.edu	37	chr4	15572057	15572057	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagtggaatccatactcgtAttgagagacactggctggga	12	9	13	7	1	0	2	0	1	0	1	2	6	1	4	1	3	1	2	1	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:15572057A>G	uc010idv.2	+	29	3777	c.3532A>G	c.(3532-3534)ATT>GTT	p.I1178V	CC2D2A_uc003gnx.2_Missense_Mutation_p.I1129V|CC2D2A_uc003gnz.1_RNA|CC2D2A_uc003goa.1_RNA	NM_001080522	NP_001073991	Q9P2K1	C2D2A_HUMAN	coiled-coil and C2 domain containing 2A isoform	1178					cell projection organization	cilium|microtubule basal body				pancreas(2)|ovary(1)	3						CCATACTCGTATTGAGAGACA	0.408													4	11					0	0	1	0	0		G	15572057	G	G	15572057	3	3	66	1	0	0	0	0	1	0	0	0	2731	449	16	3	3841	3	CC2D2A	4	15572057	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	127783	15572057	175582219	381	44457											
DCAF16	54876	broad.mit.edu	37	chr4	17805513	17805513	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaagtatatggactggtgtGcttggatccaacagtttagc	10	12	12	7	1	0	0	0	0	0	0	1	3	1	2	1	3	3	3	1	3	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:17805513G>A	uc003gpn.2	-	3	1313	c.252C>T	c.(250-252)AGC>AGT	p.S84S	DCAF16_uc003gpo.2_RNA	NM_017741	NP_060211	Q9NXF7	DCA16_HUMAN	DDB1 and CUL4 associated factor 16	84						CUL4 RING ubiquitin ligase complex				ovary(1)	1						GGACTGGTGTGCTTGGATCCA	0.448													23	79					0	0	1	0	0		A	17805513	A	A	17805513	2	1	66	1	0	0	0	0	0	0	0	1	4271	1310	46	2		2	DCAF16	4	17805513	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2233456	17805513	173348763	382	44458											
SLIT2	9353	broad.mit.edu	37	chr4	20525728	20525728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgattgagaccagtggtgccCgttgcaccagcccccgccgc	6	6	12	17	4	0	1	0	1	0	1	0	3	0	1	6	1	3	2	6	1	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:20525728C>T	uc003gpr.1	+	14	1570	c.1366C>T	c.(1366-1368)CGT>TGT	p.R456C	SLIT2_uc003gps.1_Missense_Mutation_p.R456C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	456	LRRCT 2.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CAGTGGTGCCCGTTGCACCAG	0.488													33	97					0	0	1	0	0		T	20525728	T	T	20525728	3	4	66	1	0	0	0	0	1	0	0	0	14765	652	23	1	1420	1	SLIT2	4	20525728	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2720215	20525728	170628548	383	44459											
SEL1L3	23231	broad.mit.edu	37	chr4	25806253	25806253	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatccacagcagctggaatcCgtcagaaaggggacgataga	14	6	12	9	2	1	2	1	0	0	2	3	5	3	4	2	3	2	2	2	3	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:25806253C>T	uc003gru.3	-	10	1838	c.1686G>A	c.(1684-1686)ACG>ACA	p.T562T	SEL1L3_uc003grv.2_5'UTR	NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	562						integral to membrane	binding				0						AGCTGGAATCCGTCAGAAAGG	0.438													11	23					0	0	1	0	0		T	25806253	T	T	25806253	2	4	66	1	0	0	0	0	0	0	0	1	14037	639	23	1		1	SEL1L3	4	25806253	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	5280525	25806253	165348023	384	44460											
TBC1D1	23216	broad.mit.edu	37	chr4	38138782	38138782	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggtaggatccaaagcctTgaggccaccattgagaagct	13	8	11	9	0	0	2	0	2	0	1	1	4	1	3	4	3	2	2	4	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:38138782T>C	uc003gtb.2	+	20	3676	c.3333T>C	c.(3331-3333)CTT>CTC	p.L1111L	TBC1D1_uc011byd.1_Silent_p.L1102L|TBC1D1_uc010ifd.2_Silent_p.L898L|TBC1D1_uc003gtd.2_Silent_p.L123L	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	1111						nucleus	Rab GTPase activator activity			ovary(1)	1						TCCAAAGCCTTGAGGCCACCA	0.532													19	48					0	0	1	0	0		C	38138782	C	C	38138782	2	2	66	1	0	0	0	0	0	0	0	1	15622	1799	63	3		3	TBC1D1	4	38138782	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	12332529	38138782	153015494	385	44461											
RFC1	5981	broad.mit.edu	37	chr4	39318611	39318611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gataagcttgataattagtgCgtttcttttcagaatcttca	11	17	7	6	1	4	2	2	1	2	1	4	3	4	2	0	0	2	2	0	0	4	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:39318611C>T	uc003gty.1	-	10	1261	c.1127G>A	c.(1126-1128)CGC>CAC	p.R376H	RFC1_uc003gtx.1_Missense_Mutation_p.R376H	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit	376					DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4						ATAATTAGTGCGTTTCTTTTC	0.388													16	35					0	0	1	0	0		T	39318611	T	T	39318611	3	4	66	1	0	0	0	0	1	0	0	0	13269	768	27	1	2380	1	RFC1	4	39318611	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1179829	39318611	151835665	386	44462											
KLB	152831	broad.mit.edu	37	chr4	39408649	39408649	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaaataaccacacgctataGgaatacaatgtccaacgggg	16	7	9	9	2	0	1	0	1	0	0	1	2	1	2	2	3	3	1	2	3	8	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:39408649G>T	uc003gua.2	+	1	177	c.80G>T	c.(79-81)AGG>ATG	p.R27M	KLB_uc011byj.1_Missense_Mutation_p.R27M	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	27	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						ACACGCTATAGGAATACAATG	0.473													21	47					3.51602e-12	3.72036e-12	1	1	0		T	39408649	T	T	39408649	3	4	66	1	0	0	0	0	1	0	0	0	8348	1000	35	5	82	5	KLB	4	39408649	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	90038	39408649	151745627	387	44463											
DCAF4L1	285429	broad.mit.edu	37	chr4	41984733	41984733	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actaaatgtgtaaggcagtaCgaaggtcacgtgaatgagtc	14	9	12	6	2	1	2	1	2	0	0	2	3	1	2	0	2	1	3	0	2	6	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:41984733C>T	uc003gwk.2	+	1	1021	c.924C>T	c.(922-924)TAC>TAT	p.Y308Y		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	308										skin(1)	1						TAAGGCAGTACGAAGGTCACG	0.532													30	64					0	0	1	0	0		T	41984733	T	T	41984733	2	4	66	1	0	0	0	0	0	0	0	1	4274	547	19	1		1	DCAF4L1	4	41984733	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2576084	41984733	149169543	388	44464											
ATP8A1	10396	broad.mit.edu	37	chr4	42414995	42414995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcacttcagactgtgaaaCgattccattttcatcttgag	11	15	6	9	1	4	3	3	2	1	1	5	4	5	3	1	0	1	0	1	0	2	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:42414995C>T	uc003gwr.2	-	37	3665	c.3433G>A	c.(3433-3435)GTT>ATT	p.V1145I	ATP8A1_uc003gwq.2_Missense_Mutation_p.V371I|ATP8A1_uc003gws.2_Missense_Mutation_p.V1130I	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	1145	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	GACTGTGAAACGATTCCATTT	0.438													11	27					0	0	1	0	0		T	42414995	T	T	42414995	3	4	66	1	0	0	0	0	1	0	0	0	1193	536	19	1	65	1	ATP8A1	4	42414995	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	430262	42414995	148739281	389	44465											
GABRA4	2557	broad.mit.edu	37	chr4	46967009	46967009	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagaggggcttcaggatgcTtctctctctgcactggagca	7	10	13	11	0	3	1	1	0	2	1	5	3	3	3	0	4	3	5	0	4	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:46967009T>G	uc003gxg.2	-	8	1251	c.1112A>C	c.(1111-1113)AAG>ACG	p.K371T		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	371	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TTCAGGATGCTTCTCTCTCTG	0.428													10	55					0	0	1	0	0		G	46967009	G	G	46967009	3	3	66	1	0	0	0	0	1	0	0	0	6177	1609	56	5	560	5	GABRA4	4	46967009	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	4552014	46967009	144187267	390	44466											
GABRA4	2557	broad.mit.edu	37	chr4	46995418	46995418	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggcggacagagcgatcgcGggtaccttcttggcagaaac	9	6	14	12	5	1	2	0	0	1	2	2	4	1	3	2	4	3	2	2	4	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:46995418G>A	uc003gxg.2	-	1	163	c.24C>T	c.(22-24)CCC>CCT	p.P8P		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	8					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GAGCGATCGCGGGTACCTTCT	0.592													24	67					0	0	1	0	0		A	46995418	A	A	46995418	2	1	66	1	0	0	0	0	0	0	0	1	6177	1103	39	1		1	GABRA4	4	46995418	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	28409	46995418	144158858	391	44467											
CORIN	10699	broad.mit.edu	37	chr4	47663848	47663848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaagaacagactcacagcGttctttagagtgttcacaca	13	9	7	12	1	3	3	2	0	1	3	3	3	3	3	1	0	2	2	1	0	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:47663848G>A	uc003gxm.2	-	12	1708	c.1615C>T	c.(1615-1617)CGC>TGC	p.R539C	CORIN_uc011bzf.1_Missense_Mutation_p.R400C|CORIN_uc011bzg.1_Missense_Mutation_p.R472C|CORIN_uc011bzh.1_Missense_Mutation_p.R502C|CORIN_uc011bzi.1_Missense_Mutation_p.R502C	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	539	Extracellular (Potential).|FZ 2.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						GACTCACAGCGTTCTTTAGAG	0.413													13	28					0	0	1	0	0		A	47663848	A	A	47663848	3	1	66	1	0	0	0	0	1	0	0	0	3755	1145	40	1	1557	1	CORIN	4	47663848	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	668430	47663848	143490428	392	44468											
CWH43	80157	broad.mit.edu	37	chr4	49063827	49063827	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatttattttttatttttttAgatttggatcctacaaagaa	12	22	4	3	0	0	2	0	0	0	2	1	3	1	3	1	1	1	0	1	1	7	12			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:49063827A>T	uc003gyv.2	+	16	2204	c.2022_splice	c.e16-2	p.R674_splice	CWH43_uc011bzl.1_Splice_Site_p.R647_splice	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog						GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						ttatttttttaGATTTGGATC	0.234													12	16					0	0	1	0	0		T	49063827	T	T	49063827	5	4	66	1	0	0	0	0	0	0	1	0	4076	434	15	5	2082	5	CWH43	4	49063827	Splice_Site	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1399979	49063827	142090449	393	44469											
SPATA18	132671	broad.mit.edu	37	chr4	52938115	52938115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagctcaggaggatgcccGccacagaaacacagatcaga	15	4	10	12	1	3	3	3	0	0	3	3	5	3	5	2	2	3	1	2	2	2	0	rs142158631		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:52938115G>A	uc003gzl.2	+	6	829	c.551G>A	c.(550-552)CGC>CAC	p.R184H	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.R152H|SPATA18_uc003gzk.1_Missense_Mutation_p.R184H	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	184	Potential.				mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			GAGGATGCCCGCCACAGAAAC	0.383													10	15					0	0	1	0	0		A	52938115	A	A	52938115	3	1	66	1	0	0	0	0	1	0	0	0	15028	1087	38	1	573	1	SPATA18	4	52938115	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3874288	52938115	138216161	394	44470											
POLR2B	5431	broad.mit.edu	37	chr4	57897132	57897132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttatgtctatgagtattgCaccgcgaatgatgagtgttt	10	15	10	6	2	1	3	0	3	1	0	1	4	1	3	1	0	1	3	1	0	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:57897132C>T	uc003hcl.1	+	25	3546	c.3503C>T	c.(3502-3504)GCA>GTA	p.A1168V	POLR2B_uc011cae.1_Missense_Mutation_p.A1161V|POLR2B_uc011caf.1_Missense_Mutation_p.A1093V|POLR2B_uc003hcm.1_Missense_Mutation_p.A661V	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	1168					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					ATGAGTATTGCACCGCGAATG	0.333													12	23					0	0	1	0	0		T	57897132	T	T	57897132	3	4	66	1	0	0	0	0	1	0	0	0	12234	710	25	2	3601	2	POLR2B	4	57897132	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4959017	57897132	133257144	395	44471											
SMR3A	26952	broad.mit.edu	37	chr4	71232432	71232432	+	Frame_Shift_Del	DEL	T	-	-																															gctcctcctcctccaccatgTtttccttttggaacaggatt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:71232432delT	uc003hfg.1	+	3	207	c.126delT	c.(124-126)TGTfs	p.C42fs	SMR3B_uc011cas.1_Intron	NM_012390	NP_036522	Q99954	SMR3A_HUMAN	submaxillary gland androgen regulated protein 3	42	Pro-rich.					extracellular region					0		all_hematologic(202;0.196)				CTCCACCATGTTTTCCTTTTG	0.517													27	46	---	---	---	---						.	-	71232432	-	-	71232432	7	5	66	1	0	1	0	1	0	0	0	0	14836	1731	60	0	132	0	SMR3A	4	71232432	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	13335300	71232432	119921844	396	44472											
MUC7	4589	broad.mit.edu	37	chr4	71347244	71347244	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagaccacagctgtcccAcccacaccttctgcaactac	11	6	5	19	0	1	1	0	0	1	1	2	2	2	1	5	0	4	2	5	0	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:71347244A>G	uc011cat.1	+	4	1071	c.783A>G	c.(781-783)CCA>CCG	p.P261P	MUC7_uc011cau.1_Silent_p.P261P|MUC7_uc003hfj.2_Silent_p.P261P|uc011cav.1_Intron	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	261	Thr-rich.|5.					extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			CAGCTGTCCCACCCACACCTT	0.597													23	103					0	0	1	0	0		G	71347244	G	G	71347244	2	3	66	1	0	0	0	0	0	0	0	1	9999	146	6	3		3	MUC7	4	71347244	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	114812	71347244	119807032	397	44473											
AMBN	258	broad.mit.edu	37	chr4	71472425	71472425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgagatgatgcatgacgCatggcatttccaagagccct	10	8	11	12	2	0	4	0	2	0	2	1	5	1	4	3	1	2	3	3	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:71472425C>T	uc003hfl.2	+	13	1397	c.1322C>T	c.(1321-1323)GCA>GTA	p.A441V		NM_016519	NP_057603	Q9NP70	AMBN_HUMAN	ameloblastin precursor	441					bone mineralization|cell adhesion|cell proliferation|odontogenesis of dentine-containing tooth	proteinaceous extracellular matrix	growth factor activity|structural constituent of tooth enamel			ovary(3)|skin(1)	4			Lung(101;0.235)			ATGCATGACGCATGGCATTTC	0.488													12	18					0	0	1	0	0		T	71472425	T	T	71472425	3	4	66	1	0	0	0	0	1	0	0	0	563	710	25	2	1372	2	AMBN	4	71472425	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	125181	71472425	119681851	398	44474											
USO1	8615	broad.mit.edu	37	chr4	76695832	76695832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttcttctctatagggcGtcttactactgcaggcacta	7	15	7	12	1	4	0	0	0	4	0	5	0	4	0	0	2	3	2	0	2	5	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:76695832G>A	uc003hiu.2	+	7	734	c.559G>A	c.(559-561)GTC>ATC	p.V187I	USO1_uc003hiv.2_Missense_Mutation_p.V22I|USO1_uc003hiw.2_Missense_Mutation_p.V22I	NM_003715	NP_003706	O60763	USO1_HUMAN	USO1 homolog, vesicle docking protein	187	Globular head.|ARM 3.				intracellular protein transport|vesicle fusion with Golgi apparatus	cytosol|Golgi membrane	protein binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TCTATAGGGCGTCTTACTACT	0.299													16	20					0	0	1	0	0		A	76695832	A	A	76695832	3	1	66	1	0	0	0	0	1	0	0	0	17065	1145	40	1	430	1	USO1	4	76695832	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5223407	76695832	114458444	399	44475											
FRAS1	80144	broad.mit.edu	37	chr4	79400610	79400610	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctctatgctctagaatcAggctctgattttaaatctag	11	14	7	9	0	5	2	1	1	4	1	5	2	5	2	1	1	2	2	1	1	6	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:79400610A>G	uc003hlb.2	+	56	8621	c.8181A>G	c.(8179-8181)TCA>TCG	p.S2727S		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2722	Extracellular (Potential).|Calx-beta 2.				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						CTCTAGAATCAGGCTCTGATT	0.458													16	5					0	0	1	0	0		G	79400610	G	G	79400610	2	3	66	1	0	0	0	0	0	0	0	1	6056	175	7	3		3	FRAS1	4	79400610	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2704778	79400610	111753666	400	44476											
C4orf36	132989	broad.mit.edu	37	chr4	87808944	87808944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagaggtcttctcaaaccgGctggcctttccctcaggaga	9	9	11	12	1	3	2	2	0	2	2	5	4	4	2	3	4	1	1	3	4	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:87808944G>A	uc003hqe.3	-	4	636	c.323C>T	c.(322-324)GCC>GTC	p.A108V		NM_144645	NP_653246	Q96KX1	CD036_HUMAN	hypothetical protein LOC132989	108											0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00141)		TCTCAAACCGGCTGGCCTTTC	0.428													20	22					0	0	1	0	0		A	87808944	A	A	87808944	3	1	66	1	0	0	0	0	1	0	0	0	2269	1203	42	2	34	2	C4orf36	4	87808944	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	8408334	87808944	103345332	401	44477											
MANBA	4126	broad.mit.edu	37	chr4	103595217	103595217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctataagttccactgtcCtaaaataaacctgcaatgaa	15	12	4	10	0	1	1	0	1	1	0	3	1	3	1	3	0	2	2	3	0	8	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:103595217C>T	uc003hwg.2	-	8	1071	c.971G>A	c.(970-972)AGG>AAG	p.R324K	MANBA_uc011ces.1_Missense_Mutation_p.R267K	NM_005908	NP_005899	O00462	MANBA_HUMAN	mannosidase, beta A, lysosomal precursor	324					carbohydrate metabolic process|protein modification process	lysosome	beta-mannosidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;4.44e-08)		TTCCACTGTCCTAAAATAAAC	0.294													11	33					0	0	1	0	0		T	103595217	T	T	103595217	3	4	66	1	0	0	0	0	1	0	0	0	9237	681	24	4	1708	4	MANBA	4	103595217	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	15786273	103595217	87559059	402	44478											
TACR3	6870	broad.mit.edu	37	chr4	104512789	104512789	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatgaagtaaatatgataggGcagccagcagatagcaaatg	18	7	11	5	0	0	3	0	2	0	1	0	3	0	3	1	1	3	4	1	1	8	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:104512789G>A	uc003hxe.1	-	4	1083	c.940C>T	c.(940-942)CCC>TCC	p.P314S		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	314	Helical; Name=6; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		ATATGATAGGGCAGCCAGCAG	0.343													18	19					0	0	1	0	0		A	104512789	A	A	104512789	3	1	66	1	0	0	0	0	1	0	0	0	15532	1203	42	2	465	2	TACR3	4	104512789	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	917572	104512789	86641487	403	44479											
HADH	3033	broad.mit.edu	37	chr4	108935649	108935649	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcacggatgcagcctcCgttgtccacagcacagactt	10	7	9	15	2	0	1	0	0	0	1	2	2	2	2	4	1	4	4	4	1	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:108935649C>T	uc003hyq.2	+	3	473	c.324C>T	c.(322-324)TCC>TCT	p.S108S	HADH_uc010ilx.2_Silent_p.S108S|HADH_uc010ily.2_Intron|HADH_uc003hyr.2_Silent_p.S112S	NM_005327	NP_005318	Q16836	HCDH_HUMAN	L-3-hydroxyacyl-Coenzyme A dehydrogenase	108					fatty acid beta-oxidation	mitochondrial matrix	3-hydroxyacyl-CoA dehydrogenase activity|NAD+ binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000168)	NADH(DB00157)	ATGCAGCCTCCGTTGTCCACA	0.532													10	84					0	0	1	0	0		T	108935649	T	T	108935649	2	4	66	1	0	0	0	0	0	0	0	1	6958	639	23	1		1	HADH	4	108935649	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4422860	108935649	82218627	404	44480											
ALPK1	80216	broad.mit.edu	37	chr4	113333097	113333097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaaaacttctgcaggtcGccaaaggtctccacaagttg	11	9	10	11	1	2	0	0	0	2	0	4	1	2	1	2	3	2	2	2	3	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:113333097G>A	uc003iap.3	+	5	670	c.391G>A	c.(391-393)GCC>ACC	p.A131T	ALPK1_uc011cfw.1_RNA|ALPK1_uc003ian.3_Missense_Mutation_p.A131T|ALPK1_uc011cfx.1_Missense_Mutation_p.A53T|ALPK1_uc003iao.3_RNA|ALPK1_uc003iaq.2_Missense_Mutation_p.A75T|ALPK1_uc010imo.2_5'UTR|ALPK1_uc003iar.2_Missense_Mutation_p.A101T	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	131							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		TCTGCAGGTCGCCAAAGGTCT	0.597													4	26					0	0	1	0	0		A	113333097	A	A	113333097	3	1	66	1	0	0	0	0	1	0	0	0	544	1087	38	1	401	1	ALPK1	4	113333097	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4397448	113333097	77821179	405	44481											
NDST4	64579	broad.mit.edu	37	chr4	115998005	115998005	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttaactgttttcagctccAttgacctatatggtagaatt	10	17	7	7	0	1	2	1	1	0	1	2	2	2	2	2	1	2	4	2	1	5	9			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:115998005A>G	uc003ibu.2	-	2	867	c.188T>C	c.(187-189)ATG>ACG	p.M63T	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	63	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TTTCAGCTCCATTGACCTATA	0.413													23	26					0	0	1	0	0		G	115998005	G	G	115998005	3	3	66	1	0	0	0	0	1	0	0	0	10277	217	8	3	2482	3	NDST4	4	115998005	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2664908	115998005	75156271	406	44482											
BBS12	166379	broad.mit.edu	37	chr4	123663688	123663688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcagataacaacacatcacGaactctgaaaaacagcctgc	18	5	6	12	1	2	2	1	1	1	1	2	3	2	2	1	0	7	1	1	0	5	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:123663688G>A	uc003ieu.2	+	2	834	c.641G>A	c.(640-642)CGA>CAA	p.R214Q		NM_152618	NP_689831	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	214					cellular protein metabolic process	cilium	ATP binding			ovary(2)	2						AACACATCACGAACTCTGAAA	0.398									Bardet-Biedl_syndrome				39	37					0	0	1	0	0		A	123663688	A	A	123663688	3	1	66	1	0	0	0	0	1	0	0	0	1338	1058	37	1	643	1	BBS12	4	123663688	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	7665683	123663688	67490588	407	44483											
PCDH10	57575	broad.mit.edu	37	chr4	134072881	134072881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggctacttgtacgccctgcGctccttcgactatgagcagc	6	10	10	15	4	0	1	0	1	0	0	2	2	1	1	2	1	5	4	2	1	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:134072881G>A	uc003iha.2	+	1	2412	c.1586G>A	c.(1585-1587)CGC>CAC	p.R529H	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.R529H	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	529	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TACGCCCTGCGCTCCTTCGAC	0.577													32	49					0	0	1	0	0		A	134072881	A	A	134072881	3	1	66	1	0	0	0	0	1	0	0	0	11526	1087	38	1	1588	1	PCDH10	4	134072881	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	10409193	134072881	57081395	408	44484											
CLGN	1047	broad.mit.edu	37	chr4	141313501	141313502	+	Frame_Shift_Ins	INS	-	T	T																															ttgtggtatacatatgtcggINStttttttatactctgtatct																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:141313501_141313502insT	uc011chi.1	-	14	1740_1741	c.1522_1523insA	c.(1522-1524)ACCfs	p.T508fs	CLGN_uc003iii.2_Frame_Shift_Ins_p.T508fs	NM_001130675	NP_001124147	O14967	CLGN_HUMAN	calmegin precursor	508	Cytoplasmic (Potential).				protein folding	endoplasmic reticulum membrane|integral to membrane	calcium ion binding|unfolded protein binding			ovary(2)|skin(1)	3	all_hematologic(180;0.162)					ACATATGTCGGTTTTTTTATAC	0.327													20	39	---	---	---	---						.	T	141313502	T	T	141313501	7	5	66	1	0	1	1	0	0	0	0	0	3527	1261	44	0	321	0	CLGN	4	141313501	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	7240620	141313501	49840775	409	44485											
FBXW7	55294	broad.mit.edu	37	chr4	153244156	153244156	+	Frame_Shift_Del	DEL	C	-	-																															cgccacacaactcccccactCcccccactctccaatgtgac																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:153244156delC	uc003ims.2	-	12	2150	c.2001delG	c.(1999-2001)GGGfs	p.G667fs	FBXW7_uc011cii.1_Frame_Shift_Del_p.G667fs|FBXW7_uc003imt.2_Frame_Shift_Del_p.G667fs|FBXW7_uc011cih.1_Frame_Shift_Del_p.G491fs|FBXW7_uc003imq.2_Frame_Shift_Del_p.G587fs|FBXW7_uc003imr.2_Frame_Shift_Del_p.G549fs	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	667					interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.S668fs*26(1)|p.S668fs*39(1)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				CTCCCCCACTCCCCCCACTCT	0.488			Mis|N|D|F		colorectal|endometrial|T-ALL								73	96	---	---	---	---						.	-	153244156	-	-	153244156	7	5	66	1	0	1	0	1	0	0	0	0	5783	842	30	0	126	0	FBXW7	4	153244156	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	11930655	153244156	37910120	410	44486											
TIGD4	201798	broad.mit.edu	37	chr4	153691554	153691554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccaactgaacatgtttcGcctttaaatgcaaatgtatt	12	16	5	8	1	0	1	0	1	0	0	2	1	1	1	2	0	3	3	2	0	6	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:153691554G>A	uc003imy.2	-	2	1385	c.603C>T	c.(601-603)GGC>GGT	p.G201G		NM_145720	NP_663772	Q8IY51	TIGD4_HUMAN	tigger transposable element derived 4	201	DDE.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|DNA binding			ovary(1)	1	all_hematologic(180;0.093)					AACATGTTTCGCCTTTAAATG	0.343													43	58					0	0	1	0	0		A	153691554	A	A	153691554	2	1	66	1	0	0	0	0	0	0	0	1	15923	1074	38	1		1	TIGD4	4	153691554	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	447398	153691554	37462722	411	44487											
FSTL5	56884	broad.mit.edu	37	chr4	162459350	162459350	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtcttccacaaaaagaGaagagatgtcttcatccact	15	9	7	10	0	3	3	1	0	2	3	5	5	5	3	2	0	0	0	2	0	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:162459350G>T	uc003iqh.2	-	10	1716	c.1280C>A	c.(1279-1281)TCT>TAT	p.S427Y	FSTL5_uc003iqi.2_Missense_Mutation_p.S426Y|FSTL5_uc010iqv.2_Missense_Mutation_p.S426Y	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	427						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CACAAAAAGAGAAGAGATGTC	0.408													52	80					2.47907e-22	2.68921e-22	1	1	0		T	162459350	T	T	162459350	3	4	66	1	0	0	0	0	1	0	0	0	6094	942	33	5	1291	5	FSTL5	4	162459350	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	8767796	162459350	28694926	412	44488											
NPY1R	4886	broad.mit.edu	37	chr4	164247331	164247331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagagagaaaatggacaCagtgattgaaacacattgca	19	6	9	7	0	0	4	0	2	0	2	0	6	0	5	1	1	3	1	1	1	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:164247331C>T	uc003iqm.1	-	2	642	c.376G>A	c.(376-378)GTG>ATG	p.V126M	NPY1R_uc011cjj.1_Intron	NM_000909	NP_000900	P25929	NPY1R_HUMAN	neuropeptide Y receptor Y1	126	Helical; Name=3; (Potential).				inhibition of adenylate cyclase activity by G-protein signaling pathway|outflow tract morphogenesis	integral to plasma membrane	protein binding			lung(1)|pancreas(1)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				AAAATGGACACAGTGATTGAA	0.428													40	37					0	0	1	0	0		T	164247331	T	T	164247331	3	4	66	1	0	0	0	0	1	0	0	0	10627	478	17	4	786	4	NPY1R	4	164247331	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1787981	164247331	26906945	413	44489											
SAP30	8819	broad.mit.edu	37	chr4	174294658	174294658	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacctgttcaagatattgatAccccagaggtagatggaagt	13	10	10	8	0	1	4	1	1	0	3	1	5	1	5	3	2	1	2	3	2	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:174294658A>G	uc003itd.2	+	2	674	c.433A>G	c.(433-435)ACC>GCC	p.T145A		NM_003864	NP_003855	O75446	SAP30_HUMAN	Sin3A-associated protein, 30kDa	145	Interaction with SIN3A (By similarity).				transcription, DNA-dependent	histone deacetylase complex	DNA binding|metal ion binding|protein binding|transcription corepressor activity			ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0837)|all_hematologic(60;0.107)		all cancers(43;1.15e-17)|Epithelial(43;4.33e-16)|OV - Ovarian serous cystadenocarcinoma(60;6.62e-09)|STAD - Stomach adenocarcinoma(60;0.00278)|GBM - Glioblastoma multiforme(59;0.00659)|LUSC - Lung squamous cell carcinoma(193;0.0919)		AGATATTGATACCCCAGAGGT	0.323													49	47					0	0	1	0	0		G	174294658	G	G	174294658	3	3	66	1	0	0	0	0	1	0	0	0	13858	391	14	3	439	3	SAP30	4	174294658	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	10047327	174294658	16859618	414	44490											
WDR17	116966	broad.mit.edu	37	chr4	177082120	177082120	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgcctaaaggagcttcatAttctgatgatatctacaagg	12	12	9	8	1	3	2	1	2	2	0	3	3	3	3	1	2	3	1	1	2	6	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:177082120A>G	uc003iuj.2	+	21	2945	c.2789A>G	c.(2788-2790)TAT>TGT	p.Y930C	WDR17_uc003iuk.2_Missense_Mutation_p.Y906C|WDR17_uc003ium.3_Missense_Mutation_p.Y906C|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.Y149C	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	930										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		GGAGCTTCATATTCTGATGAT	0.343													20	16					0	0	1	0	0		G	177082120	G	G	177082120	3	3	66	1	0	0	0	0	1	0	0	0	17303	449	16	3	2867	3	WDR17	4	177082120	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2787462	177082120	14072156	415	44491											
WDR17	116966	broad.mit.edu	37	chr4	177098716	177098716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaaagaagagtcactgaaaGgaattattggaccagattat	18	10	9	4	0	1	4	1	1	0	3	1	6	1	6	1	2	0	0	1	2	7	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:177098716G>A	uc003iuj.2	+	30	3916	c.3760G>A	c.(3760-3762)GGA>AGA	p.G1254R	WDR17_uc003iuk.2_Missense_Mutation_p.G1230R|WDR17_uc003ium.3_Missense_Mutation_p.G1215R|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.G465R	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	1254										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		GTCACTGAAAGGAATTATTGG	0.343													31	44					0	0	1	0	0		A	177098716	A	A	177098716	3	1	66	1	0	0	0	0	1	0	0	0	17303	1001	35	4	3874	4	WDR17	4	177098716	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	16596	177098716	14055560	416	44492											
WWC2	80014	broad.mit.edu	37	chr4	184166576	184166576	+	Frame_Shift_Del	DEL	A	-	-																															tctcttttcacagaattgatAaaaaaatgtctggaggccag																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:184166576delA	uc010irx.2	+	6	792	c.610delA	c.(610-612)AAAfs	p.K204fs	WWC2_uc003ivk.3_5'UTR|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_Intron	NM_024949	NP_079225	Q6AWC2	WWC2_HUMAN	WW and C2 domain containing 2	204										ovary(2)|lung(1)	3		all_lung(41;5.28e-14)|Lung NSC(41;1.35e-13)|Colorectal(36;0.00681)|Hepatocellular(41;0.00886)|Renal(120;0.00992)|Prostate(90;0.0237)|all_hematologic(60;0.0592)|Esophageal squamous(56;0.179)|all_neural(102;0.202)		all cancers(43;3.38e-24)|Epithelial(43;1.4e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.09e-09)|GBM - Glioblastoma multiforme(59;3.33e-05)|Colorectal(24;3.58e-05)|STAD - Stomach adenocarcinoma(60;4.21e-05)|COAD - Colon adenocarcinoma(29;0.000171)|LUSC - Lung squamous cell carcinoma(40;0.0145)|READ - Rectum adenocarcinoma(43;0.242)		CAGAATTGATAAAAAAATGTC	0.353													3	5	---	---	---	---						.	-	184166576	-	-	184166576	7	5	66	1	0	1	0	1	0	0	0	0	17438	363	13	0	632	0	WWC2	4	184166576	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	7067860	184166576	6987700	417	44493											
FAT1	2195	broad.mit.edu	37	chr4	187518870	187518870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccgaatcacactgacaaaCggcgccatccaaactgtcaa	15	5	6	15	3	2	1	2	1	0	0	3	2	3	1	3	1	2	0	3	1	4	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:187518870C>T	uc003izf.2	-	24	12522	c.12334G>A	c.(12334-12336)GTT>ATT	p.V4112I	FAT1_uc010isn.2_5'Flank|FAT1_uc003ize.2_5'Flank	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4112	Extracellular (Potential).|EGF-like 4.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CACTGACAAACGGCGCCATCC	0.428										HNSCC(5;0.00058)			7	15					0	0	1	0	0		T	187518870	T	T	187518870	3	4	66	1	0	0	0	0	1	0	0	0	5703	536	19	1	1448	1	FAT1	4	187518870	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3352294	187518870	3635406	418	44494											
FAT1	2195	broad.mit.edu	37	chr4	187532624	187532624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcatttgcttcaatatcccGacttgctgcatacacttgaa	10	14	6	11	1	1	1	1	1	0	0	2	2	2	1	1	0	5	4	1	0	4	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr4:187532624G>A	uc003izf.2	-	14	9957	c.9769C>T	c.(9769-9771)CGG>TGG	p.R3257W		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3257	Extracellular (Potential).|Cadherin 30.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TCAATATCCCGACTTGCTGCA	0.408										HNSCC(5;0.00058)			15	27					0	0	1	0	0		A	187532624	A	A	187532624	3	1	66	1	0	0	0	0	1	0	0	0	5703	1057	37	1	4053	1	FAT1	4	187532624	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	13754	187532624	3621652	419	44495											
TPPP	11076	broad.mit.edu	37	chr5	678052	678052	+	Frame_Shift_Del	DEL	C	-	-																															gagctcaggggatgcggctgCcccctcaccagcaccctccg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:678052delC	uc003jbg.3	-	1	842	c.124delG	c.(124-126)GCAfs	p.A42fs	TPPP_uc003jbh.3_Frame_Shift_Del_p.A42fs	NM_007030	NP_008961	O94811	TPPP_HUMAN	tubulin polymerization promoting protein	42	Mediates interaction with LIMK1.				microtubule bundle formation|microtubule polymerization|positive regulation of protein polymerization	nucleus|perinuclear region of cytoplasm|soluble fraction	calcium ion binding|microtubule binding				0		Ovarian(839;0.0563)	Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)	GBM - Glioblastoma multiforme(108;0.0191)		GATGCGGCTGCCCCCTCACCA	0.697													9	19	---	---	---	---						.	-	678052	-	-	678052	7	5	66	1	0	1	0	1	0	0	0	0	16439	739	26	0	547	0	TPPP	5	678052	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08		678052	180237208	420	44496											
BRD9	65980	broad.mit.edu	37	chr5	881252	881252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctcggccgtgttgaccaCgctgtagagcaggctcccgt	5	8	14	14	5	0	2	0	1	0	1	2	2	1	2	3	3	1	6	3	3	1	2	rs145491306		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:881252C>T	uc003jbq.2	-	9	1179	c.1012G>A	c.(1012-1014)GTG>ATG	p.V338M	BRD9_uc003jbl.2_Missense_Mutation_p.V222M|BRD9_uc003jbm.2_RNA|BRD9_uc003jbn.2_RNA|BRD9_uc011cmb.1_Missense_Mutation_p.V285M|BRD9_uc003jbo.2_Missense_Mutation_p.V242M|BRD9_uc003jbp.2_Intron|BRD9_uc011cmc.1_Intron	NM_023924	NP_076413	Q9H8M2	BRD9_HUMAN	bromodomain containing 9 isoform 1	338							nucleic acid binding				0			Epithelial(17;0.00202)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00815)|Lung(60;0.185)			GTGTTGACCACGCTGTAGAGC	0.607													9	18					0	0	1	0	0		T	881252	T	T	881252	3	4	66	1	0	0	0	0	1	0	0	0	1510	536	19	1	813	1	BRD9	5	881252	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	203200	881252	180034008	421	44497											
BRD9	65980	broad.mit.edu	37	chr5	884147	884147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctctgcggtactgtccGtcaagctgcaggcattccct	5	11	10	15	2	2	0	1	0	1	0	5	0	5	0	3	2	4	5	3	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:884147G>A	uc003jbq.2	-	8	1039	c.872C>T	c.(871-873)ACG>ATG	p.T291M	BRD9_uc003jbl.2_Missense_Mutation_p.T175M|BRD9_uc003jbm.2_RNA|BRD9_uc003jbn.2_RNA|BRD9_uc011cmb.1_Missense_Mutation_p.T238M|BRD9_uc003jbo.2_Missense_Mutation_p.T195M|BRD9_uc003jbp.2_5'Flank|BRD9_uc011cmc.1_RNA	NM_023924	NP_076413	Q9H8M2	BRD9_HUMAN	bromodomain containing 9 isoform 1	291							nucleic acid binding				0			Epithelial(17;0.00202)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00815)|Lung(60;0.185)			GGTACTGTCCGTCAAGCTGCA	0.632													10	31					0	0	1	0	0		A	884147	A	A	884147	3	1	66	1	0	0	0	0	1	0	0	0	1510	1145	40	1	957	1	BRD9	5	884147	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2895	884147	180031113	422	44498											
IRX2	153572	broad.mit.edu	37	chr5	2748586	2748586	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccgggggccgcggccgcAgagttgtaccgcaggagacc	6	4	17	14	6	0	2	0	0	0	2	1	3	0	2	5	4	1	4	5	4	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:2748586A>C	uc003jda.2	-	3	1478	c.1236T>G	c.(1234-1236)TCT>TCG	p.S412S	IRX2_uc003jdb.2_Silent_p.S412S	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	412						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		CCGCGGCCGCAGAGTTGTACC	0.711													5	8					0	0	1	0	0		C	2748586	C	C	2748586	2	2	66	1	0	0	0	0	0	0	0	1	7860	175	7	5		5	IRX2	5	2748586	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1864439	2748586	178166674	423	44499											
IRX1	79192	broad.mit.edu	37	chr5	3599762	3599762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatcgacattgacaagatcGacgagcacgatggcgaccag	13	5	12	11	5	0	2	0	1	0	1	2	7	0	2	1	1	1	2	1	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:3599762G>A	uc003jde.2	+	2	752	c.700G>A	c.(700-702)GAC>AAC	p.D234N		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	234						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						TGACAAGATCGACGAGCACGA	0.647													10	30					0	0	1	0	0		A	3599762	A	A	3599762	3	1	66	1	0	0	0	0	1	0	0	0	7859	1058	37	1	706	1	IRX1	5	3599762	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	851176	3599762	177315498	424	44500											
ADAMTS16	170690	broad.mit.edu	37	chr5	5306817	5306817	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgggaccctcgaggggcagCtggtttgcctcaccctggtc	4	8	15	14	2	1	0	1	0	0	0	3	2	1	1	3	5	2	3	3	5	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:5306817C>A	uc003jdl.2	+	21	3525	c.3387C>A	c.(3385-3387)AGC>AGA	p.S1129R		NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1129	TSP type-1 6.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CGAGGGGCAGCTGGTTTGCCT	0.687													3	15					0.004672	0.00470665	1	1	0		A	5306817	A	A	5306817	3	1	66	1	0	0	0	0	1	0	0	0	261	796	28	5	3469	5	ADAMTS16	5	5306817	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1707055	5306817	175608443	425	44501											
NSUN2	54888	broad.mit.edu	37	chr5	6600045	6600045	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgccttgggcctgctcaccgGggtggatggacccccgccgg	3	7	16	15	3	1	0	1	0	0	0	1	2	1	2	6	6	2	1	6	6	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:6600045G>A	uc003jdu.2	-	19	2363	c.2298C>T	c.(2296-2298)CCC>CCT	p.P766P	NSUN2_uc003jds.2_Silent_p.P212P|NSUN2_uc003jdt.2_Silent_p.P530P|NSUN2_uc011cmk.1_Silent_p.P731P|NSUN2_uc003jdv.2_Silent_p.P530P	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	766						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						CTGCTCACCGGGGTGGATGGA	0.627													37	67					0	0	1	0	0		A	6600045	A	A	6600045	2	1	66	1	0	0	0	0	0	0	0	1	10697	1219	43	4		4	NSUN2	5	6600045	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1293228	6600045	174315215	426	44502											
SRD5A1	6715	broad.mit.edu	37	chr5	6663023	6663023	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctggtctgtccaaggcgcGgcttttgctttcttcacgtt	4	15	11	11	3	3	0	1	0	2	0	4	0	4	0	1	3	2	4	1	3	1	5	rs144186538		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:6663023G>A	uc003jdw.2	+	4	847	c.657G>A	c.(655-657)GCG>GCA	p.A219A	SRD5A1_uc011cml.1_RNA|SRD5A1_uc011cmm.1_Silent_p.A172A	NM_001047	NP_001038	P18405	S5A1_HUMAN	steroid-5-alpha-reductase 1	219	Helical; (Potential).				androgen biosynthetic process|cell differentiation|sex determination|sex differentiation	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|electron carrier activity				0					Dutasteride(DB01126)|Finasteride(DB01216)	TCCAAGGCGCGGCTTTTGCTT	0.408													27	54					0	0	1	0	0		A	6663023	A	A	6663023	2	1	66	1	0	0	0	0	0	0	0	1	15163	1103	39	1		1	SRD5A1	5	6663023	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	62978	6663023	174252237	427	44503											
ADCY2	108	broad.mit.edu	37	chr5	7706929	7706929	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggaatgtcctgtgtggCgtgattggtctgcagaagtg	6	13	16	6	1	2	2	0	1	2	1	3	3	3	3	1	3	1	1	1	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:7706929C>T	uc003jdz.1	+	8	1249	c.1182C>T	c.(1180-1182)GGC>GGT	p.G394G	ADCY2_uc011cmo.1_Silent_p.G214G	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	394	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						TCCTGTGTGGCGTGATTGGTC	0.507													38	76					0	0	1	0	0		T	7706929	T	T	7706929	2	4	66	1	0	0	0	0	0	0	0	1	294	755	27	1		1	ADCY2	5	7706929	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1043906	7706929	173208331	428	44504											
MTRR	4552	broad.mit.edu	37	chr5	7889244	7889244	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggactataccagtgacAgtgctgaaaagcgcaggcta	12	9	12	8	1	0	2	0	2	0	0	0	3	0	3	1	2	3	3	1	2	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:7889244A>G	uc003jed.2	+	9	1294	c.1264A>G	c.(1264-1266)AGT>GGT	p.S422G	MTRR_uc003jee.3_Missense_Mutation_p.S395G|MTRR_uc003jef.3_RNA|MTRR_uc003jeg.3_RNA|MTRR_uc010ito.2_RNA	NM_024010	NP_076915	Q9UBK8	MTRR_HUMAN	methionine synthase reductase isoform 2	422	FAD-binding FR-type.				methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	TACCAGTGACAGTGCTGAAAA	0.483													14	35					0	0	1	0	0		G	7889244	G	G	7889244	3	3	66	1	0	0	0	0	1	0	0	0	9979	188	7	3	1298	3	MTRR	5	7889244	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	182315	7889244	173026016	429	44505											
SEMA5A	9037	broad.mit.edu	37	chr5	9122889	9122889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggcgctgccatctgtgtGcgtgcaaggcgtccacggag	6	7	15	13	5	1	0	0	0	1	0	2	1	2	1	2	3	3	2	2	3	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:9122889G>A	uc003jek.2	-	14	2372	c.1660C>T	c.(1660-1662)CAC>TAC	p.H554Y		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	554	Extracellular (Potential).|TSP type-1 1.				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						CCATCTGTGTGCGTGCAAGGC	0.617													7	54					0	0	1	0	0		A	9122889	A	A	9122889	3	1	66	1	0	0	0	0	1	0	0	0	14062	1319	46	2	1604	2	SEMA5A	5	9122889	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1233645	9122889	171792371	430	44506											
ROPN1L	83853	broad.mit.edu	37	chr5	10461310	10461310	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccagtccttgaacactgcGctgaagcacctgtgcgagat	9	9	10	13	2	0	3	0	2	0	1	2	4	2	3	3	0	4	2	3	0	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:10461310G>A	uc003jex.3	+	4	703	c.432G>A	c.(430-432)GCG>GCA	p.A144A		NM_031916	NP_114122	Q96C74	ROP1L_HUMAN	ropporin 1-like	144					ciliary or flagellar motility|signal transduction	cytoplasm|motile cilium	cAMP-dependent protein kinase regulator activity|protein binding			ovary(1)	1						TGAACACTGCGCTGAAGCACC	0.557													20	50					0	0	1	0	0		A	10461310	A	A	10461310	2	1	66	1	0	0	0	0	0	0	0	1	13550	1074	38	1		1	ROPN1L	5	10461310	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1338421	10461310	170453950	431	44507											
CTNND2	1501	broad.mit.edu	37	chr5	11111073	11111073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagcccgtccagctcgtccGtgcccatgtgctgtccctga	4	10	11	16	3	0	1	0	1	0	0	4	1	3	1	5	0	4	3	5	0	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:11111073G>A	uc003jfa.1	-	14	2505	c.2360C>T	c.(2359-2361)ACG>ATG	p.T787M	CTNND2_uc010itt.2_Missense_Mutation_p.T696M|CTNND2_uc011cmy.1_Missense_Mutation_p.T450M|CTNND2_uc011cmz.1_Missense_Mutation_p.T354M|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.T354M	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	787					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						CAGCTCGTCCGTGCCCATGTG	0.542													55	163					0	0	1	0	0		A	11111073	A	A	11111073	3	1	66	1	0	0	0	0	1	0	0	0	4023	1145	40	1	1353	1	CTNND2	5	11111073	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	649763	11111073	169804187	432	44508											
CTNND2	1501	broad.mit.edu	37	chr5	11364912	11364912	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatagacgcggtcttcatagAtgggatctatgtggtgttct	8	14	13	6	2	4	2	1	0	3	2	4	4	4	3	0	3	0	1	0	3	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:11364912A>T	uc003jfa.1	-	8	1413	c.1268T>A	c.(1267-1269)ATC>AAC	p.I423N	CTNND2_uc010itt.2_Missense_Mutation_p.I332N|CTNND2_uc011cmy.1_Missense_Mutation_p.I86N|CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_5'UTR	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	423	ARM 1.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GTCTTCATAGATGGGATCTAT	0.612													16	24					0	0	1	0	0		T	11364912	T	T	11364912	3	4	66	1	0	0	0	0	1	0	0	0	4023	333	12	5	2469	5	CTNND2	5	11364912	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	253839	11364912	169550348	433	44509											
CDH9	1007	broad.mit.edu	37	chr5	26881636	26881636	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccccgccgccttcatcgTtgtaggtcacaatgttgtcc	5	13	8	15	3	2	0	2	0	0	0	5	0	4	0	5	1	0	3	5	1	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:26881636T>C	uc003jgs.1	-	12	2148	c.1979A>G	c.(1978-1980)AAC>AGC	p.N660S	CDH9_uc011cnv.1_Missense_Mutation_p.N253S	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	660	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						GCCTTCATCGTTGTAGGTCAC	0.428													48	111					0	0	1	0	0		C	26881636	C	C	26881636	3	2	66	1	0	0	0	0	1	0	0	0	3120	1725	60	3	394	3	CDH9	5	26881636	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	15516724	26881636	154033624	434	44510											
CDH6	1004	broad.mit.edu	37	chr5	31299688	31299688	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatctgggaccaccaccgTgaacatcacactgactgatg	12	9	8	12	1	2	3	1	3	1	0	2	4	2	4	3	1	1	0	3	1	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:31299688T>C	uc003jhe.1	+	5	1087	c.761T>C	c.(760-762)GTG>GCG	p.V254A	CDH6_uc003jhd.1_Missense_Mutation_p.V254A	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	254	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						ACCACCACCGTGAACATCACA	0.468													21	54					0	0	1	0	0		C	31299688	C	C	31299688	3	2	66	1	0	0	0	0	1	0	0	0	3117	1696	59	3	775	3	CDH6	5	31299688	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	4418052	31299688	149615572	435	44511											
PDZD2	23037	broad.mit.edu	37	chr5	32088318	32088318	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccgtgtgtctttgcacaaGgaagatccttcggagtcaga	9	11	11	10	2	2	2	1	0	1	2	5	4	4	4	2	2	1	1	2	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:32088318G>T	uc003jhl.2	+	20	5152	c.4764G>T	c.(4762-4764)AAG>AAT	p.K1588N	PDZD2_uc003jhm.2_Missense_Mutation_p.K1588N	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1588					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CTTTGCACAAGGAAGATCCTT	0.567													36	69					3.11337e-16	3.33832e-16	1	1	0		T	32088318	T	T	32088318	3	4	66	1	0	0	0	0	1	0	0	0	11720	991	35	5	4838	5	PDZD2	5	32088318	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	788630	32088318	148826942	436	44512											
ADAMTS12	81792	broad.mit.edu	37	chr5	33658359	33658359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcattgatgttacaactgcGgtgaggctgacacattcctg	9	13	10	9	1	1	3	1	3	0	0	2	3	2	3	1	2	3	2	1	2	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:33658359G>A	uc003jia.1	-	7	1283	c.1120C>T	c.(1120-1122)CGC>TGC	p.R374C	ADAMTS12_uc010iuq.1_Missense_Mutation_p.R374C	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	374	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TTACAACTGCGGTGAGGCTGA	0.507										HNSCC(64;0.19)			34	83					0	0	1	0	0		A	33658359	A	A	33658359	3	1	66	1	0	0	0	0	1	0	0	0	257	1116	39	1	3736	1	ADAMTS12	5	33658359	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1570041	33658359	147256901	437	44513											
GHR	2690	broad.mit.edu	37	chr5	42719150	42719150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggcagggatgtcccaatGtgacatgcacccggaaatgg	12	7	13	9	1	0	1	0	1	0	0	1	3	1	3	2	4	1	2	2	4	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:42719150G>A	uc003jmt.2	+	10	1584	c.1541G>A	c.(1540-1542)TGT>TAT	p.C514Y	GHR_uc011cpq.1_Missense_Mutation_p.C327Y	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	514	Cytoplasmic (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	ATGTCCCAATGTGACATGCAC	0.502													18	34					0	0	1	0	0		A	42719150	A	A	42719150	3	1	66	1	0	0	0	0	1	0	0	0	6386	1377	48	4	1575	4	GHR	5	42719150	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	9060791	42719150	138196110	438	44514											
HCN1	348980	broad.mit.edu	37	chr5	45303784	45303785	+	Frame_Shift_Ins	INS	-	T	T																															accgtgttgaatgaaatacaINStttttttacccacggctcct																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:45303784_45303785insT	uc003jok.2	-	6	1559_1560	c.1534_1535insA	c.(1534-1536)ATGfs	p.M512fs		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	512	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						AATGAAATACATTTTTTTACCC	0.401													37	86	---	---	---	---						.	T	45303785	T	T	45303784	7	5	66	1	0	1	1	0	0	0	0	0	7012	217	8	0	1149	0	HCN1	5	45303784	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	2584634	45303784	135611476	439	44515											
ANKRD55	79722	broad.mit.edu	37	chr5	55396104	55396104	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaattgcaggaagcactcggTttgtccgcagaggttctcca	9	10	12	10	2	1	1	0	0	1	1	4	3	2	2	2	3	2	5	2	3	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:55396104T>C	uc003jqu.2	-	12	1903	c.1751A>G	c.(1750-1752)AAC>AGC	p.N584S	ANKRD55_uc003jqt.2_Missense_Mutation_p.N296S	NM_024669	NP_078945	Q3KP44	ANR55_HUMAN	ankyrin repeat domain 55 isoform 1	583										skin(1)	1		Lung NSC(810;8.69e-05)|Prostate(74;0.00634)|Breast(144;0.0334)|Ovarian(174;0.223)				AAGCACTCGGTTTGTCCGCAG	0.458													44	61					0	0	1	0	0		C	55396104	C	C	55396104	3	2	66	1	0	0	0	0	1	0	0	0	681	1725	60	3	97	3	ANKRD55	5	55396104	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	10092320	55396104	125519156	440	44516											
RAB3C	115827	broad.mit.edu	37	chr5	57913586	57913586	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggggaaaacatcttttctAttccgttatgcagatgactc	10	14	9	8	1	2	2	0	1	2	1	4	3	3	3	1	2	2	2	1	2	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:57913586A>G	uc003jrp.2	+	2	238	c.141A>G	c.(139-141)CTA>CTG	p.L47L		NM_138453	NP_612462	Q96E17	RAB3C_HUMAN	RAB3C, member RAS oncogene family	47					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)|central_nervous_system(1)	2		all_cancers(5;9.93e-10)|all_epithelial(5;1.49e-10)|all_lung(5;8.97e-05)|Lung NSC(5;0.000139)|Prostate(74;0.0664)		OV - Ovarian serous cystadenocarcinoma(10;1.8e-34)		CATCTTTTCTATTCCGTTATG	0.398													21	40					0	0	1	0	0		G	57913586	G	G	57913586	2	3	66	1	0	0	0	0	0	0	0	1	12958	436	16	3		3	RAB3C	5	57913586	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2517482	57913586	123001674	441	44517											
HTR1A	3350	broad.mit.edu	37	chr5	63256724	63256724	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgcgccattggcgcacaGagcacccccagccttgctct	7	6	9	19	3	1	1	0	0	1	1	1	1	1	1	5	1	3	3	5	1	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:63256724G>T	uc011cqt.1	-	1	823	c.823C>A	c.(823-825)CTG>ATG	p.L275M		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	275	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TTGGCGCACAGAGCACCCCCA	0.652													17	45					8.00594e-06	8.20574e-06	1	1	0		T	63256724	T	T	63256724	3	4	66	1	0	0	0	0	1	0	0	0	7452	933	33	5	448	5	HTR1A	5	63256724	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5343138	63256724	117658536	442	44518											
HTR1A	3350	broad.mit.edu	37	chr5	63257082	63257082	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccaagtgagcgagatgagCgcagcggcgcgccggggcgt	8	3	19	11	7	0	3	0	2	0	1	0	4	0	3	2	3	4	1	2	3	1	0	rs115753404	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:63257082C>T	uc011cqt.1	-	1	465	c.465G>A	c.(463-465)GCG>GCA	p.A155A		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	155	Helical; Name=4; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	GCGAGATGAGCGCAGCGGCGC	0.647													23	57					0	0	1	0	0		T	63257082	T	T	63257082	2	4	66	1	0	0	0	0	0	0	0	1	7452	755	27	1		1	HTR1A	5	63257082	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	358	63257082	117658178	443	44519											
RNF180	285671	broad.mit.edu	37	chr5	63509644	63509644	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaaaacagaaatcacaGgcttttaaacatggcccgaa	16	8	7	10	1	2	2	1	1	1	1	2	3	2	2	1	2	2	1	1	2	6	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:63509644G>T	uc003jti.2	+	4	601	c.491G>T	c.(490-492)AGG>ATG	p.R164M	RNF180_uc003jth.3_Missense_Mutation_p.R164M|RNF180_uc010iws.2_Intron	NM_001113561	NP_001107033	Q86T96	RN180_HUMAN	ring finger protein 180 isoform 1	164	Cytoplasmic (Potential).					integral to membrane|nuclear envelope	zinc ion binding				0		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0848)|Colorectal(97;0.234)		Lung(70;0.114)		AGAAATCACAGGCTTTTAAAC	0.433													37	62					2.87052e-16	3.07979e-16	1	1	0		T	63509644	T	T	63509644	3	4	66	1	0	0	0	0	1	0	0	0	13489	1000	35	5	501	5	RNF180	5	63509644	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	252562	63509644	117405616	444	44520											
TNPO1	3842	broad.mit.edu	37	chr5	72144271	72144271	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcttcagcaaatcctgcaGctgttgaaggagtcccagtc	9	9	12	11	0	1	1	1	1	0	0	4	2	3	2	2	2	3	5	2	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:72144271G>A	uc003kck.3	+	2	222	c.75G>A	c.(73-75)CAG>CAA	p.Q25Q	TNPO1_uc011csi.1_RNA|TNPO1_uc011csj.1_Silent_p.Q25Q|TNPO1_uc003kch.2_Silent_p.Q17Q|TNPO1_uc003kci.3_Silent_p.Q17Q|TNPO1_uc003kcg.3_Silent_p.Q17Q	NM_002270	NP_002261	Q92973	TNPO1_HUMAN	transportin 1 isoform 1	25					interspecies interaction between organisms|mRNA metabolic process|protein import into nucleus, translocation	cytosol|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			skin(3)|urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)	7		Lung NSC(167;0.0053)|Ovarian(174;0.0175)		OV - Ovarian serous cystadenocarcinoma(47;6.14e-54)		AAATCCTGCAGCTGTTGAAGG	0.527													19	21					0	0	1	0	0		A	72144271	A	A	72144271	2	1	66	1	0	0	0	0	0	0	0	1	16360	962	34	2		2	TNPO1	5	72144271	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	8634627	72144271	108770989	445	44521											
HMGCR	3156	broad.mit.edu	37	chr5	74651260	74651260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagttgtgcgtcttccacGtgcttgtgactctgcagaag	6	12	11	12	2	2	2	0	1	2	1	3	2	3	2	2	0	3	3	2	0	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:74651260G>A	uc003kdp.2	+	14	1949	c.1793G>A	c.(1792-1794)CGT>CAT	p.R598H	HMGCR_uc011cst.1_Missense_Mutation_p.R618H|HMGCR_uc003kdq.2_Missense_Mutation_p.R545H	NM_000859	NP_000850	P04035	HMDH_HUMAN	3-hydroxy-3-methylglutaryl-Coenzyme A reductase	598	Catalytic.				cholesterol biosynthetic process|coenzyme A metabolic process|germ cell migration|gonad development|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal membrane	hydroxymethylglutaryl-CoA reductase (NADPH) activity|NADP binding			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;2.24e-54)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Cerivastatin(DB00439)|Fluvastatin(DB01095)|Lovastatin(DB00227)|NADH(DB00157)|Pravastatin(DB00175)|Rosuvastatin(DB01098)|Simvastatin(DB00641)	CGTCTTCCACGTGCTTGTGAC	0.527													41	90					0	0	1	0	0		A	74651260	A	A	74651260	3	1	66	1	0	0	0	0	1	0	0	0	7247	1145	40	1	1843	1	HMGCR	5	74651260	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2506989	74651260	106264000	446	44522											
POLK	51426	broad.mit.edu	37	chr5	74877075	74877075	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataaactgagtgagcatgaaCgatccatctctccactactt	13	11	6	11	1	1	3	0	3	1	0	4	4	3	3	2	0	4	1	2	0	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:74877075C>T	uc003kdw.2	+	7	832	c.736C>T	c.(736-738)CGA>TGA	p.R246*	POLK_uc003kdx.2_RNA|POLK_uc003kdy.2_RNA|POLK_uc003kea.2_Nonsense_Mutation_p.R246*|POLK_uc003keb.2_Nonsense_Mutation_p.R246*|POLK_uc010izq.2_Nonsense_Mutation_p.R246*|POLK_uc003kec.2_Nonsense_Mutation_p.R156*|POLK_uc010izr.2_RNA|POLK_uc010izs.2_RNA|POLK_uc003ked.2_Nonsense_Mutation_p.R156*|POLK_uc003kee.2_Nonsense_Mutation_p.R246*|POLK_uc003kef.2_Nonsense_Mutation_p.R156*	NM_016218	NP_057302	Q9UBT6	POLK_HUMAN	DNA-directed DNA polymerase kappa	246	UmuC.				DNA replication|nucleotide-excision repair, DNA gap filling	nucleus	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|kidney(2)	4		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;2.9e-54)|all cancers(79;1.27e-42)		TGAGCATGAACGATCCATCTC	0.363								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					21	51					0	0	1	0	0		T	74877075	T	T	74877075	4	4	66	1	0	0	0	0	0	1	0	0	12223	528	19	1	758	1	POLK	5	74877075	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	225815	74877075	106038185	447	44523											
POLK	51426	broad.mit.edu	37	chr5	74880741	74880741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgggtctaggttcaacaCacctgacgaggtatctatat	10	12	9	10	1	3	1	1	1	2	0	3	2	3	1	2	3	1	2	2	3	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:74880741C>T	uc003kdw.2	+	9	1312	c.1216C>T	c.(1216-1218)CAC>TAC	p.H406Y	POLK_uc003kdx.2_RNA|POLK_uc003kdy.2_RNA|POLK_uc003keb.2_Missense_Mutation_p.H406Y|POLK_uc010izq.2_Intron|POLK_uc003kec.2_Missense_Mutation_p.H316Y|POLK_uc010izr.2_RNA|POLK_uc010izs.2_RNA|POLK_uc003ked.2_Missense_Mutation_p.H316Y|POLK_uc003kee.2_Missense_Mutation_p.H406Y|POLK_uc003kef.2_Missense_Mutation_p.H316Y	NM_016218	NP_057302	Q9UBT6	POLK_HUMAN	DNA-directed DNA polymerase kappa	406					DNA replication|nucleotide-excision repair, DNA gap filling	nucleus	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|kidney(2)	4		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;2.9e-54)|all cancers(79;1.27e-42)		AGGTTCAACACACCTGACGAG	0.383								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					19	71					0	0	1	0	0		T	74880741	T	T	74880741	3	4	66	1	0	0	0	0	1	0	0	0	12223	478	17	4	1246	4	POLK	5	74880741	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3666	74880741	106034519	448	44524											
ZCCHC9	84240	broad.mit.edu	37	chr5	80608440	80608441	+	Frame_Shift_Ins	INS	-	A	A																															tttggatgtacctaaaccgcINSaaaaacccaaaacaaaaata																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:80608440_80608441insA	uc003khj.2	+	6	908_909	c.775_776insA	c.(775-777)CAAfs	p.Q259fs	RNU5E_uc011cto.1_Intron|ZCCHC9_uc003khk.3_Frame_Shift_Ins_p.Q259fs|ZCCHC9_uc003khi.2_Frame_Shift_Ins_p.Q259fs	NM_001131035	NP_001124507	Q8N567	ZCHC9_HUMAN	zinc finger, CCHC domain containing 9	259							nucleic acid binding|zinc ion binding			ovary(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;8.18e-45)|Epithelial(54;2.72e-39)|all cancers(79;7.33e-34)		ACCTAAACCGCAAAAACCCAAA	0.386													27	60	---	---	---	---						.	A	80608441	A	A	80608440	7	5	66	1	0	1	1	0	0	0	0	0	17620	711	25	0	793	0	ZCCHC9	5	80608440	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	5727699	80608440	100306820	449	44525											
ATP6AP1L	92270	broad.mit.edu	37	chr5	81614036	81614036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaaagctcgagacacaGccgaagagaaggagctgctg	14	4	14	9	2	0	3	0	1	0	2	1	7	0	4	1	1	5	4	1	1	3	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:81614036G>A	uc003khv.2	+	10	1917	c.592G>A	c.(592-594)GCC>ACC	p.A198T	ATP6AP1L_uc003khw.2_Missense_Mutation_p.A198T	NM_001017971	NP_001017971	Q52LC2	VAS1L_HUMAN	ATPase, H+ transporting, lysosomal accessory	198					ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						TCGAGACACAGCCGAAGAGAA	0.532													12	42					0	0	1	0	0		A	81614036	A	A	81614036	3	1	66	1	0	0	0	0	1	0	0	0	1167	971	34	2	606	2	ATP6AP1L	5	81614036	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1005596	81614036	99301224	450	44526											
HAPLN1	1404	broad.mit.edu	37	chr5	82940335	82940335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccatcactgagccagcCggcattgcaccagtccagcc	10	5	10	16	1	1	2	1	1	0	1	2	2	2	2	6	1	5	2	6	1	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:82940335C>T	uc003kim.2	-	3	693	c.622G>A	c.(622-624)GGC>AGC	p.G208S	HAPLN1_uc003kin.2_Missense_Mutation_p.G208S	NM_001884	NP_001875	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	208	Link 1.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)		CTGAGCCAGCCGGCATTGCAC	0.622													20	41					0	0	1	0	0		T	82940335	T	T	82940335	3	4	66	1	0	0	0	0	1	0	0	0	6970	652	23	1	450	1	HAPLN1	5	82940335	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1326299	82940335	97974925	451	44527											
FAM81B	153643	broad.mit.edu	37	chr5	94764401	94764401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattcaagaattcgtgcccGccctggaaactctttccaag	10	10	7	14	2	2	1	1	0	1	1	4	2	3	2	4	1	2	0	4	1	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:94764401G>A	uc003kla.1	+	6	797	c.751G>A	c.(751-753)GCC>ACC	p.A251T	FAM81B_uc010jbe.1_Missense_Mutation_p.A47T	NM_152548	NP_689761	Q96LP2	FA81B_HUMAN	hypothetical protein LOC153643	251										ovary(1)|skin(1)	2		all_cancers(142;1.1e-06)|all_epithelial(76;1.48e-09)|all_lung(232;0.000696)|Lung NSC(167;0.000947)|Ovarian(225;0.00473)		all cancers(79;1.04e-16)		ATTCGTGCCCGCCCTGGAAAC	0.403													47	126					0	0	1	0	0		A	94764401	A	A	94764401	3	1	66	1	0	0	0	0	1	0	0	0	5643	1087	38	1	773	1	FAM81B	5	94764401	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	11824066	94764401	86150859	452	44528											
ERAP1	51752	broad.mit.edu	37	chr5	96121526	96121526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcattgttaatgagactcgCccgatcattactgctgactg	9	13	9	10	2	1	2	1	2	0	1	2	4	1	2	1	0	3	3	1	0	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:96121526C>T	uc003kmm.2	-	13	2256	c.1909G>A	c.(1909-1911)GCG>ACG	p.A637T	ERAP1_uc003kml.2_Missense_Mutation_p.A637T|ERAP1_uc010jbm.1_Missense_Mutation_p.A449T|ERAP1_uc003kmn.2_Missense_Mutation_p.A637T	NM_001040458	NP_001035548	Q9NZ08	ERAP1_HUMAN	type 1 tumor necrosis factor receptor shedding	637	Lumenal (Potential).				angiogenesis|antigen processing and presentation of endogenous peptide antigen via MHC class I|fat cell differentiation|membrane protein ectodomain proteolysis|regulation of blood pressure|regulation of innate immune response|response to bacterium	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|integral to membrane	aminopeptidase activity|interleukin-1, Type II receptor binding|interleukin-6 receptor binding|metalloexopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		all_cancers(142;1.75e-06)|all_epithelial(76;3.08e-09)|all_lung(232;0.000435)|Lung NSC(167;0.000601)|Ovarian(225;0.024)|Colorectal(57;0.0432)|Breast(839;0.244)		all cancers(79;7.26e-15)|COAD - Colon adenocarcinoma(37;0.071)		ATGAGACTCGCCCGATCATTA	0.423													19	36					0	0	1	0	0		T	96121526	T	T	96121526	3	4	66	1	0	0	0	0	1	0	0	0	5211	739	26	2	977	2	ERAP1	5	96121526	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1357125	96121526	84793734	453	44529											
ERAP1	51752	broad.mit.edu	37	chr5	96139411	96139411	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggttccccagaaggtcagCgtggtaaggtttgcatggat	8	11	15	7	1	1	1	1	0	0	1	2	2	2	2	2	5	2	4	2	5	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:96139411C>T	uc003kmm.2	-	2	566	c.219G>A	c.(217-219)ACG>ACA	p.T73T	ERAP1_uc003kml.2_Silent_p.T73T|ERAP1_uc010jbm.1_Intron|ERAP1_uc003kmn.2_Silent_p.T73T	NM_001040458	NP_001035548	Q9NZ08	ERAP1_HUMAN	type 1 tumor necrosis factor receptor shedding	73	Lumenal (Potential).				angiogenesis|antigen processing and presentation of endogenous peptide antigen via MHC class I|fat cell differentiation|membrane protein ectodomain proteolysis|regulation of blood pressure|regulation of innate immune response|response to bacterium	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|integral to membrane	aminopeptidase activity|interleukin-1, Type II receptor binding|interleukin-6 receptor binding|metalloexopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		all_cancers(142;1.75e-06)|all_epithelial(76;3.08e-09)|all_lung(232;0.000435)|Lung NSC(167;0.000601)|Ovarian(225;0.024)|Colorectal(57;0.0432)|Breast(839;0.244)		all cancers(79;7.26e-15)|COAD - Colon adenocarcinoma(37;0.071)		AGAAGGTCAGCGTGGTAAGGT	0.488													39	81					0	0	1	0	0		T	96139411	T	T	96139411	2	4	66	1	0	0	0	0	0	0	0	1	5211	755	27	1		1	ERAP1	5	96139411	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	17885	96139411	84775849	454	44530											
FBXL17	64839	broad.mit.edu	37	chr5	107559928	107559928	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcactgactgatctgtcAcctagggaaaagacatggat	12	11	9	9	0	3	3	2	2	1	1	3	5	3	5	1	2	0	0	1	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:107559928A>G	uc011cvc.1	-	5	1915	c.1508T>C	c.(1507-1509)GTG>GCG	p.V503A	FBXL17_uc003kon.3_Missense_Mutation_p.V105A	NM_001163315	NP_001156787	Q9UF56	FXL17_HUMAN	F-box and leucine-rich repeat protein 17	503											0		all_cancers(142;0.00273)|all_epithelial(76;0.000362)|Prostate(80;0.0115)|Myeloproliferative disorder(839;0.0393)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;9.63e-11)|Epithelial(69;4.02e-10)		CTGATCTGTCACCTAGGGAAA	0.303													16	33					0	0	1	0	0		G	107559928	G	G	107559928	3	3	66	1	0	0	0	0	1	0	0	0	5727	173	6	3	617	3	FBXL17	5	107559928	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	11420517	107559928	73355332	455	44531											
SLC25A46	91137	broad.mit.edu	37	chr5	110097004	110097004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagcaaacgacttcttcCgcttctttccttgatcttcc	7	16	4	14	2	4	1	1	1	3	0	7	2	7	1	3	0	2	2	3	0	2	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:110097004C>T	uc003koz.2	+	8	846	c.779C>T	c.(778-780)CCG>CTG	p.P260L	SLC25A46_uc011cvi.1_Missense_Mutation_p.P169L	NM_138773	NP_620128	Q96AG3	S2546_HUMAN	solute carrier family 25, member 46	260	Helical; Name=4; (Potential).				transport	integral to membrane|mitochondrial inner membrane					0		all_cancers(142;0.00203)|all_epithelial(76;4.52e-05)|Prostate(80;0.0115)|Colorectal(57;0.0676)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;2.58e-09)|Epithelial(69;7.29e-08)|all cancers(49;9.35e-06)|COAD - Colon adenocarcinoma(37;0.211)		CGACTTCTTCCGCTTCTTTCC	0.403													45	80					0	0	1	0	0		T	110097004	T	T	110097004	3	4	66	1	0	0	0	0	1	0	0	0	14536	652	23	1	809	1	SLC25A46	5	110097004	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2537076	110097004	70818256	456	44532											
EPB41L4A	64097	broad.mit.edu	37	chr5	111506045	111506045	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aattgttcttcggacaatccGgatggatccacaagttcttt	10	14	8	9	2	2	0	0	0	2	0	5	3	4	3	2	3	0	2	2	3	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:111506045G>A	uc003kpv.1	-	20	1966	c.1692C>T	c.(1690-1692)TCC>TCT	p.S564S	EPB41L4A_uc003kpp.1_Silent_p.S191S|EPB41L4A_uc003kpu.1_5'Flank	NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	564				S -> F (in Ref. 2; AAI14943).		cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		CGGACAATCCGGATGGATCCA	0.373													14	30					0	0	1	0	0		A	111506045	A	A	111506045	2	1	66	1	0	0	0	0	0	0	0	1	5163	1103	39	1		1	EPB41L4A	5	111506045	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1409041	111506045	69409215	457	44533											
REEP5	7905	broad.mit.edu	37	chr5	112222807	112222807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcttcaggaagaaaggaCggatgatgcgcttgtagagc	11	8	15	7	3	1	3	1	1	0	2	1	6	1	6	0	3	3	3	0	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:112222807C>T	uc003kqe.1	-	4	569	c.425G>A	c.(424-426)CGT>CAT	p.R142H	SRP19_uc011cvu.1_Intron|SRP19_uc011cvv.1_Intron|REEP5_uc011cvw.1_Missense_Mutation_p.R115H|REEP5_uc011cvx.1_RNA|REEP5_uc011cvy.1_Intron|REEP5_uc011cvz.1_RNA	NM_005669	NP_005660	Q00765	REEP5_HUMAN	receptor accessory protein 5	142						integral to membrane	protein binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		Epithelial(69;1.3e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.26e-08)|all cancers(49;3.56e-07)|Colorectal(14;0.00778)|COAD - Colon adenocarcinoma(37;0.013)		GAAGAAAGGACGGATGATGCG	0.522													22	43					0	0	1	0	0		T	112222807	T	T	112222807	3	4	66	1	0	0	0	0	1	0	0	0	13233	536	19	1	152	1	REEP5	5	112222807	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	716762	112222807	68692453	458	44534											
PGGT1B	5229	broad.mit.edu	37	chr5	114572215	114572215	+	Frame_Shift_Del	DEL	A	-	-																															actgccttcaggtactgcacAaaaactgaaaataataacaa																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:114572215delA	uc003kqw.3	-	5	505	c.484delT	c.(484-486)TGTfs	p.C162fs	PGGT1B_uc003kqx.3_Frame_Shift_Del_p.C39fs|PGGT1B_uc010jch.2_Frame_Shift_Del_p.C162fs	NM_005023	NP_005014	P53609	PGTB1_HUMAN	geranylgeranyltransferase type 1 beta	162	PFTB 1.				protein geranylgeranylation	CAAX-protein geranylgeranyltransferase complex	CAAX-protein geranylgeranyltransferase activity				0		all_cancers(142;0.000523)|all_epithelial(76;6.45e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		Epithelial(69;2.95e-08)|OV - Ovarian serous cystadenocarcinoma(64;4.98e-08)|all cancers(49;3.1e-06)	Pravastatin(DB00175)	GGTACTGCACAAAAACTGAAA	0.368													25	34	---	---	---	---						.	-	114572215	-	-	114572215	7	5	66	1	0	1	0	1	0	0	0	0	11808	130	5	0	669	0	PGGT1B	5	114572215	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	2349408	114572215	66343045	459	44535											
CDO1	1036	broad.mit.edu	37	chr5	115142176	115142176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggctcacagcaggttccGtatggctgatgttctctact	8	12	11	10	1	2	1	1	1	1	0	4	2	3	1	1	3	2	6	1	3	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:115142176G>A	uc003krg.2	-	4	754	c.443C>T	c.(442-444)ACG>ATG	p.T148M		NM_001801	NP_001792	Q16878	CDO1_HUMAN	cysteine dioxygenase	148					inflammatory response|sulfur amino acid biosynthetic process|taurine biosynthetic process	cytosol	cysteine dioxygenase activity			large_intestine(1)|skin(1)	2		all_cancers(142;0.0046)|all_epithelial(76;0.000161)|Prostate(80;0.0132)|Ovarian(225;0.0776)		OV - Ovarian serous cystadenocarcinoma(64;7.8e-08)|Epithelial(69;7.32e-07)|all cancers(49;3.24e-05)	L-Cysteine(DB00151)|NADH(DB00157)	AGCAGGTTCCGTATGGCTGAT	0.403													14	43					0	0	1	0	0		A	115142176	A	A	115142176	3	1	66	1	0	0	0	0	1	0	0	0	3172	1145	40	1	167	1	CDO1	5	115142176	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	569961	115142176	65773084	460	44536											
SEMA6A	57556	broad.mit.edu	37	chr5	115783003	115783003	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccgcaggggcaggtccgtgGgaatcacaggggagcccatg	8	4	17	12	2	1	0	1	0	0	0	2	2	2	2	3	6	1	2	3	6	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:115783003G>T	uc010jck.2	-	19	3108	c.2399C>A	c.(2398-2400)CCC>CAC	p.P800H	SEMA6A_uc003krx.3_Missense_Mutation_p.P817H|SEMA6A_uc011cwe.1_Missense_Mutation_p.P179H|SEMA6A_uc003krv.3_Missense_Mutation_p.P227H|SEMA6A_uc003krw.3_Missense_Mutation_p.P277H|SEMA6A_uc010jcj.2_Missense_Mutation_p.P344H	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	800	Cytoplasmic (Potential).|Pro-rich.				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		CAGGTCCGTGGGAATCACAGG	0.667													22	50					3.5997e-14	3.83418e-14	1	1	0		T	115783003	T	T	115783003	3	4	66	1	0	0	0	0	1	0	0	0	14064	1232	43	5	697	5	SEMA6A	5	115783003	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	640827	115783003	65132257	461	44537											
DMXL1	1657	broad.mit.edu	37	chr5	118485628	118485628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaatctaatcatgaacGccgccttaggtctctcacaa	12	10	7	12	2	4	2	2	2	2	0	5	2	4	2	2	1	2	1	2	1	5	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:118485628G>A	uc003ksd.2	+	18	4287	c.4106G>A	c.(4105-4107)CGC>CAC	p.R1369H	DMXL1_uc010jcl.1_Missense_Mutation_p.R1369H	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1369										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		AATCATGAACGCCGCCTTAGG	0.463													15	40					0	0	1	0	0		A	118485628	A	A	118485628	3	1	66	1	0	0	0	0	1	0	0	0	4600	1087	38	1	4176	1	DMXL1	5	118485628	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2702625	118485628	62429632	462	44538											
CTXN3	613212	broad.mit.edu	37	chr5	126993261	126993261	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccctagtgccccttgggaaCgaatcagcagattctagcat	10	10	9	12	1	2	1	1	0	1	1	3	3	3	2	3	1	4	2	3	1	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:126993261C>T	uc003kul.3	+	3	622	c.48C>T	c.(46-48)AAC>AAT	p.N16N	CTXN3_uc003kum.3_Silent_p.N16N	NM_001048252	NP_001041717	Q4LDR2	CTXN3_HUMAN	cortexin 3	16						integral to membrane					0		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0128)|COAD - Colon adenocarcinoma(49;0.0234)|OV - Ovarian serous cystadenocarcinoma(64;0.038)		CCCTTGGGAACGAATCAGCAG	0.478													7	49					0	0	1	0	0		T	126993261	T	T	126993261	2	4	66	1	0	0	0	0	0	0	0	1	4053	535	19	1		1	CTXN3	5	126993261	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	8507633	126993261	53921999	463	44539											
FBN2	2201	broad.mit.edu	37	chr5	127622436	127622436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccttctccatcgggccttCgggccattccaggagggcag	6	8	13	14	2	1	0	0	0	1	0	5	1	2	1	5	4	1	1	5	4	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:127622436C>T	uc003kuu.2	-	55	7425	c.6986G>A	c.(6985-6987)CGA>CAA	p.R2329Q		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	2329	EGF-like 39; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		ATCGGGCCTTCGGGCCATTCC	0.512													12	40					0	0	1	0	0		T	127622436	T	T	127622436	3	4	66	1	0	0	0	0	1	0	0	0	5717	884	31	1	1796	1	FBN2	5	127622436	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	629175	127622436	53292824	464	44540											
FBN2	2201	broad.mit.edu	37	chr5	127624227	127624227	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaccatttccacacggattGccgattgaacactcatcagt	11	11	7	12	2	2	1	2	1	0	0	3	3	3	2	3	1	3	1	3	1	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:127624227G>A	uc003kuu.2	-	53	7099	c.6660C>T	c.(6658-6660)GGC>GGT	p.G2220G		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	2220	EGF-like 37; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		CACACGGATTGCCGATTGAAC	0.428													22	45					0	0	1	0	0		A	127624227	A	A	127624227	2	1	66	1	0	0	0	0	0	0	0	1	5717	1306	46	2		2	FBN2	5	127624227	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1791	127624227	53291033	465	44541											
FBN2	2201	broad.mit.edu	37	chr5	127873117	127873117	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcctcgcgatactcgggCgctagaaacccgccttcaga	8	7	9	17	5	1	2	1	0	0	2	4	3	2	2	4	1	2	1	4	1	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:127873117C>T	uc003kuu.2	-	1	619	c.180G>A	c.(178-180)GCG>GCA	p.A60A	FBN2_uc003kuv.2_Silent_p.A60A|FBN2_uc003kuw.3_Silent_p.A60A|FBN2_uc003kux.1_Silent_p.A60A	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	60					bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GATACTCGGGCGCTAGAAACC	0.726													4	10					0	0	1	0	0		T	127873117	T	T	127873117	2	4	66	1	0	0	0	0	0	0	0	1	5717	755	27	1		1	FBN2	5	127873117	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	248890	127873117	53042143	466	44542											
FNIP1	96459	broad.mit.edu	37	chr5	131042192	131042192	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacaacttcgggtaagtgAggagtttggggaaggaaatg	12	8	17	4	1	0	1	0	1	0	0	1	4	0	4	0	6	1	3	0	6	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:131042192A>C	uc003kvs.1	-	9	968	c.826T>G	c.(826-828)TCA>GCA	p.S276A	RAPGEF6_uc003kvp.1_Intron|FNIP1_uc003kvt.1_Missense_Mutation_p.S248A|FNIP1_uc010jdm.1_Missense_Mutation_p.S231A|FNIP1_uc003kvu.2_Missense_Mutation_p.S276A	NM_133372	NP_588613	Q8TF40	FNIP1_HUMAN	folliculin interacting protein 1 isoform 1	276					regulation of protein phosphorylation	cytoplasm	protein binding			pancreas(1)|skin(1)	2		all_cancers(142;0.00347)|Lung NSC(810;0.106)|all_lung(232;0.123)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0665)		CGGGTAAGTGAGGAGTTTGGG	0.448													19	32					0	0	1	0	0		C	131042192	C	C	131042192	3	2	66	1	0	0	0	0	1	0	0	0	5989	304	11	5	2714	5	FNIP1	5	131042192	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3169075	131042192	49873068	467	44543											
ACSL6	23305	broad.mit.edu	37	chr5	131324516	131324516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgtattgatgatgtagcGgatagccccagggcccaggg	9	8	14	10	1	0	2	0	2	0	0	0	3	0	3	4	3	2	2	4	3	3	4	rs149994861		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:131324516G>A	uc010jdo.1	-	6	642	c.559C>T	c.(559-561)CGC>TGC	p.R187C	ACSL6_uc003kvv.1_RNA|ACSL6_uc003kvx.1_Missense_Mutation_p.R212C|ACSL6_uc003kvy.1_Missense_Mutation_p.R212C|ACSL6_uc003kwb.2_Missense_Mutation_p.R177C|ACSL6_uc003kvz.1_Missense_Mutation_p.R152C|ACSL6_uc003kwa.1_Missense_Mutation_p.R198C|ACSL6_uc010jdn.1_Missense_Mutation_p.R187C|ACSL6_uc010jdp.1_5'Flank	NM_015256	NP_056071	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6	187	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ATGATGTAGCGGATAGCCCCA	0.577													22	44					0	0	1	0	0		A	131324516	A	A	131324516	3	1	66	1	0	0	0	0	1	0	0	0	181	1116	39	1	1680	1	ACSL6	5	131324516	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	282324	131324516	49590744	468	44544											
SLC22A5	6584	broad.mit.edu	37	chr5	131719977	131719977	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccagatctccaactatgtGgcagcatttgtcctgggtat	8	12	11	10	0	1	1	0	0	1	1	3	1	2	1	3	3	2	3	3	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:131719977G>T	uc003kww.3	+	3	900	c.636G>T	c.(634-636)GTG>GTT	p.V212V	SLC22A5_uc003kwx.3_Silent_p.V236V|SLC22A5_uc010jdr.1_5'Flank	NM_003060	NP_003051	O76082	S22A5_HUMAN	solute carrier family 22 member 5	212	Helical; Name=4; (Potential).				positive regulation of intestinal epithelial structure maintenance|quorum sensing involved in interaction with host|sodium ion transport|sodium-dependent organic cation transport	apical plasma membrane|brush border membrane|integral to membrane	ATP binding|carnitine transporter activity|PDZ domain binding|symporter activity				0		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Carnitine(DB00583)	CCAACTATGTGGCAGCATTTG	0.468													24	52					1.37878e-21	1.49199e-21	1	1	0		T	131719977	T	T	131719977	2	4	66	1	0	0	0	0	0	0	0	1	14482	1335	47	5		5	SLC22A5	5	131719977	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	395461	131719977	49195283	469	44545											
AFF4	27125	broad.mit.edu	37	chr5	132238133	132238133	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcattaagcaataaacttaCgatttagactggtgcccatt	13	13	6	9	1	1	1	1	0	0	1	1	2	1	1	1	1	4	1	1	1	6	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:132238133C>T	uc003kyd.2	-	7	1541	c.1133_splice	c.e7+1	p.S378_splice	AFF4_uc011cxk.1_Splice_Site_p.S56_splice|AFF4_uc003kye.1_Splice_Site_p.S378_splice	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31						transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AATAAACTTACGATTTAGACT	0.274													4	33					0	0	1	0	0		T	132238133	T	T	132238133	5	4	66	1	0	0	0	0	0	0	1	0	359	550	19	1	2417	1	AFF4	5	132238133	Splice_Site	SNP	C	TCGA-BR-8361-01A-11D-2340-08	518156	132238133	48677127	470	44546											
C5orf24	134553	broad.mit.edu	37	chr5	134190633	134190633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtaatccagctttctgtgggCctggcaagccttcctgcctc	5	12	10	14	0	1	0	0	0	1	0	4	0	3	0	5	2	3	3	5	2	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:134190633C>T	uc003kzx.2	+	2	104	c.43C>T	c.(43-45)CCT>TCT	p.P15S	C5orf24_uc003kzy.3_Missense_Mutation_p.P15S|C5orf24_uc003kzz.2_Missense_Mutation_p.P15S	NM_152409	NP_689622	Q7Z6I8	CE024_HUMAN	hypothetical protein LOC134553	15											0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TTTCTGTGGGCCTGGCAAGCC	0.418													54	116					0	0	1	0	0		T	134190633	T	T	134190633	3	4	66	1	0	0	0	0	1	0	0	0	2290	739	26	2	45	2	C5orf24	5	134190633	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1952500	134190633	46724627	471	44547											
CTNNA1	1495	broad.mit.edu	37	chr5	138160275	138160275	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctagaggaatcctgcaGaagaacgttccgatcctcta	12	8	10	11	2	1	3	0	0	1	3	4	5	4	4	3	1	3	4	3	1	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:138160275G>T	uc003ldh.2	+	6	740	c.645G>T	c.(643-645)CAG>CAT	p.Q215H	CTNNA1_uc011cyx.1_Missense_Mutation_p.Q112H|CTNNA1_uc011cyy.1_Missense_Mutation_p.Q92H|CTNNA1_uc003ldi.2_Intron|CTNNA1_uc003ldj.2_Missense_Mutation_p.Q215H	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	215	Involved in homodimerization.				adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GAATCCTGCAGAAGAACGTTC	0.468													12	38					0.010729	0.0107901	1	1	0		T	138160275	T	T	138160275	3	4	66	1	0	0	0	0	1	0	0	0	4015	933	33	5	663	5	CTNNA1	5	138160275	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3969642	138160275	42754985	472	44548											
PCDHA10	56139	broad.mit.edu	37	chr5	140237279	140237279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctgggcagcaacttgaCgctgcaggtgttcgtgctgg	5	10	15	11	2	1	1	0	1	1	0	2	1	1	1	1	3	4	6	1	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140237279C>T	uc003lhx.2	+	1	1646	c.1646C>T	c.(1645-1647)ACG>ATG	p.T549M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc011dad.1_Missense_Mutation_p.T549M	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	549	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCAACTTGACGCTGCAGGTG	0.692													27	52					0	0	1	0	0		T	140237279	T	T	140237279	3	4	66	1	0	0	0	0	1	0	0	0	11539	536	19	1	1648	1	PCDHA10	5	140237279	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2077004	140237279	40677981	473	44549											
PCDHA12	56137	broad.mit.edu	37	chr5	140256906	140256906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttgcaaccggcggcggtcGgcgcgcacatcccgttccac	6	6	13	16	7	0	0	0	0	0	0	3	0	2	0	3	4	2	4	3	4	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140256906G>A	uc003lic.2	+	1	1976	c.1849G>A	c.(1849-1851)GGC>AGC	p.G617S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.G617S	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	617	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGGCGGTCGGCGCGCACAT	0.682													17	44					0	0	1	0	0		A	140256906	A	A	140256906	3	1	66	1	0	0	0	0	1	0	0	0	11541	1116	39	1	1851	1	PCDHA12	5	140256906	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	19627	140256906	40658354	474	44550											
PCDHB3	56132	broad.mit.edu	37	chr5	140481708	140481708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaacctactcgctgctgcCgccccaggacccgcacctgc	6	6	10	19	3	0	0	0	0	0	0	1	1	0	1	6	2	5	4	6	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140481708C>T	uc003lio.2	+	1	1475	c.1475C>T	c.(1474-1476)CCG>CTG	p.P492L	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	492	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGCTGCTGCCGCCCCAGGAC	0.652													37	101					0	0	1	0	0		T	140481708	T	T	140481708	3	4	66	1	0	0	0	0	1	0	0	0	11562	652	23	1	1477	1	PCDHB3	5	140481708	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	224802	140481708	40433552	475	44551											
PCDHB5	26167	broad.mit.edu	37	chr5	140516775	140516775	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgggctacctggtgaccAaggtggtggcggtggacggc	6	6	19	10	3	0	1	0	1	0	0	0	2	0	2	3	8	2	1	3	8	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140516775A>C	uc003liq.2	+	1	1976	c.1759A>C	c.(1759-1761)AAG>CAG	p.K587Q		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	587	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTGGTGACCAAGGTGGTGGC	0.687													22	52					0	0	1	0	0		C	140516775	C	C	140516775	3	2	66	1	0	0	0	0	1	0	0	0	11564	131	5	5	1761	5	PCDHB5	5	140516775	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	35067	140516775	40398485	476	44552											
PCDHB5	26167	broad.mit.edu	37	chr5	140517298	140517298	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaccggagactcaggggccgGcgagttcaagttcctgaagc	9	6	15	11	3	2	2	2	1	0	1	3	5	3	2	3	4	1	2	3	4	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140517298G>T	uc003liq.2	+	1	2499	c.2282G>T	c.(2281-2283)GGC>GTC	p.G761V		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	761	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCAGGGGCCGGCGAGTTCAAG	0.567													14	147					2.32078e-09	2.42946e-09	1	1	0		T	140517298	T	T	140517298	3	4	66	1	0	0	0	0	1	0	0	0	11564	1203	42	5	2284	5	PCDHB5	5	140517298	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	523	140517298	40397962	477	44553											
PCDHB8	56128	broad.mit.edu	37	chr5	140559171	140559171	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacctgttcgccctcaggtCgctggactacgaggccctgc	5	8	11	17	3	1	0	1	0	0	0	3	2	1	1	4	3	2	2	4	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140559171C>T	uc011dai.1	+	1	1742	c.1556C>T	c.(1555-1557)TCG>TTG	p.S519L	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	519	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCCTCAGGTCGCTGGACTAC	0.687													39	99					0	0	1	0	0		T	140559171	T	T	140559171	3	4	66	1	0	0	0	0	1	0	0	0	11567	893	31	1	1558	1	PCDHB8	5	140559171	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	41873	140559171	40356089	478	44554											
PCDHB16	57717	broad.mit.edu	37	chr5	140563197	140563197	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatgtctgcactcaccagcCccatcccagagaactcgcct	9	7	6	19	1	2	1	1	0	1	1	4	2	3	1	6	0	3	1	6	0	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140563197C>T	uc003liv.2	+	1	2218	c.1063C>T	c.(1063-1065)CCC>TCC	p.P355S	PCDHB16_uc010jfw.1_Missense_Mutation_p.P27S	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	355	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACTCACCAGCCCCATCCCAGA	0.527													6	92					0	0	1	0	0		T	140563197	T	T	140563197	3	4	66	1	0	0	0	0	1	0	0	0	11560	623	22	4	1065	4	PCDHB16	5	140563197	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4026	140563197	40352063	479	44555											
PCDHB9	56127	broad.mit.edu	37	chr5	140568533	140568533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagcagcgaggcgctggtgCgcgtactggtgctggacgcc	5	7	18	11	5	0	1	0	1	0	0	0	3	0	2	1	4	5	4	1	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140568533C>T	uc003liw.1	+	3	1642	c.1642C>T	c.(1642-1644)CGC>TGC	p.R548C		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	548	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCGCTGGTGCGCGTACTGGT	0.706													29	63					0	0	1	0	0		T	140568533	T	T	140568533	3	4	66	1	0	0	0	0	1	0	0	0	11568	776	27	1	1643	1	PCDHB9	5	140568533	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	5336	140568533	40346727	480	44556											
PCDHB10	56126	broad.mit.edu	37	chr5	140573214	140573214	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagaattctcctgagacGccgctggctgtttttaagat	8	13	11	9	2	1	3	0	2	1	3	2	5	1	3	2	1	0	4	2	1	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140573214G>A	uc003lix.2	+	1	1263	c.1089G>A	c.(1087-1089)ACG>ACA	p.T363T		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	363	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTCCTGAGACGCCGCTGGCTG	0.418													34	41					0	0	1	0	0		A	140573214	A	A	140573214	2	1	66	1	0	0	0	0	0	0	0	1	11554	1074	38	1		1	PCDHB10	5	140573214	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4681	140573214	40342046	481	44557											
PCDHB12	56124	broad.mit.edu	37	chr5	140590223	140590223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggtgccctgggcggccgagCcgggctacctggtgaccaag	5	6	17	13	3	0	1	0	1	0	0	0	2	0	1	5	5	3	1	5	5	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140590223C>T	uc003liz.2	+	1	1933	c.1744C>T	c.(1744-1746)CCG>TCG	p.P582S	PCDHB12_uc011dak.1_Missense_Mutation_p.P245S	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	582	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCGGCCGAGCCGGGCTACCT	0.692													25	98					0	0	1	0	0		T	140590223	T	T	140590223	3	4	66	1	0	0	0	0	1	0	0	0	11556	739	26	2	1746	2	PCDHB12	5	140590223	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	17009	140590223	40325037	482	44558											
PCDHB15	56121	broad.mit.edu	37	chr5	140627174	140627174	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacctgccgctcccagaggcGgccccggcccaagcccaggc	6	3	12	20	3	0	1	0	0	0	1	1	1	1	1	7	4	3	1	7	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140627174G>A	uc003lje.2	+	1	2028	c.2028G>A	c.(2026-2028)GCG>GCA	p.A676A		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	676	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCCAGAGGCGGCCCCGGCCC	0.662													43	79					0	0	1	0	0		A	140627174	A	A	140627174	2	1	66	1	0	0	0	0	0	0	0	1	11559	1103	39	1		1	PCDHB15	5	140627174	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	36951	140627174	40288086	483	44559											
PCDHGA7	56108	broad.mit.edu	37	chr5	140764119	140764119	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacatgtcactgagcctgttCgtgctggaccagaatgacaa	12	9	10	10	1	1	3	1	2	0	1	2	4	1	4	2	1	3	2	2	1	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140764119C>T	uc003lka.1	+	1	1653	c.1653C>T	c.(1651-1653)TTC>TTT	p.F551F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Silent_p.F551F	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	551	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAGCCTGTTCGTGCTGGACC	0.577													32	63					0	0	1	0	0		T	140764119	T	T	140764119	2	4	66	1	0	0	0	0	0	0	0	1	11578	883	31	1		1	PCDHGA7	5	140764119	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	136945	140764119	40151141	484	44560											
PCDHGA9	56107	broad.mit.edu	37	chr5	140783163	140783163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacctggtcctcacggcctCggatggcggcgagccgcgtc	4	6	14	17	6	1	0	1	0	0	0	4	2	2	1	5	5	1	0	5	5	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140783163C>T	uc003lkh.1	+	1	644	c.644C>T	c.(643-645)TCG>TTG	p.S215L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.S215L	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	215	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCACGGCCTCGGATGGCGGC	0.597													19	32					0	0	1	0	0		T	140783163	T	T	140783163	3	4	66	1	0	0	0	0	1	0	0	0	11580	893	31	1	646	1	PCDHGA9	5	140783163	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	19044	140783163	40132097	485	44561											
PCDHGB6	56100	broad.mit.edu	37	chr5	140789345	140789345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctttgatcacgagcagctgCgcgccttcgcgctcacgctg	5	9	11	16	6	2	1	2	1	0	0	3	2	2	1	2	0	3	4	2	0	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140789345C>T	uc003lkj.1	+	1	1576	c.1576C>T	c.(1576-1578)CGC>TGC	p.R526C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.R526C	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	526	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAGCAGCTGCGCGCCTTCGC	0.687													5	12					0	0	1	0	0		T	140789345	T	T	140789345	3	4	66	1	0	0	0	0	1	0	0	0	11586	768	27	1	1578	1	PCDHGB6	5	140789345	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	6182	140789345	40125915	486	44562											
PCDHGC5	56097	broad.mit.edu	37	chr5	140885041	140885041	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagccatgatcttggcgtcCgccagtggtaagtggtgtca	8	10	13	10	2	2	1	1	1	1	0	3	1	3	1	3	3	1	1	3	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140885041C>T	uc003lla.1	+	3	2601	c.2601C>T	c.(2599-2601)TCC>TCT	p.S867S	PCDHGA1_uc003lji.1_Silent_p.S854S|PCDHGA2_uc003ljk.1_Silent_p.S855S|PCDHGA3_uc003ljm.1_Silent_p.S855S|PCDHGA3_uc010jfx.1_Silent_p.S615S|PCDHGB1_uc003ljo.1_Silent_p.S850S|PCDHGA4_uc003ljq.1_Silent_p.S854S|PCDHGB2_uc003ljs.1_Silent_p.S854S|PCDHGA5_uc003lju.1_Silent_p.S854S|PCDHGB3_uc003ljw.1_Silent_p.S852S|PCDHGA6_uc003ljy.1_Silent_p.S855S|PCDHGA7_uc003lka.1_Silent_p.S855S|PCDHGB4_uc003lkc.1_Silent_p.S846S|PCDHGA8_uc003lkd.1_Silent_p.S855S|PCDHGB5_uc003lkf.1_Silent_p.S846S|PCDHGA9_uc003lkh.1_Silent_p.S855S|PCDHGB6_uc003lkj.1_Silent_p.S853S|PCDHGA10_uc003lkl.1_Silent_p.S859S|PCDHGB7_uc003lkn.1_Silent_p.S852S|PCDHGA11_uc003lkp.1_Silent_p.S673S|PCDHGA11_uc003lkq.1_Silent_p.S858S|PCDHGA12_uc003lkt.1_Silent_p.S855S|PCDHGC3_uc003lkv.1_Silent_p.S857S|PCDHGC3_uc003lkw.1_Silent_p.S57S|PCDHGC4_uc003lky.1_Silent_p.S861S	NM_018929	NP_061752	Q9Y5F6	PCDGM_HUMAN	protocadherin gamma subfamily C, 5 isoform 1	867	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTTGGCGTCCGCCAGTGGTA	0.567													29	64					0	0	1	0	0		T	140885041	T	T	140885041	2	4	66	1	0	0	0	0	0	0	0	1	11590	639	23	1		1	PCDHGC5	5	140885041	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	95696	140885041	40030219	487	44563											
PCDHGC5	56097	broad.mit.edu	37	chr5	140890548	140890548	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccaccctgggagggggTgccggcaccatgggattgag	7	6	17	11	1	0	1	0	1	0	0	1	3	1	3	4	5	2	2	4	5	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140890548T>C	uc003lla.1	+	4	2643	c.2643T>C	c.(2641-2643)GGT>GGC	p.G881G	PCDHGA1_uc003lji.1_Silent_p.G868G|PCDHGA2_uc003ljk.1_Silent_p.G869G|PCDHGA3_uc003ljm.1_Silent_p.G869G|PCDHGA3_uc010jfx.1_Silent_p.G629G|PCDHGB1_uc003ljo.1_Silent_p.G864G|PCDHGA4_uc003ljq.1_Silent_p.G868G|PCDHGB2_uc003ljs.1_Silent_p.G868G|PCDHGA5_uc003lju.1_Silent_p.G868G|PCDHGB3_uc003ljw.1_Silent_p.G866G|PCDHGA6_uc003ljy.1_Silent_p.G869G|PCDHGA7_uc003lka.1_Silent_p.G869G|PCDHGB4_uc003lkc.1_Silent_p.G860G|PCDHGA8_uc003lkd.1_Silent_p.G869G|PCDHGB5_uc003lkf.1_Silent_p.G860G|PCDHGA9_uc003lkh.1_Silent_p.G869G|PCDHGB6_uc003lkj.1_Silent_p.G867G|PCDHGA10_uc003lkl.1_Silent_p.G873G|PCDHGB7_uc003lkn.1_Silent_p.G866G|PCDHGA11_uc003lkp.1_Silent_p.G687G|PCDHGA11_uc003lkq.1_Silent_p.G872G|PCDHGA12_uc003lkt.1_Silent_p.G869G|PCDHGC3_uc003lkv.1_Silent_p.G871G|PCDHGC3_uc003lkw.1_Silent_p.G71G|PCDHGC4_uc003lky.1_Silent_p.G875G	NM_018929	NP_061752	Q9Y5F6	PCDGM_HUMAN	protocadherin gamma subfamily C, 5 isoform 1	881	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGAGGGGGTGCCGGCACCA	0.587													33	93					0	0	1	0	0		C	140890548	C	C	140890548	2	2	66	1	0	0	0	0	0	0	0	1	11590	1683	59	3		3	PCDHGC5	5	140890548	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	5507	140890548	40024712	488	44564											
DIAPH1	1729	broad.mit.edu	37	chr5	140908488	140908488	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcattgaggcgaggccgCagtcggggcacagtgcccat	8	6	16	11	3	0	1	0	1	0	0	1	2	0	1	2	5	1	3	2	5	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:140908488C>T	uc003llb.3	-	23	2940	c.2799G>A	c.(2797-2799)CTG>CTA	p.L933L	DIAPH1_uc011dbd.1_5'Flank|DIAPH1_uc003llc.3_Silent_p.L924L|DIAPH1_uc010jgc.1_Silent_p.L369L	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	933	FH2.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGAGGCCGCAGTCGGGGCA	0.493													9	32					0	0	1	0	0		T	140908488	T	T	140908488	2	4	66	1	0	0	0	0	0	0	0	1	4524	697	25	2		2	DIAPH1	5	140908488	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	17940	140908488	40006772	489	44565											
FCHSD1	89848	broad.mit.edu	37	chr5	141029028	141029028	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcacggtatcggtcagaCgcctggagtcgggtttggcc	6	9	16	10	4	2	1	2	0	0	1	4	2	2	2	2	6	0	2	2	6	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:141029028C>T	uc003llk.2	-	5	360	c.309G>A	c.(307-309)GCG>GCA	p.A103A	FCHSD1_uc010jgg.2_5'Flank|FCHSD1_uc003llj.2_RNA	NM_033449	NP_258260	Q86WN1	FCSD1_HUMAN	FCH and double SH3 domains 1	103									FCHSD1/BRAF(2)	skin(2)|ovary(1)|central_nervous_system(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCGGTCAGACGCCTGGAGTC	0.637													55	83					0	0	1	0	0		T	141029028	T	T	141029028	2	4	66	1	0	0	0	0	0	0	0	1	5803	523	19	1		1	FCHSD1	5	141029028	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	120540	141029028	39886232	490	44566											
PCDH1	5097	broad.mit.edu	37	chr5	141248471	141248471	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggtctgaagccagcgggAtggggaagagtgagccgatg	10	5	18	8	3	1	3	0	2	1	1	1	6	1	5	2	4	3	0	2	4	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:141248471A>G	uc003llq.2	-	2	683	c.566T>C	c.(565-567)ATC>ACC	p.I189T	PCDH1_uc003llp.2_Missense_Mutation_p.I189T|PCDH1_uc011dbf.1_Missense_Mutation_p.I167T	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	189	Extracellular (Potential).|Cadherin 2.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		AGCCAGCGGGATGGGGAAGAG	0.567													39	140					0	0	1	0	0		G	141248471	G	G	141248471	3	3	66	1	0	0	0	0	1	0	0	0	11525	333	12	3	3247	3	PCDH1	5	141248471	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	219443	141248471	39666789	491	44567											
NR3C1	2908	broad.mit.edu	37	chr5	142780298	142780298	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagaaaccttcacagtagctCctcctcttagggttttatag	10	13	7	11	0	2	1	1	0	1	1	4	1	4	1	3	1	2	3	3	1	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:142780298C>A	uc003lmz.2	-	2	599	c.107G>T	c.(106-108)GGA>GTA	p.G36V	NR3C1_uc003lmy.2_Missense_Mutation_p.G36V|NR3C1_uc003lna.2_Missense_Mutation_p.G36V|NR3C1_uc003lnb.2_Missense_Mutation_p.G36V|NR3C1_uc011dbk.1_Intron|NR3C1_uc003lnc.2_Missense_Mutation_p.G36V|NR3C1_uc003lnd.2_Missense_Mutation_p.G36V|NR3C1_uc003lne.2_Missense_Mutation_p.G36V|NR3C1_uc003lnf.2_Missense_Mutation_p.G36V|NR3C1_uc003lng.2_Missense_Mutation_p.G36V|NR3C1_uc003lnh.2_Missense_Mutation_p.G36V|NR3C1_uc003lni.2_Missense_Mutation_p.G36V	NM_000176	NP_000167	P04150	GCR_HUMAN	glucocorticoid receptor isoform alpha	36	Modulating.				chromatin modification|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus|transcription from RNA polymerase II promoter	mitochondrial matrix|nucleoplasm	glucocorticoid receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(2;3.2e-05)|all_hematologic(2;0.000361)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)		Amcinonide(DB00288)|Betamethasone(DB00443)|Budesonide(DB01222)|Dexamethasone(DB01234)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluticasone Propionate(DB00588)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol Etabonate(DB00873)|Methylprednisolone(DB00959)|Mifepristone(DB00834)|Mometasone(DB00764)|Prednisone(DB00635)	CACAGTAGCTCCTCCTCTTAG	0.473													34	58					5.91797e-21	6.39604e-21	1	1	0		A	142780298	A	A	142780298	3	1	66	1	0	0	0	0	1	0	0	0	10649	855	30	5	2313	5	NR3C1	5	142780298	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1531827	142780298	38134962	492	44568											
ADRB2	154	broad.mit.edu	37	chr5	148206713	148206713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttttggcaacttctggtgcGagttttggacttccattgat	6	17	10	8	1	1	1	0	1	1	0	2	3	2	2	1	3	2	2	1	3	1	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:148206713G>A	uc003lpr.1	+	1	558	c.319G>A	c.(319-321)GAG>AAG	p.E107K	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	107	Helical; Name=3.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	CTTCTGGTGCGAGTTTTGGAC	0.522													22	54					0	0	1	0	0		A	148206713	A	A	148206713	3	1	66	1	0	0	0	0	1	0	0	0	341	1059	37	1	321	1	ADRB2	5	148206713	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5426415	148206713	32708547	493	44569											
PPARGC1B	133522	broad.mit.edu	37	chr5	149216029	149216029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtcccacctgcgacatGccacagcccagccagcctcc	7	6	7	21	1	0	0	0	0	0	0	3	1	3	0	8	0	5	0	8	0	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:149216029G>A	uc003lrc.2	+	8	2053	c.2011G>A	c.(2011-2013)GCC>ACC	p.A671T	PPARGC1B_uc003lrb.1_Missense_Mutation_p.A671T|PPARGC1B_uc003lrd.2_Missense_Mutation_p.A632T|PPARGC1B_uc003lrf.2_Missense_Mutation_p.A650T|PPARGC1B_uc003lre.1_Missense_Mutation_p.A650T	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	671					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CCTGCGACATGCCACAGCCCA	0.637													20	55					0	0	1	0	0		A	149216029	A	A	149216029	3	1	66	1	0	0	0	0	1	0	0	0	12320	1319	46	2	2048	2	PPARGC1B	5	149216029	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1009316	149216029	31699231	494	44570											
FAT2	2196	broad.mit.edu	37	chr5	150885493	150885493	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttttccatctccagggggAaggggaagcccccatagagg	9	8	14	10	0	1	1	0	0	1	1	3	3	2	3	4	5	1	1	4	5	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:150885493A>G	uc003lue.3	-	23	12696	c.12683T>C	c.(12682-12684)TTC>TCC	p.F4228S	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.F835S	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	4228	Cytoplasmic (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTCCAGGGGGAAGGGGAAGCC	0.637													50	118					0	0	1	0	0		G	150885493	G	G	150885493	3	3	66	1	0	0	0	0	1	0	0	0	5704	246	9	3	370	3	FAT2	5	150885493	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1669464	150885493	30029767	495	44571											
SPARC	6678	broad.mit.edu	37	chr5	151043687	151043687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggcccactcatccagggCgatgtacttgtcattgtcca	7	10	10	14	2	2	0	2	0	0	0	4	1	4	0	4	2	1	1	4	2	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:151043687C>T	uc003luh.2	-	8	868	c.844G>A	c.(844-846)GCC>ACC	p.A282T	GM2A_uc011dcs.1_Intron|SPARC_uc003lug.2_Missense_Mutation_p.A116T|SPARC_uc003lui.2_Missense_Mutation_p.A282T	NM_003118	NP_003109	P09486	SPRC_HUMAN	secreted protein, acidic, cysteine-rich	282	|EF-hand.				ossification|platelet activation|platelet degranulation|signal transduction	basement membrane|extracellular space|platelet alpha granule lumen	calcium ion binding|collagen binding			central_nervous_system(1)	1		Medulloblastoma(196;0.109)|all_hematologic(541;0.122)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)	OV - Ovarian serous cystadenocarcinoma(192;0.00118)	Becaplermin(DB00102)	TCATCCAGGGCGATGTACTTG	0.592													12	67					0	0	1	0	0		T	151043687	T	T	151043687	3	4	66	1	0	0	0	0	1	0	0	0	15020	768	27	1	75	1	SPARC	5	151043687	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	158194	151043687	29871573	496	44572											
EBF1	1879	broad.mit.edu	37	chr5	158223392	158223392	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtaccgaatatgacctgtaaCccatcaaagaaattgtcccc	14	9	6	12	1	1	2	1	1	0	1	2	3	2	2	5	0	2	2	5	0	6	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:158223392C>T	uc010jip.2	-	9	1172	c.870G>A	c.(868-870)GGG>GGA	p.G290G	EBF1_uc011ddw.1_Silent_p.G158G|EBF1_uc011ddx.1_Silent_p.G291G|EBF1_uc003lxl.3_Silent_p.G259G	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	290	IPT/TIG.				multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGACCTGTAACCCATCAAAGA	0.453			T	HMGA2	lipoma								16	45					0	0	1	0	0		T	158223392	T	T	158223392	2	4	66	1	0	0	0	0	0	0	0	1	4886	494	18	4		4	EBF1	5	158223392	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	7179705	158223392	22691868	497	44573											
SLU7	10569	broad.mit.edu	37	chr5	159833494	159833494	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtgattgtggatcttcAcatcctcctcatacttagag	8	15	8	10	0	3	2	2	1	1	1	5	3	5	3	2	1	1	0	2	1	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:159833494A>G	uc003lyg.2	-	12	1423	c.1268T>C	c.(1267-1269)GTG>GCG	p.V423A		NM_006425	NP_006416	O95391	SLU7_HUMAN	step II splicing factor SLU7	423					alternative nuclear mRNA splicing, via spliceosome|nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|cytoplasm|nuclear speck|small nuclear ribonucleoprotein complex	pre-mRNA 3'-splice site binding|second spliceosomal transesterification activity|zinc ion binding			ovary(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GTGGATCTTCACATCCTCCTC	0.428													28	64					0	0	1	0	0		G	159833494	G	G	159833494	3	3	66	1	0	0	0	0	1	0	0	0	14780	159	6	3	512	3	SLU7	5	159833494	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1610102	159833494	21081766	498	44574											
ODZ2	57451	broad.mit.edu	37	chr5	167674485	167674485	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgacggtgcaatatgacAgcatgggcagggtgatcaag	12	7	16	6	1	1	3	1	3	0	0	1	4	1	4	0	4	2	3	0	4	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:167674485A>G	uc010jjd.2	+	27	6514	c.6514A>G	c.(6514-6516)AGC>GGC	p.S2172G	ODZ2_uc003lzr.3_Missense_Mutation_p.S1942G|ODZ2_uc003lzt.3_Missense_Mutation_p.S1545G|ODZ2_uc010jje.2_Missense_Mutation_p.S1436G	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		GCAATATGACAGCATGGGCAG	0.547													12	39					0	0	1	0	0		G	167674485	G	G	167674485	3	3	66	1	0	0	0	0	1	0	0	0	10854	188	7	3	6620	3	ODZ2	5	167674485	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	7840991	167674485	13240775	499	44575											
PANK3	79646	broad.mit.edu	37	chr5	167995867	167995867	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggtggatccatatgccacGttagaagtcaaatatttccg	11	11	9	10	3	1	1	1	0	0	1	3	2	3	2	4	2	1	1	4	2	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:167995867G>A	uc003lzz.1	-	2	465	c.165C>T	c.(163-165)AAC>AAT	p.N55N		NM_024594	NP_078870	Q9H999	PANK3_HUMAN	pantothenate kinase 3	55					coenzyme A biosynthetic process	cytoplasm|nucleus	ATP binding|pantothenate kinase activity			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0441)|all_lung(126;0.0909)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0989)|OV - Ovarian serous cystadenocarcinoma(192;0.147)|Epithelial(171;0.188)		CATATGCCACGTTAGAAGTCA	0.398													39	78					0	0	1	0	0		A	167995867	A	A	167995867	2	1	66	1	0	0	0	0	0	0	0	1	11437	1136	40	1		1	PANK3	5	167995867	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	321382	167995867	12919393	500	44576											
SLIT3	6586	broad.mit.edu	37	chr5	168093688	168093688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggactacttgtcccaggcacGgattctctgcagagggcata	9	9	12	11	1	1	1	0	0	1	1	3	3	2	3	1	4	2	3	1	4	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:168093688G>A	uc003mab.2	-	36	4763	c.4343C>T	c.(4342-4344)CCG>CTG	p.P1448L	SLIT3_uc010jjg.2_Missense_Mutation_p.P1455L	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	1448					apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCCCAGGCACGGATTCTCTGC	0.562													10	21					0	0	1	0	0		A	168093688	A	A	168093688	3	1	66	1	0	0	0	0	1	0	0	0	14766	1116	39	1	232	1	SLIT3	5	168093688	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	97821	168093688	12821572	501	44577											
DOCK2	1794	broad.mit.edu	37	chr5	169454916	169454916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacgaggtagaagggggccGaggcgacgagcagtacatgc	11	3	17	10	4	0	1	0	0	0	1	0	5	0	1	2	4	3	3	2	4	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:169454916G>A	uc003maf.2	+	34	3511	c.3431G>A	c.(3430-3432)CGA>CAA	p.R1144Q	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.R636Q	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1144	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAAGGGGGCCGAGGCGACGAG	0.517													9	42					0	0	1	0	0		A	169454916	A	A	169454916	3	1	66	1	0	0	0	0	1	0	0	0	4693	1058	37	1	3565	1	DOCK2	5	169454916	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1361228	169454916	11460344	502	44578											
DOCK2	1794	broad.mit.edu	37	chr5	169454950	169454950	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatgcagctcctggagtcAatgtaagttcagtgccctgt	9	12	10	10	0	2	0	2	0	0	0	3	1	3	1	2	1	4	4	2	1	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:169454950A>G	uc003maf.2	+	34	3545	c.3465A>G	c.(3463-3465)TCA>TCG	p.S1155S	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.S647S	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1155	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCCTGGAGTCAATGTAAGTTC	0.572													21	26					0	0	1	0	0		G	169454950	G	G	169454950	2	3	66	1	0	0	0	0	0	0	0	1	4693	117	5	3		3	DOCK2	5	169454950	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	34	169454950	11460310	503	44579											
DOCK2	1794	broad.mit.edu	37	chr5	169483739	169483739	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactactcccggcccgtgcgCagggggaccgtagacccaga	8	4	13	16	4	0	2	0	0	0	2	1	3	1	3	4	3	2	2	4	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:169483739C>T	uc003maf.2	+	43	4427	c.4347C>T	c.(4345-4347)CGC>CGT	p.R1449R	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.R941R|DOCK2_uc003mah.2_5'UTR	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1449	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGCCCGTGCGCAGGGGGACCG	0.572													4	28					0	0	1	0	0		T	169483739	T	T	169483739	2	4	66	1	0	0	0	0	0	0	0	1	4693	697	25	2		2	DOCK2	5	169483739	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	28789	169483739	11431521	504	44580											
STK10	6793	broad.mit.edu	37	chr5	171533682	171533682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgatctttagcaggacccGcatggggttgagctcgtggt	6	10	16	9	3	1	1	0	1	1	0	2	3	1	2	1	5	2	4	1	5	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:171533682G>A	uc003mbo.1	-	6	1030	c.730C>T	c.(730-732)CGG>TGG	p.R244W		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	244	Protein kinase.						ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AGCAGGACCCGCATGGGGTTG	0.652											OREG0017039	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	15					0	0	1	0	0		A	171533682	A	A	171533682	3	1	66	1	0	0	0	0	1	0	0	0	15311	1086	38	1	2232	1	STK10	5	171533682	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2049943	171533682	9381578	505	44581											
CPLX2	10814	broad.mit.edu	37	chr5	175306962	175306962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccatccctgcgggctgcgggGacgaggaggaggaggaagag	9	3	20	9	3	0	1	0	0	0	1	1	7	1	6	2	7	2	1	2	7	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:175306962G>A	uc003mde.1	+	5	665	c.319G>A	c.(319-321)GAC>AAC	p.D107N	CPLX2_uc003mdf.1_Missense_Mutation_p.D107N	NM_006650	NP_006641	Q6PUV4	CPLX2_HUMAN	complexin 2	107					mast cell degranulation|positive regulation of synaptic plasticity|vesicle docking involved in exocytosis	cytosol				ovary(1)	1	all_cancers(89;0.004)|Renal(175;0.000269)|Lung NSC(126;0.00441)|all_lung(126;0.00747)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GGGCTGCGGGGACGAGGAGGA	0.637													4	9					0	0	1	0	0		A	175306962	A	A	175306962	3	1	66	1	0	0	0	0	1	0	0	0	3808	1174	41	4	329	4	CPLX2	5	175306962	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3773280	175306962	5608298	506	44582											
C5orf25	375484	broad.mit.edu	37	chr5	175772305	175772305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcagattgaggccttcCgcagccgcctgatccagatg	10	7	12	12	2	0	5	0	2	0	3	2	5	2	5	5	1	2	2	5	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:175772305C>T	uc003mds.3	+	12	2883	c.2476C>T	c.(2476-2478)CGC>TGC	p.R826C	C5orf25_uc003mdt.3_Missense_Mutation_p.R411C|C5orf25_uc003mdr.3_RNA|C5orf25_uc003mdv.2_Missense_Mutation_p.R287C			Q8NDZ2	CE025_HUMAN	RecName: Full=Uncharacterized protein C5orf25;	826											0	all_cancers(89;0.00381)|Renal(175;0.000269)|Lung NSC(126;0.0122)|all_lung(126;0.0193)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.119)		TGAGGCCTTCCGCAGCCGCCT	0.512													18	36					0	0	1	0	0		T	175772305	T	T	175772305	3	4	66	1	0	0	0	0	1	0	0	0	2291	652	23	1	1265	1	C5orf25	5	175772305	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	465343	175772305	5142955	507	44583											
CDHR2	54825	broad.mit.edu	37	chr5	176016134	176016134	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatccctttccagggtgtcTtctcgatcttcacctcctcc	4	14	5	18	1	4	0	1	0	3	0	9	1	8	0	6	1	0	0	6	1	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:176016134T>G	uc003mem.1	+	22	3025	c.2959T>G	c.(2959-2961)TTC>GTC	p.F987V	CDHR2_uc003men.1_Missense_Mutation_p.F987V	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	987	Extracellular (Potential).|Cadherin 9.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						CCAGGGTGTCTTCTCGATCTT	0.602													53	122					0	0	1	0	0		G	176016134	G	G	176016134	3	3	66	1	0	0	0	0	1	0	0	0	3122	1609	56	5	3041	5	CDHR2	5	176016134	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	243829	176016134	4899126	508	44584											
UNC5A	90249	broad.mit.edu	37	chr5	176306759	176306759	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaagcccagccccacaGccatgatcctcaacctgtgg	9	6	7	19	0	1	1	1	1	0	0	3	1	3	1	8	1	4	0	8	1	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:176306759G>T	uc003mey.2	+	15	2593	c.2401G>T	c.(2401-2403)GCC>TCC	p.A801S		NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	801	Death.|Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAGCCCCACAGCCATGATCCT	0.692													12	32					3.27435e-08	3.40147e-08	1	1	0		T	176306759	T	T	176306759	3	4	66	1	0	0	0	0	1	0	0	0	17017	971	34	5	2459	5	UNC5A	5	176306759	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	290625	176306759	4608501	509	44585											
FGFR4	2264	broad.mit.edu	37	chr5	176517963	176517963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactggacacacccccagcGcatggagaagaaactgcatg	13	5	10	13	1	0	2	0	0	0	2	0	4	0	3	2	2	4	2	2	2	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:176517963G>A	uc003mfl.2	+	5	628	c.461G>A	c.(460-462)CGC>CAC	p.R154H	FGFR4_uc003mfm.2_Missense_Mutation_p.R154H|FGFR4_uc011dfu.1_Missense_Mutation_p.R154H|FGFR4_uc011dfv.1_RNA|FGFR4_uc003mfn.1_3'UTR|FGFR4_uc011dfw.1_Missense_Mutation_p.R154H|FGFR4_uc003mfo.2_Missense_Mutation_p.R154H	NM_002011	NP_002002	P22455	FGFR4_HUMAN	fibroblast growth factor receptor 4 isoform 1	154	Extracellular (Potential).|Ig-like C2-type 2.				insulin receptor signaling pathway|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity			lung(11)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|prostate(1)	16	all_cancers(89;5.93e-05)|Renal(175;0.000269)|Lung NSC(126;0.0088)|all_lung(126;0.0142)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Palifermin(DB00039)	CACCCCCAGCGCATGGAGAAG	0.602										TSP Lung(9;0.080)			12	27					0	0	1	0	0		A	176517963	A	A	176517963	3	1	66	1	0	0	0	0	1	0	0	0	5882	1087	38	1	475	1	FGFR4	5	176517963	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	211204	176517963	4397297	510	44586											
HNRNPAB	3182	broad.mit.edu	37	chr5	177637254	177637254	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctatggctattacggctaCggccccggctacgactacag	8	8	10	15	4	0	0	0	0	0	0	0	1	0	0	3	4	4	3	3	4	6	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:177637254C>T	uc003miu.2	+	7	1166	c.909C>T	c.(907-909)TAC>TAT	p.Y303Y	HNRNPAB_uc003miv.2_Intron|HNRNPAB_uc010jks.2_Intron|HNRNPAB_uc003miw.2_Silent_p.Y303Y|HNRNPAB_uc003mix.2_Intron|AGXT2L2_uc003miy.2_Intron|AGXT2L2_uc003mjc.2_Intron|AGXT2L2_uc003miz.2_Intron|AGXT2L2_uc003mja.2_Intron|AGXT2L2_uc003mjb.2_Intron	NM_031266	NP_112556	Q99729	ROAA_HUMAN	heterogeneous nuclear ribonucleoprotein A/B	303	Gly-rich.				epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding				0						ATTACGGCTACGGCCCCGGCT	0.627													9	27					0	0	1	0	0		T	177637254	T	T	177637254	2	4	66	1	0	0	0	0	0	0	0	1	7277	547	19	1		1	HNRNPAB	5	177637254	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1119291	177637254	3278006	511	44587											
ADAMTS2	9509	broad.mit.edu	37	chr5	178771083	178771083	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtagctgccgacaccacGtgggacaccaagcggccctg	9	4	13	15	4	0	0	0	0	0	0	0	3	0	1	4	2	3	2	4	2	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:178771083G>A	uc003mjw.2	-	2	219	c.219C>T	c.(217-219)CAC>CAT	p.H73H	ADAMTS2_uc011dgm.1_Silent_p.H73H	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	73					collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CCGACACCACGTGGGACACCA	0.736													3	9					0	0	1	0	0		A	178771083	A	A	178771083	2	1	66	1	0	0	0	0	0	0	0	1	265	1136	40	1		1	ADAMTS2	5	178771083	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1133829	178771083	2144177	512	44588											
MGAT1	4245	broad.mit.edu	37	chr5	180218736	180218736	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataccccggtagccagctctCggaacccccgacttaaggtc	9	7	9	16	3	1	0	0	0	1	0	3	2	1	1	5	3	4	2	5	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr5:180218736C>T	uc003mmg.3	-	2	1731	c.1236G>A	c.(1234-1236)CCG>CCA	p.P412P	MGAT1_uc010jlf.2_Silent_p.P412P|MGAT1_uc010jlg.2_Silent_p.P412P|MGAT1_uc003mmh.3_Silent_p.P412P|MGAT1_uc010jlh.2_Silent_p.P412P|MGAT1_uc003mmi.3_Silent_p.P412P	NM_002406	NP_002397	P26572	MGAT1_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	412	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(1)	1	all_cancers(89;1.11e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.0027)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00356)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGCCAGCTCTCGGAACCCCCG	0.622													9	35					0	0	1	0	0		T	180218736	T	T	180218736	2	4	66	1	0	0	0	0	0	0	0	1	9560	871	31	1		1	MGAT1	5	180218736	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1447653	180218736	696524	513	44589											
HUS1B	135458	broad.mit.edu	37	chr6	656489	656489	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcggatgctcgcgtcggaGgcgcgcaggctgggcggcag	5	4	21	11	7	0	0	0	0	0	0	2	2	0	2	0	7	1	4	0	7	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:656489G>T	uc003mtg.2	-	1	476	c.456C>A	c.(454-456)GCC>GCA	p.A152A	EXOC2_uc003mtd.2_Intron|EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_148959	NP_683762	Q8NHY5	HUS1B_HUMAN	HUS1 checkpoint protein B	152											0	Ovarian(93;0.0733)	Breast(5;0.00139)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.041)|BRCA - Breast invasive adenocarcinoma(62;0.0965)		TCGCGTCGGAGGCGCGCAGGC	0.697													30	63					7.01153e-11	7.37924e-11	1	1	0		T	656489	T	T	656489	2	4	66	1	0	0	0	0	0	0	0	1	7476	987	35	5		5	HUS1B	6	656489	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08		656489	170458578	514	44590											
HUS1B	135458	broad.mit.edu	37	chr6	656933	656933	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgccggtgatcttggcGcgaaacttcatgatgccaca	8	11	10	12	3	2	2	1	2	1	0	2	3	2	2	3	2	3	0	3	2	1	3	rs141227587		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:656933G>A	uc003mtg.2	-	1	32	c.12C>T	c.(10-12)CGC>CGT	p.R4R	EXOC2_uc003mtd.2_Intron|EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_148959	NP_683762	Q8NHY5	HUS1B_HUMAN	HUS1 checkpoint protein B	4											0	Ovarian(93;0.0733)	Breast(5;0.00139)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.041)|BRCA - Breast invasive adenocarcinoma(62;0.0965)		TGATCTTGGCGCGAAACTTCA	0.657													11	32					0	0	1	0	0		A	656933	A	A	656933	2	1	66	1	0	0	0	0	0	0	0	1	7476	1074	38	1		1	HUS1B	6	656933	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	444	656933	170458134	515	44591											
F13A1	2162	broad.mit.edu	37	chr6	6167765	6167765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccctggtctcattgatgcGagctgtgacaaagaagtgca	11	10	11	9	1	1	3	1	2	1	1	3	4	2	3	1	1	3	2	1	1	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:6167765G>A	uc003mwv.2	-	13	1957	c.1834C>T	c.(1834-1836)CGC>TGC	p.R612C	F13A1_uc011dib.1_Missense_Mutation_p.R549C	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	612					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	TCATTGATGCGAGCTGTGACA	0.517													16	26					0	0	1	0	0		A	6167765	A	A	6167765	3	1	66	1	0	0	0	0	1	0	0	0	5348	1058	37	1	376	1	F13A1	6	6167765	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5510832	6167765	164947302	516	44592											
RREB1	6239	broad.mit.edu	37	chr6	7229845	7229845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggcgatcttcaagcacatgCcccctctgaagccaaagccc	11	6	8	16	1	3	1	1	1	2	0	3	2	3	1	4	1	4	1	4	1	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:7229845C>T	uc003mxc.2	+	10	1903	c.1513C>T	c.(1513-1515)CCC>TCC	p.P505S	RREB1_uc003mxb.2_Missense_Mutation_p.P505S|RREB1_uc010jnx.2_Missense_Mutation_p.P505S	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	505	Pro-rich.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				CAAGCACATGCCCCCTCTGAA	0.647													59	165					0	0	1	0	0		T	7229845	T	T	7229845	3	4	66	1	0	0	0	0	1	0	0	0	13704	739	26	2	1539	2	RREB1	6	7229845	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1062080	7229845	163885222	517	44593											
C6orf114	85411	broad.mit.edu	37	chr6	13470413	13470413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcttccccagcacctgcGcgcgatgaacgcatctatct	7	9	9	16	4	2	1	0	1	2	0	3	2	3	1	3	1	3	3	3	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:13470413G>A	uc003nav.2	-	2	623	c.100C>T	c.(100-102)CGC>TGC	p.R34C	GFOD1_uc003nas.1_Intron|GFOD1_uc003nat.1_Intron|C6orf114_uc003nau.2_RNA	NM_033069	NP_149060			hypothetical protein LOC85411												0	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0504)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.147)			CAGCACCTGCGCGCGATGAAC	0.502													13	31					0	0	1	0	0		A	13470413	A	A	13470413	3	1	66	1	0	0	0	0	1	0	0	0	2324	1087	38	1	314	1	C6orf114	6	13470413	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	6240568	13470413	157644654	518	44594											
RBM24	221662	broad.mit.edu	37	chr6	17292146	17292146	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgctgctgccgccgcCgctgctgcctatgaccagta	4	9	12	16	3	0	1	0	1	0	0	0	1	0	1	5	0	6	7	5	0	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:17292146C>T	uc003nbz.3	+	4	511	c.507C>T	c.(505-507)GCC>GCT	p.A169A	RBM24_uc003nby.3_3'UTR|RBM24_uc011dix.1_Silent_p.A111A|RBM24_uc003nca.2_Silent_p.A124A|RBM24_uc011diy.1_Missense_Mutation_p.P83L|RBM24_uc011diz.1_Missense_Mutation_p.P68L	NM_001143942	NP_001137414	Q9BX46	RBM24_HUMAN	RNA binding motif protein 24 isoform 1	169	Ala-rich.				cell differentiation|regulation of mRNA stability|regulation of myotube differentiation	cytoplasm|nucleus	mRNA 3'-UTR binding|nucleotide binding			ovary(1)|skin(1)	2	Breast(50;0.0615)|Ovarian(93;0.0733)	all_hematologic(90;0.062)	all cancers(50;0.131)|Epithelial(50;0.15)			ctgccgccgccgctgctgcCT	0.488													13	34					0	0	1	0	0		T	17292146	T	T	17292146	2	4	66	1	0	0	0	0	0	0	0	1	13149	639	23	1		1	RBM24	6	17292146	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3821733	17292146	153822921	519	44595											
CDKAL1	54901	broad.mit.edu	37	chr6	21000460	21000460	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttccatttttttaaggaAatggcaaaaatccttaatca	14	15	4	8	0	1	0	1	0	0	0	4	1	4	1	3	2	0	1	3	2	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:21000460A>T	uc003ndc.1	+	11	1086	c.912A>T	c.(910-912)GAA>GAT	p.E304D	CDKAL1_uc003ndd.1_Missense_Mutation_p.E304D|CDKAL1_uc003nde.1_Missense_Mutation_p.E234D	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	304					RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			TTTTTAAGGAAATGGCAAAAA	0.388													13	82					0	0	1	0	0		T	21000460	T	T	21000460	3	4	66	1	0	0	0	0	1	0	0	0	3155	11	1	5	946	5	CDKAL1	6	21000460	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3708314	21000460	150114607	520	44596											
PRL	5617	broad.mit.edu	37	chr6	22290519	22290519	+	Silent	SNP	G	A	A																															accacgtacttccgtgaccaGatgatacagaggctcattcc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:22290519G>A	uc003ndp.2	-	4	895	c.376C>T	c.(376-378)CTG>TTG	p.L126L	PRL_uc003ndo.2_Silent_p.L127L|PRL_uc003ndq.2_Silent_p.L126L	NM_000948	NP_000939	P01236	PRL_HUMAN	prolactin precursor	126					cell proliferation|cell surface receptor linked signaling pathway|female pregnancy|lactation|positive regulation of JAK-STAT cascade|regulation of multicellular organism growth	cytosol|extracellular region	hormone activity|prolactin receptor binding				0	Ovarian(93;0.163)					TCCGTGACCAGATGATACAGA	0.453													17	68					0	0	1	0	0		A	22290519	A	A	22290519	2	1	66	1	0	0	0	0	0	0	0	1	12550	933	33	4		4	PRL	6	22290519	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1290059	22290519	148824548	521	44597	89	2									
PRL	5617	broad.mit.edu	37	chr6	22290529	22290529	+	Silent	SNP	A	G	G																															tccgtgaccagatgatacagAggctcattccaggatcgcaa																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:22290529A>G	uc003ndp.2	-	4	885	c.366T>C	c.(364-366)CCT>CCC	p.P122P	PRL_uc003ndo.2_Silent_p.P123P|PRL_uc003ndq.2_Silent_p.P122P	NM_000948	NP_000939	P01236	PRL_HUMAN	prolactin precursor	122					cell proliferation|cell surface receptor linked signaling pathway|female pregnancy|lactation|positive regulation of JAK-STAT cascade|regulation of multicellular organism growth	cytosol|extracellular region	hormone activity|prolactin receptor binding				0	Ovarian(93;0.163)					GATGATACAGAGGCTCATTCC	0.428													16	70					0	0	1	0	0		G	22290529	G	G	22290529	2	3	66	1	0	0	0	0	0	0	0	1	12550	291	11	3		3	PRL	6	22290529	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	10	22290529	148824538	522	44598	89	2									
DCDC2	51473	broad.mit.edu	37	chr6	24178686	24178686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatttacacgagcagggcGtgcctgctgctcactgtgat	7	11	11	12	2	1	1	1	1	0	0	2	2	2	1	2	1	5	3	2	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:24178686G>A	uc003ndx.2	-	9	1500	c.1198C>T	c.(1198-1200)CGC>TGC	p.R400C	DCDC2_uc003ndy.2_Missense_Mutation_p.R400C|DCDC2_uc003ndw.2_Missense_Mutation_p.R151C	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	400					cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				CGAGCAGGGCGTGCCTGCTGC	0.517													29	73					0	0	1	0	0		A	24178686	A	A	24178686	3	1	66	1	0	0	0	0	1	0	0	0	4288	1145	40	1	240	1	DCDC2	6	24178686	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1888157	24178686	146936381	523	44599											
HIST1H2AA	221613	broad.mit.edu	37	chr6	25726703	25726703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaacccgctctagaagagCgagacttagacttggcgcgt	11	7	12	11	4	1	4	0	0	1	4	1	5	1	4	1	1	2	2	1	1	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:25726703C>T	uc003nfc.2	-	1	88	c.53G>A	c.(52-54)CGC>CAC	p.R18H	HIST1H2BA_uc003nfd.2_5'Flank	NM_170745	NP_734466	Q96QV6	H2A1A_HUMAN	histone cluster 1, H2aa	18					nucleosome assembly	nucleosome|nucleus	DNA binding				0						TCTAGAAGAGCGAGACTTAGA	0.547													19	62					0	0	1	0	0		T	25726703	T	T	25726703	3	4	66	1	0	0	0	0	1	0	0	0	7144	768	27	1	346	1	HIST1H2AA	6	25726703	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1548017	25726703	145388364	524	44600											
HIST1H2BJ	8970	broad.mit.edu	37	chr6	27100268	27100268	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctggaggtgatggtcgAgcgcttgttgtaatgcgcca	6	11	14	10	3	0	1	0	1	0	0	2	3	1	2	2	3	2	3	2	3	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:27100268A>C	uc003niv.2	-	1	308	c.262T>G	c.(262-264)TCG>GCG	p.S88A	HIST1H2BJ_uc003niu.1_Intron|HIST1H2AG_uc003niw.2_5'Flank	NM_021058	NP_066402	P06899	H2B1J_HUMAN	histone cluster 1, H2bj	88					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						GTGATGGTCGAGCGCTTGTTG	0.597													32	88					0	0	1	0	0		C	27100268	C	C	27100268	3	2	66	1	0	0	0	0	1	0	0	0	7165	304	11	5	122	5	HIST1H2BJ	6	27100268	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1373565	27100268	144014799	525	44601											
TRIM26	7726	broad.mit.edu	37	chr6	30166507	30166507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtgctcccgggactccCggcacatcacgcacagcagc	7	5	11	18	3	1	0	1	0	0	0	3	1	3	1	3	2	3	4	3	2	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:30166507C>T	uc003npr.2	-	3	583	c.374G>A	c.(373-375)CGG>CAG	p.R125Q	TRIM26_uc003nps.2_Missense_Mutation_p.R125Q|TRIM26_uc010jry.2_5'UTR|TRIM26_uc003npt.2_Missense_Mutation_p.R125Q|TRIM26_uc003npu.1_Missense_Mutation_p.R125Q	NM_003449	NP_003440	Q12899	TRI26_HUMAN	tripartite motif-containing 26	125	B box-type.						DNA binding|zinc ion binding			ovary(2)|lung(1)	3						CCGGGACTCCCGGCACATCAC	0.657													16	24					0	0	1	0	0		T	30166507	T	T	30166507	3	4	66	1	0	0	0	0	1	0	0	0	16526	652	23	1	1273	1	TRIM26	6	30166507	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3066239	30166507	140948560	526	44602											
TRIM39	56658	broad.mit.edu	37	chr6	30314573	30314573	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaatgcagactcagggtTccagtaaccagtgatggatt	14	9	11	7	0	1	3	1	1	0	2	2	4	2	4	2	2	2	3	2	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:30314573T>C	uc010jsa.1	+	10	1505	c.1498T>C	c.(1498-1500)TCC>CCC	p.S500P	RPP21_uc003nqd.1_Missense_Mutation_p.S174P|RPP21_uc003nqe.1_Missense_Mutation_p.S151P|RPP21_uc003nqf.1_3'UTR	NM_172016	NP_742013	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 2	Error:Variant_position_missing_in_Q9HCM9_after_alignment					apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						GACTCAGGGTTCCAGTAACCA	0.428													38	68					0	0	1	0	0		C	30314573	C	C	30314573	3	2	66	1	0	0	0	0	1	0	0	0	16539	1783	62	3		3	TRIM39	6	30314573	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	148066	30314573	140800494	527	44603											
PPP1R10	5514	broad.mit.edu	37	chr6	30570045	30570045	+	Frame_Shift_Del	DEL	C	-	-																															cgtggggacgatgtcctccaCccccacccatgctaccacca																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:30570045delC	uc003nqn.1	-	19	2933	c.2381delG	c.(2380-2382)GGTfs	p.G794fs	PPP1R10_uc010jsc.1_Frame_Shift_Del_p.G448fs	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	794	Gly-rich.				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						ATGTCCTCCACCCCCACCCAT	0.667													66	133	---	---	---	---						.	-	30570045	-	-	30570045	7	5	66	1	0	1	0	1	0	0	0	0	12374	507	18	0	449	0	PPP1R10	6	30570045	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	255472	30570045	140545022	528	44604											
DDR1	780	broad.mit.edu	37	chr6	30864441	30864441	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgagaagccaggcgccccGcttctgcccccacctcccca	6	5	8	22	2	1	1	0	1	1	1	2	2	2	1	9	1	2	1	9	1	1	1	rs139724741	by1000genomes	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:30864441G>A	uc003nrr.2	+	14	1927	c.1668G>A	c.(1666-1668)CCG>CCA	p.P556P	DDR1_uc010jse.2_Silent_p.P519P|DDR1_uc003nrq.2_Silent_p.P519P|DDR1_uc003nrs.2_Silent_p.P556P|DDR1_uc003nrt.2_Silent_p.P519P|DDR1_uc011dms.1_Silent_p.P537P|DDR1_uc003nru.2_Silent_p.P519P|DDR1_uc003nrv.2_Silent_p.P556P|DDR1_uc003nrw.1_Intron|DDR1_uc003nry.1_Intron|DDR1_uc003nrx.1_Intron|DDR1_uc003nrz.1_5'Flank	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	556	Gly/Pro-rich.|Cytoplasmic (Potential).				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	CAGGCGCCCCGCTTCTGCCCC	0.617													14	39					0	0	1	0	0		A	30864441	A	A	30864441	2	1	66	1	0	0	0	0	0	0	0	1	4339	1074	38	1		1	DDR1	6	30864441	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	294396	30864441	140250626	529	44605											
DDR1	780	broad.mit.edu	37	chr6	30866732	30866732	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggaggtgctgatgctctGtagggcccagccctttgggc	4	10	17	10	0	1	1	0	1	1	0	1	2	1	2	2	4	3	3	2	4	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:30866732G>C	uc003nrr.2	+	18	2778	c.2519G>C	c.(2518-2520)TGT>TCT	p.C840S	DDR1_uc010jse.2_Missense_Mutation_p.C803S|DDR1_uc003nrq.2_Missense_Mutation_p.C803S|DDR1_uc003nrs.2_Missense_Mutation_p.C840S|DDR1_uc003nrt.2_Missense_Mutation_p.C803S|DDR1_uc011dms.1_Missense_Mutation_p.C821S|DDR1_uc003nru.2_Missense_Mutation_p.C803S|DDR1_uc003nrv.2_Missense_Mutation_p.C846S|DDR1_uc003nrz.1_Missense_Mutation_p.C165S	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	840	Cytoplasmic (Potential).|Protein kinase.				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	CTGATGCTCTGTAGGGCCCAG	0.622													30	78					0	0	1	0	0		C	30866732	C	C	30866732	3	2	66	1	0	0	0	0	1	0	0	0	4339	1377	48	5	2599	5	DDR1	6	30866732	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2291	30866732	140248335	530	44606											
GTF2H4	2968	broad.mit.edu	37	chr6	30881130	30881130	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	accgaccagatccggctctgGgagctggaaagggacagact	11	5	14	11	2	1	2	0	0	1	2	2	6	2	5	3	4	1	2	3	4	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:30881130G>A	uc003nsa.1	+	13	1389	c.1182G>A	c.(1180-1182)TGG>TGA	p.W394*	GTF2H4_uc003nsb.1_Nonsense_Mutation_p.W232*|GTF2H4_uc011dmw.1_3'UTR|VARS2_uc003nsc.1_5'Flank|VARS2_uc003nsd.2_5'Flank|VARS2_uc011dmx.1_5'Flank|VARS2_uc011dmy.1_5'Flank|VARS2_uc011dmz.1_5'Flank|VARS2_uc011dna.1_5'Flank|VARS2_uc011dnb.1_5'Flank|VARS2_uc011dnc.1_5'Flank	NM_001517	NP_001508	Q92759	TF2H4_HUMAN	general transcription factor IIH, polypeptide 4,	394					mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3						TCCGGCTCTGGGAGCTGGAAA	0.582								NER					15	49					0	0	1	0	0		A	30881130	A	A	30881130	4	1	66	1	0	0	0	0	0	1	0	0	6881	1241	43	4	1228	4	GTF2H4	6	30881130	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	14398	30881130	140233937	531	44607											
BAT1	7919	broad.mit.edu	37	chr6	31504396	31504396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtccccacgacgatatgcGggcagttcttcttcagcacc	8	9	10	14	3	3	0	1	0	2	0	4	3	4	0	3	1	2	3	3	1	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:31504396G>A	uc003ntt.2	-	5	1128	c.497C>T	c.(496-498)CCG>CTG	p.P166L	BAT1_uc003ntr.2_5'Flank|BAT1_uc003nts.2_Missense_Mutation_p.P166L|BAT1_uc011dnn.1_Missense_Mutation_p.P88L|BAT1_uc003ntu.2_Missense_Mutation_p.P166L|BAT1_uc003ntv.2_Missense_Mutation_p.P166L|BAT1_uc003ntw.2_Missense_Mutation_p.P166L|BAT1_uc003ntx.2_Missense_Mutation_p.P166L|BAT1_uc011dno.1_Missense_Mutation_p.P119L|BAT1_uc011dnp.1_Missense_Mutation_p.P88L|SNORD117_uc003nty.1_5'Flank|BAT1_uc011dnq.1_RNA	NM_004640	NP_004631	Q13838	DX39B_HUMAN	HLA-B associated transcript 1	166	Helicase ATP-binding.				intronless viral mRNA export from host nucleus|RNA secondary structure unwinding|spliceosome assembly	nuclear speck|spliceosomal complex|transcription export complex	ATP binding|ATP-dependent protein binding|ATP-dependent RNA helicase activity|identical protein binding|U4 snRNA binding|U6 snRNA binding				0						GACGATATGCGGGCAGTTCTT	0.468													6	81					0	0	1	0	0		A	31504396	A	A	31504396	3	1	66	1	0	0	0	0	1	0	0	0	1319	1116	39	1	817	1	BAT1	6	31504396	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	623266	31504396	139610671	532	44608											
BAT2	7916	broad.mit.edu	37	chr6	31602641	31602641	+	Frame_Shift_Del	DEL	C	-	-																															tcaagggggcagcagagggaCcccccaagaggcctggaggc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:31602641delC	uc003nvb.3	+	21	5296	c.5047delC	c.(5047-5049)CCCfs	p.P1683fs	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Frame_Shift_Del_p.P1683fs	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1683	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						AGCAGAGGGACCCCCCAAGAG	0.627													20	44	---	---	---	---						.	-	31602641	-	-	31602641	7	5	66	1	0	1	0	1	0	0	0	0	1320	507	18	0	5125	0	BAT2	6	31602641	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	98245	31602641	139512426	533	44609											
EHMT2	10919	broad.mit.edu	37	chr6	31852462	31852462	+	Frame_Shift_Del	DEL	G	-	-																															ctcccgagctgcgatgtgcaGgggggtgtccccatggtagt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:31852462delG	uc003nxz.1	-	20	2573	c.2563delC	c.(2563-2565)CTGfs	p.L855fs	EHMT2_uc003nxv.1_5'UTR|EHMT2_uc003nxw.1_5'UTR|EHMT2_uc003nxx.1_Frame_Shift_Del_p.L53fs|EHMT2_uc003nxy.1_Frame_Shift_Del_p.L653fs|EHMT2_uc011don.1_Frame_Shift_Del_p.L878fs|EHMT2_uc003nya.1_Frame_Shift_Del_p.L821fs	NM_006709	NP_006700	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	855	ANK 7.				DNA methylation|peptidyl-lysine dimethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			ovary(1)	1						GCGATGTGCAGGGGGGTGTCC	0.657													13	20	---	---	---	---						.	-	31852462	-	-	31852462	7	5	66	1	0	1	0	1	0	0	0	0	4990	991	35	0	1105	0	EHMT2	6	31852462	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	249821	31852462	139262605	534	44610											
CFB	629	broad.mit.edu	37	chr6	31915553	31915553	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacccctcaagaggtggcCgaagctttcctgtcttccct	7	10	9	15	1	2	1	1	0	1	1	4	3	4	1	5	2	1	1	5	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:31915553C>T	uc003nyj.3	+	5	971	c.693C>T	c.(691-693)GCC>GCT	p.A231A	CFB_uc011dor.1_Silent_p.A733A|CFB_uc003nyi.2_Silent_p.A231A	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	231					complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						AAGAGGTGGCCGAAGCTTTCC	0.552													60	148					0	0	1	0	0		T	31915553	T	T	31915553	2	4	66	1	0	0	0	0	0	0	0	1	3281	639	23	1		1	CFB	6	31915553	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	63091	31915553	139199514	535	44611											
CFB	629	broad.mit.edu	37	chr6	31918490	31918490	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaattcctgaattttaTgactatgacgttgccctgat	10	14	9	8	1	0	4	0	4	0	0	1	5	1	5	2	1	1	2	2	1	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:31918490T>C	uc003nyj.3	+	13	1997	c.1719T>C	c.(1717-1719)TAT>TAC	p.Y573Y	CFB_uc011dor.1_Silent_p.Y1075Y	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	573	Peptidase S1.				complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						CTGAATTTTATGACTATGACG	0.463													43	91					0	0	1	0	0		C	31918490	C	C	31918490	2	2	66	1	0	0	0	0	0	0	0	1	3281	1471	51	3		3	CFB	6	31918490	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2937	31918490	139196577	536	44612											
SKIV2L	6499	broad.mit.edu	37	chr6	31937383	31937383	+	Frame_Shift_Del	DEL	G	-	-																															tgagatgtgtcgctcactgcGgggggcagcccgcctggtag																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:31937383delG	uc003nyn.1	+	28	4021	c.3632delG	c.(3631-3633)CGGfs	p.R1211fs	SKIV2L_uc011dou.1_Frame_Shift_Del_p.R1053fs|SKIV2L_uc011dov.1_Frame_Shift_Del_p.R1018fs|STK19_uc003nyt.2_5'Flank|STK19_uc011dow.1_5'Flank|STK19_uc011dox.1_5'Flank|STK19_uc003nyv.2_5'Flank|STK19_uc003nyw.2_5'Flank|STK19_uc010jtn.1_5'Flank	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	1211						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						CGCTCACTGCGGGGGGCAGCC	0.657													31	60	---	---	---	---						.	-	31937383	-	-	31937383	7	5	66	1	0	1	0	1	0	0	0	0	14384	1116	39	0	3742	0	SKIV2L	6	31937383	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	18893	31937383	139177684	537	44613											
TNXB	7148	broad.mit.edu	37	chr6	32023712	32023712	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgtatttgcgcccgggctCcaggccccccacggtgacct	4	9	11	17	3	0	1	0	1	0	0	1	1	1	1	6	3	1	2	6	3	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:32023712C>A	uc003nzl.2	-	24	8585	c.8383G>T	c.(8383-8385)GAG>TAG	p.E2795*		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2853	Fibronectin type-III 20.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CGCCCGGGCTCCAGGCCCCCC	0.662													10	33					1.76689e-08	1.83874e-08	1	1	0		A	32023712	A	A	32023712	4	1	66	1	0	0	0	0	0	1	0	0	16371	864	30	5	6414	5	TNXB	6	32023712	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	86329	32023712	139091355	538	44614											
PSMB9	5698	broad.mit.edu	37	chr6	32823980	32823980	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgattcccgagtgtctgcAgggtgagtaaaagtgaagat	11	11	13	6	1	2	4	0	3	2	1	3	5	3	4	1	1	1	2	1	1	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:32823980A>G	uc003sga.2	+	3	165	c.90A>G	c.(88-90)GCA>GCG	p.A30A	TAP1_uc003ocg.2_5'Flank|PSMB9_uc011dqj.1_Silent_p.A42A	NM_148954	NP_683756	P28065	PSB9_HUMAN	proteasome beta 9 subunit isoform 2 proprotein	42					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0						GAGTGTCTGCAGGGTGAGTAA	0.418													4	33					0	0	1	0	0		G	32823980	G	G	32823980	2	3	66	1	0	0	0	0	0	0	0	1	12706	175	7	3		3	PSMB9	6	32823980	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	800268	32823980	138291087	539	44615											
WDR46	9277	broad.mit.edu	37	chr6	33255457	33255457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctttgttacccaatcaaggGcagccacatgacctcggcgc	9	9	9	14	2	2	1	1	1	1	0	3	1	2	1	3	2	2	2	3	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:33255457G>A	uc003ods.2	-	7	706	c.662C>T	c.(661-663)GCC>GTC	p.A221V	WDR46_uc011dra.1_Missense_Mutation_p.A167V|WDR46_uc010juo.1_RNA|PFDN6_uc003odt.1_5'Flank|PFDN6_uc010jup.1_5'Flank	NM_005452	NP_005443	O15213	WDR46_HUMAN	WD repeat domain 46 isoform 1	221	WD 1.										0						CCAATCAAGGGCAGCCACATG	0.587													15	29					0	0	1	0	0		A	33255457	A	A	33255457	3	1	66	1	0	0	0	0	1	0	0	0	17325	1203	42	2	1206	2	WDR46	6	33255457	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	431477	33255457	137859610	540	44616											
DAXX	1616	broad.mit.edu	37	chr6	33287482	33287482	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcatctatgctggagggggCcaggggttcttctgacagta	8	10	15	8	0	3	1	0	1	3	0	3	2	3	2	1	5	2	4	1	5	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:33287482C>G	uc003oec.2	-	6	1819	c.1615G>C	c.(1615-1617)GCC>CCC	p.A539P	ZBTB22_uc003oeb.2_5'Flank|ZBTB22_uc010juu.2_5'Flank|DAXX_uc011drd.1_Missense_Mutation_p.A464P|DAXX_uc011dre.1_Missense_Mutation_p.A551P|DAXX_uc003oed.2_Missense_Mutation_p.A539P	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	539	Asp/Glu-rich (acidic).|Interaction with MAP3K5.|Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						CTGGAGGGGGCCAGGGGTTCT	0.512			Mis|F|N		Pancreatic neuroendocrine tumors								24	75					0	0	1	0	0		G	33287482	G	G	33287482	3	3	66	1	0	0	0	0	1	0	0	0	4246	739	26	5	619	5	DAXX	6	33287482	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	32025	33287482	137827585	541	44617											
ITPR3	3710	broad.mit.edu	37	chr6	33638469	33638469	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgattccaacctcaacgcGtcccgagatgacaagaagaa	15	7	8	11	3	1	5	1	2	0	3	3	6	3	5	3	0	2	0	3	0	6	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:33638469G>A	uc011drk.1	+	20	2682	c.2463G>A	c.(2461-2463)GCG>GCA	p.A821A		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	821	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						ACCTCAACGCGTCCCGAGATG	0.587													15	50					0	0	1	0	0		A	33638469	A	A	33638469	2	1	66	1	0	0	0	0	0	0	0	1	7938	1132	40	1		1	ITPR3	6	33638469	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	350987	33638469	137476598	542	44618											
ITPR3	3710	broad.mit.edu	37	chr6	33657159	33657159	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctactatctgggcatcgggcCcacactcaacatcctgggtg	8	9	10	14	1	2	0	1	0	1	0	4	0	3	0	2	3	2	1	2	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:33657159C>A	uc011drk.1	+	50	7058	c.6839C>A	c.(6838-6840)CCC>CAC	p.P2280H	ITPR3_uc003oey.2_Missense_Mutation_p.P367H	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	2280	Helical; (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GGCATCGGGCCCACACTCAAC	0.597													14	36					1.49906e-05	1.53202e-05	1	1	0		A	33657159	A	A	33657159	3	1	66	1	0	0	0	0	1	0	0	0	7938	623	22	5	7037	5	ITPR3	6	33657159	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	18690	33657159	137457908	543	44619											
SCUBE3	222663	broad.mit.edu	37	chr6	35201059	35201059	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaagtttgtgctccatacCgacgggaagacatgcatcgg	11	9	11	10	3	1	1	1	0	0	1	3	3	2	2	2	2	3	3	2	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:35201059C>T	uc003okf.1	+	6	699	c.693C>T	c.(691-693)ACC>ACT	p.T231T	SCUBE3_uc003okg.1_Silent_p.T230T|SCUBE3_uc003okh.1_Silent_p.T102T	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	231	EGF-like 5.				protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						TGCTCCATACCGACGGGAAGA	0.602													8	24					0	0	1	0	0		T	35201059	T	T	35201059	2	4	66	1	0	0	0	0	0	0	0	1	13971	639	23	1		1	SCUBE3	6	35201059	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1543900	35201059	135914008	544	44620											
STK38	11329	broad.mit.edu	37	chr6	36465583	36465583	+	Frame_Shift_Del	DEL	A	-	-																															tgttcccagtcaacgccttcAaaaaaagagttactttttat																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:36465583delA	uc003omg.2	-	11	1734	c.1146delT	c.(1144-1146)TTTfs	p.F382fs	STK38_uc003omh.2_Frame_Shift_Del_p.F382fs|STK38_uc003omi.2_Frame_Shift_Del_p.F382fs	NM_007271	NP_009202	Q15208	STK38_HUMAN	serine/threonine kinase 38	382	Protein kinase.				intracellular protein kinase cascade|negative regulation of MAP kinase activity	cytoplasm|MLL5-L complex	ATP binding|magnesium ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6						CAACGCCTTCAAAAAAAGAGT	0.368													37	47	---	---	---	---						.	-	36465583	-	-	36465583	7	5	66	1	0	1	0	1	0	0	0	0	15328	127	5	0	263	0	STK38	6	36465583	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	1264524	36465583	134649484	545	44621											
CPNE5	57699	broad.mit.edu	37	chr6	36712850	36712850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatggcctccttggtctgcGccatgtccgagatgacccca	7	9	10	15	2	1	2	0	1	1	1	3	3	3	2	6	2	1	0	6	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:36712850G>A	uc003omr.1	-	18	1473	c.1406C>T	c.(1405-1407)GCG>GTG	p.A469V	CPNE5_uc003omp.1_Missense_Mutation_p.A177V|CPNE5_uc010jwn.1_Missense_Mutation_p.A119V|CPNE5_uc003omq.1_Missense_Mutation_p.A119V	NM_020939	NP_065990	Q9HCH3	CPNE5_HUMAN	copine V	469	VWFA.									skin(1)	1						CTTGGTCTGCGCCATGTCCGA	0.612													8	14					0	0	1	0	0		A	36712850	A	A	36712850	3	1	66	1	0	0	0	0	1	0	0	0	3818	1087	38	1	391	1	CPNE5	6	36712850	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	247267	36712850	134402217	546	44622											
FTSJD2	23070	broad.mit.edu	37	chr6	37443948	37443948	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagccgtttccaagcctagtCggcccgacatgaatcccatc	10	8	8	15	3	0	1	0	1	0	0	4	2	2	1	5	1	2	1	5	1	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:37443948C>T	uc003ons.2	+	20	2336	c.2083C>T	c.(2083-2085)CGG>TGG	p.R695W		NM_015050	NP_055865	Q8N1G2	MTR1_HUMAN	FtsJ methyltransferase domain containing 2	695					mRNA capping	cytoplasm|nucleus	mRNA (nucleoside-2'-O-)-methyltransferase activity|nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CAAGCCTAGTCGGCCCGACAT	0.552													25	69					0	0	1	0	0		T	37443948	T	T	37443948	3	4	66	1	0	0	0	0	1	0	0	0	6105	875	31	1	2157	1	FTSJD2	6	37443948	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	731098	37443948	133671119	547	44623											
KCNK17	89822	broad.mit.edu	37	chr6	39272337	39272337	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcatgagatgccccagtcgGttgagcaccacgaggttgag	9	8	14	10	2	0	3	0	3	0	1	1	5	0	3	3	2	3	4	3	2	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:39272337G>A	uc003ooo.2	-	3	587	c.447C>T	c.(445-447)AAC>AAT	p.N149N	KCNK17_uc003oop.2_Silent_p.N149N	NM_031460	NP_113648	Q96T54	KCNKH_HUMAN	potassium channel, subfamily K, member 17	149	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2						GCCCCAGTCGGTTGAGCACCA	0.642													32	81					0	0	1	0	0		A	39272337	A	A	39272337	2	1	66	1	0	0	0	0	0	0	0	1	8080	1252	44	4		4	KCNK17	6	39272337	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1828389	39272337	131842730	548	44624											
KCNK16	83795	broad.mit.edu	37	chr6	39285600	39285600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctcccatctttcaatggCggccagatgggcacgcagcc	7	8	11	15	2	2	1	1	0	1	1	4	1	4	1	4	3	1	2	4	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:39285600C>T	uc003ooq.2	-	3	471	c.457G>A	c.(457-459)GCC>ACC	p.A153T	KCNK16_uc003oor.3_Missense_Mutation_p.A153T|KCNK16_uc010jwy.2_Missense_Mutation_p.A153T|KCNK16_uc011dtz.1_Missense_Mutation_p.A153T	NM_032115	NP_115491	Q96T55	KCNKG_HUMAN	potassium channel, subfamily K, member 16	153	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity	p.A153T(1)		ovary(2)|skin(1)	3						CTTTCAATGGCGGCCAGATGG	0.552													7	5					0	0	1	0	0		T	39285600	T	T	39285600	3	4	66	1	0	0	0	0	1	0	0	0	8079	768	27	1	873	1	KCNK16	6	39285600	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	13263	39285600	131829467	549	44625											
PPP2R5D	5528	broad.mit.edu	37	chr6	42979003	42979003	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcggaagagttcctaacTgccagccaggaggctctctg	8	7	14	12	2	1	1	0	0	1	1	3	3	2	3	3	4	3	2	3	4	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:42979003T>C	uc003oth.2	+	16	1874	c.1788T>C	c.(1786-1788)ACT>ACC	p.T596T	MEA1_uc010jyc.1_Intron|PPP2R5D_uc003otg.2_Silent_p.T564T|PPP2R5D_uc010jyd.2_Silent_p.T490T|PPP2R5D_uc011dva.1_Silent_p.T445T|PPP2R5D_uc003oti.2_Silent_p.T445T|PPP2R5D_uc003otj.2_Silent_p.T427T|KLHDC3_uc003otl.2_5'Flank|KLHDC3_uc003otm.2_5'Flank|KLHDC3_uc010jyf.2_5'Flank|KLHDC3_uc003otn.2_5'Flank	NM_006245	NP_006236	Q14738	2A5D_HUMAN	delta isoform of regulatory subunit B56, protein	596					nervous system development|signal transduction	cytoplasm|nucleus|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			breast(1)|central_nervous_system(1)	2			Colorectal(64;0.00237)|all cancers(41;0.00411)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0664)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			AGTTCCTAACTGCCAGCCAGG	0.627													14	39					0	0	1	0	0		C	42979003	C	C	42979003	2	2	66	1	0	0	0	0	0	0	0	1	12417	1567	55	3		3	PPP2R5D	6	42979003	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3693403	42979003	128136064	550	44626											
CUL7	9820	broad.mit.edu	37	chr6	43008323	43008323	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctgatccagctgctggAgctggtagacgtggaactgg	7	10	15	9	1	0	2	0	1	0	1	2	4	2	4	2	4	4	5	2	4	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:43008323A>C	uc003otq.2	-	21	4271	c.3968T>G	c.(3967-3969)CTC>CGC	p.L1323R	CUL7_uc010jyg.2_Missense_Mutation_p.L602R|CUL7_uc011dvb.1_Missense_Mutation_p.L1407R|CUL7_uc010jyh.2_Missense_Mutation_p.L316R|KLC4_uc003otr.1_5'Flank	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	1323					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			CAGCTGCTGGAGCTGGTAGAC	0.562													11	156					0	0	1	0	0		C	43008323	C	C	43008323	3	2	66	1	0	0	0	0	1	0	0	0	4063	304	11	5	1152	5	CUL7	6	43008323	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	29320	43008323	128106744	551	44627											
CUL7	9820	broad.mit.edu	37	chr6	43010695	43010695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcacaaagtcatcatcccGccaggatgaggtcagaaaat	14	7	10	10	1	3	2	3	1	0	1	4	3	4	3	2	3	0	1	2	3	3	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:43010695G>A	uc003otq.2	-	19	3793	c.3490C>T	c.(3490-3492)CGG>TGG	p.R1164W	CUL7_uc010jyg.2_Missense_Mutation_p.R443W|CUL7_uc011dvb.1_Missense_Mutation_p.R1248W|CUL7_uc010jyh.2_Missense_Mutation_p.R157W|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	1164					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			TCATCATCCCGCCAGGATGAG	0.532													10	10					0	0	1	0	0		A	43010695	A	A	43010695	3	1	66	1	0	0	0	0	1	0	0	0	4063	1086	38	1	1638	1	CUL7	6	43010695	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2372	43010695	128104372	552	44628											
POLH	5429	broad.mit.edu	37	chr6	43573039	43573039	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaactagaggagagactgActaaagaccgaaatgatgta	18	6	12	5	1	0	5	0	2	0	3	0	9	0	7	1	2	1	1	1	2	6	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:43573039A>G	uc003ovq.3	+	9	1361	c.1057A>G	c.(1057-1059)ACT>GCT	p.T353A	POLH_uc010jyu.2_Missense_Mutation_p.T229A|POLH_uc011dvl.1_RNA|POLH_uc003ovr.3_Missense_Mutation_p.T254A	NM_006502	NP_006493	Q9Y253	POLH_HUMAN	DNA-directed DNA polymerase eta	353					DNA replication|DNA synthesis involved in DNA repair|regulation of DNA repair|response to UV-C	cytoplasm|nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			breast(2)	2	all_cancers(18;1.89e-05)|Lung NSC(15;0.00161)|all_lung(25;0.004)		all cancers(41;0.000753)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0826)|OV - Ovarian serous cystadenocarcinoma(102;0.167)			GGAGAGACTGACTAAAGACCG	0.378								DNA_polymerases_(catalytic_subunits)	Xeroderma_Pigmentosum				5	19					0	0	1	0	0		G	43573039	G	G	43573039	3	3	66	1	0	0	0	0	1	0	0	0	12221	275	10	3	1087	3	POLH	6	43573039	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	562344	43573039	127542028	553	44629											
AARS2	57505	broad.mit.edu	37	chr6	44275065	44275065	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggtcagccaccacgcggtAcgctgtgtctgtgcgcccct	4	9	13	15	4	2	0	1	0	1	0	2	0	2	0	4	2	3	2	4	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:44275065A>G	uc010jza.1	-	6	964	c.961T>C	c.(961-963)TAC>CAC	p.Y321H	SPATS1_uc003oxg.2_RNA|TMEM151B_uc003oxf.2_3'UTR	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	321					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	ACCACGCGGTACGCTGTGTCT	0.637													6	13					0	0	1	0	0		G	44275065	G	G	44275065	3	3	66	1	0	0	0	0	1	0	0	0	20	391	14	3	2064	3	AARS2	6	44275065	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	702026	44275065	126840002	554	44630											
GPR116	221395	broad.mit.edu	37	chr6	46849830	46849830	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaagcctggtaaaattccGtaacccttccggaactgaaa	13	10	8	10	2	0	2	0	2	0	0	2	3	2	3	4	2	3	2	4	2	6	5	rs140241968	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:46849830G>A	uc003oyo.3	-	7	916	c.627C>T	c.(625-627)TAC>TAT	p.Y209Y	GPR116_uc003oyp.3_Silent_p.Y209Y|GPR116_uc003oyq.3_Silent_p.Y209Y|GPR116_uc010jzi.1_5'Flank|GPR116_uc003oyr.2_Silent_p.Y209Y	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	209	SEA.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			GTAAAATTCCGTAACCCTTCC	0.368													10	154					0	0	1	0	0		A	46849830	A	A	46849830	2	1	66	1	0	0	0	0	0	0	0	1	6648	1140	40	1		1	GPR116	6	46849830	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2574765	46849830	124265237	555	44631											
CRISP1	167	broad.mit.edu	37	chr6	49825088	49825088	+	Frame_Shift_Del	DEL	A	-	-																															gtaagcaagcagcagcaaccAaaaacaagaggtgtttaatt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:49825088delA	uc003ozw.2	-	2	105	c.26delT	c.(25-27)TTGfs	p.L9fs	CRISP1_uc003ozx.2_Frame_Shift_Del_p.L9fs	NM_001131	NP_001122	P54107	CRIS1_HUMAN	acidic epididymal glycoprotein-like 1 isoform 1	9					fusion of sperm to egg plasma membrane	extracellular space					0	Lung NSC(77;0.0358)					AGCAGCAACCAAAAACAAGAG	0.294													26	50	---	---	---	---						.	-	49825088	-	-	49825088	7	5	66	1	0	1	0	1	0	0	0	0	3882	131	5	0	751	0	CRISP1	6	49825088	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	2975258	49825088	121289979	556	44632											
TFAP2D	83741	broad.mit.edu	37	chr6	50696967	50696967	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggataggcttggcttaaaCttaccagcaggaagacggaa	13	9	12	7	1	0	1	0	0	0	1	0	4	0	4	1	5	3	3	1	5	6	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:50696967C>G	uc003paf.2	+	5	1337	c.825C>G	c.(823-825)AAC>AAG	p.N275K	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	275							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					TTGGCTTAAACTTACCAGCAG	0.418													40	92					0	0	1	0	0		G	50696967	G	G	50696967	3	3	66	1	0	0	0	0	1	0	0	0	15815	564	20	5	843	5	TFAP2D	6	50696967	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	871879	50696967	120418100	557	44633											
TFAP2B	7021	broad.mit.edu	37	chr6	50811032	50811032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgttcttgaacaacaccaCcactaacaggcacacgtctg	13	8	7	13	1	2	1	0	1	2	0	2	2	2	1	2	1	3	2	2	1	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:50811032C>T	uc003pag.2	+	7	1476	c.1310C>T	c.(1309-1311)ACC>ATC	p.T437I		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	437				QLCKEFTDLLAQDRTPIGNSRPSPILEPGIQSCLTHFSLIT HGFGAPAICAALTALQNYLTEALKGMDKMFLNNTTTNRHTS GEGPGSKTGDKEEKHRK -> GNFVKNLRIYWRRTGHR (in Ref. 1; CAA71047).	nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					AACAACACCACCACTAACAGG	0.512													13	23					0	0	1	0	0		T	50811032	T	T	50811032	3	4	66	1	0	0	0	0	1	0	0	0	15813	507	18	4	1336	4	TFAP2B	6	50811032	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	114065	50811032	120304035	558	44634											
PAQR8	85315	broad.mit.edu	37	chr6	52268987	52268987	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccacatggcctgcctcTccttcttcttcctggctgcc	2	14	7	18	0	3	0	0	0	3	0	6	0	5	0	6	2	2	1	6	2	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:52268987T>G	uc003pao.3	+	2	1150	c.976T>G	c.(976-978)TCC>GCC	p.S326A		NM_133367	NP_588608	Q8TEZ7	MPRB_HUMAN	progestin and adipoQ receptor family member	326	Helical; Name=7; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding				0	Lung NSC(77;0.0875)					GGCCTGCCTCTCCTTCTTCTT	0.602													8	14					0	0	1	0	0		G	52268987	G	G	52268987	3	3	66	1	0	0	0	0	1	0	0	0	11460	1551	54	5	978	5	PAQR8	6	52268987	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1457955	52268987	118846080	559	44635											
ZNF451	26036	broad.mit.edu	37	chr6	57015648	57015649	+	Frame_Shift_Ins	INS	-	G	G																															aaaccaaggaacatttatttINSggggctttcaaggtacggtt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:57015648_57015649insG	uc003pdm.1	+	11	2964_2965	c.2740_2741insG	c.(2740-2742)TGGfs	p.W914fs	ZNF451_uc003pdl.2_Frame_Shift_Ins_p.W914fs|ZNF451_uc003pdn.1_Intron|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Frame_Shift_Ins_p.W914fs	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	914					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			AACATTTATTTGGGGCTTTCAA	0.361													53	115	---	---	---	---						.	G	57015649	G	G	57015648	7	5	66	1	0	1	1	0	0	0	0	0	17947	1812	63	0	2782	0	ZNF451	6	57015648	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	4746661	57015648	114099419	560	44636											
EYS	346007	broad.mit.edu	37	chr6	66205228	66205228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattcttccaccaattgccGtctacatgtttttccattta	8	17	3	13	1	2	0	0	0	2	0	4	0	4	0	5	0	2	1	5	0	3	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:66205228G>A	uc011dxu.1	-	4	614	c.76C>T	c.(76-78)CGG>TGG	p.R26W	EYS_uc003peq.2_Missense_Mutation_p.R26W|EYS_uc003per.1_Missense_Mutation_p.R26W|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	26					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						ACCAATTGCCGTCTACATGTT	0.398													34	71					0	0	1	0	0		A	66205228	A	A	66205228	3	1	66	1	0	0	0	0	1	0	0	0	5340	1144	40	1	9480	1	EYS	6	66205228	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	9189580	66205228	104909839	561	44637											
SMAP1	60682	broad.mit.edu	37	chr6	71566593	71566593	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaccagcagctgcaacccTgtctacagtaacatctgggg	10	8	10	13	0	2	0	0	0	2	0	2	0	2	0	2	2	7	5	2	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:71566593T>G	uc003pfr.2	+	9	1069	c.821T>G	c.(820-822)CTG>CGG	p.L274R	SMAP1_uc003pfs.2_Missense_Mutation_p.L247R|SMAP1_uc010kao.2_Missense_Mutation_p.L247R|SMAP1_uc010kap.2_Missense_Mutation_p.L264R	NM_001044305	NP_001037770	Q8IYB5	SMAP1_HUMAN	stromal membrane-associated GTPase-activating	274					regulation of ARF GTPase activity	plasma membrane	ARF GTPase activator activity|zinc ion binding				0						GCTGCAACCCTGTCTACAGTA	0.403													24	53					0	0	1	0	0		G	71566593	G	G	71566593	3	3	66	1	0	0	0	0	1	0	0	0	14791	1580	55	5	855	5	SMAP1	6	71566593	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	5361365	71566593	99548474	562	44638											
MTO1	25821	broad.mit.edu	37	chr6	74190493	74190493	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctttgctggacagatcAatggcaccactggttatgag	9	13	10	9	0	3	2	1	1	2	1	3	3	3	3	1	3	1	3	1	3	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:74190493A>G	uc003pgy.3	+	8	1424	c.1300A>G	c.(1300-1302)AAT>GAT	p.N434D	MTO1_uc010kav.2_Missense_Mutation_p.N409D|MTO1_uc003pgz.3_Missense_Mutation_p.N409D|MTO1_uc003pha.3_Missense_Mutation_p.N71D|MTO1_uc003phb.3_Missense_Mutation_p.N360D|MTO1_uc010kaw.1_RNA	NM_133645	NP_598400	Q9Y2Z2	MTO1_HUMAN	mitochondrial translation optimization 1 homolog	434					tRNA processing	mitochondrion	flavin adenine dinucleotide binding			ovary(3)|skin(2)|pancreas(1)	6						TGGACAGATCAATGGCACCAC	0.418													24	68					0	0	1	0	0		G	74190493	G	G	74190493	3	3	66	1	0	0	0	0	1	0	0	0	9971	130	5	3	1330	3	MTO1	6	74190493	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2623900	74190493	96924574	563	44639											
COL12A1	1303	broad.mit.edu	37	chr6	75875409	75875409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatgagaccctgtaaccgcGaaccattcctggagcagatg	11	7	10	13	2	0	2	0	1	0	2	1	5	1	3	5	1	3	2	5	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:75875409G>A	uc003phs.2	-	14	2963	c.2797C>T	c.(2797-2799)CGC>TGC	p.R933C	COL12A1_uc003pht.2_Intron	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	933	Fibronectin type-III 6.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CTGTAACCGCGAACCATTCCT	0.403													27	93					0	0	1	0	0		A	75875409	A	A	75875409	3	1	66	1	0	0	0	0	1	0	0	0	3672	1058	37	1	6606	1	COL12A1	6	75875409	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1684916	75875409	95239658	564	44640											
LCA5	167691	broad.mit.edu	37	chr6	80197138	80197138	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctctgatgtttttgcaaaCgaaggcacgtagctaccaaa	12	11	8	10	2	1	1	0	1	1	0	2	2	1	1	1	1	4	5	1	1	5	4	rs144098531		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:80197138C>T	uc003pix.2	-	8	2112	c.1677G>A	c.(1675-1677)TCG>TCA	p.S559S	LCA5_uc003piy.2_Silent_p.S559S	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	559					protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		TTTTTGCAAACGAAGGCACGT	0.383													20	70					0	0	1	0	0		T	80197138	T	T	80197138	2	4	66	1	0	0	0	0	0	0	0	1	8672	523	19	1		1	LCA5	6	80197138	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4321729	80197138	90917929	565	44641											
ELOVL4	6785	broad.mit.edu	37	chr6	80656932	80656932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcggtagaactctaccGtgtcgttgagtgccgtggac	7	10	13	11	4	1	2	0	1	1	1	3	3	2	3	3	2	4	2	3	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:80656932G>A	uc003pja.3	-	1	384	c.65C>T	c.(64-66)ACG>ATG	p.T22M	ELOVL4_uc011dyt.1_RNA	NM_022726	NP_073563	Q9GZR5	ELOV4_HUMAN	elongation of very long chain fatty acids-like	22					fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	G-protein coupled photoreceptor activity|protein binding|transferase activity, transferring acyl groups other than amino-acyl groups			ovary(1)|skin(1)	2		all_cancers(76;1.83e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.011)		BRCA - Breast invasive adenocarcinoma(397;0.0168)	Alpha-Linolenic Acid(DB00132)	GAACTCTACCGTGTCGTTGAG	0.667													3	10					0	0	1	0	0		A	80656932	A	A	80656932	3	1	66	1	0	0	0	0	1	0	0	0	5084	1145	40	1	903	1	ELOVL4	6	80656932	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	459794	80656932	90458135	566	44642											
DOPEY1	23033	broad.mit.edu	37	chr6	83877689	83877689	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagctcctgccgttcttcAatgtgctcagtcaagtcttc	7	13	8	13	1	5	0	3	0	2	0	7	0	6	0	2	0	4	4	2	0	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:83877689A>G	uc003pjs.1	+	39	7461	c.7201A>G	c.(7201-7203)AAT>GAT	p.N2401D	DOPEY1_uc011dyy.1_Missense_Mutation_p.N2412D|DOPEY1_uc010kbl.1_Missense_Mutation_p.N2392D|DOPEY1_uc003pjt.2_RNA|uc003pju.1_5'Flank	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	2401					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		GCCGTTCTTCAATGTGCTCAG	0.522													23	29					0	0	1	0	0		G	83877689	G	G	83877689	3	3	66	1	0	0	0	0	1	0	0	0	4713	130	5	3	7347	3	DOPEY1	6	83877689	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3220757	83877689	87237378	567	44643											
PRSS35	167681	broad.mit.edu	37	chr6	84233970	84233970	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgaggaggcatgggggaCgctaccttggactatgacta	10	7	15	9	2	0	1	0	1	0	0	0	5	0	4	1	5	1	3	1	5	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:84233970C>T	uc003pjz.2	+	2	973	c.810C>T	c.(808-810)GAC>GAT	p.D270D	PRSS35_uc010kbm.2_Silent_p.D270D	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	270	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		GCATGGGGGACGCTACCTTGG	0.542													9	47					0	0	1	0	0		T	84233970	T	T	84233970	2	4	66	1	0	0	0	0	0	0	0	1	12646	535	19	1		1	PRSS35	6	84233970	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	356281	84233970	86881097	568	44644											
SPACA1	81833	broad.mit.edu	37	chr6	88769196	88769196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cattatacttgtaaatgattCagcaatcctagaagtacgca	15	12	6	8	1	1	2	1	1	0	1	2	2	2	2	1	0	3	4	1	0	8	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:88769196C>T	uc003pmn.2	+	5	617	c.500C>T	c.(499-501)TCA>TTA	p.S167L		NM_030960	NP_112222	Q9HBV2	SACA1_HUMAN	sperm acrosome associated 1 precursor	167	Extracellular (Potential).					integral to membrane					0		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.11)		GTAAATGATTCAGCAATCCTA	0.318													12	28					0	0	1	0	0		T	88769196	T	T	88769196	3	4	66	1	0	0	0	0	1	0	0	0	14997	838	29	4	518	4	SPACA1	6	88769196	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4535226	88769196	82345871	569	44645											
MDN1	23195	broad.mit.edu	37	chr6	90383871	90383871	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtctaattttgtcgacgTcagctttcactgttttaatg	7	18	8	8	2	3	0	2	0	1	0	4	1	3	0	0	0	1	3	0	0	2	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:90383871T>C	uc003pnn.1	-	79	13315	c.13199A>G	c.(13198-13200)GAC>GGC	p.D4400G		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4400					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TTTGTCGACGTCAGCTTTCAC	0.433													7	28					0	0	1	0	0		C	90383871	C	C	90383871	3	2	66	1	0	0	0	0	1	0	0	0	9433	1667	58	3	3687	3	MDN1	6	90383871	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1614675	90383871	80731196	570	44646											
GRIK2	2898	broad.mit.edu	37	chr6	102074496	102074496	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaaaaccgtcacggttgtGtatgatgacagcactggtaa	12	10	12	7	2	1	2	1	2	0	0	1	3	1	3	1	3	2	4	1	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:102074496G>C	uc003pqp.3	+	3	774	c.525G>C	c.(523-525)GTG>GTC	p.V175V	GRIK2_uc003pqn.2_Silent_p.V175V|GRIK2_uc003pqo.3_Silent_p.V175V|GRIK2_uc010kcw.2_Silent_p.V175V	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	175	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	TCACGGTTGTGTATGATGACA	0.393													25	39					0	0	1	0	0		C	102074496	C	C	102074496	2	2	66	1	0	0	0	0	0	0	0	1	6790	1364	48	5		5	GRIK2	6	102074496	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	11690625	102074496	69040571	571	44647											
RNF217	154214	broad.mit.edu	37	chr6	125402611	125402611	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattcattgcacctctaattAtggttttgggattggcacta	9	17	8	7	0	2	0	1	0	1	0	2	1	2	1	1	3	1	3	1	3	4	9			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:125402611A>G	uc003pzs.2	+	7	975	c.637A>G	c.(637-639)ATG>GTG	p.M213V	RNF217_uc003pzr.2_Missense_Mutation_p.M270V|RNF217_uc003pzt.2_RNA	NM_152553	NP_689766	Q8TC41	RN217_HUMAN	ring finger protein 217	213	Helical; (Potential).				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)		ACCTCTAATTATGGTTTTGGG	0.368													14	29					0	0	1	0	0		G	125402611	G	G	125402611	3	3	66	1	0	0	0	0	1	0	0	0	13506	449	16	3	655	3	RNF217	6	125402611	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	23328115	125402611	45712456	572	44648											
FAM54A	113115	broad.mit.edu	37	chr6	136560840	136560840	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgaggaggaagtggtggAggaggaggaggagaaagcac	15	3	20	3	0	0	2	0	1	0	1	0	9	0	8	0	8	2	1	0	8	3	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:136560840A>T	uc010kgp.1	-	6	1023	c.633T>A	c.(631-633)CCT>CCA	p.P211P	FAM54A_uc003qgt.1_Silent_p.P211P|FAM54A_uc003qgu.1_Silent_p.P168P	NM_001099286	NP_001092756	Q6P444	FA54A_HUMAN	DUF729 domain containing 1	211	Pro-rich.									skin(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00228)|OV - Ovarian serous cystadenocarcinoma(155;0.00504)		gaagtggtggaggaggaggag	0.418													18	32					0	0	1	0	0		T	136560840	T	T	136560840	2	4	66	1	0	0	0	0	0	0	0	1	5596	291	11	5		5	FAM54A	6	136560840	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	11158229	136560840	34554227	573	44649											
RAB32	10981	broad.mit.edu	37	chr6	146865194	146865194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccatcggggtggacttcGccctcaaggtcctcaactgg	7	8	11	15	2	2	0	2	0	0	0	5	1	3	1	4	5	1	0	4	5	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:146865194G>A	uc003qln.1	+	1	367	c.187G>A	c.(187-189)GCC>ACC	p.A63T		NM_006834	NP_006825	Q13637	RAB32_HUMAN	RAB32, member RAS oncogene family	63					protein transport|small GTPase mediated signal transduction	mitochondrion	GTP binding				0		Ovarian(120;0.142)		OV - Ovarian serous cystadenocarcinoma(155;2.68e-09)|GBM - Glioblastoma multiforme(68;0.00608)		GGTGGACTTCGCCCTCAAGGT	0.652													8	22					0	0	1	0	0		A	146865194	A	A	146865194	3	1	66	1	0	0	0	0	1	0	0	0	12946	1087	38	1	189	1	RAB32	6	146865194	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	10304354	146865194	24249873	574	44650											
ZC3H12D	340152	broad.mit.edu	37	chr6	149777984	149777984	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccgtgcaccttgcgggaCggcgtgtacaccagcaccgc	6	7	13	15	5	0	0	0	0	0	0	0	1	0	1	4	2	5	3	4	2	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:149777984C>T	uc003qmn.1	-	3	568	c.498G>A	c.(496-498)CCG>CCA	p.P166P	PPIL4_uc010kic.2_Intron|ZC3H12D_uc003qmm.2_Silent_p.P166P|ZC3H12D_uc010kid.2_Silent_p.P166P	NM_207360	NP_997243	A2A288	ZC12D_HUMAN	zinc finger CCCH-type containing 12D	166						cytoplasm|nucleus	endonuclease activity|nucleic acid binding|zinc ion binding				0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.23e-11)|GBM - Glioblastoma multiforme(68;0.0921)		CCTTGCGGGACGGCGTGTACA	0.687													9	32					0	0	1	0	0		T	149777984	T	T	149777984	2	4	66	1	0	0	0	0	0	0	0	1	17589	523	19	1		1	ZC3H12D	6	149777984	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2912790	149777984	21337083	575	44651											
ZBTB2	57621	broad.mit.edu	37	chr6	151694619	151694619	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggtctgatggacaaacaAcatcttaaagtaattggaga	15	10	9	7	0	2	2	0	1	2	1	2	4	2	3	1	3	2	1	1	3	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:151694619A>G	uc003qoh.2	-	2	289	c.154T>C	c.(154-156)TTG>CTG	p.L52L		NM_020861	NP_065912	Q8N680	ZBTB2_HUMAN	zinc finger and BTB domain containing 2	52	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.63e-11)		TGGACAAACAACATCTTAAAG	0.433													35	55					0	0	1	0	0		G	151694619	G	G	151694619	2	3	66	1	0	0	0	0	0	0	0	1	17553	40	2	3		3	ZBTB2	6	151694619	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1916635	151694619	19420448	576	44652											
SYNE1	23345	broad.mit.edu	37	chr6	152826425	152826425	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggttggatctgcctttcActgtctccaagtccaccaat	7	13	7	14	1	3	0	1	0	2	0	6	1	4	1	4	2	1	1	4	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:152826425A>G	uc010kiw.2	-	9	1291	c.689T>C	c.(688-690)GTG>GCG	p.V230A	SYNE1_uc003qot.3_Missense_Mutation_p.V237A|SYNE1_uc003qou.3_Missense_Mutation_p.V230A|SYNE1_uc010kjb.1_Missense_Mutation_p.V230A|SYNE1_uc003qpa.1_Missense_Mutation_p.V230A	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	230	Actin-binding.|CH 2.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCTGCCTTTCACTGTCTCCAA	0.463										HNSCC(10;0.0054)			21	44					0	0	1	0	0		G	152826425	G	G	152826425	3	3	66	1	0	0	0	0	1	0	0	0	15470	159	6	3	26329	3	SYNE1	6	152826425	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1131806	152826425	18288642	577	44653											
VIP	7432	broad.mit.edu	37	chr6	153078261	153078261	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatctcccgactttccagaAgagttagaaaaatgatgaaa	17	9	8	7	1	1	5	0	2	1	3	3	7	2	5	2	0	0	1	2	0	6	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:153078261A>C	uc003qpe.2	+	6	670	c.498A>C	c.(496-498)GAA>GAC	p.E166D	VIP_uc003qpf.2_Missense_Mutation_p.E165D|VIP_uc010kjd.2_Missense_Mutation_p.E164D	NM_003381	NP_003372	P01282	VIP_HUMAN	vasoactive intestinal peptide isoform 1	166					body fluid secretion|G-protein coupled receptor protein signaling pathway|positive regulation of cell proliferation	extracellular region	neuropeptide hormone activity				0		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;4.5e-11)|BRCA - Breast invasive adenocarcinoma(81;0.144)		ACTTTCCAGAAGAGTTAGAAA	0.408													14	23					0	0	1	0	0		C	153078261	C	C	153078261	3	2	66	1	0	0	0	0	1	0	0	0	17193	69	3	5	516	5	VIP	6	153078261	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	251836	153078261	18036806	578	44654											
ARID1B	57492	broad.mit.edu	37	chr6	157511235	157511235	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gattcatccttcccgaaacgGaactccatgactccaaacgc	12	8	6	15	3	1	1	1	1	0	0	5	4	5	2	4	1	3	0	4	1	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:157511235G>T	uc003qqn.2	+	15	3851	c.3699G>T	c.(3697-3699)CGG>CGT	p.R1233R	ARID1B_uc003qqo.2_Silent_p.R1193R|ARID1B_uc003qqp.2_Silent_p.R1180R	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1238					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TCCCGAAACGGAACTCCATGA	0.517													45	100					6.4771e-29	7.03911e-29	1	1	0		T	157511235	T	T	157511235	2	4	66	1	0	0	0	0	0	0	0	1	914	1161	41	5		5	ARID1B	6	157511235	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4432974	157511235	13603832	579	44655											
TULP4	56995	broad.mit.edu	37	chr6	158900999	158900999	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccactgccttcatccccAccatcaaggtaaagccctcc	9	9	4	19	0	3	0	2	0	1	0	6	0	5	0	7	1	2	1	7	1	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:158900999A>G	uc003qrf.2	+	7	2600	c.1243A>G	c.(1243-1245)ACC>GCC	p.T415A	TULP4_uc011efo.1_Missense_Mutation_p.T415A|TULP4_uc003qrg.2_Missense_Mutation_p.T415A	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	415					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CTTCATCCCCACCATCAAGGT	0.632													14	38					0	0	1	0	0		G	158900999	G	G	158900999	3	3	66	1	0	0	0	0	1	0	0	0	16802	159	6	3	1269	3	TULP4	6	158900999	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1389764	158900999	12214068	580	44656											
FNDC1	84624	broad.mit.edu	37	chr6	159652977	159652977	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acccgaaaaacctgagccttCctcaccttctcccagagctc	10	8	5	18	1	2	2	1	1	1	1	5	3	3	2	6	0	3	1	6	0	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:159652977C>A	uc010kjv.2	+	11	1633	c.1433C>A	c.(1432-1434)TCC>TAC	p.S478Y	FNDC1_uc010kjw.1_Missense_Mutation_p.S363Y	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	478						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		CCTGAGCCTTCCTCACCTTCT	0.507													13	19					9.16793e-09	9.55196e-09	1	1	0		A	159652977	A	A	159652977	3	1	66	1	0	0	0	0	1	0	0	0	5982	855	30	5	1475	5	FNDC1	6	159652977	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	751978	159652977	11462090	581	44657											
SFT2D1	113402	broad.mit.edu	37	chr6	166738057	166738057	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaactgcaatatgcagaaTaacacagccagtcccttctt	15	9	6	11	0	1	2	0	0	1	2	2	2	2	2	2	0	5	2	2	0	6	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr6:166738057T>A	uc003qux.2	-	6	408	c.378A>T	c.(376-378)TTA>TTT	p.L126F		NM_145169	NP_660152	Q8WV19	SFT2A_HUMAN	SFT2 domain containing 1	126	Helical; Name=4; (Potential).				protein transport|vesicle-mediated transport	integral to membrane				central_nervous_system(1)	1		Breast(66;0.000148)|Prostate(117;0.109)|Ovarian(120;0.199)		OV - Ovarian serous cystadenocarcinoma(33;2.63e-19)|BRCA - Breast invasive adenocarcinoma(81;4.92e-06)|GBM - Glioblastoma multiforme(31;4.58e-05)		ATATGCAGAATAACACAGCCA	0.373													18	40					0	0	1	0	0		A	166738057	A	A	166738057	3	1	66	1	0	0	0	0	1	0	0	0	14210	1403	49	5	113	5	SFT2D1	6	166738057	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	7085080	166738057	4377010	582	44658											
C7orf50	84310	broad.mit.edu	37	chr7	1049694	1049694	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcctctttcttccgttccTttttcagcttcctttccagg	2	20	4	15	1	4	0	1	0	3	0	9	0	8	0	5	1	1	2	5	1	0	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:1049694T>C	uc003sju.2	-	3	285	c.215A>G	c.(214-216)AAG>AGG	p.K72R	C7orf50_uc003sjs.2_RNA|C7orf50_uc011jvt.1_Missense_Mutation_p.K72R|C7orf50_uc011jvu.1_Missense_Mutation_p.K72R	NM_032350	NP_115726	Q9BRJ6	CG050_HUMAN	hypothetical protein LOC84310	72							protein binding				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0216)|OV - Ovarian serous cystadenocarcinoma(56;1.3e-15)		CTTCCGTTCCTTTTTCAGCTT	0.647													20	20					0	0	1	0	0		C	1049694	C	C	1049694	3	2	66	1	0	0	0	0	1	0	0	0	2402	1609	56	3	381	3	C7orf50	7	1049694	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08		1049694	158088969	583	44659											
INTS1	26173	broad.mit.edu	37	chr7	1539921	1539921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttcagctgcttcacggccCcgcacagcacgccctcgatc	6	7	8	20	4	2	0	2	0	0	0	4	1	2	0	4	1	3	4	4	1	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:1539921C>T	uc003skn.2	-	4	532	c.431G>A	c.(430-432)GGG>GAG	p.G144E	INTS1_uc003skq.2_Missense_Mutation_p.G144E	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	144					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CTTCACGGCCCCGCACAGCAC	0.647													3	3					0	0	1	0	0		T	1539921	T	T	1539921	3	4	66	1	0	0	0	0	1	0	0	0	7791	623	22	4	6321	4	INTS1	7	1539921	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	490227	1539921	157598742	584	44660											
MAD1L1	8379	broad.mit.edu	37	chr7	2108877	2108877	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctccgggccagcgcctcGtgggtctcgcgcttcttcct	2	10	12	17	5	2	0	0	0	2	0	6	0	4	0	5	2	2	1	5	2	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:2108877G>A	uc003slh.1	-	12	1436	c.1170C>T	c.(1168-1170)CAC>CAT	p.H390H	MAD1L1_uc003sle.1_Silent_p.H119H|MAD1L1_uc003slf.1_Silent_p.H390H|MAD1L1_uc003slg.1_Silent_p.H390H|MAD1L1_uc010ksh.1_Silent_p.H390H|MAD1L1_uc003sli.1_Silent_p.H298H|MAD1L1_uc010ksi.1_Silent_p.H343H|MAD1L1_uc010ksj.2_Silent_p.H390H	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	390	Necessary for interaction with NEK2.|Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		CCAGCGCCTCGTGGGTCTCGC	0.657													35	34					0	0	1	0	0		A	2108877	A	A	2108877	2	1	66	1	0	0	0	0	0	0	0	1	9165	1136	40	1		1	MAD1L1	7	2108877	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	568956	2108877	157029786	585	44661											
ISPD	729920	broad.mit.edu	37	chr7	16445839	16445839	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccattgaaaattgacctGtggcgggtcactccagcttc	9	11	10	11	1	1	2	1	2	0	0	4	2	3	2	3	2	1	1	3	2	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:16445839G>A	uc010ktx.2	-	2	381	c.381C>T	c.(379-381)CAC>CAT	p.H127H	ISPD_uc010kty.2_Silent_p.H127H	NM_001101426	NP_001094896	A4D126	ISPD_HUMAN	notch1-induced protein isoform a	127					isoprenoid biosynthetic process		nucleotidyltransferase activity			ovary(1)	1						AAATTGACCTGTGGCGGGTCA	0.423										Multiple Myeloma(15;0.18)			14	67					0	0	1	0	0		A	16445839	A	A	16445839	2	1	66	1	0	0	0	0	0	0	0	1	7880	1368	48	4		4	ISPD	7	16445839	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	14336962	16445839	142692824	586	44662											
TWIST1	7291	broad.mit.edu	37	chr7	19156599	19156599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggtgcgctggcgctcccGcacgttggccatgacccgct	3	8	14	16	5	0	1	0	1	0	0	1	1	1	1	3	3	1	5	3	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:19156599G>A	uc003sum.2	-	1	697	c.346C>T	c.(346-348)CGG>TGG	p.R116W		NM_000474	NP_000465	Q15672	TWST1_HUMAN	twist	116	Basic motif.				aortic valve morphogenesis|cellular response to hypoxia|embryonic camera-type eye formation|embryonic cranial skeleton morphogenesis|eyelid development in camera-type eye|muscle organ development|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of histone phosphorylation|negative regulation of osteoblast differentiation|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of transcription from RNA polymerase II promoter|positive regulation of angiogenesis|positive regulation of cell motility|positive regulation of epithelial to mesenchymal transition|positive regulation of fatty acid beta-oxidation|positive regulation of monocyte chemotactic protein-1 production|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of tumor necrosis factor production|regulation of bone mineralization	nucleus	bHLH transcription factor binding|E-box binding|sequence-specific DNA binding RNA polymerase II transcription factor activity				0						TGGCGCTCCCGCACGTTGGCC	0.498									Saethre-Chotzen_syndrome				4	11					0	0	1	0	0		A	19156599	A	A	19156599	3	1	66	1	0	0	0	0	1	0	0	0	16809	1086	38	1	266	1	TWIST1	7	19156599	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2710760	19156599	139982064	587	44663											
SP8	221833	broad.mit.edu	37	chr7	20824269	20824269	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaggtgcgccttgaggtgCgaagtcttgccgtacacctt	6	10	13	12	4	1	1	0	1	1	0	1	2	1	1	3	2	4	2	3	2	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:20824269C>T	uc003suy.2	-	3	1354	c.1113G>A	c.(1111-1113)TCG>TCA	p.S371S	SP8_uc003suz.2_Silent_p.S389S	NM_198956	NP_945194	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor isoform 2	371					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						CCTTGAGGTGCGAAGTCTTGC	0.697													5	13					0	0	1	0	0		T	20824269	T	T	20824269	2	4	66	1	0	0	0	0	0	0	0	1	14995	755	27	1		1	SP8	7	20824269	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1667670	20824269	138314394	588	44664											
TAX1BP1	8887	broad.mit.edu	37	chr7	27824919	27824919	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaattgaaaaagaaacCgaattagacaggtatttctc	19	9	7	6	1	1	3	0	1	1	2	2	4	1	3	1	1	2	2	1	1	8	4	rs139970643	by1000genomes	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:27824919C>T	uc003szl.2	+	6	908	c.750C>T	c.(748-750)ACC>ACT	p.T250T	TAX1BP1_uc011jzo.1_Silent_p.T250T|TAX1BP1_uc003szk.2_Silent_p.T250T|TAX1BP1_uc011jzp.1_Silent_p.T93T	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	250	Potential.				anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)			AAAAAGAAACCGAATTAGACA	0.269													21	40					0	0	1	0	0		T	27824919	T	T	27824919	2	4	66	1	0	0	0	0	0	0	0	1	15619	639	23	1		1	TAX1BP1	7	27824919	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	7000650	27824919	131313744	589	44665											
NOD1	10392	broad.mit.edu	37	chr7	30485816	30485816	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagatacttccctccttcActtgttattttgttttttcc	5	20	5	11	1	1	1	1	0	0	1	4	2	4	1	3	0	1	2	3	0	2	10			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:30485816A>G	uc003tav.2	-	9	2917	c.2394T>C	c.(2392-2394)AGT>AGC	p.S798S		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	798	LRR 5.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						TCCCTCCTTCACTTGTTATTT	0.512													46	106					0	0	1	0	0		G	30485816	G	G	30485816	2	3	66	1	0	0	0	0	0	0	0	1	10535	156	6	3		3	NOD1	7	30485816	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2660897	30485816	128652847	590	44666											
GLI3	2737	broad.mit.edu	37	chr7	42007509	42007509	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagactgaccaccagggcTtggctgagatgtctgttggg	8	10	15	8	0	1	4	0	3	1	2	1	5	1	4	2	3	0	3	2	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:42007509T>A	uc011kbh.1	-	14	2207	c.2116A>T	c.(2116-2118)AGC>TGC	p.S706C	GLI3_uc011kbg.1_Missense_Mutation_p.S647C	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	706					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CCACCAGGGCTTGGCTGAGAT	0.517									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				25	69					0	0	1	0	0		A	42007509	A	A	42007509	3	1	66	1	0	0	0	0	1	0	0	0	6454	1609	56	5	2634	5	GLI3	7	42007509	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	11521693	42007509	117131154	591	44667											
AEBP1	165	broad.mit.edu	37	chr7	44148743	44148743	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcagccccaaggaggaGaccgacaagtgggcagtgga	13	2	16	10	1	0	1	0	0	0	1	0	6	0	3	3	4	2	2	3	4	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:44148743G>T	uc003tkb.2	+	8	1361	c.1056G>T	c.(1054-1056)GAG>GAT	p.E352D	AEBP1_uc003tkc.3_5'Flank|AEBP1_uc003tkd.2_5'Flank	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	352					cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCAAGGAGGAGACCGACAAGT	0.617													7	18					0.000673444	0.000680768	1	1	0		T	44148743	T	T	44148743	3	4	66	1	0	0	0	0	1	0	0	0	349	933	33	5	1086	5	AEBP1	7	44148743	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2141234	44148743	114989920	592	44668											
PURB	5814	broad.mit.edu	37	chr7	44924585	44924585	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctcacgcaccaagaattcGctcttgagcgcgcgccgcgg	7	8	11	15	7	2	2	1	1	2	1	4	2	2	2	2	1	1	2	2	1	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:44924585G>A	uc003tme.2	-	1	376	c.363C>T	c.(361-363)AGC>AGT	p.S121S		NM_033224	NP_150093	Q96QR8	PURB_HUMAN	purine-rich element binding protein B	121	By similarity.				regulation of myeloid cell differentiation	DNA replication factor A complex	mRNA binding|single-stranded DNA binding|transcription factor binding				0						CCAAGAATTCGCTCTTGAgcg	0.567													3	5					0	0	1	0	0		A	44924585	A	A	44924585	2	1	66	1	0	0	0	0	0	0	0	1	12853	1078	38	1		1	PURB	7	44924585	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	775842	44924585	114214078	593	44669											
CCM2	83605	broad.mit.edu	37	chr7	45115623	45115623	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcagcagcgacattgaggcGctgggctgcagcatggacca	10	6	14	11	2	1	1	1	1	0	0	1	3	1	2	1	3	4	5	1	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:45115623G>A	uc003tmo.2	+	10	1448	c.1302G>A	c.(1300-1302)GCG>GCA	p.A434A	CCM2_uc003tmn.2_RNA|CCM2_uc003tmp.2_Silent_p.A376A|CCM2_uc003tmq.2_RNA|CCM2_uc003tmr.2_Silent_p.A343A|CCM2_uc003tms.2_Silent_p.A455A	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2	434					endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						ACATTGAGGCGCTGGGCTGCA	0.632									Familial_Cerebral_Cavernous_Angioma				11	20					0	0	1	0	0		A	45115623	A	A	45115623	2	1	66	1	0	0	0	0	0	0	0	1	2911	1074	38	1		1	CCM2	7	45115623	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	191038	45115623	114023040	594	44670											
ABCA13	154664	broad.mit.edu	37	chr7	48412044	48412044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagctttctgccctacataGttctattggttctacataac	9	16	5	11	0	4	0	1	0	3	0	4	0	4	0	1	1	5	3	1	1	5	9			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:48412044G>A	uc003toq.2	+	33	11108	c.11083G>A	c.(11083-11085)GTT>ATT	p.V3695I	ABCA13_uc010kys.1_Missense_Mutation_p.V769I|ABCA13_uc003tos.1_Missense_Mutation_p.V521I	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3695	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GCCCTACATAGTTCTATTGGT	0.363													32	68					0	0	1	0	0		A	48412044	A	A	48412044	3	1	66	1	0	0	0	0	1	0	0	0	31	1029	36	4	11042	4	ABCA13	7	48412044	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3296421	48412044	110726619	595	44671											
ABCA13	154664	broad.mit.edu	37	chr7	48520733	48520733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggaggagtacttgctggCaccatctgaaaaaccaaggt	13	9	11	8	0	1	1	0	1	1	0	1	3	1	3	2	4	3	3	2	4	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:48520733C>T	uc003toq.2	+	46	13101	c.13076C>T	c.(13075-13077)GCA>GTA	p.A4359V	ABCA13_uc010kys.1_Missense_Mutation_p.A1434V|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Missense_Mutation_p.A89V	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4359					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TACTTGCTGGCACCATCTGAA	0.408													4	4					0	0	1	0	0		T	48520733	T	T	48520733	3	4	66	1	0	0	0	0	1	0	0	0	31	710	25	2	13087	2	ABCA13	7	48520733	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	108689	48520733	110617930	596	44672											
FIGNL1	63979	broad.mit.edu	37	chr7	50513345	50513345	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctcatcaatttcttgtggCcgatttgttgctcccaccac	6	14	7	14	1	3	0	2	0	1	0	4	1	4	0	4	1	1	2	4	1	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:50513345C>T	uc003tpc.2	-	4	2018	c.1641G>A	c.(1639-1641)CGG>CGA	p.R547R	FIGNL1_uc003tpb.2_Silent_p.R436R|FIGNL1_uc003tpd.2_Silent_p.R547R|FIGNL1_uc003tpe.2_Silent_p.R547R|FIGNL1_uc010kyy.2_Silent_p.R547R	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	547					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)				TTTCTTGTGGCCGATTTGTTG	0.398													43	107					0	0	1	0	0		T	50513345	T	T	50513345	2	4	66	1	0	0	0	0	0	0	0	1	5906	726	26	2		2	FIGNL1	7	50513345	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1992612	50513345	108625318	597	44673											
FIGNL1	63979	broad.mit.edu	37	chr7	50514882	50514882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgcgtaatatctgtgcaCggtatgcatctgccttcggt	8	13	11	9	3	2	0	0	0	2	0	3	1	2	0	1	2	4	4	1	2	4	4	rs146011869		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:50514882C>T	uc003tpc.2	-	4	481	c.104G>A	c.(103-105)CGT>CAT	p.R35H	FIGNL1_uc003tpb.2_Translation_Start_Site|FIGNL1_uc003tpd.2_Missense_Mutation_p.R35H|FIGNL1_uc003tpe.2_Missense_Mutation_p.R35H|FIGNL1_uc010kyy.2_Missense_Mutation_p.R35H	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	35					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)				TATCTGTGCACGGTATGCATC	0.448													24	40					0	0	1	0	0		T	50514882	T	T	50514882	3	4	66	1	0	0	0	0	1	0	0	0	5906	536	19	1	1924	1	FIGNL1	7	50514882	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1537	50514882	108623781	598	44674											
AUTS2	26053	broad.mit.edu	37	chr7	70229927	70229927	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccactgctctgcctccTccaccaccactgacatcagg	7	8	5	21	0	2	1	1	1	1	0	5	1	5	1	7	1	2	1	7	1	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:70229927T>A	uc003tvw.3	+	8	2147	c.1404T>A	c.(1402-1404)CCT>CCA	p.P468P	AUTS2_uc003tvx.3_Silent_p.P468P|AUTS2_uc011keg.1_5'Flank	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	468										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CTCTGCCTCCTCCACCACCAC	0.423													13	37					0	0	1	0	0		A	70229927	A	A	70229927	2	1	66	1	0	0	0	0	0	0	0	1	1226	1538	54	5		5	AUTS2	7	70229927	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	19715045	70229927	88908736	599	44675											
CLDN4	1364	broad.mit.edu	37	chr7	73246063	73246063	+	Frame_Shift_Del	DEL	G	-	-																															ccggcctgctgctccttggcGgggggctgctttgctgcaac																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:73246063delG	uc003tzi.3	+	1	871	c.532delG	c.(532-534)GGGfs	p.G178fs	RFC2_uc011kfa.1_Intron|CLDN4_uc003tzh.1_RNA	NM_001305	NP_001296	O14493	CLD4_HUMAN	claudin 4	178	Helical; (Potential).				calcium-independent cell-cell adhesion	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity|transmembrane receptor activity				0		Lung NSC(55;0.159)				GCTCCTTGGCGGGGGGCTGCT	0.642													19	38	---	---	---	---						.	-	73246063	-	-	73246063	7	5	66	1	0	1	0	1	0	0	0	0	3490	1116	39	0	534	0	CLDN4	7	73246063	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	3016136	73246063	85892600	600	44676											
GTF2IRD1	9569	broad.mit.edu	37	chr7	73933979	73933979	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctgcccccttgcccccagCgacctgggcctgagtcggcc	3	7	11	20	2	0	1	0	1	0	0	2	2	1	1	8	2	3	0	8	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:73933979C>T	uc003uaq.2	+	6	1239	c.846C>T	c.(844-846)AGC>AGT	p.S282S	GTF2IRD1_uc010lbq.2_Silent_p.S314S|GTF2IRD1_uc003uap.2_Silent_p.S282S|GTF2IRD1_uc003uar.1_Silent_p.S282S	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	282						nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						TTGCCCCCAGCGACCTGGGCC	0.632													10	45					0	0	1	0	0		T	73933979	T	T	73933979	2	4	66	1	0	0	0	0	0	0	0	1	6884	767	27	1		1	GTF2IRD1	7	73933979	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	687916	73933979	85204684	601	44677											
SPDYE5	442590	broad.mit.edu	37	chr7	75124536	75124536	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggaaaaggaagagggagtgGtcagatgaatctgcggagga	14	6	18	3	1	2	3	1	1	1	2	2	8	2	8	0	6	1	0	0	6	4	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:75124536G>A	uc011kfy.1	+	1	238	c.102G>A	c.(100-102)TGG>TGA	p.W34*		NM_001099435	NP_001092905	A6NIY4	SPDE5_HUMAN	speedy homolog E5	34											0						AGAGGGAGTGGTCAGATGAAT	0.582													20	35					0	0	1	0	0		A	75124536	A	A	75124536	4	1	66	1	0	0	0	0	0	1	0	0	15057	1270	44	4	104	4	SPDYE5	7	75124536	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1190557	75124536	84014127	602	44678											
STYXL1	51657	broad.mit.edu	37	chr7	75633097	75633097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgaagtgacacatgtggcGtaagaagggaagaatctggg	15	7	15	4	1	1	4	0	2	1	2	1	5	1	5	0	3	0	1	0	3	6	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:75633097G>A	uc003uej.3	-	7	849	c.676C>T	c.(676-678)CGC>TGC	p.R226C	STYXL1_uc003uef.2_Missense_Mutation_p.R32C|STYXL1_uc011kgf.1_Missense_Mutation_p.R88C|STYXL1_uc011kgg.1_Missense_Mutation_p.R78C|STYXL1_uc003ueh.2_Missense_Mutation_p.R88C|STYXL1_uc003uek.3_Missense_Mutation_p.R130C|STYXL1_uc003uel.2_Missense_Mutation_p.R226C|STYXL1_uc003uem.2_Missense_Mutation_p.R226C|STYXL1_uc010ldg.1_RNA|STYXL1_uc010ldh.1_Missense_Mutation_p.R226C|STYXL1_uc003uen.1_Missense_Mutation_p.R226C	NM_016086	NP_057170	Q9Y6J8	STYL1_HUMAN	map kinase phosphatase-like protein MK-STYX	226	Tyrosine-protein phosphatase.				intracellular signal transduction|protein dephosphorylation	intracellular	protein binding|protein tyrosine/serine/threonine phosphatase activity				0						CACATGTGGCGTAAGAAGGGA	0.557													15	29					0	0	1	0	0		A	75633097	A	A	75633097	3	1	66	1	0	0	0	0	1	0	0	0	15386	1145	40	1	277	1	STYXL1	7	75633097	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	508561	75633097	83505566	603	44679											
DTX2	113878	broad.mit.edu	37	chr7	76112200	76112200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtgtcaggccgctaccGccactccatgaccaacctcc	7	6	7	21	3	1	1	1	1	0	0	3	1	3	1	9	1	2	1	9	1	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:76112200G>A	uc003uff.3	+	5	1200	c.644G>A	c.(643-645)CGC>CAC	p.R215H	DTX2_uc011kgk.1_Missense_Mutation_p.R124H|DTX2_uc003ufg.3_Missense_Mutation_p.R215H|DTX2_uc003ufh.3_Missense_Mutation_p.R215H|DTX2_uc003ufj.3_Missense_Mutation_p.R215H	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	215					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						GGCCGCTACCGCCACTCCATG	0.657													33	97					0	0	1	0	0		A	76112200	A	A	76112200	3	1	66	1	0	0	0	0	1	0	0	0	4800	1087	38	1	650	1	DTX2	7	76112200	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	479103	76112200	83026463	604	44680											
RSBN1L	222194	broad.mit.edu	37	chr7	77379032	77379032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctcattaaaggagccacGagttcagaataacctcaaaa	16	9	7	9	1	3	1	3	0	1	1	4	3	3	2	2	1	2	1	2	1	6	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:77379032G>A	uc010ldt.1	+	3	1039	c.995G>A	c.(994-996)CGA>CAA	p.R332Q	RSBN1L_uc003ugm.2_Missense_Mutation_p.R114Q	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	332						nucleus				ovary(1)	1						AAGGAGCCACGAGTTCAGAAT	0.388													25	53					0	0	1	0	0		A	77379032	A	A	77379032	3	1	66	1	0	0	0	0	1	0	0	0	13722	1058	37	1	1005	1	RSBN1L	7	77379032	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1266832	77379032	81759631	605	44681											
GNAT3	346562	broad.mit.edu	37	chr7	80141143	80141143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctaatagtagcagctttaCggttcttgcatctcgctcag	9	13	8	11	2	3	0	1	0	2	0	4	0	3	0	1	1	4	6	1	1	4	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:80141143C>T	uc011kgu.1	-	1	100	c.100G>A	c.(100-102)GTA>ATA	p.V34I	CD36_uc003uhc.2_Intron	NM_001102386	NP_001095856	A8MTJ3	GNAT3_HUMAN	guanine nucleotide binding protein, alpha	34					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction|sensory perception of sweet taste|sensory perception of umami taste	cytoplasm|heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						AGCAGCTTTACGGTTCTTGCA	0.368													7	20					0	0	1	0	0		T	80141143	T	T	80141143	3	4	66	1	0	0	0	0	1	0	0	0	6528	536	19	1	994	1	GNAT3	7	80141143	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2762111	80141143	78997520	606	44682											
CACNA2D1	781	broad.mit.edu	37	chr7	81591314	81591314	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcttggacagggaggcCgtgaagtcatcatcctccat	8	10	11	12	1	3	1	2	1	1	0	5	3	5	3	3	3	1	1	3	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:81591314C>T	uc003uhr.1	-	36	3118	c.2862G>A	c.(2860-2862)ACG>ACA	p.T954T	CACNA2D1_uc011kgy.1_Silent_p.T166T	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	966	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	ACAGGGAGGCCGTGAAGTCAT	0.478													16	43					0	0	1	0	0		T	81591314	T	T	81591314	2	4	66	1	0	0	0	0	0	0	0	1	2551	639	23	1		1	CACNA2D1	7	81591314	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1450171	81591314	77547349	607	44683											
SEMA3A	10371	broad.mit.edu	37	chr7	83634741	83634741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaattgataatttacatccGttttgatcactattgggcga	12	16	7	6	2	1	2	1	2	0	0	2	3	2	2	1	1	1	1	1	1	5	9			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:83634741G>A	uc003uhz.2	-	11	1589	c.1274C>T	c.(1273-1275)ACG>ATG	p.T425M		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	425	Sema.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						ATTTACATCCGTTTTGATCAC	0.368													28	71					0	0	1	0	0		A	83634741	A	A	83634741	3	1	66	1	0	0	0	0	1	0	0	0	14049	1145	40	1	1069	1	SEMA3A	7	83634741	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2043427	83634741	75503922	608	44684											
ABCB4	5244	broad.mit.edu	37	chr7	87032525	87032525	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggttgtctgatgagggctcGggcaatagcaatcctctgtt	8	12	13	8	1	2	2	0	2	2	0	4	2	3	2	1	3	1	5	1	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:87032525G>A	uc003uiv.1	-	27	3656	c.3580C>T	c.(3580-3582)CGA>TGA	p.R1194*	ABCB4_uc003uiw.1_Nonsense_Mutation_p.R1187*|ABCB4_uc003uix.1_Nonsense_Mutation_p.R1140*	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	1194	ABC transporter 2.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					ATGAGGGCTCGGGCAATAGCA	0.438													44	124					0	0	1	0	0		A	87032525	A	A	87032525	4	1	66	1	0	0	0	0	0	1	0	0	43	1124	39	1	288	1	ABCB4	7	87032525	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3397784	87032525	72106138	609	44685											
ABCB1	5243	broad.mit.edu	37	chr7	87160650	87160650	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcttatctttcagtgctTgtccagacaacattttcatt	8	19	4	10	0	4	1	2	0	2	1	5	1	5	1	1	0	2	1	1	0	2	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:87160650T>C	uc003uiz.1	-	22	3063	c.2645A>G	c.(2644-2646)CAA>CGA	p.Q882R	ABCB1_uc011khc.1_Missense_Mutation_p.Q818R	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	882	ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	TTTCAGTGCTTGTCCAGACAA	0.343													40	94					0	0	1	0	0		C	87160650	C	C	87160650	3	2	66	1	0	0	0	0	1	0	0	0	40	1812	63	3	1229	3	ABCB1	7	87160650	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	128125	87160650	71978013	610	44686											
AKAP9	10142	broad.mit.edu	37	chr7	91670110	91670110	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagaacatcaacaggcaacGgaattgttaaggcaagcaca	18	5	9	9	1	1	1	1	0	0	1	1	2	1	2	0	3	4	4	0	3	7	2	rs141237587		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:91670110G>A	uc003ulg.2	+	18	5040	c.4815G>A	c.(4813-4815)ACG>ACA	p.T1605T	AKAP9_uc003ule.2_Silent_p.T1617T|AKAP9_uc003ulf.2_Silent_p.T1605T|AKAP9_uc003uli.2_Silent_p.T1230T	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1617	Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AACAGGCAACGGAATTGTTAA	0.418			T	BRAF	papillary thyroid								13	24					0	0	1	0	0		A	91670110	A	A	91670110	2	1	66	1	0	0	0	0	0	0	0	1	459	1103	39	1		1	AKAP9	7	91670110	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4509460	91670110	67468553	611	44687											
PEX1	5189	broad.mit.edu	37	chr7	92146932	92146932	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaacagaggttgctgacgcGttatatatactaggaggttg	13	11	12	5	2	0	2	0	1	0	1	0	3	0	3	0	3	3	4	0	3	7	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:92146932G>A	uc003uly.2	-	5	993	c.897C>T	c.(895-897)AAC>AAT	p.N299N	PEX1_uc011khr.1_Silent_p.N91N|PEX1_uc010ley.2_Silent_p.N299N|PEX1_uc011khs.1_Intron|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	299					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			TTGCTGACGCGTTATATATAC	0.368													17	54					0	0	1	0	0		A	92146932	A	A	92146932	2	1	66	1	0	0	0	0	0	0	0	1	11754	1136	40	1		1	PEX1	7	92146932	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	476822	92146932	66991731	612	44688											
C7orf64	84060	broad.mit.edu	37	chr7	92158877	92158877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaattagttgagcgattcGctttatatggtgcaattgaa	12	14	11	4	2	0	2	0	2	0	0	1	4	0	3	0	2	2	3	0	2	6	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:92158877G>A	uc003ulz.2	+	2	240	c.199G>A	c.(199-201)GCT>ACT	p.A67T	PEX1_uc003uly.2_5'Flank|PEX1_uc011khr.1_5'Flank|PEX1_uc010ley.2_5'Flank|PEX1_uc011khs.1_5'Flank|C7orf64_uc011khu.1_Missense_Mutation_p.A67T|C7orf64_uc003uma.2_Missense_Mutation_p.A67T	NM_032120	NP_115496	Q5RL73	CG064_HUMAN	hypothetical protein LOC84060	67							nucleotide binding			ovary(2)	2						TGAGCGATTCGCTTTATATGG	0.348													21	53					0	0	1	0	0		A	92158877	A	A	92158877	3	1	66	1	0	0	0	0	1	0	0	0	2413	1087	38	1	205	1	C7orf64	7	92158877	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	11945	92158877	66979786	613	44689											
CALCR	799	broad.mit.edu	37	chr7	93072952	93072952	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccaccgcaagcgttgctTctcagtaaacacagccacga	13	7	7	14	3	1	0	1	0	1	0	2	1	1	0	3	0	5	4	3	0	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:93072952T>A	uc003umv.1	-	10	1129	c.868A>T	c.(868-870)AAG>TAG	p.K290*	CALCR_uc011kia.1_Nonsense_Mutation_p.K70*|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Nonsense_Mutation_p.K256*|CALCR_uc003umw.2_Nonsense_Mutation_p.K256*	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	272	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	AAGCGTTGCTTCTCAGTAAAC	0.443													25	74					0	0	1	0	0		A	93072952	A	A	93072952	4	1	66	1	0	0	0	0	0	1	0	0	2582	1792	62	5	682	5	CALCR	7	93072952	Nonsense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	914075	93072952	66065711	614	44690											
SGCE	8910	broad.mit.edu	37	chr7	94257549	94257549	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccccacattttcagctgTtggggacccatataggactc	8	12	8	13	0	1	0	1	0	0	0	3	2	2	2	3	3	1	2	3	3	2	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:94257549T>C	uc003unl.2	-	3	466	c.355A>G	c.(355-357)ACA>GCA	p.T119A	SGCE_uc003unm.2_Missense_Mutation_p.T119A|SGCE_uc003unn.2_Missense_Mutation_p.T119A|SGCE_uc011kic.1_Missense_Mutation_p.T78A|SGCE_uc011kid.1_Missense_Mutation_p.T155A	NM_003919	NP_003910	O43556	SGCE_HUMAN	sarcoglycan, epsilon isoform 2	119	Extracellular (Potential).				cell-matrix adhesion|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			TTTTCAGCTGTTGGGGACCCA	0.338													4	20					0	0	1	0	0		C	94257549	C	C	94257549	3	2	66	1	0	0	0	0	1	0	0	0	14227	1725	60	3	1146	3	SGCE	7	94257549	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1184597	94257549	64881114	615	44691											
OCM2	4951	broad.mit.edu	37	chr7	97616448	97616448	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagttctctggcaccactcTcaaacttctggaggaaaaac	12	10	7	12	0	4	0	2	0	3	0	6	2	4	2	1	3	2	2	1	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:97616448T>C	uc003upc.2	-	3	215	c.215A>G	c.(214-216)GAG>GGG	p.E72G		NM_006188	NP_006179	P0CE71	OCM2_HUMAN	oncomodulin-like	72	EF-hand 1.						calcium ion binding				0						GGCACCACTCTCAAACTTCTG	0.448													15	16					0	0	1	0	0		C	97616448	C	C	97616448	3	2	66	1	0	0	0	0	1	0	0	0	10841	1551	54	3	122	3	OCM2	7	97616448	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3358899	97616448	61522215	616	44692											
ZNF498	221785	broad.mit.edu	37	chr7	99226971	99226971	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggccctgcaggcagtgcGcctgggcttcctcctcccca	3	8	13	17	1	0	0	0	0	0	0	3	0	3	0	6	4	2	3	6	4	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:99226971G>A	uc003url.1	+	8	1290	c.963G>A	c.(961-963)GCG>GCA	p.A321A	ZNF498_uc003urm.1_Silent_p.A157A|ZNF498_uc010lge.1_Silent_p.A157A|ZNF498_uc003urn.2_Intron|ZNF498_uc010lgf.1_Silent_p.A249A|ZNF498_uc003uro.1_Silent_p.A105A	NM_145115	NP_660090	Q6NSZ9	ZN498_HUMAN	zinc finger and SCAN domain containing 25	321					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_epithelial(64;1.95e-08)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					CAGGCAGTGCGCCTGGGCTTC	0.637													23	47					0	0	1	0	0		A	99226971	A	A	99226971	2	1	66	1	0	0	0	0	0	0	0	1	17972	1074	38	1		1	ZNF498	7	99226971	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1610523	99226971	59911692	617	44693											
AZGP1	563	broad.mit.edu	37	chr7	99565777	99565777	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggagcaggaagcagtgagtaCcttgccggtccaggatattt	10	9	14	8	1	0	1	0	1	0	0	1	4	1	4	3	4	4	3	3	4	3	4	rs112067579		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:99565777C>T	uc003ush.2	-	3	657	c.613_splice	c.e3+1	p.D205_splice		NM_001185	NP_001176	P25311	ZA2G_HUMAN	alpha-2-glycoprotein 1, zinc						antigen processing and presentation|cell adhesion|immune response|lipid catabolic process|negative regulation of cell proliferation	extracellular region|MHC class I protein complex	fatty acid binding|protein transmembrane transporter activity|ribonuclease activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)					GCAGTGAGTACCTTGCCGGTC	0.542													5	70					0	0	1	0	0		T	99565777	T	T	99565777	5	4	66	1	0	0	0	0	0	0	1	0	1240	521	18	4	290	4	AZGP1	7	99565777	Splice_Site	SNP	C	TCGA-BR-8361-01A-11D-2340-08	338806	99565777	59572886	618	44694											
MCM7	4176	broad.mit.edu	37	chr7	99695354	99695354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattgaagctgccagcttttCgtagaaatcctcctctgtag	9	13	9	10	1	1	2	0	1	1	1	4	3	3	2	3	0	3	4	3	0	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:99695354C>T	uc003usw.1	-	9	1510	c.1000G>A	c.(1000-1002)GAA>AAA	p.E334K	MCM7_uc003usv.1_Missense_Mutation_p.E158K|MCM7_uc003usx.1_Missense_Mutation_p.E158K	NM_005916	NP_005907	P33993	MCM7_HUMAN	minichromosome maintenance complex component 7	334	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of phosphorylation|response to DNA damage stimulus|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)				Atorvastatin(DB01076)	GCCAGCTTTTCGTAGAAATCC	0.507													56	217					0	0	1	0	0		T	99695354	T	T	99695354	3	4	66	1	0	0	0	0	1	0	0	0	9410	893	31	1	1187	1	MCM7	7	99695354	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	129577	99695354	59443309	619	44695											
GNB2	2783	broad.mit.edu	37	chr7	100274189	100274189	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatgtggggactcaacacTgacccaggtgagggcacttg	10	7	14	10	0	1	2	1	2	0	0	1	3	1	3	1	4	2	2	1	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:100274189T>C	uc003uwb.2	+	3	362	c.89T>C	c.(88-90)CTG>CCG	p.L30P	GNB2_uc003uwc.2_5'UTR|GNB2_uc010lhd.2_5'UTR|GNB2_uc010lhe.2_Intron|GNB2_uc003uwd.2_Intron|GNB2_uc010lhf.2_Intron|GNB2_uc003uwe.2_Missense_Mutation_p.L30P|GNB2_uc003uwf.2_5'Flank	NM_005273	NP_005264	P62879	GBB2_HUMAN	guanine nucleotide-binding protein, beta-2	30					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	perinuclear region of cytoplasm|plasma membrane	GTPase activity|GTPase binding|signal transducer activity			ovary(2)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)	Ovarian(593;0.238)				GACTCAACACTGACCCAGGTG	0.602													16	58					0	0	1	0	0		C	100274189	C	C	100274189	3	2	66	1	0	0	0	0	1	0	0	0	6532	1580	55	3	95	3	GNB2	7	100274189	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	578835	100274189	58864474	620	44696											
GNB2	2783	broad.mit.edu	37	chr7	100276158	100276158	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacctctgttgccttctcGcgcagcggacggctgctgct	4	11	11	15	4	3	0	1	0	2	0	4	1	3	1	2	2	4	5	2	2	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:100276158G>A	uc003uwb.2	+	9	1110	c.837G>A	c.(835-837)TCG>TCA	p.S279S	GNB2_uc003uwc.2_Silent_p.S235S|GNB2_uc010lhd.2_Silent_p.S235S|GNB2_uc010lhe.2_Silent_p.S235S|GNB2_uc003uwd.2_Silent_p.S179S|GNB2_uc010lhf.2_Silent_p.S179S|GNB2_uc003uwe.2_Silent_p.S279S|GNB2_uc003uwf.2_Silent_p.S179S	NM_005273	NP_005264	P62879	GBB2_HUMAN	guanine nucleotide-binding protein, beta-2	279	WD 6.				cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	perinuclear region of cytoplasm|plasma membrane	GTPase activity|GTPase binding|signal transducer activity			ovary(2)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)	Ovarian(593;0.238)				TTGCCTTCTCGCGCAGCGGAC	0.622													19	12					0	0	1	0	0		A	100276158	A	A	100276158	2	1	66	1	0	0	0	0	0	0	0	1	6532	1074	38	1		1	GNB2	7	100276158	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1969	100276158	58862505	621	44697											
GIGYF1	64599	broad.mit.edu	37	chr7	100281714	100281714	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctgctgtggcggcggCggtggtggcggtgtcaggtc	1	10	21	9	4	1	0	1	0	0	0	2	0	1	0	0	8	3	3	0	8	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:100281714C>T	uc003uwg.1	-	15	2806	c.1797G>A	c.(1795-1797)CCG>CCA	p.P599P		NM_022574	NP_072096	O75420	PERQ1_HUMAN	PERQ amino acid rich, with GYF domain 1	599	Poly-Pro.|Gln-rich.									large_intestine(1)|central_nervous_system(1)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					GTGGCGGCGGCGGTGGTGGCG	0.672													6	17					0	0	1	0	0		T	100281714	T	T	100281714	2	4	66	1	0	0	0	0	0	0	0	1	6392	755	27	1		1	GIGYF1	7	100281714	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	5556	100281714	58856949	622	44698											
GIGYF1	64599	broad.mit.edu	37	chr7	100283065	100283065	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggggatggggagctggacTtctcctcctgaggaggcagt	6	9	18	8	0	1	1	0	1	1	0	3	5	2	5	2	7	1	2	2	7	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:100283065T>C	uc003uwg.1	-	10	2103	c.1094A>G	c.(1093-1095)AAG>AGG	p.K365R		NM_022574	NP_072096	O75420	PERQ1_HUMAN	PERQ amino acid rich, with GYF domain 1	365										large_intestine(1)|central_nervous_system(1)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					GGAGCTGGACTTCTCCTCCTG	0.632													6	25					0	0	1	0	0		C	100283065	C	C	100283065	3	2	66	1	0	0	0	0	1	0	0	0	6392	1609	56	3	2073	3	GIGYF1	7	100283065	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1351	100283065	58855598	623	44699											
CUX1	1523	broad.mit.edu	37	chr7	101845106	101845106	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccgaggaggccaaggcCgaagaaacgggcggcgggaa	11	2	17	11	5	0	1	0	0	0	1	2	5	2	3	4	6	1	0	4	6	4	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:101845106C>T	uc003uyx.3	+	18	2567	c.2529C>T	c.(2527-2529)GCC>GCT	p.A843A	CUX1_uc003uys.3_Silent_p.A854A|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	843					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						AGGCCAAGGCCGAAGAAACGG	0.677													14	18					0	0	1	0	0		T	101845106	T	T	101845106	2	4	66	1	0	0	0	0	0	0	0	1	4067	639	23	1		1	CUX1	7	101845106	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1562041	101845106	57293557	624	44700											
CUX1	1523	broad.mit.edu	37	chr7	101847780	101847780	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccggatgcagctctggcTgaacggcgagctaggccagg	8	6	15	12	3	1	1	0	1	1	0	2	3	2	2	2	5	4	4	2	5	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:101847780T>C	uc003uyx.3	+	19	3055	c.3017T>C	c.(3016-3018)CTG>CCG	p.L1006P	CUX1_uc003uys.3_Missense_Mutation_p.L1017P|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	1006	CUT 2.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						CAGCTCTGGCTGAACGGCGAG	0.652													17	58					0	0	1	0	0		C	101847780	C	C	101847780	3	2	66	1	0	0	0	0	1	0	0	0	4067	1580	55	3	3158	3	CUX1	7	101847780	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2674	101847780	57290883	625	44701											
HBP1	26959	broad.mit.edu	37	chr7	106829851	106829851	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaagatggtttacttaccGtagagtgtaagctggaccac	12	11	11	7	1	0	3	0	0	0	3	0	4	0	4	2	2	3	4	2	2	6	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:106829851G>C	uc003vdy.2	+	7	1066	c.880G>C	c.(880-882)GTA>CTA	p.V294L	HBP1_uc011klv.1_Missense_Mutation_p.V304L|HBP1_uc003vdz.2_Missense_Mutation_p.V294L|HBP1_uc003vea.2_Missense_Mutation_p.V294L|HBP1_uc003veb.1_Missense_Mutation_p.V294L	NM_012257	NP_036389	O60381	HBP1_HUMAN	HMG-box transcription factor 1	294	AXH.				cell cycle arrest|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	DNA binding			skin(1)	1						TTTACTTACCGTAGAGTGTAA	0.353													19	60					0	0	1	0	0		C	106829851	C	C	106829851	3	2	66	1	0	0	0	0	1	0	0	0	7001	1145	40	5	902	5	HBP1	7	106829851	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4982071	106829851	52308812	626	44702											
LRRN3	54674	broad.mit.edu	37	chr7	110763255	110763255	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtccgaactgagcaacttaCaagaactctatattaatcac	15	11	5	10	1	2	2	1	1	1	1	3	3	3	2	1	0	5	1	1	0	8	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:110763255C>T	uc003vft.3	+	4	1473	c.427C>T	c.(427-429)CAA>TAA	p.Q143*	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Nonsense_Mutation_p.Q143*|LRRN3_uc003vfs.3_Nonsense_Mutation_p.Q143*	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	143	LRR 4.|Extracellular (Potential).					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		GAGCAACTTACAAGAACTCTA	0.358													24	44					0	0	1	0	0		T	110763255	T	T	110763255	4	4	66	1	0	0	0	0	0	1	0	0	9054	479	17	4	429	4	LRRN3	7	110763255	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3933404	110763255	48375408	627	44703											
LRRN3	54674	broad.mit.edu	37	chr7	110763755	110763755	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctgtggataacctgccAgatttaagaaaaatagaagc	15	10	9	7	0	0	3	0	0	0	3	0	4	0	4	2	1	4	1	2	1	6	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:110763755A>G	uc003vft.3	+	4	1973	c.927A>G	c.(925-927)CCA>CCG	p.P309P	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Silent_p.P309P|LRRN3_uc003vfs.3_Silent_p.P309P	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	309	Extracellular (Potential).					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		ATAACCTGCCAGATTTAAGAA	0.398													24	53					0	0	1	0	0		G	110763755	G	G	110763755	2	3	66	1	0	0	0	0	0	0	0	1	9054	175	7	3		3	LRRN3	7	110763755	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	500	110763755	48374908	628	44704											
TMEM168	64418	broad.mit.edu	37	chr7	112423866	112423866	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccatgattctatcaaggcTattgtaatctgtcctgtgag	9	15	9	8	0	3	2	1	2	2	0	4	2	4	2	2	1	1	2	2	1	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:112423866T>G	uc003vgn.2	-	2	1407	c.1015A>C	c.(1015-1017)AGC>CGC	p.S339R	TMEM168_uc010lju.2_Missense_Mutation_p.S339R|TMEM168_uc011kmr.1_Intron	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	339						integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						CTATCAAGGCTATTGTAATCT	0.368													52	138					0	0	1	0	0		G	112423866	G	G	112423866	3	3	66	1	0	0	0	0	1	0	0	0	16108	1522	53	5	1094	5	TMEM168	7	112423866	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1660111	112423866	46714797	629	44705											
C7orf60	154743	broad.mit.edu	37	chr7	112472732	112472732	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgaggcttgtagcaaccTaaaaacagatattttataag	15	12	7	7	0	0	2	0	1	0	1	1	2	1	2	2	1	3	3	2	1	8	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:112472732T>C	uc003vgo.1	-	4	601	c.474_splice	c.e4-1	p.E158_splice	C7orf60_uc011kms.1_Splice_Site_p.E184_splice	NM_152556	NP_689769	Q1RMZ1	CG060_HUMAN	hypothetical protein LOC154743											ovary(2)|skin(1)	3						TGTAGCAACCTAAAAACAGAT	0.249													26	58					0	0	1	0	0		C	112472732	C	C	112472732	5	2	66	1	0	0	0	0	0	0	1	0	2410	1536	53	3	753	3	C7orf60	7	112472732	Splice_Site	SNP	T	TCGA-BR-8361-01A-11D-2340-08	48866	112472732	46665931	630	44706											
C7orf58	79974	broad.mit.edu	37	chr7	120687010	120687010	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaaggaacaccctgtatatCcaaggaagtcatgtgccagt	14	8	10	9	0	1	1	1	0	0	1	2	3	2	3	3	2	2	1	3	2	6	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:120687010C>A	uc003vjq.3	+	4	950	c.503C>A	c.(502-504)TCC>TAC	p.S168Y	C7orf58_uc003vjr.1_Missense_Mutation_p.S168Y|C7orf58_uc003vjs.3_Missense_Mutation_p.S168Y	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	168						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					CCCTGTATATCCAAGGAAGTC	0.388													36	86					1.96642e-18	2.12008e-18	1	1	0		A	120687010	A	A	120687010	3	1	66	1	0	0	0	0	1	0	0	0	2408	855	30	5	513	5	C7orf58	7	120687010	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	8214278	120687010	38451653	631	44707											
AASS	10157	broad.mit.edu	37	chr7	121738915	121738915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattgaaagtgactgagcaCgttccctatttaaaaaaaaa	17	10	6	8	1	0	3	0	3	0	0	1	3	1	3	2	0	1	2	2	0	7	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:121738915C>T	uc003vka.2	-	13	1508	c.1412G>A	c.(1411-1413)CGT>CAT	p.R471H	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.R471H|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	471					protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	TGACTGAGCACGTTCCCTATT	0.318													18	24					0	0	1	0	0		T	121738915	T	T	121738915	3	4	66	1	0	0	0	0	1	0	0	0	24	536	19	1	1412	1	AASS	7	121738915	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1051905	121738915	37399748	632	44708											
CADPS2	93664	broad.mit.edu	37	chr7	122033572	122033572	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactccatgagatccacataGcggacaaccaagggtacaaa	16	5	9	11	1	0	1	0	1	0	1	2	4	2	2	3	2	3	1	3	2	5	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:122033572G>A	uc010lkp.2	-	20	2974	c.2811C>T	c.(2809-2811)CGC>CGT	p.R937R	CADPS2_uc011knx.1_Silent_p.R312R|CADPS2_uc003vkg.3_Silent_p.R631R|CADPS2_uc010lkq.2_Silent_p.R931R	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	937	Interaction with DRD2.|MHD1.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						GATCCACATAGCGGACAACCA	0.448													27	59					0	0	1	0	0		A	122033572	A	A	122033572	2	1	66	1	0	0	0	0	0	0	0	1	2574	958	34	2		2	CADPS2	7	122033572	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	294657	122033572	37105091	633	44709											
CADPS2	93664	broad.mit.edu	37	chr7	122194676	122194676	+	Frame_Shift_Del	DEL	T	-	-																															ttaagtcagaatcctggctaTtttttggaactaccattcgg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:122194676delT	uc010lkp.2	-	8	1566	c.1403delA	c.(1402-1404)AATfs	p.N468fs	CADPS2_uc003vkg.3_Frame_Shift_Del_p.N168fs|CADPS2_uc010lkq.2_Frame_Shift_Del_p.N468fs	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	468					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						ATCCTGGCTATTTTTTGGAAC	0.363													17	21	---	---	---	---						.	-	122194676	-	-	122194676	7	5	66	1	0	1	0	1	0	0	0	0	2574	1493	52	0	2623	0	CADPS2	7	122194676	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	161104	122194676	36943987	634	44710											
TAS2R16	50833	broad.mit.edu	37	chr7	122635118	122635118	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggtggaggccaggaacaGgatgaaaggaataaccaatg	16	5	15	5	0	0	1	0	1	0	0	0	6	0	5	2	6	2	0	2	6	5	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:122635118G>A	uc003vkl.1	-	1	637	c.571C>T	c.(571-573)CTG>TTG	p.L191L		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	191	Helical; Name=5; (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						GCCAGGAACAGGATGAAAGGA	0.448													27	69					0	0	1	0	0		A	122635118	A	A	122635118	2	1	66	1	0	0	0	0	0	0	0	1	15594	991	35	4		4	TAS2R16	7	122635118	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	440442	122635118	36503545	635	44711											
SND1	27044	broad.mit.edu	37	chr7	127447555	127447555	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggataagaacaagaaactGcgtcccctgtatgacattcc	14	9	8	10	1	0	3	0	1	0	2	2	4	2	4	3	1	3	1	3	1	6	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:127447555G>A	uc003vmi.2	+	11	1396	c.1170G>A	c.(1168-1170)CTG>CTA	p.L390L	SND1_uc010lle.2_Silent_p.L43L	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	390	Nuclear localization signal (Potential).|TNase-like 3.				gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						ACAAGAAACTGCGTCCCCTGT	0.353													29	63					0	0	1	0	0		A	127447555	A	A	127447555	2	1	66	1	0	0	0	0	0	0	0	1	14869	1306	46	2		2	SND1	7	127447555	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4812437	127447555	31691108	636	44712											
PLXNA4	91584	broad.mit.edu	37	chr7	131895821	131895821	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagactggggctgggggaGgttcttggccttcagcgtga	5	9	17	10	1	2	2	1	1	1	1	2	3	2	3	2	6	1	2	2	6	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:131895821G>T	uc003vra.3	-	10	2408	c.2179C>A	c.(2179-2181)CTC>ATC	p.L727I		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	727	Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GGCTGGGGGAGGTTCTTGGCC	0.637													5	13					0.184627	0.184837	1	1	0		T	131895821	T	T	131895821	3	4	66	1	0	0	0	0	1	0	0	0	12141	1000	35	5	3597	5	PLXNA4	7	131895821	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4448266	131895821	27242842	637	44713											
PLXNA4	91584	broad.mit.edu	37	chr7	131910964	131910964	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagacaaagctggtgctggcGaaggtcatgccggtctcctt	9	9	13	10	2	2	1	1	0	1	1	3	2	2	1	2	4	3	2	2	4	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:131910964G>A	uc003vra.3	-	8	2167	c.1938C>T	c.(1936-1938)TTC>TTT	p.F646F		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	646	Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TGGTGCTGGCGAAGGTCATGC	0.547													33	60					0	0	1	0	0		A	131910964	A	A	131910964	2	1	66	1	0	0	0	0	0	0	0	1	12141	1049	37	1		1	PLXNA4	7	131910964	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	15143	131910964	27227699	638	44714											
UBN2	254048	broad.mit.edu	37	chr7	138978021	138978022	+	Frame_Shift_Del	DEL	CT	-	-																															ggctaatgcctcacctctgaCtctcatgacatcacctttgt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:138978021_138978022delCT	uc011kqr.1	+	16	3713_3714	c.3713_3714delCT	c.(3712-3714)ACTfs	p.T1238fs		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	1238										ovary(1)|skin(1)	2						TCACCTCTGACTCTCATGACAT	0.446													31	63	---	---	---	---						.	-	138978022	-	-	138978021	7	5	66	1	0	1	0	1	0	0	0	0	16919	565	20	0	3775	0	UBN2	7	138978021	Frame_Shift_Del	DEL	CT	TCGA-BR-8361-01A-11D-2340-08	7067057	138978021	20160642	639	44715											
EPHB6	2051	broad.mit.edu	37	chr7	142561853	142561853	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacactttgtggagcggcgcGgggcccagagggcgcacatt	7	6	16	12	4	0	1	0	0	0	1	0	2	0	2	1	5	1	1	1	5	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:142561853G>A	uc011kst.1	+	7	1082	c.295G>A	c.(295-297)GGG>AGG	p.G99R	EPHB6_uc011ksu.1_Missense_Mutation_p.G99R|EPHB6_uc003wbs.2_5'UTR|EPHB6_uc003wbt.2_5'UTR|EPHB6_uc003wbu.2_5'UTR	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	99	Extracellular (Potential).					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					GGAGCGGCGCGGGGCCCAGAG	0.647													44	105					0	0	1	0	0		A	142561853	A	A	142561853	3	1	66	1	0	0	0	0	1	0	0	0	5186	1116	39	1	305	1	EPHB6	7	142561853	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3583832	142561853	16576810	640	44716											
TRPV5	56302	broad.mit.edu	37	chr7	142622792	142622792	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatacttgttccacttgaaGctcaccagctccttcactgg	8	12	6	15	0	2	1	2	1	0	0	4	1	4	1	4	1	3	3	4	1	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:142622792G>C	uc003wby.1	-	8	1218	c.954C>G	c.(952-954)AGC>AGG	p.S318R	TRPV5_uc003wbz.2_Missense_Mutation_p.S318R	NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	318	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					TCCACTTGAAGCTCACCAGCT	0.532													14	20					0	0	1	0	0		C	142622792	C	C	142622792	3	2	66	1	0	0	0	0	1	0	0	0	16625	962	34	5	1267	5	TRPV5	7	142622792	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	60939	142622792	16515871	641	44717											
EPHA1	2041	broad.mit.edu	37	chr7	143092032	143092032	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacataattgtgattacTgaggtagttcatgccagatg	11	13	12	5	0	1	3	1	2	0	1	1	4	1	4	1	2	2	2	1	2	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:143092032T>G	uc003wcz.2	-	14	2308	c.2221A>C	c.(2221-2223)AGT>CGT	p.S741R		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	741	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				TTGTGATTACTGAGGTAGTTC	0.567													25	39					0	0	1	0	0		G	143092032	G	G	143092032	3	3	66	1	0	0	0	0	1	0	0	0	5173	1580	55	5	729	5	EPHA1	7	143092032	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	469240	143092032	16046631	642	44718											
ARHGEF5	7984	broad.mit.edu	37	chr7	144075928	144075928	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcactggagaaagccgaCgtggtgatggtgactcagca	10	8	15	8	2	1	3	1	2	0	1	1	5	1	3	1	4	2	2	1	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:144075928C>T	uc003wel.2	+	14	4723	c.4605C>T	c.(4603-4605)GAC>GAT	p.D1535D	ARHGEF5_uc003wem.2_Silent_p.D336D	NM_005435	NP_005426	Q12774	ARHG5_HUMAN	rho guanine nucleotide exchange factor 5	1535	SH3.				intracellular signal transduction|regulation of Rho protein signal transduction	intracellular	GTP binding|protein binding|Rho guanyl-nucleotide exchange factor activity			skin(2)	2	Melanoma(164;0.14)					AGAAAGCCGACGTGGTGATGG	0.557													40	103					0	0	1	0	0		T	144075928	T	T	144075928	2	4	66	1	0	0	0	0	0	0	0	1	909	535	19	1		1	ARHGEF5	7	144075928	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	983896	144075928	15062735	643	44719											
ZNF786	136051	broad.mit.edu	37	chr7	148768359	148768359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcctctccccaccgtgcCggagccggtgggctctcagc	4	6	13	18	4	2	0	1	0	2	0	4	1	2	1	6	4	3	1	6	4	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:148768359C>T	uc003wfh.2	-	4	1642	c.1505G>A	c.(1504-1506)CGG>CAG	p.R502Q	ZNF786_uc011kuk.1_Missense_Mutation_p.R465Q|ZNF786_uc003wfi.2_Missense_Mutation_p.R416Q	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	502	C2H2-type 7; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			CCCACCGTGCCGGAGCCGGTG	0.662													17	34					0	0	1	0	0		T	148768359	T	T	148768359	3	4	66	1	0	0	0	0	1	0	0	0	18183	652	23	1	847	1	ZNF786	7	148768359	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4692431	148768359	10370304	644	44720											
SSPO	23145	broad.mit.edu	37	chr7	149521182	149521182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctcccacagtgaatgcCggcgtggggagctgcactgc	6	6	13	16	2	0	1	0	1	0	0	1	2	1	2	4	3	4	2	4	3	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:149521182C>T	uc010lpk.2	+	95	13522	c.13522C>T	c.(13522-13524)CGG>TGG	p.R4508W	SSPO_uc010lpm.1_RNA|SSPO_uc003wgg.2_Intron|SSPO_uc003wgh.2_RNA|SSPO_uc003wgi.1_Intron	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	4508					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CAGTGAATGCCGGCGTGGGGA	0.502													3	9					0	0	1	0	0		T	149521182	T	T	149521182	3	4	66	1	0	0	0	0	1	0	0	0	15214	643	23	1	13890	1	SSPO	7	149521182	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	752823	149521182	9617481	645	44721											
SSPO	23145	broad.mit.edu	37	chr7	149522390	149522390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgcgaggcccaagacactGtattcaccctggactgtgcc	8	8	11	14	1	1	1	1	0	0	1	1	3	1	2	3	2	2	2	3	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:149522390G>A	uc010lpk.2	+	101	14017	c.14017G>A	c.(14017-14019)GTA>ATA	p.V4673I	SSPO_uc010lpm.1_RNA|SSPO_uc003wgg.2_RNA|SSPO_uc003wgh.2_RNA|SSPO_uc003wgi.1_RNA	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	4673	TIL 6.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCAAGACACTGTATTCACCCT	0.632													33	45					0	0	1	0	0		A	149522390	A	A	149522390	3	1	66	1	0	0	0	0	1	0	0	0	15214	1377	48	4	14402	4	SSPO	7	149522390	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1208	149522390	9616273	646	44722											
ZNF775	285971	broad.mit.edu	37	chr7	150093851	150093851	+	Frame_Shift_Del	DEL	C	-	-																															gctcccgggtcagcctccggCcccctgagcccctcgctttc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:150093851delC	uc003whf.1	+	3	407	c.282delC	c.(280-282)GGCfs	p.G94fs		NM_173680	NP_775951	Q96BV0	ZN775_HUMAN	zinc finger protein 775	94					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.0173)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CAGCCTCCGGCCCCCTGAGCC	0.687													3	4	---	---	---	---						.	-	150093851	-	-	150093851	7	5	66	1	0	1	0	1	0	0	0	0	18173	726	26	0	288	0	ZNF775	7	150093851	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	571461	150093851	9044812	647	44723											
GIMAP8	155038	broad.mit.edu	37	chr7	150171329	150171329	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttcgatcattgatgctccGgacatctcatctttaaagaa	11	14	7	9	2	3	2	2	1	2	1	6	4	4	3	1	1	1	2	1	1	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:150171329G>A	uc003whj.2	+	4	1242	c.912G>A	c.(910-912)CCG>CCA	p.P304P		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	304						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		TTGATGCTCCGGACATCTCAT	0.458													6	94					0	0	1	0	0		A	150171329	A	A	150171329	2	1	66	1	0	0	0	0	0	0	0	1	6400	1103	39	1		1	GIMAP8	7	150171329	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	77478	150171329	8967334	648	44724											
MLL3	58508	broad.mit.edu	37	chr7	151845154	151845154	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttagaaccaggtcttcatGgccttgttccacaatcctga	10	12	7	12	0	2	2	1	1	1	1	4	2	4	2	4	2	1	1	4	2	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:151845154G>C	uc003wla.2	-	52	14077	c.13858C>G	c.(13858-13860)CAT>GAT	p.H4620D	MLL3_uc003wkz.2_Missense_Mutation_p.H3738D|MLL3_uc003wkx.2_Missense_Mutation_p.H778D|MLL3_uc003wky.2_Missense_Mutation_p.H2184D	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4620	FYR C-terminal.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		AGGTCTTCATGGCCTTGTTCC	0.507			N		medulloblastoma								18	40					0	0	1	0	0		C	151845154	C	C	151845154	3	2	66	1	0	0	0	0	1	0	0	0	9640	1348	47	5	909	5	MLL3	7	151845154	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1673825	151845154	7293509	649	44725											
MLL3	58508	broad.mit.edu	37	chr7	151859695	151859695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttccaccgactcttggtcgGcttgttgaggaagctcactg	6	12	12	11	2	2	1	1	1	1	0	4	3	3	2	2	3	1	4	2	3	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:151859695G>A	uc003wla.2	-	43	11186	c.10967C>T	c.(10966-10968)GCC>GTC	p.A3656V	MLL3_uc003wkz.2_Missense_Mutation_p.A2717V|MLL3_uc003wky.2_Missense_Mutation_p.A1165V	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3656					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CTCTTGGTCGGCTTGTTGAGG	0.517			N		medulloblastoma								49	93					0	0	1	0	0		A	151859695	A	A	151859695	3	1	66	1	0	0	0	0	1	0	0	0	9640	1203	42	2	3836	2	MLL3	7	151859695	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	14541	151859695	7278968	650	44726											
MLL3	58508	broad.mit.edu	37	chr7	151970816	151970816	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagcttggtcaatgtgtTctggacaaagcaggaagatg	12	9	14	6	0	2	1	1	0	1	1	2	4	2	4	0	4	2	3	0	4	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:151970816T>C	uc003wla.2	-	7	1205	c.986A>G	c.(985-987)GAA>GGA	p.E329G		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	329					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GTCAATGTGTTCTGGACAAAG	0.388			N		medulloblastoma								9	230					0	0	1	0	0		C	151970816	C	C	151970816	3	2	66	1	0	0	0	0	1	0	0	0	9640	1783	62	3	13961	3	MLL3	7	151970816	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	111121	151970816	7167847	651	44727											
PTPRN2	5799	broad.mit.edu	37	chr7	157926632	157926632	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaagacagggaagactcAgggtgctcggacttcttcct	9	10	12	10	1	3	3	1	1	2	2	5	5	4	5	1	3	1	1	1	3	2	2	rs148933237		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr7:157926632A>G	uc003wno.2	-	9	1414	c.1293T>C	c.(1291-1293)CCT>CCC	p.P431P	PTPRN2_uc003wnp.2_Silent_p.P414P|PTPRN2_uc003wnq.2_Silent_p.P431P|PTPRN2_uc003wnr.2_Silent_p.P393P|PTPRN2_uc011kwa.1_Silent_p.P454P	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	431	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		GGGAAGACTCAGGGTGCTCGG	0.607													29	57					0	0	1	0	0		G	157926632	G	G	157926632	2	3	66	1	0	0	0	0	0	0	0	1	12833	175	7	3		3	PTPRN2	7	157926632	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	5955816	157926632	1212031	652	44728											
DLGAP2	9228	broad.mit.edu	37	chr8	1514042	1514042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtccatcggacagagacCgcttggagagcaccagacgt	12	5	13	11	3	0	3	0	0	0	3	2	7	1	4	3	2	1	2	3	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:1514042C>T	uc003wpl.2	+	3	1281	c.1184C>T	c.(1183-1185)CCG>CTG	p.P395L	DLGAP2_uc003wpm.2_Missense_Mutation_p.P395L	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	474					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		GGACAGAGACCGCTTGGAGAG	0.587													4	9					0	0	1	0	0		T	1514042	T	T	1514042	3	4	66	1	0	0	0	0	1	0	0	0	4566	652	23	1	1190	1	DLGAP2	8	1514042	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08		1514042	144849980	653	44729											
PPP1R3B	79660	broad.mit.edu	37	chr8	8998667	8998667	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagctcttccaggtgtcgaaCgtcatccttattttcacggt	7	15	8	11	3	3	0	2	0	1	0	6	1	5	0	2	2	2	1	2	2	3	5	rs138887555		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:8998667C>T	uc003wsn.3	-	2	660	c.495G>A	c.(493-495)ACG>ACA	p.T165T	PPP1R3B_uc003wso.3_Silent_p.T164T	NM_024607	NP_078883	Q86XI6	PPR3B_HUMAN	protein phosphatase 1, regulatory (inhibitor)	165	CBM21.				glycogen metabolic process					ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(149;0.0717)|READ - Rectum adenocarcinoma(644;0.241)		AGGTGTCGAACGTCATCCTTA	0.502													42	66					0	0	1	0	0		T	8998667	T	T	8998667	2	4	66	1	0	0	0	0	0	0	0	1	12394	523	19	1		1	PPP1R3B	8	8998667	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	7484625	8998667	137365355	654	44730											
PRSS55	203074	broad.mit.edu	37	chr8	10387198	10387198	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggctcactgcttatattcCgaggagctgttgtaagtacc	8	12	11	10	2	1	0	1	0	0	0	2	2	2	1	2	2	3	6	2	2	4	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:10387198C>T	uc003wta.2	+	2	351	c.336C>T	c.(334-336)TCC>TCT	p.S112S	uc010lru.2_Intron|PRSS55_uc003wtb.2_RNA	NM_198464	NP_940866	Q6UWB4	PRS55_HUMAN	hypothetical protein LOC203074 precursor	112	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane	serine-type endopeptidase activity			ovary(1)	1						GCTTATATTCCGAGGAGCTGT	0.592													56	115					0	0	1	0	0		T	10387198	T	T	10387198	2	4	66	1	0	0	0	0	0	0	0	1	12656	639	23	1		1	PRSS55	8	10387198	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1388531	10387198	135976824	655	44731											
RP1L1	94137	broad.mit.edu	37	chr8	10467297	10467297	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggggcacggctctgcagaGgcagaggctcttcctgcttc	5	8	15	13	2	2	2	0	0	2	2	4	2	3	2	1	5	2	6	1	5	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:10467297G>T	uc003wtc.2	-	4	4540	c.4311C>A	c.(4309-4311)GCC>GCA	p.A1437A		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1437					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GCTCTGCAGAGGCAGAGGCTC	0.637													83	175					8.87156e-34	9.65917e-34	1	1	0		T	10467297	T	T	10467297	2	4	66	1	0	0	0	0	0	0	0	1	13558	987	35	5		5	RP1L1	8	10467297	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	80099	10467297	135896725	656	44732											
RP1L1	94137	broad.mit.edu	37	chr8	10469919	10469919	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgctggcctcctgctgagaGgtctcggcccttgccttgcc	2	11	12	16	2	1	1	0	1	1	1	4	2	2	1	5	3	3	2	5	3	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:10469919G>T	uc003wtc.2	-	4	1918	c.1689C>A	c.(1687-1689)ACC>ACA	p.T563T		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	563					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CCTGCTGAGAGGTCTCGGCCC	0.647													32	62					2.08457e-15	2.22707e-15	1	1	0		T	10469919	T	T	10469919	2	4	66	1	0	0	0	0	0	0	0	1	13558	987	35	5		5	RP1L1	8	10469919	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2622	10469919	135894103	657	44733											
XKR6	286046	broad.mit.edu	37	chr8	11058827	11058827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcccacccccacgccacCgccatcggatttcgccgcca	8	4	8	21	5	0	0	0	0	0	0	2	2	0	1	8	1	1	0	8	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:11058827C>T	uc003wtk.1	-	1	49	c.22G>A	c.(22-24)GGT>AGT	p.G8S		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	8	Gly-rich.					integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		CCCACGCCACCGCCATCGGAT	0.453													3	4					0	0	1	0	0		T	11058827	T	T	11058827	3	4	66	1	0	0	0	0	1	0	0	0	17461	652	23	1	1915	1	XKR6	8	11058827	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	588908	11058827	135305195	658	44734											
BLK	640	broad.mit.edu	37	chr8	11418890	11418890	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaacatcctggtgtctgAggccttgtgctgcaaaattg	8	11	12	10	0	1	1	0	1	1	0	2	1	2	1	3	3	3	2	3	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:11418890A>G	uc003wty.2	+	11	1690	c.1109A>G	c.(1108-1110)GAG>GGG	p.E370G	BLK_uc003wtz.2_Missense_Mutation_p.E299G|BLK_uc003wua.2_Missense_Mutation_p.E206G	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	370	Protein kinase.				intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		CTGGTGTCTGAGGCCTTGTGC	0.537													3	6					0	0	1	0	0		G	11418890	G	G	11418890	3	3	66	1	0	0	0	0	1	0	0	0	1445	304	11	3	1147	3	BLK	8	11418890	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	360063	11418890	134945132	659	44735											
FAM86B2	653333	broad.mit.edu	37	chr8	12285239	12285239	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtagacctcaggagcccgCttgtgctcccggcaggcagc	7	6	13	15	3	1	1	1	0	0	1	2	2	2	2	3	3	3	5	3	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:12285239C>T	uc003wvt.3	-	7	819	c.819G>A	c.(817-819)AAG>AAA	p.K273K	FAM66D_uc011kxp.1_Intron|uc003wvm.1_Intron|uc003wvp.1_5'Flank|FAM86B2_uc003wvq.3_RNA|FAM86B2_uc003wvr.3_Silent_p.K96K|FAM86B2_uc003wvs.3_Silent_p.K173K|FAM86B2_uc010lsn.2_RNA|FAM86B2_uc003wvu.3_Silent_p.K82K|FAM86B2_uc010lso.2_RNA|FAM86B2_uc011kxt.1_Silent_p.K45K|FAM86B2_uc011kxu.1_RNA|FAM86B2_uc010lsl.2_RNA	NM_001137610	NP_001131082	P0C5J1	F86B2_HUMAN	hypothetical protein LOC653333	273											0						CAGGAGCCCGCTTGTGCTCCC	0.622													6	25					0	0	1	0	0		T	12285239	T	T	12285239	2	4	66	1	0	0	0	0	0	0	0	1	5659	796	28	2		2	FAM86B2	8	12285239	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	866349	12285239	134078783	660	44736											
CSGALNACT1	55790	broad.mit.edu	37	chr8	19363191	19363191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtacccctccttccccGtggggctgttggccctgggc	1	10	13	17	1	0	0	0	0	0	0	2	0	2	0	7	5	1	3	7	5	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:19363191G>A	uc011kyn.1	-	4	1219	c.155C>T	c.(154-156)ACG>ATG	p.T52M	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.T52M|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.T51M|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	52	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		CTCCTTCCCCGTGGGGCTGTT	0.627													13	60					0	0	1	0	0		A	19363191	A	A	19363191	3	1	66	1	0	0	0	0	1	0	0	0	3941	1145	40	1	1471	1	CSGALNACT1	8	19363191	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	7077952	19363191	127000831	661	44737											
LZTS1	11178	broad.mit.edu	37	chr8	20110994	20110994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgtctggaggggcggggtGcagctggtggctggcactct	3	10	19	9	1	2	0	0	0	2	0	2	1	2	1	0	8	2	4	0	8	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:20110994G>A	uc003wzr.2	-	2	559	c.448C>T	c.(448-450)CAC>TAC	p.H150Y	LZTS1_uc010ltg.1_Missense_Mutation_p.H150Y	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	150					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		GGGGCGGGGTGCAGCTGGTGG	0.672													7	15					0	0	1	0	0		A	20110994	A	A	20110994	3	1	66	1	0	0	0	0	1	0	0	0	9156	1319	46	2	1350	2	LZTS1	8	20110994	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	747803	20110994	126253028	662	44738											
EGR3	1960	broad.mit.edu	37	chr8	22548122	22548122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttgcgctcgtcgctgcgcGcaaacttgcgcccgcagaac	6	7	12	16	7	0	1	0	0	0	1	2	1	0	1	1	0	5	5	1	0	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:22548122G>A	uc003xcm.1	-	2	1386	c.1028C>T	c.(1027-1029)GCG>GTG	p.A343V	EGR3_uc011kzn.1_Missense_Mutation_p.A305V|EGR3_uc011kzo.1_Missense_Mutation_p.A289V	NM_004430	NP_004421	Q06889	EGR3_HUMAN	early growth response 3	343	C2H2-type 3.				circadian rhythm|muscle organ development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Prostate(55;0.0421)|Breast(100;0.102)		Colorectal(74;0.0145)|BRCA - Breast invasive adenocarcinoma(99;0.053)|COAD - Colon adenocarcinoma(73;0.0608)		GTCGCTGCGCGCAAACTTGCG	0.647													26	25					0	0	1	0	0		A	22548122	A	A	22548122	3	1	66	1	0	0	0	0	1	0	0	0	4979	1087	38	1	139	1	EGR3	8	22548122	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2437128	22548122	123815900	663	44739											
ESCO2	157570	broad.mit.edu	37	chr8	27649496	27649496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggttggaagaaagaacGtgtagtagcagagttttggg	12	9	17	3	1	0	3	0	0	0	3	0	4	0	4	0	3	2	6	0	3	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:27649496G>A	uc003xgg.2	+	8	1363	c.1280G>A	c.(1279-1281)CGT>CAT	p.R427H	ESCO2_uc010luy.1_RNA	NM_001017420	NP_001017420	Q56NI9	ESCO2_HUMAN	establishment of cohesion 1 homolog 2	427					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding			central_nervous_system(1)	1		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|KIRC - Kidney renal clear cell carcinoma(542;0.0955)|Kidney(114;0.115)|Colorectal(74;0.132)		AAGAAAGAACGTGTAGTAGCA	0.368									SC_Phocomelia_syndrome				29	22					0	0	1	0	0		A	27649496	A	A	27649496	3	1	66	1	0	0	0	0	1	0	0	0	5257	1145	40	1	1306	1	ESCO2	8	27649496	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5101374	27649496	118714526	664	44740											
KCNU1	157855	broad.mit.edu	37	chr8	36675180	36675180	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcctaggtttattgtggtCtgtggaaacatcactgtgga	8	14	12	7	0	2	0	1	0	1	0	2	2	2	2	1	4	2	1	1	4	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:36675180C>T	uc010lvw.2	+	10	1095	c.1008C>T	c.(1006-1008)GTC>GTT	p.V336V	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	336	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		TTATTGTGGTCTGTGGAAACA	0.453													36	69					0	0	1	0	0		T	36675180	T	T	36675180	2	4	66	1	0	0	0	0	0	0	0	1	8109	900	32	4		4	KCNU1	8	36675180	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	9025684	36675180	109688842	665	44741											
ANK1	286	broad.mit.edu	37	chr8	41530137	41530137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcccaactcggggccccGcggttcctctgagagtgccc	6	6	13	16	3	1	2	0	1	1	2	3	3	2	2	5	3	3	1	5	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:41530137G>A	uc003xok.2	-	38	4915	c.4831C>T	c.(4831-4833)CGG>TGG	p.R1611W	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Intron|ANK1_uc003xoi.2_Missense_Mutation_p.R1611W|ANK1_uc003xoj.2_Missense_Mutation_p.R1611W|ANK1_uc003xol.2_Intron|ANK1_uc003xom.2_Missense_Mutation_p.R1652W	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1611	55 kDa regulatory domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TCGGGGCCCCGCGGTTCCTCT	0.567													89	106					0	0	1	0	0		A	41530137	A	A	41530137	3	1	66	1	0	0	0	0	1	0	0	0	620	1086	38	1	1160	1	ANK1	8	41530137	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4854957	41530137	104833885	666	44742											
ANK1	286	broad.mit.edu	37	chr8	41552810	41552810	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgagctcgcggtctccacgGccatgggaggcaaagtgcgg	8	5	16	12	5	1	0	0	0	1	0	3	2	1	1	2	5	2	2	2	5	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:41552810G>A	uc003xok.2	-	27	3084	c.3000C>T	c.(2998-3000)GGC>GGT	p.G1000G	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Silent_p.G316G|ANK1_uc003xoi.2_Silent_p.G1000G|ANK1_uc003xoj.2_Silent_p.G1000G|ANK1_uc003xol.2_Silent_p.G1000G|ANK1_uc003xom.2_Silent_p.G1041G	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1000	ZU5.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			GGTCTCCACGGCCATGGGAGG	0.607													37	90					0	0	1	0	0		A	41552810	A	A	41552810	2	1	66	1	0	0	0	0	0	0	0	1	620	1190	42	2		2	ANK1	8	41552810	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	22673	41552810	104811212	667	44743											
MYST3	7994	broad.mit.edu	37	chr8	41834758	41834758	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatatccttcttctgatgaTgatgatgctgattggctgga	10	15	10	6	0	2	5	0	5	2	0	3	6	3	6	1	2	1	2	1	2	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:41834758T>C	uc010lxb.2	-	8	1675	c.1131A>G	c.(1129-1131)TCA>TCG	p.S377S	MYST3_uc010lxc.2_Silent_p.S377S|MYST3_uc003xon.3_Silent_p.S377S|MYST3_uc010lxd.2_Silent_p.S377S	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	377	Poly-Ser.|Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			CTTCTGATGATGATGATGCTG	0.423													31	101					0	0	1	0	0		C	41834758	C	C	41834758	2	2	66	1	0	0	0	0	0	0	0	1	10122	1451	51	3		3	MYST3	8	41834758	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	281948	41834758	104529264	668	44744											
VDAC3	7419	broad.mit.edu	37	chr8	42252613	42252613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgtataggctttggcatgGtcaagatagacctgaaaacc	12	11	11	7	0	1	3	1	1	0	2	1	3	1	3	2	3	1	3	2	3	6	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:42252613G>A	uc011lct.1	+	4	222	c.79G>A	c.(79-81)GTC>ATC	p.V27I	VDAC3_uc010lxk.2_Missense_Mutation_p.V27I|VDAC3_uc003xpc.2_Missense_Mutation_p.V27I	NM_005662	NP_005653	Q9Y277	VDAC3_HUMAN	voltage-dependent anion channel 3 isoform b	27	Beta stranded; (By similarity).				adenine transport	mitochondrial outer membrane|pore complex	nucleotide binding|porin activity|protein binding|voltage-gated anion channel activity			upper_aerodigestive_tract(1)	1	all_cancers(6;3.86e-23)|all_lung(13;6.47e-12)|Lung NSC(13;1.08e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;3.48e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00266)|Lung(22;0.00849)|LUSC - Lung squamous cell carcinoma(45;0.024)		Dihydroxyaluminium(DB01375)	CTTTGGCATGGTCAAGATAGA	0.313													19	73					0	0	1	0	0		A	42252613	A	A	42252613	3	1	66	1	0	0	0	0	1	0	0	0	17174	1261	44	4	85	4	VDAC3	8	42252613	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	417855	42252613	104111409	669	44745											
RP1	6101	broad.mit.edu	37	chr8	55542473	55542473	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaaaacaaaaaagaattAacttcttggggttagaggaa	20	8	10	3	0	1	3	0	0	1	3	1	5	1	4	0	3	2	1	0	3	10	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:55542473A>G	uc003xsd.1	+	4	6179	c.6031A>G	c.(6031-6033)AAC>GAC	p.N2011D	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	2011					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			AAAAAGAATTAACTTCTTGGG	0.294													30	57					0	0	1	0	0		G	55542473	G	G	55542473	3	3	66	1	0	0	0	0	1	0	0	0	13557	362	13	3	6041	3	RP1	8	55542473	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	13289860	55542473	90821549	670	44746											
IMPAD1	54928	broad.mit.edu	37	chr8	57876593	57876593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttttcttgactcttatcaGgcacatccaaaagtgctaaa	12	14	5	10	0	3	1	1	1	2	0	4	1	4	1	1	1	1	2	1	1	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:57876593G>A	uc003xte.3	-	5	1122	c.839C>T	c.(838-840)CCT>CTT	p.P280L		NM_017813	NP_060283	Q9NX62	IMPA3_HUMAN	inositol monophosphatase domain containing 1	280						Golgi apparatus|integral to membrane	inositol-1(or 4)-monophosphatase activity|metal ion binding			ovary(1)	1		all_cancers(86;0.175)|all_lung(136;0.0321)|Lung NSC(129;0.0417)|all_epithelial(80;0.0448)				ACTCTTATCAGGCACATCCAA	0.313													4	11					0	0	1	0	0		A	57876593	A	A	57876593	3	1	66	1	0	0	0	0	1	0	0	0	7741	1000	35	4	244	4	IMPAD1	8	57876593	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2334120	57876593	88487429	671	44747											
ASPH	444	broad.mit.edu	37	chr8	62555985	62555985	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcttctactactggttcActggaatctaaaaaacaaaa	16	12	4	9	0	5	0	2	0	3	0	5	1	5	1	0	2	3	1	0	2	8	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:62555985A>G	uc003xuj.2	-	9	986	c.717T>C	c.(715-717)AGT>AGC	p.S239S	ASPH_uc011leg.1_Silent_p.S210S|ASPH_uc003xuo.2_Silent_p.S220S|ASPH_uc011leh.1_Silent_p.S206S|ASPH_uc003xul.2_Silent_p.S225S|ASPH_uc011lei.1_Silent_p.S225S|ASPH_uc011lej.1_Silent_p.S182S|ASPH_uc003xun.2_Silent_p.S196S|ASPH_uc011lek.1_Silent_p.S220S|ASPH_uc003xum.2_Silent_p.S239S	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	239	Glu-rich.|Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	CTACTGGTTCACTGGAATCTA	0.249													19	64					0	0	1	0	0		G	62555985	G	G	62555985	2	3	66	1	0	0	0	0	0	0	0	1	1054	156	6	3		3	ASPH	8	62555985	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	4679392	62555985	83808037	672	44748											
NCOA2	10499	broad.mit.edu	37	chr8	71041004	71041004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggttctgcactaggcccGtgggcctgaggcccggtctg	3	9	16	13	2	2	1	0	1	2	0	2	1	2	1	3	5	1	3	3	5	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:71041004G>A	uc003xyn.1	-	17	3698	c.3536C>T	c.(3535-3537)ACG>ATG	p.T1179M	NCOA2_uc011lfb.1_Missense_Mutation_p.T267M	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	1179					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			CACTAGGCCCGTGGGCCTGAG	0.557			T	RUNXBP2	AML								18	37					0	0	1	0	0		A	71041004	A	A	71041004	3	1	66	1	0	0	0	0	1	0	0	0	10248	1145	40	1	886	1	NCOA2	8	71041004	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	8485019	71041004	75323018	673	44749											
HNF4G	3174	broad.mit.edu	37	chr8	76459914	76459914	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagcgggaatgaaaaaagAaggtaataataatgatgatg	20	8	12	1	1	0	5	0	3	0	2	0	6	0	6	0	2	1	1	0	2	9	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:76459914A>G	uc003yaq.2	+	4	509	c.239A>G	c.(238-240)GAA>GGA	p.E80G	HNF4G_uc003yap.1_Missense_Mutation_p.E80G|HNF4G_uc003yar.2_Missense_Mutation_p.E117G	NM_004133	NP_004124	Q14541	HNF4G_HUMAN	hepatocyte nuclear factor 4, gamma	80	Nuclear receptor.				endocrine pancreas development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1	Breast(64;0.0448)		BRCA - Breast invasive adenocarcinoma(89;0.161)			ATGAAAAAAGAAGGTAATAAT	0.299													32	72					0	0	1	0	0		G	76459914	G	G	76459914	3	3	66	1	0	0	0	0	1	0	0	0	7270	246	9	3	360	3	HNF4G	8	76459914	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	5418910	76459914	69904108	674	44750											
ZFHX4	79776	broad.mit.edu	37	chr8	77763350	77763350	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtcatgtctacaagtatcGctgtaaccattgtagcttgg	9	13	9	10	2	2	0	1	0	1	0	3	0	2	0	2	1	3	5	2	1	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:77763350G>T	uc003yav.2	+	10	4445	c.4058G>T	c.(4057-4059)CGC>CTC	p.R1353L	ZFHX4_uc003yau.1_Missense_Mutation_p.R1398L|ZFHX4_uc003yaw.1_Missense_Mutation_p.R1353L	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1353	C2H2-type 10.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TACAAGTATCGCTGTAACCAT	0.438										HNSCC(33;0.089)			16	30					2.31682e-05	2.3623e-05	1	1	0		T	77763350	T	T	77763350	3	4	66	1	0	0	0	0	1	0	0	0	17660	1087	38	5	4227	5	ZFHX4	8	77763350	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1303436	77763350	68600672	675	44751											
ZFHX4	79776	broad.mit.edu	37	chr8	77766490	77766495	+	In_Frame_Del	DEL	CAGCCA	-	-																															caccacaggcatccacagccCagccacagccacagccacag																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:77766490_77766495delCAGCCA	uc003yav.2	+	10	7585_7590	c.7198_7203delCAGCCA	c.(7198-7203)CAGCCAdel	p.QP2406del	ZFHX4_uc003yau.1_In_Frame_Del_p.QP2451del|ZFHX4_uc003yaw.1_In_Frame_Del_p.QP2406del	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2406_2407	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATccacagcccagccacagccacagc	0.461										HNSCC(33;0.089)			5	8	---	---	---	---						.	-	77766495	-	-	77766490	7	5	66	1	0	1	0	1	0	0	0	0	17660	595	21	0	7367	0	ZFHX4	8	77766490	In_Frame_Del	DEL	CAGCCA	TCGA-BR-8361-01A-11D-2340-08	3140	77766490	68597532	676	44752											
ZFHX4	79776	broad.mit.edu	37	chr8	77767554	77767554	+	Frame_Shift_Del	DEL	T	-	-																															tatgatcaaaataaaaccgaTtttgatgagacttcatcgat																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:77767554delT	uc003yav.2	+	10	8649	c.8262delT	c.(8260-8262)GATfs	p.D2754fs	ZFHX4_uc003yau.1_Frame_Shift_Del_p.D2799fs|ZFHX4_uc003yaw.1_Frame_Shift_Del_p.D2754fs	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2754						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATAAAACCGATTTTGATGAGA	0.443										HNSCC(33;0.089)			16	34	---	---	---	---						.	-	77767554	-	-	77767554	7	5	66	1	0	1	0	1	0	0	0	0	17660	1490	52	0	8431	0	ZFHX4	8	77767554	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	1064	77767554	68596468	677	44753											
FAM82B	51115	broad.mit.edu	37	chr8	87498764	87498764	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctagtgctctttttgcataCtctagggcttcatacaccaa	9	15	6	11	0	4	0	1	0	3	0	4	0	4	0	1	1	4	3	1	1	5	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:87498764C>T	uc003ydu.2	-	4	604	c.444G>A	c.(442-444)GAG>GAA	p.E148E	FAM82B_uc011lfz.1_Silent_p.E148E|FAM82B_uc011lga.1_Silent_p.E148E	NM_016033	NP_057117	Q96DB5	RMD1_HUMAN	regulator of microtubule dynamics 1	148						microtubule|spindle pole	binding			ovary(1)	1						TTTTTGCATACTCTAGGGCTT	0.413													11	45					0	0	1	0	0		T	87498764	T	T	87498764	2	4	66	1	0	0	0	0	0	0	0	1	5646	564	20	4		4	FAM82B	8	87498764	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	9731210	87498764	58865258	678	44754											
OSGIN2	734	broad.mit.edu	37	chr8	90937493	90937493	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtattgataggttctcatccTaatctgtcttttctgaagga	9	17	8	7	0	4	2	1	2	4	0	6	3	5	3	1	2	0	2	1	2	4	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:90937493T>C	uc003yeg.2	+	6	1597	c.1251T>C	c.(1249-1251)CCT>CCC	p.P417P	OSGIN2_uc003yeh.2_Silent_p.P461P	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	417					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			GTTCTCATCCTAATCTGTCTT	0.393													53	94					0	0	1	0	0		C	90937493	C	C	90937493	2	2	66	1	0	0	0	0	0	0	0	1	11309	1509	53	3		3	OSGIN2	8	90937493	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3438729	90937493	55426529	679	44755											
RUNX1T1	862	broad.mit.edu	37	chr8	92988171	92988171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctggcacgtatccagacGcaggcctgtgaaggaattcc	9	8	11	13	2	1	2	0	1	1	1	3	3	3	3	4	3	0	3	4	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:92988171G>A	uc003yfd.2	-	9	1394	c.1310C>T	c.(1309-1311)GCG>GTG	p.A437V	RUNX1T1_uc003yfc.1_Missense_Mutation_p.A410V|RUNX1T1_uc003yfe.1_Missense_Mutation_p.A400V|RUNX1T1_uc010mao.2_Missense_Mutation_p.A410V|RUNX1T1_uc011lgi.1_Missense_Mutation_p.A448V|RUNX1T1_uc010man.1_Missense_Mutation_p.A62V|RUNX1T1_uc003yfb.1_Missense_Mutation_p.A400V	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	437					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GTATCCAGACGCAGGCCTGTG	0.488													42	89					0	0	1	0	0		A	92988171	A	A	92988171	3	1	66	1	0	0	0	0	1	0	0	0	13772	1087	38	1	516	1	RUNX1T1	8	92988171	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2050678	92988171	53375851	680	44756											
POP1	10940	broad.mit.edu	37	chr8	99162863	99162863	+	Frame_Shift_Del	DEL	A	-	-																															agaatcttcttgaaaagtacAaaaggtaagaaactggcttc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:99162863delA	uc003yij.3	+	14	2153	c.2053delA	c.(2053-2055)AAAfs	p.K685fs	POP1_uc011lgv.1_Frame_Shift_Del_p.K685fs|POP1_uc003yik.2_Frame_Shift_Del_p.K685fs	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	685					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			TGAAAAGTACAAAAGGTAAGA	0.413													22	39	---	---	---	---						.	-	99162863	-	-	99162863	7	5	66	1	0	1	0	1	0	0	0	0	12270	131	5	0	2103	0	POP1	8	99162863	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	6174692	99162863	47201159	681	44757											
POP1	10940	broad.mit.edu	37	chr8	99168334	99168334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcactctggcacctttctGctgtccctgggagcagttaa	6	12	11	12	0	2	0	0	0	2	0	3	1	3	1	2	3	2	5	2	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:99168334G>A	uc003yij.3	+	15	2214	c.2114G>A	c.(2113-2115)TGC>TAC	p.C705Y	POP1_uc011lgv.1_Missense_Mutation_p.C705Y|POP1_uc003yik.2_Missense_Mutation_p.C705Y	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	705					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			GCACCTTTCTGCTGTCCCTGG	0.473													27	82					0	0	1	0	0		A	99168334	A	A	99168334	3	1	66	1	0	0	0	0	1	0	0	0	12270	1319	46	2	2168	2	POP1	8	99168334	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5471	99168334	47195688	682	44758											
KCNS2	3788	broad.mit.edu	37	chr8	99440690	99440690	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacaacgacgcctccaagttCgatgggcagcccctcggcaa	10	6	10	15	4	0	0	0	0	0	0	3	2	1	0	4	2	3	3	4	2	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:99440690C>T	uc003yin.2	+	2	833	c.483C>T	c.(481-483)TTC>TTT	p.F161F		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	161	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			CCTCCAAGTTCGATGGGCAGC	0.607													11	36					0	0	1	0	0		T	99440690	T	T	99440690	2	4	66	1	0	0	0	0	0	0	0	1	8105	883	31	1		1	KCNS2	8	99440690	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	272356	99440690	46923332	683	44759											
KLF10	7071	broad.mit.edu	37	chr8	103663847	103663847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagacctgcagatgaccGtctctgaggaaggcacagaa	12	6	13	10	1	1	5	0	3	1	3	2	7	1	6	2	2	1	3	2	2	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:103663847G>A	uc011lhk.1	-	3	867	c.713C>T	c.(712-714)ACG>ATG	p.T238M	KLF10_uc011lhj.1_Missense_Mutation_p.T227M	NM_005655	NP_005646	Q13118	KLF10_HUMAN	Kruppel-like factor 10 isoform a	238					cell proliferation|cell-cell signaling|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|skeletal system development|transforming growth factor beta receptor signaling pathway	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_epithelial(15;5.63e-07)|Lung NSC(17;8.18e-05)|all_lung(17;0.000169)		OV - Ovarian serous cystadenocarcinoma(57;0.000112)|STAD - Stomach adenocarcinoma(118;0.0826)			GCAGATGACCGTCTCTGAGGA	0.522											OREG0018913	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	39					0	0	1	0	0		A	103663847	A	A	103663847	3	1	66	1	0	0	0	0	1	0	0	0	8354	1145	40	1	737	1	KLF10	8	103663847	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4223157	103663847	42700175	684	44760											
RIMS2	9699	broad.mit.edu	37	chr8	104897650	104897650	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatctccatcagattatgctGataggcgatctcaacatgaa	13	11	8	9	1	3	3	2	2	2	1	5	5	3	3	1	1	2	1	1	1	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:104897650G>C	uc003yls.2	+	2	398	c.157G>C	c.(157-159)GAT>CAT	p.D53H	RIMS2_uc003ylp.2_Missense_Mutation_p.D275H|RIMS2_uc003ylw.2_Missense_Mutation_p.D83H|RIMS2_uc003ylq.2_Missense_Mutation_p.D83H|RIMS2_uc003ylr.2_Missense_Mutation_p.D83H	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	306					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGATTATGCTGATAGGCGATC	0.393										HNSCC(12;0.0054)			32	51					0	0	1	0	0		C	104897650	C	C	104897650	3	2	66	1	0	0	0	0	1	0	0	0	13393	1290	45	5	963	5	RIMS2	8	104897650	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1233803	104897650	41466372	685	44761											
RIMS2	9699	broad.mit.edu	37	chr8	105001556	105001556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaatgtggaacaggggcttcGagggacccgcactatgaccg	10	6	15	10	3	0	1	0	1	0	0	1	5	0	3	2	4	1	2	2	4	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:105001556G>A	uc003yls.2	+	15	2526	c.2285G>A	c.(2284-2286)CGA>CAA	p.R762Q	RIMS2_uc003ylp.2_Missense_Mutation_p.R984Q|RIMS2_uc003ylw.2_Missense_Mutation_p.R776Q|RIMS2_uc003ylq.2_Missense_Mutation_p.R776Q|RIMS2_uc003ylr.2_Missense_Mutation_p.R823Q	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1046					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CAGGGGCTTCGAGGGACCCGC	0.393										HNSCC(12;0.0054)			21	75					0	0	1	0	0		A	105001556	A	A	105001556	3	1	66	1	0	0	0	0	1	0	0	0	13393	1058	37	1	3143	1	RIMS2	8	105001556	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	103906	105001556	41362466	686	44762											
ATAD2	29028	broad.mit.edu	37	chr8	124346559	124346559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctctatgcctaataagaCgatctatgaagtgagtaaaa	16	10	9	6	1	2	3	0	2	2	1	2	4	2	3	1	1	1	2	1	1	7	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:124346559C>T	uc003yqh.3	-	23	3323	c.3215G>A	c.(3214-3216)CGT>CAT	p.R1072H	ATAD2_uc011lii.1_Missense_Mutation_p.R863H|ATAD2_uc003yqi.3_RNA	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	1072					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			CCTAATAAGACGATCTATGAA	0.328													6	25					0	0	1	0	0		T	124346559	T	T	124346559	3	4	66	1	0	0	0	0	1	0	0	0	1072	536	19	1	981	1	ATAD2	8	124346559	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	19345003	124346559	22017463	687	44763											
FER1L6	654463	broad.mit.edu	37	chr8	125072848	125072848	+	Frame_Shift_Del	DEL	T	-	-																															ctcctctctgtggatcggccTcaggctctcattgagtgcgg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:125072848delT	uc003yqw.2	+	24	3251	c.3045delT	c.(3043-3045)CCTfs	p.P1015fs	uc003yqy.1_RNA	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1015	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TGGATCGGCCTCAGGCTCTCA	0.547													22	36	---	---	---	---						.	-	125072848	-	-	125072848	7	5	66	1	0	1	0	1	0	0	0	0	5829	1538	54	0	3135	0	FER1L6	8	125072848	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	726289	125072848	21291174	688	44764											
EFR3A	23167	broad.mit.edu	37	chr8	132968153	132968153	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgttagaccagtttttgcGtaagtagttggtgttttcct	6	18	11	6	1	0	1	0	0	0	1	1	1	1	1	2	1	1	7	2	1	3	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:132968153G>A	uc003yte.2	+	7	977	c.776_splice	c.e7+1	p.A259_splice		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A							plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			CAGTTTTTGCGTAAGTAGTTG	0.373													12	34					0	0	1	0	0		A	132968153	A	A	132968153	5	1	66	1	0	0	0	0	0	0	1	0	4964	1159	40	1	803	1	EFR3A	8	132968153	Splice_Site	SNP	G	TCGA-BR-8361-01A-11D-2340-08	7895305	132968153	13395869	689	44765											
PHF20L1	51105	broad.mit.edu	37	chr8	133790151	133790151	+	Frame_Shift_Del	DEL	A	-	-																															ggaggcactggactacttacAaaaatggtatggaaaatata																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:133790151delA	uc003ytt.2	+	2	402	c.77delA	c.(76-78)CAAfs	p.Q26fs	PHF20L1_uc003ytr.2_Frame_Shift_Del_p.Q26fs|PHF20L1_uc010mdv.2_Frame_Shift_Del_p.Q26fs|PHF20L1_uc003yts.2_Frame_Shift_Del_p.Q26fs|PHF20L1_uc011lja.1_Frame_Shift_Del_p.Q26fs|PHF20L1_uc003ytu.1_RNA|PHF20L1_uc003ytq.2_Frame_Shift_Del_p.Q26fs	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	26	Tudor 1.						nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			GACTACTTACAAAAATGGTAT	0.363													28	63	---	---	---	---						.	-	133790151	-	-	133790151	7	5	66	1	0	1	0	1	0	0	0	0	11851	130	5	0	79	0	PHF20L1	8	133790151	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	821998	133790151	12573871	690	44766											
TG	7038	broad.mit.edu	37	chr8	133900585	133900585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacccttctctgcaagatGtcccactagcagcactggaa	12	9	7	13	0	1	1	0	0	1	1	3	2	2	2	2	1	4	3	2	1	5	3	rs115070736	by1000genomes	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:133900585G>A	uc003ytw.2	+	10	2574	c.2533G>A	c.(2533-2535)GTC>ATC	p.V845I		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	845	Thyroglobulin type-1 7.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCTGCAAGATGTCCCACTAGC	0.527													17	50					0	0	1	0	0		A	133900585	A	A	133900585	3	1	66	1	0	0	0	0	1	0	0	0	15838	1377	48	4	2571	4	TG	8	133900585	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	110434	133900585	12463437	691	44767											
TG	7038	broad.mit.edu	37	chr8	133923712	133923712	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggagcgtttaggagtgAatgttacatggaaatcacgg	12	9	14	6	2	1	1	1	1	0	0	1	4	1	4	1	4	2	2	1	4	4	3	rs142264604		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:133923712A>G	uc003ytw.2	+	19	4134	c.4093A>G	c.(4093-4095)AAT>GAT	p.N1365D	TG_uc010mdw.2_Missense_Mutation_p.N124D	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1365					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TTTAGGAGTGAATGTTACATG	0.443													32	72					0	0	1	0	0		G	133923712	G	G	133923712	3	3	66	1	0	0	0	0	1	0	0	0	15838	246	9	3	4167	3	TG	8	133923712	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	23127	133923712	12440310	692	44768											
FAM135B	51059	broad.mit.edu	37	chr8	139164495	139164495	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgagagaagcctggatgccGcttggcaaacttgtgttact	9	11	13	8	1	0	2	0	1	0	1	0	4	0	3	2	2	4	3	2	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:139164495G>A	uc003yuy.2	-	13	2394	c.2223C>T	c.(2221-2223)AGC>AGT	p.S741S	FAM135B_uc003yux.2_Silent_p.S642S|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Silent_p.S303S|FAM135B_uc003yvb.2_Silent_p.S303S	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	741										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CCTGGATGCCGCTTGGCAAAC	0.527										HNSCC(54;0.14)			11	28					0	0	1	0	0		A	139164495	A	A	139164495	2	1	66	1	0	0	0	0	0	0	0	1	5460	1078	38	1		1	FAM135B	8	139164495	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5240783	139164495	7199527	693	44769											
KCNK9	51305	broad.mit.edu	37	chr8	140630920	140630920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaggttgaggaaggcccCgatgaccgtcagccccacca	10	4	12	15	2	1	2	1	2	0	0	1	5	1	3	7	3	1	1	7	3	1	1	rs121908332		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:140630920C>T	uc003yvf.1	-	2	770	c.706G>A	c.(706-708)GGG>AGG	p.G236R	KCNK9_uc003yvg.1_Missense_Mutation_p.G236R|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	236	Helical; (Potential).		G -> R (in BIBAS; inactive).			integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			AGGAAGGCCCCGATGACCGTC	0.597													17	34					0	0	1	0	0		T	140630920	T	T	140630920	3	4	66	1	0	0	0	0	1	0	0	0	8088	652	23	1	422	1	KCNK9	8	140630920	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1466425	140630920	5733102	694	44770											
DENND3	22898	broad.mit.edu	37	chr8	142176321	142176321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctaagtccaaggagacCgaccgttgagaaaagagcct	13	7	11	10	2	1	3	0	1	1	3	2	6	2	3	4	1	1	2	4	1	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:142176321C>T	uc003yvy.2	+	12	1624	c.1346C>T	c.(1345-1347)CCG>CTG	p.P449L	DENND3_uc010mep.2_Missense_Mutation_p.P410L|DENND3_uc003yvz.1_Missense_Mutation_p.P133L	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	449										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			CCAAGGAGACCGACCGTTGAG	0.483													42	111					0	0	1	0	0		T	142176321	T	T	142176321	3	4	66	1	0	0	0	0	1	0	0	0	4438	652	23	1	1388	1	DENND3	8	142176321	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1545401	142176321	4187701	695	44771											
DENND3	22898	broad.mit.edu	37	chr8	142176445	142176445	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcacccaggaactcctcGctccggctgacggacaccgc	7	5	11	18	4	0	1	0	1	0	0	3	3	2	3	4	4	1	3	4	4	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:142176445G>A	uc003yvy.2	+	12	1748	c.1470G>A	c.(1468-1470)TCG>TCA	p.S490S	DENND3_uc010mep.2_Silent_p.S451S|DENND3_uc003yvz.1_Silent_p.S174S	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	490										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			GGAACTCCTCGCTCCGGCTGA	0.657													18	51					0	0	1	0	0		A	142176445	A	A	142176445	2	1	66	1	0	0	0	0	0	0	0	1	4438	1074	38	1		1	DENND3	8	142176445	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	124	142176445	4187577	696	44772											
CYP11B1	1584	broad.mit.edu	37	chr8	143956560	143956560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagagtagaggaacacgCgcaccaatgtctgcggacgg	12	4	14	11	4	1	2	0	0	1	2	1	5	1	4	2	3	2	2	2	3	3	1	rs4998896		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:143956560C>T	uc003yxi.2	-	8	1218	c.1211G>A	c.(1210-1212)CGC>CAC	p.R404H	CYP11B1_uc010mex.2_Missense_Mutation_p.R103H|CYP11B1_uc003yxh.2_Intron|CYP11B1_uc003yxj.2_Intron|CYP11B1_uc010mey.2_Missense_Mutation_p.R475H	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	404					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	GAGGAACACGCGCACCAATGT	0.647									Familial_Hyperaldosteronism_type_I				11	27					0	0	1	0	0		T	143956560	T	T	143956560	3	4	66	1	0	0	0	0	1	0	0	0	4148	768	27	1	308	1	CYP11B1	8	143956560	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1780115	143956560	2407462	697	44773											
PLEC	5339	broad.mit.edu	37	chr8	144998376	144998376	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccagccccttctgccgCtccagctcgctgtccgatgc	4	9	8	20	3	1	0	0	0	1	0	5	1	4	0	7	0	4	3	7	0	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:144998376C>A	uc003zaf.1	-	31	6302	c.6132G>T	c.(6130-6132)GAG>GAT	p.E2044D	PLEC_uc003zab.1_Missense_Mutation_p.E1907D|PLEC_uc003zac.1_Missense_Mutation_p.E1911D|PLEC_uc003zad.2_Missense_Mutation_p.E1907D|PLEC_uc003zae.1_Missense_Mutation_p.E1875D|PLEC_uc003zag.1_Missense_Mutation_p.E1885D|PLEC_uc003zah.2_Missense_Mutation_p.E1893D|PLEC_uc003zaj.2_Missense_Mutation_p.E1934D	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2044	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CCTTCTGCCGCTCCAGCTCGC	0.701													6	24					8.12818e-05	8.26389e-05	1	1	0		A	144998376	A	A	144998376	3	1	66	1	0	0	0	0	1	0	0	0	12071	796	28	5	7930	5	PLEC	8	144998376	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1041816	144998376	1365646	698	44774											
ADCK5	203054	broad.mit.edu	37	chr8	145617837	145617837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccatgctgctggtgctgcGcaacatcaacaccgtgcgcg	7	7	12	15	4	1	0	1	0	0	0	1	0	1	0	2	1	7	4	2	1	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:145617837G>A	uc003zch.2	+	13	1499	c.1445G>A	c.(1444-1446)CGC>CAC	p.R482H	ADCK5_uc003zcg.2_RNA|ADCK5_uc003zci.2_Missense_Mutation_p.R71H	NM_174922	NP_777582	Q3MIX3	ADCK5_HUMAN	aarF domain containing kinase 5	482						integral to membrane	protein serine/threonine kinase activity			stomach(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;8.96e-41)|Epithelial(56;4.08e-40)|all cancers(56;4.51e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			CTGGTGCTGCGCAACATCAAC	0.687													5	6					0	0	1	0	0		A	145617837	A	A	145617837	3	1	66	1	0	0	0	0	1	0	0	0	291	1087	38	1	1495	1	ADCK5	8	145617837	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	619461	145617837	746185	699	44775											
PPP1R16A	84988	broad.mit.edu	37	chr8	145727027	145727027	+	Frame_Shift_Del	DEL	C	-	-																															gagccccctggacagcaccaCcccccacaccctggtccacg																								rs139247503	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr8:145727027delC	uc003zdd.2	+	11	2241	c.1328delC	c.(1327-1329)ACCfs	p.T443fs	uc003zde.1_5'Flank|PPP1R16A_uc003zdf.2_Frame_Shift_Del_p.T443fs|GPT_uc011lli.1_5'Flank|GPT_uc011llj.1_5'Flank|GPT_uc003zdh.3_5'Flank	NM_032902	NP_116291	Q96I34	PP16A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	443						plasma membrane	protein binding				0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			GACAGCACCACCCCCCACACC	0.672													5	5	---	---	---	---						.	-	145727027	-	-	145727027	7	5	66	1	0	1	0	1	0	0	0	0	12387	507	18	0	1366	0	PPP1R16A	8	145727027	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	109190	145727027	636995	700	44776											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													17	143					0	0	1	0	0		G	164038	G	G	164038	5	3	66	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-8361-01A-11D-2340-08		164038	141049393	701	44777											
CNTLN	54875	broad.mit.edu	37	chr9	17464503	17464503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttttttcaaggatatctcGaatggagagggatataacta	13	15	9	4	1	2	1	1	0	1	1	3	5	2	3	0	3	1	0	0	3	6	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:17464503G>A	uc003zmz.2	+	21	3436	c.3410G>A	c.(3409-3411)CGA>CAA	p.R1137Q	CNTLN_uc003zmy.2_Missense_Mutation_p.R1138Q|CNTLN_uc010mio.2_Missense_Mutation_p.R817Q	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	1138	Potential.					centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		AGGATATCTCGAATGGAGAGG	0.303													41	112					0	0	1	0	0		A	17464503	A	A	17464503	3	1	66	1	0	0	0	0	1	0	0	0	3642	1058	37	1	3525	1	CNTLN	9	17464503	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	17300465	17464503	123748928	702	44778											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18777073	18777073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcgtctacacctgctcagCgggcccggcccgggagcact	6	5	14	16	4	2	0	1	0	1	0	2	1	2	1	3	4	4	2	3	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:18777073C>T	uc003zne.3	+	19	2973	c.2846C>T	c.(2845-2847)GCG>GTG	p.A949V		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	949	Ig-like C2-type 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		ACCTGCTCAGCGGGCCCGGCC	0.642													20	43					0	0	1	0	0		T	18777073	T	T	18777073	3	4	66	1	0	0	0	0	1	0	0	0	274	768	27	1	2924	1	ADAMTSL1	9	18777073	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1312570	18777073	122436358	703	44779											
ACER2	340485	broad.mit.edu	37	chr9	19423933	19423933	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagtatgcaacatgcttcaAcagtggcatctacttaatct	12	13	6	10	0	4	0	2	0	2	0	4	0	4	0	0	1	5	4	0	1	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:19423933A>G	uc003zny.1	+	2	340	c.182A>G	c.(181-183)AAC>AGC	p.N61S	ACER2_uc003znx.1_RNA|ACER2_uc003znz.1_Missense_Mutation_p.N12S	NM_001010887	NP_001010887	Q5QJU3	ACER2_HUMAN	alkaline ceramidase 2	61	Cytoplasmic (Potential).				ceramide metabolic process|negative regulation of cell adhesion mediated by integrin|negative regulation of cell-matrix adhesion|negative regulation of protein glycosylation in Golgi|positive regulation of cell proliferation|response to retinoic acid|sphingosine biosynthetic process	integral to Golgi membrane	ceramidase activity			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2						ACATGCTTCAACAGTGGCATC	0.428													35	95					0	0	1	0	0		G	19423933	G	G	19423933	3	3	66	1	0	0	0	0	1	0	0	0	139	43	2	3	188	3	ACER2	9	19423933	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	646860	19423933	121789498	704	44780											
MLLT3	4300	broad.mit.edu	37	chr9	20414337	20414337	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgctgctgctgctgctGctgctactgctgctgctgct	1	14	12	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	12	0	0	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:20414337G>A	uc003zoe.2	-	5	766	c.507C>T	c.(505-507)AGC>AGT	p.S169S	MLLT3_uc011lne.1_Silent_p.S137S|MLLT3_uc011lnf.1_Silent_p.S166S|MLLT3_uc003zof.2_5'UTR|MLLT3_uc011lng.1_Missense_Mutation_p.A131V	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	169	Poly-Ser.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		tgctgctgctgctgctactgc	0.149			T	MLL	ALL								17	45					0	0	1	0	0		A	20414337	A	A	20414337	2	1	66	1	0	0	0	0	0	0	0	1	9646	1310	46	2		2	MLLT3	9	20414337	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	990404	20414337	120799094	705	44781											
KIAA1797	54914	broad.mit.edu	37	chr9	20866997	20866997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggagaacacaccattcttCatctgcctgaaaaggtaggc	13	8	9	11	0	3	2	1	1	2	1	3	3	3	2	2	3	2	1	2	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:20866997C>T	uc003zog.1	+	20	2539	c.2176C>T	c.(2176-2178)CAT>TAT	p.H726Y	KIAA1797_uc003zoh.1_Missense_Mutation_p.H162Y	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	726						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		CACCATTCTTCATCTGCCTGA	0.373													6	91					0	0	1	0	0		T	20866997	T	T	20866997	3	4	66	1	0	0	0	0	1	0	0	0	8274	826	29	4	2242	4	KIAA1797	9	20866997	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	452660	20866997	120346434	706	44782											
KIAA1797	54914	broad.mit.edu	37	chr9	20912931	20912931	+	Frame_Shift_Del	DEL	A	-	-																															aacctgaggaggtgcagtacAaaaaaagcacagcctggctc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:20912931delA	uc003zog.1	+	25	3148	c.2785delA	c.(2785-2787)AAAfs	p.K929fs	KIAA1797_uc003zoh.1_Frame_Shift_Del_p.K365fs	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	929						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		GGTGCAGTACAAAAAAAGCAC	0.438													14	15	---	---	---	---						.	-	20912931	-	-	20912931	7	5	66	1	0	1	0	1	0	0	0	0	8274	131	5	0	2871	0	KIAA1797	9	20912931	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	45934	20912931	120300500	707	44783											
KIAA1797	54914	broad.mit.edu	37	chr9	20986390	20986390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgttgctgtgcagcaccGtgagaaagaggtgttggcct	8	9	16	8	2	0	2	0	1	0	2	0	4	0	2	2	2	4	5	2	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:20986390G>A	uc003zog.1	+	42	5195	c.4832G>A	c.(4831-4833)CGT>CAT	p.R1611H	KIAA1797_uc003zoh.1_Missense_Mutation_p.R1047H	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	1611						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		GTGCAGCACCGTGAGAAAGAG	0.507													17	35					0	0	1	0	0		A	20986390	A	A	20986390	3	1	66	1	0	0	0	0	1	0	0	0	8274	1145	40	1	4986	1	KIAA1797	9	20986390	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	73459	20986390	120227041	708	44784											
IFNA6	3443	broad.mit.edu	37	chr9	21350366	21350366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agtttcttgatgaagagaagGatctcatgatttctgctctg	10	15	10	6	0	4	4	1	3	4	1	5	6	4	5	0	1	1	2	0	1	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:21350366G>A	uc011lni.1	-	1	521	c.521C>T	c.(520-522)TCC>TTC	p.S174F		NM_021002	NP_066282	P05013	IFNA6_HUMAN	interferon, alpha 6 precursor	174					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		TGAAGAGAAGGATCTCATGAT	0.448													101	221					0	0	1	0	0		A	21350366	A	A	21350366	3	1	66	1	0	0	0	0	1	0	0	0	7557	1174	41	4	50	4	IFNA6	9	21350366	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	363976	21350366	119863065	709	44785											
IFNA6	3443	broad.mit.edu	37	chr9	21350769	21350769	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcctcatttgtgccaggaGcatcatggtcctcctgtgac	6	13	9	13	0	3	1	2	1	1	0	6	2	5	2	4	2	2	1	4	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:21350769G>T	uc011lni.1	-	1	118	c.118C>A	c.(118-120)CTC>ATC	p.L40I		NM_021002	NP_066282	P05013	IFNA6_HUMAN	interferon, alpha 6 precursor	40					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		TGTGCCAGGAGCATCATGGTC	0.522													44	75					1.22674e-20	1.32503e-20	1	1	0		T	21350769	T	T	21350769	3	4	66	1	0	0	0	0	1	0	0	0	7557	971	34	5	453	5	IFNA6	9	21350769	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	403	21350769	119862662	710	44786											
ELAVL2	1993	broad.mit.edu	37	chr9	23705056	23705056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatagaagctgaacttgggCgagcataggaaacctggaaa	15	7	13	6	1	0	3	0	2	0	1	0	6	0	5	1	3	4	2	1	3	6	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:23705056C>T	uc003zpu.2	-	4	622	c.347G>A	c.(346-348)CGC>CAC	p.R116H	ELAVL2_uc003zps.2_Missense_Mutation_p.R116H|ELAVL2_uc003zpt.2_Missense_Mutation_p.R116H|ELAVL2_uc003zpv.2_Missense_Mutation_p.R116H|ELAVL2_uc003zpw.2_Missense_Mutation_p.R116H	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	116	RRM 1.				regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		TGAACTTGGGCGAGCATAGGA	0.398													29	54					0	0	1	0	0		T	23705056	T	T	23705056	3	4	66	1	0	0	0	0	1	0	0	0	5058	768	27	1	748	1	ELAVL2	9	23705056	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2354287	23705056	117508375	711	44787											
DNAJB5	25822	broad.mit.edu	37	chr9	34996396	34996396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcttctttgccagcagcCgctccactcggcccttcagt	6	12	7	16	2	3	0	1	0	2	0	5	0	4	0	4	1	3	2	4	1	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:34996396C>T	uc003zvt.2	+	3	484	c.346C>T	c.(346-348)CGC>TGC	p.R116C	DNAJB5_uc003zvs.2_Missense_Mutation_p.R150C|DNAJB5_uc011los.1_Missense_Mutation_p.R188C	NM_012266	NP_036398	O75953	DNJB5_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 5	116					protein folding|response to unfolded protein		heat shock protein binding|unfolded protein binding				0			LUSC - Lung squamous cell carcinoma(32;0.00575)			TGCCAGCAGCCGCTCCACTCG	0.552													18	54					0	0	1	0	0		T	34996396	T	T	34996396	3	4	66	1	0	0	0	0	1	0	0	0	4629	652	23	1	572	1	DNAJB5	9	34996396	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	11291340	34996396	106217035	712	44788											
UNC13B	10497	broad.mit.edu	37	chr9	35403977	35403977	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcaatgacgaggtggccCgagaatttgtgaaactcaaa	14	7	13	7	2	1	3	1	2	0	1	1	6	1	4	1	3	2	1	1	3	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:35403977C>T	uc003zwq.2	+	39	5015	c.4723C>T	c.(4723-4725)CGA>TGA	p.R1575*	UNC13B_uc003zwr.2_Nonsense_Mutation_p.R1594*|ATP8B5P_uc010mkn.1_5'Flank|ATP8B5P_uc010mko.2_5'Flank|ATP8B5P_uc010mkp.2_5'Flank|ATP8B5P_uc003zwu.2_5'Flank	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	1575					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			CGAGGTGGCCCGAGAATTTGT	0.532													16	31					0	0	1	0	0		T	35403977	T	T	35403977	4	4	66	1	0	0	0	0	0	1	0	0	17011	644	23	1	4877	1	UNC13B	9	35403977	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	407581	35403977	105809454	713	44789											
TLN1	7094	broad.mit.edu	37	chr9	35708384	35708384	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaactctggcaggccatcTgaattgcctggtttgcacgg	8	10	11	12	1	2	1	0	1	2	0	2	1	2	1	3	4	3	3	3	4	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:35708384T>C	uc003zxt.2	-	34	4778	c.4424A>G	c.(4423-4425)CAG>CGG	p.Q1475R		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1475	Interaction with SYNM.				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GCAGGCCATCTGAATTGCCTG	0.592													21	42					0	0	1	0	0		C	35708384	C	C	35708384	3	2	66	1	0	0	0	0	1	0	0	0	15972	1580	55	3	3297	3	TLN1	9	35708384	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	304407	35708384	105505047	714	44790											
FAM75A6	389730	broad.mit.edu	37	chr9	43627776	43627776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggtctctggtgggtggCgggaaagaggatcttgctgg	7	9	19	6	1	2	1	0	0	2	1	3	4	2	3	0	7	1	1	0	7	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:43627776C>T	uc011lrb.1	-	4	940	c.911G>A	c.(910-912)CGC>CAC	p.R304H		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	304						integral to membrane					0						TGGTGGGTGGCGGGAAAGAGG	0.547													118	237					0	0	1	0	0		T	43627776	T	T	43627776	3	4	66	1	0	0	0	0	1	0	0	0	5636	768	27	1	3124	1	FAM75A6	9	43627776	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	7919392	43627776	97585655	715	44791											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													9	74					0	0	1	0	0		G	70993145	G	G	70993145	3	3	66	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	27365369	70993145	70220286	716	44792											
PIP5K1B	8395	broad.mit.edu	37	chr9	71606165	71606165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatgcttctgtgcttgacGtctatttagtaagtaatttt	10	18	7	6	1	2	1	0	1	2	0	2	1	2	1	0	0	2	4	0	0	5	9			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:71606165G>A	uc004agu.2	+	15	1917	c.1612G>A	c.(1612-1614)GTC>ATC	p.V538I	PIP5K1B_uc011lrq.1_Intron|PIP5K1B_uc004agv.2_RNA	NM_003558	NP_003549	O14986	PI51B_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	538						endomembrane system|membrane|uropod	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|protein binding			stomach(1)	1				Lung(182;0.133)		TGTGCTTGACGTCTATTTAGT	0.438													5	30					0	0	1	0	0		A	71606165	A	A	71606165	3	1	66	1	0	0	0	0	1	0	0	0	11959	1145	40	1	1658	1	PIP5K1B	9	71606165	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	613020	71606165	69607266	717	44793											
TMEM2	23670	broad.mit.edu	37	chr9	74312964	74312964	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatccgcttgaccactgaCggctttctgtagtactgtgg	6	12	12	11	2	1	2	0	2	1	0	2	2	2	2	2	3	1	5	2	3	2	4	rs142314012	by1000genomes	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:74312964C>T	uc011lsa.1	-	20	4074	c.3534G>A	c.(3532-3534)CCG>CCA	p.P1178P	TMEM2_uc011lrz.1_Silent_p.P171P|TMEM2_uc010mos.2_Silent_p.P1115P|TMEM2_uc011lsb.1_RNA|TMEM2_uc004aik.2_Silent_p.P12P	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	1178						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		TGACCACTGACGGCTTTCTGT	0.522													22	49					0	0	1	0	0		T	74312964	T	T	74312964	2	4	66	1	0	0	0	0	0	0	0	1	16146	523	19	1		1	TMEM2	9	74312964	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2706799	74312964	66900467	718	44794											
TRPM6	140803	broad.mit.edu	37	chr9	77415270	77415270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagggtcgtaatcctcccGacacggccagtttaaggcag	11	7	11	12	3	0	0	0	0	0	0	3	1	2	0	3	3	0	3	3	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:77415270G>A	uc004ajl.1	-	17	2376	c.2138C>T	c.(2137-2139)TCG>TTG	p.S713L	TRPM6_uc004ajk.1_Missense_Mutation_p.S708L|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_Missense_Mutation_p.S91L	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	713	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						TAATCCTCCCGACACGGCCAG	0.483													31	61					0	0	1	0	0		A	77415270	A	A	77415270	3	1	66	1	0	0	0	0	1	0	0	0	16616	1059	37	1	4022	1	TRPM6	9	77415270	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3102306	77415270	63798161	719	44795											
VPS13A	23230	broad.mit.edu	37	chr9	79931169	79931169	+	Frame_Shift_Del	DEL	A	-	-																															gtgtttgtagctgacatgacAaaaaatgatgctcctgcttt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:79931169delA	uc004akr.2	+	39	4970	c.4710delA	c.(4708-4710)ACAfs	p.T1570fs	VPS13A_uc004akp.3_Frame_Shift_Del_p.T1570fs|VPS13A_uc004akq.3_Frame_Shift_Del_p.T1570fs|VPS13A_uc004aks.2_Frame_Shift_Del_p.T1531fs|VPS13A_uc004akt.2_5'Flank|VPS13A_uc010mpo.1_Frame_Shift_Del_p.T166fs	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1570					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						CTGACATGACAAAAAATGATG	0.308													34	78	---	---	---	---						.	-	79931169	-	-	79931169	7	5	66	1	0	1	0	1	0	0	0	0	17215	117	5	0	4864	0	VPS13A	9	79931169	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	2515899	79931169	61282262	720	44796											
KIF27	55582	broad.mit.edu	37	chr9	86495258	86495258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactgcatccagttgcttcCttttttcattttcttctcgt	4	22	4	11	1	3	0	1	0	2	0	6	0	5	0	2	0	3	3	2	0	1	9			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:86495258C>T	uc004ana.2	-	11	2741	c.2597G>A	c.(2596-2598)AGG>AAG	p.R866K	KIF27_uc010mpw.2_Intron|KIF27_uc010mpx.2_Missense_Mutation_p.R866K	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	866	Potential.				cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						CAGTTGCTTCCTTTTTTCATT	0.348													19	65					0	0	1	0	0		T	86495258	T	T	86495258	3	4	66	1	0	0	0	0	1	0	0	0	8312	681	24	4	1640	4	KIF27	9	86495258	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	6564089	86495258	54718173	721	44797											
NAA35	60560	broad.mit.edu	37	chr9	88624836	88624836	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcgactcctttgttactcActgtgttcgggtaagagcta	8	15	9	9	2	1	1	1	0	0	1	4	2	2	1	1	1	2	4	1	1	4	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:88624836A>C	uc004aoi.3	+	15	1417	c.1280A>C	c.(1279-1281)CAC>CCC	p.H427P	NAA35_uc004aoj.3_Missense_Mutation_p.H427P	NM_024635	NP_078911	Q5VZE5	NAA35_HUMAN	corneal wound healing-related protein	427					smooth muscle cell proliferation	cytoplasm|nucleus|plasma membrane				skin(2)|central_nervous_system(1)	3						TTTGTTACTCACTGTGTTCGG	0.318													51	105					0	0	1	0	0		C	88624836	C	C	88624836	3	2	66	1	0	0	0	0	1	0	0	0	10141	159	6	5	1334	5	NAA35	9	88624836	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2129578	88624836	52588595	722	44798											
SYK	6850	broad.mit.edu	37	chr9	93607823	93607823	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttccatggaaaaatctctcgGgaagaatctgagcaaattgt	14	11	9	7	1	2	2	0	1	2	1	5	4	3	4	1	2	1	1	1	2	5	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:93607823G>T	uc004aqz.2	+	3	730	c.525G>T	c.(523-525)CGG>CGT	p.R175R	SYK_uc004aqy.2_Silent_p.R175R|SYK_uc004ara.2_Silent_p.R175R|SYK_uc004arb.2_Silent_p.R175R|SYK_uc004arc.2_Silent_p.R175R|SYK_uc011ltr.1_RNA|SYK_uc011lts.1_RNA|SYK_uc011ltt.1_RNA	NM_003177	NP_003168	P43405	KSYK_HUMAN	spleen tyrosine kinase isoform 1	175	SH2 2.				cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						AAATCTCTCGGGAAGAATCTG	0.507			T	ETV6|ITK	MDS|peripheral T-cell lymphoma								16	38					2.23348e-06	2.2999e-06	1	1	0		T	93607823	T	T	93607823	2	4	66	1	0	0	0	0	0	0	0	1	15463	1219	43	5		5	SYK	9	93607823	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4982987	93607823	47605608	723	44799											
FBP2	8789	broad.mit.edu	37	chr9	97325689	97325689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatagaccagggtgcggtGcacgtcagccaccatggagc	9	6	13	13	2	1	1	1	0	0	1	2	2	2	2	4	3	4	1	4	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:97325689G>A	uc004auv.2	-	6	827	c.760C>T	c.(760-762)CAC>TAC	p.H254Y	uc004aus.1_Intron|uc004aut.1_Intron|uc004auu.2_Intron	NM_003837	NP_003828	O00757	F16P2_HUMAN	fructose-1,6-bisphosphatase 2	254					fructose metabolic process|gluconeogenesis	cytosol	fructose 1,6-bisphosphate 1-phosphatase activity|fructose-2,6-bisphosphate 2-phosphatase activity|metal ion binding				0		Acute lymphoblastic leukemia(62;0.136)				AGGGTGCGGTGCACGTCAGCC	0.557													20	52					0	0	1	0	0		A	97325689	A	A	97325689	3	1	66	1	0	0	0	0	1	0	0	0	5720	1319	46	2	267	2	FBP2	9	97325689	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3717866	97325689	43887742	724	44800											
C9orf102	375748	broad.mit.edu	37	chr9	98678529	98678529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggctgtgccaggccttttagGgagtgggacctacttcaaga	8	10	14	9	0	1	1	1	0	0	1	1	3	1	3	3	4	2	1	3	4	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:98678529G>A	uc004avt.3	+	6	1392	c.1004G>A	c.(1003-1005)GGG>GAG	p.G335E	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Missense_Mutation_p.G37E|C9orf102_uc010mry.1_Missense_Mutation_p.G37E|C9orf102_uc010mrz.2_Missense_Mutation_p.G146E	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	335					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				GGCCTTTTAGGGAGTGGGACC	0.423													16	32					0	0	1	0	0		A	98678529	A	A	98678529	3	1	66	1	0	0	0	0	1	0	0	0	2448	1232	43	4	1026	4	C9orf102	9	98678529	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1352840	98678529	42534902	725	44801											
ZNF367	195828	broad.mit.edu	37	chr9	99150630	99150630	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcccctctcttctcgtcGtcctcttcatcagactgaag	5	13	8	15	2	5	2	2	1	3	1	9	2	6	2	3	1	0	0	3	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:99150630G>A	uc004awf.2	-	5	1297	c.942C>T	c.(940-942)GAC>GAT	p.D314D		NM_153695	NP_710162	Q7RTV3	ZN367_HUMAN	zinc finger protein 367	314	Potential.				regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0167)				TCTTCTCGTCGTCCTCTTCAT	0.622													16	37					0	0	1	0	0		A	99150630	A	A	99150630	2	1	66	1	0	0	0	0	0	0	0	1	17896	1136	40	1		1	ZNF367	9	99150630	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	472101	99150630	42062801	726	44802											
GABBR2	9568	broad.mit.edu	37	chr9	101125082	101125082	+	Frame_Shift_Del	DEL	C	-	-																															acaggtcgatcagcagcatgCcccccacgatcacaagcagt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:101125082delC	uc004ays.2	-	13	1964	c.1808delG	c.(1807-1809)GGCfs	p.G603fs		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	603	Helical; Name=4; (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	CAGCAGCATGCCCCCCACGAT	0.582													15	27	---	---	---	---						.	-	101125082	-	-	101125082	7	5	66	1	0	1	0	1	0	0	0	0	6170	739	26	0	1045	0	GABBR2	9	101125082	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	1974452	101125082	40088349	727	44803											
GABBR2	9568	broad.mit.edu	37	chr9	101151210	101151210	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaggatggtgagggcagaGaggatgctgtagagaggtag	11	6	20	4	1	0	3	0	1	0	2	0	8	0	5	1	5	1	4	1	5	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:101151210G>T	uc004ays.2	-	10	1611	c.1455C>A	c.(1453-1455)CTC>CTA	p.L485L		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	485	Helical; Name=1; (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	TGAGGGCAGAGAGGATGCTGT	0.512													33	80					2.08457e-15	2.22707e-15	1	1	0		T	101151210	T	T	101151210	2	4	66	1	0	0	0	0	0	0	0	1	6170	929	33	5		5	GABBR2	9	101151210	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	26128	101151210	40062221	728	44804											
GABBR2	9568	broad.mit.edu	37	chr9	101304265	101304265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgtctgatgggacggtccGaaagaaataagggtattttt	12	13	12	4	2	1	2	0	1	1	1	2	4	2	3	1	3	0	1	1	3	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:101304265G>A	uc004ays.2	-	3	676	c.520C>T	c.(520-522)CGG>TGG	p.R174W		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	174	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	GGGACGGTCCGAAAGAAATAA	0.478													10	38					0	0	1	0	0		A	101304265	A	A	101304265	3	1	66	1	0	0	0	0	1	0	0	0	6170	1057	37	1	2373	1	GABBR2	9	101304265	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	153055	101304265	39909166	729	44805											
GABBR2	9568	broad.mit.edu	37	chr9	101304280	101304281	+	Frame_Shift_Ins	INS	-	T	T																															gtccgaaagaaataagggtaINSttttttcttatcggctagaa																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:101304280_101304281insT	uc004ays.2	-	3	660_661	c.504_505insA	c.(502-507)AAATACfs	p.K168fs		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	168_169	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	AAATAAGGGTATTTTTTCTTAT	0.485													21	29	---	---	---	---						.	T	101304281	T	T	101304280	7	5	66	1	0	1	1	0	0	0	0	0	6170	449	16	0	2388	0	GABBR2	9	101304280	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	15	101304280	39909151	730	44806											
ANKS6	203286	broad.mit.edu	37	chr9	101542559	101542559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaggctggtggctcggcCggcctttgtctttattcacc	3	12	15	11	2	2	0	1	0	1	0	3	1	2	1	3	7	0	2	3	7	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:101542559C>T	uc004ayu.2	-	6	1301	c.1280G>A	c.(1279-1281)CGG>CAG	p.R427Q	ANKS6_uc004ayt.2_Missense_Mutation_p.R126Q|ANKS6_uc004ayv.1_5'Flank|ANKS6_uc004ayw.1_Missense_Mutation_p.R9Q|ANKS6_uc004ayx.1_RNA|ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	427										ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				GTGGCTCGGCCGGCCTTTGTC	0.547													8	11					0	0	1	0	0		T	101542559	T	T	101542559	3	4	66	1	0	0	0	0	1	0	0	0	692	652	23	1	1375	1	ANKS6	9	101542559	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	238279	101542559	39670872	731	44807											
MRPL50	54534	broad.mit.edu	37	chr9	104152754	104152754	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcttccgaattgcttagtaActccaagtgattttcaaatt	11	16	5	9	1	2	1	1	1	1	0	4	2	4	1	2	0	2	2	2	0	5	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:104152754A>T	uc004bbe.2	-	2	516	c.471T>A	c.(469-471)AGT>AGA	p.S157R	MRPL50_uc011lvj.1_Intron	NM_019051	NP_061924	Q8N5N7	RM50_HUMAN	mitochondrial ribosomal protein L50	157						mitochondrion|ribosome					0		Acute lymphoblastic leukemia(62;0.0559)				TTGCTTAGTAACTCCAAGTGA	0.378													28	69					0	0	1	0	0		T	104152754	T	T	104152754	3	4	66	1	0	0	0	0	1	0	0	0	9832	40	2	5	9	5	MRPL50	9	104152754	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2610195	104152754	37060677	732	44808											
GRIN3A	116443	broad.mit.edu	37	chr9	104390559	104390559	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagatactccactccatcaGgggtggctggaacattgtac	10	10	10	11	0	2	1	2	0	0	1	4	2	4	2	2	4	3	2	2	4	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:104390559G>C	uc004bbp.1	-	4	3078	c.2477C>G	c.(2476-2478)CCT>CGT	p.P826R	GRIN3A_uc004bbq.1_Missense_Mutation_p.P826R	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	826	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	CACTCCATCAGGGGTGGCTGG	0.423													21	45					0	0	1	0	0		C	104390559	C	C	104390559	3	2	66	1	0	0	0	0	1	0	0	0	6799	1000	35	5	894	5	GRIN3A	9	104390559	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	237805	104390559	36822872	733	44809											
GRIN3A	116443	broad.mit.edu	37	chr9	104449065	104449065	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttccatgagcaatgagccCtaagggcagaccctctgtcc	9	10	9	13	0	1	3	0	2	1	1	3	3	3	3	4	1	2	2	4	1	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:104449065C>A	uc004bbp.1	-	2	1718	c.1117G>T	c.(1117-1119)GGG>TGG	p.G373W	GRIN3A_uc004bbq.1_Missense_Mutation_p.G373W	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	373	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	GCAATGAGCCCTAAGGGCAGA	0.517													16	37					1.52009e-12	1.6123e-12	1	1	0		A	104449065	A	A	104449065	3	1	66	1	0	0	0	0	1	0	0	0	6799	681	24	5	2262	5	GRIN3A	9	104449065	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	58506	104449065	36764366	734	44810											
SMC2	10592	broad.mit.edu	37	chr9	106875619	106875619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagatgaagttgaagcatgCtcaacaggaattaaagaata	18	9	9	5	0	2	4	2	2	0	2	2	5	2	5	0	1	3	3	0	1	8	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:106875619C>T	uc004bbv.2	+	11	1565	c.1277C>T	c.(1276-1278)GCT>GTT	p.A426V	SMC2_uc004bbu.1_Missense_Mutation_p.A426V|SMC2_uc004bbw.2_Missense_Mutation_p.A426V|SMC2_uc011lvl.1_Missense_Mutation_p.A426V|SMC2_uc010mth.1_Missense_Mutation_p.A376V|SMC2_uc004bbx.2_Missense_Mutation_p.A426V	NM_001042551	NP_001036016	O95347	SMC2_HUMAN	structural maintenance of chromosomes 2	426	Potential.				cell division|mitotic chromosome condensation|symbiosis, encompassing mutualism through parasitism	condensin complex|cytoplasm|nuclear chromosome	ATP binding|protein heterodimerization activity			ovary(4)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|breast(1)	9						TTGAAGCATGCTCAACAGGAA	0.393													24	79					0	0	1	0	0		T	106875619	T	T	106875619	3	4	66	1	0	0	0	0	1	0	0	0	14808	797	28	2	1315	2	SMC2	9	106875619	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2426554	106875619	34337812	735	44811											
ZNF462	58499	broad.mit.edu	37	chr9	109691637	109691637	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgtctatgcagatgagcAtgagaagcccacactgatgg	11	7	13	10	1	1	4	0	3	1	2	1	5	1	4	2	2	3	2	2	2	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:109691637A>G	uc004bcz.2	+	3	5733	c.5444A>G	c.(5443-5445)CAT>CGT	p.H1815R	ZNF462_uc010mto.2_Missense_Mutation_p.H1663R|ZNF462_uc004bda.2_Missense_Mutation_p.H1663R	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1815					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						GCAGATGAGCATGAGAAGCCC	0.557													17	64					0	0	1	0	0		G	109691637	G	G	109691637	3	3	66	1	0	0	0	0	1	0	0	0	17951	217	8	3	5450	3	ZNF462	9	109691637	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2816018	109691637	31521794	736	44812											
KIAA0368	23392	broad.mit.edu	37	chr9	114246732	114246732	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcctcccgccgaacttctcGgccccggcgctgactcagtc	4	7	10	20	6	2	1	1	1	1	0	5	2	3	1	5	2	1	1	5	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:114246732G>C	uc004bfe.1	-	2	181	c.181C>G	c.(181-183)CGA>GGA	p.R61G	KIAA0368_uc010muc.1_5'Flank	NM_001080398	NP_001073867			KIAA0368 protein												0						CGAACTTCTCGGCCCCGGCGC	0.687													9	12					0	0	1	0	0		C	114246732	C	C	114246732	3	2	66	1	0	0	0	0	1	0	0	0	8187	1124	39	5	6072	5	KIAA0368	9	114246732	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4555095	114246732	26966699	737	44813											
SUSD1	64420	broad.mit.edu	37	chr9	114905861	114905861	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	catgagtgttcacgcatcgcCctccatgcctgcacaggcca	8	8	9	16	2	1	1	1	1	0	0	3	1	2	1	4	1	2	3	4	1	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:114905861C>A	uc004bfu.2	-	4	457	c.416G>T	c.(415-417)GGG>GTG	p.G139V	SUSD1_uc010mui.2_Missense_Mutation_p.G139V|SUSD1_uc010muj.2_Missense_Mutation_p.G139V	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	139	EGF-like 3; calcium-binding (Potential).|Extracellular (Potential).					integral to membrane	calcium ion binding				0						CACGCATCGCCCTCCATGCCT	0.413													31	64					1.06647e-15	1.14076e-15	1	1	0		A	114905861	A	A	114905861	3	1	66	1	0	0	0	0	1	0	0	0	15432	623	22	5	1883	5	SUSD1	9	114905861	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	659129	114905861	26307570	738	44814											
SLC46A2	57864	broad.mit.edu	37	chr9	115652937	115652937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaggcaggtggcccctccGcgggcaggtgacctcggggc	4	4	19	14	4	0	1	0	1	0	0	2	2	1	1	4	7	0	2	4	7	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:115652937G>A	uc004bgk.2	-	1	257	c.25C>T	c.(25-27)CGG>TGG	p.R9W		NM_033051	NP_149040	Q9BY10	TSCOT_HUMAN	solute carrier family 46, member 2	9	Cytoplasmic (Potential).					integral to membrane|plasma membrane	symporter activity			central_nervous_system(1)	1						TGGCCCCTCCGCGGGCAGGTG	0.647													6	18					0	0	1	0	0		A	115652937	A	A	115652937	3	1	66	1	0	0	0	0	1	0	0	0	14670	1086	38	1	1418	1	SLC46A2	9	115652937	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	747076	115652937	25560494	739	44815											
RGS3	5998	broad.mit.edu	37	chr9	116346500	116346500	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcactgcgtgtgcagaactcGctgcggcgccggacgcacag	7	6	14	14	6	1	1	1	0	0	1	2	2	1	2	1	2	4	3	1	2	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:116346500G>A	uc004bhq.2	+	21	3017	c.2808G>A	c.(2806-2808)TCG>TCA	p.S936S	RGS3_uc004bhs.2_Silent_p.S826S|RGS3_uc004bht.2_Silent_p.S655S|RGS3_uc010muy.2_Intron|RGS3_uc004bhv.2_Silent_p.S257S|RGS3_uc010muz.1_Silent_p.S275S|RGS3_uc004bhw.2_Intron|RGS3_uc011lxh.1_Silent_p.S246S|RGS3_uc004bhx.2_Silent_p.S257S|RGS3_uc004bhy.1_Silent_p.S246S|RGS3_uc004bhz.2_Silent_p.S278S	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	936					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						TGCAGAACTCGCTGCGGCGCC	0.682													21	51					0	0	1	0	0		A	116346500	A	A	116346500	2	1	66	1	0	0	0	0	0	0	0	1	13331	1074	38	1		1	RGS3	9	116346500	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	693563	116346500	24866931	740	44816											
COL27A1	85301	broad.mit.edu	37	chr9	116930829	116930829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagctgtcagccagtaacGcacttgatcccatgctccca	10	8	7	16	1	1	1	1	1	0	0	3	1	3	1	4	0	4	4	4	0	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:116930829G>A	uc011lxl.1	+	3	994	c.994G>A	c.(994-996)GCA>ACA	p.A332T	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Missense_Mutation_p.A182T	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	332	Pro-rich.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						AGCCAGTAACGCACTTGATCC	0.612													20	44					0	0	1	0	0		A	116930829	A	A	116930829	3	1	66	1	0	0	0	0	1	0	0	0	3688	1087	38	1	1004	1	COL27A1	9	116930829	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	584329	116930829	24282602	741	44817											
COL27A1	85301	broad.mit.edu	37	chr9	116931439	116931439	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctcccactggaagcaagaAgcccattggatcggaagcct	12	6	11	12	1	0	1	0	0	0	1	2	4	1	4	3	3	4	2	3	3	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:116931439A>G	uc011lxl.1	+	3	1604	c.1604A>G	c.(1603-1605)AAG>AGG	p.K535R	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Missense_Mutation_p.K385R	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	535	Pro-rich.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GGAAGCAAGAAGCCCATTGGA	0.637													33	62					0	0	1	0	0		G	116931439	G	G	116931439	3	3	66	1	0	0	0	0	1	0	0	0	3688	72	3	3	1614	3	COL27A1	9	116931439	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	610	116931439	24281992	742	44818											
TNC	3371	broad.mit.edu	37	chr9	117848533	117848533	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgatcccggcagtcttcccCtgtgtagccgtcatcacaaa	8	9	9	15	3	3	0	2	0	1	0	5	1	5	0	4	1	1	2	4	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:117848533C>A	uc004bjj.3	-	3	1839	c.1477G>T	c.(1477-1479)GGG>TGG	p.G493W	TNC_uc010mvf.2_Missense_Mutation_p.G493W	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	493	EGF-like 11.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CAGTCTTCCCCTGTGTAGCCG	0.597													46	91					1.63038e-21	1.76316e-21	1	1	0		A	117848533	A	A	117848533	3	1	66	1	0	0	0	0	1	0	0	0	16295	681	24	5	5232	5	TNC	9	117848533	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	917094	117848533	23364898	743	44819											
DBC1	1620	broad.mit.edu	37	chr9	121929994	121929994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggtccaggctgctgttgcGcatctggcagatgcgcatgg	5	9	17	10	2	1	1	0	0	1	1	2	1	2	1	1	5	3	6	1	5	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:121929994G>A	uc004bkc.2	-	8	2110	c.1654C>T	c.(1654-1656)CGC>TGC	p.R552C		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	552					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						CTGCTGTTGCGCATCTGGCAG	0.567													15	32					0	0	1	0	0		A	121929994	A	A	121929994	3	1	66	1	0	0	0	0	1	0	0	0	4250	1087	38	1	635	1	DBC1	9	121929994	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4081461	121929994	19283437	744	44820											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123202115	123202115	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgactgatcagtccccAtcacactgactttagcagaa	11	11	6	13	0	3	4	2	3	1	1	5	4	4	4	2	0	1	1	2	0	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:123202115A>G	uc004bkf.2	-	24	3465	c.3284T>C	c.(3283-3285)ATG>ACG	p.M1095T	CDK5RAP2_uc010mvi.2_Missense_Mutation_p.M104T|CDK5RAP2_uc004bke.2_Missense_Mutation_p.M380T|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.M1095T|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.M360T|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.M360T|CDK5RAP2_uc011lya.1_Missense_Mutation_p.M360T|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.M865T|CDK5RAP2_uc004bki.2_Missense_Mutation_p.M862T	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	1095	Interaction with MAPRE1.				brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						ATCAGTCCCCATCACACTGAC	0.423													20	67					0	0	1	0	0		G	123202115	G	G	123202115	3	3	66	1	0	0	0	0	1	0	0	0	3149	217	8	3	2457	3	CDK5RAP2	9	123202115	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1272121	123202115	18011316	745	44821											
STXBP1	6812	broad.mit.edu	37	chr9	130416073	130416073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcatgaccgagggcataaCgagtgagcatgcgctctgca	11	7	12	11	3	2	2	1	2	1	0	2	4	2	2	1	1	4	4	1	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:130416073C>T	uc004brl.2	+	3	364	c.167C>T	c.(166-168)ACG>ATG	p.T56M	STXBP1_uc004brk.2_Missense_Mutation_p.T56M	NM_001032221	NP_001027392	P61764	STXB1_HUMAN	syntaxin binding protein 1 isoform b	56					axon target recognition|energy reserve metabolic process|glutamate secretion|negative regulation of synaptic transmission, GABAergic|neurotransmitter secretion|platelet aggregation|platelet degranulation|protein transport|regulation of insulin secretion|regulation of synaptic vesicle priming|synaptic vesicle maturation|vesicle docking involved in exocytosis	cytosol|mitochondrion|plasma membrane|platelet alpha granule|protein complex	identical protein binding|syntaxin-1 binding|syntaxin-2 binding			skin(1)	1						GAGGGCATAACGAGTGAGCAT	0.358													21	22					0	0	1	0	0		T	130416073	T	T	130416073	3	4	66	1	0	0	0	0	1	0	0	0	15377	536	19	1	177	1	STXBP1	9	130416073	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	7213958	130416073	10797358	746	44822											
SH2D3C	10044	broad.mit.edu	37	chr9	130506862	130506862	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcagtccaccttggtgAcatgccgggccagcgtccgg	6	6	14	15	3	0	1	0	1	0	0	2	1	2	1	6	4	2	1	6	4	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:130506862A>G	uc004bsc.2	-	7	1923	c.1781T>C	c.(1780-1782)GTC>GCC	p.V594A	SH2D3C_uc010mxo.2_Missense_Mutation_p.V434A|SH2D3C_uc004bry.2_Missense_Mutation_p.V436A|SH2D3C_uc004brz.3_Missense_Mutation_p.V240A|SH2D3C_uc011mak.1_Missense_Mutation_p.V240A|SH2D3C_uc004bsa.2_Missense_Mutation_p.V437A|SH2D3C_uc004bsb.2_Missense_Mutation_p.V526A	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a	594	Ras-GEF.				JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						CACCTTGGTGACATGCCGGGC	0.632													16	50					0	0	1	0	0		G	130506862	G	G	130506862	3	3	66	1	0	0	0	0	1	0	0	0	14259	275	10	3	825	3	SH2D3C	9	130506862	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	90789	130506862	10706569	747	44823											
SPTAN1	6709	broad.mit.edu	37	chr9	131369952	131369952	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctagccaaggatgtcacCggagctgaggcattgctgga	10	7	15	9	1	1	1	1	1	0	0	1	5	1	4	2	4	4	4	2	4	2	2	rs148554113	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:131369952C>T	uc004bvl.3	+	32	4229	c.4116C>T	c.(4114-4116)ACC>ACT	p.T1372T	SPTAN1_uc004bvm.3_Silent_p.T1372T|SPTAN1_uc004bvn.3_Silent_p.T1352T	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1372	Spectrin 15.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						AGGATGTCACCGGAGCTGAGG	0.567													41	89					0	0	1	0	0		T	131369952	T	T	131369952	2	4	66	1	0	0	0	0	0	0	0	1	15142	639	23	1		1	SPTAN1	9	131369952	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	863090	131369952	9843479	748	44824											
LRRC8A	56262	broad.mit.edu	37	chr9	131669843	131669843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggtgcttctgcacacgCtcatcttcctggcctgcagc	5	11	9	16	1	3	0	1	0	2	0	4	0	4	0	3	2	4	4	3	2	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:131669843C>T	uc004bwl.3	+	3	654	c.400C>T	c.(400-402)CTC>TTC	p.L134F	LRRC8A_uc010myp.2_Missense_Mutation_p.L134F|LRRC8A_uc010myq.2_Missense_Mutation_p.L134F	NM_019594	NP_062540	Q8IWT6	LRC8A_HUMAN	leucine rich repeat containing 8 family, member	134	Helical; (Potential).				pre-B cell differentiation	integral to membrane					0						TCTGCACACGCTCATCTTCCT	0.562													21	44					0	0	1	0	0		T	131669843	T	T	131669843	3	4	66	1	0	0	0	0	1	0	0	0	9039	797	28	2	402	2	LRRC8A	9	131669843	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	299891	131669843	9543588	749	44825											
FUBP3	8939	broad.mit.edu	37	chr9	133506105	133506105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacagcgaccccaacctgcGgagattcaccatcagggggg	11	4	12	14	2	2	1	2	0	0	1	2	3	2	1	4	4	4	0	4	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:133506105G>A	uc004bzr.1	+	13	1316	c.1208G>A	c.(1207-1209)CGG>CAG	p.R403Q	FUBP3_uc004bzs.1_Missense_Mutation_p.R316Q	NM_003934	NP_003925	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	403	KH 4.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		CCCAACCTGCGGAGATTCACC	0.602													11	26					0	0	1	0	0		A	133506105	A	A	133506105	3	1	66	1	0	0	0	0	1	0	0	0	6107	1116	39	1	1258	1	FUBP3	9	133506105	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1836262	133506105	7707326	750	44826											
POMT1	10585	broad.mit.edu	37	chr9	134387468	134387468	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcccaccagcaacaggtgAcctgttaccccttcaaagat	11	8	7	15	0	1	2	1	1	0	1	2	2	2	2	5	1	3	3	5	1	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:134387468A>G	uc004cav.2	+	11	1295	c.1093A>G	c.(1093-1095)ACC>GCC	p.T365A	POMT1_uc004cax.2_Missense_Mutation_p.T343A|POMT1_uc011mcj.1_Missense_Mutation_p.T121A|POMT1_uc004cau.2_Missense_Mutation_p.T343A|POMT1_uc004caw.2_Missense_Mutation_p.T289A|POMT1_uc011mck.1_Missense_Mutation_p.T226A|POMT1_uc011mcl.1_Missense_Mutation_p.T191A|POMT1_uc011mcm.1_Missense_Mutation_p.T313A|POMT1_uc011mcn.1_Missense_Mutation_p.T68A	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	365	MIR 1.				multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		GCAACAGGTGACCTGTTACCC	0.443													4	18					0	0	1	0	0		G	134387468	G	G	134387468	3	3	66	1	0	0	0	0	1	0	0	0	12264	275	10	3	1131	3	POMT1	9	134387468	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	881363	134387468	6825963	751	44827											
RAPGEF1	2889	broad.mit.edu	37	chr9	134465325	134465325	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacgtgttcttgctgacgcGcttcttgaatgtgtcggcaa	7	13	12	9	4	2	2	0	2	2	0	3	3	2	2	0	1	2	4	0	1	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:134465325G>A	uc004cbc.2	-	16	2387	c.2257C>T	c.(2257-2259)CGC>TGC	p.R753C	RAPGEF1_uc004cbb.2_Missense_Mutation_p.R771C	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	753	N-terminal Ras-GEF.				activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		TTGCTGACGCGCTTCTTGAAT	0.562													16	32					0	0	1	0	0		A	134465325	A	A	134465325	3	1	66	1	0	0	0	0	1	0	0	0	13068	1087	38	1	1012	1	RAPGEF1	9	134465325	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	77857	134465325	6748106	752	44828											
REXO4	57109	broad.mit.edu	37	chr9	136282974	136282974	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttccccatcctgctgccGtccagcgcctgggccggcgg	2	7	13	19	4	0	0	0	0	0	0	3	0	3	0	8	3	3	1	8	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:136282974G>A	uc004cdm.2	-	1	191	c.-9C>T	c.(-11--7)GACGG>GATGG		ADAMTS13_uc004cdp.3_Intron|REXO4_uc011mde.1_Translation_Start_Site|REXO4_uc011mdf.1_Translation_Start_Site|REXO4_uc004cdn.2_Translation_Start_Site|REXO4_uc004cdo.2_Translation_Start_Site	NM_020385	NP_065118	Q9GZR2	REXO4_HUMAN	XPMC2 prevents mitotic catastrophe 2 homolog							nucleolus	exonuclease activity|nucleic acid binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.58e-08)|Epithelial(140;9.55e-07)|all cancers(34;1.05e-05)		TCCTGCTGCCGTCCAGCGCCT	0.731													10	38					0	0	1	0	0		A	136282974	A	A	136282974	1	1	66	1	0	0	0	0	0	0	0	0	13268	1160	40	1		1	REXO4	9	136282974	Translation_Start_Site	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1817649	136282974	4930457	753	44829											
COL5A1	1289	broad.mit.edu	37	chr9	137593103	137593103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccaccaaattcctcgaccGcagcgaccaccccatgatcg	11	5	7	18	4	0	1	0	1	0	0	3	4	1	1	7	0	1	1	7	0	1	1	rs142933609	by1000genomes	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:137593103G>A	uc004cfe.2	+	4	960	c.578G>A	c.(577-579)CGC>CAC	p.R193H		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	193	TSP N-terminal.|Laminin G-like.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		TTCCTCGACCGCAGCGACCAC	0.522													12	18					0	0	1	0	0		A	137593103	A	A	137593103	3	1	66	1	0	0	0	0	1	0	0	0	3699	1087	38	1	592	1	COL5A1	9	137593103	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1310129	137593103	3620328	754	44830											
COL5A1	1289	broad.mit.edu	37	chr9	137622231	137622231	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgatgacctcacctatggCgagggggaggagaaccccga	11	6	14	10	2	1	3	1	2	0	1	1	7	1	4	4	4	1	0	4	4	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:137622231C>T	uc004cfe.2	+	7	1456	c.1074C>T	c.(1072-1074)GGC>GGT	p.G358G		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	358	Nonhelical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		TCACCTATGGCGAGGGGGAGG	0.602													24	46					0	0	1	0	0		T	137622231	T	T	137622231	2	4	66	1	0	0	0	0	0	0	0	1	3699	755	27	1		1	COL5A1	9	137622231	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	29128	137622231	3591200	755	44831											
KIAA0649	9858	broad.mit.edu	37	chr9	138378948	138378948	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaggcagagggccccacCgctcttgggacagggggccc	6	5	16	14	1	2	1	1	0	1	1	2	2	2	2	4	5	0	3	4	5	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:138378948C>T	uc004cfr.1	+	4	3141	c.2592C>T	c.(2590-2592)ACC>ACT	p.T864T		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	864						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		AGGGCCCCACCGCTCTTGGGA	0.632													27	60					0	0	1	0	0		T	138378948	T	T	138378948	2	4	66	1	0	0	0	0	0	0	0	1	8203	639	23	1		1	KIAA0649	9	138378948	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	756717	138378948	2834483	756	44832											
CAMSAP1	157922	broad.mit.edu	37	chr9	138714328	138714328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagagtccacggctctgaatCgtgggagttggggctttttg	6	12	16	7	2	1	2	0	1	1	1	3	4	2	3	1	4	0	3	1	4	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:138714328C>T	uc004cgr.3	-	11	2179	c.2179G>A	c.(2179-2181)GAT>AAT	p.D727N	CAMSAP1_uc004cgq.3_Missense_Mutation_p.D617N|CAMSAP1_uc010nbg.2_Missense_Mutation_p.D449N	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	727						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		GGCTCTGAATCGTGGGAGTTG	0.542													12	36					0	0	1	0	0		T	138714328	T	T	138714328	3	4	66	1	0	0	0	0	1	0	0	0	2614	884	31	1	2657	1	CAMSAP1	9	138714328	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	335380	138714328	2499103	757	44833											
SEC16A	9919	broad.mit.edu	37	chr9	139369735	139369735	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccacctcggctctgcaccGgggccgccgagcttgggttc	3	8	14	16	4	1	0	0	0	1	0	3	1	1	0	5	4	3	4	5	4	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:139369735G>A	uc004chx.2	-	3	2642	c.2333C>T	c.(2332-2334)CCG>CTG	p.P778L	SEC16A_uc004chv.3_Missense_Mutation_p.P405L|SEC16A_uc004chw.2_Missense_Mutation_p.P778L|SEC16A_uc010nbn.2_Missense_Mutation_p.P778L|SEC16A_uc010nbo.1_Missense_Mutation_p.P778L	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	600					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GCTCTGCACCGGGGCCGCCGA	0.592													16	26					0	0	1	0	0		A	139369735	A	A	139369735	3	1	66	1	0	0	0	0	1	0	0	0	14011	1116	39	1	4860	1	SEC16A	9	139369735	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	655407	139369735	1843696	758	44834											
C9orf163	158055	broad.mit.edu	37	chr9	139379255	139379255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttgaacagagttagggagCacgtggtagggcccagcccc	9	7	15	10	1	0	2	0	1	0	1	0	3	0	3	3	3	3	4	3	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:139379255C>T	uc004chy.2	+	1	1309	c.355C>T	c.(355-357)CAC>TAC	p.H119Y	SEC16A_uc004chx.2_5'Flank|SEC16A_uc010nbo.1_5'Flank	NM_152571	NP_689784	Q8N9P6	CI163_HUMAN	hypothetical protein LOC158055	119							protein binding				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;4.36e-06)|Epithelial(140;5.65e-06)		AGTTAGGGAGCACGTGGTAGG	0.602											OREG0019617	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	60					0	0	1	0	0		T	139379255	T	T	139379255	3	4	66	1	0	0	0	0	1	0	0	0	2470	710	25	2	357	2	C9orf163	9	139379255	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	9520	139379255	1834176	759	44835											
AGPAT2	10555	broad.mit.edu	37	chr9	139571989	139571989	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaaaagtacttgaagcttcGcacgaaccagccgatgatgc	13	8	10	10	3	0	2	0	2	0	0	1	4	0	2	2	0	5	4	2	0	5	4	rs104894093		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:139571989G>A	uc004cii.1	-	2	304	c.202C>T	c.(202-204)CGA>TGA	p.R68*	AGPAT2_uc004cij.1_Nonsense_Mutation_p.R68*	NM_006412	NP_006403	O15120	PLCB_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 2	68					phosphatidic acid biosynthetic process|positive regulation of cytokine production|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0	all_cancers(76;0.0893)|all_epithelial(76;0.231)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.87e-06)|Epithelial(140;0.000123)		TTGAAGCTTCGCACGAACCAG	0.657													13	29					0	0	1	0	0		A	139571989	A	A	139571989	4	1	66	1	0	0	0	0	0	1	0	0	387	1095	38	1	654	1	AGPAT2	9	139571989	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	192734	139571989	1641442	760	44836											
ABCA2	20	broad.mit.edu	37	chr9	139904081	139904081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggccttggggtccatgcCtgtggtgggctcgtcctggg	1	10	18	12	2	0	0	0	0	0	0	3	0	2	0	5	6	1	1	5	6	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:139904081C>T	uc011mem.1	-	43	6791	c.6643G>A	c.(6643-6645)GGC>AGC	p.G2215S	ABCA2_uc011mel.1_Missense_Mutation_p.G2216S|ABCA2_uc004ckl.1_Missense_Mutation_p.G2146S|ABCA2_uc004ckm.1_Missense_Mutation_p.G2246S	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	2215	ABC transporter 2.				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GGGTCCATGCCTGTGGTGGGC	0.657													30	35					0	0	1	0	0		T	139904081	T	T	139904081	3	4	66	1	0	0	0	0	1	0	0	0	32	681	24	4	688	4	ABCA2	9	139904081	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	332092	139904081	1309350	761	44837											
ABCA2	20	broad.mit.edu	37	chr9	139909954	139909954	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaggaagagcggggagccGcagcacttgagcttcccatg	9	7	15	10	2	0	3	0	2	0	1	1	5	1	5	2	3	4	3	2	3	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:139909954G>A	uc011mem.1	-	23	3754	c.3606C>T	c.(3604-3606)TGC>TGT	p.C1202C	ABCA2_uc011mel.1_Silent_p.C1203C|ABCA2_uc004ckl.1_Silent_p.C1133C|ABCA2_uc004ckm.1_Silent_p.C1233C|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1202	ABC transporter 1.				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GCGGGGAGCCGCAGCACTTGA	0.647													9	23					0	0	1	0	0		A	139909954	A	A	139909954	2	1	66	1	0	0	0	0	0	0	0	1	32	1079	38	1		1	ABCA2	9	139909954	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5873	139909954	1303477	762	44838											
ABCA2	20	broad.mit.edu	37	chr9	139912743	139912743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgaagctggagttctggCggatcttgtagtgcacgtga	7	11	16	7	3	2	2	0	2	2	0	2	4	2	4	0	4	2	4	0	4	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:139912743C>T	uc011mem.1	-	13	2025	c.1877G>A	c.(1876-1878)CGC>CAC	p.R626H	ABCA2_uc011mel.1_Missense_Mutation_p.R627H|ABCA2_uc004ckl.1_Missense_Mutation_p.R557H|ABCA2_uc004ckm.1_Missense_Mutation_p.R657H|ABCA2_uc004ckn.1_RNA|ABCA2_uc004cko.1_Missense_Mutation_p.R403H	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	626					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GGAGTTCTGGCGGATCTTGTA	0.537													11	59					0	0	1	0	0		T	139912743	T	T	139912743	3	4	66	1	0	0	0	0	1	0	0	0	32	768	27	1	5574	1	ABCA2	9	139912743	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2789	139912743	1300688	763	44839											
GRIN1	2902	broad.mit.edu	37	chr9	140043558	140043558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccgggtcatcatcctttctgCcaggtgaggctgggcagggc	5	9	15	12	1	3	1	2	1	1	0	4	1	4	1	3	5	1	2	3	5	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:140043558C>T	uc004clk.2	+	4	998	c.668C>T	c.(667-669)GCC>GTC	p.A223V	GRIN1_uc004cli.1_5'UTR|GRIN1_uc004clj.1_Missense_Mutation_p.A220V|GRIN1_uc004cll.2_Missense_Mutation_p.A223V|GRIN1_uc004clm.2_Missense_Mutation_p.A223V|GRIN1_uc004cln.2_Missense_Mutation_p.A241V|GRIN1_uc004clo.2_Missense_Mutation_p.A241V	NM_007327	NP_015566	Q05586	NMDZ1_HUMAN	NMDA receptor 1 isoform NR1-3 precursor	223	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|regulation of excitatory postsynaptic membrane potential|response to ethanol|visual learning	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane|synaptic vesicle|synaptosome	calcium ion binding|calmodulin binding|extracellular-glutamate-gated ion channel activity|glutamate binding|glycine binding			skin(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;6.87e-05)|Epithelial(140;0.00095)	L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	ATCCTTTCTGCCAGGTGAGGC	0.607													3	9					0	0	1	0	0		T	140043558	T	T	140043558	3	4	66	1	0	0	0	0	1	0	0	0	6794	739	26	2	749	2	GRIN1	9	140043558	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	130815	140043558	1169873	764	44840											
NELF	26012	broad.mit.edu	37	chr9	140349733	140349733	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattctcccgtttccggcgcTtcctctccgcgtagcccctg	2	12	8	19	5	2	0	0	0	2	0	6	0	4	0	6	1	1	3	6	1	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:140349733T>C	uc004cna.2	-	6	969	c.737A>G	c.(736-738)AAG>AGG	p.K246R	C9orf167_uc011mew.1_Intron|NELF_uc011mex.1_5'Flank|NELF_uc010nci.2_Missense_Mutation_p.K20R|NELF_uc011mey.1_Intron|NELF_uc011mez.1_Intron|NELF_uc004cmz.2_Missense_Mutation_p.K244R|NELF_uc004cnc.2_Intron|NELF_uc004cnb.2_Missense_Mutation_p.K246R	NM_001130969	NP_001124441	Q6X4W1	NELF_HUMAN	nasal embryonic LHRH factor isoform a	246						nucleus|plasma membrane					0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000222)|Epithelial(140;0.000888)		TTTCCGGCGCTTCCTCTCCGC	0.652													26	35					0	0	1	0	0		C	140349733	C	C	140349733	3	2	66	1	0	0	0	0	1	0	0	0	10351	1609	56	3	909	3	NELF	9	140349733	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	306175	140349733	863698	765	44841											
PNPLA7	375775	broad.mit.edu	37	chr9	140361898	140361898	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccgcactccgccaaggcCttgagaacgcccacctgggc	8	5	11	17	3	0	1	0	1	0	1	1	2	1	1	6	2	2	1	6	2	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr9:140361898C>A	uc004cnf.2	-	25	3172	c.2835G>T	c.(2833-2835)AAG>AAT	p.K945N	C9orf167_uc011mew.1_Intron|PNPLA7_uc004cnd.1_Missense_Mutation_p.K211N|PNPLA7_uc004cne.1_Missense_Mutation_p.K211N|PNPLA7_uc011mfa.1_Missense_Mutation_p.K353N|PNPLA7_uc010ncj.1_Missense_Mutation_p.K970N	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	945	Patatin.				lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		CCGCCAAGGCCTTGAGAACGC	0.647													21	25					1.10923e-09	1.16393e-09	1	1	0		A	140361898	A	A	140361898	3	1	66	1	0	0	0	0	1	0	0	0	12189	680	24	5	1158	5	PNPLA7	9	140361898	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	12165	140361898	851533	766	44842											
DIP2C	22982	broad.mit.edu	37	chr10	387169	387169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	accagaggacaaatcccagtCcacagtaagggtccaggcag	14	4	11	12	0	0	1	0	0	0	1	3	2	3	2	4	3	0	2	4	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:387169C>T	uc001ifp.2	-	29	3644	c.3554G>A	c.(3553-3555)GGA>GAA	p.G1185E	DIP2C_uc009xhi.1_Missense_Mutation_p.G571E	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	1185						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		AAATCCCAGTCCACAGTAAGG	0.498													18	56					0	0	1	0	0		T	387169	T	T	387169	3	4	66	1	0	0	0	0	1	0	0	0	4535	855	30	4	1152	4	DIP2C	10	387169	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08		387169	135147578	767	44843											
PRKCQ	5588	broad.mit.edu	37	chr10	6552975	6552975	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccatatttctgtcttcccGttgttcttcctgcacctctc	4	17	4	16	1	4	0	0	0	4	0	7	0	6	0	4	0	1	3	4	0	1	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:6552975G>A	uc001ijj.1	-	3	375	c.300C>T	c.(298-300)AAC>AAT	p.N100N	PRKCQ_uc009xim.1_Silent_p.N100N|PRKCQ_uc001iji.1_Silent_p.N133N|PRKCQ_uc009xin.1_Silent_p.N64N|PRKCQ_uc010qax.1_Translation_Start_Site	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	100	C2.				axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						CTGTCTTCCCGTTGTTCTTCC	0.478													33	82					0	0	1	0	0		A	6552975	A	A	6552975	2	1	66	1	0	0	0	0	0	0	0	1	12537	1136	40	1		1	PRKCQ	10	6552975	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	6165806	6552975	128981772	768	44844											
SFMBT2	57713	broad.mit.edu	37	chr10	7214079	7214079	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagccggtctcctcactggcGgtgtcatcgtccatggcgtc	4	10	13	14	4	3	0	2	0	1	0	7	1	4	0	3	4	1	0	3	4	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:7214079G>A	uc009xio.1	-	19	2284	c.2193C>T	c.(2191-2193)ACC>ACT	p.T731T	SFMBT2_uc001ijn.1_Silent_p.T731T|SFMBT2_uc010qay.1_Silent_p.T566T	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	731					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						CCTCACTGGCGGTGTCATCGT	0.687													6	13					0	0	1	0	0		A	7214079	A	A	7214079	2	1	66	1	0	0	0	0	0	0	0	1	14183	1103	39	1		1	SFMBT2	10	7214079	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	661104	7214079	128320668	769	44845											
SFMBT2	57713	broad.mit.edu	37	chr10	7326038	7326038	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaactatccagtactgaaaAgggttctgggaatcctgaag	13	10	10	8	0	1	2	0	2	1	0	3	3	3	3	2	2	2	2	2	2	7	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:7326038A>G	uc009xio.1	-	6	691	c.600T>C	c.(598-600)CCT>CCC	p.P200P	SFMBT2_uc001ijn.1_Silent_p.P200P|SFMBT2_uc010qay.1_Silent_p.P200P	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	200	MBT 2.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						AGTACTGAAAAGGGTTCTGGG	0.438													26	72					0	0	1	0	0		G	7326038	G	G	7326038	2	3	66	1	0	0	0	0	0	0	0	1	14183	59	3	3		3	SFMBT2	10	7326038	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	111959	7326038	128208709	770	44846											
TAF3	83860	broad.mit.edu	37	chr10	8056703	8056703	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcacaagaagaggaagcatCgagcccactgacgactcccg	14	3	11	13	3	0	3	0	1	0	2	2	6	1	4	2	1	3	2	2	1	3	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:8056703C>T	uc010qbd.1	+	7	2779	c.2779C>T	c.(2779-2781)CGA>TGA	p.R927*		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	927					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						GAGGAAGCATCGAGCCCACTG	0.587													3	6					0	0	1	0	0		T	8056703	T	T	8056703	4	4	66	1	0	0	0	0	0	1	0	0	15550	876	31	1	2805	1	TAF3	10	8056703	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	730665	8056703	127478044	771	44847											
CELF2	10659	broad.mit.edu	37	chr10	11330379	11330379	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactttctcttccctccacAggcatgaatgctttacagtt	9	15	5	12	0	1	1	0	1	1	0	4	1	3	1	2	1	3	3	2	1	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:11330379A>G	uc001iki.3	+	9	913	c.821_splice	c.e9-2	p.G274_splice	CELF2_uc010qbi.1_Splice_Site_p.G46_splice|CELF2_uc010qbj.1_Splice_Site_p.G274_splice|CELF2_uc001ikk.2_Splice_Site_p.G281_splice|CELF2_uc001ikl.3_Splice_Site_p.G281_splice|CELF2_uc010qbk.1_Splice_Site|CELF2_uc010qbl.1_Splice_Site_p.G250_splice|CELF2_uc010qbm.1_Splice_Site_p.G46_splice|CELF2_uc001iko.3_Splice_Site_p.G250_splice|CELF2_uc001ikp.3_Splice_Site_p.G250_splice|CELF2_uc010qbn.1_Splice_Site_p.G258_splice|CELF2_uc010qbo.1_Splice_Site_p.G163_splice|CELF2_uc010qbp.1_Splice_Site_p.G46_splice	NM_001025077	NP_001020248	O95319	CELF2_HUMAN	CUG triplet repeat, RNA binding protein 2						mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0						TTCCCTCCACAGGCATGAATG	0.527													13	35					0	0	1	0	0		G	11330379	G	G	11330379	5	3	66	1	0	0	0	0	0	0	1	0	3219	202	7	3	931	3	CELF2	10	11330379	Splice_Site	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3273676	11330379	124204368	772	44848											
SEPHS1	22929	broad.mit.edu	37	chr10	13371727	13371727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccactggtgcacagccactgCcacctgtgtccccaggggtt	6	8	11	16	0	0	0	0	0	0	0	1	0	1	0	6	3	3	2	6	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:13371727C>T	uc001imk.2	-	6	981	c.622G>A	c.(622-624)GCA>ACA	p.A208T	SEPHS1_uc001imh.2_Missense_Mutation_p.A132T|SEPHS1_uc010qbs.1_Missense_Mutation_p.A160T|SEPHS1_uc001imi.2_Missense_Mutation_p.A208T|SEPHS1_uc001imj.2_Missense_Mutation_p.A208T|SEPHS1_uc010qbt.1_Missense_Mutation_p.A141T|SEPHS1_uc009xje.2_Missense_Mutation_p.A208T	NM_012247	NP_036379	P49903	SPS1_HUMAN	selenophosphate synthetase 1	208					protein modification process		ATP binding|GTP binding|selenide, water dikinase activity			skin(1)	1						ACAGCCACTGCCACCTGTGTC	0.517													3	5					0	0	1	0	0		T	13371727	T	T	13371727	3	4	66	1	0	0	0	0	1	0	0	0	14079	739	26	2	572	2	SEPHS1	10	13371727	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2041348	13371727	122163020	773	44849											
RSU1	6251	broad.mit.edu	37	chr10	16635393	16635393	+	Nonstop_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccgatgccaatcccttccTtatctgttcttggctgccag	6	13	8	14	1	2	0	0	0	2	0	4	1	4	0	5	1	3	2	5	1	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:16635393T>G	uc001iok.2	-	8	1136	c.834A>C	c.(832-834)TAA>TAC	p.*278Y	RSU1_uc001iol.2_Nonstop_Mutation_p.*278Y|RSU1_uc001iom.2_Nonstop_Mutation_p.*225Y	NM_152724	NP_689937	Q15404	RSU1_HUMAN	ras suppressor protein 1 isoform 2	278					cell junction assembly|signal transduction	cytosol	protein binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(1;7.54e-08)		AATCCCTTCCTTATCTGTTCT	0.507													10	26					0	0	1	0	0		G	16635393	G	G	16635393	4	3	66	1	0	0	0	0	0	0	0	0	13741	1616	56	5	3	5	RSU1	10	16635393	Nonstop_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3263666	16635393	118899354	774	44850											
BMI1	648	broad.mit.edu	37	chr10	22618055	22618055	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctacatttatacctggagaAgggtaagtagcatatctgtt	12	13	9	7	0	1	1	0	0	1	1	1	2	1	1	2	2	3	4	2	2	7	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:22618055A>T	uc001irh.2	+	9	1288	c.649A>T	c.(649-651)AGG>TGG	p.R217W	BMI1_uc009xkg.2_Missense_Mutation_p.R360W	NM_005180	NP_005171	P35226	BMI1_HUMAN	BMI1 polycomb ring finger oncogene	217	Interaction with E4F1.				hemopoiesis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fibroblast proliferation|positive regulation of ubiquitin-protein ligase activity|segment specification|transcription, DNA-dependent	cytoplasm|nucleolus|PcG protein complex|ubiquitin ligase complex	RING-like zinc finger domain binding|zinc ion binding			ovary(1)|skin(1)	2						TACCTGGAGAAGGGTAAGTAG	0.289													55	117					0	0	1	0	0		T	22618055	T	T	22618055	3	4	66	1	0	0	0	0	1	0	0	0	1456	63	3	5	679	5	BMI1	10	22618055	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	5982662	22618055	112916692	775	44851											
ARMC3	219681	broad.mit.edu	37	chr10	23287215	23287215	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctgaacatacagaatcaCgacatcatgcatgccatcat	14	8	6	13	2	3	2	3	1	0	1	3	3	3	2	2	0	4	1	2	0	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:23287215C>T	uc001irm.3	+	11	1397	c.1314C>T	c.(1312-1314)CAC>CAT	p.H438H	ARMC3_uc010qcv.1_Silent_p.H438H|ARMC3_uc010qcw.1_Silent_p.H175H	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	438	ARM 11.						binding				0						TACAGAATCACGACATCATGC	0.527													4	18					0	0	1	0	0		T	23287215	T	T	23287215	2	4	66	1	0	0	0	0	0	0	0	1	953	535	19	1		1	ARMC3	10	23287215	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	669160	23287215	112247532	776	44852											
KIAA1217	56243	broad.mit.edu	37	chr10	24833341	24833341	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaggcctctccccgaccCttgctagttccggatgaagg	8	8	11	14	2	1	2	0	1	1	1	3	4	2	3	5	3	1	2	5	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:24833341C>T	uc001iru.3	+	19	5545	c.5142C>T	c.(5140-5142)CCC>CCT	p.P1714P	KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron|KIAA1217_uc001irw.2_Intron|KIAA1217_uc001irz.2_Intron|KIAA1217_uc001irx.2_Silent_p.P1397P|KIAA1217_uc001iry.2_Intron|KIAA1217_uc001isa.1_Silent_p.P550P	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	1714					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						CTCCCCGACCCTTGCTAGTTC	0.507													21	42					0	0	1	0	0		T	24833341	T	T	24833341	2	4	66	1	0	0	0	0	0	0	0	1	8232	668	24	4		4	KIAA1217	10	24833341	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1546126	24833341	110701406	777	44853											
MKX	283078	broad.mit.edu	37	chr10	28023549	28023549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaagagtcattaaggtaaCggttcaacaagctgctcttg	13	11	9	8	1	4	1	3	0	1	1	4	1	4	1	0	2	4	4	0	2	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:28023549C>T	uc001ity.3	-	5	899	c.674G>A	c.(673-675)CGT>CAT	p.R225H	MKX_uc001itx.3_Missense_Mutation_p.R225H	NM_173576	NP_775847	Q8IYA7	MKX_HUMAN	mohawk homeobox	225					muscle organ development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ATTAAGGTAACGGTTCAACAA	0.483													37	73					0	0	1	0	0		T	28023549	T	T	28023549	3	4	66	1	0	0	0	0	1	0	0	0	9628	536	19	1	396	1	MKX	10	28023549	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3190208	28023549	107511198	778	44854											
SVIL	6840	broad.mit.edu	37	chr10	29783879	29783879	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttagaaaggtttccagccTgtccaacttcaggtccgatt	9	13	8	11	1	2	1	1	0	1	1	5	2	5	1	4	2	2	1	4	2	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:29783879T>C	uc001iut.1	-	20	4558	c.3805A>G	c.(3805-3807)AGG>GGG	p.R1269G	SVIL_uc010qdw.1_Missense_Mutation_p.R183G|SVIL_uc001iuu.1_Missense_Mutation_p.R843G|SVIL_uc009xlc.2_Missense_Mutation_p.R61G	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1269					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				GTTTCCAGCCTGTCCAACTTC	0.448													50	162					0	0	1	0	0		C	29783879	C	C	29783879	3	2	66	1	0	0	0	0	1	0	0	0	15446	1579	55	3	2915	3	SVIL	10	29783879	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1760330	29783879	105750868	779	44855											
KIAA1462	57608	broad.mit.edu	37	chr10	30315568	30315568	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtgctcaaaagcctgaGgagcccgcctggcactgtcc	8	7	12	14	1	1	2	1	2	0	0	2	3	2	3	4	2	3	2	4	2	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:30315568G>T	uc001iux.2	-	2	3568	c.3509C>A	c.(3508-3510)CCT>CAT	p.P1170H	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.P1032H|KIAA1462_uc009xle.1_Missense_Mutation_p.P1170H	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	1170										ovary(4)	4						AAAAGCCTGAGGAGCCCGCCT	0.597													36	86					6.97489e-18	7.50161e-18	1	1	0		T	30315568	T	T	30315568	3	4	66	1	0	0	0	0	1	0	0	0	8250	1000	35	5	578	5	KIAA1462	10	30315568	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	531689	30315568	105219179	780	44856											
ZEB1	6935	broad.mit.edu	37	chr10	31816061	31816061	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggtagaagaggcagagAatgagggagaagaagcaaaa	21	2	16	2	0	0	7	0	1	0	6	0	9	0	7	0	3	1	3	0	3	8	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:31816061A>G	uc001ivs.3	+	9	3307	c.3244A>G	c.(3244-3246)AAT>GAT	p.N1082D	ZEB1_uc001ivr.3_Missense_Mutation_p.N864D|ZEB1_uc010qee.1_Missense_Mutation_p.N864D|ZEB1_uc010qef.1_Missense_Mutation_p.N864D|ZEB1_uc001ivt.3_Missense_Mutation_p.N864D|ZEB1_uc001ivu.3_Missense_Mutation_p.N1083D|ZEB1_uc001ivv.3_Missense_Mutation_p.N1062D|ZEB1_uc010qeh.1_Missense_Mutation_p.N1015D|ZEB1_uc009xlp.2_Missense_Mutation_p.N1066D	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	1082	Glu-rich (acidic).				cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				agaggcagagaatgagggaga	0.194													3	12					0	0	1	0	0		G	31816061	G	G	31816061	3	3	66	1	0	0	0	0	1	0	0	0	17648	246	9	3	3292	3	ZEB1	10	31816061	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1500493	31816061	103718686	781	44857											
ZNF37A	7587	broad.mit.edu	37	chr10	38407491	38407491	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaccttttggatgtaatgAatgtgggaaaaccttccgtc	12	12	10	7	1	0	1	0	1	0	0	2	4	1	3	3	2	2	1	3	2	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:38407491A>T	uc001izk.2	+	8	2231	c.1412A>T	c.(1411-1413)GAA>GTA	p.E471V	ZNF37A_uc001izl.2_Missense_Mutation_p.E471V|ZNF37A_uc001izm.2_Missense_Mutation_p.E471V	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	471	C2H2-type 10.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						GGATGTAATGAATGTGGGAAA	0.398													30	36					0	0	1	0	0		T	38407491	T	T	38407491	3	4	66	1	0	0	0	0	1	0	0	0	17897	246	9	5	1426	5	ZNF37A	10	38407491	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	6591430	38407491	97127256	782	44858											
BMS1	9790	broad.mit.edu	37	chr10	43318712	43318712	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggataagctgctgatgagCggtgagtgtcttgagtagtg	9	11	17	4	1	1	4	0	4	1	0	1	6	1	5	0	2	3	3	0	2	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:43318712C>T	uc001jaj.2	+	20	3637	c.3279C>T	c.(3277-3279)AGC>AGT	p.S1093S		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	1093					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						TGCTGATGAGCGGTGAGTGTC	0.517													19	50					0	0	1	0	0		T	43318712	T	T	43318712	2	4	66	1	0	0	0	0	0	0	0	1	1473	782	27	1		1	BMS1	10	43318712	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4911221	43318712	92216035	783	44859											
RET	5979	broad.mit.edu	37	chr10	43600465	43600465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgcgctgggccctggacCgcgagcagcgggagaagtac	8	3	17	13	5	0	1	0	0	0	1	0	4	0	2	2	3	3	4	2	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:43600465C>T	uc001jal.2	+	4	881	c.691C>T	c.(691-693)CGC>TGC	p.R231C	RET_uc001jak.1_Missense_Mutation_p.R231C|RET_uc010qez.1_5'UTR	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	231	Cadherin.|Extracellular (Potential).		R -> H (in HSCR1; familial form).		homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	GGCCCTGGACCGCGAGCAGCG	0.711		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				2	2					0	0	1	0	0		T	43600465	T	T	43600465	3	4	66	1	0	0	0	0	1	0	0	0	13260	652	23	1	705	1	RET	10	43600465	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	281753	43600465	91934282	784	44860											
ALOX5	240	broad.mit.edu	37	chr10	45939255	45939255	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccgcctccgcccagcaCgccgcggtcaacttcggcca	6	6	9	20	6	2	0	2	0	0	0	4	0	3	0	6	2	2	1	6	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:45939255C>T	uc001jce.2	+	12	1752	c.1653C>T	c.(1651-1653)CAC>CAT	p.H551H	ALOX5_uc009xmt.2_Silent_p.H519H|ALOX5_uc010qfg.1_Silent_p.H551H	NM_000698	NP_000689	P09917	LOX5_HUMAN	arachidonate 5-lipoxygenase	551	Lipoxygenase.	Iron; catalytic.		H->N,A: No activity.	hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	cytosol|nuclear envelope lumen|nuclear matrix|nuclear membrane	arachidonate 5-lipoxygenase activity|iron ion binding|lipoxygenase activity|protein binding			ovary(1)|pancreas(1)	2		Lung SC(717;0.0257)			Diethylcarbamazine(DB00711)|Hydrocortisone(DB00741)|Leflunomide(DB01097)|Masoprocol(DB00179)|Meclofenamic acid(DB00939)|Minocycline(DB01017)|Montelukast(DB00471)|Quinacrine(DB01103)|Vitamin E(DB00163)|Zileuton(DB00744)	CCGCCCAGCACGCCGCGGTCA	0.706													3	4					0	0	1	0	0		T	45939255	T	T	45939255	2	4	66	1	0	0	0	0	0	0	0	1	540	535	19	1		1	ALOX5	10	45939255	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2338790	45939255	89595492	785	44861											
ALOX5	240	broad.mit.edu	37	chr10	45941110	45941110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttactacttgtccccagaccGgattccgaacagtgtggcca	9	10	9	13	2	0	1	0	0	0	1	2	3	2	2	5	2	3	0	5	2	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:45941110G>A	uc001jce.2	+	14	2099	c.2000G>A	c.(1999-2001)CGG>CAG	p.R667Q	ALOX5_uc009xmt.2_Missense_Mutation_p.R635Q|ALOX5_uc010qfg.1_Missense_Mutation_p.R610Q	NM_000698	NP_000689	P09917	LOX5_HUMAN	arachidonate 5-lipoxygenase	667	Lipoxygenase.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	cytosol|nuclear envelope lumen|nuclear matrix|nuclear membrane	arachidonate 5-lipoxygenase activity|iron ion binding|lipoxygenase activity|protein binding			ovary(1)|pancreas(1)	2		Lung SC(717;0.0257)			Diethylcarbamazine(DB00711)|Hydrocortisone(DB00741)|Leflunomide(DB01097)|Masoprocol(DB00179)|Meclofenamic acid(DB00939)|Minocycline(DB01017)|Montelukast(DB00471)|Quinacrine(DB01103)|Vitamin E(DB00163)|Zileuton(DB00744)	TCCCCAGACCGGATTCCGAAC	0.587													26	68					0	0	1	0	0		A	45941110	A	A	45941110	3	1	66	1	0	0	0	0	1	0	0	0	540	1116	39	1	2054	1	ALOX5	10	45941110	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1855	45941110	89593637	786	44862											
SYT15	83849	broad.mit.edu	37	chr10	46967496	46967496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggattggaggaagcgcCgctcatcgggcagcaggtag	8	8	16	9	3	2	0	1	0	1	0	3	3	2	3	1	5	2	4	1	5	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:46967496C>T	uc001jea.2	-	4	734	c.581G>A	c.(580-582)CGG>CAG	p.R194Q	SYT15_uc001jdz.2_Missense_Mutation_p.R194Q|SYT15_uc001jeb.2_Missense_Mutation_p.R72Q|SYT15_uc010qfp.1_RNA	NM_031912	NP_114118	Q9BQS2	SYT15_HUMAN	synaptotagmin XV isoform a	194	Cytoplasmic (Potential).|C2 1.					integral to membrane|plasma membrane					0						GAGGAAGCGCCGCTCATCGGG	0.607													12	72					0	0	1	0	0		T	46967496	T	T	46967496	3	4	66	1	0	0	0	0	1	0	0	0	15496	652	23	1	758	1	SYT15	10	46967496	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1026386	46967496	88567251	787	44863											
LRRC18	474354	broad.mit.edu	37	chr10	50122031	50122031	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgataagattccggctaAggtccagctcgtccatgtca	9	11	9	12	2	1	2	1	1	0	1	6	2	5	2	4	2	1	2	4	2	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:50122031A>C	uc001jhd.2	-	1	250	c.170T>G	c.(169-171)CTT>CGT	p.L57R	WDFY4_uc001jha.3_Intron|LRRC18_uc001jhe.1_Missense_Mutation_p.L57R	NM_001006939	NP_001006940	Q8N456	LRC18_HUMAN	leucine rich repeat containing 18	57	LRR 2.					cytoplasm				ovary(1)|pancreas(1)	2						ATTCCGGCTAAGGTCCAGCTC	0.507													15	36					0	0	1	0	0		C	50122031	C	C	50122031	3	2	66	1	0	0	0	0	1	0	0	0	8992	72	3	5	623	5	LRRC18	10	50122031	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3154535	50122031	85412716	788	44864											
AGAP7	653268	broad.mit.edu	37	chr10	51464874	51464874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttctgtgggttttgtccGcccctggctgctcccttccc	0	16	9	16	1	1	0	0	0	1	0	4	0	4	0	5	2	1	3	5	2	0	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:51464874G>A	uc001jio.2	-	7	1708	c.1582C>T	c.(1582-1584)CGG>TGG	p.R528W	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron	NM_001077685	NP_001071153	Q5VUJ5	AGAP7_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	528	Arf-GAP.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						GGTTTTGTCCGCCCCTGGCTG	0.532													67	313					0	0	1	0	0		A	51464874	A	A	51464874	3	1	66	1	0	0	0	0	1	0	0	0	373	1086	38	1	413	1	AGAP7	10	51464874	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1342843	51464874	84069873	789	44865											
PCDH15	65217	broad.mit.edu	37	chr10	55591248	55591248	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtcctccttccccataataCggctgaaagtctttattgat	9	14	6	12	2	1	2	0	2	1	0	4	2	4	2	4	1	1	1	4	1	4	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:55591248C>T	uc001jju.1	-	30	4424	c.4029G>A	c.(4027-4029)CCG>CCA	p.P1343P	PCDH15_uc010qhq.1_Silent_p.P1348P|PCDH15_uc010qhr.1_Silent_p.P1343P|PCDH15_uc010qhs.1_Silent_p.P1355P|PCDH15_uc010qht.1_Silent_p.P1350P|PCDH15_uc010qhu.1_Silent_p.P1343P|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.P1343P|PCDH15_uc010qhw.1_Silent_p.P1306P|PCDH15_uc010qhx.1_Silent_p.P1272P|PCDH15_uc010qhy.1_Silent_p.P1348P|PCDH15_uc010qhz.1_Silent_p.P1343P|PCDH15_uc010qia.1_Silent_p.P1321P|PCDH15_uc010qib.1_Silent_p.P1321P	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1343	Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CCCCATAATACGGCTGAAAGT	0.398										HNSCC(58;0.16)			17	56					0	0	1	0	0		T	55591248	T	T	55591248	2	4	66	1	0	0	0	0	0	0	0	1	11530	523	19	1		1	PCDH15	10	55591248	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4126374	55591248	79943499	790	44866											
RHOBTB1	9886	broad.mit.edu	37	chr10	62648943	62648943	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atatcccctctctttatgggCctgaaatagaacattttaaa	13	14	5	9	0	1	2	0	1	1	1	3	2	2	2	3	1	1	0	3	1	7	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:62648943C>T	uc001jli.2	-	7	921	c.483G>A	c.(481-483)AGG>AGA	p.R161R	RHOBTB1_uc001jlh.2_Silent_p.R161R|RHOBTB1_uc001jlj.2_Silent_p.R161R|RHOBTB1_uc001jlk.2_Silent_p.R161R|RHOBTB1_uc009xpe.1_Silent_p.R99R|RHOBTB1_uc001jll.2_5'UTR	NM_014836	NP_055651	O94844	RHBT1_HUMAN	Rho-related BTB domain containing 1	161	Rho-like.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)					TCTTTATGGGCCTGAAATAGA	0.388													21	46					0	0	1	0	0		T	62648943	T	T	62648943	2	4	66	1	0	0	0	0	0	0	0	1	13358	753	26	2		2	RHOBTB1	10	62648943	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	7057695	62648943	72885804	791	44867											
ARID5B	84159	broad.mit.edu	37	chr10	63700041	63700041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtggagatgtggcttccacGctggaccagtgaaaactgag	11	8	14	8	1	0	3	0	2	0	1	1	5	1	4	2	3	1	2	2	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:63700041G>A	uc001jlt.1	+	3	402	c.376G>A	c.(376-378)GCT>ACT	p.A126T	ARID5B_uc010qil.1_Missense_Mutation_p.A126T	NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	126					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					TGGCTTCCACGCTGGACCAGT	0.478													23	46					0	0	1	0	0		A	63700041	A	A	63700041	3	1	66	1	0	0	0	0	1	0	0	0	922	1087	38	1	386	1	ARID5B	10	63700041	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1051098	63700041	71834706	792	44868											
CTNNA3	29119	broad.mit.edu	37	chr10	68940122	68940122	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagagcctggcgaatggCgttgcattctgcgataatcc	9	10	12	10	3	1	2	0	1	1	1	2	4	2	2	2	2	3	2	2	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:68940122C>T	uc009xpn.1	-	7	1123	c.1000G>A	c.(1000-1002)GCC>ACC	p.A334T	CTNNA3_uc001jmw.2_Missense_Mutation_p.A334T|CTNNA3_uc001jmx.3_Missense_Mutation_p.A334T|CTNNA3_uc009xpo.1_Missense_Mutation_p.A194T|CTNNA3_uc001jna.2_Missense_Mutation_p.A346T	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	334	Potential.				cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						TGGCGAATGGCGTTGCATTCT	0.517													15	55					0	0	1	0	0		T	68940122	T	T	68940122	3	4	66	1	0	0	0	0	1	0	0	0	4017	768	27	1	1735	1	CTNNA3	10	68940122	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	5240081	68940122	66594625	793	44869											
DDX21	9188	broad.mit.edu	37	chr10	70723160	70723160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaagacattctcctttGccatccctttgattgagaaa	10	13	8	10	0	1	3	0	2	1	2	3	5	2	4	3	1	1	0	3	1	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:70723160G>A	uc001jov.1	+	4	811	c.721G>A	c.(721-723)GCC>ACC	p.A241T	DDX21_uc001jow.1_Missense_Mutation_p.A173T	NM_004728	NP_004719	Q9NR30	DDX21_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 21	241	Helicase ATP-binding.					nucleolus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)	3						ATTCTCCTTTGCCATCCCTTT	0.473													25	64					0	0	1	0	0		A	70723160	A	A	70723160	3	1	66	1	0	0	0	0	1	0	0	0	4352	1319	46	2	735	2	DDX21	10	70723160	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1783038	70723160	64811587	794	44870											
HK1	3098	broad.mit.edu	37	chr10	71144653	71144653	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgttctcatttccctgccaGcagacgagtctggacgcggt	7	10	11	13	4	2	1	1	0	2	1	4	3	3	2	2	2	2	2	2	2	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:71144653G>T	uc001jpl.3	+	12	1922	c.1821G>T	c.(1819-1821)CAG>CAT	p.Q607H	HK1_uc001jpg.3_Missense_Mutation_p.Q595H|HK1_uc001jph.3_Missense_Mutation_p.Q611H|HK1_uc001jpi.3_Missense_Mutation_p.Q611H|HK1_uc001jpj.3_Missense_Mutation_p.Q642H|HK1_uc001jpk.3_Missense_Mutation_p.Q606H|HK1_uc009xqd.2_Missense_Mutation_p.Q485H	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	607	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						TTCCCTGCCAGCAGACGAGTC	0.572													50	84					1.00776e-21	1.09117e-21	1	1	0		T	71144653	T	T	71144653	3	4	66	1	0	0	0	0	1	0	0	0	7206	962	34	5	2045	5	HK1	10	71144653	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	421493	71144653	64390094	795	44871											
SLC29A3	55315	broad.mit.edu	37	chr10	73115921	73115921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgtgaggaacagcgccctgGccttcttcctgacggccact	7	9	11	14	2	1	2	0	2	1	0	2	3	2	3	4	3	2	0	4	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:73115921G>A	uc001jrr.3	+	5	751	c.694G>A	c.(694-696)GCC>ACC	p.A232T	SLC29A3_uc001jrs.3_Missense_Mutation_p.A232T|SLC29A3_uc010qjq.1_Missense_Mutation_p.A86T|SLC29A3_uc001jrt.3_Missense_Mutation_p.A26T|SLC29A3_uc001jru.3_Missense_Mutation_p.A44T	NM_018344	NP_060814	Q9BZD2	S29A3_HUMAN	solute carrier family 29 (nucleoside	232	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to membrane|late endosome membrane|lysosomal membrane	nucleoside transmembrane transporter activity				0						CAGCGCCCTGGCCTTCTTCCT	0.612													11	45					0	0	1	0	0		A	73115921	A	A	73115921	3	1	66	1	0	0	0	0	1	0	0	0	14561	1203	42	2	712	2	SLC29A3	10	73115921	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1971268	73115921	62418826	796	44872											
P4HA1	5033	broad.mit.edu	37	chr10	74813270	74813270	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatccacagttccgtatggTaataatctgcttctgtatag	10	14	7	10	1	2	0	0	0	2	0	4	0	4	0	3	1	1	5	3	1	5	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:74813270T>C	uc010qka.1	-	7	876	c.542A>G	c.(541-543)TAC>TGC	p.Y181C	P4HA1_uc001jtg.2_Missense_Mutation_p.Y181C|P4HA1_uc001jth.2_Missense_Mutation_p.Y181C|P4HA1_uc010qkb.1_Missense_Mutation_p.Y181C|P4HA1_uc001jti.2_RNA	NM_001142595	NP_001136067	P13674	P4HA1_HUMAN	prolyl 4-hydroxylase, alpha I subunit isoform 2	181						endoplasmic reticulum lumen|mitochondrion	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			ovary(1)	1	Prostate(51;0.0198)				Hydralazine(DB01275)|L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	TTCCGTATGGTAATAATCTGC	0.413													36	83					0	0	1	0	0		C	74813270	C	C	74813270	3	2	66	1	0	0	0	0	1	0	0	0	11375	1638	57	3	1177	3	P4HA1	10	74813270	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1697349	74813270	60721477	797	44873											
ADK	132	broad.mit.edu	37	chr10	76360209	76360209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaaagaggcagcgaatcGtgatcttcacccaagggaga	14	6	11	10	2	3	3	2	1	1	2	4	5	3	3	1	2	1	1	1	2	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:76360209G>A	uc001jwi.2	+	9	907	c.835G>A	c.(835-837)GTG>ATG	p.V279M	ADK_uc010qlb.1_Missense_Mutation_p.V222M|ADK_uc001jwj.2_Missense_Mutation_p.V262M|ADK_uc010qlc.1_Missense_Mutation_p.V244M|ADK_uc001jwl.2_Missense_Mutation_p.V49M	NM_006721	NP_006712	P55263	ADK_HUMAN	adenosine kinase isoform b	279					purine base metabolic process|purine ribonucleoside salvage	cytosol	adenosine kinase activity|ATP binding|metal ion binding|phosphotransferase activity, alcohol group as acceptor			ovary(1)|skin(1)	2	Prostate(51;0.0112)|Ovarian(15;0.148)				Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)|Pegademase bovine(DB00061)|Ribavirin(DB00811)	GCAGCGAATCGTGATCTTCAC	0.368													8	21					0	0	1	0	0		A	76360209	A	A	76360209	3	1	66	1	0	0	0	0	1	0	0	0	320	1145	40	1	887	1	ADK	10	76360209	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1546939	76360209	59174538	798	44874											
KCNMA1	3778	broad.mit.edu	37	chr10	78647136	78647136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacagaggagctcttcttgCtggaggactgcgacgagtgg	9	8	16	8	2	2	1	0	0	2	1	2	7	2	4	0	4	4	2	0	4	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:78647136C>T	uc001jxn.2	-	28	3776	c.3599G>A	c.(3598-3600)AGC>AAC	p.S1200N	KCNMA1_uc001jxj.2_Missense_Mutation_p.S1146N|KCNMA1_uc001jxk.1_Missense_Mutation_p.S818N|KCNMA1_uc009xrt.1_Missense_Mutation_p.S991N|KCNMA1_uc001jxl.1_Missense_Mutation_p.S825N|KCNMA1_uc001jxo.2_Missense_Mutation_p.S1183N|KCNMA1_uc001jxm.2_Missense_Mutation_p.S1142N|KCNMA1_uc001jxq.2_Missense_Mutation_p.S1172N|uc001jxp.2_5'Flank	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1200	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	GCTCTTCTTGCTGGAGGACTG	0.587													7	80					0	0	1	0	0		T	78647136	T	T	78647136	3	4	66	1	0	0	0	0	1	0	0	0	8089	797	28	2	144	2	KCNMA1	10	78647136	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2286927	78647136	56887611	799	44875											
POLR3A	11128	broad.mit.edu	37	chr10	79750815	79750815	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacctggcagagctcacctgCaggaagctgtcctggcagca	9	6	12	14	0	1	1	1	0	0	1	2	2	2	2	3	3	4	6	3	3	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:79750815C>T	uc001jzn.2	-	21	2992	c.2898G>A	c.(2896-2898)CTG>CTA	p.L966L		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	966					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			AGCTCACCTGCAGGAAGCTGT	0.542													3	23					0	0	1	0	0		T	79750815	T	T	79750815	2	4	66	1	0	0	0	0	0	0	0	1	12247	697	25	2		2	POLR3A	10	79750815	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1103679	79750815	55783932	800	44876											
ZMIZ1	57178	broad.mit.edu	37	chr10	81052026	81052026	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcggcagtggcagcAgcagcagccacagctacagc	11	2	14	14	1	0	0	0	0	0	0	0	0	0	0	1	2	9	8	1	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:81052026A>G	uc001kaf.2	+	11	1442	c.870A>G	c.(868-870)GCA>GCG	p.A290A	ZMIZ1_uc001kag.2_Silent_p.A166A|ZMIZ1_uc001kah.1_Silent_p.A166A	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	290	Ala-rich.				transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			cagtggcagcagcagcagcCA	0.493													27	54					0	0	1	0	0		G	81052026	G	G	81052026	2	3	66	1	0	0	0	0	0	0	0	1	17721	175	7	3		3	ZMIZ1	10	81052026	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1301211	81052026	54482721	801	44877											
GHITM	27069	broad.mit.edu	37	chr10	85904668	85904668	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggatagaattcattccAcctatatgtacttagcaggg	13	12	8	8	0	2	1	2	0	0	1	3	2	3	2	2	2	2	2	2	2	7	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:85904668A>G	uc001kcs.1	+	5	583	c.379A>G	c.(379-381)ACC>GCC	p.T127A	GHITM_uc010qma.1_Intron|GHITM_uc010qmb.1_Missense_Mutation_p.T57A	NM_014394	NP_055209	Q9H3K2	GHITM_HUMAN	growth hormone inducible transmembrane protein	127	Helical; (Potential).				apoptosis	integral to membrane|mitochondrial inner membrane					0						AATTCATTCCACCTATATGTA	0.338													24	58					0	0	1	0	0		G	85904668	G	G	85904668	3	3	66	1	0	0	0	0	1	0	0	0	6385	159	6	3	393	3	GHITM	10	85904668	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	4852642	85904668	49630079	802	44878											
WAPAL	23063	broad.mit.edu	37	chr10	88197332	88197332	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatattcaatcactctagAgatagatttctggccagttg	13	13	7	8	0	4	2	2	0	2	2	4	3	4	2	1	1	0	1	1	1	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:88197332A>G	uc001kdo.2	-	19	3983	c.3541T>C	c.(3541-3543)TCT>CCT	p.S1181P	WAPAL_uc009xsv.2_Missense_Mutation_p.S440P|WAPAL_uc001kdn.2_Missense_Mutation_p.S1218P|WAPAL_uc009xsw.2_Missense_Mutation_p.S1175P	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	1181					cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						ATCACTCTAGAGATAGATTTC	0.383													13	29					0	0	1	0	0		G	88197332	G	G	88197332	3	3	66	1	0	0	0	0	1	0	0	0	17274	304	11	3	35	3	WAPAL	10	88197332	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2292664	88197332	47337415	803	44879											
MMRN2	79812	broad.mit.edu	37	chr10	88703315	88703315	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagttccttgatctcatccAcgtgccgggtcagggtggcc	6	10	12	13	2	2	1	2	1	1	0	5	1	4	1	4	3	1	1	4	3	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:88703315A>C	uc001kea.2	-	6	1353	c.1226T>G	c.(1225-1227)GTG>GGG	p.V409G	MMRN2_uc010qmn.1_Missense_Mutation_p.V52G|MMRN2_uc009xtb.2_Missense_Mutation_p.V366G	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	409	Potential.					extracellular space				large_intestine(1)	1						GATCTCATCCACGTGCCGGGT	0.602													20	56					0	0	1	0	0		C	88703315	C	C	88703315	3	2	66	1	0	0	0	0	1	0	0	0	9689	159	6	5	1631	5	MMRN2	10	88703315	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	505983	88703315	46831432	804	44880											
RPP30	10556	broad.mit.edu	37	chr10	92656100	92656100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgggctctctgaaagtgaCgccaaggctgcggtgtccac	7	10	13	11	2	1	2	0	2	1	0	3	2	2	2	2	3	1	2	2	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:92656100C>T	uc009xtx.2	+	10	683	c.648C>T	c.(646-648)GAC>GAT	p.D216D	RPP30_uc001khd.2_Silent_p.D216D	NM_006413	NP_006404	P78346	RPP30_HUMAN	ribonuclease P/MRP 30kDa subunit isoform b	216					tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity				0						CTGAAAGTGACGCCAAGGCTG	0.488													12	42					0	0	1	0	0		T	92656100	T	T	92656100	2	4	66	1	0	0	0	0	0	0	0	1	13637	535	19	1		1	RPP30	10	92656100	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3952785	92656100	42878647	805	44881											
CYP26C1	340665	broad.mit.edu	37	chr10	94828127	94828127	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtatagcatccgggacacGcacgagacggctgcggtgta	10	7	14	10	5	0	1	0	0	0	1	1	3	1	2	1	3	2	5	1	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:94828127G>A	uc010qns.1	+	6	1242	c.1242G>A	c.(1240-1242)ACG>ACA	p.T414T	CYP26C1_uc009xud.2_RNA	NM_183374	NP_899230	Q6V0L0	CP26C_HUMAN	cytochrome P450, family 26, subfamily C,	414					anterior/posterior pattern formation|central nervous system development|negative regulation of retinoic acid receptor signaling pathway|neural crest cell development|organelle fusion|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			central_nervous_system(1)	1		Colorectal(252;0.122)				TCCGGGACACGCACGAGACGG	0.667													6	39					0	0	1	0	0		A	94828127	A	A	94828127	2	1	66	1	0	0	0	0	0	0	0	1	4160	1074	38	1		1	CYP26C1	10	94828127	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2172027	94828127	40706620	806	44882											
MMS19	64210	broad.mit.edu	37	chr10	99237113	99237113	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctcttaccttcttcccGggttcgcataaaattggtga	7	15	8	11	2	2	1	0	1	2	0	5	1	3	1	2	2	1	2	2	2	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:99237113G>A	uc001kns.3	-	6	709	c.484C>T	c.(484-486)CGG>TGG	p.R162W	MMS19_uc009xvt.2_Missense_Mutation_p.R4W|MMS19_uc001knr.2_Missense_Mutation_p.R4W|MMS19_uc010qox.1_Missense_Mutation_p.R183W|MMS19_uc001knt.2_Missense_Mutation_p.R162W|MMS19_uc001knu.1_RNA	NM_022362	NP_071757	Q96T76	MMS19_HUMAN	MMS19 nucleotide excision repair homolog	162					chromosome segregation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|response to hormone stimulus|transcription, DNA-dependent|two-component signal transduction system (phosphorelay)	cytoplasm|holo TFIIH complex|MMXD complex	estrogen receptor binding|protein binding, bridging|receptor signaling complex scaffold activity|transcription coactivator activity				0		Colorectal(252;0.0846)		Epithelial(162;3.33e-10)|all cancers(201;2.74e-08)		CCTTCTTCCCGGGTTCGCATA	0.448								Direct_reversal_of_damage|NER					17	42					0	0	1	0	0		A	99237113	A	A	99237113	3	1	66	1	0	0	0	0	1	0	0	0	9690	1115	39	1	2712	1	MMS19	10	99237113	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4408986	99237113	36297634	807	44883											
GOLGA7B	401647	broad.mit.edu	37	chr10	99623729	99623729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agactgtgaagaccctcaacGgattttacgcagaggctgag	12	8	12	9	2	1	5	1	2	0	3	1	6	1	6	1	2	2	2	1	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:99623729G>A	uc001kos.2	+	3	246	c.181G>A	c.(181-183)GGA>AGA	p.G61R		NM_001010917	NP_001010917	Q2TAP0	GOG7B_HUMAN	golgi autoantigen, golgin subfamily a, 7B	61						Golgi membrane					0						GACCCTCAACGGATTTTACGC	0.587													22	34					0	0	1	0	0		A	99623729	A	A	99623729	3	1	66	1	0	0	0	0	1	0	0	0	6577	1117	39	1	191	1	GOLGA7B	10	99623729	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	386616	99623729	35911018	808	44884											
CNNM1	26507	broad.mit.edu	37	chr10	101122095	101122095	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaagaacaagaaggcccCggaacactacctctaccagc	15	4	9	13	1	1	3	0	1	1	3	1	5	1	4	4	2	5	0	4	2	7	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:101122095C>G	uc001kpp.3	+	4	2259	c.1970C>G	c.(1969-1971)CCG>CGG	p.P657R	CNNM1_uc009xwe.2_Missense_Mutation_p.P657R|CNNM1_uc010qpi.1_Missense_Mutation_p.P657R|CNNM1_uc009xwf.2_Missense_Mutation_p.P657R|CNNM1_uc009xwg.2_Missense_Mutation_p.P57R	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	657					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		AAGAAGGCCCCGGAACACTAC	0.527													16	27					0	0	1	0	0		G	101122095	G	G	101122095	3	3	66	1	0	0	0	0	1	0	0	0	3615	652	23	5	1984	5	CNNM1	10	101122095	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1498366	101122095	34412652	809	44885											
CPN1	1369	broad.mit.edu	37	chr10	101823471	101823471	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catccatgtgcataggagtaGaccttggccagctagaggaa	12	8	12	9	0	0	2	0	0	0	2	1	4	1	4	3	3	2	3	3	3	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:101823471G>A	uc001kql.2	-	5	1031	c.771C>T	c.(769-771)GTC>GTT	p.V257V		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	257	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		CATAGGAGTAGACCTTGGCCA	0.493													17	62					0	0	1	0	0		A	101823471	A	A	101823471	2	1	66	1	0	0	0	0	0	0	0	1	3812	929	33	4		4	CPN1	10	101823471	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	701376	101823471	33711276	810	44886											
PPRC1	23082	broad.mit.edu	37	chr10	103901063	103901063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcctcatgtgtccccttctgGctatccttgcctgccccccc	2	13	6	20	0	2	0	1	0	1	0	5	0	5	0	8	1	2	1	8	1	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:103901063G>A	uc001kum.2	+	5	2837	c.2798G>A	c.(2797-2799)GGC>GAC	p.G933D	PPRC1_uc001kun.2_Missense_Mutation_p.G813D|PPRC1_uc010qqj.1_Missense_Mutation_p.G933D|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	933	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		TCCCCTTCTGGCTATCCTTGC	0.587													28	35					0	0	1	0	0		A	103901063	A	A	103901063	3	1	66	1	0	0	0	0	1	0	0	0	12432	1203	42	2	2816	2	PPRC1	10	103901063	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2077592	103901063	31633684	811	44887											
GBF1	8729	broad.mit.edu	37	chr10	104140951	104140951	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgacttccgctgctggCgacactaggacacctggcca	8	7	10	16	2	0	1	0	1	0	0	1	3	1	2	4	3	1	2	4	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:104140951C>T	uc001kux.1	+	39	5478	c.5238C>T	c.(5236-5238)GGC>GGT	p.G1746G	GBF1_uc001kuy.1_Silent_p.G1742G|GBF1_uc001kuz.1_Silent_p.G1743G	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1746					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CCGCTGCTGGCGACACTAGGA	0.602													15	45					0	0	1	0	0		T	104140951	T	T	104140951	2	4	66	1	0	0	0	0	0	0	0	1	6286	755	27	1		1	GBF1	10	104140951	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	239888	104140951	31393796	812	44888											
SUFU	51684	broad.mit.edu	37	chr10	104389902	104389902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgtggtgttcgacagtcCgctacactagcctgggctgg	6	10	14	11	3	0	1	0	1	0	0	2	2	1	1	2	3	2	3	2	3	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:104389902C>T	uc001kvy.1	+	12	1591	c.1445C>T	c.(1444-1446)CCG>CTG	p.P482L	SUFU_uc009xxe.1_RNA|SUFU_uc009xxf.1_RNA	NM_016169	NP_057253	Q9UMX1	SUFU_HUMAN	suppressor of fused	482					negative regulation of transcription from RNA polymerase II promoter|proteolysis|skeletal system development	cytoplasm|nucleus	identical protein binding|protein binding|signal transducer activity|transcription corepressor activity|transcription factor binding			central_nervous_system(4)|skin(2)|breast(1)	7		Colorectal(252;0.207)		Epithelial(162;1.36e-08)|all cancers(201;3.81e-07)|BRCA - Breast invasive adenocarcinoma(275;0.242)		TTCGACAGTCCGCTACACTAG	0.567			D|F|S		medulloblastoma	medulloblastoma			Medulloblastoma_associated_with_Germline_SUFU_Mutation				33	63					0	0	1	0	0		T	104389902	T	T	104389902	3	4	66	1	0	0	0	0	1	0	0	0	15393	652	23	1	1501	1	SUFU	10	104389902	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	248951	104389902	31144845	813	44889											
CNNM2	54805	broad.mit.edu	37	chr10	104678873	104678874	+	Frame_Shift_Ins	INS	-	G	G																															ggtccacgggtggcgccgtcINSgggggcaagggtggctcggg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:104678873_104678874insG	uc001kwm.2	+	1	760_761	c.636_637insG	c.(634-639)GTCGGGfs	p.V212fs	CNNM2_uc001kwn.2_Frame_Shift_Ins_p.V212fs|CNNM2_uc001kwl.2_Frame_Shift_Ins_p.V212fs	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	212_213					ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		GTGGCGCCGTCGGGGGCAAGGG	0.703													17	26	---	---	---	---						.	G	104678874	G	G	104678873	7	5	66	1	0	1	1	0	0	0	0	0	3616	871	31	0	638	0	CNNM2	10	104678873	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	288971	104678873	30855874	814	44890											
PDCD11	22984	broad.mit.edu	37	chr10	105172904	105172904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcctttgcgtccatcctcGaaccagagttgtgcacctga	8	11	8	14	2	0	2	0	1	0	1	4	3	3	2	5	0	3	2	5	0	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:105172904G>A	uc001kwy.1	+	9	1097	c.1010G>A	c.(1009-1011)CGA>CAA	p.R337Q		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	337	S1 motif 3.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		GTCCATCCTCGAACCAGAGTT	0.597													12	54					0	0	1	0	0		A	105172904	A	A	105172904	3	1	66	1	0	0	0	0	1	0	0	0	11636	1058	37	1	1040	1	PDCD11	10	105172904	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	494031	105172904	30361843	815	44891											
SLK	9748	broad.mit.edu	37	chr10	105758876	105758876	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaattatctgtcttcataGgatggctcctgaagtagtca	10	16	8	7	0	4	1	2	1	2	0	5	2	5	2	1	2	0	2	1	2	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:105758876G>T	uc001kxo.1	+	6	622	c.588_splice	c.e6-1	p.W196_splice	SLK_uc001kxp.1_Splice_Site_p.W196_splice	NM_014720	NP_055535	Q9H2G2	SLK_HUMAN	serine/threonine kinase 2						apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TGTCTTCATAGGATGGCTCCT	0.343													14	51					6.31663e-08	6.54262e-08	1	1	0		T	105758876	T	T	105758876	5	4	66	1	0	0	0	0	0	0	1	0	14773	1014	35	5	609	5	SLK	10	105758876	Splice_Site	SNP	G	TCGA-BR-8361-01A-11D-2340-08	585972	105758876	29775871	816	44892											
SLK	9748	broad.mit.edu	37	chr10	105765439	105765439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attccaaaactgaagaattgCggtttcttaggtgagtagag	13	12	11	5	1	1	4	0	2	1	2	2	4	2	4	1	2	2	2	1	2	6	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:105765439C>T	uc001kxo.1	+	10	2504	c.2470C>T	c.(2470-2472)CGG>TGG	p.R824W	SLK_uc001kxp.1_Missense_Mutation_p.R824W	NM_014720	NP_055535	Q9H2G2	SLK_HUMAN	serine/threonine kinase 2	824					apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TGAAGAATTGCGGTTTCTTAG	0.333													24	60					0	0	1	0	0		T	105765439	T	T	105765439	3	4	66	1	0	0	0	0	1	0	0	0	14773	759	27	1	2508	1	SLK	10	105765439	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	6563	105765439	29769308	817	44893											
COL17A1	1308	broad.mit.edu	37	chr10	105801069	105801069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcggctctcacctggtgggCctcggggtcctggtgggcct	1	10	16	14	2	1	0	1	0	1	0	5	0	2	0	4	7	0	1	4	7	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:105801069C>T	uc001kxr.2	-	38	2808	c.2639G>A	c.(2638-2640)GGC>GAC	p.G880D		NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	880	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		ACCTGGTGGGCCTCGGGGTCC	0.647													18	60					0	0	1	0	0		T	105801069	T	T	105801069	3	4	66	1	0	0	0	0	1	0	0	0	3677	739	26	2	1930	2	COL17A1	10	105801069	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	35630	105801069	29733678	818	44894											
ITPRIP	85450	broad.mit.edu	37	chr10	106074327	106074327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgaggggctcggccctgaGcacggcctcagggagtccca	6	6	16	13	2	1	2	1	2	0	0	3	3	2	3	3	5	1	3	3	5	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:106074327G>A	uc001kye.2	-	2	1556	c.1483C>T	c.(1483-1485)CTC>TTC	p.L495F	ITPRIP_uc001kyf.2_Missense_Mutation_p.L495F|ITPRIP_uc001kyg.2_Missense_Mutation_p.L495F	NM_033397	NP_203755	Q8IWB1	IPRI_HUMAN	inositol 1,4,5-triphosphate receptor interacting	495						plasma membrane					0						TCGGCCCTGAGCACGGCCTCA	0.592													23	58					0	0	1	0	0		A	106074327	A	A	106074327	3	1	66	1	0	0	0	0	1	0	0	0	7939	971	34	2	164	2	ITPRIP	10	106074327	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	273258	106074327	29460420	819	44895											
CASP7	840	broad.mit.edu	37	chr10	115481532	115481532	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaagatgcaagatctgcttAaaaaaggtgagtgctgccag	14	8	11	8	0	1	3	0	1	1	2	1	3	1	3	2	1	4	3	2	1	5	1	rs72431166		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:115481532A>T	uc001lan.2	+	4	544	c.370A>T	c.(370-372)AAA>TAA	p.K124*	CASP7_uc001lam.2_Nonsense_Mutation_p.K124*|CASP7_uc001lao.2_Nonsense_Mutation_p.K157*|CASP7_uc001lap.2_Nonsense_Mutation_p.K124*|CASP7_uc001laq.2_Nonsense_Mutation_p.K124*|CASP7_uc010qsa.1_Nonsense_Mutation_p.K209*|CASP7_uc010qsb.1_Nonsense_Mutation_p.K99*	NM_033339	NP_203125	P55210	CASP7_HUMAN	caspase 7 isoform alpha	124					activation of caspase activity by cytochrome c|cellular component disassembly involved in apoptosis|induction of apoptosis by intracellular signals|proteolysis	cytosol|endoplasmic reticulum membrane|mitochondrial membrane|nucleoplasm	cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Colorectal(252;0.0946)|Breast(234;0.188)		Epithelial(162;0.012)|all cancers(201;0.014)		AGATCTGCTTAAAAAAGGTGA	0.269													24	75					0	0	1	0	0		T	115481532	T	T	115481532	4	4	66	1	0	0	0	0	0	1	0	0	2679	363	13	5	483	5	CASP7	10	115481532	Nonsense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	9407205	115481532	20053215	820	44896											
ADRB1	153	broad.mit.edu	37	chr10	115804937	115804937	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaacgtggtgaaggcctTccaccgcgagctggtgcccg	6	6	15	14	4	0	1	0	1	0	0	1	2	1	1	5	4	3	1	5	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:115804937T>A	uc001lba.2	+	1	1132	c.1046T>A	c.(1045-1047)TTC>TAC	p.F349Y		NM_000684	NP_000675	P08588	ADRB1_HUMAN	beta-1-adrenergic receptor	349	Helical; Name=6; (By similarity).				positive regulation of cAMP biosynthetic process	integral to plasma membrane	alpha-2A adrenergic receptor binding|beta1-adrenergic receptor activity|protein heterodimerization activity				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0124)|all cancers(201;0.0298)	Acebutolol(DB01193)|Alprenolol(DB00866)|Amiodarone(DB01118)|Arbutamine(DB01102)|Atenolol(DB00335)|Betaxolol(DB00195)|Bevantolol(DB01295)|Bisoprolol(DB00612)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Desipramine(DB01151)|Dobutamine(DB00841)|Dopamine(DB00988)|Epinephrine(DB00668)|Esmolol(DB00187)|Isoetharine(DB00221)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Metoprolol(DB00264)|Nadolol(DB01203)|Norepinephrine(DB00368)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Practolol(DB01297)|Propranolol(DB00571)|Risperidone(DB00734)|Timolol(DB00373)|Ziprasidone(DB00246)	GTGAAGGCCTTCCACCGCGAG	0.642													7	12					0	0	1	0	0		A	115804937	A	A	115804937	3	1	66	1	0	0	0	0	1	0	0	0	340	1783	62	5	1048	5	ADRB1	10	115804937	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	323405	115804937	19729810	821	44897											
VWA2	340706	broad.mit.edu	37	chr10	116045994	116045994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgcggcaggcggcagagCgtggcttcgggagcgccacc	5	5	17	14	5	0	1	0	0	0	1	1	2	0	2	3	5	3	3	3	5	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:116045994C>T	uc001lbl.1	+	11	1615	c.1294C>T	c.(1294-1296)CGT>TGT	p.R432C	VWA2_uc001lbk.1_Missense_Mutation_p.R432C|VWA2_uc009xyf.1_Missense_Mutation_p.R128C	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	432	VWFA 2.					extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		GGCGGCAGAGCGTGGCTTCGG	0.662													11	52					0	0	1	0	0		T	116045994	T	T	116045994	3	4	66	1	0	0	0	0	1	0	0	0	17265	768	27	1	1332	1	VWA2	10	116045994	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	241057	116045994	19488753	822	44898											
C10orf119	79892	broad.mit.edu	37	chr10	121595140	121595140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagcacggaaggcagcaccGctgagagaaggctgttcatg	11	6	14	10	2	2	2	2	1	0	1	2	4	2	3	1	3	2	6	1	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:121595140G>A	uc001ler.2	-	14	1923	c.1625C>T	c.(1624-1626)GCG>GTG	p.A542V	C10orf119_uc001leq.1_Missense_Mutation_p.A367V|C10orf119_uc001les.1_Missense_Mutation_p.A367V	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	542					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)		AGGCAGCACCGCTGAGAGAAG	0.438													28	46					0	0	1	0	0		A	121595140	A	A	121595140	3	1	66	1	0	0	0	0	1	0	0	0	1591	1087	38	1	315	1	C10orf119	10	121595140	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5549146	121595140	13939607	823	44899											
C10orf120	399814	broad.mit.edu	37	chr10	124457678	124457678	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccaccccagacagaaaTgaggagcgtgtaaacctttc	13	6	10	12	1	0	3	0	1	0	2	1	4	0	4	4	2	2	1	4	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:124457678T>C	uc001lgn.2	-	3	611	c.579A>G	c.(577-579)TCA>TCG	p.S193S		NM_001010912	NP_001010912	Q5SQS8	CJ120_HUMAN	hypothetical protein LOC399814	193										kidney(1)	1		all_neural(114;0.169)|Glioma(114;0.222)				CAGACAGAAATGAGGAGCGTG	0.478													14	55					0	0	1	0	0		C	124457678	C	C	124457678	2	2	66	1	0	0	0	0	0	0	0	1	1593	1451	51	3		3	C10orf120	10	124457678	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2862538	124457678	11077069	824	44900											
ACADSB	36	broad.mit.edu	37	chr10	124797336	124797336	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcgaaaatggagaaatcAgtaatacaaggattatttca	19	11	7	4	1	2	1	2	0	0	1	3	4	2	2	0	2	1	1	0	2	8	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:124797336A>C	uc001lhb.2	+	3	393	c.276A>C	c.(274-276)TCA>TCC	p.S92S	ACADSB_uc010qub.1_Intron	NM_001609	NP_001600	P45954	ACDSB_HUMAN	acyl-Coenzyme A dehydrogenase, short/branched	92					branched chain family amino acid catabolic process|fatty acid metabolic process	mitochondrial matrix	flavin adenine dinucleotide binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.0811)|COAD - Colon adenocarcinoma(40;0.0835)	L-Isoleucine(DB00167)	TGGAGAAATCAGTAATACAAG	0.313													27	82					0	0	1	0	0		C	124797336	C	C	124797336	2	2	66	1	0	0	0	0	0	0	0	1	115	175	7	5		5	ACADSB	10	124797336	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	339658	124797336	10737411	825	44901											
C10orf137	26098	broad.mit.edu	37	chr10	127412385	127412385	+	Frame_Shift_Del	DEL	A	-	-																															tcttaattttttaagaacatAaaaaaactcctgaaaattcc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:127412385delA	uc001liq.1	+	4	683	c.390delA	c.(388-390)ATAfs	p.I130fs	C10orf137_uc001lin.2_Frame_Shift_Del_p.I130fs|C10orf137_uc001lio.1_Frame_Shift_Del_p.I130fs|C10orf137_uc001lip.1_5'UTR	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	130					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TTAAGAACATAAAAAAACTCC	0.323													39	57	---	---	---	---						.	-	127412385	-	-	127412385	7	5	66	1	0	1	0	1	0	0	0	0	1597	352	13	0	404	0	C10orf137	10	127412385	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	2615049	127412385	8122362	826	44902											
UROS	7390	broad.mit.edu	37	chr10	127483544	127483544	+	Frame_Shift_Del	DEL	C	-	-																															aaatgtgatgctggctggaaCcccctgtggggaacagaaaa																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:127483544delC	uc001liw.3	-	8	698	c.565delG	c.(565-567)GTTfs	p.V189fs	UROS_uc001liv.3_Frame_Shift_Del_p.V70fs|UROS_uc010quh.1_RNA|UROS_uc001lix.3_Frame_Shift_Del_p.V189fs|UROS_uc001liy.3_RNA	NM_000375	NP_000366	P10746	HEM4_HUMAN	uroporphyrinogen III synthase	189					heme biosynthetic process|uroporphyrinogen III biosynthetic process	cytosol|mitochondrion	uroporphyrinogen-III synthase activity				0		all_lung(145;0.00756)|Lung NSC(174;0.0116)|Colorectal(57;0.0855)|all_neural(114;0.0937)|Breast(234;0.203)				CTGGCTGGAACCCCCTGTGGG	0.483													15	34	---	---	---	---						.	-	127483544	-	-	127483544	7	5	66	1	0	1	0	1	0	0	0	0	17056	507	18	0	240	0	UROS	10	127483544	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	71159	127483544	8051203	827	44903											
DHX32	55760	broad.mit.edu	37	chr10	127548546	127548546	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catatcatcagtacaataccTataaagaagaaacattaaag	21	9	4	7	0	2	2	2	0	0	2	2	2	2	2	1	0	3	1	1	0	11	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:127548546T>C	uc001ljf.1	-	3	968	c.477_splice	c.e3-1	p.R159_splice	DHX32_uc001ljg.1_Splice_Site_p.R159_splice|DHX32_uc009yam.1_Splice_Site	NM_018180	NP_060650	Q7L7V1	DHX32_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32							mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GTACAATACCTATAAAGAAGA	0.313													13	21					0	0	1	0	0		C	127548546	C	C	127548546	5	2	66	1	0	0	0	0	0	0	1	0	4511	1536	53	3	1792	3	DHX32	10	127548546	Splice_Site	SNP	T	TCGA-BR-8361-01A-11D-2340-08	65002	127548546	7986201	828	44904											
FOXI2	399823	broad.mit.edu	37	chr10	129536879	129536879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggagagctgaagccagcGcggccgtgcgctcgggagcc	8	3	18	12	5	0	3	0	1	0	2	1	5	0	4	3	3	5	2	3	3	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:129536879G>A	uc009yas.2	+	2	607	c.607G>A	c.(607-609)GCG>ACG	p.A203T	uc009yar.1_5'Flank	NM_207426	NP_997309	Q6ZQN5	FOXI2_HUMAN	forkhead box I2	203					epidermal cell fate specification|otic placode formation|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		all_epithelial(44;0.0021)|all_lung(145;0.0586)|Lung NSC(174;0.0765)|all_neural(114;0.201)|Glioma(114;0.222)				TGAAGCCAGCGCGGCCGTGCG	0.662													5	10					0	0	1	0	0		A	129536879	A	A	129536879	3	1	66	1	0	0	0	0	1	0	0	0	6024	1087	38	1	613	1	FOXI2	10	129536879	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1988333	129536879	5997868	829	44905											
EBF3	253738	broad.mit.edu	37	chr10	131761751	131761751	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccggaggttggaaggcggCtgcttctcgaagtgcgcccg	5	9	16	11	5	1	0	0	0	1	0	3	3	2	2	2	5	2	3	2	5	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:131761751C>T	uc001lki.1	-	2	230	c.171G>A	c.(169-171)CAG>CAA	p.Q57Q	EBF3_uc010qur.1_Silent_p.Q43Q	NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	57					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		TGGAAGGCGGCTGCTTCTCGA	0.537													12	30					0	0	1	0	0		T	131761751	T	T	131761751	2	4	66	1	0	0	0	0	0	0	0	1	4888	796	28	2		2	EBF3	10	131761751	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2224872	131761751	3772996	830	44906											
NKX6-2	84504	broad.mit.edu	37	chr10	134598879	134598879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgaaggttttctccagcgCgaagatctgctggcccgaga	8	9	12	12	4	2	2	0	0	2	2	4	5	2	2	2	2	2	2	2	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr10:134598879C>T	uc001llr.2	-	2	569	c.484G>A	c.(484-486)GCG>ACG	p.A162T		NM_177400	NP_796374	Q9C056	NKX62_HUMAN	NK6 transcription factor related, locus 2	162	Homeobox.					nucleus	sequence-specific DNA binding transcription factor activity				0		all_cancers(35;2.79e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0584)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;4.06e-05)|Epithelial(32;5.53e-05)|all cancers(32;5.99e-05)		TTCTCCAGCGCGAAGATCTGC	0.677													7	8					0	0	1	0	0		T	134598879	T	T	134598879	3	4	66	1	0	0	0	0	1	0	0	0	10477	768	27	1	357	1	NKX6-2	10	134598879	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2837128	134598879	935868	831	44907											
ANO9	338440	broad.mit.edu	37	chr11	431745	431745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtctccaccgcgcccacGtcttcttcaggcgtccctcc	3	11	8	19	4	4	0	1	0	3	0	7	0	6	0	5	1	0	0	5	1	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:431745G>A	uc001lpi.2	-	7	573	c.488C>T	c.(487-489)ACG>ATG	p.T163M	ANO9_uc001lph.2_5'Flank|ANO9_uc010qvv.1_Missense_Mutation_p.T19M	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	163	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						CCGCGCCCACGTCTTCTTCAG	0.672													12	19					0	0	1	0	0		A	431745	A	A	431745	3	1	66	1	0	0	0	0	1	0	0	0	704	1145	40	1	1928	1	ANO9	11	431745	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08		431745	134574771	832	44908											
RNH1	6050	broad.mit.edu	37	chr11	499909	499909	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatcccccaagaggttgtcGctgaggtgcagctcctgcag	7	8	13	13	1	0	2	0	1	0	1	3	2	2	2	3	2	3	6	3	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:499909G>A	uc001lpk.1	-	3	1771	c.363C>T	c.(361-363)AGC>AGT	p.S121S	RNH1_uc001lpl.1_Silent_p.S121S|RNH1_uc001lpm.1_Silent_p.S121S|RNH1_uc001lpn.1_Silent_p.S121S|RNH1_uc001lpo.1_Silent_p.S121S|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Silent_p.S121S|RNH1_uc001lpt.1_5'UTR|RNH1_uc001lpq.1_Silent_p.S121S|RNH1_uc001lpr.1_Silent_p.S121S|RNH1_uc001lps.1_Silent_p.S121S|RNH1_uc009ybx.1_3'UTR	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	121	LRR 4.				mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGAGGTTGTCGCTGAGGTGCA	0.662													7	25					0	0	1	0	0		A	499909	A	A	499909	2	1	66	1	0	0	0	0	0	0	0	1	13529	1078	38	1		1	RNH1	11	499909	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	68164	499909	134506607	833	44909											
CEND1	51286	broad.mit.edu	37	chr11	788286	788286	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctccgccccgtccccAggacccttgggctccggggt	2	9	11	19	3	1	0	0	0	1	0	5	1	5	1	8	4	0	1	8	4	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:788286A>G	uc001lrh.1	-	2	470	c.291T>C	c.(289-291)CCT>CCC	p.P97P		NM_016564	NP_057648	Q8N111	CEND_HUMAN	cell cycle exit and neuronal differentiation 1	97	Cytoplasmic (Potential).					integral to membrane					0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;6.27e-26)|Epithelial(43;4.84e-25)|OV - Ovarian serous cystadenocarcinoma(40;2.72e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCCCGTCCCCAGGACCCTTGG	0.692													6	16					0	0	1	0	0		G	788286	G	G	788286	2	3	66	1	0	0	0	0	0	0	0	1	3228	175	7	3		3	CEND1	11	788286	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	288377	788286	134218230	834	44910											
AP2A2	161	broad.mit.edu	37	chr11	972112	972112	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaacagtgagctgatccgCctgatcaacaacgccatcaa	14	7	7	13	2	3	3	3	3	0	0	4	3	4	3	3	0	4	1	3	0	4	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:972112C>T	uc001lss.2	+	4	511	c.330C>T	c.(328-330)CGC>CGT	p.R110R	AP2A2_uc001lst.1_Silent_p.R110R|AP2A2_uc009yco.1_RNA|AP2A2_uc001lsu.1_5'UTR	NM_012305	NP_036437	O94973	AP2A2_HUMAN	adaptor-related protein complex 2, alpha 2	110					axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	lipid binding|protein transporter activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.75e-24)|BRCA - Breast invasive adenocarcinoma(625;5.73e-05)|Lung(200;0.0696)|LUSC - Lung squamous cell carcinoma(625;0.082)		AGCTGATCCGCCTGATCAACA	0.557													6	16					0	0	1	0	0		T	972112	T	T	972112	2	4	66	1	0	0	0	0	0	0	0	1	740	726	26	2		2	AP2A2	11	972112	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	183826	972112	134034404	835	44911											
MUC6	4588	broad.mit.edu	37	chr11	1023607	1023607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgtgtgtactggtactcgCcatggccgtcctgcgtgtgc	3	12	13	13	3	0	0	0	0	0	0	2	0	1	0	4	2	4	2	4	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:1023607C>T	uc001lsw.2	-	26	3479	c.3428G>A	c.(3427-3429)GGC>GAC	p.G1143D		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1143					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CTGGTACTCGCCATGGCCGTC	0.647													6	16					0	0	1	0	0		T	1023607	T	T	1023607	3	4	66	1	0	0	0	0	1	0	0	0	9998	739	26	2	3923	2	MUC6	11	1023607	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	51495	1023607	133982909	836	44912											
BRSK2	9024	broad.mit.edu	37	chr11	1475826	1475826	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaggctgacatcgtgcaCgccttcctgtcggtgaggcc	7	9	12	13	3	1	2	1	2	0	0	4	2	2	2	3	3	1	2	3	3	1	1	rs147039698	by1000genomes	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:1475826C>T	uc001lti.2	+	16	2042	c.1656C>T	c.(1654-1656)CAC>CAT	p.H552H	BRSK2_uc009ycv.1_Silent_p.H574H|BRSK2_uc001lth.1_Silent_p.H552H|BRSK2_uc001ltj.2_Silent_p.H552H|BRSK2_uc001ltk.2_RNA|BRSK2_uc001ltl.2_Silent_p.H552H|BRSK2_uc001ltm.2_Silent_p.H598H|BRSK2_uc001ltn.2_RNA|BRSK2_uc010qwx.1_RNA|BRSK2_uc009ycw.2_Silent_p.H48H	NM_003957	NP_003948	Q8IWQ3	BRSK2_HUMAN	BR serine/threonine kinase 2	552					establishment of cell polarity|neuron differentiation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)		ACATCGTGCACGCCTTCCTGT	0.612													15	28					0	0	1	0	0		T	1475826	T	T	1475826	2	4	66	1	0	0	0	0	0	0	0	1	1527	535	19	1		1	BRSK2	11	1475826	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	452219	1475826	133530690	837	44913											
RHOG	391	broad.mit.edu	37	chr11	3849264	3849264	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgtaattgtcgaacacGgtggggatgtactctttggg	7	12	15	7	3	1	0	0	0	1	0	2	2	1	1	0	4	2	3	0	4	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:3849264G>A	uc001lyu.2	-	2	263	c.105C>T	c.(103-105)ACC>ACT	p.T35T		NM_001665	NP_001656	P84095	RHOG_HUMAN	ras homolog gene family, member G precursor	35	Effector region (Potential).				actin cytoskeleton organization|activation of Rac GTPase activity|axon guidance|cell chemotaxis|platelet activation|positive regulation of cell proliferation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of transcription, DNA-dependent|Rac protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|protein binding				0		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0349)|LUSC - Lung squamous cell carcinoma(625;0.194)		TGTCGAACACGGTGGGGATGT	0.587													11	27					0	0	1	0	0		A	3849264	A	A	3849264	2	1	66	1	0	0	0	0	0	0	0	1	13364	1103	39	1		1	RHOG	11	3849264	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2373438	3849264	131157252	838	44914											
TRIM68	55128	broad.mit.edu	37	chr11	4621595	4621595	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaaaatagggcaggaggcGcccagggaagggatagcggg	13	3	18	7	2	0	0	0	0	0	0	0	3	0	3	1	6	1	1	1	6	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:4621595G>A	uc001lzf.1	-	7	1607	c.1369C>T	c.(1369-1371)CGC>TGC	p.R457C	TRIM68_uc001lzg.1_Missense_Mutation_p.R234C|TRIM68_uc010qyj.1_RNA	NM_018073	NP_060543	Q6AZZ1	TRI68_HUMAN	ring finger protein 137	457	B30.2/SPRY.				protein autoubiquitination|regulation of androgen receptor signaling pathway	Golgi apparatus|nucleolus|perinuclear region of cytoplasm	androgen receptor binding|histone acetyltransferase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;9.49e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		GGCAGGAGGCGCCCAGGGAAG	0.522													16	32					0	0	1	0	0		A	4621595	A	A	4621595	3	1	66	1	0	0	0	0	1	0	0	0	16567	1087	38	1	92	1	TRIM68	11	4621595	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	772331	4621595	130384921	839	44915											
OR51S1	119692	broad.mit.edu	37	chr11	4869948	4869948	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaatggcaggggcagaTggagacccaggcatcgaaaa	14	3	16	8	1	0	2	0	0	0	2	1	5	0	3	1	6	0	4	1	6	3	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:4869948T>C	uc010qyo.1	-	1	491	c.491A>G	c.(490-492)CAT>CGT	p.H164R		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	164	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		CAGGGGCAGATGGAGACCCAG	0.557													30	72					0	0	1	0	0		C	4869948	C	C	4869948	3	2	66	1	0	0	0	0	1	0	0	0	11124	1464	51	3	483	3	OR51S1	11	4869948	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	248353	4869948	130136568	840	44916											
OR51T1	401665	broad.mit.edu	37	chr11	4903424	4903424	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagatcagctttaaagctTgcttcattcaaatgttcttt	10	16	8	7	0	4	1	3	0	1	1	4	2	4	1	0	1	3	4	0	1	3	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:4903424T>G	uc010qyp.1	+	1	376	c.376T>G	c.(376-378)TGC>GGC	p.C126G		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	99	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTTTAAAGCTTGCTTCATTCA	0.507													29	57					0	0	1	0	0		G	4903424	G	G	4903424	3	3	66	1	0	0	0	0	1	0	0	0	11125	1812	63	5	378	5	OR51T1	11	4903424	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	33476	4903424	130103092	841	44917											
OR51M1	390059	broad.mit.edu	37	chr11	5411061	5411061	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccaccctctgaggtatTcggtcattatcactggccag	7	12	9	13	1	4	1	2	1	2	0	5	1	4	1	3	3	1	1	3	3	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:5411061T>A	uc010qzc.1	+	1	433	c.433T>A	c.(433-435)TCG>ACG	p.S145T	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004756	NP_001004756	B2RNI9	B2RNI9_HUMAN	olfactory receptor, family 51, subfamily M,	145						integral to membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.98e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCTGAGGTATTCGGTCATTAT	0.527													63	140					0	0	1	0	0		A	5411061	A	A	5411061	3	1	66	1	0	0	0	0	1	0	0	0	11122	1783	62	5	435	5	OR51M1	11	5411061	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	507637	5411061	129595455	842	44918											
UBQLNL	143630	broad.mit.edu	37	chr11	5537636	5537636	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgatggacatccactctgGgacatcctggatgttcgaga	9	10	11	11	1	1	2	0	1	1	1	4	6	3	5	3	3	0	1	3	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:5537636G>T	uc001maz.3	-	1	321	c.36C>A	c.(34-36)TCC>TCA	p.S12S	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	12										large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		ATCCACTCTGGGACATCCTGG	0.532													20	39					3.51602e-12	3.72036e-12	1	1	0		T	5537636	T	T	5537636	2	4	66	1	0	0	0	0	0	0	0	1	16926	1219	43	5		5	UBQLNL	11	5537636	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	126575	5537636	129468880	843	44919											
CNGA4	1262	broad.mit.edu	37	chr11	6265379	6265379	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcagctgagatcgccctgCaggaggccacagagtcccgg	9	4	15	13	2	0	2	0	1	0	2	2	4	1	3	3	4	2	3	3	4	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:6265379C>T	uc001mco.2	+	6	1575	c.1468C>T	c.(1468-1470)CAG>TAG	p.Q490*	CNGA4_uc010raa.1_3'UTR|CNGA4_uc001mcn.2_3'UTR	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	490	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GATCGCCCTGCAGGAGGCCAC	0.562													14	44					0	0	1	0	0		T	6265379	T	T	6265379	4	4	66	1	0	0	0	0	0	1	0	0	3602	711	25	2	1490	2	CNGA4	11	6265379	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	727743	6265379	128741137	844	44920											
TRIM3	10612	broad.mit.edu	37	chr11	6471805	6471805	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaatggttatggaagtcCgttactacaatttcattctt	11	16	7	7	1	2	1	1	1	1	0	3	2	3	2	1	2	2	2	1	2	6	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:6471805C>T	uc001mdh.2	-	11	2304	c.1917G>A	c.(1915-1917)ACG>ACA	p.T639T	TRIM3_uc001mdi.2_Silent_p.T639T|TRIM3_uc010raj.1_Silent_p.T520T|TRIM3_uc009yfd.2_Silent_p.T639T|TRIM3_uc010rak.1_Silent_p.T639T	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	639	NHL 4.				nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding			central_nervous_system(2)|large_intestine(1)|ovary(1)|skin(1)	5		all_lung(207;9.97e-06)|Lung NSC(207;1.74e-05)|Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;9.34e-10)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.133)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TATGGAAGTCCGTTACTACAA	0.478													15	44					0	0	1	0	0		T	6471805	T	T	6471805	2	4	66	1	0	0	0	0	0	0	0	1	16530	639	23	1		1	TRIM3	11	6471805	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	206426	6471805	128534711	845	44921											
OR5P3	120066	broad.mit.edu	37	chr11	7846993	7846993	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaatagtcacagaaaaagTgattgactttatttggccca	14	12	9	6	0	1	4	1	3	0	1	1	4	1	4	1	1	0	0	1	1	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:7846993T>C	uc010rbg.1	-	1	527	c.527A>G	c.(526-528)CAC>CGC	p.H176R		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	176	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ACAGAAAAAGTGATTGACTTT	0.408													31	65					0	0	1	0	0		C	7846993	C	C	7846993	3	2	66	1	0	0	0	0	1	0	0	0	11198	1696	59	3	411	3	OR5P3	11	7846993	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1375188	7846993	127159523	846	44922											
DENND5A	23258	broad.mit.edu	37	chr11	9167297	9167297	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcctgatatacagatccatgGgttggcagtgaacatggagc	11	10	12	8	0	0	3	0	2	0	1	2	4	2	4	2	3	3	2	2	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:9167297G>T	uc001mhl.2	-	17	3178	c.2923C>A	c.(2923-2925)CCA>ACA	p.P975T	DENND5A_uc001mhk.2_Missense_Mutation_p.P318T|DENND5A_uc010rbw.1_Missense_Mutation_p.P975T|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	975	PLAT.									liver(1)	1						CAGATCCATGGGTTGGCAGTG	0.483													101	200					4.09449e-47	4.46626e-47	1	1	0		T	9167297	T	T	9167297	3	4	66	1	0	0	0	0	1	0	0	0	4442	1232	43	5	968	5	DENND5A	11	9167297	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1320304	9167297	125839219	847	44923											
MRVI1	10335	broad.mit.edu	37	chr11	10615133	10615133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagcaacgctgaccctcCggcgaggcatattctgcagg	9	6	11	15	3	1	1	0	1	1	0	2	2	2	1	3	3	3	4	3	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:10615133C>T	uc010rcc.1	-	17	2467	c.2081G>A	c.(2080-2082)CGG>CAG	p.R694Q	uc001miu.2_Intron|MRVI1_uc001miw.2_Missense_Mutation_p.R685Q|MRVI1_uc010rcb.1_Missense_Mutation_p.R686Q|MRVI1_uc009ygb.1_Missense_Mutation_p.R379Q|MRVI1_uc001mix.2_Missense_Mutation_p.R379Q|MRVI1_uc001miz.2_Missense_Mutation_p.R603Q|MRVI1_uc009ygc.1_Missense_Mutation_p.R603Q|MRVI1_uc010rcd.1_Missense_Mutation_p.R488Q|MRVI1_uc009ygd.1_Missense_Mutation_p.R379Q|MRVI1_uc010rce.1_RNA	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	667					platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum				ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		GCTGACCCTCCGGCGAGGCAT	0.517													5	34					0	0	1	0	0		T	10615133	T	T	10615133	3	4	66	1	0	0	0	0	1	0	0	0	9871	652	23	1	677	1	MRVI1	11	10615133	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1447836	10615133	124391383	848	44924											
GALNTL4	374378	broad.mit.edu	37	chr11	11292743	11292743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctccagtgctggcccgagCacttctgcaacaccagctgg	7	8	11	15	1	1	0	0	0	1	0	2	1	2	0	3	2	6	5	3	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:11292743C>T	uc001mjo.2	-	11	2193	c.1772G>A	c.(1771-1773)TGC>TAC	p.C591Y		NM_198516	NP_940918	Q6P9A2	GLTL4_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	591	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)		CTGGCCCGAGCACTTCTGCAA	0.617													19	45					0	0	1	0	0		T	11292743	T	T	11292743	3	4	66	1	0	0	0	0	1	0	0	0	6238	710	25	2	55	2	GALNTL4	11	11292743	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	677610	11292743	123713773	849	44925											
USP47	55031	broad.mit.edu	37	chr11	11974417	11974417	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtggacgaattgcgagagaAggtaagttcattttaaacaa	15	11	11	4	2	1	1	1	0	0	1	1	5	1	2	0	2	2	2	0	2	6	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:11974417A>C	uc001mjs.2	+	25	4476	c.3713A>C	c.(3712-3714)AAG>ACG	p.K1238T	USP47_uc001mjr.2_Missense_Mutation_p.K1170T|USP47_uc009ygi.2_Missense_Mutation_p.K40T	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	1258					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		TTGCGAGAGAAGGTAAGTTCA	0.333													32	59					0	0	1	0	0		C	11974417	C	C	11974417	3	2	66	1	0	0	0	0	1	0	0	0	17104	86	3	5	3603	5	USP47	11	11974417	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	681674	11974417	123032099	850	44926											
MICAL2	9645	broad.mit.edu	37	chr11	12241975	12241975	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggcaggcgcaccagctgctCgtggcccttgtgggtgacag	5	7	16	13	3	0	1	0	1	0	0	1	1	0	1	2	4	2	4	2	4	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:12241975C>T	uc001mjz.2	+	9	1464	c.1176C>T	c.(1174-1176)CTC>CTT	p.L392L	MICAL2_uc010rch.1_Silent_p.L392L|MICAL2_uc001mka.2_Silent_p.L392L|MICAL2_uc010rci.1_Silent_p.L392L|MICAL2_uc001mkb.2_Silent_p.L392L|MICAL2_uc001mkc.2_Silent_p.L392L|MICAL2_uc001mkd.2_Silent_p.L221L|MICAL2_uc010rcj.1_5'Flank	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	392						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		ACCAGCTGCTCGTGGCCCTTG	0.597													4	37					0	0	1	0	0		T	12241975	T	T	12241975	2	4	66	1	0	0	0	0	0	0	0	1	9588	871	31	1		1	MICAL2	11	12241975	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	267558	12241975	122764541	851	44927											
ARNTL	406	broad.mit.edu	37	chr11	13399935	13399935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggattccagggggaacccGggctggggcaggaaaaatag	12	4	18	7	1	0	0	0	0	0	0	1	3	1	3	2	7	1	2	2	7	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:13399935G>A	uc001mkr.2	+	17	1874	c.1466G>A	c.(1465-1467)CGG>CAG	p.R489Q	ARNTL_uc001mko.2_Missense_Mutation_p.R445Q|ARNTL_uc001mkp.2_Missense_Mutation_p.R488Q|ARNTL_uc001mkq.2_Missense_Mutation_p.R488Q|ARNTL_uc001mks.2_Missense_Mutation_p.R446Q|ARNTL_uc001mkt.2_Missense_Mutation_p.R489Q|ARNTL_uc001mku.2_RNA|ARNTL_uc001mkw.2_Missense_Mutation_p.R446Q|ARNTL_uc001mkx.2_Missense_Mutation_p.R487Q|ARNTL_uc001mky.2_Missense_Mutation_p.R27Q	NM_001178	NP_001169	O00327	BMAL1_HUMAN	aryl hydrocarbon receptor nuclear	489					circadian rhythm|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	aryl hydrocarbon receptor binding|DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0				Epithelial(150;0.0243)		GGGGGAACCCGGGCTGGGGCA	0.473													5	13					0	0	1	0	0		A	13399935	A	A	13399935	3	1	66	1	0	0	0	0	1	0	0	0	968	1116	39	1	1528	1	ARNTL	11	13399935	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1157960	13399935	121606581	852	44928											
PDE3B	5140	broad.mit.edu	37	chr11	14808095	14808095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaagtcatttcctctctacGgagtattagtagcttaatgg	11	14	8	8	1	2	0	1	0	1	0	4	1	3	1	1	2	2	3	1	2	6	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:14808095G>A	uc001mln.2	+	3	1495	c.1142G>A	c.(1141-1143)CGG>CAG	p.R381Q	PDE3B_uc010rcr.1_Intron	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	381					cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						TCCTCTCTACGGAGTATTAGT	0.438													42	99					0	0	1	0	0		A	14808095	A	A	14808095	3	1	66	1	0	0	0	0	1	0	0	0	11657	1116	39	1	1152	1	PDE3B	11	14808095	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1408160	14808095	120198421	853	44929											
ABCC8	6833	broad.mit.edu	37	chr11	17428576	17428576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacgacaggagcaggatgccGgcggaggacaggtacttggc	11	4	17	9	3	0	0	0	0	0	0	0	5	0	4	1	7	4	2	1	7	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:17428576G>A	uc001mnc.2	-	25	3147	c.3021C>T	c.(3019-3021)GCC>GCT	p.A1007A		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1007	Helical; Name=12; (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	GCAGGATGCCGGCGGAGGACA	0.627													27	39					0	0	1	0	0		A	17428576	A	A	17428576	2	1	66	1	0	0	0	0	0	0	0	1	58	1103	39	1		1	ABCC8	11	17428576	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2620481	17428576	117577940	854	44930											
USH1C	10083	broad.mit.edu	37	chr11	17547960	17547960	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctccttgttttcccgatttCcaggggagcccaggctgcct	4	13	10	14	1	1	0	0	0	1	0	4	2	3	1	5	3	2	2	5	3	0	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:17547960C>A	uc001mnf.2	-	8	717	c.608G>T	c.(607-609)GGA>GTA	p.G203V	USH1C_uc001mne.2_Missense_Mutation_p.G203V|USH1C_uc009yhb.2_Missense_Mutation_p.G203V|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_Missense_Mutation_p.G167V	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	203					equilibrioception|G2/M transition of mitotic cell cycle|photoreceptor cell maintenance|sensory perception of sound	apical part of cell|cytoplasm|stereocilium	protein binding			ovary(1)	1						TTCCCGATTTCCAGGGGAGCC	0.597													4	16					0.00909568	0.00915269	1	1	0		A	17547960	A	A	17547960	3	1	66	1	0	0	0	0	1	0	0	0	17060	855	30	5	2249	5	USH1C	11	17547960	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	119384	17547960	117458556	855	44931											
USH1C	10083	broad.mit.edu	37	chr11	17547982	17547982	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggggagcccaggctgcctcGcacgccctgaaagagagata	11	4	14	12	2	0	3	0	1	0	2	1	5	0	4	3	3	2	2	3	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:17547982G>A	uc001mnf.2	-	8	695	c.586C>T	c.(586-588)CGA>TGA	p.R196*	USH1C_uc001mne.2_Nonsense_Mutation_p.R196*|USH1C_uc009yhb.2_Nonsense_Mutation_p.R196*|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_Nonsense_Mutation_p.R160*	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	196					equilibrioception|G2/M transition of mitotic cell cycle|photoreceptor cell maintenance|sensory perception of sound	apical part of cell|cytoplasm|stereocilium	protein binding			ovary(1)	1						AGGCTGCCTCGCACGCCCTGA	0.597													4	16					0	0	1	0	0		A	17547982	A	A	17547982	4	1	66	1	0	0	0	0	0	1	0	0	17060	1095	38	1	2271	1	USH1C	11	17547982	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	22	17547982	117458534	856	44932											
SPTY2D1	144108	broad.mit.edu	37	chr11	18636421	18636421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtggactgctcacaggcCggccagggccacgagagctg	8	5	15	13	2	1	1	1	0	0	1	1	3	1	2	3	4	2	2	3	4	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:18636421C>T	uc001moy.2	-	3	1616	c.1400G>A	c.(1399-1401)CGG>CAG	p.R467Q	SPTY2D1_uc010rdi.1_Missense_Mutation_p.R467Q	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	467	Ser-rich.									breast(1)	1						GCTCACAGGCCGGCCAGGGCC	0.627													25	51					0	0	1	0	0		T	18636421	T	T	18636421	3	4	66	1	0	0	0	0	1	0	0	0	15151	652	23	1	673	1	SPTY2D1	11	18636421	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1088439	18636421	116370095	857	44933											
DBX1	120237	broad.mit.edu	37	chr11	20177966	20177966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgggccctcctcctcctcttCgttcccagggcccttctggc	1	11	9	20	2	2	0	0	0	2	0	7	0	6	0	6	3	0	1	6	3	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:20177966C>T	uc001mpw.1	-	4	943	c.943G>A	c.(943-945)GAA>AAA	p.E315K		NM_001029865	NP_001025036	A6NMT0	DBX1_HUMAN	developing brain homeobox 1	276	Poly-Glu.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TCCTCCTCTTCGTTCCCAGGG	0.726													6	15					0	0	1	0	0		T	20177966	T	T	20177966	3	4	66	1	0	0	0	0	1	0	0	0	4262	893	31	1	209	1	DBX1	11	20177966	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1541545	20177966	114828550	858	44934											
DBX1	120237	broad.mit.edu	37	chr11	20178193	20178193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgggggacgcacgggggCggggagtggagtcgggtgca	5	4	23	9	5	0	0	0	0	0	0	2	3	1	3	1	8	1	2	1	8	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:20178193C>T	uc001mpw.1	-	4	716	c.716G>A	c.(715-717)CGC>CAC	p.R239H		NM_001029865	NP_001025036	A6NMT0	DBX1_HUMAN	developing brain homeobox 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CGCACGGGGGCGGGGAGTGGA	0.652													19	25					0	0	1	0	0		T	20178193	T	T	20178193	3	4	66	1	0	0	0	0	1	0	0	0	4262	768	27	1	436	1	DBX1	11	20178193	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	227	20178193	114828323	859	44935											
PAX6	5080	broad.mit.edu	37	chr11	31824265	31824265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggatcacctgcagaattcggGaaatgtcgcacggccgggcc	9	6	14	12	4	1	1	1	0	0	1	3	3	1	3	3	4	1	2	3	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:31824265G>A	uc001mtd.3	-	4	1018	c.128C>T	c.(127-129)TCC>TTC	p.S43F	PAX6_uc001mte.3_Missense_Mutation_p.S43F|PAX6_uc001mtg.3_Missense_Mutation_p.S43F|PAX6_uc001mtf.3_Missense_Mutation_p.S43F|PAX6_uc001mth.3_Missense_Mutation_p.S43F|PAX6_uc009yjr.2_Missense_Mutation_p.S43F	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	43	Paired.		S -> P (in AN).		blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					CAGAATTCGGGAAATGTCGCA	0.637									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				7	8					0	0	1	0	0		A	31824265	A	A	31824265	3	1	66	1	0	0	0	0	1	0	0	0	11502	1174	41	4	1222	4	PAX6	11	31824265	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	11646072	31824265	103182251	860	44936											
RCN1	5954	broad.mit.edu	37	chr11	32119957	32119957	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaaaaagatgctgccacgTgatgagagaagattcaaagc	16	9	10	6	1	1	5	1	2	0	3	1	6	1	5	1	0	3	1	1	0	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:32119957T>C	uc010reb.1	+	3	776	c.510T>C	c.(508-510)CGT>CGC	p.R170R	RCN1_uc010rea.1_Silent_p.R119R|RCN1_uc001mtk.2_Silent_p.R4R	NM_002901	NP_002892	Q15293	RCN1_HUMAN	reticulocalbin 1 precursor	170	EF-hand 3.					endoplasmic reticulum lumen	calcium ion binding			large_intestine(1)	1	Lung SC(675;0.225)					TGCTGCCACGTGATGAGAGAA	0.443													22	37					0	0	1	0	0		C	32119957	C	C	32119957	2	2	66	1	0	0	0	0	0	0	0	1	13204	1683	59	3		3	RCN1	11	32119957	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	295692	32119957	102886559	861	44937											
CSTF3	1479	broad.mit.edu	37	chr11	33129474	33129474	+	Frame_Shift_Del	DEL	T	-	-																															acttggtagtttacccttggTttctcggacatatgaaagat																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:33129474delT	uc001muh.2	-	5	497	c.331delA	c.(331-333)ACCfs	p.T111fs		NM_001326	NP_001317	Q12996	CSTF3_HUMAN	cleavage stimulation factor subunit 3 isoform 1	111					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding				0						TTACCCTTGGTTTCTCGGACA	0.358													23	37	---	---	---	---						.	-	33129474	-	-	33129474	7	5	66	1	0	1	0	1	0	0	0	0	3989	1725	60	0	1890	0	CSTF3	11	33129474	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	1009517	33129474	101877042	862	44938											
HIPK3	10114	broad.mit.edu	37	chr11	33350149	33350149	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaattatttcttggatggccGctctacccaggagccttgga	8	12	11	10	1	2	0	0	0	2	0	2	4	2	3	3	4	2	1	3	4	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:33350149G>A	uc001mul.1	+	3	1461	c.1191G>A	c.(1189-1191)CCG>CCA	p.P397P	HIPK3_uc001mum.1_Silent_p.P397P|HIPK3_uc009yjv.1_Silent_p.P397P|HIPK3_uc009yjw.1_RNA	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	397	Protein kinase.				anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						TTGGATGGCCGCTCTACCCAG	0.378													24	56					0	0	1	0	0		A	33350149	A	A	33350149	2	1	66	1	0	0	0	0	0	0	0	1	7134	1074	38	1		1	HIPK3	11	33350149	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	220675	33350149	101656367	863	44939											
TRAF6	7189	broad.mit.edu	37	chr11	36511764	36511764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcacagcgctgagcagtcGgtaactgaaggtgcaagcgc	10	7	14	10	3	0	2	0	2	0	0	1	2	0	2	0	2	6	5	0	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:36511764G>A	uc001mwr.1	-	8	1533	c.1193C>T	c.(1192-1194)CCG>CTG	p.P398L	uc001mwq.1_5'Flank|TRAF6_uc001mws.1_Missense_Mutation_p.P398L	NM_145803	NP_665802	Q9Y4K3	TRAF6_HUMAN	TNF receptor-associated factor 6	398	MATH.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|ossification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell cytokine production|protein autoubiquitination|protein K63-linked ubiquitination|response to interleukin-1|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cell cortex|cytosol|endosome membrane|internal side of plasma membrane|nuclear membrane	histone deacetylase binding|mitogen-activated protein kinase kinase kinase binding|protein kinase B binding|protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				CTGAGCAGTCGGTAACTGAAG	0.488													27	66					0	0	1	0	0		A	36511764	A	A	36511764	3	1	66	1	0	0	0	0	1	0	0	0	16471	1116	39	1	379	1	TRAF6	11	36511764	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3161615	36511764	98494752	864	44940											
RAG1	5896	broad.mit.edu	37	chr11	36597479	36597479	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgtgagttaattccttcCgaggagaggcacgaggctct	8	12	13	8	2	1	2	0	1	1	1	3	5	3	2	2	3	0	4	2	3	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:36597479C>T	uc001mwu.3	+	2	2749	c.2625C>T	c.(2623-2625)TCC>TCT	p.S875S	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	875					histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				TAATTCCTTCCGAGGAGAGGC	0.483									Familial_Hemophagocytic_Lymphohistiocytosis				26	63					0	0	1	0	0		T	36597479	T	T	36597479	2	4	66	1	0	0	0	0	0	0	0	1	13028	639	23	1		1	RAG1	11	36597479	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	85715	36597479	98409037	865	44941											
KBTBD4	55709	broad.mit.edu	37	chr11	47594872	47594872	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttggtaaagaagtccagAtcattctcctccccccctag	9	11	8	13	0	2	2	1	0	1	2	5	2	4	2	5	2	0	2	5	2	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:47594872A>G	uc001nfx.2	-	4	1338	c.1167T>C	c.(1165-1167)GAT>GAC	p.D389D	PTPMT1_uc001nfs.3_3'UTR|PTPMT1_uc001nfv.3_3'UTR|PTPMT1_uc009ylt.2_3'UTR|PTPMT1_uc001nfu.3_3'UTR|NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_Silent_p.D414D|KBTBD4_uc001nfz.2_Silent_p.D405D|KBTBD4_uc001nfy.2_Silent_p.D389D	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4	389	Kelch 4.									ovary(1)|central_nervous_system(1)	2						AGAAGTCCAGATCATTCTCCT	0.532													39	99					0	0	1	0	0		G	47594872	G	G	47594872	2	3	66	1	0	0	0	0	0	0	0	1	8011	330	12	3		3	KBTBD4	11	47594872	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	10997393	47594872	87411644	866	44942											
NDUFS3	4722	broad.mit.edu	37	chr11	47600835	47600835	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagggactgggcgacccTccgttctgttgctgccggtg	3	10	16	12	3	1	0	0	0	1	0	2	2	2	1	3	3	3	4	3	3	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:47600835T>C	uc001nga.2	+	2	164	c.82T>C	c.(82-84)TCC>CCC	p.S28P	NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_5'Flank|KBTBD4_uc001nfx.2_5'Flank|KBTBD4_uc001nfz.2_5'Flank|KBTBD4_uc001nfy.2_5'Flank|NDUFS3_uc010rhn.1_Missense_Mutation_p.S28P	NM_004551	NP_004542	O75489	NDUS3_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 3	28					induction of apoptosis|mitochondrial electron transport, NADH to ubiquinone|negative regulation of cell growth|reactive oxygen species metabolic process|transport	mitochondrial respiratory chain complex I	electron carrier activity|NADH dehydrogenase (ubiquinone) activity|protein binding				0					NADH(DB00157)	TGGGCGACCCTCCGTTCTGTT	0.692													19	60					0	0	1	0	0		C	47600835	C	C	47600835	3	2	66	1	0	0	0	0	1	0	0	0	10312	1551	54	3	88	3	NDUFS3	11	47600835	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	5963	47600835	87405681	867	44943											
NUP160	23279	broad.mit.edu	37	chr11	47825038	47825038	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttcccagcataaatcgAcaggaaccaacattgacttg	14	8	6	13	1	0	1	0	1	0	0	2	3	1	2	3	1	3	1	3	1	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:47825038A>T	uc001ngm.2	-	22	2812	c.2727T>A	c.(2725-2727)TGT>TGA	p.C909*	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	909					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						GCATAAATCGACAGGAACCAA	0.358													22	69					0	0	1	0	0		T	47825038	T	T	47825038	4	4	66	1	0	0	0	0	0	1	0	0	10776	273	10	5	1643	5	NUP160	11	47825038	Nonsense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	224203	47825038	87181478	868	44944											
NUP160	23279	broad.mit.edu	37	chr11	47837094	47837094	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agggcaagagggtgagagagGgcttcttgatactgaagaca	13	7	16	5	0	1	6	0	3	1	3	1	7	1	6	0	3	1	2	0	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:47837094G>A	uc001ngm.2	-	13	1708	c.1623C>T	c.(1621-1623)GCC>GCT	p.A541A	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	541					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						GGTGAGAGAGGGCTTCTTGAT	0.423													30	80					0	0	1	0	0		A	47837094	A	A	47837094	2	1	66	1	0	0	0	0	0	0	0	1	10776	1219	43	4		4	NUP160	11	47837094	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	12056	47837094	87169422	869	44945											
RTN4RL2	349667	broad.mit.edu	37	chr11	57235092	57235092	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccccacagctcccgcctcGgcctgcctcctgctgatgct	3	9	8	21	2	0	1	0	1	0	0	4	1	3	1	7	1	4	3	7	1	0	0	rs143661405	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:57235092G>A	uc010rjt.1	+	2	42	c.42G>A	c.(40-42)TCG>TCA	p.S14S		NM_178570	NP_848665	Q86UN3	R4RL2_HUMAN	reticulon 4 receptor-like 2 precursor	14					axon regeneration	anchored to plasma membrane	receptor activity				0						CTCCCGCCTCGGCCTGCCTCC	0.682													33	65					0	0	1	0	0		A	57235092	A	A	57235092	2	1	66	1	0	0	0	0	0	0	0	1	13757	1103	39	1		1	RTN4RL2	11	57235092	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	9397998	57235092	77771424	870	44946											
TMX2	51075	broad.mit.edu	37	chr11	57480227	57480227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaaactgccgccgctctGccacggtctgcccacccaac	8	5	10	18	3	2	0	0	0	2	0	2	2	2	1	5	2	5	1	5	2	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:57480227G>A	uc001nlc.1	+	1	186	c.137G>A	c.(136-138)TGC>TAC	p.C46Y	CTNND1_uc001nlf.1_5'UTR|MED19_uc001nla.1_5'Flank|MED19_uc001nlb.2_5'Flank|TMX2_uc001nld.1_5'UTR|TMX2_uc001nle.1_Missense_Mutation_p.C46Y	NM_015959	NP_057043	Q9Y320	TMX2_HUMAN	thioredoxin domain containing 14 isoform 1	46					cell redox homeostasis	integral to membrane					0						CCGCCGCTCTGCCACGGTCTG	0.627													12	23					0	0	1	0	0		A	57480227	A	A	57480227	3	1	66	1	0	0	0	0	1	0	0	0	16292	1319	46	2	139	2	TMX2	11	57480227	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	245135	57480227	77526289	871	44947											
OR9Q2	219957	broad.mit.edu	37	chr11	57958429	57958429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgttgctggttttttcagtgCctttgttcgaacggtcacag	5	16	11	9	3	2	0	2	0	0	0	3	1	2	0	1	2	3	4	1	2	1	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:57958429C>T	uc010rka.1	+	1	467	c.467C>T	c.(466-468)GCC>GTC	p.A156V		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				TTTTTCAGTGCCTTTGTTCGA	0.502													15	45					0	0	1	0	0		T	57958429	T	T	57958429	3	4	66	1	0	0	0	0	1	0	0	0	11275	739	26	2	469	2	OR9Q2	11	57958429	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	478202	57958429	77048087	872	44948											
OR1S1	219959	broad.mit.edu	37	chr11	57983091	57983091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattggtgctgtcctattcaCtgtggtgacacccatgataa	9	13	10	9	0	1	2	1	2	0	0	2	3	2	2	2	2	1	1	2	2	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:57983091C>T	uc010rkc.1	+	1	875	c.875C>T	c.(874-876)ACT>ATT	p.T292I		NM_001004458	NP_001004458	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S,	292	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Breast(21;0.0589)				GTCCTATTCACTGTGGTGACA	0.438													45	107					0	0	1	0	0		T	57983091	T	T	57983091	3	4	66	1	0	0	0	0	1	0	0	0	10991	565	20	4	877	4	OR1S1	11	57983091	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	24662	57983091	77023425	873	44949											
OR5B17	219965	broad.mit.edu	37	chr11	58126075	58126075	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cgaaatgtatctccaatttgGatagaagcattcagaaaacc	16	10	7	8	1	2	2	1	0	1	2	3	4	2	3	2	1	2	2	2	1	7	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:58126075G>C	uc010rke.1	-	1	468	c.468C>G	c.(466-468)ATC>ATG	p.I156M		NM_001005489	NP_001005489	Q8NGF7	OR5BH_HUMAN	olfactory receptor, family 5, subfamily B,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CTCCAATTTGGATAGAAGCAT	0.433													26	39					0	0	1	0	0		C	58126075	C	C	58126075	3	2	66	1	0	0	0	0	1	0	0	0	11168	1164	41	5	478	5	OR5B17	11	58126075	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	142984	58126075	76880441	874	44950											
OSBP	5007	broad.mit.edu	37	chr11	59376060	59376061	+	Frame_Shift_Del	DEL	CT	-	-																															acttcagggactccagctcaCtgagagaacgctgcagagct																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:59376060_59376061delCT	uc001noc.1	-	3	1198_1199	c.718_719delAG	c.(718-720)AGTfs	p.S240fs		NM_002556	NP_002547	P22059	OSBP1_HUMAN	oxysterol binding protein	240					lipid transport	Golgi membrane	oxysterol binding			large_intestine(1)	1		all_epithelial(135;0.000236)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		CTCCAGCTCACTGAGAGAACGC	0.495													41	94	---	---	---	---						.	-	59376061	-	-	59376060	7	5	66	1	0	1	0	1	0	0	0	0	11292	565	20	0	1752	0	OSBP	11	59376060	Frame_Shift_Del	DEL	CT	TCGA-BR-8361-01A-11D-2340-08	1249985	59376060	75630456	875	44951											
MS4A14	84689	broad.mit.edu	37	chr11	60183281	60183281	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaaagatgaagatctacaAtctgctattgtacaaccttc	15	12	6	8	0	2	4	0	2	2	2	3	4	2	4	1	0	4	2	1	0	7	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:60183281A>G	uc001npj.2	+	5	1405	c.840A>G	c.(838-840)CAA>CAG	p.Q280Q	MS4A14_uc001npi.2_Silent_p.Q168Q|MS4A14_uc001npn.2_Silent_p.Q18Q|MS4A14_uc001npk.2_Silent_p.Q263Q|MS4A14_uc001npl.2_Silent_p.Q18Q|MS4A14_uc001npm.2_Silent_p.Q18Q	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	280						integral to membrane	receptor activity			breast(1)	1						AAGATCTACAATCTGCTATTG	0.403													18	49					0	0	1	0	0		G	60183281	G	G	60183281	2	3	66	1	0	0	0	0	0	0	0	1	9876	98	4	3		3	MS4A14	11	60183281	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	807221	60183281	74823235	876	44952											
MS4A12	54860	broad.mit.edu	37	chr11	60269505	60269505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcatccaaggagctttcccGttgtctggtaagttagactg	9	12	11	9	1	1	1	0	0	1	1	3	2	3	2	2	2	2	5	2	2	3	4	rs111546873		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:60269505G>A	uc001npr.2	+	4	521	c.464G>A	c.(463-465)CGT>CAT	p.R155H		NM_017716	NP_060186	Q9NXJ0	M4A12_HUMAN	membrane-spanning 4-domains, subfamily A, member	155	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						GAGCTTTCCCGTTGTCTGGTA	0.393													54	138					0	0	1	0	0		A	60269505	A	A	60269505	3	1	66	1	0	0	0	0	1	0	0	0	9874	1145	40	1	474	1	MS4A12	11	60269505	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	86224	60269505	74737011	877	44953											
ZP1	22917	broad.mit.edu	37	chr11	60640928	60640928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagtccatgtggaggtcCggcttctgcagaggacagac	10	7	13	11	1	1	2	0	0	1	2	3	4	3	4	3	4	2	2	3	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:60640928C>T	uc001nqd.2	+	8	1341	c.1321C>T	c.(1321-1323)CGG>TGG	p.R441W	ZP1_uc001nqe.2_Missense_Mutation_p.R148W	NM_207341	NP_997224	P60852	ZP1_HUMAN	zona pellucida glycoprotein 1 precursor	441	Extracellular (Potential).|ZP.				single fertilization	integral to membrane|plasma membrane|proteinaceous extracellular matrix					0						TGTGGAGGTCCGGCTTCTGCA	0.617													13	41					0	0	1	0	0		T	60640928	T	T	60640928	3	4	66	1	0	0	0	0	1	0	0	0	18240	643	23	1	1351	1	ZP1	11	60640928	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	371423	60640928	74365588	878	44954											
ZP1	22917	broad.mit.edu	37	chr11	60642610	60642610	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctgggcaggacagcgaCgatcctcaggtcaccgtaat	9	7	11	14	3	2	0	2	0	0	0	4	3	4	1	4	3	1	2	4	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:60642610C>T	uc001nqd.2	+	11	1683	c.1663C>T	c.(1663-1665)CGA>TGA	p.R555*	ZP1_uc001nqe.2_Nonsense_Mutation_p.R262*	NM_207341	NP_997224	P60852	ZP1_HUMAN	zona pellucida glycoprotein 1 precursor	555	Extracellular (Potential).				single fertilization	integral to membrane|plasma membrane|proteinaceous extracellular matrix					0						AGGACAGCGACGATCCTCAGG	0.582													15	40					0	0	1	0	0		T	60642610	T	T	60642610	4	4	66	1	0	0	0	0	0	1	0	0	18240	528	19	1	1705	1	ZP1	11	60642610	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1682	60642610	74363906	879	44955											
TMEM109	79073	broad.mit.edu	37	chr11	60689491	60689491	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggccttgctgatcctcTacgccctgctgagccggctc	3	11	10	17	2	1	2	0	2	1	0	4	2	3	2	5	2	4	3	5	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:60689491T>C	uc001nqg.2	+	4	964	c.586T>C	c.(586-588)TAC>CAC	p.Y196H	TMEM109_uc001nqh.2_Missense_Mutation_p.Y196H|TMEM132A_uc001nqi.2_5'Flank|TMEM132A_uc001nqj.2_5'Flank	NM_024092	NP_076997	Q9BVC6	TM109_HUMAN	transmembrane protein 109 precursor	196	Helical; (Potential).					integral to membrane|nuclear outer membrane|sarcoplasmic reticulum membrane					0						GCTGATCCTCTACGCCCTGCT	0.677													19	34					0	0	1	0	0		C	60689491	C	C	60689491	3	2	66	1	0	0	0	0	1	0	0	0	16050	1522	53	3	596	3	TMEM109	11	60689491	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	46881	60689491	74317025	880	44956											
TMEM132A	54972	broad.mit.edu	37	chr11	60703652	60703652	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcccatccagccctgcttGgagcccaccagccacagaag	9	6	8	18	0	1	1	0	0	1	1	3	2	2	2	6	1	4	1	6	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:60703652G>A	uc001nqj.2	+	11	2538	c.2345G>A	c.(2344-2346)TGG>TAG	p.W782*	TMEM132A_uc001nqi.2_Nonsense_Mutation_p.W783*|TMEM132A_uc001nqm.2_5'UTR	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	782	Binds to HSPA5/GRP78 (By similarity).|Confers cellular localization similar to full-length form (By similarity).|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						AGCCCTGCTTGGAGCCCACCA	0.697													11	22					0	0	1	0	0		A	60703652	A	A	60703652	4	1	66	1	0	0	0	0	0	1	0	0	16070	1357	47	4	2390	4	TMEM132A	11	60703652	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	14161	60703652	74302864	881	44957											
TMEM132A	54972	broad.mit.edu	37	chr11	60703726	60703726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcgggggcaacacaggtGtgaggggcaagtttgagcgg	8	7	20	6	2	0	2	0	2	0	0	1	2	0	2	0	6	2	3	0	6	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:60703726G>A	uc001nqj.2	+	11	2612	c.2419G>A	c.(2419-2421)GTG>ATG	p.V807M	TMEM132A_uc001nqi.2_Missense_Mutation_p.V808M|TMEM132A_uc001nqm.2_Missense_Mutation_p.V17M	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	807	Binds to HSPA5/GRP78 (By similarity).|Confers cellular localization similar to full-length form (By similarity).|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						CAACACAGGTGTGAGGGGCAA	0.562													20	36					0	0	1	0	0		A	60703726	A	A	60703726	3	1	66	1	0	0	0	0	1	0	0	0	16070	1377	48	4	2464	4	TMEM132A	11	60703726	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	74	60703726	74302790	882	44958											
DAK	26007	broad.mit.edu	37	chr11	61113877	61113877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagctggagccggaagaGccagttatatcagctcagca	12	7	13	9	1	2	1	2	0	0	1	2	4	2	4	2	3	5	4	2	3	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:61113877G>A	uc001nre.2	+	18	1887	c.1630G>A	c.(1630-1632)GCC>ACC	p.A544T	DAK_uc009ynm.1_3'UTR	NM_015533	NP_056348	Q3LXA3	DHAK_HUMAN	dihydroxyacetone kinase 2	544	DhaL.				glycerol metabolic process	cytosol	ATP binding|FAD-AMP lyase (cyclizing) activity|glycerone kinase activity|metal ion binding				0						AGCCGGAAGAGCCAGTTATAT	0.637													32	141					0	0	1	0	0		A	61113877	A	A	61113877	3	1	66	1	0	0	0	0	1	0	0	0	4231	971	34	2	1696	2	DAK	11	61113877	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	410151	61113877	73892639	883	44959											
DAGLA	747	broad.mit.edu	37	chr11	61495668	61495668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctctttgcggagttcttccGggaccttgacattgtgccat	5	14	10	12	2	2	1	0	1	2	0	3	3	3	3	4	2	2	1	4	2	0	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:61495668G>A	uc001nsa.2	+	7	791	c.680G>A	c.(679-681)CGG>CAG	p.R227Q		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	227	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		GAGTTCTTCCGGGACCTTGAC	0.627													9	87					0	0	1	0	0		A	61495668	A	A	61495668	3	1	66	1	0	0	0	0	1	0	0	0	4229	1116	39	1	702	1	DAGLA	11	61495668	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	381791	61495668	73510848	884	44960											
EEF1G	1937	broad.mit.edu	37	chr11	62338497	62338497	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccaatgtcactcgttcGcccaccagaaaagtcctcgt	10	9	7	15	3	2	1	2	0	0	1	6	1	3	1	4	0	1	1	4	0	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:62338497G>A	uc001ntm.1	-	5	608	c.462C>T	c.(460-462)GGC>GGT	p.G154G	EEF1G_uc010rlw.1_Silent_p.G204G|EEF1G_uc001ntn.1_Silent_p.G34G	NM_001404	NP_001395	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1	154	GST C-terminal.				response to virus	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						TCACTCGTTCGCCCACCAGAA	0.488													32	109					0	0	1	0	0		A	62338497	A	A	62338497	2	1	66	1	0	0	0	0	0	0	0	1	4934	1074	38	1		1	EEF1G	11	62338497	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	842829	62338497	72668019	885	44961											
SLC22A10	387775	broad.mit.edu	37	chr11	63070011	63070012	+	Frame_Shift_Ins	INS	-	A	A																															tggccaacacgtttgtgcccINSaaaggtgagagaagactgga																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:63070011_63070012insA	uc009yor.2	+	7	1489_1490	c.1281_1282insA	c.(1279-1284)CCCAAAfs	p.P427fs	SLC22A10_uc010rmo.1_Intron|SLC22A10_uc001nwu.3_Intron|SLC22A10_uc010rmp.1_Intron	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	427_428	Cytoplasmic (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						CGTTTGTGCCCAAAGGTGAGAG	0.436													23	41	---	---	---	---						.	A	63070012	A	A	63070011	7	5	66	1	0	1	1	0	0	0	0	0	14466	581	21	0	1307	0	SLC22A10	11	63070011	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	731514	63070011	71936505	886	44962											
PLCB3	5331	broad.mit.edu	37	chr11	64029923	64029923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtttttgagtacaacgggCgcagcgggtacctgctcaag	8	9	14	10	4	1	1	1	1	0	0	1	1	1	1	1	2	5	5	1	2	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:64029923C>T	uc001nzb.2	+	18	2083	c.2083C>T	c.(2083-2085)CGC>TGC	p.R695C	PLCB3_uc009ypg.1_Missense_Mutation_p.R695C|PLCB3_uc009yph.1_Missense_Mutation_p.R628C|PLCB3_uc009ypi.2_Missense_Mutation_p.R695C	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	695	PI-PLC Y-box.				intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						GTACAACGGGCGCAGCGGGTA	0.637													40	65					0	0	1	0	0		T	64029923	T	T	64029923	3	4	66	1	0	0	0	0	1	0	0	0	12048	768	27	1	2153	1	PLCB3	11	64029923	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	959912	64029923	70976593	887	44963											
ATG2A	23130	broad.mit.edu	37	chr11	64675064	64675064	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaggggccggggaagccCgagggctgggcggcggggtc	4	3	23	11	4	0	1	0	1	0	0	1	3	0	2	3	9	1	1	3	9	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:64675064C>T	uc001obx.2	-	18	2695	c.2580G>A	c.(2578-2580)TCG>TCA	p.S860S		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	860							protein binding			ovary(1)|central_nervous_system(1)	2						CGGGGAAGCCCGAGGGCTGGG	0.617													5	8					0	0	1	0	0		T	64675064	T	T	64675064	2	4	66	1	0	0	0	0	0	0	0	1	1094	639	23	1		1	ATG2A	11	64675064	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	645141	64675064	70331452	888	44964											
C11orf2	738	broad.mit.edu	37	chr11	64875686	64875686	+	Frame_Shift_Del	DEL	C	-	-																															cagggagggcggctcaggcgCcccggagcaggcagagtgcg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:64875686delC	uc001ocr.1	+	5	783	c.743delC	c.(742-744)GCCfs	p.A248fs	C11orf2_uc001ocs.1_Frame_Shift_Del_p.A124fs	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	248					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						GGCTCAGGCGCCCCGGAGCAG	0.721													2	4	---	---	---	---						.	-	64875686	-	-	64875686	7	5	66	1	0	1	0	1	0	0	0	0	1636	739	26	0	761	0	C11orf2	11	64875686	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	200622	64875686	70130830	889	44965											
MAP3K11	4296	broad.mit.edu	37	chr11	65380977	65380977	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacccacctggcccgccCaccagccctcgtctcctgag	5	5	9	22	2	1	1	0	1	1	0	3	1	1	1	8	2	1	0	8	2	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:65380977C>A	uc001oew.2	-	1	744	c.251G>T	c.(250-252)TGG>TTG	p.W84L	MAP3K11_uc010rol.1_5'Flank|PCNXL3_uc001oey.2_5'Flank	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	84	SH3.|Gly-rich.				activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						CTGGCCCGCCCACCAGCCCTC	0.692													5	22					3.59834e-05	3.66686e-05	1	1	0		A	65380977	A	A	65380977	3	1	66	1	0	0	0	0	1	0	0	0	9263	595	21	5	2332	5	MAP3K11	11	65380977	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	505291	65380977	69625539	890	44966											
EFEMP2	30008	broad.mit.edu	37	chr11	65637409	65637409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccataggagttgaagcagcGctgctcgcatggggccccca	8	6	13	14	2	0	1	0	1	0	0	1	2	0	2	3	3	3	5	3	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:65637409G>A	uc001ofy.3	-	7	840	c.646C>T	c.(646-648)CGC>TGC	p.R216C	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Missense_Mutation_p.R216C	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	216	EGF-like 4; calcium-binding (Potential).				blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		TTGAAGCAGCGCTGCTCGCAT	0.607													33	65					0	0	1	0	0		A	65637409	A	A	65637409	3	1	66	1	0	0	0	0	1	0	0	0	4948	1087	38	1	705	1	EFEMP2	11	65637409	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	256432	65637409	69369107	891	44967											
EFEMP2	30008	broad.mit.edu	37	chr11	65638097	65638097	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtcctggctggggcgacAgtcgtgcagggcctgggcac	5	6	18	12	2	0	0	0	0	0	0	2	1	1	0	2	5	1	4	2	5	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:65638097A>G	uc001ofy.3	-	5	594	c.400T>C	c.(400-402)TGT>CGT	p.C134R	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Missense_Mutation_p.C134R	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	134	EGF-like 2; calcium-binding (Potential).				blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		CTGGGGCGACAGTCGTGCAGG	0.612													5	12					0	0	1	0	0		G	65638097	G	G	65638097	3	3	66	1	0	0	0	0	1	0	0	0	4948	188	7	3	959	3	EFEMP2	11	65638097	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	688	65638097	69368419	892	44968											
FIBP	9158	broad.mit.edu	37	chr11	65653050	65653051	+	Frame_Shift_Del	DEL	AA	-	-																															atgagctcagcgcagaaggcAaagtcaccgaagctcagata																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:65653050_65653051delAA	uc001ogd.2	-	5	717_718	c.596_597delTT	c.(595-597)TTTfs	p.F199fs	FIBP_uc009yqu.2_Frame_Shift_Del_p.F196fs|FIBP_uc001oge.2_Frame_Shift_Del_p.F199fs	NM_198897	NP_942600	O43427	FIBP_HUMAN	FGF intracellular binding protein isoform a	199					fibroblast growth factor receptor signaling pathway	endomembrane system|membrane|microsome|mitochondrion|nucleus	fibroblast growth factor binding			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.166)		CGCAGAAGGCAAAGTCACCGAA	0.564											OREG0021089	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	53	81	---	---	---	---						.	-	65653051	-	-	65653050	7	5	66	1	0	1	0	1	0	0	0	0	5900	127	5	0	521	0	FIBP	11	65653050	Frame_Shift_Del	DEL	AA	TCGA-BR-8361-01A-11D-2340-08	14953	65653050	69353466	893	44969											
GAL3ST3	89792	broad.mit.edu	37	chr11	65810490	65810490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgagcttggcgtagagcaCgtcgtccaggtcccaggcca	7	8	14	12	3	0	2	0	1	0	1	3	2	2	2	3	3	2	4	3	3	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:65810490C>T	uc001ogv.2	-	2	944	c.784G>A	c.(784-786)GTG>ATG	p.V262M	GAL3ST3_uc001ogw.2_Missense_Mutation_p.V262M	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	262	Lumenal (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						GCGTAGAGCACGTCGTCCAGG	0.582													7	12					0	0	1	0	0		T	65810490	T	T	65810490	3	4	66	1	0	0	0	0	1	0	0	0	6214	536	19	1	515	1	GAL3ST3	11	65810490	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	157440	65810490	69196026	894	44970											
NPAS4	266743	broad.mit.edu	37	chr11	66192084	66192084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttttctctatgagaagttgCccccaagtcctagcagccct	8	12	8	13	0	1	1	0	1	1	1	3	2	2	1	4	0	3	3	4	0	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:66192084C>T	uc001ohx.1	+	7	1899	c.1723C>T	c.(1723-1725)CCC>TCC	p.P575S	NPAS4_uc010rpc.1_Missense_Mutation_p.P365S	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	575					transcription, DNA-dependent		DNA binding|signal transducer activity				0						TGAGAAGTTGCCCCCAAGTCC	0.612													34	157					0	0	1	0	0		T	66192084	T	T	66192084	3	4	66	1	0	0	0	0	1	0	0	0	10584	739	26	2	1749	2	NPAS4	11	66192084	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	381594	66192084	68814432	895	44971											
DPP3	10072	broad.mit.edu	37	chr11	66258993	66258993	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaacagccaccaggggcAgatgctggcccagtatatag	12	5	12	12	0	0	1	0	0	0	1	0	1	0	1	4	3	4	3	4	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:66258993A>G	uc001oig.1	+	8	889	c.827A>G	c.(826-828)CAG>CGG	p.Q276R	DPP3_uc001oif.1_Missense_Mutation_p.Q276R|DPP3_uc010rpe.1_Missense_Mutation_p.Q265R	NM_005700	NP_005691	Q9NY33	DPP3_HUMAN	dipeptidyl peptidase III	276					proteolysis	cytoplasm	aminopeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity			ovary(1)|skin(1)	2						CACCAGGGGCAGATGCTGGCC	0.662											OREG0021109	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	38					0	0	1	0	0		G	66258993	G	G	66258993	3	3	66	1	0	0	0	0	1	0	0	0	4734	188	7	3	853	3	DPP3	11	66258993	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	66909	66258993	68747523	896	44972											
CTSF	8722	broad.mit.edu	37	chr11	66332428	66332428	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctctgctgagaagttgcaGgactgcatgtgaccctggta	8	12	12	9	0	1	2	0	2	1	1	2	4	1	3	1	2	3	5	1	2	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:66332428G>T	uc001oip.2	-	9	1185	c.1095C>A	c.(1093-1095)TCC>TCA	p.S365S		NM_003793	NP_003784	Q9UBX1	CATF_HUMAN	cathepsin F precursor	365					proteolysis	lysosome	cysteine-type endopeptidase activity				0						AGAAGTTGCAGGACTGCATGT	0.577													28	88					3.73988e-18	4.02476e-18	1	1	0		T	66332428	T	T	66332428	2	4	66	1	0	0	0	0	0	0	0	1	4037	987	35	5		5	CTSF	11	66332428	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	73435	66332428	68674088	897	44973											
SPTBN2	6712	broad.mit.edu	37	chr11	66458820	66458820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgctgcagggcctcggcagCgttgaggtcgcggccagtcc	4	6	17	14	5	0	1	0	1	0	0	3	1	1	1	3	4	2	4	3	4	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:66458820C>T	uc001ojd.2	-	26	5572	c.5500G>A	c.(5500-5502)GCT>ACT	p.A1834T		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1834	Spectrin 15.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GCCTCGGCAGCGTTGAGGTCG	0.677													23	59					0	0	1	0	0		T	66458820	T	T	66458820	3	4	66	1	0	0	0	0	1	0	0	0	15145	768	27	1	1720	1	SPTBN2	11	66458820	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	126392	66458820	68547696	898	44974											
SPTBN2	6712	broad.mit.edu	37	chr11	66461663	66461663	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcgcgagaagcctgcaGgcgccggcagcgttcccgca	6	5	14	16	6	0	1	0	0	0	1	2	2	1	1	3	2	4	5	3	2	1	1	rs139883853		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:66461663G>T	uc001ojd.2	-	21	4522	c.4450C>A	c.(4450-4452)CTG>ATG	p.L1484M		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1484	Spectrin 11.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GAAGCCTGCAGGCGCCGGCAG	0.652											OREG0021113	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	65					5.4927e-09	5.73971e-09	1	1	0		T	66461663	T	T	66461663	3	4	66	1	0	0	0	0	1	0	0	0	15145	991	35	5	2790	5	SPTBN2	11	66461663	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2843	66461663	68544853	899	44975											
SPTBN2	6712	broad.mit.edu	37	chr11	66469142	66469142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcggcaatgtcattcaccGcggtgatttgtgctgcaagg	7	11	13	10	3	2	1	2	1	0	0	3	1	2	1	1	3	2	4	1	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:66469142G>A	uc001ojd.2	-	15	2801	c.2729C>T	c.(2728-2730)GCG>GTG	p.A910V		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	910	Spectrin 6.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GTCATTCACCGCGGTGATTTG	0.577													29	133					0	0	1	0	0		A	66469142	A	A	66469142	3	1	66	1	0	0	0	0	1	0	0	0	15145	1087	38	1	4535	1	SPTBN2	11	66469142	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	7479	66469142	68537374	900	44976											
SPTBN2	6712	broad.mit.edu	37	chr11	66472908	66472908	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctagcttggccacccgctcCgacaccagctgcgggtcgca	6	7	11	17	4	1	0	0	0	1	0	3	1	2	0	4	2	3	4	4	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:66472908C>T	uc001ojd.2	-	14	1911	c.1839G>A	c.(1837-1839)TCG>TCA	p.S613S		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	613	Spectrin 3.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCACCCGCTCCGACACCAGCT	0.647													12	37					0	0	1	0	0		T	66472908	T	T	66472908	2	4	66	1	0	0	0	0	0	0	0	1	15145	639	23	1		1	SPTBN2	11	66472908	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3766	66472908	68533608	901	44977											
ADRBK1	156	broad.mit.edu	37	chr11	67048615	67048615	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcattgggcgcgggggctttGgcgaggtctatgggtgccgg	3	10	20	8	4	2	0	1	0	1	0	2	1	2	0	1	7	1	1	1	7	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:67048615G>T	uc009yrn.1	+	8	873	c.607G>T	c.(607-609)GGC>TGC	p.G203C	ADRBK1_uc009yrm.1_Missense_Mutation_p.G203C	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	203	Protein kinase.|ATP (By similarity).				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	CGGGGGCTTTGGCGAGGTCTA	0.667													15	49					9.16793e-09	9.55196e-09	1	1	0		T	67048615	T	T	67048615	3	4	66	1	0	0	0	0	1	0	0	0	343	1348	47	5	637	5	ADRBK1	11	67048615	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	575707	67048615	67957901	902	44978											
ANKRD13D	338692	broad.mit.edu	37	chr11	67069008	67069008	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgtgtttgaagtgcccaaCgggtacagcgtgctgggcat	8	9	14	10	3	0	1	0	1	0	0	0	1	0	1	2	2	5	4	2	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:67069008C>T	uc001okc.1	+	14	1648	c.1137C>T	c.(1135-1137)AAC>AAT	p.N379N	ANKRD13D_uc001okd.1_Silent_p.N466N|ANKRD13D_uc001oke.1_Silent_p.N379N|ANKRD13D_uc001okg.1_Silent_p.N162N|ANKRD13D_uc001okh.1_Silent_p.N162N|ANKRD13D_uc001oki.1_Silent_p.N116N|SSH3_uc001okj.2_5'Flank|SSH3_uc001okk.2_5'Flank|SSH3_uc001okl.2_5'Flank	NM_207354	NP_997237	Q6ZTN6	AN13D_HUMAN	ankyrin repeat domain 13 family, member D	379										ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			AAGTGCCCAACGGGTACAGCG	0.662													15	54					0	0	1	0	0		T	67069008	T	T	67069008	2	4	66	1	0	0	0	0	0	0	0	1	644	535	19	1		1	ANKRD13D	11	67069008	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	20393	67069008	67937508	903	44979											
ALDH3B2	222	broad.mit.edu	37	chr11	67431956	67431956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccacgctctgcacgttcaCgatgggcaggatgggcccga	7	7	14	13	4	2	0	1	0	1	0	3	3	3	1	2	3	1	4	2	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:67431956C>T	uc001omr.2	-	8	1223	c.784G>A	c.(784-786)GTG>ATG	p.V262M	ALDH3B2_uc001oms.2_Missense_Mutation_p.V262M|ALDH3B2_uc009ysa.1_Missense_Mutation_p.V262M	NM_000695	NP_000686	P48448	AL3B2_HUMAN	aldehyde dehydrogenase 3B2	262					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase			lung(1)|kidney(1)	2					NADH(DB00157)	TGCACGTTCACGATGGGCAGG	0.652													26	67					0	0	1	0	0		T	67431956	T	T	67431956	3	4	66	1	0	0	0	0	1	0	0	0	500	536	19	1	385	1	ALDH3B2	11	67431956	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	362948	67431956	67574560	904	44980											
TCIRG1	10312	broad.mit.edu	37	chr11	67814962	67814962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttcggggatgtgggccacGggctgctcatgttcctgttc	3	13	15	10	2	1	0	1	0	0	0	4	1	2	1	2	4	1	5	2	4	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:67814962G>A	uc001one.2	+	11	1336	c.1228G>A	c.(1228-1230)GGG>AGG	p.G410R	TCIRG1_uc001ong.2_Missense_Mutation_p.G194R|TCIRG1_uc001onh.2_Missense_Mutation_p.G112R|TCIRG1_uc001oni.2_5'UTR|TCIRG1_uc009ysd.2_5'Flank	NM_006019	NP_006010	Q13488	VPP3_HUMAN	T-cell, immune regulator 1 isoform a	410	Helical; (Potential).				ATP hydrolysis coupled proton transport|cellular defense response|cellular iron ion homeostasis|insulin receptor signaling pathway|positive regulation of cell proliferation|transferrin transport	apical plasma membrane|endosome membrane|integral to plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity			ovary(1)	1						TGTGGGCCACGGGCTGCTCAT	0.642													16	25					0	0	1	0	0		A	67814962	A	A	67814962	3	1	66	1	0	0	0	0	1	0	0	0	15728	1116	39	1	1266	1	TCIRG1	11	67814962	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	383006	67814962	67191554	905	44981											
NUMA1	4926	broad.mit.edu	37	chr11	71725778	71725778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgctgctcacctgccttgCgcaccaaggtctccaagcgg	6	8	10	17	2	2	0	1	0	1	0	3	0	2	0	5	2	5	3	5	2	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:71725778C>T	uc001orl.1	-	15	2943	c.2771G>A	c.(2770-2772)CGC>CAC	p.R924H	NUMA1_uc009ysw.1_Missense_Mutation_p.R487H|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.R924H|NUMA1_uc001orn.2_Missense_Mutation_p.R487H|NUMA1_uc009ysx.1_Missense_Mutation_p.R924H|NUMA1_uc001oro.1_Missense_Mutation_p.R924H	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	924	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						ACCTGCCTTGCGCACCAAGGT	0.602			T	RARA	APL								18	77					0	0	1	0	0		T	71725778	T	T	71725778	3	4	66	1	0	0	0	0	1	0	0	0	10769	768	27	1	3628	1	NUMA1	11	71725778	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3910816	71725778	63280738	906	44982											
NUMA1	4926	broad.mit.edu	37	chr11	71729497	71729497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggctccagtgggctggccgCctgcttctcattcagcaggg	4	9	15	13	1	2	0	2	0	1	0	4	0	3	0	3	4	2	4	3	4	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:71729497C>T	uc001orl.1	-	11	977	c.805G>A	c.(805-807)GCG>ACG	p.A269T	NUMA1_uc009ysw.1_5'Flank|NUMA1_uc001ork.1_Missense_Mutation_p.A269T|NUMA1_uc001orm.1_Missense_Mutation_p.A269T|NUMA1_uc001orn.2_5'Flank|NUMA1_uc009ysx.1_Missense_Mutation_p.A269T|NUMA1_uc001oro.1_Missense_Mutation_p.A269T|NUMA1_uc009ysy.1_Missense_Mutation_p.A269T|NUMA1_uc001orp.2_Missense_Mutation_p.A269T|NUMA1_uc001orq.2_Missense_Mutation_p.A269T	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	269	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						GGGCTGGCCGCCTGCTTCTCA	0.602			T	RARA	APL								13	36					0	0	1	0	0		T	71729497	T	T	71729497	3	4	66	1	0	0	0	0	1	0	0	0	10769	739	26	2	5610	2	NUMA1	11	71729497	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3719	71729497	63277019	907	44983											
INPPL1	3636	broad.mit.edu	37	chr11	71948467	71948467	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacctccaccactgccggActcagccatcttcctgcccc	6	8	5	22	1	2	0	1	0	1	0	5	1	5	1	9	1	3	0	9	1	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:71948467A>T	uc001osf.2	+	26	3326	c.3179A>T	c.(3178-3180)GAC>GTC	p.D1060V	INPPL1_uc001osg.2_Missense_Mutation_p.D818V	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	1060	Pro-rich.				actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						CCACTGCCGGACTCAGCCATC	0.677													16	72					0	0	1	0	0		T	71948467	T	T	71948467	3	4	66	1	0	0	0	0	1	0	0	0	7777	275	10	5	3281	5	INPPL1	11	71948467	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	218970	71948467	63058049	908	44984											
PDE2A	5138	broad.mit.edu	37	chr11	72288632	72288632	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctttggggaacaggtcctgCaacagcctgcgggtgcatgg	7	8	16	10	1	0	0	0	0	0	0	1	1	1	1	2	5	6	3	2	5	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:72288632C>T	uc010rrc.1	-	31	2865	c.2622G>A	c.(2620-2622)TTG>TTA	p.L874L	PDE2A_uc001oso.2_Silent_p.L853L|PDE2A_uc010rra.1_Silent_p.L867L|PDE2A_uc001osn.2_Silent_p.L618L|PDE2A_uc010rrb.1_Silent_p.L865L|PDE2A_uc010rrd.1_Silent_p.L759L	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	874	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	ACAGGTCCTGCAACAGCCTGC	0.597													6	40					0	0	1	0	0		T	72288632	T	T	72288632	2	4	66	1	0	0	0	0	0	0	0	1	11655	709	25	2		2	PDE2A	11	72288632	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	340165	72288632	62717884	909	44985											
ATG16L2	89849	broad.mit.edu	37	chr11	72540426	72540426	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagggcaggaaggttgtgctCtggcagtagggccacgacct	8	7	16	10	1	1	0	0	0	1	0	1	2	1	1	2	5	1	5	2	5	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:72540426C>T	uc001otd.2	+	18	1891	c.1851C>T	c.(1849-1851)CTC>CTT	p.L617L	ATG16L2_uc001ote.2_Silent_p.L511L|ATG16L2_uc009ytj.1_Intron|ATG16L2_uc001otf.2_Silent_p.L372L|ATG16L2_uc001otg.2_Silent_p.L351L|ATG16L2_uc009ytk.2_Silent_p.L338L	NM_033388	NP_203746	Q8NAA4	A16L2_HUMAN	ATG16 autophagy related 16-like 2	617	WD 7.				autophagy|protein transport	cytoplasm	protein binding				0			BRCA - Breast invasive adenocarcinoma(5;2.73e-06)			AGGTTGTGCTCTGGCAGTAGG	0.483													9	14					0	0	1	0	0		T	72540426	T	T	72540426	2	4	66	1	0	0	0	0	0	0	0	1	1093	900	32	4		4	ATG16L2	11	72540426	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	251794	72540426	62466090	910	44986											
P2RY6	5031	broad.mit.edu	37	chr11	73007627	73007627	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaccacctgtgtctaccgcGagaacttcaagcaactgctg	10	8	8	15	2	2	1	1	0	1	1	2	2	2	1	4	0	5	2	4	0	4	2	rs61745521	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:73007627G>A	uc001otm.2	+	4	469	c.64G>A	c.(64-66)GAG>AAG	p.E22K	P2RY6_uc001otn.2_Missense_Mutation_p.E22K|P2RY6_uc001oto.2_Missense_Mutation_p.E22K|P2RY6_uc001otp.2_Missense_Mutation_p.E22K|P2RY6_uc001otq.2_Missense_Mutation_p.E22K|P2RY6_uc001otr.2_Missense_Mutation_p.E22K|P2RY6_uc001ots.2_Missense_Mutation_p.E22K	NM_176796	NP_789766	Q15077	P2RY6_HUMAN	pyrimidinergic receptor P2Y6	22	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1						TGTCTACCGCGAGAACTTCAA	0.607													48	152					0	0	1	0	0		A	73007627	A	A	73007627	3	1	66	1	0	0	0	0	1	0	0	0	11373	1059	37	1	66	1	P2RY6	11	73007627	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	467201	73007627	61998889	911	44987											
C2CD3	26005	broad.mit.edu	37	chr11	73785385	73785385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggccctcctgcgtcaggcGgacttcagctgtggtgctgc	4	9	15	13	2	2	0	2	0	0	0	3	1	3	1	2	4	4	2	2	4	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:73785385G>A	uc001ouu.2	-	24	5091	c.4864C>T	c.(4864-4866)CGC>TGC	p.R1622C	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1622	C2 2.					centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					TGCGTCAGGCGGACTTCAGCT	0.557													15	43					0	0	1	0	0		A	73785385	A	A	73785385	3	1	66	1	0	0	0	0	1	0	0	0	2157	1116	39	1	1059	1	C2CD3	11	73785385	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	777758	73785385	61221131	912	44988											
MAP6	4135	broad.mit.edu	37	chr11	75298727	75298727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgctgggactatgggacCttgatccttgacaggtgctg	7	11	15	8	0	0	2	0	2	0	0	1	4	1	4	2	4	2	2	2	4	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:75298727C>T	uc001owu.2	-	4	1884	c.1819G>A	c.(1819-1821)GGT>AGT	p.G607S		NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	607	Pro-rich.					Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					ACTATGGGACCTTGATCCTTG	0.537													41	162					0	0	1	0	0		T	75298727	T	T	75298727	3	4	66	1	0	0	0	0	1	0	0	0	9282	681	24	4	626	4	MAP6	11	75298727	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1513342	75298727	59707789	913	44989											
UVRAG	7405	broad.mit.edu	37	chr11	75826988	75826988	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaagatatcaacatggactAgggactccagacttgcggca	13	8	10	10	1	1	2	1	0	0	2	2	4	2	4	1	3	2	1	1	3	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:75826988A>G	uc001oxc.2	+	14	1567	c.1326A>G	c.(1324-1326)CTA>CTG	p.L442L	UVRAG_uc010rrw.1_Silent_p.L341L|UVRAG_uc001oxd.2_Silent_p.L70L|UVRAG_uc010rrx.1_Silent_p.L70L|UVRAG_uc010rry.1_5'UTR	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	442					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						AACATGGACTAGGGACTCCAG	0.388													8	52					0	0	1	0	0		G	75826988	G	G	75826988	2	3	66	1	0	0	0	0	0	0	0	1	17134	407	15	3		3	UVRAG	11	75826988	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	528261	75826988	59179528	914	44990											
INTS4	92105	broad.mit.edu	37	chr11	77602450	77602450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaacccagaggtaaacCgcaaagggttgtctgactcg	12	6	10	13	2	1	2	0	1	1	1	2	2	1	2	4	2	2	3	4	2	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:77602450C>T	uc001oys.2	-	21	2535	c.2507G>A	c.(2506-2508)CGG>CAG	p.R836Q	C11orf67_uc001oyp.2_Intron|C11orf67_uc001oyr.1_Intron|INTS4_uc001oyt.2_RNA	NM_033547	NP_291025	Q96HW7	INT4_HUMAN	integrator complex subunit 4	836					snRNA processing	integrator complex	protein binding			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			AGAGGTAAACCGCAAAGGGTT	0.522													7	25					0	0	1	0	0		T	77602450	T	T	77602450	3	4	66	1	0	0	0	0	1	0	0	0	7796	652	23	1	396	1	INTS4	11	77602450	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1775462	77602450	57404066	915	44991											
INTS4	92105	broad.mit.edu	37	chr11	77672170	77672170	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttcttacaccatgagaCgtatctgtcagatgctatta	11	16	6	8	1	3	2	1	1	2	2	3	3	3	2	1	0	2	2	1	0	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:77672170C>T	uc001oys.2	-	5	514	c.486G>A	c.(484-486)ACG>ACA	p.T162T	INTS4_uc001oyt.2_RNA|INTS4_uc001oyu.1_Silent_p.T162T	NM_033547	NP_291025	Q96HW7	INT4_HUMAN	integrator complex subunit 4	162	HEAT 2.				snRNA processing	integrator complex	protein binding			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			CACCATGAGACGTATCTGTCA	0.338													34	95					0	0	1	0	0		T	77672170	T	T	77672170	2	4	66	1	0	0	0	0	0	0	0	1	7796	523	19	1		1	INTS4	11	77672170	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	69720	77672170	57334346	916	44992											
USP35	57558	broad.mit.edu	37	chr11	77920763	77920763	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcgccccacagaagacaTcacagcccgggagttgcccc	10	4	11	16	2	1	2	1	0	0	2	1	4	1	3	5	1	3	1	5	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:77920763T>C	uc009yva.1	+	10	2108	c.1862T>C	c.(1861-1863)ATC>ACC	p.I621T	USP35_uc001oze.2_Missense_Mutation_p.I377T|USP35_uc001ozc.2_Missense_Mutation_p.I189T|USP35_uc010rsp.1_Missense_Mutation_p.I53T|USP35_uc001ozd.2_Missense_Mutation_p.I232T|USP35_uc001ozf.2_Missense_Mutation_p.I352T	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	621					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			ACAGAAGACATCACAGCCCGG	0.677													22	54					0	0	1	0	0		C	77920763	C	C	77920763	3	2	66	1	0	0	0	0	1	0	0	0	17092	1435	50	3	1896	3	USP35	11	77920763	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	248593	77920763	57085753	917	44993											
MAML2	84441	broad.mit.edu	37	chr11	95724695	95724695	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagttttaccgcgtcagccaGcatctgctgctggagaagaa	11	9	11	10	2	2	2	1	0	1	2	2	3	2	2	2	1	5	4	2	1	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:95724695G>A	uc001pfw.1	-	3	3617	c.2332C>T	c.(2332-2334)CTG>TTG	p.L778L		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	778					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				GCGTCAGCCAGCATCTGCTGC	0.428			T	MECT1|CRTC3	salivary gland mucoepidermoid								50	129					0	0	1	0	0		A	95724695	A	A	95724695	2	1	66	1	0	0	0	0	0	0	0	1	9224	962	34	2		2	MAML2	11	95724695	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	17803932	95724695	39281821	918	44994											
TRPC6	7225	broad.mit.edu	37	chr11	101342905	101342905	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactgttgatcatggcaattAacatatttagcaaaacaatg	17	12	6	6	0	1	1	1	1	0	0	1	1	1	1	0	1	4	3	0	1	8	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:101342905A>G	uc001pgk.3	-	8	2593	c.2168T>C	c.(2167-2169)TTA>TCA	p.L723S	TRPC6_uc009ywy.2_Missense_Mutation_p.L607S|TRPC6_uc009ywz.1_Missense_Mutation_p.L668S	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	723	Helical; (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		CATGGCAATTAACATATTTAG	0.318													39	149					0	0	1	0	0		G	101342905	G	G	101342905	3	3	66	1	0	0	0	0	1	0	0	0	16609	372	13	3	651	3	TRPC6	11	101342905	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	5618210	101342905	33663611	919	44995											
GRIA4	2893	broad.mit.edu	37	chr11	105769149	105769149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggatctgagactcctcCaaaggtatttgtttattttt	9	17	7	8	0	1	1	0	1	1	1	4	3	4	2	3	2	0	2	3	2	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:105769149C>T	uc001pix.2	+	7	1327	c.881C>T	c.(880-882)CCA>CTA	p.P294L	GRIA4_uc001piu.1_Missense_Mutation_p.P294L|GRIA4_uc001piw.2_Missense_Mutation_p.P294L|GRIA4_uc009yxk.1_Missense_Mutation_p.P294L	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	294	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	GAGACTCCTCCAAAGGTATTT	0.323													14	37					0	0	1	0	0		T	105769149	T	T	105769149	3	4	66	1	0	0	0	0	1	0	0	0	6786	594	21	4	903	4	GRIA4	11	105769149	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4426244	105769149	29237367	920	44996											
KIAA1826	84437	broad.mit.edu	37	chr11	105880801	105880801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctggaatctggtatgaCggatgacaacatttcttcct	9	14	8	10	1	3	2	0	2	3	0	5	4	4	4	2	3	1	1	2	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:105880801C>T	uc001piy.2	-	3	672	c.499G>A	c.(499-501)GTC>ATC	p.V167I	KIAA1826_uc001piz.2_Missense_Mutation_p.V167I	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	167						nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		TCTGGTATGACGGATGACAAC	0.373													30	96					0	0	1	0	0		T	105880801	T	T	105880801	3	4	66	1	0	0	0	0	1	0	0	0	8276	536	19	1	542	1	KIAA1826	11	105880801	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	111652	105880801	29125715	921	44997											
ATM	472	broad.mit.edu	37	chr11	108160451	108160451	+	Frame_Shift_Del	DEL	A	-	-																															agtttattactgaaagatatAaaaagtggcttaggaggagc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:108160451delA	uc001pkb.1	+	29	4744	c.4359delA	c.(4357-4359)ATAfs	p.I1453fs	ATM_uc009yxr.1_Frame_Shift_Del_p.I1453fs|ATM_uc001pkd.3_Frame_Shift_Del_p.I105fs|ATM_uc001pke.1_Frame_Shift_Del_p.I105fs|ATM_uc010rvw.1_Frame_Shift_Del_p.I105fs|ATM_uc001pkf.2_Frame_Shift_Del_p.I105fs	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1453					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TGAAAGATATAAAAAGTGGCT	0.318			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			42	55	---	---	---	---						.	-	108160451	-	-	108160451	7	5	66	1	0	1	0	1	0	0	0	0	1110	352	13	0	4469	0	ATM	11	108160451	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	2279650	108160451	26846065	922	44998											
ARHGAP20	57569	broad.mit.edu	37	chr11	110485315	110485315	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccaatgtccttggcgaaGattttgaggggaatgctctt	8	14	11	8	1	1	2	0	1	1	1	3	4	3	3	2	3	1	1	2	3	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:110485315G>T	uc001pkz.1	-	7	885	c.600C>A	c.(598-600)ATC>ATA	p.I200I	ARHGAP20_uc001pky.1_Silent_p.I177I|ARHGAP20_uc009yyb.1_Silent_p.I164I|ARHGAP20_uc001pla.1_Silent_p.I164I	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	200	Ras-associating.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		CCTTGGCGAAGATTTTGAGGG	0.408													28	89					2.12542e-12	2.25299e-12	1	1	0		T	110485315	T	T	110485315	2	4	66	1	0	0	0	0	0	0	0	1	870	932	33	5		5	ARHGAP20	11	110485315	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2324864	110485315	24521201	923	44999											
POU2AF1	5450	broad.mit.edu	37	chr11	111228334	111228334	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggtgtccatggggccagggGctgcagggtggccggggtgg	4	6	23	8	1	0	0	0	0	0	0	1	0	1	0	3	10	1	2	3	10	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:111228334G>T	uc001plg.3	-	4	547	c.292C>A	c.(292-294)CCC>ACC	p.P98T		NM_006235	NP_006226	Q16633	OBF1_HUMAN	POU class 2 associating factor 1	98					humoral immune response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			kidney(1)	1		all_cancers(61;1.36e-12)|all_epithelial(67;1.87e-07)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|all_neural(223;0.0146)|Medulloblastoma(222;0.0245)|Breast(348;0.0389)		Epithelial(105;1.01e-06)|BRCA - Breast invasive adenocarcinoma(274;3.12e-06)|all cancers(92;1.8e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0364)		GGGGCCAGGGGCTGCAGGGTG	0.632			T	BCL6	NHL								10	32					2.17888e-05	2.22293e-05	1	1	0		T	111228334	T	T	111228334	3	4	66	1	0	0	0	0	1	0	0	0	12289	1203	42	5	486	5	POU2AF1	11	111228334	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	743019	111228334	23778182	924	45000											
LAYN	143903	broad.mit.edu	37	chr11	111431071	111431071	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagtgggtttgtgactcTggtgagcgtggagagtggat	9	11	18	3	1	1	4	0	2	1	2	1	6	1	5	0	4	1	1	0	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:111431071T>A	uc001plr.1	+	8	1373	c.1037T>A	c.(1036-1038)CTG>CAG	p.L346Q	LAYN_uc001plp.1_Missense_Mutation_p.L338Q|LAYN_uc001plq.1_3'UTR|LAYN_uc001pls.1_3'UTR|LAYN_uc010rwg.1_Missense_Mutation_p.L193Q|LAYN_uc010rwh.1_Missense_Mutation_p.L194Q	NM_178834	NP_849156	Q6UX15	LAYN_HUMAN	layilin	346	Cytoplasmic (Potential).|3 X 5 AA repeats of E-S-G-X-V.|Interaction with NF2 (By similarity).|Interaction with TLN1 (By similarity).					cell surface|integral to membrane|ruffle	hyaluronic acid binding|sugar binding				0		all_cancers(61;9.06e-10)|all_epithelial(67;1.34e-05)|Melanoma(852;1.74e-05)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.086)		Epithelial(105;1.5e-06)|BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|all cancers(92;2.45e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0476)		TTTGTGACTCTGGTGAGCGTG	0.473													25	80					0	0	1	0	0		A	111431071	A	A	111431071	3	1	66	1	0	0	0	0	1	0	0	0	8665	1580	55	5	1039	5	LAYN	11	111431071	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	202737	111431071	23575445	925	45001											
DRD2	1813	broad.mit.edu	37	chr11	113295140	113295140	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcgacgaggaggtcggcCactgcgaggctgacgatcag	8	5	18	10	5	1	1	1	1	0	0	2	6	1	2	1	5	1	1	1	5	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:113295140C>T	uc001pnz.2	-	1	555	c.234G>A	c.(232-234)GTG>GTA	p.V78V	DRD2_uc010rwv.1_Silent_p.V78V|DRD2_uc001poa.3_Silent_p.V78V|DRD2_uc001pob.3_Silent_p.V78V|DRD2_uc009yyr.1_Silent_p.V78V	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	78	Helical; Name=2; (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		all_cancers(61;3.91e-16)|all_epithelial(67;2.95e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000977)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0494)		BRCA - Breast invasive adenocarcinoma(274;5.77e-06)|Epithelial(105;6.66e-05)|all cancers(92;0.000307)|OV - Ovarian serous cystadenocarcinoma(223;0.216)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	GGAGGTCGGCCACTGCGAGGC	0.637													6	54					0	0	1	0	0		T	113295140	T	T	113295140	2	4	66	1	0	0	0	0	0	0	0	1	4763	581	21	4		4	DRD2	11	113295140	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1864069	113295140	21711376	926	45002											
HTR3A	3359	broad.mit.edu	37	chr11	113853960	113853960	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctcgacatctacaacttcCccttcgatgtccagaactgc	9	10	6	16	2	1	1	0	0	1	1	5	3	3	1	4	0	4	0	4	0	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:113853960C>A	uc010rxb.1	+	5	744	c.511C>A	c.(511-513)CCC>ACC	p.P171T	HTR3A_uc010rxa.1_Missense_Mutation_p.P171T|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Missense_Mutation_p.P150T	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	165	Extracellular (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	CTACAACTTCCCCTTCGATGT	0.557													49	166					1.4374e-25	1.5602e-25	1	1	0		A	113853960	A	A	113853960	3	1	66	1	0	0	0	0	1	0	0	0	7460	623	22	5	555	5	HTR3A	11	113853960	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	558820	113853960	21152556	927	45003											
HTR3A	3359	broad.mit.edu	37	chr11	113860366	113860366	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagatccgagaggtggccCgagactggctgcgcgtgggc	7	6	18	10	4	0	3	0	1	0	3	1	6	1	3	2	4	1	1	2	4	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:113860366C>T	uc010rxb.1	+	8	1665	c.1432C>T	c.(1432-1434)CGA>TGA	p.R478*	HTR3A_uc010rxa.1_Nonsense_Mutation_p.R446*|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Nonsense_Mutation_p.R425*	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	440	HA-stretch.|Cytoplasmic (Potential).			R->A: Increased conductance. Massive increase of conductance; when associated with Q-432 and D-436.	digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	AGAGGTGGCCCGAGACTGGCT	0.622													21	70					0	0	1	0	0		T	113860366	T	T	113860366	4	4	66	1	0	0	0	0	0	1	0	0	7460	644	23	1	1488	1	HTR3A	11	113860366	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	6406	113860366	21146150	928	45004											
DSCAML1	57453	broad.mit.edu	37	chr11	117308626	117308626	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccccgcccgtgggtctTggcctcgatgatctcgctga	4	10	11	16	4	3	2	1	2	2	0	5	3	3	2	4	2	0	1	4	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:117308626T>C	uc001prh.1	-	25	4599	c.4597A>G	c.(4597-4599)AAG>GAG	p.K1533E		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1473	Fibronectin type-III 5.|Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CCGTGGGTCTTGGCCTCGATG	0.652													8	18					0	0	1	0	0		C	117308626	C	C	117308626	3	2	66	1	0	0	0	0	1	0	0	0	4775	1821	63	3	1780	3	DSCAML1	11	117308626	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3448260	117308626	17697890	929	45005											
TMEM25	84866	broad.mit.edu	37	chr11	118404781	118404781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aactcaacaacgtgcgcctgCcacgggagaacatgtccctc	11	6	9	15	3	1	1	1	0	0	1	3	2	2	1	3	1	6	0	3	1	4	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:118404781C>T	uc010rye.1	+	7	1048	c.874C>T	c.(874-876)CCA>TCA	p.P292S	TMEM25_uc001ptk.3_Missense_Mutation_p.P292S|TMEM25_uc001pth.2_Missense_Mutation_p.P248S|TMEM25_uc009zad.2_Missense_Mutation_p.P248S|TMEM25_uc001pti.2_Missense_Mutation_p.P144S|TMEM25_uc010ryf.1_Missense_Mutation_p.P195S|TMEM25_uc001ptl.2_Missense_Mutation_p.P292S|TMEM25_uc001ptm.2_Missense_Mutation_p.P248S|TMEM25_uc001ptn.2_Missense_Mutation_p.P248S	NM_032780	NP_116169	Q86YD3	TMM25_HUMAN	transmembrane protein 25 isoform 1	292	Cytoplasmic (Potential).					extracellular region|integral to membrane|plasma membrane					0	all_hematologic(175;0.0349)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)		BRCA - Breast invasive adenocarcinoma(274;3.04e-05)		CGTGCGCCTGCCACGGGAGAA	0.542													8	52					0	0	1	0	0		T	118404781	T	T	118404781	3	4	66	1	0	0	0	0	1	0	0	0	16175	739	26	2	896	2	TMEM25	11	118404781	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1096155	118404781	16601735	930	45006											
BCL9L	283149	broad.mit.edu	37	chr11	118771708	118771708	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taatactgatggtgaggtccGaaggccgcctgcctagcccc	8	8	12	13	2	0	2	0	2	0	0	1	3	1	2	6	3	3	0	6	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:118771708G>A	uc001pug.2	-	6	3709	c.2744C>T	c.(2743-2745)TCG>TTG	p.S915L	BCL9L_uc009zal.2_Missense_Mutation_p.S910L	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	915	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		GGTGAGGTCCGAAGGCCGCCT	0.652													11	45					0	0	1	0	0		A	118771708	A	A	118771708	3	1	66	1	0	0	0	0	1	0	0	0	1383	1059	37	1	1767	1	BCL9L	11	118771708	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	366927	118771708	16234808	931	45007											
TRAPPC4	51399	broad.mit.edu	37	chr11	118889337	118889337	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactacttatgcccgagcGtgtcgctcccagtgcgcaag	7	8	12	14	4	0	0	0	0	0	0	2	1	1	0	2	1	4	3	2	1	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:118889337G>A	uc010ryo.1	+	1	97	c.-168G>A	c.(-170--166)GCGTG>GCATG		RPS25_uc001pun.2_5'Flank|TRAPPC4_uc010ryn.1_Translation_Start_Site|TRAPPC4_uc010ryp.1_Translation_Start_Site|TRAPPC4_uc001pup.2_RNA|TRAPPC4_uc010ryq.1_Translation_Start_Site	NM_016146	NP_057230	Q9Y296	TPPC4_HUMAN	trafficking protein particle complex 4						dendrite development|ER to Golgi vesicle-mediated transport	cis-Golgi network|dendrite|endoplasmic reticulum|Golgi stack|synaptic vesicle	protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_neural(223;0.224)|all_hematologic(192;0.243)		BRCA - Breast invasive adenocarcinoma(274;7.58e-05)		ATGCCCGAGCGTGTCGCTCCC	0.527													7	14					0	0	1	0	0		A	118889337	A	A	118889337	1	1	66	1	0	0	0	0	0	0	0	0	16487	1160	40	1		1	TRAPPC4	11	118889337	Translation_Start_Site	SNP	G	TCGA-BR-8361-01A-11D-2340-08	117629	118889337	16117179	932	45008											
MFRP	83552	broad.mit.edu	37	chr11	119215690	119215690	+	Frame_Shift_Del	DEL	G	-	-																															ctggcattggtgttgagcgtGgggggaggcacccttccaca																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:119215690delG	uc001pwj.2	-	6	826	c.666delC	c.(664-666)CCCfs	p.P222fs	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Frame_Shift_Del_p.P222fs	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	118	C1q.					collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		TGTTGAGCGTGGGGGGAGGCA	0.612													6	8	---	---	---	---						.	-	119215690	-	-	119215690	7	5	66	1	0	1	0	1	0	0	0	0	9544	1335	47	0	1105	0	MFRP	11	119215690	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	326353	119215690	15790826	933	45009											
TECTA	7007	broad.mit.edu	37	chr11	121023760	121023760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatcctgccccacagctgcGgctgctactccgatggcaaa	8	7	10	16	2	0	0	0	0	0	0	2	1	2	0	4	2	5	5	4	2	2	1	rs143250687		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:121023760G>A	uc010rzo.1	+	12	4276	c.4276G>A	c.(4276-4278)GGC>AGC	p.G1426S		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1426					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CCACAGCTGCGGCTGCTACTC	0.582													9	29					0	0	1	0	0		A	121023760	A	A	121023760	3	1	66	1	0	0	0	0	1	0	0	0	15772	1116	39	1	4322	1	TECTA	11	121023760	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1808070	121023760	13982756	934	45010											
SC5DL	6309	broad.mit.edu	37	chr11	121177765	121177765	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgtccttttctcctgcaGcgcctacataaacctcacca	8	13	5	15	1	2	0	1	0	1	0	4	0	3	0	5	0	4	1	5	0	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:121177765G>A	uc001pxu.2	+	5	593	c.445_splice	c.e5-1	p.R149_splice	SC5DL_uc001pxt.2_3'UTR|SC5DL_uc001pxv.2_Splice_Site_p.R149_splice	NM_006918	NP_008849	O75845	SC5D_HUMAN	sterol-C5-desaturase						fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	C-5 sterol desaturase activity|iron ion binding|lathosterol oxidase activity			ovary(1)	1		Breast(109;0.00328)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)	OV - Ovarian serous cystadenocarcinoma(1;0.0334)	BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.144)		TTCTCCTGCAGCGCCTACATA	0.418													116	135					0	0	1	0	0		A	121177765	A	A	121177765	5	1	66	1	0	0	0	0	0	0	1	0	13891	985	34	2	458	2	SC5DL	11	121177765	Splice_Site	SNP	G	TCGA-BR-8361-01A-11D-2340-08	154005	121177765	13828751	935	45011											
SORL1	6653	broad.mit.edu	37	chr11	121414325	121414325	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaagccagtgtttgtgtatgGcctcctcacagaacctgggg	8	10	13	10	0	1	1	1	0	0	1	2	2	2	1	4	3	2	2	4	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:121414325G>A	uc001pxx.2	+	13	1834	c.1754G>A	c.(1753-1755)GGC>GAC	p.G585D		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	585	Extracellular (Potential).				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		TTTGTGTATGGCCTCCTCACA	0.493													28	122					0	0	1	0	0		A	121414325	A	A	121414325	3	1	66	1	0	0	0	0	1	0	0	0	14959	1203	42	2	1804	2	SORL1	11	121414325	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	236560	121414325	13592191	936	45012											
RPUSD4	84881	broad.mit.edu	37	chr11	126075366	126075366	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagtgacactctcaccagTgatgggctggagctccacga	12	7	11	11	1	1	2	1	2	1	0	3	4	2	3	2	2	1	2	2	2	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:126075366T>C	uc001qde.2	-	5	847	c.793A>G	c.(793-795)ACT>GCT	p.T265A	RPUSD4_uc010sbl.1_Missense_Mutation_p.T72A|RPUSD4_uc009zbz.2_Missense_Mutation_p.T234A|RPUSD4_uc009zby.2_RNA	NM_032795	NP_116184	Q96CM3	RUSD4_HUMAN	RNA pseudouridylate synthase domain containing 4	265					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			breast(1)	1	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0761)		CTCTCACCAGTGATGGGCTGG	0.577													15	41					0	0	1	0	0		C	126075366	C	C	126075366	3	2	66	1	0	0	0	0	1	0	0	0	13694	1696	59	3	352	3	RPUSD4	11	126075366	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	4661041	126075366	8931150	937	45013											
FOXRED1	55572	broad.mit.edu	37	chr11	126146084	126146084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccgcctggcaccctgcaggGcaccaagctacctgtggagc	7	5	13	16	1	0	0	0	0	0	0	0	1	0	1	5	3	4	4	5	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:126146084G>A	uc001qdi.2	+	8	988	c.941G>A	c.(940-942)GGC>GAC	p.G314D	FOXRED1_uc010sbn.1_Missense_Mutation_p.G144D|FOXRED1_uc010sbo.1_RNA|FOXRED1_uc010sbp.1_Missense_Mutation_p.G127D|FOXRED1_uc010sbq.1_Missense_Mutation_p.G181D|FOXRED1_uc001qdj.2_Missense_Mutation_p.G103D|FOXRED1_uc010sbr.1_Missense_Mutation_p.G300D|FOXRED1_uc001qdk.2_Missense_Mutation_p.G103D	NM_017547	NP_060017	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing	314						integral to membrane|mitochondrion	oxidoreductase activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)		ACCCTGCAGGGCACCAAGCTA	0.577													4	13					0	0	1	0	0		A	126146084	A	A	126146084	3	1	66	1	0	0	0	0	1	0	0	0	6047	1203	42	2	971	2	FOXRED1	11	126146084	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	70718	126146084	8860432	938	45014											
ARHGAP32	9743	broad.mit.edu	37	chr11	128839760	128839760	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttatcatattgggacatgAcaggccctttcaccttctgc	8	14	8	11	0	3	1	2	1	1	0	3	2	3	2	2	2	1	1	2	2	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:128839760A>C	uc009zcp.2	-	22	5306	c.5306T>G	c.(5305-5307)GTC>GGC	p.V1769G	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.V728G|ARHGAP32_uc001qez.2_Missense_Mutation_p.V1420G	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1769	Interaction with FYN.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TTGGGACATGACAGGCCCTTT	0.522													14	94					0	0	1	0	0		C	128839760	C	C	128839760	3	2	66	1	0	0	0	0	1	0	0	0	881	275	10	5	961	5	ARHGAP32	11	128839760	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2693676	128839760	6166756	939	45015											
ARHGAP32	9743	broad.mit.edu	37	chr11	128868349	128868349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taagaacgtaatgagcttgcCgtgctttttagacactaaaa	14	12	8	7	2	0	3	0	1	0	2	0	3	0	3	1	0	4	3	1	0	6	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:128868349C>T	uc009zcp.2	-	11	1018	c.1018G>A	c.(1018-1020)GGC>AGC	p.G340S	ARHGAP32_uc009zcq.1_Missense_Mutation_p.G300S|ARHGAP32_uc009zco.2_5'UTR|ARHGAP32_uc001qez.2_5'UTR|ARHGAP32_uc001qfb.2_Missense_Mutation_p.G125S	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	340					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						ATGAGCTTGCCGTGCTTTTTA	0.383													14	87					0	0	1	0	0		T	128868349	T	T	128868349	3	4	66	1	0	0	0	0	1	0	0	0	881	652	23	1	5293	1	ARHGAP32	11	128868349	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	28589	128868349	6138167	940	45016											
PRDM10	56980	broad.mit.edu	37	chr11	129785593	129785593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcagtggggacagcagaCgggaggggtggcgatggtgc	8	4	23	6	2	0	1	0	0	0	1	0	5	0	4	0	8	3	2	0	8	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:129785593C>T	uc001qfm.2	-	17	2732	c.2500G>A	c.(2500-2502)GTC>ATC	p.V834I	PRDM10_uc001qfj.2_Missense_Mutation_p.V748I|PRDM10_uc001qfk.2_Missense_Mutation_p.V744I|PRDM10_uc001qfl.2_Missense_Mutation_p.V748I|PRDM10_uc010sbx.1_Missense_Mutation_p.V744I|PRDM10_uc001qfn.2_Missense_Mutation_p.V830I|PRDM10_uc009zcs.1_Missense_Mutation_p.V17I	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	834	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		GGACAGCAGACGGGAGGGGTG	0.597													32	96					0	0	1	0	0		T	129785593	T	T	129785593	3	4	66	1	0	0	0	0	1	0	0	0	12473	536	19	1	1006	1	PRDM10	11	129785593	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	917244	129785593	5220923	941	45017											
ADAMTS8	11095	broad.mit.edu	37	chr11	130278394	130278394	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacccggagaccttcctgcaGgagttgcctttgcccccaca	7	8	10	16	1	0	1	0	0	0	1	1	4	1	2	6	2	3	2	6	2	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:130278394G>A	uc001qgg.3	-	8	2422	c.2064C>T	c.(2062-2064)TCC>TCT	p.S688S	ADAMTS8_uc001qgf.2_Silent_p.S169S	NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	688	Cys-rich.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		CCTTCCTGCAGGAGTTGCCTT	0.522													28	108					0	0	1	0	0		A	130278394	A	A	130278394	2	1	66	1	0	0	0	0	0	0	0	1	272	987	35	4		4	ADAMTS8	11	130278394	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	492801	130278394	4728122	942	45018											
SPATA19	219938	broad.mit.edu	37	chr11	133714470	133714470	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagtggacatcttctccctTacaccctgggaagggtggtt	7	12	11	11	0	3	0	1	0	2	0	4	2	3	2	2	4	1	1	2	4	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:133714470T>A	uc001qgv.1	-	3	252	c.201A>T	c.(199-201)GTA>GTT	p.V67V		NM_174927	NP_777587	Q7Z5L4	SPT19_HUMAN	spermatogenesis associated 19 precursor	67					cell differentiation|multicellular organismal development|spermatogenesis	mitochondrial outer membrane					0	all_hematologic(175;0.127)	all_cancers(12;5.59e-17)|all_epithelial(12;2.65e-12)|all_lung(97;0.00045)|Lung NSC(97;0.000861)|Breast(109;0.000873)|Medulloblastoma(222;0.0425)|Esophageal squamous(93;0.0844)|all_neural(223;0.117)		Epithelial(10;4.36e-10)|all cancers(11;7.1e-09)|BRCA - Breast invasive adenocarcinoma(10;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00286)|Lung(977;0.207)		TCTTCTCCCTTACACCCTGGG	0.512													25	86					0	0	1	0	0		A	133714470	A	A	133714470	2	1	66	1	0	0	0	0	0	0	0	1	15029	1741	61	5		5	SPATA19	11	133714470	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3436076	133714470	1292046	943	45019											
NCAPD3	23310	broad.mit.edu	37	chr11	134023240	134023240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgacccctgctccaaacGtgacatcactgatgctctct	10	10	6	15	1	2	3	1	3	1	0	4	3	3	3	3	0	4	2	3	0	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:134023240G>A	uc001qhd.1	-	33	4877	c.4271C>T	c.(4270-4272)ACG>ATG	p.T1424M	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA|NCAPD3_uc001qhc.1_Missense_Mutation_p.T374M	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	1424					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		TGCTCCAAACGTGACATCACT	0.542													38	137					0	0	1	0	0		A	134023240	A	A	134023240	3	1	66	1	0	0	0	0	1	0	0	0	10225	1145	40	1	237	1	NCAPD3	11	134023240	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	308770	134023240	983276	944	45020											
GLB1L3	112937	broad.mit.edu	37	chr11	134147764	134147764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggagtactggagggaccGcctgctgaagctgaaggcct	9	6	16	10	1	0	2	0	2	0	0	0	5	0	5	3	4	3	3	3	4	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr11:134147764G>A	uc009zdf.2	+	3	680	c.320G>A	c.(319-321)CGC>CAC	p.R107H	GLB1L3_uc010scs.1_Missense_Mutation_p.R107H|GLB1L3_uc010sct.1_5'UTR	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3	107					carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		TGGAGGGACCGCCTGCTGAAG	0.612													12	43					0	0	1	0	0		A	134147764	A	A	134147764	3	1	66	1	0	0	0	0	1	0	0	0	6445	1087	38	1	330	1	GLB1L3	11	134147764	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	124524	134147764	858752	945	45021											
CACNA2D4	93589	broad.mit.edu	37	chr12	2016659	2016659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaatattgccaggtcaacGttgggtctctctggaagttc	10	12	10	9	1	3	0	1	0	2	0	5	1	3	1	1	3	2	2	1	3	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:2016659G>A	uc001qjp.2	-	6	959	c.728C>T	c.(727-729)ACG>ATG	p.T243M	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Missense_Mutation_p.T243M	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	243	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		CCAGGTCAACGTTGGGTCTCT	0.458													9	35					0	0	1	0	0		A	2016659	A	A	2016659	3	1	66	1	0	0	0	0	1	0	0	0	2554	1145	40	1	2817	1	CACNA2D4	12	2016659	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08		2016659	131835236	946	45022											
TULP3	7289	broad.mit.edu	37	chr12	3040324	3040324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtcacagtaagatgtcGgataatccgggataaaaggg	14	8	14	5	2	1	1	1	0	0	1	3	3	2	3	1	4	0	1	1	4	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:3040324G>A	uc010seh.1	+	6	695	c.614G>A	c.(613-615)CGG>CAG	p.R205Q	TULP3_uc010sef.1_RNA|TULP3_uc009zec.1_5'UTR|TULP3_uc010seg.1_RNA|TULP3_uc001qlj.2_Missense_Mutation_p.R205Q|TULP3_uc010sei.1_Missense_Mutation_p.R62Q	NM_003324	NP_003315	O75386	TULP3_HUMAN	tubby like protein 3 isoform 1	205					G-protein coupled receptor protein signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|extracellular region|nucleus|plasma membrane	phosphatidylinositol-4,5-bisphosphate binding				0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GTAAGATGTCGGATAATCCGG	0.473													57	55					0	0	1	0	0		A	3040324	A	A	3040324	3	1	66	1	0	0	0	0	1	0	0	0	16801	1116	39	1	636	1	TULP3	12	3040324	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1023665	3040324	130811571	947	45023											
TEAD4	7004	broad.mit.edu	37	chr12	3131079	3131079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacccctacctcgaagccGtggacatccgccaaatctat	10	7	8	16	4	1	0	0	0	1	0	3	3	2	1	6	1	2	0	6	1	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:3131079G>A	uc010sej.1	+	10	1067	c.790G>A	c.(790-792)GTG>ATG	p.V264M	TEAD4_uc010sek.1_Missense_Mutation_p.V221M|TEAD4_uc001qln.2_Missense_Mutation_p.V136M	NM_003213	NP_003204	Q15561	TEAD4_HUMAN	TEA domain family member 4 isoform 1	265					hippo signaling cascade|muscle organ development|skeletal system development		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(42;0.211)		OV - Ovarian serous cystadenocarcinoma(31;0.000563)|COAD - Colon adenocarcinoma(12;0.0831)			CCTCGAAGCCGTGGACATCCG	0.453													29	133					0	0	1	0	0		A	3131079	A	A	3131079	3	1	66	1	0	0	0	0	1	0	0	0	15766	1145	40	1	823	1	TEAD4	12	3131079	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	90755	3131079	130720816	948	45024											
CCND2	894	broad.mit.edu	37	chr12	4388038	4388038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagcagcgggagaagctgtCtctgatccgcaagcatgctc	9	7	12	13	2	1	2	0	1	1	1	4	3	2	2	2	1	5	5	2	1	2	0	rs143681287		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:4388038C>T	uc001qmo.2	+	3	829	c.524C>T	c.(523-525)TCT>TTT	p.S175F		NM_001759	NP_001750	P30279	CCND2_HUMAN	cyclin D2	175					cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding			haematopoietic_and_lymphoid_tissue(1)|breast(1)|kidney(1)	3			all cancers(3;4.15e-10)|GBM - Glioblastoma multiforme(3;6.34e-05)|Colorectal(7;0.00245)|OV - Ovarian serous cystadenocarcinoma(31;0.00301)|COAD - Colon adenocarcinoma(12;0.0264)|STAD - Stomach adenocarcinoma(119;0.206)			GAGAAGCTGTCTCTGATCCGC	0.572			T	IGL@	NHL,CLL								13	40					0	0	1	0	0		T	4388038	T	T	4388038	3	4	66	1	0	0	0	0	1	0	0	0	2920	913	32	4	534	4	CCND2	12	4388038	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1256959	4388038	129463857	949	45025											
KCNA1	3736	broad.mit.edu	37	chr12	5020887	5020887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcccctggacatgttctccGaggagatcaagttttacgag	9	11	11	10	2	2	1	1	0	1	1	3	5	2	2	3	2	2	2	3	2	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:5020887G>A	uc001qnh.2	+	2	1448	c.343G>A	c.(343-345)GAG>AAG	p.E115K		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	115					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CATGTTCTCCGAGGAGATCAA	0.632													35	47					0	0	1	0	0		A	5020887	A	A	5020887	3	1	66	1	0	0	0	0	1	0	0	0	8017	1059	37	1	345	1	KCNA1	12	5020887	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	632849	5020887	128831008	950	45026											
C1R	715	broad.mit.edu	37	chr12	7188376	7188376	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagcttcatgagctcttcCacatttgtgtggcccaggaa	8	12	9	12	0	2	1	1	1	1	0	3	2	3	2	3	2	2	2	3	2	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:7188376C>A	uc010sfy.1	-	10	1637	c.1578G>T	c.(1576-1578)GTG>GTT	p.V526V		NM_001733	NP_001724	P00736	C1R_HUMAN	complement component 1, r subcomponent	526	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity				0					Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TGAGCTCTTCCACATTTGTGT	0.572													21	94					7.45023e-12	7.8785e-12	1	1	0		A	7188376	A	A	7188376	2	1	66	1	0	0	0	0	0	0	0	1	1975	581	21	5		5	C1R	12	7188376	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2167489	7188376	126663519	951	45027											
CLEC6A	93978	broad.mit.edu	37	chr12	8618103	8618103	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggatgttgcccagcttctTggaagtcatttggttccagt	6	14	13	8	0	2	0	1	0	1	0	3	2	3	2	2	4	2	3	2	4	1	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:8618103T>C	uc001qum.1	+	4	364	c.247T>C	c.(247-249)TGG>CGG	p.W83R		NM_001007033	NP_001007034	Q6EIG7	CLC6A_HUMAN	dectin-2	83	Extracellular (Potential).				defense response to fungus|innate immune response|positive regulation of cytokine secretion|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	sugar binding			breast(1)	1	Lung SC(5;0.184)					CCCAGCTTCTTGGAAGTCATT	0.398													59	72					0	0	1	0	0		C	8618103	C	C	8618103	3	2	66	1	0	0	0	0	1	0	0	0	3523	1812	63	3	261	3	CLEC6A	12	8618103	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1429727	8618103	125233792	952	45028											
PHC1	1911	broad.mit.edu	37	chr12	9085325	9085325	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctacacacctccagttggcGcagcagcagcagcagcaaca	12	4	10	15	1	0	0	0	0	0	0	1	0	1	0	2	1	7	8	2	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:9085325G>A	uc001qvd.2	+	8	1428	c.1272G>A	c.(1270-1272)GCG>GCA	p.A424A	PHC1_uc001qvc.1_Silent_p.A379A|PHC1_uc010sgn.1_Silent_p.A424A|PHC1_uc001qve.2_Silent_p.A424A	NM_004426	NP_004417	P78364	PHC1_HUMAN	polyhomeotic 1-like	424					multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						TCCAGTTGGCgcagcagcagc	0.458													7	48					0	0	1	0	0		A	9085325	A	A	9085325	2	1	66	1	0	0	0	0	0	0	0	1	11835	1074	38	1		1	PHC1	12	9085325	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	467222	9085325	124766570	953	45029											
CSDA	8531	broad.mit.edu	37	chr12	10862613	10862613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagggcgatactgggggCggcgcagctgattccgggcc	6	6	18	11	4	0	2	0	2	0	0	1	3	1	2	2	5	2	2	2	5	1	2	rs146058214		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:10862613C>T	uc001qyt.2	-	6	917	c.674G>A	c.(673-675)CGC>CAC	p.R225H	CSDA_uc001qyu.2_Intron	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	225					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					ATACTGGGGGCGGCGCAGCTG	0.642													5	36					0	0	1	0	0		T	10862613	T	T	10862613	3	4	66	1	0	0	0	0	1	0	0	0	3930	768	27	1	460	1	CSDA	12	10862613	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1777288	10862613	122989282	954	45030											
TAS2R20	259295	broad.mit.edu	37	chr12	11150028	11150028	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgtccacacatttatataCgtgtgtttcatcacaaggtg	10	15	7	9	1	3	0	2	0	1	0	4	0	4	0	1	1	1	1	1	1	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:11150028C>T	uc001qzm.2	-	1	447	c.447G>A	c.(445-447)ACG>ACA	p.T149T	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176889	NP_795370	P59543	T2R20_HUMAN	taste receptor, type 2, member 20	149	Extracellular (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity				0						CATTTATATACGTGTGTTTCA	0.388													34	163					0	0	1	0	0		T	11150028	T	T	11150028	2	4	66	1	0	0	0	0	0	0	0	1	15596	523	19	1		1	TAS2R20	12	11150028	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	287415	11150028	122701867	955	45031											
DUSP16	80824	broad.mit.edu	37	chr12	12672854	12672854	+	Frame_Shift_Del	DEL	A	-	-																															ttacccagaagtacagtgagAaaacagtctgaagagagaga																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:12672854delA	uc001rao.1	-	3	941	c.309delT	c.(307-309)TTTfs	p.F103fs	DUSP16_uc001ran.1_Frame_Shift_Del_p.F10fs	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	103	Rhodanese.				inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		GTACAGTGAGAAAACAGTCTG	0.443													43	45	---	---	---	---						.	-	12672854	-	-	12672854	7	5	66	1	0	1	0	1	0	0	0	0	4822	243	9	0	1708	0	DUSP16	12	12672854	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	1522826	12672854	121179041	956	45032											
MGST1	4257	broad.mit.edu	37	chr12	16510603	16510603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatgccaagaagtatcttcGaacagatgacagagtagaac	18	7	9	7	1	1	5	0	1	1	4	2	6	1	5	1	0	3	2	1	0	7	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:16510603G>A	uc001rdf.2	+	3	256	c.191G>A	c.(190-192)CGA>CAA	p.R64Q	MGST1_uc001rdg.2_Missense_Mutation_p.R64Q|MGST1_uc009zih.1_RNA|MGST1_uc001rdh.2_Missense_Mutation_p.R64Q|MGST1_uc001rdi.2_Missense_Mutation_p.R64Q	NM_145792	NP_665735	P10620	MGST1_HUMAN	microsomal glutathione S-transferase 1	64	Helical; (By similarity).				protein homotrimerization|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane	glutathione transferase activity				0		Hepatocellular(102;0.121)			Glutathione(DB00143)	AAGTATCTTCGAACAGATGAC	0.363													26	40					0	0	1	0	0		A	16510603	A	A	16510603	3	1	66	1	0	0	0	0	1	0	0	0	9578	1058	37	1	197	1	MGST1	12	16510603	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3837749	16510603	117341292	957	45033											
ITPR2	3709	broad.mit.edu	37	chr12	26493202	26493202	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcattttgctcactgtcGccttcattgctaacgaggga	8	15	8	10	2	3	0	3	0	0	0	4	2	3	1	1	1	3	2	1	1	1	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:26493202G>A	uc001rhg.2	-	56	8334	c.7917C>T	c.(7915-7917)GGC>GGT	p.G2639G		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	2639	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					GCTCACTGTCGCCTTCATTGC	0.488													42	27					0	0	1	0	0		A	26493202	A	A	26493202	2	1	66	1	0	0	0	0	0	0	0	1	7937	1074	38	1		1	ITPR2	12	26493202	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	9982599	26493202	107358693	958	45034											
ITPR2	3709	broad.mit.edu	37	chr12	26848568	26848568	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttcattttgggcatctcGataatcaggattaagctaga	11	14	8	8	1	3	1	2	0	1	1	5	3	4	2	1	2	1	2	1	2	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:26848568G>A	uc001rhg.2	-	10	1384	c.967C>T	c.(967-969)CGA>TGA	p.R323*		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	323	Cytoplasmic (Potential).|MIR 4.				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					TGGGCATCTCGATAATCAGGA	0.303													20	35					0	0	1	0	0		A	26848568	A	A	26848568	4	1	66	1	0	0	0	0	0	1	0	0	7937	1066	37	1	7330	1	ITPR2	12	26848568	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	355366	26848568	107003327	959	45035											
DDX11	1663	broad.mit.edu	37	chr12	31244687	31244687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctatcagatgctgctgcatgCggccactcggcaggccgcgg	6	7	14	14	4	1	1	1	0	0	1	2	1	1	1	2	4	4	4	2	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:31244687C>T	uc001rjt.1	+	10	1375	c.1124C>T	c.(1123-1125)GCG>GTG	p.A375V	DDX11_uc010sjx.1_RNA|DDX11_uc001rjr.1_Missense_Mutation_p.A375V|DDX11_uc001rjs.1_Missense_Mutation_p.A375V|DDX11_uc001rju.1_Missense_Mutation_p.A53V|DDX11_uc001rjv.1_Missense_Mutation_p.A375V|DDX11_uc001rjw.1_Missense_Mutation_p.A349V|DDX11_uc001rjx.1_Missense_Mutation_p.A53V|DDX11_uc009zjn.1_RNA	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	375	Helicase ATP-binding.				G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					CTGCTGCATGCGGCCACTCGG	0.672										Multiple Myeloma(12;0.14)			8	25					0	0	1	0	0		T	31244687	T	T	31244687	3	4	66	1	0	0	0	0	1	0	0	0	4346	768	27	1	1158	1	DDX11	12	31244687	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4396119	31244687	102607208	960	45036											
C12orf35	55196	broad.mit.edu	37	chr12	32136019	32136019	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaatttcaaagcctgctaaCatccacgttaagagtccttg	12	11	8	10	1	1	1	1	0	0	1	3	2	3	2	3	1	3	2	3	1	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:32136019C>T	uc001rks.2	+	4	2544	c.2130C>T	c.(2128-2130)AAC>AAT	p.N710N		NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	710										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			AGCCTGCTAACATCCACGTTA	0.393													25	63					0	0	1	0	0		T	32136019	T	T	32136019	2	4	66	1	0	0	0	0	0	0	0	1	1685	477	17	4		4	C12orf35	12	32136019	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	891332	32136019	101715876	961	45037											
BICD1	636	broad.mit.edu	37	chr12	32480705	32480705	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaattaaggccttaaaggAgaaatataataaatctgtag	19	11	8	3	0	1	2	0	1	1	1	1	3	1	2	1	2	0	1	1	2	10	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:32480705A>G	uc001rku.2	+	5	1397	c.1316A>G	c.(1315-1317)GAG>GGG	p.E439G	BICD1_uc001rkv.2_Missense_Mutation_p.E439G|BICD1_uc010skd.1_RNA	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	439	Potential.				anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			GCCTTAAAGGAGAAATATAAT	0.393													17	35					0	0	1	0	0		G	32480705	G	G	32480705	3	3	66	1	0	0	0	0	1	0	0	0	1429	304	11	3	1334	3	BICD1	12	32480705	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	344686	32480705	101371190	962	45038											
DNM1L	10059	broad.mit.edu	37	chr12	32893450	32893450	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagaaagaatattcaagaCaggttagtattacttaatat	17	13	7	4	0	2	3	2	0	0	3	2	3	2	3	0	1	1	2	0	1	9	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:32893450C>T	uc001rld.2	+	18	2153	c.1992C>T	c.(1990-1992)GAC>GAT	p.D664D	DNM1L_uc001rle.2_Silent_p.D638D|DNM1L_uc001rlf.2_Silent_p.D627D|DNM1L_uc010skh.1_Silent_p.D730D|DNM1L_uc001rlg.2_Silent_p.D719D|DNM1L_uc001rlh.2_Silent_p.D706D|DNM1L_uc010ski.1_Silent_p.D461D	NM_012062	NP_036192	O00429	DNM1L_HUMAN	dynamin 1-like isoform 1	664	GED.|Interaction with GSK3B.				cellular component disassembly involved in apoptosis|mitochondrial fragmentation involved in apoptosis|mitochondrial membrane organization|positive regulation of mitochondrial fission	cis-Golgi network|cytosol|endomembrane system|endoplasmic reticulum|mitochondrial outer membrane	GTP binding|GTPase activity|ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2	Lung NSC(5;2.15e-06)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					ATATTCAAGACAGGTTAGTAT	0.313													11	28					0	0	1	0	0		T	32893450	T	T	32893450	2	4	66	1	0	0	0	0	0	0	0	1	4677	477	17	4		4	DNM1L	12	32893450	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	412745	32893450	100958445	963	45039											
LRRK2	120892	broad.mit.edu	37	chr12	40704239	40704239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctttccctccaggctcgcGcttcttcttcccctgtgatt	2	16	7	16	2	3	1	0	1	3	0	7	1	6	1	4	1	0	2	4	1	0	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:40704239G>A	uc001rmg.3	+	31	4445	c.4324G>A	c.(4324-4326)GCT>ACT	p.A1442T	LRRK2_uc009zjw.2_Missense_Mutation_p.A280T|LRRK2_uc001rmi.2_Missense_Mutation_p.A275T	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1442	Roc.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CCAGGCTCGCGCTTCTTCTTC	0.463													34	58					0	0	1	0	0		A	40704239	A	A	40704239	3	1	66	1	0	0	0	0	1	0	0	0	9051	1087	38	1	4446	1	LRRK2	12	40704239	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	7810789	40704239	93147656	964	45040											
GXYLT1	283464	broad.mit.edu	37	chr12	42491721	42491722	+	Frame_Shift_Ins	INS	-	A	A																															aaataattacctggattatgINSaaaaaacacgatattcaata																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:42491721_42491722insA	uc001rms.3	-	6	1203_1204	c.978_979insT	c.(976-981)TTTCATfs	p.F326fs	GXYLT1_uc001rmt.3_Frame_Shift_Ins_p.F295fs	NM_173601	NP_775872	Q4G148	GXLT1_HUMAN	glycosyltransferase 8 domain containing 3	326_327	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						CCTGGATTATGAAAAAACACGA	0.297													24	52	---	---	---	---						.	A	42491722	A	A	42491721	7	5	66	1	0	1	1	0	0	0	0	0	6919	1290	45	0	355	0	GXYLT1	12	42491721	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	1787482	42491721	91360174	965	45041											
SFRS2IP	9169	broad.mit.edu	37	chr12	46320657	46320658	+	Frame_Shift_Ins	INS	-	G	G																															ctttttgttctacatcttgaINSgggggacctagaatgagatc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:46320657_46320658insG	uc001rox.2	-	11	3113_3114	c.2826_2827insC	c.(2824-2829)CCCTCAfs	p.P942fs	SFRS2IP_uc001row.2_Frame_Shift_Ins_p.P627fs|SFRS2IP_uc001roy.1_Frame_Shift_Ins_p.P1016fs	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	942_943	Arg-rich.				spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		CTACATCTTGAGGGGGACCTAG	0.465													64	145	---	---	---	---						.	G	46320658	G	G	46320657	7	5	66	1	0	1	1	0	0	0	0	0	14202	304	11	0	1584	0	SFRS2IP	12	46320657	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	3828936	46320657	87531238	966	45042											
SLC38A4	55089	broad.mit.edu	37	chr12	47173580	47173580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacctaaatttttaaggagcGaaagtggaagaataattcca	17	11	8	5	1	0	1	0	0	0	1	1	4	1	3	2	2	2	0	2	2	8	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:47173580G>A	uc001rpi.2	-	9	1040	c.641C>T	c.(640-642)TCG>TTG	p.S214L	SLC38A4_uc001rpj.2_Missense_Mutation_p.S214L|SLC38A4_uc009zkl.2_Missense_Mutation_p.S214L	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	214	Helical; (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Lung SC(27;0.192)|Renal(347;0.236)					TTTAAGGAGCGAAAGTGGAAG	0.308													16	44					0	0	1	0	0		A	47173580	A	A	47173580	3	1	66	1	0	0	0	0	1	0	0	0	14631	1059	37	1	1038	1	SLC38A4	12	47173580	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	852923	47173580	86678315	967	45043											
FAM113B	91523	broad.mit.edu	37	chr12	47629705	47629705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggccaacagaaatcacccgGccttacctctgtccccaccc	10	6	6	19	1	2	1	1	0	1	1	3	1	3	1	7	2	2	0	7	2	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:47629705G>A	uc001rpn.2	+	4	1590	c.859G>A	c.(859-861)GCC>ACC	p.A287T	FAM113B_uc010slj.1_Missense_Mutation_p.A167T|FAM113B_uc001rpq.2_Missense_Mutation_p.A287T	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	287	Pro-rich.						hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					AAATCAcccggccttacctct	0.299													3	10					0	0	1	0	0		A	47629705	A	A	47629705	3	1	66	1	0	0	0	0	1	0	0	0	5413	1203	42	2	861	2	FAM113B	12	47629705	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	456125	47629705	86222190	968	45044											
MLL2	8085	broad.mit.edu	37	chr12	49415900	49415900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcaaatgtcacgacttcggCcacacagttaggggcacagg	11	7	12	11	2	2	0	2	0	0	0	3	1	2	0	1	4	0	2	1	4	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:49415900C>T	uc001rta.3	-	53	16447	c.16447G>A	c.(16447-16449)GCC>ACC	p.A5483T		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5483	SET.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						ACGACTTCGGCCACACAGTTA	0.498			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			25	111					0	0	1	0	0		T	49415900	T	T	49415900	3	4	66	1	0	0	0	0	1	0	0	0	9639	739	26	2	174	2	MLL2	12	49415900	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1786195	49415900	84435995	969	45045											
MLL2	8085	broad.mit.edu	37	chr12	49421039	49421039	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtggggccgagagctgtcGcacatccagattggagacat	10	7	15	9	2	0	3	0	0	0	3	2	5	1	3	2	4	1	2	2	4	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:49421039G>A	uc001rta.3	-	48	14710	c.14710C>T	c.(14710-14712)CGA>TGA	p.R4904*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4904					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GAGAGCTGTCGCACATCCAGA	0.612			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			38	69					0	0	1	0	0		A	49421039	A	A	49421039	4	1	66	1	0	0	0	0	0	1	0	0	9639	1095	38	1	1931	1	MLL2	12	49421039	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5139	49421039	84430856	970	45046											
PRPH	5630	broad.mit.edu	37	chr12	49689013	49689013	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccgtcgggcctccgggcCggcttcagctccacctcata	5	7	10	19	4	2	0	2	0	0	0	5	0	4	0	6	3	1	2	6	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:49689013C>T	uc001rtu.2	+	1	105	c.30C>T	c.(28-30)GCC>GCT	p.A10A		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	10	Head.						structural molecule activity				0						GCCTCCGGGCCGGCTTCAGCT	0.692													5	8					0	0	1	0	0		T	49689013	T	T	49689013	2	4	66	1	0	0	0	0	0	0	0	1	12598	639	23	1		1	PRPH	12	49689013	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	267974	49689013	84162882	971	45047											
SPATS2	65244	broad.mit.edu	37	chr12	49883260	49883260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttccagataaatgcggtaCgtgcaatagttcctaataag	13	13	8	7	2	0	1	0	0	0	1	2	1	2	1	2	1	3	3	2	1	7	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:49883260C>T	uc001rud.2	+	5	1107	c.118C>T	c.(118-120)CGT>TGT	p.R40C	SPATS2_uc001rue.2_RNA|SPATS2_uc009zli.1_Missense_Mutation_p.R40C|SPATS2_uc001ruf.2_Missense_Mutation_p.R40C|SPATS2_uc001rug.2_Missense_Mutation_p.R40C	NM_023071	NP_075559	Q86XZ4	SPAS2_HUMAN	spermatogenesis associated, serine-rich 2	40						cytoplasm				breast(1)	1						AAATGCGGTACGTGCAATAGT	0.378													19	33					0	0	1	0	0		T	49883260	T	T	49883260	3	4	66	1	0	0	0	0	1	0	0	0	15044	536	19	1	128	1	SPATS2	12	49883260	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	194247	49883260	83968635	972	45048											
KRT84	3890	broad.mit.edu	37	chr12	52779183	52779183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctacagctgctatccgggGtgagtacgatccaaaggtga	10	8	13	10	2	0	2	0	2	0	0	2	3	2	2	3	3	4	3	3	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:52779183G>A	uc001sah.1	-	1	235	c.187C>T	c.(187-189)CCC>TCC	p.P63S		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	63	Head.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		GCTATCCGGGGTGAGTACGAT	0.597													20	40					0	0	1	0	0		A	52779183	A	A	52779183	3	1	66	1	0	0	0	0	1	0	0	0	8514	1261	44	4	1651	4	KRT84	12	52779183	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2895923	52779183	81072712	973	45049											
KRT5	3852	broad.mit.edu	37	chr12	52912851	52912851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatgtactgctcgaacaacgGctccaggttctgcctcacag	9	9	10	13	2	2	0	1	0	1	0	4	2	3	0	2	2	5	4	2	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:52912851G>A	uc001san.2	-	2	812	c.649C>T	c.(649-651)CCG>TCG	p.P217S	KRT5_uc009zmh.2_Missense_Mutation_p.P217S	NM_000424	NP_000415	P13647	K2C5_HUMAN	keratin 5	217	Rod.|Linker 1.				epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		TCGAACAACGGCTCCAGGTTC	0.602													36	75					0	0	1	0	0		A	52912851	A	A	52912851	3	1	66	1	0	0	0	0	1	0	0	0	8495	1203	42	2	1155	2	KRT5	12	52912851	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	133668	52912851	80939044	974	45050											
ESPL1	9700	broad.mit.edu	37	chr12	53685587	53685587	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgaatgaggcagtaggAcgtctacagggcctgacagt	10	8	13	10	1	1	3	0	3	1	0	2	4	2	4	2	3	1	2	2	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:53685587A>G	uc001sck.2	+	26	5725	c.5634A>G	c.(5632-5634)GGA>GGG	p.G1878G	ESPL1_uc001scj.2_Silent_p.G1553G	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1878					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						AGGCAGTAGGACGTCTACAGG	0.612													32	71					0	0	1	0	0		G	53685587	G	G	53685587	2	3	66	1	0	0	0	0	0	0	0	1	5261	262	10	3		3	ESPL1	12	53685587	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	772736	53685587	80166308	975	45051											
HOXC5	3222	broad.mit.edu	37	chr12	54428098	54428098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcccgaaccagttacacgcGctaccagactctggaactcg	10	7	9	15	4	1	1	0	0	1	1	3	3	2	2	3	1	4	2	3	1	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:54428098G>A	uc001sew.2	+	2	566	c.491G>A	c.(490-492)CGC>CAC	p.R164H	HOXC5_uc001set.2_RNA|HOXC4_uc001seu.2_Intron	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	164	Homeobox.				regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGTTACACGCGCTACCAGACT	0.562													29	66					0	0	1	0	0		A	54428098	A	A	54428098	3	1	66	1	0	0	0	0	1	0	0	0	7330	1087	38	1	497	1	HOXC5	12	54428098	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	742511	54428098	79423797	976	45052											
NFE2	4778	broad.mit.edu	37	chr12	54686848	54686848	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgagggataatcctgagtcGgattctgggtcttcttgggg	6	14	15	6	1	3	2	0	2	3	0	5	4	4	4	1	5	0	0	1	5	1	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:54686848G>A	uc009znk.2	-	2	942	c.432C>T	c.(430-432)TCC>TCT	p.S144S	NFE2_uc001sfq.2_Silent_p.S144S|NFE2_uc001sfr.3_Silent_p.S144S|NFE2_uc009znl.2_Silent_p.S144S	NM_006163	NP_006154	Q16621	NFE2_HUMAN	nuclear factor, erythroid derived 2 isoform 1	144	Transactivation domain.				blood circulation|blood coagulation|multicellular organismal development|nucleosome disassembly|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	actin cytoskeleton|cytoplasm|PML body	protein dimerization activity|protein N-terminus binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|WW domain binding				0						ATCCTGAGTCGGATTCTGGGT	0.587													25	89					0	0	1	0	0		A	54686848	A	A	54686848	2	1	66	1	0	0	0	0	0	0	0	1	10385	1103	39	1		1	NFE2	12	54686848	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	258750	54686848	79165047	977	45053											
LRP1	4035	broad.mit.edu	37	chr12	57571281	57571281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatgagtggggctgggcGccgcaccgtgcaccgggaga	6	5	17	13	4	0	2	0	1	0	1	1	3	1	2	4	4	1	3	4	4	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:57571281G>A	uc001snd.2	+	26	4734	c.4268G>A	c.(4267-4269)CGC>CAC	p.R1423H		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1423	LDL-receptor class B 10.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity	p.R1423C(1)		ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GGGGCTGGGCGCCGCACCGTG	0.667													11	31					0	0	1	0	0		A	57571281	A	A	57571281	3	1	66	1	0	0	0	0	1	0	0	0	8969	1087	38	1	4370	1	LRP1	12	57571281	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2884433	57571281	76280614	978	45054											
LRP1	4035	broad.mit.edu	37	chr12	57573274	57573274	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgtgtactggtctgacgTgcggacacaggccatcaagc	8	8	14	11	3	2	1	1	1	1	0	2	2	2	2	1	3	3	1	1	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:57573274T>C	uc001snd.2	+	29	5367	c.4901T>C	c.(4900-4902)GTG>GCG	p.V1634A		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1634	LDL-receptor class B 13.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TGGTCTGACGTGCGGACACAG	0.587													9	26					0	0	1	0	0		C	57573274	C	C	57573274	3	2	66	1	0	0	0	0	1	0	0	0	8969	1696	59	3	5015	3	LRP1	12	57573274	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1993	57573274	76278621	979	45055											
MARS	4141	broad.mit.edu	37	chr12	57906729	57906729	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgagctgcttaacaaccTgggcaacttcatcaacaggt	11	11	8	11	0	3	1	2	1	1	0	3	1	3	1	1	2	6	3	1	2	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:57906729T>C	uc001sog.2	+	15	1972	c.1949T>C	c.(1948-1950)CTG>CCG	p.L650P	MARS_uc001sof.1_RNA|MARS_uc010srq.1_Missense_Mutation_p.L416P|MARS_uc001soh.1_Missense_Mutation_p.L45P	NM_004990	NP_004981	P56192	SYMC_HUMAN	methionyl-tRNA synthetase	650					methionyl-tRNA aminoacylation	cytosol	ATP binding|methionine-tRNA ligase activity|protein binding|tRNA binding			ovary(3)|central_nervous_system(1)|pancreas(1)	5			GBM - Glioblastoma multiforme(3;4.27e-41)		L-Methionine(DB00134)	CTTAACAACCTGGGCAACTTC	0.527													30	86					0	0	1	0	0		C	57906729	C	C	57906729	3	2	66	1	0	0	0	0	1	0	0	0	9334	1580	55	3	2007	3	MARS	12	57906729	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	333455	57906729	75945166	980	45056											
B4GALNT1	2583	broad.mit.edu	37	chr12	58022542	58022542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtaggggccactaacgCgctctggcttgtcgctgtcg	5	9	13	14	5	1	0	0	0	1	0	3	0	1	0	2	3	1	4	2	3	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:58022542C>T	uc001spg.1	-	8	1388	c.956G>A	c.(955-957)CGC>CAC	p.R319H	B4GALNT1_uc010sru.1_Missense_Mutation_p.R264H|B4GALNT1_uc010srv.1_Missense_Mutation_p.R286H	NM_001478	NP_001469	Q00973	B4GN1_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 1	319	Lumenal (Potential).				lipid glycosylation	integral to Golgi membrane|membrane fraction	(N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase activity				0	Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			GCCACTAACGCGCTCTGGCTT	0.607													7	38					0	0	1	0	0		T	58022542	T	T	58022542	3	4	66	1	0	0	0	0	1	0	0	0	1267	768	27	1	661	1	B4GALNT1	12	58022542	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	115813	58022542	75829353	981	45057											
PPM1H	57460	broad.mit.edu	37	chr12	63042385	63042385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcagcacaccccgggcacGcatcaccaggtcctgagctg	8	6	10	17	2	2	1	2	1	0	0	3	1	3	1	4	2	2	4	4	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:63042385G>A	uc001srk.3	-	10	1578	c.1429C>T	c.(1429-1431)CGT>TGT	p.R477C		NM_020700	NP_065751	Q9ULR3	PPM1H_HUMAN	protein phosphatase 1H (PP2C domain containing)	477	PP2C-like.						phosphoprotein phosphatase activity			lung(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;0.000443)|BRCA - Breast invasive adenocarcinoma(9;0.209)	GBM - Glioblastoma multiforme(28;0.0126)		CCCCGGGCACGCATCACCAGG	0.527													12	38					0	0	1	0	0		A	63042385	A	A	63042385	3	1	66	1	0	0	0	0	1	0	0	0	12363	1087	38	1	119	1	PPM1H	12	63042385	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5019843	63042385	70809510	982	45058											
SRGAP1	57522	broad.mit.edu	37	chr12	64458914	64458914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaggtgtgccaggtcagtgCccagcagccagtccaggcag	8	6	14	13	0	2	0	2	0	0	0	3	0	3	0	4	3	4	2	4	3	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:64458914C>T	uc010ssp.1	+	8	1096	c.1040C>T	c.(1039-1041)GCC>GTC	p.A347V	SRGAP1_uc001srt.2_Missense_Mutation_p.A347V|SRGAP1_uc001srv.2_Missense_Mutation_p.A307V	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	347					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		CAGGTCAGTGCCCAGCAGCCA	0.532													7	13					0	0	1	0	0		T	64458914	T	T	64458914	3	4	66	1	0	0	0	0	1	0	0	0	15170	739	26	2	1070	2	SRGAP1	12	64458914	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1416529	64458914	69392981	983	45059											
C12orf66	144577	broad.mit.edu	37	chr12	64609707	64609707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaatgaagtatagatggtgCggatggaatccttcctgctg	10	11	13	7	1	0	2	0	1	0	1	2	4	2	4	2	3	2	3	2	3	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:64609707C>T	uc001srw.3	-	2	331	c.272G>A	c.(271-273)CGC>CAC	p.R91H	C12orf66_uc009zql.2_Missense_Mutation_p.R38H	NM_152440	NP_689653	Q96MD2	CL066_HUMAN	hypothetical protein LOC144577	91										ovary(1)	1						ATAGATGGTGCGGATGGAATC	0.507													4	22					0	0	1	0	0		T	64609707	T	T	64609707	3	4	66	1	0	0	0	0	1	0	0	0	1712	768	27	1	1073	1	C12orf66	12	64609707	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	150793	64609707	69242188	984	45060											
IRAK3	11213	broad.mit.edu	37	chr12	66641588	66641588	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcctggagaatgtaccaagTattccagtggaagatgatga	13	11	11	6	0	0	4	0	2	0	2	2	6	2	5	3	2	1	2	3	2	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:66641588T>C	uc001sth.2	+	12	1530	c.1428T>C	c.(1426-1428)AGT>AGC	p.S476S	IRAK3_uc010ssy.1_Silent_p.S415S	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	476					interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		ATGTACCAAGTATTCCAGTGG	0.413													29	57					0	0	1	0	0		C	66641588	C	C	66641588	2	2	66	1	0	0	0	0	0	0	0	1	7840	1635	57	3		3	IRAK3	12	66641588	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2031881	66641588	67210307	985	45061											
GRIP1	23426	broad.mit.edu	37	chr12	66773080	66773080	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccactggctgtggaccggtcCcagtcttcataactcagccc	7	9	9	16	1	3	0	2	0	1	0	4	1	4	1	4	3	2	1	4	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:66773080C>A	uc001stk.2	-	19	2686	c.2445G>T	c.(2443-2445)TGG>TGT	p.W815C	GRIP1_uc010sta.1_Missense_Mutation_p.W759C|GRIP1_uc001stj.2_Missense_Mutation_p.W597C|GRIP1_uc001stl.1_Missense_Mutation_p.W707C|GRIP1_uc001stm.2_Missense_Mutation_p.W815C	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	867					androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		TGGACCGGTCCCAGTCTTCAT	0.517													52	109					9.87224e-16	1.05663e-15	1	1	0		A	66773080	A	A	66773080	3	1	66	1	0	0	0	0	1	0	0	0	6803	624	22	5	809	5	GRIP1	12	66773080	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	131492	66773080	67078815	986	45062											
NUP107	57122	broad.mit.edu	37	chr12	69126428	69126428	+	Frame_Shift_Del	DEL	A	-	-																															aataaataggaggatcgtttAaaaattgatgtaattgactg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:69126428delA	uc001suf.2	+	23	2125	c.2010delA	c.(2008-2010)TTAfs	p.L670fs	NUP107_uc001sug.2_Frame_Shift_Del_p.L429fs|NUP107_uc010stj.1_Frame_Shift_Del_p.L641fs	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	670					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			AGGATCGTTTAAAAATTGATG	0.318													13	29	---	---	---	---						.	-	69126428	-	-	69126428	7	5	66	1	0	1	0	1	0	0	0	0	10772	359	13	0	2100	0	NUP107	12	69126428	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	2353348	69126428	64725467	987	45063											
LYZ	4069	broad.mit.edu	37	chr12	69743886	69743886	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaaaaataagttcttttcAgggatgtgtttggccaaatg	13	14	9	5	0	2	0	1	0	1	0	2	1	2	1	1	2	0	2	1	2	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:69743886A>G	uc001suw.2	+	2	192	c.137_splice	c.e2-2	p.W46_splice		NM_000239	NP_000230	P61626	LYSC_HUMAN	lysozyme precursor						cell wall macromolecule catabolic process|cytolysis|defense response to bacterium|inflammatory response	extracellular space	lysozyme activity|protein binding				0	all_epithelial(5;2.98e-35)|Lung NSC(4;9.93e-33)|all_lung(4;5.66e-31)|Breast(13;2.56e-06)|Esophageal squamous(21;0.187)		Epithelial(6;8.26e-19)|BRCA - Breast invasive adenocarcinoma(5;8.5e-10)|Lung(24;9.68e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00503)|OV - Ovarian serous cystadenocarcinoma(12;0.00691)|LUSC - Lung squamous cell carcinoma(43;0.24)|Kidney(9;0.241)			AGTTCTTTTCAGGGATGTGTT	0.348													16	56					0	0	1	0	0		G	69743886	G	G	69743886	5	3	66	1	0	0	0	0	0	0	1	0	9148	202	7	3	141	3	LYZ	12	69743886	Splice_Site	SNP	A	TCGA-BR-8361-01A-11D-2340-08	617458	69743886	64108009	988	45064											
ZFC3H1	196441	broad.mit.edu	37	chr12	72027125	72027125	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgttctgtaagttttgtAatctttgcttcagcatttct	7	20	7	7	0	4	0	1	0	3	0	4	0	4	0	0	0	3	7	0	0	2	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:72027125A>G	uc001swo.2	-	13	2963	c.2604T>C	c.(2602-2604)ATT>ATC	p.I868I		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	868	Potential.				RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						TAAGTTTTGTAATCTTTGCTT	0.289													6	14					0	0	1	0	0		G	72027125	G	G	72027125	2	3	66	1	0	0	0	0	0	0	0	1	17658	358	13	3		3	ZFC3H1	12	72027125	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2283239	72027125	61824770	989	45065											
ZFC3H1	196441	broad.mit.edu	37	chr12	72038781	72038781	+	Frame_Shift_Del	DEL	T	-	-																															tgctgttctttttgttgccaTtttttactggctgactgaag																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:72038781delT	uc001swo.2	-	4	1514	c.1155delA	c.(1153-1155)AAAfs	p.K385fs		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	385	Potential.				RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						TTTGTTGCCATTTTTTACTGG	0.348													15	29	---	---	---	---						.	-	72038781	-	-	72038781	7	5	66	1	0	1	0	1	0	0	0	0	17658	1490	52	0	4942	0	ZFC3H1	12	72038781	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	11656	72038781	61813114	990	45066											
SYT1	6857	broad.mit.edu	37	chr12	79693174	79693174	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttaatttaggtaccatactCggaattgggtggcaaaaccc	12	12	9	8	1	0	0	0	0	0	0	1	1	0	1	2	4	3	2	2	4	7	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:79693174C>T	uc001sys.2	+	9	1324	c.653C>T	c.(652-654)TCG>TTG	p.S218L	SYT1_uc001syt.2_Missense_Mutation_p.S218L|SYT1_uc001syu.2_Missense_Mutation_p.S215L|SYT1_uc001syv.2_Missense_Mutation_p.S218L	NM_001135805	NP_001129277	P21579	SYT1_HUMAN	synaptotagmin I	218	Cytoplasmic (Potential).|Phospholipid binding (Probable).|C2 1.				detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6						GTACCATACTCGGAATTGGGT	0.343													38	104					0	0	1	0	0		T	79693174	T	T	79693174	3	4	66	1	0	0	0	0	1	0	0	0	15490	893	31	1	671	1	SYT1	12	79693174	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	7654393	79693174	54158721	991	45067											
C12orf26	84190	broad.mit.edu	37	chr12	82752388	82752388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaccccggacctgcccaCgctgcgtgccaagttgcagg	6	6	14	15	3	0	1	0	1	0	0	0	2	0	2	5	3	4	3	5	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:82752388C>T	uc001szq.2	+	1	65	c.44C>T	c.(43-45)ACG>ATG	p.T15M	CCDC59_uc001szp.3_5'Flank	NM_032230	NP_115606	Q8N6Q8	CL026_HUMAN	hypothetical protein LOC84190	15											0						GACCTGCCCACGCTGCGTGCC	0.622											OREG0022008	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	30					0	0	1	0	0		T	82752388	T	T	82752388	3	4	66	1	0	0	0	0	1	0	0	0	1682	536	19	1	46	1	C12orf26	12	82752388	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3059214	82752388	51099507	992	45068											
CEP290	80184	broad.mit.edu	37	chr12	88453675	88453675	+	Frame_Shift_Del	DEL	T	-	-																															atcagtcataaaagtcatacTtttttaagttctttacgaag																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:88453675delT	uc001tar.2	-	48	6989	c.6645delA	c.(6643-6645)AAAfs	p.K2215fs	CEP290_uc001taq.2_Frame_Shift_Del_p.K1275fs	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	2215	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						AAAGTCATACTTTTTTAAGTT	0.333													5	6	---	---	---	---						.	-	88453675	-	-	88453675	7	5	66	1	0	1	0	1	0	0	0	0	3256	1623	56	0	822	0	CEP290	12	88453675	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	5701287	88453675	45398220	993	45069											
TMTC3	160418	broad.mit.edu	37	chr12	88553984	88553984	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaggaatttgctgtgtgtAtgaagtgtttattgcccagg	8	16	13	4	0	0	1	0	1	0	0	0	2	0	2	1	2	2	4	1	2	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:88553984A>G	uc001tau.2	+	5	822	c.602A>G	c.(601-603)TAT>TGT	p.Y201C	TMTC3_uc009zsm.2_RNA	NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat	201	Helical; (Potential).			Y -> C (in Ref. 3; BAC11325).		integral to membrane	binding			skin(1)	1						TGCTGTGTGTATGAAGTGTTT	0.294													6	128					0	0	1	0	0		G	88553984	G	G	88553984	3	3	66	1	0	0	0	0	1	0	0	0	16287	449	16	3	616	3	TMTC3	12	88553984	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	100309	88553984	45297911	994	45070											
C12orf12	196477	broad.mit.edu	37	chr12	91347369	91347369	+	Frame_Shift_Del	DEL	A	-	-																															gaattatctgctctgggtttAaaaaagtgcagcttataaag																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:91347369delA	uc001tbj.2	-	1	1585	c.1151delT	c.(1150-1152)TTAfs	p.L384fs		NM_152638	NP_689851	Q8TC90	CL012_HUMAN	hypothetical protein LOC196477	384										central_nervous_system(1)|pancreas(1)	2						CTCTGGGTTTAAAAAAGTGCA	0.423													29	58	---	---	---	---						.	-	91347369	-	-	91347369	7	5	66	1	0	1	0	1	0	0	0	0	1679	372	13	0	73	0	C12orf12	12	91347369	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	2793385	91347369	42504526	995	45071											
C12orf12	196477	broad.mit.edu	37	chr12	91348142	91348142	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccagggttccaggacccGctccagcaggagcagcagca	10	3	13	15	1	0	0	0	0	0	0	2	2	2	2	4	3	5	6	4	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:91348142G>A	uc001tbj.2	-	1	812	c.378C>T	c.(376-378)AGC>AGT	p.S126S		NM_152638	NP_689851	Q8TC90	CL012_HUMAN	hypothetical protein LOC196477	126										central_nervous_system(1)|pancreas(1)	2						TCCAGGACCCGCTCCAGCAGG	0.677													9	26					0	0	1	0	0		A	91348142	A	A	91348142	2	1	66	1	0	0	0	0	0	0	0	1	1679	1078	38	1		1	C12orf12	12	91348142	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	773	91348142	42503753	996	45072											
DCN	1634	broad.mit.edu	37	chr12	91572154	91572154	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccactcgaagatggcatTgacagcggaaggggcacact	12	5	14	10	2	0	2	0	1	0	1	1	5	0	4	1	5	1	2	1	5	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:91572154T>C	uc001tbs.2	-	1	270	c.176A>G	c.(175-177)CAA>CGA	p.Q59R	DCN_uc001tbo.2_Missense_Mutation_p.Q59R|DCN_uc001tbp.2_Missense_Mutation_p.Q59R|DCN_uc001tbq.2_Missense_Mutation_p.Q59R|DCN_uc001tbr.2_Missense_Mutation_p.Q59R|DCN_uc001tbt.2_Missense_Mutation_p.Q59R|DCN_uc001tbu.2_Missense_Mutation_p.Q59R	NM_133503	NP_598010	P07585	PGS2_HUMAN	decorin isoform a preproprotein	59	Cys-rich.				organ morphogenesis	extracellular space				central_nervous_system(2)|ovary(1)|lung(1)	4						AAGATGGCATTGACAGCGGAA	0.507											OREG0022021	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	38	85					0	0	1	0	0		C	91572154	C	C	91572154	3	2	66	1	0	0	0	0	1	0	0	0	4300	1812	63	3	931	3	DCN	12	91572154	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	224012	91572154	42279741	997	45073											
USP44	84101	broad.mit.edu	37	chr12	95926869	95926869	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagaccacatgacttggaaCaaagtatgcaattcatgaca	16	8	7	10	0	1	3	1	2	0	1	1	4	1	4	2	1	2	2	2	1	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:95926869C>T	uc001teg.2	-	2	1308	c.1164G>A	c.(1162-1164)TTG>TTA	p.L388L	USP44_uc001teh.2_Silent_p.L388L|USP44_uc009zte.2_Silent_p.L385L	NM_001042403	NP_001035862	Q9H0E7	UBP44_HUMAN	ubiquitin thiolesterase 44	388					anaphase|cell division|mitosis|negative regulation of mitotic anaphase-promoting complex activity|protein deubiquitination|regulation of spindle checkpoint|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)|breast(1)|central_nervous_system(1)	3						TGACTTGGAACAAAGTATGCA	0.453													30	86					0	0	1	0	0		T	95926869	T	T	95926869	2	4	66	1	0	0	0	0	0	0	0	1	17101	477	17	4		4	USP44	12	95926869	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4354715	95926869	37925026	998	45074											
ANKS1B	56899	broad.mit.edu	37	chr12	99446957	99446958	+	Frame_Shift_Ins	INS	-	T	T																															aataagttcaacctcccagaINStttttttcaacaggtccatc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:99446957_99446958insT	uc001tge.1	-	17	3172_3173	c.2755_2756insA	c.(2755-2757)ATCfs	p.I919fs	ANKS1B_uc001tgf.1_Frame_Shift_Ins_p.I495fs|ANKS1B_uc001tgk.2_Frame_Shift_Ins_p.I216fs|ANKS1B_uc001tgd.1_Frame_Shift_Ins_p.I145fs|ANKS1B_uc001tgi.2_Frame_Shift_Ins_p.I145fs|ANKS1B_uc009ztr.2_Frame_Shift_Ins_p.I145fs|ANKS1B_uc001tgj.2_Frame_Shift_Ins_p.I145fs|ANKS1B_uc001tgg.3_Frame_Shift_Ins_p.I88fs|ANKS1B_uc010svg.1_Frame_Shift_Ins_p.I114fs|ANKS1B_uc009zts.1_Frame_Shift_Ins_p.I145fs|ANKS1B_uc001tgm.1_Frame_Shift_Ins_p.I145fs	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	919	SAM 2.					Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		AACCTCCCAGATTTTTTTCAAC	0.371													8	14	---	---	---	---						.	T	99446958	T	T	99446957	7	5	66	1	0	1	1	0	0	0	0	0	689	333	12	0	1221	0	ANKS1B	12	99446957	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	3520088	99446957	34404938	999	45075											
NR1H4	9971	broad.mit.edu	37	chr12	100930806	100930806	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgtacaggttcttgtagaAttcacaaaaaagctaccagg	15	10	8	8	0	2	1	1	0	1	1	2	1	2	1	1	2	3	4	1	2	7	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:100930806A>C	uc001tht.1	+	6	970	c.942A>C	c.(940-942)GAA>GAC	p.E314D	NR1H4_uc001thp.1_Missense_Mutation_p.E300D|NR1H4_uc001thq.1_Missense_Mutation_p.E304D|NR1H4_uc010svj.1_RNA|NR1H4_uc001thr.1_Missense_Mutation_p.E304D|NR1H4_uc010svk.1_Missense_Mutation_p.E253D|NR1H4_uc001ths.1_Missense_Mutation_p.E310D	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	314	Ligand-binding.				bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						TTCTTGTAGAATTCACAAAAA	0.189													63	116					0	0	1	0	0		C	100930806	C	C	100930806	3	2	66	1	0	0	0	0	1	0	0	0	10638	98	4	5	922	5	NR1H4	12	100930806	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1483849	100930806	32921089	1000	45076											
UTP20	27340	broad.mit.edu	37	chr12	101720873	101720873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcagaattttgtatgggcGaatgaagaataagactggga	14	12	12	3	1	1	4	1	1	0	3	1	6	1	5	0	2	0	1	0	2	6	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:101720873G>A	uc001tia.1	+	26	3212	c.3056G>A	c.(3055-3057)CGA>CAA	p.R1019Q		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1019					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TTGTATGGGCGAATGAAGAAT	0.438													22	46					0	0	1	0	0		A	101720873	A	A	101720873	3	1	66	1	0	0	0	0	1	0	0	0	17125	1058	37	1	3158	1	UTP20	12	101720873	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	790067	101720873	32131022	1001	45077											
TCP11L2	255394	broad.mit.edu	37	chr12	106729456	106729456	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaatggataaaagaatctgTaaatgaagaattattttctc	18	13	7	3	0	2	4	0	1	2	3	3	5	2	5	0	1	0	1	0	1	9	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:106729456T>C	uc001tln.2	+	7	986	c.812T>C	c.(811-813)GTA>GCA	p.V271A		NM_152772	NP_689985	Q8N4U5	T11L2_HUMAN	t-complex 11 (mouse) like 2	271										ovary(3)	3						AAAGAATCTGTAAATGAAGAA	0.403													14	33					0	0	1	0	0		C	106729456	C	C	106729456	3	2	66	1	0	0	0	0	1	0	0	0	15740	1638	57	3	834	3	TCP11L2	12	106729456	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	5008583	106729456	27122439	1002	45078											
POLR3B	55703	broad.mit.edu	37	chr12	106890644	106890644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtgtgtgaggacctcgttCgccatggttataactacttg	8	14	11	8	2	0	1	0	1	0	0	2	2	0	2	2	2	2	2	2	2	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:106890644C>T	uc001tlp.2	+	25	3154	c.2932C>T	c.(2932-2934)CGC>TGC	p.R978C	POLR3B_uc001tlq.2_Missense_Mutation_p.R920C	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	978				R -> C (in Ref. 2; BAA91527).	innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						GGACCTCGTTCGCCATGGTTA	0.488													31	53					0	0	1	0	0		T	106890644	T	T	106890644	3	4	66	1	0	0	0	0	1	0	0	0	12248	884	31	1	3030	1	POLR3B	12	106890644	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	161188	106890644	26961251	1003	45079											
CRY1	1407	broad.mit.edu	37	chr12	107391121	107391121	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagaatatcccatgaaGcctccattcccattaggatt	11	12	6	12	0	1	2	0	1	1	1	4	3	4	3	4	1	2	1	4	1	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:107391121G>A	uc001tmi.3	-	10	2395	c.1536C>T	c.(1534-1536)GGC>GGT	p.G512G		NM_004075	NP_004066	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	512					DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			ovary(3)	3						ATCCCATGAAGCCTCCATTCC	0.343													65	151					0	0	1	0	0		A	107391121	A	A	107391121	2	1	66	1	0	0	0	0	0	0	0	1	3906	958	34	2		2	CRY1	12	107391121	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	500477	107391121	26460774	1004	45080											
CMKLR1	1240	broad.mit.edu	37	chr12	108686070	108686070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggaagccacagaggaagcGggtgacagtcaccaccatgt	13	4	13	11	1	1	2	1	1	0	1	1	4	1	4	3	3	2	0	3	3	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:108686070G>A	uc009zuw.2	-	3	861	c.670C>T	c.(670-672)CGC>TGC	p.R224C	CMKLR1_uc001tmw.2_Missense_Mutation_p.R224C|CMKLR1_uc001tmv.2_Missense_Mutation_p.R222C|CMKLR1_uc009zuv.2_Missense_Mutation_p.R224C	NM_001142345	NP_001135817	Q99788	CML1_HUMAN	chemokine-like receptor 1 isoform a	224	Extracellular (Potential).				chemotaxis|immune response|negative regulation of interleukin-12 production|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage chemotaxis|regulation of calcium-mediated signaling|skeletal system development	integral to plasma membrane	chemokine receptor activity			lung(3)|ovary(1)|pancreas(1)	5						CAGAGGAAGCGGGTGACAGTC	0.582													10	29					0	0	1	0	0		A	108686070	A	A	108686070	3	1	66	1	0	0	0	0	1	0	0	0	3582	1116	39	1	455	1	CMKLR1	12	108686070	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1294949	108686070	25165825	1005	45081											
FICD	11153	broad.mit.edu	37	chr12	108912785	108912785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgggctacgtggaccccGtggaagccggcaggtttcgg	5	8	17	11	4	0	0	0	0	0	0	1	2	0	2	3	6	3	4	3	6	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:108912785G>A	uc001tmx.1	+	3	1056	c.910G>A	c.(910-912)GTG>ATG	p.V304M		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	304	Fido.				negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0						CGTGGACCCCGTGGAAGCCGG	0.592													16	28					0	0	1	0	0		A	108912785	A	A	108912785	3	1	66	1	0	0	0	0	1	0	0	0	5901	1145	40	1	916	1	FICD	12	108912785	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	226715	108912785	24939110	1006	45082											
MVK	4598	broad.mit.edu	37	chr12	110019240	110019240	+	Frame_Shift_Del	DEL	C	-	-																															tcgtagtgtggtcggagctgCcccccggggcgggcttgggc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:110019240delC	uc001toy.3	+	5	596	c.412delC	c.(412-414)CCCfs	p.P138fs	MVK_uc009zvk.2_Frame_Shift_Del_p.P138fs|MVK_uc010sxr.1_Intron|MVK_uc001toz.3_Intron|MVK_uc001tpc.3_RNA	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase	138	ATP (By similarity).				cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0						GTCGGAGCTGCCCCCCGGGGC	0.667													17	35	---	---	---	---						.	-	110019240	-	-	110019240	7	5	66	1	0	1	0	1	0	0	0	0	10013	739	26	0	426	0	MVK	12	110019240	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	1106455	110019240	23832655	1007	45083											
HVCN1	84329	broad.mit.edu	37	chr12	111088053	111088053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttaaccttaagagttgccGttctgaacgtgtcttaactg	9	16	8	8	2	2	2	0	1	2	1	2	2	2	2	2	0	4	2	2	0	4	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:111088053G>A	uc001trs.1	-	7	841	c.676C>T	c.(676-678)CGG>TGG	p.R226W	HVCN1_uc001trq.1_Missense_Mutation_p.R226W|HVCN1_uc001trt.1_Missense_Mutation_p.R226W|HVCN1_uc010syd.1_Missense_Mutation_p.R206W	NM_032369	NP_115745	Q96D96	HVCN1_HUMAN	hydrogen voltage-gated channel 1	226	Cytoplasmic (Potential).|Potential.				response to pH|response to zinc ion	integral to membrane	voltage-gated proton channel activity			skin(1)	1						AAGAGTTGCCGTTCTGAACGT	0.398													20	44					0	0	1	0	0		A	111088053	A	A	111088053	3	1	66	1	0	0	0	0	1	0	0	0	7478	1144	40	1	153	1	HVCN1	12	111088053	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1068813	111088053	22763842	1008	45084											
HVCN1	84329	broad.mit.edu	37	chr12	111099069	111099069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcaacgtcaggggctgcaGctctgccttcctcgcctgag	5	8	14	14	2	2	1	1	1	1	0	4	1	3	1	3	3	4	4	3	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:111099069G>A	uc001trs.1	-	4	371	c.206C>T	c.(205-207)GCT>GTT	p.A69V	HVCN1_uc001trq.1_Missense_Mutation_p.A69V|HVCN1_uc001trt.1_Missense_Mutation_p.A69V|HVCN1_uc010syd.1_Missense_Mutation_p.A49V	NM_032369	NP_115745	Q96D96	HVCN1_HUMAN	hydrogen voltage-gated channel 1	69	Cytoplasmic (Potential).				response to pH|response to zinc ion	integral to membrane	voltage-gated proton channel activity			skin(1)	1						AGGGGCTGCAGCTCTGCCTTC	0.517													13	39					0	0	1	0	0		A	111099069	A	A	111099069	3	1	66	1	0	0	0	0	1	0	0	0	7478	971	34	2	635	2	HVCN1	12	111099069	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	11016	111099069	22752826	1009	45085											
CCDC63	160762	broad.mit.edu	37	chr12	111317756	111317756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccactaatgccaagctccGgaaggagattgaagacctac	14	6	10	11	1	0	3	0	1	0	2	1	6	1	4	4	2	3	1	4	2	5	3	rs142788118		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:111317756G>A	uc001trv.1	+	6	731	c.536G>A	c.(535-537)CGG>CAG	p.R179Q	CCDC63_uc009zvt.1_Intron|CCDC63_uc010sye.1_Missense_Mutation_p.R139Q|CCDC63_uc001trw.1_Missense_Mutation_p.R94Q	NM_152591	NP_689804	Q8NA47	CCD63_HUMAN	coiled-coil domain containing 63	179	Potential.									skin(6)|ovary(1)|pancreas(1)	8						GCCAAGCTCCGGAAGGAGATT	0.448													61	104					0	0	1	0	0		A	111317756	A	A	111317756	3	1	66	1	0	0	0	0	1	0	0	0	2837	1116	39	1	554	1	CCDC63	12	111317756	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	218687	111317756	22534139	1010	45086											
OAS2	4939	broad.mit.edu	37	chr12	113416586	113416586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccctggtgcagggagtggCcatagtgagtccagggctga	7	7	16	11	0	0	2	0	2	0	0	1	3	1	3	4	4	1	2	4	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:113416586C>T	uc001tuj.2	+	1	313	c.173C>T	c.(172-174)GCC>GTC	p.A58V	OAS2_uc001tuh.2_Missense_Mutation_p.A58V|OAS2_uc001tui.1_Missense_Mutation_p.A58V	NM_016817	NP_058197	P29728	OAS2_HUMAN	2'-5'-oligoadenylate synthetase 2 isoform 1	58	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|membrane|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(1)	1						CAGGGAGTGGCCATAGTGAGT	0.587													6	16					0	0	1	0	0		T	113416586	T	T	113416586	3	4	66	1	0	0	0	0	1	0	0	0	10819	739	26	2	175	2	OAS2	12	113416586	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2098830	113416586	20435309	1011	45087											
DDX54	79039	broad.mit.edu	37	chr12	113617042	113617042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcactgtgggtcttgagcCgctcgaacattgggaggagg	7	8	18	8	2	1	1	0	1	1	0	2	4	1	3	1	5	2	2	1	5	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:113617042C>T	uc001tup.2	-	4	498	c.470G>A	c.(469-471)CGG>CAG	p.R157Q	DDX54_uc001tuq.3_Missense_Mutation_p.R157Q	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	157	Helicase ATP-binding.				estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						GGTCTTGAGCCGCTCGAACAT	0.647													9	17					0	0	1	0	0		T	113617042	T	T	113617042	3	4	66	1	0	0	0	0	1	0	0	0	4375	652	23	1	2246	1	DDX54	12	113617042	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	200456	113617042	20234853	1012	45088											
FBXO21	23014	broad.mit.edu	37	chr12	117604703	117604703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaccaagaaaaccttacCgcttccccaggcttaacagg	15	6	7	13	1	0	1	0	0	0	1	1	2	1	1	5	2	4	2	5	2	7	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:117604703C>T	uc001twk.2	-	8	1232	c.1193G>A	c.(1192-1194)CGG>CAG	p.R398Q	FBXO21_uc001twj.2_Missense_Mutation_p.R398Q|FBXO21_uc009zwq.2_Intron|FBXO21_uc001twl.1_Missense_Mutation_p.R11Q	NM_033624	NP_296373	O94952	FBX21_HUMAN	F-box only protein 21 isoform 1	398					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			kidney(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		AAAACCTTACCGCTTCCCCAG	0.458													45	75					0	0	1	0	0		T	117604703	T	T	117604703	3	4	66	1	0	0	0	0	1	0	0	0	5747	666	23	1	713	1	FBXO21	12	117604703	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3987661	117604703	16247192	1013	45089											
NOS1	4842	broad.mit.edu	37	chr12	117669898	117669898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcctggaagatggtgcaggGcgggaggcggagctcgtctg	6	6	21	8	3	1	1	0	0	1	1	2	4	1	4	1	7	2	2	1	7	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:117669898G>A	uc001twm.1	-	22	3960	c.3274C>T	c.(3274-3276)CCC>TCC	p.P1092S		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1092	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	ATGGTGCAGGGCGGGAGGCGG	0.597													4	19					0	0	1	0	0		A	117669898	A	A	117669898	3	1	66	1	0	0	0	0	1	0	0	0	10560	1203	42	2	1062	2	NOS1	12	117669898	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	65195	117669898	16181997	1014	45090											
TAOK3	51347	broad.mit.edu	37	chr12	118598098	118598098	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactggtgattcttgagtgcTttatactgtttggtctgtac	7	18	10	6	0	2	2	0	2	2	0	2	2	2	2	0	2	4	3	0	2	4	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:118598098T>C	uc001twx.2	-	19	2500	c.2205A>G	c.(2203-2205)AAA>AAG	p.K735K	TAOK3_uc001twv.2_Silent_p.K275K|TAOK3_uc001tww.2_Silent_p.K565K|TAOK3_uc001twy.3_Silent_p.K735K	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	735					MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCTTGAGTGCTTTATACTGTT	0.373													46	113					0	0	1	0	0		C	118598098	C	C	118598098	2	2	66	1	0	0	0	0	0	0	0	1	15574	1606	56	3		3	TAOK3	12	118598098	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	928200	118598098	15253797	1015	45091											
GCN1L1	10985	broad.mit.edu	37	chr12	120582472	120582472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggggatgatgggccccaCataaggagtaaacttgtctc	12	8	12	9	0	1	1	0	1	1	0	2	3	1	3	2	4	1	1	2	4	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:120582472C>T	uc001txo.2	-	41	5336	c.5323G>A	c.(5323-5325)GTG>ATG	p.V1775M		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	1775	HEAT 13.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ATGGGCCCCACATAAGGAGTA	0.512													33	80					0	0	1	0	0		T	120582472	T	T	120582472	3	4	66	1	0	0	0	0	1	0	0	0	6314	478	17	4	2764	4	GCN1L1	12	120582472	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1984374	120582472	13269423	1016	45092											
PXN	5829	broad.mit.edu	37	chr12	120660747	120660747	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcagaaaggttgctgcccaGggacgtgctcattacggtgg	8	10	14	9	2	2	1	2	0	0	1	2	2	2	2	1	4	4	3	1	4	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:120660747G>T	uc001txt.2	-	4	543	c.412C>A	c.(412-414)CTG>ATG	p.L138M	PXN_uc001txv.2_Missense_Mutation_p.L5M|PXN_uc001txx.2_Missense_Mutation_p.L5M|PXN_uc001txy.2_Missense_Mutation_p.L138M|PXN_uc001txz.2_RNA|uc001tya.2_5'Flank	NM_001080855	NP_001074324	P49023	PAXI_HUMAN	paxillin isoform 1	138					cell junction assembly|cell-matrix adhesion|cellular response to reactive oxygen species|epidermal growth factor receptor signaling pathway|growth hormone receptor signaling pathway|muscle contraction|signal complex assembly	cytoplasm|focal adhesion|lamellipodium|microtubule associated complex	beta-catenin binding|vinculin binding|zinc ion binding			ovary(1)|breast(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TTGCTGCCCAGGGACGTGCTC	0.562													6	29					1	1	1	1	0		T	120660747	T	T	120660747	3	4	66	1	0	0	0	0	1	0	0	0	12877	991	35	5	1399	5	PXN	12	120660747	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	78275	120660747	13191148	1017	45093											
KDM2B	84678	broad.mit.edu	37	chr12	121880228	121880228	+	Frame_Shift_Del	DEL	G	-	-																															cagctggtgccgcagctcccGgggggtgccgttgagcccct																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:121880228delG	uc001uat.2	-	19	3120	c.3016delC	c.(3016-3018)CGGfs	p.R1006fs	KDM2B_uc001uaq.2_Frame_Shift_Del_p.R446fs|KDM2B_uc010szy.1_Frame_Shift_Del_p.R446fs|KDM2B_uc001uar.2_Frame_Shift_Del_p.R597fs|KDM2B_uc001uas.2_Frame_Shift_Del_p.R937fs|KDM2B_uc001uau.2_Intron|KDM2B_uc001uao.2_Frame_Shift_Del_p.R254fs|KDM2B_uc010szx.1_Frame_Shift_Del_p.R254fs|KDM2B_uc001uap.2_RNA	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	1006					embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						CGCAGCTCCCGGGGGGTGCCG	0.721													7	10	---	---	---	---						.	-	121880228	-	-	121880228	7	5	66	1	0	1	0	1	0	0	0	0	8141	1115	39	0	1066	0	KDM2B	12	121880228	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	1219481	121880228	11971667	1018	45094											
HIP1R	9026	broad.mit.edu	37	chr12	123339488	123339488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaaggccacagggaccGgttccacgagcagtttcaca	10	6	11	14	2	1	0	1	0	0	0	2	2	2	1	4	3	2	4	4	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:123339488G>A	uc001udj.1	+	9	814	c.755G>A	c.(754-756)CGG>CAG	p.R252Q	HIP1R_uc001udg.1_Missense_Mutation_p.R240Q|HIP1R_uc001udi.1_Missense_Mutation_p.R252Q|HIP1R_uc001udk.1_5'Flank	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	252					receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		CACAGGGACCGGTTCCACGAG	0.637													22	51					0	0	1	0	0		A	123339488	A	A	123339488	3	1	66	1	0	0	0	0	1	0	0	0	7131	1116	39	1	789	1	HIP1R	12	123339488	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1459260	123339488	10512407	1019	45095											
DHX37	57647	broad.mit.edu	37	chr12	125438496	125438496	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccgcagcccgttggcttcGcaaaactggggtgtgcagct	7	9	13	12	3	0	0	0	0	0	0	1	0	0	0	2	3	5	6	2	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:125438496G>A	uc001ugy.2	-	20	2724	c.2625C>T	c.(2623-2625)TGC>TGT	p.C875C	DHX37_uc001ugz.1_5'Flank	NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	875							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		CGTTGGCTTCGCAAAACTGGG	0.672													7	14					0	0	1	0	0		A	125438496	A	A	125438496	2	1	66	1	0	0	0	0	0	0	0	1	4516	1079	38	1		1	DHX37	12	125438496	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2099008	125438496	8413399	1020	45096											
EP400	57634	broad.mit.edu	37	chr12	132505628	132505628	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttatcgattgcagcagcAgcagccccgtttcagacctc	9	9	8	15	2	1	1	1	0	0	1	3	2	1	1	4	0	5	5	4	0	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:132505628A>G	uc001ujn.2	+	22	4487	c.4452A>G	c.(4450-4452)GCA>GCG	p.A1484A	EP400_uc001ujl.2_Silent_p.A1483A|EP400_uc001ujm.2_Intron	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1520	Poly-Ala.				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		TTGCAGCAGCAGCAGCCCCGT	0.473													7	27					0	0	1	0	0		G	132505628	G	G	132505628	2	3	66	1	0	0	0	0	0	0	0	1	5157	175	7	3		3	EP400	12	132505628	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	7067132	132505628	1346267	1021	45097											
EP400	57634	broad.mit.edu	37	chr12	132546816	132546816	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcggccgtggtcactaccaaCctgaccccagtgcagacccc	8	6	9	18	2	1	2	1	1	0	1	2	2	1	2	7	2	3	1	7	2	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:132546816C>T	uc001ujn.2	+	45	8081	c.8046C>T	c.(8044-8046)AAC>AAT	p.N2682N	EP400_uc001ujl.2_Silent_p.N2681N|EP400_uc001ujm.2_Silent_p.N2601N|EP400_uc001ujp.2_5'Flank	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2718	Interaction with ZNF42 (By similarity).				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		TCACTACCAACCTGACCCCAG	0.642													6	46					0	0	1	0	0		T	132546816	T	T	132546816	2	4	66	1	0	0	0	0	0	0	0	1	5157	506	18	4		4	EP400	12	132546816	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	41188	132546816	1305079	1022	45098											
ANKLE2	23141	broad.mit.edu	37	chr12	133306760	133306760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaagcaccgactgtgggcGggctgttatttcgagctgca	9	9	13	10	3	0	0	0	0	0	0	1	2	0	0	1	2	3	5	1	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr12:133306760G>A	uc001ukx.2	-	11	2055	c.1988C>T	c.(1987-1989)CCG>CTG	p.P663L	ANKLE2_uc009zyw.1_Missense_Mutation_p.P18L	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	663						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		GACTGTGGGCGGGCTGTTATT	0.537													21	58					0	0	1	0	0		A	133306760	A	A	133306760	3	1	66	1	0	0	0	0	1	0	0	0	633	1116	39	1	840	1	ANKLE2	12	133306760	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	759944	133306760	545135	1023	45099											
SACS	26278	broad.mit.edu	37	chr13	23911987	23911987	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtatttcaaaaatatctTgaaggctgctgaaccaacat	15	11	8	7	0	2	2	1	2	1	0	2	3	2	2	1	2	3	3	1	2	7	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:23911987T>C	uc001uon.2	-	10	6617	c.6028A>G	c.(6028-6030)AAG>GAG	p.K2010E	SACS_uc001uoo.2_Missense_Mutation_p.K1863E|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2010					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AAAAATATCTTGAAGGCTGCT	0.383													11	30					0	0	1	0	0		C	23911987	C	C	23911987	3	2	66	1	0	0	0	0	1	0	0	0	13829	1821	63	3	7715	3	SACS	13	23911987	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08		23911987	91257891	1024	45100											
MIPEP	4285	broad.mit.edu	37	chr13	24460522	24460522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctcatcgaagatcagcaCggtctggggcccaggtgggg	8	6	17	10	2	3	1	2	0	1	1	4	3	3	1	1	6	2	2	1	6	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:24460522C>T	uc001uox.3	-	2	413	c.313G>A	c.(313-315)GTG>ATG	p.V105M	PCOTH_uc001uoy.2_5'Flank	NM_005932	NP_005923	Q99797	MIPEP_HUMAN	mitochondrial intermediate peptidase precursor	105					protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)		AAGATCAGCACGGTCTGGGGC	0.493													23	43					0	0	1	0	0		T	24460522	T	T	24460522	3	4	66	1	0	0	0	0	1	0	0	0	9610	536	19	1	1900	1	MIPEP	13	24460522	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	548535	24460522	90709356	1025	45101											
CENPJ	55835	broad.mit.edu	37	chr13	25480581	25480581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagcagccagccggctggccGgccctgttgaaagaggaagt	9	6	15	11	2	0	2	0	1	0	1	0	3	0	3	4	4	3	3	4	4	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:25480581G>A	uc001upt.3	-	7	1848	c.1595C>T	c.(1594-1596)CCG>CTG	p.P532L	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA|CENPJ_uc001upu.2_5'Flank	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	532					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		CCGGCTGGCCGGCCCTGTTGA	0.463													28	63					0	0	1	0	0		A	25480581	A	A	25480581	3	1	66	1	0	0	0	0	1	0	0	0	3237	1116	39	1	2465	1	CENPJ	13	25480581	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1020059	25480581	89689297	1026	45102											
ATP8A2	51761	broad.mit.edu	37	chr13	26343303	26343303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatccagacagcccacgtggGtgtgggaatcagtgggaatg	10	7	16	8	1	1	1	1	0	0	1	2	4	2	3	2	3	1	0	2	3	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:26343303G>A	uc001uqk.2	+	26	2646	c.2504G>A	c.(2503-2505)GGT>GAT	p.G835D	ATP8A2_uc010tdi.1_Missense_Mutation_p.G795D|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.G385D	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	795	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		GCCCACGTGGGTGTGGGAATC	0.592													26	59					0	0	1	0	0		A	26343303	A	A	26343303	3	1	66	1	0	0	0	0	1	0	0	0	1194	1261	44	4	2606	4	ATP8A2	13	26343303	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	862722	26343303	88826575	1027	45103											
LNX2	222484	broad.mit.edu	37	chr13	28122585	28122585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacggttgacagcccatttaCggccacaatcatgtcaccac	11	8	7	15	2	2	1	2	1	0	0	2	1	2	1	3	2	2	1	3	2	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:28122585C>T	uc001url.3	-	10	2269	c.1960G>A	c.(1960-1962)GTA>ATA	p.V654I		NM_153371	NP_699202	Q8N448	LNX2_HUMAN	ligand of numb-protein X 2	654	PDZ 4.						zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	6		Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.113)|all cancers(112;0.127)|Epithelial(112;0.248)		AGCCCATTTACGGCCACAATC	0.438													7	13					0	0	1	0	0		T	28122585	T	T	28122585	3	4	66	1	0	0	0	0	1	0	0	0	8883	536	19	1	116	1	LNX2	13	28122585	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1779282	28122585	87047293	1028	45104											
GSX1	219409	broad.mit.edu	37	chr13	28367782	28367782	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgctagagctggagcgCgagttcgcttctaatatgta	9	11	12	9	3	1	1	0	0	1	1	2	3	1	2	0	1	4	6	0	1	4	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:28367782C>T	uc001urr.1	+	2	540	c.492C>T	c.(490-492)CGC>CGT	p.R164R		NM_145657	NP_663632	Q9H4S2	GSX1_HUMAN	GS homeobox 1	164	Homeobox.				positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung SC(185;0.0161)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0402)|all cancers(112;0.0404)|OV - Ovarian serous cystadenocarcinoma(117;0.197)		AGCTGGAGCGCGAGTTCGCTT	0.572													19	35					0	0	1	0	0		T	28367782	T	T	28367782	2	4	66	1	0	0	0	0	0	0	0	1	6865	755	27	1		1	GSX1	13	28367782	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	245197	28367782	86802096	1029	45105											
FLT3	2322	broad.mit.edu	37	chr13	28608271	28608271	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagatcatattcatattcTctgaaatcaacgtagaagta	15	14	6	6	1	4	3	3	2	1	2	5	4	4	3	0	0	1	2	0	0	7	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:28608271T>C	uc001urw.2	-	14	1867	c.1785A>G	c.(1783-1785)AGA>AGG	p.R595R	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Silent_p.R595R	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	595	Cytoplasmic (Potential).|Important for normal regulation of the kinase activity and for maintaining the kinase in an inactive state in the absence of bound ligand.				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity	p.F594_R595ins12(2)|p.R595_E596insDFYVDFR(1)|p.F594_R595ins15(1)|p.F594_R595ins14(1)|p.E588_R595>PPGQY(1)|p.F590_E596>LG(1)|p.R595_E596ins12(1)|p.R595_E596ins13(1)|p.R595_E596insNEYFYVDFR(1)|p.R595_E596ins17(1)|p.R595_E596insDNEYFYVDFR(1)|p.R595_E596insEDREHHVDFR(1)		haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	ATTCATATTCTCTGAAATCAA	0.378			Mis|O		AML|ALL								14	44					0	0	1	0	0		C	28608271	C	C	28608271	2	2	66	1	0	0	0	0	0	0	0	1	5956	1548	54	3		3	FLT3	13	28608271	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	240489	28608271	86561607	1030	45106											
FLT3	2322	broad.mit.edu	37	chr13	28626756	28626756	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagatatgcagaccagggcGtcctggttttccatttttct	7	15	9	10	1	2	2	1	0	1	2	4	2	4	2	3	2	1	2	3	2	1	5	rs56033040		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:28626756G>A	uc001urw.2	-	5	622	c.540C>T	c.(538-540)GAC>GAT	p.D180D	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Silent_p.D180D	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	180	Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	AGACCAGGGCGTCCTGGTTTT	0.403			Mis|O		AML|ALL								18	55					0	0	1	0	0		A	28626756	A	A	28626756	2	1	66	1	0	0	0	0	0	0	0	1	5956	1136	40	1		1	FLT3	13	28626756	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	18485	28626756	86543122	1031	45107											
FLT1	2321	broad.mit.edu	37	chr13	28959039	28959039	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccaggctcttgttgtattTtgtggttgtttttaaaccaa	8	19	8	6	0	1	0	0	0	1	0	1	0	1	0	2	2	2	5	2	2	5	10			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:28959039T>A	uc001usb.3	-	14	2384	c.2099A>T	c.(2098-2100)AAA>ATA	p.K700I	FLT1_uc010aar.1_Missense_Mutation_p.K700I	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	700	Ig-like C2-type 7.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	TTGTTGTATTTTGTGGTTGTT	0.443													22	65					0	0	1	0	0		A	28959039	A	A	28959039	3	1	66	1	0	0	0	0	1	0	0	0	5955	1841	64	5	2075	5	FLT1	13	28959039	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	332283	28959039	86210839	1032	45108											
MTUS2	23281	broad.mit.edu	37	chr13	29599849	29599849	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggatgccacaaggaagaGaatctgtcagccttggaggg	11	7	15	8	0	2	1	1	0	1	1	2	5	2	4	2	4	2	0	2	4	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:29599849G>T	uc001usl.3	+	1	1102	c.1044G>T	c.(1042-1044)GAG>GAT	p.E348D		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	338						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						ACAAGGAAGAGAATCTGTCAG	0.562													12	28					9.31168e-06	9.533e-06	1	1	0		T	29599849	T	T	29599849	3	4	66	1	0	0	0	0	1	0	0	0	9984	933	33	5	1046	5	MTUS2	13	29599849	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	640810	29599849	85570029	1033	45109											
C13orf33	84935	broad.mit.edu	37	chr13	31495959	31495959	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggagcagtttctctgacCgaaagttcagtgtaacttcc	11	11	10	9	1	2	1	1	1	1	0	4	4	3	2	2	1	2	4	2	1	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:31495959C>T	uc001uth.3	+	4	1104	c.763C>T	c.(763-765)CGA>TGA	p.R255*	uc001utg.1_Intron	NM_032849	NP_116238	Q5VYS4	CM033_HUMAN	hypothetical protein LOC84935	255											0		Lung SC(185;0.0281)		all cancers(112;0.00914)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.0559)|GBM - Glioblastoma multiforme(144;0.244)		TTTCTCTGACCGAAAGTTCAG	0.363													18	50					0	0	1	0	0		T	31495959	T	T	31495959	4	4	66	1	0	0	0	0	0	1	0	0	1730	644	23	1	777	1	C13orf33	13	31495959	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1896110	31495959	83673919	1034	45110											
HSPH1	10808	broad.mit.edu	37	chr13	31711624	31711624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgattcaatttttggtttcGgttgtgttacaacgggttca	7	18	11	5	2	2	1	2	1	0	0	3	1	2	1	0	3	2	4	0	3	3	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:31711624G>A	uc001utj.2	-	18	2806	c.2408C>T	c.(2407-2409)CCG>CTG	p.P803L	HSPH1_uc001utk.2_Missense_Mutation_p.P759L|HSPH1_uc010aaw.2_Missense_Mutation_p.P762L|HSPH1_uc001utl.2_Missense_Mutation_p.P805L|HSPH1_uc010tds.1_Missense_Mutation_p.P727L	NM_006644	NP_006635	Q92598	HS105_HUMAN	heat shock 105kD	803					positive regulation of MHC class I biosynthetic process|positive regulation of NK T cell activation|response to unfolded protein	cytoplasm|extracellular region	ATP binding				0		Lung SC(185;0.0257)		all cancers(112;0.00385)|Epithelial(112;0.0328)|OV - Ovarian serous cystadenocarcinoma(117;0.0375)|GBM - Glioblastoma multiforme(144;0.125)		TTTTGGTTTCGGTTGTGTTAC	0.343													26	48					0	0	1	0	0		A	31711624	A	A	31711624	3	1	66	1	0	0	0	0	1	0	0	0	7447	1116	39	1	172	1	HSPH1	13	31711624	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	215665	31711624	83458254	1035	45111											
HSPH1	10808	broad.mit.edu	37	chr13	31732954	31732954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacatacctgatttttggCtgcaactccgattgttctat	10	15	7	9	1	1	2	0	1	1	1	2	3	2	2	2	1	4	3	2	1	4	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:31732954C>T	uc001utj.2	-	2	552	c.154G>A	c.(154-156)GCC>ACC	p.A52T	HSPH1_uc001utk.2_Missense_Mutation_p.A52T|HSPH1_uc010aaw.2_Missense_Mutation_p.A52T|HSPH1_uc001utl.2_Missense_Mutation_p.A54T|HSPH1_uc010tds.1_Missense_Mutation_p.A54T|HSPH1_uc010tdt.1_RNA|HSPH1_uc010aax.1_Missense_Mutation_p.A54T|HSPH1_uc010aay.1_Missense_Mutation_p.A54T	NM_006644	NP_006635	Q92598	HS105_HUMAN	heat shock 105kD	52					positive regulation of MHC class I biosynthetic process|positive regulation of NK T cell activation|response to unfolded protein	cytoplasm|extracellular region	ATP binding				0		Lung SC(185;0.0257)		all cancers(112;0.00385)|Epithelial(112;0.0328)|OV - Ovarian serous cystadenocarcinoma(117;0.0375)|GBM - Glioblastoma multiforme(144;0.125)		TGATTTTTGGCTGCAACTCCG	0.303													19	51					0	0	1	0	0		T	31732954	T	T	31732954	3	4	66	1	0	0	0	0	1	0	0	0	7447	797	28	2	2490	2	HSPH1	13	31732954	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	21330	31732954	83436924	1036	45112											
NBEA	26960	broad.mit.edu	37	chr13	35736024	35736025	+	Frame_Shift_Ins	INS	-	T	T																															caatgtttcgtattcctgagINStttaaatggtctccaatgca																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:35736024_35736025insT	uc001uvb.2	+	24	4205_4206	c.3999_4000insT	c.(3997-4002)GAGTTTfs	p.E1333fs	NBEA_uc010abi.2_Frame_Shift_Ins_p.E24fs	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1333_1334	WD 1.					cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GTATTCCTGAGTTTAAATGGTC	0.411													3	4	---	---	---	---						.	T	35736025	T	T	35736024	7	5	66	1	0	1	1	0	0	0	0	0	10205	1020	36	0	4089	0	NBEA	13	35736024	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	4003070	35736024	79433854	1037	45113											
MAB21L1	4081	broad.mit.edu	37	chr13	36049497	36049497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccggcagttcaaggtgaCgatcccttaaggttttgagg	8	10	14	9	2	1	2	1	2	0	0	2	3	2	2	2	5	0	3	2	5	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:36049497C>T	uc001uvc.2	-	1	1336	c.779G>A	c.(778-780)CGT>CAT	p.R260H	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	260					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		TTCAAGGTGACGATCCCTTAA	0.557													25	54					0	0	1	0	0		T	36049497	T	T	36049497	3	4	66	1	0	0	0	0	1	0	0	0	9159	536	19	1	304	1	MAB21L1	13	36049497	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	313473	36049497	79120381	1038	45114											
FREM2	341640	broad.mit.edu	37	chr13	39262698	39262698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagactctgaccaggagcGcctctttgaactggaattgg	10	10	12	9	1	2	4	0	3	2	1	2	6	2	6	2	3	2	0	2	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:39262698G>A	uc001uwv.2	+	1	1526	c.1217G>A	c.(1216-1218)CGC>CAC	p.R406H		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	406	CSPG 1.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GACCAGGAGCGCCTCTTTGAA	0.547													17	49					0	0	1	0	0		A	39262698	A	A	39262698	3	1	66	1	0	0	0	0	1	0	0	0	6059	1087	38	1	1219	1	FREM2	13	39262698	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3213201	39262698	75907180	1039	45115											
FOXO1	2308	broad.mit.edu	37	chr13	41134254	41134254	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactccttcaagagtccaggCgcacagttatactgactcat	12	10	7	12	1	2	2	2	1	0	1	4	2	4	2	2	1	2	2	2	1	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:41134254C>T	uc001uxl.3	-	2	1759	c.1374G>A	c.(1372-1374)GCG>GCA	p.A458A	FOXO1_uc010acc.1_Silent_p.A273A	NM_002015	NP_002006	Q12778	FOXO1_HUMAN	forkhead box O1	458					anti-apoptosis|blood vessel development|embryo development|endocrine pancreas development|insulin receptor signaling pathway|negative regulation of stress-activated MAPK cascade|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|response to DNA damage stimulus|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding		PAX3/FOXO1(749)|PAX7/FOXO1(197)	soft_tissue(946)|lung(1)|central_nervous_system(1)	948		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)		AGAGTCCAGGCGCACAGTTAT	0.502													17	32					0	0	1	0	0		T	41134254	T	T	41134254	2	4	66	1	0	0	0	0	0	0	0	1	6037	755	27	1		1	FOXO1	13	41134254	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1871556	41134254	74035624	1040	45116											
AKAP11	11215	broad.mit.edu	37	chr13	42871202	42871202	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggatttagctgcagtttctTtggaacttccagatattctg	9	16	9	7	0	2	1	0	0	2	1	3	3	3	3	1	2	3	3	1	2	3	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:42871202T>C	uc001uys.1	+	6	410	c.235T>C	c.(235-237)TTG>CTG	p.L79L		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	79					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		TGCAGTTTCTTTGGAACTTCC	0.299													28	79					0	0	1	0	0		C	42871202	C	C	42871202	2	2	66	1	0	0	0	0	0	0	0	1	447	1838	64	3		3	AKAP11	13	42871202	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1736948	42871202	72298676	1041	45117											
ZC3H13	23091	broad.mit.edu	37	chr13	46544501	46544501	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagagtctgcttacttttAtcatctccactgttgtaggc	9	15	7	10	0	3	1	1	0	2	1	4	1	3	1	1	1	3	3	1	1	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:46544501A>G	uc010tfw.1	-	12	2574	c.2568T>C	c.(2566-2568)GAT>GAC	p.D856D	ZC3H13_uc001vaq.2_5'Flank|ZC3H13_uc001vas.1_Silent_p.D856D|ZC3H13_uc001vat.1_Silent_p.D856D	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	856							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		GCTTACTTTTATCATCTCCAC	0.433													50	94					0	0	1	0	0		G	46544501	G	G	46544501	2	3	66	1	0	0	0	0	0	0	0	1	17590	446	16	3		3	ZC3H13	13	46544501	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3673299	46544501	68625377	1042	45118											
SETDB2	83852	broad.mit.edu	37	chr13	50034245	50034245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacttatttttattttaggcGatgcaaaaactttctggatg	11	17	7	6	1	1	0	0	0	1	0	1	2	1	1	0	2	2	1	0	2	5	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:50034245G>A	uc001vcz.2	+	3	925	c.19G>A	c.(19-21)GAT>AAT	p.D7N	SETDB2_uc010adg.2_5'UTR|SETDB2_uc001vcy.3_Missense_Mutation_p.D7N|SETDB2_uc010adh.2_Missense_Mutation_p.D7N|SETDB2_uc001vda.2_Missense_Mutation_p.D7N	NM_031915	NP_114121	Q96T68	SETB2_HUMAN	SET domain, bifurcated 2 isoform a	7					cell division|chromosome segregation|heart looping|left/right axis specification|mitosis|negative regulation of transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone methyltransferase activity (H3-K9 specific)|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;0.000408)|Breast(56;0.00131)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.1e-09)		TATTTTAGGCGATGCAAAAAC	0.313													24	79					0	0	1	0	0		A	50034245	A	A	50034245	3	1	66	1	0	0	0	0	1	0	0	0	14164	1058	37	1	25	1	SETDB2	13	50034245	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3489744	50034245	65135633	1043	45119											
PCDH8	5100	broad.mit.edu	37	chr13	53420348	53420348	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtcccattgcagcaccgAcccggacaccccgagccgag	8	4	11	18	5	0	0	0	0	0	0	1	4	1	1	6	1	3	2	6	1	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:53420348A>G	uc001vhi.2	-	1	2427	c.2224T>C	c.(2224-2226)TCG>CCG	p.S742P	PCDH8_uc001vhj.2_Missense_Mutation_p.S742P	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	742	Extracellular (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		TGCAGCACCGACCCGGACACC	0.711													11	19					0	0	1	0	0		G	53420348	G	G	53420348	3	3	66	1	0	0	0	0	1	0	0	0	11536	275	10	3	1000	3	PCDH8	13	53420348	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3386103	53420348	61749530	1044	45120											
PCDH17	27253	broad.mit.edu	37	chr13	58208709	58208709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcctaccctgtccgcagtgGccaagctcatcatccgctcg	7	8	9	17	3	2	0	2	0	0	0	5	0	4	0	5	1	3	3	5	1	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:58208709G>A	uc001vhq.1	+	1	2921	c.2029G>A	c.(2029-2031)GCC>ACC	p.A677T	PCDH17_uc010aec.1_Missense_Mutation_p.A677T	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	677	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GTCCGCAGTGGCCAAGCTCAT	0.652													29	64					0	0	1	0	0		A	58208709	A	A	58208709	3	1	66	1	0	0	0	0	1	0	0	0	11531	1203	42	2	2031	2	PCDH17	13	58208709	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4788361	58208709	56961169	1045	45121											
PCDH9	5101	broad.mit.edu	37	chr13	67801602	67801602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcactgtcactttgtgaatgGctgtctcctctctatctaag	7	15	8	11	0	4	1	1	1	3	0	6	1	4	1	1	1	0	2	1	1	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:67801602G>A	uc001vik.2	-	2	1663	c.971C>T	c.(970-972)GCC>GTC	p.A324V	PCDH9_uc001vil.2_Missense_Mutation_p.A324V|PCDH9_uc010thl.1_Missense_Mutation_p.A324V|PCDH9_uc001vin.3_Missense_Mutation_p.A324V	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	324	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		TTTGTGAATGGCTGTCTCCTC	0.478													56	98					0	0	1	0	0		A	67801602	A	A	67801602	3	1	66	1	0	0	0	0	1	0	0	0	11537	1203	42	2	2758	2	PCDH9	13	67801602	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	9592893	67801602	47368276	1046	45122											
FBXL3	26224	broad.mit.edu	37	chr13	77589682	77589682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacagggatttggagtttaCgaacacaactgtcagtgcag	13	9	12	7	1	1	1	1	0	0	1	1	4	1	3	0	2	4	2	0	2	3	3	rs144677112	by1000genomes	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:77589682C>T	uc001vkd.2	-	4	876	c.505G>A	c.(505-507)GTA>ATA	p.V169I		NM_012158	NP_036290	Q9UKT7	FBXL3_HUMAN	F-box and leucine-rich repeat protein 3	169					regulation of circadian rhythm|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.218)		GBM - Glioblastoma multiforme(99;0.0521)		TTGGAGTTTACGAACACAACT	0.343													22	61					0	0	1	0	0		T	77589682	T	T	77589682	3	4	66	1	0	0	0	0	1	0	0	0	5734	536	19	1	789	1	FBXL3	13	77589682	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	9788080	77589682	37580196	1047	45123											
SLITRK5	26050	broad.mit.edu	37	chr13	88330296	88330296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaaattcccgtgcagccccGctgcttacactttctccccc	6	10	5	20	2	1	0	0	0	1	0	3	0	2	0	6	0	4	3	6	0	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:88330296G>A	uc001vln.2	+	2	2872	c.2653G>A	c.(2653-2655)GCT>ACT	p.A885T	SLITRK5_uc010tic.1_Missense_Mutation_p.A644T	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	885	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GTGCAGCCCCGCTGCTTACAC	0.592													22	59					0	0	1	0	0		A	88330296	A	A	88330296	3	1	66	1	0	0	0	0	1	0	0	0	14771	1087	38	1	2655	1	SLITRK5	13	88330296	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	10740614	88330296	26839582	1048	45124											
HS6ST3	266722	broad.mit.edu	37	chr13	96743260	96743260	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcgggggaggccggcccGcccgccgtcccgggtcccgc	1	2	18	20	9	0	0	0	0	0	0	2	1	2	1	6	5	0	0	6	5	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:96743260G>A	uc001vmw.2	+	1	168	c.144G>A	c.(142-144)CCG>CCA	p.P48P		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	48	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					aggccggcccgcccgccgtcc	0.224													4	3					0	0	1	0	0		A	96743260	A	A	96743260	2	1	66	1	0	0	0	0	0	0	0	1	7388	1074	38	1		1	HS6ST3	13	96743260	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	8412964	96743260	18426618	1049	45125											
KDELC1	79070	broad.mit.edu	37	chr13	103443278	103443278	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatcaaaaaatgaaatatgTttcacaatgggaccatacag	20	9	6	6	0	2	1	2	1	0	0	2	2	2	2	1	1	1	1	1	1	8	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:103443278T>C	uc001vpq.3	-	6	1440	c.1056A>G	c.(1054-1056)AAA>AAG	p.K352K	KDELC1_uc001vpr.3_Silent_p.K133K	NM_024089	NP_076994	Q6UW63	KDEL1_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 1 precursor	352						endoplasmic reticulum lumen				ovary(1)	1	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					ATGAAATATGTTTCACAATGG	0.333													13	17					0	0	1	0	0		C	103443278	C	C	103443278	2	2	66	1	0	0	0	0	0	0	0	1	8133	1722	60	3		3	KDELC1	13	103443278	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	6700018	103443278	11726600	1050	45126											
FAM155A	728215	broad.mit.edu	37	chr13	108518413	108518413	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgtgaagcactggcccgAggacgcgccctgggggtaac	8	4	15	14	4	0	1	0	1	0	0	0	3	0	2	3	4	2	2	3	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:108518413A>T	uc001vql.2	-	1	1048	c.532T>A	c.(532-534)TCG>ACG	p.S178T		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	178						integral to membrane	binding			skin(1)	1						CACTGGCCCGAGGACGCGCCC	0.672													20	45					0	0	1	0	0		T	108518413	T	T	108518413	3	4	66	1	0	0	0	0	1	0	0	0	5476	304	11	5	856	5	FAM155A	13	108518413	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	5075135	108518413	6651465	1051	45127											
FAM155A	728215	broad.mit.edu	37	chr13	108518443	108518443	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggtaacaagtctccaGgcgccacacgggcttggcag	8	6	15	12	2	1	0	0	0	1	0	2	0	1	0	2	5	1	3	2	5	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:108518443G>T	uc001vql.2	-	1	1018	c.502C>A	c.(502-504)CTG>ATG	p.L168M		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	168						integral to membrane	binding			skin(1)	1						CAAGTCTCCAGGCGCCACACG	0.697													18	41					1.67942e-08	1.74873e-08	1	1	0		T	108518443	T	T	108518443	3	4	66	1	0	0	0	0	1	0	0	0	5476	991	35	5	886	5	FAM155A	13	108518443	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	30	108518443	6651435	1052	45128											
FAM155A	728215	broad.mit.edu	37	chr13	108518697	108518697	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctgcctctgctgctgcTgctgctgctgctgctgccgc	0	11	13	17	2	1	0	0	0	1	0	1	0	1	0	3	0	10	9	3	0	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:108518697T>C	uc001vql.2	-	1	764	c.248A>G	c.(247-249)CAG>CGG	p.Q83R		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	83	Poly-Gln.					integral to membrane	binding			skin(1)	1						ctgctgctgctgctgctgctg	0.393													21	26					0	0	1	0	0		C	108518697	C	C	108518697	3	2	66	1	0	0	0	0	1	0	0	0	5476	1580	55	3	1140	3	FAM155A	13	108518697	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	254	108518697	6651181	1053	45129											
MYO16	23026	broad.mit.edu	37	chr13	109672094	109672094	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaccttattggatgaagaAagtcaaatgatttggtcagt	13	13	9	6	0	3	3	3	2	0	1	3	4	3	4	1	2	0	0	1	2	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:109672094A>G	uc001vqt.1	+	23	2691	c.2565A>G	c.(2563-2565)GAA>GAG	p.E855E	MYO16_uc010agk.1_Silent_p.E877E|MYO16_uc001vqu.1_Silent_p.E655E|MYO16_uc010tjh.1_Silent_p.E367E	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	855	Myosin head-like 2.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			TGGATGAAGAAAGTCAAATGA	0.358													7	33					0	0	1	0	0		G	109672094	G	G	109672094	2	3	66	1	0	0	0	0	0	0	0	1	10082	11	1	3		3	MYO16	13	109672094	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1153397	109672094	5497784	1054	45130											
RASA3	22821	broad.mit.edu	37	chr13	114773011	114773011	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaccttaccctccttacccTtctttaagcacgatgggctg	7	12	6	16	1	1	0	0	0	1	0	2	1	2	0	5	1	3	2	5	1	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:114773011T>G	uc001vui.2	-	18	1871	c.1740A>C	c.(1738-1740)GAA>GAC	p.E580D	RASA3_uc010tkk.1_Missense_Mutation_p.E548D|RASA3_uc001vuj.2_Missense_Mutation_p.E197D	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	580	PH.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			ctccttaccctTCTTTAAGCA	0.249													5	25					0	0	1	0	0		G	114773011	G	G	114773011	3	3	66	1	0	0	0	0	1	0	0	0	13087	1606	56	5	792	5	RASA3	13	114773011	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	5100917	114773011	396867	1055	45131											
UPF3A	65110	broad.mit.edu	37	chr13	115070300	115070300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctgtatgatccaggagctCgcttccgagcgcgagagtgt	8	9	14	10	4	0	2	0	1	0	1	3	5	2	3	2	1	3	4	2	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr13:115070300C>T	uc001vup.2	+	10	1376	c.1339C>T	c.(1339-1341)CGC>TGC	p.R447C	UPF3A_uc001vuq.2_Missense_Mutation_p.R414C|UPF3A_uc001vus.2_RNA|UPF3A_uc001vur.2_RNA|UPF3A_uc001vut.2_Missense_Mutation_p.R246C|UPF3A_uc001vuu.2_Silent_p.L100L	NM_023011	NP_075387	Q9H1J1	REN3A_HUMAN	UPF3 regulator of nonsense transcripts homolog A	447					mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation	cytoplasm|nucleus|plasma membrane	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			skin(1)	1	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)	OV - Ovarian serous cystadenocarcinoma(48;0.195)|Epithelial(10;0.2)		TCCAGGAGCTCGCTTCCGAGC	0.567													31	44					0	0	1	0	0		T	115070300	T	T	115070300	3	4	66	1	0	0	0	0	1	0	0	0	17031	884	31	1	1377	1	UPF3A	13	115070300	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	297289	115070300	99578	1056	45132											
ZNF219	51222	broad.mit.edu	37	chr14	21558908	21558908	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggggctccagtggcgaaCgggcagaagaggcagcggtg	8	5	19	9	3	1	2	0	0	1	2	2	3	2	2	1	6	2	3	1	6	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:21558908C>T	uc001vzr.2	-	5	2377	c.1956G>A	c.(1954-1956)CCG>CCA	p.P652P	ZNF219_uc001vzs.2_Silent_p.P652P|ZNF219_uc010aik.1_Silent_p.P652P	NM_016423	NP_057507	Q9P2Y4	ZN219_HUMAN	zinc finger protein 219	652					negative regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|histamine receptor activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)	1	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;9.86e-11)|Epithelial(56;1.27e-08)|all cancers(55;6.06e-08)	GBM - Glioblastoma multiforme(265;0.0191)		CAGTGGCGAACGGGCAGAAGA	0.746													3	3					0	0	1	0	0		T	21558908	T	T	21558908	2	4	66	1	0	0	0	0	0	0	0	1	17798	523	19	1		1	ZNF219	14	21558908	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08		21558908	85790632	1057	45133											
SUPT16H	11198	broad.mit.edu	37	chr14	21827736	21827736	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgtagaactgcacatcCgtgtgccgcttcttcccaaa	8	12	8	13	2	2	1	0	0	2	1	4	1	4	1	3	0	3	3	3	0	3	3	rs139776422	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:21827736C>T	uc001wao.2	-	19	2547	c.2208G>A	c.(2206-2208)ACG>ACA	p.T736T	SUPT16H_uc001wan.2_5'Flank	NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	736					DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		ACTGCACATCCGTGTGCCGCT	0.468													24	44					0	0	1	0	0		T	21827736	T	T	21827736	2	4	66	1	0	0	0	0	0	0	0	1	15421	639	23	1		1	SUPT16H	14	21827736	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	268828	21827736	85521804	1058	45134											
OR10G2	26534	broad.mit.edu	37	chr14	22102264	22102264	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgattaggtgggagccacaGgtggagaaggcccggcgcct	9	5	17	10	3	0	1	0	0	0	1	0	4	0	2	3	6	1	0	3	6	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:22102264G>T	uc010tmc.1	-	1	735	c.735C>A	c.(733-735)ACC>ACA	p.T245T		NM_001005466	NP_001005466	Q8NGC3	O10G2_HUMAN	olfactory receptor, family 10, subfamily G,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(95;0.00113)	Acute lymphoblastic leukemia(2;0.0279)		GBM - Glioblastoma multiforme(265;0.0142)		GGGAGCCACAGGTGGAGAAGG	0.562													16	16					6.72482e-11	7.08172e-11	1	1	0		T	22102264	T	T	22102264	2	4	66	1	0	0	0	0	0	0	0	1	10918	987	35	5		5	OR10G2	14	22102264	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	274528	22102264	85247276	1059	45135											
CDH24	64403	broad.mit.edu	37	chr14	23523355	23523355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcaggaggctaaccttgcGgacagtgaggagcccgtctc	9	6	15	11	2	1	1	0	1	1	0	2	4	1	4	2	5	3	2	2	5	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:23523355G>A	uc001wil.2	-	6	1227	c.967C>T	c.(967-969)CGC>TGC	p.R323C	CDH24_uc010akf.2_Missense_Mutation_p.R323C|CDH24_uc001win.3_Missense_Mutation_p.R323C	NM_022478	NP_071923	Q86UP0	CAD24_HUMAN	cadherin-like 24 isoform 1	323	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|cell-cell adhesion|homophilic cell adhesion	cell-cell junction|cell-cell junction|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|delta-catenin binding			central_nervous_system(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		CTAACCTTGCGGACAGTGAGG	0.552													27	68					0	0	1	0	0		A	23523355	A	A	23523355	3	1	66	1	0	0	0	0	1	0	0	0	3112	1116	39	1	1524	1	CDH24	14	23523355	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1421091	23523355	83826185	1060	45136											
EFS	10278	broad.mit.edu	37	chr14	23829044	23829044	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggagggggcagcatagatggGgggccccggctcccggcctc	5	4	19	13	2	0	1	0	0	0	1	2	2	1	2	4	8	1	3	4	8	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:23829044G>T	uc001wjo.2	-	4	1251	c.643C>A	c.(643-645)CCC>ACC	p.P215T	EFS_uc001wjp.2_Missense_Mutation_p.P122T|EFS_uc010tnm.1_Intron	NM_005864	NP_005855	O43281	EFS_HUMAN	embryonal Fyn-associated substrate isoform 1	215	Pro-rich.				cell adhesion|intracellular signal transduction	cytoplasm	SH3 domain binding			large_intestine(1)	1	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00649)		GCATAGATGGGGGGCCCCGGC	0.617													21	44					4.63292e-17	4.97673e-17	1	1	0		T	23829044	T	T	23829044	3	4	66	1	0	0	0	0	1	0	0	0	4965	1232	43	5	1054	5	EFS	14	23829044	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	305689	23829044	83520496	1061	45137											
MYH6	4624	broad.mit.edu	37	chr14	23853869	23853869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccatgttcttcttcatgcGctccaggtgggcgctggtgt	3	14	12	12	2	3	0	1	0	2	0	5	0	5	0	2	3	1	3	2	3	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:23853869G>A	uc001wjv.2	-	36	5414	c.5347C>T	c.(5347-5349)CGC>TGC	p.R1783C		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1783	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TTCTTCATGCGCTCCAGGTGG	0.617													29	74					0	0	1	0	0		A	23853869	A	A	23853869	3	1	66	1	0	0	0	0	1	0	0	0	10056	1087	38	1	488	1	MYH6	14	23853869	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	24825	23853869	83495671	1062	45138											
MYH6	4624	broad.mit.edu	37	chr14	23871981	23871981	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagacacgaaggcgtagtcGtagggattgttggtgaccag	10	9	16	6	3	0	2	0	2	0	1	1	5	0	3	1	3	0	3	1	3	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:23871981G>A	uc001wjv.2	-	11	994	c.927C>T	c.(925-927)TAC>TAT	p.Y309Y	MYH6_uc010akp.1_Silent_p.Y309Y	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	309	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		AGGCGTAGTCGTAGGGATTGT	0.418													12	11					0	0	1	0	0		A	23871981	A	A	23871981	2	1	66	1	0	0	0	0	0	0	0	1	10056	1140	40	1		1	MYH6	14	23871981	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	18112	23871981	83477559	1063	45139											
JPH4	84502	broad.mit.edu	37	chr14	24040511	24040511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaggaggcagtgggctccGgcaggcagggggtcgccagg	6	4	20	11	2	0	0	0	0	0	0	3	1	2	1	3	8	0	4	3	8	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:24040511G>A	uc001wkq.2	-	6	2347	c.1429C>T	c.(1429-1431)CGG>TGG	p.R477W	JPH4_uc010tnr.1_Missense_Mutation_p.R142W|JPH4_uc001wkr.2_Missense_Mutation_p.R477W	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	477	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		AGTGGGCTCCGGCAGGCAGGG	0.682													19	38					0	0	1	0	0		A	24040511	A	A	24040511	3	1	66	1	0	0	0	0	1	0	0	0	7979	1115	39	1	465	1	JPH4	14	24040511	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	168530	24040511	83309029	1064	45140											
CPNE6	9362	broad.mit.edu	37	chr14	24543949	24543949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaaccccagctgggagcCgttccgcctgtccctgcatt	5	9	10	17	2	0	1	0	1	0	0	2	2	2	2	7	1	4	3	7	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:24543949C>T	uc001wll.2	+	7	716	c.617C>T	c.(616-618)CCG>CTG	p.P206L	CPNE6_uc010tnv.1_Missense_Mutation_p.P261L|CPNE6_uc001wlm.2_Missense_Mutation_p.P31L|CPNE6_uc001wln.2_5'Flank	NM_006032	NP_006023	O95741	CPNE6_HUMAN	copine 6	206	C2 2.				lipid metabolic process|nervous system development|synaptic transmission|vesicle-mediated transport		calcium ion binding|transporter activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0184)		AGCTGGGAGCCGTTCCGCCTG	0.557													9	12					0	0	1	0	0		T	24543949	T	T	24543949	3	4	66	1	0	0	0	0	1	0	0	0	3819	652	23	1	639	1	CPNE6	14	24543949	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	503438	24543949	82805591	1065	45141											
DCAF11	80344	broad.mit.edu	37	chr14	24589034	24589034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgggatcgacgcaccatgCgggaggatgaccccaagcct	9	6	14	12	3	0	1	0	1	0	0	1	5	0	4	4	3	2	1	4	3	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:24589034C>T	uc001wlv.2	+	11	1301	c.1021C>T	c.(1021-1023)CGG>TGG	p.R341W	DCAF11_uc001wlw.2_Missense_Mutation_p.R341W|DCAF11_uc001wlz.2_Missense_Mutation_p.R241W|DCAF11_uc001wly.2_Missense_Mutation_p.R297W|DCAF11_uc001wme.2_Missense_Mutation_p.R301W|DCAF11_uc010tny.1_Missense_Mutation_p.R208W|DCAF11_uc001wmd.2_Missense_Mutation_p.R341W|DCAF11_uc001wmc.2_Missense_Mutation_p.R241W|DCAF11_uc001wmb.3_Missense_Mutation_p.R315W|DCAF11_uc001wma.3_Missense_Mutation_p.R341W	NM_001163484	NP_001156956	Q8TEB1	DCA11_HUMAN	DDB1 and CUL4 associated factor 11 isoform 1	341	WD 4.					CUL4 RING ubiquitin ligase complex	protein binding				0						ACGCACCATGCGGGAGGATGA	0.552													13	23					0	0	1	0	0		T	24589034	T	T	24589034	3	4	66	1	0	0	0	0	1	0	0	0	4265	759	27	1	1059	1	DCAF11	14	24589034	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	45085	24589034	82760506	1066	45142											
TM9SF1	10548	broad.mit.edu	37	chr14	24658815	24658815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagaggaagatgaagaggcCggtggagccaacactcagca	14	4	15	8	1	1	4	1	1	0	3	1	6	1	6	2	4	3	2	2	4	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:24658815C>T	uc001wnb.1	-	6	1975	c.1627G>A	c.(1627-1629)GGC>AGC	p.G543S	IPO4_uc001wmu.2_5'Flank|IPO4_uc001wmv.1_5'Flank|IPO4_uc001wmx.1_5'UTR|IPO4_uc001wmy.1_5'UTR|IPO4_uc010tnz.1_RNA|IPO4_uc001wmw.1_RNA|IPO4_uc001wmz.1_5'UTR|TM9SF1_uc010toa.1_Missense_Mutation_p.G456S|TM9SF1_uc001wna.1_RNA|TM9SF1_uc010tob.1_Missense_Mutation_p.G778S	NM_006405	NP_006396	O15321	TM9S1_HUMAN	transmembrane 9 superfamily member 1 isoform a	543	Helical; (Potential).				autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0183)		ATGAAGAGGCCGGTGGAGCCA	0.542													20	45					0	0	1	0	0		T	24658815	T	T	24658815	3	4	66	1	0	0	0	0	1	0	0	0	16002	652	23	1	197	1	TM9SF1	14	24658815	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	69781	24658815	82690725	1067	45143											
NYNRIN	57523	broad.mit.edu	37	chr14	24879282	24879282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccacctcgccacctgcaagCgaacagcacagtgaccagct	11	4	9	17	2	0	1	0	1	0	0	1	2	0	1	5	0	5	3	5	0	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:24879282C>T	uc001wpf.3	+	4	2600	c.2282C>T	c.(2281-2283)GCG>GTG	p.A761V		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	761					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						CACCTGCAAGCGAACAGCACA	0.627													12	33					0	0	1	0	0		T	24879282	T	T	24879282	3	4	66	1	0	0	0	0	1	0	0	0	10815	768	27	1	2292	1	NYNRIN	14	24879282	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	220467	24879282	82470258	1068	45144											
PRKD1	5587	broad.mit.edu	37	chr14	30135310	30135310	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaagaccttgacgtaccaGcccccacagcatttctccac	10	10	5	16	1	1	2	0	1	1	1	2	2	1	2	5	0	3	2	5	0	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:30135310G>C	uc001wqh.2	-	3	689	c.508C>G	c.(508-510)CTG>GTG	p.L170V		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	170	Phorbol-ester/DAG-type 1.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TGACGTACCAGCCCCCACAGC	0.368													65	101					0	0	1	0	0		C	30135310	C	C	30135310	3	2	66	1	0	0	0	0	1	0	0	0	12540	962	34	5	2294	5	PRKD1	14	30135310	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5256028	30135310	77214230	1069	45145											
STRN3	29966	broad.mit.edu	37	chr14	31380367	31380367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctaatgacagaacagggcCgctattgtaggaagagagga	15	6	14	6	1	0	3	0	1	0	2	0	6	0	5	1	3	2	3	1	3	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:31380367C>T	uc001wqu.2	-	13	1816	c.1600G>A	c.(1600-1602)GGC>AGC	p.G534S	STRN3_uc001wqv.2_Missense_Mutation_p.G450S|STRN3_uc010tpj.1_RNA	NM_001083893	NP_001077362	Q13033	STRN3_HUMAN	nuclear autoantigen isoform 1	534	WD 2.				negative regulation of estrogen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|response to estradiol stimulus	cytoplasm|dendrite|Golgi apparatus|neuronal cell body|nucleoplasm|nucleus|plasma membrane|protein complex	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.0124)		AGAACAGGGCCGCTATTGTAG	0.383													11	26					0	0	1	0	0		T	31380367	T	T	31380367	3	4	66	1	0	0	0	0	1	0	0	0	15355	666	23	1	817	1	STRN3	14	31380367	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1245057	31380367	75969173	1070	45146											
HEATR5A	25938	broad.mit.edu	37	chr14	31777196	31777196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttccatggttgcatctgaaCgtaaggaacatagaaattcc	13	12	8	8	1	1	2	0	1	1	1	3	3	3	3	2	2	3	3	2	2	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:31777196C>T	uc001wrf.3	-	24	3919	c.3842G>A	c.(3841-3843)CGT>CAT	p.R1281H	HEATR5A_uc010ami.2_Missense_Mutation_p.R1179H	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	1568							binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		TGCATCTGAACGTAAGGAACA	0.378													10	28					0	0	1	0	0		T	31777196	T	T	31777196	3	4	66	1	0	0	0	0	1	0	0	0	7047	536	19	1	1447	1	HEATR5A	14	31777196	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	396829	31777196	75572344	1071	45147											
NFKBIA	4792	broad.mit.edu	37	chr14	35872932	35872932	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggaagttgaggaaggccagGtctcccttcacctggcggat	8	9	14	10	1	2	1	1	1	1	0	3	4	2	4	3	6	0	1	3	6	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:35872932G>C	uc001wtf.3	-	2	410	c.300C>G	c.(298-300)GAC>GAG	p.D100E	NFKBIA_uc001wte.3_Missense_Mutation_p.D10E|NFKBIA_uc001wtg.3_Missense_Mutation_p.D100E|NFKBIA_uc010amo.2_Intron	NM_020529	NP_065390	P25963	IKBA_HUMAN	nuclear factor of kappa light polypeptide gene	100	ANK 1.				anti-apoptosis|apoptosis|cellular response to cold|cytoplasmic sequestering of NF-kappaB|innate immune response|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of DNA binding|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|I-kappaB/NF-kappaB complex|nucleus|plasma membrane	identical protein binding|NF-kappaB binding|nuclear localization sequence binding|ubiquitin protein ligase binding			breast(2)	2	Breast(36;0.0484)|Hepatocellular(127;0.158)		Lung(238;9.25e-06)|LUAD - Lung adenocarcinoma(48;1.53e-05)|Epithelial(34;0.00314)|all cancers(34;0.00891)	GBM - Glioblastoma multiforme(112;0.0222)		GGAAGGCCAGGTCTCCCTTCA	0.577													5	12					0	0	1	0	0		C	35872932	C	C	35872932	3	2	66	1	0	0	0	0	1	0	0	0	10396	1252	44	5	673	5	NFKBIA	14	35872932	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4095736	35872932	71476608	1072	45148											
INSM2	84684	broad.mit.edu	37	chr14	36005056	36005057	+	Frame_Shift_Ins	INS	-	T	T																															tgcaagcactgcccgtccacINStttttttagctctccagggc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:36005056_36005057insT	uc001wth.1	+	1	1809_1810	c.1598_1599insT	c.(1597-1599)ACTfs	p.T533fs		NM_032594	NP_115983	Q96T92	INSM2_HUMAN	insulinoma-associated protein IA-6	533	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)|skin(1)	2	Breast(36;0.122)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(9;2.16e-07)|Lung(238;2.63e-07)|Epithelial(34;0.00145)|all cancers(34;0.00452)	GBM - Glioblastoma multiforme(112;0.0223)		TGCCCGTCCACTTTTTTTAGCT	0.629													20	35	---	---	---	---						.	T	36005057	T	T	36005056	7	5	66	1	0	1	1	0	0	0	0	0	7788	565	20	0	1600	0	INSM2	14	36005056	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	132124	36005056	71344484	1073	45149											
CLEC14A	161198	broad.mit.edu	37	chr14	38725131	38725131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgtagcaggcccccgaggCcgagcagccagcacggtcgg	7	3	16	15	4	0	0	0	0	0	0	1	2	0	0	4	4	4	5	4	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:38725131C>T	uc001wum.1	-	1	444	c.97G>A	c.(97-99)GCC>ACC	p.A33T		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	33	Extracellular (Potential).|C-type lectin.					integral to membrane	sugar binding			ovary(3)|skin(1)	4	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00439)		GCCCCCGAGGCCGAGCAGCCA	0.632													4	5					0	0	1	0	0		T	38725131	T	T	38725131	3	4	66	1	0	0	0	0	1	0	0	0	3502	739	26	2	1379	2	CLEC14A	14	38725131	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2720075	38725131	68624409	1074	45150											
CDKL1	8814	broad.mit.edu	37	chr14	50862593	50862593	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatacttctccatcatagaGgaataaatcttcttaaaatg	15	14	4	8	0	5	1	2	0	3	1	6	2	5	2	1	1	1	0	1	1	7	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:50862593G>T	uc010anu.1	-	5	564	c.564C>A	c.(562-564)TCC>TCA	p.S188S	CDKL1_uc001wxz.2_5'UTR	NM_004196	NP_004187	Q00532	CDKL1_HUMAN	cyclin-dependent kinase-like 1	Error:Variant_position_missing_in_Q00532_after_alignment						cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(1)|stomach(1)	2	all_epithelial(31;0.000746)|Breast(41;0.0102)					CCATCATAGAGGAATAAATCT	0.239													5	29					0.014758	0.0148083	1	1	0		T	50862593	T	T	50862593	2	4	66	1	0	0	0	0	0	0	0	1	3156	1015	35	5		5	CDKL1	14	50862593	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	12137462	50862593	56486947	1075	45151											
NIN	51199	broad.mit.edu	37	chr14	51219236	51219236	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtggctacaggccatacCtgcactttacaacgttccag	10	9	9	13	1	0	0	0	0	0	0	1	0	1	0	3	3	5	3	3	3	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:51219236C>A	uc001wym.2	-	21	5141	c.4950G>T	c.(4948-4950)CAG>CAT	p.Q1650H	NIN_uc001wyi.2_Missense_Mutation_p.Q1650H|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.Q937H|NIN_uc010tqp.1_Missense_Mutation_p.Q1656H|NIN_uc001wyo.2_Missense_Mutation_p.Q1650H	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1650	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CAGGCCATACCTGCACTTTAC	0.368			T	PDGFRB	MPD								87	208					3.90494e-43	4.25424e-43	1	1	0		A	51219236	A	A	51219236	3	1	66	1	0	0	0	0	1	0	0	0	10436	695	24	5	1643	5	NIN	14	51219236	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	356643	51219236	56130304	1076	45152											
ABHD12B	145447	broad.mit.edu	37	chr14	51347195	51347195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagtccccagctgccgggggGaagatgccaaggggaaggac	10	3	17	11	1	0	1	0	0	0	1	1	4	1	4	4	6	3	1	4	6	3	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:51347195G>A	uc001wys.2	+	4	376	c.361G>A	c.(361-363)GAA>AAA	p.E121K	ABHD12B_uc001wyq.2_Missense_Mutation_p.E14K|ABHD12B_uc001wyr.2_Missense_Mutation_p.E44K|ABHD12B_uc010any.2_RNA	NM_181533	NP_853511	Q7Z5M8	AB12B_HUMAN	abhydrolase domain containing 12B isoform b	121							hydrolase activity			breast(1)	1	all_epithelial(31;0.00481)|Breast(41;0.148)					CTGCCGGGGGGAAGATGCCAA	0.498													27	71					0	0	1	0	0		A	51347195	A	A	51347195	3	1	66	1	0	0	0	0	1	0	0	0	77	1175	41	4	154	4	ABHD12B	14	51347195	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	127959	51347195	56002345	1077	45153											
GMFB	2764	broad.mit.edu	37	chr14	54944856	54944856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccattcttcagttaggtcttCggtatttcttatttcaaata	9	19	5	8	1	5	0	2	0	3	0	6	0	5	0	1	2	0	2	1	2	5	9			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:54944856C>T	uc010tqz.1	-	7	478	c.379G>A	c.(379-381)GAA>AAA	p.E127K	GMFB_uc001xaw.1_RNA	NM_004124	NP_004115	P60983	GMFB_HUMAN	glia maturation factor, beta	127	ADF-H.				nervous system development|protein phosphorylation	intracellular	actin binding|enzyme activator activity|growth factor activity|protein kinase inhibitor activity|signal transducer activity				0						GTTAGGTCTTCGGTATTTCTT	0.264													5	10					0	0	1	0	0		T	54944856	T	T	54944856	3	4	66	1	0	0	0	0	1	0	0	0	6504	893	31	1	53	1	GMFB	14	54944856	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3597661	54944856	52404684	1078	45154											
PELI2	57161	broad.mit.edu	37	chr14	56763702	56763702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gattttatgtagacgcaggaCcgccaactcatgctttcact	10	12	8	11	2	2	1	2	0	0	1	2	3	2	2	2	1	2	3	2	1	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:56763702C>T	uc001xch.2	+	6	1367	c.1081C>T	c.(1081-1083)CCG>TCG	p.P361S		NM_021255	NP_067078	Q9HAT8	PELI2_HUMAN	pellino 2	361					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1						AGACGCAGGACCGCCAACTCA	0.552													33	96					0	0	1	0	0		T	56763702	T	T	56763702	3	4	66	1	0	0	0	0	1	0	0	0	11741	507	18	4	1103	4	PELI2	14	56763702	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1818846	56763702	50585838	1079	45155											
C14orf37	145407	broad.mit.edu	37	chr14	58606016	58606016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccagacattgtgtggcaaCgctgaaaagcagaaggctac	13	6	13	9	1	0	3	0	1	0	2	0	3	0	3	1	3	3	4	1	3	5	2	rs147297953	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:58606016C>T	uc001xdc.2	-	2	172	c.61G>A	c.(61-63)GTT>ATT	p.V21I	C14orf37_uc010tro.1_Missense_Mutation_p.V59I|C14orf37_uc001xdd.2_Missense_Mutation_p.V21I|C14orf37_uc001xde.2_Missense_Mutation_p.V21I	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	21						integral to membrane	binding				0						TGTGTGGCAACGCTGAAAAGC	0.473													23	85					0	0	1	0	0		T	58606016	T	T	58606016	3	4	66	1	0	0	0	0	1	0	0	0	1774	536	19	1	2291	1	C14orf37	14	58606016	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1842314	58606016	48743524	1080	45156											
C14orf37	145407	broad.mit.edu	37	chr14	58606066	58606066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacaaatgtgcaatacaatcGgtcctctcatagtggaagag	14	9	10	8	1	1	1	1	0	1	1	4	3	2	2	1	2	2	1	1	2	6	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:58606066G>A	uc001xdc.2	-	2	122	c.11C>T	c.(10-12)CCG>CTG	p.P4L	C14orf37_uc010tro.1_Missense_Mutation_p.P42L|C14orf37_uc001xdd.2_Missense_Mutation_p.P4L|C14orf37_uc001xde.2_Missense_Mutation_p.P4L	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	4						integral to membrane	binding				0						CAATACAATCGGTCCTCTCAT	0.433													17	33					0	0	1	0	0		A	58606066	A	A	58606066	3	1	66	1	0	0	0	0	1	0	0	0	1774	1116	39	1	2341	1	C14orf37	14	58606066	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	50	58606066	48743474	1081	45157											
DAAM1	23002	broad.mit.edu	37	chr14	59793693	59793693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcagtggaaagaacaagcGgaaaaaatgagaaaaggtaa	23	3	12	3	1	0	2	0	1	0	2	0	5	0	4	0	3	3	2	0	3	10	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:59793693G>A	uc001xdz.1	+	12	1481	c.1356G>A	c.(1354-1356)GCG>GCA	p.A452A	DAAM1_uc001xea.1_Silent_p.A452A|DAAM1_uc001xeb.1_Silent_p.A452A	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of	452	Potential.				actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		AAGAACAAGCGGAAAAAATGA	0.338													24	57					0	0	1	0	0		A	59793693	A	A	59793693	2	1	66	1	0	0	0	0	0	0	0	1	4218	1103	39	1		1	DAAM1	14	59793693	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1187627	59793693	47555847	1082	45158											
DAAM1	23002	broad.mit.edu	37	chr14	59826194	59826194	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaatctaaatgaagaattgCgagatattcctcaagctgcg	14	11	8	8	2	3	3	2	1	1	2	4	4	4	3	1	0	3	1	1	0	7	4	rs148831209		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:59826194C>T	uc001xdz.1	+	22	2760	c.2635C>T	c.(2635-2637)CGA>TGA	p.R879*	DAAM1_uc001xea.1_Nonsense_Mutation_p.R869*|DAAM1_uc001xec.1_RNA	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of	879	FH2.				actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		TGAAGAATTGCGAGATATTCC	0.368													11	32					0	0	1	0	0		T	59826194	T	T	59826194	4	4	66	1	0	0	0	0	0	1	0	0	4218	760	27	1	2717	1	DAAM1	14	59826194	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	32501	59826194	47523346	1083	45159											
KCNH5	27133	broad.mit.edu	37	chr14	63483611	63483611	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagagtttacaaaaaccGtcattactataaactacagg	17	9	6	9	1	1	1	1	0	0	1	1	2	1	1	2	1	5	1	2	1	8	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:63483611G>A	uc001xfx.2	-	2	186	c.135C>T	c.(133-135)GAC>GAT	p.D45D	KCNH5_uc001xfy.2_Silent_p.D45D|KCNH5_uc001xfz.1_Translation_Start_Site|KCNH5_uc001xga.2_Translation_Start_Site	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	45	Cytoplasmic (Potential).|PAS.				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		TACAAAAACCGTCATTACTAT	0.378													27	55					0	0	1	0	0		A	63483611	A	A	63483611	2	1	66	1	0	0	0	0	0	0	0	1	8051	1136	40	1		1	KCNH5	14	63483611	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3657417	63483611	43865929	1084	45160											
PLEKHG3	26030	broad.mit.edu	37	chr14	65208053	65208053	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccaggccagcgtcattgcGgagcgatttgtcagcagctt	8	9	13	11	3	2	0	2	0	0	0	2	3	2	1	2	2	5	2	2	2	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:65208053G>A	uc001xho.1	+	16	2087	c.1818G>A	c.(1816-1818)GCG>GCA	p.A606A	PLEKHG3_uc001xhn.1_Silent_p.A550A|PLEKHG3_uc001xhp.2_Silent_p.A727A|PLEKHG3_uc010aqh.1_Silent_p.A148A|PLEKHG3_uc001xhq.1_Silent_p.A111A	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	606					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GCGTCATTGCGGAGCGATTTG	0.647													12	31					0	0	1	0	0		A	65208053	A	A	65208053	2	1	66	1	0	0	0	0	0	0	0	1	12089	1103	39	1		1	PLEKHG3	14	65208053	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1724442	65208053	42141487	1085	45161											
DCAF5	8816	broad.mit.edu	37	chr14	69584873	69584873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctccatggggggattccCgaatgtcccaaatgagaacc	11	8	10	12	1	0	1	0	1	0	1	3	4	3	2	5	3	2	0	5	3	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:69584873C>T	uc001xkp.2	-	4	737	c.518G>A	c.(517-519)CGG>CAG	p.R173Q	DCAF5_uc001xkq.2_Missense_Mutation_p.R172Q|DCAF5_uc001xkr.3_Missense_Mutation_p.R173Q	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	173	WD 3.					CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						GGGGGATTCCCGAATGTCCCA	0.458													34	41					0	0	1	0	0		T	69584873	T	T	69584873	3	4	66	1	0	0	0	0	1	0	0	0	4276	652	23	1	2334	1	DCAF5	14	69584873	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4376820	69584873	37764667	1086	45162											
SIPA1L1	26037	broad.mit.edu	37	chr14	72138134	72138134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaagccatatccaggagccGagctcagcagcatgggggcc	10	5	13	13	1	1	0	1	0	0	0	2	2	2	1	4	3	5	3	4	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:72138134G>A	uc001xms.2	+	8	2902	c.2554G>A	c.(2554-2556)GAG>AAG	p.E852K	SIPA1L1_uc001xmt.2_Missense_Mutation_p.E852K|SIPA1L1_uc001xmu.2_Missense_Mutation_p.E852K|SIPA1L1_uc001xmv.2_Missense_Mutation_p.E852K|SIPA1L1_uc010ttm.1_Missense_Mutation_p.E327K	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	852					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TCCAGGAGCCGAGCTCAGCAG	0.502													13	28					0	0	1	0	0		A	72138134	A	A	72138134	3	1	66	1	0	0	0	0	1	0	0	0	14354	1059	37	1	2580	1	SIPA1L1	14	72138134	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2553261	72138134	35211406	1087	45163											
C14orf45	80127	broad.mit.edu	37	chr14	74516522	74516523	+	Frame_Shift_Del	DEL	AA	-	-																															ctgctctgagttacatgaccAaagagtttgagagtgaagtt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:74516522_74516523delAA	uc010tup.1	+	8	1033_1034	c.910_911delAA	c.(910-912)AAAfs	p.K304fs	C14orf45_uc001xpm.1_RNA	NM_025057	NP_079333	Q8ND07	CN045_HUMAN	hypothetical protein LOC80127	304	Potential.										0				BRCA - Breast invasive adenocarcinoma(234;0.00351)		TTACATGACCAAAGAGTTTGAG	0.421													31	35	---	---	---	---						.	-	74516523	-	-	74516522	7	5	66	1	0	1	0	1	0	0	0	0	1778	131	5	0	940	0	C14orf45	14	74516522	Frame_Shift_Del	DEL	AA	TCGA-BR-8361-01A-11D-2340-08	2378388	74516522	32833018	1088	45164											
MLH3	27030	broad.mit.edu	37	chr14	75514685	75514685	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggctggcatcccacttcAgtagcatctttaaatctctt	10	13	7	11	0	3	1	1	0	2	1	5	1	4	1	1	2	1	4	1	2	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:75514685A>C	uc001xrd.1	-	2	1890	c.1674T>G	c.(1672-1674)ACT>ACG	p.T558T	MLH3_uc001xre.1_Silent_p.T558T|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	558					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		ATCCCACTTCAGTAGCATCTT	0.368								MMR					39	34					0	0	1	0	0		C	75514685	C	C	75514685	2	2	66	1	0	0	0	0	0	0	0	1	9636	175	7	5		5	MLH3	14	75514685	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	998163	75514685	31834855	1089	45165											
NRXN3	9369	broad.mit.edu	37	chr14	79181374	79181374	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcacggatgagtgccaagCagtgtgacagctacccctgc	9	8	12	12	1	1	2	1	2	0	0	1	3	1	3	3	1	5	3	3	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:79181374C>T	uc001xun.2	+	5	1308	c.817C>T	c.(817-819)CAG>TAG	p.Q273*	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Nonsense_Mutation_p.Q407*	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	646	EGF-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GAGTGCCAAGCAGTGTGACAG	0.557													9	24					0	0	1	0	0		T	79181374	T	T	79181374	4	4	66	1	0	0	0	0	0	1	0	0	10686	711	25	2	827	2	NRXN3	14	79181374	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3666689	79181374	28168166	1090	45166											
EML5	161436	broad.mit.edu	37	chr14	89206753	89206753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgggctccttgtattgttCgtataagattgattcctttc	7	18	8	8	1	0	2	0	1	0	1	4	2	2	2	2	1	0	4	2	1	3	9			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:89206753C>T	uc001xxg.2	-	6	875	c.689G>A	c.(688-690)CGA>CAA	p.R230Q		NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	230	WD 4.					cytoplasm|microtubule				ovary(3)	3						TTGTATTGTTCGTATAAGATT	0.353													14	15					0	0	1	0	0		T	89206753	T	T	89206753	3	4	66	1	0	0	0	0	1	0	0	0	5108	884	31	1	5400	1	EML5	14	89206753	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	10025379	89206753	18142787	1091	45167											
SLC24A4	123041	broad.mit.edu	37	chr14	92790255	92790255	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcaagtcggcttcgtgtgCgcggtgctggccctggtgtg	3	10	17	11	4	0	0	0	0	0	0	2	0	0	0	1	4	3	3	1	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:92790255C>T	uc001yak.2	+	1	54	c.30C>T	c.(28-30)TGC>TGT	p.C10C	SLC24A4_uc001yai.2_Intron|SLC24A4_uc010twm.1_Silent_p.C27C|SLC24A4_uc001yaj.2_Silent_p.C10C	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	27						integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		GCTTCGTGTGCGCGGTGCTGG	0.701													9	8					0	0	1	0	0		T	92790255	T	T	92790255	2	4	66	1	0	0	0	0	0	0	0	1	14493	776	27	1		1	SLC24A4	14	92790255	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3583502	92790255	14559285	1092	45168											
PPP1R13B	23368	broad.mit.edu	37	chr14	104206767	104206767	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccgtggcaggctctccacGgtgctgccatctgcgggggc	3	7	17	14	3	2	0	0	0	2	0	3	0	2	0	3	6	3	3	3	6	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr14:104206767G>A	uc001yof.1	-	12	2269	c.1986C>T	c.(1984-1986)ACC>ACT	p.T662T	PPP1R13B_uc010awv.1_RNA|PPP1R13B_uc001yog.1_Silent_p.T529T	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	662	Pro-rich.				apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				GGCTCTCCACGGTGCTGCCAT	0.652													25	30					0	0	1	0	0		A	104206767	A	A	104206767	2	1	66	1	0	0	0	0	0	0	0	1	12379	1103	39	1		1	PPP1R13B	14	104206767	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	11416512	104206767	3142773	1093	45169											
OR4M2	390538	broad.mit.edu	37	chr15	22368649	22368649	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagactccagaggtccaacTagtcctatttgttatatttc	10	14	6	11	0	0	2	0	0	0	2	4	2	3	2	4	1	1	1	4	1	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:22368649T>G	uc010tzu.1	+	1	74	c.74T>G	c.(73-75)CTA>CGA	p.L25R	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	25	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GAGGTCCAACTAGTCCTATTT	0.383													59	343					0	0	1	0	0		G	22368649	G	G	22368649	3	3	66	1	0	0	0	0	1	0	0	0	11095	1522	53	5	76	5	OR4M2	15	22368649	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08		22368649	80162743	1094	45170											
OR4N4	283694	broad.mit.edu	37	chr15	22383027	22383027	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtgatgtccgacaggtcatCaagctggcttgcaccgacat	9	10	11	11	2	2	1	2	1	0	0	3	3	3	1	2	2	2	3	2	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:22383027C>T	uc001yuc.1	+	7	1536	c.555C>T	c.(553-555)ATC>ATT	p.I185I	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Silent_p.I185I	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GACAGGTCATCAAGCTGGCTT	0.517													44	125					0	0	1	0	0		T	22383027	T	T	22383027	2	4	66	1	0	0	0	0	0	0	0	1	11097	816	29	4		4	OR4N4	15	22383027	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	14378	22383027	80148365	1095	45171											
CYFIP1	23191	broad.mit.edu	37	chr15	22999351	22999351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgcagcaaattgccatcGcaagagagggggacctgctg	10	8	13	10	1	1	1	0	0	1	1	2	3	1	2	2	2	4	4	2	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:22999351G>A	uc001yus.2	+	29	3327	c.3223G>A	c.(3223-3225)GCA>ACA	p.A1075T	CYFIP1_uc001yut.2_Missense_Mutation_p.A1075T|CYFIP1_uc001yuu.2_Missense_Mutation_p.A644T|CYFIP1_uc001yuv.2_Missense_Mutation_p.A269T	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	1075					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		AATTGCCATCGCAAGAGAGGG	0.527													20	48					0	0	1	0	0		A	22999351	A	A	22999351	3	1	66	1	0	0	0	0	1	0	0	0	4140	1087	38	1	3714	1	CYFIP1	15	22999351	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	616324	22999351	79532041	1096	45172											
C15orf2	23742	broad.mit.edu	37	chr15	24921855	24921855	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagttggctgcggaagtgCtgaatgaagagccaccgccc	11	6	14	10	2	0	4	0	2	0	2	0	5	0	5	3	2	3	3	3	2	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:24921855C>T	uc001ywo.2	+	1	1315	c.841C>T	c.(841-843)CTG>TTG	p.L281L		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	281					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		TGCGGAAGTGCTGAATGAAGA	0.592													4	48					0	0	1	0	0		T	24921855	T	T	24921855	2	4	66	1	0	0	0	0	0	0	0	1	1787	796	28	2		2	C15orf2	15	24921855	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1922504	24921855	77609537	1097	45173											
OCA2	4948	broad.mit.edu	37	chr15	28117031	28117031	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattagcaaagcagtttgtTctccaacatattctattaag	13	16	5	7	0	2	0	0	0	2	0	3	0	2	0	1	0	3	4	1	0	7	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:28117031T>C	uc001zbh.3	-	20	2227	c.2117A>G	c.(2116-2118)GAA>GGA	p.E706G	OCA2_uc010ayv.2_Missense_Mutation_p.E682G	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	706	Extracellular (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		AGCAGTTTGTTCTCCAACATA	0.318									Oculocutaneous_Albinism				17	61					0	0	1	0	0		C	28117031	C	C	28117031	3	2	66	1	0	0	0	0	1	0	0	0	10834	1783	62	3	419	3	OCA2	15	28117031	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3195176	28117031	74414361	1098	45174											
CHRFAM7A	89832	broad.mit.edu	37	chr15	30659622	30659622	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggtgggaggaacgtaccCacttgggcatcttgcccccg	6	7	16	12	2	1	0	0	0	1	0	1	2	1	2	3	5	3	2	3	5	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:30659622C>G	uc001zdt.1	-	9	1285	c.719G>C	c.(718-720)TGG>TCG	p.W240S	DKFZP434L187_uc001zds.2_Intron|CHRFAM7A_uc001zdu.1_Missense_Mutation_p.W149S|CHRFAM7A_uc010azn.2_Missense_Mutation_p.W149S	NM_139320	NP_647536	Q494W8	CRFM7_HUMAN	CHRNA7-FAM7A fusion isoform 1	240	Helical; (Potential).					integral to membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity			skin(1)	1		all_lung(180;3.42e-11)|Breast(32;0.000153)		all cancers(64;1.9e-15)|Epithelial(43;3.59e-12)|GBM - Glioblastoma multiforme(186;9e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)|Lung(196;0.153)		GGAACGTACCCACTTGGGCAT	0.572													5	31					0	0	1	0	0		G	30659622	G	G	30659622	3	3	66	1	0	0	0	0	1	0	0	0	3378	608	21	5	527	5	CHRFAM7A	15	30659622	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2542591	30659622	71871770	1099	45175											
CHRFAM7A	89832	broad.mit.edu	37	chr15	30659688	30659688	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgatcaccgtcaccaccAccgagaggcccacgatgatc	11	4	9	17	4	2	2	2	1	0	1	3	5	2	2	5	1	0	1	5	1	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:30659688A>G	uc001zdt.1	-	9	1219	c.653T>C	c.(652-654)GTG>GCG	p.V218A	DKFZP434L187_uc001zds.2_Intron|CHRFAM7A_uc001zdu.1_Missense_Mutation_p.V127A|CHRFAM7A_uc010azn.2_Missense_Mutation_p.V127A	NM_139320	NP_647536	Q494W8	CRFM7_HUMAN	CHRNA7-FAM7A fusion isoform 1	218	Helical; (Potential).					integral to membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity			skin(1)	1		all_lung(180;3.42e-11)|Breast(32;0.000153)		all cancers(64;1.9e-15)|Epithelial(43;3.59e-12)|GBM - Glioblastoma multiforme(186;9e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)|Lung(196;0.153)		CGTCACCACCACCGAGAGGCC	0.632													10	39					0	0	1	0	0		G	30659688	G	G	30659688	3	3	66	1	0	0	0	0	1	0	0	0	3378	159	6	3	593	3	CHRFAM7A	15	30659688	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	66	30659688	71871704	1100	45176											
CHRFAM7A	89832	broad.mit.edu	37	chr15	30664463	30664463	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagtagagcgtcctgcggCgcatggtcactgtgaaggtg	8	9	15	9	3	1	2	1	1	0	1	2	2	2	2	1	3	2	2	1	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:30664463C>T	uc001zdt.1	-	7	976	c.410G>A	c.(409-411)CGC>CAC	p.R137H	DKFZP434L187_uc001zds.2_Intron|CHRFAM7A_uc001zdu.1_Missense_Mutation_p.R46H|CHRFAM7A_uc010azn.2_Missense_Mutation_p.R46H	NM_139320	NP_647536	Q494W8	CRFM7_HUMAN	CHRNA7-FAM7A fusion isoform 1	137						integral to membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity			skin(1)	1		all_lung(180;3.42e-11)|Breast(32;0.000153)		all cancers(64;1.9e-15)|Epithelial(43;3.59e-12)|GBM - Glioblastoma multiforme(186;9e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)|Lung(196;0.153)		CGTCCTGCGGCGCATGGTCAC	0.587													17	49					0	0	1	0	0		T	30664463	T	T	30664463	3	4	66	1	0	0	0	0	1	0	0	0	3378	768	27	1	844	1	CHRFAM7A	15	30664463	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4775	30664463	71866929	1101	45177											
MTMR15	22909	broad.mit.edu	37	chr15	31210380	31210380	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagatatgcagcagccAcgcacatgctgagtgacatt	11	8	9	13	1	0	3	0	2	0	1	1	3	1	3	3	0	4	4	3	0	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:31210380A>G	uc001zff.2	+	6	2116	c.1825A>G	c.(1825-1827)ACG>GCG	p.T609A	MTMR15_uc001zfe.2_Missense_Mutation_p.T214A	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a	609					double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		TGCAGCAGCCACGCACATGCT	0.468								Direct_reversal_of_damage|Editing_and_processing_nucleases					26	58					0	0	1	0	0		G	31210380	G	G	31210380	3	3	66	1	0	0	0	0	1	0	0	0	9961	159	6	3	1868	3	MTMR15	15	31210380	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	545917	31210380	71321012	1102	45178											
DISP2	85455	broad.mit.edu	37	chr15	40661852	40661852	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagctttgacaccagcaCagccaccagcaagctgtccc	10	5	7	19	0	0	1	0	1	0	0	1	1	1	1	6	0	5	4	6	0	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:40661852C>A	uc001zlk.1	+	8	3628	c.3539C>A	c.(3538-3540)ACA>AAA	p.T1180K		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	1180					smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		GACACCAGCACAGCCACCAGC	0.657													16	67					6.94344e-10	7.29454e-10	1	1	0		A	40661852	A	A	40661852	3	1	66	1	0	0	0	0	1	0	0	0	4546	478	17	5	3569	5	DISP2	15	40661852	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	9451472	40661852	61869540	1103	45179											
BAHD1	22893	broad.mit.edu	37	chr15	40751414	40751414	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgaggccaaagtggcccAaggtcaatggcaagaactat	13	5	11	12	1	1	1	1	0	0	1	1	2	1	1	4	4	1	1	4	4	6	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:40751414A>G	uc001zlu.2	+	2	822	c.751A>G	c.(751-753)AAG>GAG	p.K251E	BAHD1_uc001zlt.2_Missense_Mutation_p.K251E|BAHD1_uc010bbp.1_Missense_Mutation_p.K251E|BAHD1_uc001zlv.2_Missense_Mutation_p.K251E	NM_014952	NP_055767	Q8TBE0	BAHD1_HUMAN	bromo adjacent homology domain containing 1	251	Pro-rich.				heterochromatin formation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin silencing complex|chromosome	chromatin binding|DNA binding|protein binding				0		all_cancers(109;8.28e-19)|all_epithelial(112;2.64e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.46e-06)|BRCA - Breast invasive adenocarcinoma(123;0.08)		AAAGTGGCCCAAGGTCAATGG	0.667													13	23					0	0	1	0	0		G	40751414	G	G	40751414	3	3	66	1	0	0	0	0	1	0	0	0	1298	131	5	3	753	3	BAHD1	15	40751414	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	89562	40751414	61779978	1104	45180											
RPUSD2	27079	broad.mit.edu	37	chr15	40865992	40865992	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaacgaccccatctacaaCtcagttgcctggggtccttc	8	10	7	16	1	3	0	2	0	1	0	5	1	4	0	4	2	4	1	4	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:40865992C>A	uc001zmd.1	+	3	1170	c.1170C>A	c.(1168-1170)AAC>AAA	p.N390K		NM_152260	NP_689473	Q8IZ73	RUSD2_HUMAN	RNA pseudouridylate synthase domain containing	390					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			skin(1)	1		all_cancers(109;2.74e-14)|all_epithelial(112;1.64e-11)|Lung NSC(122;6.69e-09)|all_lung(180;1.22e-07)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.1e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0786)		CCATCTACAACTCAGTTGCCT	0.592													4	42					0.150653	0.15091	1	1	0		A	40865992	A	A	40865992	3	1	66	1	0	0	0	0	1	0	0	0	13692	564	20	5	1180	5	RPUSD2	15	40865992	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	114578	40865992	61665400	1105	45181											
CASC5	57082	broad.mit.edu	37	chr15	40915924	40915924	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attaggcccatggacaaaacCgtattgttcacagataatta	15	11	7	8	1	1	1	1	0	0	1	1	2	1	2	2	2	1	2	2	2	6	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:40915924C>T	uc010bbs.1	+	11	3701	c.3540C>T	c.(3538-3540)ACC>ACT	p.T1180T	CASC5_uc010ucq.1_Silent_p.T1004T|CASC5_uc001zme.2_Silent_p.T1154T|CASC5_uc010bbt.1_Silent_p.T1154T	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	1180	2.|2 X 104 AA approximate repeats.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		TGGACAAAACCGTATTGTTCA	0.418													24	57					0	0	1	0	0		T	40915924	T	T	40915924	2	4	66	1	0	0	0	0	0	0	0	1	2666	639	23	1		1	CASC5	15	40915924	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	49932	40915924	61615468	1106	45182											
ZFYVE19	84936	broad.mit.edu	37	chr15	41105091	41105091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatgctgcggggacaggacCccgagagaggtgaaggctgg	9	4	18	10	2	0	2	0	1	0	1	0	6	0	4	3	6	2	2	3	6	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:41105091C>T	uc001zmt.1	+	7	1535	c.1021C>T	c.(1021-1023)CCC>TCC	p.P341S	ZFYVE19_uc001zmu.1_Intron|ZFYVE19_uc001zmv.1_Missense_Mutation_p.P166S|ZFYVE19_uc001zmw.1_Missense_Mutation_p.P166S|ZFYVE19_uc001zmx.1_Missense_Mutation_p.P166S|ZFYVE19_uc010bcc.1_Missense_Mutation_p.P166S	NM_001077268	NP_001070736	Q96K21	ZFY19_HUMAN	zinc finger, FYVE domain containing 19	341	Potential.						zinc ion binding				0		all_cancers(109;3.31e-18)|all_epithelial(112;2.33e-15)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;2.76e-05)|COAD - Colon adenocarcinoma(120;0.151)|BRCA - Breast invasive adenocarcinoma(123;0.164)		GGGACAGGACCCCGAGAGAGG	0.637													8	30					0	0	1	0	0		T	41105091	T	T	41105091	3	4	66	1	0	0	0	0	1	0	0	0	17690	623	22	4	1047	4	ZFYVE19	15	41105091	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	189167	41105091	61426301	1107	45183											
ITPKA	3706	broad.mit.edu	37	chr15	41794294	41794294	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggatcctgaagctcccacGgaggaggagcacgcgcagcg	9	4	16	12	4	0	1	0	1	0	0	2	5	2	5	2	4	3	3	2	4	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:41794294G>A	uc001znz.2	+	4	914	c.903G>A	c.(901-903)ACG>ACA	p.T301T		NM_002220	NP_002211	P23677	IP3KA_HUMAN	1D-myo-inositol-trisphosphate 3-kinase A	301					signal transduction		ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity				0		all_cancers(109;1.89e-19)|all_epithelial(112;2.28e-16)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.172)		OV - Ovarian serous cystadenocarcinoma(18;7.63e-17)|GBM - Glioblastoma multiforme(113;1.34e-06)|Colorectal(105;0.0148)|BRCA - Breast invasive adenocarcinoma(123;0.113)		AAGCTCCCACGGAGGAGGAGC	0.642													4	9					0	0	1	0	0		A	41794294	A	A	41794294	2	1	66	1	0	0	0	0	0	0	0	1	7933	1103	39	1		1	ITPKA	15	41794294	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	689203	41794294	60737098	1108	45184											
MGA	23269	broad.mit.edu	37	chr15	42021442	42021442	+	Frame_Shift_Del	DEL	A	-	-																															cgagttcgagtatatgagcgAaaaaaagaggaccagagaca																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:42021442delA	uc010ucy.1	+	11	3919	c.3738delA	c.(3736-3738)CGAfs	p.R1246fs	MGA_uc010ucz.1_Frame_Shift_Del_p.R1246fs	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1246						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		TATATGAGCGAAAAAAAGAGG	0.413													13	23	---	---	---	---						.	-	42021442	-	-	42021442	7	5	66	1	0	1	0	1	0	0	0	0	9558	233	9	0	3776	0	MGA	15	42021442	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	227148	42021442	60509950	1109	45185											
PLA2G4F	255189	broad.mit.edu	37	chr15	42441943	42441943	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagcctcactcaatcccaGcacttgctgcagggccttgg	8	8	10	15	0	2	1	2	0	0	1	3	1	3	1	3	2	4	3	3	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:42441943G>T	uc001zoz.2	-	11	1090	c.1027C>A	c.(1027-1029)CTG>ATG	p.L343M	PLA2G4F_uc001zoy.2_5'Flank|PLA2G4F_uc010bcr.2_Missense_Mutation_p.L94M|PLA2G4F_uc001zpa.2_Missense_Mutation_p.L94M|PLA2G4F_uc010bcs.2_Missense_Mutation_p.L130M	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	343	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		CTCAATCCCAGCACTTGCTGC	0.582													12	21					3.07112e-06	3.15876e-06	1	1	0		T	42441943	T	T	42441943	3	4	66	1	0	0	0	0	1	0	0	0	12025	962	34	5	1562	5	PLA2G4F	15	42441943	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	420501	42441943	60089449	1110	45186											
GANC	2595	broad.mit.edu	37	chr15	42632112	42632113	+	Splice_Site	INS	-	A	A																															ttcccaacctgtcatgaggtINSaaaaaagcttcatccattca																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:42632112_42632113insA	uc001zpi.2	+	17	2401	c.2087_splice	c.e17+2	p.R696_splice		NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C						carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		TGTCATGAGGTAAAAAAGCTTC	0.45													24	55	---	---	---	---						.	A	42632113	A	A	42632112	8	5	66	1	0	1	1	0	0	0	1	0	6249	1652	57	0	2155	0	GANC	15	42632112	Splice_Site	INS	-	TCGA-BR-8361-01A-11D-2340-08	190169	42632112	59899280	1111	45187											
ZFP106	64397	broad.mit.edu	37	chr15	42743714	42743714	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccaattatttgtactacgTacactggatttccagtttcc	9	17	5	10	1	0	0	0	0	0	0	3	1	3	1	3	1	3	3	3	1	5	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:42743714T>C	uc001zpw.2	-	2	1022	c.687A>G	c.(685-687)GTA>GTG	p.V229V	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Silent_p.V12V|ZFP106_uc001zpy.1_Silent_p.V252V	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	229						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		TTGTACTACGTACACTGGATT	0.403													39	103					0	0	1	0	0		C	42743714	C	C	42743714	2	2	66	1	0	0	0	0	0	0	0	1	17662	1625	57	3		3	ZFP106	15	42743714	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	111602	42743714	59787678	1112	45188											
TGM5	9333	broad.mit.edu	37	chr15	43548790	43548790	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccatagttccagggacatggGcggatccagttcttgctgcc	7	10	12	12	1	1	0	0	0	1	0	3	2	3	2	4	3	2	3	4	3	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:43548790G>T	uc001zrd.1	-	4	539	c.531C>A	c.(529-531)CGC>CGA	p.R177R	TGM5_uc001zre.1_Silent_p.R95R	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	177					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	AGGGACATGGGCGGATCCAGT	0.557													52	88					1.4374e-25	1.5602e-25	1	1	0		T	43548790	T	T	43548790	2	4	66	1	0	0	0	0	0	0	0	1	15858	1190	42	5		5	TGM5	15	43548790	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	805076	43548790	58982602	1113	45189											
MAP1A	4130	broad.mit.edu	37	chr15	43814120	43814120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcttcctgatgcctcccGgaaagccaagcgtagcattg	8	8	12	13	3	0	1	0	1	0	0	2	2	2	2	4	2	4	3	4	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:43814120G>A	uc001zrt.2	+	4	916	c.449G>A	c.(448-450)CGG>CAG	p.R150Q		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	150						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	GATGCCTCCCGGAAAGCCAAG	0.542													17	31					0	0	1	0	0		A	43814120	A	A	43814120	3	1	66	1	0	0	0	0	1	0	0	0	9245	1116	39	1	451	1	MAP1A	15	43814120	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	265330	43814120	58717272	1114	45190											
FRMD5	84978	broad.mit.edu	37	chr15	44166366	44166366	+	Frame_Shift_Del	DEL	C	-	-																															gacacagggccctcagctctCccccaagggcctccacctct																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:44166366delC	uc001ztl.2	-	14	1607	c.1430delG	c.(1429-1431)GGAfs	p.G477fs	FRMD5_uc001ztj.1_Frame_Shift_Del_p.G150fs|FRMD5_uc001ztk.1_Frame_Shift_Del_p.G383fs|FRMD5_uc010uef.1_Frame_Shift_Del_p.G150fs|FRMD5_uc001ztm.2_Frame_Shift_Del_p.G150fs|FRMD5_uc001ztn.2_Frame_Shift_Del_p.G243fs	NM_032892	NP_116281	Q7Z6J6	FRMD5_HUMAN	FERM domain containing 5 isoform 2	477						cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(109;2.29e-15)|all_epithelial(112;9.98e-13)|Lung NSC(122;4.89e-08)|all_lung(180;5.08e-07)|Melanoma(134;0.0275)		all cancers(107;8.63e-20)|GBM - Glioblastoma multiforme(94;3.63e-06)		CCTCAGCTCTCCCCCAAGGGC	0.577													34	74	---	---	---	---						.	-	44166366	-	-	44166366	7	5	66	1	0	1	0	1	0	0	0	0	6067	855	30	0	286	0	FRMD5	15	44166366	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	352246	44166366	58365026	1115	45191											
SPG11	80208	broad.mit.edu	37	chr15	44907730	44907730	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttaggaggaagcattcaaAgtcttccagttcagatgcca	12	11	9	9	0	4	1	2	0	2	1	5	3	5	3	2	2	2	2	2	2	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:44907730A>C	uc001ztx.2	-	16	2900	c.2869T>G	c.(2869-2871)TTT>GTT	p.F957V	SPG11_uc010ueh.1_Missense_Mutation_p.F957V|SPG11_uc010uei.1_Missense_Mutation_p.F957V|SPG11_uc001ztz.1_Missense_Mutation_p.F116V	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	957	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		AAGCATTCAAAGTCTTCCAGT	0.413													23	48					0	0	1	0	0		C	44907730	C	C	44907730	3	2	66	1	0	0	0	0	1	0	0	0	15066	72	3	5	4562	5	SPG11	15	44907730	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	741364	44907730	57623662	1116	45192											
DUOX1	53905	broad.mit.edu	37	chr15	45436333	45436333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcaggctcaccgtgctccGcaccatccagctgcagcctc	6	7	10	18	2	1	0	1	0	0	0	4	0	3	0	5	2	4	6	5	2	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:45436333G>A	uc001zus.1	+	18	2382	c.2036G>A	c.(2035-2037)CGC>CAC	p.R679H	DUOX1_uc001zut.1_Missense_Mutation_p.R679H|DUOX1_uc010bee.1_Missense_Mutation_p.R59H	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	679	Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		ACCGTGCTCCGCACCATCCAG	0.622													11	55					0	0	1	0	0		A	45436333	A	A	45436333	3	1	66	1	0	0	0	0	1	0	0	0	4806	1087	38	1	2098	1	DUOX1	15	45436333	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	528603	45436333	57095059	1117	45193											
MYEF2	50804	broad.mit.edu	37	chr15	48460873	48460873	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcttgccatttcatgtcatAtgggatgttgctaatgaaaa	12	14	9	6	0	2	1	2	1	0	0	2	2	2	2	1	1	3	3	1	1	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:48460873A>G	uc001zwi.3	-	2	449	c.325T>C	c.(325-327)TAT>CAT	p.Y109H	MYEF2_uc001zwj.3_Missense_Mutation_p.Y109H|MYEF2_uc001zwl.2_5'UTR	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	109	RRM 1.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		TTCATGTCATATGGGATGTTG	0.393													28	74					0	0	1	0	0		G	48460873	G	G	48460873	3	3	66	1	0	0	0	0	1	0	0	0	10042	449	16	3	1541	3	MYEF2	15	48460873	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3024540	48460873	54070519	1118	45194											
FBN1	2200	broad.mit.edu	37	chr15	48797303	48797303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcagtgttgacgcaacGcccattcatgcagatcccag	10	8	9	14	2	2	2	2	1	0	1	3	2	3	2	3	0	2	3	3	0	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:48797303G>A	uc001zwx.1	-	16	2207	c.1879C>T	c.(1879-1881)CGT>TGT	p.R627C		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	627	EGF-like 10; calcium-binding.		R -> C (in MFS; enhances proteolytic degradation).		heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		TTGACGCAACGCCCATTCATG	0.448													30	66					0	0	1	0	0		A	48797303	A	A	48797303	3	1	66	1	0	0	0	0	1	0	0	0	5716	1087	38	1	6940	1	FBN1	15	48797303	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	336430	48797303	53734089	1119	45195											
DMXL2	23312	broad.mit.edu	37	chr15	51860757	51860757	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccatatgaagctgcaatcTaaaaaagaataaatacagca	21	8	5	7	0	1	2	0	1	1	1	1	2	1	2	1	0	5	3	1	0	11	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:51860757T>A	uc002abf.2	-	3	439	c.214_splice	c.e3-1	p.I72_splice	DMXL2_uc010ufy.1_Splice_Site_p.I72_splice|DMXL2_uc010bfa.2_Splice_Site_p.I72_splice|DMXL2_uc002abg.2_Intron	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2							cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		AGCTGCAATCTAAAAAAGAAT	0.254													10	17					0	0	1	0	0		A	51860757	A	A	51860757	5	1	66	1	0	0	0	0	0	0	1	0	4601	1536	53	5	9065	5	DMXL2	15	51860757	Splice_Site	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3063454	51860757	50670635	1120	45196											
SCG3	29106	broad.mit.edu	37	chr15	52005589	52005589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgaatggttgaagaaacatGacaaaaagggaaataaagaa	22	7	10	2	0	0	5	0	3	0	2	0	6	0	6	0	2	1	1	0	2	9	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:52005589G>A	uc002abh.2	+	11	1675	c.1267G>A	c.(1267-1269)GAC>AAC	p.D423N	SCG3_uc010ufz.1_Missense_Mutation_p.D191N	NM_013243	NP_037375	Q8WXD2	SCG3_HUMAN	secretogranin III isoform 1 precursor	423					platelet activation|platelet degranulation	extracellular region|stored secretory granule				ovary(1)	1				all cancers(107;0.00488)		GAAGAAACATGACAAAAAGGG	0.368													14	49					0	0	1	0	0		A	52005589	A	A	52005589	3	1	66	1	0	0	0	0	1	0	0	0	13917	1290	45	4	1309	4	SCG3	15	52005589	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	144832	52005589	50525803	1121	45197											
LEO1	123169	broad.mit.edu	37	chr15	52254643	52254643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgcaatcgcattcttgcGtttcattcgtaaaacttcat	11	15	6	9	3	3	1	2	0	1	1	5	1	3	1	0	0	3	4	0	0	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:52254643G>A	uc002abo.2	-	3	878	c.862C>T	c.(862-864)CGC>TGC	p.R288C	LEO1_uc010bfd.2_Missense_Mutation_p.R288C	NM_138792	NP_620147	Q8WVC0	LEO1_HUMAN	Leo1, Paf1/RNA polymerase II complex component,	288	Asp-rich.				histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding				0				all cancers(107;0.00264)		GCATTCTTGCGTTTCATTCGT	0.358													18	34					0	0	1	0	0		A	52254643	A	A	52254643	3	1	66	1	0	0	0	0	1	0	0	0	8742	1145	40	1	1178	1	LEO1	15	52254643	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	249054	52254643	50276749	1122	45198											
ONECUT1	3175	broad.mit.edu	37	chr15	53081395	53081395	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtgaggtgctgctccccGtggcggccgagcatggccgg	3	6	19	13	5	0	1	0	1	0	0	1	2	1	1	4	6	3	3	4	6	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:53081395G>A	uc002aci.1	-	1	815	c.687C>T	c.(685-687)CAC>CAT	p.H229H		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	229					endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		GCTGCTCCCCGTGGCGGCCGA	0.726													23	34					0	0	1	0	0		A	53081395	A	A	53081395	2	1	66	1	0	0	0	0	0	0	0	1	10887	1136	40	1		1	ONECUT1	15	53081395	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	826752	53081395	49449997	1123	45199											
NEDD4	4734	broad.mit.edu	37	chr15	56122114	56122114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctaatcaactccatcaaagCcctgggtgttttcaattgcc	10	13	6	12	0	4	0	3	0	1	0	5	0	5	0	3	1	3	1	3	1	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:56122114C>T	uc002adj.2	-	25	4241	c.3941G>A	c.(3940-3942)GGC>GAC	p.G1314D	NEDD4_uc002adl.2_Missense_Mutation_p.G895D|NEDD4_uc002adi.2_Missense_Mutation_p.G1242D|NEDD4_uc010ugj.1_Missense_Mutation_p.G1298D|NEDD4_uc010bfm.2_Missense_Mutation_p.G1297D|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	1314	HECT.				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		TCCATCAAAGCCCTGGGTGTT	0.358													5	26					0	0	1	0	0		T	56122114	T	T	56122114	3	4	66	1	0	0	0	0	1	0	0	0	10329	739	26	2	22	2	NEDD4	15	56122114	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3040719	56122114	46409278	1124	45200											
MYO1E	4643	broad.mit.edu	37	chr15	59506895	59506895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatgttgtattcttcatggtCtttctccatggctttattga	7	20	7	7	0	4	1	1	1	3	0	5	1	4	1	1	2	0	3	1	2	3	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:59506895C>T	uc002aga.2	-	11	1504	c.1132G>A	c.(1132-1134)GAC>AAC	p.D378N		NM_004998	NP_004989	Q12965	MYO1E_HUMAN	myosin IE	378	Myosin head-like.				actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)		TCTTCATGGTCTTTCTCCATG	0.428													29	114					0	0	1	0	0		T	59506895	T	T	59506895	3	4	66	1	0	0	0	0	1	0	0	0	10090	913	32	4	2266	4	MYO1E	15	59506895	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3384781	59506895	43024497	1125	45201											
CA12	771	broad.mit.edu	37	chr15	63632625	63632625	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcttcaatgttgaatccCgggacgaatgcttcctggcc	8	11	10	12	2	2	1	1	1	1	0	4	3	4	2	3	2	2	3	3	2	3	3	rs139249118		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:63632625C>T	uc002amc.2	-	7	765	c.609G>A	c.(607-609)CCG>CCA	p.P203P	CA12_uc002amd.2_Silent_p.P203P|CA12_uc002ame.2_Silent_p.P143P	NM_001218	NP_001209	O43570	CAH12_HUMAN	carbonic anhydrase XII isoform 1 precursor	203	Extracellular (Potential).				one-carbon metabolic process	integral to membrane	carbonate dehydratase activity|zinc ion binding			ovary(1)	1					Acetazolamide(DB00819)	TGTTGAATCCCGGGACGAATG	0.572													23	42					0	0	1	0	0		T	63632625	T	T	63632625	2	4	66	1	0	0	0	0	0	0	0	1	2516	639	23	1		1	CA12	15	63632625	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4125730	63632625	38898767	1126	45202											
HERC1	8925	broad.mit.edu	37	chr15	64005666	64005666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttactcctaatattaacaggGcacaccgatggatcacggag	13	9	9	10	2	1	0	1	0	0	0	2	3	2	2	2	3	2	1	2	3	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:64005666G>A	uc002amp.2	-	23	4497	c.4349C>T	c.(4348-4350)GCC>GTC	p.A1450V	HERC1_uc010uil.1_Missense_Mutation_p.A434V	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	1450					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TATTAACAGGGCACACCGATG	0.517													20	38					0	0	1	0	0		A	64005666	A	A	64005666	3	1	66	1	0	0	0	0	1	0	0	0	7073	1203	42	2	10460	2	HERC1	15	64005666	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	373041	64005666	38525726	1127	45203											
RAB11A	8766	broad.mit.edu	37	chr15	66169844	66169844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacacagcagggcaagagcGatatcgagctataacatcag	15	5	12	9	2	1	1	1	0	0	1	2	4	1	2	0	2	4	3	0	2	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:66169844G>A	uc002apk.2	+	2	343	c.215G>A	c.(214-216)CGA>CAA	p.R72Q	RAB11A_uc010ujk.1_Missense_Mutation_p.R72Q	NM_004663	NP_004654	P62491	RB11A_HUMAN	Ras-related protein Rab-11A	72					cell cycle|cytokinesis|neuron projection development|plasma membrane to endosome transport|protein localization in plasma membrane|small GTPase mediated signal transduction|vesicle-mediated transport	cleavage furrow|plasma membrane|recycling endosome membrane|trans-Golgi network	GTP binding|GTPase activity|syntaxin binding				0						GGGCAAGAGCGATATCGAGCT	0.418													13	31					0	0	1	0	0		A	66169844	A	A	66169844	3	1	66	1	0	0	0	0	1	0	0	0	12916	1058	37	1	221	1	RAB11A	15	66169844	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2164178	66169844	36361548	1128	45204											
MEGF11	84465	broad.mit.edu	37	chr15	66206166	66206166	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccttctctttctgccgccgCcgatgccaggcaaataggcc	6	9	9	17	3	2	0	0	0	2	0	3	1	2	0	6	2	2	1	6	2	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:66206166C>T	uc002apm.2	-	20	2760	c.2619G>A	c.(2617-2619)CGG>CGA	p.R873R	MEGF11_uc002apl.2_Silent_p.R798R|MEGF11_uc002apn.1_Silent_p.R873R	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	873						basolateral plasma membrane|integral to membrane				pancreas(1)	1						TCTGCCGCCGCCGATGCCAGG	0.612													8	20					0	0	1	0	0		T	66206166	T	T	66206166	2	4	66	1	0	0	0	0	0	0	0	1	9479	726	26	2		2	MEGF11	15	66206166	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	36322	66206166	36325226	1129	45205											
NOX5	79400	broad.mit.edu	37	chr15	69339850	69339850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcggcatcaccccctttgCttccattctgcagagtatca	8	12	6	15	1	3	1	2	0	1	1	5	1	4	1	3	1	2	4	3	1	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:69339850C>T	uc002ars.1	+	12	1810	c.1790C>T	c.(1789-1791)GCT>GTT	p.A597V	NOX5_uc002arp.1_Missense_Mutation_p.A579V|NOX5_uc002arq.1_Missense_Mutation_p.A551V|NOX5_uc010bid.1_Missense_Mutation_p.A562V|NOX5_uc002arr.1_Missense_Mutation_p.A569V|NOX5_uc010bie.1_Missense_Mutation_p.A397V|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	597	Helical; (Potential).				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						ACCCCCTTTGCTTCCATTCTG	0.537													13	28					0	0	1	0	0		T	69339850	T	T	69339850	3	4	66	1	0	0	0	0	1	0	0	0	10578	797	28	2	1869	2	NOX5	15	69339850	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3133684	69339850	33191542	1130	45206											
MYO9A	4649	broad.mit.edu	37	chr15	72190441	72190441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatctgatcttttcctgagCagtgataccttctagtttcc	8	16	6	11	0	3	3	0	3	3	0	5	3	5	3	3	0	2	2	3	0	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:72190441C>T	uc002atl.3	-	25	4876	c.4403G>A	c.(4402-4404)TGC>TAC	p.C1468Y	MYO9A_uc010biq.2_Missense_Mutation_p.C1088Y|MYO9A_uc002atn.1_Missense_Mutation_p.C1449Y|MYO9A_uc002atk.2_Missense_Mutation_p.C192Y|MYO9A_uc002atm.1_Missense_Mutation_p.C192Y	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	1468	Tail.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						TTTTCCTGAGCAGTGATACCT	0.388													50	55					0	0	1	0	0		T	72190441	T	T	72190441	3	4	66	1	0	0	0	0	1	0	0	0	10102	710	25	2	3315	2	MYO9A	15	72190441	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2850591	72190441	30340951	1131	45207											
SENP8	123228	broad.mit.edu	37	chr15	72432053	72432053	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaagctggctcaatgaccAtattattgggtttgcgtttg	8	14	11	8	1	1	1	1	1	0	0	1	1	1	1	2	2	2	4	2	2	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:72432053A>G	uc002atp.2	+	2	188	c.89A>G	c.(88-90)CAT>CGT	p.H30R		NM_145204	NP_660205	Q96LD8	SENP8_HUMAN	SUMO/sentrin specific peptidase family member 8	30	Protease.				proteolysis		cysteine-type peptidase activity|protein binding			ovary(1)|skin(1)	2						CTCAATGACCATATTATTGGG	0.473													52	168					0	0	1	0	0		G	72432053	G	G	72432053	3	3	66	1	0	0	0	0	1	0	0	0	14077	217	8	3	91	3	SENP8	15	72432053	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	241612	72432053	30099339	1132	45208											
CELF6	60677	broad.mit.edu	37	chr15	72612004	72612004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaccgtcagctcgtagatgCggccgaactcctcgaacagc	9	6	11	15	5	1	1	1	0	0	1	4	3	2	1	3	1	5	3	3	1	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:72612004C>T	uc002auh.2	-	1	522	c.212G>A	c.(211-213)CGC>CAC	p.R71H	uc002aug.2_Intron|CELF6_uc002auk.3_RNA|CELF6_uc010biv.1_RNA|CELF6_uc010ukm.1_Missense_Mutation_p.R71H|CELF6_uc002aui.2_Silent_p.P193P|CELF6_uc002auj.2_5'UTR	NM_052840	NP_443072	Q96J87	CELF6_HUMAN	bruno-like 6, RNA binding protein	71	RRM 1.				mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3						CTCGTAGATGCGGCCGAACTC	0.562													6	5					0	0	1	0	0		T	72612004	T	T	72612004	3	4	66	1	0	0	0	0	1	0	0	0	3223	768	27	1	1281	1	CELF6	15	72612004	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	179951	72612004	29919388	1133	45209											
ARIH1	25820	broad.mit.edu	37	chr15	72875617	72875617	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgaaaaagatctgtgggAgtacattgaggactgagaat	15	10	12	4	0	1	4	0	3	1	2	1	7	1	6	0	2	1	1	0	2	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:72875617A>G	uc002aut.3	+	14	1972	c.1658A>G	c.(1657-1659)GAG>GGG	p.E553G		NM_005744	NP_005735	Q9Y4X5	ARI1_HUMAN	ariadne ubiquitin-conjugating enzyme E2 binding	553					ubiquitin-dependent protein catabolic process	cytoplasm|ubiquitin ligase complex	ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding				0						GATCTGTGGGAGTACATTGAG	0.368													20	67					0	0	1	0	0		G	72875617	G	G	72875617	3	3	66	1	0	0	0	0	1	0	0	0	923	304	11	3	1712	3	ARIH1	15	72875617	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	263613	72875617	29655775	1134	45210											
NPTN	27020	broad.mit.edu	37	chr15	73862645	73862645	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagaggcggagccaatggcGttggtggcattacattcata	11	9	13	8	2	1	1	1	0	0	1	1	2	1	2	1	5	2	2	1	5	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:73862645G>A	uc002avs.2	-	6	1157	c.960C>T	c.(958-960)AAC>AAT	p.N320N	NPTN_uc010bjc.2_Silent_p.N320N|NPTN_uc002avt.2_Silent_p.N204N|NPTN_uc002avr.2_Silent_p.N204N|NPTN_uc010ula.1_Silent_p.N115N	NM_012428	NP_036560	Q9Y639	NPTN_HUMAN	neuroplastin isoform b precursor	320	Ig-like 3.|Extracellular (Potential).				elevation of cytosolic calcium ion concentration|homophilic cell adhesion|long-term synaptic potentiation|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of long-term neuronal synaptic plasticity|positive regulation of neuron projection development|positive regulation of protein phosphorylation	integral to membrane|plasma membrane|presynaptic membrane	cell adhesion molecule binding|type 1 fibroblast growth factor receptor binding				0						AGCCAATGGCGTTGGTGGCAT	0.512													21	75					0	0	1	0	0		A	73862645	A	A	73862645	2	1	66	1	0	0	0	0	0	0	0	1	10620	1136	40	1		1	NPTN	15	73862645	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	987028	73862645	28668747	1135	45211											
CD276	80381	broad.mit.edu	37	chr15	73991987	73991987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcctcacaggaagatgctgCgtcggcggggcagccctggc	6	5	16	14	4	1	1	1	0	0	1	2	2	1	2	2	5	3	2	2	5	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:73991987C>T	uc002avv.1	+	2	241	c.7C>T	c.(7-9)CGT>TGT	p.R3C	CD276_uc010bjd.1_Intron|CD276_uc002avu.1_Missense_Mutation_p.R3C|CD276_uc002avw.1_Missense_Mutation_p.R3C|CD276_uc010ulb.1_5'UTR	NM_001024736	NP_001019907	Q5ZPR3	CD276_HUMAN	CD276 antigen isoform a	3					cell proliferation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of T cell proliferation|regulation of immune response|T cell activation	external side of plasma membrane|integral to membrane	receptor binding			skin(1)	1						GAAGATGCTGCGTCGGCGGGG	0.652													7	20					0	0	1	0	0		T	73991987	T	T	73991987	3	4	66	1	0	0	0	0	1	0	0	0	2995	768	27	1	9	1	CD276	15	73991987	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	129342	73991987	28539405	1136	45212											
PML	5371	broad.mit.edu	37	chr15	74315664	74315664	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgccaggaggagccccagagCctgcaagctgccgtgcgcac	8	3	14	16	3	0	1	0	0	0	1	0	3	0	3	5	2	6	3	5	2	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:74315664C>A	uc002awv.2	+	3	1238	c.1098C>A	c.(1096-1098)AGC>AGA	p.S366R	PML_uc002awm.2_Missense_Mutation_p.S366R|PML_uc002awl.2_Missense_Mutation_p.S366R|PML_uc002awj.1_Missense_Mutation_p.S366R|PML_uc002awk.2_Missense_Mutation_p.S366R|PML_uc002awn.2_Missense_Mutation_p.S366R|PML_uc002awo.2_Missense_Mutation_p.S366R|PML_uc002awp.2_Missense_Mutation_p.S366R|PML_uc002awq.2_Missense_Mutation_p.S366R|PML_uc002awr.2_Missense_Mutation_p.S366R|PML_uc002aws.2_Missense_Mutation_p.S366R|PML_uc002awt.2_Missense_Mutation_p.S366R|PML_uc002awu.2_Missense_Mutation_p.S366R|PML_uc010ule.1_Intron|PML_uc002aww.1_Missense_Mutation_p.S281R|PML_uc002awx.2_Missense_Mutation_p.S124R|PML_uc002awy.2_5'Flank	NM_033238	NP_150241	P29590	PML_HUMAN	promyelocytic leukemia protein isoform 1	366					cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction resulting in induction of apoptosis|endoplasmic reticulum calcium ion homeostasis|induction of apoptosis|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|maintenance of protein location in nucleus|negative regulation of angiogenesis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of mitotic cell cycle|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of telomerase activity|negative regulation of telomere maintenance via telomerase|negative regulation of transcription, DNA-dependent|negative regulation of translation in response to oxidative stress|PML body organization|PML body organization|positive regulation of defense response to virus by host|positive regulation of histone deacetylation|protein complex assembly|protein stabilization|protein targeting|regulation of calcium ion transport into cytosol|regulation of protein phosphorylation|response to hypoxia|response to virus|transcription, DNA-dependent	cytoplasm|cytosol|early endosome membrane|extrinsic to endoplasmic reticulum membrane|insoluble fraction|nuclear matrix|nuclear membrane|nucleolus|nucleus|PML body	cobalt ion binding|DNA binding|protein binding|protein binding|protein heterodimerization activity|protein homodimerization activity|SUMO binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding|zinc ion binding			central_nervous_system(2)|kidney(2)|breast(1)	5						AGCCCCAGAGCCTGCAAGCTG	0.652			T	RARA|PAX5	APL|ALL								23	18					1.1804e-14	1.2588e-14	1	1	0		A	74315664	A	A	74315664	3	1	66	1	0	0	0	0	1	0	0	0	12154	738	26	5	1108	5	PML	15	74315664	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	323677	74315664	28215728	1137	45213											
ISLR2	57611	broad.mit.edu	37	chr15	74425529	74425529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccgggacgcactcggtgCgctacccgacctgcgttccc	4	6	12	19	6	0	0	0	0	0	0	2	2	1	1	5	2	3	3	5	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:74425529C>T	uc002axd.2	+	4	1203	c.434C>T	c.(433-435)GCG>GTG	p.A145V	ISLR2_uc002axe.2_Missense_Mutation_p.A145V|ISLR2_uc010bjg.2_Missense_Mutation_p.A145V|ISLR2_uc010bjf.2_Missense_Mutation_p.A145V	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	145	LRR 4.|Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						GCACTCGGTGCGCTACCCGAC	0.647													15	69					0	0	1	0	0		T	74425529	T	T	74425529	3	4	66	1	0	0	0	0	1	0	0	0	7875	768	27	1	436	1	ISLR2	15	74425529	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	109865	74425529	28105863	1138	45214											
ISLR2	57611	broad.mit.edu	37	chr15	74425935	74425935	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagatccccggtggcacCgtagtcttagagccaccggt	7	9	11	14	3	2	2	1	0	1	2	3	2	3	2	5	3	1	2	5	3	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:74425935C>T	uc002axd.2	+	4	1609	c.840C>T	c.(838-840)ACC>ACT	p.T280T	ISLR2_uc002axe.2_Silent_p.T280T|ISLR2_uc010bjg.2_Silent_p.T280T|ISLR2_uc010bjf.2_Silent_p.T280T	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	280	Ig-like.|Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CCGGTGGCACCGTAGTCTTAG	0.463													8	34					0	0	1	0	0		T	74425935	T	T	74425935	2	4	66	1	0	0	0	0	0	0	0	1	7875	639	23	1		1	ISLR2	15	74425935	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	406	74425935	28105457	1139	45215											
SEMA7A	8482	broad.mit.edu	37	chr15	74703284	74703284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggggcagctcaggtagtagCgagagtttggggccagggaa	9	7	19	6	1	1	1	1	0	0	1	1	3	1	2	1	6	2	5	1	6	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:74703284C>T	uc002axv.2	-	14	1722	c.1682G>A	c.(1681-1683)CGC>CAC	p.R561H	SEMA7A_uc010ulk.1_Missense_Mutation_p.R396H|SEMA7A_uc010ull.1_Missense_Mutation_p.R547H	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	561	Ig-like C2-type.				axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						CAGGTAGTAGCGAGAGTTTGG	0.632													27	85					0	0	1	0	0		T	74703284	T	T	74703284	3	4	66	1	0	0	0	0	1	0	0	0	14068	768	27	1	322	1	SEMA7A	15	74703284	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	277349	74703284	27828108	1140	45216											
CYP1A1	1543	broad.mit.edu	37	chr15	75013639	75013639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgtcagagagccggggcCgccgtgacctgccaatcact	8	7	12	14	3	3	2	2	1	1	1	3	3	3	2	5	2	2	0	5	2	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:75013639C>T	uc002ayp.3	-	5	1189	c.1067G>A	c.(1066-1068)CGG>CAG	p.R356Q	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Missense_Mutation_p.R92Q|CYP1A1_uc010bjx.2_Missense_Mutation_p.R92Q|CYP1A1_uc002ayq.3_Missense_Mutation_p.R356Q|CYP1A1_uc010bjy.2_Missense_Mutation_p.R356Q|CYP1A1_uc010bjz.1_Missense_Mutation_p.R92Q	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	356					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	GAGCCGGGGCCGCCGTGACCT	0.602									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				35	57					0	0	1	0	0		T	75013639	T	T	75013639	3	4	66	1	0	0	0	0	1	0	0	0	4152	652	23	1	483	1	CYP1A1	15	75013639	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	310355	75013639	27517753	1141	45217											
SCAMP5	192683	broad.mit.edu	37	chr15	75310770	75310770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctgcagcggctggattgCtaccatctccttcttcggaa	6	13	9	13	2	2	0	0	0	2	0	5	2	3	2	3	3	4	3	3	3	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:75310770C>T	uc002azk.1	+	6	569	c.407C>T	c.(406-408)GCT>GTT	p.A136V	SCAMP5_uc002azl.1_Missense_Mutation_p.A136V|SCAMP5_uc002azm.1_Missense_Mutation_p.A136V|SCAMP5_uc002azn.1_Missense_Mutation_p.A144V|SCAMP5_uc010uly.1_Missense_Mutation_p.A65V	NM_138967	NP_620417	Q8TAC9	SCAM5_HUMAN	secretory carrier membrane protein 5	136	Extracellular (Potential).				exocytosis|negative regulation of endocytosis|positive regulation of calcium ion-dependent exocytosis|positive regulation of cytokine secretion|protein transport|response to endoplasmic reticulum stress	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane|trans-Golgi network membrane	protein binding			ovary(1)	1						GGCTGGATTGCTACCATCTCC	0.587													32	146					0	0	1	0	0		T	75310770	T	T	75310770	3	4	66	1	0	0	0	0	1	0	0	0	13899	797	28	2	425	2	SCAMP5	15	75310770	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	297131	75310770	27220622	1142	45218											
MAN2C1	4123	broad.mit.edu	37	chr15	75651973	75651973	+	Frame_Shift_Del	DEL	C	-	-																															gctcgtacctaggctgtgggCcccgcccggtttgggcaggg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:75651973delC	uc002baf.2	-	16	1953	c.1936delG	c.(1936-1938)GCCfs	p.A646fs	MAN2C1_uc002bag.2_Frame_Shift_Del_p.A646fs|MAN2C1_uc002bah.2_Frame_Shift_Del_p.A646fs|MAN2C1_uc010bkk.2_Frame_Shift_Del_p.A547fs|MAN2C1_uc010umi.1_Frame_Shift_Del_p.A428fs	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	646					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						AGGCTGTGGGCCCCGCCCGGT	0.642													17	28	---	---	---	---						.	-	75651973	-	-	75651973	7	5	66	1	0	1	0	1	0	0	0	0	9236	739	26	0	1230	0	MAN2C1	15	75651973	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	341203	75651973	26879419	1143	45219											
CSPG4	1464	broad.mit.edu	37	chr15	75980437	75980437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccactgctctcgccctggCgggtagcaacaaatgggata	10	7	11	13	2	1	0	0	0	1	0	2	1	1	1	2	3	3	3	2	3	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:75980437C>T	uc002baw.2	-	3	3062	c.2969G>A	c.(2968-2970)CGC>CAC	p.R990H		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	990	Interaction with COL5A1 (By similarity).|Extracellular (Potential).|Gly/Ser-rich (glycosaminoglycan attachment domain).|Interaction with COL6A2 (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						CTCGCCCTGGCGGGTAGCAAC	0.587													50	53					0	0	1	0	0		T	75980437	T	T	75980437	3	4	66	1	0	0	0	0	1	0	0	0	3963	768	27	1	4031	1	CSPG4	15	75980437	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	328464	75980437	26550955	1144	45220											
TBC1D2B	23102	broad.mit.edu	37	chr15	78316783	78316783	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttttggtgcagaagctcGagcgtgtcctttgggacccc	5	12	12	12	2	0	1	0	0	0	1	3	3	2	2	4	2	3	2	4	2	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:78316783G>A	uc002bcy.3	-	6	1185	c.1185C>T	c.(1183-1185)CTC>CTT	p.L395L	TBC1D2B_uc010bla.2_Silent_p.L395L	NM_144572	NP_653173	Q9UPU7	TBD2B_HUMAN	TBC1 domain family, member 2B isoform a	395	Potential.					intracellular	protein binding|Rab GTPase activator activity			ovary(1)|large_intestine(1)|breast(1)	3						GCAGAAGCTCGAGCGTGTCCT	0.547													88	77					0	0	1	0	0		A	78316783	A	A	78316783	2	1	66	1	0	0	0	0	0	0	0	1	15644	1045	37	1		1	TBC1D2B	15	78316783	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2336346	78316783	24214609	1145	45221											
IDH3A	3419	broad.mit.edu	37	chr15	78453996	78453996	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaaaacatttgacctttaCgcgaatgtccgaccatgtgt	11	11	8	11	4	0	1	0	1	0	0	1	3	1	1	3	0	2	1	3	0	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:78453996C>T	uc002bdd.2	+	5	390	c.363C>T	c.(361-363)TAC>TAT	p.Y121Y	IDH3A_uc010umt.1_Intron|IDH3A_uc010umu.1_Silent_p.Y12Y|IDH3A_uc002bde.2_Silent_p.Y71Y|IDH3A_uc010umv.1_Silent_p.Y71Y|IDH3A_uc002bdf.2_Translation_Start_Site|IDH3A_uc002bdg.2_Silent_p.Y34Y	NM_005530	NP_005521	P50213	IDH3A_HUMAN	isocitrate dehydrogenase 3 (NAD+) alpha	121					carbohydrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0					NADH(DB00157)	TTGACCTTTACGCGAATGTCC	0.443													35	140					0	0	1	0	0		T	78453996	T	T	78453996	2	4	66	1	0	0	0	0	0	0	0	1	7512	547	19	1		1	IDH3A	15	78453996	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	137213	78453996	24077396	1146	45222											
ACSBG1	23205	broad.mit.edu	37	chr15	78473158	78473158	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccacagcagcatctttcGccggatgaagccagactgag	10	6	12	13	2	1	3	0	2	1	1	2	4	1	4	3	2	3	2	3	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:78473158G>A	uc002bdh.2	-	9	1248	c.1192C>T	c.(1192-1194)CGA>TGA	p.R398*	ACSBG1_uc010umw.1_Nonsense_Mutation_p.R394*|ACSBG1_uc010umx.1_Nonsense_Mutation_p.R156*|ACSBG1_uc010umy.1_Nonsense_Mutation_p.R291*	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	398					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						AGCATCTTTCGCCGGATGAAG	0.657													58	55					0	0	1	0	0		A	78473158	A	A	78473158	4	1	66	1	0	0	0	0	0	1	0	0	173	1095	38	1	1006	1	ACSBG1	15	78473158	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	19162	78473158	24058234	1147	45223											
IREB2	3658	broad.mit.edu	37	chr15	78732212	78732212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttcgatgtatctaaacttgGcaccaagtatggtaatgttg	11	14	9	7	1	1	0	0	0	1	0	2	1	1	0	1	2	1	5	1	2	6	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:78732212G>A	uc002bdr.2	+	2	257	c.95G>A	c.(94-96)GGC>GAC	p.G32D	IREB2_uc010unb.1_5'UTR|IREB2_uc002bdq.2_Missense_Mutation_p.G32D	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	32							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		TCTAAACTTGGCACCAAGTAT	0.303													19	21					0	0	1	0	0		A	78732212	A	A	78732212	3	1	66	1	0	0	0	0	1	0	0	0	7842	1203	42	2	101	2	IREB2	15	78732212	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	259054	78732212	23799180	1148	45224											
CHRNB4	1143	broad.mit.edu	37	chr15	78921669	78921669	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acccagggtgccatggtgtgGgtgctgggcgagcggtggtg	4	8	21	8	2	0	0	0	0	0	0	0	1	0	0	2	6	3	1	2	6	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:78921669G>T	uc002bed.1	-	5	1090	c.978C>A	c.(976-978)ACC>ACA	p.T326T	CHRNB4_uc002bee.1_Intron|CHRNB4_uc010blh.1_Silent_p.T144T	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	326	Cytoplasmic (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						CCATGGTGTGGGTGCTGGGCG	0.617													18	57					4.96729e-08	5.15407e-08	1	1	0		T	78921669	T	T	78921669	2	4	66	1	0	0	0	0	0	0	0	1	3396	1219	43	5		5	CHRNB4	15	78921669	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	189457	78921669	23609723	1149	45225											
ADAMTS7	11173	broad.mit.edu	37	chr15	79063618	79063618	+	Frame_Shift_Del	DEL	C	-	-																															gatggtgtactcgtagtgcaCcccagggttgctctcctgga																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:79063618delC	uc002bej.3	-	16	2615	c.2404delG	c.(2404-2406)GTGfs	p.V802fs	ADAMTS7_uc010und.1_Intron|ADAMTS7_uc002bek.1_3'UTR	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	802	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						TCGTAGTGCACCCCAGGGTTG	0.637													9	19	---	---	---	---						.	-	79063618	-	-	79063618	7	5	66	1	0	1	0	1	0	0	0	0	271	507	18	0	2692	0	ADAMTS7	15	79063618	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	141949	79063618	23467774	1150	45226											
RASGRF1	5923	broad.mit.edu	37	chr15	79317734	79317734	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaggaagcactgtcgctcGccctctttctttagggagag	9	10	11	11	2	2	1	0	0	2	1	4	3	2	2	1	2	2	2	1	2	3	3	rs113957070		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:79317734G>A	uc002beq.2	-	10	1839	c.1464C>T	c.(1462-1464)GGC>GGT	p.G488G	RASGRF1_uc002bep.2_Silent_p.G488G|RASGRF1_uc010blm.1_Silent_p.G410G|RASGRF1_uc002ber.3_Silent_p.G488G	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	488	PH 2.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						ACTGTCGCTCGCCCTCTTTCT	0.557													23	93					0	0	1	0	0		A	79317734	A	A	79317734	2	1	66	1	0	0	0	0	0	0	0	1	13097	1074	38	1		1	RASGRF1	15	79317734	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	254116	79317734	23213658	1151	45227											
KIAA1024	23251	broad.mit.edu	37	chr15	79749908	79749908	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcagctcagacaccagtagCgtgggcacccagactgagca	11	5	11	14	1	2	3	2	1	0	2	2	3	2	3	2	1	3	4	2	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:79749908C>T	uc002bew.1	+	2	1494	c.1419C>T	c.(1417-1419)AGC>AGT	p.S473S	KIAA1024_uc010unk.1_Silent_p.S473S	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	473						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						ACACCAGTAGCGTGGGCACCC	0.532													14	42					0	0	1	0	0		T	79749908	T	T	79749908	2	4	66	1	0	0	0	0	0	0	0	1	8221	767	27	1		1	KIAA1024	15	79749908	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	432174	79749908	22781484	1152	45228											
STARD5	80765	broad.mit.edu	37	chr15	81611720	81611720	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctcatatctcttgactagCaccaagtccacaaaatctct	12	12	3	14	0	3	1	1	1	2	0	7	1	5	1	3	0	1	1	3	0	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:81611720C>T	uc002bgm.2	-	4	444	c.360G>A	c.(358-360)GTG>GTA	p.V120V	STARD5_uc002bgn.2_Silent_p.V13V	NM_181900	NP_871629	Q9NSY2	STAR5_HUMAN	StAR-related lipid transfer protein 5	120	START.				C21-steroid hormone biosynthetic process|lipid transport	cytosol	lipid binding			ovary(1)	1						TCTTGACTAGCACCAAGTCCA	0.517													119	159					0	0	1	0	0		T	81611720	T	T	81611720	2	4	66	1	0	0	0	0	0	0	0	1	15285	697	25	2		2	STARD5	15	81611720	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1861812	81611720	20919672	1153	45229											
AP3B2	8120	broad.mit.edu	37	chr15	83332340	83332340	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcaagcagggagatctcCttggttgcaggagcactttt	10	11	12	8	0	2	2	1	0	1	2	3	4	2	3	1	3	3	4	1	3	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:83332340C>A	uc010uoh.1	-	20	2589	c.2412G>T	c.(2410-2412)AAG>AAT	p.K804N	AP3B2_uc010uoi.1_Missense_Mutation_p.K823N|AP3B2_uc010uoj.1_Missense_Mutation_p.K772N|AP3B2_uc010bmp.2_5'Flank|AP3B2_uc010uog.1_Missense_Mutation_p.K440N|AP3B2_uc002biy.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	804					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			GGGAGATCTCCTTGGTTGCAG	0.527													19	64					1.33834e-09	1.40184e-09	1	1	0		A	83332340	A	A	83332340	3	1	66	1	0	0	0	0	1	0	0	0	745	680	24	5	864	5	AP3B2	15	83332340	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1720620	83332340	19199052	1154	45230											
AKAP13	11214	broad.mit.edu	37	chr15	86198866	86198866	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgagcctgctgacccaggCgacgtggaggaggaggagat	10	5	18	8	2	0	3	0	2	0	1	0	8	0	6	2	5	2	1	2	5	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:86198866C>T	uc002blv.1	+	11	4763	c.4593C>T	c.(4591-4593)GGC>GGT	p.G1531G	AKAP13_uc002blt.1_Silent_p.G1531G|AKAP13_uc002blu.1_Silent_p.G1531G|AKAP13_uc010bnf.1_Silent_p.G171G|AKAP13_uc002blw.1_Silent_p.G16G|AKAP13_uc010bne.1_Silent_p.G184G	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1531					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CTGACCCAGGCGACGTGGAGG	0.557													16	87					0	0	1	0	0		T	86198866	T	T	86198866	2	4	66	1	0	0	0	0	0	0	0	1	449	755	27	1		1	AKAP13	15	86198866	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2866526	86198866	16332526	1155	45231											
ABHD2	11057	broad.mit.edu	37	chr15	89698698	89698698	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaaaaatggctatcggtgCgccgtgctgaaccacctggg	10	7	13	11	3	0	2	0	1	0	1	1	2	0	2	3	3	3	2	3	3	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:89698698C>T	uc002bnj.2	+	10	1388	c.471C>T	c.(469-471)TGC>TGT	p.C157C	ABHD2_uc002bnk.2_Silent_p.C157C	NM_007011	NP_008942	P08910	ABHD2_HUMAN	alpha/beta hydrolase domain containing protein	157						integral to membrane	carboxylesterase activity			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					GCTATCGGTGCGCCGTGCTGA	0.517													23	99					0	0	1	0	0		T	89698698	T	T	89698698	2	4	66	1	0	0	0	0	0	0	0	1	82	776	27	1		1	ABHD2	15	89698698	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3499832	89698698	12832694	1156	45232											
C15orf42	90381	broad.mit.edu	37	chr15	90163032	90163032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgtctcagccgaagtctcGaagtgtgcaaagagtccact	10	10	11	10	2	2	1	1	0	2	1	5	3	3	1	2	0	2	1	2	0	3	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:90163032G>A	uc002boe.2	+	18	3113	c.3113G>A	c.(3112-3114)CGA>CAA	p.R1038Q		NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1038					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			CCGAAGTCTCGAAGTGTGCAA	0.463													51	68					0	0	1	0	0		A	90163032	A	A	90163032	3	1	66	1	0	0	0	0	1	0	0	0	1799	1058	37	1	3183	1	C15orf42	15	90163032	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	464334	90163032	12368360	1157	45233											
C15orf42	90381	broad.mit.edu	37	chr15	90168297	90168297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accccagctcttcattagagGctgagcccctcagcaaggag	10	7	10	14	0	3	2	2	1	1	1	3	3	3	3	4	2	3	3	4	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:90168297G>A	uc002boe.2	+	20	4756	c.4756G>A	c.(4756-4758)GCT>ACT	p.A1586T	C15orf42_uc010upv.1_RNA	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1586					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			TTCATTAGAGGCTGAGCCCCT	0.552													48	57					0	0	1	0	0		A	90168297	A	A	90168297	3	1	66	1	0	0	0	0	1	0	0	0	1799	1203	42	2	4834	2	C15orf42	15	90168297	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5265	90168297	12363095	1158	45234											
TTC23	64927	broad.mit.edu	37	chr15	99762036	99762036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaattcttgtcagtgctaCgcaacgcacaagctcatgga	12	9	9	11	2	3	0	2	0	1	0	3	1	3	1	0	1	4	5	0	1	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:99762036C>T	uc002bur.2	-	5	745	c.214G>A	c.(214-216)GTA>ATA	p.V72I	TTC23_uc002bus.2_Missense_Mutation_p.V72I|TTC23_uc002but.2_Missense_Mutation_p.V72I|TTC23_uc002buu.2_Missense_Mutation_p.V72I|TTC23_uc002buv.2_Missense_Mutation_p.V72I|TTC23_uc002bux.2_Missense_Mutation_p.V72I|TTC23_uc002buw.2_Missense_Mutation_p.V72I|TTC23_uc010boq.2_RNA|TTC23_uc002buy.2_Missense_Mutation_p.V72I|TTC23_uc010bor.2_Missense_Mutation_p.V72I|TTC23_uc002buz.2_Missense_Mutation_p.V72I	NM_022905	NP_075056	Q5W5X9	TTC23_HUMAN	tetratricopeptide repeat domain 23	72	TPR 1.						binding				0	all_cancers(4;1.49e-13)|Lung NSC(78;0.000545)|all_lung(78;0.00121)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		all cancers(5;8.11e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00215)			GTCAGTGCTACGCAACGCACA	0.448													17	50					0	0	1	0	0		T	99762036	T	T	99762036	3	4	66	1	0	0	0	0	1	0	0	0	16716	536	19	1	1165	1	TTC23	15	99762036	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	9593739	99762036	2769356	1159	45235											
LYSMD4	145748	broad.mit.edu	37	chr15	100272041	100272041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggacaccgctcttgtggCgctccttgccccggggccgc	2	8	15	16	4	1	0	0	0	1	0	2	1	2	1	5	5	1	2	5	5	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:100272041C>T	uc002bvk.2	-	2	227	c.164G>A	c.(163-165)CGC>CAC	p.R55H	LYSMD4_uc002bvj.1_Intron|LYSMD4_uc010bou.1_Intron|LYSMD4_uc002bvl.2_Missense_Mutation_p.A26T|LYSMD4_uc002bvm.2_Missense_Mutation_p.R55H|LYSMD4_uc010bov.2_Missense_Mutation_p.R55H			Q5XG99	LYSM4_HUMAN	SubName: Full=cDNA FLJ77040, highly similar to Homo sapiens LysM, putative peptidoglycan-binding, domain containing 4, mRNA; SubName: Full=LysM, putative peptidoglycan-binding, domain containing 4, isoform CRA_c;	55	Extracellular (Potential).				cell wall macromolecule catabolic process	integral to membrane					0	Lung NSC(78;0.00335)|all_lung(78;0.00659)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00162)|LUSC - Lung squamous cell carcinoma(107;0.17)|Lung(145;0.208)			GCTCTTGTGGCGCTCCTTGCC	0.632													8	43					0	0	1	0	0		T	100272041	T	T	100272041	3	4	66	1	0	0	0	0	1	0	0	0	9145	768	27	1	833	1	LYSMD4	15	100272041	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	510005	100272041	2259351	1160	45236											
ADAMTS17	170691	broad.mit.edu	37	chr15	100514714	100514714	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaggttcttttctcggaTgacccggcaatataccgtcc	8	11	10	12	3	2	2	0	1	2	1	4	3	3	3	3	3	1	3	3	3	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:100514714T>C	uc002bvv.1	-	22	3260	c.3181A>G	c.(3181-3183)ATC>GTC	p.I1061V	ADAMTS17_uc002bvw.1_RNA	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1061	PLAC.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		TTTTCTCGGATGACCCGGCAA	0.572													21	53					0	0	1	0	0		C	100514714	C	C	100514714	3	2	66	1	0	0	0	0	1	0	0	0	262	1464	51	3	110	3	ADAMTS17	15	100514714	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	242673	100514714	2016678	1161	45237											
CHSY1	22856	broad.mit.edu	37	chr15	101775512	101775512	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtggtgcccaggcctgtctgCccaagaaagaggggctcgct	7	7	15	12	1	1	2	0	0	1	2	2	2	1	2	3	4	2	2	3	4	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr15:101775512C>T	uc002bwt.1	-	3	1074	c.591G>A	c.(589-591)GGG>GGA	p.G197G		NM_014918	NP_055733	Q86X52	CHSS1_HUMAN	chondroitin sulfate synthase 1	197	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity				0	Lung NSC(78;0.00217)|all_lung(78;0.00271)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GGCCTGTCTGCCCAAGAAAGA	0.557													20	69					0	0	1	0	0		T	101775512	T	T	101775512	2	4	66	1	0	0	0	0	0	0	0	1	3415	726	26	2		2	CHSY1	15	101775512	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1260798	101775512	755880	1162	45238											
RHBDF1	64285	broad.mit.edu	37	chr16	108986	108986	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccttacctctgctcggtatgGcaggaagatggcactggcca	8	9	12	12	1	1	1	0	0	1	1	2	2	1	2	3	5	2	4	3	5	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:108986G>A	uc002cfl.3	-	20	2282	c.2134C>T	c.(2134-2136)CCA>TCA	p.P712S		NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	712	Helical; (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				GCTCGGTATGGCAGGAAGATG	0.617													21	21					0	0	1	0	0		A	108986	A	A	108986	3	1	66	1	0	0	0	0	1	0	0	0	13344	1203	42	2	441	2	RHBDF1	16	108986	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08		108986	90245767	1163	45239											
ARHGDIG	398	broad.mit.edu	37	chr16	331846	331846	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggaagagcctcttggaGatccggcagctggacccgga	9	5	17	10	2	1	2	0	0	1	2	2	7	2	6	3	6	2	2	3	6	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:331846G>T	uc002cgm.1	+	2	249	c.174G>T	c.(172-174)GAG>GAT	p.E58D	PDIA2_uc002cgn.1_5'UTR|PDIA2_uc010bqt.1_5'Flank|PDIA2_uc002cgo.1_5'Flank	NM_001176	NP_001167	Q99819	GDIR3_HUMAN	Rho GDP dissociation inhibitor (GDI) gamma	58					negative regulation of cell adhesion|regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytoplasmic membrane-bounded vesicle|cytosol	GTPase activator activity|Rho GDP-dissociation inhibitor activity			central_nervous_system(1)	1		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				GCCTCTTGGAGATCCGGCAGC	0.687													17	11					1.99824e-07	2.06609e-07	1	1	0		T	331846	T	T	331846	3	4	66	1	0	0	0	0	1	0	0	0	892	933	33	5	180	5	ARHGDIG	16	331846	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	222860	331846	90022907	1164	45240											
TMEM8A	58986	broad.mit.edu	37	chr16	426215	426215	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccgcatcacggagggcGtgtccgaacacaccctcacc	9	4	11	17	4	2	0	2	0	0	0	3	2	3	1	4	2	2	2	4	2	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:426215G>A	uc002cgu.3	-	6	1274	c.1145C>T	c.(1144-1146)ACG>ATG	p.T382M	TMEM8A_uc002cgv.3_Missense_Mutation_p.T189M	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	382	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						CACGGAGGGCGTGTCCGAACA	0.642													10	32					0	0	1	0	0		A	426215	A	A	426215	3	1	66	1	0	0	0	0	1	0	0	0	16239	1145	40	1	1202	1	TMEM8A	16	426215	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	94369	426215	89928538	1165	45241											
SOLH	6650	broad.mit.edu	37	chr16	603450	603450	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtgactggacagcctcCaaggggacccacagcccccc	9	4	10	18	0	1	1	1	1	0	0	2	3	2	3	6	3	2	0	6	3	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:603450C>T	uc002chi.2	+	14	3558	c.3195C>T	c.(3193-3195)TCC>TCT	p.S1065S	SOLH_uc002chj.2_Silent_p.S125S	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	1065					proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				GGACAGCCTCCAAGGGGACCC	0.667													22	38					0	0	1	0	0		T	603450	T	T	603450	2	4	66	1	0	0	0	0	0	0	0	1	14950	581	21	4		4	SOLH	16	603450	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	177235	603450	89751303	1166	45242											
WDR90	197335	broad.mit.edu	37	chr16	708547	708547	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccggtgtccaccctgagcCctgcccctccttgacgctca	4	8	9	20	2	1	2	1	2	0	0	3	2	3	2	7	1	2	1	7	1	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:708547C>G	uc002cii.1	+	23	2843	c.2789C>G	c.(2788-2790)CCC>CGC	p.P930R	WDR90_uc002cij.1_Intron|WDR90_uc002cik.1_Missense_Mutation_p.P457R|WDR90_uc002cil.1_RNA|WDR90_uc002cim.1_Missense_Mutation_p.P104R|WDR90_uc002cin.1_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	930	WD 10.									ovary(1)	1		Hepatocellular(780;0.0218)				CACCCTGAGCCCTGCCCCTCC	0.662													4	61					0	0	1	0	0		G	708547	G	G	708547	3	3	66	1	0	0	0	0	1	0	0	0	17363	623	22	5	2879	5	WDR90	16	708547	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	105097	708547	89646206	1167	45243											
STUB1	10273	broad.mit.edu	37	chr16	732226	732226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagctgatgcgggagccgtGcatcacgcccagtggcatca	8	7	14	12	3	2	2	2	2	0	0	2	3	2	3	2	2	4	3	2	2	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:732226G>A	uc002cit.2	+	6	1142	c.731G>A	c.(730-732)TGC>TAC	p.C244Y	STUB1_uc002ciu.2_Missense_Mutation_p.C172Y|STUB1_uc010bqz.2_RNA|STUB1_uc002civ.2_RNA|JMJD8_uc002ciw.1_3'UTR|JMJD8_uc002cix.1_3'UTR|JMJD8_uc002ciy.1_3'UTR	NM_005861	NP_005852	Q9UNE7	CHIP_HUMAN	STIP1 homology and U-box containing protein 1	244	U-box.				cellular response to misfolded protein|DNA repair|misfolded or incompletely synthesized protein catabolic process|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein K63-linked ubiquitination|protein maturation|regulation of glucocorticoid metabolic process|ubiquitin-dependent SMAD protein catabolic process	cytoplasm|nuclear inclusion body|ubiquitin conjugating enzyme complex|ubiquitin ligase complex	Hsp70 protein binding|Hsp90 protein binding|kinase binding|misfolded protein binding|protein binding, bridging|protein homodimerization activity|SMAD binding|TPR domain binding|ubiquitin-ubiquitin ligase activity				0		Hepatocellular(780;0.00335)				CGGGAGCCGTGCATCACGCCC	0.637													16	42					0	0	1	0	0		A	732226	A	A	732226	3	1	66	1	0	0	0	0	1	0	0	0	15360	1319	46	2	753	2	STUB1	16	732226	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	23679	732226	89622527	1168	45244											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1818260	1818260	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgggggcatcatccacgtgtAtggcgatgacagcagtgaca	10	7	14	10	3	1	2	1	2	0	0	2	3	2	2	1	3	1	3	1	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:1818260A>G	uc002cmk.2	+	30	3740	c.3620A>G	c.(3619-3621)TAT>TGT	p.Y1207C	MAPK8IP3_uc002cml.2_Missense_Mutation_p.Y1201C|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.Y1208C	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	1207					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						ATCCACGTGTATGGCGATGAC	0.647													25	69					0	0	1	0	0		G	1818260	G	G	1818260	3	3	66	1	0	0	0	0	1	0	0	0	9304	449	16	3	3754	3	MAPK8IP3	16	1818260	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1086034	1818260	88536493	1169	45245											
TSC2	7249	broad.mit.edu	37	chr16	2131648	2131648	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgctcagccctttctcctcGgacatcaacaacatgcccct	8	9	5	19	2	3	0	2	0	1	0	5	1	3	1	5	1	4	1	5	1	2	1	rs137854393		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:2131648G>A	uc002con.2	+	31	3769	c.3663G>A	c.(3661-3663)TCG>TCA	p.S1221S	TSC2_uc010bsd.2_Silent_p.S1221S|TSC2_uc002coo.2_Silent_p.S1177S|TSC2_uc010uvv.1_Silent_p.S1141S|TSC2_uc010uvw.1_Silent_p.S1129S|TSC2_uc002cop.2_Silent_p.S977S|TSC2_uc002coq.2_5'Flank|TSC2_uc002cor.2_5'Flank	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	1221					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				CTTTCTCCTCGGACATCAACA	0.622			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				29	64					0	0	1	0	0		A	2131648	A	A	2131648	2	1	66	1	0	0	0	0	0	0	0	1	16632	1103	39	1		1	TSC2	16	2131648	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	313388	2131648	88223105	1170	45246											
PKD1	5310	broad.mit.edu	37	chr16	2153811	2153811	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggttgtaggcctgggaCgccaccatccgagatggtga	8	8	15	10	2	1	2	1	1	0	1	2	4	2	3	4	4	0	2	4	4	1	2	rs143265128	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:2153811C>T	uc002cos.1	-	23	8456	c.8247G>A	c.(8245-8247)GCG>GCA	p.A2749A	PKD1_uc002cot.1_Silent_p.A2749A|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2749	Extracellular (Potential).|REJ.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AGGCCTGGGACGCCACCATCC	0.667													4	23					0	0	1	0	0		T	2153811	T	T	2153811	2	4	66	1	0	0	0	0	0	0	0	1	11982	523	19	1		1	PKD1	16	2153811	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	22163	2153811	88200942	1171	45247											
PKD1	5310	broad.mit.edu	37	chr16	2168071	2168071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcggcggagccgtctcCgaagtcccagcgtgtggcag	6	6	14	15	5	1	0	0	0	1	0	4	2	2	1	4	3	2	1	4	3	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:2168071C>T	uc002cos.1	-	5	1131	c.922G>A	c.(922-924)GGA>AGA	p.G308R	PKD1_uc002cot.1_Missense_Mutation_p.G308R	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	308	Extracellular (Potential).|PKD 1.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GAGCCGTCTCCGAAGTCCCAG	0.716													4	10					0	0	1	0	0		T	2168071	T	T	2168071	3	4	66	1	0	0	0	0	1	0	0	0	11982	661	23	1	12157	1	PKD1	16	2168071	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	14260	2168071	88186682	1172	45248											
E4F1	1877	broad.mit.edu	37	chr16	2278400	2278400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgatgtgcacagatgcggccGctgccaggcagagttcaccg	8	6	14	13	4	1	2	1	0	0	2	1	3	1	2	3	2	3	4	3	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:2278400G>A	uc002cpm.2	+	2	233	c.185G>A	c.(184-186)CGC>CAC	p.R62H	E4F1_uc010bsi.2_Missense_Mutation_p.R62H|E4F1_uc010bsj.2_Missense_Mutation_p.R62H	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	62	Required for ubiquitin ligase activity.				cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						AGATGCGGCCGCTGCCAGGCA	0.657													10	24					0	0	1	0	0		A	2278400	A	A	2278400	3	1	66	1	0	0	0	0	1	0	0	0	4880	1087	38	1	191	1	E4F1	16	2278400	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	110329	2278400	88076353	1173	45249											
TBC1D24	57465	broad.mit.edu	37	chr16	2547019	2547019	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagctgctggagaaagcgttCgccatccgcctcttctcccg	7	9	10	15	4	2	1	0	0	2	1	5	2	3	1	4	1	3	3	4	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:2547019C>T	uc002cql.2	+	2	1010	c.870C>T	c.(868-870)TTC>TTT	p.F290F	TBC1D24_uc002cqk.2_Silent_p.F290F|TBC1D24_uc002cqm.2_Silent_p.F290F|TBC1D24_uc010bsm.2_5'Flank	NM_020705	NP_065756	Q9ULP9	TBC24_HUMAN	TBC1 domain family, member 24	290					neuron projection development	cytoplasm	protein binding|Rab GTPase activator activity				0						AGAAAGCGTTCGCCATCCGCC	0.597													21	30					0	0	1	0	0		T	2547019	T	T	2547019	2	4	66	1	0	0	0	0	0	0	0	1	15639	883	31	1		1	TBC1D24	16	2547019	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	268619	2547019	87807734	1174	45250											
CEMP1	752014	broad.mit.edu	37	chr16	2580894	2580894	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggatacccacctctgcctTgacggccgcgcaccccttag	7	7	10	17	3	1	1	0	1	1	0	1	2	1	2	6	2	2	1	6	2	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:2580894T>C	uc002cqr.2	-	1	537	c.181A>G	c.(181-183)AAG>GAG	p.K61E	AMDHD2_uc010uwc.1_3'UTR|AMDHD2_uc010uwd.1_3'UTR	NM_001048212	NP_001041677	Q6PRD7	CEMP1_HUMAN	cementum protein 1	61						cytoplasm				skin(1)	1						ACCTCTGCCTTGACGGCCGCG	0.667													15	18					0	0	1	0	0		C	2580894	C	C	2580894	3	2	66	1	0	0	0	0	1	0	0	0	3227	1821	63	3	566	3	CEMP1	16	2580894	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	33875	2580894	87773859	1175	45251											
SRRM2	23524	broad.mit.edu	37	chr16	2815963	2815963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcaaggtcgcgggttactCggcggcggaggggaggctct	5	7	20	9	5	2	0	1	0	1	0	4	2	2	2	0	9	1	2	0	9	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:2815963C>T	uc002crk.2	+	11	5983	c.5434C>T	c.(5434-5436)CGG>TGG	p.R1812W	SRRM2_uc002crj.1_Missense_Mutation_p.R1716W|SRRM2_uc002crl.1_Missense_Mutation_p.R1812W|SRRM2_uc010bsu.1_Missense_Mutation_p.R1716W	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1812	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GCGGGTTACTCGGCGGCGGAG	0.612													24	21					0	0	1	0	0		T	2815963	T	T	2815963	3	4	66	1	0	0	0	0	1	0	0	0	15194	875	31	1	5472	1	SRRM2	16	2815963	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	235069	2815963	87538790	1176	45252											
ZNF205	7755	broad.mit.edu	37	chr16	3170262	3170262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccgggcccaaggccctggCcatgctgatgctgggggcgg	5	5	17	14	2	0	1	0	1	0	0	0	1	0	1	4	6	2	2	4	6	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:3170262C>T	uc002cub.2	+	7	1736	c.1601C>T	c.(1600-1602)GCC>GTC	p.A534V	ZNF205_uc002cua.2_Missense_Mutation_p.A534V	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	534					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						AAGGCCCTGGCCATGCTGATG	0.632													6	19					0	0	1	0	0		T	3170262	T	T	3170262	3	4	66	1	0	0	0	0	1	0	0	0	17789	739	26	2	1623	2	ZNF205	16	3170262	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	354299	3170262	87184491	1177	45253											
CREBBP	1387	broad.mit.edu	37	chr16	3778706	3778706	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccaggctggggctgcatGccgggctgattggccacgta	6	7	17	11	2	0	1	0	1	0	0	0	1	0	1	3	6	2	5	3	6	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:3778706G>A	uc002cvv.2	-	31	6546	c.6342C>T	c.(6340-6342)GGC>GGT	p.G2114G	CREBBP_uc002cvw.2_Silent_p.G2076G	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2114					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GGGGCTGCATGCCGGGCTGAT	0.602			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				52	123					0	0	1	0	0		A	3778706	A	A	3778706	2	1	66	1	0	0	0	0	0	0	0	1	3864	1306	46	2		2	CREBBP	16	3778706	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	608444	3778706	86576047	1178	45254											
RUNDC2A	84127	broad.mit.edu	37	chr16	12146024	12146024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgaaaacgaagatgacGtgtatggaaactcatcagga	16	8	12	5	2	2	3	2	2	0	1	2	7	2	6	0	3	2	1	0	3	5	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:12146024G>A	uc002dbw.1	+	8	1131	c.1069G>A	c.(1069-1071)GTG>ATG	p.V357M	SNX29_uc002dby.3_5'Flank	NM_032167	NP_115543	Q9HA26	RUN2A_HUMAN	RUN domain containing 2A	357										ovary(1)	1						CGAAGATGACGTGTATGGAAA	0.393			T	CIITA	PMBL|Hodgkin Lymphona|								29	69					0	0	1	0	0		A	12146024	A	A	12146024	3	1	66	1	0	0	0	0	1	0	0	0	13768	1145	40	1	1099	1	RUNDC2A	16	12146024	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	8367318	12146024	78208729	1179	45255											
ABCC6	368	broad.mit.edu	37	chr16	16291892	16291892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatacctgccagagatagaCgaagcagaccacgatccaga	15	4	10	12	2	0	4	0	0	0	4	1	7	1	4	4	0	3	2	4	0	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:16291892C>T	uc002den.3	-	10	1361	c.1324G>A	c.(1324-1326)GTC>ATC	p.V442I	ABCC6_uc010bvo.2_RNA|ABCC6_uc010uzz.1_Missense_Mutation_p.V454I	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	442	ABC transmembrane type-1 1.|Helical; Name=8; (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		CAGAGATAGACGAAGCAGACC	0.443													3	8					0	0	1	0	0		T	16291892	T	T	16291892	3	4	66	1	0	0	0	0	1	0	0	0	57	536	19	1	3275	1	ABCC6	16	16291892	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4145868	16291892	74062861	1180	45256											
SMG1	23049	broad.mit.edu	37	chr16	18847464	18847464	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctccccctccagctgctcGcactggctaatcaagtgggc	7	8	9	17	1	1	0	1	0	0	0	4	0	3	0	4	2	2	4	4	2	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:18847464G>A	uc002dfm.2	-	48	8211	c.7848C>T	c.(7846-7848)TGC>TGT	p.C2616C	SMG1_uc010bwb.2_Silent_p.C2476C|SMG1_uc010bwa.2_Silent_p.C1347C	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2616					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						CCAGCTGCTCGCACTGGCTAA	0.557													3	7					0	0	1	0	0		A	18847464	A	A	18847464	2	1	66	1	0	0	0	0	0	0	0	1	14820	1079	38	1		1	SMG1	16	18847464	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2555572	18847464	71507289	1181	45257											
IQCK	124152	broad.mit.edu	37	chr16	19800166	19800166	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttattgcttttcagcccacgGccgccaatcccactctcgct	6	12	6	17	3	2	0	1	0	1	0	4	0	3	0	4	1	2	2	4	1	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:19800166G>A	uc002dgr.2	+	8	1311	c.612G>A	c.(610-612)CGG>CGA	p.R204R	IQCK_uc002dgs.2_RNA|IQCK_uc010vat.1_Intron|IQCK_uc010bwc.2_RNA|IQCK_uc010vau.1_Silent_p.R116R	NM_153208	NP_694940	Q8N0W5	IQCK_HUMAN	IQ motif containing K	204										skin(1)	1						TCAGCCCACGGCCGCCAATCC	0.483													31	64					0	0	1	0	0		A	19800166	A	A	19800166	2	1	66	1	0	0	0	0	0	0	0	1	7829	1190	42	2		2	IQCK	16	19800166	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	952702	19800166	70554587	1182	45258											
GPRC5B	51704	broad.mit.edu	37	chr16	19883671	19883671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccagcatcaggcacagcGccaggcccaccagctgccag	10	2	11	18	1	1	0	1	0	0	0	1	0	1	0	5	2	4	4	5	2	0	0	rs35893239		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:19883671G>A	uc002dgt.2	-	2	605	c.497C>T	c.(496-498)GCG>GTG	p.A166V	GPRC5B_uc010vav.1_Missense_Mutation_p.A192V	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	166	Helical; Name=4; (Potential).									lung(1)|breast(1)|skin(1)	3						CAGGCACAGCGCCAGGCCCAC	0.682													9	32					0	0	1	0	0		A	19883671	A	A	19883671	3	1	66	1	0	0	0	0	1	0	0	0	6741	1087	38	1	726	1	GPRC5B	16	19883671	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	83505	19883671	70471082	1183	45259											
PDILT	204474	broad.mit.edu	37	chr16	20386161	20386161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctttttgaacaccaggaCgctgtcaagggtgacgtgga	10	10	12	9	2	1	2	1	2	0	0	1	4	1	4	2	3	2	1	2	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:20386161C>T	uc002dhc.1	-	5	887	c.664G>A	c.(664-666)GTC>ATC	p.V222I		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	222					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						AACACCAGGACGCTGTCAAGG	0.363													32	88					0	0	1	0	0		T	20386161	T	T	20386161	3	4	66	1	0	0	0	0	1	0	0	0	11693	536	19	1	1122	1	PDILT	16	20386161	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	502490	20386161	69968592	1184	45260											
ACSM5	54988	broad.mit.edu	37	chr16	20439120	20439120	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgtttagactctctccaAattcccgataaccaccctct	9	15	3	14	1	2	1	0	0	2	1	5	2	4	1	4	0	1	1	4	0	3	6	rs12921643		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:20439120A>C	uc002dhe.2	+	7	1079	c.932A>C	c.(931-933)AAA>ACA	p.K311T		NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	311					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2						ACTCTCTCCAAATTCCCGATA	0.478													16	124					0	0	1	0	0		C	20439120	C	C	20439120	3	2	66	1	0	0	0	0	1	0	0	0	187	14	1	5	954	5	ACSM5	16	20439120	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	52959	20439120	69915633	1185	45261											
LOC81691	81691	broad.mit.edu	37	chr16	20851760	20851760	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagctttggcccagtccaGtcaatgacttttgttcttga	10	14	8	9	0	2	2	1	2	1	0	3	2	3	2	2	1	1	2	2	1	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:20851760G>A	uc002dhv.2	+	15	1859	c.1596G>A	c.(1594-1596)CAG>CAA	p.Q532Q	ERI2_uc002dht.3_Intron|LOC81691_uc002dhx.2_Silent_p.Q532Q|LOC81691_uc002dhw.2_Silent_p.Q275Q|LOC81691_uc002dhy.3_Silent_p.Q532Q	NM_030941	NP_112203	Q96IC2	REXON_HUMAN	exonuclease NEF-sp isoform 1	532	RRM 1.					nucleolus	exonuclease activity|nucleotide binding|RNA binding			ovary(1)|kidney(1)	2						GCCCAGTCCAGTCAATGACTT	0.428													34	83					0	0	1	0	0		A	20851760	A	A	20851760	2	1	66	1	0	0	0	0	0	0	0	1	8908	1020	36	4		4	LOC81691	16	20851760	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	412640	20851760	69502993	1186	45262											
DNAH3	55567	broad.mit.edu	37	chr16	21151866	21151866	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaacgtacctccaggtcCgattcagatggcttcttttc	8	12	9	12	2	2	1	1	0	1	1	5	3	4	2	3	3	2	2	3	3	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:21151866C>T	uc010vbe.1	-	5	687	c.687G>A	c.(685-687)TCG>TCA	p.S229S	DNAH3_uc002die.2_Silent_p.S200S	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	229	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CCTCCAGGTCCGATTCAGATG	0.418													26	55					0	0	1	0	0		T	21151866	T	T	21151866	2	4	66	1	0	0	0	0	0	0	0	1	4609	639	23	1		1	DNAH3	16	21151866	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	300106	21151866	69202887	1187	45263											
SCNN1G	6340	broad.mit.edu	37	chr16	23208718	23208718	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggaacagagattgagacAgcaatggtcacctctatagg	13	8	13	7	0	2	2	1	1	1	2	2	5	2	3	1	3	2	1	1	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:23208718A>C	uc002dlm.1	+	6	1186	c.1047A>C	c.(1045-1047)ACA>ACC	p.T349T		NM_001039	NP_001030	P51170	SCNNG_HUMAN	sodium channel, nonvoltage-gated 1, gamma	349	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane|integral to plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(48;0.0366)	Amiloride(DB00594)|Triamterene(DB00384)	AGATTGAGACAGCAATGGTCA	0.448													19	47					0	0	1	0	0		C	23208718	C	C	23208718	2	2	66	1	0	0	0	0	0	0	0	1	13955	175	7	5		5	SCNN1G	16	23208718	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2056852	23208718	67146035	1188	45264											
CHP2	63928	broad.mit.edu	37	chr16	23768529	23768529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcatctctcaggttctccGtctgatggttggggtacagg	6	13	12	10	1	5	1	2	1	3	0	7	1	5	1	1	5	1	3	1	5	1	3	rs112597134	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:23768529G>A	uc002dmb.1	+	6	845	c.422G>A	c.(421-423)CGT>CAT	p.R141H		NM_022097	NP_071380	O43745	CHP2_HUMAN	hepatocellular carcinoma antigen gene 520	141	EF-hand 3.						calcium ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(48;0.0144)		CAGGTTCTCCGTCTGATGGTT	0.562													8	31					0	0	1	0	0		A	23768529	A	A	23768529	3	1	66	1	0	0	0	0	1	0	0	0	3370	1145	40	1	444	1	CHP2	16	23768529	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	559811	23768529	66586224	1189	45265											
RBBP6	5930	broad.mit.edu	37	chr16	24582804	24582804	+	Frame_Shift_Del	DEL	A	-	-																															acttcactcccaatagagacAaaaaaactgactatgacacc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:24582804delA	uc002dmh.2	+	18	5457	c.4417delA	c.(4417-4419)AAAfs	p.K1473fs	RBBP6_uc002dmi.2_Frame_Shift_Del_p.K1439fs|RBBP6_uc010bxr.2_Frame_Shift_Del_p.K633fs|RBBP6_uc002dmk.2_Frame_Shift_Del_p.K1306fs	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1473	Interaction with p53 (By similarity).				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		CAATAGAGACAAAAAAACTGA	0.368													21	47	---	---	---	---						.	-	24582804	-	-	24582804	7	5	66	1	0	1	0	1	0	0	0	0	13128	131	5	0	4541	0	RBBP6	16	24582804	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	814275	24582804	65771949	1190	45266											
TNRC6A	27327	broad.mit.edu	37	chr16	24831653	24831653	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttcgtataggtggaggatgGggaaattctgacgccagata	11	10	14	6	2	1	2	0	1	1	1	2	5	1	5	1	5	0	1	1	5	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:24831653G>A	uc002dmm.2	+	22	5388	c.5274G>A	c.(5272-5274)TGG>TGA	p.W1758*	TNRC6A_uc010bxs.2_Nonsense_Mutation_p.W1505*|TNRC6A_uc002dmn.2_Nonsense_Mutation_p.W1456*|TNRC6A_uc002dmo.2_Nonsense_Mutation_p.W1397*|TNRC6A_uc002dmr.2_5'Flank	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1758	Sufficient for interaction with EIF2C2.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		GTGGAGGATGGGGAAATTCTG	0.502													13	38					0	0	1	0	0		A	24831653	A	A	24831653	4	1	66	1	0	0	0	0	0	1	0	0	16365	1241	43	4	5360	4	TNRC6A	16	24831653	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	248849	24831653	65523100	1191	45267											
CLN3	1201	broad.mit.edu	37	chr16	28497797	28497797	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagtccctgaggaccacCaggagatcacggccctggga	9	4	12	16	1	1	2	1	1	0	1	2	5	2	4	6	4	0	0	6	4	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:28497797C>T	uc002dpo.2	-	8	871	c.548G>A	c.(547-549)TGG>TAG	p.W183*	uc010vct.1_Intron|CLN3_uc002dpl.2_Nonsense_Mutation_p.W105*|CLN3_uc010vcu.1_Nonsense_Mutation_p.W83*|CLN3_uc002dpn.2_Intron|CLN3_uc002dpm.2_Nonsense_Mutation_p.W129*|CLN3_uc010vcv.1_Nonsense_Mutation_p.W159*|CLN3_uc010byd.2_Nonsense_Mutation_p.W183*|CLN3_uc002dpp.2_Nonsense_Mutation_p.W183*|CLN3_uc002dpt.1_Nonsense_Mutation_p.W83*|CLN3_uc002dpq.1_Intron|CLN3_uc010bye.1_Nonsense_Mutation_p.W183*|CLN3_uc002dpr.1_Intron|CLN3_uc010byf.1_Intron|CLN3_uc002dps.1_Intron|CLN3_uc002dpu.1_Intron|CLN3_uc002dpw.1_Intron|CLN3_uc010vcw.1_Nonsense_Mutation_p.W129*|CLN3_uc002dqa.2_Nonsense_Mutation_p.W234*|CLN3_uc010vcx.1_Nonsense_Mutation_p.W83*|CLN3_uc002dpx.1_Intron|CLN3_uc002dpy.1_Intron|CLN3_uc002dpz.1_RNA	NM_000086	NP_000077	Q13286	CLN3_HUMAN	ceroid-lipofuscinosis, neuronal 3	183	Helical; (Potential).				amyloid precursor protein catabolic process|arginine transport|associative learning|autophagic vacuole fusion|cell death|cellular amino acid metabolic process|cytosolic calcium ion homeostasis|galactosylceramide metabolic process|globoside metabolic process|glucosylceramide metabolic process|ionotropic glutamate receptor signaling pathway|lysosomal lumen acidification|lysosomal lumen pH elevation|negative regulation of catalytic activity|negative regulation of macroautophagy|negative regulation of neuron apoptosis|negative regulation of proteolysis|neuromuscular process controlling balance|neurotransmitter metabolic process|protein catabolic process|protein folding|protein processing|receptor-mediated endocytosis|regulation of action potential|sphingomyelin metabolic process|vacuolar transport	autophagic vacuole|caveola|cytosol|early endosome|Golgi membrane|Golgi stack|integral to endoplasmic reticulum membrane|late endosome|lysosomal membrane|membrane fraction|mitochondrion|neuron projection|nucleus|synaptic vesicle|trans-Golgi network	unfolded protein binding				0						TGAGGACCACCAGGAGATCAC	0.652													6	15					0	0	1	0	0		T	28497797	T	T	28497797	4	4	66	1	0	0	0	0	0	1	0	0	3546	595	21	4	800	4	CLN3	16	28497797	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3666144	28497797	61856956	1192	45268											
SULT1A1	6817	broad.mit.edu	37	chr16	28620148	28620148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttcacgtactccagtggcGggcgggaggtgtcctggatc	5	9	15	12	3	1	0	1	0	0	0	4	2	3	2	3	5	1	1	3	5	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:28620148G>A	uc002dqi.2	-	1	502	c.29C>T	c.(28-30)CCG>CTG	p.P10L	uc010vct.1_Intron|SULT1A1_uc002dqj.2_Missense_Mutation_p.P10L|SULT1A1_uc002dqk.2_Missense_Mutation_p.P10L|SULT1A1_uc002dql.2_Missense_Mutation_p.P10L|SULT1A1_uc002dqm.2_Intron|SULT1A1_uc002dqn.2_Missense_Mutation_p.P101L|SULT1A1_uc002dqo.2_Missense_Mutation_p.P10L|SULT1A1_uc002dqp.2_Missense_Mutation_p.P10L	NM_177534	NP_803878	P50225	ST1A1_HUMAN	sulfotransferase family, cytosolic, 1A,	10					3'-phosphoadenosine 5'-phosphosulfate metabolic process|catecholamine metabolic process|flavonoid metabolic process|steroid metabolic process|sulfation|xenobiotic metabolic process	cytosol	aryl sulfotransferase activity|flavonol 3-sulfotransferase activity				0						CTCCAGTGGCGGGCGGGAGGT	0.602													18	61					0	0	1	0	0		A	28620148	A	A	28620148	3	1	66	1	0	0	0	0	1	0	0	0	15397	1116	39	1	886	1	SULT1A1	16	28620148	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	122351	28620148	61734605	1193	45269											
RABEP2	79874	broad.mit.edu	37	chr16	28922469	28922469	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgtcccgctcgcgactgAcgctctccaggtccttctgc	3	10	10	18	5	2	1	0	1	2	0	7	2	4	1	3	1	1	3	3	1	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:28922469A>C	uc002drq.2	-	6	974	c.926T>G	c.(925-927)GTC>GGC	p.V309G	uc010vct.1_Intron|RABEP2_uc010vdf.1_Missense_Mutation_p.V238G|RABEP2_uc010byn.2_Intron|RABEP2_uc002drr.2_Missense_Mutation_p.V309G	NM_024816	NP_079092	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	309	Potential.				endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3						CTCGCGACTGACGCTCTCCAG	0.537													16	25					0	0	1	0	0		C	28922469	C	C	28922469	3	2	66	1	0	0	0	0	1	0	0	0	12987	275	10	5	815	5	RABEP2	16	28922469	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	302321	28922469	61432284	1194	45270											
KIF22	3835	broad.mit.edu	37	chr16	29816292	29816292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcttcagcgcattggccCgaagaaggcccagctaatcg	10	7	11	13	3	2	1	1	0	1	1	3	2	2	1	2	2	2	2	2	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:29816292C>T	uc002dts.3	+	12	1859	c.1835C>T	c.(1834-1836)CCG>CTG	p.P612L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|KIF22_uc010vdv.1_Missense_Mutation_p.P544L|KIF22_uc010vdw.1_Missense_Mutation_p.P544L|KIF22_uc010bzf.2_Missense_Mutation_p.P558L|KIF22_uc002dtt.1_3'UTR|KIF22_uc002frc.1_RNA|MAZ_uc002dtv.1_5'Flank|MAZ_uc010vdx.1_5'Flank|MAZ_uc002dtw.2_5'Flank|MAZ_uc002dtx.2_5'Flank|MAZ_uc002dty.2_5'Flank|MAZ_uc010bzg.2_5'Flank|MAZ_uc002dtz.1_5'Flank	NM_007317	NP_015556	Q14807	KIF22_HUMAN	kinesin family member 22	612					blood coagulation|DNA repair|microtubule-based movement|mitosis	cytosol|kinetochore|microtubule|nucleus	ATP binding|DNA binding|microtubule motor activity|protein binding				0						CGCATTGGCCCGAAGAAGGCC	0.652													7	26					0	0	1	0	0		T	29816292	T	T	29816292	3	4	66	1	0	0	0	0	1	0	0	0	8306	652	23	1	1881	1	KIF22	16	29816292	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	893823	29816292	60538461	1195	45271											
CD2BP2	10421	broad.mit.edu	37	chr16	30365563	30365563	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccccccatcatcatcatcCtcctcctcatcgctatccaa	9	10	2	20	1	4	0	4	0	0	0	9	1	8	0	7	0	0	1	7	0	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:30365563C>T	uc002dxr.2	-	2	412	c.159G>A	c.(157-159)GAG>GAA	p.E53E	CD2BP2_uc002dxs.2_Silent_p.E53E	NM_006110	NP_006101	O95400	CD2B2_HUMAN	CD2 antigen (cytoplasmic tail) binding protein	53					assembly of spliceosomal tri-snRNP	cytoplasm|nucleoplasm|U5 snRNP	protein binding|ribonucleoprotein binding			ovary(1)	1						CATCATCATCCTCCTCCTCAT	0.517													75	209					0	0	1	0	0		T	30365563	T	T	30365563	2	4	66	1	0	0	0	0	0	0	0	1	2998	680	24	4		4	CD2BP2	16	30365563	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	549271	30365563	59989190	1196	45272											
SRCAP	10847	broad.mit.edu	37	chr16	30734369	30734369	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgactcctgttcctccAttggccccagcaccccggcc	5	8	9	19	1	0	1	0	1	0	0	3	2	3	2	8	3	1	2	8	3	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:30734369A>G	uc002dze.1	+	24	4363	c.3978A>G	c.(3976-3978)CCA>CCG	p.P1326P	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Silent_p.P1121P|SRCAP_uc010bzz.1_Silent_p.P896P	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1326	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CTGTTCCTCCATTGGCCCCAG	0.587													7	67					0	0	1	0	0		G	30734369	G	G	30734369	2	3	66	1	0	0	0	0	0	0	0	1	15160	204	8	3		3	SRCAP	16	30734369	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	368806	30734369	59620384	1197	45273											
SRCAP	10847	broad.mit.edu	37	chr16	30745251	30745251	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagtggaggagaacatcctAaaaaaggcaaatcagaagag	20	4	11	6	0	1	3	1	0	0	3	2	5	2	4	1	3	1	1	1	3	6	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:30745251A>T	uc002dze.1	+	30	6916	c.6531A>T	c.(6529-6531)CTA>CTT	p.L2177L	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Silent_p.L1972L	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2177	Helicase C-terminal.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			AGAACATCCTAAAAAAGGCAA	0.463													7	19					0	0	1	0	0		T	30745251	T	T	30745251	2	4	66	1	0	0	0	0	0	0	0	1	15160	349	13	5		5	SRCAP	16	30745251	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	10882	30745251	59609502	1198	45274											
SETD1A	9739	broad.mit.edu	37	chr16	30991058	30991058	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgcgccagccctgcggccCccggagccagtgcccgcacc	4	3	12	22	4	0	0	0	0	0	0	0	1	0	1	8	2	5	1	8	2	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:30991058C>A	uc002ead.1	+	14	4637	c.3951C>A	c.(3949-3951)CCC>CCA	p.P1317P		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1317					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						CCCTGCGGCCCCCGGAGCCAG	0.721													6	12					0.0215528	0.0216017	1	1	0		A	30991058	A	A	30991058	2	1	66	1	0	0	0	0	0	0	0	1	14155	610	22	5		5	SETD1A	16	30991058	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	245807	30991058	59363695	1199	45275											
ZNF646	9726	broad.mit.edu	37	chr16	31091754	31091754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgcgttgcgccctctgtgGccgcagcttccctggccggg	1	10	15	15	4	1	0	0	0	1	0	2	0	2	0	4	3	3	3	4	3	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:31091754G>A	uc002eap.2	+	2	4398	c.4109G>A	c.(4108-4110)GGC>GAC	p.G1370D		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	1370	C2H2-type 25.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						GCCCTCTGTGGCCGCAGCTTC	0.667													9	28					0	0	1	0	0		A	31091754	A	A	31091754	3	1	66	1	0	0	0	0	1	0	0	0	18087	1203	42	2	4111	2	ZNF646	16	31091754	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	100696	31091754	59262999	1200	45276											
BCKDK	10295	broad.mit.edu	37	chr16	31123563	31123563	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccgccacatcgatggcCgggaggaaagcttccggatc	8	6	14	13	4	0	0	0	0	0	0	4	4	2	3	4	5	1	2	4	5	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:31123563C>A	uc002eaw.3	+	12	1532	c.1216C>A	c.(1216-1218)CGG>AGG	p.R406R	BCKDK_uc002eav.3_3'UTR|BCKDK_uc010cah.2_RNA|BCKDK_uc010cai.2_3'UTR	NM_005881	NP_005872	O14874	BCKD_HUMAN	branched chain ketoacid dehydrogenase kinase	406					branched chain family amino acid catabolic process|peptidyl-histidine phosphorylation	mitochondrial alpha-ketoglutarate dehydrogenase complex	[3-methyl-2-oxobutanoate dehydrogenase (acetyl-transferring)] kinase activity|ATP binding|protein binding|protein serine/threonine kinase activity|two-component sensor activity			stomach(1)|breast(1)	2						CATCGATGGCCGGGAGGAAAG	0.682													13	30					1.3612e-06	1.40332e-06	1	1	0		A	31123563	A	A	31123563	2	1	66	1	0	0	0	0	0	0	0	1	1362	643	23	5		5	BCKDK	16	31123563	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	31809	31123563	59231190	1201	45277											
PRSS36	146547	broad.mit.edu	37	chr16	31151942	31151942	+	Frame_Shift_Del	DEL	G	-	-																															gctcagctccaggagggccaGggggggcctgagtcccaggt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:31151942delG	uc002ebd.2	-	13	2097	c.2038delC	c.(2038-2040)CTGfs	p.L680fs	PRSS36_uc010vff.1_Frame_Shift_Del_p.L455fs|PRSS36_uc010vfg.1_Frame_Shift_Del_p.L675fs|PRSS36_uc010vfh.1_Intron	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	680	Peptidase S1 3.				proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						AGGAGGGCCAGGGGGGGCCTG	0.726													7	16	---	---	---	---						.	-	31151942	-	-	31151942	7	5	66	1	0	1	0	1	0	0	0	0	12647	991	35	0	541	0	PRSS36	16	31151942	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	28379	31151942	59202811	1202	45278											
ARMC5	79798	broad.mit.edu	37	chr16	31473294	31473294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccagaaccgaacggcccGtgccctggggaacttagcca	10	5	11	15	3	0	1	0	0	0	1	1	3	1	2	5	3	5	0	5	3	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:31473294G>A	uc002ecc.2	+	2	1056	c.527G>A	c.(526-528)CGT>CAT	p.R176H	ARMC5_uc010vfn.1_Missense_Mutation_p.R271H|ARMC5_uc010vfo.1_Missense_Mutation_p.R208H|ARMC5_uc002eca.3_Missense_Mutation_p.R176H|ARMC5_uc010vfp.1_Missense_Mutation_p.R176H|ARMC5_uc002ecb.2_Missense_Mutation_p.R176H	NM_001105247	NP_001098717	Q96C12	ARMC5_HUMAN	armadillo repeat containing 5 isoform a	176	ARM 1.						binding			pancreas(1)	1						CGAACGGCCCGTGCCCTGGGG	0.562													14	31					0	0	1	0	0		A	31473294	A	A	31473294	3	1	66	1	0	0	0	0	1	0	0	0	955	1145	40	1	533	1	ARMC5	16	31473294	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	321352	31473294	58881459	1203	45279											
SHCBP1	79801	broad.mit.edu	37	chr16	46615864	46615864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagggtcagttcttgcaCaaagctccattttaccagtt	11	12	8	10	0	2	1	1	0	1	1	3	1	3	1	2	1	3	4	2	1	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:46615864C>T	uc002eec.3	-	13	1836	c.1796G>A	c.(1795-1797)TGT>TAT	p.C599Y		NM_024745	NP_079021	Q8NEM2	SHCBP_HUMAN	SHC SH2-domain binding protein 1	599										ovary(1)|breast(1)	2		all_cancers(37;0.00404)|all_epithelial(9;0.00527)|all_lung(18;0.0413)|Lung NSC(13;0.213)				AGTTCTTGCACAAAGCTCCAT	0.423													35	79					0	0	1	0	0		T	46615864	T	T	46615864	3	4	66	1	0	0	0	0	1	0	0	0	14299	478	17	4	226	4	SHCBP1	16	46615864	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	15142570	46615864	43738889	1204	45280											
DNAJA2	10294	broad.mit.edu	37	chr16	47001471	47001471	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gactgcatctgttgtaccatCcctggagccagctgtctgat	7	12	10	12	0	2	1	0	1	2	0	3	3	3	2	3	1	4	4	3	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:47001471C>A	uc002eeo.2	-	5	673	c.531G>T	c.(529-531)GGG>GGT	p.G177G	DNAJA2_uc002eep.2_Silent_p.G94G	NM_005880	NP_005871	O60884	DNJA2_HUMAN	DnaJ subfamily A member 2	177	CR-type.				positive regulation of cell proliferation|protein folding|response to heat	membrane	ATP binding|heat shock protein binding|metal ion binding|unfolded protein binding			lung(1)	1		all_cancers(37;0.00125)|all_lung(18;0.00338)|all_epithelial(9;0.00358)|Lung NSC(13;0.0309)|Breast(268;0.116)				GTTGTACCATCCCTGGAGCCA	0.493													29	67					4.22769e-11	4.45738e-11	1	1	0		A	47001471	A	A	47001471	2	1	66	1	0	0	0	0	0	0	0	1	4618	842	30	5		5	DNAJA2	16	47001471	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	385607	47001471	43353282	1205	45281											
ITFG1	81533	broad.mit.edu	37	chr16	47192809	47192809	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgccaatgtaaaatgccaAttattgccaagatgaaaaca	17	9	6	9	0	0	2	0	1	0	1	0	2	0	2	4	0	4	1	4	0	8	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:47192809A>G	uc002eet.2	-	17	1816	c.1754T>C	c.(1753-1755)ATT>ACT	p.I585T	ITFG1_uc010vgg.1_Missense_Mutation_p.I330T|ITFG1_uc010vgh.1_Silent_p.N453N	NM_030790	NP_110417	Q8TB96	TIP_HUMAN	integrin alpha FG-GAP repeat containing 1	585	Helical; (Potential).					extracellular region|integral to membrane				ovary(1)|central_nervous_system(1)	2		all_cancers(37;0.0613)|all_lung(18;0.0543)|Lung NSC(13;0.227)				TAAAATGCCAATTATTGCCAA	0.333													24	55					0	0	1	0	0		G	47192809	G	G	47192809	3	3	66	1	0	0	0	0	1	0	0	0	7885	101	4	3	92	3	ITFG1	16	47192809	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	191338	47192809	43161944	1206	45282											
C16orf78	123970	broad.mit.edu	37	chr16	49430587	49430587	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccagaggaggtgctgagctgCcggtgagagctgccaccccc	7	5	15	14	1	0	3	0	2	0	2	0	5	0	4	5	3	5	3	5	3	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:49430587C>T	uc002efr.2	+	4	691	c.648C>T	c.(646-648)TGC>TGT	p.C216C		NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970	216										central_nervous_system(1)	1						TGCTGAGCTGCCGGTGAGAGC	0.552													9	15					0	0	1	0	0		T	49430587	T	T	49430587	2	4	66	1	0	0	0	0	0	0	0	1	1838	747	26	2		2	C16orf78	16	49430587	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2237778	49430587	40924166	1207	45283											
ZNF423	23090	broad.mit.edu	37	chr16	49669865	49669865	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactccttgaggcacagggcGcacttgtagagcttctgcag	9	9	12	11	1	1	2	0	1	1	1	2	2	2	2	1	2	3	5	1	2	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:49669865G>A	uc002efs.2	-	5	3496	c.3198C>T	c.(3196-3198)TGC>TGT	p.C1066C	ZNF423_uc010vgn.1_Silent_p.C949C	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	1066	C2H2-type 25; degenerate.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GGCACAGGGCGCACTTGTAGA	0.642													9	9					0	0	1	0	0		A	49669865	A	A	49669865	2	1	66	1	0	0	0	0	0	0	0	1	17923	1079	38	1		1	ZNF423	16	49669865	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	239278	49669865	40684888	1208	45284											
CYLD	1540	broad.mit.edu	37	chr16	50785592	50785592	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtgatgaagattgtggCgtgtttgttgcattggacaa	9	14	14	4	1	0	3	0	2	0	1	0	4	0	4	0	2	1	3	0	2	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:50785592C>T	uc002egp.1	+	5	997	c.582C>T	c.(580-582)GGC>GGT	p.G194G	CYLD_uc002egn.1_Silent_p.G194G|CYLD_uc002ego.2_Silent_p.G194G|CYLD_uc010cbs.1_Silent_p.G194G|CYLD_uc002egq.1_Silent_p.G194G|CYLD_uc002egr.1_Silent_p.G194G|CYLD_uc002egs.1_Silent_p.G194G	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	194	CAP-Gly 1.|Interaction with TRIP.				cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				AAGATTGTGGCGTGTTTGTTG	0.458			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				30	112					0	0	1	0	0		T	50785592	T	T	50785592	2	4	66	1	0	0	0	0	0	0	0	1	4146	755	27	1		1	CYLD	16	50785592	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1115727	50785592	39569161	1209	45285											
FAM192A	80011	broad.mit.edu	37	chr16	57188381	57188381	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtggatggaggggccacTcagggaggtgtttccgagag	8	7	19	7	1	1	1	1	0	0	1	2	5	2	4	2	6	0	2	2	6	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:57188381T>G	uc010vhk.1	-	7	845	c.586A>C	c.(586-588)AGT>CGT	p.S196R	FAM192A_uc002ekz.3_Missense_Mutation_p.S195R|FAM192A_uc002ekv.3_Missense_Mutation_p.S118R|FAM192A_uc002ekw.3_Missense_Mutation_p.S195R|FAM192A_uc002ekx.3_Missense_Mutation_p.S195R|FAM192A_uc002eky.3_Missense_Mutation_p.S195R	NM_024946	NP_079222	Q9GZU8	F192A_HUMAN	NEFA-interacting nuclear protein NIP30	196						nucleus					0						GAGGGGCCACTCAGGGAGGTG	0.557													3	14					0	0	1	0	0		G	57188381	G	G	57188381	3	3	66	1	0	0	0	0	1	0	0	0	5534	1551	54	5	182	5	FAM192A	16	57188381	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	6402789	57188381	33166372	1210	45286											
KIFC3	3801	broad.mit.edu	37	chr16	57794222	57794222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctcctggcttgaccaggacCcaagctctgccctgcgtagc	6	8	11	16	1	1	1	0	1	1	0	2	2	2	2	4	2	4	4	4	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:57794222C>T	uc002emp.2	-	17	2536	c.2339G>A	c.(2338-2340)GGG>GAG	p.G780E	KIFC3_uc010vhw.1_Missense_Mutation_p.G678E|KIFC3_uc002emn.2_RNA|KIFC3_uc002emm.2_Missense_Mutation_p.G641E|KIFC3_uc010vhx.1_Missense_Mutation_p.G638E|KIFC3_uc010cdf.2_Missense_Mutation_p.G641E|KIFC3_uc002emo.3_Missense_Mutation_p.G641E|KIFC3_uc010vhy.1_Missense_Mutation_p.G722E|KIFC3_uc002emq.2_Missense_Mutation_p.G780E|KIFC3_uc010vhz.1_Missense_Mutation_p.G802E	NM_005550	NP_005541	Q9BVG8	KIFC3_HUMAN	kinesin family member C3 isoform 1	780					epithelial cell-cell adhesion|microtubule-based movement|visual perception|zonula adherens maintenance	centrosome|cytoplasmic vesicle membrane|kinesin complex|microtubule|zonula adherens	ATP binding|microtubule motor activity			central_nervous_system(2)|ovary(1)	3		all_neural(199;0.224)				TGACCAGGACCCAAGCTCTGC	0.617													18	50					0	0	1	0	0		T	57794222	T	T	57794222	3	4	66	1	0	0	0	0	1	0	0	0	8330	623	22	4	183	4	KIFC3	16	57794222	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	605841	57794222	32560531	1211	45287											
MMP15	4324	broad.mit.edu	37	chr16	58073833	58073833	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcgatggaggcggtgcgCagggccttccgcgtgtggga	5	7	18	11	5	0	0	0	0	0	0	2	3	1	2	2	5	1	1	2	5	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:58073833C>T	uc002ena.2	+	4	1468	c.495C>T	c.(493-495)CGC>CGT	p.R165R		NM_002428	NP_002419	P51511	MMP15_HUMAN	matrix metalloproteinase 15 preproprotein	165	Extracellular (Potential).				protein modification process|proteolysis	extracellular matrix|integral to plasma membrane	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|protein binding|zinc ion binding			central_nervous_system(2)|breast(1)	3						AGGCGGTGCGCAGGGCCTTCC	0.657													7	25					0	0	1	0	0		T	58073833	T	T	58073833	2	4	66	1	0	0	0	0	0	0	0	1	9672	697	25	2		2	MMP15	16	58073833	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	279611	58073833	32280920	1212	45288											
CDH8	1006	broad.mit.edu	37	chr16	61689541	61689541	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtggaggatttccactaTcactgattatgattggtaaa	12	14	9	6	0	2	2	2	2	0	0	3	4	3	4	1	3	0	1	1	3	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:61689541T>C	uc002eog.1	-	11	1991	c.1739A>G	c.(1738-1740)GAT>GGT	p.D580G		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	580	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		ATTTCCACTATCACTGATTAT	0.423													14	38					0	0	1	0	0		C	61689541	C	C	61689541	3	2	66	1	0	0	0	0	1	0	0	0	3119	1435	50	3	668	3	CDH8	16	61689541	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3615708	61689541	28665212	1213	45289											
CDH11	1009	broad.mit.edu	37	chr16	65026835	65026835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacctgtctgtgcttccaccGaaaaatagggttgtccttcg	8	13	9	11	2	1	0	0	0	1	0	4	1	3	0	4	1	2	2	4	1	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:65026835G>A	uc002eoi.2	-	5	1060	c.626C>T	c.(625-627)TCG>TTG	p.S209L	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Missense_Mutation_p.S209L|CDH11_uc010vin.1_Missense_Mutation_p.S83L	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	209	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		TGCTTCCACCGAAAAATAGGG	0.428			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			13	38					0	0	1	0	0		A	65026835	A	A	65026835	3	1	66	1	0	0	0	0	1	0	0	0	3100	1059	37	1	1800	1	CDH11	16	65026835	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3337294	65026835	25327918	1214	45290											
CDH11	1009	broad.mit.edu	37	chr16	65032614	65032614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccgcctgagccatcaacGtgtactgggctctctcttct	6	11	8	16	2	4	1	1	1	3	0	5	1	4	1	4	1	3	2	4	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:65032614G>A	uc002eoi.2	-	4	808	c.374C>T	c.(373-375)ACG>ATG	p.T125M	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Missense_Mutation_p.T125M|CDH11_uc010vin.1_Translation_Start_Site|CDH11_uc010vio.1_Missense_Mutation_p.T125M	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	125	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		AGCCATCAACGTGTACTGGGC	0.527			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			16	38					0	0	1	0	0		A	65032614	A	A	65032614	3	1	66	1	0	0	0	0	1	0	0	0	3100	1145	40	1	2056	1	CDH11	16	65032614	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5779	65032614	25322139	1215	45291											
CDH5	1003	broad.mit.edu	37	chr16	66424452	66424452	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacgctttcaccattgagAcaaaccccgcccacaacgag	13	5	8	15	3	1	1	1	1	0	1	1	4	1	2	4	1	2	1	4	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:66424452A>G	uc002eom.3	+	6	1084	c.928A>G	c.(928-930)ACA>GCA	p.T310A	CDH5_uc002eon.1_Missense_Mutation_p.T310A	NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	310	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		CACCATTGAGACAAACCCCGC	0.557													13	23					0	0	1	0	0		G	66424452	G	G	66424452	3	3	66	1	0	0	0	0	1	0	0	0	3116	275	10	3	946	3	CDH5	16	66424452	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1391838	66424452	23930301	1216	45292											
TPPP3	51673	broad.mit.edu	37	chr16	67425007	67425007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccagccatgtctgtgctcGctgccatgccaccctataga	7	9	9	16	1	1	1	0	0	1	1	2	1	1	1	5	0	4	2	5	0	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:67425007G>A	uc002esz.2	-	1	843	c.8C>T	c.(7-9)GCG>GTG	p.A3V	TPPP3_uc002eta.2_Missense_Mutation_p.A3V|TPPP3_uc002etb.2_Missense_Mutation_p.A3V	NM_016140	NP_057224	Q9BW30	TPPP3_HUMAN	tubulin polymerization-promoting protein family	3					microtubule bundle formation	cytoplasm|microtubule	calcium ion binding|tubulin binding			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0336)|Epithelial(162;0.0781)		GTCTGTGCTCGCTGCCATGCC	0.597													8	23					0	0	1	0	0		A	67425007	A	A	67425007	3	1	66	1	0	0	0	0	1	0	0	0	16441	1087	38	1	534	1	TPPP3	16	67425007	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1000555	67425007	22929746	1217	45293											
ATP6V0D1	9114	broad.mit.edu	37	chr16	67472918	67472918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gacctgttcatagtcgtcagCccgagccagctgcgccaggc	7	7	12	15	3	2	0	2	0	0	0	3	2	2	0	4	1	4	2	4	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:67472918C>T	uc002ete.1	-	6	872	c.772G>A	c.(772-774)GCT>ACT	p.A258T	ATP6V0D1_uc010vjo.1_Missense_Mutation_p.A299T|ATP6V0D1_uc010vjn.1_Missense_Mutation_p.A181T	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit	258					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		TAGTCGTCAGCCCGAGCCAGC	0.602													35	92					0	0	1	0	0		T	67472918	T	T	67472918	3	4	66	1	0	0	0	0	1	0	0	0	1174	739	26	2	295	2	ATP6V0D1	16	67472918	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	47911	67472918	22881835	1218	45294											
GFOD2	81577	broad.mit.edu	37	chr16	67709072	67709072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggctcataggttgttccGctgaagtgcctcacacaggt	8	10	12	11	1	2	1	2	1	0	0	3	1	3	1	2	3	1	5	2	3	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:67709072G>A	uc002eub.2	-	3	1439	c.1144C>T	c.(1144-1146)CGG>TGG	p.R382W	GFOD2_uc002eua.1_RNA|GFOD2_uc002euc.2_Missense_Mutation_p.R277W	NM_030819	NP_110446	Q3B7J2	GFOD2_HUMAN	glucose-fructose oxidoreductase domain	382						proteinaceous extracellular matrix	binding|oxidoreductase activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0151)|Epithelial(162;0.0505)|all cancers(182;0.242)		AGGTTGTTCCGCTGAAGTGCC	0.627													40	60					0	0	1	0	0		A	67709072	A	A	67709072	3	1	66	1	0	0	0	0	1	0	0	0	6359	1086	38	1	17	1	GFOD2	16	67709072	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	236154	67709072	22645681	1219	45295											
THAP11	57215	broad.mit.edu	37	chr16	67877120	67877120	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgcagggctggaggctgcCgagtgccctatgggccccca	6	5	15	15	2	0	0	0	0	0	0	0	2	0	1	5	4	2	3	5	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:67877120C>A	uc002euo.2	+	1	908	c.663C>A	c.(661-663)GCC>GCA	p.A221A	CENPT_uc002eun.3_Intron	NM_020457	NP_065190	Q96EK4	THA11_HUMAN	THAP domain containing 11	221	Ala-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|identical protein binding|metal ion binding				0		Acute lymphoblastic leukemia(13;0.000299)|all_hematologic(13;0.0184)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)		TGGAGGCTGCCGAGTGCCCTA	0.652													38	42					6.70999e-13	7.12558e-13	1	1	0		A	67877120	A	A	67877120	2	1	66	1	0	0	0	0	0	0	0	1	15868	639	23	5		5	THAP11	16	67877120	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	168048	67877120	22477633	1220	45296											
SLC7A6	9057	broad.mit.edu	37	chr16	68330642	68330642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	catcgggattgccctttctgGagtccctttctacttcatgg	5	15	9	12	1	3	0	1	0	2	0	5	2	4	2	2	3	2	0	2	3	1	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:68330642G>A	uc002evt.1	+	11	1691	c.1382G>A	c.(1381-1383)GGA>GAA	p.G461E	SLC7A6_uc002evu.1_Missense_Mutation_p.G461E|SLC7A6_uc002evv.1_RNA|SLC7A6_uc010cfc.1_RNA	NM_001076785	NP_001070253	Q92536	YLAT2_HUMAN	solute carrier family 7 (cationic amino acid	461	Helical; (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|antiporter activity			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.0948)		GCCCTTTCTGGAGTCCCTTTC	0.507													32	84					0	0	1	0	0		A	68330642	A	A	68330642	3	1	66	1	0	0	0	0	1	0	0	0	14726	1174	41	4	1412	4	SLC7A6	16	68330642	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	453522	68330642	22024111	1221	45297											
COG8	84342	broad.mit.edu	37	chr16	69368940	69368940	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacccatggcagggggcagCagtgggtcctcgtctgagaa	8	7	15	11	1	2	1	1	1	1	1	4	2	3	1	2	4	1	3	2	4	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:69368940C>T	uc002ewy.2	-	3	968	c.897G>A	c.(895-897)CTG>CTA	p.L299L	COG8_uc002ewz.3_Silent_p.L299L	NM_032382	NP_115758	Q96MW5	COG8_HUMAN	component of oligomeric golgi complex 8	299					protein transport	Golgi membrane|Golgi transport complex				ovary(1)	1						CAGGGGGCAGCAGTGGGTCCT	0.532													12	24					0	0	1	0	0		T	69368940	T	T	69368940	2	4	66	1	0	0	0	0	0	0	0	1	3667	697	25	2		2	COG8	16	69368940	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1038298	69368940	20985813	1222	45298											
HYDIN	54768	broad.mit.edu	37	chr16	70995976	70995976	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtgacagagatccctcGgctcagcgatgtcctctttg	7	11	12	11	2	2	2	1	1	1	1	5	5	4	3	2	2	1	1	2	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:70995976G>A	uc002ezr.2	-	38	5979	c.5851C>T	c.(5851-5853)CGA>TGA	p.R1951*		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	1952										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GAGATCCCTCGGCTCAGCGAT	0.502													4	50					0	0	1	0	0		A	70995976	A	A	70995976	4	1	66	1	0	0	0	0	0	1	0	0	7483	1124	39	1	9707	1	HYDIN	16	70995976	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1627036	70995976	19358777	1223	45299											
FTSJD1	55783	broad.mit.edu	37	chr16	71318132	71318132	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctcatcctgaaggcaCtcagtaaggctacacaactc	12	8	7	14	0	2	1	2	1	0	0	4	1	3	1	2	2	3	4	2	2	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:71318132C>G	uc010cga.2	-	3	2098	c.1692G>C	c.(1690-1692)GAG>GAC	p.E564D	FTSJD1_uc002ezy.3_Missense_Mutation_p.E564D|FTSJD1_uc002ezz.3_Missense_Mutation_p.E564D	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	564						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						CCTGAAGGCACTCAGTAAGGC	0.408													16	38					0	0	1	0	0		G	71318132	G	G	71318132	3	3	66	1	0	0	0	0	1	0	0	0	6104	564	20	5	624	5	FTSJD1	16	71318132	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	322156	71318132	19036621	1224	45300											
MARVELD3	91862	broad.mit.edu	37	chr16	71674726	71674726	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagaggctctatgcccgCaagggtctcacctggatgga	10	7	14	10	1	2	2	1	0	2	2	3	5	2	4	2	4	1	2	2	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:71674726C>T	uc002fau.2	+	3	1092	c.1029C>T	c.(1027-1029)CGC>CGT	p.R343R	PHLPP2_uc002fav.2_RNA|MARVELD3_uc010cge.2_3'UTR	NM_001017967	NP_001017967	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane				skin(1)	1		Ovarian(137;0.125)				TCTATGCCCGCAAGGGTCTCA	0.587													17	42					0	0	1	0	0		T	71674726	T	T	71674726	2	4	66	1	0	0	0	0	0	0	0	1	9337	697	25	2		2	MARVELD3	16	71674726	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	356594	71674726	18680027	1225	45301											
PHLPP2	23035	broad.mit.edu	37	chr16	71683921	71683921	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcccagcatccgggtacaGcaggttaccccattcacttt	9	9	8	15	1	1	0	1	0	0	0	2	0	2	0	4	2	5	4	4	2	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:71683921G>A	uc002fax.2	-	18	2850	c.2844C>T	c.(2842-2844)TGC>TGT	p.C948C	PHLPP2_uc002fav.2_Intron|PHLPP2_uc010cgf.2_Silent_p.C881C	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	948	PP2C-like.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						TCCGGGTACAGCAGGTTACCC	0.483													5	39					0	0	1	0	0		A	71683921	A	A	71683921	2	1	66	1	0	0	0	0	0	0	0	1	11874	963	34	2		2	PHLPP2	16	71683921	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	9195	71683921	18670832	1226	45302											
DHX38	9785	broad.mit.edu	37	chr16	72137666	72137666	+	Frame_Shift_Del	DEL	G	-	-																															aagagagtcagtgaagagatGgggggaaaccttggcgagga																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:72137666delG	uc002fcb.2	+	13	2158	c.1803delG	c.(1801-1803)ATGfs	p.M601fs	DHX38_uc010vmp.1_Intron	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	601	Helicase ATP-binding.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				GTGAAGAGATGGGGGGAAACC	0.547													12	26	---	---	---	---						.	-	72137666	-	-	72137666	7	5	66	1	0	1	0	1	0	0	0	0	4517	1348	47	0	1849	0	DHX38	16	72137666	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	453745	72137666	18217087	1227	45303											
ZFHX3	463	broad.mit.edu	37	chr16	72993867	72993867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcggtgctctccgcgaggcGctcattgaagggggccctca	5	7	15	14	5	3	1	2	1	1	0	4	2	3	1	2	4	1	2	2	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:72993867G>A	uc002fck.2	-	2	851	c.178C>T	c.(178-180)CGC>TGC	p.R60C	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	60					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TCCGCGAGGCGCTCATTGAAG	0.667													7	17					0	0	1	0	0		A	72993867	A	A	72993867	3	1	66	1	0	0	0	0	1	0	0	0	17659	1087	38	1	10969	1	ZFHX3	16	72993867	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	856201	72993867	17360886	1228	45304											
GLG1	2734	broad.mit.edu	37	chr16	74519763	74519763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacaagcttcattcaaagctCgatcaatgcggtaatctgca	13	10	7	11	2	4	0	3	0	1	0	5	1	4	0	0	1	4	4	0	1	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:74519763C>T	uc002fcy.3	-	9	1552	c.1502G>A	c.(1501-1503)CGA>CAA	p.R501Q	GLG1_uc002fcx.2_Missense_Mutation_p.R501Q|GLG1_uc002fcw.3_Missense_Mutation_p.R490Q|GLG1_uc002fcz.3_Intron	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	501	Extracellular (Potential).|Cys-rich GLG1 7.					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						ATTCAAAGCTCGATCAATGCG	0.388													43	84					0	0	1	0	0		T	74519763	T	T	74519763	3	4	66	1	0	0	0	0	1	0	0	0	6451	884	31	1	2189	1	GLG1	16	74519763	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1525896	74519763	15834990	1229	45305											
DYNLRB2	83657	broad.mit.edu	37	chr16	80577198	80577198	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggaggaaaccttaaagaGgatccagagtcataaagggg	15	6	15	5	0	1	2	1	0	0	2	2	5	2	5	2	6	1	0	2	6	5	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:80577198G>T	uc002ffo.2	+	4	149	c.29G>T	c.(28-30)AGG>ATG	p.R10M	DYNLRB2_uc002ffp.2_RNA|DYNLRB2_uc002ffq.2_RNA	NM_130897	NP_570967	Q8TF09	DLRB2_HUMAN	dynein, light chain, roadblock-type 2	10					microtubule-based movement|transport	cytoplasmic dynein complex|microtubule	microtubule motor activity				0						ACCTTAAAGAGGATCCAGAGT	0.428													25	85					9.39395e-14	9.9938e-14	1	1	0		T	80577198	T	T	80577198	3	4	66	1	0	0	0	0	1	0	0	0	4857	1000	35	5	35	5	DYNLRB2	16	80577198	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	6057435	80577198	9777555	1230	45306											
HSDL1	83693	broad.mit.edu	37	chr16	84163278	84163278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgcagaaagttgctgggtgCtgtcatgctggtggctacat	7	12	15	7	0	1	1	1	0	0	1	1	1	1	1	0	3	5	6	0	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:84163278C>T	uc002fhk.2	-	5	953	c.769G>A	c.(769-771)GCA>ACA	p.A257T	HSDL1_uc010vnv.1_Missense_Mutation_p.A202T	NM_031463	NP_113651	Q3SXM5	HSDL1_HUMAN	hydroxysteroid dehydrogenase like 1 isoform a	257						mitochondrion	oxidoreductase activity|protein binding				0						TTGCTGGGTGCTGTCATGCTG	0.453													28	64					0	0	1	0	0		T	84163278	T	T	84163278	3	4	66	1	0	0	0	0	1	0	0	0	7409	797	28	2	231	2	HSDL1	16	84163278	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3586080	84163278	6191475	1231	45307											
KCNG4	93107	broad.mit.edu	37	chr16	84270675	84270675	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcctggaaggacagcgcGcacatctcctgcagaagcac	10	6	10	15	2	1	1	0	0	1	1	4	3	3	3	3	2	3	3	3	2	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:84270675G>A	uc010voc.1	-	2	538	c.417C>T	c.(415-417)TGC>TGT	p.C139C	KCNG4_uc002fhu.1_Silent_p.C139C	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	139	Helical; Name=Segment S1; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						AGGACAGCGCGCACATCTCCT	0.652													9	29					0	0	1	0	0		A	84270675	A	A	84270675	2	1	66	1	0	0	0	0	0	0	0	1	8046	1079	38	1		1	KCNG4	16	84270675	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	107397	84270675	6084078	1232	45308											
USP10	9100	broad.mit.edu	37	chr16	84812550	84812550	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggccattacactacagaCgtcttccagatcggtctgaa	10	9	10	12	3	2	3	0	1	2	2	4	3	3	3	2	3	2	0	2	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:84812550C>T	uc002fii.2	+	14	2401	c.2259C>T	c.(2257-2259)GAC>GAT	p.D753D	USP10_uc010voe.1_Silent_p.D757D|USP10_uc010vof.1_Silent_p.D315D|USP10_uc002fij.2_Silent_p.D279D	NM_005153	NP_005144	Q14694	UBP10_HUMAN	ubiquitin specific protease 10	753					DNA damage response, signal transduction by p53 class mediator|DNA repair|protein deubiquitination|ubiquitin-dependent protein catabolic process	early endosome|intermediate filament cytoskeleton|nucleus	cystic fibrosis transmembrane conductance regulator binding|p53 binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						ACACTACAGACGTCTTCCAGA	0.557													11	23					0	0	1	0	0		T	84812550	T	T	84812550	2	4	66	1	0	0	0	0	0	0	0	1	17067	535	19	1		1	USP10	16	84812550	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	541875	84812550	5542203	1233	45309											
ZCCHC14	23174	broad.mit.edu	37	chr16	87445164	87445164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctgtttgcagtcctgggCgcggtgaccagtggccccgc	3	8	16	14	4	0	1	0	1	0	0	1	1	1	1	4	4	1	3	4	4	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:87445164C>T	uc002fjz.1	-	12	2779	c.2752G>A	c.(2752-2754)GCC>ACC	p.A918T	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Missense_Mutation_p.A694T	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	918	CCHC-type.				cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		CAGTCCTGGGCGCGGTGACCA	0.612													50	110					0	0	1	0	0		T	87445164	T	T	87445164	3	4	66	1	0	0	0	0	1	0	0	0	17608	768	27	1	105	1	ZCCHC14	16	87445164	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2632614	87445164	2909589	1234	45310											
BANP	54971	broad.mit.edu	37	chr16	88066731	88066731	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acagagccgatgatgagcacCccacctcctgccagcgagct	10	5	10	16	2	0	3	0	2	0	1	1	5	1	3	6	0	5	2	6	0	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:88066731C>T	uc002fkr.2	+	9	1277	c.1053C>T	c.(1051-1053)ACC>ACT	p.T351T	BANP_uc002fkp.2_Silent_p.T321T|BANP_uc002fkq.2_Silent_p.T321T|BANP_uc010vow.1_Silent_p.T359T|BANP_uc002fks.3_Silent_p.T320T|BANP_uc002fko.1_Silent_p.T257T|BANP_uc010vov.1_Silent_p.T326T	NM_079837	NP_524576	Q8N9N5	BANP_HUMAN	BTG3 associated nuclear protein isoform b	352	DNA-binding (By similarity).				cell cycle|chromatin modification|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0				BRCA - Breast invasive adenocarcinoma(80;0.00551)		TGATGAGCACCCCACCTCCTG	0.652													5	16					0	0	1	0	0		T	88066731	T	T	88066731	2	4	66	1	0	0	0	0	0	0	0	1	1311	610	22	4		4	BANP	16	88066731	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	621567	88066731	2288022	1235	45311											
CDT1	81620	broad.mit.edu	37	chr16	88874589	88874589	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctcagcctccaccgcaTccgcaccgacacctacgtca	8	6	7	20	4	2	0	2	0	0	0	4	1	4	0	6	1	2	3	6	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:88874589T>C	uc002flu.2	+	10	1598	c.1544T>C	c.(1543-1545)ATC>ACC	p.I515T		NM_030928	NP_112190	Q9H211	CDT1_HUMAN	chromatin licensing and DNA replication factor	515					DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|regulation of DNA-dependent DNA replication initiation|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0476)		CTCCACCGCATCCGCACCGAC	0.667													5	11					0	0	1	0	0		C	88874589	C	C	88874589	3	2	66	1	0	0	0	0	1	0	0	0	3183	1435	50	3	1582	3	CDT1	16	88874589	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	807858	88874589	1480164	1236	45312											
ANKRD11	29123	broad.mit.edu	37	chr16	89349686	89349688	+	In_Frame_Del	DEL	CTC	-	-																															atgatcccagggaaagccttCtccttcttctctttcccttg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:89349686_89349688delCTC	uc002fmx.1	-	9	3723_3725	c.3262_3264delGAG	c.(3262-3264)GAGdel	p.E1088del	ANKRD11_uc002fmy.1_In_Frame_Del_p.E1088del|ANKRD11_uc002fnc.1_In_Frame_Del_p.E1088del|ANKRD11_uc002fnb.1_In_Frame_Del_p.E1045del	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1088	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		GGAAAGCCTTCTCCTTCTTCTCT	0.399													53	121	---	---	---	---						.	-	89349688	-	-	89349686	7	5	66	1	0	1	0	1	0	0	0	0	639	912	32	0	4747	0	ANKRD11	16	89349686	In_Frame_Del	DEL	CTC	TCGA-BR-8361-01A-11D-2340-08	475097	89349686	1005067	1237	45313											
FANCA	2175	broad.mit.edu	37	chr16	89871710	89871710	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagcatggccctggcgacGtcagcatgctggcaggatgc	9	6	15	11	2	1	0	1	0	0	0	1	3	1	1	1	4	4	4	1	4	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr16:89871710G>A	uc002fou.1	-	7	729	c.687C>T	c.(685-687)GAC>GAT	p.D229D	FANCA_uc010vpn.1_Silent_p.D229D|FANCA_uc002fov.1_Silent_p.D212D|FANCA_uc002fow.1_Silent_p.D229D|FANCA_uc002fox.1_Silent_p.D229D|FANCA_uc010ciu.1_Silent_p.D197D|FANCA_uc002foy.2_Silent_p.D229D	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	229					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		CCCTGGCGACGTCAGCATGCT	0.522			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				7	19					0	0	1	0	0		A	89871710	A	A	89871710	2	1	66	1	0	0	0	0	0	0	0	1	5676	1136	40	1		1	FANCA	16	89871710	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	522024	89871710	483043	1238	45314											
SLC43A2	124935	broad.mit.edu	37	chr17	1486601	1486601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgatcttctggatctgcCggtcccgcttcttctttttc	3	18	8	12	2	5	1	0	1	5	0	7	2	6	2	2	2	1	1	2	2	1	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:1486601C>T	uc002fsv.2	-	11	1336	c.1247G>A	c.(1246-1248)CGG>CAG	p.R416Q	SLC43A2_uc002fsu.2_Missense_Mutation_p.R420Q	NM_152346	NP_689559	Q8N370	LAT4_HUMAN	solute carrier family 43, member 2	416					cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0883)		CTGGATCTGCCGGTCCCGCTT	0.607													45	23					0	0	1	0	0		T	1486601	T	T	1486601	3	4	66	1	0	0	0	0	1	0	0	0	14658	652	23	1	478	1	SLC43A2	17	1486601	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08		1486601	79708609	1239	45315											
RTN4RL1	146760	broad.mit.edu	37	chr17	1840323	1840324	+	Frame_Shift_Ins	INS	-	GC	GC																															tgcagccattcccacagggaINSgcgcgcgcgacaaccacagt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:1840323_1840324insGC	uc002ftp.2	-	2	811_812	c.792_793insGC	c.(790-795)CGCTCCfs	p.R264fs		NM_178568	NP_848663	Q86UN2	R4RL1_HUMAN	reticulon 4 receptor-like 1 precursor	264_265	LRRCT.				axon regeneration	anchored to plasma membrane	receptor activity				0						TCCCACAGGGAGCGCGCGCGAC	0.703													6	4	---	---	---	---						.	GC	1840324	GC	GC	1840323	7	5	66	1	0	1	1	0	0	0	0	0	13756	304	11	0	536	0	RTN4RL1	17	1840323	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	353722	1840323	79354887	1240	45316											
TRPV1	7442	broad.mit.edu	37	chr17	3470151	3470151	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactcttgaagacctcagcGtcctctggcttcagagaccc	8	9	10	14	1	4	3	2	1	2	2	5	5	5	4	3	2	1	1	3	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:3470151G>A	uc010vrr.1	-	15	3005	c.2478C>T	c.(2476-2478)GAC>GAT	p.D826D	TRPV1_uc010vro.1_Silent_p.D837D|TRPV1_uc010vrp.1_Silent_p.D766D|TRPV1_uc010vrq.1_Silent_p.D824D|TRPV1_uc010vrs.1_Silent_p.D826D|TRPV1_uc010vrt.1_Silent_p.D826D|TRPV1_uc010vru.1_Silent_p.D826D	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	826	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	AGACCTCAGCGTCCTCTGGCT	0.577													20	12					0	0	1	0	0		A	3470151	A	A	3470151	2	1	66	1	0	0	0	0	0	0	0	1	16621	1136	40	1		1	TRPV1	17	3470151	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1629828	3470151	77725059	1241	45317											
TAX1BP3	30851	broad.mit.edu	37	chr17	3567173	3567173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccatggtcatgtcccagcCgttcacctggccccaggaga	8	7	11	15	1	2	1	2	0	0	1	3	3	3	1	6	3	1	1	6	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:3567173C>T	uc002fwc.2	-	4	397	c.244G>A	c.(244-246)GGC>AGC	p.G82S	P2RX5_uc002fwd.2_RNA|TAX1BP3_uc002fwe.1_3'UTR	NM_014604	NP_055419	O14907	TX1B3_HUMAN	Tax1 binding protein 3	82	PDZ.				activation of Cdc42 GTPase activity|negative regulation of protein localization at cell surface|negative regulation of Wnt receptor signaling pathway|Rho protein signal transduction|Wnt receptor signaling pathway	cytoplasm|nucleus	protein C-terminus binding				0				COAD - Colon adenocarcinoma(5;0.0761)		ATGTCCCAGCCGTTCACCTGG	0.652													8	10					0	0	1	0	0		T	3567173	T	T	3567173	3	4	66	1	0	0	0	0	1	0	0	0	15620	652	23	1	134	1	TAX1BP3	17	3567173	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	97022	3567173	77628037	1242	45318											
TAX1BP3	30851	broad.mit.edu	37	chr17	3567980	3567980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaccccctcaccttgtccGtcttgtcttcagagaaggga	8	10	9	14	1	4	2	2	0	2	2	5	4	5	3	4	1	0	0	4	1	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:3567980G>A	uc002fwc.2	-	2	305	c.152C>T	c.(151-153)ACG>ATG	p.T51M	P2RX5_uc002fwd.2_RNA|TAX1BP3_uc002fwe.1_Missense_Mutation_p.T51M	NM_014604	NP_055419	O14907	TX1B3_HUMAN	Tax1 binding protein 3	51	PDZ.				activation of Cdc42 GTPase activity|negative regulation of protein localization at cell surface|negative regulation of Wnt receptor signaling pathway|Rho protein signal transduction|Wnt receptor signaling pathway	cytoplasm|nucleus	protein C-terminus binding				0				COAD - Colon adenocarcinoma(5;0.0761)		CACCTTGTCCGTCTTGTCTTC	0.567													36	15					0	0	1	0	0		A	3567980	A	A	3567980	3	1	66	1	0	0	0	0	1	0	0	0	15620	1145	40	1	234	1	TAX1BP3	17	3567980	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	807	3567980	77627230	1243	45319											
KIF1C	10749	broad.mit.edu	37	chr17	4923869	4923869	+	Frame_Shift_Del	DEL	C	-	-																															ctggaacgggaacgaggggtCcccccacccccaggaccgcc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:4923869delC	uc002gan.1	+	20	2159	c.1833delC	c.(1831-1833)GTCfs	p.V611fs		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	611					microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						AACGAGGGGTCCCCCCACCCC	0.587													36	25	---	---	---	---						.	-	4923869	-	-	4923869	7	5	66	1	0	1	0	1	0	0	0	0	8301	842	30	0	1903	0	KIF1C	17	4923869	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	1355889	4923869	76271341	1244	45320											
TNK1	8711	broad.mit.edu	37	chr17	7287072	7287072	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgggtaggtcccgaaggcccGatgggcacagaactggggga	9	4	18	10	3	0	1	0	0	0	1	1	4	1	2	2	6	1	2	2	6	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:7287072G>A	uc002ggi.3	+	5	631	c.471G>A	c.(469-471)CCG>CCA	p.P157P	TNK1_uc002ggj.3_Silent_p.P157P|TNK1_uc010cmf.2_RNA|TNK1_uc002ggk.3_5'Flank	NM_003985	NP_003976	Q13470	TNK1_HUMAN	tyrosine kinase, non-receptor, 1	157	Protein kinase.				protein autophosphorylation	membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(122;0.157)				CCGAAGGCCCGATGGGCACAG	0.627													3	9					0	0	1	0	0		A	7287072	A	A	7287072	2	1	66	1	0	0	0	0	0	0	0	1	16342	1045	37	1		1	TNK1	17	7287072	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2363203	7287072	73908138	1245	45321											
PLSCR3	57048	broad.mit.edu	37	chr17	7296968	7296968	+	Frame_Shift_Del	DEL	G	-	-																															acccctggcagtggcaagaaGggggcagcagaccccaaggc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:7296968delG	uc002ggm.1	-	3	404	c.195delC	c.(193-195)CCCfs	p.P65fs	PLSCR3_uc002ggl.2_Frame_Shift_Del_p.P65fs|PLSCR3_uc002ggq.1_5'UTR|PLSCR3_uc002ggn.1_Frame_Shift_Del_p.P65fs|PLSCR3_uc002ggo.1_Frame_Shift_Del_p.P65fs|PLSCR3_uc002ggp.1_5'UTR|PLSCR3_uc002ggr.1_Frame_Shift_Del_p.P65fs|PLSCR3_uc010cmg.1_Frame_Shift_Del_p.P65fs	NM_020360	NP_065093	Q9NRY6	PLS3_HUMAN	phospholipid scramblase 3	65	Cytoplasmic (By similarity).|SH3-binding 3 (Potential).				phospholipid scrambling	integral to membrane|plasma membrane	calcium ion binding|calcium-dependent protein binding|phospholipid scramblase activity|SH3 domain binding				0		Prostate(122;0.173)				GTGGCAAGAAGGGGGCAGCAG	0.706													12	26	---	---	---	---						.	-	7296968	-	-	7296968	7	5	66	1	0	1	0	1	0	0	0	0	12130	987	35	0	716	0	PLSCR3	17	7296968	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	9896	7296968	73898242	1246	45322											
ZBTB4	57659	broad.mit.edu	37	chr17	7366256	7366256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcccactgccccccacactgGcacctccagcagctccagcc	7	4	7	23	0	0	0	0	0	0	0	2	0	2	0	8	1	4	3	8	1	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:7366256G>A	uc002ghc.3	-	4	2295	c.2045C>T	c.(2044-2046)GCC>GTC	p.A682V	ZBTB4_uc002ghd.3_Missense_Mutation_p.A682V	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	682					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		CCCCACACTGGCACCTCCAGC	0.612													52	45					0	0	1	0	0		A	7366256	A	A	7366256	3	1	66	1	0	0	0	0	1	0	0	0	17566	1203	42	2	1000	2	ZBTB4	17	7366256	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	69288	7366256	73828954	1247	45323											
TP53	7157	broad.mit.edu	37	chr17	7578403	7578403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcgctcatggtgggggCagcgcctcacaacctccgtc	7	6	13	15	3	2	0	2	0	0	0	4	0	3	0	3	3	4	3	3	3	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:7578403C>T	uc002gim.2	-	5	721	c.527G>A	c.(526-528)TGC>TAC	p.C176Y	TP53_uc002gig.1_Missense_Mutation_p.C176Y|TP53_uc002gih.2_Missense_Mutation_p.C176Y|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C44Y|TP53_uc010cng.1_Missense_Mutation_p.C44Y|TP53_uc002gii.1_Missense_Mutation_p.C44Y|TP53_uc010cnh.1_Missense_Mutation_p.C176Y|TP53_uc010cni.1_Missense_Mutation_p.C176Y|TP53_uc002gij.2_Missense_Mutation_p.C176Y|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C83Y|TP53_uc002gio.2_Missense_Mutation_p.C44Y|TP53_uc010vug.1_Missense_Mutation_p.C137Y	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	176	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	CP -> FS (in a sporadic cancer; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in sporadic cancers; somatic mutation).|C -> F (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C176F(102)|p.C176Y(56)|p.C176S(19)|p.C176W(11)|p.C176R(8)|p.C176fs*71(7)|p.0?(7)|p.C176*(6)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.C176G(3)|p.C176fs*5(3)|p.R175_E180delRCPHHE(3)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.C176fs*65(1)|p.C176_P177delCP(1)|p.V173fs*69(1)|p.C176fs*68(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R174_H178>S(1)|p.C44Y(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R42fs*24(1)|p.C83Y(1)|p.C176fs*72(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R174fs*70(1)|p.C176del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.C176fs*6(1)|p.R174fs*3(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ATGGTGGGGGCAGCGCCTCAC	0.652		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			29	19					0	0	1	0	0		T	7578403	T	T	7578403	3	4	66	1	0	0	0	0	1	0	0	0	16407	710	25	2	771	2	TP53	17	7578403	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	212147	7578403	73616807	1248	45324											
EFNB3	1949	broad.mit.edu	37	chr17	7612702	7612702	+	Frame_Shift_Del	DEL	G	-	-																															aggggagggtctctgggcctGgggggtggaggtgggatggg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:7612702delG	uc002gis.2	+	5	1228	c.831delG	c.(829-831)CTGfs	p.L277fs		NM_001406	NP_001397	Q15768	EFNB3_HUMAN	ephrin-B3 precursor	277	Cytoplasmic (Potential).				cell-cell signaling|interspecies interaction between organisms	integral to plasma membrane	ephrin receptor binding|transmembrane-ephrin receptor activity			ovary(1)	1		all_cancers(10;1.14e-06)|Prostate(122;0.081)				CTCTGGGCCTGGGGGGTGGAG	0.711													21	7	---	---	---	---						.	-	7612702	-	-	7612702	7	5	66	1	0	1	0	1	0	0	0	0	4963	1335	47	0	849	0	EFNB3	17	7612702	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	34299	7612702	73582508	1249	45325											
DNAH2	146754	broad.mit.edu	37	chr17	7735951	7735951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggacttggccatgcgtGtggagcagtttgagctgtgg	5	10	17	9	2	0	1	0	1	0	0	0	3	0	3	2	4	3	3	2	4	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:7735951G>A	uc002giu.1	+	82	12795	c.12781G>A	c.(12781-12783)GTG>ATG	p.V4261M		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	4261					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GGCCATGCGTGTGGAGCAGTT	0.582													94	49					0	0	1	0	0		A	7735951	A	A	7735951	3	1	66	1	0	0	0	0	1	0	0	0	4608	1377	48	4	13107	4	DNAH2	17	7735951	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	123249	7735951	73459259	1250	45326											
MYH10	4628	broad.mit.edu	37	chr17	8383817	8383817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgatccgagcttccagaCgccgcttctcatccagcagc	7	8	10	16	4	1	1	1	0	1	1	5	3	4	1	4	0	4	3	4	0	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:8383817C>T	uc002gll.2	-	37	5294	c.5198G>A	c.(5197-5199)CGT>CAT	p.R1733H	MYH10_uc002glm.2_Missense_Mutation_p.R1764H|MYH10_uc010cnx.2_Missense_Mutation_p.R1742H	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1733	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						AGCTTCCAGACGCCGCTTCTC	0.572													19	4					0	0	1	0	0		T	8383817	T	T	8383817	3	4	66	1	0	0	0	0	1	0	0	0	10048	536	19	1	752	1	MYH10	17	8383817	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	647866	8383817	72811393	1251	45327											
WDR16	146845	broad.mit.edu	37	chr17	9503394	9503394	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcttcaggtggatgatgAtgatagctttttctaccttg	7	17	10	7	0	3	3	1	3	2	0	3	4	3	4	1	2	2	2	1	2	2	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:9503394A>G	uc002gly.2	+	6	716	c.647A>G	c.(646-648)GAT>GGT	p.D216G	WDR16_uc002glz.2_Missense_Mutation_p.D148G|WDR16_uc010coc.2_Missense_Mutation_p.D226G	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	216						cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						GTGGATGATGATGATAGCTTT	0.289													73	45					0	0	1	0	0		G	9503394	G	G	9503394	3	3	66	1	0	0	0	0	1	0	0	0	17302	333	12	3	669	3	WDR16	17	9503394	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1119577	9503394	71691816	1252	45328											
GAS7	8522	broad.mit.edu	37	chr17	10101597	10101597	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcgccttcccaccagccGccgtccgggacctgcagcag	5	7	10	19	4	1	0	0	0	1	0	4	1	3	1	7	1	3	2	7	1	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:10101597G>A	uc002gmg.1	-	1	272	c.111C>T	c.(109-111)GGC>GGT	p.G37G		NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	37	SH3.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						CCCACCAGCCGCCGTCCGGGA	0.721			T	MLL	AML*								16	10					0	0	1	0	0		A	10101597	A	A	10101597	2	1	66	1	0	0	0	0	0	0	0	1	6265	1074	38	1		1	GAS7	17	10101597	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	598203	10101597	71093613	1253	45329											
MYH2	4620	broad.mit.edu	37	chr17	10426958	10426958	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctggtgtcctgctccttcTtcagctcctcagccatcatg	4	13	8	16	1	4	0	3	0	1	0	7	0	7	0	4	1	3	3	4	1	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:10426958T>A	uc010coi.2	-	37	5455	c.5327A>T	c.(5326-5328)AAG>ATG	p.K1776M	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.K1776M|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1776	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTGCTCCTTCTTCAGCTCCTC	0.493													10	136					0	0	1	0	0		A	10426958	A	A	10426958	3	1	66	1	0	0	0	0	1	0	0	0	10053	1609	56	5	514	5	MYH2	17	10426958	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	325361	10426958	70768252	1254	45330											
TTC19	54902	broad.mit.edu	37	chr17	15928377	15928377	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgggcatgtgcttagaCgcctgtgctcgctaccttct	4	14	10	13	2	2	1	0	0	2	1	3	1	2	1	2	1	3	4	2	1	2	4	rs149658292		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:15928377C>T	uc002gph.1	+	8	1104	c.1086C>T	c.(1084-1086)GAC>GAT	p.D362D	TTC19_uc010cox.1_RNA|TTC19_uc002gpk.3_Silent_p.D4D|TTC19_uc002gpj.2_Silent_p.D4D	NM_017775	NP_060245	Q6DKK2	TTC19_HUMAN	tetratricopeptide repeat domain 19	241	TPR 3.				cell cycle|cytokinesis|mitochondrial respiratory chain complex III assembly	centrosome|midbody|mitochondrial inner membrane	protein binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		TGTGCTTAGACGCCTGTGCTC	0.473													23	45					0	0	1	0	0		T	15928377	T	T	15928377	2	4	66	1	0	0	0	0	0	0	0	1	16712	535	19	1		1	TTC19	17	15928377	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	5501419	15928377	65266833	1255	45331											
NCOR1	9611	broad.mit.edu	37	chr17	15967444	15967444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctcccgctccttctccCgctcccgttcccgttccctc	0	11	5	25	5	1	0	0	0	1	0	8	0	6	0	7	0	0	5	7	0	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:15967444C>T	uc002gpo.2	-	35	5399	c.5159G>A	c.(5158-5160)CGG>CAG	p.R1720Q	NCOR1_uc002gpn.2_Missense_Mutation_p.R1736Q|NCOR1_uc002gpm.2_Missense_Mutation_p.R240Q|NCOR1_uc010vwb.1_Missense_Mutation_p.R304Q|NCOR1_uc010coy.2_Missense_Mutation_p.R628Q|NCOR1_uc010vwc.1_Missense_Mutation_p.R530Q	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1720	Interaction with ETO.|Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		ctccttctcccgctcccgttc	0.383													19	45					0	0	1	0	0		T	15967444	T	T	15967444	3	4	66	1	0	0	0	0	1	0	0	0	10254	652	23	1	2211	1	NCOR1	17	15967444	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	39067	15967444	65227766	1256	45332											
CCDC144A	9720	broad.mit.edu	37	chr17	16664902	16664902	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagctgaaacaagaagtagTaaacctcaaaagttatatgg	18	8	9	6	0	1	2	1	1	0	1	1	2	1	2	1	1	3	5	1	1	10	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:16664902T>C	uc002gqk.1	+	13	3612	c.3536T>C	c.(3535-3537)GTA>GCA	p.V1179A	CCDC144A_uc002gql.1_Missense_Mutation_p.V695A|LOC162632_uc010cpj.1_RNA	NM_014695	NP_055510	A2RUR9	C144A_HUMAN	coiled-coil domain containing 144A	1179	Potential.										0						CAAGAAGTAGTAAACCTCAAA	0.338													20	11					0	0	1	0	0		C	16664902	C	C	16664902	3	2	66	1	0	0	0	0	1	0	0	0	2780	1638	57	3	3586	3	CCDC144A	17	16664902	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	697458	16664902	64530308	1257	45333											
ALDH3A1	218	broad.mit.edu	37	chr17	19641649	19641649	+	Frame_Shift_Del	DEL	G	-	-																															ctctcaccttggccgggctcGgggggtatctgaccttcagg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:19641649delG	uc010cqu.2	-	9	1664	c.1334delC	c.(1333-1335)CCGfs	p.P445fs	ALDH3A1_uc010vzd.1_Frame_Shift_Del_p.P445fs|ALDH3A1_uc002gwj.2_Frame_Shift_Del_p.P445fs|ALDH3A1_uc010cqv.2_Frame_Shift_Del_p.P444fs|ALDH3A1_uc002gwk.2_Frame_Shift_Del_p.P562fs|ALDH3A1_uc002gwl.1_Frame_Shift_Del_p.P372fs	NM_001135168	NP_001128640	P30838	AL3A1_HUMAN	aldehyde dehydrogenase 3A1	445					cellular aldehyde metabolic process	cytosol|endoplasmic reticulum	alcohol dehydrogenase (NADP+) activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(1)|pancreas(1)	2	all_cancers(12;4.01e-05)|all_epithelial(12;0.00301)|Breast(13;0.186)			Colorectal(15;0.0829)	NADH(DB00157)	GGCCGGGCTCGGGGGGTATCT	0.627													46	38	---	---	---	---						.	-	19641649	-	-	19641649	7	5	66	1	0	1	0	1	0	0	0	0	497	1116	39	0	35	0	ALDH3A1	17	19641649	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	2976747	19641649	61553561	1258	45334											
MAP2K3	5606	broad.mit.edu	37	chr17	21216802	21216802	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctgcactattctctcctAgcctgaggaagaaccccgca	10	8	8	15	1	1	2	0	1	1	1	3	3	2	3	4	1	4	3	4	1	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:21216802A>G	uc002gys.2	+	11	1180	c.915_splice	c.e11-2	p.C305_splice	MAP2K3_uc002gyt.2_Splice_Site_p.C276_splice|MAP2K3_uc002gyu.2_Splice_Site_p.C276_splice	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3						activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		ATTCTCTCCTAGCCTGAGGAA	0.652													4	27					0	0	1	0	0		G	21216802	G	G	21216802	5	3	66	1	0	0	0	0	0	0	1	0	9256	434	15	3	955	3	MAP2K3	17	21216802	Splice_Site	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1575153	21216802	59978408	1259	45335											
IFT20	90410	broad.mit.edu	37	chr17	26657489	26657491	+	In_Frame_Del	DEL	CTT	-	-																															cttcatcttttcattttctgCttcttttgcaagttgatcaa																								rs148686581	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:26657489_26657491delCTT	uc002haw.1	-	3	323_325	c.191_193delAAG	c.(190-195)GAAGCA>GCA	p.E64del	IFT20_uc002hau.1_In_Frame_Del_p.E64del|IFT20_uc002hav.1_In_Frame_Del_p.E90del|IFT20_uc010wae.1_In_Frame_Del_p.E90del|TNFAIP1_uc002hax.1_5'Flank			Q8IY31	IFT20_HUMAN	RecName: Full=Intraflagellar transport protein 20 homolog;          Short=hIFT20;	64					cell projection organization	centriole|cilium|Golgi apparatus|microtubule basal body	protein binding				0	all_lung(13;0.000294)|Lung NSC(42;0.000964)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		TCATTTTCTGCTTCTTTTGCAAG	0.379													22	50	---	---	---	---						.	-	26657491	-	-	26657489	7	5	66	1	0	1	0	1	0	0	0	0	7574	797	28	0	269	0	IFT20	17	26657489	In_Frame_Del	DEL	CTT	TCGA-BR-8361-01A-11D-2340-08	5440687	26657489	54537721	1260	45336											
VTN	7448	broad.mit.edu	37	chr17	26697012	26697012	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtaagagcagagctcgtcAcactggcacttcttgtccac	10	10	9	12	1	2	2	1	0	1	2	4	2	3	2	1	1	2	4	1	1	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:26697012A>G	uc002hbc.2	-	2	269	c.120T>C	c.(118-120)TGT>TGC	p.C40C	SARM1_uc010wah.1_Intron|SEBOX_uc010crk.1_5'Flank|SARM1_uc010waj.1_Intron|SARM1_uc010crl.1_5'Flank	NM_000638	NP_000629	P04004	VTNC_HUMAN	vitronectin precursor	40	SMB.				cell adhesion mediated by integrin|immune response|negative regulation of endopeptidase activity|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein binding|positive regulation of receptor-mediated endocytosis|positive regulation of smooth muscle cell migration|positive regulation of vascular endothelial growth factor receptor signaling pathway|smooth muscle cell-matrix adhesion	alphav-beta3 integrin-vitronectin complex|extracellular space	heparin binding|integrin binding|scavenger receptor activity			ovary(1)|kidney(1)	2	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Urokinase(DB00013)	AGAGCTCGTCACACTGGCACT	0.597													10	40					0	0	1	0	0		G	26697012	G	G	26697012	2	3	66	1	0	0	0	0	0	0	0	1	17263	157	6	3		3	VTN	17	26697012	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	39523	26697012	54498198	1261	45337											
KIAA0100	9703	broad.mit.edu	37	chr17	26943932	26943932	+	Frame_Shift_Del	DEL	C	-	-																															aatgctccttaacagagataCccccaacagggggccgaact																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:26943932delC	uc002hbu.2	-	34	6095	c.5996delG	c.(5995-5997)GGTfs	p.G1999fs	SGK494_uc010waq.1_5'Flank|SGK494_uc010war.1_5'Flank|SGK494_uc002hbr.1_5'Flank|uc002hbs.1_RNA|KIAA0100_uc002hbt.2_Frame_Shift_Del_p.G328fs	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	1999						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					AACAGAGATACCCCCAACAGG	0.532													15	26	---	---	---	---						.	-	26943932	-	-	26943932	7	5	66	1	0	1	0	1	0	0	0	0	8170	507	18	0	735	0	KIAA0100	17	26943932	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	246920	26943932	54251278	1262	45338											
NEK8	284086	broad.mit.edu	37	chr17	27064895	27064895	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgtcgtcagtgtatgcCtggggtggtgggctgggcac	4	10	17	10	1	1	0	1	0	0	0	2	0	1	0	2	5	1	3	2	5	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:27064895C>A	uc002hcp.2	+	7	948	c.948C>A	c.(946-948)GCC>GCA	p.A316A		NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	316	RCC1 1.					cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					CAGTGTATGCCTGGGGTGGTG	0.637													34	56					8.4185e-14	8.96147e-14	1	1	0		A	27064895	A	A	27064895	2	1	66	1	0	0	0	0	0	0	0	1	10349	668	24	5		5	NEK8	17	27064895	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	120963	27064895	54130315	1263	45339											
CPD	1362	broad.mit.edu	37	chr17	28773000	28773000	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatcagagtttctgagaggActtgtaatgaactatccaca	13	13	8	7	0	2	3	1	2	1	2	3	5	3	4	1	1	1	2	1	1	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:28773000A>G	uc002hfb.1	+	12	2850	c.2835A>G	c.(2833-2835)GGA>GGG	p.G945G	CPD_uc010wbo.1_Silent_p.G698G|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	945	Extracellular (Potential).|Carboxypeptidase-like 3.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						TTCTGAGAGGACTTGTAATGA	0.363													7	77					0	0	1	0	0		G	28773000	G	G	28773000	2	3	66	1	0	0	0	0	0	0	0	1	3801	262	10	3		3	CPD	17	28773000	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1708105	28773000	52422210	1264	45340											
TMEM132E	124842	broad.mit.edu	37	chr17	32962034	32962034	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgacttcatgcgggtgggCgatccccgagtggcacacat	8	8	14	11	3	1	1	1	1	0	0	2	3	2	1	2	3	1	1	2	3	0	1	rs140125786		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:32962034C>T	uc002hif.2	+	8	1963	c.1635C>T	c.(1633-1635)GGC>GGT	p.G545G		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	545	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		TGCGGGTGGGCGATCCCCGAG	0.612													8	24					0	0	1	0	0		T	32962034	T	T	32962034	2	4	66	1	0	0	0	0	0	0	0	1	16073	755	27	1		1	TMEM132E	17	32962034	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4189034	32962034	48233176	1265	45341											
TMEM132E	124842	broad.mit.edu	37	chr17	32964652	32964652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttcctgccgctgcccaccGgcttcctgcaggtgccacgg	4	8	11	18	3	0	0	0	0	0	0	2	0	2	0	6	3	4	3	6	3	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:32964652G>A	uc002hif.2	+	10	2684	c.2356G>A	c.(2356-2358)GGC>AGC	p.G786S		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	786	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		GCTGCCCACCGGCTTCCTGCA	0.692													13	35					0	0	1	0	0		A	32964652	A	A	32964652	3	1	66	1	0	0	0	0	1	0	0	0	16073	1116	39	1	2394	1	TMEM132E	17	32964652	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2618	32964652	48230558	1266	45342											
ZNF830	91603	broad.mit.edu	37	chr17	33288913	33288913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaagcgccggacgcagacGaccaagatgtcaagagagcg	14	2	15	10	5	1	3	1	0	0	3	1	7	1	5	2	2	2	1	2	2	3	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:33288913G>A	uc002hih.3	+	1	365	c.328G>A	c.(328-330)GAC>AAC	p.D110N	CCT6B_uc002hig.2_5'Flank|CCT6B_uc010ctg.2_5'Flank|CCT6B_uc010wcc.1_5'Flank	NM_052857	NP_443089	Q96NB3	ZN830_HUMAN	coiled-coil domain containing 16	110					cell division|mitosis	cytoplasm|nucleus	metal ion binding			breast(1)	1		Ovarian(249;0.17)				GGACGCAGACGACCAAGATGT	0.567													32	56					0	0	1	0	0		A	33288913	A	A	33288913	3	1	66	1	0	0	0	0	1	0	0	0	18209	1058	37	1	330	1	ZNF830	17	33288913	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	324261	33288913	47906297	1267	45343											
AMAC1	146861	broad.mit.edu	37	chr17	33520662	33520662	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagccagataggaaggccActgttgggaggcagggggga	11	4	18	8	0	0	1	0	0	0	1	0	4	0	4	3	7	1	2	3	7	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:33520662A>G	uc002hjd.2	-	1	751	c.665T>C	c.(664-666)GTG>GCG	p.V222A		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	222	Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		TAGGAAGGCCACTGTTGGGAG	0.627													23	62					0	0	1	0	0		G	33520662	G	G	33520662	3	3	66	1	0	0	0	0	1	0	0	0	559	159	6	3	355	3	AMAC1	17	33520662	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	231749	33520662	47674548	1268	45344											
MYO19	80179	broad.mit.edu	37	chr17	34883424	34883424	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactctctcattagctcgggCgagtagagctgaggaacagg	10	9	13	9	2	2	2	1	1	1	1	4	4	2	3	0	3	4	3	0	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:34883424C>T	uc010wcy.1	-	6	1250	c.258G>A	c.(256-258)TCG>TCA	p.S86S	MYO19_uc002hmw.2_Silent_p.S86S|MYO19_uc010cuu.2_RNA|MYO19_uc010wcz.1_RNA|MYO19_uc010wda.1_Intron|MYO19_uc002hmx.2_Silent_p.S86S	NM_001163735	NP_001157207	Q96H55	MYO19_HUMAN	myosin XIX isoform 2	86	Myosin head-like.					mitochondrial outer membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)	1		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		TTAGCTCGGGCGAGTAGAGCT	0.602													3	13					0	0	1	0	0		T	34883424	T	T	34883424	2	4	66	1	0	0	0	0	0	0	0	1	10085	755	27	1		1	MYO19	17	34883424	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1362762	34883424	46311786	1269	45345											
SYNRG	11276	broad.mit.edu	37	chr17	35914112	35914112	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatcggctgttttaaaatcGgtgaaaccatcatcagttcc	11	13	7	10	2	2	1	2	1	0	0	5	1	3	1	2	2	1	3	2	2	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:35914112G>A	uc002hoa.2	-	14	1796	c.1713C>T	c.(1711-1713)ACC>ACT	p.T571T	SYNRG_uc010wde.1_Silent_p.T493T|SYNRG_uc010wdf.1_Silent_p.T493T|SYNRG_uc002hoc.2_Silent_p.T492T|SYNRG_uc002hoe.2_Silent_p.T493T|SYNRG_uc002hod.2_Silent_p.T493T|SYNRG_uc010wdg.1_Silent_p.T410T|SYNRG_uc002hob.2_Silent_p.T571T|SYNRG_uc002hof.2_Silent_p.T283T|SYNRG_uc010cvd.1_Silent_p.T371T	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	571	Interaction with A1P1G1 and A1P1G2.				endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						TTTTAAAATCGGTGAAACCAT	0.403													37	96					0	0	1	0	0		A	35914112	A	A	35914112	2	1	66	1	0	0	0	0	0	0	0	1	15485	1103	39	1		1	SYNRG	17	35914112	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1030688	35914112	45281098	1270	45346											
FBXO47	494188	broad.mit.edu	37	chr17	37099920	37099920	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtcatatagtaacttaatgGcatcagccaaacctttcaga	14	11	6	10	1	3	1	3	0	0	1	3	1	3	1	2	1	3	2	2	1	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:37099920G>T	uc002hrc.2	-	8	1063	c.863C>A	c.(862-864)GCC>GAC	p.A288D		NM_001008777	NP_001008777	Q5MNV8	FBX47_HUMAN	F-box protein 47	288											0						TAACTTAATGGCATCAGCCAA	0.373													24	52					2.21704e-12	2.3487e-12	1	1	0		T	37099920	T	T	37099920	3	4	66	1	0	0	0	0	1	0	0	0	5770	1203	42	5	511	5	FBXO47	17	37099920	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1185808	37099920	44095290	1271	45347											
PLXDC1	57125	broad.mit.edu	37	chr17	37264408	37264408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaacaactgtggagttgtcgGagtagccagggttgaagttg	11	10	15	5	1	0	1	0	1	0	0	1	3	0	3	1	3	3	4	1	3	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:37264408G>A	uc002hrg.2	-	5	772	c.560C>T	c.(559-561)TCC>TTC	p.S187F	uc002hrf.1_3'UTR|PLXDC1_uc002hrh.2_RNA|PLXDC1_uc002hri.2_RNA|PLXDC1_uc002hrj.1_RNA|PLXDC1_uc002hrk.1_RNA	NM_020405	NP_065138	Q8IUK5	PXDC1_HUMAN	plexin domain containing 1 precursor	187	Extracellular (Potential).				angiogenesis	cytoplasm|extracellular region|integral to membrane|tight junction				ovary(1)|kidney(1)|skin(1)	3						GGAGTTGTCGGAGTAGCCAGG	0.527													33	79					0	0	1	0	0		A	37264408	A	A	37264408	3	1	66	1	0	0	0	0	1	0	0	0	12136	1174	41	4	982	4	PLXDC1	17	37264408	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	164488	37264408	43930802	1272	45348											
MED1	5469	broad.mit.edu	37	chr17	37564099	37564099	+	Frame_Shift_Del	DEL	G	-	-																															actttcactgtccagattctGgggggtatatgctggtgact																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:37564099delG	uc002hrv.3	-	17	4587	c.4375delC	c.(4375-4377)CAGfs	p.Q1459fs	MED1_uc010wee.1_Frame_Shift_Del_p.Q1287fs|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1459	Ser-rich.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		TCCAGATTCTGGGGGGTATAT	0.488										HNSCC(31;0.082)			22	44	---	---	---	---						.	-	37564099	-	-	37564099	7	5	66	1	0	1	0	1	0	0	0	0	9443	1357	47	0	374	0	MED1	17	37564099	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	299691	37564099	43631111	1273	45349											
NEUROD2	4761	broad.mit.edu	37	chr17	37761954	37761954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgagacagagcggggggCtgagcgggccctcgtactcg	7	6	17	11	4	0	3	0	2	0	2	2	4	0	3	1	4	3	2	1	4	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:37761954C>T	uc002hry.2	-	2	1099	c.899G>A	c.(898-900)AGC>AAC	p.S300N		NM_006160	NP_006151	Q15784	NDF2_HUMAN	neurogenic differentiation 2	300					cellular response to calcium ion|cellular response to electrical stimulus|cerebellar cortex development|negative regulation of synapse maturation|positive regulation of calcium-mediated signaling|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of synapse maturation|positive regulation of synaptic plasticity|protein ubiquitination|regulation of transcription from RNA polymerase II promoter	nucleus	E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Lung(15;0.00549)|LUAD - Lung adenocarcinoma(14;0.0664)			GAGCGGGGGGCTGAGCGGGCC	0.652													4	7					0	0	1	0	0		T	37761954	T	T	37761954	3	4	66	1	0	0	0	0	1	0	0	0	10368	797	28	2	253	2	NEUROD2	17	37761954	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	197855	37761954	43433256	1274	45350											
PPP1R1B	84152	broad.mit.edu	37	chr17	37785805	37785805	+	Frame_Shift_Del	DEL	C	-	-																															ttcctcagaggaggaagcctCcccccaccaggtgagtttcc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:37785805delC	uc002hrz.2	+	3	622	c.155delC	c.(154-156)TCCfs	p.S52fs	PPP1R1B_uc002hsa.2_Frame_Shift_Del_p.S52fs|PPP1R1B_uc010cvx.2_Intron|PPP1R1B_uc002hsb.2_Frame_Shift_Del_p.S16fs|PPP1R1B_uc002hsc.2_Frame_Shift_Del_p.S16fs	NM_032192	NP_115568	Q9UD71	PPR1B_HUMAN	protein phosphatase 1, regulatory (inhibitor)	52					signal transduction	cytosol	protein kinase inhibitor activity|protein phosphatase inhibitor activity				0	Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;1.04e-44)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GAGGAAGCCTCCCCCCACCAG	0.582													13	28	---	---	---	---						.	-	37785805	-	-	37785805	7	5	66	1	0	1	0	1	0	0	0	0	12390	855	30	0	165	0	PPP1R1B	17	37785805	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	23851	37785805	43409405	1275	45351											
THRA	7067	broad.mit.edu	37	chr17	38243031	38243031	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggacctggaagccttcagCgagtttaccaagatcatcac	11	9	10	11	1	3	1	3	0	0	1	3	4	3	3	3	2	3	1	3	2	3	3	rs147570693		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:38243031C>T	uc002htw.2	+	7	1131	c.648C>T	c.(646-648)AGC>AGT	p.S216S	THRA_uc010cwp.1_Silent_p.S216S|THRA_uc002htv.2_Silent_p.S216S|THRA_uc002htx.2_Silent_p.S216S	NM_003250	NP_003241	P10827	THA_HUMAN	thyroid hormone receptor, alpha isoform 2	216	Ligand-binding.				negative regulation of RNA polymerase II transcriptional preinitiation complex assembly|negative regulation of transcription initiation, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription from RNA polymerase II promoter	cytosol|nucleoplasm	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|TBP-class protein binding|thyroid hormone binding|thyroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding				0	Colorectal(19;0.000442)	Myeloproliferative disorder(1115;0.0255)			Levothyroxine(DB00451)|Liothyronine(DB00279)	AAGCCTTCAGCGAGTTTACCA	0.572											OREG0024390	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	35					0	0	1	0	0		T	38243031	T	T	38243031	2	4	66	1	0	0	0	0	0	0	0	1	15898	767	27	1		1	THRA	17	38243031	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	457226	38243031	42952179	1276	45352											
KRT33B	3884	broad.mit.edu	37	chr17	39521092	39521092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcacactccagccgcgcccGcacgtccagcagcacctgat	8	5	8	20	4	1	1	1	1	0	0	3	1	3	1	5	0	3	3	5	0	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:39521092G>A	uc002hwl.2	-	6	1081	c.1036C>T	c.(1036-1038)CGG>TGG	p.R346W		NM_002279	NP_002270	Q14525	KT33B_HUMAN	type I hair keratin 3B	346	Coil 2.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				AGCCGCGCCCGCACGTCCAGC	0.642													37	72					0	0	1	0	0		A	39521092	A	A	39521092	3	1	66	1	0	0	0	0	1	0	0	0	8486	1086	38	1	186	1	KRT33B	17	39521092	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1278061	39521092	41674118	1277	45353											
KRT13	3860	broad.mit.edu	37	chr17	39661430	39661430	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcagcgttggcctcctccaGggcgcgcaccttctccaggt	4	9	12	16	3	2	0	1	0	1	0	5	0	4	0	5	3	1	2	5	3	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:39661430G>T	uc002hwu.1	-	1	436	c.373C>A	c.(373-375)CTG>ATG	p.L125M	KRT13_uc002hwv.1_Missense_Mutation_p.L125M|KRT13_uc002hww.2_Missense_Mutation_p.L18M|KRT13_uc010wfr.1_Missense_Mutation_p.L18M|KRT13_uc010cxo.2_Missense_Mutation_p.L125M|KRT13_uc002hwx.1_Missense_Mutation_p.L113M	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	125	Coil 1A.|Rod.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				GCCTCCTCCAGGGCGCGCACC	0.542													25	65					7.38237e-10	7.75105e-10	1	1	0		T	39661430	T	T	39661430	3	4	66	1	0	0	0	0	1	0	0	0	8466	991	35	5	1035	5	KRT13	17	39661430	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	140338	39661430	41533780	1278	45354											
KRT15	3866	broad.mit.edu	37	chr17	39671934	39671934	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcggccagtgagttctccAgcccagctttctgggggagt	5	11	13	12	1	3	1	0	1	3	0	5	2	3	2	3	3	2	2	3	3	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:39671934A>G	uc002hwy.2	-	6	1228	c.1037T>C	c.(1036-1038)CTG>CCG	p.L346P	KRT15_uc002hwz.2_Missense_Mutation_p.L248P|KRT15_uc002hxa.2_Missense_Mutation_p.L181P|KRT15_uc002hxb.1_Missense_Mutation_p.L181P	NM_002275	NP_002266	P19012	K1C15_HUMAN	keratin 15	346	Rod.|Coil 2.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000286)				TGAGTTCTCCAGCCCAGCTTT	0.602													14	30					0	0	1	0	0		G	39671934	G	G	39671934	3	3	66	1	0	0	0	0	1	0	0	0	8468	188	7	3	345	3	KRT15	17	39671934	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	10504	39671934	41523276	1279	45355											
AARSD1	80755	broad.mit.edu	37	chr17	41113254	41113254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctccgctcccaatctacccGgaccagaacctggcttcctg	7	8	7	19	2	1	1	0	0	1	1	4	2	4	2	7	2	2	2	7	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:41113254G>A	uc002icc.2	-	3	289	c.286C>T	c.(286-288)CGG>TGG	p.R96W	AARSD1_uc002icd.2_Missense_Mutation_p.R209W|AARSD1_uc002ice.2_Missense_Mutation_p.R179W|AARSD1_uc002icf.2_Missense_Mutation_p.R270W|AARSD1_uc010whg.1_Missense_Mutation_p.R270W|AARSD1_uc010cyu.1_Missense_Mutation_p.R96W	NM_025267	NP_079543	Q9BTE6	AASD1_HUMAN	alanyl-tRNA synthetase domain containing 1	96					alanyl-tRNA aminoacylation	cytoplasm	alanine-tRNA ligase activity|ATP binding|metal ion binding|nucleic acid binding				0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		CAATCTACCCGGACCAGAACC	0.502													17	204					0	0	1	0	0		A	41113254	A	A	41113254	3	1	66	1	0	0	0	0	1	0	0	0	21	1115	39	1	992	1	AARSD1	17	41113254	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1441320	41113254	40081956	1280	45356											
DHX8	1659	broad.mit.edu	37	chr17	41570249	41570249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagagtccccccaaagaccGgaaggaccgggacaaatatg	14	4	11	12	2	1	2	1	0	0	2	2	5	2	5	5	3	0	0	5	3	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:41570249G>A	uc002idu.1	+	6	777	c.704G>A	c.(703-705)CGG>CAG	p.R235Q	DHX8_uc010wif.1_Missense_Mutation_p.R144Q|DHX8_uc010wig.1_Missense_Mutation_p.R235Q	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	235						catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		CCCAAAGACCGGAAGGACCGG	0.547													28	67					0	0	1	0	0		A	41570249	A	A	41570249	3	1	66	1	0	0	0	0	1	0	0	0	4521	1116	39	1	726	1	DHX8	17	41570249	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	456995	41570249	39624961	1281	45357											
DUSP3	1845	broad.mit.edu	37	chr17	41847137	41847137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggtaggcgataactagcGttggggagcggctataacct	10	9	15	7	3	0	1	0	1	0	0	0	3	0	2	1	5	4	3	1	5	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:41847137G>A	uc002ied.3	-	3	474	c.398C>T	c.(397-399)ACG>ATG	p.T133M	DUSP3_uc002iee.3_3'UTR|DUSP3_uc002ief.1_Missense_Mutation_p.T90M	NM_004090	NP_004081	P51452	DUS3_HUMAN	dual specificity phosphatase 3	133	Tyrosine-protein phosphatase.				inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of JNK cascade|negative regulation of T cell activation|negative regulation of T cell receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of mitotic cell cycle|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|immunological synapse|nucleoplasm	MAP kinase phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		Breast(137;0.00725)		BRCA - Breast invasive adenocarcinoma(366;0.116)		GATAACTAGCGTTGGGGAGCG	0.607													4	51					0	0	1	0	0		A	41847137	A	A	41847137	3	1	66	1	0	0	0	0	1	0	0	0	4832	1145	40	1	163	1	DUSP3	17	41847137	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	276888	41847137	39348073	1282	45358											
C17orf53	78995	broad.mit.edu	37	chr17	42232251	42232251	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggacggtgcacaggttgcTgctggagacgtgccagaatg	8	7	18	8	2	0	2	0	0	0	2	0	4	0	3	1	5	4	4	1	5	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:42232251T>C	uc002ifi.1	+	7	1777	c.1592T>C	c.(1591-1593)CTG>CCG	p.L531P	C17orf53_uc010czq.1_Missense_Mutation_p.L530P|C17orf53_uc002ifj.1_Missense_Mutation_p.L455P|C17orf53_uc002ifk.1_Intron	NM_024032	NP_076937	Q8N3J3	CQ053_HUMAN	hypothetical protein LOC78995	531											0		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		CACAGGTTGCTGCTGGAGACG	0.622													5	27					0	0	1	0	0		C	42232251	C	C	42232251	3	2	66	1	0	0	0	0	1	0	0	0	1865	1580	55	3	1618	3	C17orf53	17	42232251	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	385114	42232251	38962959	1283	45359											
SLC4A1	6521	broad.mit.edu	37	chr17	42334898	42334898	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccacgatgtactctagaccGttggtctcgcagaactgcag	9	9	10	13	3	2	2	0	0	2	2	3	3	2	2	2	1	3	4	2	1	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:42334898G>A	uc002igf.3	-	13	1595	c.1446C>T	c.(1444-1446)AAC>AAT	p.N482N	SLC4A1_uc002igg.3_Silent_p.N482N	NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	482	Membrane (anion exchange).				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		ACTCTAGACCGTTGGTCTCGC	0.607													11	41					0	0	1	0	0		A	42334898	A	A	42334898	2	1	66	1	0	0	0	0	0	0	0	1	14675	1136	40	1		1	SLC4A1	17	42334898	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	102647	42334898	38860312	1284	45360											
SLC4A1	6521	broad.mit.edu	37	chr17	42338958	42338958	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcaccttgtgggtacccggGtgtgatgtggtgtggtagtc	4	13	16	8	1	1	1	1	1	0	0	2	1	1	1	2	4	1	2	2	4	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:42338958G>T	uc002igf.3	-	4	302	c.153C>A	c.(151-153)CAC>CAA	p.H51Q	SLC4A1_uc002igg.3_Missense_Mutation_p.H51Q	NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	51	Cytoplasmic.				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		GGGTACCCGGGTGTGATGTGG	0.577													19	59					1.33834e-09	1.40184e-09	1	1	0		T	42338958	T	T	42338958	3	4	66	1	0	0	0	0	1	0	0	0	14675	1252	44	5	2650	5	SLC4A1	17	42338958	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4060	42338958	38856252	1285	45361											
GRN	2896	broad.mit.edu	37	chr17	42428075	42428075	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagtggccttgtccagctcGgtcatgtgtccggacgcacg	5	9	13	14	4	1	0	1	0	0	0	4	1	3	1	4	3	1	2	4	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:42428075G>A	uc002igp.1	+	7	834	c.615G>A	c.(613-615)TCG>TCA	p.S205S	GRN_uc002igq.1_3'UTR|GRN_uc002igr.1_5'UTR	NM_002087	NP_002078	P28799	GRN_HUMAN	granulin precursor	205					signal transduction	extracellular space	cytokine activity|growth factor activity			ovary(2)|central_nervous_system(2)|skin(1)	5		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		TGTCCAGCTCGGTCATGTGTC	0.607											OREG0024459	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	32					0	0	1	0	0		A	42428075	A	A	42428075	2	1	66	1	0	0	0	0	0	0	0	1	6820	1103	39	1		1	GRN	17	42428075	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	89117	42428075	38767135	1286	45362											
ITGA2B	3674	broad.mit.edu	37	chr17	42466710	42466710	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaaactggctgccattgggGcctgcatagaaggtgagctg	9	8	14	10	0	0	2	0	1	0	1	0	2	0	2	3	4	4	3	3	4	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:42466710G>A	uc002igt.1	-	1	164	c.132C>T	c.(130-132)GGC>GGT	p.G44G		NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	44	Extracellular (Potential).|FG-GAP 1.				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	TGCCATTGGGGCCTGCATAGA	0.592													33	70					0	0	1	0	0		A	42466710	A	A	42466710	2	1	66	1	0	0	0	0	0	0	0	1	7892	1190	42	2		2	ITGA2B	17	42466710	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	38635	42466710	38728500	1287	45363											
MAP3K14	9020	broad.mit.edu	37	chr17	43342571	43342571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtctcccactttgacccGgtggaactcccggatgtgca	7	10	11	13	2	1	1	0	1	1	0	3	4	2	3	3	3	2	1	3	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:43342571G>A	uc002iiw.1	-	16	2747	c.2638C>T	c.(2638-2640)CGG>TGG	p.R880W	LOC100133991_uc010dah.2_Intron|LOC100133991_uc002iit.3_Intron|LOC100133991_uc010dai.2_Intron|MAP3K14_uc002iiu.1_Missense_Mutation_p.R410W|MAP3K14_uc010daj.1_RNA|MAP3K14_uc002iiv.1_Missense_Mutation_p.R464W	NM_003954	NP_003945	Q99558	M3K14_HUMAN	mitogen-activated protein kinase kinase kinase	880				R -> G (in Ref. 2; BAF82892).	cellular response to mechanical stimulus|I-kappaB kinase/NF-kappaB cascade|immune response|positive regulation of I-kappaB kinase/NF-kappaB cascade|T cell costimulation	cytosol	ATP binding|MAP kinase kinase kinase activity|NF-kappaB-inducing kinase activity|protein binding			central_nervous_system(3)|breast(2)|lung(1)|ovary(1)|stomach(1)	8						ACTTTGACCCGGTGGAACTCC	0.577													28	38					0	0	1	0	0		A	43342571	A	A	43342571	3	1	66	1	0	0	0	0	1	0	0	0	9266	1115	39	1	213	1	MAP3K14	17	43342571	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	875861	43342571	37852639	1288	45364											
MRPL10	124995	broad.mit.edu	37	chr17	45904542	45904542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaactgctgctatctccCggcggagaagcctgatgagg	10	7	14	10	2	1	3	0	2	1	1	2	5	1	4	2	4	4	2	2	4	4	1	rs149631185		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:45904542C>T	uc002ilz.2	-	3	277	c.251G>A	c.(250-252)CGG>CAG	p.R84Q	MRPL10_uc010wky.1_Missense_Mutation_p.R45Q|MRPL10_uc002ily.2_Missense_Mutation_p.R94Q	NM_145255	NP_660298	Q7Z7H8	RM10_HUMAN	mitochondrial ribosomal protein L10 precursor	84					ribosome biogenesis|translation	mitochondrial large ribosomal subunit	structural constituent of ribosome			ovary(1)	1						TGCTATCTCCCGGCGGAGAAG	0.547													28	52					0	0	1	0	0		T	45904542	T	T	45904542	3	4	66	1	0	0	0	0	1	0	0	0	9793	652	23	1	546	1	MRPL10	17	45904542	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2561971	45904542	35290668	1289	45365											
LRRC46	90506	broad.mit.edu	37	chr17	45911828	45911828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aactgcagactgtccgcctgGaccgggaggggattactact	9	8	13	11	2	0	1	0	0	0	1	1	4	1	4	3	4	4	1	3	4	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:45911828G>A	uc002ima.2	+	3	410	c.154G>A	c.(154-156)GAC>AAC	p.D52N	MRPL10_uc010wky.1_5'Flank|MRPL10_uc002ilz.2_5'Flank|MRPL10_uc002ily.2_5'Flank|LRRC46_uc002imb.2_5'UTR	NM_033413	NP_219481	Q96FV0	LRC46_HUMAN	leucine rich repeat containing 46	52	LRR 1.									ovary(1)	1						TGTCCGCCTGGACCGGGAGGG	0.517													37	59					0	0	1	0	0		A	45911828	A	A	45911828	3	1	66	1	0	0	0	0	1	0	0	0	9021	1174	41	4	164	4	LRRC46	17	45911828	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	7286	45911828	35283382	1290	45366											
HOXB1	3211	broad.mit.edu	37	chr17	46607839	46607839	+	Frame_Shift_Del	DEL	G	-	-																															cggtctgctcgttcccataaGggggatgctgcggaggatat																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:46607839delG	uc002ink.1	-	1	434	c.428delC	c.(427-429)CCTfs	p.P143fs		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	143						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GTTCCCATAAGGGGGATGCTG	0.617													26	33	---	---	---	---						.	-	46607839	-	-	46607839	7	5	66	1	0	1	0	1	0	0	0	0	7315	1000	35	0	485	0	HOXB1	17	46607839	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	696011	46607839	34587371	1291	45367											
HOXB3	3213	broad.mit.edu	37	chr17	46628527	46628527	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccgccgccaccgccgccGccaccacagccctctgctgg	4	3	10	24	6	1	0	0	0	1	0	1	0	1	0	10	1	2	1	10	1	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:46628527G>A	uc002inn.2	-	2	865	c.465C>T	c.(463-465)GGC>GGT	p.G155G	HOXB3_uc010wlm.1_Silent_p.G82G|HOXB3_uc010dbf.2_Silent_p.G155G|HOXB3_uc010dbg.2_Silent_p.G155G|HOXB3_uc002ino.2_Silent_p.G155G|HOXB3_uc010wlk.1_Silent_p.G23G|HOXB3_uc010wll.1_Silent_p.G82G	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	155	Gly-rich.				angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						caccgccgccgccaccACAGC	0.373													9	15					0	0	1	0	0		A	46628527	A	A	46628527	2	1	66	1	0	0	0	0	0	0	0	1	7318	1074	38	1		1	HOXB3	17	46628527	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	20688	46628527	34566683	1292	45368											
B4GALNT2	124872	broad.mit.edu	37	chr17	47210513	47210513	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgggcttcggggctctctgCttggaactcagaggcgctga	5	9	16	11	3	2	2	1	1	1	1	4	3	2	3	0	5	2	4	0	5	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:47210513C>A	uc002ion.2	+	1	185	c.126C>A	c.(124-126)TGC>TGA	p.C42*	B4GALNT2_uc010wlt.1_Intron|B4GALNT2_uc010wlu.1_Intron	NM_153446	NP_703147	Q8NHY0	B4GN2_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 2	42	Cytoplasmic (Potential).				lipid glycosylation|negative regulation of cell-cell adhesion|UDP-N-acetylgalactosamine metabolic process	integral to Golgi membrane	acetylgalactosaminyltransferase activity			large_intestine(1)|ovary(1)	2			all cancers(6;0.000316)			GGGCTCTCTGCTTGGAACTCA	0.692													4	5					0.00909568	0.00915269	1	1	0		A	47210513	A	A	47210513	4	1	66	1	0	0	0	0	0	1	0	0	1268	805	28	5	146	5	B4GALNT2	17	47210513	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	581986	47210513	33984697	1293	45369											
GNGT2	2793	broad.mit.edu	37	chr17	47284199	47284199	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaaaaggatcgtttcctgCttgggcctccacgtactcct	8	11	10	12	2	0	1	0	0	0	1	4	3	3	2	4	2	2	3	4	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:47284199C>A	uc002ioo.1	-	4	437	c.130G>T	c.(130-132)GCA>TCA	p.A44S		NM_031498	NP_113686	O14610	GBGT2_HUMAN	guanine nucleotide binding protein-gamma	44					G-protein coupled receptor protein signaling pathway|phototransduction|synaptic transmission	extracellular region|heterotrimeric G-protein complex	GTPase activity|signal transducer activity				0			Epithelial(5;6.37e-06)|all cancers(6;6.36e-05)			TCGTTTCCTGCTTGGGCCTCC	0.488													32	66					3.86903e-22	4.19184e-22	1	1	0		A	47284199	A	A	47284199	3	1	66	1	0	0	0	0	1	0	0	0	6549	797	28	5	83	5	GNGT2	17	47284199	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	73686	47284199	33911011	1294	45370											
MRPL27	51264	broad.mit.edu	37	chr17	48445469	48445469	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcaaagcatagctaccAgtttgaaggtgccctcaggc	12	8	10	11	0	2	1	2	1	0	0	2	2	2	1	2	2	4	3	2	2	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:48445469A>C	uc002iqq.2	-	4	462	c.431T>G	c.(430-432)CTG>CGG	p.L144R	MRPL27_uc002iqr.2_3'UTR	NM_016504	NP_057588	Q9P0M9	RM27_HUMAN	mitochondrial ribosomal protein L27	144					translation	mitochondrial large ribosomal subunit	structural constituent of ribosome				0	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;1.73e-07)			CATAGCTACCAGTTTGAAGGT	0.562													17	40					0	0	1	0	0		C	48445469	C	C	48445469	3	2	66	1	0	0	0	0	1	0	0	0	9809	188	7	5	19	5	MRPL27	17	48445469	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1161270	48445469	32749741	1295	45371											
WFIKKN2	124857	broad.mit.edu	37	chr17	48917430	48917430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatgcggcccaaccatgtgCgtggcaacgtggtggtcacc	7	8	13	13	3	2	0	2	0	0	0	2	0	2	0	3	4	4	1	3	4	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:48917430C>T	uc002isv.3	+	2	1475	c.781C>T	c.(781-783)CGT>TGT	p.R261C	WFIKKN2_uc010dbu.2_Missense_Mutation_p.R168C	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	261	Ig-like C2-type.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			CAACCATGTGCGTGGCAACGT	0.617													27	20					0	0	1	0	0		T	48917430	T	T	48917430	3	4	66	1	0	0	0	0	1	0	0	0	17385	768	27	1	787	1	WFIKKN2	17	48917430	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	471961	48917430	32277780	1296	45372											
SPAG9	9043	broad.mit.edu	37	chr17	49075879	49075879	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgcttcttttcttgacGgacggagtaacatgagacgt	8	13	12	8	3	2	2	0	2	2	1	2	5	2	4	0	2	3	3	0	2	1	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:49075879G>A	uc002itc.2	-	15	1973	c.1764C>T	c.(1762-1764)TCC>TCT	p.S588S	SPAG9_uc002itb.2_Silent_p.S574S|SPAG9_uc002itd.2_Silent_p.S578S|SPAG9_uc002itf.2_Silent_p.S409S|SPAG9_uc002ita.2_Silent_p.S431S|SPAG9_uc002ite.2_Silent_p.S418S	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	588					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			TTTTCTTGACGGACGGAGTAA	0.433													22	62					0	0	1	0	0		A	49075879	A	A	49075879	2	1	66	1	0	0	0	0	0	0	0	1	15010	1103	39	1		1	SPAG9	17	49075879	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	158449	49075879	32119331	1297	45373											
CA10	56934	broad.mit.edu	37	chr17	49710999	49710999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggttctggctgagcaggcGcaaggaatgcatctgaggag	9	8	16	8	1	2	2	0	2	2	0	2	4	2	4	0	5	2	5	0	5	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:49710999G>A	uc002itw.3	-	8	1788	c.802C>T	c.(802-804)CGC>TGC	p.R268C	CA10_uc002itu.3_Missense_Mutation_p.R197C|CA10_uc002itv.3_Missense_Mutation_p.R274C|CA10_uc002itx.3_Missense_Mutation_p.R268C|CA10_uc002ity.3_Missense_Mutation_p.R268C|CA10_uc002itz.2_Missense_Mutation_p.R268C	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	268					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			CTGAGCAGGCGCAAGGAATGC	0.512													11	29					0	0	1	0	0		A	49710999	A	A	49710999	3	1	66	1	0	0	0	0	1	0	0	0	2514	1087	38	1	192	1	CA10	17	49710999	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	635120	49710999	31484211	1298	45374											
KIF2B	84643	broad.mit.edu	37	chr17	51900843	51900843	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaaaaagtctccctgccTctgggaaatccagaaactgc	13	7	9	12	0	2	2	0	0	2	2	4	3	3	3	3	1	3	1	3	1	4	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:51900843T>C	uc002iua.2	+	1	605	c.449T>C	c.(448-450)CTC>CCC	p.L150P	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	150					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TCTCCCTGCCTCTGGGAAATC	0.572													25	61					0	0	1	0	0		C	51900843	C	C	51900843	3	2	66	1	0	0	0	0	1	0	0	0	8314	1551	54	3	451	3	KIF2B	17	51900843	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	2189844	51900843	29294367	1299	45375											
KIF2B	84643	broad.mit.edu	37	chr17	51902309	51902309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatattgatttttgcattGcccggtctttgtccattttg	6	20	8	7	1	1	2	0	2	1	0	2	2	2	2	2	1	2	1	2	1	1	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:51902309G>A	uc002iua.2	+	1	2071	c.1915G>A	c.(1915-1917)GCC>ACC	p.A639T	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	639					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TTTTTGCATTGCCCGGTCTTT	0.448													25	44					0	0	1	0	0		A	51902309	A	A	51902309	3	1	66	1	0	0	0	0	1	0	0	0	8314	1319	46	2	1917	2	KIF2B	17	51902309	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1466	51902309	29292901	1300	45376											
SCPEP1	59342	broad.mit.edu	37	chr17	55065125	55065125	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagttatgtgaatggtagtGgtgcctatgccaaggacctg	9	12	13	7	0	1	1	1	1	0	0	1	2	1	2	3	3	2	2	3	3	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:55065125G>C	uc002iuv.3	+	4	438	c.385G>C	c.(385-387)GGT>CGT	p.G129R	SCPEP1_uc010dcl.2_RNA|SCPEP1_uc010wnk.1_Missense_Mutation_p.G79R	NM_021626	NP_067639	Q9HB40	RISC_HUMAN	serine carboxypeptidase 1 precursor	129					proteolysis	extracellular region	serine-type carboxypeptidase activity			skin(1)	1	Breast(9;2.86e-08)					GAATGGTAGTGGTGCCTATGC	0.493													7	131					0	0	1	0	0		C	55065125	C	C	55065125	3	2	66	1	0	0	0	0	1	0	0	0	13960	1348	47	5	399	5	SCPEP1	17	55065125	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3162816	55065125	26130085	1301	45377											
EPX	8288	broad.mit.edu	37	chr17	56274532	56274532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagcgctttcaagacaacgGccgggccctgctgcccttcg	6	7	11	17	4	1	1	1	0	0	1	2	1	1	1	4	2	4	2	4	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:56274532G>A	uc002ivq.2	+	7	1120	c.1034G>A	c.(1033-1035)GGC>GAC	p.G345D		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	345					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						CAAGACAACGGCCGGGCCCTG	0.647													20	63					0	0	1	0	0		A	56274532	A	A	56274532	3	1	66	1	0	0	0	0	1	0	0	0	5208	1203	42	2	1060	2	EPX	17	56274532	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1209407	56274532	24920678	1302	45378											
MTMR4	9110	broad.mit.edu	37	chr17	56573626	56573626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttagggtcactggatgtaCgagtcagggggctgcttgtg	6	11	18	6	1	2	0	2	0	0	0	2	2	2	1	0	5	2	4	0	5	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:56573626C>T	uc002iwj.2	-	16	1987	c.1877G>A	c.(1876-1878)CGT>CAT	p.R626H		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	626						cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					ACTGGATGTACGAGTCAGGGG	0.507													20	39					0	0	1	0	0		T	56573626	T	T	56573626	3	4	66	1	0	0	0	0	1	0	0	0	9964	536	19	1	1726	1	MTMR4	17	56573626	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	299094	56573626	24621584	1303	45379											
TRIM37	4591	broad.mit.edu	37	chr17	57181748	57181748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaacatcggaaaacctcaGcaatgctctgaaaacagtaa	18	7	7	9	1	2	2	1	2	1	0	3	3	2	3	1	1	5	3	1	1	7	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:57181748G>A	uc002iwy.3	-	2	473	c.29C>T	c.(28-30)GCT>GTT	p.A10V	TRIM37_uc002iwz.3_Missense_Mutation_p.A10V|TRIM37_uc002ixa.3_5'UTR|TRIM37_uc010woc.1_Intron|uc002ixb.2_5'Flank	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	10						perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					GAAAACCTCAGCAATGCTCTG	0.398									Mulibrey_Nanism				26	56					0	0	1	0	0		A	57181748	A	A	57181748	3	1	66	1	0	0	0	0	1	0	0	0	16537	971	34	2	2965	2	TRIM37	17	57181748	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	608122	57181748	24013462	1304	45380											
CLTC	1213	broad.mit.edu	37	chr17	57761246	57761246	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattttaaaggttaaacagcTaccactggtgaaaccgtatt	14	13	7	7	1	0	1	0	1	0	0	0	1	0	1	2	2	4	3	2	2	8	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:57761246T>G	uc002ixq.1	+	28	4777	c.4334T>G	c.(4333-4335)CTA>CGA	p.L1445R	CLTC_uc002ixp.2_Missense_Mutation_p.L1445R|CLTC_uc002ixr.1_Missense_Mutation_p.L1449R	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	1445	Heavy chain arm.|Proximal segment.|Involved in binding clathrin light chain (By similarity).				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					GTTAAACAGCTACCACTGGTG	0.333			T	ALK|TFE3	ALCL|renal 								22	32					0	0	1	0	0		G	57761246	G	G	57761246	3	3	66	1	0	0	0	0	1	0	0	0	3569	1522	53	5	4444	5	CLTC	17	57761246	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	579498	57761246	23433964	1305	45381											
HEATR6	63897	broad.mit.edu	37	chr17	58153591	58153591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctggacaagaagagcaCtaacgtcctaccaaaaaaaa	20	4	7	10	1	0	2	0	0	0	2	1	3	1	3	3	1	4	1	3	1	9	2	rs142343207		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:58153591C>T	uc002iyk.1	-	2	244	c.227G>A	c.(226-228)AGT>AAT	p.S76N	HEATR6_uc010wos.1_5'Flank	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	76							binding			ovary(1)|skin(1)	2	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			AAGAAGAGCACTAACGTCCTA	0.368													12	15					0	0	1	0	0		T	58153591	T	T	58153591	3	4	66	1	0	0	0	0	1	0	0	0	7049	565	20	4	3394	4	HEATR6	17	58153591	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	392345	58153591	23041619	1306	45382											
BCAS3	54828	broad.mit.edu	37	chr17	59118211	59118211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaccaccctctgctcctcGctgcagatgcagtacagtat	10	9	7	15	1	1	1	0	0	1	1	3	1	2	1	3	0	5	6	3	0	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:59118211G>A	uc002iyv.3	+	20	2141	c.2032G>A	c.(2032-2034)GCT>ACT	p.A678T	BCAS3_uc002iyu.3_Missense_Mutation_p.A663T|BCAS3_uc002iyw.3_Missense_Mutation_p.A659T|BCAS3_uc002iyy.3_Missense_Mutation_p.A434T|BCAS3_uc002iyz.3_Missense_Mutation_p.A232T|BCAS3_uc002iza.3_Missense_Mutation_p.A217T	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	678						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			TCTGCTCCTCGCTGCAGATGC	0.388													42	98					0	0	1	0	0		A	59118211	A	A	59118211	3	1	66	1	0	0	0	0	1	0	0	0	1353	1087	38	1	2106	1	BCAS3	17	59118211	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	964620	59118211	22076999	1307	45383											
INTS2	57508	broad.mit.edu	37	chr17	59972690	59972690	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatacctgctcagtaaaaaTttcctgtgtgaagattgtct	13	14	7	7	0	2	2	1	1	1	1	3	2	3	2	2	0	2	2	2	0	6	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:59972690T>A	uc002izn.2	-	12	1649	c.1573A>T	c.(1573-1575)ATT>TTT	p.I525F	INTS2_uc002izm.2_Missense_Mutation_p.I517F	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	525					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						TCAGTAAAAATTTCCTGTGTG	0.299													7	19					0	0	1	0	0		A	59972690	A	A	59972690	3	1	66	1	0	0	0	0	1	0	0	0	7794	1493	52	5	2097	5	INTS2	17	59972690	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	854479	59972690	21222520	1308	45384											
SCN4A	6329	broad.mit.edu	37	chr17	62019244	62019244	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagcagcgtccggatgccCttggccccgcggatcagccg	7	5	13	16	5	1	0	1	0	0	0	2	2	2	2	5	3	5	1	5	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:62019244C>A	uc002jds.1	-	24	4475	c.4398G>T	c.(4396-4398)AAG>AAT	p.K1466N		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1466	Helical; Voltage-sensor; Name=S4 of repeat IV; (Potential).|IV.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	TCCGGATGCCCTTGGCCCCGC	0.607													10	31					7.48243e-07	7.72747e-07	1	1	0		A	62019244	A	A	62019244	3	1	66	1	0	0	0	0	1	0	0	0	13945	680	24	5	1116	5	SCN4A	17	62019244	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2046554	62019244	19175966	1309	45385											
CCDC45	90799	broad.mit.edu	37	chr17	62518978	62518978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtcactgctccccagccGtaaattctactggagagcat	11	9	8	13	1	2	1	1	0	1	1	3	2	3	1	3	1	4	3	3	1	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:62518978G>A	uc002jem.2	+	8	932	c.874G>A	c.(874-876)GTA>ATA	p.V292I	CCDC45_uc002jen.2_RNA|CCDC45_uc010wqb.1_Missense_Mutation_p.V128I	NM_138363	NP_612372	Q96GE4	CEP95_HUMAN	coiled-coil domain containing 45	292						centrosome|spindle pole	protein binding				0	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			CTCCCCAGCCGTAAATTCTAC	0.463													8	13					0	0	1	0	0		A	62518978	A	A	62518978	3	1	66	1	0	0	0	0	1	0	0	0	2819	1145	40	1	904	1	CCDC45	17	62518978	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	499734	62518978	18676232	1310	45386											
CCDC45	90799	broad.mit.edu	37	chr17	62528989	62528989	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacacagtctcctgccccttAtgctggagcagtttccgttt	7	13	8	13	1	1	0	0	0	1	0	3	1	2	1	4	1	4	4	4	1	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:62528989A>G	uc002jem.2	+	15	1763	c.1705A>G	c.(1705-1707)ATG>GTG	p.M569V	CCDC45_uc002jen.2_RNA|CCDC45_uc010wqb.1_Missense_Mutation_p.M405V|CCDC45_uc002jeo.1_Missense_Mutation_p.M1V	NM_138363	NP_612372	Q96GE4	CEP95_HUMAN	coiled-coil domain containing 45	569						centrosome|spindle pole	protein binding				0	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			CCTGCCCCTTATGCTGGAGCA	0.423													8	21					0	0	1	0	0		G	62528989	G	G	62528989	3	3	66	1	0	0	0	0	1	0	0	0	2819	449	16	3	1763	3	CCDC45	17	62528989	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	10011	62528989	18666221	1311	45387											
SMURF2	64750	broad.mit.edu	37	chr17	62589575	62589575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaccagtgtctttgaggCggttgatggcattggaaaga	11	10	13	7	1	1	3	0	2	1	1	1	4	1	4	1	4	1	2	1	4	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:62589575C>T	uc002jep.1	-	4	705	c.317G>A	c.(316-318)CGC>CAC	p.R106H	SMURF2_uc002jeq.1_5'UTR|SMURF2_uc002jer.1_5'UTR	NM_022739	NP_073576	Q9HAU4	SMUF2_HUMAN	SMAD specific E3 ubiquitin protein ligase 2	106					BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|membrane raft|nucleus|plasma membrane|ubiquitin ligase complex	identical protein binding|SMAD binding|ubiquitin-protein ligase activity			skin(3)|lung(1)	4	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)			GTCTTTGAGGCGGTTGATGGC	0.313													22	45					0	0	1	0	0		T	62589575	T	T	62589575	3	4	66	1	0	0	0	0	1	0	0	0	14845	768	27	1	1993	1	SMURF2	17	62589575	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	60586	62589575	18605635	1312	45388											
RGS9	8787	broad.mit.edu	37	chr17	63223455	63223455	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttgatggactcggaggAtgctggaacaggagagtcgg	9	8	17	7	2	0	2	0	1	0	1	2	7	0	6	0	6	3	2	0	6	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:63223455A>G	uc002jfe.2	+	19	2065	c.1955A>G	c.(1954-1956)GAT>GGT	p.D652G	RGS9_uc002jfd.2_Missense_Mutation_p.D649G|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Missense_Mutation_p.D423G	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	652					intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						GACTCGGAGGATGCTGGAACA	0.582													16	28					0	0	1	0	0		G	63223455	G	G	63223455	3	3	66	1	0	0	0	0	1	0	0	0	13338	333	12	3	2084	3	RGS9	17	63223455	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	633880	63223455	17971755	1313	45389											
AXIN2	8313	broad.mit.edu	37	chr17	63532585	63532585	+	Frame_Shift_Del	DEL	C	-	-																															tgcgggggtgcccgctgttgCccccccacagatggtgccgg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:63532585delC	uc002jfi.2	-	8	2283	c.1994delG	c.(1993-1995)GGCfs	p.G665fs	AXIN2_uc002jfh.2_Frame_Shift_Del_p.G600fs	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	665					cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						CCCGCTGTTGCCCCCCCACAG	0.657									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				16	31	---	---	---	---						.	-	63532585	-	-	63532585	7	5	66	1	0	1	0	1	0	0	0	0	1238	739	26	0	553	0	AXIN2	17	63532585	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	309130	63532585	17662625	1314	45390											
BPTF	2186	broad.mit.edu	37	chr17	65919019	65919019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggccaaagagaccagaaaCgcccaagcaaactggccctg	14	2	11	14	2	0	2	0	0	0	2	0	3	0	2	4	2	3	1	4	2	4	0	rs148728817	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:65919019C>T	uc002jgf.2	+	14	5682	c.5621C>T	c.(5620-5622)ACG>ATG	p.T1874M	BPTF_uc002jge.2_Missense_Mutation_p.T2000M	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2000					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			AGACCAGAAACGCCCAAGCAA	0.453													26	60					0	0	1	0	0		T	65919019	T	T	65919019	3	4	66	1	0	0	0	0	1	0	0	0	1498	536	19	1	6061	1	BPTF	17	65919019	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2386434	65919019	15276191	1315	45391											
ABCA8	10351	broad.mit.edu	37	chr17	66925324	66925324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggaacacgaccaggcCggtgaggaaagatttcttta	13	7	14	7	2	1	2	0	1	1	1	1	7	1	5	2	5	1	0	2	5	3	3	rs4147979	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:66925324C>T	uc002jhp.2	-	8	1170	c.991G>A	c.(991-993)GGC>AGC	p.G331S	ABCA8_uc002jhq.2_Missense_Mutation_p.G331S|ABCA8_uc010wqq.1_Missense_Mutation_p.G331S|ABCA8_uc010wqr.1_Missense_Mutation_p.G270S|ABCA8_uc002jhr.2_Missense_Mutation_p.G331S	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	331	Helical; (Potential).					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					ACGACCAGGCCGGTGAGGAAA	0.433													11	38					0	0	1	0	0		T	66925324	T	T	66925324	3	4	66	1	0	0	0	0	1	0	0	0	38	652	23	1	3878	1	ABCA8	17	66925324	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1006305	66925324	14269886	1316	45392											
C17orf77	146723	broad.mit.edu	37	chr17	72588248	72588248	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagaacagagcgtctctGtctccaagccagccgctgtc	8	8	10	15	2	2	2	0	1	2	2	5	3	2	2	4	0	4	1	4	0	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:72588248G>A	uc002jla.1	+	3	425	c.63G>A	c.(61-63)CTG>CTA	p.L21L	CD300LD_uc002jkz.2_Intron	NM_152460	NP_689673	Q96MU5	CQ077_HUMAN	hypothetical protein LOC146723	21						extracellular region					0						GAGCGTCTCTGTCTCCAAGCC	0.502													23	56					0	0	1	0	0		A	72588248	A	A	72588248	2	1	66	1	0	0	0	0	0	0	0	1	1885	1364	48	4		4	C17orf77	17	72588248	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5662924	72588248	8606962	1317	45393											
C17orf28	283987	broad.mit.edu	37	chr17	72948429	72948429	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcctcatgatggtctgcagCggcagcttcgacttccagga	8	9	12	12	2	2	1	1	1	1	0	4	3	3	2	2	3	4	3	2	3	0	2	rs146778361	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:72948429C>T	uc002jmj.3	-	17	2228	c.2079G>A	c.(2077-2079)CCG>CCA	p.P693P	C17orf28_uc002jmi.2_Silent_p.P95P|C17orf28_uc010wrs.1_Silent_p.P492P	NM_030630	NP_085133	Q8IV36	CQ028_HUMAN	hypothetical protein LOC283987	693						integral to membrane|plasma membrane	protein binding				0	all_lung(278;0.151)|Lung NSC(278;0.185)					TGGTCTGCAGCGGCAGCTTCG	0.547													6	19					0	0	1	0	0		T	72948429	T	T	72948429	2	4	66	1	0	0	0	0	0	0	0	1	1856	755	27	1		1	C17orf28	17	72948429	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	360181	72948429	8246781	1318	45394											
GGA3	23163	broad.mit.edu	37	chr17	73237030	73237030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtggagggaggattgggatgCctgaggagggtggagtaggt	8	8	23	2	0	0	1	0	1	0	0	0	7	0	7	1	8	1	1	1	8	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:73237030C>T	uc002jni.1	-	11	1064	c.1055G>A	c.(1054-1056)GGC>GAC	p.G352D	GGA3_uc002jnj.1_Missense_Mutation_p.G319D|GGA3_uc010wrw.1_Missense_Mutation_p.G230D|GGA3_uc002jnk.1_Missense_Mutation_p.G280D|GGA3_uc010wrx.1_Missense_Mutation_p.G230D|GGA3_uc010wry.1_Missense_Mutation_p.G280D	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	352	Unstructured hinge.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			GATTGGGATGCCTGAGGAGGG	0.647											OREG0024730	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	44					0	0	1	0	0		T	73237030	T	T	73237030	3	4	66	1	0	0	0	0	1	0	0	0	6369	739	26	2	1232	2	GGA3	17	73237030	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	288601	73237030	7958180	1319	45395											
SRP68	6730	broad.mit.edu	37	chr17	74068513	74068513	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccgccgccgccactgccAccgccgccgccactgccgcc	4	3	9	25	7	0	0	0	0	0	0	0	0	0	0	11	0	3	0	11	0	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:74068513A>G	uc002jqk.1	-	1	95	c.60T>C	c.(58-60)GGT>GGC	p.G20G	SRP68_uc010wsu.1_5'UTR|SRP68_uc002jql.1_Silent_p.G20G|GALR2_uc002jqm.1_5'Flank	NM_014230	NP_055045	Q9UHB9	SRP68_HUMAN	signal recognition particle 68kDa	20	Poly-Gly.				response to drug	cytosol|endoplasmic reticulum|nucleolus|ribosome|signal recognition particle, endoplasmic reticulum targeting	RNA binding|signal recognition particle binding			ovary(1)	1						cgccactgccaccgccgccgc	0.393													5	17					0	0	1	0	0		G	74068513	G	G	74068513	2	3	66	1	0	0	0	0	0	0	0	1	15181	146	6	3		3	SRP68	17	74068513	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	831483	74068513	7126697	1320	45396											
USP36	57602	broad.mit.edu	37	chr17	76803391	76803391	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcttaggtgaggtagagaGgacaacatccctgctgtccc	10	8	13	10	0	0	2	0	1	0	1	2	5	2	3	2	3	3	3	2	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:76803391G>T	uc002jvz.1	-	14	2060	c.1735C>A	c.(1735-1737)CTC>ATC	p.L579I	USP36_uc002jwa.1_Missense_Mutation_p.L579I|USP36_uc002jwb.1_Missense_Mutation_p.L216I|USP36_uc002jwc.1_Missense_Mutation_p.L279I	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	579					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			GAGGTAGAGAGGACAACATCC	0.627													5	12					0.014758	0.0148083	1	1	0		T	76803391	T	T	76803391	3	4	66	1	0	0	0	0	1	0	0	0	17093	1000	35	5	1664	5	USP36	17	76803391	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2734878	76803391	4391819	1321	45397											
CBX2	84733	broad.mit.edu	37	chr17	77758039	77758039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaaccggatgacccagaGccaggcccaggctgccagca	11	3	12	15	1	0	3	0	2	0	1	0	4	0	4	5	3	4	2	5	3	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:77758039G>A	uc002jxc.2	+	5	839	c.797G>A	c.(796-798)AGC>AAC	p.S266N		NM_005189	NP_005180	Q14781	CBX2_HUMAN	chromobox homolog 2 isoform 1	266					cell differentiation|chromatin modification|development of primary sexual characteristics|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	PcG protein complex	DNA binding				0			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			ATGACCCAGAGCCAGGCCCAG	0.652													18	29					0	0	1	0	0		A	77758039	A	A	77758039	3	1	66	1	0	0	0	0	1	0	0	0	2721	971	34	2	1163	2	CBX2	17	77758039	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	954648	77758039	3437171	1322	45398											
RNF213	57674	broad.mit.edu	37	chr17	78327386	78327386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagcacatcaggggaggtgGcagaggtggcagaggaggcc	10	3	19	9	0	1	2	1	0	0	2	1	4	1	4	2	8	1	3	2	8	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:78327386G>A	uc002jyh.1	+	9	4940	c.4717G>A	c.(4717-4719)GCA>ACA	p.A1573T	uc002jyi.1_RNA|RNF213_uc010dhw.1_5'Flank	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			AGGGGAGGTGGCAGAGGTGGC	0.572													11	16					0	0	1	0	0		A	78327386	A	A	78327386	3	1	66	1	0	0	0	0	1	0	0	0	13502	1203	42	2	10947	2	RNF213	17	78327386	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	569347	78327386	2867824	1323	45399											
AZI1	22994	broad.mit.edu	37	chr17	79164804	79164804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagctggcccttcagctccGagcaccgctcctgaagcttc	7	8	9	17	2	1	1	1	1	0	0	4	2	3	1	4	1	4	5	4	1	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:79164804G>A	uc002jzp.1	-	23	3055	c.2855C>T	c.(2854-2856)TCG>TTG	p.S952L	AZI1_uc002jzm.1_Missense_Mutation_p.S384L|AZI1_uc002jzn.1_Missense_Mutation_p.S949L|AZI1_uc002jzo.1_Missense_Mutation_p.S913L|AZI1_uc010wum.1_Missense_Mutation_p.S916L|AZI1_uc002jzq.2_Missense_Mutation_p.S100L	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	952					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CTTCAGCTCCGAGCACCGCTC	0.677													19	31					0	0	1	0	0		A	79164804	A	A	79164804	3	1	66	1	0	0	0	0	1	0	0	0	1241	1059	37	1	412	1	AZI1	17	79164804	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	837418	79164804	2030406	1324	45400											
BAHCC1	57597	broad.mit.edu	37	chr17	79409626	79409626	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgaggcctgtgccgtggcAggggagggcaaggaccggca	7	3	20	11	3	0	0	0	0	0	0	0	3	0	2	4	7	1	3	4	7	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:79409626A>G	uc002kaf.2	+	3	1251	c.1251A>G	c.(1249-1251)GCA>GCG	p.A417A	BAHCC1_uc002kae.2_5'Flank	NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	417							DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			GTGCCGTGGCAGGGGAGGGCA	0.706													4	8					0	0	1	0	0		G	79409626	G	G	79409626	2	3	66	1	0	0	0	0	0	0	0	1	1297	175	7	3		3	BAHCC1	17	79409626	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	244822	79409626	1785584	1325	45401											
C17orf70	80233	broad.mit.edu	37	chr17	79512780	79512780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccctgcttgcctctcggaCgatgaggtgaacgttggcgc	6	9	13	13	4	1	2	0	2	1	0	2	4	1	3	3	3	3	2	3	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:79512780C>T	uc002kaq.2	-	6	2357	c.2302G>A	c.(2302-2304)GTC>ATC	p.V768I	C17orf70_uc002kao.1_Missense_Mutation_p.V417I|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Missense_Mutation_p.V617I	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	768					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			GCCTCTCGGACGATGAGGTGA	0.657													7	12					0	0	1	0	0		T	79512780	T	T	79512780	3	4	66	1	0	0	0	0	1	0	0	0	1880	536	19	1	359	1	C17orf70	17	79512780	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	103154	79512780	1682430	1326	45402											
C17orf70	80233	broad.mit.edu	37	chr17	79517945	79517945	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacagcactggaaggaagTggggggctgcaggctttcct	9	7	16	9	0	0	0	0	0	0	0	1	2	1	2	1	6	3	5	1	6	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:79517945T>C	uc002kaq.2	-	3	630	c.575A>G	c.(574-576)CAC>CGC	p.H192R	C17orf70_uc002kao.1_5'Flank|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Missense_Mutation_p.H41R	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	192					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			TGGAAGGAAGTGGGGGGCTGC	0.692													5	15					0	0	1	0	0		C	79517945	C	C	79517945	3	2	66	1	0	0	0	0	1	0	0	0	1880	1696	59	3	2098	3	C17orf70	17	79517945	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	5165	79517945	1677265	1327	45403											
LRRC45	201255	broad.mit.edu	37	chr17	79987011	79987011	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggagagtgagaaggccAtgcaggagcgggtgcagagg	11	4	21	5	1	0	3	0	1	0	3	0	7	0	5	1	6	3	2	1	6	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:79987011A>G	uc002kde.2	+	13	1591	c.1351A>G	c.(1351-1353)ATG>GTG	p.M451V	RAC3_uc002kdf.2_5'Flank	NM_144999	NP_659436	Q96CN5	LRC45_HUMAN	leucine rich repeat containing 45	451	Potential.					centrosome				pancreas(1)	1	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			TGAGAAGGCCATGCAGGAGCG	0.662													6	9					0	0	1	0	0		G	79987011	G	G	79987011	3	3	66	1	0	0	0	0	1	0	0	0	9020	217	8	3	1401	3	LRRC45	17	79987011	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	469066	79987011	1208199	1328	45404											
FASN	2194	broad.mit.edu	37	chr17	80039054	80039054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcaccgctggcctcatccGcctttgaggacagctcctgc	6	8	10	17	3	1	1	1	1	0	0	3	2	3	2	5	2	2	3	5	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:80039054G>A	uc002kdu.2	-	38	6698	c.6581C>T	c.(6580-6582)GCG>GTG	p.A2194V	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2194					energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	GGCCTCATCCGCCTTTGAGGA	0.687													4	6					0	0	1	0	0		A	80039054	A	A	80039054	3	1	66	1	0	0	0	0	1	0	0	0	5697	1087	38	1	978	1	FASN	17	80039054	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	52043	80039054	1156156	1329	45405											
NARF	26502	broad.mit.edu	37	chr17	80442718	80442718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaaggaggacaaagtgaCgcgtcatgatggagccagct	12	7	14	8	2	1	3	1	3	0	0	1	6	1	6	1	3	2	1	1	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:80442718C>T	uc002kfg.3	+	9	1003	c.863C>T	c.(862-864)ACG>ATG	p.T288M	NARF_uc002kff.3_Missense_Mutation_p.T229M|NARF_uc010wvp.1_3'UTR|NARF_uc010dit.2_Missense_Mutation_p.T334M|NARF_uc002kfj.3_Missense_Mutation_p.T240M|NARF_uc002kfi.3_RNA|NARF_uc002kfh.3_Missense_Mutation_p.T334M|NARF_uc002kfk.2_RNA	NM_012336	NP_036468	Q9UHQ1	NARF_HUMAN	nuclear prelamin A recognition factor isoform a	288						lamin filament	lamin binding			skin(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			GACAAAGTGACGCGTCATGAT	0.512													23	45					0	0	1	0	0		T	80442718	T	T	80442718	3	4	66	1	0	0	0	0	1	0	0	0	10185	536	19	1	1039	1	NARF	17	80442718	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	403664	80442718	752492	1330	45406											
TBCD	6904	broad.mit.edu	37	chr17	80763856	80763856	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgacgacgaagatgaCgacgtcccagagggggtgga	13	4	17	7	4	0	5	0	2	0	3	1	10	1	6	1	3	0	0	1	3	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr17:80763856C>T	uc002kfz.2	+	10	1186	c.1056C>T	c.(1054-1056)GAC>GAT	p.D352D	TBCD_uc002kfx.1_Silent_p.D335D|TBCD_uc002kfy.1_Silent_p.D352D	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	352					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			acgaagatgacgacgTCCCAG	0.537													17	21					0	0	1	0	0		T	80763856	T	T	80763856	2	4	66	1	0	0	0	0	0	0	0	1	15658	535	19	1		1	TBCD	17	80763856	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	321138	80763856	431354	1331	45407											
THOC1	9984	broad.mit.edu	37	chr18	224147	224147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgggtgctgttctcttcCgaattattctcgtaggtttg	4	17	10	10	3	2	0	0	0	2	0	6	1	3	0	2	2	1	4	2	2	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:224147C>T	uc002kkj.3	-	16	1281	c.1241G>A	c.(1240-1242)CGG>CAG	p.R414Q	THOC1_uc002kkk.3_RNA|THOC1_uc002kkh.3_Missense_Mutation_p.R38Q	NM_005131	NP_005122	Q96FV9	THOC1_HUMAN	THO complex 1	414	Nuclear localization signal.				apoptosis|intronless viral mRNA export from host nucleus|mRNA processing|regulation of transcription elongation, DNA-dependent|RNA splicing|signal transduction|transcription, DNA-dependent	cytoplasm|nuclear matrix|nuclear speck|THO complex part of transcription export complex	DNA binding|protein binding|RNA binding			ovary(1)	1		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				TGTTCTCTTCCGAATTATTCT	0.368													3	6					0	0	1	0	0		T	224147	T	T	224147	3	4	66	1	0	0	0	0	1	0	0	0	15889	652	23	1	756	1	THOC1	18	224147	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08		224147	77853101	1332	45408											
COLEC12	81035	broad.mit.edu	37	chr18	335079	335079	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctttgccgccacgctctccGgggggaccagctggtccaat	5	8	12	16	3	1	0	0	0	1	0	3	1	2	1	6	4	2	2	6	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:335079G>A	uc002kkm.2	-	6	1694	c.1479C>T	c.(1477-1479)CCC>CCT	p.P493P		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	493	Collagen-like 2.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				CACGCTCTCCGGGGGGACCAG	0.672													20	32					0	0	1	0	0		A	335079	A	A	335079	2	1	66	1	0	0	0	0	0	0	0	1	3715	1103	39	1		1	COLEC12	18	335079	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	110932	335079	77742169	1333	45409											
DLGAP1	9229	broad.mit.edu	37	chr18	3879345	3879345	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgcctgctcgctgatggTgttgtaggcctccaggaagt	6	10	13	12	2	0	1	0	1	0	0	2	2	1	2	4	3	1	4	4	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:3879345T>C	uc002kmf.2	-	1	791	c.724A>G	c.(724-726)ACC>GCC	p.T242A	DLGAP1_uc010wyz.1_Missense_Mutation_p.T242A|DLGAP1_uc002kmk.2_Missense_Mutation_p.T242A|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	242					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				TCGCTGATGGTGTTGTAGGCC	0.647													18	65					0	0	1	0	0		C	3879345	C	C	3879345	3	2	66	1	0	0	0	0	1	0	0	0	4565	1696	59	3	2304	3	DLGAP1	18	3879345	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	3544266	3879345	74197903	1334	45410											
LRRC30	339291	broad.mit.edu	37	chr18	7231375	7231375	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaaactcaatctgtctcAcaaccagctccgggttctcc	10	9	6	16	1	4	1	2	0	3	1	7	1	5	1	4	1	3	2	4	1	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:7231375A>G	uc010wzk.1	+	1	239	c.239A>G	c.(238-240)CAC>CGC	p.H80R		NM_001105581	NP_001099051	A6NM36	LRC30_HUMAN	leucine rich repeat containing 30	80	LRR 1.									ovary(1)|liver(1)	2						AATCTGTCTCACAACCAGCTC	0.592													19	41					0	0	1	0	0		G	7231375	G	G	7231375	3	3	66	1	0	0	0	0	1	0	0	0	9003	159	6	3	241	3	LRRC30	18	7231375	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3352030	7231375	70845873	1335	45411											
KIAA0802	23255	broad.mit.edu	37	chr18	8796287	8796287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aactggaaatgcacagcctgGctttgcaaaacaccctccat	13	8	7	13	0	0	0	0	0	0	0	1	1	1	1	3	2	5	3	3	2	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:8796287G>A	uc002knr.2	+	9	2210	c.2068G>A	c.(2068-2070)GCT>ACT	p.A690T	KIAA0802_uc002knq.2_Missense_Mutation_p.A649T|KIAA0802_uc002kns.2_Missense_Mutation_p.A20T	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1000											0						GCACAGCCTGGCTTTGCAAAA	0.488													28	53					0	0	1	0	0		A	8796287	A	A	8796287	3	1	66	1	0	0	0	0	1	0	0	0	8210	1203	42	2	2094	2	KIAA0802	18	8796287	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1564912	8796287	69280961	1336	45412											
KIAA0802	23255	broad.mit.edu	37	chr18	8798182	8798182	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagaccacgacagtgacCgaggctgtggctttccagtg	8	7	13	13	2	0	2	0	1	0	1	1	4	1	2	4	2	0	2	4	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:8798182C>T	uc002knr.2	+	10	2471	c.2329C>T	c.(2329-2331)CGA>TGA	p.R777*	KIAA0802_uc002knq.2_Nonsense_Mutation_p.R736*|KIAA0802_uc002kns.2_Nonsense_Mutation_p.R107*	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1087											0						CGACAGTGACCGAGGCTGTGG	0.652													12	38					0	0	1	0	0		T	8798182	T	T	8798182	4	4	66	1	0	0	0	0	0	1	0	0	8210	644	23	1	2359	1	KIAA0802	18	8798182	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1895	8798182	69279066	1337	45413											
KIAA0802	23255	broad.mit.edu	37	chr18	8825987	8825987	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaattcccgaggaaggtcGcctagccccattggggtggg	8	7	14	12	2	0	0	0	0	0	0	2	2	1	1	5	5	1	0	5	5	3	3	rs145849851		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:8825987G>A	uc002knr.2	+	15	4621	c.4479G>A	c.(4477-4479)TCG>TCA	p.S1493S	KIAA0802_uc002knq.2_Silent_p.S1452S|KIAA0802_uc002kns.2_Silent_p.S833S	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1803											0						GAGGAAGGTCGCCTAGCCCCA	0.657													11	14					0	0	1	0	0		A	8825987	A	A	8825987	2	1	66	1	0	0	0	0	0	0	0	1	8210	1074	38	1		1	KIAA0802	18	8825987	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	27805	8825987	69251261	1338	45414											
ANKRD12	23253	broad.mit.edu	37	chr18	9254818	9254819	+	Frame_Shift_Ins	INS	-	G	G																															tcagaaaagaccagagaggaINSggggaactttaggaaatctt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:9254818_9254819insG	uc002knv.2	+	9	1810_1811	c.1553_1554insG	c.(1552-1554)GAGfs	p.E518fs	ANKRD12_uc002knw.2_Frame_Shift_Ins_p.E495fs|ANKRD12_uc002knx.2_Frame_Shift_Ins_p.E495fs|ANKRD12_uc010dkx.1_Frame_Shift_Ins_p.E225fs	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	518						nucleus				ovary(2)|central_nervous_system(1)	3						ACCAGAGAGGAGGGGAACTTTA	0.267													24	44	---	---	---	---						.	G	9254819	G	G	9254818	7	5	66	1	0	1	1	0	0	0	0	0	640	304	11	0	1583	0	ANKRD12	18	9254818	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	428831	9254818	68822430	1339	45415											
NAPG	8774	broad.mit.edu	37	chr18	10539823	10539823	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcatgatgtatctagaaaAcggcaccccagacacagcag	15	5	9	12	1	1	3	0	1	1	2	1	3	1	3	2	1	3	4	2	1	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:10539823A>G	uc002kon.2	+	6	550	c.323A>G	c.(322-324)AAC>AGC	p.N108S	NAPG_uc010wzr.1_Missense_Mutation_p.N26S|NAPG_uc002koo.2_Missense_Mutation_p.N21S|NAPG_uc002kop.2_Missense_Mutation_p.N21S	NM_003826	NP_003817	Q99747	SNAG_HUMAN	N-ethylmaleimide-sensitive factor attachment	108					cellular membrane fusion|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein complex assembly|protein stabilization	membrane|membrane fraction|mitochondrion	protein binding				0						TATCTAGAAAACGGCACCCCA	0.468													18	44					0	0	1	0	0		G	10539823	G	G	10539823	3	3	66	1	0	0	0	0	1	0	0	0	10182	43	2	3	345	3	NAPG	18	10539823	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1285005	10539823	67537425	1340	45416											
GNAL	2774	broad.mit.edu	37	chr18	11868561	11868561	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgtcacagctatcatttaCgtcgcagcctgcagtagcta	10	11	9	11	2	2	0	2	0	0	0	3	1	2	0	1	0	5	5	1	0	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:11868561C>T	uc010dkz.2	+	10	945	c.699C>T	c.(697-699)TAC>TAT	p.Y233Y	GNAL_uc002kqc.2_Silent_p.Y310Y|GNAL_uc002kqd.2_Silent_p.Y233Y|GNAL_uc010wzt.1_Silent_p.Y26Y	NM_001142339	NP_001135811	P38405	GNAL_HUMAN	guanine nucleotide binding protein (G protein),	233					activation of adenylate cyclase activity by dopamine receptor signaling pathway|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception of smell|synaptic transmission	heterotrimeric G-protein complex	adenylate cyclase activity|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						CTATCATTTACGTCGCAGCCT	0.463													50	69					0	0	1	0	0		T	11868561	T	T	11868561	2	4	66	1	0	0	0	0	0	0	0	1	6522	547	19	1		1	GNAL	18	11868561	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1328738	11868561	66208687	1341	45417											
FAM59A	64762	broad.mit.edu	37	chr18	29867407	29867407	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atacacacagaccgagagtcGgtggaaggactgggtgagct	12	6	15	8	2	0	3	0	1	0	2	1	6	0	5	1	4	2	1	1	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:29867407G>A	uc002kxl.2	-	4	1209	c.1153C>T	c.(1153-1155)CGA>TGA	p.R385*	FAM59A_uc002kxk.1_Nonsense_Mutation_p.R385*	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	385										ovary(1)|skin(1)	2						ACCGAGAGTCGGTGGAAGGAC	0.577													28	50					0	0	1	0	0		A	29867407	A	A	29867407	4	1	66	1	0	0	0	0	0	1	0	0	5606	1124	39	1	1486	1	FAM59A	18	29867407	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	17998846	29867407	48209841	1342	45418											
C18orf34	374864	broad.mit.edu	37	chr18	30803107	30803107	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcaagggttttcttccccTtttttcgtaattttttcttt	5	23	4	9	1	3	0	1	0	2	0	5	0	4	0	2	1	0	2	2	1	2	11			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:30803107T>C	uc002kxn.2	-	17	2037	c.1895A>G	c.(1894-1896)AAG>AGG	p.K632R	C18orf34_uc010dme.1_Missense_Mutation_p.K146R|C18orf34_uc010xbr.1_Missense_Mutation_p.K632R|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Intron|C18orf34_uc002kxp.2_Missense_Mutation_p.K632R	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	632										ovary(1)	1						TTTCTTCCCCTTTTTTCGTAA	0.274													12	30					0	0	1	0	0		C	30803107	C	C	30803107	3	2	66	1	0	0	0	0	1	0	0	0	1905	1609	56	3	732	3	C18orf34	18	30803107	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	935700	30803107	47274141	1343	45419											
C18orf34	374864	broad.mit.edu	37	chr18	30847010	30847010	+	Frame_Shift_Del	DEL	T	-	-																															agaaagctcaatatcccatgTttttttctttaagaaaagaa																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:30847010delT	uc002kxn.2	-	13	1421	c.1279delA	c.(1279-1281)ACAfs	p.T427fs	C18orf34_uc010dme.1_5'UTR|C18orf34_uc010xbr.1_Frame_Shift_Del_p.T427fs|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Frame_Shift_Del_p.T427fs|C18orf34_uc002kxp.2_Frame_Shift_Del_p.T427fs	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	427										ovary(1)	1						ATATCCCATGTTTTTTTCTTT	0.269													16	16	---	---	---	---						.	-	30847010	-	-	30847010	7	5	66	1	0	1	0	1	0	0	0	0	1905	1725	60	0	1364	0	C18orf34	18	30847010	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	43903	30847010	47230238	1344	45420											
C18orf34	374864	broad.mit.edu	37	chr18	30873148	30873148	+	Frame_Shift_Del	DEL	T	-	-																															ttgatagagaatgtaattcaTtttttgatgactttgtttcc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:30873148delT	uc002kxn.2	-	11	1293	c.1151delA	c.(1150-1152)AATfs	p.N384fs	C18orf34_uc010xbr.1_Frame_Shift_Del_p.N384fs|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Frame_Shift_Del_p.N384fs|C18orf34_uc002kxp.2_Frame_Shift_Del_p.N384fs	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	384	Potential.									ovary(1)	1						ATGTAATTCATTTTTTGATGA	0.259													13	29	---	---	---	---						.	-	30873148	-	-	30873148	7	5	66	1	0	1	0	1	0	0	0	0	1905	1493	52	0	1500	0	C18orf34	18	30873148	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	26138	30873148	47204100	1345	45421											
ASXL3	80816	broad.mit.edu	37	chr18	31263451	31263451	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacactaacttgagggcattAataaataaacatacgtttgc	17	11	6	7	1	0	1	0	1	0	0	0	1	0	1	0	1	5	2	0	1	8	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:31263451A>G	uc010dmg.1	+	8	853	c.798A>G	c.(796-798)TTA>TTG	p.L266L	ASXL3_uc002kxq.2_5'UTR	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	266					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TGAGGGCATTAATAAATAAAC	0.413													7	18					0	0	1	0	0		G	31263451	G	G	31263451	2	3	66	1	0	0	0	0	0	0	0	1	1069	359	13	3		3	ASXL3	18	31263451	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	390303	31263451	46813797	1346	45422											
NOL4	8715	broad.mit.edu	37	chr18	31673513	31673513	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttcacagctgacatccGtgttgaatcactcatgtcaa	12	11	8	10	1	4	3	4	2	0	1	5	3	5	3	1	0	1	3	1	0	2	2	rs141918449		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:31673513G>C	uc010dmi.2	-	5	917	c.688C>G	c.(688-690)CGG>GGG	p.R230G	NOL4_uc002kxr.3_Missense_Mutation_p.R66G|NOL4_uc010xbt.1_Missense_Mutation_p.R156G|NOL4_uc010dmh.2_Missense_Mutation_p.R156G|NOL4_uc010xbu.1_Missense_Mutation_p.R230G|NOL4_uc002kxt.3_Missense_Mutation_p.R230G|NOL4_uc010xbw.1_Missense_Mutation_p.R116G	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	230						nucleolus	RNA binding			ovary(3)	3						GCTGACATCCGTGTTGAATCA	0.353													21	50					0	0	1	0	0		C	31673513	C	C	31673513	3	2	66	1	0	0	0	0	1	0	0	0	10543	1144	40	5	1256	5	NOL4	18	31673513	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	410062	31673513	46403735	1347	45423											
ZNF24	7572	broad.mit.edu	37	chr18	32917733	32917733	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcagtcctaccatcatcAtctgaaataaacagaaaatg	16	12	4	9	0	4	2	3	1	1	1	5	2	5	2	2	0	2	0	2	0	6	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:32917733A>G	uc002kyt.2	-	4	727	c.570T>C	c.(568-570)GAT>GAC	p.D190D	ZNF24_uc002kys.2_Silent_p.D190D	NM_006965	NP_008896	P17028	ZNF24_HUMAN	zinc finger protein 24	190					myelination|negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TACCATCATCATCTGAAATAA	0.343													17	77					0	0	1	0	0		G	32917733	G	G	32917733	2	3	66	1	0	0	0	0	0	0	0	1	17817	231	8	3		3	ZNF24	18	32917733	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1244220	32917733	45159515	1348	45424											
SETBP1	26040	broad.mit.edu	37	chr18	42531516	42531516	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaagagcagagctgccaccCccatccgaagaacccaaaac	15	2	7	17	1	0	3	0	0	0	3	1	4	1	3	6	0	5	2	6	0	5	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:42531516C>A	uc010dni.2	+	4	2507	c.2211C>A	c.(2209-2211)CCC>CCA	p.P737P		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	737						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		AGCTGCCACCCCCATCCGAAG	0.547									Schinzel-Giedion_syndrome				13	16					1.3612e-06	1.40332e-06	1	1	0		A	42531516	A	A	42531516	2	1	66	1	0	0	0	0	0	0	0	1	14154	610	22	5		5	SETBP1	18	42531516	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	9613783	42531516	35545732	1349	45425											
RNF165	494470	broad.mit.edu	37	chr18	44013421	44013421	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccagcaatacctcctgcaGcagcagctcctggaagccca	11	5	8	17	0	0	0	0	0	0	0	2	1	2	1	5	1	7	5	5	1	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:44013421G>C	uc002lcb.1	+	2	381	c.330G>C	c.(328-330)CAG>CAC	p.Q110H	RNF165_uc002lby.1_Missense_Mutation_p.Q43H|RNF165_uc010dnn.1_Intron	NM_152470	NP_689683	Q6ZSG1	RN165_HUMAN	ring finger protein 165	110							zinc ion binding				0				READ - Rectum adenocarcinoma(1;0.0873)		ACCTCCTGCAGCAGCAGCTCC	0.532													10	25					0	0	1	0	0		C	44013421	C	C	44013421	3	2	66	1	0	0	0	0	1	0	0	0	13481	962	34	5	336	5	RNF165	18	44013421	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1481905	44013421	34063827	1350	45426											
ST8SIA5	29906	broad.mit.edu	37	chr18	44260371	44260371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgacgcggatggacacgtcGgtgttgcgcgtgttgtagaa	7	11	16	7	6	0	2	0	1	0	1	1	4	0	4	0	3	1	3	0	3	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:44260371G>A	uc002lcj.1	-	7	1333	c.765C>T	c.(763-765)ACC>ACT	p.T255T	ST8SIA5_uc002lci.1_Silent_p.T102T|ST8SIA5_uc010xcy.1_Silent_p.T291T|ST8SIA5_uc010xcz.1_Silent_p.T224T	NM_013305	NP_037437	O15466	SIA8E_HUMAN	ST8 alpha-N-acetyl-neuraminide	255	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						TGGACACGTCGGTGTTGCGCG	0.597													8	10					0	0	1	0	0		A	44260371	A	A	44260371	2	1	66	1	0	0	0	0	0	0	0	1	15260	1103	39	1		1	ST8SIA5	18	44260371	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	246950	44260371	33816877	1351	45427											
ST8SIA5	29906	broad.mit.edu	37	chr18	44262012	44262012	+	Frame_Shift_Del	DEL	G	-	-																															atggtgtacttctctgagatGgggggcaggttgcacctgca																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:44262012delG	uc002lcj.1	-	6	1153	c.585delC	c.(583-585)CCCfs	p.P195fs	ST8SIA5_uc002lci.1_Frame_Shift_Del_p.P42fs|ST8SIA5_uc010xcy.1_Frame_Shift_Del_p.P231fs|ST8SIA5_uc010xcz.1_Frame_Shift_Del_p.P164fs	NM_013305	NP_037437	O15466	SIA8E_HUMAN	ST8 alpha-N-acetyl-neuraminide	195	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						TCTCTGAGATGGGGGGCAGGT	0.572													10	17	---	---	---	---						.	-	44262012	-	-	44262012	7	5	66	1	0	1	0	1	0	0	0	0	15260	1335	47	0	553	0	ST8SIA5	18	44262012	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	1641	44262012	33815236	1352	45428											
PIAS2	9063	broad.mit.edu	37	chr18	44444187	44444187	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaataaaaaacttctctTgaaatcgctgaatactgctt	17	12	4	8	1	1	2	0	2	1	0	3	2	1	2	0	0	3	2	0	0	8	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:44444187T>C	uc002lck.2	-	3	682	c.524A>G	c.(523-525)CAA>CGA	p.Q175R	PIAS2_uc010dnp.2_Intron|PIAS2_uc002lcl.2_Missense_Mutation_p.Q175R|PIAS2_uc010xda.1_5'UTR|PIAS2_uc002lcm.2_Missense_Mutation_p.Q175R|PIAS2_uc002lcn.1_Missense_Mutation_p.Q179R	NM_004671	NP_004662	O75928	PIAS2_HUMAN	protein inhibitor of activated STAT X isoform	175	PINIT.				androgen receptor signaling pathway|negative regulation of androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|PML body	androgen receptor binding|DNA binding|protein binding|SUMO ligase activity|transcription coactivator activity|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						AAACTTCTCTTGAAATCGCTG	0.323													11	34					0	0	1	0	0		C	44444187	C	C	44444187	3	2	66	1	0	0	0	0	1	0	0	0	11895	1812	63	3	1464	3	PIAS2	18	44444187	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	182175	44444187	33633061	1353	45429											
ZBTB7C	201501	broad.mit.edu	37	chr18	45567053	45567053	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatcttcgtcgtcgtcAtcgtcctccttgtcatcctc	4	16	5	16	4	5	0	4	0	1	0	13	0	8	0	3	0	0	0	3	0	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:45567053A>G	uc002lda.2	-	1	442	c.426T>C	c.(424-426)GAT>GAC	p.D142D	ZBTB7C_uc002ldb.2_Silent_p.D142D|ZBTB7C_uc010dnu.2_Silent_p.D151D|ZBTB7C_uc010dnv.2_Silent_p.D164D|ZBTB7C_uc010dnw.2_Silent_p.D142D|ZBTB7C_uc010dnx.1_Silent_p.D142D|ZBTB7C_uc010dny.1_Silent_p.D142D|ZBTB7C_uc010dnz.1_Silent_p.D164D|ZBTB7C_uc010dob.1_Silent_p.D142D|ZBTB7C_uc010doc.1_Silent_p.D151D|ZBTB7C_uc010dod.1_Silent_p.D164D|ZBTB7C_uc010doe.1_Silent_p.D142D|ZBTB7C_uc010dof.1_Silent_p.D142D|ZBTB7C_uc010dog.1_Silent_p.D142D|ZBTB7C_uc010doh.1_Silent_p.D151D|ZBTB7C_uc010doi.1_Silent_p.D142D|ZBTB7C_uc010doj.1_Silent_p.D151D|ZBTB7C_uc010dok.1_Silent_p.D191D|ZBTB7C_uc010dol.1_Silent_p.D151D|ZBTB7C_uc010doa.1_Silent_p.D164D|ZBTB7C_uc010don.1_Silent_p.D150D|ZBTB7C_uc010doo.1_Silent_p.D142D|ZBTB7C_uc010dop.1_Silent_p.D142D|ZBTB7C_uc010doq.1_Silent_p.D151D|ZBTB7C_uc010dor.1_Silent_p.D164D|ZBTB7C_uc010dos.1_Silent_p.D142D|ZBTB7C_uc010dot.1_Silent_p.D142D|ZBTB7C_uc010dou.1_Silent_p.D151D|ZBTB7C_uc010dom.1_Silent_p.D151D	NM_001039360	NP_001034449	A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	142	Glu-rich.|Asp-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						cgtcgtcgtcatcgtcctcct	0.279													6	25					0	0	1	0	0		G	45567053	G	G	45567053	2	3	66	1	0	0	0	0	0	0	0	1	17580	214	8	3		3	ZBTB7C	18	45567053	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1122866	45567053	32510195	1354	45430											
CXXC1	30827	broad.mit.edu	37	chr18	47810865	47810865	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtccttggcatcagccCtctctgggtgtttccattta	5	14	10	12	0	2	0	1	0	1	0	5	0	4	0	3	3	1	2	3	3	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:47810865C>A	uc002leq.3	-	9	1821	c.1088G>T	c.(1087-1089)AGG>ATG	p.R363M	MBD1_uc002leg.2_5'Flank|MBD1_uc010dow.1_5'Flank|MBD1_uc002leh.3_5'Flank|MBD1_uc002len.2_5'Flank|MBD1_uc002lei.3_5'Flank|MBD1_uc002lej.3_5'Flank|MBD1_uc002lek.3_5'Flank|MBD1_uc002lel.3_5'Flank|MBD1_uc002lem.3_5'Flank|MBD1_uc010xdj.1_5'Flank|MBD1_uc010xdk.1_5'Flank|MBD1_uc002leo.2_5'Flank|CXXC1_uc002lep.3_Missense_Mutation_p.R220M|CXXC1_uc002ler.3_Missense_Mutation_p.R367M|CXXC1_uc010doy.2_Missense_Mutation_p.R363M|CXXC1_uc002les.2_Missense_Mutation_p.R363M	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	363					histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GGCATCAGCCCTCTCTGGGTG	0.602													26	64					1.42536e-11	1.50549e-11	1	1	0		A	47810865	A	A	47810865	3	1	66	1	0	0	0	0	1	0	0	0	4100	681	24	5	910	5	CXXC1	18	47810865	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2243812	47810865	30266383	1355	45431											
SMAD4	4089	broad.mit.edu	37	chr18	48575133	48575133	+	Frame_Shift_Del	DEL	A	-	-																															gatcttcacaaaaatgaactAaaacatgttaaatattgtca																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:48575133delA	uc010xdp.1	+	3	865	c.327delA	c.(325-327)CTAfs	p.L109fs	SMAD4_uc010xdo.1_RNA	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	109	MH1.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(4)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		AAAATGAACTAAAACATGTTA	0.373									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				33	57	---	---	---	---						.	-	48575133	-	-	48575133	7	5	66	1	0	1	0	1	0	0	0	0	14785	349	13	0	333	0	SMAD4	18	48575133	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	764268	48575133	29502115	1356	45432											
SMAD4	4089	broad.mit.edu	37	chr18	48593495	48593496	+	Frame_Shift_Del	DEL	AG	-	-																															tacagagttactacttagacAgagaagctgggcgtgcacct																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:48593495_48593496delAG	uc010xdp.1	+	10	1784_1785	c.1246_1247delAG	c.(1246-1248)AGAfs	p.R416fs	SMAD4_uc002lfb.3_Frame_Shift_Del_p.R261fs	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	416	MH2.			R->S: No effect on heterotrimerization. Partially diminished transcriptional activation.	BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)|p.R416S(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		CTACTTAGACAGAGAAGCTGGG	0.416									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				31	63	---	---	---	---						.	-	48593496	-	-	48593495	7	5	66	1	0	1	0	1	0	0	0	0	14785	180	7	0	1280	0	SMAD4	18	48593495	Frame_Shift_Del	DEL	AG	TCGA-BR-8361-01A-11D-2340-08	18362	48593495	29483753	1357	45433											
DCC	1630	broad.mit.edu	37	chr18	50741932	50741932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttagtgccaagtgccccgCctcagaacgtctccctggaa	8	10	9	14	2	2	1	1	0	1	1	3	2	2	2	5	1	3	0	5	1	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:50741932C>T	uc002lfe.1	+	12	2463	c.1876C>T	c.(1876-1878)CCT>TCT	p.P626S	DCC_uc010xdr.1_Missense_Mutation_p.P474S|DCC_uc010dpf.1_Missense_Mutation_p.P281S	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	626	Extracellular (Potential).|Fibronectin type-III 3.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AAGTGCCCCGCCTCAGAACGT	0.398													30	63					0	0	1	0	0		T	50741932	T	T	50741932	3	4	66	1	0	0	0	0	1	0	0	0	4285	739	26	2	1922	2	DCC	18	50741932	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2148437	50741932	27335316	1358	45434											
DCC	1630	broad.mit.edu	37	chr18	50976949	50976949	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacctgcttgtgatcattgtGgtcaccgttggtgtcatcac	7	14	10	10	1	4	1	4	1	0	0	4	1	4	1	2	2	2	2	2	2	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:50976949G>A	uc002lfe.1	+	23	3896	c.3309G>A	c.(3307-3309)GTG>GTA	p.V1103V	DCC_uc010dpf.1_Silent_p.V738V	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1103	Helical; (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane		p.V1103L(1)		skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TGATCATTGTGGTCACCGTTG	0.527													17	34					0	0	1	0	0		A	50976949	A	A	50976949	2	1	66	1	0	0	0	0	0	0	0	1	4285	1335	47	4		4	DCC	18	50976949	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	235017	50976949	27100299	1359	45435											
MBD2	8932	broad.mit.edu	37	chr18	51690978	51690978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggttcttttccacagcagCggagacttgccctgtgattg	7	12	12	10	1	1	2	0	1	1	1	2	3	2	2	2	2	3	2	2	2	0	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:51690978C>T	uc002lfg.1	-	5	1253	c.1024G>A	c.(1024-1026)GCT>ACT	p.A342T		NM_003927	NP_003918	Q9UBB5	MBD2_HUMAN	methyl-CpG binding domain protein 2 isoform 1	342					transcription, DNA-dependent		C2H2 zinc finger domain binding|methyl-CpG binding|satellite DNA binding				0				Colorectal(16;0.0212)|READ - Rectum adenocarcinoma(32;0.188)	Hexobarbital(DB01355)	TCCACAGCAGCGGAGACTTGC	0.478													10	59					0	0	1	0	0		T	51690978	T	T	51690978	3	4	66	1	0	0	0	0	1	0	0	0	9361	768	27	1	219	1	MBD2	18	51690978	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	714029	51690978	26386270	1360	45436											
CCBE1	147372	broad.mit.edu	37	chr18	57106992	57106992	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagccccgtgggccgggctGcccaggagggcctggcatac	5	5	17	14	2	0	1	0	1	0	0	0	2	0	2	5	5	3	2	5	5	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:57106992G>A	uc002lib.2	-	8	902	c.832C>T	c.(832-834)CAG>TAG	p.Q278*	CCBE1_uc010dpq.2_Intron|CCBE1_uc002lia.2_Nonsense_Mutation_p.Q131*	NM_133459	NP_597716	Q6UXH8	CCBE1_HUMAN	collagen and calcium binding EGF domains 1	278	Collagen-like 1.				lymphangiogenesis|sprouting angiogenesis|venous blood vessel morphogenesis	collagen	calcium ion binding			skin(2)|ovary(1)	3		Colorectal(73;0.175)				GGGCCGGGCTGCCCAGGAGGG	0.587													23	42					0	0	1	0	0		A	57106992	A	A	57106992	4	1	66	1	0	0	0	0	0	1	0	0	2734	1328	46	2	404	2	CCBE1	18	57106992	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5416014	57106992	20970256	1361	45437											
CDH20	28316	broad.mit.edu	37	chr18	59221521	59221521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaacatcgtccgctacgacGacgagggcggcggcgaggag	10	3	17	11	8	0	1	0	0	0	1	2	6	1	2	1	4	2	1	1	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:59221521G>A	uc010dps.1	+	11	2011	c.1999G>A	c.(1999-2001)GAC>AAC	p.D667N	CDH20_uc002lif.2_Missense_Mutation_p.D661N	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	667	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				CCGCTACGACGACGAGGGCGG	0.642													34	87					0	0	1	0	0		A	59221521	A	A	59221521	3	1	66	1	0	0	0	0	1	0	0	0	3109	1058	37	1	2041	1	CDH20	18	59221521	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2114529	59221521	18855727	1362	45438											
BCL2	596	broad.mit.edu	37	chr18	60985607	60985607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtcgtcgccggcctggCggagggtcaggtggaccaca	8	5	17	11	4	1	1	1	0	0	1	3	3	1	3	3	6	0	0	3	6	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:60985607C>T	uc002lit.1	-	2	786	c.293G>A	c.(292-294)CGC>CAC	p.R98H	BCL2_uc002liu.1_Missense_Mutation_p.R98H|BCL2_uc002liv.1_Missense_Mutation_p.R98H	NM_000633	NP_000624	P10415	BCL2_HUMAN	B-cell lymphoma protein 2 alpha isoform	98	BH3.				activation of pro-apoptotic gene products|anti-apoptosis|apoptosis in response to endoplasmic reticulum stress|B cell proliferation|B cell receptor signaling pathway|defense response to virus|female pregnancy|humoral immune response|induction of apoptosis by intracellular signals|negative regulation of cellular pH reduction|negative regulation of mitochondrial depolarization|negative regulation of neuron apoptosis|neuron apoptosis|positive regulation of B cell proliferation|positive regulation of cell growth|protein polyubiquitination|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|regulation of transmembrane transporter activity|release of cytochrome c from mitochondria|response to cytokine stimulus|response to DNA damage stimulus|response to drug|response to iron ion|response to nicotine|response to toxin	endoplasmic reticulum membrane|mitochondrial outer membrane|nuclear membrane|pore complex	BH3 domain binding|channel activity|protease binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|ubiquitin protein ligase binding			central_nervous_system(1)	1		all_hematologic(56;1.18e-20)|Prostate(75;0.0872)		Lung(128;0.0234)|READ - Rectum adenocarcinoma(59;0.0935)	Docetaxel(DB01248)|Fludarabine(DB01073)|Melatonin(DB01065)|Paclitaxel(DB01229)|Rasagiline(DB01367)	GCCGGCCTGGCGGAGGGTCAG	0.612			T	IGH@	NHL|CLL								9	26					0	0	1	0	0		T	60985607	T	T	60985607	3	4	66	1	0	0	0	0	1	0	0	0	1366	768	27	1	467	1	BCL2	18	60985607	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1764086	60985607	17091641	1363	45439											
ZNF407	55628	broad.mit.edu	37	chr18	72345425	72345425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgagaagggcatgctggCgtctgaggaactgtcacagt	9	10	14	8	1	3	2	1	2	2	1	3	4	3	3	0	3	2	2	0	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:72345425C>T	uc002llw.2	+	1	2507	c.2450C>T	c.(2449-2451)GCG>GTG	p.A817V	ZNF407_uc010xfc.1_Missense_Mutation_p.A817V|ZNF407_uc010dqu.1_Missense_Mutation_p.A817V|ZNF407_uc002llu.2_Missense_Mutation_p.A816V	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	817					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		GGCATGCTGGCGTCTGAGGAA	0.443													33	99					0	0	1	0	0		T	72345425	T	T	72345425	3	4	66	1	0	0	0	0	1	0	0	0	17912	768	27	1	2452	1	ZNF407	18	72345425	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	11359818	72345425	5731823	1364	45440											
ZNF407	55628	broad.mit.edu	37	chr18	72346151	72346151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactacgcggtgactcgtcGcgagatgaccaggcatgcag	9	8	13	11	5	0	3	0	2	0	1	2	4	0	3	1	2	3	2	1	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:72346151G>A	uc002llw.2	+	1	3233	c.3176G>A	c.(3175-3177)CGC>CAC	p.R1059H	ZNF407_uc010xfc.1_Missense_Mutation_p.R1059H|ZNF407_uc010dqu.1_Missense_Mutation_p.R1059H|ZNF407_uc002llu.2_Missense_Mutation_p.R1058H	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1059	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		GTGACTCGTCGCGAGATGACC	0.453													29	59					0	0	1	0	0		A	72346151	A	A	72346151	3	1	66	1	0	0	0	0	1	0	0	0	17912	1087	38	1	3178	1	ZNF407	18	72346151	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	726	72346151	5731097	1365	45441											
CTDP1	9150	broad.mit.edu	37	chr18	77475105	77475105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcctgggcaacggctgtGccgacaggaaggaggcggag	8	3	20	10	4	0	0	0	0	0	0	0	4	0	3	2	7	2	2	2	7	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr18:77475105G>A	uc002lnh.1	+	8	1792	c.1645G>A	c.(1645-1647)GCC>ACC	p.A549T	CTDP1_uc002lni.1_Missense_Mutation_p.A549T|CTDP1_uc010drd.1_Missense_Mutation_p.A549T	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	549					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		CAACGGCTGTGCCGACAGGAA	0.632													3	12					0	0	1	0	0		A	77475105	A	A	77475105	3	1	66	1	0	0	0	0	1	0	0	0	4005	1319	46	2	1675	2	CTDP1	18	77475105	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5128954	77475105	602143	1366	45442											
ABCA7	10347	broad.mit.edu	37	chr19	1047260	1047260	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcctgctcagcgccttcttCtcccgcgccaacctggctgc	3	11	8	19	3	3	0	1	0	2	0	5	0	4	0	5	1	4	2	5	1	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:1047260C>T	uc002lqw.3	+	15	2181	c.1950C>T	c.(1948-1950)TTC>TTT	p.F650F	ABCA7_uc010dsb.1_Silent_p.F512F	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	650					phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGCCTTCTTCTCCCGCGCCA	0.687													6	10					0	0	1	0	0		T	1047260	T	T	1047260	2	4	66	1	0	0	0	0	0	0	0	1	37	912	32	4		4	ABCA7	19	1047260	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08		1047260	58081723	1367	45443											
HMHA1	23526	broad.mit.edu	37	chr19	1080463	1080463	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agagacgcctctttctccagCcgggcgaggacaccaggttc	8	7	12	14	3	2	1	0	0	2	1	4	4	2	2	4	3	1	1	4	3	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:1080463C>T	uc002lqz.1	+	15	2060	c.1829C>T	c.(1828-1830)GCC>GTC	p.A610V	HMHA1_uc010xgd.1_Missense_Mutation_p.A626V|HMHA1_uc010xge.1_Missense_Mutation_p.A478V|HMHA1_uc002lra.1_Missense_Mutation_p.A450V|HMHA1_uc002lrb.1_Missense_Mutation_p.A493V|HMHA1_uc002lrc.1_Missense_Mutation_p.A245V|HMHA1_uc002lrd.1_5'Flank|HMHA1_uc010dsd.1_5'Flank	NM_012292	NP_036424	Q92619	HMHA1_HUMAN	minor histocompatibility antigen HA-1	610					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTTCTCCAGCCGGGCGAGGA	0.692													23	45					0	0	1	0	0		T	1080463	T	T	1080463	3	4	66	1	0	0	0	0	1	0	0	0	7256	753	26	2	1887	2	HMHA1	19	1080463	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	33203	1080463	58048520	1368	45444											
MEX3D	399664	broad.mit.edu	37	chr19	1555600	1555600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgggtggccggcgtgcGgcaggcgggacactcgggct	3	5	21	12	5	0	0	0	0	0	0	1	1	0	1	2	8	1	2	2	8	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:1555600G>A	uc010dsn.2	-	2	1918	c.1918C>T	c.(1918-1920)CGC>TGC	p.R640C		NM_203304	NP_976049	Q86XN8	MEX3D_HUMAN	ring finger and KH domain containing 1	640	RING-type.				mRNA destabilization|posttranscriptional regulation of gene expression by mRNA localization|regulation of anti-apoptosis	nucleus|perinuclear region of cytoplasm	AU-rich element binding|zinc ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCGGCGTGCGGCAGGCGGGA	0.572													4	6					0	0	1	0	0		A	1555600	A	A	1555600	3	1	66	1	0	0	0	0	1	0	0	0	9530	1116	39	1	104	1	MEX3D	19	1555600	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	475137	1555600	57573383	1369	45445											
ADAT3	113179	broad.mit.edu	37	chr19	1912977	1912977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagccctgcgccatgtgcGccatggccctggtgcacgca	5	6	14	16	4	0	0	0	0	0	0	0	1	0	0	4	2	4	2	4	2	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:1912977G>A	uc002luh.2	+	2	1111	c.883G>A	c.(883-885)GCC>ACC	p.A295T	SCAMP4_uc002lui.1_Intron|SCAMP4_uc002luj.2_Intron|SCAMP4_uc002luk.2_Intron|SCAMP4_uc010dss.2_Intron	NM_138422	NP_612431	Q96EY9	ADAT3_HUMAN	tRNA-specific adenosine deaminase 3	295					tRNA processing		hydrolase activity|zinc ion binding			breast(1)|skin(1)	2		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCCATGTGCGCCATGGCCCT	0.711													11	46					0	0	1	0	0		A	1912977	A	A	1912977	3	1	66	1	0	0	0	0	1	0	0	0	286	1087	38	1	885	1	ADAT3	19	1912977	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	357377	1912977	57216006	1370	45446											
ZNF554	115196	broad.mit.edu	37	chr19	2827741	2827741	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acaggaacgtggtctccctgGgtaaggcaagcatcactaat	12	8	11	10	1	2	0	1	0	1	0	3	1	2	1	1	4	2	3	1	4	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:2827741G>T	uc002lwm.2	+	3	451	c.253G>T	c.(253-255)GAA>TAA	p.E85*	ZNF554_uc002lwl.2_Nonsense_Mutation_p.E34*	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	85	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGTCTCCCTGGGTAAGGCAAG	0.343													12	34					2.80697e-09	2.93668e-09	1	1	0		T	2827741	T	T	2827741	4	4	66	1	0	0	0	0	0	1	0	0	18010	1246	43	5	263	5	ZNF554	19	2827741	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	914764	2827741	56301242	1371	45447											
C19orf29	58509	broad.mit.edu	37	chr19	3623901	3623901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctcccgcagccgcagccGctcctgcaggctctgctgct	3	8	10	20	3	1	0	0	0	1	0	4	0	4	0	5	1	5	7	5	1	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:3623901G>A	uc002lyh.2	-	2	480	c.427C>T	c.(427-429)CGG>TGG	p.R143W	C19orf29_uc010dtn.2_5'Flank|C19orf29_uc002lyi.3_Missense_Mutation_p.R143W|C19orf29_uc010dto.2_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	143	Potential.					catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCCGCAGCCGCTCCTGCAGG	0.711													13	11					0	0	1	0	0		A	3623901	A	A	3623901	3	1	66	1	0	0	0	0	1	0	0	0	1921	1086	38	1	1885	1	C19orf29	19	3623901	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	796160	3623901	55505082	1372	45448											
MAP2K2	5605	broad.mit.edu	37	chr19	4117504	4117504	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccagctctgagatcctttcGaagtcatcgtctttgagttc	7	14	8	12	2	3	2	1	2	2	1	7	4	4	2	2	0	1	2	2	0	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:4117504G>A	uc002lzk.2	-	2	470	c.216C>T	c.(214-216)TTC>TTT	p.F72F		NM_030662	NP_109587	P36507	MP2K2_HUMAN	mitogen-activated protein kinase kinase 2	72	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|extracellular region	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		AGATCCTTTCGAAGTCATCGT	0.597									Cardiofaciocutaneous_syndrome				27	49					0	0	1	0	0		A	4117504	A	A	4117504	2	1	66	1	0	0	0	0	0	0	0	1	9255	1049	37	1		1	MAP2K2	19	4117504	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	493603	4117504	55011479	1373	45449											
CREB3L3	84699	broad.mit.edu	37	chr19	4164608	4164608	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggctaaagaaggcatcAccctgcccactcagctgccc	9	7	9	16	0	2	1	2	0	0	1	2	1	2	1	3	2	4	4	3	2	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:4164608A>G	uc002lzl.2	+	5	801	c.685A>G	c.(685-687)ACC>GCC	p.T229A	CREB3L3_uc002lzm.2_Missense_Mutation_p.T219A|CREB3L3_uc010xib.1_Missense_Mutation_p.T218A|CREB3L3_uc010xic.1_Missense_Mutation_p.T220A	NM_032607	NP_115996	Q68CJ9	CR3L3_HUMAN	cAMP responsive element binding protein 3-like	229	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0232)|STAD - Stomach adenocarcinoma(1328;0.18)		AGAAGGCATCACCCTGCCCAC	0.617													16	31					0	0	1	0	0		G	4164608	G	G	4164608	3	3	66	1	0	0	0	0	1	0	0	0	3861	159	6	3	703	3	CREB3L3	19	4164608	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	47104	4164608	54964375	1374	45450											
CHAF1A	10036	broad.mit.edu	37	chr19	4422729	4422729	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagcgggagaaggatgagaAggagaaggcggagaagcagc	16	1	20	4	2	0	4	0	1	0	4	0	10	0	5	0	5	3	1	0	5	5	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:4422729A>C	uc002mal.2	+	5	1284	c.1184A>C	c.(1183-1185)AAG>ACG	p.K395T		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	395	Arg/Glu/Lys-rich.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		aaggatgagaaggagaaggCG	0.418								Chromatin_Structure					4	14					0	0	1	0	0		C	4422729	C	C	4422729	3	2	66	1	0	0	0	0	1	0	0	0	3314	72	3	5	1202	5	CHAF1A	19	4422729	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	258121	4422729	54706254	1375	45451											
TICAM1	148022	broad.mit.edu	37	chr19	4817366	4817366	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcttggtatttggagaggTggtatcttctacagaaagtt	9	14	13	5	1	2	2	0	0	2	2	2	3	2	2	0	5	1	4	0	5	4	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:4817366T>C	uc002mbi.2	-	2	1275	c.1024A>G	c.(1024-1026)ACC>GCC	p.T342A		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	342	Pro-rich.				apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		TTTGGAGAGGTGGTATCTTCT	0.478													15	46					0	0	1	0	0		C	4817366	C	C	4817366	3	2	66	1	0	0	0	0	1	0	0	0	15917	1696	59	3	1118	3	TICAM1	19	4817366	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	394637	4817366	54311617	1376	45452											
ZNRF4	148066	broad.mit.edu	37	chr19	5456007	5456007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgctacgactgcaccttcGacctcaaggtgctgaacgcc	8	7	10	16	4	1	1	1	1	0	0	2	3	1	1	4	1	4	3	4	1	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:5456007G>A	uc002mca.3	+	1	582	c.505G>A	c.(505-507)GAC>AAC	p.D169N		NM_181710	NP_859061	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4 precursor	169	Extracellular (Potential).|PA.					integral to membrane	zinc ion binding			large_intestine(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		CTGCACCTTCGACCTCAAGGT	0.667													8	24					0	0	1	0	0		A	5456007	A	A	5456007	3	1	66	1	0	0	0	0	1	0	0	0	18239	1058	37	1	507	1	ZNRF4	19	5456007	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	638641	5456007	53672976	1377	45453											
SAFB2	9667	broad.mit.edu	37	chr19	5590363	5590363	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccccagccatcacgggaGtcccggccgtggcgctctgg	4	5	13	19	4	2	0	1	0	1	0	3	1	3	1	6	4	1	1	6	4	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:5590363G>A	uc002mcd.2	-	18	2663	c.2451C>T	c.(2449-2451)GAC>GAT	p.D817D		NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	817	Interacts with SAFB1.|Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		CATCACGGGAGTCCCGGCCGT	0.687													7	4					0	0	1	0	0		A	5590363	A	A	5590363	2	1	66	1	0	0	0	0	0	0	0	1	13832	1020	36	4		4	SAFB2	19	5590363	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	134356	5590363	53538620	1378	45454											
C19orf70	125988	broad.mit.edu	37	chr19	5679395	5679395	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gatgggaaagtaaatctttgGaggggctgggagctgggaaa	12	8	18	3	0	1	0	0	0	1	0	1	5	1	4	0	6	1	3	0	6	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:5679395G>C	uc002mch.1	-	3	634	c.220C>G	c.(220-222)CCA>GCA	p.P74A	C19orf70_uc002mci.1_3'UTR|HSD11B1L_uc002mcj.2_5'Flank|HSD11B1L_uc002mcu.2_5'Flank|HSD11B1L_uc002mcl.2_5'Flank|HSD11B1L_uc002mcm.2_5'Flank|HSD11B1L_uc002mcq.2_5'Flank|HSD11B1L_uc002mcr.2_5'Flank|HSD11B1L_uc002mcs.2_5'Flank|HSD11B1L_uc010dug.2_5'Flank|HSD11B1L_uc002mct.2_5'Flank|HSD11B1L_uc002mck.2_5'Flank|HSD11B1L_uc002mco.2_5'Flank|HSD11B1L_uc002mcn.2_5'Flank|HSD11B1L_uc002mcp.2_5'Flank	NM_205767	NP_991330	Q5XKP0	QIL1_HUMAN	hypothetical protein LOC125988	74							protein binding				0						TAAATCTTTGGAGGGGCTGGG	0.567													3	13					0	0	1	0	0		C	5679395	C	C	5679395	3	2	66	1	0	0	0	0	1	0	0	0	1950	1174	41	5	144	5	C19orf70	19	5679395	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	89032	5679395	53449588	1379	45455											
RFX2	5990	broad.mit.edu	37	chr19	6007164	6007164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgggcaggacggcgccctCggggtcttcgtcactgtgga	4	9	16	12	4	2	0	1	0	1	0	4	2	2	2	1	6	0	1	1	6	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:6007164C>T	uc002meb.2	-	12	1530	c.1261G>A	c.(1261-1263)GAG>AAG	p.E421K	RFX2_uc002mec.2_Missense_Mutation_p.E396K|RFX2_uc002med.1_3'UTR	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	421					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						ACGGCGCCCTCGGGGTCTTCG	0.667													4	39					0	0	1	0	0		T	6007164	T	T	6007164	3	4	66	1	0	0	0	0	1	0	0	0	13288	893	31	1	938	1	RFX2	19	6007164	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	327769	6007164	53121819	1380	45456											
SLC25A23	79085	broad.mit.edu	37	chr19	6454638	6454638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggcacctgccactgcgcCggccaccagctgtttccacc	6	6	9	20	3	0	0	0	0	0	0	1	0	1	0	7	2	3	3	7	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:6454638C>T	uc002mex.1	-	5	716	c.574G>A	c.(574-576)GGC>AGC	p.G192S	SLC25A23_uc002mev.2_RNA|SLC25A23_uc010xjd.1_Missense_Mutation_p.G9S	NM_024103	NP_077008	Q9BV35	SCMC3_HUMAN	solute carrier family 25, member 23	192	Solcar 1.|Helical; Name=1; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)|pancreas(1)	2						GCCACTGCGCCGGCCACCAGC	0.627													19	30					0	0	1	0	0		T	6454638	T	T	6454638	3	4	66	1	0	0	0	0	1	0	0	0	14511	652	23	1	856	1	SLC25A23	19	6454638	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	447474	6454638	52674345	1381	45457											
ARHGEF18	23370	broad.mit.edu	37	chr19	7531846	7531846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatccccgtctgcccaccGtcctggagtcggaggtaggc	5	7	13	16	4	1	0	0	0	1	0	4	3	3	2	6	4	1	1	6	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:7531846G>A	uc002mgi.2	+	14	2636	c.2383G>A	c.(2383-2385)GTC>ATC	p.V795I	ARHGEF18_uc010xjm.1_Missense_Mutation_p.V637I|ARHGEF18_uc002mgh.2_Missense_Mutation_p.V637I|ARHGEF18_uc002mgj.1_Missense_Mutation_p.V438I	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	795					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				TCTGCCCACCGTCCTGGAGTC	0.637													24	47					0	0	1	0	0		A	7531846	A	A	7531846	3	1	66	1	0	0	0	0	1	0	0	0	901	1145	40	1	2437	1	ARHGEF18	19	7531846	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1077208	7531846	51597137	1382	45458											
STXBP2	6813	broad.mit.edu	37	chr19	7707183	7707183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcacgttccaggccatggCgtatgatctgctggacatag	8	10	12	11	2	2	1	1	1	1	0	3	2	3	2	2	3	1	4	2	3	2	3	rs140252723		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:7707183C>T	uc002mha.3	+	9	803	c.758C>T	c.(757-759)GCG>GTG	p.A253V	STXBP2_uc002mhb.3_Missense_Mutation_p.A250V|STXBP2_uc010dvj.2_RNA|STXBP2_uc010xjr.1_Missense_Mutation_p.A264V|STXBP2_uc010dvk.2_Missense_Mutation_p.A221V|STXBP2_uc002mhc.3_Missense_Mutation_p.A21V|STXBP2_uc002mhe.1_5'Flank	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a	253					leukocyte mediated cytotoxicity|neutrophil degranulation|protein transport|regulation of mast cell degranulation|vesicle docking involved in exocytosis	azurophil granule|cytolytic granule|cytosol|specific granule|tertiary granule	syntaxin-3 binding			central_nervous_system(1)	1						CAGGCCATGGCGTATGATCTG	0.612													13	43					0	0	1	0	0		T	7707183	T	T	7707183	3	4	66	1	0	0	0	0	1	0	0	0	15378	768	27	1	792	1	STXBP2	19	7707183	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	175337	7707183	51421800	1383	45459											
SNAPC2	6618	broad.mit.edu	37	chr19	7986933	7986933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaggtgctcaccatcgCggccacggaaccggtcaccc	7	5	11	18	4	2	0	2	0	0	0	3	1	2	1	5	4	3	1	5	4	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:7986933C>T	uc002miw.1	+	4	409	c.386C>T	c.(385-387)GCG>GTG	p.A129V	SNAPC2_uc002mix.1_RNA	NM_003083	NP_003074	Q13487	SNPC2_HUMAN	small nuclear RNA activating complex,	129					snRNA transcription|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	sequence-specific DNA binding transcription factor activity				0						CTCACCATCGCGGCCACGGAA	0.632													42	121					0	0	1	0	0		T	7986933	T	T	7986933	3	4	66	1	0	0	0	0	1	0	0	0	14860	768	27	1	400	1	SNAPC2	19	7986933	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	279750	7986933	51142050	1384	45460											
FBN3	84467	broad.mit.edu	37	chr19	8171110	8171110	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcagctcttggcactcGtcgatgtctgtcaggaagta	7	11	12	11	2	3	0	1	0	2	0	5	2	3	1	1	3	1	4	1	3	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:8171110G>A	uc002mjf.2	-	37	4716	c.4695C>T	c.(4693-4695)GAC>GAT	p.D1565D		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1565	EGF-like 24; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CTTGGCACTCGTCGATGTCTG	0.587													19	24					0	0	1	0	0		A	8171110	A	A	8171110	2	1	66	1	0	0	0	0	0	0	0	1	5718	1136	40	1		1	FBN3	19	8171110	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	184177	8171110	50957873	1385	45461											
ADAMTS10	81794	broad.mit.edu	37	chr19	8657677	8657677	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggtgtgcgtctggcacagCgtgccctcggcggccgggat	4	8	17	12	5	1	0	0	0	1	0	2	1	1	1	2	5	3	1	2	5	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:8657677C>T	uc002mkj.1	-	13	1831	c.1557G>A	c.(1555-1557)ACG>ACA	p.T519T	ADAMTS10_uc002mki.1_5'Flank|ADAMTS10_uc002mkk.1_Silent_p.T151T	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	519	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						TCTGGCACAGCGTGCCCTCGG	0.706													4	8					0	0	1	0	0		T	8657677	T	T	8657677	2	4	66	1	0	0	0	0	0	0	0	1	256	755	27	1		1	ADAMTS10	19	8657677	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	486567	8657677	50471306	1386	45462											
ACTL9	284382	broad.mit.edu	37	chr19	8808703	8808703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccagtccacgacgatgcCgctgcgcaggggttgcacca	8	6	12	15	4	0	0	0	0	0	0	2	2	2	0	4	2	3	4	4	2	0	1	rs145751201		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:8808703C>T	uc002mkl.2	-	1	470	c.349G>A	c.(349-351)GGC>AGC	p.G117S		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	117						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						ACGACGATGCCGCTGCGCAGG	0.692													18	14					0	0	1	0	0		T	8808703	T	T	8808703	3	4	66	1	0	0	0	0	1	0	0	0	203	652	23	1	905	1	ACTL9	19	8808703	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	151026	8808703	50320280	1387	45463											
ACTL9	284382	broad.mit.edu	37	chr19	8808765	8808765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcctcgccgatgaacGtctgcagcccggactgcccc	5	6	13	17	4	1	1	0	1	1	0	2	3	1	2	5	2	5	2	5	2	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:8808765G>A	uc002mkl.2	-	1	408	c.287C>T	c.(286-288)ACG>ATG	p.T96M		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	96						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						GCCGATGAACGTCTGCAGCCC	0.687													10	16					0	0	1	0	0		A	8808765	A	A	8808765	3	1	66	1	0	0	0	0	1	0	0	0	203	1145	40	1	967	1	ACTL9	19	8808765	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	62	8808765	50320218	1388	45464											
MUC16	94025	broad.mit.edu	37	chr19	8969323	8969323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggtaattggtggtgcctgGctgggctttgtcctgggaat	4	14	16	7	0	0	0	0	0	0	0	1	1	1	1	2	6	1	3	2	6	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:8969323G>A	uc002mkp.2	-	79	43225	c.43021C>T	c.(43021-43023)CCA>TCA	p.P14341S	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.P1141S|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGGTGCCTGGCTGGGCTTTG	0.493													25	68					0	0	1	0	0		A	8969323	A	A	8969323	3	1	66	1	0	0	0	0	1	0	0	0	9991	1203	42	2	526	2	MUC16	19	8969323	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	160558	8969323	50159660	1389	45465											
MUC16	94025	broad.mit.edu	37	chr19	8993496	8993496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggcctgtggggtcagggcGgtgggtgcagatggcatcca	6	7	20	8	1	1	1	1	0	0	1	2	1	2	1	2	7	1	2	2	7	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:8993496G>A	uc002mkp.2	-	66	41797	c.41593C>T	c.(41593-41595)CGC>TGC	p.R13865C	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.R682C|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13868	Extracellular (Potential).|SEA 12.			Missing (in Ref. 3; AAK74120).	cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGGTCAGGGCGGTGGGTGCAG	0.592													34	57					0	0	1	0	0		A	8993496	A	A	8993496	3	1	66	1	0	0	0	0	1	0	0	0	9991	1116	39	1	2006	1	MUC16	19	8993496	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	24173	8993496	50135487	1390	45466											
ZNF317	57693	broad.mit.edu	37	chr19	9271917	9271917	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggagaaaccgtacgaatgCgatcactgtgggaaggcctt	11	7	15	8	3	1	1	1	0	0	1	1	5	1	2	2	4	3	1	2	4	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:9271917C>T	uc002mku.2	+	7	1871	c.1596C>T	c.(1594-1596)TGC>TGT	p.C532C	ZNF317_uc002mkv.2_Silent_p.C391C|ZNF317_uc002mkw.2_Silent_p.C500C|ZNF317_uc002mkx.2_Silent_p.C447C|ZNF317_uc002mky.2_Silent_p.C415C	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	532	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGTACGAATGCGATCACTGTG	0.567													13	37					0	0	1	0	0		T	9271917	T	T	9271917	2	4	66	1	0	0	0	0	0	0	0	1	17860	776	27	1		1	ZNF317	19	9271917	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	278421	9271917	49857066	1391	45467											
OR7E24	26648	broad.mit.edu	37	chr19	9362175	9362175	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caccccctgcactaccgaatCatcatgaacccacgcctctg	10	7	5	19	2	3	1	2	1	1	0	3	2	3	1	5	0	3	1	5	0	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:9362175C>T	uc002mlb.1	+	1	456	c.456C>T	c.(454-456)ATC>ATT	p.I152I		NM_001079935	NP_001073404	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E,	152	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ACTACCGAATCATCATGAACC	0.438													11	54					0	0	1	0	0		T	9362175	T	T	9362175	2	4	66	1	0	0	0	0	0	0	0	1	11240	816	29	4		4	OR7E24	19	9362175	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	90258	9362175	49766808	1392	45468											
TYK2	7297	broad.mit.edu	37	chr19	10476480	10476480	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccggctggaagtcccgcaGgaacctgcggaagacgttcc	8	5	14	14	4	0	1	0	0	0	1	2	4	2	4	4	4	2	3	4	4	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:10476480G>T	uc002moc.3	-	7	1102	c.724C>A	c.(724-726)CTG>ATG	p.L242M	TYK2_uc010dxe.2_Missense_Mutation_p.L57M|TYK2_uc002mod.2_Missense_Mutation_p.L242M	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	242	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			AAGTCCCGCAGGAACCTGCGG	0.662													4	12					0.000602214	0.000609462	1	1	0		T	10476480	T	T	10476480	3	4	66	1	0	0	0	0	1	0	0	0	16836	991	35	5	2915	5	TYK2	19	10476480	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1114305	10476480	48652503	1393	45469											
CCDC151	115948	broad.mit.edu	37	chr19	11533253	11533255	+	In_Frame_Del	DEL	CTT	-	-																															tcggcgtgccgccgctcctcCttcttgagacgctcctgcgc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:11533253_11533255delCTT	uc002mrs.2	-	10	1461_1463	c.1318_1320delAAG	c.(1318-1320)AAGdel	p.K440del	CCDC151_uc002mrr.2_In_Frame_Del_p.K375del|CCDC151_uc010dxz.2_In_Frame_Del_p.K380del	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	440	Potential.									ovary(1)	1						GCCGCTCCTCCTTCTTGAGACGC	0.714													6	4	---	---	---	---						.	-	11533255	-	-	11533253	7	5	66	1	0	1	0	1	0	0	0	0	2789	680	24	0	483	0	CCDC151	19	11533253	In_Frame_Del	DEL	CTT	TCGA-BR-8361-01A-11D-2340-08	1056773	11533253	47595730	1394	45470											
ZNF823	55552	broad.mit.edu	37	chr19	11833336	11833336	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	taggacaatcaaagcctttcCcacatatcttacatttatgt	13	14	4	10	0	2	0	1	0	1	0	3	1	3	1	2	1	2	0	2	1	6	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:11833336C>A	uc002msm.2	-	4	1139	c.1013G>T	c.(1012-1014)GGG>GTG	p.G338V	ZNF823_uc010xmd.1_Missense_Mutation_p.G156V|ZNF823_uc010dyi.1_Missense_Mutation_p.G294V	NM_001080493	NP_001073962	P16415	ZN823_HUMAN	ZFP-36 for a zinc finger protein	338	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						AAAGCCTTTCCCACATATCTT	0.408										HNSCC(68;0.2)			32	106					9.65021e-13	1.02417e-12	1	1	0		A	11833336	A	A	11833336	3	1	66	1	0	0	0	0	1	0	0	0	18204	623	22	5	823	5	ZNF823	19	11833336	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	300083	11833336	47295647	1395	45471											
TNPO2	30000	broad.mit.edu	37	chr19	12817053	12817053	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagtcggccagggtgccaAtggcgtcatagaggatgagc	10	6	16	9	2	1	3	1	1	0	2	2	4	1	4	2	4	2	0	2	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:12817053A>G	uc002muo.2	-	14	1810	c.1625T>C	c.(1624-1626)ATT>ACT	p.I542T	TNPO2_uc002mup.2_Missense_Mutation_p.I634T|TNPO2_uc002muq.2_Missense_Mutation_p.I542T|TNPO2_uc002mur.2_Missense_Mutation_p.I542T	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	542	HEAT 9.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						CAGGGTGCCAATGGCGTCATA	0.572													7	17					0	0	1	0	0		G	12817053	G	G	12817053	3	3	66	1	0	0	0	0	1	0	0	0	16361	101	4	3	1112	3	TNPO2	19	12817053	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	983717	12817053	46311930	1396	45472											
CACNA1A	773	broad.mit.edu	37	chr19	13418632	13418632	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgctgctggaaaagtatcGaagttggtgggaggagtccc	10	10	15	6	1	0	0	0	0	0	0	2	4	1	3	1	4	2	4	1	4	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:13418632G>A	uc010dze.2	-	15	2189	c.1953C>T	c.(1951-1953)TTC>TTT	p.F651F	CACNA1A_uc010dzc.2_Silent_p.F176F|CACNA1A_uc002mwy.3_Silent_p.F650F|CACNA1A_uc010xne.1_Silent_p.F176F	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	651	Extracellular (Potential).|II.				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	GAAAAGTATCGAAGTTGGTGG	0.557													22	58					0	0	1	0	0		A	13418632	A	A	13418632	2	1	66	1	0	0	0	0	0	0	0	1	2541	1049	37	1		1	CACNA1A	19	13418632	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	601579	13418632	45710351	1397	45473											
CACNA1A	773	broad.mit.edu	37	chr19	13616881	13616881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggtccgcgctctctgcGccattgactgcttgtacatc	5	12	9	15	3	1	1	0	1	1	0	4	1	2	1	3	1	3	3	3	1	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:13616881G>A	uc010dze.2	-	1	394	c.158C>T	c.(157-159)GCG>GTG	p.A53V	CACNA1A_uc002mwy.3_Missense_Mutation_p.A53V	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	53	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	CGCTCTCTGCGCCATTGACTG	0.677													7	17					0	0	1	0	0		A	13616881	A	A	13616881	3	1	66	1	0	0	0	0	1	0	0	0	2541	1087	38	1	7664	1	CACNA1A	19	13616881	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	198249	13616881	45512102	1398	45474											
CC2D1A	54862	broad.mit.edu	37	chr19	14028985	14028985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagataccactgctgccgCtagacacttccgcgtggcta	8	8	12	13	3	0	2	0	0	0	2	1	3	1	2	3	2	3	3	3	2	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:14028985C>T	uc002mxo.2	+	7	1150	c.851C>T	c.(850-852)GCT>GTT	p.A284V	CC2D1A_uc002mxn.2_Missense_Mutation_p.A183V|CC2D1A_uc002mxp.2_Missense_Mutation_p.A284V|CC2D1A_uc010dzh.2_5'UTR|CC2D1A_uc002mxq.1_5'Flank	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	284	Pro-rich.				positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			ACTGCTGCCGCTAGACACTTC	0.572													2	2					0	0	1	0	0		T	14028985	T	T	14028985	3	4	66	1	0	0	0	0	1	0	0	0	2729	797	28	2	877	2	CC2D1A	19	14028985	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	412104	14028985	45099998	1399	45475											
ZNF333	84449	broad.mit.edu	37	chr19	14830032	14830032	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagccttcaggcacagctcCtcactcactgtacacaaaag	14	7	6	14	0	3	0	3	0	0	0	4	0	4	0	2	1	3	3	2	1	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:14830032C>A	uc002mzn.2	+	12	2027	c.1893C>A	c.(1891-1893)TCC>TCA	p.S631S	ZNF333_uc002mzk.3_Silent_p.S522S	NM_032433	NP_115809	Q96JL9	ZN333_HUMAN	zinc finger protein 333	631	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GGCACAGCTCCTCACTCACTG	0.483													9	109					5.4927e-09	5.73971e-09	1	1	0		A	14830032	A	A	14830032	2	1	66	1	0	0	0	0	0	0	0	1	17875	668	24	5		5	ZNF333	19	14830032	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	801047	14830032	44298951	1400	45476											
EMR2	30817	broad.mit.edu	37	chr19	14863142	14863142	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaacaccgctgtcaataccTtgtgtccggtttgatcaatt	9	13	9	10	2	2	1	2	1	0	0	3	2	3	2	3	2	2	2	3	2	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:14863142T>G	uc002mzp.1	-	15	2243	c.1787A>C	c.(1786-1788)AAG>ACG	p.K596T	EMR2_uc010dzs.1_Missense_Mutation_p.K55T|EMR2_uc010xnw.1_Missense_Mutation_p.K538T|EMR2_uc002mzo.1_Missense_Mutation_p.K585T|EMR2_uc002mzq.1_Missense_Mutation_p.K536T|EMR2_uc002mzr.1_Missense_Mutation_p.K547T|EMR2_uc002mzs.1_Missense_Mutation_p.K454T|EMR2_uc002mzt.1_Missense_Mutation_p.K492T|EMR2_uc002mzu.1_Missense_Mutation_p.K503T|EMR2_uc010xnx.1_RNA|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	596	Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						TGTCAATACCTTGTGTCCGGT	0.537													11	39					0	0	1	0	0		G	14863142	G	G	14863142	3	3	66	1	0	0	0	0	1	0	0	0	5113	1623	56	5	712	5	EMR2	19	14863142	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	33110	14863142	44265841	1401	45477											
OR1I1	126370	broad.mit.edu	37	chr19	15198171	15198171	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctttgtgggctgcctcAcccagatgtatgccttccac	5	12	8	16	0	1	1	1	0	0	1	3	1	3	1	6	1	2	2	6	1	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:15198171A>G	uc010xoe.1	+	1	295	c.295A>G	c.(295-297)ACC>GCC	p.T99A		NM_001004713	NP_001004713	O60431	OR1I1_HUMAN	olfactory receptor, family 1, subfamily I,	99	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3						GGGCTGCCTCACCCAGATGTA	0.572													16	33					0	0	1	0	0		G	15198171	G	G	15198171	3	3	66	1	0	0	0	0	1	0	0	0	10977	159	6	3	297	3	OR1I1	19	15198171	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	335029	15198171	43930812	1402	45478											
NOTCH3	4854	broad.mit.edu	37	chr19	15276888	15276888	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaaggaagccagcattaGcggggtgaagccatctgcag	13	5	14	9	1	1	2	0	1	1	1	1	3	1	3	2	3	5	2	2	3	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:15276888G>A	uc002nan.2	-	30	5453	c.5377C>T	c.(5377-5379)CTA>TTA	p.L1793L		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1793	Cytoplasmic (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			GCCAGCATTAGCGGGGTGAAG	0.532													10	32					0	0	1	0	0		A	15276888	A	A	15276888	2	1	66	1	0	0	0	0	0	0	0	1	10569	962	34	2		2	NOTCH3	19	15276888	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	78717	15276888	43852095	1403	45479											
AKAP8L	26993	broad.mit.edu	37	chr19	15511794	15511794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgtccgagcagtccgtgcGggtggctttgctatctggct	3	13	15	10	3	1	0	0	0	1	0	3	1	3	0	2	3	3	5	2	3	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:15511794G>A	uc002naw.1	-	6	976	c.877C>T	c.(877-879)CGC>TGC	p.R293C	AKAP8L_uc002nax.1_RNA|AKAP8L_uc010xoh.1_Missense_Mutation_p.R232C|AKAP8L_uc002nay.1_Missense_Mutation_p.R293C|AKAP8L_uc002naz.2_Missense_Mutation_p.R141C	NM_014371	NP_055186	Q9ULX6	AKP8L_HUMAN	A kinase (PRKA) anchor protein 8-like	293						cytoplasm|nuclear matrix	DEAD/H-box RNA helicase binding|DNA binding|zinc ion binding			ovary(1)	1						CAGTCCGTGCGGGTGGCTTTG	0.602													9	24					0	0	1	0	0		A	15511794	A	A	15511794	3	1	66	1	0	0	0	0	1	0	0	0	458	1116	39	1	1099	1	AKAP8L	19	15511794	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	234906	15511794	43617189	1404	45480											
AKAP8L	26993	broad.mit.edu	37	chr19	15529797	15529797	+	Translation_Start_Site	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctctgaacatccgacgctgcGatagctgctgctaaccacag	10	8	9	14	3	1	1	0	1	1	0	2	3	2	1	2	0	6	4	2	0	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:15529797G>C	uc002naw.1	-	1	37	c.-62C>G	c.(-64--60)ATCGC>ATGGC		AKAP8L_uc002nax.1_RNA|AKAP8L_uc010xoh.1_Translation_Start_Site|AKAP8L_uc002nay.1_Translation_Start_Site	NM_014371	NP_055186	Q9ULX6	AKP8L_HUMAN	A kinase (PRKA) anchor protein 8-like							cytoplasm|nuclear matrix	DEAD/H-box RNA helicase binding|DNA binding|zinc ion binding			ovary(1)	1						CCGACGCTGCGATAGCTGCTG	0.647											OREG0025320	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	28					0	0	1	0	0		C	15529797	C	C	15529797	1	2	66	1	0	0	0	0	0	0	0	0	458	1073	37	5		5	AKAP8L	19	15529797	Translation_Start_Site	SNP	G	TCGA-BR-8361-01A-11D-2340-08	18003	15529797	43599186	1405	45481											
CYP4F2	8529	broad.mit.edu	37	chr19	16001193	16001193	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgaggctgatgtgctcAaacatatccaaacaggcact	13	9	9	10	0	2	2	2	2	0	0	3	2	3	2	1	2	3	3	1	2	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:16001193A>G	uc002nbs.1	-	6	626	c.576T>C	c.(574-576)TTT>TTC	p.F192F	CYP4F2_uc010xot.1_Silent_p.F43F|CYP4F2_uc010xou.1_Silent_p.F43F	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	192					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						TGATGTGCTCAAACATATCCA	0.537													40	80					0	0	1	0	0		G	16001193	G	G	16001193	2	3	66	1	0	0	0	0	0	0	0	1	4191	127	5	3		3	CYP4F2	19	16001193	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	471396	16001193	43127790	1406	45482											
CHERP	10523	broad.mit.edu	37	chr19	16641614	16641614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgcttgtcttcctccacgGccaagaagctggtgcagtag	7	10	12	12	1	1	1	0	0	1	1	3	1	3	1	3	2	3	5	3	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:16641614G>A	uc002nei.1	-	6	826	c.752C>T	c.(751-753)GCC>GTC	p.A251V	MED26_uc002nee.2_Intron	NM_006387	NP_006378	Q8IWX8	CHERP_HUMAN	calcium homeostasis endoplasmic reticulum	251	CID.				cellular calcium ion homeostasis|negative regulation of cell proliferation|nervous system development|RNA processing	endoplasmic reticulum|perinuclear region of cytoplasm	RNA binding			ovary(2)	2						TTCCTCCACGGCCAAGAAGCT	0.677													17	26					0	0	1	0	0		A	16641614	A	A	16641614	3	1	66	1	0	0	0	0	1	0	0	0	3339	1203	42	2	2046	2	CHERP	19	16641614	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	640421	16641614	42487369	1407	45483											
MED26	9441	broad.mit.edu	37	chr19	16687637	16687637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagcacactgggctttccGcactgggcagcagctcgagc	7	6	13	15	2	0	0	0	0	0	0	2	1	1	0	2	2	4	6	2	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:16687637G>A	uc002nen.1	-	3	1265	c.1004C>T	c.(1003-1005)GCG>GTG	p.A335V	MED26_uc002nee.2_RNA	NM_004831	NP_004822	O95402	MED26_HUMAN	mediator complex subunit 26	335					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|RNA polymerase II transcription cofactor activity|transcription coactivator activity			ovary(2)	2						TGGGCTTTCCGCACTGGGCAG	0.721													4	11					0	0	1	0	0		A	16687637	A	A	16687637	3	1	66	1	0	0	0	0	1	0	0	0	9462	1087	38	1	802	1	MED26	19	16687637	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	46023	16687637	42441346	1408	45484											
F2RL3	9002	broad.mit.edu	37	chr19	17001347	17001347	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgggcagggctcttccaacGgtcgccgggggacaccgtgg	5	5	18	13	5	1	0	0	0	1	0	3	1	2	1	3	6	1	2	3	6	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:17001347G>A	uc002nfa.2	+	2	1248	c.1073G>A	c.(1072-1074)CGG>CAG	p.R358Q		NM_003950	NP_003941	Q96RI0	PAR4_HUMAN	coagulation factor II (thrombin) receptor-like 3	358	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation|positive regulation of release of sequestered calcium ion into cytosol	extracellular region|integral to plasma membrane	thrombin receptor activity				0						CTCTTCCAACGGTCGCCGGGG	0.647													3	9					0	0	1	0	0		A	17001347	A	A	17001347	3	1	66	1	0	0	0	0	1	0	0	0	5354	1116	39	1	1079	1	F2RL3	19	17001347	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	313710	17001347	42127636	1409	45485											
NR2F6	2063	broad.mit.edu	37	chr19	17343175	17343175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggtcactggcccgagcCgtagggccagttgaaggtac	8	8	14	11	2	2	1	2	1	0	0	2	2	2	1	3	4	2	3	3	4	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:17343175C>T	uc002nfq.2	-	4	1323	c.1201G>A	c.(1201-1203)GGC>AGC	p.G401S		NM_005234	NP_005225	P10588	NR2F6_HUMAN	nuclear receptor subfamily 2, group F, member 6	401	Important for dimerization (By similarity).|Ligand-binding (By similarity).				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding				0						TGGCCCGAGCCGTAGGGCCAG	0.632													15	36					0	0	1	0	0		T	17343175	T	T	17343175	3	4	66	1	0	0	0	0	1	0	0	0	10648	652	23	1	17	1	NR2F6	19	17343175	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	341828	17343175	41785808	1410	45486											
ANO8	57719	broad.mit.edu	37	chr19	17435799	17435799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgaggaaggcaggcaggcGggtgtcgctgcctgtgggtg	5	7	21	8	2	0	1	0	1	0	0	1	2	0	2	1	6	1	4	1	6	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:17435799G>A	uc002ngf.2	-	17	3217	c.3058C>T	c.(3058-3060)CGC>TGC	p.R1020C	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	1020	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						GCAGGCAGGCGGGTGTCGCTG	0.662													52	111					0	0	1	0	0		A	17435799	A	A	17435799	3	1	66	1	0	0	0	0	1	0	0	0	703	1116	39	1	648	1	ANO8	19	17435799	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	92624	17435799	41693184	1411	45487											
B3GNT3	10331	broad.mit.edu	37	chr19	17919075	17919075	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggcacagcctccaacccGcacgaggcccgcaaggtcaa	10	3	12	16	3	1	0	1	0	0	0	2	1	2	0	4	3	2	3	4	3	3	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:17919075G>A	uc002nhk.1	+	2	544	c.459G>A	c.(457-459)CCG>CCA	p.P153P	B3GNT3_uc002nhl.1_Silent_p.P153P|B3GNT3_uc010ebd.1_Silent_p.P153P|B3GNT3_uc010ebe.1_Silent_p.P153P	NM_014256	NP_055071	Q9Y2A9	B3GN3_HUMAN	UDP-GlcNAc:betaGal	153	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to plasma membrane	galactosyltransferase activity			upper_aerodigestive_tract(1)	1						CCTCCAACCCGCACGAGGCCC	0.667													16	24					0	0	1	0	0		A	17919075	A	A	17919075	2	1	66	1	0	0	0	0	0	0	0	1	1259	1074	38	1		1	B3GNT3	19	17919075	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	483276	17919075	41209908	1412	45488											
PDE4C	5143	broad.mit.edu	37	chr19	18321960	18321960	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaggtctgagggacttcGggggatcttgctctggtacc	5	11	17	8	1	3	2	0	2	3	0	4	4	3	4	1	6	2	2	1	6	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:18321960G>A	uc010xqc.1	-	15	2398	c.1918C>T	c.(1918-1920)CGA>TGA	p.R640*	PDE4C_uc002nik.3_Nonsense_Mutation_p.R640*|PDE4C_uc002nil.3_Nonsense_Mutation_p.R640*|PDE4C_uc002nif.3_Nonsense_Mutation_p.R409*|PDE4C_uc002nig.3_Nonsense_Mutation_p.R355*|PDE4C_uc002nih.3_Nonsense_Mutation_p.R410*|PDE4C_uc010ebk.2_Nonsense_Mutation_p.R534*|PDE4C_uc002nii.3_Nonsense_Mutation_p.R608*|PDE4C_uc010ebl.2_Nonsense_Mutation_p.R354*	NM_001098819	NP_001092289	Q08493	PDE4C_HUMAN	phosphodiesterase 4C isoform PDE4C-2	640					signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|skin(2)|central_nervous_system(1)	5					Dyphylline(DB00651)	GAGGGACTTCGGGGGATCTTG	0.502													21	32					0	0	1	0	0		A	18321960	A	A	18321960	4	1	66	1	0	0	0	0	0	1	0	0	11660	1124	39	1	224	1	PDE4C	19	18321960	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	402885	18321960	40807023	1413	45489											
LRRC25	126364	broad.mit.edu	37	chr19	18507766	18507766	+	Frame_Shift_Del	DEL	C	-	-																															gcagcgtccatgccagggtgCcccccattcaagcaacctac																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:18507766delC	uc002niw.2	-	1	650	c.8delG	c.(7-9)GGCfs	p.G3fs	LRRC25_uc002nix.2_Frame_Shift_Del_p.G3fs	NM_145256	NP_660299	Q8N386	LRC25_HUMAN	leucine rich repeat containing 25 precursor	3						integral to membrane					0						TGCCAGGGTGCCCCCCATTCA	0.612													14	17	---	---	---	---						.	-	18507766	-	-	18507766	7	5	66	1	0	1	0	1	0	0	0	0	8998	739	26	0	917	0	LRRC25	19	18507766	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	185806	18507766	40621217	1414	45490											
FKBP8	23770	broad.mit.edu	37	chr19	18644139	18644139	+	Frame_Shift_Del	DEL	C	-	-																															ggggatggcctcactgtactCcccctgctgggccagcacct																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:18644139delC	uc002njk.1	-	7	1074	c.961delG	c.(961-963)GAGfs	p.E321fs	FKBP8_uc002nji.1_Frame_Shift_Del_p.E159fs|FKBP8_uc010xqi.1_Frame_Shift_Del_p.E350fs|FKBP8_uc002njj.1_Frame_Shift_Del_p.E322fs|FKBP8_uc002njl.1_Frame_Shift_Del_p.E322fs|FKBP8_uc002njm.1_Frame_Shift_Del_p.E321fs|FKBP8_uc010ebr.1_Frame_Shift_Del_p.E160fs|FKBP8_uc002njn.2_RNA	NM_012181	NP_036313	Q14318	FKBP8_HUMAN	FK506-binding protein 8	321	TPR 3.				apoptosis|interspecies interaction between organisms|intracellular signal transduction|protein folding	integral to endoplasmic reticulum membrane|mitochondrial membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|protein binding			ovary(1)	1						TCACTGTACTCCCCCTGCTGG	0.582													3	4	---	---	---	---						.	-	18644139	-	-	18644139	7	5	66	1	0	1	0	1	0	0	0	0	5928	864	30	0	289	0	FKBP8	19	18644139	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	136373	18644139	40484844	1415	45491											
NCAN	1463	broad.mit.edu	37	chr19	19351410	19351410	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacaacccccgaccctgcAggctttgggcatgaaaacac	11	5	8	17	1	0	1	0	1	0	0	0	2	0	1	4	2	3	3	4	2	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:19351410A>G	uc002nlz.2	+	12	3509	c.3410_splice	c.e12-2	p.S1137_splice	NCAN_uc002nma.2_5'UTR	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor						axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			CCGACCCTGCAGGCTTTGGGC	0.612													14	38					0	0	1	0	0		G	19351410	G	G	19351410	5	3	66	1	0	0	0	0	0	0	1	0	10223	202	7	3	3450	3	NCAN	19	19351410	Splice_Site	SNP	A	TCGA-BR-8361-01A-11D-2340-08	707271	19351410	39777573	1416	45492											
TSSK6	83983	broad.mit.edu	37	chr19	19626094	19626094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttgacgaagtccgggggcGctcgccgccggtccaccacc	5	6	14	16	6	0	1	0	1	0	0	3	2	2	1	6	3	0	2	6	3	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:19626094G>A	uc002nmr.2	-	1	376	c.143C>T	c.(142-144)GCG>GTG	p.A48V	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	48	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						GTCCGGGGGCGCTCGCCGCCG	0.627													17	33					0	0	1	0	0		A	19626094	A	A	19626094	3	1	66	1	0	0	0	0	1	0	0	0	16698	1087	38	1	682	1	TSSK6	19	19626094	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	274684	19626094	39502889	1417	45493											
ZNF714	148206	broad.mit.edu	37	chr19	21300002	21300002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttaccaatgtgaagaatgtGacaaagtgtttaagcggttc	13	12	10	6	1	0	3	0	2	0	1	1	3	0	3	1	1	2	2	1	1	6	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:21300002G>A	uc002npo.3	+	6	895	c.535G>A	c.(535-537)GAC>AAC	p.D179N	ZNF714_uc002npl.2_Missense_Mutation_p.D24N|ZNF714_uc010ecp.1_Missense_Mutation_p.D130N|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	179	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGAAGAATGTGACAAAGTGTT	0.343													26	54					0	0	1	0	0		A	21300002	A	A	21300002	3	1	66	1	0	0	0	0	1	0	0	0	18143	1290	45	4	542	4	ZNF714	19	21300002	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1673908	21300002	37828981	1418	45494											
ZNF714	148206	broad.mit.edu	37	chr19	21300018	21300018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtgacaaagtgtttaagcGgttctcaacccttactagac	12	12	8	9	1	1	2	1	1	1	1	2	2	1	2	1	1	3	2	1	1	5	5	rs61740552		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:21300018G>A	uc002npo.3	+	6	911	c.551G>A	c.(550-552)CGG>CAG	p.R184Q	ZNF714_uc002npl.2_Missense_Mutation_p.R29Q|ZNF714_uc010ecp.1_Missense_Mutation_p.R135Q|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	184	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTGTTTAAGCGGTTCTCAACC	0.368													25	55					0	0	1	0	0		A	21300018	A	A	21300018	3	1	66	1	0	0	0	0	1	0	0	0	18143	1116	39	1	558	1	ZNF714	19	21300018	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	16	21300018	37828965	1419	45495											
ZNF208	7757	broad.mit.edu	37	chr19	22155306	22155306	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttagtaaggattgagaactTactaaaggctttgccacatt	13	14	8	6	0	0	1	0	1	0	1	0	3	0	2	1	2	3	2	1	2	6	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:22155306T>C	uc002nqp.2	-	5	2379	c.2230A>G	c.(2230-2232)AAG>GAG	p.K744E	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				ATTGAGAACTTACTAAAGGCT	0.393													22	54					0	0	1	0	0		C	22155306	C	C	22155306	3	2	66	1	0	0	0	0	1	0	0	0	17791	1763	61	3	1316	3	ZNF208	19	22155306	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	855288	22155306	36973677	1420	45496											
ZNF257	113835	broad.mit.edu	37	chr19	22271811	22271811	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcttactacccttactcAgcataagataattcatactg	13	13	4	11	0	3	1	2	0	1	1	3	1	3	1	1	0	6	2	1	0	6	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:22271811A>T	uc010ecx.2	+	4	1428	c.1259A>T	c.(1258-1260)CAG>CTG	p.Q420L	ZNF257_uc010ecy.2_Missense_Mutation_p.Q388L	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	420	C2H2-type 9; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				ACCCTTACTCAGCATAAGATA	0.368													4	55					0	0	1	0	0		T	22271811	T	T	22271811	3	4	66	1	0	0	0	0	1	0	0	0	17825	188	7	5	1273	5	ZNF257	19	22271811	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	116505	22271811	36857172	1421	45497											
GPATCH1	55094	broad.mit.edu	37	chr19	33600752	33600752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccagaacgctcagagcaGcagagcccagctctcccctg	9	4	11	17	1	2	3	1	0	1	3	3	3	2	3	4	1	5	4	4	1	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:33600752G>A	uc002nug.1	+	11	1729	c.1415G>A	c.(1414-1416)AGC>AAC	p.S472N		NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	472						catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					GCTCAGAGCAGCAGAGCCCAG	0.552													15	48					0	0	1	0	0		A	33600752	A	A	33600752	3	1	66	1	0	0	0	0	1	0	0	0	6605	971	34	2	1457	2	GPATCH1	19	33600752	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	11328941	33600752	25528231	1422	45498											
DMKN	93099	broad.mit.edu	37	chr19	36004029	36004029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgtcgaatgacatcttctgCctgtctgccaatctcgtgcc	6	13	9	13	2	4	1	0	1	4	0	6	2	4	1	3	0	3	0	3	0	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:36004029C>T	uc002nzm.3	-	1	532	c.349G>A	c.(349-351)GCA>ACA	p.A117T	DMKN_uc002nzj.2_5'Flank|DMKN_uc002nzk.3_5'Flank|DMKN_uc002nzl.3_5'Flank|DMKN_uc002nzo.3_Missense_Mutation_p.A117T|DMKN_uc002nzn.3_Missense_Mutation_p.A117T|DMKN_uc002nzw.2_5'Flank|DMKN_uc002nzr.2_5'Flank|DMKN_uc002nzp.2_5'Flank|DMKN_uc002nzq.2_5'Flank|DMKN_uc002nzt.2_5'Flank|DMKN_uc002nzs.2_5'Flank|DMKN_uc002nzu.2_5'Flank|DMKN_uc002nzv.2_5'Flank|DMKN_uc010xsv.1_5'Flank|DMKN_uc010xsw.1_5'Flank|DMKN_uc002nzx.3_5'Flank|DMKN_uc002nzy.3_5'Flank|DMKN_uc002nzz.2_5'Flank|DMKN_uc002oac.3_Missense_Mutation_p.A117T|DMKN_uc010eeb.2_Missense_Mutation_p.A117T|DMKN_uc002oaa.3_Missense_Mutation_p.A117T|DMKN_uc002oab.3_Missense_Mutation_p.A117T	NM_033317	NP_201574	Q6E0U4	DMKN_HUMAN	dermokine isoform 2 precursor	117	Gly-rich.					extracellular region				large_intestine(1)|ovary(1)|skin(1)	3	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			ACATCTTCTGCCTGTCTGCCA	0.617													19	30					0	0	1	0	0		T	36004029	T	T	36004029	3	4	66	1	0	0	0	0	1	0	0	0	4588	739	26	2	1462	2	DMKN	19	36004029	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2403277	36004029	23124954	1423	45499											
TMEM147	10430	broad.mit.edu	37	chr19	36038038	36038038	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtccattacatcgtcgcGtctgctcaggtctggatgat	7	13	11	10	3	3	1	1	1	2	0	6	2	4	2	1	3	2	1	1	3	2	2	rs141810425		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:36038038G>A	uc002oaj.1	+	6	544	c.447G>A	c.(445-447)GCG>GCA	p.A149A	uc010eec.1_5'Flank|uc002oag.2_5'Flank|TMEM147_uc002oai.1_Silent_p.A100A|TMEM147_uc002oak.1_Silent_p.A104A	NM_032635	NP_116024	Q9BVK8	TM147_HUMAN	transmembrane protein 147	149	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	protein binding				0	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			ACATCGTCGCGTCTGCTCAGG	0.552													22	48					0	0	1	0	0		A	36038038	A	A	36038038	2	1	66	1	0	0	0	0	0	0	0	1	16086	1132	40	1		1	TMEM147	19	36038038	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	34009	36038038	23090945	1424	45500											
RBM42	79171	broad.mit.edu	37	chr19	36128234	36128234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccccagcgactacgtgcGcgccatgcgtgagatgaatg	9	6	14	12	5	0	2	0	2	0	1	0	5	0	3	3	1	4	0	3	1	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:36128234G>A	uc002oan.2	+	9	1386	c.1310G>A	c.(1309-1311)CGC>CAC	p.R437H	RBM42_uc010eef.2_Missense_Mutation_p.R383H|RBM42_uc002oao.2_Missense_Mutation_p.R415H|RBM42_uc002oap.2_Missense_Mutation_p.R407H|RBM42_uc002oaq.2_Missense_Mutation_p.R408H|RBM42_uc010eeg.2_Intron	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	437	Necessary for interaction with HNRNPK (By similarity).|RRM.					cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GACTACGTGCGCGCCATGCGT	0.632													15	37					0	0	1	0	0		A	36128234	A	A	36128234	3	1	66	1	0	0	0	0	1	0	0	0	13161	1087	38	1	1344	1	RBM42	19	36128234	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	90196	36128234	23000749	1425	45501											
ZBTB32	27033	broad.mit.edu	37	chr19	36206345	36206345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctgatgccgcccagatatGgcattcccttctaccatagc	8	11	8	14	1	1	2	0	1	1	1	2	2	2	2	4	1	4	2	4	1	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:36206345G>A	uc002oay.2	+	2	1027	c.817G>A	c.(817-819)GGC>AGC	p.G273S	ZBTB32_uc002oaz.2_RNA|MLL4_uc010eei.2_5'Flank	NM_014383	NP_055198	Q9Y2Y4	ZBT32_HUMAN	zinc finger and BTB domain containing 32	273					DNA repair|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleoplasm	DNA binding|protein binding|transcription corepressor activity|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GCCCAGATATGGCATTCCCTT	0.657													23	50					0	0	1	0	0		A	36206345	A	A	36206345	3	1	66	1	0	0	0	0	1	0	0	0	17560	1348	47	4	819	4	ZBTB32	19	36206345	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	78111	36206345	22922638	1426	45502											
ARHGAP33	115703	broad.mit.edu	37	chr19	36276226	36276226	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggcacccgtgccccaccGcagccttcaggtgagaggct	6	5	15	15	2	1	1	1	1	0	1	1	2	1	1	5	4	2	3	5	4	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:36276226G>A	uc002obr.1	+	18	1942	c.1857G>A	c.(1855-1857)CCG>CCA	p.P619P	ARHGAP33_uc002obs.1_Silent_p.P619P|ARHGAP33_uc002obt.1_Silent_p.P483P|ARHGAP33_uc010eel.2_Silent_p.P207P|ARHGAP33_uc002obv.1_Silent_p.P207P	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	619					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						GTGCCCCACCGCAGCCTTCAG	0.687													18	22					0	0	1	0	0		A	36276226	A	A	36276226	2	1	66	1	0	0	0	0	0	0	0	1	882	1074	38	1		1	ARHGAP33	19	36276226	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	69881	36276226	22852757	1427	45503											
ARHGAP33	115703	broad.mit.edu	37	chr19	36279117	36279117	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgggcaccctggggaccccGtacccctcatagggtgccgg	6	5	14	16	3	1	0	1	0	0	0	1	1	1	1	6	5	2	2	6	5	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:36279117G>A	uc002obs.1	+	21	3252	c.3167G>A	c.(3166-3168)CGT>CAT	p.R1056H	ARHGAP33_uc002obt.1_Missense_Mutation_p.R1053H|ARHGAP33_uc010eel.2_Intron|ARHGAP33_uc002obv.1_Missense_Mutation_p.R805H	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	1217					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						TGGGGACCCCGTACCCCTCAT	0.706													21	24					0	0	1	0	0		A	36279117	A	A	36279117	3	1	66	1	0	0	0	0	1	0	0	0	882	1145	40	1	3732	1	ARHGAP33	19	36279117	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2891	36279117	22849866	1428	45504											
LRFN3	79414	broad.mit.edu	37	chr19	36431520	36431521	+	Frame_Shift_Ins	INS	-	C	C																															gccaacagcaccagctgtgaINSccccccgcgggacggggatc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:36431520_36431521insC	uc002oco.2	+	2	1645_1646	c.1193_1194insC	c.(1192-1194)GACfs	p.D398fs		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	398	Extracellular (Potential).				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			ACCAGCTGTGACCCCCCGCGGG	0.678													24	49	---	---	---	---						.	C	36431521	C	C	36431520	7	5	66	1	0	1	1	0	0	0	0	0	8957	275	10	0	1195	0	LRFN3	19	36431520	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	152403	36431520	22697463	1429	45505											
ZFP14	57677	broad.mit.edu	37	chr19	36853090	36853090	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagcaggatccaggaattcCcattcttcctgtgagaagtc	10	11	10	10	0	1	2	0	2	1	1	5	5	4	4	3	2	1	1	3	2	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:36853090C>T	uc002odx.1	-	2	153	c.60G>A	c.(58-60)TGG>TGA	p.W20*	ZFP14_uc010xtd.1_Nonsense_Mutation_p.W20*|ZFP14_uc010eex.1_Nonsense_Mutation_p.W20*	NM_020917	NP_065968	Q9HCL3	ZFP14_HUMAN	zinc finger protein 14-like	20	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.162)					CCAGGAATTCCCATTCTTCCT	0.378													25	38					0	0	1	0	0		T	36853090	T	T	36853090	4	4	66	1	0	0	0	0	0	1	0	0	17664	624	22	4	1553	4	ZFP14	19	36853090	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	421570	36853090	22275893	1430	45506											
ZNF569	148266	broad.mit.edu	37	chr19	37903985	37903985	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaggctttaccacattcAttacaatcataaggtttctc	13	13	6	9	0	3	1	2	0	1	1	4	2	3	1	1	2	2	2	1	2	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:37903985A>G	uc002ogi.2	-	6	2133	c.1575T>C	c.(1573-1575)AAT>AAC	p.N525N	ZNF569_uc002ogh.2_Silent_p.N366N|ZNF569_uc002ogj.2_Silent_p.N549N	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	525	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TACCACATTCATTACAATCAT	0.373													32	86					0	0	1	0	0		G	37903985	G	G	37903985	2	3	66	1	0	0	0	0	0	0	0	1	18025	214	8	3		3	ZNF569	19	37903985	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1050895	37903985	21224998	1431	45507											
RYR1	6261	broad.mit.edu	37	chr19	39019237	39019237	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcacacctctcccctgcAggcaccgggcatgtaacatg	9	7	9	16	2	2	0	1	0	1	0	3	0	2	0	4	2	2	4	4	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:39019237A>G	uc002oit.2	+	75	11068	c.10938_splice	c.e75-2	p.T3646_splice	RYR1_uc002oiu.2_Splice_Site_p.T3641_splice|RYR1_uc002oiv.1_Splice_Site_p.T561_splice|RYR1_uc010xuf.1_Splice_Site_p.T566_splice	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1						muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TCTCCCCTGCAGGCACCGGGC	0.597													11	21					0	0	1	0	0		G	39019237	G	G	39019237	5	3	66	1	0	0	0	0	0	0	1	0	13793	202	7	3	11234	3	RYR1	19	39019237	Splice_Site	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1115252	39019237	20109746	1432	45508											
ACTN4	81	broad.mit.edu	37	chr19	39214943	39214943	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcaacccctacaccacCgtcaccccgcaaatcatcaa	13	4	5	19	2	3	0	3	0	0	0	3	0	3	0	6	1	3	3	6	1	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:39214943C>T	uc002oja.1	+	15	1898	c.1839C>T	c.(1837-1839)ACC>ACT	p.T613T	ACTN4_uc002ojb.1_5'Flank	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	613	Spectrin 3.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCTACACCACCGTCACCCCGC	0.667													6	20					0	0	1	0	0		T	39214943	T	T	39214943	2	4	66	1	0	0	0	0	0	0	0	1	207	639	23	1		1	ACTN4	19	39214943	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	195706	39214943	19914040	1433	45509											
DYRK1B	9149	broad.mit.edu	37	chr19	40316498	40316498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagccgggtgctggggggCaggcgctgggtgaggtgggg	3	5	26	7	2	0	1	0	1	0	0	0	1	0	1	1	10	2	4	1	10	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:40316498C>T	uc002omj.2	-	11	2027	c.1747G>A	c.(1747-1749)GCC>ACC	p.A583T	DYRK1B_uc002omi.2_Missense_Mutation_p.A555T|DYRK1B_uc002omk.2_Missense_Mutation_p.A543T	NM_004714	NP_004705	Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	583					positive regulation of transcription, DNA-dependent	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|transcription coactivator activity			ovary(4)|stomach(1)|central_nervous_system(1)|skin(1)	7	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)		Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)			TGCTGGGGGGCAGGCGCTGGG	0.697													5	17					0	0	1	0	0		T	40316498	T	T	40316498	3	4	66	1	0	0	0	0	1	0	0	0	4861	710	25	2	146	2	DYRK1B	19	40316498	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1101555	40316498	18812485	1434	45510											
FCGBP	8857	broad.mit.edu	37	chr19	40376631	40376631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccggctctccctcactcacGacagaaagtttcattcctcc	8	11	5	17	2	4	1	3	0	1	1	8	2	7	1	4	1	0	2	4	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:40376631G>A	uc002omp.3	-	24	11799	c.11791C>T	c.(11791-11793)CCC>TCC	p.P3931S		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	3931	Cys-rich.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CCTCACTCACGACAGAAAGTT	0.622													18	66					0	0	1	0	0		A	40376631	A	A	40376631	3	1	66	1	0	0	0	0	1	0	0	0	5792	1072	37	1	4478	1	FCGBP	19	40376631	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	60133	40376631	18752352	1435	45511											
MAP3K10	4294	broad.mit.edu	37	chr19	40718828	40718828	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggggcaagaagaagggaCgaacgtgggggcccagctcc	10	3	18	10	3	0	2	0	0	0	2	2	4	1	3	2	5	2	2	2	5	4	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:40718828C>T	uc002ona.2	+	7	1957	c.1669C>T	c.(1669-1671)CGA>TGA	p.R557*	MAP3K10_uc002onb.2_Translation_Start_Site	NM_002446	NP_002437	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase	557					activation of JUN kinase activity|induction of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of JNK cascade|protein autophosphorylation|smoothened signaling pathway	cytoplasm	ATP binding|bHLH transcription factor binding|JUN kinase kinase kinase activity|protein homodimerization activity|transcription corepressor activity			ovary(2)|lung(2)|skin(1)|pancreas(1)	6						GAAGAAGGGACGAACGTGGGG	0.562													9	16					0	0	1	0	0		T	40718828	T	T	40718828	4	4	66	1	0	0	0	0	0	1	0	0	9262	528	19	1	1695	1	MAP3K10	19	40718828	Nonsense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	342197	40718828	18410155	1436	45512											
EGLN2	112398	broad.mit.edu	37	chr19	41306665	41306665	+	Frame_Shift_Del	DEL	C	-	-																															ggcctcggcagggagtgggaCccccagagccacagccacct																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:41306665delC	uc010ehd.2	+	8	1189	c.188delC	c.(187-189)ACCfs	p.T63fs	EGLN2_uc002opg.3_Frame_Shift_Del_p.T63fs|EGLN2_uc002oph.2_Frame_Shift_Del_p.T63fs|EGLN2_uc002opi.2_Frame_Shift_Del_p.T63fs	NM_080732	NP_542770	Q96KS0	EGLN2_HUMAN	EGL nine (C.elegans) homolog 2	63					cell redox homeostasis|estrogen receptor signaling pathway|positive regulation of protein catabolic process|regulation of cell growth|response to hypoxia	cytoplasm|nucleus	ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|oxygen sensor activity			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Vitamin C(DB00126)	GGGAGTGGGACCCCCAGAGCC	0.672													8	17	---	---	---	---						.	-	41306665	-	-	41306665	7	5	66	1	0	1	0	1	0	0	0	0	4975	507	18	0	190	0	EGLN2	19	41306665	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	587837	41306665	17822318	1437	45513											
CYP2B6	1555	broad.mit.edu	37	chr19	41522669	41522670	+	Frame_Shift_Ins	INS	-	C	C																															cagaagacatcgatctgacaINSccccaggagtgtggtgtggg																								rs147410578		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:41522669_41522670insC	uc002opr.1	+	9	1420_1421	c.1413_1414insC	c.(1411-1416)ACACCCfs	p.T471fs	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Frame_Shift_Ins_p.T271fs	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	471_472					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	TCGATCTGACACCCCAGGAGTG	0.589													11	24	---	---	---	---						.	C	41522670	C	C	41522669	7	5	66	1	0	1	1	0	0	0	0	0	4167	146	6	0	1447	0	CYP2B6	19	41522669	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	216004	41522669	17606314	1438	45514											
ARHGEF1	9138	broad.mit.edu	37	chr19	42399469	42399469	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaggcgtggggatgcccTctcgggaccggaatatcggg	7	6	19	9	4	1	0	0	0	1	0	3	4	1	4	2	7	1	0	2	7	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:42399469T>C	uc002orx.2	+	12	1034	c.925T>C	c.(925-927)TCT>CCT	p.S309P	ARHGEF1_uc002orw.1_Missense_Mutation_p.S309P|ARHGEF1_uc002ory.2_Missense_Mutation_p.S276P|ARHGEF1_uc002orz.2_Missense_Mutation_p.S147P|ARHGEF1_uc002osa.2_Missense_Mutation_p.S324P|ARHGEF1_uc002osb.2_Missense_Mutation_p.S291P|ARHGEF1_uc002osc.2_Missense_Mutation_p.S3P|ARHGEF1_uc002osd.2_5'Flank	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	309					cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		GGGGATGCCCTCTCGGGACCG	0.602													26	56					0	0	1	0	0		C	42399469	C	C	42399469	3	2	66	1	0	0	0	0	1	0	0	0	893	1551	54	3	1016	3	ARHGEF1	19	42399469	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	876800	42399469	16729514	1439	45515											
POU2F2	5452	broad.mit.edu	37	chr19	42600366	42600366	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgcgggtgcgagaggtgCgggtcgggcagcgtagggcg	4	5	24	8	6	0	1	0	0	0	1	1	2	0	1	0	6	4	3	0	6	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:42600366C>T	uc002osp.2	-	8	598	c.531G>A	c.(529-531)CCG>CCA	p.P177P	POU2F2_uc002osn.2_Intron|POU2F2_uc002oso.2_5'UTR|POU2F2_uc002osq.2_Intron|POU2F2_uc002osr.1_Silent_p.P177P	NM_002698	NP_002689	P09086	PO2F2_HUMAN	POU domain, class 2, transcription factor 2	177					humoral immune response|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2		Prostate(69;0.059)				GCGAGAGGTGCGGGTCGGGCA	0.687													4	7					0	0	1	0	0		T	42600366	T	T	42600366	2	4	66	1	0	0	0	0	0	0	0	1	12291	783	27	1		1	POU2F2	19	42600366	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	200897	42600366	16528617	1440	45516											
DEDD2	162989	broad.mit.edu	37	chr19	42713928	42713928	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggctggggcccctctccgCcgccgtctggcaccaccact	3	6	12	20	4	2	0	0	0	2	0	3	0	2	0	7	4	0	2	7	4	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:42713928C>T	uc002osu.1	-	4	581	c.513G>A	c.(511-513)CGG>CGA	p.R171R	DEDD2_uc002osv.1_RNA|DEDD2_uc002osw.1_Silent_p.R166R|DEDD2_uc002osx.1_Missense_Mutation_p.G55D|DEDD2_uc002osy.1_Silent_p.R171R|DEDD2_uc010eid.2_RNA	NM_133328	NP_579874	Q8WXF8	DEDD2_HUMAN	death effector domain-containing  DNA binding	171	Bipartite nuclear localization signal (Potential).				activation of pro-apoptotic gene products|apoptotic nuclear change|cellular homeostasis|induction of apoptosis via death domain receptors|intracellular signal transduction|negative regulation of transcription, DNA-dependent|RNA processing|rRNA catabolic process|transcription, DNA-dependent	nucleolus	DNA binding|receptor signaling complex scaffold activity				0		Prostate(69;0.0704)				CCCCTCTCCGCCGCCGTCTGG	0.662													13	35					0	0	1	0	0		T	42713928	T	T	42713928	2	4	66	1	0	0	0	0	0	0	0	1	4388	726	26	2		2	DEDD2	19	42713928	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	113562	42713928	16415055	1441	45517											
ERF	2077	broad.mit.edu	37	chr19	42753368	42753368	+	Frame_Shift_Del	DEL	C	-	-																															tgaaggagaagtgggagcctCcccctgagccgctgggcccc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:42753368delC	uc002ote.3	-	4	1054	c.896delG	c.(895-897)GGAfs	p.G299fs	ERF_uc002otd.3_Frame_Shift_Del_p.G30fs	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	299					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				GTGGGAGCCTCCCCCTGAGCC	0.677													16	14	---	---	---	---						.	-	42753368	-	-	42753368	7	5	66	1	0	1	0	1	0	0	0	0	5229	855	30	0	754	0	ERF	19	42753368	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	39440	42753368	16375615	1442	45518											
CIC	23152	broad.mit.edu	37	chr19	42796288	42796288	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacccagcggcctggtgccGcccctgagcccagccacact	7	4	10	20	2	0	1	0	1	0	0	0	1	0	1	7	2	4	0	7	2	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:42796288G>A	uc002otf.1	+	12	2977	c.2937G>A	c.(2935-2937)CCG>CCA	p.P979P		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	979	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				GCCTGGTGCCGCCCCTGAGCC	0.647			T	DUX4	soft tissue sarcoma								12	39					0	0	1	0	0		A	42796288	A	A	42796288	2	1	66	1	0	0	0	0	0	0	0	1	3427	1074	38	1		1	CIC	19	42796288	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	42920	42796288	16332695	1443	45519											
CEACAM8	1088	broad.mit.edu	37	chr19	43093693	43093693	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atagggtcctacgtcattccTtgtgacactgagtagagtga	10	12	11	8	1	1	4	1	3	0	1	3	4	3	4	2	1	1	1	2	1	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:43093693T>G	uc002oud.2	-	3	721	c.619A>C	c.(619-621)AGG>CGG	p.R207R	uc010eif.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron	NM_001816	NP_001807	P31997	CEAM8_HUMAN	carcinoembryonic antigen-related cell adhesion	207	Ig-like C2-type 1.				immune response	anchored to membrane|extracellular space|integral to plasma membrane				ovary(1)	1		Prostate(69;0.00899)				ACGTCATTCCTTGTGACACTG	0.512													54	142					0	0	1	0	0		G	43093693	G	G	43093693	2	3	66	1	0	0	0	0	0	0	0	1	3201	1608	56	5		5	CEACAM8	19	43093693	Silent	SNP	T	TCGA-BR-8361-01A-11D-2340-08	297405	43093693	16035290	1444	45520											
PSG2	5670	broad.mit.edu	37	chr19	43575989	43575989	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgattgctgaaacttcccaTtaattgtccaagaatactgt	12	14	6	9	0	0	3	0	2	0	1	2	3	2	3	2	0	3	1	2	0	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:43575989T>C	uc002ovr.2	-	4	920	c.827A>G	c.(826-828)AAT>AGT	p.N276S	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.N276S|PSG2_uc010eiq.1_Missense_Mutation_p.N276S|PSG2_uc002ovs.3_Missense_Mutation_p.N276S|PSG2_uc002ovt.3_Missense_Mutation_p.N276S	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	276	Ig-like C2-type 2.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				AAACTTCCCATTAATTGTCCA	0.443													19	270					0	0	1	0	0		C	43575989	C	C	43575989	3	2	66	1	0	0	0	0	1	0	0	0	12677	1493	52	3	188	3	PSG2	19	43575989	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	482296	43575989	15552994	1445	45521											
ZNF230	7773	broad.mit.edu	37	chr19	44515185	44515185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcatcagataattcacacaGgacagaaaccgtacaattgt	17	8	7	9	1	2	2	2	0	0	2	2	3	2	3	1	1	3	2	1	1	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:44515185G>A	uc002oyb.1	+	5	1245	c.994G>A	c.(994-996)GGA>AGA	p.G332R		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	332					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				AATTCACACAGGACAGAAACC	0.423													58	146					0	0	1	0	0		A	44515185	A	A	44515185	3	1	66	1	0	0	0	0	1	0	0	0	17809	1001	35	4	1008	4	ZNF230	19	44515185	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	939196	44515185	14613798	1446	45522											
ZNF230	7773	broad.mit.edu	37	chr19	44515438	44515438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcataagaaactccactgccGgaaaaaacccttcaaatgtg	16	8	6	11	1	2	1	2	0	0	1	3	2	3	2	3	1	3	0	3	1	6	2	rs149461366		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:44515438G>A	uc002oyb.1	+	5	1498	c.1247G>A	c.(1246-1248)CGG>CAG	p.R416Q		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	416					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				CTCCACTGCCGGAAAAAACCC	0.433													40	91					0	0	1	0	0		A	44515438	A	A	44515438	3	1	66	1	0	0	0	0	1	0	0	0	17809	1116	39	1	1261	1	ZNF230	19	44515438	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	253	44515438	14613545	1447	45523											
CEACAM20	125931	broad.mit.edu	37	chr19	45028150	45028150	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatccttggacagctgcAtgcgctcatggaacacaacg	10	8	10	13	2	1	0	1	0	0	0	2	2	2	2	2	2	6	3	2	2	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:45028150A>G	uc010ejn.1	-	3	357	c.341T>C	c.(340-342)ATG>ACG	p.M114T	CEACAM20_uc010ejo.1_Missense_Mutation_p.M114T|CEACAM20_uc010ejp.1_Missense_Mutation_p.M114T|CEACAM20_uc010ejq.1_Missense_Mutation_p.M114T	NM_001102597	NP_001096067	Q6UY09	CEA20_HUMAN	carcinoembryonic antigen-related cell adhesion	114	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane				large_intestine(2)	2		Prostate(69;0.0352)				GGACAGCTGCATGCGCTCATG	0.527													3	11					0	0	1	0	0		G	45028150	G	G	45028150	3	3	66	1	0	0	0	0	1	0	0	0	3194	217	8	3	1490	3	CEACAM20	19	45028150	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	512712	45028150	14100833	1448	45524											
PPP5C	5536	broad.mit.edu	37	chr19	46887108	46887108	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaacatattcgagctcaaCggtttaccctcggagaccaa	12	9	7	13	3	2	1	2	0	0	1	4	3	2	1	2	2	4	2	2	2	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:46887108C>T	uc002pem.2	+	6	831	c.771C>T	c.(769-771)AAC>AAT	p.N257N	PPP5C_uc010xya.1_Silent_p.N124N|PPP5C_uc002pen.2_Silent_p.N235N|PPP5C_uc010xyb.1_Silent_p.N115N	NM_006247	NP_006238	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	257	Catalytic.				mitosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein dephosphorylation|transcription, DNA-dependent	Golgi apparatus|nucleus	metal ion binding|protein binding|protein serine/threonine phosphatase activity|signal transducer activity			lung(1)|pancreas(1)	2		Ovarian(192;0.0731)|all_neural(266;0.196)		OV - Ovarian serous cystadenocarcinoma(262;0.000196)|all cancers(93;0.00192)|GBM - Glioblastoma multiforme(486;0.0499)|Epithelial(262;0.0504)		TCGAGCTCAACGGTTTACCCT	0.562													25	70					0	0	1	0	0		T	46887108	T	T	46887108	2	4	66	1	0	0	0	0	0	0	0	1	12428	535	19	1		1	PPP5C	19	46887108	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1858958	46887108	12241875	1449	45525											
PRKD2	25865	broad.mit.edu	37	chr19	47207633	47207633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggacggcgaggcaggagttCggtggtgctacggctctgtc	5	8	19	9	4	1	0	0	0	1	0	3	3	1	2	0	7	2	4	0	7	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:47207633C>T	uc002pfh.2	-	6	1024	c.682G>A	c.(682-684)GAA>AAA	p.E228K	PRKD2_uc002pfg.2_Missense_Mutation_p.E71K|PRKD2_uc002pfi.2_Missense_Mutation_p.E228K|PRKD2_uc002pfj.2_Missense_Mutation_p.E228K|PRKD2_uc010xye.1_Missense_Mutation_p.E228K|PRKD2_uc002pfk.2_Missense_Mutation_p.E71K	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	228					cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		GGCAGGAGTTCGGTGGTGCTA	0.622											OREG0025578	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	49					0	0	1	0	0		T	47207633	T	T	47207633	3	4	66	1	0	0	0	0	1	0	0	0	12541	893	31	1	2010	1	PRKD2	19	47207633	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	320525	47207633	11921350	1450	45526											
GLTSCR1	29998	broad.mit.edu	37	chr19	48185372	48185372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agctggcctcggccctcaggCccccgacagccaggcttccc	5	5	11	20	2	1	0	1	0	0	0	3	1	2	0	6	4	2	2	6	4	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:48185372C>T	uc002phh.3	+	7	2440	c.2246C>T	c.(2245-2247)GCC>GTC	p.A749V	GLTSCR1_uc002phi.3_Missense_Mutation_p.A507V	NM_015711	NP_056526	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	749							protein binding			pancreas(3)	3		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		GGCCCTCAGGCCCCCGACAGC	0.741													3	3					0	0	1	0	0		T	48185372	T	T	48185372	3	4	66	1	0	0	0	0	1	0	0	0	6489	739	26	2	2264	2	GLTSCR1	19	48185372	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	977739	48185372	10943611	1451	45527											
NUP62	23636	broad.mit.edu	37	chr19	50411973	50411973	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttctccattctcgatcagCgtgcggtcccaggcgttgac	5	13	10	13	4	3	1	1	1	2	0	6	2	4	1	2	2	2	1	2	2	0	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:50411973C>T	uc002pqx.2	-	2	1196	c.1092G>A	c.(1090-1092)ACG>ACA	p.T364T	IL4I1_uc002pqv.1_Intron|IL4I1_uc010eno.1_Intron|IL4I1_uc002pqw.1_Intron|IL4I1_uc002pqu.1_Intron|NUP62_uc002pqy.2_Silent_p.T364T|NUP62_uc002pqz.2_Silent_p.T364T|NUP62_uc002pra.2_Silent_p.T364T|NUP62_uc002prb.2_Silent_p.T364T|NUP62_uc002prc.2_Silent_p.T288T	NM_153719	NP_714941	P37198	NUP62_HUMAN	nucleoporin 62kDa	364	Potential.				carbohydrate metabolic process|cell death|cell surface receptor linked signaling pathway|glucose transport|hormone-mediated signaling pathway|mRNA transport|negative regulation of apoptosis|negative regulation of cell proliferation|nucleocytoplasmic transport|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|protein transport|regulation of glucose transport|transcription, DNA-dependent|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleocytoplasmic shuttling complex|ribonucleoprotein complex|spindle pole	chromatin binding|protein serine/threonine kinase activity|receptor signaling complex scaffold activity|SH2 domain binding|structural constituent of nuclear pore|thyroid hormone receptor binding|ubiquitin binding				0		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00242)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		TCTCGATCAGCGTGCGGTCCC	0.602													25	81					0	0	1	0	0		T	50411973	T	T	50411973	2	4	66	1	0	0	0	0	0	0	0	1	10787	755	27	1		1	NUP62	19	50411973	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2226601	50411973	8717010	1452	45528											
ATF5	22809	broad.mit.edu	37	chr19	50434211	50434211	+	Frame_Shift_Del	DEL	C	-	-																															gaaactccccccggcccctgCccccctggctccctatgagg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:50434211delC	uc010enq.1	+	3	671	c.104delC	c.(103-105)GCCfs	p.A35fs	IL4I1_uc002pqv.1_5'Flank|IL4I1_uc010eno.1_5'Flank|IL4I1_uc002pqw.1_5'Flank|IL4I1_uc002pqu.1_5'Flank|NUP62_uc002pqx.2_5'Flank|NUP62_uc002pqy.2_5'Flank|NUP62_uc002pqz.2_5'Flank|NUP62_uc002pra.2_5'Flank|NUP62_uc002prb.2_5'Flank|NUP62_uc002prc.2_5'Flank|ATF5_uc002prd.2_Frame_Shift_Del_p.A35fs	NM_012068	NP_036200	Q9Y2D1	ATF5_HUMAN	activating transcription factor 5	35					regulation of transcription from RNA polymerase II promoter	cytoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			skin(2)	2		all_lung(116;0.00318)|all_neural(266;0.107)|Ovarian(192;0.17)		GBM - Glioblastoma multiforme(134;0.00221)|OV - Ovarian serous cystadenocarcinoma(262;0.017)		CCGGCCCCTGCCCCCCTGGCT	0.692													4	4	---	---	---	---						.	-	50434211	-	-	50434211	7	5	66	1	0	1	0	1	0	0	0	0	1084	739	26	0	106	0	ATF5	19	50434211	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	22238	50434211	8694772	1453	45529											
ZNF473	25888	broad.mit.edu	37	chr19	50542498	50542498	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctggaacagggggacacGttctgggacacagcgttgga	9	6	18	8	2	1	0	0	0	1	0	1	4	1	4	0	6	2	3	0	6	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:50542498G>A	uc002prn.2	+	3	327	c.90G>A	c.(88-90)ACG>ACA	p.T30T	ZNF473_uc002prm.2_Silent_p.T30T|ZNF473_uc010ybo.1_Silent_p.T18T	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	30	KRAB.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		AGGGGGACACGTTCTGGGACA	0.572													27	76					0	0	1	0	0		A	50542498	A	A	50542498	2	1	66	1	0	0	0	0	0	0	0	1	17956	1132	40	1		1	ZNF473	19	50542498	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	108287	50542498	8586485	1454	45530											
MYH14	79784	broad.mit.edu	37	chr19	50812898	50812898	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctctcctccccacagaCgcggccccctcaccttcacc	5	8	6	22	2	3	1	2	0	1	1	6	1	5	1	7	2	0	0	7	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:50812898C>T	uc002prr.1	+	41	5886	c.5839C>T	c.(5839-5841)CGC>TGC	p.R1947C	MYH14_uc010enu.1_Missense_Mutation_p.R1988C|MYH14_uc002prq.1_Missense_Mutation_p.R1955C|MYH14_uc010ycb.1_Missense_Mutation_p.R298C|MYH14_uc002prs.1_Missense_Mutation_p.R298C	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1947	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		TCCCCACAGACGCGGCCCCCT	0.507													3	9					0	0	1	0	0		T	50812898	T	T	50812898	3	4	66	1	0	0	0	0	1	0	0	0	10051	550	19	1	6128	1	MYH14	19	50812898	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	270400	50812898	8316085	1455	45531											
PPP2R1A	5518	broad.mit.edu	37	chr19	52714705	52714705	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggcctcttctccgtctgcTacccccgagtgtccagtgct	3	11	10	17	3	3	0	0	0	3	0	5	1	4	0	5	1	3	2	5	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:52714705T>A	uc002pyp.2	+	4	622	c.463T>A	c.(463-465)TAC>AAC	p.Y155N	PPP2R1A_uc010ydk.1_Missense_Mutation_p.Y100N|PPP2R1A_uc010epm.1_Missense_Mutation_p.Y195N|PPP2R1A_uc002pyq.2_5'UTR	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	155	PP2A subunit B binding.|SV40 small T antigen binding.|HEAT 4.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		CTCCGTCTGCTACCCCCGAGT	0.622			Mis		clear cell ovarian carcinoma								36	64					0	0	1	0	0		A	52714705	A	A	52714705	3	1	66	1	0	0	0	0	1	0	0	0	12404	1522	53	5	477	5	PPP2R1A	19	52714705	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1901807	52714705	6414278	1456	45532											
BIRC8	112401	broad.mit.edu	37	chr19	53792958	53792958	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaaatcaataaccgcgcTgcacatgggacatctgtcaa	13	9	8	11	2	3	1	2	1	1	0	3	2	3	2	1	1	2	2	1	1	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:53792958T>C	uc002qbk.2	-	1	1918	c.670A>G	c.(670-672)AGC>GGC	p.S224G		NM_033341	NP_203127	Q96P09	BIRC8_HUMAN	baculoviral IAP repeat-containing 8	224	RING-type.				apoptosis		zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(134;0.00304)		ATAACCGCGCTGCACATGGGA	0.398													47	123					0	0	1	0	0		C	53792958	C	C	53792958	3	2	66	1	0	0	0	0	1	0	0	0	1441	1580	55	3	44	3	BIRC8	19	53792958	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1078253	53792958	5336025	1457	45533											
CACNG7	59284	broad.mit.edu	37	chr19	54444823	54444823	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagtattttcattatcgctAcgggtggtcttttgccttcg	5	17	10	9	3	2	0	1	0	1	0	4	0	2	0	1	2	2	3	1	2	3	8			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:54444823A>G	uc002qcr.1	+	4	539	c.524A>G	c.(523-525)TAC>TGC	p.Y175C	CACNG7_uc010era.1_Missense_Mutation_p.Y175C	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	175					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0711)		CATTATCGCTACGGGTGGTCT	0.537													32	83					0	0	1	0	0		G	54444823	G	G	54444823	3	3	66	1	0	0	0	0	1	0	0	0	2565	391	14	3	538	3	CACNG7	19	54444823	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	651865	54444823	4684160	1458	45534											
LILRB1	10859	broad.mit.edu	37	chr19	55143520	55143520	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggaaggagaagatgaacacCcacaatgcctgaactcccag	16	4	10	11	0	0	4	0	2	0	2	1	6	1	5	3	2	3	0	3	2	5	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:55143520C>A	uc002qgj.2	+	6	833	c.493C>A	c.(493-495)CCA>ACA	p.P165T	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Missense_Mutation_p.P165T|LILRB1_uc002qgk.2_Missense_Mutation_p.P165T|LILRB1_uc002qgm.2_Missense_Mutation_p.P165T|LILRB1_uc010erq.2_Missense_Mutation_p.P165T|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	165	Ig-like C2-type 2.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		AGATGAACACCCACAATGCCT	0.592										HNSCC(37;0.09)			32	100					7.11191e-15	7.59349e-15	1	1	0		A	55143520	A	A	55143520	3	1	66	1	0	0	0	0	1	0	0	0	8806	623	22	5	507	5	LILRB1	19	55143520	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	698697	55143520	3985463	1459	45535											
NLRP2	55655	broad.mit.edu	37	chr19	55495082	55495082	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcactgcgtctgaatcagaCgccgaggttgagaggtgaga	10	8	15	8	3	3	4	2	3	1	3	3	7	3	4	1	2	1	1	1	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:55495082C>T	uc002qij.2	+	6	2102	c.2016C>T	c.(2014-2016)GAC>GAT	p.D672D	NLRP2_uc010yfp.1_Silent_p.D649D|NLRP2_uc010esn.2_Silent_p.D648D|NLRP2_uc010eso.2_Silent_p.D669D|NLRP2_uc010esp.2_Silent_p.D650D	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	672					apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		CTGAATCAGACGCCGAGGTTG	0.507													19	44					0	0	1	0	0		T	55495082	T	T	55495082	2	4	66	1	0	0	0	0	0	0	0	1	10496	535	19	1		1	NLRP2	19	55495082	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	351562	55495082	3633901	1460	45536											
PPP1R12C	54776	broad.mit.edu	37	chr19	55614860	55614860	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgggcctctggcatggcGcccccattcagccagcacct	5	7	11	18	2	2	0	1	0	1	0	2	0	2	0	6	3	3	2	6	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:55614860G>A	uc002qix.2	-	4	664	c.648C>T	c.(646-648)GGC>GGT	p.G216G	PPP1R12C_uc010yfs.1_Silent_p.G142G|PPP1R12C_uc002qiy.2_Silent_p.G216G	NM_017607	NP_060077	Q9BZL4	PP12C_HUMAN	protein phosphatase 1, regulatory subunit 12C	216						cytoplasm				ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		CTGGCATGGCGCCCCCATTCA	0.622													12	31					0	0	1	0	0		A	55614860	A	A	55614860	2	1	66	1	0	0	0	0	0	0	0	1	12378	1074	38	1		1	PPP1R12C	19	55614860	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	119778	55614860	3514123	1461	45537											
SUV420H2	84787	broad.mit.edu	37	chr19	55858419	55858419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcagccccagccccgagtgCggccccggaagcgccgacgc	6	2	13	20	6	1	0	1	0	0	0	1	3	1	1	7	2	4	0	7	2	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:55858419C>T	uc002qkj.3	+	9	1239	c.991C>T	c.(991-993)CGG>TGG	p.R331W	SUV420H2_uc002qkl.2_Missense_Mutation_p.R216W	NM_032701	NP_116090	Q86Y97	SV422_HUMAN	suppressor of variegation 4-20 homolog 2	331					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding				0	Breast(117;0.191)		BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		GCCCCGAGTGCGGCCCCGGAA	0.771													9	14					0	0	1	0	0		T	55858419	T	T	55858419	3	4	66	1	0	0	0	0	1	0	0	0	15440	759	27	1	1021	1	SUV420H2	19	55858419	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	243559	55858419	3270564	1462	45538											
ZNF524	147807	broad.mit.edu	37	chr19	56114133	56114133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctccggcgccatgcgaagCgcaagcacccggaggccatg	8	3	14	16	6	0	0	0	0	0	0	1	2	1	1	4	3	3	3	4	3	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:56114133C>T	uc002qlk.1	+	2	738	c.655C>T	c.(655-657)CGC>TGC	p.R219C	FIZ1_uc002qlj.3_5'Flank	NM_153219	NP_694951	Q96C55	ZN524_HUMAN	zinc finger protein 524	219	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		CCATGCGAAGCGCAAGCACCC	0.706													4	14					0	0	1	0	0		T	56114133	T	T	56114133	3	4	66	1	0	0	0	0	1	0	0	0	17991	768	27	1	657	1	ZNF524	19	56114133	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	255714	56114133	3014850	1463	45539											
NLRP8	126205	broad.mit.edu	37	chr19	56467067	56467067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatagcgagtcccagaggaaGcaaaagctatctctctcaca	14	7	9	11	1	2	1	1	0	2	1	5	4	3	2	1	1	3	2	1	1	5	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:56467067G>A	uc002qmh.2	+	3	1714	c.1643G>A	c.(1642-1644)AGC>AAC	p.S548N	NLRP8_uc010etg.2_Missense_Mutation_p.S548N	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	548						cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		CCCAGAGGAAGCAAAAGCTAT	0.473													42	61					0	0	1	0	0		A	56467067	A	A	56467067	3	1	66	1	0	0	0	0	1	0	0	0	10502	971	34	2	1653	2	NLRP8	19	56467067	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	352934	56467067	2661916	1464	45540											
ZNF71	58491	broad.mit.edu	37	chr19	57132704	57132704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcggaagacaagctctccGttgttggggaggccacgggg	7	9	16	9	3	1	1	0	0	1	1	3	3	1	3	2	6	1	3	2	6	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:57132704G>A	uc002qnm.3	+	3	287	c.49G>A	c.(49-51)GTT>ATT	p.V17I		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	17						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		CAAGCTCTCCGTTGTTGGGGA	0.542													12	38					0	0	1	0	0		A	57132704	A	A	57132704	3	1	66	1	0	0	0	0	1	0	0	0	18139	1145	40	1	51	1	ZNF71	19	57132704	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	665637	57132704	1996279	1465	45541											
PEG3	5178	broad.mit.edu	37	chr19	57326026	57326026	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctaagcctggaatgatagCttcctcagccatctggctct	8	11	10	12	0	3	1	1	1	2	0	4	2	4	2	3	3	3	3	3	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:57326026C>A	uc002qnu.2	-	7	4135	c.3784G>T	c.(3784-3786)GCT>TCT	p.A1262S	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.A1233S|PEG3_uc002qnv.2_Missense_Mutation_p.A1262S|PEG3_uc002qnw.2_Missense_Mutation_p.A1138S|PEG3_uc002qnx.2_Missense_Mutation_p.A1136S|PEG3_uc010etr.2_Missense_Mutation_p.A1262S	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1262					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GGAATGATAGCTTCCTCAGCC	0.468													16	33					1.5739e-10	1.65447e-10	1	1	0		A	57326026	A	A	57326026	3	1	66	1	0	0	0	0	1	0	0	0	11739	797	28	5	986	5	PEG3	19	57326026	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	193322	57326026	1802957	1466	45542											
AURKC	6795	broad.mit.edu	37	chr19	57743478	57743478	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggaatgtgtacctggctcGgctcaaggaaagccatttca	10	10	12	9	1	2	0	2	0	0	0	3	2	2	2	2	4	2	3	2	4	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:57743478G>T	uc002qoe.2	+	3	371	c.182G>T	c.(181-183)CGG>CTG	p.R61L	AURKC_uc002qoc.2_Missense_Mutation_p.R42L|AURKC_uc002qod.2_Missense_Mutation_p.R27L|AURKC_uc010etv.2_Missense_Mutation_p.R58L	NM_001015878	NP_001015878	Q9UQB9	AURKC_HUMAN	aurora kinase C isoform 1	61	Protein kinase.				cell cycle|cytokinesis	condensed chromosome|cytoplasm|midbody|spindle midzone	ATP binding|protein serine/threonine kinase activity			lung(4)|ovary(2)	6		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0122)		TACCTGGCTCGGCTCAAGGAA	0.537													8	25					0.27861	0.278768	1	1	0		T	57743478	T	T	57743478	3	4	66	1	0	0	0	0	1	0	0	0	1225	1116	39	5	197	5	AURKC	19	57743478	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	417452	57743478	1385505	1467	45543											
ZNF460	10794	broad.mit.edu	37	chr19	57802746	57802746	+	Frame_Shift_Del	DEL	T	-	-																															gttcacagtggagagaagccTtttgtgtgcaatgaatgtgg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:57802746delT	uc002qog.2	+	3	1159	c.837delT	c.(835-837)CCTfs	p.P279fs	ZNF460_uc010ygv.1_Frame_Shift_Del_p.P238fs	NM_006635	NP_006626	Q14592	ZN460_HUMAN	zinc finger protein 460	279					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GAGAGAAGCCTTTTGTGTGCA	0.493													34	75	---	---	---	---						.	-	57802746	-	-	57802746	7	5	66	1	0	1	0	1	0	0	0	0	17949	1596	56	0	847	0	ZNF460	19	57802746	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	59268	57802746	1326237	1468	45544											
C19orf18	147685	broad.mit.edu	37	chr19	58485726	58485726	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatggagtccatctgcataCggcaagcataaatgaagttg	13	9	12	7	1	1	1	0	1	1	0	2	3	2	3	1	3	3	4	1	3	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr19:58485726C>T	uc002qqv.2	-	1	179	c.75G>A	c.(73-75)CCG>CCA	p.P25P		NM_152474	NP_689687	Q8NEA5	CS018_HUMAN	hypothetical protein LOC147685 precursor	25						integral to membrane				ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)		CATCTGCATACGGCAAGCATA	0.393													24	35					0	0	1	0	0		T	58485726	T	T	58485726	2	4	66	1	0	0	0	0	0	0	0	1	1913	523	19	1		1	C19orf18	19	58485726	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	682980	58485726	643257	1469	45545											
TGM6	343641	broad.mit.edu	37	chr20	2411645	2411645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctgatggtggagggcagcGgccttctccaggaacagctc	7	7	15	12	2	1	1	0	1	1	0	3	3	1	3	2	5	3	3	2	5	1	1	rs150652148	by1000genomes	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:2411645G>A	uc002wfy.1	+	12	2000	c.1939G>A	c.(1939-1941)GGC>AGC	p.G647S	TGM6_uc010gal.1_Intron	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	647					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	GGAGGGCAGCGGCCTTCTCCA	0.597													27	52					0	0	1	0	0		A	2411645	A	A	2411645	3	1	66	1	0	0	0	0	1	0	0	0	15859	1116	39	1	1985	1	TGM6	20	2411645	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08		2411645	60613875	1470	45546											
VPS16	64601	broad.mit.edu	37	chr20	2847077	2847077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcttgctcaaaccacagcGatgtggctcaggctgcagat	9	10	10	12	1	3	1	2	0	1	1	4	2	3	1	1	2	4	4	1	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:2847077G>A	uc002whe.2	+	24	2425	c.2377G>A	c.(2377-2379)GAT>AAT	p.D793N	VPS16_uc002whh.2_Intron|PTPRA_uc002whj.2_Intron|VPS16_uc002whf.2_Missense_Mutation_p.D649N|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_Missense_Mutation_p.D479N|VPS16_uc002whi.2_Missense_Mutation_p.D277N	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	793					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						AAACCACAGCGATGTGGCTCA	0.622													20	38					0	0	1	0	0		A	2847077	A	A	2847077	3	1	66	1	0	0	0	0	1	0	0	0	17219	1072	37	1	2471	1	VPS16	20	2847077	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	435432	2847077	60178443	1471	45547											
ProSAPiP1	9762	broad.mit.edu	37	chr20	3145148	3145150	+	In_Frame_Del	DEL	CTT	-	-																															aggcgggagggggtccaggcCttcttctcctcgccatgctg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:3145148_3145150delCTT	uc002wia.1	-	3	3370_3372	c.1972_1974delAAG	c.(1972-1974)AAGdel	p.K658del	ProSAPiP1_uc002wib.1_In_Frame_Del_p.K612del	NM_014731	NP_055546	O60299	PRIP1_HUMAN	ProSAPiP1 protein	658						cell junction|cytoplasm|postsynaptic density|postsynaptic membrane				pancreas(1)	1						GGGTCCAGGCCTTCTTCTCCTCG	0.64													27	46	---	---	---	---						.	-	3145150	-	-	3145148	7	5	66	1	0	1	0	1	0	0	0	0	12895	680	24	0	51	0	ProSAPiP1	20	3145148	In_Frame_Del	DEL	CTT	TCGA-BR-8361-01A-11D-2340-08	298071	3145148	59880372	1472	45548											
SLC4A11	83959	broad.mit.edu	37	chr20	3209805	3209805	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgaagaagagcatggacaGcaggaagccgaggcccatgg	14	3	16	8	1	0	3	0	1	0	2	0	7	0	5	2	4	3	2	2	4	3	0	rs143520364		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:3209805G>A	uc002wig.2	-	15	2050	c.2002C>T	c.(2002-2004)CTG>TTG	p.L668L	SLC4A11_uc010zqe.1_Silent_p.L695L|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Silent_p.L652L	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	668	Helical; (Potential).|Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						AGCATGGACAGCAGGAAGCCG	0.647													8	30					0	0	1	0	0		A	3209805	A	A	3209805	2	1	66	1	0	0	0	0	0	0	0	1	14677	962	34	2		2	SLC4A11	20	3209805	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	64657	3209805	59815715	1473	45549											
C20orf27	54976	broad.mit.edu	37	chr20	3739228	3739228	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggtgaccatgaccacCgagtcatgcagcttctcatc	8	10	9	14	1	2	2	2	2	1	0	5	3	3	2	4	1	2	2	4	1	0	1	rs138016250	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:3739228C>T	uc002wji.1	-	3	346	c.117G>A	c.(115-117)TCG>TCA	p.S39S	C20orf27_uc002wjf.1_Silent_p.S64S|C20orf27_uc002wjh.1_Silent_p.S64S	NM_001039140	NP_001034229	Q9GZN8	CT027_HUMAN	hypothetical protein LOC54976	39											0						CCATGACCACCGAGTCATGCA	0.587													15	41					0	0	1	0	0		T	3739228	T	T	3739228	2	4	66	1	0	0	0	0	0	0	0	1	2110	639	23	1		1	C20orf27	20	3739228	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	529423	3739228	59286292	1474	45550											
CDC25B	994	broad.mit.edu	37	chr20	3782935	3782935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcactttccagaaagcccGcgtcctccgctcaaaatcac	11	8	5	17	3	3	1	3	0	0	1	6	1	6	1	4	0	1	1	4	0	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:3782935G>A	uc002wjn.2	+	11	1884	c.1106G>A	c.(1105-1107)CGC>CAC	p.R369H	CDC25B_uc010zqk.1_Missense_Mutation_p.R305H|CDC25B_uc010zql.1_Missense_Mutation_p.R291H|CDC25B_uc010zqm.1_Missense_Mutation_p.R278H|CDC25B_uc002wjl.2_Missense_Mutation_p.R257H|CDC25B_uc002wjm.2_Missense_Mutation_p.R257H|CDC25B_uc002wjo.2_Missense_Mutation_p.R355H|CDC25B_uc002wjp.2_Missense_Mutation_p.R328H|CDC25B_uc002wjq.2_Missense_Mutation_p.R169H|CDC25B_uc010gbc.2_5'Flank	NM_021873	NP_068659	P30305	MPIP2_HUMAN	cell division cycle 25B isoform 1	369					cell division|G2/M transition of mitotic cell cycle|mitosis|positive regulation of cell proliferation	cytosol|microtubule organizing center|nucleoplasm	protein binding|protein tyrosine phosphatase activity			lung(3)|ovary(2)	5						CAGAAAGCCCGCGTCCTCCGC	0.587													7	32					0	0	1	0	0		A	3782935	A	A	3782935	3	1	66	1	0	0	0	0	1	0	0	0	3066	1087	38	1	1148	1	CDC25B	20	3782935	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	43707	3782935	59242585	1475	45551											
CHGB	1114	broad.mit.edu	37	chr20	5903119	5903119	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggagccccaggggaggAggacatccaaggcccaacaa	13	1	15	12	0	0	0	0	0	0	0	1	4	1	4	4	7	2	1	4	7	3	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:5903119A>G	uc002wmg.2	+	4	635	c.329A>G	c.(328-330)GAG>GGG	p.E110G	CHGB_uc010zqz.1_Intron	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	110						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						CCAGGGGAGGAGGACATCCAA	0.592													6	15					0	0	1	0	0		G	5903119	G	G	5903119	3	3	66	1	0	0	0	0	1	0	0	0	3342	304	11	3	343	3	CHGB	20	5903119	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2120184	5903119	57122401	1476	45552											
PLCB1	23236	broad.mit.edu	37	chr20	8639248	8639248	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattttatcaaccttaagcaGcgagatcctcggcttaatga	12	12	8	9	2	1	2	1	1	0	1	3	4	2	2	2	1	3	2	2	1	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:8639248G>A	uc002wnb.2	+	9	762	c.759G>A	c.(757-759)CAG>CAA	p.Q253Q	PLCB1_uc010zrb.1_Silent_p.Q152Q|PLCB1_uc002wna.2_Silent_p.Q253Q|PLCB1_uc002wnc.1_Silent_p.Q152Q	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	253					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						ACCTTAAGCAGCGAGATCCTC	0.368													36	80					0	0	1	0	0		A	8639248	A	A	8639248	2	1	66	1	0	0	0	0	0	0	0	1	12046	962	34	2		2	PLCB1	20	8639248	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2736129	8639248	54386272	1477	45553											
ESF1	51575	broad.mit.edu	37	chr20	13756530	13756530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaggttacctcatcagcacGaggagcatctttatctaatt	13	12	7	9	1	4	0	2	0	2	0	4	2	4	1	1	2	3	3	1	2	4	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:13756530G>A	uc002woj.2	-	3	1132	c.1024C>T	c.(1024-1026)CGT>TGT	p.R342C	ESF1_uc002wok.1_Missense_Mutation_p.R342C	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	342					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						TCATCAGCACGAGGAGCATCT	0.368													31	94					0	0	1	0	0		A	13756530	A	A	13756530	3	1	66	1	0	0	0	0	1	0	0	0	5259	1058	37	1	1579	1	ESF1	20	13756530	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5117282	13756530	49268990	1478	45554											
SEL1L2	80343	broad.mit.edu	37	chr20	13830886	13830886	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtagtttccagtttcatgAcggcaaagagcacaggtatg	11	10	12	8	2	1	2	1	1	0	1	2	2	2	2	1	2	1	6	1	2	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:13830886A>G	uc010gcf.2	-	19	1980	c.1898T>C	c.(1897-1899)GTC>GCC	p.V633A	SEL1L2_uc002woq.3_Missense_Mutation_p.V494A|SEL1L2_uc010zrl.1_Missense_Mutation_p.V520A|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	633	Extracellular (Potential).					integral to membrane	binding			ovary(2)	2						CAGTTTCATGACGGCAAAGAG	0.458													19	43					0	0	1	0	0		G	13830886	G	G	13830886	3	3	66	1	0	0	0	0	1	0	0	0	14036	275	10	3	176	3	SEL1L2	20	13830886	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	74356	13830886	49194634	1479	45555											
C20orf12	55184	broad.mit.edu	37	chr20	18396042	18396043	+	Frame_Shift_Ins	INS	-	C	C																															catctgtagcaggaaatggtINScccccctttctgagtgggcg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:18396042_18396043insC	uc010zsa.1	-	11	1271_1272	c.1062_1063insG	c.(1060-1065)GGGACCfs	p.G354fs	C20orf12_uc010zrz.1_5'Flank|C20orf12_uc002wqp.3_Intron|C20orf12_uc002wqr.3_RNA|C20orf12_uc002wqs.3_Frame_Shift_Ins_p.G221fs|C20orf12_uc002wqq.3_Frame_Shift_Ins_p.G335fs|C20orf12_uc002wqu.1_RNA|C20orf12_uc010gct.1_RNA	NM_001099407	NP_001092877	Q9NVP4	CT012_HUMAN	hypothetical protein LOC55184	162_163						intracellular	zinc ion binding			ovary(1)	1		Myeloproliferative disorder(85;0.0122)				CAGGAAATGGTCCCCCCTTTCT	0.5													12	24	---	---	---	---						.	C	18396043	C	C	18396042	7	5	66	1	0	1	1	0	0	0	0	0	2088	1667	58	0	1296	0	C20orf12	20	18396042	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	4565156	18396042	44629478	1480	45556											
C20orf160	140706	broad.mit.edu	37	chr20	30602726	30602726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggctttgtatcccccatccGaaggctggtgttccccaagg	6	10	12	13	1	0	0	0	0	0	0	3	1	3	0	5	4	0	4	5	4	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:30602726G>A	uc002wxf.2	+	2	63	c.50G>A	c.(49-51)CGA>CAA	p.R17Q		NM_080625	NP_542192	Q9NUG4	CT160_HUMAN	hypothetical protein LOC140706	17										central_nervous_system(3)|ovary(1)	4						TCCCCCATCCGAAGGCTGGTG	0.522													33	115					0	0	1	0	0		A	30602726	A	A	30602726	3	1	66	1	0	0	0	0	1	0	0	0	2096	1058	37	1	56	1	C20orf160	20	30602726	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	12206684	30602726	32422794	1481	45557											
KIF3B	9371	broad.mit.edu	37	chr20	30919102	30919102	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcagctttatccacagtctCgggggctggttccaaagtaa	9	11	10	11	1	2	0	1	0	1	0	5	0	4	0	2	3	1	4	2	3	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:30919102C>T	uc002wxq.2	+	9	2391	c.2224C>T	c.(2224-2226)CGG>TGG	p.R742W	KIF3B_uc010ztw.1_Missense_Mutation_p.R680W	NM_004798	NP_004789	O15066	KIF3B_HUMAN	kinesin family member 3B	742	Globular.				anterograde axon cargo transport|blood coagulation|determination of left/right symmetry|mitotic centrosome separation|plus-end-directed vesicle transport along microtubule|spindle assembly involved in mitosis	centrosome|cytosol|kinesin II complex|plus-end kinesin complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|Rho GTPase binding			central_nervous_system(3)|ovary(2)	5			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			TCCACAGTCTCGGGGGCTGGT	0.502													14	40					0	0	1	0	0		T	30919102	T	T	30919102	3	4	66	1	0	0	0	0	1	0	0	0	8317	875	31	1	2254	1	KIF3B	20	30919102	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	316376	30919102	32106418	1482	45558											
MAP1LC3A	84557	broad.mit.edu	37	chr20	33147545	33147545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgccggctgcaggcgccGcctgcagctgaaccccacgc	5	4	12	20	5	0	1	0	1	0	0	1	1	1	1	6	2	4	4	6	2	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:33147545G>A	uc002xaq.1	+	4	363	c.209G>A	c.(208-210)CGC>CAC	p.R70H	MAP1LC3A_uc002xap.1_Missense_Mutation_p.R74H	NM_032514	NP_115903	Q9H492	MLP3A_HUMAN	microtubule-associated protein 1 light chain 3	70					autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|cytosol|endomembrane system|microtubule	phosphatidylethanolamine binding|protein binding				0						TGCAGGCGCCGCCTGCAGCTG	0.627													22	57					0	0	1	0	0		A	33147545	A	A	33147545	3	1	66	1	0	0	0	0	1	0	0	0	9248	1087	38	1	279	1	MAP1LC3A	20	33147545	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2228443	33147545	29877975	1483	45559											
MYH7B	57644	broad.mit.edu	37	chr20	33567228	33567228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgcctgatgaacaggacGcctacgtggaggccgaggtc	8	6	17	10	3	0	2	0	2	0	0	1	5	0	4	3	5	3	0	3	5	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:33567228G>A	uc010gfa.1	+	3	248	c.127G>A	c.(127-129)GCC>ACC	p.A43T	MYH7B_uc002xbi.1_Missense_Mutation_p.A85T			A7E2Y1	MYH7B_HUMAN	RecName: Full=Myosin-7B; AltName: Full=Myosin heavy chain 7B, cardiac muscle beta isoform; AltName: Full=Myosin cardiac muscle beta chain; AltName: Full=Antigen MLAA-21; AltName: Full=Slow A MYH14;	43						membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			TGAACAGGACGCCTACGTGGA	0.602													7	18					0	0	1	0	0		A	33567228	A	A	33567228	3	1	66	1	0	0	0	0	1	0	0	0	10058	1087	38	1	267	1	MYH7B	20	33567228	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	419683	33567228	29458292	1484	45560											
MYH7B	57644	broad.mit.edu	37	chr20	33582020	33582020	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactggtcatggatgaagcTctttttcaagatgaagccgc	11	11	11	8	1	3	3	2	2	1	1	3	5	3	4	1	2	3	1	1	2	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:33582020T>A	uc002xbi.1	+	25	2734	c.2642T>A	c.(2641-2643)CTC>CAC	p.L881H		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	839						membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			TGGATGAAGCTCTTTTTCAAG	0.632													44	96					0	0	1	0	0		A	33582020	A	A	33582020	3	1	66	1	0	0	0	0	1	0	0	0	10058	1551	54	5	2740	5	MYH7B	20	33582020	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	14792	33582020	29443500	1485	45561											
TRPC4AP	26133	broad.mit.edu	37	chr20	33632505	33632505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattggggacttcatctagtCggatcatttcctacagaaga	11	12	10	8	1	3	2	2	0	1	2	5	5	4	4	1	3	1	0	1	3	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:33632505C>T	uc002xbk.2	-	7	702	c.668G>A	c.(667-669)CGA>CAA	p.R223Q	TRPC4AP_uc002xbl.2_Missense_Mutation_p.R223Q|TRPC4AP_uc010zur.1_Missense_Mutation_p.R184Q|TRPC4AP_uc002xbm.1_Missense_Mutation_p.R223Q	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	223	Interaction with TNFRSF1A (By similarity).				protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			TTCATCTAGTCGGATCATTTC	0.438													25	54					0	0	1	0	0		T	33632505	T	T	33632505	3	4	66	1	0	0	0	0	1	0	0	0	16607	884	31	1	1777	1	TRPC4AP	20	33632505	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	50485	33632505	29393015	1486	45562											
ERGIC3	51614	broad.mit.edu	37	chr20	34136287	34136287	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaacacctgtgaagatgtgCgggaggcatatcgccgtaga	11	8	14	8	3	0	3	0	1	0	2	1	4	0	4	2	2	2	3	2	2	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:34136287C>T	uc002xct.2	+	6	556	c.487C>T	c.(487-489)CGG>TGG	p.R163W	ERGIC3_uc002xcr.1_Missense_Mutation_p.R163W|ERGIC3_uc010zvg.1_Missense_Mutation_p.R163W|ERGIC3_uc002xcs.2_Missense_Mutation_p.R163W|ERGIC3_uc002xcu.2_Missense_Mutation_p.R163W|ERGIC3_uc002xcv.2_Missense_Mutation_p.R126W	NM_015966	NP_057050	Q9Y282	ERGI3_HUMAN	serologically defined breast cancer antigen 84	163	Lumenal (Potential).				vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane	protein binding			large_intestine(2)|ovary(1)	3	Lung NSC(9;0.00489)|all_lung(11;0.00729)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			TGAAGATGTGCGGGAGGCATA	0.552													12	27					0	0	1	0	0		T	34136287	T	T	34136287	3	4	66	1	0	0	0	0	1	0	0	0	5233	759	27	1	509	1	ERGIC3	20	34136287	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	503782	34136287	28889233	1487	45563											
CPNE1	8904	broad.mit.edu	37	chr20	34218842	34218842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtcatagtcctgaaccaCgctgcccacactccacagtg	10	7	8	16	2	1	1	1	1	0	0	3	2	3	1	4	0	2	1	4	0	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:34218842C>T	uc002xdf.2	-	13	1339	c.976G>A	c.(976-978)GTG>ATG	p.V326M	CPNE1_uc002xdc.2_Translation_Start_Site|CPNE1_uc010zvj.1_Missense_Mutation_p.V331M|CPNE1_uc002xde.2_Missense_Mutation_p.V302M|CPNE1_uc002xdg.2_Missense_Mutation_p.V326M|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Missense_Mutation_p.V326M|CPNE1_uc002xdi.2_Missense_Mutation_p.V326M|CPNE1_uc002xdj.2_Missense_Mutation_p.V326M|CPNE1_uc002xdk.2_Missense_Mutation_p.V326M|CPNE1_uc002xdl.2_Missense_Mutation_p.V326M|CPNE1_uc002xdm.2_Missense_Mutation_p.V326M|CPNE1_uc010gfk.1_3'UTR	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	326	VWFA.				lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			TCCTGAACCACGCTGCCCACA	0.562													30	59					0	0	1	0	0		T	34218842	T	T	34218842	3	4	66	1	0	0	0	0	1	0	0	0	3814	536	19	1	661	1	CPNE1	20	34218842	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	82555	34218842	28806678	1488	45564											
RBM12	10137	broad.mit.edu	37	chr20	34240845	34240845	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccaaaccccgggggaccGcctaagctaccagggccatt	9	6	10	16	2	0	0	0	0	0	0	1	1	1	1	7	3	3	1	7	3	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:34240845G>A	uc002xdq.2	-	3	2632	c.2400C>T	c.(2398-2400)GGC>GGT	p.G800G	CPNE1_uc010zvj.1_Intron|CPNE1_uc002xde.2_Intron|CPNE1_uc002xdf.2_Intron|CPNE1_uc002xdg.2_Intron|CPNE1_uc010gfi.2_Intron|CPNE1_uc010gfj.2_Intron|CPNE1_uc002xdh.2_Intron|CPNE1_uc002xdi.2_Intron|CPNE1_uc002xdj.2_Intron|CPNE1_uc002xdk.2_Intron|CPNE1_uc002xdl.2_Intron|CPNE1_uc002xdm.2_Intron|CPNE1_uc010gfk.1_Intron|CPNE1_uc002xdn.1_Intron|CPNE1_uc002xdo.1_Intron|CPNE1_uc002xdp.1_Intron|RBM12_uc002xdr.2_Silent_p.G800G|RBM12_uc002xds.2_Silent_p.G800G	NM_152838	NP_690051	Q9NTZ6	RBM12_HUMAN	RNA binding motif protein 12	800	Gly-rich.|Pro-rich.					nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			CCGGGGGACCGCCTAAGCTAC	0.517													17	39					0	0	1	0	0		A	34240845	A	A	34240845	2	1	66	1	0	0	0	0	0	0	0	1	13138	1074	38	1		1	RBM12	20	34240845	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	22003	34240845	28784675	1489	45565											
KIAA0406	9675	broad.mit.edu	37	chr20	36627620	36627620	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagcactgccaggggggcGtcccgtgtgagtcggtgaac	7	7	16	11	3	0	2	0	2	0	0	2	2	1	2	2	4	3	1	2	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:36627620G>A	uc002xhl.2	-	6	2972	c.2763C>T	c.(2761-2763)GAC>GAT	p.D921D	KIAA0406_uc002xhm.2_Silent_p.D921D	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	921							binding				0		Myeloproliferative disorder(115;0.00874)				CCAGGGGGGCGTCCCGTGTGA	0.587													15	38					0	0	1	0	0		A	36627620	A	A	36627620	2	1	66	1	0	0	0	0	0	0	0	1	8189	1136	40	1		1	KIAA0406	20	36627620	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2386775	36627620	26397900	1490	45566											
ACTR5	79913	broad.mit.edu	37	chr20	37383681	37383681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attttccagcaagctcctggGcagcactctgacctctgagg	8	10	10	13	0	2	2	0	2	2	0	4	2	4	2	3	2	3	4	3	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:37383681G>A	uc002xjd.2	+	4	882	c.857G>A	c.(856-858)GGC>GAC	p.G286D		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	286					DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)				AAGCTCCTGGGCAGCACTCTG	0.517													24	57					0	0	1	0	0		A	37383681	A	A	37383681	3	1	66	1	0	0	0	0	1	0	0	0	215	1203	42	2	871	2	ACTR5	20	37383681	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	756061	37383681	25641839	1491	45567											
CHD6	84181	broad.mit.edu	37	chr20	40118601	40118601	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcagaaatatttctgaaagGaatgtgatggactggatggt	13	12	12	4	0	2	3	1	2	1	1	2	6	2	6	0	4	0	0	0	4	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:40118601G>T	uc002xka.1	-	12	1675	c.1497C>A	c.(1495-1497)TTC>TTA	p.F499L	CHD6_uc002xkd.2_Missense_Mutation_p.F477L	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	499	Helicase ATP-binding.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TTTCTGAAAGGAATGTGATGG	0.443													42	83					3.05275e-18	3.28929e-18	1	1	0		T	40118601	T	T	40118601	3	4	66	1	0	0	0	0	1	0	0	0	3332	1165	41	5	6754	5	CHD6	20	40118601	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2734920	40118601	22906919	1492	45568											
PTPRT	11122	broad.mit.edu	37	chr20	40980850	40980850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggtgggtttcattccGgagcttgaacactttccccc	6	12	12	11	1	1	1	1	1	0	0	3	3	3	2	3	4	2	2	3	4	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:40980850G>A	uc002xkg.2	-	10	1820	c.1636C>T	c.(1636-1638)CGG>TGG	p.R546W	PTPRT_uc010ggj.2_Missense_Mutation_p.R546W	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	546	Extracellular (Potential).|Fibronectin type-III 3.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GTTTCATTCCGGAGCTTGAAC	0.562													23	58					0	0	1	0	0		A	40980850	A	A	40980850	3	1	66	1	0	0	0	0	1	0	0	0	12837	1115	39	1	2838	1	PTPRT	20	40980850	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	862249	40980850	22044670	1493	45569											
FITM2	128486	broad.mit.edu	37	chr20	42935750	42935750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgcagatgtaccagatggCcgtgcccacaagcagggtgc	9	6	15	11	1	0	2	0	0	0	2	0	2	0	2	3	3	5	3	3	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:42935750C>T	uc002xlr.1	-	2	405	c.304G>A	c.(304-306)GCC>ACC	p.A102T		NM_001080472	NP_001073941	Q8N6M3	FITM2_HUMAN	fat storage-inducing transmembrane protein 2	102	Helical; (Potential).				cellular triglyceride homeostasis|lipid particle organization|positive regulation of sequestering of triglyceride|regulation of triglyceride biosynthetic process	integral to endoplasmic reticulum membrane				skin(2)	2						TACCAGATGGCCGTGCCCACA	0.592													10	26					0	0	1	0	0		T	42935750	T	T	42935750	3	4	66	1	0	0	0	0	1	0	0	0	5913	739	26	2	488	2	FITM2	20	42935750	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1954900	42935750	20089770	1494	45570											
MATN4	8785	broad.mit.edu	37	chr20	43933214	43933214	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccaggtcgcggatggcGcgctccatgtcctcgcggcg	4	6	16	15	7	0	0	0	0	0	0	4	1	2	1	3	5	0	2	3	5	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:43933214G>A	uc002xnn.2	-	3	484	c.297C>T	c.(295-297)CGC>CGT	p.R99R	MATN4_uc002xno.2_Silent_p.R99R|MATN4_uc002xnp.2_Silent_p.R99R|MATN4_uc010zwr.1_Silent_p.R47R|MATN4_uc002xnr.1_Silent_p.R99R|RBPJL_uc002xns.2_5'Flank|RBPJL_uc002xnt.2_5'Flank	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	99	VWFA 1.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				CGCGGATGGCGCGCTCCATGT	0.657													7	17					0	0	1	0	0		A	43933214	A	A	43933214	2	1	66	1	0	0	0	0	0	0	0	1	9354	1074	38	1		1	MATN4	20	43933214	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	997464	43933214	19092306	1495	45571											
ACOT8	10005	broad.mit.edu	37	chr20	44483882	44483882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaccagggcctggcccaCgatctgaccaccaaacagcc	11	3	9	18	1	1	1	0	1	1	0	1	2	1	1	7	2	3	0	7	2	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:44483882C>T	uc002xqa.1	-	2	259	c.178G>A	c.(178-180)GTG>ATG	p.V60M	ACOT8_uc010zxe.1_Missense_Mutation_p.V60M|ACOT8_uc002xqc.1_Intron|ACOT8_uc010zxf.1_Intron|ZSWIM3_uc002xqd.2_5'Flank|ZSWIM3_uc010zxg.1_5'Flank	NM_005469	NP_005460	O14734	ACOT8_HUMAN	peroxisomal acyl-CoA thioesterase 1 isoform a	60					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|interspecies interaction between organisms|peroxisome organization	peroxisomal matrix	acetyl-CoA hydrolase activity|acyl-CoA thioesterase activity|carboxylesterase activity|choloyl-CoA hydrolase activity|protein binding			skin(1)	1		Myeloproliferative disorder(115;0.0122)				GCCTGGCCCACGATCTGACCA	0.577													20	65					0	0	1	0	0		T	44483882	T	T	44483882	3	4	66	1	0	0	0	0	1	0	0	0	156	536	19	1	801	1	ACOT8	20	44483882	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	550668	44483882	18541638	1496	45572											
NCOA3	8202	broad.mit.edu	37	chr20	46276031	46276031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctccaaggaatgcacccacGagccaacatcatgagacccc	13	5	7	16	1	2	1	1	1	1	1	3	4	2	2	5	1	3	1	5	1	3	0	rs146235035		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:46276031G>A	uc002xtk.2	+	18	3672	c.3467G>A	c.(3466-3468)CGA>CAA	p.R1156Q	NCOA3_uc010ght.1_Missense_Mutation_p.R1151Q|NCOA3_uc002xtl.2_Missense_Mutation_p.R1156Q|NCOA3_uc002xtm.2_Missense_Mutation_p.R1156Q|NCOA3_uc002xtn.2_Missense_Mutation_p.R1156Q|NCOA3_uc010zyc.1_Missense_Mutation_p.R951Q	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	1156	Acetyltransferase.				androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						ATGCACCCACGAGCCAACATC	0.493													22	55					0	0	1	0	0		A	46276031	A	A	46276031	3	1	66	1	0	0	0	0	1	0	0	0	10249	1058	37	1	3559	1	NCOA3	20	46276031	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1792149	46276031	16749489	1497	45573											
ARFGEF2	10564	broad.mit.edu	37	chr20	47628620	47628620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atacgtctctgagaggcctcGggttcgtttttccccacctt	5	14	9	13	3	1	1	0	1	1	1	5	2	2	1	4	2	1	2	4	2	1	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:47628620G>A	uc002xtx.3	+	28	4069	c.3917G>A	c.(3916-3918)CGG>CAG	p.R1306Q	ARFGEF2_uc010zyf.1_Missense_Mutation_p.R599Q	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1306					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			GAGAGGCCTCGGGTTCGTTTT	0.507													14	47					0	0	1	0	0		A	47628620	A	A	47628620	3	1	66	1	0	0	0	0	1	0	0	0	853	1130	39	1	4027	1	ARFGEF2	20	47628620	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1352589	47628620	15396900	1498	45574											
KCNB1	3745	broad.mit.edu	37	chr20	47991448	47991448	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggactggccgaactcatcgaGgctctgtagctcaggcagcg	8	7	14	12	3	3	0	2	0	1	0	4	3	3	1	1	4	3	4	1	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:47991448G>C	uc002xur.1	-	2	813	c.649C>G	c.(649-651)CTC>GTC	p.L217V	KCNB1_uc002xus.1_Missense_Mutation_p.L217V	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	217					energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			AACTCATCGAGGCTCTGTAGC	0.567													5	42					0	0	1	0	0		C	47991448	C	C	47991448	3	2	66	1	0	0	0	0	1	0	0	0	8028	1000	35	5	1931	5	KCNB1	20	47991448	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	362828	47991448	15034072	1499	45575											
TMEM189-UBE2V1	387522	broad.mit.edu	37	chr20	48744613	48744613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgcaggagggtgacccagCgtggcagcccaaagtacgtg	9	5	15	12	2	0	1	0	1	0	0	0	2	0	2	3	3	4	3	3	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:48744613C>T	uc002xvf.2	-	5	751	c.590G>A	c.(589-591)CGC>CAC	p.R197H	TMEM189_uc010zyq.1_RNA|TMEM189_uc002xvg.2_Missense_Mutation_p.R197H|TMEM189_uc010gif.2_Missense_Mutation_p.R194H|TMEM189_uc010zyp.1_Missense_Mutation_p.R122H	NM_199203	NP_954673	Q13404	UB2V1_HUMAN	TMEM189-UBE2V1 readthrough transcript	Error:Variant_position_missing_in_Q13404_after_alignment					cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein K63-linked ubiquitination|regulation of DNA repair|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus|UBC13-UEV1A complex|ubiquitin ligase complex	acid-amino acid ligase activity|protein binding				0			BRCA - Breast invasive adenocarcinoma(9;8.29e-07)			GGTGACCCAGCGTGGCAGCCC	0.572													18	32					0	0	1	0	0		T	48744613	T	T	48744613	3	4	66	1	0	0	0	0	1	0	0	0	16137	768	27	1	538	1	TMEM189-UBE2V1	20	48744613	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	753165	48744613	14280907	1500	45576											
NFATC2	4773	broad.mit.edu	37	chr20	50092134	50092134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgtgcggcttaaggatccGctcatcagctgtcccaatga	8	9	12	12	3	2	1	2	1	0	0	4	2	4	2	2	3	2	3	2	3	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:50092134G>A	uc002xwd.2	-	4	1616	c.1396C>T	c.(1396-1398)CGG>TGG	p.R466W	NFATC2_uc002xwc.2_Missense_Mutation_p.R466W|NFATC2_uc010zyv.1_Missense_Mutation_p.R247W|NFATC2_uc010zyw.1_Missense_Mutation_p.R247W|NFATC2_uc010zyx.1_Missense_Mutation_p.R446W|NFATC2_uc010zyy.1_Missense_Mutation_p.R247W|NFATC2_uc010zyz.1_Missense_Mutation_p.R247W|NFATC2_uc002xwe.2_Missense_Mutation_p.R446W	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	466	RHD.				B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					TTAAGGATCCGCTCATCAGCT	0.522													21	54					0	0	1	0	0		A	50092134	A	A	50092134	3	1	66	1	0	0	0	0	1	0	0	0	10381	1086	38	1	1457	1	NFATC2	20	50092134	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1347521	50092134	12933386	1501	45577											
ZFP64	55734	broad.mit.edu	37	chr20	50701174	50701174	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgagctgtcccgaggcaccGctttccggtgggaaggtgac	6	8	15	12	3	0	2	0	2	0	0	2	4	2	3	3	4	1	3	3	4	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:50701174G>A	uc002xwk.2	-	9	2209	c.1860C>T	c.(1858-1860)AGC>AGT	p.S620S	ZFP64_uc002xwj.2_Silent_p.S401S	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CCGAGGCACCGCTTTCCGGTG	0.597													13	15					0	0	1	0	0		A	50701174	A	A	50701174	2	1	66	1	0	0	0	0	0	0	0	1	17677	1078	38	1		1	ZFP64	20	50701174	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	609040	50701174	12324346	1502	45578											
ZFP64	55734	broad.mit.edu	37	chr20	50705172	50705172	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacagaactcacacttgtgCggtttgtctccttcaaacac	10	12	6	13	1	4	1	3	0	1	1	5	1	4	1	1	1	3	1	1	1	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:50705172C>T	uc002xwk.2	-	8	1336	c.987G>A	c.(985-987)CCG>CCA	p.P329P	ZFP64_uc002xwj.2_Silent_p.P110P	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	286					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CACACTTGTGCGGTTTGTCTC	0.478													25	44					0	0	1	0	0		T	50705172	T	T	50705172	2	4	66	1	0	0	0	0	0	0	0	1	17677	755	27	1		1	ZFP64	20	50705172	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3998	50705172	12320348	1503	45579											
ZNF217	7764	broad.mit.edu	37	chr20	52198731	52198731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcagattttgtaaggagagGagatgctctcggccgcgtgc	8	10	15	8	3	1	3	0	0	1	3	2	5	1	3	1	3	3	3	1	3	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:52198731G>A	uc002xwq.3	-	1	906	c.635C>T	c.(634-636)TCC>TTC	p.S212F	ZNF217_uc010gij.1_Missense_Mutation_p.S204F	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	212					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			GTAAGGAGAGGAGATGCTCTC	0.498													57	123					0	0	1	0	0		A	52198731	A	A	52198731	3	1	66	1	0	0	0	0	1	0	0	0	17797	1174	41	4	2527	4	ZNF217	20	52198731	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1493559	52198731	10826789	1504	45580											
CDH4	1002	broad.mit.edu	37	chr20	60419875	60419875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgggaggagcacgcctcttAccacgtgagtgtccacaccc	8	6	11	16	3	1	1	0	1	1	0	2	3	2	3	5	2	2	1	5	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:60419875A>G	uc002ybn.1	+	5	742	c.728A>G	c.(727-729)TAC>TGC	p.Y243C	CDH4_uc002ybp.1_Missense_Mutation_p.Y169C	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	243	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			CACGCCTCTTACCACGTGAGT	0.677													8	17					0	0	1	0	0		G	60419875	G	G	60419875	3	3	66	1	0	0	0	0	1	0	0	0	3115	391	14	3	746	3	CDH4	20	60419875	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	8221144	60419875	2605645	1505	45581											
GTPBP5	26164	broad.mit.edu	37	chr20	60773703	60773703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaggtccccgtgggcaCgctggtgaaggagggaggca	7	5	17	12	2	0	1	0	1	0	0	2	3	2	3	4	6	0	3	4	6	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:60773703C>T	uc002yce.3	+	5	520	c.482C>T	c.(481-483)ACG>ATG	p.T161M	GTPBP5_uc011aab.1_Translation_Start_Site|GTPBP5_uc011aac.1_Translation_Start_Site|GTPBP5_uc011aad.1_Translation_Start_Site|GTPBP5_uc011aae.1_Translation_Start_Site|GTPBP5_uc011aaf.1_Intron|GTPBP5_uc011aag.1_Missense_Mutation_p.T161M	NM_015666	NP_056481	Q9H4K7	GTPB5_HUMAN	GTP binding protein 5	161	Localized in the mitocondria.|Not localized in the mitocondria.				ribosome biogenesis	mitochondrion	GTP binding|GTPase activity|magnesium ion binding				0	Breast(26;3.52e-09)		BRCA - Breast invasive adenocarcinoma(19;2.5e-08)			CCCGTGGGCACGCTGGTGAAG	0.612													6	14					0	0	1	0	0		T	60773703	T	T	60773703	3	4	66	1	0	0	0	0	1	0	0	0	6899	536	19	1	496	1	GTPBP5	20	60773703	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	353828	60773703	2251817	1506	45582											
TCFL5	10732	broad.mit.edu	37	chr20	61488942	61488942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacatttgtgtccaactgaCgcattctactccgattcctc	8	14	5	14	2	1	1	0	1	1	0	5	2	4	1	3	0	3	1	3	0	3	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:61488942C>T	uc002ydp.2	-	4	1136	c.1043G>A	c.(1042-1044)CGT>CAT	p.R348H	TCFL5_uc002ydo.2_Missense_Mutation_p.R121H|TCFL5_uc002ydq.2_Missense_Mutation_p.R347H	NM_006602	NP_006593	Q9UL49	TCFL5_HUMAN	transcription factor-like 5 protein	348	R3 epitope (recognized by Chagas's antibodies).				cell differentiation|multicellular organismal development|regulation of cell differentiation|regulation of cell proliferation|spermatogenesis|transcription from RNA polymerase II promoter		DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)	1	Breast(26;5.68e-08)					GTCCAACTGACGCATTCTACT	0.468													37	51					0	0	1	0	0		T	61488942	T	T	61488942	3	4	66	1	0	0	0	0	1	0	0	0	15724	536	19	1	471	1	TCFL5	20	61488942	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	715239	61488942	1536578	1507	45583											
DIDO1	11083	broad.mit.edu	37	chr20	61512859	61512859	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgctcctcgatctgtttGttcagctcttctagcatctt	4	19	6	12	1	6	0	1	0	5	0	8	1	7	0	1	0	3	5	1	0	1	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:61512859G>A	uc002ydr.1	-	16	4713	c.4449C>T	c.(4447-4449)AAC>AAT	p.N1483N	DIDO1_uc002yds.1_Silent_p.N1483N	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1483					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CGATCTGTTTGTTCAGCTCTT	0.627													31	77					0	0	1	0	0		A	61512859	A	A	61512859	2	1	66	1	0	0	0	0	0	0	0	1	4528	1368	48	4		4	DIDO1	20	61512859	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	23917	61512859	1512661	1508	45584											
RTEL1	51750	broad.mit.edu	37	chr20	62292794	62292794	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcaaggagagcttttcccGgatcgggccttgtcatcctg	6	10	13	12	3	1	1	1	0	0	1	4	3	3	2	3	3	1	2	3	3	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr20:62292794G>A	uc002yfu.1	+	3	589	c.246G>A	c.(244-246)CCG>CCA	p.P82P	RTEL1_uc011abc.1_RNA|RTEL1_uc002yft.1_Silent_p.P82P|RTEL1_uc011abd.1_Silent_p.P82P|RTEL1_uc002yfv.2_Silent_p.P82P|RTEL1_uc011abe.1_5'UTR|RTEL1_uc002yfw.2_RNA	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1	82	Helicase ATP-binding.				DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)			AGCTTTTCCCGGATCGGGCCT	0.647													8	26					0	0	1	0	0		A	62292794	A	A	62292794	2	1	66	1	0	0	0	0	0	0	0	1	13745	1103	39	1		1	RTEL1	20	62292794	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	779935	62292794	732726	1509	45585											
SAMSN1	64092	broad.mit.edu	37	chr21	15893518	15893518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaattattccgaaaacgatCgaaattcccaaaactgctgc	16	9	6	10	3	0	1	0	0	0	1	3	4	2	1	2	0	4	1	2	0	7	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr21:15893518C>T	uc002yju.1	-	2	164	c.82G>A	c.(82-84)GAT>AAT	p.D28N	SAMSN1_uc010gky.1_Intron|SAMSN1_uc002yjv.1_Missense_Mutation_p.D96N	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	28					negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		CGAAAACGATCGAAATTCCCA	0.289													8	6					0	0	1	0	0		T	15893518	T	T	15893518	3	4	66	1	0	0	0	0	1	0	0	0	13855	884	31	1	1067	1	SAMSN1	21	15893518	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08		15893518	32236377	1510	45586											
NCAM2	4685	broad.mit.edu	37	chr21	22370891	22370891	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcctgaacatgagcctcCtcctctccttctacctgctg	6	12	6	17	1	2	2	0	2	2	0	6	2	5	2	6	0	4	1	6	0	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr21:22370891C>A	uc002yld.1	+	1	259	c.10C>A	c.(10-12)CTC>ATC	p.L4I	NCAM2_uc011acb.1_Missense_Mutation_p.L4I	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	4					neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		CATGAGCCTCCTCCTCTCCTT	0.562													9	13					2.17888e-05	2.22293e-05	1	1	0		A	22370891	A	A	22370891	3	1	66	1	0	0	0	0	1	0	0	0	10222	681	24	5	12	5	NCAM2	21	22370891	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	6477373	22370891	25759004	1511	45587											
NCAM2	4685	broad.mit.edu	37	chr21	22804504	22804504	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggtttccttcaacaaaccGgactcccatggaggtgtacc	11	9	9	12	1	1	0	1	0	0	0	3	2	3	2	4	4	3	2	4	4	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr21:22804504G>A	uc002yld.1	+	12	1806	c.1557G>A	c.(1555-1557)CCG>CCA	p.P519P	NCAM2_uc011acb.1_Silent_p.P377P	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	519	Fibronectin type-III 1.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TCAACAAACCGGACTCCCATG	0.458													11	20					0	0	1	0	0		A	22804504	A	A	22804504	2	1	66	1	0	0	0	0	0	0	0	1	10222	1103	39	1		1	NCAM2	21	22804504	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	433613	22804504	25325391	1512	45588											
ADAMTS5	11096	broad.mit.edu	37	chr21	28296395	28296395	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatttcttcaacaagcattGcttaaacgcagaaggccttt	13	12	6	10	1	2	1	1	0	1	1	2	1	2	1	1	1	4	3	1	1	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr21:28296395G>A	uc002ymg.2	-	8	3499	c.2770C>T	c.(2770-2772)CAA>TAA	p.Q924*		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	924	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						AACAAGCATTGCTTAAACGCA	0.483													21	21					0	0	1	0	0		A	28296395	A	A	28296395	4	1	66	1	0	0	0	0	0	1	0	0	269	1328	46	2	26	2	ADAMTS5	21	28296395	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5491891	28296395	19833500	1513	45589											
SON	6651	broad.mit.edu	37	chr21	34922887	34922887	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaccagtgccacagttgtcGcaggaattgccagggcttcc	9	8	11	13	1	0	0	0	0	0	0	2	1	1	1	4	2	2	3	4	2	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr21:34922887G>A	uc002yse.1	+	3	1399	c.1350G>A	c.(1348-1350)TCG>TCA	p.S450S	SON_uc002ysb.1_Silent_p.S450S|SON_uc002ysc.2_Silent_p.S450S|SON_uc002ysd.2_5'UTR|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	450					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						CACAGTTGTCGCAGGAATTGC	0.632													14	11					0	0	1	0	0		A	34922887	A	A	34922887	2	1	66	1	0	0	0	0	0	0	0	1	14951	1074	38	1		1	SON	21	34922887	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	6626492	34922887	13207008	1514	45590											
CBR1	873	broad.mit.edu	37	chr21	37444855	37444855	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cactgaggaggagctggtggGgctcatgaacaagtttgtgg	9	9	17	6	0	1	2	1	2	0	0	1	4	1	4	0	6	2	3	0	6	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr21:37444855G>T	uc002yvb.1	+	3	638	c.509G>T	c.(508-510)GGG>GTG	p.G170V	uc011aea.1_Intron|SETD4_uc002yva.2_Intron|CBR1_uc010gmy.1_3'UTR	NM_001757	NP_001748	P16152	CBR1_HUMAN	carbonyl reductase 1	170					drug metabolic process|vitamin K metabolic process	cytoplasm	15-hydroxyprostaglandin dehydrogenase (NADP+) activity|carbonyl reductase (NADPH) activity|prostaglandin-E2 9-reductase activity|protein binding				0					Acetohexamide(DB00414)|Lubiprostone(DB01046)	GAGCTGGTGGGGCTCATGAAC	0.557													21	27					2.37509e-13	2.52523e-13	1	1	0		T	37444855	T	T	37444855	3	4	66	1	0	0	0	0	1	0	0	0	2711	1232	43	5	519	5	CBR1	21	37444855	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2521968	37444855	10685040	1515	45591											
RIPK4	54101	broad.mit.edu	37	chr21	43166800	43166800	+	Frame_Shift_Del	DEL	C	-	-																															ggtgggcctaactcgcggatCcccctgccagcaccgctgca																								rs149032082	by1000genomes	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr21:43166800delC	uc002yzn.1	-	5	853	c.805delG	c.(805-807)GATfs	p.D269fs		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	269						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						ACTCGCGGATCCCCCTGCCAG	0.687													11	17	---	---	---	---						.	-	43166800	-	-	43166800	7	5	66	1	0	1	0	1	0	0	0	0	13408	855	30	0	1565	0	RIPK4	21	43166800	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	5721945	43166800	4963095	1516	45592											
RRP1B	23076	broad.mit.edu	37	chr21	45107700	45107700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acggaagaagagcccgagggCccacagggaaatgttggaat	14	4	15	8	2	0	2	0	0	0	2	0	6	0	5	2	4	1	1	2	4	4	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr21:45107700C>T	uc002zdk.2	+	13	1559	c.1445C>T	c.(1444-1446)GCC>GTC	p.A482V	RRP1B_uc002zdl.2_Missense_Mutation_p.A15V	NM_015056	NP_055871	Q14684	RRP1B_HUMAN	ribosomal RNA processing 1 homolog B	482					rRNA processing	cytosol|nucleolus|preribosome, small subunit precursor	protein binding			skin(1)	1				STAD - Stomach adenocarcinoma(101;0.178)		AGCCCGAGGGCCCACAGGGAA	0.612													15	46					0	0	1	0	0		T	45107700	T	T	45107700	3	4	66	1	0	0	0	0	1	0	0	0	13713	739	26	2	1495	2	RRP1B	21	45107700	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1940900	45107700	3022195	1517	45593											
TRPM2	7226	broad.mit.edu	37	chr21	45810858	45810858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactggcagtggcatggaatCgcgtggacattgcccgcagt	9	8	14	10	3	0	0	0	0	0	0	1	2	0	2	1	4	2	3	1	4	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr21:45810858C>T	uc002zet.1	+	11	1603	c.1390C>T	c.(1390-1392)CGC>TGC	p.R464C	TRPM2_uc002zeu.1_Missense_Mutation_p.R464C|TRPM2_uc002zew.1_Missense_Mutation_p.R464C|TRPM2_uc010gpt.1_Missense_Mutation_p.R464C|TRPM2_uc002zex.1_Missense_Mutation_p.R250C|TRPM2_uc002zey.1_5'Flank	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	464	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GGCATGGAATCGCGTGGACAT	0.577													29	54					0	0	1	0	0		T	45810858	T	T	45810858	3	4	66	1	0	0	0	0	1	0	0	0	16612	884	31	1	1428	1	TRPM2	21	45810858	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	703158	45810858	2319037	1518	45594											
COL6A2	1292	broad.mit.edu	37	chr21	47545966	47545966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgacctcaacttgcgggCgctgtgcgaccgcgacgtca	7	7	13	14	7	2	1	2	1	0	0	2	4	2	1	2	1	3	1	2	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr21:47545966C>T	uc002zia.1	+	26	2319	c.2237C>T	c.(2236-2238)GCG>GTG	p.A746V	COL6A2_uc002zhy.1_Missense_Mutation_p.A746V|COL6A2_uc002zhz.1_Missense_Mutation_p.A746V|COL6A2_uc002zib.1_Missense_Mutation_p.A152V|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	746	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		AACTTGCGGGCGCTGTGCGAC	0.627													43	68					0	0	1	0	0		T	47545966	T	T	47545966	3	4	66	1	0	0	0	0	1	0	0	0	3703	768	27	1	2335	1	COL6A2	21	47545966	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1735108	47545966	583929	1519	45595											
COL6A2	1292	broad.mit.edu	37	chr21	47552362	47552362	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtggacatggacgtgctcAccacgctcagcctgggtgac	8	7	13	13	3	2	1	2	1	0	0	2	3	2	3	2	3	2	2	2	3	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr21:47552362A>G	uc002zia.1	+	28	3038	c.2956A>G	c.(2956-2958)ACC>GCC	p.T986A	COL6A2_uc002zib.1_Missense_Mutation_p.T392A|COL6A2_uc002zic.1_Silent_p.S60S|COL6A2_uc010gqe.1_RNA	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	986	Nonhelical region.|VWFA 3.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GGACGTGCTCACCACGCTCAG	0.647													8	19					0	0	1	0	0		G	47552362	G	G	47552362	3	3	66	1	0	0	0	0	1	0	0	0	3703	159	6	3	3392	3	COL6A2	21	47552362	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	6396	47552362	577533	1520	45596											
PCNT	5116	broad.mit.edu	37	chr21	47860946	47860946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacggaaaatcacatctcGtcctttcaccaggttccgca	12	9	7	13	3	3	1	2	0	1	1	6	2	5	2	3	2	1	2	3	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr21:47860946G>A	uc002zji.3	+	43	9679	c.9572G>A	c.(9571-9573)CGT>CAT	p.R3191H	PCNT_uc002zjj.2_Missense_Mutation_p.R2994H	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	3191	Interaction with NEK2.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					ATCACATCTCGTCCTTTCACC	0.493													17	64					0	0	1	0	0		A	47860946	A	A	47860946	3	1	66	1	0	0	0	0	1	0	0	0	11609	1145	40	1	9742	1	PCNT	21	47860946	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	308584	47860946	268949	1521	45597											
CCT8L2	150160	broad.mit.edu	37	chr22	17072083	17072083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctaagcctgcattctctGccaaagttttaggaagatac	12	11	8	10	0	1	1	0	0	1	1	2	2	1	2	2	1	5	3	2	1	5	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:17072083G>A	uc002zlp.1	-	1	1618	c.1358C>T	c.(1357-1359)GCA>GTA	p.A453V		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	453					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				TGCATTCTCTGCCAAAGTTTT	0.493													23	75					0	0	1	0	0		A	17072083	A	A	17072083	3	1	66	1	0	0	0	0	1	0	0	0	2964	1319	46	2	319	2	CCT8L2	22	17072083	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08		17072083	34232483	1522	45598											
SLC25A18	83733	broad.mit.edu	37	chr22	18069980	18069980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggcttccacccacaggcGcccctctgccaccctcattg	5	9	7	20	2	2	0	1	0	1	0	4	0	3	0	6	2	1	1	6	2	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:18069980G>A	uc002zmp.1	+	8	982	c.488G>A	c.(487-489)CGC>CAC	p.R163H	SLC25A18_uc010gqx.2_Missense_Mutation_p.R163H|SLC25A18_uc002zmq.1_Missense_Mutation_p.R163H	NM_031481	NP_113669	Q9H1K4	GHC2_HUMAN	solute carrier	163	Solcar 2.					integral to membrane|mitochondrial inner membrane	binding|symporter activity				0				Lung(27;0.124)	L-Glutamic Acid(DB00142)	ACCCACAGGCGCCCCTCTGCC	0.637													29	63					0	0	1	0	0		A	18069980	A	A	18069980	3	1	66	1	0	0	0	0	1	0	0	0	14505	1087	38	1	510	1	SLC25A18	22	18069980	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	997897	18069980	33234586	1523	45599											
ATP6V1E1	529	broad.mit.edu	37	chr22	18082820	18082820	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagggaaatcttgtttcctGcaacgaacaatcattcgggg	12	10	11	8	2	2	1	1	0	1	1	4	3	3	2	1	3	3	2	1	3	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:18082820G>A	uc002zmr.1	-	6	595	c.408C>T	c.(406-408)TGC>TGT	p.C136C	ATP6V1E1_uc002zms.1_Silent_p.C106C|ATP6V1E1_uc002zmt.1_Silent_p.C114C	NM_001696	NP_001687	P36543	VATE1_HUMAN	vacuolar H+ ATPase E1 isoform a	136					cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	apical plasma membrane|cytosol|endosome|proton-transporting two-sector ATPase complex, catalytic domain	protein binding|proton-transporting ATPase activity, rotational mechanism			large_intestine(1)|central_nervous_system(1)	2		all_epithelial(15;0.206)		Lung(27;0.19)		CTTGTTTCCTGCAACGAACAA	0.269													19	39					0	0	1	0	0		A	18082820	A	A	18082820	2	1	66	1	0	0	0	0	0	0	0	1	1184	1311	46	2		2	ATP6V1E1	22	18082820	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	12840	18082820	33221746	1524	45600											
DGCR2	9993	broad.mit.edu	37	chr22	19028754	19028754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgaggcccgtgccaaaccCgtctgggccgtaatcaaagc	9	6	12	14	4	2	1	1	1	1	0	2	1	2	1	4	2	3	1	4	2	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:19028754C>T	uc002zoq.1	-	9	1461	c.1213G>A	c.(1213-1215)GGG>AGG	p.G405R	DGCR2_uc002zor.1_Missense_Mutation_p.G181R|DGCR2_uc011agr.1_Missense_Mutation_p.G361R	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	405	Cytoplasmic (Potential).				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					GTGCCAAACCCGTCTGGGCCG	0.587													14	33					0	0	1	0	0		T	19028754	T	T	19028754	3	4	66	1	0	0	0	0	1	0	0	0	4467	652	23	1	447	1	DGCR2	22	19028754	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	945934	19028754	32275812	1525	45601											
VPREB1	7441	broad.mit.edu	37	chr22	22599386	22599386	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagccggtgctgcatcaGccgccggccatgtcctcggc	4	7	12	18	4	2	0	2	0	0	0	4	0	3	0	6	3	4	2	6	3	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:22599386G>A	uc002zvx.1	+	2	101	c.75G>A	c.(73-75)CAG>CAA	p.Q25Q	LOC96610_uc011aim.1_Intron	NM_007128	NP_009059	P12018	VPREB_HUMAN	immunoglobulin iota chain precursor	25	Framework-1.|Ig-like V-type.				immune response	extracellular region	antigen binding|protein binding				0	all_hematologic(9;0.0312)|Acute lymphoblastic leukemia(84;0.155)	all_cancers(3;3.14e-14)|Acute lymphoblastic leukemia(3;2.97e-57)|all_hematologic(3;5.9e-52)		READ - Rectum adenocarcinoma(21;0.145)		TGCTGCATCAGCCGCCGGCCA	0.617													15	39					0	0	1	0	0		A	22599386	A	A	22599386	2	1	66	1	0	0	0	0	0	0	0	1	17212	962	34	2		2	VPREB1	22	22599386	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3570632	22599386	28705180	1526	45602											
BCR	613	broad.mit.edu	37	chr22	23615883	23615883	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgcaggacgccctccgCatctcacagaacttcctgtc	7	10	8	16	2	1	1	1	0	1	1	5	2	3	2	3	1	3	3	3	1	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:23615883C>T	uc002zww.2	+	8	2633	c.2037C>T	c.(2035-2037)CGC>CGT	p.R679R	BCR_uc002zwx.2_Silent_p.R679R|BCR_uc011aiy.1_Silent_p.R268R|BCR_uc010gtx.1_Silent_p.R146R	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	679	DH.				regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						ACGCCCTCCGCATCTCACAGA	0.582			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								14	58					0	0	1	0	0		T	23615883	T	T	23615883	2	4	66	1	0	0	0	0	0	0	0	1	1389	697	25	2		2	BCR	22	23615883	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1016497	23615883	27688683	1527	45603											
SUSD2	56241	broad.mit.edu	37	chr22	24583691	24583691	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcacaagaggcagccaaaCtatgtggggacgatcatttc	12	8	12	9	1	1	1	1	0	0	1	2	3	1	2	1	4	2	2	1	4	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:24583691C>T	uc002zzn.1	+	12	2088	c.2044C>T	c.(2044-2046)CTA>TTA	p.L682L		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	682	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GGCAGCCAAACTATGTGGGGA	0.617													40	36					0	0	1	0	0		T	24583691	T	T	24583691	2	4	66	1	0	0	0	0	0	0	0	1	15433	564	20	4		4	SUSD2	22	24583691	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	967808	24583691	26720875	1528	45604											
MYO18B	84700	broad.mit.edu	37	chr22	26286756	26286756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctgaccttgccgatgagCgcttcaaaggtgatgtggcc	7	10	12	12	2	2	3	1	3	1	0	2	4	2	3	4	2	2	1	4	2	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:26286756C>T	uc003abz.1	+	26	4598	c.4348C>T	c.(4348-4350)CGC>TGC	p.R1450C	MYO18B_uc003aca.1_Missense_Mutation_p.R1331C|MYO18B_uc010guy.1_Missense_Mutation_p.R1332C|MYO18B_uc010guz.1_Missense_Mutation_p.R1331C|MYO18B_uc011aka.1_Missense_Mutation_p.R604C|MYO18B_uc011akb.1_Missense_Mutation_p.R963C	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1450	Potential.|Tail.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TGCCGATGAGCGCTTCAAAGG	0.597													8	27					0	0	1	0	0		T	26286756	T	T	26286756	3	4	66	1	0	0	0	0	1	0	0	0	10084	768	27	1	4446	1	MYO18B	22	26286756	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1703065	26286756	25017810	1529	45605											
MYO18B	84700	broad.mit.edu	37	chr22	26423244	26423244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaagcctcgactacgaacGcaagaccaaagtggacttcg	13	5	9	14	4	0	1	0	0	0	1	2	4	0	2	3	1	3	1	3	1	5	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:26423244G>A	uc003abz.1	+	43	7554	c.7304G>A	c.(7303-7305)CGC>CAC	p.R2435H	MYO18B_uc003aca.1_Missense_Mutation_p.R2316H|MYO18B_uc010guy.1_Missense_Mutation_p.R2317H|MYO18B_uc010guz.1_Missense_Mutation_p.R2315H|MYO18B_uc011aka.1_Missense_Mutation_p.R1589H|MYO18B_uc011akb.1_Missense_Mutation_p.R1948H|MYO18B_uc010gva.1_Missense_Mutation_p.R418H|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2435						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GACTACGAACGCAAGACCAAA	0.562													30	55					0	0	1	0	0		A	26423244	A	A	26423244	3	1	66	1	0	0	0	0	1	0	0	0	10084	1087	38	1	7470	1	MYO18B	22	26423244	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	136488	26423244	24881322	1530	45606											
MYO18B	84700	broad.mit.edu	37	chr22	26423522	26423522	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgacagcatcaaaagtcgaCcaggaatcccacgacttgcg	13	6	9	13	3	1	1	1	1	0	0	3	4	2	2	2	1	2	1	2	1	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:26423522C>G	uc003abz.1	+	43	7832	c.7582C>G	c.(7582-7584)CCA>GCA	p.P2528A	MYO18B_uc003aca.1_Missense_Mutation_p.P2409A|MYO18B_uc010guy.1_Missense_Mutation_p.P2410A|MYO18B_uc010guz.1_Missense_Mutation_p.P2408A|MYO18B_uc011aka.1_Missense_Mutation_p.P1682A|MYO18B_uc011akb.1_Missense_Mutation_p.P2041A|MYO18B_uc010gva.1_Missense_Mutation_p.P511A|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2528						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CAAAAGTCGACCAGGAATCCC	0.607													7	18					0	0	1	0	0		G	26423522	G	G	26423522	3	3	66	1	0	0	0	0	1	0	0	0	10084	507	18	5	7748	5	MYO18B	22	26423522	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	278	26423522	24881044	1531	45607											
TFIP11	24144	broad.mit.edu	37	chr22	26902876	26902876	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgatgaagttgactggCgcagagtagtcacgggccct	8	8	15	10	3	1	4	1	3	0	1	1	4	1	4	1	2	0	4	1	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:26902876C>T	uc003acr.2	-	4	602	c.228G>A	c.(226-228)GCG>GCA	p.A76A	TFIP11_uc003acs.2_Silent_p.A76A|TFIP11_uc003act.2_Silent_p.A76A	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	76					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						AGTTGACTGGCGCAGAGTAGT	0.527													16	32					0	0	1	0	0		T	26902876	T	T	26902876	2	4	66	1	0	0	0	0	0	0	0	1	15832	755	27	1		1	TFIP11	22	26902876	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	479354	26902876	24401690	1532	45608											
AP1B1	162	broad.mit.edu	37	chr22	29750665	29750665	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacgatgagattgatgttGcgcagggccacatactgcag	10	9	13	9	2	0	2	0	2	0	1	0	4	0	2	1	1	4	4	1	1	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:29750665G>A	uc003afj.2	-	7	1096	c.912C>T	c.(910-912)CGC>CGT	p.R304R	AP1B1_uc003afi.2_Silent_p.R304R|AP1B1_uc003afk.2_Silent_p.R304R|AP1B1_uc003afl.2_Silent_p.R304R	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	304					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						GATTGATGTTGCGCAGGGCCA	0.587													10	44					0	0	1	0	0		A	29750665	A	A	29750665	2	1	66	1	0	0	0	0	0	0	0	1	731	1306	46	2		2	AP1B1	22	29750665	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2847789	29750665	21553901	1533	45609											
ASCC2	84164	broad.mit.edu	37	chr22	30210714	30210714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggtgtggtattggcccCgtccccttgcaaaccacagt	6	10	12	13	1	0	0	0	0	0	0	1	0	1	0	5	4	2	2	5	4	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:30210714C>T	uc003agr.2	-	7	757	c.652G>A	c.(652-654)GGG>AGG	p.G218R	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Missense_Mutation_p.G218R|ASCC2_uc011akr.1_Missense_Mutation_p.G142R	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	218					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			GTATTGGCCCCGTCCCCTTGC	0.567													17	26					0	0	1	0	0		T	30210714	T	T	30210714	3	4	66	1	0	0	0	0	1	0	0	0	1033	652	23	1	1677	1	ASCC2	22	30210714	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	460049	30210714	21093852	1534	45610											
OSM	5008	broad.mit.edu	37	chr22	30660085	30660085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttgcgctgaaaagcatcCgaggcaggggtgggggtggg	8	6	20	7	2	0	1	0	1	0	0	1	2	1	1	1	6	3	4	1	6	2	1	rs115512471	by1000genomes	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:30660085C>T	uc003ahb.2	-	3	598	c.546G>A	c.(544-546)TCG>TCA	p.S182S		NM_020530	NP_065391	P13725	ONCM_HUMAN	oncostatin M precursor	182					cell proliferation|immune response|negative regulation of cell proliferation|negative regulation of hormone secretion|positive regulation of cell division|positive regulation of cell proliferation|positive regulation of MAPKKK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of transcription from RNA polymerase II promoter|regulation of growth	extracellular space|oncostatin-M receptor complex	cytokine activity|growth factor activity|oncostatin-M receptor binding			skin(1)	1			Epithelial(10;0.206)			GAAAAGCATCCGAGGCAGGGG	0.652													9	18					0	0	1	0	0		T	30660085	T	T	30660085	2	4	66	1	0	0	0	0	0	0	0	1	11310	639	23	1		1	OSM	22	30660085	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	449371	30660085	20644481	1535	45611											
PLA2G3	50487	broad.mit.edu	37	chr22	31535952	31535952	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgccctgctgctcgcttcTtcctggcccctgctggactc	1	13	9	18	1	2	0	0	0	2	0	5	1	3	1	4	2	4	4	4	2	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:31535952T>A	uc003aka.2	-	1	518	c.389A>T	c.(388-390)AAG>ATG	p.K130M		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	130					cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						TGCTCGCTTCTTCCTGGCCCC	0.627													4	34					0	0	1	0	0		A	31535952	A	A	31535952	3	1	66	1	0	0	0	0	1	0	0	0	12019	1609	56	5	1168	5	PLA2G3	22	31535952	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	875867	31535952	19768614	1536	45612											
PATZ1	23598	broad.mit.edu	37	chr22	31731813	31731813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgacaggccaggtgggagcGcagacggtctcgggtggcaa	9	5	18	9	3	1	2	0	1	1	1	2	3	1	3	1	6	1	2	1	6	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:31731813G>A	uc003akq.2	-	3	2033	c.1372C>T	c.(1372-1374)CGC>TGC	p.R458C	PATZ1_uc003akp.2_Missense_Mutation_p.R458C|PATZ1_uc003akr.2_Missense_Mutation_p.R458C	NM_014323	NP_055138	Q9HBE1	PATZ1_HUMAN	POZ (BTB) and AT hook containing zinc finger 1	458	C2H2-type 5.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/PATZ1(2)	soft_tissue(2)	2						AGGTGGGAGCGCAGACGGTCT	0.562													18	31					0	0	1	0	0		A	31731813	A	A	31731813	3	1	66	1	0	0	0	0	1	0	0	0	11495	1087	38	1	703	1	PATZ1	22	31731813	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	195861	31731813	19572753	1537	45613											
SFI1	9814	broad.mit.edu	37	chr22	31957338	31957338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtgagccgtgccctccatgCctctgctttgaagcacaggg	6	10	12	13	1	1	2	0	2	1	0	2	2	2	2	4	1	5	2	4	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:31957338C>T	uc003ale.2	+	8	1118	c.725C>T	c.(724-726)GCC>GTC	p.A242V	SFI1_uc003ald.1_Missense_Mutation_p.A218V|SFI1_uc003alf.2_Missense_Mutation_p.A242V|SFI1_uc003alg.2_Missense_Mutation_p.A160V|SFI1_uc011alp.1_Missense_Mutation_p.A160V|SFI1_uc011alq.1_Missense_Mutation_p.A218V|SFI1_uc003alh.2_RNA	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	242					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						GCCCTCCATGCCTCTGCTTTG	0.567											OREG0026480	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	15					0	0	1	0	0		T	31957338	T	T	31957338	3	4	66	1	0	0	0	0	1	0	0	0	14181	739	26	2	751	2	SFI1	22	31957338	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	225525	31957338	19347228	1538	45614											
SFI1	9814	broad.mit.edu	37	chr22	32011096	32011096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagccccctccctgacgcGgcccttcctggcagaggccc	5	5	11	20	2	0	2	0	1	0	1	2	2	2	2	6	3	2	2	6	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:32011096G>A	uc003ale.2	+	29	3524	c.3131G>A	c.(3130-3132)CGG>CAG	p.R1044Q	SFI1_uc003alf.2_Missense_Mutation_p.R1013Q|SFI1_uc003alg.2_Missense_Mutation_p.R962Q|SFI1_uc011alp.1_Missense_Mutation_p.R950Q|SFI1_uc011alq.1_Missense_Mutation_p.R989Q|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_RNA|SFI1_uc003ali.2_Missense_Mutation_p.R136Q|SFI1_uc003alj.2_Missense_Mutation_p.R178Q	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	1044					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						TCCCTGACGCGGCCCTTCCTG	0.697													13	14					0	0	1	0	0		A	32011096	A	A	32011096	3	1	66	1	0	0	0	0	1	0	0	0	14181	1116	39	1	3241	1	SFI1	22	32011096	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	53758	32011096	19293470	1539	45615											
PISD	23761	broad.mit.edu	37	chr22	32015742	32015742	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcccttacgcatggggacGccctctctattggtgtgcgt	4	12	12	13	4	1	0	0	0	1	0	3	1	1	1	2	3	2	1	2	3	2	3	rs137875167	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:32015742G>A	uc003alm.3	-	8	1093	c.1086C>T	c.(1084-1086)GGC>GGT	p.G362G	PISD_uc003alk.2_Silent_p.G328G|PISD_uc003all.2_3'UTR|PISD_uc011alr.1_Silent_p.G327G|PISD_uc003aln.3_Silent_p.G324G	NM_014338	NP_055153	Q9UG56	PISD_HUMAN	phosphatidylserine decarboxylase	362					phospholipid biosynthetic process	mitochondrion	phosphatidylserine decarboxylase activity			central_nervous_system(2)|ovary(1)	3					Phosphatidylserine(DB00144)	GCATGGGGACGCCCTCTCTAT	0.577													13	27					0	0	1	0	0		A	32015742	A	A	32015742	2	1	66	1	0	0	0	0	0	0	0	1	11965	1074	38	1		1	PISD	22	32015742	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4646	32015742	19288824	1540	45616											
DEPDC5	9681	broad.mit.edu	37	chr22	32302481	32302481	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcatgccagtgccccgTgaggccaggctgcacctgtg	7	7	14	13	1	0	2	0	1	0	1	0	2	0	2	5	2	4	3	5	2	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:32302481T>C	uc003als.2	+	42	4859	c.4717T>C	c.(4717-4719)TGA>CGA	p.*1573R	DEPDC5_uc011als.1_Nonstop_Mutation_p.*1504R|DEPDC5_uc011alu.1_Nonstop_Mutation_p.*1604R|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Nonstop_Mutation_p.*1595R|DEPDC5_uc003alu.2_Nonstop_Mutation_p.*1022R|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Nonstop_Mutation_p.*871R|DEPDC5_uc011alx.1_Nonstop_Mutation_p.*421R|DEPDC5_uc010gwk.2_3'UTR|DEPDC5_uc011aly.1_Nonstop_Mutation_p.*421R	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1573					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						CAGTGCCCCGTGAGGCCAGGC	0.617													42	97					0	0	1	0	0		C	32302481	C	C	32302481	4	2	66	1	0	0	0	0	0	0	0	0	4448	1709	59	3	4967	3	DEPDC5	22	32302481	Nonstop_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	286739	32302481	19002085	1541	45617											
LARGE	9215	broad.mit.edu	37	chr22	33712138	33712138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcaggctcatactcgtagtGcaggaagtacaggtgggtgc	9	9	15	8	1	1	0	1	0	0	0	2	1	1	1	0	4	5	5	0	4	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:33712138G>A	uc003and.3	-	12	1963	c.1384C>T	c.(1384-1386)CAC>TAC	p.H462Y	LARGE_uc011amd.1_Missense_Mutation_p.H261Y|LARGE_uc003ane.3_Missense_Mutation_p.H462Y|LARGE_uc010gwp.2_Missense_Mutation_p.H410Y|LARGE_uc011ame.1_Missense_Mutation_p.H394Y|LARGE_uc011amf.1_Missense_Mutation_p.H462Y|LARGE_uc010gwq.1_RNA	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	462	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				TACTCGTAGTGCAGGAAGTAC	0.617													11	16					0	0	1	0	0		A	33712138	A	A	33712138	3	1	66	1	0	0	0	0	1	0	0	0	8643	1319	46	2	906	2	LARGE	22	33712138	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	1409657	33712138	17592428	1542	45618											
MYH9	4627	broad.mit.edu	37	chr22	36718564	36718564	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagctgccgctccagctcGccctgcaaggaacccaggga	9	4	12	16	2	0	0	0	0	0	0	2	2	1	2	4	2	6	5	4	2	2	0	rs139466141	byFrequency	TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:36718564G>A	uc003apg.2	-	6	846	c.615C>T	c.(613-615)GGC>GGT	p.G205G	MYH9_uc003aph.1_Silent_p.G69G	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	205	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GCTCCAGCTCGCCCTGCAAGG	0.667			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				11	21					0	0	1	0	0		A	36718564	A	A	36718564	2	1	66	1	0	0	0	0	0	0	0	1	10060	1074	38	1		1	MYH9	22	36718564	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	3006426	36718564	14586002	1543	45619											
SSTR3	6753	broad.mit.edu	37	chr22	37603075	37603075	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacggccaccaccatgcgCgtgaccctgcgttcggagcg	7	5	12	17	6	0	1	0	1	0	0	1	2	0	2	5	2	3	1	5	2	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:37603075C>T	uc003ara.2	-	2	830	c.768G>A	c.(766-768)ACG>ACA	p.T256T	SSTR3_uc003arb.2_Silent_p.T256T	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	256	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						CCACCATGCGCGTGACCCTGC	0.682													21	42					0	0	1	0	0		T	37603075	T	T	37603075	2	4	66	1	0	0	0	0	0	0	0	1	15224	755	27	1		1	SSTR3	22	37603075	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	884511	37603075	13701491	1544	45620											
CDC42EP1	11135	broad.mit.edu	37	chr22	37964270	37964270	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaccttgggccctcactcCtcagcgagctgctaggggtc	5	9	12	15	2	2	0	2	0	0	0	5	2	3	0	3	3	3	2	3	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:37964270C>A	uc003asz.3	+	3	1022	c.619C>A	c.(619-621)CTC>ATC	p.L207I		NM_152243	NP_689449	Q00587	BORG5_HUMAN	CDC42 effector protein 1	207					positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|endomembrane system|Golgi apparatus|plasma membrane	protein binding				0	Melanoma(58;0.0574)					GCCCTCACTCCTCAGCGAGCT	0.662													15	50					1.33834e-09	1.40184e-09	1	1	0		A	37964270	A	A	37964270	3	1	66	1	0	0	0	0	1	0	0	0	3078	681	24	5	625	5	CDC42EP1	22	37964270	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	361195	37964270	13340296	1545	45621											
PICK1	9463	broad.mit.edu	37	chr22	38470374	38470374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgagtaccgcctgatcctgCgctgccgccaggaggcgcgc	6	6	14	15	5	0	2	0	2	0	0	1	3	1	3	5	2	3	2	5	2	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:38470374C>T	uc003auq.2	+	12	1285	c.895C>T	c.(895-897)CGC>TGC	p.R299C	PICK1_uc003aur.2_Missense_Mutation_p.R299C|PICK1_uc003aus.2_Missense_Mutation_p.R299C|PICK1_uc003aut.2_Missense_Mutation_p.R299C	NM_012407	NP_036539	Q9NRD5	PICK1_HUMAN	protein interacting with C kinase 1	299	AH.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|DNA methylation involved in embryo development|DNA methylation involved in gamete generation|monoamine transport|neuronal ion channel clustering|protein phosphorylation|receptor clustering|retrograde vesicle-mediated transport, Golgi to ER|synaptic transmission	cell junction|endocytic vesicle membrane|Golgi apparatus|perinuclear region of cytoplasm|presynaptic membrane	ATPase activity|metal ion binding|protein C-terminus binding|protein kinase C binding|receptor binding				0	Melanoma(58;0.045)					CCTGATCCTGCGCTGCCGCCA	0.687											OREG0026555	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	25					0	0	1	0	0		T	38470374	T	T	38470374	3	4	66	1	0	0	0	0	1	0	0	0	11900	768	27	1	937	1	PICK1	22	38470374	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	506104	38470374	12834192	1546	45622											
DDX17	10521	broad.mit.edu	37	chr22	38890734	38890734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttgatctgggtgtaatcaCgaaggaaatcctctgcaagc	11	10	11	9	2	3	1	1	1	2	0	4	3	4	2	1	2	2	3	1	2	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:38890734C>T	uc003avy.3	-	8	1218	c.1115G>A	c.(1114-1116)CGT>CAT	p.R372H	DDX17_uc003avx.3_Missense_Mutation_p.R372H|DDX17_uc011anu.1_Missense_Mutation_p.R285H	NM_001098504	NP_001091974	Q92841	DDX17_HUMAN	DEAD box polypeptide 17 isoform 3	293	Helicase ATP-binding.				RNA processing	nucleus	ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity|RNA-dependent ATPase activity			skin(3)|upper_aerodigestive_tract(1)	4	Melanoma(58;0.0286)					GGTGTAATCACGAAGGAAATC	0.458													36	100					0	0	1	0	0		T	38890734	T	T	38890734	3	4	66	1	0	0	0	0	1	0	0	0	4347	536	19	1	1104	1	DDX17	22	38890734	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	420360	38890734	12413832	1547	45623											
JOSD1	9929	broad.mit.edu	37	chr22	39085018	39085018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtaggcccctcccacctctCgaacacagatccagtgctgc	9	7	8	17	1	1	1	0	0	1	1	4	2	3	1	5	1	3	2	5	1	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:39085018C>T	uc003awf.2	-	3	898	c.431G>A	c.(430-432)CGA>CAA	p.R144Q		NM_014876	NP_055691	Q15040	JOS1_HUMAN	Josephin domain containing 1	144	Josephin.						peptidase activity				0	Melanoma(58;0.04)					TCCCACCTCTCGAACACAGAT	0.557													36	51					0	0	1	0	0		T	39085018	T	T	39085018	3	4	66	1	0	0	0	0	1	0	0	0	7974	884	31	1	185	1	JOSD1	22	39085018	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	194284	39085018	12219548	1548	45624											
CACNA1I	8911	broad.mit.edu	37	chr22	39966799	39966799	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctcctcatctgcagcagcCccagccgctgagccaggagt	7	6	10	18	1	2	1	1	1	1	0	3	2	3	2	6	1	5	3	6	1	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:39966799C>A	uc003ayc.2	+	1	42	c.42C>A	c.(40-42)GCC>GCA	p.A14A	CACNA1I_uc003ayd.2_Silent_p.A14A	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	14	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CTGCAGCAGCCCCAGCCGCTG	0.697													10	11					2.17888e-05	2.22293e-05	1	1	0		A	39966799	A	A	39966799	2	1	66	1	0	0	0	0	0	0	0	1	2549	610	22	5		5	CACNA1I	22	39966799	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	881781	39966799	11337767	1549	45625											
CACNA1I	8911	broad.mit.edu	37	chr22	39996631	39996631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcggggacacatggaaccGcctggatttcttcatcgtca	8	10	10	13	3	3	0	2	0	1	0	5	3	3	3	3	4	1	0	3	4	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:39996631G>A	uc003ayc.2	+	3	455	c.455G>A	c.(454-456)CGC>CAC	p.R152H	CACNA1I_uc003ayd.2_Missense_Mutation_p.R152H|CACNA1I_uc003aye.2_Missense_Mutation_p.R67H|CACNA1I_uc003ayf.2_Missense_Mutation_p.R67H	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	152	I.|Helical; Name=S3 of repeat I; (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding	p.R152R(1)		breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	ACATGGAACCGCCTGGATTTC	0.537													7	17					0	0	1	0	0		A	39996631	A	A	39996631	3	1	66	1	0	0	0	0	1	0	0	0	2549	1087	38	1	465	1	CACNA1I	22	39996631	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	29832	39996631	11307935	1550	45626											
TNRC6B	23112	broad.mit.edu	37	chr22	40661673	40661673	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacaacaataacaggtctaCgggtgggtcctggaactttg	11	9	13	8	1	1	0	0	0	1	0	2	2	2	2	1	5	4	0	1	5	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:40661673C>G	uc011aor.1	+	5	1650	c.1439C>G	c.(1438-1440)ACG>AGG	p.T480R	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Missense_Mutation_p.T480R|TNRC6B_uc003ayo.2_Missense_Mutation_p.T284R	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	480					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						AACAGGTCTACGGGTGGGTCC	0.478													9	21					0	0	1	0	0		G	40661673	G	G	40661673	3	3	66	1	0	0	0	0	1	0	0	0	16366	536	19	5	1578	5	TNRC6B	22	40661673	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	665042	40661673	10642893	1551	45627											
L3MBTL2	83746	broad.mit.edu	37	chr22	41620173	41620173	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatggtgacagtgacgaCgacttctggtgccacatgtg	9	9	15	8	2	1	2	0	2	1	0	1	6	1	3	1	3	1	0	1	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:41620173C>T	uc003azo.2	+	9	1146	c.1092C>T	c.(1090-1092)GAC>GAT	p.D364D	L3MBTL2_uc010gyi.1_Silent_p.D273D|L3MBTL2_uc003azn.2_RNA	NM_031488	NP_113676	Q969R5	LMBL2_HUMAN	l(3)mbt-like 2	364	MBT 2.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	methylated histone residue binding|transcription corepressor activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3						ACAGTGACGACGACTTCTGGT	0.612													15	57					0	0	1	0	0		T	41620173	T	T	41620173	2	4	66	1	0	0	0	0	0	0	0	1	8608	535	19	1		1	L3MBTL2	22	41620173	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	958500	41620173	9684393	1552	45628											
L3MBTL2	83746	broad.mit.edu	37	chr22	41626193	41626193	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagacgtggcctcgcccgacAaggcttcaagtccagagctg	9	7	12	13	3	1	2	1	0	0	2	3	3	2	2	3	2	1	2	3	2	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:41626193A>G	uc003azo.2	+	17	2110	c.2056A>G	c.(2056-2058)AAG>GAG	p.K686E	L3MBTL2_uc003azn.2_RNA|CHADL_uc003azq.3_Intron|CHADL_uc010gyj.2_Intron	NM_031488	NP_113676	Q969R5	LMBL2_HUMAN	l(3)mbt-like 2	686					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	methylated histone residue binding|transcription corepressor activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3						CTCGCCCGACAAGGCTTCAAG	0.582													10	21					0	0	1	0	0		G	41626193	G	G	41626193	3	3	66	1	0	0	0	0	1	0	0	0	8608	131	5	3	2122	3	L3MBTL2	22	41626193	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	6020	41626193	9678373	1553	45629											
ACO2	50	broad.mit.edu	37	chr22	41923392	41923392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgccaccttgggggccgggCcatcatcaccaagagctttg	7	8	12	14	2	2	1	2	0	0	1	3	1	2	1	5	3	1	1	5	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:41923392C>T	uc003bac.2	+	16	2076	c.2054C>T	c.(2053-2055)GCC>GTC	p.A685V	ACO2_uc003bad.2_Missense_Mutation_p.A710V|POLR3H_uc003bae.2_RNA|POLR3H_uc003baf.2_3'UTR|POLR3H_uc003bag.2_3'UTR|POLR3H_uc003bai.2_3'UTR	NM_001098	NP_001089	Q99798	ACON_HUMAN	aconitase 2, mitochondrial precursor	685					citrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron ion binding|isocitrate hydro-lyase (cis-aconitate-forming) activity			breast(2)|ovary(1)|lung(1)	4						GGGGGCCGGGCCATCATCACC	0.617											OREG0026589	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	39					0	0	1	0	0		T	41923392	T	T	41923392	3	4	66	1	0	0	0	0	1	0	0	0	147	739	26	2	2116	2	ACO2	22	41923392	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	297199	41923392	9381174	1554	45630											
WBP2NL	164684	broad.mit.edu	37	chr22	42423145	42423145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggctcctgaaaacgaggCttctcttccctctgcctcct	6	11	7	17	1	2	1	0	1	2	0	6	2	5	1	5	2	2	2	5	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:42423145C>T	uc011ape.1	+	7	906	c.890C>T	c.(889-891)GCT>GTT	p.A297V	WBP2NL_uc003bbt.2_Missense_Mutation_p.A297V|WBP2NL_uc011apk.1_Missense_Mutation_p.A169V|WBP2NL_uc003bbu.2_RNA|WBP2NL_uc003bbv.1_RNA	NM_152613	NP_689826	Q6ICG8	WBP2L_HUMAN	WBP2 N-terminal like	297					egg activation|male pronucleus assembly|meiosis	perinuclear theca	WW domain binding			ovary(2)	2						GAAAACGAGGCTTCTCTTCCC	0.522													30	82					0	0	1	0	0		T	42423145	T	T	42423145	3	4	66	1	0	0	0	0	1	0	0	0	17286	797	28	2	912	2	WBP2NL	22	42423145	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	499753	42423145	8881421	1555	45631											
NAGA	4668	broad.mit.edu	37	chr22	42463223	42463223	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaccttgtccagtgtggtGcctgggtaacccatgcaggt	7	10	12	12	0	0	0	0	0	0	0	1	0	1	0	5	3	3	2	5	3	1	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:42463223G>A	uc003bbx.2	-	5	533	c.396C>T	c.(394-396)GGC>GGT	p.G132G	NAGA_uc003bby.2_Silent_p.G132G|NAGA_uc003bbw.3_Silent_p.G132G	NM_000262	NP_000253	P17050	NAGAB_HUMAN	alpha-N-acetylgalactosaminidase precursor	132					glycoside catabolic process|glycosylceramide catabolic process|oligosaccharide metabolic process	lysosome	alpha-galactosidase activity|alpha-N-acetylgalactosaminidase activity|cation binding|protein homodimerization activity			central_nervous_system(1)	1						CCAGTGTGGTGCCTGGGTAAC	0.602													55	98					0	0	1	0	0		A	42463223	A	A	42463223	2	1	66	1	0	0	0	0	0	0	0	1	10159	1306	46	2		2	NAGA	22	42463223	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	40078	42463223	8841343	1556	45632											
PARVG	64098	broad.mit.edu	37	chr22	44602226	44602226	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggatgccaagagcacaCtgagggtgctctatggtctg	11	8	13	9	0	2	2	0	1	2	1	2	3	2	3	1	3	3	2	1	3	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:44602226C>G	uc011aqe.1	+	14	1340	c.916C>G	c.(916-918)CTG>GTG	p.L306V	PARVG_uc003bep.2_Missense_Mutation_p.L306V|PARVG_uc011aqf.1_Missense_Mutation_p.L306V|PARVG_uc003beq.2_RNA|PARVG_uc003ber.2_RNA	NM_001137605	NP_001131077	Q9HBI0	PARVG_HUMAN	parvin, gamma	306	CH 2.				cell-matrix adhesion	cytoplasm|cytoskeleton|focal adhesion	actin binding				0		Ovarian(80;0.024)|all_neural(38;0.0299)				CAAGAGCACACTGAGGGTGCT	0.532													6	34					0	0	1	0	0		G	44602226	G	G	44602226	3	3	66	1	0	0	0	0	1	0	0	0	11489	564	20	5	962	5	PARVG	22	44602226	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2139003	44602226	6702340	1557	45633											
FAM118A	55007	broad.mit.edu	37	chr22	45728354	45728354	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctttctgtttgtgggcTgtggggagacccttcgtgat	4	15	14	8	1	1	2	0	1	1	1	3	3	2	2	2	3	0	2	2	3	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chr22:45728354T>C	uc003bfz.3	+	7	1316	c.700T>C	c.(700-702)TGT>CGT	p.C234R	FAM118A_uc003bga.3_Missense_Mutation_p.C234R|FAM118A_uc011aqr.1_Missense_Mutation_p.C52R	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	234						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		GTTTGTGGGCTGTGGGGAGAC	0.473													50	106					0	0	1	0	0		C	45728354	C	C	45728354	3	2	66	1	0	0	0	0	1	0	0	0	5422	1580	55	3	718	3	FAM118A	22	45728354	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1126128	45728354	5576212	1558	45634											
CSF2RA	1438	broad.mit.edu	37	chrX	1409361	1409361	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggaaccagccgagaaattgGcatccaattctttgattcac	12	10	8	11	2	2	2	1	1	1	1	3	4	3	3	3	2	2	1	3	2	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:1409361G>T	uc010nct.2	+	8	927	c.605G>T	c.(604-606)GGC>GTC	p.G202V	CSF2RA_uc011mhb.1_Missense_Mutation_p.G202V|CSF2RA_uc004cpq.2_Missense_Mutation_p.G202V|CSF2RA_uc004cpn.2_Missense_Mutation_p.G202V|CSF2RA_uc004cpo.2_Missense_Mutation_p.G202V|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Missense_Mutation_p.G69V|CSF2RA_uc004cpp.2_Missense_Mutation_p.G202V|CSF2RA_uc010ncv.2_Missense_Mutation_p.G202V|CSF2RA_uc004cpr.2_Missense_Mutation_p.G202V	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	202	Extracellular (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CGAGAAATTGGCATCCAATTC	0.383													44	274					3.86236e-30	4.20267e-30	1	1	0		T	1409361	T	T	1409361	3	4	66	1	0	0	0	0	1	0	0	0	3937	1203	42	5	623	5	CSF2RA	23	1409361	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08		1409361	153861199	1559	45635											
SLC25A6	293	broad.mit.edu	37	chrX	1508411	1508411	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaagtacctccagaactgCgtgtgcttgtccacgccccc	8	8	9	16	2	0	1	0	0	0	1	2	1	2	1	5	0	4	3	5	0	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:1508411C>T	uc004cpt.2	-	2	417	c.321G>A	c.(319-321)ACG>ACA	p.T107T	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	107				KHTQ -> RHA (in Ref. 5; AAA36750).	active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	TCCAGAACTGCGTGTGCTTGT	0.612													85	114					0	0	1	0	0		T	1508411	T	T	1508411	2	4	66	1	0	0	0	0	0	0	0	1	14538	755	27	1		1	SLC25A6	23	1508411	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	99050	1508411	153762149	1560	45636											
CD99	4267	broad.mit.edu	37	chrX	2656273	2656273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggacatggagagccacCggaatgccaacgcagagcca	13	3	14	11	2	0	2	0	0	0	2	0	5	0	4	4	4	4	1	4	4	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:2656273C>T	uc004cqm.2	+	9	682	c.508C>T	c.(508-510)CGG>TGG	p.R170W	CD99_uc010nda.2_Missense_Mutation_p.R154W|CD99_uc004cqn.2_RNA|CD99_uc004cqo.2_Missense_Mutation_p.R169W	NM_002414	NP_002405	P14209	CD99_HUMAN	CD99 antigen isoform a precursor	170	Cytoplasmic (Potential).				cell adhesion	cytoplasm|integral to plasma membrane				skin(1)	1						GGAGAGCCACCGGAATGCCAA	0.507													51	63					0	0	1	0	0		T	2656273	T	T	2656273	3	4	66	1	0	0	0	0	1	0	0	0	3053	643	23	1	542	1	CD99	23	2656273	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1147862	2656273	152614287	1561	45637											
GYG2	8908	broad.mit.edu	37	chrX	2772036	2772036	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagggtcatcctctcgaaGgtgttcgatgaagtcattga	9	12	11	9	2	3	2	2	2	1	0	7	4	5	2	2	2	0	1	2	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:2772036G>T	uc004cqs.1	+	5	540	c.258G>T	c.(256-258)AAG>AAT	p.K86N	GYG2_uc004cqt.1_Missense_Mutation_p.K55N|GYG2_uc004cqu.1_Missense_Mutation_p.K55N|GYG2_uc004cqv.1_Translation_Start_Site|GYG2_uc004cqw.1_Missense_Mutation_p.K46N|GYG2_uc004cqx.1_Missense_Mutation_p.K55N|GYG2_uc010ndc.1_5'Flank	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b	86					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TCCTCTCGAAGGTGTTCGATG	0.512													5	85					0.000602214	0.000609462	1	1	0		T	2772036	T	T	2772036	3	4	66	1	0	0	0	0	1	0	0	0	6922	991	35	5	272	5	GYG2	23	2772036	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	115763	2772036	152498524	1562	45638											
ARSH	347527	broad.mit.edu	37	chrX	2936680	2936680	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtaaatatggcaggtatggGgacaatgtagaagaaatgga	17	8	14	2	0	0	2	0	0	0	2	0	4	0	4	0	5	0	4	0	5	8	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:2936680G>A	uc011mhj.1	+	5	870	c.870G>A	c.(868-870)GGG>GGA	p.G290G		NM_001011719	NP_001011719	Q5FYA8	ARSH_HUMAN	arylsulfatase family, member H	290						integral to membrane	arylsulfatase activity|metal ion binding			lung(1)	1		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				GCAGGTATGGGGACAATGTAG	0.398													20	53					0	0	1	0	0		A	2936680	A	A	2936680	2	1	66	1	0	0	0	0	0	0	0	1	994	1219	43	4		4	ARSH	23	2936680	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	164644	2936680	152333880	1563	45639											
MXRA5	25878	broad.mit.edu	37	chrX	3261860	3261860	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggagagggccccccagtgCgcgcgcttgggcatcttgtc	5	7	15	14	4	1	1	0	0	1	1	2	2	1	1	3	3	1	2	3	3	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:3261860C>T	uc004crg.3	-	2	172	c.15G>A	c.(13-15)GCG>GCA	p.A5A		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	5						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				CCCCCCAGTGCGCGCGCTTGG	0.627													3	14					0	0	1	0	0		T	3261860	T	T	3261860	2	4	66	1	0	0	0	0	0	0	0	1	10021	755	27	1		1	MXRA5	23	3261860	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	325180	3261860	152008700	1564	45640											
NLGN4X	57502	broad.mit.edu	37	chrX	5811220	5811220	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcttgtcctttttgtagtAcagcgccgcaaaagctaaga	10	12	8	11	2	1	1	0	0	1	1	2	1	2	1	3	0	3	4	3	0	5	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:5811220A>G	uc010ndh.2	-	6	2590	c.2089T>C	c.(2089-2091)TAC>CAC	p.Y697H	NLGN4X_uc004crp.2_Missense_Mutation_p.Y717H|NLGN4X_uc004crq.2_Missense_Mutation_p.Y697H|NLGN4X_uc010ndi.2_Missense_Mutation_p.Y734H|NLGN4X_uc004crr.2_Missense_Mutation_p.Y697H|NLGN4X_uc010ndj.2_Missense_Mutation_p.Y697H	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	697	Helical; (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TTTTTGTAGTACAGCGCCGCA	0.502													44	83					0	0	1	0	0		G	5811220	G	G	5811220	3	3	66	1	0	0	0	0	1	0	0	0	10483	391	14	3	365	3	NLGN4X	23	5811220	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	2549360	5811220	149459340	1565	45641											
STS	412	broad.mit.edu	37	chrX	7268078	7268079	+	Frame_Shift_Del	DEL	AG	-	-																															ttgatatttccaaagatcccAgagagagaaacccactaact																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:7268078_7268079delAG	uc004cry.3	+	10	1773_1774	c.1528_1529delAG	c.(1528-1530)AGAfs	p.R510fs		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	510	Lumenal.				female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)	CAAAGATCCCAGAGAGAGAAAC	0.515									Ichthyosis				22	29	---	---	---	---						.	-	7268079	-	-	7268078	7	5	66	1	0	1	0	1	0	0	0	0	15357	180	7	0	1566	0	STS	23	7268078	Frame_Shift_Del	DEL	AG	TCGA-BR-8361-01A-11D-2340-08	1456858	7268078	148002482	1566	45642											
SHROOM2	357	broad.mit.edu	37	chrX	9864049	9864049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacgtccttcaagcgccgcGacttggaccccaacccagga	9	5	9	18	4	1	0	1	0	0	0	2	3	2	2	6	2	2	0	6	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:9864049G>A	uc004csu.1	+	4	2191	c.2101G>A	c.(2101-2103)GAC>AAC	p.D701N		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	701	ASD1.				apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				CAAGCGCCGCGACTTGGACCC	0.647													9	12					0	0	1	0	0		A	9864049	A	A	9864049	3	1	66	1	0	0	0	0	1	0	0	0	14319	1058	37	1	2115	1	SHROOM2	23	9864049	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2595971	9864049	145406511	1567	45643											
SHROOM2	357	broad.mit.edu	37	chrX	9905625	9905625	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaaccactatggacttgAtggaaggcatcttccccaaa	14	9	7	11	0	2	1	1	1	1	0	3	3	3	3	3	3	1	1	3	3	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:9905625A>G	uc004csu.1	+	7	4129	c.4039A>G	c.(4039-4041)ATG>GTG	p.M1347V	SHROOM2_uc004csv.2_Missense_Mutation_p.M182V|SHROOM2_uc011mic.1_Missense_Mutation_p.M182V|SHROOM2_uc004csw.1_Missense_Mutation_p.M182V	NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	1347	ASD2.				apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				TATGGACTTGATGGAAGGCAT	0.562													15	39					0	0	1	0	0		G	9905625	G	G	9905625	3	3	66	1	0	0	0	0	1	0	0	0	14319	333	12	3	4065	3	SHROOM2	23	9905625	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	41576	9905625	145364935	1568	45644											
FRMPD4	9758	broad.mit.edu	37	chrX	12704241	12704241	+	Frame_Shift_Del	DEL	T	-	-																															tgttaaggacaactcacttcTttttatgccaaatgttttga																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:12704241delT	uc004cuz.1	+	7	1105	c.599delT	c.(598-600)CTTfs	p.L200fs	FRMPD4_uc011mij.1_Frame_Shift_Del_p.L192fs	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	200					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						AACTCACTTCTTTTTATGCCA	0.363													54	69	---	---	---	---						.	-	12704241	-	-	12704241	7	5	66	1	0	1	0	1	0	0	0	0	6073	1609	56	0	625	0	FRMPD4	23	12704241	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	2798616	12704241	142566319	1569	45645											
FRMPD4	9758	broad.mit.edu	37	chrX	12734539	12734539	+	Frame_Shift_Del	DEL	T	-	-																															aggagctaaagtgtcctttaTttttggagacttcgccttgg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:12734539delT	uc004cuz.1	+	15	2467	c.1961delT	c.(1960-1962)ATTfs	p.I654fs	FRMPD4_uc011mij.1_Frame_Shift_Del_p.I646fs	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	654					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						GTGTCCTTTATTTTTGGAGAC	0.478													98	143	---	---	---	---						.	-	12734539	-	-	12734539	7	5	66	1	0	1	0	1	0	0	0	0	6073	1493	52	0	2019	0	FRMPD4	23	12734539	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	30298	12734539	142536021	1570	45646											
FRMPD4	9758	broad.mit.edu	37	chrX	12736566	12736566	+	Frame_Shift_Del	DEL	T	-	-																															tcactgcaaagcgagggccaTttttctctgcagagctccca																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:12736566delT	uc004cuz.1	+	16	4127	c.3621delT	c.(3619-3621)CATfs	p.H1207fs	FRMPD4_uc011mij.1_Frame_Shift_Del_p.H1199fs	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	1207					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						GCGAGGGCCATTTTTCTCTGC	0.602													87	160	---	---	---	---						.	-	12736566	-	-	12736566	7	5	66	1	0	1	0	1	0	0	0	0	6073	1490	52	0	3683	0	FRMPD4	23	12736566	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	2027	12736566	142533994	1571	45647											
PRPS2	5634	broad.mit.edu	37	chrX	12838801	12838801	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccaaagtgtatgctatccTtacccatgggatcttctctg	9	13	7	12	0	2	0	0	0	2	0	4	1	3	1	3	1	2	2	3	1	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:12838801T>C	uc004cvb.2	+	6	867	c.743T>C	c.(742-744)CTT>CCT	p.L248P	PRPS2_uc004cva.2_Missense_Mutation_p.L251P|PRPS2_uc010nec.2_Missense_Mutation_p.L126P	NM_002765	NP_002756	P11908	PRPS2_HUMAN	phosphoribosyl pyrophosphate synthetase 2	248					nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity				0						TATGCTATCCTTACCCATGGG	0.438													49	61					0	0	1	0	0		C	12838801	C	C	12838801	3	2	66	1	0	0	0	0	1	0	0	0	12602	1609	56	3	774	3	PRPS2	23	12838801	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	102235	12838801	142431759	1572	45648											
SCML2	10389	broad.mit.edu	37	chrX	18265925	18265926	+	Frame_Shift_Del	DEL	GA	-	-																															ctttgttttggggagcttagGagagagaggaacaacatatg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:18265925_18265926delGA	uc004cyl.2	-	12	1690_1691	c.1533_1534delTC	c.(1531-1536)TCTCCTfs	p.S511fs	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_Frame_Shift_Del_p.S511fs|SCML2_uc011miz.1_Frame_Shift_Del_p.S445fs|SCML2_uc010nfc.2_Frame_Shift_Del_p.S247fs	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	511_512					anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					GGGAGCTTAGGAGAGAGAGGAA	0.411													44	67	---	---	---	---						.	-	18265926	-	-	18265925	7	5	66	1	0	1	0	1	0	0	0	0	13935	1174	41	0	584	0	SCML2	23	18265925	Frame_Shift_Del	DEL	GA	TCGA-BR-8361-01A-11D-2340-08	5427124	18265925	137004635	1573	45649											
PTCHD1	139411	broad.mit.edu	37	chrX	23412229	23412229	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaaaaatcctgagaaccGggaggaaattgagtgtgtag	16	7	14	4	1	0	3	0	2	0	2	1	7	1	5	2	2	1	1	2	2	6	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:23412229G>C	uc004dal.3	+	3	2602	c.2594G>C	c.(2593-2595)CGG>CCG	p.R865P		NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	865					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						CCTGAGAACCGGGAGGAAATT	0.403													54	75					0	0	1	0	0		C	23412229	C	C	23412229	3	2	66	1	0	0	0	0	1	0	0	0	12754	1116	39	5	2604	5	PTCHD1	23	23412229	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	5146304	23412229	131858331	1574	45650											
CXorf58	254158	broad.mit.edu	37	chrX	23953371	23953371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcagaaataacagctggcGcaaattaaatcttgaaaata	18	8	8	7	2	1	2	0	1	1	1	1	2	1	2	0	2	2	3	0	2	8	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:23953371G>A	uc004daz.1	+	7	958	c.614G>A	c.(613-615)CGC>CAC	p.R205H	CXorf58_uc011mju.1_Missense_Mutation_p.R205H	NM_152761	NP_689974	Q96LI9	CX058_HUMAN	hypothetical protein LOC254158	205											0						AACAGCTGGCGCAAATTAAAT	0.368													65	136					0	0	1	0	0		A	23953371	A	A	23953371	3	1	66	1	0	0	0	0	1	0	0	0	4117	1087	38	1	636	1	CXorf58	23	23953371	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	541142	23953371	131317189	1575	45651											
DCAF8L1	139425	broad.mit.edu	37	chrX	27998805	27998805	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactatcacccttaagtcaTcaccgctactggccagtcgg	10	9	7	15	2	3	0	3	0	0	0	4	0	3	0	3	2	1	1	3	2	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:27998805T>C	uc004dbx.1	-	1	762	c.647A>G	c.(646-648)GAT>GGT	p.D216G		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	216	WD 1.									ovary(3)|skin(1)	4						CCTTAAGTCATCACCGCTACT	0.517													12	39					0	0	1	0	0		C	27998805	C	C	27998805	3	2	66	1	0	0	0	0	1	0	0	0	4280	1435	50	3	1159	3	DCAF8L1	23	27998805	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	4045434	27998805	127271755	1576	45652											
TAB3	257397	broad.mit.edu	37	chrX	30872538	30872538	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atggaggttttggttgactaGatatccctcttgaaggagaa	11	13	12	5	0	1	4	0	2	1	2	2	6	2	5	1	4	0	2	1	4	4	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:30872538G>C	uc004dcj.2	-	6	1907	c.1244C>G	c.(1243-1245)TCT>TGT	p.S415C	TAB3_uc004dck.2_Missense_Mutation_p.S415C|TAB3_uc010ngl.2_Missense_Mutation_p.S415C	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	415	Pro-rich.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						TGGTTGACTAGATATCCCTCT	0.443													35	142					0	0	1	0	0		C	30872538	C	C	30872538	3	2	66	1	0	0	0	0	1	0	0	0	15522	942	33	5	918	5	TAB3	23	30872538	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2873733	30872538	124398022	1577	45653											
MAGEB16	139604	broad.mit.edu	37	chrX	35820609	35820609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaagatagtccaagctcctCagaggatacatcagacccca	14	6	9	12	0	2	3	2	0	0	3	4	5	4	5	4	2	2	1	4	2	4	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:35820609C>T	uc010ngt.1	+	2	575	c.296C>T	c.(295-297)TCA>TTA	p.S99L		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	99										lung(3)|ovary(2)|breast(1)|skin(1)	7						CCAAGCTCCTCAGAGGATACA	0.478													3	24					0	0	1	0	0		T	35820609	T	T	35820609	3	4	66	1	0	0	0	0	1	0	0	0	9192	838	29	4	298	4	MAGEB16	23	35820609	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4948071	35820609	119449951	1578	45654											
FAM47C	442444	broad.mit.edu	37	chrX	37026823	37026823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgccagcacagccagcaCggaaggcgttcgtagaggaa	11	5	13	12	4	1	1	0	0	1	1	3	3	1	3	2	3	3	4	2	3	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:37026823C>T	uc004ddl.1	+	1	354	c.340C>T	c.(340-342)CGG>TGG	p.R114W		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	114										ovary(3)	3						ACAGCCAGCACGGAAGGCGTT	0.537													8	129					0	0	1	0	0		T	37026823	T	T	37026823	3	4	66	1	0	0	0	0	1	0	0	0	5585	527	19	1	342	1	FAM47C	23	37026823	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1206214	37026823	118243737	1579	45655											
SRPX	8406	broad.mit.edu	37	chrX	38020284	38020284	+	Frame_Shift_Del	DEL	G	-	-																															cttctggaaagttggagcctGgggggaggccttttagaatg																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:38020284delG	uc004ddy.1	-	6	763	c.677delC	c.(676-678)CCAfs	p.P226fs	SRPX_uc004ddz.1_Frame_Shift_Del_p.P206fs|SRPX_uc011mkh.1_Frame_Shift_Del_p.P167fs|SRPX_uc011mki.1_Frame_Shift_Del_p.P226fs	NM_006307	NP_006298	P78539	SRPX_HUMAN	sushi-repeat-containing protein, X-linked	226	HYR.				cell adhesion	cell surface|membrane					0						GTTGGAGCCTGGGGGGAGGCC	0.433													48	81	---	---	---	---						.	-	38020284	-	-	38020284	7	5	66	1	0	1	0	1	0	0	0	0	15189	1348	47	0	737	0	SRPX	23	38020284	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	993461	38020284	117250276	1580	45656											
MID1IP1	58526	broad.mit.edu	37	chrX	38664436	38664437	+	Frame_Shift_Ins	INS	-	T	T																															cgggaagcgccaatggcagcINStttttcgcgccctctcggga																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:38664436_38664437insT	uc004dei.3	+	3	661_662	c.237_238insT	c.(235-240)AGCTTTfs	p.S79fs	MID1IP1_uc010ngz.2_Frame_Shift_Ins_p.S79fs|MID1IP1_uc004dej.3_Frame_Shift_Ins_p.S79fs	NM_001098790	NP_001092260	Q9NPA3	M1IP1_HUMAN	MID1 interacting G12-like protein	79_80					lipid biosynthetic process|negative regulation of microtubule depolymerization|positive regulation of fatty acid biosynthetic process|positive regulation of ligase activity|protein polymerization	cytosol|microtubule|nucleus					0						CCAATGGCAGCTTTTTCGCGCC	0.658													24	40	---	---	---	---						.	T	38664437	T	T	38664436	7	5	66	1	0	1	1	0	0	0	0	0	9595	796	28	0	239	0	MID1IP1	23	38664436	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	644152	38664436	116606124	1581	45657											
MED14	9282	broad.mit.edu	37	chrX	40542153	40542153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaactctgctacccaagtgCggttatttctaccttgtaat	9	15	6	11	1	2	0	0	0	2	0	2	0	2	0	2	1	5	3	2	1	6	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:40542153C>T	uc004dex.3	-	17	2293	c.2153G>A	c.(2152-2154)CGC>CAC	p.R718H		NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	718	Interaction with SREBF1.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						TACCCAAGTGCGGTTATTTCT	0.428													27	66					0	0	1	0	0		T	40542153	T	T	40542153	3	4	66	1	0	0	0	0	1	0	0	0	9450	768	27	1	2271	1	MED14	23	40542153	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1877717	40542153	114728407	1582	45658											
KDM6A	7403	broad.mit.edu	37	chrX	44928976	44928976	+	Frame_Shift_Del	DEL	G	-	-																															cctagcaattcagtaacacaGggggctgctctcaatcacct																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:44928976delG	uc004dge.3	+	17	2451	c.2076delG	c.(2074-2076)CAGfs	p.Q692fs	KDM6A_uc010nhk.2_Frame_Shift_Del_p.Q658fs|KDM6A_uc011mkz.1_Frame_Shift_Del_p.Q744fs|KDM6A_uc011mla.1_Frame_Shift_Del_p.Q647fs|KDM6A_uc011mlb.1_Frame_Shift_Del_p.Q699fs|KDM6A_uc011mlc.1_Frame_Shift_Del_p.Q396fs|KDM6A_uc011mld.1_Frame_Shift_Del_p.Q331fs	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	692					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						CAGTAACACAGGGGGCTGCTC	0.517			D|N|F|S		renal|oesophageal SCC|MM								13	18	---	---	---	---						.	-	44928976	-	-	44928976	7	5	66	1	0	1	0	1	0	0	0	0	8153	991	35	0	2142	0	KDM6A	23	44928976	Frame_Shift_Del	DEL	G	TCGA-BR-8361-01A-11D-2340-08	4386823	44928976	110341584	1583	45659											
CXorf36	79742	broad.mit.edu	37	chrX	45010931	45010931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatatttgcaatctgggtaaCgataggcaaatctggagtca	13	12	10	6	1	3	0	1	0	2	0	3	2	3	1	0	3	2	3	0	3	6	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:45010931C>T	uc004dgg.2	-	5	1343	c.1268G>A	c.(1267-1269)CGT>CAT	p.R423H		NM_176819	NP_789789	Q9H7Y0	CX036_HUMAN	hypothetical protein LOC79742 isoform 1	423						extracellular region				lung(1)	1						ATCTGGGTAACGATAGGCAAA	0.557													25	59					0	0	1	0	0		T	45010931	T	T	45010931	3	4	66	1	0	0	0	0	1	0	0	0	4109	536	19	1	37	1	CXorf36	23	45010931	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	81955	45010931	110259629	1584	45660											
SLC38A5	92745	broad.mit.edu	37	chrX	48319068	48319068	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actggcacagtgagggtcacCgcgagcagcacggccaggcg	9	3	16	13	4	1	1	1	1	0	0	1	2	1	1	2	4	2	3	2	4	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:48319068C>T	uc010nid.2	-	14	1213	c.1035G>A	c.(1033-1035)GCG>GCA	p.A345A	SLC38A5_uc004djk.3_Silent_p.A294A	NM_033518	NP_277053	Q8WUX1	S38A5_HUMAN	solute carrier family 38, member 5	345	Helical; (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane				ovary(3)	3						TGAGGGTCACCGCGAGCAGCA	0.522													8	23					0	0	1	0	0		T	48319068	T	T	48319068	2	4	66	1	0	0	0	0	0	0	0	1	14632	639	23	1		1	SLC38A5	23	48319068	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3308137	48319068	106951492	1585	45661											
TBC1D25	4943	broad.mit.edu	37	chrX	48418771	48418771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccacctggccacagccaGtcaggggcctggtggtgggg	6	6	17	12	0	1	1	1	1	0	0	1	1	1	1	5	7	1	0	5	7	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:48418771G>A	uc004dka.1	+	6	1586	c.1475G>A	c.(1474-1476)AGT>AAT	p.S492N	TBC1D25_uc011mly.1_Missense_Mutation_p.S434N|TBC1D25_uc004dkb.1_Missense_Mutation_p.S238N|TBC1D25_uc011mlz.1_Missense_Mutation_p.S238N|TBC1D25_uc011mma.1_Missense_Mutation_p.S238N|TBC1D25_uc004dkc.1_Missense_Mutation_p.S238N|TBC1D25_uc011mmb.1_Missense_Mutation_p.S496N|TBC1D25_uc011mmc.1_Missense_Mutation_p.S238N|TBC1D25_uc011mmd.1_Missense_Mutation_p.S238N	NM_002536	NP_002527	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	492						intracellular	Rab GTPase activator activity			ovary(1)	1						GCCACAGCCAGTCAGGGGCCT	0.642													16	38					0	0	1	0	0		A	48418771	A	A	48418771	3	1	66	1	0	0	0	0	1	0	0	0	15640	1029	36	4	1497	4	TBC1D25	23	48418771	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	99703	48418771	106851789	1586	45662											
ERAS	3266	broad.mit.edu	37	chrX	48687628	48687628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaccgggctcaggcacgccGcagggatgttggcaggcagc	7	4	16	14	3	1	0	1	0	0	0	1	1	1	1	3	5	1	6	3	5	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:48687628G>A	uc004dky.1	+	1	346	c.95G>A	c.(94-96)CGC>CAC	p.R32H		NM_181532	NP_853510	Q7Z444	RASE_HUMAN	ES cell expressed Ras precursor	32					small GTPase mediated signal transduction	intracellular|plasma membrane	GTP binding|GTPase activity			lung(4)|urinary_tract(1)	5						CAGGCACGCCGCAGGGATGTT	0.657													5	15					0	0	1	0	0		A	48687628	A	A	48687628	3	1	66	1	0	0	0	0	1	0	0	0	5213	1087	38	1	97	1	ERAS	23	48687628	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	268857	48687628	106582932	1587	45663											
KDM5C	8242	broad.mit.edu	37	chrX	53227713	53227713	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcccagagctcgggacacGcaagcctctgcctcactcag	9	6	10	16	2	3	1	2	0	1	1	5	2	4	2	3	1	3	2	3	1	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:53227713G>A	uc004drz.2	-	17	3008	c.2475C>T	c.(2473-2475)TGC>TGT	p.C825C	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Silent_p.C758C|KDM5C_uc004dsa.2_Silent_p.C824C	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	825					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						CTCGGGACACGCAAGCCTCTG	0.567			N|F|S		clear cell renal carcinoma								7	9					0	0	1	0	0		A	53227713	A	A	53227713	2	1	66	1	0	0	0	0	0	0	0	1	8151	1079	38	1		1	KDM5C	23	53227713	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4540085	53227713	102042847	1588	45664											
KDM5C	8242	broad.mit.edu	37	chrX	53247013	53247013	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agactggtacatttcataggGataaacaatgcgttcgtagt	13	12	10	6	2	1	1	1	0	0	1	2	2	1	2	0	2	3	3	0	2	6	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:53247013G>A	uc004drz.2	-	4	1020	c.487C>T	c.(487-489)CCC>TCC	p.P163S	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.P96S|KDM5C_uc004dsa.2_Missense_Mutation_p.P163S	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	163	ARID.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						ATTTCATAGGGATAAACAATG	0.537			N|F|S		clear cell renal carcinoma								13	35					0	0	1	0	0		A	53247013	A	A	53247013	3	1	66	1	0	0	0	0	1	0	0	0	8151	1174	41	4	4385	4	KDM5C	23	53247013	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	19300	53247013	102023547	1589	45665											
PHF8	23133	broad.mit.edu	37	chrX	54011506	54011506	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgttagacactgtgcccaGcccactgctggagctcccac	8	8	9	16	0	0	1	0	0	0	1	1	2	1	2	3	1	4	3	3	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:54011506G>A	uc004dsu.2	-	18	2465	c.2392C>T	c.(2392-2394)CTG>TTG	p.L798L	PHF8_uc004dst.2_Silent_p.L762L|PHF8_uc004dsv.2_Silent_p.L628L|PHF8_uc004dsw.2_Silent_p.L661L|PHF8_uc004dsx.2_Silent_p.L526L|PHF8_uc004dsy.2_Silent_p.L745L	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	798	Ser-rich.				brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						ACTGTGCCCAGCCCACTGCTG	0.642													14	37					0	0	1	0	0		A	54011506	A	A	54011506	2	1	66	1	0	0	0	0	0	0	0	1	11859	962	34	2		2	PHF8	23	54011506	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	764493	54011506	101259054	1590	45666											
FGD1	2245	broad.mit.edu	37	chrX	54496845	54496845	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actggctctgggggacctggGctggggccagggactggtct	4	8	19	10	0	2	0	0	0	2	0	2	2	2	2	2	8	0	2	2	8	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:54496845G>A	uc004dtg.2	-	4	1439	c.705C>T	c.(703-705)AGC>AGT	p.S235S	FGD1_uc011moi.1_5'UTR	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	235	Pro-rich.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						GGGGACCTGGGCTGGGGCCAG	0.642													10	14					0	0	1	0	0		A	54496845	A	A	54496845	2	1	66	1	0	0	0	0	0	0	0	1	5846	1194	42	2		2	FGD1	23	54496845	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	485339	54496845	100773715	1591	45667											
ITIH5L	347365	broad.mit.edu	37	chrX	54800553	54800553	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatggagctgcttacgtcAataacaaaaaccacattctt	16	10	5	10	1	2	0	1	0	1	0	2	1	2	1	1	1	6	2	1	1	6	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:54800553A>G	uc004dtj.2	-	6	894	c.864T>C	c.(862-864)ATT>ATC	p.I288I		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	288	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						TGCTTACGTCAATAACAAAAA	0.408													6	30					0	0	1	0	0		G	54800553	G	G	54800553	2	3	66	1	0	0	0	0	0	0	0	1	7924	126	5	3		3	ITIH5L	23	54800553	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	303708	54800553	100470007	1592	45668											
ZC3H12B	340554	broad.mit.edu	37	chrX	64721989	64721989	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcttgtgactgccctaagtGttcccacaatcccacccccc	7	9	6	19	1	0	1	0	1	0	0	2	1	2	1	6	0	1	2	6	0	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:64721989G>C	uc010nko.2	+	5	1387	c.1378G>C	c.(1378-1380)GTT>CTT	p.V460L		NM_001010888	NP_001010888	Q5HYM0	ZC12B_HUMAN	zinc finger CCCH-type containing 12B	460							endonuclease activity|nucleic acid binding|zinc ion binding			lung(1)|kidney(1)|pancreas(1)	3						TGCCCTAAGTGTTCCCACAAT	0.597													32	63					0	0	1	0	0		C	64721989	C	C	64721989	3	2	66	1	0	0	0	0	1	0	0	0	17587	1377	48	5	1429	5	ZC3H12B	23	64721989	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	9921436	64721989	90548571	1593	45669											
ZC3H12B	340554	broad.mit.edu	37	chrX	64722644	64722644	+	Frame_Shift_Del	DEL	C	-	-																															caatatccatcctggggcaaCcccccagccaggccgtgccc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:64722644delC	uc010nko.2	+	5	2042	c.2033delC	c.(2032-2034)ACCfs	p.T678fs		NM_001010888	NP_001010888	Q5HYM0	ZC12B_HUMAN	zinc finger CCCH-type containing 12B	678							endonuclease activity|nucleic acid binding|zinc ion binding			lung(1)|kidney(1)|pancreas(1)	3						CCTGGGGCAACCCCCCAGCCA	0.607													17	22	---	---	---	---						.	-	64722644	-	-	64722644	7	5	66	1	0	1	0	1	0	0	0	0	17587	507	18	0	2084	0	ZC3H12B	23	64722644	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	655	64722644	90547916	1594	45670											
LAS1L	81887	broad.mit.edu	37	chrX	64749526	64749526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatgagaatccacctcttcGctgcctttgctgtctccatc	7	13	6	15	1	2	1	0	1	2	1	6	2	3	1	4	0	2	2	4	0	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:64749526G>A	uc004dwa.1	-	5	819	c.747C>T	c.(745-747)AGC>AGT	p.S249S	LAS1L_uc004dwc.1_Silent_p.S249S|LAS1L_uc004dwd.1_Silent_p.S207S	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	249						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						CCACCTCTTCGCTGCCTTTGC	0.488													24	59					0	0	1	0	0		A	64749526	A	A	64749526	2	1	66	1	0	0	0	0	0	0	0	1	8652	1078	38	1		1	LAS1L	23	64749526	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	26882	64749526	90521034	1595	45671											
AR	367	broad.mit.edu	37	chrX	66766153	66766153	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccccacgctcgcatcaagCtggagaacccgctggactac	10	6	9	16	3	1	1	1	0	0	1	3	3	2	2	3	2	3	4	3	2	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:66766153C>A	uc004dwu.1	+	1	2280	c.1165C>A	c.(1165-1167)CTG>ATG	p.L389M	AR_uc011mpd.1_Missense_Mutation_p.L389M|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.L389M	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	387	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	TCGCATCAAGCTGGAGAACCC	0.716									Androgen_Insensitivity_Syndrome				3	9					6.4e-05	6.51435e-05	1	1	0		A	66766153	A	A	66766153	3	1	66	1	0	0	0	0	1	0	0	0	836	796	28	5	1167	5	AR	23	66766153	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2016627	66766153	88504407	1596	45672											
OPHN1	4983	broad.mit.edu	37	chrX	67293124	67293124	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggtgcagcgctttcctcAggtggacctaaatagatctg	8	10	13	10	2	2	1	1	0	1	1	3	2	3	2	2	4	2	2	2	4	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:67293124A>G	uc004dww.3	-	20	1998	c.1704T>C	c.(1702-1704)CCT>CCC	p.P568P	OPHN1_uc011mpg.1_Silent_p.P568P	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	568					axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						CGCTTTCCTCAGGTGGACCTA	0.473													8	32					0	0	1	0	0		G	67293124	G	G	67293124	2	3	66	1	0	0	0	0	0	0	0	1	10894	175	7	3		3	OPHN1	23	67293124	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	526971	67293124	87977436	1597	45673											
FAM155B	27112	broad.mit.edu	37	chrX	68725895	68725895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcggctggaccgacacgCtcaggaaaaatatgacgagt	13	5	12	11	4	1	1	1	1	0	0	1	5	1	3	2	3	1	2	2	3	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:68725895C>T	uc004dxk.2	+	1	818	c.770C>T	c.(769-771)GCT>GTT	p.A257V		NM_015686	NP_056501	O75949	F155B_HUMAN	transmembrane protein 28	257						integral to membrane				ovary(1)|breast(1)	2						GACCGACACGCTCAGGAAAAA	0.592													8	14					0	0	1	0	0		T	68725895	T	T	68725895	3	4	66	1	0	0	0	0	1	0	0	0	5477	797	28	2	772	2	FAM155B	23	68725895	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1432771	68725895	86544665	1598	45674											
DLG3	1741	broad.mit.edu	37	chrX	69720431	69720431	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtccattgaagcccttatGtaagtgttgaactgagaact	13	12	9	7	0	0	3	0	3	0	1	1	4	1	3	2	0	3	2	2	0	6	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:69720431G>A	uc004dyi.1	+	17	2583	c.2255_splice	c.e17+1	p.M752_splice	DLG3_uc004dyj.1_Splice_Site_p.M447_splice|DLG3_uc011mpn.1_Splice_Site_p.M300_splice	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a						axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					AAGCCCTTATGTAAGTGTTGA	0.443													12	46					0	0	1	0	0		A	69720431	A	A	69720431	5	1	66	1	0	0	0	0	0	0	1	0	4562	1391	48	4	2610	4	DLG3	23	69720431	Splice_Site	SNP	G	TCGA-BR-8361-01A-11D-2340-08	994536	69720431	85550129	1599	45675											
MED12	9968	broad.mit.edu	37	chrX	70348159	70348159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccctagggtgaatgacatcGcaatcctgtgtgcagagctg	9	10	12	10	1	0	3	0	2	0	1	3	3	2	3	2	1	2	3	2	1	3	1	rs41303701		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:70348159G>A	uc004dyy.2	+	23	3422	c.3223G>A	c.(3223-3225)GCA>ACA	p.A1075T	MED12_uc011mpq.1_Missense_Mutation_p.A1075T|MED12_uc004dyz.2_Missense_Mutation_p.A1075T|MED12_uc004dza.2_Missense_Mutation_p.A922T|MED12_uc010nla.2_5'Flank	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1075					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					GAATGACATCGCAATCCTGTG	0.483													32	63					0	0	1	0	0		A	70348159	A	A	70348159	3	1	66	1	0	0	0	0	1	0	0	0	9446	1087	38	1	3313	1	MED12	23	70348159	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	627728	70348159	84922401	1600	45676											
ACRC	93953	broad.mit.edu	37	chrX	70823942	70823942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgacgacagcagtgatgattCggaagctcccgacgacagca	12	5	12	12	5	0	2	0	2	0	0	2	7	1	3	1	1	3	3	1	1	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:70823942C>T	uc004eae.2	+	8	1316	c.815C>T	c.(814-816)TCG>TTG	p.S272L	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	272	Asp/Ser-rich.					nucleus				ovary(3)	3	Renal(35;0.156)					AGTGATGATTCGGAAGCTCCC	0.552													69	169					0	0	1	0	0		T	70823942	T	T	70823942	3	4	66	1	0	0	0	0	1	0	0	0	171	893	31	1	841	1	ACRC	23	70823942	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	475783	70823942	84446618	1601	45677											
SLC16A2	6567	broad.mit.edu	37	chrX	73744204	73744204	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccacagctccctaagcCtgcgctacttcacctacggg	7	9	7	18	2	2	0	1	0	1	0	4	0	3	0	4	1	5	2	4	1	3	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:73744204C>A	uc004ebt.2	+	3	974	c.808C>A	c.(808-810)CTG>ATG	p.L270M	SLC16A2_uc010nlr.1_Translation_Start_Site	NM_006517	NP_006508	P36021	MOT8_HUMAN	solute carrier family 16, member 2	196	Extracellular (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			breast(2)|ovary(1)	3					Pyruvic acid(DB00119)	CTCCCTAAGCCTGCGCTACTT	0.567													13	35					6.53275e-17	7.01328e-17	1	1	0		A	73744204	A	A	73744204	3	1	66	1	0	0	0	0	1	0	0	0	14433	680	24	5	818	5	SLC16A2	23	73744204	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2920262	73744204	81526356	1602	45678											
MAGEE2	139599	broad.mit.edu	37	chrX	75004553	75004553	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaactccagcatctcggActgctggatagacccctccg	10	7	10	14	2	1	2	0	0	1	2	4	5	3	4	4	2	3	2	4	2	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:75004553A>C	uc004ecj.1	-	1	519	c.334T>G	c.(334-336)TCC>GCC	p.S112A		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	112	MAGE 1.									ovary(1)|skin(1)	2						AGCATCTCGGACTGCTGGATA	0.527													6	22					0	0	1	0	0		C	75004553	C	C	75004553	3	2	66	1	0	0	0	0	1	0	0	0	9204	275	10	5	1241	5	MAGEE2	23	75004553	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1260349	75004553	80266007	1603	45679											
ATRX	546	broad.mit.edu	37	chrX	76814141	76814141	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagaattataaacctaccTgagctaagaacctatataca	19	9	5	8	0	0	3	0	1	0	2	0	4	0	3	3	0	5	1	3	0	11	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:76814141T>C	uc004ecp.3	-	29	6735	c.6503A>G	c.(6502-6504)CAG>CGG	p.Q2168R	ATRX_uc004ecq.3_Missense_Mutation_p.Q2130R|ATRX_uc004eco.3_Missense_Mutation_p.Q1953R	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	2168	Helicase C-terminal.				DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TAAACCTACCTGAGCTAAGAA	0.328			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						45	85					0	0	1	0	0		C	76814141	C	C	76814141	3	2	66	1	0	0	0	0	1	0	0	0	1209	1594	55	3	1003	3	ATRX	23	76814141	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1809588	76814141	78456419	1604	45680											
MAGT1	84061	broad.mit.edu	37	chrX	77111078	77111078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaccagatgtcatagcaaGcacaaaacactaggaaacaa	19	6	7	9	0	1	2	1	1	0	1	1	3	1	3	1	1	4	2	1	1	7	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:77111078G>A	uc004fof.2	-	6	840	c.778C>T	c.(778-780)CTT>TTT	p.L260F	MAGT1_uc004fog.3_Intron	NM_032121	NP_115497	Q9H0U3	MAGT1_HUMAN	magnesium transporter 1	228	Helical; (Potential).				protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				upper_aerodigestive_tract(1)	1						GTCATAGCAAGCACAAAACAC	0.373													8	38					0	0	1	0	0		A	77111078	A	A	77111078	3	1	66	1	0	0	0	0	1	0	0	0	9214	971	34	2	345	2	MAGT1	23	77111078	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	296937	77111078	78159482	1605	45681											
PGAM4	441531	broad.mit.edu	37	chrX	77224949	77224949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccagagggtccggatcaCtctcttctgcactgaggtga	7	11	12	11	1	3	3	1	2	2	1	6	4	5	4	2	3	1	1	2	3	0	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:77224949C>T	uc004ecy.1	-	1	187	c.187G>A	c.(187-189)GTG>ATG	p.V63M	ATP7A_uc004ecw.2_Intron|ATP7A_uc004ecx.3_Intron	NM_001029891	NP_001025062	Q8N0Y7	PGAM4_HUMAN	bisphosphoglycerate mutase 4	63					glycolysis		2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity|phosphoglycerate mutase activity				0						GTCCGGATCACTCTCTTCTGC	0.607													42	116					0	0	1	0	0		T	77224949	T	T	77224949	3	4	66	1	0	0	0	0	1	0	0	0	11794	565	20	4	581	4	PGAM4	23	77224949	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	113871	77224949	78045611	1606	45682											
DACH2	117154	broad.mit.edu	37	chrX	85769380	85769380	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcctcttatcgccaggacTtatcactccgacaggtaata	11	10	8	12	2	2	0	1	0	1	0	4	2	3	1	3	3	0	1	3	3	4	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:85769380T>G	uc004eew.2	+	3	796	c.626T>G	c.(625-627)CTT>CGT	p.L209R	DACH2_uc004eex.2_Missense_Mutation_p.L196R|DACH2_uc010nmq.2_Missense_Mutation_p.L75R|DACH2_uc011mra.1_Missense_Mutation_p.L42R|DACH2_uc010nmr.2_5'UTR	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	209					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						TCGCCAGGACTTATCACTCCG	0.493													5	13					0	0	1	0	0		G	85769380	G	G	85769380	3	3	66	1	0	0	0	0	1	0	0	0	4224	1609	56	5	636	5	DACH2	23	85769380	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	8544431	85769380	69501180	1607	45683											
KLHL4	56062	broad.mit.edu	37	chrX	86890732	86890732	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgtaggggggcatgatgccCctgcttccaaccattgctcc	6	11	11	13	0	0	1	0	1	0	0	2	1	2	1	5	3	4	4	5	3	2	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:86890732C>A	uc004efb.2	+	9	2064	c.1882C>A	c.(1882-1884)CCT>ACT	p.P628T	KLHL4_uc004efa.2_Missense_Mutation_p.P628T	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	628	Kelch 5.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GCATGATGCCCCTGCTTCCAA	0.408													19	27					5.03518e-11	5.30557e-11	1	1	0		A	86890732	A	A	86890732	3	1	66	1	0	0	0	0	1	0	0	0	8407	623	22	5	1916	5	KLHL4	23	86890732	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1121352	86890732	68379828	1608	45684											
CPXCR1	53336	broad.mit.edu	37	chrX	88008751	88008751	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttaaatgatagatcaagatcCcactcagggaaagttgagat	16	10	9	6	0	2	4	2	2	0	3	3	6	3	5	1	1	0	1	1	1	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:88008751C>A	uc004efd.3	+	3	595	c.336C>A	c.(334-336)TCC>TCA	p.S112S	CPXCR1_uc004efc.3_Silent_p.S112S	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	112						intracellular	zinc ion binding			ovary(3)	3						GATCAAGATCCCACTCAGGGA	0.393													17	21					3.52763e-06	3.62198e-06	1	1	0		A	88008751	A	A	88008751	2	1	66	1	0	0	0	0	0	0	0	1	3839	610	22	5		5	CPXCR1	23	88008751	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1118019	88008751	67261809	1609	45685											
PABPC5	140886	broad.mit.edu	37	chrX	90690585	90690585	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgctcagagagatggggagCggggagcctaatcctgctgg	8	7	18	8	1	1	2	1	0	0	2	2	5	2	4	2	5	4	2	2	5	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:90690585C>T	uc004efg.2	+	2	449	c.9C>T	c.(7-9)AGC>AGT	p.S3S	PABPC5_uc004eff.1_Intron	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	3						cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						AGATGGGGAGCGGGGAGCCTA	0.498													6	21					0	0	1	0	0		T	90690585	T	T	90690585	2	4	66	1	0	0	0	0	0	0	0	1	11386	767	27	1		1	PABPC5	23	90690585	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	2681834	90690585	64579975	1610	45686											
PABPC5	140886	broad.mit.edu	37	chrX	90690988	90690988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acattctgtcctgcaaagtcGtatgcgatgacaacggctct	10	11	9	11	3	2	1	0	1	2	0	4	2	3	1	1	1	3	3	1	1	3	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:90690988G>A	uc004efg.2	+	2	852	c.412G>A	c.(412-414)GTA>ATA	p.V138I	PABPC5_uc004eff.1_Intron	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	138	RRM 2.					cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						CTGCAAAGTCGTATGCGATGA	0.453													21	53					0	0	1	0	0		A	90690988	A	A	90690988	3	1	66	1	0	0	0	0	1	0	0	0	11386	1145	40	1	414	1	PABPC5	23	90690988	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	403	90690988	64579572	1611	45687											
PCDH19	57526	broad.mit.edu	37	chrX	99551563	99551563	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcacagccattgcctgcctcCcggataacgctgttgacctt	7	11	8	15	2	1	1	1	1	0	0	2	2	2	2	5	1	4	2	5	1	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:99551563C>T	uc010nmz.2	-	6	4835	c.3159G>A	c.(3157-3159)CGG>CGA	p.R1053R	PCDH19_uc004efw.3_Silent_p.R1005R|PCDH19_uc004efx.3_Silent_p.R1006R	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	1053	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						TGCCTGCCTCCCGGATAACGC	0.597													10	33					0	0	1	0	0		T	99551563	T	T	99551563	2	4	66	1	0	0	0	0	0	0	0	1	11533	610	22	4		4	PCDH19	23	99551563	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	8860575	99551563	55718997	1612	45688											
PCDH19	57526	broad.mit.edu	37	chrX	99662739	99662739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgatctgaaagagctcgCgcgtgcggtcgttgacgtag	7	9	16	9	7	1	3	0	2	1	1	4	4	1	3	0	2	2	3	0	2	2	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:99662739C>T	uc010nmz.2	-	1	2533	c.857G>A	c.(856-858)CGC>CAC	p.R286H	PCDH19_uc004efw.3_Missense_Mutation_p.R286H|PCDH19_uc004efx.3_Missense_Mutation_p.R286H	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	286	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						AAAGAGCTCGCGCGTGCGGTC	0.607													23	61					0	0	1	0	0		T	99662739	T	T	99662739	3	4	66	1	0	0	0	0	1	0	0	0	11533	768	27	1	2613	1	PCDH19	23	99662739	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	111176	99662739	55607821	1613	45689											
TCEAL1	9338	broad.mit.edu	37	chrX	102884976	102884978	+	In_Frame_Del	DEL	GGA	-	-																															tcttcggaggagcagtcctcGgaggaggagttctttcctga																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:102884976_102884978delGGA	uc004eks.2	+	3	306_308	c.132_134delGGA	c.(130-135)TCGGAG>TCG	p.E47del	TCEAL1_uc004ekt.2_In_Frame_Del_p.E47del|TCEAL1_uc004eku.2_In_Frame_Del_p.E47del	NM_001006640	NP_001006641	Q15170	TCAL1_HUMAN	transcription elongation factor A (SII)-like 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGCAGTCCTCGGAGGAGGAGTTC	0.64													11	16	---	---	---	---						.	-	102884978	-	-	102884976	7	5	66	1	0	1	0	1	0	0	0	0	15695	1103	39	0	134	0	TCEAL1	23	102884976	In_Frame_Del	DEL	GGA	TCGA-BR-8361-01A-11D-2340-08	3222237	102884976	52385584	1614	45690											
FAM199X	139231	broad.mit.edu	37	chrX	103411513	103411513	+	Frame_Shift_Del	DEL	C	-	-																															ttcctacgagaagtttctaaCccccgaggagcccttcccac																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:103411513delC	uc004elw.2	+	1	213	c.47delC	c.(46-48)ACCfs	p.T16fs		NM_207318	NP_997201	Q6PEV8	F199X_HUMAN	hypothetical protein LOC139231	16										ovary(1)	1						AAGTTTCTAACCCCCGAGGAG	0.687													10	6	---	---	---	---						.	-	103411513	-	-	103411513	7	5	66	1	0	1	0	1	0	0	0	0	5541	507	18	0	49	0	FAM199X	23	103411513	Frame_Shift_Del	DEL	C	TCGA-BR-8361-01A-11D-2340-08	526537	103411513	51859047	1615	45691											
ESX1	80712	broad.mit.edu	37	chrX	103495265	103495266	+	Missense_Mutation	DNP	GC	AG	AG																															tggcacaggcgccatgcgtgGcccgggtggcacaggcgcca																								rs141524947		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:103495265_103495266GC>AG	uc004ely.2	-	4	922_923	c.864_865GC>CT	c.(862-867)GGGCCA>GGCTCA	p.P289S		NM_153448	NP_703149	Q8N693	ESX1_HUMAN	extraembryonic, spermatogenesis, homeobox	289	6.|15 X 9 AA tandem repeats of P-P-x-x-P-x- P-P-x.				negative regulation of transcription, DNA-dependent|regulation of cell cycle	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCCATGCGTGGCCCGGGTGGCA	0.559													7	39					0	0	1	0	0		AG	103495266	AG	AG	103495265	3	1	66	1	0	0	0	0	1	0	0	0	5271	1203	42	2	359	2	ESX1	23	103495265	Missense_Mutation	DNP	GC	TCGA-BR-8361-01A-11D-2340-08	83752	103495265	51775295	1616	45692											
IL1RAPL2	26280	broad.mit.edu	37	chrX	104999216	104999216	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttacacaaaagtggaccAagatactttagactgtgaca	15	10	7	9	0	1	3	0	1	1	2	1	4	1	4	1	1	2	0	1	1	6	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:104999216A>G	uc004elz.1	+	10	1994	c.1238A>G	c.(1237-1239)CAA>CGA	p.Q413R		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	413	Cytoplasmic (Potential).|TIR.				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						AAAGTGGACCAAGATACTTTA	0.373													19	55					0	0	1	0	0		G	104999216	G	G	104999216	3	3	66	1	0	0	0	0	1	0	0	0	7678	130	5	3	1272	3	IL1RAPL2	23	104999216	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1503951	104999216	50271344	1617	45693											
NRK	203447	broad.mit.edu	37	chrX	105150564	105150564	+	Frame_Shift_Del	DEL	A	-	-																															ggcatcttactggaatcattAaaaaaagacagaaaaaaggt																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:105150564delA	uc004emd.2	+	11	1306	c.1003delA	c.(1003-1005)AAAfs	p.K335fs	NRK_uc010npc.1_5'UTR	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	335							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						TGGAATCATTAAAAAAAGACA	0.303										HNSCC(51;0.14)			7	7	---	---	---	---						.	-	105150564	-	-	105150564	7	5	66	1	0	1	0	1	0	0	0	0	10674	363	13	0	1045	0	NRK	23	105150564	Frame_Shift_Del	DEL	A	TCGA-BR-8361-01A-11D-2340-08	151348	105150564	50119996	1618	45694											
MORC4	79710	broad.mit.edu	37	chrX	106185767	106185767	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgctggaacaaattccttTcagccaaaacacgttccaat	13	12	5	11	1	1	0	1	0	0	0	3	1	3	1	3	1	4	2	3	1	5	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:106185767T>C	uc004emu.3	-	15	2597	c.2354A>G	c.(2353-2355)GAA>GGA	p.E785G	MORC4_uc004emp.3_Intron|MORC4_uc004emv.3_Missense_Mutation_p.E785G|MORC4_uc004emw.3_Missense_Mutation_p.E533G	NM_024657	NP_078933	Q8TE76	MORC4_HUMAN	zinc finger, CW type with coiled-coil domain 2	785	Potential.						ATP binding|zinc ion binding			ovary(1)	1						CAAATTCCTTTCAGCCAAAAC	0.423													32	91					0	0	1	0	0		C	106185767	C	C	106185767	3	2	66	1	0	0	0	0	1	0	0	0	9722	1783	62	3	471	3	MORC4	23	106185767	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	1035203	106185767	49084793	1619	45695											
VSIG1	340547	broad.mit.edu	37	chrX	107310351	107310351	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaaaccaaggcatcctcaaCgtcagtgtgttaggtatgag	13	9	10	9	1	2	1	2	1	0	0	3	1	3	1	2	2	2	3	2	2	6	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:107310351C>T	uc004eno.2	+	3	560	c.399C>T	c.(397-399)AAC>AAT	p.N133N	VSIG1_uc011msk.1_Silent_p.N169N	NM_182607	NP_872413	Q86XK7	VSIG1_HUMAN	V-set and immunoglobulin domain containing 1	133	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						GCATCCTCAACGTCAGTGTGT	0.433													60	105					0	0	1	0	0		T	107310351	T	T	107310351	2	4	66	1	0	0	0	0	0	0	0	1	17248	535	19	1		1	VSIG1	23	107310351	Silent	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1124584	107310351	47960209	1620	45696											
GUCY2F	2986	broad.mit.edu	37	chrX	108708382	108708382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgtacttacttgatcgaactCcagcttctcaggaatttcac	10	14	6	11	1	2	1	2	1	1	0	5	3	3	2	1	1	4	2	1	1	4	5	rs143967019		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:108708382C>T	uc004eod.3	-	3	1297	c.1021G>A	c.(1021-1023)GAG>AAG	p.E341K	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	341	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						TGATCGAACTCCAGCTTCTCA	0.418													55	77					0	0	1	0	0		T	108708382	T	T	108708382	3	4	66	1	0	0	0	0	1	0	0	0	6914	864	30	4	2373	4	GUCY2F	23	108708382	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1398031	108708382	46562178	1621	45697											
DCX	1641	broad.mit.edu	37	chrX	110574173	110574173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctggagacttgcttcggCgcataggaccagggctcttg	7	9	14	11	2	1	1	0	0	1	1	2	3	1	2	1	4	2	4	1	4	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:110574173C>T	uc004epd.2	-	5	1320	c.1148G>A	c.(1147-1149)CGC>CAC	p.R383H	DCX_uc011msv.1_Missense_Mutation_p.R383H|DCX_uc004epe.2_Missense_Mutation_p.R302H|DCX_uc004epf.2_Missense_Mutation_p.R302H|DCX_uc004epg.2_Missense_Mutation_p.R302H	NM_000555	NP_000546	O43602	DCX_HUMAN	doublecortin isoform a	383	Pro/Ser-rich.				axon guidance|central nervous system development|intracellular signal transduction	cytosol|microtubule associated complex	microtubule binding			central_nervous_system(2)|lung(1)|skin(1)	4						CTTGCTTCGGCGCATAGGACC	0.527													11	145					0	0	1	0	0		T	110574173	T	T	110574173	3	4	66	1	0	0	0	0	1	0	0	0	4321	768	27	1	204	1	DCX	23	110574173	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	1865791	110574173	44696387	1622	45698											
TRPC5	7224	broad.mit.edu	37	chrX	111022245	111022245	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgtaagtccctcatgtgTtttggaatttcttatcatag	8	19	7	7	0	4	0	2	0	2	0	5	1	5	1	1	1	0	2	1	1	4	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:111022245T>C	uc004epl.1	-	10	3119	c.2200A>G	c.(2200-2202)ACA>GCA	p.T734A		NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	734	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						CCCTCATGTGTTTTGGAATTT	0.323													11	17					0	0	1	0	0		C	111022245	C	C	111022245	3	2	66	1	0	0	0	0	1	0	0	0	16608	1725	60	3	729	3	TRPC5	23	111022245	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	448072	111022245	44248315	1623	45699											
ZCCHC16	340595	broad.mit.edu	37	chrX	111698264	111698264	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaactcttttttgattaccTatctcagcagttagaaagtt	12	16	5	8	0	2	2	1	1	2	1	3	2	2	2	1	0	3	3	1	0	5	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:111698264T>C	uc004epo.1	+	3	749	c.308T>C	c.(307-309)CTA>CCA	p.L103P		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	103							nucleic acid binding|zinc ion binding			ovary(1)	1						TTTGATTACCTATCTCAGCAG	0.408													52	81					0	0	1	0	0		C	111698264	C	C	111698264	3	2	66	1	0	0	0	0	1	0	0	0	17609	1522	53	3	310	3	ZCCHC16	23	111698264	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	676019	111698264	43572296	1624	45700											
AMOT	154796	broad.mit.edu	37	chrX	112025831	112025831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcctcctctttctggatgCgagcttctagagctgtgtca	5	15	9	12	1	4	1	1	0	3	1	6	3	6	2	2	1	3	2	2	1	1	4			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:112025831C>T	uc004epr.2	-	8	2177	c.2177G>A	c.(2176-2178)CGC>CAC	p.R726H	AMOT_uc004eps.2_Missense_Mutation_p.R317H|AMOT_uc011mtc.1_5'Flank|hsa-mir-4329|MI0015901_5'Flank	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	726	Potential.				actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						TTTCTGGATGCGAGCTTCTAG	0.483													24	48					0	0	1	0	0		T	112025831	T	T	112025831	3	4	66	1	0	0	0	0	1	0	0	0	582	768	27	1	1093	1	AMOT	23	112025831	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	327567	112025831	43244729	1625	45701											
AMOT	154796	broad.mit.edu	37	chrX	112054516	112054516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcatgcatcctccgaatctCgccctctagcttgtttctca	7	14	5	15	2	4	0	2	0	3	0	8	1	6	0	3	0	2	3	3	0	2	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:112054516C>T	uc004epr.2	-	3	1498	c.1498G>A	c.(1498-1500)GAG>AAG	p.E500K	AMOT_uc004eps.2_Missense_Mutation_p.E91K|AMOT_uc004ept.1_Missense_Mutation_p.E500K	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	500	Potential.				actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						CTCCGAATCTCGCCCTCTAGC	0.507													56	134					0	0	1	0	0		T	112054516	T	T	112054516	3	4	66	1	0	0	0	0	1	0	0	0	582	893	31	1	1792	1	AMOT	23	112054516	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	28685	112054516	43216044	1626	45702											
LRCH2	57631	broad.mit.edu	37	chrX	114384422	114384422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctaatctgtttgctccGcctcctttcttcactctgcc	3	19	4	15	1	5	0	1	0	4	0	7	0	7	0	4	0	2	2	4	0	1	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:114384422G>A	uc010nqe.2	-	14	1694	c.1663C>T	c.(1663-1665)CGG>TGG	p.R555W	LRCH2_uc004epz.2_Missense_Mutation_p.R555W	NM_020871	NP_065922	Q5VUJ6	LRCH2_HUMAN	leucine-rich repeats and calponin homology (CH)	555										ovary(1)	1						TGTTTGCTCCGCCTCCTTTCT	0.318													14	28					0	0	1	0	0		A	114384422	A	A	114384422	3	1	66	1	0	0	0	0	1	0	0	0	8951	1086	38	1	666	1	LRCH2	23	114384422	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2329906	114384422	40886138	1627	45703											
DOCK11	139818	broad.mit.edu	37	chrX	117817145	117817145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagtcaaatttcagagacAtggtaaaagaattatctgac	18	11	7	5	0	3	3	2	1	1	2	3	4	3	3	0	1	0	1	0	1	7	4	rs113662446		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:117817145A>G	uc004eqp.2	+	52	6130	c.6067A>G	c.(6067-6069)ATG>GTG	p.M2023V	DOCK11_uc004eqq.2_Missense_Mutation_p.M1802V	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	2023	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						TTTCAGAGACATGGTAAAAGA	0.373													27	84					0	0	1	0	0		G	117817145	G	G	117817145	3	3	66	1	0	0	0	0	1	0	0	0	4692	217	8	3	6273	3	DOCK11	23	117817145	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	3432723	117817145	37453415	1628	45704											
KIAA1210	57481	broad.mit.edu	37	chrX	118221820	118221820	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttatttcccacagtcaactGggaaagatgtctgggaagca	12	11	10	8	0	2	1	1	0	1	1	3	3	3	3	1	2	2	1	1	2	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:118221820G>A	uc004era.3	-	11	3373	c.3373C>T	c.(3373-3375)CAG>TAG	p.Q1125*		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1125										ovary(4)|skin(1)	5						ACAGTCAACTGGGAAAGATGT	0.473													30	106					0	0	1	0	0		A	118221820	A	A	118221820	4	1	66	1	0	0	0	0	0	1	0	0	8230	1357	47	4	1772	4	KIAA1210	23	118221820	Nonsense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	404675	118221820	37048740	1629	45705											
KIAA1210	57481	broad.mit.edu	37	chrX	118223448	118223448	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacaagtgcgagaaagggAcattcctggcagtcttattg	12	9	13	7	1	1	1	0	0	1	1	2	4	2	3	1	3	1	1	1	3	3	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:118223448A>T	uc004era.3	-	11	1745	c.1745T>A	c.(1744-1746)GTC>GAC	p.V582D		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	582										ovary(4)|skin(1)	5						CGAGAAAGGGACATTCCTGGC	0.483													25	76					0	0	1	0	0		T	118223448	T	T	118223448	3	4	66	1	0	0	0	0	1	0	0	0	8230	275	10	5	3400	5	KIAA1210	23	118223448	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	1628	118223448	37047112	1630	45706											
NKRF	55922	broad.mit.edu	37	chrX	118723881	118723881	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcacagcttccccagcagCttcatatttgacagttttct	8	16	5	12	0	3	1	2	1	1	0	4	1	4	1	2	0	3	4	2	0	1	7			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:118723881C>T	uc004erq.2	-	2	2160	c.1507G>A	c.(1507-1509)GCT>ACT	p.A503T	NKRF_uc004err.2_Missense_Mutation_p.A503T	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	503					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2						TCCCCAGCAGCTTCATATTTG	0.418													45	142					0	0	1	0	0		T	118723881	T	T	118723881	3	4	66	1	0	0	0	0	1	0	0	0	10466	797	28	2	569	2	NKRF	23	118723881	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	500433	118723881	36546679	1631	45707											
ANKRD58	347454	broad.mit.edu	37	chrX	118893435	118893435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccactgcgtggagggccGcgagcgcagtgggcgcgacg	6	3	19	13	7	0	0	0	0	0	0	0	3	0	1	2	3	2	2	2	3	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:118893435G>A	uc010nql.2	+	1	860	c.805G>A	c.(805-807)GCG>ACG	p.A269T		NM_001105576	NP_001099046	A6NJG2	ANR58_HUMAN	ankyrin repeat domain 58	269											0						GTGGAGGGCCGCGAGCGCAGT	0.677													4	13					0	0	1	0	0		A	118893435	A	A	118893435	3	1	66	1	0	0	0	0	1	0	0	0	684	1087	38	1	807	1	ANKRD58	23	118893435	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	169554	118893435	36377125	1632	45708											
DCAF12L1	139170	broad.mit.edu	37	chrX	125685584	125685584	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggatgttctgctggtcCtggcgcagatccaggaaaga	8	8	15	10	2	1	2	0	0	1	2	3	4	3	4	3	5	1	3	3	5	1	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:125685584C>A	uc004eul.2	-	1	1259	c.1008G>T	c.(1006-1008)CAG>CAT	p.Q336H		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	336										skin(3)|ovary(1)	4						TCTGCTGGTCCTGGCGCAGAT	0.597													15	39					3.52763e-06	3.62198e-06	1	1	0		A	125685584	A	A	125685584	3	1	66	1	0	0	0	0	1	0	0	0	4267	680	24	5	387	5	DCAF12L1	23	125685584	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	6792149	125685584	29584976	1633	45709											
DCAF12L1	139170	broad.mit.edu	37	chrX	125685809	125685809	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggcccgcaccttgcggttActggggttgatgatggccct	5	10	15	11	2	0	2	0	2	0	0	0	2	0	2	3	5	2	3	3	5	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:125685809A>G	uc004eul.2	-	1	1034	c.783T>C	c.(781-783)AGT>AGC	p.S261S		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	261	WD 3.									skin(3)|ovary(1)	4						CCTTGCGGTTACTGGGGTTGA	0.637													12	28					0	0	1	0	0		G	125685809	G	G	125685809	2	3	66	1	0	0	0	0	0	0	0	1	4267	388	14	3		3	DCAF12L1	23	125685809	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	225	125685809	29584751	1634	45710											
GPC4	2239	broad.mit.edu	37	chrX	132439844	132439845	+	Frame_Shift_Ins	INS	-	G	G																															gctgtggttgggcgttcctcINSggggtgatgtggtctgaagc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:132439844_132439845insG	uc004exc.1	-	6	1322_1323	c.1110_1111insC	c.(1108-1113)CCCGAGfs	p.P370fs	GPC4_uc011mvg.1_Frame_Shift_Ins_p.P300fs	NM_001448	NP_001439	O75487	GPC4_HUMAN	glypican 4 precursor	370_371					anatomical structure morphogenesis|cell proliferation	anchored to membrane|external side of plasma membrane|extracellular space|insoluble fraction|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	Acute lymphoblastic leukemia(192;0.000127)					GGGCGTTCCTCGGGGTGATGTG	0.545													97	186	---	---	---	---						.	G	132439845	G	G	132439844	7	5	66	1	0	1	1	0	0	0	0	0	6615	893	31	0	575	0	GPC4	23	132439844	Frame_Shift_Ins	INS	-	TCGA-BR-8361-01A-11D-2340-08	6754035	132439844	22830716	1635	45711											
DDX26B	203522	broad.mit.edu	37	chrX	134713913	134713913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaaaaacctggtagtaacGcatttgtaggaggagccaaa	15	9	10	7	1	1	0	1	0	0	0	1	2	1	2	2	3	3	4	2	3	6	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:134713913G>A	uc004eyw.3	+	15	2572	c.2209G>A	c.(2209-2211)GCA>ACA	p.A737T	DDX26B_uc004eyx.3_Missense_Mutation_p.A338T	NM_182540	NP_872346	Q5JSJ4	DX26B_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	737											0	Acute lymphoblastic leukemia(192;6.56e-05)					TGGTAGTAACGCATTTGTAGG	0.443													14	67					0	0	1	0	0		A	134713913	A	A	134713913	3	1	66	1	0	0	0	0	1	0	0	0	4356	1087	38	1	2267	1	DDX26B	23	134713913	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2274069	134713913	20556647	1636	45712											
GPR112	139378	broad.mit.edu	37	chrX	135429446	135429446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccatatactttcagtggtgGtggagttgttgccagcttgg	6	14	13	8	0	1	0	1	0	0	0	1	1	1	1	2	4	3	3	2	4	2	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:135429446G>A	uc004ezu.1	+	6	3872	c.3581G>A	c.(3580-3582)GGT>GAT	p.G1194D	GPR112_uc010nsb.1_Missense_Mutation_p.G989D|GPR112_uc010nsc.1_Missense_Mutation_p.G961D	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1194	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TTCAGTGGTGGTGGAGTTGTT	0.468													35	122					0	0	1	0	0		A	135429446	A	A	135429446	3	1	66	1	0	0	0	0	1	0	0	0	6644	1261	44	4	3591	4	GPR112	23	135429446	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	715533	135429446	19841114	1637	45713											
BRS3	680	broad.mit.edu	37	chrX	135574496	135574496	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattagtgtgacctcgttcActgggtgtagtgtgaagcag	10	12	13	6	1	1	2	1	2	0	0	2	2	1	2	1	1	1	3	1	1	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:135574496A>G	uc004ezv.1	+	3	1311	c.1162A>G	c.(1162-1164)ACT>GCT	p.T388A		NM_001727	NP_001718	P32247	BRS3_HUMAN	bombesin-like receptor 3	388	Cytoplasmic (Potential).				adult feeding behavior|glucose metabolic process|regulation of blood pressure	integral to membrane|plasma membrane	bombesin receptor activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					GACCTCGTTCACTGGGTGTAG	0.527													13	73					0	0	1	0	0		G	135574496	G	G	135574496	3	3	66	1	0	0	0	0	1	0	0	0	1525	159	6	3	1172	3	BRS3	23	135574496	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	145050	135574496	19696064	1638	45714											
GPR101	83550	broad.mit.edu	37	chrX	136112978	136112978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccgtgcttccttccttggCcttcaggctgccgtccttgg	1	13	10	17	2	1	0	1	0	0	0	4	0	4	0	7	3	2	2	7	3	0	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:136112978C>T	uc011mwh.1	-	1	856	c.856G>A	c.(856-858)GCC>ACC	p.A286T		NM_054021	NP_473362	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	286	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					CCTTCCTTGGCCTTCAGGCTG	0.612													74	104					0	0	1	0	0		T	136112978	T	T	136112978	3	4	66	1	0	0	0	0	1	0	0	0	6637	739	26	2	673	2	GPR101	23	136112978	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	538482	136112978	19157582	1639	45715											
ZIC3	7547	broad.mit.edu	37	chrX	136649719	136649719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catggagcatgtggggggccCggagcagaacaaccacgtct	10	5	15	11	2	1	1	0	0	1	1	1	3	1	3	2	5	4	2	2	5	2	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:136649719C>T	uc004fak.2	+	1	1374	c.869C>T	c.(868-870)CCG>CTG	p.P290L		NM_003413	NP_003404	O60481	ZIC3_HUMAN	zinc finger protein of the cerebellum 3	290					cell differentiation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GTGGGGGGCCCGGAGCAGAAC	0.607													21	61					0	0	1	0	0		T	136649719	T	T	136649719	3	4	66	1	0	0	0	0	1	0	0	0	17705	652	23	1	871	1	ZIC3	23	136649719	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	536741	136649719	18620841	1640	45716											
MAGEC1	9947	broad.mit.edu	37	chrX	140993747	140993747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagagttcccctgagagtaCtcaaagtccttttgagggtt	9	12	10	10	0	1	3	1	2	0	2	3	4	3	3	4	1	1	3	4	1	2	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:140993747C>T	uc004fbt.2	+	4	843	c.557C>T	c.(556-558)ACT>ATT	p.T186I	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	186							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CCTGAGAGTACTCAAAGTCCT	0.502										HNSCC(15;0.026)			21	171					0	0	1	0	0		T	140993747	T	T	140993747	3	4	66	1	0	0	0	0	1	0	0	0	9198	565	20	4	563	4	MAGEC1	23	140993747	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	4344028	140993747	14276813	1641	45717											
MAGEC1	9947	broad.mit.edu	37	chrX	140994072	140994072	+	Frame_Shift_Del	DEL	T	-	-																															cctgagagaactcagagtacTtttgagggttttccccagtc																										TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:140994072delT	uc004fbt.2	+	4	1168	c.882delT	c.(880-882)ACTfs	p.T294fs	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	294							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CTCAGAGTACTTTTGAGGGTT	0.502										HNSCC(15;0.026)			105	239	---	---	---	---						.	-	140994072	-	-	140994072	7	5	66	1	0	1	0	1	0	0	0	0	9198	1596	56	0	888	0	MAGEC1	23	140994072	Frame_Shift_Del	DEL	T	TCGA-BR-8361-01A-11D-2340-08	325	140994072	14276488	1642	45718											
MAGEC1	9947	broad.mit.edu	37	chrX	140996506	140996506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccatcctcttacaaggatGctttgaaagatgtggaagag	12	12	10	7	0	1	3	0	1	1	2	3	5	3	5	2	2	2	1	2	2	4	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:140996506G>A	uc004fbt.2	+	4	3602	c.3316G>A	c.(3316-3318)GCT>ACT	p.A1106T	MAGEC1_uc010nsl.1_Missense_Mutation_p.A173T	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	1106	MAGE.						protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TTACAAGGATGCTTTGAAAGA	0.453										HNSCC(15;0.026)			52	84					0	0	1	0	0		A	140996506	A	A	140996506	3	1	66	1	0	0	0	0	1	0	0	0	9198	1319	46	2	3322	2	MAGEC1	23	140996506	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2434	140996506	14274054	1643	45719											
SLITRK2	84631	broad.mit.edu	37	chrX	144906159	144906159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acctgcttacacaataagtgCcactgagctgctagaaaagc	14	8	8	11	0	0	2	0	1	0	1	0	2	0	2	2	0	6	3	2	0	6	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:144906159C>T	uc004fcd.2	+	5	3206	c.2216C>T	c.(2215-2217)GCC>GTC	p.A739V	SLITRK2_uc010nsp.2_Missense_Mutation_p.A739V|SLITRK2_uc010nso.2_Missense_Mutation_p.A739V|SLITRK2_uc011mwq.1_Missense_Mutation_p.A739V|SLITRK2_uc011mwr.1_Missense_Mutation_p.A739V|SLITRK2_uc011mws.1_Missense_Mutation_p.A739V|SLITRK2_uc004fcg.2_Missense_Mutation_p.A739V|SLITRK2_uc011mwt.1_Missense_Mutation_p.A739V|CXorf1_uc004fch.2_5'Flank	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	739	Cytoplasmic (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					ACAATAAGTGCCACTGAGCTG	0.507													46	108					0	0	1	0	0		T	144906159	T	T	144906159	3	4	66	1	0	0	0	0	1	0	0	0	14768	739	26	2	2218	2	SLITRK2	23	144906159	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	3909653	144906159	10364401	1644	45720											
MTMR1	8776	broad.mit.edu	37	chrX	149905231	149905231	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctccaatgtggatgggacGcattggctggaatatataag	11	11	12	7	1	1	0	0	0	1	0	2	3	1	3	1	4	0	2	1	4	5	4	rs144577498		TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:149905231G>A	uc004fei.2	+	10	1356	c.1221G>A	c.(1219-1221)ACG>ACA	p.T407T	MTMR1_uc011mya.1_Silent_p.T313T|MTMR1_uc004feh.1_Silent_p.T415T|MTMR1_uc004fej.2_RNA|MTMR1_uc010ntf.2_Intron	NM_003828	NP_003819	Q13613	MTMR1_HUMAN	myotubularin-related protein 1	407	Myotubularin phosphatase.					plasma membrane	protein tyrosine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TGGATGGGACGCATTGGCTGG	0.438													16	30					0	0	1	0	0		A	149905231	A	A	149905231	2	1	66	1	0	0	0	0	0	0	0	1	9956	1074	38	1		1	MTMR1	23	149905231	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	4999072	149905231	5365329	1645	45721											
ZNF185	7739	broad.mit.edu	37	chrX	152083707	152083707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctcaggccggagtcgcGccacatccttttcatcagct	6	10	9	16	3	3	0	3	0	0	0	5	1	4	1	4	2	2	1	4	2	0	2			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:152083707G>A	uc010ntv.1	+	3	221	c.184G>A	c.(184-186)GCC>ACC	p.A62T	ZNF185_uc011myg.1_Missense_Mutation_p.A62T|ZNF185_uc011myh.1_Missense_Mutation_p.A62T|ZNF185_uc011myi.1_Missense_Mutation_p.A62T|ZNF185_uc011myj.1_Missense_Mutation_p.A62T|ZNF185_uc011myk.1_Missense_Mutation_p.A62T|ZNF185_uc004fgw.3_5'Flank	NM_007150	NP_009081	O15231	ZN185_HUMAN	zinc finger protein 185	62						cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCGGAGTCGCGCCACATCCTT	0.622													4	18					0	0	1	0	0		A	152083707	A	A	152083707	3	1	66	1	0	0	0	0	1	0	0	0	17777	1087	38	1	194	1	ZNF185	23	152083707	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	2178476	152083707	3186853	1646	45722											
ZNF185	7739	broad.mit.edu	37	chrX	152113917	152113917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggagacccagctgtacccGctcagcaacctgcagatccc	11	5	9	16	1	1	2	1	0	0	2	2	3	2	2	4	1	5	5	4	1	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:152113917G>A	uc010ntv.1	+	16	1352	c.1315G>A	c.(1315-1317)GCT>ACT	p.A439T	ZNF185_uc011myg.1_Missense_Mutation_p.A471T|ZNF185_uc011myh.1_Missense_Mutation_p.A442T|ZNF185_uc011myi.1_Missense_Mutation_p.A410T|ZNF185_uc011myj.1_Missense_Mutation_p.A380T|ZNF185_uc011myk.1_Missense_Mutation_p.A440T|ZNF185_uc004fgw.3_Missense_Mutation_p.A218T|ZNF185_uc004fgu.2_Missense_Mutation_p.A68T|ZNF185_uc004fgv.2_Missense_Mutation_p.A136T|ZNF185_uc004fgx.2_Missense_Mutation_p.A77T	NM_007150	NP_009081	O15231	ZN185_HUMAN	zinc finger protein 185	439						cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AGCTGTACCCGCTCAGCAACC	0.627													5	5					0	0	1	0	0		A	152113917	A	A	152113917	3	1	66	1	0	0	0	0	1	0	0	0	17777	1087	38	1	1621	1	ZNF185	23	152113917	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	30210	152113917	3156643	1647	45723											
ATP2B3	492	broad.mit.edu	37	chrX	152815582	152815582	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggcttcgtcttggaccTgaagcgggacttccagcccg	5	9	14	13	3	1	1	0	1	1	0	3	3	2	3	3	3	2	2	3	3	1	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:152815582T>C	uc004fht.1	+	10	1787	c.1661T>C	c.(1660-1662)CTG>CCG	p.L554P	ATP2B3_uc004fhs.1_Missense_Mutation_p.L554P	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	554	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GTCTTGGACCTGAAGCGGGAC	0.597													9	35					0	0	1	0	0		C	152815582	C	C	152815582	3	2	66	1	0	0	0	0	1	0	0	0	1142	1580	55	3	1699	3	ATP2B3	23	152815582	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	701665	152815582	2454978	1648	45724											
PLXNB3	5365	broad.mit.edu	37	chrX	153039725	153039725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggtgaagacgctcacgCgcacccacctgtactgcgag	8	6	12	15	4	1	2	1	1	0	1	1	3	1	2	3	1	2	3	3	1	2	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:153039725C>T	uc004fii.2	+	21	3778	c.3604C>T	c.(3604-3606)CGC>TGC	p.R1202C	PLXNB3_uc010nuk.2_Missense_Mutation_p.R1225C|PLXNB3_uc011mzd.1_Missense_Mutation_p.R841C|PLXNB3_uc004fij.1_5'Flank|SRPK3_uc004fik.2_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1202	IPT/TIG 4.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					GACGCTCACGCGCACCCACCT	0.701													5	3					0	0	1	0	0		T	153039725	T	T	153039725	3	4	66	1	0	0	0	0	1	0	0	0	12144	768	27	1	3800	1	PLXNB3	23	153039725	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	224143	153039725	2230835	1649	45725											
PDZD4	57595	broad.mit.edu	37	chrX	153069256	153069256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttcactttccactccatgCgcggtgcttcagtggccgcg	4	11	10	16	4	2	0	2	0	0	0	4	0	4	0	4	2	2	1	4	2	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:153069256C>T	uc004fiz.1	-	8	2112	c.1862G>A	c.(1861-1863)CGC>CAC	p.R621H	PDZD4_uc004fiy.1_Missense_Mutation_p.R546H|PDZD4_uc004fix.2_Missense_Mutation_p.R525H|PDZD4_uc004fja.1_Missense_Mutation_p.R627H|PDZD4_uc011mze.1_Missense_Mutation_p.R512H	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	621						cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCACTCCATGCGCGGTGCTTC	0.726													5	22					0	0	1	0	0		T	153069256	T	T	153069256	3	4	66	1	0	0	0	0	1	0	0	0	11722	768	27	1	451	1	PDZD4	23	153069256	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	29531	153069256	2201304	1650	45726											
PDZD4	57595	broad.mit.edu	37	chrX	153069306	153069306	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccacccgagggccaccGgccaagctcagggggccgtg	6	2	15	18	4	1	0	1	0	0	0	1	1	1	0	7	4	1	1	7	4	1	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:153069306G>A	uc004fiz.1	-	8	2062	c.1812C>T	c.(1810-1812)GCC>GCT	p.A604A	PDZD4_uc004fiy.1_Silent_p.A529A|PDZD4_uc004fix.2_Silent_p.A508A|PDZD4_uc004fja.1_Silent_p.A610A|PDZD4_uc011mze.1_Silent_p.A495A	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	604						cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GAGGGCCACCGGCCAAGCTCA	0.736													6	15					0	0	1	0	0		A	153069306	A	A	153069306	2	1	66	1	0	0	0	0	0	0	0	1	11722	1103	39	1		1	PDZD4	23	153069306	Silent	SNP	G	TCGA-BR-8361-01A-11D-2340-08	50	153069306	2201254	1651	45727											
L1CAM	3897	broad.mit.edu	37	chrX	153135051	153135051	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgggtcaccattgtgtcActgggctgcacgttgctcag	6	12	12	11	1	3	0	3	0	0	0	3	0	3	0	1	2	2	4	1	2	0	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:153135051A>G	uc004fjb.2	-	10	1299	c.1191T>C	c.(1189-1191)AGT>AGC	p.S397S	L1CAM_uc004fjc.2_Silent_p.S397S|L1CAM_uc010nuo.2_Silent_p.S392S|L1CAM_uc004fjd.1_Silent_p.S211S	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	397	Extracellular (Potential).|Ig-like C2-type 4.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCATTGTGTCACTGGGCTGCA	0.607													8	9					0	0	1	0	0		G	153135051	G	G	153135051	2	3	66	1	0	0	0	0	0	0	0	1	8604	156	6	3		3	L1CAM	23	153135051	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	65745	153135051	2135509	1652	45728											
HCFC1	3054	broad.mit.edu	37	chrX	153229698	153229698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggggcccgtttttgggcGtctttgctttgagtctcttc	2	16	14	9	2	2	1	0	1	2	0	4	2	2	1	1	3	1	2	1	3	0	5			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:153229698G>A	uc004fjp.2	-	3	908	c.380C>T	c.(379-381)ACG>ATG	p.T127M		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	127	Kelch 2.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GTTTTTGGGCGTCTTTGCTTT	0.592													32	97					0	0	1	0	0		A	153229698	A	A	153229698	3	1	66	1	0	0	0	0	1	0	0	0	7007	1145	40	1	5823	1	HCFC1	23	153229698	Missense_Mutation	SNP	G	TCGA-BR-8361-01A-11D-2340-08	94647	153229698	2040862	1653	45729											
TKTL1	8277	broad.mit.edu	37	chrX	153541074	153541074	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggactcacctgaagtcaacAtcacagatgtaaggatgacc	15	7	9	10	0	3	3	3	2	0	1	3	5	3	5	2	2	1	1	2	2	3	1			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:153541074A>G	uc004fkg.2	+	6	1000	c.814A>G	c.(814-816)ATC>GTC	p.I272V	TKTL1_uc011mzl.1_Missense_Mutation_p.I266V|TKTL1_uc011mzm.1_Intron|TKTL1_uc004fkh.2_Missense_Mutation_p.I216V	NM_012253	NP_036385	P51854	TKTL1_HUMAN	transketolase-like 1 isoform a	272					glucose catabolic process|thiamine metabolic process	cytoplasm|nucleus	metal ion binding|transketolase activity			ovary(3)|skin(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.82e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGAAGTCAACATCACAGATGT	0.443													32	51					0	0	1	0	0		G	153541074	G	G	153541074	3	3	66	1	0	0	0	0	1	0	0	0	15960	217	8	3	836	3	TKTL1	23	153541074	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	311376	153541074	1729486	1654	45730											
FLNA	2316	broad.mit.edu	37	chrX	153581382	153581382	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcctacctgcatcgcgggtAtcaatgataaactctgcagg	10	10	10	11	2	2	1	1	1	1	0	3	1	2	1	2	2	5	3	2	2	5	3			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:153581382A>G	uc004fkk.2	-	38	6462	c.6213T>C	c.(6211-6213)GAT>GAC	p.D2071D	FLNA_uc004fki.2_Silent_p.D114D|FLNA_uc011mzn.1_Silent_p.D204D|FLNA_uc010nuu.1_Silent_p.D2063D	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2071	Filamin 19.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CATCGCGGGTATCAATGATAA	0.597													6	31					0	0	1	0	0		G	153581382	G	G	153581382	2	3	66	1	0	0	0	0	0	0	0	1	5947	446	16	3		3	FLNA	23	153581382	Silent	SNP	A	TCGA-BR-8361-01A-11D-2340-08	40308	153581382	1689178	1655	45731											
FAM3A	60343	broad.mit.edu	37	chrX	153741210	153741210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaggaggatgctgaccaCgatccatgtgacacccacac	12	5	9	15	1	0	2	0	2	0	0	1	5	1	4	4	2	1	1	4	2	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:153741210C>T	uc004fls.1	-	2	341	c.64G>A	c.(64-66)GTG>ATG	p.V22M	FAM3A_uc004flt.1_Missense_Mutation_p.R3H|FAM3A_uc011mzp.1_Missense_Mutation_p.V22M|FAM3A_uc004flu.1_Missense_Mutation_p.R3H|FAM3A_uc011mzq.1_Missense_Mutation_p.V22M|FAM3A_uc004flw.1_Missense_Mutation_p.V22M	NM_021806	NP_068578	P98173	FAM3A_HUMAN	family 3, member A protein precursor	22						extracellular region				large_intestine(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ATGCTGACCACGATCCATGTG	0.602													17	61					0	0	1	0	0		T	153741210	T	T	153741210	3	4	66	1	0	0	0	0	1	0	0	0	5570	536	19	1	660	1	FAM3A	23	153741210	Missense_Mutation	SNP	C	TCGA-BR-8361-01A-11D-2340-08	159828	153741210	1529350	1656	45732											
VBP1	7411	broad.mit.edu	37	chrX	154464613	154464613	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctggaggaagaccttgActttcttcgagatcaattta	10	14	8	9	1	2	3	1	1	1	2	4	6	3	5	2	2	0	0	2	2	3	6			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:154464613A>G	uc004fnc.2	+	5	547	c.488A>G	c.(487-489)GAC>GGC	p.D163G	VBP1_uc004fnd.2_Missense_Mutation_p.D126G	NM_003372	NP_003363	P61758	PFD3_HUMAN	von Hippel-Lindau binding protein 1	163					'de novo' posttranslational protein folding	nucleus|prefoldin complex	unfolded protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GAAGACCTTGACTTTCTTCGA	0.333													38	92					0	0	1	0	0		G	154464613	G	G	154464613	3	3	66	1	0	0	0	0	1	0	0	0	17162	275	10	3	506	3	VBP1	23	154464613	Missense_Mutation	SNP	A	TCGA-BR-8361-01A-11D-2340-08	723403	154464613	805947	1657	45733											
CLIC2	1193	broad.mit.edu	37	chrX	154528224	154528224	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctttagttcttcaggctttCtatgattattaaaaataagc	12	17	5	7	0	3	1	1	1	2	0	3	1	3	1	1	1	1	2	1	1	7	9			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:154528224C>T	uc004fnf.2	-	3	418	c.168_splice	c.e3-1	p.R56_splice	CLIC2_uc010nvj.1_Splice_Site_p.R74_splice	NM_001289	NP_001280	O15247	CLIC2_HUMAN	chloride intracellular channel 2						signal transduction	chloride channel complex|cytoplasm|nucleus	voltage-gated chloride channel activity			large_intestine(1)|ovary(1)|skin(1)	3	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TTCAGGCTTTCTATGATTATT	0.338													23	46					0	0	1	0	0		T	154528224	T	T	154528224	5	4	66	1	0	0	0	0	0	0	1	0	3529	927	32	4	592	4	CLIC2	23	154528224	Splice_Site	SNP	C	TCGA-BR-8361-01A-11D-2340-08	63611	154528224	742336	1658	45734											
IL9R	3581	broad.mit.edu	37	chrX	155232627	155232627	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcacctggctcctggccTgcatctgcatctgcacctgt	4	11	11	15	0	2	0	0	0	2	0	3	0	3	0	4	3	3	5	4	3	0	0			TCGA-BR-8361-01A-11D-2340-08	TCGA-BR-8361-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	26985e4e-fded-436d-a91c-2bec1320d1de	f1302613-5b3d-4f3c-b1d4-117355484e8e	g.chrX:155232627T>C	uc004fnv.1	+	2	264	c.85T>C	c.(85-87)TGC>CGC	p.C29R	IL9R_uc010nvn.2_Missense_Mutation_p.C8R|IL9R_uc004fnu.1_Missense_Mutation_p.C76R	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor	29					cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GCTCCTGGCCTGCATCTGCAT	0.602													14	52					0	0	1	0	0		C	155232627	C	C	155232627	3	2	66	1	0	0	0	0	1	0	0	0	7724	1580	55	3	91	3	IL9R	23	155232627	Missense_Mutation	SNP	T	TCGA-BR-8361-01A-11D-2340-08	704403	155232627	37933	1659	45735											
SPAG17	200162	broad.mit.edu	37	chr1	118550748	118550748	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctactgtcctcacagttggcGataacagtggcatagcgtga	10	10	11	10	2	1	1	1	1	0	0	2	2	2	1	1	2	3	2	1	2	3	4			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr1:118550748G>A	uc001ehk.2	-	31	4574	c.4506C>T	c.(4504-4506)ATC>ATT	p.I1502I		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1502						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		CACAGTTGGCGATAACAGTGG	0.502													8	58					0	0	0.004482	0	0		A	118550748	A	A	118550748	2	1	67	1	0	0	0	0	0	0	0	1	15004	1048	37	1		1	SPAG17	1	118550748	Silent	SNP	G	TCGA-BR-8365-01A-21D-2340-08		118550748	130699873	1	45736											
CFH	3075	broad.mit.edu	37	chr1	196696029	196696029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gattggacacagatcaattaCgtgtattcatggagtatgga	13	12	11	5	1	2	1	2	0	0	1	2	5	2	4	0	3	1	2	0	3	4	5			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr1:196696029C>T	uc001gtj.3	+	14	2435	c.2195C>T	c.(2194-2196)ACG>ATG	p.T732M		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	732	Sushi 12.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						AGATCAATTACGTGTATTCAT	0.383													8	85					0	0	0.004482	0	0		T	196696029	T	T	196696029	3	4	67	1	0	0	0	0	1	0	0	0	3286	536	19	1	2267	1	CFH	1	196696029	Missense_Mutation	SNP	C	TCGA-BR-8365-01A-21D-2340-08	78145281	196696029	52554592	2	45737											
GALNT13	114805	broad.mit.edu	37	chr2	155099307	155099307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgggttaatacgtgcccGtcttcgaggagcagctgctt	6	12	12	11	3	2	0	0	0	2	0	3	2	2	1	1	2	5	4	1	2	2	4			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr2:155099307G>A	uc002tyr.3	+	6	1142	c.575G>A	c.(574-576)CGT>CAT	p.R192H	GALNT13_uc002tyt.3_Missense_Mutation_p.R192H|GALNT13_uc010foc.1_Missense_Mutation_p.R11H	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	192	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						ATACGTGCCCGTCTTCGAGGA	0.423													4	36					0	0	0.009096	0	0		A	155099307	A	A	155099307	3	1	67	1	0	0	0	0	1	0	0	0	6226	1145	40	1	589	1	GALNT13	2	155099307	Missense_Mutation	SNP	G	TCGA-BR-8365-01A-21D-2340-08		155099307	88100066	3	45738											
CERKL	375298	broad.mit.edu	37	chr2	182409462	182409462	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcatatcttttcaggtgttTtataaattctggccgagaag	10	15	10	6	1	3	1	1	0	2	1	3	2	3	1	1	3	0	2	1	3	5	7			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr2:182409462T>G	uc002unx.2	-	12	1509	c.1408A>C	c.(1408-1410)AAA>CAA	p.K470Q	CERKL_uc002uny.2_Missense_Mutation_p.K444Q|CERKL_uc010zfm.1_Missense_Mutation_p.K426Q|CERKL_uc002unz.2_Missense_Mutation_p.K192Q|CERKL_uc002uoa.2_Missense_Mutation_p.K375Q|CERKL_uc002uob.2_Missense_Mutation_p.K192Q|CERKL_uc002uoc.2_Missense_Mutation_p.K331Q|CERKL_uc010frk.2_RNA|CERKL_uc002uod.1_Missense_Mutation_p.K239Q|CERKL_uc002unw.2_Missense_Mutation_p.K40Q	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	470					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			TTCAGGTGTTTTATAAATTCT	0.289													6	42					0	0	0.001984	0	0		G	182409462	G	G	182409462	3	3	67	1	0	0	0	0	1	0	0	0	3271	1850	64	5	280	5	CERKL	2	182409462	Missense_Mutation	SNP	T	TCGA-BR-8365-01A-21D-2340-08	27310155	182409462	60789911	4	45739											
CLK1	1195	broad.mit.edu	37	chr2	201722526	201722526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccattttctttaatgaagtcGtaagtactaagtcccaatag	13	14	6	8	1	1	1	0	1	1	0	3	1	2	1	2	0	1	2	2	0	7	8			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr2:201722526G>A	uc002uwe.2	-	7	928	c.747C>T	c.(745-747)TAC>TAT	p.Y249Y	CLK1_uc002uwd.2_Silent_p.Y72Y|CLK1_uc010zhi.1_Silent_p.Y291Y|CLK1_uc002uwf.2_Silent_p.Y23Y|CLK1_uc002uwg.2_Silent_p.Y98Y|CLK1_uc010fsv.2_RNA	NM_004071	NP_004062	P49759	CLK1_HUMAN	CDC-like kinase 1 isoform 1	249	Protein kinase.				cell proliferation	nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			pancreas(2)	2						TAATGAAGTCGTAAGTACTAA	0.363													15	77					0	0	0.020292	0	0		A	201722526	A	A	201722526	2	1	67	1	0	0	0	0	0	0	0	1	3539	1140	40	1		1	CLK1	2	201722526	Silent	SNP	G	TCGA-BR-8365-01A-21D-2340-08	19313064	201722526	41476847	5	45740											
HJURP	55355	broad.mit.edu	37	chr2	234749948	234749948	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcacttaaactttttgctTttgctttgctggaaggtaaa	9	17	7	8	0	1	0	1	0	0	0	1	1	1	1	1	2	4	4	1	2	5	7			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr2:234749948T>C	uc002vvg.2	-	8	1544	c.1478A>G	c.(1477-1479)AAA>AGA	p.K493R	HJURP_uc010znd.1_Missense_Mutation_p.K432R|HJURP_uc010zne.1_Missense_Mutation_p.K401R	NM_018410	NP_060880	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	493					cell cycle|CenH3-containing nucleosome assembly at centromere|centromeric core chromatin assembly|chromosome segregation|regulation of DNA binding|regulation of protein complex assembly	condensed chromosome kinetochore|cytoplasm|nucleolus|nucleoplasm	DNA binding|histone binding			ovary(1)	1		Breast(86;0.00204)|all_lung(227;0.00433)|Renal(207;0.00685)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0719)|Lung SC(224;0.128)		Epithelial(121;2.01e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000186)|Lung(119;0.00521)|LUSC - Lung squamous cell carcinoma(224;0.00829)		ACTTTTTGCTTTTGCTTTGCT	0.502													10	62					0	0	0.006214	0	0		C	234749948	C	C	234749948	3	2	67	1	0	0	0	0	1	0	0	0	7205	1841	64	3	776	3	HJURP	2	234749948	Missense_Mutation	SNP	T	TCGA-BR-8365-01A-21D-2340-08	33027422	234749948	8449425	6	45741											
ASTE1	28990	broad.mit.edu	37	chr3	130737361	130737361	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacctaccagggctgttgAttatggcaatcaagggcccc	9	10	11	11	0	1	1	1	1	0	0	1	1	1	1	4	3	2	4	4	3	5	4			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr3:130737361A>C	uc003env.1	-	4	1944	c.1502T>G	c.(1501-1503)ATC>AGC	p.I501S	ASTE1_uc010htm.1_Missense_Mutation_p.I501S|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	501					DNA repair		nuclease activity				0						AGGGCTGTTGATTATGGCAAT	0.433													18	104					0	0	0.008871	0	0		C	130737361	C	C	130737361	3	2	67	1	0	0	0	0	1	0	0	0	1063	333	12	5	549	5	ASTE1	3	130737361	Missense_Mutation	SNP	A	TCGA-BR-8365-01A-21D-2340-08		130737361	67285069	7	45742											
GPR87	53836	broad.mit.edu	37	chr3	151012949	151012949	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtgttctttcctggccCgtcgctcctgttgcctgaat	2	15	12	12	2	1	1	0	1	1	0	4	1	3	1	4	3	1	3	4	3	1	3			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr3:151012949C>G	uc003eyt.2	-	3	446	c.85G>C	c.(85-87)GGG>CGG	p.G29R	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_023915	NP_076404	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	29	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TTTCCTGGCCCGTCGCTCCTG	0.483													18	96					0	0	0.007413	0	0		G	151012949	G	G	151012949	3	3	67	1	0	0	0	0	1	0	0	0	6731	652	23	5	995	5	GPR87	3	151012949	Missense_Mutation	SNP	C	TCGA-BR-8365-01A-21D-2340-08	20275588	151012949	47009481	8	45743											
HDAC3	8841	broad.mit.edu	37	chr5	141014457	141014457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctgactctctgcaggaagtCaatgtagtcctcggagtgga	9	10	13	9	1	2	1	1	1	1	0	5	4	3	4	1	3	1	3	1	3	3	1			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr5:141014457C>T	uc003llf.2	-	3	268	c.202G>A	c.(202-204)GAC>AAC	p.D68N	HDAC3_uc003lle.1_Missense_Mutation_p.D11N|HDAC3_uc010jgd.1_Intron|HDAC3_uc010jge.1_Intron|RELL2_uc003lli.2_5'Flank|RELL2_uc003llh.2_5'Flank|RELL2_uc003llg.2_5'Flank|RELL2_uc010jgf.2_5'Flank	NM_003883	NP_003874	O15379	HDAC3_HUMAN	histone deacetylase 3	68	Histone deacetylase.				anti-apoptosis|cellular lipid metabolic process|negative regulation of cell cycle|negative regulation of JNK cascade|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|spindle assembly|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|spindle microtubule|transcriptional repressor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription corepressor activity|transcription factor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Vorinostat(DB02546)	TGCAGGAAGTCAATGTAGTCC	0.542													15	113					0	0	0.028581	0	0		T	141014457	T	T	141014457	3	4	67	1	0	0	0	0	1	0	0	0	7024	826	29	4	1136	4	HDAC3	5	141014457	Missense_Mutation	SNP	C	TCGA-BR-8365-01A-21D-2340-08		141014457	39900803	9	45744											
DDX56	54606	broad.mit.edu	37	chr7	44611094	44611094	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttggctgtggcagacctgGagcgcagtggaagctctcca	7	9	15	10	1	1	1	0	0	1	1	2	3	1	3	2	4	2	5	2	4	1	1			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr7:44611094G>T	uc003tlg.2	-	6	1530	c.887C>A	c.(886-888)TCC>TAC	p.S296Y	DDX56_uc003tle.2_RNA|DDX56_uc003tlf.2_Missense_Mutation_p.S232Y|DDX56_uc003tlh.2_RNA|DDX56_uc010kyg.2_Missense_Mutation_p.S296Y|DDX56_uc010kyh.1_RNA	NM_019082	NP_061955	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	296	Helicase C-terminal.				rRNA processing	nucleolus	ATP binding|ATP-dependent RNA helicase activity|identical protein binding|RNA binding			upper_aerodigestive_tract(1)	1						GGCAGACCTGGAGCGCAGTGG	0.438													6	67					0.00116845	0.00119694	0.021553	1	0		T	44611094	T	T	44611094	3	4	67	1	0	0	0	0	1	0	0	0	4377	1174	41	5	792	5	DDX56	7	44611094	Missense_Mutation	SNP	G	TCGA-BR-8365-01A-21D-2340-08		44611094	114527569	10	45745											
FBXL13	222235	broad.mit.edu	37	chr7	102572363	102572363	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagagacattcaactcttGcaagttcctacagtggccta	11	11	8	11	0	3	1	2	0	1	1	4	2	4	1	2	1	3	2	2	1	4	5	rs149803390		TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr7:102572363G>A	uc003vaq.2	-	9	1169	c.742C>T	c.(742-744)CAA>TAA	p.Q248*	FBXL13_uc010liq.1_Nonsense_Mutation_p.Q63*|FBXL13_uc010lir.1_Nonsense_Mutation_p.Q248*|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Nonsense_Mutation_p.Q248*|LRRC17_uc003vat.2_Intron|LRRC17_uc003vau.2_Intron	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	248	LRR 1.										0						TTCAACTCTTGCAAGTTCCTA	0.353													10	84					0	0	0.016723	0	0		A	102572363	A	A	102572363	4	1	67	1	0	0	0	0	0	1	0	0	5723	1328	46	2	1513	2	FBXL13	7	102572363	Nonsense_Mutation	SNP	G	TCGA-BR-8365-01A-21D-2340-08	57961269	102572363	56566300	11	45746											
XKR6	286046	broad.mit.edu	37	chr8	10755990	10755990	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcataggagtcagtggtctcCgggtctctgtaaaaatacca	11	10	11	9	1	3	0	1	0	2	0	5	1	3	1	2	3	1	2	2	3	5	3			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr8:10755990C>T	uc003wtk.1	-	3	1425	c.1398G>A	c.(1396-1398)CCG>CCA	p.P466P		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	466						integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		CAGTGGTCTCCGGGTCTCTGT	0.473													7	23					0	0	0.00308	0	0		T	10755990	T	T	10755990	2	4	67	1	0	0	0	0	0	0	0	1	17461	639	23	1		1	XKR6	8	10755990	Silent	SNP	C	TCGA-BR-8365-01A-21D-2340-08		10755990	135608032	12	45747											
NCALD	83988	broad.mit.edu	37	chr8	102731642	102731642	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcccatctccatttgcatcGaaggtgcggaagacatgctc	9	10	10	12	2	1	1	0	0	1	1	5	3	2	2	2	2	3	2	2	2	2	1			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr8:102731642G>A	uc003yke.2	-	2	585	c.216C>T	c.(214-216)TTC>TTT	p.F72F	NCALD_uc003ykf.2_Silent_p.F72F|NCALD_uc003ykg.2_Silent_p.F72F|NCALD_uc003ykh.2_Silent_p.F72F|NCALD_uc003yki.2_Silent_p.F72F|NCALD_uc003ykj.2_Silent_p.F72F|NCALD_uc003ykk.2_Silent_p.F72F|NCALD_uc003ykl.2_Silent_p.F72F	NM_032041	NP_114430	P61601	NCALD_HUMAN	neurocalcin delta	72	EF-hand 2.				synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)			CATTTGCATCGAAGGTGCGGA	0.443													21	199					0	0	0.010504	0	0		A	102731642	A	A	102731642	2	1	67	1	0	0	0	0	0	0	0	1	10220	1049	37	1		1	NCALD	8	102731642	Silent	SNP	G	TCGA-BR-8365-01A-21D-2340-08	91975652	102731642	43632380	13	45748											
SEC16A	9919	broad.mit.edu	37	chr9	139370971	139370971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagagctcctgaagctcctGagtctgcttctagcggggca	7	9	12	13	1	2	3	0	2	2	1	4	3	4	3	3	2	4	4	3	2	2	2			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr9:139370971G>A	uc004chx.2	-	3	1406	c.1097C>T	c.(1096-1098)TCA>TTA	p.S366L	SEC16A_uc004chv.3_5'Flank|SEC16A_uc004chw.2_Missense_Mutation_p.S366L|SEC16A_uc010nbn.2_Missense_Mutation_p.S366L|SEC16A_uc010nbo.1_Missense_Mutation_p.S366L	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	188					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		TGAAGCTCCTGAGTCTGCTTC	0.582													3	18					0	0	0.009096	0	0		A	139370971	A	A	139370971	3	1	67	1	0	0	0	0	1	0	0	0	14011	1294	45	4	6096	4	SEC16A	9	139370971	Missense_Mutation	SNP	G	TCGA-BR-8365-01A-21D-2340-08		139370971	1842460	14	45749											
DENND5A	23258	broad.mit.edu	37	chr11	9199806	9199806	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagggtctttatcatcatcAtcatgacacattattttgtt	11	17	5	8	0	5	1	4	1	1	0	5	1	5	1	0	1	0	1	0	1	2	6			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr11:9199806A>T	uc001mhl.2	-	8	2034	c.1779T>A	c.(1777-1779)GAT>GAA	p.D593E	DENND5A_uc010rbw.1_Missense_Mutation_p.D593E|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	593	Poly-Asp.									liver(1)	1						TATCATCATCATCATGACACA	0.458													16	165					0	0	0.028581	0	0		T	9199806	T	T	9199806	3	4	67	1	0	0	0	0	1	0	0	0	4442	214	8	5	2148	5	DENND5A	11	9199806	Missense_Mutation	SNP	A	TCGA-BR-8365-01A-21D-2340-08		9199806	125806710	15	45750											
MDM2	4193	broad.mit.edu	37	chr12	69230464	69230464	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttattaggtatatcaagttActgtgtatcaggcaggggag	11	14	12	4	0	2	0	2	0	0	0	2	1	2	1	0	4	1	4	0	4	7	7			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr12:69230464A>C	uc001sui.2	+	10	1140	c.853A>C	c.(853-855)ACT>CCT	p.T285P	MDM2_uc009zri.2_Missense_Mutation_p.T240P|MDM2_uc009zqx.2_Missense_Mutation_p.T230P|MDM2_uc009zqw.2_Intron|MDM2_uc001suk.2_Intron|MDM2_uc001sun.3_Missense_Mutation_p.T104P|MDM2_uc009zqz.2_Missense_Mutation_p.T232P|MDM2_uc009zra.2_Intron|MDM2_uc001sum.1_Intron|MDM2_uc009zrd.2_5'UTR|MDM2_uc009zrc.2_Intron|MDM2_uc009zre.2_Intron|MDM2_uc009zrf.2_Intron|MDM2_uc001suo.2_Missense_Mutation_p.T79P|MDM2_uc009zrg.2_Intron|MDM2_uc009zrh.2_Intron	NM_002392	NP_002383	Q00987	MDM2_HUMAN	mouse double minute 2 homolog isoform MDM2	279	Necessary for interaction with USP2.|ARF-binding.|Asp/Glu-rich (acidic).|Interaction with MTBP (By similarity).|Region II.				cellular response to hypoxia|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|establishment of protein localization|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein complex assembly|protein destabilization|protein localization to nucleus|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to antibiotic|synaptic transmission	cytosol|endocytic vesicle membrane|insoluble fraction|nucleolus|nucleoplasm|plasma membrane|protein complex	enzyme binding|identical protein binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|central_nervous_system(1)	3	all_cancers(1;8.46e-121)|all_epithelial(5;3.21e-36)|Lung NSC(4;2.16e-33)|all_lung(4;3.03e-31)|Glioma(1;1.9e-09)|Breast(13;1.59e-06)|all_neural(1;1.03e-05)|Melanoma(1;0.0171)|Renal(347;0.0684)		all cancers(2;8.67e-65)|GBM - Glioblastoma multiforme(2;8.89e-62)|BRCA - Breast invasive adenocarcinoma(5;2.43e-08)|Lung(24;1.5e-05)|LUAD - Lung adenocarcinoma(15;8.5e-05)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			ATATCAAGTTACTGTGTATCA	0.323			A		sarcoma|glioma|colorectal|other								28	131					0	0	0.008361	0	0		C	69230464	C	C	69230464	3	2	67	1	0	0	0	0	1	0	0	0	9431	391	14	5	891	5	MDM2	12	69230464	Missense_Mutation	SNP	A	TCGA-BR-8365-01A-21D-2340-08		69230464	64621431	16	45751											
CMKLR1	1240	broad.mit.edu	37	chr12	108686331	108686331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggagcacagagatgcagcGgtcagagctgatgatggtca	12	6	16	7	1	2	4	2	2	0	2	2	7	2	5	0	3	4	3	0	3	0	0	rs148287464	by1000genomes	TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr12:108686331G>A	uc009zuw.2	-	3	600	c.409C>T	c.(409-411)CGC>TGC	p.R137C	CMKLR1_uc001tmw.2_Missense_Mutation_p.R137C|CMKLR1_uc001tmv.2_Missense_Mutation_p.R135C|CMKLR1_uc009zuv.2_Missense_Mutation_p.R137C	NM_001142345	NP_001135817	Q99788	CML1_HUMAN	chemokine-like receptor 1 isoform a	137	Cytoplasmic (Potential).				chemotaxis|immune response|negative regulation of interleukin-12 production|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage chemotaxis|regulation of calcium-mediated signaling|skeletal system development	integral to plasma membrane	chemokine receptor activity			lung(3)|ovary(1)|pancreas(1)	5						GAGATGCAGCGGTCAGAGCTG	0.557													8	50					0	0	0.00308	0	0		A	108686331	A	A	108686331	3	1	67	1	0	0	0	0	1	0	0	0	3582	1116	39	1	716	1	CMKLR1	12	108686331	Missense_Mutation	SNP	G	TCGA-BR-8365-01A-21D-2340-08	39455867	108686331	25165564	17	45752											
SLITRK5	26050	broad.mit.edu	37	chr13	88329455	88329455	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgctgagaccgacatgcgCtccattaagtcggagctgct	8	10	11	12	4	0	1	0	1	0	1	3	4	1	2	2	1	3	4	2	1	1	2			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr13:88329455C>A	uc001vln.2	+	2	2031	c.1812C>A	c.(1810-1812)CGC>CGA	p.R604R	SLITRK5_uc010tic.1_Silent_p.R363R	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	604	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CCGACATGCGCTCCATTAAGT	0.567													20	185					4.35082e-09	4.8088e-09	0.010504	1	0		A	88329455	A	A	88329455	2	1	67	1	0	0	0	0	0	0	0	1	14771	784	28	5		5	SLITRK5	13	88329455	Silent	SNP	C	TCGA-BR-8365-01A-21D-2340-08		88329455	26840423	18	45753											
C14orf118	55668	broad.mit.edu	37	chr14	76620846	76620846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacgccgaggtcggaagcGtcgttctgacttcactcacc	9	8	11	13	5	3	1	2	1	1	0	5	4	3	2	2	2	2	1	2	2	2	2			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr14:76620846G>A	uc001xsh.2	+	2	226	c.140G>A	c.(139-141)CGT>CAT	p.R47H	C14orf118_uc001xsi.2_Missense_Mutation_p.R47H|C14orf118_uc001xsj.1_Missense_Mutation_p.R47H|C14orf118_uc001xsk.1_Missense_Mutation_p.R47H|C14orf118_uc001xsl.2_RNA	NM_017926	NP_060396	Q9NWQ4	CN118_HUMAN	hypothetical protein LOC55668 isoform 1	47	Arg-rich.									ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.0172)		GGTCGGAAGCGTCGTTCTGAC	0.582													5	51					0	0	0.014758	0	0		A	76620846	A	A	76620846	3	1	67	1	0	0	0	0	1	0	0	0	1744	1145	40	1	142	1	C14orf118	14	76620846	Missense_Mutation	SNP	G	TCGA-BR-8365-01A-21D-2340-08		76620846	30728694	19	45754											
SEPT12	124404	broad.mit.edu	37	chr16	4833960	4833960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgggtggtacaaagtacaCgcagcagtgcacccgggtgt	10	7	15	9	2	0	0	0	0	0	0	0	0	0	0	1	3	4	5	1	3	3	2	rs144420035	byFrequency	TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr16:4833960C>T	uc002cxq.2	-	5	625	c.484G>A	c.(484-486)GTG>ATG	p.V162M	SEPT12_uc002cxr.2_Intron|SEPT12_uc010bty.2_RNA	NM_144605	NP_653206	Q8IYM1	SEP12_HUMAN	septin 12 isoform 2	162					cell cycle|cell division	cleavage furrow|midbody|perinuclear region of cytoplasm|septin complex|spindle|stress fiber	GDP binding|GTP binding|phosphatidylinositol binding|protein homodimerization activity			skin(1)	1						ACAAAGTACACGCAGCAGTGC	0.632													5	53					0	0	0.00308	0	0		T	4833960	T	T	4833960	3	4	67	1	0	0	0	0	1	0	0	0	14087	536	19	1	616	1	SEPT12	16	4833960	Missense_Mutation	SNP	C	TCGA-BR-8365-01A-21D-2340-08		4833960	85520793	20	45755											
KCNH6	81033	broad.mit.edu	37	chr17	61601589	61601589	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaactcttcggctactccCgagtggaggtgatgcagcaa	9	8	13	11	3	1	1	0	1	1	0	3	4	2	2	1	3	4	3	1	3	3	2			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr17:61601589C>T	uc002jay.2	+	2	246	c.166C>T	c.(166-168)CGA>TGA	p.R56*	KCNH6_uc002jax.1_Nonsense_Mutation_p.R56*|KCNH6_uc010wpl.1_5'UTR|KCNH6_uc010wpm.1_Nonsense_Mutation_p.R56*|KCNH6_uc002jaz.1_Nonsense_Mutation_p.R56*	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	56	PAS.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	CGGCTACTCCCGAGTGGAGGT	0.617													29	170					0	0	0.008361	0	0		T	61601589	T	T	61601589	4	4	67	1	0	0	0	0	0	1	0	0	8052	644	23	1	172	1	KCNH6	17	61601589	Nonsense_Mutation	SNP	C	TCGA-BR-8365-01A-21D-2340-08		61601589	19593621	21	45756											
PITPNC1	26207	broad.mit.edu	37	chr17	65628319	65628319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctttattgatattgcctgcGatgaaattccagagcgctac	10	13	9	9	2	0	3	0	2	0	1	1	4	1	3	2	0	4	2	2	0	4	7			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr17:65628319G>A	uc002jgc.2	+	6	774	c.427G>A	c.(427-429)GAT>AAT	p.D143N	PITPNC1_uc002jgb.2_Missense_Mutation_p.D143N	NM_012417	NP_036549	Q9UKF7	PITC1_HUMAN	phosphatidylinositol transfer protein,	143					signal transduction	cytoplasm	lipid binding|phosphatidylinositol transporter activity|protein binding			skin(1)	1	all_cancers(12;3.03e-10)		BRCA - Breast invasive adenocarcinoma(8;2.08e-08)|Colorectal(3;0.198)			TATTGCCTGCGATGAAATTCC	0.358													5	45					0	0	0.014758	0	0		A	65628319	A	A	65628319	3	1	67	1	0	0	0	0	1	0	0	0	11968	1058	37	1	449	1	PITPNC1	17	65628319	Missense_Mutation	SNP	G	TCGA-BR-8365-01A-21D-2340-08	4026730	65628319	15566891	22	45757											
TUBB4	10382	broad.mit.edu	37	chr19	6495726	6495726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcatgaagaagtgcaggcGaggaaagggaaccatgttga	14	5	17	5	1	0	3	0	2	0	1	0	6	0	5	1	4	2	3	1	4	4	1			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chr19:6495726G>A	uc002mfg.1	-	4	891	c.784C>T	c.(784-786)CGC>TGC	p.R262C	TUBB4_uc002mff.1_Missense_Mutation_p.R190C|MIR220B_hsa-mir-220b|MI0005529_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	262					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		AAGTGCAGGCGAGGAAAGGGA	0.677													13	92					0	0	0.016723	0	0		A	6495726	A	A	6495726	3	1	67	1	0	0	0	0	1	0	0	0	16784	1058	37	1	554	1	TUBB4	19	6495726	Missense_Mutation	SNP	G	TCGA-BR-8365-01A-21D-2340-08		6495726	52633257	23	45758											
SATL1	340562	broad.mit.edu	37	chrX	84363373	84363373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacttgctggctgatgcctGgttgttgcacgcctggttgc	3	13	15	10	1	0	1	0	1	0	0	0	2	0	2	2	4	4	6	2	4	0	4			TCGA-BR-8365-01A-21D-2340-08	TCGA-BR-8365-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	094f7fc0-9c0c-4dad-aad5-d1b4d91b976a	10f5d5aa-736e-4108-a459-c3274df8814e	g.chrX:84363373G>A	uc011mqx.1	-	1	602	c.602C>T	c.(601-603)CCA>CTA	p.P201L	SATL1_uc004een.2_Missense_Mutation_p.P201L	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	14	Gln-rich.						N-acetyltransferase activity			breast(2)	2						GCTGATGCCTGGTTGTTGCAC	0.572													10	108					0	0	0.008291	0	0		A	84363373	A	A	84363373	3	1	67	1	0	0	0	0	1	0	0	0	13880	1348	47	4	1316	4	SATL1	23	84363373	Missense_Mutation	SNP	G	TCGA-BR-8365-01A-21D-2340-08		84363373	70907187	24	45759											
PTCHD2	57540	broad.mit.edu	37	chr1	11579842	11579842	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtctgcagccagcctccaAcacgggcagccgcggccatc	7	4	13	17	3	1	0	0	0	1	0	3	0	2	0	5	3	5	2	5	3	1	0			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:11579842A>T	uc001ash.3	+	9	2243	c.2105A>T	c.(2104-2106)AAC>ATC	p.N702I	PTCHD2_uc001asi.1_Missense_Mutation_p.N702I	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	702	Cytoplasmic (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CCAGCCTCCAACACGGGCAGC	0.657													19	61					0	0	0.038395	0	0		T	11579842	T	T	11579842	3	4	68	1	0	0	0	0	1	0	0	0	12755	43	2	5	2135	5	PTCHD2	1	11579842	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08		11579842	237670779	1	45760											
RPE65	6121	broad.mit.edu	37	chr1	68910260	68910260	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattaatctttgtaataaagTtggtctctgtgcaagcgtag	11	15	10	5	1	2	0	0	0	2	0	3	1	2	0	0	1	2	4	0	1	6	6			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:68910260T>A	uc001dei.1	-	5	503	c.449A>T	c.(448-450)AAC>ATC	p.N150I		NM_000329	NP_000320	Q16518	RPE65_HUMAN	retinal pigment epithelium-specific protein	150					visual perception	cytoplasm|plasma membrane	all-trans-retinyl-palmitate hydrolase activity|metal ion binding|retinol isomerase activity			ovary(1)	1						TGTAATAAAGTTGGTCTCTGT	0.398													18	64					0	0	0.062417	0	0		A	68910260	A	A	68910260	3	1	68	1	0	0	0	0	1	0	0	0	13570	1725	60	5	1192	5	RPE65	1	68910260	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	57330418	68910260	180340361	2	45761											
AMY2B	280	broad.mit.edu	37	chr1	104122045	104122045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaaaatctacgtttctgacGatggcaaagctcatttttct	11	16	6	8	2	4	1	1	1	3	0	4	2	4	1	0	1	2	3	0	1	4	5	rs150795802		TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:104122045G>A	uc001duq.2	+	12	2075	c.1459G>A	c.(1459-1461)GAT>AAT	p.D487N	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.D487N|AMY2B_uc001dus.1_Intron	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	487					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		CGTTTCTGACGATGGCAAAGC	0.338													42	238					0	0	0.09836	0	0		A	104122045	A	A	104122045	3	1	68	1	0	0	0	0	1	0	0	0	595	1058	37	1	1497	1	AMY2B	1	104122045	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	35211785	104122045	145128576	3	45762											
NBPF9	400818	broad.mit.edu	37	chr1	144828610	144828610	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactggatggatgttattcTactccgtcaatgtactttga	9	16	8	8	1	3	1	2	1	1	0	4	3	4	3	1	2	2	2	1	2	4	5	rs12026633	by1000genomes	TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:144828610T>G	uc009wig.1	+	23	2731	c.2655T>G	c.(2653-2655)TCT>TCG	p.S885S	NBPF9_uc010oxn.1_Silent_p.S783S|NBPF9_uc010oxo.1_Silent_p.S810S|NBPF9_uc010oxr.1_Silent_p.S912S|NBPF9_uc010oxt.1_Silent_p.S700S|NBPF9_uc001ekg.1_Silent_p.S212S|NBPF9_uc001ekk.1_Silent_p.S456S|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Silent_p.S212S|NBPF9_uc010oye.1_Intron|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Silent_p.S545S|uc001elr.3_5'Flank	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	885	NBPF 7.					cytoplasm					0						GATGTTATTCTACTCCGTCAA	0.468													30	238					0	0	0.139131	0	0		G	144828610	G	G	144828610	2	3	68	1	0	0	0	0	0	0	0	1	10218	1509	53	5		5	NBPF9	1	144828610	Silent	SNP	T	TCGA-BR-8366-01A-11D-2340-08	40706565	144828610	104422011	4	45763											
SF3B4	10262	broad.mit.edu	37	chr1	149898269	149898269	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaaccaaaagctttaccTggtggaggaagcccagaccc	12	9	9	11	0	0	1	0	0	0	1	0	3	0	3	4	3	4	1	4	3	5	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:149898269T>C	uc001etj.1	-	3	756	c.705A>G	c.(703-705)CCA>CCG	p.P235P	SF3B4_uc001eti.1_5'Flank|SF3B4_uc001etk.1_Silent_p.P235P|SF3B4_uc009wll.1_Silent_p.P235P	NM_005850	NP_005841	Q15427	SF3B4_HUMAN	splicing factor 3b, subunit 4	235						nucleoplasm|U12-type spliceosomal complex	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Breast(34;0.0009)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			AAGCTTTACCTGGTGGAGGAA	0.517													7	28					0	0	0.038147	0	0		C	149898269	C	C	149898269	2	2	68	1	0	0	0	0	0	0	0	1	14178	1594	55	3		3	SF3B4	1	149898269	Silent	SNP	T	TCGA-BR-8366-01A-11D-2340-08	5069659	149898269	99352352	5	45764											
FCRL2	79368	broad.mit.edu	37	chr1	157738349	157738349	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggttttctttcccatactGgttcctgtggcctctctgta	3	18	9	11	0	2	0	0	0	2	0	5	0	4	0	3	3	1	3	3	3	2	6			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:157738349G>T	uc001fre.2	-	5	797	c.738C>A	c.(736-738)ACC>ACA	p.T246T	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Silent_p.T246T|FCRL2_uc009wsp.2_Intron	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	246	Ig-like C2-type 3.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TTCCCATACTGGTTCCTGTGG	0.522													17	105					3.41278e-10	3.62419e-10	0.0333	1	0		T	157738349	T	T	157738349	2	4	68	1	0	0	0	0	0	0	0	1	5809	1335	47	5		5	FCRL2	1	157738349	Silent	SNP	G	TCGA-BR-8366-01A-11D-2340-08	7840080	157738349	91512272	6	45765											
CD5L	922	broad.mit.edu	37	chr1	157803288	157803288	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtctcctcctactagtcTcaagtcaaagggatctgcag	9	12	9	11	0	4	0	2	0	3	0	7	1	5	1	2	1	2	2	2	1	4	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:157803288T>C	uc001frk.3	-	5	876	c.733A>G	c.(733-735)AGA>GGA	p.R245G		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	245	SRCR 3.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CCTACTAGTCTCAAGTCAAAG	0.478													15	69					0	0	0.132662	0	0		C	157803288	C	C	157803288	3	2	68	1	0	0	0	0	1	0	0	0	3030	1559	54	3	318	3	CD5L	1	157803288	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	64939	157803288	91447333	7	45766											
SLC9A11	284525	broad.mit.edu	37	chr1	173506170	173506170	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattgttacgctgtttttcAaagctactctaaacatacat	12	15	4	10	1	2	0	1	0	1	0	2	0	2	0	1	0	5	4	1	0	6	7			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:173506170A>G	uc001giz.2	-	14	1989	c.1566T>C	c.(1564-1566)TTT>TTC	p.F522F	SLC9A11_uc009wwe.2_Silent_p.F80F|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	522					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						GCTGTTTTTCAAAGCTACTCT	0.333													15	108					0	0	0.132662	0	0		G	173506170	G	G	173506170	2	3	68	1	0	0	0	0	0	0	0	1	14736	127	5	3		3	SLC9A11	1	173506170	Silent	SNP	A	TCGA-BR-8366-01A-11D-2340-08	15702882	173506170	75744451	8	45767											
STX6	10228	broad.mit.edu	37	chr1	180957480	180957480	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctgctgttccacgatcAactggtgccagagaaatggg	10	9	11	11	1	1	1	1	0	0	1	3	3	3	1	3	2	3	2	3	2	2	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:180957480A>C	uc010pnq.1	-	6	728	c.491T>G	c.(490-492)TTG>TGG	p.L164W	STX6_uc001goo.2_Missense_Mutation_p.L164W|STX6_uc010pnr.1_Missense_Mutation_p.L63W	NM_005819	NP_005810	O43752	STX6_HUMAN	syntaxin 6	164	t-SNARE coiled-coil homology.|Cytoplasmic (Potential).				Golgi vesicle transport|intracellular protein transport|vesicle fusion	clathrin-coated vesicle|early endosome|integral to membrane|perinuclear region of cytoplasm|plasma membrane|trans-Golgi network membrane	SNAP receptor activity			ovary(1)	1						TTCCACGATCAACTGGTGCCA	0.527													7	35					0	0	0.038147	0	0		C	180957480	C	C	180957480	3	2	68	1	0	0	0	0	1	0	0	0	15374	144	5	5	288	5	STX6	1	180957480	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	7451310	180957480	68293141	9	45768											
NFASC	23114	broad.mit.edu	37	chr1	204944442	204944442	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaggaccaggtggccagAaggggcaccacggtgcagct	9	3	16	13	2	0	1	0	0	0	1	0	3	0	2	4	6	2	3	4	6	1	0			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:204944442A>G	uc001hbj.2	+	15	1930	c.1602A>G	c.(1600-1602)AGA>AGG	p.R534R	NFASC_uc001hbh.2_Silent_p.R534R|NFASC_uc010pqz.1_Silent_p.R528R|NFASC_uc010pra.1_Silent_p.R545R|NFASC_uc001hbi.2_Silent_p.R545R|NFASC_uc010prb.1_Silent_p.R545R|NFASC_uc010prc.1_Silent_p.R101R|NFASC_uc001hbk.1_Silent_p.R355R	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	534	Extracellular (Potential).|Ig-like C2-type 6.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			AGGTGGCCAGAAGGGGCACCA	0.622											OREG0014142	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	67					0	0	0.11911	0	0		G	204944442	G	G	204944442	2	3	68	1	0	0	0	0	0	0	0	1	10378	243	9	3		3	NFASC	1	204944442	Silent	SNP	A	TCGA-BR-8366-01A-11D-2340-08	23986962	204944442	44306179	10	45769											
TGFB2	7042	broad.mit.edu	37	chr1	218520217	218520217	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcccccagaagactatccTgagcccgaggaagtcccccc	10	5	9	17	1	0	3	0	1	0	2	3	5	3	4	7	1	1	0	7	1	3	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:218520217T>G	uc001hlm.2	+	1	827	c.174T>G	c.(172-174)CCT>CCG	p.P58P	TGFB2_uc001hll.2_Silent_p.P58P|TGFB2_uc001hln.2_Silent_p.P58P|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	58					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		AAGACTATCCTGAGCCCGAGG	0.627													6	43					0	0	0.021553	0	0		G	218520217	G	G	218520217	2	3	68	1	0	0	0	0	0	0	0	1	15843	1567	55	5		5	TGFB2	1	218520217	Silent	SNP	T	TCGA-BR-8366-01A-11D-2340-08	13575775	218520217	30730404	11	45770											
AHCTF1	25909	broad.mit.edu	37	chr1	247006019	247006019	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcttgttttgtttttgaCgtcctgattcgtttcgcttt	2	23	8	8	3	0	2	0	2	0	0	3	2	1	2	1	0	1	5	1	0	0	9	rs143813373	byFrequency	TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:247006019C>T	uc001ibu.1	-	34	6592	c.6585G>A	c.(6583-6585)ACG>ACA	p.T2195T	AHCTF1_uc001ibv.1_Silent_p.T2204T|AHCTF1_uc009xgs.1_Intron	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	2195	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			TTGTTTTTGACGTCCTGATTC	0.363													13	82					0	0	0.11911	0	0		T	247006019	T	T	247006019	2	4	68	1	0	0	0	0	0	0	0	1	408	523	19	1		1	AHCTF1	1	247006019	Silent	SNP	C	TCGA-BR-8366-01A-11D-2340-08	28485802	247006019	2244602	12	45771											
VN1R5	317705	broad.mit.edu	37	chr1	247419884	247419884	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttaggattcttccttttcTcatgggtcctcaacatgttc	6	18	6	11	0	4	0	2	0	3	0	8	1	6	1	2	2	1	1	2	2	2	6			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:247419884T>C	uc010pyu.1	+	2	511	c.511T>C	c.(511-513)TCA>CCA	p.S171P		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	171	Helical; Name=5; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			CTTCCTTTTCTCATGGGTCCT	0.498													31	159					0	0	0.050027	0	0		C	247419884	C	C	247419884	3	2	68	1	0	0	0	0	1	0	0	0	17207	1551	54	3	513	3	VN1R5	1	247419884	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	413865	247419884	1830737	13	45772											
NLRP3	114548	broad.mit.edu	37	chr1	247588601	247588601	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagtgaaagccaaagctaAaaagctgcagatccagccca	17	5	9	10	0	0	3	0	2	0	1	1	3	1	3	3	0	5	3	3	0	6	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:247588601A>C	uc001icr.2	+	5	1994	c.1856A>C	c.(1855-1857)AAA>ACA	p.K619T	NLRP3_uc001ics.2_Missense_Mutation_p.K619T|NLRP3_uc001icu.2_Missense_Mutation_p.K619T|NLRP3_uc001icw.2_Missense_Mutation_p.K619T|NLRP3_uc001icv.2_Missense_Mutation_p.K619T|NLRP3_uc010pyw.1_Missense_Mutation_p.K617T|NLRP3_uc001ict.1_Missense_Mutation_p.K617T	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	619					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			GCCAAAGCTAAAAAGCTGCAG	0.483													4	37					0	0	0.014758	0	0		C	247588601	C	C	247588601	3	2	68	1	0	0	0	0	1	0	0	0	10497	14	1	5	1866	5	NLRP3	1	247588601	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	168717	247588601	1662020	14	45773											
OR2G2	81470	broad.mit.edu	37	chr1	247752318	247752318	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctgtctcattcatcctggtCtcctctggctacattgccca	5	14	6	16	0	4	0	2	0	3	0	7	0	5	0	4	2	2	1	4	2	1	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr1:247752318C>T	uc010pyy.1	+	1	657	c.657C>T	c.(655-657)GTC>GTT	p.V219V		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	219	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TCATCCTGGTCTCCTCTGGCT	0.478													16	70					0	0	0.132662	0	0		T	247752318	T	T	247752318	2	4	68	1	0	0	0	0	0	0	0	1	11017	900	32	4		4	OR2G2	1	247752318	Silent	SNP	C	TCGA-BR-8366-01A-11D-2340-08	163717	247752318	1498303	15	45774											
TMEM178	130733	broad.mit.edu	37	chr2	39944200	39944200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgccgccagtatctcgtatGatttgaaccggctcccaaag	10	10	9	12	3	1	2	0	2	1	0	3	2	2	2	4	1	2	3	4	1	4	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:39944200G>A	uc002rrt.2	+	4	728	c.703G>A	c.(703-705)GAT>AAT	p.D235N	TMEM178_uc010fam.1_Missense_Mutation_p.D189N	NM_152390	NP_689603	Q8NBL3	TM178_HUMAN	transmembrane protein 178 precursor	235	Extracellular (Potential).					integral to membrane					0		all_hematologic(82;0.248)				TATCTCGTATGATTTGAACCG	0.418													15	82					0	0	0.0333	0	0		A	39944200	A	A	39944200	3	1	68	1	0	0	0	0	1	0	0	0	16120	1290	45	4	717	4	TMEM178	2	39944200	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08		39944200	203255173	16	45775											
SOCS5	9655	broad.mit.edu	37	chr2	46986595	46986595	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attagctcctggaatgactgAaataagtggggacagttctg	12	11	12	6	0	1	2	0	2	1	0	2	4	2	4	1	3	1	2	1	3	4	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:46986595A>G	uc002rvf.2	+	2	1090	c.926A>G	c.(925-927)GAA>GGA	p.E309G	SOCS5_uc010yoe.1_Missense_Mutation_p.E278G|SOCS5_uc002rvg.2_Missense_Mutation_p.E309G	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	309					cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			GGAATGACTGAAATAAGTGGG	0.453													13	51					0	0	0.105934	0	0		G	46986595	G	G	46986595	3	3	68	1	0	0	0	0	1	0	0	0	14942	246	9	3	928	3	SOCS5	2	46986595	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	7042395	46986595	196212778	17	45776											
ERLEC1	27248	broad.mit.edu	37	chr2	54014465	54014465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccttcctcaactcagcgatGacatccctttccgagtcaac	9	10	5	17	2	3	1	3	1	0	0	6	3	6	1	4	0	3	0	4	0	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:54014465G>A	uc002rxl.2	+	1	398	c.118G>A	c.(118-120)GAC>AAC	p.D40N	ASB3_uc002rxg.1_5'Flank|ASB3_uc002rxh.1_5'Flank|ASB3_uc002rxi.3_Intron|ASB3_uc010yoo.1_5'Flank|ERLEC1_uc002rxm.2_Missense_Mutation_p.D40N|ERLEC1_uc002rxn.2_Missense_Mutation_p.D40N	NM_015701	NP_056516	Q96DZ1	ERLEC_HUMAN	erlectin isoform 1	40					ER-associated protein catabolic process	endoplasmic reticulum lumen	glycoprotein binding|protein binding			ovary(2)	2						ACTCAGCGATGACATCCCTTT	0.672													4	63					0	0	0.009096	0	0		A	54014465	A	A	54014465	3	1	68	1	0	0	0	0	1	0	0	0	5239	1290	45	4	120	4	ERLEC1	2	54014465	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	7027870	54014465	189184908	18	45777											
EFEMP1	2202	broad.mit.edu	37	chr2	56144910	56144910	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttccgccggatgacaaagTtatttcggccagtctgcatt	8	12	11	10	3	1	1	0	1	1	0	3	2	2	2	3	3	1	3	3	3	2	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:56144910T>G	uc002rzh.2	-	4	737	c.407A>C	c.(406-408)AAC>ACC	p.N136T	EFEMP1_uc002rzi.2_Missense_Mutation_p.N136T|EFEMP1_uc002rzj.2_Missense_Mutation_p.N136T|EFEMP1_uc010ypc.1_Missense_Mutation_p.N78T	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	136					negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			GATGACAAAGTTATTTCGGCC	0.592													9	45					0	0	0.047766	0	0		G	56144910	G	G	56144910	3	3	68	1	0	0	0	0	1	0	0	0	4947	1725	60	5	1106	5	EFEMP1	2	56144910	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	2130445	56144910	187054463	19	45778											
RAB11FIP5	26056	broad.mit.edu	37	chr2	73303283	73303283	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggctgccctccacaggggcGgcactgaggggcttcacggg	5	5	18	13	2	1	1	1	1	0	0	2	1	2	1	2	7	1	3	2	7	0	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:73303283G>A	uc002siu.3	-	4	1837	c.1596C>T	c.(1594-1596)GCC>GCT	p.A532A	RAB11FIP5_uc002sis.3_5'UTR|RAB11FIP5_uc002sit.3_Silent_p.A454A	NM_015470	NP_056285	Q9BXF6	RFIP5_HUMAN	RAB11 family interacting protein 5 (class I)	532					protein transport	mitochondrial outer membrane|recycling endosome membrane	gamma-tubulin binding				0						CCACAGGGGCGGCACTGAGGG	0.607													13	121					0	0	0.09319	0	0		A	73303283	A	A	73303283	2	1	68	1	0	0	0	0	0	0	0	1	12922	1103	39	1		1	RAB11FIP5	2	73303283	Silent	SNP	G	TCGA-BR-8366-01A-11D-2340-08	17158373	73303283	169896090	20	45779											
PROM2	150696	broad.mit.edu	37	chr2	95947106	95947106	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgggagaacggcgagcTctttgaggtaggcctgtctc	7	9	16	9	2	2	2	0	1	2	1	3	5	2	2	1	4	3	3	1	4	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:95947106T>C	uc002suh.1	+	12	1677	c.1544T>C	c.(1543-1545)CTC>CCC	p.L515P	PROM2_uc002sui.2_Missense_Mutation_p.L515P|PROM2_uc002suj.2_Missense_Mutation_p.L169P|PROM2_uc002suk.2_Missense_Mutation_p.L515P|PROM2_uc002sul.2_Missense_Mutation_p.L41P|PROM2_uc002sum.2_RNA	NM_144707	NP_653308	Q8N271	PROM2_HUMAN	prominin 2 precursor	515	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|cilium membrane|integral to membrane|microvillus membrane				ovary(1)	1						AACGGCGAGCTCTTTGAGGTA	0.642													4	26					0	0	0.009096	0	0		C	95947106	C	C	95947106	3	2	68	1	0	0	0	0	1	0	0	0	12578	1551	54	3	1590	3	PROM2	2	95947106	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	22643823	95947106	147252267	21	45780											
SLC9A2	6549	broad.mit.edu	37	chr2	103318883	103318883	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgattgtcgtgaagaaaaAataaggaaggtcacgtccag	16	8	12	5	2	1	3	1	2	0	1	3	4	2	4	1	2	0	0	1	2	6	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:103318883A>C	uc002tca.2	+	9	1909	c.1767A>C	c.(1765-1767)AAA>AAC	p.K589N		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	589	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						GTGAAGAAAAAATAAGGAAGG	0.303													9	49					0	0	0.047766	0	0		C	103318883	C	C	103318883	3	2	68	1	0	0	0	0	1	0	0	0	14737	11	1	5	1801	5	SLC9A2	2	103318883	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	7371777	103318883	139880490	22	45781											
RGPD3	653489	broad.mit.edu	37	chr2	107049650	107049650	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgcatttcgcaaagaaccaTttttatagagaggacctcct	12	11	7	11	2	0	2	0	0	0	2	2	4	1	3	4	1	1	2	4	1	4	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:107049650T>G	uc010ywi.1	-	16	2354	c.2297A>C	c.(2296-2298)AAT>ACT	p.N766T		NM_001144013	NP_001137485	A6NKT7	RGPD3_HUMAN	RANBP2-like and GRIP domain containing 3	766					intracellular transport		binding			ovary(1)	1						CAAAGAACCATTTTTATAGAG	0.378													25	280					0	0	0.116897	0	0		G	107049650	G	G	107049650	3	3	68	1	0	0	0	0	1	0	0	0	13312	1493	52	5	3011	5	RGPD3	2	107049650	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	3730767	107049650	136149723	23	45782											
RANBP2	5903	broad.mit.edu	37	chr2	109383177	109383177	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggggcttggggaacttaaAaattctcaaaaacgaggtca	16	8	11	6	1	2	0	2	0	1	0	3	2	2	1	0	5	2	1	0	5	7	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:109383177A>T	uc002tem.3	+	20	6308	c.6182A>T	c.(6181-6183)AAA>ATA	p.K2061I		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2061	RanBD1 2.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GGGAACTTAAAAATTCTCAAA	0.388													52	319					0	0	0.139131	0	0		T	109383177	T	T	109383177	3	4	68	1	0	0	0	0	1	0	0	0	13053	14	1	5	6260	5	RANBP2	2	109383177	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	2333527	109383177	133816196	24	45783											
MERTK	10461	broad.mit.edu	37	chr2	112786254	112786254	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatgggggcagtgaggaatGggaagatctgacttctgccc	10	8	16	7	0	2	3	0	2	2	1	2	6	2	5	1	4	1	1	1	4	3	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:112786254G>A	uc002thk.1	+	19	2935	c.2813G>A	c.(2812-2814)TGG>TAG	p.W938*	MERTK_uc002thl.1_Nonsense_Mutation_p.W762*	NM_006343	NP_006334	Q12866	MERTK_HUMAN	MER receptor tyrosine kinase precursor	938	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|cell-cell signaling|leukocyte migration	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|upper_aerodigestive_tract(1)|stomach(1)|kidney(1)	9						AGTGAGGAATGGGAAGATCTG	0.542													8	44					0	0	0.038147	0	0		A	112786254	A	A	112786254	4	1	68	1	0	0	0	0	0	1	0	0	9497	1357	47	4	2887	4	MERTK	2	112786254	Nonsense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	3403077	112786254	130413119	25	45784											
TUBA3D	113457	broad.mit.edu	37	chr2	132240409	132240409	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgaggctgaagaaggCgaagaatactgaggggaggg	14	4	19	4	1	0	5	0	3	0	2	0	8	0	6	0	5	2	2	0	5	6	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:132240409C>T	uc002tsu.3	+	5	1448	c.1341C>T	c.(1339-1341)GGC>GGT	p.G447G		NM_080386	NP_525125	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	447					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(221;0.13)		CTGAAGAAGGCGAAGAATACT	0.547													19	92					0	0	0.043863	0	0		T	132240409	T	T	132240409	2	4	68	1	0	0	0	0	0	0	0	1	16773	755	27	1		1	TUBA3D	2	132240409	Silent	SNP	C	TCGA-BR-8366-01A-11D-2340-08	19454155	132240409	110958964	26	45785											
CSRNP3	80034	broad.mit.edu	37	chr2	166535277	166535277	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaacacagcaggtagaattGaatttaatcctatccgtgtt	13	13	8	7	1	0	2	0	1	0	1	2	2	2	2	2	1	2	4	2	1	6	7			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:166535277G>T	uc002udf.2	+	7	1148	c.772G>T	c.(772-774)GAA>TAA	p.E258*	CSRNP3_uc002udg.2_Nonsense_Mutation_p.E258*	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	258					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						AGGTAGAATTGAATTTAATCC	0.443													8	55					1.06961e-07	1.12099e-07	0.038147	1	0		T	166535277	T	T	166535277	4	4	68	1	0	0	0	0	0	1	0	0	3968	1291	45	5	786	5	CSRNP3	2	166535277	Nonsense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	34294868	166535277	76664096	27	45786											
FAM171B	165215	broad.mit.edu	37	chr2	187627498	187627498	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actagccaaaagagatagcaAgactaacatctggaagaagc	19	5	9	8	0	1	3	0	0	1	3	1	5	1	4	1	1	4	1	1	1	8	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr2:187627498A>G	uc002ups.2	+	8	2541	c.2429A>G	c.(2428-2430)AAG>AGG	p.K810R	FAM171B_uc002upr.1_Missense_Mutation_p.K777R|FAM171B_uc002upt.2_Missense_Mutation_p.K279R	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	810	Cytoplasmic (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						AGAGATAGCAAGACTAACATC	0.458													7	33					0	0	0.038147	0	0		G	187627498	G	G	187627498	3	3	68	1	0	0	0	0	1	0	0	0	5502	72	3	3	2459	3	FAM171B	2	187627498	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	21092221	187627498	55571875	28	45787											
SLC6A11	6538	broad.mit.edu	37	chr3	10975851	10975851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgacccctgggatctgcgCggtaagggccccaccaggag	8	5	14	14	2	1	1	0	1	1	0	1	3	1	3	5	4	1	1	5	4	1	1	rs61730121	byFrequency	TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr3:10975851C>T	uc003bvz.2	+	12	1608	c.1574C>T	c.(1573-1575)GCG>GTG	p.A525V		NM_014229	NP_055044	P48066	S6A11_HUMAN	solute carrier family 6 (neurotransmitter	525	Helical; Name=11; (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.229)		GGGATCTGCGCGGTAAGGGCC	0.592													4	59					0	0	0.009096	0	0		T	10975851	T	T	10975851	3	4	68	1	0	0	0	0	1	0	0	0	14699	782	27	1	1620	1	SLC6A11	3	10975851	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08		10975851	187046579	29	45788											
ANKRD28	23243	broad.mit.edu	37	chr3	15778572	15778572	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgaaagctgcatgatgtaAtgcagtcctccctgctcgat	10	11	9	11	1	0	2	0	2	0	0	3	3	2	2	2	0	4	5	2	0	2	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr3:15778572A>T	uc003caj.1	-	5	573	c.430T>A	c.(430-432)TTA>ATA	p.L144I	ANKRD28_uc003cai.1_5'UTR|ANKRD28_uc011avz.1_5'UTR|ANKRD28_uc003cak.1_RNA|ANKRD28_uc011awa.1_RNA|ANKRD28_uc003cal.1_Missense_Mutation_p.L174I|ANKRD28_uc003cam.2_Missense_Mutation_p.L177I	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28	144	ANK 4.					nucleoplasm	protein binding			breast(1)	1						GCATGATGTAATGCAGTCCTC	0.423													18	84					0	0	0.049695	0	0		T	15778572	T	T	15778572	3	4	68	1	0	0	0	0	1	0	0	0	656	98	4	5	2827	5	ANKRD28	3	15778572	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	4802721	15778572	182243858	30	45789											
ZNF167	55888	broad.mit.edu	37	chr3	44611431	44611431	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggtgagaacatgatgAagggttcagagttgactcca	13	8	13	7	0	1	5	1	4	0	2	2	6	2	5	1	2	2	3	1	2	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr3:44611431A>G	uc010hin.2	+	6	1217	c.829A>G	c.(829-831)AAG>GAG	p.K277E	ZNF167_uc003cnh.2_RNA|ZNF167_uc003cni.2_Intron|ZNF167_uc010hio.2_Missense_Mutation_p.K126E|ZNF167_uc003cnj.2_Missense_Mutation_p.K277E|ZNF167_uc003cnk.2_Intron	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	277	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		GAACATGATGAAGGGTTCAGA	0.428													17	82					0	0	0.038395	0	0		G	44611431	G	G	44611431	3	3	68	1	0	0	0	0	1	0	0	0	17766	247	9	3	847	3	ZNF167	3	44611431	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	28832859	44611431	153410999	31	45790											
CDCP1	64866	broad.mit.edu	37	chr3	45153868	45153868	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagatgaaagttctgttgAgggtaggcaacaacgatgtc	12	9	12	8	1	1	3	0	2	1	1	2	4	1	3	1	2	2	4	1	2	4	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr3:45153868A>C	uc003com.2	-	3	497	c.362T>G	c.(361-363)CTC>CGC	p.L121R	CDCP1_uc003con.2_Missense_Mutation_p.L121R	NM_022842	NP_073753	Q9H5V8	CDCP1_HUMAN	CUB domain-containing protein 1 isoform 1	121	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		AGTTCTGTTGAGGGTAGGCAA	0.502													26	127					0	0	0.099896	0	0		C	45153868	C	C	45153868	3	2	68	1	0	0	0	0	1	0	0	0	3096	304	11	5	2184	5	CDCP1	3	45153868	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	542437	45153868	152868562	32	45791											
SCAP	22937	broad.mit.edu	37	chr3	47456465	47456465	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acactggagaggcaggggaaCtgccccgccctggggtccct	7	5	15	14	1	0	1	0	0	0	1	1	3	1	2	4	6	2	1	4	6	1	0			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr3:47456465C>A	uc003crh.1	-	20	3413	c.3158G>T	c.(3157-3159)AGT>ATT	p.S1053I	SCAP_uc011baz.1_Missense_Mutation_p.S797I|SCAP_uc003crg.2_Missense_Mutation_p.S660I|uc003cri.2_RNA	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	1053	Interaction with SREBF2 (By similarity).|Cytoplasmic (By similarity).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		GGCAGGGGAACTGCCCCGCCC	0.592													8	29					0.00448238	0.00452005	0.047766	1	0		A	47456465	A	A	47456465	3	1	68	1	0	0	0	0	1	0	0	0	13902	565	20	5	697	5	SCAP	3	47456465	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	2302597	47456465	150565965	33	45792											
RHOA	387	broad.mit.edu	37	chr3	49413010	49413010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacaatcaccagtttcttccGgatggcagccattgctgaaa	12	10	8	11	1	2	1	1	1	1	0	3	2	3	2	3	2	3	3	3	2	3	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr3:49413010G>A	uc003cwu.2	-	2	289	c.13C>T	c.(13-15)CGG>TGG	p.R5W	RHOA_uc010hku.2_Intron	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	5					axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	AGTTTCTTCCGGATGGCAGCC	0.473													15	64					0	0	0.146539	0	0		A	49413010	A	A	49413010	3	1	68	1	0	0	0	0	1	0	0	0	13356	1115	39	1	584	1	RHOA	3	49413010	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	1956545	49413010	148609420	34	45793											
CACNA2D3	55799	broad.mit.edu	37	chr3	55038842	55038842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagccaacaaggaaagcagcGatggcgcccatggcctcctg	11	4	13	13	2	0	0	0	0	0	0	1	3	1	1	4	3	4	1	4	3	3	0			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr3:55038842G>A	uc003dhf.2	+	32	2791	c.2743G>A	c.(2743-2745)GAT>AAT	p.D915N	CACNA2D3_uc003dhg.1_Missense_Mutation_p.D821N|CACNA2D3_uc003dhh.1_RNA	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	915	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		GGAAAGCAGCGATGGCGCCCA	0.458													4	38					0	0	0.014758	0	0		A	55038842	A	A	55038842	3	1	68	1	0	0	0	0	1	0	0	0	2553	1058	37	1	2869	1	CACNA2D3	3	55038842	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	5625832	55038842	142983588	35	45794											
BBX	56987	broad.mit.edu	37	chr3	107491699	107491699	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaattttgaggcattgcaAatagatgacataatggctat	16	12	9	4	0	0	4	0	2	0	2	0	4	0	4	0	2	1	3	0	2	5	6			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr3:107491699A>C	uc010hpr.2	+	11	1458	c.1131A>C	c.(1129-1131)CAA>CAC	p.Q377H	BBX_uc003dwk.3_Missense_Mutation_p.Q377H|BBX_uc003dwl.3_Intron|BBX_uc010hps.1_Missense_Mutation_p.Q398H|BBX_uc003dwm.3_Missense_Mutation_p.Q377H|BBX_uc003dwo.3_5'Flank	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	377					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			AGGCATTGCAAATAGATGACA	0.313													15	62					0	0	0.132662	0	0		C	107491699	C	C	107491699	3	2	68	1	0	0	0	0	1	0	0	0	1344	11	1	5	1161	5	BBX	3	107491699	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	52452857	107491699	90530731	36	45795											
GHSR	2693	broad.mit.edu	37	chr3	172162986	172162986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattctgtccaggcccgagAactttcatctttcagagtgg	9	12	10	10	1	4	3	2	0	2	3	5	4	5	3	2	2	1	0	2	2	1	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr3:172162986A>G	uc003fib.1	-	2	1066	c.1066T>C	c.(1066-1068)TCT>CCT	p.S356P		NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	356	Cytoplasmic (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			CAGGCCCGAGAACTTTCATCT	0.468													10	119					0	0	0.058154	0	0		G	172162986	G	G	172162986	3	3	68	1	0	0	0	0	1	0	0	0	6390	246	9	3	38	3	GHSR	3	172162986	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	64671287	172162986	25859444	37	45796											
PIK3CA	5290	broad.mit.edu	37	chr3	178917478	178917478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttatgtaattttattaaagGttttgctatcggcatgccag	10	18	8	5	1	0	0	0	0	0	0	1	0	0	0	1	2	2	4	1	2	6	9			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr3:178917478G>A	uc003fjk.2	+	3	510	c.353G>A	c.(352-354)GGT>GAT	p.G118D		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	118					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.G118D(6)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TTTATTAAAGGTTTTGCTATC	0.338		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			8	53					0	0	0.038147	0	0		A	178917478	A	A	178917478	3	1	68	1	0	0	0	0	1	0	0	0	11932	1275	44	4	359	4	PIK3CA	3	178917478	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	6754492	178917478	19104952	38	45797											
PIK3CA	5290	broad.mit.edu	37	chr3	178917669	178917669	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaattgccaaagcacataTataataaattagataaaggt	20	10	6	5	0	0	2	0	0	0	2	0	2	0	2	1	1	2	1	1	1	10	7			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr3:178917669T>C	uc003fjk.2	+	3	701	c.544T>C	c.(544-546)TAT>CAT	p.Y182H		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	182	PI3K-RBD.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AAAGCACATATATAATAAATT	0.313		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			19	70					0	0	0.055883	0	0		C	178917669	C	C	178917669	3	2	68	1	0	0	0	0	1	0	0	0	11932	1406	49	3	550	3	PIK3CA	3	178917669	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	191	178917669	19104761	39	45798											
MASP1	5648	broad.mit.edu	37	chr3	186980342	186980342	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaacttacccacagccatgTagtgggcatcaaagcctgtg	11	8	9	13	0	1	0	1	0	0	0	1	0	1	0	4	1	4	2	4	1	4	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr3:186980342T>C	uc003frh.1	-	3	736	c.404A>G	c.(403-405)TAC>TGC	p.Y135C	MASP1_uc003fri.2_Missense_Mutation_p.Y135C|MASP1_uc003frj.2_Missense_Mutation_p.Y104C|MASP1_uc003frk.1_Missense_Mutation_p.Y135C|MASP1_uc011bse.1_Missense_Mutation_p.Y109C	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	135	Interaction with FCN2.|Interaction with MBL2.|Homodimerization (By similarity).|CUB 1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		CACAGCCATGTAGTGGGCATC	0.502													3	35					0	0	0.009096	0	0		C	186980342	C	C	186980342	3	2	68	1	0	0	0	0	1	0	0	0	9340	1638	57	3	2696	3	MASP1	3	186980342	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	8062673	186980342	11042088	40	45799											
D4S234E	27065	broad.mit.edu	37	chr4	4389469	4389469	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtcaatcagctgcagtTcccgcccccggataaggtaa	10	8	10	13	3	2	0	2	0	0	0	3	2	3	1	3	2	2	4	3	2	3	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr4:4389469T>C	uc011bvz.1	+	5	1394	c.113T>C	c.(112-114)TTC>TCC	p.F38S	D4S234E_uc011bwa.1_Missense_Mutation_p.F38S|D4S234E_uc003ghz.2_Missense_Mutation_p.F38S|D4S234E_uc003gia.2_Missense_Mutation_p.F38S|D4S234E_uc003gib.2_Missense_Mutation_p.F38S	NM_014392	NP_055207	P42857	NSG1_HUMAN	brain neuron cytoplasmic protein 1	38	Cytoplasmic (Potential).				dopamine receptor signaling pathway	Golgi membrane|integral to membrane|nucleus	dopamine receptor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.166)		CAGCTGCAGTTCCCGCCCCCG	0.637													6	35					0	0	0.021553	0	0		C	4389469	C	C	4389469	3	2	68	1	0	0	0	0	1	0	0	0	4217	1783	62	3	115	3	D4S234E	4	4389469	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08		4389469	186764807	41	45800											
SLC4A4	8671	broad.mit.edu	37	chr4	72316960	72316960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaatggggatacgccccatGatggaggtcacggaggagga	11	6	17	7	2	1	2	1	2	0	0	1	7	1	7	2	7	1	0	2	7	2	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr4:72316960G>A	uc003hfy.2	+	11	1381	c.1264G>A	c.(1264-1266)GAT>AAT	p.D422N	SLC4A4_uc010iic.2_Missense_Mutation_p.D422N|SLC4A4_uc010iib.2_Missense_Mutation_p.D422N|SLC4A4_uc003hfz.2_Missense_Mutation_p.D422N|SLC4A4_uc003hgc.3_Missense_Mutation_p.D378N|SLC4A4_uc010iid.2_5'UTR|SLC4A4_uc003hga.2_Missense_Mutation_p.D300N|SLC4A4_uc003hgb.3_Missense_Mutation_p.D378N	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	422	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			TACGCCCCATGATGGAGGTCA	0.443													5	47					0	0	0.014758	0	0		A	72316960	A	A	72316960	3	1	68	1	0	0	0	0	1	0	0	0	14681	1290	45	4	1423	4	SLC4A4	4	72316960	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	67927491	72316960	118837316	42	45801											
CENPE	1062	broad.mit.edu	37	chr4	104030045	104030045	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcggctatcaaaaaaacaAgattttggtgattcctttgg	13	13	9	6	1	1	2	1	1	0	1	3	3	2	2	1	3	1	1	1	3	5	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr4:104030045A>C	uc003hxb.1	-	48	8016	c.7926T>G	c.(7924-7926)TCT>TCG	p.S2642S	CENPE_uc003hxc.1_Silent_p.S2521S	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	2642	Globular autoinhibitory domain (By similarity).				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		CAAAAAAACAAGATTTTGGTG	0.373													12	74					0	0	0.080935	0	0		C	104030045	C	C	104030045	2	2	68	1	0	0	0	0	0	0	0	1	3233	59	3	5		5	CENPE	4	104030045	Silent	SNP	A	TCGA-BR-8366-01A-11D-2340-08	31713085	104030045	87124231	43	45802											
NDST4	64579	broad.mit.edu	37	chr4	115998026	115998026	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgacctatatggtagaattTtgatgtcagtgcattctgct	9	17	9	6	0	2	3	1	2	1	1	2	3	2	3	1	1	2	3	1	1	4	7			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr4:115998026T>G	uc003ibu.2	-	2	846	c.167A>C	c.(166-168)AAA>ACA	p.K56T	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	56	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TGGTAGAATTTTGATGTCAGT	0.413													6	55					0	0	0.021553	0	0		G	115998026	G	G	115998026	3	3	68	1	0	0	0	0	1	0	0	0	10277	1841	64	5	2503	5	NDST4	4	115998026	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	11967981	115998026	75156250	44	45803											
HSPA4L	22824	broad.mit.edu	37	chr4	128726362	128726362	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgctgatgaagctgttgcaAgaggatgtgcgttacaggta	11	11	14	5	1	0	3	0	2	0	1	0	4	0	4	0	2	5	6	0	2	4	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr4:128726362A>G	uc003ifm.2	+	9	1373	c.1120A>G	c.(1120-1122)AGA>GGA	p.R374G	HSPA4L_uc010iny.1_Missense_Mutation_p.R333G|HSPA4L_uc011cgr.1_Missense_Mutation_p.R341G	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	374					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						AGCTGTTGCAAGAGGATGTGC	0.343													5	33					0	0	0.021553	0	0		G	128726362	G	G	128726362	3	3	68	1	0	0	0	0	1	0	0	0	7429	64	3	3	1154	3	HSPA4L	4	128726362	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	12728336	128726362	62427914	45	45804											
PCDH10	57575	broad.mit.edu	37	chr4	134072953	134072953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgctggcagcccccaggCgctggctggtaacgccactg	6	5	15	15	3	0	0	0	0	0	0	0	1	0	1	3	5	2	5	3	5	1	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr4:134072953C>T	uc003iha.2	+	1	2484	c.1658C>T	c.(1657-1659)GCG>GTG	p.A553V	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.A553V	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	553	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AGCCCCCAGGCGCTGGCTGGT	0.602													7	67					0	0	0.02938	0	0		T	134072953	T	T	134072953	3	4	68	1	0	0	0	0	1	0	0	0	11526	768	27	1	1660	1	PCDH10	4	134072953	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	5346591	134072953	57081323	46	45805											
TRIM2	23321	broad.mit.edu	37	chr4	154216607	154216607	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgagcgagaagctgaacgAgctggccgaccaggacttcc	11	5	14	11	3	0	3	0	2	0	1	1	8	1	4	3	2	4	2	3	2	2	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr4:154216607A>G	uc003ing.2	+	6	1049	c.848A>G	c.(847-849)GAG>GGG	p.E283G	TRIM2_uc003inh.2_Missense_Mutation_p.E310G	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	283						cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		AAGCTGAACGAGCTGGCCGAC	0.587													3	23					0	0	0.115264	0	0		G	154216607	G	G	154216607	3	3	68	1	0	0	0	0	1	0	0	0	16520	304	11	3	951	3	TRIM2	4	154216607	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	20143654	154216607	36937669	47	45806											
GALNT7	51809	broad.mit.edu	37	chr4	174169235	174169235	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggcctcatgttgaaggAgtagaagtggacttagagtc	11	10	13	7	0	1	3	1	1	0	2	2	5	1	5	2	3	0	2	2	3	4	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr4:174169235A>G	uc003isz.3	+	2	314	c.231A>G	c.(229-231)GGA>GGG	p.G77G		NM_017423	NP_059119	Q86SF2	GALT7_HUMAN	polypeptide N-acetylgalactosaminyltransferase 7	77	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			central_nervous_system(1)	1		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;1.87e-18)|Epithelial(43;3.44e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-09)|STAD - Stomach adenocarcinoma(60;0.0019)|GBM - Glioblastoma multiforme(59;0.0119)|LUSC - Lung squamous cell carcinoma(193;0.0199)		ATGTTGAAGGAGTAGAAGTGG	0.483													6	47					0	0	0.02938	0	0		G	174169235	G	G	174169235	2	3	68	1	0	0	0	0	0	0	0	1	6233	291	11	3		3	GALNT7	4	174169235	Silent	SNP	A	TCGA-BR-8366-01A-11D-2340-08	19952628	174169235	16985041	48	45807											
WWC2	80014	broad.mit.edu	37	chr4	184233538	184233538	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagcaaggtctgaatgcagaGaagttgatgaggcaagtctc	14	8	13	6	0	2	4	0	3	2	1	3	5	2	4	0	2	2	4	0	2	5	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr4:184233538G>C	uc010irx.2	+	22	3611	c.3429G>C	c.(3427-3429)GAG>GAC	p.E1143D	WWC2_uc003ivk.3_Missense_Mutation_p.E938D|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_Missense_Mutation_p.E825D|WWC2_uc003ivn.3_Missense_Mutation_p.E658D|WWC2_uc010irz.2_Missense_Mutation_p.E484D|WWC2_uc003ivo.3_Missense_Mutation_p.E271D	NM_024949	NP_079225	Q6AWC2	WWC2_HUMAN	WW and C2 domain containing 2	1143	Potential.									ovary(2)|lung(1)	3		all_lung(41;5.28e-14)|Lung NSC(41;1.35e-13)|Colorectal(36;0.00681)|Hepatocellular(41;0.00886)|Renal(120;0.00992)|Prostate(90;0.0237)|all_hematologic(60;0.0592)|Esophageal squamous(56;0.179)|all_neural(102;0.202)		all cancers(43;3.38e-24)|Epithelial(43;1.4e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.09e-09)|GBM - Glioblastoma multiforme(59;3.33e-05)|Colorectal(24;3.58e-05)|STAD - Stomach adenocarcinoma(60;4.21e-05)|COAD - Colon adenocarcinoma(29;0.000171)|LUSC - Lung squamous cell carcinoma(40;0.0145)|READ - Rectum adenocarcinoma(43;0.242)		TGAATGCAGAGAAGTTGATGA	0.498													9	62					0	0	0.058154	0	0		C	184233538	C	C	184233538	3	2	68	1	0	0	0	0	1	0	0	0	17438	933	33	5	3515	5	WWC2	4	184233538	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	10064303	184233538	6920738	49	45808											
RAI14	26064	broad.mit.edu	37	chr5	34811167	34811167	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatggtcacagtgagatCtgtcactttctcctggatca	11	12	8	10	0	5	1	3	1	2	1	6	3	5	2	1	2	0	0	1	2	2	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr5:34811167C>A	uc003jir.2	+	8	697	c.501C>A	c.(499-501)ATC>ATA	p.I167I	RAI14_uc010iur.2_Silent_p.I167I|RAI14_uc011coj.1_Silent_p.I167I|RAI14_uc010ius.1_Silent_p.I96I|RAI14_uc003jis.2_Silent_p.I170I|RAI14_uc003jit.2_Silent_p.I167I|RAI14_uc011cok.1_Silent_p.I159I	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	167	ANK 5.					cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					ACAGTGAGATCTGTCACTTTC	0.428													31	178					3.90053e-15	4.16056e-15	0.050027	1	0		A	34811167	A	A	34811167	2	1	68	1	0	0	0	0	0	0	0	1	13033	903	32	5		5	RAI14	5	34811167	Silent	SNP	C	TCGA-BR-8366-01A-11D-2340-08		34811167	146104093	50	45809											
PCDHB5	26167	broad.mit.edu	37	chr5	140516596	140516596	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggccctgcaggcgttcgAgttccgcgtgggagccacag	6	6	16	13	5	0	0	0	0	0	0	2	3	1	1	3	3	2	3	3	3	0	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr5:140516596A>G	uc003liq.2	+	1	1797	c.1580A>G	c.(1579-1581)GAG>GGG	p.E527G		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	527	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGGCGTTCGAGTTCCGCGTG	0.687													9	73					0	0	0.069234	0	0		G	140516596	G	G	140516596	3	3	68	1	0	0	0	0	1	0	0	0	11564	304	11	3	1582	3	PCDHB5	5	140516596	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	105705429	140516596	40398664	51	45810											
PCDHB15	56121	broad.mit.edu	37	chr5	140627353	140627353	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccctttccagggcatcTggtggacgtgagcggcaccg	5	7	16	13	3	1	1	0	1	1	0	2	2	2	2	4	5	1	2	4	5	0	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr5:140627353T>A	uc003lje.2	+	1	2207	c.2207T>A	c.(2206-2208)CTG>CAG	p.L736Q		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	736	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCAGGGCATCTGGTGGACGTG	0.612													27	150					0	0	0.116897	0	0		A	140627353	A	A	140627353	3	1	68	1	0	0	0	0	1	0	0	0	11559	1580	55	5	2209	5	PCDHB15	5	140627353	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	110757	140627353	40287907	52	45811											
PCDHGA2	56113	broad.mit.edu	37	chr5	140719560	140719560	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtcacggttctggatgtgaAtgacaatgccccagaatttt	10	12	10	9	2	2	3	1	2	1	1	2	4	2	4	2	2	1	1	2	2	3	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr5:140719560A>C	uc003ljk.1	+	1	1207	c.1022A>C	c.(1021-1023)AAT>ACT	p.N341T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.N341T	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	341	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGATGTGAATGACAATGCC	0.423													25	112					0	0	0.083992	0	0		C	140719560	C	C	140719560	3	2	68	1	0	0	0	0	1	0	0	0	11573	101	4	5	1024	5	PCDHGA2	5	140719560	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	92207	140719560	40195700	53	45812											
LSM11	134353	broad.mit.edu	37	chr5	157181043	157181043	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtggatgagacctaccgaaAacctgtcctaggcaaagcat	13	8	10	10	1	0	1	0	1	0	1	1	4	1	2	4	2	3	2	4	2	5	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr5:157181043A>C	uc003lxe.1	+	3	624	c.620A>C	c.(619-621)AAA>ACA	p.K207T	LSM11_uc003lxf.1_5'Flank	NM_173491	NP_775762	P83369	LSM11_HUMAN	LSM11, U7 small nuclear RNA associated	207					histone mRNA 3'-end processing|S phase of mitotic cell cycle|termination of RNA polymerase II transcription	histone pre-mRNA 3'end processing complex|nucleoplasm|U7 snRNP	protein binding|U7 snRNA binding				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ACCTACCGAAAACCTGTCCTA	0.433													11	43					0	0	0.11911	0	0		C	157181043	C	C	157181043	3	2	68	1	0	0	0	0	1	0	0	0	9070	14	1	5	630	5	LSM11	5	157181043	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	16461483	157181043	23734217	54	45813											
TUBB2B	347733	broad.mit.edu	37	chr6	3226489	3226489	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atccacgaggatggcccgagGaacatatttgttacctgcaa	12	9	10	10	2	0	0	0	0	0	0	1	4	1	2	3	3	3	2	3	3	4	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr6:3226489G>A	uc003mvg.2	-	3	372	c.181C>T	c.(181-183)CCT>TCT	p.P61S	uc003mvi.1_5'Flank|TUBB2B_uc010jnj.2_Intron|TUBB2B_uc010jnk.2_5'UTR|TUBB2B_uc003mvh.2_Silent_p.F35F	NM_178012	NP_821080	Q9BVA1	TBB2B_HUMAN	tubulin, beta 2B	61					'de novo' posttranslational protein folding|microtubule-based movement|neuron migration|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			large_intestine(1)	1	Ovarian(93;0.0386)	all_hematologic(90;0.108)				ATGGCCCGAGGAACATATTTG	0.532													5	25					0	0	0.02938	0	0		A	3226489	A	A	3226489	3	1	68	1	0	0	0	0	1	0	0	0	16781	1174	41	4	1164	4	TUBB2B	6	3226489	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08		3226489	167888578	55	45814											
RANBP9	10048	broad.mit.edu	37	chr6	13644914	13644914	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttgcccaaaattggcatcGaccacttctcctggtgtttg	7	14	9	11	1	1	0	0	0	1	0	3	1	1	0	3	2	1	3	3	2	2	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr6:13644914G>A	uc003nbb.2	-	6	1034	c.975C>T	c.(973-975)GTC>GTT	p.V325V	RANBP9_uc003nba.2_5'UTR	NM_005493	NP_005484	Q96S59	RANB9_HUMAN	RAN binding protein 9	325	B30.2/SPRY.				axon guidance|microtubule nucleation|protein complex assembly	cytosol|microtubule associated complex|nucleus	Ran GTPase binding			lung(1)|skin(1)	2	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)			AATTGGCATCGACCACTTCTC	0.388													15	72					0	0	0.146539	0	0		A	13644914	A	A	13644914	2	1	68	1	0	0	0	0	0	0	0	1	13057	1045	37	1		1	RANBP9	6	13644914	Silent	SNP	G	TCGA-BR-8366-01A-11D-2340-08	10418425	13644914	157470153	56	45815											
GABBR1	2550	broad.mit.edu	37	chr6	29574733	29574733	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgagagtgaggacatccaTgcccaccagcaggcccactg	10	4	13	14	1	0	2	0	1	0	1	1	4	1	3	4	3	2	1	4	3	0	0			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr6:29574733T>C	uc003nmt.3	-	18	2494	c.2158A>G	c.(2158-2160)ATG>GTG	p.M720V	GABBR1_uc003nmp.3_Missense_Mutation_p.M603V|GABBR1_uc003nms.3_Missense_Mutation_p.M603V|GABBR1_uc003nmu.3_Missense_Mutation_p.M658V|GABBR1_uc011dlr.1_Missense_Mutation_p.M543V	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	720	Helical; Name=4; (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	AGGACATCCATGCCCACCAGC	0.567													9	49					0	0	0.069234	0	0		C	29574733	C	C	29574733	3	2	68	1	0	0	0	0	1	0	0	0	6169	1464	51	3	751	3	GABBR1	6	29574733	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	15929819	29574733	141540334	57	45816											
HCRTR2	3062	broad.mit.edu	37	chr6	55145185	55145185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcctggtttaccttttcaCactggcttgtatatgccaat	8	16	7	10	0	1	0	1	0	0	0	1	0	1	0	3	2	3	3	3	2	4	7			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr6:55145185C>T	uc003pcl.2	+	6	1363	c.1048C>T	c.(1048-1050)CAC>TAC	p.H350Y	HCRTR2_uc010jzv.2_RNA	NM_001526	NP_001517	O43614	OX2R_HUMAN	orexin receptor 2	350	Helical; Name=7; (Potential).				feeding behavior	integral to plasma membrane	neuropeptide receptor activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|breast(1)	6	Lung NSC(77;0.107)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			TACCTTTTCACACTGGCTTGT	0.378													13	96					0	0	0.105934	0	0		T	55145185	T	T	55145185	3	4	68	1	0	0	0	0	1	0	0	0	7018	478	17	4	1070	4	HCRTR2	6	55145185	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	25570452	55145185	115969882	58	45817											
C6orf204	387119	broad.mit.edu	37	chr6	118804953	118804953	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaattcttctctgcttttcTttgttttgttcagattcctt	4	24	4	9	0	5	1	2	0	3	1	7	1	6	1	1	0	1	3	1	0	1	10			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr6:118804953T>G	uc003pxz.1	-	7	2094	c.1506A>C	c.(1504-1506)AAA>AAC	p.K502N	C6orf204_uc003pya.1_Missense_Mutation_p.K505N	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	502	Potential.					centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		TCTGCTTTTCTTTGTTTTGTT	0.353													7	50					0	0	0.038147	0	0		G	118804953	G	G	118804953	3	3	68	1	0	0	0	0	1	0	0	0	2356	1606	56	5	939	5	C6orf204	6	118804953	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	63659768	118804953	52310114	59	45818											
EYA4	2070	broad.mit.edu	37	chr6	133846387	133846387	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagaagaagaacaggcagcaAaaaaggtaacctgtctcaaa	20	5	9	7	0	1	3	1	0	1	3	2	3	1	3	1	2	3	3	1	2	9	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr6:133846387A>G	uc003qec.3	+	19	2292	c.1834A>G	c.(1834-1836)AAA>GAA	p.K612E	EYA4_uc011ecq.1_Intron|EYA4_uc011ecr.1_Intron|EYA4_uc003qed.3_Intron|EYA4_uc003qee.3_Missense_Mutation_p.K589E|EYA4_uc011ecs.1_Missense_Mutation_p.K618E|uc003qeg.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	612					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		ACAGGCAGCAAAAAAGGTAAC	0.398													4	54					0	0	0.009096	0	0		G	133846387	G	G	133846387	3	3	68	1	0	0	0	0	1	0	0	0	5339	15	1	3	2009	3	EYA4	6	133846387	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	15041434	133846387	37268680	60	45819											
RSPH3	83861	broad.mit.edu	37	chr6	159420551	159420551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtaggtgctcggggccCgagaggtgcgatcagtcagc	7	7	18	9	3	2	1	2	0	0	1	3	3	2	1	1	5	3	2	1	5	1	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr6:159420551C>T	uc003qrx.2	-	1	648	c.458G>A	c.(457-459)CGG>CAG	p.R153Q	RSPH3_uc010kju.2_Missense_Mutation_p.R153Q|RSPH3_uc003qry.1_Missense_Mutation_p.R153Q	NM_031924	NP_114130	Q86UC2	RSPH3_HUMAN	radial spoke 3 homolog	153										ovary(1)|skin(1)	2		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.36e-16)|BRCA - Breast invasive adenocarcinoma(81;5.92e-06)		GCTCGGGGCCCGAGAGGTGCG	0.662													4	60					0	0	0.009096	0	0		T	159420551	T	T	159420551	3	4	68	1	0	0	0	0	1	0	0	0	13730	652	23	1	1256	1	RSPH3	6	159420551	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	25574164	159420551	11694516	61	45820											
TTLL2	83887	broad.mit.edu	37	chr6	167754950	167754950	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacacgcctcacaagacacTcatgccctacgcgtccctct	9	7	6	19	3	3	1	2	0	1	1	4	1	4	1	3	0	2	1	3	0	2	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr6:167754950T>C	uc003qvs.1	+	3	1650	c.1562T>C	c.(1561-1563)CTC>CCC	p.L521P	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	521					protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CACAAGACACTCATGCCCTAC	0.572													11	50					0	0	0.069234	0	0		C	167754950	C	C	167754950	3	2	68	1	0	0	0	0	1	0	0	0	16753	1551	54	3	1572	3	TTLL2	6	167754950	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	8334399	167754950	3360117	62	45821											
OSBPL3	26031	broad.mit.edu	37	chr7	24905028	24905028	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcgtgtctcaccaccacaAgaaaatgatacattgcttcc	13	10	5	13	1	1	2	1	1	1	1	4	2	2	2	3	0	2	1	3	0	4	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr7:24905028A>G	uc003sxf.2	-	7	1011	c.606T>C	c.(604-606)TCT>TCC	p.S202S	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Silent_p.S202S|OSBPL3_uc003sxh.2_Silent_p.S202S|OSBPL3_uc003sxi.2_Silent_p.S202S	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	202					lipid transport		lipid binding|protein binding			skin(1)	1						CACCACCACAAGAAAATGATA	0.403													23	168					0	0	0.069288	0	0		G	24905028	G	G	24905028	2	3	68	1	0	0	0	0	0	0	0	1	11298	59	3	3		3	OSBPL3	7	24905028	Silent	SNP	A	TCGA-BR-8366-01A-11D-2340-08		24905028	134233635	63	45822											
DPY19L1	23333	broad.mit.edu	37	chr7	35057571	35057571	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcattttcaaagaggtgtgTtatatggctcctggaaaaac	12	13	10	6	0	2	1	2	0	0	1	3	2	3	2	1	3	1	2	1	3	5	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr7:35057571T>G	uc003tem.3	-	3	260	c.115A>C	c.(115-117)ACA>CCA	p.T39P		NM_015283	NP_056098	Q2PZI1	D19L1_HUMAN	dpy-19-like 1	39						integral to membrane					0						AAGAGGTGTGTTATATGGCTC	0.323													4	52					0	0	0.014758	0	0		G	35057571	G	G	35057571	3	3	68	1	0	0	0	0	1	0	0	0	4746	1725	60	5	1992	5	DPY19L1	7	35057571	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	10152543	35057571	124081092	64	45823											
GLI3	2737	broad.mit.edu	37	chr7	42005274	42005274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtggctgtctggcagccCgggcgcgtcaaagtcaccgg	6	6	16	13	5	3	0	2	0	1	0	3	0	3	0	2	4	2	2	2	4	1	0			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr7:42005274C>T	uc011kbh.1	-	15	3488	c.3397G>A	c.(3397-3399)GGG>AGG	p.G1133R	GLI3_uc011kbg.1_Missense_Mutation_p.G1074R	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1133					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						TCTGGCAGCCCGGGCGCGTCA	0.642									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				12	115					0	0	0.09319	0	0		T	42005274	T	T	42005274	3	4	68	1	0	0	0	0	1	0	0	0	6454	652	23	1	1349	1	GLI3	7	42005274	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	6947703	42005274	117133389	65	45824											
ZSCAN21	7589	broad.mit.edu	37	chr7	99655484	99655484	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtctggtgaggagcaggAgttcgctcaagatccaagaa	13	7	14	7	1	2	4	1	1	1	3	4	6	3	6	1	3	1	3	1	3	3	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr7:99655484A>C	uc003uso.2	+	3	707	c.563A>C	c.(562-564)GAG>GCG	p.E188A	ZSCAN21_uc003usn.1_Missense_Mutation_p.E187A	NM_145914	NP_666019	Q9Y5A6	ZSC21_HUMAN	zinc finger protein 38	188					positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			GAGGAGCAGGAGTTCGCTCAA	0.542													4	20					0	0	0.009096	0	0		C	99655484	C	C	99655484	3	2	68	1	0	0	0	0	1	0	0	0	18258	304	11	5	569	5	ZSCAN21	7	99655484	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	57650210	99655484	59483179	66	45825											
STAG3	10734	broad.mit.edu	37	chr7	99808704	99808704	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagctgaacagcatcccGcccacgcccaccctcacctc	8	5	6	22	2	1	1	1	1	0	0	3	1	2	1	5	0	4	3	5	0	1	0	rs147288707		TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr7:99808704G>A	uc003utx.1	+	30	3464	c.3309G>A	c.(3307-3309)CCG>CCA	p.P1103P	STAG3_uc011kjk.1_Silent_p.P1045P|GATS_uc003uty.3_Intron|GATS_uc003utz.3_Intron|GATS_uc003uua.3_Intron|GATS_uc010lgt.2_Intron|STAG3_uc003uub.1_Silent_p.P327P	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	1103					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					ACAGCATCCCGCCCACGCCCA	0.572													11	50					0	0	0.080935	0	0		A	99808704	A	A	99808704	2	1	68	1	0	0	0	0	0	0	0	1	15269	1074	38	1		1	STAG3	7	99808704	Silent	SNP	G	TCGA-BR-8366-01A-11D-2340-08	153220	99808704	59329959	67	45826											
MET	4233	broad.mit.edu	37	chr7	116397506	116397506	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagattgaaatgcacagtTggtcctgccatgaataagca	13	10	9	9	0	0	3	0	2	0	1	2	3	2	3	3	1	3	3	3	1	3	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr7:116397506T>G	uc003vij.2	+	7	2065	c.1878T>G	c.(1876-1878)GTT>GTG	p.V626V	MET_uc010lkh.2_Silent_p.V626V|MET_uc011knd.1_Silent_p.V626V|MET_uc011kne.1_Silent_p.V598V|MET_uc011knf.1_Silent_p.V626V|MET_uc011kng.1_Silent_p.V626V|MET_uc011knh.1_Silent_p.V626V|MET_uc011kni.1_Silent_p.V626V|MET_uc011knj.1_Silent_p.V196V	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	626	Extracellular (Potential).|IPT/TIG 1.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			AATGCACAGTTGGTCCTGCCA	0.353			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				9	43					0	0	0.047766	0	0		G	116397506	G	G	116397506	2	3	68	1	0	0	0	0	0	0	0	1	9503	1799	63	5		5	MET	7	116397506	Silent	SNP	T	TCGA-BR-8366-01A-11D-2340-08	16588802	116397506	42741157	68	45827											
AKR1B1	231	broad.mit.edu	37	chr7	134136460	134136460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgatgtggcggtacccgaCgtcaatggccaccttcacgg	7	8	13	13	5	2	0	2	0	0	0	3	2	2	0	3	4	1	1	3	4	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr7:134136460C>T	uc003vrp.1	-	2	186	c.112G>A	c.(112-114)GTC>ATC	p.V38I	AKR1B1_uc003vrq.1_RNA	NM_001628	NP_001619	P15121	ALDR_HUMAN	aldo-keto reductase family 1, member B1	38					C21-steroid hormone biosynthetic process|carbohydrate metabolic process|response to stress	cytosol|extracellular space|nucleus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding			ovary(3)	3					NADH(DB00157)|Sulindac(DB00605)	CGGTACCCGACGTCAATGGCC	0.587													4	35					0	0	0.009096	0	0		T	134136460	T	T	134136460	3	4	68	1	0	0	0	0	1	0	0	0	466	536	19	1	874	1	AKR1B1	7	134136460	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	17738954	134136460	25002203	69	45828											
BRAF	673	broad.mit.edu	37	chr7	140453133	140453133	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggacccactccatcgagatTtcactgtagctagaccaaaa	13	8	8	12	1	1	2	1	0	0	2	3	4	2	3	3	1	1	2	3	1	4	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr7:140453133T>G	uc003vwc.3	-	15	1863	c.1802A>C	c.(1801-1803)AAA>ACA	p.K601T		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	601	Protein kinase.		K -> Q (in CFC syndrome).|K -> E (in colorectal cancer).		activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.K601E(47)|p.V600_K601>E(8)|p.K601N(7)|p.K601del(4)|p.K601Q(3)|p.T599_R603>I(2)|p.V600_W604del(1)|p.K601K(1)|p.K601L(1)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.K601I(1)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	CCATCGAGATTTCACTGTAGC	0.373		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				13	60					0	0	0.09319	0	0		G	140453133	G	G	140453133	3	3	68	1	0	0	0	0	1	0	0	0	1499	1841	64	5	514	5	BRAF	7	140453133	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	6316673	140453133	18685530	70	45829											
CLN8	2055	broad.mit.edu	37	chr8	1728422	1728422	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctccatgcaggcgggcTggtccgagtctctgttttgg	3	14	13	11	2	2	0	0	0	2	0	6	1	4	0	2	4	1	3	2	4	0	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr8:1728422T>G	uc003wpo.3	+	3	855	c.550T>G	c.(550-552)TGG>GGG	p.W184G		NM_018941	NP_061764	Q9UBY8	CLN8_HUMAN	ceroid-lipofuscinosis, neuronal 8	184	TLC.				cell death|ceramide biosynthetic process|cholesterol metabolic process|lipid transport|negative regulation of proteolysis|phospholipid metabolic process	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(12;0.0563)|Colorectal(14;0.0815)|Hepatocellular(245;0.0831)		BRCA - Breast invasive adenocarcinoma(11;7.67e-05)|READ - Rectum adenocarcinoma(644;0.0913)		GCAGGCGGGCTGGTCCGAGTC	0.458													11	57					0	0	0.069234	0	0		G	1728422	G	G	1728422	3	3	68	1	0	0	0	0	1	0	0	0	3549	1580	55	5	556	5	CLN8	8	1728422	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08		1728422	144635600	71	45830											
WRN	7486	broad.mit.edu	37	chr8	30938688	30938688	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatggagtagaagacaacaAattgaaagagaatatggaaa	22	6	11	2	0	0	5	0	1	0	4	0	8	0	7	0	2	1	1	0	2	8	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr8:30938688A>C	uc003xio.3	+	9	1933	c.1145A>C	c.(1144-1146)AAA>ACA	p.K382T	WRN_uc011lbd.1_Missense_Mutation_p.K85T|WRN_uc011lbe.1_5'Flank	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	382					base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		GAAGACAACAAATTGAAAGAG	0.348			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				5	44					0	0	0.014758	0	0		C	30938688	C	C	30938688	3	2	68	1	0	0	0	0	1	0	0	0	17428	14	1	5	1175	5	WRN	8	30938688	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	29210266	30938688	115425334	72	45831											
RP1	6101	broad.mit.edu	37	chr8	55542502	55542502	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggttagaggaagaaggtaaTttaaagaaatttcaaccaga	18	9	11	3	0	1	4	1	0	0	4	1	5	1	5	1	3	1	2	1	3	8	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr8:55542502T>G	uc003xsd.1	+	4	6208	c.6060T>G	c.(6058-6060)AAT>AAG	p.N2020K	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	2020					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			AAGAAGGTAATTTAAAGAAAT	0.308													11	65					0	0	0.069234	0	0		G	55542502	G	G	55542502	3	3	68	1	0	0	0	0	1	0	0	0	13557	1490	52	5	6070	5	RP1	8	55542502	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	24603814	55542502	90821520	73	45832											
ZFPM2	23414	broad.mit.edu	37	chr8	106813505	106813505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagagaaagtgacatggaaCactctccaagtgcaactgaa	16	6	9	10	0	1	3	0	2	1	1	2	5	1	4	2	1	3	1	2	1	5	0			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr8:106813505C>T	uc003ymd.2	+	8	1218	c.1195C>T	c.(1195-1197)CAC>TAC	p.H399Y	ZFPM2_uc011lhs.1_Missense_Mutation_p.H130Y|uc003yme.1_5'Flank	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	399					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			TGACATGGAACACTCTCCAAG	0.507													9	69					0	0	0.047766	0	0		T	106813505	T	T	106813505	3	4	68	1	0	0	0	0	1	0	0	0	17683	478	17	4	1225	4	ZFPM2	8	106813505	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	51271003	106813505	39550517	74	45833											
CSMD3	114788	broad.mit.edu	37	chr8	113418874	113418874	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaaaaagaaccgatgaaccGactgcaaattcattgccaat	17	8	6	10	2	2	2	2	1	0	1	2	4	2	2	3	0	4	1	3	0	6	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr8:113418874G>A	uc003ynu.2	-	35	5847	c.5688C>T	c.(5686-5688)GTC>GTT	p.V1896V	CSMD3_uc003yns.2_Silent_p.V1098V|CSMD3_uc003ynt.2_Silent_p.V1856V|CSMD3_uc011lhx.1_Silent_p.V1792V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1896	Sushi 10.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCGATGAACCGACTGCAAATT	0.403										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			10	71					0	0	0.058154	0	0		A	113418874	A	A	113418874	2	1	68	1	0	0	0	0	0	0	0	1	3949	1045	37	1		1	CSMD3	8	113418874	Silent	SNP	G	TCGA-BR-8366-01A-11D-2340-08	6605369	113418874	32945148	75	45834											
COL14A1	7373	broad.mit.edu	37	chr8	121170389	121170389	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctccacccacaaggttaAgatataatgtaatatctcat	14	12	6	9	0	1	1	1	0	1	1	3	1	2	1	2	2	0	3	2	2	6	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr8:121170389A>C	uc003yox.2	+	3	374	c.109A>C	c.(109-111)AGA>CGA	p.R37R		NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	37	Fibronectin type-III 1.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			CACAAGGTTAAGATATAATGT	0.343													5	36					0	0	0.014758	0	0		C	121170389	C	C	121170389	2	2	68	1	0	0	0	0	0	0	0	1	3674	64	3	5		5	COL14A1	8	121170389	Silent	SNP	A	TCGA-BR-8366-01A-11D-2340-08	7751515	121170389	25193633	76	45835											
NAPRT1	93100	broad.mit.edu	37	chr8	144658639	144658639	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagaccttgcggatctcctGagcctgctgtagcaggtcac	8	9	12	12	1	2	2	1	1	1	1	3	4	2	3	3	2	4	3	3	2	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr8:144658639G>A	uc003yym.3	-	7	1010	c.985C>T	c.(985-987)CAG>TAG	p.Q329*	NAPRT1_uc003yyn.3_Nonsense_Mutation_p.Q329*|NAPRT1_uc011lkh.1_Nonsense_Mutation_p.Q329*|NAPRT1_uc003yyo.3_Nonsense_Mutation_p.Q329*	NM_145201	NP_660202	Q6XQN6	PNCB_HUMAN	nicotinate phosphoribosyltransferase domain	329					nicotinamide metabolic process|nicotinate nucleotide salvage|response to oxidative stress|water-soluble vitamin metabolic process	cytosol|Golgi apparatus|nucleus	nicotinate phosphoribosyltransferase activity|nicotinate-nucleotide diphosphorylase (carboxylating) activity			ovary(1)	1	all_cancers(97;6.49e-11)|all_epithelial(106;4.73e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.014)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CGGATCTCCTGAGCCTGCTGT	0.657													3	24					0	0	0.115264	0	0		A	144658639	A	A	144658639	4	1	68	1	0	0	0	0	0	1	0	0	10183	1299	45	4	659	4	NAPRT1	8	144658639	Nonsense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	23488250	144658639	1705383	77	45836											
MLLT3	4300	broad.mit.edu	37	chr9	20414419	20414419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtatgaatactcctattaGggtcctgcaaaaaggggaga	13	10	12	6	0	0	2	0	1	0	1	2	3	2	2	2	4	2	2	2	4	7	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr9:20414419G>A	uc003zoe.2	-	5	684	c.425C>T	c.(424-426)CCT>CTT	p.P142L	MLLT3_uc011lne.1_Missense_Mutation_p.P110L|MLLT3_uc011lnf.1_Missense_Mutation_p.P139L|MLLT3_uc003zof.2_5'UTR|MLLT3_uc011lng.1_Missense_Mutation_p.P110L	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		ACTCCTATTAGGGTCCTGCAA	0.209			T	MLL	ALL								4	34					0	0	0.009096	0	0		A	20414419	A	A	20414419	3	1	68	1	0	0	0	0	1	0	0	0	9646	1000	35	4	1309	4	MLLT3	9	20414419	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08		20414419	120799012	78	45837											
PIGO	84720	broad.mit.edu	37	chr9	35091599	35091599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaccagcactgtcacaGgcttccagagcagcagcgcg	9	6	10	16	2	2	1	2	0	0	1	3	1	3	1	3	1	4	4	3	1	0	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr9:35091599G>A	uc003zwd.2	-	7	2681	c.2285C>T	c.(2284-2286)CCT>CTT	p.P762L	PIGO_uc003zwc.1_3'UTR|PIGO_uc003zwe.2_Intron|PIGO_uc003zwf.2_Intron|PIGO_uc003zwg.1_Missense_Mutation_p.P325L	NM_032634	NP_116023	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	762	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	transferase activity			large_intestine(1)|ovary(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			CACTGTCACAGGCTTCCAGAG	0.647													6	54					0	0	0.021553	0	0		A	35091599	A	A	35091599	3	1	68	1	0	0	0	0	1	0	0	0	11913	1000	35	4	1004	4	PIGO	9	35091599	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	14677180	35091599	106121832	79	45838											
INVS	27130	broad.mit.edu	37	chr9	103015323	103015323	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtccaggattatgcaggaAgaacccctttgcagtgtgca	11	10	11	9	0	0	1	0	0	0	1	1	3	1	3	3	2	4	3	3	2	3	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr9:103015323A>T	uc004bap.1	+	10	1581	c.1369A>T	c.(1369-1371)AGA>TGA	p.R457*	INVS_uc010mta.1_Nonsense_Mutation_p.R361*|INVS_uc011lve.1_Nonsense_Mutation_p.R361*|INVS_uc004bao.1_Nonsense_Mutation_p.R457*|INVS_uc004baq.1_Nonsense_Mutation_p.R361*|INVS_uc004bar.1_Nonsense_Mutation_p.R361*|INVS_uc010mtb.1_Nonsense_Mutation_p.R131*	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	457	ANK 14.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				TTATGCAGGAAGAACCCCTTT	0.418													5	48					0	0	0.014758	0	0		T	103015323	T	T	103015323	4	4	68	1	0	0	0	0	0	1	0	0	7803	64	3	5	1403	5	INVS	9	103015323	Nonsense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	67923724	103015323	38198108	80	45839											
C9orf84	158401	broad.mit.edu	37	chr9	114454546	114454546	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaaaaaacttgagatttcTtttagttccataatggaaga	15	14	8	4	0	1	2	0	1	1	2	2	4	2	3	1	2	1	2	1	2	6	7			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr9:114454546T>G	uc004bfr.2	-	25	3654	c.3519A>C	c.(3517-3519)AAA>AAC	p.K1173N	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Missense_Mutation_p.K1134N|C9orf84_uc010mug.2_Missense_Mutation_p.K1084N	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	1173										ovary(2)	2						TTGAGATTTCTTTTAGTTCCA	0.358													11	101					0	0	0.080935	0	0		G	114454546	G	G	114454546	3	3	68	1	0	0	0	0	1	0	0	0	2503	1606	56	5	823	5	C9orf84	9	114454546	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	11439223	114454546	26758885	81	45840											
SLC46A2	57864	broad.mit.edu	37	chr9	115651953	115651953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgggagaagaccaggacacCcaggaagctggtgatgaaga	14	3	16	8	1	0	5	0	2	0	3	0	8	0	7	2	4	1	1	2	4	3	0			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr9:115651953C>T	uc004bgk.2	-	1	1241	c.1009G>A	c.(1009-1011)GGT>AGT	p.G337S		NM_033051	NP_149040	Q9BY10	TSCOT_HUMAN	solute carrier family 46, member 2	337	Helical; Name=8; (Potential).					integral to membrane|plasma membrane	symporter activity			central_nervous_system(1)	1						ACCAGGACACCCAGGAAGCTG	0.547													4	24					0	0	0.009096	0	0		T	115651953	T	T	115651953	3	4	68	1	0	0	0	0	1	0	0	0	14670	623	22	4	434	4	SLC46A2	9	115651953	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	1197407	115651953	25561478	82	45841											
TNC	3371	broad.mit.edu	37	chr9	117835903	117835903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtggatgccttcacacgtgCgggcttgctcttgtgtctgc	4	13	13	11	2	3	0	1	0	2	0	3	1	3	1	1	2	4	2	1	2	0	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr9:117835903C>T	uc004bjj.3	-	10	3555	c.3193G>A	c.(3193-3195)GCA>ACA	p.A1065T	TNC_uc010mvf.2_Missense_Mutation_p.A1065T	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1065	Fibronectin type-III 5.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TTCACACGTGCGGGCTTGCTC	0.542													9	38					0	0	0.069234	0	0		T	117835903	T	T	117835903	3	4	68	1	0	0	0	0	1	0	0	0	16295	768	27	1	3488	1	TNC	9	117835903	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	2183950	117835903	23377528	83	45842											
OR1B1	347169	broad.mit.edu	37	chr9	125391471	125391471	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagccatgacagcaatgacaAgtgtatctgtaaccccaaat	15	8	8	10	0	1	2	0	2	1	0	1	3	1	2	3	0	3	3	3	0	5	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr9:125391471A>G	uc011lyz.1	-	1	344	c.344T>C	c.(343-345)CTT>CCT	p.L115P		NM_001004450	NP_001004450	Q8NGR6	OR1B1_HUMAN	olfactory receptor, family 1, subfamily B,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGCAATGACAAGTGTATCTGT	0.502													7	38					0	0	0.038147	0	0		G	125391471	G	G	125391471	3	3	68	1	0	0	0	0	1	0	0	0	10970	72	3	3	615	3	OR1B1	9	125391471	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	7555568	125391471	15821960	84	45843											
DBH	1621	broad.mit.edu	37	chr9	136516786	136516786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccgggatccacatcttcGcctctcagctccacacacac	8	8	5	20	2	2	0	1	0	2	0	7	1	5	1	5	1	1	1	5	1	0	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr9:136516786G>A	uc004cel.2	+	7	1231	c.1222G>A	c.(1222-1224)GCC>ACC	p.A408T		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	408	Intragranular (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	CCACATCTTCGCCTCTCAGCT	0.657													9	25					0	0	0.058154	0	0		A	136516786	A	A	136516786	3	1	68	1	0	0	0	0	1	0	0	0	4253	1087	38	1	1248	1	DBH	9	136516786	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	11125315	136516786	4696645	85	45844											
SOHLH1	402381	broad.mit.edu	37	chr9	138588459	138588459	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcacacccaggactcaccTgagaaagggggcagcccacc	12	3	11	15	0	1	1	1	1	0	1	1	3	1	2	4	3	2	2	4	3	1	0			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr9:138588459T>C	uc004cgl.2	-	5	721	c.660A>G	c.(658-660)TCA>TCG	p.S220S	SOHLH1_uc010nbe.2_Silent_p.S220S	NM_001012415	NP_001012415	Q5JUK2	SOLH1_HUMAN	spermatogenesis and oogenesis specific basic	220					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			breast(1)|central_nervous_system(1)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.66e-07)|Epithelial(140;1.11e-06)|all cancers(34;6.45e-05)		AGGACTCACCTGAGAAAGGGG	0.657													4	19					0	0	0.014758	0	0		C	138588459	C	C	138588459	2	2	68	1	0	0	0	0	0	0	0	1	14948	1594	55	3		3	SOHLH1	9	138588459	Silent	SNP	T	TCGA-BR-8366-01A-11D-2340-08	2071673	138588459	2624972	86	45845											
NEBL	10529	broad.mit.edu	37	chr10	21101765	21101765	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccctttataggcagcatcGctgaccacctgggtgttctt	7	12	9	13	1	1	1	0	1	1	0	2	1	1	1	4	2	1	4	4	2	2	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr10:21101765G>T	uc001iqi.2	-	24	2848	c.2451C>A	c.(2449-2451)AGC>AGA	p.S817R	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Missense_Mutation_p.S154R	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	817	Nebulin 23.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						AGGCAGCATCGCTGACCACCT	0.517													4	41					0.00024832	0.000252529	0.009096	1	0		T	21101765	T	T	21101765	3	4	68	1	0	0	0	0	1	0	0	0	10322	1078	38	5	613	5	NEBL	10	21101765	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08		21101765	114432982	87	45846											
PTF1A	256297	broad.mit.edu	37	chr10	23482704	23482704	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctctctcatggactgatGaaaaacaactcaaggaacaa	17	8	6	10	0	3	2	2	2	2	0	5	4	3	4	0	2	3	0	0	2	6	0			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr10:23482704G>T	uc001irp.2	+	2	856	c.856G>T	c.(856-858)GAA>TAA	p.E286*		NM_178161	NP_835455	Q7RTS3	PTF1A_HUMAN	pancreas specific transcription factor, 1a	286					endocrine pancreas development|exocrine pancreas development|regulation of transcription, DNA-dependent|tissue development|transcription, DNA-dependent	cytoplasm|transcription factor complex				pancreas(1)|skin(1)	2						ATGGACTGATGAAAAACAACT	0.498													28	144					5.61819e-17	6.01949e-17	0.108266	1	0		T	23482704	T	T	23482704	4	4	68	1	0	0	0	0	0	1	0	0	12762	1291	45	5	862	5	PTF1A	10	23482704	Nonsense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	2380939	23482704	112052043	88	45847											
GPR158	57512	broad.mit.edu	37	chr10	25887234	25887234	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagagaagaaaactgggcaCccacgaacatcgatgttaca	16	6	9	10	2	1	2	1	0	0	2	2	5	1	2	1	1	3	2	1	1	5	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr10:25887234C>T	uc001isj.2	+	11	2739	c.2679C>T	c.(2677-2679)CAC>CAT	p.H893H	GPR158_uc001isk.2_Silent_p.H268H	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	893	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						AAACTGGGCACCCACGAACAT	0.517													10	85					0	0	0.058154	0	0		T	25887234	T	T	25887234	2	4	68	1	0	0	0	0	0	0	0	1	6678	506	18	4		4	GPR158	10	25887234	Silent	SNP	C	TCGA-BR-8366-01A-11D-2340-08	2404530	25887234	109647513	89	45848											
ANKRD30A	91074	broad.mit.edu	37	chr10	37451723	37451723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctgccactgaaatgcaaaAgtctgtcccaaataaagcct	14	8	7	12	0	1	1	0	1	1	0	2	1	2	1	4	0	3	1	4	0	6	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr10:37451723A>G	uc001iza.1	+	17	1880	c.1781A>G	c.(1780-1782)AAG>AGG	p.K594R		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	650						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GAAATGCAAAAGTCTGTCCCA	0.308													16	95					0	0	0.043863	0	0		G	37451723	G	G	37451723	3	3	68	1	0	0	0	0	1	0	0	0	658	72	3	3	1847	3	ANKRD30A	10	37451723	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	11564489	37451723	98083024	90	45849											
ATRNL1	26033	broad.mit.edu	37	chr10	116930868	116930868	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgaattatgggtttttaAcatacatagtcagtcatgga	14	14	9	4	0	2	2	2	1	0	1	2	3	2	3	0	2	2	1	0	2	5	6			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr10:116930868A>C	uc001lcg.2	+	8	1552	c.1166A>C	c.(1165-1167)AAC>ACC	p.N389T	ATRNL1_uc001lce.2_RNA|ATRNL1_uc001lcf.2_Missense_Mutation_p.N389T|ATRNL1_uc009xyq.2_Missense_Mutation_p.T360P	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	389	Kelch 2.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		TGGGTTTTTAACATACATAGT	0.343													15	94					0	0	0.11911	0	0		C	116930868	C	C	116930868	3	2	68	1	0	0	0	0	1	0	0	0	1208	43	2	5	1196	5	ATRNL1	10	116930868	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	79479145	116930868	18603879	91	45850											
PNLIP	5406	broad.mit.edu	37	chr10	118321115	118321115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttacctagagtgggagcatCcaagattatagtggagacaa	14	10	11	6	0	0	3	0	0	0	3	1	5	1	4	2	2	2	1	2	2	6	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr10:118321115C>T	uc001lcm.2	+	12	1344	c.1301C>T	c.(1300-1302)TCC>TTC	p.S434F		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	434	PLAT.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	GTGGGAGCATCCAAGATTATA	0.363													7	97					0	0	0.02938	0	0		T	118321115	T	T	118321115	3	4	68	1	0	0	0	0	1	0	0	0	12168	855	30	4	1343	4	PNLIP	10	118321115	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	1390247	118321115	17213632	92	45851											
HSPA12A	259217	broad.mit.edu	37	chr10	118435928	118435928	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acggagatgctcaatgatgcTatcgatggtcggcttaaaaa	13	10	11	7	3	1	2	1	1	0	1	3	4	1	2	0	3	2	3	0	3	5	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr10:118435928T>C	uc001lct.2	-	11	1477	c.1372A>G	c.(1372-1374)AGC>GGC	p.S458G	HSPA12A_uc001lcu.2_Missense_Mutation_p.S375G	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	458							ATP binding			ovary(1)	1				all cancers(201;0.0158)		TCAATGATGCTATCGATGGTC	0.567													9	49					0	0	0.069234	0	0		C	118435928	C	C	118435928	3	2	68	1	0	0	0	0	1	0	0	0	7420	1522	53	3	663	3	HSPA12A	10	118435928	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	114813	118435928	17098819	93	45852											
RGS10	6001	broad.mit.edu	37	chr10	121285571	121285571	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatcttgcattttcttaaaAtcttcacatgctagccaaaa	13	16	3	9	0	4	0	1	0	3	0	4	0	4	0	1	0	3	2	1	0	6	7			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr10:121285571A>C	uc001lee.2	-	2	204	c.204T>G	c.(202-204)GAT>GAG	p.D68E	RGS10_uc001lef.2_Missense_Mutation_p.D62E|RGS10_uc001leg.2_Missense_Mutation_p.D76E	NM_002925	NP_002916	O43665	RGS10_HUMAN	regulator of G-protein signaling 10 isoform b	68	RGS.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|protein binding|signal transducer activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00105)|GBM - Glioblastoma multiforme(135;0.195)		TTTTCTTAAAATCTTCACATG	0.323													15	50					0	0	0.146539	0	0		C	121285571	C	C	121285571	3	2	68	1	0	0	0	0	1	0	0	0	13318	98	4	5	329	5	RGS10	10	121285571	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	2849643	121285571	14249176	94	45853											
INPP5A	3632	broad.mit.edu	37	chr10	134563341	134563341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggttttccgagacaacaacGgcaccgcggtgagtttgtgg	9	9	14	9	4	0	2	0	1	0	1	1	3	1	2	2	4	2	3	2	4	2	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr10:134563341G>A	uc001llp.2	+	11	1143	c.895G>A	c.(895-897)GGC>AGC	p.G299S	INPP5A_uc001llo.1_Missense_Mutation_p.G299S|INPP5A_uc001llq.2_Intron	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	299					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		AGACAACAACGGCACCGCGGT	0.562													10	53					0	0	0.058154	0	0		A	134563341	A	A	134563341	3	1	68	1	0	0	0	0	1	0	0	0	7770	1116	39	1	937	1	INPP5A	10	134563341	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	13277770	134563341	971406	95	45854											
KCNQ1	3784	broad.mit.edu	37	chr11	2604770	2604770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatctccttctttgcgctcCcagcggtaggtgccccgtgg	3	11	11	16	3	2	0	0	0	2	0	4	0	3	0	5	3	3	2	5	3	1	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr11:2604770C>T	uc001lwn.2	+	7	1135	c.1027C>T	c.(1027-1029)CCA>TCA	p.P343S	KCNQ1_uc009ydp.1_Missense_Mutation_p.P127S|KCNQ1_uc001lwo.2_Missense_Mutation_p.P216S	NM_000218	NP_000209	P51787	KCNQ1_HUMAN	potassium voltage-gated channel, KQT-like	343	Helical; Name=Segment S6; (Potential).				blood circulation|membrane depolarization|muscle contraction|sensory perception of sound		delayed rectifier potassium channel activity|protein binding			ovary(1)	1		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)	CTTTGCGCTCCCAGCGGTAGG	0.632													8	55					0	0	0.038147	0	0		T	2604770	T	T	2604770	3	4	68	1	0	0	0	0	1	0	0	0	8098	623	22	4	1062	4	KCNQ1	11	2604770	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08		2604770	132401746	96	45855											
OR52I1	390037	broad.mit.edu	37	chr11	4615839	4615839	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcacatagctttggccaggTtagcatgtgctgaccccgtg	8	10	12	11	1	0	1	0	1	0	0	0	1	0	1	3	2	4	5	3	2	2	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr11:4615839T>G	uc010qyi.1	+	1	571	c.571T>G	c.(571-573)TTA>GTA	p.L191V		NM_001005169	NP_001005169	Q8NGK6	O52I1_HUMAN	olfactory receptor, family 52, subfamily I,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;7.98e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTTGGCCAGGTTAGCATGTGC	0.493													21	142					0	0	0.062417	0	0		G	4615839	G	G	4615839	3	3	68	1	0	0	0	0	1	0	0	0	11139	1722	60	5	573	5	OR52I1	11	4615839	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	2011069	4615839	130390677	97	45856											
OR5D14	219436	broad.mit.edu	37	chr11	55563231	55563231	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtactttttccttagtcAcctctcttttgttgattttt	5	24	4	8	0	2	1	1	1	1	0	4	1	3	1	2	0	1	2	2	0	3	10			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr11:55563231A>G	uc010rim.1	+	1	200	c.200A>G	c.(199-201)CAC>CGC	p.H67R		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				TTCCTTAGTCACCTCTCTTTT	0.383													10	94					0	0	0.069234	0	0		G	55563231	G	G	55563231	3	3	68	1	0	0	0	0	1	0	0	0	11174	159	6	3	202	3	OR5D14	11	55563231	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	50947392	55563231	79443285	98	45857											
RARRES3	5920	broad.mit.edu	37	chr11	63312231	63312231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggaccatgagtaccaacCacggcccgtggaggtgatca	10	7	12	12	2	1	2	1	2	0	0	1	4	1	4	4	4	2	1	4	4	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr11:63312231C>T	uc001nxf.3	+	3	325	c.257C>T	c.(256-258)CCA>CTA	p.P86L		NM_004585	NP_004576	Q9UL19	TIG3_HUMAN	retinoic acid receptor responder (tazarotene	86					lipid catabolic process|negative regulation of cell proliferation		hydrolase activity			ovary(1)	1						GAGTACCAACCACGGCCCGTG	0.537													10	80					0	0	0.080935	0	0		T	63312231	T	T	63312231	3	4	68	1	0	0	0	0	1	0	0	0	13082	594	21	4	267	4	RARRES3	11	63312231	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	7749000	63312231	71694285	99	45858											
FOXM1	2305	broad.mit.edu	37	chr12	2968120	2968120	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcaagggagtggtgctgAgatccatcagccccaggggg	8	8	16	9	0	1	1	1	1	0	1	2	3	2	2	3	4	3	2	3	4	1	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:2968120A>G	uc001qlf.2	-	9	2241	c.1976T>C	c.(1975-1977)CTC>CCC	p.L659P	uc001qld.2_Intron|FOXM1_uc001qle.2_Missense_Mutation_p.L697P|FOXM1_uc001qlg.2_Missense_Mutation_p.L644P|FOXM1_uc009zea.2_Missense_Mutation_p.L644P|FOXM1_uc009zeb.2_Missense_Mutation_p.L643P	NM_021953	NP_068772	Q08050	FOXM1_HUMAN	forkhead box M1 isoform 2	659					cell cycle|embryo development|liver development|negative regulation of cell aging|negative regulation of stress-activated MAPK cascade|negative regulation of transcription from RNA polymerase II promoter|pattern specification process|positive regulation of cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of cell growth|regulation of cell proliferation|regulation of oxygen and reactive oxygen species metabolic process|regulation of Ras protein signal transduction|regulation of reactive oxygen species metabolic process|regulation of sequence-specific DNA binding transcription factor activity|tissue development|transcription from RNA polymerase II promoter|vasculogenesis	cytoplasm|transcription factor complex	DNA bending activity|DNA binding|DNA binding|double-stranded DNA binding|promoter binding|protein binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|transcription factor binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.000622)			AGTGGTGCTGAGATCCATCAG	0.592													15	53					0	0	0.132662	0	0		G	2968120	G	G	2968120	3	3	68	1	0	0	0	0	1	0	0	0	6032	304	11	3	319	3	FOXM1	12	2968120	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08		2968120	130883775	100	45859											
VWF	7450	broad.mit.edu	37	chr12	6078421	6078421	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggtcttacagctcagcTgaaagcccgaggggcagaca	11	6	13	11	1	2	3	1	2	1	1	2	4	2	3	1	3	4	3	1	3	2	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:6078421T>G	uc001qnn.1	-	45	7935	c.7685A>C	c.(7684-7686)CAG>CCG	p.Q2562P	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2562					blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	ACAGCTCAGCTGAAAGCCCGA	0.587													5	23					0	0	0.014758	0	0		G	6078421	G	G	6078421	3	3	68	1	0	0	0	0	1	0	0	0	17272	1580	55	5	788	5	VWF	12	6078421	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	3110301	6078421	127773474	101	45860											
PDE3A	5139	broad.mit.edu	37	chr12	20523121	20523121	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtgtccgccgagatgtcCggctgcagcagcaagtccca	7	7	13	14	4	0	1	0	0	0	1	4	2	3	1	4	1	3	4	4	1	1	0			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:20523121C>T	uc001reh.1	+	1	925	c.903C>T	c.(901-903)TCC>TCT	p.S301S		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	301					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	CCGAGATGTCCGGCTGCAGCA	0.587													5	28					0	0	0.014758	0	0		T	20523121	T	T	20523121	2	4	68	1	0	0	0	0	0	0	0	1	11656	639	23	1		1	PDE3A	12	20523121	Silent	SNP	C	TCGA-BR-8366-01A-11D-2340-08	14444700	20523121	113328774	102	45861											
GYS2	2998	broad.mit.edu	37	chr12	21757519	21757519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttacagagagggatcggcctCgaagcattcttcttacagtc	10	11	10	10	2	2	1	0	0	2	1	5	4	2	2	1	2	3	1	1	2	3	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:21757519C>T	uc001rfb.2	-	1	263	c.8G>A	c.(7-9)CGA>CAA	p.R3Q		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	3					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						GGATCGGCCTCGAAGCATTCT	0.473													33	47					0	0	0.050027	0	0		T	21757519	T	T	21757519	3	4	68	1	0	0	0	0	1	0	0	0	6929	884	31	1	2167	1	GYS2	12	21757519	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	1234398	21757519	112094376	103	45862											
LDHB	3945	broad.mit.edu	37	chr12	21807527	21807527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaacttgtccaacacccaCtacagtgatcttattgtttg	11	13	5	12	0	1	1	0	1	1	0	2	1	2	1	3	0	3	1	3	0	4	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:21807527C>T	uc001rfc.2	-	1	97	c.79G>A	c.(79-81)GTG>ATG	p.V27M	LDHB_uc001rfd.2_Missense_Mutation_p.V27M|LDHB_uc001rfe.2_Missense_Mutation_p.V27M	NM_002300	NP_002291	P07195	LDHB_HUMAN	L-lactate dehydrogenase B	27					glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity			breast(2)|ovary(1)	3					NADH(DB00157)	CCAACACCCACTACAGTGATC	0.423													11	94					0	0	0.09319	0	0		T	21807527	T	T	21807527	3	4	68	1	0	0	0	0	1	0	0	0	8717	565	20	4	953	4	LDHB	12	21807527	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	50008	21807527	112044368	104	45863											
CASC1	55259	broad.mit.edu	37	chr12	25264751	25264751	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgagagtgtctagtaggaaaGatattcagtccagcttcttt	11	14	10	6	0	3	2	1	1	2	2	4	4	4	3	1	1	1	2	1	1	4	6			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:25264751G>A	uc001rgl.2	-	13	1798	c.1716C>T	c.(1714-1716)ATC>ATT	p.I572I	CASC1_uc001rgk.2_Silent_p.I578I|CASC1_uc001rgm.3_Silent_p.I636I|CASC1_uc001rgj.2_Silent_p.I532I|CASC1_uc010sje.1_Silent_p.I513I|CASC1_uc010sjf.1_Silent_p.I460I	NM_001082973	NP_001076442	Q6TDU7	CASC1_HUMAN	cancer susceptibility candidate 1 isoform b	572										ovary(2)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Melanoma(3;0.0301)|Colorectal(261;0.11)		OV - Ovarian serous cystadenocarcinoma(3;7.42e-20)|Epithelial(3;7.58e-16)|all cancers(3;1.07e-13)			TAGTAGGAAAGATATTCAGTC	0.318													6	40					0	0	0.021553	0	0		A	25264751	A	A	25264751	2	1	68	1	0	0	0	0	0	0	0	1	2663	932	33	4		4	CASC1	12	25264751	Silent	SNP	G	TCGA-BR-8366-01A-11D-2340-08	3457224	25264751	108587144	105	45864											
KRAS	3845	broad.mit.edu	37	chr12	25380275	25380275	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcattgcactgtactcctcTtgacctgctgtgtcgagaat	7	14	8	12	1	2	2	1	1	1	1	4	3	3	2	2	0	3	3	2	0	2	3	rs17851045		TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:25380275T>G	uc001rgp.1	-	3	364	c.183A>C	c.(181-183)CAA>CAC	p.Q61H	KRAS_uc001rgq.1_Missense_Mutation_p.Q61H	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	61	GTP.		Q -> R (in a colorectal cancer sample; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.Q61H(140)|p.Q61L(51)|p.Q61R(44)|p.Q61K(24)|p.Q61P(11)|p.Q61E(10)|p.Q61D(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			TGTACTCCTCTTGACCTGCTG	0.423	Q61H(T3M4_PANCREAS)|Q61H(HS766T_PANCREAS)|Q61H(NCIH460_LUNG)|Q61H(NCIH1155_LUNG)|Q61H(CL11_LARGE_INTESTINE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			26	31					0	0	0.108266	0	0		G	25380275	G	G	25380275	3	3	68	1	0	0	0	0	1	0	0	0	8454	1606	56	5	519	5	KRAS	12	25380275	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	115524	25380275	108471620	106	45865											
KRT85	3891	broad.mit.edu	37	chr12	52754645	52754645	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccatgactctactaggcaaAgcggaccgaccggctactcc	10	7	9	15	3	1	1	0	1	1	0	3	3	3	2	4	3	3	2	4	3	4	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:52754645A>G	uc001sag.2	-	9	1636	c.1516T>C	c.(1516-1518)TTT>CTT	p.F506L		NM_002283	NP_002274	P78386	KRT85_HUMAN	keratin 85	506	Tail.				epidermis development	keratin filament	protein binding|structural molecule activity			ovary(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		TACTAGGCAAAGCGGACCGAC	0.607													8	53					0	0	0.09319	0	0		G	52754645	G	G	52754645	3	3	68	1	0	0	0	0	1	0	0	0	8515	72	3	3	11	3	KRT85	12	52754645	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	27374370	52754645	81097250	107	45866											
ITGB7	3695	broad.mit.edu	37	chr12	53587072	53587072	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgccattgggagcccggcaCccagattccaggtctgggga	7	7	15	12	1	1	1	0	0	1	1	2	3	2	3	4	5	2	1	4	5	0	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:53587072C>T	uc009zmv.2	-	11	1649	c.1578G>A	c.(1576-1578)GGG>GGA	p.G526G	ITGB7_uc001scc.2_Silent_p.G526G|ITGB7_uc010snz.1_Intron	NM_000889	NP_000880	P26010	ITB7_HUMAN	integrin, beta 7 precursor	526	Cysteine-rich tandem repeats.|Extracellular (Potential).|I.				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|regulation of immune response	integrin complex	identical protein binding|metal ion binding|receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|breast(1)	8						GAGCCCGGCACCCAGATTCCA	0.632													3	26					0	0	0.115264	0	0		T	53587072	T	T	53587072	2	4	68	1	0	0	0	0	0	0	0	1	7916	494	18	4		4	ITGB7	12	53587072	Silent	SNP	C	TCGA-BR-8366-01A-11D-2340-08	832427	53587072	80264823	108	45867											
TMCC3	57458	broad.mit.edu	37	chr12	94976127	94976127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccgcaacattcccatcgCgcgatgtttgctcaattttt	8	14	6	13	4	1	0	1	0	0	0	4	1	3	0	2	0	2	3	2	0	2	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:94976127C>T	uc001tdj.2	-	2	384	c.266G>A	c.(265-267)CGC>CAC	p.R89H	TMCC3_uc001tdi.2_Missense_Mutation_p.R58H	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	89						integral to membrane				ovary(1)|skin(1)	2						ATTCCCATCGCGCGATGTTTG	0.448													12	117					0	0	0.09319	0	0		T	94976127	T	T	94976127	3	4	68	1	0	0	0	0	1	0	0	0	16019	768	27	1	1179	1	TMCC3	12	94976127	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	41389055	94976127	38875768	109	45868											
VPS29	51699	broad.mit.edu	37	chr12	110933945	110933945	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggcaccaggagtttttTgaatttagctggcaaactgt	9	14	10	8	0	0	1	0	1	0	0	1	2	1	2	2	3	2	4	2	3	3	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:110933945T>C	uc001tqy.2	-	2	127	c.67A>G	c.(67-69)AAA>GAA	p.K23E	VPS29_uc001tqw.2_RNA|VPS29_uc001tqx.2_Missense_Mutation_p.K27E|VPS29_uc001tqz.2_RNA	NM_016226	NP_057310	Q9UBQ0	VPS29_HUMAN	vacuolar protein sorting 29 isoform 1	23					protein transport	endosome membrane	metal ion binding|phosphoserine phosphatase activity				0						AGGAGTTTTTTGAATTTAGCT	0.423													16	66					0	0	0.043863	0	0		C	110933945	C	C	110933945	3	2	68	1	0	0	0	0	1	0	0	0	17226	1821	63	3	493	3	VPS29	12	110933945	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	15957818	110933945	22917950	110	45869											
TMEM132B	114795	broad.mit.edu	37	chr12	126138782	126138782	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttgatcaactgcgtggcGtttgcctggaaatacagaca	10	12	10	9	2	2	2	1	1	1	1	2	3	2	3	1	2	4	1	1	2	3	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:126138782G>A	uc001uhe.1	+	9	2771	c.2763G>A	c.(2761-2763)GCG>GCA	p.A921A	TMEM132B_uc001uhf.1_Silent_p.A433A	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	921	Helical; (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		ACTGCGTGGCGTTTGCCTGGA	0.522													7	84					0	0	0.038147	0	0		A	126138782	A	A	126138782	2	1	68	1	0	0	0	0	0	0	0	1	16071	1132	40	1		1	TMEM132B	12	126138782	Silent	SNP	G	TCGA-BR-8366-01A-11D-2340-08	15204837	126138782	7713113	111	45870											
MMP17	4326	broad.mit.edu	37	chr12	132326256	132326256	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggccgctgcacactccaTcatgcggccgtactaccagg	7	8	11	15	3	1	0	1	0	0	0	2	0	2	0	4	3	4	3	4	3	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr12:132326256T>C	uc001ujc.1	+	5	893	c.794T>C	c.(793-795)ATC>ACC	p.I265T	MMP17_uc001ujd.1_Missense_Mutation_p.I181T	NM_016155	NP_057239	Q9ULZ9	MMP17_HUMAN	matrix metalloproteinase 17 preproprotein	265					proteolysis	anchored to membrane|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.82e-07)|Epithelial(86;1.51e-06)|all cancers(50;2.35e-05)		GCACACTCCATCATGCGGCCG	0.642													11	25					0	0	0.069234	0	0		C	132326256	C	C	132326256	3	2	68	1	0	0	0	0	1	0	0	0	9674	1435	50	3	812	3	MMP17	12	132326256	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	6187474	132326256	1525639	112	45871											
SGCG	6445	broad.mit.edu	37	chr13	23824817	23824817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgtgactgtaaatgcgCgcaactcagaaggggaggtc	13	7	14	7	2	1	3	1	1	0	2	2	4	1	4	0	3	2	2	0	3	5	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr13:23824817C>T	uc001uom.2	+	4	501	c.346C>T	c.(346-348)CGC>TGC	p.R116C	SGCG_uc009zzv.2_Missense_Mutation_p.R116C|SGCG_uc009zzw.2_Missense_Mutation_p.R116C	NM_000231	NP_000222	Q13326	SGCG_HUMAN	gamma sarcoglycan	116	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0		all_cancers(29;4.34e-23)|all_epithelial(30;4.4e-19)|all_lung(29;2.45e-18)|Lung SC(185;0.0228)|Breast(139;0.188)		all cancers(112;0.00255)|Epithelial(112;0.0129)|OV - Ovarian serous cystadenocarcinoma(117;0.0365)|Lung(94;0.205)		TGTAAATGCGCGCAACTCAGA	0.403													3	17					0	0	0.115264	0	0		T	23824817	T	T	23824817	3	4	68	1	0	0	0	0	1	0	0	0	14228	768	27	1	356	1	SGCG	13	23824817	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08		23824817	91345061	113	45872											
OR11H12	440153	broad.mit.edu	37	chr14	19378049	19378049	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctatcctaatatcatgacTgggcatctctgtgccaaact	10	13	6	12	0	3	1	1	1	2	0	5	1	4	1	2	1	2	1	2	1	4	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr14:19378049T>A	uc010tkp.1	+	1	456	c.456T>A	c.(454-456)ACT>ACA	p.T152T		NM_001013354	NP_001013372	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H,	152	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATATCATGACTGGGCATCTCT	0.478													26	351					0	0	0.099896	0	0		A	19378049	A	A	19378049	2	1	68	1	0	0	0	0	0	0	0	1	10946	1567	55	5		5	OR11H12	14	19378049	Silent	SNP	T	TCGA-BR-8366-01A-11D-2340-08		19378049	87971491	114	45873											
PYGL	5836	broad.mit.edu	37	chr14	51383390	51383390	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtttttcaatatccacAaaaatcctcatcagctcagg	13	11	6	11	0	4	0	4	0	0	0	6	0	6	0	2	2	1	3	2	2	4	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr14:51383390A>G	uc001wyu.2	-	9	1189	c.1062T>C	c.(1060-1062)TTT>TTC	p.F354F	PYGL_uc010tqq.1_Silent_p.F320F|PYGL_uc001wyv.2_Silent_p.F28F|PYGL_uc010anz.1_Silent_p.F157F	NM_002863	NP_002854	P06737	PYGL_HUMAN	liver glycogen phosphorylase isoform 1	354					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding			skin(1)	1	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	CAATATCCACAAAAATCCTCA	0.473													8	44					0	0	0.058154	0	0		G	51383390	G	G	51383390	2	3	68	1	0	0	0	0	0	0	0	1	12886	127	5	3		3	PYGL	14	51383390	Silent	SNP	A	TCGA-BR-8366-01A-11D-2340-08	32005341	51383390	55966150	115	45874											
MYO1E	4643	broad.mit.edu	37	chr15	59548485	59548485	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggatcttcttcatacctGataatgacgcactggttctc	10	14	7	10	1	4	2	1	2	3	0	5	3	4	3	1	2	1	2	1	2	3	6			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr15:59548485G>T	uc002aga.2	-	4	702	c.330C>A	c.(328-330)ATC>ATA	p.I110I		NM_004998	NP_004989	Q12965	MYO1E_HUMAN	myosin IE	110	Myosin head-like.				actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)		CTTCATACCTGATAATGACGC	0.418													6	36					8.12818e-05	8.3366e-05	0.02938	1	0		T	59548485	T	T	59548485	2	4	68	1	0	0	0	0	0	0	0	1	10090	1280	45	5		5	MYO1E	15	59548485	Silent	SNP	G	TCGA-BR-8366-01A-11D-2340-08		59548485	42982907	116	45875											
RBPMS2	348093	broad.mit.edu	37	chr15	65041332	65041332	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagagtctgtggattttcGggatcaaagcgaatacccta	11	11	10	9	2	3	1	2	0	1	1	4	4	3	3	1	2	2	0	1	2	4	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr15:65041332G>A	uc002anq.2	-	5	537	c.285C>T	c.(283-285)CCC>CCT	p.P95P		NM_194272	NP_919248	Q6ZRY4	RBPS2_HUMAN	RNA binding protein with multiple splicing 2	95	RRM.						nucleic acid binding|nucleotide binding				0						GTGGATTTTCGGGATCAAAGC	0.512													10	60					0	0	0.069234	0	0		A	65041332	A	A	65041332	2	1	68	1	0	0	0	0	0	0	0	1	13189	1103	39	1		1	RBPMS2	15	65041332	Silent	SNP	G	TCGA-BR-8366-01A-11D-2340-08	5492847	65041332	37490060	117	45876											
NEO1	4756	broad.mit.edu	37	chr15	73580780	73580780	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacccattgataagtctccAgacccaaaccccatcatgac	15	7	4	15	0	2	3	1	2	1	1	3	3	2	3	5	0	2	0	5	0	3	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr15:73580780A>G	uc002avm.3	+	24	3679	c.3537A>G	c.(3535-3537)CCA>CCG	p.P1179P	NEO1_uc010ukx.1_Silent_p.P1168P|NEO1_uc010uky.1_Silent_p.P1179P|NEO1_uc010ukz.1_Silent_p.P592P|NEO1_uc002avn.3_Silent_p.P817P	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	1179	Cytoplasmic (Potential).				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						ATAAGTCTCCAGACCCAAACC	0.448													13	59					0	0	0.105934	0	0		G	73580780	G	G	73580780	2	3	68	1	0	0	0	0	0	0	0	1	10355	175	7	3		3	NEO1	15	73580780	Silent	SNP	A	TCGA-BR-8366-01A-11D-2340-08	8539448	73580780	28950612	118	45877											
ARNT2	9915	broad.mit.edu	37	chr15	80743280	80743280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcccccatggcggccaccGgacaggtgaggatggcgggg	6	5	18	12	3	0	1	0	1	0	0	0	3	0	3	4	8	1	0	4	8	0	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr15:80743280G>A	uc002bfr.2	+	2	257	c.91G>A	c.(91-93)GGA>AGA	p.G31R	ARNT2_uc002bfq.2_Missense_Mutation_p.G31R|ARNT2_uc010unm.1_Missense_Mutation_p.G20R|ARNT2_uc002bfs.2_Missense_Mutation_p.G20R	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	31					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			GGCGGCCACCGGACAGGTGAG	0.552													25	98					0	0	0.099896	0	0		A	80743280	A	A	80743280	3	1	68	1	0	0	0	0	1	0	0	0	967	1117	39	1	97	1	ARNT2	15	80743280	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	7162500	80743280	21788112	119	45878											
ARNT2	9915	broad.mit.edu	37	chr15	80867400	80867400	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaggcggatgcaatcttcTcccaggaaagagatcctcgg	13	7	11	10	2	2	1	0	0	2	1	5	4	3	3	2	4	1	1	2	4	4	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr15:80867400T>C	uc002bfr.2	+	14	1628	c.1462T>C	c.(1462-1464)TCC>CCC	p.S488P	ARNT2_uc010unm.1_Missense_Mutation_p.S477P|ARNT2_uc002bfs.2_Missense_Mutation_p.S477P	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	488					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			TGCAATCTTCTCCCAGGAAAG	0.468													23	143					0	0	0.069288	0	0		C	80867400	C	C	80867400	3	2	68	1	0	0	0	0	1	0	0	0	967	1551	54	3	1516	3	ARNT2	15	80867400	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	124120	80867400	21663992	120	45879											
ZNF592	9640	broad.mit.edu	37	chr15	85328011	85328011	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccttgccactctacccagAccctgtgaggctcatccggt	7	9	9	16	1	2	2	1	1	1	1	3	2	3	2	5	2	3	1	5	2	1	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr15:85328011A>G	uc002bld.2	+	4	2441	c.2105A>G	c.(2104-2106)GAC>GGC	p.D702G	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	702					cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CTCTACCCAGACCCTGTGAGG	0.582													8	41					0	0	0.038147	0	0		G	85328011	G	G	85328011	3	3	68	1	0	0	0	0	1	0	0	0	18047	275	10	3	2107	3	ZNF592	15	85328011	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	4460611	85328011	17203381	121	45880											
IGFALS	3483	broad.mit.edu	37	chr16	1841347	1841347	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgttggtgaggccgaggaAagcgcccgccttgacctcct	7	7	13	14	4	0	2	0	2	0	0	1	4	1	3	5	3	1	1	5	3	1	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr16:1841347A>C	uc002cmy.2	-	2	1153	c.1072T>G	c.(1072-1074)TTC>GTC	p.F358V	IGFALS_uc010uvn.1_Missense_Mutation_p.F396V|IGFALS_uc010uvo.1_5'UTR	NM_004970	NP_004961	P35858	ALS_HUMAN	insulin-like growth factor binding protein, acid	358	LRR 12.				cell adhesion|signal transduction	soluble fraction	insulin-like growth factor binding				0						AGGCCGAGGAAAGCGCCCGCC	0.652													3	20					0	0	0.009096	0	0		C	1841347	C	C	1841347	3	2	68	1	0	0	0	0	1	0	0	0	7593	14	1	5	749	5	IGFALS	16	1841347	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08		1841347	88513406	122	45881											
ZNF598	90850	broad.mit.edu	37	chr16	2052383	2052383	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcggccttcctcacacagaAagtgcttctcccggaagtgc	9	8	10	14	2	2	1	1	0	1	1	4	2	3	2	3	2	3	1	3	2	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr16:2052383A>C	uc002cof.1	-	7	734	c.719T>G	c.(718-720)TTT>TGT	p.F240C	ZNF598_uc002coe.1_5'UTR	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	240						intracellular	zinc ion binding			lung(1)|breast(1)	2						CTCACACAGAAAGTGCTTCTC	0.657													12	39					0	0	0.080935	0	0		C	2052383	C	C	2052383	3	2	68	1	0	0	0	0	1	0	0	0	18053	14	1	5	2027	5	ZNF598	16	2052383	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	211036	2052383	88302370	123	45882											
SEPT12	124404	broad.mit.edu	37	chr16	4835891	4835891	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacccttctcctctatgacTgtggagggagagcagagtcg	9	9	12	11	1	2	3	0	1	2	2	4	5	2	4	2	2	1	1	2	2	1	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr16:4835891T>G	uc002cxq.2	-	4	434	c.293_splice	c.e4-1	p.V98_splice	SEPT12_uc002cxr.2_Splice_Site_p.V98_splice|SEPT12_uc010bty.2_Splice_Site|uc002cxt.2_5'Flank	NM_144605	NP_653206	Q8IYM1	SEP12_HUMAN	septin 12 isoform 2						cell cycle|cell division	cleavage furrow|midbody|perinuclear region of cytoplasm|septin complex|spindle|stress fiber	GDP binding|GTP binding|phosphatidylinositol binding|protein homodimerization activity			skin(1)	1						CCTCTATGACTGTGGAGGGAG	0.458													6	45					0	0	0.02938	0	0		G	4835891	G	G	4835891	5	3	68	1	0	0	0	0	0	0	1	0	14087	1594	55	5	813	5	SEPT12	16	4835891	Splice_Site	SNP	T	TCGA-BR-8366-01A-11D-2340-08	2783508	4835891	85518862	124	45883											
SNX29	92017	broad.mit.edu	37	chr16	12571649	12571649	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcaggagtttgcaccacaAgttacaaaacaagtaccctc	14	9	7	11	0	1	0	1	0	0	0	2	1	1	1	2	1	4	5	2	1	6	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr16:12571649A>C	uc002dby.3	+	12	1012	c.956A>C	c.(955-957)AAG>ACG	p.K319T		NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	319	PX.				cell communication		phosphatidylinositol binding			ovary(1)	1						TTGCACCACAAGTTACAAAAC	0.453													4	21					0	0	0.009096	0	0		C	12571649	C	C	12571649	3	2	68	1	0	0	0	0	1	0	0	0	14923	72	3	5	998	5	SNX29	16	12571649	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	7735758	12571649	77783104	125	45884											
MYH11	4629	broad.mit.edu	37	chr16	15818135	15818135	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttggtcttttccagtttAtcataagcggccgccttctc	5	17	7	12	2	4	0	1	0	3	0	6	0	5	0	3	2	1	1	3	2	2	8			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr16:15818135A>C	uc002ddy.2	-	31	4355	c.4248T>G	c.(4246-4248)GAT>GAG	p.D1416E	MYH11_uc002ddv.2_Missense_Mutation_p.D1423E|MYH11_uc002ddw.2_Missense_Mutation_p.D1416E|MYH11_uc002ddx.2_Missense_Mutation_p.D1423E|MYH11_uc010bvg.2_Missense_Mutation_p.D1248E|NDE1_uc010uzy.1_3'UTR|NDE1_uc002dds.2_3'UTR|MYH11_uc010bvh.2_Missense_Mutation_p.D122E|NDE1_uc002ddz.1_RNA	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1416	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						TTTCCAGTTTATCATAAGCGG	0.537			T	CBFB	AML								7	49					0	0	0.02938	0	0		C	15818135	C	C	15818135	3	2	68	1	0	0	0	0	1	0	0	0	10049	446	16	5	1749	5	MYH11	16	15818135	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	3246486	15818135	74536618	126	45885											
ABCC12	94160	broad.mit.edu	37	chr16	48173097	48173097	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacgggtatgaatatgacatAcactgatatcccgatgagag	14	9	11	7	2	0	4	0	4	0	1	1	7	1	4	1	1	1	1	1	1	5	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr16:48173097A>G	uc002efc.1	-	5	1154	c.808T>C	c.(808-810)TAT>CAT	p.Y270H	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.Y270H|ABCC12_uc010vgj.1_Splice_Site	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	270	ABC transmembrane type-1 1.|Helical; (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				AATATGACATACACTGATATC	0.488													6	74					0	0	0.021553	0	0		G	48173097	G	G	48173097	3	3	68	1	0	0	0	0	1	0	0	0	52	391	14	3	3371	3	ABCC12	16	48173097	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	32354962	48173097	42181656	127	45886											
NUP93	9688	broad.mit.edu	37	chr16	56857749	56857749	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcaggccttggcgtaccTtgagcagaggtaaggcagca	10	6	15	10	1	0	2	0	1	0	1	0	2	0	2	2	5	3	6	2	5	2	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr16:56857749T>G	uc002eka.2	+	8	906	c.785T>G	c.(784-786)CTT>CGT	p.L262R	NUP93_uc002ekb.2_Missense_Mutation_p.L139R|NUP93_uc010vhi.1_Missense_Mutation_p.L139R	NM_014669	NP_055484	Q8N1F7	NUP93_HUMAN	nucleoporin 93kDa	262					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(1)|lung(1)	2						TTGGCGTACCTTGAGCAGAGG	0.542													6	46					0	0	0.021553	0	0		G	56857749	G	G	56857749	3	3	68	1	0	0	0	0	1	0	0	0	10791	1609	56	5	811	5	NUP93	16	56857749	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	8684652	56857749	33497004	128	45887											
NFATC3	4775	broad.mit.edu	37	chr16	68224974	68224974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aacacctcctgtggggtcttCctatcagcctatgcaaacta	10	11	7	13	0	2	0	1	0	1	0	4	0	4	0	4	2	4	1	4	2	5	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr16:68224974C>T	uc002evo.1	+	9	2612	c.2402C>T	c.(2401-2403)TCC>TTC	p.S801F	NFATC3_uc010vkl.1_Missense_Mutation_p.S322F|NFATC3_uc010vkm.1_Missense_Mutation_p.S322F|NFATC3_uc010vkn.1_Missense_Mutation_p.S322F|NFATC3_uc010vko.1_Missense_Mutation_p.S322F|NFATC3_uc010vkp.1_Missense_Mutation_p.S322F|NFATC3_uc010vkq.1_Missense_Mutation_p.S322F|NFATC3_uc002evl.2_Missense_Mutation_p.S322F|NFATC3_uc002evk.2_Missense_Mutation_p.S801F|NFATC3_uc002evm.1_Missense_Mutation_p.S801F|NFATC3_uc002evn.1_Missense_Mutation_p.S801F|NFATC3_uc010vkr.1_Missense_Mutation_p.S322F|NFATC3_uc010vks.1_Missense_Mutation_p.S322F|NFATC3_uc010vkt.1_Missense_Mutation_p.S322F|NFATC3_uc010vku.1_Missense_Mutation_p.S322F|NFATC3_uc010vkv.1_Missense_Mutation_p.S322F|NFATC3_uc010vkw.1_Missense_Mutation_p.S322F|NFATC3_uc010vkx.1_Missense_Mutation_p.S322F|NFATC3_uc010vky.1_Missense_Mutation_p.S322F|NFATC3_uc010vkz.1_Missense_Mutation_p.S322F|NFATC3_uc010vla.1_Missense_Mutation_p.S322F|NFATC3_uc010vlb.1_Missense_Mutation_p.S322F|NFATC3_uc010vlc.1_Missense_Mutation_p.S322F	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	801					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		GTGGGGTCTTCCTATCAGCCT	0.413													14	204					0	0	0.146539	0	0		T	68224974	T	T	68224974	3	4	68	1	0	0	0	0	1	0	0	0	10383	855	30	4	2436	4	NFATC3	16	68224974	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	11367225	68224974	22129779	129	45888											
ZFP1	162239	broad.mit.edu	37	chr16	75203884	75203884	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagagaattcatacaggAgagcgaccctatgagtgtaa	15	7	10	9	1	1	3	1	1	0	2	1	6	1	3	2	1	2	1	2	1	4	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr16:75203884A>G	uc002fdo.2	+	4	1040	c.876A>G	c.(874-876)GGA>GGG	p.G292G	ZFP1_uc002fdp.2_Silent_p.G237G|ZFP1_uc010cgt.2_Silent_p.G259G|ZFP1_uc010cgs.2_Silent_p.G237G|ZFP1_uc002fdq.2_Silent_p.G292G	NM_153688	NP_710155	Q6P2D0	ZFP1_HUMAN	zinc finger protein 1 homolog	292					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						TTCATACAGGAGAGCGACCCT	0.428													14	43					0	0	0.105934	0	0		G	75203884	G	G	75203884	2	3	68	1	0	0	0	0	0	0	0	1	17661	291	11	3		3	ZFP1	16	75203884	Silent	SNP	A	TCGA-BR-8366-01A-11D-2340-08	6978910	75203884	15150869	130	45889											
LRRC50	123872	broad.mit.edu	37	chr16	84189352	84189352	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctggaaagcatgcccgatTtggtaaaaaacaaaaacaaa	19	8	7	7	1	1	0	0	0	1	0	1	2	1	1	1	2	4	2	1	2	7	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr16:84189352T>G	uc002fhl.3	+	5	920	c.739T>G	c.(739-741)TTG>GTG	p.L247V	LRRC50_uc010chi.1_RNA	NM_178452	NP_848547	Q8NEP3	DAAF1_HUMAN	leucine rich repeat containing 50	247					axonemal dynein complex assembly|cilium morphogenesis	cilium axoneme|cytoplasm|spindle pole	dynein binding				0						CATGCCCGATTTGGTAaaaaa	0.348									Kartagener_syndrome				4	44					0	0	0.009096	0	0		G	84189352	G	G	84189352	3	3	68	1	0	0	0	0	1	0	0	0	9027	1838	64	5	757	5	LRRC50	16	84189352	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	8985468	84189352	6165401	131	45890											
METT10D	79066	broad.mit.edu	37	chr17	2323552	2323552	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acccctcccttttcctcactCctttcatcctccgtgggttc	3	15	4	19	1	2	0	2	0	0	0	8	0	7	0	7	1	0	1	7	1	0	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr17:2323552C>T	uc002fut.2	-	10	1549	c.1401G>A	c.(1399-1401)AGG>AGA	p.R467R	METT10D_uc002fuu.3_RNA|METT10D_uc010cka.2_RNA|METT10D_uc002fuv.2_Intron|METT10D_uc010vqx.1_RNA|METT10D_uc010vqy.1_Silent_p.R249R	NM_024086	NP_076991	Q86W50	MET16_HUMAN	methyltransferase 10 domain containing	467							methyltransferase activity				0						TTTCCTCACTCCTTTCATCCT	0.627													28	117					0	0	0.116897	0	0		T	2323552	T	T	2323552	2	4	68	1	0	0	0	0	0	0	0	1	9508	854	30	4		4	METT10D	17	2323552	Silent	SNP	C	TCGA-BR-8366-01A-11D-2340-08		2323552	78871658	132	45891											
EIF4A1	1973	broad.mit.edu	37	chr17	7476162	7476162	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctagtttctaaggatcatGtctgcgagccaggattcccg	8	11	10	12	2	3	0	1	0	2	0	4	3	4	2	3	2	2	1	3	2	2	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr17:7476162G>A	uc002gho.1	+	9	1328	c.3G>A	c.(1-3)ATG>ATA	p.M1I	EIF4A1_uc002ghr.1_Missense_Mutation_p.M1I|EIF4A1_uc002ghq.1_Missense_Mutation_p.M1I|EIF4A1_uc002ghp.1_Missense_Mutation_p.M1I|SNORA48_uc002ghs.1_5'Flank	NM_001416	NP_001407	P60842	IF4A1_HUMAN	eukaryotic translation initiation factor 4A	1					nuclear-transcribed mRNA poly(A) tail shortening	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA cap binding|translation initiation factor activity			ovary(1)	1						TAAGGATCATGTCTGCGAGCC	0.622													13	102					0	0	0.09319	0	0		A	7476162	A	A	7476162	3	1	68	1	0	0	0	0	1	0	0	0	5032	1377	48	4	5	4	EIF4A1	17	7476162	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	5152610	7476162	73719048	133	45892											
MYH8	4626	broad.mit.edu	37	chr17	10322320	10322320	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcggagggttcatagggaAgacttggtcttccctgacag	8	12	13	8	1	2	2	1	1	1	1	4	4	3	4	1	4	0	1	1	4	2	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr17:10322320A>C	uc002gmm.2	-	4	333	c.238T>G	c.(238-240)TTC>GTC	p.F80V	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	80	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TTCATAGGGAAGACTTGGTCT	0.368									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				16	65					0	0	0.146539	0	0		C	10322320	C	C	10322320	3	2	68	1	0	0	0	0	1	0	0	0	10059	72	3	5	5723	5	MYH8	17	10322320	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	2846158	10322320	70872890	134	45893											
TBC1D28	254272	broad.mit.edu	37	chr17	18541974	18541974	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtccagtctgcaagcatcTtttgccacttgttggtacgt	6	16	9	10	1	2	0	0	0	2	0	3	0	3	0	2	1	4	4	2	1	2	6			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr17:18541974T>G	uc002gud.2	-	7	651	c.239A>C	c.(238-240)AAG>ACG	p.K80T		NM_001039397	NP_001034486	Q2M2D7	TBC28_HUMAN	TBC1 domain family, member 28	80						intracellular	Rab GTPase activator activity			ovary(1)	1						TGCAAGCATCTTTTGCCACTT	0.542													11	59					0	0	0.11911	0	0		G	18541974	G	G	18541974	3	3	68	1	0	0	0	0	1	0	0	0	15642	1609	56	5	409	5	TBC1D28	17	18541974	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	8219654	18541974	62653236	135	45894											
SKAP1	8631	broad.mit.edu	37	chr17	46262125	46262125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggaggtcagttcaaagcagGattctttcttggaatctctt	9	14	11	7	0	5	0	2	0	3	0	6	3	5	3	0	4	1	2	0	4	2	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr17:46262125G>A	uc002ini.1	-	7	639	c.527C>T	c.(526-528)TCC>TTC	p.S176F	SKAP1_uc002inj.1_Missense_Mutation_p.S176F|SKAP1_uc010dbd.1_Missense_Mutation_p.S82F|SKAP1_uc010dbe.1_Missense_Mutation_p.S176F	NM_003726	NP_003717	Q86WV1	SKAP1_HUMAN	src kinase associated phosphoprotein 1 isoform	176	PH.				positive regulation of transcription from RNA polymerase II promoter|T cell receptor signaling pathway	cytoplasm|nucleus|plasma membrane	antigen binding|protein kinase binding|SH2 domain binding				0						TTCAAAGCAGGATTCTTTCTT	0.522													15	126					0	0	0.146539	0	0		A	46262125	A	A	46262125	3	1	68	1	0	0	0	0	1	0	0	0	14380	1174	41	4	576	4	SKAP1	17	46262125	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	27720151	46262125	34933085	136	45895											
FTSJ3	117246	broad.mit.edu	37	chr17	61897524	61897524	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctggtctgctccagccTcttcagcatctgcaaaggaa	8	11	8	14	0	4	0	1	0	3	0	6	1	6	1	3	2	4	3	3	2	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr17:61897524T>G	uc002jbz.2	-	19	2344	c.2266A>C	c.(2266-2268)AGG>CGG	p.R756R	FTSJ3_uc002jca.2_Silent_p.R756R	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	756					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						TGCTCCAGCCTCTTCAGCATC	0.572													17	80					0	0	0.038395	0	0		G	61897524	G	G	61897524	2	3	68	1	0	0	0	0	0	0	0	1	6103	1550	54	5		5	FTSJ3	17	61897524	Silent	SNP	T	TCGA-BR-8366-01A-11D-2340-08	15635399	61897524	19297686	137	45896											
SLC16A6	9120	broad.mit.edu	37	chr17	66267274	66267274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaccagctccgatccttcCgaaaacttctgcaatggcca	13	8	6	14	2	1	0	0	0	1	0	4	2	4	0	5	1	4	2	5	1	5	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr17:66267274C>T	uc002jgz.1	-	5	1215	c.1027G>A	c.(1027-1029)GGA>AGA	p.G343R	ARSG_uc002jhc.2_Intron|SLC16A6_uc002jha.1_Missense_Mutation_p.G343R	NM_004694	NP_004685	O15403	MOT7_HUMAN	solute carrier family 16, member 6	343	Helical; (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity				0	all_cancers(12;1.24e-09)		BRCA - Breast invasive adenocarcinoma(8;3.17e-08)|LUSC - Lung squamous cell carcinoma(166;0.24)		Pyruvic acid(DB00119)	CCGATCCTTCCGAAAACTTCT	0.468													9	63					0	0	0.080935	0	0		T	66267274	T	T	66267274	3	4	68	1	0	0	0	0	1	0	0	0	14437	661	23	1	552	1	SLC16A6	17	66267274	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	4369750	66267274	14927936	138	45897											
COLEC12	81035	broad.mit.edu	37	chr18	480739	480739	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccgaaggattgcacctccTcctcctctgcgaagtcgtct	8	10	8	15	3	2	0	0	0	2	0	6	3	5	1	5	1	3	1	5	1	3	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr18:480739T>A	uc002kkm.2	-	2	241	c.26A>T	c.(25-27)GAG>GTG	p.E9V		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	9	Cytoplasmic (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				TTGCACCTCCTCCTCCTCTGC	0.542													14	40					0	0	0.11911	0	0		A	480739	A	A	480739	3	1	68	1	0	0	0	0	1	0	0	0	3715	1551	54	5	2238	5	COLEC12	18	480739	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08		480739	77596509	139	45898											
HRH4	59340	broad.mit.edu	37	chr18	22040828	22040828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgtggtggacaaaaacCttagacatcgaagtagttat	13	13	9	6	1	0	1	0	0	0	1	1	3	0	2	1	2	1	2	1	2	6	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr18:22040828C>T	uc002kvi.2	+	1	236	c.136C>T	c.(136-138)CTT>TTT	p.L46F	HRH4_uc010xbd.1_Missense_Mutation_p.L46F|HRH4_uc010dlx.2_Missense_Mutation_p.L46F	NM_021624	NP_067637	Q9H3N8	HRH4_HUMAN	histamine H4 receptor isoform 1	46	Cytoplasmic (Potential).					integral to membrane|plasma membrane	histamine receptor activity			ovary(2)	2	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Clozapine(DB00363)	GGACAAAAACCTTAGACATCG	0.333													22	119					0	0	0.062417	0	0		T	22040828	T	T	22040828	3	4	68	1	0	0	0	0	1	0	0	0	7374	681	24	4	138	4	HRH4	18	22040828	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	21560089	22040828	56036420	140	45899											
SMAD4	4089	broad.mit.edu	37	chr18	48604747	48604748	+	Missense_Mutation	DNP	CT	TA	TA																															agcatcaaagaaacaccttgCtggattgaaattcacttaca																										TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr18:48604747_48604748CT>TA	uc010xdp.1	+	12	2107_2108	c.1569_1570CT>TA	c.(1567-1572)TGCTGG>TGTAGG	p.W524R	SMAD4_uc002lfb.3_Missense_Mutation_p.W369R	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	524	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.C523W(2)|p.?(2)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		AAACACCTTGCTGGATTGAAAT	0.48									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				8	63					0	0	0.115264	0	0		TA	48604748	TA	TA	48604747	3	4	68	1	0	0	0	0	1	0	0	0	14785	805	28	2	1611	2	SMAD4	18	48604747	Missense_Mutation	DNP	CT	TCGA-BR-8366-01A-11D-2340-08	26563919	48604747	29472501	141	45900											
TLE2	7089	broad.mit.edu	37	chr19	3005565	3005565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgcagctggcgccgtccGtgtggccctggaactgcctg	5	8	14	14	3	0	0	0	0	0	0	1	1	1	1	4	3	4	2	4	3	2	0			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:3005565G>A	uc002lww.2	-	17	2029	c.1766C>T	c.(1765-1767)ACG>ATG	p.T589M	TLE2_uc010xhb.1_Missense_Mutation_p.T256M|TLE2_uc010dth.2_Missense_Mutation_p.T590M|TLE2_uc010xhc.1_Missense_Mutation_p.T467M|TLE2_uc010dti.2_Missense_Mutation_p.T603M	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1	589	WD 4.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGCGCCGTCCGTGTGGCCCTG	0.662													5	13					0	0	0.014758	0	0		A	3005565	A	A	3005565	3	1	68	1	0	0	0	0	1	0	0	0	15964	1145	40	1	481	1	TLE2	19	3005565	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08		3005565	56123418	142	45901											
TBXA2R	6915	broad.mit.edu	37	chr19	3600235	3600235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgagaagggccgggtgataCccaggtagcgctctgaggcc	8	5	17	11	3	1	3	0	2	1	1	1	4	1	3	3	4	2	2	3	4	3	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:3600235C>T	uc002lyg.1	-	2	612	c.398G>A	c.(397-399)GGT>GAT	p.G133D	TBXA2R_uc002lye.1_Intron	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	133	Cytoplasmic (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	CCGGGTGATACCCAGGTAGCG	0.736													4	5					0	0	0.009096	0	0		T	3600235	T	T	3600235	3	4	68	1	0	0	0	0	1	0	0	0	15688	507	18	4	886	4	TBXA2R	19	3600235	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	594670	3600235	55528748	143	45902											
CCDC94	55702	broad.mit.edu	37	chr19	4249309	4249309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtacgtggtgcggctgatgGcccccttcaacatgaggtga	8	9	14	10	2	1	3	1	3	0	0	1	3	1	3	2	4	3	2	2	4	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:4249309G>A	uc002lzv.3	+	2	142	c.109G>A	c.(109-111)GCC>ACC	p.A37T		NM_018074	NP_060544	Q9BW85	CCD94_HUMAN	coiled-coil domain containing 94	37											0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0348)|STAD - Stomach adenocarcinoma(1328;0.183)		GCGGCTGATGGCCCCCTTCAA	0.602													4	19					0	0	0.009096	0	0		A	4249309	A	A	4249309	3	1	68	1	0	0	0	0	1	0	0	0	2876	1203	42	2	115	2	CCDC94	19	4249309	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	649074	4249309	54879674	144	45903											
ELAVL1	1994	broad.mit.edu	37	chr19	8056617	8056617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcctgggtcatgttctgaGggaggtagttgacgatcaaa	10	11	13	7	1	3	2	2	2	1	0	4	4	4	3	1	3	0	3	1	3	2	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:8056617G>A	uc002mjb.2	-	2	250	c.83C>T	c.(82-84)CCT>CTT	p.P28L		NM_001419	NP_001410	Q15717	ELAV1_HUMAN	ELAV-like 1	28	RRM 1.				3'-UTR-mediated mRNA stabilization|multicellular organismal development	cytoplasm|nucleoplasm	identical protein binding|mRNA binding|nucleotide binding				0						CATGTTCTGAGGGAGGTAGTT	0.428													11	86					0	0	0.069234	0	0		A	8056617	A	A	8056617	3	1	68	1	0	0	0	0	1	0	0	0	5057	1000	35	4	917	4	ELAVL1	19	8056617	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	3807308	8056617	51072366	145	45904											
ZNF441	126068	broad.mit.edu	37	chr19	11891663	11891663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtatgaatgtaagtattgtGggaaagcattctctgattgc	11	14	11	5	1	1	2	0	2	1	0	2	3	1	3	0	1	2	4	0	1	5	6			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:11891663G>A	uc010dyj.2	+	4	1218	c.1024G>A	c.(1024-1026)GGG>AGG	p.G342R	ZNF441_uc002msn.3_Missense_Mutation_p.G298R	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	342	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TAAGTATTGTGGGAAAGCATT	0.403													16	117					0	0	0.132662	0	0		A	11891663	A	A	11891663	3	1	68	1	0	0	0	0	1	0	0	0	17939	1348	47	4	1038	4	ZNF441	19	11891663	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	3835046	11891663	47237320	146	45905											
RTBDN	83546	broad.mit.edu	37	chr19	12940627	12940627	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtctggggtgctcacctGccaggtgcagcttgcctttg	4	11	15	11	0	2	0	1	0	1	0	2	0	2	0	3	4	5	3	3	4	0	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:12940627G>T	uc002mvi.2	-	2	297	c.167C>A	c.(166-168)GCA>GAA	p.A56E	RTBDN_uc002mvh.1_Missense_Mutation_p.A88E|RTBDN_uc002mvj.2_Missense_Mutation_p.A88E	NM_001080997	NP_001074466	Q9BSG5	RTBDN_HUMAN	retbindin isoform 1	56						extracellular region					0						GTGCTCACCTGCCAGGTGCAG	0.587													3	21					0.004672	0.00469155	0.115264	1	0		T	12940627	T	T	12940627	3	4	68	1	0	0	0	0	1	0	0	0	13742	1319	46	5	542	5	RTBDN	19	12940627	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	1048964	12940627	46188356	147	45906											
FAM129C	199786	broad.mit.edu	37	chr19	17664149	17664149	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttaacttggtgtcaagttTcctggctgggagacaagctt	8	14	11	8	0	2	1	1	0	1	1	3	2	3	1	1	3	2	3	1	3	3	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:17664149T>C	uc010xpr.1	+	16	2009	c.1871T>C	c.(1870-1872)TTC>TCC	p.F624S	GLT25D1_uc002nhc.1_5'Flank	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	624											0						GTGTCAAGTTTCCTGGCTGGG	0.463													15	131					0	0	0.043863	0	0		C	17664149	C	C	17664149	3	2	68	1	0	0	0	0	1	0	0	0	5449	1783	62	3	2050	3	FAM129C	19	17664149	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	4723522	17664149	41464834	148	45907											
ZNF486	90649	broad.mit.edu	37	chr19	20295165	20295165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtgtgtgtgtgtttttcagGaatcattgcaatttagagat	9	18	11	3	0	2	1	2	0	0	1	2	3	2	2	0	1	1	2	0	1	3	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:20295165G>A	uc002nou.2	+	2	88	c.31G>A	c.(31-33)GAA>AAA	p.E11K		NM_052852	NP_443084	Q96H40	ZN486_HUMAN	zinc finger protein 486	11					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGTTTTTCAGGAATCATTGCA	0.393													19	164					0	0	0.043863	0	0		A	20295165	A	A	20295165	3	1	68	1	0	0	0	0	1	0	0	0	17964	1188	41	4	37	4	ZNF486	19	20295165	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	2631016	20295165	38833818	149	45908											
ZNF208	7757	broad.mit.edu	37	chr19	22157177	22157177	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctccagtatgagcactcTtataataagtaagggttgag	12	13	9	7	0	2	2	0	2	2	0	4	2	3	2	1	1	1	4	1	1	5	6			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:22157177T>C	uc002nqp.2	-	4	808	c.659A>G	c.(658-660)AAG>AGG	p.K220R	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				ATGAGCACTCTTATAATAAGT	0.358													5	54					0	0	0.014758	0	0		C	22157177	C	C	22157177	3	2	68	1	0	0	0	0	1	0	0	0	17791	1609	56	3	3187	3	ZNF208	19	22157177	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	1862012	22157177	36971806	150	45909											
ZNF676	163223	broad.mit.edu	37	chr19	22362948	22362948	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctccagtatgaattatcTtatgttcagtaaggatcgag	11	15	8	7	1	3	1	1	1	2	0	6	3	4	2	1	1	0	3	1	1	5	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:22362948T>G	uc002nqs.1	-	3	1889	c.1571A>C	c.(1570-1572)AAG>ACG	p.K524T		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	524	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				ATGAATTATCTTATGTTCAGT	0.398													17	79					0	0	0.146539	0	0		G	22362948	G	G	22362948	3	3	68	1	0	0	0	0	1	0	0	0	18108	1609	56	5	199	5	ZNF676	19	22362948	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	205771	22362948	36766035	151	45910											
CD22	933	broad.mit.edu	37	chr19	35832422	35832422	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaattttgactccatcTccccagaagatgctgggagt	10	11	10	10	0	1	4	0	2	1	2	3	5	2	5	3	1	2	2	3	1	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:35832422T>A	uc010edt.2	+	8	1761	c.1684T>A	c.(1684-1686)TCC>ACC	p.S562T	CD22_uc010xst.1_Missense_Mutation_p.S390T|CD22_uc010edu.2_Missense_Mutation_p.S474T|CD22_uc010edv.2_Missense_Mutation_p.S562T|CD22_uc002nzb.3_Missense_Mutation_p.S385T|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	562	Extracellular (Potential).|Ig-like C2-type 5.				cell adhesion		protein binding|sugar binding			ovary(5)|lung(3)|breast(1)	9	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.83e-19)|OV - Ovarian serous cystadenocarcinoma(14;3.19e-18)|all cancers(14;3.41e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)		OspA lipoprotein(DB00045)	TGACTCCATCTCCCCAGAAGA	0.522													8	36					0	0	0.038147	0	0		A	35832422	A	A	35832422	3	1	68	1	0	0	0	0	1	0	0	0	2988	1551	54	5	1710	5	CD22	19	35832422	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	13469474	35832422	23296561	152	45911											
APLP1	333	broad.mit.edu	37	chr19	36369820	36369820	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgttccaaggggtttccCtttccactcatcggagattc	6	14	9	12	1	2	1	1	0	1	1	7	2	5	1	3	3	0	2	3	3	1	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:36369820C>A	uc002oce.2	+	15	1814	c.1676C>A	c.(1675-1677)CCT>CAT	p.P559H	APLP1_uc010xsz.1_Missense_Mutation_p.P520H|APLP1_uc002ocf.2_Missense_Mutation_p.P560H|APLP1_uc002ocg.2_Missense_Mutation_p.P463H|APLP1_uc010xta.1_Missense_Mutation_p.P553H	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	559	Extracellular (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGGGGTTTCCCTTTCCACTCA	0.587													8	60					3.86212e-05	3.97815e-05	0.069234	1	0		A	36369820	A	A	36369820	3	1	68	1	0	0	0	0	1	0	0	0	778	681	24	5	1737	5	APLP1	19	36369820	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	537398	36369820	22759163	153	45912											
ZNF566	84924	broad.mit.edu	37	chr19	36940481	36940481	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttgccagtatgaatttTctgatgatgagtgagtcttg	8	18	10	5	0	3	5	0	5	3	0	3	5	3	5	1	0	1	1	1	0	2	6			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:36940481T>C	uc002oea.3	-	5	737	c.655A>G	c.(655-657)AAA>GAA	p.K219E	ZNF566_uc010xte.1_Missense_Mutation_p.K219E|ZNF566_uc010xtf.1_Missense_Mutation_p.K220E|ZNF566_uc002oeb.3_Missense_Mutation_p.K219E|ZNF566_uc002oec.3_Missense_Mutation_p.K115E|ZNF566_uc010xtg.1_Missense_Mutation_p.K115E	NM_032838	NP_116227	Q969W8	ZN566_HUMAN	zinc finger protein 566 isoform 1	219	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					GTATGAATTTTCTGATGATGA	0.388													22	72					0	0	0.055883	0	0		C	36940481	C	C	36940481	3	2	68	1	0	0	0	0	1	0	0	0	18022	1792	62	3	605	3	ZNF566	19	36940481	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	570661	36940481	22188502	154	45913											
SNRPA	6626	broad.mit.edu	37	chr19	41263270	41263270	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtacgccatcttctcccAgtttggccagatcctggata	7	12	8	14	1	2	1	0	0	2	1	4	2	3	2	5	2	1	2	5	2	2	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:41263270A>G	uc002ooz.2	+	2	642	c.107A>G	c.(106-108)CAG>CGG	p.Q36R	SNRPA_uc002opa.2_5'UTR	NM_004596	NP_004587	P09012	SNRPA_HUMAN	small nuclear ribonucleoprotein polypeptide A	36	RRM 1.					nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding			skin(2)|ovary(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			ATCTTCTCCCAGTTTGGCCAG	0.527													4	30					0	0	0.009096	0	0		G	41263270	G	G	41263270	3	3	68	1	0	0	0	0	1	0	0	0	14884	188	7	3	113	3	SNRPA	19	41263270	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	4322789	41263270	17865713	155	45914											
PSG6	5675	broad.mit.edu	37	chr19	43528974	43528974	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggatgcattggaatatactGtttctcgtccactgtatgcc	8	14	10	9	1	1	0	0	0	1	0	3	2	2	2	2	2	3	3	2	2	4	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:43528974G>T	uc002ovh.1	-	2	406	c.317C>A	c.(316-318)ACA>AAA	p.T106K	PSG11_uc002ouw.2_Missense_Mutation_p.T106K|PSG10_uc002ouv.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Missense_Mutation_p.T106K|PSG11_uc002ovm.1_Missense_Mutation_p.T100K|PSG11_uc002ovn.1_Missense_Mutation_p.T106K|PSG11_uc002ovo.1_Intron|PSG11_uc002ovp.1_Intron			Q00889	PSG6_HUMAN	SubName: Full=Putative uncharacterized protein PSG6;	99	Ig-like V-type.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				GGAATATACTGTTTCTCGTCC	0.453													21	228					2.75727e-19	2.96747e-19	0.074837	1	0		T	43528974	T	T	43528974	3	4	68	1	0	0	0	0	1	0	0	0	12681	1377	48	5		5	PSG6	19	43528974	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	2265704	43528974	15600009	156	45915											
CCDC114	93233	broad.mit.edu	37	chr19	48807367	48807367	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttctccgcgcgctcccgCagcaagcccatcttggcctt	4	11	8	18	4	3	0	0	0	3	0	5	0	4	0	4	1	2	3	4	1	1	3	rs28582401	by1000genomes	TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:48807367C>A	uc002pir.2	-	7	1268	c.585G>T	c.(583-585)CTG>CTT	p.L195L	CCDC114_uc002piq.2_Silent_p.L4L|CCDC114_uc002pio.2_Silent_p.L232L|CCDC114_uc002pis.1_5'Flank|CCDC114_uc002pit.1_Silent_p.L232L|CCDC114_uc002piu.1_Silent_p.L232L	NM_144577	NP_653178	Q96M63	CC114_HUMAN	coiled-coil domain containing 114 isoform 2	195	Potential.									ovary(1)	1		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000162)|Epithelial(262;0.0134)|GBM - Glioblastoma multiforme(486;0.0143)		CGCGCTCCCGCAGCAAGCCCA	0.682													4	53					0.00024832	0.000252529	0.009096	1	0		A	48807367	A	A	48807367	2	1	68	1	0	0	0	0	0	0	0	1	2754	697	25	5		5	CCDC114	19	48807367	Silent	SNP	C	TCGA-BR-8366-01A-11D-2340-08	5278393	48807367	10321616	157	45916											
SLC6A16	28968	broad.mit.edu	37	chr19	49813671	49813671	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgatcttccatacacccatgCcaccctgacgcatgctctga	9	10	6	16	1	2	3	0	3	2	0	3	3	3	3	4	0	3	2	4	0	1	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:49813671C>A	uc002pmz.2	-	3	746	c.512G>T	c.(511-513)GGC>GTC	p.G171V	SLC6A16_uc002pna.2_Missense_Mutation_p.G171V|hsa-mir-4324|MI0015854_5'Flank	NM_014037	NP_054756	Q9GZN6	S6A16_HUMAN	solute carrier family 6, member 16	171						integral to membrane|intracellular	neurotransmitter:sodium symporter activity			skin(2)|ovary(1)|kidney(1)	4		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00099)|GBM - Glioblastoma multiforme(486;0.0336)		TACACCCATGCCACCCTGACG	0.557													5	16					2.7689e-08	2.92747e-08	0.02938	1	0		A	49813671	A	A	49813671	3	1	68	1	0	0	0	0	1	0	0	0	14704	739	26	5	1738	5	SLC6A16	19	49813671	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	1006304	49813671	9315312	158	45917											
KCNC3	3748	broad.mit.edu	37	chr19	50826555	50826555	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcttgggcagcttctgcTtggccatggccagcgaatag	6	12	12	11	1	3	0	0	0	3	0	3	1	3	0	2	3	3	3	2	3	2	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:50826555T>G	uc002pru.1	-	2	1950	c.1655A>C	c.(1654-1656)AAG>ACG	p.K552T	KCNC3_uc002prt.1_Missense_Mutation_p.K188T	NM_004977	NP_004968	Q14003	KCNC3_HUMAN	Shaw-related voltage-gated potassium channel	552	Cytoplasmic (Potential).				cell death	voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1		all_neural(266;0.057)|Ovarian(192;0.208)		OV - Ovarian serous cystadenocarcinoma(262;0.00283)|GBM - Glioblastoma multiforme(134;0.0181)		CAGCTTCTGCTTGGCCATGGC	0.647													6	22					0	0	0.021553	0	0		G	50826555	G	G	50826555	3	3	68	1	0	0	0	0	1	0	0	0	8032	1609	56	5	630	5	KCNC3	19	50826555	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	1012884	50826555	8302428	159	45918											
ZNF331	55422	broad.mit.edu	37	chr19	54080139	54080139	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgatcatcaattatgtcAaaagacctgctactagagaa	17	10	7	7	0	3	4	3	1	0	3	3	5	3	4	1	0	2	1	1	0	7	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:54080139A>G	uc002qbx.1	+	7	1759	c.325A>G	c.(325-327)AAA>GAA	p.K109E	ZNF331_uc002qby.1_Missense_Mutation_p.K109E|ZNF331_uc002qbz.1_Missense_Mutation_p.K109E|ZNF331_uc002qca.1_Missense_Mutation_p.K109E|ZNF331_uc010eqr.1_Missense_Mutation_p.K109E|ZNF331_uc002qcb.1_Missense_Mutation_p.K109E|ZNF331_uc002qcc.1_Missense_Mutation_p.K109E|ZNF331_uc002qcd.1_Missense_Mutation_p.K109E	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	109					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		CAATTATGTCAAAAGACCTGC	0.453			T	?	follicular thyroid adenoma								17	55					0	0	0.146539	0	0		G	54080139	G	G	54080139	3	3	68	1	0	0	0	0	1	0	0	0	17874	131	5	3	335	3	ZNF331	19	54080139	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	3253584	54080139	5048844	160	45919											
KIR3DL1	3811	broad.mit.edu	37	chr19	55331283	55331283	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcacttctttctgcacaaAgaggggatctctaaggaccc	11	9	10	11	0	3	1	0	0	3	1	4	4	3	3	1	3	2	2	1	3	2	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:55331283A>C	uc002qhk.3	+	4	534	c.471A>C	c.(469-471)AAA>AAC	p.K157N	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_Missense_Mutation_p.K99N|KIR3DL1_uc010esf.2_Missense_Mutation_p.K62N|KIR3DL1_uc010yfo.1_Missense_Mutation_p.K99N|KIR3DL1_uc002qhl.3_Missense_Mutation_p.K157N	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	157	Extracellular (Potential).|Ig-like C2-type 2.				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		TTCTGCACAAAGAGGGGATCT	0.537													26	68					0	0	0.116897	0	0		C	55331283	C	C	55331283	3	2	68	1	0	0	0	0	1	0	0	0	8336	69	3	5	485	5	KIR3DL1	19	55331283	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	1251144	55331283	3797700	161	45920											
PTPRH	5794	broad.mit.edu	37	chr19	55708037	55708037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatctgtcctgggagccccGctgtcctcccacctccaact	6	9	8	18	1	1	1	0	0	1	1	5	2	5	2	7	1	2	1	7	1	1	0	rs73619559	byFrequency	TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:55708037G>A	uc002qjq.2	-	10	2183	c.2110C>T	c.(2110-2112)CGG>TGG	p.R704W	PTPRH_uc010esv.2_Missense_Mutation_p.R526W|PTPRH_uc002qjs.2_Missense_Mutation_p.R711W	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	704	Extracellular (Potential).|Fibronectin type-III 8.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		TGGGAGCCCCGCTGTCCTCCC	0.627													9	49					0	0	0.058154	0	0		A	55708037	A	A	55708037	3	1	68	1	0	0	0	0	1	0	0	0	12828	1086	38	1	1281	1	PTPRH	19	55708037	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	376754	55708037	3420946	162	45921											
ZNF805	390980	broad.mit.edu	37	chr19	57765493	57765493	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagtgaatgcggaaaggccTtcacccactgctctactttc	9	11	9	12	1	2	1	1	1	1	0	3	2	2	2	2	2	3	2	2	2	4	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:57765493T>G	uc010ygt.1	+	4	1513	c.1306T>G	c.(1306-1308)TTC>GTC	p.F436V	ZNF805_uc010ygu.1_Missense_Mutation_p.F303V	NM_001023563	NP_001018857	Q5CZA5	ZN805_HUMAN	zinc finger protein 805 isoform 1	436	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGGAAAGGCCTTCACCCACTG	0.502													14	38					0	0	0.105934	0	0		G	57765493	G	G	57765493	3	3	68	1	0	0	0	0	1	0	0	0	18197	1609	56	5	1320	5	ZNF805	19	57765493	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	2057456	57765493	1363490	163	45922											
ZNF551	90233	broad.mit.edu	37	chr19	58198809	58198809	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagagttcactctggagaaaGgccttatcagtgctgtgagt	10	11	13	7	0	3	3	2	1	1	2	3	5	3	3	1	2	1	2	1	2	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr19:58198809G>A	uc002qpw.3	+	3	1341	c.1118G>A	c.(1117-1119)AGG>AAG	p.R373K	ZNF551_uc002qpv.3_Missense_Mutation_p.R316K|ZNF776_uc002qpx.2_Intron	NM_138347	NP_612356	Q7Z340	ZN551_HUMAN	zinc finger protein 551	389					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TCTGGAGAAAGGCCTTATCAG	0.448													17	86					0	0	0.146539	0	0		A	58198809	A	A	58198809	3	1	68	1	0	0	0	0	1	0	0	0	18008	1000	35	4	1128	4	ZNF551	19	58198809	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	433316	58198809	930174	164	45923											
ERGIC3	51614	broad.mit.edu	37	chr20	34136347	34136347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatactattgagcagtgcCggcgagagggcttcagccag	10	7	14	10	2	1	3	1	1	0	2	1	4	1	3	2	2	4	2	2	2	2	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr20:34136347C>T	uc002xct.2	+	6	616	c.547C>T	c.(547-549)CGG>TGG	p.R183W	ERGIC3_uc002xcr.1_Missense_Mutation_p.R183W|ERGIC3_uc010zvg.1_Missense_Mutation_p.R183W|ERGIC3_uc002xcs.2_Missense_Mutation_p.R183W|ERGIC3_uc002xcu.2_Missense_Mutation_p.R183W|ERGIC3_uc002xcv.2_Missense_Mutation_p.R146W	NM_015966	NP_057050	Q9Y282	ERGI3_HUMAN	serologically defined breast cancer antigen 84	183	Lumenal (Potential).				vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane	protein binding			large_intestine(2)|ovary(1)	3	Lung NSC(9;0.00489)|all_lung(11;0.00729)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			TGAGCAGTGCCGGCGAGAGGG	0.542													5	35					0	0	0.014758	0	0		T	34136347	T	T	34136347	3	4	68	1	0	0	0	0	1	0	0	0	5233	643	23	1	569	1	ERGIC3	20	34136347	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08		34136347	28889173	165	45924											
ZNF831	128611	broad.mit.edu	37	chr20	57829765	57829765	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagttcagtgacaccagcagCgacgatgaagaccgattagt	13	7	12	9	3	1	3	1	2	0	1	1	7	1	3	2	0	2	2	2	0	2	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr20:57829765C>T	uc002yan.2	+	5	5001	c.5001C>T	c.(4999-5001)AGC>AGT	p.S1667S		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1667						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					ACACCAGCAGCGACGATGAAG	0.438													7	47					0	0	0.038147	0	0		T	57829765	T	T	57829765	2	4	68	1	0	0	0	0	0	0	0	1	18210	767	27	1		1	ZNF831	20	57829765	Silent	SNP	C	TCGA-BR-8366-01A-11D-2340-08	23693418	57829765	5195755	166	45925											
ABCG1	9619	broad.mit.edu	37	chr21	43714709	43714709	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctcctgttctcggggttcTtcgtcagcttcgacaccatc	4	14	9	14	3	3	0	1	0	2	0	8	1	4	0	2	2	2	4	2	2	0	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr21:43714709T>G	uc002zaq.2	+	14	1853	c.1747T>G	c.(1747-1749)TTC>GTC	p.F583V	ABCG1_uc002zan.2_Missense_Mutation_p.F573V|ABCG1_uc002zam.2_Missense_Mutation_p.F549V|ABCG1_uc002zao.2_Missense_Mutation_p.F568V|ABCG1_uc002zap.2_Missense_Mutation_p.F571V|ABCG1_uc002zar.2_Missense_Mutation_p.F582V|ABCG1_uc011aev.1_Missense_Mutation_p.F594V|ABCG1_uc010gpb.1_Missense_Mutation_p.L223R	NM_004915	NP_004906	P45844	ABCG1_HUMAN	ATP-binding cassette sub-family G member 1	583	ABC transmembrane type-2.|Helical; (Potential).				amyloid precursor protein catabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|detection of hormone stimulus|high-density lipoprotein particle remodeling|intracellular cholesterol transport|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|positive regulation of cholesterol biosynthetic process|regulation of cholesterol esterification|regulation of transcription, DNA-dependent|response to lipid|reverse cholesterol transport	endoplasmic reticulum membrane|external side of plasma membrane|Golgi membrane|recycling endosome	ADP binding|ATP binding|cholesterol transporter activity|glycoprotein transporter activity|phospholipid transporter activity|protein heterodimerization activity|protein homodimerization activity|sterol-transporting ATPase activity|toxin transporter activity			ovary(2)|central_nervous_system(1)	3					Adenosine triphosphate(DB00171)	CTCGGGGTTCTTCGTCAGCTT	0.617													5	41					0	0	0.021553	0	0		G	43714709	G	G	43714709	3	3	68	1	0	0	0	0	1	0	0	0	68	1609	56	5	1969	5	ABCG1	21	43714709	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08		43714709	4415186	167	45926											
ZNF280B	140883	broad.mit.edu	37	chr22	22842771	22842771	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgattcataaacttaacaTtttttagaactttcacgcag	13	15	5	8	2	2	2	2	1	0	1	2	2	2	2	0	0	3	1	0	0	5	7			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr22:22842771T>G	uc002zwc.1	-	4	1729	c.953A>C	c.(952-954)AAT>ACT	p.N318T	LOC96610_uc011aim.1_Intron	NM_080764	NP_542942	Q86YH2	Z280B_HUMAN	zinc finger protein 280B	318					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		AAACTTAACATTTTTTAGAAC	0.463													15	77					0	0	0.132662	0	0		G	22842771	G	G	22842771	3	3	68	1	0	0	0	0	1	0	0	0	17840	1493	52	5	682	5	ZNF280B	22	22842771	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08		22842771	28461795	168	45927											
SEZ6L	23544	broad.mit.edu	37	chr22	26692998	26692998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccatctccgtctacttcCggaccttccaggacgacggc	8	8	8	17	4	2	0	0	0	2	0	5	3	4	2	5	3	1	0	5	3	1	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr22:26692998C>T	uc003acb.2	+	4	1270	c.1114C>T	c.(1114-1116)CGG>TGG	p.R372W	SEZ6L_uc003acc.2_Missense_Mutation_p.R372W|SEZ6L_uc011akc.1_Missense_Mutation_p.R372W|SEZ6L_uc003acd.2_Missense_Mutation_p.R372W|SEZ6L_uc011akd.1_Missense_Mutation_p.R372W|SEZ6L_uc003ace.2_Missense_Mutation_p.R372W|SEZ6L_uc003acf.1_Missense_Mutation_p.R145W|SEZ6L_uc010gvc.1_Missense_Mutation_p.R145W	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	372	CUB 1.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CGTCTACTTCCGGACCTTCCA	0.612													3	14					0	0	0.115264	0	0		T	26692998	T	T	26692998	3	4	68	1	0	0	0	0	1	0	0	0	14168	643	23	1	1128	1	SEZ6L	22	26692998	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	3850227	26692998	24611568	169	45928											
NEFH	4744	broad.mit.edu	37	chr22	29884869	29884869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgaagagtgtcggattGgctttggcccaattcctttc	8	13	12	8	1	0	2	0	1	0	1	3	3	1	3	2	4	0	1	2	4	3	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr22:29884869G>A	uc003afo.2	+	4	1311	c.1240G>A	c.(1240-1242)GGC>AGC	p.G414S	NEFH_uc003afp.2_5'Flank	NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	414	Tail.				cell death|nervous system development	neurofilament					0						GTGTCGGATTGGCTTTGGCCC	0.408													9	79					0	0	0.047766	0	0		A	29884869	A	A	29884869	3	1	68	1	0	0	0	0	1	0	0	0	10333	1348	47	4	1254	4	NEFH	22	29884869	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	3191871	29884869	21419697	170	45929											
MTMR3	8897	broad.mit.edu	37	chr22	30421750	30421750	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccacaagctccagcattgAccttgaactggataagccca	12	8	7	14	0	0	2	0	2	0	0	2	3	2	3	4	1	4	2	4	1	3	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chr22:30421750A>G	uc003agv.3	+	20	3885	c.3557A>G	c.(3556-3558)GAC>GGC	p.D1186G	MTMR3_uc003agu.3_Missense_Mutation_p.D1158G|MTMR3_uc003agw.3_Missense_Mutation_p.D1149G	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	1186					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			TCCAGCATTGACCTTGAACTG	0.532													13	56					0	0	0.09319	0	0		G	30421750	G	G	30421750	3	3	68	1	0	0	0	0	1	0	0	0	9963	275	10	3	3658	3	MTMR3	22	30421750	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	536881	30421750	20882816	171	45930											
TAB3	257397	broad.mit.edu	37	chrX	30852177	30852177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagtacaaaccatctgcagCtgctgcctgggtgtcatgga	10	9	11	11	0	2	0	1	0	1	0	2	1	2	1	2	2	6	4	2	2	3	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:30852177C>T	uc004dcj.2	-	10	2644	c.1981G>A	c.(1981-1983)GCT>ACT	p.A661T	TAB3_uc004dck.2_Missense_Mutation_p.A661T|TAB3_uc010ngl.2_Missense_Mutation_p.A633T	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	661	Poly-Ala.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						CCATCTGCAGCTGCTGCCTGG	0.433													3	33					0	0	0.115264	0	0		T	30852177	T	T	30852177	3	4	68	1	0	0	0	0	1	0	0	0	15522	797	28	2	165	2	TAB3	23	30852177	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08		30852177	124418383	172	45931											
BCOR	54880	broad.mit.edu	37	chrX	39916463	39916463	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccatattcaaggaggtgtcGcacaatgttgagccagcccc	10	8	11	12	1	1	1	1	1	0	0	2	2	1	2	4	2	2	2	4	2	3	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:39916463G>A	uc004den.3	-	11	4832	c.4540C>T	c.(4540-4542)CGA>TGA	p.R1514*	BCOR_uc004dep.3_Nonsense_Mutation_p.R1480*|BCOR_uc004deo.3_Nonsense_Mutation_p.R1462*|BCOR_uc010nhb.2_Nonsense_Mutation_p.R222*|BCOR_uc004dem.3_Nonsense_Mutation_p.R1480*	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	1514	ANK 2.				heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						AGGAGGTGTCGCACAATGTTG	0.512													6	36					0	0	0.021553	0	0		A	39916463	A	A	39916463	4	1	68	1	0	0	0	0	0	1	0	0	1387	1095	38	1	747	1	BCOR	23	39916463	Nonsense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	9064286	39916463	115354097	173	45932											
MED14	9282	broad.mit.edu	37	chrX	40513617	40513617	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtctactggtcatgtaccTtgtcgtggtggattcatctc	5	17	10	9	1	4	0	2	0	2	0	6	1	4	1	1	3	2	1	1	3	2	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:40513617T>G	uc004dex.3	-	30	4430	c.4290A>C	c.(4288-4290)CAA>CAC	p.Q1430H	MED14_uc004dey.1_Missense_Mutation_p.Q332H	NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	1430					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						GTCATGTACCTTGTCGTGGTG	0.438													9	54					0	0	0.047766	0	0		G	40513617	G	G	40513617	3	3	68	1	0	0	0	0	1	0	0	0	9450	1623	56	5	82	5	MED14	23	40513617	Missense_Mutation	SNP	T	TCGA-BR-8366-01A-11D-2340-08	597154	40513617	114756943	174	45933											
USP9X	8239	broad.mit.edu	37	chrX	41027344	41027344	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgttttggatggtgacAaagacagtgttaattgtgca	10	15	13	3	0	0	2	0	1	0	1	0	3	0	3	0	2	1	3	0	2	2	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:41027344A>G	uc004dfb.2	+	18	3142	c.2509A>G	c.(2509-2511)AAA>GAA	p.K837E	USP9X_uc004dfc.2_Missense_Mutation_p.K837E	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	837					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						GGATGGTGACAAAGACAGTGT	0.383													16	64					0	0	0.0333	0	0		G	41027344	G	G	41027344	3	3	68	1	0	0	0	0	1	0	0	0	17116	131	5	3	2575	3	USP9X	23	41027344	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	513727	41027344	114243216	175	45934											
ITIH5L	347365	broad.mit.edu	37	chrX	54814956	54814956	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatgaccacatcgtactgaAccaggaagtcagccatgatg	13	7	9	12	1	1	3	1	3	0	0	2	4	1	4	4	1	3	1	4	1	3	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:54814956A>C	uc004dtj.2	-	5	773	c.743T>G	c.(742-744)GTT>GGT	p.V248G		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	248					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						ATCGTACTGAACCAGGAAGTC	0.577													4	35					0	0	0.009096	0	0		C	54814956	C	C	54814956	3	2	68	1	0	0	0	0	1	0	0	0	7924	43	2	5	3234	5	ITIH5L	23	54814956	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	13787612	54814956	100455604	176	45935											
ATRX	546	broad.mit.edu	37	chrX	76918944	76918944	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttctccagattctccGtcactcacagtcaatttgtg	7	17	5	12	1	6	1	3	0	3	1	8	1	6	1	2	0	0	0	2	0	1	5			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:76918944G>T	uc004ecp.3	-	12	4279	c.4047C>A	c.(4045-4047)GAC>GAA	p.D1349E	ATRX_uc004ecq.3_Missense_Mutation_p.D1311E|ATRX_uc004eco.3_Missense_Mutation_p.D1134E|ATRX_uc004ecr.2_Missense_Mutation_p.D1281E	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1349					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	CAGATTCTCCGTCACTCACAG	0.358			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						7	45					1.06961e-07	1.12099e-07	0.038147	1	0		T	76918944	T	T	76918944	3	4	68	1	0	0	0	0	1	0	0	0	1209	1136	40	5	3527	5	ATRX	23	76918944	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	22103988	76918944	78351616	177	45936											
RPA4	29935	broad.mit.edu	37	chrX	96139827	96139827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctggataaagcccgtcGtgataccactgtagaaagtg	12	9	12	8	2	0	2	0	1	0	1	1	4	0	3	2	1	3	2	2	1	5	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:96139827G>A	uc004efv.3	+	1	816	c.518G>A	c.(517-519)CGT>CAT	p.R173H	DIAPH2_uc004eft.3_Intron|DIAPH2_uc004efu.3_Intron|DIAPH2_uc004efs.2_Intron	NM_013347	NP_037479	Q13156	RFA4_HUMAN	replication protein A4, 34kDa	173					DNA damage checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair	DNA replication factor A complex|nucleoplasm	single-stranded DNA binding				0						AAAGCCCGTCGTGATACCACT	0.468								Other_identified_genes_with_known_or_suspected_DNA_repair_function					13	95					0	0	0.105934	0	0		A	96139827	A	A	96139827	3	1	68	1	0	0	0	0	1	0	0	0	13564	1145	40	1	520	1	RPA4	23	96139827	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	19220883	96139827	59130733	178	45937											
ZMAT1	84460	broad.mit.edu	37	chrX	101138752	101138752	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctctttctctggcctttcTttgccttcttctaggtgtcg	1	20	8	12	1	5	0	0	0	5	0	7	0	5	0	2	2	2	1	2	2	1	6			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:101138752T>C	uc004eim.2	-	2	4632	c.1134A>G	c.(1132-1134)AAA>AAG	p.K378K	ZMAT1_uc011mrl.1_Silent_p.K549K|ZMAT1_uc004ein.2_Silent_p.K378K|ZMAT1_uc011mrm.1_Silent_p.K378K	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	378						nucleus	zinc ion binding			ovary(1)	1						CTGGCCTTTCTTTGCCTTCTT	0.393													12	68					0	0	0.080935	0	0		C	101138752	C	C	101138752	2	2	68	1	0	0	0	0	0	0	0	1	17716	1606	56	3		3	ZMAT1	23	101138752	Silent	SNP	T	TCGA-BR-8366-01A-11D-2340-08	4998925	101138752	54131808	179	45938											
GLRA4	441509	broad.mit.edu	37	chrX	102978850	102978850	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaggtccatcaggcaggAcaaaatgagggtcagcctag	12	7	13	9	0	2	2	2	2	0	0	3	3	3	3	2	4	1	1	2	4	3	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:102978850A>T	uc011mse.1	-	5	932	c.511T>A	c.(511-513)TCC>ACC	p.S171T	GLRA4_uc010nou.2_Missense_Mutation_p.S171T	NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	171	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						ATCAGGCAGGACAAAATGAGG	0.483													10	51					0	0	0.080935	0	0		T	102978850	T	T	102978850	3	4	68	1	0	0	0	0	1	0	0	0	6472	275	10	5	857	5	GLRA4	23	102978850	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	1840098	102978850	52291710	180	45939											
AIFM1	9131	broad.mit.edu	37	chrX	129267364	129267364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatcttccactcacaacagCgtgatcatggtgctctaccc	10	10	6	15	1	4	1	2	1	2	0	5	1	5	1	2	1	4	1	2	1	3	2			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:129267364C>T	uc004evg.2	-	13	1550	c.1372G>A	c.(1372-1374)GCT>ACT	p.A458T	AIFM1_uc011mur.1_Missense_Mutation_p.A106T|AIFM1_uc011mus.1_3'UTR|AIFM1_uc004evh.2_Missense_Mutation_p.A454T|AIFM1_uc004evi.2_Missense_Mutation_p.A171T|AIFM1_uc004evk.2_RNA	NM_004208	NP_004199	O95831	AIFM1_HUMAN	programmed cell death 8 isoform 1	458	FAD-dependent oxidoreductase (By similarity).				activation of caspase activity|apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|DNA damage response, signal transduction resulting in induction of apoptosis|DNA fragmentation involved in apoptotic nuclear change	cytosol|mitochondrial inner membrane|mitochondrial intermembrane space|nucleus|perinuclear region of cytoplasm	DNA binding|electron carrier activity|flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			ovary(4)|central_nervous_system(1)	5						CTCACAACAGCGTGATCATGG	0.468													52	344					0	0	0.139131	0	0		T	129267364	T	T	129267364	3	4	68	1	0	0	0	0	1	0	0	0	426	768	27	1	485	1	AIFM1	23	129267364	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	26288514	129267364	26003196	181	45940											
SAGE1	55511	broad.mit.edu	37	chrX	134987488	134987488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgacaaagtcttgtcaactGctccaccacagcttgttcat	10	12	6	13	0	3	1	2	1	1	0	4	1	4	1	2	0	3	3	2	0	2	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:134987488G>A	uc004ezh.2	+	5	558	c.391G>A	c.(391-393)GCT>ACT	p.A131T	SAGE1_uc010nry.1_Missense_Mutation_p.A100T|SAGE1_uc011mvv.1_Missense_Mutation_p.A131T	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	131										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CTTGTCAACTGCTCCACCACA	0.458													22	85					0	0	0.069288	0	0		A	134987488	A	A	134987488	3	1	68	1	0	0	0	0	1	0	0	0	13834	1319	46	2	405	2	SAGE1	23	134987488	Missense_Mutation	SNP	G	TCGA-BR-8366-01A-11D-2340-08	5720124	134987488	20283072	182	45941											
SAGE1	55511	broad.mit.edu	37	chrX	134991106	134991106	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtcatatcaaatgatgcaCcacagcttggtcatatggct	12	11	9	9	0	3	1	3	1	0	0	3	1	3	1	1	3	2	3	1	3	3	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:134991106C>A	uc004ezh.2	+	13	1692	c.1525C>A	c.(1525-1527)CCA>ACA	p.P509T	SAGE1_uc010nry.1_Missense_Mutation_p.P478T|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	509										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AAATGATGCACCACAGCTTGG	0.423													9	71					3.09899e-07	3.23372e-07	0.047766	1	0		A	134991106	A	A	134991106	3	1	68	1	0	0	0	0	1	0	0	0	13834	507	18	5	1571	5	SAGE1	23	134991106	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	3618	134991106	20279454	183	45942											
MAMLD1	10046	broad.mit.edu	37	chrX	149639020	149639020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccttactgtcaagcatgaCgtccagcagcaatgctgccc	9	9	9	14	1	1	1	1	1	0	0	2	1	2	1	3	0	7	4	3	0	3	1			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:149639020C>T	uc004fee.1	+	3	1251	c.1175C>T	c.(1174-1176)ACG>ATG	p.T392M	MAMLD1_uc011mxt.1_Missense_Mutation_p.T354M|MAMLD1_uc011mxu.1_Missense_Mutation_p.T367M|MAMLD1_uc011mxv.1_Missense_Mutation_p.T367M|MAMLD1_uc011mxw.1_Missense_Mutation_p.T319M	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	392					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					TCAAGCATGACGTCCAGCAGC	0.602													25	135					0	0	0.083992	0	0		T	149639020	T	T	149639020	3	4	68	1	0	0	0	0	1	0	0	0	9226	536	19	1	1185	1	MAMLD1	23	149639020	Missense_Mutation	SNP	C	TCGA-BR-8366-01A-11D-2340-08	14647914	149639020	5631540	184	45943											
GABRA3	2556	broad.mit.edu	37	chrX	151424324	151424324	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtcatgttatgagccacTgatttcttgccattgtggaa	8	15	11	7	0	2	2	1	2	1	0	2	3	2	3	2	2	2	1	2	2	2	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:151424324T>C	uc010ntk.1	-	5	717	c.477A>G	c.(475-477)TCA>TCG	p.S159S		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	159	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TATGAGCCACTGATTTCTTGC	0.498													26	132					0	0	0.099896	0	0		C	151424324	C	C	151424324	2	2	68	1	0	0	0	0	0	0	0	1	6176	1567	55	3		3	GABRA3	23	151424324	Silent	SNP	T	TCGA-BR-8366-01A-11D-2340-08	1785304	151424324	3846236	185	45944											
PLXNB3	5365	broad.mit.edu	37	chrX	153040751	153040751	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtggcttcgctgctgtcGctagcgctacacggcaagct	6	10	12	13	4	0	0	0	0	0	0	2	0	0	0	0	2	4	7	0	2	3	3			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:153040751G>A	uc004fii.2	+	25	4401	c.4227G>A	c.(4225-4227)TCG>TCA	p.S1409S	PLXNB3_uc010nuk.2_Silent_p.S1432S|PLXNB3_uc011mzd.1_Silent_p.S1048S|PLXNB3_uc004fij.1_Intron|SRPK3_uc004fik.2_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1409	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CGCTGCTGTCGCTAGCGCTAC	0.627													6	6					0	0	0.021553	0	0		A	153040751	A	A	153040751	2	1	68	1	0	0	0	0	0	0	0	1	12144	1074	38	1		1	PLXNB3	23	153040751	Silent	SNP	G	TCGA-BR-8366-01A-11D-2340-08	1616427	153040751	2229809	186	45945											
F8	2157	broad.mit.edu	37	chrX	154225316	154225316	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgggaagccatgttcttaAgtgtaatgaccactgtatca	12	12	10	7	0	2	1	1	1	1	0	2	3	2	2	2	1	1	3	2	1	4	4			TCGA-BR-8366-01A-11D-2340-08	TCGA-BR-8366-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1abcee1-9890-44fc-b2b3-e506b7a7328b	5f6c1c99-0981-4fbf-93b5-8ad581ab25b6	g.chrX:154225316A>C	uc004fmt.2	-	3	491	c.320T>G	c.(319-321)CTT>CGT	p.L107R	F8_uc011mzx.1_Missense_Mutation_p.L72R	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	107	Plastocyanin-like 1.|F5/8 type A 1.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	CATGTTCTTAAGTGTAATGAC	0.458													30	140					0	0	0.050027	0	0		C	154225316	C	C	154225316	3	2	68	1	0	0	0	0	1	0	0	0	5358	72	3	5	6859	5	F8	23	154225316	Missense_Mutation	SNP	A	TCGA-BR-8366-01A-11D-2340-08	1184565	154225316	1045244	187	45946											
E2F2	1870	broad.mit.edu	37	chr1	23845525	23845525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcagtcctgtcgggcaCttccagtctcgtctgcggag	5	10	11	15	3	3	0	1	0	2	0	7	1	5	1	3	2	1	1	3	2	0	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr1:23845525C>T	uc001bhe.1	-	5	1263	c.835G>A	c.(835-837)GTG>ATG	p.V279M		NM_004091	NP_004082	Q14209	E2F2_HUMAN	E2F transcription factor 2	279	Dimerization (Potential).				G1 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(2)|skin(2)	4		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.52e-24)|Colorectal(126;6.25e-08)|COAD - Colon adenocarcinoma(152;3.42e-06)|GBM - Glioblastoma multiforme(114;8.98e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00102)|KIRC - Kidney renal clear cell carcinoma(1967;0.00366)|STAD - Stomach adenocarcinoma(196;0.0132)|READ - Rectum adenocarcinoma(331;0.0652)|Lung(427;0.0888)|LUSC - Lung squamous cell carcinoma(448;0.19)		CTGTCGGGCACTTCCAGTCTC	0.577													6	45					0	0	0.001168	0	0		T	23845525	T	T	23845525	3	4	69	1	0	0	0	0	1	0	0	0	4873	565	20	4	490	4	E2F2	1	23845525	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08		23845525	225405096	1	45947											
MRPS15	64960	broad.mit.edu	37	chr1	36921446	36921446	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gcagggctgtctgggttcctCcgctttgcttgtttttgggc	1	16	14	10	1	1	0	0	0	1	0	3	0	3	0	2	3	1	6	2	3	0	5			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr1:36921446C>G	uc001cas.2	-	8	881	c.717G>C	c.(715-717)CGG>CGC	p.R239R		NM_031280	NP_112570	P82914	RT15_HUMAN	mitochondrial ribosomal protein S15 precursor	239					translation	mitochondrial small ribosomal subunit|nuclear membrane	structural constituent of ribosome			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CTGGGTTCCTCCGCTTTGCTT	0.468													17	94					0	0	0.006122	0	0		G	36921446	G	G	36921446	2	3	69	1	0	0	0	0	0	0	0	1	9843	842	30	5		5	MRPS15	1	36921446	Silent	SNP	C	TCGA-BR-8367-01A-11D-2340-08	13075921	36921446	212329175	2	45948											
SLC6A17	388662	broad.mit.edu	37	chr1	110734707	110734707	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctacaataagcaggaCaacaactgccacttcgatgc	14	7	7	13	1	0	0	0	0	0	0	2	2	1	1	2	1	7	2	2	1	5	3			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr1:110734707C>T	uc009wfq.2	+	7	1439	c.978C>T	c.(976-978)GAC>GAT	p.D326D	SLC6A17_uc001dze.1_5'Flank	NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	326	Cytoplasmic (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		ATAAGCAGGACAACAACTGCC	0.577													4	51					0	0	0.009096	0	0		T	110734707	T	T	110734707	2	4	69	1	0	0	0	0	0	0	0	1	14705	477	17	4		4	SLC6A17	1	110734707	Silent	SNP	C	TCGA-BR-8367-01A-11D-2340-08	73813261	110734707	138515914	3	45949											
SLC6A17	388662	broad.mit.edu	37	chr1	110741056	110741056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggccagcacccctgagtCggagctgtgaccactgccca	7	6	12	16	1	0	2	0	2	0	0	1	3	0	3	5	2	3	3	5	2	0	0			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr1:110741056C>T	uc009wfq.2	+	12	2635	c.2174C>T	c.(2173-2175)TCG>TTG	p.S725L		NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	725	Cytoplasmic (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		ACCCCTGAGTCGGAGCTGTGA	0.667													15	55					0	0	0.00499	0	0		T	110741056	T	T	110741056	3	4	69	1	0	0	0	0	1	0	0	0	14705	893	31	1	2216	1	SLC6A17	1	110741056	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	6349	110741056	138509565	4	45950											
POGZ	23126	broad.mit.edu	37	chr1	151378545	151378545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgttcagctgcctgttctGtattgcagcatagagcaaac	10	12	10	9	0	2	1	1	0	1	1	2	1	2	1	1	0	6	7	1	0	3	5			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr1:151378545G>A	uc001eyd.1	-	19	3272	c.2966C>T	c.(2965-2967)ACA>ATA	p.T989I	POGZ_uc001eye.1_Missense_Mutation_p.T936I|POGZ_uc010pdb.1_Missense_Mutation_p.T980I|POGZ_uc001eyf.1_Missense_Mutation_p.T945I|POGZ_uc010pdc.1_Missense_Mutation_p.T927I|POGZ_uc009wmv.1_Missense_Mutation_p.T894I|POGZ_uc010pdd.1_Missense_Mutation_p.T480I	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	989					cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TGCCTGTTCTGTATTGCAGCA	0.522													28	44					0	0	0.004656	0	0		A	151378545	A	A	151378545	3	1	69	1	0	0	0	0	1	0	0	0	12205	1377	48	4	1270	4	POGZ	1	151378545	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	40637489	151378545	97872076	5	45951											
FLG	2312	broad.mit.edu	37	chr1	152281969	152281969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgagtgcctggagctgtctCgtgcctgctcgtggcgggat	3	11	16	11	3	1	1	0	1	1	0	3	3	1	3	2	3	4	2	2	3	0	0	rs141235242		TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr1:152281969C>T	uc001ezu.1	-	3	5429	c.5393G>A	c.(5392-5394)CGA>CAA	p.R1798Q		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1798	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGAGCTGTCTCGTGCCTGCTC	0.597									Ichthyosis				33	386					0	0	0.002836	0	0		T	152281969	T	T	152281969	3	4	69	1	0	0	0	0	1	0	0	0	5936	884	31	1	6796	1	FLG	1	152281969	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	903424	152281969	96968652	6	45952											
INSRR	3645	broad.mit.edu	37	chr1	156823679	156823679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcccagcttgttgcccaCgatgtggttggcgccaggtg	4	10	14	13	3	0	0	0	0	0	0	1	1	0	0	3	3	2	3	3	3	0	3			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr1:156823679C>T	uc010pht.1	-	2	756	c.502G>A	c.(502-504)GTG>ATG	p.V168M	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron|INSRR_uc009wsj.1_Missense_Mutation_p.V168M	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	168					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TTGTTGCCCACGATGTGGTTG	0.642													6	24					0	0	0.001168	0	0		T	156823679	T	T	156823679	3	4	69	1	0	0	0	0	1	0	0	0	7790	536	19	1	3474	1	INSRR	1	156823679	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	4541710	156823679	92426942	7	45953											
CACNA1E	777	broad.mit.edu	37	chr1	181724429	181724429	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcttcaacatactcattgtGtacaagctcttcatgttcat	10	16	5	10	0	6	0	4	0	2	0	6	0	6	0	0	0	4	3	0	0	4	6			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr1:181724429G>C	uc001gow.2	+	28	4050	c.3885G>C	c.(3883-3885)GTG>GTC	p.V1295V	CACNA1E_uc009wxs.2_Silent_p.V1183V|CACNA1E_uc001gox.1_Silent_p.V521V|CACNA1E_uc009wxt.2_Silent_p.V521V	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1295	III.|Helical; Name=S5 of repeat III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TACTCATTGTGTACAAGCTCT	0.478													12	95					0	0	0.010729	0	0		C	181724429	C	C	181724429	2	2	69	1	0	0	0	0	0	0	0	1	2545	1364	48	5		5	CACNA1E	1	181724429	Silent	SNP	G	TCGA-BR-8367-01A-11D-2340-08	24900750	181724429	67526192	8	45954											
HMCN1	83872	broad.mit.edu	37	chr1	185958651	185958651	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatttcaaccagcagtgctaAgttttcagcaggagctgatg	11	11	11	8	0	2	1	2	1	0	0	2	3	2	2	1	1	5	5	1	1	2	4			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr1:185958651A>C	uc001grq.1	+	21	3309	c.3080A>C	c.(3079-3081)AAG>ACG	p.K1027T	HMCN1_uc001grr.1_Missense_Mutation_p.K368T	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1027	Ig-like C2-type 7.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AGCAGTGCTAAGTTTTCAGCA	0.463													19	66					0	0	0.010504	0	0		C	185958651	C	C	185958651	3	2	69	1	0	0	0	0	1	0	0	0	7236	72	3	5	3162	5	HMCN1	1	185958651	Missense_Mutation	SNP	A	TCGA-BR-8367-01A-11D-2340-08	4234222	185958651	63291970	9	45955											
LRRN2	10446	broad.mit.edu	37	chr1	204587730	204587730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcatgggcaggtgtcagtCgaagcccagctggagtgacc	8	7	15	11	1	1	1	1	1	0	0	2	3	1	2	2	3	3	3	2	3	1	0			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr1:204587730C>T	uc001hbe.1	-	3	1779	c.1391G>A	c.(1390-1392)CGA>CAA	p.R464Q	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Missense_Mutation_p.R464Q|LRRN2_uc009xbf.1_Missense_Mutation_p.R464Q|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	464	Ig-like C2-type.|Extracellular (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			AGGTGTCAGTCGAAGCCCAGC	0.637													4	40					0	0	0.009096	0	0		T	204587730	T	T	204587730	3	4	69	1	0	0	0	0	1	0	0	0	9053	884	31	1	754	1	LRRN2	1	204587730	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	18629079	204587730	44662891	10	45956											
TRIM58	25893	broad.mit.edu	37	chr1	248039564	248039564	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaaagtcctcgctgcattGggattttcttggactatgaa	9	14	11	7	1	1	1	0	1	1	0	3	4	2	4	1	3	1	2	1	3	3	5			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr1:248039564G>T	uc001ido.2	+	6	1282	c.1234G>T	c.(1234-1236)GGG>TGG	p.G412W	OR2W3_uc001idp.1_Intron	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	412	B30.2/SPRY.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TCGCTGCATTGGGATTTTCTT	0.478													8	170					3.09899e-07	3.35123e-07	0.004482	1	0		T	248039564	T	T	248039564	3	4	69	1	0	0	0	0	1	0	0	0	16557	1348	47	5	1256	5	TRIM58	1	248039564	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	43451834	248039564	1211057	11	45957											
CNTNAP5	129684	broad.mit.edu	37	chr2	125204448	125204448	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagcaggtgaacttcacGgtggacaagcacacacagca	14	4	12	11	1	1	1	1	1	0	0	1	2	1	2	0	4	4	4	0	4	3	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr2:125204448G>A	uc002tno.2	+	6	1216	c.852G>A	c.(850-852)ACG>ACA	p.T284T	CNTNAP5_uc010flu.2_Silent_p.T284T	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	284	Laminin G-like 1.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TGAACTTCACGGTGGACAAGC	0.602													8	45					0	0	0.004482	0	0		A	125204448	A	A	125204448	2	1	69	1	0	0	0	0	0	0	0	1	3653	1103	39	1		1	CNTNAP5	2	125204448	Silent	SNP	G	TCGA-BR-8367-01A-11D-2340-08		125204448	117994925	12	45958											
COL4A3	1285	broad.mit.edu	37	chr2	228128561	228128561	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaaggaagtaaaggggaaCgaggccgcccaggaaaggat	16	3	16	6	2	0	1	0	1	0	0	0	6	0	5	2	6	1	1	2	6	6	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr2:228128561C>T	uc002vom.1	+	21	1378	c.1216C>T	c.(1216-1218)CGA>TGA	p.R406*	COL4A3_uc002von.1_Nonsense_Mutation_p.R406*|COL4A3_uc002voo.1_Nonsense_Mutation_p.R406*|COL4A3_uc002vop.1_Nonsense_Mutation_p.R406*|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	406	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		TAAAGGGGAACGAGGCCGCCC	0.562													14	19					0	0	0.001855	0	0		T	228128561	T	T	228128561	4	4	69	1	0	0	0	0	0	1	0	0	3694	528	19	1	1298	1	COL4A3	2	228128561	Nonsense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	102924113	228128561	15070812	13	45959											
MTMR14	64419	broad.mit.edu	37	chr3	9743656	9743656	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catcagcagcaatgccttgtGaagaagccagcccatgacat	13	7	9	12	0	1	3	1	2	0	1	1	3	1	3	3	0	5	2	3	0	3	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr3:9743656G>A	uc003brz.2	+	19	2076	c.1952G>A	c.(1951-1953)TGA>TAA	p.*651*	MTMR14_uc003bsa.2_Silent_p.*599*|MTMR14_uc003bsb.2_Silent_p.*539*|MTMR14_uc011ath.1_RNA|MTMR14_uc010hcl.2_Silent_p.*293*|MTMR14_uc003bsc.2_RNA|CPNE9_uc003bsd.2_5'Flank	NM_001077525	NP_001070993	Q8NCE2	MTMRE_HUMAN	jumpy isoform 2	651						perinuclear region of cytoplasm|ruffle	phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(99;0.227)					AATGCCTTGTGAAGAAGCCAG	0.597													8	57					0	0	0.004482	0	0		A	9743656	A	A	9743656	2	1	69	1	0	0	0	0	0	0	0	1	9960	1285	45	4		4	MTMR14	3	9743656	Silent	SNP	G	TCGA-BR-8367-01A-11D-2340-08		9743656	188278774	14	45960											
SATB1	6304	broad.mit.edu	37	chr3	18390823	18390823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccacatcgacctctaaacCggaattgtccttcagtttgc	9	12	7	13	2	2	0	1	0	1	0	4	2	3	1	4	1	3	1	4	1	3	4			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr3:18390823C>T	uc003cbh.2	-	11	3866	c.2131G>A	c.(2131-2133)GGT>AGT	p.G711S	SATB1_uc003cbi.2_Missense_Mutation_p.G743S|SATB1_uc003cbj.2_Missense_Mutation_p.G711S	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	711					cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						ACCTCTAAACCGGAATTGTCC	0.448													33	148					0	0	0.012213	0	0		T	18390823	T	T	18390823	3	4	69	1	0	0	0	0	1	0	0	0	13878	652	23	1	164	1	SATB1	3	18390823	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	8647167	18390823	179631607	15	45961											
DYNC1LI1	51143	broad.mit.edu	37	chr3	32582626	32582626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctttgtcttcttgtgacGcagtatttcttctctgggga	5	18	9	9	1	5	1	0	1	5	0	6	2	5	2	0	2	0	2	0	2	1	6	rs61729578		TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr3:32582626G>A	uc003cfb.3	-	5	729	c.641C>T	c.(640-642)GCG>GTG	p.A214V	DYNC1LI1_uc011axh.1_Missense_Mutation_p.A98V	NM_016141	NP_057225	Q9Y6G9	DC1L1_HUMAN	dynein, cytoplasmic 1, light intermediate chain	214					cell division|interspecies interaction between organisms|mitosis|positive regulation of mitotic cell cycle spindle assembly checkpoint|transport	centrosome|condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|plasma membrane|spindle pole	ATP binding|motor activity			ovary(1)	1						TTCTTGTGACGCAGTATTTCT	0.413													17	97					0	0	0.006122	0	0		A	32582626	A	A	32582626	3	1	69	1	0	0	0	0	1	0	0	0	4850	1087	38	1	966	1	DYNC1LI1	3	32582626	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	14191803	32582626	165439804	16	45962											
SCN10A	6336	broad.mit.edu	37	chr3	38812885	38812885	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcaaaggtgtaaatgaCagtgaagacatatctgggaa	15	9	12	5	0	2	3	1	2	1	1	2	4	2	4	0	3	0	2	0	3	6	3			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr3:38812885C>A	uc003ciq.2	-	4	484	c.484G>T	c.(484-486)GTC>TTC	p.V162F		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	162	Helical; Name=S2 of repeat I; (Potential).|I.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GTGTAAATGACAGTGAAGACA	0.468													10	71					3.86212e-05	4.0357e-05	0.008291	1	0		A	38812885	A	A	38812885	3	1	69	1	0	0	0	0	1	0	0	0	13937	478	17	5	5482	5	SCN10A	3	38812885	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	6230259	38812885	159209545	17	45963											
CNTN3	5067	broad.mit.edu	37	chr3	74383974	74383974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaagatgatgtctaacagcGggtcatgttgtacctggcag	11	11	12	7	1	2	2	1	1	1	1	2	2	2	2	1	2	3	3	1	2	4	4			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr3:74383974G>A	uc003dpm.1	-	12	1660	c.1580C>T	c.(1579-1581)CCG>CTG	p.P527L		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	527	Ig-like C2-type 6.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		GTCTAACAGCGGGTCATGTTG	0.418													8	79					0	0	0.00308	0	0		A	74383974	A	A	74383974	3	1	69	1	0	0	0	0	1	0	0	0	3645	1116	39	1	1550	1	CNTN3	3	74383974	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	35571089	74383974	123638456	18	45964											
HTR3C	170572	broad.mit.edu	37	chr3	183772605	183772605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgacagaaaggccttccGtccattcaccaactacagca	12	9	7	13	1	1	2	1	1	0	1	3	2	3	2	4	1	3	2	4	1	3	4			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr3:183772605G>A	uc003fmk.2	+	2	198	c.164G>A	c.(163-165)CGT>CAT	p.R55H		NM_130770	NP_570126	Q8WXA8	5HT3C_HUMAN	5-hydroxytryptamine receptor 3 subunit C	55	Extracellular (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(143;2.33e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			AAGGCCTTCCGTCCATTCACC	0.517													6	78					0	0	0.001984	0	0		A	183772605	A	A	183772605	3	1	69	1	0	0	0	0	1	0	0	0	7462	1145	40	1	170	1	HTR3C	3	183772605	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	109388631	183772605	14249825	19	45965											
KLHL5	51088	broad.mit.edu	37	chr4	39088222	39088222	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggctagtgatgacatgAacattcctaatgaggagaca	13	11	10	7	0	1	5	0	4	1	1	2	6	2	5	1	2	1	1	1	2	3	4			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr4:39088222A>T	uc003gts.2	+	5	1201	c.1126A>T	c.(1126-1128)AAC>TAC	p.N376Y	KLHL5_uc003gtp.2_Missense_Mutation_p.N330Y|KLHL5_uc003gtq.2_Missense_Mutation_p.N189Y|KLHL5_uc003gtr.1_Missense_Mutation_p.N376Y|KLHL5_uc003gtt.2_Missense_Mutation_p.N315Y	NM_015990	NP_057074	Q96PQ7	KLHL5_HUMAN	kelch-like 5 isoform 1	376						cytoplasm|cytoskeleton	actin binding			ovary(1)	1						TGATGACATGAACATTCCTAA	0.388													16	68					0	0	0.003163	0	0		T	39088222	T	T	39088222	3	4	69	1	0	0	0	0	1	0	0	0	8408	246	9	5	1144	5	KLHL5	4	39088222	Missense_Mutation	SNP	A	TCGA-BR-8367-01A-11D-2340-08		39088222	152066054	20	45966											
EGF	1950	broad.mit.edu	37	chr4	110915914	110915914	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actccaccccctcacctcagGgaagatgaccaccactattc	11	7	5	18	0	2	2	2	1	0	1	4	3	3	3	6	1	0	0	6	1	2	2			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr4:110915914G>A	uc003hzy.3	+	20	3335	c.2883G>A	c.(2881-2883)AGG>AGA	p.R961R	EGF_uc011cfu.1_Silent_p.R919R|EGF_uc011cfv.1_Silent_p.R920R|EGF_uc010imk.2_Silent_p.R109R	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	961	Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	CTCACCTCAGGGAAGATGACC	0.433													18	62					0	0	0.007413	0	0		A	110915914	A	A	110915914	2	1	69	1	0	0	0	0	0	0	0	1	4968	1223	43	4		4	EGF	4	110915914	Silent	SNP	G	TCGA-BR-8367-01A-11D-2340-08	71827692	110915914	80238362	21	45967											
IRX4	50805	broad.mit.edu	37	chr5	1878831	1878831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcttcagctcgcacgccGgcggctctgcttccagcggg	3	7	15	16	6	2	0	1	0	1	0	4	0	3	0	2	4	3	5	2	4	0	2			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr5:1878831G>A	uc003jcz.2	-	5	931	c.812C>T	c.(811-813)CCG>CTG	p.P271L	IRX4_uc011cmf.1_Missense_Mutation_p.P132L	NM_016358	NP_057442	P78413	IRX4_HUMAN	iroquois homeobox 4	271					heart development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(108;0.242)		CTCGCACGCCGGCGGCTCTGC	0.697													6	22					0	0	0.001984	0	0		A	1878831	A	A	1878831	3	1	69	1	0	0	0	0	1	0	0	0	7862	1116	39	1	751	1	IRX4	5	1878831	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08		1878831	179036429	22	45968											
CDH12	1010	broad.mit.edu	37	chr5	21975261	21975261	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaaaaactttggctcattAtcattaatatcctgcacttt	12	16	3	10	0	2	0	2	0	0	0	4	0	4	0	2	1	2	2	2	1	5	5			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr5:21975261A>G	uc010iuc.2	-	3	923	c.465T>C	c.(463-465)GAT>GAC	p.D155D	CDH12_uc011cno.1_Silent_p.D155D|CDH12_uc003jgk.2_Silent_p.D155D	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	155	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TTGGCTCATTATCATTAATAT	0.418										HNSCC(59;0.17)			15	96					0	0	0.003163	0	0		G	21975261	G	G	21975261	2	3	69	1	0	0	0	0	0	0	0	1	3101	446	16	3		3	CDH12	5	21975261	Silent	SNP	A	TCGA-BR-8367-01A-11D-2340-08	20096430	21975261	158939999	23	45969											
PDZD2	23037	broad.mit.edu	37	chr5	32069712	32069712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatgaagtcatagcacgcaGcacttatcaggagagcaaag	15	6	12	8	1	2	2	2	1	0	1	2	4	2	3	0	2	3	4	0	2	4	2			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr5:32069712G>A	uc003jhl.2	+	15	2877	c.2489G>A	c.(2488-2490)AGC>AAC	p.S830N	PDZD2_uc003jhm.2_Missense_Mutation_p.S830N|PDZD2_uc011cnx.1_Missense_Mutation_p.S656N	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	830					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						ATAGCACGCAGCACTTATCAG	0.383													7	26					0	0	0.00308	0	0		A	32069712	A	A	32069712	3	1	69	1	0	0	0	0	1	0	0	0	11720	971	34	2	2543	2	PDZD2	5	32069712	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	10094451	32069712	148845548	24	45970											
RAPGEF6	51735	broad.mit.edu	37	chr5	130764705	130764705	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggaacacaggccacgaggTtgctactgagagaagctggt	12	7	14	8	1	0	2	0	1	0	1	0	5	0	3	1	4	4	3	1	4	3	2	rs147369850	byFrequency	TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr5:130764705T>C	uc003kvn.1	-	27	4876	c.4670A>G	c.(4669-4671)AAC>AGC	p.N1557S	RAPGEF6_uc003kvp.1_Missense_Mutation_p.N1607S|RAPGEF6_uc003kvo.1_Intron|RAPGEF6_uc010jdi.1_Missense_Mutation_p.N1565S|RAPGEF6_uc010jdj.1_Intron|RAPGEF6_uc003kvm.1_Missense_Mutation_p.N480S	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	1557					Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		GGCCACGAGGTTGCTACTGAG	0.478													8	108					0	0	0.00308	0	0		C	130764705	C	C	130764705	3	2	69	1	0	0	0	0	1	0	0	0	13073	1725	60	3	143	3	RAPGEF6	5	130764705	Missense_Mutation	SNP	T	TCGA-BR-8367-01A-11D-2340-08	98694993	130764705	50150555	25	45971											
RAD50	10111	broad.mit.edu	37	chr5	131915059	131915059	+	Frame_Shift_Del	DEL	A	-	-																															gtgtgcagaaattgaccgagAaatgatcagttctcttgggg																										TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr5:131915059delA	uc003kxi.2	+	4	803	c.416delA	c.(415-417)GAAfs	p.E139fs	RAD50_uc003kxg.1_Frame_Shift_Del_p.E40fs|RAD50_uc003kxh.2_5'UTR	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	139					DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ATTGACCGAGAAATGATCAGT	0.373								Homologous_recombination					26	53	---	---	---	---						.	-	131915059	-	-	131915059	7	5	69	1	0	1	0	1	0	0	0	0	13009	246	9	0	430	0	RAD50	5	131915059	Frame_Shift_Del	DEL	A	TCGA-BR-8367-01A-11D-2340-08	1150354	131915059	49000201	26	45972											
PCDHA3	56145	broad.mit.edu	37	chr5	140182227	140182227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggtgtctgcgcgggacgCggacgcgcaggagaacgccc	7	3	17	14	8	1	1	0	0	1	1	1	4	1	3	1	4	2	1	1	4	1	0			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr5:140182227C>T	uc003lhf.2	+	1	1445	c.1445C>T	c.(1444-1446)GCG>GTG	p.A482V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.A482V	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	482	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding	p.A482V(1)		ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGCGGGACGCGGACGCGCAG	0.667													14	120					0	0	0.00245	0	0		T	140182227	T	T	140182227	3	4	69	1	0	0	0	0	1	0	0	0	11544	768	27	1	1447	1	PCDHA3	5	140182227	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	8267168	140182227	40733033	27	45973											
PCDHA4	56144	broad.mit.edu	37	chr5	140187213	140187213	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatcgcggaatccaggccGcttgactctcggtttccact	6	11	9	15	4	1	1	0	1	1	0	6	2	4	2	4	3	0	2	4	3	1	2			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr5:140187213G>A	uc003lhi.2	+	1	542	c.441G>A	c.(439-441)CCG>CCA	p.P147P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.P147P|PCDHA4_uc011daa.1_Silent_p.P147P	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	147	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATCCAGGCCGCTTGACTCTC	0.542													41	94					0	0	0.00874	0	0		A	140187213	A	A	140187213	2	1	69	1	0	0	0	0	0	0	0	1	11545	1074	38	1		1	PCDHA4	5	140187213	Silent	SNP	G	TCGA-BR-8367-01A-11D-2340-08	4986	140187213	40728047	28	45974											
PCDHGA6	56109	broad.mit.edu	37	chr5	140753830	140753830	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggagccccaggagttggcGgagcacggagtccgcatcgt	7	6	16	12	4	0	0	0	0	0	0	2	4	1	4	3	5	2	3	3	5	0	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr5:140753830G>A	uc003ljy.1	+	1	180	c.180G>A	c.(178-180)GCG>GCA	p.A60A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.A60A	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	60	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGAGTTGGCGGAGCACGGAG	0.602													8	61					0	0	0.00308	0	0		A	140753830	A	A	140753830	2	1	69	1	0	0	0	0	0	0	0	1	11577	1103	39	1		1	PCDHGA6	5	140753830	Silent	SNP	G	TCGA-BR-8367-01A-11D-2340-08	566617	140753830	40161430	29	45975											
MSX2	4488	broad.mit.edu	37	chr5	174151710	174151710	+	Frame_Shift_Del	DEL	G	-	-																															ttgttttcgcccgacgaggaGggcccagcagtggtggccgg																										TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr5:174151710delG	uc003mcy.2	+	1	136	c.48delG	c.(46-48)GAGfs	p.E16fs		NM_002449	NP_002440	P35548	MSX2_HUMAN	msh homeobox 2	16					cranial suture morphogenesis|negative regulation of transcription, DNA-dependent|osteoblast differentiation	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0196)|all_lung(126;0.0303)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CCGACGAGGAGGGCCCAGCAG	0.701													2	4	---	---	---	---						.	-	174151710	-	-	174151710	7	5	69	1	0	1	0	1	0	0	0	0	9914	991	35	0	50	0	MSX2	5	174151710	Frame_Shift_Del	DEL	G	TCGA-BR-8367-01A-11D-2340-08	33397880	174151710	6763550	30	45976											
BAT2	7916	broad.mit.edu	37	chr6	31599008	31599008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgggcccccaatctctcGctttcctctggaggaaccag	6	9	9	17	1	2	0	0	0	2	0	5	2	3	2	5	3	1	1	5	3	2	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr6:31599008G>A	uc003nvb.3	+	16	2807	c.2558G>A	c.(2557-2559)CGC>CAC	p.R853H	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.R853H	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	853	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						CCAATCTCTCGCTTTCCTCTG	0.612													18	55					0	0	0.00499	0	0		A	31599008	A	A	31599008	3	1	69	1	0	0	0	0	1	0	0	0	1320	1087	38	1	2616	1	BAT2	6	31599008	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08		31599008	139516059	31	45977											
BAI3	577	broad.mit.edu	37	chr6	70042852	70042852	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattttggtatttaataaacTtgtttccagagatggaatcc	12	16	7	6	0	0	1	0	0	0	1	2	3	2	2	2	2	1	2	2	2	5	8			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr6:70042852T>G	uc003pev.3	+	24	3588	c.3140T>G	c.(3139-3141)CTT>CGT	p.L1047R	BAI3_uc010kak.2_Missense_Mutation_p.L1047R|BAI3_uc011dxx.1_Missense_Mutation_p.L253R|BAI3_uc003pex.1_Missense_Mutation_p.L177R	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1047	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TTTAATAAACTTGTTTCCAGA	0.383													6	41					0	0	0.001984	0	0		G	70042852	G	G	70042852	3	3	69	1	0	0	0	0	1	0	0	0	1301	1609	56	5	3226	5	BAI3	6	70042852	Missense_Mutation	SNP	T	TCGA-BR-8367-01A-11D-2340-08	38443844	70042852	101072215	32	45978											
FNDC1	84624	broad.mit.edu	37	chr6	159644628	159644628	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctcagtctgtgcttgtgTcctgggtggatcctgttctg	3	16	12	10	0	3	0	1	0	3	0	6	1	5	1	2	2	1	2	2	2	0	2			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr6:159644628T>C	uc010kjv.2	+	7	1035	c.835T>C	c.(835-837)TCC>CCC	p.S279P	FNDC1_uc010kjw.1_Missense_Mutation_p.S227P	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	279	Fibronectin type-III 3.					extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		TGTGCTTGTGTCCTGGGTGGA	0.428													10	39					0	0	0.010729	0	0		C	159644628	C	C	159644628	3	2	69	1	0	0	0	0	1	0	0	0	5982	1667	58	3	861	3	FNDC1	6	159644628	Missense_Mutation	SNP	T	TCGA-BR-8367-01A-11D-2340-08	89601776	159644628	11470439	33	45979											
ADAM7	8756	broad.mit.edu	37	chr8	24333950	24333950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatttatatttccagtatcGcagaaatggtcatcctcaca	13	14	5	9	1	2	1	2	0	0	1	5	1	4	1	2	1	0	2	2	1	5	6			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr8:24333950G>A	uc003xeb.2	+	8	751	c.638G>A	c.(637-639)CGC>CAC	p.R213H	ADAM7_uc003xec.2_5'UTR	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	213	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		ttCCAGTATCGCAGAAATGGT	0.289													5	32					0	0	0.000602	0	0		A	24333950	A	A	24333950	3	1	69	1	0	0	0	0	1	0	0	0	251	1087	38	1	668	1	ADAM7	8	24333950	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08		24333950	122030072	34	45980											
WRN	7486	broad.mit.edu	37	chr8	30977907	30977907	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcaaagttcttgtcacgTcctctgggctcctgcagaca	8	12	8	13	1	4	1	2	0	2	1	6	1	6	1	2	1	1	3	2	1	1	3			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr8:30977907T>G	uc003xio.3	+	21	3385	c.2597T>G	c.(2596-2598)GTC>GGC	p.V866G	WRN_uc010lvk.2_Missense_Mutation_p.V333G	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	866	Helicase C-terminal.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		TCTTGTCACGTCCTCTGGGCT	0.373			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				14	74					0	0	0.001855	0	0		G	30977907	G	G	30977907	3	3	69	1	0	0	0	0	1	0	0	0	17428	1667	58	5	2675	5	WRN	8	30977907	Missense_Mutation	SNP	T	TCGA-BR-8367-01A-11D-2340-08	6643957	30977907	115386115	35	45981											
DBC1	1620	broad.mit.edu	37	chr9	121929663	121929663	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtcggcgttgaacctcAggctatacccaaacacctgc	10	7	11	13	2	1	1	1	1	0	0	2	2	1	2	3	4	4	2	3	4	4	3			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr9:121929663A>T	uc004bkc.2	-	8	2441	c.1985T>A	c.(1984-1986)CTG>CAG	p.L662Q		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	662					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GTTGAACCTCAGGCTATACCC	0.577													20	110					0	0	0.010504	0	0		T	121929663	T	T	121929663	3	4	69	1	0	0	0	0	1	0	0	0	4250	188	7	5	304	5	DBC1	9	121929663	Missense_Mutation	SNP	A	TCGA-BR-8367-01A-11D-2340-08		121929663	19283768	36	45982											
STXBP1	6812	broad.mit.edu	37	chr9	130439015	130439015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacatggctcacctcggcGtgcccatcgtcaccgatgta	8	8	9	16	4	2	0	2	0	0	0	4	1	2	0	4	2	2	2	4	2	2	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr9:130439015G>A	uc004brl.2	+	15	1539	c.1342G>A	c.(1342-1344)GTG>ATG	p.V448M	STXBP1_uc004brk.2_Missense_Mutation_p.V448M	NM_001032221	NP_001027392	P61764	STXB1_HUMAN	syntaxin binding protein 1 isoform b	448					axon target recognition|energy reserve metabolic process|glutamate secretion|negative regulation of synaptic transmission, GABAergic|neurotransmitter secretion|platelet aggregation|platelet degranulation|protein transport|regulation of insulin secretion|regulation of synaptic vesicle priming|synaptic vesicle maturation|vesicle docking involved in exocytosis	cytosol|mitochondrion|plasma membrane|platelet alpha granule|protein complex	identical protein binding|syntaxin-1 binding|syntaxin-2 binding			skin(1)	1						TCACCTCGGCGTGCCCATCGT	0.577													7	24					0	0	0.001984	0	0		A	130439015	A	A	130439015	3	1	69	1	0	0	0	0	1	0	0	0	15377	1145	40	1	1400	1	STXBP1	9	130439015	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	8509352	130439015	10774416	37	45983											
UBAC1	10422	broad.mit.edu	37	chr9	138830109	138830109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaggcccagctgcaccaccGggttatccaggatggcctga	8	7	12	14	1	1	1	1	1	0	0	2	2	2	2	5	4	2	3	5	4	1	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr9:138830109G>A	uc004cgt.2	-	9	1279	c.1061C>T	c.(1060-1062)CCG>CTG	p.P354L	UBAC1_uc004cgs.1_Missense_Mutation_p.P354L|UBAC1_uc004cgu.2_RNA	NM_016172	NP_057256	Q9BSL1	UBAC1_HUMAN	ubiquitin associated domain containing 1	354	STI1.					Golgi apparatus|plasma membrane	protein binding			skin(2)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.1e-06)|Epithelial(140;7.79e-06)		CTGCACCACCGGGTTATCCAG	0.612													4	47					0	0	0.001168	0	0		A	138830109	A	A	138830109	3	1	69	1	0	0	0	0	1	0	0	0	16860	1116	39	1	164	1	UBAC1	9	138830109	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	8391094	138830109	2383322	38	45984											
SFMBT2	57713	broad.mit.edu	37	chr10	7409662	7409662	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgcaccaccccacggggtGcaaatccgcgatgactacgt	9	7	11	14	4	0	1	0	1	0	0	1	2	1	1	4	2	3	2	4	2	2	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr10:7409662G>T	uc009xio.1	-	4	476	c.385C>A	c.(385-387)CAC>AAC	p.H129N	SFMBT2_uc001ijn.1_Missense_Mutation_p.H129N|SFMBT2_uc010qay.1_Missense_Mutation_p.H129N|SFMBT2_uc001ijo.1_Missense_Mutation_p.H129N	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	129	MBT 1.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						CCCACGGGGTGCAAATCCGCG	0.597													6	33					3.59834e-05	3.80279e-05	0.001168	1	0		T	7409662	T	T	7409662	3	4	69	1	0	0	0	0	1	0	0	0	14183	1319	46	5	2371	5	SFMBT2	10	7409662	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08		7409662	128125085	39	45985											
CDH23	64072	broad.mit.edu	37	chr10	73537641	73537641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacatcgtcaacaccttcCgcatcgacagacacatggtc	12	7	7	15	3	1	1	1	0	0	1	5	2	2	1	2	1	2	2	2	1	2	1	rs111033522		TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr10:73537641C>T	uc001jrx.3	+	37	5427	c.5050C>T	c.(5050-5052)CGC>TGC	p.R1684C		NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1684	Cadherin 16.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CAACACCTTCCGCATCGACAG	0.567													6	22					0	0	0.001984	0	0		T	73537641	T	T	73537641	3	4	69	1	0	0	0	0	1	0	0	0	3111	652	23	1	5545	1	CDH23	10	73537641	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	66127979	73537641	61997106	40	45986											
INA	9118	broad.mit.edu	37	chr10	105037351	105037351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggaggccgagctggccgCgctgcgacagcgccacgctg	5	5	17	14	6	0	0	0	0	0	0	0	3	0	1	3	3	3	4	3	3	0	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr10:105037351C>T	uc001kws.2	+	1	432	c.383C>T	c.(382-384)GCG>GTG	p.A128V	uc001kwr.2_5'Flank|INA_uc009xxj.2_Missense_Mutation_p.A128V	NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	128	Coil 1A.|Rod.			ALRQR -> RCDT (in Ref. 1; AAB34482).	cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		GAGCTGGCCGCGCTGCGACAG	0.706													4	6					0	0	0.009096	0	0		T	105037351	T	T	105037351	3	4	69	1	0	0	0	0	1	0	0	0	7746	768	27	1	385	1	INA	10	105037351	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	31499710	105037351	30497396	41	45987											
RGS10	6001	broad.mit.edu	37	chr10	121285598	121285598	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctagccaaaacaaaacAttttcttcactgaattcctt	14	13	3	11	0	2	1	1	1	1	0	3	1	3	1	2	0	4	1	2	0	6	6			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr10:121285598A>G	uc001lee.2	-	2	177	c.177T>C	c.(175-177)AAT>AAC	p.N59N	RGS10_uc001lef.2_Silent_p.N53N|RGS10_uc001leg.2_Silent_p.N67N	NM_002925	NP_002916	O43665	RGS10_HUMAN	regulator of G-protein signaling 10 isoform b	59	RGS.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|protein binding|signal transducer activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00105)|GBM - Glioblastoma multiforme(135;0.195)		AAAACAAAACATTTTCTTCAC	0.289													6	55					0	0	0.00308	0	0		G	121285598	G	G	121285598	2	3	69	1	0	0	0	0	0	0	0	1	13318	214	8	3		3	RGS10	10	121285598	Silent	SNP	A	TCGA-BR-8367-01A-11D-2340-08	16248247	121285598	14249149	42	45988											
DCHS1	8642	broad.mit.edu	37	chr11	6652092	6652092	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaagcgagctgagggaagCacctgttgtggaccggggag	9	5	18	9	2	0	1	0	1	0	0	0	5	0	4	3	4	3	3	3	4	2	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr11:6652092C>G	uc001mem.1	-	10	4343	c.3933G>C	c.(3931-3933)GTG>GTC	p.V1311V		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1311	Cadherin 12.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTGAGGGAAGCACCTGTTGTG	0.637													2	2					0	0	0.004672	0	0		G	6652092	G	G	6652092	2	3	69	1	0	0	0	0	0	0	0	1	4290	697	25	5		5	DCHS1	11	6652092	Silent	SNP	C	TCGA-BR-8367-01A-11D-2340-08		6652092	128354424	43	45989											
C11orf58	10944	broad.mit.edu	37	chr11	16776574	16776574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagctgctgagcaccctgatGaagtggaggatcccaaaaac	14	6	11	10	0	0	3	0	3	0	0	1	5	1	5	2	2	4	3	2	2	4	0			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr11:16776574G>A	uc001mmk.2	+	5	653	c.475G>A	c.(475-477)GAA>AAA	p.E159K	C11orf58_uc010rct.1_Missense_Mutation_p.E115K	NM_014267	NP_055082	O00193	SMAP_HUMAN	small acidic protein isoform a	159											0						GCACCCTGATGAAGTGGAGGA	0.388													8	92					0	0	0.00308	0	0		A	16776574	A	A	16776574	3	1	69	1	0	0	0	0	1	0	0	0	1654	1291	45	4	493	4	C11orf58	11	16776574	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	10124482	16776574	118229942	44	45990											
CD163	9332	broad.mit.edu	37	chr12	7640475	7640475	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccctcacactggaattcTtcagcccagatctgtccatt	8	13	6	14	0	4	1	2	0	2	1	6	2	6	2	3	1	1	0	3	1	1	3			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr12:7640475T>G	uc001qsz.3	-	7	1757	c.1629A>C	c.(1627-1629)GAA>GAC	p.E543D	CD163_uc001qta.3_Missense_Mutation_p.E543D|CD163_uc009zfw.2_Missense_Mutation_p.E543D	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	543	SRCR 5.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						ACTGGAATTCTTCAGCCCAGA	0.532													12	63					0	0	0.001368	0	0		G	7640475	G	G	7640475	3	3	69	1	0	0	0	0	1	0	0	0	2970	1606	56	5	1881	5	CD163	12	7640475	Missense_Mutation	SNP	T	TCGA-BR-8367-01A-11D-2340-08		7640475	126211420	45	45991											
C12orf59	120939	broad.mit.edu	37	chr12	10339108	10339108	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgagccgccagcaaaatgGggaagatgggggcccaccac	11	4	14	12	1	1	2	0	1	1	1	1	3	1	3	4	4	2	1	4	4	3	0			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr12:10339108G>T	uc001qxr.2	+	4	844	c.227G>T	c.(226-228)GGG>GTG	p.G76V	C12orf59_uc001qxq.2_Missense_Mutation_p.G56V			Q4KMG9	CL059_HUMAN	RecName: Full=Uncharacterized protein C12orf59; Flags: Precursor;	76						integral to membrane				ovary(1)	1						CAGCAAAATGGGGAAGATGGG	0.552													9	44					3.09899e-07	3.35123e-07	0.004482	1	0		T	10339108	T	T	10339108	3	4	69	1	0	0	0	0	1	0	0	0	1705	1232	43	5	177	5	C12orf59	12	10339108	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	2698633	10339108	123512787	46	45992											
PRB3	5544	broad.mit.edu	37	chr12	11420206	11420206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtccctggggctttccagCgggaggtggcagaggctgct	4	9	18	10	1	0	1	0	0	0	1	2	2	2	2	2	7	2	4	2	7	0	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr12:11420206C>T	uc001qzs.2	-	4	888	c.850G>A	c.(850-852)GCT>ACT	p.A284T	PRB4_uc001qzf.1_Intron	NM_006249	NP_006240	Q04118	PRB3_HUMAN	proline-rich protein BstNI subfamily 3	284	Pro-rich.					extracellular region	Gram-negative bacterial cell surface binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.201)			GGCTTTCCAGCGGGAGGTGGC	0.617													9	131					0	0	0.004482	0	0		T	11420206	T	T	11420206	3	4	69	1	0	0	0	0	1	0	0	0	12466	768	27	1	83	1	PRB3	12	11420206	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	1081098	11420206	122431689	47	45993											
SOHLH2	54937	broad.mit.edu	37	chr13	36748951	36748951	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgcatcattctttctccCttttacatacggcaagagag	10	12	7	12	2	3	1	1	0	2	1	4	2	3	1	2	1	3	2	2	1	3	5			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr13:36748951C>G	uc001uvj.2	-	7	786	c.697G>C	c.(697-699)GGG>CGG	p.G233R	SOHLH2_uc010tei.1_Missense_Mutation_p.G310R	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	233	Helix-loop-helix motif.				cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;4.63e-08)|Epithelial(112;2.67e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|BRCA - Breast invasive adenocarcinoma(63;0.00685)|GBM - Glioblastoma multiforme(144;0.0273)		TTCTTTCTCCCTTTTACATAC	0.408													4	60					0	0	0.009096	0	0		G	36748951	G	G	36748951	3	3	69	1	0	0	0	0	1	0	0	0	14949	681	24	5	600	5	SOHLH2	13	36748951	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08		36748951	78420927	48	45994											
KLF5	688	broad.mit.edu	37	chr13	73649903	73649903	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaggttcgcgcgatcggAtgagctgacccgccactacc	7	7	13	14	5	0	2	0	2	0	0	2	5	0	4	3	3	2	2	3	3	1	2			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr13:73649903A>G	uc001vje.2	+	4	1577	c.1253A>G	c.(1252-1254)GAT>GGT	p.D418G	KLF5_uc001vjd.2_Missense_Mutation_p.D327G	NM_001730	NP_001721	Q13887	KLF5_HUMAN	Kruppel-like factor 5	418	C2H2-type 2.				transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|pancreas(1)	3		Prostate(6;0.00187)|Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.0011)		GCGCGATCGGATGAGCTGACC	0.597													9	38					0	0	0.010729	0	0		G	73649903	G	G	73649903	3	3	69	1	0	0	0	0	1	0	0	0	8365	333	12	3	1267	3	KLF5	13	73649903	Missense_Mutation	SNP	A	TCGA-BR-8367-01A-11D-2340-08	36900952	73649903	41519975	49	45995											
SLC12A1	6557	broad.mit.edu	37	chr15	48500152	48500152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcctccaaagtggagaaaCtgctaaaacagatgccagtt	14	10	8	9	0	0	2	0	0	0	2	2	3	2	2	3	1	4	2	3	1	4	3			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr15:48500152C>T	uc001zwn.3	+	2	452	c.236C>T	c.(235-237)ACT>ATT	p.T79I	SLC12A1_uc010uew.1_Intron|SLC12A1_uc010bem.2_Missense_Mutation_p.T79I|SLC12A1_uc010uex.1_Missense_Mutation_p.T79I	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	79	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	AGTGGAGAAACTGCTAAAACA	0.428													9	58					0	0	0.004482	0	0		T	48500152	T	T	48500152	3	4	69	1	0	0	0	0	1	0	0	0	14407	565	20	4	238	4	SLC12A1	15	48500152	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08		48500152	54031240	50	45996											
CSPG4	1464	broad.mit.edu	37	chr15	75982275	75982275	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccagcctgcagccggcTgccatgttgcgcgtcagcaa	6	8	11	16	3	1	0	1	0	0	0	3	0	3	0	5	1	6	4	5	1	1	1	rs146234778	by1000genomes	TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr15:75982275T>C	uc002baw.2	-	3	1224	c.1131A>G	c.(1129-1131)GCA>GCG	p.A377A		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	377	Extracellular (Potential).|Neurite growth inhibition (By similarity).|Globular or compact configuration stabilized by disulfide bonds.|Laminin G-like 2.				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						TGCAGCCGGCTGCCATGTTGC	0.622													4	13					0	0	0.000602	0	0		C	75982275	C	C	75982275	2	2	69	1	0	0	0	0	0	0	0	1	3963	1567	55	3		3	CSPG4	15	75982275	Silent	SNP	T	TCGA-BR-8367-01A-11D-2340-08	27482123	75982275	26549117	51	45997											
BNC1	646	broad.mit.edu	37	chr15	83935703	83935703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccagtaggatttttaggCgaacggggatggcctgggtc	7	10	17	7	2	0	0	0	0	0	0	2	3	1	2	2	7	1	1	2	7	3	4			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr15:83935703C>T	uc002bjt.1	-	3	408	c.320G>A	c.(319-321)CGC>CAC	p.R107H	BNC1_uc010uos.1_Missense_Mutation_p.R95H	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	107					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.R107C(1)		ovary(3)	3						GATTTTTAGGCGAACGGGGAT	0.507													9	57					0	0	0.004482	0	0		T	83935703	T	T	83935703	3	4	69	1	0	0	0	0	1	0	0	0	1475	768	27	1	2676	1	BNC1	15	83935703	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	7953428	83935703	18595689	52	45998											
BNC1	646	broad.mit.edu	37	chr15	83936914	83936914	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatccatgcttgcattggTcacactgacggtggtttatt	7	14	9	11	1	1	1	1	1	0	0	2	1	2	1	2	3	2	3	2	3	1	5			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr15:83936914T>A	uc002bjt.1	-	2	258	c.170A>T	c.(169-171)GAC>GTC	p.D57V	BNC1_uc010uos.1_Missense_Mutation_p.D45V	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	57					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CTTGCATTGGTCACACTGACG	0.443													6	46					0	0	0.001168	0	0		A	83936914	A	A	83936914	3	1	69	1	0	0	0	0	1	0	0	0	1475	1667	58	5	2830	5	BNC1	15	83936914	Missense_Mutation	SNP	T	TCGA-BR-8367-01A-11D-2340-08	1211	83936914	18594478	53	45999											
PKD1	5310	broad.mit.edu	37	chr16	2160623	2160623	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctgtgctgttgtaagcGtgggtgacctccggaccctc	5	11	12	13	2	1	1	1	1	0	0	3	2	2	2	4	2	2	3	4	2	1	2			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr16:2160623G>A	uc002cos.1	-	15	4754	c.4545C>T	c.(4543-4545)CAC>CAT	p.H1515H	PKD1_uc002cot.1_Silent_p.H1515H	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1515	Extracellular (Potential).|PKD 10.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						TGTTGTAAGCGTGGGTGACCT	0.667													9	33					0	0	0.004482	0	0		A	2160623	A	A	2160623	2	1	69	1	0	0	0	0	0	0	0	1	11982	1136	40	1		1	PKD1	16	2160623	Silent	SNP	G	TCGA-BR-8367-01A-11D-2340-08		2160623	88194130	54	46000											
BTBD12	84464	broad.mit.edu	37	chr16	3639156	3639156	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctattccccagggagcccgCgcccgaggacttctcttgca	6	8	11	16	3	1	0	0	0	1	0	3	3	2	2	4	2	2	2	4	2	1	4			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr16:3639156C>T	uc002cvp.2	-	12	5110	c.4483G>A	c.(4483-4485)GCG>ACG	p.A1495T		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1495	Interaction with MUS81.|Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						AGGGAGCCCGCGCCCGAGGAC	0.647								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				15	141					0	0	0.003163	0	0		T	3639156	T	T	3639156	3	4	69	1	0	0	0	0	1	0	0	0	1543	768	27	1	1037	1	BTBD12	16	3639156	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	1478533	3639156	86715597	55	46001											
ITGAD	3681	broad.mit.edu	37	chr16	31424208	31424208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagtattttgggcaggCgctgagtgggggtcaggacc	6	9	18	8	1	1	1	1	1	0	0	1	2	1	2	1	5	1	5	1	5	1	3	rs144853512		TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr16:31424208C>T	uc002ebv.1	+	15	1806	c.1757C>T	c.(1756-1758)GCG>GTG	p.A586V	ITGAD_uc010cap.1_Missense_Mutation_p.A587V	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	586	Extracellular (Potential).|FG-GAP 7.				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						TTTGGGCAGGCGCTGAGTGGG	0.627													7	63					0	0	0.00308	0	0		T	31424208	T	T	31424208	3	4	69	1	0	0	0	0	1	0	0	0	7900	768	27	1	1815	1	ITGAD	16	31424208	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	27785052	31424208	58930545	56	46002											
CDH11	1009	broad.mit.edu	37	chr16	65038662	65038662	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccttgcccttctcatggtgCccatggaaggagggccgcag	6	9	13	13	1	1	0	1	0	1	0	3	2	2	2	4	4	2	1	4	4	1	2			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr16:65038662C>T	uc002eoi.2	-	3	545	c.111G>A	c.(109-111)GGG>GGA	p.G37G	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Silent_p.G37G|CDH11_uc010vin.1_Intron|CDH11_uc010vio.1_Silent_p.G37G	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	37					adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		TCTCATGGTGCCCATGGAAGG	0.637			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			3	7					0	0	0.004672	0	0		T	65038662	T	T	65038662	2	4	69	1	0	0	0	0	0	0	0	1	3100	726	26	2		2	CDH11	16	65038662	Silent	SNP	C	TCGA-BR-8367-01A-11D-2340-08	33614454	65038662	25316091	57	46003											
EIF5A	1984	broad.mit.edu	37	chr17	7212989	7212989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacttcgagacaggagatgCaggggcctcagccaccttcc	9	6	13	13	1	1	2	1	0	0	2	3	5	2	3	4	4	2	1	4	4	0	2			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr17:7212989C>T	uc010vtv.1	+	2	272	c.35C>T	c.(34-36)GCA>GTA	p.A12V	EIF5A_uc002gfr.2_Missense_Mutation_p.A42V|EIF5A_uc010vtu.1_Nonsense_Mutation_p.Q2*|EIF5A_uc002gft.2_Missense_Mutation_p.A12V|EIF5A_uc002gfu.2_Missense_Mutation_p.A12V	NM_001970	NP_001961	P63241	IF5A1_HUMAN	eukaryotic translation initiation factor 5A	12					induction of apoptosis|mRNA export from nucleus|peptidyl-lysine modification to hypusine|positive regulation of cell proliferation|positive regulation of translational elongation|positive regulation of translational termination|post-translational protein modification|protein export from nucleus|translational frameshifting|transmembrane transport	annulate lamellae|cytosol|endoplasmic reticulum membrane|nuclear pore	protein N-terminus binding|ribosome binding|translation elongation factor activity|U6 snRNA binding				0						ACAGGAGATGCAGGGGCCTCA	0.493													12	103					0	0	0.001368	0	0		T	7212989	T	T	7212989	3	4	69	1	0	0	0	0	1	0	0	0	5049	710	25	2	131	2	EIF5A	17	7212989	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08		7212989	73982221	58	46004											
GLP2R	9340	broad.mit.edu	37	chr17	9763299	9763299	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtccaggttctcttgcattActttgtgggtgccaattact	7	16	9	9	0	1	0	0	0	1	0	3	0	2	0	2	2	4	2	2	2	3	5			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr17:9763299A>G	uc002gmd.1	+	7	806	c.806A>G	c.(805-807)TAC>TGC	p.Y269C		NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	269	Helical; Name=3; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	CTCTTGCATTACTTTGTGGGT	0.577													7	33					0	0	0.001984	0	0		G	9763299	G	G	9763299	3	3	69	1	0	0	0	0	1	0	0	0	6468	391	14	3	832	3	GLP2R	17	9763299	Missense_Mutation	SNP	A	TCGA-BR-8367-01A-11D-2340-08	2550310	9763299	71431911	59	46005											
NOS2	4843	broad.mit.edu	37	chr17	26097998	26097998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcaccaccaacagcagccGttcctcctccaggcagctca	9	6	8	18	1	2	0	2	0	0	0	5	0	5	0	6	2	4	4	6	2	1	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr17:26097998G>A	uc002gzu.2	-	15	2014	c.1750C>T	c.(1750-1752)CGG>TGG	p.R584W	NOS2_uc010crh.1_Missense_Mutation_p.R584W|NOS2_uc010wab.1_Intron	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	584	Flavodoxin-like.				arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	AACAGCAGCCGTTCCTCCTCC	0.607													5	24					0	0	0.001984	0	0		A	26097998	A	A	26097998	3	1	69	1	0	0	0	0	1	0	0	0	10562	1144	40	1	1763	1	NOS2	17	26097998	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	16334699	26097998	55097212	60	46006											
KRT17	3872	broad.mit.edu	37	chr17	39779266	39779266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tagcaggatgttggcattgtCcacggtggctgtgaggatct	7	12	15	7	1	1	1	0	1	1	0	2	3	2	3	1	5	1	4	1	5	1	3			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr17:39779266C>T	uc002hxh.2	-	2	572	c.451G>A	c.(451-453)GAC>AAC	p.D151N	JUP_uc010wfs.1_Intron|KRT17_uc010wft.1_Missense_Mutation_p.D151N	NM_000422	NP_000413	Q04695	K1C17_HUMAN	keratin 17	151	Coil 1B.|Rod.				epidermis development	cytoplasm|intermediate filament	protein binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2		Breast(137;0.000307)				TTGGCATTGTCCACGGTGGCT	0.582									Steatocystoma_Multiplex				15	39					0	0	0.006122	0	0		T	39779266	T	T	39779266	3	4	69	1	0	0	0	0	1	0	0	0	8470	855	30	4	875	4	KRT17	17	39779266	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08	13681268	39779266	41415944	61	46007											
MTMR4	9110	broad.mit.edu	37	chr17	56572740	56572740	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagccgccgaggggtggcCtccccacttgggaatgaagt	8	6	15	12	2	0	1	0	1	0	0	1	3	1	2	5	4	2	1	5	4	2	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr17:56572740C>T	uc002iwj.2	-	16	2873	c.2763G>A	c.(2761-2763)GAG>GAA	p.E921E		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	921						cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GAGGGGTGGCCTCCCCACTTG	0.577													10	75					0	0	0.008291	0	0		T	56572740	T	T	56572740	2	4	69	1	0	0	0	0	0	0	0	1	9964	680	24	4		4	MTMR4	17	56572740	Silent	SNP	C	TCGA-BR-8367-01A-11D-2340-08	16793474	56572740	24622470	62	46008											
ATP8B3	148229	broad.mit.edu	37	chr19	1785665	1785665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtccttctgccccaccaCgtacagctccggcttctcca	5	10	6	20	3	2	0	0	0	2	0	6	0	4	0	6	1	3	3	6	1	1	3			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr19:1785665C>T	uc002ltw.2	-	26	3430	c.3196G>A	c.(3196-3198)GTG>ATG	p.V1066M	ATP8B3_uc002ltv.2_Missense_Mutation_p.V1029M|ATP8B3_uc002ltx.2_RNA	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	1066	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGCCCCACCACGTACAGCTCC	0.597													3	10					0	0	0.004672	0	0		T	1785665	T	T	1785665	3	4	69	1	0	0	0	0	1	0	0	0	1197	536	19	1	722	1	ATP8B3	19	1785665	Missense_Mutation	SNP	C	TCGA-BR-8367-01A-11D-2340-08		1785665	57343318	63	46009											
MYO1F	4542	broad.mit.edu	37	chr19	8613192	8613192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggggtttctgcatagcacGgttgatggcctgcggtgtgg	4	12	17	8	2	1	1	0	1	1	0	1	1	1	1	1	6	3	4	1	6	1	3			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr19:8613192G>A	uc002mkg.2	-	11	1225	c.1111C>T	c.(1111-1113)CGT>TGT	p.R371C	MYO1F_uc002mkh.2_Missense_Mutation_p.P372L	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	371	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						TGCATAGCACGGTTGATGGCC	0.592													9	26					0	0	0.004482	0	0		A	8613192	A	A	8613192	3	1	69	1	0	0	0	0	1	0	0	0	10091	1116	39	1	2257	1	MYO1F	19	8613192	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	6827527	8613192	50515791	64	46010											
ZNF426	79088	broad.mit.edu	37	chr19	9646889	9646889	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcaacagagcttaccatggGacaaatcagcagctgccatc	14	6	9	12	0	1	1	1	0	0	1	2	2	1	2	2	1	7	4	2	1	3	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr19:9646889G>T	uc002mlq.2	-	3	284	c.20C>A	c.(19-21)TCC>TAC	p.S7Y	ZNF426_uc010dws.2_5'UTR|uc002mlr.2_5'Flank|uc002mls.2_5'Flank	NM_024106	NP_077011	Q9BUY5	ZN426_HUMAN	zinc finger protein 426	7					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTTACCATGGGACAAATCAGC	0.463													8	29					5.4927e-09	6.08121e-09	0.004482	1	0		T	9646889	T	T	9646889	3	4	69	1	0	0	0	0	1	0	0	0	17925	1174	41	5	1668	5	ZNF426	19	9646889	Missense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	1033697	9646889	49482094	65	46011											
PEG3	5178	broad.mit.edu	37	chr19	57335705	57335705	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctccggcttttttgctcGcacccaaggcttgagctttt	4	16	9	12	2	1	1	0	1	1	0	3	1	1	1	2	2	2	6	2	2	1	7	rs141346770	by1000genomes	TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr19:57335705G>A	uc002qnu.2	-	1	670	c.319C>T	c.(319-321)CGA>TGA	p.R107*	ZIM2_uc010ygq.1_5'UTR|ZIM2_uc010ygr.1_5'UTR|ZIM2_uc002qnr.2_5'UTR|ZIM2_uc002qnq.2_5'UTR|ZIM2_uc010etp.2_5'UTR|ZIM2_uc010ygs.1_5'UTR|PEG3_uc002qnt.2_Nonsense_Mutation_p.R107*|PEG3_uc002qnv.2_Nonsense_Mutation_p.R107*|PEG3_uc002qnw.2_5'UTR|PEG3_uc002qnx.2_5'UTR|PEG3_uc010etr.2_Nonsense_Mutation_p.R107*	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	107	SCAN box.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TTTTTTGCTCGCACCCAAGGC	0.537													22	62					0	0	0.012319	0	0		A	57335705	A	A	57335705	4	1	69	1	0	0	0	0	0	1	0	0	11739	1095	38	1		1	PEG3	19	57335705	Nonsense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	47688816	57335705	1793278	66	46012											
ZNF418	147686	broad.mit.edu	37	chr19	58437970	58437970	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtatgaactctccgatgtcGaaggagggaacagctttgag	12	9	13	7	2	1	2	0	2	1	0	3	6	1	4	1	2	3	2	1	2	4	2			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr19:58437970G>A	uc002qqs.1	-	4	1871	c.1579C>T	c.(1579-1581)CGA>TGA	p.R527*	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Nonsense_Mutation_p.R442*	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	527	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0158)		CTCCGATGTCGAAGGAGGGAA	0.453													23	88					0	0	0.012319	0	0		A	58437970	A	A	58437970	4	1	69	1	0	0	0	0	0	1	0	0	17920	1066	37	1	455	1	ZNF418	19	58437970	Nonsense_Mutation	SNP	G	TCGA-BR-8367-01A-11D-2340-08	1102265	58437970	691013	67	46013											
SULF2	55959	broad.mit.edu	37	chr20	46292252	46292252	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgtgggtgaagcacgtgagGcctggcatgctgcacgtgtc	6	9	16	10	3	0	2	0	2	0	0	2	2	0	2	1	3	3	4	1	3	1	0	rs150627838	by1000genomes	TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr20:46292252G>T	uc002xto.2	-	16	2502	c.2172C>A	c.(2170-2172)GGC>GGA	p.G724G	SULF2_uc002xtr.2_Silent_p.G724G|SULF2_uc002xtq.2_Silent_p.G724G|SULF2_uc010zyd.1_Silent_p.G3G	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	724					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						AGCACGTGAGGCCTGGCATGC	0.622											OREG0026005	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	103					0.00116845	0.00120739	0.001168	1	0		T	46292252	T	T	46292252	2	4	69	1	0	0	0	0	0	0	0	1	15396	1190	42	5		5	SULF2	20	46292252	Silent	SNP	G	TCGA-BR-8367-01A-11D-2340-08		46292252	16733268	68	46014											
GRIK1	2897	broad.mit.edu	37	chr21	31062214	31062214	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctgtatgtgtggaacttcGagagcattgcaaatagactg	11	12	12	6	1	1	2	0	0	1	2	2	4	1	3	0	1	3	3	0	1	4	4			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr21:31062214G>A	uc002yno.1	-	3	842	c.378C>T	c.(376-378)CTC>CTT	p.L126L	GRIK1_uc002ynn.2_Silent_p.L126L|GRIK1_uc011acs.1_Silent_p.L126L|GRIK1_uc011act.1_Silent_p.L70L|GRIK1_uc010glq.1_Intron|GRIK1_uc002ynr.2_Silent_p.L126L	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	126	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	GTGGAACTTCGAGAGCATTGC	0.517													27	119					0	0	0.003954	0	0		A	31062214	A	A	31062214	2	1	69	1	0	0	0	0	0	0	0	1	6789	1045	37	1		1	GRIK1	21	31062214	Silent	SNP	G	TCGA-BR-8367-01A-11D-2340-08		31062214	17067681	69	46015											
TIAM1	7074	broad.mit.edu	37	chr21	32638956	32638956	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggacgatgctgctgtctacGctgggagtgacagaagagtc	10	8	15	8	2	1	3	0	1	1	2	2	6	1	5	0	2	3	3	0	2	2	1			TCGA-BR-8367-01A-11D-2340-08	TCGA-BR-8367-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	788a2cc6-835a-4488-8376-d90219cc8b4c	49eedbb4-f152-4cbd-aaf2-cb7cf4d51be0	g.chr21:32638956G>A	uc002yow.1	-	5	805	c.333C>T	c.(331-333)AGC>AGT	p.S111S	TIAM1_uc011adk.1_Silent_p.S111S|TIAM1_uc011adl.1_Silent_p.S111S|TIAM1_uc002yox.1_Intron	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	111					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TGCTGTCTACGCTGGGAGTGA	0.557													21	57					0	0	0.012319	0	0		A	32638956	A	A	32638956	2	1	69	1	0	0	0	0	0	0	0	1	15915	1078	38	1		1	TIAM1	21	32638956	Silent	SNP	G	TCGA-BR-8367-01A-11D-2340-08	1576742	32638956	15490939	70	46016											
VWA1	64856	broad.mit.edu	37	chr1	1372687	1372687	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcggctccagcgaccctgtgGgcccccccatgcaggagctc	5	5	13	18	2	0	0	0	0	0	0	2	2	1	1	5	3	3	3	5	3	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:1372687G>A	uc001afs.2	+	2	674	c.454G>A	c.(454-456)GGC>AGC	p.G152S	VWA1_uc001afr.2_Intron	NM_022834	NP_073745	Q6PCB0	VWA1_HUMAN	von Willebrand factor A domain containing 1	152	VWFA.					basement membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		CGACCCTGTGGGCCCCCCCAT	0.647													4	14					0	0	1	0	0		A	1372687	A	A	1372687	3	1	70	1	0	0	0	0	1	0	0	0	17264	1232	43	4	460	4	VWA1	1	1372687	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08		1372687	247877934	1	46017											
CAMTA1	23261	broad.mit.edu	37	chr1	7724998	7724998	+	Frame_Shift_Del	DEL	G	-	-																															tatgggcaccagctggtgtcGggggacagcacggcgctctc																								rs61742693	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:7724998delG	uc001aoi.2	+	9	2598	c.2391delG	c.(2389-2391)TCGfs	p.S797fs		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	797					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		AGCTGGTGTCGGGGGACAGCA	0.637													97	173	---	---	---	---						.	-	7724998	-	-	7724998	7	5	70	1	0	1	0	1	0	0	0	0	2616	1103	39	0	2425	0	CAMTA1	1	7724998	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	6352311	7724998	241525623	2	46018											
RERE	473	broad.mit.edu	37	chr1	8418586	8418586	+	Frame_Shift_Del	DEL	G	-	-																															ggggttggcggctgggtgcaGggggtccagctctgggggct																								rs638744		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:8418586delG	uc001ape.2	-	21	4819	c.4009delC	c.(4009-4011)CTGfs	p.L1337fs	RERE_uc001apf.2_Frame_Shift_Del_p.L1337fs|RERE_uc001apd.2_Frame_Shift_Del_p.L783fs	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1337					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		GCTGGGTGCAGGGGGTCCAGC	0.701													17	4	---	---	---	---						.	-	8418586	-	-	8418586	7	5	70	1	0	1	0	1	0	0	0	0	13256	991	35	0	707	0	RERE	1	8418586	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	693588	8418586	240832035	3	46019											
KIF1B	23095	broad.mit.edu	37	chr1	10336425	10336425	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgctctgagccccgcggaTatcaactacgatgagacttt	9	10	10	12	3	2	2	1	2	1	1	2	5	2	3	2	1	4	2	2	1	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:10336425T>C	uc001aqx.3	+	12	1207	c.1005T>C	c.(1003-1005)GAT>GAC	p.D335D	KIF1B_uc001aqv.3_Silent_p.D329D|KIF1B_uc001aqw.3_Silent_p.D329D|KIF1B_uc001aqy.2_Silent_p.D335D|KIF1B_uc001aqz.2_Silent_p.D335D|KIF1B_uc001ara.2_Silent_p.D335D|KIF1B_uc001arb.2_Silent_p.D335D	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	335	Kinesin-motor.|Interaction with KBP.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		GCCCCGCGGATATCAACTACG	0.398													6	36					0	0	1	0	0		C	10336425	C	C	10336425	2	2	70	1	0	0	0	0	0	0	0	1	8300	1403	49	3		3	KIF1B	1	10336425	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1917839	10336425	238914196	4	46020											
PTCHD2	57540	broad.mit.edu	37	chr1	11595573	11595573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaccatcatgtactggagcGgctgggagatgggggctgtg	7	9	18	7	1	1	2	1	1	0	1	1	4	1	3	1	5	2	3	1	5	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:11595573G>A	uc001ash.3	+	20	3826	c.3688G>A	c.(3688-3690)GGC>AGC	p.G1230S		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1230	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GTACTGGAGCGGCTGGGAGAT	0.647													12	64					0	0	1	0	0		A	11595573	A	A	11595573	3	1	70	1	0	0	0	0	1	0	0	0	12755	1116	39	1	3762	1	PTCHD2	1	11595573	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1259148	11595573	237655048	5	46021											
ATP13A2	23400	broad.mit.edu	37	chr1	17312850	17312850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaggcactggtctagcaCgctctgcaaagggcagggag	9	5	18	9	1	2	0	0	0	2	0	2	2	2	2	0	6	2	5	0	6	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:17312850C>T	uc001baa.2	-	29	3599	c.3409G>A	c.(3409-3411)GTG>ATG	p.V1137M	ATP13A2_uc001azz.1_Missense_Mutation_p.R227H|ATP13A2_uc001bab.2_Missense_Mutation_p.V1132M|ATP13A2_uc001bac.2_Missense_Mutation_p.R1036H	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	1137	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		TGGTCTAGCACGCTCTGCAAA	0.701													6	4					0	0	1	0	0		T	17312850	T	T	17312850	3	4	70	1	0	0	0	0	1	0	0	0	1125	536	19	1	373	1	ATP13A2	1	17312850	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	5717277	17312850	231937771	6	46022											
PLA2G2A	5320	broad.mit.edu	37	chr1	20304940	20304940	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccgtagaagccataacTgagtgcggcttcctttcctg	8	10	11	12	2	0	2	0	1	0	1	2	2	2	2	4	1	4	3	4	1	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:20304940T>C	uc001bcu.2	-	3	336	c.118A>G	c.(118-120)AGT>GGT	p.S40G	PLA2G2A_uc001bcv.2_Missense_Mutation_p.S40G|PLA2G2A_uc010oda.1_Missense_Mutation_p.S40G|PLA2G2A_uc010odb.1_Missense_Mutation_p.S40G	NM_001161729	NP_001155201	P14555	PA2GA_HUMAN	phospholipase A2, group IIA precursor	40					defense response to Gram-positive bacterium|lipid catabolic process|low-density lipoprotein particle remodeling|phosphatidic acid metabolic process|positive regulation of inflammatory response|positive regulation of macrophage derived foam cell differentiation	endoplasmic reticulum|extracellular space|membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|phospholipid binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000138)|Kidney(64;0.000171)|GBM - Glioblastoma multiforme(114;0.00032)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		AAGCCATAACTGAGTGCGGCT	0.547													15	19					0	0	1	0	0		C	20304940	C	C	20304940	3	2	70	1	0	0	0	0	1	0	0	0	12014	1580	55	3	328	3	PLA2G2A	1	20304940	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	2992090	20304940	228945681	7	46023											
PINK1	65018	broad.mit.edu	37	chr1	20975501	20975501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcaggtgtccacggcccGtcctggccccagggcagtga	6	6	15	14	2	0	2	0	2	0	0	2	2	2	2	5	4	1	2	5	4	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:20975501G>A	uc001bdm.2	+	7	1359	c.1265G>A	c.(1264-1266)CGT>CAT	p.R422H	PINK1_uc001bdn.2_Missense_Mutation_p.R115H	NM_032409	NP_115785	Q9BXM7	PINK1_HUMAN	PTEN induced putative kinase 1 precursor	422	Protein kinase.|Cytoplasmic (Potential).				cell death|intracellular protein kinase cascade|mitochondrion degradation|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of release of cytochrome c from mitochondria|regulation of protein complex assembly|regulation of protein ubiquitination|response to stress	cytosol|integral to membrane|mitochondrial outer membrane	ATP binding|C3HC4-type RING finger domain binding|calcium-dependent protein kinase activity|magnesium ion binding|protein serine/threonine kinase activity|ubiquitin protein ligase binding			ovary(2)|central_nervous_system(1)	3		all_lung(284;2.72e-05)|Lung NSC(340;2.94e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.21e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000146)|Kidney(64;0.000182)|GBM - Glioblastoma multiforme(114;0.000497)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TCCACGGCCCGTCCTGGCCCC	0.577													14	20					0	0	1	0	0		A	20975501	A	A	20975501	3	1	70	1	0	0	0	0	1	0	0	0	11951	1145	40	1	1291	1	PINK1	1	20975501	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	670561	20975501	228275120	8	46024											
SRRM1	10250	broad.mit.edu	37	chr1	24981444	24981444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcccaagaggacatccaGcccccctcggaaaactcgta	11	5	8	17	2	0	1	0	0	0	1	4	3	2	3	6	2	2	1	6	2	4	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:24981444G>A	uc001bjm.2	+	9	1363	c.1139G>A	c.(1138-1140)AGC>AAC	p.S380N	SRRM1_uc010oel.1_Missense_Mutation_p.S380N|SRRM1_uc009vrh.1_Missense_Mutation_p.S341N|SRRM1_uc009vri.1_Missense_Mutation_p.S297N|SRRM1_uc010oem.1_RNA	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	380	Pro-rich.|Necessary for speckles and matrix localization.|Arg-rich.|Ser-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		AGGACATCCAGCCCCCCTCGG	0.542													79	44					0	0	1	0	0		A	24981444	A	A	24981444	3	1	70	1	0	0	0	0	1	0	0	0	15193	971	34	2	1173	2	SRRM1	1	24981444	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4005943	24981444	224269177	9	46025											
MAN1C1	57134	broad.mit.edu	37	chr1	26104703	26104703	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacctggcctgtttctcCgggggcatgatcgcccttgg	3	10	15	13	2	1	1	0	1	1	0	3	1	1	1	4	5	0	3	4	5	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:26104703C>T	uc001bkm.2	+	9	1695	c.1365C>T	c.(1363-1365)TCC>TCT	p.S455S	MAN1C1_uc009vry.1_Silent_p.S275S|MAN1C1_uc001bkn.2_5'Flank	NM_020379	NP_065112	Q9NR34	MA1C1_HUMAN	mannosidase, alpha, class 1C, member 1	455	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(1)	1		Colorectal(325;3.78e-05)|Lung NSC(340;0.000181)|all_lung(284;0.000245)|Renal(390;0.000714)|Ovarian(437;0.00159)|Breast(348;0.0156)|Myeloproliferative disorder(586;0.0257)|all_neural(195;0.0515)|Esophageal squamous(538;0.232)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0574)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.15e-07)|COAD - Colon adenocarcinoma(152;4.31e-06)|STAD - Stomach adenocarcinoma(196;0.00125)|BRCA - Breast invasive adenocarcinoma(304;0.00141)|KIRC - Kidney renal clear cell carcinoma(1967;0.00146)|GBM - Glioblastoma multiforme(114;0.0149)|READ - Rectum adenocarcinoma(331;0.0803)		CCTGTTTCTCCGGGGGCATGA	0.607													20	28					0	0	1	0	0		T	26104703	T	T	26104703	2	4	70	1	0	0	0	0	0	0	0	1	9231	639	23	1		1	MAN1C1	1	26104703	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1123259	26104703	223145918	10	46026											
CATSPER4	378807	broad.mit.edu	37	chr1	26526548	26526548	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacgaataacctttagtgAggtgcgtgggatggggaggg	10	8	18	5	2	0	1	0	1	0	0	0	4	0	3	1	5	3	1	1	5	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:26526548A>G	uc010oez.1	+	7	986	c.986A>G	c.(985-987)GAG>GGG	p.E329G	CATSPER4_uc010oey.1_Missense_Mutation_p.E151G|CATSPER4_uc009vsf.2_RNA	NM_198137	NP_937770	Q7RTX7	CTSR4_HUMAN	cation channel, sperm associated 4	329	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_cancers(24;2.05e-18)|Colorectal(325;0.000147)|Renal(390;0.00211)|all_lung(284;0.00218)|Lung NSC(340;0.00239)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-26)|Colorectal(126;1.34e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|BRCA - Breast invasive adenocarcinoma(304;0.000995)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00878)|READ - Rectum adenocarcinoma(331;0.0649)		ACCTTTAGTGAGGTGCGTGGG	0.502													9	17					0	0	1	0	0		G	26526548	G	G	26526548	3	3	70	1	0	0	0	0	1	0	0	0	2693	318	11	3	1012	3	CATSPER4	1	26526548	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	421845	26526548	222724073	11	46027											
ARID1A	8289	broad.mit.edu	37	chr1	27102120	27102121	+	Frame_Shift_Del	DEL	AG	-	-																															ctcaagtctggtctcctggcAgagagcacatgggcattaga																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:27102120_27102121delAG	uc001bmv.1	+	19	5419_5420	c.5046_5047delAG	c.(5044-5049)GCAGAGfs	p.A1682fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.A1681fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.A1465fs|ARID1A_uc001bmx.1_Frame_Shift_Del_p.A528fs|ARID1A_uc009vsm.1_Frame_Shift_Del_p.A10fs|ARID1A_uc009vsn.1_5'UTR	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1682_1683					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		GTCTCCTGGCAGAGAGCACATG	0.525			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								23	22	---	---	---	---						.	-	27102121	-	-	27102120	7	5	70	1	0	1	0	1	0	0	0	0	913	175	7	0	5120	0	ARID1A	1	27102120	Frame_Shift_Del	DEL	AG	TCGA-BR-8368-01A-11D-2340-08	575572	27102120	222148501	12	46028											
DNAJC8	22826	broad.mit.edu	37	chr1	28527851	28527851	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtattggcttggaagtttcGccagctgtccacacgaccat	8	11	10	12	3	0	0	0	0	0	0	2	2	1	1	3	2	1	4	3	2	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:28527851G>A	uc001bpn.2	-	9	703	c.670C>T	c.(670-672)CGA>TGA	p.R224*	DNAJC8_uc001bpo.2_RNA	NM_014280	NP_055095	O75937	DNJC8_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 8	224					nuclear mRNA splicing, via spliceosome|protein folding	nucleoplasm	heat shock protein binding|unfolded protein binding				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.08e-05)|all_lung(284;4.29e-05)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.0105)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		OV - Ovarian serous cystadenocarcinoma(117;2.81e-22)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00275)|BRCA - Breast invasive adenocarcinoma(304;0.0059)|STAD - Stomach adenocarcinoma(196;0.00671)|READ - Rectum adenocarcinoma(331;0.0649)		TGGAAGTTTCGCCAGCTGTCC	0.483													51	110					0	0	1	0	0		A	28527851	A	A	28527851	4	1	70	1	0	0	0	0	0	1	0	0	4661	1095	38	1	95	1	DNAJC8	1	28527851	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1425731	28527851	220722770	13	46029											
YTHDF2	51441	broad.mit.edu	37	chr1	29069277	29069279	+	In_Frame_Del	DEL	TGA	-	-																															tccttaggtggagccatgatTgatggacagtcagcttttgc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:29069277_29069279delTGA	uc001brc.2	+	4	992_994	c.495_497delTGA	c.(493-498)ATTGAT>ATT	p.D166del	YTHDF2_uc001brd.2_In_Frame_Del_p.D163del|YTHDF2_uc010ofx.1_In_Frame_Del_p.D116del|YTHDF2_uc001bre.2_In_Frame_Del_p.D116del	NM_016258	NP_057342	Q9Y5A9	YTHD2_HUMAN	high glucose-regulated protein 8	166					humoral immune response					ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000601)|all_lung(284;0.000771)|Breast(348;0.00502)|Renal(390;0.00758)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;5.46e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0221)|KIRC - Kidney renal clear cell carcinoma(1967;0.0296)|READ - Rectum adenocarcinoma(331;0.0649)		GAGCCATGATTGATGGACAGTCA	0.468													30	50	---	---	---	---						.	-	29069279	-	-	29069277	7	5	70	1	0	1	0	1	0	0	0	0	17525	1800	63	0	509	0	YTHDF2	1	29069277	In_Frame_Del	DEL	TGA	TCGA-BR-8368-01A-11D-2340-08	541426	29069277	220181344	14	46030											
EIF2C3	192669	broad.mit.edu	37	chr1	36474379	36474379	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcctgccagtcatcaaacGtaagaaaagtttgtcagagc	14	8	10	9	1	3	2	3	0	0	2	3	2	3	2	2	1	3	2	2	1	4	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:36474379G>A	uc001bzp.2	+	7	1137	c.881_splice	c.e7+1	p.T294_splice	EIF2C3_uc001bzq.2_Splice_Site_p.T60_splice	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3						mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GTCATCAAACGTAAGAAAAGT	0.448													32	72					0	0	1	0	0		A	36474379	A	A	36474379	5	1	70	1	0	0	0	0	0	0	1	0	5013	1159	40	1	908	1	EIF2C3	1	36474379	Splice_Site	SNP	G	TCGA-BR-8368-01A-11D-2340-08	7405102	36474379	212776242	15	46031											
EIF2C3	192669	broad.mit.edu	37	chr1	36505946	36505946	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagcaattcgagaagcctgCatcagtttggagaaagacta	14	9	10	8	1	1	3	1	0	0	3	2	5	1	3	1	1	3	3	1	1	5	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:36505946C>T	uc001bzp.2	+	16	2332	c.2076C>T	c.(2074-2076)TGC>TGT	p.C692C	EIF2C3_uc001bzq.2_Silent_p.C458C	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	692	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GAGAAGCCTGCATCAGTTTGG	0.338													15	68					0	0	1	0	0		T	36505946	T	T	36505946	2	4	70	1	0	0	0	0	0	0	0	1	5013	718	25	2		2	EIF2C3	1	36505946	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	31567	36505946	212744675	16	46032											
MAP7D1	55700	broad.mit.edu	37	chr1	36643530	36643530	+	Frame_Shift_Del	DEL	C	-	-																															atcctggcacaggcctgcctCcccctgccccagcccagggc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:36643530delC	uc001bzz.2	+	9	1652	c.1436delC	c.(1435-1437)TCCfs	p.S479fs	MAP7D1_uc001caa.2_Frame_Shift_Del_p.S447fs|MAP7D1_uc001cab.2_Frame_Shift_Del_p.S442fs|MAP7D1_uc001cac.2_Frame_Shift_Del_p.S179fs|MAP7D1_uc001cad.2_Frame_Shift_Del_p.S25fs	NM_018067	NP_060537	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	479	Pro-rich.					cytoplasm|spindle				ovary(3)|breast(2)	5		Myeloproliferative disorder(586;0.0393)				AGGCCTGCCTCCCCCTGCCCC	0.647													49	27	---	---	---	---						.	-	36643530	-	-	36643530	7	5	70	1	0	1	0	1	0	0	0	0	9285	855	30	0	1470	0	MAP7D1	1	36643530	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	137584	36643530	212607091	17	46033											
CSF3R	1441	broad.mit.edu	37	chr1	36940984	36940984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggaaggacttacagcctgCgcgcagctcaacctggtcca	9	7	11	14	2	1	0	1	0	0	0	2	2	2	2	3	3	5	2	3	3	3	1	rs142999683	by1000genomes	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:36940984C>T	uc001caw.1	-	4	533	c.355G>A	c.(355-357)GCA>ACA	p.A119T	CSF3R_uc001cau.1_5'Flank|CSF3R_uc001cav.1_Missense_Mutation_p.A119T|CSF3R_uc001cax.1_Missense_Mutation_p.A119T|CSF3R_uc001cay.1_Missense_Mutation_p.A119T	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	119	Extracellular (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	TTACAGCCTGCGCGCAGCTCA	0.483													6	61					0	0	1	0	0		T	36940984	T	T	36940984	3	4	70	1	0	0	0	0	1	0	0	0	3940	768	27	1	2401	1	CSF3R	1	36940984	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	297454	36940984	212309637	18	46034											
HPCAL4	51440	broad.mit.edu	37	chr1	40149704	40149704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcttctgctcgaagctgcCgcgggaggtgaccgacaggg	7	6	17	11	4	1	1	0	1	1	0	2	5	1	2	2	3	4	3	2	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:40149704C>T	uc001cdr.2	-	3	403	c.283G>A	c.(283-285)GGC>AGC	p.G95S	HPCAL4_uc010oix.1_Intron	NM_016257	NP_057341	Q9UM19	HPCL4_HUMAN	hippocalcin-like protein 4	95	EF-hand 2.				central nervous system development	intracellular	calcium ion binding			central_nervous_system(1)	1	all_cancers(7;4.65e-13)|Lung NSC(20;2.88e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TCGAAGCTGCCGCGGGAGGTG	0.632													16	43					0	0	1	0	0		T	40149704	T	T	40149704	3	4	70	1	0	0	0	0	1	0	0	0	7347	652	23	1	300	1	HPCAL4	1	40149704	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3208720	40149704	209100917	19	46035											
SMAP2	64744	broad.mit.edu	37	chr1	40879887	40879887	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccccgaaatccacagcGcctgtcatggatttgttggg	8	10	11	12	2	1	0	1	0	0	0	3	2	3	1	4	2	2	2	4	2	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:40879887G>A	uc001cfj.2	+	6	611	c.546G>A	c.(544-546)GCG>GCA	p.A182A	SMAP2_uc010ojh.1_Silent_p.A182A|SMAP2_uc001cfk.2_Silent_p.A152A|SMAP2_uc010oji.1_Silent_p.A99A|SMAP2_uc010ojj.1_5'UTR	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	182	Interaction with clathrin heavy chains (By similarity).				regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)			AATCCACAGCGCCTGTCATGG	0.423													31	13					0	0	1	0	0		A	40879887	A	A	40879887	2	1	70	1	0	0	0	0	0	0	0	1	14792	1074	38	1		1	SMAP2	1	40879887	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	730183	40879887	208370734	20	46036											
HIVEP3	59269	broad.mit.edu	37	chr1	41978959	41978959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgcgggctagtggtggaCggctgcctgcttctttgctt	2	15	15	9	2	1	0	0	0	1	0	1	1	1	1	1	4	4	5	1	4	1	5	rs144265546		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:41978959C>T	uc001cgz.3	-	8	7146	c.5933G>A	c.(5932-5934)CGT>CAT	p.R1978H	HIVEP3_uc001cha.3_Missense_Mutation_p.R1978H|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1978					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				TAGTGGTGGACGGCTGCCTGC	0.612													57	23					0	0	1	0	0		T	41978959	T	T	41978959	3	4	70	1	0	0	0	0	1	0	0	0	7204	536	19	1	1295	1	HIVEP3	1	41978959	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1099072	41978959	207271662	21	46037											
ST3GAL3	6487	broad.mit.edu	37	chr1	44386577	44386577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgcactactatgagaccGttcgcatggcagccatcaaa	11	8	8	14	2	1	1	1	1	0	1	2	2	1	1	3	1	3	4	3	1	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:44386577G>A	uc001ckc.2	+	11	1192	c.1015G>A	c.(1015-1017)GTT>ATT	p.V339I	ST3GAL3_uc001cjz.2_Missense_Mutation_p.V354I|ST3GAL3_uc001cka.2_Intron|ST3GAL3_uc001ckb.2_Missense_Mutation_p.V408I|ST3GAL3_uc001ckd.2_Missense_Mutation_p.V393I|ST3GAL3_uc001cke.2_Missense_Mutation_p.V323I|ST3GAL3_uc001ckf.2_Missense_Mutation_p.V377I|ST3GAL3_uc001ckg.2_Intron|ST3GAL3_uc001ckh.2_Intron|ST3GAL3_uc001cki.2_Intron|ST3GAL3_uc009vwv.2_Missense_Mutation_p.V309I|ST3GAL3_uc001ckj.2_RNA|ST3GAL3_uc009vww.2_RNA|ST3GAL3_uc001ckk.2_Missense_Mutation_p.V308I|ST3GAL3_uc009vwy.2_Missense_Mutation_p.V245I|ST3GAL3_uc009vwx.2_Intron|ST3GAL3_uc001ckm.2_Intron|ST3GAL3_uc001ckl.2_Intron|ST3GAL3_uc009vwz.2_Missense_Mutation_p.V113I|ST3GAL3_uc001ckn.2_Intron|ST3GAL3_uc001ckp.2_Intron|ST3GAL3_uc001cko.2_Intron|ST3GAL3_uc009vxa.2_Missense_Mutation_p.V126I|ST3GAL3_uc001ckq.2_Intron|ST3GAL3_uc001ckr.2_Intron|ST3GAL3_uc009vxb.2_Intron	NM_006279	NP_006270	Q11203	SIAT6_HUMAN	sialyltransferase 6 isoform j	339	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	N-acetyllactosaminide alpha-2,3-sialyltransferase activity			ovary(3)	3	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0518)				CTATGAGACCGTTCGCATGGC	0.582													16	2					0	0	1	0	0		A	44386577	A	A	44386577	3	1	70	1	0	0	0	0	1	0	0	0	15241	1145	40	1	1264	1	ST3GAL3	1	44386577	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2407618	44386577	204864044	22	46038											
KIF2C	11004	broad.mit.edu	37	chr1	45226082	45226082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagggaatgagcgaggcGcggacacttccagtgctgac	9	6	16	10	3	0	2	0	2	0	0	1	5	1	4	1	4	2	2	1	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:45226082G>A	uc001cmg.3	+	15	1613	c.1498G>A	c.(1498-1500)GCG>ACG	p.A500T	KIF2C_uc010olb.1_Missense_Mutation_p.A459T|KIF2C_uc010olc.1_Missense_Mutation_p.A387T|KIF2C_uc001cmh.3_Missense_Mutation_p.A446T	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	500	Kinesin-motor.				blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TGAGCGAGGCGCGGACACTTC	0.557													18	29					0	0	1	0	0		A	45226082	A	A	45226082	3	1	70	1	0	0	0	0	1	0	0	0	8315	1087	38	1	1556	1	KIF2C	1	45226082	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	839505	45226082	204024539	23	46039											
BTF3L4	91408	broad.mit.edu	37	chr1	52530502	52530502	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggttatttttcagggtacAgctcgcagaaagaagaaggt	12	12	12	5	1	1	3	1	0	0	3	2	3	1	3	0	3	2	4	0	3	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:52530502A>C	uc001ctk.2	+	3	268	c.60A>C	c.(58-60)ACA>ACC	p.T20T	BTF3L4_uc001ctl.2_5'UTR|BTF3L4_uc010onh.1_RNA|BTF3L4_uc001ctm.2_Silent_p.T20T	NM_152265	NP_689478	Q96K17	BT3L4_HUMAN	basic transcription factor 3-like 4 isoform 1	20										large_intestine(1)	1						TTCAGGGTACAGCTCGCAGAA	0.408													9	29					0	0	1	0	0		C	52530502	C	C	52530502	2	2	70	1	0	0	0	0	0	0	0	1	1555	175	7	5		5	BTF3L4	1	52530502	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	7304420	52530502	196720119	24	46040											
LRP8	7804	broad.mit.edu	37	chr1	53741403	53741403	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccccacactggaactcGtccccacggcaggtgcccag	8	5	9	19	2	0	0	0	0	0	0	3	1	2	1	6	3	2	1	6	3	1	0	rs141574960	by1000genomes	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:53741403G>A	uc001cvi.1	-	6	1048	c.906C>T	c.(904-906)GAC>GAT	p.D302D	LRP8_uc001cvh.1_Translation_Start_Site|LRP8_uc001cvk.1_Intron|LRP8_uc001cvj.1_Silent_p.D302D|LRP8_uc001cvl.1_Silent_p.D173D	NM_004631	NP_004622	Q14114	LRP8_HUMAN	low density lipoprotein receptor-related protein	302	LDL-receptor class A 7.|Extracellular (Potential).				cytokine-mediated signaling pathway|endocytosis|lipid metabolic process|platelet activation|proteolysis	caveola	calcium ion binding|very-low-density lipoprotein particle receptor activity				0						ACTGGAACTCGTCCCCACGGC	0.592													27	9					0	0	1	0	0		A	53741403	A	A	53741403	2	1	70	1	0	0	0	0	0	0	0	1	8981	1136	40	1		1	LRP8	1	53741403	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1210901	53741403	195509218	25	46041											
ROR1	4919	broad.mit.edu	37	chr1	64515460	64515460	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctgggaatccacctccCaccatccgctggttcaaaaa	10	9	7	15	1	2	0	1	0	1	0	6	1	5	1	5	2	0	2	5	2	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:64515460C>A	uc001dbj.2	+	3	660	c.261C>A	c.(259-261)CCC>CCA	p.P87P	ROR1_uc001dbi.3_Silent_p.P87P	NM_005012	NP_005003	Q01973	ROR1_HUMAN	receptor tyrosine kinase-like orphan receptor 1	87	Ig-like C2-type.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19						ATCCACCTCCCACCATCCGCT	0.542													55	61					3.40343e-31	3.73846e-31	1	1	0		A	64515460	A	A	64515460	2	1	70	1	0	0	0	0	0	0	0	1	13551	581	21	5		5	ROR1	1	64515460	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	10774057	64515460	184735161	26	46042											
SLC35D1	23169	broad.mit.edu	37	chr1	67470100	67470100	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgctcttcagtgaaagTgatataggaatataccaggc	13	10	10	8	0	2	2	1	2	1	0	2	3	2	3	1	2	3	2	1	2	6	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:67470100T>C	uc001ddk.2	-	12	1375	c.991A>G	c.(991-993)ACT>GCT	p.T331A		NM_015139	NP_055954	Q9NTN3	S35D1_HUMAN	solute carrier family 35 (UDP-glucuronic	331					chondroitin sulfate biosynthetic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	integral to endoplasmic reticulum membrane	UDP-glucuronic acid transmembrane transporter activity|UDP-N-acetylgalactosamine transmembrane transporter activity				0					Lorazepam(DB00186)	TCAGTGAAAGTGATATAGGAA	0.448													25	20					0	0	1	0	0		C	67470100	C	C	67470100	3	2	70	1	0	0	0	0	1	0	0	0	14606	1696	59	3	80	3	SLC35D1	1	67470100	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	2954640	67470100	181780521	27	46043											
C1orf141	400757	broad.mit.edu	37	chr1	67558998	67558998	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgcttattagttttcttcTttagtttatcatctacagtt	7	23	4	7	0	5	0	1	0	4	0	5	0	5	0	0	0	2	4	0	0	5	11			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:67558998T>C	uc001ddl.1	-	7	1004	c.893A>G	c.(892-894)AAG>AGG	p.K298R	C1orf141_uc001ddm.1_Missense_Mutation_p.K298R|C1orf141_uc001ddn.1_RNA	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	298										ovary(1)	1						AGTTTTCTTCTTTAGTTTATC	0.343													54	73					0	0	1	0	0		C	67558998	C	C	67558998	3	2	70	1	0	0	0	0	1	0	0	0	2004	1609	56	3	313	3	C1orf141	1	67558998	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	88898	67558998	181691623	28	46044											
FUBP1	8880	broad.mit.edu	37	chr1	78430841	78430841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcttgaactgcatttcccGgtccatcgccatgatggaag	8	13	9	11	2	1	2	0	2	1	0	4	3	3	3	3	2	2	1	3	2	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:78430841G>A	uc001dii.2	-	8	637	c.548C>T	c.(547-549)CCG>CTG	p.P183L	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Missense_Mutation_p.P204L	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	183					transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						TGCATTTCCCGGTCCATCGCC	0.403													72	122					0	0	1	0	0		A	78430841	A	A	78430841	3	1	70	1	0	0	0	0	1	0	0	0	6106	1116	39	1	1438	1	FUBP1	1	78430841	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	10871843	78430841	170819780	29	46045											
SSX2IP	117178	broad.mit.edu	37	chr1	85130170	85130170	+	Frame_Shift_Del	DEL	T	-	-																															agtttattatattcacgctcTtttctcttcatatcatgatt																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:85130170delT	uc001dkh.2	-	7	878	c.603delA	c.(601-603)AAAfs	p.K201fs	SSX2IP_uc001dkf.2_Frame_Shift_Del_p.K174fs|SSX2IP_uc001dkg.2_RNA|SSX2IP_uc010orz.1_Frame_Shift_Del_p.K174fs|SSX2IP_uc001dki.2_Frame_Shift_Del_p.K201fs|SSX2IP_uc010osa.1_Frame_Shift_Del_p.K174fs|SSX2IP_uc001dkj.2_Frame_Shift_Del_p.K201fs|SSX2IP_uc009wci.2_Intron|SSX2IP_uc001dkk.1_Frame_Shift_Del_p.K197fs	NM_014021	NP_054740	Q9Y2D8	ADIP_HUMAN	synovial sarcoma, X breakpoint 2 interacting	201	Potential.				cell adhesion	nucleus|protein complex				ovary(2)	2				all cancers(265;0.0053)|Epithelial(280;0.0214)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		ATTCACGCTCTTTTCTCTTCA	0.338													53	79	---	---	---	---						.	-	85130170	-	-	85130170	7	5	70	1	0	1	0	1	0	0	0	0	15229	1606	56	0	1277	0	SSX2IP	1	85130170	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	6699329	85130170	164120451	30	46046											
DDAH1	23576	broad.mit.edu	37	chr1	85816154	85816154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcgatcaggttaggcccagCcatgctgcagaaactcttca	10	9	10	12	1	3	1	2	0	1	1	3	2	3	1	2	2	5	3	2	2	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:85816154C>T	uc001dlb.2	-	4	702	c.541G>A	c.(541-543)GCT>ACT	p.A181T	DDAH1_uc001dlc.2_Missense_Mutation_p.A78T|uc001dla.1_Intron|DDAH1_uc010osb.1_Missense_Mutation_p.A81T|DDAH1_uc009wco.2_Missense_Mutation_p.A78T	NM_012137	NP_036269	O94760	DDAH1_HUMAN	dimethylarginine dimethylaminohydrolase 1	181					arginine catabolic process|citrulline metabolic process|nitric oxide mediated signal transduction		dimethylargininase activity|metal ion binding				0				all cancers(265;0.0318)|Epithelial(280;0.0657)	L-Citrulline(DB00155)	TTAGGCCCAGCCATGCTGCAG	0.468													14	122					0	0	1	0	0		T	85816154	T	T	85816154	3	4	70	1	0	0	0	0	1	0	0	0	4324	739	26	2	328	2	DDAH1	1	85816154	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	685984	85816154	163434467	31	46047											
PKN2	5586	broad.mit.edu	37	chr1	89298759	89298759	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttattttacattatgctaGctgttaagaagaaatcctga	13	17	6	5	0	0	3	0	1	0	2	1	3	1	3	1	0	3	3	1	0	7	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:89298759G>A	uc001dmn.2	+	21	3013	c.2671_splice	c.e21-1	p.L891_splice	PKN2_uc010osp.1_Splice_Site_p.L875_splice|PKN2_uc010osq.1_Splice_Site_p.L734_splice|PKN2_uc009wcv.2_Splice_Site_p.L843_splice|PKN2_uc010osr.1_Splice_Site_p.L556_splice	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2						signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		CATTATGCTAGCTGTTAAGAA	0.308													11	16					0	0	1	0	0		A	89298759	A	A	89298759	5	1	70	1	0	0	0	0	0	0	1	0	11999	985	34	2	2752	2	PKN2	1	89298759	Splice_Site	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3482605	89298759	159951862	32	46048											
LRRC8B	23507	broad.mit.edu	37	chr1	90048782	90048782	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtccaagattttgctttcGtcctcagggtgttcagctga	8	14	10	9	1	2	2	2	1	0	1	5	2	4	2	2	1	2	3	2	1	2	4	rs114525158	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:90048782G>A	uc001dni.2	+	7	1080	c.573G>A	c.(571-573)TCG>TCA	p.S191S	LRRC8B_uc001dnh.2_Silent_p.S191S|LRRC8B_uc001dnj.2_Silent_p.S191S	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	191						integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		TTTTGCTTTCGTCCTCAGGGT	0.527													36	43					0	0	1	0	0		A	90048782	A	A	90048782	2	1	70	1	0	0	0	0	0	0	0	1	9040	1132	40	1		1	LRRC8B	1	90048782	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	750023	90048782	159201839	33	46049											
BARHL2	343472	broad.mit.edu	37	chr1	91182376	91182377	+	Frame_Shift_Ins	INS	-	G	G																															ggcggccgagcccagctgctINSgggggggcggcggcggcggc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:91182376_91182377insG	uc001dns.2	-	1	418_419	c.376_377insC	c.(376-378)CAGfs	p.Q126fs		NM_020063	NP_064447	Q9NY43	BARH2_HUMAN	BarH-like homeobox 2	126	Gln/Pro-rich.					nucleus	sequence-specific DNA binding			ovary(1)	1		all_lung(203;0.0263)|Lung SC(238;0.128)		all cancers(265;0.000897)|Epithelial(280;0.00516)|OV - Ovarian serous cystadenocarcinoma(397;0.211)		GCCCAGCTGCTGGGGGggcggc	0.426													3	6	---	---	---	---						.	G	91182377	G	G	91182376	7	5	70	1	0	1	1	0	0	0	0	0	1315	1580	55	0	798	0	BARHL2	1	91182376	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	1133594	91182376	158068245	34	46050											
LPPR5	163404	broad.mit.edu	37	chr1	99470032	99470033	+	Frame_Shift_Ins	INS	-	G	G																															gccagcgagtagaggagcacINSggggggcacggcgctgctgt																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:99470032_99470033insG	uc001dsb.2	-	1	417_418	c.195_196insC	c.(193-198)CCCGTGfs	p.P65fs	uc001dsd.1_RNA|LPPR5_uc001dsc.2_Frame_Shift_Ins_p.P65fs	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	65_66	Helical; (Potential).					integral to membrane	hydrolase activity				0						TAGAGGAGCACGGGGGGCACGG	0.708													11	24	---	---	---	---						.	G	99470033	G	G	99470032	7	5	70	1	0	1	1	0	0	0	0	0	8946	536	19	0	793	0	LPPR5	1	99470032	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	8287656	99470032	149780589	35	46051											
AGL	178	broad.mit.edu	37	chr1	100342155	100342155	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaaactttgctgaaccgggTatgtaatttttaacttctct	10	16	7	8	2	1	1	0	1	1	0	2	2	1	1	1	1	4	3	1	1	5	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:100342155T>C	uc001dsi.1	+	11	1823	c.1423_splice	c.e11+2	p.G475_splice	AGL_uc001dsj.1_Splice_Site_p.G475_splice|AGL_uc001dsk.1_Splice_Site_p.G475_splice|AGL_uc001dsl.1_Splice_Site_p.G475_splice|AGL_uc001dsm.1_Splice_Site_p.G459_splice|AGL_uc001dsn.1_Splice_Site_p.G458_splice	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,						glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		CTGAACCGGGTATGTAATTTT	0.378													35	62					0	0	1	0	0		C	100342155	C	C	100342155	5	2	70	1	0	0	0	0	0	0	1	0	384	1652	57	3	1532	3	AGL	1	100342155	Splice_Site	SNP	T	TCGA-BR-8368-01A-11D-2340-08	872123	100342155	148908466	36	46052											
S1PR1	1901	broad.mit.edu	37	chr1	101704655	101704655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaaagctgaatatcagcGcggacaaggagaacagcatt	15	5	13	8	3	1	2	1	1	0	1	1	5	1	4	0	3	4	2	0	3	5	2	rs140298731		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:101704655G>A	uc001dud.2	+	2	629	c.115G>A	c.(115-117)GCG>ACG	p.A39T	S1PR1_uc009weg.2_Missense_Mutation_p.A39T	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	39	Extracellular (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						GAATATCAGCGCGGACAAGGA	0.498											OREG0013620	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	57					0	0	1	0	0		A	101704655	A	A	101704655	3	1	70	1	0	0	0	0	1	0	0	0	13818	1087	38	1	117	1	S1PR1	1	101704655	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1362500	101704655	147545966	37	46053											
COL11A1	1301	broad.mit.edu	37	chr1	103379956	103379956	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctccaggaaaaccaacAggaccctagaatgacgtttt	14	8	9	10	1	1	2	0	1	1	1	2	5	1	5	3	3	2	1	3	3	5	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:103379956A>T	uc001dul.2	-	52	4248	c.3930T>A	c.(3928-3930)CCT>CCA	p.P1310P	COL11A1_uc001duk.2_Silent_p.P506P|COL11A1_uc001dum.2_Silent_p.P1322P|COL11A1_uc001dun.2_Silent_p.P1271P|COL11A1_uc009weh.2_Silent_p.P1194P	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1310	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GAAAACCAACAGGACCCTAGA	0.353													10	27					0	0	1	0	0		T	103379956	T	T	103379956	2	4	70	1	0	0	0	0	0	0	0	1	3670	175	7	5		5	COL11A1	1	103379956	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	1675301	103379956	145870665	38	46054											
PRPF38B	55119	broad.mit.edu	37	chr1	109242456	109242456	+	Frame_Shift_Del	DEL	A	-	-																															actgacagtgttgaaaaatcAaaaaaacgggaacatagtcc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:109242456delA	uc001dvv.3	+	6	1737	c.1455delA	c.(1453-1455)TCAfs	p.S485fs	PRPF38B_uc001dvw.3_Frame_Shift_Del_p.S374fs|PRPF38B_uc010ouz.1_Frame_Shift_Del_p.S288fs	NM_018061	NP_060531	Q5VTL8	PR38B_HUMAN	PRP38 pre-mRNA processing factor 38 (yeast)	485					mRNA processing|RNA splicing	spliceosomal complex					0		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0149)|Lung(183;0.0888)|COAD - Colon adenocarcinoma(174;0.113)|Epithelial(280;0.161)		TTGAAAAATCAAAAAAACGGG	0.343													41	81	---	---	---	---						.	-	109242456	-	-	109242456	7	5	70	1	0	1	0	1	0	0	0	0	12590	117	5	0	1477	0	PRPF38B	1	109242456	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	5862500	109242456	140008165	39	46055											
CLCC1	23155	broad.mit.edu	37	chr1	109479933	109479933	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtctataatcaatttcCtcctgccgtcttctatcccg	7	15	5	14	2	5	0	2	0	3	0	8	0	8	0	4	1	1	0	4	1	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:109479933C>A	uc001dwe.1	-	10	1241	c.1149G>T	c.(1147-1149)GAG>GAT	p.E383D	AKNAD1_uc010ovb.1_Intron|CLCC1_uc001dwf.1_Missense_Mutation_p.E383D|CLCC1_uc001dwg.1_Missense_Mutation_p.E333D|CLCC1_uc009wes.1_Missense_Mutation_p.E262D|CLCC1_uc009wet.1_Missense_Mutation_p.E198D	NM_001048210	NP_001041675	Q96S66	CLCC1_HUMAN	Mid-1-related chloride channel 1 isoform 1	383						endoplasmic reticulum|Golgi apparatus|integral to membrane|nucleus				liver(1)	1		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.231)		AATCAATTTCCTCCTGCCGTC	0.527													25	49					7.92952e-12	8.39115e-12	1	1	0		A	109479933	A	A	109479933	3	1	70	1	0	0	0	0	1	0	0	0	3463	680	24	5	514	5	CLCC1	1	109479933	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	237477	109479933	139770688	40	46056											
WDR47	22911	broad.mit.edu	37	chr1	109553736	109553736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaaagcaggattcagagagCgggtcatataggcatcagct	13	8	12	8	1	3	1	3	0	0	1	3	3	3	2	0	3	3	3	0	3	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:109553736C>T	uc001dwj.2	-	5	1308	c.932G>A	c.(931-933)CGC>CAC	p.R311H	WDR47_uc001dwl.2_Missense_Mutation_p.R318H|WDR47_uc001dwi.2_Missense_Mutation_p.R311H|WDR47_uc001dwk.2_Missense_Mutation_p.R283H|WDR47_uc010ovf.1_Missense_Mutation_p.R238H	NM_001142551	NP_001136023	O94967	WDR47_HUMAN	WD repeat domain 47 isoform 3	311										ovary(1)	1		all_lung(203;0.00519)|all_epithelial(167;0.00611)|Lung NSC(277;0.00822)		Colorectal(144;0.0165)|Lung(183;0.0484)|COAD - Colon adenocarcinoma(174;0.128)|Epithelial(280;0.168)|all cancers(265;0.201)|LUSC - Lung squamous cell carcinoma(189;0.244)		ATTCAGAGAGCGGGTCATATA	0.453													136	205					0	0	1	0	0		T	109553736	T	T	109553736	3	4	70	1	0	0	0	0	1	0	0	0	17326	768	27	1	1874	1	WDR47	1	109553736	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	73803	109553736	139696885	41	46057											
CELSR2	1952	broad.mit.edu	37	chr1	109794579	109794579	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaggatgcagctgtgggCaccagcgtggtgacggtgtc	8	8	17	8	2	0	2	0	2	0	0	1	3	0	3	1	4	3	3	1	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:109794579C>T	uc001dxa.3	+	1	1939	c.1878C>T	c.(1876-1878)GGC>GGT	p.G626G		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	626	Cadherin 5.|Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		CAGCTGTGGGCACCAGCGTGG	0.547													31	57					0	0	1	0	0		T	109794579	T	T	109794579	2	4	70	1	0	0	0	0	0	0	0	1	3225	697	25	2		2	CELSR2	1	109794579	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	240843	109794579	139456042	42	46058											
CELSR2	1952	broad.mit.edu	37	chr1	109804465	109804465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtgtccccattcgtgcccGgaggagtcagtgatggccag	6	8	15	12	3	1	1	1	1	0	0	3	3	2	3	4	4	1	0	4	4	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:109804465G>A	uc001dxa.3	+	5	4394	c.4333G>A	c.(4333-4335)GGA>AGA	p.G1445R		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	1445	Extracellular (Potential).|Laminin G-like 1.				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		ATTCGTGCCCGGAGGAGTCAG	0.592													3	7					0	0	1	0	0		A	109804465	A	A	109804465	3	1	70	1	0	0	0	0	1	0	0	0	3225	1117	39	1	4351	1	CELSR2	1	109804465	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	9886	109804465	139446156	43	46059											
MOV10	4343	broad.mit.edu	37	chr1	113241375	113241375	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcatcaccaaacttgacagGgagcttcgaggactggatga	12	8	12	9	1	1	2	1	2	0	0	2	6	1	5	1	3	3	2	1	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:113241375G>A	uc001eck.2	+	17	2817	c.2547G>A	c.(2545-2547)AGG>AGA	p.R849R	MOV10_uc001ecl.2_Intron|MOV10_uc001ecn.2_Silent_p.R849R|MOV10_uc001ecm.2_Silent_p.R789R	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	849					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		AACTTGACAGGGAGCTTCGAG	0.542													49	113					0	0	1	0	0		A	113241375	A	A	113241375	2	1	70	1	0	0	0	0	0	0	0	1	9736	1223	43	4		4	MOV10	1	113241375	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3436910	113241375	136009246	44	46060											
WDR3	10885	broad.mit.edu	37	chr1	118499758	118499758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acattcttaaactctttaacGaattcattcagctgggctct	11	15	5	10	1	5	0	2	0	3	0	5	1	5	0	0	1	3	2	0	1	4	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:118499758G>A	uc010oxe.1	+	25	2587	c.2521G>A	c.(2521-2523)GAA>AAA	p.E841K	WDR3_uc001ehi.2_Intron|SPAG17_uc001ehk.2_Intron	NM_006784	NP_006775	Q9UNX4	WDR3_HUMAN	WD repeat-containing protein 3	841						nuclear membrane|nucleolus				upper_aerodigestive_tract(1)	1	Esophageal squamous(2;0.162)	all_cancers(81;2.72e-05)|Acute lymphoblastic leukemia(138;1e-08)|all_epithelial(167;4.4e-07)|all_lung(203;1.7e-06)|Lung NSC(69;1.98e-05)|Prostate(1639;0.00955)|Breast(1374;0.244)		OV - Ovarian serous cystadenocarcinoma(397;1.39e-08)|Epithelial(280;1.82e-07)|all cancers(265;2.04e-05)|Lung(183;0.0525)|BRCA - Breast invasive adenocarcinoma(282;0.0695)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.185)		ACTCTTTAACGAATTCATTCA	0.388													84	123					0	0	1	0	0		A	118499758	A	A	118499758	3	1	70	1	0	0	0	0	1	0	0	0	17311	1059	37	1	2615	1	WDR3	1	118499758	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	5258383	118499758	130750863	45	46061											
PPIAL4G	644591	broad.mit.edu	37	chr1	143767741	143767741	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccagtgctcagagcacgAaagttttctgctgtctttgg	7	14	10	10	1	4	1	1	0	3	1	5	2	4	1	1	1	3	4	1	1	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:143767741A>G	uc001ejt.2	-	1	141	c.108T>C	c.(106-108)TTT>TTC	p.F36F		NM_001123068	NP_001116540	A2BFH1	PAL4G_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	36	PPIase cyclophilin-type.				protein folding	cytoplasm	peptidyl-prolyl cis-trans isomerase activity				0						TCAGAGCACGAAAGTTTTCTG	0.473													92	279					0	0	1	0	0		G	143767741	G	G	143767741	2	3	70	1	0	0	0	0	0	0	0	1	12340	243	9	3		3	PPIAL4G	1	143767741	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	25267983	143767741	105482880	46	46062											
PIAS3	10401	broad.mit.edu	37	chr1	145584029	145584029	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctgaggtttgccccccGccagggtatgggctggatgg	5	9	16	11	1	1	1	0	1	1	0	1	2	1	2	4	5	1	4	4	5	1	2	rs147716144		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:145584029G>A	uc001eoc.1	+	10	1351	c.1260G>A	c.(1258-1260)CCG>CCA	p.P420P	NBPF10_uc001emp.3_Intron|PIAS3_uc001eod.1_Silent_p.P89P	NM_006099	NP_006090	Q9Y6X2	PIAS3_HUMAN	protein inhibitor of activated STAT, 3	420					positive regulation of protein sumoylation|protein sumoylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	enzyme binding|nucleic acid binding|protein C-terminus binding|zinc ion binding			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TTTGCCCCCCGCCAGGGTATG	0.507													106	181					0	0	1	0	0		A	145584029	A	A	145584029	2	1	70	1	0	0	0	0	0	0	0	1	11896	1074	38	1		1	PIAS3	1	145584029	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1816288	145584029	103666592	47	46063											
TARS2	80222	broad.mit.edu	37	chr1	150460423	150460423	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtaaagagattagcaagCatggcacagaaggaaccccg	16	4	12	9	1	0	2	0	0	0	2	0	4	0	3	2	3	3	4	2	3	6	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:150460423C>T	uc001euq.2	+	2	163	c.156C>T	c.(154-156)AGC>AGT	p.S52S	TARS2_uc010pcd.1_RNA|TARS2_uc001eur.2_Silent_p.S52S|TARS2_uc009wlt.2_5'UTR|TARS2_uc009wls.2_Silent_p.S52S	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	52					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	GATTAGCAAGCATGGCACAGA	0.547													13	70					0	0	1	0	0		T	150460423	T	T	150460423	2	4	70	1	0	0	0	0	0	0	0	1	15585	709	25	2		2	TARS2	1	150460423	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4876394	150460423	98790198	48	46064											
SELENBP1	8991	broad.mit.edu	37	chr1	151338267	151338267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcatttcgggcagcagccagCccttcactttcttggggggc	5	10	13	13	1	2	0	1	0	1	0	3	0	2	0	2	4	3	3	2	4	0	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:151338267C>T	uc001exx.2	-	8	946	c.899G>A	c.(898-900)GGC>GAC	p.G300D	SELENBP1_uc010pcy.1_Missense_Mutation_p.G342D|SELENBP1_uc001exy.2_Missense_Mutation_p.G197D|SELENBP1_uc001exz.2_Missense_Mutation_p.G197D|SELENBP1_uc010pcz.1_Missense_Mutation_p.G238D|SELENBP1_uc009wms.2_Missense_Mutation_p.G136D|SELENBP1_uc009wmt.2_Missense_Mutation_p.G197D|SELENBP1_uc001eya.2_Missense_Mutation_p.G236D|SELENBP1_uc009wmu.2_Missense_Mutation_p.G197D	NM_003944	NP_003935	Q13228	SBP1_HUMAN	selenium binding protein 1	300					protein transport	cytosol|membrane|nucleolus	protein binding|selenium binding				0	Lung SC(34;0.00471)|Ovarian(49;0.00871)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CAGCAGCCAGCCCTTCACTTT	0.567													9	175					0	0	1	0	0		T	151338267	T	T	151338267	3	4	70	1	0	0	0	0	1	0	0	0	14039	739	26	2	539	2	SELENBP1	1	151338267	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	877844	151338267	97912354	49	46065											
POGZ	23126	broad.mit.edu	37	chr1	151400802	151400802	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttggtggtgggcctcacaGgcattgtggagcctggcctc	4	11	16	10	0	1	0	1	0	0	0	2	1	1	1	3	6	1	2	3	6	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:151400802G>T	uc001eyd.1	-	6	962	c.656C>A	c.(655-657)CCT>CAT	p.P219H	POGZ_uc001eye.1_Missense_Mutation_p.P166H|POGZ_uc010pdb.1_Missense_Mutation_p.P219H|POGZ_uc001eyf.1_Missense_Mutation_p.P166H|POGZ_uc010pdc.1_Missense_Mutation_p.P166H|POGZ_uc009wmv.1_Missense_Mutation_p.P124H|POGZ_uc010pdd.1_Intron|POGZ_uc001eyg.1_Missense_Mutation_p.P219H	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	219					cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GGGCCTCACAGGCATTGTGGA	0.567													50	144					9.22156e-22	1.00219e-21	1	1	0		T	151400802	T	T	151400802	3	4	70	1	0	0	0	0	1	0	0	0	12205	1000	35	5	3646	5	POGZ	1	151400802	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	62535	151400802	97849819	50	46066											
TCHH	7062	broad.mit.edu	37	chr1	152080396	152080396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttctgtcgcgctcctggCggcgcagctgctgttcttcc	2	14	11	14	4	2	0	0	0	2	0	5	0	4	0	2	2	2	5	2	2	0	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:152080396C>T	uc001ezp.2	-	2	5297	c.5297G>A	c.(5296-5298)CGC>CAC	p.R1766H	TCHH_uc009wne.1_Missense_Mutation_p.R1766H	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1766	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCGCTCCTGGCGGCGCAGCTG	0.587													45	64					0	0	1	0	0		T	152080396	T	T	152080396	3	4	70	1	0	0	0	0	1	0	0	0	15725	768	27	1	538	1	TCHH	1	152080396	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	679594	152080396	97170225	51	46067											
HRNR	388697	broad.mit.edu	37	chr1	152188175	152188175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagactcatatgggccaCggctggaagaccaccctgag	11	5	12	13	1	1	3	1	1	0	2	1	4	1	4	4	3	1	1	4	3	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:152188175C>T	uc001ezt.1	-	3	6006	c.5930G>A	c.(5929-5931)CGT>CAT	p.R1977H		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1977	22.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATATGGGCCACGGCTGGAAGA	0.602													68	584					0	0	1	0	0		T	152188175	T	T	152188175	3	4	70	1	0	0	0	0	1	0	0	0	7375	536	19	1	2626	1	HRNR	1	152188175	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	107779	152188175	97062446	52	46068											
FLG	2312	broad.mit.edu	37	chr1	152285028	152285028	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccctgaccggtcacgtgcGgactcttggtggctctgctg	3	11	13	14	3	3	1	1	1	2	0	4	2	4	2	3	4	2	2	3	4	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:152285028G>A	uc001ezu.1	-	3	2370	c.2334C>T	c.(2332-2334)TCC>TCT	p.S778S	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	778	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGTCACGTGCGGACTCTTGGT	0.567									Ichthyosis				140	298					0	0	1	0	0		A	152285028	A	A	152285028	2	1	70	1	0	0	0	0	0	0	0	1	5936	1103	39	1		1	FLG	1	152285028	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	96853	152285028	96965593	53	46069											
SPRR1B	6699	broad.mit.edu	37	chr1	153004968	153004968	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccaaggtgcctgagccctgCcaccccaaagtgcccgagcc	8	4	10	19	1	0	1	0	1	0	0	0	2	0	1	8	1	5	0	8	1	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:153004968C>T	uc001fba.2	+	2	211	c.147C>T	c.(145-147)TGC>TGT	p.C49C	SPRR1B_uc009wnx.1_RNA	NM_003125	NP_003116	P22528	SPR1B_HUMAN	small proline-rich protein 1B	49	6 X 8 AA approximate tandem repeats.|3.				keratinization|peptide cross-linking	cornified envelope|cytoplasm	protein binding, bridging|structural molecule activity			ovary(1)	1	Lung NSC(65;1.49e-28)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			CTGAGCCCTGCCACCCCAAAG	0.632													49	69					0	0	1	0	0		T	153004968	T	T	153004968	2	4	70	1	0	0	0	0	0	0	0	1	15121	747	26	2		2	SPRR1B	1	153004968	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	719940	153004968	96245653	54	46070											
RAG1AP1	55974	broad.mit.edu	37	chr1	155108811	155108811	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcgaatgacccggagtgtGgacaacgtccagttcctgcc	9	8	12	12	3	0	1	0	1	0	0	2	4	2	3	4	2	3	1	4	2	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:155108811G>T	uc001fhj.3	+	2	217	c.117G>T	c.(115-117)GTG>GTT	p.V39V	RAG1AP1_uc010pey.1_RNA|RAG1AP1_uc001fhk.3_Nonsense_Mutation_p.G26*|RAG1AP1_uc001fhl.3_Silent_p.V39V	NM_018845	NP_061333	Q9BRV3	SWET1_HUMAN	recombination activating gene 1 activating	39	MtN3/slv 1.				positive regulation of gene expression, epigenetic	Golgi membrane|integral to membrane|plasma membrane	glucoside transmembrane transporter activity				0	all_epithelial(22;4.71e-30)|all_lung(78;3.15e-27)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;2.28e-10)|all cancers(21;6.16e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000395)|LUSC - Lung squamous cell carcinoma(543;0.193)			CCCGGAGTGTGGACAACGTCC	0.647													3	5					0.115264	0.115675	1	1	0		T	155108811	T	T	155108811	2	4	70	1	0	0	0	0	0	0	0	1	13029	1349	47	5		5	RAG1AP1	1	155108811	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2103843	155108811	94141810	55	46071											
DPM3	54344	broad.mit.edu	37	chr1	155112444	155112444	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggggttaggctgtcagaaGcgcagccccctgcgggctaa	8	7	15	11	2	1	1	1	0	0	1	1	1	1	1	2	4	3	4	2	4	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:155112444G>A	uc001fhn.2	-	2	308	c.273C>T	c.(271-273)CGC>CGT	p.R91R	RAG1AP1_uc010pey.1_Intron|DPM3_uc001fhm.2_Silent_p.R121R	NM_153741	NP_714963	Q9P2X0	DPM3_HUMAN	dolichyl-phosphate mannosyltransferase	91					C-terminal protein lipidation|dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|protein C-linked glycosylation via 2'-alpha-mannosyl-L-tryptophan|protein N-linked glycosylation via asparagine|protein O-linked mannosylation|regulation of protein stability	dolichol-phosphate-mannose synthase complex|integral to endoplasmic reticulum membrane	protein binding				0	all_epithelial(22;4.71e-30)|all_lung(78;3.15e-27)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;2.28e-10)|all cancers(21;6.16e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000395)|LUSC - Lung squamous cell carcinoma(543;0.193)			GCTGTCAGAAGCGCAGCCCCC	0.552													30	48					0	0	1	0	0		A	155112444	A	A	155112444	2	1	70	1	0	0	0	0	0	0	0	1	4732	958	34	2		2	DPM3	1	155112444	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3633	155112444	94138177	56	46072											
CLK2	1196	broad.mit.edu	37	chr1	155233068	155233068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcggctcagcccgaaggcGggcgaagaaaggatgctgaa	11	3	18	9	4	1	2	1	1	0	1	1	5	1	3	1	5	2	2	1	5	4	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:155233068G>A	uc001fjy.2	-	13	1731	c.1441C>T	c.(1441-1443)CGC>TGC	p.R481C	RAG1AP1_uc010pey.1_Intron|SCAMP3_uc001fjr.2_5'Flank|SCAMP3_uc001fjs.2_5'Flank|SCAMP3_uc001fju.2_5'Flank|SCAMP3_uc001fjv.2_5'Flank|SCAMP3_uc001fjt.2_5'Flank|CLK2_uc001fjw.2_Missense_Mutation_p.R480C|CLK2_uc001fjx.2_Missense_Mutation_p.R253C|CLK2_uc009wqm.2_Missense_Mutation_p.R481C	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	481						nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GCCCGAAGGCGGGCGAAGAAA	0.567								Other_conserved_DNA_damage_response_genes					13	27					0	0	1	0	0		A	155233068	A	A	155233068	3	1	70	1	0	0	0	0	1	0	0	0	3540	1116	39	1	62	1	CLK2	1	155233068	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	120624	155233068	94017553	57	46073											
ASH1L	55870	broad.mit.edu	37	chr1	155448699	155448699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaactattaaagttgattCgaaagatagttggcagaaga	18	10	10	3	1	0	5	0	1	0	4	1	6	0	5	0	1	1	3	0	1	7	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:155448699C>T	uc009wqq.2	-	3	4442	c.3962G>A	c.(3961-3963)CGA>CAA	p.R1321Q	ASH1L_uc001fkt.2_Missense_Mutation_p.R1321Q|ASH1L_uc009wqr.1_Missense_Mutation_p.R1321Q	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1321					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			AAAGTTGATTCGAAAGATAGT	0.408													49	87					0	0	1	0	0		T	155448699	T	T	155448699	3	4	70	1	0	0	0	0	1	0	0	0	1042	884	31	1	5036	1	ASH1L	1	155448699	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	215631	155448699	93801922	58	46074											
CD5L	922	broad.mit.edu	37	chr1	157804523	157804523	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctctgggactggggagAaagagctctctgggtctgag	8	8	15	10	0	3	3	0	1	3	2	4	5	3	4	1	4	1	1	1	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:157804523A>G	uc001frk.3	-	4	535	c.392T>C	c.(391-393)TTC>TCC	p.F131S		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	131					apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GACTGGGGAGAAAGAGCTCTC	0.572													16	42					0	0	1	0	0		G	157804523	G	G	157804523	3	3	70	1	0	0	0	0	1	0	0	0	3030	246	9	3	663	3	CD5L	1	157804523	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	2355824	157804523	91446098	59	46075											
SPTA1	6708	broad.mit.edu	37	chr1	158609686	158609686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagccagaactcaaagtcccGgatgcttgtgttgaacctct	10	10	10	11	1	2	2	1	1	1	1	3	4	3	3	3	1	4	2	3	1	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:158609686G>A	uc001fst.1	-	34	5048	c.4849C>T	c.(4849-4851)CGG>TGG	p.R1617W		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1617	Spectrin 16.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCAAAGTCCCGGATGCTTGTG	0.448													50	85					0	0	1	0	0		A	158609686	A	A	158609686	3	1	70	1	0	0	0	0	1	0	0	0	15141	1115	39	1	2486	1	SPTA1	1	158609686	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	805163	158609686	90640935	60	46076											
KCNJ9	3765	broad.mit.edu	37	chr1	160053937	160053937	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagcagggcaacgtgcgCgagacataccgctacctgac	10	5	13	13	4	0	2	0	1	0	1	0	3	0	2	2	1	6	4	2	1	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:160053937C>T	uc001fuy.1	+	2	359	c.117C>T	c.(115-117)CGC>CGT	p.R39R		NM_004983	NP_004974	Q92806	IRK9_HUMAN	potassium inwardly-rectifying channel subfamily	39	Cytoplasmic (By similarity).				synaptic transmission	integral to membrane|plasma membrane	G-protein activated inward rectifier potassium channel activity|protein binding			ovary(1)|skin(1)	2	all_cancers(52;5.86e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GCAACGTGCGCGAGACATACC	0.582													4	5					0	0	1	0	0		T	160053937	T	T	160053937	2	4	70	1	0	0	0	0	0	0	0	1	8073	755	27	1		1	KCNJ9	1	160053937	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1444251	160053937	89196684	61	46077											
FCRLB	127943	broad.mit.edu	37	chr1	161697260	161697260	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgacgcccttggaacaatcGgctggagccctgaaacccga	10	5	11	15	4	0	1	0	1	0	0	1	5	0	3	4	3	3	1	4	3	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:161697260G>A	uc001gbh.2	+	8	1323	c.1089G>A	c.(1087-1089)TCG>TCA	p.S363S	FCRLB_uc009wus.2_Silent_p.S363S|FCRLB_uc001gbj.2_Missense_Mutation_p.R315Q|FCRLB_uc001gbk.2_3'UTR|FCRLB_uc001gbl.2_Missense_Mutation_p.R308Q|FCRLB_uc001gbm.2_3'UTR|FCRLB_uc001gbi.2_Silent_p.S363S|FCRLB_uc001gbn.3_3'UTR	NM_001002901	NP_001002901	Q6BAA4	FCRLB_HUMAN	Fc receptor-like B	363						endoplasmic reticulum					0	all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00634)			TGGAACAATCGGCTGGAGCCC	0.672													26	39					0	0	1	0	0		A	161697260	A	A	161697260	2	1	70	1	0	0	0	0	0	0	0	1	5815	1103	39	1		1	FCRLB	1	161697260	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1643323	161697260	87553361	62	46078											
MGST3	4259	broad.mit.edu	37	chr1	165624622	165624622	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaacccagcaagcgtagtCgaggagccctggggtccatc	10	5	13	13	2	0	1	0	0	0	1	3	3	1	2	3	3	4	2	3	3	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:165624622C>T	uc001gdf.2	+	6	428	c.340C>T	c.(340-342)CGA>TGA	p.R114*	MGST3_uc001gdg.2_Nonsense_Mutation_p.R128*	NM_004528	NP_004519	O14880	MGST3_HUMAN	microsomal glutathione S-transferase 3	114					leukotriene biosynthetic process|leukotriene production involved in inflammatory response|signal transduction|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glutathione peroxidase activity|glutathione transferase activity				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Glutathione(DB00143)	CAAGCGTAGTCGAGGAGCCCT	0.512													15	28					0	0	1	0	0		T	165624622	T	T	165624622	4	4	70	1	0	0	0	0	0	1	0	0	9580	876	31	1	358	1	MGST3	1	165624622	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3927362	165624622	83625999	63	46079											
SLC19A2	10560	broad.mit.edu	37	chr1	169446550	169446552	+	In_Frame_Del	DEL	AAG	-	-																															aggtagaaggaatgtggtgaAagaagaggctcttctgtggc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:169446550_169446552delAAG	uc001gge.3	-	2	852_854	c.648_650delCTT	c.(646-651)TTCTTT>TTT	p.216_217FF>F	SLC19A2_uc001ggf.3_Intron	NM_006996	NP_008927	O60779	S19A2_HUMAN	solute carrier family 19, member 2	216_217	Cytoplasmic (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|folic acid transporter activity|reduced folate carrier activity|thiamine uptake transmembrane transporter activity				0	all_hematologic(923;0.208)					AATGTGGTGAAAGAAGAGGCTCT	0.498													28	44	---	---	---	---						.	-	169446552	-	-	169446550	7	5	70	1	0	1	0	1	0	0	0	0	14454	14	1	0	863	0	SLC19A2	1	169446550	In_Frame_Del	DEL	AAG	TCGA-BR-8368-01A-11D-2340-08	3821928	169446550	79804071	64	46080											
SCYL3	57147	broad.mit.edu	37	chr1	169828337	169828337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatggaatcgctagtatcaCgcaggcccagcaaaacctag	14	6	9	12	2	1	0	1	0	0	0	2	1	1	1	2	2	2	4	2	2	7	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:169828337C>T	uc001ggs.2	-	11	1355	c.1157G>A	c.(1156-1158)CGT>CAT	p.R386H	SCYL3_uc010plw.1_Missense_Mutation_p.R32H|SCYL3_uc001ggt.2_Missense_Mutation_p.R386H|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	386	HEAT 4.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GCTAGTATCACGCAGGCCCAG	0.488													20	25					0	0	1	0	0		T	169828337	T	T	169828337	3	4	70	1	0	0	0	0	1	0	0	0	13974	536	19	1	1087	1	SCYL3	1	169828337	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	381787	169828337	79422284	65	46081											
TNN	63923	broad.mit.edu	37	chr1	175049336	175049336	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagctgctcaagaacacGgaggattctctgctggtgag	9	9	13	10	1	2	2	1	1	1	1	3	4	2	4	0	3	5	4	0	3	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:175049336G>A	uc001gkl.1	+	4	935	c.822G>A	c.(820-822)ACG>ACA	p.T274T	TNN_uc010pmx.1_Silent_p.T274T	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	274	Fibronectin type-III 1.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		TCAAGAACACGGAGGATTCTC	0.617													16	32					0	0	1	0	0		A	175049336	A	A	175049336	2	1	70	1	0	0	0	0	0	0	0	1	16348	1103	39	1		1	TNN	1	175049336	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	5220999	175049336	74201285	66	46082											
TNR	7143	broad.mit.edu	37	chr1	175355234	175355234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacggcactgactgacacctCgtatcgggagccaggccgca	9	5	13	14	4	0	2	0	2	0	0	2	4	0	3	3	3	1	3	3	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:175355234C>T	uc001gkp.1	-	6	1792	c.1711G>A	c.(1711-1713)GAG>AAG	p.E571K	TNR_uc009wwu.1_Missense_Mutation_p.E571K	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	571	Fibronectin type-III 3.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ACTGACACCTCGTATCGGGAG	0.637													32	51					0	0	1	0	0		T	175355234	T	T	175355234	3	4	70	1	0	0	0	0	1	0	0	0	16363	893	31	1	2429	1	TNR	1	175355234	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	305898	175355234	73895387	67	46083											
RFWD2	64326	broad.mit.edu	37	chr1	175956141	175956141	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atttgtatcatcttcttttcGgtctttgtcgagaacacttt	7	20	6	8	2	4	1	1	0	3	1	6	2	4	1	0	1	1	1	0	1	2	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:175956141G>A	uc001gku.1	-	18	2327	c.2071C>T	c.(2071-2073)CGA>TGA	p.R691*	RFWD2_uc001gkv.1_Nonsense_Mutation_p.R667*|RFWD2_uc001gkw.1_Nonsense_Mutation_p.R451*|RFWD2_uc009wwv.2_Nonsense_Mutation_p.R490*|RFWD2_uc001gkt.1_Nonsense_Mutation_p.R530*	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	691	WD 7.				DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						TCTTCTTTTCGGTCTTTGTCG	0.373													24	80					0	0	1	0	0		A	175956141	A	A	175956141	4	1	70	1	0	0	0	0	0	1	0	0	13285	1124	39	1	136	1	RFWD2	1	175956141	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	600907	175956141	73294480	68	46084											
TDRD5	163589	broad.mit.edu	37	chr1	179620047	179620047	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagttccagaagttgtgcGgtttgaagccattagtgggg	8	12	15	6	1	0	2	0	1	0	1	1	2	1	2	2	3	3	4	2	3	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:179620047G>A	uc001gnf.1	+	12	2096	c.1846G>A	c.(1846-1848)GGT>AGT	p.G616S	TDRD5_uc010pnp.1_Missense_Mutation_p.G616S|TDRD5_uc001gnh.1_Missense_Mutation_p.G171S	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	616					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						GAAGTTGTGCGGTTTGAAGCC	0.368													46	80					0	0	1	0	0		A	179620047	A	A	179620047	3	1	70	1	0	0	0	0	1	0	0	0	15758	1116	39	1	1888	1	TDRD5	1	179620047	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3663906	179620047	69630574	69	46085											
KIAA1614	57710	broad.mit.edu	37	chr1	180904705	180904705	+	Frame_Shift_Del	DEL	C	-	-																															gccccgcccaggggaaggcgCcccccgtccccaggaccctc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:180904705delC	uc001gok.2	+	5	1727	c.1660delC	c.(1660-1662)CCCfs	p.P554fs	KIAA1614_uc001gol.1_Frame_Shift_Del_p.P175fs|KIAA1614_uc001gom.1_Intron	NM_020950	NP_066001	Q5VZ46	K1614_HUMAN	hypothetical protein LOC57710	554										ovary(3)|skin(1)	4						GGGGAAGGCGCCCCCCGTCCC	0.751													9	10	---	---	---	---						.	-	180904705	-	-	180904705	7	5	70	1	0	1	0	1	0	0	0	0	8264	739	26	0	1678	0	KIAA1614	1	180904705	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	1284658	180904705	68345916	70	46086											
CACNA1E	777	broad.mit.edu	37	chr1	181741306	181741306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggcagaacgagaacgaacGctgcggcaccgatctggcct	11	4	14	12	5	1	2	0	0	1	2	1	5	1	2	2	3	4	3	2	3	3	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:181741306G>A	uc001gow.2	+	37	5243	c.5078G>A	c.(5077-5079)CGC>CAC	p.R1693H	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1581H|CACNA1E_uc001gox.1_Missense_Mutation_p.R919H|CACNA1E_uc009wxt.2_Missense_Mutation_p.R919H	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1693	Extracellular (Potential).|IV.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GAGAACGAACGCTGCGGCACC	0.557													20	65					0	0	1	0	0		A	181741306	A	A	181741306	3	1	70	1	0	0	0	0	1	0	0	0	2545	1087	38	1	5224	1	CACNA1E	1	181741306	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	836601	181741306	67509315	71	46087											
GLUL	2752	broad.mit.edu	37	chr1	182354926	182354926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacctcggcattagtccccGcaatcttgactccagcatac	9	10	7	15	2	1	2	0	2	1	0	4	2	3	2	4	1	2	3	4	1	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:182354926G>A	uc001gpa.1	-	5	784	c.572C>T	c.(571-573)GCG>GTG	p.A191V	GLUL_uc010pnt.1_5'Flank|GLUL_uc001gpb.1_Missense_Mutation_p.A191V|GLUL_uc001gpc.1_Missense_Mutation_p.A191V|GLUL_uc001gpd.1_Missense_Mutation_p.A191V	NM_001033056	NP_001028228	P15104	GLNA_HUMAN	glutamine synthetase	191					cell proliferation|glutamine biosynthetic process|neurotransmitter uptake	cytosol|Golgi apparatus|mitochondrion	ATP binding|glutamate decarboxylase activity|glutamate-ammonia ligase activity|identical protein binding				0					Asparaginase(DB00023)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)|L-Methionine(DB00134)	ATTAGTCCCCGCAATCTTGAC	0.522													114	185					0	0	1	0	0		A	182354926	A	A	182354926	3	1	70	1	0	0	0	0	1	0	0	0	6493	1087	38	1	561	1	GLUL	1	182354926	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	613620	182354926	66895695	72	46088											
RGL1	23179	broad.mit.edu	37	chr1	183885736	183885736	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcggtgacgtccattacctcGactgtgctgcctcctgttta	5	14	9	13	3	0	1	0	1	0	0	4	2	2	1	4	1	3	2	4	1	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:183885736G>A	uc001gqo.2	+	16	2062	c.1905G>A	c.(1903-1905)TCG>TCA	p.S635S	RGL1_uc001gqm.2_Silent_p.S670S|RGL1_uc010pog.1_Silent_p.S633S|RGL1_uc010poh.1_Silent_p.S633S|RGL1_uc010poi.1_Silent_p.S606S	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	635					cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						CCATTACCTCGACTGTGCTGC	0.507													45	75					0	0	1	0	0		A	183885736	A	A	183885736	2	1	70	1	0	0	0	0	0	0	0	1	13301	1045	37	1		1	RGL1	1	183885736	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1530810	183885736	65364885	73	46089											
TPR	7175	broad.mit.edu	37	chr1	186326586	186326586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttccccaagctctctaaggGccactaagagacgttgattt	10	12	8	11	1	1	2	0	1	1	1	3	3	2	2	3	1	1	2	3	1	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:186326586G>A	uc001grv.2	-	14	1964	c.1667C>T	c.(1666-1668)GCC>GTC	p.A556V	TPR_uc010pop.1_Missense_Mutation_p.A632V	NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	556	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		CTCTCTAAGGGCCACTAAGAG	0.378			T	NTRK1	papillary thyroid								46	76					0	0	1	0	0		A	186326586	A	A	186326586	3	1	70	1	0	0	0	0	1	0	0	0	16442	1203	42	2	5576	2	TPR	1	186326586	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2440850	186326586	62924035	74	46090											
C1orf27	54953	broad.mit.edu	37	chr1	186368101	186368101	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaggcagtaaagagggatAtattgaacacagttgctgat	14	11	12	4	0	0	3	0	2	0	1	0	4	0	4	0	2	2	5	0	2	6	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:186368101A>G	uc001grw.2	+	11	1161	c.925A>G	c.(925-927)ATA>GTA	p.I309V	C1orf27_uc010poq.1_Missense_Mutation_p.I286V|C1orf27_uc010por.1_Missense_Mutation_p.I277V|OCLM_uc001gry.2_5'Flank	NM_017847	NP_060317	Q5SWX8	ODR4_HUMAN	odorant response abnormal 4 isoform 1	309						integral to membrane	oxidoreductase activity|zinc ion binding			ovary(1)	1						AAAGAGGGATATATTGAACAC	0.274													4	31					0	0	1	0	0		G	186368101	G	G	186368101	3	3	70	1	0	0	0	0	1	0	0	0	2039	449	16	3	963	3	C1orf27	1	186368101	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	41515	186368101	62882520	75	46091											
FAM5C	339479	broad.mit.edu	37	chr1	190067835	190067835	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgacttgtacttattgctCttcaaggtgaggagcatccg	8	14	10	9	1	2	2	1	2	1	0	3	3	3	3	1	2	3	3	1	2	3	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:190067835C>T	uc001gse.1	-	8	1846	c.1614G>A	c.(1612-1614)AAG>AAA	p.K538K	FAM5C_uc010pot.1_Silent_p.K436K	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	538						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					ACTTATTGCTCTTCAAGGTGA	0.443													52	79					0	0	1	0	0		T	190067835	T	T	190067835	2	4	70	1	0	0	0	0	0	0	0	1	5608	912	32	4		4	FAM5C	1	190067835	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3699734	190067835	59182786	76	46092											
KCNT2	343450	broad.mit.edu	37	chr1	196300297	196300297	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtacttaccttgtctaatcTtaagcagcaaaatggtactt	13	14	6	8	0	2	0	0	0	2	0	2	0	2	0	1	1	5	4	1	1	7	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:196300297T>G	uc001gtd.1	-	18	2152	c.2092A>C	c.(2092-2094)AGA>CGA	p.R698R	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Silent_p.R648R|KCNT2_uc001gtf.1_Silent_p.R698R|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Silent_p.R698R|KCNT2_uc001gth.1_Silent_p.R219R	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	698	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TTGTCTAATCTTAAGCAGCAA	0.299													79	140					0	0	1	0	0		G	196300297	G	G	196300297	2	3	70	1	0	0	0	0	0	0	0	1	8108	1617	56	5		5	KCNT2	1	196300297	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	6232462	196300297	52950324	77	46093											
ZBTB41	360023	broad.mit.edu	37	chr1	197128758	197128758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgacgcactaggtcactcgGagtgtcaggcatctgaactg	10	9	12	10	2	3	2	2	2	1	0	4	3	3	3	0	3	1	2	0	3	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:197128758G>A	uc001gtx.1	-	10	2530	c.2461C>T	c.(2461-2463)CCG>TCG	p.P821S	ZBTB41_uc009wyz.1_RNA	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	821					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						AGGTCACTCGGAGTGTCAGGC	0.478													45	83					0	0	1	0	0		A	197128758	A	A	197128758	3	1	70	1	0	0	0	0	1	0	0	0	17568	1174	41	4	272	4	ZBTB41	1	197128758	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	828461	197128758	52121863	78	46094											
DENND1B	163486	broad.mit.edu	37	chr1	197509196	197509197	+	Frame_Shift_Ins	INS	-	T	T																															aggtcccataatcttcttcaINSttttcctacacatgaaaaaa																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:197509196_197509197insT	uc010ppe.1	-	19	1690_1691	c.1352_1353insA	c.(1351-1353)AATfs	p.N451fs	DENND1B_uc010ppf.1_RNA	NM_001142795	NP_001136267	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 1	Error:Variant_position_missing_in_Q6P3S1_after_alignment						clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						AATCTTCTTCATTTTCCTACAC	0.312													31	60	---	---	---	---						.	T	197509197	T	T	197509196	7	5	70	1	0	1	1	0	0	0	0	0	4433	214	8	0	930	0	DENND1B	1	197509196	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	380438	197509196	51741425	79	46095											
CACNA1S	779	broad.mit.edu	37	chr1	201022686	201022686	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggaacaggcggaagaaggcGctggagatgcgggcactctc	10	4	17	10	4	1	2	0	0	1	2	2	5	1	4	0	6	2	2	0	6	3	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:201022686G>A	uc001gvv.2	-	30	3923	c.3696C>T	c.(3694-3696)AGC>AGT	p.S1232S		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1232	IV.|Helical; Name=S4 of repeat IV; (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GGAAGAAGGCGCTGGAGATGC	0.642													24	35					0	0	1	0	0		A	201022686	A	A	201022686	2	1	70	1	0	0	0	0	0	0	0	1	2550	1078	38	1		1	CACNA1S	1	201022686	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3513490	201022686	48227935	80	46096											
IPO9	55705	broad.mit.edu	37	chr1	201817694	201817694	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagcggagacttaaatgcCgtccatggagccatgcgtgt	9	9	14	9	3	0	2	0	1	0	1	1	4	1	3	3	2	4	0	3	2	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:201817694C>T	uc001gwz.2	+	4	536	c.486C>T	c.(484-486)GCC>GCT	p.A162A		NM_018085	NP_060555	Q96P70	IPO9_HUMAN	importin 9	162					protein import into nucleus	cytoplasm|nucleus	histone binding|protein transporter activity			ovary(2)	2						ACTTAAATGCCGTCCATGGAG	0.532													9	47					0	0	1	0	0		T	201817694	T	T	201817694	2	4	70	1	0	0	0	0	0	0	0	1	7815	639	23	1		1	IPO9	1	201817694	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	795008	201817694	47432927	81	46097											
GPR37L1	9283	broad.mit.edu	37	chr1	202097070	202097070	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agctggcacaggagcctgccCccaccatgggcaccctggac	8	4	12	17	0	0	0	0	0	0	0	0	2	0	2	5	4	3	3	5	4	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:202097070C>A	uc001gxj.2	+	2	895	c.832C>A	c.(832-834)CCC>ACC	p.P278T		NM_004767	NP_004758	O60883	ETBR2_HUMAN	G-protein coupled receptor 37 like 1 precursor	278	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2						GGAGCCTGCCCCCACCATGGG	0.617													13	28					7.03913e-09	7.32511e-09	1	1	0		A	202097070	A	A	202097070	3	1	70	1	0	0	0	0	1	0	0	0	6707	623	22	5	838	5	GPR37L1	1	202097070	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	279376	202097070	47153551	82	46098											
PLEKHA6	22874	broad.mit.edu	37	chr1	204228411	204228411	+	Frame_Shift_Del	DEL	C	-	-																															aaggtcttcaggcgggggtaCcccccggcgcagattcaccc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:204228411delC	uc001hau.2	-	8	1299	c.982delG	c.(982-984)GTAfs	p.V328fs	PLEKHA6_uc009xaw.1_5'Flank|PLEKHA6_uc009xax.1_5'Flank|PLEKHA6_uc009xay.1_5'Flank|PLEKHA6_uc009xaz.1_5'Flank|PLEKHA6_uc009xba.1_5'Flank|PLEKHA6_uc009xbb.1_5'Flank|PLEKHA6_uc009xbc.1_5'Flank	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	328	Pro-rich.									ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			GGCGGGGGTACCCCCCGGCGC	0.622													22	42	---	---	---	---						.	-	204228411	-	-	204228411	7	5	70	1	0	1	0	1	0	0	0	0	12079	507	18	0	2224	0	PLEKHA6	1	204228411	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	2131341	204228411	45022210	83	46099											
SLC45A3	85414	broad.mit.edu	37	chr1	205632446	205632446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagacagagtaggcctggCgacagtggtccgggtcccgg	8	6	16	11	3	0	2	0	0	0	2	2	3	2	2	3	5	0	1	3	5	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:205632446C>T	uc001hda.1	-	3	812	c.473G>A	c.(472-474)CGC>CAC	p.R158H	SLC45A3_uc010prn.1_5'Flank|SLC45A3_uc010pro.1_5'UTR|SLC45A3_uc010prp.1_Intron|ELK4_uc010prq.1_Intron	NM_033102	NP_149093	Q96JT2	S45A3_HUMAN	prostein	158					transmembrane transport	integral to membrane			SLC45A3/BRAF(2)	ovary(2)|prostate(2)	4	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			GTAGGCCTGGCGACAGTGGTC	0.637			T	ETV1|ETV5|ELK4|ERG	prostate 								10	24					0	0	1	0	0		T	205632446	T	T	205632446	3	4	70	1	0	0	0	0	1	0	0	0	14667	768	27	1	1200	1	SLC45A3	1	205632446	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1404035	205632446	43618175	84	46100											
LAMB3	3914	broad.mit.edu	37	chr1	209797293	209797295	+	In_Frame_Del	DEL	ACA	-	-																															ctccaggtctctcggaagggAcaacgtctcctcctccaggg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:209797293_209797295delACA	uc001hhg.2	-	14	2417_2419	c.2027_2029delTGT	c.(2026-2031)TTGTCC>TCC	p.L676del	LAMB3_uc009xco.2_In_Frame_Del_p.L676del|LAMB3_uc001hhh.2_In_Frame_Del_p.L676del|LAMB3_uc010psl.1_RNA|hsa-mir-4260|MI0015859_5'Flank	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	676	Domain II.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		CTCGGAAGGGACAACGTCTCCTC	0.507													24	47	---	---	---	---						.	-	209797295	-	-	209797293	7	5	70	1	0	1	0	1	0	0	0	0	8628	275	10	0	1525	0	LAMB3	1	209797293	In_Frame_Del	DEL	ACA	TCGA-BR-8368-01A-11D-2340-08	4164847	209797293	39453328	85	46101											
IRF6	3664	broad.mit.edu	37	chr1	209961960	209961960	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatcaccagaaaacatctcGtagatcatccgagccactac	16	7	5	13	2	3	2	2	0	1	2	5	3	4	2	3	0	3	1	3	0	5	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:209961960G>A	uc001hhq.1	-	9	1472	c.1209C>T	c.(1207-1209)TAC>TAT	p.Y403Y	IRF6_uc010psm.1_Silent_p.Y308Y|IRF6_uc009xct.1_Silent_p.Y403Y	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	403					cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		AAAACATCTCGTAGATCATCC	0.463										HNSCC(57;0.16)			9	11					0	0	1	0	0		A	209961960	A	A	209961960	2	1	70	1	0	0	0	0	0	0	0	1	7850	1140	40	1		1	IRF6	1	209961960	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	164667	209961960	39288661	86	46102											
SPATA17	128153	broad.mit.edu	37	chr1	217975157	217975157	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttacaaagaacaattcCgaagtgaaaatcctaagaaa	19	10	5	7	1	1	3	0	1	1	2	3	4	3	3	2	0	2	0	2	0	9	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:217975157C>T	uc001hlh.1	+	9	996	c.970C>T	c.(970-972)CGA>TGA	p.R324*	SPATA17_uc001hli.2_Nonsense_Mutation_p.R324*	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	324						cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		AGAACAATTCCGAAGTGAAAA	0.294													15	29					0	0	1	0	0		T	217975157	T	T	217975157	4	4	70	1	0	0	0	0	0	1	0	0	15027	644	23	1	1004	1	SPATA17	1	217975157	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	8013197	217975157	31275464	87	46103											
TAF1A	9015	broad.mit.edu	37	chr1	222750877	222750877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggttgattaatatttcccGggaagacgtattttcaccat	12	14	8	7	2	1	2	1	1	0	1	2	3	2	3	2	2	0	2	2	2	5	7	rs148113527	by1000genomes	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:222750877G>A	uc009xdz.1	-	5	703	c.514C>T	c.(514-516)CGG>TGG	p.R172W	TAF1A_uc001hni.1_Missense_Mutation_p.R58W|TAF1A_uc001hnj.2_Missense_Mutation_p.R172W|TAF1A_uc001hnk.2_Missense_Mutation_p.R58W|TAF1A_uc010pur.1_Missense_Mutation_p.R172W	NM_139352	NP_647603	Q15573	TAF1A_HUMAN	TBP-associated factor 1A isoform 2	172					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	RNA polymerase I transcription factor complex	DNA binding				0				GBM - Glioblastoma multiforme(131;0.0186)		AATATTTCCCGGGAAGACGTA	0.383													40	77					0	0	1	0	0		A	222750877	A	A	222750877	3	1	70	1	0	0	0	0	1	0	0	0	15544	1115	39	1	866	1	TAF1A	1	222750877	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4775720	222750877	26499744	88	46104											
TP53BP2	7159	broad.mit.edu	37	chr1	223971921	223971923	+	In_Frame_Del	DEL	CTT	-	-																															gatgattgtcatgcagtctcCttctttcatgggcagctcat																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:223971921_223971923delCTT	uc010pvb.1	-	17	3549_3551	c.3257_3259delAAG	c.(3256-3261)GAAGGA>GGA	p.E1086del	TP53BP2_uc001hod.2_In_Frame_Del_p.E957del|TP53BP2_uc010puz.1_In_Frame_Del_p.E319del|TP53BP2_uc010pva.1_In_Frame_Del_p.E725del	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	1080	Mediates interaction with APC2.|SH3.				apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		ATGCAGTCTCCTTCTTTCATGGG	0.438													59	116	---	---	---	---						.	-	223971923	-	-	223971921	7	5	70	1	0	1	0	1	0	0	0	0	16410	690	24	0	153	0	TP53BP2	1	223971921	In_Frame_Del	DEL	CTT	TCGA-BR-8368-01A-11D-2340-08	1221044	223971921	25278700	89	46105											
LBR	3930	broad.mit.edu	37	chr1	225598070	225598070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccaaggatggaacagcgcGgtcctgtattttcatttcag	9	11	12	9	2	2	0	2	0	0	0	3	2	3	2	2	4	2	1	2	4	3	4	rs144672633	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:225598070G>A	uc001hoy.2	-	10	1380	c.1237C>T	c.(1237-1239)CGC>TGC	p.R413C	LBR_uc001hoz.2_Missense_Mutation_p.R413C|LBR_uc001hpa.1_Missense_Mutation_p.R413C	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	413					cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		GGAACAGCGCGGTCCTGTATT	0.348													31	78					0	0	1	0	0		A	225598070	A	A	225598070	3	1	70	1	0	0	0	0	1	0	0	0	8668	1116	39	1	630	1	LBR	1	225598070	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1626149	225598070	23652551	90	46106											
ACBD3	64746	broad.mit.edu	37	chr1	226349293	226349293	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctttcctcttcctcccgtcGaagcctttcctcttcttctc	2	17	3	19	2	4	0	0	0	4	0	10	1	8	0	6	0	1	0	6	0	1	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:226349293G>A	uc001hpy.2	-	4	714	c.667C>T	c.(667-669)CGA>TGA	p.R223*		NM_022735	NP_073572	Q9H3P7	GCP60_HUMAN	acyl-Coenzyme A binding domain containing 3	223	Arg-rich.|Potential.|Glu-rich.				steroid biosynthetic process|transport	Golgi membrane|integral to membrane|mitochondrion	fatty-acyl-CoA binding|protein binding				0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.121)		tcctcccgtcgaagcctttcc	0.095													24	38					0	0	1	0	0		A	226349293	A	A	226349293	4	1	70	1	0	0	0	0	0	1	0	0	123	1066	37	1	939	1	ACBD3	1	226349293	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	751223	226349293	22901328	91	46107											
PARP1	142	broad.mit.edu	37	chr1	226568840	226568840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccccgagtttctcaatcatgGccttcacttcatccttgttc	6	15	5	15	1	4	0	4	0	1	0	7	1	5	0	4	1	0	2	4	1	1	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:226568840G>A	uc001hqd.3	-	9	1400	c.1229C>T	c.(1228-1230)GCC>GTC	p.A410V		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	410	Automodification domain.|BRCT.				cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		CTCAATCATGGCCTTCACTTC	0.493								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					23	45					0	0	1	0	0		A	226568840	A	A	226568840	3	1	70	1	0	0	0	0	1	0	0	0	11473	1203	42	2	1875	2	PARP1	1	226568840	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	219547	226568840	22681781	92	46108											
OBSCN	84033	broad.mit.edu	37	chr1	228509573	228509573	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatgccttccgccgggctGcccgtcggctgcaccggctc	3	7	13	18	6	0	0	0	0	0	0	3	1	1	0	5	3	3	4	5	3	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:228509573G>T	uc009xez.1	+	55	15075	c.15031G>T	c.(15031-15033)GCC>TCC	p.A5011S	OBSCN_uc001hsn.2_Missense_Mutation_p.A5011S	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5011					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCGCCGGGCTGCCCGTCGGCT	0.637													8	19					0.000157383	0.000160517	1	1	0		T	228509573	T	T	228509573	3	4	70	1	0	0	0	0	1	0	0	0	10831	1319	46	5	15245	5	OBSCN	1	228509573	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1940733	228509573	20741048	93	46109											
ABCB10	23456	broad.mit.edu	37	chr1	229685004	229685004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtttgcatgaggtagacaCgaatggcattggcggcagca	12	8	14	7	2	0	2	0	1	0	1	0	3	0	2	0	4	2	6	0	4	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:229685004C>T	uc001htp.3	-	2	738	c.695G>A	c.(694-696)CGT>CAT	p.R232H		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	232	Mitochondrial intermembrane (Potential).|Helical; (Potential).|ABC transmembrane type-1.					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				GAGGTAGACACGAATGGCATT	0.527													25	46					0	0	1	0	0		T	229685004	T	T	229685004	3	4	70	1	0	0	0	0	1	0	0	0	41	536	19	1	1569	1	ABCB10	1	229685004	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1175431	229685004	19565617	94	46110											
DISC1	27185	broad.mit.edu	37	chr1	231902976	231902976	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcttgcacgtgtccatcacGagacgagactggcttcttca	9	10	10	12	3	3	2	2	0	1	2	4	4	4	2	1	1	2	3	1	1	0	3	rs144844117		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:231902976G>A	uc001huz.2	+	5	1412	c.1359G>A	c.(1357-1359)ACG>ACA	p.T453T	TSNAX-DISC1_uc010pwg.1_Silent_p.T442T|TSNAX-DISC1_uc010pwh.1_Silent_p.T408T|TSNAX-DISC1_uc010pwi.1_Silent_p.T408T|TSNAX-DISC1_uc010pwj.1_Silent_p.T442T|TSNAX-DISC1_uc010pwk.1_Silent_p.T442T|TSNAX-DISC1_uc010pwl.1_RNA|DISC1_uc010pwq.1_Silent_p.T453T|DISC1_uc010pwr.1_Silent_p.T453T|DISC1_uc010pws.1_Silent_p.T453T|DISC1_uc010pwt.1_Silent_p.T453T|DISC1_uc010pwu.1_Silent_p.T103T|DISC1_uc010pwv.1_RNA|DISC1_uc010pww.1_Silent_p.T453T|DISC1_uc010pwx.1_RNA|DISC1_uc010pwy.1_RNA|DISC1_uc010pwz.1_RNA|DISC1_uc010pxa.1_RNA|DISC1_uc001huy.2_Silent_p.T453T|DISC1_uc010pxb.1_Silent_p.T453T|DISC1_uc010pxc.1_Silent_p.T453T|DISC1_uc010pxd.1_Silent_p.T98T|DISC1_uc010pxe.1_Silent_p.T453T|DISC1_uc009xfr.2_Silent_p.T408T|DISC1_uc010pxf.1_Silent_p.T453T|DISC1_uc010pxg.1_Silent_p.T453T|DISC1_uc010pxh.1_Silent_p.T485T|DISC1_uc010pxi.1_RNA|DISC1_uc010pxj.1_Silent_p.T98T|DISC1_uc010pxk.1_RNA|DISC1_uc010pxl.1_RNA|DISC1_uc010pxm.1_Intron|DISC1_uc010pxn.1_Silent_p.T98T|DISC1_uc001hva.2_Silent_p.T453T	NM_018662	NP_061132	Q9NRI5	DISC1_HUMAN	disrupted in schizophrenia 1 isoform L	453	Potential.|Necessary and sufficient for interaction with PCNT and localization at the centrosome.|Interaction with TRAF3IP1.|Required for localization to punctate cytoplasmic foci.				microtubule cytoskeleton organization|neuron migration|positive regulation of neuroblast proliferation|positive regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	centrosome|microtubule	protein binding			skin(1)	1		all_cancers(173;0.0208)|Prostate(94;0.0975)				TGTCCATCACGAGACGAGACT	0.463													24	48					0	0	1	0	0		A	231902976	A	A	231902976	2	1	70	1	0	0	0	0	0	0	0	1	4544	1045	37	1		1	DISC1	1	231902976	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2217972	231902976	17347645	95	46111											
KIAA1383	54627	broad.mit.edu	37	chr1	232942451	232942451	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgacaagtcctgctcataTacatcctcacctagcctggt	9	12	7	13	0	2	1	2	1	0	0	4	1	4	1	4	1	3	1	4	1	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:232942451T>C	uc001hvh.2	+	1	1814	c.1682T>C	c.(1681-1683)ATA>ACA	p.I561T		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	419										ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				CCTGCTCATATACATCCTCAC	0.418													4	43					0	0	1	0	0		C	232942451	C	C	232942451	3	2	70	1	0	0	0	0	1	0	0	0	8244	1406	49	3	1684	3	KIAA1383	1	232942451	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1039475	232942451	16308170	96	46112											
KCNK1	3775	broad.mit.edu	37	chr1	233802686	233802686	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgggggattatgtgcctgGggaaggctacaatcaaaaat	12	9	13	7	0	1	0	1	0	0	0	1	2	1	2	2	5	2	1	2	5	6	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:233802686G>T	uc010pxo.1	+	2	869	c.701G>T	c.(700-702)GGG>GTG	p.G234V	KCNK1_uc001hvw.2_RNA|KCNK1_uc001hvx.2_RNA	NM_002245	NP_002236	O00180	KCNK1_HUMAN	potassium channel, subfamily K, member 1	234						voltage-gated potassium channel complex	inward rectifier potassium channel activity			central_nervous_system(1)	1		all_cancers(173;0.00217)|all_epithelial(177;0.121)|Prostate(94;0.122)|Acute lymphoblastic leukemia(190;0.175)			Ibutilide(DB00308)|Quinidine(DB00908)	TATGTGCCTGGGGAAGGCTAC	0.443													22	44					1.28384e-07	1.33231e-07	1	1	0		T	233802686	T	T	233802686	3	4	70	1	0	0	0	0	1	0	0	0	8074	1232	43	5	707	5	KCNK1	1	233802686	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	860235	233802686	15447935	97	46113											
NID1	4811	broad.mit.edu	37	chr1	236201453	236201453	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtatagccagcgacacagctGcagcagaagcccgtggcgta	11	5	13	12	3	0	1	0	0	0	1	0	2	0	1	2	1	6	5	2	1	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:236201453G>T	uc001hxo.2	-	5	1338	c.1236C>A	c.(1234-1236)TGC>TGA	p.C412*	NID1_uc009xgd.2_Nonsense_Mutation_p.C412*	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	412	EGF-like 1.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	CGACACAGCTGCAGCAGAAGC	0.537													40	62					1.04594e-18	1.13018e-18	1	1	0		T	236201453	T	T	236201453	4	4	70	1	0	0	0	0	0	1	0	0	10433	1311	46	5	2571	5	NID1	1	236201453	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2398767	236201453	13049168	98	46114											
RYR2	6262	broad.mit.edu	37	chr1	237936847	237936847	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagtgacttttattggtatTactctgggaaagatgttatt	10	19	9	3	0	1	2	0	1	1	1	1	3	1	3	0	2	1	2	0	2	6	8			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:237936847T>C	uc001hyl.1	+	87	11794	c.11674T>C	c.(11674-11676)TAC>CAC	p.Y3892H	RYR2_uc010pya.1_Missense_Mutation_p.Y307H	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3892					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTATTGGTATTACTCTGGGAA	0.338													12	25					0	0	1	0	0		C	237936847	C	C	237936847	3	2	70	1	0	0	0	0	1	0	0	0	13794	1754	61	3	12020	3	RYR2	1	237936847	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1735394	237936847	11313774	99	46115											
CNST	163882	broad.mit.edu	37	chr1	246755187	246755187	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgggaaaggacaaaaaaaTtcctggaaaaagaagtccaa	20	6	9	6	0	0	1	0	0	0	1	2	4	2	4	2	3	0	0	2	3	8	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:246755187T>A	uc001ibp.2	+	2	701	c.323T>A	c.(322-324)ATT>AAT	p.I108N	CNST_uc001ibo.3_Missense_Mutation_p.I108N	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	108					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						GACAAAAAAATTCCTGGAAAA	0.398													13	23					0	0	1	0	0		A	246755187	A	A	246755187	3	1	70	1	0	0	0	0	1	0	0	0	3637	1493	52	5	325	5	CNST	1	246755187	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	8818340	246755187	2495434	100	46116											
OR2M7	391196	broad.mit.edu	37	chr1	248487774	248487774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaggccactgaaaagatggCcaggaccagaaagaagagga	18	2	14	7	0	0	5	0	1	0	4	0	8	0	7	3	4	0	0	3	4	5	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr1:248487774C>T	uc010pzk.1	-	1	97	c.97G>A	c.(97-99)GCC>ACC	p.A33T		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	33	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GAAAAGATGGCCAGGACCAGA	0.517													128	217					0	0	1	0	0		T	248487774	T	T	248487774	3	4	70	1	0	0	0	0	1	0	0	0	11033	739	26	2	844	2	OR2M7	1	248487774	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1732587	248487774	762847	101	46117											
COLEC11	78989	broad.mit.edu	37	chr2	3651971	3651971	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggcgttctaatcagccTggccttcctgtcactgctgc	4	12	12	13	1	3	0	2	0	1	0	4	0	4	0	3	3	3	2	3	3	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:3651971T>C	uc002qya.2	+	2	189	c.41T>C	c.(40-42)CTG>CCG	p.L14P	COLEC11_uc002qxz.2_5'UTR|COLEC11_uc002qyb.2_Missense_Mutation_p.L14P|COLEC11_uc002qyc.2_Missense_Mutation_p.L14P|COLEC11_uc010ewo.2_Missense_Mutation_p.L14P|COLEC11_uc010ewp.2_5'Flank|COLEC11_uc010ewq.2_5'Flank|COLEC11_uc010ewr.2_5'Flank|COLEC11_uc010ews.2_5'Flank	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	14						collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		CTAATCAGCCTGGCCTTCCTG	0.592													42	74					0	0	1	0	0		C	3651971	C	C	3651971	3	2	70	1	0	0	0	0	1	0	0	0	3714	1580	55	3	43	3	COLEC11	2	3651971	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08		3651971	239547402	102	46118											
RNF144A	9781	broad.mit.edu	37	chr2	7137076	7137076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgaccacaacaaggtacCggcccacctgggacctggcc	10	4	11	16	2	0	1	0	1	0	0	0	3	0	2	6	4	2	1	6	4	3	1	rs151171616		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:7137076C>T	uc002qys.2	+	3	461	c.19C>T	c.(19-21)CGG>TGG	p.R7W	RNF144A_uc002qyt.2_Intron	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	7						Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		AACAAGGTACCGGCCCACCTG	0.597													7	43					0	0	1	0	0		T	7137076	T	T	7137076	3	4	70	1	0	0	0	0	1	0	0	0	13470	643	23	1	21	1	RNF144A	2	7137076	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3485105	7137076	236062297	103	46119											
GREB1	9687	broad.mit.edu	37	chr2	11759033	11759033	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccgcaggctgctgctcagCggcccccctcaggtgagtgt	4	7	13	17	2	2	1	2	1	0	0	2	1	2	1	5	3	3	4	5	3	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:11759033C>T	uc002rbk.1	+	22	4332	c.4032C>T	c.(4030-4032)AGC>AGT	p.S1344S	GREB1_uc002rbp.1_Silent_p.S342S	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1344						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		TGCTGCTCAGCGGCCCCCCTC	0.726													5	6					0	0	1	0	0		T	11759033	T	T	11759033	2	4	70	1	0	0	0	0	0	0	0	1	6776	767	27	1		1	GREB1	2	11759033	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4621957	11759033	231440340	104	46120											
LPIN1	23175	broad.mit.edu	37	chr2	11928551	11928551	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcacccctcctcctggCaatgcaggccttccagaaac	10	6	8	17	0	0	1	0	0	0	1	3	1	3	1	6	2	4	4	6	2	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:11928551C>A	uc010yjn.1	+	12	1848	c.1574C>A	c.(1573-1575)GCA>GAA	p.A525E	LPIN1_uc010yjm.1_Missense_Mutation_p.A610E|LPIN1_uc002rbt.2_Missense_Mutation_p.A525E|LPIN1_uc010yjo.1_5'UTR	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	525					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		CTCCTCCTGGCAATGCAGGCC	0.428													25	56					1.1804e-14	1.26696e-14	1	1	0		A	11928551	A	A	11928551	3	1	70	1	0	0	0	0	1	0	0	0	8936	710	25	5	1612	5	LPIN1	2	11928551	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	169518	11928551	231270822	105	46121											
NBAS	51594	broad.mit.edu	37	chr2	15493765	15493765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaagccatgagctcttgaCgagtggccaagtcctggtaa	12	8	11	10	1	1	2	0	2	1	0	2	3	2	2	3	2	2	2	3	2	4	2	rs140188229		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:15493765C>T	uc002rcc.1	-	34	4027	c.4001G>A	c.(4000-4002)CGT>CAT	p.R1334H	NBAS_uc010exl.1_Missense_Mutation_p.R406H|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1334										ovary(2)|liver(1)|skin(1)	4						GAGCTCTTGACGAGTGGCCAA	0.453													55	82					0	0	1	0	0		T	15493765	T	T	15493765	3	4	70	1	0	0	0	0	1	0	0	0	10204	536	19	1	3190	1	NBAS	2	15493765	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3565214	15493765	227705608	106	46122											
APOB	338	broad.mit.edu	37	chr2	21225676	21225676	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctagtgtatatcccaggtttCcccggaaactggaatctggg	9	11	11	10	1	1	0	0	0	1	0	3	2	3	2	3	4	1	2	3	4	5	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:21225676C>T	uc002red.2	-	29	12746	c.12618G>A	c.(12616-12618)GGG>GGA	p.G4206G		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	4206					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TCCCAGGTTTCCCCGGAAACT	0.438													27	53					0	0	1	0	0		T	21225676	T	T	21225676	2	4	70	1	0	0	0	0	0	0	0	1	785	842	30	4		4	APOB	2	21225676	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	5731911	21225676	221973697	107	46123											
C2orf84	653140	broad.mit.edu	37	chr2	24398355	24398355	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggattctcctgtccatggcTgccaccaaaactgcgagtta	9	10	10	12	1	1	0	0	0	1	0	3	2	2	1	4	2	3	2	4	2	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:24398355T>C	uc002rfc.2	+	2	92	c.6T>C	c.(4-6)GCT>GCC	p.A2A	C2orf84_uc010eyc.2_RNA	NM_001040710	NP_001035800	Q86W67	CB084_HUMAN	hypothetical protein LOC653140	2											0						TGTCCATGGCTGCCACCAAAA	0.502													18	21					0	0	1	0	0		C	24398355	C	C	24398355	2	2	70	1	0	0	0	0	0	0	0	1	2202	1567	55	3		3	C2orf84	2	24398355	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	3172679	24398355	218801018	108	46124											
TTC27	55622	broad.mit.edu	37	chr2	33002975	33002975	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggttttctctcggttgTgcctatttggccttggaaga	4	17	13	7	1	1	1	0	0	1	1	3	2	1	2	2	4	1	2	2	4	2	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:33002975T>C	uc002rom.2	+	14	1938	c.1707T>C	c.(1705-1707)TGT>TGC	p.C569C	TTC27_uc010ymx.1_Silent_p.C519C|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	569	HAT 1.|TPR 4.						protein binding			central_nervous_system(1)	1						CTCTCGGTTGTGCCTATTTGG	0.408													14	34					0	0	1	0	0		C	33002975	C	C	33002975	2	2	70	1	0	0	0	0	0	0	0	1	16721	1702	59	3		3	TTC27	2	33002975	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	8604620	33002975	210196398	109	46125											
STRN	6801	broad.mit.edu	37	chr2	37132704	37132704	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgagtagttgtcgacctTgtttccacattaactggctg	7	15	10	9	1	1	1	0	1	1	0	3	2	2	1	2	1	1	4	2	1	2	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:37132704T>C	uc002rpn.2	-	4	479	c.470A>G	c.(469-471)CAA>CGA	p.Q157R	STRN_uc010ezx.2_Missense_Mutation_p.Q157R	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	157	Calmodulin-binding (Potential).				dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				TTGTCGACCTTGTTTCCACAT	0.338													35	86					0	0	1	0	0		C	37132704	C	C	37132704	3	2	70	1	0	0	0	0	1	0	0	0	15354	1812	63	3	1932	3	STRN	2	37132704	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	4129729	37132704	206066669	110	46126											
CDC42EP3	10602	broad.mit.edu	37	chr2	37873629	37873629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtggcgaaagtctccaagCgggggactgatcatatcagg	10	8	15	8	2	3	1	2	1	1	0	4	3	3	2	1	4	1	0	1	4	3	1	rs7560028		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:37873629C>T	uc002rqi.1	-	2	1095	c.102G>A	c.(100-102)CCG>CCA	p.P34P		NM_006449	NP_006440	Q9UKI2	BORG2_HUMAN	Cdc42 effector protein 3	34	CRIB.				regulation of cell shape|signal transduction	actin cytoskeleton|cytoplasm|endomembrane system|membrane	cytoskeletal regulatory protein binding				0		all_hematologic(82;0.172)				AGTCTCCAAGCGGGGGACTGA	0.463													18	161					0	0	1	0	0		T	37873629	T	T	37873629	2	4	70	1	0	0	0	0	0	0	0	1	3080	755	27	1		1	CDC42EP3	2	37873629	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	740925	37873629	205325744	111	46127											
CYP1B1	1545	broad.mit.edu	37	chr2	38298186	38298186	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctggatcaaagttctcCgggttaggccacttcactgg	8	10	12	11	2	3	0	2	0	1	0	4	2	3	1	2	4	1	3	2	4	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:38298186C>T	uc002rqo.2	-	4	1714	c.1311G>A	c.(1309-1311)CCG>CCA	p.P437P		NM_000104	NP_000095	Q16678	CP1B1_HUMAN	cytochrome P450, family 1, subfamily B,	437					visual perception|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			ovary(1)|central_nervous_system(1)	2		all_hematologic(82;0.21)			Estrone(DB00655)	CAAAGTTCTCCGGGTTAGGCC	0.507													26	36					0	0	1	0	0		T	38298186	T	T	38298186	2	4	70	1	0	0	0	0	0	0	0	1	4154	639	23	1		1	CYP1B1	2	38298186	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	424557	38298186	204901187	112	46128											
OXER1	165140	broad.mit.edu	37	chr2	42990345	42990345	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtccagggatcggcaggcGgacagccagaaagccaccat	12	3	14	12	2	0	1	0	0	0	1	2	3	1	3	4	5	2	1	4	5	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:42990345G>A	uc002rss.2	-	1	1057	c.975C>T	c.(973-975)TCC>TCT	p.S325S		NM_148962	NP_683765	Q8TDS5	OXER1_HUMAN	G-protein coupled receptor TG1019	325	Extracellular (Potential).				regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	5(S)-hydroxyperoxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding|5-hydroxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding|5-oxo-6E,8Z,11Z,14Z-icosatetraenoic acid binding|G-protein coupled receptor activity			breast(1)	1						ATCGGCAGGCGGACAGCCAGA	0.597													5	11					0	0	1	0	0		A	42990345	A	A	42990345	2	1	70	1	0	0	0	0	0	0	0	1	11350	1103	39	1		1	OXER1	2	42990345	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4692159	42990345	200209028	113	46129											
PRKCE	5581	broad.mit.edu	37	chr2	46386829	46386830	+	Frame_Shift_Del	DEL	AA	-	-																															tcaagcagcacccattcttcAaagagattgactgggtgctc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:46386829_46386830delAA	uc002rut.2	+	14	2202_2203	c.2005_2006delAA	c.(2005-2007)AAAfs	p.K669fs		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	669	AGC-kinase C-terminal.				activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			CCCATTCTTCAAAGAGATTGAC	0.559													43	73	---	---	---	---						.	-	46386830	-	-	46386829	7	5	70	1	0	1	0	1	0	0	0	0	12533	131	5	0	2059	0	PRKCE	2	46386829	Frame_Shift_Del	DEL	AA	TCGA-BR-8368-01A-11D-2340-08	3396484	46386829	196812544	114	46130											
SOCS5	9655	broad.mit.edu	37	chr2	46986977	46986977	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgagcagtggaatcacaaCtttagtttcgacgcccatga	12	11	9	9	2	1	2	1	2	0	0	2	4	1	3	1	1	2	2	1	1	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:46986977C>G	uc002rvf.2	+	2	1472	c.1308C>G	c.(1306-1308)AAC>AAG	p.N436K	SOCS5_uc010yoe.1_Missense_Mutation_p.N405K|SOCS5_uc002rvg.2_Missense_Mutation_p.N436K	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	436	SH2.				cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			GGAATCACAACTTTAGTTTCG	0.478													44	103					0	0	1	0	0		G	46986977	G	G	46986977	3	3	70	1	0	0	0	0	1	0	0	0	14942	564	20	5	1310	5	SOCS5	2	46986977	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	600148	46986977	196212396	115	46131											
ASB3	51130	broad.mit.edu	37	chr2	53927569	53927569	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaaaaagtagcgaaatatCgaaaacttctcgtacttcag	16	10	6	9	3	3	0	2	0	1	0	5	2	3	0	0	0	3	2	0	0	8	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:53927569C>T	uc002rxg.1	-	8	1212	c.1077G>A	c.(1075-1077)TCG>TCA	p.S359S	ASB3_uc002rxh.1_Silent_p.S286S|ASB3_uc002rxi.3_Silent_p.S397S|ASB3_uc002rxf.1_RNA	NM_016115	NP_057199	Q9Y575	ASB3_HUMAN	ankyrin repeat and SOCS box-containing protein 3	359	ANK 11.				intracellular signal transduction					ovary(1)|kidney(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			AGCGAAATATCGAAAACTTCT	0.363													32	65					0	0	1	0	0		T	53927569	T	T	53927569	2	4	70	1	0	0	0	0	0	0	0	1	1025	871	31	1		1	ASB3	2	53927569	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	6940592	53927569	189271804	116	46132											
RTN4	57142	broad.mit.edu	37	chr2	55254522	55254522	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcggctgagagaggagacAgagaaggaagagaagcagca	18	1	17	5	1	0	5	0	1	0	4	0	10	0	6	0	3	3	3	0	3	4	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:55254522A>G	uc002rye.2	-	3	1011	c.713T>C	c.(712-714)CTG>CCG	p.L238P	RTN4_uc002ryd.2_Missense_Mutation_p.L32P|RTN4_uc002ryf.2_Intron|RTN4_uc002ryg.2_Intron	NM_020532	NP_065393	Q9NQC3	RTN4_HUMAN	reticulon 4 isoform A	238	Cytoplasmic (Potential).				apoptosis|axonal fasciculation|cerebral cortex radial glia guided migration|endoplasmic reticulum tubular network organization|negative regulation of anti-apoptosis|negative regulation of axon extension|nerve growth factor receptor signaling pathway|regulation of apoptosis|regulation of branching morphogenesis of a nerve|regulation of cell migration	integral to endoplasmic reticulum membrane|nuclear envelope|plasma membrane	protein binding			ovary(2)|large_intestine(1)	3						GAGAGGAGACAGAGAAGGAAG	0.433													25	44					0	0	1	0	0		G	55254522	G	G	55254522	3	3	70	1	0	0	0	0	1	0	0	0	13753	188	7	3	2931	3	RTN4	2	55254522	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	1326953	55254522	187944851	117	46133											
PELI1	57162	broad.mit.edu	37	chr2	64331929	64331931	+	In_Frame_Del	DEL	CTT	-	-																															aagcaaacctacttttcctcCttcctctatcgccatttggg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:64331929_64331931delCTT	uc002scs.3	-	2	4144_4146	c.105_107delAAG	c.(103-108)GGAAGG>GGG	p.R37del	PELI1_uc002sct.3_In_Frame_Del_p.R37del|PELI1_uc002scu.1_RNA	NM_020651	NP_065702	Q96FA3	PELI1_HUMAN	pellino protein	37					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol				ovary(1)	1						ACTTTTCCTCCTTCCTCTATCGC	0.414													19	29	---	---	---	---						.	-	64331931	-	-	64331929	7	5	70	1	0	1	0	1	0	0	0	0	11740	681	24	0	1169	0	PELI1	2	64331929	In_Frame_Del	DEL	CTT	TCGA-BR-8368-01A-11D-2340-08	9077407	64331929	178867444	118	46134											
HSPC159	29094	broad.mit.edu	37	chr2	64685463	64685463	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttccgagtgtttgtggaTggacaccaactttttgattt	7	17	10	7	2	0	1	0	1	0	0	1	4	1	3	2	2	1	2	2	2	1	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:64685463T>C	uc002scy.3	+	5	773	c.420T>C	c.(418-420)GAT>GAC	p.D140D		NM_014181	NP_054900	Q3ZCW2	LEGL_HUMAN	galectin-related protein	140	Galectin.					intracellular	sugar binding				0						TGTTTGTGGATGGACACCAAC	0.398													83	117					0	0	1	0	0		C	64685463	C	C	64685463	2	2	70	1	0	0	0	0	0	0	0	1	7443	1461	51	3		3	HSPC159	2	64685463	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	353534	64685463	178513910	119	46135											
GFPT1	2673	broad.mit.edu	37	chr2	69577301	69577301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagagagattgcagcttcCtttcttgtctttgcctaaag	9	14	9	9	1	2	2	0	0	2	2	3	4	3	2	2	0	3	2	2	0	2	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:69577301C>T	uc002sfh.2	-	9	879	c.700G>A	c.(700-702)GGA>AGA	p.G234R	GFPT1_uc002sfi.1_Missense_Mutation_p.G94R	NM_002056	NP_002047	Q06210	GFPT1_HUMAN	glucosamine-fructose-6-phosphate	252	Glutamine amidotransferase type-2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			skin(1)	1						TTGCAGCTTCCTTTCTTGTCT	0.388													15	27					0	0	1	0	0		T	69577301	T	T	69577301	3	4	70	1	0	0	0	0	1	0	0	0	6360	690	24	4	1389	4	GFPT1	2	69577301	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4891838	69577301	173622072	120	46136											
ANXA4	307	broad.mit.edu	37	chr2	70033528	70033528	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattgcaggacttgatagaCgacctgaagtcagaactgag	13	8	12	8	1	1	5	1	3	0	2	1	7	1	6	1	1	2	2	1	1	3	3	rs148077345	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:70033528C>T	uc002sfr.3	+	5	431	c.204C>T	c.(202-204)GAC>GAT	p.D68D	ANXA4_uc010yqn.1_RNA|ANXA4_uc002sfs.3_Silent_p.D68D|ANXA4_uc010yqo.1_Translation_Start_Site	NM_001153	NP_001144	P09525	ANXA4_HUMAN	annexin IV	66	Annexin 1.				anti-apoptosis|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity				0						ACTTGATAGACGACCTGAAGT	0.403													17	26					0	0	1	0	0		T	70033528	T	T	70033528	2	4	70	1	0	0	0	0	0	0	0	1	720	535	19	1		1	ANXA4	2	70033528	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	456227	70033528	173165845	121	46137											
PCYOX1	51449	broad.mit.edu	37	chr2	70502205	70502205	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaacacttcttgaaaccttGcaaaaggccggcttttctga	11	11	8	11	2	2	2	0	2	2	0	2	3	2	2	2	2	3	2	2	2	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:70502205G>A	uc002sgn.3	+	4	675	c.609G>A	c.(607-609)TTG>TTA	p.L203L	PCYOX1_uc010fdo.2_Silent_p.L126L|PCYOX1_uc010yqu.1_Silent_p.L185L	NM_016297	NP_057381	Q9UHG3	PCYOX_HUMAN	prenylcysteine oxidase 1 precursor	203					prenylated protein catabolic process	lysosome|very-low-density lipoprotein particle	prenylcysteine oxidase activity			central_nervous_system(1)	1						TTGAAACCTTGCAAAAGGCCG	0.428													15	141					0	0	1	0	0		A	70502205	A	A	70502205	2	1	70	1	0	0	0	0	0	0	0	1	11627	1310	46	2		2	PCYOX1	2	70502205	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	468677	70502205	172697168	122	46138											
ZNF638	27332	broad.mit.edu	37	chr2	71576560	71576560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacctagaagaacttagtcGctatcctgatgaacaactaa	16	9	7	9	1	0	5	0	2	0	3	2	5	1	5	2	0	3	1	2	0	8	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:71576560G>A	uc002shx.2	+	2	795	c.476G>A	c.(475-477)CGC>CAC	p.R159H	ZNF638_uc010fec.2_Missense_Mutation_p.R265H|ZNF638_uc010yqw.1_Intron|ZNF638_uc002shw.2_Missense_Mutation_p.R159H|ZNF638_uc002shy.2_Missense_Mutation_p.R159H|ZNF638_uc002shz.2_Missense_Mutation_p.R159H|ZNF638_uc002sia.2_Missense_Mutation_p.R159H|ZNF638_uc002sib.1_Missense_Mutation_p.R159H	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	159					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						GAACTTAGTCGCTATCCTGAT	0.398													30	55					0	0	1	0	0		A	71576560	A	A	71576560	3	1	70	1	0	0	0	0	1	0	0	0	18080	1087	38	1	478	1	ZNF638	2	71576560	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1074355	71576560	171622813	123	46139											
CCT7	10574	broad.mit.edu	37	chr2	73477497	73477497	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcattctccgtggcggcgcCgagcagtttatggaggagac	7	10	14	10	4	2	1	1	0	1	1	3	4	2	2	2	4	1	2	2	4	1	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:73477497C>T	uc002siz.2	+	10	1236	c.1134C>T	c.(1132-1134)GCC>GCT	p.A378A	CCT7_uc002sja.2_Silent_p.A174A|CCT7_uc010yrf.1_Silent_p.A334A|CCT7_uc010feu.2_Silent_p.A336A|CCT7_uc010yrg.1_Silent_p.A278A|CCT7_uc010yrh.1_Silent_p.A250A|CCT7_uc010yri.1_Silent_p.A291A	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	378					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						GTGGCGGCGCCGAGCAGTTTA	0.522													53	95					0	0	1	0	0		T	73477497	T	T	73477497	2	4	70	1	0	0	0	0	0	0	0	1	2962	639	23	1		1	CCT7	2	73477497	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1900937	73477497	169721876	124	46140											
KDM3A	55818	broad.mit.edu	37	chr2	86669239	86669239	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctcagtctgtccgcagcCgacggcagcgatggcagcca	7	8	12	14	4	2	0	1	0	2	0	4	2	3	0	3	2	3	3	3	2	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:86669239C>T	uc002sri.3	+	2	396	c.69C>T	c.(67-69)GCC>GCT	p.A23A	KDM3A_uc010ytj.1_Silent_p.A23A|KDM3A_uc010ytk.1_Silent_p.A23A	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	23					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						TGTCCGCAGCCGACGGCAGCG	0.637													19	35					0	0	1	0	0		T	86669239	T	T	86669239	2	4	70	1	0	0	0	0	0	0	0	1	8142	639	23	1		1	KDM3A	2	86669239	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	13191742	86669239	156530134	125	46141											
KDM3A	55818	broad.mit.edu	37	chr2	86705071	86705071	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcgacaccaccatcttcAacctgcactgggtgtgtcct	7	11	9	14	1	2	0	1	0	1	0	3	1	3	0	4	1	3	1	4	1	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:86705071A>G	uc002sri.3	+	13	2338	c.2011A>G	c.(2011-2013)AAC>GAC	p.N671D	KDM3A_uc010ytj.1_Missense_Mutation_p.N671D|KDM3A_uc010ytk.1_Missense_Mutation_p.N619D	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	671	C6-type (Potential).				androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						CACCATCTTCAACCTGCACTG	0.478													44	71					0	0	1	0	0		G	86705071	G	G	86705071	3	3	70	1	0	0	0	0	1	0	0	0	8142	130	5	3	2057	3	KDM3A	2	86705071	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	35832	86705071	156494302	126	46142											
TEKT4	150483	broad.mit.edu	37	chr2	95537341	95537341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatggcgcagacagtgcCgccctgcgagctgccctgca	7	5	12	17	3	0	1	0	0	0	1	0	2	0	1	4	1	5	3	4	1	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:95537341C>T	uc002stw.1	+	1	110	c.17C>T	c.(16-18)CCG>CTG	p.P6L	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	6					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						CAGACAGTGCCGCCCTGCGAG	0.692													4	8					0	0	1	0	0		T	95537341	T	T	95537341	3	4	70	1	0	0	0	0	1	0	0	0	15780	652	23	1	19	1	TEKT4	2	95537341	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	8832270	95537341	147662032	127	46143											
CNGA3	1261	broad.mit.edu	37	chr2	98996645	98996645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaccttccaggctgtcgCgcctcatcttcttgctgcgc	3	13	9	16	3	4	0	2	0	2	0	6	0	5	0	3	1	2	2	3	1	0	3	rs77733216		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:98996645C>T	uc002syt.2	+	4	640	c.223C>T	c.(223-225)CGC>TGC	p.R75C	CNGA3_uc002syu.2_Missense_Mutation_p.R75C|CNGA3_uc010fij.2_Missense_Mutation_p.R79C	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	75					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						CAGGCTGTCGCGCCTCATCTT	0.527													22	35					0	0	1	0	0		T	98996645	T	T	98996645	3	4	70	1	0	0	0	0	1	0	0	0	3601	768	27	1	233	1	CNGA3	2	98996645	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3459304	98996645	144202728	128	46144											
POU3F3	5455	broad.mit.edu	37	chr2	105473199	105473199	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcaagcgcaagaagcggAcctctatcgaggtgagcgtc	10	5	14	12	5	1	2	0	1	1	1	3	4	1	3	2	2	3	2	2	2	4	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:105473199A>G	uc010ywg.1	+	1	1231	c.1231A>G	c.(1231-1233)ACC>GCC	p.T411A		NM_006236	NP_006227	P20264	PO3F3_HUMAN	POU class 3 homeobox 3	411	Homeobox.				metanephric ascending thin limb development|metanephric DCT cell differentiation|metanephric macula densa development|metanephric thick ascending limb development|negative regulation of apoptosis|positive regulation of cell proliferation	nucleus	sequence-specific DNA binding			ovary(1)	1						CAAGAAGCGGACCTCTATCGA	0.657													9	22					0	0	1	0	0		G	105473199	G	G	105473199	3	3	70	1	0	0	0	0	1	0	0	0	12295	275	10	3	1233	3	POU3F3	2	105473199	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	6476554	105473199	137726174	129	46145											
RANBP2	5903	broad.mit.edu	37	chr2	109389413	109389413	+	Frame_Shift_Del	DEL	T	-	-																															cgttaaaacttccacctacaTttttttgtggagtctgtagt																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:109389413delT	uc002tem.3	+	23	8329	c.8203delT	c.(8203-8205)TTTfs	p.F2735fs		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2735	Interaction with SUMO1.|2 X 50 AA approximate repeats.|2.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TCCACCTACATTTTTTTGTGG	0.358													17	34	---	---	---	---						.	-	109389413	-	-	109389413	7	5	70	1	0	1	0	1	0	0	0	0	13053	1493	52	0	8293	0	RANBP2	2	109389413	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	3916214	109389413	133809960	130	46146											
IL1B	3553	broad.mit.edu	37	chr2	113591057	113591057	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatggccacaacaactgaCgcggcctgcctgaagccctt	9	7	9	16	2	0	2	0	2	0	0	1	2	1	2	5	2	4	0	5	2	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:113591057C>T	uc002tii.1	-	4	282	c.195G>A	c.(193-195)GCG>GCA	p.A65A	IL1B_uc002tih.1_Silent_p.A34A	NM_000576	NP_000567	P01584	IL1B_HUMAN	interleukin 1, beta proprotein	65					activation of MAPK activity|anti-apoptosis|apoptosis|cell-cell signaling|cellular response to drug|cellular response to mechanical stimulus|cytokine-mediated signaling pathway|embryo implantation|fever generation|negative regulation of adiponectin secretion|negative regulation of cell proliferation|negative regulation of glucose transport|negative regulation of insulin receptor signaling pathway|negative regulation of lipid catabolic process|negative regulation of MAP kinase activity|positive regulation of angiogenesis|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of cell adhesion molecule production|positive regulation of cell division|positive regulation of fever generation|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of heterotypic cell-cell adhesion|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of interferon-gamma production|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of lipid catabolic process|positive regulation of membrane protein ectodomain proteolysis|positive regulation of mitosis|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myosin light chain kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|positive regulation of protein export from nucleus|positive regulation of T cell proliferation|positive regulation vascular endothelial growth factor production|regulation of insulin secretion|sequestering of triglyceride|smooth muscle adaptation	cytosol|extracellular space	cytokine activity|growth factor activity|interleukin-1 receptor binding|protein domain specific binding			lung(3)|breast(1)	4					Anakinra(DB00026)|Minocycline(DB01017)|Procaterol(DB01366)	CAACAACTGACGCGGCCTGCC	0.582													41	69					0	0	1	0	0		T	113591057	T	T	113591057	2	4	70	1	0	0	0	0	0	0	0	1	7667	523	19	1		1	IL1B	2	113591057	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4201644	113591057	129608316	131	46147											
IL1F7	27178	broad.mit.edu	37	chr2	113676235	113676235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctggaacatgctggagtCggcggctcaccccggatggt	6	8	14	13	3	1	0	1	0	0	0	3	3	2	3	3	6	2	2	3	6	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:113676235C>T	uc002tij.2	+	5	548	c.506C>T	c.(505-507)TCG>TTG	p.S169L	IL1F7_uc002tik.2_Missense_Mutation_p.S148L|IL1F7_uc002til.2_Missense_Mutation_p.S129L|IL1F7_uc002tim.2_Missense_Mutation_p.S108L|IL1F7_uc002tin.2_Missense_Mutation_p.S143L	NM_014439	NP_055254	Q9NZH6	IL37_HUMAN	interleukin 1 family, member 7 isoform 1	169					immune response	cytosol|extracellular space|nucleus	cytokine activity|interleukin-1 receptor antagonist activity|interleukin-1 receptor binding				0						ATGCTGGAGTCGGCGGCTCAC	0.507													20	39					0	0	1	0	0		T	113676235	T	T	113676235	3	4	70	1	0	0	0	0	1	0	0	0	7671	893	31	1	595	1	IL1F7	2	113676235	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	85178	113676235	129523138	132	46148											
C1QL2	165257	broad.mit.edu	37	chr2	119915212	119915212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggtgccgtcgccgccgcGcatgaggatgtggtaggtga	5	8	18	10	5	0	2	0	2	0	0	1	3	0	3	3	4	1	3	3	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:119915212G>A	uc002tlo.2	-	1	1260	c.634C>T	c.(634-636)CGC>TGC	p.R212C		NM_182528	NP_872334	Q7Z5L3	C1QL2_HUMAN	complement component 1, q subcomponent-like 2	212	C1q.					collagen				pancreas(1)	1						TCGCCGCCGCGCATGAGGATG	0.637										HNSCC(49;0.14)			5	27					0	0	1	0	0		A	119915212	A	A	119915212	3	1	70	1	0	0	0	0	1	0	0	0	1962	1087	38	1	237	1	C1QL2	2	119915212	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6238977	119915212	123284161	133	46149											
C1QL2	165257	broad.mit.edu	37	chr2	119915381	119915381	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaaggcgatcttggggccGctgaaggtggcgctcagcgc	7	7	17	10	4	2	2	1	1	1	1	2	3	2	2	1	5	1	2	1	5	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:119915381G>A	uc002tlo.2	-	1	1091	c.465C>T	c.(463-465)AGC>AGT	p.S155S		NM_182528	NP_872334	Q7Z5L3	C1QL2_HUMAN	complement component 1, q subcomponent-like 2	155	C1q.					collagen				pancreas(1)	1						TCTTGGGGCCGCTGAAGGTGG	0.657										HNSCC(49;0.14)			4	8					0	0	1	0	0		A	119915381	A	A	119915381	2	1	70	1	0	0	0	0	0	0	0	1	1962	1078	38	1		1	C1QL2	2	119915381	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	169	119915381	123283992	134	46150											
INHBB	3625	broad.mit.edu	37	chr2	121104067	121104067	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcacgccgtgcctaaggcCgccatggtcacggccctgcg	6	5	13	17	6	1	0	1	0	0	0	1	0	1	0	5	3	2	1	5	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:121104067C>T	uc002tmn.2	+	1	349	c.303C>T	c.(301-303)GCC>GCT	p.A101A		NM_002193	NP_002184	P09529	INHBB_HUMAN	inhibin beta B subunit preproprotein	101					activin receptor signaling pathway|cellular response to insulin stimulus|cellular response to starvation|defense response|fat cell differentiation|growth|negative regulation of follicle-stimulating hormone secretion|negative regulation of hepatocyte growth factor biosynthetic process|negative regulation of insulin secretion|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation	extracellular region|perinuclear region of cytoplasm	cytokine activity|growth factor activity|hormone activity|host cell surface receptor binding|protein homodimerization activity			pancreas(2)|skin(1)	3		Prostate(154;0.122)				TGCCTAAGGCCGCCATGGTCA	0.731													5	3					0	0	1	0	0		T	121104067	T	T	121104067	2	4	70	1	0	0	0	0	0	0	0	1	7758	639	23	1		1	INHBB	2	121104067	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1188686	121104067	122095306	135	46151											
GLI2	2736	broad.mit.edu	37	chr2	121726317	121726317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctccagcccgcgggtgaCgccccgcctgagccgcaagc	5	6	12	18	5	1	2	0	2	1	0	2	2	1	2	6	1	3	1	6	1	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:121726317C>T	uc010flp.2	+	5	701	c.671C>T	c.(670-672)ACG>ATG	p.T224M	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Intron|GLI2_uc002tmu.3_Intron|GLI2_uc002tmv.1_Silent_p.D94D|GLI2_uc010flo.1_Missense_Mutation_p.T99M|GLI2_uc002tmw.1_Missense_Mutation_p.T224M	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	224					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				CCGCGGGTGACGCCCCGCCTG	0.647													12	61					0	0	1	0	0		T	121726317	T	T	121726317	3	4	70	1	0	0	0	0	1	0	0	0	6453	536	19	1	689	1	GLI2	2	121726317	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	622250	121726317	121473056	136	46152											
LIMS2	55679	broad.mit.edu	37	chr2	128399650	128399650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccactgcttgcccagcgCgttgaccactcggccctcga	5	8	11	17	4	0	1	0	1	0	0	2	2	0	1	4	1	4	2	4	1	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:128399650C>T	uc002tpa.2	-	6	800	c.634G>A	c.(634-636)GCG>ACG	p.A212T	LIMS2_uc002tou.2_Missense_Mutation_p.A20T|LIMS2_uc002tov.2_Missense_Mutation_p.A60T|LIMS2_uc002tow.2_Missense_Mutation_p.A60T|LIMS2_uc002tox.2_Missense_Mutation_p.A236T|LIMS2_uc010fmb.2_Missense_Mutation_p.A122T|LIMS2_uc002toy.2_Missense_Mutation_p.A207T|LIMS2_uc010yzm.1_Missense_Mutation_p.A234T|LIMS2_uc002toz.2_Missense_Mutation_p.A207T|LIMS2_uc002tpb.2_Missense_Mutation_p.A207T	NM_001161403	NP_001154875	Q7Z4I7	LIMS2_HUMAN	LIM and senescent cell antigen-like domains 2	212	LIM zinc-binding 4.				cell junction assembly	cytosol|focal adhesion|nucleus	zinc ion binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0681)		TTGCCCAGCGCGTTGACCACT	0.667													7	10					0	0	1	0	0		T	128399650	T	T	128399650	3	4	70	1	0	0	0	0	1	0	0	0	8820	768	27	1	411	1	LIMS2	2	128399650	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	6673333	128399650	114799723	137	46153											
PLEKHB2	55041	broad.mit.edu	37	chr2	131883388	131883388	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcggatggtcacctgatcTattatgatgaccagactcgg	9	11	12	9	2	2	4	1	3	1	1	4	5	2	5	2	4	0	0	2	4	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:131883388T>C	uc002tsg.3	+	3	660	c.100T>C	c.(100-102)TAT>CAT	p.Y34H	PLEKHB2_uc002tsh.2_Missense_Mutation_p.Y34H|PLEKHB2_uc002tsj.3_Missense_Mutation_p.Y34H|PLEKHB2_uc002tsf.3_Missense_Mutation_p.Y34H|PLEKHB2_uc010zao.1_5'UTR|PLEKHB2_uc010zap.1_Missense_Mutation_p.Y34H|PLEKHB2_uc010zaq.1_Missense_Mutation_p.Y34H|PLEKHB2_uc002tsi.3_Missense_Mutation_p.Y75H	NM_001100623	NP_001094093	Q96CS7	PKHB2_HUMAN	pleckstrin homology domain containing, family B	34	PH.					membrane	protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.0828)		TCACCTGATCTATTATGATGA	0.443													38	55					0	0	1	0	0		C	131883388	C	C	131883388	3	2	70	1	0	0	0	0	1	0	0	0	12084	1522	53	3	106	3	PLEKHB2	2	131883388	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	3483738	131883388	111315985	138	46154											
LCT	3938	broad.mit.edu	37	chr2	136566101	136566101	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcagccccactccgttttcGgtgatgtaaatggggatgtc	7	12	12	10	2	1	1	1	1	0	0	4	2	2	2	3	3	1	2	3	3	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:136566101G>A	uc002tuu.1	-	8	3827	c.3816C>T	c.(3814-3816)ACC>ACT	p.T1272T		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1272	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CTCCGTTTTCGGTGATGTAAA	0.517													60	110					0	0	1	0	0		A	136566101	A	A	136566101	2	1	70	1	0	0	0	0	0	0	0	1	8709	1103	39	1		1	LCT	2	136566101	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4682713	136566101	106633272	139	46155											
KYNU	8942	broad.mit.edu	37	chr2	143718233	143718233	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggatatccttgaagtaaTtgagaaggaaggagactcaa	17	8	12	4	0	1	4	1	2	0	3	2	8	2	6	1	3	0	1	1	3	6	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:143718233T>A	uc002tvl.2	+	8	753	c.623T>A	c.(622-624)ATT>AAT	p.I208N	KYNU_uc002tvk.2_Missense_Mutation_p.I208N|KYNU_uc010fnm.2_Missense_Mutation_p.I208N	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	208					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	CTTGAAGTAATTGAGAAGGAA	0.368													19	48					0	0	1	0	0		A	143718233	A	A	143718233	3	1	70	1	0	0	0	0	1	0	0	0	8603	1493	52	5	649	5	KYNU	2	143718233	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	7152132	143718233	99481140	140	46156											
RIF1	55183	broad.mit.edu	37	chr2	152321548	152321548	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaaactttagagaggaaatTtgtgatatggattctagtga	14	14	11	2	0	1	3	0	2	1	1	1	6	1	5	0	2	1	1	0	2	6	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:152321548T>G	uc002txm.2	+	30	5644	c.5514T>G	c.(5512-5514)ATT>ATG	p.I1838M	RIF1_uc002txl.2_Missense_Mutation_p.I1838M|RIF1_uc002txn.2_Missense_Mutation_p.I1838M|RIF1_uc002txo.2_Missense_Mutation_p.I1838M|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	1838					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		GAGAGGAAATTTGTGATATGG	0.333													41	64					0	0	1	0	0		G	152321548	G	G	152321548	3	3	70	1	0	0	0	0	1	0	0	0	13384	1829	64	5	5628	5	RIF1	2	152321548	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	8603315	152321548	90877825	141	46157											
RIF1	55183	broad.mit.edu	37	chr2	152324631	152324631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctcccataggaaaaagtGttaaaacttctcctactaca	14	12	5	10	0	2	0	0	0	2	0	4	1	2	1	2	1	3	2	2	1	7	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:152324631G>A	uc002txm.2	+	31	6848	c.6718G>A	c.(6718-6720)GTT>ATT	p.V2240I	RIF1_uc002txl.2_Missense_Mutation_p.V2240I|RIF1_uc002txn.2_Missense_Mutation_p.V2240I|RIF1_uc002txo.2_Missense_Mutation_p.V2240I|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	2240	Interaction with condensed chromosomes in telophase.				cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		AGGAAAAAGTGTTAAAACTTC	0.363													26	47					0	0	1	0	0		A	152324631	A	A	152324631	3	1	70	1	0	0	0	0	1	0	0	0	13384	1377	48	4	6836	4	RIF1	2	152324631	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3083	152324631	90874742	142	46158											
FIGN	55137	broad.mit.edu	37	chr2	164467865	164467865	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacttgaataactaggttcTgtcaggttgctggctacccc	8	13	9	11	0	2	1	1	1	1	0	2	1	2	1	2	3	4	4	2	3	5	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:164467865T>C	uc002uck.1	-	3	788	c.477A>G	c.(475-477)ACA>ACG	p.T159T		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	159						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						AACTAGGTTCTGTCAGGTTGC	0.517													33	62					0	0	1	0	0		C	164467865	C	C	164467865	2	2	70	1	0	0	0	0	0	0	0	1	5905	1567	55	3		3	FIGN	2	164467865	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	12143234	164467865	78731508	143	46159											
SCN1A	6323	broad.mit.edu	37	chr2	166848723	166848723	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggcaaagttggacatccCaaagatggcgtagatgaaca	16	7	11	7	1	0	3	0	1	0	2	1	4	1	4	1	3	1	3	1	3	5	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:166848723C>A	uc010zcz.1	-	26	5047	c.5029G>T	c.(5029-5031)GGG>TGG	p.G1677W		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1688	Helical; Name=S5 of repeat IV; (By similarity).|IV.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TTGGACATCCCAAAGATGGCG	0.468													63	108					8.72158e-25	9.52444e-25	1	1	0		A	166848723	A	A	166848723	3	1	70	1	0	0	0	0	1	0	0	0	13939	594	21	5	971	5	SCN1A	2	166848723	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2380858	166848723	76350650	144	46160											
SCN1A	6323	broad.mit.edu	37	chr2	166901611	166901611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttcccttcaatggagaagCgaaaacctttcctcctgatg	10	11	9	11	1	1	2	1	1	0	1	4	4	4	2	4	2	2	1	4	2	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:166901611C>T	uc010zcz.1	-	10	1622	c.1604G>A	c.(1603-1605)CGC>CAC	p.R535H	SCN1A_uc002udo.3_Missense_Mutation_p.R404H|SCN1A_uc010fpk.2_Missense_Mutation_p.R404H	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	535						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AATGGAGAAGCGAAAACCTTT	0.428													47	104					0	0	1	0	0		T	166901611	T	T	166901611	3	4	70	1	0	0	0	0	1	0	0	0	13939	768	27	1	4493	1	SCN1A	2	166901611	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	52888	166901611	76297762	145	46161											
SCN9A	6335	broad.mit.edu	37	chr2	167055185	167055185	+	Frame_Shift_Del	DEL	T	-	-																															atatcaaaaatgaagctctaTtttttgctttccttgctgtc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:167055185delT	uc010fpl.2	-	27	6272	c.5931delA	c.(5929-5931)AAAfs	p.K1977fs	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1988						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	TGAAGCTCTATTTTTTGCTTT	0.328													8	10	---	---	---	---						.	-	167055185	-	-	167055185	7	5	70	1	0	1	0	1	0	0	0	0	13950	1490	52	0	6	0	SCN9A	2	167055185	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	153574	167055185	76144188	146	46162											
SCN7A	6332	broad.mit.edu	37	chr2	167327173	167327173	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaaagttcttgcagtttGaagcgttggaatgaagtcca	11	13	10	7	1	2	2	1	2	2	0	4	3	3	3	1	1	2	4	1	1	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:167327173G>T	uc002udu.1	-	6	743	c.616C>A	c.(616-618)CAA>AAA	p.Q206K	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	206	Helical; Voltage-sensor; Name=S4 of repeat I; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						CTTGCAGTTTGAAGCGTTGGA	0.299													12	12					9.31168e-06	9.55762e-06	1	1	0		T	167327173	T	T	167327173	3	4	70	1	0	0	0	0	1	0	0	0	13948	1299	45	5	4512	5	SCN7A	2	167327173	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	271988	167327173	75872200	147	46163											
SP5	389058	broad.mit.edu	37	chr2	171573014	171573014	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctgacgccgcagaagacGcacctgcagccgtccttcgg	7	5	14	15	5	0	3	0	1	0	2	2	3	1	3	4	2	2	4	4	2	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:171573014G>A	uc002uge.2	+	2	463	c.297G>A	c.(295-297)ACG>ACA	p.T99T	LOC440925_uc002ugd.2_5'Flank	NM_001003845	NP_001003845	Q6BEB4	SP5_HUMAN	Sp5 transcription factor	99					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGCAGAAGACGCACCTGCAGC	0.706													4	15					0	0	1	0	0		A	171573014	A	A	171573014	2	1	70	1	0	0	0	0	0	0	0	1	14992	1074	38	1		1	SP5	2	171573014	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4245841	171573014	71626359	148	46164											
GAD1	2571	broad.mit.edu	37	chr2	171678601	171678601	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctctctcgtcctagcgtaCgatacctggtgcggcgtggc	4	11	12	14	5	2	0	0	0	2	0	5	1	3	0	2	3	4	1	2	3	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:171678601C>T	uc002ugi.2	+	3	509	c.87C>T	c.(85-87)TAC>TAT	p.Y29Y	GAD1_uc002ugh.2_Silent_p.Y29Y	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	29					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	TCCTAGCGTACGATACCTGGT	0.622													5	7					0	0	1	0	0		T	171678601	T	T	171678601	2	4	70	1	0	0	0	0	0	0	0	1	6193	547	19	1		1	GAD1	2	171678601	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	105587	171678601	71520772	149	46165											
TTN	7273	broad.mit.edu	37	chr2	179452435	179452435	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgactttaggggctggtcGtcctctcactatagcaaaga	10	11	11	9	1	1	2	1	1	1	1	4	2	2	2	1	3	1	2	1	3	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:179452435G>A	uc010zfg.1	-	255	56121	c.55897C>T	c.(55897-55899)CGA>TGA	p.R18633*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.R12328*|TTN_uc010zfi.1_Nonsense_Mutation_p.R12261*|TTN_uc010zfj.1_Nonsense_Mutation_p.R12136*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19560							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGGGCTGGTCGTCCTCTCACT	0.473													15	12					0	0	1	0	0		A	179452435	A	A	179452435	4	1	70	1	0	0	0	0	0	1	0	0	16761	1153	40	1	44606	1	TTN	2	179452435	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	7773834	179452435	63746938	150	46166											
TTN	7273	broad.mit.edu	37	chr2	179638766	179638766	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actttccaaggagactttaaCttcaagctgaacaatgtcac	14	11	6	10	0	2	2	2	1	0	1	3	3	3	2	1	1	3	1	1	1	5	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:179638766C>A	uc010zfg.1	-	31	7353	c.7129G>T	c.(7129-7131)GTT>TTT	p.V2377F	TTN_uc010zfh.1_Missense_Mutation_p.V2331F|TTN_uc010zfi.1_Missense_Mutation_p.V2331F|TTN_uc010zfj.1_Missense_Mutation_p.V2331F|TTN_uc002unb.2_Missense_Mutation_p.V2377F|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2377							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAGACTTTAACTTCAAGCTGA	0.458													35	34					2.42023e-17	2.60765e-17	1	1	0		A	179638766	A	A	179638766	3	1	70	1	0	0	0	0	1	0	0	0	16761	565	20	5	104187	5	TTN	2	179638766	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	186331	179638766	63560607	151	46167											
COL5A2	1290	broad.mit.edu	37	chr2	189953419	189953419	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcagtaaaatttatgcttAccacagagccaggcattagt	14	11	8	8	0	1	1	1	0	0	1	1	2	1	1	2	1	3	3	2	1	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:189953419A>G	uc002uqk.2	-	8	920	c.645_splice	c.e8+1	p.V215_splice	COL5A2_uc010frx.2_5'Flank	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein						axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			ATTTATGCTTACCACAGAGCC	0.358													29	30					0	0	1	0	0		G	189953419	G	G	189953419	5	3	70	1	0	0	0	0	0	0	1	0	3700	405	14	3	4040	3	COL5A2	2	189953419	Splice_Site	SNP	A	TCGA-BR-8368-01A-11D-2340-08	10314653	189953419	53245954	152	46168											
C2orf66	401027	broad.mit.edu	37	chr2	197672333	197672333	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcccttaaaatatgcctgaAgccttctgaaaaactaaaga	16	10	6	9	0	1	3	0	2	1	1	1	3	1	3	3	0	4	0	3	0	8	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:197672333A>C	uc002utv.2	-	2	1077	c.188T>G	c.(187-189)CTT>CGT	p.L63R		NM_213608	NP_998773	Q6UXQ4	CB066_HUMAN	hypothetical protein LOC401027 precursor	63						extracellular region					0						ATATGCCTGAAGCCTTCTGAA	0.378													43	88					0	0	1	0	0		C	197672333	C	C	197672333	3	2	70	1	0	0	0	0	1	0	0	0	2188	72	3	5	169	5	C2orf66	2	197672333	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	7718914	197672333	45527040	153	46169											
NDUFB3	4709	broad.mit.edu	37	chr2	201943742	201943742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggctaagggatccatgggGccggtaagatgaattaagta	13	8	15	5	1	0	2	0	1	0	1	1	3	1	3	2	5	0	3	2	5	5	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:201943742G>A	uc002uwx.3	+	2	460	c.137G>A	c.(136-138)GGC>GAC	p.G46D		NM_002491	NP_002482	O43676	NDUB3_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	46					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0					NADH(DB00157)	GATCCATGGGGCCGGTAAGAT	0.373													14	24					0	0	1	0	0		A	201943742	A	A	201943742	3	1	70	1	0	0	0	0	1	0	0	0	10301	1203	42	2	139	2	NDUFB3	2	201943742	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4271409	201943742	41255631	154	46170											
BMPR2	659	broad.mit.edu	37	chr2	203383649	203383649	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccgtcagaattttatcaaCgaaaagaacatttacagagt	18	10	6	7	2	2	3	2	0	0	3	2	4	2	3	1	0	4	0	1	0	8	4	rs151044452	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:203383649C>T	uc002uzf.3	+	6	1874	c.726C>T	c.(724-726)AAC>AAT	p.N242N	BMPR2_uc010ftr.2_Silent_p.N242N	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	242	Protein kinase.|Cytoplasmic (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						ATTTTATCAACGAAAAGAACA	0.428													54	96					0	0	1	0	0		T	203383649	T	T	203383649	2	4	70	1	0	0	0	0	0	0	0	1	1472	535	19	1		1	BMPR2	2	203383649	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1439907	203383649	39815724	155	46171											
NRP2	8828	broad.mit.edu	37	chr2	206608102	206608102	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccggtgaggagtggcttcaGgtagatctgggaacacccaa	10	7	14	10	1	2	2	1	1	1	1	2	4	2	4	2	5	1	2	2	5	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:206608102G>A	uc002vaw.2	+	9	2258	c.1467G>A	c.(1465-1467)CAG>CAA	p.Q489Q	NRP2_uc002vat.2_Silent_p.Q489Q|NRP2_uc002vau.2_Silent_p.Q489Q|NRP2_uc002vav.2_Silent_p.Q489Q|NRP2_uc002vax.2_Silent_p.Q489Q|NRP2_uc002vay.2_Silent_p.Q489Q|NRP2_uc010fud.2_Silent_p.Q489Q	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	489	Extracellular (Potential).|F5/8 type C 2.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						AGTGGCTTCAGGTAGATCTGG	0.607													27	58					0	0	1	0	0		A	206608102	A	A	206608102	2	1	70	1	0	0	0	0	0	0	0	1	10680	991	35	4		4	NRP2	2	206608102	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3224453	206608102	36591271	156	46172											
FASTKD2	22868	broad.mit.edu	37	chr2	207655375	207655375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gattccttgctatgaaaatgCggcatttgaatgcaatgggt	11	13	11	6	1	0	2	0	2	0	0	1	3	1	2	1	2	3	3	1	2	5	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:207655375C>T	uc002vbu.2	+	11	2388	c.1978C>T	c.(1978-1980)CGG>TGG	p.R660W	FASTKD2_uc002vbv.2_Missense_Mutation_p.R660W|FASTKD2_uc002vbx.2_Missense_Mutation_p.R660W|FASTKD2_uc002vbw.1_3'UTR	NM_001136193	NP_001129665	Q9NYY8	FAKD2_HUMAN	FAST kinase domains 2	660	RAP.				apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|skin(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0718)|Epithelial(149;0.119)|Lung(261;0.138)		TATGAAAATGCGGCATTTGAA	0.368													42	97					0	0	1	0	0		T	207655375	T	T	207655375	3	4	70	1	0	0	0	0	1	0	0	0	5700	759	27	1	2016	1	FASTKD2	2	207655375	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1047273	207655375	35543998	157	46173											
IDH1	3417	broad.mit.edu	37	chr2	209104637	209104637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggtacatgcggtagtgaCgggttacagtcccgtgggca	7	10	15	9	3	1	1	0	1	1	0	2	1	2	1	1	4	3	4	1	4	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:209104637C>T	uc002vcs.2	-	8	1187	c.941G>A	c.(940-942)CGT>CAT	p.R314H	IDH1_uc002vct.2_Missense_Mutation_p.R314H|IDH1_uc002vcu.2_Missense_Mutation_p.R314H	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	314	NADP.				2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity			central_nervous_system(2156)|haematopoietic_and_lymphoid_tissue(606)|bone(74)|thyroid(22)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2868				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		GCGGTAGTGACGGGTTACAGT	0.517			Mis		gliobastoma 								42	61					0	0	1	0	0		T	209104637	T	T	209104637	3	4	70	1	0	0	0	0	1	0	0	0	7510	536	19	1	315	1	IDH1	2	209104637	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1449262	209104637	34094736	158	46174											
MAP2	4133	broad.mit.edu	37	chr2	210558967	210558967	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagtttaggacttggtggTaggtctgcaatagaacaaag	13	10	14	4	0	1	1	0	0	1	1	1	3	1	3	0	5	2	3	0	5	6	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:210558967T>A	uc002vde.1	+	7	2321	c.2073T>A	c.(2071-2073)GGT>GGA	p.G691G	MAP2_uc002vdc.1_Silent_p.G691G|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.G687G	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	691					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	GACTTGGTGGTAGGTCTGCAA	0.418													71	133					0	0	1	0	0		A	210558967	A	A	210558967	2	1	70	1	0	0	0	0	0	0	0	1	9253	1625	57	5		5	MAP2	2	210558967	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1454330	210558967	32640406	159	46175											
LANCL1	10314	broad.mit.edu	37	chr2	211306124	211306124	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctattcgcccatagagcaTttcatttggagcatgaggat	10	12	10	9	1	1	2	1	1	0	1	2	4	1	4	2	2	2	2	2	2	2	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:211306124T>C	uc010zjh.1	-	5	526	c.451A>G	c.(451-453)ATG>GTG	p.M151V	LANCL1_uc002ved.2_Missense_Mutation_p.M151V|LANCL1_uc010fuq.2_Missense_Mutation_p.M151V	NM_001136574	NP_001130046	O43813	LANC1_HUMAN	lanthionine synthetase C-like protein 1	151						cytoplasm|integral to plasma membrane|microtubule cytoskeleton|nucleus	catalytic activity|G-protein coupled receptor activity|glutathione binding|low-density lipoprotein particle receptor binding|SH3 domain binding|zinc ion binding				0				Epithelial(149;0.00562)|Lung(261;0.0468)|LUSC - Lung squamous cell carcinoma(261;0.0495)|all cancers(144;0.0569)		CCATAGAGCATTTCATTTGGA	0.368													42	115					0	0	1	0	0		C	211306124	C	C	211306124	3	2	70	1	0	0	0	0	1	0	0	0	8636	1493	52	3	772	3	LANCL1	2	211306124	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	747157	211306124	31893249	160	46176											
MREG	55686	broad.mit.edu	37	chr2	216810399	216810399	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctttccttgtgtttttagaAtcactgatggtgctgagttt	6	19	10	6	0	1	3	1	2	0	1	2	3	2	3	1	1	1	4	1	1	2	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:216810399A>C	uc002vfo.2	-	4	701	c.405T>G	c.(403-405)GAT>GAG	p.D135E	MREG_uc002vfq.2_RNA	NM_018000	NP_060470	Q8N565	MREG_HUMAN	whn-dependent transcript 2	135						apical plasma membrane					0		Renal(323;0.0328)		Epithelial(149;4.64e-07)|all cancers(144;5.56e-05)|LUSC - Lung squamous cell carcinoma(224;0.00832)|Lung(261;0.0111)		TGTTTTTAGAATCACTGATGG	0.398													18	34					0	0	1	0	0		C	216810399	C	C	216810399	3	2	70	1	0	0	0	0	1	0	0	0	9778	98	4	5	247	5	MREG	2	216810399	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	5504275	216810399	26388974	161	46177											
C2orf62	375307	broad.mit.edu	37	chr2	219227522	219227522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggcttcatctcagaggctgCcaacctggtgctgctcaggg	6	9	14	12	0	3	1	3	0	1	1	4	1	3	1	2	4	4	4	2	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:219227522C>T	uc002vhr.2	+	6	556	c.527C>T	c.(526-528)GCC>GTC	p.A176V	C2orf62_uc002vhs.2_Intron	NM_198559	NP_940961	Q7Z7H3	CB062_HUMAN	hypothetical protein LOC375307	176											0		Renal(207;0.0915)		Epithelial(149;8.08e-07)|all cancers(144;0.000146)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCAGAGGCTGCCAACCTGGTG	0.577													29	54					0	0	1	0	0		T	219227522	T	T	219227522	3	4	70	1	0	0	0	0	1	0	0	0	2184	739	26	2	549	2	C2orf62	2	219227522	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2417123	219227522	23971851	162	46178											
OBSL1	23363	broad.mit.edu	37	chr2	220418391	220418391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtcgtgtggcccccgcaCgatggtcactgggacctctg	5	9	14	13	3	2	0	1	0	1	0	3	2	2	1	3	4	0	1	3	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:220418391C>T	uc010fwk.2	-	16	4951	c.4894G>A	c.(4894-4896)GTG>ATG	p.V1632M		NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	1632	Ig-like 13.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		GGCCCCCGCACGATGGTCACT	0.612											OREG0003989	type=REGULATORY REGION|Gene=AK092118|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	6	16					0	0	1	0	0		T	220418391	T	T	220418391	3	4	70	1	0	0	0	0	1	0	0	0	10832	536	19	1	820	1	OBSL1	2	220418391	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1190869	220418391	22780982	163	46179											
OBSL1	23363	broad.mit.edu	37	chr2	220428089	220428089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccccacctgtgatggtgaCagtgaagtaggcacactcat	10	8	10	13	0	1	3	1	3	0	0	1	3	1	3	4	2	0	2	4	2	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:220428089C>T	uc010fwk.2	-	7	2725	c.2668G>A	c.(2668-2670)GTC>ATC	p.V890I	OBSL1_uc010zli.1_5'Flank|OBSL1_uc010fwl.1_Missense_Mutation_p.V365I|OBSL1_uc002vmi.2_Missense_Mutation_p.V890I|OBSL1_uc002vmj.2_Missense_Mutation_p.V477I	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	890	Ig-like 6.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		GTGATGGTGACAGTGAAGTAG	0.667													7	9					0	0	1	0	0		T	220428089	T	T	220428089	3	4	70	1	0	0	0	0	1	0	0	0	10832	478	17	4	3234	4	OBSL1	2	220428089	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	9698	220428089	22771284	164	46180											
ACSL3	2181	broad.mit.edu	37	chr2	223791818	223791818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctccactttctgcaaccaCgcagcgattcatgaacatct	10	10	6	15	3	3	1	1	1	2	0	4	2	4	1	2	0	4	3	2	0	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:223791818C>T	uc002vni.2	+	12	1827	c.1376C>T	c.(1375-1377)ACG>ATG	p.T459M	ACSL3_uc002vnj.2_Missense_Mutation_p.T459M	NM_004457	NP_004448	O95573	ACSL3_HUMAN	acyl-CoA synthetase long-chain family member 3	459	Cytoplasmic (Potential).				long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|fatty-acyl-CoA synthase activity|long-chain fatty acid-CoA ligase activity|protein binding			ovary(2)	2		Renal(207;0.0183)		Epithelial(121;1.28e-10)|all cancers(144;8.06e-08)|Lung(261;0.00834)|LUSC - Lung squamous cell carcinoma(224;0.00864)	Icosapent(DB00159)	TCTGCAACCACGCAGCGATTC	0.473			T	ETV1	prostate								23	57					0	0	1	0	0		T	223791818	T	T	223791818	3	4	70	1	0	0	0	0	1	0	0	0	178	536	19	1	1410	1	ACSL3	2	223791818	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3363729	223791818	19407555	165	46181											
SCG2	7857	broad.mit.edu	37	chr2	224463302	224463302	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatgttattagccttgtaGatatcatcttcatcatccgt	10	16	6	9	1	4	1	3	0	1	1	5	1	5	1	2	0	1	3	2	0	5	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:224463302G>T	uc002vnm.2	-	2	832	c.699C>A	c.(697-699)ATC>ATA	p.I233I		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	233					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		TAGCCTTGTAGATATCATCTT	0.458													79	156					5.94106e-25	6.49426e-25	1	1	0		T	224463302	T	T	224463302	2	4	70	1	0	0	0	0	0	0	0	1	13916	932	33	5		5	SCG2	2	224463302	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	671484	224463302	18736071	166	46182											
NMUR1	10316	broad.mit.edu	37	chr2	232393263	232393263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggccacatagcgttccaCgctcagggcagtgacgttga	9	7	12	13	4	1	2	1	2	0	0	2	2	2	2	2	2	1	4	2	2	1	3	rs138003035	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:232393263C>T	uc002vry.3	-	2	579	c.469G>A	c.(469-471)GTG>ATG	p.V157M		NM_006056	NP_006047	Q9HB89	NMUR1_HUMAN	neuromedin U receptor 1	157	Helical; Name=3; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|calcium ion transport|calcium-mediated signaling|chloride transport|smooth muscle contraction	integral to plasma membrane|membrane fraction	neuromedin U receptor activity			lung(3)|central_nervous_system(1)|pancreas(1)	5		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;8.37e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)		TAGCGTTCCACGCTCAGGGCA	0.632													16	30					0	0	1	0	0		T	232393263	T	T	232393263	3	4	70	1	0	0	0	0	1	0	0	0	10525	536	19	1	819	1	NMUR1	2	232393263	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	7929961	232393263	10806110	167	46183											
ECEL1	9427	broad.mit.edu	37	chr2	233346298	233346298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggctgtaggaggcctccGtccaccagtgcagcaggttc	7	7	14	13	2	0	0	0	0	0	0	3	1	2	1	4	4	3	5	4	4	1	2	rs146580059		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:233346298G>A	uc002vsv.2	-	14	2112	c.1907C>T	c.(1906-1908)ACG>ATG	p.T636M	ECEL1_uc010fya.1_Missense_Mutation_p.T634M|ECEL1_uc010fyb.1_Missense_Mutation_p.T343M	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	636	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GGAGGCCTCCGTCCACCAGTG	0.642													10	16					0	0	1	0	0		A	233346298	A	A	233346298	3	1	70	1	0	0	0	0	1	0	0	0	4897	1145	40	1	440	1	ECEL1	2	233346298	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	953035	233346298	9853075	168	46184											
DGKD	8527	broad.mit.edu	37	chr2	234355371	234355371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtgcaggtggagcgtcatgGcatacgaggccaagctcccc	8	7	14	12	2	1	0	1	0	0	0	2	2	2	1	3	4	4	3	3	4	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:234355371G>A	uc002vui.1	+	12	1360	c.1348G>A	c.(1348-1350)GCA>ACA	p.A450T	DGKD_uc002vuj.1_Missense_Mutation_p.A406T|DGKD_uc010fyh.1_Missense_Mutation_p.A317T|DGKD_uc010fyi.1_RNA	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	450	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity	p.A450S(1)		central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	GAGCGTCATGGCATACGAGGC	0.632													5	46					0	0	1	0	0		A	234355371	A	A	234355371	3	1	70	1	0	0	0	0	1	0	0	0	4473	1203	42	2	1418	2	DGKD	2	234355371	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1009073	234355371	8844002	169	46185											
COL6A3	1293	broad.mit.edu	37	chr2	238277492	238277492	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggtgttggggcaccccGtcttctatgcgactccccgc	5	9	11	16	3	2	0	0	0	2	0	3	1	3	0	5	3	1	2	5	3	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:238277492G>A	uc002vwl.2	-	10	4899	c.4614C>T	c.(4612-4614)GAC>GAT	p.D1538D	COL6A3_uc002vwo.2_Silent_p.D1332D|COL6A3_uc010znj.1_Silent_p.D931D	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1538	VWFA 8.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GGGGCACCCCGTCTTCTATGC	0.577													40	62					0	0	1	0	0		A	238277492	A	A	238277492	2	1	70	1	0	0	0	0	0	0	0	1	3704	1136	40	1		1	COL6A3	2	238277492	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3922121	238277492	4921881	170	46186											
RBM44	375316	broad.mit.edu	37	chr2	238727072	238727072	+	Frame_Shift_Del	DEL	A	-	-																															cagagataacaatgatgaatAaaaaacgacctgatgaatgg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:238727072delA	uc002vxi.3	+	3	1645	c.1513delA	c.(1513-1515)AAAfs	p.K505fs		NM_001080504	NP_001073973	Q6ZP01	RBM44_HUMAN	RNA binding motif protein 44	504							nucleotide binding|RNA binding			ovary(4)	4		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;3.74e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.3e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000118)|Lung(119;0.0112)|LUSC - Lung squamous cell carcinoma(224;0.0266)		AATGATGAATAAAAAACGACC	0.383													13	30	---	---	---	---						.	-	238727072	-	-	238727072	7	5	70	1	0	1	0	1	0	0	0	0	13163	363	13	0	1519	0	RBM44	2	238727072	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	449580	238727072	4472301	171	46187											
ASB1	51665	broad.mit.edu	37	chr2	239353002	239353002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacggggctgatgttgacGtcaaccaccacctgactcct	8	9	11	13	2	1	3	1	3	0	0	2	3	2	3	4	3	2	3	4	3	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:239353002G>A	uc002vyg.2	+	4	600	c.514G>A	c.(514-516)GTC>ATC	p.V172I		NM_001040445	NP_001035535	Q9Y576	ASB1_HUMAN	ankyrin repeat and SOCS box-containing protein	172	ANK 4.				intracellular signal transduction|negative regulation of cytokine biosynthetic process						0		all_epithelial(40;2.65e-14)|Breast(86;7.61e-05)|Renal(207;0.00183)|all_lung(227;0.0283)|Ovarian(221;0.0365)|Lung NSC(271;0.0941)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;2.04e-26)|OV - Ovarian serous cystadenocarcinoma(60;4.5e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;2.88e-05)|Lung(119;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00644)		TGATGTTGACGTCAACCACCA	0.493													16	24					0	0	1	0	0		A	239353002	A	A	239353002	3	1	70	1	0	0	0	0	1	0	0	0	1014	1145	40	1	528	1	ASB1	2	239353002	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	625930	239353002	3846371	172	46188											
PRR21	643905	broad.mit.edu	37	chr2	240981445	240981445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggcatggacgaagggccGtgggtgaagaggcatggacg	11	4	20	6	3	0	3	0	1	0	2	0	6	0	5	1	6	0	2	1	6	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:240981445G>A	uc010zod.1	-	1	955	c.955C>T	c.(955-957)CGG>TGG	p.R319W		NM_001080835	NP_001074304	Q8WXC7	PRR21_HUMAN	proline rich 21	319	Pro-rich.									ovary(1)|skin(1)	2						ACGAAGGGCCGTGGGTGAAGA	0.597													19	41					0	0	1	0	0		A	240981445	A	A	240981445	3	1	70	1	0	0	0	0	1	0	0	0	12614	1144	40	1	217	1	PRR21	2	240981445	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1628443	240981445	2217928	173	46189											
ANKMY1	51281	broad.mit.edu	37	chr2	241439508	241439508	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgcgctctgctggcatcagCgtgtggaaggggcagcgggc	5	7	18	11	4	2	0	1	0	1	0	3	1	2	1	0	5	3	4	0	5	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:241439508C>T	uc002vyz.1	-	14	2635	c.2406G>A	c.(2404-2406)ACG>ACA	p.T802T	ANKMY1_uc002vza.1_Silent_p.T578T|ANKMY1_uc010fzd.1_Silent_p.T891T|ANKMY1_uc002vzb.1_Silent_p.T563T|ANKMY1_uc002vzc.1_Silent_p.T581T|ANKMY1_uc002vzd.1_Silent_p.T625T	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	802							zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		CTGGCATCAGCGTGTGGAAGG	0.672													4	8					0	0	1	0	0		T	241439508	T	T	241439508	2	4	70	1	0	0	0	0	0	0	0	1	634	755	27	1		1	ANKMY1	2	241439508	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	458063	241439508	1759865	174	46190											
KIF1A	547	broad.mit.edu	37	chr2	241712648	241712648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgatgacagcattgcagcGgatctgcttggcccggtcag	8	10	13	10	2	2	2	1	2	1	0	2	3	2	3	1	3	4	3	1	3	0	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:241712648G>A	uc002vzy.2	-	13	1209	c.1063C>T	c.(1063-1065)CGC>TGC	p.R355C	KIF1A_uc010fzk.2_Missense_Mutation_p.R355C|KIF1A_uc002vzz.1_Missense_Mutation_p.R355C	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	355	Kinesin-motor.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		GCATTGCAGCGGATCTGCTTG	0.627													16	36					0	0	1	0	0		A	241712648	A	A	241712648	3	1	70	1	0	0	0	0	1	0	0	0	8299	1116	39	1	4149	1	KIF1A	2	241712648	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	273140	241712648	1486725	175	46191											
HDLBP	3069	broad.mit.edu	37	chr2	242170272	242170272	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgtcctcagaaaccatctGctcaagttcacccacaattc	12	9	5	15	1	4	1	3	0	1	1	6	2	5	1	3	0	2	2	3	0	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr2:242170272G>A	uc002waz.2	-	25	3604	c.3376C>T	c.(3376-3378)CAG>TAG	p.Q1126*	HDLBP_uc002wba.2_Nonsense_Mutation_p.Q1126*|HDLBP_uc002wbb.2_Nonsense_Mutation_p.Q1078*	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	1126	KH 13.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		GAAACCATCTGCTCAAGTTCA	0.517													17	49					0	0	1	0	0		A	242170272	A	A	242170272	4	1	70	1	0	0	0	0	0	1	0	0	7041	1328	46	2	446	2	HDLBP	2	242170272	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	457624	242170272	1029101	176	46192											
CNTN6	27255	broad.mit.edu	37	chr3	1394070	1394070	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccaggtcagatgctggatCatatacatgcatagccacaa	14	9	8	10	0	2	1	2	0	0	1	2	2	2	2	2	2	5	2	2	2	5	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:1394070C>A	uc003boz.2	+	12	1694	c.1427C>A	c.(1426-1428)TCA>TAA	p.S476*	CNTN6_uc011asj.1_Nonsense_Mutation_p.S404*|CNTN6_uc003bpa.2_Nonsense_Mutation_p.S476*	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	476	Ig-like C2-type 5.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		GATGCTGGATCATATACATGC	0.358													19	37					3.99206e-14	4.26855e-14	1	1	0		A	1394070	A	A	1394070	4	1	70	1	0	0	0	0	0	1	0	0	3648	838	29	5	1469	5	CNTN6	3	1394070	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08		1394070	196628360	177	46193											
CNTN6	27255	broad.mit.edu	37	chr3	1445015	1445015	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcaggtttgagttccagAggaattcaattcttagaacc	11	14	9	7	0	2	3	1	1	1	2	3	4	3	4	2	2	2	3	2	2	4	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:1445015A>G	uc003boz.2	+	23	3267	c.3000A>G	c.(2998-3000)AGA>AGG	p.R1000R	CNTN6_uc011asj.1_Silent_p.R928R|CNTN6_uc003bpa.2_Silent_p.R1000R	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	1000					axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TGAGTTCCAGAGGAATTCAAT	0.299													15	17					0	0	1	0	0		G	1445015	G	G	1445015	2	3	70	1	0	0	0	0	0	0	0	1	3648	301	11	3		3	CNTN6	3	1445015	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	50945	1445015	196577415	178	46194											
LRRN1	57633	broad.mit.edu	37	chr3	3887633	3887633	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcttcccaaatcgtttaaaCgtggatatcggcacgacggt	11	10	10	10	5	0	0	0	0	0	0	3	2	1	1	1	3	2	3	1	3	4	4	rs115354749	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:3887633C>T	uc003bpt.3	+	2	2069	c.1308C>T	c.(1306-1308)AAC>AAT	p.N436N	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	436	Ig-like C2-type.|Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		ATCGTTTAAACGTGGATATCG	0.468													35	71					0	0	1	0	0		T	3887633	T	T	3887633	2	4	70	1	0	0	0	0	0	0	0	1	9052	535	19	1		1	LRRN1	3	3887633	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2442618	3887633	194134797	179	46195											
ATG7	10533	broad.mit.edu	37	chr3	11383709	11383709	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctgtcaaatgtctgctgCttggagccggcaccttgggt	5	13	13	10	1	3	0	1	0	2	0	3	1	3	1	2	3	3	3	2	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:11383709C>A	uc003bwc.2	+	11	1198	c.1081C>A	c.(1081-1083)CTT>ATT	p.L361I	ATG7_uc003bwd.2_Missense_Mutation_p.L361I|ATG7_uc011aum.1_Missense_Mutation_p.L322I	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	361					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						ATGTCTGCTGCTTGGAGCCGG	0.473													53	105					1.63038e-21	1.77017e-21	1	1	0		A	11383709	A	A	11383709	3	1	70	1	0	0	0	0	1	0	0	0	1102	797	28	5	1119	5	ATG7	3	11383709	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	7496076	11383709	186638721	180	46196											
HDAC11	79885	broad.mit.edu	37	chr3	13544421	13544421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacttcatggacgacaagcGtgtgtacatcatggatgtct	11	11	11	8	2	3	1	2	0	1	1	3	4	3	3	0	2	2	1	0	2	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:13544421G>A	uc003bxy.2	+	8	723	c.590G>A	c.(589-591)CGT>CAT	p.R197H	HDAC11_uc010heb.2_Missense_Mutation_p.V155M|HDAC11_uc011aux.1_Missense_Mutation_p.R5H|HDAC11_uc011auy.1_Missense_Mutation_p.R146H	NM_024827	NP_079103	Q96DB2	HDA11_HUMAN	histone deacetylase 11 isoform 1	197	Histone deacetylase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex|plasma membrane	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding			ovary(2)	2						GACGACAAGCGTGTGTACATC	0.592													67	139					0	0	1	0	0		A	13544421	A	A	13544421	3	1	70	1	0	0	0	0	1	0	0	0	7022	1145	40	1	620	1	HDAC11	3	13544421	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2160712	13544421	184478009	181	46197											
FBLN2	2199	broad.mit.edu	37	chr3	13670507	13670507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaacccgctgatctgcgCgcgcggctaccacgccagcg	7	4	14	16	7	1	1	0	1	1	0	1	3	1	2	3	2	4	2	3	2	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:13670507C>T	uc011avb.1	+	11	2656	c.2531C>T	c.(2530-2532)GCG>GTG	p.A844V	FBLN2_uc011auz.1_Missense_Mutation_p.A870V|FBLN2_uc011ava.1_Missense_Mutation_p.A891V|FBLN2_uc011avc.1_Missense_Mutation_p.A891V	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	844	EGF-like 5; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			CTGATCTGCGCGCGCGGCTAC	0.667													6	10					0	0	1	0	0		T	13670507	T	T	13670507	3	4	70	1	0	0	0	0	1	0	0	0	5713	768	27	1	1404	1	FBLN2	3	13670507	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	126086	13670507	184351923	182	46198											
CHCHD4	131474	broad.mit.edu	37	chr3	14154633	14154633	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactgttctccacagggaccGctggccattcccccaaggca	9	7	9	16	1	1	0	0	0	1	0	3	1	2	1	5	3	1	3	5	3	2	2	rs148570860	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:14154633G>A	uc003byj.3	-	3	378	c.183C>T	c.(181-183)AGC>AGT	p.S61S	CHCHD4_uc003byi.3_Silent_p.S74S	NM_001098502	NP_001091972	Q8N4Q1	MIA40_HUMAN	coiled-coil-helix-coiled-coil-helix domain	61	CHCH.				protein transport|transmembrane transport	mitochondrial intermembrane space					0						CACAGGGACCGCTGGCCATTC	0.493													19	55					0	0	1	0	0		A	14154633	A	A	14154633	2	1	70	1	0	0	0	0	0	0	0	1	3321	1078	38	1		1	CHCHD4	3	14154633	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	484126	14154633	183867797	183	46199											
C3orf20	84077	broad.mit.edu	37	chr3	14724408	14724408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacccttcagtgcctacccCgtccgacatcttgggcctgg	5	10	10	16	2	2	1	1	1	1	0	3	2	3	1	6	2	2	0	6	2	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:14724408C>T	uc003byy.2	+	3	592	c.188C>T	c.(187-189)CCG>CTG	p.P63L	C3orf20_uc003byz.2_Intron|C3orf20_uc003bza.2_Intron|C3orf20_uc003byx.1_Missense_Mutation_p.P63L	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	63						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						GTGCCTACCCCGTCCGACATC	0.512													31	91					0	0	1	0	0		T	14724408	T	T	14724408	3	4	70	1	0	0	0	0	1	0	0	0	2216	652	23	1	190	1	C3orf20	3	14724408	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	569775	14724408	183298022	184	46200											
BTD	686	broad.mit.edu	37	chr3	15686554	15686554	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctcccacatttcactctgaGatgatgtatgacaatttcac	11	13	5	12	0	3	3	2	3	1	1	4	4	4	3	2	0	0	1	2	0	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:15686554G>A	uc003cah.2	+	4	1294	c.1191G>A	c.(1189-1191)GAG>GAA	p.E397E	BTD_uc011avv.1_Silent_p.E399E|BTD_uc011avw.1_Silent_p.E399E|BTD_uc011avx.1_Silent_p.E377E	NM_000060	NP_000051	P43251	BTD_HUMAN	biotinidase precursor	397					central nervous system development|epidermis development|nitrogen compound metabolic process	extracellular space	biotin carboxylase activity|biotinidase activity				0						TTCACTCTGAGATGATGTATG	0.498													43	115					0	0	1	0	0		A	15686554	A	A	15686554	2	1	70	1	0	0	0	0	0	0	0	1	1553	933	33	4		4	BTD	3	15686554	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	962146	15686554	182335876	185	46201											
THRB	7068	broad.mit.edu	37	chr3	24231679	24231679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagtggtctggatgagatGtggcgacgactgttcatttt	8	13	13	7	2	2	1	1	1	1	1	2	5	2	2	1	3	0	1	1	3	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:24231679G>A	uc003ccx.3	-	5	518	c.169C>T	c.(169-171)CAT>TAT	p.H57Y	THRB_uc010hfe.2_Missense_Mutation_p.H57Y|THRB_uc003ccy.3_Missense_Mutation_p.H57Y|THRB_uc003ccz.3_Missense_Mutation_p.H52Y|THRB_uc003cdc.2_Missense_Mutation_p.H52Y|THRB_uc003cdd.2_Missense_Mutation_p.H52Y|THRB_uc003cde.1_Missense_Mutation_p.H52Y	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	57	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)	TGGATGAGATGTGGCGACGAC	0.498													9	108					0	0	1	0	0		A	24231679	A	A	24231679	3	1	70	1	0	0	0	0	1	0	0	0	15900	1377	48	4	1244	4	THRB	3	24231679	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	8545125	24231679	173790751	186	46202											
NEK10	152110	broad.mit.edu	37	chr3	27216220	27216220	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgtctttaccataggaGgcctggaagccttcaggggg	7	11	13	10	1	3	0	1	0	2	0	4	2	3	2	3	5	2	0	3	5	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:27216220G>T	uc010hfk.2	-	6	775	c.546C>A	c.(544-546)GCC>GCA	p.A182A	NEK10_uc003cds.1_Silent_p.A267A|NEK10_uc010hfj.2_Silent_p.A182A			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	870							ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						TACCATAGGAGGCCTGGAAGC	0.507													14	128					1.5739e-10	1.65157e-10	1	1	0		T	27216220	T	T	27216220	2	4	70	1	0	0	0	0	0	0	0	1	10341	1015	35	5		5	NEK10	3	27216220	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2984541	27216220	170806210	187	46203											
FBXL2	25827	broad.mit.edu	37	chr3	33416811	33416811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaggtgtggtgcagatatGcaggggctgtcaccggctac	8	9	16	8	1	1	2	1	1	0	1	1	2	1	2	1	5	3	4	1	5	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:33416811G>A	uc003cfp.2	+	10	760	c.689G>A	c.(688-690)TGC>TAC	p.C230Y	FBXL2_uc011axm.1_RNA|FBXL2_uc011axn.1_RNA|FBXL2_uc011axo.1_Missense_Mutation_p.C125Y|FBXL2_uc011axp.1_Missense_Mutation_p.C146Y|FBXL2_uc011axq.1_RNA|FBXL2_uc011axr.1_RNA|FBXL2_uc011axs.1_RNA	NM_012157	NP_036289	Q9UKC9	FBXL2_HUMAN	F-box and leucine-rich repeat protein 2	230	LRR 7.				interspecies interaction between organisms|proteolysis	cytoplasm|membrane	protein binding|ubiquitin-protein ligase activity			large_intestine(1)	1						GTGCAGATATGCAGGGGCTGT	0.537													24	60					0	0	1	0	0		A	33416811	A	A	33416811	3	1	70	1	0	0	0	0	1	0	0	0	5730	1319	46	2	727	2	FBXL2	3	33416811	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6200591	33416811	164605619	188	46204											
CLASP2	23122	broad.mit.edu	37	chr3	33633950	33633950	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgccttggcatttcccaTgccagcaagtggtgctgaaa	9	11	10	11	0	1	1	0	1	1	0	2	1	2	1	3	2	4	3	3	2	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:33633950T>C	uc003cfu.2	-	21	2359	c.2005A>G	c.(2005-2007)ATG>GTG	p.M669V	CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Missense_Mutation_p.M244V	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	670										ovary(3)|central_nervous_system(1)	4						GCATTTCCCATGCCAGCAAGT	0.343													12	25					0	0	1	0	0		C	33633950	C	C	33633950	3	2	70	1	0	0	0	0	1	0	0	0	3458	1464	51	3	2587	3	CLASP2	3	33633950	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	217139	33633950	164388480	189	46205											
PLCD1	5333	broad.mit.edu	37	chr3	38049968	38049968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgatgttgagccgcttcCgtgcccaccagggcccctga	5	8	11	17	2	0	3	0	3	0	0	1	3	1	3	7	1	2	2	7	1	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:38049968C>T	uc003chn.2	-	12	2007	c.1883G>A	c.(1882-1884)CGG>CAG	p.R628Q	PLCD1_uc003chm.2_Missense_Mutation_p.R649Q	NM_006225	NP_006216	P51178	PLCD1_HUMAN	phospholipase C, delta 1 isoform 2	628	C2.				intracellular signal transduction|lipid catabolic process|phospholipid metabolic process	cytoplasm	calcium ion binding|GTPase activating protein binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		GAGCCGCTTCCGTGCCCACCA	0.662													18	26					0	0	1	0	0		T	38049968	T	T	38049968	3	4	70	1	0	0	0	0	1	0	0	0	12050	652	23	1	403	1	PLCD1	3	38049968	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4416018	38049968	159972462	190	46206											
SLC22A13	9390	broad.mit.edu	37	chr3	38318562	38318562	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcaccctgctgccagagacGcatggccagggcctgaaaga	10	5	13	13	1	0	3	0	1	0	2	0	4	0	3	4	2	3	3	4	2	1	0	rs1065182		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:38318562G>A	uc003chz.3	+	9	1560	c.1506G>A	c.(1504-1506)ACG>ACA	p.T502T		NM_004256	NP_004247	Q9Y226	S22AD_HUMAN	solute carrier family 22 (organic anion	502	Cytoplasmic (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0533)|Kidney(284;0.067)		TGCCAGAGACGCATGGCCAGG	0.632													4	2					0	0	1	0	0		A	38318562	A	A	38318562	2	1	70	1	0	0	0	0	0	0	0	1	14469	1074	38	1		1	SLC22A13	3	38318562	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	268594	38318562	159703868	191	46207											
ACVR2B	93	broad.mit.edu	37	chr3	38518857	38518857	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggagcgcaccaaccagagCggcctggagcgctgcgaagg	9	3	16	13	4	0	1	0	0	0	1	0	4	0	3	3	4	5	2	3	4	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:38518857C>T	uc003cif.2	+	2	156	c.132C>T	c.(130-132)AGC>AGT	p.S44S	ACVR2B_uc003cig.2_5'UTR	NM_001106	NP_001097	Q13705	AVR2B_HUMAN	activin A receptor, type IIB precursor	44	Extracellular (Potential).				activin receptor signaling pathway|anterior/posterior pattern formation|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|regulation of transcription, DNA-dependent	cell surface|cytoplasm|integral to plasma membrane	activin receptor activity|ATP binding|growth factor binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)		CCAACCAGAGCGGCCTGGAGC	0.637													12	35					0	0	1	0	0		T	38518857	T	T	38518857	2	4	70	1	0	0	0	0	0	0	0	1	224	767	27	1		1	ACVR2B	3	38518857	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	200295	38518857	159503573	192	46208											
SCN10A	6336	broad.mit.edu	37	chr3	38755487	38755487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaaagagcccgcagtggccGcagagcgcgaagggttcgaa	12	3	16	10	5	0	3	0	0	0	3	1	5	0	3	2	2	2	3	2	2	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:38755487G>A	uc003ciq.2	-	21	3766	c.3766C>T	c.(3766-3768)CGG>TGG	p.R1256W		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1256	III.|Helical; Voltage-sensor; Name=S4 of repeat III; (Potential).				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CGCAGTGGCCGCAGAGCGCGA	0.428													8	84					0	0	1	0	0		A	38755487	A	A	38755487	3	1	70	1	0	0	0	0	1	0	0	0	13937	1086	38	1	2132	1	SCN10A	3	38755487	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	236630	38755487	159266943	193	46209											
ENTPD3	956	broad.mit.edu	37	chr3	40442404	40442404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtatggtattgtgctggatgCcgggtcttcaagaaccacag	9	11	13	8	1	2	1	1	0	1	1	2	2	2	2	2	3	3	3	2	3	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:40442404C>T	uc003ckd.3	+	4	280	c.188C>T	c.(187-189)GCC>GTC	p.A63V	ENTPD3_uc010hhy.2_Missense_Mutation_p.A63V|uc003cke.3_Intron	NM_001248	NP_001239	O75355	ENTP3_HUMAN	ectonucleoside triphosphate diphosphohydrolase	63	Extracellular (Potential).					integral to membrane	ATP binding|hydrolase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0605)|Kidney(284;0.0758)		GTGCTGGATGCCGGGTCTTCA	0.478													46	102					0	0	1	0	0		T	40442404	T	T	40442404	3	4	70	1	0	0	0	0	1	0	0	0	5148	739	26	2	198	2	ENTPD3	3	40442404	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1686917	40442404	157580026	194	46210											
ZNF445	353274	broad.mit.edu	37	chr3	44497024	44497024	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagctggataggcagcatgCcacctgcctggaggcatcac	9	7	13	12	0	1	1	1	1	0	0	1	3	1	3	3	4	4	4	3	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:44497024C>T	uc003cnf.2	-	3	366	c.18G>A	c.(16-18)TGG>TGA	p.W6*	ZNF445_uc011azv.1_Nonsense_Mutation_p.W6*|ZNF445_uc011azw.1_Nonsense_Mutation_p.W6*	NM_181489	NP_852466	P59923	ZN445_HUMAN	zinc finger protein 445	6					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		AGGCAGCATGCCACCTGCCTG	0.547													17	23					0	0	1	0	0		T	44497024	T	T	44497024	4	4	70	1	0	0	0	0	0	1	0	0	17943	740	26	2	3101	2	ZNF445	3	44497024	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4054620	44497024	153525406	195	46211											
KIF15	56992	broad.mit.edu	37	chr3	44893719	44893719	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagatggaaatgttaaggaAgcaggtggagtgtcttgctg	11	10	17	3	0	1	1	0	0	1	1	1	5	1	4	0	5	2	3	0	5	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:44893719A>C	uc003cnx.3	+	34	4141	c.3992A>C	c.(3991-3993)AAG>ACG	p.K1331T	KIF15_uc010hiq.2_Missense_Mutation_p.K1234T|KIF15_uc010hir.2_Missense_Mutation_p.K379T	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	1331	Potential.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		ATGTTAAGGAAGCAGGTGGAG	0.393													19	36					0	0	1	0	0		C	44893719	C	C	44893719	3	2	70	1	0	0	0	0	1	0	0	0	8293	72	3	5	4126	5	KIF15	3	44893719	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	396695	44893719	153128711	196	46212											
CDCP1	64866	broad.mit.edu	37	chr3	45137008	45137008	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtttgacgggccgtggctcGatggtgagtgacatggctcg	5	11	17	8	4	0	3	0	3	0	0	2	4	0	3	1	4	0	3	1	4	0	1	rs145622666		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:45137008G>A	uc003com.2	-	5	1212	c.1077C>T	c.(1075-1077)ATC>ATT	p.I359I		NM_022842	NP_073753	Q9H5V8	CDCP1_HUMAN	CUB domain-containing protein 1 isoform 1	359	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		GCCGTGGCTCGATGGTGAGTG	0.507													28	22					0	0	1	0	0		A	45137008	A	A	45137008	2	1	70	1	0	0	0	0	0	0	0	1	3096	1048	37	1		1	CDCP1	3	45137008	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	243289	45137008	152885422	197	46213											
NBEAL2	23218	broad.mit.edu	37	chr3	47040920	47040920	+	Frame_Shift_Del	DEL	C	-	-																															cttgcctgaggggactgtttCcccccagctctgccagggcc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:47040920delC	uc003cqp.2	+	25	3838	c.3659delC	c.(3658-3660)TCCfs	p.S1220fs	NBEAL2_uc010hjm.1_Frame_Shift_Del_p.S728fs|NBEAL2_uc010hjn.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1220	Leu-rich.						binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		GGGACTGTTTCCCCCCAGCTC	0.632													6	8	---	---	---	---						.	-	47040920	-	-	47040920	7	5	70	1	0	1	0	1	0	0	0	0	10207	855	30	0	3757	0	NBEAL2	3	47040920	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	1903912	47040920	150981510	198	46214											
LAMB2	3913	broad.mit.edu	37	chr3	49161216	49161216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcggctgaggtgttgcGggcacctacgatgccctgca	6	7	17	11	3	0	1	0	1	0	0	0	3	0	2	2	5	4	4	2	5	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:49161216G>A	uc003cwe.2	-	24	4041	c.3742C>T	c.(3742-3744)CGC>TGC	p.R1248C		NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1248	Domain II.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GAGGTGTTGCGGGCACCTACG	0.627													23	35					0	0	1	0	0		A	49161216	A	A	49161216	3	1	70	1	0	0	0	0	1	0	0	0	8627	1116	39	1	1690	1	LAMB2	3	49161216	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2120296	49161216	148861214	199	46215											
UBA7	7318	broad.mit.edu	37	chr3	49850585	49850585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgctcctccagctttgcaGcagtcagcaccaccacctgg	7	8	9	17	0	1	0	1	0	0	0	3	0	3	0	5	1	5	6	5	1	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:49850585G>A	uc003cxr.2	-	4	548	c.377C>T	c.(376-378)GCT>GTT	p.A126V		NM_003335	NP_003326	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7	126	2 approximate repeats.|1-1.				ISG15-protein conjugation|negative regulation of type I interferon production	cytosol	ATP binding|ISG15 activating enzyme activity|ligase activity			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CAGCTTTGCAGCAGTCAGCAC	0.602													16	12					0	0	1	0	0		A	49850585	A	A	49850585	3	1	70	1	0	0	0	0	1	0	0	0	16859	971	34	2	2745	2	UBA7	3	49850585	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	689369	49850585	148171845	200	46216											
GNAT1	2779	broad.mit.edu	37	chr3	50231007	50231007	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgatgcccaaggagatgtcGgacatcatccagcggctgtg	10	7	13	11	3	1	1	1	0	0	1	3	4	2	2	2	3	2	1	2	3	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:50231007G>A	uc003cym.2	+	4	476	c.360G>A	c.(358-360)TCG>TCA	p.S120S	GNAT1_uc003cyl.2_Silent_p.S120S	NM_144499	NP_653082	P11488	GNAT1_HUMAN	rod-type transducin alpha subunit	120					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|negative regulation of cyclic-nucleotide phosphodiesterase activity|rhodopsin mediated phototransduction|sensory perception of umami taste	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	acyl binding|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GDP binding|GTP binding|GTPase activity|protein kinase binding|signal transducer activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		AGGAGATGTCGGACATCATCC	0.612													9	21					0	0	1	0	0		A	50231007	A	A	50231007	2	1	70	1	0	0	0	0	0	0	0	1	6526	1103	39	1		1	GNAT1	3	50231007	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	380422	50231007	147791423	201	46217											
C3orf45	132228	broad.mit.edu	37	chr3	50324510	50324510	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattcacagtgctgcagagTgaatccctgcgcatcctggc	8	9	10	14	1	1	2	1	1	0	1	3	2	3	2	3	1	3	3	3	1	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:50324510T>C	uc003cyz.2	+	4	399	c.372T>C	c.(370-372)AGT>AGC	p.S124S		NM_153215	NP_694947	Q8N112	CC045_HUMAN	hypothetical protein LOC132228	124						integral to membrane				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		TGCTGCAGAGTGAATCCCTGC	0.637													12	25					0	0	1	0	0		C	50324510	C	C	50324510	2	2	70	1	0	0	0	0	0	0	0	1	2234	1693	59	3		3	C3orf45	3	50324510	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	93503	50324510	147697920	202	46218											
HYAL1	3373	broad.mit.edu	37	chr3	50340261	50340261	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaccgtgcctctccaggcAccactgggtgtttgcattcc	6	10	9	16	1	1	0	0	0	1	0	3	0	2	0	5	2	2	3	5	2	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:50340261A>G	uc003czp.2	-	2	259	c.127T>C	c.(127-129)TGC>CGC	p.C43R	HYAL1_uc003czm.2_Intron|HYAL1_uc003czo.2_Intron|HYAL1_uc003czq.2_Missense_Mutation_p.C43R|HYAL1_uc003czr.2_Missense_Mutation_p.C43R|HYAL1_uc003czn.2_Intron|HYAL1_uc003czs.2_Missense_Mutation_p.C43R|HYAL1_uc003czt.2_Missense_Mutation_p.C43R	NM_033159	NP_149349	Q12794	HYAL1_HUMAN	hyaluronoglucosaminidase 1 isoform 1	43						extracellular space|lysosome	hyalurononglucosaminidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)	Hyaluronidase(DB00070)	CTCTCCAGGCACCACTGGGTG	0.582													26	26					0	0	1	0	0		G	50340261	G	G	50340261	3	3	70	1	0	0	0	0	1	0	0	0	7479	159	6	3	1192	3	HYAL1	3	50340261	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	15751	50340261	147682169	203	46219											
TLR9	54106	broad.mit.edu	37	chr3	52256535	52256535	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaagtccagggcccgcagCgacgtactgcagagctgctg	8	6	14	13	3	0	2	0	1	0	1	1	3	1	2	2	1	5	5	2	1	2	1	rs143900156	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:52256535C>T	uc003dda.1	-	2	2431	c.1797G>A	c.(1795-1797)TCG>TCA	p.S599S	TLR9_uc003ddb.2_Silent_p.S696S	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	599	Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	GGGCCCGCAGCGACGTACTGC	0.612													18	19					0	0	1	0	0		T	52256535	T	T	52256535	2	4	70	1	0	0	0	0	0	0	0	1	15983	755	27	1		1	TLR9	3	52256535	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1916274	52256535	145765895	204	46220											
NEK4	6787	broad.mit.edu	37	chr3	52786314	52786314	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacttcaagagaccagaGgccctgggtttctcctggga	8	9	14	10	0	2	3	1	1	1	2	3	5	2	4	3	4	0	1	3	4	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:52786314G>T	uc003dfq.3	-	7	1191	c.1002C>A	c.(1000-1002)GCC>GCA	p.A334A	NEK4_uc011bej.1_Silent_p.A245A|NEK4_uc003dfr.2_Silent_p.A334A	NM_003157	NP_003148	P51957	NEK4_HUMAN	NIMA-related kinase 4	334					cell division|mitosis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.44e-05)|Kidney(197;0.000711)|KIRC - Kidney renal clear cell carcinoma(197;0.00086)|OV - Ovarian serous cystadenocarcinoma(275;0.0513)		AGAGACCAGAGGCCCTGGGTT	0.428													23	168					3.5997e-14	3.85633e-14	1	1	0		T	52786314	T	T	52786314	2	4	70	1	0	0	0	0	0	0	0	1	10345	987	35	5		5	NEK4	3	52786314	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	529779	52786314	145236116	205	46221											
ARHGEF3	50650	broad.mit.edu	37	chr3	56789110	56789110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtttcgtgctcgagggggCggcatttctggaccagggtc	4	10	16	11	4	1	0	0	0	1	0	4	2	1	1	2	5	1	3	2	5	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:56789110C>T	uc003dig.2	-	3	443	c.274G>A	c.(274-276)GCC>ACC	p.A92T	ARHGEF3_uc011bew.1_Missense_Mutation_p.A92T|ARHGEF3_uc003dih.2_Missense_Mutation_p.A124T|ARHGEF3_uc011bev.1_Missense_Mutation_p.A63T|ARHGEF3_uc003dif.2_Missense_Mutation_p.A98T|ARHGEF3_uc010hmy.1_5'UTR|ARHGEF3_uc003dii.2_Missense_Mutation_p.A92T	NM_019555	NP_062455	Q9NR81	ARHG3_HUMAN	Rho guanine nucleotide exchange factor 3 isoform	92					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0161)|Kidney(284;0.019)|OV - Ovarian serous cystadenocarcinoma(275;0.193)		CTCGAGGGGGCGGCATTTCTG	0.542													31	123					0	0	1	0	0		T	56789110	T	T	56789110	3	4	70	1	0	0	0	0	1	0	0	0	904	768	27	1	1338	1	ARHGEF3	3	56789110	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4002796	56789110	141233320	206	46222											
FLNB	2317	broad.mit.edu	37	chr3	58141774	58141774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catcgcaccctccgacgacgCccgccgcctcactgttatga	7	7	8	19	6	1	1	1	1	0	0	3	3	2	1	5	0	0	2	5	0	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:58141774C>T	uc003djj.2	+	41	7025	c.6860C>T	c.(6859-6861)GCC>GTC	p.A2287V	FLNB_uc010hne.2_Missense_Mutation_p.A2318V|FLNB_uc003djk.2_Missense_Mutation_p.A2276V|FLNB_uc010hnf.2_Missense_Mutation_p.A2263V|FLNB_uc003djl.2_Missense_Mutation_p.A2107V|FLNB_uc003djm.2_Missense_Mutation_p.A2094V	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	2287	Filamin 22.|Interaction with INPPL1.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		TCCGACGACGCCCGCCGCCTC	0.592													16	29					0	0	1	0	0		T	58141774	T	T	58141774	3	4	70	1	0	0	0	0	1	0	0	0	5948	739	26	2	7119	2	FLNB	3	58141774	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1352664	58141774	139880656	207	46223											
GPR27	2850	broad.mit.edu	37	chr3	71803351	71803351	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggagcgcagcctgcacCgcgccccgtactacctgctg	5	6	13	17	5	0	0	0	0	0	0	0	1	0	1	5	1	7	4	5	1	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:71803351C>A	uc011bge.1	+	1	151	c.151C>A	c.(151-153)CGC>AGC	p.R51S	EIF4E3_uc003dox.2_5'Flank|EIF4E3_uc011bgd.1_Intron|EIF4E3_uc010hoc.2_Intron	NM_018971	NP_061844	Q9NS67	GPR27_HUMAN	G protein-coupled receptor 27	51	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Prostate(10;0.00899)		BRCA - Breast invasive adenocarcinoma(55;1.78e-05)|Epithelial(33;5.75e-05)|Lung(16;0.0012)|LUSC - Lung squamous cell carcinoma(21;0.00156)		CAGCCTGCACCGCGCCCCGTA	0.642													6	11					3.59834e-05	3.68331e-05	1	1	0		A	71803351	A	A	71803351	3	1	70	1	0	0	0	0	1	0	0	0	6700	652	23	5	153	5	GPR27	3	71803351	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	13661577	71803351	126219079	208	46224											
CRYBG3	131544	broad.mit.edu	37	chr3	97611821	97611821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcacagaattggatcaattCgtgtcattggtggagtgtga	10	14	12	5	1	3	2	3	1	0	1	4	4	3	4	0	3	0	0	0	3	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:97611821C>T	uc003drx.2	+	8	1778	c.1714C>T	c.(1714-1716)CGT>TGT	p.R572C		NM_153605	NP_705833			beta-gamma crystallin domain containing 3												0						TGGATCAATTCGTGTCATTGG	0.338													37	52					0	0	1	0	0		T	97611821	T	T	97611821	3	4	70	1	0	0	0	0	1	0	0	0	3916	884	31	1	1744	1	CRYBG3	3	97611821	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	25808470	97611821	100410609	209	46225											
DZIP3	9666	broad.mit.edu	37	chr3	108409687	108409687	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccaacgtgcagactccaCgttttgctaccagaagaatt	11	11	8	11	2	0	3	0	0	0	3	2	3	2	3	3	0	4	3	3	0	4	4	rs141475495	by1000genomes	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:108409687C>T	uc003dxd.2	+	32	3992	c.3570C>T	c.(3568-3570)CAC>CAT	p.H1190H	DZIP3_uc003dxf.1_Silent_p.H1190H|DZIP3_uc011bhm.1_Silent_p.H641H	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	1190					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GCAGACTCCACGTTTTGCTAC	0.483													29	56					0	0	1	0	0		T	108409687	T	T	108409687	2	4	70	1	0	0	0	0	0	0	0	1	4871	535	19	1		1	DZIP3	3	108409687	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	10797866	108409687	89612743	210	46226											
DPPA2	151871	broad.mit.edu	37	chr3	109027898	109027898	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgttcagggtaagcatgcCtatgaagcctcagataaact	12	11	10	8	0	2	2	2	1	0	1	2	2	2	2	2	1	4	4	2	1	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:109027898C>A	uc003dxo.2	-	5	618	c.371G>T	c.(370-372)AGG>ATG	p.R124M		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	124	SAP.					nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						GTAAGCATGCCTATGAAGCCT	0.428													50	84					7.90463e-13	8.42812e-13	1	1	0		A	109027898	A	A	109027898	3	1	70	1	0	0	0	0	1	0	0	0	4740	681	24	5	541	5	DPPA2	3	109027898	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	618211	109027898	88994532	211	46227											
C3orf15	89876	broad.mit.edu	37	chr3	119462963	119462963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggctgagcgccagcggCgggtacgagaggctgaagag	8	5	19	9	4	0	4	0	2	0	2	0	5	0	4	1	4	4	4	1	4	2	1	rs139653997		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:119462963C>T	uc003ede.3	+	14	1899	c.1822C>T	c.(1822-1824)CGG>TGG	p.R608W	C3orf15_uc010hqz.2_Missense_Mutation_p.R546W|C3orf15_uc011bjd.1_Missense_Mutation_p.R482W|C3orf15_uc011bje.1_Missense_Mutation_p.R588W	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	444						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		GCGCCAGCGGCGGGTACGAGA	0.587													26	42					0	0	1	0	0		T	119462963	T	T	119462963	3	4	70	1	0	0	0	0	1	0	0	0	2212	759	27	1	1876	1	C3orf15	3	119462963	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	10435065	119462963	78559467	212	46228											
PLXNA1	5361	broad.mit.edu	37	chr3	126724052	126724052	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccactgccgctcaccctcCgcccgggaggtggcgcccat	5	6	11	19	4	1	0	1	0	0	0	3	1	3	1	6	3	1	1	6	3	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:126724052C>T	uc003ejg.2	+	6	1798	c.1794C>T	c.(1792-1794)TCC>TCT	p.S598S		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	621	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GCTCACCCTCCGCCCGGGAGG	0.672													5	12					0	0	1	0	0		T	126724052	T	T	126724052	2	4	70	1	0	0	0	0	0	0	0	1	12138	639	23	1		1	PLXNA1	3	126724052	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	7261089	126724052	71298378	213	46229											
PLXNA1	5361	broad.mit.edu	37	chr3	126733355	126733355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccgaggcagggcggcaCgcggctcactatcacaggcg	7	3	17	14	5	2	0	2	0	0	0	2	1	2	0	1	6	0	3	1	6	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:126733355C>T	uc003ejg.2	+	12	2574	c.2570C>T	c.(2569-2571)ACG>ATG	p.T857M		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	880	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CAGGGCGGCACGCGGCTCACT	0.697													17	14					0	0	1	0	0		T	126733355	T	T	126733355	3	4	70	1	0	0	0	0	1	0	0	0	12138	536	19	1	2685	1	PLXNA1	3	126733355	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	9303	126733355	71289075	214	46230											
ABTB1	80325	broad.mit.edu	37	chr3	127399132	127399132	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtggagcgggaggacttCgtggaggcggtgaaggagga	8	6	22	5	3	0	1	0	1	0	0	1	7	0	7	0	9	1	0	0	9	1	1	rs140791161	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:127399132C>T	uc003ejt.2	+	12	1339	c.1251C>T	c.(1249-1251)TTC>TTT	p.F417F	ABTB1_uc003ejr.2_Silent_p.F275F|ABTB1_uc003ejs.2_Silent_p.F392F|ABTB1_uc003eju.2_Silent_p.F275F|ABTB1_uc010hsm.2_Silent_p.F144F	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	417						cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						GGGAGGACTTCGTGGAGGCGG	0.682													8	22					0	0	1	0	0		T	127399132	T	T	127399132	2	4	70	1	0	0	0	0	0	0	0	1	102	883	31	1		1	ABTB1	3	127399132	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	665777	127399132	70623298	215	46231											
MBD4	8930	broad.mit.edu	37	chr3	129156137	129156137	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaacttttggatctgaacTtcagtccttgtgggctagaa	9	14	11	7	0	2	3	1	2	1	1	3	4	3	4	1	2	2	1	1	2	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:129156137T>G	uc003emh.1	-	3	526	c.350A>C	c.(349-351)AAG>ACG	p.K117T	IFT122_uc003eml.2_5'Flank|IFT122_uc003emm.2_5'Flank|IFT122_uc003emn.2_5'Flank|IFT122_uc003emo.2_5'Flank|IFT122_uc003emp.2_5'Flank|IFT122_uc010htc.2_5'Flank|IFT122_uc011bky.1_5'Flank|IFT122_uc003emq.2_5'Flank|MBD4_uc003emi.1_Missense_Mutation_p.K117T|MBD4_uc003emj.1_Missense_Mutation_p.K117T|MBD4_uc003emk.1_Intron|MBD4_uc011bkw.1_Missense_Mutation_p.K117T|IFT122_uc011bkx.1_5'Flank	NM_003925	NP_003916	O95243	MBD4_HUMAN	methyl-CpG binding domain protein 4	117	MBD.				depyrimidination	nucleoplasm	DNA N-glycosylase activity|endodeoxyribonuclease activity|protein binding|satellite DNA binding			ovary(1)|lung(1)	2						GGATCTGAACTTCAGTCCTTG	0.333								BER_DNA_glycosylases					29	31					0	0	1	0	0		G	129156137	G	G	129156137	3	3	70	1	0	0	0	0	1	0	0	0	9364	1609	56	5	1416	5	MBD4	3	129156137	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1757005	129156137	68866293	216	46232											
DNAJC13	23317	broad.mit.edu	37	chr3	132193825	132193825	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttggaatttcaaaacaCgagaagaactgaaagatact	18	11	7	5	1	1	4	1	1	0	3	1	6	1	5	0	1	3	0	0	1	8	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:132193825C>T	uc003eor.2	+	22	2406	c.2341C>T	c.(2341-2343)CGA>TGA	p.R781*		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	781							heat shock protein binding			ovary(1)|breast(1)	2						TTTCAAAACACGAGAAGAACT	0.368													21	59					0	0	1	0	0		T	132193825	T	T	132193825	4	4	70	1	0	0	0	0	0	1	0	0	4638	528	19	1	2423	1	DNAJC13	3	132193825	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3037688	132193825	65828605	217	46233											
DNAJC13	23317	broad.mit.edu	37	chr3	132211259	132211259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtttttatgattgtaggCgcctgatgatagagaagatt	11	14	13	3	1	0	5	0	3	0	2	0	7	0	5	1	2	0	2	1	2	4	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:132211259C>T	uc003eor.2	+	33	3690	c.3625C>T	c.(3625-3627)CGC>TGC	p.R1209C		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1209							heat shock protein binding			ovary(1)|breast(1)	2						TGATTGTAGGCGCCTGATGAT	0.373													104	195					0	0	1	0	0		T	132211259	T	T	132211259	3	4	70	1	0	0	0	0	1	0	0	0	4638	782	27	1	3751	1	DNAJC13	3	132211259	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	17434	132211259	65811171	218	46234											
ACAD11	84129	broad.mit.edu	37	chr3	132322086	132322086	+	Frame_Shift_Del	DEL	T	-	-																															cactcaccactgctccaccaTtttttgccgttaattacata																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:132322086delT	uc003eov.3	-	13	1988	c.1608delA	c.(1606-1608)AAAfs	p.K536fs	ACAD11_uc011blr.1_Frame_Shift_Del_p.K147fs	NM_032169	NP_115545	Q709F0	ACD11_HUMAN	putative acyl-CoA dehydrogenase	536						peroxisome	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|transferase activity, transferring phosphorus-containing groups			ovary(1)	1						TGCTCCACCATTTTTTGCCGT	0.373													53	95	---	---	---	---						.	-	132322086	-	-	132322086	7	5	70	1	0	1	0	1	0	0	0	0	109	1490	52	0	766	0	ACAD11	3	132322086	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	110827	132322086	65700344	219	46235											
AMOTL2	51421	broad.mit.edu	37	chr3	134090119	134090119	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccaggatctccagggaggCctgggggctccctgtacccc	5	6	15	15	0	1	0	0	0	1	0	3	2	2	2	6	6	1	2	6	6	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:134090119C>A	uc003eqf.2	-	2	448	c.331G>T	c.(331-333)GCC>TCC	p.A111S	AMOTL2_uc003eqg.1_Missense_Mutation_p.A53S|AMOTL2_uc003eqh.1_Missense_Mutation_p.A53S	NM_016201	NP_057285	Q9Y2J4	AMOL2_HUMAN	angiomotin like 2	53										large_intestine(1)	1						TCCAGGGAGGCCTGGGGGCTC	0.692													10	17					4.68919e-08	4.87071e-08	1	1	0		A	134090119	A	A	134090119	3	1	70	1	0	0	0	0	1	0	0	0	584	739	26	5	2221	5	AMOTL2	3	134090119	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1768033	134090119	63932311	220	46236											
PPP2R3A	5523	broad.mit.edu	37	chr3	135721303	135721303	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagcttacaactgactccCttctccccagtgtttggcac	7	12	6	16	0	1	1	0	1	1	0	3	1	2	1	4	1	3	3	4	1	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:135721303C>A	uc003eqv.1	+	2	1528	c.963C>A	c.(961-963)CCC>CCA	p.P321P	PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	321					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						AACTGACTCCCTTCTCCCCAG	0.403													43	60					2.37825e-27	2.60728e-27	1	1	0		A	135721303	A	A	135721303	2	1	70	1	0	0	0	0	0	0	0	1	12410	668	24	5		5	PPP2R3A	3	135721303	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1631184	135721303	62301127	221	46237											
COPB2	9276	broad.mit.edu	37	chr3	139077962	139077962	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atactctgttgggtcagcaaGggattctgctgctttctgat	7	15	11	8	0	4	1	1	1	3	0	4	2	4	2	0	2	4	4	0	2	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:139077962G>T	uc003etf.3	-	19	2492	c.2362C>A	c.(2362-2364)CTT>ATT	p.L788I	COPB2_uc011bmv.1_Missense_Mutation_p.L759I|COPB2_uc010hui.2_Missense_Mutation_p.L759I	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	788					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						GGGTCAGCAAGGGATTCTGCT	0.423													49	76					4.18559e-23	4.56205e-23	1	1	0		T	139077962	T	T	139077962	3	4	70	1	0	0	0	0	1	0	0	0	3732	1000	35	5	374	5	COPB2	3	139077962	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3356659	139077962	58944468	222	46238											
COPB2	9276	broad.mit.edu	37	chr3	139090584	139090584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaagaatcgtgggcccAtgcaaactcctgagcagatc	11	8	10	12	1	1	4	0	2	1	2	4	4	2	4	2	1	3	2	2	1	3	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:139090584A>G	uc003etf.3	-	10	1316	c.1186T>C	c.(1186-1188)TGG>CGG	p.W396R	COPB2_uc011bmv.1_Missense_Mutation_p.W367R|COPB2_uc010hui.2_Missense_Mutation_p.W367R	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	396	WD 8.				COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						TCGTGGGCCCATGCAAACTCC	0.458													25	47					0	0	1	0	0		G	139090584	G	G	139090584	3	3	70	1	0	0	0	0	1	0	0	0	3732	217	8	3	1586	3	COPB2	3	139090584	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	12622	139090584	58931846	223	46239											
SR140	23350	broad.mit.edu	37	chr3	142773947	142773948	+	Frame_Shift_Ins	INS	-	A	A																															attctcctagagatgttagcINSaaaaaagccaaaaggtaaat																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:142773947_142773948insA	uc003evh.1	+	27	3036_3037	c.2937_2938insA	c.(2935-2940)AGCAAAfs	p.S979fs	SR140_uc003evi.1_Frame_Shift_Ins_p.S570fs|SR140_uc003evj.1_RNA|SR140_uc003evk.1_Frame_Shift_Ins_p.S978fs	NM_001080415	NP_001073884	O15042	SR140_HUMAN	U2-associated SR140 protein	979_980	Arg/Ser-rich.				RNA processing	nucleus	nucleotide binding|RNA binding				0						GAGATGTTAGCAAAAAAGCCAA	0.391													5	9	---	---	---	---						.	A	142773948	A	A	142773947	7	5	70	1	0	1	1	0	0	0	0	0	15156	709	25	0	3043	0	SR140	3	142773947	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	3683363	142773947	55248483	224	46240											
SUCNR1	56670	broad.mit.edu	37	chr3	151599161	151599161	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcgtcatcaactccttttAcattgtgacacggcctttgg	7	14	9	11	2	2	1	2	1	0	0	4	1	3	1	2	3	2	0	2	3	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:151599161A>G	uc003ezf.1	+	3	929	c.830A>G	c.(829-831)TAC>TGC	p.Y277C		NM_033050	NP_149039	Q9BXA5	SUCR1_HUMAN	succinate receptor 1	277	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)		Succinic acid(DB00139)	AACTCCTTTTACATTGTGACA	0.473													35	120					0	0	1	0	0		G	151599161	G	G	151599161	3	3	70	1	0	0	0	0	1	0	0	0	15391	391	14	3	836	3	SUCNR1	3	151599161	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	8825214	151599161	46423269	225	46241											
LRRC31	79782	broad.mit.edu	37	chr3	169572614	169572614	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttactcagtgacatcacGtcatctgctgttagtgagca	10	13	8	10	1	4	2	3	2	1	0	4	2	4	2	0	0	4	3	0	0	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:169572614G>A	uc003fgc.1	-	6	1055	c.978C>T	c.(976-978)GAC>GAT	p.D326D	LRRC31_uc010hwp.1_Silent_p.D270D	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	326	LRR 4.									ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			GTGACATCACGTCATCTGCTG	0.403													37	65					0	0	1	0	0		A	169572614	A	A	169572614	2	1	70	1	0	0	0	0	0	0	0	1	9004	1136	40	1		1	LRRC31	3	169572614	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	17973453	169572614	28449816	226	46242											
NLGN1	22871	broad.mit.edu	37	chr3	173999004	173999004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccagggattcagcccttaCacacattcaatacatttact	13	12	4	12	0	2	0	2	0	0	0	2	1	2	1	2	1	5	0	2	1	5	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:173999004C>T	uc003fio.1	+	7	2806	c.2383C>T	c.(2383-2385)CAC>TAC	p.H795Y	NLGN1_uc003fip.1_Missense_Mutation_p.H795Y	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	812	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TCAGCCCTTACACACATTCAA	0.458													18	36					0	0	1	0	0		T	173999004	T	T	173999004	3	4	70	1	0	0	0	0	1	0	0	0	10480	478	17	4	2401	4	NLGN1	3	173999004	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4426390	173999004	24023426	227	46243											
CCDC39	339829	broad.mit.edu	37	chr3	180378490	180378490	+	Frame_Shift_Del	DEL	T	-	-																															tgacatttcaaaccatccaaTttttgagtggctttaaatat																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:180378490delT	uc010hxe.2	-	4	499	c.384delA	c.(382-384)AAAfs	p.K128fs	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	128					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AACCATCCAATTTTTGAGTGG	0.368													4	8	---	---	---	---						.	-	180378490	-	-	180378490	7	5	70	1	0	1	0	1	0	0	0	0	2814	1490	52	0	2509	0	CCDC39	3	180378490	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	6379486	180378490	17643940	228	46244											
CCDC39	339829	broad.mit.edu	37	chr3	180379660	180379661	+	Frame_Shift_Del	DEL	TT	-	-																															aacatatacttctttatcacTtttcttttccagtattgaag																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:180379660_180379661delTT	uc010hxe.2	-	3	460_461	c.345_346delAA	c.(343-348)AAAAGTfs	p.K115fs	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	115_116	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TCTTTATCACTTTTCTTTTCCA	0.347													9	4	---	---	---	---						.	-	180379661	-	-	180379660	7	5	70	1	0	1	0	1	0	0	0	0	2814	1609	56	0	2551	0	CCDC39	3	180379660	Frame_Shift_Del	DEL	TT	TCGA-BR-8368-01A-11D-2340-08	1170	180379660	17642770	229	46245											
CHRD	8646	broad.mit.edu	37	chr3	184105718	184105718	+	Splice_Site	DEL	G	-	-																															ttgctcaatggatccctacaGgggggcactggagaggtgca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:184105718delG	uc003fov.2	+	20	2698	c.2452_splice	c.e20-1	p.G818_splice	CHRD_uc003fow.2_Splice_Site_p.G448_splice|CHRD_uc003fox.2_Splice_Site_p.G818_splice|CHRD_uc003foy.2_Splice_Site_p.G448_splice|CHRD_uc010hyc.2_Splice_Site_p.G408_splice|CHRD_uc011brr.1_Splice_Site_p.G360_splice	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor						BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GATCCCTACAGGGGGGCACTG	0.607													9	14	---	---	---	---						.	-	184105718	-	-	184105718	8	5	70	1	0	1	0	1	0	0	1	0	3375	1014	35	0	2529	0	CHRD	3	184105718	Splice_Site	DEL	G	TCGA-BR-8368-01A-11D-2340-08	3726058	184105718	13916712	230	46246											
RTP2	344892	broad.mit.edu	37	chr3	187416627	187416627	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaccaggccctcgatgtTctcctccagcatgctggact	6	10	9	16	1	1	0	0	0	1	0	5	2	3	1	5	2	2	3	5	2	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:187416627T>A	uc003fro.1	-	2	766	c.337A>T	c.(337-339)AAC>TAC	p.N113Y		NM_001004312	NP_001004312	Q5QGT7	RTP2_HUMAN	receptor transporting protein 2	113	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding				0	all_cancers(143;4.06e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0515)		CCCTCGATGTTCTCCTCCAGC	0.682													9	15					0	0	1	0	0		A	187416627	A	A	187416627	3	1	70	1	0	0	0	0	1	0	0	0	13759	1783	62	5	344	5	RTP2	3	187416627	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	3310909	187416627	10605803	231	46247											
DLG1	1739	broad.mit.edu	37	chr3	196817823	196817823	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctagttcgaagagaacCtgaccctgaactaatactac	13	9	8	11	1	0	3	0	2	0	1	1	5	0	3	2	1	4	2	2	1	7	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:196817823C>A	uc003fxo.3	-	16	1910	c.1720G>T	c.(1720-1722)GGT>TGT	p.G574C	DLG1_uc011bub.1_Missense_Mutation_p.G458C|DLG1_uc011buc.1_Missense_Mutation_p.G458C|DLG1_uc011bud.1_Missense_Mutation_p.G257C|DLG1_uc003fxn.3_Missense_Mutation_p.G574C|DLG1_uc011bue.1_Missense_Mutation_p.G541C|DLG1_uc010ial.2_Missense_Mutation_p.G574C|DLG1_uc011buf.1_RNA|DLG1_uc003fxp.2_RNA|DLG1_uc010iam.1_Missense_Mutation_p.G541C	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	574					actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		CGAAGAGAACCTGACCCTGAA	0.323													18	78					2.4624e-09	2.56718e-09	1	1	0		A	196817823	A	A	196817823	3	1	70	1	0	0	0	0	1	0	0	0	4560	681	24	5	1142	5	DLG1	3	196817823	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	9401196	196817823	1204607	232	46248											
DLG1	1739	broad.mit.edu	37	chr3	196857544	196857545	+	Splice_Site	INS	-	A	A																															taaacatacgttattcacctINSaaaaaaagtcccaaaagaca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:196857544_196857545insA	uc003fxo.3	-	12	1310	c.1120_splice	c.e12-1	p.V374_splice	DLG1_uc011bub.1_Splice_Site_p.V258_splice|DLG1_uc011buc.1_Splice_Site_p.V258_splice|DLG1_uc011bud.1_Splice_Site_p.V57_splice|DLG1_uc003fxn.3_Splice_Site_p.V374_splice|DLG1_uc011bue.1_Splice_Site_p.V341_splice|DLG1_uc010ial.2_Splice_Site_p.V374_splice|DLG1_uc011buf.1_Splice_Site|DLG1_uc003fxp.2_Splice_Site|DLG1_uc010iam.1_Splice_Site_p.V341_splice|DLG1_uc010ian.2_Splice_Site_p.V241_splice	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1						actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		GTTATTCACCTAAAAAAAGTCC	0.332													30	18	---	---	---	---						.	A	196857545	A	A	196857544	8	5	70	1	0	1	1	0	0	0	1	0	4560	1536	53	0	1760	0	DLG1	3	196857544	Splice_Site	INS	-	TCGA-BR-8368-01A-11D-2340-08	39721	196857544	1164886	233	46249											
KIAA0226	9711	broad.mit.edu	37	chr3	197408185	197408185	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcattctcgtggcagcActggcagaagtacttgccca	8	9	12	12	1	1	1	0	0	1	1	2	1	1	1	1	3	3	5	1	3	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr3:197408185A>C	uc003fyc.2	-	16	2428	c.2245T>G	c.(2245-2247)TGC>GGC	p.C749G	KIAA0226_uc003fyd.3_Missense_Mutation_p.C704G|KIAA0226_uc003fye.1_Missense_Mutation_p.C481G	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	749					autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		TCGTGGCAGCACTGGCAGAAG	0.527													41	70					0	0	1	0	0		C	197408185	C	C	197408185	3	2	70	1	0	0	0	0	1	0	0	0	8178	159	6	5	693	5	KIAA0226	3	197408185	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	550641	197408185	614245	234	46250											
FGFRL1	53834	broad.mit.edu	37	chr4	1016196	1016196	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagcgggaggatgccggCgtgtacgtgtgcaaggccac	7	6	19	9	4	0	0	0	0	0	0	0	3	0	3	2	5	4	2	2	5	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:1016196C>T	uc003gce.2	+	3	446	c.285C>T	c.(283-285)GGC>GGT	p.G95G	FGFRL1_uc003gcf.2_Silent_p.G95G|FGFRL1_uc003gcg.2_Silent_p.G95G|FGFRL1_uc010ibo.2_Silent_p.G95G	NM_021923	NP_068742	Q8N441	FGRL1_HUMAN	fibroblast growth factor receptor-like 1	95	Ig-like C2-type 1.|Extracellular (Potential).				regulation of cell growth	integral to membrane|plasma membrane	fibroblast growth factor receptor activity|heparin binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			AGGATGCCGGCGTGTACGTGT	0.657													3	15					0	0	1	0	0		T	1016196	T	T	1016196	2	4	70	1	0	0	0	0	0	0	0	1	5883	755	27	1		1	FGFRL1	4	1016196	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08		1016196	190138080	235	46251											
WHSC1	7468	broad.mit.edu	37	chr4	1980430	1980430	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgacttcattttgccacCtctgccccaattcgttctgt	5	16	5	15	2	3	0	1	0	2	0	5	1	3	0	4	0	2	1	4	0	1	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:1980430C>A	uc003gdz.3	+	22	4068	c.3892C>A	c.(3892-3894)CTC>ATC	p.L1298I	WHSC1_uc003geb.3_Missense_Mutation_p.L1298I|WHSC1_uc003gec.3_Missense_Mutation_p.L1298I|WHSC1_uc003ged.3_Missense_Mutation_p.L1298I|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gei.3_Missense_Mutation_p.L517I|WHSC1_uc011bvh.1_Missense_Mutation_p.L359I|WHSC1_uc010icf.2_Missense_Mutation_p.L646I	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	1298					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		ATTTTGCCACCTCTGCCCCAA	0.557			T	IGH@	MM								18	37					3.99206e-14	4.26855e-14	1	1	0		A	1980430	A	A	1980430	3	1	70	1	0	0	0	0	1	0	0	0	17388	681	24	5	4050	5	WHSC1	4	1980430	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	964234	1980430	189173846	236	46252											
WFS1	7466	broad.mit.edu	37	chr4	6303935	6303935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccaaggacatcgtgctgCgggccagcagcgagttcaag	10	6	13	12	3	2	0	2	0	0	0	3	2	2	1	2	2	4	3	2	2	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:6303935C>T	uc003giy.2	+	8	2579	c.2413C>T	c.(2413-2415)CGG>TGG	p.R805W	WFS1_uc003gix.2_Missense_Mutation_p.R805W|WFS1_uc003giz.2_Missense_Mutation_p.R623W	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	805					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		CATCGTGCTGCGGGCCAGCAG	0.657													12	40					0	0	1	0	0		T	6303935	T	T	6303935	3	4	70	1	0	0	0	0	1	0	0	0	17386	759	27	1	2439	1	WFS1	4	6303935	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4323505	6303935	184850341	237	46253											
PPP2R2C	5522	broad.mit.edu	37	chr4	6331024	6331024	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggcacattcaaacttgtcGaaaatgcagtcgttctcgta	12	11	8	10	3	2	0	1	0	1	0	5	1	2	0	0	1	2	4	0	1	4	4	rs145291210		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:6331024G>A	uc003gjc.2	-	8	1387	c.1017C>T	c.(1015-1017)TTC>TTT	p.F339F	PPP2R2C_uc003gjb.2_Silent_p.F322F|PPP2R2C_uc011bwd.1_Silent_p.F332F|PPP2R2C_uc011bwe.1_Silent_p.F332F|PPP2R2C_uc003gja.2_Silent_p.F339F	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	339	WD 6.				signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						CAAACTTGTCGAAAATGCAGT	0.592													16	34					0	0	1	0	0		A	6331024	A	A	6331024	2	1	70	1	0	0	0	0	0	0	0	1	12408	1049	37	1		1	PPP2R2C	4	6331024	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	27089	6331024	184823252	238	46254											
BOD1L	259282	broad.mit.edu	37	chr4	13610162	13610162	+	Frame_Shift_Del	DEL	T	-	-																															taaaatatgtaccttgaatcTttttttctctttttgcttaa																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:13610162delT	uc003gmz.1	-	8	1851	c.1734delA	c.(1732-1734)AAAfs	p.K578fs	BOD1L_uc010idr.1_5'UTR	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	578	Lys-rich.						DNA binding			ovary(5)|breast(1)	6						ACCTTGAATCTTTTTTTCTCT	0.358													5	4	---	---	---	---						.	-	13610162	-	-	13610162	7	5	70	1	0	1	0	1	0	0	0	0	1484	1606	56	0	7497	0	BOD1L	4	13610162	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	7279138	13610162	177544114	239	46255											
CPEB2	132864	broad.mit.edu	37	chr4	15067820	15067820	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgaccagatgtgtgatgAatgccagggcgcacgctgtg	10	8	15	8	2	0	5	0	3	0	2	0	5	0	5	2	1	1	2	2	1	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:15067820A>G	uc003gni.1	+	11	1673	c.1586A>G	c.(1585-1587)GAA>GGA	p.E529G	CPEB2_uc003gnj.1_Missense_Mutation_p.E499G|CPEB2_uc003gnk.1_Missense_Mutation_p.E537G|CPEB2_uc003gnl.1_Missense_Mutation_p.E510G|CPEB2_uc003gnm.1_Missense_Mutation_p.E507G|CPEB2_uc003gnn.1_Missense_Mutation_p.E502G	NM_182485	NP_872291	Q7Z5Q1	CPEB2_HUMAN	cytoplasmic polyadenylation element binding	529					regulation of translation	cytoplasm	nucleotide binding|RNA binding			skin(1)	1						ATGTGTGATGAATGCCAGGGC	0.423													18	114					0	0	1	0	0		G	15067820	G	G	15067820	3	3	70	1	0	0	0	0	1	0	0	0	3804	246	9	3	2976	3	CPEB2	4	15067820	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	1457658	15067820	176086456	240	46256											
SEL1L3	23231	broad.mit.edu	37	chr4	25759394	25759394	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggggctgaaggactcctcGttactgtggctccagcacct	7	9	12	13	1	0	1	0	1	0	0	3	2	2	2	3	4	2	4	3	4	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:25759394G>A	uc003gru.3	-	22	3254	c.3102C>T	c.(3100-3102)AAC>AAT	p.N1034N	SEL1L3_uc003grt.2_Silent_p.N82N|SEL1L3_uc003grv.2_Silent_p.N441N	NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	1034						integral to membrane	binding				0						AGGACTCCTCGTTACTGTGGC	0.567													3	3					0	0	1	0	0		A	25759394	A	A	25759394	2	1	70	1	0	0	0	0	0	0	0	1	14037	1136	40	1		1	SEL1L3	4	25759394	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	10691574	25759394	165394882	241	46257											
RFC1	5981	broad.mit.edu	37	chr4	39308307	39308307	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccatcatctttgccggaaaAtttaccaaactttgctgcta	11	13	6	11	1	2	0	1	0	1	0	2	1	2	1	3	1	5	2	3	1	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:39308307A>T	uc003gty.1	-	14	2037	c.1903T>A	c.(1903-1905)TTT>ATT	p.F635I	RFC1_uc003gtx.1_Missense_Mutation_p.F634I	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit	635					DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4						TTGCCGGAAAATTTACCAAAC	0.448													15	21					0	0	1	0	0		T	39308307	T	T	39308307	3	4	70	1	0	0	0	0	1	0	0	0	13269	101	4	5	1591	5	RFC1	4	39308307	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	13548913	39308307	151845969	242	46258											
SHISA3	152573	broad.mit.edu	37	chr4	42403209	42403209	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccatgatcctgacctccaCcagccccagggcaccctccc	7	5	7	22	0	0	2	0	2	0	0	3	2	3	2	9	1	1	1	9	1	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:42403209C>A	uc003gwp.2	+	2	676	c.458C>A	c.(457-459)ACC>AAC	p.T153N		NM_001080505	NP_001073974	A0PJX4	SHSA3_HUMAN	shisa homolog 3 precursor	153	Cytoplasmic (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|skin(1)	2						CTGACCTCCACCAGCCCCAGG	0.647													56	128					1.53122e-18	1.65295e-18	1	1	0		A	42403209	A	A	42403209	3	1	70	1	0	0	0	0	1	0	0	0	14306	507	18	5	464	5	SHISA3	4	42403209	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3094902	42403209	148751067	243	46259											
GABRB1	2560	broad.mit.edu	37	chr4	47427857	47427857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccgcgaggcctacgggcGcgccctggaccggcacgggg	5	2	18	16	7	0	0	0	0	0	0	0	2	0	1	4	6	2	1	4	6	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:47427857G>A	uc003gxh.2	+	9	1621	c.1247G>A	c.(1246-1248)CGC>CAC	p.R416H	GABRB1_uc011bze.1_Missense_Mutation_p.R346H	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	416	Cytoplasmic (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	GCCTACGGGCGCGCCCTGGAC	0.642													30	44					0	0	1	0	0		A	47427857	A	A	47427857	3	1	70	1	0	0	0	0	1	0	0	0	6180	1087	38	1	1281	1	GABRB1	4	47427857	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	5024648	47427857	143726419	244	46260											
CLOCK	9575	broad.mit.edu	37	chr4	56345050	56345050	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtccatctttctagcattaCcaggaagcatggatcccagt	10	12	8	11	0	2	0	0	0	2	0	4	2	4	2	3	2	3	2	3	2	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:56345050C>T	uc003haz.1	-	7	1114	c.188G>A	c.(187-189)GGT>GAT	p.G63D	CLOCK_uc003hba.1_Missense_Mutation_p.G63D	NM_004898	NP_004889	O15516	CLOCK_HUMAN	clock	63	Helix-loop-helix motif.				circadian rhythm|photoperiodism|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|transcription factor complex	DNA binding|histone acetyltransferase activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(2)|ovary(1)	3	Lung NSC(11;0.00335)|Glioma(25;0.08)|all_epithelial(27;0.0992)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0107)			tctagcattaccaggaagcat	0.149													22	30					0	0	1	0	0		T	56345050	T	T	56345050	3	4	70	1	0	0	0	0	1	0	0	0	3552	507	18	4	2424	4	CLOCK	4	56345050	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	8917193	56345050	134809226	245	46261											
UGT2B10	7365	broad.mit.edu	37	chr4	69696564	69696564	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttttgtttctggaagttTgctagaaaaggaaagaaggg	12	13	13	3	0	1	2	0	0	1	2	1	4	1	4	0	3	1	4	0	3	6	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:69696564T>C	uc003hee.2	+	6	1579	c.1554T>C	c.(1552-1554)TTT>TTC	p.F518F	UGT2B10_uc011cam.1_Silent_p.F434F	NM_001075	NP_001066	P36537	UDB10_HUMAN	UDP glucuronosyltransferase 2B10 isoform 1	518					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						TCTGGAAGTTTGCTAGAAAAG	0.393													27	82					0	0	1	0	0		C	69696564	C	C	69696564	2	2	70	1	0	0	0	0	0	0	0	1	16982	1809	63	3		3	UGT2B10	4	69696564	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	13351514	69696564	121457712	246	46262											
NPFFR2	10886	broad.mit.edu	37	chr4	72897770	72897770	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcggaagcctggagtggaGcaggcagtccgcgggggaca	9	3	20	9	3	0	0	0	0	0	0	1	5	1	4	2	6	3	2	2	6	1	0	rs146044348	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:72897770G>T	uc003hgg.2	+	1	250	c.152G>T	c.(151-153)AGC>ATC	p.S51I	NPFFR2_uc010iig.1_5'UTR	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	51	Extracellular (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			CTGGAGTGGAGCAGGCAGTCC	0.677													15	8					5.01169e-05	5.12074e-05	1	1	0		T	72897770	T	T	72897770	3	4	70	1	0	0	0	0	1	0	0	0	10597	971	34	5	154	5	NPFFR2	4	72897770	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3201206	72897770	118256506	247	46263											
C4orf26	152816	broad.mit.edu	37	chr4	76481344	76481344	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tactggtatgctggttggtgGtaactgtggcagaaggtaag	9	12	16	4	0	0	1	0	0	0	1	0	1	0	1	0	6	3	6	0	6	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:76481344G>C	uc003hip.1	+	1	87	c.52G>C	c.(52-54)GTA>CTA	p.V18L	C4orf26_uc011cbn.1_RNA|C4orf26_uc011cbo.1_Missense_Mutation_p.V18L	NM_178497	NP_848592	Q17RF5	CD026_HUMAN	hypothetical protein LOC152816 precursor	18						extracellular region					0			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			CTGGTTGGTGGTAACTGTGGC	0.443													19	31					0	0	1	0	0		C	76481344	C	C	76481344	3	2	70	1	0	0	0	0	1	0	0	0	2260	1261	44	5	54	5	C4orf26	4	76481344	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3583574	76481344	114672932	248	46264											
SHROOM3	57619	broad.mit.edu	37	chr4	77663059	77663059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtccaggtcatctcccGccaccgcagacaagcgccag	9	5	11	16	3	2	2	1	1	1	1	4	2	3	2	5	2	1	1	5	2	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:77663059G>A	uc011cbx.1	+	5	4686	c.3733G>A	c.(3733-3735)GCC>ACC	p.A1245T	SHROOM3_uc011cbz.1_Missense_Mutation_p.A1069T|SHROOM3_uc003hkf.1_Missense_Mutation_p.A1120T|SHROOM3_uc003hkg.2_Missense_Mutation_p.A1023T	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	1245					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			GTCATCTCCCGCCACCGCAGA	0.657													7	13					0	0	1	0	0		A	77663059	A	A	77663059	3	1	70	1	0	0	0	0	1	0	0	0	14320	1087	38	1	3751	1	SHROOM3	4	77663059	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1181715	77663059	113491217	249	46265											
WDFY3	23001	broad.mit.edu	37	chr4	85707176	85707176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatttgttatacactttccGgattcttgccactgttagag	9	16	7	9	1	1	1	0	0	1	1	2	2	2	2	2	1	2	2	2	1	4	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:85707176G>A	uc003hpd.2	-	24	4426	c.4018C>T	c.(4018-4020)CGG>TGG	p.R1340W		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1340						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TACACTTTCCGGATTCTTGCC	0.463													29	41					0	0	1	0	0		A	85707176	A	A	85707176	3	1	70	1	0	0	0	0	1	0	0	0	17296	1115	39	1	6742	1	WDFY3	4	85707176	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	8044117	85707176	105447100	250	46266											
KLHL8	57563	broad.mit.edu	37	chr4	88091723	88091723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattgtcatctaaccctccaAttgcataaattgggcctcct	10	14	5	12	0	2	0	1	0	1	0	4	0	4	0	4	1	2	1	4	1	5	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:88091723A>G	uc011cdb.1	-	7	1638	c.1253T>C	c.(1252-1254)ATT>ACT	p.I418T	KLHL8_uc003hql.1_Missense_Mutation_p.I418T|KLHL8_uc003hqm.1_Missense_Mutation_p.I342T|KLHL8_uc003hqn.1_Missense_Mutation_p.I235T|KLHL8_uc010ikj.1_Missense_Mutation_p.I67T	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8	418	Kelch 3.										0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		TAACCCTCCAATTGCATAAAT	0.413													37	61					0	0	1	0	0		G	88091723	G	G	88091723	3	3	70	1	0	0	0	0	1	0	0	0	8411	101	4	3	625	3	KLHL8	4	88091723	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	2384547	88091723	103062553	251	46267											
RG9MTD2	93587	broad.mit.edu	37	chr4	100479335	100479335	+	Frame_Shift_Del	DEL	T	-	-																															atttgacattgtcgctctaaTtttttcctcttgcgtttttc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:100479335delT	uc003huy.2	-	3	532	c.219delA	c.(217-219)AAAfs	p.K73fs	RG9MTD2_uc003huz.3_Frame_Shift_Del_p.K73fs|RG9MTD2_uc003hva.3_Frame_Shift_Del_p.K73fs	NM_152292	NP_689505	Q8TBZ6	RG9D2_HUMAN	RNA (guanine-9-) methyltransferase domain	73	Potential.						methyltransferase activity			ovary(2)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;1.7e-08)		GTCGCTCTAATTTTTTCCTCT	0.328													23	36	---	---	---	---						.	-	100479335	-	-	100479335	7	5	70	1	0	1	0	1	0	0	0	0	13297	1490	52	0	824	0	RG9MTD2	4	100479335	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	12387612	100479335	90674941	252	46268											
ADAD1	132612	broad.mit.edu	37	chr4	123302332	123302332	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accttaaggaaactgtgacaAcaggcaagtgtaaaattgta	17	9	9	6	0	0	1	0	1	0	0	0	2	0	2	1	2	2	3	1	2	7	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:123302332A>G	uc003ieo.2	+	4	590	c.358A>G	c.(358-360)ACA>GCA	p.T120A	ADAD1_uc003iep.2_Missense_Mutation_p.T120A|ADAD1_uc003ieq.2_Missense_Mutation_p.T102A	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	120	DRBM.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						AACTGTGACAACAGGCAAGTG	0.353													16	60					0	0	1	0	0		G	123302332	G	G	123302332	3	3	70	1	0	0	0	0	1	0	0	0	231	43	2	3	364	3	ADAD1	4	123302332	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	22822997	123302332	67851944	253	46269											
ANKRD50	57182	broad.mit.edu	37	chr4	125591535	125591535	+	Frame_Shift_Del	DEL	A	-	-																															ctacgtttgcaccattttctAaaaaatattcggccattgta																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:125591535delA	uc003ifg.3	-	3	3163	c.2897delT	c.(2896-2898)TTAfs	p.L966fs	ANKRD50_uc011cgo.1_Frame_Shift_Del_p.L787fs|ANKRD50_uc010inw.2_Frame_Shift_Del_p.L966fs	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	966	ANK 15.									central_nervous_system(1)	1						ACCATTTTCTAAAAAATATTC	0.428													38	71	---	---	---	---						.	-	125591535	-	-	125591535	7	5	70	1	0	1	0	1	0	0	0	0	677	372	13	0	1396	0	ANKRD50	4	125591535	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	2289203	125591535	65562741	254	46270											
FAT4	79633	broad.mit.edu	37	chr4	126238516	126238516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggacttcgaagctcggcGccaatactcgcttacggtgc	7	9	11	14	5	0	0	0	0	0	0	3	2	0	1	2	3	4	2	2	3	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:126238516G>A	uc003ifj.3	+	1	950	c.950G>A	c.(949-951)CGC>CAC	p.R317H		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	317	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAAGCTCGGCGCCAATACTCG	0.627											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	34					0	0	1	0	0		A	126238516	A	A	126238516	3	1	70	1	0	0	0	0	1	0	0	0	5706	1087	38	1	952	1	FAT4	4	126238516	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	646981	126238516	64915760	255	46271											
HHIP	64399	broad.mit.edu	37	chr4	145629414	145629414	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacccacacttcaacagcAccaaccagccccccgaagtg	13	3	6	19	1	1	0	1	0	0	0	1	1	1	0	6	0	5	2	6	0	4	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:145629414A>G	uc003ijs.1	+	7	1907	c.1252A>G	c.(1252-1254)ACC>GCC	p.T418A		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	418						cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		CTTCAACAGCACCAACCAGCC	0.542													20	41					0	0	1	0	0		G	145629414	G	G	145629414	3	3	70	1	0	0	0	0	1	0	0	0	7108	159	6	3	1278	3	HHIP	4	145629414	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	19390898	145629414	45524862	256	46272											
DCHS2	54798	broad.mit.edu	37	chr4	155243618	155243618	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccattgttggcgtcaatCttaaagtgatcagaactatc	12	13	7	9	1	4	2	3	1	1	1	5	2	4	2	1	1	1	1	1	1	5	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:155243618C>A	uc003inw.2	-	13	2676	c.2676G>T	c.(2674-2676)AAG>AAT	p.K892N		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	892	Cadherin 7.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TGGCGTCAATCTTAAAGTGAT	0.348													4	30					0.010729	0.0108057	1	1	0		A	155243618	A	A	155243618	3	1	70	1	0	0	0	0	1	0	0	0	4291	912	32	5	6126	5	DCHS2	4	155243618	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	9614204	155243618	35910658	257	46273											
FNIP2	57600	broad.mit.edu	37	chr4	159756589	159756589	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagttgatatgccaagcagaGgacagaatgaagacagggac	16	5	13	7	0	0	5	0	2	0	3	0	7	0	7	1	2	2	2	1	2	4	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:159756589G>T	uc003iqe.3	+	7	871	c.688G>T	c.(688-690)GGA>TGA	p.G230*		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	230					DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		GCCAAGCAGAGGACAGAATGA	0.408													52	122					3.76997e-23	4.11302e-23	1	1	0		T	159756589	T	T	159756589	4	4	70	1	0	0	0	0	0	1	0	0	5990	1001	35	5	714	5	FNIP2	4	159756589	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4512971	159756589	31397687	258	46274											
SC4MOL	6307	broad.mit.edu	37	chr4	166254715	166254715	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaagccctttatttcttaTtctgtttacctggattttta	8	21	5	7	0	2	1	0	1	2	0	2	2	2	2	2	1	2	1	2	1	5	10			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:166254715T>C	uc003ire.2	+	2	323	c.193T>C	c.(193-195)TTC>CTC	p.F65L	SC4MOL_uc010irb.2_Missense_Mutation_p.F65L|SC4MOL_uc003irf.2_Intron	NM_006745	NP_006736	Q15800	ERG25_HUMAN	sterol-C4-methyl oxidase-like isoform 1	65	Helical; (Potential).				cholesterol biosynthetic process|fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	C-4 methylsterol oxidase activity|iron ion binding				0	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0875)	NADH(DB00157)	TTATTTCTTATTCTGTTTACC	0.274													21	38					0	0	1	0	0		C	166254715	C	C	166254715	3	2	70	1	0	0	0	0	1	0	0	0	13890	1493	52	3	195	3	SC4MOL	4	166254715	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	6498126	166254715	24899561	259	46275											
ODZ3	55714	broad.mit.edu	37	chr4	183714323	183714323	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catttactgaacccaagtaaCagtgcgcgtctgacacccct	11	9	7	14	2	1	2	0	2	1	0	1	2	1	2	3	0	4	1	3	0	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr4:183714323C>A	uc003ivd.1	+	25	6535	c.6498C>A	c.(6496-6498)AAC>AAA	p.N2166K		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2166	Extracellular (Potential).|YD 19.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		ACCCAAGTAACAGTGCGCGTC	0.453													46	89					3.77016e-25	4.12521e-25	1	1	0		A	183714323	A	A	183714323	3	1	70	1	0	0	0	0	1	0	0	0	10855	477	17	5	6596	5	ODZ3	4	183714323	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	17459608	183714323	7439953	260	46276											
EXOC3	11336	broad.mit.edu	37	chr5	464452	464452	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtggctattagggtcaaaCgctgtagacattatctgtgt	11	13	11	6	1	2	1	1	0	1	1	2	1	2	1	0	2	1	3	0	2	6	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:464452C>T	uc003jba.2	+	10	1829	c.1701C>T	c.(1699-1701)AAC>AAT	p.N567N		NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein	578					exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			TAGGGTCAAACGCTGTAGACA	0.418													29	49					0	0	1	0	0		T	464452	T	T	464452	2	4	70	1	0	0	0	0	0	0	0	1	5311	535	19	1		1	EXOC3	5	464452	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08		464452	180450808	261	46277											
TRIO	7204	broad.mit.edu	37	chr5	14482694	14482694	+	Frame_Shift_Del	DEL	A	-	-																															tttatttcttgttttaggggAaaatcgttgcccagggtaaa																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:14482694delA	uc003jff.2	+	46	6475	c.6469delA	c.(6469-6471)AAAfs	p.K2157fs	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Frame_Shift_Del_p.K1806fs	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2157	PH 2.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GTTTTAGGGGAAAATCGTTGC	0.453													13	28	---	---	---	---						.	-	14482694	-	-	14482694	7	5	70	1	0	1	0	1	0	0	0	0	16578	247	9	0	6651	0	TRIO	5	14482694	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	14018242	14482694	166432566	262	46278											
CDH6	1004	broad.mit.edu	37	chr5	31297469	31297469	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagtgctaaagttgtctaCagtattctacagggacagcc	13	10	9	9	0	2	0	0	0	2	0	2	1	2	1	1	1	5	3	1	1	6	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:31297469C>A	uc003jhe.1	+	4	923	c.597C>A	c.(595-597)TAC>TAA	p.Y199*	CDH6_uc003jhd.1_Nonsense_Mutation_p.Y199*	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	199	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						AAGTTGTCTACAGTATTCTAC	0.353													29	66					1.16021e-09	1.2107e-09	1	1	0		A	31297469	A	A	31297469	4	1	70	1	0	0	0	0	0	1	0	0	3117	489	17	5	607	5	CDH6	5	31297469	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	16814775	31297469	149617791	263	46279											
ITGA1	3672	broad.mit.edu	37	chr5	52194127	52194127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatggaacagttgtcatgcAgaaggctagtcaaatcataa	16	9	10	6	0	3	1	3	0	0	1	3	3	3	2	0	2	2	3	0	2	6	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:52194127A>G	uc003jou.2	+	11	1275	c.1223A>G	c.(1222-1224)CAG>CGG	p.Q408R	ITGA1_uc003jov.2_RNA	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	408	Extracellular (Potential).|FG-GAP 3.				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				GTTGTCATGCAGAAGGCTAGT	0.348													11	22					0	0	1	0	0		G	52194127	G	G	52194127	3	3	70	1	0	0	0	0	1	0	0	0	7888	188	7	3	1265	3	ITGA1	5	52194127	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	20896658	52194127	128721133	264	46280											
SNX18	112574	broad.mit.edu	37	chr5	53815059	53815059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacctgcaggaggtggagaGcaagatcgacggcttcaagt	11	7	15	8	2	1	3	1	1	0	2	2	6	1	4	1	4	2	3	1	4	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:53815059G>A	uc003jpj.3	+	1	1467	c.1277G>A	c.(1276-1278)AGC>AAC	p.S426N	SNX18_uc011cqg.1_Missense_Mutation_p.S426N|SNX18_uc003jpi.3_Missense_Mutation_p.S426N	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	426	BAR.				cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)				GAGGTGGAGAGCAAGATCGAC	0.632													13	25					0	0	1	0	0		A	53815059	A	A	53815059	3	1	70	1	0	0	0	0	1	0	0	0	14914	971	34	2	1279	2	SNX18	5	53815059	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1620932	53815059	127100201	265	46281											
C5orf35	133383	broad.mit.edu	37	chr5	56209750	56209750	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttaaaaatgagtgatagtAcatggctaacgtcagaaatt	16	12	8	5	1	1	3	1	2	0	1	1	3	1	3	0	1	2	2	0	1	7	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:56209750A>G	uc003jqx.2	+	4	1013	c.640A>G	c.(640-642)ACA>GCA	p.T214A	C5orf35_uc003jqy.2_RNA	NM_153706	NP_714917	Q8NE22	CE035_HUMAN	hypothetical protein LOC133383	214										ovary(1)	1		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.173)		OV - Ovarian serous cystadenocarcinoma(10;2.58e-39)		GAGTGATAGTACATGGCTAAC	0.413													15	30					0	0	1	0	0		G	56209750	G	G	56209750	3	3	70	1	0	0	0	0	1	0	0	0	2297	391	14	3	654	3	C5orf35	5	56209750	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	2394691	56209750	124705510	266	46282											
VCAN	1462	broad.mit.edu	37	chr5	82835591	82835591	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agctcttattctctggactgGgatcaggagaagaagtttta	11	13	11	6	0	3	2	1	0	2	2	4	5	3	4	0	3	1	2	0	3	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:82835591G>T	uc003kii.3	+	8	7125	c.6769G>T	c.(6769-6771)GGA>TGA	p.G2257*	VCAN_uc003kij.3_Nonsense_Mutation_p.G1270*|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Nonsense_Mutation_p.G921*	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2257	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CTCTGGACTGGGATCAGGAGA	0.378													28	54					2.44723e-14	2.6242e-14	1	1	0		T	82835591	T	T	82835591	4	4	70	1	0	0	0	0	0	1	0	0	17164	1233	43	5	6795	5	VCAN	5	82835591	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	26625841	82835591	98079669	267	46283											
POU5F2	134187	broad.mit.edu	37	chr5	93076993	93076993	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgccttcggaggggcgtcGcaaccagtcccctgcctcac	5	6	13	17	4	1	0	1	0	0	0	4	1	2	1	5	4	2	1	5	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:93076993G>A	uc003kkl.1	-	1	317	c.277C>T	c.(277-279)CGA>TGA	p.R93*	FAM172A_uc010jbd.2_Intron|FAM172A_uc011cuf.1_Intron|FAM172A_uc011cug.1_Intron|FAM172A_uc011cuh.1_Intron|FAM172A_uc011cui.1_Intron|FAM172A_uc011cuj.1_Intron	NM_153216	NP_694948	Q8N7G0	PO5F2_HUMAN	POU domain class 5, transcription factor 2	93						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(142;3.87e-05)|all_epithelial(76;4.59e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0415)|all cancers(79;2.03e-19)		GAGGGGCGTCGCAACCAGTCC	0.652													14	5					0	0	1	0	0		A	93076993	A	A	93076993	4	1	70	1	0	0	0	0	0	1	0	0	12302	1095	38	1	713	1	POU5F2	5	93076993	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	10241402	93076993	87838267	268	46284											
PGGT1B	5229	broad.mit.edu	37	chr5	114552569	114552570	+	Frame_Shift_Ins	INS	-	C	C																															gaaaataattacctggatgaINSctgtctggccacttggcaaa																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:114552569_114552570insC	uc003kqw.3	-	8	965_966	c.944_945insG	c.(943-945)AGTfs	p.S315fs	PGGT1B_uc003kqx.3_Frame_Shift_Ins_p.S192fs|PGGT1B_uc010jch.2_Frame_Shift_Ins_p.S238fs	NM_005023	NP_005014	P53609	PGTB1_HUMAN	geranylgeranyltransferase type 1 beta	315	PFTB 4.				protein geranylgeranylation	CAAX-protein geranylgeranyltransferase complex	CAAX-protein geranylgeranyltransferase activity				0		all_cancers(142;0.000523)|all_epithelial(76;6.45e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		Epithelial(69;2.95e-08)|OV - Ovarian serous cystadenocarcinoma(64;4.98e-08)|all cancers(49;3.1e-06)	Pravastatin(DB00175)	TACCTGGATGACTGTCTGGCCA	0.327													13	13	---	---	---	---						.	C	114552570	C	C	114552569	7	5	70	1	0	1	1	0	0	0	0	0	11808	272	10	0	196	0	PGGT1B	5	114552569	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	21475576	114552569	66362691	269	46285											
DMXL1	1657	broad.mit.edu	37	chr5	118507479	118507479	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgtttttaaggaaacaTcagaaccactattttctagc	12	16	5	8	0	3	1	1	0	2	1	3	2	3	2	1	1	3	1	1	1	5	8			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:118507479T>C	uc003ksd.2	+	25	6677	c.6496T>C	c.(6496-6498)TCA>CCA	p.S2166P	DMXL1_uc010jcl.1_Missense_Mutation_p.S2166P	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2166										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		TAAGGAAACATCAGAACCACT	0.378													14	97					0	0	1	0	0		C	118507479	C	C	118507479	3	2	70	1	0	0	0	0	1	0	0	0	4600	1435	50	3	6594	3	DMXL1	5	118507479	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	3954910	118507479	62407781	270	46286											
ZNF474	133923	broad.mit.edu	37	chr5	121488779	121488779	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtggtgccctctgcctgtAggggaacaagagaaaactat	11	9	13	8	0	1	1	0	0	1	1	1	3	1	2	2	4	4	1	2	4	6	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:121488779A>G	uc003ksv.2	+	2	1470	c.1094A>G	c.(1093-1095)TAG>TGG	p.*365W		NM_207317	NP_997200	Q6S9Z5	ZN474_HUMAN	zinc finger protein 474	365						intracellular	zinc ion binding				0		all_cancers(142;0.229)|Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000197)|Epithelial(69;0.00029)|all cancers(49;0.00415)		CTCTGCCTGTAGGGGAACAAG	0.483													19	18					0	0	1	0	0		G	121488779	G	G	121488779	4	3	70	1	0	0	0	0	0	0	0	0	17957	433	15	3	1096	3	ZNF474	5	121488779	Nonstop_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	2981300	121488779	59426481	271	46287											
GFRA3	2676	broad.mit.edu	37	chr5	137593489	137593489	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggccctgcgcgtggggctcGgcggccttctcgaagaaagt	6	7	16	12	5	1	1	0	0	1	1	3	2	1	1	2	5	1	1	2	5	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:137593489G>A	uc003lcn.2	-	4	764	c.624C>T	c.(622-624)GCC>GCT	p.A208A	GFRA3_uc003lco.2_Silent_p.A177A	NM_001496	NP_001487	O60609	GFRA3_HUMAN	GDNF family receptor alpha 3 preproprotein	208					peripheral nervous system development	anchored to membrane|cytoplasm|extrinsic to membrane|intracellular membrane-bounded organelle	receptor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CGTGGGGCTCGGCGGCCTTCT	0.726													11	19					0	0	1	0	0		A	137593489	A	A	137593489	2	1	70	1	0	0	0	0	0	0	0	1	6364	1103	39	1		1	GFRA3	5	137593489	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	16104710	137593489	43321771	272	46288											
SLC23A1	9963	broad.mit.edu	37	chr5	138715024	138715024	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacagcagccgcagtcacCgtgggcaggccccactgacc	9	3	13	16	2	1	1	1	1	0	0	1	2	1	2	5	3	2	3	5	3	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:138715024C>A	uc003leh.2	-	9	1042	c.945G>T	c.(943-945)ACG>ACT	p.T315T	SLC23A1_uc003leg.2_Silent_p.T319T	NM_005847	NP_005838	Q9UHI7	S23A1_HUMAN	solute carrier family 23 (nucleobase	315	Helical; (Potential).				brain development|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|response to toxin|transepithelial L-ascorbic acid transport|water-soluble vitamin metabolic process	apical plasma membrane|cytoplasm|integral to plasma membrane|intracellular organelle|membrane fraction	dehydroascorbic acid transporter activity|L-ascorbate:sodium symporter activity|nucleobase transmembrane transporter activity|protein binding|sodium-dependent L-ascorbate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)		Vitamin C(DB00126)	CCGCAGTCACCGTGGGCAGGC	0.602													12	23					5.16669e-11	5.44192e-11	1	1	0		A	138715024	A	A	138715024	2	1	70	1	0	0	0	0	0	0	0	1	14487	639	23	5		5	SLC23A1	5	138715024	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1121535	138715024	42200236	273	46289											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139886500	139886500	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccactgagtctagctgcGtctggaggatatgttaatat	11	12	10	8	1	2	1	0	1	2	0	2	3	2	3	1	2	2	2	1	2	4	4	rs138245853	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:139886500G>A	uc003lfs.1	+	19	3613	c.3489G>A	c.(3487-3489)GCG>GCA	p.A1163A	ANKHD1_uc003lfq.1_Silent_p.A1182A|ANKHD1_uc003lfr.2_Silent_p.A1163A|ANKHD1_uc003lft.1_Silent_p.A374A|ANKHD1_uc003lfu.1_Silent_p.A643A|ANKHD1_uc003lfv.1_Silent_p.A240A|ANKHD1-EIF4EBP3_uc011czh.1_5'Flank	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1163						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTCTAGCTGCGTCTGGAGGAT	0.373													41	78					0	0	1	0	0		A	139886500	A	A	139886500	2	1	70	1	0	0	0	0	0	0	0	1	629	1132	40	1		1	ANKHD1-EIF4EBP3	5	139886500	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1171476	139886500	41028760	274	46290											
APBB3	10307	broad.mit.edu	37	chr5	139938321	139938321	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaatccatggagctggtcCgcttgagccgcaggcgggca	7	6	17	11	3	0	1	0	1	0	0	2	3	2	3	3	5	2	4	3	5	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:139938321C>A	uc003lgd.1	-	12	1684	c.1325G>T	c.(1324-1326)CGG>CTG	p.R442L	SRA1_uc003lfz.2_5'Flank|SRA1_uc010jfm.2_5'Flank|SRA1_uc003lga.2_5'Flank|APBB3_uc003lgb.1_Missense_Mutation_p.R214L|APBB3_uc003lgc.1_Missense_Mutation_p.R214L|APBB3_uc003lge.1_Missense_Mutation_p.R435L|APBB3_uc003lgf.1_RNA|APBB3_uc010jfp.1_RNA|APBB3_uc011czi.1_Missense_Mutation_p.R214L	NM_133172	NP_573418	O95704	APBB3_HUMAN	amyloid beta precursor protein-binding, family	437	PID 2.					actin cytoskeleton|cytoplasm				ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAGCTGGTCCGCTTGAGCCG	0.667													11	28					0.010729	0.0108057	1	1	0		A	139938321	A	A	139938321	3	1	70	1	0	0	0	0	1	0	0	0	762	652	23	5	154	5	APBB3	5	139938321	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	51821	139938321	40976939	275	46291											
PCDHA2	56146	broad.mit.edu	37	chr5	140176039	140176039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcctactcgctggtggagcGgcgggtgggcgagcgcgcgt	3	7	20	11	7	0	0	0	0	0	0	2	2	1	1	1	5	3	1	1	5	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140176039G>A	uc003lhd.2	+	1	1596	c.1490G>A	c.(1489-1491)CGG>CAG	p.R497Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.R497Q|PCDHA2_uc011czy.1_Missense_Mutation_p.R497Q	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	497	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGTGGAGCGGCGGGTGGGC	0.672													36	51					0	0	1	0	0		A	140176039	A	A	140176039	3	1	70	1	0	0	0	0	1	0	0	0	11543	1116	39	1	1492	1	PCDHA2	5	140176039	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	237718	140176039	40739221	276	46292											
PCDHA3	56145	broad.mit.edu	37	chr5	140182650	140182650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgcgcgcatcccgtttcGcgtggggctgtacacgggag	4	8	17	12	7	0	0	0	0	0	0	2	1	1	1	1	4	2	4	1	4	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140182650G>A	uc003lhf.2	+	1	1868	c.1868G>A	c.(1867-1869)CGC>CAC	p.R623H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.R623H	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	623	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCCCGTTTCGCGTGGGGCTG	0.657													26	49					0	0	1	0	0		A	140182650	A	A	140182650	3	1	70	1	0	0	0	0	1	0	0	0	11544	1087	38	1	1870	1	PCDHA3	5	140182650	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6611	140182650	40732610	277	46293											
PCDHA6	56142	broad.mit.edu	37	chr5	140208784	140208784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaatttggtactgtcatcGccctaattagcgtgaacgac	10	12	8	11	3	2	1	2	1	0	0	3	2	2	1	1	1	3	1	1	1	5	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140208784G>A	uc003lho.2	+	1	1135	c.1108G>A	c.(1108-1110)GCC>ACC	p.A370T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.A370T|PCDHA6_uc011dab.1_Missense_Mutation_p.A370T	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	370	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TACTGTCATCGCCCTAATTAG	0.483													64	124					0	0	1	0	0		A	140208784	A	A	140208784	3	1	70	1	0	0	0	0	1	0	0	0	11547	1087	38	1	1110	1	PCDHA6	5	140208784	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	26134	140208784	40706476	278	46294											
PCDHA7	56141	broad.mit.edu	37	chr5	140215475	140215475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcgggtgggcgagcgcGcgctgtcgagctacgtgtca	5	7	18	11	7	1	0	1	0	0	0	2	2	1	0	0	2	5	3	0	2	1	1	rs147416989	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140215475G>A	uc003lhq.2	+	1	1507	c.1507G>A	c.(1507-1509)GCG>ACG	p.A503T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.A503T	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	503	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCGAGCGCGCGCTGTCGAG	0.677													36	82					0	0	1	0	0		A	140215475	A	A	140215475	3	1	70	1	0	0	0	0	1	0	0	0	11548	1087	38	1	1509	1	PCDHA7	5	140215475	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6691	140215475	40699785	279	46295											
PCDHA12	56137	broad.mit.edu	37	chr5	140256960	140256960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgagatcagcacgacaCgcatcctggatgaggcggac	10	5	14	12	4	1	2	1	1	0	1	2	6	2	4	1	4	1	2	1	4	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140256960C>T	uc003lic.2	+	1	2030	c.1903C>T	c.(1903-1905)CGC>TGC	p.R635C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.R635C	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	635	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCACGACACGCATCCTGGA	0.677													28	46					0	0	1	0	0		T	140256960	T	T	140256960	3	4	70	1	0	0	0	0	1	0	0	0	11541	536	19	1	1905	1	PCDHA12	5	140256960	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	41485	140256960	40658300	280	46296											
PCDHB2	56133	broad.mit.edu	37	chr5	140476279	140476279	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggctgctgagggagcgCgacgctgccaagcagaggct	8	4	17	12	3	0	2	0	1	0	1	0	4	0	3	2	3	4	5	2	3	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140476279C>T	uc003lil.2	+	1	2043	c.1905C>T	c.(1903-1905)CGC>CGT	p.R635R	PCDHB2_uc003lim.1_Silent_p.R296R	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	635	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGAGGGAGCGCGACGCTGCCA	0.697													45	68					0	0	1	0	0		T	140476279	T	T	140476279	2	4	70	1	0	0	0	0	0	0	0	1	11561	755	27	1		1	PCDHB2	5	140476279	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	219319	140476279	40438981	281	46297											
PCDHB7	56129	broad.mit.edu	37	chr5	140553151	140553151	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccctgattttgtgcggtcGctctacaaggtgcaggtgcc	5	11	13	12	2	1	1	0	1	1	0	2	1	1	1	3	3	4	2	3	3	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140553151G>A	uc003lit.2	+	1	909	c.735G>A	c.(733-735)TCG>TCA	p.S245S		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	245	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTGTGCGGTCGCTCTACAAGG	0.542													34	50					0	0	1	0	0		A	140553151	A	A	140553151	2	1	70	1	0	0	0	0	0	0	0	1	11566	1074	38	1		1	PCDHB7	5	140553151	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	76872	140553151	40362109	282	46298											
PCDHB16	57717	broad.mit.edu	37	chr5	140562820	140562820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctggaactgctcaggtccGtattgaagtggtggacatca	10	11	12	8	1	3	1	2	1	1	0	4	3	4	3	1	4	2	2	1	4	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140562820G>A	uc003liv.2	+	1	1841	c.686G>A	c.(685-687)CGT>CAT	p.R229H	PCDHB16_uc010jfw.1_Intron	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	229	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTCAGGTCCGTATTGAAGTG	0.527													24	46					0	0	1	0	0		A	140562820	A	A	140562820	3	1	70	1	0	0	0	0	1	0	0	0	11560	1145	40	1	688	1	PCDHB16	5	140562820	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	9669	140562820	40352440	283	46299											
PCDHB16	57717	broad.mit.edu	37	chr5	140564112	140564112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccaccgccacgctgcacGtgctcctggtggacggcttc	4	7	13	17	5	0	0	0	0	0	0	2	1	1	1	4	4	2	4	4	4	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140564112G>A	uc003liv.2	+	1	3133	c.1978G>A	c.(1978-1980)GTG>ATG	p.V660M	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	660	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACGCTGCACGTGCTCCTGGT	0.706													26	51					0	0	1	0	0		A	140564112	A	A	140564112	3	1	70	1	0	0	0	0	1	0	0	0	11560	1145	40	1	1980	1	PCDHB16	5	140564112	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1292	140564112	40351148	284	46300											
PCDHB13	56123	broad.mit.edu	37	chr5	140595831	140595831	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcctgttcgtggcggtgcgGctgtgtaggaggagcagggc	4	9	19	9	3	0	0	0	0	0	0	2	2	1	2	1	6	2	4	1	6	1	2	rs145378952		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140595831G>A	uc003lja.1	+	1	2323	c.2136G>A	c.(2134-2136)CGG>CGA	p.R712R		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	712	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGCGGTGCGGCTGTGTAGGA	0.662													54	110					0	0	1	0	0		A	140595831	A	A	140595831	2	1	70	1	0	0	0	0	0	0	0	1	11557	1190	42	2		2	PCDHB13	5	140595831	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	31719	140595831	40319429	285	46301											
PCDHB15	56121	broad.mit.edu	37	chr5	140627138	140627138	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaagtgctcctggtggaCggcttctctcagccctacct	5	11	10	15	1	2	0	1	0	1	0	4	1	3	1	3	3	4	3	3	3	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140627138C>T	uc003lje.2	+	1	1992	c.1992C>T	c.(1990-1992)GAC>GAT	p.D664D		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	664	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCTGGTGGACGGCTTCTCTC	0.687													39	74					0	0	1	0	0		T	140627138	T	T	140627138	2	4	70	1	0	0	0	0	0	0	0	1	11559	535	19	1		1	PCDHB15	5	140627138	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	31307	140627138	40288122	286	46302											
PCDHGB1	56104	broad.mit.edu	37	chr5	140730146	140730146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactagaattcgaaacggtcGctgaaaacccaatgaatgtt	15	9	8	9	3	0	3	0	2	0	1	2	4	0	3	1	1	2	2	1	1	7	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140730146G>A	uc003ljo.1	+	1	319	c.319G>A	c.(319-321)GCT>ACT	p.A107T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Missense_Mutation_p.A107T	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	107	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAAACGGTCGCTGAAAACCC	0.418													32	43					0	0	1	0	0		A	140730146	A	A	140730146	3	1	70	1	0	0	0	0	1	0	0	0	11581	1087	38	1	321	1	PCDHGB1	5	140730146	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	103008	140730146	40185114	287	46303			1	18		8	8	25215	N	G_C_A	3.739499e-05
PCDHGA4	56111	broad.mit.edu	37	chr5	140735645	140735645	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatatcacagctatttcAgttgaattctctgagtgggg	12	13	9	7	0	3	2	2	2	1	0	4	2	3	2	0	2	1	2	0	2	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140735645A>C	uc003ljq.1	+	1	878	c.878A>C	c.(877-879)CAG>CCG	p.Q293P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.Q293P	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	293	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCTATTTCAGTTGAATTCT	0.443													16	21					0	0	1	0	0		C	140735645	C	C	140735645	3	2	70	1	0	0	0	0	1	0	0	0	11575	188	7	5	880	5	PCDHGA4	5	140735645	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	5499	140735645	40179615	288	46304			1	18		8	8	25215	N	G_C_A	3.739499e-05
PCDHGA4	56111	broad.mit.edu	37	chr5	140736919	140736919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctagcactcaagctgagaCgctggcacaagtcacgcctg	10	7	11	13	2	2	1	2	1	0	1	2	2	2	1	1	1	3	5	1	1	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140736919C>T	uc003ljq.1	+	1	2152	c.2152C>T	c.(2152-2154)CGC>TGC	p.R718C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGB2_uc003ljs.1_5'Flank|PCDHGA4_uc003ljp.1_Missense_Mutation_p.R718C|PCDHGB2_uc011dar.1_5'Flank	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	718	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAAGCTGAGACGCTGGCACAA	0.617													22	40					0	0	1	0	0		T	140736919	T	T	140736919	3	4	70	1	0	0	0	0	1	0	0	0	11575	536	19	1	2154	1	PCDHGA4	5	140736919	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1274	140736919	40178341	289	46305			1	18		8	8	25215	N	G_C_A	3.739499e-05
PCDHGB2	56103	broad.mit.edu	37	chr5	140739977	140739977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgagtgacagaatagaccGagaacagatatgcgggaagc	15	6	14	6	2	0	6	0	2	0	4	0	8	0	7	1	1	3	0	1	1	5	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140739977G>A	uc003ljs.1	+	1	275	c.275G>A	c.(274-276)CGA>CAA	p.R92Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Missense_Mutation_p.R92Q	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	92	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAATAGACCGAGAACAGATA	0.473													47	98					0	0	1	0	0		A	140739977	A	A	140739977	3	1	70	1	0	0	0	0	1	0	0	0	11582	1058	37	1	277	1	PCDHGB2	5	140739977	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3058	140739977	40175283	290	46306			1	18		8	8	25215	N	G_C_A	3.739499e-05
PCDHGA5	56110	broad.mit.edu	37	chr5	140745880	140745880	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccaccttcacggtcacCgttgccgtggccgacaggat	7	8	11	15	4	3	0	3	0	0	0	3	2	3	1	5	3	2	1	5	3	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140745880C>T	uc003lju.1	+	1	1983	c.1983C>T	c.(1981-1983)ACC>ACT	p.T661T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Silent_p.T661T	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	661	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCACGGTCACCGTTGCCGTGG	0.622													83	148					0	0	1	0	0		T	140745880	T	T	140745880	2	4	70	1	0	0	0	0	0	0	0	1	11576	639	23	1		1	PCDHGA5	5	140745880	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	5903	140745880	40169380	291	46307			1	18		8	8	25215	N	G_C_A	3.739499e-05
PCDHGA5	56110	broad.mit.edu	37	chr5	140746290	140746290	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgatgtctgataaggtagAtgcaaacaaagaagaacggc	16	8	11	6	1	2	5	0	2	2	3	2	5	2	5	0	2	3	2	0	2	6	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140746290A>C	uc003lju.1	+	1	2393	c.2393A>C	c.(2392-2394)GAT>GCT	p.D798A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.D798A	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	798	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATAAGGTAGATGCAAACAAA	0.428													64	125					0	0	1	0	0		C	140746290	C	C	140746290	3	2	70	1	0	0	0	0	1	0	0	0	11576	333	12	5	2395	5	PCDHGA5	5	140746290	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	410	140746290	40168970	292	46308			1	18		8	8	25215	N	G_C_A	3.739499e-05
PCDHGA6	56109	broad.mit.edu	37	chr5	140754085	140754085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagtgaaaattctcgaaaaCgcagctccatcctctcgttt	12	11	7	11	3	2	1	0	1	2	0	6	3	4	1	2	0	2	3	2	0	5	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140754085C>T	uc003ljy.1	+	1	435	c.435C>T	c.(433-435)AAC>AAT	p.N145N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.N145N	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	145	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCTCGAAAACGCAGCTCCAT	0.413													21	45					0	0	1	0	0		T	140754085	T	T	140754085	2	4	70	1	0	0	0	0	0	0	0	1	11577	535	19	1		1	PCDHGA6	5	140754085	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	7795	140754085	40161175	293	46309			1	18		8	8	25215	N	G_C_A	3.739499e-05
PCDHGA6	56109	broad.mit.edu	37	chr5	140755360	140755360	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccccgccctccccacagaCggttccactggcgtggagct	6	7	10	18	3	0	1	0	0	0	1	2	2	2	2	6	3	2	2	6	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140755360C>T	uc003ljy.1	+	1	1710	c.1710C>T	c.(1708-1710)GAC>GAT	p.D570D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.D570D	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	570	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCCCACAGACGGTTCCACTG	0.667													67	152					0	0	1	0	0		T	140755360	T	T	140755360	2	4	70	1	0	0	0	0	0	0	0	1	11577	535	19	1		1	PCDHGA6	5	140755360	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1275	140755360	40159900	294	46310			1	18		8	8	25215	N	G_C_A	3.739499e-05
PCDHGB5	56101	broad.mit.edu	37	chr5	140778577	140778577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttagtctgaattcaaagagcGgagaaattaccactcaaaag	17	9	8	7	1	3	3	2	1	1	2	3	4	3	3	1	1	2	0	1	1	7	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140778577G>A	uc003lkf.1	+	1	883	c.883G>A	c.(883-885)GGA>AGA	p.G295R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.G295R	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	295	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCAAAGAGCGGAGAAATTAC	0.433													39	128					0	0	1	0	0		A	140778577	A	A	140778577	3	1	70	1	0	0	0	0	1	0	0	0	11585	1117	39	1	885	1	PCDHGB5	5	140778577	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	23217	140778577	40136683	295	46311											
PCDHGA12	26025	broad.mit.edu	37	chr5	140811976	140811976	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaacgtgtcgttgagcctGttcgtgctggaccagaacga	9	9	13	10	4	0	2	0	1	0	1	2	4	0	3	2	1	5	4	2	1	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140811976G>C	uc003lkt.1	+	1	1819	c.1650G>C	c.(1648-1650)CTG>CTC	p.L550L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.L550L	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	550	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTTGAGCCTGTTCGTGCTGG	0.642													58	139					0	0	1	0	0		C	140811976	C	C	140811976	2	2	70	1	0	0	0	0	0	0	0	1	11572	1364	48	5		5	PCDHGA12	5	140811976	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	33399	140811976	40103284	296	46312											
PCDHGA12	26025	broad.mit.edu	37	chr5	140812146	140812146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgcctggctgtcctaccGtctgctcaaggccagcgagc	7	7	12	15	3	2	0	1	0	1	0	3	2	3	0	4	2	5	2	4	2	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140812146G>A	uc003lkt.1	+	1	1989	c.1820G>A	c.(1819-1821)CGT>CAT	p.R607H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.R607H	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	607	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGTCCTACCGTCTGCTCAAG	0.697													47	85					0	0	1	0	0		A	140812146	A	A	140812146	3	1	70	1	0	0	0	0	1	0	0	0	11572	1145	40	1	1822	1	PCDHGA12	5	140812146	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	170	140812146	40103114	297	46313											
PCDHGC3	5098	broad.mit.edu	37	chr5	140856225	140856225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagccgaaatgaatactttgCgcttcgcgtgcagacgcggg	9	8	14	10	6	0	2	0	1	0	1	1	4	0	2	1	1	4	2	1	1	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:140856225C>T	uc003lkv.1	+	1	657	c.542C>T	c.(541-543)GCG>GTG	p.A181V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Missense_Mutation_p.A181V|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	181	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAATACTTTGCGCTTCGCGTG	0.607													24	27					0	0	1	0	0		T	140856225	T	T	140856225	3	4	70	1	0	0	0	0	1	0	0	0	11588	768	27	1	544	1	PCDHGC3	5	140856225	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	44079	140856225	40059035	298	46314											
ABLIM3	22885	broad.mit.edu	37	chr5	148619396	148619396	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atagactcccccacctacagCcggcagggcatgtcccccac	9	5	8	19	1	0	1	0	0	0	1	2	1	2	1	6	2	2	2	6	2	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:148619396C>T	uc003lpy.2	+	13	1400	c.1149C>T	c.(1147-1149)AGC>AGT	p.S383S	ABLIM3_uc003lpz.1_Silent_p.S383S|ABLIM3_uc003lqa.1_Silent_p.S329S|ABLIM3_uc003lqb.2_Silent_p.S321S|ABLIM3_uc003lqc.1_Silent_p.S383S|ABLIM3_uc003lqd.1_Silent_p.S321S|ABLIM3_uc003lqf.2_Silent_p.S321S|ABLIM3_uc003lqe.1_Silent_p.S321S	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3	383					axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCACCTACAGCCGGCAGGGCA	0.632													33	69					0	0	1	0	0		T	148619396	T	T	148619396	2	4	70	1	0	0	0	0	0	0	0	1	96	738	26	2		2	ABLIM3	5	148619396	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	7763171	148619396	32295864	299	46315											
GPX3	2878	broad.mit.edu	37	chr5	150400298	150400298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagccggggacaagagaagtCgaaggtgagtgagcctccgg	11	4	18	8	3	0	3	0	2	0	1	2	7	1	4	3	4	2	0	3	4	3	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:150400298C>T	uc011dcm.1	+	1	300	c.83C>T	c.(82-84)TCG>TTG	p.S28L	GPX3_uc003ltc.2_RNA|GPX3_uc003ltd.2_RNA	NM_002084	NP_002075	P22352	GPX3_HUMAN	glutathione peroxidase 3 precursor	28					hydrogen peroxide catabolic process|protein homotetramerization|response to lipid hydroperoxide	extracellular space	glutathione peroxidase activity|selenium binding|transcription factor binding				0		Medulloblastoma(196;0.091)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Glutathione(DB00143)	CAAGAGAAGTCGAAGGTGAGT	0.687													10	21					0	0	1	0	0		T	150400298	T	T	150400298	3	4	70	1	0	0	0	0	1	0	0	0	6757	893	31	1	85	1	GPX3	5	150400298	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1780902	150400298	30514962	300	46316											
G3BP1	10146	broad.mit.edu	37	chr5	151183470	151183470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgttcagaggtgaggtcCgtctgaatgtcgaagagaag	11	10	14	6	2	3	4	2	2	1	2	5	6	4	4	1	2	0	1	1	2	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:151183470C>T	uc003lun.2	+	12	1390	c.1219C>T	c.(1219-1221)CGT>TGT	p.R407C	G3BP1_uc003lum.2_Missense_Mutation_p.R407C|G3BP1_uc011dcu.1_Missense_Mutation_p.R225C|G3BP1_uc010jhz.2_Missense_Mutation_p.R225C|G3BP1_uc003luq.2_Missense_Mutation_p.R75C	NM_005754	NP_005745	Q13283	G3BP1_HUMAN	Ras-GTPase-activating protein SH3-domain-binding	407	RRM.				Ras protein signal transduction|transport	cytosol|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|endonuclease activity|protein binding|RNA binding			skin(3)|ovary(1)	4		all_hematologic(541;0.0338)|Medulloblastoma(196;0.091)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)			AGGTGAGGTCCGTCTGAATGT	0.522													19	38					0	0	1	0	0		T	151183470	T	T	151183470	3	4	70	1	0	0	0	0	1	0	0	0	6155	652	23	1	1261	1	G3BP1	5	151183470	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	783172	151183470	29731790	301	46317											
MRPL22	29093	broad.mit.edu	37	chr5	154346305	154346305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgctaccatggcagaggtCgctttgggatcatggagaag	9	9	14	9	2	1	2	1	0	0	2	3	4	2	3	2	4	1	3	2	4	2	2	rs113240119	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:154346305C>T	uc003lvy.3	+	7	507	c.469C>T	c.(469-471)CGC>TGC	p.R157C	MRPL22_uc003lvz.3_Missense_Mutation_p.R77C	NM_014180	NP_054899	Q9NWU5	RM22_HUMAN	mitochondrial ribosomal protein L22 isoform a	157					translation	large ribosomal subunit|mitochondrion	structural constituent of ribosome				0	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TGGCAGAGGTCGCTTTGGGAT	0.512													31	73					0	0	1	0	0		T	154346305	T	T	154346305	3	4	70	1	0	0	0	0	1	0	0	0	9806	884	31	1	495	1	MRPL22	5	154346305	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3162835	154346305	26568955	302	46318											
ODZ2	57451	broad.mit.edu	37	chr5	167379678	167379678	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcccatcaccactcgtcCgccaactccctcaacaggaa	10	7	5	19	2	2	0	2	0	0	0	6	1	5	1	5	1	2	0	5	1	3	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:167379678C>T	uc010jjd.2	+	4	798	c.798C>T	c.(796-798)TCC>TCT	p.S266S	ODZ2_uc003lzq.2_Silent_p.S145S|ODZ2_uc003lzr.3_Silent_p.S75S	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		ACCACTCGTCCGCCAACTCCC	0.622													5	13					0	0	1	0	0		T	167379678	T	T	167379678	2	4	70	1	0	0	0	0	0	0	0	1	10854	639	23	1		1	ODZ2	5	167379678	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	13033373	167379678	13535582	303	46319											
SLIT3	6586	broad.mit.edu	37	chr5	168096798	168096798	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagacccaccttgttggcaGtgctcgccgctaaagccggg	7	8	13	13	3	0	1	0	0	0	1	1	1	0	1	4	2	2	5	4	2	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:168096798G>C	uc003mab.2	-	35	4746	c.4326C>G	c.(4324-4326)CAC>CAG	p.H1442Q	SLIT3_uc010jjg.2_Missense_Mutation_p.H1449Q	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	1442	EGF-like 9.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTTGTTGGCAGTGCTCGCCGC	0.468													8	23					0	0	1	0	0		C	168096798	C	C	168096798	3	2	70	1	0	0	0	0	1	0	0	0	14766	1020	36	5	253	5	SLIT3	5	168096798	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	717120	168096798	12818462	304	46320											
COL23A1	91522	broad.mit.edu	37	chr5	177683356	177683356	+	Frame_Shift_Del	DEL	G	-	-																															tgaggggcggcagcttacccGgggccctgcagctccatccg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:177683356delG	uc003mje.2	-	15	1238	c.880delC	c.(880-882)CGGfs	p.R294fs	COL23A1_uc010jkt.2_Frame_Shift_Del_p.P141fs	NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	294	Extracellular (Potential).|Collagen-like 2.|Gly-rich.					collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		CAGCTTACCCGGGGCCCTGCA	0.647													4	6	---	---	---	---						.	-	177683356	-	-	177683356	7	5	70	1	0	1	0	1	0	0	0	0	3685	1115	39	0	802	0	COL23A1	5	177683356	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	9586558	177683356	3231904	305	46321											
ZNF354B	117608	broad.mit.edu	37	chr5	178310319	178310319	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatccctttgtaagcattTaaggacccatactgtggaga	11	12	9	9	0	0	1	0	0	0	1	1	3	1	2	2	2	3	3	2	2	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:178310319T>C	uc003mjl.2	+	5	1092	c.866T>C	c.(865-867)TTA>TCA	p.L289S	ZNF354B_uc003mjm.2_Missense_Mutation_p.L289S	NM_058230	NP_478137	Q96LW1	Z354B_HUMAN	zinc finger protein 354B	289	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGTAAGCATTTAAGGACCCAT	0.383													31	90					0	0	1	0	0		C	178310319	C	C	178310319	3	2	70	1	0	0	0	0	1	0	0	0	17890	1764	61	3	880	3	ZNF354B	5	178310319	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	626963	178310319	2604941	306	46322											
GRM6	2916	broad.mit.edu	37	chr5	178410024	178410024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgttgaaggtctcgggcaCgccacgggccttgatggcgt	5	9	15	12	5	1	2	0	2	1	0	3	2	1	2	2	4	0	2	2	4	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:178410024C>T	uc003mjr.2	-	9	2502	c.2323G>A	c.(2323-2325)GTG>ATG	p.V775M	GRM6_uc003mjq.2_Missense_Mutation_p.V178M	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	775	Cytoplasmic (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		GTCTCGGGCACGCCACGGGCC	0.597													30	47					0	0	1	0	0		T	178410024	T	T	178410024	3	4	70	1	0	0	0	0	1	0	0	0	6817	536	19	1	318	1	GRM6	5	178410024	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	99705	178410024	2505236	307	46323											
TBC1D9B	23061	broad.mit.edu	37	chr5	179302056	179302056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgctctcgaagggcatgaCgctgaggaagagggtcagga	10	5	18	8	3	2	3	1	2	1	1	3	6	2	5	0	5	0	3	0	5	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr5:179302056C>T	uc003mlh.2	-	12	2069	c.2032G>A	c.(2032-2034)GTC>ATC	p.V678I	TBC1D9B_uc003mli.2_Missense_Mutation_p.V678I|TBC1D9B_uc003mlj.2_Missense_Mutation_p.V678I|TBC1D9B_uc011dgv.1_5'Flank	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	678	Helical; (Potential).|Rab-GAP TBC.					integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAGGGCATGACGCTGAGGAAG	0.602													20	46					0	0	1	0	0		T	179302056	T	T	179302056	3	4	70	1	0	0	0	0	1	0	0	0	15653	536	19	1	1764	1	TBC1D9B	5	179302056	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	892032	179302056	1613204	308	46324											
SLC22A23	63027	broad.mit.edu	37	chr6	3324124	3324124	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgagggcctgcagcacctgCcaatcccggcacagggcggc	8	4	14	15	2	0	1	0	1	0	0	1	1	1	1	4	4	3	3	4	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:3324124C>T	uc003mvm.3	-	4	1026	c.1026G>A	c.(1024-1026)TGG>TGA	p.W342*	SLC22A23_uc003mvn.3_Nonsense_Mutation_p.W61*|SLC22A23_uc003mvo.3_Nonsense_Mutation_p.W61*|SLC22A23_uc003mvp.1_RNA|SLC22A23_uc010jnn.2_Nonsense_Mutation_p.W342*|SLC22A23_uc010jno.2_Nonsense_Mutation_p.W342*	NM_015482	NP_056297	A1A5C7	S22AN_HUMAN	solute carrier family 22, member 23 isoform a	342					ion transport	integral to membrane	transmembrane transporter activity			ovary(1)	1	Ovarian(93;0.0493)	all_hematologic(90;0.0905)				GCAGCACCTGCCAATCCCGGC	0.632													20	8					0	0	1	0	0		T	3324124	T	T	3324124	4	4	70	1	0	0	0	0	0	1	0	0	14477	740	26	2	1062	2	SLC22A23	6	3324124	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08		3324124	167790943	309	46325											
KDM1B	221656	broad.mit.edu	37	chr6	18208403	18208403	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggagatgaagtgcaggttaCcactacagatggcacagggt	12	8	14	7	0	0	3	0	1	0	2	0	4	0	3	1	4	3	3	1	4	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:18208403C>A	uc003nco.1	+	10	1298	c.1223C>A	c.(1222-1224)ACC>AAC	p.T408N	KDM1B_uc003ncn.1_Missense_Mutation_p.T379N	NM_153042	NP_694587	Q8NB78	KDM1B_HUMAN	amine oxidase (flavin containing) domain 1	611					multicellular organismal development|regulation of DNA methylation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-monomethyl-K4 specific)|oxidoreductase activity|zinc ion binding			skin(1)	1						GTGCAGGTTACCACTACAGAT	0.473													74	29					8.41775e-28	9.2374e-28	1	1	0		A	18208403	A	A	18208403	3	1	70	1	0	0	0	0	1	0	0	0	8139	507	18	5	1178	5	KDM1B	6	18208403	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	14884279	18208403	152906664	310	46326											
ZNF184	7738	broad.mit.edu	37	chr6	27420689	27420689	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacaagatttctctttttTaactgggtttgaattctgtt	8	21	6	6	0	2	2	0	1	2	1	3	2	2	2	0	1	2	2	0	1	4	8			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:27420689T>A	uc003njj.2	-	5	1460	c.649A>T	c.(649-651)AAA>TAA	p.K217*	ZNF184_uc010jqv.2_Nonsense_Mutation_p.K217*|ZNF184_uc003nji.2_Nonsense_Mutation_p.K217*	NM_007149	NP_009080	Q99676	ZN184_HUMAN	zinc finger protein 184	217					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTCTCTTTTTTAACTGGGTTT	0.378													153	61					0	0	1	0	0		A	27420689	A	A	27420689	4	1	70	1	0	0	0	0	0	1	0	0	17776	1763	61	5	1610	5	ZNF184	6	27420689	Nonsense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	9212286	27420689	143694378	311	46327											
OR12D2	26529	broad.mit.edu	37	chr6	29364789	29364789	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttcatttcttccactccCtgggcagcacggagtccatg	7	11	9	14	1	2	0	1	0	1	0	5	1	5	1	3	2	2	3	3	2	0	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:29364789C>T	uc003nmf.3	+	1	374	c.313C>T	c.(313-315)CTG>TTG	p.L105L		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTTCCACTCCCTGGGCAGCAC	0.493													23	22					0	0	1	0	0		T	29364789	T	T	29364789	2	4	70	1	0	0	0	0	0	0	0	1	10950	680	24	4		4	OR12D2	6	29364789	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1944100	29364789	141750278	312	46328											
COL11A2	1302	broad.mit.edu	37	chr6	33133371	33133371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcaggtcctggcaggtgcGagcagggctgtcctgggtcc	4	9	16	12	1	1	0	1	0	0	0	4	1	4	0	3	5	2	3	3	5	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:33133371G>A	uc003ocx.1	-	63	4933	c.4705C>T	c.(4705-4707)CGC>TGC	p.R1569C	COL11A2_uc010jul.1_Missense_Mutation_p.R139C|COL11A2_uc003ocy.1_Missense_Mutation_p.R1483C|COL11A2_uc003ocz.1_Missense_Mutation_p.R1462C	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1569	Fibrillar collagen NC1.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						TGGCAGGTGCGAGCAGGGCTG	0.622													14	107					0	0	1	0	0		A	33133371	A	A	33133371	3	1	70	1	0	0	0	0	1	0	0	0	3671	1058	37	1	521	1	COL11A2	6	33133371	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3768582	33133371	137981696	313	46329											
DAXX	1616	broad.mit.edu	37	chr6	33289268	33289268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggccaaaaacagagagtggGcacgttgctgccggttatag	12	7	14	8	2	0	1	0	0	0	1	0	2	0	1	2	3	3	4	2	3	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:33289268G>A	uc003oec.2	-	3	488	c.284C>T	c.(283-285)GCC>GTC	p.A95V	DAXX_uc011drd.1_Missense_Mutation_p.A20V|DAXX_uc011dre.1_Missense_Mutation_p.A107V|DAXX_uc003oed.2_Missense_Mutation_p.A95V|DAXX_uc010juw.2_Missense_Mutation_p.A20V	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	95	Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						CAGAGAGTGGGCACGTTGCTG	0.517			Mis|F|N		Pancreatic neuroendocrine tumors								27	66					0	0	1	0	0		A	33289268	A	A	33289268	3	1	70	1	0	0	0	0	1	0	0	0	4246	1203	42	2	1962	2	DAXX	6	33289268	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	155897	33289268	137825799	314	46330											
ITPR3	3710	broad.mit.edu	37	chr6	33662760	33662760	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccttgtcagcaatgagggCgagggggagcagaatgagat	11	7	16	7	1	1	3	1	2	0	2	2	6	2	4	1	3	2	2	1	3	2	1	rs141751520	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:33662760C>T	uc011drk.1	+	57	8064	c.7845C>T	c.(7843-7845)GGC>GGT	p.G2615G	C6orf125_uc003oez.1_RNA	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	2615	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GCAATGAGGGCGAGGGGGAGC	0.582													20	23					0	0	1	0	0		T	33662760	T	T	33662760	2	4	70	1	0	0	0	0	0	0	0	1	7938	755	27	1		1	ITPR3	6	33662760	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	373492	33662760	137452307	315	46331											
LRFN2	57497	broad.mit.edu	37	chr6	40399690	40399690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggacttggggggtgcagtgCggctggtgctgttgctgagg	3	10	22	6	1	0	1	0	1	0	0	0	2	0	2	0	7	4	5	0	7	0	2	rs148386118		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:40399690C>T	uc003oph.1	-	2	1628	c.1163G>A	c.(1162-1164)CGC>CAC	p.R388H		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	388	Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GGGTGCAGTGCGGCTGGTGCT	0.662													10	31					0	0	1	0	0		T	40399690	T	T	40399690	3	4	70	1	0	0	0	0	1	0	0	0	8956	768	27	1	1214	1	LRFN2	6	40399690	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	6736930	40399690	130715377	316	46332											
FOXP4	116113	broad.mit.edu	37	chr6	41533594	41533594	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagccgatggcagcagcggCggggccacagggacaactgc	10	2	16	13	3	0	0	0	0	0	0	0	2	0	1	2	5	5	2	2	5	2	0	rs149894394		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:41533594C>T	uc003oql.2	+	2	554	c.96C>T	c.(94-96)GGC>GGT	p.G32G	FOXP4_uc003oqm.2_Silent_p.G32G|FOXP4_uc003oqn.2_Silent_p.G32G	NM_001012426	NP_001012426	Q8IVH2	FOXP4_HUMAN	forkhead box P4 isoform 1	32					embryonic foregut morphogenesis|heart development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					GCAGCAGCGGCGGGGCCACAG	0.627													38	69					0	0	1	0	0		T	41533594	T	T	41533594	2	4	70	1	0	0	0	0	0	0	0	1	6043	755	27	1		1	FOXP4	6	41533594	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1133904	41533594	129581473	317	46333											
CUL9	23113	broad.mit.edu	37	chr6	43190359	43190359	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcctcaatgatgcctgccagGgactggagcaggctcggaag	9	7	14	11	1	1	1	1	1	0	0	3	4	2	4	3	4	3	2	3	4	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:43190359G>T	uc003ouk.2	+	37	7087	c.7012G>T	c.(7012-7014)GGA>TGA	p.G2338*	CUL9_uc003oul.2_Nonsense_Mutation_p.G2310*|CUL9_uc010jyk.2_Nonsense_Mutation_p.G1490*|CUL9_uc003oun.2_Nonsense_Mutation_p.G133*	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	2338					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TGCCTGCCAGGGACTGGAGCA	0.612													14	24					7.93312e-07	8.19489e-07	1	1	0		T	43190359	T	T	43190359	4	4	70	1	0	0	0	0	0	1	0	0	4064	1233	43	5	7154	5	CUL9	6	43190359	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1656765	43190359	127924708	318	46334											
BAI3	577	broad.mit.edu	37	chr6	69759195	69759195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctgtatttgttcttggcGcagtcctatacaaaaactta	11	15	6	9	1	2	0	0	0	2	0	3	0	3	0	1	1	2	3	1	1	6	7	rs112866971		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:69759195G>A	uc003pev.3	+	15	2738	c.2290G>A	c.(2290-2292)GCA>ACA	p.A764T	BAI3_uc010kak.2_Missense_Mutation_p.A764T	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	764	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TGTTCTTGGCGCAGTCCTATA	0.274													20	32					0	0	1	0	0		A	69759195	A	A	69759195	3	1	70	1	0	0	0	0	1	0	0	0	1301	1087	38	1	2340	1	BAI3	6	69759195	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	26568836	69759195	101355872	319	46335											
B3GAT2	135152	broad.mit.edu	37	chr6	71571627	71571627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctggctgggatccacgaCgcttaaatacagcttttgga	9	11	10	11	2	0	0	0	0	0	0	2	3	2	2	2	3	2	3	2	3	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:71571627C>T	uc003pfv.2	-	3	1447	c.791G>A	c.(790-792)CGT>CAT	p.R264H	SMAP1_uc003pfr.2_3'UTR|SMAP1_uc003pfs.2_3'UTR|SMAP1_uc010kao.2_3'UTR|SMAP1_uc010kap.2_3'UTR|B3GAT2_uc011dxz.1_RNA|B3GAT2_uc003pfw.2_Missense_Mutation_p.R264H	NM_080742	NP_542780	Q9NPZ5	B3GA2_HUMAN	beta-1,3-glucuronyltransferase 2	264	Lumenal (Potential).				carbohydrate biosynthetic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GGATCCACGACGCTTAAATAC	0.373													30	45					0	0	1	0	0		T	71571627	T	T	71571627	3	4	70	1	0	0	0	0	1	0	0	0	1255	536	19	1	188	1	B3GAT2	6	71571627	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1812432	71571627	99543440	320	46336											
RIMS1	22999	broad.mit.edu	37	chr6	72892034	72892034	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatggcaaaggagccctgaAgagcgagcggaaacgcgtgc	13	3	16	9	4	0	2	0	1	0	1	0	6	0	4	1	3	5	1	1	3	4	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:72892034A>G	uc003pga.2	+	6	937	c.860A>G	c.(859-861)AAG>AGG	p.K287R	RIMS1_uc011dyb.1_5'UTR|RIMS1_uc003pgc.2_5'UTR|RIMS1_uc003pgb.3_5'UTR	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	287					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				GGAGCCCTGAAGAGCGAGCGG	0.537													10	27					0	0	1	0	0		G	72892034	G	G	72892034	3	3	70	1	0	0	0	0	1	0	0	0	13392	72	3	3	882	3	RIMS1	6	72892034	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	1320407	72892034	98223033	321	46337											
RIMS1	22999	broad.mit.edu	37	chr6	72892074	72892074	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagacctcagcgcagccCgtggagggggccgtcgaaga	10	3	15	13	4	1	2	1	0	0	2	2	4	1	3	4	3	2	1	4	3	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:72892074C>T	uc003pga.2	+	6	977	c.900C>T	c.(898-900)CCC>CCT	p.P300P	RIMS1_uc011dyb.1_5'UTR|RIMS1_uc003pgc.2_5'UTR|RIMS1_uc003pgb.3_5'UTR	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	300					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				CAGCGCAGCCCGTGGAGGGGG	0.572													13	20					0	0	1	0	0		T	72892074	T	T	72892074	2	4	70	1	0	0	0	0	0	0	0	1	13392	639	23	1		1	RIMS1	6	72892074	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	40	72892074	98222993	322	46338											
TPBG	7162	broad.mit.edu	37	chr6	83075087	83075087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacgaggtgcgcgcgggcGccttcgagcatctgcccagc	5	6	16	14	6	1	0	0	0	1	0	2	3	1	1	2	3	4	1	2	3	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:83075087G>A	uc003pjn.3	+	3	1345	c.409G>A	c.(409-411)GCC>ACC	p.A137T	TPBG_uc010kbj.2_Missense_Mutation_p.A137T|TPBG_uc003pjo.2_Missense_Mutation_p.A137T	NM_006670	NP_006661	Q13641	TPBG_HUMAN	trophoblast glycoprotein precursor	137	Extracellular (Potential).|LRR 2.				cell adhesion	integral to plasma membrane				central_nervous_system(1)	1		all_cancers(76;0.000805)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0897)		BRCA - Breast invasive adenocarcinoma(397;0.107)		GCGCGCGGGCGCCTTCGAGCA	0.736													10	64					0	0	1	0	0		A	83075087	A	A	83075087	3	1	70	1	0	0	0	0	1	0	0	0	16420	1087	38	1	411	1	TPBG	6	83075087	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	10183013	83075087	88039980	323	46339											
SNAP91	9892	broad.mit.edu	37	chr6	84375235	84375235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagctactgtttgttgcccGctcaaagagagtgtcggcca	8	10	11	12	2	1	1	1	0	0	1	2	2	1	1	3	1	3	4	3	1	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:84375235G>A	uc011dze.1	-	3	513	c.196C>T	c.(196-198)CGG>TGG	p.R66W	SNAP91_uc003pkb.2_Missense_Mutation_p.R31W|SNAP91_uc003pkc.2_Missense_Mutation_p.R66W|SNAP91_uc003pkd.2_Missense_Mutation_p.R66W|SNAP91_uc003pka.2_Missense_Mutation_p.R66W|SNAP91_uc011dzf.1_Intron	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	66	ENTH.				clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		TTTGTTGCCCGCTCAAAGAGA	0.378													60	114					0	0	1	0	0		A	84375235	A	A	84375235	3	1	70	1	0	0	0	0	1	0	0	0	14858	1086	38	1	2631	1	SNAP91	6	84375235	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1300148	84375235	86739832	324	46340											
TBX18	9096	broad.mit.edu	37	chr6	85446535	85446535	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcaacatctgccgatcCgtcatggtcccactcggtga	7	8	13	13	3	2	1	1	1	1	0	5	2	4	1	3	4	2	1	3	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:85446535C>T	uc003pkl.1	-	8	1692	c.1692G>A	c.(1690-1692)ACG>ACA	p.T564T	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	564					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TCTGCCGATCCGTCATGGTCC	0.522													35	51					0	0	1	0	0		T	85446535	T	T	85446535	2	4	70	1	0	0	0	0	0	0	0	1	15678	639	23	1		1	TBX18	6	85446535	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1071300	85446535	85668532	325	46341											
TBX18	9096	broad.mit.edu	37	chr6	85473619	85473619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccactcacccgcggctccgCgctccaggtctgcgccactc	4	6	9	22	5	2	0	1	0	1	0	5	0	4	0	5	2	1	2	5	2	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:85473619C>T	uc003pkl.1	-	1	281	c.281G>A	c.(280-282)CGC>CAC	p.R94H	TBX18_uc010kbq.1_5'Flank	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	94					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		CGCGGCTCCGCGCTCCAGGTC	0.667													5	1					0	0	1	0	0		T	85473619	T	T	85473619	3	4	70	1	0	0	0	0	1	0	0	0	15678	768	27	1	1574	1	TBX18	6	85473619	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	27084	85473619	85641448	326	46342											
GABRR1	2569	broad.mit.edu	37	chr6	89895130	89895130	+	Frame_Shift_Del	DEL	T	-	-																															tctttaaggagtcattgcccTttttccagtacagcatgagg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:89895130delT	uc003pna.2	-	7	1150	c.695delA	c.(694-696)AAGfs	p.K232fs	GABRR1_uc011dzv.1_Frame_Shift_Del_p.K209fs	NM_002042	NP_002033	P24046	GBRR1_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 1	232	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			pancreas(1)	1		all_cancers(76;9.49e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.46e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00917)	Picrotoxin(DB00466)	GTCATTGCCCTTTTTCCAGTA	0.498													53	84	---	---	---	---						.	-	89895130	-	-	89895130	7	5	70	1	0	1	0	1	0	0	0	0	6190	1609	56	0	760	0	GABRR1	6	89895130	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	4421511	89895130	81219937	327	46343											
RRAGD	58528	broad.mit.edu	37	chr6	90097168	90097168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccggcatatcttattaGtgctctccaagaacagagtt	10	13	7	11	1	2	2	0	0	2	2	4	2	3	2	2	1	2	3	2	1	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:90097168G>A	uc003pnd.3	-	2	573	c.290C>T	c.(289-291)ACT>ATT	p.T97I	RRAGD_uc010kcc.2_Intron	NM_021244	NP_067067	Q9NQL2	RRAGD_HUMAN	Ras-related GTP binding D	97					cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade	lysosome|nucleus	GTP binding|protein heterodimerization activity			ovary(2)|central_nervous_system(1)	3		all_cancers(76;7.01e-07)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00139)		BRCA - Breast invasive adenocarcinoma(108;0.0144)		TATCTTATTAGTGCTCTCCAA	0.438													120	183					0	0	1	0	0		A	90097168	A	A	90097168	3	1	70	1	0	0	0	0	1	0	0	0	13700	1029	36	4	936	4	RRAGD	6	90097168	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	202038	90097168	81017899	328	46344											
SFRS18	25957	broad.mit.edu	37	chr6	99848984	99848984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgagcgacttctacttctaCgtctctctcgggaaggactc	7	13	9	12	3	4	1	0	1	4	0	7	4	4	3	0	2	3	0	0	2	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:99848984C>T	uc003ppo.3	-	12	2078	c.1850G>A	c.(1849-1851)CGT>CAT	p.R617H	SFRS18_uc003ppl.2_Missense_Mutation_p.R163H|SFRS18_uc003ppp.3_Missense_Mutation_p.R617H|SFRS18_uc011eag.1_Missense_Mutation_p.R617H	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	617						nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		TCTACTTCTACGTCTCTCTCG	0.438													14	88					0	0	1	0	0		T	99848984	T	T	99848984	3	4	70	1	0	0	0	0	1	0	0	0	14199	536	19	1	571	1	SFRS18	6	99848984	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	9751816	99848984	71266083	329	46345											
BEND3	57673	broad.mit.edu	37	chr6	107389968	107389968	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttttcctgttggggcggcgGcacctctcatcgatgctggg	3	13	14	11	3	1	0	1	0	1	0	4	1	2	0	2	5	1	3	2	5	0	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:107389968G>A	uc003prs.2	-	5	3077	c.2427C>T	c.(2425-2427)TGC>TGT	p.C809C		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	809	BEN 4.									ovary(3)	3						TGGGGCGGCGGCACCTCTCAT	0.582													28	50					0	0	1	0	0		A	107389968	A	A	107389968	2	1	70	1	0	0	0	0	0	0	0	1	1400	1195	42	2		2	BEND3	6	107389968	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	7540984	107389968	63725099	330	46346											
SOBP	55084	broad.mit.edu	37	chr6	107955723	107955723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaacgggttctccagcaacGgggagaacttcattccgaac	11	7	10	13	3	2	1	1	0	1	1	4	3	3	1	3	3	5	2	3	3	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:107955723G>A	uc003prx.2	+	6	2179	c.1675G>A	c.(1675-1677)GGG>AGG	p.G559R		NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	559							metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)		CTCCAGCAACGGGGAGAACTT	0.687													11	23					0	0	1	0	0		A	107955723	A	A	107955723	3	1	70	1	0	0	0	0	1	0	0	0	14937	1116	39	1	1697	1	SOBP	6	107955723	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	565755	107955723	63159344	331	46347											
GPR6	2830	broad.mit.edu	37	chr6	110300781	110300781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctccttcgccgcctctGtcagcagcctgctggccatt	3	11	10	17	2	2	0	1	0	1	0	4	0	3	0	6	2	3	2	6	2	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:110300781G>A	uc011eaw.1	+	2	646	c.466G>A	c.(466-468)GTC>ATC	p.V156I	GPR6_uc011eav.1_Missense_Mutation_p.V171I|GPR6_uc003ptu.2_Missense_Mutation_p.V156I	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	156	Helical; Name=3; (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		CGCCGCCTCTGTCAGCAGCCT	0.612													9	103					0	0	1	0	0		A	110300781	A	A	110300781	3	1	70	1	0	0	0	0	1	0	0	0	6716	1377	48	4	468	4	GPR6	6	110300781	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2345058	110300781	60814286	332	46348											
LAMA4	3910	broad.mit.edu	37	chr6	112476147	112476147	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtatcaatcccactcacCgcctacaaaggaattgagag	14	8	8	11	1	2	2	2	2	0	1	3	4	3	3	3	1	1	1	3	1	5	3	rs140246538	by1000genomes	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:112476147C>T	uc003pvu.2	-	16	2271	c.1962G>A	c.(1960-1962)GCG>GCA	p.A654A	LAMA4_uc003pvv.2_Silent_p.A647A|LAMA4_uc003pvt.2_Silent_p.A647A	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	654	Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		TCCCACTCACCGCCTACAAAG	0.383													18	94					0	0	1	0	0		T	112476147	T	T	112476147	2	4	70	1	0	0	0	0	0	0	0	1	8624	639	23	1		1	LAMA4	6	112476147	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2175366	112476147	58638920	333	46349											
FRK	2444	broad.mit.edu	37	chr6	116288822	116288822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaagctgtatggagttgcGgtctatctcccattggtcca	8	12	11	10	1	2	1	0	0	2	1	4	2	3	2	2	3	2	3	2	3	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:116288822G>A	uc003pwi.1	-	4	1138	c.691C>T	c.(691-693)CGC>TGC	p.R231C		NM_002031	NP_002022	P42685	FRK_HUMAN	fyn-related kinase	231					negative regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|lung(3)	6		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)		ATGGAGTTGCGGTCTATCTCC	0.418													45	77					0	0	1	0	0		A	116288822	A	A	116288822	3	1	70	1	0	0	0	0	1	0	0	0	6062	1116	39	1	846	1	FRK	6	116288822	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3812675	116288822	54826245	334	46350											
C6orf174	387104	broad.mit.edu	37	chr6	127836907	127836907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgcggctactgctgcCgccgccgttcttagcgtgca	4	9	14	14	5	1	0	0	0	1	0	1	1	1	1	3	2	7	5	3	2	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:127836907C>T	uc003qbd.2	-	2	1718	c.853G>A	c.(853-855)GGC>AGC	p.G285S		NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	285						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CTACTGCTGCCGCCGCCGTTC	0.706													7	7					0	0	1	0	0		T	127836907	T	T	127836907	3	4	70	1	0	0	0	0	1	0	0	0	2348	652	23	1	2014	1	C6orf174	6	127836907	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	11548085	127836907	43278160	335	46351											
LAMA2	3908	broad.mit.edu	37	chr6	129835564	129835564	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcagattcactgctgtctAtgatgctggggttccagggc	6	11	15	9	0	2	2	1	1	1	1	3	2	3	2	1	4	2	4	1	4	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:129835564A>G	uc003qbn.2	+	63	9140	c.9035A>G	c.(9034-9036)TAT>TGT	p.Y3012C	LAMA2_uc003qbo.2_Missense_Mutation_p.Y3008C|uc003qbq.2_Intron	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	3012	Laminin G-like 5.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		ACTGCTGTCTATGATGCTGGG	0.453													24	40					0	0	1	0	0		G	129835564	G	G	129835564	3	3	70	1	0	0	0	0	1	0	0	0	8622	449	16	3	9289	3	LAMA2	6	129835564	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	1998657	129835564	41279503	336	46352											
SLC2A12	154091	broad.mit.edu	37	chr6	134349555	134349555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaaaagcagcaacataaaCaagcaagctggctaaggaca	20	4	9	8	0	0	1	0	1	0	0	0	2	0	2	0	2	6	5	0	2	8	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:134349555C>T	uc003qem.1	-	2	1579	c.1408G>A	c.(1408-1410)GTT>ATT	p.V470I		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	470	Helical; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		GCAACATAAACAAGCAAGCTG	0.423													24	45					0	0	1	0	0		T	134349555	T	T	134349555	3	4	70	1	0	0	0	0	1	0	0	0	14566	478	17	4	461	4	SLC2A12	6	134349555	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4513991	134349555	36765512	337	46353											
SGK1	6446	broad.mit.edu	37	chr6	134583282	134583282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgggctcttgatccaccttCgtacctgcaatgtgcaaaag	9	12	9	11	1	1	1	0	1	1	0	3	1	2	1	3	1	3	4	3	1	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:134583282C>T	uc003qeo.3	-	2	672	c.74G>A	c.(73-75)CGA>CAA	p.R25Q	SGK1_uc003qep.2_Missense_Mutation_p.R25Q	NM_001143676	NP_001137148	O00141	SGK1_HUMAN	serum/glucocorticoid regulated kinase 1 isoform	Error:Variant_position_missing_in_O00141_after_alignment					apoptosis|response to stress|sodium ion transport	endoplasmic reticulum|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(3)|stomach(1)|lung(1)|central_nervous_system(1)	6	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00317)|GBM - Glioblastoma multiforme(68;0.00847)		GATCCACCTTCGTACCTGCAA	0.502													44	98					0	0	1	0	0		T	134583282	T	T	134583282	3	4	70	1	0	0	0	0	1	0	0	0	14232	884	31	1	1924	1	SGK1	6	134583282	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	233727	134583282	36531785	338	46354											
BCLAF1	9774	broad.mit.edu	37	chr6	136597275	136597275	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccactacatatccagtcTctttaagtttataatttttt	10	21	2	8	0	1	0	0	0	1	0	4	0	3	0	2	0	1	1	2	0	5	11			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:136597275T>C	uc003qgx.1	-	5	1641	c.1388A>G	c.(1387-1389)GAG>GGG	p.E463G	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Missense_Mutation_p.E461G|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.E461G	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	463					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		ATATCCAGTCTCTTTAAGTTT	0.338													27	93					0	0	1	0	0		C	136597275	C	C	136597275	3	2	70	1	0	0	0	0	1	0	0	0	1384	1551	54	3	1410	3	BCLAF1	6	136597275	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	2013993	136597275	34517792	339	46355											
BCLAF1	9774	broad.mit.edu	37	chr6	136599781	136599781	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctcctcctccttgataatAccctctaccccttcctctgt	6	14	2	19	0	2	1	0	1	2	0	6	1	6	1	8	0	2	0	8	0	3	5	rs142177067		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:136599781A>G	uc003qgx.1	-	4	491	c.238T>C	c.(238-240)TAT>CAT	p.Y80H	BCLAF1_uc003qgw.1_Missense_Mutation_p.Y80H|BCLAF1_uc003qgy.1_Missense_Mutation_p.Y78H|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.Y78H	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	80					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CCTTGATAATACCCTCTACCC	0.453													32	114					0	0	1	0	0		G	136599781	G	G	136599781	3	3	70	1	0	0	0	0	1	0	0	0	1384	391	14	3	2564	3	BCLAF1	6	136599781	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	2506	136599781	34515286	340	46356											
HECA	51696	broad.mit.edu	37	chr6	139487628	139487628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaacgagaagcaatgccGccagaacatgtggacaaaga	16	4	12	9	2	0	3	0	0	0	3	0	6	0	5	2	2	4	1	2	2	5	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:139487628G>A	uc003qin.2	+	2	764	c.479G>A	c.(478-480)CGC>CAC	p.R160H		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	160					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		AAGCAATGCCGCCAGAACATG	0.592													34	67					0	0	1	0	0		A	139487628	A	A	139487628	3	1	70	1	0	0	0	0	1	0	0	0	7054	1087	38	1	485	1	HECA	6	139487628	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2887847	139487628	31627439	341	46357											
C6orf211	79624	broad.mit.edu	37	chr6	151790162	151790162	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttggtctgcagcctgggCaaggggaacagctcctggcc	7	7	16	11	0	1	0	0	0	1	0	2	1	2	1	3	6	4	4	3	6	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:151790162C>T	uc003qok.1	+	5	1502	c.1243C>T	c.(1243-1245)CAA>TAA	p.Q415*	C6orf211_uc011ees.1_Nonsense_Mutation_p.Q296*	NM_024573	NP_078849	Q9H993	CF211_HUMAN	hypothetical protein LOC79624	415							protein binding				0			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)		GCAGCCTGGGCAAGGGGAACA	0.483													13	30					0	0	1	0	0		T	151790162	T	T	151790162	4	4	70	1	0	0	0	0	0	1	0	0	2357	711	25	2	1261	2	C6orf211	6	151790162	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	12302534	151790162	19324905	342	46358											
ESR1	2099	broad.mit.edu	37	chr6	152332821	152332821	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaccctccatgatcaggTccaccttctagaatgtgcct	8	13	7	13	0	2	3	1	2	1	1	4	3	4	3	5	1	1	0	5	1	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:152332821T>C	uc003qom.3	+	7	1497	c.1127T>C	c.(1126-1128)GTC>GCC	p.V376A	ESR1_uc010kin.2_Missense_Mutation_p.V376A|ESR1_uc010kio.2_Missense_Mutation_p.V378A|ESR1_uc010kip.2_Missense_Mutation_p.V375A|ESR1_uc003qon.3_Missense_Mutation_p.V376A|ESR1_uc003qoo.3_Missense_Mutation_p.V376A|ESR1_uc010kiq.2_Intron|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Intron|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Missense_Mutation_p.V45A|ESR1_uc011eex.1_Missense_Mutation_p.V157A|ESR1_uc010kit.1_Intron|ESR1_uc011eey.1_Missense_Mutation_p.V113A	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	376	Steroid-binding.|Interaction with AKAP13.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	CATGATCAGGTCCACCTTCTA	0.468													39	64					0	0	1	0	0		C	152332821	C	C	152332821	3	2	70	1	0	0	0	0	1	0	0	0	5264	1667	58	3	1145	3	ESR1	6	152332821	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	542659	152332821	18782246	343	46359											
SYNE1	23345	broad.mit.edu	37	chr6	152477160	152477160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcacaggcgtcacagtcgtGcagcaggacttcacacaggt	10	6	13	12	2	2	0	2	0	0	0	3	1	2	1	0	4	2	3	0	4	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:152477160G>A	uc010kiw.2	-	132	24465	c.23863C>T	c.(23863-23865)CAC>TAC	p.H7955Y	SYNE1_uc010kiv.2_Missense_Mutation_p.H2479Y|SYNE1_uc003qos.3_Missense_Mutation_p.H2479Y|SYNE1_uc003qot.3_Missense_Mutation_p.H7884Y|SYNE1_uc003qou.3_Missense_Mutation_p.H7955Y|SYNE1_uc003qop.3_Missense_Mutation_p.H117Y|SYNE1_uc011eez.1_Missense_Mutation_p.H157Y|SYNE1_uc003qoq.3_Missense_Mutation_p.H157Y|SYNE1_uc003qor.3_Missense_Mutation_p.H855Y	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7955	Spectrin 28.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCACAGTCGTGCAGCAGGACT	0.522										HNSCC(10;0.0054)			6	62					0	0	1	0	0		A	152477160	A	A	152477160	3	1	70	1	0	0	0	0	1	0	0	0	15470	1319	46	2	2663	2	SYNE1	6	152477160	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	144339	152477160	18637907	344	46360											
TULP4	56995	broad.mit.edu	37	chr6	158914725	158914725	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagcctgactcggagagaGtttccttttgaagacatcac	10	10	9	12	1	1	4	1	2	0	2	3	6	2	5	3	1	1	1	3	1	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:158914725G>A	uc003qrf.2	+	10	3109	c.1752G>A	c.(1750-1752)GAG>GAA	p.E584E	TULP4_uc003qrg.2_Silent_p.E584E	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	584					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CTCGGAGAGAGTTTCCTTTTG	0.662													26	46					0	0	1	0	0		A	158914725	A	A	158914725	2	1	70	1	0	0	0	0	0	0	0	1	16802	1020	36	4		4	TULP4	6	158914725	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6437565	158914725	12200342	345	46361											
TMEM181	57583	broad.mit.edu	37	chr6	159029369	159029369	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctttgtgttccagatccGttcttccccctctccttcct	2	16	5	18	1	2	1	0	0	2	1	7	1	6	1	7	0	0	2	7	0	0	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:159029369G>A	uc003qrm.3	+	9	1100	c.1089G>A	c.(1087-1089)CCG>CCA	p.P363P	TMEM181_uc010kjr.1_Silent_p.P194P	NM_020823	NP_065874	Q9P2C4	TM181_HUMAN	G protein-coupled receptor 178	363	Helical; (Potential).				pathogenesis	integral to membrane	toxin binding			ovary(2)|central_nervous_system(1)	3		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;8.15e-18)|BRCA - Breast invasive adenocarcinoma(81;1.38e-05)		TTCCAGATCCGTTCTTCCCCC	0.587													25	33					0	0	1	0	0		A	159029369	A	A	159029369	2	1	70	1	0	0	0	0	0	0	0	1	16125	1132	40	1		1	TMEM181	6	159029369	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	114644	159029369	12085698	346	46362											
SLC22A3	6581	broad.mit.edu	37	chr6	160829897	160829897	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctacttcatccccaactgGcaaggaatccagttagccat	11	9	7	14	0	1	0	1	0	0	0	3	1	3	1	5	2	3	2	5	2	5	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:160829897G>A	uc003qti.2	+	4	828	c.801G>A	c.(799-801)TGG>TGA	p.W267*	SLC22A3_uc011efx.1_RNA	NM_021977	NP_068812	O75751	S22A3_HUMAN	solute carrier family 22 member 3	267						integral to plasma membrane|membrane fraction	protein binding|quaternary ammonium group transmembrane transporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(66;0.00028)|Ovarian(120;0.0308)|Prostate(117;0.218)		OV - Ovarian serous cystadenocarcinoma(65;9.47e-17)|BRCA - Breast invasive adenocarcinoma(81;9.75e-06)		TCCCCAACTGGCAAGGAATCC	0.418													25	53					0	0	1	0	0		A	160829897	A	A	160829897	4	1	70	1	0	0	0	0	0	1	0	0	14480	1212	42	2	815	2	SLC22A3	6	160829897	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1800528	160829897	10285170	347	46363											
SLC22A3	6581	broad.mit.edu	37	chr6	160864677	160864677	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacagaaatttcggagtttcGctctgttcaggtctgtgtga	9	14	11	7	2	3	2	1	1	2	1	5	3	3	3	0	2	1	3	0	2	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:160864677G>A	uc003qti.2	+	9	1440	c.1413G>A	c.(1411-1413)TCG>TCA	p.S471S	SLC22A3_uc011efx.1_RNA	NM_021977	NP_068812	O75751	S22A3_HUMAN	solute carrier family 22 member 3	471	Helical; (Potential).					integral to plasma membrane|membrane fraction	protein binding|quaternary ammonium group transmembrane transporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(66;0.00028)|Ovarian(120;0.0308)|Prostate(117;0.218)		OV - Ovarian serous cystadenocarcinoma(65;9.47e-17)|BRCA - Breast invasive adenocarcinoma(81;9.75e-06)		TCGGAGTTTCGCTCTGTTCAG	0.378													16	27					0	0	1	0	0		A	160864677	A	A	160864677	2	1	70	1	0	0	0	0	0	0	0	1	14480	1074	38	1		1	SLC22A3	6	160864677	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	34780	160864677	10250390	348	46364											
TTLL2	83887	broad.mit.edu	37	chr6	167752266	167752266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccctcccaggcgaggccGcccaacaccaacactggaga	11	3	9	18	2	0	1	0	0	0	1	2	3	2	1	5	3	2	0	5	3	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:167752266G>A	uc003qvs.1	+	2	267	c.179G>A	c.(178-180)CGC>CAC	p.R60H	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	60					protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		AGGCGAGGCCGCCCAACACCA	0.443													3	19					0	0	1	0	0		A	167752266	A	A	167752266	3	1	70	1	0	0	0	0	1	0	0	0	16753	1087	38	1	185	1	TTLL2	6	167752266	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6887589	167752266	3362801	349	46365											
FRMD1	79981	broad.mit.edu	37	chr6	168457809	168457809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgtggtggagcctctcCgaacaggtccagggcgagac	7	7	14	13	2	1	1	0	0	1	1	4	4	3	2	4	4	2	0	4	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr6:168457809C>T	uc003qwo.3	-	11	1683	c.1618G>A	c.(1618-1620)GGA>AGA	p.G540R	FRMD1_uc003qwm.3_Missense_Mutation_p.G334R|FRMD1_uc011egs.1_Missense_Mutation_p.G311R|FRMD1_uc011egt.1_Missense_Mutation_p.G475R|FRMD1_uc003qwn.3_Missense_Mutation_p.G472R	NM_024919	NP_079195	Q8N878	FRMD1_HUMAN	FERM domain containing 1 isoform 1	540						cytoskeleton	binding			ovary(1)	1		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		GGAGCCTCTCCGAACAGGTCC	0.672													6	6					0	0	1	0	0		T	168457809	T	T	168457809	3	4	70	1	0	0	0	0	1	0	0	0	6063	661	23	1	35	1	FRMD1	6	168457809	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	705543	168457809	2657258	350	46366											
UNCX	340260	broad.mit.edu	37	chr7	1275553	1275553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggcgcacaactcgcaccCgaccacgtgcagcggcgagc	8	2	13	18	7	0	0	0	0	0	0	1	2	0	0	3	2	4	3	3	2	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:1275553C>T	uc011jvw.1	+	3	536	c.536C>T	c.(535-537)CCG>CTG	p.P179L		NM_001080461	NP_001073930	A6NJT0	UNC4_HUMAN	UNC homeobox	179					cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		AACTCGCACCCGACCACGTGC	0.632													3	12					0	0	1	0	0		T	1275553	T	T	1275553	3	4	70	1	0	0	0	0	1	0	0	0	17024	652	23	1	546	1	UNCX	7	1275553	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08		1275553	157863110	351	46367											
INTS1	26173	broad.mit.edu	37	chr7	1518141	1518141	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgcaggagcccccctcgCactgtgggaggtctgtgtga	6	7	16	12	2	1	1	0	1	1	0	2	3	1	3	3	4	1	2	3	4	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:1518141C>T	uc003skn.2	-	33	4592	c.4491G>A	c.(4489-4491)GTG>GTA	p.V1497V	INTS1_uc003skm.1_5'Flank	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	1497					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		GCCCCCCTCGCACTGTGGGAG	0.697													5	11					0	0	1	0	0		T	1518141	T	T	1518141	2	4	70	1	0	0	0	0	0	0	0	1	7791	724	25	2		2	INTS1	7	1518141	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	242588	1518141	157620522	352	46368											
MAD1L1	8379	broad.mit.edu	37	chr7	1997266	1997266	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctgccccgccctcacctGcagagctcgccgctccagct	5	6	10	20	3	1	1	1	0	0	1	3	1	2	1	6	1	4	5	6	1	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:1997266G>C	uc003slh.1	-	16	1860	c.1594C>G	c.(1594-1596)CAG>GAG	p.Q532E	MAD1L1_uc003sle.1_Missense_Mutation_p.Q261E|MAD1L1_uc003slf.1_Missense_Mutation_p.Q532E|MAD1L1_uc003slg.1_Missense_Mutation_p.Q532E|MAD1L1_uc010ksh.1_Missense_Mutation_p.Q532E|MAD1L1_uc003sli.1_Missense_Mutation_p.Q440E|MAD1L1_uc010ksi.1_Missense_Mutation_p.Q485E|MAD1L1_uc010ksj.2_Missense_Mutation_p.Q532E	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	532	Necessary for interaction with NEK2.|Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		GCCCTCACCTGCAGAGCTCGC	0.637													21	46					0	0	1	0	0		C	1997266	C	C	1997266	3	2	70	1	0	0	0	0	1	0	0	0	9165	1328	46	5	578	5	MAD1L1	7	1997266	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	479125	1997266	157141397	353	46369											
SDK1	221935	broad.mit.edu	37	chr7	4002384	4002384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctcgccagcggaggcctgCgcatccagaagctgcgtcca	7	6	13	15	4	0	1	0	0	0	1	3	2	2	2	4	2	5	3	4	2	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:4002384C>T	uc003smx.2	+	9	1469	c.1330C>T	c.(1330-1332)CGC>TGC	p.R444C		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	444	Ig-like C2-type 4.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CGGAGGCCTGCGCATCCAGAA	0.597													8	3					0	0	1	0	0		T	4002384	T	T	4002384	3	4	70	1	0	0	0	0	1	0	0	0	13993	768	27	1	1364	1	SDK1	7	4002384	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2005118	4002384	155136279	354	46370											
SP8	221833	broad.mit.edu	37	chr7	20825187	20825187	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccgcagccgccgaggaCgagccgccgttcctggaggc	5	3	16	17	7	0	0	0	0	0	0	1	4	1	2	7	3	2	2	7	3	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:20825187C>T	uc003suy.2	-	3	436	c.195G>A	c.(193-195)TCG>TCA	p.S65S	SP8_uc003suz.2_Silent_p.S83S	NM_198956	NP_945194	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor isoform 2	65	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						ccgccgAGGACGAGCCGCCGT	0.517													7	4					0	0	1	0	0		T	20825187	T	T	20825187	2	4	70	1	0	0	0	0	0	0	0	1	14995	523	19	1		1	SP8	7	20825187	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	16822803	20825187	138313476	355	46371											
HOXA4	3201	broad.mit.edu	37	chr7	27169037	27169037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaccagatcttgacctggCgctcagacaaacagagcgtg	13	6	11	11	2	2	4	1	1	1	3	2	5	2	4	2	1	3	1	2	1	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:27169037C>T	uc003sym.3	-	2	817	c.770G>A	c.(769-771)CGC>CAC	p.R257H	HOXA3_uc003syk.2_5'Flank	NM_002141	NP_002132	Q00056	HXA4_HUMAN	homeobox A4	257	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						CTTGACCTGGCGCTCAGACAA	0.572													39	62					0	0	1	0	0		T	27169037	T	T	27169037	3	4	70	1	0	0	0	0	1	0	0	0	7310	768	27	1	196	1	HOXA4	7	27169037	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	6343850	27169037	131969626	356	46372											
EVX1	2128	broad.mit.edu	37	chr7	27285699	27285699	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcgccgcatccgccgcCtccgccgccgcctcgccctt	1	6	11	23	8	0	0	0	0	0	0	3	0	2	0	9	1	0	1	9	1	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:27285699C>A	uc003szd.1	+	3	1365	c.879C>A	c.(877-879)GCC>GCA	p.A293A	EVX1_uc011jzn.1_Silent_p.A111A|EVX1_uc010kuy.1_3'UTR	NM_001989	NP_001980	P49640	EVX1_HUMAN	even-skipped homeobox 1	293	Ala-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						CATCCGCCGCCTCCGCCGCCG	0.761													6	11					8.12818e-05	8.29752e-05	1	1	0		A	27285699	A	A	27285699	2	1	70	1	0	0	0	0	0	0	0	1	5302	668	24	5		5	EVX1	7	27285699	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	116662	27285699	131852964	357	46373											
EEPD1	80820	broad.mit.edu	37	chr7	36194777	36194777	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccaacaaccccggggtgCgagaggtggtgtgcatgaca	10	5	16	10	2	0	2	0	1	0	1	0	3	0	2	3	5	4	1	3	5	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:36194777C>T	uc003tfa.2	+	2	1484	c.844C>T	c.(844-846)CGA>TGA	p.R282*		NM_030636	NP_085139	Q7L9B9	EEPD1_HUMAN	endonuclease/exonuclease/phosphatase family	282					DNA repair		DNA binding				0						CCCCGGGGTGCGAGAGGTGGT	0.592													13	14					0	0	1	0	0		T	36194777	T	T	36194777	4	4	70	1	0	0	0	0	0	1	0	0	4938	760	27	1	846	1	EEPD1	7	36194777	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	8909078	36194777	122943886	358	46374											
AMPH	273	broad.mit.edu	37	chr7	38502690	38502690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcggtgatggtgtctttGcaatgcggagaggacccgaa	9	8	16	8	3	1	2	0	1	1	1	1	5	1	3	1	5	2	1	1	5	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:38502690G>A	uc003tgu.2	-	10	842	c.773C>T	c.(772-774)GCA>GTA	p.A258V	AMPH_uc003tgv.2_Missense_Mutation_p.A258V|AMPH_uc003tgt.2_Missense_Mutation_p.A11V	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	258					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						TGGTGTCTTTGCAATGCGGAG	0.547													46	64					0	0	1	0	0		A	38502690	A	A	38502690	3	1	70	1	0	0	0	0	1	0	0	0	588	1319	46	2	1362	2	AMPH	7	38502690	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2307913	38502690	120635973	359	46375											
TNS3	64759	broad.mit.edu	37	chr7	47463773	47463773	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcaaacctgtcaagggcCtggtcggcgctgaaggggag	9	7	16	9	2	1	1	1	1	0	0	2	2	1	2	2	5	2	2	2	5	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:47463773C>A	uc003tnv.2	-	10	766	c.399G>T	c.(397-399)CAG>CAT	p.Q133H	TNS3_uc003tnw.2_Missense_Mutation_p.Q133H|TNS3_uc010kyo.1_Missense_Mutation_p.Q133H	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	133	Phosphatase tensin-type.					focal adhesion	protein binding			ovary(4)	4						TGTCAAGGGCCTGGTCGGCGC	0.488													17	26					2.35188e-11	2.48181e-11	1	1	0		A	47463773	A	A	47463773	3	1	70	1	0	0	0	0	1	0	0	0	16369	680	24	5	4026	5	TNS3	7	47463773	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	8961083	47463773	111674890	360	46376											
UPP1	7378	broad.mit.edu	37	chr7	48147888	48147888	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccctcgcaatgtgctcagCgagtaccagcagaggccgca	10	5	12	14	3	1	1	1	0	0	1	2	2	1	1	3	1	5	5	3	1	2	1	rs2230763	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:48147888C>T	uc003toj.2	+	10	1396	c.867C>T	c.(865-867)AGC>AGT	p.S289S	UPP1_uc003tok.2_Silent_p.S289S|UPP1_uc003tol.2_Silent_p.S289S|UPP1_uc011kch.1_Silent_p.S82S|UPP1_uc003ton.2_Silent_p.S152S|UPP1_uc003too.2_Silent_p.S152S	NM_181597	NP_853628	Q16831	UPP1_HUMAN	uridine phosphorylase 1	289					nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage	cytosol	uridine phosphorylase activity				0						ATGTGCTCAGCGAGTACCAGC	0.602													30	36					0	0	1	0	0		T	48147888	T	T	48147888	2	4	70	1	0	0	0	0	0	0	0	1	17038	767	27	1		1	UPP1	7	48147888	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	684115	48147888	110990775	361	46377											
LANCL2	55915	broad.mit.edu	37	chr7	55479744	55479744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgcactggtgccacggcGccccgggggtcatccacatg	5	7	15	14	3	1	0	1	0	0	0	2	0	2	0	4	5	2	1	4	5	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:55479744G>A	uc003tqp.2	+	6	1548	c.970G>A	c.(970-972)GCC>ACC	p.A324T		NM_018697	NP_061167	Q9NS86	LANC2_HUMAN	LanC lantibiotic synthetase component C-like 2	324					negative regulation of transcription, DNA-dependent|positive regulation of abscisic acid mediated signaling pathway	cortical actin cytoskeleton|cytosol|nucleus|plasma membrane	ATP binding|catalytic activity|GTP binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding			ovary(1)|skin(1)	2	Breast(14;0.0379)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00128)|Epithelial(13;0.0706)			GTGCCACGGCGCCCCGGGGGT	0.562													44	62					0	0	1	0	0		A	55479744	A	A	55479744	3	1	70	1	0	0	0	0	1	0	0	0	8637	1087	38	1	992	1	LANCL2	7	55479744	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	7331856	55479744	103658919	362	46378											
GBAS	2631	broad.mit.edu	37	chr7	56062600	56062600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacagggctcgtgcaatcCgcttcagacaggatggtaac	10	9	11	11	2	1	1	1	0	0	1	3	2	2	2	1	3	3	4	1	3	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:56062600C>T	uc003tre.1	+	8	639	c.631C>T	c.(631-633)CGC>TGC	p.R211C	GBAS_uc003trf.1_Missense_Mutation_p.R172C	NM_001483	NP_001474	O75323	NIPS2_HUMAN	nipsnap homolog 2	211						integral to plasma membrane|membrane fraction|mitochondrion	protein binding			central_nervous_system(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TCGTGCAATCCGCTTCAGACA	0.458													43	92					0	0	1	0	0		T	56062600	T	T	56062600	3	4	70	1	0	0	0	0	1	0	0	0	6284	652	23	1	661	1	GBAS	7	56062600	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	582856	56062600	103076063	363	46379											
POR	5447	broad.mit.edu	37	chr7	75608843	75608843	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaccgcctgtccaaggaCgcccaccgctacgggatgcg	8	4	12	17	5	0	0	0	0	0	0	1	2	1	2	6	2	3	1	6	2	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:75608843C>T	uc003udy.2	+	4	394	c.312C>T	c.(310-312)GAC>GAT	p.D104D	POR_uc011kgb.1_RNA|POR_uc011kgc.1_5'Flank|POR_uc011kgd.1_5'Flank|POR_uc011kge.1_5'Flank	NM_000941	NP_000932	P16435	NCPR_HUMAN	cytochrome P450 reductase	101	Flavodoxin-like.				cellular organofluorine metabolic process|positive regulation of monooxygenase activity	endoplasmic reticulum membrane	iron ion binding|NADPH-hemoprotein reductase activity			central_nervous_system(1)	1					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Lipoic Acid(DB00166)|Menadione(DB00170)|Methoxyflurane(DB01028)|Mitomycin(DB00305)|Nilutamide(DB00665)	TGTCCAAGGACGCCCACCGCT	0.622													21	24					0	0	1	0	0		T	75608843	T	T	75608843	2	4	70	1	0	0	0	0	0	0	0	1	12276	535	19	1		1	POR	7	75608843	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	19546243	75608843	83529820	364	46380											
PTPN12	5782	broad.mit.edu	37	chr7	77247840	77247840	+	Frame_Shift_Del	DEL	A	-	-																															ggtcagctccatagagcctgAaaaacaagattctcctcctc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:77247840delA	uc003ugh.2	+	12	1074	c.983delA	c.(982-984)GAAfs	p.E328fs	PTPN12_uc011kgp.1_Frame_Shift_Del_p.E209fs|PTPN12_uc011kgq.1_Frame_Shift_Del_p.E198fs|PTPN12_uc010lds.2_Frame_Shift_Del_p.E60fs	NM_002835	NP_002826	Q05209	PTN12_HUMAN	protein tyrosine phosphatase, non-receptor type	328						soluble fraction	non-membrane spanning protein tyrosine phosphatase activity|SH3 domain binding			ovary(1)|breast(1)|pancreas(1)	3						ATAGAGCCTGAAAAACAAGAT	0.363													61	95	---	---	---	---						.	-	77247840	-	-	77247840	7	5	70	1	0	1	0	1	0	0	0	0	12804	246	9	0	1029	0	PTPN12	7	77247840	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	1638997	77247840	81890823	365	46381											
MAGI2	9863	broad.mit.edu	37	chr7	77789517	77789517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctgttggtgtaggttgcGtagtcactgcgtggagagct	5	14	16	6	2	1	1	1	0	0	1	1	2	1	1	0	3	4	6	0	3	2	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:77789517G>A	uc003ugx.2	-	16	2924	c.2670C>T	c.(2668-2670)TAC>TAT	p.Y890Y	MAGI2_uc003ugy.2_Silent_p.Y876Y|MAGI2_uc010ldx.1_Silent_p.Y483Y	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	890						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TGTAGGTTGCGTAGTCACTGC	0.577													21	29					0	0	1	0	0		A	77789517	A	A	77789517	2	1	70	1	0	0	0	0	0	0	0	1	9209	1140	40	1		1	MAGI2	7	77789517	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	541677	77789517	81349146	366	46382											
CACNA2D1	781	broad.mit.edu	37	chr7	81599268	81599268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagaagctgtcctcatatGtctctgggttttcttgccaa	8	16	8	9	0	3	1	1	0	2	1	5	1	4	1	2	1	2	2	2	1	5	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:81599268G>A	uc003uhr.1	-	28	2493	c.2237C>T	c.(2236-2238)ACA>ATA	p.T746I	CACNA2D1_uc011kgy.1_Intron	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	758	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	GTCCTCATATGTCTCTGGGTT	0.373													9	46					0	0	1	0	0		A	81599268	A	A	81599268	3	1	70	1	0	0	0	0	1	0	0	0	2551	1377	48	4	1086	4	CACNA2D1	7	81599268	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3809751	81599268	77539395	367	46383											
PCLO	27445	broad.mit.edu	37	chr7	82582944	82582944	+	Frame_Shift_Del	DEL	T	-	-																															ctggagatgcaactgttaacTtttttttaggaagaatagtt																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:82582944delT	uc003uhx.2	-	5	7614	c.7325delA	c.(7324-7326)AAGfs	p.K2442fs	PCLO_uc003uhv.2_Frame_Shift_Del_p.K2442fs|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2373	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AACTGTTAACTTTTTTTTAGG	0.274													11	11	---	---	---	---						.	-	82582944	-	-	82582944	7	5	70	1	0	1	0	1	0	0	0	0	11602	1609	56	0	8204	0	PCLO	7	82582944	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	983676	82582944	76555719	368	46384											
KIAA1324L	222223	broad.mit.edu	37	chr7	86522242	86522242	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcagagggtacttacttttGattctttttccagaagtagc	9	16	8	8	0	2	3	1	1	1	2	3	3	3	3	1	1	3	2	1	1	4	8			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:86522242G>A	uc011kha.1	-	20	3045	c.2860C>T	c.(2860-2862)CAA>TAA	p.Q954*	KIAA1324L_uc003uif.1_Nonsense_Mutation_p.Q714*|KIAA1324L_uc011kgz.1_Nonsense_Mutation_p.Q840*|KIAA1324L_uc003uie.2_Nonsense_Mutation_p.Q787*	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	954	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					ACTTACTTTTGATTCTTTTTC	0.428													31	41					0	0	1	0	0		A	86522242	A	A	86522242	4	1	70	1	0	0	0	0	0	1	0	0	8240	1299	45	4	241	4	KIAA1324L	7	86522242	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3939298	86522242	72616421	369	46385											
CROT	54677	broad.mit.edu	37	chr7	86978480	86978480	+	Frame_Shift_Del	DEL	A	-	-																															ccttcacttgaagaatcattAaaaaaataccttgaatcagg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:86978480delA	uc003uit.2	+	3	341	c.96delA	c.(94-96)TTAfs	p.L32fs	CROT_uc003uis.3_Frame_Shift_Del_p.L32fs|CROT_uc003uiu.2_Frame_Shift_Del_p.L32fs	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	32					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	AAGAATCATTAAAAAAATACC	0.264													25	47	---	---	---	---						.	-	86978480	-	-	86978480	7	5	70	1	0	1	0	1	0	0	0	0	3897	359	13	0	98	0	CROT	7	86978480	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	456238	86978480	72160183	370	46386											
PEX1	5189	broad.mit.edu	37	chr7	92118635	92118635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaattcttccagtcatcttCactaatggatggtcttgtgt	10	16	7	8	0	5	0	2	0	3	0	6	1	6	1	1	2	0	0	1	2	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:92118635C>T	uc003uly.2	-	23	3835	c.3739G>A	c.(3739-3741)GAA>AAA	p.E1247K	PEX1_uc011khr.1_Missense_Mutation_p.E1039K|PEX1_uc010ley.2_Missense_Mutation_p.E1190K|PEX1_uc011khs.1_Missense_Mutation_p.E925K	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	1247					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			CAGTCATCTTCACTAATGGAT	0.388													11	15					0	0	1	0	0		T	92118635	T	T	92118635	3	4	70	1	0	0	0	0	1	0	0	0	11754	835	29	4	120	4	PEX1	7	92118635	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	5140155	92118635	67020028	371	46387											
C7orf64	84060	broad.mit.edu	37	chr7	92164141	92164141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagaagaagagaagatgatCgtaaacttggaacttttctt	17	11	9	4	1	1	5	0	1	1	4	2	7	1	6	0	1	2	1	0	1	7	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:92164141C>T	uc003ulz.2	+	4	915	c.874C>T	c.(874-876)CGT>TGT	p.R292C	C7orf64_uc003uma.2_Missense_Mutation_p.R292C	NM_032120	NP_115496	Q5RL73	CG064_HUMAN	hypothetical protein LOC84060	292							nucleotide binding			ovary(2)	2						AGAAGATGATCGTAAACTTGG	0.428													15	26					0	0	1	0	0		T	92164141	T	T	92164141	3	4	70	1	0	0	0	0	1	0	0	0	2413	884	31	1	888	1	C7orf64	7	92164141	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	45506	92164141	66974522	372	46388											
HEPACAM2	253012	broad.mit.edu	37	chr7	92844875	92844875	+	Frame_Shift_Del	DEL	T	-	-																															tggtgtggacaggtctcccaTtttttagccattggtaagct																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:92844875delT	uc003umm.2	-	3	577	c.554delA	c.(553-555)AATfs	p.N185fs	HEPACAM2_uc003uml.2_Frame_Shift_Del_p.N173fs|HEPACAM2_uc010lff.2_Frame_Shift_Del_p.N173fs|HEPACAM2_uc011khy.1_Frame_Shift_Del_p.N208fs	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	185	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane				ovary(3)|breast(1)|kidney(1)	5						AGGTCTCCCATTTTTTAGCCA	0.507													40	66	---	---	---	---						.	-	92844875	-	-	92844875	7	5	70	1	0	1	0	1	0	0	0	0	7069	1493	52	0	866	0	HEPACAM2	7	92844875	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	680734	92844875	66293788	373	46389											
TECPR1	25851	broad.mit.edu	37	chr7	97862826	97862827	+	Frame_Shift_Ins	INS	-	A	A																															agcgggtggtcatccaccccINSatacggctcctccaagccca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:97862826_97862827insA	uc003upg.2	-	11	1783_1784	c.1578_1579insT	c.(1576-1581)TATGGGfs	p.Y526fs	TECPR1_uc003uph.1_Frame_Shift_Ins_p.Y456fs	NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	526_527						integral to membrane	protein binding			pancreas(1)	1						TCATCCACCCCATACGGCTCCT	0.673													5	3	---	---	---	---						.	A	97862827	A	A	97862826	7	5	70	1	0	1	1	0	0	0	0	0	15768	594	21	0	1982	0	TECPR1	7	97862826	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	5017951	97862826	61275837	374	46390											
STAG3	10734	broad.mit.edu	37	chr7	99779803	99779803	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagcagcaaaacgaccaccGaaaacaacaccggtgagtca	18	2	9	12	3	1	2	1	1	0	1	1	4	1	2	3	1	5	2	3	1	5	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:99779803G>A	uc003utx.1	+	3	362	c.207G>A	c.(205-207)CCG>CCA	p.P69P	STAG3_uc010lgs.1_5'UTR|STAG3_uc011kjk.1_Silent_p.P69P	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	69					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AACGACCACCGAAAACAACAC	0.358													17	31					0	0	1	0	0		A	99779803	A	A	99779803	2	1	70	1	0	0	0	0	0	0	0	1	15269	1045	37	1		1	STAG3	7	99779803	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1916977	99779803	59358860	375	46391											
AGFG2	3268	broad.mit.edu	37	chr7	100161926	100161926	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctccaccaaccccttcatGgtgagtgtgccagcaggggt	8	9	11	13	0	2	1	1	1	1	0	3	1	2	1	5	3	3	1	5	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:100161926G>T	uc003uvf.2	+	11	1522	c.1386G>T	c.(1384-1386)ATG>ATT	p.M462I	AGFG2_uc010lgy.2_Nonstop_Mutation_p.*255L	NM_006076	NP_006067	O95081	AGFG2_HUMAN	ArfGAP with FG repeats 2	462					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			central_nervous_system(1)	1						ACCCCTTCATGGTGAGTGTGC	0.622											OREG0018204	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	11					0.00198382	0.00200877	1	1	0		T	100161926	T	T	100161926	3	4	70	1	0	0	0	0	1	0	0	0	381	1362	47	5	1428	5	AGFG2	7	100161926	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	382123	100161926	58976737	376	46392											
SLC12A9	56996	broad.mit.edu	37	chr7	100452000	100452000	+	Frame_Shift_Del	DEL	G	-	-																															tagttgtttttctgaggattGgtgagtgggtcctggggcgg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:100452000delG	uc003uwp.2	+	2	323	c.181delG	c.(181-183)GGGfs	p.G61fs	SLC12A9_uc003uwo.1_Frame_Shift_Del_p.D61fs|SLC12A9_uc003uwq.2_Frame_Shift_Del_p.D61fs|SLC12A9_uc011kki.1_Intron|SLC12A9_uc003uwr.2_5'Flank|SLC12A9_uc003uws.2_5'Flank|SLC12A9_uc003uwt.2_5'Flank	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	61	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					TCTGAGGATTGGTGAGTGGGT	0.582													13	25	---	---	---	---						.	-	100452000	-	-	100452000	7	5	70	1	0	1	0	1	0	0	0	0	14415	1362	47	0	183	0	SLC12A9	7	100452000	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	290074	100452000	58686663	377	46393											
ACHE	43	broad.mit.edu	37	chr7	100491560	100491560	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacatattggtagcagacActctggaaggttgtagcgtc	10	11	11	9	1	1	1	0	0	1	1	3	2	2	2	1	3	2	4	1	3	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:100491560A>G	uc003uxd.2	-	1	450	c.294T>C	c.(292-294)AGT>AGC	p.S98S	ACHE_uc003uxe.2_Silent_p.S98S|ACHE_uc003uxf.2_Silent_p.S98S|ACHE_uc003uxg.2_Silent_p.S98S|ACHE_uc003uxh.2_Silent_p.S98S|ACHE_uc003uxi.2_Silent_p.S98S|ACHE_uc003uxj.1_Silent_p.S217S	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	98					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	GGTAGCAGACACTCTGGAAGG	0.597													23	61					0	0	1	0	0		G	100491560	G	G	100491560	2	3	70	1	0	0	0	0	0	0	0	1	141	156	6	3		3	ACHE	7	100491560	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	39560	100491560	58647103	378	46394											
FBXL13	222235	broad.mit.edu	37	chr7	102566738	102566738	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacctcggcaggagtcgcatCgtcctgttggtgatagttgt	6	13	13	9	3	0	1	0	1	0	0	4	2	1	2	2	3	1	4	2	3	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:102566738C>T	uc003vaq.2	-	10	1288	c.861G>A	c.(859-861)ACG>ACA	p.T287T	FBXL13_uc010liq.1_Silent_p.T102T|FBXL13_uc010lir.1_Silent_p.T287T|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Silent_p.T287T|LRRC17_uc003vat.2_Intron|LRRC17_uc003vau.2_Intron	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	287	LRR 3.										0						GGAGTCGCATCGTCCTGTTGG	0.463													12	22					0	0	1	0	0		T	102566738	T	T	102566738	2	4	70	1	0	0	0	0	0	0	0	1	5723	871	31	1		1	FBXL13	7	102566738	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2075178	102566738	56571925	379	46395											
LAMB4	22798	broad.mit.edu	37	chr7	107706348	107706348	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgaagaaggatttccatAgtaaccatcaatacacctgt	14	11	6	10	0	1	2	1	1	0	1	3	3	3	3	4	1	2	1	4	1	6	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:107706348A>G	uc010ljo.1	-	21	2779	c.2695T>C	c.(2695-2697)TAT>CAT	p.Y899H	LAMB4_uc003vey.2_Missense_Mutation_p.Y899H|LAMB4_uc010ljp.1_5'Flank	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	899	Laminin EGF-like 8.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						GGATTTCCATAGTAACCATCA	0.418													39	57					0	0	1	0	0		G	107706348	G	G	107706348	3	3	70	1	0	0	0	0	1	0	0	0	8629	420	15	3	2646	3	LAMB4	7	107706348	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	5139610	107706348	51432315	380	46396											
KCND2	3751	broad.mit.edu	37	chr7	119914694	119914694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaagtaatcatggcggCgggggtggcagcgtggctgc	6	8	18	9	3	2	0	2	0	0	0	2	0	2	0	0	6	2	4	0	6	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:119914694C>T	uc003vjj.1	+	1	973	c.8C>T	c.(7-9)GCG>GTG	p.A3V		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	3	Interaction with KCNIP2.|Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					ATCATGGCGGCGGGGGTGGCA	0.607													13	198					0	0	1	0	0		T	119914694	T	T	119914694	3	4	70	1	0	0	0	0	1	0	0	0	8035	768	27	1	10	1	KCND2	7	119914694	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	12208346	119914694	39223969	381	46397											
ASB15	142685	broad.mit.edu	37	chr7	123267185	123267185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgatgtgcttgctttggCggatgatggggcgtcggtgc	3	13	19	6	3	0	2	0	2	0	0	1	3	0	3	0	6	3	2	0	6	0	2	rs138215101	by1000genomes	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:123267185C>T	uc003vku.1	+	9	1011	c.719C>T	c.(718-720)GCG>GTG	p.A240V	ASB15_uc003vkv.1_Missense_Mutation_p.A240V|ASB15_uc003vkw.1_Missense_Mutation_p.A240V	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	240	ANK 4.				intracellular signal transduction					skin(2)|lung(1)	3						CTTGCTTTGGCGGATGATGGG	0.488													37	50					0	0	1	0	0		T	123267185	T	T	123267185	3	4	70	1	0	0	0	0	1	0	0	0	1020	768	27	1	741	1	ASB15	7	123267185	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3352491	123267185	35871478	382	46398											
SND1	27044	broad.mit.edu	37	chr7	127721508	127721508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaagcccgtgtttgtgactGagatcactgatgacctgcac	10	10	10	11	1	1	4	1	4	0	1	1	5	1	4	2	0	2	2	2	0	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:127721508G>A	uc003vmi.2	+	18	2291	c.2065G>A	c.(2065-2067)GAG>AAG	p.E689K	SND1_uc010lle.2_Missense_Mutation_p.E342K|MIR593_hsa-mir-593|MI0003605_5'Flank	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	689					gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						GTTTGTGACTGAGATCACTGA	0.612													5	30					0	0	1	0	0		A	127721508	A	A	127721508	3	1	70	1	0	0	0	0	1	0	0	0	14869	1291	45	4	2135	4	SND1	7	127721508	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4454323	127721508	31417155	383	46399											
FAM71F1	84691	broad.mit.edu	37	chr7	128370003	128370003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccttgcacctgtgacctaCgttggagggcttcattcacg	6	12	10	13	2	2	1	2	1	0	0	3	2	3	2	3	2	2	3	3	2	1	5	rs140953386	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:128370003C>T	uc003vno.1	+	6	954	c.901C>T	c.(901-903)CGT>TGT	p.R301C	FAM71F1_uc003vnm.1_RNA|FAM71F1_uc003vnn.1_Missense_Mutation_p.R200C|FAM71F1_uc003vnp.1_Missense_Mutation_p.R299C	NM_032599	NP_115988	Q96KD3	F71F1_HUMAN	testes development-related NYD-SP18	301										skin(1)	1						CTGTGACCTACGTTGGAGGGC	0.547													44	69					0	0	1	0	0		T	128370003	T	T	128370003	3	4	70	1	0	0	0	0	1	0	0	0	5626	536	19	1	923	1	FAM71F1	7	128370003	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	648495	128370003	30768660	384	46400											
FLNC	2318	broad.mit.edu	37	chr7	128470903	128470903	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgacgggctccggctcaTcgcgctgctcgaggtgctca	5	7	14	15	6	2	0	2	0	0	0	5	2	3	0	1	3	3	5	1	3	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:128470903T>C	uc003vnz.3	+	1	421	c.212T>C	c.(211-213)ATC>ACC	p.I71T	FLNC_uc003voa.3_Missense_Mutation_p.I71T	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	71	CH 1.|Actin-binding.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CTCCGGCTCATCGCGCTGCTC	0.637													9	15					0	0	1	0	0		C	128470903	C	C	128470903	3	2	70	1	0	0	0	0	1	0	0	0	5949	1435	50	3	214	3	FLNC	7	128470903	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	100900	128470903	30667760	385	46401											
PLXNA4	91584	broad.mit.edu	37	chr7	132192848	132192848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagttcttggtcagtttcCggctggagatggtgggaaaa	9	11	15	6	1	2	2	1	0	1	2	3	4	3	3	1	5	0	3	1	5	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:132192848C>T	uc003vra.3	-	2	834	c.605G>A	c.(604-606)CGG>CAG	p.R202Q	PLXNA4_uc003vrc.2_Missense_Mutation_p.R202Q|PLXNA4_uc003vrb.2_Missense_Mutation_p.R202Q	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	202	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GGTCAGTTTCCGGCTGGAGAT	0.532													40	57					0	0	1	0	0		T	132192848	T	T	132192848	3	4	70	1	0	0	0	0	1	0	0	0	12141	652	23	1	5517	1	PLXNA4	7	132192848	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3721945	132192848	26945815	386	46402											
DGKI	9162	broad.mit.edu	37	chr7	137293790	137293790	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagatgggttttatcacaaaAggacgacctttgttttcctg	10	14	10	7	1	1	1	1	0	0	1	2	4	2	2	2	2	0	2	2	2	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:137293790A>G	uc003vtt.2	-	10	1090	c.1089T>C	c.(1087-1089)CCT>CCC	p.P363P	DGKI_uc003vtu.2_Silent_p.P63P	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	363					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						TTATCACAAAAGGACGACCTT	0.438													19	31					0	0	1	0	0		G	137293790	G	G	137293790	2	3	70	1	0	0	0	0	0	0	0	1	4477	59	3	3		3	DGKI	7	137293790	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	5100942	137293790	21844873	387	46403											
TBXAS1	6916	broad.mit.edu	37	chr7	139719830	139719830	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttctctattttaggtaccGctgcagctagaatccaaatc	10	15	6	10	1	1	1	0	0	1	1	4	1	2	1	2	1	3	4	2	1	6	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:139719830G>A	uc011kqv.1	+	14	1838	c.1674G>A	c.(1672-1674)CCG>CCA	p.P558P	TBXAS1_uc003vvh.2_Silent_p.P512P|TBXAS1_uc010lne.2_Silent_p.P444P|TBXAS1_uc003vvi.2_Silent_p.P512P|TBXAS1_uc003vvj.2_Missense_Mutation_p.R458H|TBXAS1_uc011kqw.1_Silent_p.P492P	NM_001130966	NP_001124438	P24557	THAS_HUMAN	thromboxane A synthase 1, platelet isoform	511	Cytoplasmic (Potential).				hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|thromboxane-A synthase activity			ovary(2)|breast(1)	3	Melanoma(164;0.0142)					TTTAGGTACCGCTGCAGCTAG	0.318													15	36					0	0	1	0	0		A	139719830	A	A	139719830	2	1	70	1	0	0	0	0	0	0	0	1	15689	1087	38	1		1	TBXAS1	7	139719830	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2426040	139719830	19418833	388	46404											
MGAM	8972	broad.mit.edu	37	chr7	141747660	141747660	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaacttttctgggataaTggggaaacgaagggtgagca	13	8	16	4	1	1	2	0	1	1	1	1	6	1	4	0	5	3	1	0	5	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:141747660T>C	uc003vwy.2	+	22	2628	c.2574T>C	c.(2572-2574)AAT>AAC	p.N858N		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	858	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	TCTGGGATAATGGGGAAACGA	0.463													12	20					0	0	1	0	0		C	141747660	C	C	141747660	2	2	70	1	0	0	0	0	0	0	0	1	9559	1461	51	3		3	MGAM	7	141747660	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	2027830	141747660	17391003	389	46405											
TRPV5	56302	broad.mit.edu	37	chr7	142622641	142622641	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctgtagtagtttttgctGgaggatggtgatgtctcgag	7	14	14	6	1	1	1	0	1	1	0	2	4	1	3	1	3	1	4	1	3	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:142622641G>A	uc003wby.1	-	8	1369	c.1105C>T	c.(1105-1107)CAG>TAG	p.Q369*	TRPV5_uc003wbz.2_Nonsense_Mutation_p.Q369*	NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	369	Extracellular (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					AGTTTTTGCTGGAGGATGGTG	0.517													22	41					0	0	1	0	0		A	142622641	A	A	142622641	4	1	70	1	0	0	0	0	0	1	0	0	16625	1357	47	4	1116	4	TRPV5	7	142622641	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	874981	142622641	16516022	390	46406											
CUL1	8454	broad.mit.edu	37	chr7	148485743	148485743	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcaattcaaaaagcactTgacaaactcagaacccctag	17	6	6	12	1	2	2	2	1	0	1	2	3	2	2	2	0	4	2	2	0	6	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:148485743T>C	uc010lpg.2	+	14	2100	c.1574T>C	c.(1573-1575)TTG>TCG	p.L525S	CUL1_uc003wey.2_Missense_Mutation_p.L525S|CUL1_uc003wez.2_Missense_Mutation_p.L415S|CUL1_uc003wfa.2_Missense_Mutation_p.L186S	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	525					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			AAAAAGCACTTGACAAACTCA	0.428													37	84					0	0	1	0	0		C	148485743	C	C	148485743	3	2	70	1	0	0	0	0	1	0	0	0	4057	1821	63	3	1624	3	CUL1	7	148485743	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	5863102	148485743	10652920	391	46407											
CUL1	8454	broad.mit.edu	37	chr7	148495753	148495753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaaacatcgaggaagaccGcaaactactgattcaggtga	17	6	9	9	2	1	3	1	2	0	1	2	5	1	4	1	2	3	1	1	2	5	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:148495753G>A	uc010lpg.2	+	20	2646	c.2120G>A	c.(2119-2121)CGC>CAC	p.R707H	CUL1_uc003wey.2_Missense_Mutation_p.R707H|CUL1_uc003wez.2_Missense_Mutation_p.R597H|CUL1_uc003wfa.2_Missense_Mutation_p.R368H	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	707					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GAGGAAGACCGCAAACTACTG	0.498													28	45					0	0	1	0	0		A	148495753	A	A	148495753	3	1	70	1	0	0	0	0	1	0	0	0	4057	1087	38	1	2194	1	CUL1	7	148495753	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	10010	148495753	10642910	392	46408											
ZNF282	8427	broad.mit.edu	37	chr7	148921307	148921307	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgcggcaagagcttcggCgtgcgcaagagcctcatcat	9	7	14	11	4	2	2	2	0	0	2	3	3	2	2	1	2	4	3	1	2	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:148921307C>T	uc003wfm.2	+	8	1689	c.1584C>T	c.(1582-1584)GGC>GGT	p.G528G	ZNF282_uc011kun.1_Intron|ZNF282_uc003wfo.2_Missense_Mutation_p.A205V	NM_003575	NP_003566	Q9UDV7	ZN282_HUMAN	zinc finger protein 282	528	C2H2-type 1.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)	Lung(243;0.145)		AGAGCTTCGGCGTGCGCAAGA	0.647													8	20					0	0	1	0	0		T	148921307	T	T	148921307	2	4	70	1	0	0	0	0	0	0	0	1	17844	755	27	1		1	ZNF282	7	148921307	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	425554	148921307	10217356	393	46409											
SSPO	23145	broad.mit.edu	37	chr7	149489430	149489431	+	Frame_Shift_Del	DEL	GT	-	-																															gtgctgggcagcgaggggtgGtgtgtgtggccccggcagtg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr7:149489430_149489431delGT	uc010lpk.2	+	38	5583_5584	c.5583_5584delGT	c.(5581-5586)TGGTGTfs	p.W1861fs		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	1861_1862	EGF-like 1.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GCGAGGGGTGGTGTGTGTGGCC	0.683													5	2	---	---	---	---						.	-	149489431	-	-	149489430	7	5	70	1	0	1	0	1	0	0	0	0	15214	1270	44	0	5725	0	SSPO	7	149489430	Frame_Shift_Del	DEL	GT	TCGA-BR-8368-01A-11D-2340-08	568123	149489430	9649233	394	46410											
ZNF596	169270	broad.mit.edu	37	chr8	195449	195449	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attggaatgtcgtgtgtgtgGgaaaacctttagcaaaaatt	13	13	11	4	1	0	0	0	0	0	0	1	2	0	2	1	2	2	1	1	2	6	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:195449G>T	uc003wot.2	+	6	890	c.602G>T	c.(601-603)GGG>GTG	p.G201V	ZNF596_uc003wou.2_Missense_Mutation_p.G100V|ZNF596_uc003wov.2_Missense_Mutation_p.G201V|ZNF596_uc003wow.2_Missense_Mutation_p.G201V	NM_173539	NP_775810	Q8TC21	ZN596_HUMAN	zinc finger protein 596	201	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(2;4.81e-29)|all_epithelial(2;5.03e-19)|Lung NSC(2;8.68e-08)|all_lung(2;1.52e-07)|Ovarian(12;0.00965)|Colorectal(14;0.0367)|all_neural(12;0.0837)|Myeloproliferative disorder(644;0.116)|all_hematologic(2;0.138)|Acute lymphoblastic leukemia(644;0.242)		Epithelial(5;3.77e-18)|all cancers(2;5.2e-17)|OV - Ovarian serous cystadenocarcinoma(5;5.37e-09)|BRCA - Breast invasive adenocarcinoma(11;1.7e-06)|Colorectal(2;6.51e-05)|READ - Rectum adenocarcinoma(2;0.0276)|COAD - Colon adenocarcinoma(149;0.0702)		CGTGTGTGTGGGAAAACCTTT	0.413													34	93					6.04164e-23	6.57868e-23	1	1	0		T	195449	T	T	195449	3	4	70	1	0	0	0	0	1	0	0	0	18051	1232	43	5	620	5	ZNF596	8	195449	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08		195449	146168573	395	46411											
MCPH1	79648	broad.mit.edu	37	chr8	6299603	6299603	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagcttcccaaatgattcAgcagtctcatgataatccaa	13	13	5	10	0	2	2	2	2	1	0	5	2	4	2	2	0	2	2	2	0	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:6299603A>G	uc003wqi.2	+	7	664	c.596A>G	c.(595-597)CAG>CGG	p.Q199R	MCPH1_uc003wqh.2_Missense_Mutation_p.Q199R|MCPH1_uc011kwl.1_Missense_Mutation_p.Q151R	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	199						microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		CAAATGATTCAGCAGTCTCAT	0.373													17	47					0	0	1	0	0		G	6299603	G	G	6299603	3	3	70	1	0	0	0	0	1	0	0	0	9416	188	7	3	622	3	MCPH1	8	6299603	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	6104154	6299603	140064419	396	46412											
FAM167A	83648	broad.mit.edu	37	chr8	11301796	11301796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attccaggtaggagggcctgCgggtctccagcctcagtttc	6	10	13	12	1	2	0	1	0	1	0	5	1	3	1	4	4	2	2	4	4	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:11301796C>T	uc010lry.1	-	2	745	c.125G>A	c.(124-126)CGC>CAC	p.R42H	FAM167A_uc003wtw.2_Missense_Mutation_p.R42H	NM_053279	NP_444509	Q96KS9	F167A_HUMAN	hypothetical protein LOC83648	42											0						GGAGGGCCTGCGGGTCTCCAG	0.682													40	97					0	0	1	0	0		T	11301796	T	T	11301796	3	4	70	1	0	0	0	0	1	0	0	0	5494	768	27	1	527	1	FAM167A	8	11301796	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	5002193	11301796	135062226	397	46413											
PCM1	5108	broad.mit.edu	37	chr8	17824624	17824624	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttcagctttccaacacaGcctgtaaatctcttcaatat	11	14	3	13	0	3	0	2	0	1	0	5	0	4	0	3	0	3	2	3	0	5	5	rs34135535		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:17824624G>A	uc003wyi.3	+	21	3779	c.3357G>A	c.(3355-3357)CAG>CAA	p.Q1119Q	PCM1_uc011kyh.1_Silent_p.Q1119Q|PCM1_uc003wyj.3_Silent_p.Q1120Q	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	1119					centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		TTCCAACACAGCCTGTAAATC	0.393			T	RET|JAK2	papillary thyroid|CML|MPD								5	6					0	0	1	0	0		A	17824624	A	A	17824624	2	1	70	1	0	0	0	0	0	0	0	1	11603	962	34	2		2	PCM1	8	17824624	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6522828	17824624	128539398	398	46414											
EPB49	2039	broad.mit.edu	37	chr8	21938939	21938939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaagctggctctgtggaagCggaatgagctcaagaagaag	13	6	15	7	1	2	3	1	1	1	2	2	5	2	5	0	3	3	4	0	3	6	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:21938939C>T	uc011kyt.1	+	15	1412	c.1183C>T	c.(1183-1185)CGG>TGG	p.R395W	EPB49_uc010ltl.2_Missense_Mutation_p.R373W|EPB49_uc010ltn.2_Missense_Mutation_p.R348W|EPB49_uc011kyu.1_Missense_Mutation_p.R395W|EPB49_uc011kyv.1_Missense_Mutation_p.R395W|EPB49_uc010ltq.2_Missense_Mutation_p.R373W	NM_001114136	NP_001107608	Q08495	DEMA_HUMAN	erythrocyte membrane protein band 4.9 isoform 1	395	HP.				actin filament bundle assembly|actin filament capping	actin cytoskeleton|nucleus	actin binding			central_nervous_system(1)	1				Colorectal(74;9.05e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0631)		TCTGTGGAAGCGGAATGAGCT	0.597													18	77					0	0	1	0	0		T	21938939	T	T	21938939	3	4	70	1	0	0	0	0	1	0	0	0	5167	759	27	1	1244	1	EPB49	8	21938939	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4114315	21938939	124425083	399	46415											
BMP1	649	broad.mit.edu	37	chr8	22054887	22054887	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgcgtggagttcaagtcCgacaacaccgtgtccaaaaa	13	7	10	11	4	1	0	1	0	0	0	3	2	3	1	3	1	2	1	3	1	4	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:22054887C>T	uc003xbg.2	+	15	2305	c.2061C>T	c.(2059-2061)TCC>TCT	p.S687S	BMP1_uc003xba.2_Silent_p.S687S|BMP1_uc003xbb.2_Silent_p.S687S|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Silent_p.S436S|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Silent_p.S436S|BMP1_uc011kzc.1_Silent_p.S436S|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	687	CUB 3.				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		AGTTCAAGTCCGACAACACCG	0.567													54	173					0	0	1	0	0		T	22054887	T	T	22054887	2	4	70	1	0	0	0	0	0	0	0	1	1457	639	23	1		1	BMP1	8	22054887	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	115948	22054887	124309135	400	46416											
NEFM	4741	broad.mit.edu	37	chr8	24771385	24771385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctcgagcttcagccgcGtcagcggctccccgtccagt	4	7	11	19	6	2	0	2	0	0	0	5	1	4	0	5	1	3	3	5	1	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:24771385G>A	uc003xed.3	+	1	112	c.79G>A	c.(79-81)GTC>ATC	p.V27I	NEFM_uc011lac.1_Missense_Mutation_p.V27I|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	27	Head.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		CTTCAGCCGCGTCAGCGGCTC	0.692													5	11					0	0	1	0	0		A	24771385	A	A	24771385	3	1	70	1	0	0	0	0	1	0	0	0	10335	1145	40	1	81	1	NEFM	8	24771385	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2716498	24771385	121592637	401	46417											
STMN4	81551	broad.mit.edu	37	chr8	27097502	27097502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcaccttctcttgcagccGttccaacatggcggcgaggt	6	10	10	15	3	2	0	1	0	1	0	4	1	3	0	4	3	3	2	4	3	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:27097502G>A	uc003xfk.2	-	5	610	c.496C>T	c.(496-498)CGG>TGG	p.R166W	STMN4_uc003xfj.2_Missense_Mutation_p.R193W|STMN4_uc011lai.1_Missense_Mutation_p.R193W|STMN4_uc011laj.1_Missense_Mutation_p.R157W|STMN4_uc011lak.1_Missense_Mutation_p.R193W|STMN4_uc010luo.2_Missense_Mutation_p.R166W			Q9H169	STMN4_HUMAN	RecName: Full=Stathmin-4; AltName: Full=Stathmin-like protein B3;          Short=RB3;	166	Potential.				intracellular signal transduction					large_intestine(1)|pancreas(1)	2		Ovarian(32;0.00167)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0214)|Epithelial(17;9.82e-10)|Colorectal(74;0.142)		TCTTGCAGCCGTTCCAACATG	0.532													16	59					0	0	1	0	0		A	27097502	A	A	27097502	3	1	70	1	0	0	0	0	1	0	0	0	15336	1144	40	1	81	1	STMN4	8	27097502	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2326117	27097502	119266520	402	46418											
CHRNA2	1135	broad.mit.edu	37	chr8	27320682	27320682	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagggggccacatgaccTgcacatgcccatctgtcctc	9	7	10	15	0	1	2	0	1	1	1	3	2	2	2	4	2	2	1	4	2	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:27320682T>C	uc010lur.2	-	6	1887	c.1278A>G	c.(1276-1278)GCA>GCG	p.A426A	CHRNA2_uc011lal.1_Silent_p.A411A|CHRNA2_uc010lus.2_Silent_p.A228A	NM_000742	NP_000733	Q15822	ACHA2_HUMAN	cholinergic receptor, nicotinic, alpha	426	Cytoplasmic.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)	1		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0208)|Epithelial(17;2.77e-10)|Colorectal(74;0.136)	Atracurium(DB00732)|Biperiden(DB00810)|Carbachol(DB00411)|Cisatracurium Besylate(DB00565)|Decamethonium(DB01245)|Dextromethorphan(DB00514)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Gallamine Triethiodide(DB00483)|Levallorphan(DB00504)|Mecamylamine(DB00657)|Metocurine(DB01336)|Metocurine Iodide(DB00416)|Mivacurium(DB01226)|Nicotine(DB00184)|Pancuronium(DB01337)|Pipecuronium(DB01338)|Rocuronium(DB00728)|Tubocurarine(DB01199)	CCACATGACCTGCACATGCCC	0.647													23	79					0	0	1	0	0		C	27320682	C	C	27320682	2	2	70	1	0	0	0	0	0	0	0	1	3386	1567	55	3		3	CHRNA2	8	27320682	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	223180	27320682	119043340	403	46419											
GTF2E2	2961	broad.mit.edu	37	chr8	30511088	30511088	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agctcgttttttgaacagctCcctttctctcaacaggcttg	7	15	7	12	1	2	1	1	1	1	0	5	1	3	1	1	1	4	4	1	1	2	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:30511088C>A	uc003xig.2	-	2	281	c.28G>T	c.(28-30)GAG>TAG	p.E10*		NM_002095	NP_002086	P29084	T2EB_HUMAN	general transcription factor IIE, polypeptide 2,	10					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	transcription factor TFIIE complex	DNA binding|protein binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.113)|Kidney(114;0.135)		TTGAACAGCTCCCTTTCTCTC	0.378													29	85					2.12542e-12	2.25976e-12	1	1	0		A	30511088	A	A	30511088	4	1	70	1	0	0	0	0	0	1	0	0	6873	864	30	5	875	5	GTF2E2	8	30511088	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3190406	30511088	115852934	404	46420											
PURG	29942	broad.mit.edu	37	chr8	30889510	30889510	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactctgaaagaagtcccCtctgggagttcaagcgggtc	9	9	11	12	1	3	2	1	1	2	1	6	3	5	3	3	2	1	1	3	2	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:30889510C>T	uc003xin.2	-	1	808	c.789G>A	c.(787-789)GAG>GAA	p.E263E	WRN_uc003xio.3_5'Flank|PURG_uc003xim.1_Silent_p.E263E	NM_013357	NP_037489	Q9UJV8	PURG_HUMAN	purine-rich element binding protein G isoform A	263	By similarity.					nucleus	DNA binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.0895)|Kidney(114;0.108)		AAGAAGTCCCCTCTGGGAGTT	0.453													38	79					0	0	1	0	0		T	30889510	T	T	30889510	2	4	70	1	0	0	0	0	0	0	0	1	12854	680	24	4		4	PURG	8	30889510	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	378422	30889510	115474512	405	46421											
NRG1	3084	broad.mit.edu	37	chr8	32613965	32613965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcttcggcagagccttcGgtctgaacgaaacaatatga	11	9	10	11	4	2	3	0	2	2	1	4	4	2	3	2	2	3	1	2	2	4	3	rs145033301		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:32613965G>A	uc003xiv.2	+	9	1365	c.848G>A	c.(847-849)CGG>CAG	p.R283Q	NRG1_uc011lbf.1_Missense_Mutation_p.R280Q|NRG1_uc010lvo.2_Missense_Mutation_p.R280Q|NRG1_uc003xiu.2_Missense_Mutation_p.R288Q|NRG1_uc003xiw.2_Missense_Mutation_p.R280Q|NRG1_uc003xit.2_Missense_Mutation_p.R283Q|NRG1_uc010lvr.2_Missense_Mutation_p.R25Q|NRG1_uc010lvs.2_Missense_Mutation_p.R25Q|NRG1_uc010lvp.2_Missense_Mutation_p.R237Q|NRG1_uc010lvq.2_Missense_Mutation_p.R220Q|NRG1_uc011lbg.1_Missense_Mutation_p.R129Q|NRG1_uc011lbh.1_Missense_Mutation_p.R126Q|NRG1_uc003xja.2_Missense_Mutation_p.R94Q	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	283	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		CAGAGCCTTCGGTCTGAACGA	0.453													47	114					0	0	1	0	0		A	32613965	A	A	32613965	3	1	70	1	0	0	0	0	1	0	0	0	10666	1116	39	1	2478	1	NRG1	8	32613965	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1724455	32613965	113750057	406	46422											
UNC5D	137970	broad.mit.edu	37	chr8	35425752	35425752	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggaaggcctctgtgcgCatagcctgtaagtacattct	10	10	11	10	1	2	0	0	0	2	0	2	1	2	1	2	2	4	4	2	2	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:35425752C>T	uc003xjr.1	+	3	787	c.459C>T	c.(457-459)CGC>CGT	p.R153R	UNC5D_uc003xjs.1_Silent_p.R148R	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	153	Extracellular (Potential).|Ig-like C2-type.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CCTCTGTGCGCATAGCCTGTA	0.522													15	125					0	0	1	0	0		T	35425752	T	T	35425752	2	4	70	1	0	0	0	0	0	0	0	1	17021	697	25	2		2	UNC5D	8	35425752	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2811787	35425752	110938270	407	46423											
DDHD2	23259	broad.mit.edu	37	chr8	38111155	38111155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgctgaatggaggccaacGcattgactatgtgctacagg	11	9	13	8	1	0	2	0	2	0	0	0	4	0	3	1	3	4	3	1	3	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:38111155G>A	uc003xlb.2	+	16	2350	c.1973G>A	c.(1972-1974)CGC>CAC	p.R658H	DDHD2_uc003xlc.2_Missense_Mutation_p.R658H|DDHD2_uc003xld.2_Missense_Mutation_p.R277H	NM_015214	NP_056029	O94830	DDHD2_HUMAN	DDHD domain containing 2 isoform 1	658	DDHD.				lipid catabolic process	centrosome	hydrolase activity|metal ion binding			large_intestine(1)|ovary(1)	2	Colorectal(12;0.000442)	all_lung(54;0.0657)|Lung NSC(58;0.175)	BRCA - Breast invasive adenocarcinoma(5;3.76e-25)|COAD - Colon adenocarcinoma(9;0.0977)			GGAGGCCAACGCATTGACTAT	0.388													43	144					0	0	1	0	0		A	38111155	A	A	38111155	3	1	70	1	0	0	0	0	1	0	0	0	4330	1087	38	1	2093	1	DDHD2	8	38111155	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2685403	38111155	108252867	408	46424											
PPAPDC1B	84513	broad.mit.edu	37	chr8	38123659	38123659	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgagtactttgcttacCttgccagtgatgcttgtagt	7	15	10	9	0	0	2	0	2	0	0	0	2	0	2	3	0	6	4	3	0	3	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:38123659C>A	uc003xlf.3	-	6	655	c.634G>T	c.(634-636)GAT>TAT	p.D212Y	PPAPDC1B_uc003xle.3_Missense_Mutation_p.D171Y|PPAPDC1B_uc003xlg.3_Nonsense_Mutation_p.G212*	NM_001102559	NP_001096029	Q8NEB5	PPC1B_HUMAN	phosphatidic acid phosphatase type 2 domain	212	Helical; (Potential).				phospholipid dephosphorylation	cytoplasm|integral to membrane|plasma membrane	phosphatidate phosphatase activity				0	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.121)	BRCA - Breast invasive adenocarcinoma(5;3.04e-26)|COAD - Colon adenocarcinoma(9;0.188)			CTTTGCTTACCTTGCCAGTGA	0.323													3	25					0.000602214	0.000612541	1	1	0		A	38123659	A	A	38123659	3	1	70	1	0	0	0	0	1	0	0	0	12313	695	24	5	189	5	PPAPDC1B	8	38123659	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	12504	38123659	108240363	409	46425											
HTRA4	203100	broad.mit.edu	37	chr8	38835654	38835654	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggactacgtccagattgaTgccacaattaatgtaagtca	14	11	8	8	1	1	2	1	1	0	1	2	3	2	3	2	1	2	1	2	1	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:38835654T>C	uc003xmj.2	+	4	1069	c.954T>C	c.(952-954)GAT>GAC	p.D318D		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	318	Serine protease.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			TCCAGATTGATGCCACAATTA	0.299													9	37					0	0	1	0	0		C	38835654	C	C	38835654	2	2	70	1	0	0	0	0	0	0	0	1	7472	1461	51	3		3	HTRA4	8	38835654	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	711995	38835654	107528368	410	46426											
TM2D2	83877	broad.mit.edu	37	chr8	38853837	38853837	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggatgtgagctcaggcTcagcggtcgcattttgcgag	7	9	15	10	4	2	1	2	1	0	0	3	3	2	2	0	3	4	3	0	3	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:38853837T>G	uc003xmk.2	-	1	205	c.122A>C	c.(121-123)GAG>GCG	p.E41A	ADAM9_uc011lcf.1_5'Flank|ADAM9_uc003xmr.2_5'Flank|ADAM9_uc011lcg.1_5'Flank|ADAM9_uc010lwr.2_5'Flank|TM2D2_uc003xml.2_5'UTR|TM2D2_uc003xmm.2_Intron|TM2D2_uc003xmn.2_Intron|ADAM9_uc003xmo.1_5'Flank|ADAM9_uc003xmp.2_5'Flank	NM_078473	NP_510882	Q9BX73	TM2D2_HUMAN	TM2 domain containing 2 isoform a	41						integral to membrane					0		all_lung(54;0.00338)|Lung NSC(58;0.0133)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			GAGCTCAGGCTCAGCGGTCGC	0.622													25	66					0	0	1	0	0		G	38853837	G	G	38853837	3	3	70	1	0	0	0	0	1	0	0	0	15989	1551	54	5	636	5	TM2D2	8	38853837	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	18183	38853837	107510185	411	46427											
ANK1	286	broad.mit.edu	37	chr8	41551521	41551521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatccgaagcccaatggggcGgtggaacttccggcgccggg	7	5	17	12	5	0	0	0	0	0	0	2	3	2	1	4	6	2	0	4	6	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:41551521G>A	uc003xok.2	-	29	3511	c.3427C>T	c.(3427-3429)CGC>TGC	p.R1143C	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Missense_Mutation_p.R459C|ANK1_uc003xoi.2_Missense_Mutation_p.R1143C|ANK1_uc003xoj.2_Missense_Mutation_p.R1143C|ANK1_uc003xol.2_Missense_Mutation_p.R1143C|ANK1_uc003xom.2_Missense_Mutation_p.R1184C	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1143					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			CCAATGGGGCGGTGGAACTTC	0.657													11	36					0	0	1	0	0		A	41551521	A	A	41551521	3	1	70	1	0	0	0	0	1	0	0	0	620	1116	39	1	2600	1	ANK1	8	41551521	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2697684	41551521	104812501	412	46428											
ANK1	286	broad.mit.edu	37	chr8	41583411	41583411	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgtagttgatgaggtgcgcGacgacgttctcatggccctg	6	10	14	11	5	1	2	1	2	1	0	2	4	1	2	2	2	1	3	2	2	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:41583411G>A	uc003xok.2	-	6	564	c.480C>T	c.(478-480)GTC>GTT	p.V160V	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Silent_p.V160V|ANK1_uc003xoj.2_Silent_p.V160V|ANK1_uc003xol.2_Silent_p.V160V|ANK1_uc003xom.2_Silent_p.V193V	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	160	ANK 4.|89 kDa domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TGAGGTGCGCGACGACGTTCT	0.667													13	20					0	0	1	0	0		A	41583411	A	A	41583411	2	1	70	1	0	0	0	0	0	0	0	1	620	1045	37	1		1	ANK1	8	41583411	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	31890	41583411	104780611	413	46429											
KIAA0146	23514	broad.mit.edu	37	chr8	48511719	48511720	+	Frame_Shift_Ins	INS	-	G	G																															gacagcaccaggggtcagcaINSgggggccagctcaggacaca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:48511719_48511720insG	uc003xqd.2	+	10	1514_1515	c.1505_1506insG	c.(1504-1506)CAGfs	p.Q502fs	KIAA0146_uc011lda.1_Frame_Shift_Ins_p.Q191fs|KIAA0146_uc011ldb.1_Frame_Shift_Ins_p.Q502fs|KIAA0146_uc010lxs.2_Intron|KIAA0146_uc011ldc.1_Frame_Shift_Ins_p.Q432fs|KIAA0146_uc011ldd.1_Frame_Shift_Ins_p.Q442fs|KIAA0146_uc003xqe.2_Intron|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc011lde.1_Frame_Shift_Ins_p.Q191fs|KIAA0146_uc010lxt.2_Frame_Shift_Ins_p.Q191fs	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	502											0		Lung NSC(58;0.175)				AGGGGTCAGCAGGGGGCCAGCT	0.594													11	20	---	---	---	---						.	G	48511720	G	G	48511719	7	5	70	1	0	1	1	0	0	0	0	0	8173	188	7	0	1543	0	KIAA0146	8	48511719	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	6928308	48511719	97852303	414	46430											
PXDNL	137902	broad.mit.edu	37	chr8	52321634	52321634	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgggtgccccgggggtcGgcgtgccgggtgttcatggg	1	8	22	10	5	1	0	1	0	0	0	2	0	1	0	3	6	2	1	3	6	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:52321634G>A	uc003xqu.3	-	17	2651	c.2550C>T	c.(2548-2550)GCC>GCT	p.A850A	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	850					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CCCGGGGGTCGGCGTGCCGGG	0.697													7	31					0	0	1	0	0		A	52321634	A	A	52321634	2	1	70	1	0	0	0	0	0	0	0	1	12873	1103	39	1		1	PXDNL	8	52321634	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3809915	52321634	94042388	415	46431											
PXDNL	137902	broad.mit.edu	37	chr8	52325815	52325815	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccagcttgtctaccctgtAtagctttgaaaatcaattcc	10	13	6	12	1	2	1	1	1	1	0	3	1	3	1	3	0	3	3	3	0	6	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:52325815A>G	uc003xqu.3	-	15	1900	c.1799T>C	c.(1798-1800)ATA>ACA	p.I600T		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	600					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TCTACCCTGTATAGCTTTGAA	0.343													16	44					0	0	1	0	0		G	52325815	G	G	52325815	3	3	70	1	0	0	0	0	1	0	0	0	12873	449	16	3	2628	3	PXDNL	8	52325815	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	4181	52325815	94038207	416	46432											
NPBWR1	2831	broad.mit.edu	37	chr8	53853444	53853444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgataacttgccgcgCggcagcctgactcccccagc	7	6	10	18	3	0	2	0	2	0	0	1	2	1	2	5	1	5	2	5	1	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:53853444C>T	uc011ldu.1	+	1	977	c.977C>T	c.(976-978)GCG>GTG	p.A326V		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	326	Cytoplasmic (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				ACTTGCCGCGCGGCAGCCTGA	0.692													6	29					0	0	1	0	0		T	53853444	T	T	53853444	3	4	70	1	0	0	0	0	1	0	0	0	10587	768	27	1	979	1	NPBWR1	8	53853444	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1527629	53853444	92510578	417	46433											
MOS	4342	broad.mit.edu	37	chr8	57025712	57025712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctcccccgaatacggcGcctgcttggtagtcatttgc	5	10	11	15	4	1	0	1	0	0	0	2	1	2	0	4	2	3	3	4	2	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:57025712G>A	uc011leb.1	-	1	830	c.830C>T	c.(829-831)GCG>GTG	p.A277V		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	277	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			CGAATACGGCGCCTGCTTGGT	0.637													20	51					0	0	1	0	0		A	57025712	A	A	57025712	3	1	70	1	0	0	0	0	1	0	0	0	9730	1087	38	1	213	1	MOS	8	57025712	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3172268	57025712	89338310	418	46434											
PLAG1	5324	broad.mit.edu	37	chr8	57079754	57079754	+	Frame_Shift_Del	DEL	T	-	-																															cacaatgttcgcactggtgcTttttttctttaaccccacca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:57079754delT	uc003xsq.3	-	3	1002	c.551delA	c.(550-552)AAGfs	p.K184fs	PLAG1_uc003xsr.3_Frame_Shift_Del_p.K184fs|PLAG1_uc010lyi.2_Frame_Shift_Del_p.K184fs|PLAG1_uc010lyj.2_Frame_Shift_Del_p.K102fs	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	184	Decreased nuclear import with localization in the nucleus but also in the cytoplasm.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			GCACTGGTGCTTTTTTTCTTT	0.483			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								25	58	---	---	---	---						.	-	57079754	-	-	57079754	7	5	70	1	0	1	0	1	0	0	0	0	12037	1609	56	0	955	0	PLAG1	8	57079754	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	54042	57079754	89284268	419	46435											
CHD7	55636	broad.mit.edu	37	chr8	61769043	61769043	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccctcgccagcggaggAggaggaggagaaaaatcgaa	13	4	15	9	3	0	1	0	0	0	1	3	7	1	5	2	5	1	0	2	5	3	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:61769043A>C	uc003xue.2	+	34	7681	c.7204A>C	c.(7204-7206)AGG>CGG	p.R2402R		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2402	Potential.|Poly-Arg.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			CCAGCGGAGGAGGAGGAGGAG	0.507													6	34					0	0	1	0	0		C	61769043	C	C	61769043	2	2	70	1	0	0	0	0	0	0	0	1	3333	295	11	5		5	CHD7	8	61769043	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	4689289	61769043	84594979	420	46436											
PRDM14	63978	broad.mit.edu	37	chr8	70982108	70982108	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccatcccgggaccgcaCgctcggcggctctgcagaaa	9	4	13	15	5	1	2	0	0	1	2	3	3	2	3	3	3	2	4	3	3	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:70982108C>T	uc003xym.2	-	2	190	c.-12G>A	c.(-14--10)GCGTG>GCATG			NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			CGGGACCGCACGCTCGGCGGC	0.726													3	8					0	0	1	0	0		T	70982108	T	T	70982108	1	4	70	1	0	0	0	0	0	0	0	0	12477	551	19	1		1	PRDM14	8	70982108	Translation_Start_Site	SNP	C	TCGA-BR-8368-01A-11D-2340-08	9213065	70982108	75381914	421	46437											
EYA1	2138	broad.mit.edu	37	chr8	72211325	72211325	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctggtgatgccagatggCggttcttgaagctggtaagt	7	12	16	6	1	1	3	0	2	1	1	1	3	1	3	1	5	2	4	1	5	2	3	rs146648560		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:72211325C>T	uc003xys.3	-	8	1070	c.783G>A	c.(781-783)CCG>CCA	p.P261P	EYA1_uc003xyr.3_Silent_p.P256P|EYA1_uc003xyt.3_Silent_p.P228P|EYA1_uc010lzf.2_Silent_p.P188P|EYA1_uc003xyu.2_Silent_p.P261P|EYA1_uc011lfe.1_Silent_p.P255P|EYA1_uc003xyv.2_Silent_p.P139P	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	261					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			TGCCAGATGGCGGTTCTTGAA	0.448													25	100					0	0	1	0	0		T	72211325	T	T	72211325	2	4	70	1	0	0	0	0	0	0	0	1	5336	755	27	1		1	EYA1	8	72211325	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1229217	72211325	74152697	422	46438											
MSC	9242	broad.mit.edu	37	chr8	72756093	72756093	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgttggccgcgttccgctgCgactgcttgcactctgcggc	2	10	14	15	6	1	0	0	0	1	0	2	1	2	0	2	2	4	5	2	2	0	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:72756093C>T	uc003xyx.1	-	1	639	c.321G>A	c.(319-321)TCG>TCA	p.S107S	uc011lff.1_Intron|uc003xyy.2_5'Flank	NM_005098	NP_005089	O60682	MUSC_HUMAN	musculin	107					transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Breast(64;0.176)		Epithelial(68;0.137)|BRCA - Breast invasive adenocarcinoma(89;0.203)			CGTTCCGCTGCGACTGCTTGC	0.726											OREG0018826	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	18					0	0	1	0	0		T	72756093	T	T	72756093	2	4	70	1	0	0	0	0	0	0	0	1	9886	755	27	1		1	MSC	8	72756093	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	544768	72756093	73607929	423	46439											
KCNB2	9312	broad.mit.edu	37	chr8	73480280	73480280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccattttaaatttctaccGgaccgggaaactccatatga	12	13	6	10	2	1	1	0	1	1	0	3	3	3	3	4	2	2	0	4	2	5	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:73480280G>A	uc003xzb.2	+	2	899	c.311G>A	c.(310-312)CGG>CAG	p.R104Q		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	104	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			AATTTCTACCGGACCGGGAAA	0.463													29	87					0	0	1	0	0		A	73480280	A	A	73480280	3	1	70	1	0	0	0	0	1	0	0	0	8029	1116	39	1	313	1	KCNB2	8	73480280	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	724187	73480280	72883742	424	46440											
KCNB2	9312	broad.mit.edu	37	chr8	73848408	73848408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaatgtcattgatttgctggCcatcttgccgtactatgtca	8	15	9	9	1	3	1	2	1	1	0	3	2	3	1	2	1	3	2	2	1	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:73848408C>T	uc003xzb.2	+	3	1406	c.818C>T	c.(817-819)GCC>GTC	p.A273V		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	273	Helical; Name=Segment S3; (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			GATTTGCTGGCCATCTTGCCG	0.458													40	99					0	0	1	0	0		T	73848408	T	T	73848408	3	4	70	1	0	0	0	0	1	0	0	0	8029	739	26	2	824	2	KCNB2	8	73848408	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	368128	73848408	72515614	425	46441											
ZFHX4	79776	broad.mit.edu	37	chr8	77766976	77766976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaccaacaccgagataaaCgcttgagaaccacgatcacc	17	4	7	13	3	1	3	1	1	0	3	1	6	1	3	4	0	3	1	4	0	5	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:77766976C>T	uc003yav.2	+	10	8071	c.7684C>T	c.(7684-7686)CGC>TGC	p.R2562C	ZFHX4_uc003yau.1_Missense_Mutation_p.R2607C|ZFHX4_uc003yaw.1_Missense_Mutation_p.R2562C	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2562	Homeobox 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCGAGATAAACGCTTGAGAAC	0.423										HNSCC(33;0.089)			13	44					0	0	1	0	0		T	77766976	T	T	77766976	3	4	70	1	0	0	0	0	1	0	0	0	17660	536	19	1	7853	1	ZFHX4	8	77766976	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3918568	77766976	68597046	426	46442											
FABP9	646480	broad.mit.edu	37	chr8	82371419	82371419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttactttccggttgtctGctgtagtttcatcaaattct	6	19	6	10	1	4	0	2	0	2	0	5	0	5	0	2	1	2	4	2	1	3	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:82371419G>A	uc011lfo.1	-	2	227	c.227C>T	c.(226-228)GCA>GTA	p.A76V		NM_001080526	NP_001073995	Q0Z7S8	FABP9_HUMAN	fatty acid binding protein 9, testis	76							lipid binding|transporter activity				0			Epithelial(68;0.186)			CCGGTTGTCTGCTGTAGTTTC	0.383													61	155					0	0	1	0	0		A	82371419	A	A	82371419	3	1	70	1	0	0	0	0	1	0	0	0	5374	1319	46	2	182	2	FABP9	8	82371419	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4604443	82371419	63992603	427	46443											
SLC7A13	157724	broad.mit.edu	37	chr8	87242434	87242434	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattcctgcaccaatgatatTaataagcaaaaaacttgtgc	17	11	5	8	0	0	1	0	1	0	0	1	1	1	1	2	0	4	2	2	0	8	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:87242434T>C	uc003ydq.1	-	1	171	c.73A>G	c.(73-75)AAT>GAT	p.N25D	SLC7A13_uc003ydr.1_Missense_Mutation_p.N25D	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	25	Helical; Name=1; (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						CCAATGATATTAATAAGCAAA	0.423													40	91					0	0	1	0	0		C	87242434	C	C	87242434	3	2	70	1	0	0	0	0	1	0	0	0	14720	1754	61	3	1355	3	SLC7A13	8	87242434	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	4871015	87242434	59121588	428	46444											
OTUD6B	51633	broad.mit.edu	37	chr8	92083383	92083383	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaaaattcagggcatgAagaatgctgttcccaagaat	15	8	9	9	0	1	3	1	1	0	2	2	3	2	3	2	1	2	3	2	1	6	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:92083383A>G	uc003yeu.3	+	2	289	c.190A>G	c.(190-192)AAG>GAG	p.K64E	uc003yet.2_5'Flank|OTUD6B_uc011lgh.1_5'UTR	NM_016023	NP_057107	Q8N6M0	OTU6B_HUMAN	OTU domain containing 6B	34										ovary(2)|lung(1)	3			BRCA - Breast invasive adenocarcinoma(11;0.0187)			TCAGGGCATGAAGAATGCTGT	0.423													28	52					0	0	1	0	0		G	92083383	G	G	92083383	3	3	70	1	0	0	0	0	1	0	0	0	11336	247	9	3	196	3	OTUD6B	8	92083383	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	4840949	92083383	54280639	429	46445											
SLC25A32	81034	broad.mit.edu	37	chr8	104414250	104414250	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccataaactgaagggcaccAtgcgatgttccaaacagccc	13	6	9	13	1	0	1	0	1	0	0	1	2	1	1	4	1	4	2	4	1	4	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:104414250A>G	uc003yll.2	-	5	888	c.585T>C	c.(583-585)CAT>CAC	p.H195H	SLC25A32_uc011lhr.1_Silent_p.H63H	NM_030780	NP_110407	Q9H2D1	MFTC_HUMAN	solute carrier family 25, member 32	195	Helical; Name=4; (Potential).|Solcar 2.				folic acid metabolic process|mitochondrial transport	integral to membrane|mitochondrial inner membrane	binding|folic acid transporter activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(57;2.79e-06)|STAD - Stomach adenocarcinoma(118;0.197)		Folic Acid(DB00158)	GAAGGGCACCATGCGATGTTC	0.348													15	32					0	0	1	0	0		G	104414250	G	G	104414250	2	3	70	1	0	0	0	0	0	0	0	1	14521	214	8	3		3	SLC25A32	8	104414250	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	12330867	104414250	41949772	430	46446											
DPYS	1807	broad.mit.edu	37	chr8	105456608	105456608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctccactgcctctgggcGgcacagctcgtggccctcag	4	8	12	17	2	2	0	1	0	1	0	4	0	3	0	4	3	3	2	4	3	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:105456608G>A	uc003yly.3	-	4	790	c.661C>T	c.(661-663)CGC>TGC	p.R221C		NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	221					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GCCTCTGGGCGGCACAGCTCG	0.542													18	49					0	0	1	0	0		A	105456608	A	A	105456608	3	1	70	1	0	0	0	0	1	0	0	0	4752	1116	39	1	922	1	DPYS	8	105456608	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1042358	105456608	40907414	431	46447											
OXR1	55074	broad.mit.edu	37	chr8	107695429	107695429	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttttcttttaaacaggtTgaatcaagggattctttgaa	12	18	7	4	0	3	2	1	2	2	0	3	3	3	3	0	2	1	1	0	2	5	8			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:107695429T>C	uc011lht.1	+	4	408	c.309T>C	c.(307-309)GTT>GTC	p.V103V	OXR1_uc003ymf.2_Silent_p.V102V|OXR1_uc011lhu.1_Silent_p.V95V|OXR1_uc010mcg.2_Intron|OXR1_uc003ymg.1_Silent_p.V35V|OXR1_uc003ymi.1_Silent_p.V14V	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	103	LysM.				cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			TTAAACAGGTTGAATCAAGGG	0.294													32	67					0	0	1	0	0		C	107695429	C	C	107695429	2	2	70	1	0	0	0	0	0	0	0	1	11353	1799	63	3		3	OXR1	8	107695429	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	2238821	107695429	38668593	432	46448											
ZHX2	22882	broad.mit.edu	37	chr8	123965245	123965245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcggtgtcaaaggggcatcGtccacatcaccagcgaatcc	11	7	10	13	3	2	0	2	0	0	0	6	1	4	0	3	3	1	1	3	3	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:123965245G>A	uc003ypk.1	+	3	2062	c.1495G>A	c.(1495-1497)GTC>ATC	p.V499I		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	499	Homeobox 2.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			AAGGGGCATCGTCCACATCAC	0.587													23	43					0	0	1	0	0		A	123965245	A	A	123965245	3	1	70	1	0	0	0	0	1	0	0	0	17701	1145	40	1	1497	1	ZHX2	8	123965245	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	16269816	123965245	22398777	433	46449											
FAM91A1	157769	broad.mit.edu	37	chr8	124812010	124812010	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgttaatttcttttcaatAgagttatgatcgattgctaa	11	18	6	6	1	2	2	1	1	1	1	3	3	2	2	1	0	1	3	1	0	5	8			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:124812010A>G	uc003yqv.2	+	18	1757	c.1696_splice	c.e18-2	p.S566_splice	FAM91A1_uc011lik.1_Splice_Site_p.S566_splice|FAM91A1_uc011lil.1_Splice_Site_p.S324_splice	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769											ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			TCTTTTCAATAGAGTTATGAT	0.343													71	140					0	0	1	0	0		G	124812010	G	G	124812010	5	3	70	1	0	0	0	0	0	0	1	0	5665	434	15	3	1764	3	FAM91A1	8	124812010	Splice_Site	SNP	A	TCGA-BR-8368-01A-11D-2340-08	846765	124812010	21552012	434	46450											
FER1L6	654463	broad.mit.edu	37	chr8	125015462	125015462	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggagtaagaagtcagcTgaatcagctgaagaagacct	15	7	12	7	0	2	5	2	2	0	3	2	6	2	6	1	1	2	3	1	1	5	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:125015462T>C	uc003yqw.2	+	13	1781	c.1575T>C	c.(1573-1575)GCT>GCC	p.A525A	uc003yqx.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	525	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			AGAAGTCAGCTGAATCAGCTG	0.527													40	97					0	0	1	0	0		C	125015462	C	C	125015462	2	2	70	1	0	0	0	0	0	0	0	1	5829	1567	55	3		3	FER1L6	8	125015462	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	203452	125015462	21348560	435	46451											
KCNQ3	3786	broad.mit.edu	37	chr8	133196585	133196585	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagatcctcaaagcaaactcGgctccaaagatgaaaatagc	17	6	7	11	1	1	3	1	1	0	2	4	3	3	3	2	1	3	2	2	1	6	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:133196585G>A	uc003ytj.2	-	3	732	c.507C>T	c.(505-507)GCC>GCT	p.A169A	KCNQ3_uc010mdt.2_Silent_p.A169A	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	169	Helical; Name=Segment S2; (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			AAGCAAACTCGGCTCCAAAGA	0.512													40	95					0	0	1	0	0		A	133196585	A	A	133196585	2	1	70	1	0	0	0	0	0	0	0	1	8100	1103	39	1		1	KCNQ3	8	133196585	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	8181123	133196585	13167437	436	46452											
WISP1	8840	broad.mit.edu	37	chr8	134225170	134225170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggaggacacctcctcaCgcccccaattctgcaagtgg	9	7	9	16	1	2	0	1	0	1	0	3	2	3	2	4	3	1	1	4	3	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:134225170C>T	uc003yub.2	+	2	209	c.133C>T	c.(133-135)CGC>TGC	p.R45C	WISP1_uc003yuc.2_Missense_Mutation_p.R45C|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Missense_Mutation_p.R45C|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_5'Flank	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	45	IGFBP N-terminal.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			CACCTCCTCACGCCCCCAATT	0.647													6	23					0	0	1	0	0		T	134225170	T	T	134225170	3	4	70	1	0	0	0	0	1	0	0	0	17398	536	19	1	139	1	WISP1	8	134225170	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1028585	134225170	12138852	437	46453											
WISP1	8840	broad.mit.edu	37	chr8	134239807	134239807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagtctaagactatcgacGtgtccttccagtgtcctgat	10	12	8	11	2	1	2	0	1	1	1	5	3	4	2	3	0	0	0	3	0	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:134239807G>A	uc003yub.2	+	5	1034	c.958G>A	c.(958-960)GTG>ATG	p.V320M	WISP1_uc003yuc.2_Missense_Mutation_p.V233M|WISP1_uc010meb.2_Missense_Mutation_p.V148M|WISP1_uc010mec.2_3'UTR|WISP1_uc010med.2_Missense_Mutation_p.V75M|WISP1_uc003yud.2_RNA	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	320	CTCK.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GACTATCGACGTGTCCTTCCA	0.512													31	113					0	0	1	0	0		A	134239807	A	A	134239807	3	1	70	1	0	0	0	0	1	0	0	0	17398	1145	40	1	976	1	WISP1	8	134239807	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	14637	134239807	12124215	438	46454											
COL22A1	169044	broad.mit.edu	37	chr8	139833454	139833454	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaatgttctcccgttcctcGatgggtagtgtctgcaccag	6	13	10	12	2	3	0	1	0	2	0	6	1	4	0	3	1	1	4	3	1	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:139833454G>A	uc003yvd.2	-	7	1617	c.1170C>T	c.(1168-1170)ATC>ATT	p.I390I		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	390	TSP N-terminal.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			CCCGTTCCTCGATGGGTAGTG	0.577										HNSCC(7;0.00092)			20	68					0	0	1	0	0		A	139833454	A	A	139833454	2	1	70	1	0	0	0	0	0	0	0	1	3684	1048	37	1		1	COL22A1	8	139833454	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	5593647	139833454	6530568	439	46455											
KCNK9	51305	broad.mit.edu	37	chr8	140714992	140714992	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgcaaagtagaaggagcCggcgaatttccactggacgc	12	6	13	10	4	0	1	0	0	0	1	2	5	1	3	2	3	1	2	2	3	4	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:140714992C>T	uc003yvf.1	-	1	308	c.244G>A	c.(244-246)GGC>AGC	p.G82S	KCNK9_uc003yvg.1_Missense_Mutation_p.G82S	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	82	Extracellular (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			TAGAAGGAGCCGGCGAATTTC	0.662													6	23					0	0	1	0	0		T	140714992	T	T	140714992	3	4	70	1	0	0	0	0	1	0	0	0	8088	652	23	1	888	1	KCNK9	8	140714992	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	881538	140714992	5649030	440	46456											
BAI1	575	broad.mit.edu	37	chr8	143570413	143570413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggccgatgaagcatccGtgtttgtggtgggcaccgtg	7	9	16	9	3	0	2	0	1	0	1	1	3	1	2	3	3	1	3	3	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:143570413G>A	uc003ywm.2	+	14	2653	c.2470G>A	c.(2470-2472)GTG>ATG	p.V824M		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	824	Extracellular (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					TGAAGCATCCGTGTTTGTGGT	0.672													5	11					0	0	1	0	0		A	143570413	A	A	143570413	3	1	70	1	0	0	0	0	1	0	0	0	1299	1145	40	1	2524	1	BAI1	8	143570413	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2855421	143570413	2793609	441	46457											
SCRIB	23513	broad.mit.edu	37	chr8	144887368	144887368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcgtgccaggcaggccaCgtggcgctgacggaggggcc	5	4	19	13	4	0	1	0	1	0	0	0	2	0	2	3	6	2	3	3	6	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:144887368C>T	uc003yzp.1	-	19	2591	c.2584G>A	c.(2584-2586)GTG>ATG	p.V862M	SCRIB_uc003yzn.1_5'Flank|SCRIB_uc003yzo.1_Missense_Mutation_p.V862M	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	862	PDZ 2.|Interaction with ARHGEF7.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			AGGCAGGCCACGTGGCGCTGA	0.731													5	21					0	0	1	0	0		T	144887368	T	T	144887368	3	4	70	1	0	0	0	0	1	0	0	0	13962	536	19	1	2459	1	SCRIB	8	144887368	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1316955	144887368	1476654	442	46458											
EPPK1	83481	broad.mit.edu	37	chr8	144946750	144946750	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggcagcaaggctagcccCgagccgggggcacgcacaca	10	1	16	14	3	0	0	0	0	0	0	0	1	0	0	3	5	3	5	3	5	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:144946750C>T	uc003zaa.1	-	1	685	c.672G>A	c.(670-672)TCG>TCA	p.S224S		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	224	Plectin 5.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			AGGCTAGCCCCGAGCCGGGGG	0.662													3	22					0	0	1	0	0		T	144946750	T	T	144946750	2	4	70	1	0	0	0	0	0	0	0	1	5198	639	23	1		1	EPPK1	8	144946750	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	59382	144946750	1417272	443	46459											
PLEC	5339	broad.mit.edu	37	chr8	144990725	144990725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgtcacgcagcttctgtgCggtgcgggcgtccaccgtgc	4	8	14	15	6	2	0	1	0	1	0	3	0	3	0	2	2	4	2	2	2	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:144990725C>T	uc003zaf.1	-	32	13845	c.13675G>A	c.(13675-13677)GCA>ACA	p.A4559T	PLEC_uc003zab.1_Missense_Mutation_p.A4422T|PLEC_uc003zac.1_Missense_Mutation_p.A4426T|PLEC_uc003zad.2_Missense_Mutation_p.A4422T|PLEC_uc003zae.1_Missense_Mutation_p.A4390T|PLEC_uc003zag.1_Missense_Mutation_p.A4400T|PLEC_uc003zah.2_Missense_Mutation_p.A4408T|PLEC_uc003zaj.2_Missense_Mutation_p.A4449T	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4559	Plectin 32.|Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						AGCTTCTGTGCGGTGCGGGCG	0.672													33	105					0	0	1	0	0		T	144990725	T	T	144990725	3	4	70	1	0	0	0	0	1	0	0	0	12071	768	27	1	383	1	PLEC	8	144990725	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	43975	144990725	1373297	444	46460											
PLEC	5339	broad.mit.edu	37	chr8	144991258	144991258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaccgaggaggaacgggagCggaaaccaccggcgttgccc	10	2	15	14	5	0	0	0	0	0	0	0	5	0	4	5	5	4	1	5	5	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:144991258C>T	uc003zaf.1	-	32	13312	c.13142G>A	c.(13141-13143)CGC>CAC	p.R4381H	PLEC_uc003zab.1_Missense_Mutation_p.R4244H|PLEC_uc003zac.1_Missense_Mutation_p.R4248H|PLEC_uc003zad.2_Missense_Mutation_p.R4244H|PLEC_uc003zae.1_Missense_Mutation_p.R4212H|PLEC_uc003zag.1_Missense_Mutation_p.R4222H|PLEC_uc003zah.2_Missense_Mutation_p.R4230H|PLEC_uc003zaj.2_Missense_Mutation_p.R4271H	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4381	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GGAACGGGAGCGGAAACCACC	0.667													24	53					0	0	1	0	0		T	144991258	T	T	144991258	3	4	70	1	0	0	0	0	1	0	0	0	12071	768	27	1	916	1	PLEC	8	144991258	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	533	144991258	1372764	445	46461											
PLEC	5339	broad.mit.edu	37	chr8	145003355	145003355	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgagcgcagcgtgggggccGcaggcgatggctctggtagg	5	5	20	11	5	1	0	0	0	1	0	1	2	1	0	2	6	2	4	2	6	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:145003355G>T	uc003zaf.1	-	25	3757	c.3587C>A	c.(3586-3588)GCG>GAG	p.A1196E	PLEC_uc003zab.1_Missense_Mutation_p.A1059E|PLEC_uc003zac.1_Missense_Mutation_p.A1063E|PLEC_uc003zad.2_Missense_Mutation_p.A1059E|PLEC_uc003zae.1_Missense_Mutation_p.A1027E|PLEC_uc003zag.1_Missense_Mutation_p.A1037E|PLEC_uc003zah.2_Missense_Mutation_p.A1045E|PLEC_uc003zaj.2_Missense_Mutation_p.A1086E	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	1196	Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CGTGGGGGCCGCAGGCGATGG	0.682													4	10					0.184627	0.184627	1	1	0		T	145003355	T	T	145003355	3	4	70	1	0	0	0	0	1	0	0	0	12071	1087	38	5	10499	5	PLEC	8	145003355	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	12097	145003355	1360667	446	46462											
PLEC	5339	broad.mit.edu	37	chr8	145011331	145011331	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggcctgccgggcagccttAcctggcggtgccggaggtag	5	6	18	12	3	0	0	0	0	0	0	0	1	0	1	5	6	4	2	5	6	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:145011331A>T	uc003zaf.1	-	4	923	c.753_splice	c.e4+1	p.Q251_splice	PLEC_uc003zab.1_Splice_Site_p.Q114_splice|PLEC_uc003zac.1_Splice_Site_p.Q118_splice|PLEC_uc003zad.2_Splice_Site_p.Q114_splice|PLEC_uc003zae.1_Splice_Site_p.Q82_splice|PLEC_uc003zag.1_Splice_Site_p.Q92_splice|PLEC_uc003zah.2_Splice_Site_p.Q100_splice|PLEC_uc003zaj.2_Splice_Site_p.Q141_splice	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1						cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GGGCAGCCTTACCTGGCGGTG	0.682													15	49					0	0	1	0	0		T	145011331	T	T	145011331	5	4	70	1	0	0	0	0	0	0	1	0	12071	405	14	5	13415	5	PLEC	8	145011331	Splice_Site	SNP	A	TCGA-BR-8368-01A-11D-2340-08	7976	145011331	1352691	447	46463											
GPAA1	8733	broad.mit.edu	37	chr8	145139999	145139999	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgggccttgaggagccCgggggtgcccctggccccag	5	5	18	13	1	0	1	0	1	0	0	0	3	0	3	6	6	2	0	6	6	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:145139999C>T	uc003zax.2	+	9	1328	c.1218C>T	c.(1216-1218)CCC>CCT	p.P406P		NM_003801	NP_003792	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment	406	Cytoplasmic (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein complex assembly|protein retention in ER lumen	GPI-anchor transamidase complex	tubulin binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TTGAGGAGCCCGGGGGTGCCC	0.597													4	39					0	0	1	0	0		T	145139999	T	T	145139999	2	4	70	1	0	0	0	0	0	0	0	1	6602	639	23	1		1	GPAA1	8	145139999	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	128668	145139999	1224023	448	46464											
CYC1	1537	broad.mit.edu	37	chr8	145151105	145151105	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtggcctaccgccacctGgtgggcgtgtgctacacgga	5	9	14	13	4	0	0	0	0	0	0	1	1	0	1	4	4	3	1	4	4	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:145151105G>A	uc003zaz.3	+	3	448	c.405G>A	c.(403-405)CTG>CTA	p.L135L	CYC1_uc003zay.2_Silent_p.L76L	NM_001916	NP_001907	P08574	CY1_HUMAN	cytochrome c-1	135	Cytochrome c.				respiratory electron transport chain|transport	cell junction|integral to membrane|mitochondrial inner membrane|respiratory chain	electron transporter, transferring electrons from CoQH2-cytochrome c reductase complex and cytochrome c oxidase complex activity|heme binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;8.71e-40)|all cancers(56;3e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ACCGCCACCTGGTGGGCGTGT	0.627											OREG0019052	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	63	157					0	0	1	0	0		A	145151105	A	A	145151105	2	1	70	1	0	0	0	0	0	0	0	1	4138	1335	47	4		4	CYC1	8	145151105	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	11106	145151105	1212917	449	46465											
MAF1	84232	broad.mit.edu	37	chr8	145161313	145161313	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaaggatctgaaaccacAgctgtggaacgcggtggacg	11	7	13	10	3	2	1	1	1	1	0	2	4	2	4	1	4	3	1	1	4	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:145161313A>C	uc003zbc.1	+	5	947	c.446A>C	c.(445-447)CAG>CCG	p.Q149P	SHARPIN_uc003zba.2_5'Flank|SHARPIN_uc003zbb.2_5'Flank|KIAA1875_uc003zbd.3_5'Flank|KIAA1875_uc011lky.1_5'Flank	NM_032272	NP_115648	Q9H063	MAF1_HUMAN	MAF1 protein	149					negative regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	cytoplasm|nucleus					0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.1e-42)|Epithelial(56;1.23e-40)|all cancers(56;4.84e-36)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CTGAAACCACAGCTGTGGAAC	0.587													21	35					0	0	1	0	0		C	145161313	C	C	145161313	3	2	70	1	0	0	0	0	1	0	0	0	9174	188	7	5	460	5	MAF1	8	145161313	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	10208	145161313	1202709	450	46466											
DGAT1	8694	broad.mit.edu	37	chr8	145541626	145541626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttccggatgcggggagagCggggaaagttgagctcgtag	8	7	19	7	4	0	2	0	1	0	1	2	5	1	4	1	5	3	4	1	5	2	3	rs139792712		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr8:145541626C>T	uc003zbv.3	-	9	1074	c.806G>A	c.(805-807)CGC>CAC	p.R269H	DGAT1_uc010mfv.2_Intron	NM_012079	NP_036211	O75907	DGAT1_HUMAN	diacylglycerol O-acyltransferase 1	269	Lumenal (Potential).				triglyceride biosynthetic process|very-low-density lipoprotein particle assembly	endoplasmic reticulum membrane|integral to membrane	diacylglycerol O-acyltransferase activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;7.67e-40)|all cancers(56;7.88e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			GCGGGGAGAGCGGGGAAAGTT	0.617													13	35					0	0	1	0	0		T	145541626	T	T	145541626	3	4	70	1	0	0	0	0	1	0	0	0	4463	768	27	1	696	1	DGAT1	8	145541626	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	380313	145541626	822396	451	46467											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													15	164					0	0	1	0	0		G	164038	G	G	164038	5	3	70	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-8368-01A-11D-2340-08		164038	141049393	452	46468											
KCNV2	169522	broad.mit.edu	37	chr9	2718877	2718877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcaggtgttgcgcgtcatgCgcctcatgcgcatcttccgc	4	11	12	14	5	4	0	3	0	1	0	5	0	5	0	2	1	3	2	2	1	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:2718877C>T	uc003zho.1	+	1	1352	c.1138C>T	c.(1138-1140)CGC>TGC	p.R380C		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	380	Helical; Voltage-sensor; Name=Segment S4; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		GCGCGTCATGCGCCTCATGCG	0.667													26	40					0	0	1	0	0		T	2718877	T	T	2718877	3	4	70	1	0	0	0	0	1	0	0	0	8111	768	27	1	1140	1	KCNV2	9	2718877	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2554839	2718877	138494554	453	46469											
JAK2	3717	broad.mit.edu	37	chr9	5064999	5064999	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaagtagcacctccagcCgtgcttgaaaatatacaaag	17	7	8	9	1	0	2	0	1	0	1	1	2	1	2	3	0	4	3	3	0	8	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:5064999C>T	uc010mhm.2	+	8	1286	c.1173C>T	c.(1171-1173)GCC>GCT	p.A391A	JAK2_uc003ziw.2_Silent_p.A391A	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	391					actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		CACCTCCAGCCGTGCTTGAAA	0.343		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				14	32					0	0	1	0	0		T	5064999	T	T	5064999	2	4	70	1	0	0	0	0	0	0	0	1	7954	639	23	1		1	JAK2	9	5064999	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2346122	5064999	136148432	454	46470											
KIAA1432	57589	broad.mit.edu	37	chr9	5765510	5765510	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctttgtcgacacatgattCgatttcttaaagccattggc	10	14	7	10	2	1	1	0	1	1	0	3	3	1	1	2	1	1	0	2	1	2	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:5765510C>T	uc003zji.2	+	19	2794	c.2701C>T	c.(2701-2703)CGA>TGA	p.R901*	KIAA1432_uc003zjh.2_Nonsense_Mutation_p.R901*|KIAA1432_uc003zjl.3_Nonsense_Mutation_p.R864*|KIAA1432_uc003zjj.1_Nonsense_Mutation_p.R443*|ERMP1_uc011lme.1_RNA	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	980						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		ACACATGATTCGATTTCTTAA	0.458													15	149					0	0	1	0	0		T	5765510	T	T	5765510	4	4	70	1	0	0	0	0	0	1	0	0	8249	876	31	1	2775	1	KIAA1432	9	5765510	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	700511	5765510	135447921	455	46471											
MPDZ	8777	broad.mit.edu	37	chr9	13121774	13121774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaatcctaggccttttcccGgcttcttctgcagctcaata	7	15	6	13	1	3	0	1	0	2	0	5	0	5	0	3	2	2	3	3	2	4	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:13121774G>A	uc010mia.1	-	37	5252	c.5195C>T	c.(5194-5196)CCG>CTG	p.P1732L	MPDZ_uc003zkx.3_5'Flank|MPDZ_uc003zky.3_Missense_Mutation_p.P266L|MPDZ_uc010mib.2_Missense_Mutation_p.P437L|MPDZ_uc010mhx.2_Missense_Mutation_p.P554L|MPDZ_uc011lmm.1_Missense_Mutation_p.P591L|MPDZ_uc003zkz.3_Missense_Mutation_p.P425L|MPDZ_uc010mhy.2_Missense_Mutation_p.P1732L|MPDZ_uc010mhz.2_Missense_Mutation_p.P1699L|MPDZ_uc011lmn.1_Missense_Mutation_p.P1699L|MPDZ_uc003zlb.3_Missense_Mutation_p.P1732L	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1732	PDZ 11.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		GCCTTTTCCCGGCTTCTTCTG	0.473													17	34					0	0	1	0	0		A	13121774	A	A	13121774	3	1	70	1	0	0	0	0	1	0	0	0	9740	1116	39	1	966	1	MPDZ	9	13121774	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	7356264	13121774	128091657	456	46472											
C9orf93	203238	broad.mit.edu	37	chr9	15594156	15594156	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcagaaagaagagaattaCaatttatagtacaggtattt	19	11	8	3	0	0	3	0	0	0	3	0	4	0	3	0	1	3	3	0	1	10	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:15594156C>A	uc003zmd.2	+	6	976	c.661C>A	c.(661-663)CAA>AAA	p.Q221K	C9orf93_uc010mih.1_Missense_Mutation_p.Q221K|C9orf93_uc003zme.2_Missense_Mutation_p.Q128K|C9orf93_uc011lmu.1_Missense_Mutation_p.Q221K|C9orf93_uc003zmc.2_Missense_Mutation_p.Q221K	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	221	Potential.|Glu-rich.										0				GBM - Glioblastoma multiforme(50;4.84e-07)		AAGAGAATTACAATTTATAGT	0.323													14	38					4.7546e-09	4.95235e-09	1	1	0		A	15594156	A	A	15594156	3	1	70	1	0	0	0	0	1	0	0	0	2509	479	17	5	679	5	C9orf93	9	15594156	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2472382	15594156	125619275	457	46473											
CNTLN	54875	broad.mit.edu	37	chr9	17135197	17135197	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgggttttgccggcgcagCgcgggaggtggtcgcggacg	3	7	20	11	8	0	0	0	0	0	0	2	2	0	2	1	6	2	2	1	6	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:17135197C>T	uc003zmz.2	+	1	160	c.134C>T	c.(133-135)GCG>GTG	p.A45V	CNTLN_uc003zmx.3_Missense_Mutation_p.A45V|CNTLN_uc003zmy.2_Missense_Mutation_p.A45V|CNTLN_uc003zmw.1_Missense_Mutation_p.A45V	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	45						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		GCCGGCGCAGCGCGGGAGGTG	0.697													4	8					0	0	1	0	0		T	17135197	T	T	17135197	3	4	70	1	0	0	0	0	1	0	0	0	3642	768	27	1	136	1	CNTLN	9	17135197	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1541041	17135197	124078234	458	46474											
DDX58	23586	broad.mit.edu	37	chr9	32459462	32459462	+	Frame_Shift_Del	DEL	T	-	-																															ttatcaggtacaggttttggTttttcttgactatctctgat																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:32459462delT	uc003zra.2	-	17	2546	c.2388delA	c.(2386-2388)AAAfs	p.K796fs	DDX58_uc010mjj.2_RNA|DDX58_uc010mji.2_Frame_Shift_Del_p.K725fs	NM_014314	NP_055129	O95786	DDX58_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	796	Repressor domain.				detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		CAGGTTTTGGTTTTTCTTGAC	0.358													24	38	---	---	---	---						.	-	32459462	-	-	32459462	7	5	70	1	0	1	0	1	0	0	0	0	4378	1722	60	0	397	0	DDX58	9	32459462	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	15324265	32459462	108753969	459	46475											
TLN1	7094	broad.mit.edu	37	chr9	35711378	35711378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttggacacaacttgggctCggtcctcctggctctgttga	6	12	12	11	1	1	1	0	1	1	0	4	2	3	2	2	4	1	4	2	4	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:35711378C>T	uc003zxt.2	-	30	4247	c.3893G>A	c.(3892-3894)CGA>CAA	p.R1298Q		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1298					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			AACTTGGGCTCGGTCCTCCTG	0.512													24	55					0	0	1	0	0		T	35711378	T	T	35711378	3	4	70	1	0	0	0	0	1	0	0	0	15972	884	31	1	3844	1	TLN1	9	35711378	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3251916	35711378	105502053	460	46476											
GLIPR2	152007	broad.mit.edu	37	chr9	36147846	36147847	+	Frame_Shift_Ins	INS	-	C	C																															taccggcagaagcacggcgtINSccccccactgaagctctgca																								rs60088684	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:36147846_36147847insC	uc003zyz.2	+	2	111_112	c.77_78insC	c.(76-78)GTCfs	p.V26fs	GLIPR2_uc011lpj.1_Frame_Shift_Ins_p.V26fs|GLIPR2_uc010mlf.1_Frame_Shift_Ins_p.V26fs|GLIPR2_uc003zza.2_RNA|GLIPR2_uc003zyy.1_Frame_Shift_Ins_p.V26fs	NM_022343	NP_071738	Q9H4G4	GAPR1_HUMAN	GLI pathogenesis-related 2	26						extracellular region|Golgi membrane				skin(3)|central_nervous_system(1)	4						AAGCACGGCGTCCCCCCACTGA	0.54													86	184	---	---	---	---						.	C	36147847	C	C	36147846	7	5	70	1	0	1	1	0	0	0	0	0	6459	1667	58	0	83	0	GLIPR2	9	36147846	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	436468	36147846	105065585	461	46477											
ZCCHC7	84186	broad.mit.edu	37	chr9	37126641	37126642	+	Frame_Shift_Ins	INS	-	G	G																															acagtatttatagatgtaaaINSggaaagaatgttagagttca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:37126641_37126642insG	uc003zzq.2	+	2	485_486	c.312_313insG	c.(310-315)AAAGGAfs	p.K104fs	ZCCHC7_uc011lqh.1_Intron|ZCCHC7_uc011lqi.1_Frame_Shift_Ins_p.K103fs|ZCCHC7_uc010mlt.2_Frame_Shift_Ins_p.K103fs|ZCCHC7_uc003zzs.1_Frame_Shift_Ins_p.K103fs	NM_032226	NP_115602	Q8N3Z6	ZCHC7_HUMAN	zinc finger, CCHC domain containing 7	104_105							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.0137)		ATAGATGTAAAGGAAAGAATGT	0.386													91	149	---	---	---	---						.	G	37126642	G	G	37126641	7	5	70	1	0	1	1	0	0	0	0	0	17618	69	3	0	314	0	ZCCHC7	9	37126641	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	978795	37126641	104086790	462	46478											
ZBTB5	9925	broad.mit.edu	37	chr9	37440550	37440550	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaagattgctgctctgccAgcgcaggcaggtagtctttg	7	10	15	9	1	2	1	0	0	2	1	2	2	2	2	1	3	4	5	1	3	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:37440550A>G	uc003zzx.2	-	2	2199	c.1999T>C	c.(1999-2001)TGG>CGG	p.W667R		NM_014872	NP_055687	O15062	ZBTB5_HUMAN	zinc finger and BTB domain containing 5	667					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(29;0.00733)|Lung(182;0.226)		CTGCTCTGCCAGCGCAGGCAG	0.493													17	25					0	0	1	0	0		G	37440550	G	G	37440550	3	3	70	1	0	0	0	0	1	0	0	0	17576	188	7	3	38	3	ZBTB5	9	37440550	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	313909	37440550	103772881	463	46479											
FOXD4L5	653427	broad.mit.edu	37	chr9	70177146	70177146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgctttcttcggtgcccCggcatagacgggggccgaga	5	10	14	12	4	2	2	0	0	2	2	3	3	2	2	3	4	2	2	3	4	1	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:70177146C>T	uc010moc.2	-	1	1670	c.838G>A	c.(838-840)GGG>AGG	p.G280R		NM_001126334	NP_001119806	Q5VV16	FX4L5_HUMAN	forkhead box D4-like 5	280					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						TTCGGTGCCCCGGCATAGACG	0.687													12	67					0	0	1	0	0		T	70177146	T	T	70177146	3	4	70	1	0	0	0	0	1	0	0	0	6016	652	23	1	416	1	FOXD4L5	9	70177146	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	32736596	70177146	71036285	464	46480											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													12	68					0	0	1	0	0		G	70993145	G	G	70993145	3	3	70	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	815999	70993145	70220286	465	46481											
SMC5	23137	broad.mit.edu	37	chr9	72967216	72967216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaggctttccaaaggcggcGgcgccgtattacattcactc	10	9	10	12	4	1	0	1	0	0	0	3	0	2	0	2	4	1	2	2	4	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:72967216G>A	uc004ahr.2	+	25	3392	c.3275G>A	c.(3274-3276)CGG>CAG	p.R1092Q	SMC5_uc011lry.1_Missense_Mutation_p.R237Q	NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein	1092					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						CAAAGGCGGCGGCGCCGTATT	0.368													23	69					0	0	1	0	0		A	72967216	A	A	72967216	3	1	70	1	0	0	0	0	1	0	0	0	14811	1116	39	1	3373	1	SMC5	9	72967216	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1974071	72967216	68246215	466	46482											
TRPM3	80036	broad.mit.edu	37	chr9	73233871	73233871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgtgcgcgatgaagtcgCggtgtttggcagccacggca	7	8	16	10	6	0	1	0	1	0	0	1	2	0	1	1	3	2	3	1	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:73233871C>T	uc004aid.2	-	16	2478	c.2234G>A	c.(2233-2235)CGC>CAC	p.R745H	TRPM3_uc004ahu.2_Missense_Mutation_p.R575H|TRPM3_uc004ahv.2_Missense_Mutation_p.R547H|TRPM3_uc004ahw.2_Missense_Mutation_p.R617H|TRPM3_uc004ahx.2_Missense_Mutation_p.R604H|TRPM3_uc004ahy.2_Missense_Mutation_p.R607H|TRPM3_uc004ahz.2_Missense_Mutation_p.R594H|TRPM3_uc004aia.2_Missense_Mutation_p.R592H|TRPM3_uc004aib.2_Missense_Mutation_p.R582H|TRPM3_uc004aic.2_Missense_Mutation_p.R745H	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	770	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GATGAAGTCGCGGTGTTTGGC	0.612													23	31					0	0	1	0	0		T	73233871	T	T	73233871	3	4	70	1	0	0	0	0	1	0	0	0	16613	768	27	1	2929	1	TRPM3	9	73233871	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	266655	73233871	67979560	467	46483											
GCNT1	2650	broad.mit.edu	37	chr9	79118407	79118407	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagggtgctccctacccGccctgcgatggagtccatgt	6	9	11	15	2	0	0	0	0	0	0	3	2	3	1	5	2	3	1	5	2	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:79118407G>A	uc010mpf.2	+	3	1451	c.1110G>A	c.(1108-1110)CCG>CCA	p.P370P	GCNT1_uc010mpg.2_Silent_p.P370P|GCNT1_uc010mph.2_Silent_p.P370P|GCNT1_uc004akf.3_Silent_p.P370P|GCNT1_uc010mpi.2_Silent_p.P370P|GCNT1_uc004akh.3_Silent_p.P370P	NM_001490	NP_001481	Q02742	GCNT1_HUMAN	beta-1,3-galactosyl-O-glycosyl-glycoprotein	370	Lumenal (Potential).|Catalytic (By similarity).				protein O-linked glycosylation	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity				0						CTCCCTACCCGCCCTGCGATG	0.517													26	47					0	0	1	0	0		A	79118407	A	A	79118407	2	1	70	1	0	0	0	0	0	0	0	1	6315	1074	38	1		1	GCNT1	9	79118407	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	5884536	79118407	62095024	468	46484											
PRUNE2	158471	broad.mit.edu	37	chr9	79318668	79318668	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctttcaaaagatgatcTcgtatcgcttttagaagaca	13	12	9	7	2	2	4	1	1	1	3	4	4	2	4	0	1	0	3	0	1	5	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:79318668T>C	uc010mpk.2	-	9	7985	c.7861A>G	c.(7861-7863)AGA>GGA	p.R2621G	PRUNE2_uc004akj.3_Missense_Mutation_p.R74G|PRUNE2_uc010mpl.1_Missense_Mutation_p.R74G	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	2621					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						AAAGATGATCTCGTATCGCTT	0.488													16	30					0	0	1	0	0		C	79318668	C	C	79318668	3	2	70	1	0	0	0	0	1	0	0	0	12663	1559	54	3	1449	3	PRUNE2	9	79318668	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	200261	79318668	61894763	469	46485											
GNA14	9630	broad.mit.edu	37	chr9	80046280	80046280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatggatactcaatgatgcCggtggtgggcactcggacgc	10	8	14	9	3	1	1	1	1	0	0	2	3	1	3	1	5	2	1	1	5	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:80046280C>T	uc004aku.2	-	4	1073	c.550G>A	c.(550-552)GGC>AGC	p.G184S		NM_004297	NP_004288	O95837	GNA14_HUMAN	G alpha 14	184					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(2)	2						TCAATGATGCCGGTGGTGGGC	0.493													22	54					0	0	1	0	0		T	80046280	T	T	80046280	3	4	70	1	0	0	0	0	1	0	0	0	6517	652	23	1	533	1	GNA14	9	80046280	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	727612	80046280	61167151	470	46486											
C9orf170	401535	broad.mit.edu	37	chr9	89771628	89771628	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcgggaagaccatgaaaaCagccaaaataattcaaagag	20	5	8	8	1	1	3	1	1	0	2	2	4	1	4	2	1	2	0	2	1	7	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:89771628C>T	uc004apa.1	+	2	396	c.309C>T	c.(307-309)AAC>AAT	p.N103N		NM_001001709	NP_001001709	A2RU37	CI170_HUMAN	hypothetical protein LOC401535	103											0						ACCATGAAAACAGCCAAAATA	0.234													18	38					0	0	1	0	0		T	89771628	T	T	89771628	2	4	70	1	0	0	0	0	0	0	0	1	2472	477	17	4		4	C9orf170	9	89771628	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	9725348	89771628	51441803	471	46487											
CDK20	23552	broad.mit.edu	37	chr9	90585538	90585538	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atacaggagctcgggggctcGgtaccacctgcgaggaagag	10	5	16	10	3	0	1	0	0	0	1	2	4	0	3	2	5	4	3	2	5	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:90585538G>A	uc004apr.2	-	5	814	c.508C>T	c.(508-510)CGA>TGA	p.R170*	CDK20_uc004aps.2_Intron|CDK20_uc004apt.2_Intron|CDK20_uc004apu.2_Intron	NM_001039803	NP_001034892	Q8IZL9	CDK20_HUMAN	cell cycle related kinase isoform 3	170	Protein kinase.				cell division|multicellular organismal development	cilium|mitochondrion|nucleus	ATP binding|cyclin-dependent protein kinase activity			skin(1)	1						TCGGGGGCTCGGTACCACCTG	0.612													9	22					0	0	1	0	0		A	90585538	A	A	90585538	4	1	70	1	0	0	0	0	0	1	0	0	3140	1124	39	1	548	1	CDK20	9	90585538	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	813910	90585538	50627893	472	46488											
SEMA4D	10507	broad.mit.edu	37	chr9	92008486	92008486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggactcaccaaccatgaCggatgtgtagctgtgtgctg	9	9	13	10	1	1	1	1	1	0	0	1	3	1	3	2	2	3	4	2	2	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:92008486C>T	uc004aqo.1	-	9	1071	c.499G>A	c.(499-501)GTC>ATC	p.V167I	SEMA4D_uc011ltm.1_Missense_Mutation_p.V167I|SEMA4D_uc011ltn.1_RNA|SEMA4D_uc011lto.1_RNA|SEMA4D_uc004aqp.1_Missense_Mutation_p.V165I	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	167	Sema.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						CCAACCATGACGGATGTGTAG	0.428													18	32					0	0	1	0	0		T	92008486	T	T	92008486	3	4	70	1	0	0	0	0	1	0	0	0	14059	536	19	1	2699	1	SEMA4D	9	92008486	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1422948	92008486	49204945	473	46489											
SYK	6850	broad.mit.edu	37	chr9	93607755	93607755	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatcatcagtcagaagcctCagctggagaagctgatcgct	11	8	10	12	1	4	3	4	1	0	2	5	4	4	3	2	1	3	3	2	1	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:93607755C>T	uc004aqz.2	+	3	662	c.457C>T	c.(457-459)CAG>TAG	p.Q153*	SYK_uc004aqy.2_Nonsense_Mutation_p.Q153*|SYK_uc004ara.2_Nonsense_Mutation_p.Q153*|SYK_uc004arb.2_Nonsense_Mutation_p.Q153*|SYK_uc004arc.2_Nonsense_Mutation_p.Q153*|SYK_uc011ltr.1_RNA|SYK_uc011lts.1_RNA|SYK_uc011ltt.1_RNA	NM_003177	NP_003168	P43405	KSYK_HUMAN	spleen tyrosine kinase isoform 1	153					cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						TCAGAAGCCTCAGCTGGAGAA	0.478			T	ETV6|ITK	MDS|peripheral T-cell lymphoma								22	31					0	0	1	0	0		T	93607755	T	T	93607755	4	4	70	1	0	0	0	0	0	1	0	0	15463	827	29	4	463	4	SYK	9	93607755	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1599269	93607755	47605676	474	46490											
BICD2	23299	broad.mit.edu	37	chr9	95482663	95482663	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacgaggctgggggagggCggtgcgaggccctccttctt	5	7	19	10	3	1	1	0	0	1	1	2	5	2	2	2	6	1	1	2	6	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:95482663C>T	uc004aso.1	-	4	1038	c.981G>A	c.(979-981)CCG>CCA	p.P327P	BICD2_uc004asp.1_Silent_p.P327P	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	327					microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						TGGGGGAGGGCGGTGCGAGGC	0.632													17	43					0	0	1	0	0		T	95482663	T	T	95482663	2	4	70	1	0	0	0	0	0	0	0	1	1430	755	27	1		1	BICD2	9	95482663	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1874908	95482663	45730768	475	46491											
FGD3	89846	broad.mit.edu	37	chr9	95765277	95765277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaggagacctatgtgaagcGgctgcacctgctggaccagg	9	6	15	11	2	0	2	0	1	0	1	0	5	0	3	3	4	3	3	3	4	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:95765277G>A	uc004asw.2	+	4	1152	c.524G>A	c.(523-525)CGG>CAG	p.R175Q	FGD3_uc004asx.2_Missense_Mutation_p.R175Q|FGD3_uc004asz.2_Missense_Mutation_p.R175Q|FGD3_uc004ata.2_5'UTR	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	175	DH.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						TATGTGAAGCGGCTGCACCTG	0.557													40	78					0	0	1	0	0		A	95765277	A	A	95765277	3	1	70	1	0	0	0	0	1	0	0	0	5848	1116	39	1	530	1	FGD3	9	95765277	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	282614	95765277	45448154	476	46492											
SUSD3	203328	broad.mit.edu	37	chr9	95841807	95841807	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttggagacggtgcaggcCgcataccttggcctcaagca	9	7	13	12	2	1	1	1	0	0	1	1	3	1	1	3	4	3	3	3	4	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:95841807C>T	uc004atb.2	+	4	516	c.480C>T	c.(478-480)GCC>GCT	p.A160A	SUSD3_uc004atc.2_Silent_p.A147A	NM_145006	NP_659443	Q96L08	SUSD3_HUMAN	sushi domain containing 3	160	Cytoplasmic (Potential).					integral to membrane				breast(2)|skin(2)|ovary(1)|lung(1)	6						CGGTGCAGGCCGCATACCTTG	0.612													22	28					0	0	1	0	0		T	95841807	T	T	95841807	2	4	70	1	0	0	0	0	0	0	0	1	15434	639	23	1		1	SUSD3	9	95841807	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	76530	95841807	45371624	477	46493											
PHF2	5253	broad.mit.edu	37	chr9	96439875	96439875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccgactcccctaggaaaaCgtacgaaaaagggcatggcg	13	4	11	13	4	0	0	0	0	0	0	1	3	1	1	4	3	2	2	4	3	6	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:96439875C>T	uc004aub.2	+	22	3355	c.3208C>T	c.(3208-3210)CGT>TGT	p.R1070C	PHF2_uc004auc.2_Intron	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	1070					liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		CCTAGGAAAACGTACGAAAAA	0.537													30	98					0	0	1	0	0		T	96439875	T	T	96439875	3	4	70	1	0	0	0	0	1	0	0	0	11849	536	19	1	3294	1	PHF2	9	96439875	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	598068	96439875	44773556	478	46494											
ZNF367	195828	broad.mit.edu	37	chr9	99180258	99180259	+	In_Frame_Ins	INS	-	GGC	GGC																															agtcgtggcagaagatgacgINSggcggcggcggcggcggcgg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:99180258_99180259insGGC	uc004awf.2	-	1	411_412	c.56_57insGCC	c.(55-57)CCC>CCGCCC	p.19_19P>PP	ZNF367_uc004awg.2_In_Frame_Ins_p.19_19P>PP	NM_153695	NP_710162	Q7RTV3	ZN367_HUMAN	zinc finger protein 367	19	Pro-rich.				regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0167)				AGAAGATGACGggcggcggcgg	0.653													4	7	---	---	---	---						.	GGC	99180259	GGC	GGC	99180258	7	5	70	1	0	1	1	0	0	0	0	0	17896	1103	39	0	1015	0	ZNF367	9	99180258	In_Frame_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	2740383	99180258	42033173	479	46495											
INVS	27130	broad.mit.edu	37	chr9	103055250	103055251	+	Frame_Shift_Del	DEL	AG	-	-																															gctccgactgcagataattcAgagagaacgaaggaggaagg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:103055250_103055251delAG	uc004bap.1	+	14	2923_2924	c.2711_2712delAG	c.(2710-2712)CAGfs	p.Q904fs	INVS_uc011lve.1_Frame_Shift_Del_p.Q808fs|INVS_uc004bao.1_Frame_Shift_Del_p.Q734fs|INVS_uc004baq.1_Frame_Shift_Del_p.Q638fs|INVS_uc004bar.1_Frame_Shift_Del_p.Q808fs|INVS_uc010mtb.1_Frame_Shift_Del_p.Q578fs	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	904					negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				CAGATAATTCAGAGAGAACGAA	0.535													27	43	---	---	---	---						.	-	103055251	-	-	103055250	7	5	70	1	0	1	0	1	0	0	0	0	7803	188	7	0	2761	0	INVS	9	103055250	Frame_Shift_Del	DEL	AG	TCGA-BR-8368-01A-11D-2340-08	3874992	103055250	38158181	480	46496											
OR13C5	138799	broad.mit.edu	37	chr9	107360981	107360981	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacgagctgagcaggtagaGgaaggtttgcttctcccctc	9	9	13	10	1	1	3	0	1	1	2	3	5	1	4	2	3	3	5	2	3	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:107360981G>T	uc011lvp.1	-	1	714	c.714C>A	c.(712-714)TCC>TCA	p.S238S		NM_001004482	NP_001004482	Q8NGS8	O13C5_HUMAN	olfactory receptor, family 13, subfamily C,	238	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4						AGCAGGTAGAGGAAGGTTTGC	0.413													51	78					1.05386e-31	1.15873e-31	1	1	0		T	107360981	T	T	107360981	2	4	70	1	0	0	0	0	0	0	0	1	10956	987	35	5		5	OR13C5	9	107360981	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4305731	107360981	33852450	481	46497											
ZNF462	58499	broad.mit.edu	37	chr9	109690810	109690810	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactaccagaagcgacacccGtccatcaaggtgaccgctga	12	5	9	15	3	1	3	1	2	0	1	2	4	2	3	4	1	2	1	4	1	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:109690810G>A	uc004bcz.2	+	3	4906	c.4617G>A	c.(4615-4617)CCG>CCA	p.P1539P	ZNF462_uc010mto.2_Silent_p.P1387P|ZNF462_uc004bda.2_Silent_p.P1387P	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1539					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						AGCGACACCCGTCCATCAAGG	0.542													9	35					0	0	1	0	0		A	109690810	A	A	109690810	2	1	70	1	0	0	0	0	0	0	0	1	17951	1132	40	1		1	ZNF462	9	109690810	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2329829	109690810	31522621	482	46498											
ACTL7A	10881	broad.mit.edu	37	chr9	111625857	111625857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaccattgtgggtccacCgctttgagtacgaggaacac	10	9	10	12	2	0	1	0	1	0	0	2	3	2	2	4	2	3	2	4	2	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:111625857C>T	uc004bdj.1	+	1	1255	c.1255C>T	c.(1255-1257)CGC>TGC	p.R419C		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	419						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						GTGGGTCCACCGCTTTGAGTA	0.582													11	21					0	0	1	0	0		T	111625857	T	T	111625857	3	4	70	1	0	0	0	0	1	0	0	0	200	652	23	1	1257	1	ACTL7A	9	111625857	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1935047	111625857	29587574	483	46499											
IKBKAP	8518	broad.mit.edu	37	chr9	111668653	111668653	+	Frame_Shift_Del	DEL	G	-	-																															caaatggtgaatgacagaccGggggctgaactcactgtggc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:111668653delG	uc004bdm.3	-	14	2093	c.1573delC	c.(1573-1575)CGGfs	p.R525fs	IKBKAP_uc004bdl.2_Frame_Shift_Del_p.R176fs|IKBKAP_uc011lwc.1_Frame_Shift_Del_p.R411fs|IKBKAP_uc010mtq.2_Frame_Shift_Del_p.R176fs	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	525					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						ATGACAGACCGGGGGCTGAAC	0.468													26	51	---	---	---	---						.	-	111668653	-	-	111668653	7	5	70	1	0	1	0	1	0	0	0	0	7626	1115	39	0	2521	0	IKBKAP	9	111668653	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	42796	111668653	29544778	484	46500											
SNX30	401548	broad.mit.edu	37	chr9	115600849	115600849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttggagggtgagctggctGaacccctggagggtgtgtca	6	9	17	9	0	1	2	1	2	0	0	1	4	1	4	3	5	2	2	3	5	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:115600849G>A	uc004bgj.3	+	6	1034	c.886G>A	c.(886-888)GAA>AAA	p.E296K	SNX30_uc004bgi.3_5'UTR	NM_001012994	NP_001013012	Q5VWJ9	SNX30_HUMAN	sorting nexin family member 30	296					cell communication|protein transport	cytoplasm	phosphatidylinositol binding				0						TGAGCTGGCTGAACCCCTGGA	0.512													20	61					0	0	1	0	0		A	115600849	A	A	115600849	3	1	70	1	0	0	0	0	1	0	0	0	14925	1291	45	4	908	4	SNX30	9	115600849	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3932196	115600849	25612582	485	46501											
FKBP15	23307	broad.mit.edu	37	chr9	115941001	115941002	+	Frame_Shift_Ins	INS	-	T	T																															gcatctgcagctctgtttccINStttttttggtgagcagtcat																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:115941001_115941002insT	uc004bgs.2	-	20	2112_2113	c.1994_1995insA	c.(1993-1995)AAGfs	p.K665fs	FKBP15_uc010muu.1_Frame_Shift_Ins_p.K729fs|FKBP15_uc004bgr.2_Frame_Shift_Ins_p.K102fs|FKBP15_uc011lxc.1_Frame_Shift_Ins_p.K246fs|FKBP15_uc011lxd.1_Frame_Shift_Ins_p.K597fs|FKBP15_uc010mut.1_Frame_Shift_Ins_p.K533fs	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	665	Potential.				endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						GCTCTGTTTCCTTTTTTTGGTG	0.495													7	13	---	---	---	---						.	T	115941002	T	T	115941001	7	5	70	1	0	1	1	0	0	0	0	0	5919	680	24	0	1700	0	FKBP15	9	115941001	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	340152	115941001	25272430	486	46502											
ATP6V1G1	9550	broad.mit.edu	37	chr9	117359933	117359933	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcctccagacatacttccgGcagaacagggatgaagtctt	12	9	9	11	1	1	3	0	1	1	2	4	4	4	4	3	2	2	1	3	2	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:117359933G>A	uc004bjc.2	+	3	392	c.267G>A	c.(265-267)CGG>CGA	p.R89R		NM_004888	NP_004879	O75348	VATG1_HUMAN	vacuolar H+ ATPase G1	89					cellular iron ion homeostasis|insulin receptor signaling pathway|proton transport|transferrin transport	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase complex	ATPase binding|hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances				0						CATACTTCCGGCAGAACAGGG	0.502													5	63					0	0	1	0	0		A	117359933	A	A	117359933	2	1	70	1	0	0	0	0	0	0	0	1	1187	1190	42	2		2	ATP6V1G1	9	117359933	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1418932	117359933	23853498	487	46503											
ASTN2	23245	broad.mit.edu	37	chr9	119903693	119903693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcgatgggcgtgttagcGcggaaactctccttgaactt	8	12	11	10	4	2	1	0	1	2	0	4	3	2	2	1	2	3	1	1	2	3	3	rs115011238	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:119903693G>A	uc004bjs.1	-	4	1181	c.1080C>T	c.(1078-1080)CGC>CGT	p.R360R	ASTN2_uc004bjr.1_Silent_p.R360R|ASTN2_uc004bjt.1_Intron	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	360	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GCGTGTTAGCGCGGAAACTCT	0.587													12	35					0	0	1	0	0		A	119903693	A	A	119903693	2	1	70	1	0	0	0	0	0	0	0	1	1066	1102	38	1		1	ASTN2	9	119903693	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2543760	119903693	21309738	488	46504											
ASTN2	23245	broad.mit.edu	37	chr9	120176910	120176910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggagagcccggggacgCggcggcggcggcggctccgg	4	1	22	14	8	0	1	0	0	0	1	1	3	1	2	3	9	1	1	3	9	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:120176910C>T	uc004bjs.1	-	1	408	c.307G>A	c.(307-309)GCG>ACG	p.A103T	ASTN2_uc004bjr.1_Missense_Mutation_p.A103T|ASTN2_uc004bjt.1_Missense_Mutation_p.A103T	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	103	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CCCGGGGACGCGGCGGCGGCG	0.552													2	2					0	0	1	0	0		T	120176910	T	T	120176910	3	4	70	1	0	0	0	0	1	0	0	0	1066	768	27	1	3879	1	ASTN2	9	120176910	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	273217	120176910	21036521	489	46505											
TRAF1	7185	broad.mit.edu	37	chr9	123675736	123675736	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctcaaacacacgcagcttcCcctccagctcagccagaagc	11	6	6	18	1	2	1	2	0	1	1	5	1	4	1	4	0	5	3	4	0	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:123675736C>A	uc004bku.1	-	5	1147	c.575G>T	c.(574-576)GGG>GTG	p.G192V	TRAF1_uc011lyg.1_Missense_Mutation_p.G70V|TRAF1_uc010mvl.1_Missense_Mutation_p.G192V	NM_005658	NP_005649	Q13077	TRAF1_HUMAN	TNF receptor-associated factor 1	192					apoptosis|positive regulation of NF-kappaB transcription factor activity|protein complex assembly|regulation of apoptosis|signal transduction	cytoplasm	protein binding|zinc ion binding			skin(2)|ovary(1)	3						ACGCAGCTTCCCCTCCAGCTC	0.612													17	34					5.3912e-06	5.53864e-06	1	1	0		A	123675736	A	A	123675736	3	1	70	1	0	0	0	0	1	0	0	0	16463	623	22	5	691	5	TRAF1	9	123675736	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3498826	123675736	17537695	490	46506											
GSN	2934	broad.mit.edu	37	chr9	124064376	124064376	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacttcttcacgggcgacGcctacgtcatcctgaagaca	10	8	10	13	4	3	3	2	1	1	2	4	5	4	3	2	1	1	0	2	1	2	3	rs148748121	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:124064376G>A	uc004blf.1	+	2	341	c.280G>A	c.(280-282)GCC>ACC	p.A94T	GSN_uc004bld.1_Missense_Mutation_p.A43T|GSN_uc010mvq.1_Missense_Mutation_p.A54T|GSN_uc010mvr.1_Missense_Mutation_p.A54T|GSN_uc010mvu.1_Missense_Mutation_p.A43T|GSN_uc010mvt.1_Missense_Mutation_p.A43T|GSN_uc010mvs.1_Missense_Mutation_p.A43T|GSN_uc004ble.1_Missense_Mutation_p.A43T|GSN_uc010mvv.1_Missense_Mutation_p.A43T|GSN_uc011lyh.1_Missense_Mutation_p.A60T|GSN_uc011lyi.1_Missense_Mutation_p.A43T|GSN_uc011lyj.1_Missense_Mutation_p.A67T	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	94	Actin-severing (Potential).|Gelsolin-like 1.				actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						CACGGGCGACGCCTACGTCAT	0.607													13	104					0	0	1	0	0		A	124064376	A	A	124064376	3	1	70	1	0	0	0	0	1	0	0	0	6841	1087	38	1	314	1	GSN	9	124064376	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	388640	124064376	17149055	491	46507											
GSN	2934	broad.mit.edu	37	chr9	124079433	124079433	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accccttcgcccagggggccCtgaagtcagaggactgcttc	7	7	12	15	1	1	2	1	1	0	1	3	3	1	3	4	3	1	1	4	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:124079433C>A	uc004blf.1	+	7	1037	c.976C>A	c.(976-978)CTG>ATG	p.L326M	GSN_uc004bld.1_Missense_Mutation_p.L275M|GSN_uc010mvq.1_Missense_Mutation_p.L286M|GSN_uc010mvr.1_Missense_Mutation_p.L286M|GSN_uc010mvu.1_Missense_Mutation_p.L275M|GSN_uc010mvt.1_Missense_Mutation_p.L275M|GSN_uc010mvs.1_Missense_Mutation_p.L275M|GSN_uc004ble.1_Missense_Mutation_p.L275M|GSN_uc010mvv.1_Missense_Mutation_p.L275M|GSN_uc011lyh.1_Missense_Mutation_p.L292M|GSN_uc011lyi.1_Missense_Mutation_p.L275M|GSN_uc011lyj.1_Missense_Mutation_p.L299M|GSN_uc004blg.1_Missense_Mutation_p.L57M	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	326	Gelsolin-like 3.				actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						CCAGGGGGCCCTGAAGTCAGA	0.572													14	134					4.3838e-07	4.54094e-07	1	1	0		A	124079433	A	A	124079433	3	1	70	1	0	0	0	0	1	0	0	0	6841	680	24	5	1030	5	GSN	9	124079433	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	15057	124079433	17133998	492	46508											
GSN	2934	broad.mit.edu	37	chr9	124091285	124091285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctccaacaagattggaCgttttgtggtgagcccctgc	7	11	11	12	1	0	2	0	1	0	1	1	3	1	3	4	2	4	2	4	2	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:124091285C>T	uc004blf.1	+	14	2093	c.2032C>T	c.(2032-2034)CGT>TGT	p.R678C	GSN_uc004bld.1_Missense_Mutation_p.R627C|GSN_uc010mvq.1_Missense_Mutation_p.R638C|GSN_uc010mvr.1_Missense_Mutation_p.R638C|GSN_uc010mvu.1_Missense_Mutation_p.R627C|GSN_uc010mvt.1_Missense_Mutation_p.R627C|GSN_uc010mvs.1_Missense_Mutation_p.R627C|GSN_uc004ble.1_Missense_Mutation_p.R627C|GSN_uc010mvv.1_Missense_Mutation_p.R627C|GSN_uc011lyh.1_Missense_Mutation_p.R644C|GSN_uc011lyi.1_Missense_Mutation_p.R627C|GSN_uc011lyj.1_Missense_Mutation_p.R651C|GSN_uc004blg.1_Missense_Mutation_p.R409C	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	678	Actin-binding, Ca-sensitive (Potential).				actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						CAAGATTGGACGTTTTGTGGT	0.617													11	30					0	0	1	0	0		T	124091285	T	T	124091285	3	4	70	1	0	0	0	0	1	0	0	0	6841	536	19	1	2114	1	GSN	9	124091285	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	11852	124091285	17122146	493	46509											
GARNL3	84253	broad.mit.edu	37	chr9	130111298	130111298	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtttccactgatgctggCgtcttgctagtggatggtta	5	15	13	8	1	1	1	0	1	1	0	2	2	2	2	1	4	2	4	1	4	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:130111298C>T	uc011mae.1	+	17	1928	c.1527C>T	c.(1525-1527)GGC>GGT	p.G509G	GARNL3_uc011mad.1_Silent_p.G487G	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	509	CNH.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						CTGATGCTGGCGTCTTGCTAG	0.507													19	27					0	0	1	0	0		T	130111298	T	T	130111298	2	4	70	1	0	0	0	0	0	0	0	1	6256	755	27	1		1	GARNL3	9	130111298	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	6020013	130111298	11102133	494	46510											
SLC2A8	29988	broad.mit.edu	37	chr9	130165011	130165011	+	Frame_Shift_Del	DEL	C	-	-																															tccgagcagggctgggaagaCccccccatcggggctgagca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:130165011delC	uc004bqu.2	+	5	747	c.702delC	c.(700-702)GACfs	p.D234fs	SLC2A8_uc010mxj.2_Frame_Shift_Del_p.D234fs|SLC2A8_uc004bqv.2_5'Flank	NM_014580	NP_055395	Q9NY64	GTR8_HUMAN	solute carrier family 2 (facilitated glucose	234	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to plasma membrane	D-glucose transmembrane transporter activity			ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2						GCTGGGAAGACCCCCCCATCG	0.677													3	3	---	---	---	---						.	-	130165011	-	-	130165011	7	5	70	1	0	1	0	1	0	0	0	0	14576	506	18	0	720	0	SLC2A8	9	130165011	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	53713	130165011	11048420	495	46511											
ST6GALNAC6	30815	broad.mit.edu	37	chr9	130648926	130648926	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccatacagctgggcccaCgatgagaagacccttttctc	10	9	9	13	1	1	2	0	1	1	2	2	4	1	2	3	1	3	1	3	1	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:130648926C>T	uc004bso.1	-	7	1073	c.954G>A	c.(952-954)TCG>TCA	p.S318S	ST6GALNAC6_uc004bsn.1_Silent_p.S284S|ST6GALNAC6_uc011man.1_Silent_p.S118S|ST6GALNAC6_uc004bsp.1_Missense_Mutation_p.R317H|ST6GALNAC6_uc004bsq.1_Silent_p.S284S|ST6GALNAC6_uc004bsr.2_Silent_p.S284S|ST6GALNAC6_uc010mxp.1_RNA	NM_013443	NP_038471	Q969X2	SIA7F_HUMAN	sialytransferase 7F	318	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane|plasma membrane					0						GCTGGGCCCACGATGAGAAGA	0.612													21	35					0	0	1	0	0		T	130648926	T	T	130648926	2	4	70	1	0	0	0	0	0	0	0	1	15253	523	19	1		1	ST6GALNAC6	9	130648926	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	483915	130648926	10564505	496	46512											
GOLGA2	2801	broad.mit.edu	37	chr9	131020423	131020423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctccttcagctgcccacGtagccttgcctgctcctcct	3	13	7	18	1	1	0	1	0	0	0	4	0	4	0	6	0	6	4	6	0	1	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:131020423G>A	uc011maw.1	-	22	2276	c.2263C>T	c.(2263-2265)CGT>TGT	p.R755C	GOLGA2_uc010mxw.2_Missense_Mutation_p.R78C|GOLGA2_uc004buh.2_Missense_Mutation_p.R228C	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	755	Potential.					Golgi cisterna membrane	protein binding			ovary(1)	1						AGCTGCCCACGTAGCCTTGCC	0.622													8	8					0	0	1	0	0		A	131020423	A	A	131020423	3	1	70	1	0	0	0	0	1	0	0	0	6567	1145	40	1	765	1	GOLGA2	9	131020423	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	371497	131020423	10193008	497	46513											
GOLGA2	2801	broad.mit.edu	37	chr9	131029791	131029791	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctccccattgacacatgtCgcagactataagagacgaga	13	7	8	13	2	0	4	0	1	0	3	2	6	1	4	3	0	0	1	3	0	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:131029791C>T	uc011maw.1	-	6	439	c.426G>A	c.(424-426)GCG>GCA	p.A142A	GOLGA2_uc010mxw.2_Intron|GOLGA2_uc004bul.1_Silent_p.A43A|GOLGA2_uc004bum.1_Silent_p.A43A	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	142	Potential.					Golgi cisterna membrane	protein binding			ovary(1)	1						TGACACATGTCGCAGACTATA	0.552													15	20					0	0	1	0	0		T	131029791	T	T	131029791	2	4	70	1	0	0	0	0	0	0	0	1	6567	871	31	1		1	GOLGA2	9	131029791	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	9368	131029791	10183640	498	46514											
NUP188	23511	broad.mit.edu	37	chr9	131718660	131718660	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaaaaagtgaaagctaatAaagatgtagcttcaccattg	17	10	8	6	0	1	3	1	2	0	1	1	3	1	3	1	0	2	3	1	0	7	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:131718660A>G	uc004bws.1	+	4	215	c.193A>G	c.(193-195)AAA>GAA	p.K65E	NUP188_uc004bwq.1_Missense_Mutation_p.K67E	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	65					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						GAAAGCTAATAAAGATGTAGC	0.328													14	15					0	0	1	0	0		G	131718660	G	G	131718660	3	3	70	1	0	0	0	0	1	0	0	0	10777	363	13	3	207	3	NUP188	9	131718660	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	688869	131718660	9494771	499	46515											
ASS1	445	broad.mit.edu	37	chr9	133355792	133355792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcaagcatggcgtgggccGtattgacatcgtggagaacc	9	7	16	9	3	0	2	0	1	0	1	1	3	0	2	2	4	2	3	2	4	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:133355792G>A	uc004bzm.2	+	12	1150	c.794G>A	c.(793-795)CGT>CAT	p.R265H	ASS1_uc004bzn.2_Missense_Mutation_p.R265H|ASS1_uc010mza.2_Missense_Mutation_p.R341H|ASS1_uc004bzo.2_Missense_Mutation_p.R246H|ASS1_uc010mzb.2_Missense_Mutation_p.R303H|ASS1_uc004bzp.2_Missense_Mutation_p.R265H|ASS1_uc010mzc.2_Missense_Mutation_p.R265H	NM_000050	NP_000041	P00966	ASSY_HUMAN	argininosuccinate synthetase 1	265			R -> H (in CTLN1).|R -> C (in CTLN1; severe clinical course).		arginine biosynthetic process|urea cycle	cytosol	argininosuccinate synthase activity|ATP binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000514)	Adenosine triphosphate(DB00171)|L-Arginine(DB00125)|L-Aspartic Acid(DB00128)|L-Citrulline(DB00155)	GGCGTGGGCCGTATTGACATC	0.612													10	27					0	0	1	0	0		A	133355792	A	A	133355792	3	1	70	1	0	0	0	0	1	0	0	0	1062	1145	40	1	832	1	ASS1	9	133355792	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1637132	133355792	7857639	500	46516											
BAT2L1	84726	broad.mit.edu	37	chr9	134340381	134340381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgaaaggcaggtgaggccCggaagcaggcagagaaggaa	15	1	17	8	2	0	2	0	1	0	1	0	6	0	4	1	6	1	3	1	6	4	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:134340381C>T	uc004can.3	+	11	1691	c.1636C>T	c.(1636-1638)CGG>TGG	p.R546W	BAT2L1_uc010mzj.1_Missense_Mutation_p.R129W	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	546	Potential.						protein binding				0						AGGTGAGGCCCGGAAGCAGGC	0.622													10	20					0	0	1	0	0		T	134340381	T	T	134340381	3	4	70	1	0	0	0	0	1	0	0	0	1321	643	23	1	1678	1	BAT2L1	9	134340381	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	984589	134340381	6873050	501	46517											
BAT2L1	84726	broad.mit.edu	37	chr9	134350806	134350806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggggggtcctgggggcccGcagcatctactgcagcagtc	5	7	17	12	1	1	0	0	0	1	0	3	0	2	0	2	5	4	4	2	5	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:134350806G>A	uc004can.3	+	15	3345	c.3290G>A	c.(3289-3291)CGC>CAC	p.R1097H	BAT2L1_uc010mzj.1_Missense_Mutation_p.R680H|BAT2L1_uc004cao.3_Missense_Mutation_p.R455H	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1097							protein binding				0						CTGGGGGCCCGCAGCATCTAC	0.701													3	12					0	0	1	0	0		A	134350806	A	A	134350806	3	1	70	1	0	0	0	0	1	0	0	0	1321	1087	38	1	3348	1	BAT2L1	9	134350806	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	10425	134350806	6862625	502	46518											
GTF3C4	9329	broad.mit.edu	37	chr9	135554691	135554691	+	Frame_Shift_Del	DEL	A	-	-																															atttttacaagaagctttggAaaaaaagattgaaagcagtg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:135554691delA	uc010mzv.2	+	2	1943	c.1685delA	c.(1684-1686)GAAfs	p.E562fs	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	562					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		GAAGCTTTGGAAAAAAAGATT	0.353													58	101	---	---	---	---						.	-	135554691	-	-	135554691	7	5	70	1	0	1	0	1	0	0	0	0	6891	246	9	0	1691	0	GTF3C4	9	135554691	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	1203885	135554691	5658740	503	46519											
PMPCA	23203	broad.mit.edu	37	chr9	139317663	139317663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtatgagcacatccagaccGccctgtcgagtaaggacggg	10	6	13	12	4	0	2	0	1	0	1	2	4	1	3	3	2	1	3	3	2	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:139317663G>A	uc004chl.2	+	13	1530	c.1525G>A	c.(1525-1527)GCC>ACC	p.A509T	PMPCA_uc010nbl.2_Missense_Mutation_p.A409T|PMPCA_uc011mdz.1_Missense_Mutation_p.A378T|PMPCA_uc004chn.1_3'UTR	NM_015160	NP_055975	Q10713	MPPA_HUMAN	peptidase (mitochondrial processing) alpha	509					proteolysis	mitochondrial inner membrane|mitochondrial matrix	metalloendopeptidase activity|zinc ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;9.3e-06)|Epithelial(140;1.15e-05)		CATCCAGACCGCCCTGTCGAG	0.652													12	25					0	0	1	0	0		A	139317663	A	A	139317663	3	1	70	1	0	0	0	0	1	0	0	0	12159	1087	38	1	1575	1	PMPCA	9	139317663	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3762972	139317663	1895768	504	46520											
INPP5E	56623	broad.mit.edu	37	chr9	139324254	139324254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaatttgccagctgccaacGgaatgctgtggaggaggagg	11	7	15	8	1	0	0	0	0	0	0	0	4	0	4	2	5	5	2	2	5	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:139324254G>A	uc004cho.2	-	10	2193	c.1808C>T	c.(1807-1809)CCG>CTG	p.P603L	INPP5E_uc010nbm.2_Missense_Mutation_p.P602L	NM_019892	NP_063945	Q9NRR6	INP5E_HUMAN	inositol polyphosphate-5-phosphatase E	603						cilium axoneme|cytoskeleton|Golgi cisterna membrane	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity			skin(1)	1		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.36e-06)|Epithelial(140;1.4e-05)		AGCTGCCAACGGAATGCTGTG	0.567													5	45					0	0	1	0	0		A	139324254	A	A	139324254	3	1	70	1	0	0	0	0	1	0	0	0	7773	1116	39	1	130	1	INPP5E	9	139324254	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6591	139324254	1889177	505	46521											
ABCA2	20	broad.mit.edu	37	chr9	139905490	139905490	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccacgacgccctcaacCgccatggccaccagtccgcg	9	3	9	20	5	1	0	1	0	0	0	2	1	2	0	7	1	2	0	7	1	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:139905490C>T	uc011mem.1	-	38	6136	c.5988G>A	c.(5986-5988)GCG>GCA	p.A1996A	ABCA2_uc011mel.1_Silent_p.A1997A|ABCA2_uc004ckl.1_Silent_p.A1927A|ABCA2_uc004ckm.1_Silent_p.A2027A	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1996	Helical; (Potential).				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CGCCCTCAACCGCCATGGCCA	0.537													12	18					0	0	1	0	0		T	139905490	T	T	139905490	2	4	70	1	0	0	0	0	0	0	0	1	32	639	23	1		1	ABCA2	9	139905490	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	581236	139905490	1307941	506	46522											
DPP7	29952	broad.mit.edu	37	chr9	140007557	140007557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtgccgaactcccagcGgaccgtgtcgtaggctgcgt	6	7	15	13	5	0	0	0	0	0	0	2	2	1	1	3	3	4	3	3	3	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:140007557G>A	uc004clh.2	-	7	748	c.718C>T	c.(718-720)CGC>TGC	p.R240C		NM_013379	NP_037511	Q9UHL4	DPP2_HUMAN	dipeptidyl peptidase 7 preproprotein	240						cytoplasmic membrane-bounded vesicle|extracellular region|lysosome	aminopeptidase activity|protein binding|serine-type peptidase activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;4.25e-05)|Epithelial(140;0.000633)		AACTCCCAGCGGACCGTGTCG	0.642													17	31					0	0	1	0	0		A	140007557	A	A	140007557	3	1	70	1	0	0	0	0	1	0	0	0	4737	1116	39	1	788	1	DPP7	9	140007557	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	102067	140007557	1205874	507	46523											
NDOR1	27158	broad.mit.edu	37	chr9	140106987	140106987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttatattccggaagaacctgCcctccactgccctctgtcag	8	11	7	15	1	2	1	1	0	1	1	4	2	4	2	5	1	3	0	5	1	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:140106987C>T	uc004clw.2	+	3	358	c.247C>T	c.(247-249)CCC>TCC	p.P83S	NDOR1_uc004clx.2_Missense_Mutation_p.P83S|NDOR1_uc011mes.1_Missense_Mutation_p.P83S|NDOR1_uc004cly.2_Missense_Mutation_p.P83S	NM_014434	NP_055249	Q9UHB4	NDOR1_HUMAN	NADPH dependent diflavin oxidoreductase 1	83	Flavodoxin-like.				cell death	cytosol|intermediate filament cytoskeleton|nucleus|perinuclear region of cytoplasm	flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding|oxidoreductase activity|protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GAAGAACCTGCCCTCCACTGC	0.592													16	44					0	0	1	0	0		T	140106987	T	T	140106987	3	4	70	1	0	0	0	0	1	0	0	0	10268	739	26	2	257	2	NDOR1	9	140106987	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	99430	140106987	1106444	508	46524											
EHMT1	79813	broad.mit.edu	37	chr9	140638440	140638440	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggacgactcagaggagctCgaggaggacgacggccatgg	11	3	18	9	4	1	1	1	0	0	1	2	9	1	5	1	6	1	1	1	6	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr9:140638440C>T	uc011mfc.1	+	6	1105	c.1068C>T	c.(1066-1068)CTC>CTT	p.L356L	EHMT1_uc004coa.2_Silent_p.L356L|EHMT1_uc004cob.1_Silent_p.L325L	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	356					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		CAGAGGAGCTCGAGGAGGACG	0.647													5	33					0	0	1	0	0		T	140638440	T	T	140638440	2	4	70	1	0	0	0	0	0	0	0	1	4989	871	31	1		1	EHMT1	9	140638440	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	531453	140638440	574991	509	46525											
ITIH5	80760	broad.mit.edu	37	chr10	7657997	7657997	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtcaagcacgaataccAcattcttgggtaaaggagga	13	9	11	8	1	2	0	1	0	1	0	2	3	2	2	1	3	3	3	1	3	5	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:7657997A>G	uc001ijq.2	-	7	966	c.887T>C	c.(886-888)GTG>GCG	p.V296A	ITIH5_uc001ijp.2_Missense_Mutation_p.V82A|ITIH5_uc001ijr.1_Missense_Mutation_p.V296A	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	296	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CACGAATACCACATTCTTGGG	0.478													20	53					0	0	1	0	0		G	7657997	G	G	7657997	3	3	70	1	0	0	0	0	1	0	0	0	7923	159	6	3	2096	3	ITIH5	10	7657997	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08		7657997	127876750	510	46526											
TAF3	83860	broad.mit.edu	37	chr10	8005989	8005989	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagaaattattaatgaTgagaatttcctgggcaagag	16	10	12	3	0	0	4	0	2	0	3	1	7	1	5	1	2	0	1	1	2	6	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:8005989T>C	uc010qbd.1	+	3	516	c.516T>C	c.(514-516)GAT>GAC	p.D172D		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	172					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						TTATTAATGATGAGAATTTCC	0.493													16	51					0	0	1	0	0		C	8005989	C	C	8005989	2	2	70	1	0	0	0	0	0	0	0	1	15550	1461	51	3		3	TAF3	10	8005989	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	347992	8005989	127528758	511	46527											
GATA3	2625	broad.mit.edu	37	chr10	8100708	8100708	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctacccgccctacgtgcccGagtacagctccggactcttc	6	8	8	19	4	1	0	0	0	1	0	3	2	2	1	5	1	5	2	5	1	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:8100708G>A	uc001ika.2	+	3	1239	c.682G>A	c.(682-684)GAG>AAG	p.E228K	GATA3_uc001ijz.2_Missense_Mutation_p.E228K	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	228					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						CTACGTGCCCGAGTACAGCTC	0.692			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						16	43					0	0	1	0	0		A	8100708	A	A	8100708	3	1	70	1	0	0	0	0	1	0	0	0	6270	1059	37	1	688	1	GATA3	10	8100708	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	94719	8100708	127434039	512	46528											
CUBN	8029	broad.mit.edu	37	chr10	17113854	17113854	+	Frame_Shift_Del	DEL	T	-	-																															taaacagctctgaaactagcTttttcaacagaagcatctat																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:17113854delT	uc001ioo.2	-	18	2470	c.2418delA	c.(2416-2418)AAAfs	p.K806fs		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	806	CUB 3.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TGAAACTAGCTTTTTCAACAG	0.313													39	57	---	---	---	---						.	-	17113854	-	-	17113854	7	5	70	1	0	1	0	1	0	0	0	0	4054	1606	56	0	8653	0	CUBN	10	17113854	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	9013146	17113854	118420893	513	46529											
KIAA1217	56243	broad.mit.edu	37	chr10	24831889	24831889	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagtatttctgatgcatcAagaacatcagaatataaaac	19	11	5	6	0	3	3	2	1	1	2	3	3	3	3	0	0	3	2	0	0	9	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:24831889A>C	uc001iru.3	+	19	4093	c.3690A>C	c.(3688-3690)TCA>TCC	p.S1230S	KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron|KIAA1217_uc001irw.2_Intron|KIAA1217_uc001irz.2_Intron|KIAA1217_uc001irx.2_Silent_p.S913S|KIAA1217_uc001iry.2_Intron|KIAA1217_uc001isa.1_Silent_p.S66S	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	1230					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						CTGATGCATCAAGAACATCAG	0.423													5	45					0	0	1	0	0		C	24831889	C	C	24831889	2	2	70	1	0	0	0	0	0	0	0	1	8232	117	5	5		5	KIAA1217	10	24831889	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	7718035	24831889	110702858	514	46530											
ARHGAP21	57584	broad.mit.edu	37	chr10	24874300	24874300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggggaacacgggaaactCgctctcgctgtcggtttcca	7	10	13	11	4	1	0	0	0	1	0	5	2	2	2	1	4	2	3	1	4	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:24874300C>T	uc001isb.2	-	26	5405	c.4918G>A	c.(4918-4920)GAG>AAG	p.E1640K	ARHGAP21_uc010qdb.1_RNA	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	1639	Interaction with CTNNA1.				signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						ACGGGAAACTCGCTCTCGCTG	0.547													33	81					0	0	1	0	0		T	24874300	T	T	24874300	3	4	70	1	0	0	0	0	1	0	0	0	871	893	31	1	962	1	ARHGAP21	10	24874300	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	42411	24874300	110660447	515	46531											
GPR158	57512	broad.mit.edu	37	chr10	25464572	25464572	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcttggcgcagaaactcGccgaggaggtgcccatggac	9	6	13	13	3	1	1	0	0	1	1	2	4	1	3	3	4	2	1	3	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:25464572G>T	uc001isj.2	+	1	283	c.223G>T	c.(223-225)GCC>TCC	p.A75S	LOC100128811_uc010qde.1_Intron	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	75	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GCAGAAACTCGCCGAGGAGGT	0.687													17	27					2.23348e-06	2.30086e-06	1	1	0		T	25464572	T	T	25464572	3	4	70	1	0	0	0	0	1	0	0	0	6678	1087	38	5	225	5	GPR158	10	25464572	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	590272	25464572	110070175	516	46532											
NRP1	8829	broad.mit.edu	37	chr10	33475257	33475257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcctctggcttctggtagCgcagtttgaccctgagtgtg	5	13	12	11	1	2	2	0	2	2	0	3	2	3	2	2	2	1	4	2	2	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:33475257C>T	uc001iwx.3	-	14	2745	c.2222G>A	c.(2221-2223)CGC>CAC	p.R741H	NRP1_uc001iwv.3_Missense_Mutation_p.R741H|NRP1_uc009xlz.2_Missense_Mutation_p.R735H|NRP1_uc001iww.3_Missense_Mutation_p.R553H|NRP1_uc001iwy.3_Missense_Mutation_p.R734H	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	741	Extracellular (Potential).|MAM.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	CTTCTGGTAGCGCAGTTTGAC	0.562													21	37					0	0	1	0	0		T	33475257	T	T	33475257	3	4	70	1	0	0	0	0	1	0	0	0	10679	768	27	1	565	1	NRP1	10	33475257	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	8010685	33475257	102059490	517	46533											
MAPK8	5599	broad.mit.edu	37	chr10	49613018	49613019	+	Frame_Shift_Ins	INS	-	A	A																															ttatgaaatgtgttaatcacINSaaaaatgtaagtgaacattt																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:49613018_49613019insA	uc009xnz.2	+	3	470_471	c.246_247insA	c.(244-249)CACAAAfs	p.H82fs	MAPK8_uc001jgl.2_Frame_Shift_Ins_p.H82fs|MAPK8_uc001jgm.2_Frame_Shift_Ins_p.H82fs|MAPK8_uc001jgo.2_Frame_Shift_Ins_p.H82fs|MAPK8_uc009xoa.2_Frame_Shift_Ins_p.H82fs|MAPK8_uc001jgn.2_Frame_Shift_Ins_p.H82fs|MAPK8_uc010qgk.1_Frame_Shift_Ins_p.H82fs|MAPK8_uc001jgp.2_Frame_Shift_Ins_p.H82fs|MAPK8_uc001jgq.2_Frame_Shift_Ins_p.H82fs	NM_139047	NP_620635	P45983	MK08_HUMAN	mitogen-activated protein kinase 8 isoform JNK1	82_83	Protein kinase.				activation of pro-apoptotic gene products|cellular response to mechanical stimulus|induction of apoptosis by intracellular signals|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of apoptosis|negative regulation of protein binding|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of deacetylase activity|regulation of protein localization|regulation of sequence-specific DNA binding transcription factor activity|response to UV|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|histone deacetylase binding|histone deacetylase regulator activity|JUN kinase activity|protein binding			central_nervous_system(3)|lung(2)|stomach(1)|ovary(1)|kidney(1)	8		Ovarian(717;0.0221)|Lung SC(717;0.113)|all_neural(218;0.116)		Epithelial(53;3.46e-65)|Lung(62;0.125)		GTGTTAATCACAAAAATGTAAG	0.332													15	32	---	---	---	---						.	A	49613019	A	A	49613018	7	5	70	1	0	1	1	0	0	0	0	0	9301	477	17	0	252	0	MAPK8	10	49613018	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	16137761	49613018	85921729	518	46534											
A1CF	29974	broad.mit.edu	37	chr10	52596039	52596039	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaataatcggcagttgtcCacactggcacaaacccctaa	15	7	6	13	1	0	0	0	0	0	0	2	0	1	0	3	2	1	3	3	2	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:52596039C>T	uc001jjj.2	-	6	587	c.399G>A	c.(397-399)GTG>GTA	p.V133V	A1CF_uc010qhn.1_Silent_p.V141V|A1CF_uc001jji.2_Silent_p.V133V|A1CF_uc001jjh.2_Silent_p.V141V|A1CF_uc010qho.1_Silent_p.V141V|A1CF_uc009xov.2_Silent_p.V133V	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	133	RRM 1.				cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						GGCAGTTGTCCACACTGGCAC	0.428													30	57					0	0	1	0	0		T	52596039	T	T	52596039	2	4	70	1	0	0	0	0	0	0	0	1	2	581	21	4		4	A1CF	10	52596039	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2983021	52596039	82938708	519	46535											
BICC1	80114	broad.mit.edu	37	chr10	60588642	60588642	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacattgctagtgtcagtggCcgctggtagcagcaccctct	7	10	12	12	1	2	0	1	0	1	0	2	1	2	0	2	2	3	5	2	2	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:60588642C>T	uc001jki.1	+	21	2916	c.2916C>T	c.(2914-2916)GGC>GGT	p.G972G		NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	972					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						GTGTCAGTGGCCGCTGGTAGC	0.527													16	33					0	0	1	0	0		T	60588642	T	T	60588642	2	4	70	1	0	0	0	0	0	0	0	1	1428	726	26	2		2	BICC1	10	60588642	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	7992603	60588642	74946105	520	46536											
CCDC6	8030	broad.mit.edu	37	chr10	61574410	61574410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagcaagactaaacaaacCgcttttcagcttcaagctta	16	9	5	11	1	2	1	2	0	0	1	2	1	2	1	1	0	6	4	1	0	7	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:61574410C>T	uc001jks.3	-	4	1322	c.686G>A	c.(685-687)CGA>CAA	p.R229Q		NM_005436	NP_005427	Q16204	CCDC6_HUMAN	coiled-coil domain containing 6	229	5.|5 X 29 AA tandem repeats.|Potential.					cytoplasm|cytoskeleton	SH3 domain binding|structural constituent of cytoskeleton			ovary(3)|breast(1)	4				Kidney(211;0.0597)		CTAAACAAACCGCTTTTCAGC	0.378													26	33					0	0	1	0	0		T	61574410	T	T	61574410	3	4	70	1	0	0	0	0	1	0	0	0	2833	666	23	1	762	1	CCDC6	10	61574410	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	985768	61574410	73960337	521	46537											
CCDC6	8030	broad.mit.edu	37	chr10	61665913	61665915	+	In_Frame_Del	DEL	CTC	-	-																															gctttgcgcaggtcgcggttCtcctcctgcagtgccttgca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:61665913_61665915delCTC	uc001jks.3	-	1	904_906	c.268_270delGAG	c.(268-270)GAGdel	p.E90del		NM_005436	NP_005427	Q16204	CCDC6_HUMAN	coiled-coil domain containing 6	90	Potential.					cytoplasm|cytoskeleton	SH3 domain binding|structural constituent of cytoskeleton			ovary(3)|breast(1)	4				Kidney(211;0.0597)		GGTCGCGGTTCTCCTCCTGCAGT	0.665													28	44	---	---	---	---						.	-	61665915	-	-	61665913	7	5	70	1	0	1	0	1	0	0	0	0	2833	912	32	0	1190	0	CCDC6	10	61665913	In_Frame_Del	DEL	CTC	TCGA-BR-8368-01A-11D-2340-08	91503	61665913	73868834	522	46538											
ANK3	288	broad.mit.edu	37	chr10	61965576	61965576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagcttggatggatgcacCgtgtttcagaaggagttcca	10	11	12	8	1	1	1	1	0	0	1	2	4	2	4	2	3	3	4	2	3	2	4	rs139379111	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:61965576C>T	uc001jky.2	-	11	1459	c.1267G>A	c.(1267-1269)GGT>AGT	p.G423S	ANK3_uc010qih.1_Missense_Mutation_p.G406S|ANK3_uc001jkz.3_Missense_Mutation_p.G417S|ANK3_uc001jlb.1_5'UTR|ANK3_uc001jlc.1_Missense_Mutation_p.G84S	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	423	ANK 11.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						ATGGATGCACCGTGTTTCAGA	0.393													22	37					0	0	1	0	0		T	61965576	T	T	61965576	3	4	70	1	0	0	0	0	1	0	0	0	622	652	23	1	12331	1	ANK3	10	61965576	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	299663	61965576	73569171	523	46539											
TET1	80312	broad.mit.edu	37	chr10	70446283	70446284	+	Frame_Shift_Ins	INS	-	A	A																															aggtcctggcaccccgccgcINSaaaaaaagaacgtgtttcac																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:70446283_70446284insA	uc001jok.3	+	11	5728_5729	c.5223_5224insA	c.(5221-5226)CGCAAAfs	p.R1741fs		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1741_1742					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						CACCCCGCCGCAAAAAAAGAAC	0.49													43	70	---	---	---	---						.	A	70446284	A	A	70446283	7	5	70	1	0	1	1	0	0	0	0	0	15794	697	25	0	5261	0	TET1	10	70446283	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	8480707	70446283	65088464	524	46540											
HK1	3098	broad.mit.edu	37	chr10	71128991	71128991	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccccgttatctgtccccAggactatgatgccaacatcg	10	9	7	15	2	1	1	0	1	1	0	3	2	2	2	5	1	2	1	5	1	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:71128991A>G	uc001jpl.3	+	6	693	c.592_splice	c.e6-2	p.D198_splice	HK1_uc001jpg.3_Splice_Site_p.D186_splice|HK1_uc001jph.3_Splice_Site_p.D202_splice|HK1_uc001jpi.3_Splice_Site_p.D202_splice|HK1_uc001jpj.3_Splice_Site_p.D233_splice|HK1_uc001jpk.3_Splice_Site_p.D197_splice|HK1_uc009xqd.2_Splice_Site_p.D76_splice	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI						glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						ATCTGTCCCCAGGACTATGAT	0.532													13	30					0	0	1	0	0		G	71128991	G	G	71128991	5	3	70	1	0	0	0	0	0	0	1	0	7206	202	7	3	790	3	HK1	10	71128991	Splice_Site	SNP	A	TCGA-BR-8368-01A-11D-2340-08	682708	71128991	64405756	525	46541											
CHST3	9469	broad.mit.edu	37	chr10	73767317	73767317	+	Frame_Shift_Del	DEL	G	-	-																															cgcacagtgtccttcgagccGgggggcgccaacgccgcggg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:73767317delG	uc001jsn.2	+	3	968	c.528delG	c.(526-528)CCGfs	p.P176fs		NM_004273	NP_004264	Q7LGC8	CHST3_HUMAN	chondroitin 6-sulfotransferase 3	176	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity				0						CCTTCGAGCCGGGGGGCGCCA	0.652													7	9	---	---	---	---						.	-	73767317	-	-	73767317	7	5	70	1	0	1	0	1	0	0	0	0	3408	1103	39	0	534	0	CHST3	10	73767317	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	2638326	73767317	61767430	526	46542											
SPOCK2	9806	broad.mit.edu	37	chr10	73848012	73848012	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctccttgagccccttggcGtcgccttcggccagggctgc	2	9	12	18	3	0	1	0	1	0	0	3	1	1	1	6	3	2	1	6	3	0	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:73848012G>A	uc001jso.1	-	1	520	c.75C>T	c.(73-75)GAC>GAT	p.D25D	SPOCK2_uc001jsp.2_Silent_p.D25D|SPOCK2_uc010qjs.1_Silent_p.D25D|SPOCK2_uc010qjt.1_Silent_p.D25D	NM_014767	NP_055582	Q92563	TICN2_HUMAN	sparc/osteonectin, cwcv and kazal-like domains	25					extracellular matrix organization|regulation of cell differentiation|signal transduction|synapse assembly	proteinaceous extracellular matrix	calcium ion binding				0						GCCCCTTGGCGTCGCCTTCGG	0.692													3	16					0	0	1	0	0		A	73848012	A	A	73848012	2	1	70	1	0	0	0	0	0	0	0	1	15105	1136	40	1		1	SPOCK2	10	73848012	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	80695	73848012	61686735	527	46543											
PTEN	5728	broad.mit.edu	37	chr10	89717770	89717770	+	Frame_Shift_Del	DEL	A	-	-																															cacaaacagaacaagatgctAaaaaaggtttgtactttact																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:89717770delA	uc001kfb.2	+	8	1826	c.795delA	c.(793-795)CTAfs	p.L265fs		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	265	C2 tensin-type.			KMLKKDK->AAGAADA: Reduces the growth suppression activity and cells show anchorage-independent growth. Reduces binding to phospholipid membranes in vitro. Phosphatase activity towards PtdIns(3,4,5)P3 is not affected.	activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.K267fs*9(4)|p.R55fs*1(4)|p.N212fs*1(2)|p.Y27fs*1(2)|p.M264fs*8(2)|p.G165_*404del(1)|p.?(1)|p.G165_K342del(1)|p.D268fs*30(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		ACAAGATGCTAAAAAAGGTTT	0.348		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			21	27	---	---	---	---						.	-	89717770	-	-	89717770	7	5	70	1	0	1	0	1	0	0	0	0	12760	349	13	0	821	0	PTEN	10	89717770	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	15869758	89717770	45816977	528	46544											
BTAF1	9044	broad.mit.edu	37	chr10	93719750	93719750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtaggttgtggcaccagttCgtgaaacttgtgctcaaaca	10	12	11	8	1	1	1	1	1	0	0	2	1	1	1	1	2	3	5	1	2	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:93719750C>T	uc001khr.2	+	11	1200	c.1102C>T	c.(1102-1104)CGT>TGT	p.R368C	BTAF1_uc001khs.1_Missense_Mutation_p.R38C	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	368					negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				GGCACCAGTTCGTGAAACTTG	0.368													33	66					0	0	1	0	0		T	93719750	T	T	93719750	3	4	70	1	0	0	0	0	1	0	0	0	1539	884	31	1	1144	1	BTAF1	10	93719750	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4001980	93719750	41814997	529	46545											
PIK3AP1	118788	broad.mit.edu	37	chr10	98469729	98469729	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgatgaggatgtcgcatcCtctgggcacccctggacaag	9	7	13	12	2	1	1	0	1	1	0	3	5	2	3	3	3	0	2	3	3	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:98469729C>A	uc001kmq.2	-	2	153	c.25G>T	c.(25-27)GGA>TGA	p.G9*		NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	9						cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		ATGTCGCATCCTCTGGGCACC	0.587													16	35					2.48551e-13	2.65262e-13	1	1	0		A	98469729	A	A	98469729	4	1	70	1	0	0	0	0	0	1	0	0	11927	690	24	5	2456	5	PIK3AP1	10	98469729	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4749979	98469729	37065018	530	46546											
LOXL4	84171	broad.mit.edu	37	chr10	100022589	100022589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccactgtggcctcctggataGcaaagttgtcatcacacacg	10	9	9	13	1	2	0	2	0	0	0	3	1	3	1	3	2	1	2	3	2	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:100022589G>A	uc001kpa.1	-	2	339	c.188C>T	c.(187-189)GCT>GTT	p.A63V		NM_032211	NP_115587	Q96JB6	LOXL4_HUMAN	lysyl oxidase-like 4 precursor	63	SRCR 1.					extracellular space|membrane	copper ion binding|protein binding|scavenger receptor activity			ovary(3)|breast(1)|skin(1)	5		Colorectal(252;0.234)		Epithelial(162;2.14e-11)|all cancers(201;2.49e-09)		CTCCTGGATAGCAAAGTTGTC	0.647											OREG0020428	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	39					0	0	1	0	0		A	100022589	A	A	100022589	3	1	70	1	0	0	0	0	1	0	0	0	8920	971	34	2	2138	2	LOXL4	10	100022589	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1552860	100022589	35512158	531	46547											
TMEM180	79847	broad.mit.edu	37	chr10	104233735	104233735	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggccagacctttgccccGctgctgggcacctggctgct	4	8	12	17	1	0	1	0	0	0	1	0	1	0	1	6	3	3	5	6	3	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:104233735G>A	uc001kvt.2	+	9	1476	c.1257G>A	c.(1255-1257)CCG>CCA	p.P419P	TMEM180_uc010qql.1_Silent_p.P148P|TMEM180_uc010qqm.1_Silent_p.P268P	NM_024789	NP_079065	Q14CX5	TM180_HUMAN	transmembrane protein 180	419	Helical; (Potential).					integral to membrane				ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CCTTTGCCCCGCTGCTGGGCA	0.622													6	18					0	0	1	0	0		A	104233735	A	A	104233735	2	1	70	1	0	0	0	0	0	0	0	1	16124	1074	38	1		1	TMEM180	10	104233735	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4211146	104233735	31301012	532	46548											
C10orf26	54838	broad.mit.edu	37	chr10	104572451	104572451	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccagctacagcagcagcAgctgctgcctccacagtgtg	8	8	10	15	0	0	0	0	0	0	0	2	0	2	0	3	0	8	6	3	0	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:104572451A>T	uc001kwe.3	+	4	652	c.392A>T	c.(391-393)CAG>CTG	p.Q131L	C10orf26_uc001kwf.3_Missense_Mutation_p.Q152L|C10orf26_uc009xxg.1_Intron	NM_017787	NP_060257	Q9NX94	OPA1L_HUMAN	hypothetical protein LOC54838 isoform 2	131	Pro-rich.					integral to membrane				central_nervous_system(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;6.14e-09)|all cancers(201;1.66e-07)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CAGCAGCAGCAGCTGCTGCCT	0.607													34	56					0	0	1	0	0		T	104572451	T	T	104572451	3	4	70	1	0	0	0	0	1	0	0	0	1602	188	7	5	500	5	C10orf26	10	104572451	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	338716	104572451	30962296	533	46549											
SORCS3	22986	broad.mit.edu	37	chr10	106899179	106899179	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caactagtggaagagccagcTactacgtgtcttatcgaaga	13	9	10	9	2	1	2	0	0	1	2	2	4	1	3	1	1	5	1	1	1	7	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:106899179T>C	uc001kyi.1	+	8	1464	c.1237T>C	c.(1237-1239)TAC>CAC	p.Y413H		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	413	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		AAGAGCCAGCTACTACGTGTC	0.483													25	65					0	0	1	0	0		C	106899179	C	C	106899179	3	2	70	1	0	0	0	0	1	0	0	0	14957	1522	53	3	1267	3	SORCS3	10	106899179	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	2326728	106899179	28635568	534	46550											
SMC3	9126	broad.mit.edu	37	chr10	112361533	112361533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actggaaaagatgacaaatcGgcaaggcatgctattgaaga	17	7	11	6	1	0	4	0	2	0	2	1	5	0	5	0	3	1	3	0	3	6	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:112361533G>A	uc001kze.2	+	24	2909	c.2783G>A	c.(2782-2784)CGG>CAG	p.R928Q		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	928					cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		ATGACAAATCGGCAAGGCATG	0.388													21	105					0	0	1	0	0		A	112361533	A	A	112361533	3	1	70	1	0	0	0	0	1	0	0	0	14809	1116	39	1	2877	1	SMC3	10	112361533	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	5462354	112361533	23173214	535	46551											
ABLIM1	3983	broad.mit.edu	37	chr10	116203811	116203811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttgatgggagaatcgtagCgactggctaacagagatgac	13	8	14	6	2	0	4	0	2	0	2	1	7	0	4	0	2	2	3	0	2	3	3	rs138272125	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:116203811C>T	uc010qsg.1	-	17	2009	c.1910G>A	c.(1909-1911)CGC>CAC	p.R637H	ABLIM1_uc010qsh.1_Missense_Mutation_p.R605H|ABLIM1_uc010qsi.1_Missense_Mutation_p.R577H|ABLIM1_uc010qsk.1_Missense_Mutation_p.R514H|ABLIM1_uc009xyp.2_Missense_Mutation_p.R601H|ABLIM1_uc010qsf.1_Missense_Mutation_p.R314H|ABLIM1_uc009xyn.2_Missense_Mutation_p.R253H|ABLIM1_uc010qsj.1_Missense_Mutation_p.R232H|ABLIM1_uc009xyo.2_Missense_Mutation_p.R450H	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	637					axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		AGAATCGTAGCGACTGGCTAA	0.493													37	86					0	0	1	0	0		T	116203811	T	T	116203811	3	4	70	1	0	0	0	0	1	0	0	0	94	768	27	1	450	1	ABLIM1	10	116203811	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3842278	116203811	19330936	536	46552											
PRLHR	2834	broad.mit.edu	37	chr10	120353838	120353838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggcgtaagggtcgatggCgtgggggtcgaggtcccgca	8	6	19	8	5	0	0	0	0	0	0	3	2	1	0	1	6	0	2	1	6	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:120353838C>T	uc001ldp.1	-	2	1058	c.919G>A	c.(919-921)GCC>ACC	p.A307T		NM_004248	NP_004239	P49683	PRLHR_HUMAN	G protein-coupled receptor 10	307	Extracellular (Potential).				female pregnancy	integral to plasma membrane	neuropeptide Y receptor activity				0		Colorectal(252;0.0429)|Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0166)		GGGTCGATGGCGTGGGGGTCG	0.647													5	47					0	0	1	0	0		T	120353838	T	T	120353838	3	4	70	1	0	0	0	0	1	0	0	0	12552	768	27	1	197	1	PRLHR	10	120353838	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4150027	120353838	15180909	537	46553											
BAG3	9531	broad.mit.edu	37	chr10	121431767	121431767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaccctgtgtctcttgcagCggtcccagtctccagctgcc	4	11	9	17	1	2	0	0	0	2	0	5	0	3	0	4	1	5	2	4	1	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:121431767C>T	uc001lem.2	+	3	814	c.508C>T	c.(508-510)CGG>TGG	p.R170W	BAG3_uc001lel.2_Missense_Mutation_p.R170W	NM_004281	NP_004272	O95817	BAG3_HUMAN	BCL2-associated athanogene 3	170					anti-apoptosis|apoptosis|protein folding	cytosol				ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)		TCTCTTGCAGCGGTCCCAGTC	0.637													17	30					0	0	1	0	0		T	121431767	T	T	121431767	3	4	70	1	0	0	0	0	1	0	0	0	1289	782	27	1	518	1	BAG3	10	121431767	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1077929	121431767	14102980	538	46554											
C10orf119	79892	broad.mit.edu	37	chr10	121607133	121607133	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagactcacctttcatcAttattcagtatactcagcac	13	12	3	13	0	5	1	5	0	0	1	5	1	5	1	1	0	2	2	1	0	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:121607133A>G	uc001ler.2	-	8	1117	c.819T>C	c.(817-819)AAT>AAC	p.N273N	C10orf119_uc001leq.1_Silent_p.N100N|C10orf119_uc001les.1_Silent_p.N100N|C10orf119_uc001let.1_Silent_p.N100N	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	273					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)		ACCTTTCATCATTATTCAGTA	0.264													24	30					0	0	1	0	0		G	121607133	G	G	121607133	2	3	70	1	0	0	0	0	0	0	0	1	1591	214	8	3		3	C10orf119	10	121607133	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	175366	121607133	13927614	539	46555											
PLEKHA1	59338	broad.mit.edu	37	chr10	124172489	124172489	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataacctaagtcgccatggTgaatgtgggaaaaagcaagt	15	8	12	6	1	0	1	0	1	0	0	1	3	0	2	2	2	2	1	2	2	6	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:124172489T>C	uc001lge.1	+	6	519	c.396T>C	c.(394-396)GGT>GGC	p.G132G	PLEKHA1_uc001lgf.1_Silent_p.G132G|PLEKHA1_uc001lgg.1_Silent_p.G132G|PLEKHA1_uc001lgh.2_Silent_p.G132G	NM_001001974	NP_001001974	Q9HB21	PKHA1_HUMAN	pleckstrin homology domain containing, family A	132					B cell receptor signaling pathway|cellular response to hydrogen peroxide|establishment of protein localization|negative regulation of protein kinase B signaling cascade|phosphatidylinositol 3-kinase cascade|ruffle organization	cytoplasm|nucleus|ruffle membrane	PDZ domain binding|phosphatidylinositol-3,4-bisphosphate binding			kidney(1)	1		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				GTCGCCATGGTGAATGTGGGA	0.383													9	53					0	0	1	0	0		C	124172489	C	C	124172489	2	2	70	1	0	0	0	0	0	0	0	1	12074	1683	59	3		3	PLEKHA1	10	124172489	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	2565356	124172489	11362258	540	46556											
PLEKHA1	59338	broad.mit.edu	37	chr10	124189146	124189146	+	Frame_Shift_Del	DEL	C	-	-																															actcctttttgcaggagcatCcccccggtccttcagaatcc																								rs150105161	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:124189146delC	uc001lge.1	+	12	1030	c.907delC	c.(907-909)CCCfs	p.P303fs	PLEKHA1_uc001lgf.1_3'UTR|PLEKHA1_uc001lgg.1_Frame_Shift_Del_p.P303fs	NM_001001974	NP_001001974	Q9HB21	PKHA1_HUMAN	pleckstrin homology domain containing, family A	303					B cell receptor signaling pathway|cellular response to hydrogen peroxide|establishment of protein localization|negative regulation of protein kinase B signaling cascade|phosphatidylinositol 3-kinase cascade|ruffle organization	cytoplasm|nucleus|ruffle membrane	PDZ domain binding|phosphatidylinositol-3,4-bisphosphate binding			kidney(1)	1		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				GCAGGAGCATCCCCCCGGTCC	0.502													14	29	---	---	---	---						.	-	124189146	-	-	124189146	7	5	70	1	0	1	0	1	0	0	0	0	12074	855	30	0	949	0	PLEKHA1	10	124189146	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	16657	124189146	11345601	541	46557											
ADAM12	8038	broad.mit.edu	37	chr10	127787041	127787041	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcatgattggggccatgcCgatggtggtcccttggaaat	7	11	14	9	1	1	1	1	1	0	0	2	3	2	2	3	5	1	1	3	5	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:127787041C>A	uc001ljk.2	-	10	1362	c.949G>T	c.(949-951)GGC>TGC	p.G317C	ADAM12_uc010qul.1_Missense_Mutation_p.G268C|ADAM12_uc001ljm.2_Missense_Mutation_p.G317C|ADAM12_uc001ljn.2_Missense_Mutation_p.G314C|ADAM12_uc001ljl.3_Missense_Mutation_p.G314C	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	317	Extracellular (Potential).|Peptidase M12B.				cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		GGGGCCATGCCGATGGTGGTC	0.453													28	124					4.87955e-14	5.21257e-14	1	1	0		A	127787041	A	A	127787041	3	1	70	1	0	0	0	0	1	0	0	0	236	652	23	5	1944	5	ADAM12	10	127787041	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3597895	127787041	7747706	542	46558											
DOCK1	1793	broad.mit.edu	37	chr10	128904520	128904520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcactgaaatacttaccaaCgatcgtcaacgatgtgaaat	16	9	7	9	3	1	2	1	2	0	0	2	4	1	2	1	0	5	1	1	0	6	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:128904520C>T	uc001ljt.2	+	24	2472	c.2408C>T	c.(2407-2409)ACG>ATG	p.T803M	DOCK1_uc010qun.1_Missense_Mutation_p.T824M	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	803					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		TACTTACCAACGATCGTCAAC	0.473													5	5					0	0	1	0	0		T	128904520	T	T	128904520	3	4	70	1	0	0	0	0	1	0	0	0	4690	536	19	1	2502	1	DOCK1	10	128904520	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1117479	128904520	6630227	543	46559											
MKI67	4288	broad.mit.edu	37	chr10	129901620	129901620	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgtcttctagttctggTgatgatttgcagggtatttt	5	18	13	5	1	3	2	0	2	3	0	3	2	3	2	0	3	1	3	0	3	2	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr10:129901620T>C	uc001lke.2	-	13	8679	c.8484A>G	c.(8482-8484)TCA>TCG	p.S2828S	MKI67_uc001lkf.2_Silent_p.S2468S|MKI67_uc009yav.1_Silent_p.S2403S|MKI67_uc009yaw.1_Silent_p.S1978S	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2828	16 X 122 AA approximate repeats.|16.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				CTAGTTCTGGTGATGATTTGC	0.483													42	73					0	0	1	0	0		C	129901620	C	C	129901620	2	2	70	1	0	0	0	0	0	0	0	1	9616	1683	59	3		3	MKI67	10	129901620	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	997100	129901620	5633127	544	46560											
B4GALNT4	338707	broad.mit.edu	37	chr11	379551	379551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtccgagtacgtcttcctgCggctgccgggagcccgcgta	4	9	14	14	6	1	0	0	0	1	0	3	2	3	1	4	2	4	3	4	2	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:379551C>T	uc001lpb.2	+	15	2347	c.2338C>T	c.(2338-2340)CGG>TGG	p.R780W		NM_178537	NP_848632	Q76KP1	B4GN4_HUMAN	beta	780	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			pancreas(1)	1		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CGTCTTCCTGCGGCTGCCGGG	0.751													5	3					0	0	1	0	0		T	379551	T	T	379551	3	4	70	1	0	0	0	0	1	0	0	0	1270	759	27	1	2396	1	B4GALNT4	11	379551	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08		379551	134626965	545	46561											
PHRF1	57661	broad.mit.edu	37	chr11	605238	605238	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttggggctgctgagagcGgatattggagctgcctctct	5	13	14	9	1	2	1	0	1	2	1	3	4	2	3	1	4	4	3	1	4	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:605238G>A	uc001lqe.2	+	11	1403	c.1272G>A	c.(1270-1272)GCG>GCA	p.A424A	PHRF1_uc010qwc.1_Silent_p.A424A|PHRF1_uc010qwd.1_Silent_p.A423A|PHRF1_uc010qwe.1_Silent_p.A420A|PHRF1_uc009ybz.1_Silent_p.A215A|PHRF1_uc009yca.1_5'Flank	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	424							RNA polymerase binding|zinc ion binding				0						TGCTGAGAGCGGATATTGGAG	0.602													13	45					0	0	1	0	0		A	605238	A	A	605238	2	1	70	1	0	0	0	0	0	0	0	1	11880	1103	39	1		1	PHRF1	11	605238	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	225687	605238	134401278	546	46562											
DEAF1	10522	broad.mit.edu	37	chr11	674759	674759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagtcgggggtgggaccGccagcgcaggcagggatgtc	6	5	21	9	3	0	0	0	0	0	0	2	3	0	3	2	6	1	2	2	6	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:674759G>A	uc001lqq.1	-	10	1973	c.1280C>T	c.(1279-1281)GCG>GTG	p.A427V	DEAF1_uc009ycf.1_RNA	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	427	Pro-rich.				embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		GGGTGGGACCGCCAGCGCAGG	0.532													38	67					0	0	1	0	0		A	674759	A	A	674759	3	1	70	1	0	0	0	0	1	0	0	0	4383	1087	38	1	429	1	DEAF1	11	674759	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	69521	674759	134331757	547	46563											
LRDD	55367	broad.mit.edu	37	chr11	802748	802748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaggcgcacaaagggggCgtctagcagctcagggggca	9	4	17	11	2	2	0	1	0	1	0	2	0	2	0	0	5	3	5	0	5	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:802748C>T	uc001lro.1	-	4	995	c.853G>A	c.(853-855)GCC>ACC	p.A285T	LRDD_uc009yck.1_RNA|LRDD_uc001lrk.1_Missense_Mutation_p.A285T|LRDD_uc001lrl.1_Missense_Mutation_p.A139T|LRDD_uc001lrm.1_5'UTR|LRDD_uc001lrn.1_Missense_Mutation_p.A139T|LRDD_uc001lrp.1_5'UTR	NM_145886	NP_665893	Q9HB75	PIDD_HUMAN	leucine rich repeat and death domain containing	285	LRR 7.				apoptosis|signal transduction	cytoplasm|nucleus	death receptor binding				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		ACAAAGGGGGCGTCTAGCAGC	0.677													5	6					0	0	1	0	0		T	802748	T	T	802748	3	4	70	1	0	0	0	0	1	0	0	0	8954	768	27	1	1931	1	LRDD	11	802748	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	127989	802748	134203768	548	46564											
CTSD	1509	broad.mit.edu	37	chr11	1778593	1778593	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatgttctggtccaccagcTtctgctgcatcaggttgtcg	6	13	11	11	1	3	1	1	0	2	1	5	1	4	1	2	2	3	5	2	2	0	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:1778593T>C	uc001luc.1	-	5	798	c.665A>G	c.(664-666)AAG>AGG	p.K222R	CTSD_uc009yda.1_RNA	NM_001909	NP_001900	P07339	CATD_HUMAN	cathepsin D preproprotein	222					cell death|proteolysis	extracellular space|lysosome|melanosome	aspartic-type endopeptidase activity				0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GTCCACCAGCTTCTGCTGCAT	0.627													10	20					0	0	1	0	0		C	1778593	C	C	1778593	3	2	70	1	0	0	0	0	1	0	0	0	4035	1609	56	3	593	3	CTSD	11	1778593	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	975845	1778593	133227923	549	46565											
OR52D1	390066	broad.mit.edu	37	chr11	5510100	5510100	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctggtcattgccatggAcaatgctcttcatgcaccta	9	12	7	13	0	3	0	2	0	1	0	4	1	4	1	3	2	3	2	3	2	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:5510100A>G	uc010qzg.1	+	1	164	c.164A>G	c.(163-165)GAC>GGC	p.D55G	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005163	NP_001005163	Q9H346	O52D1_HUMAN	olfactory receptor, family 52, subfamily D,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.46e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATTGCCATGGACAATGCTCTT	0.527													17	64					0	0	1	0	0		G	5510100	G	G	5510100	3	3	70	1	0	0	0	0	1	0	0	0	11133	275	10	3	166	3	OR52D1	11	5510100	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	3731507	5510100	129496416	550	46566											
PRKCDBP	112464	broad.mit.edu	37	chr11	6340571	6340571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcttgaccggggtgggcGgtggcgctgcagggcctttc	2	8	20	11	4	0	1	0	1	0	0	1	1	0	1	2	7	1	3	2	7	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:6340571G>A	uc001mcu.1	-	2	642	c.608C>T	c.(607-609)CCG>CTG	p.P203L		NM_145040	NP_659477	Q969G5	PRDBP_HUMAN	protein kinase C, delta binding protein	203											0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CGGGGTGGGCGGTGGCGCTGC	0.731													30	50					0	0	1	0	0		A	6340571	A	A	6340571	3	1	70	1	0	0	0	0	1	0	0	0	12532	1116	39	1	181	1	PRKCDBP	11	6340571	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	830471	6340571	128665945	551	46567											
HPX	3263	broad.mit.edu	37	chr11	6461701	6461701	+	Frame_Shift_Del	DEL	A	-	-																															cctcagtccctcctacctttAaaaaacagcatggttccatt																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:6461701delA	uc001mdg.2	-	3	271	c.210delT	c.(208-210)TTTfs	p.F70fs	HPX_uc001mdf.2_5'Flank|HPX_uc009yfc.2_RNA|HPX_uc010rai.1_Frame_Shift_Del_p.F70fs	NM_000613	NP_000604	P02790	HEMO_HUMAN	hemopexin precursor	70	Hemopexin-like 1.				cellular iron ion homeostasis|interspecies interaction between organisms	extracellular space	heme transporter activity|metal ion binding|protein binding				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;5.46e-08)|BRCA - Breast invasive adenocarcinoma(625;0.19)		TCCTACCTTTAAAAAACAGCA	0.488													50	58	---	---	---	---						.	-	6461701	-	-	6461701	7	5	70	1	0	1	0	1	0	0	0	0	7362	359	13	0	1210	0	HPX	11	6461701	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	121130	6461701	128544815	552	46568											
DCHS1	8642	broad.mit.edu	37	chr11	6644405	6644405	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcatctgtggcctgcacGtgacccaagctgtggccacg	6	9	11	15	2	2	1	1	1	1	0	3	1	3	1	4	2	2	2	4	2	1	0	rs150994160	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:6644405G>A	uc001mem.1	-	21	8912	c.8502C>T	c.(8500-8502)CAC>CAT	p.H2834H		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	2834	Extracellular (Potential).|Cadherin 27.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGGCCTGCACGTGACCCAAGC	0.567													5	7					0	0	1	0	0		A	6644405	A	A	6644405	2	1	70	1	0	0	0	0	0	0	0	1	4290	1136	40	1		1	DCHS1	11	6644405	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	182704	6644405	128362111	553	46569											
TEAD1	7003	broad.mit.edu	37	chr11	12785940	12785940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggctatctatccaccatgtgGgaggaggaaaatcatcttat	12	11	10	8	0	3	0	1	0	2	0	4	3	4	3	2	4	0	1	2	4	5	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:12785940G>A	uc001mkj.3	+	3	781	c.116G>A	c.(115-117)GGG>GAG	p.G39E		NM_021961	NP_068780	P28347	TEAD1_HUMAN	TEA domain family member 1	54	TEA.				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0				Epithelial(150;0.00223)|BRCA - Breast invasive adenocarcinoma(625;0.236)		CCACCATGTGGGAGGAGGAAA	0.488													8	77					0	0	1	0	0		A	12785940	A	A	12785940	3	1	70	1	0	0	0	0	1	0	0	0	15763	1232	43	4	163	4	TEAD1	11	12785940	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6141535	12785940	122220576	554	46570											
COPB1	1315	broad.mit.edu	37	chr11	14501184	14501184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcattctcaggttatcaaagCgctgaatggcttcacgaaca	12	10	9	10	2	3	1	3	1	1	0	4	2	3	1	0	2	2	4	0	2	4	3	rs145451352		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:14501184C>T	uc001mli.2	-	11	1596	c.1289G>A	c.(1288-1290)CGC>CAC	p.R430H	COPB1_uc001mlg.2_Missense_Mutation_p.R430H|COPB1_uc001mlh.2_Missense_Mutation_p.R430H	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	430	HEAT 6.				COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						GTTATCAAAGCGCTGAATGGC	0.343													32	56					0	0	1	0	0		T	14501184	T	T	14501184	3	4	70	1	0	0	0	0	1	0	0	0	3731	768	27	1	1620	1	COPB1	11	14501184	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1715244	14501184	120505332	555	46571											
LDHA	3939	broad.mit.edu	37	chr11	18418442	18418442	+	Frame_Shift_Del	DEL	C	-	-																															tcttctaaaggaagaacagaCcccccagaataagattacag																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:18418442delC	uc001mok.3	+	2	325	c.53delC	c.(52-54)ACCfs	p.T18fs	LDHA_uc010rdc.1_Frame_Shift_Del_p.T18fs|LDHA_uc009yhn.2_Frame_Shift_Del_p.T18fs|LDHA_uc009yho.2_5'UTR|LDHA_uc001mol.3_Frame_Shift_Del_p.T18fs|LDHA_uc010rdd.1_Frame_Shift_Del_p.T47fs	NM_005566	NP_005557	P00338	LDHA_HUMAN	lactate dehydrogenase A isoform 1	18					glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity|protein binding			central_nervous_system(3)	3					NADH(DB00157)	GAAGAACAGACCCCCCAGAAT	0.418													46	81	---	---	---	---						.	-	18418442	-	-	18418442	7	5	70	1	0	1	0	1	0	0	0	0	8714	507	18	0	146	0	LDHA	11	18418442	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	3917258	18418442	116588074	556	46572											
LUZP2	338645	broad.mit.edu	37	chr11	24998139	24998139	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttatctcttattttacaggcGcagcagcttactgatctgga	9	15	8	9	1	2	1	0	1	2	0	3	2	2	2	0	2	4	3	0	2	4	5	rs148359334		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:24998139G>A	uc001mqs.2	+	8	759	c.525G>A	c.(523-525)GCG>GCA	p.A175A	LUZP2_uc009yif.2_Silent_p.A89A|LUZP2_uc009yig.2_Silent_p.A133A	NM_001009909	NP_001009909	Q86TE4	LUZP2_HUMAN	leucine zipper protein 2 precursor	175	Potential.|Leucine-zipper.					extracellular region		p.A175G(1)		ovary(1)|skin(1)	2						TTTTACAGGCGCAGCAGCTTA	0.358													20	29					0	0	1	0	0		A	24998139	A	A	24998139	2	1	70	1	0	0	0	0	0	0	0	1	9105	1074	38	1		1	LUZP2	11	24998139	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6579697	24998139	110008377	557	46573											
DCDC1	341019	broad.mit.edu	37	chr11	31327259	31327259	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcgagggcttccttgccGtctgccaagaacactcgtct	6	11	11	13	3	2	1	0	0	2	1	5	2	3	1	3	2	3	2	3	2	2	3	rs147472755		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:31327259G>A	uc001msv.2	-	6	859	c.657C>T	c.(655-657)GAC>GAT	p.D219D	DCDC1_uc001msu.1_Translation_Start_Site	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	219	Doublecortin.				intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					CTTCCTTGCCGTCTGCCAAGA	0.438													44	70					0	0	1	0	0		A	31327259	A	A	31327259	2	1	70	1	0	0	0	0	0	0	0	1	4287	1136	40	1		1	DCDC1	11	31327259	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6329120	31327259	103679257	558	46574											
HIPK3	10114	broad.mit.edu	37	chr11	33373380	33373380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taaatgccgatgagcatatgGcaaacacaggtaagttgagt	15	9	11	6	1	0	2	0	2	0	0	0	3	0	2	1	2	3	4	1	2	5	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:33373380G>A	uc001mul.1	+	15	3304	c.3034G>A	c.(3034-3036)GCA>ACA	p.A1012T	HIPK3_uc001mum.1_Missense_Mutation_p.A991T|HIPK3_uc009yjv.1_Missense_Mutation_p.A991T	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	1012					anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						TGAGCATATGGCAAACACAGG	0.438													5	23					0	0	1	0	0		A	33373380	A	A	33373380	3	1	70	1	0	0	0	0	1	0	0	0	7134	1203	42	2	3088	2	HIPK3	11	33373380	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2046121	33373380	101633136	559	46575											
ALX4	60529	broad.mit.edu	37	chr11	44331484	44331484	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgacaggaaagttgtgccGaacttgtcgcctccgggaaa	10	7	13	11	4	0	0	0	0	0	0	2	4	1	2	4	2	2	1	4	2	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:44331484G>A	uc001myb.2	-	1	233	c.129C>T	c.(127-129)TTC>TTT	p.F43F		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	43					hair follicle development						0						AAGTTGTGCCGAACTTGTCGC	0.682													7	6					0	0	1	0	0		A	44331484	A	A	44331484	2	1	70	1	0	0	0	0	0	0	0	1	558	1049	37	1		1	ALX4	11	44331484	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	10958104	44331484	90675032	560	46576											
LRP4	4038	broad.mit.edu	37	chr11	46907918	46907918	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccctgctgatggtatcAgtgctgacatctgtccagta	7	13	11	10	0	2	2	1	2	1	0	3	2	3	2	2	2	2	4	2	2	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:46907918A>G	uc001ndn.3	-	17	2528	c.2382T>C	c.(2380-2382)ACT>ACC	p.T794T		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	794	Extracellular (Potential).|LDL-receptor class B 6.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		TGATGGTATCAGTGCTGACAT	0.597													4	9					0	0	1	0	0		G	46907918	G	G	46907918	2	3	70	1	0	0	0	0	0	0	0	1	8977	175	7	3		3	LRP4	11	46907918	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	2576434	46907918	88098598	561	46577											
KBTBD4	55709	broad.mit.edu	37	chr11	47598987	47598987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgatatctgtgagtaagcGgtggggcaagtggagaaatt	12	10	16	3	1	1	3	0	2	1	1	1	5	1	3	0	4	1	2	0	4	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:47598987G>A	uc001nfx.2	-	2	736	c.565C>T	c.(565-567)CGC>TGC	p.R189C	NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_Missense_Mutation_p.R214C|KBTBD4_uc001nfz.2_Missense_Mutation_p.R205C|KBTBD4_uc001nfy.2_Missense_Mutation_p.R189C|NDUFS3_uc010rhn.1_5'Flank|NDUFS3_uc001nga.2_5'Flank	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4	189	BACK.									ovary(1)|central_nervous_system(1)	2						GTGAGTAAGCGGTGGGGCAAG	0.502													27	71					0	0	1	0	0		A	47598987	A	A	47598987	3	1	70	1	0	0	0	0	1	0	0	0	8011	1116	39	1	1003	1	KBTBD4	11	47598987	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	691069	47598987	87407529	562	46578											
OR5L1	219437	broad.mit.edu	37	chr11	55579083	55579083	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaacctgggcatgattgcActgattcaggtcagctctcg	8	10	11	12	1	3	2	2	2	1	0	4	2	3	2	2	2	3	3	2	2	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:55579083A>G	uc001nhw.1	+	1	141	c.141A>G	c.(139-141)GCA>GCG	p.A47A		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	47	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				GCATGATTGCACTGATTCAGG	0.483													108	170					0	0	1	0	0		G	55579083	G	G	55579083	2	3	70	1	0	0	0	0	0	0	0	1	11189	146	6	3		3	OR5L1	11	55579083	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	7980096	55579083	79427433	563	46579											
OR8I2	120586	broad.mit.edu	37	chr11	55861366	55861366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgtagatacattcggcacaGaaatggtgagctttgtctta	11	13	11	6	1	1	3	0	1	1	2	2	3	1	3	0	2	2	3	0	2	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:55861366G>A	uc010rix.1	+	1	583	c.583G>A	c.(583-585)GAA>AAA	p.E195K		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	195	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					ATTCGGCACAGAAATGGTGAG	0.428													38	108					0	0	1	0	0		A	55861366	A	A	55861366	3	1	70	1	0	0	0	0	1	0	0	0	11259	943	33	4	585	4	OR8I2	11	55861366	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	282283	55861366	79145150	564	46580											
DTX4	23220	broad.mit.edu	37	chr11	58949756	58949756	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcgaggcccactgaagacCgccccatcgcaggtgatccg	9	6	11	15	4	0	3	0	2	0	1	3	4	1	3	5	2	0	1	5	2	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:58949756C>T	uc001nns.2	+	2	1013	c.756C>T	c.(754-756)ACC>ACT	p.T252T	DTX4_uc001nnr.2_Silent_p.T146T	NM_015177	NP_055992	Q9Y2E6	DTX4_HUMAN	deltex 4 homolog	252					Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)				CACTGAAGACCGCCCCATCGC	0.637													10	16					0	0	1	0	0		T	58949756	T	T	58949756	2	4	70	1	0	0	0	0	0	0	0	1	4803	639	23	1		1	DTX4	11	58949756	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3088390	58949756	76056760	565	46581											
AHNAK	79026	broad.mit.edu	37	chr11	62291883	62291883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attaagcttaggaccggaaaCgtccacttctgggcccttta	10	11	9	11	2	1	0	0	0	1	0	2	2	2	2	3	3	2	1	3	3	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:62291883C>T	uc001ntl.2	-	5	10306	c.10006G>A	c.(10006-10008)GTT>ATT	p.V3336I	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3336					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GGACCGGAAACGTCCACTTCT	0.433													27	45					0	0	1	0	0		T	62291883	T	T	62291883	3	4	70	1	0	0	0	0	1	0	0	0	414	536	19	1	7786	1	AHNAK	11	62291883	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3342127	62291883	72714633	566	46582											
TUT1	64852	broad.mit.edu	37	chr11	62343652	62343652	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtgcctgaccctcccgcagGgacagcagggagccacgaag	10	3	14	14	2	0	1	0	1	0	0	1	4	1	3	4	2	3	2	4	2	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:62343652G>T	uc001nto.2	-	9	1691	c.1653C>A	c.(1651-1653)TCC>TCA	p.S551S	EEF1G_uc001ntm.1_5'Flank|EEF1G_uc010rlw.1_5'Flank|TUT1_uc001ntp.1_Silent_p.S47S	NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	513	PAP-associated.				mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						CCTCCCGCAGGGACAGCAGGG	0.617													8	20					0.0477658	0.0479786	1	1	0		T	62343652	T	T	62343652	2	4	70	1	0	0	0	0	0	0	0	1	16806	1219	43	5		5	TUT1	11	62343652	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	51769	62343652	72662864	567	46583											
UBXN1	51035	broad.mit.edu	37	chr11	62445075	62445075	+	Frame_Shift_Del	DEL	G	-	-																															gacctggctctggtgccactGggggtggctgagagcccaca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:62445075delG	uc001nul.1	-	7	698	c.566delC	c.(565-567)CCAfs	p.P189fs	UBXN1_uc001nuj.2_Frame_Shift_Del_p.P189fs|UBXN1_uc001num.1_Frame_Shift_Del_p.P185fs|UBXN1_uc001nuk.2_3'UTR|UBXN1_uc010rme.1_3'UTR	NM_015853	NP_056937	Q04323	UBXN1_HUMAN	UBX domain protein 1	189	Interaction with BRCA1.				negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process	cytoplasm	ATPase binding|K6-linked polyubiquitin binding				0						TGGTGCCACTGGGGGTGGCTG	0.532													30	61	---	---	---	---						.	-	62445075	-	-	62445075	7	5	70	1	0	1	0	1	0	0	0	0	16937	1348	47	0	380	0	UBXN1	11	62445075	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	101423	62445075	72561441	568	46584											
NRXN2	9379	broad.mit.edu	37	chr11	64410147	64410147	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctcggccgcccccagcagCaacagcagcaacagcggcaa	11	1	10	19	3	0	0	0	0	0	0	1	0	0	0	4	2	7	5	4	2	3	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:64410147C>A	uc001oap.2	-	2	640	c.129G>T	c.(127-129)TTG>TTT	p.L43F	NRXN2_uc001oar.2_Intron|NRXN2_uc001oas.2_Intron|NRXN2_uc001oaq.2_Intron	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	43					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CCCCcagcagcaacagcagca	0.388													5	3					0.184627	0.184627	1	1	0		A	64410147	A	A	64410147	3	1	70	1	0	0	0	0	1	0	0	0	10685	709	25	5	1899	5	NRXN2	11	64410147	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1965072	64410147	70596369	569	46585											
ATG2A	23130	broad.mit.edu	37	chr11	64681811	64681811	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctcgccctgccctcaccTggaccccggcggggctgcaa	5	5	12	19	3	1	0	1	0	0	0	2	1	1	1	6	4	3	2	6	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:64681811T>C	uc001obx.2	-	2	448	c.333A>G	c.(331-333)CCA>CCG	p.P111P	ATG2A_uc010rnt.1_Silent_p.P111P	NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	111							protein binding			ovary(1)|central_nervous_system(1)	2						TGCCCTCACCTGGACCCCGGC	0.706													5	4					0	0	1	0	0		C	64681811	C	C	64681811	2	2	70	1	0	0	0	0	0	0	0	1	1094	1594	55	3		3	ATG2A	11	64681811	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	271664	64681811	70324705	570	46586											
PPP2R5B	5526	broad.mit.edu	37	chr11	64699315	64699315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttttaagcaggtggctcGctgtgtttccagcccccatt	5	14	9	13	1	0	0	0	0	0	0	2	0	1	0	4	2	2	4	4	2	1	5	rs141499148		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:64699315G>A	uc001oby.2	+	11	1676	c.1091G>A	c.(1090-1092)CGC>CAC	p.R364H	PPP2R5B_uc001obz.2_Missense_Mutation_p.R364H	NM_006244	NP_006235	Q15173	2A5B_HUMAN	beta isoform of regulatory subunit B56, protein	364					signal transduction	cytoplasm|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(2)	2						CAGGTGGCTCGCTGTGTTTCC	0.557													25	47					0	0	1	0	0		A	64699315	A	A	64699315	3	1	70	1	0	0	0	0	1	0	0	0	12415	1087	38	1	1129	1	PPP2R5B	11	64699315	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	17504	64699315	70307201	571	46587											
EFEMP2	30008	broad.mit.edu	37	chr11	65637701	65637701	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtagcggtagcggcactcGtctatgtctagggatagagg	9	9	15	8	3	2	1	0	0	2	1	3	2	2	2	0	4	2	3	0	4	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:65637701G>A	uc001ofy.3	-	6	692	c.498C>T	c.(496-498)GAC>GAT	p.D166D	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Silent_p.D166D	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	166	EGF-like 3; calcium-binding (Potential).				blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		AGCGGCACTCGTCTATGTCTA	0.657													19	26					0	0	1	0	0		A	65637701	A	A	65637701	2	1	70	1	0	0	0	0	0	0	0	1	4948	1136	40	1		1	EFEMP2	11	65637701	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	938386	65637701	69368815	572	46588											
KDM2A	22992	broad.mit.edu	37	chr11	66999252	66999252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgactgtagccggggctccCacaatggacaagtgtgggat	9	8	14	10	1	0	1	0	1	0	0	1	3	1	3	2	4	1	2	2	4	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:66999252C>T	uc001ojw.2	+	12	2164	c.1300C>T	c.(1300-1302)CAC>TAC	p.H434Y	KDM2A_uc001ojx.2_RNA|KDM2A_uc001ojy.2_Missense_Mutation_p.H128Y	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	434					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						CCGGGGCTCCCACAATGGACA	0.522													19	53					0	0	1	0	0		T	66999252	T	T	66999252	3	4	70	1	0	0	0	0	1	0	0	0	8140	594	21	4	1342	4	KDM2A	11	66999252	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1361551	66999252	68007264	573	46589											
ANKRD13D	338692	broad.mit.edu	37	chr11	67066574	67066575	+	Frame_Shift_Del	DEL	TG	-	-																															cggtctgagaagatggaaacTgttagcggctacgaggccaa																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:67066574_67066575delTG	uc001okc.1	+	8	1027_1028	c.516_517delTG	c.(514-519)ACTGTTfs	p.T172fs	ANKRD13D_uc001okd.1_Frame_Shift_Del_p.T259fs|ANKRD13D_uc001oke.1_Frame_Shift_Del_p.T172fs|ANKRD13D_uc001okg.1_5'UTR|ANKRD13D_uc001okh.1_5'UTR|ANKRD13D_uc001oki.1_5'Flank	NM_207354	NP_997237	Q6ZTN6	AN13D_HUMAN	ankyrin repeat domain 13 family, member D	172_173										ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			AGATGGAAACTGTTAGCGGCTA	0.584													31	55	---	---	---	---						.	-	67066575	-	-	67066574	7	5	70	1	0	1	0	1	0	0	0	0	644	1567	55	0	803	0	ANKRD13D	11	67066574	Frame_Shift_Del	DEL	TG	TCGA-BR-8368-01A-11D-2340-08	67322	67066574	67939942	574	46590											
SSH3	54961	broad.mit.edu	37	chr11	67076990	67076990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccgcactggaaggagaCgcaccgcttcattgaggctg	8	7	14	12	3	1	2	1	1	0	1	1	4	1	3	2	3	1	5	2	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:67076990C>T	uc001okj.2	+	11	1362	c.1184C>T	c.(1183-1185)ACG>ATG	p.T395M	SSH3_uc001okk.2_RNA|SSH3_uc001okl.2_Missense_Mutation_p.T249M	NM_017857	NP_060327	Q8TE77	SSH3_HUMAN	slingshot homolog 3	395	Tyrosine-protein phosphatase.				regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton|nucleus	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			TGGAAGGAGACGCACCGCTTC	0.637													17	37					0	0	1	0	0		T	67076990	T	T	67076990	3	4	70	1	0	0	0	0	1	0	0	0	15211	536	19	1	1226	1	SSH3	11	67076990	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	10416	67076990	67929526	575	46591											
LRP5	4041	broad.mit.edu	37	chr11	68216313	68216313	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatggcgcccccgacgacGccctgcagcaccgacgtgtg	7	4	14	16	6	0	0	0	0	0	0	0	4	0	1	4	2	2	2	4	2	1	0	rs139974816	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:68216313G>A	uc001ont.2	+	23	4698	c.4623G>A	c.(4621-4623)ACG>ACA	p.T1541T	LRP5_uc009ysg.2_Silent_p.T951T	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1541	PPPSP motif B.|Cytoplasmic (Potential).|Pro-rich.				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CCCCGACGACGCCCTGCAGCA	0.612													11	28					0	0	1	0	0		A	68216313	A	A	68216313	2	1	70	1	0	0	0	0	0	0	0	1	8978	1074	38	1		1	LRP5	11	68216313	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1139323	68216313	66790203	576	46592											
CPT1A	1374	broad.mit.edu	37	chr11	68579964	68579964	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacgaggggtcgatcttggcGtacatcgttgtcatcacgcc	8	10	12	11	5	3	0	2	0	1	0	5	2	3	0	1	3	2	2	1	3	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:68579964G>A	uc001oog.3	-	3	392	c.222C>T	c.(220-222)TAC>TAT	p.Y74Y	CPT1A_uc001oof.3_Silent_p.Y74Y|CPT1A_uc009ysj.2_Silent_p.Y74Y	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	74	Mitochondrial intermembrane (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	CGATCTTGGCGTACATCGTTG	0.512													34	51					0	0	1	0	0		A	68579964	A	A	68579964	2	1	70	1	0	0	0	0	0	0	0	1	3834	1140	40	1		1	CPT1A	11	68579964	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	363651	68579964	66426552	577	46593											
P2RY2	5029	broad.mit.edu	37	chr11	72945613	72945613	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accggtgtctgggcgtcttaCgacctctgcgctccctgcgc	3	10	12	16	5	3	0	0	0	3	0	4	1	4	0	3	2	3	1	3	2	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:72945613C>T	uc001otj.2	+	3	742	c.409C>T	c.(409-411)CGA>TGA	p.R137*	P2RY2_uc001otk.2_Nonsense_Mutation_p.R137*|P2RY2_uc001otl.2_Nonsense_Mutation_p.R137*	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	137	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled	p.R137Q(1)		ovary(2)|lung(1)|skin(1)	4					Suramin(DB04786)	GGGCGTCTTACGACCTCTGCG	0.672													9	79					0	0	1	0	0		T	72945613	T	T	72945613	4	4	70	1	0	0	0	0	0	1	0	0	11371	528	19	1	411	1	P2RY2	11	72945613	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4365649	72945613	62060903	578	46594											
ARHGEF17	9828	broad.mit.edu	37	chr11	73073593	73073593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacgctcgcggagccggggCcgcagccctgccttcacatc	5	5	13	18	6	1	0	1	0	0	0	3	2	1	1	4	3	3	2	4	3	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:73073593C>T	uc001otu.2	+	14	4831	c.4810C>T	c.(4810-4812)CCG>TCG	p.P1604S		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1604					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						GGAGCCGGGGCCGCAGCCCTG	0.721													7	20					0	0	1	0	0		T	73073593	T	T	73073593	3	4	70	1	0	0	0	0	1	0	0	0	900	739	26	2	4864	2	ARHGEF17	11	73073593	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	127980	73073593	61932923	579	46595											
C2CD3	26005	broad.mit.edu	37	chr11	73760408	73760408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgaggtctccactccacGccttgcttgcctttcttctt	3	18	6	14	1	3	1	0	1	3	0	5	1	4	1	4	1	2	1	4	1	0	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:73760408G>A	uc001ouu.2	-	27	5562	c.5335C>T	c.(5335-5337)CGT>TGT	p.R1779C	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1779						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					TCCACTCCACGCCTTGCTTGC	0.438													13	33					0	0	1	0	0		A	73760408	A	A	73760408	3	1	70	1	0	0	0	0	1	0	0	0	2157	1087	38	1	576	1	C2CD3	11	73760408	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	686815	73760408	61246108	580	46596											
DLG2	1740	broad.mit.edu	37	chr11	83673939	83673939	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatctgacctggtgtagtcGtcgtcaacaagcatgtgctt	9	13	10	9	2	2	1	1	1	1	0	4	1	2	1	1	1	3	3	1	1	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:83673939G>A	uc001paj.2	-	9	1317	c.1014C>T	c.(1012-1014)GAC>GAT	p.D338D	DLG2_uc001pai.2_Silent_p.D287D|DLG2_uc010rsy.1_Silent_p.D305D|DLG2_uc010rsz.1_Silent_p.D338D|DLG2_uc010rta.1_Silent_p.D338D|DLG2_uc001pak.2_Silent_p.D443D|DLG2_uc010rtb.1_Silent_p.D305D|DLG2_uc001pal.1_Silent_p.D338D|DLG2_uc001pam.1_Silent_p.D377D	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	338						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				TGGTGTAGTCGTCGTCAACAA	0.428													45	98					0	0	1	0	0		A	83673939	A	A	83673939	2	1	70	1	0	0	0	0	0	0	0	1	4561	1136	40	1		1	DLG2	11	83673939	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	9913531	83673939	51332577	581	46597											
DLG2	1740	broad.mit.edu	37	chr11	84996295	84996295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgaagtctgtcatggcacGgagcaagaagggatgtcttc	10	11	13	7	1	3	2	1	1	2	1	4	4	3	4	0	3	1	2	0	3	3	2	rs148579957		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:84996295G>A	uc001pak.2	-	4	467	c.155C>T	c.(154-156)CCG>CTG	p.P52L		NM_001142699	NP_001136171	Q15700	DLG2_HUMAN	chapsyn-110 isoform 1	Error:Variant_position_missing_in_Q15700_after_alignment						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				GTCATGGCACGGAGCAAGAAG	0.378													38	97					0	0	1	0	0		A	84996295	A	A	84996295	3	1	70	1	0	0	0	0	1	0	0	0	4561	1116	39	1	3077	1	DLG2	11	84996295	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1322356	84996295	50010221	582	46598											
FZD4	8322	broad.mit.edu	37	chr11	86662986	86662986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggcctacagtcagcctgAcaatataagcaatgctataa	14	8	7	12	1	1	1	1	1	0	0	1	1	1	1	3	1	4	2	3	1	7	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:86662986A>G	uc001pce.2	-	2	1118	c.812T>C	c.(811-813)GTC>GCC	p.V271A	PRSS23_uc001pcc.1_RNA	NM_012193	NP_036325	Q9ULV1	FZD4_HUMAN	frizzled 4 precursor	271	Helical; Name=2; (Potential).				canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|negative regulation of cell-substrate adhesion|neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|progesterone secretion|regulation of vascular endothelial growth factor receptor signaling pathway|substrate adhesion-dependent cell spreading|vasculogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cell projection|cell surface|cytoplasm	cytokine binding|G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			large_intestine(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				AGTCAGCCTGACAATATAAGC	0.428													16	25					0	0	1	0	0		G	86662986	G	G	86662986	3	3	70	1	0	0	0	0	1	0	0	0	6146	275	10	3	805	3	FZD4	11	86662986	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	1666691	86662986	48343530	583	46599											
UBTFL1	642623	broad.mit.edu	37	chr11	89819423	89819423	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtccagactttccaaagagGccccttactgcttacaatcg	10	10	8	13	1	0	2	0	0	0	2	3	2	2	2	4	2	3	1	4	2	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:89819423G>C	uc010rub.1	+	1	306	c.306G>C	c.(304-306)AGG>AGC	p.R102S		NM_001143975	NP_001137447	P0CB47	UBFL1_HUMAN	upstream binding transcription factor, RNA	102	HMG box 1.				multicellular organismal development	cytoplasm|nucleus	DNA binding				0						TTCCAAAGAGGCCCCTTACTG	0.438													13	21					0	0	1	0	0		C	89819423	C	C	89819423	3	2	70	1	0	0	0	0	1	0	0	0	16936	1194	42	5	308	5	UBTFL1	11	89819423	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3156437	89819423	45187093	584	46600											
FAT3	120114	broad.mit.edu	37	chr11	92257897	92257897	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgttgttccactctactcCaccattgaggtctacattga	8	13	8	12	1	2	2	0	2	2	0	4	2	4	2	3	2	2	2	3	2	2	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:92257897C>A	uc001pdj.3	+	2	3407	c.3390C>A	c.(3388-3390)TCC>TCA	p.S1130S		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1130	Cadherin 10.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CACTCTACTCCACCATTGAGG	0.483										TCGA Ovarian(4;0.039)			25	24					7.92952e-12	8.39115e-12	1	1	0		A	92257897	A	A	92257897	2	1	70	1	0	0	0	0	0	0	0	1	5705	581	21	5		5	FAT3	11	92257897	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2438474	92257897	42748619	585	46601											
PANX1	24145	broad.mit.edu	37	chr11	93912967	93912967	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagtttgtgtgcagcatcAaatcagggatcctgagaaac	13	9	11	8	1	2	1	2	1	0	1	3	4	3	2	1	1	3	3	1	1	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:93912967A>G	uc001per.2	+	4	1130	c.745A>G	c.(745-747)AAA>GAA	p.K249E	PANX1_uc001peq.2_Missense_Mutation_p.K249E	NM_015368	NP_056183	Q96RD7	PANX1_HUMAN	pannexin 1	249	Extracellular (Potential).				positive regulation of interleukin-1 beta secretion|protein hexamerization|synaptic transmission	bleb|endoplasmic reticulum membrane|gap junction|integral to membrane	calcium channel activity|gap junction hemi-channel activity|leak channel activity|receptor binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GTGCAGCATCAAATCAGGGAT	0.498													58	84					0	0	1	0	0		G	93912967	G	G	93912967	3	3	70	1	0	0	0	0	1	0	0	0	11439	131	5	3	759	3	PANX1	11	93912967	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	1655070	93912967	41093549	586	46602											
GUCY1A2	2977	broad.mit.edu	37	chr11	106681137	106681137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catccaacttgtccacacatGgagagcccaaaaataaaatg	17	7	6	11	0	0	1	0	0	0	1	2	2	2	1	3	1	2	0	3	1	5	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:106681137G>A	uc001pjg.1	-	5	1664	c.1274C>T	c.(1273-1275)CCA>CTA	p.P425L	GUCY1A2_uc010rvo.1_Missense_Mutation_p.P446L|GUCY1A2_uc009yxn.1_Missense_Mutation_p.P425L	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	425					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		GTCCACACATGGAGAGCCCAA	0.433													9	69					0	0	1	0	0		A	106681137	A	A	106681137	3	1	70	1	0	0	0	0	1	0	0	0	6909	1348	47	4	940	4	GUCY1A2	11	106681137	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	12768170	106681137	28325379	587	46603											
ATM	472	broad.mit.edu	37	chr11	108178656	108178656	+	Frame_Shift_Del	DEL	A	-	-																															ttttccgatgctgtttggatAaaaaatcacaaagaacaatg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:108178656delA	uc001pkb.1	+	38	6092	c.5707delA	c.(5707-5709)AAAfs	p.K1903fs	ATM_uc009yxr.1_Frame_Shift_Del_p.K1903fs|ATM_uc001pke.1_Frame_Shift_Del_p.K555fs|ATM_uc001pkg.1_Frame_Shift_Del_p.K260fs|ATM_uc009yxt.1_Intron	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1903					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		CTGTTTGGATAAAAAATCACA	0.388			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			19	37	---	---	---	---						.	-	108178656	-	-	108178656	7	5	70	1	0	1	0	1	0	0	0	0	1110	363	13	0	5853	0	ATM	11	108178656	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	1497519	108178656	26827860	588	46604											
EXPH5	23086	broad.mit.edu	37	chr11	108409862	108409862	+	Frame_Shift_Del	DEL	T	-	-																															gggaagaaaaaggtgtcggcTttttttgattagttacattt																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:108409862delT	uc001pkk.2	-	3	443	c.332delA	c.(331-333)AAGfs	p.K111fs	EXPH5_uc010rvy.1_5'Flank|EXPH5_uc010rvz.1_5'Flank|EXPH5_uc010rwa.1_Frame_Shift_Del_p.K35fs	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	111					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		AGGTGTCGGCTTTTTTTGATT	0.348													46	91	---	---	---	---						.	-	108409862	-	-	108409862	7	5	70	1	0	1	0	1	0	0	0	0	5330	1609	56	0	5653	0	EXPH5	11	108409862	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	231206	108409862	26596654	589	46605											
CADM1	23705	broad.mit.edu	37	chr11	115102133	115102133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctggcttgctggccatagCagtgcagttgacttcaatct	7	12	12	10	0	2	1	1	1	1	0	2	1	2	1	1	3	3	6	1	3	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:115102133C>T	uc001ppi.3	-	4	631	c.502G>A	c.(502-504)GCT>ACT	p.A168T	CADM1_uc001ppf.3_Missense_Mutation_p.A168T|CADM1_uc001ppk.3_Missense_Mutation_p.A168T|CADM1_uc001ppj.3_Missense_Mutation_p.A168T|CADM1_uc001ppl.2_Missense_Mutation_p.A168T	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	168	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		CTGGCCATAGCAGTGCAGTTG	0.463													29	69					0	0	1	0	0		T	115102133	T	T	115102133	3	4	70	1	0	0	0	0	1	0	0	0	2569	710	25	2	854	2	CADM1	11	115102133	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	6692271	115102133	19904383	590	46606											
RNF214	257160	broad.mit.edu	37	chr11	117152789	117152789	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcctcaccccttcctggCtcccatggcagaaatagccc	7	9	6	19	0	1	1	1	0	0	1	4	1	4	1	7	2	1	2	7	2	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:117152789C>A	uc001pqt.2	+	11	1560	c.1515C>A	c.(1513-1515)GGC>GGA	p.G505G	RNF214_uc001pqu.2_Silent_p.G505G|RNF214_uc010rxf.1_Silent_p.G350G	NM_207343	NP_997226	Q8ND24	RN214_HUMAN	ring finger protein 214	505	Pro-rich.						zinc ion binding				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.88e-05)|Epithelial(105;0.000397)|all cancers(92;0.00258)		CCCTTCCTGGCTCCCATGGCA	0.642													79	144					1.8615e-32	2.04874e-32	1	1	0		A	117152789	A	A	117152789	2	1	70	1	0	0	0	0	0	0	0	1	13503	784	28	5		5	RNF214	11	117152789	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2050656	117152789	17853727	591	46607											
NLRX1	79671	broad.mit.edu	37	chr11	119053036	119053036	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagctgcccgggagcaccCttccctggaactgctacagt	8	7	11	15	1	0	1	0	0	0	1	1	3	1	3	3	2	6	3	3	2	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:119053036C>A	uc001pvu.2	+	9	2803	c.2588C>A	c.(2587-2589)CCT>CAT	p.P863H	NLRX1_uc001pvv.2_Missense_Mutation_p.P863H|NLRX1_uc001pvw.2_Missense_Mutation_p.P863H|NLRX1_uc001pvx.2_Missense_Mutation_p.P863H	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	863	LRR 7.|Required for the repression of MAVS- induced interferon signaling.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		CGGGAGCACCCTTCCCTGGAA	0.637													12	55					4.3838e-07	4.54094e-07	1	1	0		A	119053036	A	A	119053036	3	1	70	1	0	0	0	0	1	0	0	0	10504	681	24	5	2618	5	NLRX1	11	119053036	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1900247	119053036	15953480	592	46608											
USP2	9099	broad.mit.edu	37	chr11	119243941	119243941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttaccacccccagtgatgtCgggtctcagcagggggcggc	6	7	14	14	2	1	1	1	1	1	0	3	1	1	1	3	4	2	1	3	4	1	1	rs113893557		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:119243941C>T	uc001pwm.3	-	2	545	c.250G>A	c.(250-252)GAC>AAC	p.D84N	USP2_uc001pwn.3_Intron	NM_004205	NP_004196	O75604	UBP2_HUMAN	ubiquitin specific peptidase 2 isoform a	84	Necessary for interaction with MDM4.				cell cycle|muscle organ development|negative regulation of transcription from RNA polymerase II promoter|positive regulation of mitotic cell cycle|protein deubiquitination|protein stabilization|ubiquitin-dependent protein catabolic process	nucleus|perinuclear region of cytoplasm	cyclin binding|cysteine-type endopeptidase activity|metal ion binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity			ovary(2)|urinary_tract(1)|skin(1)	4		all_hematologic(192;4.65e-05)|Breast(348;0.0101)|all_neural(223;0.0218)|Medulloblastoma(222;0.0425)|Renal(330;0.157)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.000513)|Colorectal(284;0.0116)|Lung(307;0.0853)|LUSC - Lung squamous cell carcinoma(976;0.0889)		CCAGTGATGTCGGGTCTCAGC	0.662													37	67					0	0	1	0	0		T	119243941	T	T	119243941	3	4	70	1	0	0	0	0	1	0	0	0	17077	884	31	1	1766	1	USP2	11	119243941	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	190905	119243941	15762575	593	46609											
SORL1	6653	broad.mit.edu	37	chr11	121367679	121367679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacagatttcttccagtcccGggaaaaccaggaagtgatcc	12	9	9	11	1	1	2	0	1	1	1	4	4	4	4	4	2	2	0	4	2	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:121367679G>A	uc001pxx.2	+	6	940	c.860G>A	c.(859-861)CGG>CAG	p.R287Q		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	287	Extracellular (Potential).				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		TTCCAGTCCCGGGAAAACCAG	0.438													22	45					0	0	1	0	0		A	121367679	A	A	121367679	3	1	70	1	0	0	0	0	1	0	0	0	14959	1116	39	1	882	1	SORL1	11	121367679	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2123738	121367679	13638837	594	46610											
BSX	390259	broad.mit.edu	37	chr11	122849972	122849972	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctcctcccgcccacctgCgtctcggacaggctgagggc	4	7	11	19	3	2	1	0	1	2	0	5	2	3	2	5	3	1	1	5	3	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:122849972C>T	uc010rzs.1	-	2	456	c.456G>A	c.(454-456)ACG>ACA	p.T152T		NM_001098169	NP_001091639	Q3C1V8	BSH_HUMAN	brain specific homeobox	152	Homeobox.										0		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0361)		CGCCCACCTGCGTCTCGGACA	0.592													23	48					0	0	1	0	0		T	122849972	T	T	122849972	2	4	70	1	0	0	0	0	0	0	0	1	1538	755	27	1		1	BSX	11	122849972	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1482293	122849972	12156544	595	46611											
ST14	6768	broad.mit.edu	37	chr11	130078396	130078396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaggagcgcaggctcaagCgcatcatctcccaccccttc	8	7	9	17	2	3	0	2	0	1	0	5	1	3	1	3	2	3	4	3	2	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:130078396C>T	uc001qfw.2	+	17	2279	c.2086C>T	c.(2086-2088)CGC>TGC	p.R696C		NM_021978	NP_068813	Q9Y5Y6	ST14_HUMAN	matriptase	696	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(2)|skin(2)|central_nervous_system(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000602)|Breast(109;0.000962)|all_lung(97;0.00126)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0183)|Lung(977;0.228)	Urokinase(DB00013)	CAGGCTCAAGCGCATCATCTC	0.632													12	27					0	0	1	0	0		T	130078396	T	T	130078396	3	4	70	1	0	0	0	0	1	0	0	0	15236	768	27	1	2152	1	ST14	11	130078396	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	7228424	130078396	4928120	596	46612											
OPCML	4978	broad.mit.edu	37	chr11	132399028	132399028	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacacagcagggtcacactGcttccctcattcacagtgat	11	9	8	13	0	3	2	3	1	0	1	4	2	4	2	1	1	2	2	1	1	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr11:132399028G>A	uc001qgs.2	-	3	503	c.453C>T	c.(451-453)AGC>AGT	p.S151S	OPCML_uc001qgu.2_Silent_p.S144S|OPCML_uc010sck.1_Silent_p.S151S|OPCML_uc001qgt.2_Silent_p.S151S|OPCML_uc010scl.1_Silent_p.S110S	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	151	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		GGGTCACACTGCTTCCCTCAT	0.468													14	36					0	0	1	0	0		A	132399028	A	A	132399028	2	1	70	1	0	0	0	0	0	0	0	1	10893	1310	46	2		2	OPCML	11	132399028	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2320632	132399028	2607488	597	46613											
WNK1	65125	broad.mit.edu	37	chr12	992975	992975	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaacaaccaattcctgcGtcttccatgccacagcaaat	13	10	4	14	1	2	0	1	0	1	0	4	0	4	0	4	0	5	1	4	0	4	3	rs147752204	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:992975G>A	uc001qio.3	+	17	4206	c.3699G>A	c.(3697-3699)GCG>GCA	p.A1233A	WNK1_uc001qip.3_Silent_p.A986A|WNK1_uc001qir.3_Silent_p.A406A	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1233					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CAATTCCTGCGTCTTCCATGC	0.299													18	48					0	0	1	0	0		A	992975	A	A	992975	2	1	70	1	0	0	0	0	0	0	0	1	17403	1132	40	1		1	WNK1	12	992975	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08		992975	132858920	598	46614											
CACNA1C	775	broad.mit.edu	37	chr12	2714868	2714868	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggttcagtgtgtgtttgtCgccatccggaccatcgggaa	6	12	14	9	3	1	0	1	0	0	0	4	2	2	2	3	3	0	2	3	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:2714868C>T	uc009zdu.1	+	25	3445	c.3132C>T	c.(3130-3132)GTC>GTT	p.V1044V	CACNA1C_uc009zdv.1_Silent_p.V1021V|CACNA1C_uc001qkb.2_Silent_p.V1024V|CACNA1C_uc001qkc.2_Silent_p.V1024V|CACNA1C_uc001qke.2_Silent_p.V1024V|CACNA1C_uc001qkf.2_Silent_p.V1024V|CACNA1C_uc001qjz.2_Silent_p.V1024V|CACNA1C_uc001qkd.2_Silent_p.V1024V|CACNA1C_uc001qkg.2_Silent_p.V1024V|CACNA1C_uc009zdw.1_Silent_p.V1024V|CACNA1C_uc001qkh.2_Silent_p.V1024V|CACNA1C_uc001qkl.2_Silent_p.V1044V|CACNA1C_uc001qkn.2_Silent_p.V1024V|CACNA1C_uc001qko.2_Silent_p.V1044V|CACNA1C_uc001qkp.2_Silent_p.V1024V|CACNA1C_uc001qkr.2_Silent_p.V1024V|CACNA1C_uc001qku.2_Silent_p.V1024V|CACNA1C_uc001qkq.2_Silent_p.V1024V|CACNA1C_uc001qks.2_Silent_p.V1024V|CACNA1C_uc001qkt.2_Silent_p.V1024V|CACNA1C_uc001qka.1_Silent_p.V559V|CACNA1C_uc001qki.1_Silent_p.V760V|CACNA1C_uc001qkj.1_Silent_p.V760V|CACNA1C_uc001qkk.1_Silent_p.V760V|CACNA1C_uc001qkm.1_Silent_p.V760V	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1044	Cytoplasmic (Potential).|III.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GTGTGTTTGTCGCCATCCGGA	0.587													21	30					0	0	1	0	0		T	2714868	T	T	2714868	2	4	70	1	0	0	0	0	0	0	0	1	2543	871	31	1		1	CACNA1C	12	2714868	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1721893	2714868	131137027	599	46615											
CACNA1C	775	broad.mit.edu	37	chr12	2797835	2797835	+	Frame_Shift_Del	DEL	G	-	-																															ctgagaccacccccggtggcGggggcagcagcgccgcccgg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:2797835delG	uc009zdu.1	+	49	6569	c.6256delG	c.(6256-6258)GGGfs	p.G2086fs	CACNA1C_uc009zdv.1_Frame_Shift_Del_p.G2000fs|CACNA1C_uc001qkb.2_Frame_Shift_Del_p.G2003fs|CACNA1C_uc001qkc.2_Frame_Shift_Del_p.G2022fs|CACNA1C_uc001qke.2_Frame_Shift_Del_p.G1992fs|CACNA1C_uc001qkf.2_Frame_Shift_Del_p.G2011fs|CACNA1C_uc001qjz.2_Frame_Shift_Del_p.G2003fs|CACNA1C_uc001qkd.2_Frame_Shift_Del_p.G2022fs|CACNA1C_uc001qkg.2_Frame_Shift_Del_p.G2009fs|CACNA1C_uc009zdw.1_Frame_Shift_Del_p.G2044fs|CACNA1C_uc001qkh.2_Frame_Shift_Del_p.G2011fs|CACNA1C_uc001qkl.2_Frame_Shift_Del_p.G2051fs|CACNA1C_uc001qkn.2_Frame_Shift_Del_p.G2003fs|CACNA1C_uc001qko.2_Frame_Shift_Del_p.G2023fs|CACNA1C_uc001qkp.2_Frame_Shift_Del_p.G2003fs|CACNA1C_uc001qkr.2_Frame_Shift_Del_p.G2020fs|CACNA1C_uc001qku.2_Frame_Shift_Del_p.G2038fs|CACNA1C_uc001qkq.2_Frame_Shift_Del_p.G2031fs|CACNA1C_uc001qks.2_Frame_Shift_Del_p.G2003fs|CACNA1C_uc001qkt.2_Frame_Shift_Del_p.G2022fs|CACNA1C_uc001qki.1_Frame_Shift_Del_p.G1810fs|CACNA1C_uc001qkj.1_Frame_Shift_Del_p.G1774fs|CACNA1C_uc001qkk.1_Frame_Shift_Del_p.G1739fs|CACNA1C_uc001qkm.1_Frame_Shift_Del_p.G1799fs|CACNA1C_uc010sea.1_Frame_Shift_Del_p.G694fs|uc001qkx.1_Intron|CACNA1C_uc001qky.1_Frame_Shift_Del_p.G321fs	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	2086	Poly-Gly.|Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CCCCGGTGGCGGGGGCAGCAG	0.706													15	27	---	---	---	---						.	-	2797835	-	-	2797835	7	5	70	1	0	1	0	1	0	0	0	0	2543	1116	39	0	6898	0	CACNA1C	12	2797835	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	82967	2797835	131054060	600	46616											
PRMT8	56341	broad.mit.edu	37	chr12	3678670	3678670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggcttatgtttccagacCgggcagctttgtacgtggta	7	12	14	8	2	0	1	0	0	0	1	1	2	1	1	2	3	2	6	2	3	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:3678670C>T	uc001qmf.2	+	6	1019	c.652C>T	c.(652-654)CGG>TGG	p.R218W	PRMT8_uc009zed.2_Missense_Mutation_p.R209W|PRMT8_uc009zee.1_RNA|PRMT8_uc001qmg.2_Missense_Mutation_p.R32W	NM_019854	NP_062828	Q9NR22	ANM8_HUMAN	HMT1 hnRNP methyltransferase-like 4	218					regulation of protein binding	cytoplasm|plasma membrane	histone-arginine N-methyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity			ovary(3)|central_nervous_system(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(31;0.0109)|COAD - Colon adenocarcinoma(12;0.0264)			GTTTCCAGACCGGGCAGCTTT	0.473													26	51					0	0	1	0	0		T	3678670	T	T	3678670	3	4	70	1	0	0	0	0	1	0	0	0	12564	643	23	1	674	1	PRMT8	12	3678670	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	880835	3678670	130173225	601	46617											
KCNA5	3741	broad.mit.edu	37	chr12	5154173	5154173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctccgccaccctccggCgccccaccagcctcccgcgc	3	4	9	25	5	0	0	0	0	0	0	3	0	3	0	9	1	2	2	9	1	0	0	rs144246051	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:5154173C>T	uc001qni.2	+	1	1089	c.860C>T	c.(859-861)GCG>GTG	p.A287V		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	287						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						CACCCTCCGGCGCCCCACCAG	0.682													26	53					0	0	1	0	0		T	5154173	T	T	5154173	3	4	70	1	0	0	0	0	1	0	0	0	8022	768	27	1	862	1	KCNA5	12	5154173	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1475503	5154173	128697722	602	46618											
PLEKHG6	55200	broad.mit.edu	37	chr12	6421413	6421413	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaggcctttggtcctccAcatgagggccccctccaagg	8	8	11	14	0	0	2	0	2	0	0	3	2	3	2	6	4	0	0	6	4	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:6421413A>C	uc001qnr.2	+	2	169	c.21A>C	c.(19-21)CCA>CCC	p.P7P	PLEKHG6_uc001qns.2_Silent_p.P7P|PLEKHG6_uc010sew.1_Silent_p.P7P|PLEKHG6_uc010sex.1_5'Flank	NM_018173	NP_060643	Q3KR16	PKHG6_HUMAN	pleckstrin homology domain-containing family G	7					regulation of Rho protein signal transduction	cleavage furrow|cytoplasm|spindle pole	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|skin(1)	2						TTGGTCCTCCACATGAGGGCC	0.592													24	55					0	0	1	0	0		C	6421413	C	C	6421413	2	2	70	1	0	0	0	0	0	0	0	1	12093	146	6	5		5	PLEKHG6	12	6421413	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	1267240	6421413	127430482	603	46619											
IFFO1	25900	broad.mit.edu	37	chr12	6660145	6660145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggtcttgcagctggatccGcaccgtgtactcctcttccc	5	11	9	16	3	2	0	0	0	2	0	5	1	5	1	4	2	3	4	4	2	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:6660145G>A	uc001qpd.1	-	2	830	c.796C>T	c.(796-798)CGG>TGG	p.R266W	IFFO1_uc001qoy.2_RNA|IFFO1_uc001qpa.1_5'Flank|IFFO1_uc001qpb.1_5'Flank|IFFO1_uc001qpe.1_RNA|IFFO1_uc010sfe.1_Missense_Mutation_p.R266W|IFFO1_uc001qpf.1_Missense_Mutation_p.R266W|IFFO1_uc001qoz.1_5'Flank|IFFO1_uc001qpc.1_Missense_Mutation_p.R266W|IFFO1_uc001qpg.2_5'Flank	NM_080730	NP_542768	Q0D2I5	IFFO1_HUMAN	intermediate filament family orphan isoform 2	266	Potential.					intermediate filament					0						AGCTGGATCCGCACCGTGTAC	0.622													39	54					0	0	1	0	0		A	6660145	A	A	6660145	3	1	70	1	0	0	0	0	1	0	0	0	7526	1086	38	1	931	1	IFFO1	12	6660145	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	238732	6660145	127191750	604	46620											
CD4	920	broad.mit.edu	37	chr12	6923379	6923379	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaaactttcccctgatcAtcaagaatcttaagatagaa	17	10	6	8	0	3	4	2	1	1	3	4	5	4	5	2	1	1	0	2	1	7	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:6923379A>G	uc001qqv.1	+	4	531	c.286A>G	c.(286-288)ATC>GTC	p.I96V	CD4_uc009zez.1_Missense_Mutation_p.I41V|CD4_uc009zfa.1_RNA|CD4_uc009zfb.1_RNA|CD4_uc010sfj.1_5'UTR|CD4_uc009zfc.1_5'UTR|CD4_uc010sfk.1_5'UTR|CD4_uc010sfl.1_5'UTR|CD4_uc010sfm.1_5'UTR	NM_000616	NP_000607	P01730	CD4_HUMAN	CD4 antigen precursor	96	Extracellular (Potential).|Ig-like V-type.				cell adhesion|entry into host cell|immune response|induction by virus of host cell-cell fusion|initiation of viral infection|maintenance of protein location in cell|positive regulation of interleukin-2 biosynthetic process|positive regulation of protein kinase activity|protein palmitoleylation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|T cell selection|transmembrane receptor protein tyrosine kinase signaling pathway	early endosome|endoplasmic reticulum membrane|integral to membrane|T cell receptor complex	coreceptor activity|extracellular matrix structural constituent|glycoprotein binding|MHC class II protein binding|protein homodimerization activity|protein kinase binding|transmembrane receptor activity|zinc ion binding				0		Myeloproliferative disorder(1001;0.0122)				TCCCCTGATCATCAAGAATCT	0.498													35	67					0	0	1	0	0		G	6923379	G	G	6923379	3	3	70	1	0	0	0	0	1	0	0	0	3017	217	8	3	296	3	CD4	12	6923379	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	263234	6923379	126928516	605	46621											
C1R	715	broad.mit.edu	37	chr12	7244123	7244123	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagcttcaccctgtatccCgtggggactgtgatcacagt	8	10	11	12	2	2	1	2	1	0	0	3	3	3	2	2	2	1	2	2	2	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:7244123C>A	uc010sfy.1	-	2	215	c.156G>T	c.(154-156)ACG>ACT	p.T52T	C1R_uc010sfz.1_Silent_p.T66T|C1R_uc010sga.1_Silent_p.T52T	NM_001733	NP_001724	P00736	C1R_HUMAN	complement component 1, r subcomponent	52	CUB 1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity				0					Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCCTGTATCCCGTGGGGACTG	0.532													3	8					0.00909568	0.00917711	1	1	0		A	7244123	A	A	7244123	2	1	70	1	0	0	0	0	0	0	0	1	1975	639	23	5		5	C1R	12	7244123	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	320744	7244123	126607772	606	46622											
KLRF1	51348	broad.mit.edu	37	chr12	9994990	9994990	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactttacctccttgaaaaTgacatggacttgggtggatg	11	13	10	7	0	0	2	0	2	0	0	1	4	1	4	2	3	2	0	2	3	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:9994990T>C	uc010sgw.1	+	6	609	c.545T>C	c.(544-546)ATG>ACG	p.M182T	KLRF1_uc009zgw.2_Missense_Mutation_p.M133T|KLRF1_uc009zgx.2_RNA|KLRF1_uc001qwm.2_RNA|KLRF1_uc009zgy.2_RNA|KLRF1_uc009zgz.2_Intron|KLRF1_uc009zha.2_Intron	NM_016523	NP_057607	Q9NZS2	KLRF1_HUMAN	killer cell lectin-like receptor subfamily F,	183	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to plasma membrane	MHC class I receptor activity|sugar binding			large_intestine(1)	1						TCCTTGAAAATGACATGGACT	0.358													31	54					0	0	1	0	0		C	9994990	C	C	9994990	3	2	70	1	0	0	0	0	1	0	0	0	8436	1464	51	3	566	3	KLRF1	12	9994990	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	2750867	9994990	123856905	607	46623											
CLEC2B	9976	broad.mit.edu	37	chr12	10010106	10010106	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcaattatagttaggtcGgcatgttgagtggaacagtt	10	15	12	4	1	1	1	1	1	0	0	2	2	1	2	0	3	1	4	0	3	5	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:10010106G>A	uc001qwn.2	-	3	861	c.204C>T	c.(202-204)GCC>GCT	p.A68A		NM_005127	NP_005118	Q92478	CLC2B_HUMAN	C-type lectin, superfamily member 2	68	C-type lectin.|Extracellular (Potential).					integral to plasma membrane	sugar binding				0						TAGTTAGGTCGGCATGTTGAG	0.328													5	39					0	0	1	0	0		A	10010106	A	A	10010106	2	1	70	1	0	0	0	0	0	0	0	1	3510	1103	39	1		1	CLEC2B	12	10010106	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	15116	10010106	123841789	608	46624											
DUSP16	80824	broad.mit.edu	37	chr12	12630269	12630269	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcgatgcagtggagataaaAgggacctctgggcggtgcca	10	8	15	8	2	1	1	0	0	1	1	2	4	1	2	2	4	2	1	2	4	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:12630269A>G	uc001rao.1	-	7	2128	c.1496T>C	c.(1495-1497)CTT>CCT	p.L499P	DUSP16_uc001ram.1_5'Flank|DUSP16_uc001ran.1_Missense_Mutation_p.L351P	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	499					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		TGGAGATAAAAGGGACCTCTG	0.577													37	61					0	0	1	0	0		G	12630269	G	G	12630269	3	3	70	1	0	0	0	0	1	0	0	0	4822	72	3	3	505	3	DUSP16	12	12630269	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	2620163	12630269	121221626	609	46625											
KRAS	3845	broad.mit.edu	37	chr12	25398281	25398281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaggcactcttgcctacgCcaccagctccaactaccaca	11	7	5	18	1	2	0	1	0	1	0	3	0	3	0	5	1	5	2	5	1	4	3	rs112445441		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:25398281C>T	uc001rgp.1	-	2	219	c.38G>A	c.(37-39)GGC>GAC	p.G13D	KRAS_uc001rgq.1_Missense_Mutation_p.G13D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	13	GTP.		G -> R (in pylocytic astrocytoma; somatic mutation; increase activation of the Ras pathway).|G -> D (in a breast carcinoma cell line and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G13D(2647)|p.G13C(182)|p.G13S(58)|p.G13R(41)|p.G13V(27)|p.G13A(24)|p.G13G(11)|p.G13E(4)|p.G12_G13insG(4)|p.G13N(3)|p.G13I(1)|p.G13_V14>DI(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CTTGCCTACGCCACCAGCTCC	0.338	G13D(NCIH647_LUNG)|G13D(MDAMB231_BREAST)|G13D(NCIH747_LARGE_INTESTINE)|G13D(T84_LARGE_INTESTINE)|G13D(LOVO_LARGE_INTESTINE)|G13D(DLD1_LARGE_INTESTINE)|G13D(DV90_LUNG)|G13D(HCT15_LARGE_INTESTINE)|G13D(HCT116_LARGE_INTESTINE)|G13D(TOLEDO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G13D(NOMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			9	19					0	0	1	0	0		T	25398281	T	T	25398281	3	4	70	1	0	0	0	0	1	0	0	0	8454	739	26	2	668	2	KRAS	12	25398281	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	12768012	25398281	108453614	610	46626											
C12orf11	55726	broad.mit.edu	37	chr12	27077371	27077371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatttggtagcaagatgccGtcctgcacgaacactatgaa	13	9	9	10	2	0	2	0	1	0	1	1	3	1	2	2	1	4	3	2	1	6	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:27077371G>A	uc001rhk.3	-	7	1258	c.721C>T	c.(721-723)CGG>TGG	p.R241W	C12orf11_uc010sjk.1_Missense_Mutation_p.R140W	NM_018164	NP_060634	Q9NVM9	M89BB_HUMAN	hypothetical protein LOC55726	241					cell division|mitosis|regulation of mitotic cell cycle		protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	Colorectal(261;0.0847)					GCAAGATGCCGTCCTGCACGA	0.348													28	63					0	0	1	0	0		A	27077371	A	A	27077371	3	1	70	1	0	0	0	0	1	0	0	0	1678	1144	40	1	1443	1	C12orf11	12	27077371	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1679090	27077371	106774524	611	46627											
FGFR1OP2	26127	broad.mit.edu	37	chr12	27113541	27113541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatggactggagagaaggCacttggaagcaaatcagaat	17	6	12	6	0	1	2	1	0	0	2	1	6	1	5	0	4	2	2	0	4	5	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:27113541C>T	uc001rhm.2	+	5	832	c.490C>T	c.(490-492)CAC>TAC	p.H164Y	FGFR1OP2_uc001rhl.2_Missense_Mutation_p.H164Y|FGFR1OP2_uc001rhn.2_Intron	NM_015633	NP_056448	Q9NVK5	FGOP2_HUMAN	FGFR1 oncogene partner 2	164	Potential.					cytoplasm					0	Colorectal(261;0.0847)					GGAGAGAAGGCACTTGGAAGC	0.423													11	48					0	0	1	0	0		T	27113541	T	T	27113541	3	4	70	1	0	0	0	0	1	0	0	0	5879	710	25	2	504	2	FGFR1OP2	12	27113541	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	36170	27113541	106738354	612	46628											
DENND5B	160518	broad.mit.edu	37	chr12	31632813	31632813	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagctggataaggaatttcTtgcaggcctgcatgaatggt	12	11	12	6	0	1	1	0	1	1	0	1	3	1	3	1	4	3	3	1	4	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:31632813T>C	uc001rki.1	-	3	800	c.614A>G	c.(613-615)AAG>AGG	p.K205R	DENND5B_uc001rkh.1_Missense_Mutation_p.K240R|DENND5B_uc009zjq.1_Missense_Mutation_p.K124R|DENND5B_uc001rkj.2_Missense_Mutation_p.K227R|DENND5B_uc001rkk.1_Missense_Mutation_p.K127R	NM_144973	NP_659410	Q6ZUT9	DEN5B_HUMAN	DENN/MADD domain containing 5B	205	DENN.					integral to membrane				ovary(1)|central_nervous_system(1)	2						AAGGAATTTCTTGCAGGCCTG	0.423													31	36					0	0	1	0	0		C	31632813	C	C	31632813	3	2	70	1	0	0	0	0	1	0	0	0	4443	1609	56	3	3286	3	DENND5B	12	31632813	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	4519272	31632813	102219082	613	46629											
BICD1	636	broad.mit.edu	37	chr12	32481022	32481022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggcagagcagagtcaccCgcagtggcagcctgaaaggg	12	4	15	10	1	1	3	1	1	0	2	1	3	1	3	2	3	2	4	2	3	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:32481022C>T	uc001rku.2	+	5	1714	c.1633C>T	c.(1633-1635)CGC>TGC	p.R545C	BICD1_uc001rkv.2_Missense_Mutation_p.R545C|BICD1_uc010skd.1_RNA	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	545					anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			CAGAGTCACCCGCAGTGGCAG	0.527													25	55					0	0	1	0	0		T	32481022	T	T	32481022	3	4	70	1	0	0	0	0	1	0	0	0	1429	652	23	1	1651	1	BICD1	12	32481022	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	848209	32481022	101370873	614	46630											
AMIGO2	347902	broad.mit.edu	37	chr12	47471413	47471413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttacctgcacctgccttcCgttcatcagcggaggcatca	7	12	8	14	2	3	0	3	0	0	0	4	1	4	1	4	2	4	3	4	2	1	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:47471413C>T	uc001rpm.2	-	3	2028	c.1373G>A	c.(1372-1374)CGG>CAG	p.R458Q	FAM113B_uc001rpn.2_5'Flank|AMIGO2_uc001rpk.2_Missense_Mutation_p.R458Q|AMIGO2_uc001rpl.2_Missense_Mutation_p.R458Q	NM_001143668	NP_001137140	Q86SJ2	AMGO2_HUMAN	adhesion molecule with Ig-like domain 2	458	Cytoplasmic (Potential).				heterophilic cell-cell adhesion|homophilic cell adhesion	integral to membrane|nucleus|plasma membrane				ovary(1)|skin(1)	2	Renal(347;0.138)|Lung SC(27;0.192)					ACCTGCCTTCCGTTCATCAGC	0.512													24	57					0	0	1	0	0		T	47471413	T	T	47471413	3	4	70	1	0	0	0	0	1	0	0	0	576	652	23	1	199	1	AMIGO2	12	47471413	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	14990391	47471413	86380482	615	46631											
COL2A1	1280	broad.mit.edu	37	chr12	48378832	48378832	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggctgcccacgagccccCtgaggacctggaggtccagg	7	4	14	16	1	0	1	0	1	0	0	1	4	1	3	6	5	2	1	6	5	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:48378832C>A	uc001rqu.2	-	27	1960	c.1779G>T	c.(1777-1779)CAG>CAT	p.Q593H	COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.Q524H	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	593	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CACGAGCCCCCTGAGGACCTG	0.537													9	22					0.000673444	0.000683758	1	1	0		A	48378832	A	A	48378832	3	1	70	1	0	0	0	0	1	0	0	0	3690	680	24	5	2796	5	COL2A1	12	48378832	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	907419	48378832	85473063	616	46632											
MLL2	8085	broad.mit.edu	37	chr12	49418643	49418643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtcagcccaaagagctcctCgcccttcagatactcaggga	10	7	9	15	2	3	2	3	0	0	2	5	3	4	3	3	1	3	1	3	1	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:49418643C>T	uc001rta.3	-	49	15871	c.15871G>A	c.(15871-15873)GAG>AAG	p.E5291K		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5291	FYR C-terminal.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AAGAGCTCCTCGCCCTTCAGA	0.572			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			5	6					0	0	1	0	0		T	49418643	T	T	49418643	3	4	70	1	0	0	0	0	1	0	0	0	9639	893	31	1	766	1	MLL2	12	49418643	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1039811	49418643	84433252	617	46633											
LMBR1L	55716	broad.mit.edu	37	chr12	49491882	49491882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccagcaggtcaaagcgaGtgagccctgaagcacaaagg	14	3	12	12	1	1	2	1	2	0	0	1	3	1	2	2	2	4	2	2	2	3	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:49491882G>A	uc001rth.3	-	16	1589	c.1247C>T	c.(1246-1248)ACT>ATT	p.T416I	LMBR1L_uc001rtg.3_Missense_Mutation_p.T411I|LMBR1L_uc001rti.3_Missense_Mutation_p.T396I	NM_018113	NP_060583	Q6UX01	LMBRL_HUMAN	lipocalin-interacting membrane receptor	416	Extracellular (Potential).				endocytosis	integral to membrane|plasma membrane	receptor activity			pancreas(1)	1						GTCAAAGCGAGTGAGCCCTGA	0.557											OREG0021783	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	40	84					0	0	1	0	0		A	49491882	A	A	49491882	3	1	70	1	0	0	0	0	1	0	0	0	8858	1029	36	4	230	4	LMBR1L	12	49491882	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	73239	49491882	84360013	618	46634											
DIP2B	57609	broad.mit.edu	37	chr12	51138528	51138528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggacccaggtgtcatccCgatcaactccagaggagaga	11	6	13	11	1	2	2	2	0	0	2	4	6	4	4	3	4	1	0	3	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:51138528C>T	uc001rwv.2	+	38	4793	c.4637C>T	c.(4636-4638)CCG>CTG	p.P1546L	DIP2B_uc009zlt.2_Missense_Mutation_p.P976L	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1546						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						GGTGTCATCCCGATCAACTCC	0.537													28	54					0	0	1	0	0		T	51138528	T	T	51138528	3	4	70	1	0	0	0	0	1	0	0	0	4534	652	23	1	4787	1	DIP2B	12	51138528	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1646646	51138528	82713367	619	46635											
LETMD1	25875	broad.mit.edu	37	chr12	51442249	51442249	+	Frame_Shift_Del	DEL	G	-	-																															tggtcgctctggcctggcttGgggggcccctcggtgaggga																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:51442249delG	uc001rxm.2	+	1	166	c.110delG	c.(109-111)TGGfs	p.W37fs	LETMD1_uc010smz.1_Frame_Shift_Del_p.W37fs|LETMD1_uc010sna.1_Frame_Shift_Del_p.W37fs|LETMD1_uc001rxl.2_Intron|LETMD1_uc009zlv.2_RNA|LETMD1_uc001rxs.2_Frame_Shift_Del_p.W37fs|LETMD1_uc009zlw.2_Frame_Shift_Del_p.W37fs|LETMD1_uc001rxn.2_5'UTR|LETMD1_uc001rxo.2_RNA|LETMD1_uc001rxp.2_Frame_Shift_Del_p.W37fs|LETMD1_uc001rxq.2_Frame_Shift_Del_p.W37fs|LETMD1_uc001rxr.2_RNA|LETMD1_uc001rxt.2_5'Flank	NM_015416	NP_056231	Q6P1Q0	LTMD1_HUMAN	LETM1 domain containing 1 isoform 1	37	Cytoplasmic (Potential).|Required and sufficient for mitochondrial import.					integral to membrane|mitochondrial outer membrane	protein binding			central_nervous_system(2)	2						GGCCTGGCTTGGGGGGCCCCT	0.582											OREG0021818	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	53	67	---	---	---	---						.	-	51442249	-	-	51442249	7	5	70	1	0	1	0	1	0	0	0	0	8752	1357	47	0	112	0	LETMD1	12	51442249	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	303721	51442249	82409646	620	46636											
HOXC12	3228	broad.mit.edu	37	chr12	54349039	54349039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggcgggggcctgaagcGtgaggagcgcgggcgcgacc	5	3	22	11	7	0	2	0	2	0	0	0	4	0	3	2	6	2	0	2	6	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:54349039G>A	uc010soq.1	+	1	326	c.326G>A	c.(325-327)CGT>CAT	p.R109H		NM_173860	NP_776272	P31275	HXC12_HUMAN	homeobox C12	109					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						GGCCTGAAGCGTGAGGAGCGC	0.746													4	4					0	0	1	0	0		A	54349039	A	A	54349039	3	1	70	1	0	0	0	0	1	0	0	0	7327	1145	40	1	328	1	HOXC12	12	54349039	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2906790	54349039	79502856	621	46637											
KIAA0748	9840	broad.mit.edu	37	chr12	55356642	55356642	+	Frame_Shift_Del	DEL	G	-	-																															gcaacttcttaccctcagcaGggggcacaggatcttcctgt																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:55356642delG	uc001sgn.3	-	9	1150	c.1040delC	c.(1039-1041)CCTfs	p.P347fs	KIAA0748_uc001sgl.3_Frame_Shift_Del_p.P209fs|KIAA0748_uc001sgm.3_Frame_Shift_Del_p.P94fs|KIAA0748_uc010spb.1_Frame_Shift_Del_p.P94fs|KIAA0748_uc010spc.1_Frame_Shift_Del_p.P209fs|KIAA0748_uc010spd.1_Frame_Shift_Del_p.P347fs|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	347										ovary(1)|central_nervous_system(1)	2						ACCCTCAGCAGGGGGCACAGG	0.498													15	23	---	---	---	---						.	-	55356642	-	-	55356642	7	5	70	1	0	1	0	1	0	0	0	0	8206	1000	35	0	533	0	KIAA0748	12	55356642	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	1007603	55356642	78495253	622	46638											
ESYT1	23344	broad.mit.edu	37	chr12	56536156	56536156	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagctctgcttggaccgcTggtttacactcagcagtggt	7	11	11	12	1	2	0	1	0	1	0	2	1	2	1	2	3	4	5	2	3	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:56536156T>C	uc001sjq.2	+	25	2730	c.2680T>C	c.(2680-2682)TGG>CGG	p.W894R	ESYT1_uc001sjr.2_Missense_Mutation_p.W904R	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	894						integral to membrane				ovary(4)|skin(1)	5						CTTGGACCGCTGGTTTACACT	0.627													31	38					0	0	1	0	0		C	56536156	C	C	56536156	3	2	70	1	0	0	0	0	1	0	0	0	5272	1580	55	3	2808	3	ESYT1	12	56536156	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1179514	56536156	77315739	623	46639											
MIP	4284	broad.mit.edu	37	chr12	56847528	56847528	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcctggcccacgctcacCgcagggtgcaactgtgcaaa	8	7	12	14	2	1	0	1	0	0	0	1	0	1	0	3	2	4	5	3	2	2	1	rs141768870		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:56847528C>T	uc001slh.2	-	2	404	c.372G>A	c.(370-372)GCG>GCA	p.A124A		NM_012064	NP_036196	P30301	MIP_HUMAN	major intrinsic protein of lens fiber	124	Extracellular (By similarity).				response to stimulus|visual perception	gap junction|integral to plasma membrane	structural constituent of eye lens			skin(1)	1						CCACGCTCACCGCAGGGTGCA	0.577													12	8					0	0	1	0	0		T	56847528	T	T	56847528	2	4	70	1	0	0	0	0	0	0	0	1	9609	639	23	1		1	MIP	12	56847528	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	311372	56847528	77004367	624	46640											
GPR182	11318	broad.mit.edu	37	chr12	57389247	57389247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgcggctcaggccgggCagggctgatgaacctctaca	7	6	15	13	3	2	2	1	2	1	0	2	2	2	2	2	5	2	3	2	5	2	1	rs146012865	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:57389247C>T	uc001smk.2	+	2	348	c.254C>T	c.(253-255)GCA>GTA	p.A85V	RDH16_uc010sqx.1_Intron	NM_007264	NP_009195	O15218	GP182_HUMAN	G protein-coupled receptor 182	85	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(1)	1						TCAGGCCGGGCAGGGCTGATG	0.607													12	106					0	0	1	0	0		T	57389247	T	T	57389247	3	4	70	1	0	0	0	0	1	0	0	0	6692	710	25	2	256	2	GPR182	12	57389247	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	541719	57389247	76462648	625	46641											
ARHGAP9	64333	broad.mit.edu	37	chr12	57869329	57869329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagctccgactcctcttcttCgtcctccccggcgctcagct	3	11	7	20	4	3	0	1	0	2	0	8	1	7	0	5	1	2	3	5	1	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:57869329C>T	uc001sod.2	-	14	1844	c.1651G>A	c.(1651-1653)GAA>AAA	p.E551K	ARHGAP9_uc001sny.2_5'Flank|ARHGAP9_uc001snz.2_Missense_Mutation_p.E277K|ARHGAP9_uc001soa.2_Missense_Mutation_p.E150K|ARHGAP9_uc001sob.2_Missense_Mutation_p.E461K|ARHGAP9_uc001soc.2_Missense_Mutation_p.E461K|ARHGAP9_uc001soe.1_Missense_Mutation_p.E540K	NM_032496	NP_115885	Q9BRR9	RHG09_HUMAN	Rho GTPase activating protein 9 isoform 1	480					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			lung(1)	1			GBM - Glioblastoma multiforme(3;3.37e-34)			TCCTCTTCTTCGTCCTCCCCG	0.716													7	8					0	0	1	0	0		T	57869329	T	T	57869329	3	4	70	1	0	0	0	0	1	0	0	0	889	893	31	1	846	1	ARHGAP9	12	57869329	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	480082	57869329	75982566	626	46642											
GRIP1	23426	broad.mit.edu	37	chr12	66788080	66788080	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgatgccaaggggccccccGtagcgtttaagctccacggt	7	8	13	13	3	0	1	0	1	0	0	1	1	1	1	5	3	3	3	5	3	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:66788080G>A	uc001stk.2	-	16	2122	c.1881C>T	c.(1879-1881)TAC>TAT	p.Y627Y	GRIP1_uc010sta.1_Silent_p.Y571Y|GRIP1_uc001stj.2_Silent_p.Y409Y|GRIP1_uc001stl.1_Silent_p.Y519Y|GRIP1_uc001stm.2_Silent_p.Y627Y	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	679	PDZ 6.				androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		GGGGCCCCCCGTAGCGTTTAA	0.408													30	72					0	0	1	0	0		A	66788080	A	A	66788080	2	1	70	1	0	0	0	0	0	0	0	1	6803	1140	40	1		1	GRIP1	12	66788080	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	8918751	66788080	67063815	627	46643											
PTPRB	5787	broad.mit.edu	37	chr12	70948992	70948992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcacagctccattggtgtcGctgaaccagctgcagttgac	8	11	10	12	1	1	2	1	2	0	0	3	2	2	2	2	1	4	5	2	1	1	3	rs112766507		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:70948992G>A	uc001swb.3	-	18	4467	c.4437C>T	c.(4435-4437)AGC>AGT	p.S1479S	PTPRB_uc010sto.1_Silent_p.S1389S|PTPRB_uc010stp.1_Silent_p.S1389S|PTPRB_uc001swc.3_Silent_p.S1697S|PTPRB_uc001swa.3_Silent_p.S1609S	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1479	Fibronectin type-III 17.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CATTGGTGTCGCTGAACCAGC	0.478													28	32					0	0	1	0	0		A	70948992	A	A	70948992	2	1	70	1	0	0	0	0	0	0	0	1	12821	1078	38	1		1	PTPRB	12	70948992	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4160912	70948992	62902903	628	46644											
C12orf12	196477	broad.mit.edu	37	chr12	91348087	91348087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcaggccgcggcctctgcGgccccagcgcttcttcctgc	2	7	13	19	5	2	0	0	0	2	0	3	0	3	0	5	3	3	2	5	3	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:91348087G>A	uc001tbj.2	-	1	867	c.433C>T	c.(433-435)CGC>TGC	p.R145C		NM_152638	NP_689851	Q8TC90	CL012_HUMAN	hypothetical protein LOC196477	145										central_nervous_system(1)|pancreas(1)	2						CGGCCTCTGCGGCCCCAGCGC	0.697													10	35					0	0	1	0	0		A	91348087	A	A	91348087	3	1	70	1	0	0	0	0	1	0	0	0	1679	1116	39	1	791	1	C12orf12	12	91348087	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	20399095	91348087	42503808	629	46645											
EEA1	8411	broad.mit.edu	37	chr12	93236245	93236245	+	Frame_Shift_Del	DEL	T	-	-																															gctttaaaattctcacctgaTttttttgtgttaattcatta																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:93236245delT	uc001tck.2	-	10	1176	c.911delA	c.(910-912)AATfs	p.N304fs		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	304	Potential.				early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						TCTCACCTGATTTTTTTGTGT	0.284													10	16	---	---	---	---						.	-	93236245	-	-	93236245	7	5	70	1	0	1	0	1	0	0	0	0	4927	1493	52	0	3404	0	EEA1	12	93236245	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	1888158	93236245	40615650	630	46646											
GOLGA2B	55592	broad.mit.edu	37	chr12	100551024	100551024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctggctctggtacagtgcGatgtactctcctgcaggagg	6	11	13	11	1	3	0	0	0	3	0	4	2	3	1	1	4	4	4	1	4	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:100551024G>A	uc001tgs.2	-	5	745	c.301C>T	c.(301-303)CGC>TGC	p.R101C	GOLGA2B_uc001tgt.2_RNA|GOLGA2B_uc001tgu.2_Missense_Mutation_p.R101C|uc001tgv.1_5'Flank|uc001tgx.2_5'Flank	NM_017600	NP_060070			golgi autoantigen, golgin subfamily a, 2-like 1												0						GGTACAGTGCGATGTACTCTC	0.622													29	50					0	0	1	0	0		A	100551024	A	A	100551024	3	1	70	1	0	0	0	0	1	0	0	0	6568	1058	37	1	141	1	GOLGA2B	12	100551024	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	7314779	100551024	33300871	631	46647											
GNPTAB	79158	broad.mit.edu	37	chr12	102161840	102161840	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatccccaccatcccaatcGcaggctgaattattacaagc	13	8	5	15	1	0	1	0	1	0	0	3	1	2	1	4	1	2	2	4	1	6	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:102161840G>A	uc001tit.2	-	11	1562	c.1383C>T	c.(1381-1383)TGC>TGT	p.C461C	GNPTAB_uc001tiu.1_Silent_p.C461C	NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	461	LNR 1.		C -> G (in MLIIIA).		cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						CATCCCAATCGCAGGCTGAAT	0.418													24	67					0	0	1	0	0		A	102161840	A	A	102161840	2	1	70	1	0	0	0	0	0	0	0	1	6560	1079	38	1		1	GNPTAB	12	102161840	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1610816	102161840	31690055	632	46648											
ACACB	32	broad.mit.edu	37	chr12	109637206	109637206	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgactcctcctctctcccaGttaccgaattaccatcggca	8	10	5	18	3	1	0	0	0	1	0	6	2	4	0	6	1	2	2	6	1	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:109637206G>A	uc001tob.2	+	18	2747	c.2628_splice	c.e18-1	p.S876_splice	ACACB_uc001toc.2_Splice_Site_p.S876_splice	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta						acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CTCTCTCCCAGTTACCGAATT	0.527													14	64					0	0	1	0	0		A	109637206	A	A	109637206	5	1	70	1	0	0	0	0	0	0	1	0	107	1043	36	4	2693	4	ACACB	12	109637206	Splice_Site	SNP	G	TCGA-BR-8368-01A-11D-2340-08	7475366	109637206	24214689	633	46649											
TRPV4	59341	broad.mit.edu	37	chr12	110246248	110246248	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggggggcggctgaggggcagGggctttggggctctgcggct	2	7	24	8	2	1	1	0	1	1	0	1	1	1	1	0	11	1	5	0	11	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:110246248G>T	uc001tpj.1	-	2	507	c.412C>A	c.(412-414)CCT>ACT	p.P138T	TRPV4_uc001tpg.1_Missense_Mutation_p.P104T|TRPV4_uc001tph.1_Missense_Mutation_p.P138T|TRPV4_uc001tpi.1_Missense_Mutation_p.P138T|TRPV4_uc001tpk.1_Missense_Mutation_p.P138T|TRPV4_uc001tpl.1_Missense_Mutation_p.P138T	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	138	Cytoplasmic (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						TGAGGGGCAGGGGCTTTGGGG	0.657													19	18					7.45023e-12	7.89878e-12	1	1	0		T	110246248	T	T	110246248	3	4	70	1	0	0	0	0	1	0	0	0	16624	1232	43	5	2259	5	TRPV4	12	110246248	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	609042	110246248	23605647	634	46650											
ARPC3	10094	broad.mit.edu	37	chr12	110873942	110873942	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtttatcattctgagggtcGaaaactttctcacaaagtct	11	14	8	8	1	4	1	2	1	3	0	6	2	4	1	0	2	1	1	0	2	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:110873942G>A	uc001tqq.2	-	6	540	c.447C>T	c.(445-447)TTC>TTT	p.F149F		NM_005719	NP_005710	O15145	ARPC3_HUMAN	actin related protein 2/3 complex subunit 3	149					cellular component movement|regulation of actin filament polymerization	Arp2/3 protein complex|cytoplasm	actin binding|structural constituent of cytoskeleton			ovary(1)	1						TCTGAGGGTCGAAAACTTTCT	0.388													63	110					0	0	1	0	0		A	110873942	A	A	110873942	2	1	70	1	0	0	0	0	0	0	0	1	973	1049	37	1		1	ARPC3	12	110873942	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	627694	110873942	22977953	635	46651											
CUX2	23316	broad.mit.edu	37	chr12	111758076	111758076	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagggcagcgggggccccGcgcaggcgccgctcccggtc	4	2	19	16	6	0	0	0	0	0	0	2	1	1	1	4	6	1	3	4	6	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:111758076G>A	uc001tsa.1	+	17	2416	c.2263G>A	c.(2263-2265)GCG>ACG	p.A755T		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	755						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						CGGGGGCCCCGCGCAGGCGCC	0.736													4	10					0	0	1	0	0		A	111758076	A	A	111758076	3	1	70	1	0	0	0	0	1	0	0	0	4068	1087	38	1	2329	1	CUX2	12	111758076	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	884134	111758076	22093819	636	46652											
ATXN2	6311	broad.mit.edu	37	chr12	111893938	111893938	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggaaactattctgtggCgactgcgtgttggaggcagg	7	10	17	7	2	1	0	0	0	1	0	1	3	1	2	0	5	2	3	0	5	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:111893938C>T	uc001tsj.2	-	23	3801	c.3639G>A	c.(3637-3639)TCG>TCA	p.S1213S	ATXN2_uc001tsh.2_Silent_p.S948S|ATXN2_uc001tsi.2_Silent_p.S906S|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Silent_p.S401S|ATXN2_uc001tsl.1_Silent_p.S214S	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	1213					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						TATTCTGTGGCGACTGCGTGT	0.582													17	159					0	0	1	0	0		T	111893938	T	T	111893938	2	4	70	1	0	0	0	0	0	0	0	1	1212	755	27	1		1	ATXN2	12	111893938	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	135862	111893938	21957957	637	46653											
WSB2	55884	broad.mit.edu	37	chr12	118480755	118480755	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcacgacatcttggtggccGgaaagattcaaaagcaggag	13	7	12	9	2	3	1	2	0	1	1	3	4	3	3	1	4	1	1	1	4	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:118480755G>A	uc001twr.2	-	4	548	c.450C>T	c.(448-450)TCC>TCT	p.S150S	WSB2_uc010sza.1_5'UTR|WSB2_uc010szb.1_Intron|WSB2_uc009zws.1_Silent_p.S150S	NM_018639	NP_061109	Q9NYS7	WSB2_HUMAN	WD SOCS-box protein 2	150					intracellular signal transduction					ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTTGGTGGCCGGAAAGATTCA	0.592													27	67					0	0	1	0	0		A	118480755	A	A	118480755	2	1	70	1	0	0	0	0	0	0	0	1	17431	1103	39	1		1	WSB2	12	118480755	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6586817	118480755	15371140	638	46654											
ACADS	35	broad.mit.edu	37	chr12	121163699	121163699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtcgcccatggccgccgCgctgctcgcccgggcctcgg	1	7	14	19	7	1	0	0	0	1	0	4	0	1	0	5	3	1	2	5	3	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:121163699C>T	uc001tza.3	+	1	129	c.11C>T	c.(10-12)GCG>GTG	p.A4V	ACADS_uc010szl.1_Missense_Mutation_p.A4V	NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	4						mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)	ATGGCCGCCGCGCTGCTCGCC	0.761													2	2					0	0	1	0	0		T	121163699	T	T	121163699	3	4	70	1	0	0	0	0	1	0	0	0	114	768	27	1	13	1	ACADS	12	121163699	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2682944	121163699	12688196	639	46655											
ORAI1	84876	broad.mit.edu	37	chr12	122079195	122079195	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctccaccgtcatcggcacGctgctcttcctagctgaggt	5	12	9	15	3	3	1	1	1	2	0	6	1	4	1	3	2	2	4	3	2	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:122079195G>A	uc010szz.1	+	3	745	c.552G>A	c.(550-552)ACG>ACA	p.T184T		NM_032790	NP_116179	Q96D31	CRCM1_HUMAN	calcium release-activated calcium channel	184	Helical; (Potential).				platelet activation|positive regulation of calcium ion transport	integral to plasma membrane	protein binding|store-operated calcium channel activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000415)|Epithelial(86;0.00148)		TCATCGGCACGCTGCTCTTCC	0.632													12	28					0	0	1	0	0		A	122079195	A	A	122079195	2	1	70	1	0	0	0	0	0	0	0	1	11276	1074	38	1		1	ORAI1	12	122079195	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	915496	122079195	11772700	640	46656											
LRRC43	254050	broad.mit.edu	37	chr12	122667814	122667814	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcggaagctgtgtctgcgCgagttcccgtgcggtgccgg	3	10	17	11	6	1	0	0	0	1	0	2	2	2	1	2	3	5	2	2	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:122667814C>T	uc009zxm.2	+	1	148	c.123C>T	c.(121-123)CGC>CGT	p.R41R	LRRC43_uc001ubw.3_Intron|LRRC43_uc009zxl.1_Intron	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	41											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		TGTGTCTGCGCGAGTTCCCGT	0.771													4	5					0	0	1	0	0		T	122667814	T	T	122667814	2	4	70	1	0	0	0	0	0	0	0	1	9019	755	27	1		1	LRRC43	12	122667814	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	588619	122667814	11184081	641	46657											
ABCB9	23457	broad.mit.edu	37	chr12	123444231	123444231	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggccacgaggaaggccacGtcgggcttggtgtaggagag	8	5	19	9	4	0	1	0	0	0	1	1	4	0	2	2	6	0	2	2	6	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:123444231G>A	uc001udm.3	-	2	862	c.552C>T	c.(550-552)GAC>GAT	p.D184D	ABCB9_uc009zxr.2_Intron|ABCB9_uc001udo.3_Silent_p.D184D|ABCB9_uc010taj.1_Silent_p.D184D|ABCB9_uc001udp.2_Silent_p.D184D|ABCB9_uc001udq.2_Translation_Start_Site|ABCB9_uc001udr.2_Silent_p.D184D	NM_019625	NP_062571	Q9NP78	ABCB9_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	184					positive regulation of T cell mediated cytotoxicity|protein transport	lysosomal membrane|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.84e-05)|Epithelial(86;0.000152)|BRCA - Breast invasive adenocarcinoma(302;0.111)		GGAAGGCCACGTCGGGCTTGG	0.657													27	54					0	0	1	0	0		A	123444231	A	A	123444231	2	1	70	1	0	0	0	0	0	0	0	1	48	1136	40	1		1	ABCB9	12	123444231	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	776417	123444231	10407664	642	46658											
SBNO1	55206	broad.mit.edu	37	chr12	123805034	123805034	+	Frame_Shift_Del	DEL	G	-	-																															taagttcatccagggtattaGgggggaggtcttcagctaat																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:123805034delG	uc010tap.1	-	18	2612	c.2612delC	c.(2611-2613)CCTfs	p.P871fs	SBNO1_uc010tao.1_Frame_Shift_Del_p.P870fs|SBNO1_uc010taq.1_Intron	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	871							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		CAGGGTATTAGGGGGGAGGTC	0.448													49	92	---	---	---	---						.	-	123805034	-	-	123805034	7	5	70	1	0	1	0	1	0	0	0	0	13887	1000	35	0	1625	0	SBNO1	12	123805034	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	360803	123805034	10046861	643	46659											
DNAH10	196385	broad.mit.edu	37	chr12	124359795	124359795	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggtggatgaatatggcacGcagcagcccattgccttgct	10	9	12	10	1	0	1	0	1	0	0	0	2	0	2	2	3	4	4	2	3	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:124359795G>A	uc001uft.3	+	46	7627	c.7602G>A	c.(7600-7602)ACG>ACA	p.T2534T		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2534	AAA 3 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		AATATGGCACGCAGCAGCCCA	0.358													4	16					0	0	1	0	0		A	124359795	A	A	124359795	2	1	70	1	0	0	0	0	0	0	0	1	4604	1074	38	1		1	DNAH10	12	124359795	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	554761	124359795	9492100	644	46660											
EP400	57634	broad.mit.edu	37	chr12	132547129	132547129	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagcagcagcagcagcaGcagcagcaacagcagcagca	15	0	12	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	12	0	0	1	0	rs138819442	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:132547129G>A	uc001ujn.2	+	46	8252	c.8217G>A	c.(8215-8217)CAG>CAA	p.Q2739Q	EP400_uc001ujl.2_Silent_p.Q2738Q|EP400_uc001ujm.2_Silent_p.Q2658Q|EP400_uc001ujp.2_5'UTR	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2775	Poly-Gln.|Interaction with ZNF42 (By similarity).				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		agcagcagcagcagcagcaac	0.313													5	40					0	0	1	0	0		A	132547129	A	A	132547129	2	1	70	1	0	0	0	0	0	0	0	1	5157	962	34	2		2	EP400	12	132547129	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	8187334	132547129	1304766	645	46661											
DDX51	317781	broad.mit.edu	37	chr12	132625024	132625024	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcctcctctggccaggcccGtagcgcgaggagaactcagc	8	6	12	15	3	2	1	1	0	1	1	4	3	4	1	4	3	3	1	4	3	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr12:132625024G>A	uc001ujy.3	-	11	1656	c.1617C>T	c.(1615-1617)TAC>TAT	p.Y539Y		NM_175066	NP_778236	Q8N8A6	DDX51_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 51	539	Helicase C-terminal.				rRNA processing	nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			lung(1)|pancreas(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.241)		OV - Ovarian serous cystadenocarcinoma(86;7.59e-08)|Epithelial(86;3.62e-07)|all cancers(50;2.13e-05)		GGCCAGGCCCGTAGCGCGAGG	0.622													19	46					0	0	1	0	0		A	132625024	A	A	132625024	2	1	70	1	0	0	0	0	0	0	0	1	4372	1140	40	1		1	DDX51	12	132625024	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	77895	132625024	1226871	646	46662											
XPO4	64328	broad.mit.edu	37	chr13	21358038	21358038	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacttgatagtaatgtttcGaccagttcagaatattcagc	12	14	8	7	1	2	3	2	2	0	1	3	4	2	3	1	0	1	3	1	0	4	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:21358038G>A	uc001unq.3	-	23	3315	c.3279C>T	c.(3277-3279)GTC>GTT	p.V1093V		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	1093					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		GTAATGTTTCGACCAGTTCAG	0.413													32	63					0	0	1	0	0		A	21358038	A	A	21358038	2	1	70	1	0	0	0	0	0	0	0	1	17472	1045	37	1		1	XPO4	13	21358038	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08		21358038	93811840	647	46663											
PABPC3	5042	broad.mit.edu	37	chr13	25670801	25670802	+	Frame_Shift_Ins	INS	-	A	A																															aagcagctgaaagagctattINSaaaaaaatgaacggaatgct																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:25670801_25670802insA	uc001upy.2	+	1	526_527	c.465_466insA	c.(463-468)ATTAAAfs	p.I155fs		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	155_156	RRM 2.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		AAAGAGCTATTAAAAAAATGAA	0.396													43	90	---	---	---	---						.	A	25670802	A	A	25670801	7	5	70	1	0	1	1	0	0	0	0	0	11384	1742	61	0	467	0	PABPC3	13	25670801	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	4312763	25670801	89499077	648	46664											
PAN3	255967	broad.mit.edu	37	chr13	28855473	28855473	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggttcaaaatggaagactgTttaggctcctagcaaaattg	14	11	10	6	0	1	1	1	0	0	1	2	2	2	2	1	3	1	4	1	3	7	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:28855473T>A	uc001urz.2	+	16	1911	c.1903T>A	c.(1903-1905)TTT>ATT	p.F635I	PAN3_uc001ury.2_Missense_Mutation_p.F469I|PAN3_uc001urx.2_Missense_Mutation_p.F581I	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	781	Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		TGGAAGACTGTTTAGGCTCCT	0.308													13	27					0	0	1	0	0		A	28855473	A	A	28855473	3	1	70	1	0	0	0	0	1	0	0	0	11434	1725	60	5	2407	5	PAN3	13	28855473	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	3184672	28855473	86314405	649	46665											
SLC7A1	6541	broad.mit.edu	37	chr13	30091766	30091766	+	Frame_Shift_Del	DEL	T	-	-																															agattttggaaggctccatgTttttgggtgagagtatggtt																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:30091766delT	uc001uso.2	-	10	1841	c.1454delA	c.(1453-1455)AACfs	p.N485fs		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	485	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AGGCTCCATGTTTTTGGGTGA	0.473													55	121	---	---	---	---						.	-	30091766	-	-	30091766	7	5	70	1	0	1	0	1	0	0	0	0	14717	1725	60	0	451	0	SLC7A1	13	30091766	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	1236293	30091766	85078112	650	46666											
NBEA	26960	broad.mit.edu	37	chr13	36202305	36202305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcgaggaccagaagcagttCgtgctctgaatgtttttcac	10	11	11	9	2	2	2	1	1	1	1	3	4	2	3	1	1	3	4	1	1	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:36202305C>T	uc001uvb.2	+	49	7743	c.7537C>T	c.(7537-7539)CGT>TGT	p.R2513C	NBEA_uc010abi.2_Missense_Mutation_p.R1169C|NBEA_uc010tee.1_Missense_Mutation_p.R306C|NBEA_uc010tef.1_Missense_Mutation_p.R306C|NBEA_uc010teg.1_Missense_Mutation_p.R306C|NBEA_uc001uvd.2_Missense_Mutation_p.R70C	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2513	BEACH.					cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		AGAAGCAGTTCGTGCTCTGAA	0.433													6	10					0	0	1	0	0		T	36202305	T	T	36202305	3	4	70	1	0	0	0	0	1	0	0	0	10205	884	31	1	7731	1	NBEA	13	36202305	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	6110539	36202305	78967573	651	46667											
FREM2	341640	broad.mit.edu	37	chr13	39448644	39448644	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctatccaaccagcatgcgCatcggtgatgaggggcgctt	8	9	12	12	3	1	2	0	2	1	0	3	2	2	2	2	3	3	3	2	3	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:39448644C>T	uc001uwv.2	+	18	8511	c.8202C>T	c.(8200-8202)CGC>CGT	p.R2734R		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2734	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		CCAGCATGCGCATCGGTGATG	0.468													25	45					0	0	1	0	0		T	39448644	T	T	39448644	2	4	70	1	0	0	0	0	0	0	0	1	6059	697	25	2		2	FREM2	13	39448644	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3246339	39448644	75721234	652	46668											
AKAP11	11215	broad.mit.edu	37	chr13	42874908	42874908	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacgcctgcatctccacagTgtgggtcgtttgactttgaa	9	12	10	10	2	1	2	0	2	1	0	3	2	1	2	2	1	2	2	2	1	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:42874908T>G	uc001uys.1	+	8	2201	c.2026T>G	c.(2026-2028)TGT>GGT	p.C676G		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	676					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		ATCTCCACAGTGTGGGTCGTT	0.413													13	87					0	0	1	0	0		G	42874908	G	G	42874908	3	3	70	1	0	0	0	0	1	0	0	0	447	1696	59	5	2048	5	AKAP11	13	42874908	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	3426264	42874908	72294970	653	46669											
MLNR	2862	broad.mit.edu	37	chr13	49795274	49795274	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgcctcagcatcctctaCgggctcatcgggcgggagct	5	9	13	14	3	3	0	2	0	1	0	5	1	4	1	2	3	4	3	2	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:49795274C>T	uc010tgj.1	+	1	801	c.801C>T	c.(799-801)TAC>TAT	p.Y267Y		NM_001507	NP_001498	O43193	MTLR_HUMAN	motilin receptor	267	Helical; Name=5; (Potential).				digestion	integral to plasma membrane	growth hormone-releasing hormone receptor activity				0		all_lung(13;8.31e-06)|Lung NSC(96;0.000251)|Breast(56;0.0008)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;6.1e-09)		GCATCCTCTACGGGCTCATCG	0.726													21	26					0	0	1	0	0		T	49795274	T	T	49795274	2	4	70	1	0	0	0	0	0	0	0	1	9650	547	19	1		1	MLNR	13	49795274	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	6920366	49795274	65374604	654	46670											
SETDB2	83852	broad.mit.edu	37	chr13	50065970	50065970	+	Frame_Shift_Del	DEL	A	-	-																															tgtggggttaataaatgtagAaaaaaaatattataaatatg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:50065970delA	uc001vcz.2	+	15	3051	c.2145delA	c.(2143-2145)AGAfs	p.R715fs	SETDB2_uc001vda.2_Frame_Shift_Del_p.R703fs	NM_031915	NP_114121	Q96T68	SETB2_HUMAN	SET domain, bifurcated 2 isoform a	715					cell division|chromosome segregation|heart looping|left/right axis specification|mitosis|negative regulation of transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone methyltransferase activity (H3-K9 specific)|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;0.000408)|Breast(56;0.00131)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.1e-09)		ATAAATGTAGAAAAAAAATAT	0.373													32	65	---	---	---	---						.	-	50065970	-	-	50065970	7	5	70	1	0	1	0	1	0	0	0	0	14164	243	9	0	2199	0	SETDB2	13	50065970	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	270696	50065970	65103908	655	46671											
PCDH17	27253	broad.mit.edu	37	chr13	58208087	58208087	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagacgagaacgacaacccGcctcggttcaccaaagggct	12	5	10	14	4	1	2	1	0	0	2	2	4	1	2	3	2	2	2	3	2	4	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:58208087G>A	uc001vhq.1	+	1	2299	c.1407G>A	c.(1405-1407)CCG>CCA	p.P469P	PCDH17_uc010aec.1_Silent_p.P469P	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	469	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		ACGACAACCCGCCTCGGTTCA	0.612													11	22					0	0	1	0	0		A	58208087	A	A	58208087	2	1	70	1	0	0	0	0	0	0	0	1	11531	1074	38	1		1	PCDH17	13	58208087	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	8142117	58208087	56961791	656	46672											
PCDH9	5101	broad.mit.edu	37	chr13	67802376	67802376	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccccagctttagaaaccAgtctgtagacaaggctggcg	11	8	10	12	1	1	2	0	0	1	2	2	2	2	2	3	2	2	3	3	2	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:67802376A>C	uc001vik.2	-	2	889	c.197T>G	c.(196-198)CTG>CGG	p.L66R	PCDH9_uc001vil.2_Missense_Mutation_p.L66R|PCDH9_uc010thl.1_Missense_Mutation_p.L66R|PCDH9_uc001vin.3_Missense_Mutation_p.L66R	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	66	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		TTTAGAAACCAGTCTGTAGAC	0.468													26	59					0	0	1	0	0		C	67802376	C	C	67802376	3	2	70	1	0	0	0	0	1	0	0	0	11537	188	7	5	3532	5	PCDH9	13	67802376	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	9594289	67802376	47367502	657	46673											
MYCBP2	23077	broad.mit.edu	37	chr13	77672167	77672167	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatgtactatgccttcaTgccagaggaaggaagcaaac	14	8	9	10	0	2	1	2	0	0	1	2	3	2	3	2	2	5	2	2	2	5	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:77672167T>C	uc001vkf.2	-	57	9099	c.9008A>G	c.(9007-9009)CAT>CGT	p.H3003R	MYCBP2_uc010aev.2_Missense_Mutation_p.H2407R|MYCBP2_uc001vkg.1_Missense_Mutation_p.H526R|MYCBP2_uc010aew.2_Missense_Mutation_p.H389R	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3003					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TATGCCTTCATGCCAGAGGAA	0.448													39	54					0	0	1	0	0		C	77672167	C	C	77672167	3	2	70	1	0	0	0	0	1	0	0	0	10036	1464	51	3	5026	3	MYCBP2	13	77672167	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	9869791	77672167	37497711	658	46674											
MYCBP2	23077	broad.mit.edu	37	chr13	77755995	77755995	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaacagacgtgtgacacagAgctgacataacagctgcaag	15	7	10	9	1	0	4	0	2	0	2	0	4	0	4	0	0	5	3	0	0	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:77755995A>T	uc001vkf.2	-	34	4759	c.4668T>A	c.(4666-4668)GCT>GCA	p.A1556A	MYCBP2_uc010aev.2_Silent_p.A960A	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1556					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TGTGACACAGAGCTGACATAA	0.403													27	55					0	0	1	0	0		T	77755995	T	T	77755995	2	4	70	1	0	0	0	0	0	0	0	1	10036	291	11	5		5	MYCBP2	13	77755995	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	83828	77755995	37413883	659	46675											
GPC5	2262	broad.mit.edu	37	chr13	92560303	92560303	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttattgataaactgaagcatGttgttcaggtaagtcctgat	12	15	9	5	0	1	3	1	3	0	0	2	3	2	3	1	1	2	4	1	1	5	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:92560303G>C	uc010tif.1	+	6	1759	c.1393G>C	c.(1393-1395)GTT>CTT	p.V465L		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	465						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				ACTGAAGCATGTTGTTCAGGT	0.323													20	44					0	0	1	0	0		C	92560303	C	C	92560303	3	2	70	1	0	0	0	0	1	0	0	0	6616	1377	48	5	1415	5	GPC5	13	92560303	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	14804308	92560303	22609575	660	46676											
ABCC4	10257	broad.mit.edu	37	chr13	95735432	95735432	+	Frame_Shift_Del	DEL	A	-	-																															tcacatctcttgacgtttccAaaaaatatcgccgaagaaaa																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:95735432delA	uc001vmd.3	-	21	2767	c.2648delT	c.(2647-2649)TTGfs	p.L883fs	ABCC4_uc010afk.2_Frame_Shift_Del_p.L836fs	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	883	ABC transmembrane type-1 2.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	TGACGTTTCCAAAAAATATCG	0.443													24	42	---	---	---	---						.	-	95735432	-	-	95735432	7	5	70	1	0	1	0	1	0	0	0	0	55	131	5	0	1373	0	ABCC4	13	95735432	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	3175129	95735432	19434446	661	46677											
PCCA	5095	broad.mit.edu	37	chr13	100953844	100953844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggctgggcagttgaatgtcGggtttatgctgaggtaaaat	9	12	15	5	2	0	2	0	2	0	0	1	2	0	2	0	4	1	6	0	4	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:100953844G>A	uc001voo.2	+	13	1234	c.1196G>A	c.(1195-1197)CGG>CAG	p.R399Q	PCCA_uc010aga.2_Missense_Mutation_p.R373Q|PCCA_uc010tiz.1_Missense_Mutation_p.R399Q|PCCA_uc001vop.2_RNA	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	399	Biotin carboxylation.		R -> Q (in PA-1).		fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	GTTGAATGTCGGGTTTATGCT	0.488													40	67					0	0	1	0	0		A	100953844	A	A	100953844	3	1	70	1	0	0	0	0	1	0	0	0	11523	1116	39	1	1246	1	PCCA	13	100953844	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	5218412	100953844	14216034	662	46678											
MYO16	23026	broad.mit.edu	37	chr13	109661393	109661393	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagttttggactttttttTccaggtattcatataatata	10	20	7	4	0	1	0	1	0	0	0	2	2	2	2	1	3	0	2	1	3	5	12			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:109661393T>C	uc001vqt.1	+	22	2651	c.2525T>C	c.(2524-2526)TTC>TCC	p.F842S	MYO16_uc010agk.1_Missense_Mutation_p.F864S|MYO16_uc001vqu.1_Missense_Mutation_p.F642S|MYO16_uc010tjh.1_Missense_Mutation_p.F354S	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	842					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			GACTTTTTTTTCCAGGTATTC	0.353													21	51					0	0	1	0	0		C	109661393	C	C	109661393	3	2	70	1	0	0	0	0	1	0	0	0	10082	1783	62	3	2607	3	MYO16	13	109661393	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	8707549	109661393	5508485	663	46679											
F10	2159	broad.mit.edu	37	chr13	113795330	113795330	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctgcgcccgcgggtacacCctggctgacaacggcaaggc	7	5	13	16	4	0	1	0	1	0	0	1	1	1	1	3	4	3	3	3	4	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:113795330C>A	uc001vsx.2	+	5	525	c.468C>A	c.(466-468)ACC>ACA	p.T156T	F10_uc010agq.1_RNA|F10_uc001vsy.2_Silent_p.T156T|F10_uc001vsz.2_Silent_p.T156T	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	156	EGF-like 2.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCGGGTACACCCTGGCTGACA	0.662													19	43					6.94344e-10	7.26579e-10	1	1	0		A	113795330	A	A	113795330	2	1	70	1	0	0	0	0	0	0	0	1	5344	610	22	5		5	F10	13	113795330	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4133937	113795330	1374548	664	46680											
TMCO3	55002	broad.mit.edu	37	chr13	114202753	114202753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgggcgcgaagagcgggcGtcatctctcgggaggtgagt	6	6	19	10	6	2	2	1	1	1	1	4	4	2	3	1	4	1	0	1	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:114202753G>A	uc001vtu.3	+	12	2267	c.1906G>A	c.(1906-1908)GTC>ATC	p.V636I		NM_017905	NP_060375	Q6UWJ1	TMCO3_HUMAN	transmembrane and coiled-coil domains 3	636						integral to membrane	solute:hydrogen antiporter activity				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0145)|all_epithelial(44;0.00286)|all_lung(25;0.0273)|Breast(118;0.0411)|Lung NSC(25;0.0983)	all cancers(43;0.0317)			AAGAGCGGGCGTCATCTCTCG	0.677													23	35					0	0	1	0	0		A	114202753	A	A	114202753	3	1	70	1	0	0	0	0	1	0	0	0	16022	1145	40	1	1948	1	TMCO3	13	114202753	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	407423	114202753	967125	665	46681											
CDC16	8881	broad.mit.edu	37	chr13	115028389	115028389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggattaccaccgtcaggCactggtgttgattcctcaga	8	12	10	11	1	2	2	2	1	0	1	3	3	3	3	3	3	1	2	3	3	1	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr13:115028389C>T	uc001vuk.1	+	16	1610	c.1412C>T	c.(1411-1413)GCA>GTA	p.A471V	CDC16_uc001vul.1_Missense_Mutation_p.A471V|CDC16_uc001vum.1_Missense_Mutation_p.A377V|CDC16_uc001vun.1_Missense_Mutation_p.A470V|CDC16_uc001vuo.1_Missense_Mutation_p.A419V	NM_003903	NP_003894	Q13042	CDC16_HUMAN	anaphase-promoting complex, subunit 6	471	TPR 6.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cell proliferation|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	binding				0	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)			CACCGTCAGGCACTGGTGTTG	0.443													35	68					0	0	1	0	0		T	115028389	T	T	115028389	3	4	70	1	0	0	0	0	1	0	0	0	3061	710	25	2	1474	2	CDC16	13	115028389	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	825636	115028389	141489	666	46682											
OR4K15	81127	broad.mit.edu	37	chr14	20444431	20444431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacttgttacagttaggaatCgctcctctgcaagcatggcg	9	12	10	10	2	1	0	0	0	1	0	3	1	2	1	1	2	4	5	1	2	5	4	rs140788284	by1000genomes	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:20444431C>T	uc010tkx.1	+	1	754	c.754C>T	c.(754-756)CGC>TGC	p.R252C		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	252	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AGTTAGGAATCGCTCCTCTGC	0.453													44	99					0	0	1	0	0		T	20444431	T	T	20444431	3	4	70	1	0	0	0	0	1	0	0	0	11089	884	31	1	756	1	OR4K15	14	20444431	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08		20444431	86905109	667	46683											
PARP2	10038	broad.mit.edu	37	chr14	20822321	20822321	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctagatcttcgggtacaGgagttaataaagttgatctg	12	12	11	6	1	2	2	0	1	2	1	3	3	2	3	0	2	2	4	0	2	5	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:20822321G>T	uc001vxc.2	+	8	745	c.717G>T	c.(715-717)CAG>CAT	p.Q239H	PARP2_uc001vxd.2_Missense_Mutation_p.Q226H|PARP2_uc001vxb.1_Missense_Mutation_p.Q239H|PARP2_uc010tle.1_Translation_Start_Site	NM_005484	NP_005475	Q9UGN5	PARP2_HUMAN	poly (ADP-ribose) polymerase family, member 2	239	PARP alpha-helical.				protein ADP-ribosylation	nucleolus|nucleoplasm	DNA binding|NAD+ ADP-ribosyltransferase activity			ovary(1)|pancreas(1)	2	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;5.34e-07)|all cancers(55;3.7e-06)	GBM - Glioblastoma multiforme(265;0.00888)|READ - Rectum adenocarcinoma(17;0.0649)		TTCGGGTACAGGAGTTAATAA	0.383								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					37	75					8.73648e-17	9.40402e-17	1	1	0		T	20822321	T	T	20822321	3	4	70	1	0	0	0	0	1	0	0	0	11480	991	35	5	747	5	PARP2	14	20822321	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	377890	20822321	86527219	668	46684											
TEP1	7011	broad.mit.edu	37	chr14	20851686	20851686	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atccagtctgaaatcagctgCccattctggtccactaacct	10	11	6	14	0	3	1	1	1	2	0	5	1	5	1	4	1	3	1	4	1	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:20851686C>T	uc001vxe.2	-	26	3868	c.3828G>A	c.(3826-3828)GGG>GGA	p.G1276G	TEP1_uc010ahk.2_Silent_p.G626G|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Silent_p.G1168G|TEP1_uc010tlh.1_5'Flank	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1276	NACHT.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		AAATCAGCTGCCCATTCTGGT	0.597													11	32					0	0	1	0	0		T	20851686	T	T	20851686	2	4	70	1	0	0	0	0	0	0	0	1	15784	726	26	2		2	TEP1	14	20851686	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	29365	20851686	86497854	669	46685											
PSMB5	5693	broad.mit.edu	37	chr14	23495375	23495375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggatccagccatcctcccGcacgtggtagaggttgactg	7	9	12	13	3	0	2	0	1	0	1	4	3	3	3	4	3	1	3	4	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:23495375G>A	uc001wii.2	-	3	979	c.715C>T	c.(715-717)CGG>TGG	p.R239W	PSMB5_uc001wij.2_3'UTR|PSMB5_uc010tni.1_Missense_Mutation_p.R136W	NM_002797	NP_002788	P28074	PSB5_HUMAN	proteasome beta 5 subunit isoform 1	239					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus	protein binding|threonine-type endopeptidase activity			ovary(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.0121)	Bortezomib(DB00188)	CCATCCTCCCGCACGTGGTAG	0.562													39	72					0	0	1	0	0		A	23495375	A	A	23495375	3	1	70	1	0	0	0	0	1	0	0	0	12702	1086	38	1	80	1	PSMB5	14	23495375	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2643689	23495375	83854165	670	46686											
MYH6	4624	broad.mit.edu	37	chr14	23855198	23855198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctgctccgccagcttcCgggaccgctctgtctgctcc	2	10	10	19	3	2	0	0	0	2	0	6	1	6	1	6	1	3	5	6	1	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:23855198C>T	uc001wjv.2	-	34	5169	c.5102G>A	c.(5101-5103)CGG>CAG	p.R1701Q		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1701	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CGCCAGCTTCCGGGACCGCTC	0.637													25	30					0	0	1	0	0		T	23855198	T	T	23855198	3	4	70	1	0	0	0	0	1	0	0	0	10056	652	23	1	741	1	MYH6	14	23855198	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	359823	23855198	83494342	671	46687											
JPH4	84502	broad.mit.edu	37	chr14	24045100	24045100	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtggtgcgcccgtagccGtgccgccggttgcccagcca	3	6	16	16	6	0	0	0	0	0	0	0	0	0	0	6	3	5	2	6	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:24045100G>A	uc001wkq.2	-	4	1863	c.945C>T	c.(943-945)CAC>CAT	p.H315H	JPH4_uc010tnr.1_5'Flank|JPH4_uc001wkr.2_Silent_p.H315H|JPH4_uc001wks.2_Silent_p.H315H	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	315	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		GCCCGTAGCCGTGCCGCCGGT	0.751													3	10					0	0	1	0	0		A	24045100	A	A	24045100	2	1	70	1	0	0	0	0	0	0	0	1	7979	1136	40	1		1	JPH4	14	24045100	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	189902	24045100	83304440	672	46688											
NYNRIN	57523	broad.mit.edu	37	chr14	24882594	24882594	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggccgtgatggccccacCttggatgagtttctgaagaa	8	10	13	10	1	1	4	0	3	1	1	1	5	1	5	4	3	0	1	4	3	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:24882594C>T	uc001wpf.3	+	8	3135	c.2817C>T	c.(2815-2817)ACC>ACT	p.T939T		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	939					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						ATGGCCCCACCTTGGATGAGT	0.592													13	12					0	0	1	0	0		T	24882594	T	T	24882594	2	4	70	1	0	0	0	0	0	0	0	1	10815	668	24	4		4	NYNRIN	14	24882594	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	837494	24882594	82466946	673	46689											
CBLN3	643866	broad.mit.edu	37	chr14	24898055	24898055	+	Frame_Shift_Del	DEL	G	-	-																															cagcaaatgccactcgcccaGggggtgcctctcccagggct																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:24898055delG	uc001wpg.3	-	1	677	c.206delC	c.(205-207)CCTfs	p.P69fs	KHNYN_uc010tpc.1_5'Flank|KHNYN_uc001wph.3_5'Flank|KHNYN_uc010alw.2_5'Flank	NM_001039771	NP_001034860	Q6UW01	CBLN3_HUMAN	cerebellin 3 precursor	69	C1q.					cell junction|extracellular region|synapse				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(265;0.00159)		CACTCGCCCAGGGGGTGCCTC	0.677													6	10	---	---	---	---						.	-	24898055	-	-	24898055	7	5	70	1	0	1	0	1	0	0	0	0	2709	1000	35	0	423	0	CBLN3	14	24898055	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	15461	24898055	82451485	674	46690											
HECTD1	25831	broad.mit.edu	37	chr14	31574621	31574621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatttgtttctgaatacccGtatgcatacaaaagtcaaac	14	12	5	10	1	2	1	1	1	1	0	2	1	2	1	2	0	4	3	2	0	7	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:31574621G>A	uc001wrc.1	-	40	7856	c.7367C>T	c.(7366-7368)ACG>ATG	p.T2456M	HECTD1_uc001wra.1_Missense_Mutation_p.T582M|HECTD1_uc001wrb.1_Missense_Mutation_p.T582M	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	2456	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		CTGAATACCCGTATGCATACA	0.323													47	137					0	0	1	0	0		A	31574621	A	A	31574621	3	1	70	1	0	0	0	0	1	0	0	0	7055	1145	40	1	481	1	HECTD1	14	31574621	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6676566	31574621	75774919	675	46691											
HECTD1	25831	broad.mit.edu	37	chr14	31613392	31613392	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaattgtgttttcatcCttcaaaagtacaattaggtt	12	16	8	5	0	2	1	2	1	0	0	3	1	3	1	1	2	1	3	1	2	6	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:31613392C>A	uc001wrc.1	-	17	3192	c.2703G>T	c.(2701-2703)AAG>AAT	p.K901N	HECTD1_uc001wrd.1_Missense_Mutation_p.K416N	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	901					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		TGTTTTCATCCTTCAAAAGTA	0.318													18	36					1.56452e-12	1.66656e-12	1	1	0		A	31613392	A	A	31613392	3	1	70	1	0	0	0	0	1	0	0	0	7055	680	24	5	5237	5	HECTD1	14	31613392	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	38771	31613392	75736148	676	46692											
ARHGAP5	394	broad.mit.edu	37	chr14	32562545	32562545	+	Frame_Shift_Del	DEL	T	-	-																															gttactgacagccaagcagaTttttttgaaaatgaggctat																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:32562545delT	uc001wrl.2	+	2	2909	c.2670delT	c.(2668-2670)GATfs	p.D890fs	ARHGAP5_uc001wrm.2_Frame_Shift_Del_p.D890fs|ARHGAP5_uc001wrn.2_Frame_Shift_Del_p.D890fs|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	890					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		GCCAAGCAGATTTTTTTGAAA	0.403													53	21	---	---	---	---						.	-	32562545	-	-	32562545	7	5	70	1	0	1	0	1	0	0	0	0	886	1490	52	0	2672	0	ARHGAP5	14	32562545	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	949153	32562545	74786995	677	46693											
INSM2	84684	broad.mit.edu	37	chr14	36003563	36003563	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggccccagggggcgccGcccttcttggaggaggctcc	3	6	17	15	2	1	0	0	0	1	0	2	2	2	2	5	7	0	1	5	7	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:36003563G>A	uc001wth.1	+	1	316	c.105G>A	c.(103-105)CCG>CCA	p.P35P		NM_032594	NP_115983	Q96T92	INSM2_HUMAN	insulinoma-associated protein IA-6	35					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)|skin(1)	2	Breast(36;0.122)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(9;2.16e-07)|Lung(238;2.63e-07)|Epithelial(34;0.00145)|all cancers(34;0.00452)	GBM - Glioblastoma multiforme(112;0.0223)		AGGGGGCGCCGCCCTTCTTGG	0.692													9	23					0	0	1	0	0		A	36003563	A	A	36003563	2	1	70	1	0	0	0	0	0	0	0	1	7788	1074	38	1		1	INSM2	14	36003563	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3441018	36003563	71345977	678	46694											
BRMS1L	84312	broad.mit.edu	37	chr14	36334967	36334967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacacagagtgaaaacggaaCgtaagtcatttagtctgagt	15	9	10	7	2	2	3	1	2	1	1	2	4	2	4	0	1	2	1	0	1	5	3	rs150621893		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:36334967C>T	uc001wtl.2	+	8	853	c.727C>T	c.(727-729)CCA>TCA	p.P243S		NM_032352	NP_115728	Q5PSV4	BRM1L_HUMAN	breast cancer metastasis-suppressor 1-like	243					regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				skin(1)	1	Breast(36;0.137)|Hepatocellular(127;0.158)		Lung(8;1.7e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.00467)|all cancers(34;0.0157)|BRCA - Breast invasive adenocarcinoma(188;0.158)	GBM - Glioblastoma multiforme(112;0.0333)		GAAAACGGAACGTAAGTCATT	0.348													30	34					0	0	1	0	0		T	36334967	T	T	36334967	3	4	70	1	0	0	0	0	1	0	0	0	1520	550	19	1	757	1	BRMS1L	14	36334967	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	331404	36334967	71014573	679	46695											
PAX9	5083	broad.mit.edu	37	chr14	37145597	37145597	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacattccggcatcgctggcGttcaagggaatgcaggcagc	9	7	14	11	3	1	0	1	0	0	0	3	2	2	1	1	4	2	5	1	4	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:37145597G>A	uc001wty.3	+	5	1683	c.966G>A	c.(964-966)GCG>GCA	p.A322A	PAX9_uc010amq.2_RNA	NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	322					multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		CATCGCTGGCGTTCAAGGGAA	0.572													17	102					0	0	1	0	0		A	37145597	A	A	37145597	2	1	70	1	0	0	0	0	0	0	0	1	11505	1132	40	1		1	PAX9	14	37145597	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	810630	37145597	70203943	680	46696											
SAMD4A	23034	broad.mit.edu	37	chr14	55169148	55169148	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actctgatgacaagctcaatGggtggcagaactctcgggat	11	9	12	9	1	3	3	1	2	2	1	4	4	3	4	0	3	2	2	0	3	3	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:55169148G>T	uc001xbb.2	+	2	563	c.562G>T	c.(562-564)GGG>TGG	p.G188W	SAMD4A_uc001xba.2_Missense_Mutation_p.G188W|SAMD4A_uc001xbc.2_Missense_Mutation_p.G188W|SAMD4A_uc001xbf.1_RNA|SAMD4A_uc001xbe.2_Missense_Mutation_p.G88W	NM_015589	NP_056404	Q9UPU9	SMAG1_HUMAN	sterile alpha motif domain containing 4 isoform	189					positive regulation of translation	cell junction|cytoplasm|dendrite|synapse|synaptosome	translation repressor activity				0						CAAGCTCAATGGGTGGCAGAA	0.527													7	70					2.0095e-06	2.07201e-06	1	1	0		T	55169148	T	T	55169148	3	4	70	1	0	0	0	0	1	0	0	0	13846	1348	47	5	568	5	SAMD4A	14	55169148	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	18023551	55169148	52180392	681	46697											
KTN1	3895	broad.mit.edu	37	chr14	56101252	56101252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactgttttcaggcagtctgCagaactaaataaactacgcc	13	11	7	10	1	2	1	1	0	1	1	2	1	2	1	1	1	5	3	1	1	7	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:56101252C>T	uc001xcb.2	+	10	1639	c.1337C>T	c.(1336-1338)GCA>GTA	p.A446V	KTN1_uc001xce.2_Missense_Mutation_p.A446V|KTN1_uc001xcc.2_Missense_Mutation_p.A446V|KTN1_uc001xcd.2_Missense_Mutation_p.A446V|KTN1_uc010trb.1_Missense_Mutation_p.A446V|KTN1_uc001xcf.1_Missense_Mutation_p.A446V	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	446	Lumenal (Potential).|Potential.				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						AGGCAGTCTGCAGAACTAAAT	0.378			T	RET	papillary thryoid								17	30					0	0	1	0	0		T	56101252	T	T	56101252	3	4	70	1	0	0	0	0	1	0	0	0	8601	710	25	2	1367	2	KTN1	14	56101252	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	932104	56101252	51248288	682	46698											
GPR135	64582	broad.mit.edu	37	chr14	59931390	59931390	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctgaagaagcggctggcGgcgcagaagccgcgccaggg	9	2	19	11	5	0	3	0	1	0	2	0	4	0	3	2	4	3	3	2	4	3	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:59931390G>A	uc010apj.2	-	1	670	c.555C>T	c.(553-555)GCC>GCT	p.A185A	GPR135_uc001xed.2_RNA	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	185	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		AGCGGCTGGCGGCGCAGAAgc	0.572													7	8					0	0	1	0	0		A	59931390	A	A	59931390	2	1	70	1	0	0	0	0	0	0	0	1	6659	1103	39	1		1	GPR135	14	59931390	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3830138	59931390	47418150	683	46699											
SYNE2	23224	broad.mit.edu	37	chr14	64653226	64653226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttaacccggcacgttctcGtggaagatgtgatggttttg	8	13	12	8	3	1	2	0	1	1	1	2	3	1	3	1	3	1	3	1	3	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:64653226G>A	uc001xgm.2	+	97	17871	c.17641G>A	c.(17641-17643)GTG>ATG	p.V5881M	SYNE2_uc001xgl.2_Missense_Mutation_p.V5881M|SYNE2_uc010apy.2_Missense_Mutation_p.V2266M|SYNE2_uc001xgn.2_Missense_Mutation_p.V843M|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Translation_Start_Site|SYNE2_uc001xgq.2_Missense_Mutation_p.V246M	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5881	Spectrin 4.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GCACGTTCTCGTGGAAGATGT	0.473													65	109					0	0	1	0	0		A	64653226	A	A	64653226	3	1	70	1	0	0	0	0	1	0	0	0	15471	1145	40	1	18023	1	SYNE2	14	64653226	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4721836	64653226	42696314	684	46700											
SPTB	6710	broad.mit.edu	37	chr14	65239523	65239523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaggtctgcccacatctcGttcagcccgtccttccactc	6	10	8	17	2	3	0	1	0	2	0	7	1	5	1	4	2	2	1	4	2	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:65239523G>A	uc001xht.2	-	25	5382	c.5328C>T	c.(5326-5328)AAC>AAT	p.N1776N	SPTB_uc001xhr.2_Silent_p.N1776N|SPTB_uc001xhs.2_Silent_p.N1776N|SPTB_uc001xhu.2_Silent_p.N1776N|SPTB_uc010aqi.2_Silent_p.N437N	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1776	Spectrin 15.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		CCCACATCTCGTTCAGCCCGT	0.637													28	34					0	0	1	0	0		A	65239523	A	A	65239523	2	1	70	1	0	0	0	0	0	0	0	1	15143	1136	40	1		1	SPTB	14	65239523	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	586297	65239523	42110017	685	46701											
MAX	4149	broad.mit.edu	37	chr14	65543322	65543322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttggtgtagaggctgttgtCtgaggaggggtagttggtct	5	14	19	3	0	2	2	0	1	2	1	2	3	2	3	0	6	0	6	0	6	2	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:65543322C>T	uc001xif.1	-	5	525	c.355G>A	c.(355-357)GAC>AAC	p.D119N	MAX_uc001xic.1_Intron|MAX_uc001xie.1_3'UTR|MAX_uc010aql.1_Silent_p.Q32Q|MAX_uc001xig.1_Missense_Mutation_p.D110N|MAX_uc001xih.1_RNA	NM_002382	NP_002373	P61244	MAX_HUMAN	MAX protein isoform a	119					transcription from RNA polymerase II promoter	cytoplasm|MLL1 complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			lung(1)	1				all cancers(60;0.000776)|OV - Ovarian serous cystadenocarcinoma(108;0.00359)|BRCA - Breast invasive adenocarcinoma(234;0.00999)		AGGCTGTTGTCTGAGGAGGGG	0.582													58	116					0	0	1	0	0		T	65543322	T	T	65543322	3	4	70	1	0	0	0	0	1	0	0	0	9357	913	32	4	216	4	MAX	14	65543322	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	303799	65543322	41806218	686	46702											
PLEKHH1	57475	broad.mit.edu	37	chr14	68045999	68045999	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actccttgcccttcagcatcCccgtgcactttaccaacggg	7	10	7	17	2	1	0	1	0	0	0	3	0	3	0	5	1	5	2	5	1	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:68045999C>A	uc001xjl.1	+	21	3140	c.2998C>A	c.(2998-3000)CCC>ACC	p.P1000T	PLEKHH1_uc010tsw.1_Missense_Mutation_p.P568T|PLEKHH1_uc001xjn.1_Missense_Mutation_p.P515T|PLEKHH1_uc010tsx.1_5'UTR|PLEKHH1_uc001xjo.1_5'Flank|PLEKHH1_uc001xjp.1_5'Flank	NM_020715	NP_065766	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H	1000	FERM.					cytoskeleton	binding				0				all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)		CTTCAGCATCCCCGTGCACTT	0.612													4	8					0.000602214	0.000612541	1	1	0		A	68045999	A	A	68045999	3	1	70	1	0	0	0	0	1	0	0	0	12095	623	22	5	3076	5	PLEKHH1	14	68045999	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2502677	68045999	39303541	687	46703											
PCNX	22990	broad.mit.edu	37	chr14	71555941	71555941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attcctctatggattgcatgCcctatttaaaggagatttcc	10	15	7	9	0	1	1	0	0	1	1	3	3	3	2	3	2	2	1	3	2	4	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:71555941C>T	uc001xmo.2	+	30	5917	c.5471C>T	c.(5470-5472)GCC>GTC	p.A1824V	PCNX_uc010are.1_Missense_Mutation_p.A1713V|PCNX_uc010arf.1_Missense_Mutation_p.A612V	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1824						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		GGATTGCATGCCCTATTTAAA	0.343													34	50					0	0	1	0	0		T	71555941	T	T	71555941	3	4	70	1	0	0	0	0	1	0	0	0	11610	739	26	2	5589	2	PCNX	14	71555941	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3509942	71555941	35793599	688	46704											
SIPA1L1	26037	broad.mit.edu	37	chr14	72117105	72117105	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaagctggacagagcacTgaagaagagatgtacaacaa	18	5	11	7	0	0	4	0	1	0	3	0	6	0	5	0	1	5	4	0	1	6	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:72117105T>C	uc001xms.2	+	5	2220	c.1872T>C	c.(1870-1872)ACT>ACC	p.T624T	SIPA1L1_uc001xmt.2_Silent_p.T624T|SIPA1L1_uc001xmu.2_Silent_p.T624T|SIPA1L1_uc001xmv.2_Silent_p.T624T|SIPA1L1_uc010ttm.1_Silent_p.T99T	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	624	Rap-GAP.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		GACAGAGCACTGAAGAAGAGA	0.443													24	160					0	0	1	0	0		C	72117105	C	C	72117105	2	2	70	1	0	0	0	0	0	0	0	1	14354	1567	55	3		3	SIPA1L1	14	72117105	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	561164	72117105	35232435	689	46705											
RGS6	9628	broad.mit.edu	37	chr14	72976908	72976908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagatggggcttctctttcGatgagatattgaaggaccag	12	11	12	6	1	1	3	0	2	1	2	3	6	1	4	1	3	0	1	1	3	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:72976908G>A	uc001xna.3	+	14	1535	c.1012G>A	c.(1012-1014)GAT>AAT	p.D338N	RGS6_uc010ttn.1_Missense_Mutation_p.D338N|RGS6_uc001xmx.3_Missense_Mutation_p.D338N|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.D338N|RGS6_uc010ttp.1_Missense_Mutation_p.D269N|RGS6_uc001xmz.1_Missense_Mutation_p.D199N	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	338	RGS.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		CTTCTCTTTCGATGAGATATT	0.458													65	106					0	0	1	0	0		A	72976908	A	A	72976908	3	1	70	1	0	0	0	0	1	0	0	0	13334	1058	37	1	1062	1	RGS6	14	72976908	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	859803	72976908	34372632	690	46706											
PAPLN	89932	broad.mit.edu	37	chr14	73717689	73717689	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtgtgggggtgacggcacGacctgctaccccgtcgcagg	5	6	17	13	5	0	1	0	1	0	0	1	2	0	1	3	5	2	3	3	5	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:73717689G>A	uc010ttx.1	+	6	703	c.540G>A	c.(538-540)ACG>ACA	p.T180T	PAPLN_uc001xnw.3_Silent_p.T180T|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Silent_p.T180T	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	180						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GTGACGGCACGACCTGCTACC	0.642													21	39					0	0	1	0	0		A	73717689	A	A	73717689	2	1	70	1	0	0	0	0	0	0	0	1	11447	1045	37	1		1	PAPLN	14	73717689	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	740781	73717689	33631851	691	46707											
C14orf115	55237	broad.mit.edu	37	chr14	74824474	74824474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttccaccgggggggcgtcGtgccacttcagcagttcctc	4	9	13	15	3	1	0	1	0	0	0	5	0	3	0	4	3	2	3	4	3	0	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:74824474G>A	uc001xpw.3	+	2	1179	c.988G>A	c.(988-990)GTG>ATG	p.V330M		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	330					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		GGGGGGCGTCGTGCCACTTCA	0.662													23	47					0	0	1	0	0		A	74824474	A	A	74824474	3	1	70	1	0	0	0	0	1	0	0	0	1743	1145	40	1	990	1	C14orf115	14	74824474	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1106785	74824474	32525066	692	46708											
RPS6KL1	83694	broad.mit.edu	37	chr14	75376598	75376598	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggtgctggtcctggctgtGggttcaccttcagcctccct	3	12	13	13	0	2	0	2	0	0	0	4	1	4	0	4	4	2	3	4	4	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:75376598G>A	uc010tux.1	-	7	1446	c.918C>T	c.(916-918)CCC>CCT	p.P306P	RPS6KL1_uc001xqx.1_Silent_p.P58P|RPS6KL1_uc001xqw.2_Silent_p.P275P|RPS6KL1_uc010asd.1_RNA	NM_031464	NP_113652	Q9Y6S9	RPKL1_HUMAN	ribosomal protein S6 kinase-like 1	306	Protein kinase.					ribosome	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00658)		TCCTGGCTGTGGGTTCACCTT	0.632													13	20					0	0	1	0	0		A	75376598	A	A	75376598	2	1	70	1	0	0	0	0	0	0	0	1	13684	1335	47	4		4	RPS6KL1	14	75376598	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	552124	75376598	31972942	693	46709											
SNW1	22938	broad.mit.edu	37	chr14	78187146	78187146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aataacttcactgatatcccGattttcatttctctgaagtt	11	17	4	9	1	3	2	2	2	1	0	5	3	4	2	1	0	1	1	1	0	4	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:78187146G>A	uc001xuf.2	-	12	1183	c.1156C>T	c.(1156-1158)CGG>TGG	p.R386W	SNW1_uc010tvm.1_Missense_Mutation_p.R311W|SNW1_uc010asu.2_Missense_Mutation_p.R224W|SNW1_uc010tvn.1_Missense_Mutation_p.R386W	NM_012245	NP_036377	Q13573	SNW1_HUMAN	SKI-interacting protein	386					negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|regulation of transcription from RNA polymerase II promoter	catalytic step 2 spliceosome|nucleoplasm	Notch binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		CTGATATCCCGATTTTCATTT	0.373													34	80					0	0	1	0	0		A	78187146	A	A	78187146	3	1	70	1	0	0	0	0	1	0	0	0	14904	1057	37	1	466	1	SNW1	14	78187146	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2810548	78187146	29162394	694	46710											
NRXN3	9369	broad.mit.edu	37	chr14	79432736	79432736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaatgacttcattgcagtcGagcttgtcaaggggtaagta	11	11	12	7	1	2	1	2	1	0	0	3	2	2	1	0	2	2	5	0	2	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:79432736G>A	uc001xun.2	+	9	2136	c.1645G>A	c.(1645-1647)GAG>AAG	p.E549K	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.E674K	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	922	Extracellular (Potential).|Laminin G-like 5.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CATTGCAGTCGAGCTTGTCAA	0.428													51	104					0	0	1	0	0		A	79432736	A	A	79432736	3	1	70	1	0	0	0	0	1	0	0	0	10686	1059	37	1	1671	1	NRXN3	14	79432736	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1245590	79432736	27916804	695	46711											
C14orf145	145508	broad.mit.edu	37	chr14	80963839	80963840	+	Frame_Shift_Ins	INS	-	T	T																															ttttagctcccatattcctcINSttttttgggttgtgaacttg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:80963839_80963840insT	uc001xux.2	-	24	3438_3439	c.3267_3268insA	c.(3265-3270)AAAGAGfs	p.K1089fs	C14orf145_uc010asz.1_Intron	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	1089_1090						centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		CCATATTCCTCTTTTTTGGGTT	0.347													16	28	---	---	---	---						.	T	80963840	T	T	80963839	7	5	70	1	0	1	1	0	0	0	0	0	1752	922	32	0	20	0	C14orf145	14	80963839	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	1531103	80963839	26385701	696	46712											
RPS6KA5	9252	broad.mit.edu	37	chr14	91444703	91444703	+	Frame_Shift_Del	DEL	A	-	-																															aagcataatgtaatgttaccAaaaatggcgactgcctaatg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:91444703delA	uc001xys.2	-	3	556	c.341delT	c.(340-342)TTGfs	p.L114fs	RPS6KA5_uc010twi.1_Frame_Shift_Del_p.L35fs|RPS6KA5_uc001xyt.2_Frame_Shift_Del_p.L114fs|RPS6KA5_uc010att.1_RNA	NM_004755	NP_004746	O75582	KS6A5_HUMAN	ribosomal protein S6 kinase, polypeptide 5	114	Protein kinase 1.				axon guidance|epidermal growth factor receptor signaling pathway|histone phosphorylation|innate immune response|interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|nucleoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1		all_cancers(154;0.0148)|Melanoma(154;0.099)|all_epithelial(191;0.146)		Epithelial(152;0.182)|BRCA - Breast invasive adenocarcinoma(234;0.201)		TAATGTTACCAAAAATGGCGA	0.368													62	112	---	---	---	---						.	-	91444703	-	-	91444703	7	5	70	1	0	1	0	1	0	0	0	0	13679	131	5	0	2133	0	RPS6KA5	14	91444703	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	10480864	91444703	15904837	697	46713											
TRIP11	9321	broad.mit.edu	37	chr14	92472698	92472698	+	Frame_Shift_Del	DEL	T	-	-																															cttcaagttgatgaactctcTttttttcatcatttagatct																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:92472698delT	uc001xzy.2	-	11	2410	c.1622delA	c.(1621-1623)AAGfs	p.K541fs	TRIP11_uc010auf.1_Frame_Shift_Del_p.K277fs	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	541	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		ATGAACTCTCTTTTTTTCATC	0.303			T	PDGFRB	AML								23	44	---	---	---	---						.	-	92472698	-	-	92472698	7	5	70	1	0	1	0	1	0	0	0	0	16581	1609	56	0	4361	0	TRIP11	14	92472698	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	1027995	92472698	14876842	698	46714											
KIAA1409	57578	broad.mit.edu	37	chr14	94046501	94046501	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgatgtctttcagatggagTtacaagatgatggaatcacg	12	13	11	5	1	3	4	2	2	1	2	3	6	3	6	0	2	1	1	0	2	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:94046501T>C	uc001ybv.1	+	16	1992	c.1909T>C	c.(1909-1911)TTA>CTA	p.L637L	KIAA1409_uc001ybs.1_Silent_p.L637L	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	814						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TCAGATGGAGTTACAAGATGA	0.408													26	56					0	0	1	0	0		C	94046501	C	C	94046501	2	2	70	1	0	0	0	0	0	0	0	1	8246	1722	60	3		3	KIAA1409	14	94046501	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1573803	94046501	13303039	699	46715											
SERPINA6	866	broad.mit.edu	37	chr14	94776185	94776185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacagtcccattgcccaCgtagttcatctgcaccagct	10	9	8	14	1	2	1	1	0	1	1	3	2	3	1	3	0	3	4	3	0	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:94776185C>T	uc001ycv.2	-	3	876	c.772G>A	c.(772-774)GTG>ATG	p.V258M	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	258					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	CCATTGCCCACGTAGTTCATC	0.557													22	47					0	0	1	0	0		T	94776185	T	T	94776185	3	4	70	1	0	0	0	0	1	0	0	0	14118	536	19	1	457	1	SERPINA6	14	94776185	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	729684	94776185	12573355	700	46716											
PAPOLA	10914	broad.mit.edu	37	chr14	97002284	97002284	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacccacaacagaactccacGtacaatgtgtccgtttcaac	13	9	5	14	2	1	1	1	0	0	1	3	1	3	1	3	0	5	2	3	0	6	3	rs144379355		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:97002284G>A	uc001yfq.2	+	11	1188	c.978G>A	c.(976-978)ACG>ACA	p.T326T	PAPOLA_uc001yfr.2_Silent_p.T326T|PAPOLA_uc010twv.1_Silent_p.T326T|PAPOLA_uc010avp.2_Silent_p.T76T	NM_032632	NP_116021	P51003	PAPOA_HUMAN	poly(A) polymerase alpha	326					mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cytoplasm|nucleoplasm	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|RNA binding				0		all_cancers(154;0.0555)|all_epithelial(191;0.149)|Melanoma(154;0.155)		COAD - Colon adenocarcinoma(157;0.213)		AGAACTCCACGTACAATGTGT	0.403													27	40					0	0	1	0	0		A	97002284	A	A	97002284	2	1	70	1	0	0	0	0	0	0	0	1	11448	1132	40	1		1	PAPOLA	14	97002284	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2226099	97002284	10347256	701	46717											
PPP2R5C	5527	broad.mit.edu	37	chr14	102368059	102368059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtcatttcttttgtaggtgGtgatggcacttctcaaatac	8	17	9	7	0	3	1	2	1	2	0	4	1	3	1	0	3	1	2	0	3	3	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:102368059G>A	uc001yko.2	+	9	996	c.856G>A	c.(856-858)GTG>ATG	p.V286M	PPP2R5C_uc010txr.1_Missense_Mutation_p.V317M|PPP2R5C_uc001ykk.2_Missense_Mutation_p.V341M|PPP2R5C_uc010txt.1_Missense_Mutation_p.V276M|PPP2R5C_uc001ykn.2_Missense_Mutation_p.V286M|PPP2R5C_uc001ykp.2_Missense_Mutation_p.V286M|PPP2R5C_uc001ykq.2_Missense_Mutation_p.V184M	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	286					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						TTTGTAGGTGGTGATGGCACT	0.453													29	42					0	0	1	0	0		A	102368059	A	A	102368059	3	1	70	1	0	0	0	0	1	0	0	0	12416	1261	44	4	1259	4	PPP2R5C	14	102368059	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	5365775	102368059	4981481	702	46718											
CDCA4	55038	broad.mit.edu	37	chr14	105478029	105478029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctggggtgccactgtgcGccacgtcccatcctgcgtca	5	8	12	16	3	1	0	1	0	0	0	3	0	3	0	5	2	4	0	5	2	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr14:105478029G>A	uc001yqa.2	-	2	334	c.238C>T	c.(238-240)CGC>TGC	p.R80C	CDCA4_uc001yqb.2_Missense_Mutation_p.R80C	NM_145701	NP_663747	Q9BXL8	CDCA4_HUMAN	cell division cycle associated 4	80						nucleus				ovary(1)	1		all_cancers(154;0.0798)|Melanoma(154;0.155)|all_epithelial(191;0.183)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.142)		GCCACTGTGCGCCACGTCCCA	0.657													17	21					0	0	1	0	0		A	105478029	A	A	105478029	3	1	70	1	0	0	0	0	1	0	0	0	3091	1087	38	1	491	1	CDCA4	14	105478029	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3109970	105478029	1871511	703	46719											
C15orf2	23742	broad.mit.edu	37	chr15	24921893	24921893	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagctccctaggcttgccGattccgctgatgtccggaaa	7	9	10	15	3	0	1	0	1	0	0	3	3	3	2	5	2	2	3	5	2	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:24921893G>T	uc001ywo.2	+	1	1353	c.879G>T	c.(877-879)CCG>CCT	p.P293P		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	293	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		TAGGCTTGCCGATTCCGCTGA	0.622													21	44					1.01871e-10	1.06998e-10	1	1	0		T	24921893	T	T	24921893	2	4	70	1	0	0	0	0	0	0	0	1	1787	1045	37	5		5	C15orf2	15	24921893	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08		24921893	77609499	704	46720											
HERC2	8924	broad.mit.edu	37	chr15	28437133	28437133	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcgaccccgatgactgccAgcagggctcgctgccgtcaa	7	7	12	15	4	1	1	1	1	0	0	2	3	1	1	4	1	4	3	4	1	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:28437133A>C	uc001zbj.2	-	53	8531	c.8425T>G	c.(8425-8427)TGG>GGG	p.W2809G	HERC2_uc001zbk.1_Missense_Mutation_p.W344G	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2809	DOC.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GATGACTGCCAGCAGGGCTCG	0.552											OREG0022997	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	101					0	0	1	0	0		C	28437133	C	C	28437133	3	2	70	1	0	0	0	0	1	0	0	0	7074	188	7	5	6243	5	HERC2	15	28437133	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	3515240	28437133	74094259	705	46721											
MTMR15	22909	broad.mit.edu	37	chr15	31222835	31222835	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtcgagggggcctcccCgacctggtggtgtggaactc	5	8	15	13	2	0	0	0	0	0	0	3	3	1	1	4	5	1	0	4	5	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:31222835C>T	uc001zff.2	+	13	3168	c.2877C>T	c.(2875-2877)CCC>CCT	p.P959P	MTMR15_uc001zfe.2_Silent_p.P564P	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a	959	VRR-NUC.				double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		GGGGCCTCCCCGACCTGGTGG	0.562								Direct_reversal_of_damage|Editing_and_processing_nucleases					24	53					0	0	1	0	0		T	31222835	T	T	31222835	2	4	70	1	0	0	0	0	0	0	0	1	9961	639	23	1		1	MTMR15	15	31222835	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2785702	31222835	71308557	706	46722											
C15orf53	400359	broad.mit.edu	37	chr15	38990601	38990601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacctaactgtgccccgccGttcaccacttcctgtcttcc	5	12	5	19	2	2	0	1	0	1	0	4	0	4	0	7	0	3	1	7	0	2	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:38990601G>A	uc001zkf.1	+	2	405	c.395G>A	c.(394-396)CGT>CAT	p.R132H		NM_207444	NP_997327	Q8NAA6	CO053_HUMAN	hypothetical protein LOC400359	132											0		all_cancers(109;1.75e-13)|all_epithelial(112;1.02e-11)|Lung NSC(122;1.9e-09)|all_lung(180;4.04e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;8.39e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0321)		GTGCCCCGCCGTTCACCACTT	0.552													15	30					0	0	1	0	0		A	38990601	A	A	38990601	3	1	70	1	0	0	0	0	1	0	0	0	1804	1145	40	1	401	1	C15orf53	15	38990601	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	7767766	38990601	63540791	707	46723											
VPS18	57617	broad.mit.edu	37	chr15	41191563	41191563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgaaggtgggcttttcGgccctgctccggatctctac	5	10	12	14	3	1	0	0	0	1	0	4	2	2	1	3	4	3	2	3	4	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:41191563G>A	uc001zne.2	+	4	886	c.547G>A	c.(547-549)GGC>AGC	p.G183S		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	183					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		TGGGCTTTTCGGCCCTGCTCC	0.627													34	61					0	0	1	0	0		A	41191563	A	A	41191563	3	1	70	1	0	0	0	0	1	0	0	0	17220	1116	39	1	561	1	VPS18	15	41191563	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2200962	41191563	61339829	708	46724											
DUOX2	50506	broad.mit.edu	37	chr15	45392015	45392015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgaaggagacgctggccGccgtgcctcgtgacaggatg	9	6	15	11	4	0	3	0	2	0	1	1	5	0	4	3	3	1	1	3	3	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:45392015G>A	uc010bea.2	-	25	3463	c.3260C>T	c.(3259-3261)GCG>GTG	p.A1087V	DUOX2_uc001zun.2_Missense_Mutation_p.A1087V	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1087	Interaction with TXNDC11 (By similarity).|Helical; (Potential).|Ferric oxidoreductase.				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		GACGCTGGCCGCCGTGCCTCG	0.557													33	43					0	0	1	0	0		A	45392015	A	A	45392015	3	1	70	1	0	0	0	0	1	0	0	0	4807	1087	38	1	1426	1	DUOX2	15	45392015	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4200452	45392015	57139377	709	46725											
SLC28A2	9153	broad.mit.edu	37	chr15	45545493	45545493	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacccggggctggagctcaTggtaatcaccagtttagttt	9	11	12	9	1	2	0	2	0	0	0	2	2	2	1	2	4	2	5	2	4	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:45545493T>C	uc001zva.2	+	2	145	c.80T>C	c.(79-81)ATG>ACG	p.M27T		NM_004212	NP_004203	O43868	S28A2_HUMAN	solute carrier family 28 (sodium-coupled	27					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		CTGGAGCTCATGGTAATCACC	0.542													8	17					0	0	1	0	0		C	45545493	C	C	45545493	3	2	70	1	0	0	0	0	1	0	0	0	14557	1478	51	3	82	3	SLC28A2	15	45545493	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	153478	45545493	56985899	710	46726											
FBN1	2200	broad.mit.edu	37	chr15	48936960	48936960	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatctccagcagacgccctcGacgcatgatgccgagccgcc	8	5	11	17	5	1	2	0	1	1	1	3	5	1	2	5	0	3	2	5	0	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:48936960G>A	uc001zwx.1	-	2	335	c.7C>T	c.(7-9)CGA>TGA	p.R3*		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	3					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		AGACGCCCTCGACGCATGATG	0.706													16	30					0	0	1	0	0		A	48936960	A	A	48936960	4	1	70	1	0	0	0	0	0	1	0	0	5716	1066	37	1	8868	1	FBN1	15	48936960	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3391467	48936960	53594432	711	46727											
TRPM7	54822	broad.mit.edu	37	chr15	50885864	50885864	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccagaatgaaatttgtcAtctttttcattgaaatacat	13	16	4	8	0	3	3	2	2	1	1	4	3	4	3	1	0	1	0	1	0	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:50885864A>G	uc001zyt.3	-	25	3822	c.3558T>C	c.(3556-3558)GAT>GAC	p.D1186D	TRPM7_uc010bew.1_Silent_p.D1186D	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	1186	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		GAAATTTGTCATCTTTTTCAT	0.338													18	47					0	0	1	0	0		G	50885864	G	G	50885864	2	3	70	1	0	0	0	0	0	0	0	1	16617	214	8	3		3	TRPM7	15	50885864	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	1948904	50885864	51645528	712	46728											
PYGO1	26108	broad.mit.edu	37	chr15	55841125	55841125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctgtgtatttgccttgcGctttttcttatctgggcttc	3	20	8	10	1	2	0	0	0	2	0	3	0	2	0	2	1	3	3	2	1	3	8	rs147959519		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:55841125G>A	uc010bfl.1	-	2	174	c.118C>T	c.(118-120)CGC>TGC	p.R40C	PYGO1_uc002adf.1_Missense_Mutation_p.R40C	NM_015617	NP_056432	Q9Y3Y4	PYGO1_HUMAN	pygopus homolog 1	40	Nuclear localization signal (Potential).				Wnt receptor signaling pathway	nucleus	zinc ion binding	p.R40C(1)		ovary(1)|skin(1)	2				all cancers(107;0.0131)|GBM - Glioblastoma multiforme(80;0.18)		TTTGCCTTGCGCTTTTTCTTA	0.373													20	47					0	0	1	0	0		A	55841125	A	A	55841125	3	1	70	1	0	0	0	0	1	0	0	0	12888	1087	38	1	1149	1	PYGO1	15	55841125	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4955261	55841125	46690267	713	46729											
MNS1	55329	broad.mit.edu	37	chr15	56735891	56735893	+	In_Frame_Del	DEL	TCT	-	-																															cttgaacttttgccatccgaTcttcttctctttgctgctgc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:56735891_56735893delTCT	uc002adr.2	-	6	1011_1013	c.846_848delAGA	c.(844-849)GAAGAT>GAT	p.E282del	MNS1_uc010bfo.2_In_Frame_Del_p.E150del|TEX9_uc002adp.2_Intron|TEX9_uc010ugl.1_Intron	NM_018365	NP_060835	Q8NEH6	MNS1_HUMAN	meiosis-specific nuclear structural 1	282	Potential.|Glu-rich.				meiosis					ovary(1)	1				all cancers(107;0.0196)|GBM - Glioblastoma multiforme(80;0.101)		TGCCATCCGATCTTCTTCTCTTT	0.369													41	94	---	---	---	---						.	-	56735893	-	-	56735891	7	5	70	1	0	1	0	1	0	0	0	0	9695	1435	50	0	659	0	MNS1	15	56735891	In_Frame_Del	DEL	TCT	TCGA-BR-8368-01A-11D-2340-08	894766	56735891	45795501	714	46730											
SLTM	79811	broad.mit.edu	37	chr15	59185211	59185211	+	Frame_Shift_Del	DEL	T	-	-																															ccttctgtagtctttatctcTttttttatctagactagctc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:59185211delT	uc002afp.2	-	14	1871	c.1783delA	c.(1783-1785)AGAfs	p.R595fs	SLTM_uc002afn.2_Frame_Shift_Del_p.R137fs|SLTM_uc002afo.2_Frame_Shift_Del_p.R577fs|SLTM_uc002afq.2_Frame_Shift_Del_p.R164fs|SLTM_uc010bgd.2_Frame_Shift_Del_p.R164fs	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	595	Arg/Glu-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						TCTTTATCTCTTTTTTTATCT	0.343													21	29	---	---	---	---						.	-	59185211	-	-	59185211	7	5	70	1	0	1	0	1	0	0	0	0	14779	1617	56	0	1353	0	SLTM	15	59185211	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	2449320	59185211	43346181	715	46731											
LDHAL6B	92483	broad.mit.edu	37	chr15	59499250	59499250	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtcaagcaacgcgcatcccGctcaacggcacctggctctt	8	7	9	17	5	3	0	2	0	1	0	4	0	4	0	2	2	3	5	2	2	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:59499250G>A	uc002agb.2	+	1	209	c.111G>A	c.(109-111)CCG>CCA	p.P37P	MYO1E_uc002aga.2_Intron	NM_033195	NP_149972	Q9BYZ2	LDH6B_HUMAN	lactate dehydrogenase A-like 6B	37					glycolysis	cytoplasm	L-lactate dehydrogenase activity|protein binding				0					NADH(DB00157)	CGCGCATCCCGCTCAACGGCA	0.592													5	62					0	0	1	0	0		A	59499250	A	A	59499250	2	1	70	1	0	0	0	0	0	0	0	1	8716	1074	38	1		1	LDHAL6B	15	59499250	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	314039	59499250	43032142	716	46732											
HERC1	8925	broad.mit.edu	37	chr15	63950763	63950763	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgactgagagaagagacagCgctctcatgaccatggttct	11	9	11	10	1	2	5	1	3	2	2	3	7	2	5	1	1	1	2	1	1	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:63950763C>T	uc002amp.2	-	48	9727	c.9579G>A	c.(9577-9579)GCG>GCA	p.A3193A		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	3193					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						GAAGAGACAGCGCTCTCATGA	0.493													14	27					0	0	1	0	0		T	63950763	T	T	63950763	2	4	70	1	0	0	0	0	0	0	0	1	7073	755	27	1		1	HERC1	15	63950763	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4451513	63950763	38580629	717	46733											
CSNK1G1	53944	broad.mit.edu	37	chr15	64499785	64499785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttccaaatcatctctccGgctttgctctaaaagggaag	10	11	9	11	1	3	0	1	0	2	0	6	1	5	1	2	3	1	3	2	3	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:64499785G>A	uc002anf.2	-	7	1168	c.688C>T	c.(688-690)CGG>TGG	p.R230W	CSNK1G1_uc002ane.2_RNA|CSNK1G1_uc002ang.1_Missense_Mutation_p.R230W|CSNK1G1_uc002anh.1_Missense_Mutation_p.R230W|CSNK1G1_uc002anj.2_Missense_Mutation_p.R212W	NM_022048	NP_071331	Q9HCP0	KC1G1_HUMAN	casein kinase 1, gamma 1	230	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0						TCATCTCTCCGGCTTTGCTCT	0.453													8	22					0	0	1	0	0		A	64499785	A	A	64499785	3	1	70	1	0	0	0	0	1	0	0	0	3957	1115	39	1	604	1	CSNK1G1	15	64499785	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	549022	64499785	38031607	718	46734											
PIF1	80119	broad.mit.edu	37	chr15	65114768	65114768	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtggcttggtggagggCaagctcagcctcttcacagg	7	9	15	10	0	3	0	2	0	1	0	3	1	3	1	1	5	3	4	1	5	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:65114768C>A	uc002ant.2	-	3	666	c.600G>T	c.(598-600)TTG>TTT	p.L200F	PIF1_uc002anr.2_5'Flank|PIF1_uc002ans.2_5'Flank|PIF1_uc010uiq.1_Missense_Mutation_p.L200F|PIF1_uc002anu.2_Missense_Mutation_p.L200F	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	200	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0						TGGTGGAGGGCAAGCTCAGCC	0.622													9	26					0.0477658	0.0479786	1	1	0		A	65114768	A	A	65114768	3	1	70	1	0	0	0	0	1	0	0	0	11902	709	25	5	1369	5	PIF1	15	65114768	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	614983	65114768	37416624	719	46735											
CLPX	10845	broad.mit.edu	37	chr15	65444827	65444827	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtcaacctccacacatacGatatcagaattagggacttc	13	11	6	11	1	2	1	2	0	0	1	4	3	3	2	2	1	2	0	2	1	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:65444827G>A	uc002aom.2	-	13	1824	c.1752C>T	c.(1750-1752)ATC>ATT	p.I584I	CLPX_uc010uiu.1_RNA	NM_006660	NP_006651	O76031	CLPX_HUMAN	ClpX caseinolytic protease X homolog precursor	584					protein folding|proteolysis involved in cellular protein catabolic process	mitochondrial endopeptidase Clp complex|mitochondrial inner membrane|mitochondrial nucleoid	ATP binding|ATPase activity|metal ion binding|peptidase activator activity|unfolded protein binding				0						CCACACATACGATATCAGAAT	0.338													18	43					0	0	1	0	0		A	65444827	A	A	65444827	2	1	70	1	0	0	0	0	0	0	0	1	3559	1048	37	1		1	CLPX	15	65444827	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	330059	65444827	37086565	720	46736											
PTPLAD1	51495	broad.mit.edu	37	chr15	65863951	65863951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcacatggcttcgttacaCtctgtggattcccttatatc	7	15	7	12	1	2	0	1	0	1	0	5	1	3	1	1	2	1	3	1	2	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:65863951C>T	uc002apc.2	+	9	987	c.839C>T	c.(838-840)ACT>ATT	p.T280I	PTPLAD1_uc002apb.1_RNA|PTPLAD1_uc010uiw.1_Missense_Mutation_p.T225I	NM_016395	NP_057479	Q9P035	HACD3_HUMAN	protein tyrosine phosphatase-like A domain	280	Helical; (Potential).				activation of JUN kinase activity|fatty acid biosynthetic process|I-kappaB kinase/NF-kappaB cascade|Rac protein signal transduction	endoplasmic reticulum membrane|integral to membrane	GTPase activator activity|lyase activity|protein binding				0						CTTCGTTACACTCTGTGGATT	0.463													12	17					0	0	1	0	0		T	65863951	T	T	65863951	3	4	70	1	0	0	0	0	1	0	0	0	12798	565	20	4	873	4	PTPLAD1	15	65863951	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	419124	65863951	36667441	721	46737											
MAP2K1	5604	broad.mit.edu	37	chr15	66774194	66774194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccatggccaactccttcGtgggcacaaggtcctacatg	9	9	9	14	1	0	0	0	0	0	0	4	0	3	0	4	3	2	1	4	3	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:66774194G>A	uc010bhq.2	+	6	1145	c.670G>A	c.(670-672)GTG>ATG	p.V224M	MAP2K1_uc010ujp.1_Missense_Mutation_p.V202M	NM_002755	NP_002746	Q02750	MP2K1_HUMAN	mitogen-activated protein kinase kinase 1	224	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|plasma membrane	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						CAACTCCTTCGTGGGCACAAG	0.552									Cardiofaciocutaneous_syndrome				15	30					0	0	1	0	0		A	66774194	A	A	66774194	3	1	70	1	0	0	0	0	1	0	0	0	9254	1145	40	1	692	1	MAP2K1	15	66774194	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	910243	66774194	35757198	722	46738											
IQCH	64799	broad.mit.edu	37	chr15	67782375	67782375	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttttatattatatgagcAcctgaagagacacaagttgg	13	14	9	5	0	0	3	0	2	0	1	0	4	0	3	1	1	1	3	1	1	6	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:67782375A>G	uc002aqo.1	+	19	2881	c.2834A>G	c.(2833-2835)CAC>CGC	p.H945R	IQCH_uc002aqq.1_Missense_Mutation_p.H602R|IQCH_uc002aqp.1_Intron|uc002aqr.1_Intron	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	945										skin(3)|ovary(1)	4				Colorectal(3;0.0856)		TTATATGAGCACCTGAAGAGA	0.333													54	99					0	0	1	0	0		G	67782375	G	G	67782375	3	3	70	1	0	0	0	0	1	0	0	0	7827	159	6	3	3036	3	IQCH	15	67782375	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	1008181	67782375	34749017	723	46739											
GLCE	26035	broad.mit.edu	37	chr15	69548149	69548149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataggtatggtctgaatatgCgttgcttggcagctcgggtc	7	13	14	7	2	1	1	0	1	1	0	3	1	1	1	0	4	3	5	0	4	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:69548149C>T	uc002ary.1	+	3	232	c.4C>T	c.(4-6)CGT>TGT	p.R2C		NM_015554	NP_056369	O94923	GLCE_HUMAN	D-glucuronyl C5-epimerase	2	Cytoplasmic (Potential).				heparan sulfate proteoglycan biosynthetic process|heparin biosynthetic process	Golgi membrane|integral to membrane	UDP-glucuronate 5'-epimerase activity			ovary(2)	2						TCTGAATATGCGTTGCTTGGC	0.373													22	57					0	0	1	0	0		T	69548149	T	T	69548149	3	4	70	1	0	0	0	0	1	0	0	0	6447	768	27	1	6	1	GLCE	15	69548149	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1765774	69548149	32983243	724	46740											
CSPG4	1464	broad.mit.edu	37	chr15	75980690	75980690	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accctcaggcaccacgaggaGgacattggtgaggacaggcg	11	4	15	11	2	1	1	1	1	0	0	1	5	1	4	2	6	0	1	2	6	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:75980690G>T	uc002baw.2	-	3	2809	c.2716C>A	c.(2716-2718)CTC>ATC	p.L906I		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	906	Interaction with COL5A1 (By similarity).|Extracellular (Potential).|Gly/Ser-rich (glycosaminoglycan attachment domain).|CSPG 5.|Interaction with COL6A2 (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						ACCACGAGGAGGACATTGGTG	0.557													32	39					3.03874e-20	3.29294e-20	1	1	0		T	75980690	T	T	75980690	3	4	70	1	0	0	0	0	1	0	0	0	3963	1000	35	5	4284	5	CSPG4	15	75980690	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6432541	75980690	26550702	725	46741											
CSPG4	1464	broad.mit.edu	37	chr15	75981406	75981406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagtcgcaaccctgtgctgCggtggatctgtatggccggc	5	9	14	13	3	1	0	0	0	1	0	2	1	1	1	3	4	3	3	3	4	2	1	rs144233988		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:75981406C>T	uc002baw.2	-	3	2093	c.2000G>A	c.(1999-2001)CGC>CAC	p.R667H		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	667	CSPG 3.|Extracellular (Potential).|Gly/Ser-rich (glycosaminoglycan attachment domain).|Interaction with COL5A1 (By similarity).|Interaction with COL6A2 (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						CCCTGTGCTGCGGTGGATCTG	0.667													23	43					0	0	1	0	0		T	75981406	T	T	75981406	3	4	70	1	0	0	0	0	1	0	0	0	3963	768	27	1	5000	1	CSPG4	15	75981406	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	716	75981406	26549986	726	46742											
ISL2	64843	broad.mit.edu	37	chr15	76630254	76630254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagtacctggacgagaCgtgcacgtgcttcgtgagag	9	7	14	11	4	0	2	0	1	0	2	1	5	0	3	2	1	4	3	2	1	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:76630254C>T	uc002bbw.1	+	2	272	c.194C>T	c.(193-195)ACG>ATG	p.T65M		NM_145805	NP_665804	Q96A47	ISL2_HUMAN	ISL LIM homeobox 2	65	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTGGACGAGACGTGCACGTGC	0.667													10	21					0	0	1	0	0		T	76630254	T	T	76630254	3	4	70	1	0	0	0	0	1	0	0	0	7873	536	19	1	200	1	ISL2	15	76630254	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	648848	76630254	25901138	727	46743											
SGK269	79834	broad.mit.edu	37	chr15	77407138	77407138	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgcaggcccaaagcctTgggcagtccccccaggctgg	6	6	13	16	0	1	0	0	0	1	0	2	0	2	0	5	4	2	4	5	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:77407138T>C	uc002bcm.2	-	6	4909	c.4601A>G	c.(4600-4602)CAA>CGA	p.Q1534R		NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	1534	Protein kinase.				cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		CCCAAAGCCTTGGGCAGTCCC	0.562													21	37					0	0	1	0	0		C	77407138	C	C	77407138	3	2	70	1	0	0	0	0	1	0	0	0	14236	1812	63	3	643	3	SGK269	15	77407138	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	776884	77407138	25124254	728	46744											
HMG20A	10363	broad.mit.edu	37	chr15	77771648	77771648	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgagaagttgtgaacagactCgatcgttagggaatggtgag	12	9	15	5	3	0	4	0	2	0	2	2	7	0	5	0	2	1	2	0	2	4	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:77771648C>T	uc002bcr.2	+	10	1236	c.1035C>T	c.(1033-1035)CTC>CTT	p.L345L	HMG20A_uc002bcs.2_Silent_p.L345L	NM_018200	NP_060670	Q9NP66	HM20A_HUMAN	high-mobility group 20A	345					chromatin modification	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						TGAACAGACTCGATCGTTAGG	0.363													27	60					0	0	1	0	0		T	77771648	T	T	77771648	2	4	70	1	0	0	0	0	0	0	0	1	7237	871	31	1		1	HMG20A	15	77771648	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	364510	77771648	24759744	729	46745											
ADAMTS7	11173	broad.mit.edu	37	chr15	79065476	79065476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggtgtggcaggtggagcCgttgccgtggcacacaccac	7	6	15	13	3	0	0	0	0	0	0	0	1	0	1	3	5	2	3	3	5	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:79065476C>T	uc002bej.3	-	14	2291	c.2080G>A	c.(2080-2082)GGC>AGC	p.G694S	ADAMTS7_uc010und.1_Intron|ADAMTS7_uc002bek.1_Missense_Mutation_p.G694S	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	694	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						CAGGTGGAGCCGTTGCCGTGG	0.642													3	2					0	0	1	0	0		T	79065476	T	T	79065476	3	4	70	1	0	0	0	0	1	0	0	0	271	652	23	1	3024	1	ADAMTS7	15	79065476	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1293828	79065476	23465916	730	46746											
MTHFS	10588	broad.mit.edu	37	chr15	80137709	80137709	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcagataggcatcatagTagcccttgcccctccccagt	8	10	8	15	0	2	1	2	0	0	1	3	1	3	1	5	1	2	3	5	1	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:80137709T>C	uc002bex.3	-	3	495	c.455A>G	c.(454-456)TAC>TGC	p.Y152C	MTHFS_uc002bey.2_RNA	NM_006441	NP_006432	P49914	MTHFS_HUMAN	5,10-methenyltetrahydrofolate synthetase	152	Substrate binding.|ATP.				folic acid-containing compound biosynthetic process|formate metabolic process|tetrahydrofolate metabolic process	cytosol|Golgi apparatus|plasma membrane	5-formyltetrahydrofolate cyclo-ligase activity|ATP binding|folic acid binding				0				all cancers(203;0.00467)		GGCATCATAGTAGCCCTTGCC	0.517													18	64					0	0	1	0	0		C	80137709	C	C	80137709	3	2	70	1	0	0	0	0	1	0	0	0	9950	1638	57	3	160	3	MTHFS	15	80137709	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1072233	80137709	22393683	731	46747											
PDE8A	5151	broad.mit.edu	37	chr15	85658682	85658682	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttatcaggatggtttgcgaAgactatcagggaatgaatat	13	13	11	4	1	2	2	2	1	0	1	2	5	2	4	0	3	1	1	0	3	6	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:85658682A>C	uc002blh.2	+	15	1552	c.1363A>C	c.(1363-1365)AGA>CGA	p.R455R	PDE8A_uc002bli.2_Silent_p.R409R|PDE8A_uc010bnc.2_Silent_p.R208R|PDE8A_uc010bnd.2_Silent_p.R208R|PDE8A_uc002blj.2_Silent_p.R75R|PDE8A_uc002blk.2_Silent_p.R75R	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	455					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			TGGTTTGCGAAGACTATCAGG	0.358													12	16					0	0	1	0	0		C	85658682	C	C	85658682	2	2	70	1	0	0	0	0	0	0	0	1	11672	64	3	5		5	PDE8A	15	85658682	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	5520973	85658682	16872710	732	46748											
SLCO3A1	28232	broad.mit.edu	37	chr15	92459657	92459657	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcctacatcgacgaccaCgtgcggaggaaggactcctc	9	7	11	14	4	1	0	0	0	1	0	5	5	2	3	3	3	2	0	3	3	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:92459657C>T	uc002bqx.2	+	2	816	c.615C>T	c.(613-615)CAC>CAT	p.H205H	SLCO3A1_uc002bqy.2_Silent_p.H205H|SLCO3A1_uc010boc.1_RNA|SLCO3A1_uc002bqz.1_Silent_p.H147H	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,	205	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			TCGACGACCACGTGCGGAGGA	0.582													4	13					0	0	1	0	0		T	92459657	T	T	92459657	2	4	70	1	0	0	0	0	0	0	0	1	14753	535	19	1		1	SLCO3A1	15	92459657	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	6800975	92459657	10071735	733	46749											
SNRPA1	6627	broad.mit.edu	37	chr15	101835369	101835369	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgctcgatcagctccgcCgtcagcttgaccatcctgca	6	9	9	17	3	2	1	2	1	0	0	5	2	4	1	5	0	4	4	5	0	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr15:101835369C>T	uc002bww.2	-	1	92	c.15G>A	c.(13-15)ACG>ACA	p.T5T	SNRPA1_uc002bwx.2_RNA|SNRPA1_uc010bpc.2_RNA	NM_003090	NP_003081	P09661	RU2A_HUMAN	small nuclear ribonucleoprotein polypeptide A'	5						catalytic step 2 spliceosome|nucleoplasm|U2 snRNP	protein binding|RNA binding			kidney(1)	1	Lung NSC(78;0.00156)|all_lung(78;0.00195)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00113)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TCAGCTCCGCCGTCAGCTTGA	0.751													5	3					0	0	1	0	0		T	101835369	T	T	101835369	2	4	70	1	0	0	0	0	0	0	0	1	14885	639	23	1		1	SNRPA1	15	101835369	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	9375712	101835369	696023	734	46750											
RHBDF1	64285	broad.mit.edu	37	chr16	109078	109078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccagcttctccaggtccCgcaggacagtcatctggaag	8	8	11	14	1	3	0	1	0	2	0	5	2	4	2	3	3	2	2	3	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:109078C>T	uc002cfl.3	-	20	2190	c.2042G>A	c.(2041-2043)CGG>CAG	p.R681Q		NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	681	Cytoplasmic (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				CTCCAGGTCCCGCAGGACAGT	0.592													12	29					0	0	1	0	0		T	109078	T	T	109078	3	4	70	1	0	0	0	0	1	0	0	0	13344	652	23	1	533	1	RHBDF1	16	109078	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08		109078	90245675	735	46751											
WFIKKN1	117166	broad.mit.edu	37	chr16	683442	683442	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccgcggctttgagacctaCgaggcatgccagcaggcctg	7	6	14	14	3	0	1	0	1	0	1	0	3	0	1	4	3	3	3	4	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:683442C>T	uc002cht.1	+	2	1274	c.1032C>T	c.(1030-1032)TAC>TAT	p.Y344Y	WFIKKN1_uc002chs.1_3'UTR	NM_053284	NP_444514	Q96NZ8	WFKN1_HUMAN	WAP, follistatin/kazal, immunoglobulin, kunitz	344	BPTI/Kunitz inhibitor 1.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity				0		Hepatocellular(780;0.00335)				TTGAGACCTACGAGGCATGCC	0.746													5	3					0	0	1	0	0		T	683442	T	T	683442	2	4	70	1	0	0	0	0	0	0	0	1	17384	547	19	1		1	WFIKKN1	16	683442	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	574364	683442	89671311	736	46752											
CACNA1H	8912	broad.mit.edu	37	chr16	1270781	1270781	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggagaccctttcttggaCggtagccacagtgtgacccc	8	9	12	12	1	1	2	0	1	1	1	1	4	1	3	4	3	1	1	4	3	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:1270781C>T	uc002cks.2	+	35	7097	c.6849C>T	c.(6847-6849)GAC>GAT	p.D2283D	CACNA1H_uc002ckt.2_Silent_p.D2277D|CACNA1H_uc002cku.2_Silent_p.D978D|CACNA1H_uc010brj.2_Silent_p.D994D|CACNA1H_uc002ckv.2_Silent_p.D972D	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	2283	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	CTTTCTTGGACGGTAGCCACA	0.652													31	44					0	0	1	0	0		T	1270781	T	T	1270781	2	4	70	1	0	0	0	0	0	0	0	1	2548	535	19	1		1	CACNA1H	16	1270781	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	587339	1270781	89083972	737	46753											
BAIAP3	8938	broad.mit.edu	37	chr16	1398109	1398109	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgcagttccgtgcctgcCgaggcgtgccgccgccgcgc	2	6	15	18	8	0	0	0	0	0	0	2	1	2	0	7	1	3	2	7	1	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:1398109C>T	uc002clk.1	+	33	3267	c.3267C>T	c.(3265-3267)GCC>GCT	p.A1089A	BAIAP3_uc002clj.2_Silent_p.A1071A|BAIAP3_uc010uuz.1_Silent_p.A1054A|BAIAP3_uc010uva.1_Silent_p.A1026A|BAIAP3_uc010uvc.1_Silent_p.A1018A	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	1089	C2 2.				G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				CCGTGCCTGCCGAGGCGTGCC	0.602													9	25					0	0	1	0	0		T	1398109	T	T	1398109	2	4	70	1	0	0	0	0	0	0	0	1	1305	639	23	1		1	BAIAP3	16	1398109	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	127328	1398109	88956644	738	46754											
TMEM204	79652	broad.mit.edu	37	chr16	1584316	1584316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggccgcggccgtgctggtgGccctggtctcactcatcctc	2	10	13	16	3	2	0	2	0	1	0	5	0	3	0	4	5	1	1	4	5	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:1584316G>A	uc002cmc.2	+	2	438	c.40G>A	c.(40-42)GCC>ACC	p.A14T	IFT140_uc002clz.2_Intron|IFT140_uc002cmb.2_Intron|TMEM204_uc002cmd.2_Missense_Mutation_p.A14T|TMEM204_uc010brr.1_Missense_Mutation_p.A14T	NM_024600	NP_078876	Q9BSN7	TM204_HUMAN	transmembrane protein 204	14	Helical; (Potential).				response to stress	adherens junction|integral to membrane					0		Hepatocellular(780;0.219)				CGTGCTGGTGGCCCTGGTCTC	0.682													18	44					0	0	1	0	0		A	1584316	A	A	1584316	3	1	70	1	0	0	0	0	1	0	0	0	16154	1203	42	2	42	2	TMEM204	16	1584316	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	186207	1584316	88770437	739	46755											
CRAMP1L	57585	broad.mit.edu	37	chr16	1709974	1709974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagggaaggtggtgaccGtcagctctcgcagcccccgc	6	5	13	17	3	2	1	1	1	1	0	3	2	2	2	5	3	2	2	5	3	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:1709974G>A	uc010uvh.1	+	10	2323	c.2323G>A	c.(2323-2325)GTC>ATC	p.V775I	CRAMP1L_uc002cmf.2_RNA	NM_020825	NP_065876	Q96RY5	CRML_HUMAN	Crm, cramped-like	775						nucleus	DNA binding				0						GGTGGTGACCGTCAGCTCTCG	0.642													4	42					0	0	1	0	0		A	1709974	A	A	1709974	3	1	70	1	0	0	0	0	1	0	0	0	3849	1145	40	1	2361	1	CRAMP1L	16	1709974	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	125658	1709974	88644779	740	46756											
HAGH	3029	broad.mit.edu	37	chr16	1866933	1866933	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccggatggcggcattgccGggctccacgtggcgtgcaaa	6	7	15	13	5	0	0	0	0	0	0	2	1	2	1	3	5	2	3	3	5	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:1866933G>T	uc002cna.2	-	7	1115	c.708C>A	c.(706-708)CCC>CCA	p.P236P	HAGH_uc002cmz.2_Silent_p.P188P|HAGH_uc010uvp.1_Missense_Mutation_p.P200Q|HAGH_uc002cnb.1_Silent_p.P188P	NM_005326	NP_005317	Q16775	GLO2_HUMAN	hydroxyacylglutathione hydrolase isoform 1	236					glutathione biosynthetic process	cytoplasm|mitochondrial matrix|mitochondrial matrix	hydroxyacylglutathione hydrolase activity|zinc ion binding			ovary(1)	1		Hepatocellular(780;0.00335)			Glutathione(DB00143)	CGGCATTGCCGGGCTCCACGT	0.627													6	20					5.9392e-07	6.14081e-07	1	1	0		T	1866933	T	T	1866933	2	4	70	1	0	0	0	0	0	0	0	1	6961	1103	39	5		5	HAGH	16	1866933	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	156959	1866933	88487820	741	46757											
HS3ST6	64711	broad.mit.edu	37	chr16	1962139	1962139	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcggcggggggcctctcGcgtcacgaagtagctggggg	5	6	20	10	5	2	0	1	0	1	0	3	2	2	0	1	6	2	2	1	6	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:1962139G>A	uc002cnf.2	-	2	388	c.388C>T	c.(388-390)CGA>TGA	p.R130*		NM_001009606	NP_001009606	C9JH64	C9JH64_HUMAN	heparan sulfate (glucosamine)	130											0						GGGGCCTCTCGCGTCACGAAG	0.672													9	9					0	0	1	0	0		A	1962139	A	A	1962139	4	1	70	1	0	0	0	0	0	1	0	0	7385	1095	38	1	551	1	HS3ST6	16	1962139	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	95206	1962139	88392614	742	46758											
ABCA3	21	broad.mit.edu	37	chr16	2333320	2333320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacaaaccggccgacccccGgggcgctccaggcatagaag	10	2	12	17	4	0	1	0	0	0	1	1	2	1	1	6	4	1	2	6	4	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:2333320G>A	uc002cpy.1	-	26	4614	c.3902C>T	c.(3901-3903)CCG>CTG	p.P1301L	ABCA3_uc010bsk.1_Missense_Mutation_p.P1243L	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1301					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				GCCGACCCCCGGGGCGCTCCA	0.652													22	32					0	0	1	0	0		A	2333320	A	A	2333320	3	1	70	1	0	0	0	0	1	0	0	0	33	1116	39	1	1244	1	ABCA3	16	2333320	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	371181	2333320	88021433	743	46759											
SRRM2	23524	broad.mit.edu	37	chr16	2809032	2809034	+	In_Frame_Del	DEL	AAG	-	-																															gggagagaaagaaaagctcaAagaagaagaagcacaggtat																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:2809032_2809034delAAG	uc002crk.2	+	6	1189_1191	c.640_642delAAG	c.(640-642)AAGdel	p.K217del	SRRM2_uc002crj.1_In_Frame_Del_p.K121del|SRRM2_uc002crl.1_In_Frame_Del_p.K217del|SRRM2_uc010bsu.1_In_Frame_Del_p.K121del	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	217	Sufficient for RNA-binding.|Lys-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GAAAAGCTCAAAGAAGAAGAAGC	0.448													28	51	---	---	---	---						.	-	2809034	-	-	2809032	7	5	70	1	0	1	0	1	0	0	0	0	15194	15	1	0	658	0	SRRM2	16	2809032	In_Frame_Del	DEL	AAG	TCGA-BR-8368-01A-11D-2340-08	475712	2809032	87545721	744	46760											
CLDN6	9074	broad.mit.edu	37	chr16	3065456	3065456	+	Frame_Shift_Del	DEL	C	-	-																															taatggctggggccctgggaCccccccgaggggcaagtgca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:3065456delC	uc002csu.3	-	2	627	c.567delG	c.(565-567)GGGfs	p.G189fs		NM_021195	NP_067018	P56747	CLD6_HUMAN	claudin 6	189	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						GGCCCTGGGACCCCCCCGAGG	0.642													24	36	---	---	---	---						.	-	3065456	-	-	3065456	7	5	70	1	0	1	0	1	0	0	0	0	3492	494	18	0	99	0	CLDN6	16	3065456	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	256424	3065456	87289297	745	46761											
ZNF434	54925	broad.mit.edu	37	chr16	3433514	3433515	+	Frame_Shift_Ins	INS	-	T	T																															tgactcatcttctcctgggaINStggggttttctcctcactct																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:3433514_3433515insT	uc002cuz.2	-	6	1597_1598	c.795_796insA	c.(793-798)CCATCCfs	p.P265fs	ZNF434_uc002cux.3_Frame_Shift_Ins_p.P476fs|ZNF434_uc010uwx.1_Frame_Shift_Ins_p.P188fs|ZNF434_uc002cuy.3_Frame_Shift_Ins_p.P188fs	NM_017810	NP_060280	Q9NX65	ZN434_HUMAN	zinc finger protein 434	265_266					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TTCTCCTGGGATGGGGTTTTCT	0.485													38	56	---	---	---	---						.	T	3433515	T	T	3433514	7	5	70	1	0	1	1	0	0	0	0	0	17933	333	12	0	665	0	ZNF434	16	3433514	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	368058	3433514	86921239	746	46762											
NLRC3	197358	broad.mit.edu	37	chr16	3594291	3594291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcagtgcacgggccaccGcacacgctccgtcatccccg	6	6	9	20	5	2	0	2	0	0	0	4	0	4	0	6	1	1	3	6	1	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:3594291G>A	uc010btn.2	-	17	3221	c.2810C>T	c.(2809-2811)GCG>GTG	p.A937V		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	937	LRR 12.				I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						ACGGGCCACCGCACACGCTCC	0.577													10	25					0	0	1	0	0		A	3594291	A	A	3594291	3	1	70	1	0	0	0	0	1	0	0	0	10487	1087	38	1	407	1	NLRC3	16	3594291	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	160777	3594291	86760462	747	46763											
CREBBP	1387	broad.mit.edu	37	chr16	3781417	3781417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagggggtcggggtcgaCgatggggggcagggtgttga	6	6	24	5	3	0	1	0	1	0	0	2	4	0	1	0	8	1	3	0	8	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:3781417C>T	uc002cvv.2	-	30	5152	c.4948G>A	c.(4948-4950)GTC>ATC	p.V1650I	CREBBP_uc002cvw.2_Missense_Mutation_p.V1612I	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1650	Interaction with TRERF1.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TCGGGGTCGACGATGGGGGGC	0.637			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				5	6					0	0	1	0	0		T	3781417	T	T	3781417	3	4	70	1	0	0	0	0	1	0	0	0	3864	536	19	1	2388	1	CREBBP	16	3781417	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	187126	3781417	86573336	748	46764											
ADCY9	115	broad.mit.edu	37	chr16	4029168	4029168	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggagtagacggccagtgcGggaagcgacaccaggatggc	10	4	18	9	3	0	1	0	0	0	1	0	5	0	4	2	5	2	1	2	5	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:4029168G>A	uc002cvx.2	-	8	3167	c.2628C>T	c.(2626-2628)CCC>CCT	p.P876P		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	876	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						CGGCCAGTGCGGGAAGCGACA	0.582													12	75					0	0	1	0	0		A	4029168	A	A	4029168	2	1	70	1	0	0	0	0	0	0	0	1	301	1103	39	1		1	ADCY9	16	4029168	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	247751	4029168	86325585	749	46765											
MGRN1	23295	broad.mit.edu	37	chr16	4731601	4731601	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccatctcgctgctcgaggcGctcaacggcctccgggctgt	4	8	12	17	5	2	0	1	0	1	0	5	1	3	0	3	3	2	4	3	3	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:4731601G>A	uc002cwz.2	+	13	1318	c.1182G>A	c.(1180-1182)GCG>GCA	p.A394A	MGRN1_uc002cxa.2_Silent_p.A394A|MGRN1_uc010btx.2_Silent_p.A373A|MGRN1_uc010btw.2_Silent_p.A373A|MGRN1_uc002cxb.2_Silent_p.A433A|MGRN1_uc010uxo.1_Silent_p.A372A|MGRN1_uc010uxp.1_Silent_p.A372A|MGRN1_uc010uxq.1_RNA	NM_001142290	NP_001135762	O60291	MGRN1_HUMAN	mahogunin, ring finger 1 isoform 3	394					endosome to lysosome transport|negative regulation of cAMP-mediated signaling|negative regulation of G-protein coupled receptor protein signaling pathway|protein monoubiquitination	cytosol|early endosome|nucleus|plasma membrane|plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2						TGCTCGAGGCGCTCAACGGCC	0.647													22	28					0	0	1	0	0		A	4731601	A	A	4731601	2	1	70	1	0	0	0	0	0	0	0	1	9577	1074	38	1		1	MGRN1	16	4731601	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	702433	4731601	85623152	750	46766											
KIAA0430	9665	broad.mit.edu	37	chr16	15718921	15718921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccccgagtttttcggcGtcgacactgcagcacttgag	7	9	10	15	4	0	1	0	1	0	0	2	3	0	1	3	1	2	3	3	1	0	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:15718921G>A	uc002ddr.2	-	9	2256	c.2063C>T	c.(2062-2064)ACG>ATG	p.T688M	KIAA0430_uc002ddq.2_Missense_Mutation_p.T544M|KIAA0430_uc010uzv.1_Missense_Mutation_p.T684M|KIAA0430_uc010uzw.1_Missense_Mutation_p.T686M	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	687						peroxisome	nucleotide binding|RNA binding				0						GTTTTTCGGCGTCGACACTGC	0.493													39	80					0	0	1	0	0		A	15718921	A	A	15718921	3	1	70	1	0	0	0	0	1	0	0	0	8193	1145	40	1	3244	1	KIAA0430	16	15718921	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	10987320	15718921	74635832	751	46767											
MYH11	4629	broad.mit.edu	37	chr16	15829334	15829334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttcagccttgttcctggcgGcccgctctgagtccaggtcc	3	12	11	15	2	2	1	1	1	1	0	5	1	5	1	5	3	1	2	5	3	0	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:15829334G>A	uc002ddy.2	-	26	3502	c.3395C>T	c.(3394-3396)GCC>GTC	p.A1132V	MYH11_uc002ddv.2_Missense_Mutation_p.A1139V|MYH11_uc002ddw.2_Missense_Mutation_p.A1132V|MYH11_uc002ddx.2_Missense_Mutation_p.A1139V|MYH11_uc010bvg.2_Missense_Mutation_p.A964V	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1132	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						GTTCCTGGCGGCCCGCTCTGA	0.582			T	CBFB	AML								52	65					0	0	1	0	0		A	15829334	A	A	15829334	3	1	70	1	0	0	0	0	1	0	0	0	10049	1203	42	2	2622	2	MYH11	16	15829334	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	110413	15829334	74525419	752	46768											
ABCC6	368	broad.mit.edu	37	chr16	16256993	16256993	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatgtgggagcagacagaCgagtagctggctgactccaa	11	6	14	10	1	0	3	0	1	0	2	1	5	1	4	2	2	2	4	2	2	2	1	rs145693403		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:16256993C>T	uc002den.3	-	24	3400	c.3363G>A	c.(3361-3363)TCG>TCA	p.S1121S	ABCC6_uc010bvo.2_Intron	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	1121	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).		S -> W (in PXE; autosomal dominant).		response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		AGCAGACAGACGAGTAGCTGG	0.582													21	47					0	0	1	0	0		T	16256993	T	T	16256993	2	4	70	1	0	0	0	0	0	0	0	1	57	523	19	1		1	ABCC6	16	16256993	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	427659	16256993	74097760	753	46769											
GP2	2813	broad.mit.edu	37	chr16	20335202	20335202	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacacatggtacccgcctggGcaggccttcaccagcacctc	8	7	9	17	1	1	0	1	0	0	0	2	0	1	0	5	3	3	3	5	3	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:20335202G>A	uc002dgv.2	-	3	554	c.471C>T	c.(469-471)TGC>TGT	p.C157C	GP2_uc002dgw.2_Silent_p.C157C|GP2_uc002dgx.2_Intron|GP2_uc002dgy.2_Intron	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	157						anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						ACCCGCCTGGGCAGGCCTTCA	0.592													14	21					0	0	1	0	0		A	20335202	A	A	20335202	2	1	70	1	0	0	0	0	0	0	0	1	6597	1195	42	2		2	GP2	16	20335202	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4078209	20335202	70019551	754	46770											
CLN3	1201	broad.mit.edu	37	chr16	28495431	28495434	+	Frame_Shift_Del	DEL	AAGA	-	-																															cctcaggagatgtgagcaacAagaaatagctaggagtagga																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:28495431_28495434delAAGA	uc002dpo.2	-	9	1006_1009	c.683_686delTCTT	c.(682-687)TTCTTGfs	p.F228fs	uc010vct.1_Intron|CLN3_uc002dpl.2_Frame_Shift_Del_p.F150fs|CLN3_uc010vcu.1_Frame_Shift_Del_p.F128fs|CLN3_uc002dpn.2_Frame_Shift_Del_p.F129fs|CLN3_uc002dpm.2_Frame_Shift_Del_p.F174fs|CLN3_uc010vcv.1_Frame_Shift_Del_p.F204fs|CLN3_uc010byd.2_Frame_Shift_Del_p.F228fs|CLN3_uc002dpp.2_Frame_Shift_Del_p.F228fs|CLN3_uc002dpt.1_Frame_Shift_Del_p.F128fs|CLN3_uc002dpq.1_Frame_Shift_Del_p.F180fs|CLN3_uc010bye.1_Frame_Shift_Del_p.F228fs|CLN3_uc002dpr.1_RNA|CLN3_uc010byf.1_Intron|CLN3_uc002dps.1_Frame_Shift_Del_p.F101fs|CLN3_uc002dpu.1_Frame_Shift_Del_p.F126fs|CLN3_uc002dpw.1_Frame_Shift_Del_p.F75fs|CLN3_uc010vcw.1_Frame_Shift_Del_p.F174fs|CLN3_uc002dqa.2_Frame_Shift_Del_p.F279fs|CLN3_uc010vcx.1_Frame_Shift_Del_p.F128fs|CLN3_uc002dpx.1_Frame_Shift_Del_p.F105fs|CLN3_uc002dpy.1_Frame_Shift_Del_p.F72fs	NM_000086	NP_000077	Q13286	CLN3_HUMAN	ceroid-lipofuscinosis, neuronal 3	228_229	Helical; (Potential).				amyloid precursor protein catabolic process|arginine transport|associative learning|autophagic vacuole fusion|cell death|cellular amino acid metabolic process|cytosolic calcium ion homeostasis|galactosylceramide metabolic process|globoside metabolic process|glucosylceramide metabolic process|ionotropic glutamate receptor signaling pathway|lysosomal lumen acidification|lysosomal lumen pH elevation|negative regulation of catalytic activity|negative regulation of macroautophagy|negative regulation of neuron apoptosis|negative regulation of proteolysis|neuromuscular process controlling balance|neurotransmitter metabolic process|protein catabolic process|protein folding|protein processing|receptor-mediated endocytosis|regulation of action potential|sphingomyelin metabolic process|vacuolar transport	autophagic vacuole|caveola|cytosol|early endosome|Golgi membrane|Golgi stack|integral to endoplasmic reticulum membrane|late endosome|lysosomal membrane|membrane fraction|mitochondrion|neuron projection|nucleus|synaptic vesicle|trans-Golgi network	unfolded protein binding				0						TGTGAGCAACAAGAAATAGCTAGG	0.564													5	11	---	---	---	---						.	-	28495434	-	-	28495431	7	5	70	1	0	1	0	1	0	0	0	0	3546	131	5	0	658	0	CLN3	16	28495431	Frame_Shift_Del	DEL	AAGA	TCGA-BR-8368-01A-11D-2340-08	8160229	28495431	61859322	755	46771											
ATP2A1	487	broad.mit.edu	37	chr16	28906225	28906225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgaatgtgttcaacaCggatgtgagaagcctctcga	13	9	12	7	2	2	3	1	2	1	2	3	7	2	4	1	1	2	1	1	1	4	1	rs138880727	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:28906225C>T	uc002dro.1	+	12	1554	c.1370C>T	c.(1369-1371)ACG>ATG	p.T457M	uc010vct.1_Intron|ATP2A1_uc002drn.1_Missense_Mutation_p.T457M|ATP2A1_uc002drp.1_Missense_Mutation_p.T332M	NM_173201	NP_775293	O14983	AT2A1_HUMAN	ATPase, Ca++ transporting, fast twitch 1 isoform	457	Cytoplasmic (By similarity).				apoptosis in response to endoplasmic reticulum stress|apoptotic mitochondrial changes|ATP biosynthetic process|calcium ion import|elevation of endoplasmic reticulum calcium ion concentration|elevation of mitochondrial calcium ion concentration|maintenance of mitochondrion location|negative regulation of striated muscle contraction|platelet activation|positive regulation of fast-twitch skeletal muscle fiber contraction|reduction of endoplasmic reticulum calcium ion concentration|relaxation of skeletal muscle|response to endoplasmic reticulum stress	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|H zone|I band|microsome|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum|sarcoplasmic reticulum membrane	ATP binding|ATP binding|calcium ion binding|calcium ion binding|calcium-transporting ATPase activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GTGTTCAACACGGATGTGAGA	0.592													12	26					0	0	1	0	0		T	28906225	T	T	28906225	3	4	70	1	0	0	0	0	1	0	0	0	1137	536	19	1	1416	1	ATP2A1	16	28906225	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	410794	28906225	61448528	756	46772											
ASPHD1	253982	broad.mit.edu	37	chr16	29912627	29912628	+	Frame_Shift_Ins	INS	-	T	T																															ctaggggctgggagccgagcINStgggggtgttcgtggtgggc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:29912627_29912628insT	uc002dut.2	+	1	481_482	c.335_336insT	c.(334-336)GCTfs	p.A112fs	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_5'Flank|SEZ6L2_uc002dur.3_5'Flank|SEZ6L2_uc002duq.3_5'Flank|SEZ6L2_uc002dus.3_5'Flank|SEZ6L2_uc010vec.1_5'Flank|SEZ6L2_uc010ved.1_5'Flank|ASPHD1_uc002duu.3_RNA|ASPHD1_uc010bzi.2_RNA	NM_181718	NP_859069	Q5U4P2	ASPH1_HUMAN	aspartate beta-hydroxylase domain containing 1	112	Gly-rich.|Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity				0						GGGAGCCGAGCTGGGGGTGTTC	0.688													31	45	---	---	---	---						.	T	29912628	T	T	29912627	7	5	70	1	0	1	1	0	0	0	0	0	1055	797	28	0	337	0	ASPHD1	16	29912627	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	1006402	29912627	60442126	757	46773											
HIRIP3	8479	broad.mit.edu	37	chr16	30004974	30004974	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcacccttcatgcctagCgcttccagttctgcccggag	5	10	9	17	2	3	0	2	0	1	0	4	1	4	1	5	1	3	2	5	1	1	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:30004974C>T	uc002dve.2	-	5	1856	c.1395G>A	c.(1393-1395)GCG>GCA	p.A465A	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|INO80E_uc002dvg.1_5'Flank|INO80E_uc002dvh.1_5'Flank|INO80E_uc002dvi.1_5'Flank|INO80E_uc002dvj.1_5'Flank|INO80E_uc002dvk.1_5'Flank|HIRIP3_uc002dvf.2_Missense_Mutation_p.A153T	NM_003609	NP_003600	Q9BW71	HIRP3_HUMAN	HIRA interacting protein 3	465					chromatin assembly or disassembly	nucleus	protein binding			central_nervous_system(1)	1						TCATGCCTAGCGCTTCCAGTT	0.617													11	25					0	0	1	0	0		T	30004974	T	T	30004974	2	4	70	1	0	0	0	0	0	0	0	1	7137	755	27	1		1	HIRIP3	16	30004974	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	92347	30004974	60349779	758	46774											
ZNF764	92595	broad.mit.edu	37	chr16	30567397	30567397	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccagggctcccgtcccttcCctttgtctttcctttttctt	1	19	5	16	1	2	0	0	0	2	0	7	0	7	0	5	1	0	1	5	1	0	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:30567397C>T	uc002dyq.2	-	3	426	c.345G>A	c.(343-345)AGG>AGA	p.R115R	ZNF764_uc002dyr.1_Silent_p.R114R	NM_033410	NP_219363	Q96H86	ZN764_HUMAN	zinc finger protein 764	115					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCGTCCCTTCCCTTTGTCTTT	0.612													21	38					0	0	1	0	0		T	30567397	T	T	30567397	2	4	70	1	0	0	0	0	0	0	0	1	18163	622	22	4		4	ZNF764	16	30567397	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	562423	30567397	59787356	759	46775											
LONP2	83752	broad.mit.edu	37	chr16	48295348	48295348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttaggttatagcaatacGccctattaggagaattacac	14	12	8	7	1	0	1	0	0	0	1	0	2	0	1	1	2	3	3	1	2	9	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:48295348G>A	uc002efi.1	+	5	826	c.737G>A	c.(736-738)CGC>CAC	p.R246H	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Missense_Mutation_p.R202H	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	246					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						ATAGCAATACGCCCTATTAGG	0.343													29	118					0	0	1	0	0		A	48295348	A	A	48295348	3	1	70	1	0	0	0	0	1	0	0	0	8911	1087	38	1	755	1	LONP2	16	48295348	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	17727951	48295348	42059405	760	46776											
BBS2	583	broad.mit.edu	37	chr16	56535332	56535332	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccccaggctgactgagagCgtggtgtggagcctggtatt	6	11	15	9	1	0	2	0	2	0	1	1	4	1	3	3	4	2	2	3	4	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:56535332C>T	uc002ejd.2	-	10	1392	c.1158G>A	c.(1156-1158)ACG>ACA	p.T386T	BBS2_uc010ccg.2_3'UTR	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein	386					adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						TGACTGAGAGCGTGGTGTGGA	0.517									Bardet-Biedl_syndrome				12	135					0	0	1	0	0		T	56535332	T	T	56535332	2	4	70	1	0	0	0	0	0	0	0	1	1339	755	27	1		1	BBS2	16	56535332	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	8239984	56535332	33819421	761	46777											
GPR114	221188	broad.mit.edu	37	chr16	57600565	57600565	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagccaggaaacagcccTgggggggctggagccctgag	9	3	19	10	0	0	1	0	1	0	0	0	4	0	4	3	6	4	1	3	6	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:57600565T>C	uc002elx.3	+	7	686	c.601T>C	c.(601-603)TGG>CGG	p.W201R	GPR114_uc010vhr.1_Missense_Mutation_p.W201R|GPR114_uc002ely.2_Missense_Mutation_p.W201R	NM_153837	NP_722579	Q8IZF4	GP114_HUMAN	G protein-coupled receptor 114 precursor	201	Extracellular (Potential).|GPS.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)	1						GAAACAGCCCTGGGGGGGCTG	0.607													12	79					0	0	1	0	0		C	57600565	C	C	57600565	3	2	70	1	0	0	0	0	1	0	0	0	6646	1580	55	3	623	3	GPR114	16	57600565	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1065233	57600565	32754188	762	46778											
TEPP	374739	broad.mit.edu	37	chr16	58018678	58018678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtcccacttcgtgtcctcgGccggggagttcaagctgcct	4	10	13	14	3	1	0	1	0	0	0	5	1	3	1	4	4	2	2	4	4	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:58018678G>A	uc002emw.3	+	4	626	c.589G>A	c.(589-591)GCC>ACC	p.A197T	TEPP_uc002emv.3_Missense_Mutation_p.A197T	NM_199456	NP_955535	Q6URK8	TEPP_HUMAN	testis/prostate/placenta-expressed protein	197						extracellular region				kidney(1)|central_nervous_system(1)|skin(1)	3						CGTGTCCTCGGCCGGGGAGTT	0.682													3	8					0	0	1	0	0		A	58018678	A	A	58018678	3	1	70	1	0	0	0	0	1	0	0	0	15785	1203	42	2	603	2	TEPP	16	58018678	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	418113	58018678	32336075	763	46779											
C16orf57	79650	broad.mit.edu	37	chr16	58036445	58036445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtgctgaacatgttccCgggcaccgaggaggggcctg	7	7	16	11	2	0	1	0	1	0	0	1	3	1	2	3	4	2	3	3	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:58036445C>T	uc002emz.2	+	2	244	c.161C>T	c.(160-162)CCG>CTG	p.P54L	ZNF319_uc002emx.1_5'Flank|C16orf57_uc010via.1_Missense_Mutation_p.P54L|C16orf57_uc002emy.2_RNA|C16orf57_uc010vib.1_Missense_Mutation_p.P54L|C16orf57_uc010vic.1_Missense_Mutation_p.P3L	NM_024598	NP_078874	Q9BQ65	CP057_HUMAN	hypothetical protein LOC79650	54											0						AACATGTTCCCGGGCACCGAG	0.552													32	62					0	0	1	0	0		T	58036445	T	T	58036445	3	4	70	1	0	0	0	0	1	0	0	0	1824	652	23	1	167	1	C16orf57	16	58036445	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	17767	58036445	32318308	764	46780											
CDH16	1014	broad.mit.edu	37	chr16	66943236	66943236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggcatgcccttcatgcGgcccaccttgcgcatgcact	5	9	11	16	3	1	0	1	0	0	0	1	0	1	0	3	2	4	3	3	2	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:66943236G>A	uc002eql.2	-	17	2399	c.2326C>T	c.(2326-2328)CGC>TGC	p.R776C	CDH16_uc010cdy.2_Missense_Mutation_p.R754C|CDH16_uc002eqm.2_Missense_Mutation_p.R679C	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	776	Extracellular (Potential).|Ectodomain G.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		CCCTTCATGCGGCCCACCTTG	0.488													8	18					0	0	1	0	0		A	66943236	A	A	66943236	3	1	70	1	0	0	0	0	1	0	0	0	3104	1116	39	1	171	1	CDH16	16	66943236	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	8906791	66943236	23411517	765	46781											
ELMO3	79767	broad.mit.edu	37	chr16	67237066	67237066	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccccaaccacaagctgctgCagtacggagacatggaggag	12	4	12	13	1	0	1	0	0	0	1	0	4	0	3	3	3	5	4	3	3	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:67237066C>T	uc002esa.2	+	17	1922	c.1879C>T	c.(1879-1881)CAG>TAG	p.Q627*	ELMO3_uc002esb.2_Nonsense_Mutation_p.Q610*|ELMO3_uc002esc.2_Nonsense_Mutation_p.Q461*|uc010vjf.1_5'Flank|MIR328_hsa-mir-328|MI0000804_5'Flank	NM_024712	NP_078988	Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3	574	PH.				apoptosis|phagocytosis	cytoplasm|cytoskeleton	SH3 domain binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		CAAGCTGCTGCAGTACGGAGA	0.642													7	15					0	0	1	0	0		T	67237066	T	T	67237066	4	4	70	1	0	0	0	0	0	1	0	0	5075	711	25	2	1945	2	ELMO3	16	67237066	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	293830	67237066	23117687	766	46782											
FAM65A	79567	broad.mit.edu	37	chr16	67579579	67579579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttttcagtgctactggtgcGgaatctgaactcggatgatc	8	14	11	8	2	2	2	1	2	1	0	4	4	2	4	0	3	4	1	0	3	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:67579579G>A	uc010vjp.1	+	19	3359	c.3263G>A	c.(3262-3264)CGG>CAG	p.R1088Q	FAM65A_uc002eth.2_Missense_Mutation_p.R1068Q|FAM65A_uc010cej.2_Missense_Mutation_p.R1071Q|FAM65A_uc010vjq.1_Missense_Mutation_p.R1082Q|FAM65A_uc002etk.2_Missense_Mutation_p.R1066Q	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	1072						cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		CTACTGGTGCGGAATCTGAAC	0.632													40	51					0	0	1	0	0		A	67579579	A	A	67579579	3	1	70	1	0	0	0	0	1	0	0	0	5613	1116	39	1	3273	1	FAM65A	16	67579579	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	342513	67579579	22775174	767	46783											
FAM65A	79567	broad.mit.edu	37	chr16	67579655	67579655	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggggcgtctgcgaagggaCgggctgcgggccctcagctc	5	5	19	12	4	2	0	1	0	1	0	3	3	2	1	1	5	3	2	1	5	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:67579655C>T	uc010vjp.1	+	19	3435	c.3339C>T	c.(3337-3339)GAC>GAT	p.D1113D	FAM65A_uc002eth.2_Silent_p.D1093D|FAM65A_uc010cej.2_Silent_p.D1096D|FAM65A_uc010vjq.1_Silent_p.D1107D|FAM65A_uc002etk.2_Silent_p.D1091D	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	1097						cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		TGCGAAGGGACGGGCTGCGGG	0.622													26	44					0	0	1	0	0		T	67579655	T	T	67579655	2	4	70	1	0	0	0	0	0	0	0	1	5613	535	19	1		1	FAM65A	16	67579655	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	76	67579655	22775098	768	46784											
TSNAXIP1	55815	broad.mit.edu	37	chr16	67860159	67860159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agattggttcggggctgctgCgggagaaagacttcttccct	7	11	14	9	2	1	3	0	0	1	3	3	4	2	3	1	4	2	3	1	4	1	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:67860159C>T	uc002euj.2	+	10	1481	c.1087C>T	c.(1087-1089)CGG>TGG	p.R363W	TSNAXIP1_uc010cep.2_3'UTR|TSNAXIP1_uc010vjz.1_Missense_Mutation_p.R240W|TSNAXIP1_uc002euf.3_Missense_Mutation_p.R96W|TSNAXIP1_uc010vka.1_Missense_Mutation_p.R417W|TSNAXIP1_uc010vkb.1_Missense_Mutation_p.R348W|TSNAXIP1_uc002eug.3_Missense_Mutation_p.R71W|TSNAXIP1_uc002euh.3_Missense_Mutation_p.R71W|TSNAXIP1_uc002eui.3_Missense_Mutation_p.R71W|TSNAXIP1_uc002euk.2_Missense_Mutation_p.R96W	NM_018430	NP_060900	Q2TAA8	TXIP1_HUMAN	translin-associated factor X interacting protein	363					cell differentiation|multicellular organismal development|spermatogenesis	perinuclear region of cytoplasm					0		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00432)|Epithelial(162;0.0192)|all cancers(182;0.125)		GGGGCTGCTGCGGGAGAAAGA	0.632													17	36					0	0	1	0	0		T	67860159	T	T	67860159	3	4	70	1	0	0	0	0	1	0	0	0	16658	759	27	1	1117	1	TSNAXIP1	16	67860159	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	280504	67860159	22494594	769	46785											
DDX28	55794	broad.mit.edu	37	chr16	68057092	68057092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaaagagccgcaccggcCgcgttagagccatgtttccc	9	6	13	13	4	0	2	0	0	0	2	1	3	1	3	5	2	2	3	5	2	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:68057092C>T	uc002evh.1	-	1	868	c.14G>A	c.(13-15)CGG>CAG	p.R5Q	DUS2L_uc002evi.2_5'Flank|DUS2L_uc002evj.2_5'Flank|DUS2L_uc010vkk.1_5'Flank	NM_018380	NP_060850	Q9NUL7	DDX28_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 28	5	Mitochondrial targeting signal (Potential).					mitochondrial nucleoid|nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0116)|Epithelial(162;0.0474)|all cancers(182;0.233)		CCGCACCGGCCGCGTTAGAGC	0.682													8	9					0	0	1	0	0		T	68057092	T	T	68057092	3	4	70	1	0	0	0	0	1	0	0	0	4358	652	23	1	1612	1	DDX28	16	68057092	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	196933	68057092	22297661	770	46786											
SMPD3	55512	broad.mit.edu	37	chr16	68405944	68405944	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacgggtcgtctgcccgCtggcgcttctcgtaggtggt	3	10	15	13	5	2	0	0	0	2	0	4	0	2	0	1	4	2	4	1	4	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:68405944C>T	uc002ewa.2	-	3	563	c.141G>A	c.(139-141)CAG>CAA	p.Q47Q	SMPD3_uc010cfe.2_Silent_p.Q47Q|SMPD3_uc010vlh.1_Silent_p.Q47Q	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	47	Cytoplasmic (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	CGTCTGCCCGCTGGCGCTTCT	0.647													5	14					0	0	1	0	0		T	68405944	T	T	68405944	2	4	70	1	0	0	0	0	0	0	0	1	14831	796	28	2		2	SMPD3	16	68405944	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	348852	68405944	21948809	771	46787											
AARS	16	broad.mit.edu	37	chr16	70295027	70295027	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtagcacataccctcctcGgacctgagcattcttcactg	8	11	8	14	1	2	1	1	1	1	0	4	2	3	2	3	1	3	3	3	1	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:70295027G>A	uc002eyn.1	-	13	1815	c.1705C>T	c.(1705-1707)CGA>TGA	p.R569*	AARS_uc010vlu.1_Nonsense_Mutation_p.R399*	NM_001605	NP_001596	P49588	SYAC_HUMAN	alanyl-tRNA synthetase	569					alanyl-tRNA aminoacylation|tRNA processing	cytosol|soluble fraction	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			pancreas(1)	1		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)	L-Alanine(DB00160)	TACCCTCCTCGGACCTGAGCA	0.418													23	43					0	0	1	0	0		A	70295027	A	A	70295027	4	1	70	1	0	0	0	0	0	1	0	0	19	1124	39	1	1237	1	AARS	16	70295027	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1889083	70295027	20059726	772	46788											
HYDIN	54768	broad.mit.edu	37	chr16	70866938	70866938	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgggctaatggagaaaTgaggctcaaattttttgatg	11	14	11	5	0	2	3	1	2	1	1	2	4	2	3	0	3	0	2	0	3	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:70866938T>C	uc002ezr.2	-	80	13837	c.13709A>G	c.(13708-13710)CAT>CGT	p.H4570R	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4571										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				AATGGAGAAATGAGGCTCAAA	0.418													8	19					0	0	1	0	0		C	70866938	C	C	70866938	3	2	70	1	0	0	0	0	1	0	0	0	7483	1464	51	3	1681	3	HYDIN	16	70866938	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	571911	70866938	19487815	773	46789											
PLCG2	5336	broad.mit.edu	37	chr16	81929443	81929443	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgggcccgatgggaagccGgtcatctaccatggctggac	8	6	15	12	3	2	0	1	0	1	0	2	4	2	2	3	5	2	1	3	5	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:81929443G>A	uc002fgt.2	+	13	1256	c.1104G>A	c.(1102-1104)CCG>CCA	p.P368P	PLCG2_uc010chg.1_Silent_p.P368P	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	368	PI-PLC X-box.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						ATGGGAAGCCGGTCATCTACC	0.602													33	58					0	0	1	0	0		A	81929443	A	A	81929443	2	1	70	1	0	0	0	0	0	0	0	1	12055	1103	39	1		1	PLCG2	16	81929443	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	11062505	81929443	8425310	774	46790											
ATP2C2	9914	broad.mit.edu	37	chr16	84486938	84486938	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtccaggtgtccgtgttCttcaggaccagcccaaagca	8	9	11	13	2	2	0	1	0	1	0	4	1	4	1	4	2	2	2	4	2	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:84486938C>A	uc002fhx.2	+	20	2030	c.1941C>A	c.(1939-1941)TTC>TTA	p.F647L	ATP2C2_uc010chj.2_Missense_Mutation_p.F647L|ATP2C2_uc002fhy.2_Missense_Mutation_p.F664L|ATP2C2_uc002fhz.2_Missense_Mutation_p.F496L	NM_014861	NP_055676	O75185	AT2C2_HUMAN	ATPase, Ca++ transporting, type 2C, member 2	647	Extracellular (Potential).				ATP biosynthetic process	Golgi membrane|integral to membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			breast(1)|central_nervous_system(1)	2						TGTCCGTGTTCTTCAGGACCA	0.607													31	157					1.90571e-15	2.04741e-15	1	1	0		A	84486938	A	A	84486938	3	1	70	1	0	0	0	0	1	0	0	0	1145	912	32	5	2019	5	ATP2C2	16	84486938	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2557495	84486938	5867815	775	46791											
KLHL36	79786	broad.mit.edu	37	chr16	84695452	84695452	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtggaggcctacagcccgCagtgcaaccagtggacccgc	8	4	14	15	3	0	0	0	0	0	0	0	2	0	2	4	3	4	2	4	3	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:84695452C>T	uc002fig.2	+	5	1705	c.1564C>T	c.(1564-1566)CAG>TAG	p.Q522*	KLHL36_uc010chl.2_Nonsense_Mutation_p.Q458*|uc002fih.2_5'Flank	NM_024731	NP_079007	Q8N4N3	KLH36_HUMAN	kelch-like 36	522	Kelch 5.									skin(2)	2						CTACAGCCCGCAGTGCAACCA	0.667													6	11					0	0	1	0	0		T	84695452	T	T	84695452	4	4	70	1	0	0	0	0	0	1	0	0	8405	711	25	2	1578	2	KLHL36	16	84695452	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	208514	84695452	5659301	776	46792											
FBXO31	79791	broad.mit.edu	37	chr16	87376516	87376516	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggacatcctgtggtggtcCgtctggttgcacttggtgga	4	12	15	10	2	1	0	0	0	1	0	3	2	3	2	3	6	1	2	3	6	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:87376516C>T	uc002fjw.2	-	5	743	c.699G>A	c.(697-699)ACG>ACA	p.T233T	FBXO31_uc010vot.1_Silent_p.T61T|FBXO31_uc002fjv.2_Silent_p.T125T	NM_024735	NP_079011	Q5XUX0	FBX31_HUMAN	F-box protein 31	233					cell cycle|cyclin catabolic process|mitotic cell cycle G1/S transition DNA damage checkpoint|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	SCF ubiquitin ligase complex	cyclin binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0272)		TGTGGTGGTCCGTCTGGTTGC	0.547													4	11					0	0	1	0	0		T	87376516	T	T	87376516	2	4	70	1	0	0	0	0	0	0	0	1	5755	639	23	1		1	FBXO31	16	87376516	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2681064	87376516	2978237	777	46793											
ANKRD11	29123	broad.mit.edu	37	chr16	89347376	89347376	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcgtcgactttgggcgaCgggaggccatagtctgggga	9	7	17	8	4	1	0	0	0	1	0	2	4	1	2	1	5	1	0	1	5	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:89347376C>T	uc002fmx.1	-	9	6035	c.5574G>A	c.(5572-5574)CCG>CCA	p.P1858P	ANKRD11_uc002fmy.1_Silent_p.P1858P|ANKRD11_uc002fnc.1_Silent_p.P1858P|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Silent_p.P1815P	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1858	Pro-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CTTTGGGCGACGGGAGGCCAT	0.622													19	30					0	0	1	0	0		T	89347376	T	T	89347376	2	4	70	1	0	0	0	0	0	0	0	1	639	523	19	1		1	ANKRD11	16	89347376	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1970860	89347376	1007377	778	46794											
ANKRD11	29123	broad.mit.edu	37	chr16	89350961	89350961	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatctgacttctgcttggaGtcctcatattcgtaagtaaa	10	16	7	8	1	3	1	1	1	2	0	5	2	4	2	1	1	1	3	1	1	5	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr16:89350961G>C	uc002fmx.1	-	9	2450	c.1989C>G	c.(1987-1989)GAC>GAG	p.D663E	ANKRD11_uc002fmy.1_Missense_Mutation_p.D663E|ANKRD11_uc002fnc.1_Missense_Mutation_p.D663E|ANKRD11_uc002fnb.1_Missense_Mutation_p.D620E	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	663	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TCTGCTTGGAGTCCTCATATT	0.368													44	109					0	0	1	0	0		C	89350961	C	C	89350961	3	2	70	1	0	0	0	0	1	0	0	0	639	1020	36	5	6022	5	ANKRD11	16	89350961	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3585	89350961	1003792	779	46795											
PRPF8	10594	broad.mit.edu	37	chr17	1587865	1587865	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataaggaaacactccggccaTatccggagaatctggggagc	13	6	12	10	2	1	1	0	0	1	1	3	4	3	3	3	5	2	0	3	5	4	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:1587865T>C	uc002fte.2	-	2	115	c.1A>G	c.(1-3)ATG>GTG	p.M1V		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	1						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		ACTCCGGCCATATCCGGAGAA	0.627													13	27					0	0	1	0	0		C	1587865	C	C	1587865	3	2	70	1	0	0	0	0	1	0	0	0	12597	1406	49	3	7174	3	PRPF8	17	1587865	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08		1587865	79607345	780	46796											
HIC1	3090	broad.mit.edu	37	chr17	1961105	1961105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcccggcgcgggcggcgacgGcgacgactacaagagcagca	9	1	17	14	8	0	1	0	0	0	1	0	4	0	1	1	4	3	2	1	4	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:1961105G>A	uc010cjy.2	+	2	1178	c.1178G>A	c.(1177-1179)GGC>GAC	p.G393D	HIC1_uc002fty.3_Missense_Mutation_p.G374D|HIC1_uc002ftz.3_Missense_Mutation_p.G374D	NM_001098202	NP_001091672	Q14526	HIC1_HUMAN	hypermethylated in cancer 1 isoform 2	393					multicellular organismal development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)	1				READ - Rectum adenocarcinoma(1115;0.236)		GGCGGCGACGGCGACGACTAC	0.587													4	5					0	0	1	0	0		A	1961105	A	A	1961105	3	1	70	1	0	0	0	0	1	0	0	0	7117	1203	42	2	1184	2	HIC1	17	1961105	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	373240	1961105	79234105	781	46797											
SMG6	23293	broad.mit.edu	37	chr17	2186925	2186925	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatccccactcaccttccgCttggtctcttcaaacaagct	9	11	4	17	1	3	0	2	0	1	0	6	0	5	0	4	1	2	2	4	1	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:2186925C>A	uc002fub.1	-	7	2497	c.2442G>T	c.(2440-2442)AAG>AAT	p.K814N		NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	814					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						TCACCTTCCGCTTGGTCTCTT	0.448													35	55					7.04047e-22	7.65889e-22	1	1	0		A	2186925	A	A	2186925	3	1	70	1	0	0	0	0	1	0	0	0	14822	796	28	5	1869	5	SMG6	17	2186925	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	225820	2186925	79008285	782	46798											
SRR	63826	broad.mit.edu	37	chr17	2224617	2224618	+	Frame_Shift_Del	DEL	AA	-	-																															cagtccagagaaaatgttgcAaaaagagttacagaagaaac																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:2224617_2224618delAA	uc002fue.1	+	5	485_486	c.417_418delAA	c.(415-420)GCAAAAfs	p.A139fs	SRR_uc002fui.1_5'UTR	NM_021947	NP_068766	Q9GZT4	SRR_HUMAN	serine racemase	139_140					D-serine biosynthetic process|L-serine metabolic process|protein homotetramerization|pyruvate biosynthetic process|response to lipopolysaccharide	cytoplasm|neuronal cell body|soluble fraction	ATP binding|calcium ion binding|D-serine ammonia-lyase activity|glycine binding|L-serine ammonia-lyase activity|magnesium ion binding|PDZ domain binding|protein homodimerization activity|pyridoxal phosphate binding|serine racemase activity|threonine racemase activity				0		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;3.24e-06)|READ - Rectum adenocarcinoma(1115;0.0649)	L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	AAAATGTTGCAAAAAGAGTTAC	0.366													48	78	---	---	---	---						.	-	2224618	-	-	2224617	7	5	70	1	0	1	0	1	0	0	0	0	15191	117	5	0	431	0	SRR	17	2224617	Frame_Shift_Del	DEL	AA	TCGA-BR-8368-01A-11D-2340-08	37692	2224617	78970593	783	46799											
PLD2	5338	broad.mit.edu	37	chr17	4720288	4720288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggacgttggggtggtcGtccatggcctaccggcccgg	3	7	19	12	5	0	0	0	0	0	0	2	1	1	1	4	8	1	1	4	8	1	2	rs138719274		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:4720288G>A	uc002fzc.2	+	16	1740	c.1639G>A	c.(1639-1641)GTC>ATC	p.V547I	PLD2_uc010vsj.1_Missense_Mutation_p.V404I|PLD2_uc002fzd.2_Missense_Mutation_p.V547I	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	547	Catalytic.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	TGGGGTGGTCGTCCATGGCCT	0.632													28	47					0	0	1	0	0		A	4720288	A	A	4720288	3	1	70	1	0	0	0	0	1	0	0	0	12065	1145	40	1	1697	1	PLD2	17	4720288	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2495671	4720288	76474922	784	46800											
ZNF594	84622	broad.mit.edu	37	chr17	5085734	5085734	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaaggtctgagctctgAttgaaagttttcccacattc	10	13	8	10	0	3	4	1	3	2	1	5	4	4	4	1	1	1	2	1	1	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:5085734A>G	uc010cla.1	-	2	1974	c.1818T>C	c.(1816-1818)AAT>AAC	p.N606N		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	606	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						CTGAGCTCTGATTGAAAGTTT	0.418													80	160					0	0	1	0	0		G	5085734	G	G	5085734	2	3	70	1	0	0	0	0	0	0	0	1	18049	330	12	3		3	ZNF594	17	5085734	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	365446	5085734	76109476	785	46801											
DHX33	56919	broad.mit.edu	37	chr17	5359340	5359340	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggggccccttggaagactcGgagctgctgtgcatagggca	7	8	16	10	1	0	1	0	0	0	1	1	3	0	3	2	5	3	4	2	5	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:5359340G>A	uc002gca.2	-	5	1014	c.1012C>T	c.(1012-1014)CGA>TGA	p.R338*	DHX33_uc002gbz.2_Nonsense_Mutation_p.R109*|DHX33_uc002gcb.2_Nonsense_Mutation_p.R165*|DHX33_uc010clf.2_Missense_Mutation_p.P151L	NM_020162	NP_064547	Q9H6R0	DHX33_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 33	338	Helicase C-terminal.					nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|pancreas(1)	2						TGGAAGACTCGGAGCTGCTGT	0.607													8	15					0	0	1	0	0		A	5359340	A	A	5359340	4	1	70	1	0	0	0	0	0	1	0	0	4512	1124	39	1	1143	1	DHX33	17	5359340	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	273606	5359340	75835870	786	46802											
YBX2	51087	broad.mit.edu	37	chr17	7193637	7193637	+	Frame_Shift_Del	DEL	G	-	-																															gccgtcggtagaagaagggtGgggggcaccatcgtcggggc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:7193637delG	uc002gfq.2	-	5	734	c.677delC	c.(676-678)CCAfs	p.P226fs		NM_015982	NP_057066	Q9Y2T7	YBOX2_HUMAN	Y box binding protein 2	226	Pro-rich.|Required for mRNA-binding.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter|translational attenuation	cytoplasm|nucleus	DNA binding				0						GAAGAAGGGTGGGGGGCACCA	0.657													77	165	---	---	---	---						.	-	7193637	-	-	7193637	7	5	70	1	0	1	0	1	0	0	0	0	17496	1348	47	0	433	0	YBX2	17	7193637	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	1834297	7193637	74001573	787	46803											
NLGN2	57555	broad.mit.edu	37	chr17	7320418	7320418	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggtggccttctggctggAgctcgtgccccacctgcaca	6	8	12	15	1	1	0	0	0	1	0	2	1	1	1	4	4	3	3	4	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:7320418A>T	uc002ggt.1	+	7	1881	c.1808A>T	c.(1807-1809)GAG>GTG	p.E603V		NM_020795	NP_065846	Q8NFZ4	NLGN2_HUMAN	neuroligin 2 precursor	603	Extracellular (Potential).				cell-cell junction maintenance|neuron cell-cell adhesion|positive regulation of synaptogenesis|regulation of inhibitory postsynaptic membrane potential|synapse assembly	cell surface|integral to plasma membrane|postsynaptic membrane	neurexin binding|receptor activity			central_nervous_system(1)	1		Prostate(122;0.157)				TTCTGGCTGGAGCTCGTGCCC	0.642													14	18					0	0	1	0	0		T	7320418	T	T	7320418	3	4	70	1	0	0	0	0	1	0	0	0	10481	304	11	5	1834	5	NLGN2	17	7320418	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	126781	7320418	73874792	788	46804											
C17orf74	201243	broad.mit.edu	37	chr17	7330302	7330302	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgcctcggtgtcccggaAcgcccggcctgaggcccagg	4	5	14	18	4	0	1	0	1	0	0	2	2	1	2	6	5	2	0	6	5	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:7330302A>G	uc002ggw.2	+	3	1065	c.992A>G	c.(991-993)AAC>AGC	p.N331S	FGF11_uc010vtw.1_Intron	NM_175734	NP_783861	Q0P670	CQ074_HUMAN	hypothetical protein LOC201243	331						integral to membrane					0		Prostate(122;0.157)				GTGTCCCGGAACGCCCGGCCT	0.692													5	16					0	0	1	0	0		G	7330302	G	G	7330302	3	3	70	1	0	0	0	0	1	0	0	0	1882	43	2	3	1002	3	C17orf74	17	7330302	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	9884	7330302	73864908	789	46805											
KDM6B	23135	broad.mit.edu	37	chr17	7751995	7751995	+	Frame_Shift_Del	DEL	C	-	-																															cacagccaccaccacccccaCcccccagcccggccagcctg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:7751995delC	uc002giw.1	+	11	2765	c.2389delC	c.(2389-2391)CCCfs	p.P797fs	KDM6B_uc002gix.2_Frame_Shift_Del_p.P99fs	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	797	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						accacccccacccccCAGCCC	0.343													11	19	---	---	---	---						.	-	7751995	-	-	7751995	7	5	70	1	0	1	0	1	0	0	0	0	8154	507	18	0	2419	0	KDM6B	17	7751995	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	421693	7751995	73443215	790	46806											
MYH10	4628	broad.mit.edu	37	chr17	8445463	8445463	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcatggctgcagatccaGcccgaaatcgatgaagttcc	11	8	11	11	2	0	2	0	1	0	1	3	5	2	2	3	1	3	4	3	1	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:8445463G>A	uc002gll.2	-	13	1633	c.1537C>T	c.(1537-1539)CTG>TTG	p.L513L	MYH10_uc002glm.2_Silent_p.L523L|MYH10_uc010cnx.2_Silent_p.L522L	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	513	Myosin head-like.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TGCAGATCCAGCCCGAAATCG	0.488													37	43					0	0	1	0	0		A	8445463	A	A	8445463	2	1	70	1	0	0	0	0	0	0	0	1	10048	962	34	2		2	MYH10	17	8445463	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	693468	8445463	72749747	791	46807											
RCVRN	5957	broad.mit.edu	37	chr17	9804374	9804374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggcgtgttttcatcgtctGgaaggagcttcacgtcctcg	5	12	12	12	5	3	0	2	0	1	0	6	2	4	2	2	3	1	2	2	3	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:9804374G>A	uc002gme.1	-	2	612	c.425C>T	c.(424-426)CCA>CTA	p.P142L		NM_002903	NP_002894	P35243	RECO_HUMAN	recoverin	142					visual perception		calcium ion binding|calcium sensitive guanylate cyclase activator activity				0						TTCATCGTCTGGAAGGAGCTT	0.448													31	42					0	0	1	0	0		A	9804374	A	A	9804374	3	1	70	1	0	0	0	0	1	0	0	0	13211	1348	47	4	185	4	RCVRN	17	9804374	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1358911	9804374	71390836	792	46808											
MPRIP	23164	broad.mit.edu	37	chr17	17061827	17061827	+	Frame_Shift_Del	DEL	G	-	-																															gagaagcaagaggcagagctGggggagccggaccctgagca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:17061827delG	uc002gqu.1	+	14	1613	c.1557delG	c.(1555-1557)CTGfs	p.L519fs	MPRIP_uc002gqv.1_Frame_Shift_Del_p.L519fs|MPRIP_uc002gqw.1_Frame_Shift_Del_p.L274fs	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	519						cytoplasm|cytoskeleton	actin binding				0						AGGCAGAGCTGGGGGAGCCGG	0.627													12	18	---	---	---	---						.	-	17061827	-	-	17061827	7	5	70	1	0	1	0	1	0	0	0	0	9761	1335	47	0	1611	0	MPRIP	17	17061827	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	7257453	17061827	64133383	793	46809											
MYO15A	51168	broad.mit.edu	37	chr17	18023035	18023035	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggggtacacctacggctaCggctacgacgattacgaacc	10	6	11	14	6	0	0	0	0	0	0	0	3	0	0	3	4	6	3	3	4	6	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:18023035C>T	uc010vxh.1	+	2	1259	c.921C>T	c.(919-921)TAC>TAT	p.Y307Y		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	307	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCTACGGCTACGGCTACGACG	0.617													22	54					0	0	1	0	0		T	18023035	T	T	18023035	2	4	70	1	0	0	0	0	0	0	0	1	10081	547	19	1		1	MYO15A	17	18023035	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	961208	18023035	63172175	794	46810											
DHRS7B	25979	broad.mit.edu	37	chr17	21087727	21087727	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaggcaaggccacattgtCgccatcagcagcatccaggg	11	5	13	12	1	1	0	1	0	0	0	3	1	2	1	3	4	2	3	3	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:21087727C>T	uc002gyo.2	+	5	597	c.570C>T	c.(568-570)GTC>GTT	p.V190V		NM_015510	NP_056325	Q6IAN0	DRS7B_HUMAN	dehydrogenase/reductase (SDR family) member 7B	190	Peroxisomal (Potential).					integral to membrane|peroxisomal membrane	binding|oxidoreductase activity			pancreas(1)	1						GCCACATTGTCGCCATCAGCA	0.507													23	44					0	0	1	0	0		T	21087727	T	T	21087727	2	4	70	1	0	0	0	0	0	0	0	1	4502	871	31	1		1	DHRS7B	17	21087727	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3064692	21087727	60107483	795	46811											
NOS2	4843	broad.mit.edu	37	chr17	26107875	26107875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acggccattggcctgcaggaCcagggggaccacatcgaagc	10	4	14	13	2	0	0	0	0	0	0	1	3	0	2	4	5	2	1	4	5	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:26107875C>T	uc002gzu.2	-	9	1186	c.922G>A	c.(922-924)GTC>ATC	p.V308I	NOS2_uc010crh.1_Missense_Mutation_p.V308I|NOS2_uc010wab.1_Missense_Mutation_p.V308I	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	308					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GCCTGCAGGACCAGGGGGACC	0.612													12	36					0	0	1	0	0		T	26107875	T	T	26107875	3	4	70	1	0	0	0	0	1	0	0	0	10562	507	18	4	2615	4	NOS2	17	26107875	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	5020148	26107875	55087335	796	46812											
NLK	51701	broad.mit.edu	37	chr17	26449740	26449740	+	Frame_Shift_Del	DEL	T	-	-																															cgggaattgaagatgttgtgTttttttaagcatgataatgt																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:26449740delT	uc010crj.2	+	2	782	c.570delT	c.(568-570)TGTfs	p.C190fs	NLK_uc010cri.1_RNA	NM_016231	NP_057315	Q9UBE8	NLK_HUMAN	nemo like kinase	190	Protein kinase.				intracellular protein kinase cascade|negative regulation of Wnt receptor signaling pathway|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|serine phosphorylation of STAT3 protein|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|MAP kinase activity|SH2 domain binding|transcription factor binding|ubiquitin protein ligase binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_lung(13;0.000343)|Lung NSC(42;0.00184)			UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		AGATGTTGTGTTTTTTTAAGC	0.388													37	64	---	---	---	---						.	-	26449740	-	-	26449740	7	5	70	1	0	1	0	1	0	0	0	0	10485	1731	60	0	576	0	NLK	17	26449740	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	341865	26449740	54745470	797	46813											
SDF2	6388	broad.mit.edu	37	chr17	26976285	26976285	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaccttcctcaccaaaagCactcacttcctagaaaatac	14	10	2	15	0	3	1	3	0	0	1	5	1	5	1	4	0	2	1	4	0	6	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:26976285C>A	uc002hbw.2	-	3	397	c.358G>T	c.(358-360)GCT>TCT	p.A120S	SDF2_uc002hbx.2_RNA	NM_006923	NP_008854	Q99470	SDF2_HUMAN	stromal cell-derived factor 2 precursor	120	MIR 2.				protein glycosylation	extracellular space|membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity				0	Lung NSC(42;0.00431)					TCACCAAAAGCACTCACTTCC	0.488													6	58					3.59834e-05	3.68331e-05	1	1	0		A	26976285	A	A	26976285	3	1	70	1	0	0	0	0	1	0	0	0	13985	710	25	5	281	5	SDF2	17	26976285	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	526545	26976285	54218925	798	46814											
SUPT6H	6830	broad.mit.edu	37	chr17	27010016	27010016	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctacatggtagccctgcAgattgcccgtgagccccttg	6	9	11	15	2	0	2	0	1	0	1	0	2	0	2	5	1	5	3	5	1	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:27010016A>G	uc002hby.2	+	15	1874	c.1784A>G	c.(1783-1785)CAG>CGG	p.Q595R	SUPT6H_uc010crt.2_Missense_Mutation_p.Q595R	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	595					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					GTAGCCCTGCAGATTGCCCGT	0.557													4	31					0	0	1	0	0		G	27010016	G	G	27010016	3	3	70	1	0	0	0	0	1	0	0	0	15425	188	7	3	1838	3	SUPT6H	17	27010016	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	33731	27010016	54185194	799	46815											
NEK8	284086	broad.mit.edu	37	chr17	27068463	27068463	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcttggggcaaaggggcgCgaggtcgattgggaaggagg	9	6	20	6	3	1	0	0	0	1	0	2	4	1	2	0	8	0	1	0	8	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:27068463C>T	uc002hcp.2	+	14	1924	c.1924C>T	c.(1924-1926)CGA>TGA	p.R642*	TRAF4_uc002hcq.1_5'Flank|TRAF4_uc002hcs.2_5'Flank	NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	642	RCC1 5.					cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					CAAAGGGGCGCGAGGTCGATT	0.612													12	28					0	0	1	0	0		T	27068463	T	T	27068463	4	4	70	1	0	0	0	0	0	1	0	0	10349	760	27	1	1978	1	NEK8	17	27068463	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	58447	27068463	54126747	800	46816											
PHF12	57649	broad.mit.edu	37	chr17	27248731	27248731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacgtgaagcagactttgaCgggtaagggaacgagaccat	14	6	13	8	3	0	4	0	2	0	2	0	6	0	5	1	2	2	2	1	2	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:27248731C>T	uc002hdg.1	-	5	1341	c.811G>A	c.(811-813)GTC>ATC	p.V271I	PHF12_uc010wbb.1_Missense_Mutation_p.V253I|PHF12_uc002hdi.1_Missense_Mutation_p.V267I|PHF12_uc002hdj.1_Missense_Mutation_p.V271I|PHF12_uc010crw.1_5'UTR|PHF12_uc002hdh.1_Missense_Mutation_p.V54I	NM_001033561	NP_001028733	Q96QT6	PHF12_HUMAN	PHD finger protein 12 isoform 1	271	PHD-type 2; atypical.|Interaction with SIN3A.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	protein binding|zinc ion binding			ovary(1)	1	all_cancers(5;1.95e-14)|all_epithelial(6;5e-18)|Lung NSC(42;0.01)		Epithelial(11;1.64e-05)|all cancers(11;7.47e-05)|BRCA - Breast invasive adenocarcinoma(11;9.79e-05)			CAGACTTTGACGGGTAAGGGA	0.408													48	66					0	0	1	0	0		T	27248731	T	T	27248731	3	4	70	1	0	0	0	0	1	0	0	0	11842	536	19	1	2273	1	PHF12	17	27248731	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	180268	27248731	53946479	801	46817											
PIPOX	51268	broad.mit.edu	37	chr17	27380441	27380441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccctttcaggatgcaattcGacagctaggaggcatagtgc	10	9	12	10	1	1	0	1	0	0	0	2	3	1	2	1	3	3	3	1	3	3	4	rs142705261		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:27380441G>A	uc002hdr.1	+	4	814	c.488G>A	c.(487-489)CGA>CAA	p.R163Q		NM_016518	NP_057602	Q9P0Z9	SOX_HUMAN	pipecolic acid oxidase	163					tetrahydrofolate metabolic process	peroxisome	L-pipecolate oxidase activity|sarcosine oxidase activity				0	Lung NSC(42;0.015)		Epithelial(11;9.87e-06)|BRCA - Breast invasive adenocarcinoma(11;3.92e-05)|all cancers(11;5.59e-05)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)		Glycine(DB00145)	GATGCAATTCGACAGCTAGGA	0.527													19	53					0	0	1	0	0		A	27380441	A	A	27380441	3	1	70	1	0	0	0	0	1	0	0	0	11962	1058	37	1	502	1	PIPOX	17	27380441	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	131710	27380441	53814769	802	46818											
CCDC55	84081	broad.mit.edu	37	chr17	28512115	28512115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggaagataaaccaagggCgagggaccaaagagaaagaa	21	1	13	6	1	0	3	0	0	0	3	0	7	0	5	2	3	1	0	2	3	7	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:28512115C>T	uc002heu.2	+	7	1128	c.1100C>T	c.(1099-1101)GCG>GTG	p.A367V	CCDC55_uc002hev.2_Missense_Mutation_p.A313V|CCDC55_uc010wbl.1_Missense_Mutation_p.A313V|CCDC55_uc010wbm.1_Missense_Mutation_p.A313V|CCDC55_uc002hex.2_Missense_Mutation_p.A313V	NM_032141	NP_115517	Q9H0G5	NSRP1_HUMAN	coiled-coil domain containing 55 isoform 1	367					developmental process|nucleocytoplasmic transport|regulation of alternative nuclear mRNA splicing, via spliceosome	nuclear speck|ribonucleoprotein complex	mRNA binding|protein binding				0						AAACCAAGGGCGAGGGACCAA	0.323													5	30					0	0	1	0	0		T	28512115	T	T	28512115	3	4	70	1	0	0	0	0	1	0	0	0	2828	768	27	1	1126	1	CCDC55	17	28512115	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1131674	28512115	52683095	803	46819											
TMEM132E	124842	broad.mit.edu	37	chr17	32957082	32957082	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggacagtggccatccctgTcaaggtcattgccatcgagg	8	8	12	13	2	2	0	2	0	0	0	4	2	3	1	4	4	1	0	4	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:32957082T>A	uc002hif.2	+	6	1452	c.1124T>A	c.(1123-1125)GTC>GAC	p.V375D		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	375	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		GCCATCCCTGTCAAGGTCATT	0.572													7	17					0	0	1	0	0		A	32957082	A	A	32957082	3	1	70	1	0	0	0	0	1	0	0	0	16073	1667	58	5	1146	5	TMEM132E	17	32957082	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	4444967	32957082	48238128	804	46820											
GGNBP2	79893	broad.mit.edu	37	chr17	34912960	34912960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaacaggatctaagtattgCcatggtggtgacatcacgcg	11	9	12	9	2	2	1	1	1	1	0	2	2	2	2	1	3	2	2	1	3	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:34912960C>T	uc002hnb.2	+	4	461	c.212C>T	c.(211-213)GCC>GTC	p.A71V	GGNBP2_uc002hna.2_Missense_Mutation_p.A71V	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	71					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		CTAAGTATTGCCATGGTGGTG	0.443													46	65					0	0	1	0	0		T	34912960	T	T	34912960	3	4	70	1	0	0	0	0	1	0	0	0	6374	739	26	2	222	2	GGNBP2	17	34912960	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1955878	34912960	46282250	805	46821											
GRB7	2886	broad.mit.edu	37	chr17	37898828	37898828	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgccacaggaaacttcgAgaggaggagaggcgtgccac	11	6	14	10	2	1	2	0	0	1	2	2	6	1	4	2	4	3	0	2	4	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:37898828A>T	uc002hsr.2	+	3	415	c.165A>T	c.(163-165)CGA>CGT	p.R55R	GRB7_uc002hss.2_Silent_p.R55R|GRB7_uc010cwc.2_Silent_p.R55R|GRB7_uc002hst.2_Silent_p.R55R	NM_005310	NP_005301	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	55					blood coagulation|epidermal growth factor receptor signaling pathway|leukocyte migration|negative regulation of translation|positive regulation of cell migration|stress granule assembly	cytosol|focal adhesion|stress granule	phosphatidylinositol binding|protein kinase binding|SH3/SH2 adaptor activity			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GGAAACTTCGAGAGGAGGAGA	0.602													8	139					0	0	1	0	0		T	37898828	T	T	37898828	2	4	70	1	0	0	0	0	0	0	0	1	6775	291	11	5		5	GRB7	17	37898828	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	2985868	37898828	43296382	806	46822											
KRT39	390792	broad.mit.edu	37	chr17	39123030	39123030	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccgttgttagaagagatggTactaacatttgtaatcctag	12	13	10	6	1	0	2	0	0	0	2	1	3	1	2	2	1	2	4	2	1	6	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:39123030T>C	uc002hvo.1	-	1	115	c.79A>G	c.(79-81)ACC>GCC	p.T27A	KRT39_uc010wfm.1_5'UTR	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	27	Head.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				GAAGAGATGGTACTAACATTT	0.483													47	176					0	0	1	0	0		C	39123030	C	C	39123030	3	2	70	1	0	0	0	0	1	0	0	0	8492	1638	57	3	1424	3	KRT39	17	39123030	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1224202	39123030	42072180	807	46823											
KRTAP4-12	83755	broad.mit.edu	37	chr17	39280073	39280073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgacagcagctggggcggCagcaggtgggctggcagcac	7	5	18	11	1	1	1	0	1	1	0	1	1	1	1	0	6	4	7	0	6	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:39280073C>T	uc002hwa.2	-	1	347	c.302G>A	c.(301-303)TGC>TAC	p.C101Y		NM_031854	NP_114060	Q9BQ66	KR412_HUMAN	keratin associated protein 4-12	101	31 X 5 AA repeats of C-C-[GRQVIL]-[SPTR]- [VSTQPC].|18.					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			GCTGGGGCGGCAGCAGGTGGG	0.468													24	45					0	0	1	0	0		T	39280073	T	T	39280073	3	4	70	1	0	0	0	0	1	0	0	0	8566	710	25	2	307	2	KRTAP4-12	17	39280073	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	157043	39280073	41915137	808	46824											
KRT33A	3883	broad.mit.edu	37	chr17	39505608	39505608	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccactcacttggtcctgaAgtcatctgaggccagcttgg	7	10	11	13	0	3	2	2	2	1	0	4	2	4	2	3	3	1	1	3	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:39505608A>G	uc002hwk.1	-	2	458	c.421T>C	c.(421-423)TTC>CTC	p.F141L		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	141	Rod.|Coil 1B.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				TTGGTCCTGAAGTCATCTGAG	0.488													14	35					0	0	1	0	0		G	39505608	G	G	39505608	3	3	70	1	0	0	0	0	1	0	0	0	8485	72	3	3	817	3	KRT33A	17	39505608	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	225535	39505608	41689602	809	46825											
ATP6V0A1	535	broad.mit.edu	37	chr17	40666353	40666353	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgatccacatcggcctgagCgtgaagagcttggcgggagg	8	7	17	9	3	0	4	0	3	0	1	2	5	1	5	2	4	2	1	2	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:40666353C>T	uc002hzr.2	+	21	2462	c.2295C>T	c.(2293-2295)AGC>AGT	p.S765S	ATP6V0A1_uc002hzq.2_Silent_p.S759S|ATP6V0A1_uc002hzs.2_Silent_p.S766S|ATP6V0A1_uc010wgj.1_Silent_p.S722S|ATP6V0A1_uc010wgk.1_Silent_p.S716S|ATP6V0A1_uc010cyg.2_Silent_p.S411S|ATP6V0A1_uc010wgl.1_Silent_p.S624S|ATP6V0A1_uc002hzt.2_Silent_p.S49S	NM_001130021	NP_001123493	Q93050	VPP1_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a1	765	Helical; (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytoplasmic vesicle membrane|endosome membrane|Golgi apparatus|integral to membrane|melanosome|nucleus|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1		all_cancers(22;1.18e-05)|Breast(137;0.000105)|all_epithelial(22;0.000254)		BRCA - Breast invasive adenocarcinoma(366;0.137)		TCGGCCTGAGCGTGAAGAGCT	0.572													63	115					0	0	1	0	0		T	40666353	T	T	40666353	2	4	70	1	0	0	0	0	0	0	0	1	1169	767	27	1		1	ATP6V0A1	17	40666353	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1160745	40666353	40528857	810	46826											
CCR10	2826	broad.mit.edu	37	chr17	40832215	40832215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagtggagggccgcggccCggctgggagcgctcgcgcga	4	3	22	12	7	0	0	0	0	0	0	1	4	0	3	2	6	1	2	2	6	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:40832215C>T	uc002iax.3	-	2	449	c.445G>A	c.(445-447)GGG>AGG	p.G149R	CNTNAP1_uc002iay.2_5'Flank|CNTNAP1_uc010wgs.1_5'Flank	NM_016602	NP_057686	P46092	CCR10_HUMAN	CC chemokine receptor 10	149	Cytoplasmic (Potential).					integral to plasma membrane					0		Breast(137;0.000153)		BRCA - Breast invasive adenocarcinoma(366;0.14)		GGCCGCGGCCCGGCTGGGAGC	0.692													5	8					0	0	1	0	0		T	40832215	T	T	40832215	3	4	70	1	0	0	0	0	1	0	0	0	2943	652	23	1	647	1	CCR10	17	40832215	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	165862	40832215	40362995	811	46827											
MPP3	4356	broad.mit.edu	37	chr17	41891388	41891388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccctcttacgtggaacagCgacgccaaagtgctgtgggt	8	8	14	11	3	1	0	0	0	1	0	1	2	1	1	2	3	4	1	2	3	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:41891388C>T	uc002iei.3	-	16	1412	c.1246G>A	c.(1246-1248)GCT>ACT	p.A416T	MPP3_uc002ieh.2_Missense_Mutation_p.A441T|MPP3_uc002iej.2_RNA	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	416	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		CGTGGAACAGCGACGCCAAAG	0.537													47	62					0	0	1	0	0		T	41891388	T	T	41891388	3	4	70	1	0	0	0	0	1	0	0	0	9753	768	27	1	531	1	MPP3	17	41891388	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1059173	41891388	39303822	812	46828											
SLC4A1	6521	broad.mit.edu	37	chr17	42335473	42335473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtaataggggtagcggCgccggatatcacgcaccagg	10	6	15	10	4	2	0	2	0	0	0	2	1	2	1	2	6	1	3	2	6	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:42335473C>T	uc002igf.3	-	11	1312	c.1163G>A	c.(1162-1164)CGC>CAC	p.R388H	SLC4A1_uc002igg.3_Missense_Mutation_p.R388H	NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	388	Cytoplasmic.				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		GGGGTAGCGGCGCCGGATATC	0.582													23	69					0	0	1	0	0		T	42335473	T	T	42335473	3	4	70	1	0	0	0	0	1	0	0	0	14675	768	27	1	1612	1	SLC4A1	17	42335473	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	444085	42335473	38859737	813	46829											
GPATCH8	23131	broad.mit.edu	37	chr17	42478368	42478368	+	Frame_Shift_Del	DEL	T	-	-																															tcctgagggtcttcatcctcTtttttaccatcaagattact																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:42478368delT	uc002igw.1	-	8	1141	c.1077delA	c.(1075-1077)AAAfs	p.K359fs	GPATCH8_uc002igv.1_Frame_Shift_Del_p.K281fs|GPATCH8_uc010wiz.1_Frame_Shift_Del_p.K281fs	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	359						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		CTTCATCCTCTTTTTTACCAT	0.473											OREG0024461	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	44	101	---	---	---	---						.	-	42478368	-	-	42478368	7	5	70	1	0	1	0	1	0	0	0	0	6609	1606	56	0	3435	0	GPATCH8	17	42478368	Frame_Shift_Del	DEL	T	TCGA-BR-8368-01A-11D-2340-08	142895	42478368	38716842	814	46830											
GFAP	2670	broad.mit.edu	37	chr17	42992767	42992767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgggtgccaggacccagacGgcggccaggagccaggcccc	7	1	17	16	3	0	1	0	0	0	1	0	3	0	3	6	6	2	0	6	6	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:42992767G>A	uc002ihq.2	-	1	148	c.88C>T	c.(88-90)CGT>TGT	p.R30C	GFAP_uc002ihr.2_Missense_Mutation_p.R30C|GFAP_uc010wjg.1_RNA	NM_002055	NP_002046	P14136	GFAP_HUMAN	glial fibrillary acidic protein isoform 1	30	Head.					cytoplasm|intermediate filament	structural constituent of cytoskeleton			ovary(1)|pancreas(1)	2		Prostate(33;0.0959)				GGACCCAGACGGCGGCCAGGA	0.672													7	14					0	0	1	0	0		A	42992767	A	A	42992767	3	1	70	1	0	0	0	0	1	0	0	0	6352	1116	39	1	1375	1	GFAP	17	42992767	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	514399	42992767	38202443	815	46831											
PLCD3	113026	broad.mit.edu	37	chr17	43196237	43196237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcgcgggccagtgtggcGccctcctcgccctggtcctc	1	8	15	17	4	0	0	0	0	0	0	4	0	2	0	5	4	0	0	5	4	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:43196237G>A	uc002iib.2	-	5	972	c.858C>T	c.(856-858)GGC>GGT	p.G286G		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	286					intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	CCAGTGTGGCGCCCTCCTCGC	0.483													6	19					0	0	1	0	0		A	43196237	A	A	43196237	2	1	70	1	0	0	0	0	0	0	0	1	12051	1074	38	1		1	PLCD3	17	43196237	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	203470	43196237	37998973	816	46832											
MAP3K14	9020	broad.mit.edu	37	chr17	43362236	43362236	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccatcctgtgcacctctccGaaggagcctctgcccaggcg	6	8	10	17	2	2	0	0	0	2	0	5	2	4	1	6	2	3	1	6	2	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:43362236G>A	uc002iiw.1	-	7	1342	c.1233C>T	c.(1231-1233)TTC>TTT	p.F411F	MAP3K14_uc010daj.1_RNA|MAP3K14_uc002iiv.1_5'UTR	NM_003954	NP_003945	Q99558	M3K14_HUMAN	mitogen-activated protein kinase kinase kinase	411	Interaction with ZFP91.|ATP (By similarity).|Protein kinase.				cellular response to mechanical stimulus|I-kappaB kinase/NF-kappaB cascade|immune response|positive regulation of I-kappaB kinase/NF-kappaB cascade|T cell costimulation	cytosol	ATP binding|MAP kinase kinase kinase activity|NF-kappaB-inducing kinase activity|protein binding			central_nervous_system(3)|breast(2)|lung(1)|ovary(1)|stomach(1)	8						GCACCTCTCCGAAGGAGCCTC	0.592													3	3					0	0	1	0	0		A	43362236	A	A	43362236	2	1	70	1	0	0	0	0	0	0	0	1	9266	1049	37	1		1	MAP3K14	17	43362236	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	165999	43362236	37832974	817	46833											
SP6	80320	broad.mit.edu	37	chr17	45925675	45925675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggggaggggtagtcccCggcctcagggctcgtgtggc	4	6	19	12	3	1	0	1	0	0	0	3	1	2	1	3	7	1	2	3	7	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:45925675C>T	uc002img.1	-	2	453	c.121G>A	c.(121-123)GGG>AGG	p.G41R	SP6_uc002imh.1_Missense_Mutation_p.G41R	NM_199262	NP_954871	Q3SY56	SP6_HUMAN	Sp6 transcription factor	41					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GGGTAGTCCCCGGCCTCAGGG	0.711													7	12					0	0	1	0	0		T	45925675	T	T	45925675	3	4	70	1	0	0	0	0	1	0	0	0	14993	652	23	1	1013	1	SP6	17	45925675	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2563439	45925675	35269535	818	46834											
CHAD	1101	broad.mit.edu	37	chr17	48546095	48546095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtcgctgtggcagtggCagttctgggggcaggcggcc	4	7	20	10	2	1	0	0	0	1	0	2	0	1	0	1	7	0	6	1	7	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:48546095C>T	uc010dbr.2	-	1	133	c.80G>A	c.(79-81)TGC>TAC	p.C27Y	ACSF2_uc002iqu.2_Intron|ACSF2_uc010wml.1_Intron|ACSF2_uc010wmm.1_Intron|ACSF2_uc010wmn.1_Intron|ACSF2_uc010wmo.1_Intron|CHAD_uc010dbs.2_Missense_Mutation_p.C27Y|ACSF2_uc010dbt.1_Intron	NM_001267	NP_001258	O15335	CHAD_HUMAN	chondroadherin precursor	27	LRRNT.				regulation of cell growth	proteinaceous extracellular matrix	extracellular matrix structural constituent			ovary(2)|central_nervous_system(1)	3	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			GTGGCAGTGGCAGTTCTGGGG	0.667													13	11					0	0	1	0	0		T	48546095	T	T	48546095	3	4	70	1	0	0	0	0	1	0	0	0	3313	710	25	2	1011	2	CHAD	17	48546095	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2620420	48546095	32649115	819	46835											
ABCC3	8714	broad.mit.edu	37	chr17	48757227	48757227	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctaacatcgtggctgtggaGagggtcaaggagtactccaa	11	9	13	8	1	2	1	1	0	1	1	4	3	3	2	1	4	2	2	1	4	4	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:48757227G>A	uc002isl.2	+	26	3854	c.3774G>A	c.(3772-3774)GAG>GAA	p.E1258E	ABCC3_uc002isn.2_Silent_p.E12E	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	1258	Cytoplasmic (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	TGGCTGTGGAGAGGGTCAAGG	0.522													17	37					0	0	1	0	0		A	48757227	A	A	48757227	2	1	70	1	0	0	0	0	0	0	0	1	54	933	33	4		4	ABCC3	17	48757227	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	211132	48757227	32437983	820	46836											
BZRAP1	9256	broad.mit.edu	37	chr17	56400095	56400095	+	Frame_Shift_Del	DEL	C	-	-																															tgagtccctctcctgtgtcaCccccaggagctggcccctca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:56400095delC	uc002ivx.3	-	9	2108	c.1237delG	c.(1237-1239)GTGfs	p.V413fs	BZRAP1_uc010dcs.2_Frame_Shift_Del_p.V353fs|BZRAP1_uc010wnt.1_Frame_Shift_Del_p.V413fs	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	413						mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TCCTGTGTCACCCCCAGGAGC	0.647													19	38	---	---	---	---						.	-	56400095	-	-	56400095	7	5	70	1	0	1	0	1	0	0	0	0	1580	507	18	0	4428	0	BZRAP1	17	56400095	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	7642868	56400095	24795115	821	46837											
RNF43	54894	broad.mit.edu	37	chr17	56437531	56437531	+	Frame_Shift_Del	DEL	G	-	-																															tgtgatgttgaacatgcagaGggggcaagtccgatgctgat																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:56437531delG	uc002iwf.2	-	7	2887	c.931delC	c.(931-933)CTCfs	p.L311fs	RNF43_uc010wnv.1_Frame_Shift_Del_p.L270fs|RNF43_uc002iwh.3_Frame_Shift_Del_p.L311fs|RNF43_uc002iwg.3_Frame_Shift_Del_p.L311fs|RNF43_uc010dcw.2_Frame_Shift_Del_p.L184fs	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	311	RING-type; atypical.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AACATGCAGAGGGGGCAAGTC	0.547													41	66	---	---	---	---						.	-	56437531	-	-	56437531	7	5	70	1	0	1	0	1	0	0	0	0	13520	1000	35	0	1432	0	RNF43	17	56437531	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	37436	56437531	24757679	822	46838											
CYB561	1534	broad.mit.edu	37	chr17	61514812	61514812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtacagcccgagccacgCgccggtcatggccaccaagg	8	4	13	16	5	1	0	1	0	0	0	2	1	1	0	5	4	3	1	5	4	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:61514812C>T	uc002jap.2	-	1	499	c.97G>A	c.(97-99)GCG>ACG	p.A33T	CYB561_uc002jaq.2_Missense_Mutation_p.A79T|CYB561_uc002jar.2_Missense_Mutation_p.A33T|CYB561_uc002jas.2_Missense_Mutation_p.A33T|CYB561_uc010ddt.2_Missense_Mutation_p.A33T|CYB561_uc002jat.2_Missense_Mutation_p.A33T|CYB561_uc010wpf.1_Missense_Mutation_p.A33T|CYB561_uc010wpg.1_Missense_Mutation_p.A4T	NM_001915	NP_001906	P49447	CY561_HUMAN	cytochrome b-561	33	Helical; (Potential).|Cytochrome b561.				electron transport chain|transport	integral to plasma membrane	cytochrome-b5 reductase activity|ferric-chelate reductase activity|metal ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(1115;0.0689)		CCGAGCCACGCGCCGGTCATG	0.677													4	28					0	0	1	0	0		T	61514812	T	T	61514812	3	4	70	1	0	0	0	0	1	0	0	0	4122	768	27	1	678	1	CYB561	17	61514812	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	5077281	61514812	19680398	823	46839											
SCN4A	6329	broad.mit.edu	37	chr17	62018409	62018409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatgcctgcttcatggagcGctgtagcaggtgccggcggt	5	9	17	10	3	1	0	1	0	0	0	1	2	1	2	2	5	5	4	2	5	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:62018409G>A	uc002jds.1	-	24	5310	c.5233C>T	c.(5233-5235)CGC>TGC	p.R1745C		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1745	IQ.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	TTCATGGAGCGCTGTAGCAGG	0.622													21	36					0	0	1	0	0		A	62018409	A	A	62018409	3	1	70	1	0	0	0	0	1	0	0	0	13945	1087	38	1	281	1	SCN4A	17	62018409	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	503597	62018409	19176801	824	46840											
SCN4A	6329	broad.mit.edu	37	chr17	62019281	62019281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcaggacacgcccaatcCgcgccaggcggatcacacgg	9	2	13	17	6	1	0	1	0	0	0	2	2	2	2	4	4	0	1	4	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:62019281C>T	uc002jds.1	-	24	4438	c.4361G>A	c.(4360-4362)CGG>CAG	p.R1454Q		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1454	Helical; Voltage-sensor; Name=S4 of repeat IV; (Potential).|IV.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	ACGCCCAATCCGCGCCAGGCG	0.642													10	19					0	0	1	0	0		T	62019281	T	T	62019281	3	4	70	1	0	0	0	0	1	0	0	0	13945	652	23	1	1153	1	SCN4A	17	62019281	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	872	62019281	19175929	825	46841											
ABCA5	23461	broad.mit.edu	37	chr17	67303002	67303002	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtatattaaaattactcctcGgggaaaggtatctatttcta	13	15	7	6	1	2	0	0	0	2	0	4	1	3	1	1	3	1	2	1	3	9	8			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:67303002G>A	uc002jif.2	-	5	1870	c.652C>T	c.(652-654)CGA>TGA	p.R218*	ABCA5_uc002jig.2_Nonsense_Mutation_p.R218*|ABCA5_uc002jih.2_Nonsense_Mutation_p.R218*|ABCA5_uc010dfe.2_Nonsense_Mutation_p.R218*	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	218					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					ATTACTCCTCGGGGAAAGGTA	0.323													24	63					0	0	1	0	0		A	67303002	A	A	67303002	4	1	70	1	0	0	0	0	0	1	0	0	35	1124	39	1	4412	1	ABCA5	17	67303002	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	5283721	67303002	13892208	826	46842											
SSTR2	6752	broad.mit.edu	37	chr17	71166221	71166221	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtctgagaagaaggtcAcccgaatggtgtccatcgtg	12	8	13	8	2	2	3	1	1	1	3	4	5	3	3	2	2	0	0	2	2	4	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:71166221A>G	uc002jje.2	+	2	1123	c.763A>G	c.(763-765)ACC>GCC	p.T255A		NM_001050	NP_001041	P30874	SSR2_HUMAN	somatostatin receptor 2	255	Helical; Name=6; (Potential).				digestion|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	PDZ domain binding|somatostatin receptor activity				0			LUSC - Lung squamous cell carcinoma(166;0.197)			GAAGAAGGTCACCCGAATGGT	0.507													52	76					0	0	1	0	0		G	71166221	G	G	71166221	3	3	70	1	0	0	0	0	1	0	0	0	15223	159	6	3	765	3	SSTR2	17	71166221	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	3863219	71166221	10028989	827	46843											
ICT1	3396	broad.mit.edu	37	chr17	73008887	73008887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcacaagcagaaagacGgcactgagttcaagagcatc	14	5	11	11	2	1	4	1	1	0	3	2	4	1	4	0	1	3	6	0	1	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:73008887G>A	uc002jmm.2	+	1	108	c.106G>A	c.(106-108)GGC>AGC	p.G36S		NM_001545	NP_001536	Q14197	ICT1_HUMAN	immature colon carcinoma transcript 1 precursor	36					mitochondrial translational termination	mitochondrial large ribosomal subunit	aminoacyl-tRNA hydrolase activity|translation release factor activity, codon nonspecific			ovary(1)|central_nervous_system(1)	2	all_lung(278;0.226)					GCAGAAAGACGGCACTGAGTT	0.682											OREG0024724	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	13					0	0	1	0	0		A	73008887	A	A	73008887	3	1	70	1	0	0	0	0	1	0	0	0	7504	1116	39	1	108	1	ICT1	17	73008887	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1842666	73008887	8186323	828	46844											
ZACN	353174	broad.mit.edu	37	chr17	74077483	74077483	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgccctgcttccaggtgacGgtgagtcaagtcgggaggag	7	8	17	9	2	1	2	1	2	0	0	3	4	2	4	2	4	2	1	2	4	1	1	rs145200784	by1000genomes	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:74077483G>A	uc002jqn.2	+	6	752	c.669G>A	c.(667-669)ACG>ACA	p.T223T	ZACN_uc002jqo.2_RNA|ZACN_uc010dgu.2_RNA|EXOC7_uc002jqp.1_3'UTR|EXOC7_uc010dgv.1_3'UTR|EXOC7_uc002jqs.2_3'UTR|EXOC7_uc002jqq.2_3'UTR|EXOC7_uc010wsw.1_3'UTR|EXOC7_uc010wsx.1_3'UTR|EXOC7_uc002jqr.2_3'UTR|EXOC7_uc010wsv.1_3'UTR	NM_180990	NP_851321	Q401N2	ZACN_HUMAN	zinc activated ligand-gated ion channel	223	Extracellular (Potential).				response to zinc ion	integral to membrane|membrane fraction|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity				0						TCCAGGTGACGGTGAGTCAAG	0.617													65	103					0	0	1	0	0		A	74077483	A	A	74077483	2	1	70	1	0	0	0	0	0	0	0	1	17536	1130	39	1		1	ZACN	17	74077483	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1068596	74077483	7117727	829	46845											
PRPSAP1	5635	broad.mit.edu	37	chr17	74324855	74324855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccataggcggggagtgacGaccatcgtccatgtccagtt	9	8	13	11	3	0	1	0	1	0	0	3	4	2	2	4	3	0	1	4	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:74324855G>A	uc010wta.1	-	7	1170	c.724C>T	c.(724-726)CGT>TGT	p.R242C	PRPSAP1_uc010wtb.1_Missense_Mutation_p.R139C	NM_002766	NP_002757	Q14558	KPRA_HUMAN	phosphoribosyl pyrophosphate	213					nucleotide biosynthetic process		enzyme inhibitor activity|identical protein binding|magnesium ion binding|ribose phosphate diphosphokinase activity			ovary(1)	1						GGGGAGTGACGACCATCGTCC	0.507													10	21					0	0	1	0	0		A	74324855	A	A	74324855	3	1	70	1	0	0	0	0	1	0	0	0	12603	1058	37	1	449	1	PRPSAP1	17	74324855	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	247372	74324855	6870355	830	46846											
DNAH17	8632	broad.mit.edu	37	chr17	76421587	76421587	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccgtgaggaacgactggggGttgaagaagccggccagcca	10	4	17	10	3	0	3	0	2	0	1	0	5	0	4	4	4	3	1	4	4	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:76421587G>A	uc010dhp.1	-	25	4203	c.3981C>T	c.(3979-3981)AAC>AAT	p.N1327N	DNAH17_uc002jvq.2_Silent_p.N612N|DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			ACGACTGGGGGTTGAAGAAGC	0.602													6	31					0	0	1	0	0		A	76421587	A	A	76421587	2	1	70	1	0	0	0	0	0	0	0	1	4607	1252	44	4		4	DNAH17	17	76421587	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2096732	76421587	4773623	831	46847											
USP36	57602	broad.mit.edu	37	chr17	76800028	76800028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgaaggggggttgcaggCggctggatgattggggagca	7	7	22	5	1	0	2	0	2	0	0	0	4	0	4	0	9	2	5	0	9	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:76800028C>T	uc002jvz.1	-	16	2574	c.2249G>A	c.(2248-2250)CGC>CAC	p.R750H	USP36_uc002jwa.1_Missense_Mutation_p.R750H|USP36_uc002jwb.1_Intron|USP36_uc002jwc.1_Missense_Mutation_p.R450H|USP36_uc002jvy.1_5'Flank	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	750					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			GGGTTGCAGGCGGCTGGATGA	0.622													4	25					0	0	1	0	0		T	76800028	T	T	76800028	3	4	70	1	0	0	0	0	1	0	0	0	17093	768	27	1	1142	1	USP36	17	76800028	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	378441	76800028	4395182	832	46848											
CARD14	79092	broad.mit.edu	37	chr17	78176025	78176025	+	Frame_Shift_Del	DEL	G	-	-																															gaggccaaagtggcgacctcGggggactcattctacatccg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:78176025delG	uc002jxw.1	+	15	2220	c.2025delG	c.(2023-2025)TCGfs	p.S675fs	CARD14_uc002jxt.1_RNA|CARD14_uc002jxv.2_Frame_Shift_Del_p.S675fs|CARD14_uc010wud.1_RNA	NM_024110	NP_077015	Q9BXL6	CAR14_HUMAN	caspase recruitment domain protein 14 isoform 1	675					activation of NF-kappaB-inducing kinase activity|positive regulation of protein phosphorylation|regulation of apoptosis	aggresome|cytoplasm|plasma membrane	CARD domain binding			ovary(4)|skin(1)	5	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			TGGCGACCTCGGGGGACTCAT	0.587													20	46	---	---	---	---						.	-	78176025	-	-	78176025	7	5	70	1	0	1	0	1	0	0	0	0	2649	1103	39	0	2244	0	CARD14	17	78176025	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	1375997	78176025	3019185	833	46849											
RPTOR	57521	broad.mit.edu	37	chr17	78704481	78704481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtccttcaagcagttcgCactacagcgggagcaggagc	11	6	12	12	2	1	0	1	0	0	0	3	2	2	2	1	2	5	4	1	2	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:78704481C>T	uc002jyt.1	+	5	1434	c.629C>T	c.(628-630)GCA>GTA	p.A210V	RPTOR_uc002jys.2_Missense_Mutation_p.A210V|RPTOR_uc010wuf.1_Missense_Mutation_p.A25V|RPTOR_uc010wug.1_Missense_Mutation_p.A210V	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	210					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						AAGCAGTTCGCACTACAGCGG	0.582													27	42					0	0	1	0	0		T	78704481	T	T	78704481	3	4	70	1	0	0	0	0	1	0	0	0	13690	710	25	2	647	2	RPTOR	17	78704481	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	528456	78704481	2490729	834	46850											
RAC3	5881	broad.mit.edu	37	chr17	79991680	79991680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcccccagtgaagaagcCggggaagaagtgcaccgtct	10	4	13	14	3	1	3	0	1	1	2	1	4	1	4	5	2	2	1	5	2	4	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:79991680C>T	uc002kdf.2	+	6	660	c.554C>T	c.(553-555)CCG>CTG	p.P185L		NM_005052	NP_005043	P60763	RAC3_HUMAN	ras-related C3 botulinum toxin substrate 3 (rho	185					actin cytoskeleton organization|cell projection assembly|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endomembrane system|filamentous actin|growth cone|lamellipodium|neuronal cell body|plasma membrane	GTP binding|GTPase activity|protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			GTGAAGAAGCCGGGGAAGAAG	0.652													7	11					0	0	1	0	0		T	79991680	T	T	79991680	3	4	70	1	0	0	0	0	1	0	0	0	13001	652	23	1	576	1	RAC3	17	79991680	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1287199	79991680	1203530	835	46851											
GPS1	2873	broad.mit.edu	37	chr17	80012606	80012606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtggggacctcagcaacGccctcaagtgctattcccgg	8	8	11	14	2	2	0	2	0	0	0	3	1	3	1	3	3	3	2	3	3	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:80012606G>A	uc002kdl.1	+	4	586	c.541G>A	c.(541-543)GCC>ACC	p.A181T	RFNG_uc002kdj.2_5'Flank|GPS1_uc002kdk.1_Missense_Mutation_p.A217T|GPS1_uc010dij.1_Missense_Mutation_p.A217T|GPS1_uc002kdm.1_Missense_Mutation_p.A161T|GPS1_uc002kdn.1_Missense_Mutation_p.A177T|GPS1_uc002kdo.1_Missense_Mutation_p.A181T|GPS1_uc010wvh.1_Missense_Mutation_p.A173T	NM_004127	NP_004118	Q13098	CSN1_HUMAN	G protein pathway suppressor 1 isoform 2	181					cell cycle|cullin deneddylation|inactivation of MAPK activity|JNK cascade	cytoplasm|signalosome	GTPase inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			CCTCAGCAACGCCCTCAAGTG	0.612													9	20					0	0	1	0	0		A	80012606	A	A	80012606	3	1	70	1	0	0	0	0	1	0	0	0	6748	1087	38	1	712	1	GPS1	17	80012606	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	20926	80012606	1182604	836	46852											
GPS1	2873	broad.mit.edu	37	chr17	80014794	80014794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcaaggagttccagcgcCgcgccaaggccatgatgctg	8	6	15	12	3	0	1	0	1	0	0	1	2	1	2	4	3	2	3	4	3	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:80014794C>T	uc002kdl.1	+	12	1390	c.1345C>T	c.(1345-1347)CGC>TGC	p.R449C	GPS1_uc002kdk.1_Missense_Mutation_p.R485C|GPS1_uc010dij.1_Missense_Mutation_p.R484C|GPS1_uc002kdm.1_Missense_Mutation_p.R429C|GPS1_uc002kdn.1_Missense_Mutation_p.R445C|GPS1_uc002kdo.1_Missense_Mutation_p.R448C|GPS1_uc010wvh.1_Missense_Mutation_p.R441C	NM_004127	NP_004118	Q13098	CSN1_HUMAN	G protein pathway suppressor 1 isoform 2	449					cell cycle|cullin deneddylation|inactivation of MAPK activity|JNK cascade	cytoplasm|signalosome	GTPase inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			GTTCCAGCGCCGCGCCAAGGC	0.642													17	26					0	0	1	0	0		T	80014794	T	T	80014794	3	4	70	1	0	0	0	0	1	0	0	0	6748	652	23	1	1548	1	GPS1	17	80014794	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2188	80014794	1180416	837	46853											
ZNF750	79755	broad.mit.edu	37	chr17	80789902	80789902	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcaccgagggcggcttcCggagctgggctcttgcaggg	4	7	19	11	3	1	0	0	0	1	0	2	2	2	1	2	6	2	5	2	6	0	2	rs142460137		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr17:80789902C>T	uc002kga.2	-	2	740	c.429G>A	c.(427-429)CCG>CCA	p.P143P	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	143						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GGGCGGCTTCCGGAGCTGGGC	0.647													6	20					0	0	1	0	0		T	80789902	T	T	80789902	2	4	70	1	0	0	0	0	0	0	0	1	18157	639	23	1		1	ZNF750	17	80789902	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	775108	80789902	405308	838	46854											
EPB41L3	23136	broad.mit.edu	37	chr18	5394709	5394709	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccatcttctggtgtgatCtctgtctctttatggaccac	5	17	7	12	0	5	1	0	1	5	0	8	2	5	2	2	2	0	0	2	2	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:5394709C>A	uc002kmt.1	-	22	3323	c.3237G>T	c.(3235-3237)GAG>GAT	p.E1079D	EPB41L3_uc010wzh.1_Intron|EPB41L3_uc002kmu.1_Missense_Mutation_p.E857D|EPB41L3_uc010dkq.1_Missense_Mutation_p.E748D|EPB41L3_uc002kms.1_Missense_Mutation_p.E314D|EPB41L3_uc010wze.1_Missense_Mutation_p.E384D|EPB41L3_uc010wzf.1_Missense_Mutation_p.E376D|EPB41L3_uc010wzg.1_Missense_Mutation_p.E351D|EPB41L3_uc010dkr.2_Missense_Mutation_p.E471D	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	1079	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						CTGGTGTGATCTCTGTCTCTT	0.527													23	50					5.35356e-11	5.63348e-11	1	1	0		A	5394709	A	A	5394709	3	1	70	1	0	0	0	0	1	0	0	0	5162	912	32	5	30	5	EPB41L3	18	5394709	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08		5394709	72682539	839	46855											
EPB41L3	23136	broad.mit.edu	37	chr18	5428401	5428401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatctgtttattcgcagccGgtcgcgatatatcaacagac	12	11	8	10	4	2	1	1	0	1	1	4	2	2	1	1	1	2	2	1	1	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:5428401G>A	uc002kmt.1	-	9	1062	c.976C>T	c.(976-978)CGG>TGG	p.R326W	EPB41L3_uc010wzh.1_Missense_Mutation_p.R326W|EPB41L3_uc002kmu.1_Missense_Mutation_p.R326W|EPB41L3_uc010dkq.1_Missense_Mutation_p.R217W|EPB41L3_uc010dks.1_Missense_Mutation_p.R348W	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	326	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						ATTCGCAGCCGGTCGCGATAT	0.418													64	104					0	0	1	0	0		A	5428401	A	A	5428401	3	1	70	1	0	0	0	0	1	0	0	0	5162	1115	39	1	2343	1	EPB41L3	18	5428401	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	33692	5428401	72648847	840	46856											
LAMA1	284217	broad.mit.edu	37	chr18	6958568	6958568	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctctggaattcccccgacGtacagattggacacatttat	10	11	7	13	2	1	1	0	0	1	1	2	4	2	3	3	2	1	1	3	2	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:6958568G>A	uc002knm.2	-	55	7966	c.7872C>T	c.(7870-7872)TAC>TAT	p.Y2624Y	LAMA1_uc002knk.2_5'Flank|LAMA1_uc002knl.2_Silent_p.Y77Y|LAMA1_uc010wzj.1_Silent_p.Y2100Y	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2624	Laminin G-like 3.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTCCCCCGACGTACAGATTGG	0.433													16	50					0	0	1	0	0		A	6958568	A	A	6958568	2	1	70	1	0	0	0	0	0	0	0	1	8621	1140	40	1		1	LAMA1	18	6958568	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1530167	6958568	71118680	841	46857											
PTPRM	5797	broad.mit.edu	37	chr18	8085713	8085713	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgacccagaaatagatttAtccaatcagagtggaagagt	15	11	9	6	0	1	5	1	1	0	4	2	6	2	6	2	1	0	0	2	1	5	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:8085713A>G	uc002knn.3	+	10	2099	c.1596A>G	c.(1594-1596)TTA>TTG	p.L532L	PTPRM_uc010dkv.2_Silent_p.L532L|PTPRM_uc010wzl.1_Silent_p.L319L	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	532	Fibronectin type-III 3.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				AAATAGATTTATCCAATCAGA	0.408													38	51					0	0	1	0	0		G	8085713	G	G	8085713	2	3	70	1	0	0	0	0	0	0	0	1	12831	446	16	3		3	PTPRM	18	8085713	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	1127145	8085713	69991535	842	46858											
RAB31	11031	broad.mit.edu	37	chr18	9845647	9845648	+	Frame_Shift_Ins	INS	-	A	A																															atcgtggttgagacaagtgcINSaaaaaatgctattaatatcg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:9845647_9845648insA	uc002kog.2	+	6	624_625	c.449_450insA	c.(448-450)GCAfs	p.A150fs		NM_006868	NP_006859	Q13636	RAB31_HUMAN	RAB31, member RAS oncogene family	149					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						GAGACAAGTGCAAAAAATGCTA	0.421													2	4	---	---	---	---						.	A	9845648	A	A	9845647	7	5	70	1	0	1	1	0	0	0	0	0	12945	710	25	0	471	0	RAB31	18	9845647	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	1759934	9845647	68231601	843	46859											
C18orf1	753	broad.mit.edu	37	chr18	13438332	13438332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgtggggacaacagtgacGaagagaactgtctcctggtg	11	8	14	8	1	1	2	0	1	1	1	2	5	1	3	1	3	2	0	1	3	3	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:13438332G>A	uc002ksa.2	+	4	798	c.130G>A	c.(130-132)GAA>AAA	p.E44K	C18orf1_uc002ksb.2_Missense_Mutation_p.E44K	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	44	Extracellular (Potential).|LDL-receptor class A.					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		CAACAGTGACGAAGAGAACTG	0.512													38	74					0	0	1	0	0		A	13438332	A	A	13438332	3	1	70	1	0	0	0	0	1	0	0	0	1897	1059	37	1	136	1	C18orf1	18	13438332	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3592685	13438332	64638916	844	46860											
KCTD1	284252	broad.mit.edu	37	chr18	24056602	24056602	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaaaacaatgggctctgtAccatcaaaaagtcttccgat	14	10	6	11	1	3	0	1	0	2	0	5	1	5	0	3	1	2	2	3	1	6	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:24056602A>G	uc002kvw.2	-	3	746	c.186T>C	c.(184-186)GGT>GGC	p.G62G	KCTD1_uc010xbj.1_Silent_p.G670G|KCTD1_uc010xbk.1_Silent_p.G62G|KCTD1_uc002kvy.2_5'UTR	NM_001136205	NP_001129677	Q719H9	KCTD1_HUMAN	potassium channel tetramerisation domain	62	BTB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)			TGGGCTCTGTACCATCAAAAA	0.388													16	37					0	0	1	0	0		G	24056602	G	G	24056602	2	3	70	1	0	0	0	0	0	0	0	1	8112	378	14	3		3	KCTD1	18	24056602	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	10618270	24056602	54020646	845	46861											
KLHL14	57565	broad.mit.edu	37	chr18	30349862	30349862	+	Frame_Shift_Del	DEL	G	-	-																															agcgccagctccgactccacGgggggcggcagcgagtccag																								rs147661052		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:30349862delG	uc002kxm.1	-	2	1081	c.693delC	c.(691-693)CCCfs	p.P231fs		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	231	BACK.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						CCGACTCCACGGGGGGCGGCA	0.642													20	27	---	---	---	---						.	-	30349862	-	-	30349862	7	5	70	1	0	1	0	1	0	0	0	0	8386	1103	39	0	1225	0	KLHL14	18	30349862	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	6293260	30349862	47727386	846	46862											
GALNT1	2589	broad.mit.edu	37	chr18	33263466	33263466	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctagattaaaaggagctgCtgtgtctaaaggccaagtga	14	9	12	6	0	1	2	0	1	1	1	1	3	1	3	1	2	3	3	1	2	6	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:33263466C>A	uc010dmu.2	+	5	646	c.593C>A	c.(592-594)GCT>GAT	p.A198D	GALNT1_uc002kyz.3_Missense_Mutation_p.A138D|GALNT1_uc002kzb.2_Missense_Mutation_p.A198D	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	198	Lumenal (Potential).|Catalytic subdomain A.				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						AAAGGAGCTGCTGTGTCTAAA	0.443													3	28					0.150653	0.151056	1	1	0		A	33263466	A	A	33263466	3	1	70	1	0	0	0	0	1	0	0	0	6222	797	28	5	607	5	GALNT1	18	33263466	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2913604	33263466	44813782	847	46863											
RPRD1A	55197	broad.mit.edu	37	chr18	33606891	33606891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatgctctttctctgcaaggGcttccttttgacaacgaaga	9	14	8	10	1	2	2	0	1	2	1	4	3	3	2	1	1	3	3	1	1	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:33606891G>A	uc002kzf.1	-	6	767	c.761C>T	c.(760-762)GCC>GTC	p.A254V	RPRD1A_uc002kze.1_Missense_Mutation_p.A218V|RPRD1A_uc002kzg.2_Missense_Mutation_p.A254V|RPRD1A_uc010dmw.2_Missense_Mutation_p.A218V|RPRD1A_uc010dmx.2_Missense_Mutation_p.A254V	NM_018170	NP_060640	Q96P16	RPR1A_HUMAN	regulation of nuclear pre-mRNA domain containing	254	Potential.									ovary(1)|breast(1)	2						CTCTGCAAGGGCTTCCTTTTG	0.343													27	46					0	0	1	0	0		A	33606891	A	A	33606891	3	1	70	1	0	0	0	0	1	0	0	0	13640	1203	42	2	185	2	RPRD1A	18	33606891	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	343425	33606891	44470357	848	46864											
FHOD3	80206	broad.mit.edu	37	chr18	34174753	34174753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatctcttctgccagttcCgcctggtggtgaagacagcc	6	13	10	12	1	2	2	0	1	2	1	4	2	3	2	4	2	2	1	4	2	2	4	rs149572147		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:34174753C>T	uc002kzt.1	+	7	707	c.610C>T	c.(610-612)CGC>TGC	p.R204C	FHOD3_uc002kzr.1_Missense_Mutation_p.R204C|FHOD3_uc002kzs.1_Missense_Mutation_p.R204C|FHOD3_uc002kzu.1_Missense_Mutation_p.R29C|FHOD3_uc010dmz.1_5'UTR	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	204	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CTGCCAGTTCCGCCTGGTGGT	0.547													8	29					0	0	1	0	0		T	34174753	T	T	34174753	3	4	70	1	0	0	0	0	1	0	0	0	5897	652	23	1	636	1	FHOD3	18	34174753	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	567862	34174753	43902495	849	46865											
FHOD3	80206	broad.mit.edu	37	chr18	34340642	34340642	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgagctatgcggaggacgcGgctgagcacgagaacatgaa	12	5	15	9	4	0	4	0	3	0	1	0	7	0	6	0	3	4	3	0	3	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:34340642G>A	uc002kzt.1	+	22	4018	c.3921G>A	c.(3919-3921)GCG>GCA	p.A1307A	FHOD3_uc002kzs.1_Silent_p.A1324A|FHOD3_uc010dmz.1_Silent_p.A1039A|FHOD3_uc010dnb.1_Intron	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	1307					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CGGAGGACGCGGCTGAGCACG	0.657													18	41					0	0	1	0	0		A	34340642	A	A	34340642	2	1	70	1	0	0	0	0	0	0	0	1	5897	1103	39	1		1	FHOD3	18	34340642	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	165889	34340642	43736606	850	46866											
KIAA1328	57536	broad.mit.edu	37	chr18	34647292	34647292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaatcatgcagttattgtcGgctttcttgggcatctctgg	7	15	11	8	1	3	1	1	0	2	1	5	1	3	1	0	3	1	4	0	3	2	4	rs151123484	by1000genomes	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:34647292G>A	uc002kzz.2	+	7	1038	c.1016G>A	c.(1015-1017)CGG>CAG	p.R339Q	KIAA1328_uc002lab.2_Missense_Mutation_p.R55Q|KIAA1328_uc002lac.1_Missense_Mutation_p.R162Q|KIAA1328_uc010dnc.1_RNA|KIAA1328_uc002lad.2_Missense_Mutation_p.R55Q	NM_020776	NP_065827	Q86T90	K1328_HUMAN	hypothetical protein LOC57536	339										central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)		AGTTATTGTCGGCTTTCTTGG	0.463													14	27					0	0	1	0	0		A	34647292	A	A	34647292	3	1	70	1	0	0	0	0	1	0	0	0	8241	1116	39	1	1042	1	KIAA1328	18	34647292	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	306650	34647292	43429956	851	46867											
ME2	4200	broad.mit.edu	37	chr18	48442541	48442541	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgttctgttgcaggggAttatttatttcgatctcaga	7	20	9	5	1	2	1	1	0	2	1	4	3	2	2	0	2	1	3	0	2	2	8			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:48442541A>G	uc002ley.2	+	5	652	c.396A>G	c.(394-396)GGA>GGG	p.G132G	ME2_uc010dpd.2_Silent_p.G132G	NM_002396	NP_002387	P23368	MAOM_HUMAN	malic enzyme 2, NAD(+)-dependent, mitochondrial	132					malate metabolic process	mitochondrial matrix	electron carrier activity|malate dehydrogenase (decarboxylating) activity|malate dehydrogenase (oxaloacetate-decarboxylating) activity|metal ion binding|NAD binding				0		Colorectal(6;0.0273)|all_epithelial(6;0.118)		Colorectal(21;0.0313)|READ - Rectum adenocarcinoma(32;0.105)|STAD - Stomach adenocarcinoma(97;0.184)	NADH(DB00157)	GTTGCAGGGGATTATTTATTT	0.318													29	69					0	0	1	0	0		G	48442541	G	G	48442541	2	3	70	1	0	0	0	0	0	0	0	1	9436	320	12	3		3	ME2	18	48442541	Silent	SNP	A	TCGA-BR-8368-01A-11D-2340-08	13795249	48442541	29634707	852	46868											
TNFRSF11A	8792	broad.mit.edu	37	chr18	60021739	60021739	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccgccgcaacaccgagtgCgcgccgggcctgggcgccca	5	3	15	18	7	0	0	0	0	0	0	0	1	0	0	6	2	3	1	6	2	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:60021739C>T	uc002lin.2	+	4	437	c.399C>T	c.(397-399)TGC>TGT	p.C133C	TNFRSF11A_uc010dpv.2_Silent_p.C133C	NM_003839	NP_003830	Q9Y6Q6	TNR11_HUMAN	tumor necrosis factor receptor superfamily,	133	Extracellular (Potential).|TNFR-Cys 3.	Sodium; via carbonyl oxygen (By similarity).			adaptive immune response|cell-cell signaling|circadian temperature homeostasis|monocyte chemotaxis|osteoclast differentiation|positive regulation of cell proliferation|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|response to interleukin-1|response to lipopolysaccharide	external side of plasma membrane|integral to membrane	metal ion binding|tumor necrosis factor receptor activity			breast(2)|lung(1)	3		Colorectal(73;0.188)				ACACCGAGTGCGCGCCGGGCC	0.677									Paget_Disease_of_Bone				15	26					0	0	1	0	0		T	60021739	T	T	60021739	2	4	70	1	0	0	0	0	0	0	0	1	16309	776	27	1		1	TNFRSF11A	18	60021739	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	11579198	60021739	18055509	853	46869											
NETO1	81832	broad.mit.edu	37	chr18	70526122	70526122	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctctccatcagcaaaaaaTttaatccatagaaatcttcc	16	11	3	11	0	3	1	1	0	2	1	6	1	5	1	3	0	2	2	3	0	6	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:70526122T>A	uc002lkw.2	-	4	692	c.408A>T	c.(406-408)AAA>AAT	p.K136N	NETO1_uc002lkx.1_Missense_Mutation_p.K135N|NETO1_uc002lky.1_Missense_Mutation_p.K136N|NETO1_uc002lkz.2_Missense_Mutation_p.K135N	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	136	CUB 1.|Extracellular (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		CAGCAAAAAATTTAATCCATA	0.353													35	43					0	0	1	0	0		A	70526122	A	A	70526122	3	1	70	1	0	0	0	0	1	0	0	0	10358	1490	52	5	1230	5	NETO1	18	70526122	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	10504383	70526122	7551126	854	46870											
ZADH2	284273	broad.mit.edu	37	chr18	72913820	72913820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcttaaggacggtacctaCgggttcagttttatagttga	9	14	11	7	2	1	1	1	1	0	0	1	2	1	2	1	3	3	5	1	3	5	8			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:72913820C>T	uc002llx.2	-	2	953	c.685G>A	c.(685-687)GTA>ATA	p.V229I	ZADH2_uc010dqv.2_Missense_Mutation_p.V106I	NM_175907	NP_787103	Q8N4Q0	ZADH2_HUMAN	zinc binding alcohol dehydrogenase domain	229						peroxisome	oxidoreductase activity|zinc ion binding				0		Esophageal squamous(42;0.131)|Prostate(75;0.155)		READ - Rectum adenocarcinoma(2;0.0276)|BRCA - Breast invasive adenocarcinoma(31;0.216)		ACGGTACCTACGGGTTCAGTT	0.478													61	91					0	0	1	0	0		T	72913820	T	T	72913820	3	4	70	1	0	0	0	0	1	0	0	0	17537	536	19	1	452	1	ZADH2	18	72913820	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2387698	72913820	5163428	855	46871											
ZNF236	7776	broad.mit.edu	37	chr18	74639294	74639294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctattggctcagcagctcaCgggggagcctggcctggccc	5	7	14	15	1	2	0	2	0	0	0	2	1	2	1	4	5	3	3	4	5	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr18:74639294C>T	uc002lmi.2	+	24	4427	c.4229C>T	c.(4228-4230)ACG>ATG	p.T1410M	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1410					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CAGCAGCTCACGGGGGAGCCT	0.552													27	54					0	0	1	0	0		T	74639294	T	T	74639294	3	4	70	1	0	0	0	0	1	0	0	0	17814	536	19	1	4323	1	ZNF236	18	74639294	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1725474	74639294	3437954	856	46872											
BSG	682	broad.mit.edu	37	chr19	577814	577814	+	Frame_Shift_Del	DEL	G	-	-																															ctgtcccagcagaggtgggtGgggggcagtgtggagctgca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:577814delG	uc002loz.2	+	2	206	c.108delG	c.(106-108)GTGfs	p.V36fs	BSG_uc002loy.2_Intron|BSG_uc002lpa.2_Intron|BSG_uc002lpb.2_Intron|BSG_uc010drr.2_Intron|BSG_uc002lpc.2_5'Flank	NM_001728	NP_001719	P35613	BASI_HUMAN	basigin isoform 1 precursor	36					blood coagulation|cell surface receptor linked signaling pathway|leukocyte migration|pyruvate metabolic process	Golgi membrane|integral to membrane|melanosome	lactate transmembrane transporter activity|mannose binding|protein binding				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGAGGTGGGTGGGGGGCAGTG	0.692													3	4	---	---	---	---						.	-	577814	-	-	577814	7	5	70	1	0	1	0	1	0	0	0	0	1532	1335	47	0	150	0	BSG	19	577814	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08		577814	58551169	857	46873											
C19orf21	126353	broad.mit.edu	37	chr19	758107	758107	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcggagggtccccagccCggactccggagagccctcag	6	5	14	16	3	2	1	1	0	1	1	5	4	4	3	5	4	2	0	5	4	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:758107C>T	uc002lpo.2	+	2	1244	c.1161C>T	c.(1159-1161)CCC>CCT	p.P387P		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	387										upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTCCCCAGCCCGGACTCCGGA	0.677													7	15					0	0	1	0	0		T	758107	T	T	758107	2	4	70	1	0	0	0	0	0	0	0	1	1916	639	23	1		1	C19orf21	19	758107	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	180293	758107	58370876	858	46874											
SBNO2	22904	broad.mit.edu	37	chr19	1119081	1119081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcgatgcggaaggtgaCgccggagaagctgagctggc	8	6	16	11	4	0	3	0	2	0	1	2	6	1	4	2	4	3	2	2	4	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:1119081C>T	uc002lrk.3	-	14	1694	c.1456G>A	c.(1456-1458)GTC>ATC	p.V486I	SBNO2_uc002lrj.3_Missense_Mutation_p.V429I|SBNO2_uc010dse.2_Missense_Mutation_p.V479I|SBNO2_uc010xgj.1_Intron|SBNO2_uc010dsf.2_Missense_Mutation_p.V429I	NM_014963	NP_055778	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 isoform 1	486					macrophage activation involved in immune response|negative regulation of transcription, DNA-dependent|regulation of inflammatory response|transcription, DNA-dependent						0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGAAGGTGACGCCGGAGAAG	0.677													6	6					0	0	1	0	0		T	1119081	T	T	1119081	3	4	70	1	0	0	0	0	1	0	0	0	13888	536	19	1	2720	1	SBNO2	19	1119081	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	360974	1119081	58009902	859	46875											
DAZAP1	26528	broad.mit.edu	37	chr19	1432590	1432590	+	Frame_Shift_Del	DEL	G	-	-																															ctcctccaccagccactcccGgggcagcacctctggctttc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:1432590delG	uc002lsn.2	+	11	1138	c.949delG	c.(949-951)GGGfs	p.G317fs	DAZAP1_uc002lsm.2_Frame_Shift_Del_p.G317fs|DAZAP1_uc002lso.2_Frame_Shift_Del_p.G316fs|DAZAP1_uc002lsl.1_Frame_Shift_Del_p.G317fs	NM_018959	NP_061832	Q96EP5	DAZP1_HUMAN	DAZ associated protein 1 isoform b	317	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleotide binding|RNA binding			breast(1)	1		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCCACTCCCGGGGCAGCACC	0.647													48	86	---	---	---	---						.	-	1432590	-	-	1432590	7	5	70	1	0	1	0	1	0	0	0	0	4247	1116	39	0	991	0	DAZAP1	19	1432590	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	313509	1432590	57696393	860	46876											
PCSK4	54760	broad.mit.edu	37	chr19	1487181	1487181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcgcgggtgaggatgcCggggccgtccaccgtgcggc	3	5	19	14	6	0	1	0	1	0	0	2	2	1	2	5	6	2	0	5	6	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:1487181C>T	uc002ltb.1	-	7	876	c.814G>A	c.(814-816)GGC>AGC	p.G272S	PCSK4_uc002lta.2_Missense_Mutation_p.G84S	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	272	Catalytic (By similarity).				proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTGAGGATGCCGGGGCCGTCC	0.721													10	18					0	0	1	0	0		T	1487181	T	T	1487181	3	4	70	1	0	0	0	0	1	0	0	0	11621	652	23	1	1489	1	PCSK4	19	1487181	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	54591	1487181	57641802	861	46877											
REXO1	57455	broad.mit.edu	37	chr19	1817235	1817235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatctcgcagtccagggCgtagatccccgggtgggtgt	6	8	14	13	3	1	1	0	0	1	1	4	1	3	1	4	3	0	2	4	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:1817235C>T	uc002lua.3	-	12	3279	c.3184G>A	c.(3184-3186)GCC>ACC	p.A1062T	REXO1_uc010dsq.2_Missense_Mutation_p.A371T|REXO1_uc010xgs.1_Missense_Mutation_p.A48T|MIR1909_hsa-mir-1909|MI0008330_5'Flank|REXO1_uc010dsp.1_RNA	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3	1062	Exonuclease.					nucleus	exonuclease activity|nucleic acid binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGTCCAGGGCGTAGATCCCC	0.647													5	25					0	0	1	0	0		T	1817235	T	T	1817235	3	4	70	1	0	0	0	0	1	0	0	0	13266	768	27	1	501	1	REXO1	19	1817235	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	330054	1817235	57311748	862	46878											
AP3D1	8943	broad.mit.edu	37	chr19	2110223	2110223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgggcttcgttggagacgCctggcgggggcgagagggag	6	6	21	8	4	0	2	0	0	0	2	1	5	0	3	1	6	0	2	1	6	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:2110223C>T	uc002luz.2	-	26	3213	c.2990G>A	c.(2989-2991)GGC>GAC	p.G997D	AP3D1_uc010dsv.2_Missense_Mutation_p.G87D|AP3D1_uc002luy.2_Missense_Mutation_p.G956D|AP3D1_uc002lva.2_Missense_Mutation_p.G1059D	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	997					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTTGGAGACGCCTGGCGGGGG	0.627													13	26					0	0	1	0	0		T	2110223	T	T	2110223	3	4	70	1	0	0	0	0	1	0	0	0	746	753	26	2	491	2	AP3D1	19	2110223	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	292988	2110223	57018760	863	46879											
ZNF77	58492	broad.mit.edu	37	chr19	2933664	2933666	+	In_Frame_Del	DEL	ACT	-	-																															cattcgtagggtttgaccccActgtgtgatctcacatgctt																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:2933664_2933666delACT	uc002lws.3	-	4	1590_1592	c.1459_1461delAGT	c.(1459-1461)AGTdel	p.S487del		NM_021217	NP_067040	Q15935	ZNF77_HUMAN	zinc finger protein 77	487					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|GBM - Glioblastoma multiforme(1328;2.11e-07)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.174)|STAD - Stomach adenocarcinoma(1328;0.18)		GTTTGACCCCACTGTGTGATCTC	0.507													27	62	---	---	---	---						.	-	2933666	-	-	2933664	7	5	70	1	0	1	0	1	0	0	0	0	18167	156	6	0	180	0	ZNF77	19	2933664	In_Frame_Del	DEL	ACT	TCGA-BR-8368-01A-11D-2340-08	823441	2933664	56195319	864	46880											
DOHH	83475	broad.mit.edu	37	chr19	3496787	3496787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaccagcgtctgcccgatgGcatccacctcctgctccgtc	5	8	8	20	3	1	0	0	0	1	0	5	1	4	0	7	1	3	2	7	1	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:3496787G>A	uc002lxs.2	-	2	189	c.26C>T	c.(25-27)GCC>GTC	p.A9V	DOHH_uc010xhl.1_Missense_Mutation_p.A9V	NM_031304	NP_112594	Q9BU89	DOHH_HUMAN	deoxyhypusine hydroxylase/monooxygenase	9					peptidyl-lysine modification to hypusine|post-translational protein modification	cytosol	deoxyhypusine monooxygenase activity|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGCCCGATGGCATCCACCTC	0.672													14	26					0	0	1	0	0		A	3496787	A	A	3496787	3	1	70	1	0	0	0	0	1	0	0	0	4701	1203	42	2	898	2	DOHH	19	3496787	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	563123	3496787	55632196	865	46881											
C19orf29	58509	broad.mit.edu	37	chr19	3613180	3613180	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctgtacctgccggcgtcGtagtcgtccaggctctgctg	3	10	15	13	4	1	0	0	0	1	0	4	0	2	0	3	3	3	5	3	3	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:3613180G>A	uc002lyh.2	-	9	1715	c.1662C>T	c.(1660-1662)TAC>TAT	p.Y554Y	C19orf29_uc010xho.1_Silent_p.Y13Y|C19orf29_uc010dtn.2_Silent_p.Y402Y|C19orf29_uc002lyi.3_Silent_p.Y554Y|C19orf29_uc010dto.2_RNA|C19orf29_uc010xhp.1_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	554						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		TGCCGGCGTCGTAGTCGTCCA	0.711													12	13					0	0	1	0	0		A	3613180	A	A	3613180	2	1	70	1	0	0	0	0	0	0	0	1	1921	1140	40	1		1	C19orf29	19	3613180	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	116393	3613180	55515803	866	46882											
CHAF1A	10036	broad.mit.edu	37	chr19	4430584	4430584	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaggatgaagatgaggaCgatggtttctttgtgcccca	10	10	15	6	1	1	4	0	2	1	2	1	8	1	6	2	4	1	1	2	4	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:4430584C>T	uc002mal.2	+	11	1993	c.1893C>T	c.(1891-1893)GAC>GAT	p.D631D		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	631					cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGATGAGGACGATGGTTTCT	0.463								Chromatin_Structure					23	40					0	0	1	0	0		T	4430584	T	T	4430584	2	4	70	1	0	0	0	0	0	0	0	1	3314	535	19	1		1	CHAF1A	19	4430584	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	817404	4430584	54698399	867	46883											
SEMA6B	10501	broad.mit.edu	37	chr19	4558377	4558377	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccacgctaagcggcggCggctcctcaggaaagaggcc	8	3	17	13	4	1	1	1	0	0	1	2	2	2	2	3	7	1	2	3	7	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:4558377C>T	uc010duc.1	-	1	131	c.93G>A	c.(91-93)CCG>CCA	p.P31P	SEMA6B_uc010dud.2_Silent_p.P31P|SEMA6B_uc010xih.1_Silent_p.P31P	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	31	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		TAAGCGGCGGCGGCTCCTCAG	0.706											OREG0025169	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	1					0	0	1	0	0		T	4558377	T	T	4558377	2	4	70	1	0	0	0	0	0	0	0	1	14065	755	27	1		1	SEMA6B	19	4558377	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	127793	4558377	54570606	868	46884											
ARRDC5	645432	broad.mit.edu	37	chr19	4902691	4902691	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttcttcactccattcgacGtaaccccttcccacgagctc	7	11	5	18	3	2	0	1	0	1	0	6	2	4	0	4	0	2	3	4	0	1	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:4902691G>A	uc002mbm.2	-	1	189	c.189C>T	c.(187-189)TAC>TAT	p.Y63Y		NM_001080523	NP_001073992	A6NEK1	ARRD5_HUMAN	arrestin domain containing 5	63					signal transduction						0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0257)		TCCATTCGACGTAACCCCTTC	0.507													55	82					0	0	1	0	0		A	4902691	A	A	4902691	2	1	70	1	0	0	0	0	0	0	0	1	987	1140	40	1		1	ARRDC5	19	4902691	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	344314	4902691	54226292	869	46885											
GTF2F1	2962	broad.mit.edu	37	chr19	6380351	6380351	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgcgctcggggttgagtcGcttgaggatctgggccaaca	6	10	15	10	3	1	2	0	2	1	0	3	3	1	3	1	4	2	3	1	4	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:6380351G>A	uc002meq.2	-	13	1780	c.1495C>T	c.(1495-1497)CGA>TGA	p.R499*	GTF2F1_uc010xjb.1_Nonsense_Mutation_p.R320*|GTF2F1_uc010xjc.1_Nonsense_Mutation_p.R414*	NM_002096	NP_002087	P35269	T2FA_HUMAN	general transcription factor IIF, polypeptide 1,	499					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|response to virus|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cell junction|transcription factor TFIIF complex	catalytic activity|DNA binding|phosphatase activator activity|transcription coactivator activity|transcription factor binding				0						GGGTTGAGTCGCTTGAGGATC	0.537													77	141					0	0	1	0	0		A	6380351	A	A	6380351	4	1	70	1	0	0	0	0	0	1	0	0	6874	1095	38	1	62	1	GTF2F1	19	6380351	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1477660	6380351	52748632	870	46886											
STXBP2	6813	broad.mit.edu	37	chr19	7704641	7704641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaagacatcaacaaacggcGggaacccattcccagtctgg	13	6	10	12	2	2	2	1	1	1	1	3	3	3	3	2	3	3	0	2	3	4	1	rs141717050		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:7704641G>A	uc002mha.3	+	4	239	c.194G>A	c.(193-195)CGG>CAG	p.R65Q	STXBP2_uc002mhb.3_Missense_Mutation_p.R65Q|STXBP2_uc010dvj.2_RNA|STXBP2_uc010xjr.1_Missense_Mutation_p.R65Q|STXBP2_uc010dvk.2_Missense_Mutation_p.R33Q|STXBP2_uc002mhc.3_5'UTR|STXBP2_uc010dvl.1_5'Flank	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a	65					leukocyte mediated cytotoxicity|neutrophil degranulation|protein transport|regulation of mast cell degranulation|vesicle docking involved in exocytosis	azurophil granule|cytolytic granule|cytosol|specific granule|tertiary granule	syntaxin-3 binding			central_nervous_system(1)	1						AACAAACGGCGGGAACCCATT	0.493													15	19					0	0	1	0	0		A	7704641	A	A	7704641	3	1	70	1	0	0	0	0	1	0	0	0	15378	1116	39	1	208	1	STXBP2	19	7704641	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1324290	7704641	51424342	871	46887											
MAP2K7	5609	broad.mit.edu	37	chr19	7975374	7975374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaacaaggaggagaacaagCgcatcctcatggacctggat	14	5	13	9	1	1	1	1	0	0	1	2	6	2	5	2	5	3	1	2	5	4	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:7975374C>T	uc002mit.2	+	5	549	c.484C>T	c.(484-486)CGC>TGC	p.R162C	MAP2K7_uc002miv.2_Missense_Mutation_p.R162C|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.R162C|MAP2K7_uc010dvv.2_Missense_Mutation_p.R37C	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	162	Protein kinase.		R -> H (in a colorectal adenocarcinoma sample; somatic mutation).|R -> C (in a colorectal adenocarcinoma sample; somatic mutation).		activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.R162H(1)|p.R162C(1)		large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	GGAGAACAAGCGCATCCTCAT	0.637													7	17					0	0	1	0	0		T	7975374	T	T	7975374	3	4	70	1	0	0	0	0	1	0	0	0	9260	768	27	1	502	1	MAP2K7	19	7975374	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	270733	7975374	51153609	872	46888											
MAP2K7	5609	broad.mit.edu	37	chr19	7976016	7976016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggactccaaagccaagacgcGgagcgccggctgtgccgcct	8	4	14	15	5	0	1	0	0	0	1	1	3	1	3	5	3	3	1	5	3	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:7976016G>A	uc002mit.2	+	7	892	c.827G>A	c.(826-828)CGG>CAG	p.R276Q	MAP2K7_uc002miv.2_Missense_Mutation_p.R276Q|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.R276Q|MAP2K7_uc010dvv.2_Missense_Mutation_p.R151Q	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	276	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	GCCAAGACGCGGAGCGCCGGC	0.692													13	11					0	0	1	0	0		A	7976016	A	A	7976016	3	1	70	1	0	0	0	0	1	0	0	0	9260	1116	39	1	853	1	MAP2K7	19	7976016	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	642	7976016	51152967	873	46889											
ELAVL1	1994	broad.mit.edu	37	chr19	8028518	8028518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgttggtgttgaagtcgCggatcactttcacattggtg	7	15	12	7	2	2	1	2	1	0	0	3	2	2	2	0	3	0	2	0	3	1	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:8028518C>T	uc002mjb.2	-	6	997	c.830G>A	c.(829-831)CGC>CAC	p.R277H		NM_001419	NP_001410	Q15717	ELAV1_HUMAN	ELAV-like 1	277	RRM 3.				3'-UTR-mediated mRNA stabilization|multicellular organismal development	cytoplasm|nucleoplasm	identical protein binding|mRNA binding|nucleotide binding				0						GTTGAAGTCGCGGATCACTTT	0.542													48	84					0	0	1	0	0		T	8028518	T	T	8028518	3	4	70	1	0	0	0	0	1	0	0	0	5057	768	27	1	154	1	ELAVL1	19	8028518	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	52502	8028518	51100465	874	46890											
MARCH2	51257	broad.mit.edu	37	chr19	8495651	8495651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggctggttgtgcctgcGcggggcccaggaccacctcc	4	7	14	16	2	1	0	1	0	0	0	2	1	2	1	5	5	2	2	5	5	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:8495651G>A	uc002mjv.2	+	5	923	c.482G>A	c.(481-483)CGC>CAC	p.R161H	MARCH2_uc002mjw.2_Missense_Mutation_p.R161H|MARCH2_uc002mjx.2_Intron	NM_016496	NP_057580	Q9P0N8	MARH2_HUMAN	membrane-associated ring finger (C3HC4) 2	161					endocytosis	cytoplasmic vesicle|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TTGTGCCTGCGCGGGGCCCAG	0.657													19	30					0	0	1	0	0		A	8495651	A	A	8495651	3	1	70	1	0	0	0	0	1	0	0	0	9319	1087	38	1	492	1	MARCH2	19	8495651	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	467133	8495651	50633332	875	46891											
MUC16	94025	broad.mit.edu	37	chr19	9084370	9084370	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattttctccggaggcagtgTcagtgctgaccatggtgctg	6	12	14	9	1	2	1	1	1	1	0	3	3	2	2	2	3	2	3	2	3	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:9084370T>G	uc002mkp.2	-	1	7649	c.7445A>C	c.(7444-7446)GAC>GCC	p.D2482A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2482	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGAGGCAGTGTCAGTGCTGAC	0.502											OREG0006611	type=TRANSCRIPTION FACTOR BINDING SITE|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	21	41					0	0	1	0	0		G	9084370	G	G	9084370	3	3	70	1	0	0	0	0	1	0	0	0	9991	1667	58	5	36414	5	MUC16	19	9084370	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	588719	9084370	50044613	876	46892											
OR7D2	162998	broad.mit.edu	37	chr19	9296544	9296544	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctacagccgttcatatttggGctgttcctgtccatgtacct	6	15	8	12	1	1	0	1	0	0	0	3	0	3	0	4	1	3	4	4	1	3	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:9296544G>C	uc002mkz.1	+	1	275	c.87G>C	c.(85-87)GGG>GGC	p.G29G		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	29	Helical; Name=1; (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						TCATATTTGGGCTGTTCCTGT	0.502													26	44					0	0	1	0	0		C	9296544	C	C	9296544	2	2	70	1	0	0	0	0	0	0	0	1	11238	1190	42	5		5	OR7D2	19	9296544	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	212174	9296544	49832439	877	46893											
ZNF562	54811	broad.mit.edu	37	chr19	9764018	9764018	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgaggaatttctaaaGgatcttccacattctttaca	14	13	7	7	0	3	1	0	1	3	0	4	4	4	4	1	3	1	0	1	3	5	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:9764018G>T	uc010xks.1	-	6	1051	c.888C>A	c.(886-888)TCC>TCA	p.S296S	ZNF562_uc002mly.2_Silent_p.S296S|ZNF562_uc002mlx.2_Silent_p.S224S|ZNF562_uc010xkt.1_Silent_p.S259S|ZNF562_uc010xku.1_Silent_p.S227S|ZNF562_uc010xkv.1_Silent_p.S295S|ZNF562_uc010xkw.1_Silent_p.S180S	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	296	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AATTTCTAAAGGATCTTCCAC	0.363													8	112					2.74318e-10	2.87587e-10	1	1	0		T	9764018	T	T	9764018	2	4	70	1	0	0	0	0	0	0	0	1	18018	987	35	5		5	ZNF562	19	9764018	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	467474	9764018	49364965	878	46894											
SMARCA4	6597	broad.mit.edu	37	chr19	11132542	11132542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctgcagaacaagcttcccGagctctgggcgctgctcaac	8	7	11	15	3	2	1	1	0	1	1	3	2	3	1	1	1	6	6	1	1	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:11132542G>A	uc002mqf.3	+	19	3042	c.2758G>A	c.(2758-2760)GAG>AAG	p.E920K	SMARCA4_uc010dxp.2_Missense_Mutation_p.E920K|SMARCA4_uc010dxo.2_Missense_Mutation_p.E920K|SMARCA4_uc002mqg.1_Missense_Mutation_p.E920K|SMARCA4_uc010dxq.2_Missense_Mutation_p.E920K|SMARCA4_uc010dxr.2_Missense_Mutation_p.E920K|SMARCA4_uc002mqj.3_Missense_Mutation_p.E920K|SMARCA4_uc010dxs.2_Missense_Mutation_p.E920K|SMARCA4_uc010dxt.1_Missense_Mutation_p.E140K|SMARCA4_uc002mqh.3_Missense_Mutation_p.E43K|SMARCA4_uc002mqi.1_Missense_Mutation_p.E123K	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	920	Helicase ATP-binding.				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				CAAGCTTCCCGAGCTCTGGGC	0.602			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				6	19					0	0	1	0	0		A	11132542	A	A	11132542	3	1	70	1	0	0	0	0	1	0	0	0	14795	1059	37	1	2828	1	SMARCA4	19	11132542	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1368524	11132542	47996441	879	46895											
SMARCA4	6597	broad.mit.edu	37	chr19	11135079	11135079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacatgcaggccaagggcGtgctgctgactgatggctcc	7	7	14	13	1	0	2	0	2	0	0	1	2	1	2	3	3	3	4	3	3	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:11135079G>A	uc002mqf.3	+	21	3330	c.3046G>A	c.(3046-3048)GTG>ATG	p.V1016M	SMARCA4_uc010dxp.2_Missense_Mutation_p.V1016M|SMARCA4_uc010dxo.2_Missense_Mutation_p.V1016M|SMARCA4_uc002mqg.1_Missense_Mutation_p.V1016M|SMARCA4_uc010dxq.2_Missense_Mutation_p.V1016M|SMARCA4_uc010dxr.2_Missense_Mutation_p.V1016M|SMARCA4_uc002mqj.3_Missense_Mutation_p.V1016M|SMARCA4_uc010dxs.2_Missense_Mutation_p.V1016M|SMARCA4_uc010dxt.1_Missense_Mutation_p.V236M|SMARCA4_uc002mqh.3_Missense_Mutation_p.V139M|SMARCA4_uc002mqi.1_Missense_Mutation_p.V219M	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	1016					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GGCCAAGGGCGTGCTGCTGAC	0.622			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				10	27					0	0	1	0	0		A	11135079	A	A	11135079	3	1	70	1	0	0	0	0	1	0	0	0	14795	1145	40	1	3124	1	SMARCA4	19	11135079	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2537	11135079	47993904	880	46896											
CNN1	1264	broad.mit.edu	37	chr19	11660378	11660378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgcaggctggcatgactgCgccagggaccaagcggcaga	9	5	15	12	3	0	2	0	1	0	1	1	3	0	3	2	4	2	4	2	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:11660378C>T	uc002msc.1	+	7	826	c.662C>T	c.(661-663)GCG>GTG	p.A221V	CNN1_uc010xmb.1_Missense_Mutation_p.A171V|CNN1_uc010xmc.1_Missense_Mutation_p.A171V	NM_001299	NP_001290	P51911	CNN1_HUMAN	calponin 1, basic, smooth muscle	221	Calponin-like 2.				actomyosin structure organization|regulation of smooth muscle contraction	cytoskeleton	actin binding|calmodulin binding				0						GGCATGACTGCGCCAGGGACC	0.692													4	20					0	0	1	0	0		T	11660378	T	T	11660378	3	4	70	1	0	0	0	0	1	0	0	0	3612	768	27	1	688	1	CNN1	19	11660378	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	525299	11660378	47468605	881	46897											
ZNF441	126068	broad.mit.edu	37	chr19	11891075	11891075	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatatacacatacacaaTgtgggacagctttcagttat	14	11	7	9	0	1	0	1	0	0	0	1	1	1	1	1	1	4	2	1	1	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:11891075T>C	uc010dyj.2	+	4	630	c.436T>C	c.(436-438)TGT>CGT	p.C146R	ZNF441_uc002msn.3_Missense_Mutation_p.C102R	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	146					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ACATACACAATGTGGGACAGC	0.403													16	67					0	0	1	0	0		C	11891075	C	C	11891075	3	2	70	1	0	0	0	0	1	0	0	0	17939	1464	51	3	450	3	ZNF441	19	11891075	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	230697	11891075	47237908	882	46898											
HOOK2	29911	broad.mit.edu	37	chr19	12875651	12875651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgggccttgtccacgtagcGgcggtatcgctcctccatgg	4	9	14	14	5	0	0	0	0	0	0	4	0	3	0	4	4	1	3	4	4	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:12875651G>A	uc002muy.2	-	20	1975	c.1804C>T	c.(1804-1806)CGC>TGC	p.R602C	HOOK2_uc010xmq.1_Missense_Mutation_p.R7C|HOOK2_uc002muz.2_Missense_Mutation_p.R600C	NM_013312	NP_037444	Q96ED9	HOOK2_HUMAN	hook homolog 2 isoform 1	602	Sufficient for interaction with CEP110.|Required for localization to the centrosome and induction of aggresome formation.|Potential.				early endosome to late endosome transport|endocytosis|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|protein transport	centrosome|FHF complex|microtubule	identical protein binding|microtubule binding			ovary(1)|breast(1)|skin(1)	3						TCCACGTAGCGGCGGTATCGC	0.607											OREG0025273	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	60					0	0	1	0	0		A	12875651	A	A	12875651	3	1	70	1	0	0	0	0	1	0	0	0	7299	1116	39	1	371	1	HOOK2	19	12875651	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	984576	12875651	46253332	883	46899											
MAST1	22983	broad.mit.edu	37	chr19	12985336	12985336	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcctcagcctctgggcgcGgactccaaggggttgcagga	6	7	16	12	2	2	0	1	0	1	0	3	2	3	2	3	5	3	2	3	5	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:12985336G>A	uc002mvm.2	+	26	4493	c.4365G>A	c.(4363-4365)GCG>GCA	p.A1455A		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1455					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						CTCTGGGCGCGGACTCCAAGG	0.731													3	12					0	0	1	0	0		A	12985336	A	A	12985336	2	1	70	1	0	0	0	0	0	0	0	1	9342	1103	39	1		1	MAST1	19	12985336	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	109685	12985336	46143647	884	46900											
ZSWIM4	65249	broad.mit.edu	37	chr19	13941853	13941853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatgcttttggtgcgggagCgttttggttgagggacagtg	5	14	17	5	2	1	1	1	1	0	0	1	3	1	3	0	4	3	3	0	4	0	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:13941853C>T	uc002mxh.1	+	13	3148	c.2959C>T	c.(2959-2961)CGT>TGT	p.R987C	ZSWIM4_uc010xng.1_Missense_Mutation_p.R910C	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	987							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			GGTGCGGGAGCGTTTTGGTTG	0.597													30	27					0	0	1	0	0		T	13941853	T	T	13941853	3	4	70	1	0	0	0	0	1	0	0	0	18268	768	27	1	3009	1	ZSWIM4	19	13941853	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	956517	13941853	45187130	885	46901											
ILVBL	10994	broad.mit.edu	37	chr19	15233799	15233799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaaacttacagagtggccGgaaaagggacagctgatcaa	17	5	11	8	1	1	2	1	1	0	1	1	4	1	4	1	3	3	1	1	3	6	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:15233799G>A	uc002nam.2	-	5	629	c.508C>T	c.(508-510)CGG>TGG	p.R170W	ILVBL_uc010dzw.2_Missense_Mutation_p.R63W|ILVBL_uc010dzx.1_Missense_Mutation_p.R170W	NM_006844	NP_006835	A1L0T0	ILVBL_HUMAN	ilvB (bacterial acetolactate synthase)-like	170						integral to membrane	magnesium ion binding|thiamine pyrophosphate binding|transferase activity			ovary(2)	2						CAGAGTGGCCGGAAAAGGGAC	0.632													27	55					0	0	1	0	0		A	15233799	A	A	15233799	3	1	70	1	0	0	0	0	1	0	0	0	7731	1115	39	1	1438	1	ILVBL	19	15233799	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1291946	15233799	43895184	886	46902											
CYP4F8	11283	broad.mit.edu	37	chr19	15739191	15739191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccccaatccctacattcGcccgcggctgcacccaggac	8	6	7	20	3	0	0	0	0	0	0	3	1	2	1	5	2	2	2	5	2	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:15739191G>A	uc002nbi.2	+	12	1259	c.1195G>A	c.(1195-1197)GCC>ACC	p.A399T	CYP4F8_uc010xoj.1_Missense_Mutation_p.A211T	NM_007253	NP_009184	P98187	CP4F8_HUMAN	cytochrome P450, family 4, subfamily F,	399					prostaglandin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	alkane 1-monooxygenase activity|aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			large_intestine(1)	1						CCCTACATTCGCCCGCGGCTG	0.637													35	67					0	0	1	0	0		A	15739191	A	A	15739191	3	1	70	1	0	0	0	0	1	0	0	0	4194	1087	38	1	1228	1	CYP4F8	19	15739191	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	505392	15739191	43389792	887	46903											
USHBP1	83878	broad.mit.edu	37	chr19	17366391	17366391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgccgcaccagctgcagccGaagcatcaggtccgccaggg	9	3	13	16	4	1	0	1	0	0	0	2	1	2	0	5	2	4	4	5	2	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:17366391G>A	uc002nfs.1	-	10	1608	c.1495C>T	c.(1495-1497)CGG>TGG	p.R499W	USHBP1_uc002nfr.1_Missense_Mutation_p.R125W|USHBP1_uc002nft.1_RNA|USHBP1_uc010xpk.1_Missense_Mutation_p.R435W	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	499	Potential.						PDZ domain binding			ovary(1)	1						AGCTGCAGCCGAAGCATCAGG	0.652													14	23					0	0	1	0	0		A	17366391	A	A	17366391	3	1	70	1	0	0	0	0	1	0	0	0	17063	1057	37	1	632	1	USHBP1	19	17366391	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1627200	17366391	41762592	888	46904											
USHBP1	83878	broad.mit.edu	37	chr19	17373521	17373521	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccctgccccttcctgcttcCcaagggaacctgctccccct	4	10	6	21	0	0	0	0	0	0	0	4	1	4	1	8	1	4	2	8	1	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:17373521C>A	uc002nfs.1	-	4	595	c.482G>T	c.(481-483)GGG>GTG	p.G161V	USHBP1_uc002nft.1_RNA|USHBP1_uc010xpk.1_Missense_Mutation_p.G97V|USHBP1_uc010eam.1_Missense_Mutation_p.G89V	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	161							PDZ domain binding			ovary(1)	1						TTCCTGCTTCCCAAGGGAACC	0.682													31	60					1.836e-18	1.98007e-18	1	1	0		A	17373521	A	A	17373521	3	1	70	1	0	0	0	0	1	0	0	0	17063	623	22	5	1669	5	USHBP1	19	17373521	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	7130	17373521	41755462	889	46905											
ABHD8	79575	broad.mit.edu	37	chr19	17412206	17412206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgacagcggaccaagcCggagaggtccccctgggctg	7	4	16	14	3	0	2	0	1	0	1	1	4	1	3	4	4	2	2	4	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:17412206C>T	uc002ngb.3	-	2	460	c.220G>A	c.(220-222)GGC>AGC	p.G74S		NM_024527	NP_078803	Q96I13	ABHD8_HUMAN	abhydrolase domain containing 8	74							hydrolase activity				0						CGGACCAAGCCGGAGAGGTCC	0.697													11	24					0	0	1	0	0		T	17412206	T	T	17412206	3	4	70	1	0	0	0	0	1	0	0	0	87	652	23	1	1115	1	ABHD8	19	17412206	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	38685	17412206	41716777	890	46906											
MAP1S	55201	broad.mit.edu	37	chr19	17838362	17838362	+	Frame_Shift_Del	DEL	C	-	-																															ctgagcctcccgctgcgtggCccccgggcgcggcgctcggc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:17838362delC	uc002nhe.1	+	5	2178	c.2169delC	c.(2167-2169)GGCfs	p.G723fs	MAP1S_uc010eba.1_Intron|MAP1S_uc002nhf.1_5'UTR|MAP1S_uc010xpv.1_Frame_Shift_Del_p.G697fs	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	723	Pro-rich.|Necessary for the microtubule-organizing center localization.|Necessary for association with microtubules.|Necessary for interaction with RASSF1 isoform A and isoform C.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						CGCTGCGTGGCCCCCGGGCGC	0.682													10	14	---	---	---	---						.	-	17838362	-	-	17838362	7	5	70	1	0	1	0	1	0	0	0	0	9252	726	26	0	2187	0	MAP1S	19	17838362	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	426156	17838362	41290621	891	46907											
B3GNT3	10331	broad.mit.edu	37	chr19	17918981	17918981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccctagcaactatgtgcGccgcgagctgctgcggcgca	6	7	12	16	5	0	0	0	0	0	0	1	1	1	0	3	1	6	4	3	1	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:17918981G>A	uc002nhk.1	+	2	450	c.365G>A	c.(364-366)CGC>CAC	p.R122H	B3GNT3_uc002nhl.1_Missense_Mutation_p.R122H|B3GNT3_uc010ebd.1_Missense_Mutation_p.R122H|B3GNT3_uc010ebe.1_Missense_Mutation_p.R122H	NM_014256	NP_055071	Q9Y2A9	B3GN3_HUMAN	UDP-GlcNAc:betaGal	122	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to plasma membrane	galactosyltransferase activity			upper_aerodigestive_tract(1)	1						AACTATGTGCGCCGCGAGCTG	0.677													16	22					0	0	1	0	0		A	17918981	A	A	17918981	3	1	70	1	0	0	0	0	1	0	0	0	1259	1087	38	1	367	1	B3GNT3	19	17918981	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	80619	17918981	41210002	892	46908											
KLHL26	55295	broad.mit.edu	37	chr19	18779936	18779936	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcaacaacgtcacgggcAtcgtacaggtgtacaacacg	12	7	10	12	4	2	0	2	0	1	0	4	0	2	0	0	2	5	3	0	2	5	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:18779936A>G	uc002njz.1	+	3	1756	c.1729A>G	c.(1729-1731)ATC>GTC	p.I577V		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	577	Kelch 6.									ovary(1)	1						CGTCACGGGCATCGTACAGGT	0.662													23	24					0	0	1	0	0		G	18779936	G	G	18779936	3	3	70	1	0	0	0	0	1	0	0	0	8397	217	8	3	1739	3	KLHL26	19	18779936	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	860955	18779936	40349047	893	46909											
CILP2	148113	broad.mit.edu	37	chr19	19656228	19656229	+	Frame_Shift_Ins	INS	-	G	G																															tggtccgctcccacaacgcaINSgggggcagccacccacgcac																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:19656228_19656229insG	uc002nmv.3	+	8	2959_2960	c.2874_2875insG	c.(2872-2877)GCAGGGfs	p.A958fs	CILP2_uc002nmw.3_Frame_Shift_Ins_p.A964fs	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	958_959						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						CCCACAACGCAGGGGGCAGCCA	0.683													9	16	---	---	---	---						.	G	19656229	G	G	19656228	7	5	70	1	0	1	1	0	0	0	0	0	3433	175	7	0	2904	0	CILP2	19	19656228	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	876292	19656228	39472755	894	46910											
PBX4	80714	broad.mit.edu	37	chr19	19681602	19681602	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcctcaggagctgggcGtcagggggatcttcgtcttg	5	10	15	11	2	4	0	2	0	2	0	6	2	5	2	2	4	2	1	2	4	0	2	rs112528821		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:19681602G>A	uc002nmy.2	-	3	235	c.234C>T	c.(232-234)GAC>GAT	p.D78D	PBX4_uc010xqz.1_RNA|PBX4_uc010xra.1_Translation_Start_Site	NM_025245	NP_079521	Q9BYU1	PBX4_HUMAN	pre-B-cell leukemia homeobox 4	78							sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2						GGAGCTGGGCGTCAGGGGGAT	0.557													35	55					0	0	1	0	0		A	19681602	A	A	19681602	2	1	70	1	0	0	0	0	0	0	0	1	11514	1136	40	1		1	PBX4	19	19681602	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	25374	19681602	39447381	895	46911											
ZNF14	7561	broad.mit.edu	37	chr19	19823267	19823267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttgtagggtttttctcCagtgtgagttctttcatgag	7	18	10	6	0	3	2	1	2	2	0	4	2	3	2	1	1	0	3	1	1	1	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:19823267C>T	uc002nnk.1	-	4	977	c.823G>A	c.(823-825)GGA>AGA	p.G275R		NM_021030	NP_066358	P17017	ZNF14_HUMAN	zinc finger protein 14	275					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Renal(1328;0.0474)				GGTTTTTCTCCAGTGTGAGTT	0.403													31	52					0	0	1	0	0		T	19823267	T	T	19823267	3	4	70	1	0	0	0	0	1	0	0	0	17753	603	21	4	1109	4	ZNF14	19	19823267	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	141665	19823267	39305716	896	46912											
ZNF676	163223	broad.mit.edu	37	chr19	22375844	22375844	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttccaccatctcatgtCtcttcatattccagggctct	6	16	5	14	0	5	0	2	0	4	0	9	0	7	0	3	1	0	2	3	1	1	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:22375844C>A	uc002nqs.1	-	2	422	c.104G>T	c.(103-105)AGA>ATA	p.R35I		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	35	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CATCTCATGTCTCTTCATATT	0.413													37	100					9.73076e-26	1.06575e-25	1	1	0		A	22375844	A	A	22375844	3	1	70	1	0	0	0	0	1	0	0	0	18108	913	32	5	1670	5	ZNF676	19	22375844	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2552577	22375844	36753139	897	46913											
ZNF98	148198	broad.mit.edu	37	chr19	22575370	22575370	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatgtgtagaaaggtttgAggcctcattataggctttcc	9	16	10	6	0	1	2	1	1	0	1	2	2	2	2	2	3	0	3	2	3	5	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:22575370A>C	uc002nqt.2	-	4	789	c.667T>G	c.(667-669)TCA>GCA	p.S223A		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	223	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				GAAAGGTTTGAGGCCTCATTA	0.388													4	8					0	0	1	0	0		C	22575370	C	C	22575370	3	2	70	1	0	0	0	0	1	0	0	0	18228	304	11	5	1055	5	ZNF98	19	22575370	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	199526	22575370	36553613	898	46914											
ZNF536	9745	broad.mit.edu	37	chr19	30936377	30936377	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaccgagtgccccgactgCggccgggtgttccgcactta	5	7	12	17	5	0	0	0	0	0	0	1	2	1	0	6	2	2	2	6	2	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:30936377C>T	uc002nsu.1	+	2	2046	c.1908C>T	c.(1906-1908)TGC>TGT	p.C636C	ZNF536_uc010edd.1_Silent_p.C636C	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	636	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCCCCGACTGCGGCCGGGTGT	0.627													35	88					0	0	1	0	0		T	30936377	T	T	30936377	2	4	70	1	0	0	0	0	0	0	0	1	17999	776	27	1		1	ZNF536	19	30936377	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	8361007	30936377	28192606	899	46915											
FFAR2	2867	broad.mit.edu	37	chr19	35940790	35940790	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgctggccgacctcctcctGctgctgctgctgcccttcaa	4	10	9	18	2	1	0	1	0	0	0	3	1	3	0	5	1	5	5	5	1	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:35940790G>C	uc002nzg.2	+	2	254	c.174G>C	c.(172-174)CTG>CTC	p.L58L	FFAR2_uc010eea.2_Silent_p.L58L	NM_005306	NP_005297	O15552	FFAR2_HUMAN	free fatty acid receptor 2	58	Helical; Name=2; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			ACCTCCTCCTGCTGCTGCTGC	0.647													10	21					0	0	1	0	0		C	35940790	C	C	35940790	2	2	70	1	0	0	0	0	0	0	0	1	5842	1306	46	5		5	FFAR2	19	35940790	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	5004413	35940790	23188193	900	46916											
RBM42	79171	broad.mit.edu	37	chr19	36124665	36124665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggaagaggcagtggtggCggcggcggctgggctggagg	7	4	24	6	3	0	1	0	0	0	1	0	4	0	3	0	10	0	3	0	10	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:36124665C>T	uc002oan.2	+	7	837	c.761C>T	c.(760-762)GCG>GTG	p.A254V	RBM42_uc010eef.2_Missense_Mutation_p.A200V|RBM42_uc002oao.2_Missense_Mutation_p.A232V|RBM42_uc002oap.2_Missense_Mutation_p.A224V|RBM42_uc002oaq.2_Missense_Mutation_p.A225V|RBM42_uc010eeg.2_Missense_Mutation_p.A225V	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	254	Necessary for interaction with HNRNPK (By similarity).|Pro-rich.					cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GCAGTGGTGGCGGCGGCGGCT	0.697													3	7					0	0	1	0	0		T	36124665	T	T	36124665	3	4	70	1	0	0	0	0	1	0	0	0	13161	768	27	1	787	1	RBM42	19	36124665	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	183875	36124665	23004318	901	46917											
C19orf55	148137	broad.mit.edu	37	chr19	36258757	36258757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcggggtcagtgatacGgaagagcgaagccactcctt	10	6	14	11	4	1	2	1	1	0	1	2	4	2	3	2	3	4	1	2	3	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:36258757G>A	uc002obq.1	+	9	1083	c.1010G>A	c.(1009-1011)CGG>CAG	p.R337Q		NM_001039887	NP_001034976	Q2NL68	CS055_HUMAN	hypothetical protein LOC148137	337										ovary(1)	1	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TCAGTGATACGGAAGAGCGAA	0.647													5	11					0	0	1	0	0		A	36258757	A	A	36258757	3	1	70	1	0	0	0	0	1	0	0	0	1940	1116	39	1	1044	1	C19orf55	19	36258757	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	134092	36258757	22870226	902	46918											
ARHGAP33	115703	broad.mit.edu	37	chr19	36272095	36272095	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgagttcattgaggcccaCggggtggtggatgggatcta	7	10	16	8	2	2	1	1	1	1	0	3	4	3	3	2	6	0	1	2	6	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:36272095C>T	uc002obr.1	+	12	1111	c.1026C>T	c.(1024-1026)CAC>CAT	p.H342H	ARHGAP33_uc002obs.1_Silent_p.H342H|ARHGAP33_uc002obt.1_Silent_p.H206H|ARHGAP33_uc010eel.2_5'Flank|ARHGAP33_uc002obv.1_5'Flank	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	342	Rho-GAP.				cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						TTGAGGCCCACGGGGTGGTGG	0.597													29	58					0	0	1	0	0		T	36272095	T	T	36272095	2	4	70	1	0	0	0	0	0	0	0	1	882	535	19	1		1	ARHGAP33	19	36272095	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	13338	36272095	22856888	903	46919											
ARHGAP33	115703	broad.mit.edu	37	chr19	36276195	36276195	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccctcgaaagaagccccTgccctggctggggggcaccc	6	6	13	16	1	0	1	0	0	0	1	2	2	1	1	5	4	2	2	5	4	2	0	rs111354763		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:36276195T>C	uc002obr.1	+	18	1911	c.1826T>C	c.(1825-1827)CTG>CCG	p.L609P	ARHGAP33_uc002obs.1_Missense_Mutation_p.L609P|ARHGAP33_uc002obt.1_Missense_Mutation_p.L473P|ARHGAP33_uc010eel.2_Missense_Mutation_p.L197P|ARHGAP33_uc002obv.1_Missense_Mutation_p.L197P	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	609					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						AAGAAGCCCCTGCCCTGGCTG	0.677													9	52					0	0	1	0	0		C	36276195	C	C	36276195	3	2	70	1	0	0	0	0	1	0	0	0	882	1580	55	3	1896	3	ARHGAP33	19	36276195	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	4100	36276195	22852788	904	46920											
SPRED3	399473	broad.mit.edu	37	chr19	38882866	38882866	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaggctcactcacccccTcctcctcctcctcctcctcc	3	9	2	27	0	2	0	2	0	0	0	9	0	9	0	11	1	0	1	11	1	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:38882866T>C	uc002oim.2	+	3	365	c.361T>C	c.(361-363)TCC>CCC	p.S121P	SPRED3_uc002oil.1_Missense_Mutation_p.S121P	NM_001042522	NP_001035987	Q2MJR0	SPRE3_HUMAN	sprouty-related, EVH1 domain containing 3	121	Ser-rich.				multicellular organismal development					central_nervous_system(2)|lung(1)|skin(1)	4	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			ACTCAccccctcctcctcctc	0.532													3	10					0	0	1	0	0		C	38882866	C	C	38882866	3	2	70	1	0	0	0	0	1	0	0	0	15119	1551	54	3	371	3	SPRED3	19	38882866	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	2606671	38882866	20246117	905	46921											
FCGBP	8857	broad.mit.edu	37	chr19	40433985	40433985	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgcctatcatctcagccTtggcactgatgttgaccatg	7	13	9	12	0	2	2	2	2	1	0	3	2	2	2	3	1	3	3	3	1	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:40433985T>C	uc002omp.3	-	2	292	c.284A>G	c.(283-285)AAG>AGG	p.K95R		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	95	IgGFc-binding.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CATCTCAGCCTTGGCACTGAT	0.557													27	54					0	0	1	0	0		C	40433985	C	C	40433985	3	2	70	1	0	0	0	0	1	0	0	0	5792	1609	56	3	16073	3	FCGBP	19	40433985	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1551119	40433985	18694998	906	46922											
CNTD2	79935	broad.mit.edu	37	chr19	40729347	40729347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccgaggcacagcagcgggCcggggtggtgcagccggaaa	8	2	19	12	4	0	0	0	0	0	0	0	2	0	1	3	6	4	3	3	6	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:40729347C>T	uc010xvi.1	-	4	669	c.620G>A	c.(619-621)GGC>GAC	p.G207D	CNTD2_uc002ond.2_RNA	NM_024877	NP_079153	Q9H8S5	CNTD2_HUMAN	cyclin N-terminal domain containing 2 isoform 2	207					regulation of cyclin-dependent protein kinase activity		protein kinase binding				0						CAGCAGCGGGCCGGGGTGGTG	0.706													3	20					0	0	1	0	0		T	40729347	T	T	40729347	3	4	70	1	0	0	0	0	1	0	0	0	3639	739	26	2	311	2	CNTD2	19	40729347	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	295362	40729347	18399636	907	46923											
LTBP4	8425	broad.mit.edu	37	chr19	41122916	41122916	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcagcccacgccagggggCggatgccagggtgggtgtcc	6	6	17	12	2	1	0	1	0	0	0	2	1	2	1	4	5	2	0	4	5	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:41122916C>T	uc002ooh.1	+	23	3135	c.3135C>T	c.(3133-3135)GGC>GGT	p.G1045G	LTBP4_uc002oog.1_Silent_p.G1008G|LTBP4_uc002ooi.1_Silent_p.G978G|LTBP4_uc002ooj.1_5'UTR|LTBP4_uc002ook.1_Intron|LTBP4_uc002ool.1_Intron|LTBP4_uc002oom.1_Intron|LTBP4_uc010xvp.1_Intron	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1045	Cys-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CGCCAGGGGGCGGATGCCAGG	0.602													8	18					0	0	1	0	0		T	41122916	T	T	41122916	2	4	70	1	0	0	0	0	0	0	0	1	9094	755	27	1		1	LTBP4	19	41122916	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	393569	41122916	18006067	908	46924											
CYP2A13	1553	broad.mit.edu	37	chr19	41601775	41601775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcagtcgcctaaggatatcGacgtgtcccccaaacacgtg	10	8	9	14	4	1	0	1	0	0	0	4	2	2	1	3	1	1	0	3	1	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:41601775G>A	uc002opt.2	+	9	1423	c.1414G>A	c.(1414-1416)GAC>AAC	p.D472N		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	472					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	TAAGGATATCGACGTGTCCCC	0.458													64	96					0	0	1	0	0		A	41601775	A	A	41601775	3	1	70	1	0	0	0	0	1	0	0	0	4164	1058	37	1	1448	1	CYP2A13	19	41601775	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	478859	41601775	17527208	909	46925											
CYP2F1	1572	broad.mit.edu	37	chr19	41630686	41630686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgccggcgctgaaggacCgcgcggccatgccttacaca	7	5	14	15	5	0	1	0	1	0	0	0	2	0	2	4	4	3	2	4	4	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:41630686C>T	uc002opu.1	+	8	1083	c.1027C>T	c.(1027-1029)CGC>TGC	p.R343C	CYP2F1_uc010xvw.1_Intron|CYP2F1_uc010xvv.1_3'UTR|CYP2F1_uc002opv.1_RNA	NM_000774	NP_000765	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F,	343					naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0						GCTGAAGGACCGCGCGGCCAT	0.672													9	11					0	0	1	0	0		T	41630686	T	T	41630686	3	4	70	1	0	0	0	0	1	0	0	0	4174	652	23	1	1053	1	CYP2F1	19	41630686	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	28911	41630686	17498297	910	46926											
ZNF574	64763	broad.mit.edu	37	chr19	42585373	42585373	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgtcatggagactgctgTggaggcgctacccctggtgg	5	8	17	11	2	1	1	1	0	0	1	1	3	1	2	3	6	2	2	3	6	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:42585373T>C	uc002osm.3	+	2	2784	c.2615T>C	c.(2614-2616)GTG>GCG	p.V872A	ZNF574_uc002osk.3_Missense_Mutation_p.V962A	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	872					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				GAGACTGCTGTGGAGGCGCTA	0.637													40	59					0	0	1	0	0		C	42585373	C	C	42585373	3	2	70	1	0	0	0	0	1	0	0	0	18031	1696	59	3	2617	3	ZNF574	19	42585373	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	954687	42585373	16543610	911	46927											
MEGF8	1954	broad.mit.edu	37	chr19	42853826	42853826	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctaactctgctgtgggAtcggactggtgtgccaggag	7	9	16	9	2	1	0	0	0	1	0	2	4	1	3	1	4	4	2	1	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:42853826A>G	uc002otl.3	+	13	2908	c.2273A>G	c.(2272-2274)GAT>GGT	p.D758G	MEGF8_uc002otm.3_Missense_Mutation_p.D366G	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	825	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				CTGCTGTGGGATCGGACTGGT	0.632													33	62					0	0	1	0	0		G	42853826	G	G	42853826	3	3	70	1	0	0	0	0	1	0	0	0	9481	333	12	3	2323	3	MEGF8	19	42853826	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	268453	42853826	16275157	912	46928											
MEGF8	1954	broad.mit.edu	37	chr19	42880471	42880471	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagatgaccaagatggccagCcgccccttcgccaaggtcac	10	5	11	15	2	1	3	1	1	0	2	2	4	1	3	6	2	1	0	6	2	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:42880471C>T	uc002otl.3	+	41	8516	c.7881C>T	c.(7879-7881)AGC>AGT	p.S2627S	MEGF8_uc002otm.3_Silent_p.S2235S|MEGF8_uc002otn.3_Silent_p.S288S	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	2694	Cytoplasmic (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				AGATGGCCAGCCGCCCCTTCG	0.657													12	19					0	0	1	0	0		T	42880471	T	T	42880471	2	4	70	1	0	0	0	0	0	0	0	1	9481	738	26	2		2	MEGF8	19	42880471	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	26645	42880471	16248512	913	46929											
IRGQ	126298	broad.mit.edu	37	chr19	44096194	44096194	+	Frame_Shift_Del	DEL	G	-	-																															ctcctcactgggcaggctcaGggggtgccagcacagcctca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:44096194delG	uc002oww.2	-	2	1974	c.1856delC	c.(1855-1857)CCTfs	p.P619fs	IRGQ_uc010eiv.2_Frame_Shift_Del_p.P619fs	NM_001007561	NP_001007562	Q8WZA9	IRGQ_HUMAN	immunity-related GTPase family, Q	619							protein binding			ovary(1)|pancreas(1)	2		Prostate(69;0.0199)				GGCAGGCTCAGGGGGTGCCAG	0.657													62	133	---	---	---	---						.	-	44096194	-	-	44096194	7	5	70	1	0	1	0	1	0	0	0	0	7855	1000	35	0	19	0	IRGQ	19	44096194	Frame_Shift_Del	DEL	G	TCGA-BR-8368-01A-11D-2340-08	1215723	44096194	15032789	914	46930											
ZC3H4	23211	broad.mit.edu	37	chr19	47572412	47572412	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cctcgctctctcctcctcctCctgctgcttctgctggatcc	1	14	6	20	1	2	0	0	0	2	0	9	1	7	1	6	1	3	4	6	1	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:47572412C>G	uc002pga.3	-	14	2373	c.2335G>C	c.(2335-2337)GAG>CAG	p.E779Q	ZC3H4_uc002pgb.1_Intron	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	779	Potential.						nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		TCCTCCTCCTCCTGCTGCTTC	0.701													34	63					0	0	1	0	0		G	47572412	G	G	47572412	3	3	70	1	0	0	0	0	1	0	0	0	17595	864	30	5	1584	5	ZC3H4	19	47572412	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3476218	47572412	11556571	915	46931											
SLC8A2	6543	broad.mit.edu	37	chr19	47969509	47969509	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacgggcagcagcacccccGgctggcagcggtaggacccc	8	2	14	17	3	0	0	0	0	0	0	0	1	0	1	4	5	3	6	4	5	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:47969509G>T	uc002pgx.2	-	2	430	c.152C>A	c.(151-153)CCG>CAG	p.P51Q	SLC8A2_uc010xyq.1_Intron|SLC8A2_uc010xyr.1_Intron|SLC8A2_uc010ele.2_Missense_Mutation_p.P51Q	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	51	Extracellular (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		CAGCACCCCCGGCTGGCAGCG	0.697													6	11					0.0293803	0.029564	1	1	0		T	47969509	T	T	47969509	3	4	70	1	0	0	0	0	1	0	0	0	14732	1116	39	5	2649	5	SLC8A2	19	47969509	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	397097	47969509	11159474	916	46932											
CRX	1406	broad.mit.edu	37	chr19	48337743	48337743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccactattctgtcaacGccttggccctaagtggcccc	6	9	9	17	1	2	0	1	0	1	0	2	0	2	0	6	3	1	0	6	3	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:48337743G>A	uc002phq.3	+	2	247	c.43G>A	c.(43-45)GCC>ACC	p.A15T	CRX_uc010elm.1_Intron	NM_000554	NP_000545	O43186	CRX_HUMAN	cone-rod homeobox protein	15					organ morphogenesis|response to stimulus|visual perception		leucine zipper domain binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2		all_cancers(25;2.76e-09)|all_epithelial(76;7.01e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000266)|all cancers(93;0.000788)|Epithelial(262;0.0226)|GBM - Glioblastoma multiforme(486;0.0521)		TTCTGTCAACGCCTTGGCCCT	0.592													16	25					0	0	1	0	0		A	48337743	A	A	48337743	3	1	70	1	0	0	0	0	1	0	0	0	3905	1087	38	1	45	1	CRX	19	48337743	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	368234	48337743	10791240	917	46933											
GRIN2D	2906	broad.mit.edu	37	chr19	48918144	48918144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccggatgccccccgccCggaaaagcgctgctgcaagg	8	4	12	17	4	0	0	0	0	0	0	1	2	1	2	6	3	4	3	6	3	3	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:48918144C>T	uc002pjc.3	+	6	1524	c.1436C>T	c.(1435-1437)CCG>CTG	p.P479L		NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	479	Extracellular (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		all_epithelial(76;1.11e-06)|all_lung(116;5.79e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		all cancers(93;0.00014)|OV - Ovarian serous cystadenocarcinoma(262;0.000233)|Epithelial(262;0.0112)|GBM - Glioblastoma multiforme(486;0.0161)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	GCCCCCCGCCCGGAAAAGCGC	0.597													26	47					0	0	1	0	0		T	48918144	T	T	48918144	3	4	70	1	0	0	0	0	1	0	0	0	6798	652	23	1	1454	1	GRIN2D	19	48918144	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	580401	48918144	10210839	918	46934											
LMTK3	114783	broad.mit.edu	37	chr19	49001494	49001494	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccccagggccccattctcCgccgccttctcctcgatgcc	4	8	8	21	3	2	0	0	0	2	0	5	2	2	0	9	1	1	0	9	1	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:49001494C>T	uc002pjk.2	-	12	2919	c.2919G>A	c.(2917-2919)GCG>GCA	p.A973A		NM_001080434	NP_001073903			lemur tyrosine kinase 3											lung(5)|central_nervous_system(1)	6		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)		CCCCATTCTCCGCCGCCTTCT	0.637													28	46					0	0	1	0	0		T	49001494	T	T	49001494	2	4	70	1	0	0	0	0	0	0	0	1	8877	639	23	1		1	LMTK3	19	49001494	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	83350	49001494	10127489	919	46935											
LMTK3	114783	broad.mit.edu	37	chr19	49001688	49001688	+	Frame_Shift_Del	DEL	C	-	-																															tcctgtctcccgggctgtcgCccccttctcccccaggaggt																								rs35275345		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:49001688delC	uc002pjk.2	-	12	2725	c.2725delG	c.(2725-2727)GCGfs	p.A909fs		NM_001080434	NP_001073903			lemur tyrosine kinase 3											lung(5)|central_nervous_system(1)	6		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)		CGGGCTGTCGCCCCCTTCTCC	0.662													5	8	---	---	---	---						.	-	49001688	-	-	49001688	7	5	70	1	0	1	0	1	0	0	0	0	8877	739	26	0	1764	0	LMTK3	19	49001688	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	194	49001688	10127295	920	46936											
TULP2	7288	broad.mit.edu	37	chr19	49388705	49388705	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtcagagctctacccacCtgactttgcccacgaaattg	10	10	7	14	1	2	2	1	1	1	1	2	3	2	2	3	0	3	1	3	0	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:49388705C>A	uc002pkz.2	-	9	1212	c.1061G>T	c.(1060-1062)AGA>ATA	p.R354I		NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	354					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		CTCTACCCACCTGACTTTGCC	0.547													25	72					1.10923e-09	1.15858e-09	1	1	0		A	49388705	A	A	49388705	3	1	70	1	0	0	0	0	1	0	0	0	16800	695	24	5	521	5	TULP2	19	49388705	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	387017	49388705	9740278	921	46937											
HRC	3270	broad.mit.edu	37	chr19	49658225	49658225	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggagacatcttcatcctcCttttcacggtctgggtggct	5	15	10	11	1	4	1	2	0	2	1	6	2	6	1	2	4	0	1	2	4	0	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:49658225C>A	uc002pmv.2	-	1	457	c.270G>T	c.(268-270)AAG>AAT	p.K90N	TRPM4_uc002pmw.2_5'Flank|TRPM4_uc010emu.2_5'Flank|TRPM4_uc010yak.1_5'Flank|TRPM4_uc002pmx.2_5'Flank|TRPM4_uc010emv.2_5'Flank|TRPM4_uc010yal.1_5'Flank	NM_002152	NP_002143	P23327	SRCH_HUMAN	histidine rich calcium binding protein	90					muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			ovary(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		CTTCATCCTCCTTTTCACGGT	0.537													26	72					3.6726e-16	3.94945e-16	1	1	0		A	49658225	A	A	49658225	3	1	70	1	0	0	0	0	1	0	0	0	7368	680	24	5	1853	5	HRC	19	49658225	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	269520	49658225	9470758	922	46938											
AP2A1	160	broad.mit.edu	37	chr19	50302631	50302631	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccagctgggccagttccTgcagcaccgggagaccaacc	10	4	11	16	1	0	1	0	0	0	1	1	2	1	1	6	2	5	4	6	2	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:50302631T>C	uc002ppn.2	+	9	1224	c.1013T>C	c.(1012-1014)CTG>CCG	p.L338P	AP2A1_uc010enj.1_RNA|AP2A1_uc002ppo.2_Missense_Mutation_p.L338P|AP2A1_uc002ppp.1_5'Flank	NM_014203	NP_055018	O95782	AP2A1_HUMAN	adaptor-related protein complex 2, alpha 1	338					axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|Golgi to endosome transport|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|clathrin coat of trans-Golgi network vesicle|cytosol	protein binding|protein transporter activity			ovary(2)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0023)|GBM - Glioblastoma multiforme(134;0.0157)		GGCCAGTTCCTGCAGCACCGG	0.622													5	13					0	0	1	0	0		C	50302631	C	C	50302631	3	2	70	1	0	0	0	0	1	0	0	0	739	1580	55	3	1047	3	AP2A1	19	50302631	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	644406	50302631	8826352	923	46939											
NUP62	23636	broad.mit.edu	37	chr19	50411685	50411685	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcggcgggggccccggaCgtgttcaggtgctcgatgat	4	9	18	10	5	1	1	1	1	0	0	3	3	1	2	2	5	1	2	2	5	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:50411685C>T	uc002pqx.2	-	2	1484	c.1380G>A	c.(1378-1380)ACG>ACA	p.T460T	IL4I1_uc002pqv.1_Intron|IL4I1_uc010eno.1_Intron|IL4I1_uc002pqw.1_Intron|IL4I1_uc002pqu.1_Intron|NUP62_uc002pqy.2_Silent_p.T460T|NUP62_uc002pqz.2_Silent_p.T460T|NUP62_uc002pra.2_Silent_p.T460T|NUP62_uc002prb.2_Silent_p.T460T|NUP62_uc002prc.2_Silent_p.T384T	NM_153719	NP_714941	P37198	NUP62_HUMAN	nucleoporin 62kDa	460					carbohydrate metabolic process|cell death|cell surface receptor linked signaling pathway|glucose transport|hormone-mediated signaling pathway|mRNA transport|negative regulation of apoptosis|negative regulation of cell proliferation|nucleocytoplasmic transport|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|protein transport|regulation of glucose transport|transcription, DNA-dependent|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleocytoplasmic shuttling complex|ribonucleoprotein complex|spindle pole	chromatin binding|protein serine/threonine kinase activity|receptor signaling complex scaffold activity|SH2 domain binding|structural constituent of nuclear pore|thyroid hormone receptor binding|ubiquitin binding				0		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00242)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		GGGCCCCGGACGTGTTCAGGT	0.582													34	75					0	0	1	0	0		T	50411685	T	T	50411685	2	4	70	1	0	0	0	0	0	0	0	1	10787	523	19	1		1	NUP62	19	50411685	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	109054	50411685	8717298	924	46940											
CLEC11A	6320	broad.mit.edu	37	chr19	51228569	51228569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcaccccgccccgagctcGgcgcccagcccagcgcctcg	4	3	11	23	6	1	0	1	0	0	0	3	1	1	0	7	1	3	2	7	1	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:51228569G>A	uc002psy.2	+	4	995	c.817G>A	c.(817-819)GGC>AGC	p.G273S		NM_002975	NP_002966	Q9Y240	CLC11_HUMAN	stem cell growth factor precursor	273	C-type lectin.				positive regulation of cell proliferation	cytoplasm|extracellular region	growth factor activity|sugar binding			ovary(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		CCCCGAGCTCGGCGCCCAGCC	0.721													7	9					0	0	1	0	0		A	51228569	A	A	51228569	3	1	70	1	0	0	0	0	1	0	0	0	3499	1116	39	1	831	1	CLEC11A	19	51228569	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	816884	51228569	7900414	925	46941											
KLK4	9622	broad.mit.edu	37	chr19	51411929	51411929	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccggatggtgtcagactcGgacacggattcgtccaactt	8	10	11	12	4	1	1	1	0	0	1	5	4	3	4	2	4	1	0	2	4	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:51411929G>A	uc002pua.1	-	3	381	c.381C>T	c.(379-381)TCC>TCT	p.S127S	KLK4_uc002pty.1_Silent_p.S78S|KLK4_uc002ptz.1_RNA|KLK4_uc002pub.1_Silent_p.S32S|KLK4_uc002puc.1_RNA|KLK4_uc010eoi.1_Silent_p.S32S|KLK4_uc002pud.1_Silent_p.S32S	NM_004917	NP_004908	Q9Y5K2	KLK4_HUMAN	kallikrein-related peptidase 4 preproprotein	127	Peptidase S1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00624)|GBM - Glioblastoma multiforme(134;0.00878)		TGTCAGACTCGGACACGGATT	0.602													27	41					0	0	1	0	0		A	51411929	A	A	51411929	2	1	70	1	0	0	0	0	0	0	0	1	8422	1103	39	1		1	KLK4	19	51411929	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	183360	51411929	7717054	926	46942											
KLK5	25818	broad.mit.edu	37	chr19	51453227	51453227	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacggctgggtgtgcatatcGcagtcggatccattgatgat	8	11	13	9	3	0	2	0	2	0	0	3	3	1	3	1	3	1	3	1	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:51453227G>A	uc002pue.2	-	4	437	c.219C>T	c.(217-219)TGC>TGT	p.C73C	KLK5_uc002puf.2_Silent_p.C73C|KLK5_uc002pug.2_Silent_p.C73C	NM_001077491	NP_001070959	Q9Y337	KLK5_HUMAN	kallikrein-related peptidase 5 preproprotein	73	Peptidase S1.				epidermis development|positive regulation of G-protein coupled receptor protein signaling pathway|proteolysis	extracellular space	protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00379)|GBM - Glioblastoma multiforme(134;0.00888)		TGTGCATATCGCAGTCGGATC	0.662													3	15					0	0	1	0	0		A	51453227	A	A	51453227	2	1	70	1	0	0	0	0	0	0	0	1	8423	1079	38	1		1	KLK5	19	51453227	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	41298	51453227	7675756	927	46943											
KLK10	5655	broad.mit.edu	37	chr19	51518125	51518125	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggtgtagacagctggatgCtgggcagagccacaggggta	9	7	18	7	0	0	2	0	0	0	2	0	3	0	3	1	5	3	5	1	5	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:51518125C>T	uc002puy.2	-	6	843	c.762G>A	c.(760-762)CAG>CAA	p.Q254Q	KLK10_uc002puz.2_Silent_p.Q254Q|KLK10_uc002pva.2_Silent_p.Q254Q	NM_145888	NP_665895	O43240	KLK10_HUMAN	kallikrein-related peptidase 10 preproprotein	254	Peptidase S1.				cell cycle|proteolysis	extracellular region	serine-type endopeptidase activity			lung(2)	2		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00885)		CAGCTGGATGCTGGGCAGAGC	0.562													19	62					0	0	1	0	0		T	51518125	T	T	51518125	2	4	70	1	0	0	0	0	0	0	0	1	8414	796	28	2		2	KLK10	19	51518125	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	64898	51518125	7610858	928	46944											
ZNF320	162967	broad.mit.edu	37	chr19	53384267	53384267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctgatgttctgcaagaCgtgaatcactccggaaagcc	10	10	9	12	2	3	3	1	2	2	1	5	4	4	4	2	1	2	2	2	1	3	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:53384267C>T	uc002qag.2	-	4	1303	c.1112G>A	c.(1111-1113)CGT>CAT	p.R371H	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.R317H|ZNF320_uc002qai.2_Missense_Mutation_p.R371H	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	371	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		TTCTGCAAGACGTGAATCACT	0.413													52	123					0	0	1	0	0		T	53384267	T	T	53384267	3	4	70	1	0	0	0	0	1	0	0	0	17864	536	19	1	421	1	ZNF320	19	53384267	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1866142	53384267	5744716	929	46945											
ZNF665	79788	broad.mit.edu	37	chr19	53668313	53668313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccagaatgaattcccCgatgacttgcaaggtgtgaa	11	11	9	10	1	1	4	0	3	1	1	4	5	3	4	3	1	1	1	3	1	4	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:53668313C>T	uc010eqm.1	-	4	1530	c.1430G>A	c.(1429-1431)CGG>CAG	p.R477Q		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	412	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		ATGAATTCCCCGATGACTTGC	0.423													44	82					0	0	1	0	0		T	53668313	T	T	53668313	3	4	70	1	0	0	0	0	1	0	0	0	18098	652	23	1	610	1	ZNF665	19	53668313	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	284046	53668313	5460670	930	46946											
ZNF665	79788	broad.mit.edu	37	chr19	53669274	53669274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcataaattttcccttcatGttgaaattgctgcagttcag	10	17	6	8	0	3	1	3	1	0	0	4	1	4	1	1	0	2	4	1	0	3	8			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:53669274G>A	uc010eqm.1	-	4	569	c.469C>T	c.(469-471)CAT>TAT	p.H157Y		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	92					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		TTCCCTTCATGTTGAAATTGC	0.383													60	87					0	0	1	0	0		A	53669274	A	A	53669274	3	1	70	1	0	0	0	0	1	0	0	0	18098	1377	48	4	1571	4	ZNF665	19	53669274	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	961	53669274	5459709	931	46947											
PRKCG	5582	broad.mit.edu	37	chr19	54401692	54401692	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttttggaactgtgcgcatAggtgatgctggccgagcgca	7	10	14	10	3	0	1	0	1	0	0	0	3	0	2	2	3	4	3	2	3	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:54401692A>G	uc002qcq.1	+	11	1375	c.1093_splice	c.e11-2	p.V365_splice	PRKCG_uc010yef.1_Splice_Site|PRKCG_uc010yeg.1_Splice_Site_p.V365_splice|PRKCG_uc010yeh.1_Splice_Site_p.V252_splice	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma						activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		CTGTGCGCATAGGTGATGCTG	0.592													15	26					0	0	1	0	0		G	54401692	G	G	54401692	5	3	70	1	0	0	0	0	0	0	1	0	12534	434	15	3	1133	3	PRKCG	19	54401692	Splice_Site	SNP	A	TCGA-BR-8368-01A-11D-2340-08	732418	54401692	4727291	932	46948											
LAIR1	3903	broad.mit.edu	37	chr19	54866912	54866912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctgcatacgtgatggactCggccatgggctttgtggact	6	11	15	9	2	0	1	0	1	0	0	1	3	0	3	1	5	2	3	1	5	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:54866912C>T	uc002qfk.1	-	10	1139	c.829G>A	c.(829-831)GAG>AAG	p.E277K	LAIR1_uc002qfl.1_Missense_Mutation_p.E260K|LAIR1_uc002qfm.1_Missense_Mutation_p.E276K|LAIR1_uc002qfn.1_Missense_Mutation_p.E259K|LAIR1_uc010yex.1_Missense_Mutation_p.E270K|LAIR1_uc002qfo.2_Missense_Mutation_p.E259K	NM_002287	NP_002278	Q6GTX8	LAIR1_HUMAN	leukocyte-associated immunoglobulin-like	277	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding|receptor activity			ovary(4)	4	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0573)		GTGATGGACTCGGCCATGGGC	0.602													42	83					0	0	1	0	0		T	54866912	T	T	54866912	3	4	70	1	0	0	0	0	1	0	0	0	8618	893	31	1	38	1	LAIR1	19	54866912	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	465220	54866912	4262071	933	46949											
NLRP7	199713	broad.mit.edu	37	chr19	55450565	55450565	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgatgtccggtgacatcCggcagccaaaagtggcctcc	8	9	12	12	2	0	2	0	2	0	0	3	2	3	2	5	3	1	2	5	3	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:55450565C>T	uc002qih.3	-	4	1698	c.1622G>A	c.(1621-1623)CGG>CAG	p.R541Q	NLRP7_uc002qig.3_Missense_Mutation_p.R541Q|NLRP7_uc002qii.3_Missense_Mutation_p.R541Q|NLRP7_uc010esk.2_Missense_Mutation_p.R541Q|NLRP7_uc010esl.2_Missense_Mutation_p.R569Q	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	541							ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CGGTGACATCCGGCAGCCAAA	0.512													32	56					0	0	1	0	0		T	55450565	T	T	55450565	3	4	70	1	0	0	0	0	1	0	0	0	10501	652	23	1	1523	1	NLRP7	19	55450565	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	583653	55450565	3678418	934	46950											
EPS8L1	54869	broad.mit.edu	37	chr19	55594834	55594834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgacccgcagagccgcGcctgggaggacccagttgag	8	5	14	14	3	1	3	1	2	0	1	1	5	1	5	4	2	1	2	4	2	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:55594834G>A	uc002qis.3	+	13	1407	c.1303G>A	c.(1303-1305)GCC>ACC	p.A435T	EPS8L1_uc010ess.1_Missense_Mutation_p.A417T|EPS8L1_uc010est.1_Missense_Mutation_p.A435T|EPS8L1_uc010yfr.1_Missense_Mutation_p.A371T|EPS8L1_uc010esu.1_RNA|EPS8L1_uc002qiu.2_Missense_Mutation_p.A308T|EPS8L1_uc002qiv.2_Missense_Mutation_p.A81T|EPS8L1_uc002qiw.2_Missense_Mutation_p.A182T	NM_133180	NP_573441	Q8TE68	ES8L1_HUMAN	epidermal growth factor receptor pathway	435						cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		GCAGAGCCGCGCCTGGGAGGA	0.706													8	13					0	0	1	0	0		A	55594834	A	A	55594834	3	1	70	1	0	0	0	0	1	0	0	0	5203	1087	38	1	1401	1	EPS8L1	19	55594834	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	144269	55594834	3534149	935	46951											
PTPRH	5794	broad.mit.edu	37	chr19	55715343	55715343	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtgggtctgtgccatcGgggacctcccagctcaggga	5	10	14	12	1	3	0	1	0	2	0	5	2	4	2	3	4	2	1	3	4	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:55715343G>A	uc002qjq.2	-	5	766	c.693C>T	c.(691-693)CCC>CCT	p.P231P	PTPRH_uc010esv.2_Intron|PTPRH_uc002qjs.2_Silent_p.P238P	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	231	Extracellular (Potential).|Fibronectin type-III 3.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		CTGTGCCATCGGGGACCTCCC	0.542													21	67					0	0	1	0	0		A	55715343	A	A	55715343	2	1	70	1	0	0	0	0	0	0	0	1	12828	1103	39	1		1	PTPRH	19	55715343	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	120509	55715343	3413640	936	46952											
CCDC106	29903	broad.mit.edu	37	chr19	56163869	56163869	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagctcaagagcatgtcGcgggccttcgagcaccaccg	10	5	12	14	4	1	2	1	0	0	2	3	3	1	2	3	1	3	3	3	1	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:56163869G>A	uc002qlr.2	+	6	1335	c.600G>A	c.(598-600)TCG>TCA	p.S200S	CCDC106_uc002qls.2_Silent_p.S200S|U2AF2_uc002qlt.2_5'Flank|U2AF2_uc002qlu.2_5'Flank	NM_013301	NP_037433	Q9BWC9	CC106_HUMAN	coiled-coil domain containing 106	200						nucleus					0		Colorectal(82;0.00403)|Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		AGAGCATGTCGCGGGCCTTCG	0.657													14	26					0	0	1	0	0		A	56163869	A	A	56163869	2	1	70	1	0	0	0	0	0	0	0	1	2744	1074	38	1		1	CCDC106	19	56163869	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	448526	56163869	2965114	937	46953											
U2AF2	11338	broad.mit.edu	37	chr19	56172557	56172557	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccctttggcatcactgaggTactgccctcccctgccccct	4	10	7	20	0	1	1	1	1	0	0	2	1	2	1	7	2	3	2	7	2	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:56172557T>C	uc002qlu.2	+	5	1541	c.486_splice	c.e5+2	p.E162_splice	U2AF2_uc002qlt.2_Splice_Site_p.E162_splice	NM_007279	NP_009210	P26368	U2AF2_HUMAN	U2 (RNU2) small nuclear RNA auxiliary factor 2						mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	nucleoplasm|spliceosomal complex	enzyme binding|nucleotide binding|RNA binding			ovary(1)	1		Colorectal(82;0.00244)|Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		ATCACTGAGGTActgccctcc	0.403													13	13					0	0	1	0	0		C	56172557	C	C	56172557	5	2	70	1	0	0	0	0	0	0	1	0	16849	1652	57	3	506	3	U2AF2	19	56172557	Splice_Site	SNP	T	TCGA-BR-8368-01A-11D-2340-08	8688	56172557	2956426	938	46954											
ZNF667	63934	broad.mit.edu	37	chr19	56952725	56952725	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctctccagtatgacttcTttcatgtagaataagagatg	11	16	7	7	0	3	3	1	1	2	2	5	4	4	3	1	0	0	2	1	0	4	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:56952725T>G	uc002qnd.2	-	5	1801	c.1639A>C	c.(1639-1641)AGA>CGA	p.R547R	ZNF667_uc010etl.2_Silent_p.R329R|ZNF667_uc002qne.2_Silent_p.R547R|ZNF667_uc010etm.2_Silent_p.R490R	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	547	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		GTATGACTTCTTTCATGTAGA	0.423													35	66					0	0	1	0	0		G	56952725	G	G	56952725	2	3	70	1	0	0	0	0	0	0	0	1	18099	1617	56	5		5	ZNF667	19	56952725	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	780168	56952725	2176258	939	46955											
ZNF460	10794	broad.mit.edu	37	chr19	57803352	57803352	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctatgaatgcgtggagtgCgggaaggccttcaaccgcag	9	7	14	11	3	1	1	1	1	0	0	1	3	1	3	3	3	3	1	3	3	4	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:57803352C>T	uc002qog.2	+	3	1765	c.1443C>T	c.(1441-1443)TGC>TGT	p.C481C	ZNF460_uc010ygv.1_Silent_p.C440C	NM_006635	NP_006626	Q14592	ZN460_HUMAN	zinc finger protein 460	481	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GCGTGGAGTGCGGGAAGGCCT	0.532													35	60					0	0	1	0	0		T	57803352	T	T	57803352	2	4	70	1	0	0	0	0	0	0	0	1	17949	776	27	1		1	ZNF460	19	57803352	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	850627	57803352	1325631	940	46956											
ZNF549	256051	broad.mit.edu	37	chr19	58049657	58049657	+	Frame_Shift_Del	DEL	A	-	-																															gtgggaaggccttcattcacAaaaaaagacttcttgagcac																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:58049657delA	uc002qpb.1	+	4	1534	c.1285delA	c.(1285-1287)AAAfs	p.K429fs	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF549_uc002qpa.1_Frame_Shift_Del_p.K416fs	NM_153263	NP_694995	Q6P9A3	ZN549_HUMAN	zinc finger protein 549	429	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CTTCATTCACAAAAAAAGACT	0.418													38	54	---	---	---	---						.	-	58049657	-	-	58049657	7	5	70	1	0	1	0	1	0	0	0	0	18006	131	5	0	1256	0	ZNF549	19	58049657	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	246305	58049657	1079326	941	46957											
ZNF324B	388569	broad.mit.edu	37	chr19	58967034	58967034	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcggtggccaggagccctcGacctgggacgagctgggcga	6	5	17	13	4	0	0	0	0	0	0	2	5	0	2	3	5	2	1	3	5	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:58967034G>A	uc002qsv.1	+	4	830	c.723G>A	c.(721-723)TCG>TCA	p.S241S	ZNF324B_uc002qsu.1_Silent_p.S231S|ZNF324B_uc010euq.1_Silent_p.S241S	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	241					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		AGGAGCCCTCGACCTGGGACG	0.637													8	15					0	0	1	0	0		A	58967034	A	A	58967034	2	1	70	1	0	0	0	0	0	0	0	1	17870	1045	37	1		1	ZNF324B	19	58967034	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	917377	58967034	161949	942	46958											
ZNF446	55663	broad.mit.edu	37	chr19	58988901	58988901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctagtcgaaggactgcagCatgaccctgggcaactgttg	9	8	12	12	1	0	1	0	1	0	0	1	3	0	2	2	2	3	4	2	2	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr19:58988901C>T	uc002qsz.2	+	2	433	c.316C>T	c.(316-318)CAT>TAT	p.H106Y	ZNF446_uc002qta.2_Missense_Mutation_p.H106Y|ZNF446_uc010eur.2_Missense_Mutation_p.H106Y	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	106	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		AGGACTGCAGCATGACCCTGG	0.632													16	24					0	0	1	0	0		T	58988901	T	T	58988901	3	4	70	1	0	0	0	0	1	0	0	0	17944	710	25	2	318	2	ZNF446	19	58988901	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	21867	58988901	140082	943	46959											
DEFB126	81623	broad.mit.edu	37	chr20	126054	126054	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatataattcctttattcAggtaattggtatgtgaaaaa	14	17	6	4	0	2	1	1	1	1	0	3	1	3	1	1	2	0	2	1	2	8	10			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:126054A>G	uc002wcx.2	+	2	77	c.59_splice	c.e2-2	p.G20_splice		NM_030931	NP_112193	Q9BYW3	DB126_HUMAN	defensin, beta 126 preproprotein						defense response to bacterium	extracellular region					0		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			TCCTTTATTCAGGTAATTGGT	0.348													13	35					0	0	1	0	0		G	126054	G	G	126054	5	3	70	1	0	0	0	0	0	0	1	0	4417	202	7	3	63	3	DEFB126	20	126054	Splice_Site	SNP	A	TCGA-BR-8368-01A-11D-2340-08		126054	62899466	944	46960											
SIRPA	140885	broad.mit.edu	37	chr20	1902058	1902058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagccaaaccctctgcccccGtggtatcgggccctgcggcg	5	7	12	17	4	1	0	0	0	1	0	2	0	1	0	5	3	4	1	5	3	3	2	rs143335460		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:1902058G>A	uc002wfq.2	+	4	814	c.454G>A	c.(454-456)GTG>ATG	p.V152M	SIRPA_uc010zps.1_Missense_Mutation_p.V132M|SIRPA_uc002wfr.2_Missense_Mutation_p.V152M|SIRPA_uc002wfs.2_Missense_Mutation_p.V152M|SIRPA_uc002wft.2_Missense_Mutation_p.V152M	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	152	Ig-like C1-type 1.|Extracellular (Potential).				blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		CTCTGCCCCCGTGGTATCGGG	0.517													24	38					0	0	1	0	0		A	1902058	A	A	1902058	3	1	70	1	0	0	0	0	1	0	0	0	14357	1145	40	1	464	1	SIRPA	20	1902058	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1776004	1902058	61123462	945	46961											
LRRN4	164312	broad.mit.edu	37	chr20	6022103	6022103	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggcacaccagtggaccagCgccgacgtgtccgtggtctc	6	6	15	14	4	1	0	0	0	1	0	3	2	2	1	4	4	1	1	4	4	0	0	rs149872329	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:6022103C>T	uc002wmo.2	-	5	2012	c.1788G>A	c.(1786-1788)GCG>GCA	p.A596A		NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	596	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				skin(3)	3						AGTGGACCAGCGCCGACGTGT	0.697													18	39					0	0	1	0	0		T	6022103	T	T	6022103	2	4	70	1	0	0	0	0	0	0	0	1	9055	755	27	1		1	LRRN4	20	6022103	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4120045	6022103	57003417	946	46962											
FERMT1	55612	broad.mit.edu	37	chr20	6075585	6075585	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccccataaaagtttacttaCctaaataatttgagattatc	15	15	3	8	0	0	1	0	1	0	1	2	2	1	1	3	0	2	1	3	0	8	8			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:6075585C>G	uc002wmr.2	-	9	1928	c.1139_splice	c.e9+1	p.R380_splice	FERMT1_uc002wmq.2_5'Flank|FERMT1_uc010gbt.2_Splice_Site_p.R123_splice|FERMT1_uc002wms.2_Splice_Site_p.R380_splice	NM_017671	NP_060141	Q9BQL6	FERM1_HUMAN	kindlin-1						cell adhesion|establishment of epithelial cell polarity|keratinocyte migration|keratinocyte proliferation	cytosol|focal adhesion|ruffle membrane	binding			ovary(1)|pancreas(1)|skin(1)	3						AGTTTACTTACCTAAATAATT	0.289													25	52					0	0	1	0	0		G	6075585	G	G	6075585	5	3	70	1	0	0	0	0	0	0	1	0	5831	521	18	5	921	5	FERMT1	20	6075585	Splice_Site	SNP	C	TCGA-BR-8368-01A-11D-2340-08	53482	6075585	56949935	947	46963											
PAK7	57144	broad.mit.edu	37	chr20	9546559	9546559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcattgaaaagcagttctCgtctctgttgcttccggagg	7	13	10	11	2	3	1	1	1	2	0	6	2	4	2	2	2	2	4	2	2	2	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:9546559C>T	uc002wnl.2	-	6	2008	c.1463G>A	c.(1462-1464)CGA>CAA	p.R488Q	PAK7_uc002wnk.2_Missense_Mutation_p.R488Q|PAK7_uc002wnj.2_Missense_Mutation_p.R488Q|PAK7_uc010gby.1_Missense_Mutation_p.R488Q	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	488	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			AAGCAGTTCTCGTCTCTGTTG	0.433													87	143					0	0	1	0	0		T	9546559	T	T	9546559	3	4	70	1	0	0	0	0	1	0	0	0	11424	884	31	1	720	1	PAK7	20	9546559	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3470974	9546559	53478961	948	46964											
OTOR	56914	broad.mit.edu	37	chr20	16730619	16730619	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttggtcaaggaacagcgTgtgtaccaggaagctaccaa	14	7	11	9	1	1	0	1	0	0	0	1	2	1	2	2	3	6	2	2	3	7	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:16730619T>G	uc002wpj.2	+	3	371	c.327T>G	c.(325-327)CGT>CGG	p.R109R	OTOR_uc002wpk.2_RNA	NM_020157	NP_064542	Q9NRC9	OTOR_HUMAN	otoraplin precursor	109	SH3.				sensory perception of sound	extracellular region				ovary(1)|central_nervous_system(1)	2						AGGAACAGCGTGTGTACCAGG	0.483													16	29					0	0	1	0	0		G	16730619	G	G	16730619	2	3	70	1	0	0	0	0	0	0	0	1	11327	1683	59	5		5	OTOR	20	16730619	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	7184060	16730619	46294901	949	46965											
SLC24A3	57419	broad.mit.edu	37	chr20	19674007	19674007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgctgggagaaatggttcAtggtgacgtttgcttcctcc	6	12	13	10	3	1	2	1	1	0	1	3	3	3	2	2	3	1	4	2	3	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:19674007A>G	uc002wrl.2	+	13	1626	c.1429A>G	c.(1429-1431)ATG>GTG	p.M477V		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	477	Cytoplasmic (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						GAAATGGTTCATGGTGACGTT	0.517													23	31					0	0	1	0	0		G	19674007	G	G	19674007	3	3	70	1	0	0	0	0	1	0	0	0	14492	217	8	3	1479	3	SLC24A3	20	19674007	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	2943388	19674007	43351513	950	46966											
PLK1S1	55857	broad.mit.edu	37	chr20	21143725	21143725	+	Frame_Shift_Del	DEL	A	-	-																															aagagttgccctatccactgAaaaaaattgtattttgcaaa																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:21143725delA	uc002wsb.2	+	6	1410	c.1277delA	c.(1276-1278)GAAfs	p.E426fs	PLK1S1_uc010zsh.1_Frame_Shift_Del_p.E323fs|PLK1S1_uc010zsi.1_Frame_Shift_Del_p.E293fs|PLK1S1_uc010zsj.1_RNA|uc002wsc.2_Intron|PLK1S1_uc002wsd.2_RNA	NM_018474	NP_060944	Q2M2Z5	KIZ_HUMAN	polo-like kinase 1 substrate 1 isoform 1	426					spindle organization	centrosome	protein kinase binding				0						CTATCCACTGAAAAAAATTGT	0.408													48	89	---	---	---	---						.	-	21143725	-	-	21143725	7	5	70	1	0	1	0	1	0	0	0	0	12114	246	9	0	1299	0	PLK1S1	20	21143725	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	1469718	21143725	41881795	951	46967											
NXT1	29107	broad.mit.edu	37	chr20	23334925	23334926	+	Frame_Shift_Ins	INS	-	A	A																															ctgccagcctgttcatgatgINSaagccacaccaagccagacc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:23334925_23334926insA	uc002wsx.1	+	2	634_635	c.247_248insA	c.(247-249)GAAfs	p.E83fs		NM_013248	NP_037380	Q9UKK6	NXT1_HUMAN	NTF2-like export factor 1	83	NTF2.					cytoplasm|nuclear pore				ovary(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					TGTTCATGATGAAGCCACACCA	0.48													52	86	---	---	---	---						.	A	23334926	A	A	23334925	7	5	70	1	0	1	1	0	0	0	0	0	10813	1291	45	0	249	0	NXT1	20	23334925	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	2191200	23334925	39690595	952	46968											
GZF1	64412	broad.mit.edu	37	chr20	23346365	23346366	+	Missense_Mutation	DNP	GC	AT	AT																															ccaggttctcgcagccgtccGcgctcaagacgcacatgagg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:23346365_23346366GC>AT	uc010gdb.2	+	3	1519_1520	c.1345_1346GC>AT	c.(1345-1347)GCG>ATG	p.A449M	GZF1_uc002wsy.2_Missense_Mutation_p.A449M|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Missense_Mutation_p.A449M	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	449	C2H2-type 5.				transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					GCAGCCGTCCGCGCTCAAGACG	0.663													9	8					0	0	1	0	0		AT	23346366	AT	AT	23346365	3	1	70	1	0	0	0	0	1	0	0	0	6930	1087	38	1	1347	1	GZF1	20	23346365	Missense_Mutation	DNP	GC	TCGA-BR-8368-01A-11D-2340-08	11440	23346365	39679155	953	46969											
ZNF337	26152	broad.mit.edu	37	chr20	25655896	25655896	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctcctttgagtgtatccgCcagtggtgtctggtgagact	5	15	12	9	1	2	2	0	2	2	1	4	3	3	2	3	2	0	1	3	2	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:25655896C>A	uc002wva.2	-	4	2550	c.2028G>T	c.(2026-2028)TGG>TGT	p.W676C	uc002wuz.2_RNA|ZNF337_uc010ztg.1_Missense_Mutation_p.W644C|ZNF337_uc002wvb.2_Missense_Mutation_p.W676C|ZNF337_uc002wvc.2_Missense_Mutation_p.W676C	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	676	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGTGTATCCGCCAGTGGTGTC	0.512													42	71					2.6416e-12	2.80328e-12	1	1	0		A	25655896	A	A	25655896	3	1	70	1	0	0	0	0	1	0	0	0	17878	740	26	5	231	5	ZNF337	20	25655896	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2309531	25655896	37369624	954	46970											
CPNE1	8904	broad.mit.edu	37	chr20	34218844	34218844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcatagtcctgaaccacgCtgcccacactccacagtgcc	10	7	7	17	1	1	1	1	1	0	0	3	1	3	1	5	0	3	1	5	0	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:34218844C>T	uc002xdf.2	-	13	1337	c.974G>A	c.(973-975)AGC>AAC	p.S325N	CPNE1_uc002xdc.2_5'UTR|CPNE1_uc010zvj.1_Missense_Mutation_p.S330N|CPNE1_uc002xde.2_Missense_Mutation_p.S301N|CPNE1_uc002xdg.2_Missense_Mutation_p.S325N|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Missense_Mutation_p.S325N|CPNE1_uc002xdi.2_Missense_Mutation_p.S325N|CPNE1_uc002xdj.2_Missense_Mutation_p.S325N|CPNE1_uc002xdk.2_Missense_Mutation_p.S325N|CPNE1_uc002xdl.2_Missense_Mutation_p.S325N|CPNE1_uc002xdm.2_Missense_Mutation_p.S325N|CPNE1_uc010gfk.1_3'UTR	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	325	VWFA.				lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			CTGAACCACGCTGCCCACACT	0.562													23	68					0	0	1	0	0		T	34218844	T	T	34218844	3	4	70	1	0	0	0	0	1	0	0	0	3814	797	28	2	663	2	CPNE1	20	34218844	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	8562948	34218844	28806676	955	46971											
DLGAP4	22839	broad.mit.edu	37	chr20	35064650	35064650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggcgacgaggacagcgacGagtccggcggcagccccaag	9	2	17	13	6	0	0	0	0	0	0	1	5	1	1	3	4	2	1	3	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:35064650G>A	uc002xff.2	+	4	1573	c.1138G>A	c.(1138-1140)GAG>AAG	p.E380K	DLGAP4_uc010zvp.1_Missense_Mutation_p.E380K	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	380					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				GGACAGCGACGAGTCCGGCGG	0.721													5	15					0	0	1	0	0		A	35064650	A	A	35064650	3	1	70	1	0	0	0	0	1	0	0	0	4568	1059	37	1	1144	1	DLGAP4	20	35064650	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	845806	35064650	27960870	956	46972											
ACTR5	79913	broad.mit.edu	37	chr20	37396225	37396225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggagatgagacccttcCggtcttcttttcaggtactg	6	15	11	9	1	3	2	1	1	2	2	4	4	4	2	2	3	1	2	2	3	1	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:37396225C>T	uc002xjd.2	+	8	1577	c.1552C>T	c.(1552-1554)CGG>TGG	p.R518W		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	518					DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)				GAGACCCTTCCGGTCTTCTTT	0.383													28	51					0	0	1	0	0		T	37396225	T	T	37396225	3	4	70	1	0	0	0	0	1	0	0	0	215	643	23	1	1582	1	ACTR5	20	37396225	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2331575	37396225	25629295	957	46973											
LPIN3	64900	broad.mit.edu	37	chr20	39976275	39976275	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccttctttgttcaggagctGgagagcgatgatgtgagtct	7	13	14	7	1	3	3	1	2	2	1	3	6	3	4	1	2	2	2	1	2	0	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:39976275G>A	uc002xjx.2	+	3	367	c.276G>A	c.(274-276)CTG>CTA	p.L92L	LPIN3_uc010ggh.2_Silent_p.L92L|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	92	N-LIP.				fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				TTCAGGAGCTGGAGAGCGATG	0.577													7	16					0	0	1	0	0		A	39976275	A	A	39976275	2	1	70	1	0	0	0	0	0	0	0	1	8938	1335	47	4		4	LPIN3	20	39976275	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2580050	39976275	23049245	958	46974											
KCNK15	60598	broad.mit.edu	37	chr20	43379180	43379180	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctacatcctcctggggCtcacggtcattggcgccttc	4	12	9	16	2	3	0	2	0	1	0	7	0	6	0	4	4	1	1	4	4	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:43379180C>A	uc002xmr.2	+	2	758	c.694C>A	c.(694-696)CTC>ATC	p.L232I		NM_022358	NP_071753	Q9H427	KCNKF_HUMAN	potassium family, subfamily K, member 15	232	Helical; (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity				0		Myeloproliferative disorder(115;0.0122)				CCTCCTGGGGCTCACGGTCAT	0.642													22	48					2.21704e-12	2.35495e-12	1	1	0		A	43379180	A	A	43379180	3	1	70	1	0	0	0	0	1	0	0	0	8078	797	28	5	700	5	KCNK15	20	43379180	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3402905	43379180	19646340	959	46975											
KCNS1	3787	broad.mit.edu	37	chr20	43723770	43723770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggatgccccctaggatgCagcctgaggctgccagcttg	7	7	13	14	0	0	1	0	1	0	0	0	3	0	3	5	3	5	3	5	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:43723770C>T	uc002xnc.2	-	5	1719	c.1322G>A	c.(1321-1323)TGC>TAC	p.C441Y	KCNS1_uc002xnd.2_Missense_Mutation_p.C441Y	NM_002251	NP_002242	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel	441	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity|protein binding				0		Myeloproliferative disorder(115;0.0122)				CCCTAGGATGCAGCCTGAGGC	0.622													22	54					0	0	1	0	0		T	43723770	T	T	43723770	3	4	70	1	0	0	0	0	1	0	0	0	8104	710	25	2	262	2	KCNS1	20	43723770	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	344590	43723770	19301750	960	46976											
C20orf165	128497	broad.mit.edu	37	chr20	44515176	44515176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctacaagcaggagccaggagGctggccccttttagatctca	10	8	11	12	0	1	1	1	0	1	1	2	3	1	3	3	4	3	2	3	4	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:44515176G>A	uc002xqf.2	-	2	673	c.664C>T	c.(664-666)CCT>TCT	p.P222S		NM_080608	NP_542175	Q9BR10	CT165_HUMAN	chromosome 20 open reading frame 165	222						integral to membrane					0		Myeloproliferative disorder(115;0.0122)				GAGCCAGGAGGCTGGCCCCTT	0.592													54	133					0	0	1	0	0		A	44515176	A	A	44515176	3	1	70	1	0	0	0	0	1	0	0	0	2097	1203	42	2	23	2	C20orf165	20	44515176	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	791406	44515176	18510344	961	46977											
PCIF1	63935	broad.mit.edu	37	chr20	44569534	44569534	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctgaagatgtggggtacGtcccctgaagataaacagca	13	7	12	9	2	0	4	0	2	0	2	1	4	1	4	2	2	3	3	2	2	5	2	rs142777416	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:44569534G>A	uc002xqs.2	+	6	788	c.474G>A	c.(472-474)ACG>ACA	p.T158T		NM_022104	NP_071387	Q9H4Z3	PCIF1_HUMAN	phosphorylated CTD interacting factor 1	158						nucleus				skin(1)	1						TGTGGGGTACGTCCCCTGAAG	0.572													7	80					0	0	1	0	0		A	44569534	A	A	44569534	2	1	70	1	0	0	0	0	0	0	0	1	11599	1132	40	1		1	PCIF1	20	44569534	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	54358	44569534	18455986	962	46978											
NCOA5	57727	broad.mit.edu	37	chr20	44691344	44691344	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcagagctgctattggcCgtcactgtgccactattgaa	9	11	11	10	1	1	2	1	1	0	1	1	3	1	2	2	1	4	3	2	1	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:44691344C>A	uc002xrd.2	-	7	1863	c.1335G>T	c.(1333-1335)ACG>ACT	p.T445T	NCOA5_uc002xrc.2_3'UTR|NCOA5_uc002xre.2_Silent_p.T445T	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	445					regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				TGCTATTGGCCGTCACTGTGC	0.557													31	109					5.91797e-21	6.4192e-21	1	1	0		A	44691344	A	A	44691344	2	1	70	1	0	0	0	0	0	0	0	1	10251	639	23	5		5	NCOA5	20	44691344	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	121810	44691344	18334176	963	46979											
NCOA3	8202	broad.mit.edu	37	chr20	46265284	46265284	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtataacttcttgtggggaCggaaatgttgtcaagcagga	12	11	13	5	1	2	0	1	0	1	0	2	3	2	3	0	4	2	3	0	4	4	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:46265284C>T	uc002xtk.2	+	12	2359	c.2154C>T	c.(2152-2154)GAC>GAT	p.D718D	NCOA3_uc010ght.1_Silent_p.D728D|NCOA3_uc002xtl.2_Silent_p.D718D|NCOA3_uc002xtm.2_Silent_p.D718D|NCOA3_uc002xtn.2_Silent_p.D718D|NCOA3_uc010zyc.1_Silent_p.D513D	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	718					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						CTTGTGGGGACGGAAATGTTG	0.473													31	50					0	0	1	0	0		T	46265284	T	T	46265284	2	4	70	1	0	0	0	0	0	0	0	1	10249	535	19	1		1	NCOA3	20	46265284	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1573940	46265284	16760236	964	46980											
MOCS3	27304	broad.mit.edu	37	chr20	49576279	49576279	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggctcgactgtgcagcttgCggggaacggcccactgtgac	7	7	15	12	3	0	1	0	1	0	0	1	3	0	2	1	4	4	3	1	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:49576279C>T	uc002xvy.1	+	1	917	c.900C>T	c.(898-900)TGC>TGT	p.C300C	DPM1_uc002xvw.1_5'Flank|DPM1_uc002xvx.1_5'Flank	NM_014484	NP_055299	O95396	MOCS3_HUMAN	molybdenum cofactor synthesis 3	300		Zinc (By similarity).			enzyme active site formation via L-cysteine persulfide|Mo-molybdopterin cofactor biosynthetic process|tRNA thio-modification|tRNA wobble uridine modification|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|nucleotidyltransferase activity|protein binding|thiosulfate sulfurtransferase activity|URM1 activating enzyme activity			skin(2)|ovary(1)	3						GTGCAGCTTGCGGGGAACGGC	0.592													28	52					0	0	1	0	0		T	49576279	T	T	49576279	2	4	70	1	0	0	0	0	0	0	0	1	9710	776	27	1		1	MOCS3	20	49576279	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3310995	49576279	13449241	965	46981											
TSHZ2	128553	broad.mit.edu	37	chr20	51870903	51870903	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaacaaaacattaccaaaaAgtgcctttgaaggagccagt	19	7	7	8	0	0	1	0	1	0	0	0	2	0	2	3	1	5	0	3	1	8	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:51870903A>C	uc002xwo.2	+	2	1862	c.906A>C	c.(904-906)AAA>AAC	p.K302N		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	302					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			ATTACCAAAAAGTGCCTTTGA	0.448													30	39					0	0	1	0	0		C	51870903	C	C	51870903	3	2	70	1	0	0	0	0	1	0	0	0	16650	69	3	5	912	5	TSHZ2	20	51870903	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	2294624	51870903	11154617	966	46982											
MC3R	4159	broad.mit.edu	37	chr20	54824313	54824313	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctgcaacctcctggccatCgccgtcgacaggtacgtcac	8	8	9	16	4	2	0	1	0	1	0	5	1	3	0	4	2	3	2	4	2	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:54824313C>T	uc002xxb.2	+	1	526	c.414C>T	c.(412-414)ATC>ATT	p.I138I		NM_019888	NP_063941	P41968	MC3R_HUMAN	melanocortin 3 receptor	175	Helical; Name=3; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|protein binding			ovary(2)|breast(2)	4			Colorectal(105;0.202)			TCCTGGCCATCGCCGTCGACA	0.567													42	47					0	0	1	0	0		T	54824313	T	T	54824313	2	4	70	1	0	0	0	0	0	0	0	1	9383	874	31	1		1	MC3R	20	54824313	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2953410	54824313	8201207	967	46983											
GNAS	2778	broad.mit.edu	37	chr20	57415590	57415590	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgagaccgagcctgaagaCgatcgcggcccggtggtgcc	7	4	15	15	6	0	3	0	1	0	2	1	6	0	3	5	3	2	0	5	3	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:57415590C>T	uc002xzt.2	+	1	796	c.429C>T	c.(427-429)GAC>GAT	p.D143D	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			AGCCTGAAGACGATCGCGGCC	0.662			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			25	39					0	0	1	0	0		T	57415590	T	T	57415590	2	4	70	1	0	0	0	0	0	0	0	1	6525	535	19	1		1	GNAS	20	57415590	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2591277	57415590	5609930	968	46984											
CDH4	1002	broad.mit.edu	37	chr20	60508125	60508125	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcattgaccccgaggaCgacgtccgcgacaacatcct	9	7	9	16	5	1	1	1	1	0	0	3	5	3	2	4	1	2	1	4	1	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:60508125C>T	uc002ybn.1	+	14	2336	c.2322C>T	c.(2320-2322)GAC>GAT	p.D774D	CDH4_uc002ybp.1_Silent_p.D700D	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	774	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			ACCCCGAGGACGACGTCCGCG	0.662													15	35					0	0	1	0	0		T	60508125	T	T	60508125	2	4	70	1	0	0	0	0	0	0	0	1	3115	535	19	1		1	CDH4	20	60508125	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3092535	60508125	2517395	969	46985											
BIRC7	79444	broad.mit.edu	37	chr20	61870935	61870935	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagcccccgtccgcagccGcgtgcgcaccttcctgtcct	4	7	10	20	5	0	1	0	0	0	1	3	1	3	1	7	0	3	2	7	0	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:61870935G>C	uc002yej.2	+	6	1048	c.875G>C	c.(874-876)CGC>CCC	p.R292P	BIRC7_uc010gkc.1_3'UTR|BIRC7_uc002yei.2_Missense_Mutation_p.R274P	NM_139317	NP_647478	Q96CA5	BIRC7_HUMAN	livin inhibitor of apoptosis isoform alpha	292					activation of JUN kinase activity|anti-apoptosis|DNA fragmentation involved in apoptotic nuclear change	cytoplasm|nucleus	enzyme binding|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3	all_cancers(38;2.72e-09)					GTCCGCAGCCGCGTGCGCACC	0.731													7	14					0	0	1	0	0		C	61870935	C	C	61870935	3	2	70	1	0	0	0	0	1	0	0	0	1440	1087	38	5	897	5	BIRC7	20	61870935	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1362810	61870935	1154585	970	46986											
KCNQ2	3785	broad.mit.edu	37	chr20	62044868	62044868	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagtactgctcgatgacGtccatcacgtcgtagggccg	7	9	13	12	5	1	2	1	2	0	0	4	3	2	2	2	1	2	4	2	1	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr20:62044868G>A	uc002yey.1	-	15	1875	c.1698C>T	c.(1696-1698)GAC>GAT	p.D566D	KCNQ2_uc002yez.1_Silent_p.D535D|KCNQ2_uc002yfa.1_Silent_p.D548D|KCNQ2_uc002yfb.1_Silent_p.D538D	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	566	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	GCTCGATGACGTCCATCACGT	0.637													42	55					0	0	1	0	0		A	62044868	A	A	62044868	2	1	70	1	0	0	0	0	0	0	0	1	8099	1136	40	1		1	KCNQ2	20	62044868	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	173933	62044868	980652	971	46987											
ADAMTS5	11096	broad.mit.edu	37	chr21	28315748	28315748	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggctgaagtgcatttggaCcagggcttagatgcatcaat	10	11	13	7	0	1	2	1	1	0	1	1	3	1	3	1	3	2	4	1	3	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr21:28315748C>T	uc002ymg.2	-	3	2085	c.1356G>A	c.(1354-1356)TGG>TGA	p.W452*		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	452	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						TGCATTTGGACCAGGGCTTAG	0.433													9	15					0	0	1	0	0		T	28315748	T	T	28315748	4	4	70	1	0	0	0	0	0	1	0	0	269	508	18	4	1460	4	ADAMTS5	21	28315748	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08		28315748	19814147	972	46988											
ADAMTS5	11096	broad.mit.edu	37	chr21	28337871	28337871	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccccggccatacaaccgCgccatggacgcgtcagccac	9	3	11	18	5	1	0	1	0	0	0	1	1	1	1	6	3	3	0	6	3	2	1	rs151274956	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr21:28337871C>T	uc002ymg.2	-	1	1569	c.840G>A	c.(838-840)GCG>GCA	p.A280A		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	280	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CATACAACCGCGCCATGGACG	0.682													4	19					0	0	1	0	0		T	28337871	T	T	28337871	2	4	70	1	0	0	0	0	0	0	0	1	269	755	27	1		1	ADAMTS5	21	28337871	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	22123	28337871	19792024	973	46989											
N6AMT1	29104	broad.mit.edu	37	chr21	30250634	30250634	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttgccaccagcccaagctgCctctattccgtgacttccta	7	12	6	16	1	1	1	0	1	1	0	3	1	3	1	6	0	4	1	6	0	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr21:30250634C>G	uc002ymo.1	-	5	444	c.418G>C	c.(418-420)GCA>CCA	p.A140P	N6AMT1_uc002ymp.1_Missense_Mutation_p.A112P|N6AMT1_uc002ymq.1_RNA	NM_013240	NP_037372	Q9Y5N5	HEMK2_HUMAN	N-6 adenine-specific DNA methyltransferase 1	140					positive regulation of cell growth	protein complex	nucleic acid binding|protein binding|protein methyltransferase activity				0						GCCCAAGCTGCCTCTATTCCG	0.383													21	102					0	0	1	0	0		G	30250634	G	G	30250634	3	3	70	1	0	0	0	0	1	0	0	0	10132	739	26	5	234	5	N6AMT1	21	30250634	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1912763	30250634	17879261	974	46990											
OLIG2	10215	broad.mit.edu	37	chr21	34399327	34399327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcccgccggagctgagcGccgagctgcgcggcgctatg	5	5	16	15	7	0	1	0	1	0	0	0	3	0	2	3	2	5	3	3	2	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr21:34399327G>A	uc002yqx.1	+	2	315	c.157G>A	c.(157-159)GCC>ACC	p.A53T		NM_005806	NP_005797	Q13516	OLIG2_HUMAN	oligodendrocyte lineage transcription factor 2	53						cytoplasm|nucleus|plasma membrane	DNA binding			central_nervous_system(2)	2						GGAGCTGAGCGCCGAGCTGCG	0.682			T	TRA@	T-ALL								3	10					0	0	1	0	0		A	34399327	A	A	34399327	3	1	70	1	0	0	0	0	1	0	0	0	10880	1087	38	1	159	1	OLIG2	21	34399327	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4148693	34399327	13730568	975	46991											
ITSN1	6453	broad.mit.edu	37	chr21	35147278	35147278	+	Frame_Shift_Del	DEL	A	-	-																															ttcatttgttcaagaatgatAaaaagcatcaactagaaggg																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr21:35147278delA	uc002yta.1	+	14	1730	c.1462delA	c.(1462-1464)AAAfs	p.K488fs	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_RNA|ITSN1_uc002ysz.2_Frame_Shift_Del_p.K488fs|ITSN1_uc010gmg.2_Frame_Shift_Del_p.K451fs|ITSN1_uc010gmh.2_RNA|ITSN1_uc002ysw.2_Frame_Shift_Del_p.K488fs|ITSN1_uc010gmi.2_Frame_Shift_Del_p.K451fs|ITSN1_uc010gmj.2_Frame_Shift_Del_p.K372fs|ITSN1_uc002ysy.2_Frame_Shift_Del_p.K488fs|ITSN1_uc002ysx.2_Frame_Shift_Del_p.K451fs|ITSN1_uc002ytb.1_Frame_Shift_Del_p.K488fs|ITSN1_uc002ytc.1_Frame_Shift_Del_p.K488fs|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Frame_Shift_Del_p.K451fs|ITSN1_uc010gml.2_RNA|ITSN1_uc002ytj.2_Frame_Shift_Del_p.K488fs|ITSN1_uc010gmm.1_RNA|ITSN1_uc002yte.2_Frame_Shift_Del_p.K422fs	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	488	Potential.|KLERQ.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						CAAGAATGATAAAAAGCATCA	0.313													39	28	---	---	---	---						.	-	35147278	-	-	35147278	7	5	70	1	0	1	0	1	0	0	0	0	7942	363	13	0	1512	0	ITSN1	21	35147278	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	747951	35147278	12982617	976	46992											
ERG	2078	broad.mit.edu	37	chr21	39795450	39795450	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcccaccatcttcccGcctttggccacactgcattc	5	10	8	18	1	1	0	0	0	1	0	3	0	2	0	5	2	2	2	5	2	0	3	rs146525668		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr21:39795450G>A	uc010gnw.2	-	5	586	c.291C>T	c.(289-291)GGC>GGT	p.G97G	ERG_uc002yxa.2_Silent_p.G90G|ERG_uc011aek.1_5'UTR|ERG_uc010gnv.2_5'UTR|ERG_uc010gnx.2_Silent_p.G97G|ERG_uc011ael.1_Silent_p.G97G|ERG_uc002yxb.2_Silent_p.G97G|ERG_uc011aem.1_Silent_p.G90G|ERG_uc002yxc.3_Silent_p.G97G	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	97					cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				CCATCTTCCCGCCTTTGGCCA	0.517													22	22					0	0	1	0	0		A	39795450	A	A	39795450	2	1	70	1	0	0	0	0	0	0	0	1	5230	1074	38	1		1	ERG	21	39795450	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4648172	39795450	8334445	977	46993											
BRWD1	54014	broad.mit.edu	37	chr21	40570895	40570896	+	Frame_Shift_Ins	INS	-	T	T																															tgagtcactcagaatcttggINStttttttaaagaaactcgca																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr21:40570895_40570896insT	uc002yxk.1	-	40	5585_5586	c.5446_5447insA	c.(5446-5448)ACCfs	p.T1816fs	BRWD1_uc010goc.1_Frame_Shift_Ins_p.T459fs|BRWD1_uc002yxl.2_Frame_Shift_Ins_p.T1816fs	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1816					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				CAGAATCTTGGTTTTTTTAAAG	0.386													63	77	---	---	---	---						.	T	40570896	T	T	40570895	7	5	70	1	0	1	1	0	0	0	0	0	1528	1261	44	0	1766	0	BRWD1	21	40570895	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	775445	40570895	7559000	978	46994											
MX2	4600	broad.mit.edu	37	chr21	42771150	42771150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatgtttaatcaggacatcGaaaagttagtagaaggagaa	18	9	11	3	1	1	3	1	0	0	3	2	6	1	4	0	2	0	3	0	2	7	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr21:42771150G>A	uc002yzf.1	+	10	1404	c.1300G>A	c.(1300-1302)GAA>AAA	p.E434K	MX2_uc002yzg.1_Missense_Mutation_p.E157K|MX2_uc010gop.1_Intron	NM_002463	NP_002454	P20592	MX2_HUMAN	myxovirus resistance protein 2	434					response to virus|type I interferon-mediated signaling pathway	cytoplasm|nucleus	GTP binding|GTPase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0222)				TCAGGACATCGAAAAGTTAGT	0.373													39	42					0	0	1	0	0		A	42771150	A	A	42771150	3	1	70	1	0	0	0	0	1	0	0	0	10016	1059	37	1	1334	1	MX2	21	42771150	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2200255	42771150	5358745	979	46995											
ABCG1	9619	broad.mit.edu	37	chr21	43708071	43708071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggttcgggagggcatgtGtgactcagaccacaagagag	11	6	16	8	2	1	3	1	1	0	2	2	5	1	4	1	3	1	2	1	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr21:43708071G>A	uc002zaq.2	+	9	1152	c.1046G>A	c.(1045-1047)TGT>TAT	p.C349Y	ABCG1_uc002zan.2_Missense_Mutation_p.C351Y|ABCG1_uc002zam.2_Missense_Mutation_p.C327Y|ABCG1_uc002zao.2_Missense_Mutation_p.C346Y|ABCG1_uc002zap.2_Missense_Mutation_p.C349Y|ABCG1_uc002zar.2_Missense_Mutation_p.C360Y|ABCG1_uc011aev.1_Missense_Mutation_p.C360Y|ABCG1_uc010gpb.1_Translation_Start_Site	NM_004915	NP_004906	P45844	ABCG1_HUMAN	ATP-binding cassette sub-family G member 1	349	Cytoplasmic (Potential).				amyloid precursor protein catabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|detection of hormone stimulus|high-density lipoprotein particle remodeling|intracellular cholesterol transport|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|positive regulation of cholesterol biosynthetic process|regulation of cholesterol esterification|regulation of transcription, DNA-dependent|response to lipid|reverse cholesterol transport	endoplasmic reticulum membrane|external side of plasma membrane|Golgi membrane|recycling endosome	ADP binding|ATP binding|cholesterol transporter activity|glycoprotein transporter activity|phospholipid transporter activity|protein heterodimerization activity|protein homodimerization activity|sterol-transporting ATPase activity|toxin transporter activity			ovary(2)|central_nervous_system(1)	3					Adenosine triphosphate(DB00171)	GAGGGCATGTGTGACTCAGAC	0.572													48	84					0	0	1	0	0		A	43708071	A	A	43708071	3	1	70	1	0	0	0	0	1	0	0	0	68	1377	48	4	1248	4	ABCG1	21	43708071	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	936921	43708071	4421824	980	46996											
LRRC3	81543	broad.mit.edu	37	chr21	45876981	45876981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccctgcactgcgagtgcGccctgcaggaggccctgtgg	5	6	14	16	2	0	0	0	0	0	0	0	2	0	1	4	3	4	2	4	3	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr21:45876981G>A	uc002zfa.2	+	2	747	c.454G>A	c.(454-456)GCC>ACC	p.A152T		NM_030891	NP_112153	Q9BY71	LRRC3_HUMAN	leucine-rich repeat-containing 3 precursor	152	LRR 4.					integral to membrane	protein binding				0		Breast(209;0.00908)		COAD - Colon adenocarcinoma(84;0.148)|Lung(125;0.195)		CTGCGAGTGCGCCCTGCAGGA	0.632													8	26					0	0	1	0	0		A	45876981	A	A	45876981	3	1	70	1	0	0	0	0	1	0	0	0	9002	1087	38	1	456	1	LRRC3	21	45876981	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2168910	45876981	2252914	981	46997											
C21orf29	54084	broad.mit.edu	37	chr21	45953801	45953801	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accaccgtcagcaggtactcGttcctctgtggagagcgggc	7	8	13	13	3	2	1	1	0	1	1	4	2	3	1	3	3	3	3	3	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr21:45953801G>A	uc002zfe.1	-	3	375	c.309C>T	c.(307-309)AAC>AAT	p.N103N	C21orf29_uc010gpv.1_Silent_p.N35N	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	103	TSP N-terminal.				cell adhesion	extracellular region	structural molecule activity				0						GCAGGTACTCGTTCCTCTGTG	0.413													4	11					0	0	1	0	0		A	45953801	A	A	45953801	2	1	70	1	0	0	0	0	0	0	0	1	2127	1136	40	1		1	C21orf29	21	45953801	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	76820	45953801	2176094	982	46998											
COL6A2	1292	broad.mit.edu	37	chr21	47546124	47546124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtcgctgagaagttcatcGatgacatggaggacgtcctc	9	10	13	9	3	1	2	1	2	0	1	5	6	2	4	1	3	0	2	1	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr21:47546124G>A	uc002zia.1	+	26	2477	c.2395G>A	c.(2395-2397)GAT>AAT	p.D799N	COL6A2_uc002zhy.1_Missense_Mutation_p.D799N|COL6A2_uc002zhz.1_Missense_Mutation_p.D799N|COL6A2_uc002zib.1_Missense_Mutation_p.D205N|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	799	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GAAGTTCATCGATGACATGGA	0.642													72	101					0	0	1	0	0		A	47546124	A	A	47546124	3	1	70	1	0	0	0	0	1	0	0	0	3703	1058	37	1	2493	1	COL6A2	21	47546124	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1592323	47546124	583771	983	46999											
ARVCF	421	broad.mit.edu	37	chr22	19967640	19967640	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatccactgagggcgagcgcCgcaccagccggtccaggctg	7	5	14	15	4	0	1	0	1	0	0	2	2	2	1	5	3	2	2	5	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:19967640C>T	uc002zqz.2	-	6	1293	c.1022G>A	c.(1021-1023)CGG>CAG	p.R341Q	ARVCF_uc002zqy.2_5'Flank|ARVCF_uc002zra.2_3'UTR	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	341					cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					GGGCGAGCGCCGCACCAGCCG	0.746													6	9					0	0	1	0	0		T	19967640	T	T	19967640	3	4	70	1	0	0	0	0	1	0	0	0	1004	652	23	1	1922	1	ARVCF	22	19967640	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08		19967640	31336926	984	47000											
DGCR8	54487	broad.mit.edu	37	chr22	20073637	20073637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggtgcagaggtaatggacGttggctctggtggtgatgga	7	11	19	4	1	1	2	0	1	1	1	1	4	1	4	0	7	1	4	0	7	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:20073637G>A	uc002zri.2	+	2	501	c.151G>A	c.(151-153)GTT>ATT	p.V51I	DGCR8_uc010grz.2_Missense_Mutation_p.V51I|MIR1306_hsa-mir-1306|MI0006443_RNA|DGCR8_uc002zrj.2_5'Flank	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	51	Necessary for nuclear localization and retention.|Necessary for interaction with NCL.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)					GGTAATGGACGTTGGCTCTGG	0.597													23	52					0	0	1	0	0		A	20073637	A	A	20073637	3	1	70	1	0	0	0	0	1	0	0	0	4470	1145	40	1	153	1	DGCR8	22	20073637	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	105997	20073637	31230929	985	47001											
PPM1F	9647	broad.mit.edu	37	chr22	22277735	22277735	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaacttcctggtggggtacGacgtcaaagaagccatcaca	13	7	10	11	2	2	1	2	0	0	1	3	2	3	1	2	3	3	1	2	3	4	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:22277735G>A	uc002zvp.1	-	8	1209	c.1095C>T	c.(1093-1095)GTC>GTT	p.V365V	PPM1F_uc011aik.1_Silent_p.V261V	NM_014634	NP_055449	P49593	PPM1F_HUMAN	protein phosphatase 1F	365					apoptosis|protein dephosphorylation	protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(2)|large_intestine(1)|breast(1)|kidney(1)	5	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.155)		GGTGGGGTACGACGTCAAAGA	0.672													19	29					0	0	1	0	0		A	22277735	A	A	22277735	2	1	70	1	0	0	0	0	0	0	0	1	12361	1045	37	1		1	PPM1F	22	22277735	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2204098	22277735	29026831	986	47002											
ZNF280B	140883	broad.mit.edu	37	chr22	22842147	22842147	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggagtgatggttcagagTcagatgtgctcacagttatg	9	12	15	5	0	3	3	3	1	0	2	3	4	3	4	0	3	1	3	0	3	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:22842147T>A	uc002zwc.1	-	4	2353	c.1577A>T	c.(1576-1578)GAC>GTC	p.D526V	LOC96610_uc011aim.1_Intron	NM_080764	NP_542942	Q86YH2	Z280B_HUMAN	zinc finger protein 280B	526					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		TGGTTCAGAGTCAGATGTGCT	0.378													16	127					0	0	1	0	0		A	22842147	A	A	22842147	3	1	70	1	0	0	0	0	1	0	0	0	17840	1667	58	5	58	5	ZNF280B	22	22842147	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	564412	22842147	28462419	987	47003											
MMP11	4320	broad.mit.edu	37	chr22	24122768	24122768	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgcccccacccatctgtaGgtactggcatggggacgacc	7	6	11	17	2	1	0	0	0	1	0	1	2	1	1	5	4	1	3	5	4	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:24122768G>T	uc002zxx.2	+	4	505	c.483_splice	c.e4-1	p.R161_splice	MMP11_uc002zxy.2_Splice_Site|MMP11_uc002zxz.2_5'Flank	NM_005940	NP_005931	P24347	MMP11_HUMAN	matrix metalloproteinase 11 preproprotein						collagen catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|large_intestine(1)	3		Medulloblastoma(6;9.86e-08)|all_neural(6;0.000318)				CCCATCTGTAGGTACTGGCAT	0.642													19	24					5.35267e-07	5.53944e-07	1	1	0		T	24122768	T	T	24122768	5	4	70	1	0	0	0	0	0	0	1	0	9668	1014	35	5	496	5	MMP11	22	24122768	Splice_Site	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1280621	24122768	27181798	988	47004											
SMARCB1	6598	broad.mit.edu	37	chr22	24176339	24176339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttccaggcggatgaggcGtcttgccaacacggccccgg	6	7	13	15	4	2	1	0	1	2	0	3	2	3	2	4	5	2	0	4	5	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:24176339G>A	uc002zyb.2	+	9	1337	c.1130G>A	c.(1129-1131)CGT>CAT	p.R377H	SMARCB1_uc002zya.2_Intron|SMARCB1_uc002zyc.2_Missense_Mutation_p.R368H|SMARCB1_uc002zyd.2_Missense_Mutation_p.R386H	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	377					cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.R377H(4)|p.?(2)|p.R377fs*10(1)|p.L266_*386del(1)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				CGGATGAGGCGTCTTGCCAAC	0.647			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				5	8					0	0	1	0	0		A	24176339	A	A	24176339	3	1	70	1	0	0	0	0	1	0	0	0	14799	1145	40	1	1164	1	SMARCB1	22	24176339	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	53571	24176339	27128227	989	47005											
SUSD2	56241	broad.mit.edu	37	chr22	24584295	24584295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgcaggaagggcaacaCgtgagaccccccagcccctc	9	2	12	18	3	0	1	0	1	0	1	1	3	0	2	6	2	2	2	6	2	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:24584295C>T	uc002zzn.1	+	14	2488	c.2444C>T	c.(2443-2445)ACG>ATG	p.T815M		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	815	Cytoplasmic (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						AAGGGCAACACGTGAGACCCC	0.657													20	31					0	0	1	0	0		T	24584295	T	T	24584295	3	4	70	1	0	0	0	0	1	0	0	0	15433	550	19	1	2498	1	SUSD2	22	24584295	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	407956	24584295	26720271	990	47006											
CYTSA	23384	broad.mit.edu	37	chr22	24730508	24730508	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccaactcctacagtaaaaAccctcatcaagtcctttgac	14	9	4	14	0	2	1	2	1	0	0	4	1	4	1	4	0	4	1	4	0	6	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:24730508A>G	uc002zzw.2	+	9	2834	c.2527A>G	c.(2527-2529)ACC>GCC	p.T843A	CYTSA_uc002zzv.3_Missense_Mutation_p.T843A|CYTSA_uc011ajq.1_Missense_Mutation_p.T843A	NM_015330	NP_056145	Q69YQ0	CYTSA_HUMAN	cytospin A	843					cell cycle|cell division						0						TACAGTAAAAACCCTCATCAA	0.448													14	90					0	0	1	0	0		G	24730508	G	G	24730508	3	3	70	1	0	0	0	0	1	0	0	0	4212	43	2	3	2553	3	CYTSA	22	24730508	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	146213	24730508	26574058	991	47007											
SGSM1	129049	broad.mit.edu	37	chr22	25308665	25308665	+	Frame_Shift_Del	DEL	C	-	-																															aagaggatgaaccagaacttCccccacggaggcgccatgga																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:25308665delC	uc003abg.2	+	23	3196	c.3039delC	c.(3037-3039)TTCfs	p.F1013fs	SGSM1_uc003abh.2_Frame_Shift_Del_p.F952fs|SGSM1_uc010guu.1_Frame_Shift_Del_p.F958fs|SGSM1_uc003abj.2_Frame_Shift_Del_p.F897fs|SGSM1_uc003abi.1_Frame_Shift_Del_p.F933fs	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	1013	Rab-GAP TBC.					Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						ACCAGAACTTCCCCCACGGAG	0.522													8	9	---	---	---	---						.	-	25308665	-	-	25308665	7	5	70	1	0	1	0	1	0	0	0	0	14247	854	30	0	3129	0	SGSM1	22	25308665	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	578157	25308665	25995901	992	47008											
CCDC157	550631	broad.mit.edu	37	chr22	30762085	30762085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagacgtcttctcccgcgcCgggcctgtgcgcttcccctc	2	10	11	18	5	2	1	0	0	2	1	5	1	3	1	5	1	1	2	5	1	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:30762085C>T	uc011aku.1	+	3	756	c.96C>T	c.(94-96)GCC>GCT	p.A32A	CCDC157_uc011akv.1_Silent_p.A32A	NM_001017437	NP_001017437	Q569K6	CC157_HUMAN	coiled-coil domain containing 157	32										central_nervous_system(1)	1						TCTCCCGCGCCGGGCCTGTGC	0.657													23	48					0	0	1	0	0		T	30762085	T	T	30762085	2	4	70	1	0	0	0	0	0	0	0	1	2792	639	23	1		1	CCDC157	22	30762085	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	5453420	30762085	20542481	993	47009											
SEC14L2	23541	broad.mit.edu	37	chr22	30812384	30812384	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccctcacctgcagtgatcCtggcatctgtaagtatctct	8	12	8	13	0	3	1	1	1	2	0	5	2	4	1	3	1	1	4	3	1	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:30812384C>A	uc003ahr.2	+	11	1246	c.1073C>A	c.(1072-1074)CCT>CAT	p.P358H	SEC14L2_uc003ahq.2_Missense_Mutation_p.P358H|SEC14L2_uc011akx.1_Missense_Mutation_p.P304H|SEC14L2_uc003ahs.2_Missense_Mutation_p.P284H|SEC14L2_uc011aky.1_Missense_Mutation_p.P275H|SEC14L2_uc003aht.2_RNA|SEC14L2_uc003ahu.3_Intron|SEC14L2_uc010gvv.2_RNA|SEC14L2_uc010gvw.1_Intron|MTP18_uc010gvx.1_Missense_Mutation_p.P51H|MTP18_uc003ahv.1_Missense_Mutation_p.P182H|MTP18_uc010gvy.1_Intron	NM_012429	NP_036561	O76054	S14L2_HUMAN	SEC14-like 2 isoform 1	358	GOLD.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	phospholipid binding|transporter activity|vitamin E binding				0					Vitamin E(DB00163)	TGCAGTGATCCTGGCATCTGT	0.557													19	42					2.35188e-11	2.48181e-11	1	1	0		A	30812384	A	A	30812384	3	1	70	1	0	0	0	0	1	0	0	0	14007	681	24	5	1115	5	SEC14L2	22	30812384	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	50299	30812384	20492182	994	47010											
PES1	23481	broad.mit.edu	37	chr22	30980667	30980667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagcacatggagagggcatCgtccaggtcccgcagggcat	10	5	15	11	2	0	1	0	0	0	1	3	3	2	1	2	4	1	4	2	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:30980667C>T	uc003aij.1	-	5	480	c.406G>A	c.(406-408)GAT>AAT	p.D136N	PES1_uc003aik.1_Missense_Mutation_p.D136N|PES1_uc003ail.1_Missense_Mutation_p.D136N|PES1_uc003aim.1_Missense_Mutation_p.D136N|PES1_uc003ain.1_5'UTR|PES1_uc003aio.1_5'UTR	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain	136	Sufficient for nucleolar localization.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						GAGAGGGCATCGTCCAGGTCC	0.617													3	18					0	0	1	0	0		T	30980667	T	T	30980667	3	4	70	1	0	0	0	0	1	0	0	0	11752	884	31	1	1404	1	PES1	22	30980667	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	168283	30980667	20323899	995	47011											
SLC35E4	339665	broad.mit.edu	37	chr22	31032910	31032910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgctgctgctgggccgccGccaccacccacttcagttgg	4	7	13	17	3	1	0	1	0	0	0	1	0	1	0	5	3	2	4	5	3	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:31032910G>A	uc003ais.1	+	1	1118	c.473G>A	c.(472-474)CGC>CAC	p.R158H	SLC35E4_uc003ait.2_Missense_Mutation_p.R146H	NM_001001479	NP_001001479	Q6ICL7	S35E4_HUMAN	solute carrier family 35, member E4	158	DUF6.|Leu-rich.					integral to membrane					0						CTGGGCCGCCGCCACCACCCA	0.682													9	16					0	0	1	0	0		A	31032910	A	A	31032910	3	1	70	1	0	0	0	0	1	0	0	0	14612	1087	38	1	475	1	SLC35E4	22	31032910	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	52243	31032910	20271656	996	47012											
MYH9	4627	broad.mit.edu	37	chr22	36680233	36680233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagtttccggcgggaggCgttggcccgctgggcctcct	2	9	16	14	4	0	0	0	0	0	0	2	1	2	1	4	5	1	4	4	5	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:36680233C>T	uc003apg.2	-	40	5902	c.5671G>A	c.(5671-5673)GCC>ACC	p.A1891T		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1891	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CGGCGGGAGGCGTTGGCCCGC	0.657			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				16	25					0	0	1	0	0		T	36680233	T	T	36680233	3	4	70	1	0	0	0	0	1	0	0	0	10060	768	27	1	219	1	MYH9	22	36680233	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	5647323	36680233	14624333	997	47013											
C22orf23	84645	broad.mit.edu	37	chr22	38340219	38340221	+	In_Frame_Del	DEL	CTT	-	-																															ccttcctaagttcctcactcCttctgtggtcaatgtcttcc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:38340219_38340221delCTT	uc003auj.1	-	7	706_708	c.615_617delAAG	c.(613-618)AGAAGG>AGG	p.205_206RR>R	C22orf23_uc003auk.1_In_Frame_Del_p.205_206RR>R	NM_032561	NP_115950	Q9BZE7	EVG1_HUMAN	hypothetical protein LOC84645	205_206											0	Melanoma(58;0.045)					TTCCTCACTCCTTCTGTGGTCAA	0.552													20	39	---	---	---	---						.	-	38340221	-	-	38340219	7	5	70	1	0	1	0	1	0	0	0	0	2140	681	24	0	40	0	C22orf23	22	38340219	In_Frame_Del	DEL	CTT	TCGA-BR-8368-01A-11D-2340-08	1659986	38340219	12964347	998	47014											
CSNK1E	1454	broad.mit.edu	37	chr22	38698968	38698970	+	In_Frame_Del	DEL	GTT	-	-																															agcagctccatgaccatcacGttgtagtcgccctcagctcc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:38698968_38698970delGTT	uc003avj.2	-	4	493_495	c.232_234delAAC	c.(232-234)AACdel	p.N78del	CSNK1E_uc003avk.2_In_Frame_Del_p.N78del|CSNK1E_uc003avl.1_RNA|CSNK1E_uc003avm.1_In_Frame_Del_p.N78del|CSNK1E_uc003avo.2_In_Frame_Del_p.N78del|CSNK1E_uc003avp.1_In_Frame_Del_p.N78del|CSNK1E_uc003avq.1_In_Frame_Del_p.N78del|LOC400927_uc010gxm.2_RNA	NM_152221	NP_689407	P49674	KC1E_HUMAN	casein kinase 1 epsilon	78	Protein kinase.				DNA repair|G2/M transition of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|signal transduction	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Melanoma(58;0.045)					TGACCATCACGTTGTAGTCGCCC	0.621													27	57	---	---	---	---						.	-	38698970	-	-	38698968	7	5	70	1	0	1	0	1	0	0	0	0	3956	1136	40	0	1044	0	CSNK1E	22	38698968	In_Frame_Del	DEL	GTT	TCGA-BR-8368-01A-11D-2340-08	358749	38698968	12605598	999	47015											
FAM83F	113828	broad.mit.edu	37	chr22	40417883	40417883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgcggcgcccaatggcatgGccagctctgtctccaccgag	6	7	12	16	3	2	0	0	0	2	0	3	1	2	0	4	3	2	2	4	3	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:40417883G>A	uc003ayk.1	+	4	1463	c.1369G>A	c.(1369-1371)GCC>ACC	p.A457T		NM_138435	NP_612444	Q8NEG4	FA83F_HUMAN	hypothetical protein LOC113828	457										breast(1)	1						CAATGGCATGGCCAGCTCTGT	0.652													14	43					0	0	1	0	0		A	40417883	A	A	40417883	3	1	70	1	0	0	0	0	1	0	0	0	5652	1203	42	2	1383	2	FAM83F	22	40417883	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1718915	40417883	10886683	1000	47016											
TNRC6B	23112	broad.mit.edu	37	chr22	40661353	40661353	+	Frame_Shift_Del	DEL	A	-	-																															attcataacactgatggaccAaaaaatggaaacactaactc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:40661353delA	uc011aor.1	+	5	1330	c.1119delA	c.(1117-1119)CCAfs	p.P373fs	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Frame_Shift_Del_p.P373fs|TNRC6B_uc003ayo.2_Frame_Shift_Del_p.P177fs	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	373					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						CTGATGGACCAAAAAATGGAA	0.453													37	49	---	---	---	---						.	-	40661353	-	-	40661353	7	5	70	1	0	1	0	1	0	0	0	0	16366	117	5	0	1258	0	TNRC6B	22	40661353	Frame_Shift_Del	DEL	A	TCGA-BR-8368-01A-11D-2340-08	243470	40661353	10643213	1001	47017											
ACO2	50	broad.mit.edu	37	chr22	41918966	41918966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggttccgagcagatccGcgccaccattgagcgggacg	8	6	13	14	5	0	2	0	1	0	1	3	4	3	3	5	2	2	2	5	2	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:41918966G>A	uc003bac.2	+	10	1293	c.1271G>A	c.(1270-1272)CGC>CAC	p.R424H	ACO2_uc003bad.2_Missense_Mutation_p.R449H	NM_001098	NP_001089	Q99798	ACON_HUMAN	aconitase 2, mitochondrial precursor	424					citrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron ion binding|isocitrate hydro-lyase (cis-aconitate-forming) activity			breast(2)|ovary(1)|lung(1)	4						GAGCAGATCCGCGCCACCATT	0.622													30	51					0	0	1	0	0		A	41918966	A	A	41918966	3	1	70	1	0	0	0	0	1	0	0	0	147	1087	38	1	1309	1	ACO2	22	41918966	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1257613	41918966	9385600	1002	47018											
TCF20	6942	broad.mit.edu	37	chr22	42609415	42609415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtggcctttgagtggctgCaggatcatcctcttgggagc	6	11	15	9	0	2	1	1	1	1	0	3	3	3	3	2	5	2	2	2	5	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:42609415C>T	uc003bcj.1	-	1	2031	c.1897G>A	c.(1897-1899)GCA>ACA	p.A633T	TCF20_uc003bck.1_Missense_Mutation_p.A633T|TCF20_uc003bnt.2_Missense_Mutation_p.A633T	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	633					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						TGAGTGGCTGCAGGATCATCC	0.542													35	66					0	0	1	0	0		T	42609415	T	T	42609415	3	4	70	1	0	0	0	0	1	0	0	0	15715	710	25	2	4023	2	TCF20	22	42609415	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	690449	42609415	8695151	1003	47019											
TCF20	6942	broad.mit.edu	37	chr22	42611137	42611137	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagctgctgctcctcgtcGtccaccaccactgccactgc	6	8	8	19	2	0	0	0	0	0	0	4	0	2	0	5	0	6	4	5	0	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:42611137G>A	uc003bcj.1	-	1	309	c.175C>T	c.(175-177)CGA>TGA	p.R59*	TCF20_uc003bck.1_Nonsense_Mutation_p.R59*|TCF20_uc003bnt.2_Nonsense_Mutation_p.R59*	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	59					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						gctcctcgtcgtccaccacca	0.303													14	21					0	0	1	0	0		A	42611137	A	A	42611137	4	1	70	1	0	0	0	0	0	1	0	0	15715	1153	40	1	5745	1	TCF20	22	42611137	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1722	42611137	8693429	1004	47020											
SMC1B	27127	broad.mit.edu	37	chr22	45779402	45779402	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagattctttaactctttcTcatcccagcatctagccttg	8	17	4	12	0	4	1	1	0	4	1	6	1	5	1	2	0	3	1	2	0	3	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:45779402T>G	uc003bgc.2	-	12	2055	c.2003A>C	c.(2002-2004)GAG>GCG	p.E668A	SMC1B_uc003bgd.2_Missense_Mutation_p.E668A|SMC1B_uc003bge.1_Missense_Mutation_p.E451A	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	668	Potential.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TAACTCTTTCTCATCCCAGCA	0.348													15	76					0	0	1	0	0		G	45779402	G	G	45779402	3	3	70	1	0	0	0	0	1	0	0	0	14807	1551	54	5	1760	5	SMC1B	22	45779402	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	3168265	45779402	5525164	1005	47021											
CELSR1	9620	broad.mit.edu	37	chr22	46793727	46793728	+	Frame_Shift_Ins	INS	-	C	C																															gtggcgacgttggtgggcgtINScccccccatcctcactccct																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:46793727_46793728insC	uc003bhw.1	-	12	5544_5545	c.5544_5545insG	c.(5542-5547)GGGACGfs	p.G1848fs	CELSR1_uc011arc.1_Frame_Shift_Ins_p.G169fs	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1848_1849	Extracellular (Potential).|Laminin G-like 2.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TTGGTGGGCGTCCCCCCCATCC	0.599													3	5	---	---	---	---						.	C	46793728	C	C	46793727	7	5	70	1	0	1	1	0	0	0	0	0	3224	1667	58	0	3595	0	CELSR1	22	46793727	Frame_Shift_Ins	INS	-	TCGA-BR-8368-01A-11D-2340-08	1014325	46793727	4510839	1006	47022											
CELSR1	9620	broad.mit.edu	37	chr22	46931661	46931661	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgttgagccccacgtcctcGggcacctggaccacgtagtt	6	9	12	14	3	0	1	0	1	0	0	2	2	1	2	5	2	1	4	5	2	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:46931661G>A	uc003bhw.1	-	1	1407	c.1407C>T	c.(1405-1407)CCC>CCT	p.P469P		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	469	Extracellular (Potential).|Cadherin 3.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CCACGTCCTCGGGCACCTGGA	0.657													13	24					0	0	1	0	0		A	46931661	A	A	46931661	2	1	70	1	0	0	0	0	0	0	0	1	3224	1103	39	1		1	CELSR1	22	46931661	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	137934	46931661	4372905	1007	47023											
TUBGCP6	85378	broad.mit.edu	37	chr22	50660293	50660293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctctgggtgctcagggcccGgagacgtgacctgaaacaca	9	6	13	13	2	2	3	1	2	1	1	2	4	2	3	3	3	2	1	3	3	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:50660293G>A	uc003bkb.1	-	16	3007	c.2495C>T	c.(2494-2496)CCG>CTG	p.P832L	TUBGCP6_uc003bka.1_5'UTR|TUBGCP6_uc010har.1_Missense_Mutation_p.P824L|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hat.1_Missense_Mutation_p.P28L	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	832					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CTCAGGGCCCGGAGACGTGAC	0.627													11	16					0	0	1	0	0		A	50660293	A	A	50660293	3	1	70	1	0	0	0	0	1	0	0	0	16796	1116	39	1	3004	1	TUBGCP6	22	50660293	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3728632	50660293	644273	1008	47024											
MAPK8IP2	23542	broad.mit.edu	37	chr22	51043425	51043425	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggggacacctcgccggaCagccctgacctcactttctc	6	8	10	17	3	2	1	1	1	1	0	5	3	2	3	4	3	1	0	4	3	0	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chr22:51043425C>A	uc003bmx.2	+	6	1815	c.1698C>A	c.(1696-1698)GAC>GAA	p.D566E	MAPK8IP2_uc003bmy.2_Missense_Mutation_p.D539E|MAPK8IP2_uc011asc.1_5'Flank	NM_012324	NP_036456	Q13387	JIP2_HUMAN	mitogen-activated protein kinase 8 interacting	566					behavioral fear response|dendrite morphogenesis|MAPKKK cascade|nonassociative learning|positive regulation of anti-apoptosis|regulation of excitatory postsynaptic membrane potential|regulation of JNK cascade|regulation of receptor activity|regulation of synaptic transmission, glutamatergic|signal complex assembly|social behavior	cytoplasm|postsynaptic density	beta-amyloid binding|kinesin binding|MAP-kinase scaffold activity|protein kinase activator activity|protein kinase binding			large_intestine(2)|central_nervous_system(1)	3		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		OV - Ovarian serous cystadenocarcinoma(4;1.28e-70)|Epithelial(4;3.46e-65)|GBM - Glioblastoma multiforme(4;4.83e-06)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CCTCGCCGGACAGCCCTGACC	0.662													11	35					3.86212e-05	3.94974e-05	1	1	0		A	51043425	A	A	51043425	3	1	70	1	0	0	0	0	1	0	0	0	9303	478	17	5	1805	5	MAPK8IP2	22	51043425	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	383132	51043425	261141	1009	47025											
IL3RA	3563	broad.mit.edu	37	chrX	1471219	1471219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccgcttaccgcagcaggCgtcaacagtacgagtgtctt	9	10	10	12	4	2	0	1	0	1	0	2	1	2	0	2	1	5	4	2	1	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:1471219C>T	uc004cps.2	+	6	785	c.436C>T	c.(436-438)CGT>TGT	p.R146C	IL3RA_uc011mhd.1_Missense_Mutation_p.R68C	NM_002183	NP_002174	P26951	IL3RA_HUMAN	interleukin 3 receptor, alpha precursor	146	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-3 receptor activity			skin(2)|lung(1)	3		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CCGCAGCAGGCGTCAACAGTA	0.597													81	129					0	0	1	0	0		T	1471219	T	T	1471219	3	4	70	1	0	0	0	0	1	0	0	0	7711	768	27	1	454	1	IL3RA	23	1471219	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08		1471219	153799341	1010	47026											
P2RY8	286530	broad.mit.edu	37	chrX	1585026	1585026	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccaggtccctgcacacgcGgccaccgcgtaacgacggcg	8	3	13	17	7	0	0	0	0	0	0	1	1	1	0	4	3	3	2	4	3	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:1585026G>A	uc004cpz.2	-	2	674	c.426C>T	c.(424-426)GCC>GCT	p.A142A		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	142	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CTGCACACGCGGCCACCGCGT	0.687			T	CRLF2	B-ALL|Downs associated ALL								6	6					0	0	1	0	0		A	1585026	A	A	1585026	2	1	70	1	0	0	0	0	0	0	0	1	11374	1103	39	1		1	P2RY8	23	1585026	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	113807	1585026	153685534	1011	47027											
DHRSX	207063	broad.mit.edu	37	chrX	2343243	2343243	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaaagtcatcacctatgAtaacatgcatgccaagtctc	14	11	6	10	0	3	1	2	1	1	0	4	1	3	1	2	0	3	2	2	0	5	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:2343243A>G	uc004cqf.3	-	2	261	c.212T>C	c.(211-213)ATC>ACC	p.I71T		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	71	NAD or NADP (By similarity).						binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				ATCACCTATGATAACATGCAT	0.328													50	55					0	0	1	0	0		G	2343243	G	G	2343243	3	3	70	1	0	0	0	0	1	0	0	0	4505	333	12	3	804	3	DHRSX	23	2343243	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	758217	2343243	152927317	1012	47028											
MXRA5	25878	broad.mit.edu	37	chrX	3235851	3235851	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggtagacagtgacgtcctgGtagtgggaggctaggatttg	9	10	17	5	1	0	2	0	1	0	1	1	4	1	4	1	5	0	3	1	5	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:3235851G>A	uc004crg.3	-	6	6028	c.5871C>T	c.(5869-5871)TAC>TAT	p.Y1957Y		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1957	Ig-like C2-type 4.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TGACGTCCTGGTAGTGGGAGG	0.582													32	55					0	0	1	0	0		A	3235851	A	A	3235851	2	1	70	1	0	0	0	0	0	0	0	1	10021	1256	44	4		4	MXRA5	23	3235851	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	892608	3235851	152034709	1013	47029											
WWC3	55841	broad.mit.edu	37	chrX	10078029	10078029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggagctgcggcgtgcaCgggccacctccgcacagggc	7	3	17	14	4	0	0	0	0	0	0	1	2	1	2	3	5	3	3	3	5	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:10078029C>T	uc004csx.3	+	9	1141	c.943C>T	c.(943-945)CGG>TGG	p.R315W	WWC3_uc010nds.2_Translation_Start_Site|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	315	Potential.									ovary(4)	4						GCGGCGTGCACGGGCCACCTC	0.677													16	23					0	0	1	0	0		T	10078029	T	T	10078029	3	4	70	1	0	0	0	0	1	0	0	0	17439	527	19	1	973	1	WWC3	23	10078029	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	6842178	10078029	145192531	1014	47030											
GRPR	2925	broad.mit.edu	37	chrX	16170715	16170715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagagtaccaacccctccGtggccacctttagcctcatc	9	9	6	17	1	2	1	2	0	0	1	4	1	3	1	7	1	3	1	7	1	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:16170715G>A	uc004cxj.2	+	3	1755	c.1102G>A	c.(1102-1104)GTG>ATG	p.V368M		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	368	Cytoplasmic (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					CAACCCCTCCGTGGCCACCTT	0.537													91	125					0	0	1	0	0		A	16170715	A	A	16170715	3	1	70	1	0	0	0	0	1	0	0	0	6824	1145	40	1	1112	1	GRPR	23	16170715	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	6092686	16170715	139099845	1015	47031											
RBBP7	5931	broad.mit.edu	37	chrX	16887283	16887285	+	In_Frame_Del	DEL	TTC	-	-																															ggtcatatagaaacggtgtaTtcttcttccagattttatat																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:16887283_16887285delTTC	uc004cxt.2	-	2	433_435	c.75_77delGAA	c.(73-78)AAGAAT>AAT	p.K25del	RBBP7_uc004cxs.1_In_Frame_Del_p.K69del|RBBP7_uc004cxu.2_In_Frame_Del_p.K25del	NM_002893	NP_002884	Q16576	RBBP7_HUMAN	retinoblastoma binding protein 7	25					cell proliferation|cellular heat acclimation|CenH3-containing nucleosome assembly at centromere|DNA replication|multicellular organismal development|negative regulation of cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex|NuRD complex	protein binding			upper_aerodigestive_tract(1)|ovary(1)	2	Hepatocellular(33;0.0997)					AAACGGTGTATTCTTCTTCCAGA	0.433													49	74	---	---	---	---						.	-	16887285	-	-	16887283	7	5	70	1	0	1	0	1	0	0	0	0	13129	1493	52	0	1244	0	RBBP7	23	16887283	In_Frame_Del	DEL	TTC	TCGA-BR-8368-01A-11D-2340-08	716568	16887283	138383277	1016	47032											
MAP3K15	389840	broad.mit.edu	37	chrX	19389099	19389099	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggatgagaatggtgaccgcGgcctgcaccgctcggcggat	7	6	17	11	5	0	2	0	2	0	1	1	5	0	4	3	5	1	2	3	5	1	0	rs143117337		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:19389099G>A	uc004czk.1	-	25	3440	c.1803C>T	c.(1801-1803)GCC>GCT	p.A601A	MAP3K15_uc004czj.1_Silent_p.A561A|MAP3K15_uc004czi.1_Silent_p.A60A	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	1126							ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					TGGTGACCGCGGCCTGCACCG	0.443													33	47					0	0	1	0	0		A	19389099	A	A	19389099	2	1	70	1	0	0	0	0	0	0	0	1	9267	1103	39	1		1	MAP3K15	23	19389099	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2501816	19389099	135881461	1017	47033											
SH3KBP1	30011	broad.mit.edu	37	chrX	19725094	19725094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctggcaccggcgcctccGtcgctcgcctggatgggaaa	6	6	13	16	5	0	0	0	0	0	0	3	2	1	2	5	4	0	2	5	4	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:19725094G>A	uc004czm.2	-	4	611	c.295C>T	c.(295-297)CGG>TGG	p.R99W	SH3KBP1_uc004czl.2_Missense_Mutation_p.R62W	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	99	SH3 2.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						CGGCGCCTCCGTCGCTCGCCT	0.502													20	27					0	0	1	0	0		A	19725094	A	A	19725094	3	1	70	1	0	0	0	0	1	0	0	0	14280	1144	40	1	1778	1	SH3KBP1	23	19725094	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	335995	19725094	135545466	1018	47034											
ZFX	7543	broad.mit.edu	37	chrX	24228818	24228818	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtaccaatgccagtactgCgaatataggtctgcagactc	11	9	9	12	2	1	1	0	0	1	1	2	2	1	1	3	1	5	3	3	1	6	4	rs143557208	byFrequency	TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:24228818C>T	uc004dbf.2	+	9	2001	c.1743C>T	c.(1741-1743)TGC>TGT	p.C581C	ZFX_uc004dbe.2_3'UTR|ZFX_uc011mjv.1_Silent_p.C620C|ZFX_uc010nfz.2_Silent_p.C237C	NM_003410	NP_003401	P17010	ZFX_HUMAN	zinc finger protein, X-linked	581	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(2)	2						GCCAGTACTGCGAATATAGGT	0.428													45	101					0	0	1	0	0		T	24228818	T	T	24228818	2	4	70	1	0	0	0	0	0	0	0	1	17686	776	27	1		1	ZFX	23	24228818	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4503724	24228818	131041742	1019	47035											
PDK3	5165	broad.mit.edu	37	chrX	24483604	24483604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtggctgctgaagcagcCggtgcccaagcagatcgagc	8	5	15	13	3	0	2	0	1	0	1	1	3	0	2	3	3	6	4	3	3	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:24483604C>T	uc004dbg.2	+	1	261	c.32C>T	c.(31-33)CCG>CTG	p.P11L	PDK3_uc004dbh.2_Missense_Mutation_p.P11L	NM_005391	NP_005382	Q15120	PDK3_HUMAN	pyruvate dehydrogenase kinase 3 isoform 2	11					glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|protein binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						CTGAAGCAGCCGGTGCCCAAG	0.682													7	14					0	0	1	0	0		T	24483604	T	T	24483604	3	4	70	1	0	0	0	0	1	0	0	0	11696	652	23	1	34	1	PDK3	23	24483604	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	254786	24483604	130786956	1020	47036											
IL1RAPL1	11141	broad.mit.edu	37	chrX	29301173	29301173	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaacaaattactcccttgcCcaaagtgctggactcagttt	12	11	7	11	0	1	1	1	0	0	1	2	2	2	2	2	1	4	2	2	1	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:29301173C>T	uc004dby.2	+	3	709	c.201C>T	c.(199-201)GCC>GCT	p.A67A		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	67	Ig-like C2-type 1.|Extracellular (Potential).				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						ACTCCCTTGCCCAAAGTGCTG	0.413													40	72					0	0	1	0	0		T	29301173	T	T	29301173	2	4	70	1	0	0	0	0	0	0	0	1	7677	610	22	4		4	IL1RAPL1	23	29301173	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4817569	29301173	125969387	1021	47037											
FAM47A	158724	broad.mit.edu	37	chrX	34148467	34148467	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactcctttactttcttaaaCttttggtcctcatgggttgc	6	18	6	11	0	2	0	1	0	1	0	4	0	4	0	2	2	3	1	2	2	3	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:34148467C>A	uc004ddg.2	-	1	1962	c.1929G>T	c.(1927-1929)AAG>AAT	p.K643N		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	643										ovary(4)|central_nervous_system(1)	5						CTTTCTTAAACTTTTGGTCCT	0.443													36	66					9.65963e-10	1.00987e-09	1	1	0		A	34148467	A	A	34148467	3	1	70	1	0	0	0	0	1	0	0	0	5583	564	20	5	450	5	FAM47A	23	34148467	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4847294	34148467	121122093	1022	47038											
USP9X	8239	broad.mit.edu	37	chrX	41060495	41060497	+	In_Frame_Del	DEL	GAT	-	-																															aaggcacaggtagtgatgtaGatgatgatatgtctggggat																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:41060495_41060497delGAT	uc004dfb.2	+	31	5419_5421	c.4786_4788delGAT	c.(4786-4788)GATdel	p.D1598del	USP9X_uc004dfc.2_In_Frame_Del_p.D1598del	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1598					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						TAGTGATGTAGATGATGATATGT	0.394													41	78	---	---	---	---						.	-	41060497	-	-	41060495	7	5	70	1	0	1	0	1	0	0	0	0	17116	942	33	0	4904	0	USP9X	23	41060495	In_Frame_Del	DEL	GAT	TCGA-BR-8368-01A-11D-2340-08	6912028	41060495	114210065	1023	47039											
CHST7	56548	broad.mit.edu	37	chrX	46433917	46433917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcgcgcgccccggacaCggccaatcttaccacggccg	6	4	12	19	8	1	0	0	0	1	0	1	1	1	1	5	3	2	1	5	3	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:46433917C>T	uc004dgt.2	+	1	726	c.551C>T	c.(550-552)ACG>ATG	p.T184M		NM_019886	NP_063939	Q9NS84	CHST7_HUMAN	chondroitin 6-sulfotransferase 7	184	Lumenal (Potential).				chondroitin sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity|N-acetylglucosamine 6-O-sulfotransferase activity			breast(3)	3						gccccggACACGGCCAATCTT	0.562													10	19					0	0	1	0	0		T	46433917	T	T	46433917	3	4	70	1	0	0	0	0	1	0	0	0	3412	536	19	1	553	1	CHST7	23	46433917	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	5373422	46433917	108836643	1024	47040											
SLC9A7	84679	broad.mit.edu	37	chrX	46541838	46541838	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatttctcctttcagagtgTattcgaagaactttccgctg	8	16	8	9	2	2	3	1	1	1	2	5	4	3	3	2	0	1	2	2	0	3	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:46541838T>C	uc004dgu.1	-	2	466	c.458A>G	c.(457-459)TAC>TGC	p.Y153C	SLC9A7_uc004dgv.1_Missense_Mutation_p.Y153C	NM_032591	NP_115980	Q96T83	SL9A7_HUMAN	solute carrier family 9, member 7	153					regulation of pH	Golgi membrane|integral to membrane|recycling endosome membrane|trans-Golgi network	potassium:hydrogen antiporter activity|protein homodimerization activity|sodium:hydrogen antiporter activity			ovary(2)	2						TTTCAGAGTGTATTCGAAGAA	0.502													30	56					0	0	1	0	0		C	46541838	C	C	46541838	3	2	70	1	0	0	0	0	1	0	0	0	14744	1638	57	3	1783	3	SLC9A7	23	46541838	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	107921	46541838	108728722	1025	47041											
ARAF	369	broad.mit.edu	37	chrX	47426094	47426094	+	Frame_Shift_Del	DEL	C	-	-																															cttccctgccccagccaatgCccccctacagcgcatccgct																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:47426094delC	uc011mlq.1	+	7	747	c.614delC	c.(613-615)GCCfs	p.A205fs	ARAF_uc011mln.1_Intron|ARAF_uc011mlo.1_Frame_Shift_Del_p.A71fs|ARAF_uc011mlp.1_Frame_Shift_Del_p.A205fs|ARAF_uc004dic.1_5'UTR	NM_001654	NP_001645	P10398	ARAF_HUMAN	v-raf murine sarcoma 3611 viral oncogene	205					intracellular signal transduction|negative regulation of apoptosis|positive regulation of peptidyl-serine phosphorylation		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity			large_intestine(3)|lung(2)|ovary(1)|skin(1)	7					Adenosine triphosphate(DB00171)	CCAGCCAATGCCCCCCTACAG	0.632													12	18	---	---	---	---						.	-	47426094	-	-	47426094	7	5	70	1	0	1	0	1	0	0	0	0	837	739	26	0	636	0	ARAF	23	47426094	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	884256	47426094	107844466	1026	47042											
WAS	7454	broad.mit.edu	37	chrX	48547416	48547416	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggtgggggtcggggagcGcttttggatcaaatccggca	6	9	17	9	3	1	0	1	0	0	0	3	2	2	2	2	7	1	2	2	7	1	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:48547416G>A	uc004dkm.3	+	10	1356	c.1299G>A	c.(1297-1299)GCG>GCA	p.A433A		NM_000377	NP_000368	P42768	WASP_HUMAN	Wiskott-Aldrich syndrome protein	433	WH2.				blood coagulation|defense response|epidermis development|immune response|T cell receptor signaling pathway	actin cytoskeleton|cytosol	identical protein binding|small GTPase regulator activity			ovary(1)	1		all_lung(315;1.27e-10)				GTCGGGGAGCGCTTTTGGATC	0.602			Mis|N|F|S			lymphoma			Wiskott-Aldrich_syndrome				8	12					0	0	1	0	0		A	48547416	A	A	48547416	2	1	70	1	0	0	0	0	0	0	0	1	17277	1074	38	1		1	WAS	23	48547416	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1121322	48547416	106723144	1027	47043											
SYP	6855	broad.mit.edu	37	chrX	49048143	49048143	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgggaggcgcgcgcaggaaCggggcggcccagcctgtctc	5	3	18	15	6	1	0	0	0	1	0	2	2	1	2	3	6	2	1	3	6	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:49048143C>T	uc004dmz.1	-	6	709	c.693G>A	c.(691-693)CCG>CCA	p.P231P	SYP_uc011mmz.1_Silent_p.P113P|SYP_uc004dna.1_Silent_p.P225P	NM_003179	NP_003170	P08247	SYPH_HUMAN	synaptophysin	231	Cytoplasmic (Potential).				regulation of long-term neuronal synaptic plasticity|regulation of short-term neuronal synaptic plasticity|synaptic vesicle maturation|synaptic vesicle membrane organization	cell junction|integral to synaptic vesicle membrane|synaptosome	calcium ion binding|cholesterol binding|transporter activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(315;0.00016)				CGCGCAGGAACGGGGCGGCCC	0.706													5	12					0	0	1	0	0		T	49048143	T	T	49048143	2	4	70	1	0	0	0	0	0	0	0	1	15486	523	19	1		1	SYP	23	49048143	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	500727	49048143	106222417	1028	47044											
CACNA1F	778	broad.mit.edu	37	chrX	49083447	49083447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaccaaggttgtcatcggCggaggggtcctccatgtcca	9	8	13	11	2	1	1	1	0	0	1	5	2	4	2	4	5	1	1	4	5	2	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:49083447C>T	uc004dnb.2	-	9	1323	c.1261G>A	c.(1261-1263)GCC>ACC	p.A421T	CACNA1F_uc010nip.2_Missense_Mutation_p.A421T	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	421	Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	TTGTCATCGGCGGAGGGGTCC	0.602													9	22					0	0	1	0	0		T	49083447	T	T	49083447	3	4	70	1	0	0	0	0	1	0	0	0	2546	768	27	1	4832	1	CACNA1F	23	49083447	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	35304	49083447	106187113	1029	47045											
SHROOM4	57477	broad.mit.edu	37	chrX	50377325	50377325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaaaacgctcactcttcCgccggttttggatcgagcgg	8	10	11	12	5	2	0	1	0	1	0	4	2	3	1	2	3	3	3	2	3	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:50377325C>T	uc004dpe.2	-	4	1774	c.1748G>A	c.(1747-1749)CGG>CAG	p.R583Q	SHROOM4_uc004dpd.3_RNA|SHROOM4_uc004dpf.1_Missense_Mutation_p.R467Q	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	583					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					CTCACTCTTCCGCCGGTTTTG	0.582													14	40					0	0	1	0	0		T	50377325	T	T	50377325	3	4	70	1	0	0	0	0	1	0	0	0	14321	652	23	1	2757	1	SHROOM4	23	50377325	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1293878	50377325	104893235	1030	47046											
SHROOM4	57477	broad.mit.edu	37	chrX	50557009	50557009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtactggaaggacccaggccGgttctccatcctcggctggg	6	8	14	13	2	1	0	0	0	1	0	4	2	2	2	4	6	1	3	4	6	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:50557009G>A	uc004dpe.2	-	1	36	c.10C>T	c.(10-12)CGG>TGG	p.R4W	SHROOM4_uc004dpd.3_RNA	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	4					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					GACCCAGGCCGGTTCTCCATC	0.687													6	5					0	0	1	0	0		A	50557009	A	A	50557009	3	1	70	1	0	0	0	0	1	0	0	0	14321	1115	39	1	4507	1	SHROOM4	23	50557009	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	179684	50557009	104713551	1031	47047											
IQSEC2	23096	broad.mit.edu	37	chrX	53285133	53285133	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcccactccagcaggggggCcccccatgtggctgctggag	5	5	16	15	0	0	0	0	0	0	0	1	1	1	1	5	6	2	3	5	6	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:53285133C>G	uc004dsd.2	-	3	1049	c.848G>C	c.(847-849)GGC>GCC	p.G283A	IQSEC2_uc004dsc.2_Missense_Mutation_p.G78A	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	273					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						AGCAGGGGGGCCCCCCATGTG	0.687													4	9					0	0	1	0	0		G	53285133	G	G	53285133	3	3	70	1	0	0	0	0	1	0	0	0	7834	739	26	5	3670	5	IQSEC2	23	53285133	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2728124	53285133	101985427	1032	47048											
HUWE1	10075	broad.mit.edu	37	chrX	53573484	53573484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgggtcccagagtccccccGggagagctgcagtagtacgt	7	6	14	14	3	0	2	0	0	0	2	2	3	2	2	5	2	3	4	5	2	2	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:53573484G>A	uc004dsp.2	-	70	11230	c.10828C>T	c.(10828-10830)CGG>TGG	p.R3610W	HUWE1_uc004dsn.2_Missense_Mutation_p.R2418W|HUWE1_uc004dsq.1_5'Flank	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3610					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GAGTCCCCCCGGGAGAGCTGC	0.512													12	14					0	0	1	0	0		A	53573484	A	A	53573484	3	1	70	1	0	0	0	0	1	0	0	0	7477	1115	39	1	2356	1	HUWE1	23	53573484	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	288351	53573484	101697076	1033	47049											
PHF8	23133	broad.mit.edu	37	chrX	54026320	54026320	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttctttccttgtccaggCtctaaaggccaagttcaagg	9	13	8	11	0	3	0	1	0	2	0	5	0	5	0	3	3	1	2	3	3	5	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:54026320C>A	uc004dsu.2	-	11	1397	c.1324G>T	c.(1324-1326)GCC>TCC	p.A442S	PHF8_uc004dst.2_Missense_Mutation_p.A406S|PHF8_uc004dsv.2_Missense_Mutation_p.A272S|PHF8_uc004dsw.2_Missense_Mutation_p.A406S|PHF8_uc004dsx.2_Missense_Mutation_p.A170S|PHF8_uc004dsy.2_Missense_Mutation_p.A406S	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	442					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						CTTGTCCAGGCTCTAAAGGCC	0.478													12	25					0.00136819	0.00138665	1	1	0		A	54026320	A	A	54026320	3	1	70	1	0	0	0	0	1	0	0	0	11859	797	28	5	2076	5	PHF8	23	54026320	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	452836	54026320	101244240	1034	47050											
WNK3	65267	broad.mit.edu	37	chrX	54263784	54263784	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcctttattttctttacaGgtttcctgaagagcttgtaa	9	18	6	8	0	1	2	0	1	1	1	3	2	3	2	2	1	2	3	2	1	4	9			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:54263784G>T	uc004dtd.1	-	20	4513	c.4074C>A	c.(4072-4074)ACC>ACA	p.T1358T	WNK3_uc004dtc.1_Silent_p.T1405T	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1358					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						TTTCTTTACAGGTTTCCTGAA	0.378													29	43					2.4375e-19	2.63887e-19	1	1	0		T	54263784	T	T	54263784	2	4	70	1	0	0	0	0	0	0	0	1	17405	987	35	5		5	WNK3	23	54263784	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	237464	54263784	101006776	1035	47051											
WNK3	65267	broad.mit.edu	37	chrX	54275765	54275765	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actggcagtttggtgacatgGatacacaggtatgaatatgc	12	11	12	6	0	0	2	0	2	0	0	0	3	0	3	0	4	2	3	0	4	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:54275765G>T	uc004dtd.1	-	17	3455	c.3016C>A	c.(3016-3018)CCA>ACA	p.P1006T	WNK3_uc004dtc.1_Missense_Mutation_p.P1006T	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1006					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						TGGTGACATGGATACACAGGT	0.443													23	46					6.44725e-10	6.75284e-10	1	1	0		T	54275765	T	T	54275765	3	4	70	1	0	0	0	0	1	0	0	0	17405	1174	41	5	2418	5	WNK3	23	54275765	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	11981	54275765	100994795	1036	47052											
ZXDB	158586	broad.mit.edu	37	chrX	57618747	57618747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggcggcggcggcggcggcgGcgacgacttcttcctggtgc	2	6	19	14	9	1	0	0	0	1	0	2	2	2	0	1	8	1	0	1	8	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:57618747G>A	uc004dvd.2	+	1	479	c.266G>A	c.(265-267)GGC>GAC	p.G89D		NM_007157	NP_009088	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	89	Poly-Gly.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						ggcggcggcggcgacgACTTC	0.552													9	5					0	0	1	0	0		A	57618747	A	A	57618747	3	1	70	1	0	0	0	0	1	0	0	0	18276	1203	42	2	268	2	ZXDB	23	57618747	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	3342982	57618747	97651813	1037	47053											
ZXDB	158586	broad.mit.edu	37	chrX	57620179	57620179	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaagcacagcatgaagacGcacatggttaaaaggcataa	17	6	9	9	1	0	2	0	1	0	1	1	2	1	2	1	2	2	5	1	2	5	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:57620179G>A	uc004dvd.2	+	1	1911	c.1698G>A	c.(1696-1698)ACG>ACA	p.T566T		NM_007157	NP_009088	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	566	C2H2-type 10.|Required for interaction with ZXDC (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						GCATGAAGACGCACATGGTTA	0.483													40	52					0	0	1	0	0		A	57620179	A	A	57620179	2	1	70	1	0	0	0	0	0	0	0	1	18276	1074	38	1		1	ZXDB	23	57620179	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1432	57620179	97650381	1038	47054											
HEPH	9843	broad.mit.edu	37	chrX	65486430	65486430	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctcttggtggagtggtttgGtaccaacatcgacagagaaa	11	10	13	7	1	1	1	0	0	1	1	2	4	1	2	1	4	2	3	1	4	3	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:65486430G>A	uc011moz.1	+	21	3462	c.3402G>A	c.(3400-3402)TGG>TGA	p.W1134*	HEPH_uc004dwn.2_Nonsense_Mutation_p.W1133*|HEPH_uc004dwo.2_Nonsense_Mutation_p.W864*|HEPH_uc010nkr.2_Nonsense_Mutation_p.W942*|HEPH_uc011mpa.1_Nonsense_Mutation_p.W1134*	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	1131	Helical; (Potential).				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						GAGTGGTTTGGTACCAACATC	0.488													25	54					0	0	1	0	0		A	65486430	A	A	65486430	4	1	70	1	0	0	0	0	0	1	0	0	7070	1270	44	4	3637	4	HEPH	23	65486430	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	7866251	65486430	89784130	1039	47055											
ZMYM3	9203	broad.mit.edu	37	chrX	70469892	70469892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctctccagtcttctggCatatgctgcagcgagtagcg	7	11	10	13	2	4	0	1	0	3	0	5	1	4	0	2	1	4	4	2	1	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:70469892C>T	uc004dzh.1	-	6	1322	c.1235G>A	c.(1234-1236)TGC>TAC	p.C412Y	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Missense_Mutation_p.C412Y|ZMYM3_uc004dzj.1_Missense_Mutation_p.C412Y|ZMYM3_uc011mpu.1_Missense_Mutation_p.C143Y|ZMYM3_uc004dzk.3_Missense_Mutation_p.C412Y|ZMYM3_uc004dzl.3_Missense_Mutation_p.C412Y|ZMYM3_uc004dzm.3_Missense_Mutation_p.C412Y	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	412	MYM-type 2.				multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					AGTCTTCTGGCATATGCTGCA	0.642													10	27					0	0	1	0	0		T	70469892	T	T	70469892	3	4	70	1	0	0	0	0	1	0	0	0	17726	710	25	2	2975	2	ZMYM3	23	70469892	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	4983462	70469892	84800668	1040	47056											
ZMYM3	9203	broad.mit.edu	37	chrX	70472854	70472854	+	Frame_Shift_Del	DEL	C	-	-																															gagggggctttatagagcagCccccccagccccagcaactc																										TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:70472854delC	uc004dzh.1	-	2	339	c.252delG	c.(250-252)GGGfs	p.G84fs	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Frame_Shift_Del_p.G84fs|ZMYM3_uc004dzj.1_Frame_Shift_Del_p.G84fs|ZMYM3_uc011mpu.1_5'Flank|ZMYM3_uc004dzk.3_Frame_Shift_Del_p.G84fs|ZMYM3_uc004dzl.3_Frame_Shift_Del_p.G84fs|ZMYM3_uc004dzm.3_Frame_Shift_Del_p.G84fs	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	84					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					TATAGAGCAGCCCCCCCAGCC	0.642													31	12	---	---	---	---						.	-	70472854	-	-	70472854	7	5	70	1	0	1	0	1	0	0	0	0	17726	726	26	0	3974	0	ZMYM3	23	70472854	Frame_Shift_Del	DEL	C	TCGA-BR-8368-01A-11D-2340-08	2962	70472854	84797706	1041	47057											
NONO	4841	broad.mit.edu	37	chrX	70516763	70516763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagtatgaatatgccatgcGctggaaggcactcattgaga	12	10	12	7	1	1	3	1	3	0	1	1	5	1	4	1	2	2	3	1	2	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:70516763G>A	uc004dzo.2	+	8	1519	c.809G>A	c.(808-810)CGC>CAC	p.R270H	BCYRN1_uc011mpt.1_Intron|NONO_uc004dzn.2_Missense_Mutation_p.R270H|NONO_uc004dzp.2_Missense_Mutation_p.R270H|NONO_uc011mpv.1_Missense_Mutation_p.R181H|NONO_uc004dzq.2_Missense_Mutation_p.R139H	NM_001145408	NP_001138880	Q15233	NONO_HUMAN	non-POU domain containing, octamer-binding	270	Potential.|DBHS.				DNA recombination|DNA repair|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nuclear matrix|paraspeckles	DNA binding|identical protein binding|nucleotide binding|RNA binding		NONO/TFE3(2)	ovary(2)|kidney(2)	4	Renal(35;0.156)					TATGCCATGCGCTGGAAGGCA	0.522			T	TFE3	papillary renal cancer								16	30					0	0	1	0	0		A	70516763	A	A	70516763	3	1	70	1	0	0	0	0	1	0	0	0	10553	1087	38	1	827	1	NONO	23	70516763	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	43909	70516763	84753797	1042	47058											
PHKA1	5255	broad.mit.edu	37	chrX	71829541	71829541	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtttctggtgggagagaaGgtctgtgcaggcctaacaag	10	10	15	6	0	2	1	0	0	2	1	2	3	2	2	1	4	2	2	1	4	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:71829541G>C	uc004eax.3	-	23	2840	c.2539C>G	c.(2539-2541)CTT>GTT	p.L847V	PHKA1_uc004eay.3_Missense_Mutation_p.L847V|PHKA1_uc011mqi.1_Missense_Mutation_p.L788V	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	847					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					TGGGAGAGAAGGTCTGTGCAG	0.448													46	86					0	0	1	0	0		C	71829541	C	C	71829541	3	2	70	1	0	0	0	0	1	0	0	0	11862	1000	35	5	1172	5	PHKA1	23	71829541	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1312778	71829541	83441019	1043	47059											
NAP1L2	4674	broad.mit.edu	37	chrX	72434188	72434188	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagcggcagcttcttcaccGcacttcccatcgtctccaag	7	9	7	18	3	3	0	1	0	2	0	6	0	4	0	4	1	2	3	4	1	1	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:72434188G>A	uc004ebi.2	-	1	497	c.141C>T	c.(139-141)TGC>TGT	p.C47C	NAP1L2_uc011mqj.1_Intron	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	47					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					CTTCTTCACCGCACTTCCCAT	0.567													24	52					0	0	1	0	0		A	72434188	A	A	72434188	2	1	70	1	0	0	0	0	0	0	0	1	10175	1079	38	1		1	NAP1L2	23	72434188	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	604647	72434188	82836372	1044	47060											
KIAA2022	340533	broad.mit.edu	37	chrX	73961406	73961406	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgacagagagtggggccaTtgaatcaaagctaaagagcc	14	6	13	8	0	1	4	1	2	0	2	1	5	1	4	2	2	2	2	2	2	4	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:73961406T>C	uc004eby.2	-	3	3603	c.2986A>G	c.(2986-2988)ATG>GTG	p.M996V		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	996					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						AGTGGGGCCATTGAATCAAAG	0.443													28	50					0	0	1	0	0		C	73961406	C	C	73961406	3	2	70	1	0	0	0	0	1	0	0	0	8285	1493	52	3	1572	3	KIAA2022	23	73961406	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1527218	73961406	81309154	1045	47061											
MAGEE1	57692	broad.mit.edu	37	chrX	75649451	75649451	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaccgcctctgatggatcGgacacctccgtgccgcccac	6	6	9	20	4	1	1	0	1	1	0	3	3	2	3	7	2	1	0	7	2	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:75649451G>A	uc004ecm.1	+	1	1335	c.1128G>A	c.(1126-1128)TCG>TCA	p.S376S		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	376	Pro-rich.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						CTGATGGATCGGACACCTCCG	0.682													15	19					0	0	1	0	0		A	75649451	A	A	75649451	2	1	70	1	0	0	0	0	0	0	0	1	9203	1103	39	1		1	MAGEE1	23	75649451	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1688045	75649451	79621109	1046	47062											
ATRX	546	broad.mit.edu	37	chrX	76939711	76939711	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatctctttgggcacaattAgtgcggaataagagtaggtt	11	13	11	6	1	2	1	1	0	1	1	3	2	2	2	0	3	1	3	0	3	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:76939711A>G	uc004ecp.3	-	9	1269	c.1037T>C	c.(1036-1038)CTA>CCA	p.L346P	ATRX_uc004ecq.3_Missense_Mutation_p.L308P|ATRX_uc004eco.3_Missense_Mutation_p.L131P|ATRX_uc004ecr.2_Missense_Mutation_p.L307P|ATRX_uc010nlx.1_Missense_Mutation_p.L346P|ATRX_uc010nly.1_Missense_Mutation_p.L291P	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	346					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	GGGCACAATTAGTGCGGAATA	0.363			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						10	147					0	0	1	0	0		G	76939711	G	G	76939711	3	3	70	1	0	0	0	0	1	0	0	0	1209	420	15	3	6549	3	ATRX	23	76939711	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	1290260	76939711	78330849	1047	47063											
MAGT1	84061	broad.mit.edu	37	chrX	77150868	77150868	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgagcagcgccaccaccaTggtcacagagacacaccaaa	15	3	9	14	1	1	2	1	1	0	1	1	4	1	2	4	1	2	1	4	1	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:77150868T>C	uc004fof.2	-	1	198	c.136A>G	c.(136-138)ATG>GTG	p.M46V	MAGT1_uc004fog.3_RNA|MAGT1_uc004ect.3_Missense_Mutation_p.M46V	NM_032121	NP_115497	Q9H0U3	MAGT1_HUMAN	magnesium transporter 1	14					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				upper_aerodigestive_tract(1)	1						GCCACCACCATGGTCACAGAG	0.567													9	23					0	0	1	0	0		C	77150868	C	C	77150868	3	2	70	1	0	0	0	0	1	0	0	0	9214	1464	51	3	1007	3	MAGT1	23	77150868	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	211157	77150868	78119692	1048	47064											
SATL1	340562	broad.mit.edu	37	chrX	84362915	84362915	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctgattggcttggggctcGttgcggtggacctggttggc	2	12	18	9	2	0	1	0	1	0	0	1	2	0	2	2	7	1	4	2	7	0	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:84362915G>A	uc011mqx.1	-	1	1060	c.1060C>T	c.(1060-1062)CGA>TGA	p.R354*	SATL1_uc004een.2_Nonsense_Mutation_p.R354*	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	167	Gln-rich.						N-acetyltransferase activity			breast(2)	2						CTTGGGGCTCGTTGCGGTGGA	0.537													19	40					0	0	1	0	0		A	84362915	A	A	84362915	4	1	70	1	0	0	0	0	0	1	0	0	13880	1153	40	1	858	1	SATL1	23	84362915	Nonsense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	7212047	84362915	70907645	1049	47065											
TGIF2LX	90316	broad.mit.edu	37	chrX	89177108	89177108	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggccgctgcggacggcccGgctgagacccaaagcccggt	7	3	16	15	5	0	1	0	1	0	1	0	4	0	2	4	5	2	2	4	5	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:89177108G>A	uc004efe.2	+	2	73	c.24G>A	c.(22-24)CCG>CCA	p.P8P		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	8						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						CGGACGGCCCGGCTGAGACCC	0.527													28	48					0	0	1	0	0		A	89177108	A	A	89177108	2	1	70	1	0	0	0	0	0	0	0	1	15852	1103	39	1		1	TGIF2LX	23	89177108	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	4814193	89177108	66093452	1050	47066											
PCDH19	57526	broad.mit.edu	37	chrX	99657766	99657766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgtctcctccacatccCggggtaccaggcggatgtca	6	10	11	14	2	3	0	1	0	2	0	6	1	5	1	4	4	1	1	4	4	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:99657766C>T	uc010nmz.2	-	3	4048	c.2372G>A	c.(2371-2373)CGG>CAG	p.R791Q	PCDH19_uc004efw.3_Missense_Mutation_p.R744Q|PCDH19_uc004efx.3_Missense_Mutation_p.R744Q	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	791	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CTCCACATCCCGGGGTACCAG	0.483													17	35					0	0	1	0	0		T	99657766	T	T	99657766	3	4	70	1	0	0	0	0	1	0	0	0	11533	652	23	1	1090	1	PCDH19	23	99657766	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	10480658	99657766	55612794	1051	47067											
NXF5	55998	broad.mit.edu	37	chrX	101095825	101095825	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtaatgtcagaaaggccatCcagctggtacagtttgttgt	10	13	11	7	0	1	1	1	0	0	1	2	1	2	1	2	2	2	5	2	2	3	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:101095825C>A	uc011mrk.1	-	9	883	c.523G>T	c.(523-525)GAT>TAT	p.D175Y	NXF5_uc004eih.1_RNA|NXF5_uc004eii.1_Intron|NXF5_uc004eij.1_RNA|NXF5_uc004eik.1_RNA|NXF5_uc004eil.1_RNA	NM_032946	NP_116564	Q9H1B4	NXF5_HUMAN	nuclear RNA export factor 5	175	LRR 1.				mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nucleus	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						GAAAGGCCATCCAGCTGGTAC	0.473													31	61					1.62565e-12	1.73003e-12	1	1	0		A	101095825	A	A	101095825	3	1	70	1	0	0	0	0	1	0	0	0	10805	855	30	5	606	5	NXF5	23	101095825	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1438059	101095825	54174735	1052	47068											
TCEAL5	340543	broad.mit.edu	37	chrX	102529304	102529304	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatcttccagttgtcccTcatcacctggctctccctca	5	13	4	19	0	6	0	4	0	2	0	9	0	8	0	5	1	0	2	5	1	0	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:102529304T>G	uc004ejz.1	-	3	483	c.188A>C	c.(187-189)GAG>GCG	p.E63A		NM_001012979	NP_001012997	Q5H9L2	TCAL5_HUMAN	transcription elongation factor A (SII)-like 5	63	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(1)|breast(1)	2						CAGTTGtccctcatcacctgg	0.269													39	79					0	0	1	0	0		G	102529304	G	G	102529304	3	3	70	1	0	0	0	0	1	0	0	0	15699	1551	54	5	436	5	TCEAL5	23	102529304	Missense_Mutation	SNP	T	TCGA-BR-8368-01A-11D-2340-08	1433479	102529304	52741256	1053	47069											
PLP1	5354	broad.mit.edu	37	chrX	103041611	103041611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaagctcattctttggagCgggtgtgtcattgtttggga	7	15	13	6	1	4	0	3	0	1	0	4	2	4	2	0	3	2	2	0	3	1	4	rs132630295		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:103041611C>T	uc010nov.2	+	4	689	c.409C>T	c.(409-411)CGG>TGG	p.R137W	RAB9B_uc004eli.1_Intron|PLP1_uc004elk.2_Missense_Mutation_p.R137W|PLP1_uc004elj.2_Intron|PLP1_uc011msf.1_Missense_Mutation_p.R82W|PLP1_uc010now.1_Missense_Mutation_p.R141W|PLP1_uc010nox.2_Missense_Mutation_p.R91W	NM_001128834	NP_001122306	P60201	MYPR_HUMAN	proteolipid protein 1 isoform 1	137	Cytoplasmic (Probable).		R -> W (in SPG2).|Missing (in HLD1).		cell death|synaptic transmission	integral to membrane		p.R137W(1)		ovary(1)	1						TTCTTTGGAGCGGGTGTGTCA	0.552													55	86					0	0	1	0	0		T	103041611	T	T	103041611	3	4	70	1	0	0	0	0	1	0	0	0	12123	759	27	1	419	1	PLP1	23	103041611	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	512307	103041611	52228949	1054	47070											
NRK	203447	broad.mit.edu	37	chrX	105181436	105181436	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatatatgaacaggagtcAatttgctgttgggaacccga	12	13	10	6	1	1	1	1	1	0	0	1	4	1	3	1	2	3	2	1	2	6	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:105181436A>G	uc004emd.2	+	22	3964	c.3661A>G	c.(3661-3663)AAT>GAT	p.N1221D	NRK_uc010npc.1_Missense_Mutation_p.N889D	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1221	CNH.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						AACAGGAGTCAATTTGCTGTT	0.348										HNSCC(51;0.14)			12	16					0	0	1	0	0		G	105181436	G	G	105181436	3	3	70	1	0	0	0	0	1	0	0	0	10674	130	5	3	3747	3	NRK	23	105181436	Missense_Mutation	SNP	A	TCGA-BR-8368-01A-11D-2340-08	2139825	105181436	50089124	1055	47071											
RNF128	79589	broad.mit.edu	37	chrX	105970349	105970349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgggagctgagcgaggaggGcgtgtacggccaggactcgc	7	5	20	9	4	0	1	0	1	0	0	1	5	0	4	1	5	3	2	1	5	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:105970349G>A	uc004eml.2	+	1	456	c.206G>A	c.(205-207)GGC>GAC	p.G69D	RNF128_uc004emk.2_Intron	NM_194463	NP_919445	Q8TEB7	RN128_HUMAN	ring finger protein 128 isoform 1	69						endomembrane system|integral to membrane|perinuclear region of cytoplasm	zinc ion binding	p.G69D(1)		ovary(1)|central_nervous_system(1)	2						AGCGAGGAGGGCGTGTACGGC	0.682													13	19					0	0	1	0	0		A	105970349	A	A	105970349	3	1	70	1	0	0	0	0	1	0	0	0	13461	1203	42	2	618	2	RNF128	23	105970349	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	788913	105970349	49300211	1056	47072											
RNF128	79589	broad.mit.edu	37	chrX	105970426	105970426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggcccggggcgcttaacGcctgtaacccgcacacgaat	9	5	12	15	6	0	0	0	0	0	0	0	1	0	0	3	3	2	3	3	3	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:105970426G>A	uc004eml.2	+	1	533	c.283G>A	c.(283-285)GCC>ACC	p.A95T	RNF128_uc004emk.2_Intron	NM_194463	NP_919445	Q8TEB7	RN128_HUMAN	ring finger protein 128 isoform 1	95	PA.					endomembrane system|integral to membrane|perinuclear region of cytoplasm	zinc ion binding			ovary(1)|central_nervous_system(1)	2						GGCGCTTAACGCCTGTAACCC	0.677													20	20					0	0	1	0	0		A	105970426	A	A	105970426	3	1	70	1	0	0	0	0	1	0	0	0	13461	1087	38	1	695	1	RNF128	23	105970426	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	77	105970426	49300134	1057	47073											
ATG4A	115201	broad.mit.edu	37	chrX	107372043	107372043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttgtctgatataagtgctCgtctatggtttacatacaga	10	16	9	6	1	2	2	0	1	2	1	3	2	2	2	0	1	3	3	0	1	5	7			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:107372043C>T	uc004enr.2	+	3	277	c.154C>T	c.(154-156)CGT>TGT	p.R52C	ATG4A_uc004ent.2_Missense_Mutation_p.R52C|ATG4A_uc004ens.2_5'UTR|ATG4A_uc011msl.1_5'UTR|ATG4A_uc010npi.2_RNA|ATG4A_uc004enu.2_Intron	NM_052936	NP_443168	Q8WYN0	ATG4A_HUMAN	autophagy-related cysteine endopeptidase 2	52					autophagy|protein transport|proteolysis	cytoplasm	cysteine-type peptidase activity			pancreas(1)	1						TATAAGTGCTCGTCTATGGTT	0.323													24	38					0	0	1	0	0		T	107372043	T	T	107372043	3	4	70	1	0	0	0	0	1	0	0	0	1097	884	31	1	164	1	ATG4A	23	107372043	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	1401617	107372043	47898517	1058	47074											
IRS4	8471	broad.mit.edu	37	chrX	107977352	107977352	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaacatcatcatgtacccTcttgaatcttcaaaagggga	14	10	8	9	0	5	1	3	1	2	0	5	3	5	3	1	3	2	1	1	3	5	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:107977352T>C	uc004eoc.2	-	1	2256	c.2223A>G	c.(2221-2223)AGA>AGG	p.R741R		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	741	CRK-binding.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						TCATGTACCCTCTTGAATCTT	0.468													49	114					0	0	1	0	0		C	107977352	C	C	107977352	2	2	70	1	0	0	0	0	0	0	0	1	7858	1548	54	3		3	IRS4	23	107977352	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	605309	107977352	47293208	1059	47075											
GUCY2F	2986	broad.mit.edu	37	chrX	108691390	108691390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caactggattttatttatacGacgcctaaaacaaacatgaa	17	11	5	8	2	0	1	0	1	0	0	0	3	0	2	1	1	4	0	1	1	8	6			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:108691390G>A	uc004eod.3	-	6	1753	c.1477C>T	c.(1477-1479)CGT>TGT	p.R493C	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	493	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						TTATTTATACGACGCCTAAAA	0.398													22	41					0	0	1	0	0		A	108691390	A	A	108691390	3	1	70	1	0	0	0	0	1	0	0	0	6914	1058	37	1	1905	1	GUCY2F	23	108691390	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	714038	108691390	46579170	1060	47076											
AMMECR1	9949	broad.mit.edu	37	chrX	109507781	109507781	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaagtacctatgcatcCacgtaatcttttgtctcgac	13	12	6	10	2	2	1	0	0	2	1	4	2	3	1	2	0	2	3	2	0	5	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:109507781C>A	uc004eoo.2	-	2	601	c.520G>T	c.(520-522)GGA>TGA	p.G174*	AMMECR1_uc004eop.2_Intron|AMMECR1_uc004eoq.2_Nonsense_Mutation_p.G51*	NM_015365	NP_056180	Q9Y4X0	AMER1_HUMAN	AMMECR1 protein isoform 1	174	AMMECR1.										0						CCTATGCATCCACGTAATCTT	0.343													56	110					3.89483e-19	4.21254e-19	1	1	0		A	109507781	A	A	109507781	4	1	70	1	0	0	0	0	0	1	0	0	578	603	21	5	501	5	AMMECR1	23	109507781	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	816391	109507781	45762779	1061	47077											
TRPC5	7224	broad.mit.edu	37	chrX	111195319	111195319	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcagaagctccacagcGcccaccacttccttgcgtat	9	8	8	16	2	0	2	0	1	0	1	2	2	2	2	4	0	4	3	4	0	2	3	rs139867130		TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:111195319G>A	uc004epl.1	-	2	1249	c.330C>T	c.(328-330)GGC>GGT	p.G110G	TRPC5_uc004epm.1_Silent_p.G110G	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	110	ANK 3.|Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						GCTCCACAGCGCCCACCACTT	0.547													68	108					0	0	1	0	0		A	111195319	A	A	111195319	2	1	70	1	0	0	0	0	0	0	0	1	16608	1074	38	1		1	TRPC5	23	111195319	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	1687538	111195319	44075241	1062	47078											
NKRF	55922	broad.mit.edu	37	chrX	118724034	118724034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtcgttcagcgtgcacaCgggatttgaagaattctcat	9	13	11	8	3	2	2	2	1	1	1	4	3	2	3	0	1	2	2	0	1	2	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:118724034C>T	uc004erq.2	-	2	2007	c.1354G>A	c.(1354-1356)GTG>ATG	p.V452M	NKRF_uc004err.2_Missense_Mutation_p.V452M	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	452					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2						AGCGTGCACACGGGATTTGAA	0.423													66	108					0	0	1	0	0		T	118724034	T	T	118724034	3	4	70	1	0	0	0	0	1	0	0	0	10466	536	19	1	722	1	NKRF	23	118724034	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	7528715	118724034	36546526	1063	47079											
GRIA3	2892	broad.mit.edu	37	chrX	122537368	122537368	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatagtagtgactaccattCtggtaagtgtgaacagaagg	13	10	11	7	0	1	3	0	2	1	1	1	3	1	3	2	2	2	2	2	2	6	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:122537368C>T	uc004etq.3	+	10	1584	c.1291C>T	c.(1291-1293)CTG>TTG	p.L431L	GRIA3_uc004etr.3_Silent_p.L431L|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Silent_p.L415L	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	431	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	GACTACCATTCTGGTAAGTGT	0.428													43	98					0	0	1	0	0		T	122537368	T	T	122537368	2	4	70	1	0	0	0	0	0	0	0	1	6785	912	32	4		4	GRIA3	23	122537368	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3813334	122537368	32733192	1064	47080											
ODZ1	10178	broad.mit.edu	37	chrX	123514832	123514832	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcttcctccagagacccaaGcttaatgaagtagtgagtgt	11	11	10	9	0	1	3	0	2	1	1	3	4	3	3	3	0	1	2	3	0	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:123514832G>T	uc004euj.2	-	31	7796	c.7732C>A	c.(7732-7734)CTT>ATT	p.L2578I	ODZ1_uc011muj.1_Missense_Mutation_p.L2584I|ODZ1_uc010nqy.2_Missense_Mutation_p.L2585I	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2578	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						AGAGACCCAAGCTTAATGAAG	0.498													12	123					1.5842e-08	1.64704e-08	1	1	0		T	123514832	T	T	123514832	3	4	70	1	0	0	0	0	1	0	0	0	10853	971	34	5	449	5	ODZ1	23	123514832	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	977464	123514832	31755728	1065	47081											
IGSF1	3547	broad.mit.edu	37	chrX	130417039	130417039	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaggtaatgtccagtatcTtggatcttcaaagactggaa	13	11	10	7	0	3	2	1	0	2	2	4	4	4	4	1	3	0	2	1	3	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:130417039T>C	uc004ewd.2	-	6	1105	c.867A>G	c.(865-867)CAA>CAG	p.Q289Q	IGSF1_uc004ewe.3_Silent_p.Q278Q|IGSF1_uc004ewf.2_Silent_p.Q269Q	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	289	Ig-like C2-type 3.|Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GTCCAGTATCTTGGATCTTCA	0.398													42	76					0	0	1	0	0		C	130417039	C	C	130417039	2	2	70	1	0	0	0	0	0	0	0	1	7612	1606	56	3		3	IGSF1	23	130417039	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	6902207	130417039	24853521	1066	47082											
GPR112	139378	broad.mit.edu	37	chrX	135430010	135430010	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtgtcctgaaaaggaaaGcacgagtgcccttccagcat	11	10	10	10	1	0	1	0	1	0	0	2	3	2	2	3	1	3	2	3	1	3	2			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:135430010G>T	uc004ezu.1	+	6	4436	c.4145G>T	c.(4144-4146)AGC>ATC	p.S1382I	GPR112_uc010nsb.1_Missense_Mutation_p.S1177I|GPR112_uc010nsc.1_Missense_Mutation_p.S1149I	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1382	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					GAAAAGGAAAGCACGAGTGCC	0.453													88	115					1.80868e-48	1.99255e-48	1	1	0		T	135430010	T	T	135430010	3	4	70	1	0	0	0	0	1	0	0	0	6644	971	34	5	4155	5	GPR112	23	135430010	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	5012971	135430010	19840550	1067	47083											
GPR101	83550	broad.mit.edu	37	chrX	136113044	136113044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacctcaccttcatgctggcGgcgaaactcactctcatcct	8	10	7	16	2	4	0	4	0	1	0	6	2	5	0	3	2	2	1	3	2	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:136113044G>A	uc011mwh.1	-	1	790	c.790C>T	c.(790-792)CGC>TGC	p.R264C		NM_054021	NP_473362	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	264	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					TCATGCTGGCGGCGAAACTCA	0.562													61	147					0	0	1	0	0		A	136113044	A	A	136113044	3	1	70	1	0	0	0	0	1	0	0	0	6637	1116	39	1	739	1	GPR101	23	136113044	Missense_Mutation	SNP	G	TCGA-BR-8368-01A-11D-2340-08	683034	136113044	19157516	1068	47084											
SLITRK2	84631	broad.mit.edu	37	chrX	144906227	144906227	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtatcaaaatattgctgagCgagtcaaggaacttcccagc	13	10	9	9	1	2	1	2	1	0	0	3	3	3	2	1	1	4	2	1	1	6	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:144906227C>T	uc004fcd.2	+	5	3274	c.2284C>T	c.(2284-2286)CGA>TGA	p.R762*	SLITRK2_uc010nsp.2_Nonsense_Mutation_p.R762*|SLITRK2_uc010nso.2_Nonsense_Mutation_p.R762*|SLITRK2_uc011mwq.1_Nonsense_Mutation_p.R762*|SLITRK2_uc011mwr.1_Nonsense_Mutation_p.R762*|SLITRK2_uc011mws.1_Nonsense_Mutation_p.R762*|SLITRK2_uc004fcg.2_Nonsense_Mutation_p.R762*|SLITRK2_uc011mwt.1_Nonsense_Mutation_p.R762*|CXorf1_uc004fch.2_5'Flank	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	762	Cytoplasmic (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					TATTGCTGAGCGAGTCAAGGA	0.493													55	116					0	0	1	0	0		T	144906227	T	T	144906227	4	4	70	1	0	0	0	0	0	1	0	0	14768	760	27	1	2286	1	SLITRK2	23	144906227	Nonsense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	8793183	144906227	10364333	1069	47085											
FMR1	2332	broad.mit.edu	37	chrX	147009866	147009866	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagagcaaatgaaaaagaGccttgctgttggtggttagc	12	10	12	7	0	0	3	0	1	0	2	1	3	1	3	2	2	4	4	2	2	4	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:147009866G>A	uc010nst.2	+	4	414	c.225G>A	c.(223-225)GAG>GAA	p.E75E	FMR1_uc011mwz.1_Silent_p.E75E|FMR1_uc004fcj.2_Silent_p.E75E|FMR1_uc004fck.3_Silent_p.E75E|FMR1_uc004fcl.3_5'UTR|FMR1_uc011mxa.1_5'Flank	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	75					mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ATGAAAAAGAGCCTTGCTGTT	0.313									Fragile_X_syndrome				50	145					0	0	1	0	0		A	147009866	A	A	147009866	2	1	70	1	0	0	0	0	0	0	0	1	5974	962	34	2		2	FMR1	23	147009866	Silent	SNP	G	TCGA-BR-8368-01A-11D-2340-08	2103639	147009866	8260694	1070	47086											
GPR50	9248	broad.mit.edu	37	chrX	150345310	150345310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcgcgatggttatcaccatCgttgtagacctaatcggcaa	10	11	10	10	4	1	1	1	0	0	1	3	2	1	1	2	2	1	4	2	2	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:150345310C>T	uc010ntg.1	+	1	252	c.117C>T	c.(115-117)ATC>ATT	p.I39I	uc004fes.1_RNA|GPR50_uc011myc.1_Silent_p.I39I	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	39	Helical; Name=1; (Potential).				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TTATCACCATCGTTGTAGACC	0.512													51	84					0	0	1	0	0		T	150345310	T	T	150345310	2	4	70	1	0	0	0	0	0	0	0	1	6712	874	31	1		1	GPR50	23	150345310	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3335444	150345310	4925250	1071	47087											
GPR50	9248	broad.mit.edu	37	chrX	150349306	150349306	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccaaggctgcctctggtcaCctcaagcctgtctctggcca	6	10	9	16	0	4	0	2	0	2	0	6	0	5	0	5	3	2	1	5	3	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:150349306C>T	uc010ntg.1	+	2	1386	c.1251C>T	c.(1249-1251)CAC>CAT	p.H417H	uc004fes.1_5'Flank	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	417	Cytoplasmic (Potential).|Pro-rich.				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CCTCTGGTCACCTCAAGCCTG	0.572													98	165					0	0	1	0	0		T	150349306	T	T	150349306	2	4	70	1	0	0	0	0	0	0	0	1	6712	506	18	4		4	GPR50	23	150349306	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	3996	150349306	4921254	1072	47088											
PLXNB3	5365	broad.mit.edu	37	chrX	153033730	153033730	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgagtcgtacccctgtggCgacgagcacacccccagccc	7	4	10	20	4	0	0	0	0	0	0	1	3	0	0	6	1	3	2	6	1	1	1			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:153033730C>T	uc004fii.2	+	4	1287	c.1113C>T	c.(1111-1113)GGC>GGT	p.G371G	PLXNB3_uc011mzb.1_Intron|PLXNB3_uc011mzc.1_Silent_p.G53G|PLXNB3_uc010nuk.2_Silent_p.G394G|PLXNB3_uc011mzd.1_Silent_p.G10G	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	371	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					ACCCCTGTGGCGACGAGCACA	0.687													18	49					0	0	1	0	0		T	153033730	T	T	153033730	2	4	70	1	0	0	0	0	0	0	0	1	12144	755	27	1		1	PLXNB3	23	153033730	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	2684424	153033730	2236830	1073	47089											
PLXNB3	5365	broad.mit.edu	37	chrX	153040511	153040511	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccactgtgcgccagggcCtcacgcagctctccaacctg	6	7	11	17	2	2	0	1	0	1	0	3	0	2	0	5	1	4	2	5	1	1	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:153040511C>G	uc004fii.2	+	24	4282	c.4108C>G	c.(4108-4110)CTC>GTC	p.L1370V	PLXNB3_uc010nuk.2_Missense_Mutation_p.L1393V|PLXNB3_uc011mzd.1_Missense_Mutation_p.L1009V|PLXNB3_uc004fij.1_RNA|SRPK3_uc004fik.2_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1370	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					GCGCCAGGGCCTCACGCAGCT	0.697													13	22					0	0	1	0	0		G	153040511	G	G	153040511	3	3	70	1	0	0	0	0	1	0	0	0	12144	681	24	5	4316	5	PLXNB3	23	153040511	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	6781	153040511	2230049	1074	47090											
HCFC1	3054	broad.mit.edu	37	chrX	153217121	153217121	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggctggccaccacaacCggctggggggccacaaatgt	8	5	15	13	1	0	0	0	0	0	0	0	0	0	0	4	6	1	3	4	6	2	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:153217121C>T	uc004fjp.2	-	21	5826	c.5298G>A	c.(5296-5298)CCG>CCA	p.P1766P		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1766					cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCACCACAACCGGCTGGGGGG	0.617													3	27					0	0	1	0	0		T	153217121	T	T	153217121	2	4	70	1	0	0	0	0	0	0	0	1	7007	639	23	1		1	HCFC1	23	153217121	Silent	SNP	C	TCGA-BR-8368-01A-11D-2340-08	176610	153217121	2053439	1075	47091											
FLNA	2316	broad.mit.edu	37	chrX	153593586	153593586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaatactcgaagccatacaCgccatcccccaggtccttct	10	9	6	16	2	1	0	0	0	1	0	4	1	3	0	5	1	3	1	5	1	4	4			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:153593586C>T	uc004fkk.2	-	11	1858	c.1609G>A	c.(1609-1611)GTG>ATG	p.V537M	FLNA_uc010nuu.1_Missense_Mutation_p.V537M	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	537	Filamin 3.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AAGCCATACACGCCATCCCCC	0.637													43	60					0	0	1	0	0		T	153593586	T	T	153593586	3	4	70	1	0	0	0	0	1	0	0	0	5947	536	19	1	6486	1	FLNA	23	153593586	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	376465	153593586	1676974	1076	47092											
FLNA	2316	broad.mit.edu	37	chrX	153599571	153599571	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgccgccgcccggagccgCgcctgctgcgctctggcccg	2	4	15	20	8	1	0	0	0	1	0	1	2	1	1	6	2	3	2	6	2	0	0			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:153599571C>T	uc004fkk.2	-	2	292	c.43G>A	c.(43-45)GCG>ACG	p.A15T	FLNA_uc010nuu.1_Missense_Mutation_p.A15T	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	15	Actin-binding.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCCGGAGCCGCGCCTGCTGCG	0.721													6	9					0	0	1	0	0		T	153599571	T	T	153599571	3	4	70	1	0	0	0	0	1	0	0	0	5947	768	27	1	8088	1	FLNA	23	153599571	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	5985	153599571	1670989	1077	47093											
FUNDC2	65991	broad.mit.edu	37	chrX	154280049	154280049	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtaagagcaatcagataccTactgaggtcaggagcaaagc	15	6	11	9	1	2	3	2	1	0	2	2	4	2	4	1	2	5	3	1	2	5	3			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:154280049T>C	uc004fmw.2	+	4	615	c.465T>C	c.(463-465)CCT>CCC	p.P155P		NM_023934	NP_076423	Q9BWH2	FUND2_HUMAN	FUN14 domain containing 2	155						mitochondrion					0	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					ATCAGATACCTACTGAGGTCA	0.463													19	36					0	0	1	0	0		C	154280049	C	C	154280049	2	2	70	1	0	0	0	0	0	0	0	1	6112	1509	53	3		3	FUNDC2	23	154280049	Silent	SNP	T	TCGA-BR-8368-01A-11D-2340-08	680478	154280049	990511	1078	47094											
BRCC3	79184	broad.mit.edu	37	chrX	154348417	154348417	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttatgcaagaactttcttctCtagaataaatcaggagacaa	16	12	6	7	0	3	3	1	0	2	3	4	4	3	3	0	1	2	1	0	1	8	5			TCGA-BR-8368-01A-11D-2340-08	TCGA-BR-8368-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	165fd192-39c7-4c1d-8313-eb7fb6b129fa	3150c947-69a6-4b74-9fbd-fabef76e9a5f	g.chrX:154348417C>G	uc004fna.2	+	11	1036	c.943C>G	c.(943-945)CTA>GTA	p.L315V	BRCC3_uc004fnb.2_Missense_Mutation_p.L290V	NM_024332	NP_077308	P46736	BRCC3_HUMAN	BRCA1/BRCA2-containing complex, subunit 3	315					double-strand break repair|G2/M transition DNA damage checkpoint|histone H2A K63-linked deubiquitination|positive regulation of DNA repair|response to X-ray	BRCA1-A complex|BRISC complex|nuclear ubiquitin ligase complex	enzyme regulator activity|metal ion binding|metallopeptidase activity|polyubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(3)|ovary(1)|large_intestine(1)|breast(1)	6	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					ACTTTCTTCTCTAGAATAAAT	0.403													44	86					0	0	1	0	0		G	154348417	G	G	154348417	3	3	70	1	0	0	0	0	1	0	0	0	1503	912	32	5	985	5	BRCC3	23	154348417	Missense_Mutation	SNP	C	TCGA-BR-8368-01A-11D-2340-08	68368	154348417	922143	1079	47095											
ZBTB40	9923	broad.mit.edu	37	chr1	22816908	22816908	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatctgaaggtgctggagAgcctcattcttccccagagc	8	11	10	12	0	4	3	2	1	2	2	5	4	5	3	3	2	3	1	3	2	1	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr1:22816908A>G	uc001bft.2	+	3	978	c.467A>G	c.(466-468)GAG>GGG	p.E156G	ZBTB40_uc001bfu.2_Missense_Mutation_p.E156G|ZBTB40_uc009vqi.1_Missense_Mutation_p.E156G	NM_001083621	NP_001077090	Q9NUA8	ZBT40_HUMAN	zinc finger and BTB domain containing 40	156					bone mineralization|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.86e-26)|Colorectal(126;8.55e-08)|COAD - Colon adenocarcinoma(152;4.1e-06)|GBM - Glioblastoma multiforme(114;1.39e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000712)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.216)		GGTGCTGGAGAGCCTCATTCT	0.517													34	140					0	0	0.002445	0	0		G	22816908	G	G	22816908	3	3	71	1	0	0	0	0	1	0	0	0	17567	304	11	3	469	3	ZBTB40	1	22816908	Missense_Mutation	SNP	A	TCGA-BR-8370-01A-11D-2340-08		22816908	226433713	1	47096											
SPTA1	6708	broad.mit.edu	37	chr1	158605726	158605726	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccttggccaactctttgagCttctcccagtgttcaacaaa	9	12	7	13	0	3	1	1	1	2	0	4	1	3	1	3	1	3	2	3	1	3	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr1:158605726C>A	uc001fst.1	-	38	5608	c.5409G>T	c.(5407-5409)AAG>AAT	p.K1803N		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1803	Spectrin 17.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					ACTCTTTGAGCTTCTCCCAGT	0.527													34	74					4.31634e-10	5.10978e-10	0.002445	1	0		A	158605726	A	A	158605726	3	1	71	1	0	0	0	0	1	0	0	0	15141	796	28	5	1910	5	SPTA1	1	158605726	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	135788818	158605726	90644895	2	47097											
FCRL6	343413	broad.mit.edu	37	chr1	159779403	159779403	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagtcagaacaggatgctggGaactactcctgcgaggctga	12	7	13	9	1	1	2	1	1	0	1	2	5	2	4	1	3	5	2	1	3	4	1			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr1:159779403G>A	uc001fud.3	+	5	858	c.816G>A	c.(814-816)GGG>GGA	p.G272G	FCRL6_uc001fuc.2_Silent_p.G279G|FCRL6_uc009wsz.1_Silent_p.G177G|FCRL6_uc009wta.2_Silent_p.G272G	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	272	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					AGGATGCTGGGAACTACTCCT	0.522													9	35					0	0	0.008291	0	0		A	159779403	A	A	159779403	2	1	71	1	0	0	0	0	0	0	0	1	5813	1161	41	4		4	FCRL6	1	159779403	Silent	SNP	G	TCGA-BR-8370-01A-11D-2340-08	1173677	159779403	89471218	3	47098											
ANKRD45	339416	broad.mit.edu	37	chr1	173628361	173628361	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttctaagagaagctgcatgGcctgttcatgatgaggattc	10	12	11	8	0	2	3	1	2	1	1	3	5	2	4	1	2	2	3	1	2	2	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr1:173628361G>A	uc001gja.1	-	2	258	c.197C>T	c.(196-198)GCC>GTC	p.A66V	ANKRD45_uc001gjb.3_Missense_Mutation_p.A66V	NM_198493	NP_940895	Q5TZF3	ANR45_HUMAN	ankyrin repeat domain 45	82											0						AAGCTGCATGGCCTGTTCATG	0.458													31	43					0	0	0.007291	0	0		A	173628361	A	A	173628361	3	1	71	1	0	0	0	0	1	0	0	0	673	1203	42	2	623	2	ANKRD45	1	173628361	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	13848958	173628361	75622260	4	47099											
TRAF3IP3	80342	broad.mit.edu	37	chr1	209933490	209933490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtgaaagccgccgctgcCgtcccaatgtgaccacttgc	7	8	10	16	4	0	2	0	2	0	0	2	2	2	2	6	0	3	1	6	0	2	1			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr1:209933490C>T	uc001hho.2	+	3	396	c.106C>T	c.(106-108)CGT>TGT	p.R36C	TRAF3IP3_uc001hhl.2_Missense_Mutation_p.R36C|TRAF3IP3_uc001hhm.1_Missense_Mutation_p.R36C|TRAF3IP3_uc001hhn.2_Missense_Mutation_p.R36C|TRAF3IP3_uc009xcr.2_Missense_Mutation_p.R36C	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	36	Cytoplasmic (Potential).					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		CCGCCGCTGCCGTCCCAATGT	0.637													9	31					0	0	0.006214	0	0		T	209933490	T	T	209933490	3	4	71	1	0	0	0	0	1	0	0	0	16468	652	23	1	108	1	TRAF3IP3	1	209933490	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	36305129	209933490	39317131	5	47100											
CCDC142	84865	broad.mit.edu	37	chr2	74709311	74709311	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgggacgtggctcaaggcTtttctctgtagtgtgtggta	5	14	14	8	1	2	0	1	0	1	0	3	1	2	1	1	4	0	4	1	4	3	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr2:74709311T>G	uc002slr.2	-	1	1047	c.654A>C	c.(652-654)AAA>AAC	p.K218N	TTC31_uc002sls.2_5'Flank|TTC31_uc010yrv.1_5'Flank|TTC31_uc002slt.2_5'Flank|TTC31_uc002slu.2_5'Flank|CCDC142_uc002slo.2_RNA|CCDC142_uc002slq.2_Missense_Mutation_p.K218N|CCDC142_uc002slp.2_Missense_Mutation_p.K218N	NM_032779	NP_116168	Q17RM4	CC142_HUMAN	coiled-coil domain containing 142	218										central_nervous_system(1)	1						GGCTCAAGGCTTTTCTCTGTA	0.682													5	14					0	0	0.000602	0	0		G	74709311	G	G	74709311	3	3	71	1	0	0	0	0	1	0	0	0	2779	1606	56	5	1613	5	CCDC142	2	74709311	Missense_Mutation	SNP	T	TCGA-BR-8370-01A-11D-2340-08		74709311	168490062	6	47101											
ASTL	431705	broad.mit.edu	37	chr2	96795681	96795681	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactgggggcccaaagtggTgtgatggtgggcagcccacg	8	6	17	10	1	0	1	0	1	0	0	0	1	0	1	2	5	1	1	2	5	1	0			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr2:96795681T>C	uc010yui.1	-	8	756	c.756A>G	c.(754-756)ACA>ACG	p.T252T		NM_001002036	NP_001002036	Q6HA08	ASTL_HUMAN	astacin-like metalloendopeptidase precursor	252					proteolysis		metalloendopeptidase activity|zinc ion binding				0						CCCAAAGTGGTGTGATGGTGG	0.662													16	36					0	0	0.003163	0	0		C	96795681	C	C	96795681	2	2	71	1	0	0	0	0	0	0	0	1	1064	1683	59	3		3	ASTL	2	96795681	Silent	SNP	T	TCGA-BR-8370-01A-11D-2340-08	22086370	96795681	146403692	7	47102											
CNTNAP5	129684	broad.mit.edu	37	chr2	125204502	125204502	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgagacggatgccttagaCattgactatgaggtgagttg	10	10	15	6	2	0	5	0	3	0	2	0	7	0	6	1	3	1	1	1	3	2	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr2:125204502C>A	uc002tno.2	+	6	1270	c.906C>A	c.(904-906)GAC>GAA	p.D302E	CNTNAP5_uc010flu.2_Missense_Mutation_p.D302E	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	302	Laminin G-like 1.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		ATGCCTTAGACATTGACTATG	0.552													12	42					2.27111e-07	2.61178e-07	0.001368	1	0		A	125204502	A	A	125204502	3	1	71	1	0	0	0	0	1	0	0	0	3653	477	17	5	928	5	CNTNAP5	2	125204502	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	28408821	125204502	117994871	8	47103											
TTN	7273	broad.mit.edu	37	chr2	179605938	179605938	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgctttacagatatagaGgccactgtcttccctctgag	8	13	8	12	0	3	3	0	1	3	2	4	3	4	3	2	1	2	1	2	1	3	5			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr2:179605938G>C	uc010zfh.1	-	46	11733	c.11509C>G	c.(11509-11511)CTC>GTC	p.L3837V	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.L3770V|TTN_uc010zfj.1_Missense_Mutation_p.L3645V|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGATATAGAGGCCACTGTCT	0.458													17	117					0	0	0.004007	0	0		C	179605938	C	C	179605938	3	2	71	1	0	0	0	0	1	0	0	0	16761	1000	35	5	92767	5	TTN	2	179605938	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	54401436	179605938	63593435	9	47104											
NEUROD1	4760	broad.mit.edu	37	chr2	182542847	182542847	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcgctgcgctgtaggcGtgcggcggaggcttaacgtg	5	8	17	11	6	0	0	0	0	0	0	1	1	1	1	1	4	4	4	1	4	2	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr2:182542847G>A	uc002uof.2	-	2	977	c.741C>T	c.(739-741)CAC>CAT	p.H247H	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	247					amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			CGCTGTAGGCGTGCGGCGGAG	0.612													20	64					0	0	0.008871	0	0		A	182542847	A	A	182542847	2	1	71	1	0	0	0	0	0	0	0	1	10367	1136	40	1		1	NEUROD1	2	182542847	Silent	SNP	G	TCGA-BR-8370-01A-11D-2340-08	2936909	182542847	60656526	10	47105											
ERBB4	2066	broad.mit.edu	37	chr2	212543834	212543834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctactgaagcggcgacacGacagacattggtctggccca	10	7	11	13	3	2	2	0	1	2	1	2	4	2	2	1	3	2	0	1	3	2	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr2:212543834G>A	uc002veg.1	-	13	1663	c.1565C>T	c.(1564-1566)TCG>TTG	p.S522L	ERBB4_uc002veh.1_Missense_Mutation_p.S522L|ERBB4_uc010zji.1_Missense_Mutation_p.S522L|ERBB4_uc010zjj.1_Missense_Mutation_p.S522L|ERBB4_uc010fut.1_Missense_Mutation_p.S522L	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	522	Extracellular (Potential).|Cys-rich.				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		GCGGCGACACGACAGACATTG	0.502										TSP Lung(8;0.080)			9	19					0	0	0.006214	0	0		A	212543834	A	A	212543834	3	1	71	1	0	0	0	0	1	0	0	0	5217	1059	37	1	2425	1	ERBB4	2	212543834	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	30000987	212543834	30655539	11	47106											
EFHB	151651	broad.mit.edu	37	chr3	19961394	19961394	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggatcatttgctcttccGtaaaatactctttctactcc	8	16	6	11	1	4	0	1	0	3	0	6	1	6	1	2	2	3	2	2	2	4	6			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr3:19961394G>A	uc003cbl.3	-	3	1123	c.927C>T	c.(925-927)TAC>TAT	p.Y309Y	EFHB_uc003cbm.2_Silent_p.Y179Y	NM_144715	NP_653316	Q8N7U6	EFHB_HUMAN	EF hand domain family, member B	309					signal transduction	proteinaceous extracellular matrix	calcium ion binding				0						TTGCTCTTCCGTAAAATACTC	0.348													28	83					0	0	0.002096	0	0		A	19961394	A	A	19961394	2	1	71	1	0	0	0	0	0	0	0	1	4951	1140	40	1		1	EFHB	3	19961394	Silent	SNP	G	TCGA-BR-8370-01A-11D-2340-08		19961394	178061036	12	47107											
NEK10	152110	broad.mit.edu	37	chr3	27326409	27326409	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactgaaatgctctccaagCggggctccttctatcagctc	9	10	9	13	1	3	1	1	1	2	0	6	2	4	1	2	2	4	3	2	2	4	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr3:27326409C>T	uc003cdt.1	-	22	2107	c.1833G>A	c.(1831-1833)CCG>CCA	p.P611P	NEK10_uc003cds.1_Silent_p.P8P	NM_199347	NP_955379	Q6ZWH5	NEK10_HUMAN	NIMA-related kinase 10 isoform 3	611	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						GCTCTCCAAGCGGGGCTCCTT	0.328													9	53					0	0	0.004482	0	0		T	27326409	T	T	27326409	2	4	71	1	0	0	0	0	0	0	0	1	10341	755	27	1		1	NEK10	3	27326409	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	7365015	27326409	170696021	13	47108											
ULK4	54986	broad.mit.edu	37	chr3	41288432	41288432	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcttgcctagtgcccaacGgcttggaggatttccagggc	6	11	12	12	1	1	0	0	0	1	0	2	2	2	2	3	4	3	1	3	4	2	5			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr3:41288432G>A	uc003ckv.3	-	37	4017	c.3816C>T	c.(3814-3816)GCC>GCT	p.A1272A	ULK4_uc003cku.3_RNA	NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	1272							ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		AGTGCCCAACGGCTTGGAGGA	0.537													4	13					0	0	0.000602	0	0		A	41288432	A	A	41288432	2	1	71	1	0	0	0	0	0	0	0	1	17004	1103	39	1		1	ULK4	3	41288432	Silent	SNP	G	TCGA-BR-8370-01A-11D-2340-08	13962023	41288432	156733998	14	47109											
NKTR	4820	broad.mit.edu	37	chr3	42680413	42680413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaggtaaacatgatacaGtgactgtttcatcagatctt	12	15	7	7	0	4	3	3	2	1	1	4	3	4	3	0	1	2	2	0	1	3	5			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr3:42680413G>A	uc003clo.2	+	13	3364	c.3217G>A	c.(3217-3219)GTG>ATG	p.V1073M	NKTR_uc003clm.1_Missense_Mutation_p.V820M|NKTR_uc003clp.2_Missense_Mutation_p.V820M|NKTR_uc011azp.1_Intron|NKTR_uc003clq.1_Missense_Mutation_p.V963M|NKTR_uc003clr.1_Missense_Mutation_p.V820M|NKTR_uc003cls.2_Missense_Mutation_p.V773M	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	1073					protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		ACATGATACAGTGACTGTTTC	0.323													31	70					0	0	0.002445	0	0		A	42680413	A	A	42680413	3	1	71	1	0	0	0	0	1	0	0	0	10467	1029	36	4	3263	4	NKTR	3	42680413	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	1391981	42680413	155342017	15	47110											
ARL6IP5	10550	broad.mit.edu	37	chr3	69134225	69134225	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaatatcgccccactccgCgcctgggacgatttcttccc	6	11	8	16	4	1	0	0	0	1	0	4	2	3	1	5	1	0	1	5	1	2	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr3:69134225C>T	uc003dnr.2	+	1	136	c.27C>T	c.(25-27)CGC>CGT	p.R9R		NM_006407	NP_006398	O75915	PRAF3_HUMAN	ADP-ribosylation-like factor 6 interacting	9	Cytoplasmic (By similarity).				L-glutamate transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.78e-05)|Epithelial(33;0.000818)|LUSC - Lung squamous cell carcinoma(21;0.0118)|Lung(16;0.0189)|KIRC - Kidney renal clear cell carcinoma(39;0.203)|Kidney(39;0.238)		CCCCACTCCGCGCCTGGGACG	0.582													13	39					0	0	0.004007	0	0		T	69134225	T	T	69134225	2	4	71	1	0	0	0	0	0	0	0	1	945	755	27	1		1	ARL6IP5	3	69134225	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	26453812	69134225	128888205	16	47111											
MITF	4286	broad.mit.edu	37	chr3	70014308	70014308	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcccgtcggtgtcactgAtccactcctttcctcagtgt	4	15	7	15	2	3	1	2	1	1	0	8	1	6	1	4	1	0	0	4	1	0	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr3:70014308A>G	uc003dnz.2	+	10	1588	c.1472A>G	c.(1471-1473)GAT>GGT	p.D491G	MITF_uc011bgb.1_Missense_Mutation_p.D439G|MITF_uc003doa.2_Missense_Mutation_p.D490G|MITF_uc003dob.2_Missense_Mutation_p.D475G|MITF_uc003dod.2_Missense_Mutation_p.D466G|MITF_uc003doe.2_Missense_Mutation_p.D384G|MITF_uc003dof.2_Missense_Mutation_p.D390G	NM_198159	NP_937802	O75030	MITF_HUMAN	microphthalmia-associated transcription factor	497					melanocyte differentiation|multicellular organismal development|protein complex assembly	nucleus|protein complex	DNA binding|protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			ovary(2)	2		Lung NSC(201;0.0384)|Prostate(884;0.0526)		BRCA - Breast invasive adenocarcinoma(55;3.07e-05)|Epithelial(33;0.000138)|LUSC - Lung squamous cell carcinoma(21;0.008)|Lung(16;0.0107)|KIRC - Kidney renal clear cell carcinoma(39;0.204)|Kidney(39;0.239)		GGTGTCACTGATCCACTCCTT	0.542			A		melanoma 		Waardenburg syndrome type 2|Tietz syndrome						19	55					0	0	0.006122	0	0		G	70014308	G	G	70014308	3	3	71	1	0	0	0	0	1	0	0	0	9614	333	12	3	1749	3	MITF	3	70014308	Missense_Mutation	SNP	A	TCGA-BR-8370-01A-11D-2340-08	880083	70014308	128008122	17	47112											
FSTL1	11167	broad.mit.edu	37	chr3	120128474	120128474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccactggatgatgcgacGtcggagctcatcacggttgg	8	8	14	11	4	2	1	2	1	0	0	3	4	2	3	1	4	3	2	1	4	0	1			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr3:120128474G>A	uc003eds.2	-	6	542	c.367C>T	c.(367-369)CGT>TGT	p.R123C	FSTL1_uc011bjh.1_Missense_Mutation_p.R88C	NM_007085	NP_009016	Q12841	FSTL1_HUMAN	follistatin-like 1 precursor	123					BMP signaling pathway	extracellular space	calcium ion binding|heparin binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.189)		ATGATGCGACGTCGGAGCTCA	0.502													24	33					0	0	0.002299	0	0		A	120128474	A	A	120128474	3	1	71	1	0	0	0	0	1	0	0	0	6091	1145	40	1	583	1	FSTL1	3	120128474	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	50114166	120128474	77893956	18	47113											
MED12L	116931	broad.mit.edu	37	chr3	150834128	150834128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taccgtctcttgaacaggatGaacttactgctgtgaatgta	11	13	9	8	1	1	3	0	3	1	0	2	4	1	4	1	1	5	2	1	1	6	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr3:150834128G>A	uc003eyp.2	+	2	141	c.103G>A	c.(103-105)GAA>AAA	p.E35K	MED12L_uc011bnz.1_Missense_Mutation_p.E35K|MED12L_uc003eym.1_Missense_Mutation_p.E35K|MED12L_uc003eyn.2_Missense_Mutation_p.E35K|MED12L_uc003eyo.2_Missense_Mutation_p.E35K	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	35					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TGAACAGGATGAACTTACTGC	0.378													9	31					0	0	0.006214	0	0		A	150834128	A	A	150834128	3	1	71	1	0	0	0	0	1	0	0	0	9447	1291	45	4	109	4	MED12L	3	150834128	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	30705654	150834128	47188302	19	47114											
IGSF10	285313	broad.mit.edu	37	chr3	151165492	151165492	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctttttagctttctccaaCagtgccgcccaatgttgtgg	6	16	8	11	1	2	0	0	0	2	0	3	0	2	0	3	1	3	2	3	1	3	6			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr3:151165492C>A	uc011bod.1	-	4	2277	c.2277G>T	c.(2275-2277)CTG>CTT	p.L759L		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	759					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTTTCTCCAACAGTGCCGCCC	0.507													13	53					0.00136819	0.00140305	0.001368	1	0		A	151165492	A	A	151165492	2	1	71	1	0	0	0	0	0	0	0	1	7613	465	17	5		5	IGSF10	3	151165492	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	331364	151165492	46856938	20	47115											
GAK	2580	broad.mit.edu	37	chr4	877125	877125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgtggaacctggagggcCggtaggtcctcggggacagg	6	7	20	8	2	0	0	0	0	0	0	2	3	1	3	3	9	1	2	3	9	2	2	rs145652195	byFrequency	TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr4:877125C>T	uc003gbm.3	-	13	1581	c.1382G>A	c.(1381-1383)CGG>CAG	p.R461Q	GAK_uc003gbn.3_Missense_Mutation_p.R382Q|GAK_uc010ibk.1_Missense_Mutation_p.R355Q|GAK_uc003gbl.3_Missense_Mutation_p.R325Q	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	461	Phosphatase tensin-type.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		CCTGGAGGGCCGGTAGGTCCT	0.592													16	54					0	0	0.007413	0	0		T	877125	T	T	877125	3	4	71	1	0	0	0	0	1	0	0	0	6210	652	23	1	2617	1	GAK	4	877125	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08		877125	190277151	21	47116											
HTT	3064	broad.mit.edu	37	chr4	3134614	3134614	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgagtcttctgttacttgCaagttagcttgtacagctgt	8	16	10	7	0	2	1	0	1	2	0	2	2	2	1	0	0	5	6	0	0	4	6			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr4:3134614C>T	uc011bvq.1	+	19	2620	c.2475C>T	c.(2473-2475)TGC>TGT	p.C825C		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	823	HEAT 4.			C -> S (in Ref. 2; BAA36753).	establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		CTGTTACTTGCAAGTTAGCTT	0.388													42	107					0	0	0.002522	0	0		T	3134614	T	T	3134614	2	4	71	1	0	0	0	0	0	0	0	1	7473	718	25	2		2	HTT	4	3134614	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	2257489	3134614	188019662	22	47117											
AFAP1	60312	broad.mit.edu	37	chr4	7787971	7787971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgaagtgccgtcccgctggGgtgggcatagccgttggagg	6	8	18	9	3	0	1	0	1	0	0	1	2	1	2	3	5	2	3	3	5	2	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr4:7787971G>A	uc003gkg.1	-	12	1753	c.1480C>T	c.(1480-1482)CCC>TCC	p.P494S	AFAP1_uc011bwk.1_Missense_Mutation_p.P494S	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	494						actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						GTCCCGCTGGGGTGGGCATAG	0.498													34	93					0	0	0.002445	0	0		A	7787971	A	A	7787971	3	1	71	1	0	0	0	0	1	0	0	0	353	1232	43	4	992	4	AFAP1	4	7787971	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	4653357	7787971	183366305	23	47118											
BANK1	55024	broad.mit.edu	37	chr4	102776247	102776247	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctacgagcaaaacattcTggggaaataagtgagagaaa	18	6	11	6	1	1	2	0	1	1	1	1	6	1	3	1	2	3	1	1	2	6	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr4:102776247T>C	uc003hvy.3	+	3	799	c.525T>C	c.(523-525)TCT>TCC	p.S175S	BANK1_uc003hvx.3_Silent_p.S160S|BANK1_uc010ill.2_Silent_p.S42S|BANK1_uc003hvz.3_Silent_p.S145S	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	175					B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		CAAAACATTCTGGGGAAATAA	0.373													20	43					0	0	0.008871	0	0		C	102776247	C	C	102776247	2	2	71	1	0	0	0	0	0	0	0	1	1310	1567	55	3		3	BANK1	4	102776247	Silent	SNP	T	TCGA-BR-8370-01A-11D-2340-08	94988276	102776247	88378029	24	47119											
TRPC3	7222	broad.mit.edu	37	chr4	122800956	122800956	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgaattagaatggctaattCctcagttgcttggctcttgt	9	16	9	7	0	2	2	1	1	1	1	3	2	3	2	1	2	1	4	1	2	4	6			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr4:122800956C>A	uc003ieg.2	-	12	2775	c.2701G>T	c.(2701-2703)GAA>TAA	p.E901*	TRPC3_uc010inr.2_Nonsense_Mutation_p.E773*|TRPC3_uc003ief.2_Nonsense_Mutation_p.E828*|TRPC3_uc011cgl.1_Nonsense_Mutation_p.E565*	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	816	Extracellular (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						ATGGCTAATTCCTCAGTTGCT	0.363													16	54					1.5739e-10	1.87702e-10	0.004007	1	0		A	122800956	A	A	122800956	4	1	71	1	0	0	0	0	0	1	0	0	16605	864	30	5	68	5	TRPC3	4	122800956	Nonsense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	20024709	122800956	68353320	25	47120											
PCDH10	57575	broad.mit.edu	37	chr4	134076167	134076167	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcatgatgccaccaaccgtgCccagtcagctggtaagtgtg	9	9	11	12	1	2	1	2	1	0	0	2	1	2	1	4	1	4	2	4	1	2	1			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr4:134076167C>A	uc003iha.2	+	3	3612	c.2786C>A	c.(2785-2787)GCC>GAC	p.A929D		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	929	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		ACCAACCGTGCCCAGTCAGCT	0.423													13	42					2.32078e-09	2.70758e-09	0.003163	1	0		A	134076167	A	A	134076167	3	1	71	1	0	0	0	0	1	0	0	0	11526	739	26	5	2856	5	PCDH10	4	134076167	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	11275211	134076167	57078109	26	47121											
LRBA	987	broad.mit.edu	37	chr4	151242451	151242451	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggctgccacgtgagtaacagGggagttggagggaaacttga	11	7	17	6	1	0	2	0	2	0	0	0	5	0	5	1	5	3	3	1	5	2	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr4:151242451G>C	uc010ipj.2	-	51	8029	c.7555C>G	c.(7555-7557)CCT>GCT	p.P2519A	LRBA_uc010ipi.2_Missense_Mutation_p.P41A|LRBA_uc003ils.3_Missense_Mutation_p.P414A|LRBA_uc003ilt.3_Missense_Mutation_p.P1167A|LRBA_uc003ilu.3_Missense_Mutation_p.P2508A	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2519						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TGAGTAACAGGGGAGTTGGAG	0.512													24	71					0	0	0.00278	0	0		C	151242451	C	C	151242451	3	2	71	1	0	0	0	0	1	0	0	0	8949	1232	43	5	1068	5	LRBA	4	151242451	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	17166284	151242451	39911825	27	47122											
MTRR	4552	broad.mit.edu	37	chr5	7897003	7897003	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccaagaacaacacccagAtggaaattttggagcaatgt	16	8	8	9	0	0	2	0	0	0	2	1	4	1	4	2	2	3	1	2	2	5	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr5:7897003A>G	uc003jed.2	+	13	1814	c.1784A>G	c.(1783-1785)GAT>GGT	p.D595G	MTRR_uc003jee.3_Missense_Mutation_p.D568G|MTRR_uc003jef.3_RNA|MTRR_uc003jeg.3_RNA|MTRR_uc010ito.2_RNA	NM_024010	NP_076915	Q9UBK8	MTRR_HUMAN	methionine synthase reductase isoform 2	595					methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	CAACACCCAGATGGAAATTTT	0.348													19	45					0	0	0.010504	0	0		G	7897003	G	G	7897003	3	3	71	1	0	0	0	0	1	0	0	0	9979	333	12	3	1834	3	MTRR	5	7897003	Missense_Mutation	SNP	A	TCGA-BR-8370-01A-11D-2340-08		7897003	173018257	28	47123											
HTR1A	3350	broad.mit.edu	37	chr5	63256626	63256626	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggaccagcctcgctgggCagaggcaagtgctctttgga	8	8	15	10	1	1	1	0	0	1	1	2	3	1	3	2	4	2	5	2	4	2	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr5:63256626C>A	uc011cqt.1	-	1	921	c.921G>T	c.(919-921)CTG>CTT	p.L307L		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	307	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	CCTCGCTGGGCAGAGGCAAGT	0.647													9	35					1.12685e-05	1.24262e-05	0.004482	1	0		A	63256626	A	A	63256626	2	1	71	1	0	0	0	0	0	0	0	1	7452	697	25	5		5	HTR1A	5	63256626	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	55359623	63256626	117658634	29	47124											
MAP1B	4131	broad.mit.edu	37	chr5	71492953	71492953	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagcccatcgaagagcccGtccctgagtccatctccacc	8	7	8	18	2	2	2	1	1	1	1	6	3	4	2	6	0	2	0	6	0	1	0			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr5:71492953G>A	uc003kbw.3	+	5	4012	c.3771G>A	c.(3769-3771)CCG>CCA	p.P1257P	MAP1B_uc010iyw.1_Silent_p.P1274P|MAP1B_uc010iyx.1_Silent_p.P1131P|MAP1B_uc010iyy.1_Silent_p.P1131P	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1257						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		CGAAGAGCCCGTCCCTGAGTC	0.498													11	63					0	0	0.000978	0	0		A	71492953	A	A	71492953	2	1	71	1	0	0	0	0	0	0	0	1	9246	1132	40	1		1	MAP1B	5	71492953	Silent	SNP	G	TCGA-BR-8370-01A-11D-2340-08	8236327	71492953	109422307	30	47125											
TNPO1	3842	broad.mit.edu	37	chr5	72157667	72157667	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caactatagcctccaagggaGaattgcagaattggcctgac	13	8	10	10	0	0	3	0	1	0	2	1	4	1	3	3	2	3	1	3	2	6	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr5:72157667G>C	uc003kck.3	+	5	535	c.388G>C	c.(388-390)GAA>CAA	p.E130Q	TNPO1_uc011csi.1_Intron|TNPO1_uc011csj.1_Missense_Mutation_p.E80Q|TNPO1_uc003kch.2_Missense_Mutation_p.E122Q|TNPO1_uc003kci.3_Missense_Mutation_p.E122Q|TNPO1_uc003kcg.3_Missense_Mutation_p.E122Q	NM_002270	NP_002261	Q92973	TNPO1_HUMAN	transportin 1 isoform 1	130					interspecies interaction between organisms|mRNA metabolic process|protein import into nucleus, translocation	cytosol|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			skin(3)|urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)	7		Lung NSC(167;0.0053)|Ovarian(174;0.0175)		OV - Ovarian serous cystadenocarcinoma(47;6.14e-54)		CTCCAAGGGAGAATTGCAGAA	0.383													16	57					0	0	0.006122	0	0		C	72157667	C	C	72157667	3	2	71	1	0	0	0	0	1	0	0	0	16360	943	33	5	406	5	TNPO1	5	72157667	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	664714	72157667	108757593	31	47126											
GPR98	84059	broad.mit.edu	37	chr5	89938513	89938513	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccgtgacctaattattttGgaaaatgatgaccctggggg	11	11	12	7	1	0	3	0	3	0	0	0	4	0	4	3	3	1	0	3	3	4	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr5:89938513G>C	uc003kju.2	+	12	2397	c.2301G>C	c.(2299-2301)TTG>TTC	p.L767F	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	767	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TAATTATTTTGGAAAATGATG	0.408													38	90					0	0	0.003755	0	0		C	89938513	C	C	89938513	3	2	71	1	0	0	0	0	1	0	0	0	6737	1339	47	5	2347	5	GPR98	5	89938513	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	17780846	89938513	90976747	32	47127											
ARSK	153642	broad.mit.edu	37	chr5	94918625	94918625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgccccctcagtaatcGtgtggaagcgtggacaagag	9	11	12	9	2	1	1	1	0	0	1	2	3	1	3	2	2	2	1	2	2	3	3	rs149960886		TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr5:94918625G>A	uc003kld.2	+	4	580	c.422G>A	c.(421-423)CGT>CAT	p.R141H	ARSK_uc010jbg.2_Translation_Start_Site|ARSK_uc011cum.1_RNA	NM_198150	NP_937793	Q6UWY0	ARSK_HUMAN	arylsulfatase K precursor	141						extracellular region	arylsulfatase activity|metal ion binding			pancreas(1)	1		all_cancers(142;3.38e-06)|all_epithelial(76;6.57e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.00473)		all cancers(79;6.5e-16)		CTCAGTAATCGTGTGGAAGCG	0.373													33	105					0	0	0.004878	0	0		A	94918625	A	A	94918625	3	1	71	1	0	0	0	0	1	0	0	0	997	1145	40	1	436	1	ARSK	5	94918625	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	4980112	94918625	85996635	33	47128											
SLCO6A1	133482	broad.mit.edu	37	chr5	101813546	101813546	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggcaaccactgacaacCtttatttcttcgcaaatatc	11	13	4	13	1	2	1	0	1	2	0	4	1	2	1	2	1	2	2	2	1	5	5			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr5:101813546C>A	uc003knn.2	-	3	808	c.636G>T	c.(634-636)AAG>AAT	p.K212N	SLCO6A1_uc003kno.2_Intron|SLCO6A1_uc003knp.2_Missense_Mutation_p.K212N|SLCO6A1_uc003knq.2_Intron	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	212	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		CACTGACAACCTTTATTTCTT	0.338													23	86					9.95505e-16	1.27203e-15	0.002299	1	0		A	101813546	A	A	101813546	3	1	71	1	0	0	0	0	1	0	0	0	14757	680	24	5	1567	5	SLCO6A1	5	101813546	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	6894921	101813546	79101714	34	47129											
IRF1	3659	broad.mit.edu	37	chr5	131823676	131823676	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttgatgtcccagccatgCttggcagcatgcttccatgg	6	13	11	11	0	0	1	0	1	0	0	2	1	2	1	3	2	4	5	3	2	0	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr5:131823676C>T	uc003kxa.2	-	3	363	c.129G>A	c.(127-129)AAG>AAA	p.K43K	IRF1_uc003kxd.2_Intron|IRF1_uc003kxb.2_Silent_p.K43K|IRF1_uc010jdt.1_Silent_p.K43K	NM_002198	NP_002189	P10914	IRF1_HUMAN	interferon regulatory factor 1	43	IRF tryptophan pentad repeat.				blood coagulation|cellular response to mechanical stimulus|interferon-gamma-mediated signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleoplasm					0		all_cancers(142;0.026)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	LUAD - Lung adenocarcinoma(142;0.247)		CCCAGCCATGCTTGGCAGCAT	0.537													5	48					0	0	0.000602	0	0		T	131823676	T	T	131823676	2	4	71	1	0	0	0	0	0	0	0	1	7843	796	28	2		2	IRF1	5	131823676	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	30010130	131823676	49091584	35	47130											
PCDHB7	56129	broad.mit.edu	37	chr5	140553614	140553614	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagccatctgtcgaaaacTtctatactctggtaacagag	13	11	8	9	1	3	2	0	1	3	1	4	3	3	2	1	1	4	1	1	1	6	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr5:140553614T>G	uc003lit.2	+	1	1372	c.1198T>G	c.(1198-1200)TTC>GTC	p.F400V		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	400	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGTCGAAAACTTCTATACTCT	0.478													15	49					0	0	0.00245	0	0		G	140553614	G	G	140553614	3	3	71	1	0	0	0	0	1	0	0	0	11566	1609	56	5	1200	5	PCDHB7	5	140553614	Missense_Mutation	SNP	T	TCGA-BR-8370-01A-11D-2340-08	8729938	140553614	40361646	36	47131											
FGF18	8817	broad.mit.edu	37	chr5	170863172	170863172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctcgggacgatgtgagcCgtaagcagctgcggctgtac	7	7	17	10	4	0	1	0	1	0	0	1	3	0	2	1	3	5	6	1	3	2	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr5:170863172C>T	uc003mbk.2	+	3	682	c.145C>T	c.(145-147)CGT>TGT	p.R49C		NM_003862	NP_003853	O76093	FGF18_HUMAN	fibroblast growth factor 18 precursor	49					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell proliferation	extracellular space|nucleolus	growth factor activity|type 1 fibroblast growth factor receptor binding|type 2 fibroblast growth factor receptor binding				0	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CGATGTGAGCCGTAAGCAGCT	0.627													8	18					0	0	0.00308	0	0		T	170863172	T	T	170863172	3	4	71	1	0	0	0	0	1	0	0	0	5860	652	23	1	155	1	FGF18	5	170863172	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	30309558	170863172	10052088	37	47132											
DBN1	1627	broad.mit.edu	37	chr5	176886156	176886156	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgcgaggaggtgacctcatCcagggcccgctctatctgct	6	9	12	14	2	3	1	1	1	2	0	4	3	4	2	3	3	2	2	3	3	1	1			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr5:176886156C>T	uc003mgy.2	-	11	1241	c.1069G>A	c.(1069-1071)GAT>AAT	p.D357N	DBN1_uc011dga.1_Missense_Mutation_p.D89N|DBN1_uc003mgx.2_Missense_Mutation_p.D359N|DBN1_uc010jkn.1_Missense_Mutation_p.D307N|DBN1_uc003mgz.1_Missense_Mutation_p.D340N	NM_004395	NP_004386	Q16643	DREB_HUMAN	drebrin 1 isoform a	357					actin filament organization|regulation of dendrite development|regulation of neuronal synaptic plasticity	actomyosin|cytoplasm|dendrite	actin binding|profilin binding			breast(3)|ovary(1)|lung(1)|skin(1)	6	all_cancers(89;2.17e-05)|Renal(175;0.000269)|Lung NSC(126;0.0014)|all_lung(126;0.0025)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTGACCTCATCCAGGGCCCGC	0.677													10	66					0	0	0.008291	0	0		T	176886156	T	T	176886156	3	4	71	1	0	0	0	0	1	0	0	0	4255	855	30	4	896	4	DBN1	5	176886156	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	6022984	176886156	4029104	38	47133											
HIVEP1	3096	broad.mit.edu	37	chr6	12120918	12120918	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcccaaatccaaccaacAtaatcaacagcttccggggt	13	9	6	13	1	1	0	1	0	0	0	4	0	4	0	4	2	4	2	4	2	5	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr6:12120918A>G	uc003nac.2	+	4	1069	c.890A>G	c.(889-891)CAT>CGT	p.H297R	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	297					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				TCCAACCAACATAATCAACAG	0.418													9	103					0	0	0.004482	0	0		G	12120918	G	G	12120918	3	3	71	1	0	0	0	0	1	0	0	0	7202	217	8	3	900	3	HIVEP1	6	12120918	Missense_Mutation	SNP	A	TCGA-BR-8370-01A-11D-2340-08		12120918	158994149	39	47134											
HIST1H2BD	3017	broad.mit.edu	37	chr6	26158551	26158551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgaagcaggtccatcccGacaccggcatctcttccaag	9	8	9	15	2	1	1	0	1	1	0	5	2	4	1	4	2	2	3	4	2	2	1			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr6:26158551G>A	uc003ngr.2	+	1	203	c.154G>A	c.(154-156)GAC>AAC	p.D52N	HIST1H2BD_uc003ngs.2_Missense_Mutation_p.D52N	NM_021063	NP_066407	P58876	H2B1D_HUMAN	histone cluster 1, H2bd	52					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|pancreas(1)	2						GGTCCATCCCGACACCGGCAT	0.557													18	177					0	0	0.010504	0	0		A	26158551	A	A	26158551	3	1	71	1	0	0	0	0	1	0	0	0	7159	1058	37	1	156	1	HIST1H2BD	6	26158551	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	14037633	26158551	144956516	40	47135											
ZNF184	7738	broad.mit.edu	37	chr6	27420700	27420700	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttttttaactgggtttGaattctgtttgatgcttctt	5	23	7	6	0	3	2	0	2	3	0	4	2	3	2	0	1	2	3	0	1	2	8			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr6:27420700G>T	uc003njj.2	-	5	1449	c.638C>A	c.(637-639)TCA>TAA	p.S213*	ZNF184_uc010jqv.2_Nonsense_Mutation_p.S213*|ZNF184_uc003nji.2_Nonsense_Mutation_p.S213*	NM_007149	NP_009080	Q99676	ZN184_HUMAN	zinc finger protein 184	213					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AACTGGGTTTGAATTCTGTTT	0.363													51	132					1.35964e-18	1.77969e-18	0.00361	1	0		T	27420700	T	T	27420700	4	4	71	1	0	0	0	0	0	1	0	0	17776	1294	45	5	1621	5	ZNF184	6	27420700	Nonsense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	1262149	27420700	143694367	41	47136											
PKHD1	5314	broad.mit.edu	37	chr6	51910975	51910975	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggtgatgagcagaaatttGtacagggacatctgtgagag	14	9	14	4	0	1	4	0	3	1	2	1	6	1	5	0	2	2	2	0	2	3	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr6:51910975G>T	uc003pah.1	-	24	2695	c.2419C>A	c.(2419-2421)CAA>AAA	p.Q807K	PKHD1_uc003pai.2_Missense_Mutation_p.Q807K	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	807	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GCAGAAATTTGTACAGGGACA	0.418													39	103					2.45108e-15	3.10727e-15	0.00874	1	0		T	51910975	T	T	51910975	3	4	71	1	0	0	0	0	1	0	0	0	11990	1386	48	5	10020	5	PKHD1	6	51910975	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	24490275	51910975	119204092	42	47137											
COL12A1	1303	broad.mit.edu	37	chr6	75865563	75865563	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggtttctaggagacttaaaCcgagaagctgtaaagacaaa	17	8	10	6	1	1	3	0	0	1	3	1	5	1	3	1	2	2	3	1	2	7	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr6:75865563C>A	uc003phs.2	-	16	3424	c.3258G>T	c.(3256-3258)CGG>CGT	p.R1086R	COL12A1_uc003pht.2_Intron	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1086	Fibronectin type-III 8.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GAGACTTAAACCGAGAAGCTG	0.398													29	65					1.16021e-09	1.36346e-09	0.007291	1	0		A	75865563	A	A	75865563	2	1	71	1	0	0	0	0	0	0	0	1	3672	494	18	5		5	COL12A1	6	75865563	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	23954588	75865563	95249504	43	47138											
OCM	654231	broad.mit.edu	37	chr7	5923596	5923596	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtccttgatggctgcggcGgataatgatggagatgggaa	11	9	16	5	2	0	3	0	2	0	1	1	6	1	5	1	5	1	1	1	5	3	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr7:5923596G>A	uc003spe.3	+	3	362	c.270G>A	c.(268-270)GCG>GCA	p.A90A		NM_001097622	NP_001091091	P0CE72	ONCO_HUMAN	oncomodulin	90	EF-hand 2.						calcium ion binding				0		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0978)|OV - Ovarian serous cystadenocarcinoma(56;2.11e-14)		TGGCTGCGGCGGATAATGATG	0.493													7	40					0	0	0.001368	0	0		A	5923596	A	A	5923596	2	1	71	1	0	0	0	0	0	0	0	1	10840	1103	39	1		1	OCM	7	5923596	Silent	SNP	G	TCGA-BR-8370-01A-11D-2340-08		5923596	153215067	44	47139											
MEOX2	4223	broad.mit.edu	37	chr7	15652168	15652168	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagttccttttcccgagcCgcagctccttgctgtccacc	5	11	7	18	2	0	0	0	0	0	0	4	1	4	0	7	0	3	4	7	0	0	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr7:15652168C>T	uc003stc.2	-	3	1040	c.759G>A	c.(757-759)GCG>GCA	p.A253A	MEOX2_uc011jxw.1_Silent_p.A253A	NM_005924	NP_005915	P50222	MEOX2_HUMAN	mesenchyme homeobox 2	253					blood circulation|multicellular organismal development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.0822)		TTTCCCGAGCCGCAGCTCCTT	0.507													29	110					0	0	0.009535	0	0		T	15652168	T	T	15652168	2	4	71	1	0	0	0	0	0	0	0	1	9492	639	23	1		1	MEOX2	7	15652168	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	9728572	15652168	143486495	45	47140											
NOD1	10392	broad.mit.edu	37	chr7	30492160	30492160	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcggctcaggtccaagtcCgagtgcagctcgtccaggcc	7	6	13	15	4	1	0	1	0	0	0	5	1	4	0	4	3	2	3	4	3	1	0			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr7:30492160C>T	uc003tav.2	-	6	1396	c.873G>A	c.(871-873)TCG>TCA	p.S291S	NOD1_uc010kvs.2_Missense_Mutation_p.R246Q	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	291	NACHT.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						GGTCCAAGTCCGAGTGCAGCT	0.662													9	27					0	0	0.004482	0	0		T	30492160	T	T	30492160	2	4	71	1	0	0	0	0	0	0	0	1	10535	639	23	1		1	NOD1	7	30492160	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	14839992	30492160	128646503	46	47141											
GLI3	2737	broad.mit.edu	37	chr7	42005114	42005114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccaaaggcgcgagtctgcGgcacagcgggccgcggccca	8	2	15	16	6	1	0	0	0	1	0	1	1	1	0	3	4	2	1	3	4	1	0			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr7:42005114G>A	uc011kbh.1	-	15	3648	c.3557C>T	c.(3556-3558)CCG>CTG	p.P1186L	GLI3_uc011kbg.1_Missense_Mutation_p.P1127L	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1186					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GCGAGTCTGCGGCACAGCGGG	0.657									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				25	137					0	0	0.00333	0	0		A	42005114	A	A	42005114	3	1	71	1	0	0	0	0	1	0	0	0	6454	1116	39	1	1189	1	GLI3	7	42005114	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	11512954	42005114	117133549	47	47142											
ABCB1	5243	broad.mit.edu	37	chr7	87179298	87179298	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaacaatacaggttcctGactcaccacaccaatgattt	14	9	6	12	0	1	2	1	2	0	0	2	2	2	2	3	2	2	2	3	2	4	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr7:87179298G>T	uc003uiz.1	-	14	1841	c.1423C>A	c.(1423-1425)CAG>AAG	p.Q475K	ABCB1_uc011khc.1_Missense_Mutation_p.Q411K	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	475	ABC transporter 1.|Cytoplasmic (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	ACAGGTTCCTGACTCACCACA	0.423													40	146					2.66277e-13	3.29773e-13	0.006999	1	0		T	87179298	T	T	87179298	3	4	71	1	0	0	0	0	1	0	0	0	40	1299	45	5	2483	5	ABCB1	7	87179298	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	45174184	87179298	71959365	48	47143											
SAMD9L	219285	broad.mit.edu	37	chr7	92763591	92763591	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagagcttgatagaaagccCagaaagtttcaatgagtgga	15	9	12	5	0	1	5	1	3	0	3	1	7	1	6	1	1	2	2	1	1	4	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr7:92763591C>A	uc003umh.1	-	5	2910	c.1694G>T	c.(1693-1695)TGG>TTG	p.W565L	SAMD9L_uc003umj.1_Missense_Mutation_p.W565L|SAMD9L_uc003umi.1_Missense_Mutation_p.W565L|SAMD9L_uc010lfb.1_Missense_Mutation_p.W565L|SAMD9L_uc003umk.1_Missense_Mutation_p.W565L|SAMD9L_uc010lfc.1_Missense_Mutation_p.W565L|SAMD9L_uc010lfd.1_Missense_Mutation_p.W565L|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	565										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			ATAGAAAGCCCAGAAAGTTTC	0.353													28	73					8.24728e-16	1.06669e-15	0.004656	1	0		A	92763591	A	A	92763591	3	1	71	1	0	0	0	0	1	0	0	0	13852	595	21	5	3064	5	SAMD9L	7	92763591	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	5584293	92763591	66375072	49	47144											
NRCAM	4897	broad.mit.edu	37	chr7	107790508	107790508	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccttctccatagtcaactagGctgtcgtcactatcttcttt	7	16	5	13	1	5	0	2	0	3	0	7	0	5	0	2	1	1	1	2	1	4	6			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr7:107790508G>A	uc003vfb.2	-	33	4233	c.3762C>T	c.(3760-3762)AGC>AGT	p.S1254S	NRCAM_uc003vfc.2_Silent_p.S1133S|NRCAM_uc011kmk.1_Silent_p.S1156S|NRCAM_uc003vfd.2_Silent_p.S1137S|NRCAM_uc003vfe.2_Silent_p.S1125S|NRCAM_uc003vez.2_Silent_p.S37S|NRCAM_uc003vfa.2_Silent_p.S98S|NRCAM_uc011kmj.1_Silent_p.S100S	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	1254	Cytoplasmic (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						AGTCAACTAGGCTGTCGTCAC	0.438													38	161					0	0	0.00874	0	0		A	107790508	A	A	107790508	2	1	71	1	0	0	0	0	0	0	0	1	10663	1194	42	2		2	NRCAM	7	107790508	Silent	SNP	G	TCGA-BR-8370-01A-11D-2340-08	15026917	107790508	51348155	50	47145											
CPA1	1357	broad.mit.edu	37	chr7	130022031	130022031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaacacctatgaagggcGtcccatttacgtgctgaagg	10	9	12	10	2	0	2	0	2	0	0	1	2	1	2	2	3	3	2	2	3	5	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr7:130022031G>A	uc003vpx.2	+	4	536	c.464G>A	c.(463-465)CGT>CAT	p.R155H	CPA1_uc011kpf.1_Missense_Mutation_p.R67H|CPA1_uc003vpw.2_Intron	NM_001868	NP_001859	P15085	CBPA1_HUMAN	carboxypeptidase A1 precursor	155					proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					TATGAAGGGCGTCCCATTTAC	0.552													20	65					0	0	0.001882	0	0		A	130022031	A	A	130022031	3	1	71	1	0	0	0	0	1	0	0	0	3792	1145	40	1	478	1	CPA1	7	130022031	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	22231523	130022031	29116632	51	47146											
DENND2A	27147	broad.mit.edu	37	chr7	140285465	140285465	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acttctttcccaggcagcgaCcatgtaactcgatgtcctca	9	11	7	14	2	2	0	1	0	1	0	5	2	4	0	3	1	2	2	3	1	1	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr7:140285465C>A	uc010lnj.2	-	3	1314	c.1169G>T	c.(1168-1170)GGT>GTT	p.G390V	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.G390V|DENND2A_uc003vvw.2_Missense_Mutation_p.G390V|DENND2A_uc003vvx.2_Missense_Mutation_p.G390V	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	390										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					CAGGCAGCGACCATGTAACTC	0.502													15	141					0.000219431	0.000233963	0.00245	1	0		A	140285465	A	A	140285465	3	1	71	1	0	0	0	0	1	0	0	0	4435	507	18	5	1924	5	DENND2A	7	140285465	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	10263434	140285465	18853198	52	47147											
MLL3	58508	broad.mit.edu	37	chr7	151927335	151927335	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaacttgtcactgctagaAaacaacacaactgtattgtg	14	11	8	8	0	1	2	1	1	0	1	1	2	1	2	0	0	5	2	0	0	7	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr7:151927335A>G	uc003wla.2	-	17	3060	c.2841T>C	c.(2839-2841)TTT>TTC	p.F947F	MLL3_uc003wkz.2_Silent_p.F8F	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	947					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CACTGCTAGAAAACAACACAA	0.338			N		medulloblastoma								10	47					0	0	0.006214	0	0		G	151927335	G	G	151927335	2	3	71	1	0	0	0	0	0	0	0	1	9640	11	1	3		3	MLL3	7	151927335	Silent	SNP	A	TCGA-BR-8370-01A-11D-2340-08	11641870	151927335	7211328	53	47148											
CSMD1	64478	broad.mit.edu	37	chr8	2823423	2823423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcttgttgaaggtgaagtCggtcccaaactggatgccat	10	11	12	8	1	1	2	0	2	1	0	3	3	2	3	2	3	2	1	2	3	3	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr8:2823423C>T	uc011kwk.1	-	59	9547	c.9157G>A	c.(9157-9159)GAC>AAC	p.D3053N	CSMD1_uc011kwj.1_Missense_Mutation_p.D2382N|CSMD1_uc010lrg.2_Intron	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3053	Extracellular (Potential).|Sushi 24.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		AAGGTGAAGTCGGTCCCAAAC	0.463													4	13					0	0	0.009096	0	0		T	2823423	T	T	2823423	3	4	71	1	0	0	0	0	1	0	0	0	3947	884	31	1	1588	1	CSMD1	8	2823423	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08		2823423	143540599	54	47149											
CSGALNACT1	55790	broad.mit.edu	37	chr8	19362779	19362779	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaggactgttcagggtCtccaaggctgattcaatggc	8	11	12	10	0	4	1	2	1	2	0	5	2	4	2	1	4	1	3	1	4	2	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr8:19362779C>A	uc011kyn.1	-	4	1631	c.567G>T	c.(565-567)GAG>GAT	p.E189D	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.E189D|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.E188D|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	189	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		TGTTCAGGGTCTCCAAGGCTG	0.537													19	68					8.28177e-16	1.06669e-15	0.007413	1	0		A	19362779	A	A	19362779	3	1	71	1	0	0	0	0	1	0	0	0	3941	912	32	5	1059	5	CSGALNACT1	8	19362779	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	16539356	19362779	127001243	55	47150											
KCTD9	54793	broad.mit.edu	37	chr8	25287389	25287389	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attctcatctgacactttgtGacatgtgtagtggtgtcagc	8	15	10	8	0	3	2	2	2	2	0	4	2	3	2	0	1	1	1	0	1	1	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr8:25287389G>C	uc003xeo.2	-	12	1312	c.1154C>G	c.(1153-1155)TCA>TGA	p.S385*	PPP2R2A_uc003xek.2_Intron|KCTD9_uc011lad.1_RNA	NM_017634	NP_060104	Q7L273	KCTD9_HUMAN	potassium channel tetramerisation domain	385						voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		GACACTTTGTGACATGTGTAG	0.423													61	108					0	0	0.00361	0	0		C	25287389	C	C	25287389	4	2	71	1	0	0	0	0	0	1	0	0	8132	1294	45	5	19	5	KCTD9	8	25287389	Nonsense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	5924610	25287389	121076633	56	47151											
TRPA1	8989	broad.mit.edu	37	chr8	72975180	72975180	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtacccatgctcttcacCttgagaagaaaataacattc	14	11	5	11	0	2	2	1	1	1	2	3	3	2	2	2	0	3	2	2	0	5	5			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr8:72975180C>A	uc003xza.2	-	6	837	c.662_splice	c.e6-1	p.G221_splice		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1							integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	TGCTCTTCACCTTGAGAAGAA	0.333													8	41					0.000157383	0.000168925	0.00308	1	0		A	72975180	A	A	72975180	5	1	71	1	0	0	0	0	0	0	1	0	16603	695	24	5	2786	5	TRPA1	8	72975180	Splice_Site	SNP	C	TCGA-BR-8370-01A-11D-2340-08	47687791	72975180	73388842	57	47152											
KCNK9	51305	broad.mit.edu	37	chr8	140631116	140631116	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggccgccccgatgcacagCgtccccatgcaggagaagaa	10	3	13	15	4	0	2	0	0	0	2	1	4	1	2	5	2	3	2	5	2	2	0			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr8:140631116C>T	uc003yvf.1	-	2	574	c.510G>A	c.(508-510)ACG>ACA	p.T170T	KCNK9_uc003yvg.1_Silent_p.T170T|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	170	Helical; (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			CGATGCACAGCGTCCCCATGC	0.567													10	45					0	0	0.000978	0	0		T	140631116	T	T	140631116	2	4	71	1	0	0	0	0	0	0	0	1	8088	755	27	1		1	KCNK9	8	140631116	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	67655936	140631116	5732906	58	47153											
MPDZ	8777	broad.mit.edu	37	chr9	13122132	13122132	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcttccatctttacatgctGctccttcttcataaacttca	8	17	3	13	0	5	0	2	0	3	0	7	0	7	0	2	0	4	2	2	0	3	7			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr9:13122132G>T	uc010mia.1	-	36	5048	c.4991C>A	c.(4990-4992)GCA>GAA	p.A1664E	MPDZ_uc003zkx.3_5'Flank|MPDZ_uc003zky.3_Intron|MPDZ_uc010mib.2_Missense_Mutation_p.A369E|MPDZ_uc010mhx.2_Missense_Mutation_p.A486E|MPDZ_uc011lmm.1_Missense_Mutation_p.A523E|MPDZ_uc003zkz.3_Missense_Mutation_p.A357E|MPDZ_uc010mhy.2_Missense_Mutation_p.A1664E|MPDZ_uc010mhz.2_Missense_Mutation_p.A1631E|MPDZ_uc011lmn.1_Missense_Mutation_p.A1631E|MPDZ_uc003zlb.3_Missense_Mutation_p.A1664E	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1664	PDZ 10.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		TTTACATGCTGCTCCTTCTTC	0.423													11	33					0.000673444	0.000704055	0.008291	1	0		T	13122132	T	T	13122132	3	4	71	1	0	0	0	0	1	0	0	0	9740	1319	46	5	1174	5	MPDZ	9	13122132	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08		13122132	128091299	59	47154											
BNC2	54796	broad.mit.edu	37	chr9	16436468	16436468	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcccctggagtgagtaaaCttctataaaatggaggaact	13	12	9	7	0	1	1	0	1	1	0	2	4	2	4	2	3	2	1	2	3	6	5			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr9:16436468C>A	uc003zml.2	-	6	1864	c.1724G>T	c.(1723-1725)AGT>ATT	p.S575I	BNC2_uc011lmw.1_Missense_Mutation_p.S480I|BNC2_uc003zmm.2_Missense_Mutation_p.S533I|BNC2_uc003zmq.1_Missense_Mutation_p.S589I|BNC2_uc003zmr.1_Missense_Mutation_p.S612I|BNC2_uc003zmp.1_Missense_Mutation_p.S603I|BNC2_uc010mij.1_Missense_Mutation_p.S497I|BNC2_uc011lmv.1_Missense_Mutation_p.S401I|BNC2_uc003zmo.1_Missense_Mutation_p.S497I|BNC2_uc003zmj.2_Missense_Mutation_p.S340I|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.S340I|BNC2_uc003zmn.1_Missense_Mutation_p.S340I	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	575	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		AGTGAGTAAACTTCTATAAAA	0.522													22	63					2.37509e-13	2.96426e-13	0.010504	1	0		A	16436468	A	A	16436468	3	1	71	1	0	0	0	0	1	0	0	0	1476	565	20	5	1583	5	BNC2	9	16436468	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	3314336	16436468	124776963	60	47155											
LINGO2	158038	broad.mit.edu	37	chr9	27950590	27950590	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actcacagcgagcggggcagCcaatggtggatcccatgaag	11	5	14	11	2	1	1	1	1	0	0	2	3	2	2	2	4	3	1	2	4	2	0			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr9:27950590C>A	uc003zqu.1	-	2	274	c.80G>T	c.(79-81)GGC>GTC	p.G27V	LINGO2_uc010mjf.1_Missense_Mutation_p.G27V|LINGO2_uc003zqv.1_Missense_Mutation_p.G27V	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	27						integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		AGCGGGGCAGCCAATGGTGGA	0.527													22	33					2.89027e-11	3.49875e-11	0.002299	1	0		A	27950590	A	A	27950590	3	1	71	1	0	0	0	0	1	0	0	0	8832	739	26	5	1744	5	LINGO2	9	27950590	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	11514122	27950590	113262841	61	47156											
C9orf135	138255	broad.mit.edu	37	chr9	72435945	72435945	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccggtgttggtgtattcCtggtgagcgaagtcccctcg	6	11	14	10	3	0	1	0	1	0	0	3	2	2	1	4	3	2	2	4	3	3	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr9:72435945C>T	uc004ahl.2	+	1	215	c.150C>T	c.(148-150)TCC>TCT	p.S50S	C9orf135_uc011lrw.1_5'UTR|C9orf135_uc010moq.2_5'UTR|C9orf135_uc011lrx.1_RNA|C9orf135_uc010mop.2_Silent_p.S50S|uc004ahk.2_5'Flank	NM_001010940	NP_001010940	Q5VTT2	CI135_HUMAN	hypothetical protein LOC138255	50	Extracellular (Potential).					integral to membrane				ovary(1)	1						TGGTGTATTCCTGGTGAGCGA	0.418													5	29					0	0	0.001168	0	0		T	72435945	T	T	72435945	2	4	71	1	0	0	0	0	0	0	0	1	2461	668	24	4		4	C9orf135	9	72435945	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	44485355	72435945	68777486	62	47157											
OR1J2	26740	broad.mit.edu	37	chr9	125273810	125273810	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgtccacatgtggctccCatctctctgtggtgtctctc	4	15	8	14	0	3	0	0	0	3	0	8	0	5	0	2	2	0	1	2	2	0	1			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr9:125273810C>A	uc004bmj.1	+	4	1585	c.730C>A	c.(730-732)CAT>AAT	p.H244N	OR1J2_uc011lyv.1_Missense_Mutation_p.H244N	NM_054107	NP_473448	Q8NGS2	OR1J2_HUMAN	olfactory receptor, family 1, subfamily J,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|pancreas(1)|breast(1)	5						ATGTGGCTCCCATCTCTCTGT	0.468													34	110					8.4185e-14	1.05889e-13	0.002445	1	0		A	125273810	A	A	125273810	3	1	71	1	0	0	0	0	1	0	0	0	10979	594	21	5	732	5	OR1J2	9	125273810	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	52837865	125273810	15939621	63	47158											
FAM21A	387680	broad.mit.edu	37	chr10	51863872	51863872	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggcaagctccccacgtTggtttccctgtttgatgatg	5	13	11	12	1	0	2	0	2	0	0	2	2	2	2	4	2	1	5	4	2	1	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr10:51863872T>C	uc001jjb.2	+	18	1788	c.1706T>C	c.(1705-1707)TTG>TCG	p.L569S	FAM21A_uc001jja.1_Missense_Mutation_p.L321S|FAM21A_uc010qhi.1_Missense_Mutation_p.L569S|FAM21A_uc010qhj.1_Missense_Mutation_p.L569S|FAM21B_uc009xoq.2_Missense_Mutation_p.L481S	NM_001005751	NP_001005751	Q641Q2	FA21A_HUMAN	hypothetical protein LOC387680	569					retrograde transport, endosome to Golgi	early endosome membrane|WASH complex				ovary(1)	1						CTCCCCACGTTGGTTTCCCTG	0.388													2	0					0	0	0.004672	0	0		C	51863872	C	C	51863872	3	2	71	1	0	0	0	0	1	0	0	0	5551	1821	63	3	1776	3	FAM21A	10	51863872	Missense_Mutation	SNP	T	TCGA-BR-8370-01A-11D-2340-08		51863872	83670875	64	47159											
CDH23	64072	broad.mit.edu	37	chr10	73569654	73569654	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acttcgtggtggacattgtgGcccgagacctggcaggccac	7	8	14	12	2	0	1	0	0	0	1	1	3	0	2	3	5	0	1	3	5	0	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr10:73569654G>T	uc001jrx.3	+	59	9177	c.8800G>T	c.(8800-8802)GCC>TCC	p.A2934S	CDH23_uc001jsg.3_Missense_Mutation_p.A694S|CDH23_uc001jsh.3_Missense_Mutation_p.A694S|CDH23_uc001jsi.3_Missense_Mutation_p.A694S|CDH23_uc001jsj.3_5'Flank|CDH23_uc010qjr.1_5'Flank	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	2934	Cadherin 27.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GGACATTGTGGCCCGAGACCT	0.617													31	83					9.65021e-13	1.18602e-12	0.002096	1	0		T	73569654	T	T	73569654	3	4	71	1	0	0	0	0	1	0	0	0	3111	1203	42	5	9383	5	CDH23	10	73569654	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	21705782	73569654	61965093	65	47160											
C10orf12	26148	broad.mit.edu	37	chr10	98744132	98744132	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaacctgcccactccagcCagtacccggattcttagaaa	12	7	7	15	1	1	1	0	0	1	1	2	2	2	2	5	1	4	2	5	1	4	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr10:98744132C>T	uc001kmv.2	+	1	3092	c.2985C>T	c.(2983-2985)GCC>GCT	p.A995A		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	995										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		CCACTCCAGCCAGTACCCGGA	0.473													32	64					0	0	0.002445	0	0		T	98744132	T	T	98744132	2	4	71	1	0	0	0	0	0	0	0	1	1592	581	21	4		4	C10orf12	10	98744132	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	25174478	98744132	36790615	66	47161											
DUSP5	1847	broad.mit.edu	37	chr10	112257894	112257894	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcggcatgaaggtcacgtcGctcgacgggcgccagctgcg	6	5	17	13	7	1	1	1	1	0	0	3	2	1	1	1	4	2	3	1	4	1	0			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr10:112257894G>A	uc001kzd.2	+	1	270	c.15G>A	c.(13-15)TCG>TCA	p.S5S		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	5					endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		AGGTCACGTCGCTCGACGGGC	0.547													4	9					0	0	0.000602	0	0		A	112257894	A	A	112257894	2	1	71	1	0	0	0	0	0	0	0	1	4834	1074	38	1		1	DUSP5	10	112257894	Silent	SNP	G	TCGA-BR-8370-01A-11D-2340-08	13513762	112257894	23276853	67	47162											
PDZD8	118987	broad.mit.edu	37	chr10	119044050	119044050	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttcaagttttaaactaaCatgccccaaacagatgagac	16	10	5	10	0	2	2	1	1	1	2	2	3	2	2	2	0	4	1	2	0	5	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr10:119044050C>A	uc001lde.1	-	5	2393	c.2194G>T	c.(2194-2196)GTT>TTT	p.V732F		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	732					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		TTTAAACTAACATGCCCCAAA	0.438													16	52					2.23348e-06	2.53233e-06	0.004007	1	0		A	119044050	A	A	119044050	3	1	71	1	0	0	0	0	1	0	0	0	11724	478	17	5	1274	5	PDZD8	10	119044050	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	6786156	119044050	16490697	68	47163											
HBG1	3047	broad.mit.edu	37	chr11	5269687	5269687	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctttgccgaaatggattgCcaaaacggtcaccagcacat	12	10	8	11	2	2	0	1	0	1	0	2	2	2	1	3	2	4	1	3	2	3	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr11:5269687C>A	uc001mah.1	-	3	399	c.346G>T	c.(346-348)GCA>TCA	p.A116S	HBG2_uc001mai.1_Missense_Mutation_p.A116S	NM_000559	NP_000550	P69891	HBG1_HUMAN	A-gamma globin	116					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity|protein binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAATGGATTGCCAAAACGGTC	0.532													9	22					2.27111e-07	2.61178e-07	0.001368	1	0		A	5269687	A	A	5269687	3	1	71	1	0	0	0	0	1	0	0	0	6998	739	26	5	101	5	HBG1	11	5269687	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08		5269687	129736829	69	47164											
WEE1	7465	broad.mit.edu	37	chr11	9610042	9610042	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagctgcagctgaggaaagaGcactcttcactgaccggatg	12	7	12	10	1	2	3	1	2	1	1	2	5	2	5	1	2	4	4	1	2	2	1			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr11:9610042G>T	uc001mhs.2	+	11	2087	c.1834G>T	c.(1834-1836)GCA>TCA	p.A612S	WEE1_uc001mht.2_Missense_Mutation_p.A398S	NM_003390	NP_003381	P30291	WEE1_HUMAN	WEE1 tyrosine kinase isoform 1	612					blood coagulation|cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|S phase of mitotic cell cycle	nucleoplasm	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	5				all cancers(16;4.59e-09)|Epithelial(150;3.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0484)		TGAGGAAAGAGCACTCTTCAC	0.423													23	56					2.70639e-06	3.04706e-06	0.002299	1	0		T	9610042	T	T	9610042	3	4	71	1	0	0	0	0	1	0	0	0	17370	971	34	5	1876	5	WEE1	11	9610042	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	4340355	9610042	125396474	70	47165											
AMPD3	272	broad.mit.edu	37	chr11	10515007	10515007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggcagagaagcggggcCggaagatcaccctgcggcag	9	4	17	11	3	1	2	1	0	0	2	1	4	1	3	2	5	2	2	2	5	2	0			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr11:10515007C>T	uc001mio.1	+	7	1386	c.1051C>T	c.(1051-1053)CGG>TGG	p.R351W	AMPD3_uc010rbz.1_Missense_Mutation_p.R192W|AMPD3_uc001min.1_Missense_Mutation_p.R360W|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.R358W|AMPD3_uc009yfy.2_Missense_Mutation_p.R351W	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	351					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		GAAGCGGGGCCGGAAGATCAC	0.597													18	54					0	0	0.00499	0	0		T	10515007	T	T	10515007	3	4	71	1	0	0	0	0	1	0	0	0	587	643	23	1	1124	1	AMPD3	11	10515007	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	904965	10515007	124491509	71	47166											
NELL1	4745	broad.mit.edu	37	chr11	20907026	20907026	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atagaccctccagataccaaCcttcccccaggaatcaattt	13	9	4	15	0	1	2	1	0	0	2	3	3	3	3	6	1	2	0	6	1	5	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr11:20907026C>A	uc001mqe.2	+	5	696	c.543C>A	c.(541-543)AAC>AAA	p.N181K	NELL1_uc001mqf.2_Missense_Mutation_p.N181K|NELL1_uc009yid.2_Missense_Mutation_p.N209K|NELL1_uc010rdo.1_Missense_Mutation_p.N124K|NELL1_uc010rdp.1_Intron	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	181	TSP N-terminal.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						CAGATACCAACCTTCCCCCAG	0.408													11	55					9.31168e-06	1.03392e-05	0.001855	1	0		A	20907026	A	A	20907026	3	1	71	1	0	0	0	0	1	0	0	0	10352	506	18	5	561	5	NELL1	11	20907026	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	10392019	20907026	114099490	72	47167											
ACCSL	390110	broad.mit.edu	37	chr11	44077864	44077864	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacaagctgtgtcaactgCtccagaacacaggtactgag	13	7	10	11	0	1	2	1	1	0	1	2	2	2	2	1	1	6	4	1	1	4	1			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr11:44077864C>A	uc001mxw.1	+	11	1371	c.1315C>A	c.(1315-1317)CTC>ATC	p.L439I	ACCSL_uc009ykr.2_Missense_Mutation_p.L258I	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	439							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						GTGTCAACTGCTCCAGAACAC	0.537													4	28					0.00024832	0.000263023	0.009096	1	0		A	44077864	A	A	44077864	3	1	71	1	0	0	0	0	1	0	0	0	134	797	28	5	1357	5	ACCSL	11	44077864	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	23170838	44077864	90928652	73	47168											
FOLH1	2346	broad.mit.edu	37	chr11	49208203	49208203	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atttttaccttaccttatttCctctgaaaactttcccatat	10	19	1	11	0	1	1	0	1	1	0	3	1	3	1	4	0	3	0	4	0	6	8			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr11:49208203C>A	uc001ngy.2	-	5	893	c.632G>T	c.(631-633)GGA>GTA	p.G211V	FOLH1_uc001ngz.2_Missense_Mutation_p.G211V|FOLH1_uc009yly.2_Missense_Mutation_p.G196V|FOLH1_uc009ylz.2_Missense_Mutation_p.G196V|FOLH1_uc009yma.2_5'UTR	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	211	Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	TACCTTATTTCCTCTGAAAAC	0.323													6	52					0.00116845	0.0012059	0.001168	1	0		A	49208203	A	A	49208203	3	1	71	1	0	0	0	0	1	0	0	0	5993	855	30	5	1680	5	FOLH1	11	49208203	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	5130339	49208203	85798313	74	47169											
OR5T2	219464	broad.mit.edu	37	chr11	56000542	56000542	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgacattcttcatgttGaaatctagaacaaacttgaa	15	13	6	7	0	4	4	2	3	2	1	4	4	4	4	0	0	2	1	0	0	5	5			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr11:56000542G>T	uc010rjc.1	-	1	120	c.120C>A	c.(118-120)TTC>TTA	p.F40L		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	40	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TCTTCATGTTGAAATCTAGAA	0.358													24	68					4.4004e-07	5.02457e-07	0.00333	1	0		T	56000542	T	T	56000542	3	4	71	1	0	0	0	0	1	0	0	0	11201	1281	45	5	958	5	OR5T2	11	56000542	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	6792339	56000542	79005974	75	47170											
YPEL4	219539	broad.mit.edu	37	chr11	57413862	57413862	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcgctgttcagctggccCgcaacccacgttgaccctgt	6	8	12	15	3	1	1	1	1	0	0	1	2	1	1	3	2	2	5	3	2	1	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr11:57413862C>T	uc001nkv.3	-	4	646	c.202G>A	c.(202-204)GGG>AGG	p.G68R	uc001nkt.1_Intron|YPEL4_uc009ymk.2_RNA	NM_145008	NP_659445	Q96NS1	YPEL4_HUMAN	yippee-like 4	68						nucleolus					0						TCAGCTGGCCCGCAACCCACG	0.567													5	34					0	0	0.001984	0	0		T	57413862	T	T	57413862	3	4	71	1	0	0	0	0	1	0	0	0	17518	652	23	1	189	1	YPEL4	11	57413862	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	1413320	57413862	77592654	76	47171											
NOP2	4839	broad.mit.edu	37	chr12	6670140	6670140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtggctgataatggtgttgGtgactcccagccgatgcaag	9	10	14	8	1	0	2	0	2	0	0	1	3	1	2	2	3	2	3	2	3	2	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr12:6670140G>A	uc001qph.1	-	12	1472	c.1292C>T	c.(1291-1293)ACC>ATC	p.T431I	NOP2_uc009zeq.1_Missense_Mutation_p.T147I|NOP2_uc001qpi.1_Missense_Mutation_p.T431I|NOP2_uc001qpj.1_Intron	NM_001033714	NP_001028886	P46087	NOP2_HUMAN	nucleolar protein 1, 120kDa	435					positive regulation of cell proliferation|rRNA processing	nucleolus	protein binding|RNA binding|S-adenosylmethionine-dependent methyltransferase activity			ovary(2)	2						AATGGTGTTGGTGACTCCCAG	0.547													4	19					0	0	0.009096	0	0		A	6670140	A	A	6670140	3	1	71	1	0	0	0	0	1	0	0	0	10557	1261	44	4	1154	4	NOP2	12	6670140	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08		6670140	127181755	77	47172											
CHD4	1108	broad.mit.edu	37	chr12	6692406	6692406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgtagttgacctgtttacGgattctttttcctttgccca	6	19	7	9	1	1	1	0	1	1	0	2	2	2	2	3	1	2	3	3	1	2	9			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr12:6692406G>A	uc001qpo.2	-	26	4182	c.4018C>T	c.(4018-4020)CGT>TGT	p.R1340C	CHD4_uc001qpn.2_Missense_Mutation_p.R1333C|CHD4_uc001qpp.2_Missense_Mutation_p.R1337C|uc001qpq.1_3'UTR|SCARNA11_uc001qpr.1_5'Flank	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1340					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						ACCTGTTTACGGATTCTTTTT	0.562													137	71					0	0	0.00361	0	0		A	6692406	A	A	6692406	3	1	71	1	0	0	0	0	1	0	0	0	3330	1116	39	1	1780	1	CHD4	12	6692406	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	22266	6692406	127159489	78	47173											
KRAS	3845	broad.mit.edu	37	chr12	25380275	25380275	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcattgcactgtactcctcTtgacctgctgtgtcgagaat	7	14	8	12	1	2	2	1	1	1	1	4	3	3	2	2	0	3	3	2	0	2	3	rs17851045		TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr12:25380275T>G	uc001rgp.1	-	3	364	c.183A>C	c.(181-183)CAA>CAC	p.Q61H	KRAS_uc001rgq.1_Missense_Mutation_p.Q61H	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	61	GTP.		Q -> R (in a colorectal cancer sample; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.Q61H(140)|p.Q61L(51)|p.Q61R(44)|p.Q61K(24)|p.Q61P(11)|p.Q61E(10)|p.Q61D(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			TGTACTCCTCTTGACCTGCTG	0.423	Q61H(T3M4_PANCREAS)|Q61H(HS766T_PANCREAS)|Q61H(NCIH460_LUNG)|Q61H(NCIH1155_LUNG)|Q61H(CL11_LARGE_INTESTINE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			23	50					0	0	0.001882	0	0		G	25380275	G	G	25380275	3	3	71	1	0	0	0	0	1	0	0	0	8454	1606	56	5	519	5	KRAS	12	25380275	Missense_Mutation	SNP	T	TCGA-BR-8370-01A-11D-2340-08	18687869	25380275	108471620	79	47174											
LRP1	4035	broad.mit.edu	37	chr12	57572341	57572341	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtacagaggaccaacaccCagccctttgacctgcaggtg	10	7	11	13	0	0	2	0	1	0	1	0	3	0	3	4	3	4	2	4	3	2	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr12:57572341C>A	uc001snd.2	+	27	5027	c.4561C>A	c.(4561-4563)CAG>AAG	p.Q1521K		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1521	LDL-receptor class B 12.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GACCAACACCCAGCCCTTTGA	0.627													50	55					6.9144e-35	9.12474e-35	0.00361	1	0		A	57572341	A	A	57572341	3	1	71	1	0	0	0	0	1	0	0	0	8969	595	21	5	4667	5	LRP1	12	57572341	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	32192066	57572341	76279554	80	47175											
MON2	23041	broad.mit.edu	37	chr12	62954269	62954269	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttttctcttcctaatatAggagatttttcaagagcttg	9	20	6	6	0	2	2	1	0	1	2	4	3	3	2	1	1	1	1	1	1	4	10			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr12:62954269A>T	uc001sre.2	+	26	3801	c.3410_splice	c.e26-2	p.G1137_splice	MON2_uc009zqj.2_Splice_Site_p.G1137_splice|MON2_uc010ssl.1_Splice_Site_p.G1065_splice|MON2_uc010ssm.1_Splice_Site_p.G1114_splice|MON2_uc010ssn.1_Splice_Site_p.G1137_splice|MON2_uc001srf.2_Splice_Site_p.G900_splice|MON2_uc001srg.2_Silent_p.I11I	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog						Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		TTCCTAATATAGGAGATTTTT	0.333													6	111					0	0	0.001168	0	0		T	62954269	T	T	62954269	5	4	71	1	0	0	0	0	0	0	1	0	9718	434	15	5	3510	5	MON2	12	62954269	Splice_Site	SNP	A	TCGA-BR-8370-01A-11D-2340-08	5381928	62954269	70897626	81	47176											
HVCN1	84329	broad.mit.edu	37	chr12	111099055	111099055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggccaggggcaggggcaaCgtcaggggctgcagctctgc	6	4	20	11	1	2	0	1	0	1	0	2	0	2	0	1	8	4	5	1	8	1	0			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr12:111099055C>T	uc001trs.1	-	4	385	c.220G>A	c.(220-222)GTT>ATT	p.V74I	HVCN1_uc001trq.1_Missense_Mutation_p.V74I|HVCN1_uc001trt.1_Missense_Mutation_p.V74I|HVCN1_uc010syd.1_Missense_Mutation_p.V54I	NM_032369	NP_115745	Q96D96	HVCN1_HUMAN	hydrogen voltage-gated channel 1	74	Cytoplasmic (Potential).				response to pH|response to zinc ion	integral to membrane	voltage-gated proton channel activity			skin(1)	1						GCAGGGGCAACGTCAGGGGCT	0.532													16	47					0	0	0.004007	0	0		T	111099055	T	T	111099055	3	4	71	1	0	0	0	0	1	0	0	0	7478	536	19	1	621	1	HVCN1	12	111099055	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	48144786	111099055	22752840	82	47177											
GCN1L1	10985	broad.mit.edu	37	chr12	120600695	120600695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catcctgggaatgatctgatCcaggtgcctggtgataaagg	10	10	13	8	0	1	3	0	3	1	0	3	4	3	4	3	4	1	0	3	4	3	1			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr12:120600695C>T	uc001txo.2	-	20	2132	c.2119G>A	c.(2119-2121)GAT>AAT	p.D707N		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	707					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ATGATCTGATCCAGGTGCCTG	0.577													36	43					0	0	0.003271	0	0		T	120600695	T	T	120600695	3	4	71	1	0	0	0	0	1	0	0	0	6314	855	30	4	6052	4	GCN1L1	12	120600695	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	9501640	120600695	13251200	83	47178											
TMEM132D	121256	broad.mit.edu	37	chr12	129559375	129559375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacagctaacacactcttcCgcttggatttctggcaggat	10	11	8	12	1	2	0	0	0	2	0	3	2	3	2	1	3	3	3	1	3	2	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr12:129559375C>T	uc009zyl.1	-	9	2673	c.2345G>A	c.(2344-2346)CGG>CAG	p.R782Q	TMEM132D_uc001uia.2_Missense_Mutation_p.R320Q	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	782	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		CACACTCTTCCGCTTGGATTT	0.488													30	109					0	0	0.007291	0	0		T	129559375	T	T	129559375	3	4	71	1	0	0	0	0	1	0	0	0	16072	652	23	1	958	1	TMEM132D	12	129559375	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	8958680	129559375	4292520	84	47179											
ATP8A2	51761	broad.mit.edu	37	chr13	26106423	26106423	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaacagaagcgacacaaggCagacaatgcagttaacaaaa	20	4	9	8	1	0	2	0	0	0	2	0	3	0	2	0	1	4	4	0	1	7	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr13:26106423C>A	uc001uqk.2	+	5	576	c.434C>A	c.(433-435)GCA>GAA	p.A145E	ATP8A2_uc010tdi.1_Missense_Mutation_p.A105E|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc001uql.1_Missense_Mutation_p.A105E	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	105	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		CGACACAAGGCAGACAATGCA	0.328													5	30					0.00116845	0.0012059	0.001168	1	0		A	26106423	A	A	26106423	3	1	71	1	0	0	0	0	1	0	0	0	1194	710	25	5	452	5	ATP8A2	13	26106423	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08		26106423	89063455	85	47180											
RASA3	22821	broad.mit.edu	37	chr13	114780806	114780806	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccacatactgccgtaggttCtcctgcaacgggacacggca	9	8	10	14	3	1	0	0	0	1	0	3	1	2	1	3	3	4	4	3	3	3	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr13:114780806C>T	uc001vui.2	-	14	1415	c.1284G>A	c.(1282-1284)GAG>GAA	p.E428E	RASA3_uc010tkk.1_Silent_p.E396E|RASA3_uc001vuj.2_Silent_p.E45E	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	428	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			GCCGTAGGTTCTCCTGCAACG	0.667													9	32					0	0	0.008291	0	0		T	114780806	T	T	114780806	2	4	71	1	0	0	0	0	0	0	0	1	13087	912	32	4		4	RASA3	13	114780806	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	88674383	114780806	389072	86	47181											
PRKD1	5587	broad.mit.edu	37	chr14	30068863	30068863	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctaattgatttcttaccTgagtaattaaaaacttcgtt	12	18	4	7	1	2	2	0	2	2	0	4	2	2	2	1	0	2	2	1	0	6	8			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr14:30068863T>C	uc001wqh.2	-	14	2247	c.2066A>G	c.(2065-2067)CAG>CGG	p.Q689R		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	689	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		ATTTCTTACCTGAGTAATTAA	0.348													14	79					0	0	0.00245	0	0		C	30068863	C	C	30068863	3	2	71	1	0	0	0	0	1	0	0	0	12540	1594	55	3	692	3	PRKD1	14	30068863	Missense_Mutation	SNP	T	TCGA-BR-8370-01A-11D-2340-08		30068863	77280677	87	47182											
AK7	122481	broad.mit.edu	37	chr14	96904253	96904253	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgttacacacattttttaagGtatggctttcaatgatgacg	11	16	8	6	1	1	2	1	2	0	0	1	2	1	2	0	2	1	3	0	2	4	6			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr14:96904253G>A	uc001yfn.2	+	6	734	c.690_splice	c.e6+1	p.K230_splice		NM_152327	NP_689540	Q96M32	KAD7_HUMAN	adenylate kinase 7						cell projection organization	cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity			ovary(1)	1		all_cancers(154;0.0482)|all_epithelial(191;0.128)|Melanoma(154;0.155)		Epithelial(152;0.134)|COAD - Colon adenocarcinoma(157;0.228)		ATTTTTTAAGGTATGGCTTTC	0.398													10	24					0	0	0.008291	0	0		A	96904253	A	A	96904253	5	1	71	1	0	0	0	0	0	0	1	0	444	1275	44	4	713	4	AK7	14	96904253	Splice_Site	SNP	G	TCGA-BR-8370-01A-11D-2340-08	66835390	96904253	10445287	88	47183											
TP53BP1	7158	broad.mit.edu	37	chr15	43712659	43712659	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatctcgtgtgattttccCagagtaaaagtagccattgg	11	12	10	8	1	1	2	0	1	1	1	3	3	2	2	2	1	1	2	2	1	3	5			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr15:43712659C>A	uc001zrs.2	-	21	4658	c.4510G>T	c.(4510-4512)GGG>TGG	p.G1504W	TP53BP1_uc010udp.1_Missense_Mutation_p.G1504W|TP53BP1_uc001zrq.3_Missense_Mutation_p.G1509W|TP53BP1_uc001zrr.3_Missense_Mutation_p.G1509W|TP53BP1_uc010udq.1_Missense_Mutation_p.G1509W	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	1504	Interaction with dimethylated histone H4.				double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		GTGATTTTCCCAGAGTAAAAG	0.473								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					130	106					2.17066e-49	2.88823e-49	0.00361	1	0		A	43712659	A	A	43712659	3	1	71	1	0	0	0	0	1	0	0	0	16409	594	21	5	1440	5	TP53BP1	15	43712659	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08		43712659	58818733	89	47184											
SH3GL3	6457	broad.mit.edu	37	chr15	84255786	84255786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagaggcagcattagactatCacagacagtccacagagatt	15	8	9	9	0	1	4	1	0	0	4	2	5	2	4	1	1	1	2	1	1	3	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr15:84255786C>T	uc002bjw.2	+	7	871	c.676C>T	c.(676-678)CAC>TAC	p.H226Y	SH3GL3_uc010uot.1_Missense_Mutation_p.H226Y|SH3GL3_uc002bjx.2_Missense_Mutation_p.H157Y|SH3GL3_uc002bju.2_Missense_Mutation_p.H234Y|SH3GL3_uc002bjv.2_RNA	NM_003027	NP_003018	Q99963	SH3G3_HUMAN	SH3-domain GRB2-like 3	226	BAR.|Interaction with ARC (By similarity).				central nervous system development|endocytosis|signal transduction	early endosome membrane	identical protein binding|lipid binding			pancreas(1)|central_nervous_system(1)|skin(1)	3						ATTAGACTATCACAGACAGTC	0.502													7	11					0	0	0.00308	0	0		T	84255786	T	T	84255786	3	4	71	1	0	0	0	0	1	0	0	0	14277	826	29	4	702	4	SH3GL3	15	84255786	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	40543127	84255786	18275606	90	47185											
AQP8	343	broad.mit.edu	37	chr16	25228603	25228603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgagtgtcctggtacgaaCggtttgtgcagccatgtctg	6	11	15	9	3	1	0	0	0	1	0	2	2	2	0	2	3	4	3	2	3	2	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr16:25228603C>T	uc002doc.2	+	2	179	c.97C>T	c.(97-99)CGG>TGG	p.R33W		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	33	Cytoplasmic (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		CTGGTACGAACGGTTTGTGCA	0.572													39	174					0	0	0.00874	0	0		T	25228603	T	T	25228603	3	4	71	1	0	0	0	0	1	0	0	0	832	527	19	1	103	1	AQP8	16	25228603	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08		25228603	65126150	91	47186											
RLTPR	146206	broad.mit.edu	37	chr16	67683840	67683840	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccaggcgcagcgcagccGcccggaactgacagcacgtg	8	2	15	16	5	0	1	0	1	0	0	0	2	0	2	3	3	4	3	3	3	1	0			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr16:67683840G>T	uc002etn.2	+	21	2171	c.2051G>T	c.(2050-2052)CGC>CTC	p.R684L	RLTPR_uc010cel.1_Missense_Mutation_p.R677L|RLTPR_uc010vjr.1_Missense_Mutation_p.R648L	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	684	LRR 16.									breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		CAGCGCAGCCGCCCGGAACTG	0.647													4	22					0.00909568	0.00926838	0.009096	1	0		T	67683840	T	T	67683840	3	4	71	1	0	0	0	0	1	0	0	0	13419	1087	38	5	2133	5	RLTPR	16	67683840	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	42455237	67683840	22670913	92	47187											
CDH1	999	broad.mit.edu	37	chr16	68844181	68844181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcacggtaaccgatcagaatGacaacaagcccgaattcacc	15	6	7	13	3	3	2	3	1	0	1	3	4	3	2	3	1	3	1	3	1	5	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr16:68844181G>A	uc002ewg.1	+	6	893	c.769G>A	c.(769-771)GAC>AAC	p.D257N	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.D257N	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	257	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.?(2)|p.D257G(1)|p.D254fs*9(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		CGATCAGAATGACAACAAGCC	0.463			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				52	54					0	0	0.00361	0	0		A	68844181	A	A	68844181	3	1	71	1	0	0	0	0	1	0	0	0	3098	1290	45	4	791	4	CDH1	16	68844181	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	1160341	68844181	21510572	93	47188											
COTL1	23406	broad.mit.edu	37	chr16	84600451	84600451	+	Nonstop_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgtggcgggggctggggTtactccgtctgggcgtcgta	2	11	20	8	4	1	0	0	0	1	0	3	0	2	0	1	7	1	3	1	7	2	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr16:84600451T>G	uc002fid.2	-	4	578	c.429A>C	c.(427-429)TAA>TAC	p.*143Y	COTL1_uc002fie.2_3'UTR|COTL1_uc010chk.2_RNA|COTL1_uc002fif.1_RNA	NM_021149	NP_066972	Q14019	COTL1_HUMAN	coactosin-like 1	143						cytoplasm|cytoskeleton	actin binding|enzyme binding			skin(1)	1						GGGGCTGGGGTTACTCCGTCT	0.622													4	24					0	0	0.008291	0	0		G	84600451	G	G	84600451	4	3	71	1	0	0	0	0	0	0	0	0	3764	1732	60	5	3	5	COTL1	16	84600451	Nonstop_Mutation	SNP	T	TCGA-BR-8370-01A-11D-2340-08	15756270	84600451	5754302	94	47189											
IL17C	27189	broad.mit.edu	37	chr16	88705717	88705717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catctcaccctggagataccGgtgaggacctggggattccg	8	8	13	12	2	1	2	1	1	1	1	3	5	2	4	4	5	1	0	4	5	1	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr16:88705717G>A	uc002fla.2	+	2	384	c.335G>A	c.(334-336)CGT>CAT	p.R112H		NM_013278	NP_037410	Q9P0M4	IL17C_HUMAN	interleukin 17C precursor	112					cell surface receptor linked signaling pathway|cell-cell signaling|inflammatory response	extracellular space|soluble fraction	cytokine activity				0				BRCA - Breast invasive adenocarcinoma(80;0.0477)		TGGAGATACCGGTGAGGACCT	0.687													4	9					0	0	0.009096	0	0		A	88705717	A	A	88705717	3	1	71	1	0	0	0	0	1	0	0	0	7652	1130	39	1	341	1	IL17C	16	88705717	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	4105266	88705717	1649036	95	47190											
CCDC42	146849	broad.mit.edu	37	chr17	8646997	8646997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcagttgggcttccttaaCgcccagttcctcccagcgca	6	11	8	16	2	1	0	1	0	0	0	4	0	4	0	4	1	2	4	4	1	1	5	rs145016058		TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr17:8646997C>T	uc002gln.2	-	3	468	c.241G>A	c.(241-243)GTT>ATT	p.V81I	CCDC42_uc002glo.2_Missense_Mutation_p.V81I	NM_144681	NP_653282	Q96M95	CCD42_HUMAN	coiled-coil domain containing 42 isoform 1	81	Potential.									ovary(1)	1						GCTTCCTTAACGCCCAGTTCC	0.587													9	38					0	0	0.000978	0	0		T	8646997	T	T	8646997	3	4	71	1	0	0	0	0	1	0	0	0	2817	536	19	1	729	1	CCDC42	17	8646997	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08		8646997	72548213	96	47191											
SARM1	23098	broad.mit.edu	37	chr17	26686415	26686415	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tataaacggatcacccgcaaCgtcacttgtcaggtaaggac	13	8	9	11	3	3	0	3	0	0	0	3	2	3	2	1	3	2	2	1	3	5	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr17:26686415C>T	uc010wah.1	+	3	370	c.363C>T	c.(361-363)AAC>AAT	p.N121N	POLDIP2_uc002haz.2_5'Flank|POLDIP2_uc010wag.1_5'Flank|TMEM199_uc002hba.2_Silent_p.N121N	NM_152464	NP_689677	Q6SZW1	SARM1_HUMAN	transmembrane protein 199	Error:Variant_position_missing_in_Q6SZW1_after_alignment					innate immune response	cytoplasm|intrinsic to membrane	binding|transmembrane receptor activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		TCACCCGCAACGTCACTTGTC	0.468													13	33					0	0	0.001368	0	0		T	26686415	T	T	26686415	2	4	71	1	0	0	0	0	0	0	0	1	13867	535	19	1		1	SARM1	17	26686415	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	18039418	26686415	54508795	97	47192											
NF1	4763	broad.mit.edu	37	chr17	29662040	29662040	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caagcaaaaatatggggaagCcttgggcaggtattgagttt	13	10	13	5	0	0	1	0	1	0	0	0	2	0	2	1	4	2	4	1	4	6	5			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr17:29662040C>T	uc002hgg.2	+	40	6330	c.5997C>T	c.(5995-5997)AGC>AGT	p.S1999S	NF1_uc002hgh.2_Silent_p.S1978S|NF1_uc010cso.2_Silent_p.S187S|NF1_uc010wbt.1_5'Flank|NF1_uc010wbu.1_5'Flank	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	1999					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TATGGGGAAGCCTTGGGCAGG	0.284			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			8	42					0	0	0.00308	0	0		T	29662040	T	T	29662040	2	4	71	1	0	0	0	0	0	0	0	1	10375	738	26	2		2	NF1	17	29662040	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	2975625	29662040	51533170	98	47193											
MAPT	4137	broad.mit.edu	37	chr17	44073913	44073913	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgtactccacccaagtcGccgtcttccgccaagagccg	7	7	9	18	5	1	1	0	0	1	1	5	1	4	1	7	0	2	1	7	0	3	2	rs115142761	by1000genomes	TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr17:44073913G>A	uc002ijr.3	+	10	1976	c.1656G>A	c.(1654-1656)TCG>TCA	p.S552S	MAPT_uc010dau.2_Silent_p.S570S|MAPT_uc002ijs.3_Silent_p.S235S|MAPT_uc002ijx.3_Silent_p.S206S|MAPT_uc002ijt.3_Silent_p.S177S|MAPT_uc002iju.3_Silent_p.S177S|MAPT_uc002ijv.3_Silent_p.S184S|STH_uc002ijy.2_5'Flank	NM_016835	NP_058519	P10636	TAU_HUMAN	microtubule-associated protein tau isoform 1	552				S->A: 70% decrease in microtubule-binding after in vitro phosphorylation of mutant protein.|S->E: No association with plasma membrane.	cellular component disassembly involved in apoptosis|microtubule cytoskeleton organization|negative regulation of microtubule depolymerization|positive regulation of axon extension|positive regulation of microtubule polymerization|regulation of autophagy	axon|cytosol|growth cone|microtubule|microtubule associated complex|nuclear periphery|plasma membrane|tubulin complex	apolipoprotein E binding|enzyme binding|identical protein binding|lipoprotein particle binding|microtubule binding|protein binding|SH3 domain binding|structural constituent of cytoskeleton			pancreas(1)	1		Melanoma(429;0.216)				CACCCAAGTCGCCGTCTTCCG	0.662													10	19					0	0	0.006214	0	0		A	44073913	A	A	44073913	2	1	71	1	0	0	0	0	0	0	0	1	9315	1074	38	1		1	MAPT	17	44073913	Silent	SNP	G	TCGA-BR-8370-01A-11D-2340-08	14411873	44073913	37121297	99	47194											
GRIN2C	2905	broad.mit.edu	37	chr17	72846372	72846372	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatgccgttccatacgccGcgcacccgcttgccatgctt	6	10	8	17	5	1	0	1	0	0	0	2	0	2	0	5	0	4	4	5	0	1	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr17:72846372G>A	uc002jlt.1	-	6	1620	c.1464C>T	c.(1462-1464)CGC>CGT	p.R488R	GRIN2C_uc010wrh.1_RNA|GRIN2C_uc002jlu.1_Silent_p.R488R	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	488	Extracellular (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	TCCATACGCCGCGCACCCGCT	0.622													27	84					0	0	0.003954	0	0		A	72846372	A	A	72846372	2	1	71	1	0	0	0	0	0	0	0	1	6797	1074	38	1		1	GRIN2C	17	72846372	Silent	SNP	G	TCGA-BR-8370-01A-11D-2340-08	28772459	72846372	8348838	100	47195											
LAMA1	284217	broad.mit.edu	37	chr18	7049076	7049076	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgccgtcccatactcaCgcgtctggtaacaataggat	10	9	10	12	3	2	0	1	0	1	0	3	2	3	2	2	3	3	1	2	3	4	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr18:7049076C>T	uc002knm.2	-	5	862	c.768_splice	c.e5+1	p.R256_splice	LAMA1_uc010wzj.1_Splice_Site	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor						axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCCATACTCACGCGTCTGGTA	0.413													32	48					0	0	0.008361	0	0		T	7049076	T	T	7049076	5	4	71	1	0	0	0	0	0	0	1	0	8621	550	19	1	8694	1	LAMA1	18	7049076	Splice_Site	SNP	C	TCGA-BR-8370-01A-11D-2340-08		7049076	71028172	101	47196											
C18orf26	284254	broad.mit.edu	37	chr18	52265293	52265293	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactgtacctgcaagtacaGccactgaatctacaacttca	14	9	5	13	0	2	1	1	1	1	0	2	1	2	1	2	0	7	3	2	0	7	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr18:52265293G>T	uc002lfq.1	+	3	596	c.550G>T	c.(550-552)GCC>TCC	p.A184S	C18orf26_uc002lfp.1_Missense_Mutation_p.A132S	NM_173629	NP_775900	Q8N1N2	CR026_HUMAN	hypothetical protein LOC284254	184	Thr-rich.					integral to membrane					0				Colorectal(16;0.0193)|READ - Rectum adenocarcinoma(59;0.178)		TGCAAGTACAGCCACTGAATC	0.463													12	60					3.07112e-06	3.43368e-06	0.000978	1	0		T	52265293	T	T	52265293	3	4	71	1	0	0	0	0	1	0	0	0	1903	971	34	5	560	5	C18orf26	18	52265293	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	45216217	52265293	25811955	102	47197											
ZNF555	148254	broad.mit.edu	37	chr19	2852504	2852504	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacagtatgaatacaacacGtacggaaaagtcttcatgca	18	8	7	8	2	2	1	1	1	1	0	2	2	2	2	0	1	5	3	0	1	8	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr19:2852504G>A	uc002lwo.2	+	4	530	c.441G>A	c.(439-441)ACG>ACA	p.T147T	ZNF555_uc002lwn.3_Silent_p.T146T	NM_152791	NP_690004	Q8NEP9	ZN555_HUMAN	zinc finger protein 555	147					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AATACAACACGTACGGAAAAG	0.458													7	70					0	0	0.001984	0	0		A	2852504	A	A	2852504	2	1	71	1	0	0	0	0	0	0	0	1	18011	1132	40	1		1	ZNF555	19	2852504	Silent	SNP	G	TCGA-BR-8370-01A-11D-2340-08		2852504	56276479	103	47198											
C3	718	broad.mit.edu	37	chr19	6707512	6707512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctccgtgagctgcacggaaCggcgtcggcgggcggctggc	4	6	18	13	7	1	1	0	1	1	0	3	2	1	2	1	6	3	3	1	6	1	0			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr19:6707512C>T	uc002mfm.2	-	16	2074	c.2012G>A	c.(2011-2013)CGT>CAT	p.R671H		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	671					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		CTGCACGGAACGGCGTCGGCG	0.647													15	70					0	0	0.004007	0	0		T	6707512	T	T	6707512	3	4	71	1	0	0	0	0	1	0	0	0	2207	536	19	1	3083	1	C3	19	6707512	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	3855008	6707512	52421471	104	47199											
OR7D2	162998	broad.mit.edu	37	chr19	9296503	9296503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttagagtttatccttctcGgactctctgaggatccagaa	9	15	8	9	1	2	3	0	1	2	2	6	5	4	5	2	2	0	1	2	2	3	5			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr19:9296503G>A	uc002mkz.1	+	1	234	c.46G>A	c.(46-48)GGA>AGA	p.G16R		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	16	Extracellular (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						TATCCTTCTCGGACTCTCTGA	0.413													29	36					0	0	0.00632	0	0		A	9296503	A	A	9296503	3	1	71	1	0	0	0	0	1	0	0	0	11238	1117	39	1	48	1	OR7D2	19	9296503	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	2588991	9296503	49832480	105	47200											
ZNF560	147741	broad.mit.edu	37	chr19	9578204	9578204	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctatcttcaataacaccTgaggatgtaccaaaggcctt	12	12	6	11	0	3	1	1	1	2	0	3	2	3	2	3	2	2	1	3	2	5	6			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr19:9578204T>C	uc002mlp.1	-	10	1629	c.1419A>G	c.(1417-1419)TCA>TCG	p.S473S	ZNF560_uc010dwr.1_Silent_p.S367S	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	473					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						CAATAACACCTGAGGATGTAC	0.388													49	241					0	0	0.00361	0	0		C	9578204	C	C	9578204	2	2	71	1	0	0	0	0	0	0	0	1	18016	1567	55	3		3	ZNF560	19	9578204	Silent	SNP	T	TCGA-BR-8370-01A-11D-2340-08	281701	9578204	49550779	106	47201											
C19orf56	51398	broad.mit.edu	37	chr19	12779424	12779424	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagcgacccaagcacacCacttcagctagggaaaggta	15	4	10	12	1	1	1	1	0	0	1	1	3	1	2	2	2	3	3	2	2	4	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr19:12779424C>T	uc002mud.2	-	3	412	c.164G>A	c.(163-165)TGG>TAG	p.W55*	MAN2B1_uc002mub.2_5'Flank|MAN2B1_uc010dyv.1_5'Flank|WDR83_uc002mue.3_5'UTR|WDR83_uc002muc.2_RNA|WDR83_uc010dyw.2_5'Flank	NM_016145	NP_057229	Q9Y284	CS056_HUMAN	hypothetical protein LOC51398	55	Helical; (Potential).					integral to membrane					0						CCAAGCACACCACTTCAGCTA	0.522													13	30					0	0	0.00245	0	0		T	12779424	T	T	12779424	4	4	71	1	0	0	0	0	0	1	0	0	1941	595	21	4	164	4	C19orf56	19	12779424	Nonsense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	3201220	12779424	46349559	107	47202											
EPHX3	79852	broad.mit.edu	37	chr19	15342889	15342889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccggcacagcacgtgcGtgagcgctatgcagccgtag	7	5	17	12	5	0	1	0	1	0	0	0	1	0	1	2	3	5	5	2	3	2	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr19:15342889G>A	uc002nap.2	-	1	343	c.134C>T	c.(133-135)ACG>ATG	p.T45M	EPHX3_uc002naq.2_Missense_Mutation_p.T45M	NM_024794	NP_079070	Q9H6B9	EPHX3_HUMAN	abhydrolase domain containing 9 precursor	45						extracellular region	hydrolase activity				0						CAGCACGTGCGTGAGCGCTAT	0.736													3	4					0	0	0.009096	0	0		A	15342889	A	A	15342889	3	1	71	1	0	0	0	0	1	0	0	0	5189	1145	40	1	976	1	EPHX3	19	15342889	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	2563465	15342889	43786094	108	47203											
ZNF85	7639	broad.mit.edu	37	chr19	21131567	21131567	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttatgtgttctcattttGcccaagacctttggccggag	7	14	10	10	1	1	1	1	0	1	1	2	2	1	2	3	2	1	2	3	2	2	5			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr19:21131567G>C	uc002npg.3	+	4	374	c.247G>C	c.(247-249)GCC>CCC	p.A83P	ZNF85_uc010ecn.2_Missense_Mutation_p.A18P|ZNF85_uc010eco.2_Missense_Mutation_p.A31P|ZNF85_uc002npi.2_Missense_Mutation_p.A24P	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	83						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						TTCTCATTTTGCCCAAGACCT	0.299													19	83					0	0	0.007413	0	0		C	21131567	C	C	21131567	3	2	71	1	0	0	0	0	1	0	0	0	18218	1319	46	5	261	5	ZNF85	19	21131567	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	5788678	21131567	37997416	109	47204											
PPP1R13L	10848	broad.mit.edu	37	chr19	45888866	45888866	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaccctcgcggtaagggtcGcacttctcgaaggcggtggc	7	8	14	12	5	1	0	0	0	1	0	4	1	1	0	1	5	1	2	1	5	3	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr19:45888866G>A	uc002pbn.2	-	11	2279	c.2202C>T	c.(2200-2202)TGC>TGT	p.C734C	PPP1R13L_uc002pbm.2_Silent_p.C313C|PPP1R13L_uc002pbo.2_Silent_p.C734C	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	734					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		GGTAAGGGTCGCACTTCTCGA	0.682													8	14					0	0	0.00308	0	0		A	45888866	A	A	45888866	2	1	71	1	0	0	0	0	0	0	0	1	12380	1079	38	1		1	PPP1R13L	19	45888866	Silent	SNP	G	TCGA-BR-8370-01A-11D-2340-08	24757299	45888866	13240117	110	47205											
BAX	581	broad.mit.edu	37	chr19	49464847	49464847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccgtgaccatctttgtggCgggagtgctcaccgcctcac	6	9	12	14	3	3	1	2	1	1	0	3	3	3	2	4	2	1	1	4	2	0	1			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr19:49464847C>T	uc002plk.2	+	6	602	c.533C>T	c.(532-534)GCG>GTG	p.A178V	BAX_uc010xzx.1_RNA|BAX_uc002plj.2_Missense_Mutation_p.A165V|BAX_uc002pll.2_Missense_Mutation_p.A129V|BAX_uc002plm.2_Missense_Mutation_p.A100V	NM_138761	NP_620116	Q07812	BAX_HUMAN	BCL2-associated X protein isoform alpha	178	Helical; (Potential).				activation of caspase activity by cytochrome c|activation of pro-apoptotic gene products|B cell apoptosis|cleavage of lamin|DNA fragmentation involved in apoptotic nuclear change|establishment or maintenance of transmembrane electrochemical gradient|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|induction of retinal programmed cell death|mitochondrial fragmentation involved in apoptosis|mitochondrial fusion|negative regulation of protein binding|negative regulation of survival gene product expression|nuclear fragmentation involved in apoptotic nuclear change|positive regulation of neuron apoptosis|protein homooligomerization|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|release of cytochrome c from mitochondria|release of matrix enzymes from mitochondria|response to toxin|transformed cell apoptosis	cytosol|endoplasmic reticulum membrane|mitochondrial outer membrane|mitochondrial permeability transition pore complex|nucleus	BH3 domain binding|channel activity|lipid binding|protein heterodimerization activity|protein homodimerization activity			lung(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000159)|all cancers(93;0.00047)|GBM - Glioblastoma multiforme(486;0.018)|Epithelial(262;0.0279)		ATCTTTGTGGCGGGAGTGCTC	0.572													4	6					0	0	0.009096	0	0		T	49464847	T	T	49464847	3	4	71	1	0	0	0	0	1	0	0	0	1329	768	27	1	738	1	BAX	19	49464847	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08	3575981	49464847	9664136	111	47206											
KLK13	26085	broad.mit.edu	37	chr19	51563819	51563819	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcaggtgtagccacctGggagaaacccactggtccca	11	5	13	12	0	0	1	0	0	0	1	1	3	1	2	4	4	3	2	4	4	3	1			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr19:51563819G>T	uc002pvn.2	-	2	153	c.110C>A	c.(109-111)CCA>CAA	p.P37Q	KLK13_uc002pvl.2_RNA|KLK13_uc002pvm.2_RNA|KLK13_uc002pvo.2_RNA|KLK13_uc002pvp.2_RNA|KLK13_uc010eon.2_Missense_Mutation_p.P37Q|KLK13_uc002pvq.2_RNA|KLK13_uc010eoo.2_Intron|KLK13_uc002pvr.2_Missense_Mutation_p.P37Q	NM_015596	NP_056411	Q9UKR3	KLK13_HUMAN	kallikrein 13 precursor	37	Peptidase S1.				proteolysis		protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00432)		GTAGCCACCTGGGAGAAACCC	0.577													7	133					0.000157383	0.000168925	0.00308	1	0		T	51563819	T	T	51563819	3	4	71	1	0	0	0	0	1	0	0	0	8417	1348	47	5	739	5	KLK13	19	51563819	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	2098972	51563819	7565164	112	47207											
TMC2	117532	broad.mit.edu	37	chr20	2575516	2575516	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatggctactacaacaacCagaggaccatcgggtggctg	11	8	11	11	1	1	1	0	0	1	1	2	2	1	2	2	4	4	2	2	4	5	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr20:2575516C>A	uc002wgf.1	+	9	994	c.979C>A	c.(979-981)CAG>AAG	p.Q327K	TMC2_uc002wgg.1_Missense_Mutation_p.Q311K|TMC2_uc010zpw.1_Missense_Mutation_p.Q159K|TMC2_uc010zpx.1_Missense_Mutation_p.Q158K	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	327	Extracellular (Potential).					integral to membrane				ovary(3)	3						CTACAACAACCAGAGGACCAT	0.517													18	50					3.51602e-12	4.28847e-12	0.008871	1	0		A	2575516	A	A	2575516	3	1	71	1	0	0	0	0	1	0	0	0	16010	595	21	5	1013	5	TMC2	20	2575516	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08		2575516	60450004	113	47208											
CDH4	1002	broad.mit.edu	37	chr20	60485655	60485655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacgagggcatggtcaccGtggtgaaggtgcgtactctt	8	9	14	10	3	2	1	1	1	1	0	2	2	2	1	2	4	3	2	2	4	3	2			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr20:60485655G>A	uc002ybn.1	+	9	1380	c.1366G>A	c.(1366-1368)GTG>ATG	p.V456M	CDH4_uc002ybp.1_Missense_Mutation_p.V382M	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	456	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			CATGGTCACCGTGGTGAAGGT	0.577													4	40					0	0	0.009096	0	0		A	60485655	A	A	60485655	3	1	71	1	0	0	0	0	1	0	0	0	3115	1145	40	1	1400	1	CDH4	20	60485655	Missense_Mutation	SNP	G	TCGA-BR-8370-01A-11D-2340-08	57910139	60485655	2539865	114	47209											
CCT8	10694	broad.mit.edu	37	chr21	30434528	30434528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagattgtctgtagagcctCgaagtactatggtagaaatg	12	12	11	6	1	2	3	1	0	1	3	3	4	2	3	1	1	2	3	1	1	6	5			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr21:30434528C>T	uc002ynb.2	-	11	1232	c.1133G>A	c.(1132-1134)CGA>CAA	p.R378Q	CCT8_uc002ymz.2_5'UTR|CCT8_uc011acp.1_Missense_Mutation_p.R359Q|CCT8_uc002yna.2_Missense_Mutation_p.R327Q|CCT8_uc002ync.2_Missense_Mutation_p.R377Q|CCT8_uc010glm.2_Missense_Mutation_p.R319Q|CCT8_uc011acq.1_Missense_Mutation_p.R305Q	NM_006585	NP_006576	P50990	TCPQ_HUMAN	chaperonin containing TCP1, subunit 8 (theta)	378					'de novo' posttranslational protein folding	aggresome|cytosol|intermediate filament cytoskeleton|microtubule organizing center	ATP binding|ATPase activity, coupled|unfolded protein binding				0						TGTAGAGCCTCGAAGTACTAT	0.353													25	90					0	0	0.005443	0	0		T	30434528	T	T	30434528	3	4	71	1	0	0	0	0	1	0	0	0	2963	884	31	1	533	1	CCT8	21	30434528	Missense_Mutation	SNP	C	TCGA-BR-8370-01A-11D-2340-08		30434528	17695367	115	47210											
FTCD	10841	broad.mit.edu	37	chr21	47574136	47574136	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccctccaccacgcactcCggcggccccacgaaggtgta	7	4	10	20	4	0	0	0	0	0	0	2	1	2	0	7	3	0	2	7	3	2	1	rs143451664		TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr21:47574136C>T	uc002zif.2	-	2	209	c.165G>A	c.(163-165)CCG>CCA	p.P55P	FTCD_uc002zig.2_Silent_p.P55P|FTCD_uc002zih.2_Silent_p.P55P|FTCD_uc010gqf.2_Silent_p.P55P|FTCD_uc010gqg.1_5'UTR	NM_006657	NP_006648	O95954	FTCD_HUMAN	formiminotransferase cyclodeaminase	55	Formiminotransferase N-subdomain (By similarity).				folic acid-containing compound metabolic process|histidine catabolic process	centriole|cytosol|Golgi apparatus	folic acid binding|formimidoyltetrahydrofolate cyclodeaminase activity|glutamate formimidoyltransferase activity			pancreas(1)|skin(1)	2	Breast(49;0.214)			Colorectal(79;0.235)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CCACGCACTCCGGCGGCCCCA	0.657													11	39					0	0	0.001368	0	0		T	47574136	T	T	47574136	2	4	71	1	0	0	0	0	0	0	0	1	6095	639	23	1		1	FTCD	21	47574136	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	17139608	47574136	555759	116	47211											
POLR2F	5435	broad.mit.edu	37	chr22	38352792	38352792	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtacagttttgatggcgaCgactttgatgatgtggagga	9	13	14	5	2	0	3	0	3	0	0	0	7	0	5	0	3	1	2	0	3	1	4			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr22:38352792C>T	uc003aul.2	+	2	154	c.33C>T	c.(31-33)GAC>GAT	p.D11D	POLR2F_uc010gxi.2_Translation_Start_Site|POLR2F_uc003aum.2_RNA	NM_021974	NP_068809	P61218	RPAB2_HUMAN	DNA directed RNA polymerase II polypeptide F	11					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase II promoter|transcription elongation from RNA polymerase III promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex|nucleolus	DNA binding|DNA-directed RNA polymerase activity			breast(1)	1	Melanoma(58;0.045)					TTGATGGCGACGACTTTGATG	0.403													12	43					0	0	0.001368	0	0		T	38352792	T	T	38352792	2	4	71	1	0	0	0	0	0	0	0	1	12238	535	19	1		1	POLR2F	22	38352792	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08		38352792	12951774	117	47212											
ACO2	50	broad.mit.edu	37	chr22	41911464	41911464	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggtggcggccttgggggCatctgcattggagttggggg	5	10	20	6	1	1	0	0	0	1	0	1	1	1	1	1	8	1	3	1	8	1	3			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chr22:41911464C>T	uc003bac.2	+	5	631	c.609C>T	c.(607-609)GGC>GGT	p.G203G	ACO2_uc003bad.2_Silent_p.G203G	NM_001098	NP_001089	Q99798	ACON_HUMAN	aconitase 2, mitochondrial precursor	203					citrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron ion binding|isocitrate hydro-lyase (cis-aconitate-forming) activity			breast(2)|ovary(1)|lung(1)	4						GCCTTGGGGGCATCTGCATTG	0.552													13	39					0	0	0.001368	0	0		T	41911464	T	T	41911464	2	4	71	1	0	0	0	0	0	0	0	1	147	697	25	2		2	ACO2	22	41911464	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08	3558672	41911464	9393102	118	47213											
KIAA1210	57481	broad.mit.edu	37	chrX	118220735	118220735	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctcactcttatacttctgCgagggaggggctcttttcag	6	15	10	10	1	5	0	2	0	4	0	6	2	5	1	0	3	2	1	0	3	2	6			TCGA-BR-8370-01A-11D-2340-08	TCGA-BR-8370-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5a0b05a-1233-4b3d-9da8-a0ab6acca4bb	0d5b7d4e-a500-4ba9-8a39-ea210a62e28a	g.chrX:118220735C>T	uc004era.3	-	11	4458	c.4458G>A	c.(4456-4458)TCG>TCA	p.S1486S		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1486										ovary(4)|skin(1)	5						TATACTTCTGCGAGGGAGGGG	0.448													5	27					0	0	0.000602	0	0		T	118220735	T	T	118220735	2	4	71	1	0	0	0	0	0	0	0	1	8230	755	27	1		1	KIAA1210	23	118220735	Silent	SNP	C	TCGA-BR-8370-01A-11D-2340-08		118220735	37049825	119	47214											
PTPN14	5784	broad.mit.edu	37	chr1	214557344	214557344	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacctcctggagagactgAtgaaccaccggagagctgtc	10	7	11	13	1	1	4	1	2	0	2	3	7	2	5	4	2	2	1	4	2	1	0			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr1:214557344A>G	uc001hkk.1	-	13	2125	c.1854T>C	c.(1852-1854)CAT>CAC	p.H618H	PTPN14_uc010pty.1_Silent_p.H519H	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	618					lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		GGAGAGACTGATGAACCACCG	0.632													4	44					0	0	1	0	0		G	214557344	G	G	214557344	2	3	72	1	0	0	0	0	0	0	0	1	12806	330	12	3		3	PTPN14	1	214557344	Silent	SNP	A	TCGA-BR-8371-01A-11D-2340-08		214557344	34693277	1	47215											
CNTN6	27255	broad.mit.edu	37	chr3	1427322	1427322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actggacagatgactccaaaGaatccatgataggtaaaatt	17	9	8	7	0	0	4	0	2	0	2	2	5	2	5	2	2	0	1	2	2	5	3			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr3:1427322G>A	uc003boz.2	+	20	2812	c.2545G>A	c.(2545-2547)GAA>AAA	p.E849K	CNTN6_uc011asj.1_Missense_Mutation_p.E777K|CNTN6_uc003bpa.2_Missense_Mutation_p.E849K	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	849	Fibronectin type-III 3.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TGACTCCAAAGAATCCATGAT	0.348													9	91					0	0	1	0	0		A	1427322	A	A	1427322	3	1	72	1	0	0	0	0	1	0	0	0	3648	943	33	4	2619	4	CNTN6	3	1427322	Missense_Mutation	SNP	G	TCGA-BR-8371-01A-11D-2340-08		1427322	196595108	2	47216											
BAP1	8314	broad.mit.edu	37	chr3	52440318	52440318	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcaccttcagcacatgcAgcctggcctcatacttgatc	8	11	8	14	0	3	1	3	1	0	0	4	1	3	1	3	2	4	3	3	2	1	4			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr3:52440318A>G	uc003ddx.2	-	9	849	c.734T>C	c.(733-735)CTG>CCG	p.L245P	BAP1_uc003ddw.2_5'Flank|BAP1_uc010hmg.2_5'Flank|BAP1_uc010hmh.2_5'Flank	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	245					monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		CAGCACATGCAGCCTGGCCTC	0.607			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								7	41					0	0	1	0	0		G	52440318	G	G	52440318	3	3	72	1	0	0	0	0	1	0	0	0	1312	188	7	3	1491	3	BAP1	3	52440318	Missense_Mutation	SNP	A	TCGA-BR-8371-01A-11D-2340-08	51012996	52440318	145582112	3	47217											
PAK2	5062	broad.mit.edu	37	chr3	196534697	196534697	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttcctgcaccagttggTgattcacatgttgatggtgc	6	14	11	10	0	1	2	1	2	0	0	2	2	2	2	3	2	2	4	3	2	0	4			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr3:196534697T>C	uc003fwy.3	+	7	943	c.621T>C	c.(619-621)GGT>GGC	p.G207G		NM_002577	NP_002568	Q13177	PAK2_HUMAN	p21-activated kinase 2	207					axon guidance|cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of apoptosis|regulation of defense response to virus by virus|regulation of growth|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|nucleus|perinuclear region of cytoplasm|plasma membrane	ATP binding|identical protein binding|protein kinase binding|protein serine/threonine kinase activity|protein tyrosine kinase activator activity			ovary(1)|lung(1)	2	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00405)		CACCAGTTGGTGATTCACATG	0.373													6	78					0	0	1	0	0		C	196534697	C	C	196534697	2	2	72	1	0	0	0	0	0	0	0	1	11420	1683	59	3		3	PAK2	3	196534697	Silent	SNP	T	TCGA-BR-8371-01A-11D-2340-08	144094379	196534697	1487733	4	47218											
F11	2160	broad.mit.edu	37	chr4	187197452	187197452	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgacagtgtcatggctccCgatgcttttgtctgtggccg	5	13	12	11	3	2	0	1	0	1	0	4	2	3	0	2	2	1	2	2	2	0	2	rs142846329	byFrequency	TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr4:187197452C>T	uc003iza.1	+	7	996	c.663C>T	c.(661-663)CCC>CCT	p.P221P		NM_000128	NP_000119	P03951	FA11_HUMAN	coagulation factor XI precursor	221	Apple 3.				blood coagulation, intrinsic pathway|plasminogen activation|positive regulation of fibrinolysis	extracellular space|plasma membrane	heparin binding|serine-type endopeptidase activity				0		all_cancers(14;6.2e-52)|all_epithelial(14;1.62e-38)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;2.13e-11)|BRCA - Breast invasive adenocarcinoma(30;4.59e-06)|GBM - Glioblastoma multiforme(59;0.000149)|STAD - Stomach adenocarcinoma(60;0.000314)|LUSC - Lung squamous cell carcinoma(40;0.00112)|READ - Rectum adenocarcinoma(43;0.176)	Coagulation Factor IX(DB00100)	TCATGGCTCCCGATGCTTTTG	0.478													6	68					0	0	1	0	0		T	187197452	T	T	187197452	2	4	72	1	0	0	0	0	0	0	0	1	5345	639	23	1		1	F11	4	187197452	Silent	SNP	C	TCGA-BR-8371-01A-11D-2340-08		187197452	3956824	5	47219											
SNX18	112574	broad.mit.edu	37	chr5	53815333	53815333	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggcaggacctggatccCgtcatggacctattagcgct	8	8	11	14	2	1	0	1	0	0	0	2	3	2	3	4	4	1	2	4	4	2	2	rs151150635		TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr5:53815333C>T	uc003jpj.3	+	1	1741	c.1551C>T	c.(1549-1551)CCC>CCT	p.P517P	SNX18_uc011cqg.1_Silent_p.P517P|SNX18_uc003jpi.3_Silent_p.P517P	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	517	BAR.				cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)				ACCTGGATCCCGTCATGGACC	0.577													9	85					0	0	1	0	0		T	53815333	T	T	53815333	2	4	72	1	0	0	0	0	0	0	0	1	14914	639	23	1		1	SNX18	5	53815333	Silent	SNP	C	TCGA-BR-8371-01A-11D-2340-08		53815333	127099927	6	47220											
CAP2	10486	broad.mit.edu	37	chr6	17421835	17421835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggaacgagctgtcagcCgcctggagtcgctgtctgca	7	8	14	12	3	2	0	1	0	1	0	3	4	2	2	2	2	4	3	2	2	1	0			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr6:17421835C>T	uc003ncb.2	+	2	292	c.49C>T	c.(49-51)CGC>TGC	p.R17C	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Missense_Mutation_p.R17C|CAP2_uc011djb.1_Missense_Mutation_p.R17C|CAP2_uc011djc.1_Missense_Mutation_p.R17C|CAP2_uc011djd.1_Missense_Mutation_p.R17C	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	17					activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			AGCTGTCAGCCGCCTGGAGTC	0.562													10	85					0	0	1	0	0		T	17421835	T	T	17421835	3	4	72	1	0	0	0	0	1	0	0	0	2623	652	23	1	51	1	CAP2	6	17421835	Missense_Mutation	SNP	C	TCGA-BR-8371-01A-11D-2340-08		17421835	153693232	7	47221											
KHDRBS2	202559	broad.mit.edu	37	chr6	62407141	62407141	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttactccatgaccgtagTcatagtattcaggcacactg	11	11	7	12	1	2	1	2	1	0	0	3	1	3	1	2	1	1	3	2	1	4	5			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr6:62407141T>C	uc003peg.2	-	8	1158	c.911A>G	c.(910-912)GAC>GGC	p.D304G		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	304					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		ATGACCGTAGTCATAGTATTC	0.383													5	52					0	0	1	0	0		C	62407141	C	C	62407141	3	2	72	1	0	0	0	0	1	0	0	0	8163	1667	58	3	146	3	KHDRBS2	6	62407141	Missense_Mutation	SNP	T	TCGA-BR-8371-01A-11D-2340-08	44985306	62407141	108707926	8	47222											
SLCO5A1	81796	broad.mit.edu	37	chr8	70744581	70744581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggagcatggccaaggCggaggacaccgagaaggttt	10	6	15	10	2	0	1	0	0	0	1	1	5	1	4	3	6	1	2	3	6	2	1	rs34148850	byFrequency	TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr8:70744581C>T	uc003xyl.2	-	2	1035	c.328G>A	c.(328-330)GCC>ACC	p.A110T	SLCO5A1_uc010lzb.2_Missense_Mutation_p.A110T|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Missense_Mutation_p.A110T|SLCO5A1_uc010lzc.2_Missense_Mutation_p.A110T	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	110	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			ATGGCCAAGGCGGAGGACACC	0.617											OREG0018815	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	64					0	0	1	0	0		T	70744581	T	T	70744581	3	4	72	1	0	0	0	0	1	0	0	0	14756	768	27	1	2254	1	SLCO5A1	8	70744581	Missense_Mutation	SNP	C	TCGA-BR-8371-01A-11D-2340-08		70744581	75619441	9	47223											
ADCY8	114	broad.mit.edu	37	chr8	131916177	131916177	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggctgcttaattaagtaAgtttcgatattatgcttcct	10	17	7	7	1	1	0	1	0	0	0	3	1	2	0	1	1	2	5	1	1	5	7			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr8:131916177A>C	uc003ytd.3	-	7	2008	c.1752T>G	c.(1750-1752)ACT>ACG	p.T584T	ADCY8_uc010mds.2_Silent_p.T584T	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	584	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TAATTAAGTAAGTTTCGATAT	0.483										HNSCC(32;0.087)			8	126					0	0	1	0	0		C	131916177	C	C	131916177	2	2	72	1	0	0	0	0	0	0	0	1	300	59	3	5		5	ADCY8	8	131916177	Silent	SNP	A	TCGA-BR-8371-01A-11D-2340-08	61171596	131916177	14447845	10	47224											
TNC	3371	broad.mit.edu	37	chr9	117840372	117840372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtacggtctcctggcaCgtctttgatgccgtaggtca	5	12	14	10	3	3	1	1	1	2	0	4	1	3	1	2	5	2	3	2	5	2	3			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr9:117840372C>T	uc004bjj.3	-	7	2886	c.2524G>A	c.(2524-2526)GTG>ATG	p.V842M	TNC_uc010mvf.2_Missense_Mutation_p.V842M	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	842	Fibronectin type-III 3.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TCTCCTGGCACGTCTTTGATG	0.547													5	41					0	0	1	0	0		T	117840372	T	T	117840372	3	4	72	1	0	0	0	0	1	0	0	0	16295	536	19	1	4169	1	TNC	9	117840372	Missense_Mutation	SNP	C	TCGA-BR-8371-01A-11D-2340-08		117840372	23373059	11	47225											
NECAP1	25977	broad.mit.edu	37	chr12	8245589	8245589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccaccatcctcctcagttgCcatcagcaatcatgtcaccc	9	9	4	19	0	4	0	4	0	0	0	6	0	6	0	6	0	2	2	6	0	1	1			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr12:8245589C>T	uc001qtx.2	+	6	692	c.614C>T	c.(613-615)GCC>GTC	p.A205V	NECAP1_uc001qty.2_Missense_Mutation_p.A63V	NM_015509	NP_056324	Q8NC96	NECP1_HUMAN	NECAP endocytosis associated 1	205					endocytosis|protein transport	clathrin coated vesicle membrane|plasma membrane				ovary(1)	1				Kidney(36;0.0915)		TCCTCAGTTGCCATCAGCAAT	0.517													18	168					0	0	1	0	0		T	8245589	T	T	8245589	3	4	72	1	0	0	0	0	1	0	0	0	10326	739	26	2	636	2	NECAP1	12	8245589	Missense_Mutation	SNP	C	TCGA-BR-8371-01A-11D-2340-08		8245589	125606306	12	47226											
BEST3	144453	broad.mit.edu	37	chr12	70049306	70049306	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctctcccatgctgaagTgcagcgtggggcttccttct	6	11	11	13	1	2	1	0	1	2	0	4	1	3	1	2	2	4	4	2	2	1	2			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr12:70049306T>G	uc001svg.2	-	10	1615	c.1388A>C	c.(1387-1389)CAC>CCC	p.H463P	BEST3_uc001svd.1_Intron|BEST3_uc001sve.1_Intron|BEST3_uc001svf.2_Missense_Mutation_p.H250P|BEST3_uc010stm.1_Missense_Mutation_p.H357P	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	463	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			CATGCTGAAGTGCAGCGTGGG	0.587													5	74					0	0	1	0	0		G	70049306	G	G	70049306	3	3	72	1	0	0	0	0	1	0	0	0	1407	1696	59	5	622	5	BEST3	12	70049306	Missense_Mutation	SNP	T	TCGA-BR-8371-01A-11D-2340-08	61803717	70049306	63802589	13	47227											
RIMBP2	23504	broad.mit.edu	37	chr12	130919389	130919389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggcggcgtactgccccgCgctgcttctctctaggaaga	6	9	13	13	4	2	2	0	1	2	1	3	3	2	3	2	3	3	3	2	3	3	3			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr12:130919389C>T	uc001uil.2	-	11	2256	c.2092G>A	c.(2092-2094)GCG>ACG	p.A698T	RIMBP2_uc001uim.2_Missense_Mutation_p.A606T|RIMBP2_uc001uin.1_Missense_Mutation_p.A357T	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	698						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		TACTGCCCCGCGCTGCTTCTC	0.592													6	71					0	0	1	0	0		T	130919389	T	T	130919389	3	4	72	1	0	0	0	0	1	0	0	0	13388	768	27	1	1102	1	RIMBP2	12	130919389	Missense_Mutation	SNP	C	TCGA-BR-8371-01A-11D-2340-08	60870083	130919389	2932506	14	47228											
ATP8A2	51761	broad.mit.edu	37	chr13	26343262	26343262	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaccctcgccatcggagaCggcgccaacgatgtcgggat	9	6	12	14	6	1	1	1	0	0	1	4	4	1	2	3	3	1	0	3	3	1	0			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr13:26343262C>T	uc001uqk.2	+	26	2605	c.2463C>T	c.(2461-2463)GAC>GAT	p.D821D	ATP8A2_uc010tdi.1_Silent_p.D781D|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Silent_p.D371D	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	781	Cytoplasmic (Potential).	Magnesium (By similarity).			ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		CCATCGGAGACGGCGCCAACG	0.557													5	69					0	0	1	0	0		T	26343262	T	T	26343262	2	4	72	1	0	0	0	0	0	0	0	1	1194	535	19	1		1	ATP8A2	13	26343262	Silent	SNP	C	TCGA-BR-8371-01A-11D-2340-08		26343262	88826616	15	47229											
FTO	79068	broad.mit.edu	37	chr16	53860211	53860211	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgggttcatcctacaacGgacaagatgaagtggacatt	13	9	12	7	1	1	2	1	1	0	1	2	5	2	5	1	4	2	1	1	4	4	3			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr16:53860211G>C	uc002ehr.2	+	3	781	c.559G>C	c.(559-561)GGA>CGA	p.G187R	FTO_uc010vha.1_Intron	NM_001080432	NP_001073901	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	187	Fe2OG dioxygenase domain.				DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						ATCCTACAACGGACAAGATGA	0.448													6	96					0	0	1	0	0		C	53860211	C	C	53860211	3	2	72	1	0	0	0	0	1	0	0	0	6100	1117	39	5	569	5	FTO	16	53860211	Missense_Mutation	SNP	G	TCGA-BR-8371-01A-11D-2340-08		53860211	36494542	16	47230											
CDH3	1001	broad.mit.edu	37	chr16	68718494	68718494	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctctcctagggtttggaTtttgaggccaaaaaccagca	10	12	9	10	0	1	1	0	1	1	0	3	2	2	2	3	3	2	2	3	3	3	5			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr16:68718494T>A	uc002ewf.2	+	10	2323	c.1191T>A	c.(1189-1191)GAT>GAA	p.D397E	CDH3_uc010vli.1_Missense_Mutation_p.D342E	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	397	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		AGGGTTTGGATTTTGAGGCCA	0.517													21	310					0	0	1	0	0		A	68718494	A	A	68718494	3	1	72	1	0	0	0	0	1	0	0	0	3114	1490	52	5	1229	5	CDH3	16	68718494	Missense_Mutation	SNP	T	TCGA-BR-8371-01A-11D-2340-08	14858283	68718494	21636259	17	47231											
ABCA7	10347	broad.mit.edu	37	chr19	1042792	1042792	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccaggagcccttgcacagCttgttggaggccgctgagga	7	7	15	12	1	0	1	0	1	0	0	0	4	0	4	3	4	3	4	3	4	0	3			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr19:1042792C>T	uc002lqw.3	+	7	777	c.546C>T	c.(544-546)AGC>AGT	p.S182S	ABCA7_uc010dsb.1_Silent_p.S44S	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	182	Extracellular (By similarity).				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTTGCACAGCTTGTTGGAGG	0.632													6	78					0	0	1	0	0		T	1042792	T	T	1042792	2	4	72	1	0	0	0	0	0	0	0	1	37	796	28	2		2	ABCA7	19	1042792	Silent	SNP	C	TCGA-BR-8371-01A-11D-2340-08		1042792	58086191	18	47232											
FBN3	84467	broad.mit.edu	37	chr19	8212045	8212045	+	Frame_Shift_Del	DEL	G	-	-																															gcctggacagcagtaggcatGgaaccgggagccgcacacat																										TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr19:8212045delG	uc002mjf.2	-	2	214	c.193delC	c.(193-195)CATfs	p.H65fs		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	65						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CAGTAGGCATGGAACCGGGAG	0.677													2	4	---	---	---	---						.	-	8212045	-	-	8212045	7	5	72	1	0	1	0	1	0	0	0	0	5718	1348	47	0	8484	0	FBN3	19	8212045	Frame_Shift_Del	DEL	G	TCGA-BR-8371-01A-11D-2340-08	7169253	8212045	50916938	19	47233											
CRX	1406	broad.mit.edu	37	chr19	48342758	48342758	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagattcctacagtccccCtctgcccggcccctcaggct	5	9	7	20	1	3	1	2	0	1	1	5	1	5	1	6	2	2	1	6	2	1	2			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr19:48342758C>A	uc002phq.3	+	4	638	c.434C>A	c.(433-435)CCT>CAT	p.P145H		NM_000554	NP_000545	O43186	CRX_HUMAN	cone-rod homeobox protein	145					organ morphogenesis|response to stimulus|visual perception		leucine zipper domain binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2		all_cancers(25;2.76e-09)|all_epithelial(76;7.01e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000266)|all cancers(93;0.000788)|Epithelial(262;0.0226)|GBM - Glioblastoma multiforme(486;0.0521)		TACAGTCCCCCTCTGCCCGGC	0.672													6	82					5.9392e-07	5.9392e-07	1	1	0		A	48342758	A	A	48342758	3	1	72	1	0	0	0	0	1	0	0	0	3905	681	24	5	444	5	CRX	19	48342758	Missense_Mutation	SNP	C	TCGA-BR-8371-01A-11D-2340-08	40130713	48342758	10786225	20	47234											
U2AF1	7307	broad.mit.edu	37	chr21	44524474	44524474	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagcacctgtctccatgaCgacatgctccaattttgaaa	12	10	8	11	1	1	3	0	2	1	1	3	5	2	3	3	0	2	2	3	0	2	2			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chr21:44524474C>T	uc002zda.1	-	2	167	c.83G>A	c.(82-84)CGT>CAT	p.R28H	U2AF1_uc002zcy.1_5'UTR|U2AF1_uc002zcz.1_5'UTR|U2AF1_uc002zdb.1_Missense_Mutation_p.R28H|U2AF1_uc010gpi.1_Missense_Mutation_p.R28H|U2AF1_uc002zdc.1_Missense_Mutation_p.R28H	NM_001025203	NP_001020374	Q01081	U2AF1_HUMAN	U2 small nuclear RNA auxillary factor 1 isoform	28	C3H1-type 1.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	Cajal body|catalytic step 2 spliceosome|nuclear speck	nucleotide binding|RNA binding|zinc ion binding				0						GTCTCCATGACGACATGCTCC	0.363													4	34					0	0	1	0	0		T	44524474	T	T	44524474	3	4	72	1	0	0	0	0	1	0	0	0	16847	536	19	1	738	1	U2AF1	21	44524474	Missense_Mutation	SNP	C	TCGA-BR-8371-01A-11D-2340-08		44524474	3605421	21	47235											
MAGEB3	4114	broad.mit.edu	37	chrX	30254145	30254145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagatcactgcaactaacaAgaaaaaagtatccttttcat	17	11	4	9	0	3	2	3	0	0	2	4	2	4	2	1	0	3	2	1	0	7	4			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chrX:30254145A>G	uc004dca.1	+	5	841	c.104A>G	c.(103-105)AAG>AGG	p.K35R		NM_002365	NP_002356	O15480	MAGB3_HUMAN	melanoma antigen family B, 3	35											0						GCAACTAACAAGAAAAAAGTA	0.517													3	23					0	0	1	0	0		G	30254145	G	G	30254145	3	3	72	1	0	0	0	0	1	0	0	0	9195	72	3	3	106	3	MAGEB3	23	30254145	Missense_Mutation	SNP	A	TCGA-BR-8371-01A-11D-2340-08		30254145	125016415	22	47236											
MMGT1	93380	broad.mit.edu	37	chrX	135049608	135049608	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcctgcaatatgaactatAccgtaacaggtaactgcaaa	15	10	6	10	1	1	1	0	1	1	0	2	1	1	1	2	1	6	4	2	1	8	5			TCGA-BR-8371-01A-11D-2340-08	TCGA-BR-8371-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	8509693c-ad35-4c24-80de-f84ae07fe87e	be24ceb1-6f72-48d3-8dc9-7649fd72609f	g.chrX:135049608A>G	uc004ezi.1	-	3	477	c.177T>C	c.(175-177)GGT>GGC	p.G59G	MMGT1_uc011mvw.1_Silent_p.G124G	NM_173470	NP_775741	Q8N4V1	MMGT1_HUMAN	membrane magnesium transporter 1 precursor	59	Helical; (Potential).					early endosome membrane|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	magnesium ion transmembrane transporter activity				0						TATGAACTATACCGTAACAGG	0.323													8	67					0	0	1	0	0		G	135049608	G	G	135049608	2	3	72	1	0	0	0	0	0	0	0	1	9665	378	14	3		3	MMGT1	23	135049608	Silent	SNP	A	TCGA-BR-8371-01A-11D-2340-08	104795463	135049608	20220952	23	47237											
TTLL10	254173	broad.mit.edu	37	chr1	1120411	1120411	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacacggtgtggagcatggaAcacctcaaccgctacatcag	12	6	10	13	2	2	0	2	0	0	0	2	2	2	2	2	3	4	2	2	3	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:1120411A>G	uc001acy.2	+	13	1474	c.1323A>G	c.(1321-1323)GAA>GAG	p.E441E	TTLL10_uc010nyg.1_Silent_p.E441E|TTLL10_uc001acz.1_Silent_p.E368E	NM_001130045	NP_001123517	Q6ZVT0	TTL10_HUMAN	tubulin tyrosine ligase-like family, member 10	441	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			large_intestine(1)	1	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;4.75e-36)|OV - Ovarian serous cystadenocarcinoma(86;5.82e-22)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;4.22e-05)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GGAGCATGGAACACCTCAACC	0.607													9	22					0	0	1	0	0		G	1120411	G	G	1120411	2	3	73	1	0	0	0	0	0	0	0	1	16749	40	2	3		3	TTLL10	1	1120411	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08		1120411	248130210	1	47238											
B3GALT6	126792	broad.mit.edu	37	chr1	1168239	1168240	+	Frame_Shift_Ins	INS	-	G	G																															ggccgcggccgcgtcaagccINSgggggggcgctggcgcgagg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:1168239_1168240insG	uc001adk.2	+	1	611_612	c.581_582insG	c.(580-582)CCGfs	p.P194fs	SDF4_uc001adh.3_5'Flank|SDF4_uc001adi.3_5'Flank|SDF4_uc009vjv.2_5'Flank|SDF4_uc009vjw.2_5'Flank	NM_080605	NP_542172	Q96L58	B3GT6_HUMAN	beta-1,3-galactosyltransferase 6	194	Lumenal (Potential).				glycosaminoglycan biosynthetic process|protein glycosylation	Golgi cisterna membrane|Golgi medial cisterna|integral to membrane	galactosylxylosylprotein 3-beta-galactosyltransferase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;2.22e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CGCGTCAAGCCGGGGGGGCGCT	0.619													4	3	---	---	---	---						.	G	1168240	G	G	1168239	7	5	73	1	0	1	1	0	0	0	0	0	1252	652	23	0	583	0	B3GALT6	1	1168239	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	47828	1168239	248082382	2	47239											
PUSL1	126789	broad.mit.edu	37	chr1	1244909	1244909	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccggacctacctgtaccgCctggccactggctgtcaccg	5	8	10	18	3	1	0	1	0	0	0	2	1	2	1	7	3	2	2	7	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:1244909C>T	uc001aed.2	+	4	429	c.399C>T	c.(397-399)CGC>CGT	p.R133R	ACAP3_uc001aeb.2_5'Flank|ACAP3_uc001aec.1_5'UTR|PUSL1_uc010nyi.1_5'UTR|PUSL1_uc009vjx.2_5'UTR	NM_153339	NP_699170	Q8N0Z8	PUSL1_HUMAN	pseudouridylate synthase-like 1	133					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			skin(1)	1	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;4.95e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		ACCTGTACCGCCTGGCCACTG	0.657													3	13					0	0	1	0	0		T	1244909	T	T	1244909	2	4	73	1	0	0	0	0	0	0	0	1	12860	726	26	2		2	PUSL1	1	1244909	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	76670	1244909	248005712	3	47240											
KIAA1751	85452	broad.mit.edu	37	chr1	1887130	1887130	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctggcagcctggctcacCtgcgggctgctcctcctcct	2	9	12	18	1	1	0	1	0	0	0	4	0	4	0	6	4	3	4	6	4	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:1887130C>A	uc001aim.1	-	18	2332	c.2176G>T	c.(2176-2178)GGT>TGT	p.G726C	KIAA1751_uc009vkz.1_Missense_Mutation_p.V726L	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	726										pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		CCTGGCTCACCTGCGGGCTGC	0.687													34	70					4.31634e-10	4.60072e-10	1	1	0		A	1887130	A	A	1887130	3	1	73	1	0	0	0	0	1	0	0	0	8272	681	24	5	116	5	KIAA1751	1	1887130	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	642221	1887130	247363491	4	47241											
KIAA1751	85452	broad.mit.edu	37	chr1	1895288	1895288	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgatctttttcttgtacaCtttgccaatatcaaagtcct	9	17	5	10	1	3	1	1	1	2	0	4	1	4	1	2	0	2	1	2	0	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:1895288C>A	uc001aim.1	-	14	1750	c.1594G>T	c.(1594-1596)GTG>TTG	p.V532L	KIAA1751_uc009vkz.1_Missense_Mutation_p.V532L	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	532										pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		TTCTTGTACACTTTGCCAATA	0.542													6	30					0.00116845	0.00118472	1	1	0		A	1895288	A	A	1895288	3	1	73	1	0	0	0	0	1	0	0	0	8272	565	20	5	714	5	KIAA1751	1	1895288	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	8158	1895288	247355333	5	47242											
KIAA0562	9731	broad.mit.edu	37	chr1	3750491	3750491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagttctggtgagcaaaaCgggaatggtcctctccacac	10	9	10	12	1	2	1	0	1	2	0	5	2	4	2	3	3	2	2	3	3	3	1	rs148927222		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:3750491C>T	uc001aky.2	-	12	1953	c.1594G>A	c.(1594-1596)GTT>ATT	p.V532I	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Missense_Mutation_p.V532I	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	532	HEAT 1.					centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		GTGAGCAAAACGGGAATGGTC	0.423													17	47					0	0	1	0	0		T	3750491	T	T	3750491	3	4	73	1	0	0	0	0	1	0	0	0	8200	536	19	1	1227	1	KIAA0562	1	3750491	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1855203	3750491	245500130	6	47243											
UBE4B	10277	broad.mit.edu	37	chr1	10166465	10166465	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtcactcacccatgggcGtcctcaggcgtctccattct	6	11	8	16	2	5	0	3	0	2	0	7	0	6	0	3	2	0	0	3	2	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:10166465G>A	uc001aqs.3	+	7	1733	c.1020G>A	c.(1018-1020)GCG>GCA	p.A340A	UBE4B_uc001aqr.3_Intron|UBE4B_uc010oai.1_Intron|UBE4B_uc010oaj.1_Intron	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	340					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		ACCCATGGGCGTCCTCAGGCG	0.652													34	75					0	0	1	0	0		A	10166465	A	A	10166465	2	1	73	1	0	0	0	0	0	0	0	1	16909	1132	40	1		1	UBE4B	1	10166465	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6415974	10166465	239084156	7	47244											
CASZ1	54897	broad.mit.edu	37	chr1	10713683	10713683	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcccacaggcagggaggTgctcccacggccagccagta	8	4	15	14	1	0	0	0	0	0	0	1	1	1	1	4	5	3	3	4	5	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:10713683T>C	uc001aro.2	-	11	2751	c.2431A>G	c.(2431-2433)ACC>GCC	p.T811A	CASZ1_uc001arp.1_Missense_Mutation_p.T811A|CASZ1_uc009vmx.2_Missense_Mutation_p.T835A	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	811					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GGCAGGGAGGTGCTCCCACGG	0.716													12	24					0	0	1	0	0		C	10713683	C	C	10713683	3	2	73	1	0	0	0	0	1	0	0	0	2688	1696	59	3	2896	3	CASZ1	1	10713683	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	547218	10713683	238536938	8	47245											
PLOD1	5351	broad.mit.edu	37	chr1	12024291	12024291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtcgaacttctggggggCtctcagtgcagatggctact	6	11	15	9	1	2	1	1	0	2	1	4	2	2	1	0	5	3	3	0	5	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:12024291C>T	uc001atm.2	+	12	1353	c.1262C>T	c.(1261-1263)GCT>GTT	p.A421V	PLOD1_uc010obb.1_Missense_Mutation_p.A468V	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	421					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	TTCTGGGGGGCTCTCAGTGCA	0.637													67	118					0	0	1	0	0		T	12024291	T	T	12024291	3	4	73	1	0	0	0	0	1	0	0	0	12120	797	28	2	1308	2	PLOD1	1	12024291	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1310608	12024291	237226330	9	47246											
TMEM51	55092	broad.mit.edu	37	chr1	15541718	15541718	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggccgagaagccaacagcTcagggcagcaacaagaccga	14	1	13	13	3	1	2	1	0	0	2	1	4	1	2	3	2	5	3	3	2	4	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:15541718T>C	uc001avw.3	+	3	654	c.135T>C	c.(133-135)GCT>GCC	p.A45A	TMEM51_uc010obk.1_Silent_p.A45A|TMEM51_uc001avz.2_Silent_p.A45A|TMEM51_uc001avy.2_Silent_p.A45A|TMEM51_uc001avx.2_Silent_p.A45A	NM_001136216	NP_001129688	Q9NW97	TMM51_HUMAN	transmembrane protein 51	45						integral to membrane					0		Renal(390;0.00145)|Breast(348;0.00186)|Colorectal(325;0.00215)|all_lung(284;0.00459)|Lung NSC(340;0.0104)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;2.07e-06)|COAD - Colon adenocarcinoma(227;7.14e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000175)|KIRC - Kidney renal clear cell carcinoma(229;0.00141)|STAD - Stomach adenocarcinoma(313;0.00644)|READ - Rectum adenocarcinoma(331;0.0751)		AGCCAACAGCTCAGGGCAGCA	0.647													51	95					0	0	1	0	0		C	15541718	C	C	15541718	2	2	73	1	0	0	0	0	0	0	0	1	16202	1538	54	3		3	TMEM51	1	15541718	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	3517427	15541718	233708903	10	47247											
SPEN	23013	broad.mit.edu	37	chr1	16247461	16247461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaccaaagggaggaaaatcGgtgggaataaaattaaggtg	18	6	14	3	1	0	1	0	0	0	1	1	4	0	4	1	5	0	0	1	5	7	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:16247461G>A	uc001axk.1	+	9	1936	c.1732G>A	c.(1732-1734)GGT>AGT	p.G578S	SPEN_uc010obp.1_Missense_Mutation_p.G537S	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	578	RRM 4.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GAGGAAAATCGGTGGGAATAA	0.363													9	21					0	0	1	0	0		A	16247461	A	A	16247461	3	1	73	1	0	0	0	0	1	0	0	0	15063	1116	39	1	1766	1	SPEN	1	16247461	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	705743	16247461	233003160	11	47248											
NBPF1	55672	broad.mit.edu	37	chr1	16918375	16918375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcggttggccaggaagccggCcagttgagttacaaaacatt	11	9	12	9	2	0	1	0	1	0	0	1	2	0	2	3	4	3	3	3	4	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:16918375C>T	uc009vos.1	-	7	1030	c.142G>A	c.(142-144)GCC>ACC	p.A48T	NBPF1_uc010oce.1_Intron	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	48						cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		AGGAAGCCGGCCAGTTGAGTT	0.438													43	730					0	0	1	0	0		T	16918375	T	T	16918375	3	4	73	1	0	0	0	0	1	0	0	0	10210	739	26	2	3374	2	NBPF1	1	16918375	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	670914	16918375	232332246	12	47249											
CROCC	9696	broad.mit.edu	37	chr1	17281831	17281831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagagcttcggacccagctgCgtctgctggaggatgcccgt	7	8	14	12	3	1	1	0	0	1	1	2	4	1	4	2	3	5	3	2	3	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:17281831C>T	uc001azt.2	+	24	3559	c.3490C>T	c.(3490-3492)CGT>TGT	p.R1164C	CROCC_uc001azu.2_Missense_Mutation_p.R467C	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	1164	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		GACCCAGCTGCGTCTGCTGGA	0.697													9	17					0	0	1	0	0		T	17281831	T	T	17281831	3	4	73	1	0	0	0	0	1	0	0	0	3896	768	27	1	3584	1	CROCC	1	17281831	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	363456	17281831	231968790	13	47250											
ATP13A2	23400	broad.mit.edu	37	chr1	17313302	17313302	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgcgcccgcagtggcaccaTtggtgtagagcggccggcgg	5	5	17	14	6	0	1	0	0	0	1	0	1	0	1	4	5	1	3	4	5	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:17313302T>C	uc001baa.2	-	27	3423	c.3233A>G	c.(3232-3234)AAT>AGT	p.N1078S	ATP13A2_uc001azz.1_Missense_Mutation_p.N225S|ATP13A2_uc001bab.2_Missense_Mutation_p.N1073S|ATP13A2_uc001bac.2_Missense_Mutation_p.N1034S	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	1078	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		AGTGGCACCATTGGTGTAGAG	0.677													3	21					0	0	1	0	0		C	17313302	C	C	17313302	3	2	73	1	0	0	0	0	1	0	0	0	1125	1493	52	3	557	3	ATP13A2	1	17313302	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	31471	17313302	231937319	14	47251											
PADI2	11240	broad.mit.edu	37	chr1	17431417	17431417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcctggctcatggtgacccGcagggtggtgctgggcgaga	5	7	18	11	3	1	2	1	1	0	1	1	3	1	2	2	5	1	3	2	5	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:17431417G>A	uc001baf.2	-	2	314	c.232C>T	c.(232-234)CGG>TGG	p.R78W	PADI2_uc010ocm.1_Missense_Mutation_p.R78W|PADI2_uc001bag.1_Missense_Mutation_p.R78W	NM_007365	NP_031391	Q9Y2J8	PADI2_HUMAN	peptidyl arginine deiminase, type II	78					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(3)|pancreas(1)|central_nervous_system(1)|skin(1)	6		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000422)|Renal(390;0.000518)|all_lung(284;0.000546)|Ovarian(437;0.00671)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;1.49e-05)|COAD - Colon adenocarcinoma(227;1.54e-05)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)	L-Citrulline(DB00155)	ATGGTGACCCGCAGGGTGGTG	0.672													11	37					0	0	1	0	0		A	17431417	A	A	17431417	3	1	73	1	0	0	0	0	1	0	0	0	11397	1086	38	1	1825	1	PADI2	1	17431417	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	118115	17431417	231819204	15	47252											
ARHGEF10L	55160	broad.mit.edu	37	chr1	17914943	17914943	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgctcttcttttgcagacCcagacccagcagctgctcca	7	11	7	16	0	3	2	0	0	3	2	4	2	4	2	3	0	5	5	3	0	0	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:17914943C>A	uc001ban.2	+	4	385	c.226C>A	c.(226-228)CCA>ACA	p.P76T	ARHGEF10L_uc009vpe.1_Missense_Mutation_p.P76T|ARHGEF10L_uc001bao.2_Missense_Mutation_p.P76T|ARHGEF10L_uc001bap.2_Missense_Mutation_p.P76T|ARHGEF10L_uc010ocr.1_5'UTR	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	76					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		TTTTGCAGACCCAGACCCAGC	0.652													16	42					6.49762e-13	7.013e-13	1	1	0		A	17914943	A	A	17914943	3	1	73	1	0	0	0	0	1	0	0	0	895	623	22	5	236	5	ARHGEF10L	1	17914943	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	483526	17914943	231335678	16	47253											
ARHGEF10L	55160	broad.mit.edu	37	chr1	17990974	17990974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacctggagagccctcccGtgtgcctgactgtggggccc	4	7	16	14	1	0	2	0	1	0	1	1	4	1	3	5	4	2	0	5	4	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:17990974G>A	uc001ban.2	+	26	3052	c.2893G>A	c.(2893-2895)GTG>ATG	p.V965M	ARHGEF10L_uc009vpe.1_Missense_Mutation_p.V926M|ARHGEF10L_uc001bao.2_Missense_Mutation_p.V926M|ARHGEF10L_uc001bap.2_Missense_Mutation_p.V921M|ARHGEF10L_uc001baq.2_Missense_Mutation_p.V726M|ARHGEF10L_uc010ocs.1_Missense_Mutation_p.V738M|ARHGEF10L_uc001bar.2_Missense_Mutation_p.V668M|ARHGEF10L_uc009vpf.2_RNA	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	965					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		GAGCCCTCCCGTGTGCCTGAC	0.697													11	6					0	0	1	0	0		A	17990974	A	A	17990974	3	1	73	1	0	0	0	0	1	0	0	0	895	1145	40	1	2991	1	ARHGEF10L	1	17990974	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	76031	17990974	231259647	17	47254											
KLHDC7A	127707	broad.mit.edu	37	chr1	18809662	18809662	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctcatctactgcgtgggAcgccggagcaccctctgctt	7	9	10	15	3	3	0	1	0	2	0	3	2	3	2	3	2	5	2	3	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:18809662A>G	uc001bax.2	+	1	2239	c.2187A>G	c.(2185-2187)GGA>GGG	p.G729G	KLHDC7A_uc009vpg.2_Silent_p.G511G	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	729						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		ACTGCGTGGGACGCCGGAGCA	0.667													14	57					0	0	1	0	0		G	18809662	G	G	18809662	2	3	73	1	0	0	0	0	0	0	0	1	8376	262	10	3		3	KLHDC7A	1	18809662	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	818688	18809662	230440959	18	47255											
TAS1R2	80834	broad.mit.edu	37	chr1	19166729	19166729	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctggcggcagaggcaggtGgagaccttgggcggccccac	6	4	18	13	2	0	2	0	0	0	2	0	3	0	2	4	7	0	2	4	7	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:19166729G>T	uc001bba.1	-	6	1885	c.1884C>A	c.(1882-1884)TCC>TCA	p.S628S		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	628	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	AGAGGCAGGTGGAGACCTTGG	0.612													42	79					3.09479e-21	3.4476e-21	1	1	0		T	19166729	T	T	19166729	2	4	73	1	0	0	0	0	0	0	0	1	15588	1335	47	5		5	TAS1R2	1	19166729	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	357067	19166729	230083892	19	47256											
ALDH4A1	8659	broad.mit.edu	37	chr1	19202927	19202927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggctgggtgaggagcgtGcgtgctccagccacttcttg	5	10	16	10	2	1	2	0	2	1	0	2	3	2	3	2	3	4	2	2	3	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:19202927G>A	uc001bbb.2	-	12	1496	c.1220C>T	c.(1219-1221)GCA>GTA	p.A407V	ALDH4A1_uc010ocu.1_Missense_Mutation_p.A347V|ALDH4A1_uc001bbc.2_Missense_Mutation_p.A407V	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	407					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	TGAGGAGCGTGCGTGCTCCAG	0.637													4	16					0	0	1	0	0		A	19202927	A	A	19202927	3	1	73	1	0	0	0	0	1	0	0	0	501	1319	46	2	487	2	ALDH4A1	1	19202927	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	36198	19202927	230047694	20	47257											
UBR4	23352	broad.mit.edu	37	chr1	19480401	19480401	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacctcagaccactggcaaAgagcaggagaagtcttactg	13	7	10	11	0	3	3	2	0	1	3	3	4	3	3	2	2	2	2	2	2	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:19480401A>C	uc001bbi.2	-	45	6495	c.6491T>G	c.(6490-6492)CTT>CGT	p.L2164R	UBR4_uc001bbk.1_5'Flank|UBR4_uc001bbl.1_Missense_Mutation_p.L101R|UBR4_uc001bbm.1_Missense_Mutation_p.L1376R	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2164					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CCACTGGCAAAGAGCAGGAGA	0.478													38	71					0	0	1	0	0		C	19480401	C	C	19480401	3	2	73	1	0	0	0	0	1	0	0	0	16930	72	3	5	9308	5	UBR4	1	19480401	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	277474	19480401	229770220	21	47258											
UBR4	23352	broad.mit.edu	37	chr1	19505634	19505635	+	Frame_Shift_Del	DEL	AG	-	-																															agcaggaggcgtgaaagcacAgagaggctttgagggtgaat																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:19505634_19505635delAG	uc001bbi.2	-	18	2268_2269	c.2264_2265delCT	c.(2263-2265)TCTfs	p.S755fs	UBR4_uc001bbm.1_5'UTR	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	755					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GTGAAAGCACAGAGAGGCTTTG	0.51													47	89	---	---	---	---						.	-	19505635	-	-	19505634	7	5	73	1	0	1	0	1	0	0	0	0	16930	175	7	0	13642	0	UBR4	1	19505634	Frame_Shift_Del	DEL	AG	TCGA-BR-8372-01A-11D-2340-08	25233	19505634	229744987	22	47259											
KIAA0090	23065	broad.mit.edu	37	chr1	19564605	19564605	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaggtataggttaatggtgTaggtctgattgaagcaagcc	11	11	14	5	1	1	2	0	2	1	0	1	3	1	2	1	4	2	4	1	4	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:19564605T>C	uc001bbo.2	-	11	1161	c.1118A>G	c.(1117-1119)TAC>TGC	p.Y373C	KIAA0090_uc001bbp.2_Missense_Mutation_p.Y373C|KIAA0090_uc001bbq.2_Missense_Mutation_p.Y372C|KIAA0090_uc001bbr.2_Missense_Mutation_p.Y351C	NM_015047	NP_055862	Q8N766	K0090_HUMAN	hypothetical protein LOC23065 precursor	373	Extracellular (Potential).					integral to membrane	protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|Breast(348;0.00366)|all_lung(284;0.00519)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;3.84e-05)|Kidney(64;0.000191)|KIRC - Kidney renal clear cell carcinoma(64;0.00274)|GBM - Glioblastoma multiforme(114;0.005)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0656)		GTTAATGGTGTAGGTCTGATT	0.547													14	18					0	0	1	0	0		C	19564605	C	C	19564605	3	2	73	1	0	0	0	0	1	0	0	0	8169	1638	57	3	1915	3	KIAA0090	1	19564605	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	58971	19564605	229686016	23	47260											
AKR7A2	8574	broad.mit.edu	37	chr1	19634729	19634729	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcccagctagcatagtTggagaggccaagctccacga	11	7	10	13	1	0	1	0	0	0	1	2	3	2	1	3	2	3	4	3	2	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:19634729T>C	uc001bbw.2	-	3	536	c.514A>G	c.(514-516)AAC>GAC	p.N172D	AKR7A2_uc001bbx.2_Intron|AKR7A2_uc009vpi.1_Missense_Mutation_p.N172D	NM_003689	NP_003680	O43488	ARK72_HUMAN	aldo-keto reductase family 7, member A2	172	NADP.				carbohydrate metabolic process|cellular aldehyde metabolic process	Golgi apparatus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00461)|BRCA - Breast invasive adenocarcinoma(304;1.83e-05)|Kidney(64;0.000167)|GBM - Glioblastoma multiforme(114;0.00115)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CTAGCATAGTTGGAGAGGCCA	0.632													11	35					0	0	1	0	0		C	19634729	C	C	19634729	3	2	73	1	0	0	0	0	1	0	0	0	475	1812	63	3	585	3	AKR7A2	1	19634729	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	70124	19634729	229615892	24	47261											
EIF4G3	8672	broad.mit.edu	37	chr1	21191710	21191710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggttcagtagcagcttccGgaaattcactgtgttaccag	10	11	10	10	2	2	0	2	0	0	0	3	1	3	1	2	2	3	5	2	2	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:21191710G>A	uc001bec.2	-	16	2756	c.2500C>T	c.(2500-2502)CGG>TGG	p.R834W	EIF4G3_uc010odi.1_Missense_Mutation_p.R438W|EIF4G3_uc010odj.1_Missense_Mutation_p.R833W|EIF4G3_uc009vpz.2_Missense_Mutation_p.R554W|EIF4G3_uc001bed.2_Missense_Mutation_p.R834W|EIF4G3_uc001bef.2_Missense_Mutation_p.R870W|EIF4G3_uc001bee.2_Missense_Mutation_p.R840W	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	834	eIF3/EIF4A-binding (By similarity).|MIF4G.|HEAT 3.			RK->DD: Reduces binding to IRES.	interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		AGCAGCTTCCGGAAATTCACT	0.403													29	62					0	0	1	0	0		A	21191710	A	A	21191710	3	1	73	1	0	0	0	0	1	0	0	0	5046	1115	39	1	2325	1	EIF4G3	1	21191710	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1556981	21191710	228058911	25	47262											
LDLRAD2	401944	broad.mit.edu	37	chr1	22141090	22141090	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgacccccgcgcccccggcGctcaacacctcctccccggc	4	4	8	25	5	1	1	1	1	0	0	3	1	3	1	8	2	1	1	8	2	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:22141090G>A	uc001bfg.1	+	2	472	c.285G>A	c.(283-285)GCG>GCA	p.A95A		NM_001013693	NP_001013715	Q5SZI1	LRAD2_HUMAN	low density lipoprotein receptor class A domain	95	Extracellular (Potential).					integral to membrane	receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.00166)|all_lung(284;0.00172)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;5.2e-26)|COAD - Colon adenocarcinoma(152;1.13e-05)|GBM - Glioblastoma multiforme(114;1.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00598)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)		CGCCCCCGGCGCTCAACACCT	0.642													10	20					0	0	1	0	0		A	22141090	A	A	22141090	2	1	73	1	0	0	0	0	0	0	0	1	8722	1074	38	1		1	LDLRAD2	1	22141090	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	949380	22141090	227109531	26	47263											
HSPG2	3339	broad.mit.edu	37	chr1	22183650	22183650	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcgggtgggcagtttcccGttgtgcaggcgggtccacac	4	9	16	12	3	0	0	0	0	0	0	3	0	2	0	2	4	1	5	2	4	0	2	rs140134749	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:22183650G>A	uc001bfj.2	-	44	5473	c.5433C>T	c.(5431-5433)AAC>AAT	p.N1811N	HSPG2_uc009vqd.2_Silent_p.N1812N	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	1811	Ig-like C2-type 3.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GCAGTTTCCCGTTGTGCAGGC	0.607													33	77					0	0	1	0	0		A	22183650	A	A	22183650	2	1	73	1	0	0	0	0	0	0	0	1	7446	1136	40	1		1	HSPG2	1	22183650	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	42560	22183650	227066971	27	47264											
C1QC	714	broad.mit.edu	37	chr1	22973964	22973964	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctgatcagattcaacgcGgtcctcaccaacccgcaggg	10	6	10	15	3	3	2	3	1	0	1	4	2	4	2	4	2	3	1	4	2	2	1	rs141293786		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:22973964G>A	uc001bgc.3	+	3	529	c.426G>A	c.(424-426)GCG>GCA	p.A142A	C1QC_uc001bga.3_Silent_p.A142A|C1QC_uc001bgb.2_Silent_p.A142A	NM_172369	NP_758957	P02747	C1QC_HUMAN	complement component 1, q subcomponent, C chain	142	C1q.				complement activation, classical pathway|innate immune response|negative regulation of granulocyte differentiation|negative regulation of macrophage differentiation	collagen					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.21e-27)|Colorectal(126;1.5e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.61e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000538)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.196)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GATTCAACGCGGTCCTCACCA	0.567													18	30					0	0	1	0	0		A	22973964	A	A	22973964	2	1	73	1	0	0	0	0	0	0	0	1	1960	1103	39	1		1	C1QC	1	22973964	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	790314	22973964	226276657	28	47265											
IL22RA1	58985	broad.mit.edu	37	chr1	24447436	24447436	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactccagcaggccccagggActtggaccttggtccgaggg	7	6	15	13	1	0	0	0	0	0	0	2	4	2	2	5	5	1	1	5	5	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:24447436A>G	uc001biq.1	-	7	1623	c.1584T>C	c.(1582-1584)AGT>AGC	p.S528S	IL22RA1_uc010oeg.1_Silent_p.S460S|IL22RA1_uc009vrb.1_Silent_p.S392S|IL22RA1_uc010oeh.1_3'UTR	NM_021258	NP_067081	Q8N6P7	I22R1_HUMAN	interleukin 22 receptor, alpha 1 precursor	528	Cytoplasmic (Potential).					integral to membrane	interferon receptor activity			skin(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000992)|all_lung(284;0.00138)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;3.84e-24)|Colorectal(126;6.43e-08)|COAD - Colon adenocarcinoma(152;3.51e-06)|GBM - Glioblastoma multiforme(114;5.06e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00911)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.148)		GGCCCCAGGGACTTGGACCTT	0.622													15	38					0	0	1	0	0		G	24447436	G	G	24447436	2	3	73	1	0	0	0	0	0	0	0	1	7689	272	10	3		3	IL22RA1	1	24447436	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1473472	24447436	224803185	29	47266											
TMEM57	55219	broad.mit.edu	37	chr1	25780773	25780773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagtgtgtttgcctacaGtgtctctctggatcctcttt	4	16	12	9	0	3	0	0	0	3	0	5	2	4	2	2	3	2	1	2	3	1	3	rs113398522		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:25780773G>A	uc001bkk.2	+	4	575	c.373G>A	c.(373-375)GTG>ATG	p.V125M	TMEM57_uc009vru.2_Missense_Mutation_p.V125M|TMEM57_uc009vrv.2_Intron|TMEM57_uc009vrt.2_RNA	NM_018202	NP_060672	Q8N5G2	MACOI_HUMAN	transmembrane protein 57	125	Helical; (Potential).					axon|integral to membrane|neuron projection terminus|nuclear membrane|synapse part					0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00715)|all_lung(284;0.00989)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.201)		UCEC - Uterine corpus endometrioid carcinoma (279;0.042)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-26)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|GBM - Glioblastoma multiforme(114;0.0191)|READ - Rectum adenocarcinoma(331;0.0649)		TTTGCCTACAGTGTCTCTCTG	0.393													21	47					0	0	1	0	0		A	25780773	A	A	25780773	3	1	73	1	0	0	0	0	1	0	0	0	16209	1029	36	4	387	4	TMEM57	1	25780773	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1333337	25780773	223469848	30	47267											
EXTL1	2134	broad.mit.edu	37	chr1	26349202	26349202	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctcctggctcctgcttgTcctgctgggaggcttctccc	2	12	11	16	0	1	0	0	0	1	0	5	1	4	1	5	3	3	4	5	3	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:26349202T>C	uc001blf.2	+	1	932	c.65T>C	c.(64-66)GTC>GCC	p.V22A		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	22	Helical; Signal-anchor for type II membrane protein; (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		CTCCTGCTTGTCCTGCTGGGA	0.657													10	34					0	0	1	0	0		C	26349202	C	C	26349202	3	2	73	1	0	0	0	0	1	0	0	0	5333	1667	58	3	67	3	EXTL1	1	26349202	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	568429	26349202	222901419	31	47268											
CNKSR1	10256	broad.mit.edu	37	chr1	26515997	26515997	+	Frame_Shift_Del	DEL	C	-	-																															gaagagcactcccatctctgCcccctgacctcagagagcag																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:26515997delC	uc001bln.3	+	21	2179	c.2121delC	c.(2119-2121)TGCfs	p.C707fs	CNKSR1_uc001blm.3_Frame_Shift_Del_p.C700fs|CNKSR1_uc009vsd.2_Frame_Shift_Del_p.C442fs|CNKSR1_uc009vse.2_Frame_Shift_Del_p.C442fs|CNKSR1_uc001blo.2_Frame_Shift_Del_p.C442fs|CATSPER4_uc010oey.1_5'Flank|CATSPER4_uc010oez.1_5'Flank|CATSPER4_uc009vsf.2_5'Flank	NM_006314	NP_006305	Q969H4	CNKR1_HUMAN	connector enhancer of kinase suppressor of Ras	707					Rho protein signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cell cortex|cell-cell junction	protein binding, bridging			lung(1)|kidney(1)	2		Colorectal(325;3.46e-05)|all_lung(284;0.000116)|Lung NSC(340;0.000154)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.72e-26)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|BRCA - Breast invasive adenocarcinoma(304;0.000959)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00823)|READ - Rectum adenocarcinoma(331;0.0649)		CCCATCTCTGCCCCCTGACCT	0.622													40	74	---	---	---	---						.	-	26515997	-	-	26515997	7	5	73	1	0	1	0	1	0	0	0	0	3609	747	26	0	2182	0	CNKSR1	1	26515997	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	166795	26515997	222734624	32	47269											
ARID1A	8289	broad.mit.edu	37	chr1	27101055	27101055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacagctgctactgagcgccGaccagcaggcggcccccaga	9	3	12	17	3	0	2	0	1	0	1	0	3	0	2	4	2	5	3	4	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:27101055G>A	uc001bmv.1	+	18	4710	c.4337G>A	c.(4336-4338)CGA>CAA	p.R1446Q	ARID1A_uc001bmt.1_Missense_Mutation_p.R1445Q|ARID1A_uc001bmu.1_Intron|ARID1A_uc001bmw.1_Missense_Mutation_p.R1063Q|ARID1A_uc001bmx.1_Missense_Mutation_p.R292Q|ARID1A_uc009vsm.1_Intron|ARID1A_uc009vsn.1_5'UTR	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1446					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		ACTGAGCGCCGACCAGCAGGC	0.587			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								27	71					0	0	1	0	0		A	27101055	A	A	27101055	3	1	73	1	0	0	0	0	1	0	0	0	913	1058	37	1	4407	1	ARID1A	1	27101055	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	585058	27101055	222149566	33	47270											
GPATCH3	63906	broad.mit.edu	37	chr1	27218981	27218981	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagcacctgcagcccaggcCctggccctcagcccagccct	6	5	10	20	0	1	1	1	1	0	0	1	1	1	1	6	2	5	2	6	2	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:27218981C>A	uc001bne.2	-	6	1311	c.1282G>T	c.(1282-1284)GGC>TGC	p.G428C	GPN2_uc001bnd.1_5'Flank|GPATCH3_uc009vsp.1_Missense_Mutation_p.G239C	NM_022078	NP_071361	Q96I76	GPTC3_HUMAN	G patch domain containing 3	428	G-patch.					intracellular	nucleic acid binding				0		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.97e-51)|OV - Ovarian serous cystadenocarcinoma(117;9.55e-30)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|STAD - Stomach adenocarcinoma(196;0.000595)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|READ - Rectum adenocarcinoma(331;0.0419)		CAGCCCAGGCCCTGGCCCTCA	0.627													25	53					1.36565e-18	1.51093e-18	1	1	0		A	27218981	A	A	27218981	3	1	73	1	0	0	0	0	1	0	0	0	6607	623	22	5	303	5	GPATCH3	1	27218981	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	117926	27218981	222031640	34	47271											
AHDC1	27245	broad.mit.edu	37	chr1	27878058	27878058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggatggctgggccgctccGacttggcgtgtggggtggcc	2	8	21	10	3	0	0	0	0	0	0	1	2	1	1	3	8	0	2	3	8	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:27878058G>A	uc009vsy.2	-	6	1538	c.569C>T	c.(568-570)TCG>TTG	p.S190L	AHDC1_uc009vsz.1_Missense_Mutation_p.S190L|AHDC1_uc001boh.1_Missense_Mutation_p.S63L	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	190	Pro-rich.						DNA binding			central_nervous_system(1)	1		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		GGGCCGCTCCGACTTGGCGTG	0.677													9	74					0	0	1	0	0		A	27878058	A	A	27878058	3	1	73	1	0	0	0	0	1	0	0	0	412	1059	37	1	4246	1	AHDC1	1	27878058	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	659077	27878058	221372563	35	47272											
MED18	54797	broad.mit.edu	37	chr1	28661170	28661170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccctggtgcgaaactgcGtggacattgccacatctgag	9	9	12	11	2	1	1	0	1	1	0	1	3	1	2	2	2	5	0	2	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:28661170G>A	uc001bpt.3	+	3	561	c.316G>A	c.(316-318)GTG>ATG	p.V106M	MED18_uc009vtg.2_Missense_Mutation_p.V106M	NM_017638	NP_060108	Q9BUE0	MED18_HUMAN	mediator complex subunit 18	106					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex	identical protein binding				0		Colorectal(325;0.000147)|Lung NSC(340;0.000818)|all_lung(284;0.000996)|Renal(390;0.00357)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0557)|Ovarian(437;0.113)		OV - Ovarian serous cystadenocarcinoma(117;2.36e-22)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0141)|READ - Rectum adenocarcinoma(331;0.0649)		GCGAAACTGCGTGGACATTGC	0.562													46	84					0	0	1	0	0		A	28661170	A	A	28661170	3	1	73	1	0	0	0	0	1	0	0	0	9454	1145	40	1	322	1	MED18	1	28661170	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	783112	28661170	220589451	36	47273											
TMEM200B	399474	broad.mit.edu	37	chr1	29447582	29447582	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacttggaatgttcaatgcaGgagccagacggctgcacggt	10	8	14	9	2	1	1	1	0	0	1	1	4	1	3	1	4	3	4	1	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:29447582G>T	uc001brn.1	-	2	819	c.759C>A	c.(757-759)TCC>TCA	p.S253S		NM_001003682	NP_001003682	Q69YZ2	T200B_HUMAN	transmembrane protein 200B	253						integral to membrane					0		Colorectal(325;3.46e-05)|Breast(348;0.00765)|Lung NSC(340;0.0153)|all_lung(284;0.0173)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;7.32e-08)|COAD - Colon adenocarcinoma(152;4.92e-06)|STAD - Stomach adenocarcinoma(196;0.00618)|BRCA - Breast invasive adenocarcinoma(304;0.0501)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.126)		GTTCAATGCAGGAGCCAGACG	0.657													12	27					2.27111e-07	2.37724e-07	1	1	0		T	29447582	T	T	29447582	2	4	73	1	0	0	0	0	0	0	0	1	16149	987	35	5		5	TMEM200B	1	29447582	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	786412	29447582	219803039	37	47274											
PUM1	9698	broad.mit.edu	37	chr1	31439015	31439020	+	In_Frame_Del	DEL	GCTGGG	-	-																															caggttgttattgggctgctGctggggctggggctgaggct																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:31439015_31439020delGCTGGG	uc001bsi.1	-	13	2008_2013	c.1895_1900delCCCAGC	c.(1894-1902)CCCCAGCAG>CAG	p.PQ632del	PUM1_uc001bsf.1_In_Frame_Del_p.PQ298del|PUM1_uc001bsg.1_In_Frame_Del_p.PQ445del|PUM1_uc001bsh.1_In_Frame_Del_p.PQ632del|PUM1_uc001bsj.1_In_Frame_Del_p.PQ606del|PUM1_uc010oga.1_In_Frame_Del_p.PQ488del|PUM1_uc001bsk.1_In_Frame_Del_p.PQ668del|PUM1_uc010ogb.1_In_Frame_Del_p.PQ573del	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	632_633					cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		TTgggctgctgctggggctggggctg	0.447													33	64	---	---	---	---						.	-	31439020	-	-	31439015	7	5	73	1	0	1	0	1	0	0	0	0	12850	1328	46	0	1706	0	PUM1	1	31439015	In_Frame_Del	DEL	GCTGGG	TCGA-BR-8372-01A-11D-2340-08	1991433	31439015	217811606	38	47275											
PUM1	9698	broad.mit.edu	37	chr1	31465500	31465500	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agagttctggcaattaccagGggtacggctaaacagagaaa	15	7	12	7	1	1	2	0	0	1	2	1	3	1	2	1	4	3	4	1	4	6	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:31465500G>T	uc001bsi.1	-	7	1008	c.895C>A	c.(895-897)CCT>ACT	p.P299T	PUM1_uc001bsf.1_5'UTR|PUM1_uc001bsg.1_Missense_Mutation_p.P111T|PUM1_uc001bsh.1_Missense_Mutation_p.P299T|PUM1_uc001bsj.1_Missense_Mutation_p.P299T|PUM1_uc010oga.1_Missense_Mutation_p.P203T|PUM1_uc001bsk.1_Missense_Mutation_p.P335T|PUM1_uc010ogb.1_Missense_Mutation_p.P239T	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	299					cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		CAATTACCAGGGGTACGGCTA	0.478													17	84					1.37285e-15	1.50291e-15	1	1	0		T	31465500	T	T	31465500	3	4	73	1	0	0	0	0	1	0	0	0	12850	1232	43	5	2735	5	PUM1	1	31465500	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	26485	31465500	217785121	39	47276											
TINAGL1	64129	broad.mit.edu	37	chr1	32049152	32049152	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accatccgcccatcttcctcGgtcatgaacatgcatgaaat	11	10	6	14	2	2	2	1	2	1	0	5	2	4	2	4	1	2	1	4	1	2	1	rs143266156	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:32049152G>A	uc001bta.2	+	5	684	c.558G>A	c.(556-558)TCG>TCA	p.S186S	TINAGL1_uc001bsz.2_Silent_p.S41S|TINAGL1_uc010ogj.1_Silent_p.S155S|TINAGL1_uc010ogk.1_Silent_p.S186S	NM_022164	NP_071447	Q9GZM7	TINAL_HUMAN	tubulointerstitial nephritis antigen-like 1	186					endosome transport|immune response|proteolysis	extracellular region	cysteine-type endopeptidase activity|extracellular matrix structural constituent|polysaccharide binding|scavenger receptor activity				0		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		STAD - Stomach adenocarcinoma(196;0.0526)|READ - Rectum adenocarcinoma(331;0.145)		CATCTTCCTCGGTCATGAACA	0.587													8	14					0	0	1	0	0		A	32049152	A	A	32049152	2	1	73	1	0	0	0	0	0	0	0	1	15947	1103	39	1		1	TINAGL1	1	32049152	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	583652	32049152	217201469	40	47277											
LCK	3932	broad.mit.edu	37	chr1	32740967	32740967	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccctgaccacgggccaggaAggcttcatccccttcaattt	8	10	8	15	1	2	1	2	1	0	0	4	2	4	2	5	3	0	1	5	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:32740967A>T	uc001bux.2	+	5	462	c.324A>T	c.(322-324)GAA>GAT	p.E108D	LCK_uc001buy.2_Missense_Mutation_p.E108D|LCK_uc001buz.2_Missense_Mutation_p.E108D|LCK_uc010ohc.1_Missense_Mutation_p.E152D|LCK_uc001bva.2_Missense_Mutation_p.E166D	NM_005356	NP_005347	P06239	LCK_HUMAN	lymphocyte-specific protein tyrosine kinase	108	SH3.				activation of caspase activity|cellular zinc ion homeostasis|induction of apoptosis|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of T cell receptor signaling pathway|regulation of defense response to virus by virus|release of sequestered calcium ion into cytosol|response to drug|T cell costimulation|T cell differentiation|T cell receptor signaling pathway|viral reproduction	cytosol|Golgi apparatus|membrane raft|pericentriolar material|plasma membrane	ATP binding|ATPase binding|CD4 receptor binding|CD8 receptor binding|glycoprotein binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein kinase binding|protein serine/threonine phosphatase activity|SH2 domain binding			lung(3)|central_nervous_system(2)|ovary(1)	6		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)			Dasatinib(DB01254)	CGGGCCAGGAAGGCTTCATCC	0.642			T	TRB@	T-ALL								11	27					0	0	1	0	0		T	32740967	T	T	32740967	3	4	73	1	0	0	0	0	1	0	0	0	8692	69	3	5	338	5	LCK	1	32740967	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	691815	32740967	216509654	41	47278											
RBBP4	5928	broad.mit.edu	37	chr1	33133933	33133933	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccagaacccttgtatcAtcgcaacaaagactccttcc	11	9	5	16	1	1	2	1	0	0	2	4	2	3	2	5	0	3	2	5	0	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:33133933A>G	uc001bvr.2	+	4	577	c.418A>G	c.(418-420)ATC>GTC	p.I140V	RBBP4_uc001bvs.2_Missense_Mutation_p.I139V|RBBP4_uc010ohj.1_Intron|RBBP4_uc010ohk.1_Missense_Mutation_p.I105V	NM_005610	NP_005601	Q09028	RBBP4_HUMAN	retinoblastoma binding protein 4 isoform a	140	WD 1.				cell cycle|CenH3-containing nucleosome assembly at centromere|DNA replication|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|ESC/E(Z) complex|NuRD complex|NURF complex|Sin3 complex	histone binding|histone deacetylase binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				CCCTTGTATCATCGCAACAAA	0.378													21	68					0	0	1	0	0		G	33133933	G	G	33133933	3	3	73	1	0	0	0	0	1	0	0	0	13126	217	8	3	432	3	RBBP4	1	33133933	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	392966	33133933	216116688	42	47279											
YARS	8565	broad.mit.edu	37	chr1	33272165	33272165	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagccttcttggaatcgTgctgtgtgaccacggaggag	7	10	13	11	2	1	1	0	1	1	0	3	4	2	4	3	3	2	1	3	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:33272165T>C	uc001bvy.1	-	4	1216	c.428A>G	c.(427-429)CAC>CGC	p.H143R		NM_003680	NP_003671	P54577	SYYC_HUMAN	tyrosyl-tRNA synthetase	143				H -> R (in Ref. 4; BAD97328).	apoptosis|tyrosyl-tRNA aminoacylation	cytosol|extracellular space|nucleus|soluble fraction	ATP binding|interleukin-8 receptor binding|signal transducer activity|tRNA binding|tyrosine-tRNA ligase activity			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)			L-Tyrosine(DB00135)	CTTGGAATCGTGCTGTGTGAC	0.542													9	141					0	0	1	0	0		C	33272165	C	C	33272165	3	2	73	1	0	0	0	0	1	0	0	0	17493	1696	59	3	1198	3	YARS	1	33272165	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	138232	33272165	215978456	43	47280											
MAP7D1	55700	broad.mit.edu	37	chr1	36641819	36641819	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcgcagcctgcagctgagCgcatgggagagcagcatcgt	9	6	15	11	3	0	2	0	1	0	1	2	4	0	2	1	1	6	6	1	1	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:36641819C>T	uc001bzz.2	+	7	1086	c.870C>T	c.(868-870)AGC>AGT	p.S290S	MAP7D1_uc001caa.2_Silent_p.S290S|MAP7D1_uc001cab.2_Silent_p.S253S|MAP7D1_uc001cac.2_5'UTR|MAP7D1_uc001cad.2_5'Flank	NM_018067	NP_060537	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	290						cytoplasm|spindle				ovary(3)|breast(2)	5		Myeloproliferative disorder(586;0.0393)				TGCAGCTGAGCGCATGGGAGA	0.672													7	19					0	0	1	0	0		T	36641819	T	T	36641819	2	4	73	1	0	0	0	0	0	0	0	1	9285	767	27	1		1	MAP7D1	1	36641819	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3369654	36641819	212608802	44	47281											
C1orf113	79729	broad.mit.edu	37	chr1	36785312	36785312	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggtaaaggccccctctGtgaagagaacccccatgccg	9	5	11	16	2	1	2	0	1	1	1	1	3	1	2	6	2	2	1	6	2	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:36785312G>C	uc010oia.1	+	14	1076	c.1048G>C	c.(1048-1050)GTG>CTG	p.V350L	C1orf113_uc010oib.1_Missense_Mutation_p.V239L|C1orf113_uc010oic.1_RNA|C1orf113_uc009vuz.1_5'UTR	NM_001162530	NP_001156002	A4FU49	SH321_HUMAN	SH3 domain-containing protein C1orf113 isoform	234											0		Myeloproliferative disorder(586;0.0393)				GGCCCCCTCTGTGAAGAGAAC	0.617													3	12					0	0	1	0	0		C	36785312	C	C	36785312	3	2	73	1	0	0	0	0	1	0	0	0	1989	1377	48	5	1102	5	C1orf113	1	36785312	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	143493	36785312	212465309	45	47282											
SF3A3	10946	broad.mit.edu	37	chr1	38423870	38423870	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgaacactagagcagtccTtgtcttttcagatcctcgta	9	13	7	12	1	2	3	1	1	1	2	5	3	4	3	3	0	2	2	3	0	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:38423870T>G	uc001cci.2	-	17	1618	c.1494A>C	c.(1492-1494)CAA>CAC	p.Q498H	SF3A3_uc010oik.1_Missense_Mutation_p.Q445H	NM_006802	NP_006793	Q12874	SF3A3_HUMAN	splicing factor 3a, subunit 3	498					nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nuclear speck	nucleic acid binding|protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				AGAGCAGTCCTTGTCTTTTCA	0.433													21	43					0	0	1	0	0		G	38423870	G	G	38423870	3	3	73	1	0	0	0	0	1	0	0	0	14173	1606	56	5	15	5	SF3A3	1	38423870	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1638558	38423870	210826751	46	47283											
MACF1	23499	broad.mit.edu	37	chr1	39800373	39800373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggaaaaagactgacattgGcatcagctttggaagagaaa	16	8	11	6	0	1	3	1	1	0	2	1	6	1	5	0	3	1	2	0	3	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:39800373G>A	uc010oiu.1	+	1	3564	c.3433G>A	c.(3433-3435)GCA>ACA	p.A1145T	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2710	Plectin 11.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			ACTGACATTGGCATCAGCTTT	0.403													17	43					0	0	1	0	0		A	39800373	A	A	39800373	3	1	73	1	0	0	0	0	1	0	0	0	9162	1203	42	2	8204	2	MACF1	1	39800373	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1376503	39800373	209450248	47	47284											
KCNQ4	9132	broad.mit.edu	37	chr1	41285564	41285564	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagattacattgacaaccatCggctatggtgacaagacacc	14	8	8	11	1	0	4	0	2	0	2	1	4	0	4	2	2	2	1	2	2	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:41285564C>T	uc001cgh.1	+	6	934	c.852C>T	c.(850-852)ATC>ATT	p.I284I	KCNQ4_uc001cgi.1_Silent_p.I284I	NM_004700	NP_004691	P56696	KCNQ4_HUMAN	potassium voltage-gated channel KQT-like protein	284	Selectivity filter (By similarity).				sensory perception of sound	basal plasma membrane|voltage-gated potassium channel complex				central_nervous_system(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.38e-17)			TGACAACCATCGGCTATGGTG	0.582													45	86					0	0	1	0	0		T	41285564	T	T	41285564	2	4	73	1	0	0	0	0	0	0	0	1	8101	874	31	1		1	KCNQ4	1	41285564	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1485191	41285564	207965057	48	47285											
RIMKLA	284716	broad.mit.edu	37	chr1	42870241	42870241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccctgggctacccagtcGtggtgaagagcacacgaggc	9	5	14	13	2	0	2	0	1	0	1	1	3	0	2	3	3	3	2	3	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:42870241G>A	uc001chi.2	+	3	592	c.454G>A	c.(454-456)GTG>ATG	p.V152M		NM_173642	NP_775913	Q8IXN7	RIMKA_HUMAN	ribosomal modification protein rimK-like family	152	ATP-grasp.|ATP (By similarity).				protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						CTACCCAGTCGTGGTGAAGAG	0.547													15	39					0	0	1	0	0		A	42870241	A	A	42870241	3	1	73	1	0	0	0	0	1	0	0	0	13390	1145	40	1	464	1	RIMKLA	1	42870241	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1584677	42870241	206380380	49	47286											
RIMKLA	284716	broad.mit.edu	37	chr1	42880340	42880340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggcatgcaacttagatGtgggtgggatcattgcagac	11	9	13	8	0	1	2	1	0	0	2	1	3	1	3	1	3	3	3	1	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:42880340G>A	uc001chi.2	+	5	1009	c.871G>A	c.(871-873)GTG>ATG	p.V291M		NM_173642	NP_775913	Q8IXN7	RIMKA_HUMAN	ribosomal modification protein rimK-like family	291	ATP-grasp.				protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						CAACTTAGATGTGGGTGGGAT	0.498													77	147					0	0	1	0	0		A	42880340	A	A	42880340	3	1	73	1	0	0	0	0	1	0	0	0	13390	1377	48	4	889	4	RIMKLA	1	42880340	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	10099	42880340	206370281	50	47287											
RNF220	55182	broad.mit.edu	37	chr1	45079871	45079871	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcattgttcgacagccaGgccccaatttgccccatctg	7	9	10	15	2	1	0	0	0	1	0	2	1	1	0	5	2	2	2	5	2	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:45079871G>A	uc001clv.1	+	3	1020	c.660G>A	c.(658-660)CAG>CAA	p.Q220Q	RNF220_uc001clw.1_Silent_p.Q220Q|RNF220_uc010okx.1_5'UTR|RNF220_uc010oky.1_5'UTR	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	220					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TCGACAGCCAGGCCCCAATTT	0.592													24	60					0	0	1	0	0		A	45079871	A	A	45079871	2	1	73	1	0	0	0	0	0	0	0	1	13508	991	35	4		4	RNF220	1	45079871	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2199531	45079871	204170750	51	47288											
ZSWIM5	57643	broad.mit.edu	37	chr1	45553711	45553711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtttcggagataggaagaCgcaatttgacttggtctggt	9	12	15	5	2	1	3	0	1	1	2	2	5	1	4	0	5	0	2	0	5	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:45553711C>T	uc001cnd.2	-	2	1022	c.794G>A	c.(793-795)CGT>CAT	p.R265H		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	265							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					GATAGGAAGACGCAATTTGAC	0.443													73	147					0	0	1	0	0		T	45553711	T	T	45553711	3	4	73	1	0	0	0	0	1	0	0	0	18269	536	19	1	2815	1	ZSWIM5	1	45553711	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	473840	45553711	203696910	52	47289											
NASP	4678	broad.mit.edu	37	chr1	46068012	46068012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atattccagcagctgtcaatGcattccaggaagcagctagt	12	10	9	10	0	1	0	1	0	0	0	3	1	3	1	2	1	5	5	2	1	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:46068012G>A	uc001coi.1	+	3	295	c.193G>A	c.(193-195)GCA>ACA	p.A65T	NASP_uc010olq.1_Intron|NASP_uc001coh.1_Missense_Mutation_p.A67T|NASP_uc001coj.1_Missense_Mutation_p.A65T|NASP_uc010olr.1_Intron|NASP_uc001cok.1_5'UTR	NM_002482	NP_002473	P49321	NASP_HUMAN	nuclear autoantigenic sperm protein isoform 2	65	TPR 1.				blastocyst development|cell cycle|cell proliferation|DNA replication|histone exchange|protein transport	cytoplasm|nucleus	Hsp90 protein binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.211)					AGCTGTCAATGCATTCCAGGA	0.343													27	74					0	0	1	0	0		A	46068012	A	A	46068012	3	1	73	1	0	0	0	0	1	0	0	0	10190	1319	46	2	280	2	NASP	1	46068012	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	514301	46068012	203182609	53	47290											
FOXD2	2306	broad.mit.edu	37	chr1	47904205	47904205	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagccgccctactcgtacaTcgcgctcatcaccatggcca	9	7	8	17	4	2	0	2	0	0	0	4	1	2	0	4	1	3	2	4	1	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:47904205T>C	uc001crm.2	+	1	2517	c.398T>C	c.(397-399)ATC>ACC	p.I133T		NM_004474	NP_004465	O60548	FOXD2_HUMAN	forkhead box D2	133	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0				READ - Rectum adenocarcinoma(2;0.0908)		TACTCGTACATCGCGCTCATC	0.438													21	37					0	0	1	0	0		C	47904205	C	C	47904205	3	2	73	1	0	0	0	0	1	0	0	0	6011	1435	50	3	400	3	FOXD2	1	47904205	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1836193	47904205	201346416	54	47291											
NRD1	4898	broad.mit.edu	37	chr1	52301819	52301819	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactgtgctccaaaaagtgTgccagccccggcaggtcatc	9	9	10	13	1	1	0	1	0	0	0	3	0	2	0	4	2	4	2	4	2	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:52301819T>C	uc001ctc.3	-	5	1222	c.900A>G	c.(898-900)GCA>GCG	p.A300A	NRD1_uc009vzb.2_5'UTR|NRD1_uc001ctd.3_Silent_p.A232A|NRD1_uc001cte.2_Silent_p.A168A|NRD1_uc001ctf.2_Silent_p.A232A|NRD1_uc010ong.1_RNA|NRD1_uc009vzc.1_Silent_p.A100A	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	231					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						CCAAAAAGTGTGCCAGCCCCG	0.423													6	19					0	0	1	0	0		C	52301819	C	C	52301819	2	2	73	1	0	0	0	0	0	0	0	1	10664	1683	59	3		3	NRD1	1	52301819	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4397614	52301819	196948802	55	47292											
CC2D1B	200014	broad.mit.edu	37	chr1	52821976	52821976	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcaagcttctcaaatcTgacagggatgggtatgtcag	11	10	12	8	0	3	2	2	2	2	0	4	3	3	3	0	2	2	3	0	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:52821976T>C	uc001ctq.1	-	18	2094	c.1956_splice	c.e18-1	p.R652_splice	CC2D1B_uc001ctr.2_Splice_Site_p.R192_splice|CC2D1B_uc001cts.2_Splice_Site_p.R337_splice	NM_032449	NP_115825	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B											ovary(2)	2						TTCTCAAATCTGACAGGGATG	0.582													24	124					0	0	1	0	0		C	52821976	C	C	52821976	5	2	73	1	0	0	0	0	0	0	1	0	2730	1594	55	3	650	3	CC2D1B	1	52821976	Splice_Site	SNP	T	TCGA-BR-8372-01A-11D-2340-08	520157	52821976	196428645	56	47293											
DAB1	1600	broad.mit.edu	37	chr1	57535092	57535092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtgtccagcctcaaacaCaatgtactattacaggagca	13	9	7	12	1	1	0	1	0	0	0	3	1	2	1	2	1	5	2	2	1	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:57535092C>T	uc001cys.1	-	10	1278	c.604G>A	c.(604-606)GTG>ATG	p.V202M	DAB1_uc001cyt.1_Missense_Mutation_p.V202M|DAB1_uc001cyq.1_Intron|DAB1_uc001cyr.1_Intron|DAB1_uc009vzw.1_Intron|DAB1_uc009vzx.1_Missense_Mutation_p.V202M	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	202					cell differentiation|nervous system development					skin(2)|ovary(1)	3						GCCTCAAACACAATGTACTAT	0.413													21	58					0	0	1	0	0		T	57535092	T	T	57535092	3	4	73	1	0	0	0	0	1	0	0	0	4220	478	17	4	1091	4	DAB1	1	57535092	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4713116	57535092	191715529	57	47294											
DOCK7	85440	broad.mit.edu	37	chr1	63113432	63113432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatatcaggaacactaagccGttctattggttcttcctaca	11	14	6	10	1	3	0	1	0	2	0	4	1	4	1	2	2	3	2	2	2	6	9			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:63113432G>A	uc001daq.2	-	7	782	c.748C>T	c.(748-750)CGG>TGG	p.R250W	DOCK7_uc001dan.2_Missense_Mutation_p.R142W|DOCK7_uc001dao.2_Missense_Mutation_p.R142W|DOCK7_uc001dap.2_Missense_Mutation_p.R250W|DOCK7_uc009wah.1_Missense_Mutation_p.R250W	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	250					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						ACACTAAGCCGTTCTATTGGT	0.303													55	105					0	0	1	0	0		A	63113432	A	A	63113432	3	1	73	1	0	0	0	0	1	0	0	0	4698	1144	40	1	5753	1	DOCK7	1	63113432	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5578340	63113432	186137189	58	47295											
C1orf141	400757	broad.mit.edu	37	chr1	67561988	67561988	+	Frame_Shift_Del	DEL	T	-	-																															gaatccaatggtttcctaggTtttttttcaatttgagctga																								rs145918823		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:67561988delT	uc001ddl.1	-	5	474	c.363delA	c.(361-363)AAAfs	p.K121fs	C1orf141_uc001ddm.1_Frame_Shift_Del_p.K121fs|C1orf141_uc001ddn.1_RNA	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	121										ovary(1)	1						GTTTCCTAGGTTTTTTTTCAA	0.249													14	23	---	---	---	---						.	-	67561988	-	-	67561988	7	5	73	1	0	1	0	1	0	0	0	0	2004	1722	60	0	851	0	C1orf141	1	67561988	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	4448556	67561988	181688633	59	47296											
ANKRD13C	81573	broad.mit.edu	37	chr1	70766480	70766480	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgataaactttttgttcAttgtctaatactacaaaaga	14	15	5	7	1	2	2	1	1	1	1	2	2	2	2	0	0	3	2	0	0	7	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:70766480A>G	uc001dex.3	-	7	1214	c.888T>C	c.(886-888)AAT>AAC	p.N296N	ANKRD13C_uc009wbk.2_Silent_p.N261N	NM_030816	NP_110443	Q8N6S4	AN13C_HUMAN	ankyrin repeat domain 13C	296					protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0						CTTTTTGTTCATTGTCTAATA	0.358													12	23					0	0	1	0	0		G	70766480	G	G	70766480	2	3	73	1	0	0	0	0	0	0	0	1	643	214	8	3		3	ANKRD13C	1	70766480	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3204492	70766480	178484141	60	47297											
FAM73A	374986	broad.mit.edu	37	chr1	78249019	78249019	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgatcttcctctgacttggTactattctctctcccaggta	6	17	6	12	0	4	2	0	2	4	0	7	2	5	2	2	2	1	2	2	2	3	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:78249019T>C	uc001dhx.2	+	2	210	c.178T>C	c.(178-180)TAC>CAC	p.Y60H	FAM73A_uc010ork.1_Missense_Mutation_p.Y60H|FAM73A_uc010orl.1_Intron	NM_198549	NP_940951	Q8NAN2	FA73A_HUMAN	hypothetical protein LOC374986	60						integral to membrane				ovary(1)	1				Colorectal(170;0.226)		TCTGACTTGGTACTATTCTCT	0.358													6	74					0	0	1	0	0		C	78249019	C	C	78249019	3	2	73	1	0	0	0	0	1	0	0	0	5631	1638	57	3	184	3	FAM73A	1	78249019	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	7482539	78249019	171001602	61	47298											
LPHN2	23266	broad.mit.edu	37	chr1	82415943	82415943	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataatatcaaccacaagcacTacttcacagaaaggccccat	17	7	4	13	0	2	1	2	0	0	1	2	1	2	1	3	1	3	1	3	1	6	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:82415943T>C	uc001dit.3	+	7	1450	c.1269T>C	c.(1267-1269)ACT>ACC	p.T423T	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Silent_p.T423T|LPHN2_uc001div.2_Silent_p.T423T|LPHN2_uc009wcd.2_Silent_p.T423T|LPHN2_uc001diw.2_5'UTR	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	423	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		CCACAAGCACTACTTCACAGA	0.428													31	84					0	0	1	0	0		C	82415943	C	C	82415943	2	2	73	1	0	0	0	0	0	0	0	1	8934	1509	53	3		3	LPHN2	1	82415943	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4166924	82415943	166834678	62	47299											
LRRC8C	84230	broad.mit.edu	37	chr1	90179605	90179605	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctctctttcctgaaggaaaaCctcaaggtcttgagcgtcaa	11	11	8	11	1	4	2	2	2	2	0	6	3	5	3	2	2	2	0	2	2	5	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:90179605C>T	uc001dnl.3	+	3	1718	c.1476C>T	c.(1474-1476)AAC>AAT	p.N492N		NM_032270	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member	492	LRR 5.					endoplasmic reticulum membrane|integral to membrane				ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		TGAAGGAAAACCTCAAGGTCT	0.502													32	52					0	0	1	0	0		T	90179605	T	T	90179605	2	4	73	1	0	0	0	0	0	0	0	1	9041	506	18	4		4	LRRC8C	1	90179605	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	7763662	90179605	159071016	63	47300											
GFI1	2672	broad.mit.edu	37	chr1	92948991	92948991	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtctggtcctggggagcgCggctggtggtagctgtgagc	4	10	19	8	2	1	1	0	1	1	0	2	2	2	2	1	6	3	3	1	6	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:92948991C>T	uc001dou.3	-	2	218	c.54G>A	c.(52-54)CCG>CCA	p.P18P	GFI1_uc001dov.3_Silent_p.P18P|GFI1_uc001dow.3_Silent_p.P18P	NM_001127215	NP_001120687	Q99684	GFI1_HUMAN	growth factor independent 1	18					negative regulation of calcidiol 1-monooxygenase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1/S phase of mitotic cell cycle|transcription, DNA-dependent|viral reproduction	nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)	1		all_lung(203;0.00292)|Lung NSC(277;0.0115)|all_neural(321;0.185)|Glioma(108;0.203)		OV - Ovarian serous cystadenocarcinoma(397;9.04e-07)|Epithelial(280;1.17e-05)|all cancers(265;5.61e-05)|GBM - Glioblastoma multiforme(16;0.0191)		CTGGGGAGCGCGGCTGGTGGT	0.667													16	17					0	0	1	0	0		T	92948991	T	T	92948991	2	4	73	1	0	0	0	0	0	0	0	1	6354	755	27	1		1	GFI1	1	92948991	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2769386	92948991	156301630	64	47301											
HIAT1	64645	broad.mit.edu	37	chr1	100546165	100546165	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacttaaagaactgccaataAcaggaacagacttgggaaca	19	6	8	8	0	0	2	0	0	0	2	0	4	0	4	1	2	6	0	1	2	8	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:100546165A>G	uc001dst.2	+	11	1216	c.1216A>G	c.(1216-1218)ACA>GCA	p.T406A		NM_033055	NP_149044	Q96MC6	HIAT1_HUMAN	hippocampus abundant transcript 1	406	Cytoplasmic (Potential).				transmembrane transport	integral to membrane|plasma membrane	transporter activity				0		all_epithelial(167;2.96e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0832)|all cancers(265;0.136)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.195)		ACTGCCAATAACAGGAACAGA	0.398													59	106					0	0	1	0	0		G	100546165	G	G	100546165	3	3	73	1	0	0	0	0	1	0	0	0	7113	43	2	3	1258	3	HIAT1	1	100546165	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	7597174	100546165	148704456	65	47302											
COL11A1	1301	broad.mit.edu	37	chr1	103345424	103345424	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagaagtttcaggaatgTcatttgcaccatattgatgg	12	13	10	6	0	3	2	3	1	0	1	3	3	3	3	1	2	1	2	1	2	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:103345424T>C	uc001dul.2	-	66	5407	c.5089A>G	c.(5089-5091)ACA>GCA	p.T1697A	COL11A1_uc001duk.2_Missense_Mutation_p.T893A|COL11A1_uc001dum.2_Missense_Mutation_p.T1709A|COL11A1_uc001dun.2_Missense_Mutation_p.T1658A|COL11A1_uc009weh.2_Missense_Mutation_p.T1581A	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1697	Fibrillar collagen NC1.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TTCAGGAATGTCATTTGCACC	0.393													39	47					0	0	1	0	0		C	103345424	C	C	103345424	3	2	73	1	0	0	0	0	1	0	0	0	3670	1667	58	3	339	3	COL11A1	1	103345424	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2799259	103345424	145905197	66	47303											
VAV3	10451	broad.mit.edu	37	chr1	108116789	108116789	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacagaagtcataccgagcGatggcaatgcccagcacttt	12	7	10	12	2	1	1	1	0	0	1	1	3	1	1	2	1	4	3	2	1	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:108116789G>A	uc001dvk.1	-	26	2436	c.2382C>T	c.(2380-2382)ATC>ATT	p.I794I	VAV3_uc010ouu.1_Silent_p.I226I|VAV3_uc001dvj.1_Silent_p.I234I|VAV3_uc010ouv.1_Silent_p.I198I|VAV3_uc010ouw.1_Silent_p.I822I	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	794	SH3 2.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		CATACCGAGCGATGGCAATGC	0.423													57	102					0	0	1	0	0		A	108116789	A	A	108116789	2	1	73	1	0	0	0	0	0	0	0	1	17159	1048	37	1		1	VAV3	1	108116789	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	4771365	108116789	141133832	67	47304											
GPSM2	29899	broad.mit.edu	37	chr1	109440708	109440708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagagatgctctgcaggcagCcgtggatttttatgagtgag	9	11	15	6	1	1	3	0	2	1	1	1	6	1	4	1	2	3	3	1	2	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:109440708C>T	uc010ovc.1	+	5	1038	c.542C>T	c.(541-543)GCC>GTC	p.A181V	AKNAD1_uc010ovb.1_Intron|GPSM2_uc010ovd.1_Missense_Mutation_p.A181V|GPSM2_uc010ove.1_Missense_Mutation_p.A181V	NM_013296	NP_037428	P81274	GPSM2_HUMAN	LGN protein	181	TPR 4.				G-protein coupled receptor protein signaling pathway	cell cortex|nucleus	GTPase activator activity|identical protein binding			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0353)|Lung(183;0.0984)|COAD - Colon adenocarcinoma(174;0.129)|Epithelial(280;0.175)|all cancers(265;0.209)		CTGCAGGCAGCCGTGGATTTT	0.468													31	75					0	0	1	0	0		T	109440708	T	T	109440708	3	4	73	1	0	0	0	0	1	0	0	0	6751	739	26	2	556	2	GPSM2	1	109440708	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1323919	109440708	139809913	68	47305											
CELSR2	1952	broad.mit.edu	37	chr1	109793562	109793562	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaccaatgaccatgacccTgtgttcgagcagcaggagta	12	7	11	11	1	0	2	0	2	0	0	1	5	0	3	3	1	2	4	3	1	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:109793562T>C	uc001dxa.3	+	1	922	c.861T>C	c.(859-861)CCT>CCC	p.P287P		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	287	Cadherin 1.|Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		ACCATGACCCTGTGTTCGAGC	0.602													28	60					0	0	1	0	0		C	109793562	C	C	109793562	2	2	73	1	0	0	0	0	0	0	0	1	3225	1567	55	3		3	CELSR2	1	109793562	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	352854	109793562	139457059	69	47306											
GSTM5	2949	broad.mit.edu	37	chr1	110257571	110257571	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgttttctgcctcaggaGaaactgaagccaaaatactt	13	11	8	9	0	2	2	1	1	1	1	2	3	2	2	2	1	5	2	2	1	5	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:110257571G>T	uc001dyn.2	+	6	434	c.363G>T	c.(361-363)GAG>GAT	p.E121D	GSTM5_uc010ovu.1_Missense_Mutation_p.E80D	NM_000851	NP_000842	P46439	GSTM5_HUMAN	glutathione S-transferase mu 5	121	GST C-terminal.				xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity			central_nervous_system(6)	6		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Colorectal(144;0.0131)|all cancers(265;0.0252)|Epithelial(280;0.0265)|Lung(183;0.0425)|COAD - Colon adenocarcinoma(174;0.0474)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	TGCCTCAGGAGAAACTGAAGC	0.542													29	69					7.68411e-24	8.58639e-24	1	1	0		T	110257571	T	T	110257571	3	4	73	1	0	0	0	0	1	0	0	0	6857	933	33	5	385	5	GSTM5	1	110257571	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	464009	110257571	138993050	70	47307											
AP4B1	10717	broad.mit.edu	37	chr1	114442703	114442703	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaactttttgtagtggcTgctaaagtgacctggtaaac	14	12	9	6	0	0	1	0	1	0	0	0	1	0	1	1	2	3	4	1	2	8	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:114442703T>C	uc001eeb.2	-	5	1080	c.937A>G	c.(937-939)AGC>GGC	p.S313G	uc001edv.1_RNA|AP4B1_uc001eec.2_Missense_Mutation_p.S145G|AP4B1_uc001eed.2_Missense_Mutation_p.S313G|AP4B1_uc010owp.1_Missense_Mutation_p.S214G|AP4B1_uc001eea.1_Missense_Mutation_p.S107G|AP4B1_uc001eee.1_5'Flank|AP4B1_uc010owq.1_Missense_Mutation_p.S220G	NM_006594	NP_006585	Q9Y6B7	AP4B1_HUMAN	adaptor-related protein complex 4, beta 1	313					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|soluble fraction|trans-Golgi network	protein binding|protein transporter activity			ovary(3)|central_nervous_system(1)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.1e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTGTAGTGGCTGCTAAAGTGA	0.463													14	204					0	0	1	0	0		C	114442703	C	C	114442703	3	2	73	1	0	0	0	0	1	0	0	0	751	1580	55	3	1306	3	AP4B1	1	114442703	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4185132	114442703	134807918	71	47308											
TTF2	8458	broad.mit.edu	37	chr1	117618443	117618443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccctcagacccagtagccCggcgtgtctaccttacaaca	11	7	7	16	2	2	1	1	0	1	1	2	1	2	1	4	1	5	1	4	1	5	3	rs148191511		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:117618443C>T	uc001egy.2	+	5	1257	c.1237C>T	c.(1237-1239)CGG>TGG	p.R413W	TTF2_uc001egx.1_Missense_Mutation_p.R413W	NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	413					mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		CCCAGTAGCCCGGCGTGTCTA	0.463													17	40					0	0	1	0	0		T	117618443	T	T	117618443	3	4	73	1	0	0	0	0	1	0	0	0	16745	643	23	1	1255	1	TTF2	1	117618443	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3175740	117618443	131632178	72	47309											
HIST2H2BF	440689	broad.mit.edu	37	chr1	149399184	149399184	+	RNA	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctggatccggcatttttGcgcgaaaaaagagaacagag	13	8	12	8	4	0	2	0	0	0	2	2	5	1	3	1	2	2	2	1	2	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:149399184G>T	uc010pbi.1	-	1		c.46C>A						Q5QNW6	H2B2F_HUMAN	Homo sapiens histone cluster 2, H3, pseudogene 2, mRNA (cDNA clone IMAGE:5190019).						nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)					CGGCATTTTTGCGCGAAAAAA	0.498													21	53					4.54149e-19	5.03227e-19	1	1	0		T	149399184	T	T	149399184	1	4	73	0	1	0	0	0	0	0	0	0	7196	1334	46	5		5	HIST2H2BF	1	149399184	RNA	SNP	G	TCGA-BR-8372-01A-11D-2340-08	31780741	149399184	99851437	73	47310											
CA14	23632	broad.mit.edu	37	chr1	150233969	150233969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttgaccctgatttgcctgCtctgcagccccacggatatg	7	12	9	13	1	1	2	0	2	1	0	1	3	1	3	4	1	4	2	4	1	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:150233969C>T	uc001etx.2	+	3	497	c.188C>T	c.(187-189)GCT>GTT	p.A63V		NM_012113	NP_036245	Q9ULX7	CAH14_HUMAN	carbonic anhydrase XIV precursor	63	Extracellular (Potential).					integral to membrane	carbonate dehydratase activity|metal ion binding			ovary(1)	1	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GATTTGCCTGCTCTGCAGCCC	0.547													17	29					0	0	1	0	0		T	150233969	T	T	150233969	3	4	73	1	0	0	0	0	1	0	0	0	2518	797	28	2	198	2	CA14	1	150233969	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	834785	150233969	99016652	74	47311											
NPR1	4881	broad.mit.edu	37	chr1	153658344	153658344	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaagtctttgccaagacAgcatattataaggtgggcct	11	12	9	9	0	1	1	0	0	1	1	2	1	2	1	3	2	2	1	3	2	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:153658344A>G	uc001fcs.3	+	9	2089	c.1668A>G	c.(1666-1668)ACA>ACG	p.T556T	NPR1_uc010pdz.1_Silent_p.T302T|NPR1_uc010pea.1_Silent_p.T60T	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	556	Cytoplasmic (Potential).|Protein kinase.				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	TTGCCAAGACAGCATATTATA	0.572													18	38					0	0	1	0	0		G	153658344	G	G	153658344	2	3	73	1	0	0	0	0	0	0	0	1	10613	175	7	3		3	NPR1	1	153658344	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3424375	153658344	95592277	75	47312											
NPR1	4881	broad.mit.edu	37	chr1	153660166	153660166	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaccccctgtgcggggcTcccaggctggtgacgtatac	5	9	12	15	2	1	1	1	1	0	0	2	1	2	1	3	4	2	3	3	4	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:153660166T>C	uc001fcs.3	+	14	2570	c.2149T>C	c.(2149-2151)TCC>CCC	p.S717P	NPR1_uc010pdz.1_Missense_Mutation_p.S463P|NPR1_uc010pea.1_Missense_Mutation_p.S195P	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	717	Cytoplasmic (Potential).|Protein kinase.				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	TGTGCGGGGCTCCCAGGCTGG	0.602													52	104					0	0	1	0	0		C	153660166	C	C	153660166	3	2	73	1	0	0	0	0	1	0	0	0	10613	1551	54	3	2203	3	NPR1	1	153660166	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1822	153660166	95590455	76	47313											
KCNN3	3782	broad.mit.edu	37	chr1	154841703	154841703	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgctggcggtggtgccGgcatgctggtggttgtgggt	1	12	21	7	2	0	0	0	0	0	0	0	0	0	0	1	7	4	5	1	7	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:154841703G>A	uc001ffp.2	-	1	1052	c.738C>T	c.(736-738)GCC>GCT	p.A246A	KCNN3_uc009wox.1_Silent_p.A246A	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	251						integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			CGGTGGTGCCGGCATGCTGGT	0.582													34	58					0	0	1	0	0		A	154841703	A	A	154841703	2	1	73	1	0	0	0	0	0	0	0	1	8096	1103	39	1		1	KCNN3	1	154841703	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1181537	154841703	94408918	77	47314											
ASH1L	55870	broad.mit.edu	37	chr1	155308103	155308103	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttgactggctagaacctcTtcaatcaagggtagagcatc	11	11	9	10	0	4	3	2	1	2	2	5	3	4	3	1	2	2	3	1	2	5	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:155308103T>C	uc009wqq.2	-	27	9075	c.8595A>G	c.(8593-8595)GAA>GAG	p.E2865E	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Silent_p.E2860E	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2865					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			CTAGAACCTCTTCAATCAAGG	0.517													7	101					0	0	1	0	0		C	155308103	C	C	155308103	2	2	73	1	0	0	0	0	0	0	0	1	1042	1606	56	3		3	ASH1L	1	155308103	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	466400	155308103	93942518	78	47315											
C1orf85	112770	broad.mit.edu	37	chr1	156263285	156263285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagggcagggctgattctCggccccccggcttctgggag	4	7	17	13	2	2	1	0	1	2	0	3	2	2	2	3	6	0	4	3	6	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:156263285C>T	uc001foh.2	-	5	894	c.881G>A	c.(880-882)CGA>CAA	p.R294Q	C1orf85_uc001fof.3_5'Flank|C1orf85_uc001fog.1_Intron|C1orf85_uc001foi.2_Intron|C1orf85_uc009wrx.2_Missense_Mutation_p.R227Q|C1orf85_uc001foj.2_Missense_Mutation_p.R208Q	NM_144580	NP_653181	Q8WWB7	NCUG1_HUMAN	kidney predominant protein NCU-G1 precursor	294	Lumenal (Potential).				positive regulation of transcription from RNA polymerase II promoter	cytosol|integral to membrane|lysosomal membrane|nucleus	ligand-dependent nuclear receptor activity|protein binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2	Hepatocellular(266;0.158)					GGCTGATTCTCGGCCCCCCGG	0.587													17	20					0	0	1	0	0		T	156263285	T	T	156263285	3	4	73	1	0	0	0	0	1	0	0	0	2065	884	31	1	347	1	C1orf85	1	156263285	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	955182	156263285	92987336	79	47316											
INSRR	3645	broad.mit.edu	37	chr1	156821914	156821914	+	Frame_Shift_Del	DEL	C	-	-																															ggtcttctggctggctgcagCcccccaggcattcggtgtgg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:156821914delC	uc010pht.1	-	3	961	c.707delG	c.(706-708)GGCfs	p.G236fs	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron|INSRR_uc009wsj.1_Frame_Shift_Del_p.G236fs	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	236					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CTGGCTGCAGCCCCCCAGGCA	0.657													23	43	---	---	---	---						.	-	156821914	-	-	156821914	7	5	73	1	0	1	0	1	0	0	0	0	7790	739	26	0	3265	0	INSRR	1	156821914	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	558629	156821914	92428707	80	47317											
C1orf92	149499	broad.mit.edu	37	chr1	156899200	156899200	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacccctaagggcctgggCaagaaaaaggagaaatcatg	18	4	11	8	0	1	2	1	0	0	2	1	3	1	2	3	3	1	1	3	3	7	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:156899200C>T	uc001fqm.2	+	10	1297	c.1125C>T	c.(1123-1125)GGC>GGT	p.G375G	C1orf92_uc001fql.2_Silent_p.G160G	NM_144702	NP_653303	Q8N4P6	LRC71_HUMAN	hypothetical protein LOC149499	375											0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					AGGGCCTGGGCAAGAAAAAGG	0.532													10	12					0	0	1	0	0		T	156899200	T	T	156899200	2	4	73	1	0	0	0	0	0	0	0	1	2072	697	25	2		2	C1orf92	1	156899200	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	77286	156899200	92351421	81	47318											
ARHGEF11	9826	broad.mit.edu	37	chr1	156915929	156915929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctctcagctgcagccgcCgacactgagggtggctctca	6	8	13	14	2	3	1	2	1	2	0	5	2	3	1	2	3	3	3	2	3	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:156915929C>T	uc001fqo.2	-	28	3640	c.2600G>A	c.(2599-2601)CGG>CAG	p.R867Q	ARHGEF11_uc010phu.1_Missense_Mutation_p.R283Q|ARHGEF11_uc001fqn.2_Missense_Mutation_p.R907Q	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	867	DH.				actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CTGCAGCCGCCGACACTGAGG	0.597													6	23					0	0	1	0	0		T	156915929	T	T	156915929	3	4	73	1	0	0	0	0	1	0	0	0	896	652	23	1	2020	1	ARHGEF11	1	156915929	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	16729	156915929	92334692	82	47319											
CD1A	909	broad.mit.edu	37	chr1	158225951	158225951	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaatatggccaagcatttCtgcaaagtgctcaatcagaa	14	9	10	8	0	3	1	2	0	1	1	3	2	3	2	1	2	3	3	1	2	6	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:158225951C>A	uc001frt.2	+	3	1016	c.483C>A	c.(481-483)TTC>TTA	p.F161L		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	161	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	CCAAGCATTTCTGCAAAGTGC	0.438													45	82					6.57855e-14	7.1427e-14	1	1	0		A	158225951	A	A	158225951	3	1	73	1	0	0	0	0	1	0	0	0	2977	912	32	5	493	5	CD1A	1	158225951	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1310022	158225951	91024670	83	47320											
OR10K1	391109	broad.mit.edu	37	chr1	158435710	158435710	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgctggcagccatgggctAtgatcgctatatggccatct	7	11	11	12	1	1	1	0	1	1	0	2	1	1	1	3	3	2	4	3	3	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:158435710A>T	uc010pij.1	+	1	359	c.359A>T	c.(358-360)TAT>TTT	p.Y120F		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	120	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GCCATGGGCTATGATCGCTAT	0.532													68	127					0	0	1	0	0		T	158435710	T	T	158435710	3	4	73	1	0	0	0	0	1	0	0	0	10932	449	16	5	361	5	OR10K1	1	158435710	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	209759	158435710	90814911	84	47321											
SPTA1	6708	broad.mit.edu	37	chr1	158644339	158644339	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttctctaccttatgctgCtgatgcctgtccagcagaac	7	14	7	13	0	2	2	0	1	2	1	4	2	3	2	3	0	6	3	3	0	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:158644339C>T	uc001fst.1	-	9	1438	c.1239G>A	c.(1237-1239)CAG>CAA	p.Q413Q		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	413	Spectrin 5.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CCTTATGCTGCTGATGCCTGT	0.512													58	120					0	0	1	0	0		T	158644339	T	T	158644339	2	4	73	1	0	0	0	0	0	0	0	1	15141	796	28	2		2	SPTA1	1	158644339	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	208629	158644339	90606282	85	47322											
PYHIN1	149628	broad.mit.edu	37	chr1	158908285	158908285	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacacctgcatgcaccccaAgcaaccgtctcacagctaaa	13	6	5	17	1	1	0	1	0	1	0	2	0	1	0	4	0	6	4	4	0	5	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:158908285A>C	uc001ftb.2	+	3	609	c.364A>C	c.(364-366)AGC>CGC	p.S122R	PYHIN1_uc001fta.3_Missense_Mutation_p.S122R|PYHIN1_uc001ftc.2_Missense_Mutation_p.S113R|PYHIN1_uc001ftd.2_Missense_Mutation_p.S122R|PYHIN1_uc001fte.2_Missense_Mutation_p.S113R	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	122					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					ATGCACCCCAAGCAACCGTCT	0.463													24	30					0	0	1	0	0		C	158908285	C	C	158908285	3	2	73	1	0	0	0	0	1	0	0	0	12890	72	3	5	370	5	PYHIN1	1	158908285	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	263946	158908285	90342336	86	47323											
NCSTN	23385	broad.mit.edu	37	chr1	160325747	160325747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttcaggctgatccccaaaCggtaagcagatgggccctag	11	7	12	11	1	1	2	1	1	0	1	2	2	2	2	3	3	2	4	3	3	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:160325747C>T	uc001fvx.2	+	13	1674	c.1550C>T	c.(1549-1551)ACG>ATG	p.T517M	NCSTN_uc001fvy.2_Missense_Mutation_p.T497M|NCSTN_uc010pjf.1_Missense_Mutation_p.T379M|NCSTN_uc001fvz.2_Missense_Mutation_p.T297M|NCSTN_uc010pjg.1_Missense_Mutation_p.T259M	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	517	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GATCCCCAAACGGTAAGCAGA	0.547													6	24					0	0	1	0	0		T	160325747	T	T	160325747	3	4	73	1	0	0	0	0	1	0	0	0	10260	550	19	1	1600	1	NCSTN	1	160325747	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1417462	160325747	88924874	87	47324											
USP21	27005	broad.mit.edu	37	chr1	161133984	161133984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggggcaaggtgtctctgCgggattgtttcaaccttttc	5	14	13	9	1	2	0	1	0	1	0	4	1	2	1	1	4	2	2	1	4	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:161133984C>T	uc010pke.1	+	10	1626	c.1249C>T	c.(1249-1251)CGG>TGG	p.R417W	USP21_uc010pkc.1_Missense_Mutation_p.R417W|USP21_uc010pkd.1_Missense_Mutation_p.R417W|USP21_uc010pkf.1_Missense_Mutation_p.R417W|PPOX_uc001fyj.2_5'Flank|PPOX_uc001fyn.2_5'Flank|PPOX_uc001fyg.2_5'Flank|PPOX_uc001fyl.2_5'Flank|PPOX_uc001fym.2_5'Flank|PPOX_uc001fyk.2_5'Flank|PPOX_uc001fyh.2_5'Flank|PPOX_uc010pkg.1_5'Flank|PPOX_uc009wuc.1_5'Flank|PPOX_uc010pkh.1_5'Flank|PPOX_uc001fyi.2_5'Flank	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	417					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GGTGTCTCTGCGGGATTGTTT	0.478													20	46					0	0	1	0	0		T	161133984	T	T	161133984	3	4	73	1	0	0	0	0	1	0	0	0	17079	759	27	1	1279	1	USP21	1	161133984	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	808237	161133984	88116637	88	47325											
FCRLB	127943	broad.mit.edu	37	chr1	161697204	161697204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcagttcccggcgagcGgcgccccgactgcggggcca	4	4	17	16	6	0	0	0	0	0	0	1	2	1	0	4	5	3	3	4	5	0	1	rs145348831		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:161697204G>A	uc001gbh.2	+	8	1267	c.1033G>A	c.(1033-1035)GGC>AGC	p.G345S	FCRLB_uc009wus.2_Missense_Mutation_p.G345S|FCRLB_uc001gbj.2_Silent_p.A296A|FCRLB_uc001gbk.2_3'UTR|FCRLB_uc001gbl.2_Silent_p.A289A|FCRLB_uc001gbm.2_3'UTR|FCRLB_uc001gbi.2_Missense_Mutation_p.G345S|FCRLB_uc001gbn.3_3'UTR	NM_001002901	NP_001002901	Q6BAA4	FCRLB_HUMAN	Fc receptor-like B	345						endoplasmic reticulum					0	all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00634)			CCCGGCGAGCGGCGCCCCGAC	0.677													10	26					0	0	1	0	0		A	161697204	A	A	161697204	3	1	73	1	0	0	0	0	1	0	0	0	5815	1116	39	1	1055	1	FCRLB	1	161697204	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	563220	161697204	87553417	89	47326											
POGK	57645	broad.mit.edu	37	chr1	166818871	166818871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctggctctgcgcagggCgcatgactatgaggtagctc	6	10	14	11	2	1	2	0	2	1	0	3	2	2	2	1	3	2	5	1	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:166818871C>T	uc001gdt.1	+	5	1175	c.1055C>T	c.(1054-1056)GCG>GTG	p.A352V	POGK_uc010ple.1_Missense_Mutation_p.A267V|POGK_uc010plf.1_Missense_Mutation_p.A234V	NM_017542	NP_060012	Q9P215	POGK_HUMAN	pogo transposable element with KRAB domain	352					multicellular organismal development|regulation of transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						CTGCGCAGGGCGCATGACTAT	0.557													30	41					0	0	1	0	0		T	166818871	T	T	166818871	3	4	73	1	0	0	0	0	1	0	0	0	12204	768	27	1	1069	1	POGK	1	166818871	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5121667	166818871	82431750	90	47327											
SELP	6403	broad.mit.edu	37	chr1	169586331	169586331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccacttgccaggggctgacGgactcttgatgtatatctcc	7	12	10	12	1	2	2	0	2	2	0	4	3	3	3	3	3	1	2	3	3	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:169586331G>A	uc001ggi.3	-	3	481	c.416C>T	c.(415-417)CCG>CTG	p.P139L	SELP_uc001ggh.2_5'UTR|SELP_uc009wvr.2_Missense_Mutation_p.P139L	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	139	Extracellular (Potential).|C-type lectin.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	AGGGGCTGACGGACTCTTGAT	0.463													55	109					0	0	1	0	0		A	169586331	A	A	169586331	3	1	73	1	0	0	0	0	1	0	0	0	14044	1116	39	1	2132	1	SELP	1	169586331	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2767460	169586331	79664290	91	47328											
FMO4	2329	broad.mit.edu	37	chr1	171293332	171293332	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgaaactggtcagtgggAtgttgtcacagagacagagg	11	8	14	8	1	2	2	2	0	0	2	3	5	3	3	1	3	1	1	1	3	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:171293332A>G	uc001gho.2	+	5	594	c.377A>G	c.(376-378)GAT>GGT	p.D126G		NM_002022	NP_002013	P31512	FMO4_HUMAN	flavin containing monooxygenase 4	126					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			kidney(2)|skin(1)	3	all_cancers(6;3.9e-08)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					GGTCAGTGGGATGTTGTCACA	0.463													115	269					0	0	1	0	0		G	171293332	G	G	171293332	3	3	73	1	0	0	0	0	1	0	0	0	5971	333	12	3	387	3	FMO4	1	171293332	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1707001	171293332	77957289	92	47329											
C1orf9	51430	broad.mit.edu	37	chr1	172522402	172522402	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgttgttgttatataggaTgaaagagagggacctatcaa	13	13	12	3	0	1	2	1	1	0	1	1	5	1	4	1	2	0	4	1	2	6	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:172522402T>C	uc001giq.3	+	3	496	c.180T>C	c.(178-180)GAT>GAC	p.D60D	C1orf9_uc010pmm.1_Silent_p.D60D|C1orf9_uc009wwd.2_Intron|C1orf9_uc010pmn.1_Intron|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	60					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		TTATATAGGATGAAAGAGAGG	0.303													46	104					0	0	1	0	0		C	172522402	C	C	172522402	2	2	73	1	0	0	0	0	0	0	0	1	2070	1461	51	3		3	C1orf9	1	172522402	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1229070	172522402	76728219	93	47330											
ASTN1	460	broad.mit.edu	37	chr1	177133690	177133690	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagggcagtgccgacacCgtgatgcttttgagcttgca	9	9	14	9	2	0	2	0	2	0	0	0	4	0	3	2	2	4	4	2	2	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:177133690C>T	uc001glc.2	-	1	335	c.123G>A	c.(121-123)ACG>ACA	p.T41T	ASTN1_uc001glb.1_Silent_p.T41T|ASTN1_uc001gld.1_Silent_p.T41T|ASTN1_uc009wwx.1_Silent_p.T41T	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	41					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GTGCCGACACCGTGATGCTTT	0.677													12	18					0	0	1	0	0		T	177133690	T	T	177133690	2	4	73	1	0	0	0	0	0	0	0	1	1065	639	23	1		1	ASTN1	1	177133690	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4611288	177133690	72116931	94	47331											
C1orf125	126859	broad.mit.edu	37	chr1	179363045	179363045	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttgtcatgcagagagaggTatgtgcaaatgcttgaccag	11	11	13	6	0	1	3	1	1	0	2	1	4	1	3	1	1	3	5	1	1	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:179363045T>C	uc001gmo.2	+	10	998	c.871T>C	c.(871-873)TAT>CAT	p.Y291H	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmn.1_Missense_Mutation_p.Y79H|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.Y291H	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	291											0						CAGAGAGAGGTATGTGCAAAT	0.259													43	95					0	0	1	0	0		C	179363045	C	C	179363045	3	2	73	1	0	0	0	0	1	0	0	0	1996	1638	57	3	905	3	C1orf125	1	179363045	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2229355	179363045	69887576	95	47332											
TOR1AIP1	26092	broad.mit.edu	37	chr1	179887081	179887081	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctttgagtcatttcccgcaGgctctactttgatcttctac	6	16	7	12	1	4	2	1	2	3	0	5	2	5	2	1	1	2	3	1	1	2	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:179887081G>T	uc001gnq.2	+	10	1677	c.1459G>T	c.(1459-1461)GGC>TGC	p.G487C		NM_015602	NP_056417	Q5JTV8	TOIP1_HUMAN	lamina-associated polypeptide 1B	487	Lumenal (Potential).					integral to membrane|nuclear inner membrane				breast(1)|central_nervous_system(1)	2						ATTTCCCGCAGGCTCTACTTT	0.448													38	62					4.62619e-21	5.14964e-21	1	1	0		T	179887081	T	T	179887081	3	4	73	1	0	0	0	0	1	0	0	0	16398	1000	35	5	1497	5	TOR1AIP1	1	179887081	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	524036	179887081	69363540	96	47333											
XPR1	9213	broad.mit.edu	37	chr1	180794334	180794334	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggatattgtggtgcctgAgccttctggcatgcttcttt	4	16	12	9	1	2	1	0	1	2	0	3	2	2	2	2	3	3	2	2	3	1	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:180794334A>C	uc001goi.2	+	9	1180	c.988A>C	c.(988-990)AGC>CGC	p.S330R	XPR1_uc009wxm.2_Missense_Mutation_p.S330R|XPR1_uc009wxn.2_Missense_Mutation_p.S330R	NM_004736	NP_004727	Q9UBH6	XPR1_HUMAN	xenotropic and polytropic retrovirus receptor	330	Helical; (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0						GTGGTGCCTGAGCCTTCTGGC	0.398													59	141					0	0	1	0	0		C	180794334	C	C	180794334	3	2	73	1	0	0	0	0	1	0	0	0	17477	304	11	5	1022	5	XPR1	1	180794334	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	907253	180794334	68456287	97	47334											
DHX9	1660	broad.mit.edu	37	chr1	182848383	182848383	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttatgcttattttctcttAgacttgaaacccacatgaca	11	17	4	9	0	1	3	0	2	1	1	2	3	1	3	1	0	2	1	1	0	4	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:182848383A>C	uc001gpr.2	+	21	2515	c.2352_splice	c.e21-2	p.R784_splice	DHX9_uc001gps.2_Splice_Site_p.R570_splice|DHX9_uc001gpt.2_Splice_Site_p.R63_splice|DHX9_uc009wyd.2_5'Flank	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9						CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						ATTTTCTCTTAGACTTGAAAC	0.393													64	106					0	0	1	0	0		C	182848383	C	C	182848383	5	2	73	1	0	0	0	0	0	0	1	0	4522	434	15	5	2428	5	DHX9	1	182848383	Splice_Site	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2054049	182848383	66402238	98	47335											
C1orf26	54823	broad.mit.edu	37	chr1	185171822	185171822	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaacaaaggcctaataagTggtgtgaagtcactcagtaa	17	8	10	6	0	2	2	2	1	0	1	2	2	2	2	1	2	1	1	1	2	6	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:185171822T>C	uc001grg.3	+	11	1674	c.1560T>C	c.(1558-1560)AGT>AGC	p.S520S	C1orf26_uc001grh.3_Silent_p.S520S	NM_001105518	NP_001098988	Q5T5J6	SWT1_HUMAN	hypothetical protein LOC54823	520											0						GCCTAATAAGTGGTGTGAAGT	0.373													22	55					0	0	1	0	0		C	185171822	C	C	185171822	2	2	73	1	0	0	0	0	0	0	0	1	2038	1693	59	3		3	C1orf26	1	185171822	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2323439	185171822	64078799	99	47336											
PRG4	10216	broad.mit.edu	37	chr1	186278205	186278205	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgtgttcatgcctgaagtTactcccgacatggattactt	9	14	8	10	1	1	1	1	1	0	0	2	3	2	2	2	1	3	2	2	1	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:186278205T>C	uc001gru.3	+	7	3405	c.3354T>C	c.(3352-3354)GTT>GTC	p.V1118V	PRG4_uc001grt.3_Silent_p.V1077V|PRG4_uc009wyl.2_Silent_p.V1025V|PRG4_uc009wym.2_Silent_p.V984V|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	1118					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						TGCCTGAAGTTACTCCCGACA	0.418													16	50					0	0	1	0	0		C	186278205	C	C	186278205	2	2	73	1	0	0	0	0	0	0	0	1	12503	1741	61	3		3	PRG4	1	186278205	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1106383	186278205	62972416	100	47337											
KCNT2	343450	broad.mit.edu	37	chr1	196342340	196342340	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatatacagtttaaagctaAcatggcgtatttaaactctt	14	14	6	7	1	1	0	0	0	1	0	1	0	1	0	0	1	4	4	0	1	8	9			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:196342340A>G	uc001gtd.1	-	14	1393	c.1333T>C	c.(1333-1335)TTA>CTA	p.L445L	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Silent_p.L445L|KCNT2_uc001gtf.1_Silent_p.L445L|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Silent_p.L445L|KCNT2_uc009wyv.1_Silent_p.L420L	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	445	Cytoplasmic (Potential).|RCK N-terminal.					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TTTAAAGCTAACATGGCGTAT	0.299													13	68					0	0	1	0	0		G	196342340	G	G	196342340	2	3	73	1	0	0	0	0	0	0	0	1	8108	40	2	3		3	KCNT2	1	196342340	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	10064135	196342340	52908281	101	47338											
CFHR5	81494	broad.mit.edu	37	chr1	196964968	196964968	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaatcctaattttataatAaacgggcctaagaaaataca	18	11	5	7	1	0	1	0	0	0	1	1	1	1	1	2	1	3	1	2	1	10	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:196964968A>T	uc001gts.3	+	5	857	c.729A>T	c.(727-729)ATA>ATT	p.I243I		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	243	Sushi 4.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						ATTTTATAATAAACGGGCCTA	0.343													17	35					0	0	1	0	0		T	196964968	T	T	196964968	2	4	73	1	0	0	0	0	0	0	0	1	3291	352	13	5		5	CFHR5	1	196964968	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	622628	196964968	52285653	102	47339											
F13B	2165	broad.mit.edu	37	chr1	197032158	197032158	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atattgggcaattcttccatTttccacatgaggaaaaccac	13	12	6	10	0	1	1	0	1	1	0	3	2	3	2	3	2	1	1	3	2	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:197032158T>A	uc001gtt.1	-	2	138	c.94A>T	c.(94-96)AAT>TAT	p.N32Y		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	32	Sushi 1.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						ATTCTTCCATTTTCCACATGA	0.323													63	131					0	0	1	0	0		A	197032158	A	A	197032158	3	1	73	1	0	0	0	0	1	0	0	0	5349	1841	64	5	1935	5	F13B	1	197032158	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	67190	197032158	52218463	103	47340											
ASPM	259266	broad.mit.edu	37	chr1	197059338	197059338	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactaacctaggtgttttaAggcctcaagaatggcagaaa	16	9	9	7	0	1	2	1	0	0	2	1	2	1	2	2	3	2	2	2	3	7	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:197059338A>G	uc001gtu.2	-	24	10074	c.9817T>C	c.(9817-9819)TTA>CTA	p.L3273L	ASPM_uc001gtv.2_Silent_p.L1688L|ASPM_uc001gtw.3_Silent_p.L1121L	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	3273					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						AGGTGTTTTAAGGCCTCAAGA	0.333													38	76					0	0	1	0	0		G	197059338	G	G	197059338	2	3	73	1	0	0	0	0	0	0	0	1	1057	69	3	3		3	ASPM	1	197059338	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	27180	197059338	52191283	104	47341											
ATP6V1G3	127124	broad.mit.edu	37	chr1	198492652	198492652	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtatcttccctagtgtttGttcttctatttcatctgaga	6	21	6	8	0	5	1	1	1	4	1	6	2	6	1	1	0	0	3	1	0	3	9			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:198492652G>T	uc001gup.2	-	4	332	c.226C>A	c.(226-228)CAA>AAA	p.Q76K	ATP6V1G3_uc009wzd.2_Missense_Mutation_p.Q82K|ATP6V1G3_uc001guo.2_3'UTR	NM_133262	NP_573569	Q96LB4	VATG3_HUMAN	ATPase, H+ transporting, lysosomal, V1 subunit	76					cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase complex	ATPase binding			central_nervous_system(1)	1						CCTAGTGTTTGTTCTTCTATT	0.343													6	25					4.096e-09	4.34678e-09	1	1	0		T	198492652	T	T	198492652	3	4	73	1	0	0	0	0	1	0	0	0	1189	1386	48	5	134	5	ATP6V1G3	1	198492652	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1433314	198492652	50757969	105	47342											
LGR6	59352	broad.mit.edu	37	chr1	202288142	202288142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtgaccctcatctcctGtcagcagccaggggccccca	7	7	9	18	0	4	1	3	1	1	0	5	1	4	1	5	2	2	1	5	2	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:202288142G>A	uc001gxu.2	+	18	2711	c.2711G>A	c.(2710-2712)TGT>TAT	p.C904Y	LGR6_uc001gxv.2_Missense_Mutation_p.C852Y|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Missense_Mutation_p.C765Y	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	904	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						CTCATCTCCTGTCAGCAGCCA	0.607													24	53					0	0	1	0	0		A	202288142	A	A	202288142	3	1	73	1	0	0	0	0	1	0	0	0	8774	1377	48	4	2928	4	LGR6	1	202288142	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3795490	202288142	46962479	106	47343											
KISS1	3814	broad.mit.edu	37	chr1	204159760	204159761	+	Frame_Shift_Ins	INS	-	G	G																															tgcggggatctggcggctgtINSggggggcggacaggcccggc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:204159760_204159761insG	uc001har.2	-	3	422_423	c.268_269insC	c.(268-270)CACfs	p.H90fs		NM_002256	NP_002247	Q15726	KISS1_HUMAN	KiSS-1 metastasis-suppressor	90					cytoskeleton organization	extracellular region	protein binding			ovary(1)	1	all_cancers(21;0.0165)|Breast(84;0.179)|all_epithelial(62;0.242)	Breast(1374;9.42e-05)	KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.069)|Kidney(21;0.0934)|Epithelial(59;0.239)	Colorectal(1306;0.0129)		CTGGCGGCTGTGGGGGGCGGAC	0.723													2	4	---	---	---	---						.	G	204159761	G	G	204159760	7	5	73	1	0	1	1	0	0	0	0	0	8343	1696	59	0	151	0	KISS1	1	204159760	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	1871618	204159760	45090861	107	47344											
DSTYK	25778	broad.mit.edu	37	chr1	205131199	205131199	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaaaagcctcgtgggaacTattgagccgagtccggaatt	11	9	12	9	3	0	1	0	1	0	0	2	4	1	3	3	2	4	1	3	2	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:205131199T>C	uc001hbw.2	-	6	1847	c.1783A>G	c.(1783-1785)AGT>GGT	p.S595G	DSTYK_uc001hbx.2_Missense_Mutation_p.S595G|DSTYK_uc001hby.1_Missense_Mutation_p.S56G	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	595						cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						TCGTGGGAACTATTGAGCCGA	0.527													5	40					0	0	1	0	0		C	205131199	C	C	205131199	3	2	73	1	0	0	0	0	1	0	0	0	4791	1522	53	3	1038	3	DSTYK	1	205131199	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	971439	205131199	44119422	108	47345											
MFSD4	148808	broad.mit.edu	37	chr1	205554060	205554060	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcagaggagccccttatTccttctttgccatccacatc	8	12	5	16	0	2	1	1	0	1	1	5	2	4	2	6	1	2	0	6	1	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:205554060T>A	uc001hcv.3	+	5	1002	c.916T>A	c.(916-918)TCC>ACC	p.S306T	MFSD4_uc010prk.1_Missense_Mutation_p.S219T|MFSD4_uc010prl.1_RNA|MFSD4_uc010prm.1_Missense_Mutation_p.S251T	NM_181644	NP_857595	Q8N468	MFSD4_HUMAN	major facilitator superfamily domain containing	306					transmembrane transport	integral to membrane				skin(2)|central_nervous_system(1)	3	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0908)			AGCCCCTTATTCCTTCTTTGC	0.597											OREG0014158	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	38	133					0	0	1	0	0		A	205554060	A	A	205554060	3	1	73	1	0	0	0	0	1	0	0	0	9551	1783	62	5	934	5	MFSD4	1	205554060	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	422861	205554060	43696561	109	47346											
IKBKE	9641	broad.mit.edu	37	chr1	206669460	206669460	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggctaaatagagtcccAgcacctcctgatgtctgagc	10	10	10	11	0	1	3	0	2	1	1	3	3	3	3	3	1	2	3	3	1	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:206669460A>G	uc001hdz.1	+	22	2501	c.2133A>G	c.(2131-2133)CCA>CCG	p.P711P	IKBKE_uc009xbv.1_3'UTR|IKBKE_uc001hea.1_Silent_p.P626P	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	711					DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding	p.P711S(1)		ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)					ATAGAGTCCCAGCACCTCCTG	0.537													18	33					0	0	1	0	0		G	206669460	G	G	206669460	2	3	73	1	0	0	0	0	0	0	0	1	7628	175	7	3		3	IKBKE	1	206669460	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1115400	206669460	42581161	110	47347											
RASSF5	83593	broad.mit.edu	37	chr1	206757987	206757987	+	Frame_Shift_Del	DEL	T	-	-																															caatccccagaagtttgcacTttttaagcggatacacaagg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:206757987delT	uc001hed.2	+	4	1016	c.959delT	c.(958-960)CTTfs	p.L320fs	RASSF5_uc001hec.1_Frame_Shift_Del_p.L320fs|RASSF5_uc001hee.2_Frame_Shift_Del_p.L320fs|RASSF5_uc001hef.2_Frame_Shift_Del_p.L167fs|RASSF5_uc001heg.1_Frame_Shift_Del_p.L93fs	NM_182663	NP_872604	Q8WWW0	RASF5_HUMAN	Ras association (RalGDS/AF-6) domain family 5	320	Ras-associating.				apoptosis|intracellular signal transduction	cytoplasm|microtubule	metal ion binding|protein binding			ovary(1)	1	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			AAGTTTGCACTTTTTAAGCGG	0.522													29	45	---	---	---	---						.	-	206757987	-	-	206757987	7	5	73	1	0	1	0	1	0	0	0	0	13114	1609	56	0	1097	0	RASSF5	1	206757987	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	88527	206757987	42492634	111	47348											
DYRK3	8444	broad.mit.edu	37	chr1	206821426	206821426	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaattgctgagcatagacCtttatgagctgattaaaaaa	15	13	8	5	0	0	5	0	4	0	1	0	5	0	5	1	0	3	3	1	0	6	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:206821426C>A	uc001hej.2	+	3	1051	c.883C>A	c.(883-885)CTT>ATT	p.L295I	DYRK3_uc001hek.2_Intron|DYRK3_uc001hei.2_Missense_Mutation_p.L275I	NM_003582	NP_003573	O43781	DYRK3_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	295	Protein kinase.				erythrocyte differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|central_nervous_system(1)	3	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			GAGCATAGACCTTTATGAGCT	0.418													14	149					0.000151284	0.000154359	1	1	0		A	206821426	A	A	206821426	3	1	73	1	0	0	0	0	1	0	0	0	4863	681	24	5	914	5	DYRK3	1	206821426	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	63439	206821426	42429195	112	47349											
FAM71A	149647	broad.mit.edu	37	chr1	212799665	212799665	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaggctgtggcaacccgggGagcagcaggcacagggactc	11	3	16	11	1	0	0	0	0	0	0	1	2	0	2	1	6	3	5	1	6	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:212799665G>T	uc001hjk.2	+	1	1850	c.1446G>T	c.(1444-1446)GGG>GGT	p.G482G	uc010pth.1_RNA	NM_153606	NP_705834	Q8IYT1	FA71A_HUMAN	hypothetical protein LOC149647	482										skin(3)|ovary(1)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00631)|all cancers(67;0.00981)|GBM - Glioblastoma multiforme(131;0.0715)|Epithelial(68;0.094)		GCAACCCGGGGAGCAGCAGGC	0.547													24	54					7.92952e-12	8.52687e-12	1	1	0		T	212799665	T	T	212799665	2	4	73	1	0	0	0	0	0	0	0	1	5621	1161	41	5		5	FAM71A	1	212799665	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5978239	212799665	36450956	113	47350											
NSL1	25936	broad.mit.edu	37	chr1	212960901	212960901	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaaggaaaaagtcacatacCcataaaacaattatctgaag	20	7	7	7	0	2	1	1	1	1	0	2	3	2	3	1	2	2	0	1	2	9	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:212960901C>A	uc001hjn.2	-	2	347	c.313G>T	c.(313-315)GAT>TAT	p.D105Y	NSL1_uc001hjm.2_Missense_Mutation_p.D105Y|NSL1_uc010pti.1_Missense_Mutation_p.D105Y	NM_015471	NP_056286	Q96IY1	NSL1_HUMAN	NSL1, MIND kinetochore complex component isoform	105					cell division|chromosome segregation|mitotic prometaphase	cytosol|MIS12/MIND type complex|nucleus	protein binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00597)|all cancers(67;0.00893)|GBM - Glioblastoma multiforme(131;0.0514)|Epithelial(68;0.102)		AGTCACATACCCATAAAACAA	0.328													19	32					2.94398e-08	3.10387e-08	1	1	0		A	212960901	A	A	212960901	3	1	73	1	0	0	0	0	1	0	0	0	10692	637	22	5	641	5	NSL1	1	212960901	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	161236	212960901	36289720	114	47351											
KCNK2	3776	broad.mit.edu	37	chr1	215259855	215259855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatggaagacggtctccaCgatattcctggtggttgtcc	9	11	12	9	2	1	1	0	0	1	1	4	4	3	2	3	4	0	1	3	4	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:215259855C>T	uc001hkq.2	+	2	360	c.191C>T	c.(190-192)ACG>ATG	p.T64M	KCNK2_uc001hko.2_Missense_Mutation_p.T60M|KCNK2_uc009xdm.2_RNA|KCNK2_uc001hkp.2_RNA|KCNK2_uc010pua.1_RNA|KCNK2_uc001hkr.3_Missense_Mutation_p.T49M	NM_001017425	NP_001017425	O95069	KCNK2_HUMAN	potassium channel, subfamily K, member 2 isoform	64	Helical; (Potential).						outward rectifier potassium channel activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.0399)|all cancers(67;0.0556)|GBM - Glioblastoma multiforme(131;0.068)	Dofetilide(DB00204)	ACGGTCTCCACGATATTCCTG	0.502													21	49					0	0	1	0	0		T	215259855	T	T	215259855	3	4	73	1	0	0	0	0	1	0	0	0	8082	536	19	1	240	1	KCNK2	1	215259855	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2298954	215259855	33990766	115	47352											
USH2A	7399	broad.mit.edu	37	chr1	215987141	215987141	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggttgtgcctcctgtattcGgccaccacaacaaactccag	9	10	8	14	1	0	0	0	0	0	0	3	0	2	0	5	2	3	2	5	2	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:215987141G>A	uc001hku.1	-	49	10063	c.9676C>T	c.(9676-9678)CGA>TGA	p.R3226*		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3226	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TCCTGTATTCGGCCACCACAA	0.453										HNSCC(13;0.011)			6	86					0	0	1	0	0		A	215987141	A	A	215987141	4	1	73	1	0	0	0	0	0	1	0	0	17062	1124	39	1	6028	1	USH2A	1	215987141	Nonsense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	727286	215987141	33263480	116	47353											
TAF1A	9015	broad.mit.edu	37	chr1	222736617	222736617	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaataatacctccaaccccAgtttacggtgttcttctttt	10	15	4	12	1	2	0	0	0	2	0	3	0	3	0	4	1	3	2	4	1	5	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:222736617A>G	uc009xdz.1	-	9	1172	c.983T>C	c.(982-984)CTG>CCG	p.L328P	TAF1A_uc009xdy.1_Missense_Mutation_p.L19P|TAF1A_uc001hni.1_Missense_Mutation_p.L214P|TAF1A_uc001hnj.2_Missense_Mutation_p.L328P|TAF1A_uc001hnk.2_Missense_Mutation_p.L214P	NM_139352	NP_647603	Q15573	TAF1A_HUMAN	TBP-associated factor 1A isoform 2	328					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	RNA polymerase I transcription factor complex	DNA binding				0				GBM - Glioblastoma multiforme(131;0.0186)		CTCCAACCCCAGTTTACGGTG	0.313													10	37					0	0	1	0	0		G	222736617	G	G	222736617	3	3	73	1	0	0	0	0	1	0	0	0	15544	188	7	3	381	3	TAF1A	1	222736617	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	6749476	222736617	26514004	117	47354											
MIA3	375056	broad.mit.edu	37	chr1	222827777	222827777	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggatctaaagcttttacAgcttaagctaagagcctccg	13	10	9	9	1	1	2	0	0	1	2	2	3	2	3	2	1	5	3	2	1	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:222827777A>G	uc001hnl.2	+	17	4433	c.4424A>G	c.(4423-4425)CAG>CGG	p.Q1475R	MIA3_uc009xea.1_Missense_Mutation_p.Q1252R|MIA3_uc001hnm.2_Missense_Mutation_p.Q353R	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	1475	Cytoplasmic (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		AAGCTTTTACAGCTTAAGCTA	0.358													30	36					0	0	1	0	0		G	222827777	G	G	222827777	3	3	73	1	0	0	0	0	1	0	0	0	9583	188	7	3	4490	3	MIA3	1	222827777	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	91160	222827777	26422844	118	47355											
CAPN2	824	broad.mit.edu	37	chr1	223947066	223947066	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatcaacctccgggaggTgctcaaccgcttcaagctgc	8	9	9	15	2	4	0	4	0	0	0	5	1	5	1	3	2	5	3	3	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:223947066T>C	uc001hob.3	+	12	1636	c.1412T>C	c.(1411-1413)GTG>GCG	p.V471A	CAPN2_uc010puy.1_Missense_Mutation_p.V393A|CAPN2_uc001hoc.2_Missense_Mutation_p.V52A	NM_001748	NP_001739	P17655	CAN2_HUMAN	calpain 2 isoform 1	471	Domain III.				proteolysis	cytoplasm|plasma membrane				lung(3)|breast(1)|skin(1)	5				GBM - Glioblastoma multiforme(131;0.109)		CTCCGGGAGGTGCTCAACCGC	0.547													16	48					0	0	1	0	0		C	223947066	C	C	223947066	3	2	73	1	0	0	0	0	1	0	0	0	2630	1696	59	3	1465	3	CAPN2	1	223947066	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1119289	223947066	25303555	119	47356											
ENAH	55740	broad.mit.edu	37	chr1	225707050	225707050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgatccaggcgttcctgccGctccaggcgttcctgccgct	3	9	11	18	5	0	0	0	0	0	0	4	1	4	0	7	2	2	4	7	2	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:225707050G>A	uc001hpc.1	-	5	1105	c.652C>T	c.(652-654)CGG>TGG	p.R218W	ENAH_uc001hpd.1_Missense_Mutation_p.R218W	NM_001008493	NP_001008493	Q8N8S7	ENAH_HUMAN	enabled homolog isoform a	218	Potential.				axon guidance|intracellular transport|T cell receptor signaling pathway	cytosol|filopodium|focal adhesion|lamellipodium|synapse	actin binding|SH3 domain binding|WW domain binding			ovary(1)|skin(1)	2	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.19)		cgttcctgccgctccaggcgt	0.269													22	49					0	0	1	0	0		A	225707050	A	A	225707050	3	1	73	1	0	0	0	0	1	0	0	0	5119	1086	38	1	1167	1	ENAH	1	225707050	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1759984	225707050	23543571	120	47357											
OBSCN	84033	broad.mit.edu	37	chr1	228511060	228511060	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgactgagttgcagaaccaAgaagtgcaggatgggtatcc	12	8	13	8	0	0	4	0	2	0	2	1	5	1	5	2	2	3	4	2	2	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:228511060A>G	uc009xez.1	+	56	15449	c.15405A>G	c.(15403-15405)CAA>CAG	p.Q5135Q	OBSCN_uc001hsn.2_Silent_p.Q5135Q	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5135	Ig-like 49.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TGCAGAACCAAGAAGTGCAGG	0.552													4	3					0	0	1	0	0		G	228511060	G	G	228511060	2	3	73	1	0	0	0	0	0	0	0	1	10831	69	3	3		3	OBSCN	1	228511060	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2804010	228511060	20739561	121	47358											
AGT	183	broad.mit.edu	37	chr1	230846346	230846346	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagcaccagctggtcctgtAgggccttttcatccacaggg	7	10	11	13	0	1	0	1	0	0	0	3	0	3	0	4	3	2	3	4	3	2	4	rs61762540		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:230846346A>G	uc001hty.3	-	2	759	c.251T>C	c.(250-252)CTA>CCA	p.L84P	AGT_uc009xfe.2_Missense_Mutation_p.L84P|AGT_uc009xff.2_Missense_Mutation_p.L56P	NM_000029	NP_000020	P01019	ANGT_HUMAN	angiotensinogen preproprotein	84					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|blood vessel remodeling|cell-cell signaling|cellular lipid metabolic process|G-protein signaling, coupled to cGMP nucleotide second messenger|kidney development|low-density lipoprotein particle remodeling|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of activation of JAK2 kinase activity|positive regulation of apoptosis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of cardiac muscle hypertrophy|positive regulation of cholesterol esterification|positive regulation of cytokine production|positive regulation of endothelial cell migration|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription, DNA-dependent|regulation of proteolysis|regulation of renal output by angiotensin|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|response to muscle activity involved in regulation of muscle adaptation	extracellular space|soluble fraction	acetyltransferase activator activity|growth factor activity|hormone activity|serine-type endopeptidase inhibitor activity|type 1 angiotensin receptor binding|type 2 angiotensin receptor binding				0	Breast(184;0.0735)|Ovarian(103;0.183)	all_cancers(173;4.64e-23)|all_epithelial(177;3.61e-18)|Breast(1374;0.00093)|all_neural(198;0.0604)|Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;4.4e-06)|Colorectal(1306;5.46e-06)|COAD - Colon adenocarcinoma(196;0.000256)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)	Aliskiren(DB01258)|Atorvastatin(DB01076)|Cilazapril(DB01340)|Irbesartan(DB01029)|Lisinopril(DB00722)|Ouabain(DB01092)|Simvastatin(DB00641)	CTGGTCCTGTAGGGCCTTTTC	0.557													22	46					0	0	1	0	0		G	230846346	G	G	230846346	3	3	73	1	0	0	0	0	1	0	0	0	399	420	15	3	1222	3	AGT	1	230846346	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2335286	230846346	18404275	122	47359											
ARID4B	51742	broad.mit.edu	37	chr1	235345283	235345283	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgactggaggtggtttttctAgttctacactgggtgaacaa	9	14	12	6	0	2	2	0	2	2	0	2	3	2	3	0	4	2	2	0	4	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:235345283A>G	uc001hwq.2	-	20	3449	c.2951T>C	c.(2950-2952)CTA>CCA	p.L984P	ARID4B_uc001hwr.2_Missense_Mutation_p.L898P|ARID4B_uc001hws.3_Missense_Mutation_p.L898P|ARID4B_uc001hwp.2_RNA|ARID4B_uc001hwt.3_Missense_Mutation_p.L665P	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	984					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			TGGTTTTTCTAGTTCTACACT	0.493													22	134					0	0	1	0	0		G	235345283	G	G	235345283	3	3	73	1	0	0	0	0	1	0	0	0	920	420	15	3	1007	3	ARID4B	1	235345283	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	4498937	235345283	13905338	123	47360											
NID1	4811	broad.mit.edu	37	chr1	236143154	236143154	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaaatacagattcttcccGtagctcgtcacagcaaaagg	13	9	9	10	2	2	2	1	1	1	1	4	2	3	2	1	1	3	3	1	1	5	4	rs115093040	by1000genomes	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:236143154G>A	uc001hxo.2	-	18	3579	c.3477C>T	c.(3475-3477)TAC>TAT	p.Y1159Y	NID1_uc009xgd.2_Silent_p.Y1026Y|NID1_uc009xgc.2_Silent_p.Y240Y	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	1159	LDL-receptor class B 4.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	GATTCTTCCCGTAGCTCGTCA	0.597													23	35					0	0	1	0	0		A	236143154	A	A	236143154	2	1	73	1	0	0	0	0	0	0	0	1	10433	1140	40	1		1	NID1	1	236143154	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	797871	236143154	13107467	124	47361											
AHCTF1	25909	broad.mit.edu	37	chr1	247021071	247021071	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcaattctgaaaatgccTctgctgcaactaagagatcc	13	11	7	10	0	3	2	1	1	2	1	4	4	4	2	2	0	4	2	2	0	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:247021071T>C	uc001ibu.1	-	29	4185	c.4178A>G	c.(4177-4179)GAG>GGG	p.E1393G	AHCTF1_uc001ibv.1_Missense_Mutation_p.E1402G|AHCTF1_uc009xgs.1_Missense_Mutation_p.E254G|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	1393	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			TGAAAATGCCTCTGCTGCAAC	0.348													17	31					0	0	1	0	0		C	247021071	C	C	247021071	3	2	73	1	0	0	0	0	1	0	0	0	408	1551	54	3	2650	3	AHCTF1	1	247021071	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	10877917	247021071	2229550	125	47362											
ZNF496	84838	broad.mit.edu	37	chr1	247464040	247464040	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagctcagtttggccttgccGttttccagcggctctttggg	4	14	12	11	2	2	0	1	0	1	0	3	0	3	0	3	3	3	4	3	3	1	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:247464040G>A	uc001ico.2	-	9	2010	c.1545C>T	c.(1543-1545)AAC>AAT	p.N515N	ZNF496_uc009xgv.2_Silent_p.N551N|ZNF496_uc001icp.2_Silent_p.N515N	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	515					positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			TGGCCTTGCCGTTTTCCAGCG	0.632													21	93					0	0	1	0	0		A	247464040	A	A	247464040	2	1	73	1	0	0	0	0	0	0	0	1	17970	1136	40	1		1	ZNF496	1	247464040	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	442969	247464040	1786581	126	47363											
OR2L2	26246	broad.mit.edu	37	chr1	248201652	248201652	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aattggccttttcgtattcaCcctcatttttctcattttcc	6	20	3	12	1	3	0	3	0	1	0	6	0	4	0	3	1	0	1	3	1	2	9			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:248201652C>A	uc001idw.2	+	1	179	c.83C>A	c.(82-84)ACC>AAC	p.T28N	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	28	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TTCGTATTCACCCTCATTTTT	0.373													68	173					6.75472e-32	7.58864e-32	1	1	0		A	248201652	A	A	248201652	3	1	73	1	0	0	0	0	1	0	0	0	11026	507	18	5	85	5	OR2L2	1	248201652	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	737612	248201652	1048969	127	47364											
OR2T6	254879	broad.mit.edu	37	chr1	248551111	248551111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctcagccacctctccGtcattgacacattatacatc	9	12	3	17	1	3	1	2	1	1	0	7	1	5	1	5	0	2	0	5	0	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr1:248551111G>A	uc001iei.1	+	1	202	c.202G>A	c.(202-204)GTC>ATC	p.V68I		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCACCTCTCCGTCATTGACAC	0.498													33	64					0	0	1	0	0		A	248551111	A	A	248551111	3	1	73	1	0	0	0	0	1	0	0	0	11048	1145	40	1	204	1	OR2T6	1	248551111	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	349459	248551111	699510	128	47365											
PXDN	7837	broad.mit.edu	37	chr2	1652625	1652625	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgctcgttggcgcggTggtccccggccaggaagcag	5	6	16	14	4	0	0	0	0	0	0	2	1	1	1	4	5	3	4	4	5	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:1652625T>C	uc002qxa.2	-	17	2991	c.2927A>G	c.(2926-2928)CAC>CGC	p.H976R		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	976					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GTTGGCGCGGTGGTCCCCGGC	0.697													10	15					0	0	1	0	0		C	1652625	C	C	1652625	3	2	73	1	0	0	0	0	1	0	0	0	12872	1696	59	3	1540	3	PXDN	2	1652625	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08		1652625	241546748	129	47366											
PXDN	7837	broad.mit.edu	37	chr2	1670163	1670163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctctcgtccaggagatccGcggcggggggtggcctgtgg	4	7	18	12	4	1	1	0	0	1	1	4	2	3	1	4	7	0	0	4	7	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:1670163G>A	uc002qxa.2	-	10	1178	c.1114C>T	c.(1114-1116)CGG>TGG	p.R372W	PXDN_uc002qxb.1_Missense_Mutation_p.R372W|PXDN_uc002qxc.1_Missense_Mutation_p.R189W	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	372	Ig-like C2-type 2.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CAGGAGATCCGCGGCGGGGGG	0.617													11	21					0	0	1	0	0		A	1670163	A	A	1670163	3	1	73	1	0	0	0	0	1	0	0	0	12872	1086	38	1	3381	1	PXDN	2	1670163	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	17538	1670163	241529210	130	47367											
ADI1	55256	broad.mit.edu	37	chr2	3502771	3502771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatttcacgtactgcccgCgggcttcaaaatggtcagcg	10	9	11	11	4	3	0	3	0	0	0	3	1	3	0	1	2	3	2	1	2	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:3502771C>T	uc002qxp.3	-	4	595	c.503G>A	c.(502-504)CGC>CAC	p.R168H	ADI1_uc010yiq.1_RNA	NM_018269	NP_060739	Q9BV57	MTND_HUMAN	acireductone dioxygenase 1	168					L-methionine salvage from methylthioadenosine	cytoplasm|nucleus|plasma membrane	acireductone dioxygenase (Ni2+-requiring) activity|metal ion binding|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.0729)|Epithelial(75;0.173)|all cancers(51;0.228)		GTACTGCCCGCGGGCTTCAAA	0.542													14	36					0	0	1	0	0		T	3502771	T	T	3502771	3	4	73	1	0	0	0	0	1	0	0	0	315	768	27	1	40	1	ADI1	2	3502771	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1832608	3502771	239696602	131	47368											
RNF144A	9781	broad.mit.edu	37	chr2	7137136	7137136	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaagctctgtcttggggagTacccagtggagcagatgaca	10	8	14	9	0	2	2	0	1	2	1	2	4	2	4	1	3	3	4	1	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:7137136T>C	uc002qys.2	+	3	521	c.79T>C	c.(79-81)TAC>CAC	p.Y27H	RNF144A_uc002qyt.2_Intron	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	27	RING-type 1; atypical.					Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		TCTTGGGGAGTACCCAGTGGA	0.502													11	52					0	0	1	0	0		C	7137136	C	C	7137136	3	2	73	1	0	0	0	0	1	0	0	0	13470	1638	57	3	81	3	RNF144A	2	7137136	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	3634365	7137136	236062237	132	47369											
HPCAL1	3241	broad.mit.edu	37	chr2	10560261	10560261	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagatgctggagatcgtgcaGgtaccggcgcccgaggcccc	7	5	16	13	4	0	2	0	0	0	2	1	5	0	2	4	4	3	3	4	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:10560261G>T	uc002raj.2	+	3	752	c.378G>T	c.(376-378)CAG>CAT	p.Q126H	HPCAL1_uc002rak.2_Missense_Mutation_p.Q126H|HPCAL1_uc002ral.2_Missense_Mutation_p.Q126H|HPCAL1_uc010exe.2_RNA|HPCAL1_uc010exf.2_Missense_Mutation_p.Q126H	NM_002149	NP_002140	P37235	HPCL1_HUMAN	hippocalcin-like 1	126	EF-hand 3.						calcium ion binding			pancreas(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.214)		AGATCGTGCAGGTACCGGCGC	0.612													18	37					1.56452e-12	1.68737e-12	1	1	0		T	10560261	T	T	10560261	3	4	73	1	0	0	0	0	1	0	0	0	7346	1014	35	5	380	5	HPCAL1	2	10560261	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3423125	10560261	232639112	133	47370											
KCNF1	3754	broad.mit.edu	37	chr2	11053150	11053150	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtctcgtccgtggtcatgTgcatgggcaccatccccgag	5	10	12	14	4	2	0	1	0	1	0	6	1	4	0	4	2	1	2	4	2	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:11053150T>C	uc002rax.2	+	1	1088	c.598T>C	c.(598-600)TGC>CGC	p.C200R		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	200	Helical; Name=Segment S1; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		CGTGGTCATGTGCATGGGCAC	0.667													11	30					0	0	1	0	0		C	11053150	C	C	11053150	3	2	73	1	0	0	0	0	1	0	0	0	8042	1696	59	3	600	3	KCNF1	2	11053150	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	492889	11053150	232146223	134	47371											
KCNF1	3754	broad.mit.edu	37	chr2	11053256	11053256	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcattggctggttcacccTggagtacctgctgcgcctct	4	12	12	13	1	2	0	1	0	1	0	2	1	2	1	3	3	4	5	3	3	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:11053256T>C	uc002rax.2	+	1	1194	c.704T>C	c.(703-705)CTG>CCG	p.L235P		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	235	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		TGGTTCACCCTGGAGTACCTG	0.632													17	41					0	0	1	0	0		C	11053256	C	C	11053256	3	2	73	1	0	0	0	0	1	0	0	0	8042	1580	55	3	706	3	KCNF1	2	11053256	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	106	11053256	232146117	135	47372											
SMC6	79677	broad.mit.edu	37	chr2	17896308	17896308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatagccaaagcaagttctGggtcccgaagatgaatgcaa	15	7	10	9	1	1	2	0	1	1	1	2	3	2	2	2	1	3	3	2	1	7	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:17896308G>A	uc002rco.2	-	16	1846	c.1550C>T	c.(1549-1551)CCA>CTA	p.P517L	SMC6_uc010exo.2_Missense_Mutation_p.P517L|SMC6_uc002rcn.2_Missense_Mutation_p.P517L|SMC6_uc002rcp.1_Missense_Mutation_p.P543L|SMC6_uc002rcq.2_Missense_Mutation_p.P543L	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	517	Flexible hinge.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					AGCAAGTTCTGGGTCCCGAAG	0.383													29	70					0	0	1	0	0		A	17896308	A	A	17896308	3	1	73	1	0	0	0	0	1	0	0	0	14812	1348	47	4	1777	4	SMC6	2	17896308	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6843052	17896308	225303065	136	47373											
APOB	338	broad.mit.edu	37	chr2	21233671	21233672	+	Frame_Shift_Ins	INS	-	G	G																															gtaaaagtggcactttaattINSggggagtctagtagagttag																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:21233671_21233672insG	uc002red.2	-	26	6196_6197	c.6068_6069insC	c.(6067-6069)CCAfs	p.P2023fs		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2023					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GCACTTTAATTGGGGAGTCTAG	0.421													47	98	---	---	---	---						.	G	21233672	G	G	21233671	7	5	73	1	0	1	1	0	0	0	0	0	785	1799	63	0	7638	0	APOB	2	21233671	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	3337363	21233671	221965702	137	47374											
KCNK3	3777	broad.mit.edu	37	chr2	26950859	26950859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcaccaccatcggcttcgGcgactacgtggcgctgcaga	7	7	11	16	5	1	1	1	0	0	1	3	2	1	1	3	3	2	3	3	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:26950859G>A	uc002rhn.2	+	2	771	c.608G>A	c.(607-609)GGC>GAC	p.G203D		NM_002246	NP_002237	O14649	KCNK3_HUMAN	potassium channel, subfamily K, member 3	203					synaptic transmission	integral to plasma membrane				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATCGGCTTCGGCGACTACGTG	0.627													19	25					0	0	1	0	0		A	26950859	A	A	26950859	3	1	73	1	0	0	0	0	1	0	0	0	8083	1203	42	2	614	2	KCNK3	2	26950859	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5717188	26950859	216248514	138	47375											
EMILIN1	11117	broad.mit.edu	37	chr2	27302057	27302057	+	Frame_Shift_Del	DEL	G	-	-																															ccagtggggccctcagccccGgggggccccaggcccagatt																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:27302057delG	uc002rii.3	+	1	552	c.124delG	c.(124-126)GGGfs	p.G42fs	EMILIN1_uc010eyq.1_Frame_Shift_Del_p.G42fs	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	42					cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCTCAGCCCCGGGGGGCCCCA	0.682													9	17	---	---	---	---						.	-	27302057	-	-	27302057	7	5	73	1	0	1	0	1	0	0	0	0	5101	1116	39	0	126	0	EMILIN1	2	27302057	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	351198	27302057	215897316	139	47376											
CAD	790	broad.mit.edu	37	chr2	27458431	27458431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgagctgctcccaactgtgCggctactggagagcctgggc	6	7	15	13	2	0	1	0	0	0	1	1	3	1	1	2	3	6	3	2	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:27458431C>T	uc002rji.2	+	25	4159	c.3997C>T	c.(3997-3999)CGG>TGG	p.R1333W	CAD_uc010eyw.2_Missense_Mutation_p.R1270W	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1333	CPSase B.|CPSase (Carbamoyl-phosphate synthase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	CCCAACTGTGCGGCTACTGGA	0.537													26	59					0	0	1	0	0		T	27458431	T	T	27458431	3	4	73	1	0	0	0	0	1	0	0	0	2568	759	27	1	4095	1	CAD	2	27458431	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	156374	27458431	215740942	140	47377											
GTF3C2	2976	broad.mit.edu	37	chr2	27558811	27558811	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtgcctggaagttcccaTgctccactggggcagaactt	7	9	14	11	0	0	1	0	0	0	1	2	2	2	2	3	5	3	3	3	5	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:27558811T>A	uc002rjv.1	-	10	1803	c.1440A>T	c.(1438-1440)GCA>GCT	p.A480A	GTF3C2_uc010eyy.1_5'Flank|GTF3C2_uc002rju.1_Silent_p.A491A|GTF3C2_uc002rjw.1_Silent_p.A480A|GTF3C2_uc010eyz.1_Silent_p.A480A|uc002rjy.1_Intron	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	480	WD 1.					transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAAGTTCCCATGCTCCACTGG	0.562													9	23					0	0	1	0	0		A	27558811	A	A	27558811	2	1	73	1	0	0	0	0	0	0	0	1	6889	1451	51	5		5	GTF3C2	2	27558811	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	100380	27558811	215640562	141	47378											
CRIM1	51232	broad.mit.edu	37	chr2	36583582	36583582	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccaagtgcgaggagcccagGaactgcccggggagcatcgt	9	5	15	12	3	0	0	0	0	0	0	2	4	1	3	3	4	5	1	3	4	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:36583582G>A	uc002rpd.2	+	1	186	c.147G>A	c.(145-147)AGG>AGA	p.R49R		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	49	IGFBP N-terminal.|Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				AGGAGCCCAGGAACTGCCCGG	0.692													6	12					0	0	1	0	0		A	36583582	A	A	36583582	2	1	73	1	0	0	0	0	0	0	0	1	3876	1165	41	4		4	CRIM1	2	36583582	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	9024771	36583582	206615791	142	47379											
VIT	5212	broad.mit.edu	37	chr2	36970398	36970398	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtggcgctgccgtacacAggtgagtggttctgagctac	6	11	15	9	2	1	2	0	2	1	0	1	2	1	2	1	3	4	4	1	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:36970398A>C	uc002rpl.2	+	4	495	c.274A>C	c.(274-276)AGT>CGT	p.S92R	VIT_uc002rpk.2_Missense_Mutation_p.S85R|VIT_uc010ynf.1_Missense_Mutation_p.S85R|VIT_uc002rpm.2_Missense_Mutation_p.S85R|VIT_uc010ezv.2_Missense_Mutation_p.S85R|VIT_uc010ezw.2_Missense_Mutation_p.S85R	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	92	LCCL.					proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				TGCCGTACACAGGTGAGTGGT	0.468													5	51					0	0	1	0	0		C	36970398	C	C	36970398	3	2	73	1	0	0	0	0	1	0	0	0	17197	202	7	5	284	5	VIT	2	36970398	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	386816	36970398	206228975	143	47380											
PRKD3	23683	broad.mit.edu	37	chr2	37516634	37516634	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaatcttgaaggcacatcgTttatggtaatttaatccaca	13	13	8	7	1	1	1	0	1	1	0	3	2	2	2	1	3	0	3	1	3	5	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:37516634T>C	uc002rqd.2	-	4	1137	c.582A>G	c.(580-582)AAA>AAG	p.K194K	PRKD3_uc002rqf.1_Silent_p.K194K	NM_005813	NP_005804	O94806	KPCD3_HUMAN	protein kinase D3	194	Phorbol-ester/DAG-type 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(2)|ovary(1)|central_nervous_system(1)	4		all_hematologic(82;0.21)				AGGCACATCGTTTATGGTAAT	0.338													27	40					0	0	1	0	0		C	37516634	C	C	37516634	2	2	73	1	0	0	0	0	0	0	0	1	12542	1722	60	3		3	PRKD3	2	37516634	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	546236	37516634	205682739	144	47381											
ATL2	64225	broad.mit.edu	37	chr2	38525369	38525369	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtatttaacatatgcccaagTacaaagaaatatcagtgcta	17	11	6	7	0	1	1	1	0	0	1	1	1	1	1	1	0	4	3	1	0	9	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:38525369T>C	uc002rqq.2	-	12	1579	c.1549A>G	c.(1549-1551)ACT>GCT	p.T517A	ATL2_uc010ynm.1_Missense_Mutation_p.T499A|ATL2_uc010ynn.1_Missense_Mutation_p.T499A|ATL2_uc010yno.1_Missense_Mutation_p.T346A|ATL2_uc002rqs.2_Missense_Mutation_p.T517A|ATL2_uc002rqr.2_Missense_Mutation_p.T346A	NM_001135673	NP_001129145	Q8NHH9	ATLA2_HUMAN	atlastin GTPase 2 isoform 2	517	Helical; (Potential).				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			ovary(1)|kidney(1)|skin(1)	3						TATGCCCAAGTACAAAGAAAT	0.393													23	64					0	0	1	0	0		C	38525369	C	C	38525369	3	2	73	1	0	0	0	0	1	0	0	0	1108	1638	57	3	322	3	ATL2	2	38525369	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1008735	38525369	204674004	145	47382											
PKDCC	91461	broad.mit.edu	37	chr2	42280472	42280472	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtagaaatgatccagctgCtgcaaacttcctgggaggat	11	10	11	9	0	0	2	0	1	0	1	2	4	2	4	2	2	4	4	2	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:42280472C>T	uc002rsg.2	+	2	912	c.733C>T	c.(733-735)CTG>TTG	p.L245L		NM_138370	NP_612379	Q504Y2	PKDCC_HUMAN	protein kinase-like protein SgK493	245	Protein kinase.				cell differentiation|embryonic digestive tract development|lung alveolus development|negative regulation of Golgi to plasma membrane protein transport|ossification|palate development|positive regulation of bone mineralization|positive regulation of chondrocyte differentiation|protein transport	Golgi apparatus	ATP binding|protein kinase activity			breast(1)	1						GATCCAGCTGCTGCAAACTTC	0.607													36	66					0	0	1	0	0		T	42280472	T	T	42280472	2	4	73	1	0	0	0	0	0	0	0	1	11988	796	28	2		2	PKDCC	2	42280472	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3755103	42280472	200918901	146	47383											
PLEKHH2	130271	broad.mit.edu	37	chr2	43970051	43970051	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcacttcatgaatgggatAtaccaggtaggttacctgat	11	12	11	7	0	1	2	1	2	0	0	1	3	1	3	2	3	3	3	2	3	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:43970051A>G	uc010yny.1	+	22	3476	c.3393A>G	c.(3391-3393)ATA>ATG	p.I1131M		NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	1131	FERM.					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TGAATGGGATATACCAGGTAG	0.413													24	55					0	0	1	0	0		G	43970051	G	G	43970051	3	3	73	1	0	0	0	0	1	0	0	0	12096	439	16	3	3475	3	PLEKHH2	2	43970051	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1689579	43970051	199229322	147	47384											
SIX3	6496	broad.mit.edu	37	chr2	45169340	45169340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatacttctggcgagtagcGgcggcgggaacggtgcggga	7	6	18	10	6	1	0	0	0	1	0	1	3	1	2	1	6	4	1	1	6	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:45169340G>A	uc002run.1	+	1	304	c.97G>A	c.(97-99)GGC>AGC	p.G33S		NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3	33	Poly-Gly.				visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GGCGAGTAgcggcggcgggaa	0.264													37	48					0	0	1	0	0		A	45169340	A	A	45169340	3	1	73	1	0	0	0	0	1	0	0	0	14373	1116	39	1	99	1	SIX3	2	45169340	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1199289	45169340	198030033	148	47385											
FBXO11	80204	broad.mit.edu	37	chr2	48035303	48035303	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctataggtggagcagagtcaTatagtgtatctgtatcatgt	11	14	11	5	0	3	1	2	0	1	1	3	2	3	2	0	2	1	3	0	2	6	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:48035303T>C	uc010fbl.2	-	23	2600	c.2486A>G	c.(2485-2487)TAT>TGT	p.Y829C	FBXO11_uc002rwe.2_Missense_Mutation_p.Y829C|FBXO11_uc010fbk.2_Missense_Mutation_p.Y337C	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	913					ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AGCAGAGTCATATAGTGTATC	0.383													62	123					0	0	1	0	0		C	48035303	C	C	48035303	3	2	73	1	0	0	0	0	1	0	0	0	5741	1406	49	3	49	3	FBXO11	2	48035303	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2865963	48035303	195164070	149	47386											
NRXN1	9378	broad.mit.edu	37	chr2	50280668	50280668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggccctggaagggctggCcctgctctttcccgccaatt	4	10	12	15	1	1	0	0	0	1	0	2	1	2	1	4	4	1	3	4	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:50280668C>T	uc010fbp.2	-	4	1481	c.674G>A	c.(673-675)GGC>GAC	p.G225D	NRXN1_uc002rxb.3_Missense_Mutation_p.G962D|NRXN1_uc010fbq.2_Missense_Mutation_p.G1330D|NRXN1_uc002rxe.3_Missense_Mutation_p.G1260D	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	225	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GAAGGGCTGGCCCTGCTCTTT	0.453													15	78					0	0	1	0	0		T	50280668	T	T	50280668	3	4	73	1	0	0	0	0	1	0	0	0	10684	739	26	2	666	2	NRXN1	2	50280668	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2245365	50280668	192918705	150	47387											
NRXN1	9378	broad.mit.edu	37	chr2	51255157	51255157	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagctgcaggcggccgccGcgcgtcagaatcagctccag	7	5	14	15	5	2	2	2	1	0	1	3	2	3	2	3	2	3	3	3	2	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:51255157G>A	uc010fbq.2	-	2	1732	c.255C>T	c.(253-255)CGC>CGT	p.R85R	NRXN1_uc002rxe.3_Silent_p.R85R|NRXN1_uc002rxd.1_Silent_p.R85R	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GGCGGCCGCCGCGCGTCAGAA	0.667													11	16					0	0	1	0	0		A	51255157	A	A	51255157	2	1	73	1	0	0	0	0	0	0	0	1	10684	1074	38	1		1	NRXN1	2	51255157	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	974489	51255157	191944216	151	47388											
RTN4	57142	broad.mit.edu	37	chr2	55252719	55252719	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataagtcatcatttgaataaActgcagtactgagctcctcc	13	12	6	10	0	2	2	2	2	0	0	4	2	4	2	2	0	4	3	2	0	5	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:55252719A>G	uc002rye.2	-	3	2814	c.2516T>C	c.(2515-2517)GTT>GCT	p.V839A	RTN4_uc002ryd.2_Missense_Mutation_p.V633A|RTN4_uc002ryf.2_Intron|RTN4_uc002ryg.2_Intron	NM_020532	NP_065393	Q9NQC3	RTN4_HUMAN	reticulon 4 isoform A	839	Cytoplasmic (Potential).				apoptosis|axonal fasciculation|cerebral cortex radial glia guided migration|endoplasmic reticulum tubular network organization|negative regulation of anti-apoptosis|negative regulation of axon extension|nerve growth factor receptor signaling pathway|regulation of apoptosis|regulation of branching morphogenesis of a nerve|regulation of cell migration	integral to endoplasmic reticulum membrane|nuclear envelope|plasma membrane	protein binding			ovary(2)|large_intestine(1)	3						ATTTGAATAAACTGCAGTACT	0.343													10	85					0	0	1	0	0		G	55252719	G	G	55252719	3	3	73	1	0	0	0	0	1	0	0	0	13753	43	2	3	1128	3	RTN4	2	55252719	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3997562	55252719	187946654	152	47389											
PAPOLG	64895	broad.mit.edu	37	chr2	60983631	60983631	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgatgaaagagatgtctgcGtaagtggtggggggcggcgg	8	7	21	5	4	1	2	0	1	1	1	1	4	1	2	0	6	1	1	0	6	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:60983631G>A	uc002sai.2	+	1	248	c.17_splice	c.e1+1	p.A6_splice	PAPOLG_uc002saj.2_Intron	NM_022894	NP_075045	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma						mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(2;0.0797)		LUSC - Lung squamous cell carcinoma(5;1.19e-07)|Lung(5;2.86e-06)|Epithelial(17;0.0768)			AGATGTCTGCGTAAGTGGTGG	0.597													12	16					0	0	1	0	0		A	60983631	A	A	60983631	5	1	73	1	0	0	0	0	0	0	1	0	11450	1159	40	1	20	1	PAPOLG	2	60983631	Splice_Site	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5730912	60983631	182215742	153	47390											
CCT4	10575	broad.mit.edu	37	chr2	62110669	62110669	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtaatggttacatcaccTtttccatcttgaatctagaa	11	17	5	8	0	3	2	1	1	2	1	4	2	4	2	2	1	1	2	2	1	5	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:62110669T>C	uc002sbo.2	-	3	344	c.195A>G	c.(193-195)AAA>AAG	p.K65K	CCT4_uc010ypp.1_Silent_p.K9K|CCT4_uc010ypq.1_5'UTR|CCT4_uc010ypr.1_Silent_p.K9K|CCT4_uc010yps.1_Intron	NM_006430	NP_006421	P50991	TCPD_HUMAN	chaperonin containing TCP1, subunit 4 (delta)	65					'de novo' posttranslational protein folding	melanosome|microtubule organizing center|nucleus	ATP binding|unfolded protein binding			ovary(2)	2	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;6.5e-06)|Epithelial(17;0.0647)|all cancers(80;0.221)			TTACATCACCTTTTCCATCTT	0.289													11	21					0	0	1	0	0		C	62110669	C	C	62110669	2	2	73	1	0	0	0	0	0	0	0	1	2958	1606	56	3		3	CCT4	2	62110669	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1127038	62110669	181088704	154	47391											
AFTPH	54812	broad.mit.edu	37	chr2	64779519	64779519	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtgtttcagaaataagcaTagtgactaacagaggtttca	14	13	9	5	0	2	3	2	1	0	2	2	3	2	3	0	1	2	3	0	1	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:64779519T>C	uc002sdc.2	+	1	943	c.911T>C	c.(910-912)ATA>ACA	p.I304T	AFTPH_uc002scz.2_Missense_Mutation_p.I304T|AFTPH_uc002sda.2_Missense_Mutation_p.I304T|AFTPH_uc002sdb.2_Missense_Mutation_p.I304T	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	304					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						GAAATAAGCATAGTGACTAAC	0.403													40	74					0	0	1	0	0		C	64779519	C	C	64779519	3	2	73	1	0	0	0	0	1	0	0	0	364	1406	49	3	913	3	AFTPH	2	64779519	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2668850	64779519	178419854	155	47392											
C2orf78	388960	broad.mit.edu	37	chr2	74043234	74043234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccgaagctccctaggcatGcacatgctagagtccgtgca	9	7	10	15	2	0	1	0	0	0	1	2	2	2	1	4	1	4	5	4	1	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:74043234G>A	uc002sjr.1	+	3	2005	c.1884G>A	c.(1882-1884)ATG>ATA	p.M628I		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	628										ovary(2)	2						CCCTAGGCATGCACATGCTAG	0.463													22	36					0	0	1	0	0		A	74043234	A	A	74043234	3	1	73	1	0	0	0	0	1	0	0	0	2198	1319	46	2	1894	2	C2orf78	2	74043234	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	9263715	74043234	169156139	156	47393											
CTNNA2	1496	broad.mit.edu	37	chr2	80136836	80136836	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggccgactcctcctgcacGcgagacgaccggcgcgagag	8	4	14	15	7	0	2	0	0	0	2	2	6	2	2	4	2	1	1	4	2	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:80136836G>A	uc010ysh.1	+	6	974	c.969G>A	c.(967-969)ACG>ACA	p.T323T	CTNNA2_uc010yse.1_Silent_p.T323T|CTNNA2_uc010ysf.1_Silent_p.T323T|CTNNA2_uc010ysg.1_Silent_p.T323T	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	323					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						CCTCCTGCACGCGAGACGACC	0.647													31	52					0	0	1	0	0		A	80136836	A	A	80136836	2	1	73	1	0	0	0	0	0	0	0	1	4016	1074	38	1		1	CTNNA2	2	80136836	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6093602	80136836	163062537	157	47394											
LRRTM1	347730	broad.mit.edu	37	chr2	80529715	80529715	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgccgcctggaagagccacGgtggcaggctcgaatgtgcc	7	6	15	13	4	0	1	0	0	0	1	2	3	0	2	4	4	2	2	4	4	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:80529715G>A	uc002sok.1	-	2	1500	c.1230C>T	c.(1228-1230)ACC>ACT	p.T410T	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	410	Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GAAGAGCCACGGTGGCAGGCT	0.687										HNSCC(69;0.2)			5	46					0	0	1	0	0		A	80529715	A	A	80529715	2	1	73	1	0	0	0	0	0	0	0	1	9057	1103	39	1		1	LRRTM1	2	80529715	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	392879	80529715	162669658	158	47395											
TGOLN2	10618	broad.mit.edu	37	chr2	85554313	85554313	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggccgtccgcacccgacTtattagggacatcttttgtg	6	13	10	12	3	2	0	0	0	2	0	3	2	3	1	3	2	0	1	3	2	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:85554313T>C	uc010fgd.1	-	2	831	c.542A>G	c.(541-543)AAG>AGG	p.K181R	TGOLN2_uc002soz.2_Missense_Mutation_p.K181R|TGOLN2_uc002spa.2_RNA|TGOLN2_uc002spb.2_Missense_Mutation_p.K181R|TGOLN2_uc002spc.1_Missense_Mutation_p.K181R	NM_006464	NP_006455	O43493	TGON2_HUMAN	trans-golgi network protein 2	181	Extracellular (Potential).|10.|14 X 14 AA tandem repeats.					integral to membrane|nucleus|plasma membrane|trans-Golgi network|transport vesicle	protein binding				0						CGCACCCGACTTATTAGGGAC	0.587													40	563					0	0	1	0	0		C	85554313	C	C	85554313	3	2	73	1	0	0	0	0	1	0	0	0	15861	1609	56	3	783	3	TGOLN2	2	85554313	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	5024598	85554313	157645060	159	47396											
MAT2A	4144	broad.mit.edu	37	chr2	85769744	85769744	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacttatggcggttggggTgctcatggaggaggtgcctt	6	11	17	7	1	1	0	1	0	0	0	1	3	1	2	1	7	2	2	1	7	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:85769744T>C	uc002spr.2	+	7	948	c.825T>C	c.(823-825)GGT>GGC	p.G275G	MAT2A_uc010ysr.1_Silent_p.G275G|MAT2A_uc010fgk.2_Silent_p.G249G|MAT2A_uc010fgl.2_Silent_p.G212G	NM_005911	NP_005902	P31153	METK2_HUMAN	methionine adenosyltransferase II, alpha	275					methylation|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0					L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	GCGGTTGGGGTGCTCATGGAG	0.473													12	46					0	0	1	0	0		C	85769744	C	C	85769744	2	2	73	1	0	0	0	0	0	0	0	1	9348	1683	59	3		3	MAT2A	2	85769744	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	215431	85769744	157429629	160	47397											
MAL	4118	broad.mit.edu	37	chr2	95691557	95691558	+	Frame_Shift_Ins	INS	-	G	G																															atggcccccgcagcggcgacINSggggggcagcaccctgccca																								rs138435313		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:95691557_95691558insG	uc002stx.1	+	1	79_80	c.20_21insG	c.(19-21)ACGfs	p.T7fs	MAL_uc002sty.1_Frame_Shift_Ins_p.T7fs|MAL_uc002stz.1_Frame_Shift_Ins_p.T7fs|MAL_uc002sua.1_Frame_Shift_Ins_p.T7fs	NM_002371	NP_002362	P21145	MAL_HUMAN	T-lymphocyte maturation-associated protein	7	Cytoplasmic (Potential).				apical protein localization|cell differentiation|central nervous system development|induction of apoptosis|membrane raft polarization|myelination	apical plasma membrane|endoplasmic reticulum|endosome|integral to plasma membrane|membrane raft	apoptotic protease activator activity|channel activity|lipid binding|structural constituent of myelin sheath				0				STAD - Stomach adenocarcinoma(1183;0.18)		GCAGCGGCGACGGGGGGCAGCA	0.693													7	8	---	---	---	---						.	G	95691558	G	G	95691557	7	5	73	1	0	1	1	0	0	0	0	0	9217	536	19	0	22	0	MAL	2	95691557	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	9921813	95691557	147507816	161	47398											
CNNM4	26504	broad.mit.edu	37	chr2	97474358	97474358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccctcagttacccagaccGcacagacgtctcaactgcag	10	7	7	17	2	2	2	2	0	1	2	4	2	3	2	3	0	3	3	3	0	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:97474358G>A	uc002swx.2	+	6	2107	c.2009G>A	c.(2008-2010)CGC>CAC	p.R670H	CNNM4_uc010yuy.1_Missense_Mutation_p.R157H	NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	670					biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						TACCCAGACCGCACAGACGTC	0.617													16	40					0	0	1	0	0		A	97474358	A	A	97474358	3	1	73	1	0	0	0	0	1	0	0	0	3618	1087	38	1	2031	1	CNNM4	2	97474358	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1782801	97474358	145725015	162	47399											
ZAP70	7535	broad.mit.edu	37	chr2	98340769	98340769	+	Frame_Shift_Del	DEL	C	-	-																															tgcgagttctactcgcgcgaCcccgacgggctgccctgcaa																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:98340769delC	uc002syd.1	+	3	477	c.270delC	c.(268-270)GACfs	p.D90fs	ZAP70_uc010yvf.1_Frame_Shift_Del_p.D90fs|ZAP70_uc002sye.1_5'Flank	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	90	SH2 1.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						ACTCGCGCGACCCCGACGGGC	0.692													9	11	---	---	---	---						.	-	98340769	-	-	98340769	7	5	73	1	0	1	0	1	0	0	0	0	17540	506	18	0	272	0	ZAP70	2	98340769	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	866411	98340769	144858604	163	47400											
TMEM131	23505	broad.mit.edu	37	chr2	98411544	98411544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttataaacttcagttcccGaataactctagaagctgtaa	14	13	6	8	1	2	1	1	0	1	1	3	2	3	1	1	0	3	4	1	0	8	7	rs61753932		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:98411544G>A	uc002syh.3	-	29	3464	c.3235C>T	c.(3235-3237)CGG>TGG	p.R1079W		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1079						integral to membrane				ovary(4)|central_nervous_system(2)	6						TTCAGTTCCCGAATAACTCTA	0.368													16	36					0	0	1	0	0		A	98411544	A	A	98411544	3	1	73	1	0	0	0	0	1	0	0	0	16069	1057	37	1	2468	1	TMEM131	2	98411544	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	70775	98411544	144787829	164	47401											
TMEM131	23505	broad.mit.edu	37	chr2	98429194	98429195	+	Frame_Shift_Ins	INS	-	G	G																															atgaaacgttcctctattttINSggggggcaatacaaagtact																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:98429194_98429195insG	uc002syh.3	-	16	1864_1865	c.1635_1636insC	c.(1633-1638)CCCAAAfs	p.P545fs		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	545_546						integral to membrane				ovary(4)|central_nervous_system(2)	6						TCCTCTATTTTGGGGGGCAATA	0.297													19	22	---	---	---	---						.	G	98429195	G	G	98429194	7	5	73	1	0	1	1	0	0	0	0	0	16069	1821	63	0	4119	0	TMEM131	2	98429194	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	17650	98429194	144770179	165	47402											
EIF5B	9669	broad.mit.edu	37	chr2	99977649	99977650	+	Frame_Shift_Ins	INS	-	A	A																															aggaattcacctcaaaagatINSaaaaaaaagaaaggacagaa																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:99977649_99977650insA	uc002tab.2	+	4	469_470	c.285_286insA	c.(283-288)GATAAAfs	p.D95fs		NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	95_96	Poly-Lys.				regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						CCTCAAAAGATAAAAAAAAGAA	0.307													27	49	---	---	---	---						.	A	99977650	A	A	99977649	7	5	73	1	0	1	1	0	0	0	0	0	5052	1403	49	0	299	0	EIF5B	2	99977649	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	1548455	99977649	143221724	166	47403											
EIF5B	9669	broad.mit.edu	37	chr2	100006804	100006804	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttcttgtagagttaacTcagaccatgttgagcaagag	12	12	9	8	0	2	4	1	1	1	3	2	4	2	4	2	0	3	4	2	0	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:100006804T>G	uc002tab.2	+	16	2710	c.2526T>G	c.(2524-2526)ACT>ACG	p.T842T		NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	842					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						TAGAGTTAACTCAGACCATGT	0.408													53	117					0	0	1	0	0		G	100006804	G	G	100006804	2	3	73	1	0	0	0	0	0	0	0	1	5052	1538	54	5		5	EIF5B	2	100006804	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	29155	100006804	143192569	167	47404											
RANBP2	5903	broad.mit.edu	37	chr2	109374884	109374884	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatagaaagaaatgcaggagTtgaaactaaatagcagtaac	21	7	9	4	0	0	3	0	1	0	2	0	4	0	4	0	1	4	4	0	1	9	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:109374884T>C	uc002tem.3	+	18	2608	c.2482T>C	c.(2482-2484)TTG>CTG	p.L828L		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	828					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						AATGCAGGAGTTGAAACTAAA	0.358													12	224					0	0	1	0	0		C	109374884	C	C	109374884	2	2	73	1	0	0	0	0	0	0	0	1	13053	1722	60	3		3	RANBP2	2	109374884	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	9368080	109374884	133824489	168	47405											
PSD4	23550	broad.mit.edu	37	chr2	113942987	113942987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agagaggaggtcctttttggCcccaggtgactcttaactcc	8	11	11	11	0	1	2	0	1	1	1	3	4	3	3	4	4	1	0	4	4	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:113942987C>T	uc002tjc.2	+	4	1402	c.1219C>T	c.(1219-1221)CCC>TCC	p.P407S	PSD4_uc002tjd.2_5'UTR|PSD4_uc002tje.2_Missense_Mutation_p.P406S|PSD4_uc002tjf.2_5'UTR	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	407					regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						TCCTTTTTGGCCCCAGGTGAC	0.517													28	94					0	0	1	0	0		T	113942987	T	T	113942987	3	4	73	1	0	0	0	0	1	0	0	0	12671	739	26	2	1229	2	PSD4	2	113942987	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4568103	113942987	129256386	169	47406											
TSN	7247	broad.mit.edu	37	chr2	122520638	122520638	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagattatctctcaggagTtctaattcttgccagtgaac	12	13	8	8	0	4	3	1	1	3	2	5	4	4	4	1	1	2	1	1	1	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:122520638T>C	uc002tnl.2	+	5	666	c.431T>C	c.(430-432)GTT>GCT	p.V144A	TSN_uc002tnm.2_Missense_Mutation_p.V97A|TSN_uc010yze.1_Intron|TSN_uc010flt.2_RNA	NM_004622	NP_004613	Q15631	TSN_HUMAN	translin	144					DNA recombination	cytoplasm|nucleus	sequence-specific DNA binding			breast(2)|large_intestine(1)	3		Ovarian(717;0.0563)|Prostate(154;0.116)				CTCTCAGGAGTTCTAATTCTT	0.343													12	45					0	0	1	0	0		C	122520638	C	C	122520638	3	2	73	1	0	0	0	0	1	0	0	0	16655	1725	60	3	449	3	TSN	2	122520638	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	8577651	122520638	120678735	170	47407											
LIMS2	55679	broad.mit.edu	37	chr2	128399701	128399701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggccccgcagatggggaCgcccatcttgtcatggcagg	7	6	15	13	2	2	1	1	0	1	1	2	2	2	2	3	5	0	3	3	5	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:128399701C>T	uc002tpa.2	-	6	749	c.583G>A	c.(583-585)GTC>ATC	p.V195I	LIMS2_uc002tou.2_Missense_Mutation_p.V3I|LIMS2_uc002tov.2_Missense_Mutation_p.V43I|LIMS2_uc002tow.2_Missense_Mutation_p.V43I|LIMS2_uc002tox.2_Missense_Mutation_p.V219I|LIMS2_uc010fmb.2_Missense_Mutation_p.V105I|LIMS2_uc002toy.2_Missense_Mutation_p.V190I|LIMS2_uc010yzm.1_Missense_Mutation_p.V217I|LIMS2_uc002toz.2_Missense_Mutation_p.V190I|LIMS2_uc002tpb.2_Missense_Mutation_p.V190I	NM_001161403	NP_001154875	Q7Z4I7	LIMS2_HUMAN	LIM and senescent cell antigen-like domains 2	195	LIM zinc-binding 3.				cell junction assembly	cytosol|focal adhesion|nucleus	zinc ion binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0681)		CAGATGGGGACGCCCATCTTG	0.682													4	14					0	0	1	0	0		T	128399701	T	T	128399701	3	4	73	1	0	0	0	0	1	0	0	0	8820	536	19	1	462	1	LIMS2	2	128399701	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5879063	128399701	114799672	171	47408											
YSK4	80122	broad.mit.edu	37	chr2	135738675	135738675	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgccatttaaacctgcccaGgccaaacgcctggcacagcc	10	6	9	16	1	0	0	0	0	0	0	0	0	0	0	6	2	5	1	6	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:135738675G>T	uc002tue.1	-	9	3667	c.3636C>A	c.(3634-3636)GCC>GCA	p.A1212A	YSK4_uc002tuf.1_Silent_p.A394A|YSK4_uc010fnc.1_Silent_p.A346A|YSK4_uc010fnd.1_Silent_p.A1099A|YSK4_uc010zbg.1_Silent_p.A344A|YSK4_uc002tuh.3_Silent_p.A940A|YSK4_uc002tui.3_3'UTR	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	1212	Protein kinase.						ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		AACCTGCCCAGGCCAAACGCC	0.468													28	71					1.5548e-18	1.7189e-18	1	1	0		T	135738675	T	T	135738675	2	4	73	1	0	0	0	0	0	0	0	1	17521	987	35	5		5	YSK4	2	135738675	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	7338974	135738675	107460698	172	47409											
NR4A2	4929	broad.mit.edu	37	chr2	157185013	157185013	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcagtttttatttgctaaAcacacgtattttgcattttt	9	19	7	6	1	0	0	0	0	0	0	0	0	0	0	0	1	3	5	0	1	4	10			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:157185013A>G	uc002tyz.3	-	4	1319	c.897T>C	c.(895-897)TGT>TGC	p.C299C	NR4A2_uc002tyx.3_Silent_p.C236C|NR4A2_uc010zcf.1_Silent_p.C299C|NR4A2_uc010zcg.1_5'Flank	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	299	NR C4-type.|Nuclear receptor.				cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						TATTTGCTAAACACACGTATT	0.428													5	66					0	0	1	0	0		G	157185013	G	G	157185013	2	3	73	1	0	0	0	0	0	0	0	1	10652	41	2	3		3	NR4A2	2	157185013	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	21446338	157185013	86014360	173	47410											
GALNT5	11227	broad.mit.edu	37	chr2	158115854	158115854	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacctgaagacagtggaacGcaccaggtgttaagaattga	14	9	11	7	1	0	4	0	2	0	2	0	5	0	5	2	2	2	2	2	2	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:158115854G>A	uc002tzg.2	+	1	1515	c.1260G>A	c.(1258-1260)ACG>ACA	p.T420T	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	420	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						ACAGTGGAACGCACCAGGTGT	0.493													26	56					0	0	1	0	0		A	158115854	A	A	158115854	2	1	73	1	0	0	0	0	0	0	0	1	6231	1074	38	1		1	GALNT5	2	158115854	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	930841	158115854	85083519	174	47411											
TANC1	85461	broad.mit.edu	37	chr2	160027265	160027265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtggccctgagctgccacGgaagccgcatgaggcagatt	8	7	15	11	2	0	3	0	2	0	1	0	4	0	4	3	4	3	3	3	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:160027265G>A	uc002uag.2	+	10	1574	c.1300G>A	c.(1300-1302)GGA>AGA	p.G434R	TANC1_uc010fol.1_Missense_Mutation_p.G328R|TANC1_uc010zcm.1_Missense_Mutation_p.G426R|TANC1_uc010fom.1_Missense_Mutation_p.G240R	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	434						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						GAGCTGCCACGGAAGCCGCAT	0.483													21	67					0	0	1	0	0		A	160027265	A	A	160027265	3	1	73	1	0	0	0	0	1	0	0	0	15569	1117	39	1	1330	1	TANC1	2	160027265	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1911411	160027265	83172108	175	47412											
WDSUB1	151525	broad.mit.edu	37	chr2	160139475	160139475	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagtcacgtaacgagtacaGgcgaattgttttgtccaagg	13	10	11	7	3	1	0	1	0	0	0	2	2	2	0	1	2	2	3	1	2	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:160139475G>T	uc002uaj.3	-	2	255	c.106C>A	c.(106-108)CTG>ATG	p.L36M	WDSUB1_uc002uak.3_Missense_Mutation_p.L36M|WDSUB1_uc002ual.3_Missense_Mutation_p.L36M|WDSUB1_uc002uam.3_Missense_Mutation_p.L36M|WDSUB1_uc010foo.2_Missense_Mutation_p.L36M	NM_152528	NP_689741	Q8N9V3	WSDU1_HUMAN	WD repeat, sterile alpha motif and U-box domain	36	WD 1.					ubiquitin ligase complex	ubiquitin-protein ligase activity				0						AACGAGTACAGGCGAATTGTT	0.448													31	61					1.88708e-17	2.07994e-17	1	1	0		T	160139475	T	T	160139475	3	4	73	1	0	0	0	0	1	0	0	0	17367	991	35	5	1364	5	WDSUB1	2	160139475	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	112210	160139475	83059898	176	47413											
BAZ2B	29994	broad.mit.edu	37	chr2	160243034	160243034	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaactttaccaaagtttcGtaagaactgcaccaccatga	16	9	5	11	1	0	2	0	1	0	1	1	2	0	2	3	0	4	3	3	0	6	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:160243034G>A	uc002uao.2	-	22	3653	c.3301C>T	c.(3301-3303)CGA>TGA	p.R1101*	BAZ2B_uc002uap.2_Nonsense_Mutation_p.R1065*	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	1101	DDT.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CCAAAGTTTCGTAAGAACTGC	0.408													21	65					0	0	1	0	0		A	160243034	A	A	160243034	4	1	73	1	0	0	0	0	0	1	0	0	1333	1153	40	1	3269	1	BAZ2B	2	160243034	Nonsense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	103559	160243034	82956339	177	47414											
LY75	4065	broad.mit.edu	37	chr2	160714970	160714970	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagaaatgccagcctcttcgCcatggcctatgaaataccta	12	10	7	12	1	1	2	0	1	1	1	2	2	1	2	5	1	3	0	5	1	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:160714970C>T	uc002ubc.3	-	16	2355	c.2286G>A	c.(2284-2286)TGG>TGA	p.W762*	LY75_uc002ubb.3_Nonsense_Mutation_p.W762*|LY75_uc010fos.2_Nonsense_Mutation_p.W762*	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	762	Extracellular (Potential).|C-type lectin 4.				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		AGCCTCTTCGCCATGGCCTAT	0.363													16	29					0	0	1	0	0		T	160714970	T	T	160714970	4	4	73	1	0	0	0	0	0	1	0	0	9117	740	26	2	2962	2	LY75	2	160714970	Nonsense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	471936	160714970	82484403	178	47415											
ITGB6	3694	broad.mit.edu	37	chr2	160993972	160993972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagccctttgtgtctcaCgcaggagaaattgtcacact	10	10	10	11	1	2	1	2	0	1	1	3	3	2	1	1	1	2	2	1	1	1	2	rs144967638		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:160993972C>T	uc002ubh.2	-	10	1649	c.1633G>A	c.(1633-1635)GTG>ATG	p.V545M	ITGB6_uc010fou.2_Missense_Mutation_p.V545M|ITGB6_uc010zcq.1_Missense_Mutation_p.V503M|ITGB6_uc010fov.1_Missense_Mutation_p.V545M	NM_000888	NP_000879	P18564	ITB6_HUMAN	integrin, beta 6 precursor	545	Extracellular (Potential).|III.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|multicellular organismal development	integrin complex	receptor activity			ovary(1)|lung(1)|skin(1)	3						TTGTGTCTCACGCAGGAGAAA	0.483													31	59					0	0	1	0	0		T	160993972	T	T	160993972	3	4	73	1	0	0	0	0	1	0	0	0	7915	536	19	1	757	1	ITGB6	2	160993972	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	279002	160993972	82205401	179	47416											
SLC4A10	57282	broad.mit.edu	37	chr2	162751204	162751204	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaggtatttcatgatgttGcctataaagctaaagatcgt	14	14	8	5	1	1	2	1	1	0	1	2	2	1	2	1	1	2	3	1	1	8	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:162751204G>T	uc002ubx.3	+	11	1394	c.1210G>T	c.(1210-1212)GCC>TCC	p.A404S	SLC4A10_uc010fpa.1_Missense_Mutation_p.A416S|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.A374S|SLC4A10_uc010zcs.1_Missense_Mutation_p.A385S	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	404	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						TCATGATGTTGCCTATAAAGC	0.313													8	37					0.000157383	0.000160469	1	1	0		T	162751204	T	T	162751204	3	4	73	1	0	0	0	0	1	0	0	0	14676	1319	46	5	1337	5	SLC4A10	2	162751204	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1757232	162751204	80448169	180	47417											
SCN9A	6335	broad.mit.edu	37	chr2	167144965	167144965	+	Frame_Shift_Del	DEL	T	-	-																															acctcagcttcttcttgctcTtttttaagacggtctaacat																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:167144965delT	uc010fpl.2	-	10	1637	c.1296delA	c.(1294-1296)AAAfs	p.K432fs	uc002udp.2_Intron|SCN9A_uc002udr.1_Frame_Shift_Del_p.K303fs|SCN9A_uc002uds.1_Frame_Shift_Del_p.K303fs|SCN9A_uc002udt.1_Frame_Shift_Del_p.K303fs	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	432						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	CTTCTTGCTCTTTTTTAAGAC	0.393													41	49	---	---	---	---						.	-	167144965	-	-	167144965	7	5	73	1	0	1	0	1	0	0	0	0	13950	1606	56	0	4709	0	SCN9A	2	167144965	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	4393761	167144965	76054408	181	47418											
SCN7A	6332	broad.mit.edu	37	chr2	167288839	167288839	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcttacctctttgctgcCtccatcaccagacttactct	8	14	3	16	0	4	1	1	0	3	1	5	1	5	1	4	0	4	1	4	0	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:167288839C>A	uc002udu.1	-	15	2708	c.2581G>T	c.(2581-2583)GGC>TGC	p.G861C	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	861					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TCTTTGCTGCCTCCATCACCA	0.403													32	46					7.63215e-27	8.54801e-27	1	1	0		A	167288839	A	A	167288839	3	1	73	1	0	0	0	0	1	0	0	0	13948	681	24	5	2511	5	SCN7A	2	167288839	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	143874	167288839	75910534	182	47419											
MYO3B	140469	broad.mit.edu	37	chr2	171258116	171258116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcggacgttcgagacGccatgtccaaagccctgtat	8	8	13	12	4	0	1	0	0	0	1	2	3	1	2	3	2	2	3	3	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:171258116G>A	uc002ufy.2	+	18	2187	c.2044G>A	c.(2044-2046)GCC>ACC	p.A682T	MYO3B_uc002ufv.2_Missense_Mutation_p.A669T|MYO3B_uc010fqb.1_Missense_Mutation_p.A669T|MYO3B_uc002ufz.2_Missense_Mutation_p.A682T|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	682	Myosin head-like.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						CGTTCGAGACGCCATGTCCAA	0.567													13	38					0	0	1	0	0		A	171258116	A	A	171258116	3	1	73	1	0	0	0	0	1	0	0	0	10095	1087	38	1	2114	1	MYO3B	2	171258116	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3969277	171258116	71941257	183	47420											
GAD1	2571	broad.mit.edu	37	chr2	171700573	171700573	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtttacatatgaaattgcAccagtgtttgtcctcatgga	11	14	9	7	0	1	1	1	1	0	0	2	2	2	2	2	2	2	3	2	2	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:171700573A>G	uc002ugi.2	+	7	1079	c.657A>G	c.(655-657)GCA>GCG	p.A219A		NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	219					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	ATGAAATTGCACCAGTGTTTG	0.368													16	46					0	0	1	0	0		G	171700573	G	G	171700573	2	3	73	1	0	0	0	0	0	0	0	1	6193	146	6	3		3	GAD1	2	171700573	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	442457	171700573	71498800	184	47421											
DLX2	1746	broad.mit.edu	37	chr2	172965365	172965365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgagtggggtgcagcagcGgcgccgtggcctgcaggtgt	4	8	19	10	3	1	1	0	1	1	0	1	1	1	1	2	5	4	3	2	5	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:172965365G>A	uc002uhn.2	-	3	1105	c.893C>T	c.(892-894)CCG>CTG	p.P298L		NM_004405	NP_004396	Q07687	DLX2_HUMAN	distal-less homeobox 2	298						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.216)			GTGCAGCAGCGGCGCCGTGGC	0.706													7	15					0	0	1	0	0		A	172965365	A	A	172965365	3	1	73	1	0	0	0	0	1	0	0	0	4577	1116	39	1	97	1	DLX2	2	172965365	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1264792	172965365	70234008	185	47422											
CHRNA1	1134	broad.mit.edu	37	chr2	175622346	175622346	+	Frame_Shift_Del	DEL	T	-	-																															cttttctgaaggaatgtgaaTttttttcacaccgccatagt																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:175622346delT	uc002ujd.2	-	5	445	c.367delA	c.(367-369)ATTfs	p.I123fs	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Frame_Shift_Del_p.I98fs|CHRNA1_uc002ujf.3_Frame_Shift_Del_p.I98fs	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	123	Extracellular.				muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GGAATGTGAATTTTTTTCACA	0.443													19	37	---	---	---	---						.	-	175622346	-	-	175622346	7	5	73	1	0	1	0	1	0	0	0	0	3384	1493	52	0	1105	0	CHRNA1	2	175622346	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	2656981	175622346	67577027	186	47423											
HOXD10	3236	broad.mit.edu	37	chr2	176981596	176981597	+	Frame_Shift_Ins	INS	-	T	T																															agctctcctgctgctaatacINSttttttagtagattccttga																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:176981596_176981597insT	uc002ukj.2	+	1	105_106	c.35_36insT	c.(34-36)ACTfs	p.T12fs		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	12						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		GCTGCTAATACTTTTTTAGTAG	0.46													47	88	---	---	---	---						.	T	176981597	T	T	176981596	7	5	73	1	0	1	1	0	0	0	0	0	7335	565	20	0	37	0	HOXD10	2	176981596	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	1359250	176981596	66217777	187	47424											
TTN	7273	broad.mit.edu	37	chr2	179398999	179398999	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgagatcgaattgcacCaccacaggagatccgggctg	10	8	11	12	2	1	2	0	1	1	2	3	5	2	2	3	2	1	2	3	2	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:179398999C>A	uc010zfg.1	-	307	94863	c.94639G>T	c.(94639-94641)GGT>TGT	p.G31547C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G25242C|TTN_uc010zfi.1_Missense_Mutation_p.G25175C|TTN_uc010zfj.1_Missense_Mutation_p.G25050C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32474							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CGAATTGCACCACCACAGGAG	0.453													31	89					1.88708e-17	2.07994e-17	1	1	0		A	179398999	A	A	179398999	3	1	73	1	0	0	0	0	1	0	0	0	16761	594	21	5	5656	5	TTN	2	179398999	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2417403	179398999	63800374	188	47425											
TTN	7273	broad.mit.edu	37	chr2	179422693	179422693	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctagcacaacaatgttaaTgaaagctttggttgtaccac	13	12	8	8	0	1	1	0	1	1	0	1	1	1	1	1	1	4	5	1	1	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:179422693T>C	uc010zfg.1	-	277	79908	c.79684A>G	c.(79684-79686)ATT>GTT	p.I26562V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I20257V|TTN_uc010zfi.1_Missense_Mutation_p.I20190V|TTN_uc010zfj.1_Missense_Mutation_p.I20065V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27489							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACAATGTTAATGAAAGCTTTG	0.448													90	147					0	0	1	0	0		C	179422693	C	C	179422693	3	2	73	1	0	0	0	0	1	0	0	0	16761	1464	51	3	20731	3	TTN	2	179422693	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	23694	179422693	63776680	189	47426											
TTN	7273	broad.mit.edu	37	chr2	179424438	179424438	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcaatggtcagtgatgtAcgagagtctgtggtatcaac	10	14	11	6	1	4	2	3	1	1	1	4	3	4	2	0	2	2	2	0	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:179424438A>G	uc010zfg.1	-	275	78941	c.78717T>C	c.(78715-78717)CGT>CGC	p.R26239R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.R19934R|TTN_uc010zfi.1_Silent_p.R19867R|TTN_uc010zfj.1_Silent_p.R19742R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27166							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCAGTGATGTACGAGAGTCTG	0.438													48	88					0	0	1	0	0		G	179424438	G	G	179424438	2	3	73	1	0	0	0	0	0	0	0	1	16761	378	14	3		3	TTN	2	179424438	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1745	179424438	63774935	190	47427											
TTN	7273	broad.mit.edu	37	chr2	179569069	179569069	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggtacagaaaattggcAtgtcatggtgcaagtctggc	11	12	12	6	0	2	1	1	0	1	1	2	1	2	1	0	4	2	3	0	4	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:179569069A>G	uc010zfg.1	-	103	26520	c.26296T>C	c.(26296-26298)TGC>CGC	p.C8766R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.C5427R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9693							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAAAATTGGCATGTCATGGTG	0.418													9	153					0	0	1	0	0		G	179569069	G	G	179569069	3	3	73	1	0	0	0	0	1	0	0	0	16761	217	8	3	74529	3	TTN	2	179569069	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	144631	179569069	63630304	191	47428											
SESTD1	91404	broad.mit.edu	37	chr2	180008501	180008501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgagccattaaatcgacGctgctgtaattcggacaaca	12	10	9	10	3	1	1	0	1	1	0	3	3	1	2	1	1	3	3	1	1	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:180008501G>A	uc002uni.3	-	9	817	c.667C>T	c.(667-669)CGT>TGT	p.R223C		NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	223					regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			TTAAATCGACGCTGCTGTAAT	0.373													33	65					0	0	1	0	0		A	180008501	A	A	180008501	3	1	73	1	0	0	0	0	1	0	0	0	14152	1087	38	1	1463	1	SESTD1	2	180008501	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	439432	180008501	63190872	192	47429											
NEUROD1	4760	broad.mit.edu	37	chr2	182543540	182543540	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtccagcttggaggaccttgGggctgaggctcgcccatcag	6	8	15	12	1	1	1	1	1	0	0	3	3	2	3	3	5	1	3	3	5	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:182543540G>T	uc002uof.2	-	2	284	c.48C>A	c.(46-48)CCC>CCA	p.P16P	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	16					amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			GAGGACCTTGGGGCTGAGGCT	0.532													6	51					1	1	1	1	0		T	182543540	T	T	182543540	2	4	73	1	0	0	0	0	0	0	0	1	10367	1219	43	5		5	NEUROD1	2	182543540	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2535039	182543540	60655833	193	47430											
SSFA2	6744	broad.mit.edu	37	chr2	182786778	182786778	+	Frame_Shift_Del	DEL	T	-	-																															tggagaaagctcagaatctgTtttttcccaagcaacatcag																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:182786778delT	uc002uoi.2	+	16	3636	c.3314delT	c.(3313-3315)GTTfs	p.V1105fs	SSFA2_uc002uoh.2_Frame_Shift_Del_p.V1105fs|SSFA2_uc002uoj.2_Frame_Shift_Del_p.V1083fs|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Frame_Shift_Del_p.V930fs|SSFA2_uc002uol.2_Frame_Shift_Del_p.V952fs|SSFA2_uc002uom.2_Frame_Shift_Del_p.V569fs	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	1105						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			TCAGAATCTGTTTTTTCCCAA	0.458													44	79	---	---	---	---						.	-	182786778	-	-	182786778	7	5	73	1	0	1	0	1	0	0	0	0	15208	1725	60	0	3376	0	SSFA2	2	182786778	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	243238	182786778	60412595	194	47431											
FRZB	2487	broad.mit.edu	37	chr2	183730945	183730945	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccctgccgggcccgctcGcacacagacttacagggctt	7	6	11	17	3	0	1	0	0	0	1	1	1	0	1	3	2	3	3	3	2	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:183730945G>A	uc002upa.1	-	1	554	c.336C>T	c.(334-336)TGC>TGT	p.C112C		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein precursor	112	FZ.				brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)			GGGCCCGCTCGCACACAGACT	0.627													15	27					0	0	1	0	0		A	183730945	A	A	183730945	2	1	73	1	0	0	0	0	0	0	0	1	6079	1079	38	1		1	FRZB	2	183730945	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	944167	183730945	59468428	195	47432											
SLC40A1	30061	broad.mit.edu	37	chr2	190428721	190428721	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtccctgagtgtaggcgtAccctgtggtgatgcagtcaa	8	10	13	10	1	1	2	1	2	0	0	2	2	2	2	2	2	2	3	2	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:190428721A>G	uc002uqp.3	-	7	1342	c.991T>C	c.(991-993)TAC>CAC	p.Y331H		NM_014585	NP_055400	Q9NP59	S40A1_HUMAN	solute carrier family 40 (iron-regulated	331					anatomical structure morphogenesis|cellular iron ion homeostasis	cytoplasm|integral to plasma membrane	iron ion transmembrane transporter activity|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000917)|Epithelial(96;0.014)|all cancers(119;0.0491)			GTGTAGGCGTACCCTGTGGTG	0.488													20	26					0	0	1	0	0		G	190428721	G	G	190428721	3	3	73	1	0	0	0	0	1	0	0	0	14653	391	14	3	732	3	SLC40A1	2	190428721	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	6697776	190428721	52770652	196	47433											
MFSD6	54842	broad.mit.edu	37	chr2	191301912	191301912	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaccatggccttgatcgttgCcactcagttccggttccgct	5	12	10	14	3	1	1	1	1	0	0	4	2	3	1	5	2	1	4	5	2	0	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:191301912C>A	uc002urz.2	+	3	1481	c.1157C>A	c.(1156-1158)GCC>GAC	p.A386D		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	386	Helical; (Potential).				transmembrane transport	integral to membrane				ovary(2)	2						TTGATCGTTGCCACTCAGTTC	0.507													21	35					4.96729e-08	5.22948e-08	1	1	0		A	191301912	A	A	191301912	3	1	73	1	0	0	0	0	1	0	0	0	9553	739	26	5	1159	5	MFSD6	2	191301912	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	873191	191301912	51897461	197	47434											
STAT1	6772	broad.mit.edu	37	chr2	191872290	191872290	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaatgagaaaaaagtaccTgattaaatctctgggcgttt	14	13	8	6	1	2	2	1	2	1	1	3	3	2	2	1	1	1	2	1	1	7	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:191872290T>C	uc002usj.2	-	5	759	c.371A>G	c.(370-372)CAG>CGG	p.Q124R	STAT1_uc010fse.1_Missense_Mutation_p.Q124R|STAT1_uc002usk.2_Missense_Mutation_p.Q124R|STAT1_uc002usl.2_Missense_Mutation_p.Q126R|STAT1_uc010fsf.1_5'UTR	NM_007315	NP_009330	P42224	STAT1_HUMAN	signal transducer and activator of transcription	124					activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)	AAAAAGTACCTGATTAAATCT	0.328													18	42					0	0	1	0	0		C	191872290	C	C	191872290	3	2	73	1	0	0	0	0	1	0	0	0	15289	1594	55	3	1969	3	STAT1	2	191872290	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	570378	191872290	51327083	198	47435											
STK17B	9262	broad.mit.edu	37	chr2	197021202	197021202	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcacttgtattttcatagAcctcatgaagattaataaca	14	16	4	7	0	3	3	3	1	0	2	3	3	3	3	1	0	1	1	1	0	5	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:197021202A>G	uc002utk.2	-	3	620	c.296T>C	c.(295-297)GTC>GCC	p.V99A	STK17B_uc010fsh.2_Missense_Mutation_p.V99A	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	99	Protein kinase.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			ATTTTCATAGACCTCATGAAG	0.328													5	45					0	0	1	0	0		G	197021202	G	G	197021202	3	3	73	1	0	0	0	0	1	0	0	0	15316	275	10	3	846	3	STK17B	2	197021202	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	5148912	197021202	46178171	199	47436											
PARD3B	117583	broad.mit.edu	37	chr2	206165331	206165331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agagtctgcagactgcagtgGccgaggtcaggaagaatgac	12	6	15	8	1	2	4	1	1	1	3	2	6	2	5	1	3	2	2	1	3	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:206165331G>A	uc002var.1	+	17	2470	c.2263G>A	c.(2263-2265)GCC>ACC	p.A755T	PARD3B_uc010fub.1_Missense_Mutation_p.A755T|PARD3B_uc002vao.1_Missense_Mutation_p.A755T|PARD3B_uc002vap.1_Missense_Mutation_p.A693T|PARD3B_uc002vaq.1_Intron	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	755					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		GACTGCAGTGGCCGAGGTCAG	0.517													37	84					0	0	1	0	0		A	206165331	A	A	206165331	3	1	73	1	0	0	0	0	1	0	0	0	11463	1203	42	2	2329	2	PARD3B	2	206165331	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	9144129	206165331	37034042	200	47437											
PIKFYVE	200576	broad.mit.edu	37	chr2	209195290	209195290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgttctgtgatacccccatgGtacatcatattcggcgcttt	7	15	8	11	2	2	1	1	1	1	0	3	1	2	1	2	2	2	3	2	2	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:209195290G>A	uc002vcz.2	+	23	3993	c.3835G>A	c.(3835-3837)GTA>ATA	p.V1279I	PIKFYVE_uc002vcy.1_Missense_Mutation_p.V1223I	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1279					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						TACCCCCATGGTACATCATAT	0.438													126	232					0	0	1	0	0		A	209195290	A	A	209195290	3	1	73	1	0	0	0	0	1	0	0	0	11943	1261	44	4	3932	4	PIKFYVE	2	209195290	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3029959	209195290	34004083	201	47438											
ERBB4	2066	broad.mit.edu	37	chr2	212251706	212251706	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctactgtcctcttggacaTggggtgccactggcttgcgt	4	13	13	11	1	1	0	0	0	1	0	2	1	2	1	2	4	4	2	2	4	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:212251706T>C	uc002veg.1	-	27	3451	c.3353A>G	c.(3352-3354)CAT>CGT	p.H1118R	ERBB4_uc002veh.1_Missense_Mutation_p.H1102R|ERBB4_uc010zji.1_Missense_Mutation_p.H1108R|ERBB4_uc010zjj.1_Missense_Mutation_p.H1092R	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1118	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CTCTTGGACATGGGGTGCCAC	0.557										TSP Lung(8;0.080)			23	68					0	0	1	0	0		C	212251706	C	C	212251706	3	2	73	1	0	0	0	0	1	0	0	0	5217	1464	51	3	581	3	ERBB4	2	212251706	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	3056416	212251706	30947667	202	47439											
IKZF2	22807	broad.mit.edu	37	chr2	213872632	213872632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tataactggggccacttcagCgattgtgcttggcgggtgct	6	12	14	9	2	1	0	1	0	0	0	1	1	1	0	1	4	4	2	1	4	2	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:213872632C>T	uc002vem.2	-	8	1202	c.1033G>A	c.(1033-1035)GCT>ACT	p.A345T	IKZF2_uc010fuu.2_Missense_Mutation_p.A200T|IKZF2_uc002vej.2_Missense_Mutation_p.A292T|IKZF2_uc002vek.2_RNA|IKZF2_uc010fuv.2_Missense_Mutation_p.A271T|IKZF2_uc002vel.2_Missense_Mutation_p.A266T|IKZF2_uc010fuw.2_Missense_Mutation_p.A119T|IKZF2_uc010fux.2_Missense_Mutation_p.A119T|IKZF2_uc010fuy.2_Missense_Mutation_p.A273T|IKZF2_uc002ven.2_Missense_Mutation_p.A319T|IKZF2_uc002vei.2_Missense_Mutation_p.A123T	NM_016260	NP_057344	Q9UKS7	IKZF2_HUMAN	helios isoform 1	345					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		GCCACTTCAGCGATTGTGCTT	0.478													12	37					0	0	1	0	0		T	213872632	T	T	213872632	3	4	73	1	0	0	0	0	1	0	0	0	7631	768	27	1	551	1	IKZF2	2	213872632	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1620926	213872632	29326741	203	47440											
TNS1	7145	broad.mit.edu	37	chr2	218762539	218762539	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaggtagttgcctccatgTttggacttgagcatctgcgc	7	12	11	11	1	1	1	0	1	1	0	2	2	2	2	3	2	3	4	3	2	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:218762539T>C	uc002vgt.2	-	6	548	c.150A>G	c.(148-150)AAA>AAG	p.K50K	TNS1_uc002vgr.2_Silent_p.K50K|TNS1_uc002vgs.2_Silent_p.K50K|TNS1_uc010zjv.1_Silent_p.K50K|TNS1_uc010fvj.1_Silent_p.K118K|TNS1_uc010fvk.1_Silent_p.K175K|TNS1_uc002vgu.3_Silent_p.K81K|TNS1_uc002vgv.1_RNA	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	50	Phosphatase tensin-type.					cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		TGCCTCCATGTTTGGACTTGA	0.562													12	43					0	0	1	0	0		C	218762539	C	C	218762539	2	2	73	1	0	0	0	0	0	0	0	1	16368	1722	60	3		3	TNS1	2	218762539	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4889907	218762539	24436834	204	47441											
CXCR1	3577	broad.mit.edu	37	chr2	219029127	219029127	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctcctggatcacctgggTcctcatgagggtgtctgcca	5	11	12	13	0	4	1	2	1	2	0	6	2	5	2	4	3	1	1	4	3	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:219029127T>C	uc002vhc.2	-	2	927	c.808A>G	c.(808-810)ACC>GCC	p.T270A		NM_000634	NP_000625	P25024	CXCR1_HUMAN	interleukin 8 receptor alpha	270	Extracellular (Potential).				dendritic cell chemotaxis|inflammatory response	integral to membrane|plasma membrane	interleukin-8 receptor activity			lung(2)	2						ATCACCTGGGTCCTCATGAGG	0.587													40	72					0	0	1	0	0		C	219029127	C	C	219029127	3	2	73	1	0	0	0	0	1	0	0	0	4093	1667	58	3	248	3	CXCR1	2	219029127	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	266588	219029127	24170246	205	47442											
USP37	57695	broad.mit.edu	37	chr2	219411727	219411727	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattccacttcctgctacagTcttaatcgatcctctacccg	8	14	4	15	2	2	0	0	0	2	0	6	1	5	0	4	0	3	1	4	0	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:219411727T>C	uc002vie.2	-	7	970	c.517A>G	c.(517-519)ACT>GCT	p.T173A	USP37_uc010fvs.1_Missense_Mutation_p.T173A|USP37_uc010zkf.1_Missense_Mutation_p.T173A|USP37_uc002vif.2_Missense_Mutation_p.T173A|USP37_uc002vig.2_Missense_Mutation_p.T101A|USP37_uc010zkg.1_Missense_Mutation_p.T173A	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	173					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		CCTGCTACAGTCTTAATCGAT	0.393													35	51					0	0	1	0	0		C	219411727	C	C	219411727	3	2	73	1	0	0	0	0	1	0	0	0	17094	1667	58	3	2502	3	USP37	2	219411727	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	382600	219411727	23787646	206	47443											
RQCD1	9125	broad.mit.edu	37	chr2	219445338	219445338	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagatctatcagtggatcAatgagctgtccagtcctgag	13	10	10	8	0	3	3	2	2	1	1	5	4	5	4	2	1	1	1	2	1	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:219445338A>G	uc010zkh.1	+	2	79	c.79A>G	c.(79-81)AAT>GAT	p.N27D	RQCD1_uc002vih.1_Missense_Mutation_p.N27D|RQCD1_uc010zki.1_Missense_Mutation_p.N27D	NM_005444	NP_005435	Q92600	RCD1_HUMAN	RCD1 required for cell differentiation1 homolog	27					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|sex differentiation|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(1)|skin(1)	2		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000192)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCAGTGGATCAATGAGCTGTC	0.428													19	54					0	0	1	0	0		G	219445338	G	G	219445338	3	3	73	1	0	0	0	0	1	0	0	0	13695	130	5	3	85	3	RQCD1	2	219445338	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	33611	219445338	23754035	207	47444											
ZNF142	7701	broad.mit.edu	37	chr2	219508243	219508243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggactgggtcaaggtggTgcttcttaggggcctccgtg	5	10	18	8	1	2	0	1	0	1	0	3	2	3	1	2	6	1	1	2	6	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:219508243T>C	uc002vin.2	-	8	3432	c.2996A>G	c.(2995-2997)CAC>CGC	p.H999R	ZNF142_uc002vil.2_Missense_Mutation_p.H960R|ZNF142_uc010fvt.2_Missense_Mutation_p.H836R|ZNF142_uc002vim.2_Missense_Mutation_p.H836R	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	999					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		GTCAAGGTGGTGCTTCTTAGG	0.592													26	73					0	0	1	0	0		C	219508243	C	C	219508243	3	2	73	1	0	0	0	0	1	0	0	0	17756	1696	59	3	2079	3	ZNF142	2	219508243	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	62905	219508243	23691130	208	47445											
IRS1	3667	broad.mit.edu	37	chr2	227660074	227660074	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgctgctaccgccaccGccccctactgctgcccccgc	3	7	8	23	3	0	0	0	0	0	0	0	0	0	0	7	0	7	4	7	0	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:227660074G>A	uc002voh.3	-	1	3433	c.3381C>T	c.(3379-3381)GGC>GGT	p.G1127G		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	1127					fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		TACCGCCACCGCCCCCTACTG	0.652													23	44					0	0	1	0	0		A	227660074	A	A	227660074	2	1	73	1	0	0	0	0	0	0	0	1	7856	1074	38	1		1	IRS1	2	227660074	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	8151831	227660074	15539299	209	47446											
COL4A4	1286	broad.mit.edu	37	chr2	227920728	227920728	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggattcctgggaggcctggGggaccatgtgccccaggccg	5	6	18	12	1	0	0	0	0	0	0	1	3	1	3	6	6	1	0	6	6	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:227920728G>A	uc010zlt.1	-	30	3303	c.2649C>T	c.(2647-2649)CCC>CCT	p.P883P		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	883	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		GGAGGCCTGGGGGACCATGTG	0.627													18	31					0	0	1	0	0		A	227920728	A	A	227920728	2	1	73	1	0	0	0	0	0	0	0	1	3696	1219	43	4		4	COL4A4	2	227920728	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	260654	227920728	15278645	210	47447											
ARMC9	80210	broad.mit.edu	37	chr2	232091513	232091513	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatggacaaagtaacaaaggTaaatcatctagatttaaatt	20	11	6	4	0	2	1	1	0	1	1	2	2	2	2	0	2	1	2	0	2	9	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:232091513T>C	uc002vrq.3	+	7	734	c.622_splice	c.e7+2	p.E208_splice	ARMC9_uc002vrp.3_Splice_Site_p.E208_splice	NM_025139	NP_079415	Q7Z3E5	ARMC9_HUMAN	armadillo repeat containing 9								binding			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0744)|all_hematologic(139;0.0749)|Acute lymphoblastic leukemia(138;0.167)|Medulloblastoma(418;0.184)|Lung NSC(271;0.205)		Epithelial(121;1.43e-10)|LUSC - Lung squamous cell carcinoma(224;0.017)|Lung(119;0.0189)		GTAACAAAGGTAAATCATCTA	0.403													17	48					0	0	1	0	0		C	232091513	C	C	232091513	5	2	73	1	0	0	0	0	0	0	1	0	959	1652	57	3	646	3	ARMC9	2	232091513	Splice_Site	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4170785	232091513	11107860	211	47448											
NCL	4691	broad.mit.edu	37	chr2	232325259	232325259	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttctttcgttttccaggTgcttctttgacaggctctgg	3	18	9	11	1	3	1	0	1	3	0	6	1	5	1	2	3	1	3	2	3	0	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:232325259T>C	uc002vru.2	-	5	969	c.828A>G	c.(826-828)GCA>GCG	p.A276A	SNORD82_uc010fxw.1_5'Flank	NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	276					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		GTTTTCCAGGTGCTTCTTTGA	0.433													54	107					0	0	1	0	0		C	232325259	C	C	232325259	2	2	73	1	0	0	0	0	0	0	0	1	10245	1683	59	3		3	NCL	2	232325259	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	233746	232325259	10874114	212	47449											
DIS3L2	129563	broad.mit.edu	37	chr2	233199154	233199154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaacgaccgccgcatggCgtccaagcgcgtgcaggagc	8	5	14	14	6	0	0	0	0	0	0	1	2	1	1	3	2	4	3	3	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:233199154C>T	uc010fxz.2	+	18	2510	c.2234C>T	c.(2233-2235)GCG>GTG	p.A745V	DIS3L2_uc002vsm.3_RNA|DIS3L2_uc002vso.2_RNA|DIS3L2_uc002vsp.1_5'Flank	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.	745							exonuclease activity|ribonuclease activity|RNA binding			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(139;0.00809)|Renal(207;0.0113)|Acute lymphoblastic leukemia(138;0.0195)|all_lung(227;0.0465)|Lung NSC(271;0.136)		Epithelial(121;1.6e-13)|BRCA - Breast invasive adenocarcinoma(100;0.00104)|LUSC - Lung squamous cell carcinoma(224;0.0109)|Lung(119;0.0149)		CGCCGCATGGCGTCCAAGCGC	0.622													9	31					0	0	1	0	0		T	233199154	T	T	233199154	3	4	73	1	0	0	0	0	1	0	0	0	4543	768	27	1	2300	1	DIS3L2	2	233199154	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	873895	233199154	10000219	213	47450											
ALPP	250	broad.mit.edu	37	chr2	233244487	233244487	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttagggaagtcagtgggAgtggtaaccaccacacgagt	11	7	13	10	1	1	0	1	0	0	0	1	3	1	2	3	3	1	1	3	3	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:233244487A>C	uc002vsq.2	+	5	663	c.498A>C	c.(496-498)GGA>GGC	p.G166G	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	166						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		AGTCAGTGGGAGTGGTAACCA	0.632													10	32					0	0	1	0	0		C	233244487	C	C	233244487	2	2	73	1	0	0	0	0	0	0	0	1	548	291	11	5		5	ALPP	2	233244487	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	45333	233244487	9954886	214	47451											
COL6A3	1293	broad.mit.edu	37	chr2	238249716	238249716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccatgtcgatgtccacatCgctccctgccgctctcctgt	5	11	8	17	3	1	0	0	0	1	0	6	1	3	0	5	0	2	2	5	0	0	0	rs145884404		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:238249716C>T	uc002vwl.2	-	38	8128	c.7843G>A	c.(7843-7845)GAT>AAT	p.D2615N	COL6A3_uc002vwo.2_Missense_Mutation_p.D2409N|COL6A3_uc010znj.1_Missense_Mutation_p.D2008N|COL6A3_uc002vwj.2_5'UTR	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2615	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		ATGTCCACATCGCTCCCTGCC	0.522													62	97					0	0	1	0	0		T	238249716	T	T	238249716	3	4	73	1	0	0	0	0	1	0	0	0	3704	884	31	1	1718	1	COL6A3	2	238249716	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5005229	238249716	4949657	215	47452											
C2orf54	79919	broad.mit.edu	37	chr2	241835242	241835242	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgggagtagtccacgAtgaagcgggggtccagggca	9	4	18	10	3	0	1	0	1	0	0	2	3	2	2	3	5	1	2	3	5	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:241835242A>C	uc002wae.3	-	1	332	c.173T>G	c.(172-174)ATC>AGC	p.I58S		NM_001085437	NP_001078906	Q08AI8	CB054_HUMAN	hypothetical protein LOC79919 isoform 1	58											0		all_epithelial(40;3.99e-16)|Breast(86;2.35e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|Lung NSC(271;0.094)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;8.14e-32)|all cancers(36;4.77e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;4.88e-06)|Lung(119;0.000452)|LUSC - Lung squamous cell carcinoma(224;0.00415)|Colorectal(34;0.021)|COAD - Colon adenocarcinoma(134;0.15)		GTAGTCCACGATGAAGCGGGG	0.682													12	28					0	0	1	0	0		C	241835242	C	C	241835242	3	2	73	1	0	0	0	0	1	0	0	0	2178	333	12	5	1204	5	C2orf54	2	241835242	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3585526	241835242	1364131	216	47453											
SNED1	25992	broad.mit.edu	37	chr2	241969712	241969712	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcccaggtgaacaacaaCgggatcatctccttcctgaa	11	8	8	14	1	2	2	1	2	1	0	5	3	4	3	4	2	3	0	4	2	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr2:241969712C>T	uc002wah.1	+	2	225	c.225C>T	c.(223-225)AAC>AAT	p.N75N		NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	75					cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		TGAACAACAACGGGATCATCT	0.647													6	3					0	0	1	0	0		T	241969712	T	T	241969712	2	4	73	1	0	0	0	0	0	0	0	1	14870	535	19	1		1	SNED1	2	241969712	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	134470	241969712	1229661	217	47454											
TRNT1	51095	broad.mit.edu	37	chr3	3188232	3188232	+	Frame_Shift_Del	DEL	A	-	-																															aaaggatttgggtggaactgAaaaaaattcttgttggtaac																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:3188232delA	uc003bpp.3	+	6	829	c.727delA	c.(727-729)AAAfs	p.K243fs	TRNT1_uc010hbv.2_Frame_Shift_Del_p.K243fs|TRNT1_uc003bpm.2_RNA	NM_182916	NP_886552	Q96Q11	TRNT1_HUMAN	tRNA nucleotidyl transferase, CCA-adding, 1	243					protein targeting to mitochondrion|tRNA 3'-end processing	mitochondrion	ATP binding|tRNA adenylyltransferase activity|tRNA binding				0				Epithelial(13;0.00226)|OV - Ovarian serous cystadenocarcinoma(96;0.00592)|all cancers(10;0.011)		GGTGGAACTGAAAAAAATTCT	0.383													31	53	---	---	---	---						.	-	3188232	-	-	3188232	7	5	73	1	0	1	0	1	0	0	0	0	16599	247	9	0	745	0	TRNT1	3	3188232	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08		3188232	194834198	218	47455											
EDEM1	9695	broad.mit.edu	37	chr3	5244703	5244703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caataatgagacatgcacagCgggagccggttccctcctgg	10	7	12	12	2	0	1	0	1	0	1	2	3	2	2	3	3	3	2	3	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:5244703C>T	uc003bqi.2	+	5	1043	c.911C>T	c.(910-912)GCG>GTG	p.A304V	EDEM1_uc011asz.1_Missense_Mutation_p.A82V|EDEM1_uc003bqh.2_Missense_Mutation_p.A304V	NM_014674	NP_055489	Q92611	EDEM1_HUMAN	ER degradation enhancer, mannosidase alpha-like	304	Lumenal (Potential).				ER-associated protein catabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	integral to endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			ovary(2)|breast(1)	3				Epithelial(13;0.0588)|OV - Ovarian serous cystadenocarcinoma(96;0.0682)		ACATGCACAGCGGGAGCCGGT	0.527													53	79					0	0	1	0	0		T	5244703	T	T	5244703	3	4	73	1	0	0	0	0	1	0	0	0	4917	768	27	1	929	1	EDEM1	3	5244703	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2056471	5244703	192777727	219	47456											
LHFPL4	375323	broad.mit.edu	37	chr3	9547804	9547804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcccccagggagtacttccCcgtcttggccccacacatgt	6	9	9	17	1	1	0	0	0	1	0	3	1	3	1	6	2	1	1	6	2	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:9547804C>T	uc003bry.2	-	3	776	c.490G>A	c.(490-492)GGG>AGG	p.G164R		NM_198560	NP_940962	Q7Z7J7	LHPL4_HUMAN	lipoma HMGIC fusion partner-like 4	164						integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)					GAGTACTTCCCCGTCTTGGCC	0.617													22	53					0	0	1	0	0		T	9547804	T	T	9547804	3	4	73	1	0	0	0	0	1	0	0	0	8783	623	22	4	261	4	LHFPL4	3	9547804	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4303101	9547804	188474626	220	47457											
FANCD2	2177	broad.mit.edu	37	chr3	10084268	10084268	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttggtgatggataagtTgtcgtctattagattggagg	9	14	14	4	1	1	2	0	1	1	1	2	4	1	4	1	4	0	2	1	4	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:10084268T>C	uc003buw.2	+	11	887	c.809T>C	c.(808-810)TTG>TCG	p.L270S	FANCD2_uc003bux.1_Missense_Mutation_p.L270S|FANCD2_uc003buy.1_Missense_Mutation_p.L270S	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	270	Interaction with FANCE.|Interaction with BRCA2.				DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		ATGGATAAGTTGTCGTCTATT	0.358			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				15	179					0	0	1	0	0		C	10084268	C	C	10084268	3	2	73	1	0	0	0	0	1	0	0	0	5679	1821	63	3	847	3	FANCD2	3	10084268	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	536464	10084268	187938162	221	47458											
CAPN7	23473	broad.mit.edu	37	chr3	15283047	15283047	+	Frame_Shift_Del	DEL	G	-	-																															ctggaggtgcagtgtccacaGgggggtgctgcagtttgggt																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:15283047delG	uc003bzn.2	+	15	2010	c.1740delG	c.(1738-1740)CAGfs	p.Q580fs		NM_014296	NP_055111	Q9Y6W3	CAN7_HUMAN	calpain 7	580	Domain III.				proteolysis	nucleus	calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1						AGTGTCCACAGGGGGGTGCTG	0.428													26	57	---	---	---	---						.	-	15283047	-	-	15283047	7	5	73	1	0	1	0	1	0	0	0	0	2634	991	35	0	1798	0	CAPN7	3	15283047	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	5198779	15283047	182739383	222	47459											
DAZL	1618	broad.mit.edu	37	chr3	16638359	16638359	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgtggtggaggaggatgAttaaaaaccaaaggacgtgg	15	7	15	4	1	0	1	0	1	0	0	0	5	0	5	1	6	2	0	1	6	5	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:16638359A>G	uc003cbb.2	-	6	690	c.396T>C	c.(394-396)AAT>AAC	p.N132N	DAZL_uc003cba.2_Silent_p.N152N	NM_001351	NP_001342	Q92904	DAZL_HUMAN	deleted in azoospermia-like	132	Homodimerization (By similarity).				germ cell development|multicellular organismal development|positive regulation of translational initiation|spermatogenesis	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding|translation activator activity				0						GAGGAGGATGATTAAAAACCA	0.378													40	81					0	0	1	0	0		G	16638359	G	G	16638359	2	3	73	1	0	0	0	0	0	0	0	1	4249	330	12	3		3	DAZL	3	16638359	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1355312	16638359	181384071	223	47460											
ZNF385D	79750	broad.mit.edu	37	chr3	21467097	21467097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcctttgcctttcactcctgCcctaggaaaggctttgatag	7	14	8	12	0	1	1	1	1	0	0	3	2	3	2	4	2	2	1	4	2	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:21467097C>T	uc003cce.2	-	6	1147	c.739G>A	c.(739-741)GCA>ACA	p.A247T		NM_024697	NP_078973	Q9H6B1	Z385D_HUMAN	zinc finger protein 385D	247						nucleus	nucleic acid binding|zinc ion binding			large_intestine(2)|skin(2)|ovary(1)	5						TTCACTCCTGCCCTAGGAAAG	0.398													22	45					0	0	1	0	0		T	21467097	T	T	21467097	3	4	73	1	0	0	0	0	1	0	0	0	17903	739	26	2	460	2	ZNF385D	3	21467097	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4828738	21467097	176555333	224	47461											
SLC4A7	9497	broad.mit.edu	37	chr3	27427494	27427494	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggtccatgagtttgcgCacaaacactaatgcaagaac	15	7	8	11	1	0	2	0	1	0	1	1	2	1	2	1	1	4	3	1	1	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:27427494C>T	uc003cdv.2	-	23	3425	c.3354G>A	c.(3352-3354)GTG>GTA	p.V1118V	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Silent_p.V999V|SLC4A7_uc011aww.1_Silent_p.V1127V|SLC4A7_uc011awx.1_Silent_p.V1114V|SLC4A7_uc011awy.1_Silent_p.V1110V|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Silent_p.V999V|SLC4A7_uc011axb.1_Silent_p.V1114V|SLC4A7_uc010hfl.2_Silent_p.V668V|SLC4A7_uc003cdw.2_Silent_p.V994V	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	1118	Cytoplasmic (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						TGAGTTTGCGCACAAACACTA	0.284													41	76					0	0	1	0	0		T	27427494	T	T	27427494	2	4	73	1	0	0	0	0	0	0	0	1	14683	697	25	2		2	SLC4A7	3	27427494	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5960397	27427494	170594936	225	47462											
OSBPL10	114884	broad.mit.edu	37	chr3	31774766	31774766	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctctggctctggctgtgAggtttgttcgtcttcagcag	4	15	12	10	1	4	1	1	1	3	0	5	1	4	1	1	3	2	5	1	3	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:31774766A>C	uc003cev.2	-	7	1459	c.1078T>G	c.(1078-1080)TCA>GCA	p.S360A	OSBPL10_uc003ceu.1_Missense_Mutation_p.S117A|OSBPL10_uc011axf.1_Missense_Mutation_p.S296A	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	360					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		TCTGGCTGTGAGGTTTGTTCG	0.453													33	63					0	0	1	0	0		C	31774766	C	C	31774766	3	2	73	1	0	0	0	0	1	0	0	0	11294	304	11	5	1244	5	OSBPL10	3	31774766	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	4347272	31774766	166247664	226	47463											
ITGA9	3680	broad.mit.edu	37	chr3	37567542	37567542	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgttggagccttcatgtcCgacagcgtggttcttctcag	6	13	11	11	2	3	0	2	0	2	0	5	2	4	1	2	2	2	2	2	2	0	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:37567542C>T	uc003chd.2	+	13	1406	c.1353C>T	c.(1351-1353)TCC>TCT	p.S451S	ITGA9_uc003chc.2_Silent_p.S451S	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	451	Extracellular (Potential).|FG-GAP 7.				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		CCTTCATGTCCGACAGCGTGG	0.522													15	43					0	0	1	0	0		T	37567542	T	T	37567542	2	4	73	1	0	0	0	0	0	0	0	1	7899	639	23	1		1	ITGA9	3	37567542	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5792776	37567542	160454888	227	47464											
SCN11A	11280	broad.mit.edu	37	chr3	38966983	38966983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagtttgatggtgattcctGgaatatatgacacaatccta	13	14	8	6	0	0	3	0	3	0	0	2	4	2	4	2	2	0	1	2	2	6	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:38966983G>A	uc011ays.1	-	5	834	c.635C>T	c.(634-636)CCA>CTA	p.P212L		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	212	Helical; Name=S3 of repeat I; (By similarity).|I.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	GGTGATTCCTGGAATATATGA	0.468													18	41					0	0	1	0	0		A	38966983	A	A	38966983	3	1	73	1	0	0	0	0	1	0	0	0	13938	1348	47	4	4828	4	SCN11A	3	38966983	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1399441	38966983	159055447	228	47465											
TGM4	7047	broad.mit.edu	37	chr3	44943294	44943294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcatttcagtgctgagagCgttgggcatcccagcacgca	9	9	12	11	2	2	1	2	1	0	1	3	3	3	1	1	1	3	5	1	1	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:44943294C>T	uc003coc.3	+	8	915	c.842C>T	c.(841-843)GCG>GTG	p.A281V		NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)	281					peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	GTGCTGAGAGCGTTGGGCATC	0.582													10	33					0	0	1	0	0		T	44943294	T	T	44943294	3	4	73	1	0	0	0	0	1	0	0	0	15857	768	27	1	872	1	TGM4	3	44943294	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5976311	44943294	153079136	229	47466											
LARS2	23395	broad.mit.edu	37	chr3	45554625	45554625	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcctgtcatctttcctcAgggagccttttcataagctg	6	17	7	11	0	4	0	3	0	1	0	6	1	6	1	3	1	2	1	3	1	1	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:45554625A>C	uc003cop.1	+	16	1946	c.1761_splice	c.e16-2	p.R587_splice	LARS2_uc010hit.1_Splice_Site_p.R544_splice	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial						leucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|leucine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.0122)|KIRC - Kidney renal clear cell carcinoma(197;0.0313)|Kidney(197;0.0372)	L-Leucine(DB00149)	ATCTTTCCTCAGGGAGCCTTT	0.522													33	68					0	0	1	0	0		C	45554625	C	C	45554625	5	2	73	1	0	0	0	0	0	0	1	0	8651	202	7	5	1813	5	LARS2	3	45554625	Splice_Site	SNP	A	TCGA-BR-8372-01A-11D-2340-08	611331	45554625	152467805	230	47467											
SETD2	29072	broad.mit.edu	37	chr3	47098830	47098830	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagtcatagggcagtggTgatgtcattcccaggttctg	9	11	14	7	0	3	2	2	1	1	1	4	3	4	2	1	3	0	2	1	3	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:47098830T>C	uc003cqs.2	-	15	6497	c.6444A>G	c.(6442-6444)TCA>TCG	p.S2148S	SETD2_uc003cqv.2_Silent_p.S2215S|SETD2_uc003cqt.1_RNA	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	2148	Low charge region.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		AGGGCAGTGGTGATGTCATTC	0.517			N|F|S|Mis		clear cell renal carcinoma								15	135					0	0	1	0	0		C	47098830	C	C	47098830	2	2	73	1	0	0	0	0	0	0	0	1	14156	1683	59	3		3	SETD2	3	47098830	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1544205	47098830	150923600	231	47468											
PTPN23	25930	broad.mit.edu	37	chr3	47454481	47454482	+	Frame_Shift_Ins	INS	-	T	T																															agcccccagctcggggccccINScctcctcctccctggaattg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:47454481_47454482insT	uc003crf.1	+	25	4813_4814	c.4717_4718insT	c.(4717-4719)CCCfs	p.P1573fs	PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Frame_Shift_Ins_p.P1443fs|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1573	Pro-rich.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CTCGGGGCCCCCCTCCTCCTCC	0.649													9	15	---	---	---	---						.	T	47454482	T	T	47454481	7	5	73	1	0	1	1	0	0	0	0	0	12813	623	22	0	4815	0	PTPN23	3	47454481	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	355651	47454481	150567949	232	47469											
SMARCC1	6599	broad.mit.edu	37	chr3	47716999	47716999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttggagtaaatgtcagtaCggagaccaaagttctgcaaa	14	10	10	7	1	3	1	1	0	2	1	3	3	3	2	1	2	2	4	1	2	5	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:47716999C>T	uc003crq.2	-	18	1923	c.1805G>A	c.(1804-1806)CGT>CAT	p.R602H	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Missense_Mutation_p.R493H	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	602					chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		AATGTCAGTACGGAGACCAAA	0.363													13	24					0	0	1	0	0		T	47716999	T	T	47716999	3	4	73	1	0	0	0	0	1	0	0	0	14800	536	19	1	1556	1	SMARCC1	3	47716999	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	262518	47716999	150305431	233	47470											
DHX30	22907	broad.mit.edu	37	chr3	47887826	47887826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtctgctagaactgtggCggcggcgagggccggtctgg	6	7	19	9	4	2	2	0	0	2	2	2	3	2	2	1	6	2	1	1	6	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:47887826C>T	uc003cru.2	+	11	1690	c.1264C>T	c.(1264-1266)CGG>TGG	p.R422W	DHX30_uc003crt.2_Missense_Mutation_p.R383W	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	422						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		AGAACTGTGGCGGCGGCGAGG	0.632													39	67					0	0	1	0	0		T	47887826	T	T	47887826	3	4	73	1	0	0	0	0	1	0	0	0	4510	759	27	1	1309	1	DHX30	3	47887826	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	170827	47887826	150134604	234	47471											
P4HTM	54681	broad.mit.edu	37	chr3	49042356	49042356	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcgagccgctgcaggttgTtcgatatggtgaggggggcc	6	8	18	9	3	0	1	0	1	0	0	1	3	0	1	2	5	3	4	2	5	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:49042356T>C	uc003cvg.2	+	6	1299	c.950T>C	c.(949-951)GTT>GCT	p.V317A	P4HTM_uc003cvh.2_Missense_Mutation_p.V317A|WDR6_uc011bbx.1_5'Flank|WDR6_uc003cvj.2_5'Flank|WDR6_uc011bby.1_5'Flank|WDR6_uc010hkn.2_5'Flank|WDR6_uc011bbz.1_5'Flank	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	317	Lumenal (Potential).|Fe2OG dioxygenase.					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	CTGCAGGTTGTTCGATATGGT	0.637													30	41					0	0	1	0	0		C	49042356	C	C	49042356	3	2	73	1	0	0	0	0	1	0	0	0	11379	1725	60	3	972	3	P4HTM	3	49042356	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1154530	49042356	148980074	235	47472											
P4HTM	54681	broad.mit.edu	37	chr3	49042445	49042445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcccataccaagctggtaGccaacgagtctgtacccttc	9	9	8	15	1	1	0	0	0	1	0	3	1	2	0	4	1	5	4	4	1	5	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:49042445G>A	uc003cvg.2	+	6	1388	c.1039G>A	c.(1039-1041)GCC>ACC	p.A347T	P4HTM_uc003cvh.2_Missense_Mutation_p.A347T|WDR6_uc011bbx.1_5'Flank|WDR6_uc003cvj.2_5'Flank|WDR6_uc011bby.1_5'Flank|WDR6_uc010hkn.2_5'Flank|WDR6_uc011bbz.1_5'Flank	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	347	Lumenal (Potential).|Fe2OG dioxygenase.					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	CAAGCTGGTAGCCAACGAGTC	0.587													29	44					0	0	1	0	0		A	49042445	A	A	49042445	3	1	73	1	0	0	0	0	1	0	0	0	11379	971	34	2	1061	2	P4HTM	3	49042445	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	89	49042445	148979985	236	47473											
MST1	4485	broad.mit.edu	37	chr3	49724649	49724649	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgttgtgtagcaccaaggAcctccggggtcgccatcagg	7	9	13	12	2	2	0	1	0	1	0	4	1	3	1	4	4	1	3	4	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:49724649A>G	uc003cxg.2	-	5	612	c.540T>C	c.(538-540)GGT>GGC	p.G180G	MST1_uc011bcs.1_Silent_p.G180G|MST1_uc010hkx.2_Silent_p.G101G|MST1_uc011bct.1_Silent_p.G180G|MST1_uc011bcu.1_RNA|RNF123_uc003cxh.2_5'Flank	NM_020998	NP_066278	P26927	HGFL_HUMAN	macrophage stimulating 1 (hepatocyte growth	166	Kringle 1.				proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		AGCACCAAGGACCTCCGGGGT	0.612													12	32					0	0	1	0	0		G	49724649	G	G	49724649	2	3	73	1	0	0	0	0	0	0	0	1	9908	262	10	3		3	MST1	3	49724649	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	682204	49724649	148297781	237	47474											
UBA7	7318	broad.mit.edu	37	chr3	49846865	49846865	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggggacactgtttgggAcctgaccagaagggagttcc	8	8	16	9	0	0	2	0	1	0	1	1	5	1	5	3	5	0	3	3	5	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:49846865A>G	uc003cxr.2	-	17	2292	c.2121T>C	c.(2119-2121)GGT>GGC	p.G707G		NM_003335	NP_003326	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7	707					ISG15-protein conjugation|negative regulation of type I interferon production	cytosol	ATP binding|ISG15 activating enzyme activity|ligase activity			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		ACTGTTTGGGACCTGACCAGA	0.572													44	77					0	0	1	0	0		G	49846865	G	G	49846865	2	3	73	1	0	0	0	0	0	0	0	1	16859	262	10	3		3	UBA7	3	49846865	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	122216	49846865	148175565	238	47475											
RASSF1	11186	broad.mit.edu	37	chr3	50368024	50368024	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaagaggtcacccaaggggGcaggcgtgcagggcctcttg	9	5	16	11	1	2	1	1	0	1	1	2	1	2	1	2	5	1	2	2	5	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:50368024G>A	uc003dad.1	-	6	1154	c.1023C>T	c.(1021-1023)TGC>TGT	p.C341C	TUSC2_uc003czy.1_5'Flank|TUSC2_uc003czz.1_5'Flank|RASSF1_uc003daa.1_Silent_p.C186C|RASSF1_uc003dab.1_Silent_p.C267C|RASSF1_uc003dac.2_Silent_p.C186C|RASSF1_uc003dae.1_Silent_p.C337C|RASSF1_uc010hlk.1_RNA|RASSF1_uc003daf.1_Silent_p.C186C	NM_170714	NP_733832	Q9NS23	RASF1_HUMAN	Ras association domain family 1 isoform D	341	SARAH.				cell cycle arrest|negative regulation of cell cycle arrest|positive regulation of protein ubiquitination|protein stabilization|Ras protein signal transduction|response to DNA damage stimulus	microtubule|microtubule cytoskeleton|microtubule organizing center|nucleus|spindle pole	identical protein binding|protein binding|protein N-terminus binding|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000278)|OV - Ovarian serous cystadenocarcinoma(275;0.0015)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		ACCCAAGGGGGCAGGCGTGCA	0.632													7	76					0	0	1	0	0		A	50368024	A	A	50368024	2	1	73	1	0	0	0	0	0	0	0	1	13109	1195	42	2		2	RASSF1	3	50368024	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	521159	50368024	147654406	239	47476											
PARP3	10039	broad.mit.edu	37	chr3	51978458	51978458	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaaggctagaagatgcaaAgaaggactttgagaagaaat	19	6	11	5	0	0	5	0	1	0	5	0	7	0	6	0	2	1	2	0	2	7	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:51978458A>G	uc003dby.2	+	4	736	c.365A>G	c.(364-366)AAG>AGG	p.K122R	RRP9_uc003dbw.1_5'Flank|PARP3_uc003dbz.2_Missense_Mutation_p.K129R	NM_005485	NP_005476	Q9Y6F1	PARP3_HUMAN	poly (ADP-ribose) polymerase family, member 3	122					DNA repair|protein ADP-ribosylation	centriole|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GAAGATGCAAAGAAGGACTTT	0.507													34	92					0	0	1	0	0		G	51978458	G	G	51978458	3	3	73	1	0	0	0	0	1	0	0	0	11481	72	3	3	400	3	PARP3	3	51978458	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1610434	51978458	146043972	240	47477											
DNAH1	25981	broad.mit.edu	37	chr3	52433185	52433185	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttgcccgcaaatttgtcAtctccattgacaccatctcc	9	14	4	14	1	3	1	1	1	2	0	5	1	3	1	4	0	1	1	4	0	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:52433185A>G	uc011bef.1	+	76	12670	c.12409A>G	c.(12409-12411)ATC>GTC	p.I4137V	DNAH1_uc003ddv.2_Missense_Mutation_p.I995V	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	4202					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CAAATTTGTCATCTCCATTGA	0.532													155	252					0	0	1	0	0		G	52433185	G	G	52433185	3	3	73	1	0	0	0	0	1	0	0	0	4603	217	8	3	12707	3	DNAH1	3	52433185	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	454727	52433185	145589245	241	47478											
NT5DC2	64943	broad.mit.edu	37	chr3	52561640	52561640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accatgcccatacttgcgccGgtcagtgaagaagctgggct	9	8	12	12	2	1	2	1	1	0	1	1	2	1	2	3	2	4	2	3	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:52561640G>A	uc003deo.2	-	9	1343	c.919C>T	c.(919-921)CGG>TGG	p.R307W	NT5DC2_uc003dem.2_Missense_Mutation_p.R177W|NT5DC2_uc003den.2_Missense_Mutation_p.R344W|NT5DC2_uc010hmi.2_Missense_Mutation_p.R319W|NT5DC2_uc010hmj.2_Missense_Mutation_p.R123W	NM_022908	NP_075059	Q9H857	NT5D2_HUMAN	5'-nucleotidase domain containing 2 isoform 2	307							hydrolase activity|metal ion binding				0				BRCA - Breast invasive adenocarcinoma(193;1.7e-05)|Kidney(197;0.00177)|KIRC - Kidney renal clear cell carcinoma(197;0.002)|OV - Ovarian serous cystadenocarcinoma(275;0.0476)		TACTTGCGCCGGTCAGTGAAG	0.617													13	20					0	0	1	0	0		A	52561640	A	A	52561640	3	1	73	1	0	0	0	0	1	0	0	0	10710	1115	39	1	667	1	NT5DC2	3	52561640	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	128455	52561640	145460790	242	47479											
RFT1	91869	broad.mit.edu	37	chr3	53145912	53145912	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagtttagcctctttccAgtttataaacgcctagaaga	12	13	7	9	1	2	2	1	0	1	2	3	2	3	2	3	0	2	2	3	0	6	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:53145912A>C	uc003dgj.2	-	7	763	c.709T>G	c.(709-711)TGG>GGG	p.W237G	RFT1_uc003dgk.2_Missense_Mutation_p.W198G	NM_052859	NP_443091	Q96AA3	RFT1_HUMAN	RFT1 homolog	237					carbohydrate transport|dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane	lipid transporter activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(193;6.98e-05)|Kidney(197;0.0017)|KIRC - Kidney renal clear cell carcinoma(197;0.00192)|OV - Ovarian serous cystadenocarcinoma(275;0.104)		GCCTCTTTCCAGTTTATAAAC	0.398													25	91					0	0	1	0	0		C	53145912	C	C	53145912	3	2	73	1	0	0	0	0	1	0	0	0	13282	188	7	5	944	5	RFT1	3	53145912	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	584272	53145912	144876518	243	47480											
ERC2	26059	broad.mit.edu	37	chr3	55768913	55768913	+	Frame_Shift_Del	DEL	T	-	-																															agcaaggcaatgtttgcatcTttttcactgatggctgcaag																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:55768913delT	uc003dhr.1	-	15	2854	c.2598delA	c.(2596-2598)AAAfs	p.K866fs	ERC2_uc003dhq.1_RNA|ERC2_uc003dht.1_Frame_Shift_Del_p.K345fs	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	866	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		TGTTTGCATCTTTTTCACTGA	0.373													7	9	---	---	---	---						.	-	55768913	-	-	55768913	7	5	73	1	0	1	0	1	0	0	0	0	5219	1606	56	0	287	0	ERC2	3	55768913	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	2623001	55768913	142253517	244	47481											
LRIG1	26018	broad.mit.edu	37	chr3	66467669	66467669	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagctggctcccctccacGctgcgaatcttgttgtgctg	4	13	10	14	2	2	0	1	0	1	0	4	1	4	0	3	1	3	5	3	1	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:66467669G>A	uc003dmx.2	-	4	401	c.387C>T	c.(385-387)AGC>AGT	p.S129S	LRIG1_uc010hnz.2_5'UTR|LRIG1_uc010hoa.2_Silent_p.S129S	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	129	Extracellular (Potential).|LRR 3.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		TCCCCTCCACGCTGCGAATCT	0.488													76	126					0	0	1	0	0		A	66467669	A	A	66467669	2	1	73	1	0	0	0	0	0	0	0	1	8962	1078	38	1		1	LRIG1	3	66467669	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	10698756	66467669	131554761	245	47482											
ROBO1	6091	broad.mit.edu	37	chr3	78766489	78766489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtacagggtcacctcgggCctcacatttaaattctgcac	10	10	9	12	1	3	0	2	0	1	0	4	0	3	0	2	3	2	2	2	3	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:78766489C>T	uc003dqe.2	-	7	1061	c.853G>A	c.(853-855)GCC>ACC	p.A285T	ROBO1_uc003dqb.2_Missense_Mutation_p.A246T|ROBO1_uc003dqc.2_Missense_Mutation_p.A246T|ROBO1_uc003dqd.2_Missense_Mutation_p.A246T|ROBO1_uc003dqf.1_5'Flank	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	285	Extracellular (Potential).|Ig-like C2-type 3.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TCACCTCGGGCCTCACATTTA	0.423													58	93					0	0	1	0	0		T	78766489	T	T	78766489	3	4	73	1	0	0	0	0	1	0	0	0	13538	739	26	2	4215	2	ROBO1	3	78766489	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	12298820	78766489	119255941	246	47483											
FILIP1L	11259	broad.mit.edu	37	chr3	99568802	99568802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttcctttctcttcttccGctttcaatttgttttttaaa	6	23	2	10	1	3	0	1	0	2	0	6	0	5	0	2	0	0	2	2	0	3	9			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:99568802G>A	uc003dtm.2	-	5	2181	c.1718C>T	c.(1717-1719)GCG>GTG	p.A573V	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.A573V|FILIP1L_uc010hpf.2_Missense_Mutation_p.A149V|FILIP1L_uc010hpg.2_Missense_Mutation_p.A333V|FILIP1L_uc003dtn.2_Missense_Mutation_p.A333V|FILIP1L_uc003dtp.1_Missense_Mutation_p.A333V	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	573	Potential.					cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						CTCTTCTTCCGCTTTCAATTT	0.348													34	65					0	0	1	0	0		A	99568802	A	A	99568802	3	1	73	1	0	0	0	0	1	0	0	0	5909	1087	38	1	1718	1	FILIP1L	3	99568802	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	20802313	99568802	98453628	247	47484											
FILIP1L	11259	broad.mit.edu	37	chr3	99569758	99569758	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggattttctgtctttgaagGgtgagctgtgccgtcagcct	5	15	13	8	1	3	2	1	2	2	0	3	3	3	3	2	2	3	1	2	2	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:99569758G>T	uc003dtm.2	-	5	1225	c.762C>A	c.(760-762)ACC>ACA	p.T254T	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Silent_p.T254T|FILIP1L_uc010hpf.2_Intron|FILIP1L_uc010hpg.2_Silent_p.T14T|FILIP1L_uc003dtn.2_Silent_p.T14T|FILIP1L_uc003dtp.1_Silent_p.T14T	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	254	Potential.					cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						GTCTTTGAAGGGTGAGCTGTG	0.493													40	145					2.86225e-05	2.93896e-05	1	1	0		T	99569758	T	T	99569758	2	4	73	1	0	0	0	0	0	0	0	1	5909	1219	43	5		5	FILIP1L	3	99569758	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	956	99569758	98452672	248	47485											
RPL24	6152	broad.mit.edu	37	chr3	101399981	101399981	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatctaatctgccagtttAgcgttttccaccaactcggg	11	12	7	11	2	2	0	0	0	2	0	4	0	3	0	3	1	3	2	3	1	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:101399981A>G	uc003dvh.1	-	6	515	c.472T>C	c.(472-474)TAA>CAA	p.*158Q	RPL24_uc003dvi.1_3'UTR	NM_000986	NP_000977	P83731	RL24_HUMAN	ribosomal protein L24	158					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0						CTGCCAGTTTAGCGTTTTCCA	0.378													24	108					0	0	1	0	0		G	101399981	G	G	101399981	4	3	73	1	0	0	0	0	0	0	0	0	13597	433	15	3	5	3	RPL24	3	101399981	Nonstop_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1830223	101399981	96622449	249	47486											
ADCY5	111	broad.mit.edu	37	chr3	123167214	123167215	+	Frame_Shift_Ins	INS	-	C	C																															ctgctgctgcggggtcaccgINScccccccgggtttcttggtg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:123167214_123167215insC	uc003egh.1	-	1	178_179	c.178_179insG	c.(178-180)GCGfs	p.A60fs		NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	60	Cytoplasmic (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		CGGGGTCACCGCCCCCCCGGGT	0.738													4	2	---	---	---	---						.	C	123167215	C	C	123167214	7	5	73	1	0	1	1	0	0	0	0	0	297	1087	38	0	3690	0	ADCY5	3	123167214	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	21767233	123167214	74855216	250	47487											
PLXNA1	5361	broad.mit.edu	37	chr3	126733136	126733136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgctgctccctgcgacAccactgcgctgccgacacac	6	5	10	20	5	0	0	0	0	0	0	1	2	1	0	4	0	4	3	4	0	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:126733136A>G	uc003ejg.2	+	11	2457	c.2453A>G	c.(2452-2454)CAC>CGC	p.H818R		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	841	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TCCCTGCGACACCACTGCGCT	0.706													4	5					0	0	1	0	0		G	126733136	G	G	126733136	3	3	73	1	0	0	0	0	1	0	0	0	12138	159	6	3	2564	3	PLXNA1	3	126733136	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3565922	126733136	71289294	251	47488											
PLXNA1	5361	broad.mit.edu	37	chr3	126741635	126741635	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgctaactaactggttcAccttcctcttgtataagttc	10	15	6	10	0	2	1	1	0	1	1	4	1	3	1	2	1	3	4	2	1	4	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:126741635A>G	uc003ejg.2	+	22	4271	c.4267A>G	c.(4267-4269)ACC>GCC	p.T1423A		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1446	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TAACTGGTTCACCTTCCTCTT	0.562													34	92					0	0	1	0	0		G	126741635	G	G	126741635	3	3	73	1	0	0	0	0	1	0	0	0	12138	159	6	3	4422	3	PLXNA1	3	126741635	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	8499	126741635	71280795	252	47489											
RUVBL1	8607	broad.mit.edu	37	chr3	127783899	127783899	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtgtgtccagatccaaccCcagggagtttccatggtctg	8	10	12	11	0	1	1	0	0	1	1	4	2	4	2	5	3	1	1	5	3	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:127783899C>A	uc003eke.2	-	5	668	c.404G>T	c.(403-405)GGG>GTG	p.G135V	RUVBL1_uc003ekf.2_3'UTR|SEC61A1_uc003ekb.2_Intron|SEC61A1_uc003ekc.2_Intron|SEC61A1_uc003ekd.2_Intron|SEC61A1_uc003ekg.2_5'UTR	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1	Error:Variant_position_missing_in_Q9Y265_after_alignment					cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		AGATCCAACCCCAGGGAGTTT	0.493													26	80					4.4004e-07	4.59612e-07	1	1	0		A	127783899	A	A	127783899	3	1	73	1	0	0	0	0	1	0	0	0	13777	638	22	5		5	RUVBL1	3	127783899	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1042264	127783899	70238531	253	47490											
EEFSEC	60678	broad.mit.edu	37	chr3	128060202	128060203	+	Frame_Shift_Ins	INS	-	C	C																															ggagcgcgggttggtgtgtgINScccccgagtccctgcacact																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:128060202_128060203insC	uc003eki.2	+	5	951_952	c.913_914insC	c.(913-915)GCCfs	p.A305fs	EEFSEC_uc003ekj.2_Frame_Shift_Ins_p.A250fs	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,	305						cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						GTTGGTGTGTGCCCCCGAGTCC	0.584													24	47	---	---	---	---						.	C	128060203	C	C	128060202	7	5	73	1	0	1	1	0	0	0	0	0	4937	1319	46	0	931	0	EEFSEC	3	128060202	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	276303	128060202	69962228	254	47491											
COPG	22820	broad.mit.edu	37	chr3	128979638	128979638	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccttcatgtcagaaatctcGgatgaattcaaggtacctgc	11	12	8	10	1	4	2	3	1	1	1	6	3	5	3	2	2	2	1	2	2	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:128979638G>A	uc003els.2	+	12	1216	c.1116G>A	c.(1114-1116)TCG>TCA	p.S372S	COPG_uc010htb.2_Silent_p.S278S	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	372	HEAT 4.				COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						CAGAAATCTCGGATGAATTCA	0.597													22	42					0	0	1	0	0		A	128979638	A	A	128979638	2	1	73	1	0	0	0	0	0	0	0	1	3734	1103	39	1		1	COPG	3	128979638	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	919436	128979638	69042792	255	47492											
PLXND1	23129	broad.mit.edu	37	chr3	129284282	129284282	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttggggttcttggcggcCgaggcgtcaatgaggtccac	6	9	16	10	3	2	1	1	1	1	0	3	2	3	1	2	6	1	2	2	6	1	3	rs138273738		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:129284282C>T	uc003emx.2	-	25	4522	c.4422G>A	c.(4420-4422)TCG>TCA	p.S1474S	PLXND1_uc011blb.1_Silent_p.S142S	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1474	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						TCTTGGCGGCCGAGGCGTCAA	0.607													15	45					0	0	1	0	0		T	129284282	T	T	129284282	2	4	73	1	0	0	0	0	0	0	0	1	12146	639	23	1		1	PLXND1	3	129284282	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	304644	129284282	68738148	256	47493											
BFSP2	8419	broad.mit.edu	37	chr3	133185682	133185682	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccacagcaacaggcggAggtggcccacatgtcccaga	10	5	11	15	1	1	1	0	0	1	1	3	2	2	2	3	4	2	1	3	4	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:133185682A>G	uc003epn.1	+	5	1040	c.902A>G	c.(901-903)GAG>GGG	p.E301G		NM_003571	NP_003562	Q13515	BFSP2_HUMAN	phakinin	301	Rod.				response to stimulus|visual perception	cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens				0						CAACAGGCGGAGGTGGCCCAC	0.577													12	34					0	0	1	0	0		G	133185682	G	G	133185682	3	3	73	1	0	0	0	0	1	0	0	0	1417	304	11	3	920	3	BFSP2	3	133185682	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3901400	133185682	64836748	257	47494											
BFSP2	8419	broad.mit.edu	37	chr3	133191257	133191257	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagctccagaacctgggCgctgtggtcggccggctgga	6	7	17	11	3	0	1	0	0	0	1	2	3	1	3	3	6	2	3	3	6	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:133191257C>T	uc003epn.1	+	6	1230	c.1092C>T	c.(1090-1092)GGC>GGT	p.G364G		NM_003571	NP_003562	Q13515	BFSP2_HUMAN	phakinin	364	Rod.|Potential.				response to stimulus|visual perception	cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens				0						AGAACCTGGGCGCTGTGGTCG	0.642													7	17					0	0	1	0	0		T	133191257	T	T	133191257	2	4	73	1	0	0	0	0	0	0	0	1	1417	755	27	1		1	BFSP2	3	133191257	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5575	133191257	64831173	258	47495											
EPHB1	2047	broad.mit.edu	37	chr3	134960032	134960032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagctccagaggccatcGcctaccgcaagttcacttca	10	7	9	15	2	2	1	2	0	0	1	4	2	3	2	4	2	2	3	4	2	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:134960032G>A	uc003eqt.2	+	13	2609	c.2389G>A	c.(2389-2391)GCC>ACC	p.A797T	EPHB1_uc003equ.2_Missense_Mutation_p.A358T	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	797	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						AGAGGCCATCGCCTACCGCAA	0.522													64	96					0	0	1	0	0		A	134960032	A	A	134960032	3	1	73	1	0	0	0	0	1	0	0	0	5182	1087	38	1	2439	1	EPHB1	3	134960032	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1768775	134960032	63062398	259	47496											
DZIP1L	199221	broad.mit.edu	37	chr3	137787004	137787004	+	Frame_Shift_Del	DEL	C	-	-																															ggggctcacctcatcccgggCcccgaggaaggaggggtgct																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:137787004delC	uc003erq.2	-	13	2184	c.1821delG	c.(1819-1821)GGGfs	p.G607fs		NM_173543	NP_775814	Q8IYY4	DZI1L_HUMAN	DAZ interacting protein 1-like	607						intracellular	zinc ion binding			ovary(1)|pancreas(1)	2						TCATCCCGGGCCCCGAGGAAG	0.682													16	19	---	---	---	---						.	-	137787004	-	-	137787004	7	5	73	1	0	1	0	1	0	0	0	0	4870	726	26	0	498	0	DZIP1L	3	137787004	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	2826972	137787004	60235426	260	47497											
PRR23C	389152	broad.mit.edu	37	chr3	138762997	138762997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcagagtccgcgtcctcctCgtaggcctcttcctcggcag	4	10	10	17	4	2	1	1	0	1	1	8	1	6	1	5	2	0	2	5	2	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:138762997C>T	uc011bmt.1	-	1	738	c.466G>A	c.(466-468)GAG>AAG	p.E156K		NM_001134657	NP_001128129	Q6ZRP0	PR23C_HUMAN	proline rich 23C	156										skin(1)	1						GCGTCCTCCTCGTAGGCCTCT	0.632													4	11					0	0	1	0	0		T	138762997	T	T	138762997	3	4	73	1	0	0	0	0	1	0	0	0	12618	893	31	1	326	1	PRR23C	3	138762997	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	975993	138762997	59259433	261	47498											
CHST2	9435	broad.mit.edu	37	chr3	142840223	142840223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctattcaaccagaatcccGaggtgttctttctctacgag	10	12	8	11	2	3	1	1	0	2	1	5	3	4	1	2	1	3	2	2	1	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:142840223G>A	uc003evm.2	+	2	1454	c.565G>A	c.(565-567)GAG>AAG	p.E189K		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	189	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						CCAGAATCCCGAGGTGTTCTT	0.627													24	52					0	0	1	0	0		A	142840223	A	A	142840223	3	1	73	1	0	0	0	0	1	0	0	0	3407	1059	37	1	567	1	CHST2	3	142840223	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	4077226	142840223	55182207	262	47499											
SERP1	27230	broad.mit.edu	37	chr3	150263978	150263978	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactcgctcactcgcctgcCtcctctggagccgctgcgag	4	8	12	17	4	2	0	1	0	1	0	5	3	3	2	4	2	3	2	4	2	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:150263978C>A	uc003exy.2	-	1	451	c.-55G>T	c.(-57--53)GAGGC>GATGC		SERP1_uc003exz.2_RNA|EIF2A_uc003eya.2_5'Flank|EIF2A_uc003eyb.2_5'Flank|EIF2A_uc003eyc.2_5'Flank|EIF2A_uc011bnv.1_5'Flank|EIF2A_uc011bnw.1_5'Flank	NM_014445	NP_055260	Q9Y6X1	SERP1_HUMAN	stress-associated endoplasmic reticulum protein						plasma membrane organization|protein glycosylation|protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane|ribosome					0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			ACTCGCCTGCCTCCTCTGGAG	0.716													5	19					1.024e-07	1.07727e-07	1	1	0		A	150263978	A	A	150263978	1	1	73	1	0	0	0	0	0	0	0	0	14109	696	24	5		5	SERP1	3	150263978	Translation_Start_Site	SNP	C	TCGA-BR-8372-01A-11D-2340-08	7423755	150263978	47758452	263	47500											
GPR87	53836	broad.mit.edu	37	chr3	151012788	151012788	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaggtctgcaaccactatGtttttgagatagaatatgaa	14	13	9	5	0	1	4	0	3	1	2	1	5	1	4	1	1	2	2	1	1	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:151012788G>A	uc003eyt.2	-	3	607	c.246C>T	c.(244-246)AAC>AAT	p.N82N	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_023915	NP_076404	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	82	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CAACCACTATGTTTTTGAGAT	0.383													51	18					0	0	1	0	0		A	151012788	A	A	151012788	2	1	73	1	0	0	0	0	0	0	0	1	6731	1368	48	4		4	GPR87	3	151012788	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	748810	151012788	47009642	264	47501											
IGSF10	285313	broad.mit.edu	37	chr3	151166172	151166172	+	Frame_Shift_Del	DEL	T	-	-																															ctggagttccaattttccacTtttgtctattaggatccgtc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:151166172delT	uc011bod.1	-	4	1597	c.1597delA	c.(1597-1599)AGTfs	p.S533fs		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	533	Ig-like C2-type 1.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AATTTTCCACTTTTGTCTATT	0.448													76	141	---	---	---	---						.	-	151166172	-	-	151166172	7	5	73	1	0	1	0	1	0	0	0	0	7613	1609	56	0	6334	0	IGSF10	3	151166172	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	153384	151166172	46856258	265	47502											
SHOX2	6474	broad.mit.edu	37	chr3	157815997	157815997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaacatcatgtagggcGcgtgcgcggccaggtgcgga	7	6	18	10	5	1	0	1	0	0	0	1	2	1	2	1	5	3	1	1	5	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:157815997G>A	uc003fbr.2	-	5	954	c.815C>T	c.(814-816)GCG>GTG	p.A272V	SHOX2_uc003fbs.2_Missense_Mutation_p.A296V|SHOX2_uc010hvw.2_Missense_Mutation_p.A260V	NM_006884	NP_006875	O60902	SHOX2_HUMAN	short stature homeobox 2 isoform a	272					nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			Lung(72;0.00318)|LUSC - Lung squamous cell carcinoma(72;0.0043)			CATGTAGGGCGCGTGCGCGGC	0.701													59	109					0	0	1	0	0		A	157815997	A	A	157815997	3	1	73	1	0	0	0	0	1	0	0	0	14314	1087	38	1	184	1	SHOX2	3	157815997	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6649825	157815997	40206433	266	47503											
ABCC5	10057	broad.mit.edu	37	chr3	183665113	183665113	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctatcccagagactgaccTggacagcataagagatggcg	12	7	11	11	1	0	3	0	1	0	2	2	6	2	4	3	2	1	1	3	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:183665113T>C	uc003fmg.2	-	23	3578	c.3413A>G	c.(3412-3414)CAG>CGG	p.Q1138R	ABCC5_uc011bqt.1_Missense_Mutation_p.Q666R|ABCC5_uc010hxl.2_Missense_Mutation_p.Q1095R	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	1138	ABC transmembrane type-1 2.|Helical; (Potential).					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GAGACTGACCTGGACAGCATA	0.557													10	14					0	0	1	0	0		C	183665113	C	C	183665113	3	2	73	1	0	0	0	0	1	0	0	0	56	1594	55	3	932	3	ABCC5	3	183665113	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	25849116	183665113	14357317	267	47504											
C3orf59	151963	broad.mit.edu	37	chr3	192516463	192516463	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaggacagcttccgggcGtgaagcatgactgtctcctc	9	8	12	12	2	1	3	0	2	1	1	4	4	2	4	2	2	2	2	2	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:192516463G>A	uc011bsp.1	-	2	1509	c.1188C>T	c.(1186-1188)CAC>CAT	p.H396H		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	396											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		GCTTCCGGGCGTGAAGCATGA	0.557													12	45					0	0	1	0	0		A	192516463	A	A	192516463	2	1	73	1	0	0	0	0	0	0	0	1	2240	1136	40	1		1	C3orf59	3	192516463	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	8851350	192516463	5505967	268	47505											
ATP13A3	79572	broad.mit.edu	37	chr3	194158117	194158117	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattttcctatcccccagcAccctggcaaccacactcata	10	9	3	19	0	1	0	1	0	0	0	3	0	3	0	6	1	2	2	6	1	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:194158117A>G	uc003fty.3	-	18	2324	c.1922T>C	c.(1921-1923)GTG>GCG	p.V641A	ATP13A3_uc003ftz.1_Missense_Mutation_p.V347A	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	641					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		ATCCCCCAGCACCCTGGCAAC	0.468													27	65					0	0	1	0	0		G	194158117	G	G	194158117	3	3	73	1	0	0	0	0	1	0	0	0	1126	159	6	3	1818	3	ATP13A3	3	194158117	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1641654	194158117	3864313	269	47506											
TNK2	10188	broad.mit.edu	37	chr3	195594422	195594422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggccgtgggggcggcggggGctggggtgctgggtgggggc	0	6	28	7	3	0	0	0	0	0	0	0	0	0	0	1	11	1	2	1	11	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:195594422G>A	uc003fvu.1	-	12	3245	c.2702C>T	c.(2701-2703)GCC>GTC	p.A901V	TNK2_uc003fvq.1_Missense_Mutation_p.A308V|TNK2_uc003fvr.1_Missense_Mutation_p.A426V|TNK2_uc003fvs.1_Missense_Mutation_p.A933V|TNK2_uc003fvt.1_Missense_Mutation_p.A979V|TNK2_uc010hzw.1_RNA	NM_005781	NP_005772	Q07912	ACK1_HUMAN	tyrosine kinase, non-receptor, 2 isoform 1	901	Pro-rich.			Missing (in Ref. 4; AAH08884).	positive regulation of peptidyl-tyrosine phosphorylation|protein ubiquitination|small GTPase mediated signal transduction	adherens junction|cytoplasmic vesicle membrane|endosome|nucleus	ATP binding|GTPase inhibitor activity|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|central_nervous_system(3)|lung(2)|stomach(1)|skin(1)	10	all_cancers(143;6.48e-09)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;1.46e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.3e-19)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;0.000757)	Adenosine triphosphate(DB00171)	ggcggcgggggctggggtgct	0.453													6	10					0	0	1	0	0		A	195594422	A	A	195594422	3	1	73	1	0	0	0	0	1	0	0	0	16343	1203	42	2	430	2	TNK2	3	195594422	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1436305	195594422	2428008	270	47507											
SENP5	205564	broad.mit.edu	37	chr3	196613205	196613205	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaacatcgttctaataccAtgttcatttcagaaactgaa	15	12	5	9	1	3	3	2	1	1	2	4	3	3	3	1	0	3	2	1	0	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr3:196613205A>G	uc003fwz.3	+	2	1402	c.1153A>G	c.(1153-1155)ATG>GTG	p.M385V	SENP5_uc011bty.1_Missense_Mutation_p.M385V	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	385					cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		TTCTAATACCATGTTCATTTC	0.443													36	51					0	0	1	0	0		G	196613205	G	G	196613205	3	3	73	1	0	0	0	0	1	0	0	0	14074	217	8	3	1155	3	SENP5	3	196613205	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1018783	196613205	1409225	271	47508											
SLC26A1	10861	broad.mit.edu	37	chr4	985400	985400	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaccacagcctggccttcAgcatctcacgcagaccccgg	8	6	9	18	2	2	1	2	0	1	1	3	1	2	1	5	2	3	3	5	2	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:985400A>G	uc003gcb.2	-	3	470	c.92T>C	c.(91-93)CTG>CCG	p.L31P	SLC26A1_uc003gbx.2_Missense_Mutation_p.L31P|IDUA_uc003gby.2_Intron|IDUA_uc003gbz.2_Intron|IDUA_uc003gca.2_Intron|SLC26A1_uc003gcc.2_Missense_Mutation_p.L31P	NM_213613	NP_998778	Q9H2B4	S26A1_HUMAN	solute carrier family 26, member 1 isoform a	31						integral to membrane|plasma membrane	secondary active sulfate transmembrane transporter activity			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CCTGGCCTTCAGCATCTCACG	0.711													9	25					0	0	1	0	0		G	985400	G	G	985400	3	3	73	1	0	0	0	0	1	0	0	0	14539	188	7	3	2124	3	SLC26A1	4	985400	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08		985400	190168876	272	47509											
FGFRL1	53834	broad.mit.edu	37	chr4	1018157	1018157	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgaacacgacggtggaCttcggggggaccacgtcctt	7	7	14	13	5	0	1	0	1	0	0	2	4	1	3	3	5	1	0	3	5	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:1018157C>T	uc003gce.2	+	6	938	c.777C>T	c.(775-777)GAC>GAT	p.D259D	FGFRL1_uc003gcf.2_Silent_p.D259D|FGFRL1_uc003gcg.2_Silent_p.D259D|FGFRL1_uc010ibo.2_Silent_p.D259D	NM_021923	NP_068742	Q8N441	FGRL1_HUMAN	fibroblast growth factor receptor-like 1	259	Ig-like C2-type 3.|Extracellular (Potential).				regulation of cell growth	integral to membrane|plasma membrane	fibroblast growth factor receptor activity|heparin binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CGACGGTGGACTTCGGGGGGA	0.697													4	50					0	0	1	0	0		T	1018157	T	T	1018157	2	4	73	1	0	0	0	0	0	0	0	1	5883	564	20	4		4	FGFRL1	4	1018157	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	32757	1018157	190136119	273	47510											
MAEA	10296	broad.mit.edu	37	chr4	1316173	1316173	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttccttcctctaaggaccTagtgaatattgagatgttcc	9	14	8	10	0	1	2	0	2	1	1	4	4	4	3	4	1	0	2	4	1	4	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:1316173T>C	uc003gda.2	+	4	491	c.461T>C	c.(460-462)CTA>CCA	p.L154P	MAEA_uc010ibs.1_Intron|MAEA_uc003gdb.2_Intron|MAEA_uc011bvb.1_Missense_Mutation_p.L86P|MAEA_uc003gdc.2_Intron|MAEA_uc003gdd.2_Intron|MAEA_uc011bvc.1_Missense_Mutation_p.L153P|MAEA_uc011bvd.1_Missense_Mutation_p.L106P|MAEA_uc010ibt.2_Intron	NM_001017405	NP_001017405	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher isoform 1	154					cell adhesion|cell cycle|cell division|erythrocyte maturation|negative regulation of myeloid cell apoptosis|regulation of mitotic cell cycle	actomyosin contractile ring|integral to plasma membrane|membrane fraction|nuclear matrix|spindle	actin binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0201)			TCTAAGGACCTAGTGAATATT	0.602													57	90					0	0	1	0	0		C	1316173	C	C	1316173	3	2	73	1	0	0	0	0	1	0	0	0	9171	1522	53	3	475	3	MAEA	4	1316173	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	298016	1316173	189838103	274	47511											
WHSC1	7468	broad.mit.edu	37	chr4	1932443	1932443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtgagaagcagagagcaCgctacaacaccaagtttgcc	14	6	11	10	1	0	3	0	2	0	2	0	5	0	3	2	0	5	4	2	0	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:1932443C>T	uc003gdz.3	+	6	1677	c.1501C>T	c.(1501-1503)CGC>TGC	p.R501C	WHSC1_uc003geb.3_Missense_Mutation_p.R501C|WHSC1_uc003gec.3_Missense_Mutation_p.R501C|WHSC1_uc003ged.3_Missense_Mutation_p.R501C|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gdy.1_Missense_Mutation_p.R501C|WHSC1_uc010icd.1_Missense_Mutation_p.R501C|WHSC1_uc003gea.1_Missense_Mutation_p.R501C|WHSC1_uc010ice.1_Missense_Mutation_p.R501C|WHSC1_uc003geh.1_Missense_Mutation_p.R501C	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	501	HMG box.				anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		GCAGAGAGCACGCTACAACAC	0.532			T	IGH@	MM								4	49					0	0	1	0	0		T	1932443	T	T	1932443	3	4	73	1	0	0	0	0	1	0	0	0	17388	536	19	1	1519	1	WHSC1	4	1932443	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	616270	1932443	189221833	275	47512											
POLN	353497	broad.mit.edu	37	chr4	2178053	2178053	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcaggttctcacgtacAttctgattctttaaaagagc	10	15	7	9	1	5	2	2	1	4	1	6	2	5	2	0	1	2	2	0	1	3	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:2178053A>G	uc003ger.2	-	7	1188	c.1188T>C	c.(1186-1188)AAT>AAC	p.N396N	POLN_uc010ich.1_Intron|POLN_uc011bvi.1_Silent_p.N396N	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	396					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			TCTCACGTACATTCTGATTCT	0.373								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					37	105					0	0	1	0	0		G	2178053	G	G	2178053	2	3	73	1	0	0	0	0	0	0	0	1	12226	214	8	3		3	POLN	4	2178053	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	245610	2178053	188976223	276	47513											
SH3BP2	6452	broad.mit.edu	37	chr4	2822459	2822459	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctgcacaagaagggcggtAcccagctgcagctgctgaaa	12	5	12	12	1	0	2	0	1	0	1	0	2	0	2	2	2	6	6	2	2	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:2822459A>G	uc003gfi.3	+	2	235	c.115A>G	c.(115-117)ACC>GCC	p.T39A	SH3BP2_uc010icn.2_Missense_Mutation_p.T39A|SH3BP2_uc011bvp.1_Missense_Mutation_p.T67A|SH3BP2_uc003gfj.3_Missense_Mutation_p.T96A|SH3BP2_uc003gfk.3_Missense_Mutation_p.T39A|SH3BP2_uc003gfl.3_5'UTR	NM_001122681	NP_001116153	P78314	3BP2_HUMAN	SH3-domain binding protein 2 isoform a	39	PH.				signal transduction		SH3 domain binding|SH3/SH2 adaptor activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.164)		GAAGGGCGGTACCCAGCTGCA	0.597									Cherubism				11	31					0	0	1	0	0		G	2822459	G	G	2822459	3	3	73	1	0	0	0	0	1	0	0	0	14270	391	14	3	376	3	SH3BP2	4	2822459	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	644406	2822459	188331817	277	47514											
SH3BP2	6452	broad.mit.edu	37	chr4	2828969	2828969	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattgcagcgactccagctcGgacacagacagcttctacgg	10	7	10	14	3	1	1	0	0	1	1	3	3	2	2	1	2	5	3	1	2	1	3	rs145235325	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:2828969G>A	uc003gfi.3	+	6	561	c.441G>A	c.(439-441)TCG>TCA	p.S147S	SH3BP2_uc011bvp.1_Silent_p.S175S|SH3BP2_uc003gfj.3_Silent_p.S204S|SH3BP2_uc003gfk.3_Silent_p.S147S|SH3BP2_uc003gfl.3_Silent_p.S80S|SH3BP2_uc003gfm.3_Silent_p.S122S	NM_001122681	NP_001116153	P78314	3BP2_HUMAN	SH3-domain binding protein 2 isoform a	147					signal transduction		SH3 domain binding|SH3/SH2 adaptor activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.164)		ACTCCAGCTCGGACACAGACA	0.532									Cherubism				18	36					0	0	1	0	0		A	2828969	A	A	2828969	2	1	73	1	0	0	0	0	0	0	0	1	14270	1103	39	1		1	SH3BP2	4	2828969	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6510	2828969	188325307	278	47515											
HTT	3064	broad.mit.edu	37	chr4	3219640	3219640	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcatcatcagcctggcccgCctgccccttgtcaacagcta	8	9	7	17	1	4	0	4	0	0	0	4	0	4	0	5	1	4	1	5	1	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:3219640C>T	uc011bvq.1	+	53	7354	c.7209C>T	c.(7207-7209)CGC>CGT	p.R2403R		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2401	Nuclear export signal (By similarity).				establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GCCTGGCCCGCCTGCCCCTTG	0.582													9	65					0	0	1	0	0		T	3219640	T	T	3219640	2	4	73	1	0	0	0	0	0	0	0	1	7473	726	26	2		2	HTT	4	3219640	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	390671	3219640	187934636	279	47516											
RGS12	6002	broad.mit.edu	37	chr4	3417718	3417718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtcagctttcctacagggCccgggagattttcagtaagt	8	12	11	10	1	2	1	2	0	0	1	3	2	3	1	2	2	2	2	2	2	2	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:3417718C>T	uc003ggw.2	+	7	3201	c.2297C>T	c.(2296-2298)GCC>GTC	p.A766V	RGS12_uc003ggu.2_Missense_Mutation_p.A766V|RGS12_uc010ics.1_5'UTR|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Missense_Mutation_p.A766V|RGS12_uc003ggy.1_Missense_Mutation_p.A164V|RGS12_uc010ict.1_Missense_Mutation_p.A118V|RGS12_uc003ggz.2_Missense_Mutation_p.A118V|RGS12_uc010icu.1_5'UTR|RGS12_uc011bvs.1_Missense_Mutation_p.A108V|RGS12_uc003gha.2_Missense_Mutation_p.A108V|RGS12_uc010icv.2_5'UTR|RGS12_uc003ghb.2_5'UTR	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	766	RGS.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TCCTACAGGGCCCGGGAGATT	0.637													4	4					0	0	1	0	0		T	3417718	T	T	3417718	3	4	73	1	0	0	0	0	1	0	0	0	13320	739	26	2	2377	2	RGS12	4	3417718	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	198078	3417718	187736558	280	47517											
LYAR	55646	broad.mit.edu	37	chr4	4285410	4285410	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctgcaaacagacacatgCttttccacttgtattttctt	9	18	4	10	0	2	1	0	0	2	1	3	1	3	1	1	0	3	3	1	0	2	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:4285410C>A	uc011bvy.1	-	3	203	c.60G>T	c.(58-60)AAG>AAT	p.K20N	LYAR_uc003ght.2_Missense_Mutation_p.K20N	NM_001145725	NP_001139197	Q9NX58	LYAR_HUMAN	Ly1 antibody reactive homolog	20	C2HC-type 1.					nucleolus	metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CAGACACATGCTTTTCCACTT	0.358													18	17					3.32936e-07	3.48243e-07	1	1	0		A	4285410	A	A	4285410	3	1	73	1	0	0	0	0	1	0	0	0	9121	796	28	5	1111	5	LYAR	4	4285410	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	867692	4285410	186868866	281	47518											
EVC	2121	broad.mit.edu	37	chr4	5746947	5746947	+	Frame_Shift_Del	DEL	A	-	-																															tcaggatttggaggaactagAaaagggacttcaggtcaaac																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:5746947delA	uc003gil.1	+	7	1002	c.818delA	c.(817-819)GAAfs	p.E273fs	EVC_uc003gim.1_RNA	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	273					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				GAGGAACTAGAAAAGGGACTT	0.378													23	47	---	---	---	---						.	-	5746947	-	-	5746947	7	5	73	1	0	1	0	1	0	0	0	0	5293	246	9	0	844	0	EVC	4	5746947	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	1461537	5746947	185407329	282	47519											
AFAP1	60312	broad.mit.edu	37	chr4	7844918	7844918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggtccactggccgaacCgcttcttccgcagcaggaag	8	8	11	14	3	1	0	0	0	1	0	3	2	3	1	4	3	2	3	4	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:7844918C>T	uc003gkg.1	-	5	767	c.494G>A	c.(493-495)CGG>CAG	p.R165Q	AFAP1_uc011bwk.1_Missense_Mutation_p.R165Q	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	165	PH 1.					actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						CTGGCCGAACCGCTTCTTCCG	0.547													19	44					0	0	1	0	0		T	7844918	T	T	7844918	3	4	73	1	0	0	0	0	1	0	0	0	353	652	23	1	2006	1	AFAP1	4	7844918	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2097971	7844918	183309358	283	47520											
ABLIM2	84448	broad.mit.edu	37	chr4	8037891	8037891	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catacctcgccgtagctctgCctgtcccctgcagagtggct	5	10	10	16	2	1	1	0	0	1	1	3	1	2	1	5	1	4	4	5	1	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:8037891C>T	uc003gko.2	-	10	1175	c.1032G>A	c.(1030-1032)AGG>AGA	p.R344R	ABLIM2_uc003gkl.2_Silent_p.R94R|ABLIM2_uc003gkj.3_Silent_p.R344R|ABLIM2_uc003gkm.3_Silent_p.R344R|ABLIM2_uc003gkp.2_Silent_p.R344R|ABLIM2_uc003gkq.2_Silent_p.R344R|ABLIM2_uc003gkr.2_Silent_p.R344R|ABLIM2_uc003gks.3_Silent_p.R344R|ABLIM2_uc011bwl.1_Silent_p.R349R	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	344					axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3						CGTAGCTCTGCCTGTCCCCTG	0.597													4	25					0	0	1	0	0		T	8037891	T	T	8037891	2	4	73	1	0	0	0	0	0	0	0	1	95	738	26	2		2	ABLIM2	4	8037891	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	192973	8037891	183116385	284	47521											
ABLIM2	84448	broad.mit.edu	37	chr4	8098904	8098904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaccctcaatgaactggTcgcagctgaagcagcgggtg	9	7	12	13	2	2	2	2	2	0	0	3	2	2	2	2	2	4	3	2	2	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:8098904T>C	uc003gko.2	-	3	403	c.260A>G	c.(259-261)GAC>GGC	p.D87G	ABLIM2_uc003gkj.3_Missense_Mutation_p.D87G|ABLIM2_uc003gkm.3_Missense_Mutation_p.D87G|ABLIM2_uc003gkp.2_Missense_Mutation_p.D87G|ABLIM2_uc003gkq.2_Missense_Mutation_p.D87G|ABLIM2_uc003gkr.2_Missense_Mutation_p.D87G|ABLIM2_uc003gks.3_Missense_Mutation_p.D87G|ABLIM2_uc011bwl.1_Missense_Mutation_p.D92G	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	87	LIM zinc-binding 2.				axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3						AATGAACTGGTCGCAGCTGAA	0.657													4	9					0	0	1	0	0		C	8098904	C	C	8098904	3	2	73	1	0	0	0	0	1	0	0	0	95	1667	58	3	1807	3	ABLIM2	4	8098904	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	61013	8098904	183055372	285	47522											
SH3TC1	54436	broad.mit.edu	37	chr4	8229582	8229582	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacatctacagccgcaagTgcctgccccacctggtgctg	7	8	10	16	1	1	1	0	1	1	0	1	1	1	1	5	1	5	2	5	1	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:8229582T>C	uc003gkv.3	+	12	2262	c.2161T>C	c.(2161-2163)TGC>CGC	p.C721R	SH3TC1_uc003gkw.3_Missense_Mutation_p.C645R|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	721							binding			large_intestine(2)|pancreas(1)	3						CAGCCGCAAGTGCCTGCCCCA	0.642													6	63					0	0	1	0	0		C	8229582	C	C	8229582	3	2	73	1	0	0	0	0	1	0	0	0	14286	1696	59	3	2203	3	SH3TC1	4	8229582	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	130678	8229582	182924694	286	47523											
GPR78	27201	broad.mit.edu	37	chr4	8588806	8588806	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagctcgtgcccttcgtcAccgtgaacgcccagtggggc	5	7	14	15	5	1	1	1	1	0	0	3	2	1	2	3	3	3	1	3	3	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:8588806A>G	uc003glk.2	+	3	1227	c.808A>G	c.(808-810)ACC>GCC	p.T270A	CPZ_uc003gll.2_Intron	NM_080819	NP_543009	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	270	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(4)|ovary(2)	6						GCCCTTCGTCACCGTGAACGC	0.662													15	30					0	0	1	0	0		G	8588806	G	G	8588806	3	3	73	1	0	0	0	0	1	0	0	0	6725	159	6	3	818	3	GPR78	4	8588806	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	359224	8588806	182565470	287	47524											
FBXL5	26234	broad.mit.edu	37	chr4	15642491	15642491	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttgttttgcataatttaActgttcatattcattctgga	10	19	6	6	0	3	0	2	0	1	0	3	1	3	1	0	1	2	4	0	1	3	10			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:15642491A>G	uc003goc.1	-	3	419	c.316T>C	c.(316-318)TTA>CTA	p.L106L	FBXL5_uc010idw.1_Intron|FBXL5_uc003gob.1_5'UTR|FBXL5_uc010idx.1_Silent_p.L106L|FBXL5_uc003god.1_Silent_p.L89L|FBXL5_uc010idy.1_Silent_p.L106L	NM_012161	NP_036293	Q9UKA1	FBXL5_HUMAN	F-box and leucine-rich repeat protein 5 isoform	106	Hemerythrin-like.				iron ion homeostasis|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|SCF ubiquitin ligase complex	iron ion binding|protein binding|ubiquitin-protein ligase activity				0						GCATAATTTAACTGTTCATAT	0.308													21	42					0	0	1	0	0		G	15642491	G	G	15642491	2	3	73	1	0	0	0	0	0	0	0	1	5736	40	2	3		3	FBXL5	4	15642491	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	7053685	15642491	175511785	288	47525											
CCKAR	886	broad.mit.edu	37	chr4	26483534	26483534	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctctgcggaggcggtgtcgTaggcccgccaggcgttggcg	3	7	19	12	6	1	0	0	0	1	0	2	1	1	1	2	6	1	3	2	6	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:26483534T>C	uc003gse.1	-	5	1166	c.1013A>G	c.(1012-1014)TAC>TGC	p.Y338C		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	338	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	GGCGGTGTCGTAGGCCCGCCA	0.602													35	60					0	0	1	0	0		C	26483534	C	C	26483534	3	2	73	1	0	0	0	0	1	0	0	0	2883	1638	57	3	277	3	CCKAR	4	26483534	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	10841043	26483534	164670742	289	47526											
CCKAR	886	broad.mit.edu	37	chr4	26487447	26487447	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccagacccgggactgtaaGggtttgcaaatcgcaccata	11	8	11	11	2	0	1	0	0	0	1	1	2	0	2	3	2	2	4	3	2	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:26487447G>A	uc003gse.1	-	3	591	c.438C>T	c.(436-438)CCC>CCT	p.P146P		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	146	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	GGGACTGTAAGGGTTTGCAAA	0.468													14	26					0	0	1	0	0		A	26487447	A	A	26487447	2	1	73	1	0	0	0	0	0	0	0	1	2883	987	35	4		4	CCKAR	4	26487447	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3913	26487447	164666829	290	47527											
TBC1D1	23216	broad.mit.edu	37	chr4	38022259	38022259	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatctgtcgggagtcttcCggaggtggcggctttcattt	4	16	13	8	3	3	0	1	0	2	0	5	2	4	2	1	5	0	1	1	5	1	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:38022259C>T	uc003gtb.2	+	5	1363	c.1020C>T	c.(1018-1020)TCC>TCT	p.S340S	TBC1D1_uc011byd.1_Silent_p.S340S|TBC1D1_uc010ifd.2_Intron|TBC1D1_uc011byf.1_Silent_p.S211S	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	340	PID.					nucleus	Rab GTPase activator activity			ovary(1)	1						GGGAGTCTTCCGGAGGTGGCG	0.493													71	156					0	0	1	0	0		T	38022259	T	T	38022259	2	4	73	1	0	0	0	0	0	0	0	1	15622	639	23	1		1	TBC1D1	4	38022259	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	11534812	38022259	153132017	291	47528											
KLB	152831	broad.mit.edu	37	chr4	39450263	39450263	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttttggaaagcaaaaaactTacaacacataccattaaaga	20	9	5	7	0	0	1	0	0	0	1	0	2	0	2	1	1	5	2	1	1	9	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:39450263T>C	uc003gua.2	+	5	3189	c.3092T>C	c.(3091-3093)TTA>TCA	p.L1031S	KLB_uc011byj.1_Missense_Mutation_p.L1022S	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	1031	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						GCAAAAAACTTACAACACATA	0.373													26	84					0	0	1	0	0		C	39450263	C	C	39450263	3	2	73	1	0	0	0	0	1	0	0	0	8348	1764	61	3	3110	3	KLB	4	39450263	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1428004	39450263	151704013	292	47529											
TEC	7006	broad.mit.edu	37	chr4	48169970	48169970	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattggtgggggaggccttcGctagacaaggaagataacat	13	8	14	6	1	0	2	0	0	0	2	1	4	0	4	1	5	1	1	1	5	5	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:48169970G>A	uc003gxz.2	-	7	587	c.496C>T	c.(496-498)CGA>TGA	p.R166*		NM_003215	NP_003206	P42680	TEC_HUMAN	tec protein tyrosine kinase	166					intracellular protein kinase cascade	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding	p.R166G(1)		lung(4)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)	9						GGAGGCCTTCGCTAGACAAGG	0.378													28	53					0	0	1	0	0		A	48169970	A	A	48169970	4	1	73	1	0	0	0	0	0	1	0	0	15767	1101	38	1	1447	1	TEC	4	48169970	Nonsense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	8719707	48169970	142984306	293	47530											
EPHA5	2044	broad.mit.edu	37	chr4	66230798	66230798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaactgtcccatgatacttgCttcacctaggaaatctctgc	11	12	6	12	0	2	1	1	1	1	0	4	2	3	2	2	1	4	1	2	1	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:66230798C>T	uc003hcy.2	-	12	2366	c.2173G>A	c.(2173-2175)GCA>ACA	p.A725T	EPHA5_uc003hcx.2_Missense_Mutation_p.A657T|EPHA5_uc003hcz.2_Missense_Mutation_p.A703T|EPHA5_uc011cah.1_Missense_Mutation_p.A726T|EPHA5_uc011cai.1_Missense_Mutation_p.A704T|EPHA5_uc003hda.2_Missense_Mutation_p.A726T	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	725	Cytoplasmic (Potential).|Protein kinase.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						ATGATACTTGCTTCACCTAGG	0.388										TSP Lung(17;0.13)			22	124					0	0	1	0	0		T	66230798	T	T	66230798	3	4	73	1	0	0	0	0	1	0	0	0	5178	797	28	2	968	2	EPHA5	4	66230798	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	18060828	66230798	124923478	294	47531											
PARM1	25849	broad.mit.edu	37	chr4	75937954	75937954	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagtccacttaacaaccacGttggaggaacacagctcggg	12	6	12	11	2	0	0	0	0	0	0	2	3	1	3	2	4	4	2	2	4	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:75937954G>A	uc003hih.1	+	2	603	c.363G>A	c.(361-363)ACG>ACA	p.T121T		NM_015393	NP_056208	Q6UWI2	PARM1_HUMAN	prostatic androgen-repressed message-1	121	Extracellular (Potential).				positive regulation of telomerase activity	early endosome|endosome membrane|Golgi membrane|integral to membrane|late endosome|plasma membrane				ovary(1)	1						TAACAACCACGTTGGAGGAAC	0.582													54	111					0	0	1	0	0		A	75937954	A	A	75937954	2	1	73	1	0	0	0	0	0	0	0	1	11471	1132	40	1		1	PARM1	4	75937954	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	9707156	75937954	115216322	295	47532											
SHROOM3	57619	broad.mit.edu	37	chr4	77675534	77675534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	accatctcacccctcgttggGgtggttcaggctgcaaagcc	7	9	11	14	1	2	0	2	0	1	0	4	0	2	0	4	4	2	4	4	4	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:77675534G>A	uc011cbx.1	+	7	4851	c.3898G>A	c.(3898-3900)GGT>AGT	p.G1300S	SHROOM3_uc003hkg.2_Missense_Mutation_p.G1078S	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	1300					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			CCCTCGTTGGGGTGGTTCAGG	0.562													27	136					0	0	1	0	0		A	77675534	A	A	77675534	3	1	73	1	0	0	0	0	1	0	0	0	14320	1232	43	4	3924	4	SHROOM3	4	77675534	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1737580	77675534	113478742	296	47533											
PLAC8	51316	broad.mit.edu	37	chr4	84026148	84026148	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacttgacacccaaggcaCgggaaacaaaatgtgccaca	16	4	9	12	1	0	1	0	1	0	0	0	2	0	2	2	2	3	2	2	2	5	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:84026148C>T	uc003hoe.2	-	3	305	c.144G>A	c.(142-144)CCG>CCA	p.P48P	PLAC8_uc011cco.1_Silent_p.P48P|PLAC8_uc010ijy.2_RNA|PLAC8_uc010ijz.2_Intron|PLAC8_uc003hod.2_Silent_p.P48P	NM_001130716	NP_001124188	Q9NZF1	PLAC8_HUMAN	placenta-specific 8	48										ovary(1)	1		Hepatocellular(203;0.114)				ACCCAAGGCACGGGAAACAAA	0.498													12	35					0	0	1	0	0		T	84026148	T	T	84026148	2	4	73	1	0	0	0	0	0	0	0	1	12034	523	19	1		1	PLAC8	4	84026148	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	6350614	84026148	107128128	297	47534											
WDFY3	23001	broad.mit.edu	37	chr4	85750185	85750185	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagatcacaaagaaaattatAtccttgccatatccgaaaat	18	10	5	8	1	1	2	1	0	0	2	3	4	3	2	3	0	1	0	3	0	8	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:85750185A>G	uc003hpd.2	-	9	1336	c.928T>C	c.(928-930)TAT>CAT	p.Y310H	WDFY3_uc003hpf.2_Missense_Mutation_p.Y310H	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	310						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AGAAAATTATATCCTTGCCAT	0.343													28	60					0	0	1	0	0		G	85750185	G	G	85750185	3	3	73	1	0	0	0	0	1	0	0	0	17296	449	16	3	9935	3	WDFY3	4	85750185	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1724037	85750185	105404091	298	47535											
MEPE	56955	broad.mit.edu	37	chr4	88766641	88766641	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaagcccagaaaagtccAgtaaaaagcaaaagcaccca	19	3	6	13	0	0	1	0	0	0	1	2	1	2	1	4	0	3	3	4	0	8	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:88766641A>G	uc003hqy.2	+	4	660	c.621A>G	c.(619-621)CCA>CCG	p.P207P	MEPE_uc010ikn.2_Silent_p.P94P	NM_020203	NP_064588	Q9NQ76	MEPE_HUMAN	matrix, extracellular phosphoglycoprotein with	207					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			ovary(1)|lung(1)|skin(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000432)		AGAAAAGTCCAGTAAAAAGCA	0.388													9	93					0	0	1	0	0		G	88766641	G	G	88766641	2	3	73	1	0	0	0	0	0	0	0	1	9496	175	7	3		3	MEPE	4	88766641	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3016456	88766641	102387635	299	47536											
HERC5	51191	broad.mit.edu	37	chr4	89415439	89415439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaaacttttggaccaaatgCcatcattggaagacttgaaa	16	10	8	7	0	1	3	1	1	0	2	1	5	1	5	2	2	2	0	2	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:89415439C>T	uc003hrt.2	+	18	2554	c.2401C>T	c.(2401-2403)CCA>TCA	p.P801S	HERC5_uc011cdm.1_Missense_Mutation_p.P439S	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	801	HECT.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		GGACCAAATGCCATCATTGGA	0.393													7	45					0	0	1	0	0		T	89415439	T	T	89415439	3	4	73	1	0	0	0	0	1	0	0	0	7077	739	26	2	2471	2	HERC5	4	89415439	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	648798	89415439	101738837	300	47537											
GRID2	2895	broad.mit.edu	37	chr4	94693552	94693552	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctaatgggggctttttcaGgagtcctataaaaacaatgt	13	12	9	7	0	1	0	1	0	0	0	2	1	2	1	2	3	1	1	2	3	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:94693552G>T	uc011cdt.1	+	16	3185	c.2927G>T	c.(2926-2928)AGG>ATG	p.R976M	GRID2_uc011cdu.1_Missense_Mutation_p.R881M	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	976	Cytoplasmic (Potential).|Interaction with AP4M1 (By similarity).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	GGCTTTTTCAGGAGTCCTATA	0.493													25	51					6.21321e-17	6.8275e-17	1	1	0		T	94693552	T	T	94693552	3	4	73	1	0	0	0	0	1	0	0	0	6788	1000	35	5	2989	5	GRID2	4	94693552	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5278113	94693552	96460724	301	47538											
MTTP	4547	broad.mit.edu	37	chr4	100540226	100540226	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagtttagcttgtggtaTcgtgagtctaaaacccgagt	10	13	12	6	2	1	1	0	1	1	0	2	3	1	2	1	2	2	3	1	2	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:100540226T>C	uc003hvc.3	+	17	2569	c.2313T>C	c.(2311-2313)TAT>TAC	p.Y771Y	MTTP_uc011cej.1_Silent_p.Y798Y	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	771					lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	GCTTGTGGTATCGTGAGTCTA	0.353													43	89					0	0	1	0	0		C	100540226	C	C	100540226	2	2	73	1	0	0	0	0	0	0	0	1	9982	1442	50	3		3	MTTP	4	100540226	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	5846674	100540226	90614050	302	47539											
TET2	54790	broad.mit.edu	37	chr4	106157730	106157732	+	In_Frame_Del	DEL	TCT	-	-																															aatgtgatcccaaagcaagaTcttcttcacaggtgctttca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:106157730_106157732delTCT	uc003hxk.2	+	3	3017_3019	c.2631_2633delTCT	c.(2629-2634)GATCTT>GAT	p.L879del	TET2_uc011cez.1_In_Frame_Del_p.L900del|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_In_Frame_Del_p.L879del|TET2_uc003hxi.1_In_Frame_Del_p.L879del	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	879	Gln-rich.				cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		CAAAGCAAGATCTTCTTCACAGG	0.379			Mis N|F		MDS								26	47	---	---	---	---						.	-	106157732	-	-	106157730	7	5	73	1	0	1	0	1	0	0	0	0	15795	1432	50	0	2633	0	TET2	4	106157730	In_Frame_Del	DEL	TCT	TCGA-BR-8372-01A-11D-2340-08	5617504	106157730	84996546	303	47540											
PPA2	27068	broad.mit.edu	37	chr4	106345393	106345393	+	Silent	SNP	A	T	T																															ggatcattcgcattgatagcAattaatttccaatctgtttc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:106345393A>T	uc003hxl.2	-	7	635	c.615T>A	c.(613-615)ATT>ATA	p.I205I	PPA2_uc003hxm.2_Silent_p.I187I|PPA2_uc003hxn.2_Silent_p.I176I|PPA2_uc003hxo.2_Silent_p.I103I|PPA2_uc003hxp.2_Intron|PPA2_uc003hxq.2_Silent_p.I112I|PPA2_uc003hxr.2_Silent_p.I112I|PPA2_uc011cfa.1_Silent_p.I112I	NM_176869	NP_789845	Q9H2U2	IPYR2_HUMAN	inorganic pyrophosphatase 2 isoform 1 precursor	205					diphosphate metabolic process|tRNA aminoacylation for protein translation	mitochondrial matrix	inorganic diphosphatase activity|magnesium ion binding			pancreas(1)	1		Myeloproliferative disorder(5;0.0255)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.03e-07)		CATTGATAGCAATTAATTTCC	0.338													8	102					0	0	1	0	0		T	106345393	T	T	106345393	2	4	73	1	0	0	0	0	0	0	0	1	12306	126	5	5		5	PPA2	4	106345393	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	187663	106345393	84808883	304	47541	90	2									
PPA2	27068	broad.mit.edu	37	chr4	106345398	106345398	+	Missense_Mutation	SNP	A	T	T																															attcgcattgatagcaattaAtttccaatctgtttcacctt																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:106345398A>T	uc003hxl.2	-	7	630	c.610T>A	c.(610-612)TTA>ATA	p.L204I	PPA2_uc003hxm.2_Missense_Mutation_p.L186I|PPA2_uc003hxn.2_Missense_Mutation_p.L175I|PPA2_uc003hxo.2_Missense_Mutation_p.L102I|PPA2_uc003hxp.2_Intron|PPA2_uc003hxq.2_Missense_Mutation_p.L111I|PPA2_uc003hxr.2_Missense_Mutation_p.L111I|PPA2_uc011cfa.1_Missense_Mutation_p.L111I	NM_176869	NP_789845	Q9H2U2	IPYR2_HUMAN	inorganic pyrophosphatase 2 isoform 1 precursor	204					diphosphate metabolic process|tRNA aminoacylation for protein translation	mitochondrial matrix	inorganic diphosphatase activity|magnesium ion binding			pancreas(1)	1		Myeloproliferative disorder(5;0.0255)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.03e-07)		ATAGCAATTAATTTCCAATCT	0.333													8	102					0	0	1	0	0		T	106345398	T	T	106345398	3	4	73	1	0	0	0	0	1	0	0	0	12306	98	4	5	418	5	PPA2	4	106345398	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	5	106345398	84808878	305	47542	90	2									
SEC24B	10427	broad.mit.edu	37	chr4	110448544	110448544	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcactagcagatgtatatgCgggagtggatgtacaagctg	11	11	13	6	1	1	1	1	0	0	1	1	3	1	3	0	2	4	4	0	2	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:110448544C>T	uc003hzk.2	+	18	3087	c.3032C>T	c.(3031-3033)GCG>GTG	p.A1011V	SEC24B_uc003hzl.2_Missense_Mutation_p.A976V|SEC24B_uc011cfp.1_Missense_Mutation_p.A1041V|SEC24B_uc011cfq.1_Missense_Mutation_p.A1010V|SEC24B_uc011cfr.1_Missense_Mutation_p.A975V	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	1011					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		GATGTATATGCGGGAGTGGAT	0.368													31	83					0	0	1	0	0		T	110448544	T	T	110448544	3	4	73	1	0	0	0	0	1	0	0	0	14020	768	27	1	3102	1	SEC24B	4	110448544	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4103146	110448544	80705732	306	47543											
EGF	1950	broad.mit.edu	37	chr4	110915959	110915959	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatagtgactctgaatgTcccctgtcccacgatgggta	11	10	10	10	1	1	3	0	2	1	1	3	4	3	3	3	1	0	1	3	1	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:110915959T>C	uc003hzy.3	+	20	3380	c.2928T>C	c.(2926-2928)TGT>TGC	p.C976C	EGF_uc011cfu.1_Silent_p.C934C|EGF_uc011cfv.1_Silent_p.C935C|EGF_uc010imk.2_Silent_p.C124C	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	976	EGF-like 9.|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	ACTCTGAATGTCCCCTGTCCC	0.443													27	68					0	0	1	0	0		C	110915959	C	C	110915959	2	2	73	1	0	0	0	0	0	0	0	1	4968	1673	58	3		3	EGF	4	110915959	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	467415	110915959	80238317	307	47544											
ANK2	287	broad.mit.edu	37	chr4	114254212	114254212	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcattgctatgtcaggcCtgtgatcgtggagatccctc	6	13	11	11	1	2	2	1	1	1	1	5	3	3	2	2	2	2	2	2	2	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:114254212C>A	uc003ibe.3	+	29	3327	c.3227C>A	c.(3226-3228)CCT>CAT	p.P1076H	ANK2_uc003ibd.3_Missense_Mutation_p.P1067H|ANK2_uc003ibf.3_Missense_Mutation_p.P1076H|ANK2_uc011cgc.1_Missense_Mutation_p.P252H|ANK2_uc003ibg.3_Missense_Mutation_p.P71H|ANK2_uc003ibc.2_Missense_Mutation_p.P1052H|ANK2_uc011cgb.1_Missense_Mutation_p.P1091H	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1043	ZU5.|Interaction with SPTBN1.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TATGTCAGGCCTGTGATCGTG	0.507													35	70					9.04072e-19	1.00101e-18	1	1	0		A	114254212	A	A	114254212	3	1	73	1	0	0	0	0	1	0	0	0	621	681	24	5	3406	5	ANK2	4	114254212	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3338253	114254212	76900064	308	47545											
UGT8	7368	broad.mit.edu	37	chr4	115597177	115597177	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatagattatattattcgTcacaatggagcccatcacct	12	13	7	9	1	2	1	2	0	0	1	3	3	2	3	2	2	1	0	2	2	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:115597177T>C	uc003ibs.2	+	6	1881	c.1359T>C	c.(1357-1359)CGT>CGC	p.R453R	UGT8_uc003ibt.2_Silent_p.R453R|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	453					central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		ATATTATTCGTCACAATGGAG	0.443													12	112					0	0	1	0	0		C	115597177	C	C	115597177	2	2	73	1	0	0	0	0	0	0	0	1	16991	1654	58	3		3	UGT8	4	115597177	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1342965	115597177	75557099	309	47546											
PRDM5	11107	broad.mit.edu	37	chr4	121843735	121843735	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggaggacttcagggagAacctgtccggcacgtacatg	9	6	14	12	3	1	1	1	0	0	1	2	4	2	3	3	4	2	2	3	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:121843735A>G	uc003idn.2	-	1	279	c.29T>C	c.(28-30)TTC>TCC	p.F10S	PRDM5_uc003ido.2_Missense_Mutation_p.F10S|PRDM5_uc010ine.2_Missense_Mutation_p.F10S|PRDM5_uc010inf.2_Missense_Mutation_p.F10S|PRDM5_uc003idp.1_Missense_Mutation_p.F10S	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	10	SET.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						CTTCAGGGAGAACCTGTCCGG	0.587													3	10					0	0	1	0	0		G	121843735	G	G	121843735	3	3	73	1	0	0	0	0	1	0	0	0	12482	246	9	3	1927	3	PRDM5	4	121843735	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	6246558	121843735	69310541	310	47547											
BBS12	166379	broad.mit.edu	37	chr4	123664360	123664360	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttggtaatcggctcagtgaAtggcagtgtgatgcaggctt	8	12	15	6	1	1	2	1	2	0	0	2	2	1	2	0	4	1	6	0	4	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:123664360A>G	uc003ieu.2	+	2	1506	c.1313A>G	c.(1312-1314)AAT>AGT	p.N438S		NM_152618	NP_689831	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	438					cellular protein metabolic process	cilium	ATP binding			ovary(2)	2						GGCTCAGTGAATGGCAGTGTG	0.483									Bardet-Biedl_syndrome				11	82					0	0	1	0	0		G	123664360	G	G	123664360	3	3	73	1	0	0	0	0	1	0	0	0	1338	101	4	3	1315	3	BBS12	4	123664360	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1820625	123664360	67489916	311	47548											
PCDH18	54510	broad.mit.edu	37	chr4	138452697	138452697	+	Frame_Shift_Del	DEL	A	-	-																															ctggtccgaacctcgatattAaaaaaatcattggcagagag																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:138452697delA	uc003ihe.3	-	1	933	c.546delT	c.(544-546)TTTfs	p.F182fs	PCDH18_uc003ihf.3_Frame_Shift_Del_p.F175fs|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_5'UTR|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	182	Extracellular (Potential).|Cadherin 2.				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					CCTCGATATTAAAAAAATCAT	0.493													32	43	---	---	---	---						.	-	138452697	-	-	138452697	7	5	73	1	0	1	0	1	0	0	0	0	11532	359	13	0	2877	0	PCDH18	4	138452697	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	14788337	138452697	52701579	312	47549											
MAB21L2	10586	broad.mit.edu	37	chr4	151504409	151504409	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgcccaccgaatttgaggtGgtgctctacctaaaccagat	10	10	9	12	2	1	2	0	1	1	1	2	3	1	2	4	2	3	1	4	2	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:151504409G>T	uc003ilw.2	+	1	1333	c.228G>T	c.(226-228)GTG>GTT	p.V76V	LRBA_uc003ils.3_5'Flank|LRBA_uc003ilt.3_Intron|LRBA_uc003ilu.3_Intron|LRBA_uc010ipj.2_Intron	NM_006439	NP_006430	Q9Y586	MB212_HUMAN	mab-21-like protein 2	76					nervous system development	nucleus				ovary(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.159)		AATTTGAGGTGGTGCTCTACC	0.607													25	41					5.35356e-11	5.73146e-11	1	1	0		T	151504409	T	T	151504409	2	4	73	1	0	0	0	0	0	0	0	1	9160	1335	47	5		5	MAB21L2	4	151504409	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	13051712	151504409	39649867	313	47550											
FBXW7	55294	broad.mit.edu	37	chr4	153249385	153249385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatgaagatgcatacaacGcacagtggaagtatgcccat	14	9	9	9	1	1	2	1	1	0	1	1	3	1	3	1	1	4	3	1	1	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:153249385G>A	uc003ims.2	-	9	1542	c.1393C>T	c.(1393-1395)CGT>TGT	p.R465C	FBXW7_uc011cii.1_Missense_Mutation_p.R465C|FBXW7_uc003imt.2_Missense_Mutation_p.R465C|FBXW7_uc011cih.1_Missense_Mutation_p.R289C|FBXW7_uc003imq.2_Missense_Mutation_p.R385C|FBXW7_uc003imr.2_Missense_Mutation_p.R347C	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	465	WD 3.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in a acute lymphoblastic leukemia cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R465C(52)|p.R465H(36)|p.R465L(2)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TGCATACAACGCACAGTGGAA	0.413			Mis|N|D|F		colorectal|endometrial|T-ALL								67	156					0	0	1	0	0		A	153249385	A	A	153249385	3	1	73	1	0	0	0	0	1	0	0	0	5783	1087	38	1	746	1	FBXW7	4	153249385	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1744976	153249385	37904891	314	47551											
TRIM2	23321	broad.mit.edu	37	chr4	154216859	154216859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggcaacgcctacctcaccgCcgaactgagcacccccgacg	9	3	9	20	6	1	1	1	1	0	0	1	3	1	1	6	1	4	2	6	1	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:154216859C>T	uc003ing.2	+	6	1301	c.1100C>T	c.(1099-1101)GCC>GTC	p.A367V	TRIM2_uc003inh.2_Missense_Mutation_p.A394V	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	367	Filamin.					cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		TACCTCACCGCCGAACTGAGC	0.602													25	37					0	0	1	0	0		T	154216859	T	T	154216859	3	4	73	1	0	0	0	0	1	0	0	0	16520	739	26	2	1203	2	TRIM2	4	154216859	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	967474	154216859	36937417	315	47552											
PDGFC	56034	broad.mit.edu	37	chr4	157688944	157688944	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcgtggtattttttagtaActttgcttgggacacattga	8	17	9	7	1	0	1	0	1	0	0	1	2	0	2	1	2	2	3	1	2	3	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:157688944A>G	uc003iph.1	-	5	1393	c.902T>C	c.(901-903)GTT>GCT	p.V301A	PDGFC_uc003ipi.1_Missense_Mutation_p.V138A|PDGFC_uc011cis.1_Missense_Mutation_p.V138A|PDGFC_uc011cir.1_Missense_Mutation_p.V145A	NM_016205	NP_057289	Q9NRA1	PDGFC_HUMAN	platelet-derived growth factor C precursor	301					central nervous system development|platelet-derived growth factor receptor signaling pathway|positive regulation of cell division|positive regulation of DNA replication|positive regulation of fibroblast proliferation|vascular endothelial growth factor receptor signaling pathway	endoplasmic reticulum lumen|extracellular space|Golgi membrane|nucleus	cell surface binding|growth factor activity|platelet-derived growth factor receptor binding|protein homodimerization activity			ovary(1)|lung(1)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.08)|Kidney(143;0.0977)|COAD - Colon adenocarcinoma(41;0.212)		TTTTTTAGTAACTTTGCTTGG	0.398													28	46					0	0	1	0	0		G	157688944	G	G	157688944	3	3	73	1	0	0	0	0	1	0	0	0	11678	43	2	3	143	3	PDGFC	4	157688944	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3472085	157688944	33465332	316	47553											
FAM198B	51313	broad.mit.edu	37	chr4	159092074	159092074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcccttgccgcttcctgcgGctgaagggatggtccgacca	5	10	12	14	3	0	1	0	1	0	0	3	3	3	2	5	3	2	2	5	3	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:159092074G>A	uc003ipp.3	-	2	906	c.454C>T	c.(454-456)CCG>TCG	p.P152S	uc003ipu.1_5'Flank|FAM198B_uc003ipq.3_Missense_Mutation_p.P152S|FAM198B_uc003ipr.3_Missense_Mutation_p.P152S|FAM198B_uc003ips.2_Missense_Mutation_p.P152S|uc003ipt.1_RNA	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	152	Extracellular (Potential).					Golgi membrane|integral to membrane					0						GCTTCCTGCGGCTGAAGGGAT	0.617													34	55					0	0	1	0	0		A	159092074	A	A	159092074	3	1	73	1	0	0	0	0	1	0	0	0	5540	1203	42	2	1226	2	FAM198B	4	159092074	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1403130	159092074	32062202	317	47554											
NPY5R	4889	broad.mit.edu	37	chr4	164271917	164271917	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttctgatagctactgtctgGacactaggttttgccatctg	7	16	9	9	0	3	1	0	1	3	0	3	2	3	2	1	2	3	2	1	2	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:164271917G>A	uc003iqn.2	+	4	674	c.492G>A	c.(490-492)TGG>TGA	p.W164*		NM_006174	NP_006165	Q15761	NPY5R_HUMAN	neuropeptide Y receptor Y5	164	Helical; Name=4; (Potential).				cardiac left ventricle morphogenesis|outflow tract morphogenesis	integral to plasma membrane				lung(6)|skin(1)	7	all_hematologic(180;0.166)	Prostate(90;0.109)				CTACTGTCTGGACACTAGGTT	0.378													73	167					0	0	1	0	0		A	164271917	A	A	164271917	4	1	73	1	0	0	0	0	0	1	0	0	10629	1183	41	4	494	4	NPY5R	4	164271917	Nonsense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5179843	164271917	26882359	318	47555											
TLL1	7092	broad.mit.edu	37	chr4	167022027	167022027	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccacacataccaaaaaatAacaccaaaacctctgtcaga	20	6	2	13	0	2	1	1	0	1	1	2	1	2	1	4	0	4	0	4	0	8	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:167022027A>G	uc003irh.1	+	21	3688	c.3041A>G	c.(3040-3042)TAA>TGA	p.*1014*	TLL1_uc011cjn.1_Silent_p.*1037*|TLL1_uc011cjo.1_Silent_p.*838*	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	1014					cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		ACCAAAAAATAACACCAAAAC	0.313													16	39					0	0	1	0	0		G	167022027	G	G	167022027	2	3	73	1	0	0	0	0	0	0	0	1	15970	369	13	3		3	TLL1	4	167022027	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2750110	167022027	24132249	319	47556											
ODZ3	55714	broad.mit.edu	37	chr4	183710387	183710387	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggctgccaagcagcaagCtgatggccgtcaatgtcacc	9	8	11	13	1	3	1	2	1	1	0	3	1	3	1	3	2	4	4	3	2	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:183710387C>T	uc003ivd.1	+	24	5483	c.5446C>T	c.(5446-5448)CTG>TTG	p.L1816L		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1816	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		AAGCAGCAAGCTGATGGCCGT	0.512													6	17					0	0	1	0	0		T	183710387	T	T	183710387	2	4	73	1	0	0	0	0	0	0	0	1	10855	796	28	2		2	ODZ3	4	183710387	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	16688360	183710387	7443889	320	47557											
ODZ3	55714	broad.mit.edu	37	chr4	183721042	183721042	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accatcgagggcaaggacacGcactacttcatcaagaccac	14	5	8	14	2	2	1	2	0	0	1	3	3	2	2	2	2	1	2	2	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:183721042G>A	uc003ivd.1	+	27	7675	c.7638G>A	c.(7636-7638)ACG>ACA	p.T2546T		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2546	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GCAAGGACACGCACTACTTCA	0.612													8	12					0	0	1	0	0		A	183721042	A	A	183721042	2	1	73	1	0	0	0	0	0	0	0	1	10855	1074	38	1		1	ODZ3	4	183721042	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	10655	183721042	7433234	321	47558											
C4orf41	60684	broad.mit.edu	37	chr4	184614279	184614279	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagttcactgggacagcaTtataattcaggcaagcacaa	15	9	9	8	0	2	1	2	1	0	0	2	2	2	2	0	2	2	4	0	2	5	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:184614279T>C	uc003ivx.2	+	20	2392	c.2216T>C	c.(2215-2217)ATT>ACT	p.I739T	C4orf41_uc003ivw.2_Missense_Mutation_p.I739T|C4orf41_uc010isc.2_Missense_Mutation_p.I83T|C4orf41_uc003ivy.2_Missense_Mutation_p.I345T	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	739				Missing (in Ref. 3; BAB14556).							0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		TGGGACAGCATTATAATTCAG	0.378													22	35					0	0	1	0	0		C	184614279	C	C	184614279	3	2	73	1	0	0	0	0	1	0	0	0	2273	1493	52	3	2290	3	C4orf41	4	184614279	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	893237	184614279	6539997	322	47559											
CASP3	836	broad.mit.edu	37	chr4	185552304	185552304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtccagttctgtaccaCggcaggcctgggtgttagaa	9	9	12	11	1	1	1	0	0	1	1	2	1	2	1	3	3	1	4	3	3	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:185552304C>T	uc003iwh.2	-	7	754	c.491G>A	c.(490-492)CGT>CAT	p.R164H	CASP3_uc003iwg.2_Intron|CASP3_uc003iwi.2_Missense_Mutation_p.R164H	NM_004346	NP_004337	P42574	CASP3_HUMAN	caspase 3 preproprotein	164					activation of caspase activity by cytochrome c|DNA fragmentation involved in apoptotic nuclear change|negative regulation of apoptosis|nerve growth factor receptor signaling pathway|nuclear fragmentation involved in apoptotic nuclear change|proteolysis|response to tumor necrosis factor	cytosol|mitochondrion|nucleoplasm|plasma membrane	cysteine-type endopeptidase activity|protein binding			kidney(1)	1		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Colorectal(36;0.00139)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.057)|all_hematologic(60;0.0592)		all cancers(43;2.05e-27)|Epithelial(43;4.27e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.04e-11)|Colorectal(24;2e-05)|STAD - Stomach adenocarcinoma(60;2.35e-05)|GBM - Glioblastoma multiforme(59;4.94e-05)|COAD - Colon adenocarcinoma(29;0.00017)|BRCA - Breast invasive adenocarcinoma(30;0.000218)|LUSC - Lung squamous cell carcinoma(40;0.00904)|READ - Rectum adenocarcinoma(43;0.161)	Melatonin(DB01065)|Minocycline(DB01017)|Simvastatin(DB00641)	TTCTGTACCACGGCAGGCCTG	0.373													14	28					0	0	1	0	0		T	185552304	T	T	185552304	3	4	73	1	0	0	0	0	1	0	0	0	2675	536	19	1	350	1	CASP3	4	185552304	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	938025	185552304	5601972	323	47560											
SORBS2	8470	broad.mit.edu	37	chr4	186545480	186545480	+	Frame_Shift_Del	DEL	T	-	-																															tgctgctccagatttctgcgTtttgccgggccatttgccag																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr4:186545480delT	uc003iyl.2	-	13	1949	c.1091delA	c.(1090-1092)AACfs	p.N364fs	SORBS2_uc003iyh.2_Intron|SORBS2_uc011ckw.1_Intron|SORBS2_uc003iyi.2_Intron|SORBS2_uc011ckx.1_Intron|SORBS2_uc003iyk.2_Intron|SORBS2_uc003iym.2_Frame_Shift_Del_p.N464fs|SORBS2_uc003iyn.1_Intron|SORBS2_uc011cku.1_Intron|SORBS2_uc011ckv.1_Frame_Shift_Del_p.N268fs|SORBS2_uc003iyd.2_Intron|SORBS2_uc003iye.2_Intron|SORBS2_uc003iya.2_Intron|SORBS2_uc003iyb.2_Intron|SORBS2_uc003iyc.2_Intron|SORBS2_uc003iyg.2_Frame_Shift_Del_p.N478fs|SORBS2_uc003iyf.2_Intron|SORBS2_uc003iyo.1_Intron	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	364						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		GATTTCTGCGTTTTGCCGGGC	0.517													35	69	---	---	---	---						.	-	186545480	-	-	186545480	7	5	73	1	0	1	0	1	0	0	0	0	14953	1725	60	0	2247	0	SORBS2	4	186545480	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	993176	186545480	4608796	324	47561											
SLC6A19	340024	broad.mit.edu	37	chr5	1212549	1212549	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtgcctggcctgcgcaTggagcgtcctgtacatgtgc	4	11	14	12	2	0	0	0	0	0	0	1	1	1	1	3	2	6	3	3	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:1212549T>C	uc003jbw.3	+	4	669	c.613T>C	c.(613-615)TGG>CGG	p.W205R		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	205	Helical; Name=4; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GGCCTGCGCATGGAGCGTCCT	0.642													40	62					0	0	1	0	0		C	1212549	C	C	1212549	3	2	73	1	0	0	0	0	1	0	0	0	14707	1464	51	3	627	3	SLC6A19	5	1212549	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08		1212549	179702711	325	47562											
LPCAT1	79888	broad.mit.edu	37	chr5	1463936	1463936	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcagggtacatttctgcaaAcctgtggaagtcagctggaa	11	9	13	8	0	2	0	1	0	1	0	2	2	2	2	1	4	4	4	1	4	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:1463936A>G	uc003jcm.2	-	14	1552	c.1435T>C	c.(1435-1437)TTT>CTT	p.F479L	LPCAT1_uc003jcl.2_Missense_Mutation_p.F53L	NM_024830	NP_079106	Q8NF37	PCAT1_HUMAN	lysophosphatidylcholine acyltransferase 1	479	Lumenal (Potential).|EF-hand 2.				phospholipid biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(19;0.0274)|all cancers(22;0.0534)	GBM - Glioblastoma multiforme(108;0.156)		ATTTCTGCAAACCTGTGGAAG	0.532													43	96					0	0	1	0	0		G	1463936	G	G	1463936	3	3	73	1	0	0	0	0	1	0	0	0	8928	43	2	3	173	3	LPCAT1	5	1463936	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	251387	1463936	179451324	326	47563											
IRX2	153572	broad.mit.edu	37	chr5	2748625	2748625	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctggccctgcagcgccgcGttcaagttcccgtagtttgt	4	11	11	15	4	1	0	1	0	0	0	2	0	2	0	4	1	2	5	4	1	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:2748625G>A	uc003jda.2	-	3	1439	c.1197C>T	c.(1195-1197)AAC>AAT	p.N399N	IRX2_uc003jdb.2_Silent_p.N399N	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	399						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		GCAGCGCCGCGTTCAAGTTCC	0.711													12	20					0	0	1	0	0		A	2748625	A	A	2748625	2	1	73	1	0	0	0	0	0	0	0	1	7860	1136	40	1		1	IRX2	5	2748625	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1284689	2748625	178166635	327	47564											
SEMA5A	9037	broad.mit.edu	37	chr5	9154802	9154802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcactttcttaatggttcCgtaatctatgaaggtcacag	10	13	8	10	2	3	1	1	1	2	0	4	1	4	1	2	2	0	3	2	2	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:9154802C>T	uc003jek.2	-	12	1991	c.1279G>A	c.(1279-1281)GGA>AGA	p.G427R		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	427	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						TTAATGGTTCCGTAATCTATG	0.498													19	37					0	0	1	0	0		T	9154802	T	T	9154802	3	4	73	1	0	0	0	0	1	0	0	0	14062	661	23	1	1993	1	SEMA5A	5	9154802	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	6406177	9154802	171760458	328	47565											
CDH10	1008	broad.mit.edu	37	chr5	24487830	24487830	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctagcttattaaaccgaGggccccattctcggaggtaa	10	10	10	11	2	1	0	0	0	1	0	2	2	1	1	3	3	3	3	3	3	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:24487830G>C	uc003jgr.1	-	12	2641	c.2309C>G	c.(2308-2310)CCT>CGT	p.P770R	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	770	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ATTAAACCGAGGGCCCCATTC	0.408										HNSCC(23;0.051)			60	115					0	0	1	0	0		C	24487830	C	C	24487830	3	2	73	1	0	0	0	0	1	0	0	0	3099	1000	35	5	61	5	CDH10	5	24487830	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	15333028	24487830	156427430	329	47566											
CDH10	1008	broad.mit.edu	37	chr5	24492959	24492959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgtgaagtttggattgaCagcagctaaactgaaaaaaa	17	10	9	5	0	0	3	0	3	0	0	0	4	0	4	0	1	4	3	0	1	7	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:24492959C>T	uc003jgr.1	-	10	1923	c.1591G>A	c.(1591-1593)GTC>ATC	p.V531I	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	531	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TTTGGATTGACAGCAGCTAAA	0.338										HNSCC(23;0.051)			47	141					0	0	1	0	0		T	24492959	T	T	24492959	3	4	73	1	0	0	0	0	1	0	0	0	3099	478	17	4	787	4	CDH10	5	24492959	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5129	24492959	156422301	330	47567											
CDH6	1004	broad.mit.edu	37	chr5	31313439	31313439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcaggtactctgtagatcGacacacagatatggacagaa	14	10	9	8	1	2	3	1	0	1	3	3	5	2	4	0	2	1	2	0	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:31313439G>A	uc003jhe.1	+	8	1594	c.1268G>A	c.(1267-1269)CGA>CAA	p.R423Q	CDH6_uc003jhd.1_Missense_Mutation_p.R423Q	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	423	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						TCTGTAGATCGACACACAGAT	0.363													38	94					0	0	1	0	0		A	31313439	A	A	31313439	3	1	73	1	0	0	0	0	1	0	0	0	3117	1058	37	1	1294	1	CDH6	5	31313439	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6820480	31313439	149601821	331	47568											
C5orf22	55322	broad.mit.edu	37	chr5	31534463	31534463	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatttcgactcacatccaGacctccttattcctgtgaat	10	14	4	13	1	1	2	1	1	0	1	5	3	4	2	4	0	1	0	4	0	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:31534463G>T	uc003jhj.3	+	2	293	c.166G>T	c.(166-168)GAC>TAC	p.D56Y	RNASEN_uc003jhh.2_5'Flank|RNASEN_uc003jhg.2_5'Flank|RNASEN_uc003jhi.2_5'Flank|C5orf22_uc011cnw.1_RNA|C5orf22_uc003jhk.3_5'UTR	NM_018356	NP_060826	Q49AR2	CE022_HUMAN	hypothetical protein LOC55322	56										ovary(2)	2						CTCACATCCAGACCTCCTTAT	0.398													31	71					4.3181e-19	4.78839e-19	1	1	0		T	31534463	T	T	31534463	3	4	73	1	0	0	0	0	1	0	0	0	2288	942	33	5	172	5	C5orf22	5	31534463	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	221024	31534463	149380797	332	47569											
ADAMTS12	81792	broad.mit.edu	37	chr5	33881309	33881309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgagatggcagaggggggcaGaggaagccatcatcttaaca	13	6	15	7	0	2	3	1	1	1	3	2	5	2	4	1	5	2	2	1	5	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:33881309G>A	uc003jia.1	-	2	567	c.404C>T	c.(403-405)TCT>TTT	p.S135F	ADAMTS12_uc010iuq.1_Missense_Mutation_p.S135F|ADAMTS12_uc003jib.1_Missense_Mutation_p.S135F	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	135					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GAGGGGGGCAGAGGAAGCCAT	0.522										HNSCC(64;0.19)			30	74					0	0	1	0	0		A	33881309	A	A	33881309	3	1	73	1	0	0	0	0	1	0	0	0	257	942	33	4	4472	4	ADAMTS12	5	33881309	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2346846	33881309	147033951	333	47570											
RAI14	26064	broad.mit.edu	37	chr5	34823885	34823885	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactcaataaacaggtgagCgagctgtcacagctgtacaa	15	7	10	9	1	2	1	2	1	0	0	2	3	2	1	0	1	6	3	0	1	6	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:34823885C>T	uc003jir.2	+	15	2134	c.1938C>T	c.(1936-1938)AGC>AGT	p.S646S	RAI14_uc010iur.2_Silent_p.S617S|RAI14_uc011coj.1_Silent_p.S646S|RAI14_uc003jis.2_Silent_p.S649S|RAI14_uc003jit.2_Silent_p.S646S|RAI14_uc011cok.1_Silent_p.S638S	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	646	Potential.					cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					AACAGGTGAGCGAGCTGTCAC	0.443													22	48					0	0	1	0	0		T	34823885	T	T	34823885	2	4	73	1	0	0	0	0	0	0	0	1	13033	767	27	1		1	RAI14	5	34823885	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	942576	34823885	146091375	334	47571											
NIPBL	25836	broad.mit.edu	37	chr5	37027460	37027460	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattcttttcatcacccttaGgttgcagcatgcagagatac	10	13	8	10	0	3	1	2	0	1	1	3	3	3	1	1	1	4	4	1	1	2	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:37027460G>T	uc003jkl.3	+	32	6308	c.5809_splice	c.e32-1	p.V1937_splice	NIPBL_uc003jkk.3_Splice_Site_p.V1937_splice	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A						brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			ATCACCCTTAGGTTGCAGCAT	0.323													38	72					1.57945e-13	1.7098e-13	1	1	0		T	37027460	T	T	37027460	5	4	73	1	0	0	0	0	0	0	1	0	10447	1014	35	5	5930	5	NIPBL	5	37027460	Splice_Site	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2203575	37027460	143887800	335	47572											
NUP155	9631	broad.mit.edu	37	chr5	37309266	37309266	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaacattggaaaggtccActtgattgctaattttttga	13	14	7	7	0	0	2	0	2	0	0	1	3	1	3	1	2	2	1	1	2	3	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:37309266A>G	uc003jku.1	-	24	2850	c.2732T>C	c.(2731-2733)GTG>GCG	p.V911A	NUP155_uc003jkt.1_Missense_Mutation_p.V852A|NUP155_uc010iuz.1_Missense_Mutation_p.V847A	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	911					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGAAAGGTCCACTTGATTGCT	0.328													18	30					0	0	1	0	0		G	37309266	G	G	37309266	3	3	73	1	0	0	0	0	1	0	0	0	10775	159	6	3	1491	3	NUP155	5	37309266	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	281806	37309266	143605994	336	47573											
C9	735	broad.mit.edu	37	chr5	39289038	39289039	+	Frame_Shift_Del	DEL	TA	-	-																															cattttcactggaaccagatTatatataggagacagctgaa																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:39289038_39289039delTA	uc003jlv.3	-	10	1520_1521	c.1431_1432delTA	c.(1429-1434)TATAATfs	p.Y477fs		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	477_478	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			GGAACCAGATTATATATAGGAG	0.312													26	60	---	---	---	---						.	-	39289039	-	-	39289038	7	5	73	1	0	1	0	1	0	0	0	0	2446	1754	61	0	255	0	C9	5	39289038	Frame_Shift_Del	DEL	TA	TCGA-BR-8372-01A-11D-2340-08	1979772	39289038	141626222	337	47574											
DAB2	1601	broad.mit.edu	37	chr5	39376883	39376883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagtctgctctcccttcCgcgcgggcacagcaggtggc	7	7	13	14	3	2	1	0	0	2	1	4	1	3	1	2	3	2	3	2	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:39376883C>T	uc003jlx.2	-	12	2537	c.2006G>A	c.(2005-2007)CGG>CAG	p.R669Q	DAB2_uc003jlw.2_Missense_Mutation_p.R648Q	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	669	Required for interaction with MYO6 (By similarity).				cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			CTCTCCCTTCCGCGCGGGCAC	0.498											OREG0016586	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	36					0	0	1	0	0		T	39376883	T	T	39376883	3	4	73	1	0	0	0	0	1	0	0	0	4221	652	23	1	318	1	DAB2	5	39376883	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	87845	39376883	141538377	338	47575											
NNT	23530	broad.mit.edu	37	chr5	43653189	43653189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccacccagggaacagcaCgtcttggcaatgcactgggc	9	7	11	14	1	2	0	0	0	2	0	3	1	2	1	2	3	3	3	2	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:43653189C>T	uc003joe.2	+	14	2188	c.1933C>T	c.(1933-1935)CGT>TGT	p.R645C	NNT_uc003jof.2_Missense_Mutation_p.R645C	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	645					tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	GGGAACAGCACGTCTTGGCAA	0.542													22	36					0	0	1	0	0		T	43653189	T	T	43653189	3	4	73	1	0	0	0	0	1	0	0	0	10529	536	19	1	1983	1	NNT	5	43653189	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4276306	43653189	137262071	339	47576											
ADAMTS6	11174	broad.mit.edu	37	chr5	64510656	64510656	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcattctgaccaaggcTgatgattccatgtaaagcca	12	10	9	10	0	1	4	0	4	1	0	2	4	2	4	3	1	2	3	3	1	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:64510656T>C	uc003jtp.2	-	20	3354	c.2540A>G	c.(2539-2541)CAG>CGG	p.Q847R	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA|ADAMTS6_uc003jtr.1_Missense_Mutation_p.Q468R	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	847	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		TGACCAAGGCTGATGATTCCA	0.458													9	83					0	0	1	0	0		C	64510656	C	C	64510656	3	2	73	1	0	0	0	0	1	0	0	0	270	1580	55	3	837	3	ADAMTS6	5	64510656	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	20857467	64510656	116404604	340	47577											
TMEM171	134285	broad.mit.edu	37	chr5	72424344	72424344	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccccccttcatattacagTattttcaactatgggtaaga	13	13	5	10	0	2	1	2	0	0	1	2	1	2	1	3	1	3	2	3	1	7	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:72424344T>A	uc003kcm.2	+	3	972	c.768T>A	c.(766-768)AGT>AGA	p.S256R	TMEM171_uc003kcn.3_Missense_Mutation_p.S256R	NM_173490	NP_775761	Q8WVE6	TM171_HUMAN	transmembrane protein 171 isoform 1	256						integral to membrane					0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.87e-54)|Lung(70;0.115)		CATATTACAGTATTTTCAACT	0.448													10	114					0	0	1	0	0		A	72424344	A	A	72424344	3	1	73	1	0	0	0	0	1	0	0	0	16113	1635	57	5	774	5	TMEM171	5	72424344	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	7913688	72424344	108490916	341	47578											
GFM2	84340	broad.mit.edu	37	chr5	74028896	74028896	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaactgggatcttcacgcTgaagacatttcaacgcatgt	12	11	8	10	2	4	2	3	1	1	1	4	3	4	3	0	1	2	2	0	1	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:74028896T>C	uc003kdh.1	-	16	1842	c.1538A>G	c.(1537-1539)CAG>CGG	p.Q513R	GFM2_uc003kdi.1_Missense_Mutation_p.Q466R|GFM2_uc010izj.1_Missense_Mutation_p.Q545R|GFM2_uc010izk.1_RNA	NM_032380	NP_115756	Q969S9	RRF2M_HUMAN	mitochondrial elongation factor G2 isoform 1	513					mitochondrial translation|ribosome disassembly	mitochondrion	GTP binding|GTPase activity				0		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.86e-56)		ATCTTCACGCTGAAGACATTT	0.289													6	61					0	0	1	0	0		C	74028896	C	C	74028896	3	2	73	1	0	0	0	0	1	0	0	0	6357	1580	55	3	825	3	GFM2	5	74028896	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1604552	74028896	106886364	342	47579											
COL4A3BP	10087	broad.mit.edu	37	chr5	74712780	74712780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagtgttgcaaggattccaGcagtagttgctttaaaagtt	13	13	10	5	0	0	0	0	0	0	0	1	1	1	1	1	1	3	7	1	1	5	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:74712780G>A	uc011csu.1	-	7	1180	c.758C>T	c.(757-759)GCT>GTT	p.A253V	COL4A3BP_uc003kds.2_Missense_Mutation_p.A253V|COL4A3BP_uc003kdt.2_Missense_Mutation_p.A381V|COL4A3BP_uc003kdu.2_Missense_Mutation_p.A253V	NM_005713	NP_005704	Q9Y5P4	C43BP_HUMAN	alpha 3 type IV collagen binding protein isoform	253					ER to Golgi ceramide transport|immune response	cytosol|endoplasmic reticulum membrane|Golgi apparatus	ceramide binding|phosphatidylinositol-4-phosphate binding|protein binding|protein kinase activity			skin(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;1e-53)		AAGGATTCCAGCAGTAGTTGC	0.363													45	73					0	0	1	0	0		A	74712780	A	A	74712780	3	1	73	1	0	0	0	0	1	0	0	0	3695	971	34	2	1160	2	COL4A3BP	5	74712780	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	683884	74712780	106202480	343	47580											
IQGAP2	10788	broad.mit.edu	37	chr5	75954396	75954396	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacgattaagggaagaagtAgtgaccaagatcagggccaa	16	5	13	7	1	1	3	1	1	0	2	1	5	1	4	2	2	0	2	2	2	6	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:75954396A>G	uc003kek.2	+	21	2655	c.2433A>G	c.(2431-2433)GTA>GTG	p.V811V	IQGAP2_uc010izv.2_Silent_p.V364V|IQGAP2_uc011csv.1_Silent_p.V307V|IQGAP2_uc003kel.2_Silent_p.V307V	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	811					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		GGGAAGAAGTAGTGACCAAGA	0.448													21	62					0	0	1	0	0		G	75954396	G	G	75954396	2	3	73	1	0	0	0	0	0	0	0	1	7831	407	15	3		3	IQGAP2	5	75954396	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1241616	75954396	104960864	344	47581											
CMYA5	202333	broad.mit.edu	37	chr5	79034641	79034641	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccatcatgttctggagcgTgcagatgaagcaggcagtca	11	8	12	10	1	3	2	2	1	1	1	3	3	3	3	1	2	3	4	1	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:79034641T>C	uc003kgc.2	+	2	10125	c.10053T>C	c.(10051-10053)CGT>CGC	p.R3351R		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3351						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TTCTGGAGCGTGCAGATGAAG	0.488													34	43					0	0	1	0	0		C	79034641	C	C	79034641	2	2	73	1	0	0	0	0	0	0	0	1	3593	1683	59	3		3	CMYA5	5	79034641	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	3080245	79034641	101880619	345	47582											
MCC	4163	broad.mit.edu	37	chr5	112824010	112824010	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcatcctctcctcctcgccGgtgctggacgtgtcgctgct	2	11	11	17	5	1	0	0	0	1	0	6	1	3	1	4	2	2	4	4	2	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:112824010G>A	uc003kql.3	-	1	518	c.102C>T	c.(100-102)ACC>ACT	p.T34T		NM_001085377	NP_001078846	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 1	562					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		CCTCCTCGCCGGTGCTGGACG	0.378													9	11					0	0	1	0	0		A	112824010	A	A	112824010	2	1	73	1	0	0	0	0	0	0	0	1	9391	1103	39	1		1	MCC	5	112824010	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	33789369	112824010	68091250	346	47583											
ZNF608	57507	broad.mit.edu	37	chr5	123984684	123984684	+	Frame_Shift_Del	DEL	C	-	-																															ccgcctccctttcccattggCcccccctctgttcttattct																								rs151227213		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:123984684delC	uc003ktq.1	-	4	1516	c.1393delG	c.(1393-1395)GCCfs	p.A465fs	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Frame_Shift_Del_p.A465fs|ZNF608_uc003ktt.1_Frame_Shift_Del_p.A465fs	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	465						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		TTCCCATTGGCCCCCCCTCTG	0.627													44	87	---	---	---	---						.	-	123984684	-	-	123984684	7	5	73	1	0	1	0	1	0	0	0	0	18059	739	26	0	3169	0	ZNF608	5	123984684	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	11160674	123984684	56930576	347	47584											
GRAMD3	65983	broad.mit.edu	37	chr5	125819169	125819169	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcaggatttcaatgatgaAttctcagatctggatggagt	11	15	10	5	0	4	3	3	2	2	1	5	6	4	6	0	3	0	0	0	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:125819169A>T	uc003ktu.2	+	9	1180	c.750A>T	c.(748-750)GAA>GAT	p.E250D	GRAMD3_uc011cwt.1_Missense_Mutation_p.E265D|GRAMD3_uc011cwv.1_Missense_Mutation_p.E258D|GRAMD3_uc011cww.1_Missense_Mutation_p.E146D|GRAMD3_uc011cwx.1_RNA|GRAMD3_uc011cwy.1_Missense_Mutation_p.E141D|GRAMD3_uc011cwz.1_Missense_Mutation_p.E234D|GRAMD3_uc011cwu.1_Missense_Mutation_p.E234D	NM_023927	NP_076416	Q96HH9	GRAM3_HUMAN	GRAM domain containing 3 isoform 2	250										central_nervous_system(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0401)|OV - Ovarian serous cystadenocarcinoma(64;0.0604)|all cancers(49;0.108)		TCAATGATGAATTCTCAGATC	0.438													19	46					0	0	1	0	0		T	125819169	T	T	125819169	3	4	73	1	0	0	0	0	1	0	0	0	6767	98	4	5	998	5	GRAMD3	5	125819169	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1834485	125819169	55096091	348	47585											
GRAMD3	65983	broad.mit.edu	37	chr5	125821457	125821457	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatattcttatattctaTgcaattgtgtaagtacatga	13	16	5	7	0	2	1	0	1	2	0	2	1	2	1	1	0	2	3	1	0	7	9			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:125821457T>C	uc003ktu.2	+	11	1480	c.1050T>C	c.(1048-1050)TAT>TAC	p.Y350Y	GRAMD3_uc011cwt.1_Silent_p.Y365Y|GRAMD3_uc011cwv.1_Silent_p.Y358Y|GRAMD3_uc011cww.1_Silent_p.Y246Y|GRAMD3_uc011cwx.1_RNA|GRAMD3_uc011cwy.1_Silent_p.Y241Y|GRAMD3_uc011cwz.1_Silent_p.Y334Y	NM_023927	NP_076416	Q96HH9	GRAM3_HUMAN	GRAM domain containing 3 isoform 2	350										central_nervous_system(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0401)|OV - Ovarian serous cystadenocarcinoma(64;0.0604)|all cancers(49;0.108)		TTATATTCTATGCAATTGTGT	0.358													16	17					0	0	1	0	0		C	125821457	C	C	125821457	2	2	73	1	0	0	0	0	0	0	0	1	6767	1471	51	3		3	GRAMD3	5	125821457	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2288	125821457	55093803	349	47586											
MEGF10	84466	broad.mit.edu	37	chr5	126783248	126783248	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catttccttcccttcttgcaGgaacccttcctcacagcaat	8	13	4	16	0	2	0	1	0	1	0	5	1	5	1	4	1	3	2	4	1	2	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:126783248G>T	uc003kuh.3	+	22	3091	c.2729_splice	c.e22-1	p.G910_splice	MEGF10_uc003kui.3_Splice_Site_p.G910_splice	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor						cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		CCTTCTTGCAGGAACCCTTCC	0.423													36	60					2.1956e-27	2.46286e-27	1	1	0		T	126783248	T	T	126783248	5	4	73	1	0	0	0	0	0	0	1	0	9478	1014	35	5	2806	5	MEGF10	5	126783248	Splice_Site	SNP	G	TCGA-BR-8372-01A-11D-2340-08	961791	126783248	54132012	350	47587											
CHSY3	337876	broad.mit.edu	37	chr5	129243911	129243911	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtatgggaggacctggcaTgatctttagccgagaagttc	9	11	13	8	1	1	2	0	1	1	1	2	5	1	4	2	3	1	3	2	3	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:129243911T>C	uc003kvd.2	+	2	944	c.944T>C	c.(943-945)ATG>ACG	p.M315T		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	315	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		GGACCTGGCATGATCTTTAGC	0.502													24	33					0	0	1	0	0		C	129243911	C	C	129243911	3	2	73	1	0	0	0	0	1	0	0	0	3416	1464	51	3	950	3	CHSY3	5	129243911	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2460663	129243911	51671349	351	47588											
SEPT8	23176	broad.mit.edu	37	chr5	132096635	132096635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgcttttcctccaccttgCgcttctcctcctggtggacc	2	13	9	17	2	1	0	0	0	1	0	5	1	4	1	6	3	1	2	6	3	0	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:132096635C>T	uc003kxr.2	-	9	1383	c.1145G>A	c.(1144-1146)CGC>CAC	p.R382H	SEPT8_uc003kxs.1_Missense_Mutation_p.R382H|SEPT8_uc003kxu.2_Missense_Mutation_p.R382H|SEPT8_uc011cxi.1_Missense_Mutation_p.R380H|SEPT8_uc003kxv.2_Missense_Mutation_p.R380H|SEPT8_uc003kxt.2_Missense_Mutation_p.R322H	NM_001098811	NP_001092281	Q92599	SEPT8_HUMAN	septin 8 isoform a	382	Potential.				cell cycle	septin complex	GTP binding|protein binding			ovary(2)	2		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CTCCACCTTGCGCTTCTCCTC	0.627													54	83					0	0	1	0	0		T	132096635	T	T	132096635	3	4	73	1	0	0	0	0	1	0	0	0	14095	768	27	1	369	1	SEPT8	5	132096635	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2852724	132096635	48818625	352	47589											
SEC24A	10802	broad.mit.edu	37	chr5	133996998	133996998	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtggcctctaatccagTgacaccttcgcttcatagtg	8	12	8	13	1	2	1	1	1	1	0	4	1	3	1	4	1	0	1	4	1	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:133996998T>C	uc003kzs.2	+	2	575	c.287T>C	c.(286-288)GTG>GCG	p.V96A	SEC24A_uc011cxu.1_5'UTR	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A	96	Pro-rich.				COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCTAATCCAGTGACACCTTCG	0.493													49	112					0	0	1	0	0		C	133996998	C	C	133996998	3	2	73	1	0	0	0	0	1	0	0	0	14019	1696	59	3	293	3	SEC24A	5	133996998	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1900363	133996998	46918262	353	47590											
TGFBI	7045	broad.mit.edu	37	chr5	135382977	135382977	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcagattgtaactgtgaaCtgtgcccggctgctgaaagc	9	9	14	9	1	0	3	0	2	0	1	0	3	0	3	1	2	5	4	1	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:135382977C>T	uc003lbf.3	+	6	800	c.639C>T	c.(637-639)AAC>AAT	p.N213N	TGFBI_uc003lbg.3_5'UTR|TGFBI_uc003lbh.3_Silent_p.N39N|TGFBI_uc011cyb.1_Silent_p.N39N|TGFBI_uc010jed.2_5'Flank	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	213	FAS1 1.				angiogenesis|cell adhesion|cell proliferation|negative regulation of cell adhesion|response to stimulus|visual perception	extracellular space|proteinaceous extracellular matrix	integrin binding			breast(3)|ovary(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TAACTGTGAACTGTGCCCGGC	0.522													7	118					0	0	1	0	0		T	135382977	T	T	135382977	2	4	73	1	0	0	0	0	0	0	0	1	15845	564	20	4		4	TGFBI	5	135382977	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1385979	135382977	45532283	354	47591											
CDC23	8697	broad.mit.edu	37	chr5	137537824	137537824	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctatcaactgtttcatcGtccttctttttttctccaga	8	18	4	11	1	4	1	2	0	2	1	7	1	5	1	2	0	2	2	2	0	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:137537824G>A	uc003lcl.2	-	4	424	c.393C>T	c.(391-393)GAC>GAT	p.D131D		NM_004661	NP_004652	Q9UJX2	CDC23_HUMAN	cell division cycle protein 23	131					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1 phase of mitotic cell cycle|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase plate congression|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of exit from mitosis	anaphase-promoting complex|cytosol|nucleoplasm	binding|ubiquitin-protein ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CTGTTTCATCGTCCTTCTTTT	0.254													15	19					0	0	1	0	0		A	137537824	A	A	137537824	2	1	73	1	0	0	0	0	0	0	0	1	3064	1136	40	1		1	CDC23	5	137537824	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2154847	137537824	43377436	355	47592											
KDM3B	51780	broad.mit.edu	37	chr5	137756625	137756625	+	Frame_Shift_Del	DEL	C	-	-																															tggacacaggcataccctttCccccggtcttctctacatcc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:137756625delC	uc003lcy.1	+	15	4146	c.3946delC	c.(3946-3948)CCCfs	p.P1316fs	KDM3B_uc010jew.1_Frame_Shift_Del_p.P972fs|KDM3B_uc011cys.1_Frame_Shift_Del_p.P348fs	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	1316					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						CATACCCTTTCCCCCGGTCTT	0.502													87	32	---	---	---	---						.	-	137756625	-	-	137756625	7	5	73	1	0	1	0	1	0	0	0	0	8143	855	30	0	4004	0	KDM3B	5	137756625	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	218801	137756625	43158635	356	47593											
CTNNA1	1495	broad.mit.edu	37	chr5	138118937	138118937	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgttctaagaaggcccaTgttttggctgcatctgttga	7	14	12	8	1	2	2	0	1	2	1	3	2	2	2	1	3	1	5	1	3	2	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:138118937T>C	uc003ldh.2	+	3	272	c.177T>C	c.(175-177)CAT>CAC	p.H59H	CTNNA1_uc011cyx.1_Intron|CTNNA1_uc011cyy.1_5'UTR|CTNNA1_uc003ldi.2_Missense_Mutation_p.M1T|CTNNA1_uc003ldj.2_Silent_p.H59H	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	59	Involved in homodimerization.				adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding	p.H59Y(1)		breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AGAAGGCCCATGTTTTGGCTG	0.418													27	53					0	0	1	0	0		C	138118937	C	C	138118937	2	2	73	1	0	0	0	0	0	0	0	1	4015	1461	51	3		3	CTNNA1	5	138118937	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	362312	138118937	42796323	357	47594											
LRRTM2	26045	broad.mit.edu	37	chr5	138209437	138209437	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggcatcgtttcaaacacTgtcaagtcgatggctttgat	9	14	10	8	2	2	1	2	1	0	0	4	2	2	1	0	2	1	3	0	2	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:138209437T>C	uc011cyz.1	-	2	1270	c.813A>G	c.(811-813)ACA>ACG	p.T271T	CTNNA1_uc003ldh.2_Intron|CTNNA1_uc011cyx.1_Intron|CTNNA1_uc011cyy.1_Intron|CTNNA1_uc003ldi.2_Intron|CTNNA1_uc003ldj.2_Intron|LRRTM2_uc010jez.2_Intron|LRRTM2_uc011cza.1_Silent_p.T137T|CTNNA1_uc003ldl.2_5'Flank	NM_015564	NP_056379	O43300	LRRT2_HUMAN	leucine rich repeat transmembrane neuronal 2	271	LRR 9.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TTTCAAACACTGTCAAGTCGA	0.423													115	241					0	0	1	0	0		C	138209437	C	C	138209437	2	2	73	1	0	0	0	0	0	0	0	1	9058	1567	55	3		3	LRRTM2	5	138209437	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	90500	138209437	42705823	358	47595											
SLC4A9	83697	broad.mit.edu	37	chr5	139742537	139742537	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggccagcaaccttcatgAccttctggcagccctggatg	7	9	11	14	1	2	1	1	1	1	0	3	2	2	2	4	3	3	2	4	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:139742537A>T	uc003lfm.2	+	7	955	c.920A>T	c.(919-921)GAC>GTC	p.D307V	SLC4A9_uc003lfj.2_Missense_Mutation_p.D283V|SLC4A9_uc011czg.1_Missense_Mutation_p.D283V|SLC4A9_uc003lfl.2_Missense_Mutation_p.D283V|SLC4A9_uc003lfk.2_Missense_Mutation_p.D283V	NM_031467	NP_113655	Q96Q91	B3A4_HUMAN	solute carrier family 4, sodium bicarbonate	307	Cytoplasmic (Potential).					integral to membrane|plasma membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACCTTCATGACCTTCTGGCA	0.572											OREG0016461	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	111					0	0	1	0	0		T	139742537	T	T	139742537	3	4	73	1	0	0	0	0	1	0	0	0	14685	275	10	5	874	5	SLC4A9	5	139742537	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1533100	139742537	41172723	359	47596											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139893056	139893056	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttttaaaggaacttgatCtggaaaaggtgagtgggaaa	14	12	12	3	0	2	2	0	2	2	0	2	5	2	5	0	4	1	0	0	4	6	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:139893056C>A	uc003lfs.1	+	24	4433	c.4309C>A	c.(4309-4311)CTG>ATG	p.L1437M	ANKHD1_uc003lfq.1_Missense_Mutation_p.L1456M|ANKHD1_uc003lfr.2_Missense_Mutation_p.L1437M|ANKHD1_uc003lft.1_Missense_Mutation_p.L648M|ANKHD1_uc003lfu.1_Missense_Mutation_p.L917M|ANKHD1_uc003lfv.1_Missense_Mutation_p.L514M|ANKHD1-EIF4EBP3_uc011czh.1_Missense_Mutation_p.L176M|ANKHD1_uc003lfw.2_Missense_Mutation_p.L75M	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1437						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAACTTGATCTGGAAAAGGT	0.284													14	55					4.93089e-13	5.32595e-13	1	1	0		A	139893056	A	A	139893056	3	1	73	1	0	0	0	0	1	0	0	0	629	912	32	5	4403	5	ANKHD1-EIF4EBP3	5	139893056	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	150519	139893056	41022204	360	47597											
CD14	929	broad.mit.edu	37	chr5	140012551	140012551	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagcagcagcagcaacaaGcaggacgcgcgctcctgggg	10	2	16	13	3	0	0	0	0	0	0	1	1	1	1	1	4	6	7	1	4	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140012551G>C	uc003lgi.1	-	2	372	c.18C>G	c.(16-18)TGC>TGG	p.C6W	CD14_uc003lgj.1_Missense_Mutation_p.C6W	NM_000591	NP_000582	P08571	CD14_HUMAN	CD14 antigen precursor	6					apoptosis|cellular response to lipopolysaccharide|cellular response to lipoteichoic acid|inflammatory response|innate immune response|phagocytosis|positive regulation of tumor necrosis factor production|Toll signaling pathway	anchored to membrane|plasma membrane	lipopolysaccharide binding|lipoteichoic acid binding|opsonin receptor activity|peptidoglycan receptor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAGCAACAAGCAGGACGCGC	0.632													10	21					0	0	1	0	0		C	140012551	C	C	140012551	3	2	73	1	0	0	0	0	1	0	0	0	2967	963	34	5	1113	5	CD14	5	140012551	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	119495	140012551	40902709	361	47598											
WDR55	54853	broad.mit.edu	37	chr5	140044509	140044509	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctcagcatggaccgcacTtgtgaggagaggcccgctga	8	8	13	12	2	1	3	1	2	1	1	2	5	1	4	2	3	1	3	2	3	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140044509T>C	uc003lgr.3	+	1	126	c.12T>C	c.(10-12)ACT>ACC	p.T4T		NM_017706	NP_060176	Q9H6Y2	WDR55_HUMAN	WD repeat domain 55	4					rRNA processing	cytoplasm|nucleolus				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGACCGCACTTGTGAGGAGA	0.662													3	10					0	0	1	0	0		C	140044509	C	C	140044509	2	2	73	1	0	0	0	0	0	0	0	1	17333	1596	56	3		3	WDR55	5	140044509	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	31958	140044509	40870751	362	47599											
PCDHA4	56144	broad.mit.edu	37	chr5	140188560	140188560	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggcaaaggtgcgcgcGgtggatgctgactcgggcta	6	8	19	8	4	0	1	0	1	0	0	1	2	0	2	0	6	2	3	0	6	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140188560G>A	uc003lhi.2	+	1	1889	c.1788G>A	c.(1786-1788)GCG>GCA	p.A596A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.A596A|PCDHA4_uc011daa.1_Silent_p.A596A	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	596	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGTGCGCGCGGTGGATGCTG	0.697													33	69					0	0	1	0	0		A	140188560	A	A	140188560	2	1	73	1	0	0	0	0	0	0	0	1	11545	1103	39	1		1	PCDHA4	5	140188560	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	144051	140188560	40726700	363	47600											
PCDHA8	56140	broad.mit.edu	37	chr5	140221266	140221266	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaggttttccatgtggaCgtggaggtgaaggatgttaa	9	12	15	5	1	0	1	0	1	0	0	1	4	1	4	1	5	1	3	1	5	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140221266C>T	uc003lhs.2	+	1	360	c.360C>T	c.(358-360)GAC>GAT	p.D120D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.D120D	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	120	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCATGTGGACGTGGAGGTGA	0.567													69	154					0	0	1	0	0		T	140221266	T	T	140221266	2	4	73	1	0	0	0	0	0	0	0	1	11549	535	19	1		1	PCDHA8	5	140221266	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	32706	140221266	40693994	364	47601											
PCDHA8	56140	broad.mit.edu	37	chr5	140221296	140221296	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgttaatgacaacccGccagtgttccgggtaaaaga	14	8	11	8	2	0	2	0	1	0	1	1	3	1	3	3	2	1	3	3	2	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140221296G>A	uc003lhs.2	+	1	390	c.390G>A	c.(388-390)CCG>CCA	p.P130P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.P130P	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	130	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGACAACCCGCCAGTGTTCC	0.562													19	178					0	0	1	0	0		A	140221296	A	A	140221296	2	1	73	1	0	0	0	0	0	0	0	1	11549	1074	38	1		1	PCDHA8	5	140221296	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	30	140221296	40693964	365	47602											
PCDHA8	56140	broad.mit.edu	37	chr5	140222880	140222880	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggatcatggtgaacctgcGctgaccgccacggccacggt	9	6	13	13	4	1	2	1	2	0	0	1	3	1	3	4	4	2	1	4	4	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140222880G>A	uc003lhs.2	+	1	1974	c.1974G>A	c.(1972-1974)GCG>GCA	p.A658A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.A658A	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	658	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGAACCTGCGCTGACCGCCA	0.652													34	94					0	0	1	0	0		A	140222880	A	A	140222880	2	1	73	1	0	0	0	0	0	0	0	1	11549	1074	38	1		1	PCDHA8	5	140222880	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1584	140222880	40692380	366	47603											
PCDHB3	56132	broad.mit.edu	37	chr5	140481379	140481379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagacaacggaagagtgatGtgttccattgagaacaatct	14	9	12	6	1	1	4	0	2	1	3	2	7	2	5	1	2	2	1	1	2	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140481379G>A	uc003lio.2	+	1	1146	c.1146G>A	c.(1144-1146)ATG>ATA	p.M382I	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	382	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAAGAGTGATGTGTTCCATTG	0.473													20	93					0	0	1	0	0		A	140481379	A	A	140481379	3	1	73	1	0	0	0	0	1	0	0	0	11562	1377	48	4	1148	4	PCDHB3	5	140481379	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	258499	140481379	40433881	367	47604											
PCDHB5	26167	broad.mit.edu	37	chr5	140515740	140515740	+	Frame_Shift_Del	DEL	T	-	-																															ataatgacaacgcccccgaaTttttacaatcattctatgag																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140515740delT	uc003liq.2	+	1	941	c.724delT	c.(724-726)TTTfs	p.F242fs		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	242	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCCCCCGAATTTTTACAATC	0.517													130	251	---	---	---	---						.	-	140515740	-	-	140515740	7	5	73	1	0	1	0	1	0	0	0	0	11564	1493	52	0	726	0	PCDHB5	5	140515740	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	34361	140515740	40399520	368	47605											
PCDHB5	26167	broad.mit.edu	37	chr5	140516594	140516594	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacgaggccctgcaggcgttCgagttccgcgtgggagccac	6	7	15	13	5	0	0	0	0	0	0	2	3	1	1	3	3	3	3	3	3	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140516594C>T	uc003liq.2	+	1	1795	c.1578C>T	c.(1576-1578)TTC>TTT	p.F526F		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	526	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGCAGGCGTTCGAGTTCCGCG	0.687													33	60					0	0	1	0	0		T	140516594	T	T	140516594	2	4	73	1	0	0	0	0	0	0	0	1	11564	883	31	1		1	PCDHB5	5	140516594	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	854	140516594	40398666	369	47606											
PCDHB9	56127	broad.mit.edu	37	chr5	140569068	140569068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcctcggtgggtcgctgctCggtgcccgagggtccttttc	1	11	16	13	4	0	0	0	0	0	0	5	1	1	0	3	5	2	2	3	5	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140569068C>T	uc003liw.1	+	3	2177	c.2177C>T	c.(2176-2178)TCG>TTG	p.S726L	PCDHB10_uc003lix.2_5'Flank	NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	726	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGTCGCTGCTCGGTGCCCGAG	0.657													62	120					0	0	1	0	0		T	140569068	T	T	140569068	3	4	73	1	0	0	0	0	1	0	0	0	11568	875	31	1	2178	1	PCDHB9	5	140569068	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	52474	140569068	40346192	370	47607											
PCDHB11	56125	broad.mit.edu	37	chr5	140581656	140581656	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcaagttcctaaaaccggTtatccctaatatccaggcaa	14	11	5	11	1	1	0	1	0	0	0	4	0	4	0	4	2	1	3	4	2	7	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140581656T>C	uc003liy.2	+	1	2309	c.2309T>C	c.(2308-2310)GTT>GCT	p.V770A	PCDHB11_uc011daj.1_Missense_Mutation_p.V405A	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	770	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTAAAACCGGTTATCCCTAAT	0.443													15	94					0	0	1	0	0		C	140581656	C	C	140581656	3	2	73	1	0	0	0	0	1	0	0	0	11555	1725	60	3	2311	3	PCDHB11	5	140581656	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	12588	140581656	40333604	371	47608											
PCDHGB4	8641	broad.mit.edu	37	chr5	140768044	140768044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgagatggtattgaagaCacctttggacagagaaaagc	14	8	11	8	0	0	4	0	2	0	3	0	7	0	5	2	2	1	1	2	2	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140768044C>T	uc003lkc.1	+	1	593	c.593C>T	c.(592-594)ACA>ATA	p.T198I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.T198I	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	198	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTATTGAAGACACCTTTGGAC	0.433													25	77					0	0	1	0	0		T	140768044	T	T	140768044	3	4	73	1	0	0	0	0	1	0	0	0	11584	478	17	4	595	4	PCDHGB4	5	140768044	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	186388	140768044	40147216	372	47609											
PCDHGB4	8641	broad.mit.edu	37	chr5	140768489	140768489	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaacgccccagaagtgatAttccagtctctacccaacct	12	8	6	15	1	1	2	0	1	1	1	3	3	2	2	5	0	3	0	5	0	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140768489A>G	uc003lkc.1	+	1	1038	c.1038A>G	c.(1036-1038)ATA>ATG	p.I346M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.I346M	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	346	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGAAGTGATATTCCAGTCTC	0.468													5	65					0	0	1	0	0		G	140768489	G	G	140768489	3	3	73	1	0	0	0	0	1	0	0	0	11584	439	16	3	1040	3	PCDHGB4	5	140768489	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	445	140768489	40146771	373	47610											
PCDHGB5	56101	broad.mit.edu	37	chr5	140779134	140779134	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctggacttggggttgaaCggccaagtctcctactctat	8	11	11	11	1	2	1	0	1	2	0	3	3	2	2	3	4	2	1	3	4	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140779134C>T	uc003lkf.1	+	1	1440	c.1440C>T	c.(1438-1440)AAC>AAT	p.N480N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Silent_p.N480N	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	480	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGGTTGAACGGCCAAGTCT	0.597													15	27					0	0	1	0	0		T	140779134	T	T	140779134	2	4	73	1	0	0	0	0	0	0	0	1	11585	535	19	1		1	PCDHGB5	5	140779134	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	10645	140779134	40136126	374	47611											
PCDHGA12	26025	broad.mit.edu	37	chr5	140812079	140812079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccccgctccgcagagcccGgctacctggtgaccaaggtg	6	6	12	17	3	0	2	0	1	0	1	2	2	2	2	6	3	2	3	6	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:140812079G>A	uc003lkt.1	+	1	1922	c.1753G>A	c.(1753-1755)GGC>AGC	p.G585S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.G585S	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	585	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCAGAGCCCGGCTACCTGGT	0.677													56	97					0	0	1	0	0		A	140812079	A	A	140812079	3	1	73	1	0	0	0	0	1	0	0	0	11572	1116	39	1	1755	1	PCDHGA12	5	140812079	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	32945	140812079	40103181	375	47612											
GRXCR2	643226	broad.mit.edu	37	chr5	145246164	145246164	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctttgttcatcagagacTcttcctcagcctcctcttcc	5	16	4	16	0	6	1	3	0	3	1	9	2	9	1	4	0	1	1	4	0	0	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:145246164T>G	uc003lns.1	-	2	464	c.464A>C	c.(463-465)GAG>GCG	p.E155A		NM_001080516	NP_001073985	A6NFK2	GRCR2_HUMAN	glutaredoxin, cysteine rich 2	155											0						CATCAGAGACTCTTCCTCAGC	0.443													47	84					0	0	1	0	0		G	145246164	G	G	145246164	3	3	73	1	0	0	0	0	1	0	0	0	6829	1551	54	5	290	5	GRXCR2	5	145246164	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4434085	145246164	35669096	376	47613											
GRXCR2	643226	broad.mit.edu	37	chr5	145246209	145246209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaattttcctcacaaaaTctctcttgtccattggggtt	9	15	8	9	0	3	1	1	0	2	1	6	2	5	1	2	3	0	1	2	3	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:145246209T>C	uc003lns.1	-	2	419	c.419A>G	c.(418-420)GAT>GGT	p.D140G		NM_001080516	NP_001073985	A6NFK2	GRCR2_HUMAN	glutaredoxin, cysteine rich 2	140											0						CCTCACAAAATCTCTCTTGTC	0.418													24	78					0	0	1	0	0		C	145246209	C	C	145246209	3	2	73	1	0	0	0	0	1	0	0	0	6829	1435	50	3	335	3	GRXCR2	5	145246209	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	45	145246209	35669051	377	47614											
TCERG1	10915	broad.mit.edu	37	chr5	145838519	145838519	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttaaggttattcagcaaTcagaactgacacctatgctt	13	12	8	8	0	2	2	2	1	0	1	2	3	2	2	1	1	3	4	1	1	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:145838519T>C	uc003lob.2	+	4	551	c.511T>C	c.(511-513)TCA>CCA	p.S171P	TCERG1_uc003loc.2_Missense_Mutation_p.S171P|TCERG1_uc011dbt.1_Missense_Mutation_p.S171P	NM_006706	NP_006697	O14776	TCRG1_HUMAN	transcription elongation regulator 1 isoform 1	171	Ala/Gln-rich.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			ovary(1)|skin(1)	2		Lung NSC(249;0.00188)|all_lung(500;0.00307)|all_neural(839;0.0424)|Breast(839;0.0743)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TATTCAGCAATCAGAACTGAC	0.259													37	78					0	0	1	0	0		C	145838519	C	C	145838519	3	2	73	1	0	0	0	0	1	0	0	0	15710	1435	50	3	525	3	TCERG1	5	145838519	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	592310	145838519	35076741	378	47615											
ADRB2	154	broad.mit.edu	37	chr5	148206692	148206692	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattcttatgaaaatgtggActtttggcaacttctggtgc	10	16	9	6	0	2	1	0	1	2	0	2	2	2	2	0	3	2	1	0	3	5	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:148206692A>G	uc003lpr.1	+	1	537	c.298A>G	c.(298-300)ACT>GCT	p.T100A	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	100	Extracellular.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	GAAAATGTGGACTTTTGGCAA	0.532													25	49					0	0	1	0	0		G	148206692	G	G	148206692	3	3	73	1	0	0	0	0	1	0	0	0	341	275	10	3	300	3	ADRB2	5	148206692	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2368173	148206692	32708568	379	47616											
IL17B	27190	broad.mit.edu	37	chr5	148754068	148754068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggcacgctcaccatgctgCggtcctcctgcatggtgaag	6	8	12	15	3	1	1	1	1	0	0	3	1	3	1	4	3	3	4	4	3	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:148754068C>T	uc003lqo.2	-	3	457	c.407G>A	c.(406-408)CGC>CAC	p.R136H		NM_014443	NP_055258	Q9UHF5	IL17B_HUMAN	interleukin 17B precursor	136					cell-cell signaling|immune response|inflammatory response	extracellular space	cytokine activity|signal transducer activity	p.R136C(1)		central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACCATGCTGCGGTCCTCCTG	0.692													9	33					0	0	1	0	0		T	148754068	T	T	148754068	3	4	73	1	0	0	0	0	1	0	0	0	7651	768	27	1	139	1	IL17B	5	148754068	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	547376	148754068	32161192	380	47617											
NDST1	3340	broad.mit.edu	37	chr5	149900850	149900850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgcctccggaggctgtgtCggcacgtgtccccgcaggct	4	8	14	15	4	0	0	0	0	0	0	3	1	2	1	4	4	1	4	4	4	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:149900850C>T	uc003lsk.3	+	2	536	c.34C>T	c.(34-36)CGG>TGG	p.R12W	NDST1_uc011dcj.1_Missense_Mutation_p.R12W|NDST1_uc003lsl.2_Missense_Mutation_p.R12W	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	12	Cytoplasmic (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAGGCTGTGTCGGCACGTGTC	0.642													13	43					0	0	1	0	0		T	149900850	T	T	149900850	3	4	73	1	0	0	0	0	1	0	0	0	10274	875	31	1	36	1	NDST1	5	149900850	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1146782	149900850	31014410	381	47618											
SYNPO	11346	broad.mit.edu	37	chr5	150029322	150029322	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcacggatggagaaatatgtCatcgagtcttcaagccacac	13	9	9	10	2	4	1	3	0	1	1	5	4	4	2	1	2	1	0	1	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:150029322C>T	uc003lsn.2	+	3	2591	c.2217C>T	c.(2215-2217)GTC>GTT	p.V739V	SYNPO_uc003lso.3_Silent_p.V495V|SYNPO_uc003lsp.2_Silent_p.V495V	NM_001109974	NP_001103444	Q8N3V7	SYNPO_HUMAN	synaptopodin isoform B	739					positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGAAATATGTCATCGAGTCTT	0.622													24	60					0	0	1	0	0		T	150029322	T	T	150029322	2	4	73	1	0	0	0	0	0	0	0	1	15481	813	29	4		4	SYNPO	5	150029322	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	128472	150029322	30885938	382	47619											
SLC36A1	206358	broad.mit.edu	37	chr5	150867571	150867571	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatcctcatcccccgccTggacctggtcatctccctgg	4	9	9	19	1	3	0	2	0	1	0	6	1	5	1	7	4	0	0	7	4	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:150867571T>C	uc003luc.2	+	11	1404	c.1187T>C	c.(1186-1188)CTG>CCG	p.L396P	GM2A_uc011dcs.1_Intron	NM_078483	NP_510968	Q7Z2H8	S36A1_HUMAN	solute carrier family 36 member 1	396	Extracellular (Potential).				cellular nitrogen compound metabolic process|ion transport	endoplasmic reticulum|integral to membrane|lysosomal membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			skin(1)	1		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)|all_neural(839;0.138)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Glycine(DB00145)|L-Alanine(DB00160)	ATCCCCCGCCTGGACCTGGTC	0.612													15	27					0	0	1	0	0		C	150867571	C	C	150867571	3	2	73	1	0	0	0	0	1	0	0	0	14618	1580	55	3	1225	3	SLC36A1	5	150867571	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	838249	150867571	30047689	383	47620											
FAT2	2196	broad.mit.edu	37	chr5	150945734	150945734	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgcactggggagagttgTcgttgacatcctccaatgtg	8	12	13	8	1	0	3	0	2	0	1	3	4	2	3	2	2	1	3	2	2	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:150945734T>C	uc003lue.3	-	1	2772	c.2759A>G	c.(2758-2760)GAC>GGC	p.D920G	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.D920G	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	920	Extracellular (Potential).|Cadherin 7.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGGAGAGTTGTCGTTGACATC	0.547													15	28					0	0	1	0	0		C	150945734	C	C	150945734	3	2	73	1	0	0	0	0	1	0	0	0	5704	1667	58	3	10382	3	FAT2	5	150945734	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	78163	150945734	29969526	384	47621											
KIF4B	285643	broad.mit.edu	37	chr5	154394309	154394309	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaagttaactcgactgcTgcaagattctctaggaggta	11	12	9	9	1	1	1	0	0	1	1	4	3	2	2	1	2	3	4	1	2	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:154394309T>C	uc010jih.1	+	1	1050	c.890T>C	c.(889-891)CTG>CCG	p.L297P		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	297	Kinesin-motor.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			ACTCGACTGCTGCAAGATTCT	0.463													66	155					0	0	1	0	0		C	154394309	C	C	154394309	3	2	73	1	0	0	0	0	1	0	0	0	8320	1580	55	3	892	3	KIF4B	5	154394309	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	3448575	154394309	26520951	385	47622											
ADAM19	8728	broad.mit.edu	37	chr5	156918635	156918635	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcactcactctcagggggcaTaggcccactgtcgatactgc	8	8	11	14	1	2	0	2	0	1	0	4	1	2	0	1	3	2	2	1	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:156918635T>C	uc003lwz.2	-	18	2147	c.2083A>G	c.(2083-2085)ATG>GTG	p.M695V	ADAM19_uc003lww.1_Missense_Mutation_p.M428V|ADAM19_uc003lwy.2_Missense_Mutation_p.M294V|ADAM19_uc011ddr.1_Missense_Mutation_p.M626V	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	695	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TCAGGGGGCATAGGCCCACTG	0.637													5	10					0	0	1	0	0		C	156918635	C	C	156918635	3	2	73	1	0	0	0	0	1	0	0	0	240	1406	49	3	697	3	ADAM19	5	156918635	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2524326	156918635	23996625	386	47623											
SOX30	11063	broad.mit.edu	37	chr5	157078216	157078216	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttagtaggcactggtgtcaGggggaccttggtcaatctta	8	13	13	7	0	3	0	2	0	1	0	3	1	3	1	1	5	0	2	1	5	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:157078216G>T	uc003lxb.1	-	1	1213	c.871C>A	c.(871-873)CTG>ATG	p.L291M	SOX30_uc003lxc.1_Missense_Mutation_p.L291M|SOX30_uc011dds.1_Intron	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	291					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ACTGGTGTCAGGGGGACCTTG	0.547													30	65					1.75199e-13	1.89516e-13	1	1	0		T	157078216	T	T	157078216	3	4	73	1	0	0	0	0	1	0	0	0	14977	991	35	5	1410	5	SOX30	5	157078216	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	159581	157078216	23837044	387	47624											
WWC1	23286	broad.mit.edu	37	chr5	167887732	167887732	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactccctggagcgacgcagCgtccggatgaagcgggtaag	10	5	15	11	5	0	1	0	1	0	0	2	4	2	3	2	3	4	2	2	3	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:167887732C>T	uc003lzu.2	+	20	2994	c.2901C>T	c.(2899-2901)AGC>AGT	p.S967S	WWC1_uc003lzv.2_Silent_p.S967S|WWC1_uc011den.1_Silent_p.S967S|WWC1_uc003lzw.2_Silent_p.S766S|WWC1_uc010jjf.1_Silent_p.S239S	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	967	Interaction with PRKCZ.|Interaction with histone H3.				cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		AGCGACGCAGCGTCCGGATGA	0.517													17	28					0	0	1	0	0		T	167887732	T	T	167887732	2	4	73	1	0	0	0	0	0	0	0	1	17437	767	27	1		1	WWC1	5	167887732	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	10809516	167887732	13027528	388	47625											
DOCK2	1794	broad.mit.edu	37	chr5	169141166	169141166	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctgtcagctcccgggaTgtgttctccatttccaccct	4	15	7	15	1	3	0	1	0	2	0	6	1	5	1	4	1	1	2	4	1	0	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:169141166T>C	uc003maf.2	+	18	1874	c.1794T>C	c.(1792-1794)GAT>GAC	p.D598D	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.D90D|DOCK2_uc010jjl.1_Silent_p.D116D	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	598	DHR-1.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCTCCCGGGATGTGTTCTCCA	0.502													13	41					0	0	1	0	0		C	169141166	C	C	169141166	2	2	73	1	0	0	0	0	0	0	0	1	4693	1461	51	3		3	DOCK2	5	169141166	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1253434	169141166	11774094	389	47626											
DOCK2	1794	broad.mit.edu	37	chr5	169435557	169435557	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcacccaggattctctgcaGctggagcagttctcacacgc	9	9	9	14	1	3	0	2	0	2	0	5	2	3	2	1	2	3	4	1	2	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:169435557G>A	uc003maf.2	+	31	3209	c.3129G>A	c.(3127-3129)CAG>CAA	p.Q1043Q	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.Q535Q	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1043	Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATTCTCTGCAGCTGGAGCAGT	0.448													5	70					0	0	1	0	0		A	169435557	A	A	169435557	2	1	73	1	0	0	0	0	0	0	0	1	4693	962	34	2		2	DOCK2	5	169435557	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	294391	169435557	11479703	390	47627											
FOXI1	2299	broad.mit.edu	37	chr5	169533111	169533111	+	Frame_Shift_Del	DEL	G	-	-																															cctcagcggccctccttcgaGgggggcggcgagtatggggc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:169533111delG	uc003mai.3	+	1	195	c.150delG	c.(148-150)GAGfs	p.E50fs	FOXI1_uc003maj.3_Frame_Shift_Del_p.E50fs	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	50	Pro-rich.				epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCTCCTTCGAGGGGGGCGGCG	0.682									Pendred_syndrome				15	21	---	---	---	---						.	-	169533111	-	-	169533111	7	5	73	1	0	1	0	1	0	0	0	0	6023	991	35	0	152	0	FOXI1	5	169533111	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	97554	169533111	11382149	391	47628											
NPM1	4869	broad.mit.edu	37	chr5	170827872	170827872	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatactccagccaaaaatgcAcaaaagtcaaatcagaatgg	19	6	7	9	0	2	1	2	0	0	1	3	2	3	1	2	1	3	1	2	1	7	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:170827872A>G	uc011dex.1	+	9	747	c.612A>G	c.(610-612)GCA>GCG	p.A204A	NPM1_uc003mbh.2_Silent_p.A204A|NPM1_uc003mbi.2_Silent_p.A204A|NPM1_uc003mbj.2_Intron	NM_002520	NP_002511	P06748	NPM_HUMAN	nucleophosmin 1 isoform 1	204					anti-apoptosis|cell aging|CenH3-containing nucleosome assembly at centromere|centrosome cycle|DNA repair|interspecies interaction between organisms|intracellular protein transport|negative regulation of cell proliferation|negative regulation of centrosome duplication|nucleocytoplasmic transport|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|regulation of endodeoxyribonuclease activity|regulation of endoribonuclease activity|ribosome assembly|signal transduction	nucleolus|nucleoplasm|ribonucleoprotein complex|spindle pole centrosome	histone binding|NF-kappaB binding|protein binding|protein heterodimerization activity|protein homodimerization activity|ribosomal large subunit binding|ribosomal small subunit binding|RNA binding|Tat protein binding|transcription coactivator activity|unfolded protein binding		NPM1/ALK(632)	haematopoietic_and_lymphoid_tissue(3109)|skin(1)	3110	Renal(175;0.000159)|Lung NSC(126;0.00576)|all_lung(126;0.00963)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CCAAAAATGCACAAAAGTCAA	0.398			T|F 	ALK|RARA|MLF1	NHL|APL|AML								14	50					0	0	1	0	0		G	170827872	G	G	170827872	2	3	73	1	0	0	0	0	0	0	0	1	10606	146	6	3		3	NPM1	5	170827872	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1294761	170827872	10087388	392	47629											
CPEB4	80315	broad.mit.edu	37	chr5	173317507	173317507	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtctcctgccagtccccaTcccccacccttcacacatag	8	8	5	20	0	2	0	1	0	1	0	5	0	4	0	7	1	1	0	7	1	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:173317507T>C	uc003mcs.3	+	1	2177	c.771T>C	c.(769-771)CAT>CAC	p.H257H	CPEB4_uc010jju.1_Silent_p.H257H|CPEB4_uc010jjv.2_Silent_p.H257H|CPEB4_uc011dfg.1_Silent_p.H257H|CPEB4_uc003mct.3_5'Flank|CPEB4_uc003mcu.3_5'Flank	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	257							nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CCAGTCCCCATCCCCCACCCT	0.542													34	145					0	0	1	0	0		C	173317507	C	C	173317507	2	2	73	1	0	0	0	0	0	0	0	1	3806	1432	50	3		3	CPEB4	5	173317507	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2489635	173317507	7597753	393	47630											
CDHR2	54825	broad.mit.edu	37	chr5	176004429	176004429	+	Frame_Shift_Del	DEL	G	-	-																															ggcaccttcctgttgtcgctGgggggccccgatgcagaagc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:176004429delG	uc003mem.1	+	13	1290	c.1224delG	c.(1222-1224)CTGfs	p.L408fs	CDHR2_uc003men.1_Frame_Shift_Del_p.L408fs	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	408	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						TGTTGTCGCTGGGGGGCCCCG	0.652													4	7	---	---	---	---						.	-	176004429	-	-	176004429	7	5	73	1	0	1	0	1	0	0	0	0	3122	1335	47	0	1270	0	CDHR2	5	176004429	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	2686922	176004429	4910831	394	47631											
DOK3	79930	broad.mit.edu	37	chr5	176931771	176931771	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccgaacttgcgcaggaaGtggtagggccagctgtagag	10	6	17	8	2	0	1	0	0	0	1	0	4	0	2	2	3	4	4	2	3	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:176931771G>T	uc003mhk.2	-	5	791	c.786C>A	c.(784-786)CAC>CAA	p.H262Q	DOK3_uc003mhh.3_Missense_Mutation_p.H92Q|DOK3_uc003mhi.3_Missense_Mutation_p.H206Q|DOK3_uc003mhj.3_Missense_Mutation_p.H104Q|DOK3_uc003mhl.2_Missense_Mutation_p.H206Q	NM_024872	NP_079148	Q7L591	DOK3_HUMAN	docking protein 3 isoform 1	262	IRS-type PTB.					cytoplasm|plasma membrane	insulin receptor binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			TGCGCAGGAAGTGGTAGGGCC	0.682													20	35					1.40151e-16	1.53775e-16	1	1	0		T	176931771	T	T	176931771	3	4	73	1	0	0	0	0	1	0	0	0	4704	1020	36	5	1064	5	DOK3	5	176931771	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	927342	176931771	3983489	395	47632											
AGXT2L2	85007	broad.mit.edu	37	chr5	177651531	177651531	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggttggggtggtcctccCggtaggggccccggtaggtg	2	9	20	10	2	0	0	0	0	0	0	2	0	2	0	4	9	0	3	4	9	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr5:177651531C>T	uc003miz.2	-	6	788	c.536G>A	c.(535-537)CGG>CAG	p.R179Q	AGXT2L2_uc003miy.2_5'UTR|AGXT2L2_uc003mjc.2_Missense_Mutation_p.R138Q|AGXT2L2_uc003mja.2_RNA|AGXT2L2_uc003mjb.2_Intron|AGXT2L2_uc003mjd.1_Missense_Mutation_p.R37Q	NM_153373	NP_699204	Q8IUZ5	AT2L2_HUMAN	alanine-glyoxylate aminotransferase 2-like 2	179						mitochondrion	pyridoxal phosphate binding|transaminase activity			pancreas(1)	1	all_cancers(89;0.00185)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.181)|all cancers(165;0.235)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	GTGGTCCTCCCGGTAGGGGCC	0.627													17	34					0	0	1	0	0		T	177651531	T	T	177651531	3	4	73	1	0	0	0	0	1	0	0	0	407	652	23	1	844	1	AGXT2L2	5	177651531	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	719760	177651531	3263729	396	47633											
LYRM4	57128	broad.mit.edu	37	chr6	5216852	5216852	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcattgaaccatcttaccTgtcgacgaattactccaagg	12	11	6	12	2	2	1	1	1	1	0	4	3	3	1	3	1	3	0	3	1	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:5216852T>G	uc003mwp.2	-	2	408	c.206A>C	c.(205-207)CAG>CCG	p.Q69P	LYRM4_uc010jnu.2_Missense_Mutation_p.Q69P|LYRM4_uc003mwq.2_Intron|uc003mwn.1_Intron	NM_020408	NP_065141	Q9HD34	LYRM4_HUMAN	LYR motif containing 4 isoform 1	69						mitochondrion|nucleus					0	Ovarian(93;0.11)	all_hematologic(90;0.0901)				CCATCTTACCTGTCGACGAAT	0.373													26	64					0	0	1	0	0		G	5216852	G	G	5216852	3	3	73	1	0	0	0	0	1	0	0	0	9139	1594	55	5	355	5	LYRM4	6	5216852	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08		5216852	165898215	397	47634											
NEDD9	4739	broad.mit.edu	37	chr6	11193914	11193914	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagccatggcctgtcctcacGggggttatcacctgtgggag	6	10	14	11	1	2	0	2	0	0	0	3	1	3	1	4	4	1	1	4	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:11193914G>A	uc003mzv.2	-	3	638	c.471C>T	c.(469-471)CCC>CCT	p.P157P	NEDD9_uc010joz.2_Silent_p.P157P|NEDD9_uc003mzw.3_Silent_p.P11P	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	157	Interacts strongly with spindle- regulatory protein D1M1.				actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			CTGTCCTCACGGGGGTTATCA	0.507													14	23					0	0	1	0	0		A	11193914	A	A	11193914	2	1	73	1	0	0	0	0	0	0	0	1	10332	1103	39	1		1	NEDD9	6	11193914	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5977062	11193914	159921153	398	47635											
MYLIP	29116	broad.mit.edu	37	chr6	16145267	16145267	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaacatcaaaggaggtgTatgaccatgccaggagggct	15	6	13	7	0	1	2	1	1	0	1	1	4	1	4	2	4	2	2	2	4	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:16145267T>C	uc003nbq.2	+	6	1204	c.967T>C	c.(967-969)TAT>CAT	p.Y323H	MYLIP_uc003nbr.2_Missense_Mutation_p.Y142H	NM_013262	NP_037394	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting	323					cellular component movement|nervous system development	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)			AAAGGAGGTGTATGACCATGC	0.458													62	115					0	0	1	0	0		C	16145267	C	C	16145267	3	2	73	1	0	0	0	0	1	0	0	0	10073	1638	57	3	989	3	MYLIP	6	16145267	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4951353	16145267	154969800	399	47636											
KIF13A	63971	broad.mit.edu	37	chr6	17837127	17837128	+	Frame_Shift_Del	DEL	CT	-	-																															acctctgcctgagagagctgCtctctcagtttctcgacttc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:17837127_17837128delCT	uc003ncg.3	-	11	1241_1242	c.1136_1137delAG	c.(1135-1137)GAGfs	p.E379fs	KIF13A_uc003ncf.2_Frame_Shift_Del_p.E379fs|KIF13A_uc003nch.3_Frame_Shift_Del_p.E379fs|KIF13A_uc003nci.3_Frame_Shift_Del_p.E379fs|KIF13A_uc003ncj.2_Frame_Shift_Del_p.E55fs	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	379	Potential.				cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			GAGAGAGCTGCTCTCTCAGTTT	0.525													92	167	---	---	---	---						.	-	17837128	-	-	17837127	7	5	73	1	0	1	0	1	0	0	0	0	8290	796	28	0	4421	0	KIF13A	6	17837127	Frame_Shift_Del	DEL	CT	TCGA-BR-8372-01A-11D-2340-08	1691860	17837127	153277940	400	47637											
HFE	3077	broad.mit.edu	37	chr6	26093138	26093138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggggaagagcagagatataCgtgccaggtggagcacccag	12	5	16	8	1	0	2	0	0	0	2	0	5	0	4	2	4	4	2	2	4	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:26093138C>T	uc003nfx.1	+	4	1002	c.842C>T	c.(841-843)ACG>ATG	p.T281M	HFE_uc003nfy.1_Missense_Mutation_p.T258M|HFE_uc010jqe.1_Missense_Mutation_p.T278M|HFE_uc003nfz.1_Missense_Mutation_p.T193M|HFE_uc003ngd.1_Missense_Mutation_p.T179M|HFE_uc003nga.1_Missense_Mutation_p.T267M|HFE_uc003ngb.1_Missense_Mutation_p.T175M|HFE_uc003ngc.1_Missense_Mutation_p.T189M|HFE_uc003nge.1_Missense_Mutation_p.T101M|HFE_uc003ngf.1_Intron	NM_000410	NP_000401	Q30201	HFE_HUMAN	hemochromatosis protein isoform 1 precursor	281	Alpha-3.|Ig-like C1-type.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|cellular iron ion homeostasis|immune response|iron ion transport|protein complex assembly|receptor-mediated endocytosis	apical part of cell|basal part of cell|cytoplasmic vesicle|early endosome|integral to plasma membrane|MHC class I protein complex|perinuclear region of cytoplasm|recycling endosome	protein binding				0						CAGAGATATACGTGCCAGGTG	0.552									Hemochromatosis				18	53					0	0	1	0	0		T	26093138	T	T	26093138	3	4	73	1	0	0	0	0	1	0	0	0	7097	536	19	1	856	1	HFE	6	26093138	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	8256011	26093138	145021929	401	47638											
HIST1H1E	3008	broad.mit.edu	37	chr6	26156700	26156700	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagaaggcccgcaagtctGcaggtgcggccaagcgcaaa	13	3	14	11	3	1	2	0	0	1	2	1	2	1	2	2	3	3	3	2	3	5	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:26156700G>T	uc003ngq.2	+	1	142	c.82G>T	c.(82-84)GCA>TCA	p.A28S	HIST1H2BD_uc003ngr.2_5'Flank|HIST1H2BD_uc003ngs.2_5'Flank	NM_005321	NP_005312	P10412	H14_HUMAN	histone cluster 1, H1e	28					nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			large_intestine(1)|ovary(1)	2						CCGCAAGTCTGCAGGTGCGGC	0.657													23	57					1.96895e-08	2.07738e-08	1	1	0		T	26156700	T	T	26156700	3	4	73	1	0	0	0	0	1	0	0	0	7142	1319	46	5	84	5	HIST1H1E	6	26156700	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	63562	26156700	144958367	402	47639											
HIST1H2BE	8344	broad.mit.edu	37	chr6	26184252	26184252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcgagcgcatcgccggcGaggcttcccgcctggcgcat	4	8	13	16	7	1	0	0	0	1	0	4	2	2	0	3	3	1	3	3	3	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:26184252G>A	uc003ngt.2	+	1	229	c.229G>A	c.(229-231)GAG>AAG	p.E77K		NM_003523	NP_003514	P62807	H2B1C_HUMAN	histone cluster 1, H2be	77					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0						CATCGCCGGCGAGGCTTCCCG	0.612													57	102					0	0	1	0	0		A	26184252	A	A	26184252	3	1	73	1	0	0	0	0	1	0	0	0	7160	1059	37	1	231	1	HIST1H2BE	6	26184252	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	27552	26184252	144930815	403	47640											
HIST1H4E	8367	broad.mit.edu	37	chr6	26205129	26205129	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagacagtgacagcgatggAtgtggtctacgcgctgaaga	12	7	14	8	3	1	4	0	2	1	2	1	6	1	5	0	2	2	1	0	2	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:26205129A>G	uc003ngy.2	+	1	257	c.257A>G	c.(256-258)GAT>GGT	p.D86G		NM_003545	NP_003536	P62805	H4_HUMAN	histone cluster 1, H4e	86					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1		all_hematologic(11;0.196)				ACAGCGATGGATGTGGTCTAC	0.532													16	58					0	0	1	0	0		G	26205129	G	G	26205129	3	3	73	1	0	0	0	0	1	0	0	0	7185	333	12	3	259	3	HIST1H4E	6	26205129	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	20877	26205129	144909938	404	47641											
ABT1	29777	broad.mit.edu	37	chr6	26598802	26598802	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctccaacaaagggctcCtggccaggatctttggagcc	8	7	11	15	1	1	0	0	0	1	0	3	2	3	2	5	4	2	2	5	4	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:26598802C>A	uc003nii.2	+	3	779	c.748C>A	c.(748-750)CTG>ATG	p.L250M		NM_013375	NP_037507	Q9ULW3	ABT1_HUMAN	activator of basal transcription 1	250					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleolus	DNA binding|nucleotide binding|protein binding|RNA binding|transcription coactivator activity			ovary(1)	1						CAAAGGGCTCCTGGCCAGGAT	0.652													15	39					7.93312e-07	8.24456e-07	1	1	0		A	26598802	A	A	26598802	3	1	73	1	0	0	0	0	1	0	0	0	101	680	24	5	758	5	ABT1	6	26598802	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	393673	26598802	144516265	405	47642											
HIST1H2BJ	8970	broad.mit.edu	37	chr6	27100151	27100151	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcaaccaactcactgtttActtagcgctggtgtacttgg	8	14	9	10	1	1	0	1	0	0	0	1	0	1	0	1	2	6	4	1	2	5	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:27100151A>G	uc003niv.2	-	1	425	c.379T>C	c.(379-381)TAA>CAA	p.*127Q	HIST1H2BJ_uc003niu.1_Intron|HIST1H2AG_uc003niw.2_5'Flank	NM_021058	NP_066402	P06899	H2B1J_HUMAN	histone cluster 1, H2bj	127					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						CTCACTGTTTACTTAGCGCTG	0.557													33	49					0	0	1	0	0		G	27100151	G	G	27100151	4	3	73	1	0	0	0	0	0	0	0	0	7165	404	14	3	5	3	HIST1H2BJ	6	27100151	Nonstop_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	501349	27100151	144014916	406	47643											
PGBD1	84547	broad.mit.edu	37	chr6	28254890	28254890	+	Frame_Shift_Del	DEL	A	-	-																															cggatcagctcatctccaggAaaaaaaccccagagacaagg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:28254890delA	uc003nky.2	+	4	957	c.587delA	c.(586-588)GAAfs	p.E196fs	PGBD1_uc003nkz.2_Frame_Shift_Del_p.E196fs	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	196					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						CATCTCCAGGAAAAAAACCCC	0.502													26	40	---	---	---	---						.	-	28254890	-	-	28254890	7	5	73	1	0	1	0	1	0	0	0	0	11799	246	9	0	597	0	PGBD1	6	28254890	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	1154739	28254890	142860177	407	47644											
SCAND3	114821	broad.mit.edu	37	chr6	28541255	28541255	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacacctgctttggttggCttttcaattcactactcttt	7	18	6	10	0	3	1	2	1	1	0	3	1	3	1	1	2	3	3	1	2	3	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:28541255C>A	uc003nlo.2	-	4	3029	c.2411G>T	c.(2410-2412)AGC>ATC	p.S804I		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	804					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ctttggttggcttttcaattc	0													45	81					8.86878e-18	9.78995e-18	1	1	0		A	28541255	A	A	28541255	3	1	73	1	0	0	0	0	1	0	0	0	13901	797	28	5	1570	5	SCAND3	6	28541255	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	286365	28541255	142573812	408	47645											
OR11A1	26531	broad.mit.edu	37	chr6	29394884	29394884	+	Frame_Shift_Del	DEL	A	-	-																															gaaaagcataaagtcacagtAaaactggtcaatgtggttgg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:29394884delA	uc003nmg.2	-	1	626	c.535delT	c.(535-537)TACfs	p.Y179fs		NM_013937	NP_039225	Q9GZK7	O11A1_HUMAN	olfactory receptor, family 11, subfamily A,	179	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AAGTCACAGTAAAACTGGTCA	0.532													11	18	---	---	---	---						.	-	29394884	-	-	29394884	7	5	73	1	0	1	0	1	0	0	0	0	10943	362	13	0	416	0	OR11A1	6	29394884	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	853629	29394884	141720183	409	47646											
MAS1L	116511	broad.mit.edu	37	chr6	29454570	29454570	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccacatcgaccctgtgctcCctgggaagaaggttctccac	8	9	9	15	1	1	1	0	0	1	1	5	3	3	2	4	2	1	2	4	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:29454570C>T	uc011dlq.1	-	1	1110	c.1110G>A	c.(1108-1110)AGG>AGA	p.R370R		NM_052967	NP_443199	P35410	MAS1L_HUMAN	MAS1 oncogene-like	370	Cytoplasmic (Potential).					cytoplasm|integral to membrane|nucleus|plasma membrane	G-protein coupled receptor activity			ovary(7)|lung(2)	9						CCCTGTGCTCCCTGGGAAGAA	0.507													23	82					0	0	1	0	0		T	29454570	T	T	29454570	2	4	73	1	0	0	0	0	0	0	0	1	9339	622	22	4		4	MAS1L	6	29454570	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	59686	29454570	141660497	410	47647											
TRIM10	10107	broad.mit.edu	37	chr6	30121844	30121844	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtgtagatgggctctcGggtgacagcgttggtgaagg	8	9	19	5	2	1	3	0	2	1	1	2	4	1	3	0	5	1	3	0	5	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:30121844G>A	uc003npo.3	-	7	1424	c.1348C>T	c.(1348-1350)CGA>TGA	p.R450*	TRIM10_uc003npn.2_Intron	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	450	B30.2/SPRY.					cytoplasm	zinc ion binding				0						ATGGGCTCTCGGGTGACAGCG	0.602													17	36					0	0	1	0	0		A	30121844	A	A	30121844	4	1	73	1	0	0	0	0	0	1	0	0	16512	1124	39	1	189	1	TRIM10	6	30121844	Nonsense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	667274	30121844	140993223	411	47648											
PPP1R10	5514	broad.mit.edu	37	chr6	30575625	30575625	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcaccctaccttcatccTcacttgacttgctcagctgc	6	12	7	16	0	3	1	3	1	0	0	4	1	4	1	3	1	4	3	3	1	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:30575625T>C	uc003nqn.1	-	6	926	c.374A>G	c.(373-375)GAG>GGG	p.E125G	PPP1R10_uc010jsc.1_5'UTR	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	125	Interaction with TOX4 (By similarity).|TFIIS N-terminal.				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						ACCTTCATCCTCACTTGACTT	0.438													27	128					0	0	1	0	0		C	30575625	C	C	30575625	3	2	73	1	0	0	0	0	1	0	0	0	12374	1551	54	3	2508	3	PPP1R10	6	30575625	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	453781	30575625	140539442	412	47649											
HLA-C	3107	broad.mit.edu	37	chr6	31238246	31238247	+	Frame_Shift_Del	DEL	GT	-	-																															gagagggggtggtgggtcacGtgtgtctttgggggttctga																								rs1131292		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:31238246_31238247delGT	uc003nsy.2	-	4	642_643	c.635_636delAC	c.(634-636)CACfs	p.H212fs	HLA-C_uc011dnj.1_Frame_Shift_Del_p.H184fs|HLA-C_uc003nsx.2_Frame_Shift_Del_p.H91fs|HLA-C_uc003nsz.2_Frame_Shift_Del_p.H212fs|HLA-C_uc010jsl.2_Frame_Shift_Del_p.H212fs|HLA-C_uc003nta.2_Frame_Shift_Del_p.H212fs|HLA-C_uc003ntb.2_Intron|HLA-C_uc003ntc.1_Intron|HLA-B_uc010jsm.1_Intron|HLA-B_uc011dnk.1_Intron|HLA-C_uc011dnl.1_Frame_Shift_Del_p.H91fs	NM_002117	NP_002108	Q9TNN7	1C05_HUMAN	major histocompatibility complex, class I, C	212	Extracellular (Potential).|Alpha-3.|Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex					0						GGTGGGTCACGTGTGTCTTTGG	0.594													50	61	---	---	---	---						.	-	31238247	-	-	31238246	7	5	73	1	0	1	0	1	0	0	0	0	7213	1136	40	0	484	0	HLA-C	6	31238246	Frame_Shift_Del	DEL	GT	TCGA-BR-8372-01A-11D-2340-08	662621	31238246	139876821	413	47650											
LST1	7940	broad.mit.edu	37	chr6	31556429	31556429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaagagctgactatgcctgCattgctgagaacaaacccac	13	7	8	13	0	0	3	0	2	0	2	0	4	0	3	3	0	6	3	3	0	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:31556429C>T	uc003num.2	+	5	491	c.269C>T	c.(268-270)GCA>GTA	p.A90V	LST1_uc003nun.2_Silent_p.C44C|LST1_uc003nuo.2_Missense_Mutation_p.A35V|LST1_uc003nup.2_Silent_p.C32C|LST1_uc010jss.1_RNA|LST1_uc003nuq.2_Missense_Mutation_p.A45V|LST1_uc010jst.1_RNA|LST1_uc010jsu.1_RNA|LST1_uc003nus.2_RNA|LST1_uc010jsx.2_RNA|LST1_uc003nuu.2_RNA|LST1_uc003nut.2_RNA|LST1_uc010jsw.2_Missense_Mutation_p.A81V	NM_007161	NP_009092	O00453	LST1_HUMAN	leukocyte specific transcript 1 isoform 1	Error:Variant_position_missing_in_O00453_after_alignment					cell morphogenesis|dendrite development|immune response|negative regulation of lymphocyte proliferation|regulation of cell shape	Golgi membrane|integral to membrane	protein binding				0						ACTATGCCTGCATTGCTGAGA	0.597													18	34					0	0	1	0	0		T	31556429	T	T	31556429	3	4	73	1	0	0	0	0	1	0	0	0	9085	718	25	2	305	2	LST1	6	31556429	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	318183	31556429	139558638	414	47651											
C6orf10	10665	broad.mit.edu	37	chr6	32261427	32261427	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttttgggacacctgactcActcttctttacttgggactc	6	15	7	13	0	3	1	1	1	2	0	4	3	3	3	2	2	1	0	2	2	1	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:32261427A>G	uc011dpy.1	-	12	1196	c.1023T>C	c.(1021-1023)AGT>AGC	p.S341S	C6orf10_uc011dpx.1_Silent_p.S123S	NM_006781	NP_006772	Q5SRN2	CF010_HUMAN	chromosome 6 open reading frame 10	341						integral to membrane				skin(1)	1						CACCTGACTCACTCTTCTTTA	0.463													54	112					0	0	1	0	0		G	32261427	G	G	32261427	2	3	73	1	0	0	0	0	0	0	0	1	2320	156	6	3		3	C6orf10	6	32261427	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	704998	32261427	138853640	415	47652											
TAP2	6891	broad.mit.edu	37	chr6	32798079	32798079	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgttcatactgtgagaTgggcttttcatccagcagca	9	12	11	9	0	2	1	2	1	0	1	3	2	3	1	1	1	3	5	1	1	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:32798079T>C	uc003occ.2	-	8	1631	c.1600A>G	c.(1600-1602)ATC>GTC	p.I534V	TAP2_uc011dqf.1_Missense_Mutation_p.I534V|TAP2_uc003ocb.1_Missense_Mutation_p.I534V|TAP2_uc003ocd.2_Missense_Mutation_p.I534V	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	534	ABC transporter.|Cytoplasmic (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						TACTGTGAGATGGGCTTTTCA	0.587													12	95					0	0	1	0	0		C	32798079	C	C	32798079	3	2	73	1	0	0	0	0	1	0	0	0	15576	1464	51	3	561	3	TAP2	6	32798079	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	536652	32798079	138316988	416	47653											
BAK1	578	broad.mit.edu	37	chr6	33543097	33543097	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtggcaatcttggtgaagtActcataggcattctctgccg	8	12	12	9	1	3	1	1	1	2	0	4	1	3	1	1	4	2	3	1	4	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:33543097A>G	uc003oes.2	-	4	628	c.328T>C	c.(328-330)TAC>CAC	p.Y110H	BAK1_uc003oer.2_Missense_Mutation_p.Y40H|BAK1_uc003oet.2_RNA|BAK1_uc010jvb.2_Missense_Mutation_p.Y110H|BAK1_uc003oeu.2_Missense_Mutation_p.Y51H|BAK1_uc011drj.1_Missense_Mutation_p.Y110H	NM_001188	NP_001179	Q16611	BAK_HUMAN	BCL2-antagonist/killer 1	110					activation of pro-apoptotic gene products|cellular response to mechanical stimulus|cellular response to UV|establishment or maintenance of transmembrane electrochemical gradient|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|release of cytochrome c from mitochondria	integral to mitochondrial outer membrane|pore complex	metal ion binding|protein heterodimerization activity			ovary(1)	1						TTGGTGAAGTACTCATAGGCA	0.567													19	48					0	0	1	0	0		G	33543097	G	G	33543097	3	3	73	1	0	0	0	0	1	0	0	0	1306	391	14	3	319	3	BAK1	6	33543097	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	745018	33543097	137571970	417	47654											
ITPR3	3710	broad.mit.edu	37	chr6	33636774	33636774	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcggcccgtgaaggagatggCccaatcccacgagtacctga	10	6	12	13	3	0	3	0	2	0	1	2	5	1	3	4	3	1	1	4	3	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:33636774C>G	uc011drk.1	+	18	2249	c.2030C>G	c.(2029-2031)GCC>GGC	p.A677G		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	677	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						AAGGAGATGGCCCAATCCCAC	0.592													10	43					0	0	1	0	0		G	33636774	G	G	33636774	3	3	73	1	0	0	0	0	1	0	0	0	7938	739	26	5	2100	5	ITPR3	6	33636774	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	93677	33636774	137478293	418	47655											
SPDEF	25803	broad.mit.edu	37	chr6	34512185	34512185	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	accgtgtcggggggcagcagGaggtggctgggggatacgct	6	6	21	8	3	0	0	0	0	0	0	1	2	0	2	1	8	2	4	1	8	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:34512185G>C	uc003ojq.1	-	2	463	c.48C>G	c.(46-48)CTC>CTG	p.L16L	SPDEF_uc011dsq.1_Silent_p.L16L	NM_012391	NP_036523	O95238	SPDEF_HUMAN	SAM pointed domain containing ets transcription	16					negative regulation of survival gene product expression|negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(3)|ovary(1)|central_nervous_system(1)	5						GGGGCAGCAGGAGGTGGCTGG	0.677													8	23					0	0	1	0	0		C	34512185	C	C	34512185	2	2	73	1	0	0	0	0	0	0	0	1	15051	1161	41	5		5	SPDEF	6	34512185	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	875411	34512185	136602882	419	47656											
C6orf106	64771	broad.mit.edu	37	chr6	34574621	34574621	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccgtttcaaaagatgacAgctgctgcgttactcctaaa	12	11	7	11	2	1	2	1	1	0	1	3	2	3	2	2	0	4	4	2	0	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:34574621A>G	uc003ojr.2	-	4	817	c.572T>C	c.(571-573)CTG>CCG	p.L191P	C6orf106_uc003ojs.2_Missense_Mutation_p.L125P	NM_024294	NP_077270	Q9H6K1	CF106_HUMAN	chromosome 6 open reading frame 106 isoform a	191										skin(2)|ovary(1)	3						AAAAGATGACAGCTGCTGCGT	0.458													31	80					0	0	1	0	0		G	34574621	G	G	34574621	3	3	73	1	0	0	0	0	1	0	0	0	2322	188	7	3	332	3	C6orf106	6	34574621	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	62436	34574621	136540446	420	47657											
CLPS	1208	broad.mit.edu	37	chr6	35762936	35762936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagtctcactgcttggagCgtccagcgtcatggcagatg	7	9	14	11	2	2	1	2	0	1	1	4	2	3	2	1	3	3	3	1	3	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:35762936C>T	uc003ole.1	-	3	363	c.326G>A	c.(325-327)CGC>CAC	p.R109H	CLPS_uc003olf.1_Missense_Mutation_p.R68H	NM_001832	NP_001823	P04118	COL_HUMAN	colipase preproprotein	109					lipid catabolic process|lipid digestion|retinoid metabolic process|steroid metabolic process	extracellular region					0						CTGCTTGGAGCGTCCAGCGTC	0.607													12	59					0	0	1	0	0		T	35762936	T	T	35762936	3	4	73	1	0	0	0	0	1	0	0	0	3556	768	27	1	16	1	CLPS	6	35762936	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1188315	35762936	135352131	421	47658											
CPNE5	57699	broad.mit.edu	37	chr6	36767803	36767803	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccacaatgaacttgcgcacGaagtcaggattgagcgtgtt	11	10	11	9	3	1	2	1	2	0	0	2	4	2	3	1	1	3	2	1	1	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:36767803G>A	uc003omr.1	-	4	295	c.228C>T	c.(226-228)TTC>TTT	p.F76F	CPNE5_uc003oms.1_Silent_p.F38F	NM_020939	NP_065990	Q9HCH3	CPNE5_HUMAN	copine V	76	C2 1.									skin(1)	1						ACTTGCGCACGAAGTCAGGAT	0.552													4	40					0	0	1	0	0		A	36767803	A	A	36767803	2	1	73	1	0	0	0	0	0	0	0	1	3818	1049	37	1		1	CPNE5	6	36767803	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1004867	36767803	134347264	422	47659											
KCNK5	8645	broad.mit.edu	37	chr6	39161960	39161960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccggccacaaagtcacCgaagccgatggtggagatgg	11	5	13	12	3	2	1	2	0	0	1	2	4	2	1	4	4	1	0	4	4	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:39161960C>T	uc003oon.2	-	4	983	c.619G>A	c.(619-621)GGT>AGT	p.G207S		NM_003740	NP_003731	O95279	KCNK5_HUMAN	potassium channel, subfamily K, member 5	207					excretion	integral to plasma membrane	potassium channel activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						ACAAAGTCACCGAAGCCGATG	0.552													20	40					0	0	1	0	0		T	39161960	T	T	39161960	3	4	73	1	0	0	0	0	1	0	0	0	8085	652	23	1	888	1	KCNK5	6	39161960	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2394157	39161960	131953107	423	47660											
PTCRA	171558	broad.mit.edu	37	chr6	42890866	42890866	+	Frame_Shift_Del	DEL	C	-	-																															gcctggtccttgatgttgcaCcccctggccttgacagcccc																								rs146960695		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:42890866delC	uc003osx.2	+	2	241	c.160delC	c.(160-162)CCCfs	p.P54fs	PTCRA_uc011duz.1_Frame_Shift_Del_p.H64fs|PTCRA_uc010jxx.1_Intron|PTCRA_uc010jxy.2_Intron|PTCRA_uc010jxz.2_Intron	NM_138296	NP_612153	Q6ISU1	PTCRA_HUMAN	pre T-cell antigen receptor alpha precursor	54	Extracellular (Potential).					integral to membrane	receptor activity	p.P54T(1)		ovary(2)	2	Colorectal(47;0.196)		all cancers(41;0.000731)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|OV - Ovarian serous cystadenocarcinoma(102;0.0218)|Kidney(15;0.0388)			TGATGTTGCACCCCCTGGCCT	0.607													38	73	---	---	---	---						.	-	42890866	-	-	42890866	7	5	73	1	0	1	0	1	0	0	0	0	12757	507	18	0	166	0	PTCRA	6	42890866	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	3728906	42890866	128224201	424	47661											
PPP2R5D	5528	broad.mit.edu	37	chr6	42975937	42975937	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccatttttcttccctcAggttcatctacgagacggag	9	12	9	11	2	4	2	2	0	2	2	5	4	5	3	2	2	2	1	2	2	1	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:42975937A>G	uc003oth.2	+	8	944	c.858_splice	c.e8-2	p.R286_splice	MEA1_uc010jyc.1_Intron|PPP2R5D_uc003otg.2_Splice_Site_p.R254_splice|PPP2R5D_uc010jyd.2_Splice_Site_p.R180_splice|PPP2R5D_uc011dva.1_Splice_Site_p.R135_splice|PPP2R5D_uc003oti.2_Splice_Site_p.R135_splice|PPP2R5D_uc003otj.2_Splice_Site_p.R135_splice	NM_006245	NP_006236	Q14738	2A5D_HUMAN	delta isoform of regulatory subunit B56, protein						nervous system development|signal transduction	cytoplasm|nucleus|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			breast(1)|central_nervous_system(1)	2			Colorectal(64;0.00237)|all cancers(41;0.00411)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0664)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			TTCTTCCCTCAGGTTCATCTA	0.577													41	125					0	0	1	0	0		G	42975937	G	G	42975937	5	3	73	1	0	0	0	0	0	0	1	0	12417	202	7	3	886	3	PPP2R5D	6	42975937	Splice_Site	SNP	A	TCGA-BR-8372-01A-11D-2340-08	85071	42975937	128139130	425	47662											
MRPL2	51069	broad.mit.edu	37	chr6	43023644	43023644	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttccccatacctgcagctcGgatatattgggcaccccggc	7	10	9	15	2	0	0	0	0	0	0	2	1	1	1	5	3	3	3	5	3	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:43023644G>A	uc003ots.1	-	5	745	c.622C>T	c.(622-624)CGA>TGA	p.R208*	CUL7_uc011dvb.1_5'Flank|CUL7_uc003otq.2_5'Flank|CUL7_uc010jyh.2_5'Flank|KLC4_uc003otr.1_Intron|MRPL2_uc011dvc.1_3'UTR	NM_015950	NP_057034	Q5T653	RM02_HUMAN	mitochondrial ribosomal protein L2 precursor	208					translation	mitochondrion|ribosome	structural constituent of ribosome				0		Ovarian(999;0.0014)	Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00708)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)	BRCA - Breast invasive adenocarcinoma(397;0.0026)		CCTGCAGCTCGGATATATTGG	0.562													9	26					0	0	1	0	0		A	43023644	A	A	43023644	4	1	73	1	0	0	0	0	0	1	0	0	9803	1124	39	1	307	1	MRPL2	6	43023644	Nonsense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	47707	43023644	128091423	426	47663											
PTK7	5754	broad.mit.edu	37	chr6	43098273	43098273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctttgccagggtggtgcTggcaccccaggacgtggtag	7	8	16	10	1	0	0	0	0	0	0	0	1	0	1	3	5	3	4	3	5	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:43098273T>C	uc003oub.1	+	5	884	c.686T>C	c.(685-687)CTG>CCG	p.L229P	PTK7_uc003ouc.1_Missense_Mutation_p.L229P|PTK7_uc003oud.1_Missense_Mutation_p.L229P|PTK7_uc003oue.1_Missense_Mutation_p.L229P|PTK7_uc003ouf.1_RNA|PTK7_uc003oug.1_RNA|PTK7_uc011dve.1_Missense_Mutation_p.L237P|PTK7_uc010jyj.1_5'Flank|PTK7_uc003oua.2_Missense_Mutation_p.L229P	NM_002821	NP_002812	Q13308	PTK7_HUMAN	PTK7 protein tyrosine kinase 7 isoform a	229	Ig-like C2-type 3.|Extracellular (Potential).				actin cytoskeleton reorganization|canonical Wnt receptor signaling pathway|cell adhesion|cell migration	cell-cell junction|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			ovary(2)|large_intestine(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00784)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			AGGGTGGTGCTGGCACCCCAG	0.617													16	32					0	0	1	0	0		C	43098273	C	C	43098273	3	2	73	1	0	0	0	0	1	0	0	0	12788	1580	55	3	704	3	PTK7	6	43098273	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	74629	43098273	128016794	427	47664											
ZNF318	24149	broad.mit.edu	37	chr6	43325442	43325442	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctcctgggaaatatatcGctcaagaccccgagagcact	11	9	8	13	2	1	2	1	0	0	2	4	4	3	3	4	1	1	2	4	1	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:43325442G>A	uc003oux.2	-	3	688	c.610C>T	c.(610-612)CGA>TGA	p.R204*	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	204					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			GAAATATATCGCTCAAGACCC	0.468													43	83					0	0	1	0	0		A	43325442	A	A	43325442	4	1	73	1	0	0	0	0	0	1	0	0	17861	1095	38	1	6261	1	ZNF318	6	43325442	Nonsense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	227169	43325442	127789625	428	47665											
C6orf154	221424	broad.mit.edu	37	chr6	43475025	43475025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccctagtcctgacgtcattAgcaccatctgagagctggga	9	9	10	13	1	2	2	1	2	1	1	3	4	3	3	4	1	2	2	4	1	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:43475025A>G	uc003ovk.1	-	6	1803	c.902T>C	c.(901-903)CTA>CCA	p.L301P	C6orf154_uc003ovj.1_Missense_Mutation_p.L110P	NM_001012974	NP_001012992	Q5JTD7	CF154_HUMAN	hypothetical protein LOC221424	301											0	all_cancers(18;3.79e-05)|Lung NSC(15;0.00217)|all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00736)|OV - Ovarian serous cystadenocarcinoma(102;0.0711)			TGACGTCATTAGCACCATCTG	0.537											OREG0017453	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	33					0	0	1	0	0		G	43475025	G	G	43475025	3	3	73	1	0	0	0	0	1	0	0	0	2342	420	15	3	52	3	C6orf154	6	43475025	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	149583	43475025	127640042	429	47666											
SUPT3H	8464	broad.mit.edu	37	chr6	44988338	44988338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgattacccttgctcccCgcagctgagaaacttcagca	10	9	9	13	1	1	2	1	2	0	1	2	4	2	2	3	0	5	4	3	0	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:44988338C>T	uc003oxo.2	-	6	569	c.251G>A	c.(250-252)CGG>CAG	p.R84Q	SUPT3H_uc003oxn.1_Missense_Mutation_p.R73Q|SUPT3H_uc011dvv.1_5'UTR|SUPT3H_uc003oxp.2_Missense_Mutation_p.R73Q|SUPT3H_uc011dvw.1_5'UTR	NM_181356	NP_852001	O75486	SUPT3_HUMAN	suppressor of Ty 3 homolog isoform 2	155					histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3						CCTTGCTCCCCGCAGCTGAGA	0.318													26	48					0	0	1	0	0		T	44988338	T	T	44988338	3	4	73	1	0	0	0	0	1	0	0	0	15422	652	23	1	767	1	SUPT3H	6	44988338	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1513313	44988338	126126729	430	47667											
GPR111	222611	broad.mit.edu	37	chr6	47647856	47647856	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacaatataaaaataagtgTatatactggaaagtctgaga	20	10	8	3	0	1	2	0	1	1	2	1	4	1	3	0	1	1	1	0	1	10	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:47647856T>C	uc010jzj.1	+	5	522	c.521T>C	c.(520-522)GTA>GCA	p.V174A	GPR111_uc010jzk.1_Missense_Mutation_p.V106A|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	174	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						AAAATAAGTGTATATACTGGA	0.313													18	64					0	0	1	0	0		C	47647856	C	C	47647856	3	2	73	1	0	0	0	0	1	0	0	0	6643	1638	57	3	331	3	GPR111	6	47647856	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2659518	47647856	123467211	431	47668											
MUT	4594	broad.mit.edu	37	chr6	49407996	49407996	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacttttgctcctctgtcatGgccatcttgtcccatttttg	5	18	6	12	0	3	0	1	0	2	0	5	0	5	0	3	1	2	1	3	1	1	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:49407996G>T	uc003ozg.3	-	11	2134	c.1879C>A	c.(1879-1881)CAT>AAT	p.H627N		NM_000255	NP_000246	P22033	MUTA_HUMAN	methylmalonyl Coenzyme A mutase precursor	627	B12-binding.	Cobalt (cobalamin axial ligand) (By similarity).	H -> R (in MMAM; mut0).		fatty acid beta-oxidation	mitochondrial matrix	cobalamin binding|metal ion binding|methylmalonyl-CoA mutase activity				0	Lung NSC(77;0.0376)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CCTCTGTCATGGCCATCTTGT	0.408													43	75					1.07121e-22	1.19516e-22	1	1	0		T	49407996	T	T	49407996	3	4	73	1	0	0	0	0	1	0	0	0	10009	1348	47	5	385	5	MUT	6	49407996	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1760140	49407996	121707071	432	47669											
RHAG	6005	broad.mit.edu	37	chr6	49586892	49586892	+	Frame_Shift_Del	DEL	T	-	-																															cccacagtaaggatgctcacTttttgattccaatgttaaat																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:49586892delT	uc003ozk.3	-	2	403	c.341delA	c.(340-342)AACfs	p.N114fs	RHAG_uc010jzl.2_Frame_Shift_Del_p.N114fs|RHAG_uc010jzm.2_Frame_Shift_Del_p.N114fs	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein	114	Helical; (Potential).				carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					GGATGCTCACTTTTTGATTCC	0.264													24	42	---	---	---	---						.	-	49586892	-	-	49586892	7	5	73	1	0	1	0	1	0	0	0	0	13340	1623	56	0	924	0	RHAG	6	49586892	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	178896	49586892	121528175	433	47670											
DEFB113	245927	broad.mit.edu	37	chr6	49936565	49936566	+	Frame_Shift_Ins	INS	-	T	T																															tctctctgcaacttctcttgINStttttttctgtggaactagg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:49936565_49936566insT	uc011dwq.1	-	2	73_74	c.73_74insA	c.(73-75)ACAfs	p.T25fs		NM_001037729	NP_001032818	Q30KQ7	DB113_HUMAN	beta-defensin 113 precursor	25					defense response to bacterium	extracellular region					0	Lung NSC(77;0.042)					AACTTCTCTTGTTTTTTTCTGT	0.351													12	26	---	---	---	---						.	T	49936566	T	T	49936565	7	5	73	1	0	1	1	0	0	0	0	0	4407	1377	48	0	170	0	DEFB113	6	49936565	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	349673	49936565	121178502	434	47671											
TRAM2	9697	broad.mit.edu	37	chr6	52370497	52370497	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacggcaagggtgaggaTgaagaggcgggtaaccccaa	13	3	16	9	2	0	3	0	2	0	1	0	4	0	4	2	5	2	3	2	5	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:52370497T>C	uc003paq.2	-	9	924	c.775A>G	c.(775-777)ATC>GTC	p.I259V	EFHC1_uc011dwv.1_Intron|TRAM2_uc003par.1_RNA	NM_012288	NP_036420	Q15035	TRAM2_HUMAN	translocation-associated membrane protein 2	259	TLC.|Helical; (Potential).				collagen biosynthetic process|protein transport|transmembrane transport	integral to membrane	protein binding				0	Lung NSC(77;0.109)					AGGGTGAGGATGAAGAGGCGG	0.527													11	86					0	0	1	0	0		C	52370497	C	C	52370497	3	2	73	1	0	0	0	0	1	0	0	0	16479	1464	51	3	349	3	TRAM2	6	52370497	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2433932	52370497	118744570	435	47672											
DST	667	broad.mit.edu	37	chr6	56394279	56394279	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcttccatagcccctcAgtgctgtaatcctggactga	7	12	9	13	0	1	1	1	1	0	0	3	2	3	2	4	1	4	4	4	1	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:56394279A>T	uc003pdf.2	-	60	11233	c.11205T>A	c.(11203-11205)ACT>ACA	p.T3735T	DST_uc003pcz.3_Silent_p.T3557T|DST_uc011dxj.1_Silent_p.T3586T|DST_uc011dxk.1_Silent_p.T3597T|DST_uc003pcy.3_Silent_p.T3231T	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5643					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			ATAGCCCCTCAGTGCTGTAAT	0.353													21	69					0	0	1	0	0		T	56394279	T	T	56394279	2	4	73	1	0	0	0	0	0	0	0	1	4789	175	7	5		5	DST	6	56394279	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	4023782	56394279	114720788	436	47673											
KIAA1586	57691	broad.mit.edu	37	chr6	56918192	56918192	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaacatattgcaaaagaaAtgaagatgaagatatttaag	21	9	8	3	0	0	6	0	2	0	4	0	6	0	6	0	0	2	1	0	0	9	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:56918192A>G	uc003pdj.2	+	4	1065	c.895A>G	c.(895-897)ATG>GTG	p.M299V	KIAA1586_uc011dxm.1_Missense_Mutation_p.M272V	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	299							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TGCAAAAGAAATGAAGATGAA	0.323													21	40					0	0	1	0	0		G	56918192	G	G	56918192	3	3	73	1	0	0	0	0	1	0	0	0	8261	101	4	3	909	3	KIAA1586	6	56918192	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	523913	56918192	114196875	437	47674											
LMBRD1	55788	broad.mit.edu	37	chr6	70428896	70428896	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacttcttcaatgtcttcAgtgttttccaaacgttcata	9	18	4	10	1	6	0	3	0	3	0	7	0	7	0	1	0	2	2	1	0	4	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:70428896A>G	uc003pfa.2	-	8	829	c.714T>C	c.(712-714)ACT>ACC	p.T238T	LMBRD1_uc003pey.2_Silent_p.T34T|LMBRD1_uc003pez.2_Silent_p.T165T|LMBRD1_uc010kal.2_Silent_p.T165T|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	238	Cytoplasmic (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						CAATGTCTTCAGTGTTTTCCA	0.348													17	28					0	0	1	0	0		G	70428896	G	G	70428896	2	3	73	1	0	0	0	0	0	0	0	1	8859	175	7	3		3	LMBRD1	6	70428896	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	13510704	70428896	100686171	438	47675											
RIMS1	22999	broad.mit.edu	37	chr6	72892051	72892051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagagcgagcggaaacgcGtgccaaagacctcagcgcag	13	3	14	11	5	1	3	1	1	0	2	1	5	1	4	2	1	5	1	2	1	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:72892051G>A	uc003pga.2	+	6	954	c.877G>A	c.(877-879)GTG>ATG	p.V293M	RIMS1_uc011dyb.1_Translation_Start_Site|RIMS1_uc003pgc.2_Translation_Start_Site|RIMS1_uc003pgb.3_Translation_Start_Site	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	293					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				GCGGAAACGCGTGCCAAAGAC	0.562													18	28					0	0	1	0	0		A	72892051	A	A	72892051	3	1	73	1	0	0	0	0	1	0	0	0	13392	1145	40	1	899	1	RIMS1	6	72892051	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2463155	72892051	98223016	439	47676											
HTR1B	3351	broad.mit.edu	37	chr6	78172894	78172894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtgcagtttccgggtcCggtacactgtggcaatcaca	7	10	14	10	2	1	0	1	0	0	0	3	0	3	0	2	4	2	4	2	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:78172894C>T	uc003pil.1	-	1	227	c.227G>A	c.(226-228)CGG>CAG	p.R76Q		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	76	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	TTTCCGGGTCCGGTACACTGT	0.567													28	102					0	0	1	0	0		T	78172894	T	T	78172894	3	4	73	1	0	0	0	0	1	0	0	0	7453	652	23	1	949	1	HTR1B	6	78172894	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5280843	78172894	92942173	440	47677											
PHIP	55023	broad.mit.edu	37	chr6	79726328	79726328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtttaaattgccaaatacGtgctgtcccatcacgactgc	10	12	7	12	3	1	0	1	0	0	0	3	1	2	0	2	0	4	2	2	0	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:79726328G>A	uc003pir.2	-	13	1394	c.1168C>T	c.(1168-1170)CGT>TGT	p.R390C	PHIP_uc011dyp.1_Missense_Mutation_p.R390C	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	390	WD 5.				insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		TGCCAAATACGTGCTGTCCCA	0.393													54	91					0	0	1	0	0		A	79726328	A	A	79726328	3	1	73	1	0	0	0	0	1	0	0	0	11861	1145	40	1	4409	1	PHIP	6	79726328	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1553434	79726328	91388739	441	47678											
TBX18	9096	broad.mit.edu	37	chr6	85446984	85446984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacaggcagaatagtcagCaggggccagactacacagct	13	4	13	11	0	1	2	1	0	0	2	1	2	1	2	1	4	3	4	1	4	3	2	rs145891330	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:85446984C>T	uc003pkl.1	-	8	1243	c.1243G>A	c.(1243-1245)GCT>ACT	p.A415T	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	415					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		GAATAGTCAGCAGGGGCCAGA	0.592													28	56					0	0	1	0	0		T	85446984	T	T	85446984	3	4	73	1	0	0	0	0	1	0	0	0	15678	710	25	2	584	2	TBX18	6	85446984	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5720656	85446984	85668083	442	47679											
CGA	1081	broad.mit.edu	37	chr6	87797872	87797872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagaacatgcagaaacaccGacaatgtgaccagaaagata	19	4	10	8	1	0	5	0	1	0	4	0	7	0	5	2	1	3	1	2	1	5	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:87797872G>A	uc003plj.1	-	2	148	c.47C>T	c.(46-48)TCG>TTG	p.S16L		NM_000735	NP_000726	P01215	GLHA_HUMAN	glycoprotein hormones, alpha polypeptide	16					hormone biosynthetic process|peptide hormone processing|signal transduction	extracellular region|soluble fraction	hormone activity			ovary(1)	1		all_cancers(76;5.98e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000102)		BRCA - Breast invasive adenocarcinoma(108;0.0484)		CAGAAACACCGACAATGTGAC	0.403													10	9					0	0	1	0	0		A	87797872	A	A	87797872	3	1	73	1	0	0	0	0	1	0	0	0	3298	1059	37	1	315	1	CGA	6	87797872	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2350888	87797872	83317195	443	47680											
ZNF292	23036	broad.mit.edu	37	chr6	87967380	87967380	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcacctgaaaaagttaaaAaagaccgtgggcggggccca	14	5	12	10	2	0	2	0	1	0	1	0	2	0	2	3	3	1	2	3	3	5	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:87967380A>T	uc003plm.3	+	8	4074	c.4033A>T	c.(4033-4035)AAA>TAA	p.K1345*		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1345					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		AAAAGTTAAAAAAGACCGTGG	0.433													9	13					0	0	1	0	0		T	87967380	T	T	87967380	4	4	73	1	0	0	0	0	0	1	0	0	17851	15	1	5	4063	5	ZNF292	6	87967380	Nonsense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	169508	87967380	83147687	444	47681											
C6orf165	154313	broad.mit.edu	37	chr6	88144681	88144681	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcctgaacattatattgaCatagttagagaaaaggccaa	18	10	7	6	0	0	3	0	2	0	1	1	4	1	3	2	1	1	1	2	1	9	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:88144681C>A	uc003plv.2	+	11	1496	c.1404C>A	c.(1402-1404)GAC>GAA	p.D468E	SLC35A1_uc003plx.2_5'Flank|C6orf165_uc003plw.2_Missense_Mutation_p.D280E|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.D468E	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	468										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		ATTATATTGACATAGTTAGAG	0.289													22	54					2.37509e-13	2.56729e-13	1	1	0		A	88144681	A	A	88144681	3	1	73	1	0	0	0	0	1	0	0	0	2344	477	17	5	1442	5	C6orf165	6	88144681	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	177301	88144681	82970386	445	47682											
SFRS18	25957	broad.mit.edu	37	chr6	99848834	99848834	+	Frame_Shift_Del	DEL	T	-	-																															ctatacttcgactcctctccTttttcctctcttgttcttta																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:99848834delT	uc003ppo.3	-	12	2228	c.2000delA	c.(1999-2001)AAGfs	p.K667fs	SFRS18_uc003ppl.2_Frame_Shift_Del_p.K213fs|SFRS18_uc003ppp.3_Frame_Shift_Del_p.K667fs|SFRS18_uc011eag.1_Frame_Shift_Del_p.K667fs	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	667						nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		actcctctcctttttcctctc	0.169													15	31	---	---	---	---						.	-	99848834	-	-	99848834	7	5	73	1	0	1	0	1	0	0	0	0	14199	1609	56	0	421	0	SFRS18	6	99848834	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	11704153	99848834	71266233	446	47683											
SFRS18	25957	broad.mit.edu	37	chr6	99856034	99856034	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttttttcttttttggacaAttgtgaacgttgttgttcca	6	22	7	6	1	1	1	0	1	1	0	2	2	2	2	1	1	1	3	1	1	2	10			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:99856034A>T	uc003ppo.3	-	7	1015	c.787T>A	c.(787-789)TTG>ATG	p.L263M	SFRS18_uc003ppp.3_Missense_Mutation_p.L263M|SFRS18_uc011eag.1_Missense_Mutation_p.L263M|SFRS18_uc003ppr.2_Missense_Mutation_p.L263M	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	263	Potential.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		TTTTTGGACAATTGTGAACGT	0.418													30	51					0	0	1	0	0		T	99856034	T	T	99856034	3	4	73	1	0	0	0	0	1	0	0	0	14199	98	4	5	1654	5	SFRS18	6	99856034	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	7200	99856034	71259033	447	47684											
GRIK2	2898	broad.mit.edu	37	chr6	102074414	102074414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagattccttctatgtcaGtctctacccagacttctctt	9	15	4	13	0	4	2	1	0	3	2	7	2	5	2	2	0	1	0	2	0	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:102074414G>A	uc003pqp.3	+	3	692	c.443G>A	c.(442-444)AGT>AAT	p.S148N	GRIK2_uc003pqn.2_Missense_Mutation_p.S148N|GRIK2_uc003pqo.3_Missense_Mutation_p.S148N|GRIK2_uc010kcw.2_Missense_Mutation_p.S148N	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	148	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	TTCTATGTCAGTCTCTACCCA	0.502													41	78					0	0	1	0	0		A	102074414	A	A	102074414	3	1	73	1	0	0	0	0	1	0	0	0	6790	1029	36	4	453	4	GRIK2	6	102074414	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2218380	102074414	69040653	448	47685											
C6orf203	51250	broad.mit.edu	37	chr6	107361107	107361107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atacttgtatttttctagtaCcaagttacgtgcaccaaatt	12	16	5	8	1	1	0	0	0	1	0	1	0	1	0	2	0	4	4	2	0	7	9			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:107361107C>T	uc003prq.2	+	2	224	c.143C>T	c.(142-144)ACC>ATC	p.T48I	C6orf203_uc011eaj.1_Missense_Mutation_p.T53I|C6orf203_uc010kde.2_Missense_Mutation_p.T48I	NM_016487	NP_057571	Q9P0P8	CF203_HUMAN	hypothetical protein LOC51250 isoform a	48											0	Breast(9;0.00124)|all_epithelial(6;0.0729)	all_cancers(87;0.00461)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|Colorectal(196;0.171)|all_epithelial(87;0.23)	BRCA - Breast invasive adenocarcinoma(8;0.000395)|all cancers(7;0.00065)|Epithelial(6;0.000834)|OV - Ovarian serous cystadenocarcinoma(5;0.244)	BRCA - Breast invasive adenocarcinoma(108;0.117)		TTTTCTAGTACCAAGTTACGT	0.393													30	85					0	0	1	0	0		T	107361107	T	T	107361107	3	4	73	1	0	0	0	0	1	0	0	0	2355	507	18	4	164	4	C6orf203	6	107361107	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5286693	107361107	63753960	449	47686											
LACE1	246269	broad.mit.edu	37	chr6	108616409	108616409	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccaccgcccctgggaaGcccttttggaaaggtcagtg	7	8	13	13	1	1	0	1	0	0	0	1	2	1	2	5	4	1	0	5	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:108616409G>T	uc003psj.2	+	1	312	c.126G>T	c.(124-126)AAG>AAT	p.K42N		NM_145315	NP_660358	Q8WV93	LACE1_HUMAN	lactation elevated 1	42							ATP binding			central_nervous_system(1)	1		all_cancers(87;1.5e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;6.79e-05)|Colorectal(196;0.0294)|all_lung(197;0.0486)|Lung SC(18;0.152)		BRCA - Breast invasive adenocarcinoma(108;0.00179)|Epithelial(106;0.0024)|all cancers(137;0.00379)|OV - Ovarian serous cystadenocarcinoma(136;0.0118)		CCCCTGGGAAGCCCTTTTGGA	0.627													17	40					1.67942e-08	1.77319e-08	1	1	0		T	108616409	T	T	108616409	3	4	73	1	0	0	0	0	1	0	0	0	8611	962	34	5	128	5	LACE1	6	108616409	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1255302	108616409	62498658	450	47687											
SLC22A16	85413	broad.mit.edu	37	chr6	110746270	110746270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taacactccactcaggagggCcatagtcccaacaaacaact	15	6	6	14	0	1	0	1	0	0	0	3	1	3	1	3	2	4	0	3	2	5	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:110746270C>T	uc003puf.2	-	8	1607	c.1540G>A	c.(1540-1542)GCC>ACC	p.A514T	SLC22A16_uc003pue.2_Missense_Mutation_p.A495T	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	514	Helical; (Potential).				acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		CTCAGGAGGGCCATAGTCCCA	0.423													31	54					0	0	1	0	0		T	110746270	T	T	110746270	3	4	73	1	0	0	0	0	1	0	0	0	14472	739	26	2	197	2	SLC22A16	6	110746270	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2129861	110746270	60368797	451	47688											
REV3L	5980	broad.mit.edu	37	chr6	111688943	111688943	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagtttcttggaacgttcGtattcttctttggcttgaag	6	17	11	7	2	3	1	0	1	3	0	4	2	3	2	0	3	1	5	0	3	3	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:111688943G>A	uc003puy.3	-	14	6371	c.6048C>T	c.(6046-6048)TAC>TAT	p.Y2016Y	REV3L_uc003pux.3_Silent_p.Y1938Y|REV3L_uc003puz.3_Silent_p.Y1938Y|REV3L_uc003pva.1_RNA	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2016					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TGGAACGTTCGTATTCTTCTT	0.423								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					60	104					0	0	1	0	0		A	111688943	A	A	111688943	2	1	73	1	0	0	0	0	0	0	0	1	13265	1140	40	1		1	REV3L	6	111688943	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	942673	111688943	59426124	452	47689											
RFX6	222546	broad.mit.edu	37	chr6	117240336	117240336	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agaaattttgctaaaaattgGgaacagtgggttgtttcatc	13	14	10	4	0	1	1	1	0	0	1	2	2	1	2	0	2	2	3	0	2	5	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:117240336G>A	uc003pxm.2	+	11	1122	c.1059G>A	c.(1057-1059)TGG>TGA	p.W353*		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	353					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						CTAAAAATTGGGAACAGTGGG	0.323													28	74					0	0	1	0	0		A	117240336	A	A	117240336	4	1	73	1	0	0	0	0	0	1	0	0	13292	1241	43	4	1101	4	RFX6	6	117240336	Nonsense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5551393	117240336	53874731	453	47690											
C6orf170	221322	broad.mit.edu	37	chr6	121625975	121625975	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacagaattttaaaatcCggtcctacggaaatgagaca	15	9	9	8	2	0	2	0	1	0	2	2	4	2	3	2	2	2	1	2	2	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:121625975C>T	uc003pyo.1	-	6	763	c.695G>A	c.(694-696)CGG>CAG	p.R232Q	C6orf170_uc003pyq.1_RNA	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	232					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		TTTTAAAATCCGGTCCTACGG	0.299													15	35					0	0	1	0	0		T	121625975	T	T	121625975	3	4	73	1	0	0	0	0	1	0	0	0	2347	652	23	1	3186	1	C6orf170	6	121625975	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4385639	121625975	49489092	454	47691											
BCLAF1	9774	broad.mit.edu	37	chr6	136599301	136599301	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagcatcagagcaagatgAactctgactaggtggtgtag	12	8	15	6	0	2	4	1	2	1	2	2	5	2	5	0	3	3	3	0	3	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:136599301A>G	uc003qgx.1	-	4	971	c.718T>C	c.(718-720)TCA>CCA	p.S240P	BCLAF1_uc003qgw.1_Missense_Mutation_p.S240P|BCLAF1_uc003qgy.1_Missense_Mutation_p.S238P|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.S238P	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	240					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		GAGCAAGATGAACTCTGACTA	0.458													38	150					0	0	1	0	0		G	136599301	G	G	136599301	3	3	73	1	0	0	0	0	1	0	0	0	1384	246	9	3	2084	3	BCLAF1	6	136599301	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	14973326	136599301	34515766	455	47692											
KIAA1244	57221	broad.mit.edu	37	chr6	138640990	138640990	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgtgagctggtggtggAgcacattcaaagctttctac	8	12	12	9	0	2	1	1	1	1	0	3	2	3	2	1	3	4	3	1	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:138640990A>C	uc003qhu.2	+	28	4625	c.4625A>C	c.(4624-4626)GAG>GCG	p.E1542A		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1542					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CTGGTGGTGGAGCACATTCAA	0.493													31	68					0	0	1	0	0		C	138640990	C	C	138640990	3	2	73	1	0	0	0	0	1	0	0	0	8233	304	11	5	4735	5	KIAA1244	6	138640990	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2041689	138640990	32474077	456	47693											
GRM1	2911	broad.mit.edu	37	chr6	146350787	146350787	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagaatggacggagatgTcatcattggagccctcttct	9	10	12	10	1	4	2	2	0	2	2	4	5	4	4	2	4	1	0	2	4	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:146350787T>C	uc010khw.1	+	2	604	c.134T>C	c.(133-135)GTC>GCC	p.V45A	GRM1_uc010khu.1_Missense_Mutation_p.V45A|GRM1_uc010khv.1_Missense_Mutation_p.V45A|GRM1_uc003qll.2_Missense_Mutation_p.V45A|GRM1_uc011edz.1_Missense_Mutation_p.V45A|GRM1_uc011eea.1_Missense_Mutation_p.V45A	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	45	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GACGGAGATGTCATCATTGGA	0.592													30	51					0	0	1	0	0		C	146350787	C	C	146350787	3	2	73	1	0	0	0	0	1	0	0	0	6812	1667	58	3	136	3	GRM1	6	146350787	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	7709797	146350787	24764280	457	47694											
GRM1	2911	broad.mit.edu	37	chr6	146625839	146625839	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagtctccagaggtcaGgtcatttgatgattatttcc	8	14	10	9	0	3	3	2	2	1	1	5	3	4	3	2	2	1	2	2	2	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:146625839G>T	uc010khw.1	+	4	1513	c.1043G>T	c.(1042-1044)AGG>ATG	p.R348M	GRM1_uc010khv.1_Missense_Mutation_p.R348M|GRM1_uc003qll.2_Missense_Mutation_p.R348M|GRM1_uc011edz.1_Missense_Mutation_p.R348M|GRM1_uc011eea.1_Missense_Mutation_p.R348M	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	348	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CCAGAGGTCAGGTCATTTGAT	0.488													17	28					9.16793e-09	9.6939e-09	1	1	0		T	146625839	T	T	146625839	3	4	73	1	0	0	0	0	1	0	0	0	6812	1000	35	5	1053	5	GRM1	6	146625839	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	275052	146625839	24489228	458	47695											
GRM1	2911	broad.mit.edu	37	chr6	146755301	146755301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaggcgcgtgccaagcgCggcgaccactccgcctctgc	6	4	13	18	6	1	0	0	0	1	0	2	1	2	0	4	2	3	1	4	2	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:146755301C>T	uc010khw.1	+	9	3424	c.2954C>T	c.(2953-2955)GCG>GTG	p.A985V	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	985	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GTGCCAAGCGCGGCGACCACT	0.662													37	82					0	0	1	0	0		T	146755301	T	T	146755301	3	4	73	1	0	0	0	0	1	0	0	0	6812	768	27	1	3049	1	GRM1	6	146755301	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	129462	146755301	24359766	459	47696											
GRM1	2911	broad.mit.edu	37	chr6	146755495	146755495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgatcccggattttcacGcggtgctggcaggccccggt	4	8	14	15	6	1	0	1	0	0	0	2	2	2	1	4	5	1	2	4	5	0	2	rs140795616		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:146755495G>A	uc010khw.1	+	9	3618	c.3148G>A	c.(3148-3150)GCG>ACG	p.A1050T	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	1050	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GGATTTTCACGCGGTGCTGGC	0.667													29	47					0	0	1	0	0		A	146755495	A	A	146755495	3	1	73	1	0	0	0	0	1	0	0	0	6812	1087	38	1	3243	1	GRM1	6	146755495	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	194	146755495	24359572	460	47697											
SASH1	23328	broad.mit.edu	37	chr6	148848672	148848672	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggaaaaaggtgaaatcAgtgaaagagacgatgagaaa	19	6	13	3	1	1	4	1	3	0	2	1	8	1	5	0	2	0	0	0	2	5	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:148848672A>G	uc003qme.1	+	12	1843	c.1368A>G	c.(1366-1368)TCA>TCG	p.S456S	SASH1_uc011eeb.1_Silent_p.S217S|SASH1_uc003qmf.1_5'UTR	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	456							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		AGGTGAAATCAGTGAAAGAGA	0.413													35	58					0	0	1	0	0		G	148848672	G	G	148848672	2	3	73	1	0	0	0	0	0	0	0	1	13873	175	7	3		3	SASH1	6	148848672	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2093177	148848672	22266395	461	47698											
NUP43	348995	broad.mit.edu	37	chr6	150048223	150048223	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgggaagtaagcttgtgAtttcaattcggtcttttgca	9	16	10	6	1	2	1	1	1	1	0	3	2	2	2	0	2	3	3	0	2	4	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:150048223A>G	uc003qmz.2	-	8	1082	c.1025T>C	c.(1024-1026)ATC>ACC	p.I342T	NUP43_uc003qmx.3_RNA|NUP43_uc011eee.1_RNA|NUP43_uc011eef.1_Missense_Mutation_p.I246T	NM_198887	NP_942590	Q8NFH3	NUP43_HUMAN	nucleoporin 43kDa	342					carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			upper_aerodigestive_tract(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;4.71e-13)|GBM - Glioblastoma multiforme(68;0.101)		TAAGCTTGTGATTTCAATTCG	0.413													24	46					0	0	1	0	0		G	150048223	G	G	150048223	3	3	73	1	0	0	0	0	1	0	0	0	10784	333	12	3	121	3	NUP43	6	150048223	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1199551	150048223	21066844	462	47699											
T	6862	broad.mit.edu	37	chr6	166572000	166572000	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggaagaactgggcccccaGcccgttggacacggctgctg	7	5	14	15	3	0	1	0	0	0	1	0	3	0	3	4	4	3	3	4	4	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:166572000G>T	uc003quu.1	-	9	1604	c.1111C>A	c.(1111-1113)CTG>ATG	p.L371M	T_uc003qut.1_Missense_Mutation_p.L372M|T_uc003quv.1_Missense_Mutation_p.L313M	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	371					anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		TGGGCCCCCAGCCCGTTGGAC	0.677									Chordoma_Familial_Clustering_of				12	22					1.08611e-07	1.14096e-07	1	1	0		T	166572000	T	T	166572000	3	4	73	1	0	0	0	0	1	0	0	0	15513	962	34	5	200	5	T	6	166572000	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	16523777	166572000	4543067	463	47700											
RPS6KA2	6196	broad.mit.edu	37	chr6	166831826	166831826	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcccatttgcaaaaggggTaaatctgtataattagacaa	15	11	9	6	0	1	1	0	0	1	1	1	1	1	1	1	3	1	3	1	3	8	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr6:166831826T>C	uc003qvb.1	-	19	2044	c.1825A>G	c.(1825-1827)ACC>GCC	p.T609A	RPS6KA2_uc011ego.1_Missense_Mutation_p.T520A|RPS6KA2_uc010kkl.1_Missense_Mutation_p.T520A|RPS6KA2_uc003qvc.1_Missense_Mutation_p.T617A|RPS6KA2_uc003qvd.1_Missense_Mutation_p.T634A|RPS6KA2_uc010kkk.1_Missense_Mutation_p.T41A	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	609	Protein kinase 2.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		GCAAAAGGGGTAAATCTGTAT	0.438													7	52					0	0	1	0	0		C	166831826	C	C	166831826	3	2	73	1	0	0	0	0	1	0	0	0	13676	1638	57	3	388	3	RPS6KA2	6	166831826	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	259826	166831826	4283241	464	47701											
SUN1	23353	broad.mit.edu	37	chr7	905639	905639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaacttacgaaaccaaaacgGcgctgatgagtctgtttggg	13	9	11	8	3	1	2	0	2	1	0	1	3	1	2	1	2	4	2	1	2	5	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:905639G>A	uc011jvp.1	+	17	1994	c.1915G>A	c.(1915-1917)GCG>ACG	p.A639T	GET4_uc003sjj.1_RNA|SUN1_uc003sjf.2_Missense_Mutation_p.A556T|SUN1_uc011jvq.1_Missense_Mutation_p.A536T|SUN1_uc003sjg.2_Missense_Mutation_p.A544T|SUN1_uc011jvr.1_Missense_Mutation_p.A437T|SUN1_uc003sji.2_Missense_Mutation_p.A477T|SUN1_uc003sjk.2_Missense_Mutation_p.A278T	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	666	Perinuclear space.|SUN.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						AACCAAAACGGCGCTGATGAG	0.552													4	48					0	0	1	0	0		A	905639	A	A	905639	3	1	73	1	0	0	0	0	1	0	0	0	15416	1203	42	2	2160	2	SUN1	7	905639	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08		905639	158233024	465	47702											
GET4	51608	broad.mit.edu	37	chr7	933435	933435	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accagccatccctccggcggGaccccatgtacaacgaggtg	9	5	11	16	3	0	0	0	0	0	0	2	2	2	1	6	3	3	1	6	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:933435G>T	uc003sjl.1	+	7	897	c.805G>T	c.(805-807)GAC>TAC	p.D269Y	GET4_uc003sjj.1_RNA	NM_015949	NP_057033	Q7L5D6	GET4_HUMAN	hypothetical protein LOC51608	269					tail-anchored membrane protein insertion into ER membrane|transport	BAT3 complex	protein binding				0						CCTCCGGCGGGACCCCATGTA	0.642													6	18					3.59834e-05	3.68696e-05	1	1	0		T	933435	T	T	933435	3	4	73	1	0	0	0	0	1	0	0	0	6351	1174	41	5	831	5	GET4	7	933435	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	27796	933435	158205228	466	47703											
FTSJ2	29960	broad.mit.edu	37	chr7	2274830	2274830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctgatgactctttcctgCtggcttcaggtttgatgatc	5	17	9	10	0	3	4	1	4	2	0	5	4	4	4	1	2	1	3	1	2	0	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:2274830C>T	uc003slm.2	-	3	697	c.668G>A	c.(667-669)AGC>AAC	p.S223N	MAD1L1_uc003slh.1_5'Flank|MAD1L1_uc003slf.1_5'Flank|MAD1L1_uc003slg.1_5'Flank|MAD1L1_uc010ksh.1_5'Flank|MAD1L1_uc003sli.1_5'Flank|MAD1L1_uc010ksi.1_5'Flank|MAD1L1_uc010ksj.2_5'Flank|FTSJ2_uc003slk.2_Missense_Mutation_p.S69N|FTSJ2_uc003sll.2_Missense_Mutation_p.S69N|FTSJ2_uc003sln.2_RNA|FTSJ2_uc003slo.2_Missense_Mutation_p.S69N	NM_013393	NP_037525	Q9UI43	RRMJ2_HUMAN	FtsJ homolog 2	223					cell proliferation	mitochondrion|nucleolus	nucleic acid binding|rRNA (uridine-2'-O-)-methyltransferase activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0822)|OV - Ovarian serous cystadenocarcinoma(56;2.7e-14)		CTCTTTCCTGCTGGCTTCAGG	0.468													42	90					0	0	1	0	0		T	2274830	T	T	2274830	3	4	73	1	0	0	0	0	1	0	0	0	6102	797	28	2	76	2	FTSJ2	7	2274830	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1341395	2274830	156863833	467	47704											
SDK1	221935	broad.mit.edu	37	chr7	3678636	3678637	+	Missense_Mutation	DNP	GT	AC	AC																															ttctttttgctattcaacagGtacattattccatctttgca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:3678636_3678637GT>AC	uc003smx.2	+	3	598_599	c.459_460GT>AC	c.(457-462)AAGTAC>AAACAC	p.Y154H		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	154	Ig-like C2-type 1.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TATTCAACAGGTACATTATTCC	0.401													11	10					0	0	1	0	0		AC	3678637	AC	AC	3678636	3	1	73	1	0	0	0	0	1	0	0	0	13993	1275	44	4	469	4	SDK1	7	3678636	Missense_Mutation	DNP	GT	TCGA-BR-8372-01A-11D-2340-08	1403806	3678636	155460027	468	47705											
SDK1	221935	broad.mit.edu	37	chr7	4056808	4056808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcgtggcgcaggtaccGcctggctggccttcccggag	3	9	14	15	4	0	0	0	0	0	0	3	1	2	1	5	5	1	3	5	5	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:4056808G>A	uc003smx.2	+	17	2565	c.2426G>A	c.(2425-2427)CGC>CAC	p.R809H	SDK1_uc010kso.2_Missense_Mutation_p.R85H	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	809	Fibronectin type-III 2.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CGCAGGTACCGCCTGGCTGGC	0.567													11	17					0	0	1	0	0		A	4056808	A	A	4056808	3	1	73	1	0	0	0	0	1	0	0	0	13993	1087	38	1	2492	1	SDK1	7	4056808	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	378172	4056808	155081855	469	47706											
SDK1	221935	broad.mit.edu	37	chr7	4249683	4249683	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcccccagctttctggcgTtctcagaaataacctccacc	8	9	8	16	1	2	1	1	0	2	1	4	1	3	1	5	2	2	2	5	2	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:4249683T>G	uc003smx.2	+	38	5567	c.5428T>G	c.(5428-5430)TTC>GTC	p.F1810V	SDK1_uc010kso.2_Missense_Mutation_p.F1066V|SDK1_uc003smy.2_Missense_Mutation_p.F297V	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1810	Fibronectin type-III 12.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CTTTCTGGCGTTCTCAGAAAT	0.577													22	59					0	0	1	0	0		G	4249683	G	G	4249683	3	3	73	1	0	0	0	0	1	0	0	0	13993	1725	60	5	5578	5	SDK1	7	4249683	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	192875	4249683	154888980	470	47707											
PMS2	5395	broad.mit.edu	37	chr7	6029582	6029582	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagtaacattgatatcaacGcattctaaggcaaaaaagaa	19	8	8	6	1	2	2	1	1	1	1	2	3	2	3	0	2	2	3	0	2	8	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:6029582G>A	uc003spl.2	-	10	1080	c.993C>T	c.(991-993)TGC>TGT	p.C331C	PMS2_uc003spj.2_Silent_p.C225C|PMS2_uc003spk.2_Silent_p.C196C|PMS2_uc011jwl.1_Silent_p.C196C|PMS2_uc010ktg.2_Silent_p.C20C|PMS2_uc010kte.2_Intron|PMS2_uc010ktf.1_Silent_p.C331C	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	331					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		TGATATCAACGCATTCTAAGG	0.219			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				18	19					0	0	1	0	0		A	6029582	A	A	6029582	2	1	73	1	0	0	0	0	0	0	0	1	12162	1079	38	1		1	PMS2	7	6029582	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1779899	6029582	153109081	471	47708											
THSD7A	221981	broad.mit.edu	37	chr7	11501698	11501698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcatagaggggatctgtgCagtctcggcccccgttggct	5	11	13	12	2	3	1	1	0	2	1	4	2	3	2	2	4	1	3	2	4	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:11501698C>T	uc003ssf.3	-	10	2693	c.2441G>A	c.(2440-2442)TGC>TAC	p.C814Y		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	814	TSP type-1 8.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		GGGATCTGTGCAGTCTCGGCC	0.537										HNSCC(18;0.044)			43	81					0	0	1	0	0		T	11501698	T	T	11501698	3	4	73	1	0	0	0	0	1	0	0	0	15904	710	25	2	2604	2	THSD7A	7	11501698	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5472116	11501698	147636965	472	47709											
CDCA7L	55536	broad.mit.edu	37	chr7	21946038	21946038	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcatacgccgcgtgatctGtccctccgagaaggcccgcc	6	8	11	16	5	2	2	1	1	1	1	4	3	4	2	5	1	1	1	5	1	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:21946038G>A	uc010kuk.2	-	6	910	c.790C>T	c.(790-792)CAG>TAG	p.Q264*	CDCA7L_uc003sve.3_Nonsense_Mutation_p.Q230*|CDCA7L_uc010kul.2_Nonsense_Mutation_p.Q218*|CDCA7L_uc003svf.3_Nonsense_Mutation_p.Q263*	NM_018719	NP_061189	Q96GN5	CDA7L_HUMAN	cell division cycle associated 7-like isoform 1	264					positive regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus					0						CGCGTGATCTGTCCCTCCGAG	0.542													37	81					0	0	1	0	0		A	21946038	A	A	21946038	4	1	73	1	0	0	0	0	0	1	0	0	3094	1386	48	4	594	4	CDCA7L	7	21946038	Nonsense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	10444340	21946038	137192625	473	47710											
IGF2BP3	10643	broad.mit.edu	37	chr7	23509592	23509592	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttgagggcccagctctcGtccgggcagtccacgaacgc	6	6	13	16	4	1	1	0	1	1	0	4	2	3	1	4	2	2	2	4	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:23509592G>A	uc003swg.2	-	1	404	c.138C>T	c.(136-138)GAC>GAT	p.D46D	IGF2BP3_uc003swh.1_RNA	NM_006547	NP_006538	O00425	IF2B3_HUMAN	insulin-like growth factor 2 mRNA binding	46	RRM 1.				anatomical structure morphogenesis|negative regulation of translation|translation	cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			ovary(2)	2						CCCAGCTCTCGTCCGGGCAGT	0.697													24	35					0	0	1	0	0		A	23509592	A	A	23509592	2	1	73	1	0	0	0	0	0	0	0	1	7591	1136	40	1		1	IGF2BP3	7	23509592	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1563554	23509592	135629071	474	47711											
HOXA2	3199	broad.mit.edu	37	chr7	27140534	27140534	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggggacctcaagggcctcAggactgtcattgtttaggcc	8	9	14	10	0	3	0	3	0	0	0	3	3	3	2	3	5	0	1	3	5	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:27140534A>C	uc003syh.2	-	2	1217	c.942T>G	c.(940-942)CCT>CCG	p.P314P		NM_006735	NP_006726	O43364	HXA2_HUMAN	homeobox A2	314						nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						CAAGGGCCTCAGGACTGTCAT	0.502													27	57					0	0	1	0	0		C	27140534	C	C	27140534	2	2	73	1	0	0	0	0	0	0	0	1	7308	175	7	5		5	HOXA2	7	27140534	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3630942	27140534	131998129	475	47712											
AQP1	358	broad.mit.edu	37	chr7	30963164	30963164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctcacagaccgcgtgaagGtgtggaccagcggccaggtg	9	5	15	12	3	1	2	1	1	0	1	1	3	1	3	4	4	1	0	4	4	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:30963164G>A	uc003tbv.1	+	4	787	c.730G>A	c.(730-732)GTG>ATG	p.V244M	AQP1_uc011kac.1_Missense_Mutation_p.V304M|AQP1_uc010kwf.1_Missense_Mutation_p.V161M|AQP1_uc010kwg.1_Missense_Mutation_p.V125M|AQP1_uc010kwh.1_Missense_Mutation_p.V193M	NM_198098	NP_932766	P29972	AQP1_HUMAN	aquaporin 1	244	Cytoplasmic.				ammonium transport|cell volume homeostasis|cellular hyperosmotic response|cellular response to cAMP|cellular response to copper ion|cellular response to dexamethasone stimulus|cellular response to hydrogen peroxide|cellular response to hypoxia|cellular response to mechanical stimulus|cellular response to mercury ion|cellular response to nitric oxide|cellular response to retinoic acid|cellular response to salt stress|cellular response to UV|cerebrospinal fluid secretion|cGMP biosynthetic process|establishment or maintenance of actin cytoskeleton polarity|lateral ventricle development|maintenance of symbiont-containing vacuole via substance secreted by host|negative regulation of apoptosis|odontogenesis|pancreatic juice secretion|positive regulation of angiogenesis|positive regulation of fibroblast proliferation|positive regulation of saliva secretion|renal water transport|response to drug|transepithelial water transport	apical plasma membrane|basal plasma membrane|brush border membrane|cytoplasm|integral to plasma membrane|nuclear membrane|sarcolemma|symbiont-containing vacuole	ammonia transmembrane transporter activity|carbon dioxide transmembrane transporter activity|glycerol transmembrane transporter activity|intracellular cGMP activated cation channel activity|nitric oxide transmembrane transporter activity|potassium channel activity|potassium ion transmembrane transporter activity|protein binding|water channel activity				0		Melanoma(862;0.16)			Acetazolamide(DB00819)	CCGCGTGAAGGTGTGGACCAG	0.602													9	26					0	0	1	0	0		A	30963164	A	A	30963164	3	1	73	1	0	0	0	0	1	0	0	0	821	1261	44	4	1001	4	AQP1	7	30963164	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3822630	30963164	128175499	476	47713											
GPR141	353345	broad.mit.edu	37	chr7	37780555	37780555	+	Frame_Shift_Del	DEL	T	-	-																															catcaactatatgatagtcaTttttgtcatagccgttgctg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:37780555delT	uc003tfm.1	+	1	560	c.560delT	c.(559-561)ATTfs	p.I187fs	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	187	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						ATGATAGTCATTTTTGTCATA	0.403													45	94	---	---	---	---						.	-	37780555	-	-	37780555	7	5	73	1	0	1	0	1	0	0	0	0	6664	1493	52	0	562	0	GPR141	7	37780555	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	6817391	37780555	121358108	477	47714											
EPDR1	54749	broad.mit.edu	37	chr7	37960770	37960770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgggctcaaccagcgcgtgCgggtgctggacgagaggaag	9	4	18	10	5	1	1	1	0	0	1	1	4	1	3	1	4	4	2	1	4	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:37960770C>T	uc003tfp.2	+	1	608	c.589C>T	c.(589-591)CGG>TGG	p.R197W	EPDR1_uc003tfq.2_Missense_Mutation_p.R197W|EPDR1_uc010kxh.2_5'Flank	NM_017549	NP_060019	Q9UM22	EPDR1_HUMAN	ependymin related protein 1 precursor	77					cell-matrix adhesion	extracellular region	calcium ion binding			upper_aerodigestive_tract(1)	1						CCAGCGCGTGCGGGTGCTGGA	0.706													8	33					0	0	1	0	0		T	37960770	T	T	37960770	3	4	73	1	0	0	0	0	1	0	0	0	5171	759	27	1	591	1	EPDR1	7	37960770	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	180215	37960770	121177893	478	47715											
VPS41	27072	broad.mit.edu	37	chr7	38794339	38794339	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtcttccaattcttccActacctttttaatctagata	9	18	3	11	0	4	1	0	0	4	1	6	1	6	1	3	0	1	0	3	0	5	9			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:38794339A>C	uc003tgy.2	-	21	1777	c.1751T>G	c.(1750-1752)GTG>GGG	p.V584G	VPS41_uc003tgz.2_Missense_Mutation_p.V559G|VPS41_uc010kxn.2_Missense_Mutation_p.V495G	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	584	Clathrin.				Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						CAATTCTTCCACTACCTTTTT	0.413													9	18					0	0	1	0	0		C	38794339	C	C	38794339	3	2	73	1	0	0	0	0	1	0	0	0	17236	159	6	5	849	5	VPS41	7	38794339	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	833569	38794339	120344324	479	47716											
ZMIZ2	83637	broad.mit.edu	37	chr7	44805082	44805082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacgtgctcatgcccagcGtgatggagatgatcgccgcc	7	7	12	15	4	1	3	1	2	0	1	2	4	1	3	4	1	3	1	4	1	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:44805082G>A	uc003tlr.2	+	16	2269	c.2146G>A	c.(2146-2148)GTG>ATG	p.V716M	ZMIZ2_uc003tlq.2_Missense_Mutation_p.V658M|ZMIZ2_uc003tls.2_Missense_Mutation_p.V690M|ZMIZ2_uc003tlt.2_Missense_Mutation_p.V339M|ZMIZ2_uc010kyj.2_Missense_Mutation_p.V238M|ZMIZ2_uc003tlu.2_5'Flank	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	716					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						CATGCCCAGCGTGATGGAGAT	0.697													5	17					0	0	1	0	0		A	44805082	A	A	44805082	3	1	73	1	0	0	0	0	1	0	0	0	17722	1145	40	1	2204	1	ZMIZ2	7	44805082	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6010743	44805082	114333581	480	47717											
POM121L12	285877	broad.mit.edu	37	chr7	53103659	53103659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctccgagggctggaggCgccctgcccttcccggggag	3	7	17	14	3	1	0	0	0	1	0	3	3	2	2	4	6	1	1	4	6	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:53103659C>T	uc003tpz.2	+	1	311	c.295C>T	c.(295-297)CGC>TGC	p.R99C		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	99											0						GGGCTGGAGGCGCCCTGCCCT	0.721													13	14					0	0	1	0	0		T	53103659	T	T	53103659	3	4	73	1	0	0	0	0	1	0	0	0	12260	768	27	1	297	1	POM121L12	7	53103659	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	8298577	53103659	106035004	481	47718											
ZNF92	168374	broad.mit.edu	37	chr7	64864403	64864403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctacaaatgtgaagaatgtgGcaaagcctttagtgtattct	13	13	9	6	0	1	2	0	1	1	1	1	2	1	2	1	1	2	2	1	1	7	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:64864403G>A	uc003ttz.2	+	4	1519	c.1376G>A	c.(1375-1377)GGC>GAC	p.G459D	ZNF92_uc003tua.2_Missense_Mutation_p.G390D|ZNF92_uc010kzu.2_Missense_Mutation_p.G427D|ZNF92_uc003tub.2_Missense_Mutation_p.G383D	NM_152626	NP_689839	Q03936	ZNF92_HUMAN	zinc finger protein 92 isoform 2	459	C2H2-type 12.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(55;0.159)				GAAGAATGTGGCAAAGCCTTT	0.353													17	37					0	0	1	0	0		A	64864403	A	A	64864403	3	1	73	1	0	0	0	0	1	0	0	0	18226	1203	42	2	1390	2	ZNF92	7	64864403	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	11760744	64864403	94274260	482	47719											
WBSCR17	64409	broad.mit.edu	37	chr7	70800611	70800611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttccggctactctttcccCggctgaagaagaaaaggcta	10	9	9	13	2	1	3	0	1	1	2	3	3	3	3	4	3	1	3	4	3	6	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:70800611C>T	uc003tvy.2	+	2	314	c.314C>T	c.(313-315)CCG>CTG	p.P105L	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	105	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				ACTCTTTCCCCGGCTGAAGAA	0.473													18	42					0	0	1	0	0		T	70800611	T	T	70800611	3	4	73	1	0	0	0	0	1	0	0	0	17290	652	23	1	320	1	WBSCR17	7	70800611	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5936208	70800611	88338052	483	47720											
WBSCR22	114049	broad.mit.edu	37	chr7	73106939	73106939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttcaggtccggggatcccGagctgtcctgcagctgtacc	5	10	12	14	2	1	0	1	0	0	0	4	2	4	1	4	3	4	4	4	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:73106939G>A	uc003tyt.2	+	7	531	c.473G>A	c.(472-474)CGA>CAA	p.R158Q	WBSCR22_uc010lbi.1_RNA|WBSCR22_uc003tyu.2_Missense_Mutation_p.R158Q|WBSCR22_uc003tyv.2_Missense_Mutation_p.R120Q|WBSCR22_uc003tyw.1_Missense_Mutation_p.R21Q	NM_017528	NP_059998	O43709	WBS22_HUMAN	Williams Beuren syndrome chromosome region 22	158						nucleus	methyltransferase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				CGGGGATCCCGAGCTGTCCTG	0.522													18	24					0	0	1	0	0		A	73106939	A	A	73106939	3	1	73	1	0	0	0	0	1	0	0	0	17291	1058	37	1	499	1	WBSCR22	7	73106939	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2306328	73106939	86031724	484	47721											
EIF4H	7458	broad.mit.edu	37	chr7	73609551	73609551	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacctcgaacagtcgcgacGcccctcaatcaagtagccaa	14	5	7	15	4	2	0	2	0	0	0	4	2	2	0	4	0	3	1	4	0	6	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:73609551G>A	uc003uad.1	+	7	668	c.660G>A	c.(658-660)ACG>ACA	p.T220T	RFC2_uc011kfa.1_Intron|EIF4H_uc010lbm.2_Intron|EIF4H_uc003uae.1_Silent_p.T200T|EIF4H_uc003uaf.1_RNA	NM_022170	NP_071496	Q15056	IF4H_HUMAN	eukaryotic translation initiation factor 4H	220					interspecies interaction between organisms|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0						CAGTCGCGACGCCCCTCAATC	0.532													16	39					0	0	1	0	0		A	73609551	A	A	73609551	2	1	73	1	0	0	0	0	0	0	0	1	5047	1074	38	1		1	EIF4H	7	73609551	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	502612	73609551	85529112	485	47722											
SEMA3D	223117	broad.mit.edu	37	chr7	84642151	84642151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccatattttacatcttggCgtctagctctcctgcggaaa	8	13	8	12	3	3	0	0	0	3	0	4	1	3	1	2	2	3	1	2	2	4	5	rs150646719	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:84642151C>T	uc003uic.2	-	15	1755	c.1715G>A	c.(1714-1716)CGC>CAC	p.R572H	SEMA3D_uc010led.2_Missense_Mutation_p.R572H|SEMA3D_uc003uib.2_Missense_Mutation_p.R211H	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	572	PSI.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						TACATCTTGGCGTCTAGCTCT	0.408													30	41					0	0	1	0	0		T	84642151	T	T	84642151	3	4	73	1	0	0	0	0	1	0	0	0	14052	768	27	1	630	1	SEMA3D	7	84642151	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	11032600	84642151	74496512	486	47723											
GRM3	2913	broad.mit.edu	37	chr7	86394652	86394652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggcgaatcaatgaagaccGagggattcaacgcctggaag	13	6	14	8	3	2	2	2	1	0	1	2	6	2	4	2	3	1	0	2	3	5	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:86394652G>A	uc003uid.2	+	2	1290	c.191G>A	c.(190-192)CGA>CAA	p.R64Q	GRM3_uc010lef.2_Missense_Mutation_p.R62Q|GRM3_uc010leg.2_Intron|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	64	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	AATGAAGACCGAGGGATTCAA	0.418													66	97					0	0	1	0	0		A	86394652	A	A	86394652	3	1	73	1	0	0	0	0	1	0	0	0	6814	1058	37	1	193	1	GRM3	7	86394652	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1752501	86394652	72744011	487	47724											
GRM3	2913	broad.mit.edu	37	chr7	86479839	86479839	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggttcagtgtcagtggaActgggaccacatactctcag	11	9	11	10	0	3	0	3	0	1	0	4	2	3	2	1	3	2	1	1	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:86479839A>G	uc003uid.2	+	5	3644	c.2545A>G	c.(2545-2547)ACT>GCT	p.T849A	GRM3_uc010lef.2_Missense_Mutation_p.N491S|GRM3_uc010leg.2_Missense_Mutation_p.T721A|GRM3_uc010leh.2_Missense_Mutation_p.T441A	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	849	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TGTCAGTGGAACTGGGACCAC	0.478													40	55					0	0	1	0	0		G	86479839	G	G	86479839	3	3	73	1	0	0	0	0	1	0	0	0	6814	43	2	3	2559	3	GRM3	7	86479839	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	85187	86479839	72658824	488	47725											
ABCB1	5243	broad.mit.edu	37	chr7	87148696	87148696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaagtaggctccaaacCggaaacatccagcataggaa	16	4	8	13	1	0	0	0	0	0	0	2	2	2	2	5	3	3	3	5	3	6	2	rs144369247		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:87148696C>T	uc003uiz.1	-	24	3291	c.2873G>A	c.(2872-2874)CGG>CAG	p.R958Q	ABCB1_uc011khc.1_Missense_Mutation_p.R894Q	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	958	ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	GGCTCCAAACCGGAAACATCC	0.323													22	45					0	0	1	0	0		T	87148696	T	T	87148696	3	4	73	1	0	0	0	0	1	0	0	0	40	652	23	1	993	1	ABCB1	7	87148696	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	668857	87148696	71989967	489	47726											
ABCB1	5243	broad.mit.edu	37	chr7	87165820	87165820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgagcctggtagtcaatgctCcagtggtgtttttagggtca	7	13	13	8	1	2	0	2	0	0	0	3	1	3	0	2	3	2	3	2	3	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:87165820C>T	uc003uiz.1	-	21	2853	c.2435G>A	c.(2434-2436)GGA>GAA	p.G812E	ABCB1_uc011khc.1_Missense_Mutation_p.G748E	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	812	ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	AGTCAATGCTCCAGTGGTGTT	0.398													19	34					0	0	1	0	0		T	87165820	T	T	87165820	3	4	73	1	0	0	0	0	1	0	0	0	40	855	30	4	1443	4	ABCB1	7	87165820	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	17124	87165820	71972843	490	47727											
DLX6	1750	broad.mit.edu	37	chr7	96639203	96639203	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccccctccagggctcggcGgccctgtcgccacgctcgcc	3	5	12	21	5	0	0	0	0	0	0	4	1	1	0	6	3	0	2	6	3	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:96639203G>A	uc003uom.2	+	4	642	c.642G>A	c.(640-642)GCG>GCA	p.A214A	DLX6AS_uc003uol.2_Intron|DLX6AS_uc010lfo.1_Intron	NM_005222	NP_005213	P56179	DLX6_HUMAN	distal-less homeobox 6	124					nervous system development|skeletal system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					AGGGCTCGGCGGCCCTGTCGC	0.577													20	39					0	0	1	0	0		A	96639203	A	A	96639203	2	1	73	1	0	0	0	0	0	0	0	1	4581	1103	39	1		1	DLX6	7	96639203	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	9473383	96639203	62499460	491	47728											
NPTX2	4885	broad.mit.edu	37	chr7	98254285	98254285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaggtgtccctcccactccGcacaaactacctatacggca	11	7	6	17	2	0	0	0	0	0	0	3	0	3	0	4	2	3	2	4	2	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:98254285G>A	uc003upl.2	+	3	872	c.695G>A	c.(694-696)CGC>CAC	p.R232H		NM_002523	NP_002514	P47972	NPTX2_HUMAN	neuronal pentraxin II precursor	232	Pentaxin.				synaptic transmission	extracellular region	metal ion binding|sugar binding			central_nervous_system(2)|skin(1)	3	all_cancers(62;2.28e-09)|all_epithelial(64;4.86e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0128)|all_lung(186;0.0142)		STAD - Stomach adenocarcinoma(171;0.215)			CTCCCACTCCGCACAAACTAC	0.597													77	153					0	0	1	0	0		A	98254285	A	A	98254285	3	1	73	1	0	0	0	0	1	0	0	0	10622	1087	38	1	705	1	NPTX2	7	98254285	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1615082	98254285	60884378	492	47729											
TRRAP	8295	broad.mit.edu	37	chr7	98574685	98574685	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgattgcttacgagcagcacGggttctttgagcaggtaaac	10	10	12	9	3	1	1	0	1	1	0	1	3	1	1	0	2	6	6	0	2	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:98574685G>A	uc003upp.2	+	55	8559	c.8350G>A	c.(8350-8352)GGG>AGG	p.G2784R	TRRAP_uc011kis.1_Missense_Mutation_p.G2766R|TRRAP_uc003upr.2_Missense_Mutation_p.G2483R	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2784	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CGAGCAGCACGGGTTCTTTGA	0.488													9	78					0	0	1	0	0		A	98574685	A	A	98574685	3	1	73	1	0	0	0	0	1	0	0	0	16627	1116	39	1	8506	1	TRRAP	7	98574685	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	320400	98574685	60563978	493	47730											
ZNF789	285989	broad.mit.edu	37	chr7	99084582	99084582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttacggtccataaacagtGtcacctgcaaaacaagccat	14	9	6	12	1	2	0	1	0	1	0	3	0	3	0	3	1	5	1	3	1	6	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:99084582G>A	uc003uqq.1	+	5	968	c.749G>A	c.(748-750)TGT>TAT	p.C250Y	ZNF789_uc010lfw.1_Missense_Mutation_p.C155Y|ZNF789_uc003uqr.1_Missense_Mutation_p.C192Y	NM_213603	NP_998768	Q5FWF6	ZN789_HUMAN	zinc finger protein 789 isoform 1	250	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					CATAAACAGTGTCACCTGCAA	0.428													44	97					0	0	1	0	0		A	99084582	A	A	99084582	3	1	73	1	0	0	0	0	1	0	0	0	18185	1377	48	4	805	4	ZNF789	7	99084582	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	509897	99084582	60054081	494	47731											
ZNF394	84124	broad.mit.edu	37	chr7	99092122	99092122	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttccaccctgtcctcaTgggtactgccacacttagaa	8	12	7	14	0	1	1	1	0	0	1	3	1	3	1	4	1	2	2	4	1	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:99092122T>C	uc003uqs.2	-	3	877	c.716A>G	c.(715-717)CAT>CGT	p.H239R	ZNF394_uc003uqt.2_Missense_Mutation_p.H32R	NM_032164	NP_115540	Q53GI3	ZN394_HUMAN	zinc finger protein 394	239					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					CCTGTCCTCATGGGTACTGCC	0.498													37	74					0	0	1	0	0		C	99092122	C	C	99092122	3	2	73	1	0	0	0	0	1	0	0	0	17905	1464	51	3	973	3	ZNF394	7	99092122	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	7540	99092122	60046541	495	47732											
GAL3ST4	79690	broad.mit.edu	37	chr7	99764249	99764249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgggtagccaaactggtagCgggcagggagggcgaagcgc	9	5	19	8	3	0	0	0	0	0	0	0	2	0	1	1	5	4	3	1	5	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:99764249C>T	uc003utt.2	-	2	1322	c.305G>A	c.(304-306)CGC>CAC	p.R102H	GAL3ST4_uc003utu.2_Missense_Mutation_p.R102H|GAL3ST4_uc010lgq.2_Intron	NM_024637	NP_078913	Q96RP7	G3ST4_HUMAN	galactose-3-O-sulfotransferase 4	102	Lumenal (Potential).				cell-cell signaling|oligosaccharide metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane|membrane fraction	3'-phosphoadenosine 5'-phosphosulfate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(3)	3	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AAACTGGTAGCGGGCAGGGAG	0.612													25	110					0	0	1	0	0		T	99764249	T	T	99764249	3	4	73	1	0	0	0	0	1	0	0	0	6215	768	27	1	1163	1	GAL3ST4	7	99764249	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	672127	99764249	59374414	496	47733											
PLOD3	8985	broad.mit.edu	37	chr7	100849593	100849593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaaggacaccatgatgtagCgtgtgccccaggtcgttggc	9	8	13	11	2	0	1	0	1	0	0	1	2	0	2	3	3	2	2	3	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:100849593C>T	uc003uyd.2	-	19	2642	c.2186G>A	c.(2185-2187)CGC>CAC	p.R729H	PLOD3_uc010lhs.2_Missense_Mutation_p.R294H	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	729	Fe2OG dioxygenase.	Potential.			protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	CATGATGTAGCGTGTGCCCCA	0.637													28	38					0	0	1	0	0		T	100849593	T	T	100849593	3	4	73	1	0	0	0	0	1	0	0	0	12122	768	27	1	34	1	PLOD3	7	100849593	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1085344	100849593	58289070	497	47734											
CUX1	1523	broad.mit.edu	37	chr7	101837135	101837135	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcagcattctgaagtccAtggagtttgcaccgtccgag	8	11	11	11	2	1	1	0	1	1	0	3	3	3	2	3	1	3	4	3	1	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:101837135A>G	uc003uyx.3	+	13	1128	c.1090A>G	c.(1090-1092)ATG>GTG	p.M364V	CUX1_uc003uys.3_Missense_Mutation_p.M375V|CUX1_uc003uyt.2_Missense_Mutation_p.M375V|CUX1_uc011kkn.1_Missense_Mutation_p.M336V|CUX1_uc003uyw.2_Missense_Mutation_p.M329V|CUX1_uc003uyv.2_Missense_Mutation_p.M359V|CUX1_uc003uyu.2_Missense_Mutation_p.M373V	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	364					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						TCTGAAGTCCATGGAGTTTGC	0.398													11	23					0	0	1	0	0		G	101837135	G	G	101837135	3	3	73	1	0	0	0	0	1	0	0	0	4067	217	8	3	1207	3	CUX1	7	101837135	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	987542	101837135	57301528	498	47735											
SLC26A5	375611	broad.mit.edu	37	chr7	103061308	103061308	+	Frame_Shift_Del	DEL	T	-	-																															catataaatgatatttcttaTttttttaggagtacatctga																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:103061308delT	uc003vbz.2	-	4	405	c.169delA	c.(169-171)ATAfs	p.I57fs	SLC26A5_uc003vbt.1_Frame_Shift_Del_p.I57fs|SLC26A5_uc003vbu.1_Frame_Shift_Del_p.I57fs|SLC26A5_uc003vbv.1_Frame_Shift_Del_p.I57fs|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Frame_Shift_Del_p.I57fs|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_RNA	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	57	Cytoplasmic (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						ATATTTCTTATTTTTTTAGGA	0.353													31	52	---	---	---	---						.	-	103061308	-	-	103061308	7	5	73	1	0	1	0	1	0	0	0	0	14545	1493	52	0	2174	0	SLC26A5	7	103061308	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	1224173	103061308	56077355	499	47736											
MLL5	55904	broad.mit.edu	37	chr7	104753084	104753084	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actgctgctgccgtagtcccCcctcctcctccaccaccacc	5	8	5	23	1	0	0	0	0	0	0	4	0	4	0	10	0	3	3	10	0	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:104753084C>A	uc003vcm.2	+	27	5415	c.4881C>A	c.(4879-4881)CCC>CCA	p.P1627P	MLL5_uc010ljc.2_Silent_p.P1627P|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Silent_p.P361P	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1627	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						CCGTAGTCCCCCCTCCTCCTC	0.552													42	46					2.26627e-22	2.52657e-22	1	1	0		A	104753084	A	A	104753084	2	1	73	1	0	0	0	0	0	0	0	1	9642	610	22	5		5	MLL5	7	104753084	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1691776	104753084	54385579	500	47737											
LAMB4	22798	broad.mit.edu	37	chr7	107664504	107664505	+	Frame_Shift_Ins	INS	-	T	T																															tagctatagcacctagcataINSttttttttcttgttcaacaa																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:107664504_107664505insT	uc010ljo.1	-	34	5349_5350	c.5265_5266insA	c.(5263-5268)AAATATfs	p.K1755fs	LAMB4_uc003vey.2_Frame_Shift_Ins_p.K1755fs	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	1755_1756	Potential.|Domain I.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						CACCTAGCATATTTTTTTTCTT	0.376													20	33	---	---	---	---						.	T	107664505	T	T	107664504	7	5	73	1	0	1	1	0	0	0	0	0	8629	449	16	0	23	0	LAMB4	7	107664504	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	2911420	107664504	51474159	501	47738											
NRCAM	4897	broad.mit.edu	37	chr7	107807391	107807391	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtctcaaacacatcctcTgaactcacaaaaccagagtc	14	8	4	15	0	3	2	2	1	2	1	6	2	4	2	3	0	3	0	3	0	4	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:107807391T>C	uc003vfb.2	-	30	3912	c.3441A>G	c.(3439-3441)TCA>TCG	p.S1147S	NRCAM_uc003vfc.2_Intron|NRCAM_uc011kmk.1_Intron|NRCAM_uc003vfd.2_Intron|NRCAM_uc003vfe.2_Intron|NRCAM_uc011kmj.1_Intron	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	1147	Fibronectin type-III 5.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						ACACATCCTCTGAACTCACAA	0.552													12	15					0	0	1	0	0		C	107807391	C	C	107807391	2	2	73	1	0	0	0	0	0	0	0	1	10663	1567	55	3		3	NRCAM	7	107807391	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	142887	107807391	51331272	502	47739											
LRRN3	54674	broad.mit.edu	37	chr7	110763371	110763371	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agattgcagatgatcaacagTaagtggtttgatgctcttcc	11	13	10	7	0	2	4	1	2	1	2	3	4	3	4	1	1	3	4	1	1	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:110763371T>C	uc003vft.3	+	4	1589	c.543T>C	c.(541-543)AGT>AGC	p.S181S	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Silent_p.S181S|LRRN3_uc003vfs.3_Silent_p.S181S	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	181	Extracellular (Potential).|LRR 5.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		TGATCAACAGTAAGTGGTTTG	0.358													36	65					0	0	1	0	0		C	110763371	C	C	110763371	2	2	73	1	0	0	0	0	0	0	0	1	9054	1635	57	3		3	LRRN3	7	110763371	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2955980	110763371	48375292	503	47740											
MET	4233	broad.mit.edu	37	chr7	116381068	116381068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaacagatctgtctgcctGcaatctacaaggtaggaatc	12	10	8	11	0	4	1	1	0	3	1	5	2	4	2	1	2	4	2	1	2	6	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:116381068G>A	uc003vij.2	+	5	1877	c.1690G>A	c.(1690-1692)GCA>ACA	p.A564T	MET_uc010lkh.2_Missense_Mutation_p.A564T|MET_uc011knc.1_Missense_Mutation_p.A564T|MET_uc011knd.1_Missense_Mutation_p.A564T|MET_uc011kne.1_Missense_Mutation_p.A536T|MET_uc011knf.1_Missense_Mutation_p.A564T|MET_uc011kng.1_Missense_Mutation_p.A564T|MET_uc011knh.1_Missense_Mutation_p.A564T|MET_uc011kni.1_Missense_Mutation_p.A564T|MET_uc011knj.1_Missense_Mutation_p.A134T|MET_uc011knb.1_Missense_Mutation_p.A564T	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	564	Extracellular (Potential).|IPT/TIG 1.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			CTGTCTGCCTGCAATCTACAA	0.373			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				36	63					0	0	1	0	0		A	116381068	A	A	116381068	3	1	73	1	0	0	0	0	1	0	0	0	9503	1319	46	2	1704	2	MET	7	116381068	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5617697	116381068	42757595	504	47741											
GPR37	2861	broad.mit.edu	37	chr7	124404154	124404154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagggagttggagatgctccGcatgtagtagttgtggcaca	9	10	16	6	1	0	1	0	0	0	1	1	4	1	2	1	3	1	7	1	3	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:124404154G>A	uc003vli.2	-	1	1528	c.877C>T	c.(877-879)CGG>TGG	p.R293W		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	293	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						GAGATGCTCCGCATGTAGTAG	0.557													42	87					0	0	1	0	0		A	124404154	A	A	124404154	3	1	73	1	0	0	0	0	1	0	0	0	6706	1086	38	1	972	1	GPR37	7	124404154	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	8023086	124404154	34734509	505	47742											
GPR37	2861	broad.mit.edu	37	chr7	124404490	124404490	+	Frame_Shift_Del	DEL	A	-	-																															cccggctctccttggccagtAaaaaagatcgctggctccgg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:124404490delA	uc003vli.2	-	1	1192	c.541delT	c.(541-543)TACfs	p.Y181fs		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	181	Extracellular (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CTTGGCCAGTAAAAAAGATCG	0.602													32	63	---	---	---	---						.	-	124404490	-	-	124404490	7	5	73	1	0	1	0	1	0	0	0	0	6706	362	13	0	1308	0	GPR37	7	124404490	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	336	124404490	34734173	506	47743											
LRRC4	64101	broad.mit.edu	37	chr7	127669309	127669309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctcaggcgagatctccGtggtctccactgttactgtg	5	13	11	12	2	3	1	1	0	2	1	6	2	4	1	3	2	1	1	3	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:127669309G>A	uc003vmk.2	-	2	1522	c.1385C>T	c.(1384-1386)ACG>ATG	p.T462M	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	462	Thr-rich.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		CGAGATCTCCGTGGTCTCCAC	0.547													48	81					0	0	1	0	0		A	127669309	A	A	127669309	3	1	73	1	0	0	0	0	1	0	0	0	9015	1145	40	1	580	1	LRRC4	7	127669309	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3264819	127669309	31469354	507	47744											
LRRC4	64101	broad.mit.edu	37	chr7	127669674	127669674	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggcctggtccacctccacGaggtagcggcctcgcatgtg	6	7	14	14	3	0	0	0	0	0	0	3	2	2	0	5	4	1	2	5	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:127669674G>A	uc003vmk.2	-	2	1157	c.1020C>T	c.(1018-1020)CTC>CTT	p.L340L	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	340	Extracellular (Potential).|LRRCT.					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		CCACCTCCACGAGGTAGCGGC	0.572													7	24					0	0	1	0	0		A	127669674	A	A	127669674	2	1	73	1	0	0	0	0	0	0	0	1	9015	1045	37	1		1	LRRC4	7	127669674	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	365	127669674	31468989	508	47745											
FLNC	2318	broad.mit.edu	37	chr7	128498158	128498158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagccggggctccagctacaGctccatccccaagttctcct	8	8	8	17	1	1	0	0	0	1	0	5	0	4	0	6	2	4	4	6	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:128498158G>A	uc003vnz.3	+	47	8086	c.7877G>A	c.(7876-7878)AGC>AAC	p.S2626N	FLNC_uc003voa.3_Missense_Mutation_p.S2593N	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2626	Interaction with INPPL1.|Self-association site, tail (By similarity).|Hinge 2.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						TCCAGCTACAGCTCCATCCCC	0.622													4	28					0	0	1	0	0		A	128498158	A	A	128498158	3	1	73	1	0	0	0	0	1	0	0	0	5949	971	34	2	8063	2	FLNC	7	128498158	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	828484	128498158	30640505	509	47746											
ATP6V1F	9296	broad.mit.edu	37	chr7	128505608	128505608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgcagggccaggggcatGttcactgccgaagacctgcg	7	6	15	13	3	1	1	1	0	0	1	1	2	1	1	3	3	3	3	3	3	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:128505608G>A	uc003voc.1	+	2	397	c.336G>A	c.(334-336)ATG>ATA	p.M112I	KCP_uc003vob.1_Intron	NM_004231	NP_004222	Q16864	VATF_HUMAN	ATPase, H+ transporting, lysosomal 14kD, V1	112					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|membrane fraction|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATPase activity, uncoupled|hydrogen ion transporting ATP synthase activity, rotational mechanism|protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)	1						CCAGGGGCATGTTCACTGCCG	0.622													8	20					0	0	1	0	0		A	128505608	A	A	128505608	3	1	73	1	0	0	0	0	1	0	0	0	1186	1377	48	4	342	4	ATP6V1F	7	128505608	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	7450	128505608	30633055	510	47747											
NUP205	23165	broad.mit.edu	37	chr7	135269586	135269586	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctgtttctagctctggCagaattcacagaggcagatg	12	11	10	8	0	4	3	1	0	3	3	4	3	4	3	0	2	1	4	0	2	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:135269586C>A	uc003vsw.2	+	8	1080	c.1049C>A	c.(1048-1050)GCA>GAA	p.A350E	NUP205_uc011kqa.1_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	350					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						CTAGCTCTGGCAGAATTCACA	0.383													13	18					7.93312e-07	8.24456e-07	1	1	0		A	135269586	A	A	135269586	3	1	73	1	0	0	0	0	1	0	0	0	10778	710	25	5	1079	5	NUP205	7	135269586	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	6763978	135269586	23869077	511	47748											
KIAA1549	57670	broad.mit.edu	37	chr7	138603524	138603524	+	Frame_Shift_Del	DEL	A	-	-																															gcattaaagaccgggagcttAaaaaaagggtggtttccaca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:138603524delA	uc011kql.1	-	2	897	c.848delT	c.(847-849)TTAfs	p.L283fs	KIAA1549_uc003vuk.3_Frame_Shift_Del_p.L233fs|KIAA1549_uc011kqj.1_Frame_Shift_Del_p.L283fs	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	283						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						CCGGGAGCTTAAAAAAAGGGT	0.517			O	BRAF	pilocytic astrocytoma								26	43	---	---	---	---						.	-	138603524	-	-	138603524	7	5	73	1	0	1	0	1	0	0	0	0	8260	372	13	0	5080	0	KIAA1549	7	138603524	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	3333938	138603524	20535139	512	47749											
HIPK2	28996	broad.mit.edu	37	chr7	139285327	139285327	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggattataatggcttccGtgagcatgcgtatttctgaa	10	14	11	6	2	1	2	0	2	1	0	2	3	2	3	1	2	2	3	1	2	4	5	rs144631225	by1000genomes	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:139285327G>A	uc003vvf.3	-	11	2445	c.2271C>T	c.(2269-2271)CAC>CAT	p.H757H	HIPK2_uc003vvd.3_Silent_p.H730H	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	757	Interaction with SKI and SMAD1.|Interaction with POU4F1 (By similarity).				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					AATGGCTTCCGTGAGCATGCG	0.498													24	34					0	0	1	0	0		A	139285327	A	A	139285327	2	1	73	1	0	0	0	0	0	0	0	1	7133	1136	40	1		1	HIPK2	7	139285327	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	681803	139285327	19853336	513	47750											
AGK	55750	broad.mit.edu	37	chr7	141352635	141352635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgaggagtatgaagcgatgCctgtggaggtgaaactgctc	10	9	16	6	1	0	3	0	3	0	0	1	6	0	5	1	3	4	2	1	3	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:141352635C>T	uc003vwi.2	+	16	1351	c.1180C>T	c.(1180-1182)CCT>TCT	p.P394S		NM_018238	NP_060708	Q53H12	AGK_HUMAN	acylglycerol kinase precursor	394					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway	mitochondrial membrane	acylglycerol kinase activity|ATP binding|diacylglycerol kinase activity|NAD+ kinase activity			ovary(1)|breast(1)	2	Melanoma(164;0.0171)					TGAAGCGATGCCTGTGGAGGT	0.522													33	75					0	0	1	0	0		T	141352635	T	T	141352635	3	4	73	1	0	0	0	0	1	0	0	0	383	739	26	2	1238	2	AGK	7	141352635	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2067308	141352635	17786028	514	47751											
ZYX	7791	broad.mit.edu	37	chr7	143085726	143085726	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctacagtctggagggggCgccgtactgcgagggctgtt	5	10	17	9	3	2	0	0	0	2	0	2	2	2	1	1	4	3	4	1	4	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:143085726C>A	uc003wcw.2	+	7	1444	c.1289C>A	c.(1288-1290)GCG>GAG	p.A430E	ZYX_uc011ktd.1_Missense_Mutation_p.A273E|ZYX_uc003wcx.2_Missense_Mutation_p.A430E|ZYX_uc011kte.1_Missense_Mutation_p.A399E|ZYX_uc011ktf.1_Missense_Mutation_p.A273E	NM_001010972	NP_001010972	Q15942	ZYX_HUMAN	zyxin	430	LIM zinc-binding 1.				cell adhesion|cell-cell signaling|interspecies interaction between organisms|signal transduction	cell-cell adherens junction|cytoplasm|focal adhesion|integral to plasma membrane|nucleus|stress fiber	protein binding|zinc ion binding				0	Melanoma(164;0.205)					CTGGAGGGGGCGCCGTACTGC	0.547													24	47					1.22574e-08	1.29512e-08	1	1	0		A	143085726	A	A	143085726	3	1	73	1	0	0	0	0	1	0	0	0	18279	768	27	5	1311	5	ZYX	7	143085726	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1733091	143085726	16052937	515	47752											
EPHA1	2041	broad.mit.edu	37	chr7	143096798	143096798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggctcacagtggcaccGtcctacaggcaccagccact	9	5	10	17	1	1	0	1	0	0	0	2	0	2	0	5	3	2	3	5	3	1	1	rs140233341	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:143096798G>A	uc003wcz.2	-	4	868	c.781C>T	c.(781-783)CGG>TGG	p.R261W		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	261	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				CAGTGGCACCGTCCTACAGGC	0.657													22	42					0	0	1	0	0		A	143096798	A	A	143096798	3	1	73	1	0	0	0	0	1	0	0	0	5173	1144	40	1	2209	1	EPHA1	7	143096798	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	11072	143096798	16041865	516	47753											
LRRC61	65999	broad.mit.edu	37	chr7	150034380	150034380	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaacccgctctgtgccaacCcctcctactgggctgcagtc	6	8	9	18	1	1	0	0	0	1	0	3	0	2	0	5	1	5	4	5	1	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:150034380C>A	uc003wgv.2	+	3	1104	c.430C>A	c.(430-432)CCC>ACC	p.P144T	LRRC61_uc003wgx.2_Missense_Mutation_p.P144T|LRRC61_uc003wgw.2_Missense_Mutation_p.P144T|LRRC61_uc003wgz.3_Missense_Mutation_p.P144T	NM_023942	NP_076431	Q9BV99	LRC61_HUMAN	leucine rich repeat containing 61	144	LRRCT.										0			OV - Ovarian serous cystadenocarcinoma(82;0.011)			CTGTGCCAACCCCTCCTACTG	0.657													13	21					0.00010058	0.000102696	1	1	0		A	150034380	A	A	150034380	3	1	73	1	0	0	0	0	1	0	0	0	9035	623	22	5	432	5	LRRC61	7	150034380	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	6937582	150034380	9104283	517	47754											
MLL3	58508	broad.mit.edu	37	chr7	151845524	151845524	+	Frame_Shift_Del	DEL	A	-	-																															caaagcatagttttgtccttAaaaaacatgcattgtgcttt																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:151845524delA	uc003wla.2	-	52	13707	c.13488delT	c.(13486-13488)TTTfs	p.F4496fs	MLL3_uc003wkz.2_Frame_Shift_Del_p.F3614fs|MLL3_uc003wkx.2_Frame_Shift_Del_p.F654fs|MLL3_uc003wky.2_Frame_Shift_Del_p.F2060fs	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4496					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTTTGTCCTTAAAAAACATGC	0.433			N		medulloblastoma								58	108	---	---	---	---						.	-	151845524	-	-	151845524	7	5	73	1	0	1	0	1	0	0	0	0	9640	359	13	0	1279	0	MLL3	7	151845524	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	1811144	151845524	7293139	518	47755											
MLL3	58508	broad.mit.edu	37	chr7	152012386	152012386	+	Frame_Shift_Del	DEL	T	-	-																															gtctccttgtcctaaggaacTtttttccccacagtaacaaa																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:152012386delT	uc003wla.2	-	4	646	c.427delA	c.(427-429)AGTfs	p.S143fs		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	143					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CCTAAGGAACTTTTTTCCCCA	0.378			N		medulloblastoma								34	66	---	---	---	---						.	-	152012386	-	-	152012386	7	5	73	1	0	1	0	1	0	0	0	0	9640	1609	56	0	14532	0	MLL3	7	152012386	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	166862	152012386	7126277	519	47756											
DPP6	1804	broad.mit.edu	37	chr7	154672632	154672632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagtacattgacaggacgCgcgtggccgtgtttgggaag	9	8	16	8	4	0	1	0	1	0	0	0	3	0	3	1	3	2	3	1	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:154672632C>T	uc003wlk.2	+	21	2242	c.2113C>T	c.(2113-2115)CGC>TGC	p.R705C	DPP6_uc003wli.2_Missense_Mutation_p.R641C|DPP6_uc003wlm.2_Missense_Mutation_p.R643C|DPP6_uc011kvq.1_Missense_Mutation_p.R598C	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	705	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			TGACAGGACGCGCGTGGCCGT	0.557													18	15					0	0	1	0	0		T	154672632	T	T	154672632	3	4	73	1	0	0	0	0	1	0	0	0	4736	768	27	1	2311	1	DPP6	7	154672632	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2660246	154672632	4466031	520	47757											
RBM33	155435	broad.mit.edu	37	chr7	155538000	155538000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaaaacatccaattttgtaCcatccagtgccaacatgcag	14	9	5	13	0	0	0	0	0	0	0	2	0	2	0	5	0	5	2	5	0	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr7:155538000C>T	uc010lqk.1	+	14	3051	c.2683C>T	c.(2683-2685)CCA>TCA	p.P895S	RBM33_uc011kvv.1_Missense_Mutation_p.P704S|RBM33_uc003wmg.2_5'Flank	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	895							nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		CAATTTTGTACCATCCAGTGC	0.433													10	12					0	0	1	0	0		T	155538000	T	T	155538000	3	4	73	1	0	0	0	0	1	0	0	0	13155	507	18	4	2737	4	RBM33	7	155538000	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	865368	155538000	3600663	521	47758											
ERICH1	157697	broad.mit.edu	37	chr8	623502	623502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtcttcctccccggcccGtgtcaggtcttcctcaatgg	4	11	9	17	3	4	0	2	0	2	0	7	0	7	0	6	3	0	0	6	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:623502G>A	uc003wph.2	-	4	915	c.850C>T	c.(850-852)CGG>TGG	p.R284W	ERICH1_uc011kwh.1_Missense_Mutation_p.R284W|ERICH1_uc003wpe.1_Missense_Mutation_p.R190W|ERICH1_uc003wpi.2_Missense_Mutation_p.R96W	NM_207332	NP_997215	Q86X53	ERIC1_HUMAN	glutamate-rich 1	284	Glu-rich.									large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		TCCCCGGCCCGTGTCAGGTCT	0.642													60	186					0	0	1	0	0		A	623502	A	A	623502	3	1	73	1	0	0	0	0	1	0	0	0	5238	1144	40	1	493	1	ERICH1	8	623502	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08		623502	145740520	522	47759											
ERICH1	157697	broad.mit.edu	37	chr8	642608	642608	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtcggggtctcagagccAgtgtctgcaacacaggagga	10	6	15	10	1	2	1	1	0	2	1	4	3	2	3	1	4	3	2	1	4	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:642608A>G	uc003wph.2	-	3	239	c.174T>C	c.(172-174)ACT>ACC	p.T58T	ERICH1_uc011kwh.1_Silent_p.T58T|ERICH1_uc003wpe.1_Intron	NM_207332	NP_997215	Q86X53	ERIC1_HUMAN	glutamate-rich 1	58										large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		TCTCAGAGCCAGTGTCTGCAA	0.537													19	33					0	0	1	0	0		G	642608	G	G	642608	2	3	73	1	0	0	0	0	0	0	0	1	5238	175	7	3		3	ERICH1	8	642608	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	19106	642608	145721414	523	47760											
MYOM2	9172	broad.mit.edu	37	chr8	2005503	2005503	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgcctatggtgaggccaagCgacagcgcttcctcagcgag	8	6	13	14	4	1	1	1	1	0	0	2	3	2	1	4	2	3	1	4	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:2005503C>A	uc003wpx.3	+	4	439	c.301C>A	c.(301-303)CGA>AGA	p.R101R	MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	101					muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		TGAGGCCAAGCGACAGCGCTT	0.622													9	23					0.000442599	0.000450332	1	1	0		A	2005503	A	A	2005503	2	1	73	1	0	0	0	0	0	0	0	1	10110	760	27	5		5	MYOM2	8	2005503	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1362895	2005503	144358519	524	47761											
CSMD1	64478	broad.mit.edu	37	chr8	2944619	2944619	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgaaaacgcatttcttacCctggcagagtggcgtgaggg	10	9	14	8	2	1	3	0	2	1	1	1	4	1	3	1	3	2	2	1	3	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:2944619C>A	uc011kwk.1	-	49	7867	c.7477G>T	c.(7477-7479)GCT>TCT	p.A2493S	CSMD1_uc011kwj.1_Missense_Mutation_p.A1822S|CSMD1_uc010lrg.2_Missense_Mutation_p.A561S	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2493	Sushi 14.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CATTTCTTACCCTGGCAGAGT	0.463													6	30					5.9392e-07	6.19891e-07	1	1	0		A	2944619	A	A	2944619	3	1	73	1	0	0	0	0	1	0	0	0	3947	637	22	5	3308	5	CSMD1	8	2944619	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	939116	2944619	143419403	525	47762											
CSMD1	64478	broad.mit.edu	37	chr8	3263588	3263588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctccagaccacgttccCgtcttgcagtatgcaggtaa	9	9	11	12	2	1	1	0	0	1	1	3	2	3	2	3	2	3	6	3	2	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:3263588C>T	uc011kwk.1	-	15	2620	c.2230G>A	c.(2230-2232)GGG>AGG	p.G744R	CSMD1_uc011kwj.1_Missense_Mutation_p.G136R	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	744	Sushi 4.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ACCACGTTCCCGTCTTGCAGT	0.552													27	47					0	0	1	0	0		T	3263588	T	T	3263588	3	4	73	1	0	0	0	0	1	0	0	0	3947	652	23	1	8691	1	CSMD1	8	3263588	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	318969	3263588	143100434	526	47763											
SGK223	157285	broad.mit.edu	37	chr8	8234511	8234511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccatgactgtgatggtggCtgacacctggggagttgggt	6	10	17	8	1	0	3	0	3	0	0	0	4	0	4	2	5	0	2	2	5	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:8234511C>T	uc003wsh.3	-	2	1408	c.1408G>A	c.(1408-1410)GCC>ACC	p.A470T		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	470							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GTGATGGTGGCTGACACCTGG	0.657													8	46					0	0	1	0	0		T	8234511	T	T	8234511	3	4	73	1	0	0	0	0	1	0	0	0	14235	797	28	2	2816	2	SGK223	8	8234511	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4970923	8234511	138129511	527	47764											
MFHAS1	9258	broad.mit.edu	37	chr8	8748510	8748510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcctgcaggcccaagcgcgCcgagtcccaccagcttagcc	7	4	11	19	4	0	0	0	0	0	0	1	1	1	0	6	1	4	2	6	1	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:8748510C>T	uc003wsj.1	-	1	2622	c.2059G>A	c.(2059-2061)GCG>ACG	p.A687T		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	687											0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		CCCAAGCGCGCCGAGTCCCAC	0.612													4	31					0	0	1	0	0		T	8748510	T	T	8748510	3	4	73	1	0	0	0	0	1	0	0	0	9539	739	26	2	1111	2	MFHAS1	8	8748510	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	513999	8748510	137615512	528	47765											
FGF20	26281	broad.mit.edu	37	chr8	16850775	16850775	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttagatgaataggtgttatAccagttctcttcaaactgct	11	15	8	7	0	2	2	1	1	1	1	3	2	2	2	1	1	3	4	1	1	6	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:16850775A>G	uc003wxc.1	-	3	575	c.442T>C	c.(442-444)TAT>CAT	p.Y148H	FGF20_uc010lsv.1_RNA|FGF20_uc010lsw.1_3'UTR	NM_019851	NP_062825	Q9NP95	FGF20_HUMAN	fibroblast growth factor 20	148					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	extracellular region|soluble fraction	growth factor activity			lung(1)	1				Colorectal(111;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		TAGGTGTTATACCAGTTCTCT	0.383													27	173					0	0	1	0	0		G	16850775	G	G	16850775	3	3	73	1	0	0	0	0	1	0	0	0	5863	391	14	3	197	3	FGF20	8	16850775	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	8102265	16850775	129513247	529	47766											
MTUS1	57509	broad.mit.edu	37	chr8	17542011	17542011	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcgggagctgtctgtggctgGatacataagcttcgaggatt	8	12	14	7	2	1	0	0	0	1	0	3	4	1	3	0	4	3	3	0	4	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:17542011G>A	uc003wxv.2	-	7	3138	c.2664C>T	c.(2662-2664)ATC>ATT	p.I888I	MTUS1_uc003wxt.2_Silent_p.I135I|MTUS1_uc011kyg.1_Silent_p.I33I|MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Silent_p.I834I|MTUS1_uc003wxs.2_Silent_p.I54I|hsa-mir-548v|MI0014174_5'Flank	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	888						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		TCTGTGGCTGGATACATAAGC	0.408													85	220					0	0	1	0	0		A	17542011	A	A	17542011	2	1	73	1	0	0	0	0	0	0	0	1	9983	1164	41	4		4	MTUS1	8	17542011	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	691236	17542011	128822011	530	47767											
MTUS1	57509	broad.mit.edu	37	chr8	17611350	17611350	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatcctatcaatgttgggaAcataggtcatttccaaacat	14	13	6	8	0	2	0	2	0	0	0	4	1	4	1	2	2	2	1	2	2	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:17611350A>G	uc003wxv.2	-	2	2441	c.1967T>C	c.(1966-1968)GTT>GCT	p.V656A	MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Missense_Mutation_p.V656A|MTUS1_uc010lsz.2_Missense_Mutation_p.V656A	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	656						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		AATGTTGGGAACATAGGTCAT	0.408													40	127					0	0	1	0	0		G	17611350	G	G	17611350	3	3	73	1	0	0	0	0	1	0	0	0	9983	43	2	3	2220	3	MTUS1	8	17611350	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	69339	17611350	128752672	531	47768											
CSGALNACT1	55790	broad.mit.edu	37	chr8	19363078	19363078	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccattcctgagctgctcacTcctctcctgcagctcctcct	4	12	5	20	0	2	1	1	1	1	0	7	1	6	1	6	0	4	4	6	0	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:19363078T>C	uc011kyn.1	-	4	1332	c.268A>G	c.(268-270)AGT>GGT	p.S90G	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.S90G|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.S89G|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	90	Lumenal (Potential).|Potential.				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		AGCTGCTCACTCCTCTCCTGC	0.632													19	54					0	0	1	0	0		C	19363078	C	C	19363078	3	2	73	1	0	0	0	0	1	0	0	0	3941	1551	54	3	1358	3	CSGALNACT1	8	19363078	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1751728	19363078	127000944	532	47769											
XPO7	23039	broad.mit.edu	37	chr8	21859729	21859729	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaccacacccctgaaccaGgagagcgaccgctttctgca	11	5	10	15	2	1	2	0	1	1	1	1	5	1	3	5	2	3	2	5	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:21859729G>T	uc003xaa.3	+	25	2991	c.2889G>T	c.(2887-2889)CAG>CAT	p.Q963H	XPO7_uc010lti.2_Missense_Mutation_p.Q972H|XPO7_uc010ltk.2_Missense_Mutation_p.Q964H	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	963					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		CCCTGAACCAGGAGAGCGACC	0.552													9	25					0.000274275	0.000279262	1	1	0		T	21859729	T	T	21859729	3	4	73	1	0	0	0	0	1	0	0	0	17475	991	35	5	3039	5	XPO7	8	21859729	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2496651	21859729	124504293	533	47770											
PHYHIP	9796	broad.mit.edu	37	chr8	22085854	22085854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctcaatgctgtggggcGtggacagcagctccatgctc	7	10	13	11	1	1	1	1	1	1	0	4	2	2	2	1	3	4	4	1	3	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:22085854G>A	uc003xbk.3	-	3	711	c.17C>T	c.(16-18)ACG>ATG	p.T6M	PHYHIP_uc003xbj.3_Missense_Mutation_p.T6M	NM_001099335	NP_001092805	Q92561	PHYIP_HUMAN	phytanoyl-CoA 2-hydroxylase interacting protein	6	Fibronectin type-III.										0				Colorectal(74;0.0152)|COAD - Colon adenocarcinoma(73;0.0629)		GCTGTGGGGCGTGGACAGCAG	0.577													3	12					0	0	1	0	0		A	22085854	A	A	22085854	3	1	73	1	0	0	0	0	1	0	0	0	11885	1145	40	1	991	1	PHYHIP	8	22085854	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	226125	22085854	124278168	534	47771											
PPP3CC	5533	broad.mit.edu	37	chr8	22332491	22332491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccctttcctccaacccaacGgcttactttcaaggaagtat	10	11	5	15	1	1	0	1	0	0	0	3	1	3	1	5	2	3	2	5	2	6	4	rs138834215		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:22332491G>A	uc003xbs.2	+	2	401	c.74G>A	c.(73-75)CGG>CAG	p.R25Q	PPP3CC_uc003xbr.1_Missense_Mutation_p.R25Q|PPP3CC_uc011kzi.1_Missense_Mutation_p.R25Q|PPP3CC_uc003xbt.2_Missense_Mutation_p.R25Q	NM_005605	NP_005596	P48454	PP2BC_HUMAN	protein phosphatase 3, catalytic subunit, gamma	25					activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals	cytosol	calmodulin binding|metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		Prostate(55;0.104)		BRCA - Breast invasive adenocarcinoma(99;0.00756)|Colorectal(74;0.0238)|COAD - Colon adenocarcinoma(73;0.0835)		CCAACCCAACGGCTTACTTTC	0.323													22	74					0	0	1	0	0		A	22332491	A	A	22332491	3	1	73	1	0	0	0	0	1	0	0	0	12421	1116	39	1	80	1	PPP3CC	8	22332491	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	246637	22332491	124031531	535	47772											
KIAA1967	57805	broad.mit.edu	37	chr8	22476529	22476529	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacactggagctgaagctggGtgagggcctggggctgcagc	7	6	18	10	0	0	2	0	2	0	0	0	3	0	3	1	5	4	4	1	5	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:22476529G>A	uc003xch.2	+	19	2658	c.2521_splice	c.e19+1	p.E841_splice	KIAA1967_uc003xci.2_Splice_Site_p.E841_splice|KIAA1967_uc003xcj.1_Splice_Site_p.E510_splice	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein						apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		CTGAAGCTGGGTGAGGGCCTG	0.632													19	86					0	0	1	0	0		A	22476529	A	A	22476529	5	1	73	1	0	0	0	0	0	0	1	0	8281	1275	44	4	2592	4	KIAA1967	8	22476529	Splice_Site	SNP	G	TCGA-BR-8372-01A-11D-2340-08	144038	22476529	123887493	536	47773											
EGR3	1960	broad.mit.edu	37	chr8	22550321	22550321	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctgtagccatctgattgTaatggactaccgagtcgctg	9	12	10	10	2	1	1	0	1	1	0	2	3	1	2	3	1	3	3	3	1	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:22550321T>C	uc003xcm.1	-	1	495	c.137A>G	c.(136-138)TAC>TGC	p.Y46C	EGR3_uc011kzn.1_5'Flank|EGR3_uc011kzo.1_5'Flank	NM_004430	NP_004421	Q06889	EGR3_HUMAN	early growth response 3	46					circadian rhythm|muscle organ development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Prostate(55;0.0421)|Breast(100;0.102)		Colorectal(74;0.0145)|BRCA - Breast invasive adenocarcinoma(99;0.053)|COAD - Colon adenocarcinoma(73;0.0608)		CATCTGATTGTAATGGACTAC	0.358													26	56					0	0	1	0	0		C	22550321	C	C	22550321	3	2	73	1	0	0	0	0	1	0	0	0	4979	1638	57	3	1034	3	EGR3	8	22550321	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	73792	22550321	123813701	537	47774											
ADAM7	8756	broad.mit.edu	37	chr8	24333965	24333965	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcgcagaaatggtcatcCtcacaataaactaaggaacc	16	8	7	10	1	2	1	2	0	0	1	4	2	3	2	2	2	2	2	2	2	7	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:24333965C>A	uc003xeb.2	+	8	766	c.653C>A	c.(652-654)CCT>CAT	p.P218H	ADAM7_uc003xec.2_5'UTR	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	218	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		AATGGTCATCCTCACAATAAA	0.299													23	67					4.87955e-14	5.30196e-14	1	1	0		A	24333965	A	A	24333965	3	1	73	1	0	0	0	0	1	0	0	0	251	681	24	5	683	5	ADAM7	8	24333965	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1783644	24333965	122030057	538	47775											
DOCK5	80005	broad.mit.edu	37	chr8	25158099	25158099	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcctttgccagtgagaacTatctaattcgttggggcagt	8	15	10	8	1	1	1	0	1	1	1	3	2	2	1	2	2	2	2	2	2	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:25158099T>C	uc003xeg.2	+	9	909	c.772T>C	c.(772-774)TAT>CAT	p.Y258H	DOCK5_uc010luf.1_RNA|DOCK5_uc003xeh.1_Intron|DOCK5_uc003xef.2_Missense_Mutation_p.Y258H	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	258						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		CAGTGAGAACTATCTAATTCG	0.433													9	26					0	0	1	0	0		C	25158099	C	C	25158099	3	2	73	1	0	0	0	0	1	0	0	0	4696	1522	53	3	806	3	DOCK5	8	25158099	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	824134	25158099	121205923	539	47776											
EXTL3	2137	broad.mit.edu	37	chr8	28575186	28575186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggctatgattaggactcGcatccagatcccagccgctc	8	9	10	14	2	0	2	0	1	0	1	4	3	2	3	3	2	1	4	3	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:28575186G>A	uc003xgz.1	+	3	2203	c.1610G>A	c.(1609-1611)CGC>CAC	p.R537H		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	537	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		ATTAGGACTCGCATCCAGATC	0.577													24	60					0	0	1	0	0		A	28575186	A	A	28575186	3	1	73	1	0	0	0	0	1	0	0	0	5335	1087	38	1	1612	1	EXTL3	8	28575186	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3417087	28575186	117788836	540	47777											
RBPMS	11030	broad.mit.edu	37	chr8	30402081	30402081	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtaccctctgtacccagcGgagttagcgcctgctctacc	6	9	9	17	3	2	0	0	0	2	0	2	1	2	1	5	1	6	4	5	1	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:30402081G>A	uc003xic.1	+	6	1133	c.468G>A	c.(466-468)GCG>GCA	p.A156A	RBPMS_uc003xid.1_Silent_p.A156A|RBPMS_uc003xie.1_Silent_p.A156A|RBPMS_uc003xif.1_RNA|RBPMS_uc011lba.1_Silent_p.A156A|RBPMS_uc003xib.2_Silent_p.A156A|RBPMS_uc010lvh.1_Silent_p.A52A	NM_006867	NP_006858	Q93062	RBPMS_HUMAN	RNA-binding protein with multiple splicing	156					positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|nucleus	nucleotide binding|poly(A) RNA binding|protein binding|transcription coactivator activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.144)|Kidney(114;0.172)		TGTACCCAGCGGAGTTAGCGC	0.547													37	130					0	0	1	0	0		A	30402081	A	A	30402081	2	1	73	1	0	0	0	0	0	0	0	1	13188	1103	39	1		1	RBPMS	8	30402081	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1826895	30402081	115961941	541	47778											
NRG1	3084	broad.mit.edu	37	chr8	32463104	32463104	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagaacttcgcattaacaaAgcatcactggctgattctgg	12	11	8	10	1	3	2	2	1	1	1	4	2	3	2	0	2	3	3	0	2	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:32463104A>G	uc003xiv.2	+	3	820	c.303A>G	c.(301-303)AAA>AAG	p.K101K	NRG1_uc003xip.2_Silent_p.K316K|NRG1_uc003xir.2_Silent_p.K101K|NRG1_uc010lvl.2_Silent_p.K101K|NRG1_uc010lvm.2_Silent_p.K101K|NRG1_uc010lvn.2_Silent_p.K101K|NRG1_uc003xis.2_Silent_p.K101K|NRG1_uc011lbf.1_Silent_p.K101K|NRG1_uc010lvo.2_Silent_p.K101K|NRG1_uc003xiu.2_Silent_p.K101K|NRG1_uc003xiw.2_Silent_p.K101K|NRG1_uc003xit.2_Silent_p.K101K|NRG1_uc010lvr.2_5'UTR|NRG1_uc010lvs.2_5'UTR|NRG1_uc010lvp.2_Silent_p.K67K|NRG1_uc010lvq.2_Silent_p.K67K|NRG1_uc003xix.2_5'UTR	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	101	Extracellular (Potential).|Ig-like C2-type.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		GCATTAACAAAGCATCACTGG	0.383													34	147					0	0	1	0	0		G	32463104	G	G	32463104	2	3	73	1	0	0	0	0	0	0	0	1	10666	69	3	3		3	NRG1	8	32463104	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2061023	32463104	113900918	542	47779											
NRG1	3084	broad.mit.edu	37	chr8	32613931	32613931	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgtccaggaaacagcggAaaaagctgcatgaccgtctt	13	9	10	9	2	1	1	0	1	1	0	2	3	2	3	2	2	4	2	2	2	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:32613931A>G	uc003xiv.2	+	9	1331	c.814A>G	c.(814-816)AAA>GAA	p.K272E	NRG1_uc011lbf.1_Missense_Mutation_p.K269E|NRG1_uc010lvo.2_Missense_Mutation_p.K269E|NRG1_uc003xiu.2_Missense_Mutation_p.K277E|NRG1_uc003xiw.2_Missense_Mutation_p.K269E|NRG1_uc003xit.2_Missense_Mutation_p.K272E|NRG1_uc010lvr.2_Missense_Mutation_p.K14E|NRG1_uc010lvs.2_Missense_Mutation_p.K14E|NRG1_uc010lvp.2_Missense_Mutation_p.K226E|NRG1_uc010lvq.2_Missense_Mutation_p.K209E|NRG1_uc011lbg.1_Missense_Mutation_p.K118E|NRG1_uc011lbh.1_Missense_Mutation_p.K115E|NRG1_uc003xja.2_Missense_Mutation_p.K83E	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	272	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		GAAACAGCGGAAAAAGCTGCA	0.428													39	111					0	0	1	0	0		G	32613931	G	G	32613931	3	3	73	1	0	0	0	0	1	0	0	0	10666	247	9	3	2444	3	NRG1	8	32613931	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	150827	32613931	113750091	543	47780											
KCNU1	157855	broad.mit.edu	37	chr8	36694371	36694371	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagacaacatcatctgctttGctgaattaaaacttggattt	13	14	7	7	0	2	2	1	1	1	1	2	4	2	3	0	1	4	2	0	1	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:36694371G>C	uc010lvw.2	+	14	1513	c.1426G>C	c.(1426-1428)GCT>CCT	p.A476P	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	476	RCK N-terminal.|Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		CATCTGCTTTGCTGAATTAAA	0.428													40	115					0	0	1	0	0		C	36694371	C	C	36694371	3	2	73	1	0	0	0	0	1	0	0	0	8109	1319	46	5	1480	5	KCNU1	8	36694371	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	4080440	36694371	109669651	544	47781											
ERLIN2	11160	broad.mit.edu	37	chr8	37609162	37609162	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggcagaaaaagtggcccAggtggctgagatcacctacg	13	5	14	9	1	1	3	1	1	0	3	1	4	1	3	2	4	1	2	2	4	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:37609162A>G	uc003xke.3	+	10	783	c.668A>G	c.(667-669)CAG>CGG	p.Q223R		NM_007175	NP_009106	O94905	ERLN2_HUMAN	ER lipid raft associated 2 isoform 1	223	Interaction with ERLIN1.|Lumenal (Potential).				ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	protein binding				0		Lung NSC(58;0.174)	BRCA - Breast invasive adenocarcinoma(5;6.14e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			AAAGTGGCCCAGGTGGCTGAG	0.468													10	45					0	0	1	0	0		G	37609162	G	G	37609162	3	3	73	1	0	0	0	0	1	0	0	0	5241	188	7	3	741	3	ERLIN2	8	37609162	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	914791	37609162	108754860	545	47782											
GPR124	25960	broad.mit.edu	37	chr8	37672412	37672412	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtcctctctgtctcttcAggctcttgagcaataacaag	8	14	8	11	0	4	1	1	1	3	0	7	1	5	1	1	1	2	2	1	1	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:37672412A>G	uc003xkj.2	+	2	630	c.267_splice	c.e2-2	p.L89_splice	GPR124_uc003xki.2_Splice_Site_p.L89_splice|GPR124_uc010lvy.2_Splice_Site_p.L89_splice	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor						central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			CTGTCTCTTCAGGCTCTTGAG	0.562													19	70					0	0	1	0	0		G	37672412	G	G	37672412	5	3	73	1	0	0	0	0	0	0	1	0	6653	202	7	3	250	3	GPR124	8	37672412	Splice_Site	SNP	A	TCGA-BR-8372-01A-11D-2340-08	63250	37672412	108691610	546	47783											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37730469	37730469	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggcctggcccctgtctacGagaggccagctttcaattgg	6	11	12	12	1	2	1	1	0	1	1	2	2	2	1	4	4	2	1	4	4	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:37730469G>A	uc003xkm.1	-	4	1895	c.1851C>T	c.(1849-1851)CTC>CTT	p.L617L	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_5'UTR|RAB11FIP1_uc003xko.1_5'UTR|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	617					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			CCCTGTCTACGAGAGGCCAGC	0.517													38	106					0	0	1	0	0		A	37730469	A	A	37730469	2	1	73	1	0	0	0	0	0	0	0	1	12918	1045	37	1		1	RAB11FIP1	8	37730469	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	58057	37730469	108633553	547	47784											
GOT1L1	137362	broad.mit.edu	37	chr8	37793281	37793281	+	Frame_Shift_Del	DEL	G	-	-																															atgacacgtgcacccgtgttGggggggtttagccacagggc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:37793281delG	uc011lbj.1	-	7	970	c.870delC	c.(868-870)CCCfs	p.P290fs		NM_152413	NP_689626	Q8NHS2	AATC2_HUMAN	glutamic-oxaloacetic transaminase 1-like 1	290					biosynthetic process|cellular amino acid metabolic process	cytoplasm	pyridoxal phosphate binding|transaminase activity			ovary(1)	1	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;1.37e-11)			CACCCGTGTTGGGGGGGTTTA	0.612													24	53	---	---	---	---						.	-	37793281	-	-	37793281	7	5	73	1	0	1	0	1	0	0	0	0	6595	1335	47	0	407	0	GOT1L1	8	37793281	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	62812	37793281	108570741	548	47785											
FGFR1	2260	broad.mit.edu	37	chr8	38282121	38282121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtgcggctgcgggtcaCtgtacaccttacacatgaac	9	9	12	11	2	1	1	1	1	0	0	1	2	1	2	1	3	5	2	1	3	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:38282121C>T	uc003xlp.2	-	7	1784	c.842G>A	c.(841-843)AGT>AAT	p.S281N	FGFR1_uc011lbo.1_Missense_Mutation_p.S279N|FGFR1_uc011lbp.1_Missense_Mutation_p.S192N|FGFR1_uc011lbq.1_Missense_Mutation_p.S190N|FGFR1_uc010lwk.2_Missense_Mutation_p.S273N|FGFR1_uc011lbr.1_RNA|FGFR1_uc011lbs.1_Missense_Mutation_p.S121N|FGFR1_uc011lbt.1_Missense_Mutation_p.S190N|FGFR1_uc011lbu.1_Missense_Mutation_p.S312N|FGFR1_uc011lbv.1_Missense_Mutation_p.S279N|FGFR1_uc011lbw.1_Missense_Mutation_p.S192N|FGFR1_uc011lbx.1_Missense_Mutation_p.S192N|FGFR1_uc003xlv.2_Missense_Mutation_p.S192N|FGFR1_uc003xlu.2_Missense_Mutation_p.S190N	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	281	Ig-like C2-type 3.|Extracellular (Potential).				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	CTGCGGGTCACTGTACACCTT	0.562		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						37	117					0	0	1	0	0		T	38282121	T	T	38282121	3	4	73	1	0	0	0	0	1	0	0	0	5877	565	20	4	1914	4	FGFR1	8	38282121	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	488840	38282121	108081901	549	47786											
TACC1	6867	broad.mit.edu	37	chr8	38677178	38677178	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaatttcagagaagaacCtgaacatgattttagcaaaa	19	9	7	6	0	1	5	1	2	0	3	1	6	1	5	1	0	3	1	1	0	8	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:38677178C>A	uc010lwp.2	+	3	795	c.416C>A	c.(415-417)CCT>CAT	p.P139H	TACC1_uc011lby.1_Translation_Start_Site|TACC1_uc003xma.2_Intron|TACC1_uc003xlz.2_Translation_Start_Site|TACC1_uc003xmc.3_Translation_Start_Site|TACC1_uc011lbz.1_Missense_Mutation_p.P155H|TACC1_uc003xmb.3_Missense_Mutation_p.P94H|TACC1_uc003xme.1_Intron|TACC1_uc003xmd.1_Intron|TACC1_uc010lwo.1_Intron|TACC1_uc003xmf.3_Intron|TACC1_uc011lca.1_Missense_Mutation_p.P139H|TACC1_uc011lcb.1_Translation_Start_Site|TACC1_uc011lcc.1_Translation_Start_Site|TACC1_uc011lcd.1_RNA|TACC1_uc003xmh.3_Translation_Start_Site|TACC1_uc010lwq.2_Translation_Start_Site	NM_006283	NP_006274	O75410	TACC1_HUMAN	transforming, acidic coiled-coil containing	139					cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)			AGAGAAGAACCTGAACATGAT	0.408													35	93					1.26612e-14	1.38087e-14	1	1	0		A	38677178	A	A	38677178	3	1	73	1	0	0	0	0	1	0	0	0	15526	681	24	5	426	5	TACC1	8	38677178	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	395057	38677178	107686844	550	47787											
ADAM9	8754	broad.mit.edu	37	chr8	38913110	38913110	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactagttccttccaggaggTactttatgccgaggaaaaac	12	10	9	10	1	0	0	0	0	0	0	2	3	2	2	3	3	3	2	3	3	5	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:38913110T>C	uc003xmr.2	+	14	1488	c.1410T>C	c.(1408-1410)GGT>GGC	p.G470G	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_RNA|ADAM9_uc010lwr.2_RNA|ADAM9_uc003xms.2_RNA	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	470	Extracellular (Potential).|Disintegrin.				activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			TTCCAGGAGGTACTTTATGCC	0.363													36	127					0	0	1	0	0		C	38913110	C	C	38913110	2	2	73	1	0	0	0	0	0	0	0	1	253	1625	57	3		3	ADAM9	8	38913110	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	235932	38913110	107450912	551	47788											
ST18	9705	broad.mit.edu	37	chr8	53025828	53025828	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcattccggggaatagtccCgttccagattgctgtacata	9	12	10	10	2	0	1	0	0	0	1	3	2	3	2	3	2	3	4	3	2	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:53025828C>A	uc003xqz.2	-	21	3230	c.3074G>T	c.(3073-3075)CGG>CTG	p.R1025L	ST18_uc011ldq.1_Missense_Mutation_p.R672L|ST18_uc011ldr.1_Missense_Mutation_p.R990L|ST18_uc011lds.1_Missense_Mutation_p.R930L|ST18_uc003xra.2_Missense_Mutation_p.R1025L	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	1025						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				GGAATAGTCCCGTTCCAGATT	0.443													18	86					1.99824e-07	2.09613e-07	1	1	0		A	53025828	A	A	53025828	3	1	73	1	0	0	0	0	1	0	0	0	15237	652	23	5	73	5	ST18	8	53025828	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	14112718	53025828	93338194	552	47789											
TGS1	96764	broad.mit.edu	37	chr8	56725669	56725669	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttccaagaaatgctgatAttgaccaggtaagccattac	13	12	7	9	0	1	3	0	2	1	1	2	3	2	3	3	1	3	2	3	1	5	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:56725669A>G	uc003xsj.3	+	12	2818	c.2431A>G	c.(2431-2433)ATT>GTT	p.I811V	TGS1_uc010lyh.2_Missense_Mutation_p.I637M	NM_024831	NP_079107	Q96RS0	TGS1_HUMAN	trimethylguanosine synthase homolog	811	Sufficient for catalytic activity.				cellular lipid metabolic process|ncRNA metabolic process|regulation of transcription, DNA-dependent|RNA capping|spliceosomal snRNP assembly|transcription, DNA-dependent	Cajal body|cytosol	RNA trimethylguanosine synthase activity			ovary(1)|lung(1)|breast(1)	3		all_lung(136;0.119)|all_epithelial(80;0.125)|Lung NSC(129;0.147)	Epithelial(17;0.00027)|all cancers(17;0.00251)			AAATGCTGATATTGACCAGGT	0.333													14	34					0	0	1	0	0		G	56725669	G	G	56725669	3	3	73	1	0	0	0	0	1	0	0	0	15862	449	16	3	2477	3	TGS1	8	56725669	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3699841	56725669	89638353	553	47790											
MOS	4342	broad.mit.edu	37	chr8	57026167	57026167	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaccctgcgggcgtgcgCgtgctggcagccaccacgcg	4	6	16	15	6	0	0	0	0	0	0	0	1	0	1	3	3	4	2	3	3	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:57026167C>T	uc011leb.1	-	1	375	c.375G>A	c.(373-375)ACG>ACA	p.T125T		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	125	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			CGGGCGTGCGCGTGCTGGCAG	0.612													40	116					0	0	1	0	0		T	57026167	T	T	57026167	2	4	73	1	0	0	0	0	0	0	0	1	9730	755	27	1		1	MOS	8	57026167	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	300498	57026167	89337855	554	47791											
MOS	4342	broad.mit.edu	37	chr8	57026186	57026186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgctggcagccaccacgCgcacgatgttatcgtggcgc	6	7	14	14	6	0	0	0	0	0	0	1	1	0	0	2	2	2	4	2	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:57026186C>T	uc011leb.1	-	1	356	c.356G>A	c.(355-357)CGC>CAC	p.R119H		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	119	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			AGCCACCACGCGCACGATGTT	0.557													48	130					0	0	1	0	0		T	57026186	T	T	57026186	3	4	73	1	0	0	0	0	1	0	0	0	9730	768	27	1	687	1	MOS	8	57026186	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	19	57026186	89337836	555	47792											
CYP7A1	1581	broad.mit.edu	37	chr8	59409279	59409279	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaggtggacaaagtgtcAttgagaaacatgcgcaggct	14	8	12	7	1	2	1	2	1	0	1	2	3	2	2	0	3	2	2	0	3	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:59409279A>G	uc003xtm.3	-	3	855	c.792T>C	c.(790-792)AAT>AAC	p.N264N		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	264					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				ACAAAGTGTCATTGAGAAACA	0.522									Neonatal_Giant_Cell_Hepatitis				64	172					0	0	1	0	0		G	59409279	G	G	59409279	2	3	73	1	0	0	0	0	0	0	0	1	4199	214	8	3		3	CYP7A1	8	59409279	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2383093	59409279	86954743	556	47793											
MTFR1	9650	broad.mit.edu	37	chr8	66621267	66621267	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggctttaattgaaaatgtAtcagactcctaatagacaat	17	12	6	6	0	1	3	1	1	0	2	2	3	2	3	1	1	0	2	1	1	8	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:66621267A>G	uc003xvm.2	+	8	1202	c.990A>G	c.(988-990)GTA>GTG	p.V330V	MTFR1_uc003xvn.2_Silent_p.V297V|MTFR1_uc003xvo.1_Intron	NM_014637	NP_055452	Q15390	MTFR1_HUMAN	mitochondrial fission regulator 1 isoform 1	330						mitochondrion|plasma membrane				pancreas(1)	1			Epithelial(68;0.0526)|BRCA - Breast invasive adenocarcinoma(89;0.156)|all cancers(69;0.171)|OV - Ovarian serous cystadenocarcinoma(28;0.194)			TTGAAAATGTATCAGACTCCT	0.368													49	116					0	0	1	0	0		G	66621267	G	G	66621267	2	3	73	1	0	0	0	0	0	0	0	1	9943	436	16	3		3	MTFR1	8	66621267	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	7211988	66621267	79742755	557	47794											
CA2	760	broad.mit.edu	37	chr8	86377546	86377546	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccattgccaagggagagcGccagtcccctgttgacatcg	8	7	11	15	2	0	2	0	1	0	1	2	3	1	2	6	1	2	1	6	1	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:86377546G>A	uc003ydk.2	+	2	260	c.80G>A	c.(79-81)CGC>CAC	p.R27H		NM_000067	NP_000058	P00918	CAH2_HUMAN	carbonic anhydrase II	27					one-carbon metabolic process	apical part of cell	carbonate dehydratase activity|zinc ion binding			central_nervous_system(1)	1					Acetazolamide(DB00819)|Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Brinzolamide(DB01194)|Chlorothiazide(DB00880)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Dorzolamide(DB00869)|Ethinamate(DB01031)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Topiramate(DB00273)|Trichlormethiazide(DB01021)	AAGGGAGAGCGCCAGTCCCCT	0.542													20	97					0	0	1	0	0		A	86377546	A	A	86377546	3	1	73	1	0	0	0	0	1	0	0	0	2519	1087	38	1	86	1	CA2	8	86377546	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	19756279	86377546	59986476	558	47795											
CPNE3	8895	broad.mit.edu	37	chr8	87543456	87543456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaggaaaagggagcattaCggtaaaaataagatatttgt	17	10	11	3	1	0	1	0	0	0	1	0	3	0	3	0	3	3	3	0	3	8	5	rs76328401	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:87543456C>T	uc003ydv.2	+	5	548	c.386C>T	c.(385-387)ACG>ATG	p.T129M		NM_003909	NP_003900	O75131	CPNE3_HUMAN	copine III	129	C2 2.				lipid metabolic process|vesicle-mediated transport	cytosol	calcium-dependent phospholipid binding|protein serine/threonine kinase activity|transporter activity			ovary(1)|skin(1)	2						GGGAGCATTACGGTAAAAATA	0.388													10	31					0	0	1	0	0		T	87543456	T	T	87543456	3	4	73	1	0	0	0	0	1	0	0	0	3816	550	19	1	396	1	CPNE3	8	87543456	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1165910	87543456	58820566	559	47796											
FAM92A1	137392	broad.mit.edu	37	chr8	94713595	94713595	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtgaatgaaattaacgCgtatgctgctacagagaccc	12	9	10	10	2	0	3	0	2	0	1	0	4	0	3	2	1	4	3	2	1	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:94713595C>T	uc010maq.2	+	2	273	c.170C>T	c.(169-171)GCG>GTG	p.A57V	FAM92A1_uc003yfu.1_RNA|FAM92A1_uc003yfv.3_RNA	NM_145269	NP_660312	A1XBS5	F92A1_HUMAN	hypothetical protein LOC137392	57											0	Breast(36;2.4e-06)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			GAAATTAACGCGTATGCTGCT	0.478													7	28					0	0	1	0	0		T	94713595	T	T	94713595	3	4	73	1	0	0	0	0	1	0	0	0	5666	768	27	1	176	1	FAM92A1	8	94713595	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	7170139	94713595	51650427	560	47797											
RBM12B	389677	broad.mit.edu	37	chr8	94747361	94747361	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaagtaaatgtcatcctcAgcaagaagaaagtctgcaaa	18	7	8	8	0	3	2	2	0	1	2	4	2	4	2	1	0	3	4	1	0	7	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:94747361A>G	uc003yfz.2	-	3	1471	c.1278T>C	c.(1276-1278)GCT>GCC	p.A426A		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	426	RRM 3.						nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			TGTCATCCTCAGCAAGAAGAA	0.373													87	213					0	0	1	0	0		G	94747361	G	G	94747361	2	3	73	1	0	0	0	0	0	0	0	1	13139	175	7	3		3	RBM12B	8	94747361	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	33766	94747361	51616661	561	47798											
RAD54B	25788	broad.mit.edu	37	chr8	95411754	95411754	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attagaagatcaaattttatAttcttaatttgatccaggga	15	16	6	4	0	2	3	1	1	1	2	3	4	3	4	1	1	0	0	1	1	6	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:95411754A>G	uc003ygk.2	-	8	1364	c.1266T>C	c.(1264-1266)AAT>AAC	p.N422N	RAD54B_uc010may.1_Silent_p.N229N|RAD54B_uc003ygl.1_RNA	NM_012415	NP_036547	O95073	FSBP_HUMAN	RAD54 homolog B	Error:Variant_position_missing_in_O95073_after_alignment					double-strand break repair via homologous recombination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA translocase activity|protein binding			kidney(2)|lung(1)|skin(1)	4	Breast(36;4.5e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00217)			CAAATTTTATATTCTTAATTT	0.348								Direct_reversal_of_damage|Homologous_recombination					21	63					0	0	1	0	0		G	95411754	G	G	95411754	2	3	73	1	0	0	0	0	0	0	0	1	13017	446	16	3		3	RAD54B	8	95411754	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	664393	95411754	50952268	562	47799											
INTS8	55656	broad.mit.edu	37	chr8	95877854	95877854	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtgtccagtcagcacaaaCgaggaaatgatggcagagtt	13	8	13	7	1	1	2	1	1	0	1	2	4	2	3	1	2	2	3	1	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:95877854C>T	uc003yhb.2	+	17	2323	c.2197C>T	c.(2197-2199)CGA>TGA	p.R733*	INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Nonsense_Mutation_p.R560*	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	733					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					TCAGCACAAACGAGGAAATGA	0.403													75	193					0	0	1	0	0		T	95877854	T	T	95877854	4	4	73	1	0	0	0	0	0	1	0	0	7800	528	19	1	2263	1	INTS8	8	95877854	Nonsense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	466100	95877854	50486168	563	47800											
GDF6	392255	broad.mit.edu	37	chr8	97156989	97156989	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctccaggtgcgagcgcagCgggaagtcgcatacaccctc	8	5	14	14	4	0	0	0	0	0	0	3	2	1	1	2	3	4	3	2	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:97156989C>T	uc003yhp.2	-	2	1270	c.1170G>A	c.(1168-1170)CCG>CCA	p.P390P		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	390					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GCGAGCGCAGCGGGAAGTCGC	0.647													11	14					0	0	1	0	0		T	97156989	T	T	97156989	2	4	73	1	0	0	0	0	0	0	0	1	6332	755	27	1		1	GDF6	8	97156989	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1279135	97156989	49207033	564	47801											
POP1	10940	broad.mit.edu	37	chr8	99146847	99146847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgggtgacccttctgagaGcaggcagctgtggatctggc	6	8	15	12	1	2	2	0	2	2	1	2	4	2	3	2	4	2	3	2	4	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:99146847G>A	uc003yij.3	+	7	1071	c.971G>A	c.(970-972)AGC>AAC	p.S324N	POP1_uc011lgv.1_Missense_Mutation_p.S324N|POP1_uc003yik.2_Missense_Mutation_p.S324N	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	324					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			CCTTCTGAGAGCAGGCAGCTG	0.473													13	118					0	0	1	0	0		A	99146847	A	A	99146847	3	1	73	1	0	0	0	0	1	0	0	0	12270	971	34	2	993	2	POP1	8	99146847	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1989858	99146847	47217175	565	47802											
POP1	10940	broad.mit.edu	37	chr8	99158813	99158813	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagataatgagaaagttagaCagctgcttctggagggtgtg	12	11	14	4	0	1	3	0	1	1	3	1	5	1	4	0	2	2	3	0	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:99158813C>T	uc003yij.3	+	12	1712	c.1612C>T	c.(1612-1614)CAG>TAG	p.Q538*	POP1_uc011lgv.1_Nonsense_Mutation_p.Q538*|POP1_uc003yik.2_Nonsense_Mutation_p.Q538*	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	538					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			GAAAGTTAGACAGCTGCTTCT	0.413													46	121					0	0	1	0	0		T	99158813	T	T	99158813	4	4	73	1	0	0	0	0	0	1	0	0	12270	479	17	4	1654	4	POP1	8	99158813	Nonsense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	11966	99158813	47205209	566	47803											
STK3	6788	broad.mit.edu	37	chr8	99761554	99761554	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagagccagcgccacagtActccataacaatccagaggt	14	5	9	13	1	0	2	0	0	0	2	2	3	2	2	4	1	4	1	4	1	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:99761554A>G	uc003yip.2	-	4	442	c.301T>C	c.(301-303)TAC>CAC	p.Y101H	STK3_uc003yio.2_Missense_Mutation_p.Y129H|STK3_uc010mbm.1_Missense_Mutation_p.Y101H	NM_006281	NP_006272	Q13188	STK3_HUMAN	serine/threonine kinase 3	101	Protein kinase.				apoptosis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of apoptosis	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein dimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	Breast(36;2.4e-06)	Breast(495;0.106)	OV - Ovarian serous cystadenocarcinoma(57;0.0382)	KIRC - Kidney renal clear cell carcinoma(542;9.44e-06)		GCGCCACAGTACTCCATAACA	0.299													33	105					0	0	1	0	0		G	99761554	G	G	99761554	3	3	73	1	0	0	0	0	1	0	0	0	15320	391	14	3	1206	3	STK3	8	99761554	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	602741	99761554	46602468	567	47804											
RGS22	26166	broad.mit.edu	37	chr8	101084439	101084439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttttttgatccacttaataCcttcttcacgactgagacac	10	15	4	12	1	2	2	1	2	1	1	3	4	3	2	2	0	1	0	2	0	2	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:101084439C>T	uc003yjb.1	-	5	554	c.359G>A	c.(358-360)GGT>GAT	p.G120D	RGS22_uc003yja.1_Intron|RGS22_uc003yjc.1_Missense_Mutation_p.G120D|RGS22_uc011lgz.1_5'Flank|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	120					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			CCACTTAATACCTTCTTCACG	0.323													20	75					0	0	1	0	0		T	101084439	T	T	101084439	3	4	73	1	0	0	0	0	1	0	0	0	13330	507	18	4	3527	4	RGS22	8	101084439	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1322885	101084439	45279583	568	47805											
TM7SF4	81501	broad.mit.edu	37	chr8	105361304	105361304	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagaccctggcagtctctcTtttcagtcccagccatgtcc	6	11	7	17	0	3	1	1	0	2	1	6	1	5	1	5	1	1	1	5	1	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:105361304T>C	uc003ylx.1	+	2	573	c.524T>C	c.(523-525)CTT>CCT	p.L175P		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	175					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GCAGTCTCTCTTTTCAGTCCC	0.473													98	112					0	0	1	0	0		C	105361304	C	C	105361304	3	2	73	1	0	0	0	0	1	0	0	0	16001	1609	56	3	526	3	TM7SF4	8	105361304	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4276865	105361304	41002718	569	47806											
PKHD1L1	93035	broad.mit.edu	37	chr8	110499026	110499026	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtactggttggctcattcActgaaaatatgatgacattt	11	14	9	7	1	2	3	2	3	0	0	2	3	2	3	0	2	1	3	0	2	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:110499026A>G	uc003yne.2	+	59	9960	c.9856A>G	c.(9856-9858)ACT>GCT	p.T3286A		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3286	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TGGCTCATTCACTGAAAATAT	0.368										HNSCC(38;0.096)			60	206					0	0	1	0	0		G	110499026	G	G	110499026	3	3	73	1	0	0	0	0	1	0	0	0	11991	159	6	3	10090	3	PKHD1L1	8	110499026	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	5137722	110499026	35864996	570	47807											
TRPS1	7227	broad.mit.edu	37	chr8	116426822	116426822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggaagtccaaaaagtgggTactggtacttttcaataggg	13	10	13	5	0	1	0	1	0	0	0	2	1	2	1	1	4	2	2	1	4	7	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:116426822T>C	uc003ynz.2	-	6	3734	c.3275A>G	c.(3274-3276)TAC>TGC	p.Y1092C	TRPS1_uc011lhy.1_Missense_Mutation_p.Y1096C|TRPS1_uc003yny.2_Missense_Mutation_p.Y1105C|TRPS1_uc010mcy.2_Missense_Mutation_p.Y1092C	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1092	Mediates interaction with RNF4 (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			AAAAAGTGGGTACTGGTACTT	0.453									Langer-Giedion_syndrome				24	107					0	0	1	0	0		C	116426822	C	C	116426822	3	2	73	1	0	0	0	0	1	0	0	0	16619	1638	57	3	574	3	TRPS1	8	116426822	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	5927796	116426822	29937200	571	47808											
TAF2	6873	broad.mit.edu	37	chr8	120800681	120800681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgcactgtcactttaaGtggtcccttttaaaaaaaaa	13	13	5	10	0	1	0	1	0	0	0	3	0	3	0	2	1	1	1	2	1	6	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:120800681G>A	uc003you.2	-	14	1960	c.1690C>T	c.(1690-1692)CTT>TTT	p.L564F		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	564					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GTCACTTTAAGTGGTCCCTTT	0.323													34	92					0	0	1	0	0		A	120800681	A	A	120800681	3	1	73	1	0	0	0	0	1	0	0	0	15549	1029	36	4	1961	4	TAF2	8	120800681	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	4373859	120800681	25563341	572	47809											
WDYHV1	55093	broad.mit.edu	37	chr8	124449570	124449570	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatatccctgcattgagacTggaggtgagccaagatgcct	10	9	11	11	0	0	3	0	2	0	2	1	5	1	4	4	2	3	1	4	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:124449570T>C	uc003yqn.1	+	5	629	c.504T>C	c.(502-504)ACT>ACC	p.T168T	WDYHV1_uc011lij.1_Silent_p.T108T|WDYHV1_uc003yqo.1_RNA	NM_018024	NP_060494	Q96HA8	NTAQ1_HUMAN	WDYHV motif containing 1	168					protein modification process	cytosol|nucleus	protein binding|protein N-terminal glutamine amidohydrolase activity			ovary(1)|skin(1)	2						GCATTGAGACTGGAGGTGAGC	0.463													12	40					0	0	1	0	0		C	124449570	C	C	124449570	2	2	73	1	0	0	0	0	0	0	0	1	17369	1567	55	3		3	WDYHV1	8	124449570	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	3648889	124449570	21914452	573	47810											
FER1L6	654463	broad.mit.edu	37	chr8	124989707	124989707	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcctgtgtggcatgaacaGgtgatcttcaaggaaatgtt	11	12	12	6	0	2	2	1	2	1	0	3	4	3	3	1	3	1	2	1	3	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:124989707G>T	uc003yqw.2	+	10	1127	c.921G>T	c.(919-921)CAG>CAT	p.Q307H		NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	307	C2 2.|Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			GGCATGAACAGGTGATCTTCA	0.512													31	143					8.88839e-20	9.87901e-20	1	1	0		T	124989707	T	T	124989707	3	4	73	1	0	0	0	0	1	0	0	0	5829	991	35	5	955	5	FER1L6	8	124989707	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	540137	124989707	21374315	574	47811											
MTSS1	9788	broad.mit.edu	37	chr8	125565673	125565673	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatcacgggtgtcttgatggGgatgggaccagctccaatgg	8	9	16	8	1	2	1	1	1	1	0	3	4	3	3	2	5	1	1	2	5	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:125565673G>T	uc003yrk.2	-	14	2362	c.1828C>A	c.(1828-1830)CCC>ACC	p.P610T	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_Missense_Mutation_p.P259T|MTSS1_uc011lin.1_Missense_Mutation_p.P384T|MTSS1_uc011lio.1_Missense_Mutation_p.P500T|MTSS1_uc003yri.2_Missense_Mutation_p.P328T|MTSS1_uc003yrj.2_Missense_Mutation_p.P585T|MTSS1_uc003yrl.2_Missense_Mutation_p.P614T	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	610	Pro-rich.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			GTCTTGATGGGGATGGGACCA	0.637													15	55					3.27435e-08	3.44968e-08	1	1	0		T	125565673	T	T	125565673	3	4	73	1	0	0	0	0	1	0	0	0	9980	1232	43	5	443	5	MTSS1	8	125565673	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	575966	125565673	20798349	575	47812											
ADCY8	114	broad.mit.edu	37	chr8	132051861	132051861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgctgtactgcaggtacGtgtgggaggtggtgtccttc	4	11	16	10	3	0	0	0	0	0	0	2	1	1	1	2	4	3	4	2	4	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:132051861G>A	uc003ytd.3	-	1	975	c.719C>T	c.(718-720)ACG>ATG	p.T240M	ADCY8_uc010mds.2_Missense_Mutation_p.T240M	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	240					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CTGCAGGTACGTGTGGGAGGT	0.647										HNSCC(32;0.087)			14	36					0	0	1	0	0		A	132051861	A	A	132051861	3	1	73	1	0	0	0	0	1	0	0	0	300	1145	40	1	3108	1	ADCY8	8	132051861	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6486188	132051861	14312161	576	47813											
KCNQ3	3786	broad.mit.edu	37	chr8	133152330	133152330	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggggcattacctgacggCtcggatggcggccttcaggg	5	8	18	10	3	1	1	1	1	0	0	2	2	1	2	2	7	1	2	2	7	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:133152330C>A	uc003ytj.2	-	11	1786	c.1561G>T	c.(1561-1563)GCC>TCC	p.A521S	KCNQ3_uc010mdt.2_Missense_Mutation_p.A521S	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	521					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			TACCTGACGGCTCGGATGGCG	0.597													23	66					2.89027e-11	3.09656e-11	1	1	0		A	133152330	A	A	133152330	3	1	73	1	0	0	0	0	1	0	0	0	8100	797	28	5	1077	5	KCNQ3	8	133152330	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1100469	133152330	13211692	577	47814											
SLC45A4	57210	broad.mit.edu	37	chr8	142225974	142225974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtagacgttgggaaacatggCcatcacggctgtgccgacag	10	7	14	10	3	1	1	1	0	0	1	1	3	1	2	2	3	2	3	2	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:142225974C>T	uc003ywd.1	-	6	1980	c.1672G>A	c.(1672-1674)GCC>ACC	p.A558T	SLC45A4_uc003ywc.1_Missense_Mutation_p.A558T|SLC45A4_uc010meq.1_Missense_Mutation_p.A556T	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	609	Helical; (Potential).				transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GGAAACATGGCCATCACGGCT	0.587													9	48					0	0	1	0	0		T	142225974	T	T	142225974	3	4	73	1	0	0	0	0	1	0	0	0	14668	739	26	2	736	2	SLC45A4	8	142225974	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	9073644	142225974	4138048	578	47815											
ARC	23237	broad.mit.edu	37	chr8	143695260	143695260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccaggcggtcggcccagcGctccaggcggtagaacacct	7	5	13	16	4	0	1	0	0	0	1	3	1	2	1	4	5	2	2	4	5	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:143695260G>A	uc003ywn.1	-	1	574	c.373C>T	c.(373-375)CGC>TGC	p.R125C		NM_015193	NP_056008	Q7LC44	ARC_HUMAN	activity-regulated cytoskeleton-associated	125					endocytosis	acrosomal vesicle|cell junction|dendritic spine|endosome|postsynaptic density|postsynaptic membrane				breast(1)	1	all_cancers(97;3.55e-12)|all_epithelial(106;1.03e-08)|Lung NSC(106;0.000353)|all_lung(105;0.00092)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.0279)				TCGGCCCAGCGCTCCAGGCGG	0.701													7	6					0	0	1	0	0		A	143695260	A	A	143695260	3	1	73	1	0	0	0	0	1	0	0	0	841	1087	38	1	821	1	ARC	8	143695260	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1469286	143695260	2668762	579	47816											
EPPK1	83481	broad.mit.edu	37	chr8	144943163	144943163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcggagtcgcacacgcagCgctccctgagctgctggtag	6	8	13	14	4	1	1	0	1	1	0	4	2	2	2	1	2	3	6	1	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:144943163C>T	uc003zaa.1	-	1	4272	c.4259G>A	c.(4258-4260)CGC>CAC	p.R1420H		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1420	Plectin 25.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCACACGCAGCGCTCCCTGAG	0.607													6	63					0	0	1	0	0		T	144943163	T	T	144943163	3	4	73	1	0	0	0	0	1	0	0	0	5198	768	27	1	3007	1	EPPK1	8	144943163	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1247903	144943163	1420859	580	47817											
PLEC	5339	broad.mit.edu	37	chr8	145004449	145004449	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaccagctggcactcgtcAcccttgtgcacagtcacctg	7	8	8	18	1	2	0	2	0	0	0	3	0	2	0	4	1	2	3	4	1	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:145004449A>G	uc003zaf.1	-	21	3056	c.2886T>C	c.(2884-2886)GGT>GGC	p.G962G	PLEC_uc003zab.1_Silent_p.G825G|PLEC_uc003zac.1_Silent_p.G829G|PLEC_uc003zad.2_Silent_p.G825G|PLEC_uc003zae.1_Silent_p.G793G|PLEC_uc003zag.1_Silent_p.G803G|PLEC_uc003zah.2_Silent_p.G811G|PLEC_uc003zaj.2_Silent_p.G852G	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	962	Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GGCACTCGTCACCCTTGTGCA	0.711													4	7					0	0	1	0	0		G	145004449	G	G	145004449	2	3	73	1	0	0	0	0	0	0	0	1	12071	146	6	3		3	PLEC	8	145004449	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	61286	145004449	1359573	581	47818											
CPSF1	29894	broad.mit.edu	37	chr8	145624857	145624857	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacctgaccagccggccgTcgcatccactcgcttcttct	5	10	7	19	4	3	1	1	1	2	0	6	1	4	1	5	1	1	2	5	1	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:145624857T>C	uc003zcj.2	-	13	1354	c.1279A>G	c.(1279-1281)ACG>GCG	p.T427A		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	427					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			CAGCCGGCCGTCGCATCCACT	0.672													7	24					0	0	1	0	0		C	145624857	C	C	145624857	3	2	73	1	0	0	0	0	1	0	0	0	3827	1667	58	3	3156	3	CPSF1	8	145624857	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	620408	145624857	739165	582	47819											
SLC39A4	55630	broad.mit.edu	37	chr8	145640211	145640211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agggctcagttgggcccaggCctccggggtcaccccagcct	5	6	14	16	1	2	0	2	0	0	0	3	0	3	0	6	5	1	2	6	5	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:145640211C>T	uc003zcq.2	-	5	974	c.874G>A	c.(874-876)GCC>ACC	p.A292T	SLC39A4_uc003zcm.1_5'Flank|SLC39A4_uc003zcn.2_5'Flank|SLC39A4_uc003zco.2_Missense_Mutation_p.A16T|SLC39A4_uc003zcp.2_Missense_Mutation_p.A267T	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	292	Extracellular (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|recycling endosome membrane	zinc ion transmembrane transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			TGGGCCCAGGCCTCCGGGGTC	0.677													21	101					0	0	1	0	0		T	145640211	T	T	145640211	3	4	73	1	0	0	0	0	1	0	0	0	14645	739	26	2	1101	2	SLC39A4	8	145640211	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	15354	145640211	723811	583	47820											
PPP1R16A	84988	broad.mit.edu	37	chr8	145722764	145722764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggcagccagccaagggCtcctgaagcaggtcctcttc	9	6	13	13	0	1	1	0	1	1	0	4	2	3	2	4	4	3	3	4	4	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr8:145722764C>T	uc003zdd.2	+	2	1100	c.187C>T	c.(187-189)CTC>TTC	p.L63F	uc003zde.1_Missense_Mutation_p.S117N|PPP1R16A_uc003zdf.2_Missense_Mutation_p.L63F	NM_032902	NP_116291	Q96I34	PP16A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	63				Missing (in Ref. 1; BAC03452).		plasma membrane	protein binding				0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CAGCCAAGGGCTCCTGAAGCA	0.652													16	32					0	0	1	0	0		T	145722764	T	T	145722764	3	4	73	1	0	0	0	0	1	0	0	0	12387	797	28	2	189	2	PPP1R16A	8	145722764	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	82553	145722764	641258	584	47821											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													12	149					0	0	1	0	0		G	164038	G	G	164038	5	3	73	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-8372-01A-11D-2340-08		164038	141049393	585	47822											
DMRT3	58524	broad.mit.edu	37	chr9	990229	990229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaaaacggaggcaaccccGagagccgccctgacagcccc	13	1	11	16	3	0	3	0	1	0	2	0	5	0	4	6	2	4	1	6	2	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:990229G>A	uc003zgw.1	+	2	681	c.643G>A	c.(643-645)GAG>AAG	p.E215K		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	215					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		AGGCAACCCCGAGAGCCGCCC	0.587													24	55					0	0	1	0	0		A	990229	A	A	990229	3	1	73	1	0	0	0	0	1	0	0	0	4593	1059	37	1	649	1	DMRT3	9	990229	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	826191	990229	140223202	586	47823											
FREM1	158326	broad.mit.edu	37	chr9	14819329	14819329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgtgcagaggcaattcccGcagggagaggtcaatattgt	10	9	13	9	2	1	2	1	0	0	2	3	3	3	2	2	3	1	3	2	3	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:14819329G>A	uc003zlm.2	-	14	3039	c.2449C>T	c.(2449-2451)CGG>TGG	p.R817W	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	817	CSPG 5.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GGCAATTCCCGCAGGGAGAGG	0.478													12	33					0	0	1	0	0		A	14819329	A	A	14819329	3	1	73	1	0	0	0	0	1	0	0	0	6058	1086	38	1	4236	1	FREM1	9	14819329	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	13829100	14819329	126394102	587	47824											
CNTLN	54875	broad.mit.edu	37	chr9	17394904	17394904	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgaaagtgagatctggaCgatatgattgtaagacaact	15	10	10	6	1	1	4	0	3	1	2	1	7	1	5	1	1	1	1	1	1	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:17394904C>T	uc003zmz.2	+	15	2478	c.2452C>T	c.(2452-2454)CGA>TGA	p.R818*	CNTLN_uc003zmy.2_Nonsense_Mutation_p.R818*|CNTLN_uc010mio.2_Nonsense_Mutation_p.R497*	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	818						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		GAGATCTGGACGATATGATTG	0.418													26	53					0	0	1	0	0		T	17394904	T	T	17394904	4	4	73	1	0	0	0	0	0	1	0	0	3642	528	19	1	2540	1	CNTLN	9	17394904	Nonsense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2575575	17394904	123818527	588	47825											
CNTLN	54875	broad.mit.edu	37	chr9	17502598	17502598	+	Frame_Shift_Del	DEL	A	-	-																															agtactggaaaaaataaatgAaaaaaagaaactagttgaag																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:17502598delA	uc003zmy.2	+	26	4195	c.4169delA	c.(4168-4170)GAAfs	p.E1390fs	CNTLN_uc010mio.2_3'UTR	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	Error:Variant_position_missing_in_Q9NXG0_after_alignment						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		AAAATAAATGAAAAAAAGAAA	0.259													10	19	---	---	---	---						.	-	17502598	-	-	17502598	7	5	73	1	0	1	0	1	0	0	0	0	3642	246	9	0	4301	0	CNTLN	9	17502598	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	107694	17502598	123710833	589	47826											
C9orf82	79886	broad.mit.edu	37	chr9	26842399	26842399	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgctgtgcagaaggttgaAcatcttctggtggaggaaca	10	11	14	6	0	2	2	0	1	2	1	2	4	2	4	0	4	4	4	0	4	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:26842399A>C	uc003zqc.2	-	6	998	c.986T>G	c.(985-987)GTT>GGT	p.V329G	C9orf82_uc003zqb.2_Missense_Mutation_p.V184G	NM_024828	NP_079104	Q9H8G2	CI082_HUMAN	hypothetical protein LOC79886	329											0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(42;1.39e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)		AGAAGGTTGAACATCTTCTGG	0.473													38	78					0	0	1	0	0		C	26842399	C	C	26842399	3	2	73	1	0	0	0	0	1	0	0	0	2502	43	2	5	103	5	C9orf82	9	26842399	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	9339801	26842399	114371032	590	47827											
TEK	7010	broad.mit.edu	37	chr9	27212816	27212816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccattgccaatagcaccgCgtccacactgtcctcccagc	8	8	7	18	2	0	0	0	0	0	0	3	0	3	0	6	0	4	1	6	0	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:27212816C>T	uc003zqi.3	+	17	3240	c.2798C>T	c.(2797-2799)GCG>GTG	p.A933V	TEK_uc011lno.1_Missense_Mutation_p.A890V|TEK_uc011lnp.1_Missense_Mutation_p.A785V	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	933	Protein kinase.|Cytoplasmic (Potential).				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		AATAGCACCGCGTCCACACTG	0.592													7	40					0	0	1	0	0		T	27212816	T	T	27212816	3	4	73	1	0	0	0	0	1	0	0	0	15776	768	27	1	2864	1	TEK	9	27212816	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	370417	27212816	114000615	591	47828											
DDX58	23586	broad.mit.edu	37	chr9	32481366	32481366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgaagtgtataaaaacaggGctttacaaatcctgctctct	13	12	8	8	0	1	1	0	1	1	0	3	1	2	1	1	1	3	3	1	1	7	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:32481366G>A	uc003zra.2	-	11	1768	c.1610C>T	c.(1609-1611)GCC>GTC	p.A537V	DDX58_uc010mjj.2_RNA|DDX58_uc010mjk.1_Missense_Mutation_p.A492V|DDX58_uc011lnr.1_Missense_Mutation_p.A334V|DDX58_uc010mji.2_Missense_Mutation_p.A466V	NM_014314	NP_055129	O95786	DDX58_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	537					detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		TAAAAACAGGGCTTTACAAAT	0.433													10	44					0	0	1	0	0		A	32481366	A	A	32481366	3	1	73	1	0	0	0	0	1	0	0	0	4378	1203	42	2	1199	2	DDX58	9	32481366	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5268550	32481366	108732065	592	47829											
VCP	7415	broad.mit.edu	37	chr9	35062113	35062113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaacaactgtgatacaatgCgccgctccacctcgccatga	11	8	7	15	3	1	2	1	2	0	0	3	2	2	2	4	0	4	1	4	0	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:35062113C>T	uc003zvy.2	-	9	1357	c.968G>A	c.(967-969)CGC>CAC	p.R323H	VCP_uc003zvz.2_RNA|VCP_uc010mkh.1_5'UTR|VCP_uc010mki.1_Missense_Mutation_p.R278H	NM_007126	NP_009057	P55072	TERA_HUMAN	valosin-containing protein	323					activation of caspase activity|double-strand break repair|endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|retrograde protein transport, ER to cytosol	cytosol|endoplasmic reticulum|microsome|nucleus|proteasome complex	ATP binding|ATPase activity|lipid binding|polyubiquitin binding|protein domain specific binding|protein phosphatase binding			upper_aerodigestive_tract(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			TGATACAATGCGCCGCTCCAC	0.537													26	80					0	0	1	0	0		T	35062113	T	T	35062113	3	4	73	1	0	0	0	0	1	0	0	0	17166	768	27	1	1488	1	VCP	9	35062113	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2580747	35062113	106151318	593	47830											
FAM166B	730112	broad.mit.edu	37	chr9	35563010	35563010	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgcaagtgagtaaagtcActcagagcctcggcccagac	12	7	10	12	1	3	3	3	1	0	2	4	3	3	3	2	1	2	2	2	1	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:35563010A>G	uc010mkr.2	-	3	425	c.354T>C	c.(352-354)AGT>AGC	p.S118S	FAM166B_uc011lov.1_Silent_p.S118S|FAM166B_uc011low.1_Silent_p.S118S|FAM166B_uc003zwy.2_Silent_p.S118S	NM_001164310	NP_001157782	A8MTA8	F166B_HUMAN	hypothetical protein LOC730112 isoform 1	118											0						GAGTAAAGTCACTCAGAGCCT	0.552													11	32					0	0	1	0	0		G	35563010	G	G	35563010	2	3	73	1	0	0	0	0	0	0	0	1	5493	156	6	3		3	FAM166B	9	35563010	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	500897	35563010	105650421	594	47831											
ZBTB5	9925	broad.mit.edu	37	chr9	37442081	37442081	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggctggaattgagggcTgagctcacgatgcttagtcc	7	12	13	9	1	2	2	1	2	1	0	3	4	3	3	1	3	2	4	1	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:37442081T>C	uc003zzx.2	-	2	668	c.468A>G	c.(466-468)TCA>TCG	p.S156S		NM_014872	NP_055687	O15062	ZBTB5_HUMAN	zinc finger and BTB domain containing 5	156					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(29;0.00733)|Lung(182;0.226)		AATTGAGGGCTGAGCTCACGA	0.627													38	81					0	0	1	0	0		C	37442081	C	C	37442081	2	2	73	1	0	0	0	0	0	0	0	1	17576	1567	55	3		3	ZBTB5	9	37442081	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1879071	37442081	103771350	595	47832											
FRMPD1	22844	broad.mit.edu	37	chr9	37744566	37744566	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctttcctacagaccgactAcacctctcaggtctcatttc	8	13	5	15	1	3	1	2	0	3	1	7	2	4	1	3	1	2	0	3	1	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:37744566A>G	uc004aag.1	+	16	2581	c.2537A>G	c.(2536-2538)TAC>TGC	p.Y846C	FRMPD1_uc004aah.1_Missense_Mutation_p.Y846C	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	846						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		CAGACCGACTACACCTCTCAG	0.562													19	46					0	0	1	0	0		G	37744566	G	G	37744566	3	3	73	1	0	0	0	0	1	0	0	0	6071	391	14	3	2595	3	FRMPD1	9	37744566	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	302485	37744566	103468865	596	47833											
ANKRD20A4	728747	broad.mit.edu	37	chr9	69420380	69420380	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaaagaaagattgggaaaAcgtatcctcagcaatttccc	17	8	7	9	1	1	2	1	0	0	2	3	3	3	3	2	1	3	2	2	1	7	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:69420380A>G	uc004afn.2	+	13	1382	c.1270A>G	c.(1270-1272)ACG>GCG	p.T424A		NM_001098805	NP_001092275	Q4UJ75	A20A4_HUMAN	ankyrin repeat domain 20 family, member A4	424											0						GATTGGGAAAACGTATCCTCA	0.343													10	99					0	0	1	0	0		G	69420380	G	G	69420380	3	3	73	1	0	0	0	0	1	0	0	0	650	43	2	3	1320	3	ANKRD20A4	9	69420380	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	31675814	69420380	71793051	597	47834											
ANKRD20A4	728747	broad.mit.edu	37	chr9	69421905	69421905	+	Frame_Shift_Del	DEL	A	-	-																															caaatgttaatatgctgtacAaaaaaaatagagaagaatta																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:69421905delA	uc004afn.2	+	14	1481	c.1369delA	c.(1369-1371)AAAfs	p.K457fs		NM_001098805	NP_001092275	Q4UJ75	A20A4_HUMAN	ankyrin repeat domain 20 family, member A4	457	Potential.										0						TATGCTGTACAAAAAAAATAG	0.269													5	1	---	---	---	---						.	-	69421905	-	-	69421905	7	5	73	1	0	1	0	1	0	0	0	0	650	131	5	0	1423	0	ANKRD20A4	9	69421905	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	1525	69421905	71791526	598	47835											
TRPM3	80036	broad.mit.edu	37	chr9	73399051	73399051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgagtatttatgcccaaagGccaggatgtccgatgcccgt	9	10	11	11	2	0	1	0	1	0	0	1	3	1	2	4	2	2	1	4	2	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:73399051G>A	uc004aid.2	-	7	1362	c.1118C>T	c.(1117-1119)GCC>GTC	p.A373V	TRPM3_uc004ahu.2_Missense_Mutation_p.A203V|TRPM3_uc004ahv.2_Missense_Mutation_p.A203V|TRPM3_uc004ahw.2_Missense_Mutation_p.A245V|TRPM3_uc004ahx.2_Missense_Mutation_p.A220V|TRPM3_uc004ahy.2_Missense_Mutation_p.A245V|TRPM3_uc004ahz.2_Missense_Mutation_p.A220V|TRPM3_uc004aia.2_Missense_Mutation_p.A220V|TRPM3_uc004aib.2_Missense_Mutation_p.A220V|TRPM3_uc004aic.2_Missense_Mutation_p.A373V|TRPM3_uc010mor.2_Missense_Mutation_p.A373V|TRPM3_uc004aie.2_Missense_Mutation_p.A220V|TRPM3_uc004aif.2_Missense_Mutation_p.A245V|TRPM3_uc004aig.2_Missense_Mutation_p.A220V	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	398	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						ATGCCCAAAGGCCAGGATGTC	0.522													25	44					0	0	1	0	0		A	73399051	A	A	73399051	3	1	73	1	0	0	0	0	1	0	0	0	16613	1203	42	2	4125	2	TRPM3	9	73399051	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3977146	73399051	67814380	599	47836											
TMEM2	23670	broad.mit.edu	37	chr9	74309493	74309493	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggaattgcacagggaggtAacttttatgaggatcactag	12	11	12	6	0	1	1	1	1	0	0	1	4	1	4	0	4	2	2	0	4	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:74309493A>G	uc011lsa.1	-	21	4168	c.3628T>C	c.(3628-3630)TAC>CAC	p.Y1210H	TMEM2_uc011lrz.1_Missense_Mutation_p.Y203H|TMEM2_uc010mos.2_Missense_Mutation_p.Y1147H|TMEM2_uc011lsb.1_RNA|TMEM2_uc004aik.2_Missense_Mutation_p.Y44H	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	1210						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		ACAGGGAGGTAACTTTTATGA	0.398													7	34					0	0	1	0	0		G	74309493	G	G	74309493	3	3	73	1	0	0	0	0	1	0	0	0	16146	362	13	3	539	3	TMEM2	9	74309493	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	910442	74309493	66903938	600	47837											
TMC1	117531	broad.mit.edu	37	chr9	75406888	75406888	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagactaccatcctctcatCgctttgaaatggctactggg	10	11	9	11	1	1	2	1	1	1	1	4	3	2	2	2	2	2	2	2	2	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:75406888C>T	uc004aiz.1	+	16	1851	c.1311C>T	c.(1309-1311)ATC>ATT	p.I437I	TMC1_uc010moz.1_Silent_p.I395I|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Silent_p.I291I|TMC1_uc010mpa.1_Silent_p.I291I	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	437	Extracellular (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						ATCCTCTCATCGCTTTGAAAT	0.393													15	208					0	0	1	0	0		T	75406888	T	T	75406888	2	4	73	1	0	0	0	0	0	0	0	1	16009	874	31	1		1	TMC1	9	75406888	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1097395	75406888	65806543	601	47838											
TRPM6	140803	broad.mit.edu	37	chr9	77454951	77454951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagctttacctgtattgatgCcttcagttattatccacgct	8	16	7	10	1	1	1	1	1	0	0	2	2	2	1	3	0	3	4	3	0	4	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:77454951C>T	uc004ajl.1	-	5	771	c.533G>A	c.(532-534)GGC>GAC	p.G178D	TRPM6_uc004ajk.1_Missense_Mutation_p.G173D|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.G178D|TRPM6_uc010mpd.1_Missense_Mutation_p.G178D|TRPM6_uc010mpe.1_Missense_Mutation_p.G178D|TRPM6_uc004ajn.1_Missense_Mutation_p.G178D	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	178	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						TGTATTGATGCCTTCAGTTAT	0.244													39	50					0	0	1	0	0		T	77454951	T	T	77454951	3	4	73	1	0	0	0	0	1	0	0	0	16616	739	26	2	5675	2	TRPM6	9	77454951	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2048063	77454951	63758480	602	47839											
PCSK5	5125	broad.mit.edu	37	chr9	78506105	78506105	+	Frame_Shift_Del	DEL	G	-	-																															aggcgccgggaccatgggctGggggagccgctgctgctgcc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:78506105delG	uc004ajz.2	+	1	546	c.8delG	c.(7-9)TGGfs	p.W3fs	PCSK5_uc004ajy.2_Frame_Shift_Del_p.W3fs|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	3					anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						ACCATGGGCTGGGGGAGCCGC	0.726													15	25	---	---	---	---						.	-	78506105	-	-	78506105	7	5	73	1	0	1	0	1	0	0	0	0	11622	1357	47	0	10	0	PCSK5	9	78506105	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	1051154	78506105	62707326	603	47840											
PRUNE2	158471	broad.mit.edu	37	chr9	79229502	79229502	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactaaggcttttctttcAgcttcaagtcaatactgcaa	12	13	5	11	0	4	0	3	0	1	0	4	0	4	0	1	1	4	3	1	1	6	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:79229502A>G	uc010mpk.2	-	19	9375	c.9251T>C	c.(9250-9252)CTG>CCG	p.L3084P	PRUNE2_uc011lsk.1_Missense_Mutation_p.L333P|PRUNE2_uc011lsl.1_Missense_Mutation_p.L348P|PRUNE2_uc011lsm.1_Missense_Mutation_p.L320P|PRUNE2_uc004akj.3_Missense_Mutation_p.L538P	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	3084					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CTTTTCTTTCAGCTTCAAGTC	0.388													7	46					0	0	1	0	0		G	79229502	G	G	79229502	3	3	73	1	0	0	0	0	1	0	0	0	12663	188	7	3	19	3	PRUNE2	9	79229502	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	723397	79229502	61983929	604	47841											
FOXB2	442425	broad.mit.edu	37	chr9	79635344	79635344	+	Silent	SNP	G	T	T																															gccgccgccgctgccgccgcGgccgcggcgtccacgtcagg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:79635344G>T	uc004ako.1	+	1	774	c.774G>T	c.(772-774)GCG>GCT	p.A258A		NM_001013735	NP_001013757	Q5VYV0	FOXB2_HUMAN	forkhead box B2	258	Poly-Ala.				brain development|embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						ctgccgccgcggccgcGGCGT	0.453													14	13					1.49906e-05	1.54141e-05	1	1	0		T	79635344	T	T	79635344	2	4	73	1	0	0	0	0	0	0	0	1	6007	1103	39	5		5	FOXB2	9	79635344	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	405842	79635344	61578087	605	47842	91	2									
FOXB2	442425	broad.mit.edu	37	chr9	79635350	79635350	+	Silent	SNP	G	C	C																															gccgctgccgccgcggccgcGgcgtccacgtcaggcttcaa																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:79635350G>C	uc004ako.1	+	1	780	c.780G>C	c.(778-780)GCG>GCC	p.A260A		NM_001013735	NP_001013757	Q5VYV0	FOXB2_HUMAN	forkhead box B2	260	Poly-Ala.				brain development|embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						ccgcggccgcGGCGTCCACGT	0.478													15	15					0	0	1	0	0		C	79635350	C	C	79635350	2	2	73	1	0	0	0	0	0	0	0	1	6007	1103	39	5		5	FOXB2	9	79635350	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6	79635350	61578081	606	47843	91	2									
FAM75C1	441452	broad.mit.edu	37	chr9	90535618	90535618	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggacaccgtccctcaaagcTtgtctccacgtgaggatttg	8	11	10	12	2	2	1	1	1	1	0	4	3	3	3	3	2	1	1	3	2	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:90535618T>G	uc010mqi.2	+	4	825	c.796T>G	c.(796-798)TTG>GTG	p.L266V	FAM75C1_uc004apq.3_Missense_Mutation_p.L249V	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						CCCTCAAAGCTTGTCTCCACG	0.572													55	130					0	0	1	0	0		G	90535618	G	G	90535618	3	3	73	1	0	0	0	0	1	0	0	0	5637	1606	56	5	810	5	FAM75C1	9	90535618	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	10900268	90535618	50677813	607	47844											
ROR2	4920	broad.mit.edu	37	chr9	94487069	94487069	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccacgtccgagtgcggCgagcgcatgaccaggaattc	8	6	13	14	5	0	1	0	1	0	0	2	4	1	2	3	2	3	1	3	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:94487069C>T	uc004arj.1	-	9	1906	c.1707G>A	c.(1705-1707)TCG>TCA	p.S569S	ROR2_uc004ari.1_Silent_p.S429S	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	569	Cytoplasmic (Potential).|Protein kinase.				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						CCGAGTGCGGCGAGCGCATGA	0.652													15	26					0	0	1	0	0		T	94487069	T	T	94487069	2	4	73	1	0	0	0	0	0	0	0	1	13552	755	27	1		1	ROR2	9	94487069	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3951451	94487069	46726362	608	47845											
NOL8	55035	broad.mit.edu	37	chr9	95077545	95077545	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatcagcatcttcactgctActggagtgagagggagattt	11	11	12	7	0	3	2	2	1	1	2	3	6	3	3	0	2	3	2	0	2	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:95077545A>G	uc004arv.2	-	7	1699	c.1362T>C	c.(1360-1362)AGT>AGC	p.S454S	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Intron|NOL8_uc011ltw.1_Silent_p.S386S	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	454				S -> G (in Ref. 3; BAB14857).	DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						CTTCACTGCTACTGGAGTGAG	0.403													16	28					0	0	1	0	0		G	95077545	G	G	95077545	2	3	73	1	0	0	0	0	0	0	0	1	10546	388	14	3		3	NOL8	9	95077545	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	590476	95077545	46135886	609	47846											
OGN	4969	broad.mit.edu	37	chr9	95152283	95152283	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagaaagttttgaaaaagtAccatcttctatatcttctat	15	15	5	6	0	4	2	0	1	4	1	4	3	4	2	1	0	1	2	1	0	7	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:95152283A>G	uc004asa.2	-	5	718	c.483T>C	c.(481-483)GGT>GGC	p.G161G	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|OGN_uc004asb.2_Silent_p.G161G|OGN_uc011ltx.1_Silent_p.G179G	NM_014057	NP_054776	P20774	MIME_HUMAN	osteoglycin preproprotein	161	LRR 3.					extracellular space|proteinaceous extracellular matrix	growth factor activity				0						TTGAAAAAGTACCATCTTCTA	0.303													13	47					0	0	1	0	0		G	95152283	G	G	95152283	2	3	73	1	0	0	0	0	0	0	0	1	10865	378	14	3		3	OGN	9	95152283	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	74738	95152283	46061148	610	47847											
ASPN	54829	broad.mit.edu	37	chr9	95236979	95236979	+	Frame_Shift_Del	DEL	A	-	-																															attggaaacagatcaaatggAaaaaaatggcttcttggctc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:95236979delA	uc004ase.1	-	2	445	c.201delT	c.(199-201)TTTfs	p.F67fs	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ASPN_uc010mqy.1_Frame_Shift_Del_p.F67fs	NM_017680	NP_060150	Q9BXN1	ASPN_HUMAN	asporin precursor	67	LRRNT.				bone mineralization|negative regulation of tooth mineralization|negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	calcium ion binding				0						GATCAAATGGAAAAAAATGGC	0.294													21	33	---	---	---	---						.	-	95236979	-	-	95236979	7	5	73	1	0	1	0	1	0	0	0	0	1058	243	9	0	969	0	ASPN	9	95236979	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	84696	95236979	45976452	611	47848											
ZNF484	83744	broad.mit.edu	37	chr9	95618525	95618525	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcacttctctgtacaggcTtttctgagcaaggtctaatt	9	15	7	10	0	4	1	1	1	3	0	5	1	4	1	0	2	2	3	0	2	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:95618525T>C	uc004asu.1	-	3	240	c.91A>G	c.(91-93)AGC>GGC	p.S31G	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Missense_Mutation_p.S33G|ZNF484_uc010mrb.1_5'UTR|ZNF484_uc004asv.1_5'UTR	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	31	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTGTACAGGCTTTTCTGAGCA	0.398													42	70					0	0	1	0	0		C	95618525	C	C	95618525	3	2	73	1	0	0	0	0	1	0	0	0	17962	1609	56	3	2479	3	ZNF484	9	95618525	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	381546	95618525	45594906	612	47849											
CDC14B	8555	broad.mit.edu	37	chr9	99272005	99272005	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggttcttttagtaatGcctgcactgccagaaatgtt	8	15	10	8	0	1	1	0	0	1	1	1	1	1	1	2	2	3	4	2	2	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:99272005G>A	uc004awj.2	-	13	1862	c.1410C>T	c.(1408-1410)GGC>GGT	p.G470G	CDC14B_uc004awk.2_Intron|CDC14B_uc004awl.2_RNA|CDC14B_uc004awi.2_Silent_p.G433G	NM_033331	NP_201588	O60729	CC14B_HUMAN	CDC14 homolog B isoform 2	470					activation of anaphase-promoting complex activity|DNA repair|G2/M transition DNA damage checkpoint	nucleolus|nucleoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TTTTAGTAATGCCTGCACTGC	0.358													30	62					0	0	1	0	0		A	99272005	A	A	99272005	2	1	73	1	0	0	0	0	0	0	0	1	3060	1306	46	2		2	CDC14B	9	99272005	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3653480	99272005	41941426	613	47850											
GRIN3A	116443	broad.mit.edu	37	chr9	104449268	104449268	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggaagctcaagaggtccTgggtggaggggaggttagcg	9	7	20	5	1	1	1	1	0	0	1	2	4	2	4	1	7	2	3	1	7	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:104449268T>C	uc004bbp.1	-	2	1515	c.914A>G	c.(913-915)CAG>CGG	p.Q305R	GRIN3A_uc004bbq.1_Missense_Mutation_p.Q305R	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	305	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	CAAGAGGTCCTGGGTGGAGGG	0.498													34	54					0	0	1	0	0		C	104449268	C	C	104449268	3	2	73	1	0	0	0	0	1	0	0	0	6799	1580	55	3	2465	3	GRIN3A	9	104449268	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	5177263	104449268	36764163	614	47851											
ZNF462	58499	broad.mit.edu	37	chr9	109689899	109689899	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacggccaccattcgaagcCtctgcgaccgaaatcagaag	13	6	9	13	4	2	1	1	0	1	1	3	4	2	1	4	1	3	0	4	1	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:109689899C>A	uc004bcz.2	+	3	3995	c.3706C>A	c.(3706-3708)CTC>ATC	p.L1236I	ZNF462_uc010mto.2_Missense_Mutation_p.L1084I|ZNF462_uc004bda.2_Missense_Mutation_p.L1084I	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1236					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						CATTCGAAGCCTCTGCGACCG	0.537													96	201					1.46619e-26	1.64087e-26	1	1	0		A	109689899	A	A	109689899	3	1	73	1	0	0	0	0	1	0	0	0	17951	681	24	5	3712	5	ZNF462	9	109689899	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5240631	109689899	31523532	615	47852											
ROD1	9991	broad.mit.edu	37	chr9	114986256	114986256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaatgagcgccattttgcGatctttcctgaaaatggtat	10	15	9	7	2	1	3	0	3	1	0	2	4	2	3	2	1	2	1	2	1	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:114986256G>A	uc004bfw.2	-	15	1721	c.1534C>T	c.(1534-1536)CGC>TGC	p.R512C	ROD1_uc004bfv.2_Missense_Mutation_p.R518C|ROD1_uc004bfx.2_Missense_Mutation_p.R515C|ROD1_uc011lwu.1_Missense_Mutation_p.R484C|ROD1_uc004bfy.2_Missense_Mutation_p.R417C|ROD1_uc004bfz.2_Intron	NM_005156	NP_005147	O95758	ROD1_HUMAN	ROD1 regulator of differentiation 1 isoform 1	512	RRM 4.				anatomical structure morphogenesis|mRNA processing	nucleus	nucleotide binding|RNA binding			skin(1)	1						GCCATTTTGCGATCTTTCCTG	0.403													30	85					0	0	1	0	0		A	114986256	A	A	114986256	3	1	73	1	0	0	0	0	1	0	0	0	13544	1058	37	1	128	1	ROD1	9	114986256	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5296357	114986256	26227175	616	47853											
SLC46A2	57864	broad.mit.edu	37	chr9	115652551	115652551	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgttcagcgccgccgccccGtacagcacctccactggcca	6	5	9	21	5	1	0	1	0	0	0	2	0	2	0	8	1	3	3	8	1	1	2	rs144776162		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:115652551G>A	uc004bgk.2	-	1	643	c.411C>T	c.(409-411)TAC>TAT	p.Y137Y		NM_033051	NP_149040	Q9BY10	TSCOT_HUMAN	solute carrier family 46, member 2	137	Extracellular (Potential).					integral to membrane|plasma membrane	symporter activity			central_nervous_system(1)	1						CCGCCGCCCCGTACAGCACCT	0.682													19	42					0	0	1	0	0		A	115652551	A	A	115652551	2	1	73	1	0	0	0	0	0	0	0	1	14670	1140	40	1		1	SLC46A2	9	115652551	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	666295	115652551	25560880	617	47854											
COL27A1	85301	broad.mit.edu	37	chr9	116999992	116999992	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcccgggccccctggaccCgaggtatgtgatgccccatt	5	10	11	15	2	0	1	0	1	0	0	1	3	1	2	6	3	1	1	6	3	1	3	rs142957409	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:116999992C>A	uc011lxl.1	+	19	2724	c.2724C>A	c.(2722-2724)CCC>CCA	p.P908P	COL27A1_uc004bii.2_RNA	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	908	Collagen-like 5.|Pro-rich.|Triple-helical region.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						CCCCTGGACCCGAGGTATGTG	0.488													6	31					3.59834e-05	3.68696e-05	1	1	0		A	116999992	A	A	116999992	2	1	73	1	0	0	0	0	0	0	0	1	3688	639	23	5		5	COL27A1	9	116999992	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1347441	116999992	24213439	618	47855											
AKNA	80709	broad.mit.edu	37	chr9	117124104	117124104	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctgagtctgacccgggCggctcaggctcttgctgggt	5	9	16	11	2	3	3	1	2	2	1	3	3	3	3	1	4	2	4	1	4	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:117124104C>T	uc004biq.3	-	8	2139	c.2004G>A	c.(2002-2004)CCG>CCA	p.P668P	AKNA_uc004bin.3_5'Flank|AKNA_uc004bio.3_Silent_p.P128P|AKNA_uc004bip.3_Silent_p.P587P|AKNA_uc004bir.3_Silent_p.P668P|AKNA_uc004bis.3_Silent_p.P668P|AKNA_uc010mve.2_Silent_p.P549P|AKNA_uc004biu.1_Silent_p.P409P|AKNA_uc004biv.1_Silent_p.P668P	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	668					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(2)	6						CTGACCCGGGCGGCTCAGGCT	0.617													33	61					0	0	1	0	0		T	117124104	T	T	117124104	2	4	73	1	0	0	0	0	0	0	0	1	463	755	27	1		1	AKNA	9	117124104	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	124112	117124104	24089327	619	47856											
ASTN2	23245	broad.mit.edu	37	chr9	119188283	119188283	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatagggcactgtttccacGcggctctggatgtaggcact	8	10	13	10	2	1	1	0	0	1	1	2	2	2	2	1	4	0	5	1	4	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:119188283G>A	uc004bjs.1	-	23	3968	c.3867C>T	c.(3865-3867)CGC>CGT	p.R1289R	ASTN2_uc004bjr.1_Silent_p.R1285R|ASTN2_uc004bjt.1_Silent_p.R1238R|ASTN2_uc004bjp.1_Silent_p.R382R|ASTN2_uc004bjq.1_Silent_p.R341R|ASTN2_uc011lxr.1_Silent_p.R341R|ASTN2_uc011lxs.1_Silent_p.R341R|ASTN2_uc011lxt.1_Silent_p.R341R|ASTN2_uc004bjo.1_Silent_p.R70R	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	1289	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CTGTTTCCACGCGGCTCTGGA	0.582													8	23					0	0	1	0	0		A	119188283	A	A	119188283	2	1	73	1	0	0	0	0	0	0	0	1	1066	1074	38	1		1	ASTN2	9	119188283	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2064179	119188283	22025148	620	47857											
NEK6	10783	broad.mit.edu	37	chr9	127074912	127074912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggacaggaagacagtggCtctgaagaaggtgcaggtga	12	6	17	6	0	1	4	0	2	1	2	1	6	1	6	0	5	1	3	0	5	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:127074912C>T	uc004bog.2	+	3	364	c.215C>T	c.(214-216)GCT>GTT	p.A72V	NEK6_uc004bof.2_Missense_Mutation_p.A90V|NEK6_uc004boh.2_Missense_Mutation_p.A106V|NEK6_uc010mwj.2_Intron|NEK6_uc010mwk.2_Missense_Mutation_p.A72V|NEK6_uc004boi.2_Missense_Mutation_p.A72V	NM_014397	NP_055212	Q9HC98	NEK6_HUMAN	NIMA-related kinase 6 isoform 2	72	Protein kinase.				apoptosis|cell division|chromosome segregation|mitosis|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of mitotic metaphase/anaphase transition	cytoplasm|nucleus	ATP binding|kinesin binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|kidney(1)	3						AAGACAGTGGCTCTGAAGAAG	0.607													4	23					0	0	1	0	0		T	127074912	T	T	127074912	3	4	73	1	0	0	0	0	1	0	0	0	10347	797	28	2	406	2	NEK6	9	127074912	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	7886629	127074912	14138519	621	47858											
OLFML2A	169611	broad.mit.edu	37	chr9	127566549	127566549	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaccaccaccaccgccAccaccaccccaacccccacc	10	1	2	28	1	0	0	0	0	0	0	0	0	0	0	13	0	2	0	13	0	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:127566549A>G	uc004bov.2	+	6	1209	c.1096A>G	c.(1096-1098)ACC>GCC	p.T366A	OLFML2A_uc010mwr.1_Missense_Mutation_p.T330A|OLFML2A_uc004bow.2_Missense_Mutation_p.T152A	NM_182487	NP_872293	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A precursor	366	Thr-rich.										0						caccaccgccaccaccacccc	0.453													3	6					0	0	1	0	0		G	127566549	G	G	127566549	3	3	73	1	0	0	0	0	1	0	0	0	10876	159	6	3	1118	3	OLFML2A	9	127566549	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	491637	127566549	13646882	622	47859											
SLC2A8	29988	broad.mit.edu	37	chr9	130167812	130167812	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccaactggctcatggccTttctcgtgaccaaggagttc	8	11	9	13	1	3	1	2	1	1	0	5	2	3	2	3	3	1	2	3	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:130167812T>A	uc004bqu.2	+	9	1309	c.1264T>A	c.(1264-1266)TTT>ATT	p.F422I	SLC2A8_uc010mxj.2_Intron|SLC2A8_uc004bqv.2_Missense_Mutation_p.F94I	NM_014580	NP_055395	Q9NY64	GTR8_HUMAN	solute carrier family 2 (facilitated glucose	422	Helical; Name=11; (Potential).					cytoplasmic vesicle membrane|integral to plasma membrane	D-glucose transmembrane transporter activity			ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2						GCTCATGGCCTTTCTCGTGAC	0.592													4	35					0	0	1	0	0		A	130167812	A	A	130167812	3	1	73	1	0	0	0	0	1	0	0	0	14576	1609	56	5	1298	5	SLC2A8	9	130167812	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2601263	130167812	11045619	623	47860											
C9orf117	286207	broad.mit.edu	37	chr9	130469311	130469311	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctggttgccatcagccAtggctcccaaaaagagtgtg	10	8	11	12	0	1	1	1	0	0	1	2	1	2	1	4	2	3	2	4	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:130469311A>G	uc004brn.1	+	1	41	c.1A>G	c.(1-3)ATG>GTG	p.M1V	PTRH1_uc004brm.2_Intron|C9orf117_uc010mxl.1_RNA	NM_001012502	NP_001012520	Q5JU67	CI117_HUMAN	hypothetical protein LOC286207	1											0						GCCATCAGCCATGGCTCCCAA	0.617													24	90					0	0	1	0	0		G	130469311	G	G	130469311	3	3	73	1	0	0	0	0	1	0	0	0	2454	217	8	3	3	3	C9orf117	9	130469311	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	301499	130469311	10744120	624	47861											
LCN2	3934	broad.mit.edu	37	chr9	130913980	130913980	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccagcccggcgagttcacGctgggcaacattaagagtga	10	7	13	11	3	1	2	1	1	0	1	1	3	1	2	2	2	3	3	2	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:130913980G>A	uc004bto.1	+	3	412	c.339G>A	c.(337-339)ACG>ACA	p.T113T	LCN2_uc011map.1_Silent_p.T113T	NM_005564	NP_005555	P80188	NGAL_HUMAN	lipocalin 2 precursor	113					apoptosis|innate immune response|regulation of apoptosis|siderophore transport		iron ion binding|transporter activity				0						GCGAGTTCACGCTGGGCAACA	0.582													18	37					0	0	1	0	0		A	130913980	A	A	130913980	2	1	73	1	0	0	0	0	0	0	0	1	8700	1074	38	1		1	LCN2	9	130913980	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	444669	130913980	10299451	625	47862											
COQ4	51117	broad.mit.edu	37	chr9	131095136	131095136	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctcacccacaggggagatCgtggtgaaatggtttgaggc	9	8	14	10	1	1	3	1	2	0	1	2	4	1	3	2	5	0	1	2	5	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:131095136C>T	uc004bur.3	+	6	887	c.540C>T	c.(538-540)ATC>ATT	p.I180I	COQ4_uc004bus.2_Silent_p.I156I|COQ4_uc010mxy.2_Silent_p.I156I	NM_016035	NP_057119	Q9Y3A0	COQ4_HUMAN	coenzyme Q4 homolog precursor	180					ubiquinone biosynthetic process	mitochondrial inner membrane					0						CAGGGGAGATCGTGGTGAAAT	0.542													24	58					0	0	1	0	0		T	131095136	T	T	131095136	2	4	73	1	0	0	0	0	0	0	0	1	3750	874	31	1		1	COQ4	9	131095136	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	181156	131095136	10118295	626	47863											
SPTAN1	6709	broad.mit.edu	37	chr9	131371511	131371511	+	Frame_Shift_Del	DEL	A	-	-																															gattgaggcttggatcagtgAaaaattgcaaacagcgagtg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:131371511delA	uc004bvl.3	+	36	4819	c.4706delA	c.(4705-4707)GAAfs	p.E1569fs	SPTAN1_uc004bvm.3_Frame_Shift_Del_p.E1569fs|SPTAN1_uc004bvn.3_Frame_Shift_Del_p.E1549fs	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1569	Spectrin 17.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						TGGATCAGTGAAAAATTGCAA	0.458													28	50	---	---	---	---						.	-	131371511	-	-	131371511	7	5	73	1	0	1	0	1	0	0	0	0	15142	246	9	0	4844	0	SPTAN1	9	131371511	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	276375	131371511	9841920	627	47864											
C9orf114	51490	broad.mit.edu	37	chr9	131586433	131586433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtcatacccatcttggaaggGggcctcagcaaacacagcac	12	6	10	13	0	3	0	2	0	1	0	3	1	3	1	2	3	4	2	2	3	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:131586433G>A	uc004bwd.2	-	10	858	c.832C>T	c.(832-834)CCC>TCC	p.P278S	C9orf114_uc004bwe.2_Missense_Mutation_p.P278S|C9orf114_uc010mym.2_RNA	NM_016390	NP_057474	Q5T280	CI114_HUMAN	hypothetical protein LOC51490	278											0						TCTTGGAAGGGGGCCTCAGCA	0.612													4	9					0	0	1	0	0		A	131586433	A	A	131586433	3	1	73	1	0	0	0	0	1	0	0	0	2452	1232	43	4	310	4	C9orf114	9	131586433	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	214922	131586433	9626998	628	47865											
DOLK	22845	broad.mit.edu	37	chr9	131708573	131708573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatgaggtggaaatactttCgggcgatggtgggggcctgg	8	9	18	6	2	0	1	0	1	0	0	1	3	0	2	1	7	1	0	1	7	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:131708573C>T	uc004bwr.2	-	1	1440	c.1010G>A	c.(1009-1011)CGA>CAA	p.R337Q	NUP188_uc004bws.1_5'Flank|NUP188_uc004bwq.1_Intron	NM_014908	NP_055723	Q9UPQ8	DOLK_HUMAN	dolichol kinase	337	Cytoplasmic (Potential).				dolichyl diphosphate biosynthetic process|dolichyl monophosphate biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to endoplasmic reticulum membrane|membrane fraction	dolichol kinase activity				0						GAAATACTTTCGGGCGATGGT	0.577													79	137					0	0	1	0	0		T	131708573	T	T	131708573	3	4	73	1	0	0	0	0	1	0	0	0	4709	884	31	1	610	1	DOLK	9	131708573	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	122140	131708573	9504858	629	47866											
NUP214	8021	broad.mit.edu	37	chr9	134022878	134022878	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacttctttttcaagcaggAcgatctgctcagggcagttc	8	13	10	10	1	4	1	2	1	2	0	5	3	4	2	0	2	2	4	0	2	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:134022878A>G	uc004cag.2	+	14	2058	c.1947A>G	c.(1945-1947)GGA>GGG	p.G649G	NUP214_uc004cah.2_Silent_p.G639G|NUP214_uc004cai.2_Silent_p.G79G|NUP214_uc004caf.1_Silent_p.G638G|NUP214_uc010mzf.2_Intron	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	649	11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		TTCAAGCAGGACGATCTGCTC	0.438			T	DEK|SET|ABL1	AML|T-ALL								38	75					0	0	1	0	0		G	134022878	G	G	134022878	2	3	73	1	0	0	0	0	0	0	0	1	10781	289	10	3		3	NUP214	9	134022878	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2314305	134022878	7190553	630	47867											
NUP214	8021	broad.mit.edu	37	chr9	134073099	134073099	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagccaccagcacttcCtcaactgccgtttttggcag	8	9	8	16	1	1	0	1	0	0	0	2	0	2	0	5	1	5	4	5	1	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:134073099C>A	uc004cag.2	+	29	4329	c.4218C>A	c.(4216-4218)TCC>TCA	p.S1406S	NUP214_uc004cah.2_Silent_p.S1396S|NUP214_uc004cai.2_Silent_p.S836S|NUP214_uc010mzg.2_RNA|NUP214_uc011mcg.1_Silent_p.S232S|NUP214_uc011mcf.1_Silent_p.S183S|NUP214_uc010mzh.1_5'UTR|NUP214_uc010mzi.1_5'UTR	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	1406	Pro/Ser/Thr-rich.|11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		CCAGCACTTCCTCAACTGCCG	0.552			T	DEK|SET|ABL1	AML|T-ALL								14	109					7.93312e-07	8.24456e-07	1	1	0		A	134073099	A	A	134073099	2	1	73	1	0	0	0	0	0	0	0	1	10781	668	24	5		5	NUP214	9	134073099	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	50221	134073099	7140332	631	47868											
DDX31	64794	broad.mit.edu	37	chr9	135522411	135522411	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacagaaatactgactggAtcatgcaaactgatatcagc	16	8	9	8	0	2	3	2	2	0	1	2	5	2	5	0	2	4	1	0	2	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:135522411A>G	uc004cbq.1	-	12	1469	c.1317T>C	c.(1315-1317)GAT>GAC	p.D439D	DDX31_uc010mzu.1_Silent_p.D439D|DDX31_uc004cbr.1_Silent_p.D439D	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	439	Helicase ATP-binding.					nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		TACTGACTGGATCATGCAAAC	0.493													21	52					0	0	1	0	0		G	135522411	G	G	135522411	2	3	73	1	0	0	0	0	0	0	0	1	4359	330	12	3		3	DDX31	9	135522411	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1449312	135522411	5691020	632	47869											
ADAMTS13	11093	broad.mit.edu	37	chr9	136320470	136320470	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcctcggaccccaggccCaggcgcctgtgccagctgat	5	6	12	18	2	0	1	0	1	0	0	1	2	0	2	7	3	3	1	7	3	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:136320470C>A	uc004cdv.3	+	25	3757	c.3313C>A	c.(3313-3315)CAG>AAG	p.Q1105K	ADAMTS13_uc004cdp.3_Missense_Mutation_p.Q332K|ADAMTS13_uc004cdt.1_Missense_Mutation_p.Q1105K|ADAMTS13_uc004cdu.1_Missense_Mutation_p.Q1074K|ADAMTS13_uc004cdw.3_Missense_Mutation_p.Q1105K|ADAMTS13_uc004cdx.3_Missense_Mutation_p.Q1074K|ADAMTS13_uc004cdz.3_Missense_Mutation_p.Q775K|ADAMTS13_uc004cea.1_5'Flank|ADAMTS13_uc004ceb.3_5'Flank	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1105	TSP type-1 8.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		ACCCCAGGCCCAGGCGCCTGT	0.667													47	84					4.00472e-15	4.37425e-15	1	1	0		A	136320470	A	A	136320470	3	1	73	1	0	0	0	0	1	0	0	0	258	595	21	5	3411	5	ADAMTS13	9	136320470	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	798059	136320470	4892961	633	47870											
BRD3	8019	broad.mit.edu	37	chr9	136918511	136918511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcttgcggccgggcttgCtggggttggagacctccggg	2	10	19	10	3	1	1	0	0	1	1	2	2	2	1	3	7	2	3	3	7	0	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:136918511C>T	uc004cew.2	-	2	277	c.89G>A	c.(88-90)AGC>AAC	p.S30N	BRD3_uc004cex.2_Missense_Mutation_p.S30N	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	30						nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		GCCGGGCTTGCTGGGGTTGGA	0.677			T	NUT|C15orf55	lethal midline carcinoma of young people								13	21					0	0	1	0	0		T	136918511	T	T	136918511	3	4	73	1	0	0	0	0	1	0	0	0	1506	797	28	2	2135	2	BRD3	9	136918511	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	598041	136918511	4294920	634	47871											
COL5A1	1289	broad.mit.edu	37	chr9	137644457	137644457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcactgaggggaccagctgGcccgatgggtctcacaggga	8	5	17	11	1	1	1	1	1	1	0	2	4	1	3	2	6	1	2	2	6	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:137644457G>A	uc004cfe.2	+	14	2067	c.1685G>A	c.(1684-1686)GGC>GAC	p.G562D		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	562	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GGACCAGCTGGCCCGATGGGT	0.617													6	17					0	0	1	0	0		A	137644457	A	A	137644457	3	1	73	1	0	0	0	0	1	0	0	0	3699	1203	42	2	1739	2	COL5A1	9	137644457	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	725946	137644457	3568974	635	47872											
KIAA0649	9858	broad.mit.edu	37	chr9	138379043	138379043	+	Frame_Shift_Del	DEL	G	-	-																															cacacgcagccagagggccaGgggggtcccacatctggccg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:138379043delG	uc004cfr.1	+	4	3236	c.2687delG	c.(2686-2688)AGGfs	p.R896fs		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	896						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		CAGAGGGCCAGGGGGGTCCCA	0.701													31	57	---	---	---	---						.	-	138379043	-	-	138379043	7	5	73	1	0	1	0	1	0	0	0	0	8203	1000	35	0	2689	0	KIAA0649	9	138379043	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	734586	138379043	2834388	636	47873											
KCNT1	57582	broad.mit.edu	37	chr9	138678163	138678163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacgggcggcggtgaccccGcagagcacccactgctacgg	8	3	14	16	5	0	2	0	1	0	1	0	2	0	2	3	4	3	3	3	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:138678163G>A	uc011mdq.1	+	29	3372	c.3298G>A	c.(3298-3300)GCA>ACA	p.A1100T	KCNT1_uc011mdr.1_Missense_Mutation_p.A927T|KCNT1_uc010nbf.2_Missense_Mutation_p.A1055T|KCNT1_uc004cgo.1_3'UTR	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	1100						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		CGGTGACCCCGCAGAGCACCC	0.746													3	6					0	0	1	0	0		A	138678163	A	A	138678163	3	1	73	1	0	0	0	0	1	0	0	0	8107	1087	38	1	3412	1	KCNT1	9	138678163	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	299120	138678163	2535268	637	47874											
QSOX2	169714	broad.mit.edu	37	chr9	139107139	139107139	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatgtgattagtaaggaaTattccagaaatctgaaaaac	17	13	7	4	0	1	3	0	2	1	1	2	4	2	4	1	1	1	1	1	1	8	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:139107139T>C	uc010nbi.2	-	10	1259	c.1221A>G	c.(1219-1221)ATA>ATG	p.I407M		NM_181701	NP_859052	Q6ZRP7	QSOX2_HUMAN	quiescin Q6 sulfhydryl oxidase 2 precursor	407					cell redox homeostasis	extracellular region|integral to membrane|nuclear membrane|plasma membrane	thiol oxidase activity			ovary(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;7.78e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.55e-07)		TAGTAAGGAATATTCCAGAAA	0.358													22	30					0	0	1	0	0		C	139107139	C	C	139107139	3	2	73	1	0	0	0	0	1	0	0	0	12909	1396	49	3	887	3	QSOX2	9	139107139	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	428976	139107139	2106292	638	47875											
DNLZ	728489	broad.mit.edu	37	chr9	139256601	139256601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgccacacggtgcacctgctCgcctctggccgtcaggatct	5	8	11	17	4	3	0	1	0	2	0	4	1	3	1	4	3	2	2	4	3	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:139256601C>T	uc004chf.1	-	3	475	c.400G>A	c.(400-402)GAG>AAG	p.E134K	DNLZ_uc011mdv.1_RNA	NM_001080849	NP_001074318	Q5SXM8	DNLZ_HUMAN	DNL-type zinc finger	134	DNL-type.						metal ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.42e-06)|Epithelial(140;3.3e-06)		TGCACCTGCTCGCCTCTGGCC	0.672													9	18					0	0	1	0	0		T	139256601	T	T	139256601	3	4	73	1	0	0	0	0	1	0	0	0	4675	893	31	1	140	1	DNLZ	9	139256601	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	149462	139256601	1956830	639	47876											
SEC16A	9919	broad.mit.edu	37	chr9	139353986	139353986	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggtagcagaagtgggccGcatccaagaggccccttgaa	11	6	14	10	1	0	4	0	2	0	2	1	4	1	4	4	3	1	3	4	3	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:139353986G>A	uc004chx.2	-	16	5522	c.5213C>T	c.(5212-5214)GCG>GTG	p.A1738V	SEC16A_uc004chu.2_5'Flank|SEC16A_uc004chv.3_Missense_Mutation_p.A1128V|SEC16A_uc004chw.2_Missense_Mutation_p.A1738V|SEC16A_uc010nbn.2_Missense_Mutation_p.A1738V	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1560					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GAAGTGGGCCGCATCCAAGAG	0.567													3	7					0	0	1	0	0		A	139353986	A	A	139353986	3	1	73	1	0	0	0	0	1	0	0	0	14011	1087	38	1	1928	1	SEC16A	9	139353986	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	97385	139353986	1859445	640	47877											
PNPLA7	375775	broad.mit.edu	37	chr9	140356679	140356679	+	Frame_Shift_Del	DEL	G	-	-																															agggtgctgtagctgtcgatGggggggcgcaggtactcgca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:140356679delG	uc004cnf.2	-	30	3859	c.3522delC	c.(3520-3522)CCCfs	p.P1174fs	C9orf167_uc011mew.1_Intron|PNPLA7_uc004cnd.1_Frame_Shift_Del_p.P421fs|PNPLA7_uc004cne.1_Frame_Shift_Del_p.P440fs|PNPLA7_uc011mfa.1_Frame_Shift_Del_p.P582fs|PNPLA7_uc010ncj.1_Frame_Shift_Del_p.P1199fs|NELF_uc004cna.2_5'Flank|NELF_uc011mez.1_5'Flank|NELF_uc004cmz.2_5'Flank|NELF_uc004cnc.2_5'Flank|NELF_uc004cnb.2_5'Flank	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	1174					lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		AGCTGTCGATGGGGGGGCGCA	0.652													19	30	---	---	---	---						.	-	140356679	-	-	140356679	7	5	73	1	0	1	0	1	0	0	0	0	12189	1335	47	0	451	0	PNPLA7	9	140356679	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	1002693	140356679	856752	641	47878											
PNPLA7	375775	broad.mit.edu	37	chr9	140437890	140437890	+	Frame_Shift_Del	DEL	T	-	-																															atccccgctcttaccgaacgTttttcagcatgtacagaact																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:140437890delT	uc004cnf.2	-	5	762	c.425delA	c.(424-426)AACfs	p.N142fs	PNPLA7_uc010ncj.1_Frame_Shift_Del_p.N167fs	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	142					lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		TTACCGAACGTTTTTCAGCAT	0.637													36	81	---	---	---	---						.	-	140437890	-	-	140437890	7	5	73	1	0	1	0	1	0	0	0	0	12189	1725	60	0	3648	0	PNPLA7	9	140437890	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	81211	140437890	775541	642	47879											
CACNA1B	774	broad.mit.edu	37	chr9	140901268	140901268	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgtatcacgggatcgaatCgcaaggcggcgtcagcaaag	12	6	14	9	5	2	0	2	0	0	0	4	3	2	1	0	3	1	3	0	3	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:140901268C>T	uc004cog.2	+	16	2169	c.2024C>T	c.(2023-2025)TCG>TTG	p.S675L	CACNA1B_uc011mfd.1_Missense_Mutation_p.S206L	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	675	Extracellular (Potential).|II.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	GGGATCGAATCGCAAGGCGGC	0.572													5	18					0	0	1	0	0		T	140901268	T	T	140901268	3	4	73	1	0	0	0	0	1	0	0	0	2542	893	31	1	2086	1	CACNA1B	9	140901268	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	463378	140901268	312163	643	47880											
CACNA1B	774	broad.mit.edu	37	chr9	140952659	140952659	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatcaccttccaggagcAgggggacaaggtgatgtctg	10	8	13	10	0	3	1	2	1	1	0	4	3	4	3	2	4	1	1	2	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr9:140952659A>C	uc004cog.2	+	28	4410	c.4265A>C	c.(4264-4266)CAG>CCG	p.Q1422P	CACNA1B_uc011mfd.1_Missense_Mutation_p.Q952P|CACNA1B_uc004coi.2_Missense_Mutation_p.Q636P	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	1422	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TTCCAGGAGCAGGGGGACAAG	0.537													29	84					0	0	1	0	0		C	140952659	C	C	140952659	3	2	73	1	0	0	0	0	1	0	0	0	2542	188	7	5	4375	5	CACNA1B	9	140952659	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	51391	140952659	260772	644	47881											
ZMYND11	10771	broad.mit.edu	37	chr10	267248	267248	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaagtgtttgtctgatgaGttcaggcttagagacagcag	10	12	12	7	0	2	3	1	2	1	1	3	4	3	3	1	1	1	4	1	1	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:267248G>C	uc010pzt.1	+	4	818	c.390G>C	c.(388-390)GAG>GAC	p.E130D	ZMYND11_uc001ifk.2_Missense_Mutation_p.E130D|ZMYND11_uc010pzu.1_Missense_Mutation_p.E130D|ZMYND11_uc010pzv.1_Intron|ZMYND11_uc010pzw.1_Intron|ZMYND11_uc001ifm.2_Intron|ZMYND11_uc010pzx.1_Missense_Mutation_p.E130D|ZMYND11_uc001ifn.2_Intron|ZMYND11_uc009xhg.2_Missense_Mutation_p.E113D|ZMYND11_uc009xhh.2_Intron|ZMYND11_uc010pzy.1_Intron	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	90	PHD-type.				cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		TGTCTGATGAGTTCAGGCTTA	0.443													35	85					0	0	1	0	0		C	267248	C	C	267248	3	2	73	1	0	0	0	0	1	0	0	0	17731	1020	36	5	400	5	ZMYND11	10	267248	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08		267248	135267499	645	47882											
GDI2	2665	broad.mit.edu	37	chr10	5827903	5827903	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatacacatctcgcattgTggtcttcttaggatcaatgc	9	15	7	10	1	4	0	1	0	3	0	5	1	4	1	0	2	2	1	0	2	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:5827903T>C	uc001iil.3	-	5	790	c.499A>G	c.(499-501)ACA>GCA	p.T167A	GDI2_uc001iim.3_Missense_Mutation_p.T122A|GDI2_uc009xid.2_Missense_Mutation_p.T171A	NM_001494	NP_001485	P50395	GDIB_HUMAN	GDP dissociation inhibitor 2 isoform 1	167					protein transport|small GTPase mediated signal transduction	cell surface|cytosol|membrane	protein binding|Rab GDP-dissociation inhibitor activity				0						TCTCGCATTGTGGTCTTCTTA	0.363													6	89					0	0	1	0	0		C	5827903	C	C	5827903	3	2	73	1	0	0	0	0	1	0	0	0	6336	1696	59	3	866	3	GDI2	10	5827903	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	5560655	5827903	129706844	646	47883											
FBXO18	84893	broad.mit.edu	37	chr10	5966439	5966439	+	Frame_Shift_Del	DEL	A	-	-																															agagctggtgcaaaggatagAaaaatgccatatagaagatt																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:5966439delA	uc001iis.2	+	17	2659	c.2564delA	c.(2563-2565)GAAfs	p.E855fs	FBXO18_uc001iir.2_Frame_Shift_Del_p.E781fs|FBXO18_uc009xig.2_Frame_Shift_Del_p.E781fs|FBXO18_uc001iit.2_Frame_Shift_Del_p.E906fs	NM_178150	NP_835363	Q8NFZ0	FBX18_HUMAN	F-box only protein, helicase, 18 isoform 2	855					DNA repair	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(2)|skin(1)	3						CAAAGGATAGAAAAATGCCAT	0.443													22	40	---	---	---	---						.	-	5966439	-	-	5966439	7	5	73	1	0	1	0	1	0	0	0	0	5745	246	9	0	2792	0	FBXO18	10	5966439	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	138536	5966439	129568308	647	47884											
CELF2	10659	broad.mit.edu	37	chr10	11356215	11356215	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgaataatattaatgcaCtagcaggtaccatcaacagt	16	10	7	8	0	1	1	1	1	0	0	1	2	1	1	1	1	4	3	1	1	7	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:11356215C>T	uc001iki.3	+	10	1161	c.1069C>T	c.(1069-1071)CTA>TTA	p.L357L	CELF2_uc010qbi.1_Silent_p.L129L|CELF2_uc010qbj.1_Silent_p.L357L|CELF2_uc001ikk.2_Silent_p.L364L|CELF2_uc001ikl.3_Silent_p.L364L|CELF2_uc010qbl.1_Silent_p.L333L|CELF2_uc010qbm.1_Silent_p.L129L|CELF2_uc001iko.3_Silent_p.L333L|CELF2_uc001ikp.3_Silent_p.L333L|CELF2_uc010qbn.1_Silent_p.L341L|CELF2_uc010qbo.1_Silent_p.L246L|CELF2_uc010qbp.1_Silent_p.L129L	NM_001025077	NP_001020248	O95319	CELF2_HUMAN	CUG triplet repeat, RNA binding protein 2	357	Necessary for RNA-binding, TNNT2 exon 5 and NMDA R1 exon 21 inclusion.|Ala-rich.				mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0						TATTAATGCACTAGCAGGTAC	0.512													18	49					0	0	1	0	0		T	11356215	T	T	11356215	2	4	73	1	0	0	0	0	0	0	0	1	3219	564	20	4		4	CELF2	10	11356215	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5389776	11356215	124178532	648	47885											
CAMK1D	57118	broad.mit.edu	37	chr10	12870861	12870861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaggcccaccactgtgaCggcagtgcactctggaagca	10	5	11	15	1	1	1	0	1	1	0	1	2	1	2	3	3	2	3	3	3	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:12870861C>T	uc001ilo.2	+	11	1368	c.1133C>T	c.(1132-1134)ACG>ATG	p.T378M		NM_153498	NP_705718	Q8IU85	KCC1D_HUMAN	calcium/calmodulin-dependent protein kinase ID	378						calcium- and calmodulin-dependent protein kinase complex|cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|stomach(1)	2				GBM - Glioblastoma multiforme(1;3.16e-05)		ACCACTGTGACGGCAGTGCAC	0.667													8	16					0	0	1	0	0		T	12870861	T	T	12870861	3	4	73	1	0	0	0	0	1	0	0	0	2600	536	19	1	1210	1	CAMK1D	10	12870861	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1514646	12870861	122663886	649	47886											
VIM	7431	broad.mit.edu	37	chr10	17277877	17277877	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccaaacttttcctcccTgaacctgaggggtaagcatt	9	13	7	12	0	1	2	0	2	1	0	4	2	4	2	4	2	3	2	4	2	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:17277877T>C	uc001iou.2	+	8	1675	c.1262T>C	c.(1261-1263)CTG>CCG	p.L421P	VIM_uc001iov.1_Missense_Mutation_p.L421P|VIM_uc001iow.1_Intron|VIM_uc001iox.1_Missense_Mutation_p.L421P|VIM_uc001ioy.1_Intron|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_Intron|VIM_uc009xjv.1_Missense_Mutation_p.L379P|VIM_uc001ipc.1_Missense_Mutation_p.L421P	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	421	Tail.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						TTTTCCTCCCTGAACCTGAGG	0.368													9	46					0	0	1	0	0		C	17277877	C	C	17277877	3	2	73	1	0	0	0	0	1	0	0	0	17192	1580	55	3	1288	3	VIM	10	17277877	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4407016	17277877	118256870	650	47887											
ST8SIA6	338596	broad.mit.edu	37	chr10	17363320	17363321	+	Frame_Shift_Ins	INS	-	T	T																															atgtcctccagaaatagggcINSttttttttcctttaagttcc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:17363320_17363321insT	uc001ipd.2	-	8	753_754	c.753_754insA	c.(751-756)AAAGCCfs	p.K251fs	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	251_252	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						AGAAATAGGGCTTTTTTTTCCT	0.347													30	50	---	---	---	---						.	T	17363321	T	T	17363320	7	5	73	1	0	1	1	0	0	0	0	0	15261	797	28	0	446	0	ST8SIA6	10	17363320	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	85443	17363320	118171427	651	47888											
NEBL	10529	broad.mit.edu	37	chr10	21097468	21097468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacggtcttgttacctcaCtgcagcatgaaaagctaggg	11	9	11	10	1	2	2	1	1	1	1	2	2	2	2	1	2	4	4	1	2	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:21097468C>T	uc001iqi.2	-	26	3129	c.2732G>A	c.(2731-2733)AGT>AAT	p.S911N	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	911	Linker.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						TGTTACCTCACTGCAGCATGA	0.433													23	68					0	0	1	0	0		T	21097468	T	T	21097468	3	4	73	1	0	0	0	0	1	0	0	0	10322	565	20	4	324	4	NEBL	10	21097468	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3734148	21097468	114437279	652	47889											
KIAA1217	56243	broad.mit.edu	37	chr10	24835164	24835164	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgccaagggcaccaggAccatccatactcccagcctc	11	5	9	16	0	0	0	0	0	0	0	3	1	2	1	6	3	3	1	6	3	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:24835164A>G	uc001iru.3	+	21	6146	c.5743A>G	c.(5743-5745)ACC>GCC	p.T1915A	KIAA1217_uc001irs.2_Missense_Mutation_p.T1236A|KIAA1217_uc001irt.3_Missense_Mutation_p.T1281A|KIAA1217_uc010qcy.1_Missense_Mutation_p.T1346A|KIAA1217_uc010qcz.1_Missense_Mutation_p.T1321A|KIAA1217_uc001irw.2_3'UTR|KIAA1217_uc001irz.2_3'UTR|KIAA1217_uc001irx.2_3'UTR|KIAA1217_uc001iry.2_3'UTR	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	1915					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						GGGCACCAGGACCATCCATAC	0.373													9	58					0	0	1	0	0		G	24835164	G	G	24835164	3	3	73	1	0	0	0	0	1	0	0	0	8232	275	10	3	5825	3	KIAA1217	10	24835164	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3737696	24835164	110699583	653	47890											
ANKRD26	22852	broad.mit.edu	37	chr10	27306639	27306639	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttttcatagataacaacTcctcttgaagaatttggttc	11	16	6	8	0	2	3	1	1	1	2	4	3	3	3	1	1	2	2	1	1	5	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:27306639T>C	uc001ith.2	-	30	4467	c.4295A>G	c.(4294-4296)GAG>GGG	p.E1432G	ANKRD26_uc001itg.2_Missense_Mutation_p.E1119G|ANKRD26_uc009xku.1_Missense_Mutation_p.E1433G	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1432	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						AGATAACAACTCCTCTTGAAG	0.333													6	51					0	0	1	0	0		C	27306639	C	C	27306639	3	2	73	1	0	0	0	0	1	0	0	0	654	1551	54	3	854	3	ANKRD26	10	27306639	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2471475	27306639	108228108	654	47891											
ANKRD26	22852	broad.mit.edu	37	chr10	27324065	27324065	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttccttcatttgacacTgtgtttggcttaggtccttt	5	19	7	10	0	1	1	1	1	0	0	3	1	3	1	3	2	0	2	3	2	1	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:27324065T>C	uc001ith.2	-	24	3483	c.3311A>G	c.(3310-3312)CAG>CGG	p.Q1104R	ANKRD26_uc001itg.2_Missense_Mutation_p.Q791R|ANKRD26_uc009xku.1_Missense_Mutation_p.Q1105R	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1104	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						CATTTGACACTGTGTTTGGCT	0.383													10	180					0	0	1	0	0		C	27324065	C	C	27324065	3	2	73	1	0	0	0	0	1	0	0	0	654	1580	55	3	1862	3	ANKRD26	10	27324065	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	17426	27324065	108210682	655	47892											
YME1L1	10730	broad.mit.edu	37	chr10	27425268	27425268	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaggtagactggagacgTcgtgtccttgatttcaaagt	9	12	13	7	3	1	3	1	1	0	2	4	5	2	4	1	3	0	1	1	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:27425268T>C	uc001iti.2	-	6	830	c.648A>G	c.(646-648)CGA>CGG	p.R216R	YME1L1_uc001itj.2_Silent_p.R159R|YME1L1_uc010qdl.1_Silent_p.R126R|YME1L1_uc009xkv.2_RNA	NM_139312	NP_647473	Q96TA2	YMEL1_HUMAN	YME1-like 1 isoform 1	216					protein catabolic process|proteolysis	membrane|mitochondrion	ATP binding|metal ion binding|metalloendopeptidase activity|nucleoside-triphosphatase activity			ovary(1)	1						ACTGGAGACGTCGTGTCCTTG	0.348													24	39					0	0	1	0	0		C	27425268	C	C	27425268	2	2	73	1	0	0	0	0	0	0	0	1	17513	1654	58	3		3	YME1L1	10	27425268	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	101203	27425268	108109479	656	47893											
ARMC4	55130	broad.mit.edu	37	chr10	28284024	28284024	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcgaggattccagttccAtgtccggcagcagtccactg	8	11	10	12	2	0	0	0	0	0	0	5	2	4	1	4	2	1	3	4	2	0	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:28284024A>G	uc009xky.2	-	2	146	c.48T>C	c.(46-48)CAT>CAC	p.H16H	ARMC4_uc001itz.2_Silent_p.H16H	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	16							binding			ovary(4)|skin(2)	6						TTCCAGTTCCATGTCCGGCAG	0.468													18	33					0	0	1	0	0		G	28284024	G	G	28284024	2	3	73	1	0	0	0	0	0	0	0	1	954	214	8	3		3	ARMC4	10	28284024	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	858756	28284024	107250723	657	47894											
BMS1	9790	broad.mit.edu	37	chr10	43297643	43297643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgggaagatgataaagatgCagccaaggtcttagcagaag	15	7	14	5	0	1	4	0	1	1	3	1	5	1	5	1	2	3	2	1	2	6	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:43297643C>T	uc001jaj.2	+	13	2664	c.2306C>T	c.(2305-2307)GCA>GTA	p.A769V		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	769					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						GATAAAGATGCAGCCAAGGTC	0.408													26	40					0	0	1	0	0		T	43297643	T	T	43297643	3	4	73	1	0	0	0	0	1	0	0	0	1473	710	25	2	2352	2	BMS1	10	43297643	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	15013619	43297643	92237104	658	47895											
BMS1	9790	broad.mit.edu	37	chr10	43316002	43316002	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagaaaatcctcaagtcccGagatccaatcatattttctg	14	12	5	10	1	3	2	2	0	1	2	6	3	6	2	3	0	0	0	3	0	6	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:43316002G>T	uc001jaj.2	+	17	3174	c.2816G>T	c.(2815-2817)CGA>CTA	p.R939L		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	939					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						CTCAAGTCCCGAGATCCAATC	0.453													21	55					1.50039e-11	1.60985e-11	1	1	0		T	43316002	T	T	43316002	3	4	73	1	0	0	0	0	1	0	0	0	1473	1058	37	5	2878	5	BMS1	10	43316002	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	18359	43316002	92218745	659	47896											
RET	5979	broad.mit.edu	37	chr10	43609082	43609082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcacctgcaactgcttccCtgaggaggagaagtgcttct	8	10	12	11	0	1	2	0	1	1	1	2	4	2	3	2	3	4	4	2	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:43609082C>T	uc001jal.2	+	10	2028	c.1838C>T	c.(1837-1839)CCT>CTT	p.P613L	RET_uc001jak.1_Missense_Mutation_p.P613L|RET_uc010qez.1_Missense_Mutation_p.P359L	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	613	Extracellular (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity	p.F612_C620del(1)		thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	AACTGCTTCCCTGAGGAGGAG	0.647		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				5	17					0	0	1	0	0		T	43609082	T	T	43609082	3	4	73	1	0	0	0	0	1	0	0	0	13260	681	24	4	1876	4	RET	10	43609082	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	293080	43609082	91925665	660	47897											
FRMPD2	143162	broad.mit.edu	37	chr10	49450202	49450202	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagcacggttctctactgAcctcagaaatggtacccaga	14	8	8	11	1	2	3	1	1	1	2	3	3	2	3	2	2	3	3	2	2	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:49450202A>G	uc001jgi.2	-	5	674	c.567_splice	c.e5+1	p.E189_splice	FRMPD2_uc001jgh.2_Splice_Site_p.E158_splice|FRMPD2_uc001jgj.2_Splice_Site_p.E167_splice	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3						tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		TTCTCTACTGACCTCAGAAAT	0.289													35	59					0	0	1	0	0		G	49450202	G	G	49450202	5	3	73	1	0	0	0	0	0	0	1	0	6072	289	10	3	3460	3	FRMPD2	10	49450202	Splice_Site	SNP	A	TCGA-BR-8372-01A-11D-2340-08	5841120	49450202	86084545	661	47898											
C10orf72	196740	broad.mit.edu	37	chr10	50315772	50315772	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagacggagagcctgtagagCgccccccgctgctcctccag	8	5	12	16	3	0	3	0	0	0	3	2	4	2	3	6	1	3	3	6	1	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:50315772C>T	uc001jhf.2	-	2	353	c.324G>A	c.(322-324)GCG>GCA	p.A108A	C10orf72_uc001jhh.2_Silent_p.A108A	NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	108	Ig-like.|Extracellular (Potential).					integral to membrane|plasma membrane					0						GCCTGTAGAGCGCCCCCCGCT	0.612													27	64					0	0	1	0	0		T	50315772	T	T	50315772	2	4	73	1	0	0	0	0	0	0	0	1	1618	755	27	1		1	C10orf72	10	50315772	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	865570	50315772	85218975	662	47899											
PCDH15	65217	broad.mit.edu	37	chr10	55566601	55566601	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagaaaatggcccctttgatAatgtgttcagaggtacattc	12	13	9	7	0	1	3	1	1	0	2	2	3	1	3	2	2	1	2	2	2	5	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:55566601A>G	uc010qhq.1	-	36	5182	c.4787T>C	c.(4786-4788)TTA>TCA	p.L1596S	PCDH15_uc010qhr.1_Missense_Mutation_p.L1591S	NM_001142771	NP_001136243	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD3-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CCCCTTTGATAATGTGTTCAG	0.463										HNSCC(58;0.16)			85	171					0	0	1	0	0		G	55566601	G	G	55566601	3	3	73	1	0	0	0	0	1	0	0	0	11530	372	13	3	265	3	PCDH15	10	55566601	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	5250829	55566601	79968146	663	47900											
ARID5B	84159	broad.mit.edu	37	chr10	63851281	63851281	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaggggcaacccaggcatcAtgtccccactggccaagaaa	12	5	10	14	0	1	1	1	0	0	1	2	1	2	1	4	4	1	2	4	4	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:63851281A>G	uc001jlt.1	+	10	2085	c.2059A>G	c.(2059-2061)ATG>GTG	p.M687V		NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	687					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					CCCAGGCATCATGTCCCCACT	0.527													17	50					0	0	1	0	0		G	63851281	G	G	63851281	3	3	73	1	0	0	0	0	1	0	0	0	922	217	8	3	2097	3	ARID5B	10	63851281	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	8284680	63851281	71683466	664	47901											
JMJD1C	221037	broad.mit.edu	37	chr10	64966903	64966903	+	Frame_Shift_Del	DEL	T	-	-																															gggaggctgaaagtgtctgaTtttttatagcattaggttca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:64966903delT	uc001jmn.2	-	10	4826	c.4526delA	c.(4525-4527)AATfs	p.N1509fs	JMJD1C_uc001jml.2_Frame_Shift_Del_p.N1290fs|JMJD1C_uc001jmm.2_Frame_Shift_Del_p.N1221fs|JMJD1C_uc010qiq.1_Frame_Shift_Del_p.N1327fs|JMJD1C_uc009xpi.2_Frame_Shift_Del_p.N1327fs|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Frame_Shift_Del_p.N546fs	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1509					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					AAGTGTCTGATTTTTTATAGC	0.398													62	121	---	---	---	---						.	-	64966903	-	-	64966903	7	5	73	1	0	1	0	1	0	0	0	0	7966	1493	52	0	3164	0	JMJD1C	10	64966903	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	1115622	64966903	70567844	665	47902											
DNA2	1763	broad.mit.edu	37	chr10	70182529	70182529	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatctccgtgaaaaaaaaAgggggcccagacaaattggt	17	6	10	8	1	1	2	0	1	1	1	2	2	1	2	2	3	0	0	2	3	6	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:70182529A>G	uc001jof.2	-	15	2585	c.2585T>C	c.(2584-2586)CTT>CCT	p.L862P	DNA2_uc001jog.1_Intron|DNA2_uc001joh.1_RNA	NM_001080449	NP_001073918	P51530	DNA2L_HUMAN	DNA replication helicase 2 homolog	776					base-excision repair|DNA replication, removal of RNA primer|mitochondrial DNA repair|mitochondrial DNA replication|positive regulation of DNA replication|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	mitochondrial nucleoid|nucleoplasm	5'-flap endonuclease activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|site-specific endodeoxyribonuclease activity, specific for altered base				0						TGAAAAAAAAAGGGGGCCCAG	0.418													18	29					0	0	1	0	0		G	70182529	G	G	70182529	3	3	73	1	0	0	0	0	1	0	0	0	4602	72	3	3	883	3	DNA2	10	70182529	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	5215626	70182529	65352218	666	47903											
P4HA1	5033	broad.mit.edu	37	chr10	74834629	74834629	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaattcctataattaataTataccagatcatcttggaag	16	13	5	7	0	2	2	1	0	1	2	3	3	3	3	2	1	1	0	2	1	8	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:74834629T>C	uc010qka.1	-	3	347	c.13A>G	c.(13-15)ATA>GTA	p.I5V	P4HA1_uc001jtg.2_Missense_Mutation_p.I5V|P4HA1_uc001jth.2_Missense_Mutation_p.I5V|P4HA1_uc010qkb.1_Missense_Mutation_p.I5V|P4HA1_uc001jti.2_RNA	NM_001142595	NP_001136067	P13674	P4HA1_HUMAN	prolyl 4-hydroxylase, alpha I subunit isoform 2	5						endoplasmic reticulum lumen|mitochondrion	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			ovary(1)	1	Prostate(51;0.0198)				Hydralazine(DB01275)|L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	ATAATTAATATATACCAGATC	0.333													21	31					0	0	1	0	0		C	74834629	C	C	74834629	3	2	73	1	0	0	0	0	1	0	0	0	11375	1406	49	3	1722	3	P4HA1	10	74834629	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4652100	74834629	60700118	667	47904											
NDST2	8509	broad.mit.edu	37	chr10	75564621	75564621	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgcctcttgtcatcacAgggattctgaagccagggcc	7	12	11	11	0	4	1	2	1	2	0	4	2	4	2	3	2	2	0	3	2	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:75564621A>G	uc001jvk.2	-	9	2557	c.1753T>C	c.(1753-1755)TGT>CGT	p.C585R	NDST2_uc010qks.1_Missense_Mutation_p.C211R|NDST2_uc010qkt.1_Missense_Mutation_p.C462R|NDST2_uc001jvl.1_5'Flank|NDST2_uc009xro.2_Missense_Mutation_p.C211R|NDST2_uc010qku.1_Missense_Mutation_p.C460R	NM_003635	NP_003626	P52849	NDST2_HUMAN	heparan glucosaminyl	585	Lumenal (Potential).|Heparan sulfate N-deacetylase 2.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			ovary(1)	1	Prostate(51;0.0112)					TTGTCATCACAGGGATTCTGA	0.333													20	31					0	0	1	0	0		G	75564621	G	G	75564621	3	3	73	1	0	0	0	0	1	0	0	0	10275	188	7	3	926	3	NDST2	10	75564621	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	729992	75564621	59970126	668	47905											
AP3M1	26985	broad.mit.edu	37	chr10	75884257	75884257	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgggagcttttgtggagtaAtttttcccacatcccatgtt	7	17	9	8	0	0	0	0	0	0	0	2	2	2	2	2	2	1	3	2	2	1	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:75884257A>T	uc001jwf.2	-	8	1467	c.1037T>A	c.(1036-1038)ATT>AAT	p.I346N	AP3M1_uc001jwg.2_Missense_Mutation_p.I346N|AP3M1_uc001jwh.2_Missense_Mutation_p.I346N|AP3M1_uc010qla.1_Missense_Mutation_p.I292N	NM_207012	NP_996895	Q9Y2T2	AP3M1_HUMAN	adaptor-related protein complex 3, mu 1 subunit	346	MHD.				protein targeting to lysosome|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus|lysosome	protein binding				0	Prostate(51;0.0112)					TTGTGGAGTAATTTTTCCCAC	0.358													21	47					0	0	1	0	0		T	75884257	T	T	75884257	3	4	73	1	0	0	0	0	1	0	0	0	747	101	4	5	227	5	AP3M1	10	75884257	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	319636	75884257	59650490	669	47906											
MYST4	23522	broad.mit.edu	37	chr10	76780463	76780463	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtatctctaccaccaccAtgagaggcacatcagcatca	13	7	8	13	0	3	1	2	1	1	1	4	3	3	2	3	2	2	3	3	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:76780463A>G	uc001jwn.1	+	14	3246	c.2753A>G	c.(2752-2754)CAT>CGT	p.H918R	MYST4_uc001jwm.1_Missense_Mutation_p.H626R|MYST4_uc001jwo.1_Missense_Mutation_p.H626R|MYST4_uc001jwp.1_Missense_Mutation_p.H735R	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	918	Catalytic.|Interaction with BRPF1.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					TACCACCACCATGAGAGGCAC	0.547			T	CREBBP	AML								19	41					0	0	1	0	0		G	76780463	G	G	76780463	3	3	73	1	0	0	0	0	1	0	0	0	10123	217	8	3	2799	3	MYST4	10	76780463	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	896206	76780463	58754284	670	47907											
KCNMA1	3778	broad.mit.edu	37	chr10	79010963	79010963	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatactcactttgatgaatCtatgaagtatattacaagtg	15	14	7	5	0	2	3	1	3	1	0	2	4	2	3	0	0	2	1	0	0	9	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:79010963C>A	uc001jxn.2	-	3	769	c.592G>T	c.(592-594)GAT>TAT	p.D198Y	KCNMA1_uc001jxj.2_Missense_Mutation_p.D198Y|KCNMA1_uc009xrt.1_5'UTR|KCNMA1_uc001jxo.2_Missense_Mutation_p.D198Y|KCNMA1_uc001jxm.2_Missense_Mutation_p.D198Y|KCNMA1_uc001jxq.2_Missense_Mutation_p.D198Y	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	198	Helical; Name=Segment S1; (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	TTTGATGAATCTATGAAGTAT	0.373											OREG0020289	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	21					0.000673444	0.000683776	1	1	0		A	79010963	A	A	79010963	3	1	73	1	0	0	0	0	1	0	0	0	8089	913	32	5	3394	5	KCNMA1	10	79010963	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2230500	79010963	56523784	671	47908											
CDHR1	92211	broad.mit.edu	37	chr10	85967975	85967975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagctgcccaggccaccGtcccagtcaccatcaggatt	8	6	9	18	1	2	0	2	0	0	0	3	1	3	1	6	2	2	1	6	2	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:85967975G>A	uc001kcv.2	+	11	1009	c.1009G>A	c.(1009-1011)GTC>ATC	p.V337I	CDHR1_uc001kcw.2_Missense_Mutation_p.V337I|CDHR1_uc009xst.2_Missense_Mutation_p.V96I	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	337	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						CCAGGCCACCGTCCCAGTCAC	0.577													4	44					0	0	1	0	0		A	85967975	A	A	85967975	3	1	73	1	0	0	0	0	1	0	0	0	3121	1145	40	1	1051	1	CDHR1	10	85967975	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6957012	85967975	49566772	672	47909											
MMRN2	79812	broad.mit.edu	37	chr10	88717266	88717266	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcagcccccagcccaggggGcccccaaggctgaacagcaa	11	1	12	17	0	0	1	0	1	0	0	0	1	0	1	5	3	5	3	5	3	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:88717266G>C	uc001kea.2	-	1	160	c.33C>G	c.(31-33)GGC>GGG	p.G11G	MMRN2_uc010qmn.1_5'UTR|MMRN2_uc009xtb.2_Silent_p.G11G|SNCG_uc001keb.2_5'Flank	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	11						extracellular space				large_intestine(1)	1						AGCCCAGGGGGCCCCCAAGGC	0.622													35	78					0	0	1	0	0		C	88717266	C	C	88717266	2	2	73	1	0	0	0	0	0	0	0	1	9689	1190	42	5		5	MMRN2	10	88717266	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2749291	88717266	46817481	673	47910											
TNKS2	80351	broad.mit.edu	37	chr10	93579761	93579761	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacagctgttactgcaacaTggagctgatgtccatgctaa	11	11	10	9	0	0	1	0	1	0	0	1	2	1	2	1	1	7	6	1	1	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:93579761T>C	uc001khp.2	+	6	996	c.699T>C	c.(697-699)CAT>CAC	p.H233H		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	233	ANK 4.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				TACTGCAACATGGAGCTGATG	0.318													46	66					0	0	1	0	0		C	93579761	C	C	93579761	2	2	73	1	0	0	0	0	0	0	0	1	16346	1461	51	3		3	TNKS2	10	93579761	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4862495	93579761	41954986	674	47911											
HELLS	3070	broad.mit.edu	37	chr10	96336485	96336485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtaagaaatatttacaaaCggaaagggactttgcagatt	16	11	10	4	1	0	2	0	0	0	2	0	4	0	4	0	3	3	2	0	3	6	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:96336485C>T	uc001kjt.2	+	10	1060	c.955C>T	c.(955-957)CGG>TGG	p.R319W	HELLS_uc001kjs.2_Missense_Mutation_p.R303W|HELLS_uc009xul.2_Missense_Mutation_p.R319W|HELLS_uc009xum.2_Intron|HELLS_uc009xun.2_Missense_Mutation_p.R195W|HELLS_uc009xuo.2_Missense_Mutation_p.R319W|HELLS_uc001kju.2_Intron|HELLS_uc009xup.2_RNA|HELLS_uc009xuq.2_Missense_Mutation_p.R181W|HELLS_uc009xur.2_RNA	NM_018063	NP_060533	Q9NRZ9	HELLS_HUMAN	helicase, lymphoid-specific	319	Helicase ATP-binding.				cell division|centromeric heterochromatin formation|lymphocyte proliferation|maintenance of DNA methylation|methylation-dependent chromatin silencing|mitosis|transcription, DNA-dependent	centromeric heterochromatin|nucleus	ATP binding|DNA binding|helicase activity			ovary(1)|kidney(1)	2		Colorectal(252;0.0429)		all cancers(201;2.13e-05)		TATTTACAAACGGAAAGGGAC	0.348													4	46					0	0	1	0	0		T	96336485	T	T	96336485	3	4	73	1	0	0	0	0	1	0	0	0	7062	527	19	1	993	1	HELLS	10	96336485	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2756724	96336485	39198262	675	47912											
ALDH18A1	5832	broad.mit.edu	37	chr10	97373858	97373858	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaagagccacgtggaaTgatcagatctatcattttgt	11	12	11	7	1	3	3	2	1	1	2	3	5	3	5	1	2	1	0	1	2	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:97373858T>C	uc001kkz.2	-	14	1908	c.1666A>G	c.(1666-1668)ATT>GTT	p.I556V	ALDH18A1_uc001kky.2_Missense_Mutation_p.I554V|ALDH18A1_uc010qog.1_Missense_Mutation_p.I445V|ALDH18A1_uc010qoh.1_Missense_Mutation_p.I344V	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	556	Gamma-glutamyl phosphate reductase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)	CCACGTGGAATGATCAGATCT	0.448													94	169					0	0	1	0	0		C	97373858	C	C	97373858	3	2	73	1	0	0	0	0	1	0	0	0	489	1464	51	3	741	3	ALDH18A1	10	97373858	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1037373	97373858	38160889	676	47913											
C10orf28	27291	broad.mit.edu	37	chr10	100003868	100003868	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaaagcggttggaagccAagcaacgggaagacatctgg	15	4	15	7	2	1	2	0	0	1	2	1	5	1	4	1	4	4	2	1	4	5	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:100003868A>G	uc001kow.3	+	9	2585	c.2290A>G	c.(2290-2292)AAG>GAG	p.K764E	C10orf28_uc001kox.3_Missense_Mutation_p.K778E|C10orf28_uc001koy.3_Missense_Mutation_p.K764E|C10orf28_uc009xvx.2_Missense_Mutation_p.K764E|C10orf28_uc009xvy.2_Missense_Mutation_p.K170E|C10orf28_uc001koz.3_RNA	NM_014472	NP_055287	Q4KMY3	Q4KMY3_HUMAN	growth inhibition and differentiation related	764							nucleotide binding			large_intestine(1)|skin(1)	2		Colorectal(252;0.234)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)		GTTGGAAGCCAAGCAACGGGA	0.403													9	32					0	0	1	0	0		G	100003868	G	G	100003868	3	3	73	1	0	0	0	0	1	0	0	0	1604	131	5	3	2312	3	C10orf28	10	100003868	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2630010	100003868	35530879	677	47914											
PKD2L1	9033	broad.mit.edu	37	chr10	102051105	102051105	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttttcctgttccttctcatCcagaatacgattcccatctc	7	17	3	14	1	2	1	1	0	2	1	8	2	6	1	4	0	1	1	4	0	2	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:102051105C>A	uc001kqx.1	-	12	2343	c.1960G>T	c.(1960-1962)GAT>TAT	p.D654Y	PKD2L1_uc009xwm.1_Missense_Mutation_p.D607Y	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	654	Potential.|Cytoplasmic (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		TCCTTCTCATCCAGAATACGA	0.507													25	55					1.55469e-16	1.70454e-16	1	1	0		A	102051105	A	A	102051105	3	1	73	1	0	0	0	0	1	0	0	0	11986	855	30	5	477	5	PKD2L1	10	102051105	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2047237	102051105	33483642	678	47915											
LBX1	10660	broad.mit.edu	37	chr10	102988546	102988546	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgctcctcccccggcgcCgccttgccgtcctccttgga	1	8	10	22	6	0	0	0	0	0	0	4	1	4	1	9	2	1	1	9	2	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:102988546C>A	uc001ksx.2	-	1	172	c.27G>T	c.(25-27)GCG>GCT	p.A9A	uc010qpy.1_5'Flank	NM_006562	NP_006553	P52954	LBX1_HUMAN	ladybird homeobox 1	9					muscle organ development		sequence-specific DNA binding				0		Colorectal(252;0.234)		Epithelial(162;3.22e-09)|all cancers(201;1.79e-07)		CCCCCGGCGCCGCCTTGCCGT	0.488													5	10					0.00198382	0.00201005	1	1	0		A	102988546	A	A	102988546	2	1	73	1	0	0	0	0	0	0	0	1	8669	639	23	5		5	LBX1	10	102988546	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	937441	102988546	32546201	679	47916											
BTRC	8945	broad.mit.edu	37	chr10	103295124	103295124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttcaggtatggaacacaaGtacttgtgaatttgtaagga	13	14	10	4	0	1	1	1	1	0	0	1	3	1	3	0	3	2	3	0	3	6	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:103295124G>A	uc001kta.2	+	11	1474	c.1361G>A	c.(1360-1362)AGT>AAT	p.S454N	BTRC_uc001ktb.2_Missense_Mutation_p.S418N|BTRC_uc001ktc.2_Missense_Mutation_p.S428N	NM_033637	NP_378663	Q9Y297	FBW1A_HUMAN	beta-transducin repeat containing protein	454	WD 4.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|positive regulation of proteolysis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|viral reproduction|Wnt receptor signaling pathway	cytosol|nucleus|SCF ubiquitin ligase complex				ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;1.05e-08)|all cancers(201;6.59e-07)		TGGAACACAAGTACTTGTGAA	0.413													29	57					0	0	1	0	0		A	103295124	A	A	103295124	3	1	73	1	0	0	0	0	1	0	0	0	1572	1029	36	4	1403	4	BTRC	10	103295124	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	306578	103295124	32239623	680	47917											
HPS6	79803	broad.mit.edu	37	chr10	103826899	103826899	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaataaccgctggaaaggaAccccccaatggaatactgcc	14	5	10	12	1	0	0	0	0	0	0	0	4	0	4	5	4	4	1	5	4	7	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:103826899A>G	uc001kuj.2	+	1	1753	c.1668A>G	c.(1666-1668)GAA>GAG	p.E556E		NM_024747	NP_079023	Q86YV9	HPS6_HUMAN	Hermansky-Pudlak syndrome-6	556						cytosol|early endosome membrane|endoplasmic reticulum|microsome					0		Colorectal(252;0.122)		Epithelial(162;5.93e-08)|all cancers(201;1.03e-06)		CTGGAAAGGAACCCCCCAATG	0.592									Hermansky-Pudlak_syndrome				24	74					0	0	1	0	0		G	103826899	G	G	103826899	2	3	73	1	0	0	0	0	0	0	0	1	7359	40	2	3		3	HPS6	10	103826899	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	531775	103826899	31707848	681	47918											
SUFU	51684	broad.mit.edu	37	chr10	104377154	104377154	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctttgccactgaggagcAtccttacgcggctcatggac	7	9	11	14	3	1	1	1	1	0	0	2	3	2	3	3	3	3	2	3	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:104377154A>G	uc001kvy.1	+	10	1411	c.1265A>G	c.(1264-1266)CAT>CGT	p.H422R	SUFU_uc001kvw.1_Missense_Mutation_p.H422R|SUFU_uc001kvx.2_Missense_Mutation_p.H422R|SUFU_uc009xxe.1_Intron|SUFU_uc009xxf.1_RNA	NM_016169	NP_057253	Q9UMX1	SUFU_HUMAN	suppressor of fused	422					negative regulation of transcription from RNA polymerase II promoter|proteolysis|skeletal system development	cytoplasm|nucleus	identical protein binding|protein binding|signal transducer activity|transcription corepressor activity|transcription factor binding			central_nervous_system(4)|skin(2)|breast(1)	7		Colorectal(252;0.207)		Epithelial(162;1.36e-08)|all cancers(201;3.81e-07)|BRCA - Breast invasive adenocarcinoma(275;0.242)		ACTGAGGAGCATCCTTACGCG	0.532			D|F|S		medulloblastoma	medulloblastoma			Medulloblastoma_associated_with_Germline_SUFU_Mutation				23	67					0	0	1	0	0		G	104377154	G	G	104377154	3	3	73	1	0	0	0	0	1	0	0	0	15393	217	8	3	1303	3	SUFU	10	104377154	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	550255	104377154	31157593	682	47919											
SORCS3	22986	broad.mit.edu	37	chr10	106959852	106959852	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaccaaggaggactatcAgacctggcacctgctcaatc	11	8	9	13	0	2	1	2	0	0	1	3	3	2	3	3	3	2	3	3	3	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:106959852A>G	uc001kyi.1	+	15	2332	c.2105A>G	c.(2104-2106)CAG>CGG	p.Q702R	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	702	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GAGGACTATCAGACCTGGCAC	0.532													36	52					0	0	1	0	0		G	106959852	G	G	106959852	3	3	73	1	0	0	0	0	1	0	0	0	14957	188	7	3	2163	3	SORCS3	10	106959852	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2582698	106959852	28574895	683	47920											
NRAP	4892	broad.mit.edu	37	chr10	115413781	115413781	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatttctagggtgcttaccTcaccaagagactttcgagcc	10	11	8	12	1	2	1	1	0	1	1	3	3	2	1	3	1	3	1	3	1	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:115413781T>G	uc001laj.2	-	5	628	c.464A>C	c.(463-465)GAG>GCG	p.E155A	NRAP_uc001lak.2_Missense_Mutation_p.E155A|NRAP_uc001lal.3_Missense_Mutation_p.E155A	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	155						fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		GGTGCTTACCTCACCAAGAGA	0.413													50	129					0	0	1	0	0		G	115413781	G	G	115413781	3	3	73	1	0	0	0	0	1	0	0	0	10657	1565	54	5	4880	5	NRAP	10	115413781	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	8453929	115413781	20120966	684	47921											
TRUB1	142940	broad.mit.edu	37	chr10	116702484	116702484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggagggactctagacagcGcagcccgaggagttctgggt	9	7	16	9	2	2	1	0	0	2	1	2	5	2	4	1	4	2	2	1	4	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:116702484G>A	uc001lcd.2	+	2	428	c.367G>A	c.(367-369)GCA>ACA	p.A123T	TRUB1_uc010qsl.1_Missense_Mutation_p.A25T	NM_139169	NP_631908	Q8WWH5	TRUB1_HUMAN	TruB pseudouridine (psi) synthase homolog 1	123					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding				0		Colorectal(252;0.09)|Breast(234;0.174)|Lung NSC(174;0.245)		Epithelial(162;0.00879)|all cancers(201;0.0243)		TCTAGACAGCGCAGCCCGAGG	0.448													12	23					0	0	1	0	0		A	116702484	A	A	116702484	3	1	73	1	0	0	0	0	1	0	0	0	16628	1087	38	1	373	1	TRUB1	10	116702484	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1288703	116702484	18832263	685	47922											
KIAA1598	57698	broad.mit.edu	37	chr10	118687324	118687324	+	Frame_Shift_Del	DEL	G	-	-																															ggataggattgggaggtggaGggggaagtggtggtggagga																								rs139468743		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:118687324delG	uc009xyw.2	-	11	1589	c.1091delC	c.(1090-1092)CCTfs	p.P364fs	KIAA1598_uc001lcz.3_Frame_Shift_Del_p.P364fs|KIAA1598_uc010qso.1_Frame_Shift_Del_p.P304fs|KIAA1598_uc010qsp.1_Frame_Shift_Del_p.P364fs|KIAA1598_uc010qsq.1_Frame_Shift_Del_p.P304fs|KIAA1598_uc001lcy.3_Frame_Shift_Del_p.P334fs	NM_001127211	NP_001120683	A0MZ66	SHOT1_HUMAN	shootin1 isoform a	364	Pro-rich.				axon guidance	axon					0				all cancers(201;0.00494)		Gggaggtggagggggaagtgg	0.333													34	79	---	---	---	---						.	-	118687324	-	-	118687324	7	5	73	1	0	1	0	1	0	0	0	0	8262	1000	35	0	832	0	KIAA1598	10	118687324	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	1984840	118687324	16847423	686	47923											
PPAPDC1A	196051	broad.mit.edu	37	chr10	122348993	122348993	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cccagcttgcctctggagggGatcaccgaaggcccggtatg	7	7	14	13	2	2	0	1	0	1	0	2	3	2	2	4	5	2	2	4	5	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:122348993G>A	uc001lev.1	+	7	1147	c.795G>A	c.(793-795)GGG>GGA	p.G265G	PPAPDC1A_uc009xzl.1_Silent_p.G202G|PPAPDC1A_uc001lew.1_3'UTR|PPAPDC1A_uc001lex.1_3'UTR|PPAPDC1A_uc001ley.1_Silent_p.G144G	NM_001030059	NP_001025230	Q5VZY2	PPC1A_HUMAN	phosphatidic acid phosphatase type 2 domain	265					phospholipid dephosphorylation	integral to membrane	phosphatidate phosphatase activity			breast(1)	1		Lung NSC(174;0.1)|all_lung(145;0.132)		all cancers(201;0.0117)		CTCTGGAGGGGATCACCGAAG	0.557													11	36					0	0	1	0	0		A	122348993	A	A	122348993	2	1	73	1	0	0	0	0	0	0	0	1	12312	1161	41	4		4	PPAPDC1A	10	122348993	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3661669	122348993	13185754	687	47924											
BTBD16	118663	broad.mit.edu	37	chr10	124050682	124050682	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgctggcttccgcccacaTcctccagttcagtggcctgt	5	11	10	15	1	1	0	1	0	0	0	4	0	4	0	5	2	1	3	5	2	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:124050682T>G	uc001lgc.1	+	7	814	c.563T>G	c.(562-564)ATC>AGC	p.I188S	BTBD16_uc001lgd.1_Missense_Mutation_p.I187S	NM_144587	NP_653188	Q32M84	BTBDG_HUMAN	BTB (POZ) domain containing 16	188	BTB.									skin(1)	1		all_neural(114;0.107)|Lung NSC(174;0.175)|all_lung(145;0.222)|Breast(234;0.238)				TCCGCCCACATCCTCCAGTTC	0.572													7	92					0	0	1	0	0		G	124050682	G	G	124050682	3	3	73	1	0	0	0	0	1	0	0	0	1544	1435	50	5	585	5	BTBD16	10	124050682	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1701689	124050682	11484065	688	47925											
C10orf90	118611	broad.mit.edu	37	chr10	128193497	128193497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgaatgttgactccgctgCggttagccagagattgcttg	7	13	13	8	2	0	3	0	2	0	1	1	4	1	3	2	1	3	4	2	1	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:128193497C>T	uc001ljq.2	-	3	393	c.272G>A	c.(271-273)CGC>CAC	p.R91H	C10orf90_uc001ljp.2_Missense_Mutation_p.R44H|C10orf90_uc010qum.1_Missense_Mutation_p.R188H|C10orf90_uc009yao.2_Missense_Mutation_p.R188H|C10orf90_uc001ljs.1_Missense_Mutation_p.R44H	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	91										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		GACTCCGCTGCGGTTAGCCAG	0.552													42	67					0	0	1	0	0		T	128193497	T	T	128193497	3	4	73	1	0	0	0	0	1	0	0	0	1626	768	27	1	1855	1	C10orf90	10	128193497	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4142815	128193497	7341250	689	47926											
FOXI2	399823	broad.mit.edu	37	chr10	129537128	129537128	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccacccacgctccccagAcccttaacccctcccctggc	6	6	5	24	2	0	1	0	0	0	1	3	1	2	1	9	1	1	1	9	1	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:129537128A>G	uc009yas.2	+	2	856	c.856A>G	c.(856-858)ACC>GCC	p.T286A	uc009yar.1_5'Flank	NM_207426	NP_997309	Q6ZQN5	FOXI2_HUMAN	forkhead box I2	286					epidermal cell fate specification|otic placode formation|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		all_epithelial(44;0.0021)|all_lung(145;0.0586)|Lung NSC(174;0.0765)|all_neural(114;0.201)|Glioma(114;0.222)				CGCTCCCCAGACCCTTAACCC	0.706													4	9					0	0	1	0	0		G	129537128	G	G	129537128	3	3	73	1	0	0	0	0	1	0	0	0	6024	275	10	3	862	3	FOXI2	10	129537128	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1343631	129537128	5997619	690	47927											
DPYSL4	10570	broad.mit.edu	37	chr10	134014423	134014423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggcaaggacaacttcgCgctgatccccgagggcacca	9	6	13	13	3	0	1	0	1	0	0	2	3	1	2	3	3	1	3	3	3	2	1	rs148495220	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr10:134014423C>T	uc009ybb.2	+	10	1200	c.1046C>T	c.(1045-1047)GCG>GTG	p.A349V		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	349					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		GACAACTTCGCGCTGATCCCC	0.647													8	24					0	0	1	0	0		T	134014423	T	T	134014423	3	4	73	1	0	0	0	0	1	0	0	0	4755	768	27	1	1084	1	DPYSL4	10	134014423	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4477295	134014423	1520324	691	47928											
MUC5B	727897	broad.mit.edu	37	chr11	1272703	1272703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtgcccaccggttccacgGccaccgcctcctccactctg	4	8	9	20	3	1	0	0	0	1	0	4	0	4	0	8	3	1	1	8	3	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:1272703G>A	uc009ycr.1	+	52	15685	c.15559G>A	c.(15559-15561)GCC>ACC	p.A5187T	MUC5B_uc001ltb.2_Missense_Mutation_p.A4868T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4865	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CGGTTCCACGGCCACCGCCTC	0.647													15	43					0	0	1	0	0		A	1272703	A	A	1272703	3	1	73	1	0	0	0	0	1	0	0	0	9997	1203	42	2	14724	2	MUC5B	11	1272703	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08		1272703	133733813	692	47929											
MUC5B	727897	broad.mit.edu	37	chr11	1275371	1275371	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattccacctttgacggcacCtcttacaccttccggggcaa	8	11	7	15	2	1	1	0	1	1	0	3	1	3	1	5	3	1	2	5	3	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:1275371C>A	uc009ycr.1	+	55	16398	c.16272C>A	c.(16270-16272)ACC>ACA	p.T5424T	MUC5B_uc001ltb.2_Silent_p.T5092T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5089	VWFD 4.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		TTGACGGCACCTCTTACACCT	0.602													11	29					0.000673444	0.000683776	1	1	0		A	1275371	A	A	1275371	2	1	73	1	0	0	0	0	0	0	0	1	9997	668	24	5		5	MUC5B	11	1275371	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2668	1275371	133731145	693	47930											
KRTAP5-5	439915	broad.mit.edu	37	chr11	1651322	1651322	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgttcctgctccagctgTggcaaagggggctgtggctc	4	11	15	11	0	0	0	0	0	0	0	3	0	2	0	2	4	2	7	2	4	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:1651322T>C	uc001lty.2	+	1	290	c.252T>C	c.(250-252)TGT>TGC	p.C84C		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	84	8 X 4 AA repeats of C-C-X-P.					keratin filament				lung(1)	1		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GCTCCAGCTGTGGCAAAGGGG	0.542													21	136					0	0	1	0	0		C	1651322	C	C	1651322	2	2	73	1	0	0	0	0	0	0	0	1	8580	1702	59	3		3	KRTAP5-5	11	1651322	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	375951	1651322	133355194	694	47931											
OR52R1	119695	broad.mit.edu	37	chr11	4825323	4825323	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggatgaggcaggcatggtaCtgaatctcatgagcatgaaa	13	9	13	6	0	1	4	1	4	1	0	2	5	1	5	0	4	2	4	0	4	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:4825323C>T	uc010qym.1	-	1	525	c.525G>A	c.(523-525)CAG>CAA	p.Q175Q		NM_001005177	NP_001005177	Q8NGF1	O52R1_HUMAN	olfactory receptor, family 52, subfamily R,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0184)|all_neural(188;0.0227)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGGCATGGTACTGAATCTCAT	0.522													20	60					0	0	1	0	0		T	4825323	T	T	4825323	2	4	73	1	0	0	0	0	0	0	0	1	11150	564	20	4		4	OR52R1	11	4825323	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3174001	4825323	130181193	695	47932											
OR51S1	119692	broad.mit.edu	37	chr11	4869564	4869564	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagaatagggtttatcaatGgaggaagaaggaaatggaca	18	7	14	2	0	1	2	1	0	0	2	1	7	1	6	0	5	0	1	0	5	7	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:4869564G>T	uc010qyo.1	-	1	875	c.875C>A	c.(874-876)CCA>CAA	p.P292Q		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	292	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		GTTTATCAATGGAGGAAGAAG	0.443													36	82					1.45844e-13	1.57997e-13	1	1	0		T	4869564	T	T	4869564	3	4	73	1	0	0	0	0	1	0	0	0	11124	1348	47	5	99	5	OR51S1	11	4869564	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	44241	4869564	130136952	696	47933											
OR51L1	119682	broad.mit.edu	37	chr11	5020966	5020966	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccatatctgtgtggtgcttAtcttctttgtgccagttatt	5	19	8	9	0	3	0	0	0	3	0	3	0	3	0	2	1	2	2	2	1	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:5020966A>G	uc010qyu.1	+	1	754	c.754A>G	c.(754-756)ATC>GTC	p.I252V		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	252	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		TGTGGTGCTTATCTTCTTTGT	0.443													16	47					0	0	1	0	0		G	5020966	G	G	5020966	3	3	73	1	0	0	0	0	1	0	0	0	11121	449	16	3	756	3	OR51L1	11	5020966	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	151402	5020966	129985550	697	47934											
OR51I2	390064	broad.mit.edu	37	chr11	5474940	5474940	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagtgatgtggccatatcCatggccacactgcccactgt	8	11	9	13	0	1	1	1	1	0	0	2	1	2	1	4	2	1	0	4	2	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:5474940C>A	uc010qzf.1	+	1	222	c.222C>A	c.(220-222)TCC>TCA	p.S74S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004754	NP_001004754	Q9H344	O51I2_HUMAN	olfactory receptor, family 51, subfamily I,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.09e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGGCCATATCCATGGCCACAC	0.498													42	69					2.40579e-17	2.64965e-17	1	1	0		A	5474940	A	A	5474940	2	1	73	1	0	0	0	0	0	0	0	1	11120	581	21	5		5	OR51I2	11	5474940	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	453974	5474940	129531576	698	47935											
TRIM5	85363	broad.mit.edu	37	chr11	5701098	5701098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgtcctcctgacagaagaGtagaagtttctctccatggc	9	10	9	13	1	1	4	0	1	1	3	5	4	4	4	4	1	0	2	4	1	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:5701098G>A	uc001mbm.1	-	2	567	c.310C>T	c.(310-312)CTC>TTC	p.L104F	TRIM5_uc001mbq.1_Missense_Mutation_p.L104F|TRIM5_uc001mbl.1_RNA|TRIM5_uc001mbn.2_Missense_Mutation_p.L104F|TRIM5_uc001mbo.2_Missense_Mutation_p.L104F|TRIM5_uc001mbp.2_Missense_Mutation_p.L104F	NM_033034	NP_149023	Q9C035	TRIM5_HUMAN	tripartite motif protein TRIM5 isoform alpha	104	B box-type.				interspecies interaction between organisms|protein trimerization|response to virus	cytoplasm|cytoplasmic mRNA processing body	ligase activity|protein binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)|Lung NSC(207;0.138)|all_lung(207;0.221)		Epithelial(150;7.21e-09)|BRCA - Breast invasive adenocarcinoma(625;0.139)		TGACAGAAGAGTAGAAGTTTC	0.552													47	81					0	0	1	0	0		A	5701098	A	A	5701098	3	1	73	1	0	0	0	0	1	0	0	0	16551	1029	36	4	1438	4	TRIM5	11	5701098	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	226158	5701098	129305418	699	47936											
OR52E8	390079	broad.mit.edu	37	chr11	5878034	5878034	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcgaatctgctttgtcCtgactccatagattacagga	9	14	7	11	1	2	2	0	1	2	1	6	4	4	3	2	1	2	1	2	1	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:5878034C>A	uc010qzr.1	-	1	899	c.899G>T	c.(898-900)AGG>ATG	p.R300M	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTGCTTTGTCCTGACTCCATA	0.428													46	121					1.86277e-20	2.07196e-20	1	1	0		A	5878034	A	A	5878034	3	1	73	1	0	0	0	0	1	0	0	0	11137	681	24	5	56	5	OR52E8	11	5878034	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	176936	5878034	129128482	700	47937											
NRIP3	56675	broad.mit.edu	37	chr11	9005620	9005620	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagtggagtcaatcttaccTtcagagatcggagagtctgt	11	12	11	7	1	4	2	2	0	2	2	5	5	4	3	1	2	1	0	1	2	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:9005620T>C	uc001mhg.2	-	5	728	c.614A>G	c.(613-615)AAG>AGG	p.K205R	NRIP3_uc010rbu.1_3'UTR	NM_020645	NP_065696	Q9NQ35	NRIP3_HUMAN	nuclear receptor interacting protein 3	205					proteolysis		aspartic-type endopeptidase activity				0				Epithelial(150;4.77e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0241)		CAATCTTACCTTCAGAGATCG	0.393													14	131					0	0	1	0	0		C	9005620	C	C	9005620	3	2	73	1	0	0	0	0	1	0	0	0	10673	1623	56	3	123	3	NRIP3	11	9005620	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	3127586	9005620	126000896	701	47938											
SCUBE2	57758	broad.mit.edu	37	chr11	9100944	9100944	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttaccaagacaattatgAccgtcatgagccaacatgaa	15	9	6	11	1	1	4	1	3	0	1	2	4	2	4	4	0	3	0	4	0	6	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:9100944A>G	uc001mhh.1	-	3	449	c.369T>C	c.(367-369)GGT>GGC	p.G123G	SCUBE2_uc001mhi.1_Silent_p.G123G|SCUBE2_uc001mhj.1_Silent_p.G123G	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	123	EGF-like 2; calcium-binding (Potential).					extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		GACAATTATGACCGTCATGAG	0.443													32	55					0	0	1	0	0		G	9100944	G	G	9100944	2	3	73	1	0	0	0	0	0	0	0	1	13970	262	10	3		3	SCUBE2	11	9100944	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	95324	9100944	125905572	702	47939											
SBF2	81846	broad.mit.edu	37	chr11	9875116	9875116	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaatgaaggctcttgatgTgatcctgagtaactccactc	10	12	9	10	0	1	4	0	4	1	0	4	4	3	4	2	1	2	3	2	1	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:9875116T>C	uc001mib.2	-	20	2645	c.2507A>G	c.(2506-2508)CAC>CGC	p.H836R	SBF2_uc001mif.3_Missense_Mutation_p.H592R|uc001mig.2_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	836					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		GCTCTTGATGTGATCCTGAGT	0.378													52	86					0	0	1	0	0		C	9875116	C	C	9875116	3	2	73	1	0	0	0	0	1	0	0	0	13884	1696	59	3	3126	3	SBF2	11	9875116	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	774172	9875116	125131400	703	47940											
CTR9	9646	broad.mit.edu	37	chr11	10785668	10785668	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttatcccagggccatttgAagaaggtcacagaacagtat	13	11	9	8	0	1	3	1	1	0	2	2	3	2	3	2	2	1	1	2	2	5	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:10785668A>G	uc001mja.2	+	10	1353	c.1204A>G	c.(1204-1206)AAG>GAG	p.K402E		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	402					histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		GGGCCATTTGAAGAAGGTCAC	0.353													30	55					0	0	1	0	0		G	10785668	G	G	10785668	3	3	73	1	0	0	0	0	1	0	0	0	4027	247	9	3	1242	3	CTR9	11	10785668	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	910552	10785668	124220848	704	47941											
MICAL2	9645	broad.mit.edu	37	chr11	12245002	12245002	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagctggagcactaccctctCgagagactgggctcggtgag	8	7	15	11	2	1	2	0	1	1	1	3	6	1	3	1	3	3	3	1	3	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:12245002C>T	uc001mjz.2	+	12	1782	c.1494C>T	c.(1492-1494)CTC>CTT	p.L498L	MICAL2_uc010rch.1_Silent_p.L498L|MICAL2_uc001mka.2_Silent_p.L498L|MICAL2_uc010rci.1_Silent_p.L498L|MICAL2_uc001mkb.2_Silent_p.L498L|MICAL2_uc001mkc.2_Silent_p.L498L|MICAL2_uc001mkd.2_Silent_p.L327L|MICAL2_uc010rcj.1_5'UTR	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	498						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		ACTACCCTCTCGAGAGACTGG	0.557													25	63					0	0	1	0	0		T	12245002	T	T	12245002	2	4	73	1	0	0	0	0	0	0	0	1	9588	871	31	1		1	MICAL2	11	12245002	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1459334	12245002	122761514	705	47942											
COPB1	1315	broad.mit.edu	37	chr11	14498463	14498463	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttactaaagtaaaacatAcctctccaagggacctgcgg	14	9	7	11	1	1	0	0	0	1	0	2	1	1	1	3	2	4	1	3	2	7	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:14498463A>G	uc001mli.2	-	12	1762	c.1455_splice	c.e12+1	p.E485_splice	COPB1_uc001mlg.2_Splice_Site_p.E485_splice|COPB1_uc001mlh.2_Splice_Site_p.E485_splice	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1						COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						AGTAAAACATACCTCTCCAAG	0.363													28	68					0	0	1	0	0		G	14498463	G	G	14498463	5	3	73	1	0	0	0	0	0	0	1	0	3731	405	14	3	1448	3	COPB1	11	14498463	Splice_Site	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2253461	14498463	120508053	706	47943											
PDE3B	5140	broad.mit.edu	37	chr11	14865502	14865502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgatggctctatacgtggCagctgccatgcatgattatg	9	13	11	8	1	1	2	0	2	1	0	1	2	1	2	1	2	4	4	1	2	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:14865502C>T	uc001mln.2	+	12	2803	c.2450C>T	c.(2449-2451)GCA>GTA	p.A817V	PDE3B_uc010rcr.1_Missense_Mutation_p.A766V	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	817	Catalytic (By similarity).				cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						CTATACGTGGCAGCTGCCATG	0.413													46	93					0	0	1	0	0		T	14865502	T	T	14865502	3	4	73	1	0	0	0	0	1	0	0	0	11657	710	25	2	2496	2	PDE3B	11	14865502	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	367039	14865502	120141014	707	47944											
ABCC8	6833	broad.mit.edu	37	chr11	17419241	17419241	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccgctcaccattagggcgTaggtaaggcccaggcccacc	8	6	12	15	2	1	0	1	0	0	0	1	0	1	0	5	4	1	3	5	4	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:17419241T>C	uc001mnc.2	-	31	3983	c.3857A>G	c.(3856-3858)TAC>TGC	p.Y1286C		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1286	Helical; Name=17; (By similarity).|ABC transmembrane type-1 2.				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	CATTAGGGCGTAGGTAAGGCC	0.627													9	14					0	0	1	0	0		C	17419241	C	C	17419241	3	2	73	1	0	0	0	0	1	0	0	0	58	1638	57	3	924	3	ABCC8	11	17419241	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2553739	17419241	117587275	708	47945											
ABCC8	6833	broad.mit.edu	37	chr11	17424231	17424231	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcccggatggtggtgagTccttctacggtttcggcaaa	8	10	14	9	3	1	1	0	1	1	0	3	2	2	2	2	6	1	2	2	6	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:17424231T>C	uc001mnc.2	-	29	3753	c.3627A>G	c.(3625-3627)GGA>GGG	p.G1209G		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1209	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	TGGTGGTGAGTCCTTCTACGG	0.517													6	85					0	0	1	0	0		C	17424231	C	C	17424231	2	2	73	1	0	0	0	0	0	0	0	1	58	1654	58	3		3	ABCC8	11	17424231	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4990	17424231	117582285	709	47946											
MRGPRX1	259249	broad.mit.edu	37	chr11	18956195	18956195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggagccagagcacaactGcgtttcctgtcagcccgaca	10	6	10	15	2	1	1	1	0	0	1	2	3	2	2	4	1	5	2	4	1	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:18956195G>A	uc001mpg.2	-	1	355	c.137C>T	c.(136-138)GCA>GTA	p.A46V		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	46	Helical; Name=1; (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						GAGCACAACTGCGTTTCCTGT	0.582													78	112					0	0	1	0	0		A	18956195	A	A	18956195	3	1	73	1	0	0	0	0	1	0	0	0	9784	1319	46	2	835	2	MRGPRX1	11	18956195	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1531964	18956195	116050321	710	47947											
PAX6	5080	broad.mit.edu	37	chr11	31812409	31812409	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggctggggactgggggCtgtgaggagagaggcaaacc	8	6	20	7	0	1	2	0	1	1	1	1	5	1	4	1	7	1	3	1	7	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:31812409C>T	uc001mtd.3	-	11	1923	c.1033_splice	c.e11-1	p.P345_splice	PAX6_uc001mte.3_Splice_Site_p.P345_splice|PAX6_uc001mtg.3_Splice_Site_p.P359_splice|PAX6_uc001mtf.3_Splice_Site_p.P345_splice|PAX6_uc001mth.3_Splice_Site_p.P345_splice|PAX6_uc009yjr.2_Splice_Site_p.P345_splice	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a						blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					GGACTGGGGGCTGTGAGGAGA	0.587									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				11	24					0	0	1	0	0		T	31812409	T	T	31812409	5	4	73	1	0	0	0	0	0	0	1	0	11502	811	28	2	244	2	PAX6	11	31812409	Splice_Site	SNP	C	TCGA-BR-8372-01A-11D-2340-08	12856214	31812409	103194107	711	47948											
PRR5L	79899	broad.mit.edu	37	chr11	36458986	36458986	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaccacttcttcactgAgactctccctaccctgcagg	7	10	8	16	0	3	1	1	1	2	1	4	3	3	2	3	2	2	1	3	2	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:36458986A>T	uc001mwo.3	+	6	793	c.404A>T	c.(403-405)GAG>GTG	p.E135V	PRR5L_uc001mwp.2_Missense_Mutation_p.E135V|PRR5L_uc009ykk.2_Missense_Mutation_p.E54V|PRR5L_uc010rfc.1_Missense_Mutation_p.E135V	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	135										ovary(1)	1						TTCTTCACTGAGACTCTCCCT	0.498													41	80					0	0	1	0	0		T	36458986	T	T	36458986	3	4	73	1	0	0	0	0	1	0	0	0	12624	304	11	5	428	5	PRR5L	11	36458986	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	4646577	36458986	98547530	712	47949											
C11orf74	119710	broad.mit.edu	37	chr11	36654929	36654929	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataaaaatgaagcagatgacTaccatcttagaaataaaacc	21	8	5	7	0	1	4	0	2	1	2	1	4	1	4	2	0	3	1	2	0	9	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:36654929T>C	uc001mwy.1	+	3	305	c.232T>C	c.(232-234)TAC>CAC	p.Y78H	C11orf74_uc010rfd.1_RNA|C11orf74_uc001mww.1_Intron|C11orf74_uc001mwx.1_Intron|C11orf74_uc001mwz.1_Intron|C11orf74_uc010rfe.1_RNA	NM_138787	NP_620142	Q86VG3	CK074_HUMAN	hypothetical protein LOC119710	78											0	all_lung(20;0.226)	all_hematologic(20;0.0118)				AGCAGATGACTACCATCTTAG	0.348													16	38					0	0	1	0	0		C	36654929	C	C	36654929	3	2	73	1	0	0	0	0	1	0	0	0	1665	1522	53	3	238	3	C11orf74	11	36654929	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	195943	36654929	98351587	713	47950											
ALX4	60529	broad.mit.edu	37	chr11	44286581	44286581	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacgtgactgccagccccAgacacactcaggaagtcggt	10	5	10	16	2	1	2	1	1	0	1	2	3	1	3	4	2	2	0	4	2	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:44286581A>C	uc001myb.2	-	4	1163	c.1059T>G	c.(1057-1059)TCT>TCG	p.S353S		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	353					hair follicle development						0						TGCCAGCCCCAGACACACTCA	0.687													6	36					0	0	1	0	0		C	44286581	C	C	44286581	2	2	73	1	0	0	0	0	0	0	0	1	558	175	7	5		5	ALX4	11	44286581	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	7631652	44286581	90719935	714	47951											
ZNF408	79797	broad.mit.edu	37	chr11	46726476	46726477	+	Frame_Shift_Ins	INS	-	C	C																															caccgtggggtgcggcccttINScccctgtccacaatgcgaca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:46726476_46726477insC	uc001nde.1	+	5	1456_1457	c.1226_1227insC	c.(1225-1227)TTCfs	p.F409fs	ZNF408_uc010rgw.1_Frame_Shift_Ins_p.F401fs	NM_024741	NP_079017	Q9H9D4	ZN408_HUMAN	zinc finger protein 408	409	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding				0						GTGCGGCCCTTCCCCTGTCCAC	0.589													42	83	---	---	---	---						.	C	46726477	C	C	46726476	7	5	73	1	0	1	1	0	0	0	0	0	17913	1783	62	0	1276	0	ZNF408	11	46726476	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	2439895	46726476	88280040	715	47952											
MADD	8567	broad.mit.edu	37	chr11	47312236	47312236	+	Frame_Shift_Del	DEL	G	-	-																															ggatcctggcctagctgggcGgggggacccaaaggctatgg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:47312236delG	uc001ner.1	+	20	3421	c.3230delG	c.(3229-3231)CGGfs	p.R1077fs	MADD_uc001neq.2_Frame_Shift_Del_p.R1057fs|MADD_uc001nev.1_Frame_Shift_Del_p.R1014fs|MADD_uc001nes.1_Frame_Shift_Del_p.R1034fs|MADD_uc001net.1_Frame_Shift_Del_p.R1077fs|MADD_uc009yln.1_Frame_Shift_Del_p.R1014fs|MADD_uc001neu.1_Frame_Shift_Del_p.R1014fs|MADD_uc001nex.2_Frame_Shift_Del_p.R1077fs|MADD_uc001nez.2_Frame_Shift_Del_p.R1014fs|MADD_uc001new.2_Frame_Shift_Del_p.R1057fs|MADD_uc009ylo.2_5'UTR	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	1077					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		CTAGCTGGGCGGGGGGACCCA	0.532													31	50	---	---	---	---						.	-	47312236	-	-	47312236	7	5	73	1	0	1	0	1	0	0	0	0	9170	1116	39	0	3304	0	MADD	11	47312236	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	585760	47312236	87694280	716	47953											
NUP160	23279	broad.mit.edu	37	chr11	47827804	47827804	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgagagaagaggtgagatAtaatgtgttttcttgcaact	12	13	12	4	0	1	4	0	2	1	3	1	6	1	4	0	1	2	3	0	1	4	5	rs144790017		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:47827804A>T	uc001ngm.2	-	20	2592	c.2507T>A	c.(2506-2508)ATA>AAA	p.I836K	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	836					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						GAGGTGAGATATAATGTGTTT	0.368													25	58					0	0	1	0	0		T	47827804	T	T	47827804	3	4	73	1	0	0	0	0	1	0	0	0	10776	449	16	5	1871	5	NUP160	11	47827804	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	515568	47827804	87178712	717	47954											
OR4X2	119764	broad.mit.edu	37	chr11	48266720	48266720	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagagggtttgctttgtgaTatttctgttcttgtacacag	7	17	11	6	0	2	2	0	1	2	1	2	2	2	2	0	1	2	5	0	1	2	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:48266720T>C	uc001ngs.1	+	1	65	c.65T>C	c.(64-66)ATA>ACA	p.I22T		NM_001004727	NP_001004727	Q8NGF9	OR4X2_HUMAN	olfactory receptor, family 4, subfamily X,	22	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGCTTTGTGATATTTCTGTTC	0.453													8	132					0	0	1	0	0		C	48266720	C	C	48266720	3	2	73	1	0	0	0	0	1	0	0	0	11104	1406	49	3	67	3	OR4X2	11	48266720	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	438916	48266720	86739796	718	47955											
OR5D13	390142	broad.mit.edu	37	chr11	55541797	55541797	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccattgatctacagccttaGgaacaaagatatcaataaca	17	9	5	10	0	2	2	1	1	1	1	2	3	2	3	2	1	4	0	2	1	7	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:55541797G>T	uc010ril.1	+	1	884	c.884G>T	c.(883-885)AGG>ATG	p.R295M		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	295	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				TACAGCCTTAGGAACAAAGAT	0.348													18	36					5.01169e-05	5.13152e-05	1	1	0		T	55541797	T	T	55541797	3	4	73	1	0	0	0	0	1	0	0	0	11173	1000	35	5	886	5	OR5D13	11	55541797	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	7275077	55541797	79464719	719	47956											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57070273	57070273	+	Frame_Shift_Del	DEL	G	-	-																															ggccctgggagccggagggtGgggggcgggccgggcacctg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:57070273delG	uc001njr.2	-	6	4655	c.4343delC	c.(4342-4344)CCAfs	p.P1448fs	TNKS1BP1_uc001njp.2_Frame_Shift_Del_p.P20fs|TNKS1BP1_uc001njq.2_Frame_Shift_Del_p.P20fs|TNKS1BP1_uc001njs.2_Frame_Shift_Del_p.P1448fs	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	1448	Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GCCGGAGGGTGGGGGGCGGGC	0.682													4	5	---	---	---	---						.	-	57070273	-	-	57070273	7	5	73	1	0	1	0	1	0	0	0	0	16345	1348	47	0	866	0	TNKS1BP1	11	57070273	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	1528476	57070273	77936243	720	47957											
CTNND1	1500	broad.mit.edu	37	chr11	57569589	57569589	+	Frame_Shift_Del	DEL	A	-	-																															caggataacaagattgccatAaaaaactgtgatggtgtgcc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:57569589delA	uc001nmc.3	+	7	1912	c.1341delA	c.(1339-1341)ATAfs	p.I447fs	CTNND1_uc001nlh.1_Frame_Shift_Del_p.I447fs|CTNND1_uc001nlu.3_Frame_Shift_Del_p.I346fs|CTNND1_uc001nlt.3_Frame_Shift_Del_p.I346fs|CTNND1_uc001nls.3_Frame_Shift_Del_p.I346fs|CTNND1_uc001nlw.3_Frame_Shift_Del_p.I346fs|CTNND1_uc001nmf.3_Frame_Shift_Del_p.I447fs|CTNND1_uc001nmd.3_Frame_Shift_Del_p.I393fs|CTNND1_uc001nlk.3_Frame_Shift_Del_p.I393fs|CTNND1_uc001nme.3_Frame_Shift_Del_p.I447fs|CTNND1_uc001nll.3_Frame_Shift_Del_p.I393fs|CTNND1_uc001nmg.3_Frame_Shift_Del_p.I393fs|CTNND1_uc001nlj.3_Frame_Shift_Del_p.I393fs|CTNND1_uc001nlr.3_Frame_Shift_Del_p.I393fs|CTNND1_uc001nlp.3_Frame_Shift_Del_p.I393fs|CTNND1_uc001nlx.3_Frame_Shift_Del_p.I124fs|CTNND1_uc001nlz.3_Frame_Shift_Del_p.I124fs|CTNND1_uc009ymn.2_Frame_Shift_Del_p.I124fs|CTNND1_uc001nlm.3_Frame_Shift_Del_p.I447fs|CTNND1_uc001nly.3_Frame_Shift_Del_p.I124fs|CTNND1_uc001nmb.3_Frame_Shift_Del_p.I124fs|CTNND1_uc001nma.3_Frame_Shift_Del_p.I124fs|CTNND1_uc001nmi.3_Frame_Shift_Del_p.I346fs|CTNND1_uc001nmh.3_Frame_Shift_Del_p.I447fs|CTNND1_uc001nlq.3_Frame_Shift_Del_p.I346fs|CTNND1_uc001nln.3_Frame_Shift_Del_p.I447fs|CTNND1_uc001nli.3_Frame_Shift_Del_p.I447fs|CTNND1_uc001nlo.3_Frame_Shift_Del_p.I346fs|CTNND1_uc001nlv.3_Frame_Shift_Del_p.I346fs	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	447	ARM 3.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				AGATTGCCATAAAAAACTGTG	0.463													114	262	---	---	---	---						.	-	57569589	-	-	57569589	7	5	73	1	0	1	0	1	0	0	0	0	4022	352	13	0	1359	0	CTNND1	11	57569589	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	499316	57569589	77436927	721	47958											
OR4D11	219986	broad.mit.edu	37	chr11	59271395	59271395	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggcagacattttttctctctCtgtgatggcgtttgactgct	5	17	10	9	1	2	3	0	2	2	1	4	3	2	3	0	2	1	3	0	2	0	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:59271395C>G	uc001noa.1	+	1	347	c.347C>G	c.(346-348)TCT>TGT	p.S116C		NM_001004706	NP_001004706	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTTTCTCTCTCTGTGATGGCG	0.488													65	134					0	0	1	0	0		G	59271395	G	G	59271395	3	3	73	1	0	0	0	0	1	0	0	0	11074	913	32	5	349	5	OR4D11	11	59271395	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1701806	59271395	75735121	722	47959											
MS4A2	2206	broad.mit.edu	37	chr11	59857235	59857235	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagactattgaagtcggccTcatccccaccactgcataca	11	8	7	15	1	1	2	1	1	0	1	3	2	2	2	4	1	2	2	4	1	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:59857235T>G	uc001nop.2	+	2	229	c.127T>G	c.(127-129)TCA>GCA	p.S43A	MS4A2_uc009ymu.2_Missense_Mutation_p.S43A	NM_000139	NP_000130	Q01362	FCERB_HUMAN	membrane-spanning 4-domains, subfamily A, member	43	Cytoplasmic (Potential).				cell proliferation|humoral immune response	integral to plasma membrane	calcium channel activity			ovary(1)	1		all_epithelial(135;0.245)			Omalizumab(DB00043)	GAAGTCGGCCTCATCCCCACC	0.463													34	61					0	0	1	0	0		G	59857235	G	G	59857235	3	3	73	1	0	0	0	0	1	0	0	0	9878	1551	54	5	133	5	MS4A2	11	59857235	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	585840	59857235	75149281	723	47960											
FTH1	2495	broad.mit.edu	37	chr11	61732984	61732984	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcatcgcggtcaaagtagtAagactgaaaggggaacactg	15	7	12	7	2	2	2	2	1	0	1	3	3	2	3	0	3	1	2	0	3	5	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:61732984A>G	uc001nsu.2	-	2	353	c.118T>C	c.(118-120)TAC>CAC	p.Y40H		NM_002032	NP_002023	P02794	FRIH_HUMAN	ferritin, heavy polypeptide 1	40	Ferritin-like diiron.				cell proliferation|cellular membrane organization|immune response|intracellular sequestering of iron ion|iron ion transport|negative regulation of cell proliferation|post-Golgi vesicle-mediated transport	cytosol|intracellular ferritin complex	ferric iron binding|ferroxidase activity|protein binding			ovary(1)	1					Iron Dextran(DB00893)	TCAAAGTAGTAAGACTGAAAG	0.473													34	91					0	0	1	0	0		G	61732984	G	G	61732984	3	3	73	1	0	0	0	0	1	0	0	0	6096	362	13	3	445	3	FTH1	11	61732984	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1875749	61732984	73273532	724	47961											
TUT1	64852	broad.mit.edu	37	chr11	62348933	62348933	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgccgctcggcctcggacaActccctcagccccacaagct	7	6	8	20	3	1	0	1	0	0	0	4	1	2	1	5	2	4	2	5	2	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:62348933A>G	uc001nto.2	-	3	666	c.628T>C	c.(628-630)TTG>CTG	p.L210L		NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	172					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						GCCTCGGACAACTCCCTCAGC	0.602													4	33					0	0	1	0	0		G	62348933	G	G	62348933	2	3	73	1	0	0	0	0	0	0	0	1	16806	40	2	3		3	TUT1	11	62348933	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	615949	62348933	72657583	725	47962											
HRASLS5	117245	broad.mit.edu	37	chr11	63233754	63233754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttattgaccttccaggagCagccatgcagcacatcctcc	9	10	8	14	0	0	1	0	1	0	0	3	2	3	2	5	1	4	4	5	1	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:63233754C>T	uc001nwy.2	-	5	749	c.575G>A	c.(574-576)TGC>TAC	p.C192Y	HRASLS5_uc001nwz.2_Missense_Mutation_p.C182Y|HRASLS5_uc010rmq.1_Missense_Mutation_p.C192Y|HRASLS5_uc009yos.2_RNA	NM_054108	NP_473449	Q96KN8	HRSL5_HUMAN	HRAS-like suppressor family, member 5 isoform 1	192										ovary(1)	1						CTTCCAGGAGCAGCCATGCAG	0.517													20	57					0	0	1	0	0		T	63233754	T	T	63233754	3	4	73	1	0	0	0	0	1	0	0	0	7367	710	25	2	272	2	HRASLS5	11	63233754	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	884821	63233754	71772762	726	47963											
RTN3	10313	broad.mit.edu	37	chr11	63486576	63486576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctaaaactgcattggatgCtgatgacagattcactttgc	11	12	10	8	0	1	3	1	2	0	1	1	4	1	4	0	2	4	3	0	2	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:63486576C>T	uc001nxq.2	+	3	789	c.602C>T	c.(601-603)GCT>GTT	p.A201V	RTN3_uc001nxo.2_Intron|RTN3_uc001nxm.2_Intron|RTN3_uc001nxn.2_Missense_Mutation_p.A182V|RTN3_uc001nxp.2_Intron|RTN3_uc009yov.2_Missense_Mutation_p.A89V|RTN3_uc010rmt.1_Intron|RTN3_uc010rmu.1_Intron	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	201					apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						GCATTGGATGCTGATGACAGA	0.403													30	44					0	0	1	0	0		T	63486576	T	T	63486576	3	4	73	1	0	0	0	0	1	0	0	0	13752	797	28	2	612	2	RTN3	11	63486576	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	252822	63486576	71519940	727	47964											
RCOR2	283248	broad.mit.edu	37	chr11	63681570	63681570	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggttcgcaagggatggtgGcggtactgagacacctggac	8	7	17	9	3	0	1	0	1	0	1	1	4	0	3	1	6	1	3	1	6	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:63681570G>A	uc001nyc.2	-	8	1135	c.747C>T	c.(745-747)CGC>CGT	p.R249R		NM_173587	NP_775858	Q8IZ40	RCOR2_HUMAN	REST corepressor 2	249					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)|skin(1)	2						AGGGATGGTGGCGGTACTGAG	0.637													43	57					0	0	1	0	0		A	63681570	A	A	63681570	2	1	73	1	0	0	0	0	0	0	0	1	13208	1190	42	2		2	RCOR2	11	63681570	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	194994	63681570	71324946	728	47965											
CDC42BPG	55561	broad.mit.edu	37	chr11	64606559	64606559	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggactcagcatagaagggCgtctccccaaagagcagctc	13	5	11	12	1	2	2	1	0	1	2	4	3	2	3	2	2	3	3	2	2	4	1	rs56393929		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:64606559C>T	uc001obs.3	-	7	822	c.822G>A	c.(820-822)ACG>ACA	p.T274T		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	274	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						CATAGAAGGGCGTCTCCCCAA	0.612													25	65					0	0	1	0	0		T	64606559	T	T	64606559	2	4	73	1	0	0	0	0	0	0	0	1	3077	755	27	1		1	CDC42BPG	11	64606559	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	924989	64606559	70399957	729	47966											
ATG2A	23130	broad.mit.edu	37	chr11	64662521	64662521	+	Frame_Shift_Del	DEL	C	-	-																															ggacaatctggttgcgcatgCccccgagcaggctggacgtg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:64662521delC	uc001obx.2	-	41	5856	c.5741delG	c.(5740-5742)GGCfs	p.G1914fs	uc009ypx.2_5'Flank|ATG2A_uc001obw.2_Frame_Shift_Del_p.G679fs	NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1914							protein binding			ovary(1)|central_nervous_system(1)	2						GTTGCGCATGCCCCCGAGCAG	0.711													36	81	---	---	---	---						.	-	64662521	-	-	64662521	7	5	73	1	0	1	0	1	0	0	0	0	1094	739	26	0	79	0	ATG2A	11	64662521	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	55962	64662521	70343995	730	47967											
ATG2A	23130	broad.mit.edu	37	chr11	64677288	64677288	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacggcctggcccgcccaggGgtccggctcaggccgcaggt	4	4	16	17	4	1	0	1	0	0	0	2	0	2	0	5	7	0	2	5	7	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:64677288G>T	uc001obx.2	-	14	2087	c.1972C>A	c.(1972-1974)CCC>ACC	p.P658T		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	658							protein binding			ovary(1)|central_nervous_system(1)	2						CCCGCCCAGGGGTCCGGCTCA	0.711													14	21					7.93312e-07	8.24456e-07	1	1	0		T	64677288	T	T	64677288	3	4	73	1	0	0	0	0	1	0	0	0	1094	1232	43	5	3956	5	ATG2A	11	64677288	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	14767	64677288	70329228	731	47968											
PPP2R5B	5526	broad.mit.edu	37	chr11	64693222	64693222	+	Frame_Shift_Del	DEL	C	-	-																															ccgccatggagacgaagctgCcccctgcaagcacccccact																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:64693222delC	uc001oby.2	+	2	601	c.16delC	c.(16-18)CCCfs	p.P6fs	PPP2R5B_uc001obz.2_Frame_Shift_Del_p.P6fs	NM_006244	NP_006235	Q15173	2A5B_HUMAN	beta isoform of regulatory subunit B56, protein	6					signal transduction	cytoplasm|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(2)	2						GACGAAGCTGCCCCCTGCAAG	0.687													5	8	---	---	---	---						.	-	64693222	-	-	64693222	7	5	73	1	0	1	0	1	0	0	0	0	12415	739	26	0	18	0	PPP2R5B	11	64693222	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	15934	64693222	70313294	732	47969											
SYVN1	84447	broad.mit.edu	37	chr11	64897506	64897508	+	In_Frame_Del	DEL	GGA	-	-																															gcaggggcatacccatccagGgaggagggaaggggaaacca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:64897506_64897508delGGA	uc001odb.2	-	13	1468_1470	c.1374_1376delTCC	c.(1372-1377)CCTCCC>CCC	p.458_459PP>P	SYVN1_uc001odc.2_In_Frame_Del_p.457_458PP>P|SYVN1_uc009yqc.2_In_Frame_Del_p.406_407PP>P	NM_172230	NP_757385	Q86TM6	SYVN1_HUMAN	synoviolin 1 isoform b	458_459	Pro-rich.|Cytoplasmic (Potential).				ER-associated protein catabolic process|response to stress	endoplasmic reticulum membrane|integral to membrane|nucleus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(1)	1						ACCCATCCAGGGAGGAGGGAAGG	0.645													8	8	---	---	---	---						.	-	64897508	-	-	64897506	7	5	73	1	0	1	0	1	0	0	0	0	15512	1232	43	0	493	0	SYVN1	11	64897506	In_Frame_Del	DEL	GGA	TCGA-BR-8372-01A-11D-2340-08	204284	64897506	70109010	733	47970											
EHBP1L1	254102	broad.mit.edu	37	chr11	65349955	65349955	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggacactagaaattgagatAttgggggccttggagaaaga	15	8	14	4	0	0	4	0	1	0	4	0	7	0	5	1	4	0	0	1	4	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:65349955A>G	uc001oeo.3	+	9	2077	c.1812A>G	c.(1810-1812)ATA>ATG	p.I604M	EHBP1L1_uc001oep.1_Intron	NM_001099409	NP_001092879	Q8N3D4	EH1L1_HUMAN	tangerin	604	Glu-rich.									central_nervous_system(1)	1						AAATTGAGATATTGGGGGCCT	0.537													7	46					0	0	1	0	0		G	65349955	G	G	65349955	3	3	73	1	0	0	0	0	1	0	0	0	4982	439	16	3	1846	3	EHBP1L1	11	65349955	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	452449	65349955	69656561	734	47971											
RELA	5970	broad.mit.edu	37	chr11	65425862	65425862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcctgcaggctggggtctGcgtagggaggggtccggaac	6	6	20	9	2	1	0	0	0	1	0	2	3	2	2	2	7	4	3	2	7	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:65425862G>A	uc001ofg.2	-	8	913	c.773C>T	c.(772-774)GCA>GTA	p.A258V	RELA_uc001ofh.2_Missense_Mutation_p.A255V|RELA_uc010ron.1_Missense_Mutation_p.A269V|RELA_uc009yqr.2_Missense_Mutation_p.A205V|RELA_uc001ofe.2_Missense_Mutation_p.A258V|RELA_uc001off.2_Missense_Mutation_p.A258V|RELA_uc009yqs.1_Intron	NM_021975	NP_068810	Q04206	TF65_HUMAN	v-rel reticuloendotheliosis viral oncogene	258	RHD.				anti-apoptosis|cellular defense response|cytokine-mediated signaling pathway|defense response to virus|inflammatory response|innate immune response|interspecies interaction between organisms|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription, DNA-dependent|nerve growth factor receptor signaling pathway|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of inflammatory response|response to interleukin-1|response to UV-B|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|transcription factor complex	activating transcription factor binding|chromatin binding|identical protein binding|NF-kappaB binding|phosphate binding|protein kinase binding|protein N-terminus binding|repressing transcription factor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding			lung(3)|ovary(1)	4						GCTGGGGTCTGCGTAGGGAGG	0.627													7	15					0	0	1	0	0		A	65425862	A	A	65425862	3	1	73	1	0	0	0	0	1	0	0	0	13241	1319	46	2	898	2	RELA	11	65425862	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	75907	65425862	69580654	735	47972											
EFEMP2	30008	broad.mit.edu	37	chr11	65637334	65637336	+	In_Frame_Del	DEL	AGG	-	-																															gatggagctctcaccactgcAggagaagccatcccgatgca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:65637334_65637336delAGG	uc001ofy.3	-	7	913_915	c.719_721delCCT	c.(718-723)TCCTGC>TGC	p.S240del	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_In_Frame_Del_p.S240del	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	240	EGF-like 4; calcium-binding (Potential).				blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		TCACCACTGCAGGAGAAGCCATC	0.611													38	59	---	---	---	---						.	-	65637336	-	-	65637334	7	5	73	1	0	1	0	1	0	0	0	0	4948	188	7	0	630	0	EFEMP2	11	65637334	In_Frame_Del	DEL	AGG	TCGA-BR-8372-01A-11D-2340-08	211472	65637334	69369182	736	47973											
GAL3ST3	89792	broad.mit.edu	37	chr11	65810644	65810644	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcgctcattgtcgccGcccaggtcgtaggccagcgt	4	8	15	14	5	1	0	1	0	0	0	3	0	1	0	3	3	2	3	3	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:65810644G>A	uc001ogv.2	-	2	790	c.630C>T	c.(628-630)GGC>GGT	p.G210G	GAL3ST3_uc001ogw.2_Silent_p.G210G	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	210	Lumenal (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						CATTGTCGCCGCCCAGGTCGT	0.677													19	49					0	0	1	0	0		A	65810644	A	A	65810644	2	1	73	1	0	0	0	0	0	0	0	1	6214	1074	38	1		1	GAL3ST3	11	65810644	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	173310	65810644	69195872	737	47974											
PACS1	55690	broad.mit.edu	37	chr11	66002804	66002804	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcagggcgggtgatgcagTacgtcaacggggcagccacg	8	5	18	10	4	1	1	1	1	0	0	1	1	1	1	1	5	4	4	1	5	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:66002804T>C	uc001oha.1	+	18	2271	c.2137T>C	c.(2137-2139)TAC>CAC	p.Y713H	PACS1_uc010rou.1_Missense_Mutation_p.Y249H	NM_018026	NP_060496	Q6VY07	PACS1_HUMAN	phosphofurin acidic cluster sorting protein 1	713					interspecies interaction between organisms|regulation of defense response to virus by virus|viral reproduction	cytosol	protein binding			ovary(6)	6						GGTGATGCAGTACGTCAACGG	0.547													5	49					0	0	1	0	0		C	66002804	C	C	66002804	3	2	73	1	0	0	0	0	1	0	0	0	11391	1638	57	3	2207	3	PACS1	11	66002804	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	192160	66002804	69003712	738	47975											
KLC2	64837	broad.mit.edu	37	chr11	66026206	66026206	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctggttgcacctgaggcCggcgaagccgagcctggctc	5	7	14	15	3	1	1	0	1	1	0	2	3	1	1	5	4	3	3	5	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:66026206C>T	uc010rov.1	+	2	384	c.141C>T	c.(139-141)GCC>GCT	p.A47A	KLC2_uc010row.1_Silent_p.A47A|KLC2_uc009yra.2_Silent_p.A47A|KLC2_uc001ohb.2_Silent_p.A47A|KLC2_uc010rox.1_Silent_p.A47A|KLC2_uc001ohc.2_Silent_p.A47A|KLC2_uc001ohd.2_Silent_p.A47A|KLC2_uc001ohe.1_5'Flank	NM_001134775	NP_001128247	Q9H0B6	KLC2_HUMAN	kinesin light chain 2 isoform 1	47					blood coagulation	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0						CACCTGAGGCCGGCGAAGCCG	0.657											OREG0021097	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	26					0	0	1	0	0		T	66026206	T	T	66026206	2	4	73	1	0	0	0	0	0	0	0	1	8350	639	23	1		1	KLC2	11	66026206	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	23402	66026206	68980310	739	47976											
CCDC87	55231	broad.mit.edu	37	chr11	66360309	66360309	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcttggccacctggcTgcacagcgacgccaccgtca	8	5	11	17	3	1	0	1	0	0	0	1	1	1	0	4	2	4	4	4	2	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:66360309T>C	uc001oiq.3	-	1	246	c.178A>G	c.(178-180)AGC>GGC	p.S60G	CCS_uc001oir.2_5'Flank	NM_018219	NP_060689	Q9NVE4	CCD87_HUMAN	coiled-coil domain containing 87	60										ovary(1)|skin(1)	2						GCCACCTGGCTGCACAGCGAC	0.662											OREG0021111	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	31					0	0	1	0	0		C	66360309	C	C	66360309	3	2	73	1	0	0	0	0	1	0	0	0	2865	1580	55	3	2375	3	CCDC87	11	66360309	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	334103	66360309	68646207	740	47977											
PC	5091	broad.mit.edu	37	chr11	66618281	66618281	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccagcatggctgccacGcctgcccctgacgtgtcgtg	5	7	13	16	3	0	1	0	1	0	0	1	1	0	1	5	2	3	2	5	2	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:66618281G>A	uc001ojn.1	-	16	2386	c.2337C>T	c.(2335-2337)GGC>GGT	p.G779G	PC_uc001ojo.1_Silent_p.G779G|PC_uc001ojp.1_Silent_p.G779G|PC_uc001ojm.1_5'Flank	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	779	Carboxyltransferase.				gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	TGGCTGCCACGCCTGCCCCTG	0.657													16	20					0	0	1	0	0		A	66618281	A	A	66618281	2	1	73	1	0	0	0	0	0	0	0	1	11516	1074	38	1		1	PC	11	66618281	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	257972	66618281	68388235	741	47978											
RPS6KB2	6199	broad.mit.edu	37	chr11	67200863	67200863	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catggataagatcatcagggGcaagctggcactgcccccct	10	7	11	13	0	2	1	2	0	0	1	2	2	2	2	3	4	2	3	3	4	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:67200863G>T	uc001old.2	+	10	933	c.851G>T	c.(850-852)GGC>GTC	p.G284V	RPS6KB2_uc001olf.2_Missense_Mutation_p.G84V|RPS6KB2_uc001olg.2_Missense_Mutation_p.G284V|RPS6KB2_uc009yrq.2_Missense_Mutation_p.G84V|RPS6KB2_uc001ole.2_RNA|RPS6KB2_uc001olh.2_Intron|RPS6KB2_uc009yrr.2_Missense_Mutation_p.G115V	NM_003952	NP_003943	Q9UBS0	KS6B2_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	284	Protein kinase.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of translational initiation|translation	nucleoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|stomach(1)|lung(1)|salivary_gland(1)	7			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			ATCATCAGGGGCAAGCTGGCA	0.617													26	50					5.45024e-15	5.94869e-15	1	1	0		T	67200863	T	T	67200863	3	4	73	1	0	0	0	0	1	0	0	0	13682	1203	42	5	889	5	RPS6KB2	11	67200863	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	582582	67200863	67805653	742	47979											
UNC93B1	81622	broad.mit.edu	37	chr11	67766651	67766651	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtggcactcacatggaagaAgctgtagaagatggcttgga	12	8	14	7	1	1	3	1	0	0	3	1	5	1	5	0	4	1	4	0	4	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:67766651A>G	uc001omw.1	-	5	759	c.679T>C	c.(679-681)TTC>CTC	p.F227L		NM_030930	NP_112192	Q9H1C4	UN93B_HUMAN	unc-93 homolog B1	227	Helical; (Potential).				innate immune response|intracellular protein transport|response to virus|toll-like receptor 3 signaling pathway|toll-like receptor 7 signaling pathway|toll-like receptor 9 signaling pathway	early phagosome|endoplasmic reticulum membrane|endosome|integral to membrane|lysosome					0						ACATGGAAGAAGCTGTAGAAG	0.602													7	47					0	0	1	0	0		G	67766651	G	G	67766651	3	3	73	1	0	0	0	0	1	0	0	0	17023	72	3	3	1141	3	UNC93B1	11	67766651	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	565788	67766651	67239865	743	47980											
ANO1	55107	broad.mit.edu	37	chr11	70028683	70028683	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacagtaagaacgggaccAtgcacggcttcgtcaaccac	12	7	10	12	3	1	1	1	0	0	1	2	2	1	2	2	2	4	4	2	2	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:70028683A>G	uc001opj.2	+	24	2784	c.2479A>G	c.(2479-2481)ATG>GTG	p.M827V	ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.M536V|ANO1_uc010rql.1_Missense_Mutation_p.M1V	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	827	Extracellular (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						GAACGGGACCATGCACGGCTT	0.592													4	40					0	0	1	0	0		G	70028683	G	G	70028683	3	3	73	1	0	0	0	0	1	0	0	0	695	217	8	3	2573	3	ANO1	11	70028683	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2262032	70028683	64977833	744	47981											
P2RY2	5029	broad.mit.edu	37	chr11	72945484	72945484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgctggtctattactacGcccgcggcgaccactggccc	5	8	11	17	5	1	0	0	0	1	0	1	1	1	0	3	3	3	2	3	3	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:72945484G>A	uc001otj.2	+	3	613	c.280G>A	c.(280-282)GCC>ACC	p.A94T	P2RY2_uc001otk.2_Missense_Mutation_p.A94T|P2RY2_uc001otl.2_Missense_Mutation_p.A94T	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	94	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(1)|skin(1)	4					Suramin(DB04786)	CTATTACTACGCCCGCGGCGA	0.582													9	68					0	0	1	0	0		A	72945484	A	A	72945484	3	1	73	1	0	0	0	0	1	0	0	0	11371	1087	38	1	282	1	P2RY2	11	72945484	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2916801	72945484	62061032	745	47982											
C2CD3	26005	broad.mit.edu	37	chr11	73806439	73806439	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgctccatcagtccattTcctcggtcctctgcctatta	6	14	6	15	1	2	0	1	0	1	0	7	0	6	0	5	1	2	1	5	1	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:73806439T>C	uc001ouu.2	-	17	3221	c.2994A>G	c.(2992-2994)GGA>GGG	p.G998G		NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	998						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					TCAGTCCATTTCCTCGGTCCT	0.428													10	116					0	0	1	0	0		C	73806439	C	C	73806439	2	2	73	1	0	0	0	0	0	0	0	1	2157	1770	62	3		3	C2CD3	11	73806439	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	860955	73806439	61200077	746	47983											
ODZ4	26011	broad.mit.edu	37	chr11	78369151	78369151	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaagtggatgttgttggcGctgtctgacagttctgggta	7	14	15	5	1	2	2	0	2	2	0	2	3	2	3	0	3	0	5	0	3	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:78369151G>A	uc001ozl.3	-	34	8725	c.8262C>T	c.(8260-8262)AGC>AGT	p.S2754S	ODZ4_uc001ozk.3_Silent_p.S979S|ODZ4_uc009yvb.1_Intron	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2754	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						TGTTGTTGGCGCTGTCTGACA	0.567													75	203					0	0	1	0	0		A	78369151	A	A	78369151	2	1	73	1	0	0	0	0	0	0	0	1	10856	1078	38	1		1	ODZ4	11	78369151	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	4562712	78369151	56637365	747	47984											
CTSC	1075	broad.mit.edu	37	chr11	88068108	88068108	+	Frame_Shift_Del	DEL	A	-	-																															cttccaacaaaactaaccttAaaaaaggcaaaccacttgta																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:88068108delA	uc001pck.3	-	2	416	c.315delT	c.(313-315)TTTfs	p.F105fs	CTSC_uc001pcl.3_5'UTR|CTSC_uc001pcm.3_Frame_Shift_Del_p.F105fs|CTSC_uc001pcn.3_Frame_Shift_Del_p.F105fs	NM_001814	NP_001805	P53634	CATC_HUMAN	cathepsin C isoform a preproprotein	105					immune response	lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				AACTAACCTTAAAAAAGGCAA	0.338													17	37	---	---	---	---						.	-	88068108	-	-	88068108	7	5	73	1	0	1	0	1	0	0	0	0	4034	359	13	0	1231	0	CTSC	11	88068108	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	9698957	88068108	46938408	748	47985											
SESN3	143686	broad.mit.edu	37	chr11	94918548	94918548	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggatctctctctggattgaTaccactaccaaaaacaaagc	14	10	6	11	0	2	1	0	1	2	0	4	3	2	3	2	2	4	0	2	2	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:94918548T>C	uc001pfk.1	-	5	856	c.634A>G	c.(634-636)ATC>GTC	p.I212V	SESN3_uc010rug.1_Missense_Mutation_p.I73V|SESN3_uc001pfl.2_Missense_Mutation_p.I212V	NM_144665	NP_653266	P58005	SESN3_HUMAN	sestrin 3	212					cell cycle arrest	nucleus					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.234)		TCTGGATTGATACCACTACCA	0.408													18	146					0	0	1	0	0		C	94918548	C	C	94918548	3	2	73	1	0	0	0	0	1	0	0	0	14151	1406	49	3	868	3	SESN3	11	94918548	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	6850440	94918548	40087968	749	47986											
PGR	5241	broad.mit.edu	37	chr11	100999009	100999009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttggggaccagggcgaCgcctcctgctgccgcccccg	3	7	13	18	4	0	0	0	0	0	0	2	2	2	1	7	3	2	1	7	3	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:100999009C>T	uc001pgh.2	-	1	1536	c.793G>A	c.(793-795)GTC>ATC	p.V265I	PGR_uc001pgi.2_Missense_Mutation_p.V265I|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	265	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	ACCAGGGCGACGCCTCCTGCT	0.751													5	10					0	0	1	0	0		T	100999009	T	T	100999009	3	4	73	1	0	0	0	0	1	0	0	0	11824	536	19	1	2040	1	PGR	11	100999009	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	6080461	100999009	34007507	750	47987											
DYNC2H1	79659	broad.mit.edu	37	chr11	103178458	103178458	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtaaacaaggaattgaaTactcttcaacctaaagatac	17	12	5	7	0	2	2	1	1	1	1	2	3	2	3	1	1	4	1	1	1	10	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:103178458T>C	uc001pho.2	+	78	11535	c.11391T>C	c.(11389-11391)AAT>AAC	p.N3797N	DYNC2H1_uc001phn.1_Silent_p.N3804N|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3797	AAA 6 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AGGAATTGAATACTCTTCAAC	0.279													3	7					0	0	1	0	0		C	103178458	C	C	103178458	2	2	73	1	0	0	0	0	0	0	0	1	4852	1403	49	3		3	DYNC2H1	11	103178458	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2179449	103178458	31828058	751	47988											
SLC35F2	54733	broad.mit.edu	37	chr11	107676145	107676145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctaaaaactcctgtctgCtcagcttcttcacgatgtat	9	15	5	12	1	4	0	2	0	2	0	6	1	6	0	2	0	3	3	2	0	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:107676145C>T	uc001pjq.2	-	5	1092	c.671G>A	c.(670-672)AGC>AAC	p.S224N	SLC35F2_uc010rvu.1_Missense_Mutation_p.S76N|SLC35F2_uc001pjs.2_3'UTR	NM_017515	NP_059985	Q8IXU6	S35F2_HUMAN	solute carrier family 35, member F2	224					transport	integral to membrane				central_nervous_system(1)	1		all_cancers(61;9.46e-06)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;0.000111)|all_hematologic(158;0.000315)|all_epithelial(67;0.00197)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)|Epithelial(105;0.000105)|all cancers(92;0.00217)		CTCCTGTCTGCTCAGCTTCTT	0.403													15	44					0	0	1	0	0		T	107676145	T	T	107676145	3	4	73	1	0	0	0	0	1	0	0	0	14614	797	28	2	469	2	SLC35F2	11	107676145	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4497687	107676145	27330371	752	47989											
PPP2R1B	5519	broad.mit.edu	37	chr11	111612831	111612831	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgtcttcatcttgacctaActtctgtagtactggcttca	8	16	6	11	0	5	1	2	1	3	0	5	1	5	1	1	1	2	3	1	1	3	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:111612831A>G	uc001plx.1	-	14	1819	c.1735T>C	c.(1735-1737)TTA>CTA	p.L579L	PPP2R1B_uc001plw.1_Silent_p.L579L|PPP2R1B_uc010rwi.1_Silent_p.L515L|PPP2R1B_uc010rwj.1_Silent_p.L418L|PPP2R1B_uc010rwk.1_Silent_p.L534L|PPP2R1B_uc010rwl.1_Silent_p.L452L	NM_002716	NP_002707	P30154	2AAB_HUMAN	beta isoform of regulatory subunit A, protein	579	HEAT 15.						protein binding				0		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|Epithelial(105;2.36e-06)|all cancers(92;3.78e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0761)		TCTTGACCTAACTTCTGTAGT	0.393													24	59					0	0	1	0	0		G	111612831	G	G	111612831	2	3	73	1	0	0	0	0	0	0	0	1	12405	40	2	3		3	PPP2R1B	11	111612831	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3936686	111612831	23393685	753	47990											
C11orf52	91894	broad.mit.edu	37	chr11	111796714	111796714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacaggacatacgtatgaaCgggtgttacagcagcaaggg	14	6	13	8	2	0	1	0	1	0	0	0	2	0	2	0	3	6	4	0	3	6	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:111796714C>T	uc001pmh.2	+	5	646	c.163C>T	c.(163-165)CGG>TGG	p.R55W	C11orf52_uc001pmi.2_Missense_Mutation_p.R55W	NM_080659	NP_542390	Q96A22	CK052_HUMAN	hypothetical protein LOC91894	55										ovary(1)	1		all_cancers(61;8.8e-15)|all_epithelial(67;6.27e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.63e-07)|BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|all cancers(92;6.7e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0512)		TACGTATGAACGGGTGTTACA	0.517													20	32					0	0	1	0	0		T	111796714	T	T	111796714	3	4	73	1	0	0	0	0	1	0	0	0	1650	527	19	1	177	1	C11orf52	11	111796714	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	183883	111796714	23209802	754	47991											
DSCAML1	57453	broad.mit.edu	37	chr11	117374594	117374594	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacatggacttgctgatgtcGgtgcctacgccgttgctggc	6	11	13	11	3	0	1	0	1	0	0	1	2	0	2	2	3	5	3	2	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:117374594G>T	uc001prh.1	-	11	2507	c.2505C>A	c.(2503-2505)ACC>ACA	p.T835T		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	775	Extracellular (Potential).|Ig-like C2-type 8.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TGCTGATGTCGGTGCCTACGC	0.612													14	34					9.31168e-06	9.59505e-06	1	1	0		T	117374594	T	T	117374594	2	4	73	1	0	0	0	0	0	0	0	1	4775	1103	39	5		5	DSCAML1	11	117374594	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5577880	117374594	17631922	755	47992											
VPS11	55823	broad.mit.edu	37	chr11	118947751	118947751	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accctgctcctcaactgctaTaccaagctcaaggacagctc	11	8	6	16	0	2	0	2	0	0	0	4	1	3	1	3	1	6	4	3	1	5	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:118947751T>C	uc010ryx.1	+	9	1425	c.1383T>C	c.(1381-1383)TAT>TAC	p.Y461Y	VPS11_uc010ryy.1_Silent_p.Y307Y	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	461	Clathrin.				protein transport	endocytic vesicle|HOPS complex|late endosome membrane|lysosomal membrane	nucleotide binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.88e-05)		TCAACTGCTATACCAAGCTCA	0.577													7	13					0	0	1	0	0		C	118947751	C	C	118947751	2	2	73	1	0	0	0	0	0	0	0	1	17214	1413	49	3		3	VPS11	11	118947751	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1573157	118947751	16058765	756	47993											
OR10G8	219869	broad.mit.edu	37	chr11	123900397	123900397	+	Frame_Shift_Del	DEL	C	-	-																															ccatgccccagcgctggacgCccccctctttggagtcttcc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:123900397delC	uc001pzp.1	+	1	68	c.68delC	c.(67-69)GCCfs	p.A23fs		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	23	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		GCGCTGGACGCCCCCCTCTTT	0.592													61	127	---	---	---	---						.	-	123900397	-	-	123900397	7	5	73	1	0	1	0	1	0	0	0	0	10922	739	26	0	70	0	OR10G8	11	123900397	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	4952646	123900397	11106119	757	47994											
OR8B4	283162	broad.mit.edu	37	chr11	124294529	124294529	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacaaagtcattcagcattTtgggggtaaacacacaggaa	17	8	9	7	0	2	0	2	0	0	0	2	1	2	1	0	3	3	2	0	3	5	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:124294529T>C	uc010sak.1	-	1	239	c.239A>G	c.(238-240)AAA>AGA	p.K80R		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	80	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		ATTCAGCATTTTGGGGGTAAA	0.378													6	76					0	0	1	0	0		C	124294529	C	C	124294529	3	2	73	1	0	0	0	0	1	0	0	0	11248	1841	64	3	692	3	OR8B4	11	124294529	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	394132	124294529	10711987	758	47995											
SPA17	53340	broad.mit.edu	37	chr11	124561622	124561622	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacctgagaaaagtgatcctAaacaagaagagtctcagata	18	7	8	8	0	1	5	1	2	1	4	3	6	2	5	2	0	1	0	2	0	7	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:124561622A>C	uc001qap.2	+	4	392	c.256A>C	c.(256-258)AAA>CAA	p.K86Q		NM_017425	NP_059121	Q15506	SP17_HUMAN	sperm autoantigenic protein 17	86					binding of sperm to zona pellucida|ciliary or flagellar motility|signal transduction|spermatogenesis	cytoplasm|flagellum|membrane|motile cilium|primary cilium	cAMP-dependent protein kinase regulator activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0223)		AAGTGATCCTAAACAAGAAGA	0.388													37	56					0	0	1	0	0		C	124561622	C	C	124561622	3	2	73	1	0	0	0	0	1	0	0	0	14996	363	13	5	266	5	SPA17	11	124561622	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	267093	124561622	10444894	759	47996											
CDON	50937	broad.mit.edu	37	chr11	125887121	125887121	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttctccagttgcttcctgGtgcaatgtcctgcccgtcct	3	14	8	16	1	1	0	0	0	1	0	5	0	4	0	6	1	3	3	6	1	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:125887121G>T	uc009zbw.2	-	6	918	c.790C>A	c.(790-792)CCA>ACA	p.P264T	CDON_uc001qdc.3_Missense_Mutation_p.P264T|CDON_uc001qdd.3_RNA|CDON_uc009zbx.2_Missense_Mutation_p.P264T	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	264	Extracellular (Potential).|Ig-like C2-type 3.				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		TTGCTTCCTGGTGCAATGTCC	0.532													27	62					2.48779e-11	2.66733e-11	1	1	0		T	125887121	T	T	125887121	3	4	73	1	0	0	0	0	1	0	0	0	3173	1261	44	5	3064	5	CDON	11	125887121	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1325499	125887121	9119395	760	47997											
FOXRED1	55572	broad.mit.edu	37	chr11	126145767	126145767	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggatccatgaagtccatgTaagtttctagtctgtgatgt	11	14	10	6	0	2	2	0	2	2	0	4	3	4	3	2	1	0	2	2	1	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:126145767T>C	uc001qdi.2	+	7	857	c.810_splice	c.e7+2	p.H270_splice	FOXRED1_uc010sbn.1_Splice_Site_p.H100_splice|FOXRED1_uc010sbo.1_Splice_Site|FOXRED1_uc010sbp.1_Splice_Site_p.H83_splice|FOXRED1_uc010sbq.1_Splice_Site_p.H137_splice|FOXRED1_uc001qdj.2_Splice_Site_p.H59_splice|FOXRED1_uc010sbr.1_Splice_Site_p.H256_splice|FOXRED1_uc001qdk.2_Splice_Site_p.H59_splice	NM_017547	NP_060017	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing							integral to membrane|mitochondrion	oxidoreductase activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)		GAAGTCCATGTAAGTTTCTAG	0.373													13	34					0	0	1	0	0		C	126145767	C	C	126145767	5	2	73	1	0	0	0	0	0	0	1	0	6047	1652	57	3	838	3	FOXRED1	11	126145767	Splice_Site	SNP	T	TCGA-BR-8372-01A-11D-2340-08	258646	126145767	8860749	761	47998											
ARHGAP32	9743	broad.mit.edu	37	chr11	128840436	128840436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggagtggtgtccagatgCgtttcttcctggggccacat	5	13	13	10	1	1	1	0	0	1	1	3	2	3	2	3	4	1	1	3	4	0	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:128840436C>T	uc009zcp.2	-	22	4630	c.4630G>A	c.(4630-4632)GCA>ACA	p.A1544T	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.A503T|ARHGAP32_uc001qez.2_Missense_Mutation_p.A1195T	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1544	Interaction with GAB2.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TGTCCAGATGCGTTTCTTCCT	0.517													18	33					0	0	1	0	0		T	128840436	T	T	128840436	3	4	73	1	0	0	0	0	1	0	0	0	881	768	27	1	1637	1	ARHGAP32	11	128840436	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2694669	128840436	6166080	762	47999											
NFRKB	4798	broad.mit.edu	37	chr11	129739494	129739494	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagccccagaagccacagcTacagtcttggacacagcagc	12	4	10	15	0	1	1	0	0	1	1	1	2	1	2	3	1	6	3	3	1	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr11:129739494T>C	uc001qfi.2	-	24	3627	c.3426A>G	c.(3424-3426)GTA>GTG	p.V1142V	NFRKB_uc001qfg.2_Silent_p.V1167V|NFRKB_uc001qfh.2_Silent_p.V1165V|NFRKB_uc010sbw.1_Silent_p.V1152V|NFRKB_uc009zcr.2_Silent_p.V428V	NM_001143835	NP_001137307	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein	1142					DNA recombination|DNA repair|inflammatory response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Ino80 complex	DNA binding|protease binding			ovary(3)	3	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0167)|Lung(977;0.171)|LUSC - Lung squamous cell carcinoma(976;0.184)		AAGCCACAGCTACAGTCTTGG	0.622													27	52					0	0	1	0	0		C	129739494	C	C	129739494	2	2	73	1	0	0	0	0	0	0	0	1	10403	1509	53	3		3	NFRKB	11	129739494	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	899058	129739494	5267022	763	48000											
EFCAB4B	84766	broad.mit.edu	37	chr12	3788146	3788146	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgggcttcctcatcttcGcccatgtcgcccagatcctc	6	11	7	17	2	2	1	1	0	1	1	7	1	4	1	4	1	1	1	4	1	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:3788146G>A	uc001qmj.2	-	6	1031	c.459C>T	c.(457-459)GGC>GGT	p.G153G	EFCAB4B_uc010sen.1_Silent_p.G153G|EFCAB4B_uc010seo.1_Silent_p.G153G	NM_032680	NP_116069	Q9BSW2	EFC4B_HUMAN	EF-hand calcium binding domain 4B isoform c	153					activation of store-operated calcium channel activity|store-operated calcium entry	cytoplasm	calcium ion binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.00287)|COAD - Colon adenocarcinoma(12;0.0264)			CCTCATCTTCGCCCATGTCGC	0.527													38	55					0	0	1	0	0		A	3788146	A	A	3788146	2	1	73	1	0	0	0	0	0	0	0	1	4943	1074	38	1		1	EFCAB4B	12	3788146	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08		3788146	130063749	764	48001											
KCNA6	3742	broad.mit.edu	37	chr12	4919441	4919441	+	Frame_Shift_Del	DEL	C	-	-																															cggcgagtccgcttcttcgaCcccctgaggaacgagtactt																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:4919441delC	uc001qng.2	+	1	1100	c.234delC	c.(232-234)GACfs	p.D78fs		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	78						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						GCTTCTTCGACCCCCTGAGGA	0.632										HNSCC(72;0.22)			28	50	---	---	---	---						.	-	4919441	-	-	4919441	7	5	73	1	0	1	0	1	0	0	0	0	8023	506	18	0	236	0	KCNA6	12	4919441	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	1131295	4919441	128932454	765	48002											
ANO2	57101	broad.mit.edu	37	chr12	5708775	5708775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtctcatctttcagctttCgaaatagtttctttagcttc	7	18	6	10	2	4	0	2	0	3	0	7	1	4	0	0	1	2	3	0	1	3	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:5708775C>T	uc001qnm.2	-	21	2180	c.2108G>A	c.(2107-2109)CGA>CAA	p.R703Q		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	708	Extracellular (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						TTTCAGCTTTCGAAATAGTTT	0.423													25	48					0	0	1	0	0		T	5708775	T	T	5708775	3	4	73	1	0	0	0	0	1	0	0	0	697	884	31	1	912	1	ANO2	12	5708775	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	789334	5708775	128143120	766	48003											
NOP2	4839	broad.mit.edu	37	chr12	6670152	6670152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgttggtgactcccagcCgatgcaagttgcccacaaca	9	9	11	12	1	0	1	0	1	0	0	1	2	1	1	3	2	4	3	3	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:6670152C>T	uc001qph.1	-	12	1460	c.1280G>A	c.(1279-1281)CGG>CAG	p.R427Q	NOP2_uc009zeq.1_Missense_Mutation_p.R143Q|NOP2_uc001qpi.1_Missense_Mutation_p.R427Q|NOP2_uc001qpj.1_Intron	NM_001033714	NP_001028886	P46087	NOP2_HUMAN	nucleolar protein 1, 120kDa	431					positive regulation of cell proliferation|rRNA processing	nucleolus	protein binding|RNA binding|S-adenosylmethionine-dependent methyltransferase activity			ovary(2)	2						GACTCCCAGCCGATGCAAGTT	0.552													6	16					0	0	1	0	0		T	6670152	T	T	6670152	3	4	73	1	0	0	0	0	1	0	0	0	10557	652	23	1	1166	1	NOP2	12	6670152	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	961377	6670152	127181743	767	48004											
CHD4	1108	broad.mit.edu	37	chr12	6715477	6715477	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgttgttcaaaagtgcAtccatatcctcctcctcact	9	13	6	13	0	2	0	2	0	0	0	6	0	6	0	4	1	1	4	4	1	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:6715477A>G	uc001qpo.2	-	2	227	c.63T>C	c.(61-63)GAT>GAC	p.D21D	CHD4_uc001qpn.2_Silent_p.D21D|CHD4_uc001qpp.2_Silent_p.D21D	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	21					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TCAAAAGTGCATCCATATCCT	0.662													8	41					0	0	1	0	0		G	6715477	G	G	6715477	2	3	73	1	0	0	0	0	0	0	0	1	3330	214	8	3		3	CHD4	12	6715477	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	45325	6715477	127136418	768	48005											
ZNF384	171017	broad.mit.edu	37	chr12	6777207	6777207	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgggccactgctgccgcTgctgctgctgcctgcacctg	2	9	13	17	1	0	0	0	0	0	0	0	0	0	0	5	1	7	6	5	1	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:6777207T>C	uc010sfh.1	-	11	1615	c.1407A>G	c.(1405-1407)GCA>GCG	p.A469A	ZNF384_uc001qpz.2_Silent_p.A408A|ZNF384_uc001qqa.2_Silent_p.A408A|ZNF384_uc001qqb.2_Silent_p.A392A|ZNF384_uc001qqc.2_Silent_p.A408A|ZNF384_uc001qqd.2_Silent_p.A353A|ZNF384_uc001qqe.2_Silent_p.A392A	NM_001135734	NP_001129206	Q8TF68	ZN384_HUMAN	nuclear matrix transcription factor 4 isoform d	469	Ala-rich.|Gln-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/ZNF384(4)	haematopoietic_and_lymphoid_tissue(4)|central_nervous_system(3)|kidney(1)	8						ctgctgccgctgctgctgctg	0.189			T	EWSR1|TAF15 	ALL								18	40					0	0	1	0	0		C	6777207	C	C	6777207	2	2	73	1	0	0	0	0	0	0	0	1	17900	1567	55	3		3	ZNF384	12	6777207	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	61730	6777207	127074688	769	48006											
LEPREL2	10536	broad.mit.edu	37	chr12	6943194	6943194	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccccagccgagtgtggggTgctgctgcagctggctaagg	6	7	16	12	1	0	0	0	0	0	0	0	1	0	0	3	4	5	5	3	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:6943194T>C	uc001qra.1	+	11	1473	c.1439T>C	c.(1438-1440)GTG>GCG	p.V480A	LEPREL2_uc001qqz.1_Missense_Mutation_p.V287A|LEPREL2_uc001qrb.1_Missense_Mutation_p.V287A	NM_014262	NP_055077	Q8IVL6	P3H3_HUMAN	leprecan-like 2 precursor	480					negative regulation of cell proliferation	endoplasmic reticulum	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity				0					L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GAGTGTGGGGTGCTGCTGCAG	0.597													7	80					0	0	1	0	0		C	6943194	C	C	6943194	3	2	73	1	0	0	0	0	1	0	0	0	8747	1696	59	3	1472	3	LEPREL2	12	6943194	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	165987	6943194	126908701	770	48007											
ATN1	1822	broad.mit.edu	37	chr12	7045763	7045763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagccagggtcccccaccaCctcctccctatggccgcctc	5	6	9	21	1	0	0	0	0	0	0	4	1	3	1	9	3	1	0	9	3	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:7045763C>T	uc001qrw.1	+	5	1570	c.1333C>T	c.(1333-1335)CCT>TCT	p.P445S	ATN1_uc001qrx.1_Missense_Mutation_p.P445S|ATN1_uc001qry.1_Missense_Mutation_p.P444S	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	445	Poly-Pro.				cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						TCCCCCACCACCTCCTCCCTA	0.627													33	234					0	0	1	0	0		T	7045763	T	T	7045763	3	4	73	1	0	0	0	0	1	0	0	0	1112	507	18	4	1347	4	ATN1	12	7045763	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	102569	7045763	126806132	771	48008											
EMG1	10436	broad.mit.edu	37	chr12	7084290	7084290	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgttcgagcagctgatGgcccccagaagcttttgaag	9	10	12	10	1	1	3	1	2	0	1	2	4	1	3	2	1	3	4	2	1	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:7084290G>T	uc001qsh.3	+	6	594	c.451G>T	c.(451-453)GGC>TGC	p.G151C	EMG1_uc009zfo.2_Intron|EMG1_uc010sfv.1_RNA	NM_006331	NP_006322	Q92979	NEP1_HUMAN	ribosome biogenesis protein NEP1	151					ribosomal small subunit biogenesis	cytoplasm|nucleolus	rRNA (pseudouridine) methyltransferase activity|rRNA binding				0						AGCAGCTGATGGCCCCCAGAA	0.453													27	44					5.61819e-17	6.17831e-17	1	1	0		T	7084290	T	T	7084290	3	4	73	1	0	0	0	0	1	0	0	0	5098	1348	47	5	464	5	EMG1	12	7084290	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	38527	7084290	126767605	772	48009											
PEX5	5830	broad.mit.edu	37	chr12	7343037	7343037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccgctcatgaagctcgccGggcacttcacccaggacaag	10	5	10	16	3	2	1	2	1	0	0	3	2	2	2	3	2	1	3	3	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:7343037G>A	uc009zfu.1	+	3	644	c.64G>A	c.(64-66)GGG>AGG	p.G22R	PEX5_uc001qsw.2_Missense_Mutation_p.G22R|PEX5_uc010sgc.1_Missense_Mutation_p.G22R|PEX5_uc001qsu.2_Missense_Mutation_p.G22R|PEX5_uc010sgd.1_Missense_Mutation_p.G43R|PEX5_uc001qsv.2_Missense_Mutation_p.G22R	NM_001131026	NP_001124498	P50542	PEX5_HUMAN	peroxisomal biogenesis factor 5 isoform d	22					protein import into peroxisome matrix, translocation|protein targeting to peroxisome|protein tetramerization|protein transport	cytosol|peroxisomal matrix|peroxisomal membrane	peroxisome matrix targeting signal-1 binding|protein C-terminus binding|protein N-terminus binding			ovary(1)	1						GAAGCTCGCCGGGCACTTCAC	0.662													23	41					0	0	1	0	0		A	7343037	A	A	7343037	3	1	73	1	0	0	0	0	1	0	0	0	11767	1116	39	1	66	1	PEX5	12	7343037	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	258747	7343037	126508858	773	48010											
A2M	2	broad.mit.edu	37	chr12	9251272	9251272	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacagcacggagggcgcaGacggactgaggagccgctgt	9	4	16	12	4	0	2	0	1	0	1	1	5	1	5	2	4	2	3	2	4	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:9251272G>T	uc001qvk.1	-	15	1895	c.1782C>A	c.(1780-1782)GTC>GTA	p.V594V	A2M_uc009zgk.1_Silent_p.V444V	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	594					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GGAGGGCGCAGACGGACTGAG	0.577													4	6					0.150653	0.150861	1	1	0		T	9251272	T	T	9251272	2	4	73	1	0	0	0	0	0	0	0	1	4	929	33	5		5	A2M	12	9251272	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1908235	9251272	124600623	774	48011											
PRB3	5544	broad.mit.edu	37	chr12	11420779	11420779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggctttcccggacgaggcGggggaccttgggactggttt	4	10	17	10	3	0	0	0	0	0	0	1	4	1	3	2	7	0	2	2	7	0	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:11420779G>A	uc001qzs.2	-	3	442	c.404C>T	c.(403-405)CCG>CTG	p.P135L	PRB4_uc001qzf.1_Intron	NM_006249	NP_006240	Q04118	PRB3_HUMAN	proline-rich protein BstNI subfamily 3	135	4.|10 X 21 AA tandem repeats of [RH]-P-G-K- P-[EQ]-G-[PQS]-P-[PS]-Q-[GE]-G-N-[QK]- [SP]-[QR]-[GR]-P-P-P.|Pro-rich.					extracellular region	Gram-negative bacterial cell surface binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.201)			CGGACGAGGCGGGGGACCTTG	0.642													50	109					0	0	1	0	0		A	11420779	A	A	11420779	3	1	73	1	0	0	0	0	1	0	0	0	12466	1116	39	1	533	1	PRB3	12	11420779	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2169507	11420779	122431116	775	48012											
PRB2	653247	broad.mit.edu	37	chr12	11546360	11546360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggtccttgtggctttcctgGaggtgggggaccttgaggtt	3	14	17	7	0	0	1	0	1	0	0	2	3	2	3	3	7	0	2	3	7	0	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:11546360G>A	uc010shk.1	-	3	687	c.652C>T	c.(652-654)CCA>TCA	p.P218S		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGCTTTCCTGGAGGTGGGGGA	0.607													104	189					0	0	1	0	0		A	11546360	A	A	11546360	3	1	73	1	0	0	0	0	1	0	0	0	12465	1174	41	4	602	4	PRB2	12	11546360	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	125581	11546360	122305535	776	48013											
GUCY2C	2984	broad.mit.edu	37	chr12	14849285	14849285	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggacgctgatttcatagctgCcattgtggcagttctgactc	7	13	11	10	1	2	2	1	2	1	0	3	3	2	3	1	2	2	4	1	2	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:14849285C>A	uc001rcd.2	-	1	235	c.98G>T	c.(97-99)GGC>GTC	p.G33V	GUCY2C_uc009zhz.2_Missense_Mutation_p.G33V	NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	33	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TTCATAGCTGCCATTGTGGCA	0.522													14	35					4.36969e-10	4.65418e-10	1	1	0		A	14849285	A	A	14849285	3	1	73	1	0	0	0	0	1	0	0	0	6912	739	26	5	3231	5	GUCY2C	12	14849285	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3302925	14849285	119002610	777	48014											
PLEKHA5	54477	broad.mit.edu	37	chr12	19498775	19498775	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacgttttctaatattcccaGgtatgataggatcaaagcct	12	14	7	8	1	2	1	1	1	1	0	3	2	3	2	2	2	2	2	2	2	6	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:19498775G>T	uc001reb.2	+	18	2440	c.2354_splice	c.e18-1	p.G785_splice	PLEKHA5_uc010sie.1_Splice_Site_p.G883_splice|PLEKHA5_uc001rea.2_Splice_Site_p.G843_splice|PLEKHA5_uc009zin.2_Splice_Site_p.G543_splice|PLEKHA5_uc010sif.1_Splice_Site_p.G711_splice|PLEKHA5_uc010sig.1_Splice_Site_p.G704_splice|PLEKHA5_uc010sih.1_Splice_Site_p.G677_splice|PLEKHA5_uc001rec.1_Splice_Site_p.G531_splice|PLEKHA5_uc009zio.2_Intron	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A								1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					AATATTCCCAGGTATGATAGG	0.209													11	42					7.03913e-09	7.44838e-09	1	1	0		T	19498775	T	T	19498775	5	4	73	1	0	0	0	0	0	0	1	0	12078	1014	35	5	2548	5	PLEKHA5	12	19498775	Splice_Site	SNP	G	TCGA-BR-8372-01A-11D-2340-08	4649490	19498775	114353120	778	48015											
LDHB	3945	broad.mit.edu	37	chr12	21790024	21790024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctttaccattgttgacacgGgatgaatcctggatagattt	10	14	9	8	1	0	3	0	2	0	1	1	5	1	5	3	2	1	1	3	2	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:21790024G>A	uc001rfc.2	-	6	836	c.818C>T	c.(817-819)CCC>CTC	p.P273L	LDHB_uc001rfd.2_Missense_Mutation_p.P273L|LDHB_uc001rfe.2_Missense_Mutation_p.P273L	NM_002300	NP_002291	P07195	LDHB_HUMAN	L-lactate dehydrogenase B	273					glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity			breast(2)|ovary(1)	3					NADH(DB00157)	TGTTGACACGGGATGAATCCT	0.353													25	61					0	0	1	0	0		A	21790024	A	A	21790024	3	1	73	1	0	0	0	0	1	0	0	0	8717	1232	43	4	194	4	LDHB	12	21790024	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2291249	21790024	112061871	779	48016											
ABCC9	10060	broad.mit.edu	37	chr12	22068696	22068696	+	Frame_Shift_Del	DEL	T	-	-																															ttgccttcagatcaataggcTttttgtgagcagatataata																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:22068696delT	uc001rfi.1	-	5	742	c.722delA	c.(721-723)AAGfs	p.K241fs	ABCC9_uc001rfh.2_Frame_Shift_Del_p.K241fs|ABCC9_uc001rfj.1_Frame_Shift_Del_p.K241fs	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	241	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ATCAATAGGCTTTTTGTGAGC	0.373													44	80	---	---	---	---						.	-	22068696	-	-	22068696	7	5	73	1	0	1	0	1	0	0	0	0	59	1609	56	0	4205	0	ABCC9	12	22068696	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	278672	22068696	111783199	780	48017											
SOX5	6660	broad.mit.edu	37	chr12	23728718	23728718	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggtgatgtgggtgattTgccatcagaggtcttgggtt	5	14	18	4	0	2	3	1	2	1	1	2	3	2	3	1	5	1	1	1	5	0	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:23728718T>C	uc001rfw.2	-	10	1321	c.1219A>G	c.(1219-1221)AAA>GAA	p.K407E	SOX5_uc001rfx.2_Missense_Mutation_p.K394E|SOX5_uc001rfy.2_Intron|SOX5_uc001rfv.2_Missense_Mutation_p.K21E|SOX5_uc010siv.1_Missense_Mutation_p.K394E|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.K359E	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	407					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						GTGGGTGATTTGCCATCAGAG	0.512													35	50					0	0	1	0	0		C	23728718	C	C	23728718	3	2	73	1	0	0	0	0	1	0	0	0	14979	1821	63	3	1096	3	SOX5	12	23728718	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1660022	23728718	110123177	781	48018											
CASC1	55259	broad.mit.edu	37	chr12	25297532	25297532	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagtgggtatgcaggagtcGtacagcaatgtcacttgttg	10	12	13	6	1	1	0	1	0	0	0	2	1	1	1	0	2	3	5	0	2	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:25297532G>C	uc001rgl.2	-	8	833	c.751C>G	c.(751-753)CGA>GGA	p.R251G	CASC1_uc001rgk.2_Missense_Mutation_p.R257G|CASC1_uc001rgm.3_Missense_Mutation_p.R315G|CASC1_uc001rgj.2_Missense_Mutation_p.R211G|CASC1_uc010sje.1_Missense_Mutation_p.R192G|CASC1_uc010sjf.1_Missense_Mutation_p.R139G|CASC1_uc010sjg.1_Missense_Mutation_p.R251G	NM_001082973	NP_001076442	Q6TDU7	CASC1_HUMAN	cancer susceptibility candidate 1 isoform b	251										ovary(2)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Melanoma(3;0.0301)|Colorectal(261;0.11)		OV - Ovarian serous cystadenocarcinoma(3;7.42e-20)|Epithelial(3;7.58e-16)|all cancers(3;1.07e-13)			TGCAGGAGTCGTACAGCAATG	0.383													28	58					0	0	1	0	0		C	25297532	C	C	25297532	3	2	73	1	0	0	0	0	1	0	0	0	2663	1153	40	5	1431	5	CASC1	12	25297532	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1568814	25297532	108554363	782	48019											
ERGIC2	51290	broad.mit.edu	37	chr12	29524548	29524548	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccaaacttaaagttttttTccgattcagtcgcctcatct	10	16	4	11	2	3	0	2	0	1	0	5	1	4	0	3	0	2	1	3	0	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:29524548T>C	uc001riv.2	-	2	152	c.19A>G	c.(19-21)AAA>GAA	p.K7E	ERGIC2_uc001riw.2_RNA	NM_016570	NP_057654	Q96RQ1	ERGI2_HUMAN	PTX1 protein	7	Cytoplasmic (Potential).				vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane|nucleus				ovary(1)	1	Lung NSC(12;2.02e-08)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)|Lung SC(9;0.184)				Arsenic trioxide(DB01169)	AAAGTTTTTTTCCGATTCAGT	0.378													19	21					0	0	1	0	0		C	29524548	C	C	29524548	3	2	73	1	0	0	0	0	1	0	0	0	5232	1792	62	3	1166	3	ERGIC2	12	29524548	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4227016	29524548	104327347	783	48020											
LRRK2	120892	broad.mit.edu	37	chr12	40714947	40714947	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattttggtcaagattaatCaatcgattacttgagatttc	12	16	8	5	1	2	2	2	1	0	2	4	5	2	3	0	2	1	0	0	2	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:40714947C>A	uc001rmg.3	+	35	5248	c.5127C>A	c.(5125-5127)ATC>ATA	p.I1709I	LRRK2_uc009zjw.2_Silent_p.I547I|LRRK2_uc001rmi.2_Silent_p.I542I	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1709					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CAAGATTAATCAATCGATTAC	0.338													42	71					8.69298e-16	9.52368e-16	1	1	0		A	40714947	A	A	40714947	2	1	73	1	0	0	0	0	0	0	0	1	9051	816	29	5		5	LRRK2	12	40714947	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	11190399	40714947	93136948	784	48021											
LRRK2	120892	broad.mit.edu	37	chr12	40748201	40748201	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtctggtactctcctggTcatcaataccgaagatggga	11	10	10	10	1	4	1	2	0	2	1	5	3	4	2	2	3	2	1	2	3	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:40748201T>C	uc001rmg.3	+	45	6798	c.6677T>C	c.(6676-6678)GTC>GCC	p.V2226A	LRRK2_uc009zjw.2_Missense_Mutation_p.V1064A|LRRK2_uc001rmi.2_Missense_Mutation_p.V1059A	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2226					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				ACTCTCCTGGTCATCAATACC	0.418													15	40					0	0	1	0	0		C	40748201	C	C	40748201	3	2	73	1	0	0	0	0	1	0	0	0	9051	1667	58	3	6855	3	LRRK2	12	40748201	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	33254	40748201	93103694	785	48022											
FAM113B	91523	broad.mit.edu	37	chr12	47630062	47630062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttggcaggtatcgtcccCgtggcccctatacgccctgg	4	11	12	14	3	0	0	0	0	0	0	2	0	1	0	5	4	1	3	5	4	3	5	rs112959993		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:47630062C>T	uc001rpn.2	+	4	1947	c.1216C>T	c.(1216-1218)CGT>TGT	p.R406C	FAM113B_uc001rpq.2_Missense_Mutation_p.R406C	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	406	Pro-rich.						hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					GTATCGTCCCCGTGGCCCCTA	0.592													19	38					0	0	1	0	0		T	47630062	T	T	47630062	3	4	73	1	0	0	0	0	1	0	0	0	5413	652	23	1	1218	1	FAM113B	12	47630062	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	6881861	47630062	86221833	786	48023											
HDAC7	51564	broad.mit.edu	37	chr12	48185709	48185709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaccagatgctctggatgCggccggcgtgctccgggtgc	4	7	18	12	4	1	1	0	0	1	1	2	3	2	3	3	5	4	2	3	5	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:48185709C>T	uc010slo.1	-	14	1952	c.1757G>A	c.(1756-1758)CGC>CAC	p.R586H	HDAC7_uc009zku.2_RNA|HDAC7_uc001rqe.2_Missense_Mutation_p.R20H|HDAC7_uc001rqj.3_Missense_Mutation_p.R549H|HDAC7_uc001rqk.3_Missense_Mutation_p.R569H	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	547	Histone deacetylase.				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		GCTCTGGATGCGGCCGGCGTG	0.677													5	6					0	0	1	0	0		T	48185709	T	T	48185709	3	4	73	1	0	0	0	0	1	0	0	0	7028	768	27	1	1270	1	HDAC7	12	48185709	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	555647	48185709	85666186	787	48024											
H1FNT	341567	broad.mit.edu	37	chr12	48723395	48723395	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggggcaggccaaggccacGctcctccgggtcagcggcag	7	3	17	14	3	1	0	1	0	0	0	3	0	3	0	4	6	1	3	4	6	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:48723395G>A	uc001rrm.2	+	1	633	c.321G>A	c.(319-321)ACG>ACA	p.T107T		NM_181788	NP_861453	Q75WM6	H1FNT_HUMAN	H1 histone family, member N, testis-specific	107					chromosome condensation|multicellular organismal development|sperm chromatin condensation|spermatid nucleus elongation	nuclear chromatin	ATP binding|DNA binding			pancreas(1)	1						CCAAGGCCACGCTCCTCCGGG	0.682													5	13					0	0	1	0	0		A	48723395	A	A	48723395	2	1	73	1	0	0	0	0	0	0	0	1	6937	1074	38	1		1	H1FNT	12	48723395	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	537686	48723395	85128500	788	48025											
ANP32D	23519	broad.mit.edu	37	chr12	48866561	48866561	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaattggaaggcctcacAgatgaatttgaagaactgga	15	8	12	6	0	1	4	1	2	0	2	1	6	1	6	1	4	1	1	1	4	5	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:48866561A>G	uc010slt.1	+	1	114	c.114A>G	c.(112-114)ACA>ACG	p.T38T		NM_012404	NP_036536	O95626	AN32D_HUMAN	acidic nuclear phosphoprotein 32D	38	LRR 1.			T -> A (in Ref. 1; AAD13667).						ovary(1)|central_nervous_system(1)	2						AAGGCCTCACAGATGAATTTG	0.393													40	89					0	0	1	0	0		G	48866561	G	G	48866561	2	3	73	1	0	0	0	0	0	0	0	1	708	175	7	3		3	ANP32D	12	48866561	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	143166	48866561	84985334	789	48026											
ADCY6	112	broad.mit.edu	37	chr12	49167856	49167856	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatccgggctgcacagctcCgtatgggggtgtggttacag	6	9	16	10	2	0	0	0	0	0	0	2	0	2	0	2	4	3	6	2	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:49167856C>A	uc001rsh.3	-	14	2969	c.2309G>T	c.(2308-2310)CGG>CTG	p.R770L	ADCY6_uc001rsj.3_Missense_Mutation_p.R770L|ADCY6_uc001rsi.3_Intron|ADCY6_uc010slw.1_5'UTR	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	770	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						TGCACAGCTCCGTATGGGGGT	0.547													5	12					1.23904e-05	1.27494e-05	1	1	0		A	49167856	A	A	49167856	3	1	73	1	0	0	0	0	1	0	0	0	298	652	23	5	1229	5	ADCY6	12	49167856	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	301295	49167856	84684039	790	48027											
MLL2	8085	broad.mit.edu	37	chr12	49420206	49420206	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atggcgtggaacacaaggccCcccacacggaacatgtgcag	12	4	12	13	2	0	0	0	0	0	0	0	2	0	2	3	4	3	1	3	4	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:49420206C>A	uc001rta.3	-	48	15543	c.15543G>T	c.(15541-15543)GGG>GGT	p.G5181G		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5181	FYR N-terminal.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						ACACAAGGCCCCCCACACGGA	0.597			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			5	46					0.014758	0.0148703	1	1	0		A	49420206	A	A	49420206	2	1	73	1	0	0	0	0	0	0	0	1	9639	610	22	5		5	MLL2	12	49420206	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	252350	49420206	84431689	791	48028											
MLL2	8085	broad.mit.edu	37	chr12	49433773	49433773	+	Frame_Shift_Del	DEL	G	-	-																															ggacccgctgctgggccccaGggggctgcccgatgggtgga																								rs35050033		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:49433773delG	uc001rta.3	-	31	7780	c.7780delC	c.(7780-7782)CTGfs	p.L2594fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2594	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTGGGCCCCAGGGGGCTGCCC	0.647			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			8	11	---	---	---	---						.	-	49433773	-	-	49433773	7	5	73	1	0	1	0	1	0	0	0	0	9639	991	35	0	8929	0	MLL2	12	49433773	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	13567	49433773	84418122	792	48029											
METTL7A	25840	broad.mit.edu	37	chr12	51319087	51319087	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaacttcaagttctaccCacctgggtgcagggtgacct	8	9	11	13	0	2	1	1	1	1	0	2	1	2	1	4	3	3	2	4	3	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:51319087C>T	uc001rxb.2	+	1	554	c.266C>T	c.(265-267)CCA>CTA	p.P89L	METTL7A_uc010smv.1_Missense_Mutation_p.P89L	NM_014033	NP_054752	Q9H8H3	MET7A_HUMAN	methyltransferase like 7A precursor	89						endoplasmic reticulum|lipid particle|membrane	methyltransferase activity				0						AAGTTCTACCCACCTGGGTGC	0.562													22	33					0	0	1	0	0		T	51319087	T	T	51319087	3	4	73	1	0	0	0	0	1	0	0	0	9523	594	21	4	268	4	METTL7A	12	51319087	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1885314	51319087	82532808	793	48030											
NR4A1	3164	broad.mit.edu	37	chr12	52448961	52448961	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcattatggtgtccgcacAtgtgagggctgcaagggctt	8	10	14	9	1	0	1	0	1	0	0	1	1	1	1	1	3	2	5	1	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:52448961A>G	uc001rzs.2	+	3	1163	c.849A>G	c.(847-849)ACA>ACG	p.T283T	NR4A1_uc010sno.1_Silent_p.T296T|NR4A1_uc001rzr.2_Silent_p.T283T|NR4A1_uc009zmb.1_Silent_p.T283T|NR4A1_uc001rzt.2_Silent_p.T283T|NR4A1_uc009zmc.2_5'Flank	NM_002135	NP_002126	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	283	NR C4-type.|Nuclear receptor.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0967)		GTGTCCGCACATGTGAGGGCT	0.612													6	49					0	0	1	0	0		G	52448961	G	G	52448961	2	3	73	1	0	0	0	0	0	0	0	1	10651	204	8	3		3	NR4A1	12	52448961	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1129874	52448961	81402934	794	48031											
NR4A1	3164	broad.mit.edu	37	chr12	52450285	52450285	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcctttgcagttgtccgAacagacagcctgaaggggcg	9	9	12	11	2	0	2	0	1	0	1	2	3	2	2	3	2	3	2	3	2	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:52450285A>G	uc001rzs.2	+	5	1328	c.1014A>G	c.(1012-1014)CGA>CGG	p.R338R	NR4A1_uc010sno.1_Silent_p.R351R|NR4A1_uc001rzt.2_Silent_p.R338R|NR4A1_uc009zmc.2_5'UTR	NM_002135	NP_002126	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	338	Nuclear receptor.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0967)		CAGTTGTCCGAACAGACAGCC	0.632													49	108					0	0	1	0	0		G	52450285	G	G	52450285	2	3	73	1	0	0	0	0	0	0	0	1	10651	233	9	3		3	NR4A1	12	52450285	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1324	52450285	81401610	795	48032											
KRT3	3850	broad.mit.edu	37	chr12	53184633	53184633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtacttacagatgctgacaGcactcggacactctccagac	11	8	9	13	1	1	3	0	1	1	2	3	4	1	4	1	2	4	3	1	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:53184633G>A	uc001say.2	-	8	1625	c.1559C>T	c.(1558-1560)GCT>GTT	p.A520V		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	520	Tail.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						GATGCTGACAGCACTCGGACA	0.428													4	6					0	0	1	0	0		A	53184633	A	A	53184633	3	1	73	1	0	0	0	0	1	0	0	0	8482	971	34	2	335	2	KRT3	12	53184633	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	734348	53184633	80667262	796	48033											
HOXC13	3229	broad.mit.edu	37	chr12	54333276	54333276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggacgtgtcggtggtgcccGggatcagcgggcacccggag	5	6	19	11	5	1	0	1	0	0	0	2	3	1	3	2	6	2	1	2	6	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:54333276G>A	uc001sei.2	+	1	701	c.586G>A	c.(586-588)GGG>AGG	p.G196R	HOXC13_uc010sop.1_RNA	NM_017410	NP_059106	P31276	HXC13_HUMAN	homeobox C13	196						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						GGTGGTGCCCGGGATCAGCGG	0.657			T	NUP98	AML								13	14					0	0	1	0	0		A	54333276	A	A	54333276	3	1	73	1	0	0	0	0	1	0	0	0	7328	1116	39	1	588	1	HOXC13	12	54333276	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1148643	54333276	79518619	797	48034											
NFE2	4778	broad.mit.edu	37	chr12	54686659	54686659	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcacagggcctgaggaGggctctaaggccaagggggt	8	4	18	11	1	1	1	0	1	1	0	1	2	1	2	3	6	0	2	3	6	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:54686659G>T	uc009znk.2	-	2	1131	c.621C>A	c.(619-621)CCC>CCA	p.P207P	NFE2_uc001sfq.2_Silent_p.P207P|NFE2_uc001sfr.3_Silent_p.P207P|NFE2_uc009znl.2_Silent_p.P207P	NM_006163	NP_006154	Q16621	NFE2_HUMAN	nuclear factor, erythroid derived 2 isoform 1	207					blood circulation|blood coagulation|multicellular organismal development|nucleosome disassembly|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	actin cytoskeleton|cytoplasm|PML body	protein dimerization activity|protein N-terminus binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|WW domain binding				0						GGCCTGAGGAGGGCTCTAAGG	0.602													14	29					1.3612e-06	1.41262e-06	1	1	0		T	54686659	T	T	54686659	2	4	73	1	0	0	0	0	0	0	0	1	10385	987	35	5		5	NFE2	12	54686659	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	353383	54686659	79165236	798	48035											
OR6C74	254783	broad.mit.edu	37	chr12	55641513	55641513	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggtctttgcttcatggAtggctggcttcctaataatt	6	17	10	8	0	2	0	1	0	1	0	3	1	3	1	1	4	2	4	1	4	2	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:55641513A>G	uc010spg.1	+	1	442	c.442A>G	c.(442-444)ATG>GTG	p.M148V		NM_001005490	NP_001005490	A6NCV1	O6C74_HUMAN	olfactory receptor, family 6, subfamily C,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TGCTTCATGGATGGCTGGCTT	0.488													34	88					0	0	1	0	0		G	55641513	G	G	55641513	3	3	73	1	0	0	0	0	1	0	0	0	11217	333	12	3	444	3	OR6C74	12	55641513	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	954854	55641513	78210382	799	48036											
DGKA	1606	broad.mit.edu	37	chr12	56333951	56333951	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaagtctcggaaggacatTggtgtgagtgatctcatgcc	9	10	13	9	1	2	2	1	2	2	0	4	4	2	4	2	3	1	0	2	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:56333951T>C	uc001sij.2	+	10	1059	c.795T>C	c.(793-795)ATT>ATC	p.I265I	DGKA_uc009zoc.1_Silent_p.I265I|DGKA_uc001sih.1_Silent_p.I153I|DGKA_uc001sii.1_Silent_p.I123I|DGKA_uc009zod.1_Silent_p.I184I|DGKA_uc009zoe.1_3'UTR|DGKA_uc001sik.2_Silent_p.I265I|DGKA_uc001sil.2_Silent_p.I265I|DGKA_uc001sim.2_Silent_p.I265I|DGKA_uc001sin.2_Silent_p.I265I|DGKA_uc009zof.2_Intron|DGKA_uc001sio.2_Missense_Mutation_p.L8S	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	265					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	GGAAGGACATTGGTGTGAGTG	0.577											OREG0021913	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	49	80					0	0	1	0	0		C	56333951	C	C	56333951	2	2	73	1	0	0	0	0	0	0	0	1	4471	1800	63	3		3	DGKA	12	56333951	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	692438	56333951	77517944	800	48037											
TIMELESS	8914	broad.mit.edu	37	chr12	56816646	56816646	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcacctgtcatccagggagCcatagccctcagtcatctct	8	10	7	16	0	5	0	4	0	1	0	7	1	6	1	4	1	2	0	4	1	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:56816646C>A	uc001slf.2	-	19	2591	c.2423G>T	c.(2422-2424)GGC>GTC	p.G808V		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	808					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						ATCCAGGGAGCCATAGCCCTC	0.428													30	46					3.73148e-12	4.01851e-12	1	1	0		A	56816646	A	A	56816646	3	1	73	1	0	0	0	0	1	0	0	0	15929	739	26	5	1247	5	TIMELESS	12	56816646	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	482695	56816646	77035249	801	48038											
LRP1	4035	broad.mit.edu	37	chr12	57571256	57571256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagcctgccccgcattgagGcagcctccatgagtggggct	6	7	13	15	1	0	2	0	2	0	0	1	2	1	2	6	3	3	3	6	3	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:57571256G>A	uc001snd.2	+	26	4709	c.4243G>A	c.(4243-4245)GCA>ACA	p.A1415T		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1415	LDL-receptor class B 10.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CCGCATTGAGGCAGCCTCCAT	0.677													5	72					0	0	1	0	0		A	57571256	A	A	57571256	3	1	73	1	0	0	0	0	1	0	0	0	8969	1203	42	2	4345	2	LRP1	12	57571256	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	754610	57571256	76280639	802	48039											
SHMT2	6472	broad.mit.edu	37	chr12	57627675	57627675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgccatcacaccgggcGgcctgcggcttggtgagacc	7	6	15	13	3	1	1	1	1	0	1	1	3	1	1	4	4	2	1	4	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:57627675G>A	uc001snf.1	+	10	1277	c.1267G>A	c.(1267-1269)GGC>AGC	p.G423S	SHMT2_uc001sng.1_Missense_Mutation_p.G319S|SHMT2_uc001snh.1_Missense_Mutation_p.G262S|SHMT2_uc009zpk.1_Missense_Mutation_p.G413S|SHMT2_uc001sni.1_Missense_Mutation_p.G402S|SHMT2_uc010srg.1_Missense_Mutation_p.G432S|SHMT2_uc001snj.1_Missense_Mutation_p.G327S|SHMT2_uc010srh.1_Missense_Mutation_p.G402S|SHMT2_uc001snk.1_Missense_Mutation_p.G327S|SHMT2_uc010sri.1_Missense_Mutation_p.G402S|SHMT2_uc001snl.2_Missense_Mutation_p.G327S|SHMT2_uc010srj.1_Missense_Mutation_p.G78S	NM_005412	NP_005403	P34897	GLYM_HUMAN	serine hydroxymethyltransferase 2	423						microtubule cytoskeleton|mitochondrial nucleoid	glycine hydroxymethyltransferase activity|methyltransferase activity			ovary(1)|central_nervous_system(1)	2					Glycine(DB00145)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CACACCGGGCGGCCTGCGGCT	0.622													16	52					0	0	1	0	0		A	57627675	A	A	57627675	3	1	73	1	0	0	0	0	1	0	0	0	14311	1116	39	1	1305	1	SHMT2	12	57627675	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	56419	57627675	76224220	803	48040											
R3HDM2	22864	broad.mit.edu	37	chr12	57648750	57648750	+	Frame_Shift_Del	DEL	C	-	-																															ctcagcagtcccactgttgtCccccccaccccctccaggca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:57648750delC	uc009zpm.1	-	22	2772	c.2737delG	c.(2737-2739)GACfs	p.D913fs	R3HDM2_uc010srn.1_Intron|R3HDM2_uc001snu.2_Frame_Shift_Del_p.D608fs|R3HDM2_uc001snr.2_Frame_Shift_Del_p.D640fs|R3HDM2_uc001sns.2_Frame_Shift_Del_p.D913fs|R3HDM2_uc001snt.2_Frame_Shift_Del_p.D927fs|R3HDM2_uc009zpn.1_Intron	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	913						nucleus	nucleic acid binding			ovary(2)	2						CCACTGTTGTCCCCCCCACCC	0.632													24	52	---	---	---	---						.	-	57648750	-	-	57648750	7	5	73	1	0	1	0	1	0	0	0	0	12913	855	30	0	197	0	R3HDM2	12	57648750	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	21075	57648750	76203145	804	48041											
PPFIA2	8499	broad.mit.edu	37	chr12	81732978	81732978	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggagctgcccaagtcgagcTttttcttttttaccaaacaa	10	13	7	11	2	1	0	0	0	1	0	2	2	1	1	2	1	5	2	2	1	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:81732978T>C	uc001szo.1	-	21	2690	c.2529A>G	c.(2527-2529)AAA>AAG	p.K843K	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	769								p.K843E(1)		ovary(3)|lung(2)|pancreas(1)	6						CAAGTCGAGCTTTTTCTTTTT	0.408													12	136					0	0	1	0	0		C	81732978	C	C	81732978	2	2	73	1	0	0	0	0	0	0	0	1	12329	1606	56	3		3	PPFIA2	12	81732978	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	24084228	81732978	52118917	805	48042											
C12orf50	160419	broad.mit.edu	37	chr12	88380180	88380180	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgaggcttcttcactggCtggacatcattcacttagaa	12	12	8	9	0	4	2	3	1	1	1	4	3	4	3	0	3	0	2	0	3	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:88380180C>T	uc001tam.1	-	10	999	c.831G>A	c.(829-831)CAG>CAA	p.Q277Q	C12orf50_uc001tan.2_Silent_p.Q292Q	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	277										skin(2)|ovary(1)	3						TCTTCACTGGCTGGACATCAT	0.338													18	22					0	0	1	0	0		T	88380180	T	T	88380180	2	4	73	1	0	0	0	0	0	0	0	1	1698	796	28	2		2	C12orf50	12	88380180	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	6647202	88380180	45471715	806	48043											
CCDC41	51134	broad.mit.edu	37	chr12	94761653	94761653	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatactgatccttttcagaTtgcctccagacatcatgttc	9	15	5	12	0	3	3	3	1	0	2	6	3	5	3	3	0	2	1	3	0	1	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:94761653T>A	uc001tdd.2	-	11	1846	c.1260A>T	c.(1258-1260)CAA>CAT	p.Q420H	CCDC41_uc001tde.2_Missense_Mutation_p.Q420H|CCDC41_uc009zsw.1_RNA	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen	412	Potential.										0						CCTTTTCAGATTGCCTCCAGA	0.378													30	70					0	0	1	0	0		A	94761653	A	A	94761653	3	1	73	1	0	0	0	0	1	0	0	0	2816	1490	52	5	873	5	CCDC41	12	94761653	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	6381473	94761653	39090242	807	48044											
ANKS1B	56899	broad.mit.edu	37	chr12	99640299	99640299	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctgcgttcataacccactgGtccccattccgagatccact	8	10	6	17	2	1	1	1	0	0	1	4	2	4	1	6	1	2	1	6	1	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:99640299G>T	uc001tge.1	-	13	2517	c.2100C>A	c.(2098-2100)GAC>GAA	p.D700E	ANKS1B_uc001tgf.1_Missense_Mutation_p.D280E|ANKS1B_uc001tgk.2_5'UTR|ANKS1B_uc009ztt.1_Missense_Mutation_p.D666E	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	700						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		TAACCCACTGGTCCCCATTCC	0.448													28	38					1.2476e-16	1.36991e-16	1	1	0		T	99640299	T	T	99640299	3	4	73	1	0	0	0	0	1	0	0	0	689	1252	44	5	1990	5	ANKS1B	12	99640299	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	4878646	99640299	34211596	808	48045											
SCYL2	55681	broad.mit.edu	37	chr12	100717349	100717349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgcaaatcttatagactAcccatccatgaaaaacgctt	14	12	4	11	1	1	2	0	1	1	1	2	2	2	2	2	0	3	2	2	0	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:100717349A>G	uc001thn.2	+	11	1492	c.1442A>G	c.(1441-1443)TAC>TGC	p.Y481C	SCYL2_uc009ztw.1_Missense_Mutation_p.Y308C|SCYL2_uc001thm.1_Missense_Mutation_p.Y481C	NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein	481					endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						CTTATAGACTACCCATCCATG	0.318													18	52					0	0	1	0	0		G	100717349	G	G	100717349	3	3	73	1	0	0	0	0	1	0	0	0	13973	391	14	3	1480	3	SCYL2	12	100717349	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1077050	100717349	33134546	809	48046											
UTP20	27340	broad.mit.edu	37	chr12	101773301	101773301	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacacctcccagaacctgtaGcaatcaagttcctagccagt	13	8	6	14	0	1	1	1	0	0	1	3	1	3	1	5	0	4	3	5	0	6	3	rs140552393	by1000genomes	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:101773301G>T	uc001tia.1	+	57	7705	c.7549G>T	c.(7549-7551)GCA>TCA	p.A2517S		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	2517					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						AGAACCTGTAGCAATCAAGTT	0.428													11	100					0.00010058	0.000102696	1	1	0		T	101773301	T	T	101773301	3	4	73	1	0	0	0	0	1	0	0	0	17125	971	34	5	7775	5	UTP20	12	101773301	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1055952	101773301	32078594	810	48047											
TXNRD1	7296	broad.mit.edu	37	chr12	104715036	104715036	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggacatggccaacaaaaTtggtgaacacatggaagaac	17	5	10	9	0	0	2	0	1	0	1	0	4	0	4	2	4	3	0	2	4	6	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:104715036T>C	uc010swk.1	+	10	1179	c.1157T>C	c.(1156-1158)ATT>ACT	p.I386T	TXNRD1_uc010swl.1_Missense_Mutation_p.I236T|TXNRD1_uc010swm.1_Missense_Mutation_p.I288T|TXNRD1_uc010swn.1_Missense_Mutation_p.I236T|TXNRD1_uc010swo.1_Missense_Mutation_p.I236T|TXNRD1_uc010swp.1_Missense_Mutation_p.I198T|TXNRD1_uc010swq.1_Missense_Mutation_p.I286T|TXNRD1_uc001tku.2_RNA|TXNRD1_uc009zun.2_Missense_Mutation_p.I302T	NM_001093771	NP_001087240	Q16881	TRXR1_HUMAN	thioredoxin reductase 1 isoform 3	386					cell redox homeostasis|cellular lipid metabolic process|electron transport chain|nucleobase, nucleoside and nucleotide interconversion|signal transduction|transport	cytosol|nucleolus	electron carrier activity|flavin adenine dinucleotide binding|NADP binding|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity				0						GCCAACAAAATTGGTGAACAC	0.408													25	83					0	0	1	0	0		C	104715036	C	C	104715036	3	2	73	1	0	0	0	0	1	0	0	0	16833	1493	52	3	1209	3	TXNRD1	12	104715036	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2941735	104715036	29136859	811	48048											
BTBD11	121551	broad.mit.edu	37	chr12	107713788	107713788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggagcacacggtcaacaaCgactcggagatctggggtct	10	7	13	11	3	3	1	1	0	2	1	4	4	3	2	0	5	3	1	0	5	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:107713788C>T	uc001tmk.1	+	1	1592	c.1071C>T	c.(1069-1071)AAC>AAT	p.N357N	BTBD11_uc009zut.1_Silent_p.N357N|BTBD11_uc001tmj.2_Silent_p.N357N	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	357						integral to membrane	DNA binding			skin(2)|ovary(1)	3						CGGTCAACAACGACTCGGAGA	0.498													9	14					0	0	1	0	0		T	107713788	T	T	107713788	2	4	73	1	0	0	0	0	0	0	0	1	1542	535	19	1		1	BTBD11	12	107713788	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2998752	107713788	26138107	812	48049											
ASCL4	121549	broad.mit.edu	37	chr12	108169151	108169151	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgggagtgggcgcgcagCggctgcgcacggggatggca	5	5	21	10	5	0	0	0	0	0	0	0	2	0	2	0	6	3	5	0	6	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:108169151C>T	uc001tmr.2	+	1	990	c.159C>T	c.(157-159)AGC>AGT	p.S53S		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	52					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						GGGCGCGCAGCGGCTGCGCAC	0.761													12	21					0	0	1	0	0		T	108169151	T	T	108169151	2	4	73	1	0	0	0	0	0	0	0	1	1037	767	27	1		1	ASCL4	12	108169151	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	455363	108169151	25682744	813	48050											
GIT2	9815	broad.mit.edu	37	chr12	110427530	110427530	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattagctttacgtcttccActcataatagacgcagggtc	10	12	9	10	2	2	1	1	0	1	1	4	2	3	2	1	2	2	2	1	2	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:110427530A>G	uc001tps.2	-	3	429	c.264T>C	c.(262-264)AGT>AGC	p.S88S	GIT2_uc001tpq.2_Silent_p.S88S|GIT2_uc001tpv.2_Silent_p.S88S|GIT2_uc001tpu.2_Silent_p.S88S|GIT2_uc001tpt.2_Silent_p.S88S|GIT2_uc010sxu.1_Silent_p.S26S|GIT2_uc001tpw.2_Silent_p.S88S|GIT2_uc010sxv.1_Silent_p.S88S	NM_057169	NP_476510	Q14161	GIT2_HUMAN	G protein-coupled receptor kinase interacting	88	Arf-GAP.				regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	nucleoplasm	ARF GTPase activator activity|protein binding|zinc ion binding			central_nervous_system(1)	1						TACGTCTTCCACTCATAATAG	0.398													26	71					0	0	1	0	0		G	110427530	G	G	110427530	2	3	73	1	0	0	0	0	0	0	0	1	6412	156	6	3		3	GIT2	12	110427530	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2258379	110427530	23424365	814	48051											
ACAD10	80724	broad.mit.edu	37	chr12	112193494	112193494	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagccttggatatagccaTgattaaaatggtcgccccgt	10	11	10	10	2	0	1	0	1	0	0	1	2	0	2	4	2	3	1	4	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:112193494T>C	uc001tsq.2	+	20	3184	c.2984T>C	c.(2983-2985)ATG>ACG	p.M995T	ACAD10_uc009zvx.2_Missense_Mutation_p.M1026T|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	995							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						GATATAGCCATGATTAAAATG	0.527													41	70					0	0	1	0	0		C	112193494	C	C	112193494	3	2	73	1	0	0	0	0	1	0	0	0	108	1464	51	3	3155	3	ACAD10	12	112193494	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1765964	112193494	21658401	815	48052											
NAA25	80018	broad.mit.edu	37	chr12	112525546	112525546	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgaagaggtgagagtgatActcctcactattgggaactt	12	11	11	7	0	1	4	1	3	0	2	2	6	2	5	1	2	2	0	1	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:112525546A>G	uc001ttm.2	-	4	363	c.343T>C	c.(343-345)TAT>CAT	p.Y115H	NAA25_uc001ttn.3_Intron|NAA25_uc009zvz.1_Missense_Mutation_p.Y87H|NAA25_uc009zwa.1_Missense_Mutation_p.Y115H	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	115	TPR 4.					cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						TGAGAGTGATACTCCTCACTA	0.388													24	134					0	0	1	0	0		G	112525546	G	G	112525546	3	3	73	1	0	0	0	0	1	0	0	0	10139	391	14	3	2659	3	NAA25	12	112525546	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	332052	112525546	21326349	816	48053											
C12orf51	283450	broad.mit.edu	37	chr12	112650388	112650388	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtgaagtacacccggcccTtggctggctgtcccggagga	7	8	14	12	2	0	1	0	1	0	0	1	3	1	3	3	5	1	3	3	5	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:112650388T>C	uc009zwc.2	-	42	6284	c.6266A>G	c.(6265-6267)AAG>AGG	p.K2089R	C12orf51_uc001ttr.1_Missense_Mutation_p.K264R	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CACCCGGCCCTTGGCTGGCTG	0.547													10	69					0	0	1	0	0		C	112650388	C	C	112650388	3	2	73	1	0	0	0	0	1	0	0	0	1699	1609	56	3	5836	3	C12orf51	12	112650388	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	124842	112650388	21201507	817	48054											
RASAL1	8437	broad.mit.edu	37	chr12	113565943	113565943	+	Frame_Shift_Del	DEL	C	-	-																															caggtgcaccgtgtactcctCcccccagaaggggcccaggc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:113565943delC	uc001tum.1	-	4	456	c.163delG	c.(163-165)GAGfs	p.E55fs	RASAL1_uc010syp.1_Frame_Shift_Del_p.E55fs|RASAL1_uc001tul.2_Frame_Shift_Del_p.E55fs|RASAL1_uc001tun.1_Frame_Shift_Del_p.E55fs|RASAL1_uc010syq.1_Frame_Shift_Del_p.E55fs|RASAL1_uc001tuo.3_Frame_Shift_Del_p.E55fs|RASAL1_uc010syr.1_Frame_Shift_Del_p.E55fs	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	55	C2 1.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						GTGTACTCCTCCCCCCAGAAG	0.617													88	204	---	---	---	---						.	-	113565943	-	-	113565943	7	5	73	1	0	1	0	1	0	0	0	0	13088	864	30	0	2327	0	RASAL1	12	113565943	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	915555	113565943	20285952	818	48055											
SDS	10993	broad.mit.edu	37	chr12	113830824	113830824	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctgatgttgctgcccccGcagacgatgaccacgaggga	9	6	14	12	3	0	3	0	2	0	1	0	6	0	4	3	2	2	4	3	2	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:113830824G>A	uc001tvg.2	-	8	1031	c.909C>T	c.(907-909)TGC>TGT	p.C303C		NM_006843	NP_006834	P20132	SDHL_HUMAN	serine dehydratase	303				C->A: Loss of enzyme activity.	gluconeogenesis|L-serine catabolic process|pyruvate biosynthetic process	cytoplasm	L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|protein homodimerization activity|pyridoxal phosphate binding			pancreas(1)	1					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	TGCTGCCCCCGCAGACGATGA	0.632													37	142					0	0	1	0	0		A	113830824	A	A	113830824	2	1	73	1	0	0	0	0	0	0	0	1	14000	1079	38	1		1	SDS	12	113830824	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	264881	113830824	20021071	819	48056											
SDS	10993	broad.mit.edu	37	chr12	113835115	113835115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactccacacagcaggccccCgccgcccactgacagcgcga	9	2	9	21	4	0	1	0	1	0	0	1	2	1	1	5	1	2	1	5	1	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:113835115C>T	uc001tvg.2	-	6	630	c.508G>A	c.(508-510)GGG>AGG	p.G170R	SDS_uc001tvh.1_Missense_Mutation_p.G170R	NM_006843	NP_006834	P20132	SDHL_HUMAN	serine dehydratase	170					gluconeogenesis|L-serine catabolic process|pyruvate biosynthetic process	cytoplasm	L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|protein homodimerization activity|pyridoxal phosphate binding			pancreas(1)	1					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	AGCAGGCCCCCGCCGCCCACT	0.662													26	61					0	0	1	0	0		T	113835115	T	T	113835115	3	4	73	1	0	0	0	0	1	0	0	0	14000	652	23	1	490	1	SDS	12	113835115	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4291	113835115	20016780	820	48057											
TBX5	6910	broad.mit.edu	37	chr12	114841672	114841672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctccagaggcgtgtgcGccaggccaaagccctcgtct	7	6	13	15	3	1	1	0	0	1	1	3	1	2	1	4	3	2	1	4	3	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:114841672G>A	uc001tvo.2	-	2	527	c.32C>T	c.(31-33)GCG>GTG	p.A11V	TBX5_uc001tvp.2_Missense_Mutation_p.A11V|TBX5_uc001tvq.2_Intron|TBX5_uc010syv.1_Missense_Mutation_p.A11V	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	11				GFGLAHTPLEPDAKDLPCDSKPESALGAPSKSPSSPQAAFT QQ -> ALAGAHLWSLTQKTCLRFEPRARSGPPASPPGRPR SRLHPA (in Ref. 1; CAA70592).	cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		AGGCGTGTGCGCCAGGCCAAA	0.692													14	11					0	0	1	0	0		A	114841672	A	A	114841672	3	1	73	1	0	0	0	0	1	0	0	0	15686	1087	38	1	1623	1	TBX5	12	114841672	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1006557	114841672	19010223	821	48058											
FBXO21	23014	broad.mit.edu	37	chr12	117595816	117595816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcaccaggtagcccaccGccccgtgctgccccgggtct	4	6	12	19	3	1	0	0	0	1	0	1	0	1	0	7	2	4	4	7	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:117595816G>A	uc001twk.2	-	10	1439	c.1400C>T	c.(1399-1401)GCG>GTG	p.A467V	FBXO21_uc001twj.2_Missense_Mutation_p.A460V|FBXO21_uc009zwq.2_Missense_Mutation_p.A400V|FBXO21_uc001twl.1_Missense_Mutation_p.A80V	NM_033624	NP_296373	O94952	FBX21_HUMAN	F-box only protein 21 isoform 1	467					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			kidney(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		GTAGCCCACCGCCCCGTGCTG	0.532													91	180					0	0	1	0	0		A	117595816	A	A	117595816	3	1	73	1	0	0	0	0	1	0	0	0	5747	1087	38	1	498	1	FBXO21	12	117595816	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2754144	117595816	16256079	822	48059											
NOS1	4842	broad.mit.edu	37	chr12	117768159	117768159	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagcttacctgtccaccTggattcccatatctttcatc	7	14	7	13	0	2	0	1	0	1	0	5	2	4	2	4	2	2	1	4	2	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:117768159T>C	uc001twm.1	-	2	1402	c.716A>G	c.(715-717)CAG>CGG	p.Q239R		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	239	PIN (nNOS-inhibiting protein) binding.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CCTGTCCACCTGGATTCCCAT	0.413													22	59					0	0	1	0	0		C	117768159	C	C	117768159	3	2	73	1	0	0	0	0	1	0	0	0	10560	1580	55	3	3700	3	NOS1	12	117768159	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	172343	117768159	16083736	823	48060											
SRRM4	84530	broad.mit.edu	37	chr12	119540084	119540084	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgtcccagctcaggatggaCcctcagaaaagctgggtcag	10	8	12	11	0	3	1	3	0	0	1	4	3	4	3	2	3	2	2	2	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:119540084C>A	uc001txa.1	+	2	467	c.175C>A	c.(175-177)CCC>ACC	p.P59T		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	59					cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						TCAGGATGGACCCTCAGAAAA	0.517													11	21					0.010729	0.0108257	1	1	0		A	119540084	A	A	119540084	3	1	73	1	0	0	0	0	1	0	0	0	15196	507	18	5	181	5	SRRM4	12	119540084	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1771925	119540084	14311811	824	48061											
KDM2B	84678	broad.mit.edu	37	chr12	121878620	121878620	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagcctggcaactcaccTggcctgttgtctgtgggcgg	4	9	13	15	1	2	0	1	0	1	0	2	0	2	0	5	4	2	2	5	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:121878620T>C	uc001uat.2	-	21	3713	c.3609A>G	c.(3607-3609)CCA>CCG	p.P1203P	KDM2B_uc001uaq.2_Silent_p.P643P|KDM2B_uc010szy.1_Silent_p.P643P|KDM2B_uc001uar.2_Silent_p.P794P|KDM2B_uc001uas.2_Silent_p.P1134P|KDM2B_uc001uau.2_Intron|KDM2B_uc001uao.2_Silent_p.P451P|KDM2B_uc010szx.1_Silent_p.P451P|KDM2B_uc001uap.2_RNA	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	1203					embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						GCAACTCACCTGGCCTGTTGT	0.612													13	34					0	0	1	0	0		C	121878620	C	C	121878620	2	2	73	1	0	0	0	0	0	0	0	1	8141	1594	55	3		3	KDM2B	12	121878620	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2338536	121878620	11973275	825	48062											
KDM2B	84678	broad.mit.edu	37	chr12	121881856	121881856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggggcttctcgtatttccGcttcttcctcaggtgcacgt	3	15	10	13	3	3	0	1	0	2	0	6	0	5	0	2	3	1	4	2	3	1	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:121881856G>A	uc001uat.2	-	16	2514	c.2410C>T	c.(2410-2412)CGG>TGG	p.R804W	KDM2B_uc001uaq.2_Missense_Mutation_p.R244W|KDM2B_uc010szy.1_Missense_Mutation_p.R244W|KDM2B_uc001uar.2_Missense_Mutation_p.R395W|KDM2B_uc001uas.2_Missense_Mutation_p.R773W|KDM2B_uc001uau.2_Intron|KDM2B_uc001uao.2_Missense_Mutation_p.R52W|KDM2B_uc010szx.1_Missense_Mutation_p.R52W|KDM2B_uc001uap.2_RNA	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	804					embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						TCGTATTTCCGCTTCTTCCTC	0.657											OREG0022201	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	62					0	0	1	0	0		A	121881856	A	A	121881856	3	1	73	1	0	0	0	0	1	0	0	0	8141	1086	38	1	1684	1	KDM2B	12	121881856	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3236	121881856	11970039	826	48063											
RHOF	54509	broad.mit.edu	37	chr12	122217517	122217517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacattctcccgaaacttggCggaacattccaggtagagag	12	8	10	11	2	1	1	0	0	1	1	3	4	2	2	2	3	2	1	2	3	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:122217517C>T	uc001ubb.2	-	5	578	c.523G>A	c.(523-525)GCC>ACC	p.A175T	TMEM120B_uc001ubc.3_3'UTR|TMEM120B_uc009zxh.2_3'UTR|TMEM120B_uc001uba.1_RNA	NM_019034	NP_061907	Q9HBH0	RHOF_HUMAN	ras homolog gene family, member F precursor	175					actin filament organization|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity			ovary(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;4.38e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.223)		CGAAACTTGGCGGAACATTCC	0.642													19	48					0	0	1	0	0		T	122217517	T	T	122217517	3	4	73	1	0	0	0	0	1	0	0	0	13363	768	27	1	116	1	RHOF	12	122217517	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	335661	122217517	11634378	827	48064											
VPS33A	65082	broad.mit.edu	37	chr12	122735574	122735574	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatctgggggatcgttccatAcagagcttgcagggtcatca	9	10	13	9	1	3	1	2	0	1	1	5	3	4	2	1	3	3	3	1	3	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:122735574A>G	uc001ucd.2	-	5	669	c.556T>C	c.(556-558)TAT>CAT	p.Y186H	VPS33A_uc001ucc.2_Intron	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	186					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		ATCGTTCCATACAGAGCTTGC	0.567													20	48					0	0	1	0	0		G	122735574	G	G	122735574	3	3	73	1	0	0	0	0	1	0	0	0	17227	391	14	3	1270	3	VPS33A	12	122735574	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	518057	122735574	11116321	828	48065											
SBNO1	55206	broad.mit.edu	37	chr12	123793937	123793937	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcccatgacattccccTctctacactaatctgtaaga	10	13	3	15	0	2	2	0	1	2	1	6	2	5	2	4	0	1	1	4	0	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:123793937T>C	uc010tap.1	-	27	3550	c.3550A>G	c.(3550-3552)AGG>GGG	p.R1184G	SBNO1_uc009zxv.2_RNA|SBNO1_uc010tao.1_Missense_Mutation_p.R1183G|SBNO1_uc010taq.1_Missense_Mutation_p.R135G|SBNO1_uc001ues.1_Missense_Mutation_p.R135G	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	1184							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		GACATTCCCCTCTCTACACTA	0.393													45	107					0	0	1	0	0		C	123793937	C	C	123793937	3	2	73	1	0	0	0	0	1	0	0	0	13887	1550	54	3	651	3	SBNO1	12	123793937	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1058363	123793937	10057958	829	48066											
FZD10	11211	broad.mit.edu	37	chr12	130647985	130647985	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggctcgggcctgttcccGccgctgttccggccgcagcg	1	7	16	17	7	0	0	0	0	0	0	3	0	2	0	5	4	1	5	5	4	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:130647985G>A	uc001uii.2	+	1	954	c.498G>A	c.(496-498)CCG>CCA	p.P166P	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	166	Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		GCCTGTTCCCGCCGCTGTTCC	0.612													17	30					0	0	1	0	0		A	130647985	A	A	130647985	2	1	73	1	0	0	0	0	0	0	0	1	6143	1074	38	1		1	FZD10	12	130647985	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6854048	130647985	3203910	830	48067											
GPR133	283383	broad.mit.edu	37	chr12	131593316	131593316	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacactacttcttcctgagTgccttcgcatggatgctggt	6	14	9	12	1	1	1	0	1	1	0	3	2	2	2	2	2	4	2	2	2	2	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:131593316T>C	uc001uit.3	+	18	2494	c.1935T>C	c.(1933-1935)AGT>AGC	p.S645S	GPR133_uc010tbm.1_Silent_p.S677S|GPR133_uc009zyo.2_Intron|GPR133_uc001uiv.1_Silent_p.S164S|GPR133_uc009zyp.2_RNA	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	645	Helical; Name=3; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		TCTTCCTGAGTGCCTTCGCAT	0.547													52	115					0	0	1	0	0		C	131593316	C	C	131593316	2	2	73	1	0	0	0	0	0	0	0	1	6658	1693	59	3		3	GPR133	12	131593316	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	945331	131593316	2258579	831	48068											
SFRS8	6433	broad.mit.edu	37	chr12	132199458	132199458	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagcgactattacgacccGtcagagccgacggaggagga	11	5	15	10	5	1	1	1	0	0	1	1	7	1	4	2	4	3	1	2	4	3	3	rs146187057	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:132199458G>A	uc001uja.1	+	3	620	c.480G>A	c.(478-480)CCG>CCA	p.P160P	SFRS8_uc010tbn.1_Silent_p.P160P|SFRS8_uc001ujb.1_5'UTR|SFRS8_uc001uiz.1_Silent_p.P34P	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	160					mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		ATTACGACCCGTCAGAGCCGA	0.547													18	44					0	0	1	0	0		A	132199458	A	A	132199458	2	1	73	1	0	0	0	0	0	0	0	1	14208	1132	40	1		1	SFRS8	12	132199458	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	606142	132199458	1652437	832	48069											
ULK1	8408	broad.mit.edu	37	chr12	132400493	132400493	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggctgccgcctgcacaGcgcccccaacctgtctgact	5	7	11	18	2	1	1	0	1	1	0	1	1	1	1	5	1	4	3	5	1	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:132400493G>T	uc001uje.2	+	19	1935	c.1667G>T	c.(1666-1668)AGC>ATC	p.S556I		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	556					autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		CGCCTGCACAGCGCCCCCAAC	0.697													11	23					0.010729	0.0108257	1	1	0		T	132400493	T	T	132400493	3	4	73	1	0	0	0	0	1	0	0	0	17001	971	34	5	1741	5	ULK1	12	132400493	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	201035	132400493	1451402	833	48070											
EP400	57634	broad.mit.edu	37	chr12	132528817	132528817	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggctggagcaggaggaggcGgagctcctgacctacacgcg	8	4	17	12	4	0	1	0	1	0	0	1	5	1	5	2	6	3	3	2	6	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:132528817G>A	uc001ujn.2	+	34	6581	c.6546G>A	c.(6544-6546)GCG>GCA	p.A2182A	EP400_uc001ujl.2_Silent_p.A2181A|EP400_uc001ujm.2_Silent_p.A2101A	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2218					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		AGGAGGAGGCGGAGCTCCTGA	0.667													12	29					0	0	1	0	0		A	132528817	A	A	132528817	2	1	73	1	0	0	0	0	0	0	0	1	5157	1103	39	1		1	EP400	12	132528817	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	128324	132528817	1323078	834	48071											
ZNF10	7556	broad.mit.edu	37	chr12	133733304	133733304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagagaaaccatatgaatGctgtcagtgtgggaaagcct	13	9	13	6	0	1	2	1	1	0	1	1	5	1	4	2	2	3	1	2	2	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:133733304G>A	uc009zzb.2	+	5	1919	c.1472G>A	c.(1471-1473)TGC>TAC	p.C491Y	ZNF268_uc010tbv.1_Intron|ZNF10_uc001ulq.2_Missense_Mutation_p.C491Y	NM_015394	NP_056209	P21506	ZNF10_HUMAN	zinc finger protein 10	491	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;1.28e-06)|all_epithelial(31;0.0051)|Lung NSC(355;0.00948)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		CCATATGAATGCTGTCAGTGT	0.418													32	57					0	0	1	0	0		A	133733304	A	A	133733304	3	1	73	1	0	0	0	0	1	0	0	0	17737	1319	46	2	1486	2	ZNF10	12	133733304	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1204487	133733304	118591	835	48072											
ZNF268	10795	broad.mit.edu	37	chr12	133768141	133768141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtggcagctgctagacccaGcacagaagtgcctgtacagg	11	6	13	11	0	0	2	0	0	0	2	0	2	0	2	2	2	5	5	2	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr12:133768141G>A	uc010tcf.1	+	4	631	c.301G>A	c.(301-303)GCA>ACA	p.A101T	ZNF268_uc010tbv.1_5'UTR|ZNF268_uc010tbw.1_Intron|ZNF268_uc010tbx.1_Intron|ZNF268_uc010tby.1_Intron|ZNF268_uc010tbz.1_5'UTR|ZNF268_uc010tca.1_5'UTR|ZNF268_uc010tcb.1_Intron|ZNF268_uc010tcc.1_Intron|ZNF268_uc010tcd.1_5'UTR|ZNF268_uc010tce.1_Intron|ZNF268_uc010tcg.1_5'UTR|ZNF268_uc010tch.1_Missense_Mutation_p.A101T	NM_003415	NP_003406	Q14587	ZN268_HUMAN	zinc finger protein 268 isoform a	101	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.000215)|all_epithelial(31;0.096)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		GCTAGACCCAGCACAGAAGTG	0.488													4	41					0	0	1	0	0		A	133768141	A	A	133768141	3	1	73	1	0	0	0	0	1	0	0	0	17832	971	34	2	311	2	ZNF268	12	133768141	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	34837	133768141	83754	836	48073											
MPHOSPH8	54737	broad.mit.edu	37	chr13	20244467	20244467	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtgtagtgtacaagctgtAgttctgaatgataaatttca	12	14	9	6	1	2	2	1	2	1	0	2	2	2	2	1	0	2	5	1	0	7	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:20244467A>G	uc001umh.2	+	12	2430	c.2421A>G	c.(2419-2421)GTA>GTG	p.V807V	MPHOSPH8_uc001umg.2_Silent_p.V807V	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	807					cell cycle	cytoplasm|nucleus					0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		TACAAGCTGTAGTTCTGAATG	0.383													30	69					0	0	1	0	0		G	20244467	G	G	20244467	2	3	73	1	0	0	0	0	0	0	0	1	9745	407	15	3		3	MPHOSPH8	13	20244467	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08		20244467	94925411	837	48074											
IL17D	53342	broad.mit.edu	37	chr13	21295832	21295832	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctgaagcctactgcctgtgCcggggctgcctgaccgggct	4	8	14	15	2	0	2	0	2	0	0	0	2	0	2	6	3	5	2	6	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:21295832C>T	uc001unm.2	+	3	456	c.348C>T	c.(346-348)TGC>TGT	p.C116C		NM_138284	NP_612141	Q8TAD2	IL17D_HUMAN	interleukin 17D precursor	116					inflammatory response	extracellular space	cytokine activity				0		all_cancers(29;9.63e-24)|all_epithelial(30;1.09e-19)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000301)|Epithelial(112;0.000633)|OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Lung(94;0.0154)|LUSC - Lung squamous cell carcinoma(192;0.0414)		ACTGCCTGTGCCGGGGCTGCC	0.706													13	25					0	0	1	0	0		T	21295832	T	T	21295832	2	4	73	1	0	0	0	0	0	0	0	1	7653	747	26	2		2	IL17D	13	21295832	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1051365	21295832	93874046	838	48075											
LATS2	26524	broad.mit.edu	37	chr13	21563416	21563416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgaagctgggcctccgcGtcactggggttggcatgagc	5	9	15	12	3	1	1	1	1	0	0	3	2	2	1	2	4	2	3	2	4	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:21563416G>A	uc009zzs.2	-	4	868	c.503C>T	c.(502-504)ACG>ATG	p.T168M	LATS2_uc001unr.3_Missense_Mutation_p.T168M	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	168					cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		GGGCCTCCGCGTCACTGGGGT	0.617													19	39					0	0	1	0	0		A	21563416	A	A	21563416	3	1	73	1	0	0	0	0	1	0	0	0	8663	1145	40	1	2783	1	LATS2	13	21563416	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	267584	21563416	93606462	839	48076											
FGF9	2254	broad.mit.edu	37	chr13	22246259	22246259	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcagctatactgcaggActggatttcacttagaaatc	12	10	11	8	0	1	1	1	0	0	1	2	4	1	4	0	4	3	3	0	4	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:22246259A>G	uc001uog.2	+	1	1045	c.208A>G	c.(208-210)ACT>GCT	p.T70A		NM_002010	NP_002001	P31371	FGF9_HUMAN	fibroblast growth factor 9 precursor	70					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|male gonad development|positive regulation of cell division	extracellular space	growth factor activity|heparin binding				0		all_cancers(29;1.23e-20)|all_epithelial(30;9.83e-19)|all_lung(29;9.64e-17)|Lung SC(185;0.0262)|Breast(139;0.106)		all cancers(112;3.92e-05)|Epithelial(112;0.000166)|OV - Ovarian serous cystadenocarcinoma(117;0.00314)|Lung(94;0.163)		ATACTGCAGGACTGGATTTCA	0.527													23	55					0	0	1	0	0		G	22246259	G	G	22246259	3	3	73	1	0	0	0	0	1	0	0	0	5873	275	10	3	210	3	FGF9	13	22246259	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	682843	22246259	92923619	840	48077											
FGF9	2254	broad.mit.edu	37	chr13	22275330	22275330	+	Frame_Shift_Del	DEL	A	-	-																															cctctttttctttttacaggAaaaactaacccaagagtgtg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:22275330delA	uc001uog.2	+	3	1220	c.383delA	c.(382-384)GAAfs	p.E128fs		NM_002010	NP_002001	P31371	FGF9_HUMAN	fibroblast growth factor 9 precursor	128					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|male gonad development|positive regulation of cell division	extracellular space	growth factor activity|heparin binding				0		all_cancers(29;1.23e-20)|all_epithelial(30;9.83e-19)|all_lung(29;9.64e-17)|Lung SC(185;0.0262)|Breast(139;0.106)		all cancers(112;3.92e-05)|Epithelial(112;0.000166)|OV - Ovarian serous cystadenocarcinoma(117;0.00314)|Lung(94;0.163)		TTTTTACAGGAAAAACTAACC	0.219													14	23	---	---	---	---						.	-	22275330	-	-	22275330	7	5	73	1	0	1	0	1	0	0	0	0	5873	260	9	0	393	0	FGF9	13	22275330	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	29071	22275330	92894548	841	48078											
SACS	26278	broad.mit.edu	37	chr13	23904309	23904309	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcataaaattttcaagttttAttatgatacaggcagtacat	15	15	6	5	0	1	1	1	1	0	0	1	1	1	1	0	1	2	4	0	1	7	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:23904309A>G	uc001uon.2	-	10	14295	c.13706T>C	c.(13705-13707)ATA>ACA	p.I4569T	SACS_uc001uoo.2_Missense_Mutation_p.I4422T|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	4569					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TTCAAGTTTTATTATGATACA	0.358													23	58					0	0	1	0	0		G	23904309	G	G	23904309	3	3	73	1	0	0	0	0	1	0	0	0	13829	449	16	3	37	3	SACS	13	23904309	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1628979	23904309	91265569	842	48079											
FAM123A	219287	broad.mit.edu	37	chr13	25744572	25744572	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggggacatgcttgtcacAgctgggacctgcctcttcct	5	10	11	15	1	2	0	1	0	1	0	3	2	3	2	4	3	3	2	4	3	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:25744572A>G	uc001uqb.2	-	1	1286	c.1186T>C	c.(1186-1188)TGT>CGT	p.C396R	FAM123A_uc001uqa.2_Missense_Mutation_p.C277R|FAM123A_uc001uqc.2_Missense_Mutation_p.C277R	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	396										ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		TGCTTGTCACAGCTGGGACCT	0.547													13	30					0	0	1	0	0		G	25744572	G	G	25744572	3	3	73	1	0	0	0	0	1	0	0	0	5433	188	7	3	833	3	FAM123A	13	25744572	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1840263	25744572	89425306	843	48080											
FAM123A	219287	broad.mit.edu	37	chr13	25745594	25745594	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccccgacggcggctcggcgGccggcgtttcggcggcacag	3	5	17	16	9	0	0	0	0	0	0	3	1	1	0	3	7	0	3	3	7	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:25745594G>T	uc001uqb.2	-	1	264	c.164C>A	c.(163-165)GCC>GAC	p.A55D	FAM123A_uc001uqa.2_Missense_Mutation_p.A55D|FAM123A_uc001uqc.2_Missense_Mutation_p.A55D	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	55	Gly-rich.									ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		CGGCTCGGCGGCCGGCGTTTC	0.607													11	18					2.27111e-07	2.37724e-07	1	1	0		T	25745594	T	T	25745594	3	4	73	1	0	0	0	0	1	0	0	0	5433	1203	42	5	1855	5	FAM123A	13	25745594	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1022	25745594	89424284	844	48081											
FAM123A	219287	broad.mit.edu	37	chr13	25745681	25745681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcctccgccttcctcctgCagacccccacggacgcgcca	5	5	9	22	5	0	1	0	0	0	1	3	2	3	2	8	2	1	1	8	2	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:25745681C>T	uc001uqb.2	-	1	177	c.77G>A	c.(76-78)TGC>TAC	p.C26Y	FAM123A_uc001uqa.2_Missense_Mutation_p.C26Y|FAM123A_uc001uqc.2_Missense_Mutation_p.C26Y	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	26	Gly-rich.									ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		CTTCCTCCTGCAGACCCCCAC	0.751													5	16					0	0	1	0	0		T	25745681	T	T	25745681	3	4	73	1	0	0	0	0	1	0	0	0	5433	710	25	2	1942	2	FAM123A	13	25745681	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	87	25745681	89424197	845	48082											
SLC7A1	6541	broad.mit.edu	37	chr13	30104719	30104719	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttcccaaaatcctcctcCgtgagctgccagtttttaac	8	13	7	13	1	0	1	0	1	0	0	4	1	4	1	5	0	3	3	5	0	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:30104719C>T	uc001uso.2	-	5	1047	c.660G>A	c.(658-660)ACG>ACA	p.T220T		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	220	Extracellular (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AATCCTCCTCCGTGAGCTGCC	0.418													50	92					0	0	1	0	0		T	30104719	T	T	30104719	2	4	73	1	0	0	0	0	0	0	0	1	14717	639	23	1		1	SLC7A1	13	30104719	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4359038	30104719	85065159	846	48083											
DCLK1	9201	broad.mit.edu	37	chr13	36699971	36699971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gattgttctcactccctgggGcaaattcacgttatccgaca	9	12	8	12	2	2	0	2	0	1	0	5	2	4	0	2	2	0	3	2	2	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:36699971G>A	uc001uvf.2	-	2	537	c.304C>T	c.(304-306)CCC>TCC	p.P102S		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	102	Doublecortin 1.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		ACTCCCTGGGGCAAATTCACG	0.527													19	46					0	0	1	0	0		A	36699971	A	A	36699971	3	1	73	1	0	0	0	0	1	0	0	0	4294	1203	42	2	1953	2	DCLK1	13	36699971	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6595252	36699971	78469907	847	48084											
EXOSC8	11340	broad.mit.edu	37	chr13	37581201	37581201	+	Frame_Shift_Del	DEL	A	-	-																															tttgctttgctagcggctttAaaaaatggtaagcagcctta																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:37581201delA	uc001uwa.2	+	8	745	c.480delA	c.(478-480)TTAfs	p.L160fs	EXOSC8_uc001uvz.2_RNA|EXOSC8_uc001uwb.2_Frame_Shift_Del_p.L160fs|EXOSC8_uc001uwc.2_RNA	NM_181503	NP_852480	Q96B26	EXOS8_HUMAN	exosome component 8	160					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	AU-rich element binding|identical protein binding			pancreas(1)	1		Lung NSC(96;6.57e-05)|Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.67e-07)|Epithelial(112;1.31e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00699)|BRCA - Breast invasive adenocarcinoma(63;0.0117)|GBM - Glioblastoma multiforme(144;0.0411)		TAGCGGCTTTAAAAAATGGTA	0.378													22	27	---	---	---	---						.	-	37581201	-	-	37581201	7	5	73	1	0	1	0	1	0	0	0	0	5328	359	13	0	510	0	EXOSC8	13	37581201	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	881230	37581201	77588677	848	48085											
TRPC4	7223	broad.mit.edu	37	chr13	38357091	38357091	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaactgtatttttgcaggtAcctgtttttctccactaggt	9	17	7	8	0	1	0	0	0	1	0	2	0	1	0	2	2	3	4	2	2	5	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:38357091A>G	uc001uws.2	-	2	613	c.378_splice	c.e2+1	p.Q126_splice	TRPC4_uc010abv.2_Intron|TRPC4_uc001uwt.2_Splice_Site_p.Q126_splice|TRPC4_uc010tey.1_Splice_Site_p.Q126_splice|TRPC4_uc010abw.2_Splice_Site_p.Q126_splice|TRPC4_uc010abx.2_Splice_Site_p.Q126_splice|TRPC4_uc010aby.2_Splice_Site_p.Q126_splice	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,						axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		TTTTGCAGGTACCTGTTTTTC	0.303													13	51					0	0	1	0	0		G	38357091	G	G	38357091	5	3	73	1	0	0	0	0	0	0	1	0	16606	405	14	3	2608	3	TRPC4	13	38357091	Splice_Site	SNP	A	TCGA-BR-8372-01A-11D-2340-08	775890	38357091	76812787	849	48086											
FREM2	341640	broad.mit.edu	37	chr13	39266588	39266589	+	Frame_Shift_Ins	INS	-	C	C																															tagatttatcgtgacagaggINScccctcaacatggatatctt																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:39266588_39266589insC	uc001uwv.2	+	1	5416_5417	c.5107_5108insC	c.(5107-5109)GCCfs	p.A1703fs		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1703	Extracellular (Potential).|CSPG 12.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		CGTGACAGAGGCCCCTCAACAT	0.431													55	84	---	---	---	---						.	C	39266589	C	C	39266588	7	5	73	1	0	1	1	0	0	0	0	0	6059	1203	42	0	5109	0	FREM2	13	39266588	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	909497	39266588	75903290	850	48087											
ELF1	1997	broad.mit.edu	37	chr13	41556143	41556143	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgttcatcctccatgacgttActagcaaattcaaatactag	13	12	5	11	2	2	1	2	1	0	0	4	1	4	1	2	0	3	3	2	0	6	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:41556143A>G	uc001uxs.2	-	2	421	c.48T>C	c.(46-48)AGT>AGC	p.S16S	ELF1_uc010tfc.1_Silent_p.S16S|ELF1_uc010acd.2_5'UTR	NM_172373	NP_758961	P32519	ELF1_HUMAN	E74-like factor 1 (ets domain transcription	16					positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung NSC(96;8.3e-05)|Prostate(109;0.0233)|Breast(139;0.0296)|Lung SC(185;0.0367)		all cancers(112;1.87e-08)|Epithelial(112;8.45e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000202)|GBM - Glioblastoma multiforme(144;0.00266)|BRCA - Breast invasive adenocarcinoma(63;0.072)		CCATGACGTTACTAGCAAATT	0.333													6	76					0	0	1	0	0		G	41556143	G	G	41556143	2	3	73	1	0	0	0	0	0	0	0	1	5061	388	14	3		3	ELF1	13	41556143	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2289555	41556143	73613735	851	48088											
RCBTB2	1102	broad.mit.edu	37	chr13	49084763	49084763	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgtgaaaatgcccgtgttAcctgtccttttccacagtga	9	13	8	11	1	0	2	0	2	0	0	2	2	2	2	4	0	2	1	4	0	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:49084763A>G	uc001vch.2	-	10	1297	c.926_splice	c.e10+1	p.R309_splice	RCBTB2_uc010tgg.1_Splice_Site_p.R314_splice|RCBTB2_uc001vci.2_Splice_Site_p.R285_splice|RCBTB2_uc010tgh.1_Intron|RCBTB2_uc001vcj.2_Intron|RCBTB2_uc010acv.1_Splice_Site|RCBTB2_uc010tgi.1_Intron	NM_001268	NP_001259	O95199	RCBT2_HUMAN	regulator of chromosome condensation and BTB								Ran guanyl-nucleotide exchange factor activity			ovary(2)|lung(2)|skin(1)	5		all_cancers(8;4.86e-71)|all_epithelial(8;2.11e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;2.3e-10)|Lung NSC(96;1.07e-07)|Breast(56;1.53e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.00826)|Myeloproliferative disorder(33;0.0179)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(99;1.8e-09)|LUSC - Lung squamous cell carcinoma(3;0.116)		TGCCCGTGTTACCTGTCCTTT	0.463													38	73					0	0	1	0	0		G	49084763	G	G	49084763	5	3	73	1	0	0	0	0	0	0	1	0	13197	405	14	3	751	3	RCBTB2	13	49084763	Splice_Site	SNP	A	TCGA-BR-8372-01A-11D-2340-08	7528620	49084763	66085115	852	48089											
FAM124A	220108	broad.mit.edu	37	chr13	51826207	51826207	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgcccggtgcccaccgActcctccgtgctggagttcc	4	8	11	18	3	0	0	0	0	0	0	3	2	3	1	7	2	3	2	7	2	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:51826207A>G	uc001vfg.1	+	3	835	c.704A>G	c.(703-705)GAC>GGC	p.D235G	FAM124A_uc001vfe.2_Missense_Mutation_p.D235G|FAM124A_uc001vff.1_Missense_Mutation_p.D271G	NM_145019	NP_659456	Q86V42	F124A_HUMAN	hypothetical protein LOC220108	235										central_nervous_system(1)	1		Acute lymphoblastic leukemia(7;0.000334)|Breast(56;0.00156)|Prostate(109;0.00538)|Lung NSC(96;0.0216)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;4.25e-07)		GTGCCCACCGACTCCTCCGTG	0.602													9	64					0	0	1	0	0		G	51826207	G	G	51826207	3	3	73	1	0	0	0	0	1	0	0	0	5436	275	10	3	826	3	FAM124A	13	51826207	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2741444	51826207	63343671	853	48090											
PCDH20	64881	broad.mit.edu	37	chr13	61987108	61987108	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttaatgactccagtgtttTcatccaggtgaaataaatcc	12	14	7	8	0	1	2	1	2	0	0	4	2	4	2	3	1	0	2	3	1	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:61987108T>C	uc001vid.3	-	2	1488	c.1124A>G	c.(1123-1125)GAA>GGA	p.E375G	PCDH20_uc010thj.1_Missense_Mutation_p.E375G	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	348	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		TCCAGTGTTTTCATCCAGGTG	0.438													54	108					0	0	1	0	0		C	61987108	C	C	61987108	3	2	73	1	0	0	0	0	1	0	0	0	11534	1783	62	3	1735	3	PCDH20	13	61987108	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	10160901	61987108	53182770	854	48091											
LMO7	4008	broad.mit.edu	37	chr13	76378615	76378615	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaaaagccagacaaacaTgaggataacagaagaagttg	22	4	10	5	0	0	5	0	1	0	4	0	6	0	6	1	1	3	1	1	1	7	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:76378615T>C	uc001vjv.2	+	5	913	c.153T>C	c.(151-153)CAT>CAC	p.H51H	LMO7_uc010thv.1_Silent_p.H336H|LMO7_uc001vjt.1_Silent_p.H284H|LMO7_uc010thw.1_Silent_p.H245H|LMO7_uc001vjw.1_Silent_p.H51H|LMO7_uc001vju.1_RNA	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	336						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		CAGACAAACATGAGGATAACA	0.423													40	107					0	0	1	0	0		C	76378615	C	C	76378615	2	2	73	1	0	0	0	0	0	0	0	1	8872	1461	51	3		3	LMO7	13	76378615	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	14391507	76378615	38791263	855	48092											
EDNRB	1910	broad.mit.edu	37	chr13	78492668	78492668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccgcaggcaagaaccagcGcaaccagggcgcgtccgcac	10	1	14	16	5	0	1	0	0	0	1	1	1	1	1	4	3	3	4	4	3	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:78492668G>A	uc001vko.2	-	1	299	c.41C>T	c.(40-42)GCG>GTG	p.A14V	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.A14V|EDNRB_uc010aez.1_Missense_Mutation_p.A14V|EDNRB_uc001vkp.1_Missense_Mutation_p.A97V|EDNRB_uc010afa.1_Missense_Mutation_p.A14V	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	14					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	AAGAACCAGCGCAACCAGGGC	0.637											OREG0022452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	27					0	0	1	0	0		A	78492668	A	A	78492668	3	1	73	1	0	0	0	0	1	0	0	0	4926	1087	38	1	1436	1	EDNRB	13	78492668	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2114053	78492668	36677210	856	48093											
GPC6	10082	broad.mit.edu	37	chr13	94197638	94197638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagagacaagccattttgtgCgcaccacttttgtgtccagg	10	11	10	10	1	0	1	0	0	0	1	1	2	1	1	3	1	2	1	3	1	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:94197638C>T	uc001vlt.2	+	2	915	c.283C>T	c.(283-285)CGC>TGC	p.R95C	GPC6_uc010tig.1_Missense_Mutation_p.R95C|GPC6_uc001vlu.1_Missense_Mutation_p.R25C	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	95						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				CCATTTTGTGCGCACCACTTT	0.398													52	101					0	0	1	0	0		T	94197638	T	T	94197638	3	4	73	1	0	0	0	0	1	0	0	0	6617	768	27	1	289	1	GPC6	13	94197638	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	15704970	94197638	20972240	857	48094											
TGDS	23483	broad.mit.edu	37	chr13	95235385	95235385	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatacttcatctgtgctgAcataaataaacttctccact	13	14	3	11	0	3	1	1	1	2	0	4	1	3	1	1	0	3	1	1	0	6	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:95235385A>G	uc001vlw.2	-	5	540	c.419T>C	c.(418-420)GTC>GCC	p.V140A	TGDS_uc001vlx.2_RNA	NM_014305	NP_055120	O95455	TGDS_HUMAN	TDP-glucose 4,6-dehydratase	140					cellular metabolic process		coenzyme binding|dTDP-glucose 4,6-dehydratase activity|protein binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)					ATCTGTGCTGACATAAATAAA	0.368													24	56					0	0	1	0	0		G	95235385	G	G	95235385	3	3	73	1	0	0	0	0	1	0	0	0	15839	275	10	3	665	3	TGDS	13	95235385	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1037747	95235385	19934493	858	48095											
HS6ST3	266722	broad.mit.edu	37	chr13	96743228	96743228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagctcctgcaccaacttcGgggagcagccccgcgcgggg	6	4	14	17	4	0	0	0	0	0	0	2	1	1	1	5	4	5	3	5	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:96743228G>A	uc001vmw.2	+	1	136	c.112G>A	c.(112-114)GGG>AGG	p.G38R		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	38	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					CACCAACTTCGGGGAGCAgcc	0.318													8	17					0	0	1	0	0		A	96743228	A	A	96743228	3	1	73	1	0	0	0	0	1	0	0	0	7388	1116	39	1	114	1	HS6ST3	13	96743228	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1507843	96743228	18426650	859	48096											
HS6ST3	266722	broad.mit.edu	37	chr13	97485036	97485036	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatgaacgagagtgaaagaAacaccatcctgttgcagagt	15	8	10	8	1	1	5	1	2	0	3	2	6	2	5	2	0	3	2	2	0	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:97485036A>C	uc001vmw.2	+	2	1024	c.1000A>C	c.(1000-1002)AAC>CAC	p.N334H		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	334	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					GAGTGAAAGAAACACCATCCT	0.493													33	62					0	0	1	0	0		C	97485036	C	C	97485036	3	2	73	1	0	0	0	0	1	0	0	0	7388	14	1	5	1006	5	HS6ST3	13	97485036	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	741808	97485036	17684842	860	48097											
GPR18	2841	broad.mit.edu	37	chr13	99907196	99907196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatcggaaactttttctgcGcatgcttcgaaggtaattac	11	13	9	8	3	1	1	0	0	1	1	3	3	1	2	0	2	4	3	0	2	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:99907196G>A	uc001voe.3	-	3	1432	c.931C>T	c.(931-933)CGC>TGC	p.R311C	UBAC2_uc001voa.3_Intron|UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron|GPR18_uc010afv.2_Missense_Mutation_p.R311C	NM_005292	NP_005283	Q14330	GPR18_HUMAN	G protein-coupled receptor 18	311	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Glycine(DB00145)	CTTTTTCTGCGCATGCTTCGA	0.378													39	74					0	0	1	0	0		A	99907196	A	A	99907196	3	1	73	1	0	0	0	0	1	0	0	0	6690	1087	38	1	68	1	GPR18	13	99907196	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2422160	99907196	15262682	861	48098											
NALCN	259232	broad.mit.edu	37	chr13	101735497	101735497	+	Frame_Shift_Del	DEL	A	-	-																															agtaatgcgattgtcctcttAaaaaatggatgctgggttat																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:101735497delA	uc001vox.1	-	32	3825	c.3636delT	c.(3634-3636)TTTfs	p.F1212fs		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1212	Helical; Name=S1 of repeat IV; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TTGTCCTCTTAAAAAATGGAT	0.418													25	44	---	---	---	---						.	-	101735497	-	-	101735497	7	5	73	1	0	1	0	1	0	0	0	0	10166	359	13	0	1632	0	NALCN	13	101735497	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	1828301	101735497	13434381	862	48099											
NALCN	259232	broad.mit.edu	37	chr13	101997731	101997732	+	Frame_Shift_Ins	INS	-	GT	GT																															tcttctagctctggtgagcaINSgtgtgtgtctggaatagcta																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:101997731_101997732insGT	uc001vox.1	-	7	873_874	c.684_685insAC	c.(682-687)CACTGCfs	p.H228fs	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Frame_Shift_Ins_p.H228fs|NALCN_uc001vpa.2_Frame_Shift_Ins_p.H228fs	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	228_229	Extracellular (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TCTGGTGAGCAGTGTGTGTCTG	0.431													30	68	---	---	---	---						.	GT	101997732	GT	GT	101997731	7	5	73	1	0	1	1	0	0	0	0	0	10166	188	7	0	4683	0	NALCN	13	101997731	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	262234	101997731	13172147	863	48100											
COL4A1	1282	broad.mit.edu	37	chr13	110804758	110804758	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattgcaggtcccacggccGtgacactcgatgaatggcgc	9	8	12	12	4	0	2	0	2	0	0	2	3	1	2	2	3	1	1	2	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:110804758G>A	uc001vqw.3	-	51	4973	c.4851C>T	c.(4849-4851)CAC>CAT	p.H1617H	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1617	Collagen IV NC1.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			TCCCACGGCCGTGACACTCGA	0.572													18	35					0	0	1	0	0		A	110804758	A	A	110804758	2	1	73	1	0	0	0	0	0	0	0	1	3692	1136	40	1		1	COL4A1	13	110804758	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	8807027	110804758	4365120	864	48101											
COL4A1	1282	broad.mit.edu	37	chr13	110833685	110833685	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtaagccattaaatcccGggcgacctggagtccccggt	9	7	12	13	3	0	0	0	0	0	0	2	2	2	1	5	4	1	1	5	4	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:110833685G>A	uc001vqw.3	-	29	2269	c.2147C>T	c.(2146-2148)CCG>CTG	p.P716L	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	716	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			ATTAAATCCCGGGCGACCTGG	0.498													6	42					0	0	1	0	0		A	110833685	A	A	110833685	3	1	73	1	0	0	0	0	1	0	0	0	3692	1116	39	1	2958	1	COL4A1	13	110833685	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	28927	110833685	4336193	865	48102											
COL4A1	1282	broad.mit.edu	37	chr13	110857865	110857865	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctttttcccctttgtcAccatcttttccgggtttgcc	2	18	5	16	1	2	0	1	0	1	0	5	0	5	0	6	1	1	1	6	1	0	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:110857865A>G	uc001vqw.3	-	16	1001	c.879T>C	c.(877-879)GGT>GGC	p.G293G	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	293	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CCCCTTTGTCACCATCTTTTC	0.363													56	103					0	0	1	0	0		G	110857865	G	G	110857865	2	3	73	1	0	0	0	0	0	0	0	1	3692	146	6	3		3	COL4A1	13	110857865	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	24180	110857865	4312013	866	48103											
MCF2L	23263	broad.mit.edu	37	chr13	113736828	113736828	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgttttgtttggaaacAtggaggaaatctatcacttc	12	14	10	5	0	2	0	1	0	1	0	3	4	2	4	0	4	1	2	0	4	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:113736828A>G	uc001vsu.2	+	17	2156	c.2134A>G	c.(2134-2136)ATG>GTG	p.M712V	MCF2L_uc001vsq.2_Missense_Mutation_p.M712V|MCF2L_uc010tjr.1_Missense_Mutation_p.M655V|MCF2L_uc001vsr.2_Missense_Mutation_p.M659V|MCF2L_uc001vss.3_Missense_Mutation_p.M653V|MCF2L_uc010tjs.1_Missense_Mutation_p.M653V|MCF2L_uc001vst.1_Missense_Mutation_p.M617V	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	685	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				GTTTGGAAACATGGAGGAAAT	0.562													9	24					0	0	1	0	0		G	113736828	G	G	113736828	3	3	73	1	0	0	0	0	1	0	0	0	9397	217	8	3	2295	3	MCF2L	13	113736828	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2878963	113736828	1433050	867	48104											
TFDP1	7027	broad.mit.edu	37	chr13	114292142	114292142	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccttttcagaaatggctcAgggaactgttggaggcgtgt	8	12	13	8	1	2	1	2	0	0	1	3	3	3	3	1	4	1	2	1	4	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:114292142A>G	uc001vtw.2	+	11	1228	c.1016A>G	c.(1015-1017)CAG>CGG	p.Q339R	TFDP1_uc010tkd.1_Missense_Mutation_p.Q244R|TFDP1_uc010tke.1_Missense_Mutation_p.Q310R|TFDP1_uc001vty.3_Missense_Mutation_p.Q339R|TFDP1_uc001vtx.2_Intron	NM_007111	NP_009042	Q14186	TFDP1_HUMAN	transcription factor Dp-1	339					cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|regulation of transcription from RNA polymerase II promoter	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			lung(4)|ovary(2)|skin(1)	7	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.132)|all_epithelial(44;0.0731)|all_lung(25;0.149)|Breast(118;0.153)	all cancers(43;0.0576)			GAAATGGCTCAGGGAACTGTT	0.512										TSP Lung(29;0.18)			19	64					0	0	1	0	0		G	114292142	G	G	114292142	3	3	73	1	0	0	0	0	1	0	0	0	15822	188	7	3	1054	3	TFDP1	13	114292142	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	555314	114292142	877736	868	48105											
CDC16	8881	broad.mit.edu	37	chr13	115012445	115012445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgttactatctcatggtcGgtcataaaaatgaacatgcc	13	12	8	8	1	2	1	2	1	1	0	4	2	2	1	1	2	3	1	1	2	6	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr13:115012445G>A	uc001vuk.1	+	11	1135	c.937G>A	c.(937-939)GGT>AGT	p.G313S	CDC16_uc001vul.1_Missense_Mutation_p.G313S|CDC16_uc001vum.1_Missense_Mutation_p.G219S|CDC16_uc001vun.1_Missense_Mutation_p.G312S|CDC16_uc001vuo.1_Missense_Mutation_p.G312S	NM_003903	NP_003894	Q13042	CDC16_HUMAN	anaphase-promoting complex, subunit 6	313	TPR 2.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cell proliferation|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	binding				0	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)			TCTCATGGTCGGTCATAAAAA	0.333													25	53					0	0	1	0	0		A	115012445	A	A	115012445	3	1	73	1	0	0	0	0	1	0	0	0	3061	1116	39	1	979	1	CDC16	13	115012445	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	720303	115012445	157433	869	48106											
POTEG	404785	broad.mit.edu	37	chr14	19553817	19553817	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcatggagccgaggtaccAcgtccgtcgagaagatctgg	9	9	13	10	4	2	2	1	0	1	2	4	5	3	3	3	3	2	1	3	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:19553817A>G	uc001vuz.1	+	1	453	c.401A>G	c.(400-402)CAC>CGC	p.H134R	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	134										ovary(1)	1						CCGAGGTACCACGTCCGTCGA	0.587													24	251					0	0	1	0	0		G	19553817	G	G	19553817	3	3	73	1	0	0	0	0	1	0	0	0	12285	159	6	3	403	3	POTEG	14	19553817	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08		19553817	87795723	870	48107											
OR4N5	390437	broad.mit.edu	37	chr14	20612024	20612024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcctccctggaaatttcCtcatcattttcaccataaag	11	14	3	13	0	4	0	4	0	0	0	7	1	7	1	4	1	0	0	4	1	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:20612024C>T	uc010tla.1	+	1	130	c.130C>T	c.(130-132)CTC>TTC	p.L44F		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	44	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)		TGGAAATTTCCTCATCATTTT	0.443													121	227					0	0	1	0	0		T	20612024	T	T	20612024	3	4	73	1	0	0	0	0	1	0	0	0	11098	681	24	4	132	4	OR4N5	14	20612024	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1058207	20612024	86737516	871	48108											
NDRG2	57447	broad.mit.edu	37	chr14	21488109	21488109	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgtccaaggatcatctcCggaatggaagaggtgaggcc	12	7	14	8	1	2	3	1	1	1	2	4	6	3	6	3	5	0	0	3	5	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:21488109C>T	uc001vyy.2	-	10	732	c.582G>A	c.(580-582)CCG>CCA	p.P194P	NDRG2_uc010tll.1_Silent_p.P190P|NDRG2_uc001vyt.2_Silent_p.P107P|NDRG2_uc001vyu.2_Silent_p.P151P|NDRG2_uc001vyv.2_Silent_p.P180P|NDRG2_uc001vyw.2_Silent_p.P180P|NDRG2_uc001vzb.2_Silent_p.P134P|NDRG2_uc001vyx.2_Silent_p.P194P|NDRG2_uc001vza.2_Silent_p.P180P|NDRG2_uc001vyz.2_Silent_p.P180P|NDRG2_uc001vzc.2_Silent_p.P180P|NDRG2_uc001vze.2_Silent_p.P194P|NDRG2_uc001vzd.2_Silent_p.P194P|NDRG2_uc001vzg.2_Silent_p.P180P|NDRG2_uc001vzf.2_Silent_p.P180P|NDRG2_uc010aig.2_Silent_p.P194P	NM_201540	NP_963834	Q9UN36	NDRG2_HUMAN	N-myc downstream-regulated gene 2 isoform a	194					cell differentiation|nervous system development	centrosome|cytosol|Golgi apparatus|nucleus|perinuclear region of cytoplasm				ovary(1)|breast(1)	2	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;6.85e-11)|Epithelial(56;9.49e-09)|all cancers(55;3.84e-08)	GBM - Glioblastoma multiforme(265;0.0191)		GGATCATCTCCGGAATGGAAG	0.408													6	24					0	0	1	0	0		T	21488109	T	T	21488109	2	4	73	1	0	0	0	0	0	0	0	1	10271	639	23	1		1	NDRG2	14	21488109	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	876085	21488109	85861431	872	48109											
TOX4	9878	broad.mit.edu	37	chr14	21957487	21957487	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccatcaagggacagaaTcctaatgccacttttggtga	11	10	10	10	0	1	2	1	1	0	1	2	3	2	3	3	2	2	1	3	2	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:21957487T>C	uc001waz.2	+	5	838	c.735T>C	c.(733-735)AAT>AAC	p.N245N	TOX4_uc001way.2_Silent_p.N115N|TOX4_uc001wba.2_RNA|TOX4_uc010tlu.1_Silent_p.N222N|TOX4_uc010tlv.1_Silent_p.N115N	NM_014828	NP_055643	O94842	TOX4_HUMAN	epidermal Langerhans cell protein LCP1	245	HMG box.					chromatin|nucleus|PTW/PP1 phosphatase complex	DNA binding|protein binding			ovary(1)	1	all_cancers(95;0.000465)		Epithelial(56;6.61e-06)|all cancers(55;5.15e-05)	GBM - Glioblastoma multiforme(265;0.0149)		AGGGACAGAATCCTAATGCCA	0.408													48	120					0	0	1	0	0		C	21957487	C	C	21957487	2	2	73	1	0	0	0	0	0	0	0	1	16406	1432	50	3		3	TOX4	14	21957487	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	469378	21957487	85392053	873	48110											
TOX4	9878	broad.mit.edu	37	chr14	21957499	21957499	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacagaatcctaatgccacTtttggtgaggtttcaaaaat	13	12	9	7	0	1	2	1	1	0	1	2	3	2	3	2	3	1	1	2	3	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:21957499T>C	uc001waz.2	+	5	850	c.747T>C	c.(745-747)ACT>ACC	p.T249T	TOX4_uc001way.2_Silent_p.T119T|TOX4_uc001wba.2_RNA|TOX4_uc010tlu.1_Silent_p.T226T|TOX4_uc010tlv.1_Silent_p.T119T	NM_014828	NP_055643	O94842	TOX4_HUMAN	epidermal Langerhans cell protein LCP1	249	HMG box.					chromatin|nucleus|PTW/PP1 phosphatase complex	DNA binding|protein binding			ovary(1)	1	all_cancers(95;0.000465)		Epithelial(56;6.61e-06)|all cancers(55;5.15e-05)	GBM - Glioblastoma multiforme(265;0.0149)		CTAATGCCACTTTTGGTGAGG	0.413													10	144					0	0	1	0	0		C	21957499	C	C	21957499	2	2	73	1	0	0	0	0	0	0	0	1	16406	1596	56	3		3	TOX4	14	21957499	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	12	21957499	85392041	874	48111											
C14orf93	60686	broad.mit.edu	37	chr14	23468135	23468135	+	Frame_Shift_Del	DEL	G	-	-																															gattcccaccctgggagcctGtgttgcctccattagtctca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:23468135delG	uc001wib.1	-	2	408	c.98delC	c.(97-99)ACAfs	p.T33fs	C14orf93_uc001wic.1_Intron|C14orf93_uc001wid.1_Frame_Shift_Del_p.T33fs|C14orf93_uc001wig.2_Frame_Shift_Del_p.T33fs|C14orf93_uc001wih.2_Frame_Shift_Del_p.T33fs|C14orf93_uc001wie.2_Frame_Shift_Del_p.T33fs|C14orf93_uc001wia.3_Frame_Shift_Del_p.T33fs|C14orf93_uc001wif.2_Intron	NM_021944	NP_068763	Q9H972	CN093_HUMAN	hypothetical protein LOC60686 precursor	33						extracellular region				ovary(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.0127)		CTGGGAGCCTGTGTTGCCTCC	0.582													28	47	---	---	---	---						.	-	23468135	-	-	23468135	7	5	73	1	0	1	0	1	0	0	0	0	1785	1377	48	0	1542	0	C14orf93	14	23468135	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	1510636	23468135	83881405	875	48112											
DCAF11	80344	broad.mit.edu	37	chr14	24586179	24586179	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaatttacaattcattcAggccctcttggactcagagg	12	11	8	10	0	4	1	3	0	1	1	4	2	4	2	1	3	2	1	1	3	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:24586179A>G	uc001wlv.2	+	3	489	c.209A>G	c.(208-210)CAG>CGG	p.Q70R	NRL_uc001wlq.2_5'Flank|DCAF11_uc001wlw.2_Missense_Mutation_p.Q70R|DCAF11_uc001wlz.2_5'UTR|DCAF11_uc001wly.2_Missense_Mutation_p.Q26R|DCAF11_uc001wme.2_Splice_Site_p.R52_splice|DCAF11_uc010tny.1_Splice_Site|DCAF11_uc001wmd.2_Missense_Mutation_p.Q70R|DCAF11_uc001wmc.2_5'UTR|DCAF11_uc001wmb.3_Splice_Site_p.A45_splice|DCAF11_uc001wma.3_Missense_Mutation_p.Q70R	NM_001163484	NP_001156956	Q8TEB1	DCA11_HUMAN	DDB1 and CUL4 associated factor 11 isoform 1	70						CUL4 RING ubiquitin ligase complex	protein binding				0						CAATTCATTCAGGCCCTCTTG	0.517													37	57					0	0	1	0	0		G	24586179	G	G	24586179	3	3	73	1	0	0	0	0	1	0	0	0	4265	202	7	3	215	3	DCAF11	14	24586179	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1118044	24586179	82763361	876	48113											
IRF9	10379	broad.mit.edu	37	chr14	24631403	24631403	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaactccggaactgggtggTggagcaagtggagagtgggc	11	6	18	6	1	0	1	0	0	0	1	1	4	1	3	1	6	3	1	1	6	4	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:24631403T>C	uc001wmq.2	+	2	177	c.50T>C	c.(49-51)GTG>GCG	p.V17A	RNF31_uc001wmp.2_RNA|IRF9_uc010alj.2_5'Flank	NM_006084	NP_006075	Q00978	IRF9_HUMAN	interferon-stimulated transcription factor 3,	17	IRF tryptophan pentad repeat.				interferon-gamma-mediated signaling pathway|response to virus|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|nucleoplasm	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00853)		AACTGGGTGGTGGAGCAAGTG	0.562													33	83					0	0	1	0	0		C	24631403	C	C	24631403	3	2	73	1	0	0	0	0	1	0	0	0	7853	1696	59	3	52	3	IRF9	14	24631403	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	45224	24631403	82718137	877	48114											
REC8	9985	broad.mit.edu	37	chr14	24648032	24648032	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggacccattgtgcccaGccacccccaaaagccctcag	9	6	7	19	0	2	0	1	0	1	0	2	1	2	1	6	1	3	0	6	1	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:24648032G>A	uc001wmr.2	+	16	1540	c.1113G>A	c.(1111-1113)CAG>CAA	p.Q371Q	REC8_uc001wms.2_Silent_p.Q371Q	NM_005132	NP_005123	O95072	REC8_HUMAN	REC8 homolog	371	Glu-rich.				mitotic metaphase/anaphase transition|mitotic prometaphase|reciprocal meiotic recombination|sister chromatid cohesion	nucleoplasm					0				GBM - Glioblastoma multiforme(265;0.00839)		ATTGTGCCCAGCCACCCCCAA	0.587													129	217					0	0	1	0	0		A	24648032	A	A	24648032	2	1	73	1	0	0	0	0	0	0	0	1	13224	962	34	2		2	REC8	14	24648032	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	16629	24648032	82701508	878	48115											
C14orf21	161424	broad.mit.edu	37	chr14	24771314	24771314	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcctcagtagatggcaggTatggtcagggcctcaggatc	8	10	14	9	0	3	1	3	0	0	1	5	2	4	2	2	5	0	4	2	5	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:24771314T>C	uc001wol.1	+	4	1013	c.950_splice	c.e4+2	p.S317_splice	C14orf21_uc001wom.1_5'Flank|DHRS1_uc001woj.1_5'Flank|DHRS1_uc001wok.2_5'Flank	NM_174913	NP_777573	Q86U38	CN021_HUMAN	hypothetical protein LOC161424								RNA binding			breast(2)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(265;0.0185)		AGATGGCAGGTATGGTCAGGG	0.488													51	131					0	0	1	0	0		C	24771314	C	C	24771314	5	2	73	1	0	0	0	0	0	0	1	0	1772	1652	57	3	966	3	C14orf21	14	24771314	Splice_Site	SNP	T	TCGA-BR-8372-01A-11D-2340-08	123282	24771314	82578226	879	48116											
CBLN3	643866	broad.mit.edu	37	chr14	24897157	24897157	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggatcattggcaaaggcTgagatgacaggccacgtgtt	11	9	13	8	1	2	2	2	2	0	1	2	4	2	3	1	4	0	3	1	4	1	2	rs144101051		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:24897157T>C	uc001wpg.3	-	3	927	c.456A>G	c.(454-456)TCA>TCG	p.S152S	KHNYN_uc010tpc.1_5'Flank|KHNYN_uc001wph.3_5'Flank|KHNYN_uc010alw.2_5'Flank	NM_001039771	NP_001034860	Q6UW01	CBLN3_HUMAN	cerebellin 3 precursor	152	Necessary for interaction with CBLN3, and homotrimerization (By similarity).|C1q.					cell junction|extracellular region|synapse				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(265;0.00159)		TGGCAAAGGCTGAGATGACAG	0.642													13	63					0	0	1	0	0		C	24897157	C	C	24897157	2	2	73	1	0	0	0	0	0	0	0	1	2709	1567	55	3		3	CBLN3	14	24897157	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	125843	24897157	82452383	880	48117											
KHNYN	23351	broad.mit.edu	37	chr14	24905387	24905387	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaatcatcagagaacggTgagggagccctcccgctgag	10	6	14	11	2	2	3	2	2	0	1	3	5	3	4	2	3	2	2	2	3	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:24905387T>C	uc001wph.3	+	6	1887	c.1685_splice	c.e6+2	p.R562_splice	KHNYN_uc010tpc.1_Splice_Site_p.R603_splice|KHNYN_uc010alw.2_Splice_Site_p.R562_splice	NM_015299	NP_056114	O15037	KHNYN_HUMAN	hypothetical protein LOC23351											ovary(2)|liver(1)	3						CAGAGAACGGTGAGGGAGCCC	0.542											OREG0022628	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	31					0	0	1	0	0		C	24905387	C	C	24905387	5	2	73	1	0	0	0	0	0	0	1	0	8166	1710	59	3	1705	3	KHNYN	14	24905387	Splice_Site	SNP	T	TCGA-BR-8372-01A-11D-2340-08	8230	24905387	82444153	881	48118											
STRN3	29966	broad.mit.edu	37	chr14	31398422	31398423	+	Frame_Shift_Ins	INS	-	C	C																															ttactcttcacccctttcttINScccctttcgttccttcttgt																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:31398422_31398423insC	uc001wqu.2	-	8	1299_1300	c.1083_1084insG	c.(1081-1086)GGGAAGfs	p.G361fs	STRN3_uc001wqv.2_Intron|STRN3_uc010tpj.1_Intron	NM_001083893	NP_001077362	Q13033	STRN3_HUMAN	nuclear autoantigen isoform 1	361_362					negative regulation of estrogen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|response to estradiol stimulus	cytoplasm|dendrite|Golgi apparatus|neuronal cell body|nucleoplasm|nucleus|plasma membrane|protein complex	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.0124)		ACCCCTTTCTTCCCCTTTCGTT	0.366													53	92	---	---	---	---						.	C	31398423	C	C	31398422	7	5	73	1	0	1	1	0	0	0	0	0	15355	1792	62	0	1353	0	STRN3	14	31398422	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	6493035	31398422	75951118	882	48119											
SEC23A	10484	broad.mit.edu	37	chr14	39556131	39556131	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctcttcatcatatttattAcctgttggaaggaggtggct	8	17	9	7	0	3	0	2	0	1	0	4	2	3	2	1	4	1	2	1	4	4	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:39556131A>G	uc001wup.1	-	6	906	c.683_splice	c.e6+1	p.R228_splice	SEC23A_uc010tqa.1_Splice_Site_p.R90_splice|SEC23A_uc010tqb.1_Splice_Site_p.R199_splice|SEC23A_uc010tqc.1_Splice_Site_p.R90_splice	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A						COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		CATATTTATTACCTGTTGGAA	0.383													9	25					0	0	1	0	0		G	39556131	G	G	39556131	5	3	73	1	0	0	0	0	0	0	1	0	14016	405	14	3	1672	3	SEC23A	14	39556131	Splice_Site	SNP	A	TCGA-BR-8372-01A-11D-2340-08	8157709	39556131	67793409	883	48120											
LRFN5	145581	broad.mit.edu	37	chr14	42356881	42356881	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttatcacaactgtaaaggaTacaggtgcttttacctgcat	12	13	7	9	0	1	0	1	0	0	0	1	1	1	1	1	2	5	3	1	2	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:42356881T>A	uc001wvm.2	+	3	2251	c.1053T>A	c.(1051-1053)GAT>GAA	p.D351E	LRFN5_uc010ana.2_Missense_Mutation_p.D351E	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	351	Extracellular (Potential).|Ig-like.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		CTGTAAAGGATACAGGTGCTT	0.388										HNSCC(30;0.082)			47	76					0	0	1	0	0		A	42356881	A	A	42356881	3	1	73	1	0	0	0	0	1	0	0	0	8959	1403	49	5	1055	5	LRFN5	14	42356881	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2800750	42356881	64992659	884	48121											
C14orf106	55320	broad.mit.edu	37	chr14	45697006	45697006	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgactcactgtgcttatTactcttcagttctatgaata	9	17	7	8	0	4	2	2	2	2	0	4	2	4	2	0	1	2	2	0	1	5	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:45697006T>C	uc001wwf.2	-	9	2065	c.1606A>G	c.(1606-1608)AAT>GAT	p.N536D	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	536					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						CTGTGCTTATTACTCTTCAGT	0.323													22	69					0	0	1	0	0		C	45697006	C	C	45697006	3	2	73	1	0	0	0	0	1	0	0	0	1741	1754	61	3	1828	3	C14orf106	14	45697006	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	3340125	45697006	61652534	885	48122											
C14orf106	55320	broad.mit.edu	37	chr14	45700418	45700418	+	Frame_Shift_Del	DEL	T	-	-																															tttggttttctcgtgcatcaTttttcattgatttccttatg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:45700418delT	uc001wwf.2	-	8	1979	c.1520delA	c.(1519-1521)AATfs	p.N507fs	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	507					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						TCGTGCATCATTTTTCATTGA	0.358													39	52	---	---	---	---						.	-	45700418	-	-	45700418	7	5	73	1	0	1	0	1	0	0	0	0	1741	1493	52	0	1918	0	C14orf106	14	45700418	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	3412	45700418	61649122	886	48123											
SDCCAG1	9147	broad.mit.edu	37	chr14	50269385	50269385	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaccaagaagttgaagagtAccttaaaaaggaagctaaac	20	7	8	6	0	0	3	0	1	0	2	0	4	0	4	2	1	4	3	2	1	11	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:50269385A>G	uc001wxc.2	-	21	2042	c.1974_splice	c.e21+1	p.K658_splice	SDCCAG1_uc010anj.1_Splice_Site_p.K658_splice|SDCCAG1_uc001wxa.2_5'Flank|SDCCAG1_uc010tqi.1_Splice_Site_p.K637_splice|SDCCAG1_uc001wxe.2_Splice_Site_p.K616_splice|SDCCAG1_uc001wxd.1_Splice_Site_p.K63_splice	NM_004713	NP_004704	O60524	NEMF_HUMAN	serologically defined colon cancer antigen 1							cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)		GTTGAAGAGTACCTTAAAAAG	0.323													17	55					0	0	1	0	0		G	50269385	G	G	50269385	5	3	73	1	0	0	0	0	0	0	1	0	13982	405	14	3	1306	3	SDCCAG1	14	50269385	Splice_Site	SNP	A	TCGA-BR-8372-01A-11D-2340-08	4568967	50269385	57080155	887	48124											
SOS2	6655	broad.mit.edu	37	chr14	50606709	50606709	+	Frame_Shift_Del	DEL	T	-	-																															gacttaagttttactaggtaTtttttaaagtgatcttgact																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:50606709delT	uc001wxs.3	-	17	2834	c.2736delA	c.(2734-2736)AAAfs	p.K912fs	SOS2_uc010tql.1_Frame_Shift_Del_p.K879fs|SOS2_uc010tqm.1_RNA	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	912	Ras-GEF.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TTACTAGGTATTTTTTAAAGT	0.259													29	45	---	---	---	---						.	-	50606709	-	-	50606709	7	5	73	1	0	1	0	1	0	0	0	0	14962	1490	52	0	1290	0	SOS2	14	50606709	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	337324	50606709	56742831	888	48125											
PTGDR	5729	broad.mit.edu	37	chr14	52735271	52735271	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggactgtgccgagccgCgcgcggacgggagggaagcg	7	2	20	12	7	0	0	0	0	0	0	0	5	0	4	3	4	3	0	3	4	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:52735271C>T	uc001wzq.2	+	1	841	c.739C>T	c.(739-741)CGC>TGC	p.R247C		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	247	Cytoplasmic (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	TGCCGAGCCGCGCGCGGACGG	0.682													39	79					0	0	1	0	0		T	52735271	T	T	52735271	3	4	73	1	0	0	0	0	1	0	0	0	12763	768	27	1	741	1	PTGDR	14	52735271	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2128562	52735271	54614269	889	48126											
MUDENG	55745	broad.mit.edu	37	chr14	57741070	57741070	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctctttgaacttagattAttggatgatgataaagactt	12	16	8	5	0	1	5	0	3	1	2	1	6	1	6	0	1	2	1	0	1	5	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:57741070A>G	uc001xcv.2	+	2	610	c.183A>G	c.(181-183)TTA>TTG	p.L61L	MUDENG_uc001xcu.3_Silent_p.L61L|MUDENG_uc010tri.1_Intron|MUDENG_uc010trj.1_5'UTR	NM_018229	NP_060699	Q9H0R1	MUDEN_HUMAN	Mu-2 related death-inducing protein	61					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex				ovary(1)	1						AACTTAGATTATTGGATGATG	0.418													27	67					0	0	1	0	0		G	57741070	G	G	57741070	2	3	73	1	0	0	0	0	0	0	0	1	10001	446	16	3		3	MUDENG	14	57741070	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	5005799	57741070	49608470	890	48127											
DAAM1	23002	broad.mit.edu	37	chr14	59798558	59798558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaaggaacagtatggaccGaaattgatgatacaaaagtc	17	8	11	5	1	0	2	0	2	0	0	1	6	0	5	1	3	2	1	1	3	7	3	rs139553997		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:59798558G>A	uc001xdz.1	+	15	2013	c.1888G>A	c.(1888-1890)GAA>AAA	p.E630K	DAAM1_uc001xea.1_Missense_Mutation_p.E630K	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of	630	FH2.				actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		AGTATGGACCGAAATTGATGA	0.353													61	137					0	0	1	0	0		A	59798558	A	A	59798558	3	1	73	1	0	0	0	0	1	0	0	0	4218	1059	37	1	1942	1	DAAM1	14	59798558	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2057488	59798558	47550982	891	48128											
C14orf135	64430	broad.mit.edu	37	chr14	60581848	60581848	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attggaaccaaatctaaggaTttacccagtggtccggaaaa	15	9	9	8	1	1	0	0	0	1	0	2	3	2	3	3	4	2	0	3	4	6	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:60581848T>C	uc001xer.3	+	3	846	c.324T>C	c.(322-324)GAT>GAC	p.D108D	C14orf135_uc001xeq.2_Silent_p.D108D	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	342						integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		AATCTAAGGATTTACCCAGTG	0.383													35	52					0	0	1	0	0		C	60581848	C	C	60581848	2	2	73	1	0	0	0	0	0	0	0	1	1748	1490	52	3		3	C14orf135	14	60581848	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	783290	60581848	46767692	892	48129											
SLC38A6	145389	broad.mit.edu	37	chr14	61518547	61518547	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttttctccaattttccaTtctcatggattcgccatttt	6	21	4	10	1	2	0	1	0	2	0	6	1	3	1	3	1	0	1	3	1	1	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:61518547T>C	uc001xfg.1	+	14	1209	c.1093T>C	c.(1093-1095)TTC>CTC	p.F365L	SLC38A6_uc001xfh.1_Missense_Mutation_p.F365L|SLC38A6_uc001xfi.2_RNA|SLC38A6_uc001xfj.1_RNA|SLC38A6_uc001xfk.2_RNA|SLC38A6_uc010trz.1_Missense_Mutation_p.F342L	NM_153811	NP_722518	Q8IZM9	S38A6_HUMAN	solute carrier family 38, member 6	365					amino acid transport|sodium ion transport	integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(108;0.0981)		CAATTTTCCATTCTCATGGAT	0.328													26	45					0	0	1	0	0		C	61518547	C	C	61518547	3	2	73	1	0	0	0	0	1	0	0	0	14633	1493	52	3	1147	3	SLC38A6	14	61518547	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	936699	61518547	45830993	893	48130											
RHOJ	57381	broad.mit.edu	37	chr14	63757612	63757612	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagatcggagcacagtgctActtggaatgttcagctctga	11	11	11	8	1	2	2	1	1	1	1	3	4	2	4	0	2	4	4	0	2	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:63757612A>G	uc001xgb.1	+	5	958	c.515A>G	c.(514-516)TAC>TGC	p.Y172C		NM_020663	NP_065714	Q9H4E5	RHOJ_HUMAN	ras homolog gene family, member J precursor	172					actin cytoskeleton organization|regulation of cell shape|regulation of small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.00326)|all cancers(60;0.031)|BRCA - Breast invasive adenocarcinoma(234;0.119)		GCACAGTGCTACTTGGAATGT	0.428													10	73					0	0	1	0	0		G	63757612	G	G	63757612	3	3	73	1	0	0	0	0	1	0	0	0	13366	391	14	3	533	3	RHOJ	14	63757612	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2239065	63757612	43591928	894	48131											
SYNE2	23224	broad.mit.edu	37	chr14	64491108	64491108	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgggtcaggaattcgaatTagaaaaaatggagtccatat	15	10	11	5	2	1	1	1	0	0	1	3	4	2	3	1	3	0	0	1	3	7	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:64491108T>A	uc001xgm.2	+	39	6001	c.5771T>A	c.(5770-5772)TTA>TAA	p.L1924*	SYNE2_uc001xgl.2_Nonsense_Mutation_p.L1924*	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	1924	Potential.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GAATTCGAATTAGAAAAAATG	0.443													25	43					0	0	1	0	0		A	64491108	A	A	64491108	4	1	73	1	0	0	0	0	0	1	0	0	15471	1764	61	5	5921	5	SYNE2	14	64491108	Nonsense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	733496	64491108	42858432	895	48132											
SPTB	6710	broad.mit.edu	37	chr14	65260496	65260496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctccagttgggccttccGcccagctgccatgttgctca	4	11	10	16	1	1	0	1	0	0	0	3	0	3	0	5	1	4	5	5	1	0	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:65260496G>A	uc001xht.2	-	13	1939	c.1885C>T	c.(1885-1887)CGG>TGG	p.R629W	SPTB_uc001xhr.2_Missense_Mutation_p.R629W|SPTB_uc001xhs.2_Missense_Mutation_p.R629W|SPTB_uc001xhu.2_Missense_Mutation_p.R629W	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	629	Spectrin 4.			RKA -> ART (in Ref. 1; AAA60578/ AAA60579).	actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TGGGCCTTCCGCCCAGCTGCC	0.552													16	46					0	0	1	0	0		A	65260496	A	A	65260496	3	1	73	1	0	0	0	0	1	0	0	0	15143	1086	38	1	5262	1	SPTB	14	65260496	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	769388	65260496	42089044	896	48133											
SPTB	6710	broad.mit.edu	37	chr14	65262178	65262178	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggtagctccataggcgCagtatattgtccttgcgggc	7	11	13	10	2	0	0	0	0	0	0	2	0	2	0	2	3	3	5	2	3	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:65262178C>T	uc001xht.2	-	11	1575	c.1521G>A	c.(1519-1521)CTG>CTA	p.L507L	SPTB_uc001xhr.2_Silent_p.L507L|SPTB_uc001xhs.2_Silent_p.L507L|SPTB_uc001xhu.2_Silent_p.L507L	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	507	Spectrin 3.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TCCATAGGCGCAGTATATTGT	0.612													24	53					0	0	1	0	0		T	65262178	T	T	65262178	2	4	73	1	0	0	0	0	0	0	0	1	15143	697	25	2		2	SPTB	14	65262178	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1682	65262178	42087362	897	48134											
SIPA1L1	26037	broad.mit.edu	37	chr14	72128176	72128176	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccgtgctctgacagtgtCtgttataggtgtgtatgggt	7	15	13	6	1	2	1	0	1	2	0	3	1	3	1	1	2	1	3	1	2	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:72128176C>A	uc001xms.2	+	7	2595	c.2247C>A	c.(2245-2247)GTC>GTA	p.V749V	SIPA1L1_uc001xmt.2_Silent_p.V749V|SIPA1L1_uc001xmu.2_Silent_p.V749V|SIPA1L1_uc001xmv.2_Silent_p.V749V|SIPA1L1_uc010ttm.1_Silent_p.V224V	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	749	Rap-GAP.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		CTGACAGTGTCTGTTATAGGT	0.522													24	27					2.44723e-14	2.66306e-14	1	1	0		A	72128176	A	A	72128176	2	1	73	1	0	0	0	0	0	0	0	1	14354	900	32	5		5	SIPA1L1	14	72128176	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	6865998	72128176	35221364	898	48135											
C14orf43	91748	broad.mit.edu	37	chr14	74206606	74206606	+	Frame_Shift_Del	DEL	G	-	-																															cttcactctgatggactgctGggggggctgcaggggagggg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:74206606delG	uc001xot.2	-	2	889	c.106delC	c.(106-108)CAGfs	p.Q36fs	C14orf43_uc001xou.2_Frame_Shift_Del_p.Q36fs|C14orf43_uc010tud.1_Frame_Shift_Del_p.Q36fs|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	36					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		ATGGACTGCTGGGGGGGCTGC	0.667													23	49	---	---	---	---						.	-	74206606	-	-	74206606	7	5	73	1	0	1	0	1	0	0	0	0	1777	1357	47	0	3075	0	C14orf43	14	74206606	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	2078430	74206606	33142934	899	48136											
C14orf43	91748	broad.mit.edu	37	chr14	74206625	74206625	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgggggggctgcaggggaggGggctgctccttgggagctgg	3	7	24	7	0	0	0	0	0	0	0	1	2	1	2	1	9	3	5	1	9	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:74206625G>T	uc001xot.2	-	2	870	c.87C>A	c.(85-87)CCC>CCA	p.P29P	C14orf43_uc001xou.2_Silent_p.P29P|C14orf43_uc010tud.1_Silent_p.P29P|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	29					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		GCAGGGGAGGGGGCTGCTCCT	0.652													7	49					0.00621372	0.00628276	1	1	0		T	74206625	T	T	74206625	2	4	73	1	0	0	0	0	0	0	0	1	1777	1219	43	5		5	C14orf43	14	74206625	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	19	74206625	33142915	900	48137											
RPS6KL1	83694	broad.mit.edu	37	chr14	75388063	75388063	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcactaacatcgcgctccAgggccagccggatctgcgtg	7	7	11	16	4	2	0	1	0	1	0	4	1	3	1	4	2	3	1	4	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:75388063A>G	uc010tux.1	-	2	710	c.182T>C	c.(181-183)CTG>CCG	p.L61P	RPS6KL1_uc001xqw.2_Missense_Mutation_p.L61P|RPS6KL1_uc010asd.1_RNA|RPS6KL1_uc001xqy.1_Missense_Mutation_p.L61P	NM_031464	NP_113652	Q9Y6S9	RPKL1_HUMAN	ribosomal protein S6 kinase-like 1	61						ribosome	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00658)		ATCGCGCTCCAGGGCCAGCCG	0.602													15	63					0	0	1	0	0		G	75388063	G	G	75388063	3	3	73	1	0	0	0	0	1	0	0	0	13684	188	7	3	1483	3	RPS6KL1	14	75388063	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1181438	75388063	31961477	901	48138											
TTLL5	23093	broad.mit.edu	37	chr14	76238159	76238159	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagacagtggcggtcagacgTtcagtgccagttgggctgcc	8	8	15	10	2	2	2	2	0	0	2	2	2	2	2	2	3	2	3	2	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:76238159T>C	uc001xrx.2	+	21	2303	c.2098T>C	c.(2098-2100)TTC>CTC	p.F700L	TTLL5_uc010ask.1_Missense_Mutation_p.F714L|TTLL5_uc001xrz.2_Missense_Mutation_p.F275L|TTLL5_uc001xry.1_RNA	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	700					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		CGGTCAGACGTTCAGTGCCAG	0.363													38	107					0	0	1	0	0		C	76238159	C	C	76238159	3	2	73	1	0	0	0	0	1	0	0	0	16756	1725	60	3	2176	3	TTLL5	14	76238159	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	850096	76238159	31111381	902	48139											
KIAA1737	85457	broad.mit.edu	37	chr14	77572054	77572054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctccagctgaataaaccatGgagaggaaaaacccatccag	16	5	8	12	0	0	2	0	1	0	1	2	4	2	3	5	2	3	1	5	2	5	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:77572054G>A	uc001xtd.2	+	2	182	c.3G>A	c.(1-3)ATG>ATA	p.M1I	KIAA1737_uc001xtc.1_5'UTR	NM_033426	NP_219494	Q9C0C6	K1737_HUMAN	KIAA1737 protein	1											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		AATAAACCATGGAGAGGAAAA	0.468													28	52					0	0	1	0	0		A	77572054	A	A	77572054	3	1	73	1	0	0	0	0	1	0	0	0	8271	1348	47	4	5	4	KIAA1737	14	77572054	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1333895	77572054	29777486	903	48140											
C14orf174	161394	broad.mit.edu	37	chr14	77844056	77844056	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagagacgtaccaagcgaaActgaaccagggatacaccaa	18	3	10	10	2	0	3	0	1	0	2	0	6	0	4	3	1	5	1	3	1	6	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:77844056A>G	uc001xtq.1	+	1	295	c.295A>G	c.(295-297)ACT>GCT	p.T99A	TMED8_uc010ast.1_5'Flank|TMED8_uc001xto.1_5'Flank	NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	99											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		ACCAAGCGAAACTGAACCAGG	0.507													27	118					0	0	1	0	0		G	77844056	G	G	77844056	3	3	73	1	0	0	0	0	1	0	0	0	1762	43	2	3	297	3	C14orf174	14	77844056	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	272002	77844056	29505484	904	48141											
C14orf174	161394	broad.mit.edu	37	chr14	77844361	77844361	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaatcacttagagtgcaAcatgaagagacaggtctaga	16	7	12	6	0	2	4	1	1	1	3	2	7	2	5	0	2	2	1	0	2	5	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:77844361A>G	uc001xtq.1	+	1	600	c.600A>G	c.(598-600)CAA>CAG	p.Q200Q	TMED8_uc010ast.1_5'Flank|TMED8_uc001xto.1_5'Flank	NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	200											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		TTAGAGTGCAACATGAAGAGA	0.473													20	71					0	0	1	0	0		G	77844361	G	G	77844361	2	3	73	1	0	0	0	0	0	0	0	1	1762	40	2	3		3	C14orf174	14	77844361	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	305	77844361	29505179	905	48142											
NRXN3	9369	broad.mit.edu	37	chr14	79434538	79434538	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatctctatatggctggtctGgcccaaggcatgtacagcaa	10	10	11	10	0	2	0	0	0	2	0	3	1	2	0	1	4	2	4	1	4	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:79434538G>A	uc001xun.2	+	11	2363	c.1872G>A	c.(1870-1872)CTG>CTA	p.L624L	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Silent_p.L749L	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	997	Extracellular (Potential).|Laminin G-like 5.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		TGGCTGGTCTGGCCCAAGGCA	0.488													6	68					0	0	1	0	0		A	79434538	A	A	79434538	2	1	73	1	0	0	0	0	0	0	0	1	10686	1335	47	4		4	NRXN3	14	79434538	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1590177	79434538	27915002	906	48143											
KCNK10	54207	broad.mit.edu	37	chr14	88652430	88652430	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctccacgctgagccttcGccgtgtctcccggaactcag	6	9	10	16	4	3	1	1	1	2	0	6	3	3	2	4	1	2	1	4	1	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:88652430G>A	uc001xwo.2	-	7	1523	c.1066C>T	c.(1066-1068)CGA>TGA	p.R356*	KCNK10_uc001xwm.2_Nonsense_Mutation_p.R361*|KCNK10_uc001xwn.2_Nonsense_Mutation_p.R361*	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	356	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						CTGAGCCTTCGCCGTGTCTCC	0.637													7	18					0	0	1	0	0		A	88652430	A	A	88652430	4	1	73	1	0	0	0	0	0	1	0	0	8075	1095	38	1	554	1	KCNK10	14	88652430	Nonsense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	9217892	88652430	18697110	907	48144											
TDP1	55775	broad.mit.edu	37	chr14	90450954	90450954	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagctgatctcatcagttacTtgatggcttataatgcccct	10	14	7	10	0	2	2	2	2	1	0	3	2	2	2	2	1	3	3	2	1	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:90450954T>C	uc001xxy.2	+	9	1278	c.979T>C	c.(979-981)TTG>CTG	p.L327L	TDP1_uc010atm.2_RNA|TDP1_uc001xxz.2_Silent_p.L327L|TDP1_uc010atn.2_Silent_p.L327L|TDP1_uc001xya.2_Silent_p.L88L|TDP1_uc001xyb.2_RNA|TDP1_uc010ato.2_Silent_p.L327L|TDP1_uc001xyd.1_5'Flank	NM_018319	NP_060789	Q9NUW8	TYDP1_HUMAN	tyrosyl-DNA phosphodiesterase 1	327					cell death|double-strand break repair|single strand break repair	cytoplasm|nucleus	3'-tyrosyl-DNA phosphodiesterase activity|double-stranded DNA binding|exonuclease activity|protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(154;0.185)		COAD - Colon adenocarcinoma(157;0.23)		CATCAGTTACTTGATGGCTTA	0.428								Repair_of_DNA-protein_crosslinks					69	108					0	0	1	0	0		C	90450954	C	C	90450954	2	2	73	1	0	0	0	0	0	0	0	1	15753	1606	56	3		3	TDP1	14	90450954	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1798524	90450954	16898586	908	48145											
CATSPERB	79820	broad.mit.edu	37	chr14	92126195	92126195	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttacctgcctttgtcgagTaaacctttccacgttgagaa	9	14	7	11	2	1	1	0	1	1	1	3	3	2	1	4	0	3	2	4	0	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:92126195T>C	uc001xzs.1	-	15	1558	c.1418A>G	c.(1417-1419)TAC>TGC	p.Y473C	CATSPERB_uc010aub.1_Intron	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	473					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				CTTTGTCGAGTAAACCTTTCC	0.328													28	61					0	0	1	0	0		C	92126195	C	C	92126195	3	2	73	1	0	0	0	0	1	0	0	0	2694	1638	57	3	1984	3	CATSPERB	14	92126195	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1675241	92126195	15223345	909	48146											
BTBD7	55727	broad.mit.edu	37	chr14	93709220	93709221	+	Frame_Shift_Ins	INS	-	T	T																															tggattttctctggtgtctgINSttttttgctctagtgtgtgt																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:93709220_93709221insT	uc001ybo.2	-	11	3123_3124	c.2797_2798insA	c.(2797-2799)ACAfs	p.T933fs	BTBD7_uc010aur.2_Frame_Shift_Ins_p.T458fs|BTBD7_uc010two.1_Frame_Shift_Ins_p.T753fs|BTBD7_uc001ybp.2_Frame_Shift_Ins_p.T582fs	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	933										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		TCTGGTGTCTGTTTTTTGCTCT	0.485													39	74	---	---	---	---						.	T	93709221	T	T	93709220	7	5	73	1	0	1	1	0	0	0	0	0	1549	1377	48	0	604	0	BTBD7	14	93709220	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	1583025	93709220	13640320	910	48147											
KIAA1409	57578	broad.mit.edu	37	chr14	94063774	94063774	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaaaccacctgctgaagtActccctggcacatgccttct	11	9	6	15	0	1	1	0	1	1	0	2	1	2	1	4	1	4	3	4	1	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:94063774A>G	uc001ybv.1	+	21	2812	c.2729A>G	c.(2728-2730)TAC>TGC	p.Y910C	KIAA1409_uc001ybs.1_Missense_Mutation_p.Y910C	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1087						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CTGCTGAAGTACTCCCTGGCA	0.468													18	76					0	0	1	0	0		G	94063774	G	G	94063774	3	3	73	1	0	0	0	0	1	0	0	0	8246	391	14	3	2811	3	KIAA1409	14	94063774	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	354554	94063774	13285766	911	48148											
ATG2B	55102	broad.mit.edu	37	chr14	96794867	96794867	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaactaagtcttgcttgAttacccttttaaaaaaaaaa	17	13	4	7	0	1	2	0	2	1	0	1	2	1	2	1	0	3	1	1	0	8	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:96794867A>G	uc001yfi.2	-	14	2345	c.1980T>C	c.(1978-1980)AAT>AAC	p.N660N		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	660										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		GTCTTGCTTGATTACCCTTTT	0.289													6	40					0	0	1	0	0		G	96794867	G	G	96794867	2	3	73	1	0	0	0	0	0	0	0	1	1095	330	12	3		3	ATG2B	14	96794867	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2731093	96794867	10554673	912	48149											
DEGS2	123099	broad.mit.edu	37	chr14	100615982	100615982	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcatctgcaccagcaccaGcaccagcaccgcccacttga	11	4	7	19	1	1	1	0	1	1	0	1	1	1	1	5	0	5	5	5	0	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:100615982G>A	uc001ygx.2	-	2	236	c.148C>T	c.(148-150)CTG>TTG	p.L50L		NM_206918	NP_996801	Q6QHC5	DEGS2_HUMAN	degenerative spermatocyte homolog 2, lipid	50	Helical; (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	sphingosine hydroxylase activity				0		Melanoma(154;0.212)				ACCAGCACCAGCACCAGCACC	0.677													6	9					0	0	1	0	0		A	100615982	A	A	100615982	2	1	73	1	0	0	0	0	0	0	0	1	4429	962	34	2		2	DEGS2	14	100615982	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3821115	100615982	6733558	913	48150											
SLC25A29	123096	broad.mit.edu	37	chr14	100759713	100759713	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgctctggacctgaagccgtAcctggaaggagagggtccag	9	6	15	11	2	1	2	0	1	1	1	2	5	2	4	4	4	2	2	4	4	3	1	rs149547960		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:100759713A>G	uc001yha.2	-	3	371	c.80T>C	c.(79-81)GTA>GCA	p.V27A	SLC25A29_uc010avv.2_5'UTR|SLC25A29_uc010twx.1_Missense_Mutation_p.Y5H	NM_001039355	NP_001034444	Q8N8R3	MCATL_HUMAN	solute carrier family 25, member 29	27	Solcar 1.					integral to membrane|mitochondrial inner membrane	binding			ovary(1)	1		Melanoma(154;0.152)			L-Carnitine(DB00583)	CTGAAGCCGTACCTGGAAGGA	0.627													5	24					0	0	1	0	0		G	100759713	G	G	100759713	3	3	73	1	0	0	0	0	1	0	0	0	14517	405	14	3	839	3	SLC25A29	14	100759713	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	143731	100759713	6589827	914	48151											
DLK1	8788	broad.mit.edu	37	chr14	101193431	101193431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgaccgaagccctcctgcGcgtcctcttgctcctgctgg	3	9	11	18	5	1	0	0	0	1	0	4	2	4	0	5	1	4	2	5	1	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:101193431G>A	uc001yhs.3	+	1	179	c.26G>A	c.(25-27)CGC>CAC	p.R9H	DLK1_uc001yhu.3_Missense_Mutation_p.R9H	NM_003836	NP_003827	P80370	DLK1_HUMAN	delta-like 1 homolog precursor	9					multicellular organismal development	extracellular space|integral to membrane|soluble fraction				ovary(2)|breast(1)|skin(1)	4		Melanoma(154;0.155)				GCCCTCCTGCGCGTCCTCTTG	0.711													7	14					0	0	1	0	0		A	101193431	A	A	101193431	3	1	73	1	0	0	0	0	1	0	0	0	4570	1087	38	1	28	1	DLK1	14	101193431	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	433718	101193431	6156109	915	48152											
DIO3	1735	broad.mit.edu	37	chr14	102027850	102027850	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatgcctcgccaggccaCgtcgcggttggtggtcggag	5	7	16	13	5	0	1	0	0	0	1	3	2	0	2	4	5	1	1	4	5	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:102027850C>T	uc010txq.1	+	1	163	c.-61C>T	c.(-63--59)CACGT>CATGT		DIO3OS_uc001ykd.1_5'Flank|uc001yke.2_5'Flank|uc001ykf.2_5'Flank|uc001ykg.2_5'Flank|uc001ykh.3_5'Flank|MIR1247_hsa-mir-1247|MI0006382_5'Flank	NM_001362	NP_001353	P55073	IOD3_HUMAN	deiodinase, iodothyronine, type III						cellular nitrogen compound metabolic process|hormone biosynthetic process	endosome membrane|integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|thyroxine 5-deiodinase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(303;0.185)				CGCCAGGCCACGTCGCGGTTG	0.677													8	11					0	0	1	0	0		T	102027850	T	T	102027850	1	4	73	1	0	0	0	0	0	0	0	0	4532	536	19	1		1	DIO3	14	102027850	Translation_Start_Site	SNP	C	TCGA-BR-8372-01A-11D-2340-08	834419	102027850	5321690	916	48153											
DIO3	1735	broad.mit.edu	37	chr14	102027918	102027918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgcagccaccatgctcCgctccctgctgcttcactcc	4	9	8	20	1	1	0	1	0	0	0	4	0	4	0	6	1	5	5	6	1	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:102027918C>T	uc010txq.1	+	1	231	c.7C>T	c.(7-9)CGC>TGC	p.R3C	DIO3OS_uc001ykd.1_5'Flank|uc001yke.2_5'Flank|uc001ykf.2_5'Flank|uc001ykg.2_5'Flank|uc001ykh.3_5'Flank|MIR1247_hsa-mir-1247|MI0006382_5'Flank	NM_001362	NP_001353	P55073	IOD3_HUMAN	deiodinase, iodothyronine, type III	3	Cytoplasmic (Potential).			R -> H (in Ref. 1; AAB35616).	cellular nitrogen compound metabolic process|hormone biosynthetic process	endosome membrane|integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|thyroxine 5-deiodinase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(303;0.185)				CACCATGCTCCGCTCCCTGCT	0.687													8	34					0	0	1	0	0		T	102027918	T	T	102027918	3	4	73	1	0	0	0	0	1	0	0	0	4532	652	23	1	87	1	DIO3	14	102027918	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	68	102027918	5321622	917	48154											
DYNC1H1	1778	broad.mit.edu	37	chr14	102515817	102515817	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccactacacggtgcctgcCggcatgaccgtcatccagtg	7	8	10	16	3	1	1	1	1	0	0	3	1	3	1	5	2	3	1	5	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:102515817C>T	uc001yks.2	+	75	13577	c.13413C>T	c.(13411-13413)GCC>GCT	p.A4471A		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	4471					cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CGGTGCCTGCCGGCATGACCG	0.602													16	40					0	0	1	0	0		T	102515817	T	T	102515817	2	4	73	1	0	0	0	0	0	0	0	1	4847	639	23	1		1	DYNC1H1	14	102515817	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	487899	102515817	4833723	918	48155											
KLC1	3831	broad.mit.edu	37	chr14	104139404	104139404	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttaaataacttggccttActgtgccagaaccagggcaa	13	9	9	10	0	0	1	0	0	0	1	0	1	0	1	3	2	4	2	3	2	6	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:104139404A>G	uc001yno.2	+	8	1349	c.1041A>G	c.(1039-1041)TTA>TTG	p.L347L	KLC1_uc010tyd.1_Silent_p.L506L|KLC1_uc010tye.1_Silent_p.L343L|KLC1_uc001ynm.1_Silent_p.L347L|KLC1_uc001ynn.1_Silent_p.L341L|KLC1_uc010tyf.1_Silent_p.L347L|KLC1_uc001ynp.1_5'Flank|KLC1_uc001ynr.1_5'Flank|KLC1_uc010awu.1_5'Flank|KLC1_uc001ynq.1_5'Flank|KLC1_uc001yns.2_5'Flank	NM_182923	NP_891553	Q07866	KLC1_HUMAN	kinesin light chain 1 isoform 2	347	TPR 4.				blood coagulation|microtubule-based movement|stress granule disassembly	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0		Melanoma(154;0.155)|all_epithelial(191;0.19)				ACTTGGCCTTACTGTGCCAGA	0.438													23	35					0	0	1	0	0		G	104139404	G	G	104139404	2	3	73	1	0	0	0	0	0	0	0	1	8349	388	14	3		3	KLC1	14	104139404	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1623587	104139404	3210136	919	48156											
AHNAK2	113146	broad.mit.edu	37	chr14	105407107	105407107	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctccagggctaagaggaGacatgactggggcacccact	10	8	12	11	0	1	3	0	1	1	2	2	4	1	3	2	4	0	2	2	4	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:105407107G>T	uc010axc.1	-	7	14801	c.14681C>A	c.(14680-14682)TCT>TAT	p.S4894Y	AHNAK2_uc001ypx.2_Missense_Mutation_p.S4794Y	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4894						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GCTAAGAGGAGACATGACTGG	0.542													29	37					1.39806e-14	1.52363e-14	1	1	0		T	105407107	T	T	105407107	3	4	73	1	0	0	0	0	1	0	0	0	415	942	33	5	2710	5	AHNAK2	14	105407107	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1267703	105407107	1942433	920	48157											
AHNAK2	113146	broad.mit.edu	37	chr14	105410777	105410777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catggaggggagactcacatCggcttccaccttgggtgcag	8	8	14	11	1	1	1	1	0	0	1	3	3	2	2	2	5	1	2	2	5	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:105410777C>T	uc010axc.1	-	7	11131	c.11011G>A	c.(11011-11013)GAT>AAT	p.D3671N	AHNAK2_uc001ypx.2_Missense_Mutation_p.D3571N	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3671						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			AGACTCACATCGGCTTCCACC	0.582													81	165					0	0	1	0	0		T	105410777	T	T	105410777	3	4	73	1	0	0	0	0	1	0	0	0	415	884	31	1	6380	1	AHNAK2	14	105410777	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3670	105410777	1938763	921	48158											
AHNAK2	113146	broad.mit.edu	37	chr14	105415855	105415855	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttggcagtcatgtccttgTcggccagggacaggtctccc	5	11	12	13	1	2	0	1	0	1	0	5	1	3	1	3	4	0	1	3	4	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr14:105415855T>C	uc010axc.1	-	7	6053	c.5933A>G	c.(5932-5934)GAC>GGC	p.D1978G	AHNAK2_uc001ypx.2_Missense_Mutation_p.D1878G	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1978						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CATGTCCTTGTCGGCCAGGGA	0.607													117	196					0	0	1	0	0		C	105415855	C	C	105415855	3	2	73	1	0	0	0	0	1	0	0	0	415	1667	58	3	11458	3	AHNAK2	14	105415855	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	5078	105415855	1933685	922	48159											
C15orf2	23742	broad.mit.edu	37	chr15	24923624	24923624	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagcattgcctcagcccaAgtctccaccagttttcctgc	8	10	7	16	0	2	0	1	0	1	0	4	1	3	0	5	0	4	2	5	0	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:24923624A>G	uc001ywo.2	+	1	3084	c.2610A>G	c.(2608-2610)CAA>CAG	p.Q870Q		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	870					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CCTCAGCCCAAGTCTCCACCA	0.498													41	77					0	0	1	0	0		G	24923624	G	G	24923624	2	3	73	1	0	0	0	0	0	0	0	1	1787	69	3	3		3	C15orf2	15	24923624	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08		24923624	77607768	923	48160											
GABRB3	2562	broad.mit.edu	37	chr15	26806130	26806130	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgccttggctgtcttttcTgcaagcttcttctgcctttg	2	20	8	11	0	4	0	0	0	4	0	4	0	4	0	2	1	4	3	2	1	1	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:26806130T>C	uc001zaz.2	-	8	1171	c.1029A>G	c.(1027-1029)GCA>GCG	p.A343A	GABRB3_uc010uae.1_Silent_p.A258A|GABRB3_uc001zba.2_Silent_p.A343A|GABRB3_uc001zbb.2_Silent_p.A399A	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	343	Cytoplasmic (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	CTGTCTTTTCTGCAAGCTTCT	0.522													58	98					0	0	1	0	0		C	26806130	C	C	26806130	2	2	73	1	0	0	0	0	0	0	0	1	6182	1567	55	3		3	GABRB3	15	26806130	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1882506	26806130	75725262	924	48161											
HERC2	8924	broad.mit.edu	37	chr15	28408274	28408274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccatgccggaaagcaccGcggagagcacatccctgccc	9	4	10	18	3	0	1	0	0	0	1	2	3	2	2	6	2	4	2	6	2	1	0	rs151205330	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:28408274G>A	uc001zbj.2	-	69	10818	c.10712C>T	c.(10711-10713)GCG>GTG	p.A3571V		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3571					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GGAAAGCACCGCGGAGAGCAC	0.647													25	44					0	0	1	0	0		A	28408274	A	A	28408274	3	1	73	1	0	0	0	0	1	0	0	0	7074	1087	38	1	3892	1	HERC2	15	28408274	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1602144	28408274	74123118	925	48162											
HERC2	8924	broad.mit.edu	37	chr15	28460840	28460840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagcagcgtgatccactgcGgggagctgagggcgccgcat	7	6	17	11	4	0	3	0	3	0	0	1	4	1	4	2	3	4	3	2	3	0	0	rs141981089		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:28460840G>A	uc001zbj.2	-	39	6243	c.6137C>T	c.(6136-6138)CCG>CTG	p.P2046L		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2046					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GATCCACTGCGGGGAGCTGAG	0.627													7	20					0	0	1	0	0		A	28460840	A	A	28460840	3	1	73	1	0	0	0	0	1	0	0	0	7074	1116	39	1	8587	1	HERC2	15	28460840	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	52566	28460840	74070552	926	48163											
APBA2	321	broad.mit.edu	37	chr15	29368282	29368282	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaggtggcatcatttccaAgttttgtggctggtaagtga	10	13	13	5	0	1	2	1	1	0	1	2	2	2	2	1	4	0	4	1	4	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:29368282A>G	uc001zck.2	+	5	1264	c.1057A>G	c.(1057-1059)AGT>GGT	p.S353G	APBA2_uc010azj.2_Missense_Mutation_p.S353G|APBA2_uc010uat.1_Missense_Mutation_p.S353G|APBA2_uc001zcl.2_Missense_Mutation_p.S353G|APBA2_uc001zcm.1_Missense_Mutation_p.S57G	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	353					nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		ATCATTTCCAAGTTTTGTGGC	0.378													38	76					0	0	1	0	0		G	29368282	G	G	29368282	3	3	73	1	0	0	0	0	1	0	0	0	757	72	3	3	1067	3	APBA2	15	29368282	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	907442	29368282	73163110	927	48164											
APBA2	321	broad.mit.edu	37	chr15	29385292	29385292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcagttccagggccctgcGaaccagaagacctcatcgac	10	7	9	15	2	2	2	2	0	0	2	4	4	3	2	4	1	2	1	4	1	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:29385292G>A	uc001zck.2	+	6	1291	c.1084G>A	c.(1084-1086)GAA>AAA	p.E362K	APBA2_uc010azj.2_Missense_Mutation_p.E362K|APBA2_uc010uat.1_Missense_Mutation_p.E362K|APBA2_uc001zcl.2_Missense_Mutation_p.E362K|APBA2_uc001zcm.1_Missense_Mutation_p.E66K	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	362					nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		AGGGCCCTGCGAACCAGAAGA	0.522													20	53					0	0	1	0	0		A	29385292	A	A	29385292	3	1	73	1	0	0	0	0	1	0	0	0	757	1059	37	1	1098	1	APBA2	15	29385292	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	17010	29385292	73146100	928	48165											
ARHGAP11B	89839	broad.mit.edu	37	chr15	30919028	30919028	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatcgacgtatccggaatgtGggatcagaggctggtgaagt	10	10	15	6	3	1	2	1	1	0	1	3	5	2	4	1	4	0	2	1	4	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:30919028G>A	uc001zet.1	+	1	150	c.5G>A	c.(4-6)TGG>TAG	p.W2*	ARHGAP11B_uc010azv.1_Intron|ARHGAP11B_uc001zeu.2_RNA	NM_001039841	NP_001034930	Q3KRB8	RHGBB_HUMAN	Rho GTPase activating protein 11B	2					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0		all_lung(180;2.71e-09)|Breast(32;0.00116)		all cancers(64;1.9e-15)|Epithelial(43;3.59e-12)|GBM - Glioblastoma multiforme(186;9e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)|Lung(196;0.153)		TCCGGAATGTGGGATCAGAGG	0.537													15	26					0	0	1	0	0		A	30919028	A	A	30919028	4	1	73	1	0	0	0	0	0	1	0	0	864	1357	47	4	7	4	ARHGAP11B	15	30919028	Nonsense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1533736	30919028	71612364	929	48166											
ZNF770	54989	broad.mit.edu	37	chr15	35274313	35274313	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctgatgaaccacagatTgacaagtctttcttattcac	12	13	5	11	0	4	4	2	3	2	1	4	4	4	4	2	0	1	0	2	0	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:35274313T>C	uc001ziw.2	-	3	1634	c.1323A>G	c.(1321-1323)TCA>TCG	p.S441S		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	441					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		AACCACAGATTGACAAGTCTT	0.343													6	101					0	0	1	0	0		C	35274313	C	C	35274313	2	2	73	1	0	0	0	0	0	0	0	1	18168	1799	63	3		3	ZNF770	15	35274313	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4355285	35274313	67257079	930	48167											
CHAC1	79094	broad.mit.edu	37	chr15	41245679	41245679	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggggcgctcagctggagctAccgagcggtgccaggccagg	6	4	19	12	3	1	0	1	0	0	0	1	2	1	1	3	6	5	3	3	6	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:41245679A>T	uc001znh.2	+	1	44	c.24A>T	c.(22-24)CTA>CTT	p.L8L	CHAC1_uc010uct.1_Silent_p.L8L	NM_024111	NP_077016	Q9BUX1	CHAC1_HUMAN	ChaC, cation transport regulator-like 1 isoform	8					apoptosis in response to endoplasmic reticulum stress|response to unfolded protein	cytosol	protein binding				0		all_cancers(109;1.42e-13)|all_epithelial(112;1.48e-11)|Lung NSC(122;5.77e-09)|all_lung(180;1.08e-07)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;2.66e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.163)		AGCTGGAGCTACCGAGCGGTG	0.706													4	5					0	0	1	0	0		T	41245679	T	T	41245679	2	4	73	1	0	0	0	0	0	0	0	1	3311	378	14	5		5	CHAC1	15	41245679	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	5971366	41245679	61285713	931	48168											
RTF1	23168	broad.mit.edu	37	chr15	41762573	41762573	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcatcacgaacatcatcGtctgatgaagaagaggagta	14	8	10	9	3	4	4	3	2	1	2	5	6	4	5	0	1	1	2	0	1	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:41762573G>A	uc001zny.2	+	7	1020	c.1008G>A	c.(1006-1008)TCG>TCA	p.S336S		NM_015138	NP_055953	Q92541	RTF1_HUMAN	Paf1/RNA polymerase II complex component	336	Glu-rich.				histone modification|regulation of transcription, DNA-dependent|transcription initiation, DNA-dependent	nucleoplasm	protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(109;1.79e-19)|all_epithelial(112;8.18e-17)|Lung NSC(122;3.16e-11)|all_lung(180;8.14e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;1.15e-16)|GBM - Glioblastoma multiforme(113;1.81e-06)|BRCA - Breast invasive adenocarcinoma(123;0.119)		GAACATCATCGTCTGATGAAG	0.438													109	203					0	0	1	0	0		A	41762573	A	A	41762573	2	1	73	1	0	0	0	0	0	0	0	1	13746	1132	40	1		1	RTF1	15	41762573	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	516894	41762573	60768819	932	48169											
TUBGCP4	27229	broad.mit.edu	37	chr15	43672327	43672327	+	Frame_Shift_Del	DEL	G	-	-																															cagtctacaaacacagctgtGgggggttgcctcctgttcga																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:43672327delG	uc001zro.2	+	6	727	c.487delG	c.(487-489)GGGfs	p.G163fs	TUBGCP4_uc001zrn.2_Frame_Shift_Del_p.G163fs|TUBGCP4_uc010bdh.2_RNA	NM_014444	NP_055259	Q9UGJ1	GCP4_HUMAN	tubulin, gamma complex associated protein 4	163					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	structural constituent of cytoskeleton			ovary(3)	3		all_cancers(109;1.27e-10)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.72e-06)|all_lung(180;1.59e-05)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;3.53e-07)		ACACAGCTGTGGGGGGTTGCC	0.453													20	32	---	---	---	---						.	-	43672327	-	-	43672327	7	5	73	1	0	1	0	1	0	0	0	0	16794	1348	47	0	509	0	TUBGCP4	15	43672327	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	1909754	43672327	58859065	933	48170											
TUBGCP4	27229	broad.mit.edu	37	chr15	43678008	43678008	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgcctgattgaggaagagaAcatgctggcaccatctctga	11	8	12	10	1	1	4	0	3	1	1	2	6	1	5	2	2	2	2	2	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:43678008A>G	uc001zro.2	+	8	983	c.743A>G	c.(742-744)AAC>AGC	p.N248S	TUBGCP4_uc001zrn.2_Missense_Mutation_p.N248S|TUBGCP4_uc010bdh.2_RNA	NM_014444	NP_055259	Q9UGJ1	GCP4_HUMAN	tubulin, gamma complex associated protein 4	248					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	structural constituent of cytoskeleton			ovary(3)	3		all_cancers(109;1.27e-10)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.72e-06)|all_lung(180;1.59e-05)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;3.53e-07)		GAGGAAGAGAACATGCTGGCA	0.433													27	34					0	0	1	0	0		G	43678008	G	G	43678008	3	3	73	1	0	0	0	0	1	0	0	0	16794	43	2	3	773	3	TUBGCP4	15	43678008	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	5681	43678008	58853384	934	48171											
MAP1A	4130	broad.mit.edu	37	chr15	43821953	43821953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaccttgacttcttccgtcGagtgcgtgcatcctactatg	6	14	9	12	3	1	2	0	2	1	0	4	3	3	2	3	0	3	1	3	0	2	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:43821953G>A	uc001zrt.2	+	5	8608	c.8141G>A	c.(8140-8142)CGA>CAA	p.R2714Q		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	2714						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	TTCTTCCGTCGAGTGCGTGCA	0.582													35	65					0	0	1	0	0		A	43821953	A	A	43821953	3	1	73	1	0	0	0	0	1	0	0	0	9245	1058	37	1	8147	1	MAP1A	15	43821953	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	143945	43821953	58709439	935	48172											
PDIA3	2923	broad.mit.edu	37	chr15	44048950	44048950	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaagcaggtgcttatgatgGacctaggactgctggtaagg	11	9	15	6	0	0	2	0	1	0	1	0	4	0	4	1	5	3	4	1	5	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:44048950G>T	uc001zsu.2	+	3	498	c.350G>T	c.(349-351)GGA>GTA	p.G117V	PDIA3_uc010bdp.2_Missense_Mutation_p.G97V|PDIA3_uc010ued.1_5'UTR	NM_005313	NP_005304	P30101	PDIA3_HUMAN	protein disulfide-isomerase A3 precursor	117	Thioredoxin 1.				cell redox homeostasis|glycerol ether metabolic process|post-translational protein modification|protein folding|protein import into nucleus|protein N-linked glycosylation via asparagine|protein retention in ER lumen|signal transduction	endoplasmic reticulum lumen|melanosome	cysteine-type endopeptidase activity|electron carrier activity|phospholipase C activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)|skin(1)	2		all_cancers(109;2.61e-15)|all_epithelial(112;1.12e-12)|Lung NSC(122;2.17e-08)|all_lung(180;2.45e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.48e-07)		GCTTATGATGGACCTAGGACT	0.383													51	74					2.0833e-19	2.31195e-19	1	1	0		T	44048950	T	T	44048950	3	4	73	1	0	0	0	0	1	0	0	0	11688	1174	41	5	360	5	PDIA3	15	44048950	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	226997	44048950	58482442	936	48173											
ELL3	80237	broad.mit.edu	37	chr15	44066518	44066518	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtcctgctcataggcatgTtgctgttctgcactgtggat	7	14	11	9	0	2	0	1	0	1	0	3	1	3	1	1	2	3	6	1	2	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:44066518T>C	uc001zsw.1	-	9	1303	c.900A>G	c.(898-900)CAA>CAG	p.Q300Q	ELL3_uc001zsv.1_Silent_p.Q254Q|ELL3_uc001zsx.1_Silent_p.Q185Q|uc001zsy.2_5'Flank	NM_025165	NP_079441	Q9HB65	ELL3_HUMAN	elongation factor RNA polymerase II-like 3	300					positive regulation of transcription elongation, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				ovary(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;7.81e-07)		CATAGGCATGTTGCTGTTCTG	0.527													36	49					0	0	1	0	0		C	44066518	C	C	44066518	2	2	73	1	0	0	0	0	0	0	0	1	5072	1722	60	3		3	ELL3	15	44066518	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	17568	44066518	58464874	937	48174											
MYEF2	50804	broad.mit.edu	37	chr15	48441449	48441449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaaaatcctcgatccatatCgatgctcctttccagtatag	12	13	5	11	2	0	0	0	0	0	0	6	2	4	0	4	0	1	2	4	0	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:48441449C>T	uc001zwi.3	-	15	1622	c.1498G>A	c.(1498-1500)GAT>AAT	p.D500N	MYEF2_uc001zwg.3_Missense_Mutation_p.D38N|MYEF2_uc001zwh.3_Missense_Mutation_p.D88N|MYEF2_uc001zwj.3_Missense_Mutation_p.D476N	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	500	Gly-rich.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		CGATCCATATCGATGCTCCTT	0.463													7	94					0	0	1	0	0		T	48441449	T	T	48441449	3	4	73	1	0	0	0	0	1	0	0	0	10042	884	31	1	316	1	MYEF2	15	48441449	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4374931	48441449	54089943	938	48175											
SLC12A1	6557	broad.mit.edu	37	chr15	48533725	48533725	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttaaaggatccccaagatgCcatccccagaggaaccatgc	13	7	8	13	0	0	2	0	0	0	2	2	4	2	4	6	2	3	0	6	2	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:48533725C>A	uc001zwn.3	+	10	1445	c.1229C>A	c.(1228-1230)GCC>GAC	p.A410D	SLC12A1_uc010uew.1_Missense_Mutation_p.A216D|SLC12A1_uc010bem.2_Missense_Mutation_p.A410D|SLC12A1_uc001zwq.3_Missense_Mutation_p.A181D|SLC12A1_uc001zwr.3_Missense_Mutation_p.A137D	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	410	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	CCCCAAGATGCCATCCCCAGA	0.408													45	129					1.61863e-15	1.77064e-15	1	1	0		A	48533725	A	A	48533725	3	1	73	1	0	0	0	0	1	0	0	0	14407	739	26	5	1363	5	SLC12A1	15	48533725	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	92276	48533725	53997667	939	48176											
TRPM7	54822	broad.mit.edu	37	chr15	50884706	50884706	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtttttaatgtatctacCgtcagggctgaaagatcttg	10	15	10	6	1	3	2	1	1	2	1	3	2	3	2	1	1	1	3	1	1	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:50884706C>T	uc001zyt.3	-	26	3990	c.3726G>A	c.(3724-3726)ACG>ACA	p.T1242T	TRPM7_uc010bew.1_Silent_p.T1242T	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	1242	Cytoplasmic (Potential).|By similarity.				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		ATGTATCTACCGTCAGGGCTG	0.388													61	116					0	0	1	0	0		T	50884706	T	T	50884706	2	4	73	1	0	0	0	0	0	0	0	1	16617	639	23	1		1	TRPM7	15	50884706	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2350981	50884706	51646686	940	48177											
AP4E1	23431	broad.mit.edu	37	chr15	51242094	51242094	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaggaggagatgtaatgcAtcctgatattcccaataact	14	11	9	7	0	0	2	0	1	0	1	2	4	2	3	2	2	2	3	2	2	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:51242094A>G	uc001zyx.1	+	12	1418	c.1388A>G	c.(1387-1389)CAT>CGT	p.H463R		NM_007347	NP_031373	Q9UPM8	AP4E1_HUMAN	adaptor-related protein complex 4, epsilon 1	463					intracellular protein transport|vesicle-mediated transport	COPI vesicle coat	binding|structural molecule activity				0				all cancers(107;0.000893)|GBM - Glioblastoma multiforme(94;0.00364)		GATGTAATGCATCCTGATATT	0.338													27	74					0	0	1	0	0		G	51242094	G	G	51242094	3	3	73	1	0	0	0	0	1	0	0	0	752	217	8	3	1434	3	AP4E1	15	51242094	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	357388	51242094	51289298	941	48178											
MYO5A	4644	broad.mit.edu	37	chr15	52643603	52643603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcggtcacctctggggcacTtttctcactgagggccttgc	4	11	13	13	1	3	1	2	1	2	0	4	1	3	1	2	5	1	1	2	5	0	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:52643603T>C	uc002aby.2	-	28	3941	c.3697A>G	c.(3697-3699)AGT>GGT	p.S1233G	MYO5A_uc002abx.3_Missense_Mutation_p.S1233G|MYO5A_uc010ugd.1_5'UTR|MYO5A_uc002aca.1_5'UTR|MYO5A_uc002acb.1_5'UTR|MYO5A_uc002acc.1_5'UTR	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	1233	Potential.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		TCTGGGGCACTTTTCTCACTG	0.498													37	93					0	0	1	0	0		C	52643603	C	C	52643603	3	2	73	1	0	0	0	0	1	0	0	0	10096	1609	56	3	1926	3	MYO5A	15	52643603	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1401509	52643603	49887789	942	48179											
MYO5A	4644	broad.mit.edu	37	chr15	52688528	52688528	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttaccatattgaattgttgCtgtagtttttcatttgcata	9	20	6	6	0	1	1	1	1	0	0	1	1	1	1	1	0	3	5	1	0	5	10			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:52688528C>T	uc002aby.2	-	11	1630	c.1386G>A	c.(1384-1386)CAG>CAA	p.Q462Q	MYO5A_uc002abx.3_Silent_p.Q462Q|MYO5A_uc010uge.1_Silent_p.Q331Q	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	462	Myosin head-like.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		TGAATTGTTGCTGTAGTTTTT	0.284													3	8					0	0	1	0	0		T	52688528	T	T	52688528	2	4	73	1	0	0	0	0	0	0	0	1	10096	796	28	2		2	MYO5A	15	52688528	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	44925	52688528	49842864	943	48180											
UNC13C	440279	broad.mit.edu	37	chr15	54307979	54307979	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacattcctgaacagccagTggagatcacaaagccaaaga	18	5	8	10	0	1	3	1	1	0	2	2	4	2	3	3	1	4	0	3	1	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:54307979T>C	uc002ack.2	+	1	2879	c.2879T>C	c.(2878-2880)GTG>GCG	p.V960A		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	960					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GAACAGCCAGTGGAGATCACA	0.403													7	25					0	0	1	0	0		C	54307979	C	C	54307979	3	2	73	1	0	0	0	0	1	0	0	0	17012	1696	59	3	2881	3	UNC13C	15	54307979	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1619451	54307979	48223413	944	48181											
HERC1	8925	broad.mit.edu	37	chr15	64056318	64056318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcaaagagacataatgctgCctcgtaaagggagcacaagc	15	7	10	9	1	1	1	1	0	0	1	2	3	1	2	1	1	4	3	1	1	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:64056318C>T	uc002amp.2	-	3	1151	c.1003G>A	c.(1003-1005)GCA>ACA	p.A335T	HERC1_uc010uil.1_Intron|HERC1_uc010bgt.1_Missense_Mutation_p.A335T	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	335					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						CATAATGCTGCCTCGTAAAGG	0.403													4	9					0	0	1	0	0		T	64056318	T	T	64056318	3	4	73	1	0	0	0	0	1	0	0	0	7073	739	26	2	13886	2	HERC1	15	64056318	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	9748339	64056318	38475074	945	48182											
DENND4A	10260	broad.mit.edu	37	chr15	65968867	65968867	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcactggtctcttgagaggAgataggtccttccaactcat	10	11	10	10	0	2	2	1	1	1	2	5	4	4	2	2	3	2	1	2	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:65968867A>C	uc002aph.2	-	23	4531	c.4153T>G	c.(4153-4155)TCC>GCC	p.S1385A	DENND4A_uc002api.2_Missense_Mutation_p.S1428A	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	1385					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						TCTTGAGAGGAGATAGGTCCT	0.453													13	23					0	0	1	0	0		C	65968867	C	C	65968867	3	2	73	1	0	0	0	0	1	0	0	0	4439	304	11	5	1478	5	DENND4A	15	65968867	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1912549	65968867	36562525	946	48183											
THSD4	79875	broad.mit.edu	37	chr15	72040765	72040765	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctgtgtttcagtgctcGgtgccctgcggcgtgggaca	3	12	16	10	3	1	0	1	0	0	0	2	1	1	1	1	3	4	3	1	3	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:72040765G>T	uc002atb.1	+	13	2326	c.2247G>T	c.(2245-2247)TCG>TCT	p.S749S	THSD4_uc002ate.2_Silent_p.S389S	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	749	TSP type-1 3.					proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						TTCAGTGCTCGGTGCCCTGCG	0.577													12	24					2.27111e-07	2.37724e-07	1	1	0		T	72040765	T	T	72040765	2	4	73	1	0	0	0	0	0	0	0	1	15903	1103	39	5		5	THSD4	15	72040765	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6071898	72040765	30490627	947	48184											
CLK3	1198	broad.mit.edu	37	chr15	74914516	74914516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtggaagatgacaaggaggGtcacctggtgtgccggatcg	9	8	17	7	2	1	2	1	1	0	1	2	5	1	5	2	5	1	0	2	5	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:74914516G>A	uc010uln.1	+	4	1330	c.869G>A	c.(868-870)GGT>GAT	p.G290D	CLK3_uc002ayg.3_Missense_Mutation_p.G142D|CLK3_uc002ayh.3_Intron|CLK3_uc010ulm.1_3'UTR|CLK3_uc002ayj.3_Missense_Mutation_p.G142D|CLK3_uc002ayk.3_Missense_Mutation_p.G69D|CLK3_uc002ayl.3_5'Flank	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	290						acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						GACAAGGAGGGTCACCTGGTG	0.562													5	49					0	0	1	0	0		A	74914516	A	A	74914516	3	1	73	1	0	0	0	0	1	0	0	0	3541	1261	44	4	883	4	CLK3	15	74914516	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2873751	74914516	27616876	948	48185											
CYP1A2	1544	broad.mit.edu	37	chr15	75047347	75047347	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccgggcgtgaaagtcgAcctgacccccatctacgggc	7	5	13	16	5	1	2	0	2	1	0	2	3	1	2	5	2	1	0	5	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:75047347A>G	uc002ayr.1	+	7	1533	c.1469A>G	c.(1468-1470)GAC>GGC	p.D490G		NM_000761	NP_000752	P05177	CP1A2_HUMAN	cytochrome P450, family 1, subfamily A,	490					alkaloid metabolic process|exogenous drug catabolic process|methylation|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative deethylation|oxidative demethylation|steroid catabolic process|toxin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|demethylase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding			ovary(3)|breast(1)	4					Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Aciclovir(DB00787)|Alosetron(DB00969)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Anagrelide(DB00261)|Azelastine(DB00972)|Bortezomib(DB00188)|Caffeine(DB00201)|Carmustine(DB00262)|Chlordiazepoxide(DB00475)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Ciprofloxacin(DB00537)|Clomipramine(DB01242)|Clotrimazole(DB00257)|Clozapine(DB00363)|Conjugated Estrogens(DB00286)|Cyclobenzaprine(DB00924)|Dacarbazine(DB00851)|Desloratadine(DB00967)|Diazepam(DB00829)|Dibucaine(DB00527)|Diclofenac(DB00586)|Duloxetine(DB00476)|Enoxacin(DB00467)|Esomeprazole(DB00736)|Estradiol(DB00783)|Estrone(DB00655)|Fluorouracil(DB00544)|Flutamide(DB00499)|Fluvoxamine(DB00176)|Frovatriptan(DB00998)|Grepafloxacin(DB00365)|Haloperidol(DB00502)|Hesperetin(DB01094)|Imipramine(DB00458)|Ketoconazole(DB01026)|Leflunomide(DB01097)|Levobupivacaine(DB01002)|Levofloxacin(DB01137)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Melatonin(DB01065)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mirtazapine(DB00370)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ofloxacin(DB01165)|Olanzapine(DB00334)|Ondansetron(DB00904)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Pefloxacin(DB00487)|Pimozide(DB01100)|Propafenone(DB01182)|Propranolol(DB00571)|Quinidine(DB00908)|Ramelteon(DB00980)|Ranitidine(DB00863)|Rasagiline(DB01367)|Rifampin(DB01045)|Riluzole(DB00740)|Rofecoxib(DB00533)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Tacrine(DB00382)|Telithromycin(DB00976)|Terfenadine(DB00342)|Theophylline(DB00277)|Thiabendazole(DB00730)|Tizanidine(DB00697)|Tolbutamide(DB01124)|Verapamil(DB00661)|Warfarin(DB00682)|Zileuton(DB00744)|Zolmitriptan(DB00315)	GTGAAAGTCGACCTGACCCCC	0.597													7	68					0	0	1	0	0		G	75047347	G	G	75047347	3	3	73	1	0	0	0	0	1	0	0	0	4153	275	10	3	1491	3	CYP1A2	15	75047347	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	132831	75047347	27484045	949	48186											
COMMD4	54939	broad.mit.edu	37	chr15	75632127	75632127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggaagagcccatggtgcAcctgcggctggaggtggcag	7	6	18	10	2	0	1	0	0	0	1	0	3	0	3	2	6	3	3	2	6	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:75632127A>G	uc002azy.2	+	7	524	c.467A>G	c.(466-468)CAC>CGC	p.H156R	COMMD4_uc010umf.1_3'UTR|COMMD4_uc002azz.2_Intron|COMMD4_uc002baa.2_Intron|COMMD4_uc010umg.1_3'UTR|COMMD4_uc010umh.1_RNA	NM_017828	NP_060298	Q9H0A8	COMD4_HUMAN	COMM domain containing 4	156	COMM.					cytoplasm	protein binding				0						CCCATGGTGCACCTGCGGCTG	0.642													11	37					0	0	1	0	0		G	75632127	G	G	75632127	3	3	73	1	0	0	0	0	1	0	0	0	3721	159	6	3	493	3	COMMD4	15	75632127	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	584780	75632127	26899265	950	48187											
CRABP1	1381	broad.mit.edu	37	chr15	78633418	78633418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgaggaaagtggccgtagCggctgcgtccaagccgcacg	8	5	16	12	5	0	1	0	1	0	0	1	2	1	2	3	3	3	4	3	3	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:78633418C>T	uc002bdp.2	+	2	209	c.104C>T	c.(103-105)GCG>GTG	p.A35V		NM_004378	NP_004369	P29762	RABP1_HUMAN	cellular retinoic acid binding protein 1	35					multicellular organismal development|signal transduction	cytoplasm	retinal binding|retinol binding|transporter activity				0					Alitretinoin(DB00523)|Etretinate(DB00926)	GTGGCCGTAGCGGCTGCGTCC	0.642													11	9					0	0	1	0	0		T	78633418	T	T	78633418	3	4	73	1	0	0	0	0	1	0	0	0	3846	768	27	1	110	1	CRABP1	15	78633418	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3001291	78633418	23897974	951	48188											
IREB2	3658	broad.mit.edu	37	chr15	78757619	78757619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagcaatggtggattttgCtgctatgagggaggcagtga	10	10	15	6	0	0	2	0	2	0	0	0	4	0	4	1	4	3	4	1	4	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:78757619C>T	uc002bdr.2	+	4	461	c.299C>T	c.(298-300)GCT>GTT	p.A100V	IREB2_uc010unb.1_5'UTR|IREB2_uc002bdq.2_Missense_Mutation_p.A100V	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	100							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		GTGGATTTTGCTGCTATGAGG	0.358													20	48					0	0	1	0	0		T	78757619	T	T	78757619	3	4	73	1	0	0	0	0	1	0	0	0	7842	797	28	2	313	2	IREB2	15	78757619	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	124201	78757619	23773773	952	48189											
CHRNA3	1136	broad.mit.edu	37	chr15	78909418	78909418	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgtgcagggacacgcaTgaactctgccccaccatagt	9	9	9	14	1	2	1	0	1	2	0	2	2	2	2	3	1	3	2	3	1	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:78909418T>C	uc002bec.2	-	4	511	c.325A>G	c.(325-327)ATG>GTG	p.M109V	CHRNA3_uc002bea.2_RNA|CHRNA3_uc002beb.2_Missense_Mutation_p.M109V	NM_000743	NP_000734	P32297	ACHA3_HUMAN	cholinergic receptor, nicotinic, alpha 3	109	Extracellular (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|behavioral response to nicotine|locomotory behavior|regulation of acetylcholine secretion|regulation of dendrite morphogenesis|regulation of excitatory postsynaptic membrane potential|regulation of smooth muscle contraction|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|dendrite|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic density|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(3)|ovary(1)	4						GGGACACGCATGAACTCTGCC	0.552													9	18					0	0	1	0	0		C	78909418	C	C	78909418	3	2	73	1	0	0	0	0	1	0	0	0	3387	1464	51	3	1289	3	CHRNA3	15	78909418	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	151799	78909418	23621974	953	48190											
RASGRF1	5923	broad.mit.edu	37	chr15	79296391	79296391	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttccgccggcggctcggTgacgatgtcttggtgatgga	5	10	16	10	5	1	2	0	2	1	0	3	4	2	3	2	5	1	2	2	5	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:79296391T>C	uc002beq.2	-	16	2625	c.2250A>G	c.(2248-2250)TCA>TCG	p.S750S	RASGRF1_uc002bep.2_Silent_p.S734S|RASGRF1_uc010blm.1_Silent_p.S659S|RASGRF1_uc002ber.3_Silent_p.S734S|RASGRF1_uc010unh.1_Silent_p.S145S|RASGRF1_uc002beo.2_5'UTR	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	750	N-terminal Ras-GEF.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						GGCGGCTCGGTGACGATGTCT	0.637													5	58					0	0	1	0	0		C	79296391	C	C	79296391	2	2	73	1	0	0	0	0	0	0	0	1	13097	1683	59	3		3	RASGRF1	15	79296391	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	386973	79296391	23235001	954	48191											
ARNT2	9915	broad.mit.edu	37	chr15	80806735	80806735	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacaggatacatcaaggcctGgccaccagcaggtaaggaga	14	5	12	10	0	1	1	1	0	0	1	1	3	1	2	3	5	3	2	3	5	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:80806735G>T	uc002bfr.2	+	8	1032	c.866G>T	c.(865-867)TGG>TTG	p.W289L	ARNT2_uc010unm.1_Missense_Mutation_p.W278L|ARNT2_uc002bfs.2_Missense_Mutation_p.W278L	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	289					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			ATCAAGGCCTGGCCACCAGCA	0.473													52	86					8.04919e-23	8.98744e-23	1	1	0		T	80806735	T	T	80806735	3	4	73	1	0	0	0	0	1	0	0	0	967	1357	47	5	896	5	ARNT2	15	80806735	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1510344	80806735	21724657	955	48192											
KIAA1199	57214	broad.mit.edu	37	chr15	81235401	81235401	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaactccattctgcaaggcaTaccatggcagcttttcaact	11	11	7	12	0	2	0	1	0	1	0	3	1	3	0	2	2	5	4	2	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:81235401T>C	uc002bfw.1	+	27	4075	c.3815T>C	c.(3814-3816)ATA>ACA	p.I1272T	KIAA1199_uc010unn.1_Missense_Mutation_p.I1272T	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	1272										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CTGCAAGGCATACCATGGCAG	0.567													73	281					0	0	1	0	0		C	81235401	C	C	81235401	3	2	73	1	0	0	0	0	1	0	0	0	8229	1406	49	3	3917	3	KIAA1199	15	81235401	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	428666	81235401	21295991	956	48193											
IL16	3603	broad.mit.edu	37	chr15	81598480	81598480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actctgcagcctcagcctctGcagccagtgatgtttctgta	7	12	9	13	0	4	1	1	1	3	0	4	1	4	1	3	0	5	4	3	0	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:81598480G>A	uc002bgh.3	+	17	4028	c.3652G>A	c.(3652-3654)GCA>ACA	p.A1218T	IL16_uc010blq.1_Missense_Mutation_p.A1172T|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Missense_Mutation_p.A1260T|IL16_uc002bgg.2_Missense_Mutation_p.A1218T|IL16_uc002bgi.1_Missense_Mutation_p.A608T|IL16_uc002bgj.2_Missense_Mutation_p.A712T|IL16_uc002bgk.2_Missense_Mutation_p.A517T|IL16_uc002bgl.1_Missense_Mutation_p.A517T|IL16_uc010unq.1_Missense_Mutation_p.A517T	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	1218					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						CTCAGCCTCTGCAGCCAGTGA	0.557													41	73					0	0	1	0	0		A	81598480	A	A	81598480	3	1	73	1	0	0	0	0	1	0	0	0	7649	1319	46	2	3714	2	IL16	15	81598480	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	363079	81598480	20932912	957	48194											
MEX3B	84206	broad.mit.edu	37	chr15	82336953	82336953	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcagcgctttgattttacaAcctacgaaccagggtgcgga	10	9	11	11	4	0	1	0	1	0	0	0	3	0	2	2	2	6	2	2	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:82336953A>G	uc002bgq.1	-	2	573	c.258T>C	c.(256-258)GGT>GGC	p.G86G		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	86	KH 1.				protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						TGATTTTACAACCTACGAACC	0.602													14	25					0	0	1	0	0		G	82336953	G	G	82336953	2	3	73	1	0	0	0	0	0	0	0	1	9528	57	2	3		3	MEX3B	15	82336953	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	738473	82336953	20194439	958	48195											
EFTUD1	79631	broad.mit.edu	37	chr15	82444259	82444259	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggacctgtccatactgAgttctgaaaatcttcacttt	10	14	7	10	0	3	2	1	2	2	0	4	3	4	3	2	1	2	2	2	1	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:82444259A>G	uc002bgt.1	-	18	2705	c.2536T>C	c.(2536-2538)TCA>CCA	p.S846P	EFTUD1_uc002bgs.1_Missense_Mutation_p.S217P|EFTUD1_uc002bgu.1_Missense_Mutation_p.S795P	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	846					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						GTCCATACTGAGTTCTGAAAA	0.443													7	57					0	0	1	0	0		G	82444259	G	G	82444259	3	3	73	1	0	0	0	0	1	0	0	0	4966	304	11	3	838	3	EFTUD1	15	82444259	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	107306	82444259	20087133	959	48196											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84442355	84442355	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtgactgctcccggacCtgtgggggaggagcatcata	8	8	16	9	1	1	1	1	1	0	0	2	5	2	5	2	5	2	2	2	5	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:84442355C>A	uc002bjz.3	+	4	494	c.270C>A	c.(268-270)ACC>ACA	p.T90T	ADAMTSL3_uc002bjy.1_Silent_p.T90T|ADAMTSL3_uc010bmt.1_Silent_p.T90T|ADAMTSL3_uc010bmu.1_Silent_p.T90T	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	90	TSP type-1 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			GCTCCCGGACCTGTGGGGGAG	0.512													13	20					5.50884e-06	5.6805e-06	1	1	0		A	84442355	A	A	84442355	2	1	73	1	0	0	0	0	0	0	0	1	276	668	24	5		5	ADAMTSL3	15	84442355	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1998096	84442355	18089037	960	48197											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84651224	84651224	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctctgatccagtgggagaaGgatggccgttgcctgcagaa	9	9	14	9	1	1	3	0	1	1	2	3	5	2	4	3	3	2	2	3	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:84651224G>A	uc002bjz.3	+	21	3068	c.2844G>A	c.(2842-2844)AAG>AAA	p.K948K	ADAMTSL3_uc010bmt.1_Silent_p.K948K|ADAMTSL3_uc010bmu.1_Silent_p.K948K	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	948	Ig-like C2-type 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			AGTGGGAGAAGGATGGCCGTT	0.537													37	64					0	0	1	0	0		A	84651224	A	A	84651224	2	1	73	1	0	0	0	0	0	0	0	1	276	991	35	4		4	ADAMTSL3	15	84651224	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	208869	84651224	17880168	961	48198											
ZNF592	9640	broad.mit.edu	37	chr15	85341570	85341570	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttataagtgctcctgtgaAatggtcttcaacaagaagag	14	12	9	6	0	2	3	1	1	1	2	3	3	3	3	1	1	2	1	1	1	6	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:85341570A>C	uc002bld.2	+	7	2937	c.2601A>C	c.(2599-2601)GAA>GAC	p.E867D	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	867					cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GCTCCTGTGAAATGGTCTTCA	0.527													31	66					0	0	1	0	0		C	85341570	C	C	85341570	3	2	73	1	0	0	0	0	1	0	0	0	18047	11	1	5	2615	5	ZNF592	15	85341570	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	690346	85341570	17189822	962	48199											
RLBP1	6017	broad.mit.edu	37	chr15	89760476	89760476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctcctcccccgaggccGcctgcgcctgcaccatctcc	4	6	8	23	3	1	0	0	0	1	0	4	1	3	0	9	1	3	2	9	1	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:89760476G>A	uc002bnl.2	-	5	601	c.221C>T	c.(220-222)GCG>GTG	p.A74V		NM_000326	NP_000317	P12271	RLBP1_HUMAN	retinaldehyde binding protein 1	74					response to stimulus|visual perception|vitamin A metabolic process	cytoplasm|soluble fraction	retinol binding|transporter activity			central_nervous_system(1)	1	Lung NSC(78;0.0472)|all_lung(78;0.089)				Vitamin A(DB00162)	CCCCGAGGCCGCCTGCGCCTG	0.657													23	47					0	0	1	0	0		A	89760476	A	A	89760476	3	1	73	1	0	0	0	0	1	0	0	0	13413	1087	38	1	752	1	RLBP1	15	89760476	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	4418906	89760476	12770916	963	48200											
WDR93	56964	broad.mit.edu	37	chr15	90274711	90274711	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtgctgcgcccattgcAgtctctcagctcagctgctc	4	11	9	17	1	3	0	2	0	1	0	5	0	3	0	2	0	6	5	2	0	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:90274711A>C	uc002boj.2	+	12	1349	c.1248A>C	c.(1246-1248)GCA>GCC	p.A416A	WDR93_uc010bnr.2_Silent_p.A416A|WDR93_uc010upz.1_Silent_p.A133A	NM_020212	NP_064597	Q6P2C0	WDR93_HUMAN	WD repeat domain 93	416	WD.				electron transport chain	mitochondrial inner membrane	oxidoreductase activity, acting on NADH or NADPH			ovary(2)	2	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			CGCCCATTGCAGTCTCTCAGC	0.617													8	156					0	0	1	0	0		C	90274711	C	C	90274711	2	2	73	1	0	0	0	0	0	0	0	1	17366	175	7	5		5	WDR93	15	90274711	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	514235	90274711	12256681	964	48201											
C15orf58	390637	broad.mit.edu	37	chr15	90785027	90785027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgtcacccggggagctcCgccgggaaagacatcacctt	8	8	12	13	3	2	1	2	0	0	1	3	3	3	3	4	3	1	2	4	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:90785027C>T	uc002bpc.2	+	4	1066	c.887C>T	c.(886-888)CCG>CTG	p.P296L		NM_001013657	NP_001013679	Q6ZNW5	VTC2_HUMAN	hypothetical protein LOC390637	296					glucose metabolic process	cytoplasm	GDP-D-glucose phosphorylase activity				0						CGGGGAGCTCCGCCGGGAAAG	0.537													31	66					0	0	1	0	0		T	90785027	T	T	90785027	3	4	73	1	0	0	0	0	1	0	0	0	1809	652	23	1	889	1	C15orf58	15	90785027	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	510316	90785027	11746365	965	48202											
FURIN	5045	broad.mit.edu	37	chr15	91422045	91422045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctcggggaacgggggcCgggaacatgacagctgcaac	9	3	18	11	3	0	1	0	1	0	0	1	3	0	3	2	6	5	2	2	6	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:91422045C>T	uc002bpu.1	+	9	1108	c.892C>T	c.(892-894)CGG>TGG	p.R298W		NM_002569	NP_002560	P09958	FURIN_HUMAN	furin preproprotein	298					cell proliferation|negative regulation of low-density lipoprotein particle receptor catabolic process|negative regulation of transforming growth factor-beta1 production|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|Notch signaling pathway|peptide biosynthetic process|peptidyl-glutamic acid carboxylation|post-translational protein modification|secretion by cell|signal peptide processing|transforming growth factor beta receptor signaling pathway|viral assembly, maturation, egress, and release	cell surface|Golgi lumen|Golgi membrane|integral to membrane|membrane raft|plasma membrane|trans-Golgi network|trans-Golgi network transport vesicle	metal ion binding|nerve growth factor binding|peptide binding|protease binding|serine-type endopeptidase activity|serine-type endopeptidase inhibitor activity			central_nervous_system(4)|lung(2)|breast(1)	7	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			GAACGGGGGCCGGGAACATGA	0.622													5	23					0	0	1	0	0		T	91422045	T	T	91422045	3	4	73	1	0	0	0	0	1	0	0	0	6113	643	23	1	922	1	FURIN	15	91422045	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	637018	91422045	11109347	966	48203											
VPS33B	26276	broad.mit.edu	37	chr15	91542927	91542927	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctctctgcccaggaacCggagggctgagatctcagag	8	9	12	12	1	3	2	1	1	3	2	5	5	3	4	2	3	2	1	2	3	1	1	rs147814686		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:91542927C>T	uc002bqp.1	-	22	2108	c.1754G>A	c.(1753-1755)CGG>CAG	p.R585Q	VPS33B_uc002bqq.1_Missense_Mutation_p.R494Q|VPS33B_uc010uqu.1_Missense_Mutation_p.R558Q	NM_018668	NP_061138	Q9H267	VP33B_HUMAN	vacuolar protein sorting 33B (yeast homolog))	585					cellular membrane fusion|lysosome localization|melanosome localization|platelet alpha granule organization|protein transport|vesicle docking involved in exocytosis	late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm|platelet alpha granule	protein binding			ovary(2)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					GCCCAGGAACCGGAGGGCTGA	0.443													96	158					0	0	1	0	0		T	91542927	T	T	91542927	3	4	73	1	0	0	0	0	1	0	0	0	17228	652	23	1	107	1	VPS33B	15	91542927	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	120882	91542927	10988465	967	48204											
SLCO3A1	28232	broad.mit.edu	37	chr15	92669421	92669421	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtgtccactgcttgctaCgtctccttcctcttcctggg	2	15	9	15	1	2	0	0	0	2	0	6	0	5	0	4	2	3	2	4	2	1	4	rs140581310	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:92669421C>T	uc002bqx.2	+	6	1506	c.1305C>T	c.(1303-1305)TAC>TAT	p.Y435Y	SLCO3A1_uc002bqy.2_Silent_p.Y435Y|SLCO3A1_uc010boc.1_RNA|SLCO3A1_uc002bqz.1_Silent_p.Y377Y	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,	435	Helical; Name=9; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			CTGCTTGCTACGTCTCCTTCC	0.587													27	63					0	0	1	0	0		T	92669421	T	T	92669421	2	4	73	1	0	0	0	0	0	0	0	1	14753	547	19	1		1	SLCO3A1	15	92669421	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1126494	92669421	9861971	968	48205											
LASS3	204219	broad.mit.edu	37	chr15	101041961	101041961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagaaggttttacaaagaCgagtccatcgtgatcctcaa	14	10	9	8	2	1	3	1	2	0	2	4	5	3	3	2	1	1	1	2	1	4	2	rs142269983		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr15:101041961C>T	uc002bvz.2	-	4	596	c.94G>A	c.(94-96)GTC>ATC	p.V32I	LASS3_uc002bwa.2_Missense_Mutation_p.V43I|LASS3_uc002bwb.2_Missense_Mutation_p.V32I	NM_178842	NP_849164	Q8IU89	CERS3_HUMAN	LAG1 longevity assurance homolog 3	32	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4	Lung NSC(78;0.0018)|all_lung(78;0.00278)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000867)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)			TTTACAAAGACGAGTCCATCG	0.373													30	61					0	0	1	0	0		T	101041961	T	T	101041961	3	4	73	1	0	0	0	0	1	0	0	0	8656	536	19	1	1097	1	LASS3	15	101041961	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	8372540	101041961	1489431	969	48206											
MPG	4350	broad.mit.edu	37	chr16	133169	133169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtggccggcagaccccccGcaaccgaggcatgttcatga	8	5	14	14	3	1	2	1	1	0	1	1	3	1	2	5	4	1	4	5	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:133169G>A	uc002cfn.2	+	4	752	c.434G>A	c.(433-435)CGC>CAC	p.R145H	MPG_uc002cfm.2_Missense_Mutation_p.R128H|MPG_uc010bqp.2_Missense_Mutation_p.R128H|MPG_uc002cfo.2_Missense_Mutation_p.R140H	NM_002434	NP_002425	P29372	3MG_HUMAN	N-methylpurine-DNA glycosylase isoform a	145					depurination|DNA dealkylation involved in DNA repair	nucleoplasm	alkylbase DNA N-glycosylase activity|damaged DNA binding|identical protein binding			ovary(1)|skin(1)	2		all_cancers(16;9.01e-08)|all_epithelial(16;7.64e-07)|Hepatocellular(780;0.000325)|Lung NSC(18;0.0104)|all_lung(18;0.0239)				CAGACCCCCCGCAACCGAGGC	0.607								BER_DNA_glycosylases					62	125					0	0	1	0	0		A	133169	A	A	133169	3	1	73	1	0	0	0	0	1	0	0	0	9742	1087	38	1	472	1	MPG	16	133169	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08		133169	90221584	970	48207											
BAIAP3	8938	broad.mit.edu	37	chr16	1396000	1396000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctcaggacgtgtgtgaggCcaccctcttctatacggagc	7	10	11	13	2	3	1	1	1	2	0	4	3	4	3	3	3	2	0	3	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:1396000C>T	uc002clk.1	+	24	2327	c.2327C>T	c.(2326-2328)GCC>GTC	p.A776V	BAIAP3_uc002clj.2_Missense_Mutation_p.A758V|BAIAP3_uc010uuz.1_Missense_Mutation_p.A741V|BAIAP3_uc010uva.1_Missense_Mutation_p.A713V|BAIAP3_uc010uvc.1_Missense_Mutation_p.A705V	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	776	MHD1.				G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				GTGTGTGAGGCCACCCTCTTC	0.677													6	11					0	0	1	0	0		T	1396000	T	T	1396000	3	4	73	1	0	0	0	0	1	0	0	0	1305	739	26	2	2421	2	BAIAP3	16	1396000	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1262831	1396000	88958753	971	48208											
IFT140	9742	broad.mit.edu	37	chr16	1630815	1630815	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgtaaacgttttcttcaTgcattgctaacacaggcgtc	9	13	8	11	3	2	0	1	0	1	0	3	0	2	0	1	1	4	4	1	1	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:1630815T>C	uc002cmb.2	-	13	1831	c.1469A>G	c.(1468-1470)CAT>CGT	p.H490R	IFT140_uc002clz.2_Missense_Mutation_p.H141R	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	490										ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				GTTTTCTTCATGCATTGCTAA	0.478													23	43					0	0	1	0	0		C	1630815	C	C	1630815	3	2	73	1	0	0	0	0	1	0	0	0	7572	1464	51	3	2995	3	IFT140	16	1630815	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	234815	1630815	88723938	972	48209											
PKD1	5310	broad.mit.edu	37	chr16	2144016	2144016	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagaccctccaccagtccTggggaagcagagacagacct	11	4	11	15	1	0	3	0	0	0	3	2	5	2	4	5	2	1	2	5	2	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:2144016T>C	uc002cos.1	-	36	10828	c.10619_splice	c.e36-1	p.G3540_splice	PKD1_uc002cot.1_Splice_Site_p.G3539_splice|PKD1_uc010bse.1_Splice_Site	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor						calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CCACCAGTCCTGGGGAAGCAG	0.682													6	4					0	0	1	0	0		C	2144016	C	C	2144016	5	2	73	1	0	0	0	0	0	0	1	0	11982	1594	55	3	2338	3	PKD1	16	2144016	Splice_Site	SNP	T	TCGA-BR-8372-01A-11D-2340-08	513201	2144016	88210737	973	48210											
PKD1	5310	broad.mit.edu	37	chr16	2160630	2160630	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgttgtaagcgtgggtgAcctccggaccctcgagccac	6	9	13	13	3	0	1	0	1	0	0	2	3	1	2	4	2	3	3	4	2	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:2160630A>C	uc002cos.1	-	15	4747	c.4538T>G	c.(4537-4539)GTC>GGC	p.V1513G	PKD1_uc002cot.1_Missense_Mutation_p.V1513G	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1513	Extracellular (Potential).|PKD 10.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AGCGTGGGTGACCTCCGGACC	0.662													4	46					0	0	1	0	0		C	2160630	C	C	2160630	3	2	73	1	0	0	0	0	1	0	0	0	11982	275	10	5	8501	5	PKD1	16	2160630	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	16614	2160630	88194123	974	48211											
CASKIN1	57524	broad.mit.edu	37	chr16	2233851	2233851	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgggagtcatgcggctgAtggtgggcaggtcgtagccg	5	8	18	10	4	1	1	1	1	0	0	3	2	1	2	2	5	2	3	2	5	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:2233851A>G	uc010bsg.1	-	15	1540	c.1508T>C	c.(1507-1509)ATC>ACC	p.I503T		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	503	SAM 1.				signal transduction	cytoplasm				skin(2)	2						CATGCGGCTGATGGTGGGCAG	0.662													10	36					0	0	1	0	0		G	2233851	G	G	2233851	3	3	73	1	0	0	0	0	1	0	0	0	2669	333	12	3	2811	3	CASKIN1	16	2233851	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	73221	2233851	88120902	975	48212											
OR1F1	4992	broad.mit.edu	37	chr16	3254280	3254280	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagtcgagtgtctccgagTtcctcctcctgggactctcc	5	11	9	16	2	2	0	0	0	2	0	8	3	5	1	6	1	0	1	6	1	0	1	rs148405876	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:3254280T>C	uc010uwu.1	+	1	34	c.34T>C	c.(34-36)TTC>CTC	p.F12L		NM_012360	NP_036492	O43749	OR1F1_HUMAN	olfactory receptor, family 1, subfamily F,	12	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGTCTCCGAGTTCCTCCTCCT	0.557													11	32					0	0	1	0	0		C	3254280	C	C	3254280	3	2	73	1	0	0	0	0	1	0	0	0	10975	1725	60	3	36	3	OR1F1	16	3254280	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1020429	3254280	87100473	976	48213											
TRAP1	10131	broad.mit.edu	37	chr16	3739122	3739122	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtctcggcctggaactcAtgtttggaagtggaacctag	8	13	12	8	1	2	0	1	0	1	0	3	3	2	3	2	4	2	1	2	4	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:3739122A>G	uc002cvt.3	-	3	353	c.264T>C	c.(262-264)CAT>CAC	p.H88H	TRAP1_uc010uxf.1_Silent_p.H35H	NM_016292	NP_057376	Q12931	TRAP1_HUMAN	TNF receptor-associated protein 1 precursor	88					cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)				CCTGGAACTCATGTTTGGAAG	0.448													18	44					0	0	1	0	0		G	3739122	G	G	3739122	2	3	73	1	0	0	0	0	0	0	0	1	16481	214	8	3		3	TRAP1	16	3739122	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	484842	3739122	86615631	977	48214											
CREBBP	1387	broad.mit.edu	37	chr16	3781199	3781199	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcagggcctacctcgcaCacagtgcagtgccagcgcgt	7	5	15	14	3	0	0	0	0	0	0	1	0	0	0	3	3	4	3	3	3	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:3781199C>T	uc002cvv.2	-	30	5370	c.5166G>A	c.(5164-5166)GTG>GTA	p.V1722V	CREBBP_uc002cvw.2_Silent_p.V1684V	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1722	Interaction with TRERF1.|ZZ-type.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		CTACCTCGCACACAGTGCAGT	0.652			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				19	42					0	0	1	0	0		T	3781199	T	T	3781199	2	4	73	1	0	0	0	0	0	0	0	1	3864	465	17	4		4	CREBBP	16	3781199	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	42077	3781199	86573554	978	48215											
ADCY9	115	broad.mit.edu	37	chr16	4165236	4165236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctgcgcagccggcctcCgccgcccactcgccggggga	3	4	14	20	6	0	0	0	0	0	0	2	1	1	1	7	3	3	1	7	3	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:4165236C>T	uc002cvx.2	-	2	747	c.208G>A	c.(208-210)GGA>AGA	p.G70R		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	70	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						AGCCGGCCTCCGCCGCCCACT	0.677													15	7					0	0	1	0	0		T	4165236	T	T	4165236	3	4	73	1	0	0	0	0	1	0	0	0	301	661	23	1	3893	1	ADCY9	16	4165236	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	384037	4165236	86189517	979	48216											
CORO7	79585	broad.mit.edu	37	chr16	4415045	4415045	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgggaccacctcgtaacagTacagctgcctctcgccctga	8	7	10	16	3	1	1	0	1	1	0	3	2	1	2	4	1	4	3	4	1	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:4415045T>C	uc002cwh.3	-	11	977	c.857A>G	c.(856-858)TAC>TGC	p.Y286C	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Missense_Mutation_p.Y286C|CORO7_uc002cwg.3_Missense_Mutation_p.Y66C|CORO7_uc010uxh.1_Missense_Mutation_p.Y268C|CORO7_uc010uxi.1_Missense_Mutation_p.Y201C|CORO7_uc002cwi.1_Missense_Mutation_p.Y66C|CORO7_uc010uxj.1_RNA|CORO7_uc010btp.1_Missense_Mutation_p.Y66C	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	286						cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						CTCGTAACAGTACAGCTGCCT	0.657													4	11					0	0	1	0	0		C	4415045	C	C	4415045	3	2	73	1	0	0	0	0	1	0	0	0	3762	1638	57	3	1992	3	CORO7	16	4415045	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	249809	4415045	85939708	980	48217											
NMRAL1	57407	broad.mit.edu	37	chr16	4516244	4516244	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagccgcacactggtcaTgggaacgccaatgtcccgga	9	5	14	13	3	1	0	1	0	0	0	2	2	2	2	3	4	2	2	3	4	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:4516244T>C	uc002cwm.2	-	4	595	c.439A>G	c.(439-441)ATG>GTG	p.M147V	NMRAL1_uc002cwn.2_Missense_Mutation_p.M147V|NMRAL1_uc002cwo.2_Missense_Mutation_p.M147V|NMRAL1_uc002cwp.2_Missense_Mutation_p.M183V	NM_020677	NP_065728	Q9HBL8	NMRL1_HUMAN	NmrA-like family domain containing 1	147						nucleus|perinuclear region of cytoplasm	binding			kidney(1)	1						ACACTGGTCATGGGAACGCCA	0.572													17	29					0	0	1	0	0		C	4516244	C	C	4516244	3	2	73	1	0	0	0	0	1	0	0	0	10520	1464	51	3	472	3	NMRAL1	16	4516244	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	101199	4516244	85838509	981	48218											
C16orf71	146562	broad.mit.edu	37	chr16	4794910	4794910	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaacaggctcatggaacAgctggccctcctgtgcacca	10	6	9	16	0	1	0	1	0	0	0	2	1	2	1	4	3	4	3	4	3	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:4794910A>G	uc002cxn.2	+	6	1403	c.941A>G	c.(940-942)CAG>CGG	p.Q314R		NM_139170	NP_631909	Q8IYS4	CP071_HUMAN	hypothetical protein LOC146562	314										central_nervous_system(1)	1						CTCATGGAACAGCTGGCCCTC	0.607													18	35					0	0	1	0	0		G	4794910	G	G	4794910	3	3	73	1	0	0	0	0	1	0	0	0	1833	188	7	3	959	3	C16orf71	16	4794910	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	278666	4794910	85559843	982	48219											
PPL	5493	broad.mit.edu	37	chr16	4934705	4934705	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacttgtttcttctgctcCtctgagagctttgccctcag	4	16	7	14	0	4	1	1	1	3	1	6	2	6	1	3	0	3	3	3	0	0	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:4934705C>A	uc002cyd.1	-	22	4041	c.3951G>T	c.(3949-3951)GAG>GAT	p.E1317D		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1317	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						TCTTCTGCTCCTCTGAGAGCT	0.567													115	165					3.66246e-67	4.12416e-67	1	1	0		A	4934705	A	A	4934705	3	1	73	1	0	0	0	0	1	0	0	0	12356	680	24	5	1323	5	PPL	16	4934705	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	139795	4934705	85420048	983	48220											
CIITA	4261	broad.mit.edu	37	chr16	11000482	11000482	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagcagcagcaagagccTggagcgggaactggccaccc	11	2	16	12	1	0	1	0	0	0	1	0	5	0	4	3	4	6	3	3	4	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:11000482T>C	uc002dai.3	+	11	1266	c.1133T>C	c.(1132-1134)CTG>CCG	p.L378P	CIITA_uc002daj.3_Missense_Mutation_p.L379P|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Missense_Mutation_p.L378P|CIITA_uc002dah.2_Missense_Mutation_p.L330P|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	378					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						AGCAAGAGCCTGGAGCGGGAA	0.687			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								7	31					0	0	1	0	0		C	11000482	C	C	11000482	3	2	73	1	0	0	0	0	1	0	0	0	3431	1580	55	3	1175	3	CIITA	16	11000482	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	6065777	11000482	79354271	984	48221											
ABCC1	4363	broad.mit.edu	37	chr16	16235124	16235124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacagcatggccaaagacGccggcttggtgtgagcccca	9	7	12	13	2	1	2	0	1	1	1	1	2	1	2	4	3	3	2	4	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:16235124G>A	uc010bvi.2	+	31	4757	c.4582G>A	c.(4582-4584)GCC>ACC	p.A1528T	ABCC1_uc010bvj.2_Missense_Mutation_p.A1469T|ABCC1_uc010bvk.2_Missense_Mutation_p.A1472T|ABCC1_uc010bvl.2_Missense_Mutation_p.A1463T|ABCC1_uc010bvm.2_Missense_Mutation_p.A1413T|ABCC1_uc002del.3_Missense_Mutation_p.A1422T	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1528	Cytoplasmic.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GGCCAAAGACGCCGGCTTGGT	0.587													40	76					0	0	1	0	0		A	16235124	A	A	16235124	3	1	73	1	0	0	0	0	1	0	0	0	49	1087	38	1	4704	1	ABCC1	16	16235124	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5234642	16235124	74119629	985	48222											
TMC5	79838	broad.mit.edu	37	chr16	19452109	19452109	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagatgctgagaatggtcAtgattatggctcttctgaga	10	14	11	6	0	4	4	2	3	2	3	4	6	4	4	0	2	1	2	0	2	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:19452109A>G	uc002dgc.3	+	3	1498	c.749A>G	c.(748-750)CAT>CGT	p.H250R	TMC5_uc010vaq.1_Missense_Mutation_p.H250R|TMC5_uc002dgb.3_Missense_Mutation_p.H250R|TMC5_uc010var.1_Missense_Mutation_p.H250R	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	250	Extracellular (Potential).					integral to membrane				skin(1)	1						GAGAATGGTCATGATTATGGC	0.468													45	73					0	0	1	0	0		G	19452109	G	G	19452109	3	3	73	1	0	0	0	0	1	0	0	0	16013	217	8	3	751	3	TMC5	16	19452109	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3216985	19452109	70902644	986	48223											
EARS2	124454	broad.mit.edu	37	chr16	23541078	23541078	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacacctgtctcagcaggAggatcctctccacgtagact	10	8	8	15	1	2	1	1	0	2	1	5	3	3	3	4	2	1	2	4	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:23541078A>G	uc002dlt.3	-	6	1240	c.1208T>C	c.(1207-1209)CTC>CCC	p.L403P	EARS2_uc002dlr.3_RNA|EARS2_uc002dls.3_RNA|EARS2_uc002dlu.2_Missense_Mutation_p.L403P	NM_001083614	NP_001077083	Q5JPH6	SYEM_HUMAN	glutamyl-tRNA synthetase 2 precursor	403					glutamyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|glutamate-tRNA ligase activity|RNA binding				0				GBM - Glioblastoma multiforme(48;0.0353)	L-Glutamic Acid(DB00142)	TCTCAGCAGGAGGATCCTCTC	0.592													26	66					0	0	1	0	0		G	23541078	G	G	23541078	3	3	73	1	0	0	0	0	1	0	0	0	4884	304	11	3	379	3	EARS2	16	23541078	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	4088969	23541078	66813675	987	48224											
TNRC6A	27327	broad.mit.edu	37	chr16	24801521	24801521	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtggaggctcttatggtActacatggggtgcctatggt	9	12	14	6	0	1	0	0	0	1	0	1	1	1	1	1	6	3	2	1	6	5	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:24801521A>G	uc002dmm.2	+	6	1672	c.1558A>G	c.(1558-1560)ACT>GCT	p.T520A	TNRC6A_uc010bxs.2_Missense_Mutation_p.T267A|TNRC6A_uc010vcc.1_Missense_Mutation_p.T267A|TNRC6A_uc002dmn.2_Missense_Mutation_p.T267A|TNRC6A_uc002dmo.2_Missense_Mutation_p.T267A	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	520	Sufficient for interaction with EIF2C2.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		CTCTTATGGTACTACATGGGG	0.463													43	96					0	0	1	0	0		G	24801521	G	G	24801521	3	3	73	1	0	0	0	0	1	0	0	0	16365	391	14	3	1580	3	TNRC6A	16	24801521	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1260443	24801521	65553232	988	48225											
TNRC6A	27327	broad.mit.edu	37	chr16	24806029	24806029	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccaccatatacaaagaaaAtgtcatcgaaggtaaacatt	18	8	7	8	1	1	1	1	0	0	1	2	2	1	1	2	2	2	1	2	2	8	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:24806029A>G	uc002dmm.2	+	8	3631	c.3517A>G	c.(3517-3519)ATG>GTG	p.M1173V	TNRC6A_uc010bxs.2_Missense_Mutation_p.M920V|TNRC6A_uc010vcc.1_Missense_Mutation_p.M920V|TNRC6A_uc002dmn.2_Missense_Mutation_p.M920V|TNRC6A_uc002dmo.2_Missense_Mutation_p.M861V	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1173	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		TACAAAGAAAATGTCATCGAA	0.388													25	47					0	0	1	0	0		G	24806029	G	G	24806029	3	3	73	1	0	0	0	0	1	0	0	0	16365	101	4	3	3547	3	TNRC6A	16	24806029	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	4508	24806029	65548724	989	48226											
GTF3C1	2975	broad.mit.edu	37	chr16	27476654	27476654	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagaaccgtctgcgcagcTcctccttgtcaatcccaaaa	10	8	7	16	3	2	1	1	0	1	1	5	2	5	1	5	0	3	2	5	0	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:27476654T>G	uc002dov.1	-	33	5322	c.5282A>C	c.(5281-5283)GAG>GCG	p.E1761A	GTF3C1_uc002dou.2_Missense_Mutation_p.E1761A	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1761						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TCTGCGCAGCTCCTCCTTGTC	0.562													15	78					0	0	1	0	0		G	27476654	G	G	27476654	3	3	73	1	0	0	0	0	1	0	0	0	6888	1551	54	5	1067	5	GTF3C1	16	27476654	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2670625	27476654	62878099	990	48227											
GTF3C1	2975	broad.mit.edu	37	chr16	27497449	27497449	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatcatggtagcgcagccTtttgcttttttctcctggga	5	17	9	10	1	3	0	2	0	1	0	4	1	3	1	2	2	3	3	2	2	1	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:27497449T>C	uc002dov.1	-	24	3767	c.3727A>G	c.(3727-3729)AGG>GGG	p.R1243G	GTF3C1_uc002dou.2_Missense_Mutation_p.R1243G	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1243						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TAGCGCAGCCTTTTGCTTTTT	0.567													71	143					0	0	1	0	0		C	27497449	C	C	27497449	3	2	73	1	0	0	0	0	1	0	0	0	6888	1608	56	3	2658	3	GTF3C1	16	27497449	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	20795	27497449	62857304	991	48228											
XPO6	23214	broad.mit.edu	37	chr16	28167613	28167613	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacagttctggctgctgccGttaactgacgccatctttct	7	13	8	13	2	3	1	0	1	3	0	3	1	3	1	2	1	3	4	2	1	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:28167613G>A	uc002dpa.1	-	7	1380	c.879C>T	c.(877-879)AAC>AAT	p.N293N	XPO6_uc002dpb.1_Silent_p.N279N|XPO6_uc010vcp.1_Silent_p.N293N	NM_015171	NP_055986	Q96QU8	XPO6_HUMAN	exportin 6	293					protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2						GGCTGCTGCCGTTAACTGACG	0.572													30	55					0	0	1	0	0		A	28167613	A	A	28167613	2	1	73	1	0	0	0	0	0	0	0	1	17474	1136	40	1		1	XPO6	16	28167613	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	670164	28167613	62187140	992	48229											
CCDC101	112869	broad.mit.edu	37	chr16	28596283	28596283	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaacatccagaagacccAtgagcggatgcagacagaga	16	4	12	9	1	0	6	0	2	0	4	1	8	1	7	2	1	3	1	2	1	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:28596283A>G	uc002dqf.2	+	3	310	c.125A>G	c.(124-126)CAT>CGT	p.H42R	uc010vct.1_Intron	NM_138414	NP_612423	Q96ES7	SGF29_HUMAN	coiled-coil domain containing 101	42	Potential.				establishment of protein localization to chromatin|histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ada2/Gcn5/Ada3 transcription activator complex|SAGA-type complex	methylated histone residue binding			central_nervous_system(1)	1						CAGAAGACCCATGAGCGGATG	0.547													4	48					0	0	1	0	0		G	28596283	G	G	28596283	3	3	73	1	0	0	0	0	1	0	0	0	2738	217	8	3	131	3	CCDC101	16	28596283	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	428670	28596283	61758470	993	48230											
SULT1A2	6799	broad.mit.edu	37	chr16	28604641	28604641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcccaccactcttgcaCgtgctggtaccaggacccat	8	8	8	17	1	1	0	0	0	1	0	2	1	2	1	4	2	4	4	4	2	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:28604641C>T	uc002dqg.1	-	6	877	c.526G>A	c.(526-528)GTG>ATG	p.V176M	uc010vct.1_Intron|SULT1A2_uc002dqh.1_Missense_Mutation_p.V176M	NM_177528	NP_803564	P50226	ST1A2_HUMAN	sulfotransferase family, cytosolic, 1A,	176					3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine biosynthetic process|catecholamine metabolic process|steroid metabolic process|sulfation|xenobiotic metabolic process	cytosol	aryl sulfotransferase activity|flavonol 3-sulfotransferase activity				0						CACTCTTGCACGTGCTGGTAC	0.587													32	56					0	0	1	0	0		T	28604641	T	T	28604641	3	4	73	1	0	0	0	0	1	0	0	0	15398	536	19	1	373	1	SULT1A2	16	28604641	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	8358	28604641	61750112	994	48231											
ATXN2L	11273	broad.mit.edu	37	chr16	28845454	28845454	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccctccatcccggtgctGacagcaggccagagtgggct	7	7	12	15	1	0	2	0	1	0	1	3	2	3	2	4	3	2	3	4	3	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:28845454G>T	uc002drc.2	+	16	2262	c.2094G>T	c.(2092-2094)CTG>CTT	p.L698L	uc010vct.1_Intron|ATXN2L_uc002drb.2_Silent_p.L698L|ATXN2L_uc002dqy.2_Silent_p.L698L|ATXN2L_uc002dra.2_Silent_p.L698L|ATXN2L_uc002dqz.2_Silent_p.L698L|ATXN2L_uc010vdb.1_Silent_p.L704L|ATXN2L_uc002dre.2_Silent_p.L698L|ATXN2L_uc002drf.2_Silent_p.L107L|ATXN2L_uc002drg.2_5'UTR	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	698						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						TCCCGGTGCTGACAGCAGGCC	0.542													28	56					4.87955e-14	5.30196e-14	1	1	0		T	28845454	T	T	28845454	2	4	73	1	0	0	0	0	0	0	0	1	1213	1277	45	5		5	ATXN2L	16	28845454	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	240813	28845454	61509299	995	48232											
RABEP2	79874	broad.mit.edu	37	chr16	28931233	28931233	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtcgctcctgcttcagggcGgtgatctgggcttcatagct	4	13	13	11	2	3	1	2	1	1	0	5	1	4	1	1	3	2	4	1	3	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:28931233G>A	uc002drq.2	-	3	354	c.306C>T	c.(304-306)ACC>ACT	p.T102T	uc010vct.1_Intron|RABEP2_uc010vdf.1_Silent_p.T31T|RABEP2_uc010byn.2_Silent_p.T102T|RABEP2_uc002drr.2_Silent_p.T102T	NM_024816	NP_079092	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	102	Potential.				endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3						GCTTCAGGGCGGTGATCTGGG	0.552													15	27					0	0	1	0	0		A	28931233	A	A	28931233	2	1	73	1	0	0	0	0	0	0	0	1	12987	1103	39	1		1	RABEP2	16	28931233	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	85779	28931233	61423520	996	48233											
NFATC2IP	84901	broad.mit.edu	37	chr16	28970321	28970321	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctcccacagactgtgtggTactaacaagttctccagagg	10	9	10	12	0	1	2	0	0	1	2	3	2	2	2	3	2	2	2	3	2	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:28970321T>C	uc002dru.2	+	7	1016	c.1001T>C	c.(1000-1002)GTA>GCA	p.V334A	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Missense_Mutation_p.V55A|NFATC2IP_uc002drv.2_Missense_Mutation_p.V53A|NFATC2IP_uc010vdh.1_Missense_Mutation_p.V42A	NM_032815	NP_116204	Q8NCF5	NF2IP_HUMAN	nuclear factor of activated T-cells,	334						cytoplasm|nucleus				ovary(1)	1						GACTGTGTGGTACTAACAAGT	0.587													11	34					0	0	1	0	0		C	28970321	C	C	28970321	3	2	73	1	0	0	0	0	1	0	0	0	10382	1638	57	3	1027	3	NFATC2IP	16	28970321	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	39088	28970321	61384432	997	48234											
TAOK2	9344	broad.mit.edu	37	chr16	29989427	29989427	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggcccgggatgtccggaaTagtgaggtggtggccatcaa	9	8	16	8	2	1	1	1	1	0	0	2	3	2	3	3	6	0	0	3	6	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:29989427T>C	uc002dva.1	+	3	933	c.150T>C	c.(148-150)AAT>AAC	p.N50N	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Silent_p.N50N|TAOK2_uc002dvc.1_Silent_p.N50N|TAOK2_uc010bzm.1_Silent_p.N50N|TAOK2_uc002dvd.1_5'Flank	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	50	Protein kinase.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						ATGTCCGGAATAGTGAGGTGG	0.587													7	80					0	0	1	0	0		C	29989427	C	C	29989427	2	2	73	1	0	0	0	0	0	0	0	1	15573	1403	49	3		3	TAOK2	16	29989427	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1019106	29989427	60365326	998	48235											
TAOK2	9344	broad.mit.edu	37	chr16	30002182	30002182	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggagctggagctgctcaaCgcttaccagagcaagatcaa	13	6	11	11	1	2	2	2	0	0	2	2	4	2	4	1	2	6	5	1	2	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:30002182C>T	uc002dvc.1	+	18	3306	c.2523C>T	c.(2521-2523)AAC>AAT	p.N841N	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron	NM_004783	NP_004774	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						AGCTGCTCAACGCTTACCAGA	0.622													26	50					0	0	1	0	0		T	30002182	T	T	30002182	2	4	73	1	0	0	0	0	0	0	0	1	15573	535	19	1		1	TAOK2	16	30002182	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	12755	30002182	60352571	999	48236											
BCL7C	9274	broad.mit.edu	37	chr16	30899188	30899188	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggcaggccggcttctcAggggtcaggggcatttgggc	6	7	18	10	1	2	0	2	0	1	0	3	1	2	0	1	8	0	3	1	8	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:30899188A>G	uc002dzv.2	-	6	786	c.652T>C	c.(652-654)TGA>CGA	p.*218R	BCL7C_uc002dzt.1_Intron|uc002dzu.2_Intron	NM_004765	NP_004756	Q8WUZ0	BCL7C_HUMAN	B-cell CLL/lymphoma 7C	218					apoptosis						0			Colorectal(24;0.198)			CCGGCTTCTCAGGGGTCAGGG	0.567													74	117					0	0	1	0	0		G	30899188	G	G	30899188	4	3	73	1	0	0	0	0	0	0	0	0	1381	201	7	3	5	3	BCL7C	16	30899188	Nonstop_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	897006	30899188	59455565	1000	48237											
SETD1A	9739	broad.mit.edu	37	chr16	30992103	30992103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgccggtccgagcagcggcGgctgctgagcgccatcggta	5	5	17	14	7	0	1	0	1	0	0	2	2	1	1	3	4	4	4	3	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:30992103G>A	uc002ead.1	+	16	5311	c.4625G>A	c.(4624-4626)CGG>CAG	p.R1542Q		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1542					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						GAGCAGCGGCGGCTGCTGAGC	0.542													20	38					0	0	1	0	0		A	30992103	A	A	30992103	3	1	73	1	0	0	0	0	1	0	0	0	14155	1116	39	1	4683	1	SETD1A	16	30992103	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	92915	30992103	59362650	1001	48238											
PHKB	5257	broad.mit.edu	37	chr16	47630429	47630429	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacaagcactttatatcatCgcaaaactcctgggtaagtg	13	10	9	9	1	1	0	1	0	0	0	3	1	2	1	1	2	2	3	1	2	6	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:47630429C>T	uc002eev.3	+	13	1402	c.1350C>T	c.(1348-1350)ATC>ATT	p.I450I	PHKB_uc002eeu.3_Silent_p.I443I	NM_000293	NP_000284	Q93100	KPBB_HUMAN	phosphorylase kinase, beta isoform a	450					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				TTTATATCATCGCAAAACTCC	0.363													65	165					0	0	1	0	0		T	47630429	T	T	47630429	2	4	73	1	0	0	0	0	0	0	0	1	11864	874	31	1		1	PHKB	16	47630429	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	16638326	47630429	42724324	1002	48239											
SALL1	6299	broad.mit.edu	37	chr16	51175661	51175661	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccgccgccgccgctgcTgctgctgctgctgctgctgc	0	9	14	18	4	0	0	0	0	0	0	0	0	0	0	4	0	9	9	4	0	0	0	rs139646526	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:51175661T>C	uc010vgs.1	-	2	503	c.472A>G	c.(472-474)AGC>GGC	p.S158G	SALL1_uc010vgr.1_Missense_Mutation_p.S61G|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	158	Poly-Ser.				adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			ccgccgctgctgctgctgctg	0.463													16	28					0	0	1	0	0		C	51175661	C	C	51175661	3	2	73	1	0	0	0	0	1	0	0	0	13835	1580	55	3	3510	3	SALL1	16	51175661	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	3545232	51175661	39179092	1003	48240											
CCDC135	84229	broad.mit.edu	37	chr16	57732056	57732056	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atccagatcactgtctcagcGgagctcccgtgagtgtggca	8	9	12	12	2	2	2	2	1	1	1	5	3	4	3	2	2	2	2	2	2	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:57732056G>A	uc002emi.2	+	2	284	c.195G>A	c.(193-195)GCG>GCA	p.A65A	CCDC135_uc002emj.2_Silent_p.A65A|CCDC135_uc002emk.2_Silent_p.A65A	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	65	Potential.					cytoplasm				central_nervous_system(1)	1						CTGTCTCAGCGGAGCTCCCGT	0.617													5	34					0	0	1	0	0		A	57732056	A	A	57732056	2	1	73	1	0	0	0	0	0	0	0	1	2772	1103	39	1		1	CCDC135	16	57732056	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6556395	57732056	32622697	1004	48241											
KIFC3	3801	broad.mit.edu	37	chr16	57829017	57829017	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacttcgggcactggagTcctcgtcaccgcagactggg	6	8	13	14	3	1	1	1	0	0	1	4	2	2	2	2	3	1	3	2	3	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:57829017T>C	uc002emp.2	-	3	406	c.209A>G	c.(208-210)GAC>GGC	p.D70G	KIFC3_uc010cdf.2_5'UTR|KIFC3_uc002emo.3_5'UTR|KIFC3_uc010vhy.1_5'UTR|KIFC3_uc002emq.2_Missense_Mutation_p.D70G|KIFC3_uc010vhz.1_Missense_Mutation_p.D92G|KIFC3_uc002emr.1_Intron|KIFC3_uc010cdg.1_Intron	NM_005550	NP_005541	Q9BVG8	KIFC3_HUMAN	kinesin family member C3 isoform 1	70					epithelial cell-cell adhesion|microtubule-based movement|visual perception|zonula adherens maintenance	centrosome|cytoplasmic vesicle membrane|kinesin complex|microtubule|zonula adherens	ATP binding|microtubule motor activity			central_nervous_system(2)|ovary(1)	3		all_neural(199;0.224)				GGCACTGGAGTCCTCGTCACC	0.637													4	30					0	0	1	0	0		C	57829017	C	C	57829017	3	2	73	1	0	0	0	0	1	0	0	0	8330	1667	58	3	2369	3	KIFC3	16	57829017	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	96961	57829017	32525736	1005	48242											
C16orf57	79650	broad.mit.edu	37	chr16	58043956	58043956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccagagtgtggttctgcGccaccactggatcctcccct	5	10	10	16	1	1	1	0	0	1	1	4	2	4	2	6	2	1	1	6	2	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:58043956G>A	uc002emz.2	+	3	472	c.389G>A	c.(388-390)CGC>CAC	p.R130H	C16orf57_uc010via.1_Missense_Mutation_p.R130H|C16orf57_uc002emy.2_RNA|C16orf57_uc010vib.1_Missense_Mutation_p.R130H|C16orf57_uc010vic.1_Missense_Mutation_p.R79H	NM_024598	NP_078874	Q9BQ65	CP057_HUMAN	hypothetical protein LOC79650	130											0						GTGGTTCTGCGCCACCACTGG	0.592													42	53					0	0	1	0	0		A	58043956	A	A	58043956	3	1	73	1	0	0	0	0	1	0	0	0	1824	1087	38	1	399	1	C16orf57	16	58043956	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	214939	58043956	32310797	1006	48243											
CSNK2A2	1459	broad.mit.edu	37	chr16	58202515	58202515	+	Frame_Shift_Del	DEL	T	-	-																															tgcctggctgtaatggtaccTttttctgttggtgatctatc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:58202515delT	uc002enc.2	-	6	654	c.512delA	c.(511-513)AAGfs	p.K171fs		NM_001896	NP_001887	P19784	CSK22_HUMAN	casein kinase 2, alpha prime polypeptide	171	Protein kinase.				axon guidance|Wnt receptor signaling pathway	cytosol|nucleus	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						TAATGGTACCTTTTTCTGTTG	0.463													24	35	---	---	---	---						.	-	58202515	-	-	58202515	7	5	73	1	0	1	0	1	0	0	0	0	3961	1623	56	0	564	0	CSNK2A2	16	58202515	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	158559	58202515	32152238	1007	48244											
CNOT1	23019	broad.mit.edu	37	chr16	58585059	58585059	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgtcatatttgactgtgAgagattattgaaaataaaag	15	15	9	2	0	1	4	1	3	0	1	1	5	1	4	0	0	0	0	0	0	6	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:58585059A>C	uc002env.2	-	24	3612	c.3319T>G	c.(3319-3321)TCA>GCA	p.S1107A	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.S1102A|CNOT1_uc002enx.2_Missense_Mutation_p.S1107A|CNOT1_uc002enz.1_Missense_Mutation_p.S536A|CNOT1_uc010vik.1_Missense_Mutation_p.S103A|SNORA46_uc002eny.1_5'Flank	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1107					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TTTGACTGTGAGAGATTATTG	0.363													42	77					0	0	1	0	0		C	58585059	C	C	58585059	3	2	73	1	0	0	0	0	1	0	0	0	3620	304	11	5	4137	5	CNOT1	16	58585059	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	382544	58585059	31769694	1008	48245											
CDH16	1014	broad.mit.edu	37	chr16	66947518	66947519	+	Splice_Site	INS	-	G	G																															acccccactccagtgtacctINSgggggggacaccccgggcca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:66947518_66947519insG	uc002eql.2	-	8	854	c.781_splice	c.e8-1	p.V261_splice	CDH16_uc010cdy.2_Splice_Site_p.V261_splice|CDH16_uc002eqm.2_Splice_Site_p.V164_splice	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		CCAGTGTACCTGGGGGGGACAC	0.594													34	60	---	---	---	---						.	G	66947519	G	G	66947518	8	5	73	1	0	1	1	0	0	0	1	0	3104	1594	55	0	1754	0	CDH16	16	66947518	Splice_Site	INS	-	TCGA-BR-8372-01A-11D-2340-08	8362459	66947518	23407235	1009	48246											
RRAD	6236	broad.mit.edu	37	chr16	66956070	66956070	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgatgcggcccaagaagcgcTtcgcctttttgccaaggctc	7	9	11	14	4	0	1	0	0	0	1	2	2	0	1	3	2	3	2	3	2	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:66956070T>C	uc002eqn.2	-	5	988	c.836A>G	c.(835-837)AAG>AGG	p.K279R	RRAD_uc002eqo.2_Missense_Mutation_p.K279R	NM_001128850	NP_001122322	P55042	RAD_HUMAN	Ras-related associated with diabetes	279	Calmodulin-binding.				small GTPase mediated signal transduction	plasma membrane	calmodulin binding|GTP binding|GTPase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0862)|Epithelial(162;0.198)		CAAGAAGCGCTTCGCCTTTTT	0.622													14	28					0	0	1	0	0		C	66956070	C	C	66956070	3	2	73	1	0	0	0	0	1	0	0	0	13696	1609	56	3	94	3	RRAD	16	66956070	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	8552	66956070	23398683	1010	48247											
RLTPR	146206	broad.mit.edu	37	chr16	67682131	67682131	+	Frame_Shift_Del	DEL	C	-	-																															gcgggtgtagccaacagcctCcccccgcagctcttcgcagc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:67682131delC	uc002etn.2	+	14	1368	c.1248delC	c.(1246-1248)CTCfs	p.L416fs	RLTPR_uc010cel.1_Frame_Shift_Del_p.L416fs|RLTPR_uc010vjr.1_Intron	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	416	LRR 7.									breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		CCAACAGCCTCCCCCCGCAGC	0.701													10	3	---	---	---	---						.	-	67682131	-	-	67682131	7	5	73	1	0	1	0	1	0	0	0	0	13419	842	30	0	1302	0	RLTPR	16	67682131	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	726061	67682131	22672622	1011	48248											
C16orf48	84080	broad.mit.edu	37	chr16	67697207	67697207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcagcagtaccagctcacGcagcagctggctctggccta	9	6	12	14	1	2	0	1	0	1	0	2	0	2	0	2	3	5	8	2	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:67697207G>A	uc002etw.1	-	7	1181	c.898C>T	c.(898-900)CGT>TGT	p.R300C	ACD_uc002etp.3_5'Flank|ACD_uc002etq.3_5'Flank|ACD_uc002etr.3_5'Flank|ACD_uc010vjt.1_5'Flank|C16orf48_uc002etv.1_Missense_Mutation_p.R182C|C16orf48_uc010cem.1_3'UTR	NM_032140	NP_115516	Q9H0I2	CP048_HUMAN	hypothetical protein LOC84080	300						microtubule cytoskeleton	protein binding				0		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		ACCAGCTCACGCAGCAGCTGG	0.672													29	78					0	0	1	0	0		A	67697207	A	A	67697207	3	1	73	1	0	0	0	0	1	0	0	0	1819	1087	38	1	146	1	C16orf48	16	67697207	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	15076	67697207	22657546	1012	48249											
GFOD2	81577	broad.mit.edu	37	chr16	67709180	67709180	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgatggcatccaccacgcTctgcatgtacagcccatcct	8	10	7	16	1	1	1	0	1	1	0	3	1	3	1	4	1	3	4	4	1	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:67709180T>C	uc002eub.2	-	3	1331	c.1036A>G	c.(1036-1038)AGC>GGC	p.S346G	GFOD2_uc002eua.1_RNA|GFOD2_uc002euc.2_Missense_Mutation_p.S241G	NM_030819	NP_110446	Q3B7J2	GFOD2_HUMAN	glucose-fructose oxidoreductase domain	346						proteinaceous extracellular matrix	binding|oxidoreductase activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0151)|Epithelial(162;0.0505)|all cancers(182;0.242)		TCCACCACGCTCTGCATGTAC	0.672													17	103					0	0	1	0	0		C	67709180	C	C	67709180	3	2	73	1	0	0	0	0	1	0	0	0	6359	1551	54	3	125	3	GFOD2	16	67709180	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	11973	67709180	22645573	1013	48250											
EDC4	23644	broad.mit.edu	37	chr16	67915891	67915891	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagcactggctgaggggcaGcagcggggagggcagctgca	8	3	20	10	2	0	1	0	1	0	0	0	3	0	2	0	6	5	7	0	6	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:67915891G>A	uc002eur.2	+	23	3205	c.3039G>A	c.(3037-3039)CAG>CAA	p.Q1013Q	EDC4_uc010cer.2_Silent_p.Q632Q|EDC4_uc002eus.2_Silent_p.Q743Q|EDC4_uc002eut.1_5'Flank|NRN1L_uc002euu.2_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	1013	Potential.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		CTGAGGGGCAGCAGCGGGGAG	0.637													5	33					0	0	1	0	0		A	67915891	A	A	67915891	2	1	73	1	0	0	0	0	0	0	0	1	4914	962	34	2		2	EDC4	16	67915891	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	206711	67915891	22438862	1014	48251											
COG8	84342	broad.mit.edu	37	chr16	69368633	69368633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtgcccaggatggctggagCcgagatgagcatgtaggagt	9	7	18	7	1	0	2	0	1	0	1	0	6	0	5	2	5	3	3	2	5	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:69368633C>T	uc002ewy.2	-	3	1275	c.1204G>A	c.(1204-1206)GCT>ACT	p.A402T	COG8_uc002ewz.3_Missense_Mutation_p.A402T	NM_032382	NP_115758	Q96MW5	COG8_HUMAN	component of oligomeric golgi complex 8	402					protein transport	Golgi membrane|Golgi transport complex				ovary(1)	1						ATGGCTGGAGCCGAGATGAGC	0.562													26	48					0	0	1	0	0		T	69368633	T	T	69368633	3	4	73	1	0	0	0	0	1	0	0	0	3667	739	26	2	646	2	COG8	16	69368633	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1452742	69368633	20986120	1015	48252											
AARS	16	broad.mit.edu	37	chr16	70291987	70291987	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagcaggcccagaggggTcatccagcaactcggacacc	11	3	12	15	1	1	1	1	0	0	1	3	2	2	2	4	4	4	2	4	4	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:70291987T>C	uc002eyn.1	-	15	2236	c.2126A>G	c.(2125-2127)GAC>GGC	p.D709G	AARS_uc010vlu.1_Missense_Mutation_p.D539G	NM_001605	NP_001596	P49588	SYAC_HUMAN	alanyl-tRNA synthetase	709					alanyl-tRNA aminoacylation|tRNA processing	cytosol|soluble fraction	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			pancreas(1)	1		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)	L-Alanine(DB00160)	CCCAGAGGGGTCATCCAGCAA	0.587													7	23					0	0	1	0	0		C	70291987	C	C	70291987	3	2	73	1	0	0	0	0	1	0	0	0	19	1667	58	3	808	3	AARS	16	70291987	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	923354	70291987	20062766	1016	48253											
COG4	25839	broad.mit.edu	37	chr16	70548291	70548291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttgtccaggcacaagtagCgatgagtatgtgctgcagcc	10	9	12	10	1	0	1	0	1	0	0	1	2	1	1	2	1	4	5	2	1	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:70548291C>T	uc002ezc.2	-	4	502	c.491G>A	c.(490-492)CGC>CAC	p.R164H	COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Missense_Mutation_p.R164H|COG4_uc002eze.2_5'UTR	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	160					Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)				GCACAAGTAGCGATGAGTATG	0.313													16	31					0	0	1	0	0		T	70548291	T	T	70548291	3	4	73	1	0	0	0	0	1	0	0	0	3663	768	27	1	1942	1	COG4	16	70548291	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	256304	70548291	19806462	1017	48254											
MTSS1L	92154	broad.mit.edu	37	chr16	70698190	70698190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggccgtgggcagccccGcggtgggcagcccagcagtg	5	4	18	14	3	0	0	0	0	0	0	0	0	0	0	4	4	3	3	4	4	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:70698190G>A	uc002ezj.2	-	15	1894	c.1634C>T	c.(1633-1635)GCG>GTG	p.A545V		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	545					filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						GGGCAGCCCCGCGGTGGGCAG	0.726													6	7					0	0	1	0	0		A	70698190	A	A	70698190	3	1	73	1	0	0	0	0	1	0	0	0	9981	1087	38	1	613	1	MTSS1L	16	70698190	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	149899	70698190	19656563	1018	48255											
HYDIN	54768	broad.mit.edu	37	chr16	70902576	70902576	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctggtctgcagggagcTgaaacataatcctggagagc	11	7	14	9	0	1	2	0	1	1	1	2	5	2	4	2	4	4	2	2	4	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:70902576T>C	uc002ezr.2	-	66	11332	c.11204A>G	c.(11203-11205)CAG>CGG	p.Q3735R	HYDIN_uc010cfy.2_5'Flank	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3736										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TGCAGGGAGCTGAAACATAAT	0.522													15	36					0	0	1	0	0		C	70902576	C	C	70902576	3	2	73	1	0	0	0	0	1	0	0	0	7483	1580	55	3	4242	3	HYDIN	16	70902576	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	204386	70902576	19452177	1019	48256											
CFDP1	10428	broad.mit.edu	37	chr16	75446576	75446576	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcgtcatcttcctcctcacTactgcttccctcagattctg	6	14	5	16	1	5	1	3	0	2	1	8	1	8	1	3	0	3	1	3	0	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:75446576T>C	uc002fdy.2	-	3	396	c.259A>G	c.(259-261)AGT>GGT	p.S87G	CFDP1_uc002fdz.2_Silent_p.V10V|CFDP1_uc002fea.1_Missense_Mutation_p.S87G	NM_006324	NP_006315	Q9UEE9	CFDP1_HUMAN	craniofacial development protein 1	87	Glu-rich.				multicellular organismal development					upper_aerodigestive_tract(1)	1						TCCTCCTCACTACTGCTTCCC	0.493													69	169					0	0	1	0	0		C	75446576	C	C	75446576	3	2	73	1	0	0	0	0	1	0	0	0	3285	1522	53	3	660	3	CFDP1	16	75446576	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4544000	75446576	14908177	1020	48257											
CHST6	4166	broad.mit.edu	37	chr16	75513137	75513137	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgcgcaccaggtgcacgAtgcgtaggttgagcgcgggg	6	6	19	10	6	0	1	0	1	0	0	1	2	0	1	1	5	3	4	1	5	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:75513137A>G	uc002fef.2	-	3	770	c.590T>C	c.(589-591)ATC>ACC	p.I197T	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Missense_Mutation_p.I197T	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	197	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						CAGGTGCACGATGCGTAGGTT	0.687													11	42					0	0	1	0	0		G	75513137	G	G	75513137	3	3	73	1	0	0	0	0	1	0	0	0	3411	333	12	3	601	3	CHST6	16	75513137	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	66561	75513137	14841616	1021	48258											
CHST5	23563	broad.mit.edu	37	chr16	75563650	75563650	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcaggttgagcgcggggtcGctgagcagcgggtagagcac	7	5	19	10	5	0	3	0	2	0	1	1	3	0	3	0	4	4	6	0	4	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:75563650G>A	uc002fei.2	-	3	2028	c.633C>T	c.(631-633)AGC>AGT	p.S211S	CHST5_uc002fej.1_Silent_p.S217S	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	211	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						GCGCGGGGTCGCTGAGCAGCG	0.706													38	151					0	0	1	0	0		A	75563650	A	A	75563650	2	1	73	1	0	0	0	0	0	0	0	1	3410	1078	38	1		1	CHST5	16	75563650	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	50513	75563650	14791103	1022	48259											
CHST5	23563	broad.mit.edu	37	chr16	75564048	75564048	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgctggctgaagagctggcCcaagaaggatgagcccgagc	10	5	16	10	1	0	4	0	2	0	2	0	6	0	5	2	3	4	3	2	3	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:75564048C>A	uc002fei.2	-	3	1630	c.235G>T	c.(235-237)GGC>TGC	p.G79C	CHST5_uc002fej.1_Missense_Mutation_p.G85C	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	79	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						AAGAGCTGGCCCAAGAAGGAT	0.667													11	48					0.00829132	0.00837763	1	1	0		A	75564048	A	A	75564048	3	1	73	1	0	0	0	0	1	0	0	0	3410	623	22	5	1004	5	CHST5	16	75564048	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	398	75564048	14790705	1023	48260											
MON1B	22879	broad.mit.edu	37	chr16	77227598	77227598	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtagtgtggaggcgctgtcGgctaccatgggtgtaatgac	7	10	17	7	2	0	1	0	1	0	0	1	2	0	2	1	5	1	4	1	5	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:77227598G>A	uc002fez.2	+	3	729	c.399G>A	c.(397-399)TCG>TCA	p.S133S	MON1B_uc010vnf.1_Intron|MON1B_uc010vng.1_Intron|MON1B_uc002ffa.2_5'Flank	NM_014940	NP_055755	Q7L1V2	MON1B_HUMAN	MON1 homolog B	133							protein binding				0						AGGCGCTGTCGGCTACCATGG	0.597													19	39					0	0	1	0	0		A	77227598	A	A	77227598	2	1	73	1	0	0	0	0	0	0	0	1	9717	1103	39	1		1	MON1B	16	77227598	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1663550	77227598	13127155	1024	48261											
PKD1L2	114780	broad.mit.edu	37	chr16	81181847	81181847	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttccagtgttctgctccttCgcgacccggggacgggtgtt	3	13	13	12	4	1	0	0	0	1	0	4	2	3	1	3	3	1	3	3	3	0	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:81181847C>T	uc002fgh.1	-	29	4869	c.4869G>A	c.(4867-4869)GCG>GCA	p.A1623A	PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	1623	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TCTGCTCCTTCGCGACCCGGG	0.597													19	21					0	0	1	0	0		T	81181847	T	T	81181847	2	4	73	1	0	0	0	0	0	0	0	1	11984	871	31	1		1	PKD1L2	16	81181847	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3954249	81181847	9172906	1025	48262											
GAN	8139	broad.mit.edu	37	chr16	81388112	81388112	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagtttttggaaggctgcAttgctgctgagaactgtatt	8	15	13	5	0	0	2	0	2	0	1	0	4	0	3	0	2	4	6	0	2	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:81388112A>G	uc002fgo.2	+	3	533	c.385A>G	c.(385-387)ATT>GTT	p.I129V		NM_022041	NP_071324	Q9H2C0	GAN_HUMAN	gigaxonin	129					cell death	cytoplasm|neurofilament	protein binding			ovary(2)	2		Colorectal(91;0.153)				GGAAGGCTGCATTGCTGCTGA	0.468													63	114					0	0	1	0	0		G	81388112	G	G	81388112	3	3	73	1	0	0	0	0	1	0	0	0	6247	217	8	3	395	3	GAN	16	81388112	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	206265	81388112	8966641	1026	48263											
MPHOSPH6	10200	broad.mit.edu	37	chr16	82182417	82182417	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttcttcataattggcatgGtctctctttctggcaaactt	7	18	6	10	0	6	0	1	0	5	0	7	0	6	0	0	3	1	2	0	3	2	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:82182417G>A	uc002fgw.2	-	5	451	c.402C>T	c.(400-402)GAC>GAT	p.D134D		NM_005792	NP_005783	Q99547	MPH6_HUMAN	M-phase phosphoprotein 6	134					M phase of mitotic cell cycle|maturation of 5.8S rRNA	cytoplasm|nucleolus	protein binding|RNA binding				0						AATTGGCATGGTCTCTCTTTC	0.398													44	100					0	0	1	0	0		A	82182417	A	A	82182417	2	1	73	1	0	0	0	0	0	0	0	1	9744	1252	44	4		4	MPHOSPH6	16	82182417	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	794305	82182417	8172336	1027	48264											
MBTPS1	8720	broad.mit.edu	37	chr16	84125452	84125452	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaccaagatgtgtaagatAcctagttaaatattataaca	20	11	5	5	0	0	2	0	0	0	2	0	2	0	2	2	0	3	2	2	0	11	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:84125452A>G	uc002fhi.2	-	7	1350	c.848T>C	c.(847-849)GTA>GCA	p.V283A		NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	283	Serine protease.|Lumenal (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						TGTGTAAGATACCTAGTTAAA	0.363													19	54					0	0	1	0	0		G	84125452	G	G	84125452	3	3	73	1	0	0	0	0	1	0	0	0	9379	405	14	3	2378	3	MBTPS1	16	84125452	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1943035	84125452	6229301	1028	48265											
ADAD2	161931	broad.mit.edu	37	chr16	84224937	84224937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccccgcccctggcgacCgctacccgcccaggcccaaa	7	2	9	23	4	0	0	0	0	0	0	0	1	0	0	9	2	2	1	9	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:84224937C>T	uc002fhr.2	+	1	215	c.101C>T	c.(100-102)CCG>CTG	p.P34L	ADAD2_uc002fhq.2_Missense_Mutation_p.P34L	NM_001145400	NP_001138872	Q8NCV1	ADAD2_HUMAN	adenosine deaminase domain containing 2 isoform	34					RNA processing	intracellular	adenosine deaminase activity|double-stranded RNA binding				0						CCCTGGCGACCGCTACCCGCC	0.612													8	16					0	0	1	0	0		T	84224937	T	T	84224937	3	4	73	1	0	0	0	0	1	0	0	0	232	652	23	1	103	1	ADAD2	16	84224937	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	99485	84224937	6129816	1029	48266											
KLHL36	79786	broad.mit.edu	37	chr16	84695477	84695477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccagtggacccgcgtggCgccgctgctgcacgccaaca	8	4	12	17	5	0	0	0	0	0	0	0	1	0	1	4	2	4	3	4	2	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:84695477C>T	uc002fig.2	+	5	1730	c.1589C>T	c.(1588-1590)GCG>GTG	p.A530V	KLHL36_uc010chl.2_Missense_Mutation_p.A466V|uc002fih.2_5'Flank	NM_024731	NP_079007	Q8N4N3	KLH36_HUMAN	kelch-like 36	530	Kelch 5.									skin(2)	2						ACCCGCGTGGCGCCGCTGCTG	0.662													13	26					0	0	1	0	0		T	84695477	T	T	84695477	3	4	73	1	0	0	0	0	1	0	0	0	8405	768	27	1	1603	1	KLHL36	16	84695477	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	470540	84695477	5659276	1030	48267											
FOXF1	2294	broad.mit.edu	37	chr16	86544482	86544482	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgccacaacctctcgctcAacgagtgcttcatcaagcta	10	9	7	15	3	4	0	3	0	1	0	5	1	4	0	2	0	5	3	2	0	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:86544482A>G	uc002fjl.2	+	1	350	c.307A>G	c.(307-309)AAC>GAC	p.N103D	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	103	Fork-head.				branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						CCTCTCGCTCAACGAGTGCTT	0.632													56	76					0	0	1	0	0		G	86544482	G	G	86544482	3	3	73	1	0	0	0	0	1	0	0	0	6019	130	5	3	309	3	FOXF1	16	86544482	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1849005	86544482	3810271	1031	48268											
KLHDC4	54758	broad.mit.edu	37	chr16	87744970	87744970	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaacagtgtctggtgattCggggccatggccacggaaaa	12	7	14	8	2	1	2	0	1	1	1	2	3	1	3	2	5	1	0	2	5	4	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:87744970C>T	uc002fki.2	-	9	961	c.915G>A	c.(913-915)CCG>CCA	p.P305P	KLHDC4_uc002fkh.1_5'Flank|KLHDC4_uc010cht.1_Silent_p.P124P|KLHDC4_uc002fkj.2_Silent_p.P274P|KLHDC4_uc002fkk.2_Silent_p.P124P|KLHDC4_uc002fkl.2_Silent_p.P248P|KLHDC4_uc010chu.1_Silent_p.P124P	NM_017566	NP_060036	Q8TBB5	KLDC4_HUMAN	kelch domain containing 4	305										pancreas(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0283)		TCTGGTGATTCGGGGCCATGG	0.567													17	44					0	0	1	0	0		T	87744970	T	T	87744970	2	4	73	1	0	0	0	0	0	0	0	1	8374	871	31	1		1	KLHDC4	16	87744970	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1200488	87744970	2609783	1032	48269											
CYBA	1535	broad.mit.edu	37	chr16	88713177	88713177	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcacaggagatgcaggacGgcccgaacatagtaattcct	13	7	10	11	2	1	1	1	0	0	1	2	4	2	2	2	3	2	2	2	3	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:88713177G>A	uc002flb.2	-	4	309	c.273C>T	c.(271-273)GCC>GCT	p.A91A	CYBA_uc002flc.1_5'Flank|CYBA_uc002fld.1_Silent_p.A91A|CYBA_uc010chx.1_Silent_p.A91A	NM_000101	NP_000092	P13498	CY24A_HUMAN	cytochrome b, alpha polypeptide	91					cytochrome complex assembly|electron transport chain|hydrogen peroxide biosynthetic process|inflammatory response|innate immune response|respiratory burst|smooth muscle hypertrophy|superoxide anion generation|transport	NADPH oxidase complex|stored secretory granule	electron carrier activity|heme binding|protein heterodimerization activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0478)		GATGCAGGACGGCCCGAACAT	0.667													21	39					0	0	1	0	0		A	88713177	A	A	88713177	2	1	73	1	0	0	0	0	0	0	0	1	4134	1103	39	1		1	CYBA	16	88713177	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	968207	88713177	1641576	1033	48270											
CTU2	348180	broad.mit.edu	37	chr16	88779164	88779164	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgggggtggtcctggcccGactcaaggggaggaacagcc	7	4	18	12	2	1	0	1	0	0	0	2	3	2	2	4	7	2	0	4	7	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:88779164G>A	uc002flm.2	+	7	636	c.588G>A	c.(586-588)CCG>CCA	p.P196P	CTU2_uc002fln.2_Silent_p.P196P|CTU2_uc010chz.2_Silent_p.P267P|CTU2_uc010cia.2_Silent_p.P109P	NM_001012759	NP_001012777	Q2VPK5	CTU2_HUMAN	cytoplasmic tRNA 2-thiolation protein 2 isoform	196					tRNA thio-modification|tRNA wobble uridine modification	cytoplasm|protein complex|soluble fraction	protein binding			skin(1)	1						GTCCTGGCCCGACTCAAGGGG	0.687													8	21					0	0	1	0	0		A	88779164	A	A	88779164	2	1	73	1	0	0	0	0	0	0	0	1	4051	1045	37	1		1	CTU2	16	88779164	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	65987	88779164	1575589	1034	48271											
ACSF3	197322	broad.mit.edu	37	chr16	89169058	89169058	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaccaaagacgacgtgaTcctccacgtgctcccgctgc	9	7	10	15	4	0	2	0	1	0	1	3	4	3	3	4	1	2	2	4	1	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:89169058T>C	uc002fmp.2	+	4	1053	c.713T>C	c.(712-714)ATC>ACC	p.I238T	ACSF3_uc010cig.1_Missense_Mutation_p.I238T|ACSF3_uc010cih.1_5'UTR|ACSF3_uc002fmq.1_RNA|ACSF3_uc010cii.1_RNA|ACSF3_uc002fmr.1_5'UTR	NM_174917	NP_777577	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3 precursor	238					fatty acid metabolic process	mitochondrion	acid-thiol ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0281)		GACGACGTGATCCTCCACGTG	0.617													15	26					0	0	1	0	0		C	89169058	C	C	89169058	3	2	73	1	0	0	0	0	1	0	0	0	176	1435	50	3	719	3	ACSF3	16	89169058	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	389894	89169058	1185695	1035	48272											
ZNF778	197320	broad.mit.edu	37	chr16	89293297	89293297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagagcagttttccgtgttgGgtcagtgtggaaaagccttc	8	12	14	7	1	1	1	1	0	0	1	3	3	2	2	2	2	2	3	2	2	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:89293297G>A	uc002fmv.2	+	6	856	c.517G>A	c.(517-519)GGT>AGT	p.G173S	ZNF778_uc010vpf.1_Intron|ZNF778_uc002fmw.1_Missense_Mutation_p.G131S|ZNF778_uc010vpg.1_5'UTR	NM_182531	NP_872337	Q96MU6	ZN778_HUMAN	zinc finger protein 778	173					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0269)		TTCCGTGTTGGGTCAGTGTGG	0.438													38	73					0	0	1	0	0		A	89293297	A	A	89293297	3	1	73	1	0	0	0	0	1	0	0	0	18176	1232	43	4	535	4	ZNF778	16	89293297	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	124239	89293297	1061456	1036	48273											
SPG7	6687	broad.mit.edu	37	chr16	89590439	89590439	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagacgccgtgagcgggaCgaccagatgtaccgagagcg	11	3	17	10	6	0	4	0	1	0	3	0	8	0	5	3	2	3	1	3	2	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:89590439C>T	uc002fnj.2	+	4	423	c.402C>T	c.(400-402)GAC>GAT	p.D134D	SPG7_uc002fni.2_Silent_p.D134D	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1	134	Mitochondrial matrix (Potential).				cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		GTGAGCGGGACGACCAGATGT	0.587													16	36					0	0	1	0	0		T	89590439	T	T	89590439	2	4	73	1	0	0	0	0	0	0	0	1	15069	535	19	1		1	SPG7	16	89590439	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	297142	89590439	764314	1037	48274											
CDK10	8558	broad.mit.edu	37	chr16	89758245	89758245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgatgggttactgtgagcagGacctggccagcctcctggag	7	9	15	10	0	0	2	0	2	0	0	1	4	1	4	4	4	3	2	4	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:89758245G>A	uc010cio.2	+	5	410	c.367G>A	c.(367-369)GAC>AAC	p.D123N	CDK10_uc002foa.2_Missense_Mutation_p.D117N|CDK10_uc010cip.2_Missense_Mutation_p.D52N|CDK10_uc010vpl.1_Missense_Mutation_p.D117N|CDK10_uc002fob.2_Missense_Mutation_p.D52N|CDK10_uc002fod.2_Missense_Mutation_p.D52N|CDK10_uc002foe.2_Missense_Mutation_p.D52N|CDK10_uc002fof.2_Missense_Mutation_p.D52N|CDK10_uc002fog.3_Missense_Mutation_p.D52N|CDK10_uc002foh.3_Missense_Mutation_p.D52N	NM_052988	NP_443714	Q15131	CDK10_HUMAN	cyclin-dependent kinase 10 isoform a	123	Protein kinase.				negative regulation of cell proliferation|traversing start control point of mitotic cell cycle		ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(1)	1		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0276)		CTGTGAGCAGGACCTGGCCAG	0.607													25	41					0	0	1	0	0		A	89758245	A	A	89758245	3	1	73	1	0	0	0	0	1	0	0	0	3128	1174	41	4	385	4	CDK10	16	89758245	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	167806	89758245	596508	1038	48275											
FANCA	2175	broad.mit.edu	37	chr16	89871719	89871719	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctggcgacgtcagcatgCtggcaggatgcttccatctg	6	9	13	13	2	2	0	1	0	1	0	3	2	3	1	2	3	3	4	2	3	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr16:89871719C>A	uc002fou.1	-	7	720	c.678G>T	c.(676-678)CAG>CAT	p.Q226H	FANCA_uc010vpn.1_Missense_Mutation_p.Q226H|FANCA_uc002fov.1_Missense_Mutation_p.Q209H|FANCA_uc002fow.1_Missense_Mutation_p.Q226H|FANCA_uc002fox.1_Missense_Mutation_p.Q226H|FANCA_uc010ciu.1_Missense_Mutation_p.Q194H|FANCA_uc002foy.2_Missense_Mutation_p.Q226H	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	226					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		CGTCAGCATGCTGGCAGGATG	0.522			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				10	20					1.58986e-06	1.6464e-06	1	1	0		A	89871719	A	A	89871719	3	1	73	1	0	0	0	0	1	0	0	0	5676	796	28	5	3842	5	FANCA	16	89871719	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	113474	89871719	483034	1039	48276											
VPS53	55275	broad.mit.edu	37	chr17	534828	534828	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaacgcttcttcaaaatctgCcaggatttgctgtcctaact	11	13	6	11	1	3	0	1	0	2	0	4	1	4	1	2	1	4	2	2	1	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:534828C>A	uc002frn.2	-	8	796	c.649G>T	c.(649-651)GCA>TCA	p.A217S	VPS53_uc002frk.2_5'UTR|VPS53_uc010cjo.1_Missense_Mutation_p.A217S|VPS53_uc002frl.2_RNA|VPS53_uc002frm.2_Missense_Mutation_p.A188S|VPS53_uc002fro.2_Missense_Mutation_p.A19S|VPS53_uc010cjp.1_Intron	NM_018289	NP_060759	Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 isoform 2	217					protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)		TCAAAATCTGCCAGGATTTGC	0.488													9	37					7.48243e-07	7.79844e-07	1	1	0		A	534828	A	A	534828	3	1	73	1	0	0	0	0	1	0	0	0	17241	739	26	5	1924	5	VPS53	17	534828	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08		534828	80660382	1040	48277											
INPP5K	51763	broad.mit.edu	37	chr17	1401243	1401243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcacctccaagtcgaacGtgccggagacaggcttgtgg	9	8	13	11	3	1	1	1	0	0	1	3	3	2	1	3	3	2	2	3	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:1401243G>A	uc002fsr.2	-	8	1339	c.950C>T	c.(949-951)ACG>ATG	p.T317M	INPP5K_uc002fss.2_Missense_Mutation_p.T241M|INPP5K_uc002fsq.2_Missense_Mutation_p.T241M|INPP5K_uc010cjr.2_Missense_Mutation_p.T241M|INPP5K_uc010vql.1_Missense_Mutation_p.T225M|INPP5K_uc010vqm.1_Missense_Mutation_p.T221M	NM_016532	NP_057616	Q9BT40	INP5K_HUMAN	inositol polyphosphate-5-phosphatase K isoform	317	Catalytic (Potential).				actin cytoskeleton organization	cytosol|endoplasmic reticulum|membrane fraction|neuron projection|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol bisphosphate phosphatase activity|inositol bisphosphate phosphatase activity|inositol trisphosphate phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|lipid phosphatase activity|protein binding				0						CAAGTCGAACGTGCCGGAGAC	0.577													38	118					0	0	1	0	0		A	1401243	A	A	1401243	3	1	73	1	0	0	0	0	1	0	0	0	7776	1145	40	1	416	1	INPP5K	17	1401243	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	866415	1401243	79793967	1041	48278											
INPP5K	51763	broad.mit.edu	37	chr17	1417245	1417245	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctagagggggcgctgccgAagccacgttccaagtcacga	10	6	13	12	4	2	1	1	0	1	1	3	3	3	1	3	2	2	2	3	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:1417245A>G	uc002fsr.2	-	2	462	c.73T>C	c.(73-75)TCG>CCG	p.S25P	INPP5K_uc002fss.2_5'UTR|INPP5K_uc002fsq.2_5'UTR|INPP5K_uc010cjr.2_5'UTR|INPP5K_uc010vql.1_Intron|INPP5K_uc010vqm.1_Missense_Mutation_p.S25P|INPP5K_uc010cjs.2_Missense_Mutation_p.S25P	NM_016532	NP_057616	Q9BT40	INP5K_HUMAN	inositol polyphosphate-5-phosphatase K isoform	25	Catalytic (Potential).				actin cytoskeleton organization	cytosol|endoplasmic reticulum|membrane fraction|neuron projection|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol bisphosphate phosphatase activity|inositol bisphosphate phosphatase activity|inositol trisphosphate phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|lipid phosphatase activity|protein binding				0						GGCGCTGCCGAAGCCACGTTC	0.498													15	35					0	0	1	0	0		G	1417245	G	G	1417245	3	3	73	1	0	0	0	0	1	0	0	0	7776	246	9	3	1317	3	INPP5K	17	1417245	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	16002	1417245	79777965	1042	48279											
SMYD4	114826	broad.mit.edu	37	chr17	1690197	1690197	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttgacaagctggacaggcGcagtcaaagaaatactgaga	15	7	12	7	1	1	3	1	2	0	2	1	5	1	4	0	2	2	3	0	2	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:1690197G>A	uc002ftm.3	-	7	1959	c.1791C>T	c.(1789-1791)TGC>TGT	p.C597C	SMYD4_uc002ftn.1_Silent_p.C452C	NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	597							zinc ion binding			skin(3)|kidney(2)	5						CTGGACAGGCGCAGTCAAAGA	0.567													17	31					0	0	1	0	0		A	1690197	A	A	1690197	2	1	73	1	0	0	0	0	0	0	0	1	14849	1079	38	1		1	SMYD4	17	1690197	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	272952	1690197	79505013	1043	48280											
SRR	63826	broad.mit.edu	37	chr17	2226566	2226566	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatggtgtcaaatccagcaTtggcttgaacacctggccta	11	10	10	10	0	1	2	1	1	0	1	2	2	2	2	3	3	2	2	3	3	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:2226566T>C	uc002fue.1	+	7	799	c.731T>C	c.(730-732)ATT>ACT	p.I244T	SRR_uc002fui.1_Missense_Mutation_p.I95T|TSR1_uc002fuj.2_3'UTR	NM_021947	NP_068766	Q9GZT4	SRR_HUMAN	serine racemase	244					D-serine biosynthetic process|L-serine metabolic process|protein homotetramerization|pyruvate biosynthetic process|response to lipopolysaccharide	cytoplasm|neuronal cell body|soluble fraction	ATP binding|calcium ion binding|D-serine ammonia-lyase activity|glycine binding|L-serine ammonia-lyase activity|magnesium ion binding|PDZ domain binding|protein homodimerization activity|pyridoxal phosphate binding|serine racemase activity|threonine racemase activity				0		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;3.24e-06)|READ - Rectum adenocarcinoma(1115;0.0649)	L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	AAATCCAGCATTGGCTTGAAC	0.458													41	82					0	0	1	0	0		C	2226566	C	C	2226566	3	2	73	1	0	0	0	0	1	0	0	0	15191	1493	52	3	753	3	SRR	17	2226566	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	536369	2226566	78968644	1044	48281											
PAFAH1B1	5048	broad.mit.edu	37	chr17	2570398	2570398	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccccgtccgccagaaaaatAtgcattgagtggtcacagga	12	8	10	11	2	1	2	1	1	0	1	3	3	3	3	4	2	1	1	4	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:2570398A>G	uc002fuw.3	+	5	873	c.305A>G	c.(304-306)TAT>TGT	p.Y102C	PAFAH1B1_uc010ckb.1_RNA	NM_000430	NP_000421	P43034	LIS1_HUMAN	platelet-activating factor acetylhydrolase,	102	Interaction with NDEL1 (By similarity).|Interaction with dynein and dynactin.				acrosome assembly|actin cytoskeleton organization|adult locomotory behavior|brain morphogenesis|corpus callosum morphogenesis|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|hippocampus development|layer formation in cerebral cortex|learning or memory|lipid catabolic process|microtubule organizing center organization|mitotic prometaphase|neuroblast proliferation|neuromuscular process controlling balance|neuron migration|platelet activating factor metabolic process|regulation of Rho GTPase activity|retrograde axon cargo transport|synaptic transmission|vesicle transport along microtubule	astral microtubule|cell cortex|centrosome|cytosol|kinetochore|motile primary cilium|nuclear membrane|perinuclear region of cytoplasm	dynactin binding|heparin binding|microtubule binding|phospholipase binding|phosphoprotein binding|protein homodimerization activity			skin(1)	1						CCAGAAAAATATGCATTGAGT	0.433													15	52					0	0	1	0	0		G	2570398	G	G	2570398	3	3	73	1	0	0	0	0	1	0	0	0	11403	449	16	3	319	3	PAFAH1B1	17	2570398	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	343832	2570398	78624812	1045	48282											
SHPK	23729	broad.mit.edu	37	chr17	3518749	3518749	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tatgggaagtaggcgactggGgccgtagggtctggagtctg	7	9	19	6	2	2	0	0	0	2	0	2	3	2	2	1	6	0	2	1	6	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:3518749G>T	uc002fvz.1	-	6	1009	c.906C>A	c.(904-906)GCC>GCA	p.A302A		NM_013276	NP_037408	Q9UHJ6	SHPK_HUMAN	carbohydrate kinase-like	302					carbohydrate metabolic process	cytoplasm	ATP binding|sedoheptulokinase activity			ovary(1)	1				COAD - Colon adenocarcinoma(5;0.0828)		AGGCGACTGGGGCCGTAGGGT	0.607													14	37					2.32078e-09	2.46827e-09	1	1	0		T	3518749	T	T	3518749	2	4	73	1	0	0	0	0	0	0	0	1	14315	1219	43	5		5	SHPK	17	3518749	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	948351	3518749	77676461	1046	48283											
ANKFY1	51479	broad.mit.edu	37	chr17	4077240	4077240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacggcagcaaagtccaCgccattctctaggaggactg	11	7	10	13	2	1	0	0	0	1	0	4	2	3	2	3	3	1	2	3	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:4077240C>T	uc002fxq.1	-	20	2925	c.2887G>A	c.(2887-2889)GTG>ATG	p.V963M	ANKFY1_uc002fxn.2_Missense_Mutation_p.V1005M|ANKFY1_uc002fxo.2_Missense_Mutation_p.V964M|ANKFY1_uc002fxp.2_Missense_Mutation_p.V962M|ANKFY1_uc010ckp.2_Missense_Mutation_p.V905M	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	963	ANK 18.					endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						GCAAAGTCCACGCCATTCTCT	0.537													35	79					0	0	1	0	0		T	4077240	T	T	4077240	3	4	73	1	0	0	0	0	1	0	0	0	626	536	19	1	646	1	ANKFY1	17	4077240	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	558491	4077240	77117970	1047	48284											
VMO1	284013	broad.mit.edu	37	chr17	4689578	4689578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttccggccatctgtctgtgCacatgtgaaaccagtcgccc	7	10	10	14	2	2	1	0	1	2	0	4	1	3	1	4	1	2	2	4	1	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:4689578C>T	uc002fyx.2	-	1	152	c.70G>A	c.(70-72)GCA>ACA	p.A24T	VMO1_uc010vsh.1_Missense_Mutation_p.A24T|VMO1_uc010vsi.1_Missense_Mutation_p.A24T|VMO1_uc002fyy.2_Missense_Mutation_p.A24T|GLTPD2_uc002fza.1_5'Flank	NM_182566	NP_872372	Q7Z5L0	VMO1_HUMAN	vitelline membrane outer layer 1 isoform 1	24					vitelline membrane formation	extracellular region				ovary(1)	1						TCTGTCTGTGCACATGTGAAA	0.547													3	15					0	0	1	0	0		T	4689578	T	T	4689578	3	4	73	1	0	0	0	0	1	0	0	0	17203	710	25	2	584	2	VMO1	17	4689578	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	612338	4689578	76505632	1048	48285											
CHRNE	1145	broad.mit.edu	37	chr17	4804134	4804134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctctgggattttctgggCaatgaggaacaagaagacgg	12	9	14	6	1	2	3	0	1	2	2	3	5	2	5	0	4	1	1	0	4	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:4804134C>T	uc002fzk.1	-	8	882	c.871G>A	c.(871-873)GCC>ACC	p.A291T	C17orf107_uc002fzl.3_3'UTR	NM_000080	NP_000071	Q04844	ACHE_HUMAN	nicotinic acetylcholine receptor epsilon	291	Helical; (Potential).				muscle contraction|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						ATTTTCTGGGCAATGAGGAAC	0.667													10	22					0	0	1	0	0		T	4804134	T	T	4804134	3	4	73	1	0	0	0	0	1	0	0	0	3398	710	25	2	630	2	CHRNE	17	4804134	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	114556	4804134	76391076	1049	48286											
ENO3	2027	broad.mit.edu	37	chr17	4860186	4860186	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatacaaccaactcatgaggTacagcgggaacagtgggcct	14	6	11	10	1	1	1	1	1	0	0	1	2	1	2	2	3	6	1	2	3	6	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:4860186T>A	uc002gab.3	+	11	1329	c.1235_splice	c.e11+2	p.R412_splice	ENO3_uc002gac.3_Splice_Site_p.R412_splice|ENO3_uc010vss.1_Splice_Site_p.R369_splice|ENO3_uc010vst.1_Splice_Site_p.R239_splice	NM_053013	NP_443739	P13929	ENOB_HUMAN	enolase 3						gluconeogenesis|glycolysis	phosphopyruvate hydratase complex	magnesium ion binding|phosphopyruvate hydratase activity			ovary(1)	1						ACTCATGAGGTACAGCGGGAA	0.572											OREG0024110	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	48	118					0	0	1	0	0		A	4860186	A	A	4860186	5	1	73	1	0	0	0	0	0	0	1	0	5131	1652	57	5	1275	5	ENO3	17	4860186	Splice_Site	SNP	T	TCGA-BR-8372-01A-11D-2340-08	56052	4860186	76335024	1050	48287											
RABEP1	9135	broad.mit.edu	37	chr17	5238641	5238641	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaaatgaaatgaaaaaggTatgaaggaatgtgttcattt	19	11	10	1	0	1	4	1	3	0	1	1	5	1	5	0	2	0	2	0	2	8	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:5238641T>C	uc002gbm.3	+	4	752	c.528_splice	c.e4+2	p.K176_splice	RABEP1_uc010clc.1_Splice_Site_p.K176_splice|RABEP1_uc010cld.1_Splice_Site_p.K133_splice|RABEP1_uc010vsw.1_Splice_Site_p.K133_splice|RABEP1_uc002gbl.3_Splice_Site_p.K176_splice|RABEP1_uc002gbj.2_Splice_Site_p.K176_splice|RABEP1_uc002gbk.2_Splice_Site_p.K176_splice	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1						apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						ATGAAAAAGGTATGAAGGAAT	0.318													10	19					0	0	1	0	0		C	5238641	C	C	5238641	5	2	73	1	0	0	0	0	0	0	1	0	12986	1652	57	3	544	3	RABEP1	17	5238641	Splice_Site	SNP	T	TCGA-BR-8372-01A-11D-2340-08	378455	5238641	75956569	1051	48288											
PITPNM3	83394	broad.mit.edu	37	chr17	6377844	6377844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggacacatcgaagtcaaagCggcccaggctgacctcaggg	11	4	13	13	3	2	1	2	1	0	0	3	3	2	2	2	4	1	1	2	4	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:6377844C>T	uc002gdd.3	-	10	1317	c.1166G>A	c.(1165-1167)CGC>CAC	p.R389H	PITPNM3_uc010cln.2_Missense_Mutation_p.R353H|PITPNM3_uc010clm.2_5'Flank|PITPNM3_uc002gdc.3_5'UTR	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	389					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		GAAGTCAAAGCGGCCCAGGCT	0.667													5	8					0	0	1	0	0		T	6377844	T	T	6377844	3	4	73	1	0	0	0	0	1	0	0	0	11971	768	27	1	1802	1	PITPNM3	17	6377844	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1139203	6377844	74817366	1052	48289											
NEURL4	84461	broad.mit.edu	37	chr17	7229602	7229602	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catccagactgaattcgcagTactcccggcgggtgcccttg	7	9	11	14	3	0	2	0	1	0	1	3	2	2	2	3	2	2	2	3	2	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:7229602T>C	uc002gga.1	-	6	1272	c.1265A>G	c.(1264-1266)TAC>TGC	p.Y422C	NEURL4_uc002ggb.1_Missense_Mutation_p.Y422C|NEURL4_uc002ggc.1_5'UTR	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	422	NHR 2.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						GAATTCGCAGTACTCCCGGCG	0.607													12	15					0	0	1	0	0		C	7229602	C	C	7229602	3	2	73	1	0	0	0	0	1	0	0	0	10366	1638	57	3	3519	3	NEURL4	17	7229602	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	851758	7229602	73965608	1053	48290											
NEURL4	84461	broad.mit.edu	37	chr17	7230237	7230237	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggccttcccctgccggTggggagctcaggttcacatt	5	9	12	15	1	2	0	2	0	0	0	3	1	3	1	5	5	2	2	5	5	0	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:7230237T>C	uc002gga.1	-	4	892	c.885A>G	c.(883-885)CCA>CCG	p.P295P	NEURL4_uc002ggb.1_Silent_p.P295P|NEURL4_uc002ggc.1_5'Flank	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	295							protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						CCCCTGCCGGTGGGGAGCTCA	0.567													24	44					0	0	1	0	0		C	7230237	C	C	7230237	2	2	73	1	0	0	0	0	0	0	0	1	10366	1683	59	3		3	NEURL4	17	7230237	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	635	7230237	73964973	1054	48291											
CHRNB1	1140	broad.mit.edu	37	chr17	7350229	7350229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgcatcacggcggaatcCgtgtggctccctgacgtggt	5	9	13	14	5	1	1	1	1	0	0	4	2	4	2	3	4	0	2	3	4	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:7350229C>T	uc002ghb.2	+	4	362	c.321C>T	c.(319-321)TCC>TCT	p.S107S	CHRNB1_uc010vty.1_Silent_p.S35S|CHRNB1_uc010vtz.1_5'UTR	NM_000747	NP_000738	P11230	ACHB_HUMAN	nicotinic acetylcholine receptor beta 1 subunit	107	Extracellular (Potential).				behavioral response to nicotine|muscle contraction|muscle fiber development|neuromuscular synaptic transmission|postsynaptic membrane organization|regulation of membrane potential|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine binding|receptor activity			ovary(2)	2		Prostate(122;0.157)				CGGCGGAATCCGTGTGGCTCC	0.488													10	24					0	0	1	0	0		T	7350229	T	T	7350229	2	4	73	1	0	0	0	0	0	0	0	1	3393	639	23	1		1	CHRNB1	17	7350229	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	119992	7350229	73844981	1055	48292											
EFNB3	1949	broad.mit.edu	37	chr17	7612568	7612568	+	Frame_Shift_Del	DEL	G	-	-																															ctgcagtggctggggcagcaGgggggctggcgctgctcttg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:7612568delG	uc002gis.2	+	5	1094	c.697delG	c.(697-699)GGGfs	p.G233fs		NM_001406	NP_001397	Q15768	EFNB3_HUMAN	ephrin-B3 precursor	233	Helical; (Potential).				cell-cell signaling|interspecies interaction between organisms	integral to plasma membrane	ephrin receptor binding|transmembrane-ephrin receptor activity			ovary(1)	1		all_cancers(10;1.14e-06)|Prostate(122;0.081)				TGGGGCAGCAGGGGGGCTGGC	0.716													14	31	---	---	---	---						.	-	7612568	-	-	7612568	7	5	73	1	0	1	0	1	0	0	0	0	4963	1000	35	0	715	0	EFNB3	17	7612568	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	262339	7612568	73582642	1056	48293											
ALOX12B	242	broad.mit.edu	37	chr17	7978948	7978948	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggaggcactctttaaatAtttcctgcacccaagactgc	11	10	7	13	0	1	1	0	0	1	1	2	2	2	2	3	2	2	2	3	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:7978948A>G	uc002gjy.1	-	12	1880	c.1619T>C	c.(1618-1620)ATA>ACA	p.I540T		NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	540	Lipoxygenase.				epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						CTCTTTAAATATTTCCTGCAC	0.592										Multiple Myeloma(8;0.094)			12	180					0	0	1	0	0		G	7978948	G	G	7978948	3	3	73	1	0	0	0	0	1	0	0	0	537	449	16	3	502	3	ALOX12B	17	7978948	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	366380	7978948	73216262	1057	48294											
PIK3R5	23533	broad.mit.edu	37	chr17	8791599	8791599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccactcaggaaggggcggCggcgctgggggcgtgaagca	7	4	19	11	4	1	1	1	1	0	0	2	2	2	2	1	7	1	2	1	7	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:8791599C>T	uc002glt.2	-	10	1572	c.1505G>A	c.(1504-1506)CGC>CAC	p.R502H	PIK3R5_uc010vuz.1_Missense_Mutation_p.R502H|PIK3R5_uc002glu.3_Missense_Mutation_p.R116H|PIK3R5_uc010coa.1_3'UTR|PIK3R5_uc010cob.1_Missense_Mutation_p.R116H	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	502					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						GAAGGGGCGGCGGCGCTGGGG	0.677													18	43					0	0	1	0	0		T	8791599	T	T	8791599	3	4	73	1	0	0	0	0	1	0	0	0	11941	768	27	1	1177	1	PIK3R5	17	8791599	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	812651	8791599	72403611	1058	48295											
MYH2	4620	broad.mit.edu	37	chr17	10426662	10426662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcactcgcctctcatgtttgCgcagacctttgacagcctca	7	12	7	15	2	3	2	3	1	1	1	5	2	3	2	3	0	2	2	3	0	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:10426662C>T	uc010coi.2	-	38	5668	c.5540G>A	c.(5539-5541)CGC>CAC	p.R1847H	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.R1847H|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1847	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTCATGTTTGCGCAGACCTTT	0.463													31	80					0	0	1	0	0		T	10426662	T	T	10426662	3	4	73	1	0	0	0	0	1	0	0	0	10053	768	27	1	297	1	MYH2	17	10426662	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1635063	10426662	70768548	1059	48296											
MYH3	4621	broad.mit.edu	37	chr17	10535191	10535191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctgttccgccagtttcCgggccctctccgtctgctcc	1	12	9	19	3	2	0	0	0	2	0	7	0	6	0	7	1	1	4	7	1	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:10535191C>T	uc002gmq.1	-	34	5176	c.5099G>A	c.(5098-5100)CGG>CAG	p.R1700Q		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1700	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CGCCAGTTTCCGGGCCCTCTC	0.647													12	55					0	0	1	0	0		T	10535191	T	T	10535191	3	4	73	1	0	0	0	0	1	0	0	0	10054	652	23	1	751	1	MYH3	17	10535191	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	108529	10535191	70660019	1060	48297											
MPRIP	23164	broad.mit.edu	37	chr17	17057685	17057685	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcggaactggatccagacCatcatgaagcacgtgcaccc	11	5	11	14	3	1	2	1	1	0	1	2	4	2	4	3	3	3	2	3	3	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:17057685C>A	uc002gqu.1	+	13	1487	c.1431C>A	c.(1429-1431)ACC>ACA	p.T477T	MPRIP_uc002gqv.1_Silent_p.T477T|MPRIP_uc002gqw.1_Silent_p.T232T	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	477	PH 2.					cytoplasm|cytoskeleton	actin binding				0						GGATCCAGACCATCATGAAGC	0.572													10	39					7.48243e-07	7.79844e-07	1	1	0		A	17057685	A	A	17057685	2	1	73	1	0	0	0	0	0	0	0	1	9761	581	21	5		5	MPRIP	17	17057685	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	6522494	17057685	64137525	1061	48298											
RAI1	10743	broad.mit.edu	37	chr17	17700156	17700156	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccacccccggagaccccCgatgcctgcctcaagctcgc	6	5	8	22	3	1	1	1	0	0	1	3	3	2	1	7	1	3	1	7	1	1	0	rs139432822	by1000genomes	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:17700156C>T	uc002grm.2	+	3	4363	c.3894C>T	c.(3892-3894)CCC>CCT	p.P1298P	RAI1_uc002grn.1_Silent_p.P1298P	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1298						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CGGAGACCCCCGATGCCTGCC	0.652													41	71					0	0	1	0	0		T	17700156	T	T	17700156	2	4	73	1	0	0	0	0	0	0	0	1	13032	639	23	1		1	RAI1	17	17700156	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	642471	17700156	63495054	1062	48299											
SREBF1	6720	broad.mit.edu	37	chr17	17720439	17720439	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagcagccactgggcccAgccagggccatctatggaca	9	4	14	14	0	1	0	0	0	1	0	1	1	1	1	4	4	3	2	4	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:17720439A>G	uc002gru.1	-	9	1812	c.1618T>C	c.(1618-1620)TGG>CGG	p.W540R	SREBF1_uc002grp.1_Missense_Mutation_p.W159R|SREBF1_uc002grq.1_Missense_Mutation_p.W59R|SREBF1_uc002grr.1_Missense_Mutation_p.W286R|SREBF1_uc002grs.1_Missense_Mutation_p.W516R|SREBF1_uc002grt.1_Missense_Mutation_p.W570R	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	540	Lumenal (Potential).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						CACTGGGCCCAGCCAGGGCCA	0.617													11	34					0	0	1	0	0		G	17720439	G	G	17720439	3	3	73	1	0	0	0	0	1	0	0	0	15166	188	7	3	1869	3	SREBF1	17	17720439	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	20283	17720439	63474771	1063	48300											
DRG2	1819	broad.mit.edu	37	chr17	17997175	17997175	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctaagctcgccaagtatcGggcccagctcctggaaccgt	9	7	11	14	3	0	0	0	0	0	0	3	1	1	1	4	2	4	4	4	2	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:17997175G>T	uc002gsh.1	+	2	168	c.113G>T	c.(112-114)CGG>CTG	p.R38L	DRG2_uc010vxg.1_Missense_Mutation_p.R38L|DRG2_uc002gsi.1_RNA|DRG2_uc002gsj.1_Missense_Mutation_p.R38L	NM_001388	NP_001379	P55039	DRG2_HUMAN	developmentally regulated GTP binding protein 2	38					signal transduction		GTP binding			ovary(1)	1	all_neural(463;0.228)					GCCAAGTATCGGGCCCAGCTC	0.557													21	34					7.45023e-12	8.01739e-12	1	1	0		T	17997175	T	T	17997175	3	4	73	1	0	0	0	0	1	0	0	0	4768	1116	39	5	119	5	DRG2	17	17997175	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	276736	17997175	63198035	1064	48301											
MYO15A	51168	broad.mit.edu	37	chr17	18071031	18071031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaccacttctacctgcCgagcgtgtgagcatctgccc	8	8	10	15	2	2	1	0	1	2	0	2	3	2	2	4	1	5	1	4	1	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:18071031C>T	uc010vxh.1	+	61	10414	c.10076C>T	c.(10075-10077)CCG>CTG	p.P3359L	MYO15A_uc010vxi.1_Missense_Mutation_p.P623L|MYO15A_uc010vxk.1_Missense_Mutation_p.P52L|MYO15A_uc010vxl.1_Missense_Mutation_p.P348L|MYO15A_uc002gsl.2_Missense_Mutation_p.P366L|MYO15A_uc010vxm.1_Intron|MYO15A_uc010cpv.2_RNA	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	3359	Tail.|FERM.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					TTCTACCTGCCGAGCGTGTGA	0.667													13	26					0	0	1	0	0		T	18071031	T	T	18071031	3	4	73	1	0	0	0	0	1	0	0	0	10081	652	23	1	10314	1	MYO15A	17	18071031	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	73856	18071031	63124179	1065	48302											
CCDC144B	284047	broad.mit.edu	37	chr17	18483747	18483747	+	RNA	DEL	T	-	-																															ttcctcatttagttttataaTtttttgaaggttatcattct																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:18483747delT	uc002gua.3	-	12		c.2679delA								Homo sapiens cDNA FLJ36492 fis, clone THYMU2018455.											ovary(1)|skin(1)	2						AGTTTTATAATTTTTTGAAGG	0.313													7	10	---	---	---	---						.	-	18483747	-	-	18483747	6	5	73	0	1	1	0	1	0	0	0	0	2781	1508	52	0		0	CCDC144B	17	18483747	RNA	DEL	T	TCGA-BR-8372-01A-11D-2340-08	412716	18483747	62711463	1066	48303											
FAM83G	644815	broad.mit.edu	37	chr17	18874698	18874698	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctttgcggtcccggggggCttgagccctccgtttagaat	4	12	14	11	3	1	2	0	1	1	1	3	2	3	2	3	4	2	2	3	4	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:18874698C>A	uc002guw.2	-	6	2613	c.2446G>T	c.(2446-2448)GCC>TCC	p.A816S	SLC5A10_uc002gur.1_Intron|SLC5A10_uc002guu.1_Intron|SLC5A10_uc002gut.1_Intron|SLC5A10_uc002guv.1_Intron|SLC5A10_uc010vyl.1_Intron	NM_001039999	NP_001035088	A6ND36	FA83G_HUMAN	hypothetical protein LOC644815	816										ovary(1)|central_nervous_system(1)	2						TCCCGGGGGGCTTGAGCCCTC	0.627													21	52					4.35082e-09	4.61383e-09	1	1	0		A	18874698	A	A	18874698	3	1	73	1	0	0	0	0	1	0	0	0	5653	797	28	5	29	5	FAM83G	17	18874698	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	390951	18874698	62320512	1067	48304											
SLC5A10	125206	broad.mit.edu	37	chr17	18918512	18918512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagctcctgctggtgggacGgtacgggggtgggggccagt	4	7	22	8	2	0	0	0	0	0	0	1	2	1	2	2	8	3	3	2	8	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:18918512G>A	uc002guu.1	+	11	1282	c.1241G>A	c.(1240-1242)CGG>CAG	p.R414Q	SLC5A10_uc002gur.1_Missense_Mutation_p.R347H|SLC5A10_uc002gut.1_Missense_Mutation_p.R430Q|SLC5A10_uc002guv.1_Missense_Mutation_p.R387Q|SLC5A10_uc010vyl.1_Missense_Mutation_p.R378Q|SLC5A10_uc002gux.1_5'Flank	NM_001042450	NP_001035915	A0PJK1	SC5AA_HUMAN	solute carrier family 5 (sodium/glucose	414	Helical; (Potential).				sodium ion transport|transmembrane transport	integral to membrane	transporter activity			ovary(1)	1						CTGGTGGGACGGTACGGGGGT	0.642													11	7					0	0	1	0	0		A	18918512	A	A	18918512	3	1	73	1	0	0	0	0	1	0	0	0	14687	1130	39	1	1331	1	SLC5A10	17	18918512	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	43814	18918512	62276698	1068	48305											
SLC47A2	146802	broad.mit.edu	37	chr17	19618513	19618513	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acgatgtagatcataaaagtCagcacctggaacaggaactg	16	7	10	8	1	2	1	2	0	0	1	2	4	2	3	1	2	3	2	1	2	5	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:19618513C>T	uc002gwe.3	-	2	316	c.141G>A	c.(139-141)CTG>CTA	p.L47L	SLC47A2_uc002gwg.3_Silent_p.L47L|SLC47A2_uc002gwf.3_Silent_p.L47L|SLC47A2_uc002gwh.3_RNA|SLC47A2_uc002gwi.2_RNA|SLC47A2_uc010cqs.1_RNA|SLC47A2_uc010cqt.1_5'Flank	NM_152908	NP_690872	Q86VL8	S47A2_HUMAN	solute carrier family 47, member 2 isoform 1	47	Helical; (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.3e-05)|all_epithelial(12;0.0024)|Breast(13;0.245)					TCATAAAAGTCAGCACCTGGA	0.617													4	41					0	0	1	0	0		T	19618513	T	T	19618513	2	4	73	1	0	0	0	0	0	0	0	1	14673	813	29	4		4	SLC47A2	17	19618513	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	700001	19618513	61576697	1069	48306											
LGALS9B	284194	broad.mit.edu	37	chr17	20354887	20354887	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgggtgttacggaccacAgcattctcatcaaaacgggg	11	9	11	10	2	3	0	2	0	2	0	4	1	3	1	1	4	3	2	1	4	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:20354887A>G	uc002gxa.1	-	10	896	c.831T>C	c.(829-831)GCT>GCC	p.A277A	LGALS9B_uc002gwz.1_Silent_p.A276A|LGALS9B_uc010vzh.1_Silent_p.A189A	NM_001042685	NP_001036150	Q3B8N2	LEG9B_HUMAN	galectin-9 like	277	Galectin 2.						sugar binding			skin(1)	1						TACGGACCACAGCATTCTCAT	0.572													22	39					0	0	1	0	0		G	20354887	G	G	20354887	2	3	73	1	0	0	0	0	0	0	0	1	8765	175	7	3		3	LGALS9B	17	20354887	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	736374	20354887	60840323	1070	48307											
MAP2K3	5606	broad.mit.edu	37	chr17	21215533	21215533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcaggtggtggaggagcCgtccccccagctcccagccg	7	4	15	15	2	0	0	0	0	0	0	2	3	2	2	6	4	4	2	6	4	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:21215533C>T	uc002gys.2	+	10	1119	c.854C>T	c.(853-855)CCG>CTG	p.P285L	MAP2K3_uc002gyt.2_Missense_Mutation_p.P256L|MAP2K3_uc002gyu.2_Missense_Mutation_p.P256L	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	285	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		GTGGAGGAGCCGTCCCCCCAG	0.652													8	23					0	0	1	0	0		T	21215533	T	T	21215533	3	4	73	1	0	0	0	0	1	0	0	0	9256	652	23	1	892	1	MAP2K3	17	21215533	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	860646	21215533	59979677	1071	48308											
NLK	51701	broad.mit.edu	37	chr17	26518101	26518101	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccctacctagatgaagggCgactacgatatcacacatgt	13	8	8	12	2	1	2	1	1	0	1	1	4	1	2	3	1	2	0	3	1	5	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:26518101C>T	uc010crj.2	+	9	1503	c.1291C>T	c.(1291-1293)CGA>TGA	p.R431*	NLK_uc010cri.1_RNA	NM_016231	NP_057315	Q9UBE8	NLK_HUMAN	nemo like kinase	431					intracellular protein kinase cascade|negative regulation of Wnt receptor signaling pathway|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|serine phosphorylation of STAT3 protein|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|MAP kinase activity|SH2 domain binding|transcription factor binding|ubiquitin protein ligase binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_lung(13;0.000343)|Lung NSC(42;0.00184)			UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		AGATGAAGGGCGACTACGATA	0.423													21	51					0	0	1	0	0		T	26518101	T	T	26518101	4	4	73	1	0	0	0	0	0	1	0	0	10485	760	27	1	1325	1	NLK	17	26518101	Nonsense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5302568	26518101	54677109	1072	48309											
SUPT6H	6830	broad.mit.edu	37	chr17	27009838	27009838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagacagagcagtttcccgCggagcccttggagctggcca	8	6	14	13	3	0	2	0	0	0	2	1	5	1	4	3	3	3	3	3	3	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:27009838C>T	uc002hby.2	+	14	1781	c.1691C>T	c.(1690-1692)GCG>GTG	p.A564V	SUPT6H_uc010crt.2_Missense_Mutation_p.A564V	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	564					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					CAGTTTCCCGCGGAGCCCTTG	0.592													22	38					0	0	1	0	0		T	27009838	T	T	27009838	3	4	73	1	0	0	0	0	1	0	0	0	15425	768	27	1	1741	1	SUPT6H	17	27009838	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	491737	27009838	54185372	1073	48310											
SSH2	85464	broad.mit.edu	37	chr17	27957929	27957929	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcagtctcctaagggggTgagttctgccgtgttgctga	5	15	13	8	1	3	2	1	2	2	0	4	2	3	2	2	2	2	3	2	2	1	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:27957929T>C	uc002heo.1	-	15	4202	c.4202A>G	c.(4201-4203)CAC>CGC	p.H1401R	SSH2_uc010wbh.1_Missense_Mutation_p.H1428R	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1401					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						CCTAAGGGGGTGAGTTCTGCC	0.532													56	112					0	0	1	0	0		C	27957929	C	C	27957929	3	2	73	1	0	0	0	0	1	0	0	0	15210	1696	59	3	73	3	SSH2	17	27957929	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	948091	27957929	53237281	1074	48311											
ATAD5	79915	broad.mit.edu	37	chr17	29221133	29221133	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgtttcacaaaagcgcaaTaatgtatactttagtcagtc	14	14	6	7	1	2	0	2	0	0	0	3	0	2	0	0	0	2	3	0	0	8	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:29221133T>C	uc002hfs.1	+	21	5608	c.5262T>C	c.(5260-5262)AAT>AAC	p.N1754N		NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	1754					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				AAAAGCGCAATAATGTATACT	0.318													8	38					0	0	1	0	0		C	29221133	C	C	29221133	2	2	73	1	0	0	0	0	0	0	0	1	1077	1403	49	3		3	ATAD5	17	29221133	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1263204	29221133	51974077	1075	48312											
NLE1	54475	broad.mit.edu	37	chr17	33460484	33460484	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccacgcaatctggtacacGgcagccacgtggccgcgtag	9	5	13	14	5	1	0	0	0	1	0	1	1	1	0	3	3	2	4	3	3	3	2	rs148833526		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:33460484G>A	uc002hiy.1	-	11	1276	c.1248C>T	c.(1246-1248)GCC>GCT	p.A416A	NLE1_uc010ctn.1_Silent_p.A124A|NLE1_uc002hiz.1_Silent_p.A124A	NM_018096	NP_060566	Q9NVX2	NLE1_HUMAN	Notchless gene homolog isoform a	416	WD 7.					nucleolus				breast(3)|ovary(1)	4		Ovarian(249;0.17)				TCTGGTACACGGCAGCCACGT	0.572													13	16					0	0	1	0	0		A	33460484	A	A	33460484	2	1	73	1	0	0	0	0	0	0	0	1	10479	1103	39	1		1	NLE1	17	33460484	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	4239351	33460484	47734726	1076	48313											
AATF	26574	broad.mit.edu	37	chr17	35348137	35348137	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgaagaaatctttgatgAtgatgacttttaccaccagg	13	12	10	6	0	1	6	0	5	1	1	1	7	1	7	2	2	1	0	2	2	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:35348137A>T	uc002hni.2	+	8	1630	c.1379A>T	c.(1378-1380)GAT>GTT	p.D460V	AATF_uc002hnj.2_RNA	NM_012138	NP_036270	Q9NY61	AATF_HUMAN	apoptosis antagonizing transcription factor	460	RB1 and SP1 binding.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of superoxide anion generation|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to DNA damage stimulus	centrosome|focal adhesion|nucleolus	leucine zipper domain binding|sequence-specific DNA binding transcription factor activity				0		Breast(25;0.00607)				ATCTTTGATGATGATGACTTT	0.368													31	77					0	0	1	0	0		T	35348137	T	T	35348137	3	4	73	1	0	0	0	0	1	0	0	0	25	333	12	5	1409	5	AATF	17	35348137	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1887653	35348137	45847073	1077	48314											
GPR179	440435	broad.mit.edu	37	chr17	36483237	36483237	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccagggacacacagccTcctgctgcctgaagtctgcc	7	8	9	17	0	2	1	0	1	2	0	4	2	3	2	5	1	4	1	5	1	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:36483237T>C	uc002hpz.2	-	11	6236	c.6215A>G	c.(6214-6216)GAG>GGG	p.E2072G		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	2072	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				ACACACAGCCTCCTGCTGCCT	0.562													39	89					0	0	1	0	0		C	36483237	C	C	36483237	3	2	73	1	0	0	0	0	1	0	0	0	6689	1551	54	3	892	3	GPR179	17	36483237	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1135100	36483237	44711973	1078	48315											
NEUROD2	4761	broad.mit.edu	37	chr17	37762190	37762190	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaagcggccggcaccgtcGgcgccttgctccgtgaggaa	6	6	16	13	6	0	1	0	1	0	0	2	3	1	3	4	5	2	2	4	5	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:37762190G>T	uc002hry.2	-	2	863	c.663C>A	c.(661-663)GCC>GCA	p.A221A		NM_006160	NP_006151	Q15784	NDF2_HUMAN	neurogenic differentiation 2	221					cellular response to calcium ion|cellular response to electrical stimulus|cerebellar cortex development|negative regulation of synapse maturation|positive regulation of calcium-mediated signaling|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of synapse maturation|positive regulation of synaptic plasticity|protein ubiquitination|regulation of transcription from RNA polymerase II promoter	nucleus	E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Lung(15;0.00549)|LUAD - Lung adenocarcinoma(14;0.0664)			CGGCACCGTCGGCGCCTTGCT	0.662													9	16					1.58986e-06	1.6464e-06	1	1	0		T	37762190	T	T	37762190	2	4	73	1	0	0	0	0	0	0	0	1	10368	1103	39	5		5	NEUROD2	17	37762190	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1278953	37762190	43433020	1079	48316											
NR1D1	9572	broad.mit.edu	37	chr17	38251794	38251794	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggcatagacggtgcccgTtgctgttggactggtggcag	5	10	18	8	2	0	1	0	0	0	1	0	2	0	2	1	6	2	5	1	6	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:38251794T>C	uc002htz.1	-	5	1777	c.1151A>G	c.(1150-1152)AAC>AGC	p.N384S	NR1D1_uc010cwq.1_RNA|NR1D1_uc010cwr.1_Intron	NM_021724	NP_068370	P20393	NR1D1_HUMAN	nuclear receptor subfamily 1, group D, member 1	384					cellular response to lipopolysaccharide|negative regulation of receptor biosynthetic process|negative regulation of toll-like receptor 4 signaling pathway|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			skin(1)	1	Colorectal(19;0.000442)					ACGGTGCCCGTTGCTGTTGGA	0.622													21	42					0	0	1	0	0		C	38251794	C	C	38251794	3	2	73	1	0	0	0	0	1	0	0	0	10634	1725	60	3	709	3	NR1D1	17	38251794	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	489604	38251794	42943416	1080	48317											
NR1D1	9572	broad.mit.edu	37	chr17	38252042	38252042	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagcttgtcatgggcgtaGgtgaagatctctcgatgggc	7	10	14	10	2	2	2	1	1	1	1	4	3	2	2	1	3	1	2	1	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:38252042G>T	uc002htz.1	-	5	1529	c.903C>A	c.(901-903)ACC>ACA	p.T301T	NR1D1_uc010cwq.1_RNA|NR1D1_uc010cwr.1_Intron	NM_021724	NP_068370	P20393	NR1D1_HUMAN	nuclear receptor subfamily 1, group D, member 1	301					cellular response to lipopolysaccharide|negative regulation of receptor biosynthetic process|negative regulation of toll-like receptor 4 signaling pathway|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			skin(1)	1	Colorectal(19;0.000442)					CATGGGCGTAGGTGAAGATCT	0.592													13	23					5.50884e-06	5.6805e-06	1	1	0		T	38252042	T	T	38252042	2	4	73	1	0	0	0	0	0	0	0	1	10634	987	35	5		5	NR1D1	17	38252042	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	248	38252042	42943168	1081	48318											
CASC3	22794	broad.mit.edu	37	chr17	38320386	38320386	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagaattggagtccggggCagccttctttcctgcaacca	10	9	10	12	1	1	1	0	0	1	1	3	2	3	2	4	3	4	2	4	3	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:38320386C>T	uc010cwt.1	+	7	1733	c.1438C>T	c.(1438-1440)CAG>TAG	p.Q480*	CASC3_uc010cws.1_Nonsense_Mutation_p.Q480*|CASC3_uc002hue.2_Nonsense_Mutation_p.Q480*	NM_007359	NP_031385	O15234	CASC3_HUMAN	metastatic lymph node 51	480	Necessary for localization in cytoplasmic stress granules.				mRNA processing|mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|response to stress|RNA splicing	exon-exon junction complex|nuclear speck|perinuclear region of cytoplasm	identical protein binding|RNA binding|ubiquitin protein ligase binding			ovary(1)	1						GAGTCCGGGGCAGCCTTCTTT	0.498													9	22					0	0	1	0	0		T	38320386	T	T	38320386	4	4	73	1	0	0	0	0	0	1	0	0	2664	711	25	2	1464	2	CASC3	17	38320386	Nonsense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	68344	38320386	42874824	1082	48319											
TNS4	84951	broad.mit.edu	37	chr17	38634836	38634836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagccttgaacttacttccGttgctcagggtccataccac	8	11	7	15	1	1	1	1	1	0	0	3	1	3	1	5	1	5	2	5	1	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:38634836G>A	uc010cxb.2	-	11	2139	c.1975C>T	c.(1975-1977)CGG>TGG	p.R659W	TNS4_uc002huu.3_Missense_Mutation_p.R72W	NM_032865	NP_116254	Q8IZW8	TENS4_HUMAN	tensin 4 precursor	659	Phosphatase tensin-type.				apoptosis|protein localization	cytoplasm|cytoskeleton|focal adhesion	actin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(5;5.91e-05)			ACTTACTTCCGTTGCTCAGGG	0.617													27	34					0	0	1	0	0		A	38634836	A	A	38634836	3	1	73	1	0	0	0	0	1	0	0	0	16370	1144	40	1	184	1	TNS4	17	38634836	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	314450	38634836	42560374	1083	48320											
KRT23	25984	broad.mit.edu	37	chr17	39092635	39092635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgttgagattctgcatggtgGccttcccatttccgcctagt	5	14	10	12	2	1	1	0	1	1	1	3	2	3	1	4	2	1	2	4	2	1	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:39092635G>A	uc002hvm.1	-	2	810	c.221C>T	c.(220-222)GCC>GTC	p.A74V	KRT23_uc010wfl.1_Intron|KRT23_uc010cxf.1_Intron|KRT23_uc010cxg.2_Missense_Mutation_p.A74V|KRT23_uc002hvn.1_Missense_Mutation_p.A74V	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	74	Rod.|Coil 1A.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				CTGCATGGTGGCCTTCCCATT	0.622													26	89					0	0	1	0	0		A	39092635	A	A	39092635	3	1	73	1	0	0	0	0	1	0	0	0	8476	1203	42	2	1079	2	KRT23	17	39092635	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	457799	39092635	42102575	1084	48321											
KRTAP1-5	83895	broad.mit.edu	37	chr17	39183218	39183218	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagctggtctcacagcagcTtggctggcagcaactggagc	8	7	14	12	0	1	0	1	0	1	0	2	1	1	1	0	4	6	7	0	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:39183218T>G	uc002hvu.2	-	1	237	c.190A>C	c.(190-192)AGC>CGC	p.S64R		NM_031957	NP_114163	Q9BYS1	KRA15_HUMAN	keratin associated protein 1.5	64	15 X 5 AA repeats of C-C-[QEPVRC]- [TPIVLE]-[SRHVP].					keratin filament					0		Breast(137;0.00043)	STAD - Stomach adenocarcinoma(17;0.000371)			TCACAGCAGCTTGGCTGGCAG	0.617													20	44					0	0	1	0	0		G	39183218	G	G	39183218	3	3	73	1	0	0	0	0	1	0	0	0	8520	1609	56	5	338	5	KRTAP1-5	17	39183218	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	90583	39183218	42011992	1085	48322											
KRT17	3872	broad.mit.edu	37	chr17	39780474	39780474	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcaccttgtccaggtaggaGgccaggcggtcattgaggtt	7	9	15	10	2	1	1	1	1	0	0	2	2	2	2	3	6	0	3	3	6	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:39780474G>T	uc002hxh.2	-	1	409	c.288C>A	c.(286-288)GCC>GCA	p.A96A	JUP_uc010wfs.1_Intron|KRT17_uc010wft.1_Silent_p.A96A	NM_000422	NP_000413	Q04695	K1C17_HUMAN	keratin 17	96	Coil 1A.|Rod.		Missing (in PC2).	Missing (in Ref. 5; AAH72018).	epidermis development	cytoplasm|intermediate filament	protein binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2		Breast(137;0.000307)				CCAGGTAGGAGGCCAGGCGGT	0.642									Steatocystoma_Multiplex				50	115					7.34454e-26	8.21325e-26	1	1	0		T	39780474	T	T	39780474	2	4	73	1	0	0	0	0	0	0	0	1	8470	987	35	5		5	KRT17	17	39780474	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	597256	39780474	41414736	1086	48323											
SC65	10609	broad.mit.edu	37	chr17	39967232	39967232	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgctccatgtcctccgTgctgctgcggaaatccccgc	4	8	11	18	4	0	0	0	0	0	0	4	1	4	1	6	2	3	3	6	2	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:39967232T>C	uc002hxt.2	-	3	954	c.670A>G	c.(670-672)ACG>GCG	p.T224A	FKBP10_uc002hxv.2_5'Flank|SC65_uc002hxu.2_Missense_Mutation_p.T315A	NM_006455	NP_006446	Q92791	SC65_HUMAN	synaptonemal complex protein SC65	224					synaptonemal complex assembly	nucleolus|synaptonemal complex	binding				0		Breast(137;0.000162)		BRCA - Breast invasive adenocarcinoma(366;0.149)		ATGTCCTCCGTGCTGCTGCGG	0.647													15	28					0	0	1	0	0		C	39967232	C	C	39967232	3	2	73	1	0	0	0	0	1	0	0	0	13892	1696	59	3	667	3	SC65	17	39967232	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	186758	39967232	41227978	1087	48324											
ACLY	47	broad.mit.edu	37	chr17	40039404	40039404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatggtggcacacgtccCgatgcaccagcagacgatgg	11	5	13	12	3	0	1	0	0	0	1	1	4	1	1	2	3	3	3	2	3	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:40039404C>T	uc002hyg.2	-	20	2399	c.2236G>A	c.(2236-2238)GGG>AGG	p.G746R	ACLY_uc002hyh.2_Missense_Mutation_p.G736R|ACLY_uc002hyi.2_Missense_Mutation_p.G800R|ACLY_uc010wfx.1_Missense_Mutation_p.G790R|ACLY_uc010wfy.1_Missense_Mutation_p.G475R	NM_001096	NP_001087	P53396	ACLY_HUMAN	ATP citrate lyase isoform 1	746					ATP catabolic process|cellular carbohydrate metabolic process|citrate metabolic process|coenzyme A metabolic process|energy reserve metabolic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	citrate lyase complex|cytosol|nucleus	ATP binding|ATP citrate synthase activity|citrate (pro-3S)-lyase activity|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			ovary(2)|central_nervous_system(1)	3		Breast(137;0.000143)				GCACACGTCCCGATGCACCAG	0.577													21	52					0	0	1	0	0		T	40039404	T	T	40039404	3	4	73	1	0	0	0	0	1	0	0	0	143	652	23	1	1109	1	ACLY	17	40039404	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	72172	40039404	41155806	1088	48325											
EZH1	2145	broad.mit.edu	37	chr17	40879701	40879701	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcttcattgactgaacaggTtggacacgaagcttcttcca	10	11	10	10	1	2	2	1	2	1	0	3	4	3	3	1	3	2	3	1	3	2	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:40879701T>C	uc002iaz.2	-	4	343	c.198A>G	c.(196-198)CAA>CAG	p.Q66Q	EZH1_uc002iba.2_Silent_p.Q66Q|EZH1_uc010wgt.1_5'UTR|EZH1_uc010wgu.1_Silent_p.Q72Q|EZH1_uc010wgv.1_Silent_p.Q66Q|EZH1_uc010wgw.1_Missense_Mutation_p.T8A|EZH1_uc010cyp.2_Missense_Mutation_p.T8A|EZH1_uc010cyq.2_Intron|EZH1_uc010cys.2_Silent_p.Q66Q	NM_001991	NP_001982	Q92800	EZH1_HUMAN	enhancer of zeste homolog 1	66					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	chromatin binding|DNA binding			ovary(3)	3		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0784)		ACTGAACAGGTTGGACACGAA	0.428													22	55					0	0	1	0	0		C	40879701	C	C	40879701	2	2	73	1	0	0	0	0	0	0	0	1	5341	1722	60	3		3	EZH1	17	40879701	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	840297	40879701	40315509	1089	48326											
VAT1	10493	broad.mit.edu	37	chr17	41168515	41168515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaactgattccaccatgtccGggccagggccatcaggttcc	8	8	11	14	1	1	1	1	1	0	0	4	2	4	1	6	3	1	1	6	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:41168515G>A	uc002icm.1	-	5	1027	c.907C>T	c.(907-909)CGG>TGG	p.R303W	VAT1_uc010cyw.1_Missense_Mutation_p.R169W|VAT1_uc010whk.1_Missense_Mutation_p.R235W	NM_006373	NP_006364	Q99536	VAT1_HUMAN	vesicle amine transport protein 1	303						cytoplasm|integral to membrane	oxidoreductase activity|zinc ion binding				0		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.156)		CACCATGTCCGGGCCAGGGCC	0.617													12	29					0	0	1	0	0		A	41168515	A	A	41168515	3	1	73	1	0	0	0	0	1	0	0	0	17155	1115	39	1	282	1	VAT1	17	41168515	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	288814	41168515	40026695	1090	48327											
MAP3K14	9020	broad.mit.edu	37	chr17	43348437	43348437	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccgaccttgaggcagagCggccctcggaagaactgagt	10	6	13	12	3	1	4	1	2	0	2	2	6	1	5	3	3	2	1	3	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:43348437C>T	uc002iiw.1	-	11	1918	c.1809G>A	c.(1807-1809)CCG>CCA	p.P603P	MAP3K14_uc002iiu.1_Silent_p.P133P|MAP3K14_uc010daj.1_RNA|MAP3K14_uc002iiv.1_Silent_p.P187P	NM_003954	NP_003945	Q99558	M3K14_HUMAN	mitogen-activated protein kinase kinase kinase	603	Interaction with ZFP91.|Protein kinase.				cellular response to mechanical stimulus|I-kappaB kinase/NF-kappaB cascade|immune response|positive regulation of I-kappaB kinase/NF-kappaB cascade|T cell costimulation	cytosol	ATP binding|MAP kinase kinase kinase activity|NF-kappaB-inducing kinase activity|protein binding			central_nervous_system(3)|breast(2)|lung(1)|ovary(1)|stomach(1)	8						TGAGGCAGAGCGGCCCTCGGA	0.672											OREG0024479	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	15					0	0	1	0	0		T	43348437	T	T	43348437	2	4	73	1	0	0	0	0	0	0	0	1	9266	755	27	1		1	MAP3K14	17	43348437	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2179922	43348437	37846773	1091	48328											
ARHGAP27	201176	broad.mit.edu	37	chr17	43474075	43474075	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcgactgcagtgtgggcCgcctctggaggaacttgcgg	6	7	17	11	3	1	0	0	0	1	0	1	3	1	2	2	4	4	2	2	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:43474075C>A	uc002iix.2	-	12	1459	c.1010G>T	c.(1009-1011)CGG>CTG	p.R337L	ARHGAP27_uc010dak.2_Missense_Mutation_p.R310L	NM_199282	NP_954976	Q6ZUM4	RHG27_HUMAN	Rho GTPase activating protein 27 isoform a	678					positive regulation of Cdc42 GTPase activity|receptor-mediated endocytosis|signal transduction	cytoplasm|membrane	Rac GTPase activator activity|SH3 domain binding				0	Renal(3;0.0405)					CAGTGTGGGCCGCCTCTGGAG	0.731													16	23					1.02788e-11	1.10369e-11	1	1	0		A	43474075	A	A	43474075	3	1	73	1	0	0	0	0	1	0	0	0	876	652	23	5	660	5	ARHGAP27	17	43474075	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	125638	43474075	37721135	1092	48329											
IMP5	162540	broad.mit.edu	37	chr17	43922517	43922517	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccaccaggcccagctccGctcccccagccagcggcccc	5	2	8	26	2	0	0	0	0	0	0	2	0	2	0	10	2	3	2	10	2	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:43922517G>A	uc010wka.1	+	1	245	c.245G>A	c.(244-246)CGC>CAC	p.R82H	LOC100128977_uc010wjz.1_Intron	NM_175882	NP_787078	Q8IUH8	IMP5_HUMAN	intramembrane protease 5 precursor	82	Extracellular (Potential).					integral to membrane	aspartic-type endopeptidase activity			pancreas(2)	2	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.148)		GCCCAGCTCCGCTCCCCCAGC	0.692													18	23					0	0	1	0	0		A	43922517	A	A	43922517	3	1	73	1	0	0	0	0	1	0	0	0	7737	1087	38	1	247	1	IMP5	17	43922517	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	448442	43922517	37272693	1093	48330											
HOXB3	3213	broad.mit.edu	37	chr17	46628218	46628218	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggctgccggctggagatggGccccccgacgacgaggccaa	7	3	17	14	4	0	1	0	0	0	1	0	5	0	1	5	5	1	2	5	5	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:46628218G>C	uc002inn.2	-	2	1174	c.774C>G	c.(772-774)GGC>GGG	p.G258G	HOXB3_uc010wlm.1_Silent_p.G185G|HOXB3_uc010dbf.2_Silent_p.G258G|HOXB3_uc010dbg.2_Silent_p.G258G|HOXB3_uc002ino.2_Silent_p.G258G|HOXB3_uc010wlk.1_Silent_p.G126G|HOXB3_uc010wll.1_Silent_p.G185G	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	258					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CTGGAGATGGGCCCCCCGACG	0.637											OREG0024516	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	97					0	0	1	0	0		C	46628218	C	C	46628218	2	2	73	1	0	0	0	0	0	0	0	1	7318	1190	42	5		5	HOXB3	17	46628218	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2705701	46628218	34566992	1094	48331											
HOXB4	3214	broad.mit.edu	37	chr17	46655263	46655263	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcatccaggggtagacgAcgggctctttgcacgcggag	7	7	16	11	5	1	1	0	0	1	1	2	3	2	2	1	4	2	4	1	4	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:46655263A>G	uc002inp.2	-	1	481	c.419T>C	c.(418-420)GTC>GCC	p.V140A	HOXB3_uc010wlm.1_Intron|HOXB3_uc010dbf.2_Intron|HOXB3_uc010dbg.2_Intron|HOXB3_uc010wlk.1_5'Flank|HOXB3_uc010wll.1_Intron	NM_024015	NP_076920	P17483	HXB4_HUMAN	homeobox B4	140						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGGGTAGACGACGGGCTCTTT	0.697													8	20					0	0	1	0	0		G	46655263	G	G	46655263	3	3	73	1	0	0	0	0	1	0	0	0	7319	275	10	3	344	3	HOXB4	17	46655263	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	27045	46655263	34539947	1095	48332											
IGF2BP1	10642	broad.mit.edu	37	chr17	47126785	47126785	+	Frame_Shift_Del	DEL	G	-	-																															cagaagggacagagtaaccaGgcccaggcacggaggaagtg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:47126785delG	uc002iom.2	+	15	2047	c.1713delG	c.(1711-1713)CAGfs	p.Q571fs	IGF2BP1_uc010dbj.2_Frame_Shift_Del_p.Q432fs	NM_006546	NP_006537	Q9NZI8	IF2B1_HUMAN	insulin-like growth factor 2 mRNA binding	571					CRD-mediated mRNA stabilization|negative regulation of translation|regulation of mRNA stability involved in response to stress	CRD-mediated mRNA stability complex|cytosol|dendritic spine|lamellipodium|nucleus|plasma membrane|stress granule	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			kidney(1)	1						AGAGTAACCAGGCCCAGGCAC	0.592													10	16	---	---	---	---						.	-	47126785	-	-	47126785	7	5	73	1	0	1	0	1	0	0	0	0	7589	991	35	0	1771	0	IGF2BP1	17	47126785	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	471522	47126785	34068425	1096	48333											
COL1A1	1277	broad.mit.edu	37	chr17	48263173	48263173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgacgctgtaggtgaagCggctgttgccctcggcgcgg	5	8	17	11	5	0	2	0	2	0	0	1	2	0	2	1	4	2	4	1	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:48263173C>T	uc002iqm.2	-	50	4340	c.4214G>A	c.(4213-4215)CGC>CAC	p.R1405H		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	1405	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	GTAGGTGAAGCGGCTGTTGCC	0.632			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						11	32					0	0	1	0	0		T	48263173	T	T	48263173	3	4	73	1	0	0	0	0	1	0	0	0	3680	768	27	1	188	1	COL1A1	17	48263173	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1136388	48263173	32932037	1097	48334											
ACSF2	80221	broad.mit.edu	37	chr17	48551137	48551138	+	Frame_Shift_Ins	INS	-	CA	CA																															cagagctcgaggacttctttINScacacacacccgaaggtgca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:48551137_48551138insCA	uc002iqu.2	+	13	1691_1692	c.1587_1588insCA	c.(1585-1590)TTTCACfs	p.F529fs	ACSF2_uc010wml.1_Frame_Shift_Ins_p.F486fs|ACSF2_uc010wmm.1_Frame_Shift_Ins_p.F554fs|ACSF2_uc010wmn.1_Frame_Shift_Ins_p.F516fs|ACSF2_uc010wmo.1_Frame_Shift_Ins_p.F369fs|ACSF2_uc010dbt.1_Frame_Shift_Ins_p.F33fs	NM_025149	NP_079425	Q96CM8	ACSF2_HUMAN	acyl-CoA synthetase family member 2 precursor	529_530					fatty acid metabolic process	mitochondrion	ATP binding|ligase activity				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			AGGACTTCTTTCACACACACCC	0.525													48	91	---	---	---	---						.	CA	48551138	CA	CA	48551137	7	5	73	1	0	1	1	0	0	0	0	0	175	1780	62	0	1637	0	ACSF2	17	48551137	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	287964	48551137	32644073	1098	48335											
DGKE	8526	broad.mit.edu	37	chr17	54925289	54925289	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttgtttctaggtttttGatgtaactaaaactcctcct	8	20	5	8	0	2	1	0	1	2	0	4	1	4	1	2	1	2	3	2	1	4	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:54925289G>T	uc002iur.2	+	5	931	c.751G>T	c.(751-753)GAT>TAT	p.D251Y	DGKE_uc002ius.1_Missense_Mutation_p.D251Y	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	251	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|phospholipid biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding|protein binding			breast(2)	2	Breast(9;3.59e-07)					CTAGGTTTTTGATGTAACTAA	0.363													18	36					1.99824e-07	2.09613e-07	1	1	0		T	54925289	T	T	54925289	3	4	73	1	0	0	0	0	1	0	0	0	4474	1290	45	5	765	5	DGKE	17	54925289	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	6374152	54925289	26269921	1099	48336											
SCPEP1	59342	broad.mit.edu	37	chr17	55075765	55075765	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgtctttgtcagcgccaCgtgagacacctacaacgaga	10	10	10	11	3	2	2	1	1	1	2	2	4	2	2	2	0	3	1	2	0	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:55075765C>T	uc002iuv.3	+	10	953	c.900C>T	c.(898-900)CAC>CAT	p.H300H	SCPEP1_uc010dcl.2_RNA|SCPEP1_uc010wnk.1_Silent_p.H250H	NM_021626	NP_067639	Q9HB40	RISC_HUMAN	serine carboxypeptidase 1 precursor	300					proteolysis	extracellular region	serine-type carboxypeptidase activity			skin(1)	1	Breast(9;2.86e-08)					GTCAGCGCCACGTGAGACACC	0.418													27	43					0	0	1	0	0		T	55075765	T	T	55075765	2	4	73	1	0	0	0	0	0	0	0	1	13960	535	19	1		1	SCPEP1	17	55075765	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	150476	55075765	26119445	1100	48337											
MKS1	54903	broad.mit.edu	37	chr17	56285882	56285882	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattctccataccattgccaGggacttggtggtgcaggtct	7	12	11	11	0	2	0	0	0	2	0	3	1	2	1	3	4	3	1	3	4	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:56285882G>A	uc002ivr.1	-	12	1162	c.1087C>T	c.(1087-1089)CTG>TTG	p.L363L	MKS1_uc010wnq.1_Silent_p.L160L|MKS1_uc002ivs.1_Silent_p.L363L	NM_017777	NP_060247	Q9NXB0	MKS1_HUMAN	Meckel syndrome type 1 protein isoform 1	363	B9.				cilium assembly	centrosome|cilium|microtubule basal body	protein binding			ovary(1)	1						ACCATTGCCAGGGACTTGGTG	0.527													9	29					0	0	1	0	0		A	56285882	A	A	56285882	2	1	73	1	0	0	0	0	0	0	0	1	9627	991	35	4		4	MKS1	17	56285882	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1210117	56285882	24909328	1101	48338											
SUPT4H1	6827	broad.mit.edu	37	chr17	56423650	56423650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggatttgtaggccactcctCgacttttcagctcccgcacg	6	12	9	14	3	1	0	1	0	0	0	4	2	3	1	3	2	1	3	3	2	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:56423650C>T	uc002iwe.1	-	5	378	c.311G>A	c.(310-312)CGA>CAA	p.R104Q	uc010dct.1_Intron|uc010dcu.1_Intron|uc002ivz.2_Intron|uc010dcv.1_Intron|uc002iwa.2_RNA|uc002iwb.2_Intron|uc002iwc.2_Intron|SUPT4H1_uc002iwd.1_RNA	NM_003168	NP_003159	P63272	SPT4H_HUMAN	suppressor of Ty 4 homolog 1	104				QGIVRELKSRGVAYKSRDTAIKT -> HAKDSRSNVNKYEP RESSEGHDTCLASLFHSLRHSNSLFAL (in Ref. 3; BAC85230).	chromatin remodeling|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GGCCACTCCTCGACTTTTCAG	0.493													39	71					0	0	1	0	0		T	56423650	T	T	56423650	3	4	73	1	0	0	0	0	1	0	0	0	15423	884	31	1	46	1	SUPT4H1	17	56423650	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	137768	56423650	24771560	1102	48339											
TLK2	11011	broad.mit.edu	37	chr17	60685462	60685462	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatacgattcttaaagctActgaagtgcagttcccgcca	13	10	8	10	2	1	2	0	1	1	1	2	3	2	2	2	0	4	3	2	0	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:60685462A>G	uc010ddp.2	+	22	2366	c.2098A>G	c.(2098-2100)ACT>GCT	p.T700A	TLK2_uc002izx.3_Missense_Mutation_p.T526A|TLK2_uc002izz.3_Missense_Mutation_p.T678A|TLK2_uc002jaa.3_Missense_Mutation_p.T646A|TLK2_uc010wpd.1_Missense_Mutation_p.T646A	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	700	Protein kinase.				cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						TCTTAAAGCTACTGAAGTGCA	0.428													9	41					0	0	1	0	0		G	60685462	G	G	60685462	3	3	73	1	0	0	0	0	1	0	0	0	15969	391	14	3	2110	3	TLK2	17	60685462	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	4261812	60685462	20509748	1103	48340											
MARCH10	162333	broad.mit.edu	37	chr17	60837243	60837243	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgctttccttacagtcAtggtacttttatgtttctgc	5	20	6	10	0	3	0	1	0	2	0	5	0	4	0	1	1	4	3	1	1	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:60837243A>G	uc010ddr.2	-	4	573	c.335T>C	c.(334-336)ATG>ACG	p.M112T	MARCH10_uc002jag.3_Missense_Mutation_p.M112T|MARCH10_uc010dds.2_Missense_Mutation_p.M112T|MARCH10_uc002jah.2_Missense_Mutation_p.M112T	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	112							ligase activity|zinc ion binding				0						CCTTACAGTCATGGTACTTTT	0.413													37	73					0	0	1	0	0		G	60837243	G	G	60837243	3	3	73	1	0	0	0	0	1	0	0	0	9317	217	8	3	2123	3	MARCH10	17	60837243	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	151781	60837243	20357967	1104	48341											
TANC2	26115	broad.mit.edu	37	chr17	61498806	61498806	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatatgagaggtcatgtgaCgagctgtcgccagtgtctcc	8	10	13	10	2	2	2	1	2	1	1	4	4	2	2	2	1	1	2	2	1	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:61498806C>T	uc002jal.3	+	25	5486	c.5463C>T	c.(5461-5463)GAC>GAT	p.D1821D	TANC2_uc010wpe.1_3'UTR|TANC2_uc002jao.3_Silent_p.D932D	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1821							binding			ovary(2)	2						GGTCATGTGACGAGCTGTCGC	0.532													17	31					0	0	1	0	0		T	61498806	T	T	61498806	2	4	73	1	0	0	0	0	0	0	0	1	15570	535	19	1		1	TANC2	17	61498806	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	661563	61498806	19696404	1105	48342											
MAP3K3	4215	broad.mit.edu	37	chr17	61759260	61759260	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaccagcgagcagtgcGtgagtataggggggctggga	10	5	19	7	2	0	2	0	1	0	1	0	5	0	3	1	4	3	3	1	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:61759260G>A	uc002jbg.2	+	7	955	c.636_splice	c.e7+1	p.C212_splice	MAP3K3_uc002jbe.2_Splice_Site_p.C243_splice|MAP3K3_uc002jbf.2_Splice_Site_p.C243_splice|MAP3K3_uc002jbh.2_Splice_Site_p.C243_splice|MAP3K3_uc010wpo.1_Splice_Site_p.C127_splice|MAP3K3_uc010wpp.1_Splice_Site_p.C212_splice	NM_002401	NP_002392	Q99759	M3K3_HUMAN	mitogen-activated protein kinase kinase kinase 3						MAPKKK cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autophosphorylation	cytosol	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			lung(3)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)	6						CGAGCAGTGCGTGAGTATAGG	0.562													27	53					0	0	1	0	0		A	61759260	A	A	61759260	5	1	73	1	0	0	0	0	0	0	1	0	9269	1159	40	1	760	1	MAP3K3	17	61759260	Splice_Site	SNP	G	TCGA-BR-8372-01A-11D-2340-08	260454	61759260	19435950	1106	48343											
LRRC37A3	374819	broad.mit.edu	37	chr17	62893280	62893280	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgagcctccttgactagTagccacaatagttgccacat	10	10	9	12	0	0	2	0	2	0	0	1	2	1	2	4	1	3	3	4	1	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:62893280T>C	uc002jey.2	-	3	627	c.96A>G	c.(94-96)CTA>CTG	p.L32L	LRRC37A3_uc010wqg.1_Intron|LRRC37A3_uc010wqf.1_Intron	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	32						integral to membrane					0						CCTTGACTAGTAGCCACAATA	0.627													16	179					0	0	1	0	0		C	62893280	C	C	62893280	2	2	73	1	0	0	0	0	0	0	0	1	9011	1625	57	3		3	LRRC37A3	17	62893280	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1134020	62893280	18301930	1107	48344											
CACNG4	27092	broad.mit.edu	37	chr17	65014359	65014359	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcccagaggacaatgactAcgaccacgacagctcggagt	12	6	10	13	3	0	2	0	1	0	1	2	6	1	4	2	2	2	1	2	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:65014359A>G	uc002jft.1	+	2	290	c.275A>G	c.(274-276)TAC>TGC	p.Y92C		NM_014405	NP_055220	Q9UBN1	CCG4_HUMAN	voltage-dependent calcium channel gamma-4	92	Extracellular (Potential).				membrane depolarization|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane	voltage-gated calcium channel activity			central_nervous_system(1)	1	all_cancers(12;9.86e-11)		BRCA - Breast invasive adenocarcinoma(6;1.35e-07)			GACAATGACTACGACCACGAC	0.557													10	33					0	0	1	0	0		G	65014359	G	G	65014359	3	3	73	1	0	0	0	0	1	0	0	0	2562	391	14	3	281	3	CACNG4	17	65014359	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2121079	65014359	16180851	1108	48345											
ABCA9	10350	broad.mit.edu	37	chr17	66981227	66981227	+	Silent	SNP	G	C	C																															ccctctgacaaggtcttcacGggagccttcagctggtcctg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:66981227G>C	uc002jhu.2	-	33	4394	c.4251C>G	c.(4249-4251)CCC>CCG	p.P1417P	ABCA9_uc010dez.2_Silent_p.P1379P	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1417	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					AGGTCTTCACGGGAGCCTTCA	0.532													12	51					0	0	1	0	0		C	66981227	C	C	66981227	2	2	73	1	0	0	0	0	0	0	0	1	39	1103	39	5		5	ABCA9	17	66981227	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1966868	66981227	14213983	1109	48346	92	2									
ABCA9	10350	broad.mit.edu	37	chr17	66981232	66981232	+	Missense_Mutation	SNP	C	A	A																															tgacaaggtcttcacgggagCcttcagctggtcctgcagct																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:66981232C>A	uc002jhu.2	-	33	4389	c.4246G>T	c.(4246-4248)GCT>TCT	p.A1416S	ABCA9_uc010dez.2_Missense_Mutation_p.A1378S	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1416	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					TTCACGGGAGCCTTCAGCTGG	0.527													12	49					4.7546e-09	5.03469e-09	1	1	0		A	66981232	A	A	66981232	3	1	73	1	0	0	0	0	1	0	0	0	39	739	26	5	656	5	ABCA9	17	66981232	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	5	66981232	14213978	1110	48347	92	2									
GRIN2C	2905	broad.mit.edu	37	chr17	72851126	72851126	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcggccctgagctgctaaAcaccacagccaccgtcatgc	9	5	11	16	2	1	1	1	1	0	0	1	1	1	1	4	2	5	2	4	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:72851126A>T	uc002jlt.1	-	2	262	c.106T>A	c.(106-108)TTT>ATT	p.F36I	GRIN2C_uc010wrh.1_RNA|GRIN2C_uc002jlu.1_Missense_Mutation_p.F36I|GRIN2C_uc002jlv.1_Missense_Mutation_p.F36I	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	36	Extracellular (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	GAGCTGCTAAACACCACAGCC	0.706													6	23					0	0	1	0	0		T	72851126	T	T	72851126	3	4	73	1	0	0	0	0	1	0	0	0	6797	43	2	5	3643	5	GRIN2C	17	72851126	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	5869894	72851126	8344084	1111	48348											
USH1G	124590	broad.mit.edu	37	chr17	72916353	72916353	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtggctgcccagcgccAgatgctgcagccggcggctc	5	5	16	15	3	0	1	0	0	0	1	1	1	0	1	3	4	5	5	3	4	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:72916353A>C	uc002jme.1	-	2	761	c.578T>G	c.(577-579)CTG>CGG	p.L193R	USH1G_uc010wro.1_Missense_Mutation_p.L90R	NM_173477	NP_775748	Q495M9	USH1G_HUMAN	Usher syndrome 1G protein	193					equilibrioception|photoreceptor cell maintenance|sensory perception of sound	actin cytoskeleton				skin(2)	2	all_lung(278;0.172)|Lung NSC(278;0.207)					GCCCAGCGCCAGATGCTGCAG	0.692													16	28					0	0	1	0	0		C	72916353	C	C	72916353	3	2	73	1	0	0	0	0	1	0	0	0	17061	188	7	5	815	5	USH1G	17	72916353	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	65227	72916353	8278857	1112	48349											
ICT1	3396	broad.mit.edu	37	chr17	73008915	73008915	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaagagcatctacagccTggacaagctctaccccgaat	12	8	8	13	1	3	1	1	0	2	1	3	3	3	2	3	1	5	3	3	1	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:73008915T>C	uc002jmm.2	+	1	136	c.134T>C	c.(133-135)CTG>CCG	p.L45P		NM_001545	NP_001536	Q14197	ICT1_HUMAN	immature colon carcinoma transcript 1 precursor	45					mitochondrial translational termination	mitochondrial large ribosomal subunit	aminoacyl-tRNA hydrolase activity|translation release factor activity, codon nonspecific			ovary(1)|central_nervous_system(1)	2	all_lung(278;0.226)					ATCTACAGCCTGGACAAGCTC	0.662											OREG0024724	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	19					0	0	1	0	0		C	73008915	C	C	73008915	3	2	73	1	0	0	0	0	1	0	0	0	7504	1580	55	3	136	3	ICT1	17	73008915	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	92562	73008915	8186295	1113	48350											
KCTD2	23510	broad.mit.edu	37	chr17	73043606	73043606	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctacttcgtgaccaccagAcagaccttaggccgggagcc	10	6	10	15	2	0	3	0	1	0	2	1	4	0	4	6	2	2	0	6	2	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:73043606A>C	uc002jmp.2	+	1	328	c.261A>C	c.(259-261)AGA>AGC	p.R87S	KCTD2_uc010dfy.1_Intron|KCTD2_uc010dfz.2_Intron|ATP5H_uc002jmn.1_5'Flank|ATP5H_uc002jmo.1_5'Flank|KCTD2_uc002jmq.2_RNA	NM_015353	NP_056168	Q14681	KCTD2_HUMAN	potassium channel tetramerisation domain	87	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0	all_lung(278;0.226)					TGACCACCAGACAGACCTTAG	0.388													4	16					0	0	1	0	0		C	73043606	C	C	73043606	3	2	73	1	0	0	0	0	1	0	0	0	8123	272	10	5	263	5	KCTD2	17	73043606	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	34691	73043606	8151604	1114	48351											
KIAA0195	9772	broad.mit.edu	37	chr17	73485723	73485723	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgggggtcacttcctggcagTacaccctcctccagctccag	6	8	10	17	1	1	0	1	0	0	0	5	0	5	0	5	3	2	3	5	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:73485723T>C	uc002jnz.3	+	9	1209	c.934T>C	c.(934-936)TAC>CAC	p.Y312H	KIAA0195_uc010wsa.1_Missense_Mutation_p.Y322H|KIAA0195_uc010wsb.1_5'Flank	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	312					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			TTCCTGGCAGTACACCCTCCT	0.632													19	43					0	0	1	0	0		C	73485723	C	C	73485723	3	2	73	1	0	0	0	0	1	0	0	0	8176	1638	57	3	964	3	KIAA0195	17	73485723	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	442117	73485723	7709487	1115	48352											
CASKIN2	57513	broad.mit.edu	37	chr17	73504338	73504338	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagcatcctggtagttcacGttgagcctctttgtggagcc	6	13	11	11	1	3	1	2	1	1	0	4	2	4	2	3	2	3	4	3	2	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:73504338G>A	uc002joc.2	-	3	673	c.123C>T	c.(121-123)AAC>AAT	p.N41N	CASKIN2_uc010wsc.1_Translation_Start_Site|CASKIN2_uc002jod.2_Silent_p.N41N	NM_020753	NP_065804	Q8WXE0	CSKI2_HUMAN	cask-interacting protein 2 isoform a	41						cytoplasm				pancreas(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGTAGTTCACGTTGAGCCTCT	0.627													4	19					0	0	1	0	0		A	73504338	A	A	73504338	2	1	73	1	0	0	0	0	0	0	0	1	2670	1136	40	1		1	CASKIN2	17	73504338	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	18615	73504338	7690872	1116	48353											
ITGB4	3691	broad.mit.edu	37	chr17	73750744	73750744	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgaccagtgctgctgcctAtggcacccacctgagcccac	8	6	9	18	1	0	1	0	1	0	0	0	2	0	1	5	1	4	3	5	1	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:73750744A>T	uc002jpg.2	+	34	4593	c.4406A>T	c.(4405-4407)TAT>TTT	p.Y1469F	ITGB4_uc002jph.2_Missense_Mutation_p.Y1399F|ITGB4_uc002jpi.3_Missense_Mutation_p.Y1399F|ITGB4_uc002jpj.2_Missense_Mutation_p.Y1399F|GALK1_uc010wsi.1_Intron	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1469	Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCTGCTGCCTATGGCACCCAC	0.622													4	49					0	0	1	0	0		T	73750744	T	T	73750744	3	4	73	1	0	0	0	0	1	0	0	0	7913	449	16	5	4536	5	ITGB4	17	73750744	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	246406	73750744	7444466	1117	48354											
UNC13D	201294	broad.mit.edu	37	chr17	73836398	73836398	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggtaccactggtcctctcGgcagcgcaggtcctgacagg	6	7	15	13	2	1	1	0	1	1	0	4	1	3	1	3	6	2	3	3	6	1	1	rs121434352		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:73836398G>T	uc002jpp.2	-	10	1146	c.766C>A	c.(766-768)CGA>AGA	p.R256R	UNC13D_uc010wsk.1_Silent_p.R256R|UNC13D_uc002jpq.1_5'UTR|UNC13D_uc010dgq.1_Silent_p.R53R	NM_199242	NP_954712	Q70J99	UN13D_HUMAN	unc-13 homolog D	256	Interaction with RAB27A.				positive regulation of exocytosis|regulation of mast cell degranulation	exocytic vesicle|late endosome|lysosome|membrane|recycling endosome	protein binding			upper_aerodigestive_tract(1)|skin(1)	2			all cancers(21;2.11e-06)|Epithelial(20;2.32e-06)|BRCA - Breast invasive adenocarcinoma(9;0.000618)|LUSC - Lung squamous cell carcinoma(166;0.154)			TGGTCCTCTCGGCAGCGCAGG	0.657									Familial_Hemophagocytic_Lymphohistiocytosis				17	26					3.41278e-10	3.6403e-10	1	1	0		T	73836398	T	T	73836398	2	4	73	1	0	0	0	0	0	0	0	1	17013	1124	39	5		5	UNC13D	17	73836398	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	85654	73836398	7358812	1118	48355											
ACOX1	51	broad.mit.edu	37	chr17	73945329	73945329	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccccgcgttctgactgattCcatacagagaatacagcaga	12	8	8	13	2	1	4	0	2	1	2	2	5	2	4	3	0	3	2	3	0	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:73945329C>A	uc002jqf.2	-	12	1987	c.1697G>T	c.(1696-1698)GGA>GTA	p.G566V	ACOX1_uc010wsq.1_Missense_Mutation_p.G528V|ACOX1_uc002jqe.2_Missense_Mutation_p.G566V|ACOX1_uc010wsr.1_Missense_Mutation_p.G498V	NM_007292	NP_009223	Q15067	ACOX1_HUMAN	acyl-Coenzyme A oxidase 1 isoform b	566					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1						CTGACTGATTCCATACAGAGA	0.318													7	107					0.0293803	0.0295427	1	1	0		A	73945329	A	A	73945329	3	1	73	1	0	0	0	0	1	0	0	0	158	855	30	5	297	5	ACOX1	17	73945329	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	108931	73945329	7249881	1119	48356											
UBE2O	63893	broad.mit.edu	37	chr17	74387141	74387141	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgggaagagggggaagccGatgtcagggtagccactctt	10	7	17	7	1	2	1	1	0	1	1	2	4	2	3	2	4	2	1	2	4	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:74387141G>A	uc002jrm.3	-	18	3827	c.3762C>T	c.(3760-3762)ATC>ATT	p.I1254I	UBE2O_uc002jrl.3_Silent_p.I858I	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	1254							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						GGGGGAAGCCGATGTCAGGGT	0.587													59	101					0	0	1	0	0		A	74387141	A	A	74387141	2	1	73	1	0	0	0	0	0	0	0	1	16894	1048	37	1		1	UBE2O	17	74387141	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	441812	74387141	6808069	1120	48357											
ST6GALNAC1	55808	broad.mit.edu	37	chr17	74622396	74622396	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaaaaggttttttgacaTcaccgtctgattcataagca	13	12	7	9	1	3	3	2	2	1	1	3	3	3	3	2	1	1	2	2	1	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:74622396T>G	uc002jsh.2	-	6	1564	c.1390A>C	c.(1390-1392)ATG>CTG	p.M464L	ST6GALNAC1_uc002jsi.2_Missense_Mutation_p.M332L|ST6GALNAC1_uc002jsj.2_Intron	NM_018414	NP_060884	Q9NSC7	SIA7A_HUMAN	sialyltransferase 7A	464	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity				0						TTTTTTGACATCACCGTCTGA	0.542													15	39					0	0	1	0	0		G	74622396	G	G	74622396	3	3	73	1	0	0	0	0	1	0	0	0	15248	1435	50	5	428	5	ST6GALNAC1	17	74622396	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	235255	74622396	6572814	1121	48358											
ENGASE	64772	broad.mit.edu	37	chr17	77080692	77080692	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tataagcttgaggggcccacGgacgtcacagttgctttgga	9	10	13	9	2	1	1	1	1	0	0	1	3	1	3	1	4	2	3	1	4	2	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:77080692G>A	uc002jwv.2	+	11	1523	c.1515G>A	c.(1513-1515)ACG>ACA	p.T505T	ENGASE_uc002jww.2_Silent_p.T211T	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	505						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						AGGGGCCCACGGACGTCACAG	0.582													53	96					0	0	1	0	0		A	77080692	A	A	77080692	2	1	73	1	0	0	0	0	0	0	0	1	5126	1103	39	1		1	ENGASE	17	77080692	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2458296	77080692	4114518	1122	48359											
CCDC40	55036	broad.mit.edu	37	chr17	78013751	78013751	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggggaagcagcagtggaAggggaagaggaggctgtgtc	12	4	21	4	0	0	1	0	0	0	1	1	6	0	5	0	7	2	3	0	7	4	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:78013751A>G	uc010dht.2	+	3	261	c.234A>G	c.(232-234)GAA>GAG	p.E78E	CCDC40_uc010wub.1_Silent_p.E78E	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	78					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			cagcagtggaaggggaagagg	0.353													19	28					0	0	1	0	0		G	78013751	G	G	78013751	2	3	73	1	0	0	0	0	0	0	0	1	2815	69	3	3		3	CCDC40	17	78013751	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	933059	78013751	3181459	1123	48360											
RNF213	57674	broad.mit.edu	37	chr17	78319491	78319491	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaagctggtcaaggtgcaCggaggaacaactgcagacat	15	6	12	8	1	1	1	1	0	0	1	1	3	1	3	0	4	5	3	0	4	5	1	rs138032722	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:78319491C>T	uc002jyh.1	+	4	1798	c.1575C>T	c.(1573-1575)CAC>CAT	p.H525H		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TCAAGGTGCACGGAGGAACAA	0.498													51	75					0	0	1	0	0		T	78319491	T	T	78319491	2	4	73	1	0	0	0	0	0	0	0	1	13502	535	19	1		1	RNF213	17	78319491	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	305740	78319491	2875719	1124	48361											
SIRT7	51547	broad.mit.edu	37	chr17	79870360	79870360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagccccctaggatgggggCcgagctaagcggtgcacccc	7	4	14	16	2	0	0	0	0	0	0	0	2	0	1	6	4	4	2	6	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:79870360C>T	uc002kcj.1	-	10	1168	c.1135G>A	c.(1135-1137)GCC>ACC	p.A379T	PCYT2_uc010wva.1_5'Flank|PCYT2_uc010wvb.1_5'Flank|PCYT2_uc002kce.1_5'Flank|PCYT2_uc002kcf.1_5'Flank|PCYT2_uc002kcg.1_5'Flank|PCYT2_uc002kch.1_5'Flank|PCYT2_uc002kci.1_5'Flank|PCYT2_uc010dii.1_5'Flank|PCYT2_uc010wvc.1_5'Flank|SIRT7_uc002kck.1_Missense_Mutation_p.A230T|SIRT7_uc002kcl.1_Missense_Mutation_p.A297T	NM_016538	NP_057622	Q9NRC8	SIRT7_HUMAN	sirtuin 7	379					chromatin silencing|positive regulation of transcription on exit from mitosis|protein deacetylation|rRNA transcription	cytoplasm|nucleolus organizer region	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ binding|protein binding|zinc ion binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0165)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			AGGATGGGGGCCGAGCTAAGC	0.597													48	90					0	0	1	0	0		T	79870360	T	T	79870360	3	4	73	1	0	0	0	0	1	0	0	0	14368	739	26	2	71	2	SIRT7	17	79870360	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1550869	79870360	1324850	1125	48362											
GPS1	2873	broad.mit.edu	37	chr17	80014641	80014641	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtgtggactcacacagcaAggtggctgtgggctgcgggg	6	7	18	10	2	1	0	1	0	0	0	1	1	1	1	1	6	2	3	1	6	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:80014641A>G	uc002kdl.1	+	11	1310	c.1265A>G	c.(1264-1266)AAG>AGG	p.K422R	GPS1_uc002kdk.1_Missense_Mutation_p.K458R|GPS1_uc010dij.1_Missense_Mutation_p.K457R|GPS1_uc002kdm.1_Missense_Mutation_p.K402R|GPS1_uc002kdn.1_Missense_Mutation_p.K418R|GPS1_uc002kdo.1_Missense_Mutation_p.K421R|GPS1_uc010wvh.1_Missense_Mutation_p.K414R	NM_004127	NP_004118	Q13098	CSN1_HUMAN	G protein pathway suppressor 1 isoform 2	422	PCI.				cell cycle|cullin deneddylation|inactivation of MAPK activity|JNK cascade	cytoplasm|signalosome	GTPase inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			TCACACAGCAAGGTGGCTGTG	0.667													4	12					0	0	1	0	0		G	80014641	G	G	80014641	3	3	73	1	0	0	0	0	1	0	0	0	6748	86	3	3	1464	3	GPS1	17	80014641	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	144281	80014641	1180569	1126	48363											
FASN	2194	broad.mit.edu	37	chr17	80049317	80049317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggggtgcgtccgctggcccGcagcagacggggcagggtgg	5	4	21	11	4	0	1	0	0	0	1	1	1	1	1	2	7	2	4	2	7	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:80049317G>A	uc002kdu.2	-	9	1390	c.1273C>T	c.(1273-1275)CGG>TGG	p.R425W	FASN_uc002kdw.1_5'Flank	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	425					energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	CCGCTGGCCCGCAGCAGACGG	0.692													4	5					0	0	1	0	0		A	80049317	A	A	80049317	3	1	73	1	0	0	0	0	1	0	0	0	5697	1086	38	1	6402	1	FASN	17	80049317	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	34676	80049317	1145893	1127	48364											
HEXDC	284004	broad.mit.edu	37	chr17	80400208	80400208	+	Frame_Shift_Del	DEL	C	-	-																															ggacctcagcgaggtgtctgCccccccgctgccacccacca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr17:80400208delC	uc002kew.2	+	12	1460	c.1409delC	c.(1408-1410)GCCfs	p.A470fs	HEXDC_uc002kev.3_Frame_Shift_Del_p.P500fs|HEXDC_uc010diq.2_Frame_Shift_Del_p.C472fs|HEXDC_uc010wvm.1_RNA			Q8WVB3	HEXDC_HUMAN	SubName: Full=Hexosaminidase (Glycosyl hydrolase family 20, catalytic domain) containing, isoform CRA_c; SubName: Full=Hexosaminidase D;	470					carbohydrate metabolic process	cytoplasm|nucleus	beta-N-acetylhexosaminidase activity|cation binding			ovary(1)|skin(1)	2	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			GAGGTGTCTGCCCCCCCGCTG	0.687													20	37	---	---	---	---						.	-	80400208	-	-	80400208	7	5	73	1	0	1	0	1	0	0	0	0	7091	739	26	0	1540	0	HEXDC	17	80400208	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	350891	80400208	795002	1128	48365											
MYOM1	8736	broad.mit.edu	37	chr18	3084001	3084001	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcacctatttttttgcatActtccatcatcagttcctta	9	18	2	12	0	3	0	3	0	0	0	5	0	5	0	3	0	2	2	3	0	3	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:3084001A>G	uc002klp.2	-	32	4698	c.4364T>C	c.(4363-4365)GTA>GCA	p.V1455A	MYOM1_uc002klq.2_Missense_Mutation_p.V1359A	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	1455						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						TTTTTTGCATACTTCCATCAT	0.378													5	6					0	0	1	0	0		G	3084001	G	G	3084001	3	3	73	1	0	0	0	0	1	0	0	0	10109	391	14	3	721	3	MYOM1	18	3084001	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08		3084001	74993247	1129	48366											
MYL12A	10627	broad.mit.edu	37	chr18	3253948	3253948	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggctccaggccccatcaaTttcaccatgttcctcaccat	9	10	6	16	0	3	0	3	0	0	0	5	1	5	0	6	2	0	2	6	2	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:3253948T>C	uc002klr.2	+	3	638	c.243T>C	c.(241-243)AAT>AAC	p.N81N	MYL12A_uc002kls.2_Silent_p.N87N	NM_006471	NP_006462	P19105	ML12A_HUMAN	myosin, light chain 12A, regulatory,	81						myosin complex	calcium ion binding|protein binding				0						GCCCCATCAATTTCACCATGT	0.393													41	58					0	0	1	0	0		C	3253948	C	C	3253948	2	2	73	1	0	0	0	0	0	0	0	1	10063	1490	52	3		3	MYL12A	18	3253948	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	169947	3253948	74823300	1130	48367											
ARHGAP28	79822	broad.mit.edu	37	chr18	6887167	6887167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgttaggagggcctcacGtcaaagtacagtttcaagcc	10	11	10	10	1	4	0	3	0	1	0	4	1	4	1	2	2	2	3	2	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:6887167G>A	uc010wzi.1	+	11	1172	c.934G>A	c.(934-936)GTC>ATC	p.V312I	ARHGAP28_uc002knc.2_Missense_Mutation_p.V437I|ARHGAP28_uc002knd.2_Missense_Mutation_p.V330I|ARHGAP28_uc002kne.2_Missense_Mutation_p.V330I|ARHGAP28_uc002knf.2_Missense_Mutation_p.V321I			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	312					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				AGGGCCTCACGTCAAAGTACA	0.493													10	26					0	0	1	0	0		A	6887167	A	A	6887167	3	1	73	1	0	0	0	0	1	0	0	0	877	1145	40	1	1026	1	ARHGAP28	18	6887167	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3633219	6887167	71190081	1131	48368											
LAMA1	284217	broad.mit.edu	37	chr18	6958590	6958590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagattggacacatttatcGtcctgctttctactaatgtg	10	15	7	9	1	1	1	0	0	1	1	3	2	2	2	1	1	2	1	1	1	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:6958590G>A	uc002knm.2	-	55	7944	c.7850C>T	c.(7849-7851)ACG>ATG	p.T2617M	LAMA1_uc002knk.2_5'Flank|LAMA1_uc002knl.2_Missense_Mutation_p.T70M|LAMA1_uc010wzj.1_Missense_Mutation_p.T2093M	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2617	Laminin G-like 3.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CACATTTATCGTCCTGCTTTC	0.428													15	46					0	0	1	0	0		A	6958590	A	A	6958590	3	1	73	1	0	0	0	0	1	0	0	0	8621	1145	40	1	1413	1	LAMA1	18	6958590	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	71423	6958590	71118658	1132	48369											
LAMA1	284217	broad.mit.edu	37	chr18	7016644	7016644	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgcagggccggcagccatgGcctgagtccagcccataata	9	7	12	13	1	0	1	0	1	0	0	1	1	1	1	5	3	3	2	5	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:7016644G>A	uc002knm.2	-	21	2929	c.2835C>T	c.(2833-2835)GGC>GGT	p.G945G	LAMA1_uc010wzj.1_Silent_p.G421G	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	945	Laminin EGF-like 9.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGCAGCCATGGCCTGAGTCCA	0.527													11	23					0	0	1	0	0		A	7016644	A	A	7016644	2	1	73	1	0	0	0	0	0	0	0	1	8621	1190	42	2		2	LAMA1	18	7016644	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	58054	7016644	71060604	1133	48370											
LAMA1	284217	broad.mit.edu	37	chr18	7032152	7032152	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagagtattccatccacGcggtaatagccagagaggca	14	6	10	11	2	0	2	0	0	0	2	2	3	2	2	4	2	1	3	4	2	4	4	rs139947483		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:7032152G>A	uc002knm.2	-	16	2281	c.2187C>T	c.(2185-2187)CGC>CGT	p.R729R	LAMA1_uc010wzj.1_Silent_p.R205R	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	729	Laminin EGF-like 5; second part.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTCCATCCACGCGGTAATAGC	0.483													9	25					0	0	1	0	0		A	7032152	A	A	7032152	2	1	73	1	0	0	0	0	0	0	0	1	8621	1074	38	1		1	LAMA1	18	7032152	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	15508	7032152	71045096	1134	48371											
DSG1	1828	broad.mit.edu	37	chr18	28914077	28914077	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcagctaactggatggcagTaattttctttatctctggaa	10	15	8	8	0	3	0	1	0	2	0	4	2	3	2	0	3	2	3	0	3	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:28914077T>C	uc002kwp.2	+	8	1129	c.917T>C	c.(916-918)GTA>GCA	p.V306A		NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	306	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			TGGATGGCAGTAATTTTCTTT	0.308													48	87					0	0	1	0	0		C	28914077	C	C	28914077	3	2	73	1	0	0	0	0	1	0	0	0	4782	1638	57	3	947	3	DSG1	18	28914077	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	21881925	28914077	49163171	1135	48372											
FHOD3	80206	broad.mit.edu	37	chr18	34310665	34310665	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttctggattccaagaggagTaacgccatcaatattggtct	11	12	10	8	1	3	1	1	0	2	1	4	3	4	3	2	3	1	2	2	3	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:34310665T>C	uc002kzt.1	+	16	2995	c.2898T>C	c.(2896-2898)AGT>AGC	p.S966S	FHOD3_uc002kzs.1_Silent_p.S983S|FHOD3_uc010dmz.1_Silent_p.S698S|FHOD3_uc010dnb.1_5'UTR	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	966	FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CCAAGAGGAGTAACGCCATCA	0.408													7	82					0	0	1	0	0		C	34310665	C	C	34310665	2	2	73	1	0	0	0	0	0	0	0	1	5897	1635	57	3		3	FHOD3	18	34310665	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	5396588	34310665	43766583	1136	48373											
KIAA1632	57724	broad.mit.edu	37	chr18	43534484	43534484	+	Frame_Shift_Del	DEL	A	-	-																															tcctacatcgtgagtagttcAaaagcaactcataaaattca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:43534484delA	uc002lbm.2	-	2	984	c.884delT	c.(883-885)TTGfs	p.L295fs	KIAA1632_uc002lbo.1_Frame_Shift_Del_p.L295fs	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	295					autophagy						0						TGAGTAGTTCAAAAGCAACTC	0.433													48	90	---	---	---	---						.	-	43534484	-	-	43534484	7	5	73	1	0	1	0	1	0	0	0	0	8265	131	5	0	7027	0	KIAA1632	18	43534484	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	9223819	43534484	34542764	1137	48374											
PIAS2	9063	broad.mit.edu	37	chr18	44392466	44392466	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccctgtctcactcctgctgCtggatgaactaacatgagta	9	11	8	13	0	1	2	1	2	1	0	3	3	2	3	3	1	4	3	3	1	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:44392466C>A	uc002lck.2	-	14	1954	c.1796G>T	c.(1795-1797)AGC>ATC	p.S599I	PIAS2_uc010dnp.2_Missense_Mutation_p.S297I	NM_004671	NP_004662	O75928	PIAS2_HUMAN	protein inhibitor of activated STAT X isoform	599	Poly-Ser.|Ser-rich.				androgen receptor signaling pathway|negative regulation of androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|PML body	androgen receptor binding|DNA binding|protein binding|SUMO ligase activity|transcription coactivator activity|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						ACTCCTGCTGCTGGATGAACT	0.468													13	32					0.00010058	0.000102696	1	1	0		A	44392466	A	A	44392466	3	1	73	1	0	0	0	0	1	0	0	0	11895	797	28	5	73	5	PIAS2	18	44392466	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	857982	44392466	33684782	1138	48375											
TCEB3B	51224	broad.mit.edu	37	chr18	44560351	44560351	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctggacaggaggcaattTcttagccgaatcccaggact	10	10	10	11	1	1	0	0	0	1	0	3	4	3	3	3	4	1	1	3	4	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:44560351T>A	uc002lcr.1	-	1	1638	c.1285A>T	c.(1285-1287)AAA>TAA	p.K429*	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	429					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GGAGGCAATTTCTTAGCCGAA	0.542													37	79					0	0	1	0	0		A	44560351	A	A	44560351	4	1	73	1	0	0	0	0	0	1	0	0	15707	1792	62	5	980	5	TCEB3B	18	44560351	Nonsense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	167885	44560351	33516897	1139	48376											
KIAA0427	9811	broad.mit.edu	37	chr18	46287883	46287883	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagctcaccaccttcatggaGgaggcccagaactccaccaa	13	5	8	15	0	2	1	2	0	0	1	3	3	3	3	5	3	2	1	5	3	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:46287883G>T	uc002ldc.2	+	9	1479	c.1194G>T	c.(1192-1194)GAG>GAT	p.E398D	KIAA0427_uc002ldd.2_Missense_Mutation_p.E400D|KIAA0427_uc002lde.3_Missense_Mutation_p.E27D	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	398	MIF4G.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						CCTTCATGGAGGAGGCCCAGA	0.587													8	72					0.000274275	0.000279262	1	1	0		T	46287883	T	T	46287883	3	4	73	1	0	0	0	0	1	0	0	0	8192	991	35	5	1230	5	KIAA0427	18	46287883	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1727532	46287883	31789365	1140	48377											
SMAD4	4089	broad.mit.edu	37	chr18	48575209	48575209	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaatccatatcactacgaaCgagttgtatcacctggaatt	13	12	7	9	2	2	1	2	1	0	0	3	4	3	2	2	1	2	2	2	1	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:48575209C>T	uc010xdp.1	+	3	941	c.403C>T	c.(403-405)CGA>TGA	p.R135*	SMAD4_uc010xdo.1_RNA	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	135	MH1.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.R135*(4)|p.?(4)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TCACTACGAACGAGTTGTATC	0.328									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				27	46					0	0	1	0	0		T	48575209	T	T	48575209	4	4	73	1	0	0	0	0	0	1	0	0	14785	528	19	1	409	1	SMAD4	18	48575209	Nonsense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2287326	48575209	29502039	1141	48378											
SMAD4	4089	broad.mit.edu	37	chr18	48591918	48591918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggacccttctggaggagatCgcttttgtttgggtcaactc	6	14	12	9	1	2	1	1	0	1	1	4	4	2	3	1	4	1	2	1	4	1	4	rs80338963		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:48591918C>T	uc010xdp.1	+	9	1619	c.1081C>T	c.(1081-1083)CGC>TGC	p.R361C	SMAD4_uc002lfb.3_Missense_Mutation_p.R206C	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	361	MH2.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in JPS).		BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.R361C(6)|p.R361H(3)|p.?(2)|p.R361S(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TGGAGGAGATCGCTTTTGTTT	0.413									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				25	50					0	0	1	0	0		T	48591918	T	T	48591918	3	4	73	1	0	0	0	0	1	0	0	0	14785	884	31	1	1111	1	SMAD4	18	48591918	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	16709	48591918	29485330	1142	48379											
MBD2	8932	broad.mit.edu	37	chr18	51686245	51686245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcttcttccaatttcttgcGtacttgctgtactcgctctt	4	19	6	12	2	3	0	0	0	3	0	5	0	4	0	1	0	5	5	1	0	3	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:51686245G>A	uc002lfg.1	-	6	1367	c.1138C>T	c.(1138-1140)CGC>TGC	p.R380C		NM_003927	NP_003918	Q9UBB5	MBD2_HUMAN	methyl-CpG binding domain protein 2 isoform 1	380					transcription, DNA-dependent		C2H2 zinc finger domain binding|methyl-CpG binding|satellite DNA binding				0				Colorectal(16;0.0212)|READ - Rectum adenocarcinoma(32;0.188)	Hexobarbital(DB01355)	AATTTCTTGCGTACTTGCTGT	0.403													29	49					0	0	1	0	0		A	51686245	A	A	51686245	3	1	73	1	0	0	0	0	1	0	0	0	9361	1145	40	1	101	1	MBD2	18	51686245	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3094327	51686245	26391003	1143	48380											
RAB27B	5874	broad.mit.edu	37	chr18	52544862	52544862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatcaaactcctggccctcGgggattcaggggtggggaag	8	8	16	9	1	2	1	2	1	0	0	4	3	3	3	2	7	1	0	2	7	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:52544862G>A	uc002lfr.2	+	2	157	c.46G>A	c.(46-48)GGG>AGG	p.G16R		NM_004163	NP_004154	O00194	RB27B_HUMAN	RAB27B, member RAS oncogene family	16	GTP.				protein transport|small GTPase mediated signal transduction	Golgi apparatus|plasma membrane	GTP binding|GTPase activity				0				Colorectal(16;0.0273)|READ - Rectum adenocarcinoma(59;0.219)		CCTGGCCCTCGGGGATTCAGG	0.403													23	34					0	0	1	0	0		A	52544862	A	A	52544862	3	1	73	1	0	0	0	0	1	0	0	0	12940	1116	39	1	48	1	RAB27B	18	52544862	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	858617	52544862	25532386	1144	48381											
ZNF532	55205	broad.mit.edu	37	chr18	56587463	56587463	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcgaagtaacgtgcaaccaTtgtacaaagaacctcgtttt	14	11	7	9	3	0	1	0	0	0	1	2	2	0	1	2	0	5	4	2	0	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:56587463T>C	uc002lho.2	+	4	2491	c.1944T>C	c.(1942-1944)CAT>CAC	p.H648H	ZNF532_uc002lhp.2_Silent_p.H646H|ZNF532_uc010xeg.1_Silent_p.H646H|ZNF532_uc002lhr.2_Silent_p.H646H|ZNF532_uc002lhs.2_Silent_p.H646H	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	648					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						CGTGCAACCATTGTACAAAGA	0.493													32	60					0	0	1	0	0		C	56587463	C	C	56587463	2	2	73	1	0	0	0	0	0	0	0	1	17997	1490	52	3		3	ZNF532	18	56587463	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	4042601	56587463	21489785	1145	48382											
MC4R	4160	broad.mit.edu	37	chr18	58039381	58039381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attcttgttcttggctattgCcacaatcactaagatattct	10	17	5	9	0	4	1	1	0	3	1	4	1	4	1	1	1	1	2	1	1	4	9			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:58039381C>T	uc002lie.1	-	1	621	c.202G>A	c.(202-204)GCA>ACA	p.A68T		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	68	Helical; Name=1; (Potential).				feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)				TTGGCTATTGCCACAATCACT	0.453													40	80					0	0	1	0	0		T	58039381	T	T	58039381	3	4	73	1	0	0	0	0	1	0	0	0	9384	739	26	2	800	2	MC4R	18	58039381	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1451918	58039381	20037867	1146	48383											
ZADH2	284273	broad.mit.edu	37	chr18	72913630	72913630	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcagatttcttgagcagtTtggctggcaatgttcctgct	6	15	12	8	0	1	2	0	1	1	1	2	2	2	2	1	3	2	7	1	3	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:72913630T>C	uc002llx.2	-	2	1143	c.875A>G	c.(874-876)AAA>AGA	p.K292R	ZADH2_uc010dqv.2_Missense_Mutation_p.K169R	NM_175907	NP_787103	Q8N4Q0	ZADH2_HUMAN	zinc binding alcohol dehydrogenase domain	292						peroxisome	oxidoreductase activity|zinc ion binding				0		Esophageal squamous(42;0.131)|Prostate(75;0.155)		READ - Rectum adenocarcinoma(2;0.0276)|BRCA - Breast invasive adenocarcinoma(31;0.216)		CTTGAGCAGTTTGGCTGGCAA	0.502													28	47					0	0	1	0	0		C	72913630	C	C	72913630	3	2	73	1	0	0	0	0	1	0	0	0	17537	1841	64	3	262	3	ZADH2	18	72913630	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	14874249	72913630	5163618	1147	48384											
ZNF516	9658	broad.mit.edu	37	chr18	74154511	74154511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgctgccttggcctcccccGgggcgcatgcggacccctct	2	7	12	20	4	1	0	0	0	1	0	2	1	2	1	7	4	2	2	7	4	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:74154511G>A	uc010dqx.1	-	2	735	c.500C>T	c.(499-501)CCG>CTG	p.P167L	ZNF516_uc002lme.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	167					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		GGCCTCCCCCGGGGCGCATGC	0.692													11	19					0	0	1	0	0		A	74154511	A	A	74154511	3	1	73	1	0	0	0	0	1	0	0	0	17985	1116	39	1	3012	1	ZNF516	18	74154511	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1240881	74154511	3922737	1148	48385											
GALR1	2587	broad.mit.edu	37	chr18	74962917	74962917	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccgctacgtggccatcgTgcactcgcggcgctcctcct	4	8	12	17	6	0	0	0	0	0	0	4	1	2	1	4	3	2	3	4	3	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr18:74962917T>C	uc002lms.3	+	1	910	c.413T>C	c.(412-414)GTG>GCG	p.V138A		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	138	Cytoplasmic (Potential).				digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		GTGGCCATCGTGCACTCGCGG	0.652													19	50					0	0	1	0	0		C	74962917	C	C	74962917	3	2	73	1	0	0	0	0	1	0	0	0	6242	1696	59	3	415	3	GALR1	18	74962917	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	808406	74962917	3114331	1149	48386											
WDR18	57418	broad.mit.edu	37	chr19	994293	994293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaacctgcgcaagatcaatCgggacctgttcgacttctcc	9	9	9	14	3	2	1	1	0	1	1	5	3	2	2	3	1	2	3	3	1	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:994293C>T	uc002lqm.1	+	10	1275	c.1249C>T	c.(1249-1251)CGG>TGG	p.R417W	WDR18_uc002lqn.1_RNA|WDR18_uc010drx.1_Missense_Mutation_p.R380W|WDR18_uc010dry.1_Missense_Mutation_p.R394W	NM_024100	NP_077005	Q9BV38	WDR18_HUMAN	WD repeat domain 18	417										skin(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAAGATCAATCGGGACCTGTT	0.701													4	6					0	0	1	0	0		T	994293	T	T	994293	3	4	73	1	0	0	0	0	1	0	0	0	17304	875	31	1	1287	1	WDR18	19	994293	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08		994293	58134690	1150	48387											
PCSK4	54760	broad.mit.edu	37	chr19	1488236	1488236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtgggcaccacgacagagCgtttcacccgccgctgcagc	7	5	12	17	5	1	1	1	0	0	1	1	2	1	1	4	1	3	4	4	1	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:1488236C>T	uc002ltb.1	-	3	400	c.338G>A	c.(337-339)CGC>CAC	p.R113H	PCSK4_uc002lta.2_5'UTR|REEP6_uc010xgp.1_5'Flank|REEP6_uc002ltc.2_5'Flank	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	113					proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACGACAGAGCGTTTCACCCG	0.692													6	31					0	0	1	0	0		T	1488236	T	T	1488236	3	4	73	1	0	0	0	0	1	0	0	0	11621	768	27	1	1981	1	PCSK4	19	1488236	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	493943	1488236	57640747	1151	48388											
ZBTB7A	51341	broad.mit.edu	37	chr19	4048234	4048234	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccgcatgtgcaccttcagcTtgtcctgcctgtggacgggg	4	11	13	13	2	1	0	1	0	0	0	3	1	3	1	4	3	3	3	4	3	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:4048234T>G	uc002lzh.2	-	3	1346	c.1271A>C	c.(1270-1272)AAG>ACG	p.K424T	ZBTB7A_uc002lzi.2_Missense_Mutation_p.K424T	NM_015898	NP_056982	O95365	ZBT7A_HUMAN	zinc finger and BTB domain containing 7A	424	C2H2-type 2.				cell differentiation|multicellular organismal development|transcription, DNA-dependent	nucleus	DNA binding|histone acetyltransferase binding|zinc ion binding			pancreas(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.014)|STAD - Stomach adenocarcinoma(1328;0.18)		CACCTTCAGCTTGTCCTGCCT	0.687													12	23					0	0	1	0	0		G	4048234	G	G	4048234	3	3	73	1	0	0	0	0	1	0	0	0	17578	1609	56	5	487	5	ZBTB7A	19	4048234	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2559998	4048234	55080749	1152	48389											
MAP2K2	5605	broad.mit.edu	37	chr19	4099311	4099311	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctctttggcgtcgggCggggggatggggtaccttcc	3	10	17	11	3	1	0	0	0	1	0	4	1	3	1	3	7	2	2	3	7	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:4099311C>T	uc002lzk.2	-	7	1061	c.807G>A	c.(805-807)CCG>CCA	p.P269P	MAP2K2_uc002lzj.2_Silent_p.P79P	NM_030662	NP_109587	P36507	MP2K2_HUMAN	mitogen-activated protein kinase kinase 2	269	Protein kinase.|Pro-rich.				activation of MAPK activity|activation of MAPKK activity|axon guidance|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|extracellular region	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGCGTCGGGCGGGGGGATGG	0.687									Cardiofaciocutaneous_syndrome				5	10					0	0	1	0	0		T	4099311	T	T	4099311	2	4	73	1	0	0	0	0	0	0	0	1	9255	755	27	1		1	MAP2K2	19	4099311	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	51077	4099311	55029672	1153	48390											
PTPRS	5802	broad.mit.edu	37	chr19	5218436	5218436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggataagtacatacctggaGtctggaagttaatgcgtctc	11	11	12	7	1	2	0	0	0	2	0	3	3	2	3	1	3	3	2	1	3	5	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:5218436G>A	uc002mbv.2	-	25	4277	c.4043C>T	c.(4042-4044)ACT>ATT	p.T1348I	PTPRS_uc002mbu.1_Missense_Mutation_p.T917I|PTPRS_uc010xin.1_Missense_Mutation_p.T917I|PTPRS_uc002mbw.2_Missense_Mutation_p.T1326I|PTPRS_uc002mbx.2_Missense_Mutation_p.T921I|PTPRS_uc002mby.2_Missense_Mutation_p.T917I	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1348	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		CATACCTGGAGTCTGGAAGTT	0.587													60	119					0	0	1	0	0		A	5218436	A	A	5218436	3	1	73	1	0	0	0	0	1	0	0	0	12836	1029	36	4	1859	4	PTPRS	19	5218436	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1119125	5218436	53910547	1154	48391											
TMEM146	257062	broad.mit.edu	37	chr19	5778593	5778593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgtaggagatgcaagaCggtctgccagttcagggcct	8	9	15	9	1	2	2	1	0	1	2	2	3	2	2	2	3	2	4	2	3	2	2	rs137867416	by1000genomes	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:5778593C>T	uc002mda.2	+	22	2364	c.2303C>T	c.(2302-2304)ACG>ATG	p.T768M		NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	768	Cytoplasmic (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						AGATGCAAGACGGTCTGCCAG	0.657													23	41					0	0	1	0	0		T	5778593	T	T	5778593	3	4	73	1	0	0	0	0	1	0	0	0	16085	536	19	1	2389	1	TMEM146	19	5778593	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	560157	5778593	53350390	1155	48392											
NDUFA11	126328	broad.mit.edu	37	chr19	5896923	5896923	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagcgtgctcacctgcagtGaacgtgtattgtccaacctt	8	11	9	13	2	1	1	1	1	0	0	2	1	2	1	4	0	5	3	4	0	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:5896923G>A	uc002mdq.1	-	2	489	c.183C>T	c.(181-183)TTC>TTT	p.F61F	FUT5_uc010duo.2_5'UTR|NDUFA11_uc002mdp.1_Silent_p.F61F|NDUFA11_uc002mdr.1_RNA	NM_175614	NP_783313	Q86Y39	NDUAB_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	61	Helical; (Potential).				respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex I	protein transporter activity			central_nervous_system(1)	1					NADH(DB00157)	CACCTGCAGTGAACGTGTATT	0.607													38	95					0	0	1	0	0		A	5896923	A	A	5896923	2	1	73	1	0	0	0	0	0	0	0	1	10280	1281	45	4		4	NDUFA11	19	5896923	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	118330	5896923	53232060	1156	48393											
PNPLA6	10908	broad.mit.edu	37	chr19	7619868	7619868	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcgggccccacgcgcacCgtggagtggctaaatatgcg	7	5	16	13	6	0	0	0	0	0	0	0	1	0	1	3	4	1	2	3	4	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:7619868C>T	uc010xjq.1	+	24	2949	c.2754C>T	c.(2752-2754)ACC>ACT	p.T918T	PNPLA6_uc002mgq.1_Silent_p.T870T|PNPLA6_uc010xjp.1_Silent_p.T843T|PNPLA6_uc002mgr.1_Silent_p.T870T|PNPLA6_uc002mgs.2_Silent_p.T908T|PNPLA6_uc002mgt.1_RNA	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	909	Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						CCACGCGCACCGTGGAGTGGC	0.672													4	7					0	0	1	0	0		T	7619868	T	T	7619868	2	4	73	1	0	0	0	0	0	0	0	1	12188	639	23	1		1	PNPLA6	19	7619868	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1722945	7619868	51509115	1157	48394											
XAB2	56949	broad.mit.edu	37	chr19	7688074	7688074	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcgtccagctgtccgttGtcctcataaaacttggcaaa	11	11	7	12	2	1	0	1	0	0	0	5	0	4	0	3	1	2	3	3	1	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:7688074G>A	uc002mgx.2	-	9	1247	c.1221C>T	c.(1219-1221)GAC>GAT	p.D407D		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	407	HAT 9.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						GCTGTCCGTTGTCCTCATAAA	0.373								Direct_reversal_of_damage|NER					27	51					0	0	1	0	0		A	7688074	A	A	7688074	2	1	73	1	0	0	0	0	0	0	0	1	17444	1368	48	4		4	XAB2	19	7688074	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	68206	7688074	51440909	1158	48395											
LRRC8E	80131	broad.mit.edu	37	chr19	7960576	7960576	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgggacgtgctggccgagTacctcaccgtggccatgctc	5	8	15	13	3	1	0	1	0	0	0	2	2	1	1	4	4	3	3	4	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:7960576T>C	uc002mir.2	+	2	189	c.88T>C	c.(88-90)TAC>CAC	p.Y30H		NM_025061	NP_079337	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member	30	Helical; (Potential).					integral to membrane				lung(1)|pancreas(1)	2						GCTGGCCGAGTACCTCACCGT	0.637													14	30					0	0	1	0	0		C	7960576	C	C	7960576	3	2	73	1	0	0	0	0	1	0	0	0	9043	1638	57	3	90	3	LRRC8E	19	7960576	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	272502	7960576	51168407	1159	48396											
FBN3	84467	broad.mit.edu	37	chr19	8188452	8188452	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcgtgcagaggccagggAacaccttgcattcattcaca	10	8	11	12	2	2	1	2	0	0	1	2	2	2	2	2	2	4	2	2	2	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:8188452A>G	uc002mjf.2	-	23	2999	c.2978T>C	c.(2977-2979)TTC>TCC	p.F993S		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	993	EGF-like 12; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GAGGCCAGGGAACACCTTGCA	0.597													18	24					0	0	1	0	0		G	8188452	G	G	8188452	3	3	73	1	0	0	0	0	1	0	0	0	5718	246	9	3	5615	3	FBN3	19	8188452	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	227876	8188452	50940531	1160	48397											
MYO1F	4542	broad.mit.edu	37	chr19	8609293	8609293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggtctgctcccccgcccGtggcgtgcatggtggcgcac	2	9	14	16	4	2	0	0	0	2	0	3	0	3	0	3	4	2	3	3	4	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:8609293G>A	uc002mkg.2	-	14	1526	c.1412C>T	c.(1411-1413)ACG>ATG	p.T471M		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	471	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						TCCCCCGCCCGTGGCGTGCAT	0.672													9	15					0	0	1	0	0		A	8609293	A	A	8609293	3	1	73	1	0	0	0	0	1	0	0	0	10091	1145	40	1	1944	1	MYO1F	19	8609293	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	420841	8609293	50519690	1161	48398											
MUC16	94025	broad.mit.edu	37	chr19	9057815	9057815	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctagtctccctgaatccAggagtcaatgagaatgttgg	10	11	12	8	0	2	2	1	2	1	1	4	4	3	3	2	2	1	2	2	2	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:9057815A>G	uc002mkp.2	-	3	29835	c.29631T>C	c.(29629-29631)CCT>CCC	p.P9877P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9879	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCCTGAATCCAGGAGTCAATG	0.488													48	58					0	0	1	0	0		G	9057815	G	G	9057815	2	3	73	1	0	0	0	0	0	0	0	1	9991	175	7	3		3	MUC16	19	9057815	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	448522	9057815	50071168	1162	48399											
ZNF317	57693	broad.mit.edu	37	chr19	9271302	9271302	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcatcgcacacaagagaacGcacaccggagagaggcccta	14	3	10	14	3	1	2	1	0	0	2	2	5	1	3	2	2	1	2	2	2	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:9271302G>A	uc002mku.2	+	7	1256	c.981G>A	c.(979-981)ACG>ACA	p.T327T	ZNF317_uc002mkv.2_Silent_p.T186T|ZNF317_uc002mkw.2_Silent_p.T295T|ZNF317_uc002mkx.2_Silent_p.T242T|ZNF317_uc002mky.2_Silent_p.T210T	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	327	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACAAGAGAACGCACACCGGAG	0.582													17	30					0	0	1	0	0		A	9271302	A	A	9271302	2	1	73	1	0	0	0	0	0	0	0	1	17860	1074	38	1		1	ZNF317	19	9271302	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	213487	9271302	49857681	1163	48400											
ZNF317	57693	broad.mit.edu	37	chr19	9271423	9271423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctacgcgtgcacgcagtgcGgcaaagccttccgctggaag	8	6	13	14	5	0	0	0	0	0	0	1	1	1	1	3	2	4	4	3	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:9271423G>A	uc002mku.2	+	7	1377	c.1102G>A	c.(1102-1104)GGC>AGC	p.G368S	ZNF317_uc002mkv.2_Missense_Mutation_p.G227S|ZNF317_uc002mkw.2_Missense_Mutation_p.G336S|ZNF317_uc002mkx.2_Missense_Mutation_p.G283S|ZNF317_uc002mky.2_Missense_Mutation_p.G251S	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	368	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACGCAGTGCGGCAAAGCCTT	0.537													12	33					0	0	1	0	0		A	9271423	A	A	9271423	3	1	73	1	0	0	0	0	1	0	0	0	17860	1116	39	1	1124	1	ZNF317	19	9271423	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	121	9271423	49857560	1164	48401											
ANGPTL6	83854	broad.mit.edu	37	chr19	10204421	10204421	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaccatcttgcctccgcTggatcacagtccagcctcca	8	9	7	17	1	2	1	1	1	1	0	5	2	5	2	6	1	3	1	6	1	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:10204421T>A	uc002mmx.1	-	4	1017	c.899A>T	c.(898-900)CAG>CTG	p.Q300L	ANGPTL6_uc002mmy.1_Missense_Mutation_p.Q300L	NM_031917	NP_114123	Q8NI99	ANGL6_HUMAN	angiopoietin-like 6 precursor	300	Fibrinogen C-terminal.				angiogenesis|cell differentiation|signal transduction	extracellular space	receptor binding				0			OV - Ovarian serous cystadenocarcinoma(20;3.58e-08)|Epithelial(33;2.5e-05)|all cancers(31;5.96e-05)			TTGCCTCCGCTGGATCACAGT	0.577													6	103					0	0	1	0	0		A	10204421	A	A	10204421	3	1	73	1	0	0	0	0	1	0	0	0	618	1580	55	5	525	5	ANGPTL6	19	10204421	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	932998	10204421	48924562	1165	48402											
KEAP1	9817	broad.mit.edu	37	chr19	10599967	10599967	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtctctgtttccacatcgtAgcgctccacgctgttcagct	5	13	8	15	4	2	0	1	0	1	0	6	0	4	0	2	0	2	6	2	0	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:10599967A>G	uc002moq.1	-	5	1765	c.1609T>C	c.(1609-1611)TAC>CAC	p.Y537H	KEAP1_uc002mop.1_Intron|KEAP1_uc002mor.1_Missense_Mutation_p.Y537H	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	537	Kelch 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			TCCACATCGTAGCGCTCCACG	0.577													6	16					0	0	1	0	0		G	10599967	G	G	10599967	3	3	73	1	0	0	0	0	1	0	0	0	8157	420	15	3	273	3	KEAP1	19	10599967	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	395546	10599967	48529016	1166	48403											
KRI1	65095	broad.mit.edu	37	chr19	10675651	10675653	+	In_Frame_Del	DEL	CTT	-	-																															ttctgataaatgcgggggtcCttcttcttcaacaaggagag																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:10675651_10675653delCTT	uc002moy.1	-	3	253_255	c.244_246delAAG	c.(244-246)AAGdel	p.K82del	KRI1_uc002mox.1_In_Frame_Del_p.K78del	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	82										ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			TGCGGGGGTCCTTCTTCTTCAAC	0.448											OREG0025239	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	64	---	---	---	---						.	-	10675653	-	-	10675651	7	5	73	1	0	1	0	1	0	0	0	0	8460	680	24	0	1951	0	KRI1	19	10675651	In_Frame_Del	DEL	CTT	TCGA-BR-8372-01A-11D-2340-08	75684	10675651	48453332	1167	48404											
ILF3	3609	broad.mit.edu	37	chr19	10781711	10781711	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaaagcattcttccgtttAtccaacacaagaggagctgg	12	9	10	10	1	1	1	0	0	1	1	3	2	3	2	2	3	3	4	2	3	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:10781711A>G	uc002mpn.2	+	3	382	c.65A>G	c.(64-66)TAT>TGT	p.Y22C	ILF3_uc002mpm.2_Missense_Mutation_p.Y22C|ILF3_uc002mpl.2_Missense_Mutation_p.Y22C|ILF3_uc002mpk.2_Missense_Mutation_p.Y22C|ILF3_uc010xli.1_Intron|ILF3_uc002mpo.2_Missense_Mutation_p.Y22C	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	22					M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			TCTTCCGTTTATCCAACACAA	0.483													9	8					0	0	1	0	0		G	10781711	G	G	10781711	3	3	73	1	0	0	0	0	1	0	0	0	7728	449	16	3	71	3	ILF3	19	10781711	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	106060	10781711	48347272	1168	48405											
QTRT1	81890	broad.mit.edu	37	chr19	10823521	10823521	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggccccatagacccggagTgcacctgccccacgtgccaa	8	5	10	18	3	0	1	0	0	0	1	1	2	0	2	7	2	3	1	7	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:10823521T>C	uc002mpr.2	+	8	974	c.949T>C	c.(949-951)TGC>CGC	p.C317R	DNM2_uc010dxk.2_5'Flank	NM_031209	NP_112486	Q9BXR0	TGT_HUMAN	queuine tRNA-ribosyltransferase 1	317		Zinc (By similarity).			queuosine biosynthetic process	mitochondrion|nucleus|ribosome	metal ion binding|queuine tRNA-ribosyltransferase activity			skin(1)	1			Epithelial(33;1.55e-05)|all cancers(31;3.42e-05)			AGACCCGGAGTGCACCTGCCC	0.647													6	77					0	0	1	0	0		C	10823521	C	C	10823521	3	2	73	1	0	0	0	0	1	0	0	0	12910	1696	59	3	979	3	QTRT1	19	10823521	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	41810	10823521	48305462	1169	48406											
CARM1	10498	broad.mit.edu	37	chr19	11015633	11015634	+	Frame_Shift_Ins	INS	-	TG	TG																															tcttctctcgtagatgaagaINStgtgtgtgtctttaagtgct																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:11015633_11015634insTG	uc002mpz.2	+	2	353_354	c.227_228insTG	c.(226-228)GATfs	p.D76fs	CARM1_uc010dxn.2_RNA	NM_199141	NP_954592	Q86X55	CARM1_HUMAN	coactivator-associated arginine	76					cellular lipid metabolic process|histone H3-R2 methylation|interspecies interaction between organisms|pathogenesis|positive regulation of fat cell differentiation|regulation of estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleoplasm	beta-catenin binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-R17 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein-arginine omega-N asymmetric methyltransferase activity|transcription regulatory region DNA binding				0						GTAGATGAAGATGTGTGTGTCT	0.589													34	46	---	---	---	---						.	TG	11015634	TG	TG	11015633	7	5	73	1	0	1	1	0	0	0	0	0	2658	333	12	0	233	0	CARM1	19	11015633	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	192112	11015633	48113350	1170	48407											
DOCK6	57572	broad.mit.edu	37	chr19	11363591	11363591	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggtggccggctcagaagtAcatcctcaaagtccaggggc	9	7	13	12	1	2	1	2	0	0	1	4	1	4	1	3	5	1	2	3	5	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:11363591A>G	uc002mqs.3	-	3	217	c.176T>C	c.(175-177)GTA>GCA	p.V59A		NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	59					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						GCTCAGAAGTACATCCTCAAA	0.602													6	13					0	0	1	0	0		G	11363591	G	G	11363591	3	3	73	1	0	0	0	0	1	0	0	0	4697	391	14	3	6151	3	DOCK6	19	11363591	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	347958	11363591	47765392	1171	48408											
ZNF442	79973	broad.mit.edu	37	chr19	12461809	12461809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttgtactattatgtgtcttCgaaggtttcccgaagaactg	9	15	10	7	2	1	1	0	0	1	1	3	3	2	1	1	1	2	3	1	1	6	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:12461809C>T	uc002mtr.1	-	6	1201	c.590G>A	c.(589-591)CGA>CAA	p.R197Q	ZNF442_uc010xmk.1_Missense_Mutation_p.R128Q	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	197	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						TATGTGTCTTCGAAGGTTTCC	0.403													57	128					0	0	1	0	0		T	12461809	T	T	12461809	3	4	73	1	0	0	0	0	1	0	0	0	17940	884	31	1	1297	1	ZNF442	19	12461809	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1098218	12461809	46667174	1172	48409											
ZNF799	90576	broad.mit.edu	37	chr19	12502011	12502011	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacactgggataaacaaaggCtttcccacatatcttgcatt	13	12	6	10	0	1	0	0	0	1	0	2	1	2	1	1	2	3	2	1	2	5	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:12502011C>G	uc010dyt.2	-	4	1351	c.1201G>C	c.(1201-1203)GCC>CCC	p.A401P	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	401	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						TAAACAAAGGCTTTCCCACAT	0.428													81	150					0	0	1	0	0		G	12502011	G	G	12502011	3	3	73	1	0	0	0	0	1	0	0	0	18191	797	28	5	734	5	ZNF799	19	12502011	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	40202	12502011	46626972	1173	48410											
BEST2	54831	broad.mit.edu	37	chr19	12866252	12866252	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactatgactggattagcgtAcccctcgtgtacacgcaggt	9	10	10	12	3	0	1	0	1	0	0	1	2	0	2	2	2	3	3	2	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:12866252A>G	uc002mux.2	+	5	696	c.696A>G	c.(694-696)GTA>GTG	p.V232V		NM_017682	NP_060152	Q8NFU1	BEST2_HUMAN	vitelliform macular dystrophy 2-like 1	232					membrane depolarization|sensory perception of smell	chloride channel complex|cilium|plasma membrane	chloride channel activity			ovary(1)|pancreas(1)	2						GGATTAGCGTACCCCTCGTGT	0.502													29	43					0	0	1	0	0		G	12866252	G	G	12866252	2	3	73	1	0	0	0	0	0	0	0	1	1406	378	14	3		3	BEST2	19	12866252	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	364241	12866252	46262731	1174	48411											
PRDX2	7001	broad.mit.edu	37	chr19	12911784	12911784	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccagcacttcacagcccAgcttgcggaagtcctctgca	8	7	9	17	2	2	0	1	0	1	0	3	1	3	1	3	1	5	3	3	1	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:12911784A>G	uc002mvd.2	-	3	353	c.203T>C	c.(202-204)CTG>CCG	p.L68P	PRDX2_uc002mve.1_Missense_Mutation_p.L68P	NM_005809	NP_005800	P32119	PRDX2_HUMAN	peroxiredoxin 2 isoform a	68	Thioredoxin.				anti-apoptosis|cell redox homeostasis|hydrogen peroxide catabolic process|removal of superoxide radicals		thioredoxin peroxidase activity				0						TTCACAGCCCAGCTTGCGGAA	0.438													6	16					0	0	1	0	0		G	12911784	G	G	12911784	3	3	73	1	0	0	0	0	1	0	0	0	12487	188	7	3	581	3	PRDX2	19	12911784	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	45532	12911784	46217199	1175	48412											
CACNA1A	773	broad.mit.edu	37	chr19	13410047	13410047	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcagccttccagcgctcGtccgggtccatttcgttata	6	12	10	13	4	0	0	0	0	0	0	5	0	3	0	4	2	2	3	4	2	3	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:13410047G>A	uc010dze.2	-	19	2639	c.2403C>T	c.(2401-2403)GAC>GAT	p.D801D	CACNA1A_uc010dzc.2_Silent_p.D326D|CACNA1A_uc002mwy.3_Silent_p.D800D|CACNA1A_uc010xne.1_Silent_p.D329D	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	801	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	TCCAGCGCTCGTCCGGGTCCA	0.627													17	55					0	0	1	0	0		A	13410047	A	A	13410047	2	1	73	1	0	0	0	0	0	0	0	1	2541	1136	40	1		1	CACNA1A	19	13410047	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	498263	13410047	45718936	1176	48413											
EMR2	30817	broad.mit.edu	37	chr19	14883284	14883284	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttccgcatgacactttCgacagtgttgcacactcgtt	9	14	7	11	3	0	1	0	1	0	0	3	2	1	1	1	0	1	4	1	0	1	5	rs146183015	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:14883284C>A	uc002mzp.1	-	5	681	c.225G>T	c.(223-225)TCG>TCT	p.S75S	EMR2_uc010xnw.1_Silent_p.S75S|EMR2_uc002mzo.1_Silent_p.S75S|EMR2_uc002mzq.1_Silent_p.S75S|EMR2_uc002mzr.1_Silent_p.S75S|EMR2_uc002mzs.1_Silent_p.S75S|EMR2_uc002mzt.1_Silent_p.S75S|EMR2_uc002mzu.1_Silent_p.S75S|EMR2_uc010xnx.1_RNA|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	75	Extracellular (Potential).|EGF-like 2; calcium-binding.				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						ATGACACTTTCGACAGTGTTG	0.537													30	45					9.39395e-14	1.01919e-13	1	1	0		A	14883284	A	A	14883284	2	1	73	1	0	0	0	0	0	0	0	1	5113	871	31	5		5	EMR2	19	14883284	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1473237	14883284	44245699	1177	48414											
SYDE1	85360	broad.mit.edu	37	chr19	15222547	15222547	+	Frame_Shift_Del	DEL	C	-	-																															gggaccccccaaacagagttCcccccaccactgagggcacc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:15222547delC	uc002nah.1	+	6	1553	c.1522delC	c.(1522-1524)CCCfs	p.P508fs	SYDE1_uc002nai.1_Frame_Shift_Del_p.P441fs|SYDE1_uc002naj.1_Frame_Shift_Del_p.P165fs	NM_033025	NP_149014	Q6ZW31	SYDE1_HUMAN	synapse defective 1, Rho GTPase, homolog 1	508	Rho-GAP.				activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|pancreas(1)	2						AAACAGAGTTCCCCCCACCAC	0.617													22	32	---	---	---	---						.	-	15222547	-	-	15222547	7	5	73	1	0	1	0	1	0	0	0	0	15460	855	30	0	1544	0	SYDE1	19	15222547	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	339263	15222547	43906436	1178	48415											
AKAP8	10270	broad.mit.edu	37	chr19	15483910	15483910	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgaaggggtcgctgcgcaTgaaggtgccagggttgctcc	7	7	16	11	3	0	1	0	1	0	0	2	2	1	1	2	4	3	4	2	4	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:15483910T>C	uc002nav.2	-	5	674	c.613A>G	c.(613-615)ATG>GTG	p.M205V	AKAP8_uc010dzy.2_5'UTR|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Missense_Mutation_p.M19V	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	205					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						TCGCTGCGCATGAAGGTGCCA	0.711													11	18					0	0	1	0	0		C	15483910	C	C	15483910	3	2	73	1	0	0	0	0	1	0	0	0	457	1464	51	3	1505	3	AKAP8	19	15483910	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	261363	15483910	43645073	1179	48416											
CYP4F3	4051	broad.mit.edu	37	chr19	15770043	15770043	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaaggaactgcatcgggCaggcgttcgcgatggcggag	8	5	16	12	5	0	0	0	0	0	0	2	3	0	2	2	5	2	3	2	5	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:15770043C>A	uc002nbj.2	+	13	1461	c.1411C>A	c.(1411-1413)CAG>AAG	p.Q471K	CYP4F3_uc010xok.1_Missense_Mutation_p.Q471K|CYP4F3_uc010xol.1_Missense_Mutation_p.Q471K|CYP4F3_uc010xom.1_Missense_Mutation_p.Q322K|CYP4F3_uc002nbk.2_Missense_Mutation_p.Q471K|CYP4F3_uc010xon.1_Missense_Mutation_p.Q181K	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	471					leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						CTGCATCGGGCAGGCGTTCGC	0.667													6	17					5.18039e-06	5.35319e-06	1	1	0		A	15770043	A	A	15770043	3	1	73	1	0	0	0	0	1	0	0	0	4193	711	25	5	1457	5	CYP4F3	19	15770043	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	286133	15770043	43358940	1180	48417											
CYP4F2	8529	broad.mit.edu	37	chr19	15989733	15989733	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgccatcgcgaacgtctGcccgatgcagttcctagggg	6	8	12	15	5	1	0	0	0	1	0	4	2	3	0	4	2	3	2	4	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:15989733G>T	uc002nbs.1	-	13	1461	c.1411C>A	c.(1411-1413)CAG>AAG	p.Q471K	CYP4F2_uc010xot.1_Missense_Mutation_p.Q322K	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	471					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						GCGAACGTCTGCCCGATGCAG	0.667													4	38					0.150653	0.150861	1	1	0		T	15989733	T	T	15989733	3	4	73	1	0	0	0	0	1	0	0	0	4191	1328	46	5	155	5	CYP4F2	19	15989733	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	219690	15989733	43139250	1181	48418											
CYP4F11	57834	broad.mit.edu	37	chr19	16025591	16025591	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttggggatgacgcggccGtctgggagcacaaagtcctg	7	8	15	11	3	1	1	0	1	1	0	2	3	2	3	3	4	1	1	3	4	1	1	rs150098509	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:16025591G>A	uc002nbu.2	-	10	1266	c.1230C>T	c.(1228-1230)GAC>GAT	p.D410D	CYP4F11_uc010eab.1_Silent_p.D410D|CYP4F11_uc002nbt.2_Silent_p.D410D	NM_001128932	NP_001122404	Q9HBI6	CP4FB_HUMAN	cytochrome P450 family 4 subfamily F polypeptide	410					inflammatory response|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)	1						TGACGCGGCCGTCTGGGAGCA	0.637													29	64					0	0	1	0	0		A	16025591	A	A	16025591	2	1	73	1	0	0	0	0	0	0	0	1	4189	1136	40	1		1	CYP4F11	19	16025591	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	35858	16025591	43103392	1182	48419											
SIN3B	23309	broad.mit.edu	37	chr19	16989392	16989392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggacaatgtgacggtggagGcggctagcctggtgcaggac	9	6	18	8	2	0	1	0	1	0	0	0	4	0	4	1	7	2	2	1	7	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:16989392G>A	uc002ney.1	+	20	3357	c.3343G>A	c.(3343-3345)GCG>ACG	p.A1115T	SIN3B_uc002nez.1_Missense_Mutation_p.A1083T|SIN3B_uc010xpi.1_Missense_Mutation_p.A673T|SIN3B_uc010eaj.1_Missense_Mutation_p.A51T	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	1115					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						GACGGTGGAGGCGGCTAGCCT	0.647													7	5					0	0	1	0	0		A	16989392	A	A	16989392	3	1	73	1	0	0	0	0	1	0	0	0	14351	1203	42	2	3421	2	SIN3B	19	16989392	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	963801	16989392	42139591	1183	48420											
PIK3R2	5296	broad.mit.edu	37	chr19	18277087	18277087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctggagcgcttccggcgtGagggcaacgagaaagagatg	11	5	16	9	4	0	3	0	1	0	2	1	6	1	4	2	3	2	2	2	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:18277087G>A	uc002nia.1	+	12	2046	c.1534G>A	c.(1534-1536)GAG>AAG	p.E512K	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	512					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						CTTCCGGCGTGAGGGCAACGA	0.473													15	29					0	0	1	0	0		A	18277087	A	A	18277087	3	1	73	1	0	0	0	0	1	0	0	0	11938	1291	45	4	1576	4	PIK3R2	19	18277087	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1287695	18277087	40851896	1184	48421											
LRRC25	126364	broad.mit.edu	37	chr19	18507103	18507103	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggggcttgggggcgctcCggctgccgtaccgtggctgc	1	9	18	13	4	0	0	0	0	0	0	1	0	1	0	3	6	3	5	3	6	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:18507103C>A	uc002niw.2	-	1	1313	c.671G>T	c.(670-672)CGG>CTG	p.R224L	LRRC25_uc002nix.2_Missense_Mutation_p.R224L	NM_145256	NP_660299	Q8N386	LRC25_HUMAN	leucine rich repeat containing 25 precursor	224	Cytoplasmic (Potential).					integral to membrane					0						GGGGGCGCTCCGGCTGCCGTA	0.657													17	33					1.01871e-10	1.08902e-10	1	1	0		A	18507103	A	A	18507103	3	1	73	1	0	0	0	0	1	0	0	0	8998	652	23	5	254	5	LRRC25	19	18507103	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	230016	18507103	40621880	1185	48422											
UBA52	7311	broad.mit.edu	37	chr19	18684198	18684198	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagaatgtcaaagccaaaAttcaagacaaggagggtgag	17	7	12	5	0	2	3	2	2	0	2	2	5	2	4	1	2	1	0	1	2	6	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:18684198A>T	uc002njr.2	+	2	202	c.88A>T	c.(88-90)ATT>TTT	p.I30F	UBA52_uc002njs.2_Missense_Mutation_p.I30F|UBA52_uc002njt.2_Missense_Mutation_p.I30F	NM_001033930	NP_001029102	P62987	RL40_HUMAN	ubiquitin and ribosomal protein L40 precursor	30	Ubiquitin-like.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endocrine pancreas development|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|translational elongation|translational termination|viral transcription	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane|ribosome	protein binding|structural constituent of ribosome				0						CAAAGCCAAAATTCAAGACAA	0.547													4	45					0	0	1	0	0		T	18684198	T	T	18684198	3	4	73	1	0	0	0	0	1	0	0	0	16857	101	4	5	90	5	UBA52	19	18684198	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	177095	18684198	40444785	1186	48423											
ARMC6	93436	broad.mit.edu	37	chr19	19166111	19166111	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagcaccctgcgagccaTcgcaggcaacgacgacgtga	10	4	13	14	5	0	2	0	2	0	0	1	5	0	2	2	1	4	4	2	1	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:19166111T>C	uc002nld.2	+	7	1409	c.1061T>C	c.(1060-1062)ATC>ACC	p.I354T	ARMC6_uc002nlc.2_Missense_Mutation_p.I329T|ARMC6_uc010xql.1_Missense_Mutation_p.I261T|ARMC6_uc002nle.2_Missense_Mutation_p.I329T|ARMC6_uc010xqm.1_Missense_Mutation_p.I354T	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	354	ARM 3.						protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)			CTGCGAGCCATCGCAGGCAAC	0.627													7	79					0	0	1	0	0		C	19166111	C	C	19166111	3	2	73	1	0	0	0	0	1	0	0	0	956	1435	50	3	1004	3	ARMC6	19	19166111	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	481913	19166111	39962872	1187	48424											
ZNF506	440515	broad.mit.edu	37	chr19	19905493	19905493	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttaaaagctttgccacaTtcttcacatttgtacggttt	10	16	6	9	1	2	0	1	0	1	0	2	0	2	0	1	1	3	4	1	1	3	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:19905493T>C	uc010eci.2	-	4	1351	c.1203A>G	c.(1201-1203)GAA>GAG	p.E401E	ZNF506_uc002nog.2_Intron|ZNF506_uc002noh.3_Silent_p.E369E	NM_001099269	NP_001092739	Q5JVG8	ZN506_HUMAN	zinc finger protein 506 isoform 1	401	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding				0						CTTTGCCACATTCTTCACATT	0.358													6	67					0	0	1	0	0		C	19905493	C	C	19905493	2	2	73	1	0	0	0	0	0	0	0	1	17977	1490	52	3		3	ZNF506	19	19905493	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	739382	19905493	39223490	1188	48425											
ZNF430	80264	broad.mit.edu	37	chr19	21203611	21203611	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggaagcctagaaatggTgagagtgccgggtccgacat	10	7	14	10	2	0	2	0	1	0	2	1	5	1	3	4	3	2	0	4	3	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:21203611T>C	uc002npj.2	+	1	113	c.3_splice	c.e1+2	p.M1_splice	ZNF430_uc002npk.2_Splice_Site_p.M1_splice	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						CTAGAAATGGTGAGAGTGCCG	0.622													36	88					0	0	1	0	0		C	21203611	C	C	21203611	5	2	73	1	0	0	0	0	0	0	1	0	17929	1710	59	3	7	3	ZNF430	19	21203611	Splice_Site	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1298118	21203611	37925372	1189	48426											
ZNF429	353088	broad.mit.edu	37	chr19	21720712	21720712	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaattcatactagagagaaAccttacaaatgtgaagaatg	20	9	7	5	0	1	4	1	1	0	3	1	5	1	4	1	0	3	0	1	0	9	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:21720712A>G	uc002nqd.1	+	4	1994	c.1857A>G	c.(1855-1857)AAA>AAG	p.K619K	ZNF429_uc010ecu.1_Intron	NM_001001415	NP_001001415	Q86V71	ZN429_HUMAN	zinc finger protein 429	619					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTAGAGAGAAACCTTACAAAT	0.318													11	52					0	0	1	0	0		G	21720712	G	G	21720712	2	3	73	1	0	0	0	0	0	0	0	1	17927	40	2	3		3	ZNF429	19	21720712	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	517101	21720712	37408271	1190	48427											
ZNF208	7757	broad.mit.edu	37	chr19	22154210	22154210	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtgatatctaagggttgagGgccacttataggctttgcca	9	13	12	7	0	1	2	0	2	1	0	1	2	1	2	2	3	1	2	2	3	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:22154210G>A	uc002nqp.2	-	6	3391	c.3242C>T	c.(3241-3243)CCC>CTC	p.P1081L	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				AAGGGTTGAGGGCCACTTATA	0.378													17	58					0	0	1	0	0		A	22154210	A	A	22154210	3	1	73	1	0	0	0	0	1	0	0	0	17791	1232	43	4	220	4	ZNF208	19	22154210	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	433498	22154210	36974773	1191	48428											
ZNF208	7757	broad.mit.edu	37	chr19	22157496	22157496	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacattggtataaccaatttTtaagtgtaaattctcatgtc	13	16	5	7	0	1	0	1	0	1	0	3	0	1	0	1	1	1	2	1	1	6	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:22157496T>G	uc002nqp.2	-	4	489	c.340A>C	c.(340-342)AAA>CAA	p.K114Q	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TAACCAATTTTTAAGTGTAAA	0.353													28	68					0	0	1	0	0		G	22157496	G	G	22157496	3	3	73	1	0	0	0	0	1	0	0	0	17791	1850	64	5	3506	5	ZNF208	19	22157496	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	3286	22157496	36971487	1192	48429											
WDR88	126248	broad.mit.edu	37	chr19	33663258	33663258	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgctatttgttttaggataGgaccatgagactgtggaata	11	15	11	4	0	0	1	0	1	0	1	0	5	0	4	1	3	1	2	1	3	5	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:33663258G>T	uc002nui.2	+	10	1232	c.1154G>T	c.(1153-1155)AGG>ATG	p.R385M		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	385	WD 7.									ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					TTTTAGGATAGGACCATGAGA	0.264													17	48					4.7546e-09	5.03469e-09	1	1	0		T	33663258	T	T	33663258	3	4	73	1	0	0	0	0	1	0	0	0	17361	1000	35	5	1192	5	WDR88	19	33663258	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	11505762	33663258	25465725	1193	48430											
RBM42	79171	broad.mit.edu	37	chr19	36128416	36128416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggaatctggacgtggtccGcaagaagcagaaggaaaaga	15	4	14	8	3	1	3	0	0	1	3	2	6	2	6	2	4	1	2	2	4	6	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:36128416G>A	uc002oan.2	+	10	1479	c.1403G>A	c.(1402-1404)CGC>CAC	p.R468H	RBM42_uc010eef.2_Missense_Mutation_p.R414H|RBM42_uc002oao.2_Missense_Mutation_p.R446H|RBM42_uc002oap.2_Missense_Mutation_p.R438H|RBM42_uc002oaq.2_Missense_Mutation_p.R439H|RBM42_uc010eeg.2_Missense_Mutation_p.R374H	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	468	Necessary for interaction with HNRNPK (By similarity).					cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GACGTGGTCCGCAAGAAGCAG	0.612													19	31					0	0	1	0	0		A	36128416	A	A	36128416	3	1	73	1	0	0	0	0	1	0	0	0	13161	1087	38	1	1441	1	RBM42	19	36128416	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2465158	36128416	23000567	1194	48431											
APLP1	333	broad.mit.edu	37	chr19	36370291	36370291	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagctccgcgaactgcAgcggcacggctatgagaacc	10	4	13	14	4	0	1	0	1	0	1	1	3	1	1	2	2	6	6	2	2	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:36370291A>G	uc002oce.2	+	17	2039	c.1901A>G	c.(1900-1902)CAG>CGG	p.Q634R	APLP1_uc010xsz.1_Missense_Mutation_p.Q595R|APLP1_uc002ocf.2_Missense_Mutation_p.Q635R|APLP1_uc002ocg.2_Missense_Mutation_p.Q538R|APLP1_uc010xta.1_Missense_Mutation_p.Q628R	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	634	Cytoplasmic (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CGCGAACTGCAGCGGCACGGC	0.672													21	62					0	0	1	0	0		G	36370291	G	G	36370291	3	3	73	1	0	0	0	0	1	0	0	0	778	188	7	3	1970	3	APLP1	19	36370291	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	241875	36370291	22758692	1195	48432											
HKR1	284459	broad.mit.edu	37	chr19	37853830	37853830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcattacccaccagagggCgcacactggggagaagcctt	10	6	11	14	1	1	2	1	0	0	2	1	3	1	2	4	3	2	1	4	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:37853830C>T	uc002ogb.2	+	6	1402	c.1133C>T	c.(1132-1134)GCG>GTG	p.A378V	HKR1_uc002ofx.2_Missense_Mutation_p.A94V|HKR1_uc002ofy.2_Missense_Mutation_p.A94V|HKR1_uc002oga.2_Missense_Mutation_p.A360V|HKR1_uc010xto.1_Missense_Mutation_p.A360V|HKR1_uc002ogc.2_Missense_Mutation_p.A359V|HKR1_uc010xtp.1_Missense_Mutation_p.A317V|HKR1_uc002ogd.2_Missense_Mutation_p.A317V	NM_181786	NP_861451	P10072	HKR1_HUMAN	GLI-Kruppel family member HKR1	378	C2H2-type 3.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CACCAGAGGGCGCACACTGGG	0.527													39	94					0	0	1	0	0		T	37853830	T	T	37853830	3	4	73	1	0	0	0	0	1	0	0	0	7210	768	27	1	1147	1	HKR1	19	37853830	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1483539	37853830	21275153	1196	48433											
SIPA1L3	23094	broad.mit.edu	37	chr19	38590640	38590640	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcctggaagatgctacGcccacagccaccaagcatgg	11	6	9	15	1	0	1	0	0	0	1	2	2	2	2	5	2	4	2	5	2	3	1	rs142598144		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:38590640G>A	uc002ohk.2	+	5	2213	c.1704G>A	c.(1702-1704)ACG>ACA	p.T568T		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	568					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			AAGATGCTACGCCCACAGCCA	0.607													39	63					0	0	1	0	0		A	38590640	A	A	38590640	2	1	73	1	0	0	0	0	0	0	0	1	14356	1074	38	1		1	SIPA1L3	19	38590640	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	736810	38590640	20538343	1197	48434											
SIPA1L3	23094	broad.mit.edu	37	chr19	38621275	38621275	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctggcaggccggcctccgGcagggcagccgactagtgga	6	4	17	14	3	0	0	0	0	0	0	1	2	1	1	5	6	1	3	5	6	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:38621275G>A	uc002ohk.2	+	10	3515	c.3006G>A	c.(3004-3006)CGG>CGA	p.R1002R		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1002	PDZ.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CCGGCCTCCGGCAGGGCAGCC	0.652													35	58					0	0	1	0	0		A	38621275	A	A	38621275	2	1	73	1	0	0	0	0	0	0	0	1	14356	1190	42	2		2	SIPA1L3	19	38621275	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	30635	38621275	20507708	1198	48435											
SIPA1L3	23094	broad.mit.edu	37	chr19	38692591	38692591	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgtccacagccacctgAgcctggagaggggacccccg	7	5	13	16	1	0	2	0	1	0	1	2	4	2	3	7	3	2	0	7	3	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:38692591A>G	uc002ohk.2	+	20	5583	c.5074A>G	c.(5074-5076)AGC>GGC	p.S1692G		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1692					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CAGCCACCTGAGCCTGGAGAG	0.652													12	41					0	0	1	0	0		G	38692591	G	G	38692591	3	3	73	1	0	0	0	0	1	0	0	0	14356	304	11	3	5144	3	SIPA1L3	19	38692591	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	71316	38692591	20436392	1199	48436											
PPP1R14A	94274	broad.mit.edu	37	chr19	38746893	38746893	+	Frame_Shift_Del	DEL	C	-	-																															cgcgcgtgccgcttctgcagCcccccgggactgccccctgg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:38746893delC	uc002ohq.2	-	1	280	c.87delG	c.(85-87)GGGfs	p.G29fs	PPP1R14A_uc010efv.2_Frame_Shift_Del_p.G29fs	NM_033256	NP_150281	Q96A00	PP14A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	29					regulation of phosphorylation	cytoplasm	protein binding|protein phosphatase inhibitor activity				0	all_cancers(60;9.57e-07)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GCTTCTGCAGCCCCCCGGGAC	0.726													2	4	---	---	---	---						.	-	38746893	-	-	38746893	7	5	73	1	0	1	0	1	0	0	0	0	12381	726	26	0	372	0	PPP1R14A	19	38746893	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	54302	38746893	20382090	1200	48437											
ACTN4	81	broad.mit.edu	37	chr19	39207889	39207889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggagatcaacttcaacaCgctgcagaccaagctgcgcc	11	6	10	14	2	2	2	2	0	0	2	2	3	2	2	2	1	5	4	2	1	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:39207889C>T	uc002oja.1	+	10	1135	c.1076C>T	c.(1075-1077)ACG>ATG	p.T359M	ACTN4_uc010egc.1_Missense_Mutation_p.T359M	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	359	Spectrin 1.			TL -> SV (in Ref. 3; AAC17470).	platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			AACTTCAACACGCTGCAGACC	0.617													12	22					0	0	1	0	0		T	39207889	T	T	39207889	3	4	73	1	0	0	0	0	1	0	0	0	207	536	19	1	1114	1	ACTN4	19	39207889	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	460996	39207889	19921094	1201	48438											
FCGBP	8857	broad.mit.edu	37	chr19	40366349	40366349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccatccagcgggcttccCgcccacagccttgaggtcgt	5	8	11	17	3	0	1	0	1	0	0	3	1	2	1	5	2	3	1	5	2	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:40366349C>T	uc002omp.3	-	30	13893	c.13885G>A	c.(13885-13887)GGG>AGG	p.G4629R		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4629	VWFD 11.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GCGGGCTTCCCGCCCACAGCC	0.692													28	57					0	0	1	0	0		T	40366349	T	T	40366349	3	4	73	1	0	0	0	0	1	0	0	0	5792	652	23	1	2360	1	FCGBP	19	40366349	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1158460	40366349	18762634	1202	48439											
FCGBP	8857	broad.mit.edu	37	chr19	40389699	40389699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggagggctggcacacctgcCccggcttgcagctgtgttcc	4	8	14	15	2	0	0	0	0	0	0	1	1	1	1	4	4	3	6	4	4	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:40389699C>T	uc002omp.3	-	18	8491	c.8483G>A	c.(8482-8484)GGG>GAG	p.G2828E		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	2828	Cys-rich.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GCACACCTGCCCCGGCTTGCA	0.527													5	11					0	0	1	0	0		T	40389699	T	T	40389699	3	4	73	1	0	0	0	0	1	0	0	0	5792	623	22	4	7810	4	FCGBP	19	40389699	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	23350	40389699	18739284	1203	48440											
FCGBP	8857	broad.mit.edu	37	chr19	40398082	40398082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccctgaacttggcaggcGtccagcaagcagccctggaa	9	6	13	13	1	0	1	0	1	0	0	1	2	1	2	3	4	4	3	3	4	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:40398082G>A	uc002omp.3	-	14	6893	c.6885C>T	c.(6883-6885)GAC>GAT	p.D2295D		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	2295						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CTTGGCAGGCGTCCAGCAAGC	0.726													10	50					0	0	1	0	0		A	40398082	A	A	40398082	2	1	73	1	0	0	0	0	0	0	0	1	5792	1136	40	1		1	FCGBP	19	40398082	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	8383	40398082	18730901	1204	48441											
FCGBP	8857	broad.mit.edu	37	chr19	40421304	40421304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccggccgtcgaagctcaCatagtgtgggtccccggacc	6	6	14	15	5	1	0	1	0	0	0	3	2	2	1	5	3	1	1	5	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:40421304C>T	uc002omp.3	-	5	2625	c.2617G>A	c.(2617-2619)GTG>ATG	p.V873M		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	873	VWFD 2.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			TCGAAGCTCACATAGTGTGGG	0.692													5	8					0	0	1	0	0		T	40421304	T	T	40421304	3	4	73	1	0	0	0	0	1	0	0	0	5792	478	17	4	13728	4	FCGBP	19	40421304	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	23222	40421304	18707679	1205	48442											
SPTBN4	57731	broad.mit.edu	37	chr19	41026037	41026037	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgggatctacgccaggcGctcgtggtgctgcgtaacca	6	8	14	13	5	1	0	0	0	1	0	2	1	1	1	2	3	5	3	2	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:41026037G>A	uc002ony.2	+	16	3719	c.3633G>A	c.(3631-3633)GCG>GCA	p.A1211A	SPTBN4_uc002onx.2_Silent_p.A1211A|SPTBN4_uc002onz.2_Silent_p.A1211A|SPTBN4_uc010egx.2_5'UTR	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1211	Spectrin 10.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TACGCCAGGCGCTCGTGGTGC	0.657													6	11					0	0	1	0	0		A	41026037	A	A	41026037	2	1	73	1	0	0	0	0	0	0	0	1	15146	1074	38	1		1	SPTBN4	19	41026037	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	604733	41026037	18102946	1206	48443											
CYP2B6	1555	broad.mit.edu	37	chr19	41509905	41509905	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtgtggatgtgattggcaGttccgagagaaatatgggga	10	11	17	3	1	0	2	0	1	0	1	1	6	1	4	1	5	0	2	1	5	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:41509905G>A	uc002opr.1	+	2	179	c.172_splice	c.e2-1	p.F58_splice	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Silent_p.Q17Q	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,						cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	GTGATTGGCAGTTCCGAGAGA	0.383													31	35					0	0	1	0	0		A	41509905	A	A	41509905	5	1	73	1	0	0	0	0	0	0	1	0	4167	1043	36	4	177	4	CYP2B6	19	41509905	Splice_Site	SNP	G	TCGA-BR-8372-01A-11D-2340-08	483868	41509905	17619078	1207	48444											
AXL	558	broad.mit.edu	37	chr19	41726645	41726645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agctccaggttcagggagagCcccccgaggtacattggctt	8	8	13	12	1	1	1	1	0	0	1	2	3	2	1	4	4	3	4	4	4	1	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:41726645C>T	uc010ehj.2	+	2	380	c.190C>T	c.(190-192)CCC>TCC	p.P64S	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Missense_Mutation_p.P64S|AXL_uc010ehk.2_Missense_Mutation_p.P64S	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	64	Extracellular (Potential).|Interaction with GAS6.|Ig-like C2-type 1.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						TCAGGGAGAGCCCCCCGAGGT	0.622													7	22					0	0	1	0	0		T	41726645	T	T	41726645	3	4	73	1	0	0	0	0	1	0	0	0	1239	739	26	2	196	2	AXL	19	41726645	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	216740	41726645	17402338	1208	48445											
BCKDHA	593	broad.mit.edu	37	chr19	41920016	41920016	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcacgtggggagtgccgcCgccctggacaacacggacct	8	4	14	15	5	0	0	0	0	0	0	0	3	0	3	4	4	2	1	4	4	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:41920016C>T	uc002oqq.2	+	4	467	c.438C>T	c.(436-438)GCC>GCT	p.A146A	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Silent_p.A180A|BCKDHA_uc002oqp.1_Silent_p.A38A|BCKDHA_uc002oqr.2_Silent_p.A146A|BCKDHA_uc010xvz.1_Silent_p.A124A	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	146					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						GGAGTGCCGCCGCCCTGGACA	0.607													21	45					0	0	1	0	0		T	41920016	T	T	41920016	2	4	73	1	0	0	0	0	0	0	0	1	1360	639	23	1		1	BCKDHA	19	41920016	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	193371	41920016	17208967	1209	48446											
ARHGEF1	9138	broad.mit.edu	37	chr19	42402713	42402713	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctgcccaagagccaggTgaagcggcaggaggtcatca	11	4	14	12	1	2	2	2	1	0	1	2	3	2	3	3	4	4	1	3	4	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:42402713T>C	uc002orx.2	+	14	1353	c.1244T>C	c.(1243-1245)GTG>GCG	p.V415A	ARHGEF1_uc002ory.2_Missense_Mutation_p.V382A|ARHGEF1_uc002orz.2_Missense_Mutation_p.V253A|ARHGEF1_uc002osa.2_Missense_Mutation_p.V430A|ARHGEF1_uc002osb.2_Missense_Mutation_p.V397A|ARHGEF1_uc002osc.2_Missense_Mutation_p.V169A|ARHGEF1_uc002osd.2_Missense_Mutation_p.V74A	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	415					cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		AAGAGCCAGGTGAAGCGGCAG	0.652													5	3					0	0	1	0	0		C	42402713	C	C	42402713	3	2	73	1	0	0	0	0	1	0	0	0	893	1696	59	3	1343	3	ARHGEF1	19	42402713	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	482697	42402713	16726270	1210	48447											
ZNF574	64763	broad.mit.edu	37	chr19	42584319	42584319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgcacacacacaggggagCggcccttcccctgccctgac	7	5	11	18	2	0	1	0	1	0	0	1	2	1	2	4	3	3	1	4	3	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:42584319C>T	uc002osm.3	+	2	1730	c.1561C>T	c.(1561-1563)CGG>TGG	p.R521W	ZNF574_uc002osk.3_Missense_Mutation_p.R611W	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	521					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				CACAGGGGAGCGGCCCTTCCC	0.617													70	202					0	0	1	0	0		T	42584319	T	T	42584319	3	4	73	1	0	0	0	0	1	0	0	0	18031	759	27	1	1563	1	ZNF574	19	42584319	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	181606	42584319	16544664	1211	48448											
CIC	23152	broad.mit.edu	37	chr19	42796883	42796883	+	Frame_Shift_Del	DEL	C	-	-																															cctggcccagccatcccaggCccccccaagcctggtctaca																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:42796883delC	uc002otf.1	+	14	3381	c.3341delC	c.(3340-3342)GCCfs	p.A1114fs		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1114	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				CCATCCCAGGCCCCCCCAAGC	0.682			T	DUX4	soft tissue sarcoma								27	45	---	---	---	---						.	-	42796883	-	-	42796883	7	5	73	1	0	1	0	1	0	0	0	0	3427	739	26	0	3395	0	CIC	19	42796883	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	212564	42796883	16332100	1212	48449											
PSG3	5671	broad.mit.edu	37	chr19	43236954	43236954	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggaggagattcagggtgaCtgggtcactgcggctggcac	8	7	17	9	2	2	2	2	1	0	1	2	4	2	3	0	6	1	2	0	6	0	1	rs146352413		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:43236954C>A	uc002oue.2	-	3	823	c.691G>T	c.(691-693)GTC>TTC	p.V231F	PSG3_uc002ouf.2_RNA|PSG1_uc002oug.1_Intron|PSG3_uc010eil.2_Missense_Mutation_p.V253F	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	231	Ig-like C2-type 1.				defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				TTCAGGGTGACTGGGTCACTG	0.527													34	236					3.05275e-18	3.37238e-18	1	1	0		A	43236954	A	A	43236954	3	1	73	1	0	0	0	0	1	0	0	0	12678	565	20	5	611	5	PSG3	19	43236954	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	440071	43236954	15892029	1213	48450											
PSG2	5670	broad.mit.edu	37	chr19	43579581	43579581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcacattcatagggtcctgCagtatactttgtgacaccaa	11	13	7	10	0	2	1	2	1	0	0	3	1	3	1	2	1	2	2	2	1	4	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:43579581C>T	uc002ovr.2	-	3	727	c.634G>A	c.(634-636)GCA>ACA	p.A212T	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.A212T|PSG2_uc010eiq.1_Missense_Mutation_p.A212T|PSG2_uc002ovs.3_Missense_Mutation_p.A212T|PSG2_uc002ovt.3_Missense_Mutation_p.A212T	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	212	Ig-like C2-type 1.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				TAGGGTCCTGCAGTATACTTT	0.507													151	280					0	0	1	0	0		T	43579581	T	T	43579581	3	4	73	1	0	0	0	0	1	0	0	0	12677	710	25	2	385	2	PSG2	19	43579581	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	342627	43579581	15549402	1214	48451											
TEX101	83639	broad.mit.edu	37	chr19	43922422	43922422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccatgtttgtgagggaagCgtgcccacatcagctgctca	9	9	11	12	1	2	1	2	1	0	0	2	2	2	2	2	1	4	3	2	1	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:43922422C>T	uc010xwo.1	+	6	818	c.623C>T	c.(622-624)GCG>GTG	p.A208V	TEX101_uc002owk.2_Missense_Mutation_p.A226V	NM_001130011	NP_001123483	Q9BY14	TX101_HUMAN	testis expressed 101 isoform 2	208						anchored to membrane|plasma membrane				ovary(1)	1		Prostate(69;0.0199)				GTGAGGGAAGCGTGCCCACAT	0.532													49	72					0	0	1	0	0		T	43922422	T	T	43922422	3	4	73	1	0	0	0	0	1	0	0	0	15798	768	27	1	699	1	TEX101	19	43922422	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	342841	43922422	15206561	1215	48452											
IRGC	56269	broad.mit.edu	37	chr19	44222940	44222940	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaatgccctgcgtggccTggaggccgaggaccctggcg	6	6	15	14	3	1	0	1	0	0	0	1	3	1	2	4	5	2	0	4	5	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:44222940T>C	uc002oxh.2	+	2	377	c.230T>C	c.(229-231)CTG>CCG	p.L77P		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	77						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				CTGCGTGGCCTGGAGGCCGAG	0.682													10	74					0	0	1	0	0		C	44222940	C	C	44222940	3	2	73	1	0	0	0	0	1	0	0	0	7854	1580	55	3	232	3	IRGC	19	44222940	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	300518	44222940	14906043	1216	48453											
ZNF226	7769	broad.mit.edu	37	chr19	44676323	44676323	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgcccagaggaagctgtAccgagatgtgatggtggaga	10	7	15	9	1	0	4	0	1	0	3	0	7	0	5	3	3	3	2	3	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:44676323A>G	uc002oyp.2	+	4	242	c.98A>G	c.(97-99)TAC>TGC	p.Y33C	ZNF226_uc002oyn.2_Missense_Mutation_p.Y33C|ZNF226_uc002oyo.2_Missense_Mutation_p.Y33C|ZNF226_uc002oyq.2_5'UTR|ZNF226_uc002oyr.2_5'UTR|ZNF226_uc010ejg.2_Missense_Mutation_p.Y33C|ZNF226_uc002oys.2_Missense_Mutation_p.Y33C|ZNF226_uc002oyt.2_Missense_Mutation_p.Y33C	NM_001032373	NP_001027545	Q9NYT6	ZN226_HUMAN	zinc finger protein 226 isoform a	33	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				AGGAAGCTGTACCGAGATGTG	0.532													49	103					0	0	1	0	0		G	44676323	G	G	44676323	3	3	73	1	0	0	0	0	1	0	0	0	17805	391	14	3	104	3	ZNF226	19	44676323	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	453383	44676323	14452660	1217	48454											
CBLC	23624	broad.mit.edu	37	chr19	45296747	45296747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagcactcggacagccagaCctgccccttctgccgctgcg	6	6	10	19	3	1	1	0	0	1	1	2	2	1	2	6	1	5	2	6	1	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:45296747C>T	uc002ozs.2	+	8	1217	c.1154C>T	c.(1153-1155)ACC>ATC	p.T385I	CBLC_uc010ejt.2_Missense_Mutation_p.T339I	NM_012116	NP_036248	Q9ULV8	CBLC_HUMAN	Cas-Br-M (murine) ecotropic retroviral	385	RING-type.				cell surface receptor linked signaling pathway|negative regulation of epidermal growth factor receptor activity|negative regulation of MAP kinase activity|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	calcium ion binding|epidermal growth factor receptor binding|phosphotyrosine binding|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|skin(1)	6	Lung NSC(12;0.00136)|all_lung(12;0.00371)	Ovarian(192;0.231)				GACAGCCAGACCTGCCCCTTC	0.637			M		AML								4	13					0	0	1	0	0		T	45296747	T	T	45296747	3	4	73	1	0	0	0	0	1	0	0	0	2705	507	18	4	1184	4	CBLC	19	45296747	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	620424	45296747	13832236	1218	48455											
RELB	5971	broad.mit.edu	37	chr19	45515448	45515448	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagcagcgcggcatgcgcTtccgctacgagtgcgagggc	7	5	15	14	6	0	0	0	0	0	0	1	2	1	0	2	2	5	4	2	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:45515448T>C	uc002paj.1	+	5	544	c.418T>C	c.(418-420)TTC>CTC	p.F140L		NM_006509	NP_006500	Q01201	RELB_HUMAN	reticuloendotheliosis viral oncogene homolog B	140	RHD.					nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00986)		CGGCATGCGCTTCCGCTACGA	0.741													5	16					0	0	1	0	0		C	45515448	C	C	45515448	3	2	73	1	0	0	0	0	1	0	0	0	13242	1609	56	3	424	3	RELB	19	45515448	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	218701	45515448	13613535	1219	48456											
RELB	5971	broad.mit.edu	37	chr19	45528941	45528941	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcctcatatcgggaccagCagggacagatgcgccggatg	10	5	15	11	3	1	1	1	0	0	1	2	4	1	4	3	4	2	1	3	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:45528941C>T	uc002paj.1	+	8	958	c.832C>T	c.(832-834)CAG>TAG	p.Q278*		NM_006509	NP_006500	Q01201	RELB_HUMAN	reticuloendotheliosis viral oncogene homolog B	278	RHD.					nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00986)		TCGGGACCAGCAGGGACAGAT	0.572													42	103					0	0	1	0	0		T	45528941	T	T	45528941	4	4	73	1	0	0	0	0	0	1	0	0	13242	711	25	2	850	2	RELB	19	45528941	Nonsense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	13493	45528941	13600042	1220	48457											
FOSB	2354	broad.mit.edu	37	chr19	45973963	45973963	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaccagccaggacctccAgtggcttgtgcaacccaccc	10	5	8	18	0	0	0	0	0	0	0	1	1	1	1	6	2	4	2	6	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:45973963A>G	uc002pbx.3	+	2	795	c.203A>G	c.(202-204)CAG>CGG	p.Q68R	ERCC1_uc002pbu.1_Intron|FOSB_uc002pbw.2_Missense_Mutation_p.Q68R|FOSB_uc010eke.2_Intron|FOSB_uc002pby.3_Missense_Mutation_p.Q68R|FOSB_uc010eka.1_Intron|FOSB_uc010ekb.1_Missense_Mutation_p.Q68R|FOSB_uc010ekc.1_Intron|FOSB_uc010ekf.2_Intron|FOSB_uc010ekd.1_Missense_Mutation_p.Q68R|FOSB_uc010ekg.2_Intron|FOSB_uc002pca.3_Missense_Mutation_p.Q19R	NM_006732	NP_006723	P53539	FOSB_HUMAN	FBJ murine osteosarcoma viral oncogene homolog B	68					behavior|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(2)|lung(1)	3		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00814)|Epithelial(262;0.18)|GBM - Glioblastoma multiforme(486;0.242)		CAGGACCTCCAGTGGCTTGTG	0.627													70	116					0	0	1	0	0		G	45973963	G	G	45973963	3	3	73	1	0	0	0	0	1	0	0	0	6000	188	7	3	209	3	FOSB	19	45973963	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	445022	45973963	13155020	1221	48458											
PPP5C	5536	broad.mit.edu	37	chr19	46890442	46890442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatgtacgagctctttagcGaggtgttcgagtggctcccg	7	11	14	9	4	1	1	0	0	1	1	3	4	2	1	1	2	3	4	1	2	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:46890442G>A	uc002pem.2	+	8	1057	c.997G>A	c.(997-999)GAG>AAG	p.E333K	PPP5C_uc010xya.1_Missense_Mutation_p.E200K|PPP5C_uc002pen.2_Missense_Mutation_p.E311K|PPP5C_uc010xyb.1_Missense_Mutation_p.E191K	NM_006247	NP_006238	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	333	Catalytic.				mitosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein dephosphorylation|transcription, DNA-dependent	Golgi apparatus|nucleus	metal ion binding|protein binding|protein serine/threonine phosphatase activity|signal transducer activity			lung(1)|pancreas(1)	2		Ovarian(192;0.0731)|all_neural(266;0.196)		OV - Ovarian serous cystadenocarcinoma(262;0.000196)|all cancers(93;0.00192)|GBM - Glioblastoma multiforme(486;0.0499)|Epithelial(262;0.0504)		GCTCTTTAGCGAGGTGTTCGA	0.592													9	27					0	0	1	0	0		A	46890442	A	A	46890442	3	1	73	1	0	0	0	0	1	0	0	0	12428	1059	37	1	1027	1	PPP5C	19	46890442	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	916479	46890442	12238541	1222	48459											
C5AR1	728	broad.mit.edu	37	chr19	47823944	47823944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatcatctacgtggtggccGgccagggcttccagggccga	6	7	14	14	3	2	0	1	0	1	0	3	1	3	0	5	5	1	1	5	5	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:47823944G>A	uc002pgj.1	+	2	959	c.910G>A	c.(910-912)GGC>AGC	p.G304S		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	304	Cytoplasmic (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		CGTGGTGGCCGGCCAGGGCTT	0.587													8	116					0	0	1	0	0		A	47823944	A	A	47823944	3	1	73	1	0	0	0	0	1	0	0	0	2284	1116	39	1	915	1	C5AR1	19	47823944	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	933502	47823944	11305039	1223	48460											
SULT2A1	6822	broad.mit.edu	37	chr19	48385411	48385411	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttaataaacttcatgtttttCcagaaaaaataaccagacac	18	12	3	8	0	1	2	1	0	0	2	2	2	2	2	2	0	2	1	2	0	7	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:48385411C>T	uc002phr.2	-	3	542	c.402G>A	c.(400-402)TGG>TGA	p.W134*		NM_003167	NP_003158	Q06520	ST2A1_HUMAN	bile-salt sulfotransferase 2A1	134					3'-phosphoadenosine 5'-phosphosulfate metabolic process|bile acid catabolic process|cellular lipid metabolic process|digestion|sulfation|xenobiotic metabolic process	cytosol	bile-salt sulfotransferase activity			ovary(1)|pancreas(1)	2		all_cancers(25;3.02e-09)|all_lung(116;6.48e-07)|all_epithelial(76;7.35e-07)|Lung NSC(112;1.56e-06)|all_neural(266;0.0146)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000254)|all cancers(93;0.000545)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.0552)		TCATGTTTTTCCAGAAAAAAT	0.343													22	71					0	0	1	0	0		T	48385411	T	T	48385411	4	4	73	1	0	0	0	0	0	1	0	0	15406	856	30	4	471	4	SULT2A1	19	48385411	Nonsense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	561467	48385411	10743572	1224	48461											
RUVBL2	10856	broad.mit.edu	37	chr19	49513257	49513257	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcaccatcgacaaggcgacGggcaagatctccaagctggg	12	5	12	12	3	2	1	1	0	1	1	4	3	2	1	2	3	1	2	2	3	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:49513257G>A	uc002plr.1	+	8	610	c.597G>A	c.(595-597)ACG>ACA	p.T199T	RUVBL2_uc002plq.1_Silent_p.T154T|RUVBL2_uc010yab.1_Silent_p.T199T|RUVBL2_uc002pls.1_RNA|RUVBL2_uc010emn.1_Silent_p.T154T|RUVBL2_uc010yac.1_Silent_p.T154T	NM_006666	NP_006657	Q9Y230	RUVB2_HUMAN	RuvB-like 2	199					cellular response to UV|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|protein folding|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|membrane|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|ATP-dependent DNA helicase activity|damaged DNA binding|identical protein binding|unfolded protein binding				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000449)|OV - Ovarian serous cystadenocarcinoma(262;0.000555)|GBM - Glioblastoma multiforme(486;0.00585)|Epithelial(262;0.047)		ACAAGGCGACGGGCAAGATCT	0.677													26	46					0	0	1	0	0		A	49513257	A	A	49513257	2	1	73	1	0	0	0	0	0	0	0	1	13778	1103	39	1		1	RUVBL2	19	49513257	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1127846	49513257	9615726	1225	48462											
HRC	3270	broad.mit.edu	37	chr19	49658190	49658190	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggacctgtggcctgggagtAggtgcccatattccttggag	6	10	16	9	0	0	0	0	0	0	0	1	3	1	3	4	5	1	1	4	5	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:49658190A>G	uc002pmv.2	-	1	492	c.305T>C	c.(304-306)CTA>CCA	p.L102P	TRPM4_uc002pmw.2_5'Flank|TRPM4_uc010emu.2_5'Flank|TRPM4_uc010yak.1_5'Flank|TRPM4_uc002pmx.2_5'Flank|TRPM4_uc010emv.2_5'Flank|TRPM4_uc010yal.1_5'Flank	NM_002152	NP_002143	P23327	SRCH_HUMAN	histidine rich calcium binding protein	102					muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			ovary(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		GCCTGGGAGTAGGTGCCCATA	0.547													41	64					0	0	1	0	0		G	49658190	G	G	49658190	3	3	73	1	0	0	0	0	1	0	0	0	7368	420	15	3	1818	3	HRC	19	49658190	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	144933	49658190	9470793	1226	48463											
RRAS	6237	broad.mit.edu	37	chr19	50140109	50140109	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcgttaatggcgaacaccaGcaggaagccgtggccagcac	11	5	13	12	3	0	0	0	0	0	0	1	2	0	1	3	3	4	3	3	3	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:50140109G>A	uc002pop.1	-	3	361	c.316C>T	c.(316-318)CTG>TTG	p.L106L		NM_006270	NP_006261	P10301	RRAS_HUMAN	related RAS viral (r-ras) oncogene homolog	106					axon guidance|Ras protein signal transduction|synaptic transmission	intracellular|plasma membrane	GDP binding|GTP binding|GTPase activity|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00114)|GBM - Glioblastoma multiforme(134;0.0206)		GCGAACACCAGCAGGAAGCCG	0.657													22	39					0	0	1	0	0		A	50140109	A	A	50140109	2	1	73	1	0	0	0	0	0	0	0	1	13701	962	34	2		2	RRAS	19	50140109	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	481919	50140109	8988874	1227	48464											
PTOV1	53635	broad.mit.edu	37	chr19	50360301	50360303	+	In_Frame_Del	DEL	AAG	-	-																															tcatgctcctgtactcgtccAagaagaagatcttcatgggc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:50360301_50360303delAAG	uc002pqf.1	+	6	798_800	c.628_630delAAG	c.(628-630)AAGdel	p.K212del	PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_In_Frame_Del_p.K180del|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	212	Interaction with FLOT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		GTACTCGTCCAAGAAGAAGATCT	0.64													86	170	---	---	---	---						.	-	50360303	-	-	50360301	7	5	73	1	0	1	0	1	0	0	0	0	12792	131	5	0	650	0	PTOV1	19	50360301	In_Frame_Del	DEL	AAG	TCGA-BR-8372-01A-11D-2340-08	220192	50360301	8768682	1228	48465											
NR1H2	7376	broad.mit.edu	37	chr19	50881507	50881507	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtctgtggggacaaggccTccggcttccactacaacgtg	7	9	13	12	2	1	0	0	0	1	0	3	1	3	1	3	4	2	1	3	4	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:50881507T>C	uc010enw.2	+	5	559	c.283T>C	c.(283-285)TCC>CCC	p.S95P	NR1H2_uc002prv.3_RNA|NR1H2_uc002prz.3_Missense_Mutation_p.S95P|NR1H2_uc002psa.3_Intron	NM_007121	NP_009052	P55055	NR1H2_HUMAN	nuclear receptor subfamily 1, group H, member 2	95	Nuclear receptor.|NR C4-type.				negative regulation of cholesterol storage|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of pinocytosis|negative regulation of transcription, DNA-dependent|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		GGACAAGGCCTCCGGCTTCCA	0.652													64	140					0	0	1	0	0		C	50881507	C	C	50881507	3	2	73	1	0	0	0	0	1	0	0	0	10636	1551	54	3	293	3	NR1H2	19	50881507	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	521206	50881507	8247476	1229	48466											
KLK10	5655	broad.mit.edu	37	chr19	51520527	51520527	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagcgcgtgtcgttttggggGagcagcgccgcctctgcggc	4	8	17	12	6	1	0	0	0	1	0	2	1	1	1	2	3	4	2	2	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:51520527G>T	uc002puy.2	-	3	189	c.108C>A	c.(106-108)CTC>CTA	p.L36L	KLK10_uc002puz.2_Silent_p.L36L|KLK10_uc002pva.2_Silent_p.L36L	NM_145888	NP_665895	O43240	KLK10_HUMAN	kallikrein-related peptidase 10 preproprotein	36					cell cycle|proteolysis	extracellular region	serine-type endopeptidase activity			lung(2)	2		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00885)		CGTTTTGGGGGAGCAGCGCCG	0.667											OREG0025646	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	12					1.6384e-10	1.74891e-10	1	1	0		T	51520527	T	T	51520527	2	4	73	1	0	0	0	0	0	0	0	1	8414	1161	41	5		5	KLK10	19	51520527	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	639020	51520527	7608456	1230	48467											
ETFB	2109	broad.mit.edu	37	chr19	51853588	51853588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccactccagtctcacctgtgGccagtcaagaaatccagctg	10	8	8	15	0	2	1	2	0	1	1	5	1	4	1	5	1	1	1	5	1	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:51853588G>A	uc002pwh.2	-	4	525	c.433C>T	c.(433-435)CCA>TCA	p.P145S	ETFB_uc002pwg.2_Missense_Mutation_p.P236S	NM_001985	NP_001976	P38117	ETFB_HUMAN	electron-transfer-flavoprotein, beta polypeptide	145					respiratory electron transport chain|transport	mitochondrial matrix	electron carrier activity				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000226)|OV - Ovarian serous cystadenocarcinoma(262;0.00661)		CTCACCTGTGGCCAGTCAAGA	0.274													4	11					0	0	1	0	0		A	51853588	A	A	51853588	3	1	73	1	0	0	0	0	1	0	0	0	5278	1203	42	2	346	2	ETFB	19	51853588	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	333061	51853588	7275395	1231	48468											
MBOAT7	79143	broad.mit.edu	37	chr19	54677780	54677780	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggggcaaggctggtgggctgGgatgctgccttccgccggct	3	8	19	11	2	0	0	0	0	0	0	1	1	1	1	3	7	2	5	3	7	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:54677780G>A	uc002qdq.2	-	9	1643	c.1377C>T	c.(1375-1377)TCC>TCT	p.S459S	TMC4_uc010erf.2_5'Flank|TMC4_uc002qdo.2_5'Flank|MBOAT7_uc010erg.2_Silent_p.S143S|MBOAT7_uc010yem.1_Silent_p.S441S|MBOAT7_uc002qdr.2_Silent_p.S459S|MBOAT7_uc002qds.2_Silent_p.S386S|MBOAT7_uc010yen.1_Silent_p.S386S	NM_024298	NP_077274	Q96N66	MBOA7_HUMAN	membrane bound O-acyltransferase domain	459					phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					TGGTGGGCTGGGATGCTGCCT	0.662													14	20					0	0	1	0	0		A	54677780	A	A	54677780	2	1	73	1	0	0	0	0	0	0	0	1	9376	1219	43	4		4	MBOAT7	19	54677780	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2824192	54677780	4451203	1232	48469											
LENG8	114823	broad.mit.edu	37	chr19	54967856	54967856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcagtcgaaagaagatggCggcgctggagtgtgaggacc	10	5	18	8	4	0	3	0	1	0	2	1	6	0	5	1	4	0	2	1	4	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:54967856C>T	uc002qfv.1	+	10	1520	c.1376C>T	c.(1375-1377)GCG>GTG	p.A459V	LENG8_uc002qfw.2_Missense_Mutation_p.A496V			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	459							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		AAGAAGATGGCGGCGCTGGAG	0.682													6	9					0	0	1	0	0		T	54967856	T	T	54967856	3	4	73	1	0	0	0	0	1	0	0	0	8740	768	27	1	1525	1	LENG8	19	54967856	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	290076	54967856	4161127	1233	48470											
LILRB1	10859	broad.mit.edu	37	chr19	55148284	55148284	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccatcccaggaagggccCtctccagctgtgcccagcat	7	7	9	18	0	1	0	0	0	1	0	4	1	3	1	6	2	3	2	6	2	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:55148284C>A	uc002qgj.2	+	16	2248	c.1908C>A	c.(1906-1908)CCC>CCA	p.P636P	LILRB1_uc002qgl.2_Silent_p.P637P|LILRB1_uc002qgk.2_Silent_p.P637P|LILRB1_uc002qgm.2_Silent_p.P638P|LILRB1_uc010erq.2_Silent_p.P620P|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	636	Cytoplasmic (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		AGGAAGGGCCCTCTCCAGCTG	0.637										HNSCC(37;0.09)			13	46					0.00010058	0.000102696	1	1	0		A	55148284	A	A	55148284	2	1	73	1	0	0	0	0	0	0	0	1	8806	668	24	5		5	LILRB1	19	55148284	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	180428	55148284	3980699	1234	48471											
NLRP2	55655	broad.mit.edu	37	chr19	55508826	55508826	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgtttgaaaccttgacAtgttccagtggcaccctccg	8	12	9	12	1	0	2	0	2	0	0	2	2	2	2	4	1	2	4	4	1	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:55508826A>G	uc002qij.2	+	12	3107	c.3021A>G	c.(3019-3021)ACA>ACG	p.T1007T	NLRP2_uc010yfp.1_Silent_p.T984T|NLRP2_uc010esn.2_Silent_p.T983T|NLRP2_uc010eso.2_Silent_p.T1004T|NLRP2_uc010esp.2_Silent_p.T985T	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	1007					apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		AAACCTTGACATGTTCCAGTG	0.522													23	105					0	0	1	0	0		G	55508826	G	G	55508826	2	3	73	1	0	0	0	0	0	0	0	1	10496	204	8	3		3	NLRP2	19	55508826	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	360542	55508826	3620157	1235	48472											
ZNF628	89887	broad.mit.edu	37	chr19	55993117	55993117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctgcgggaagagcttcaCgcagagcaccaacctgcggc	10	5	13	13	3	2	2	1	0	1	2	2	3	2	3	2	2	5	3	2	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:55993117C>T	uc002qld.2	+	3	1110	c.545C>T	c.(544-546)ACG>ATG	p.T182M		NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	182	C2H2-type 6.					nucleus	DNA binding|zinc ion binding				0	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0531)		AAGAGCTTCACGCAGAGCACC	0.687													12	13					0	0	1	0	0		T	55993117	T	T	55993117	3	4	73	1	0	0	0	0	1	0	0	0	18077	536	19	1	547	1	ZNF628	19	55993117	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	484291	55993117	3135866	1236	48473											
ZNF628	89887	broad.mit.edu	37	chr19	55994462	55994462	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgcggcttcgttatggcCgcctatctgcagcggcacct	4	10	13	14	5	1	0	0	0	1	0	3	0	1	0	3	4	2	4	3	4	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:55994462C>T	uc002qld.2	+	3	2455	c.1890C>T	c.(1888-1890)GCC>GCT	p.A630A	NAT14_uc002qle.1_5'Flank	NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	630	C2H2-type 16.					nucleus	DNA binding|zinc ion binding				0	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0531)		TCGTTATGGCCGCCTATCTGC	0.711													13	11					0	0	1	0	0		T	55994462	T	T	55994462	2	4	73	1	0	0	0	0	0	0	0	1	18077	639	23	1		1	ZNF628	19	55994462	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1345	55994462	3134521	1237	48474											
NLRP9	338321	broad.mit.edu	37	chr19	56249537	56249537	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttcagtgttacctcccaTgcctgctttcctgggtaatg	6	14	10	11	0	1	0	1	0	0	0	3	0	3	0	4	2	3	4	4	2	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:56249537T>C	uc002qly.2	-	1	232	c.204A>G	c.(202-204)GCA>GCG	p.A68A		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	68	DAPIN.					cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		TTACCTCCCATGCCTGCTTTC	0.478													32	608					0	0	1	0	0		C	56249537	C	C	56249537	2	2	73	1	0	0	0	0	0	0	0	1	10503	1451	51	3		3	NLRP9	19	56249537	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	255075	56249537	2879446	1238	48475											
PEG3	5178	broad.mit.edu	37	chr19	57327277	57327277	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatttccattgtgacttcTtggaggtttggaagccacta	8	16	9	8	0	2	1	1	1	1	0	3	3	3	3	2	3	1	1	2	3	2	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr19:57327277T>C	uc002qnu.2	-	7	2884	c.2533A>G	c.(2533-2535)AGA>GGA	p.R845G	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.R816G|PEG3_uc002qnv.2_Missense_Mutation_p.R845G|PEG3_uc002qnw.2_Missense_Mutation_p.R721G|PEG3_uc002qnx.2_Missense_Mutation_p.R719G|PEG3_uc010etr.2_Missense_Mutation_p.R845G	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	845					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TTGTGACTTCTTGGAGGTTTG	0.438													41	81					0	0	1	0	0		C	57327277	C	C	57327277	3	2	73	1	0	0	0	0	1	0	0	0	11739	1617	56	3	2237	3	PEG3	19	57327277	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1077740	57327277	1801706	1239	48476											
SDCBP2	27111	broad.mit.edu	37	chr20	1298987	1298987	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctctggaatctgaagcAggctctcctggacttcttgg	7	11	10	13	0	4	1	0	1	4	0	5	3	4	3	2	4	1	2	2	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:1298987A>C	uc002wev.3	-	4	329	c.200T>G	c.(199-201)CTG>CGG	p.L67R	FKBP1A_uc010gac.2_Missense_Mutation_p.L67R|SDCBP2_uc010zpq.1_Missense_Mutation_p.L67R	NM_080489	NP_536737	Q9H190	SDCB2_HUMAN	syndecan binding protein 2 isoform a	67					intracellular signal transduction|intracellular transport|nervous system development	cytoplasm	protein C-terminus binding|protein heterodimerization activity|protein homodimerization activity			large_intestine(1)|skin(1)	2						AATCTGAAGCAGGCTCTCCTG	0.478													28	58					0	0	1	0	0		C	1298987	C	C	1298987	3	2	73	1	0	0	0	0	1	0	0	0	13981	188	7	5	702	5	SDCBP2	20	1298987	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08		1298987	61726533	1240	48477											
SIRPG	55423	broad.mit.edu	37	chr20	1616978	1616978	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggatgctgtaggccacacTctgtcctgtggggtccacgt	5	10	14	12	2	1	0	0	0	1	0	3	1	3	1	3	4	1	2	3	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:1616978T>C	uc002wfm.1	-	3	669	c.604A>G	c.(604-606)AGT>GGT	p.S202G	SIRPG_uc002wfn.1_Missense_Mutation_p.S202G|SIRPG_uc002wfo.1_Intron|uc002wfp.1_Intron	NM_018556	NP_061026	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma isoform 1	202	Extracellular (Potential).|Ig-like C1-type 1.				blood coagulation|cell adhesion|cell junction assembly|cell-cell signaling|intracellular signal transduction|leukocyte migration|negative regulation of cell proliferation|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to membrane|intracellular|plasma membrane	protein binding			ovary(1)	1						TAGGCCACACTCTGTCCTGTG	0.577													46	59					0	0	1	0	0		C	1616978	C	C	1616978	3	2	73	1	0	0	0	0	1	0	0	0	14361	1551	54	3	571	3	SIRPG	20	1616978	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	317991	1616978	61408542	1241	48478											
SIRPG	55423	broad.mit.edu	37	chr20	1629991	1629991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agtgcagagtggctgtctttCcaactgtgaccaacaggagc	10	9	12	10	0	1	2	0	1	1	1	2	3	2	3	2	2	4	2	2	2	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:1629991C>T	uc002wfm.1	-	2	202	c.137G>A	c.(136-138)GGA>GAA	p.G46E	SIRPG_uc002wfn.1_Missense_Mutation_p.G46E|SIRPG_uc002wfo.1_Missense_Mutation_p.G46E	NM_018556	NP_061026	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma isoform 1	46	Extracellular (Potential).|Ig-like V-type.				blood coagulation|cell adhesion|cell junction assembly|cell-cell signaling|intracellular signal transduction|leukocyte migration|negative regulation of cell proliferation|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to membrane|intracellular|plasma membrane	protein binding			ovary(1)	1						GGCTGTCTTTCCAACTGTGAC	0.512													30	65					0	0	1	0	0		T	1629991	T	T	1629991	3	4	73	1	0	0	0	0	1	0	0	0	14361	855	30	4	1042	4	SIRPG	20	1629991	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	13013	1629991	61395529	1242	48479											
ZNF343	79175	broad.mit.edu	37	chr20	2465247	2465247	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgactgaggaactgctgAcaggagaaggccagaaggca	13	6	15	7	0	0	5	0	3	0	2	0	7	0	6	1	4	2	3	1	4	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:2465247A>G	uc002wge.1	-	6	848	c.360T>C	c.(358-360)TGT>TGC	p.C120C	ZNF343_uc010gao.1_Silent_p.C120C|ZNF343_uc002wgd.1_Silent_p.C30C	NM_024325	NP_077301	Q6P1L6	ZN343_HUMAN	zinc finger protein 343	120	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						GGAACTGCTGACAGGAGAAGG	0.468													22	62					0	0	1	0	0		G	2465247	G	G	2465247	2	3	73	1	0	0	0	0	0	0	0	1	17883	273	10	3		3	ZNF343	20	2465247	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	835256	2465247	60560273	1243	48480											
DDRGK1	65992	broad.mit.edu	37	chr20	3171871	3171871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccagcaggtcctggatgCgatttatggtgtcctatgag	8	11	13	9	1	0	1	0	1	0	0	2	3	2	2	3	3	3	1	3	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:3171871C>T	uc002wic.2	-	8	765	c.743G>A	c.(742-744)CGC>CAC	p.R248H	DDRGK1_uc010gaw.2_RNA	NM_023935	NP_076424	Q96HY6	DDRGK_HUMAN	DDRGK domain containing 1 precursor	248	PCI.					endoplasmic reticulum	protein binding				0						GTCCTGGATGCGATTTATGGT	0.517													12	24					0	0	1	0	0		T	3171871	T	T	3171871	3	4	73	1	0	0	0	0	1	0	0	0	4341	768	27	1	209	1	DDRGK1	20	3171871	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	706624	3171871	59853649	1244	48481											
LRRN4	164312	broad.mit.edu	37	chr20	6022558	6022558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggcagccctggggaaaaCgctggagttgctgtgacctg	7	8	16	10	1	0	1	0	1	0	0	0	3	0	3	2	4	3	5	2	4	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:6022558C>T	uc002wmo.2	-	5	1557	c.1333G>A	c.(1333-1335)GTT>ATT	p.V445I		NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	445	Extracellular (Potential).					integral to membrane				skin(3)	3						CTGGGGAAAACGCTGGAGTTG	0.637													20	51					0	0	1	0	0		T	6022558	T	T	6022558	3	4	73	1	0	0	0	0	1	0	0	0	9055	536	19	1	893	1	LRRN4	20	6022558	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2850687	6022558	57002962	1245	48482											
TMX4	56255	broad.mit.edu	37	chr20	7990877	7990877	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgacatctaccttccccaCactgatctgaagtatttcac	12	12	4	13	0	3	3	1	3	2	0	4	3	4	3	3	0	1	1	3	0	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:7990877C>A	uc002wmx.1	-	2	395	c.262G>T	c.(262-264)GTG>TTG	p.V88L		NM_021156	NP_066979	Q9H1E5	TMX4_HUMAN	thioredoxin-related transmembrane protein 4	88	Thioredoxin.				cell redox homeostasis|electron transport chain|transport	integral to membrane					0						ACCTTCCCCACACTGATCTGA	0.388													18	59					1.01871e-10	1.08902e-10	1	1	0		A	7990877	A	A	7990877	3	1	73	1	0	0	0	0	1	0	0	0	16294	478	17	5	815	5	TMX4	20	7990877	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1968319	7990877	55034643	1246	48483											
PLCB1	23236	broad.mit.edu	37	chr20	8628584	8628584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaagtcactccagaagggCgtattcctctcaaaaagtaa	14	9	8	10	1	2	1	2	0	1	1	5	1	4	1	2	1	1	3	2	1	6	3	rs142186851		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:8628584C>T	uc002wnb.2	+	6	505	c.502C>T	c.(502-504)CGT>TGT	p.R168C	PLCB1_uc010zrb.1_Missense_Mutation_p.R67C|PLCB1_uc010gbv.1_Missense_Mutation_p.R168C|PLCB1_uc002wmz.1_Missense_Mutation_p.R168C|PLCB1_uc002wna.2_Missense_Mutation_p.R168C|PLCB1_uc002wnc.1_Missense_Mutation_p.R67C	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	168					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TCCAGAAGGGCGTATTCCTCT	0.323													21	58					0	0	1	0	0		T	8628584	T	T	8628584	3	4	73	1	0	0	0	0	1	0	0	0	12046	768	27	1	524	1	PLCB1	20	8628584	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	637707	8628584	54396936	1247	48484											
KIF16B	55614	broad.mit.edu	37	chr20	16360087	16360087	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctcctgttcttcttggaCttcttttttcaggatgtctt	4	21	7	9	0	6	0	1	0	5	0	7	3	6	2	1	2	0	1	1	2	0	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:16360087C>G	uc002wpg.1	-	19	2718	c.2560G>C	c.(2560-2562)GTC>CTC	p.V854L	KIF16B_uc002wpe.1_Missense_Mutation_p.V236L|KIF16B_uc002wpf.1_Missense_Mutation_p.V236L|KIF16B_uc010gch.1_Missense_Mutation_p.V854L|KIF16B_uc010gci.1_Missense_Mutation_p.V854L|KIF16B_uc010gcj.1_Missense_Mutation_p.V865L	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	854	Glu-rich.|Potential.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						TCTTCTTGGACTTCTTTTTTC	0.418													10	155					0	0	1	0	0		G	16360087	G	G	16360087	3	3	73	1	0	0	0	0	1	0	0	0	8294	565	20	5	1425	5	KIF16B	20	16360087	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	7731503	16360087	46665433	1248	48485											
RRBP1	6238	broad.mit.edu	37	chr20	17640875	17640875	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttctcgaaggaggacaGtcacattgggggctggatca	9	9	15	8	1	3	0	2	0	1	0	4	4	3	3	0	6	0	2	0	6	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:17640875G>C	uc010zrq.1	-	3	632	c.278C>G	c.(277-279)ACT>AGT	p.T93S	RRBP1_uc002wpu.2_5'Flank|RRBP1_uc002wpv.1_Missense_Mutation_p.T93S|RRBP1_uc002wpw.1_Missense_Mutation_p.T93S|RRBP1_uc010gcl.1_Intron|RRBP1_uc010zrr.1_Missense_Mutation_p.T93S			Q9P2E9	RRBP1_HUMAN	SubName: Full=RRBP1 protein; Flags: Fragment;	93	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						AAGGAGGACAGTCACATTGGG	0.423													6	14					0	0	1	0	0		C	17640875	C	C	17640875	3	2	73	1	0	0	0	0	1	0	0	0	13703	1029	36	5	2751	5	RRBP1	20	17640875	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1280788	17640875	45384645	1249	48486											
C20orf26	26074	broad.mit.edu	37	chr20	20144799	20144799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagagcccgtccacttcCgccccatctacaggggagcc	8	6	10	17	2	1	2	0	1	1	1	3	3	3	3	6	2	3	0	6	2	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:20144799C>T	uc002wru.2	+	11	1208	c.1132C>T	c.(1132-1134)CGC>TGC	p.R378C	C20orf26_uc010gcw.1_Missense_Mutation_p.R332C|C20orf26_uc010zse.1_Missense_Mutation_p.R378C|C20orf26_uc010zsf.1_Missense_Mutation_p.R378C	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	378										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		CGTCCACTTCCGCCCCATCTA	0.493													33	61					0	0	1	0	0		T	20144799	T	T	20144799	3	4	73	1	0	0	0	0	1	0	0	0	2109	652	23	1	1170	1	C20orf26	20	20144799	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2503924	20144799	42880721	1250	48487											
RALGAPA2	57186	broad.mit.edu	37	chr20	20552182	20552182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttggcagaacgtcctggcGtctggtcatcatggcacaga	8	10	13	10	2	3	2	2	0	1	2	4	2	4	2	1	4	1	3	1	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:20552182G>A	uc002wrz.2	-	23	3219	c.3076C>T	c.(3076-3078)CGC>TGC	p.R1026C	RALGAPA2_uc010gcx.2_Missense_Mutation_p.R730C|RALGAPA2_uc010zsg.1_Missense_Mutation_p.R474C	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1026					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						ACGTCCTGGCGTCTGGTCATC	0.483													14	17					0	0	1	0	0		A	20552182	A	A	20552182	3	1	73	1	0	0	0	0	1	0	0	0	13039	1145	40	1	2613	1	RALGAPA2	20	20552182	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	407383	20552182	42473338	1251	48488											
CST2	1470	broad.mit.edu	37	chr20	23805952	23805952	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaagaagtaattcaccccGcccacgatctacacacatga	14	7	6	14	3	2	2	1	1	1	1	3	4	2	2	3	0	1	1	3	0	4	3	rs146039211	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:23805952G>A	uc002wtq.1	-	2	252	c.237C>T	c.(235-237)GGC>GGT	p.G79G		NM_001322	NP_001313	P09228	CYTT_HUMAN	cystatin SA precursor	79	Secondary area of contact.					extracellular region	cysteine-type endopeptidase inhibitor activity				0						AATTCACCCCGCCCACGATCT	0.542													17	125					0	0	1	0	0		A	23805952	A	A	23805952	2	1	73	1	0	0	0	0	0	0	0	1	3975	1074	38	1		1	CST2	20	23805952	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3253770	23805952	39219568	1252	48489											
ACSS1	84532	broad.mit.edu	37	chr20	24988531	24988531	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgatcttcctcaggagcCgccgcatgaccttcccagac	8	9	9	15	2	2	4	1	3	1	1	4	5	4	5	5	1	1	1	5	1	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:24988531C>T	uc002wub.2	-	14	2815	c.1937G>A	c.(1936-1938)CGG>CAG	p.R646Q	ACSS1_uc002wuc.2_Missense_Mutation_p.R644Q|ACSS1_uc010gdc.2_Missense_Mutation_p.R441Q|ACSS1_uc002wud.1_RNA|ACSS1_uc002wua.2_Missense_Mutation_p.R563Q	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	646					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CCTCAGGAGCCGCCGCATGAC	0.572													25	47					0	0	1	0	0		T	24988531	T	T	24988531	3	4	73	1	0	0	0	0	1	0	0	0	188	652	23	1	136	1	ACSS1	20	24988531	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1182579	24988531	38036989	1253	48490											
TPX2	22974	broad.mit.edu	37	chr20	30370194	30370194	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctcgagaaattgcaacaGtaagtcccactggcagtatc	13	8	10	10	1	0	1	0	0	0	1	3	3	1	1	1	1	3	5	1	1	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:30370194G>A	uc002wwp.1	+	11	1894	c.1196_splice	c.e11+1	p.Q399_splice	TPX2_uc010gdv.1_Splice_Site_p.Q435_splice	NM_012112	NP_036244	Q9ULW0	TPX2_HUMAN	TPX2, microtubule-associated protein homolog						activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2			Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)			AATTGCAACAGTAAGTCCCAC	0.478													32	50					0	0	1	0	0		A	30370194	A	A	30370194	5	1	73	1	0	0	0	0	0	0	1	0	16458	1043	36	4	1231	4	TPX2	20	30370194	Splice_Site	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5381663	30370194	32655326	1254	48491											
ZNF341	84905	broad.mit.edu	37	chr20	32345064	32345064	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgccgcccccatgaccagCgccaccgggggcacggtggc	5	2	14	20	5	0	1	0	1	0	0	0	1	0	1	7	4	1	1	7	4	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:32345064C>T	uc002wzy.2	+	6	872	c.852C>T	c.(850-852)AGC>AGT	p.S284S	ZNF341_uc002wzx.2_Silent_p.S284S|ZNF341_uc010geq.2_Silent_p.S194S|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	284					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CCATGACCAGCGCCACCGGGG	0.637													50	114					0	0	1	0	0		T	32345064	T	T	32345064	2	4	73	1	0	0	0	0	0	0	0	1	17882	767	27	1		1	ZNF341	20	32345064	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1974870	32345064	30680456	1255	48492											
ACSS2	55902	broad.mit.edu	37	chr20	33501910	33501911	+	Frame_Shift_Ins	INS	-	G	G																															ccccaaagatgccttctacaINSggggggaaaagcttgtgaac																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:33501910_33501911insG	uc002xbd.2	+	6	776_777	c.655_656insG	c.(655-657)AGGfs	p.R219fs	ACSS2_uc002xbc.2_Frame_Shift_Ins_p.R124fs|ACSS2_uc010zum.1_Intron|ACSS2_uc010gey.2_Frame_Shift_Ins_p.R219fs|ACSS2_uc002xbe.2_Intron|ACSS2_uc002xbf.2_Intron	NM_018677	NP_061147	Q9NR19	ACSA_HUMAN	acyl-CoA synthetase short-chain family member 2	219					ethanol oxidation|lipid biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	acetate-CoA ligase activity|ATP binding|protein binding				0					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TGCCTTCTACAGGGGGGAAAAG	0.545													20	22	---	---	---	---						.	G	33501911	G	G	33501910	7	5	73	1	0	1	1	0	0	0	0	0	189	179	7	0	677	0	ACSS2	20	33501910	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	1156846	33501910	29523610	1256	48493											
PROCR	10544	broad.mit.edu	37	chr20	33764236	33764236	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagaaacatatttccgcGgaaaacacgaaaggtatgat	16	8	10	7	3	0	2	0	1	0	1	1	4	1	3	1	2	3	2	1	2	6	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:33764236G>A	uc002xbt.2	+	3	772	c.588G>A	c.(586-588)GCG>GCA	p.A196A	EDEM2_uc010zuv.1_Intron|PROCR_uc010zuw.1_Silent_p.A233A	NM_006404	NP_006395	Q9UNN8	EPCR_HUMAN	endothelial protein C receptor precursor	196	Extracellular (Potential).				antigen processing and presentation|blood coagulation|immune response	integral to plasma membrane|MHC class I protein complex	receptor activity				0			BRCA - Breast invasive adenocarcinoma(18;0.0152)		Drotrecogin alfa(DB00055)	ATATTTCCGCGGAAAACACGA	0.557													26	67					0	0	1	0	0		A	33764236	A	A	33764236	2	1	73	1	0	0	0	0	0	0	0	1	12569	1103	39	1		1	PROCR	20	33764236	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	262326	33764236	29261284	1257	48494											
MMP24	10893	broad.mit.edu	37	chr20	33862184	33862184	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgtgactggatgggctgcaaCcagaaggaggtggagcggcg	9	5	19	8	3	0	2	0	1	0	1	0	5	0	5	1	6	3	2	1	6	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:33862184C>T	uc002xbu.2	+	9	1713	c.1710C>T	c.(1708-1710)AAC>AAT	p.N570N	EDEM2_uc010zuv.1_Intron	NM_006690	NP_006681	Q9Y5R2	MMP24_HUMAN	matrix metalloproteinase 24 preproprotein	570	Extracellular (Potential).				proteolysis	integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TGGGCTGCAACCAGAAGGAGG	0.617													35	58					0	0	1	0	0		T	33862184	T	T	33862184	2	4	73	1	0	0	0	0	0	0	0	1	9679	506	18	4		4	MMP24	20	33862184	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	97948	33862184	29163336	1258	48495											
CEP250	11190	broad.mit.edu	37	chr20	34067191	34067191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaagcggctctagaggtgCggctgcaggccgtggagcgt	8	6	18	9	4	1	2	0	0	1	2	1	3	1	3	1	5	4	3	1	5	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:34067191C>T	uc002xcm.2	+	19	2901	c.2230C>T	c.(2230-2232)CGG>TGG	p.R744W	CEP250_uc010zve.1_Missense_Mutation_p.R112W	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	744	Gln/Glu-rich.|Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			TCTAGAGGTGCGGCTGCAGGC	0.602													36	100					0	0	1	0	0		T	34067191	T	T	34067191	3	4	73	1	0	0	0	0	1	0	0	0	3255	759	27	1	2288	1	CEP250	20	34067191	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	205007	34067191	28958329	1259	48496											
DLGAP4	22839	broad.mit.edu	37	chr20	35060903	35060903	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaccaccaagaacaacacTactgagctgactgccccacc	16	4	5	16	0	0	3	0	2	0	1	0	3	0	3	5	0	6	1	5	0	6	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:35060903T>C	uc002xff.2	+	3	1218	c.783T>C	c.(781-783)ACT>ACC	p.T261T	DLGAP4_uc010zvp.1_Silent_p.T261T	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	261					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				AGAACAACACTACTGAGCTGA	0.622													5	62					0	0	1	0	0		C	35060903	C	C	35060903	2	2	73	1	0	0	0	0	0	0	0	1	4568	1509	53	3		3	DLGAP4	20	35060903	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	993712	35060903	27964617	1260	48497											
NDRG3	57446	broad.mit.edu	37	chr20	35293701	35293701	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcgatctccaggtctctGcgtctagaaaaacaaagcag	12	10	8	11	2	3	1	0	0	3	1	6	2	3	1	1	1	3	1	1	1	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:35293701G>A	uc002xfw.2	-	11	778	c.696C>T	c.(694-696)CGC>CGT	p.R232R	NDRG3_uc002xfx.2_Silent_p.R220R|NDRG3_uc010zvq.1_Silent_p.R137R|NDRG3_uc010zvr.1_Silent_p.R120R	NM_032013	NP_114402	Q9UGV2	NDRG3_HUMAN	N-myc downstream regulated gene 3 isoform a	232					cell differentiation|negative regulation of cell growth|spermatogenesis	cytoplasm				ovary(1)	1		Myeloproliferative disorder(115;0.00878)				CCAGGTCTCTGCGTCTAGAAA	0.383													62	95					0	0	1	0	0		A	35293701	A	A	35293701	2	1	73	1	0	0	0	0	0	0	0	1	10272	1306	46	2		2	NDRG3	20	35293701	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	232798	35293701	27731819	1261	48498											
RBL1	5933	broad.mit.edu	37	chr20	35689518	35689518	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacatactcaaaaatatttAtaagttggtcacttggtgca	14	14	7	6	0	2	0	2	0	0	0	2	0	2	0	0	2	3	3	0	2	7	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:35689518A>G	uc002xgi.2	-	9	1317	c.1238T>C	c.(1237-1239)ATA>ACA	p.I413T	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.I413T|RBL1_uc010gfv.1_RNA	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	413	Domain A.|Pocket; binds T and E1A.				cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				AAAAATATTTATAAGTTGGTC	0.333													14	36					0	0	1	0	0		G	35689518	G	G	35689518	3	3	73	1	0	0	0	0	1	0	0	0	13134	449	16	3	2033	3	RBL1	20	35689518	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	395817	35689518	27336002	1262	48499											
TGM2	7052	broad.mit.edu	37	chr20	36759566	36759566	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagccttccagggccacAgggagcgggttctgcaggga	7	6	17	11	1	1	0	0	0	1	0	2	2	2	2	3	4	4	3	3	4	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:36759566A>C	uc002xhr.2	-	12	1942	c.1842T>G	c.(1840-1842)CCT>CCG	p.P614P	TGM2_uc002xhq.2_Silent_p.P215P|TGM2_uc010zvx.1_Silent_p.P533P|TGM2_uc010zvy.1_Silent_p.P554P|TGM2_uc002xhs.1_Silent_p.P590P	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	614					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)	CCAGGGCCACAGGGAGCGGGT	0.627													17	37					0	0	1	0	0		C	36759566	C	C	36759566	2	2	73	1	0	0	0	0	0	0	0	1	15855	175	7	5		5	TGM2	20	36759566	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1070048	36759566	26265954	1263	48500											
TOP1	7150	broad.mit.edu	37	chr20	39726979	39726979	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcaaggaagagaaactggTactacagaatttattaaacc	18	8	9	6	0	0	2	0	0	0	2	0	5	0	3	1	2	5	2	1	2	9	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:39726979T>C	uc002xjl.2	+	11	1221	c.975_splice	c.e11+2	p.L325_splice	uc002xjn.1_RNA	NM_003286	NP_003277	P11387	TOP1_HUMAN	DNA topoisomerase I						DNA topological change|interspecies interaction between organisms|phosphorylation|programmed cell death|response to drug	chromosome|nucleolus|nucleoplasm	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity|protein binding			breast(3)|ovary(2)|central_nervous_system(1)|kidney(1)	7		Myeloproliferative disorder(115;0.00878)			Irinotecan(DB00762)|Lucanthone(DB04967)|Topotecan(DB01030)	GAGAAACTGGTACTACAGAAT	0.368			T	NUP98	AML*								25	47					0	0	1	0	0		C	39726979	C	C	39726979	5	2	73	1	0	0	0	0	0	0	1	0	16389	1652	57	3	1019	3	TOP1	20	39726979	Splice_Site	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2967413	39726979	23298541	1264	48501											
C20orf111	51526	broad.mit.edu	37	chr20	42826132	42826132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagttctcaaaggctcaaCgactgcccctgtgtgattag	11	10	10	10	1	2	2	2	1	1	1	3	3	2	2	2	1	2	2	2	1	4	2	rs2232289		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:42826132C>T	uc002xlk.2	-	4	576	c.439G>A	c.(439-441)GTT>ATT	p.V147I		NM_016470	NP_057554	Q9NX31	CT111_HUMAN	oxidative stress responsive 1	147											0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			AAAGGCTCAACGACTGCCCCT	0.517													40	73					0	0	1	0	0		T	42826132	T	T	42826132	3	4	73	1	0	0	0	0	1	0	0	0	2083	536	19	1	443	1	C20orf111	20	42826132	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3099153	42826132	20199388	1265	48502											
HNF4A	3172	broad.mit.edu	37	chr20	43034754	43034754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacagcctgggtgtcagcGccctgtgtgccatctgcggg	5	8	14	14	2	2	0	1	0	1	0	2	0	2	0	4	2	5	0	4	2	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:43034754G>A	uc002xma.2	+	2	261	c.172G>A	c.(172-174)GCC>ACC	p.A58T	HNF4A_uc010zwo.1_Silent_p.A48A|HNF4A_uc002xlt.2_Missense_Mutation_p.A36T|HNF4A_uc002xlu.2_Missense_Mutation_p.A36T|HNF4A_uc002xlv.2_Missense_Mutation_p.A36T|HNF4A_uc002xly.2_Missense_Mutation_p.A58T|HNF4A_uc002xlz.2_Missense_Mutation_p.A58T|HNF4A_uc010ggq.2_Missense_Mutation_p.A51T	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	58	Nuclear receptor.				blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			GGGTGTCAGCGCCCTGTGTGC	0.627													70	80					0	0	1	0	0		A	43034754	A	A	43034754	3	1	73	1	0	0	0	0	1	0	0	0	7269	1087	38	1	231	1	HNF4A	20	43034754	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	208622	43034754	19990766	1266	48503											
TTPAL	79183	broad.mit.edu	37	chr20	43108907	43108907	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcctccgagcccgcaagTttgattacgaccgggccctg	6	9	11	15	4	0	1	0	1	0	0	2	3	2	1	5	1	2	3	5	1	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:43108907T>C	uc002xmc.1	+	3	392	c.268T>C	c.(268-270)TTT>CTT	p.F90L	TTPAL_uc002xmd.1_Missense_Mutation_p.F90L|TTPAL_uc010ggr.1_5'UTR	NM_024331	NP_077307	Q9BTX7	TTPAL_HUMAN	tocopherol (alpha) transfer protein-like	90						intracellular	transporter activity			breast(1)	1						AGCCCGCAAGTTTGATTACGA	0.557													6	43					0	0	1	0	0		C	43108907	C	C	43108907	3	2	73	1	0	0	0	0	1	0	0	0	16763	1725	60	3	270	3	TTPAL	20	43108907	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	74153	43108907	19916613	1267	48504											
ADA	100	broad.mit.edu	37	chr20	43251662	43251662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcacctcttttactacttCggccgagcccacctccccgg	5	10	6	20	3	2	0	1	0	1	0	4	1	3	0	7	2	3	0	7	2	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:43251662C>T	uc002xmj.2	-	7	792	c.664G>A	c.(664-666)GAA>AAA	p.E222K	ADA_uc010ggt.2_RNA	NM_000022	NP_000013	P00813	ADA_HUMAN	adenosine deaminase	222					adenosine catabolic process|cell adhesion|hypoxanthine salvage|inosine biosynthetic process|negative regulation of adenosine receptor signaling pathway|purine nucleotide salvage|purine ribonucleoside monophosphate biosynthetic process|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation	cell junction|cytoplasmic membrane-bounded vesicle lumen|cytosol|external side of plasma membrane|lysosome	adenosine deaminase activity|protein binding|zinc ion binding			pancreas(2)|ovary(1)	3		all_lung(126;1.24e-07)|Lung NSC(126;1.94e-07)|Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)		Adenosine(DB00640)|Cladribine(DB00242)|Dipyridamole(DB00975)|Erythromycin(DB00199)|Fludarabine(DB01073)|Idoxuridine(DB00249)|Nelarabine(DB01280)|Pentostatin(DB00552)|Theophylline(DB00277)|Vidarabine(DB00194)	TTTACTACTTCGGCCGAGCCC	0.627									Adenosine_Deaminase_Deficiency				26	62					0	0	1	0	0		T	43251662	T	T	43251662	3	4	73	1	0	0	0	0	1	0	0	0	230	893	31	1	451	1	ADA	20	43251662	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	142755	43251662	19773858	1268	48505											
PABPC1L	80336	broad.mit.edu	37	chr20	43559190	43559190	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggccgtgacagagatgaaCgggcgcatcgtgggcaccaa	12	4	15	10	4	0	3	0	2	0	1	1	4	0	3	2	3	1	2	2	3	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:43559190C>T	uc010ggv.1	+	8	1144	c.1062C>T	c.(1060-1062)AAC>AAT	p.N354N	PABPC1L_uc010zwq.1_RNA|PABPC1L_uc002xmv.2_RNA|PABPC1L_uc002xmw.2_5'Flank|PABPC1L_uc002xmx.2_5'Flank	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	354	RRM 4.						nucleotide binding|RNA binding			ovary(1)	1						CAGAGATGAACGGGCGCATCG	0.577													73	133					0	0	1	0	0		T	43559190	T	T	43559190	2	4	73	1	0	0	0	0	0	0	0	1	11383	535	19	1		1	PABPC1L	20	43559190	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	307528	43559190	19466330	1269	48506											
KCNS1	3787	broad.mit.edu	37	chr20	43726483	43726483	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaagggcagcacagacacAatgtcgatgaggttgagcgg	13	6	15	7	2	0	4	0	2	0	2	1	5	0	4	0	3	2	3	0	3	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:43726483A>G	uc002xnc.2	-	4	1327	c.930T>C	c.(928-930)ATT>ATC	p.I310I	KCNS1_uc002xnd.2_Silent_p.I310I	NM_002251	NP_002242	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel	310	Helical; Name=Segment S3; (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity|protein binding				0		Myeloproliferative disorder(115;0.0122)				GCACAGACACAATGTCGATGA	0.627													6	14					0	0	1	0	0		G	43726483	G	G	43726483	2	3	73	1	0	0	0	0	0	0	0	1	8104	126	5	3		3	KCNS1	20	43726483	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	167293	43726483	19299037	1270	48507											
ZNF335	63925	broad.mit.edu	37	chr20	44596190	44596190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcatcgtcctcctcctctgGtccctcttcctcttggctct	2	16	5	18	1	5	0	1	0	4	0	11	0	10	0	5	2	0	1	5	2	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:44596190G>A	uc002xqw.2	-	6	1021	c.898C>T	c.(898-900)CCA>TCA	p.P300S	ZNF335_uc010zxk.1_Missense_Mutation_p.P145S|ZNF335_uc002xqx.1_Missense_Mutation_p.P268S|ZNF335_uc002xqy.2_Missense_Mutation_p.P145S	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	300					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				TCCTCCTCTGGTCCCTCTTCC	0.572													35	55					0	0	1	0	0		A	44596190	A	A	44596190	3	1	73	1	0	0	0	0	1	0	0	0	17877	1261	44	4	3222	4	ZNF335	20	44596190	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	869707	44596190	18429330	1271	48508											
ZMYND8	23613	broad.mit.edu	37	chr20	45865224	45865224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccagggtgatggtggacGtggatgggctctgtgtgatc	6	11	17	7	1	2	2	1	2	1	0	3	4	2	4	1	5	0	1	1	5	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:45865224G>A	uc002xta.1	-	16	2896	c.2642C>T	c.(2641-2643)ACG>ATG	p.T881M	ZMYND8_uc010ghq.1_Missense_Mutation_p.T512M|ZMYND8_uc010ghr.1_Missense_Mutation_p.T810M|ZMYND8_uc002xst.1_Missense_Mutation_p.T763M|ZMYND8_uc002xsu.1_Missense_Mutation_p.T754M|ZMYND8_uc002xsv.1_Missense_Mutation_p.T809M|ZMYND8_uc002xsw.1_Missense_Mutation_p.T587M|ZMYND8_uc002xsx.1_Missense_Mutation_p.T587M|ZMYND8_uc002xsy.1_Missense_Mutation_p.T810M|ZMYND8_uc002xsz.1_Missense_Mutation_p.T772M|ZMYND8_uc010zxy.1_Missense_Mutation_p.T908M|ZMYND8_uc002xtb.1_Missense_Mutation_p.T855M|ZMYND8_uc002xss.2_Missense_Mutation_p.T881M|ZMYND8_uc010zxz.1_Missense_Mutation_p.T749M|ZMYND8_uc002xtc.1_Missense_Mutation_p.T855M|ZMYND8_uc002xtd.1_Missense_Mutation_p.T830M|ZMYND8_uc002xte.1_Missense_Mutation_p.T835M|ZMYND8_uc010zya.1_Missense_Mutation_p.T881M|ZMYND8_uc002xtf.1_Missense_Mutation_p.T901M|ZMYND8_uc002xsr.1_Translation_Start_Site	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	881							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			GATGGTGGACGTGGATGGGCT	0.597													23	48					0	0	1	0	0		A	45865224	A	A	45865224	3	1	73	1	0	0	0	0	1	0	0	0	17736	1145	40	1	1034	1	ZMYND8	20	45865224	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1269034	45865224	17160296	1272	48509											
KCNG1	3755	broad.mit.edu	37	chr20	49626482	49626482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccgcagcttgcccgcgcGcaggaaggtcaggatagtgc	8	5	15	13	4	1	0	1	0	0	0	1	2	1	2	2	3	4	3	2	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:49626482G>A	uc002xwa.3	-	2	689	c.394C>T	c.(394-396)CGC>TGC	p.R132C	KCNG1_uc002xwb.2_Missense_Mutation_p.R132C	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	132	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						TTGCCCGCGCGCAGGAAGGTC	0.647													26	35					0	0	1	0	0		A	49626482	A	A	49626482	3	1	73	1	0	0	0	0	1	0	0	0	8043	1087	38	1	1155	1	KCNG1	20	49626482	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3761258	49626482	13399038	1273	48510											
ZNF217	7764	broad.mit.edu	37	chr20	52199232	52199232	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtagctcggaatggaacaAcagcggtccctttcattgac	10	10	11	10	2	1	1	1	1	0	0	3	3	2	3	1	3	4	2	1	3	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:52199232A>G	uc002xwq.3	-	1	405	c.134T>C	c.(133-135)GTT>GCT	p.V45A	ZNF217_uc010gij.1_Missense_Mutation_p.V37A	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	45					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			GAATGGAACAACAGCGGTCCC	0.478													31	64					0	0	1	0	0		G	52199232	G	G	52199232	3	3	73	1	0	0	0	0	1	0	0	0	17797	43	2	3	3028	3	ZNF217	20	52199232	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2572750	52199232	10826288	1274	48511											
CSTF1	1477	broad.mit.edu	37	chr20	54978601	54978601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggactatgtgttgctgcccGacgagaggacgatcagtctt	9	10	13	9	3	2	1	1	0	1	1	2	6	2	3	1	2	2	2	1	2	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:54978601G>A	uc002xxl.1	+	6	1314	c.1114G>A	c.(1114-1116)GAC>AAC	p.D372N	CSTF1_uc002xxm.1_Missense_Mutation_p.D372N|CSTF1_uc002xxn.1_Missense_Mutation_p.D372N|CSTF1_uc002xxo.1_Missense_Mutation_p.D315N	NM_001033521	NP_001028693	Q05048	CSTF1_HUMAN	cleavage stimulation factor subunit 1	372					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding			central_nervous_system(1)	1			Colorectal(105;0.202)			GTTGCTGCCCGACGAGAGGAC	0.572													17	45					0	0	1	0	0		A	54978601	A	A	54978601	3	1	73	1	0	0	0	0	1	0	0	0	3986	1058	37	1	1132	1	CSTF1	20	54978601	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2779369	54978601	8046919	1275	48512											
ZNF831	128611	broad.mit.edu	37	chr20	57766849	57766849	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccctacttgccaagaacCtggatgtgaggaccgaagct	10	8	11	12	1	0	2	0	1	0	1	0	5	0	4	5	2	5	1	5	2	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:57766849C>T	uc002yan.2	+	1	775	c.775C>T	c.(775-777)CTG>TTG	p.L259L		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	259						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					TGCCAAGAACCTGGATGTGAG	0.662													18	48					0	0	1	0	0		T	57766849	T	T	57766849	2	4	73	1	0	0	0	0	0	0	0	1	18210	680	24	4		4	ZNF831	20	57766849	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2788248	57766849	5258671	1276	48513											
HRH3	11255	broad.mit.edu	37	chr20	60791216	60791216	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggagccagaaggaggttTcgtaccagtagtcagggacg	12	6	15	8	2	1	1	1	0	0	1	2	4	1	4	2	4	2	3	2	4	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:60791216T>G	uc002ycf.2	-	3	1481	c.1184A>C	c.(1183-1185)GAA>GCA	p.E395A	HRH3_uc002ycg.2_Missense_Mutation_p.E315A|HRH3_uc002ych.2_Intron|HRH3_uc002yci.2_Missense_Mutation_p.E395A	NM_007232	NP_009163	Q9Y5N1	HRH3_HUMAN	histamine receptor H3	395	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|neurotransmitter secretion	integral to plasma membrane	histamine receptor activity				0	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;7.08e-07)		Histamine Phosphate(DB00667)	GAAGGAGGTTTCGTACCAGTA	0.622													7	16					0	0	1	0	0		G	60791216	G	G	60791216	3	3	73	1	0	0	0	0	1	0	0	0	7373	1783	62	5	157	5	HRH3	20	60791216	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	3024367	60791216	2234304	1277	48514											
HRH3	11255	broad.mit.edu	37	chr20	60794884	60794884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgcgttgcccagcaccGtggccacgatgagcagcgcc	7	4	13	17	5	0	1	0	1	0	0	0	2	0	1	5	1	5	3	5	1	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:60794884G>A	uc002ycf.2	-	1	440	c.143C>T	c.(142-144)ACG>ATG	p.T48M	HRH3_uc002ycg.2_Missense_Mutation_p.T48M|HRH3_uc002ych.2_Missense_Mutation_p.T48M|HRH3_uc002yci.2_Missense_Mutation_p.T48M	NM_007232	NP_009163	Q9Y5N1	HRH3_HUMAN	histamine receptor H3	48	Helical; Name=1; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|neurotransmitter secretion	integral to plasma membrane	histamine receptor activity				0	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;7.08e-07)		Histamine Phosphate(DB00667)	GCCCAGCACCGTGGCCACGAT	0.522													11	15					0	0	1	0	0		A	60794884	A	A	60794884	3	1	73	1	0	0	0	0	1	0	0	0	7373	1145	40	1	1206	1	HRH3	20	60794884	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3668	60794884	2230636	1278	48515											
LAMA5	3911	broad.mit.edu	37	chr20	60887363	60887363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggccatggaaagtcatggCgcgccccacctgcggggagg	7	5	17	12	3	1	0	1	0	0	0	1	2	1	2	4	6	1	0	4	6	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:60887363C>T	uc002ycq.2	-	69	9437	c.9370G>A	c.(9370-9372)GCC>ACC	p.A3124T		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3124	Laminin G-like 3.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAAGTCATGGCGCGCCCCACC	0.692													4	10					0	0	1	0	0		T	60887363	T	T	60887363	3	4	73	1	0	0	0	0	1	0	0	0	8625	768	27	1	1765	1	LAMA5	20	60887363	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	92479	60887363	2138157	1279	48516											
LAMA5	3911	broad.mit.edu	37	chr20	60904862	60904862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaccggcccttgggcacacGcacggtcacagtgagctcgc	7	5	12	17	4	1	1	1	1	0	0	2	1	1	1	3	3	1	3	3	3	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:60904862G>A	uc002ycq.2	-	32	4157	c.4090C>T	c.(4090-4092)CGT>TGT	p.R1364C		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	1364	Domain IV 1 (domain IV B).				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTGGGCACACGCACGGTCACA	0.622													9	10					0	0	1	0	0		A	60904862	A	A	60904862	3	1	73	1	0	0	0	0	1	0	0	0	8625	1087	38	1	7193	1	LAMA5	20	60904862	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	17499	60904862	2120658	1280	48517											
LAMA5	3911	broad.mit.edu	37	chr20	60927304	60927304	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctccccggcccacctctccGttctccaggggcacgatgcg	4	7	10	20	4	2	0	0	0	2	0	5	1	3	0	7	3	1	2	7	3	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:60927304G>A	uc002ycq.2	-	4	748	c.681C>T	c.(679-681)AAC>AAT	p.N227N		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	227	Laminin N-terminal.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ccacctctccGTTCTCCAGGG	0.328													16	11					0	0	1	0	0		A	60927304	A	A	60927304	2	1	73	1	0	0	0	0	0	0	0	1	8625	1136	40	1		1	LAMA5	20	60927304	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	22442	60927304	2098216	1281	48518											
YTHDF1	54915	broad.mit.edu	37	chr20	61834233	61834233	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcagaattaggctggacGtttccaggagagttgctatc	9	10	15	7	1	0	2	0	0	0	2	2	4	1	3	1	5	1	5	1	5	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:61834233G>A	uc002yeh.2	-	4	1353	c.1059C>T	c.(1057-1059)AAC>AAT	p.N353N	YTHDF1_uc011aaq.1_Silent_p.N303N	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	353										ovary(2)	2						TAGGCTGGACGTTTCCAGGAG	0.592													37	64					0	0	1	0	0		A	61834233	A	A	61834233	2	1	73	1	0	0	0	0	0	0	0	1	17524	1136	40	1		1	YTHDF1	20	61834233	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	906929	61834233	1191287	1282	48519											
PTK6	5753	broad.mit.edu	37	chr20	62163960	62163960	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccacggacaccacggcgtAcagcgccaggatgtgtttgt	8	7	12	14	4	0	0	0	0	0	0	0	2	0	2	4	3	2	2	4	3	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:62163960A>G	uc002yfg.2	-	5	791	c.751T>C	c.(751-753)TAC>CAC	p.Y251H	PTK6_uc011aay.1_Missense_Mutation_p.Y150H|PTK6_uc011aaz.1_Missense_Mutation_p.Y13H	NM_005975	NP_005966	Q13882	PTK6_HUMAN	PTK6 protein tyrosine kinase 6	251	Protein kinase.					cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|kidney(1)	2	all_cancers(38;2.51e-11)		Epithelial(9;1.5e-08)|all cancers(9;8.67e-08)|BRCA - Breast invasive adenocarcinoma(10;6.43e-06)			ACCACGGCGTACAGCGCCAGG	0.657													16	36					0	0	1	0	0		G	62163960	G	G	62163960	3	3	73	1	0	0	0	0	1	0	0	0	12787	391	14	3	620	3	PTK6	20	62163960	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	329727	62163960	861560	1283	48520											
ZNF512B	57473	broad.mit.edu	37	chr20	62597930	62597930	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacacccacaggtttgccaaTagtgacaggtttgctcactc	10	10	9	12	0	1	1	1	1	0	0	2	2	1	1	2	2	2	3	2	2	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr20:62597930T>C	uc002yhl.1	-	5	652	c.598A>G	c.(598-600)ATT>GTT	p.I200V		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	200					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					GGTTTGCCAATAGTGACAGGT	0.622													59	127					0	0	1	0	0		C	62597930	C	C	62597930	3	2	73	1	0	0	0	0	1	0	0	0	17982	1406	49	3	2132	3	ZNF512B	20	62597930	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	433970	62597930	427590	1284	48521											
ADAMTS1	9510	broad.mit.edu	37	chr21	28213404	28213404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggttggaaagcattgacgCcatcatgtgggaatcctggt	10	10	13	8	1	1	1	1	1	0	0	2	3	2	3	2	4	1	2	2	4	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:28213404C>T	uc002ymf.2	-	4	1746	c.1291G>A	c.(1291-1293)GCG>ACG	p.A431T		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	431	Peptidase M12B.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		AGCATTGACGCCATCATGTGG	0.483													39	69					0	0	1	0	0		T	28213404	T	T	28213404	3	4	73	1	0	0	0	0	1	0	0	0	255	739	26	2	1636	2	ADAMTS1	21	28213404	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08		28213404	19916491	1285	48522											
KRTAP23-1	337963	broad.mit.edu	37	chr21	31720883	31720883	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagcacaggtagccctcacaGgaatgggaggagaagtttcc	12	7	13	9	0	1	1	1	0	0	1	2	4	2	3	2	4	2	3	2	4	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:31720883G>A	uc002yny.1	-	1	42	c.42C>T	c.(40-42)TCC>TCT	p.S14S		NM_181624	NP_853655	A1A580	KR231_HUMAN	keratin associated protein 23-1	14						intermediate filament					0						AGCCCTCACAGGAATGGGAGG	0.552													23	70					0	0	1	0	0		A	31720883	A	A	31720883	2	1	73	1	0	0	0	0	0	0	0	1	8557	987	35	4		4	KRTAP23-1	21	31720883	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3507479	31720883	16409012	1286	48523											
TIAM1	7074	broad.mit.edu	37	chr21	32513685	32513685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctccgcatcggtcagggCgaacagctccctgagcagaa	9	6	12	14	3	2	2	1	1	1	1	5	3	3	2	2	2	3	4	2	2	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:32513685C>T	uc002yow.1	-	22	4085	c.3613G>A	c.(3613-3615)GCC>ACC	p.A1205T	TIAM1_uc011adk.1_Missense_Mutation_p.A1205T|TIAM1_uc011adl.1_Missense_Mutation_p.A1145T	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1205	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TCGGTCAGGGCGAACAGCTCC	0.612													33	72					0	0	1	0	0		T	32513685	T	T	32513685	3	4	73	1	0	0	0	0	1	0	0	0	15915	768	27	1	1194	1	TIAM1	21	32513685	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	792802	32513685	15616210	1287	48524											
SFRS15	57466	broad.mit.edu	37	chr21	33074095	33074095	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtagacagtttacctgttgGccttgagttgtctgaaacag	10	13	11	7	0	1	3	0	2	1	1	1	3	1	3	2	1	2	4	2	1	3	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:33074095G>A	uc002ypd.2	-	6	1020	c.594C>T	c.(592-594)GGC>GGT	p.G198G	SFRS15_uc002ype.2_Silent_p.G198G|SFRS15_uc010glu.2_Silent_p.G183G|SFRS15_uc002ypf.1_5'UTR|SFRS15_uc002ypg.2_Silent_p.G198G	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	198						nucleus	nucleotide binding|RNA binding				0						TTACCTGTTGGCCTTGAGTTG	0.453													6	21					0	0	1	0	0		A	33074095	A	A	33074095	2	1	73	1	0	0	0	0	0	0	0	1	14196	1190	42	2		2	SFRS15	21	33074095	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	560410	33074095	15055800	1288	48525											
TCP10L	140290	broad.mit.edu	37	chr21	33951127	33951127	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggtgaaatttttccaaaAgcaggttccaatgcctaaaa	16	10	8	7	0	0	2	0	1	0	1	2	2	2	2	3	2	2	2	3	2	6	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:33951127A>T	uc002ypw.3	-	4	491	c.375T>A	c.(373-375)GCT>GCA	p.A125A		NM_144659	NP_653260	Q9NV44	CU077_HUMAN	T-complex 10A-2	Error:Variant_position_missing_in_Q9NV44_after_alignment											0						TTTTTCCAAAAGCAGGTTCCA	0.373													21	105					0	0	1	0	0		T	33951127	T	T	33951127	2	4	73	1	0	0	0	0	0	0	0	1	15736	59	3	5		5	TCP10L	21	33951127	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	877032	33951127	14178768	1289	48526											
SON	6651	broad.mit.edu	37	chr21	34922824	34922824	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagtgcctgagttgccaggGccccctgcgacagcagtgcc	6	6	13	16	1	0	1	0	1	0	0	0	2	0	1	6	1	5	2	6	1	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:34922824G>C	uc002yse.1	+	3	1336	c.1287G>C	c.(1285-1287)GGG>GGC	p.G429G	SON_uc002ysb.1_Silent_p.G429G|SON_uc002ysc.2_Silent_p.G429G|SON_uc002ysd.2_5'UTR|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	429					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						AGTTGCCAGGGCCCCCTGCGA	0.647													30	47					0	0	1	0	0		C	34922824	C	C	34922824	2	2	73	1	0	0	0	0	0	0	0	1	14951	1190	42	5		5	SON	21	34922824	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	971697	34922824	13207071	1290	48527											
MORC3	23515	broad.mit.edu	37	chr21	37709238	37709238	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaacagtgataaatgaccAtatatgcttgacattcaccg	16	10	6	9	1	1	3	1	3	0	0	1	3	1	3	2	0	2	1	2	0	6	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:37709238A>G	uc002yvi.2	+	3	255	c.179A>G	c.(178-180)CAT>CGT	p.H60R		NM_015358	NP_056173	Q14149	MORC3_HUMAN	MORC family CW-type zinc finger 3	60					cell aging|maintenance of protein location in nucleus|negative regulation of fibroblast proliferation|peptidyl-serine phosphorylation|protein stabilization	aggresome|intermediate filament cytoskeleton|PML body	ATP binding|zinc ion binding			ovary(2)	2						ATAAATGACCATATATGCTTG	0.328													28	65					0	0	1	0	0		G	37709238	G	G	37709238	3	3	73	1	0	0	0	0	1	0	0	0	9721	217	8	3	189	3	MORC3	21	37709238	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2786414	37709238	10420657	1291	48528											
BRWD1	54014	broad.mit.edu	37	chr21	40570880	40570880	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattcagagtcttctgagTcactcagaatcttggttttt	9	16	8	8	0	6	4	3	1	3	3	6	4	6	4	0	1	0	1	0	1	1	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:40570880T>A	uc002yxk.1	-	40	5601	c.5462A>T	c.(5461-5463)GAC>GTC	p.D1821V	BRWD1_uc010goc.1_Missense_Mutation_p.D464V|BRWD1_uc002yxl.2_Missense_Mutation_p.D1821V	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1821					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				GTCTTCTGAGTCACTCAGAAT	0.378													63	95					0	0	1	0	0		A	40570880	A	A	40570880	3	1	73	1	0	0	0	0	1	0	0	0	1528	1667	58	5	1751	5	BRWD1	21	40570880	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2861642	40570880	7559015	1292	48529											
BACE2	25825	broad.mit.edu	37	chr21	42629207	42629207	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagggcttctacgtcatcttCgacagagcccagaagagggt	10	8	13	10	2	3	3	1	0	2	3	4	5	3	3	1	2	2	1	1	2	2	3	rs146415207		TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:42629207C>T	uc002yyw.2	+	8	1720	c.1257C>T	c.(1255-1257)TTC>TTT	p.F419F	BACE2_uc002yyx.2_Silent_p.F369F|BACE2_uc002yyy.2_Intron|BACE2_uc010goo.2_Intron	NM_012105	NP_036237	Q9Y5Z0	BACE2_HUMAN	beta-site APP-cleaving enzyme 2 isoform A	419	Extracellular (Potential).				membrane protein ectodomain proteolysis|negative regulation of amyloid precursor protein biosynthetic process|peptide hormone processing	cell surface|endoplasmic reticulum|endosome|Golgi apparatus|integral to membrane	aspartic-type endopeptidase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0251)				ACGTCATCTTCGACAGAGCCC	0.557													11	29					0	0	1	0	0		T	42629207	T	T	42629207	2	4	73	1	0	0	0	0	0	0	0	1	1283	883	31	1		1	BACE2	21	42629207	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2058327	42629207	5500688	1293	48530											
PKNOX1	5316	broad.mit.edu	37	chr21	44448885	44448885	+	Frame_Shift_Del	DEL	A	-	-																															cagagacccccaaaacaaagAaaaaaactgctcagaaccgg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:44448885delA	uc002zcq.1	+	10	1188	c.1000delA	c.(1000-1002)AAAfs	p.K334fs	PKNOX1_uc002zcp.1_Frame_Shift_Del_p.K334fs|PKNOX1_uc011aex.1_Frame_Shift_Del_p.K217fs	NM_004571	NP_004562	P55347	PKNX1_HUMAN	PBX/knotted 1 homeobox 1	334							sequence-specific DNA binding			large_intestine(2)	2						CAAAACAAAGAAAAAAACTGC	0.488													65	144	---	---	---	---						.	-	44448885	-	-	44448885	7	5	73	1	0	1	0	1	0	0	0	0	12001	247	9	0	1034	0	PKNOX1	21	44448885	Frame_Shift_Del	DEL	A	TCGA-BR-8372-01A-11D-2340-08	1819678	44448885	3681010	1294	48531											
RRP1	8568	broad.mit.edu	37	chr21	45217542	45217542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accagaacctgaagttcatcGaccccttctgcagaattgct	11	10	7	13	1	2	3	1	1	1	2	3	4	2	3	4	0	3	3	4	0	3	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:45217542G>A	uc002zds.2	+	7	676	c.583G>A	c.(583-585)GAC>AAC	p.D195N	RRP1_uc011aez.1_Missense_Mutation_p.D195N|RRP1_uc010gpk.1_Missense_Mutation_p.D45N|RRP1_uc010gpl.1_Missense_Mutation_p.D93N|RRP1_uc010gpm.1_Missense_Mutation_p.D62N	NM_003683	NP_003674	P56182	RRP1_HUMAN	ribosomal RNA processing 1 homolog	195					rRNA processing	nucleolus|preribosome, small subunit precursor					0				COAD - Colon adenocarcinoma(84;0.00753)|Colorectal(79;0.0157)|STAD - Stomach adenocarcinoma(101;0.171)		GAAGTTCATCGACCCCTTCTG	0.612													34	58					0	0	1	0	0		A	45217542	A	A	45217542	3	1	73	1	0	0	0	0	1	0	0	0	13710	1058	37	1	609	1	RRP1	21	45217542	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	768657	45217542	2912353	1295	48532											
SLC19A1	6573	broad.mit.edu	37	chr21	46950869	46950869	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcttcacgaagcccgcggcGaaggacgtgatggcgcctga	9	6	14	12	6	2	2	1	2	1	0	2	5	2	3	2	3	1	0	2	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:46950869G>A	uc002zhl.1	-	4	1085	c.966C>T	c.(964-966)TTC>TTT	p.F322F	SLC19A1_uc010gpy.1_Silent_p.F322F|SLC19A1_uc011aft.1_Silent_p.F282F|SLC19A1_uc002zhm.1_Silent_p.F322F|SLC19A1_uc010gpz.1_Silent_p.F201F	NM_194255	NP_919231	P41440	S19A1_HUMAN	solute carrier family 19 member 1	322	Helical; (Probable).				folic acid metabolic process	integral to plasma membrane|membrane fraction	folic acid binding|folic acid transporter activity|methotrexate transporter activity|reduced folate carrier activity				0				Colorectal(79;0.0569)|READ - Rectum adenocarcinoma(84;0.172)		AGCCCGCGGCGAAGGACGTGA	0.701													6	9					0	0	1	0	0		A	46950869	A	A	46950869	2	1	73	1	0	0	0	0	0	0	0	1	14453	1049	37	1		1	SLC19A1	21	46950869	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	1733327	46950869	1179026	1296	48533											
PRMT2	3275	broad.mit.edu	37	chr21	48063467	48063467	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagaagagcctgctgagtgCagtgaggccggtctcctgca	8	7	16	10	1	1	4	0	2	1	2	2	5	1	4	3	3	4	3	3	3	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr21:48063467C>T	uc002zjx.2	+	4	374	c.60C>T	c.(58-60)TGC>TGT	p.C20C	PRMT2_uc002zjw.2_Silent_p.C20C|PRMT2_uc002zjy.2_Silent_p.C20C|PRMT2_uc010gqm.2_Silent_p.C20C|PRMT2_uc011aga.1_Silent_p.C20C|PRMT2_uc011agb.1_Silent_p.C20C|PRMT2_uc011agc.1_Silent_p.C20C|PRMT2_uc002zjz.1_5'UTR	NM_206962	NP_996845	P55345	ANM2_HUMAN	HMT1 hnRNP methyltransferase-like 1	20					developmental cell growth|induction of apoptosis|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of androgen receptor signaling pathway	cytosol|nucleus	androgen receptor binding|estrogen receptor binding|histone-arginine N-methyltransferase activity|peroxisome proliferator activated receptor binding|progesterone receptor binding|protein homodimerization activity|retinoic acid receptor binding|signal transducer activity|thyroid hormone receptor binding|transcription coactivator activity			ovary(1)	1	Breast(49;0.247)	Lung NSC(3;0.245)		Epithelial(3;1.03e-07)|OV - Ovarian serous cystadenocarcinoma(3;4.68e-07)|all cancers(3;7.48e-07)|Colorectal(79;0.167)|Lung(125;0.203)|LUSC - Lung squamous cell carcinoma(216;0.23)|READ - Rectum adenocarcinoma(84;0.248)		CTGCTGAGTGCAGTGAGGCCG	0.537													9	80					0	0	1	0	0		T	48063467	T	T	48063467	2	4	73	1	0	0	0	0	0	0	0	1	12559	718	25	2		2	PRMT2	21	48063467	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1112598	48063467	66428	1297	48534											
SLC25A1	6576	broad.mit.edu	37	chr22	19163996	19163996	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgtgttccggtatttgtgCgcctccaggccctatggggg	4	11	14	12	3	0	0	0	0	0	0	2	0	2	0	4	4	1	2	4	4	2	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:19163996C>T	uc002zoz.2	-	8	874	c.759G>A	c.(757-759)GCG>GCA	p.A253A	SLC25A1_uc002zoy.2_Silent_p.A150A|SLC25A1_uc002zpa.2_Silent_p.A201A	NM_005984	NP_005975	P53007	TXTP_HUMAN	solute carrier family 25 (mitochondrial carrier;	253	Solcar 3.				gluconeogenesis|long-chain fatty-acyl-CoA biosynthetic process|mitochondrial citrate transport|triglyceride biosynthetic process	integral to membrane|mitochondrial inner membrane	citrate transmembrane transporter activity|protein binding				0	Colorectal(54;0.0993)	all_lung(157;9.94e-09)		Lung(27;0.124)		GGTATTTGTGCGCCTCCAGGC	0.657													26	42					0	0	1	0	0		T	19163996	T	T	19163996	2	4	73	1	0	0	0	0	0	0	0	1	14496	755	27	1		1	SLC25A1	22	19163996	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08		19163996	32140570	1298	48535											
HIC2	23119	broad.mit.edu	37	chr22	21800189	21800191	+	In_Frame_Del	DEL	GAA	-	-																															agcctccggcactccactcgGaagaaggagtggggcaagaa																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:21800189_21800191delGAA	uc002zur.3	+	3	1235_1237	c.1005_1007delGAA	c.(1003-1008)CGGAAG>CGG	p.K337del	HIC2_uc002zus.3_In_Frame_Del_p.K337del	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	337					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				ACTCCACTCGGAAGAAGGAGTGG	0.675													14	20	---	---	---	---						.	-	21800191	-	-	21800189	7	5	73	1	0	1	0	1	0	0	0	0	7118	1161	41	0	1011	0	HIC2	22	21800189	In_Frame_Del	DEL	GAA	TCGA-BR-8372-01A-11D-2340-08	2636193	21800189	29504377	1299	48536											
CCDC116	164592	broad.mit.edu	37	chr22	21988331	21988331	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagctgcccaagaagccActggtcccagaaatgcggcc	10	5	12	14	1	0	2	0	0	0	2	1	2	1	2	4	2	5	2	4	2	3	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:21988331A>T	uc002zve.2	+	3	186	c.93A>T	c.(91-93)CCA>CCT	p.P31P	CCDC116_uc011aih.1_Silent_p.P31P	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	31										ovary(1)|skin(1)	2	Colorectal(54;0.105)					CCAAGAAGCCACTGGTCCCAG	0.627													9	70					0	0	1	0	0		T	21988331	T	T	21988331	2	4	73	1	0	0	0	0	0	0	0	1	2756	146	6	5		5	CCDC116	22	21988331	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	188142	21988331	29316235	1300	48537											
MMP11	4320	broad.mit.edu	37	chr22	24122628	24122628	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaggtatggagcgatgtgAcgccactcacctttactgag	11	10	11	9	2	1	2	1	2	0	0	1	4	1	3	2	2	2	1	2	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:24122628A>C	uc002zxx.2	+	3	443	c.421A>C	c.(421-423)ACG>CCG	p.T141P	MMP11_uc002zxy.2_RNA|MMP11_uc002zxz.2_5'Flank	NM_005940	NP_005931	P24347	MMP11_HUMAN	matrix metalloproteinase 11 preproprotein	141					collagen catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|large_intestine(1)	3		Medulloblastoma(6;9.86e-08)|all_neural(6;0.000318)				GAGCGATGTGACGCCACTCAC	0.622													15	31					0	0	1	0	0		C	24122628	C	C	24122628	3	2	73	1	0	0	0	0	1	0	0	0	9668	275	10	5	431	5	MMP11	22	24122628	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2134297	24122628	27181938	1301	48538											
CABIN1	23523	broad.mit.edu	37	chr22	24468323	24468323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcattgactgcagcatggCtgtgcaggaggaggccaagg	9	7	17	8	0	1	1	1	1	0	0	1	3	1	3	1	6	3	4	1	6	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:24468323C>T	uc002zzi.1	+	18	2622	c.2495C>T	c.(2494-2496)GCT>GTT	p.A832V	CABIN1_uc002zzj.1_Missense_Mutation_p.A782V|CABIN1_uc002zzl.1_Missense_Mutation_p.A832V	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	832					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						TGCAGCATGGCTGTGCAGGAG	0.582													11	34					0	0	1	0	0		T	24468323	T	T	24468323	3	4	73	1	0	0	0	0	1	0	0	0	2531	797	28	2	2561	2	CABIN1	22	24468323	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	345695	24468323	26836243	1302	48539											
MYO18B	84700	broad.mit.edu	37	chr22	26423136	26423136	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgatgcgggctgtccagaccTtggaaaggagccgcttgttt	7	10	14	10	3	0	1	0	0	0	1	1	4	1	3	3	3	2	3	3	3	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:26423136T>G	uc003abz.1	+	43	7446	c.7196T>G	c.(7195-7197)CTT>CGT	p.L2399R	MYO18B_uc003aca.1_Missense_Mutation_p.L2280R|MYO18B_uc010guy.1_Missense_Mutation_p.L2281R|MYO18B_uc010guz.1_Missense_Mutation_p.L2279R|MYO18B_uc011aka.1_Missense_Mutation_p.L1553R|MYO18B_uc011akb.1_Missense_Mutation_p.L1912R|MYO18B_uc010gva.1_Missense_Mutation_p.L382R|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2399						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TGTCCAGACCTTGGAAAGGAG	0.602													17	74					0	0	1	0	0		G	26423136	G	G	26423136	3	3	73	1	0	0	0	0	1	0	0	0	10084	1609	56	5	7362	5	MYO18B	22	26423136	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	1954813	26423136	24881430	1303	48540											
HPS4	89781	broad.mit.edu	37	chr22	26854542	26854542	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaagccaggctgctgtggTactgcaaagggggagagggt	9	7	19	6	0	0	2	0	1	0	1	0	3	0	2	1	5	4	4	1	5	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:26854542T>C	uc003acl.2	-	12	2374	c.1715A>G	c.(1714-1716)TAC>TGC	p.Y572C	HPS4_uc003aci.2_Missense_Mutation_p.Y567C|HPS4_uc003acj.2_Missense_Mutation_p.Y436C|HPS4_uc003ack.2_Missense_Mutation_p.Y363C|HPS4_uc003acn.2_Missense_Mutation_p.Y418C|HPS4_uc003ach.2_Missense_Mutation_p.Y307C	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	572					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						GCTGCTGTGGTACTGCAAAGG	0.532									Hermansky-Pudlak_syndrome				8	24					0	0	1	0	0		C	26854542	C	C	26854542	3	2	73	1	0	0	0	0	1	0	0	0	7357	1652	57	3	423	3	HPS4	22	26854542	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	431406	26854542	24450024	1304	48541											
ZNRF3	84133	broad.mit.edu	37	chr22	29444421	29444421	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccggtttcacaggaagtgCgtggacccctggctgctgca	7	8	13	13	2	1	0	1	0	0	0	1	2	1	2	3	4	3	4	3	4	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:29444421C>T	uc003aeg.2	+	7	822	c.657C>T	c.(655-657)TGC>TGT	p.C219C	ZNRF3_uc003aeh.1_Silent_p.C219C	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	319	RING-type; atypical.|Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						ACAGGAAGTGCGTGGACCCCT	0.607													12	37					0	0	1	0	0		T	29444421	T	T	29444421	2	4	73	1	0	0	0	0	0	0	0	1	18238	776	27	1		1	ZNRF3	22	29444421	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2589879	29444421	21860145	1305	48542											
RFPL1	5988	broad.mit.edu	37	chr22	29838103	29838103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccagtccatcctggggagGccaaataagcccccactgca	10	6	9	16	0	0	0	0	0	0	0	3	1	3	1	6	3	2	1	6	3	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:29838103G>A	uc003afn.2	+	2	1155	c.946G>A	c.(946-948)GCC>ACC	p.A316T	RFPL1S_uc003afm.1_RNA	NM_021026	NP_066306	O75677	RFPL1_HUMAN	ret finger protein-like 1	316							zinc ion binding				0						TCCTGGGGAGGCCAAATAAGC	0.453													21	51					0	0	1	0	0		A	29838103	A	A	29838103	3	1	73	1	0	0	0	0	1	0	0	0	13278	1203	42	2	952	2	RFPL1	22	29838103	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	393682	29838103	21466463	1306	48543											
NEFH	4744	broad.mit.edu	37	chr22	29879408	29879408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccaaggtgaacacagacGctatgcgctcagcgcaggag	12	4	13	12	3	1	2	1	1	0	1	1	3	1	3	1	2	4	3	1	2	3	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:29879408G>A	uc003afo.2	+	2	999	c.928G>A	c.(928-930)GCT>ACT	p.A310T		NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	310	Coil 2B.|Rod.				cell death|nervous system development	neurofilament					0						GAACACAGACGCTATGCGCTC	0.592													52	102					0	0	1	0	0		A	29879408	A	A	29879408	3	1	73	1	0	0	0	0	1	0	0	0	10333	1087	38	1	934	1	NEFH	22	29879408	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	41305	29879408	21425158	1307	48544											
MTMR3	8897	broad.mit.edu	37	chr22	30403132	30403132	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatggagctgtcattgcccGctgtggacagccagaggtta	9	9	13	10	1	1	1	1	0	0	1	1	3	1	3	2	3	3	3	2	3	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:30403132G>A	uc003agv.3	+	10	1029	c.701G>A	c.(700-702)CGC>CAC	p.R234H	MTMR3_uc003agu.3_Missense_Mutation_p.R234H|MTMR3_uc003agw.3_Missense_Mutation_p.R234H	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	234	Myotubularin phosphatase.				phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			GTCATTGCCCGCTGTGGACAG	0.507													15	37					0	0	1	0	0		A	30403132	A	A	30403132	3	1	73	1	0	0	0	0	1	0	0	0	9963	1087	38	1	731	1	MTMR3	22	30403132	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	523724	30403132	20901434	1308	48545											
SFI1	9814	broad.mit.edu	37	chr22	32010792	32010792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcaacactgcccactcagCgaggaagcagccgcgacgcc	11	2	11	17	4	1	0	1	0	0	0	1	3	1	1	3	1	6	2	3	1	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:32010792C>T	uc003ale.2	+	28	3407	c.3014C>T	c.(3013-3015)GCG>GTG	p.A1005V	SFI1_uc003alf.2_Missense_Mutation_p.A974V|SFI1_uc003alg.2_Missense_Mutation_p.A923V|SFI1_uc011alp.1_Missense_Mutation_p.A911V|SFI1_uc011alq.1_Missense_Mutation_p.A950V|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_RNA|SFI1_uc003ali.2_Missense_Mutation_p.A97V|SFI1_uc003alj.2_Nonsense_Mutation_p.R77*	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	1005					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						GCCCACTCAGCGAGGAAGCAG	0.632													6	18					0	0	1	0	0		T	32010792	T	T	32010792	3	4	73	1	0	0	0	0	1	0	0	0	14181	768	27	1	3120	1	SFI1	22	32010792	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1607660	32010792	19293774	1309	48546											
SLC5A1	6523	broad.mit.edu	37	chr22	32498181	32498181	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccatttctttcatcaccaTcgtggtcatctccctcctca	6	14	4	17	2	6	0	4	0	2	0	9	0	7	0	4	1	0	0	4	1	0	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:32498181T>C	uc003amc.2	+	13	1854	c.1622T>C	c.(1621-1623)ATC>ACC	p.I541T	SLC5A1_uc011alz.1_Missense_Mutation_p.I414T	NM_000343	NP_000334	P13866	SC5A1_HUMAN	solute carrier family 5 (sodium/glucose	541	Helical; (Potential).				carbohydrate metabolic process	integral to plasma membrane	glucose:sodium symporter activity|protein binding			skin(1)	1						TTCATCACCATCGTGGTCATC	0.488													10	123					0	0	1	0	0		C	32498181	C	C	32498181	3	2	73	1	0	0	0	0	1	0	0	0	14686	1435	50	3	1672	3	SLC5A1	22	32498181	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	487389	32498181	18806385	1310	48547											
SLC5A4	6527	broad.mit.edu	37	chr22	32620257	32620257	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattactcatcactcacatgTacatcaggaatgggttttgt	11	14	7	9	0	4	0	4	0	0	0	4	1	4	1	0	2	2	2	0	2	3	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:32620257T>C	uc003ami.2	-	13	1664	c.1662A>G	c.(1660-1662)GTA>GTG	p.V554V		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	554	Cytoplasmic (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						CACTCACATGTACATCAGGAA	0.294													5	38					0	0	1	0	0		C	32620257	C	C	32620257	2	2	73	1	0	0	0	0	0	0	0	1	14692	1625	57	3		3	SLC5A4	22	32620257	Silent	SNP	T	TCGA-BR-8372-01A-11D-2340-08	122076	32620257	18684309	1311	48548											
C22orf28	51493	broad.mit.edu	37	chr22	32792083	32792083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacgggttaagaaggtcatgGaagagcggttgacccaggca	12	6	16	7	2	1	3	1	1	0	2	1	5	1	4	1	5	1	3	1	5	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:32792083G>A	uc003amm.2	-	8	1099	c.968C>T	c.(967-969)TCC>TTC	p.S323F	C22orf28_uc011ama.1_RNA	NM_014306	NP_055121	Q9Y3I0	RTCB_HUMAN	hypothetical protein LOC51493	323					cell-matrix adhesion|substrate adhesion-dependent cell spreading|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|tRNA-splicing ligase complex	ATP binding|metal ion binding|RNA ligase (ATP) activity|vinculin binding				0						GAAGGTCATGGAAGAGCGGTT	0.483													16	270					0	0	1	0	0		A	32792083	A	A	32792083	3	1	73	1	0	0	0	0	1	0	0	0	2143	1174	41	4	569	4	C22orf28	22	32792083	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	171826	32792083	18512483	1312	48549											
MICALL1	85377	broad.mit.edu	37	chr22	38323791	38323791	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggttggagacaggagcccGgtgccttcccctggaagctc	6	9	14	12	1	0	1	0	0	0	1	2	4	1	3	4	5	3	2	4	5	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:38323791G>T	uc003aui.2	+	9	1923	c.1839G>T	c.(1837-1839)CCG>CCT	p.P613P		NM_033386	NP_203744	Q8N3F8	MILK1_HUMAN	molecule interacting with Rab13	613	Pro-rich.					cytoplasm|cytoskeleton	protein binding|zinc ion binding			breast(1)	1	Melanoma(58;0.045)					ACAGGAGCCCGGTGCCTTCCC	0.642													37	45					4.65686e-17	5.12501e-17	1	1	0		T	38323791	T	T	38323791	2	4	73	1	0	0	0	0	0	0	0	1	9591	1103	39	5		5	MICALL1	22	38323791	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	5531708	38323791	12980775	1313	48550											
GTPBP1	9567	broad.mit.edu	37	chr22	39122294	39122294	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggtttcggggacaacacTgagaggcctgatcaagctga	11	8	14	8	1	1	3	1	3	0	1	2	5	1	4	1	4	2	2	1	4	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:39122294T>C	uc003awg.2	+	8	1404	c.1250T>C	c.(1249-1251)CTG>CCG	p.L417P		NM_004286	NP_004277	O00178	GTPB1_HUMAN	GTP binding protein 1	417					immune response|positive regulation of mRNA catabolic process|signal transduction	cytoplasmic exosome (RNase complex)|cytosol	GTP binding|GTPase activity			ovary(1)	1	Melanoma(58;0.04)					GGGACAACACTGAGAGGCCTG	0.577													15	18					0	0	1	0	0		C	39122294	C	C	39122294	3	2	73	1	0	0	0	0	1	0	0	0	6894	1580	55	3	1280	3	GTPBP1	22	39122294	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	798503	39122294	12182272	1314	48551											
CACNA1I	8911	broad.mit.edu	37	chr22	40068244	40068244	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtactgcaactatatgttcaCcactgtctttgtgctggagg	8	14	10	9	0	2	0	1	0	1	0	2	1	2	1	1	2	4	4	1	2	4	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:40068244C>A	uc003ayc.2	+	27	4580	c.4580C>A	c.(4579-4581)ACC>AAC	p.T1527N	CACNA1I_uc003ayd.2_Missense_Mutation_p.T1492N|CACNA1I_uc003aye.2_Missense_Mutation_p.T1442N|CACNA1I_uc003ayf.2_Missense_Mutation_p.T1407N	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1527	Helical; Name=S2 of repeat IV; (Potential).|IV.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	TATATGTTCACCACTGTCTTT	0.517													50	124					6.27289e-28	7.04189e-28	1	1	0		A	40068244	A	A	40068244	3	1	73	1	0	0	0	0	1	0	0	0	2549	507	18	5	4686	5	CACNA1I	22	40068244	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	945950	40068244	11236322	1315	48552											
GRAP2	9402	broad.mit.edu	37	chr22	40366928	40366928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagtgcggtgggcccgggCgctgtatgactttgaggccc	4	8	18	11	4	0	2	0	2	0	0	0	3	0	2	2	4	1	2	2	4	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:40366928C>T	uc003ayh.1	+	8	1096	c.833C>T	c.(832-834)GCG>GTG	p.A278V	GRAP2_uc003ayi.2_RNA|GRAP2_uc011aom.1_Missense_Mutation_p.A252V|GRAP2_uc011aon.1_Missense_Mutation_p.A212V|GRAP2_uc010gya.1_Missense_Mutation_p.A278V|GRAP2_uc011aoo.1_Missense_Mutation_p.A206V|GRAP2_uc011aop.1_Missense_Mutation_p.A238V|GRAP2_uc011aoq.1_Missense_Mutation_p.A165V|GRAP2_uc003ayj.1_Missense_Mutation_p.A278V	NM_004810	NP_004801	O75791	GRAP2_HUMAN	GRB2-related adaptor protein 2	278	SH3 2.				cell-cell signaling|Ras protein signal transduction|T cell costimulation|T cell receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						TGGGCCCGGGCGCTGTATGAC	0.667													15	41					0	0	1	0	0		T	40366928	T	T	40366928	3	4	73	1	0	0	0	0	1	0	0	0	6770	768	27	1	859	1	GRAP2	22	40366928	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	298684	40366928	10937638	1316	48553											
TNRC6B	23112	broad.mit.edu	37	chr22	40681709	40681709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagaggtctgcacacacccGtgcagccactaaattcttct	10	9	8	14	2	3	1	0	0	3	1	3	2	3	1	2	1	3	2	2	1	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:40681709G>A	uc011aor.1	+	12	3854	c.3643G>A	c.(3643-3645)GTG>ATG	p.V1215M	TNRC6B_uc003aym.2_Missense_Mutation_p.V411M|TNRC6B_uc003ayn.3_Missense_Mutation_p.V1105M|TNRC6B_uc003ayo.2_Missense_Mutation_p.V962M	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1215	Gln-rich.				gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						GCACACACCCGTGCAGCCACT	0.473													71	105					0	0	1	0	0		A	40681709	A	A	40681709	3	1	73	1	0	0	0	0	1	0	0	0	16366	1145	40	1	3810	1	TNRC6B	22	40681709	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	314781	40681709	10622857	1317	48554											
EP300	2033	broad.mit.edu	37	chr22	41566520	41566520	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccaagcgactgcaggaatGgtacaaaaaaatgcttgaca	16	6	10	9	1	0	1	0	1	0	0	0	3	0	2	1	2	4	3	1	2	6	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:41566520G>T	uc003azl.3	+	27	4792	c.4397G>T	c.(4396-4398)TGG>TTG	p.W1466L		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1466					apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CTGCAGGAATGGTACAAAAAA	0.478			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				19	67					6.94344e-10	7.3901e-10	1	1	0		T	41566520	T	T	41566520	3	4	73	1	0	0	0	0	1	0	0	0	5156	1357	47	5	4503	5	EP300	22	41566520	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	884811	41566520	9738046	1318	48555											
TTLL12	23170	broad.mit.edu	37	chr22	43576915	43576915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgcgcgtgctccacacGgcacgtccaggcgtggtcga	5	6	15	15	7	0	0	0	0	0	0	3	1	2	0	2	4	1	2	2	4	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:43576915G>A	uc003bdq.2	-	3	411	c.379C>T	c.(379-381)CGT>TGT	p.R127C	TTLL12_uc003bdr.1_Missense_Mutation_p.R127C	NM_015140	NP_055955	Q14166	TTL12_HUMAN	tubulin tyrosine ligase-like family, member 12	127					protein modification process		tubulin-tyrosine ligase activity			central_nervous_system(1)	1		Ovarian(80;0.221)|Glioma(61;0.222)				TGCTCCACACGGCACGTCCAG	0.662													15	27					0	0	1	0	0		A	43576915	A	A	43576915	3	1	73	1	0	0	0	0	1	0	0	0	16751	1116	39	1	1603	1	TTLL12	22	43576915	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	2010395	43576915	7727651	1319	48556											
PKDREJ	10343	broad.mit.edu	37	chr22	46657010	46657010	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggaaagactgatcgatgAggtgttttcggagattgact	12	11	14	4	2	0	5	0	3	0	2	2	9	0	6	0	3	0	1	0	3	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:46657010A>T	uc003bhh.2	-	1	2210	c.2210T>A	c.(2209-2211)CTC>CAC	p.L737H		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	737	Extracellular (Potential).|REJ.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		CTGATCGATGAGGTGTTTTCG	0.398													36	104					0	0	1	0	0		T	46657010	T	T	46657010	3	4	73	1	0	0	0	0	1	0	0	0	11989	304	11	5	4555	5	PKDREJ	22	46657010	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3080095	46657010	4647556	1320	48557											
BRD1	23774	broad.mit.edu	37	chr22	50217867	50217867	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accatcctttgagcttgagcGtaggtcagcgtttctcgcgt	6	13	11	11	4	2	2	1	2	1	0	4	2	3	2	2	1	3	3	2	1	1	4	rs149523607	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:50217867G>A	uc003biv.2	-	1	586	c.99C>T	c.(97-99)TAC>TAT	p.Y33Y	BRD1_uc011arf.1_Translation_Start_Site|BRD1_uc011arg.1_Silent_p.Y33Y|BRD1_uc011arh.1_Silent_p.Y33Y|BRD1_uc003biu.3_Silent_p.Y33Y	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	33					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GAGCTTGAGCGTAGGTCAGCG	0.493													39	81					0	0	1	0	0		A	50217867	A	A	50217867	2	1	73	1	0	0	0	0	0	0	0	1	1504	1140	40	1		1	BRD1	22	50217867	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3560857	50217867	1086699	1321	48558											
CRELD2	79174	broad.mit.edu	37	chr22	50313464	50313464	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctagaggcgcaggaggagcAcctggaggcctggtggctgc	7	5	19	10	1	0	1	0	0	0	1	0	4	0	4	2	7	2	4	2	7	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:50313464A>G	uc003bja.2	+	3	434	c.299A>G	c.(298-300)CAC>CGC	p.H100R	ALG12_uc003biy.2_5'Flank|CRELD2_uc003biz.3_Missense_Mutation_p.H100R|CRELD2_uc010haj.2_Missense_Mutation_p.H100R|CRELD2_uc010hal.2_Missense_Mutation_p.H100R|CRELD2_uc010hak.2_Missense_Mutation_p.H100R|CRELD2_uc010ham.2_Missense_Mutation_p.H100R	NM_024324	NP_077300	Q6UXH1	CREL2_HUMAN	cysteine-rich with EGF-like domains 2 isoform b	100						endoplasmic reticulum|extracellular region	calcium ion binding				0		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.198)|LUAD - Lung adenocarcinoma(64;0.247)		CAGGAGGAGCACCTGGAGGCC	0.443													3	18					0	0	1	0	0		G	50313464	G	G	50313464	3	3	73	1	0	0	0	0	1	0	0	0	3870	159	6	3	309	3	CRELD2	22	50313464	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	95597	50313464	991102	1322	48559											
IL17REL	400935	broad.mit.edu	37	chr22	50439591	50439591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcatggcagtggaggacGtcagggcctccaggactgac	9	6	15	11	1	1	1	1	1	0	0	2	4	2	4	2	5	1	2	2	5	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:50439591G>A	uc003bje.1	-	4	261	c.29C>T	c.(28-30)ACG>ATG	p.T10M		NM_001001694	NP_001001694	Q6ZVW7	I17EL_HUMAN	interleukin 17 receptor E-like	10										pancreas(1)	1		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		AGTGGAGGACGTCAGGGCCTC	0.642													3	7					0	0	1	0	0		A	50439591	A	A	50439591	3	1	73	1	0	0	0	0	1	0	0	0	7660	1145	40	1	1025	1	IL17REL	22	50439591	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	126127	50439591	864975	1323	48560											
SAPS2	9701	broad.mit.edu	37	chr22	50877166	50877166	+	Frame_Shift_Del	DEL	G	-	-																															gcccccgggaagaaggaagcGccccctgtggagggtgactc																								rs4824131	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:50877166delG	uc003blb.1	+	20	2525	c.2103delG	c.(2101-2103)GCGfs	p.A701fs	SAPS2_uc003bky.1_Frame_Shift_Del_p.A674fs|SAPS2_uc003bkz.1_Frame_Shift_Del_p.A674fs|SAPS2_uc003blc.2_Frame_Shift_Del_p.A701fs|SAPS2_uc003bla.1_Frame_Shift_Del_p.A675fs|SAPS2_uc003bld.1_Frame_Shift_Del_p.A233fs	NM_014678	NP_055493	O75170	PP6R2_HUMAN	SAPS domain family, member 2	701						cytoplasm|intracellular membrane-bounded organelle	protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.222)		AGAAGGAAGCGCCCCCTGTGG	0.672													5	7	---	---	---	---						.	-	50877166	-	-	50877166	7	5	73	1	0	1	0	1	0	0	0	0	13862	1074	38	0	2084	0	SAPS2	22	50877166	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	437575	50877166	427400	1324	48561											
CHKB	1120	broad.mit.edu	37	chr22	51017908	51017908	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggaggatggaccacagacCccagaagaaatgggatgcca	14	4	13	10	0	0	3	0	0	0	3	0	7	0	7	4	4	1	0	4	4	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chr22:51017908C>A	uc003bms.2	-	10	1278	c.1060G>T	c.(1060-1062)GGT>TGT	p.G354C	CPT1B_uc003bmk.3_5'Flank|CPT1B_uc003bml.2_5'Flank|CPT1B_uc003bmm.2_5'Flank|CPT1B_uc003bmo.2_5'Flank|CPT1B_uc011asa.1_5'Flank|CPT1B_uc003bmn.2_5'Flank|CPT1B_uc011asb.1_5'Flank|CHKB-CPT1B_uc003bmp.2_5'UTR|CHKB-CPT1B_uc003bmt.1_Missense_Mutation_p.G145C|CHKB-CPT1B_uc003bmu.2_Missense_Mutation_p.G233C|CHKB_uc003bmv.2_Missense_Mutation_p.G354C	NM_005198	NP_005189	Q9Y259	CHKB_HUMAN	choline kinase beta	354					phosphatidylethanolamine biosynthetic process		ATP binding|choline kinase activity|ethanolamine kinase activity				0		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		all cancers(3;4.04e-77)|OV - Ovarian serous cystadenocarcinoma(4;5.79e-74)|Epithelial(4;6.17e-70)|GBM - Glioblastoma multiforme(4;5.68e-08)|LUAD - Lung adenocarcinoma(64;0.0016)|Lung(4;0.00942)|BRCA - Breast invasive adenocarcinoma(115;0.205)	Choline(DB00122)	GACCACAGACCCCAGAAGAAA	0.567													4	17					0.150653	0.150861	1	1	0		A	51017908	A	A	51017908	3	1	73	1	0	0	0	0	1	0	0	0	3351	623	22	5	135	5	CHKB	22	51017908	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	140742	51017908	286658	1325	48562											
PPP2R3B	28227	broad.mit.edu	37	chrX	306359	306359	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaatgctcgtacgagaagaAttcggtcagctggttgatgt	11	11	13	6	3	1	3	1	1	0	2	3	5	1	3	0	2	3	4	0	2	4	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:306359A>T	uc004cpg.2	-	7	1129	c.928T>A	c.(928-930)TTC>ATC	p.F310I	PPP2R3B_uc011mha.1_Missense_Mutation_p.F149I	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	310					cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TACGAGAAGAATTCGGTCAGC	0.627													24	62					0	0	1	0	0		T	306359	T	T	306359	3	4	73	1	0	0	0	0	1	0	0	0	12411	101	4	5	827	5	PPP2R3B	23	306359	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08		306359	154964201	1326	48563											
ASMTL	8623	broad.mit.edu	37	chrX	1546792	1546792	+	Frame_Shift_Del	DEL	G	-	-																															ctctgagtgggctccgagccGcccccctccacgtcactgag																								rs147098886	by1000genomes	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:1546792delG	uc004cpx.1	-	7	843	c.732delC	c.(730-732)GGCfs	p.G244fs	ASMTL_uc011mhe.1_Frame_Shift_Del_p.G168fs|ASMTL_uc004cpy.1_Frame_Shift_Del_p.G228fs|ASMTL_uc011mhf.1_Frame_Shift_Del_p.G186fs	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	244					melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCTCCGAGCCGCCCCCCTCCA	0.697													32	73	---	---	---	---						.	-	1546792	-	-	1546792	7	5	73	1	0	1	0	1	0	0	0	0	1047	1074	38	0	1161	0	ASMTL	23	1546792	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	1240433	1546792	153723768	1327	48564											
ARSD	414	broad.mit.edu	37	chrX	2825315	2825315	+	Frame_Shift_Del	DEL	G	-	-																															tctcacagtcctggcattcaGggggtgccatccccatcctc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:2825315delG	uc004cqy.2	-	10	1855	c.1779delC	c.(1777-1779)CCCfs	p.P593fs	ARSD_uc004cqz.1_RNA	NM_001669	NP_001660	P51689	ARSD_HUMAN	arylsulfatase D isoform a precursor	593						lysosome	arylsulfatase activity|metal ion binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CTGGCATTCAGGGGGTGCCAT	0.537													14	5	---	---	---	---						.	-	2825315	-	-	2825315	7	5	73	1	0	1	0	1	0	0	0	0	990	987	35	0	6	0	ARSD	23	2825315	Frame_Shift_Del	DEL	G	TCGA-BR-8372-01A-11D-2340-08	1278523	2825315	152445245	1328	48565											
HDHD1A	8226	broad.mit.edu	37	chrX	6995384	6995384	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggaaaacaagctgaagaaCtccttgtggcggcttgtctt	10	11	12	8	1	1	2	0	1	1	1	2	3	2	3	1	3	3	2	1	3	5	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:6995384C>T	uc004crv.2	-	3	464	c.387G>A	c.(385-387)GAG>GAA	p.E129E	HDHD1A_uc011mhm.1_Silent_p.E152E|HDHD1A_uc011mhn.1_Silent_p.E86E|HDHD1A_uc010ndl.2_Intron|HDHD1A_uc011mho.1_Silent_p.E129E	NM_012080	NP_036212	Q08623	HDHD1_HUMAN	haloacid dehalogenase-like hydrolase domain	129					nucleotide metabolic process		metal ion binding|phosphatase activity				0		Colorectal(8;0.0114)|Medulloblastoma(8;0.184)				AGCTGAAGAACTCCTTGTGGC	0.552													10	6					0	0	1	0	0		T	6995384	T	T	6995384	2	4	73	1	0	0	0	0	0	0	0	1	7038	564	20	4		4	HDHD1A	23	6995384	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	4170069	6995384	148275176	1329	48566											
STS	412	broad.mit.edu	37	chrX	7252076	7252076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttgaaggaaaaagccaaCgctccgatcatgagtttctc	12	10	9	10	2	2	2	1	2	1	0	4	4	3	3	2	1	3	3	2	1	4	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:7252076C>T	uc004cry.3	+	9	1551	c.1306C>T	c.(1306-1308)CGC>TGC	p.R436C		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	436	Lumenal.				female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)	AAAAAGCCAACGCTCCGATCA	0.493									Ichthyosis				11	36					0	0	1	0	0		T	7252076	T	T	7252076	3	4	73	1	0	0	0	0	1	0	0	0	15357	536	19	1	1340	1	STS	23	7252076	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	256692	7252076	148018484	1330	48567											
KAL1	3730	broad.mit.edu	37	chrX	8502392	8502392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgggagctccggcgtcCggaacgtcttgatggtggcc	5	8	18	10	4	1	1	0	1	1	0	3	3	3	3	3	6	2	1	3	6	1	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:8502392C>T	uc004csf.2	-	13	2102	c.1952G>A	c.(1951-1953)CGG>CAG	p.R651Q		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	651	Fibronectin type-III 4.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						CTCCGGCGTCCGGAACGTCTT	0.572													11	10					0	0	1	0	0		T	8502392	T	T	8502392	3	4	73	1	0	0	0	0	1	0	0	0	7990	652	23	1	98	1	KAL1	23	8502392	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1250316	8502392	146768168	1331	48568											
ASB11	140456	broad.mit.edu	37	chrX	15306176	15306176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggggtgtccagccactggCcatggtcgacactggctcct	5	9	14	13	1	0	0	0	0	0	0	3	1	2	0	4	5	1	1	4	5	0	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:15306176C>T	uc004cwp.1	-	6	674	c.674G>A	c.(673-675)GGC>GAC	p.G225D	ASB11_uc004cwo.1_Missense_Mutation_p.G204D|ASB11_uc010nes.1_RNA|ASB11_uc010net.1_Missense_Mutation_p.G208D	NM_080873	NP_543149	Q8WXH4	ASB11_HUMAN	ankyrin repeat and SOCS box-containing protein	225					intracellular signal transduction					breast(2)|skin(1)	3	Hepatocellular(33;0.183)					CAGCCACTGGCCATGGTCGAC	0.463													33	14					0	0	1	0	0		T	15306176	T	T	15306176	3	4	73	1	0	0	0	0	1	0	0	0	1016	739	26	2	305	2	ASB11	23	15306176	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	6803784	15306176	139964384	1332	48569											
CDKL5	6792	broad.mit.edu	37	chrX	18622715	18622715	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgagggaacgctggactcAcgtcgaaccacaaccagaca	15	4	10	12	3	1	2	1	1	0	1	2	5	1	4	2	2	3	1	2	2	4	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:18622715A>G	uc004cym.2	+	12	1924	c.1671A>G	c.(1669-1671)TCA>TCG	p.S557S	CDKL5_uc004cyn.2_Silent_p.S557S	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	557					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					CGCTGGACTCACGTCGAACCA	0.517													34	58					0	0	1	0	0		G	18622715	G	G	18622715	2	3	73	1	0	0	0	0	0	0	0	1	3160	146	6	3		3	CDKL5	23	18622715	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	3316539	18622715	136647845	1333	48570											
CNKSR2	22866	broad.mit.edu	37	chrX	21609255	21609256	+	Frame_Shift_Ins	INS	-	A	A																															gttacttttcacagaaatggINSaaaaaatattggtttgtcct																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:21609255_21609256insA	uc004czx.1	+	15	1809_1810	c.1773_1774insA	c.(1771-1776)TGGAAAfs	p.W591fs	CNKSR2_uc004czw.2_Frame_Shift_Ins_p.W591fs|CNKSR2_uc011mjn.1_Frame_Shift_Ins_p.W542fs|CNKSR2_uc011mjo.1_Frame_Shift_Ins_p.W561fs|CNKSR2_uc004czy.2_Frame_Shift_Ins_p.W183fs	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	591_592	PH.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						CACAGAAATGGAAAAAATATTG	0.376													42	20	---	---	---	---						.	A	21609256	A	A	21609255	7	5	73	1	0	1	1	0	0	0	0	0	3610	1183	41	0	1831	0	CNKSR2	23	21609255	Frame_Shift_Ins	INS	-	TCGA-BR-8372-01A-11D-2340-08	2986540	21609255	133661305	1334	48571											
PTCHD1	139411	broad.mit.edu	37	chrX	23410726	23410726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaacatgttaaagagagaaCtgcagcagtctatgcagact	15	8	9	9	0	1	3	0	0	1	3	1	4	1	3	1	0	5	4	1	0	5	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:23410726C>T	uc004dal.3	+	3	1099	c.1091C>T	c.(1090-1092)ACT>ATT	p.T364I		NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	364	SSD.				cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						AAAGAGAGAACTGCAGCAGTC	0.463													25	24					0	0	1	0	0		T	23410726	T	T	23410726	3	4	73	1	0	0	0	0	1	0	0	0	12754	565	20	4	1101	4	PTCHD1	23	23410726	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	1801471	23410726	131859834	1335	48572											
BCOR	54880	broad.mit.edu	37	chrX	39933822	39933822	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatgggtgatgccaaggaCgatgggatgtggggaccgac	9	7	17	8	2	1	1	1	1	0	0	1	6	1	4	2	5	1	0	2	5	1	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:39933822C>T	uc004den.3	-	4	1069	c.777G>A	c.(775-777)TCG>TCA	p.S259S	BCOR_uc004dep.3_Silent_p.S259S|BCOR_uc004deo.3_Silent_p.S259S|BCOR_uc004dem.3_Silent_p.S259S|BCOR_uc004deq.3_Silent_p.S259S	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	259					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						ATGCCAAGGACGATGGGATGT	0.622													9	2					0	0	1	0	0		T	39933822	T	T	39933822	2	4	73	1	0	0	0	0	0	0	0	1	1387	523	19	1		1	BCOR	23	39933822	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	16523096	39933822	115336738	1336	48573											
MED14	9282	broad.mit.edu	37	chrX	40547715	40547715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggggcttactttaataagCgaattgcatggctgaagcca	12	10	11	8	1	0	1	0	1	0	0	0	2	0	1	1	3	4	3	1	3	5	5			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:40547715C>T	uc004dex.3	-	16	2188	c.2048G>A	c.(2047-2049)CGC>CAC	p.R683H		NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	683	Interaction with SREBF1.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						CTTTAATAAGCGAATTGCATG	0.428													19	7					0	0	1	0	0		T	40547715	T	T	40547715	3	4	73	1	0	0	0	0	1	0	0	0	9450	768	27	1	2380	1	MED14	23	40547715	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	613893	40547715	114722845	1337	48574											
SLC38A5	92745	broad.mit.edu	37	chrX	48320459	48320459	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttggctggggagtcccacGagagcttcactctccattgc	6	10	11	14	1	2	1	1	0	1	1	4	3	3	2	3	3	2	2	3	3	0	3	rs142925547	byFrequency	TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:48320459G>A	uc010nid.2	-	11	883	c.705C>T	c.(703-705)CTC>CTT	p.L235L	SLC38A5_uc004djk.3_Silent_p.L184L	NM_033518	NP_277053	Q8WUX1	S38A5_HUMAN	solute carrier family 38, member 5	235	Extracellular (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane				ovary(3)	3						GGAGTCCCACGAGAGCTTCAC	0.537													17	14					0	0	1	0	0		A	48320459	A	A	48320459	2	1	73	1	0	0	0	0	0	0	0	1	14632	1045	37	1		1	SLC38A5	23	48320459	Silent	SNP	G	TCGA-BR-8372-01A-11D-2340-08	7772744	48320459	106950101	1338	48575											
KCND1	3750	broad.mit.edu	37	chrX	48826019	48826019	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcgttcgccacagggctgCtcccttgaggacctgcgtgc	6	8	13	14	3	0	1	0	1	0	0	2	2	1	2	3	2	4	3	3	2	1	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:48826019C>T	uc004dlx.1	-	1	2233	c.660G>A	c.(658-660)GAG>GAA	p.E220E	KCND1_uc004dlw.1_5'Flank	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	220						voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						CACAGGGCTGCTCCCTTGAGG	0.577													11	6					0	0	1	0	0		T	48826019	T	T	48826019	2	4	73	1	0	0	0	0	0	0	0	1	8034	796	28	2		2	KCND1	23	48826019	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	505560	48826019	106444541	1339	48576											
MAGED1	9500	broad.mit.edu	37	chrX	51639798	51639798	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggccaaacccagtaatCtggcagaacccagtgatctg	12	9	9	11	0	2	2	0	1	2	1	2	2	2	2	3	2	2	2	3	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:51639798C>A	uc004dpm.2	+	4	1142	c.1047C>A	c.(1045-1047)ATC>ATA	p.I349I	MAGED1_uc004dpn.2_Silent_p.I405I|MAGED1_uc004dpo.2_Silent_p.I349I	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	349	6.|22 X 6 AA tandem repeats of W-[PQ]-X-P-X- X.|Pro-rich.				apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					ACCCAGTAATCTGGCAGAACC	0.612										Multiple Myeloma(10;0.10)			4	23					0.150653	0.150861	1	1	0		A	51639798	A	A	51639798	2	1	73	1	0	0	0	0	0	0	0	1	9201	903	32	5		5	MAGED1	23	51639798	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2813779	51639798	103630762	1340	48577											
AR	367	broad.mit.edu	37	chrX	66765883	66765883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctctgctagacgacagcGcaggcaagagcactgaagat	12	7	12	10	2	1	4	0	1	1	3	2	5	1	4	0	1	3	5	0	1	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:66765883G>A	uc004dwu.1	+	1	2010	c.895G>A	c.(895-897)GCA>ACA	p.A299T	AR_uc011mpd.1_Missense_Mutation_p.A299T|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.A299T	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	297	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	AGACGACAGCGCAGGCAAGAG	0.572									Androgen_Insensitivity_Syndrome				24	9					0	0	1	0	0		A	66765883	A	A	66765883	3	1	73	1	0	0	0	0	1	0	0	0	836	1087	38	1	897	1	AR	23	66765883	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	15126085	66765883	88504677	1341	48578											
NLGN3	54413	broad.mit.edu	37	chrX	70368014	70368014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttacatccaggagcccaacGaagactgtctctacctgaac	12	8	7	14	1	1	2	0	1	1	1	3	4	2	3	3	1	5	0	3	1	5	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:70368014G>A	uc004dzd.1	+	1	615	c.415G>A	c.(415-417)GAA>AAA	p.E139K	NLGN3_uc010nlb.1_Missense_Mutation_p.E139K|NLGN3_uc004dzb.2_Missense_Mutation_p.E139K|NLGN3_uc004dzc.2_Missense_Mutation_p.E22K|NLGN3_uc011mps.1_Missense_Mutation_p.E139K|NLGN3_uc011mpr.1_Missense_Mutation_p.E139K	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	139	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					GGAGCCCAACGAAGACTGTCT	0.597													34	13					0	0	1	0	0		A	70368014	A	A	70368014	3	1	73	1	0	0	0	0	1	0	0	0	10482	1059	37	1	417	1	NLGN3	23	70368014	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	3602131	70368014	84902546	1342	48579											
ERCC6L	54821	broad.mit.edu	37	chrX	71425719	71425719	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctaaagactgactggaaaaAttttgtctgttgtctgctga	11	15	9	6	0	3	3	0	2	3	1	3	4	3	4	0	1	1	2	0	1	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:71425719A>T	uc004eaq.1	-	2	2995	c.2898T>A	c.(2896-2898)AAT>AAA	p.N966K	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Missense_Mutation_p.N843K	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	966					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					GACTGGAAAAATTTTGTCTGT	0.423													37	33					0	0	1	0	0		T	71425719	T	T	71425719	3	4	73	1	0	0	0	0	1	0	0	0	5226	98	4	5	858	5	ERCC6L	23	71425719	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1057705	71425719	83844841	1343	48580											
BRWD3	254065	broad.mit.edu	37	chrX	79962956	79962956	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcactttgccattcaacaAcaggatcctctaccgaagcg	11	11	6	13	2	3	0	2	0	1	0	4	2	4	1	3	1	5	0	3	1	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:79962956A>G	uc004edt.2	-	22	2785	c.2522T>C	c.(2521-2523)GTT>GCT	p.V841A	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.V437A|BRWD3_uc004edp.2_Missense_Mutation_p.V670A|BRWD3_uc004edq.2_Missense_Mutation_p.V437A|BRWD3_uc010nmj.1_Missense_Mutation_p.V437A|BRWD3_uc004edr.2_Missense_Mutation_p.V511A|BRWD3_uc004eds.2_Missense_Mutation_p.V437A|BRWD3_uc004edu.2_Missense_Mutation_p.V511A|BRWD3_uc004edv.2_Missense_Mutation_p.V437A|BRWD3_uc004edw.2_Missense_Mutation_p.V437A|BRWD3_uc004edx.2_Missense_Mutation_p.V437A|BRWD3_uc004edy.2_Missense_Mutation_p.V437A|BRWD3_uc004edz.2_Missense_Mutation_p.V511A|BRWD3_uc004eea.2_Missense_Mutation_p.V511A|BRWD3_uc004eeb.2_Missense_Mutation_p.V437A	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	841										ovary(4)	4						CCATTCAACAACAGGATCCTC	0.348													3	24					0	0	1	0	0		G	79962956	G	G	79962956	3	3	73	1	0	0	0	0	1	0	0	0	1529	43	2	3	2966	3	BRWD3	23	79962956	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	8537237	79962956	75307604	1344	48581											
RPS6KA6	27330	broad.mit.edu	37	chrX	83403063	83403063	+	Frame_Shift_Del	DEL	T	-	-																															tttctaccttttaaagaggcTttttttaacaccttcattgc																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:83403063delT	uc004eej.1	-	4	404	c.327delA	c.(325-327)AAAfs	p.K109fs	RPS6KA6_uc011mqt.1_Frame_Shift_Del_p.K109fs|RPS6KA6_uc011mqu.1_Frame_Shift_Del_p.K6fs|RPS6KA6_uc010nmo.1_RNA	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	109	Protein kinase 1.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TTAAAGAGGCTTTTTTTAACA	0.303													14	14	---	---	---	---						.	-	83403063	-	-	83403063	7	5	73	1	0	1	0	1	0	0	0	0	13680	1606	56	0	1986	0	RPS6KA6	23	83403063	Frame_Shift_Del	DEL	T	TCGA-BR-8372-01A-11D-2340-08	3440107	83403063	71867497	1345	48582											
CPXCR1	53336	broad.mit.edu	37	chrX	88009023	88009023	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaaggccttcgagggtgcActactaccgtcccctcactg	8	9	10	14	2	1	1	1	0	0	1	3	2	2	1	4	2	3	1	4	2	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:88009023A>T	uc004efd.3	+	3	867	c.608A>T	c.(607-609)CAC>CTC	p.H203L	CPXCR1_uc004efc.3_Missense_Mutation_p.H203L	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	203						intracellular	zinc ion binding			ovary(3)	3						TCGAGGGTGCACTACTACCGT	0.428													20	12					0	0	1	0	0		T	88009023	T	T	88009023	3	4	73	1	0	0	0	0	1	0	0	0	3839	159	6	5	610	5	CPXCR1	23	88009023	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	4605960	88009023	67261537	1346	48583											
PCDH19	57526	broad.mit.edu	37	chrX	99663109	99663109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgagctcgtaagtctgcaCgccaaagcttcctgagtctg	8	10	11	12	3	2	2	0	2	2	0	4	2	3	2	2	0	3	4	2	0	2	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:99663109C>T	uc010nmz.2	-	1	2163	c.487G>A	c.(487-489)GTG>ATG	p.V163M	PCDH19_uc004efw.3_Missense_Mutation_p.V163M|PCDH19_uc004efx.3_Missense_Mutation_p.V163M	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	163	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						TAAGTCTGCACGCCAAAGCTT	0.637													39	15					0	0	1	0	0		T	99663109	T	T	99663109	3	4	73	1	0	0	0	0	1	0	0	0	11533	536	19	1	2983	1	PCDH19	23	99663109	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	11654086	99663109	55607451	1347	48584											
GPRASP2	114928	broad.mit.edu	37	chrX	101971716	101971716	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcgagattcaggtgttgTctcacttattgaaaccttgc	9	15	8	9	1	2	2	2	1	1	1	4	3	2	2	1	1	2	1	1	1	2	6			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:101971716T>C	uc004ejk.2	+	4	3253	c.1919T>C	c.(1918-1920)GTC>GCC	p.V640A	GPRASP2_uc004ejl.2_Missense_Mutation_p.V640A|GPRASP2_uc004ejm.2_Missense_Mutation_p.V640A|GPRASP2_uc011mrp.1_5'Flank	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	640						cytoplasm	protein binding			ovary(1)	1						TCAGGTGTTGTCTCACTTATT	0.348													51	20					0	0	1	0	0		C	101971716	C	C	101971716	3	2	73	1	0	0	0	0	1	0	0	0	6739	1667	58	3	1921	3	GPRASP2	23	101971716	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	2308607	101971716	53298844	1348	48585											
H2BFWT	158983	broad.mit.edu	37	chrX	103267750	103267750	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggtgtacctgaggacAgccttcgtgccttcggactc	5	11	11	14	2	0	1	0	1	0	0	4	3	1	3	4	3	3	1	4	3	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:103267750A>G	uc004elr.2	-	1	507	c.483T>C	c.(481-483)GCT>GCC	p.A161A		NM_001002916	NP_001002916	Q7Z2G1	H2BWT_HUMAN	H2B histone family, member W, testis-specific	161					nucleosome assembly	nuclear membrane|nucleosome	DNA binding			ovary(1)	1						ACCTGAGGACAGCCTTCGTGC	0.637													17	7					0	0	1	0	0		G	103267750	G	G	103267750	2	3	73	1	0	0	0	0	0	0	0	1	6948	175	7	3		3	H2BFWT	23	103267750	Silent	SNP	A	TCGA-BR-8372-01A-11D-2340-08	1296034	103267750	52002810	1349	48586											
CT47B1	643311	broad.mit.edu	37	chrX	120009221	120009221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagtcgaagttggccgcctCgttcccctcttcctcctcct	4	12	7	18	3	1	0	0	0	1	0	7	1	5	0	7	1	0	2	7	1	2	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:120009221C>T	uc011muc.1	-	1	559	c.304G>A	c.(304-306)GAG>AAG	p.E102K		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	102											0						TTGGCCGcctcgttcccctct	0.592													15	8					0	0	1	0	0		T	120009221	T	T	120009221	3	4	73	1	0	0	0	0	1	0	0	0	3992	893	31	1	603	1	CT47B1	23	120009221	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	16741471	120009221	35261339	1350	48587											
GLUD2	2747	broad.mit.edu	37	chrX	120182454	120182454	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagagataaaacatttgttGttcagggatttggtaatgtg	12	16	11	2	0	1	1	1	0	0	1	1	3	1	2	0	2	1	3	0	2	4	7			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:120182454G>T	uc004eto.2	+	1	993	c.916G>T	c.(916-918)GTT>TTT	p.V306F		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	306					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	AACATTTGTTGTTCAGGGATT	0.398													94	51					5.48297e-45	6.1694e-45	1	1	0		T	120182454	T	T	120182454	3	4	73	1	0	0	0	0	1	0	0	0	6492	1377	48	5	918	5	GLUD2	23	120182454	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	173233	120182454	35088106	1351	48588											
STAG2	10735	broad.mit.edu	37	chrX	123164875	123164875	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaatggaggaggaaaacCtccttctggtccaaaccgaa	14	7	11	9	1	1	0	0	0	1	0	3	5	3	4	4	5	2	0	4	5	5	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:123164875C>A	uc004etz.3	+	4	527	c.188C>A	c.(187-189)CCT>CAT	p.P63H	STAG2_uc004eua.2_Missense_Mutation_p.P63H|STAG2_uc004eub.2_Missense_Mutation_p.P63H|STAG2_uc004euc.2_Missense_Mutation_p.P63H|STAG2_uc004eud.2_Missense_Mutation_p.P63H|STAG2_uc004eue.2_Missense_Mutation_p.P63H	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	63					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						GGAGGAAAACCTCCTTCTGGT	0.418													23	31					2.27731e-05	2.33998e-05	1	1	0		A	123164875	A	A	123164875	3	1	73	1	0	0	0	0	1	0	0	0	15268	681	24	5	198	5	STAG2	23	123164875	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2982421	123164875	32105685	1352	48589											
STAG2	10735	broad.mit.edu	37	chrX	123185062	123185062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actggaactttttaccagtcGgttcaaggttagtattactt	10	16	8	7	1	1	0	1	0	0	0	2	1	1	1	1	3	3	3	1	3	6	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:123185062G>A	uc004etz.3	+	11	1448	c.1109G>A	c.(1108-1110)CGG>CAG	p.R370Q	STAG2_uc004eua.2_Missense_Mutation_p.R370Q|STAG2_uc004eub.2_Missense_Mutation_p.R370Q|STAG2_uc004euc.2_Missense_Mutation_p.R370Q|STAG2_uc004eud.2_Missense_Mutation_p.R370Q|STAG2_uc004eue.2_Missense_Mutation_p.R370Q	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	370	SCD.				cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						TTTACCAGTCGGTTCAAGGTT	0.294													19	8					0	0	1	0	0		A	123185062	A	A	123185062	3	1	73	1	0	0	0	0	1	0	0	0	15268	1116	39	1	1147	1	STAG2	23	123185062	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	20187	123185062	32085498	1353	48590											
DCAF12L1	139170	broad.mit.edu	37	chrX	125686323	125686323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgcccagctccagttggCgctccgtcagcagctcgggc	4	7	13	17	4	1	0	1	0	0	0	4	0	3	0	4	2	4	5	4	2	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:125686323C>T	uc004eul.2	-	1	520	c.269G>A	c.(268-270)CGC>CAC	p.R90H		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	90										skin(3)|ovary(1)	4						CTCCAGTTGGCGCTCCGTCAG	0.662													25	14					0	0	1	0	0		T	125686323	T	T	125686323	3	4	73	1	0	0	0	0	1	0	0	0	4267	768	27	1	1126	1	DCAF12L1	23	125686323	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	2501261	125686323	29584237	1354	48591											
OCRL	4952	broad.mit.edu	37	chrX	128723914	128723914	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaattctctgaatacaatagCgtcaatgccaacatgatcgg	15	10	7	9	2	2	2	1	2	1	0	4	2	2	2	1	1	4	0	1	1	7	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:128723914C>T	uc004euq.2	+	23	2727	c.2562C>T	c.(2560-2562)AGC>AGT	p.S854S	OCRL_uc004eur.2_Silent_p.S846S|OCRL_uc010nrb.2_Intron	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	854	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						AATACAATAGCGTCAATGCCA	0.408													64	28					0	0	1	0	0		T	128723914	T	T	128723914	2	4	73	1	0	0	0	0	0	0	0	1	10842	767	27	1		1	OCRL	23	128723914	Silent	SNP	C	TCGA-BR-8372-01A-11D-2340-08	3037591	128723914	26546646	1355	48592											
BCORL1	63035	broad.mit.edu	37	chrX	129185910	129185910	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagaaggagacgatccgaTggaggaggatgatttcatgt	13	9	14	5	2	2	3	2	1	0	2	3	9	3	6	1	4	0	0	1	4	2	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:129185910T>C	uc004evb.1	+	12	4886	c.4772T>C	c.(4771-4773)ATG>ACG	p.M1591T	BCORL1_uc004evc.1_Missense_Mutation_p.M427T	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1591					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GACGATCCGATGGAGGAGGAT	0.507													69	30					0	0	1	0	0		C	129185910	C	C	129185910	3	2	73	1	0	0	0	0	1	0	0	0	1388	1464	51	3	5040	3	BCORL1	23	129185910	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	461996	129185910	26084650	1356	48593											
CNGA2	1260	broad.mit.edu	37	chrX	150908125	150908125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actcattcctcgagcgttttCgtgggcctgaactccagact	7	12	9	13	3	1	2	1	1	0	1	5	3	3	2	3	1	2	1	3	1	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:150908125C>T	uc004fey.1	+	4	519	c.295C>T	c.(295-297)CGT>TGT	p.R99C		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	99	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CGAGCGTTTTCGTGGGCCTGA	0.552													23	15					0	0	1	0	0		T	150908125	T	T	150908125	3	4	73	1	0	0	0	0	1	0	0	0	3600	884	31	1	305	1	CNGA2	23	150908125	Missense_Mutation	SNP	C	TCGA-BR-8372-01A-11D-2340-08	21722215	150908125	4362435	1357	48594											
PLXNB3	5365	broad.mit.edu	37	chrX	153043732	153043732	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaggattccccagtgaacaAactgctctacgcccgggaga	11	6	11	13	2	1	2	0	1	1	1	2	4	2	3	3	2	4	2	3	2	3	2			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:153043732A>T	uc004fii.2	+	33	5600	c.5426A>T	c.(5425-5427)AAA>ATA	p.K1809I	PLXNB3_uc010nuk.2_Missense_Mutation_p.K1832I|PLXNB3_uc011mzd.1_Missense_Mutation_p.K1448I|SRPK3_uc004fik.2_5'UTR|SRPK3_uc010nul.2_5'Flank|SRPK3_uc004fin.2_5'Flank|SRPK3_uc004fil.2_5'Flank|SRPK3_uc004fim.2_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1809	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CCAGTGAACAAACTGCTCTAC	0.652													16	8					0	0	1	0	0		T	153043732	T	T	153043732	3	4	73	1	0	0	0	0	1	0	0	0	12144	14	1	5	5670	5	PLXNB3	23	153043732	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	2135607	153043732	2226828	1358	48595											
PDZD4	57595	broad.mit.edu	37	chrX	153070220	153070220	+	Frame_Shift_Del	DEL	C	-	-																															ggtggagctcgggggttcgtCccccagcaggtcgtgctcag																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:153070220delC	uc004fiz.1	-	8	1148	c.898delG	c.(898-900)GACfs	p.D300fs	PDZD4_uc004fiy.1_Frame_Shift_Del_p.D225fs|PDZD4_uc004fix.2_Frame_Shift_Del_p.D204fs|PDZD4_uc004fja.1_Frame_Shift_Del_p.D306fs|PDZD4_uc011mze.1_Frame_Shift_Del_p.D191fs	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	300						cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGGGGTTCGTCCCCCAGCAGG	0.667													22	17	---	---	---	---						.	-	153070220	-	-	153070220	7	5	73	1	0	1	0	1	0	0	0	0	11722	855	30	0	1415	0	PDZD4	23	153070220	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	26488	153070220	2200340	1359	48596											
AVPR2	554	broad.mit.edu	37	chrX	153172147	153172147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatgagtcctgcaccaccGccagctcctccctggccaag	9	6	9	17	1	0	2	0	1	0	1	3	2	3	2	7	1	2	2	7	1	2	0			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:153172147G>A	uc004fjh.3	+	3	1152	c.1081G>A	c.(1081-1083)GCC>ACC	p.A361T	AVPR2_uc004fjg.3_Missense_Mutation_p.A150T|AVPR2_uc004fji.2_3'UTR	NM_000054	NP_000045	P30518	V2R_HUMAN	arginine vasopressin receptor 2 isoform 1	361	Cytoplasmic (Potential).				activation of adenylate cyclase activity|excretion|G-protein signaling, coupled to cAMP nucleotide second messenger|hemostasis|positive regulation of gene expression|transmembrane transport|water transport	endoplasmic reticulum|endosome|Golgi apparatus|integral to plasma membrane	vasopressin receptor activity			breast(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Conivaptan(DB00872)|Terlipressin(DB02638)|Vasopressin(DB00067)	CTGCACCACCGCCAGCTCCTC	0.627													31	12					0	0	1	0	0		A	153172147	A	A	153172147	3	1	73	1	0	0	0	0	1	0	0	0	1234	1087	38	1	1111	1	AVPR2	23	153172147	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	101927	153172147	2098413	1360	48597											
RPL10	6134	broad.mit.edu	37	chrX	153631751	153631751	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagggaccgagggctgccAtccactcctggaccttctcc	6	7	10	18	1	1	0	0	0	1	0	4	3	3	2	7	3	1	1	7	3	0	1			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:153631751A>G	uc004fkr.1	+	3	450	c.415A>G	c.(415-417)ATC>GTC	p.I139V	RPL10_uc004fkq.1_RNA|DNASE1L1_uc004fks.1_Intron|DNASE1L1_uc004fkt.1_Intron|DNASE1L1_uc004fku.1_Intron|DNASE1L1_uc004fkv.1_Intron|DNASE1L1_uc004fkw.1_Intron	NM_006013	NP_006004	P27635	RL10_HUMAN	ribosomal protein L10	Error:Variant_position_missing_in_P27635_after_alignment					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|endoplasmic reticulum	structural constituent of ribosome				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GAGGGCTGCCATCCACTCCTG	0.642													13	7					0	0	1	0	0		G	153631751	G	G	153631751	3	3	73	1	0	0	0	0	1	0	0	0	13579	232	8	3		3	RPL10	23	153631751	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08	459604	153631751	1638809	1361	48598											
ATP6AP1	537	broad.mit.edu	37	chrX	153663742	153663742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcccaggtcacagggcccaGcatctactccttccactgcg	7	9	8	17	1	2	0	1	0	1	0	5	0	5	0	4	2	3	1	4	2	1	3			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:153663742G>A	uc004flf.1	+	9	1155	c.1094G>A	c.(1093-1095)AGC>AAC	p.S365N	ATP6AP1_uc004flg.1_RNA|ATP6AP1_uc004flh.1_Missense_Mutation_p.S325N|GDI1_uc011mzo.1_5'Flank|GDI1_uc004fli.3_5'Flank	NM_001183	NP_001174	Q15904	VAS1_HUMAN	ATPase, H+ transporting, lysosomal accessory	365					ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain|vacuolar membrane	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(3)|breast(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ACAGGGCCCAGCATCTACTCC	0.597													20	5					0	0	1	0	0		A	153663742	A	A	153663742	3	1	73	1	0	0	0	0	1	0	0	0	1166	971	34	2	1128	2	ATP6AP1	23	153663742	Missense_Mutation	SNP	G	TCGA-BR-8372-01A-11D-2340-08	31991	153663742	1606818	1362	48599											
GDI1	2664	broad.mit.edu	37	chrX	153670511	153670511	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgtggcggcccagggcaagTacatagctattgccagcact	10	7	12	12	2	0	0	0	0	0	0	0	0	0	0	2	3	4	4	2	3	4	4			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrX:153670511T>C	uc004fli.3	+	9	1387	c.1045T>C	c.(1045-1047)TAC>CAC	p.Y349H	GDI1_uc004flj.2_Missense_Mutation_p.Y14H|FAM50A_uc004fll.3_5'Flank	NM_001493	NP_001484	P31150	GDIA_HUMAN	GDP dissociation inhibitor 1	349					protein transport|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|midbody	GTPase activator activity|protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCAGGGCAAGTACATAGCTAT	0.587													14	29					0	0	1	0	0		C	153670511	C	C	153670511	3	2	73	1	0	0	0	0	1	0	0	0	6335	1638	57	3	1079	3	GDI1	23	153670511	Missense_Mutation	SNP	T	TCGA-BR-8372-01A-11D-2340-08	6769	153670511	1600049	1363	48600											
USP9Y	8287	broad.mit.edu	37	chrY	14898560	14898560	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttacctcttgtactgagtAtgctaataagaaataacttc	13	14	6	8	0	1	2	0	1	1	1	2	2	1	2	1	0	4	4	1	0	7	8			TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrY:14898560A>G	uc004fst.1	+	24	4333	c.3388A>G	c.(3388-3390)ATG>GTG	p.M1130V	USP9Y_uc010nwu.1_RNA	NM_004654	NP_004645	O00507	USP9Y_HUMAN	ubiquitin specific protease 9, Y-linked	1130					BMP signaling pathway|protein deubiquitination|spermatogenesis|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						TGTACTGAGTATGCTAATAAG	0.393													10	30					0	0	1	0	0		G	14898560	G	G	14898560	3	3	73	1	0	0	0	0	1	0	0	0	17117	449	16	3	3474	3	USP9Y	24	14898560	Missense_Mutation	SNP	A	TCGA-BR-8372-01A-11D-2340-08		14898560	44475006	1364	48601											
NLGN4Y	22829	broad.mit.edu	37	chrY	16942150	16942150	+	Frame_Shift_Del	DEL	C	-	-																															tactgaccatcagtgggtggCccccgccgtggccaccgccg																										TCGA-BR-8372-01A-11D-2340-08	TCGA-BR-8372-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1c609ffd-aec9-4d54-8cca-ef445e176dfd	b8ec033b-f6fc-41f5-a02b-82e786b0afe3	g.chrY:16942150delC	uc004ftg.2	+	5	1604	c.1352delC	c.(1351-1353)GCCfs	p.A451fs	NLGN4Y_uc004fte.2_Frame_Shift_Del_p.A283fs|NLGN4Y_uc011nas.1_Frame_Shift_Del_p.A471fs|NLGN4Y_uc004ftf.2_Frame_Shift_Del_p.A144fs|NLGN4Y_uc004fth.2_Frame_Shift_Del_p.A451fs	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	451	Extracellular (Potential).				brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0						CAGTGGGTGGCCCCCGCCGTG	0.587													30	24	---	---	---	---						.	-	16942150	-	-	16942150	7	5	73	1	0	1	0	1	0	0	0	0	10484	739	26	0	1520	0	NLGN4Y	24	16942150	Frame_Shift_Del	DEL	C	TCGA-BR-8372-01A-11D-2340-08	2043590	16942150	42431416	1365	48602											
TAS1R1	80835	broad.mit.edu	37	chr1	6631130	6631130	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtatgccacgctgagagTgctctccctgccagggcaac	7	9	12	13	1	1	1	0	1	1	1	2	2	1	1	3	1	4	4	3	1	2	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr1:6631130T>C	uc001ant.2	+	2	353	c.353T>C	c.(352-354)GTG>GCG	p.V118A	TAS1R1_uc001anu.2_Missense_Mutation_p.V118A|TAS1R1_uc001anv.2_Missense_Mutation_p.V118A|TAS1R1_uc001anw.2_Missense_Mutation_p.V118A	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	118	Extracellular (Potential).				sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;8.73e-34)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		ACGCTGAGAGTGCTCTCCCTG	0.562													35	126					0	0	0.054565	0	0		C	6631130	C	C	6631130	3	2	74	1	0	0	0	0	1	0	0	0	15587	1696	59	3	359	3	TAS1R1	1	6631130	Missense_Mutation	SNP	T	TCGA-BR-8373-01A-11D-2340-08		6631130	242619491	1	48603											
OPRD1	4985	broad.mit.edu	37	chr1	29185501	29185501	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggccaccaacatctacaTcttcaacctggccttagccg	10	8	7	16	2	3	0	1	0	2	0	3	1	3	0	5	2	4	0	5	2	4	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr1:29185501T>C	uc001brf.1	+	2	505	c.263T>C	c.(262-264)ATC>ACC	p.I88T		NM_000911	NP_000902	P41143	OPRD_HUMAN	opioid receptor, delta 1	88	Helical; Name=2; (Potential).				immune response|protein import into nucleus, translocation	integral to plasma membrane	delta-opioid receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000947)|all_lung(284;0.00131)|Renal(390;0.00758)|Breast(348;0.00765)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-07)|COAD - Colon adenocarcinoma(152;7.51e-06)|STAD - Stomach adenocarcinoma(196;0.00306)|BRCA - Breast invasive adenocarcinoma(304;0.0241)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)	Butorphanol(DB00611)|Codeine(DB00318)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Loperamide(DB00836)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pimozide(DB01100)|Propoxyphene(DB00647)	AACATCTACATCTTCAACCTG	0.408													23	85					0	0	0.076483	0	0		C	29185501	C	C	29185501	3	2	74	1	0	0	0	0	1	0	0	0	10903	1435	50	3	269	3	OPRD1	1	29185501	Missense_Mutation	SNP	T	TCGA-BR-8373-01A-11D-2340-08	22554371	29185501	220065120	2	48604											
EIF2C4	192670	broad.mit.edu	37	chr1	36297027	36297028	+	Splice_Site	INS	-	T	T																															aaagacattctctcctatagINSttttcctttgcagctagaaa																										TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr1:36297027_36297028insT	uc001bzj.1	+	8	1039	c.849_splice	c.e8-1	p.T283_splice		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4						mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CTCTCCTATAGTTTTCCTTTGC	0.257													16	36	---	---	---	---						.	T	36297028	T	T	36297027	8	5	74	1	0	1	1	0	0	0	1	0	5014	1043	36	0	878	0	EIF2C4	1	36297027	Splice_Site	INS	-	TCGA-BR-8373-01A-11D-2340-08	7111526	36297027	212953594	3	48605											
EIF2C3	192669	broad.mit.edu	37	chr1	36520681	36520681	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtttctatacctgcaccAgcgtattatgctcacctggt	7	15	7	12	1	3	0	1	0	2	0	3	0	3	0	3	1	4	4	3	1	4	5			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr1:36520681A>C	uc001bzp.2	+	18	2665	c.2409A>C	c.(2407-2409)CCA>CCC	p.P803P	EIF2C3_uc001bzq.2_Silent_p.P569P	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	803	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TACCTGCACCAGCGTATTATG	0.433													6	44					0	0	0.021553	0	0		C	36520681	C	C	36520681	2	2	74	1	0	0	0	0	0	0	0	1	5013	175	7	5		5	EIF2C3	1	36520681	Silent	SNP	A	TCGA-BR-8373-01A-11D-2340-08	223654	36520681	212729940	4	48606											
DMRTB1	63948	broad.mit.edu	37	chr1	53925618	53925618	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgggacccccttttggggcGgaggccgcaggcagtggcta	5	6	18	12	3	0	0	0	0	0	0	0	2	0	2	3	7	0	3	3	7	1	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr1:53925618G>A	uc001cvq.1	+	1	547	c.492G>A	c.(490-492)GCG>GCA	p.A164A		NM_033067	NP_149056	Q96MA1	DMRTB_HUMAN	DMRT-like family B with proline-rich C-terminal,	164	Pro-rich.				sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						CTTTTGGGGCGGAGGCCGCAG	0.716													4	6					0	0	0.009096	0	0		A	53925618	A	A	53925618	2	1	74	1	0	0	0	0	0	0	0	1	4596	1103	39	1		1	DMRTB1	1	53925618	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	17404937	53925618	195325003	5	48607											
DCST2	127579	broad.mit.edu	37	chr1	155002981	155002981	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctctcggacacggtgcaGcttcatgctgacagcctcgt	6	9	12	14	3	2	1	1	1	1	0	4	2	2	2	2	3	4	3	2	3	0	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr1:155002981G>T	uc001fgm.2	-	6	1026	c.946C>A	c.(946-948)CTG>ATG	p.L316M	DCST2_uc009wpb.2_RNA	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	316	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			ACACGGTGCAGCTTCATGCTG	0.622													18	31					1.37522e-17	1.49838e-17	0.043863	1	0		T	155002981	T	T	155002981	3	4	74	1	0	0	0	0	1	0	0	0	4306	962	34	5	1415	5	DCST2	1	155002981	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	101077363	155002981	94247640	6	48608											
WDR26	80232	broad.mit.edu	37	chr1	224606064	224606064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtagttccaccgcctgcCgcaggagagtctgtaaacgc	8	10	11	12	3	1	1	0	0	1	1	2	2	2	1	4	1	2	4	4	1	3	4			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr1:224606064C>T	uc001hop.3	-	6	842	c.476G>A	c.(475-477)CGG>CAG	p.R159Q	WDR26_uc001hoq.3_Missense_Mutation_p.R143Q|WDR26_uc009xei.1_Missense_Mutation_p.R143Q	NM_025160	NP_079436	Q9H7D7	WDR26_HUMAN	WD repeat domain 26 isoform a	306						cytoplasm|nucleus					0				GBM - Glioblastoma multiforme(131;0.0104)		CACCGCCTGCCGCAGGAGAGT	0.388													32	41					0	0	0.045705	0	0		T	224606064	T	T	224606064	3	4	74	1	0	0	0	0	1	0	0	0	17309	652	23	1	1104	1	WDR26	1	224606064	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	69603083	224606064	24644557	7	48609											
AGT	183	broad.mit.edu	37	chr1	230839016	230839016	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcaggcttgttaagctgttgGgtagactctgtgggctctct	5	15	13	8	0	3	1	1	0	2	1	4	1	3	1	0	3	1	6	0	3	2	4			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr1:230839016G>T	uc001hty.3	-	5	1837	c.1329C>A	c.(1327-1329)ACC>ACA	p.T443T	AGT_uc009xfe.2_3'UTR|AGT_uc009xff.2_Silent_p.T415T	NM_000029	NP_000020	P01019	ANGT_HUMAN	angiotensinogen preproprotein	443					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|blood vessel remodeling|cell-cell signaling|cellular lipid metabolic process|G-protein signaling, coupled to cGMP nucleotide second messenger|kidney development|low-density lipoprotein particle remodeling|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of activation of JAK2 kinase activity|positive regulation of apoptosis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of cardiac muscle hypertrophy|positive regulation of cholesterol esterification|positive regulation of cytokine production|positive regulation of endothelial cell migration|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription, DNA-dependent|regulation of proteolysis|regulation of renal output by angiotensin|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|response to muscle activity involved in regulation of muscle adaptation	extracellular space|soluble fraction	acetyltransferase activator activity|growth factor activity|hormone activity|serine-type endopeptidase inhibitor activity|type 1 angiotensin receptor binding|type 2 angiotensin receptor binding				0	Breast(184;0.0735)|Ovarian(103;0.183)	all_cancers(173;4.64e-23)|all_epithelial(177;3.61e-18)|Breast(1374;0.00093)|all_neural(198;0.0604)|Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;4.4e-06)|Colorectal(1306;5.46e-06)|COAD - Colon adenocarcinoma(196;0.000256)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)	Aliskiren(DB01258)|Atorvastatin(DB01076)|Cilazapril(DB01340)|Irbesartan(DB01029)|Lisinopril(DB00722)|Ouabain(DB01092)|Simvastatin(DB00641)	TAAGCTGTTGGGTAGACTCTG	0.532													32	81					1.836e-18	2.01546e-18	0.064281	1	0		T	230839016	T	T	230839016	2	4	74	1	0	0	0	0	0	0	0	1	399	1219	43	5		5	AGT	1	230839016	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	6232952	230839016	18411605	8	48610											
KIF3C	3797	broad.mit.edu	37	chr2	26203307	26203307	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	caggtcctccagcatcttctCcttctcctccagcagcttct	5	13	5	18	0	4	0	0	0	4	0	9	0	7	0	5	1	3	3	5	1	0	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr2:26203307C>G	uc002rgu.2	-	1	2137	c.1480G>C	c.(1480-1482)GAG>CAG	p.E494Q	KIF3C_uc010eyj.1_RNA|KIF3C_uc010ykr.1_Missense_Mutation_p.E494Q	NM_002254	NP_002245	O14782	KIF3C_HUMAN	kinesin family member 3C	494	Potential.				blood coagulation|microtubule-based movement	cytosol|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGCATCTTCTCCTTCTCCTCC	0.622													6	53					0	0	0.038147	0	0		G	26203307	G	G	26203307	3	3	74	1	0	0	0	0	1	0	0	0	8318	864	30	5	933	5	KIF3C	2	26203307	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08		26203307	216996066	9	48611											
HEATR5B	54497	broad.mit.edu	37	chr2	37296009	37296009	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatcaagtacatgggacAggaacgtggcaaagctgcgc	13	5	13	10	2	1	1	1	0	0	1	1	3	1	3	1	3	4	3	1	3	4	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr2:37296009A>C	uc002rpp.1	-	8	1088	c.992T>G	c.(991-993)CTG>CGG	p.L331R		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	331							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				TACATGGGACAGGAACGTGGC	0.473													34	78					0	0	0.054565	0	0		C	37296009	C	C	37296009	3	2	74	1	0	0	0	0	1	0	0	0	7048	188	7	5	5339	5	HEATR5B	2	37296009	Missense_Mutation	SNP	A	TCGA-BR-8373-01A-11D-2340-08	11092702	37296009	205903364	10	48612											
TMEM178	130733	broad.mit.edu	37	chr2	39893487	39893487	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacttcctgggcatcgacCgggacatcgacaccctcatc	8	8	9	16	3	1	0	1	0	0	0	5	3	2	1	3	2	1	2	3	2	1	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr2:39893487C>T	uc002rrt.2	+	1	398	c.373C>T	c.(373-375)CGG>TGG	p.R125W	TMEM178_uc010fam.1_Missense_Mutation_p.R125W	NM_152390	NP_689603	Q8NBL3	TM178_HUMAN	transmembrane protein 178 precursor	125	Extracellular (Potential).					integral to membrane					0		all_hematologic(82;0.248)				GGGCATCGACCGGGACATCGA	0.443													2	3					0	0	0.009096	0	0		T	39893487	T	T	39893487	3	4	74	1	0	0	0	0	1	0	0	0	16120	643	23	1	375	1	TMEM178	2	39893487	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	2597478	39893487	203305886	11	48613											
PNPT1	87178	broad.mit.edu	37	chr2	55872550	55872550	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttttgttcatgatctgtaAtatctccttttttgccacta	8	20	5	8	0	3	1	1	1	2	0	4	1	3	1	2	0	1	3	2	0	3	9			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr2:55872550A>G	uc002rzf.2	-	22	1809	c.1756T>C	c.(1756-1758)TTA>CTA	p.L586L	PNPT1_uc002rzg.2_RNA	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1	586					mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			ATGATCTGTAATATCTCCTTT	0.279													16	27					0	0	0.038395	0	0		G	55872550	G	G	55872550	2	3	74	1	0	0	0	0	0	0	0	1	12192	98	4	3		3	PNPT1	2	55872550	Silent	SNP	A	TCGA-BR-8373-01A-11D-2340-08	15979063	55872550	187326823	12	48614											
RETSAT	54884	broad.mit.edu	37	chr2	85576544	85576544	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtccagcaacacactctgCacagtggcctttgtgaggac	10	8	11	12	0	1	1	0	1	1	0	2	3	2	2	2	2	3	2	2	2	1	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr2:85576544C>T	uc002spd.2	-	5	1151	c.960G>A	c.(958-960)GTG>GTA	p.V320V	RETSAT_uc010fge.2_RNA|RETSAT_uc010ysm.1_Silent_p.V259V|RETSAT_uc010fgf.2_Silent_p.V111V	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	320					retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(2)	2					Vitamin A(DB00162)	ACACACTCTGCACAGTGGCCT	0.622													15	73					0	0	0.132662	0	0		T	85576544	T	T	85576544	2	4	74	1	0	0	0	0	0	0	0	1	13263	697	25	2		2	RETSAT	2	85576544	Silent	SNP	C	TCGA-BR-8373-01A-11D-2340-08	29703994	85576544	157622829	13	48615											
SCN9A	6335	broad.mit.edu	37	chr2	167134663	167134663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtttaccagtctgaatgatCgcagaactgacaatccttcc	11	12	7	11	1	1	4	0	3	1	1	4	4	3	4	3	0	2	2	3	0	4	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr2:167134663C>T	uc010fpl.2	-	15	2812	c.2471G>A	c.(2470-2472)CGA>CAA	p.R824Q	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	835	II.|Helical; Voltage-sensor; Name=S4 of repeat II; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	TCTGAATGATCGCAGAACTGA	0.338													6	37					0	0	0.02938	0	0		T	167134663	T	T	167134663	3	4	74	1	0	0	0	0	1	0	0	0	13950	884	31	1	3514	1	SCN9A	2	167134663	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	81558119	167134663	76064710	14	48616											
ICA1L	130026	broad.mit.edu	37	chr2	203680659	203680659	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctacaaaatcatacggaTgaaagccaatacaggcttca	17	7	8	9	1	2	1	2	1	0	0	2	3	2	2	1	2	5	2	1	2	7	4			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr2:203680659T>G	uc002uzh.1	-	8	922	c.758A>C	c.(757-759)CAT>CCT	p.H253P	ICA1L_uc002uzi.1_Missense_Mutation_p.H253P	NM_138468	NP_612477	Q8NDH6	ICA1L_HUMAN	islet cell autoantigen 1,69kDa-like isoform 1	253											0						ATCATACGGATGAAAGCCAAT	0.363													9	49					0	0	0.069234	0	0		G	203680659	G	G	203680659	3	3	74	1	0	0	0	0	1	0	0	0	7494	1464	51	5	718	5	ICA1L	2	203680659	Missense_Mutation	SNP	T	TCGA-BR-8373-01A-11D-2340-08	36545996	203680659	39518714	15	48617											
KIF1A	547	broad.mit.edu	37	chr2	241686695	241686695	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagattttagcagttccCgactggcggacgccagagcc	10	7	13	11	3	0	2	0	0	0	2	1	5	1	3	3	3	2	2	3	3	2	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr2:241686695C>T	uc002vzy.2	-	27	2864	c.2718G>A	c.(2716-2718)TCG>TCA	p.S906S	KIF1A_uc010fzk.2_Silent_p.S1007S|KIF1A_uc002vzz.1_Silent_p.S1007S	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	906					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		TAGCAGTTCCCGACTGGCGGA	0.572													19	21					0	0	0.069288	0	0		T	241686695	T	T	241686695	2	4	74	1	0	0	0	0	0	0	0	1	8299	639	23	1		1	KIF1A	2	241686695	Silent	SNP	C	TCGA-BR-8373-01A-11D-2340-08	38006036	241686695	1512678	16	48618											
FGD5	152273	broad.mit.edu	37	chr3	14861698	14861698	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcagcgaaaggtttagaaTcagagcaggcaccaaagctg	16	6	11	8	1	2	2	2	0	0	2	2	3	2	2	1	2	3	4	1	2	5	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr3:14861698T>G	uc003bzc.2	+	1	1230	c.1120T>G	c.(1120-1122)TCA>GCA	p.S374A	FGD5_uc011avk.1_Missense_Mutation_p.S374A	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	374					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						AGGTTTAGAATCAGAGCAGGC	0.577													12	73					0	0	0.080935	0	0		G	14861698	G	G	14861698	3	3	74	1	0	0	0	0	1	0	0	0	5850	1435	50	5	1122	5	FGD5	3	14861698	Missense_Mutation	SNP	T	TCGA-BR-8373-01A-11D-2340-08		14861698	183160732	17	48619											
CDC25A	993	broad.mit.edu	37	chr3	48224509	48224509	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagagctggactacatccCaacagcttctgctatcaaag	12	10	7	12	0	3	1	2	0	1	1	4	2	4	2	1	1	5	3	1	1	4	4			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr3:48224509C>G	uc003csh.1	-	5	703	c.339G>C	c.(337-339)TTG>TTC	p.L113F	CDC25A_uc003csi.1_Missense_Mutation_p.L113F	NM_001789	NP_001780	P30304	MPIP1_HUMAN	cell division cycle 25A isoform a	113					cell cycle checkpoint|cell division|cell proliferation|cellular response to UV|DNA replication|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle	cytosol|nucleoplasm	protein binding|protein tyrosine phosphatase activity			lung(3)|kidney(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000685)|KIRC - Kidney renal clear cell carcinoma(197;0.00596)|Kidney(197;0.00684)		GACTACATCCCAACAGCTTCT	0.388													21	41					0	0	0.062417	0	0		G	48224509	G	G	48224509	3	3	74	1	0	0	0	0	1	0	0	0	3065	593	21	5	1279	5	CDC25A	3	48224509	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	33362811	48224509	149797921	18	48620											
UBA7	7318	broad.mit.edu	37	chr3	49847484	49847484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggggcatcctcagaagctGcagctgaggcaggggctctg	8	6	17	10	0	2	2	1	1	1	1	3	2	3	2	1	5	3	6	1	5	1	0			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr3:49847484G>A	uc003cxr.2	-	14	1937	c.1766C>T	c.(1765-1767)GCA>GTA	p.A589V		NM_003335	NP_003326	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7	589					ISG15-protein conjugation|negative regulation of type I interferon production	cytosol	ATP binding|ISG15 activating enzyme activity|ligase activity			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CTCAGAAGCTGCAGCTGAGGC	0.617													9	89					0	0	0.047766	0	0		A	49847484	A	A	49847484	3	1	74	1	0	0	0	0	1	0	0	0	16859	1319	46	2	1316	2	UBA7	3	49847484	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	1622975	49847484	148174946	19	48621											
IGSF11	152404	broad.mit.edu	37	chr3	118621614	118621614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggatggtatgttggcattgCctgagtggaaagagaaagat	12	11	15	3	0	0	3	0	1	0	2	0	6	0	5	1	4	1	3	1	4	3	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr3:118621614C>T	uc003ebw.2	-	7	1296	c.1049G>A	c.(1048-1050)GGC>GAC	p.G350D	IGSF11_uc011biv.1_Missense_Mutation_p.G322D|IGSF11_uc003ebx.2_Missense_Mutation_p.G326D|IGSF11_uc003eby.2_Missense_Mutation_p.G349D|IGSF11_uc003ebz.2_Missense_Mutation_p.G325D|IGSF11_uc010hqs.2_Missense_Mutation_p.G349D	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	350	Cytoplasmic (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						GTTGGCATTGCCTGAGTGGAA	0.473													57	100					0	0	0.139131	0	0		T	118621614	T	T	118621614	3	4	74	1	0	0	0	0	1	0	0	0	7614	739	26	2	250	2	IGSF11	3	118621614	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	68774130	118621614	79400816	20	48622											
IFT122	55764	broad.mit.edu	37	chr3	129221675	129221675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agacctacctgaagatgggtGacctcaagtccctggtgcag	10	8	12	11	0	1	4	1	2	0	2	2	4	2	4	4	2	2	1	4	2	3	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr3:129221675G>A	uc003emm.2	+	20	2703	c.2497G>A	c.(2497-2499)GAC>AAC	p.D833N	IFT122_uc003eml.2_Missense_Mutation_p.D884N|IFT122_uc003emn.2_Missense_Mutation_p.D774N|IFT122_uc003emo.2_Missense_Mutation_p.D722N|IFT122_uc003emp.2_Missense_Mutation_p.D683N|IFT122_uc010htc.2_Missense_Mutation_p.D825N|IFT122_uc011bky.1_Missense_Mutation_p.D624N|IFT122_uc003emq.2_Missense_Mutation_p.D673N|IFT122_uc003emr.2_Missense_Mutation_p.D585N|IFT122_uc011bla.1_Missense_Mutation_p.D606N|IFT122_uc010hte.2_Missense_Mutation_p.D159N|IFT122_uc003ems.2_Missense_Mutation_p.D214N|IFT122_uc011bkx.1_Missense_Mutation_p.D673N|IFT122_uc010htd.1_Missense_Mutation_p.D312N	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	833					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						GAAGATGGGTGACCTCAAGTC	0.637													33	51					0	0	0.045705	0	0		A	129221675	A	A	129221675	3	1	74	1	0	0	0	0	1	0	0	0	7571	1290	45	4	2732	4	IFT122	3	129221675	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	10600061	129221675	68800755	21	48623											
RTP1	132112	broad.mit.edu	37	chr3	186917605	186917605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcatccacgtggccagccGccaggacaaccggcggcacc	8	2	12	19	5	0	0	0	0	0	0	1	1	1	1	7	4	2	2	7	4	1	0			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr3:186917605G>A	uc003frg.2	+	2	569	c.539G>A	c.(538-540)CGC>CAC	p.R180H		NM_153708	NP_714919	P59025	RTP1_HUMAN	receptor transporting protein 1	180	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding			ovary(2)|breast(1)	3	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		GTGGCCAGCCGCCAGGACAAC	0.682													18	33					0	0	0.038395	0	0		A	186917605	A	A	186917605	3	1	74	1	0	0	0	0	1	0	0	0	13758	1087	38	1	545	1	RTP1	3	186917605	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	57695930	186917605	11104825	22	48624											
RGS12	6002	broad.mit.edu	37	chr4	3432142	3432142	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttccaatagagttttttGagcttatttccaaagctcag	10	17	6	8	0	2	2	1	1	1	1	4	2	4	2	2	0	2	3	2	0	4	8			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr4:3432142G>T	uc003ggw.2	+	17	4478	c.3574G>T	c.(3574-3576)GAG>TAG	p.E1192*	RGS12_uc003ggv.2_Nonsense_Mutation_p.E1192*|RGS12_uc003ggy.1_Missense_Mutation_p.L538F|RGS12_uc003ggz.2_Nonsense_Mutation_p.E544*|RGS12_uc011bvs.1_Missense_Mutation_p.L482F|RGS12_uc003gha.2_Nonsense_Mutation_p.E534*|RGS12_uc010icv.2_Nonsense_Mutation_p.E391*	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	1192	GoLoco.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		AGAGTTTTTTGAGCTTATTTC	0.468													19	51					5.3912e-06	5.58238e-06	0.038395	1	0		T	3432142	T	T	3432142	4	4	74	1	0	0	0	0	0	1	0	0	13320	1291	45	5	3694	5	RGS12	4	3432142	Nonsense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08		3432142	187722134	23	48625											
ANK2	287	broad.mit.edu	37	chr4	114223992	114223992	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgatgtttctgatgaaGagggtaagacttctattcaa	11	16	9	5	0	4	5	1	3	3	2	4	5	4	5	0	1	0	2	0	1	4	7			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr4:114223992G>T	uc003ibe.3	+	23	2645	c.2545G>T	c.(2545-2547)GAG>TAG	p.E849*	ANK2_uc003ibd.3_Nonsense_Mutation_p.E828*|ANK2_uc003ibf.3_Nonsense_Mutation_p.E849*|ANK2_uc011cgc.1_Nonsense_Mutation_p.E58*|ANK2_uc003ibc.2_Nonsense_Mutation_p.E825*|ANK2_uc011cgb.1_Nonsense_Mutation_p.E864*	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	849					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TTCTGATGAAGAGGGTAAGAC	0.363													4	33					0.00024832	0.000255315	0.009096	1	0		T	114223992	T	T	114223992	4	4	74	1	0	0	0	0	0	1	0	0	621	943	33	5	2660	5	ANK2	4	114223992	Nonsense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	110791850	114223992	76930284	24	48626											
FABP2	2169	broad.mit.edu	37	chr4	120241826	120241826	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaaaaaaaaattcttaccCtgagttcagttccgtctgct	14	13	5	9	1	3	1	1	1	2	0	4	1	4	1	2	0	2	3	2	0	7	5			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr4:120241826C>A	uc003icw.2	-	2	298	c.239G>T	c.(238-240)AGG>ATG	p.R80M		NM_000134	NP_000125	P12104	FABPI_HUMAN	intestinal fatty acid binding protein 2	80							fatty acid binding			ovary(1)	1						AATTCTTACCCTGAGTTCAGT	0.313													5	24					5.9392e-07	6.19374e-07	0.021553	1	0		A	120241826	A	A	120241826	3	1	74	1	0	0	0	0	1	0	0	0	5368	695	24	5	171	5	FABP2	4	120241826	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	6017834	120241826	70912450	25	48627											
PCDH10	57575	broad.mit.edu	37	chr4	134073167	134073167	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacagcatcgtgcgtggcaaCgaaatgaacctctttcgcat	11	10	9	11	4	1	1	0	1	1	0	3	2	1	1	1	1	5	3	1	1	4	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr4:134073167C>T	uc003iha.2	+	1	2698	c.1872C>T	c.(1870-1872)AAC>AAT	p.N624N	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.N624N	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	624	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TGCGTGGCAACGAAATGAACC	0.692													27	35					0	0	0.116897	0	0		T	134073167	T	T	134073167	2	4	74	1	0	0	0	0	0	0	0	1	11526	535	19	1		1	PCDH10	4	134073167	Silent	SNP	C	TCGA-BR-8373-01A-11D-2340-08	13831341	134073167	57081109	26	48628											
ADAM29	11086	broad.mit.edu	37	chr4	175897990	175897990	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgatggttctacttgtgcTtttgggctttgttgcaaaga	7	17	11	6	0	1	2	0	1	1	1	1	2	1	2	0	2	3	5	0	2	2	7			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr4:175897990T>G	uc003iuc.2	+	5	1984	c.1314T>G	c.(1312-1314)GCT>GCG	p.A438A	ADAM29_uc003iud.2_Silent_p.A438A|ADAM29_uc010irr.2_Silent_p.A438A|ADAM29_uc011cki.1_Silent_p.A438A	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	438	Disintegrin.|Extracellular (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		CTACTTGTGCTTTTGGGCTTT	0.438													26	43					0	0	0.099896	0	0		G	175897990	G	G	175897990	2	3	74	1	0	0	0	0	0	0	0	1	247	1596	56	5		5	ADAM29	4	175897990	Silent	SNP	T	TCGA-BR-8373-01A-11D-2340-08	41824823	175897990	15256286	27	48629											
ASB5	140458	broad.mit.edu	37	chr4	177146474	177146474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgctgcttcatgtagtggtGatcgatctgcccaggaacct	7	13	11	10	1	2	1	1	1	1	0	3	3	2	2	2	2	4	3	2	2	2	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr4:177146474G>A	uc003iuq.1	-	2	231	c.215C>T	c.(214-216)TCA>TTA	p.S72L	ASB5_uc003iup.1_Missense_Mutation_p.S19L	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	72	ANK 1.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		ATGTAGTGGTGATCGATCTGC	0.338													32	19					0	0	0.080422	0	0		A	177146474	A	A	177146474	3	1	74	1	0	0	0	0	1	0	0	0	1027	1294	45	4	798	4	ASB5	4	177146474	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	1248484	177146474	14007802	28	48630											
ADAMTS16	170690	broad.mit.edu	37	chr5	5235251	5235251	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgagcacaacagcagaCgattcagagggcggcactac	12	4	13	12	3	1	2	1	0	0	2	1	4	1	2	1	2	5	3	1	2	2	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr5:5235251C>T	uc003jdl.2	+	13	2113	c.1975C>T	c.(1975-1977)CGA>TGA	p.R659*	ADAMTS16_uc003jdk.1_Nonsense_Mutation_p.R659*|ADAMTS16_uc010itk.1_RNA	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	659	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CAACAGCAGACGATTCAGAGG	0.507													45	58					0	0	0.124865	0	0		T	5235251	T	T	5235251	4	4	74	1	0	0	0	0	0	1	0	0	261	528	19	1	2025	1	ADAMTS16	5	5235251	Nonsense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08		5235251	175680009	29	48631											
TAS2R1	50834	broad.mit.edu	37	chr5	9629277	9629277	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttactgtggaggaggaactTttttgcattttgtttcaatt	8	19	9	5	0	1	0	1	0	0	0	1	3	1	3	0	3	3	2	0	3	3	8			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr5:9629277T>A	uc003jem.1	-	1	1187	c.868A>T	c.(868-870)AAG>TAG	p.K290*		NM_019599	NP_062545	Q9NYW7	TA2R1_HUMAN	taste receptor T2R1	290	Cytoplasmic (Potential).				chemosensory behavior|sensory perception of taste	integral to membrane	taste receptor activity			ovary(3)	3						AGGAGGAACTTTTTTGCATTT	0.398													20	90					0	0	0.055883	0	0		A	9629277	A	A	9629277	4	1	74	1	0	0	0	0	0	1	0	0	15590	1850	64	5	35	5	TAS2R1	5	9629277	Nonsense_Mutation	SNP	T	TCGA-BR-8373-01A-11D-2340-08	4394026	9629277	171285983	30	48632											
CTNND2	1501	broad.mit.edu	37	chr5	11346621	11346621	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtaggggtccgcgtaattGgaggctgggccggcggcata	6	7	19	9	5	0	0	0	0	0	0	1	1	1	1	2	8	0	4	2	8	3	4			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr5:11346621G>A	uc003jfa.1	-	9	1636	c.1491C>T	c.(1489-1491)TCC>TCT	p.S497S	CTNND2_uc010itt.2_Silent_p.S406S|CTNND2_uc011cmy.1_Silent_p.S160S|CTNND2_uc011cmz.1_Silent_p.S64S|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Silent_p.S64S	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	497					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						CCGCGTAATTGGAGGCTGGGC	0.652													36	141					0	0	0.104719	0	0		A	11346621	A	A	11346621	2	1	74	1	0	0	0	0	0	0	0	1	4023	1335	47	4		4	CTNND2	5	11346621	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	1717344	11346621	169568639	31	48633											
DNAH5	1767	broad.mit.edu	37	chr5	13716678	13716678	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgaaatctggtccaaacAtattttcactgaaccaaacc	16	10	4	11	0	2	2	1	2	1	0	3	2	3	2	3	1	4	0	3	1	6	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr5:13716678A>G	uc003jfd.2	-	74	12869	c.12827T>C	c.(12826-12828)ATG>ACG	p.M4276T	DNAH5_uc003jfc.2_Missense_Mutation_p.M444T	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4276					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TGGTCCAAACATATTTTCACT	0.373									Kartagener_syndrome				12	45					0	0	0.080935	0	0		G	13716678	G	G	13716678	3	3	74	1	0	0	0	0	1	0	0	0	4610	217	8	3	1071	3	DNAH5	5	13716678	Missense_Mutation	SNP	A	TCGA-BR-8373-01A-11D-2340-08	2370057	13716678	167198582	32	48634											
C5orf42	65250	broad.mit.edu	37	chr5	37169353	37169353	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagataatccccaagcctctCttggttgtggcaaaggcctg	9	10	10	12	0	1	1	0	0	1	1	3	1	2	1	4	3	1	2	4	3	3	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr5:37169353C>A	uc011cpa.1	-	34	7004	c.6773G>T	c.(6772-6774)AGA>ATA	p.R2258I	C5orf42_uc011coy.1_Missense_Mutation_p.R758I|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.R1333I|C5orf42_uc003jkr.1_Missense_Mutation_p.R291I	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2258										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			CCAAGCCTCTCTTGGTTGTGG	0.443													23	120					1.22574e-08	1.28747e-08	0.069288	1	0		A	37169353	A	A	37169353	3	1	74	1	0	0	0	0	1	0	0	0	2304	913	32	5	2896	5	C5orf42	5	37169353	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	23452675	37169353	143745907	33	48635											
IQGAP2	10788	broad.mit.edu	37	chr5	75967731	75967731	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagatcatcgacgacaagtcGctgattatcaacacaaaccc	15	7	7	12	3	2	2	2	1	0	1	4	5	2	2	1	0	2	1	1	0	4	1	rs144328533	byFrequency	TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr5:75967731G>A	uc003kek.2	+	24	3213	c.2991G>A	c.(2989-2991)TCG>TCA	p.S997S	IQGAP2_uc010izv.2_Silent_p.S550S|IQGAP2_uc011csv.1_Silent_p.S493S|IQGAP2_uc003kel.2_Silent_p.S493S|IQGAP2_uc010izw.1_5'Flank	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	997	Ras-GAP.				small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		ACGACAAGTCGCTGATTATCA	0.502													10	10					0	0	0.058154	0	0		A	75967731	A	A	75967731	2	1	74	1	0	0	0	0	0	0	0	1	7831	1074	38	1		1	IQGAP2	5	75967731	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	38798378	75967731	104947529	34	48636											
ATP6AP1L	92270	broad.mit.edu	37	chr5	81613993	81613993	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccaacaatatgatctcatCgcctctcctgcccacttctc	9	11	4	17	1	3	1	1	1	3	0	7	2	3	1	4	0	2	0	4	0	3	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr5:81613993C>T	uc003khv.2	+	10	1874	c.549C>T	c.(547-549)ATC>ATT	p.I183I	ATP6AP1L_uc003khw.2_Silent_p.I183I	NM_001017971	NP_001017971	Q52LC2	VAS1L_HUMAN	ATPase, H+ transporting, lysosomal accessory	183					ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						ATGATCTCATCGCCTCTCCTG	0.557													3	36					0	0	0.115264	0	0		T	81613993	T	T	81613993	2	4	74	1	0	0	0	0	0	0	0	1	1167	874	31	1		1	ATP6AP1L	5	81613993	Silent	SNP	C	TCGA-BR-8373-01A-11D-2340-08	5646262	81613993	99301267	35	48637											
PCDHA6	56142	broad.mit.edu	37	chr5	140207976	140207976	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctgtgcgggcggagcgcGgagtgcagcatccacctgga	7	5	18	11	4	0	0	0	0	0	0	1	4	1	3	2	4	5	3	2	4	0	0			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr5:140207976G>A	uc003lho.2	+	1	327	c.300G>A	c.(298-300)GCG>GCA	p.A100A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.A100A|PCDHA6_uc011dab.1_Silent_p.A100A	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	100	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGGAGCGCGGAGTGCAGCA	0.582													50	130					0	0	0.139131	0	0		A	140207976	A	A	140207976	2	1	74	1	0	0	0	0	0	0	0	1	11547	1103	39	1		1	PCDHA6	5	140207976	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	58593983	140207976	40707284	36	48638											
PCDHB4	56131	broad.mit.edu	37	chr5	140502259	140502259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctaggtctggcacggtcatgGttcgaatcctgatcatggac	8	11	12	10	2	3	1	2	1	1	0	5	3	4	2	1	5	0	2	1	5	2	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr5:140502259G>A	uc003lip.1	+	1	679	c.679G>A	c.(679-681)GTT>ATT	p.V227I		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	227	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACGGTCATGGTTCGAATCCT	0.547													22	51					0	0	0.069288	0	0		A	140502259	A	A	140502259	3	1	74	1	0	0	0	0	1	0	0	0	11563	1261	44	4	681	4	PCDHB4	5	140502259	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	294283	140502259	40413001	37	48639											
PCDHB14	56122	broad.mit.edu	37	chr5	140604697	140604697	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagaccgcgggtccccggcGttgagcagcgaggcgctggt	6	5	17	13	6	0	2	0	1	0	1	1	3	1	2	3	4	2	3	3	4	0	1	rs147849897	byFrequency	TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr5:140604697G>T	uc003ljb.2	+	1	1620	c.1620G>T	c.(1618-1620)GCG>GCT	p.A540A	PCDHB14_uc011dal.1_Silent_p.A387A	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	540	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGTCCCCGGCGTTGAGCAGCG	0.682													4	73					0.00909568	0.00915841	0.009096	1	0		T	140604697	T	T	140604697	2	4	74	1	0	0	0	0	0	0	0	1	11558	1132	40	5		5	PCDHB14	5	140604697	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	102438	140604697	40310563	38	48640											
PCDHGA4	56111	broad.mit.edu	37	chr5	140736094	140736094	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatatttcactgcaagtgAtggacatcaatgacaaccca	14	10	6	11	0	3	2	3	2	0	0	3	3	3	3	1	1	2	1	1	1	4	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr5:140736094A>G	uc003ljq.1	+	1	1327	c.1327A>G	c.(1327-1329)ATG>GTG	p.M443V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.M443V	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	443	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTGCAAGTGATGGACATCAA	0.463													5	42					0	0	0.021553	0	0		G	140736094	G	G	140736094	3	3	74	1	0	0	0	0	1	0	0	0	11575	333	12	3	1329	3	PCDHGA4	5	140736094	Missense_Mutation	SNP	A	TCGA-BR-8373-01A-11D-2340-08	131397	140736094	40179166	39	48641											
BTNL3	10917	broad.mit.edu	37	chr5	180432479	180432479	+	Frame_Shift_Del	DEL	C	-	-																															gtggtggcttctcagggtttCcaagcagggaaacattactg																										TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr5:180432479delC	uc003mmr.2	+	8	1136	c.1008delC	c.(1006-1008)TTCfs	p.F336fs	BTNL3_uc010jlp.2_Frame_Shift_Del_p.F121fs	NM_197975	NP_932079	Q6UXE8	BTNL3_HUMAN	butyrophilin-like 3 precursor	336	B30.2/SPRY.|Cytoplasmic (Potential).				lipid metabolic process	integral to membrane					0	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.00336)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)|all_lung(500;0.248)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000272)			CTCAGGGTTTCCAAGCAGGGA	0.493													24	47	---	---	---	---						.	-	180432479	-	-	180432479	7	5	74	1	0	1	0	1	0	0	0	0	1569	854	30	0	1038	0	BTNL3	5	180432479	Frame_Shift_Del	DEL	C	TCGA-BR-8373-01A-11D-2340-08	39696385	180432479	482781	40	48642											
SCGN	10590	broad.mit.edu	37	chr6	25670264	25670264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctttcttcaccacaaaaaggCcatttctgaggctaaactgg	12	11	7	11	0	3	1	1	1	2	0	3	1	3	1	2	3	1	1	2	3	4	4			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr6:25670264C>T	uc003nfb.2	+	6	634	c.431C>T	c.(430-432)GCC>GTC	p.A144V	SCGN_uc010jpz.2_Missense_Mutation_p.P54S	NM_006998	NP_008929	O76038	SEGN_HUMAN	secretagogin precursor	144						extracellular region|transport vesicle membrane	calcium ion binding			ovary(2)|pancreas(1)	3						CACAAAAAGGCCATTTCTGAG	0.313													31	160					0	0	0.050027	0	0		T	25670264	T	T	25670264	3	4	74	1	0	0	0	0	1	0	0	0	13928	739	26	2	453	2	SCGN	6	25670264	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08		25670264	145444803	41	48643											
VPS52	6293	broad.mit.edu	37	chr6	33231791	33231791	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtccgaccctcacctgcagCtgtcccagcaattgcatggt	7	10	9	15	1	1	0	1	0	0	0	3	1	3	0	4	1	4	4	4	1	1	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr6:33231791C>T	uc003odm.1	-	15	1824	c.1614G>A	c.(1612-1614)CAG>CAA	p.Q538Q	VPS52_uc003odn.1_Silent_p.Q349Q	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52	538					protein transport	endosome membrane|Golgi apparatus				ovary(4)|skin(1)	5						TCACCTGCAGCTGTCCCAGCA	0.567													28	154					0	0	0.125774	0	0		T	33231791	T	T	33231791	2	4	74	1	0	0	0	0	0	0	0	1	17240	796	28	2		2	VPS52	6	33231791	Silent	SNP	C	TCGA-BR-8373-01A-11D-2340-08	7561527	33231791	137883276	42	48644											
DST	667	broad.mit.edu	37	chr6	56716385	56716385	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagacatagagcagcgataGgacgcgttcccggaactcta	13	6	12	10	4	1	2	0	0	1	2	2	6	2	4	1	2	3	2	1	2	5	4			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr6:56716385G>C	uc003pdf.2	-	4	463	c.435C>G	c.(433-435)TCC>TCG	p.S145S	DST_uc011dxj.1_5'UTR|DST_uc011dxk.1_Silent_p.S7S|DST_uc011dxl.1_5'UTR	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	Error:Variant_position_missing_in_Q03001_after_alignment					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			AGCAGCGATAGGACGCGTTCC	0.483											OREG0017515	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	29					0	0	0.014758	0	0		C	56716385	C	C	56716385	2	2	74	1	0	0	0	0	0	0	0	1	4789	1015	35	5		5	DST	6	56716385	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	23484594	56716385	114398682	43	48645											
PHACTR2	9749	broad.mit.edu	37	chr6	144075049	144075049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacaggcagaagataagaaaGgtaaaataaagacaaaccca	24	3	8	6	0	0	4	0	0	0	4	0	4	0	4	1	2	2	2	1	2	9	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr6:144075049G>A	uc003qjq.3	+	4	551	c.421G>A	c.(421-423)GAG>AAG	p.E141K	PHACTR2_uc010khh.2_Missense_Mutation_p.A141T|PHACTR2_uc010khi.2_Missense_Mutation_p.E152K|PHACTR2_uc003qjr.3_Missense_Mutation_p.A152T	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3	141							actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		AGATAAGAAAGGTAAAATAAA	0.393													6	16					0	0	0.021553	0	0		A	144075049	A	A	144075049	3	1	74	1	0	0	0	0	1	0	0	0	11829	1014	35	4	485	4	PHACTR2	6	144075049	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	87358664	144075049	27040018	44	48646											
SYNE1	23345	broad.mit.edu	37	chr6	152725384	152725384	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttctagatttttagttaaTtctttcagatcattaacttt	10	22	4	5	0	4	2	2	0	2	2	4	2	4	2	0	0	1	2	0	0	4	10			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr6:152725384T>C	uc010kiw.2	-	46	7391	c.6789A>G	c.(6787-6789)GAA>GAG	p.E2263E	SYNE1_uc003qot.3_Silent_p.E2270E|SYNE1_uc003qou.3_Silent_p.E2263E|SYNE1_uc010kjb.1_Silent_p.E2246E	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2263	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTTTAGTTAATTCTTTCAGAT	0.328										HNSCC(10;0.0054)			17	44					0	0	0.0333	0	0		C	152725384	C	C	152725384	2	2	74	1	0	0	0	0	0	0	0	1	15470	1490	52	3		3	SYNE1	6	152725384	Silent	SNP	T	TCGA-BR-8373-01A-11D-2340-08	8650335	152725384	18389683	45	48647											
TIAM2	26230	broad.mit.edu	37	chr6	155504497	155504497	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgattgcccggcctccggAcacaaaagcaaccctgtgta	10	8	9	14	2	1	1	0	1	1	0	2	2	2	2	4	2	3	2	4	2	4	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr6:155504497A>G	uc003qqb.2	+	16	4200	c.2927A>G	c.(2926-2928)GAC>GGC	p.D976G	TIAM2_uc003qqe.2_Missense_Mutation_p.D976G|TIAM2_uc010kjj.2_Missense_Mutation_p.D509G|TIAM2_uc003qqf.2_Missense_Mutation_p.D352G|TIAM2_uc011efl.1_Missense_Mutation_p.D312G|TIAM2_uc003qqg.2_Missense_Mutation_p.D288G	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	976	PDZ.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CGGCCTCCGGACACAAAAGCA	0.547													13	114					0	0	0.09319	0	0		G	155504497	G	G	155504497	3	3	74	1	0	0	0	0	1	0	0	0	15916	275	10	3	2969	3	TIAM2	6	155504497	Missense_Mutation	SNP	A	TCGA-BR-8373-01A-11D-2340-08	2779113	155504497	15610570	46	48648											
DGKB	1607	broad.mit.edu	37	chr7	14613993	14613993	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatcagattctcaccttcGtaacctagtgggaaaaaaaa	15	11	6	9	1	3	1	3	0	1	1	5	2	3	2	2	1	1	1	2	1	6	5			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr7:14613993G>A	uc003ssz.2	-	19	1804	c.1617C>T	c.(1615-1617)TAC>TAT	p.Y539Y	DGKB_uc011jxt.1_Silent_p.Y520Y|DGKB_uc003sta.2_Silent_p.Y539Y|DGKB_uc011jxu.1_Silent_p.Y538Y	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	539	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	TCTCACCTTCGTAACCTAGTG	0.323													11	47					0	0	0.080935	0	0		A	14613993	A	A	14613993	2	1	74	1	0	0	0	0	0	0	0	1	4472	1140	40	1		1	DGKB	7	14613993	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08		14613993	144524670	47	48649											
LHFPL3	375612	broad.mit.edu	37	chr7	104377349	104377349	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagaggaactgaaggcaGaaaacaaaggtaagattgct	17	6	13	5	0	0	4	0	1	0	3	0	5	0	5	0	4	3	4	0	4	6	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr7:104377349G>T	uc003vce.2	+	2	797	c.673G>T	c.(673-675)GAA>TAA	p.E225*	LHFPL3_uc003vcf.2_Nonsense_Mutation_p.E225*	NM_199000	NP_945351	Q86UP9	LHPL3_HUMAN	lipoma HMGIC fusion partner-like 3	211						integral to membrane					0						ACTGAAGGCAGAAAACAAAGG	0.433													3	7					0.004672	0.00473689	0.115264	1	0		T	104377349	T	T	104377349	4	4	74	1	0	0	0	0	0	1	0	0	8782	943	33	5	679	5	LHFPL3	7	104377349	Nonsense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	89763356	104377349	54761314	48	48650											
OR2A25	392138	broad.mit.edu	37	chr7	143772005	143772005	+	Frame_Shift_Del	DEL	G	-	-																															ctaaagatccagtcaggagaGgggtgccagaaagccttctc																										TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr7:143772005delG	uc011ktx.1	+	1	693	c.693delG	c.(691-693)GAGfs	p.E231fs		NM_001004488	NP_001004488	A4D2G3	O2A25_HUMAN	olfactory receptor, family 2, subfamily A,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					AGTCAGGAGAGGGGTGCCAGA	0.483													44	75	---	---	---	---						.	-	143772005	-	-	143772005	7	5	74	1	0	1	0	1	0	0	0	0	10997	991	35	0	695	0	OR2A25	7	143772005	Frame_Shift_Del	DEL	G	TCGA-BR-8373-01A-11D-2340-08	39394656	143772005	15366658	49	48651											
MSR1	4481	broad.mit.edu	37	chr8	16021687	16021687	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttatttcctgttccaaaTgcacttgttcttctttcata	7	21	3	10	0	3	0	1	0	2	0	5	0	5	0	2	0	1	3	2	0	3	9			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr8:16021687T>C	uc003wwz.2	-	5	902	c.704A>G	c.(703-705)CAT>CGT	p.H235R	MSR1_uc010lsu.2_Missense_Mutation_p.H253R|MSR1_uc003wxa.2_Missense_Mutation_p.H235R|MSR1_uc003wxb.2_Missense_Mutation_p.H235R|MSR1_uc011kxz.1_Missense_Mutation_p.H9R	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	235	Potential.|Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		CTGTTCCAAATGCACTTGTTC	0.353													9	6					0	0	0.047766	0	0		C	16021687	C	C	16021687	3	2	74	1	0	0	0	0	1	0	0	0	9904	1464	51	3	723	3	MSR1	8	16021687	Missense_Mutation	SNP	T	TCGA-BR-8373-01A-11D-2340-08		16021687	130342335	50	48652											
ADAM7	8756	broad.mit.edu	37	chr8	24358343	24358343	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcttgtcctggttattgtCggtatcggagttcttatact	5	18	11	7	2	1	0	0	0	1	0	4	1	2	1	1	3	2	4	1	3	4	7	rs149009178		TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr8:24358343C>T	uc003xeb.2	+	19	2156	c.2043C>T	c.(2041-2043)GTC>GTT	p.V681V	ADAM7_uc003xec.2_Silent_p.V453V	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	681	Helical; (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		TGGTTATTGTCGGTATCGGAG	0.378													11	56					0	0	0.09319	0	0		T	24358343	T	T	24358343	2	4	74	1	0	0	0	0	0	0	0	1	251	871	31	1		1	ADAM7	8	24358343	Silent	SNP	C	TCGA-BR-8373-01A-11D-2340-08	8336656	24358343	122005679	51	48653											
RUNX1T1	862	broad.mit.edu	37	chr8	92983012	92983012	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcgtgggctttccgctcCgcctcagacacggccttctg	4	11	11	15	4	2	1	1	0	1	1	5	1	4	1	4	2	0	2	4	2	0	2	rs142225049	by1000genomes	TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr8:92983012C>T	uc003yfd.2	-	10	1497	c.1413G>A	c.(1411-1413)GCG>GCA	p.A471A	RUNX1T1_uc003yfc.1_Silent_p.A444A|RUNX1T1_uc003yfe.1_Silent_p.A434A|RUNX1T1_uc010mao.2_Silent_p.A444A|RUNX1T1_uc011lgi.1_Silent_p.A482A|RUNX1T1_uc010man.1_Silent_p.A96A|RUNX1T1_uc003yfb.1_Silent_p.A434A	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	471			A -> V (in a colorectal cancer sample; somatic mutation).		generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			CTTTCCGCTCCGCCTCAGACA	0.617													10	35					0	0	0.058154	0	0		T	92983012	T	T	92983012	2	4	74	1	0	0	0	0	0	0	0	1	13772	639	23	1		1	RUNX1T1	8	92983012	Silent	SNP	C	TCGA-BR-8373-01A-11D-2340-08	68624669	92983012	53381010	52	48654											
SPAG1	6674	broad.mit.edu	37	chr8	101237549	101237549	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	caggagactccagcagccatCgccagcagggcatcacaggt	11	4	12	14	1	1	1	1	0	0	1	3	2	2	1	3	3	3	3	3	3	0	0			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr8:101237549C>G	uc003yjh.1	+	14	1923	c.1837C>G	c.(1837-1839)CGC>GGC	p.R613G	SPAG1_uc003yji.1_Missense_Mutation_p.R613G	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	613					single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		CAGCAGCCATCGCCAGCAGGG	0.468													19	29					0	0	0.049695	0	0		G	101237549	G	G	101237549	3	3	74	1	0	0	0	0	1	0	0	0	15000	884	31	5	1887	5	SPAG1	8	101237549	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	8254537	101237549	45126473	53	48655											
EIF3H	8667	broad.mit.edu	37	chr8	117658748	117658748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatcctggcaggcggctgtGgtggtttgaagagtttggac	6	11	16	8	1	0	2	0	1	0	1	1	3	1	3	2	6	0	4	2	6	1	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr8:117658748G>A	uc003yoa.2	-	7	949	c.923C>T	c.(922-924)CCA>CTA	p.P308L	EIF3H_uc003yob.2_Missense_Mutation_p.P322L	NM_003756	NP_003747	O15372	EIF3H_HUMAN	eukaryotic translation initiation factor 3,	308					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(3)	3	all_cancers(13;3.98e-22)|Lung NSC(37;0.000183)|Ovarian(258;0.0172)					AGGCGGCTGTGGTGGTTTGAA	0.547													73	125					0	0	0.139131	0	0		A	117658748	A	A	117658748	3	1	74	1	0	0	0	0	1	0	0	0	5026	1348	47	4	143	4	EIF3H	8	117658748	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	16421199	117658748	28705274	54	48656											
TJP2	9414	broad.mit.edu	37	chr9	71840295	71840295	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctggcaactaaagatggcaAccttcacgaaggagacataa	16	7	9	9	1	2	2	1	0	1	2	2	4	2	2	1	3	2	2	1	3	6	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr9:71840295A>G	uc004ahe.2	+	6	1228	c.1028A>G	c.(1027-1029)AAC>AGC	p.N343S	TJP2_uc011lrs.1_Missense_Mutation_p.N320S|TJP2_uc011lrt.1_Missense_Mutation_p.N320S|TJP2_uc004ahd.2_Missense_Mutation_p.N343S|TJP2_uc004ahf.2_Missense_Mutation_p.N343S|TJP2_uc011lru.1_Missense_Mutation_p.N347S|TJP2_uc011lrv.1_Missense_Mutation_p.N365S	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)	343	PDZ 2.				cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						AAAGATGGCAACCTTCACGAA	0.498													12	25					0	0	0.11911	0	0		G	71840295	G	G	71840295	3	3	74	1	0	0	0	0	1	0	0	0	15955	43	2	3	1207	3	TJP2	9	71840295	Missense_Mutation	SNP	A	TCGA-BR-8373-01A-11D-2340-08		71840295	69373136	55	48657											
C9orf135	138255	broad.mit.edu	37	chr9	72521031	72521031	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactctatcccttgactagTgggcctattgtgccaattta	10	14	7	10	0	1	1	0	1	1	0	2	1	2	1	3	1	2	0	3	1	6	7			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr9:72521031T>C	uc004ahl.2	+	6	734	c.669T>C	c.(667-669)AGT>AGC	p.S223S	C9orf135_uc011lrw.1_3'UTR|C9orf135_uc010moq.2_Silent_p.S115S|C9orf135_uc011lrx.1_RNA|C9orf135_uc010mop.2_3'UTR	NM_001010940	NP_001010940	Q5VTT2	CI135_HUMAN	hypothetical protein LOC138255	223	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						CCTTGACTAGTGGGCCTATTG	0.333													9	44					0	0	0.047766	0	0		C	72521031	C	C	72521031	2	2	74	1	0	0	0	0	0	0	0	1	2461	1693	59	3		3	C9orf135	9	72521031	Silent	SNP	T	TCGA-BR-8373-01A-11D-2340-08	680736	72521031	68692400	56	48658											
FBP1	2203	broad.mit.edu	37	chr9	97367856	97367856	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccccataaggagctgaattAtcctgcaagttaagaccagc	13	8	9	11	0	0	2	0	1	0	1	1	3	1	3	4	1	3	3	4	1	5	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr9:97367856A>C	uc004auw.3	-	6	1039	c.708T>G	c.(706-708)GAT>GAG	p.D236E	FBP1_uc010mrl.2_Missense_Mutation_p.D236E	NM_000507	NP_000498	P09467	F16P1_HUMAN	fructose-1,6-bisphosphatase 1	236					gluconeogenesis	cytosol	fructose 1,6-bisphosphate 1-phosphatase activity|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding|metal ion binding				0		Acute lymphoblastic leukemia(62;0.136)			Adenosine monophosphate(DB00131)	GAGCTGAATTATCCTGCAAGT	0.403													3	19					0	0	0.115264	0	0		C	97367856	C	C	97367856	3	2	74	1	0	0	0	0	1	0	0	0	5719	446	16	5	316	5	FBP1	9	97367856	Missense_Mutation	SNP	A	TCGA-BR-8373-01A-11D-2340-08	24846825	97367856	43845575	57	48659											
SUSD1	64420	broad.mit.edu	37	chr9	114840902	114840902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgtagttggtacccggacGtaggtccaagcacacctcgg	9	9	12	11	3	0	0	0	0	0	0	2	1	1	1	3	4	2	5	3	4	4	5			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr9:114840902G>A	uc004bfu.2	-	12	1710	c.1669C>T	c.(1669-1671)CGT>TGT	p.R557C	SUSD1_uc010mui.2_Missense_Mutation_p.R557C|SUSD1_uc010muj.2_Missense_Mutation_p.R557C	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	557	Extracellular (Potential).					integral to membrane	calcium ion binding				0						GTACCCGGACGTAGGTCCAAG	0.498													35	41					0	0	0.059317	0	0		A	114840902	A	A	114840902	3	1	74	1	0	0	0	0	1	0	0	0	15432	1145	40	1	598	1	SUSD1	9	114840902	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	17473046	114840902	26372529	58	48660											
SH2D3C	10044	broad.mit.edu	37	chr9	130504085	130504085	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgggccatgtccagggcAcccatgaccgccgcgaagct	8	5	12	16	3	0	1	0	1	0	0	1	2	1	1	6	2	1	2	6	2	1	0			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr9:130504085A>G	uc004bsc.2	-	9	2212	c.2070T>C	c.(2068-2070)GGT>GGC	p.G690G	SH2D3C_uc010mxo.2_Silent_p.G530G|SH2D3C_uc004bry.2_Silent_p.G532G|SH2D3C_uc004brz.3_Silent_p.G336G|SH2D3C_uc011mak.1_Silent_p.G336G|SH2D3C_uc004bsa.2_Silent_p.G533G|SH2D3C_uc004bsb.2_Silent_p.G622G	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a	690	Ras-GEF.				JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						TGTCCAGGGCACCCATGACCG	0.632													13	59					0	0	0.11911	0	0		G	130504085	G	G	130504085	2	3	74	1	0	0	0	0	0	0	0	1	14259	146	6	3		3	SH2D3C	9	130504085	Silent	SNP	A	TCGA-BR-8373-01A-11D-2340-08	15663183	130504085	10709346	59	48661											
GBGT1	26301	broad.mit.edu	37	chr9	136029548	136029548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccagcgggaccccgggaaCggctgcagggttgtcagtga	8	5	16	12	3	1	1	1	1	0	0	1	3	1	3	3	4	3	3	3	4	1	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr9:136029548C>T	uc004ccw.2	-	7	741	c.460G>A	c.(460-462)GTT>ATT	p.V154I	RALGDS_uc011mcw.1_Intron|GBGT1_uc004ccx.2_Missense_Mutation_p.V107I|GBGT1_uc010nab.2_3'UTR|GBGT1_uc011mcx.1_Missense_Mutation_p.V137I|GBGT1_uc010nac.1_Missense_Mutation_p.V18I|GBGT1_uc004ccy.1_3'UTR	NM_021996	NP_068836	Q8N5D6	GBGT1_HUMAN	globoside	154	Lumenal (Potential).				carbohydrate metabolic process|glycolipid biosynthetic process	Golgi membrane|integral to membrane	metal ion binding				0				OV - Ovarian serous cystadenocarcinoma(145;3.49e-06)|Epithelial(140;2.59e-05)		ACCCCGGGAACGGCTGCAGGG	0.602													18	19					0	0	0.038395	0	0		T	136029548	T	T	136029548	3	4	74	1	0	0	0	0	1	0	0	0	6287	536	19	1	587	1	GBGT1	9	136029548	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	5525463	136029548	5183883	60	48662											
ADAMTS13	11093	broad.mit.edu	37	chr9	136320437	136320437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtggggatggcatccagCgccggcgtgacacctgcctc	5	7	14	15	3	0	1	0	1	0	0	2	2	1	2	5	4	2	1	5	4	0	0			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr9:136320437C>T	uc004cdv.3	+	25	3724	c.3280C>T	c.(3280-3282)CGC>TGC	p.R1094C	ADAMTS13_uc004cdp.3_Missense_Mutation_p.R321C|ADAMTS13_uc004cdt.1_Missense_Mutation_p.R1094C|ADAMTS13_uc004cdu.1_Missense_Mutation_p.R1063C|ADAMTS13_uc004cdw.3_Missense_Mutation_p.R1094C|ADAMTS13_uc004cdx.3_Missense_Mutation_p.R1063C|ADAMTS13_uc004cdz.3_Missense_Mutation_p.R764C|ADAMTS13_uc004cea.1_5'Flank|ADAMTS13_uc004ceb.3_5'Flank	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1094	TSP type-1 8.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		TGGCATCCAGCGCCGGCGTGA	0.577													36	127					0	0	0.064281	0	0		T	136320437	T	T	136320437	3	4	74	1	0	0	0	0	1	0	0	0	258	768	27	1	3378	1	ADAMTS13	9	136320437	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	290889	136320437	4892994	61	48663											
MYO3A	53904	broad.mit.edu	37	chr10	26457674	26457674	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attatcacgtggagcagttaAatctaatgcgaaaggaagct	15	10	10	6	2	2	0	1	0	1	0	2	3	2	2	0	2	3	3	0	2	6	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr10:26457674A>C	uc001isn.2	+	28	3505	c.3145A>C	c.(3145-3147)AAT>CAT	p.N1049H	MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1049					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GGAGCAGTTAAATCTAATGCG	0.353													5	25					0	0	0.014758	0	0		C	26457674	C	C	26457674	3	2	74	1	0	0	0	0	1	0	0	0	10094	14	1	5	3247	5	MYO3A	10	26457674	Missense_Mutation	SNP	A	TCGA-BR-8373-01A-11D-2340-08		26457674	109077073	62	48664											
SLC18A3	6572	broad.mit.edu	37	chr10	50819913	50819913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagctcgtgcatcgtgcccgCctgccgctccttcgcgccgc	2	8	11	20	7	0	0	0	0	0	0	4	0	1	0	5	0	4	3	5	0	0	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr10:50819913C>T	uc001jhw.2	+	1	1567	c.1127C>T	c.(1126-1128)GCC>GTC	p.A376V	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	376	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						ATCGTGCCCGCCTGCCGCTCC	0.672													26	38					0	0	0.083992	0	0		T	50819913	T	T	50819913	3	4	74	1	0	0	0	0	1	0	0	0	14452	739	26	2	1129	2	SLC18A3	10	50819913	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	24362239	50819913	84714834	63	48665											
ZWINT	11130	broad.mit.edu	37	chr10	58119237	58119237	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctagggggacgaacctacCtgttgtagctgccactggtt	7	11	12	11	1	0	0	0	0	0	0	1	2	1	1	4	3	4	4	4	3	4	5			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr10:58119237C>G	uc001jjx.1	-	5	517	c.480G>C	c.(478-480)CAG>CAC	p.Q160H	ZWINT_uc001jjy.1_Missense_Mutation_p.Q160H|ZWINT_uc001jka.1_Missense_Mutation_p.Q160H|ZWINT_uc009xoy.1_RNA	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a	160	Potential.				cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0						ACGAACCTACCTGTTGTAGCT	0.488													6	43					0	0	0.02938	0	0		G	58119237	G	G	58119237	3	3	74	1	0	0	0	0	1	0	0	0	18274	695	24	5	369	5	ZWINT	10	58119237	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	7299324	58119237	77415510	64	48666			1	19		2	2	25	N	G_C	8.37263e-05
ZWINT	11130	broad.mit.edu	37	chr10	58119261	58119261	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgtagctgccactggttctgGactgctctgcgtttctccat	4	15	10	12	1	3	0	0	0	3	0	4	1	3	1	2	2	4	5	2	2	1	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr10:58119261G>C	uc001jjx.1	-	5	493	c.456C>G	c.(454-456)GTC>GTG	p.V152V	ZWINT_uc001jjy.1_Silent_p.V152V|ZWINT_uc001jka.1_Silent_p.V152V|ZWINT_uc009xoy.1_RNA	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a	152	Interaction with NDC80 and ZW10.|Potential.				cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0						ACTGGTTCTGGACTGCTCTGC	0.478													5	51					0	0	0.02938	0	0		C	58119261	C	C	58119261	2	2	74	1	0	0	0	0	0	0	0	1	18274	1161	41	5		5	ZWINT	10	58119261	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	24	58119261	77415486	65	48667			1	19		2	2	25	N	G_C	8.37263e-05
KCNK18	338567	broad.mit.edu	37	chr10	118969314	118969314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggcacatgtccttcacGcccaagctgcagcatggagc	9	8	10	14	1	1	0	1	0	0	0	2	1	2	1	2	2	4	4	2	2	1	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr10:118969314G>A	uc010qsr.1	+	3	659	c.659G>A	c.(658-660)CGC>CAC	p.R220H		NM_181840	NP_862823	Q7Z418	KCNKI_HUMAN	potassium channel, subfamily K, member 18	220	Cytoplasmic (Potential).					integral to membrane|plasma membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;0.19)		all cancers(201;0.0211)		TGTCCTTCACGCCCAAGCTGC	0.532													15	70					0	0	0.146539	0	0		A	118969314	A	A	118969314	3	1	74	1	0	0	0	0	1	0	0	0	8081	1087	38	1	669	1	KCNK18	10	118969314	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	60850053	118969314	16565433	66	48668											
EIF3A	8661	broad.mit.edu	37	chr10	120802173	120802173	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccggggaacccgatcatcGtctggtctaagagagggctc	8	7	14	12	4	3	1	1	0	2	1	5	4	3	2	2	4	1	1	2	4	2	1	rs148664870	byFrequency	TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr10:120802173G>A	uc001ldu.2	-	19	3005	c.2859C>T	c.(2857-2859)GAC>GAT	p.D953D	EIF3A_uc010qsu.1_Silent_p.D919D|EIF3A_uc009xzg.1_Translation_Start_Site	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	953	4.|Asp-rich.|25 X 10 AA approximate tandem repeats of [DE]-[DE]-[DE]-R-[SEVGFPILV]-[HPSN]- [RSW]-[RL]-[DRGTIHN]-[EPMANLGDT].				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		CCCGATCATCGTCTGGTCTAA	0.587													66	113					0	0	0.139131	0	0		A	120802173	A	A	120802173	2	1	74	1	0	0	0	0	0	0	0	1	5018	1136	40	1		1	EIF3A	10	120802173	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	1832859	120802173	14732574	67	48669											
OR56B1	387748	broad.mit.edu	37	chr11	5758675	5758675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaccaaagaacttagggcagCcttccaaaaggtgctgtttg	12	9	11	9	0	0	1	0	0	0	1	1	2	1	1	3	2	3	3	3	2	5	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr11:5758675C>T	uc001mbt.1	+	1	929	c.929C>T	c.(928-930)GCC>GTC	p.A310V	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005180	NP_001005180	Q8NGI3	O56B1_HUMAN	olfactory receptor, family 56, subfamily B,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.086)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.184)		CTTAGGGCAGCCTTCCAAAAG	0.423													87	107					0	0	0.139131	0	0		T	5758675	T	T	5758675	3	4	74	1	0	0	0	0	1	0	0	0	11156	739	26	2	931	2	OR56B1	11	5758675	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08		5758675	129247841	68	48670											
MRGPRX4	117196	broad.mit.edu	37	chr11	18194815	18194815	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgagcatggatccaacCgtcccagtcttcggtacaaa	10	11	8	12	2	2	1	0	1	2	0	5	2	4	2	3	2	3	2	3	2	3	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr11:18194815C>T	uc001mnv.1	+	1	432	c.12C>T	c.(10-12)ACC>ACT	p.T4T		NM_054032	NP_473373	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	4	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						TGGATCCAACCGTCCCAGTCT	0.438													21	117					0	0	0.049695	0	0		T	18194815	T	T	18194815	2	4	74	1	0	0	0	0	0	0	0	1	9787	639	23	1		1	MRGPRX4	11	18194815	Silent	SNP	C	TCGA-BR-8373-01A-11D-2340-08	12436140	18194815	116811701	69	48671											
OR8H3	390152	broad.mit.edu	37	chr11	55890770	55890770	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcattagagtcatgcagagaAgacaggactccaggtagtta	14	9	11	7	0	2	3	2	0	0	3	3	5	3	4	1	2	1	3	1	2	4	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr11:55890770A>C	uc001nii.1	+	1	922	c.922A>C	c.(922-924)AGA>CGA	p.R308R		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CATGCAGAGAAGACAGGACTC	0.338													15	42					0	0	0.146539	0	0		C	55890770	C	C	55890770	2	2	74	1	0	0	0	0	0	0	0	1	11258	64	3	5		5	OR8H3	11	55890770	Silent	SNP	A	TCGA-BR-8373-01A-11D-2340-08	37695955	55890770	79115746	70	48672											
OR8J1	219477	broad.mit.edu	37	chr11	56128326	56128326	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaacagttgtctttataTctgcagcaacaaatgtggtt	13	13	8	7	0	2	1	0	0	2	1	2	1	2	1	0	1	4	4	0	1	5	5			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr11:56128326T>C	uc010rjh.1	+	1	604	c.604T>C	c.(604-606)TCT>CCT	p.S202P		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	202	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TGTCTTTATATCTGCAGCAAC	0.299													9	23					0	0	0.058154	0	0		C	56128326	C	C	56128326	3	2	74	1	0	0	0	0	1	0	0	0	11260	1435	50	3	606	3	OR8J1	11	56128326	Missense_Mutation	SNP	T	TCGA-BR-8373-01A-11D-2340-08	237556	56128326	78878190	71	48673											
C11orf10	746	broad.mit.edu	37	chr11	61557967	61557967	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctcagtgaaaggatacacGaagaaccaggcggtgaagaa	16	5	13	7	2	1	4	1	2	0	2	1	6	1	5	1	3	3	1	1	3	6	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr11:61557967G>A	uc001nsf.2	-	2	166	c.111C>T	c.(109-111)TTC>TTT	p.F37F	FEN1_uc001nsg.2_5'Flank	NM_014206	NP_055021	P61165	CK010_HUMAN	hypothetical protein LOC746	37	Helical; (Potential).					integral to membrane				breast(1)	1						AAGGATACACGAAGAACCAGG	0.542													4	13					0	0	0.009096	0	0		A	61557967	A	A	61557967	2	1	74	1	0	0	0	0	0	0	0	1	1633	1049	37	1		1	C11orf10	11	61557967	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	5429641	61557967	73448549	72	48674											
SLC22A10	387775	broad.mit.edu	37	chr11	63066406	63066406	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tatcaggtggctggtggaatCtgctcggtggttgataatca	8	13	14	6	1	3	1	2	1	1	0	4	2	3	2	0	6	1	3	0	6	3	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr11:63066406C>G	uc009yor.2	+	5	1053	c.845C>G	c.(844-846)TCT>TGT	p.S282C	SLC22A10_uc010rmo.1_RNA|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_Missense_Mutation_p.S122C	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	282	Extracellular (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						CTGGTGGAATCTGCTCGGTGG	0.398													5	62					0	0	0.021553	0	0		G	63066406	G	G	63066406	3	3	74	1	0	0	0	0	1	0	0	0	14466	913	32	5	863	5	SLC22A10	11	63066406	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	1508439	63066406	71940110	73	48675											
CABP4	57010	broad.mit.edu	37	chr11	67225880	67225880	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacgaattacggtggcggaGctgcgggaggcggtaccggc	7	5	20	9	6	0	0	0	0	0	0	0	4	0	3	1	8	4	2	1	8	3	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr11:67225880G>A	uc001olo.2	+	5	767	c.690G>A	c.(688-690)GAG>GAA	p.E230E	CABP4_uc001oln.2_Silent_p.E125E	NM_145200	NP_660201	P57796	CABP4_HUMAN	calcium binding protein 4	230	EF-hand 3.|2 (Potential).				visual perception	cytoplasm|extracellular region|terminal button	calcium ion binding				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			CGGTGGCGGAGCTGCGGGAGG	0.647													8	68					0	0	0.058154	0	0		A	67225880	A	A	67225880	2	1	74	1	0	0	0	0	0	0	0	1	2536	962	34	2		2	CABP4	11	67225880	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	4159474	67225880	67780636	74	48676											
AQP11	282679	broad.mit.edu	37	chr11	77314623	77314623	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagtctaacaggagctgtAtttaatccagctttggcact	11	12	10	8	0	1	0	0	0	1	0	2	2	2	2	1	3	3	4	1	3	4	5			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr11:77314623A>C	uc001oyj.2	+	2	1000	c.642A>C	c.(640-642)GTA>GTC	p.V214V	AQP11_uc009yuu.2_RNA	NM_173039	NP_766627	Q8NBQ7	AQP11_HUMAN	aquaporin 11	214	Helical; Name=5; (Potential).					cell surface|integral to membrane	transporter activity				0	all_cancers(14;1.75e-17)|all_epithelial(13;4.7e-20)|Ovarian(111;0.249)		Epithelial(5;4.73e-49)|BRCA - Breast invasive adenocarcinoma(5;1.4e-30)			CAGGAGCTGTATTTAATCCAG	0.363													33	74					0	0	0.144211	0	0		C	77314623	C	C	77314623	2	2	74	1	0	0	0	0	0	0	0	1	823	436	16	5		5	AQP11	11	77314623	Silent	SNP	A	TCGA-BR-8373-01A-11D-2340-08	10088743	77314623	57691893	75	48677											
GPRC5A	9052	broad.mit.edu	37	chr12	13061831	13061831	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggcccacatctacctcacGatgctcctctccattgccat	7	10	7	17	1	3	0	1	0	2	0	5	1	4	0	5	2	3	1	5	2	1	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr12:13061831G>A	uc001rba.2	+	2	1298	c.648G>A	c.(646-648)ACG>ACA	p.T216T	GPRC5A_uc001raz.2_Silent_p.T216T	NM_003979	NP_003970	Q8NFJ5	RAI3_HUMAN	G protein-coupled receptor, family C, group 5,	216	Helical; Name=6; (Potential).					cytoplasmic vesicle membrane|Golgi apparatus|integral to plasma membrane	G-protein coupled receptor activity				0		Prostate(47;0.141)		BRCA - Breast invasive adenocarcinoma(232;0.0708)	Tretinoin(DB00755)	TCTACCTCACGATGCTCCTCT	0.577													67	94					0	0	0.139131	0	0		A	13061831	A	A	13061831	2	1	74	1	0	0	0	0	0	0	0	1	6740	1045	37	1		1	GPRC5A	12	13061831	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08		13061831	120790064	76	48678											
CAPRIN2	65981	broad.mit.edu	37	chr12	30872159	30872159	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttgcctgggggaattgctgCctggggaggagaaatgcagc	8	8	17	8	0	0	1	0	0	0	1	0	4	0	3	2	5	5	2	2	5	2	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr12:30872159C>A	uc001rji.1	-	13	2900	c.2149G>T	c.(2149-2151)GCA>TCA	p.A717S	CAPRIN2_uc001rjf.1_Missense_Mutation_p.A514S|CAPRIN2_uc001rjg.1_Missense_Mutation_p.A384S|CAPRIN2_uc001rjh.1_Intron|CAPRIN2_uc001rjj.1_Missense_Mutation_p.A384S|CAPRIN2_uc001rjk.3_Missense_Mutation_p.A717S|CAPRIN2_uc001rjl.3_Missense_Mutation_p.A682S|CAPRIN2_uc001rjm.1_Missense_Mutation_p.A349S	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	717					negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					GGAATTGCTGCCTGGGGAGGA	0.498													20	75					7.45023e-12	7.88212e-12	0.055883	1	0		A	30872159	A	A	30872159	3	1	74	1	0	0	0	0	1	0	0	0	2639	753	26	5	1258	5	CAPRIN2	12	30872159	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	17810328	30872159	102979736	77	48679											
SHMT2	6472	broad.mit.edu	37	chr12	57628067	57628067	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaaggactcagaaacaagtCagcgtctggccaacctcagg	13	7	10	11	1	4	1	3	0	1	1	4	2	4	2	2	3	3	0	2	3	4	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr12:57628067C>T	uc001snf.1	+	12	1448	c.1438C>T	c.(1438-1440)CAG>TAG	p.Q480*	SHMT2_uc001sng.1_Nonsense_Mutation_p.Q376*|SHMT2_uc001snh.1_Nonsense_Mutation_p.Q319*|SHMT2_uc009zpk.1_Nonsense_Mutation_p.Q470*|SHMT2_uc001sni.1_Nonsense_Mutation_p.Q459*|SHMT2_uc010srg.1_Nonsense_Mutation_p.Q489*|SHMT2_uc001snj.1_Nonsense_Mutation_p.Q384*|SHMT2_uc010srh.1_Nonsense_Mutation_p.Q459*|SHMT2_uc001snk.1_Nonsense_Mutation_p.Q384*|SHMT2_uc010sri.1_Nonsense_Mutation_p.Q459*|SHMT2_uc001snl.2_Nonsense_Mutation_p.Q384*|SHMT2_uc010srj.1_Nonsense_Mutation_p.Q135*	NM_005412	NP_005403	P34897	GLYM_HUMAN	serine hydroxymethyltransferase 2	480						microtubule cytoskeleton|mitochondrial nucleoid	glycine hydroxymethyltransferase activity|methyltransferase activity			ovary(1)|central_nervous_system(1)	2					Glycine(DB00145)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	AGAAACAAGTCAGCGTCTGGC	0.542													53	98					0	0	0.139131	0	0		T	57628067	T	T	57628067	4	4	74	1	0	0	0	0	0	1	0	0	14311	827	29	4	1484	4	SHMT2	12	57628067	Nonsense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	26755908	57628067	76223828	78	48680											
UTP20	27340	broad.mit.edu	37	chr12	101759386	101759386	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcagtgaaaatcttcccctGttaacagagaaagaaaagta	18	9	7	7	0	2	3	1	1	1	2	3	4	3	3	2	0	1	2	2	0	7	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr12:101759386G>C	uc001tia.1	+	46	6264	c.6108G>C	c.(6106-6108)CTG>CTC	p.L2036L		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	2036					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						ATCTTCCCCTGTTAACAGAGA	0.353													3	16					0	0	0.115264	0	0		C	101759386	C	C	101759386	2	2	74	1	0	0	0	0	0	0	0	1	17125	1364	48	5		5	UTP20	12	101759386	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	44131319	101759386	32092509	79	48681											
ALOX5AP	241	broad.mit.edu	37	chr13	31338224	31338224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctccaccaccatctcccCtctacttctcattccctaac	8	12	1	20	0	4	0	1	0	4	0	8	1	5	0	6	0	2	0	6	0	2	4			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr13:31338224C>T	uc001utf.1	+	5	541	c.467C>T	c.(466-468)CCT>CTT	p.P156L	ALOX5AP_uc010tdr.1_Missense_Mutation_p.P213L	NM_001629	NP_001620	P20292	AL5AP_HUMAN	arachidonate 5-lipoxygenase-activating protein	156	Lumenal.				cellular response to calcium ion|leukotriene biosynthetic process|leukotriene production involved in inflammatory response|protein homotrimerization	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	arachidonic acid binding|protein N-terminus binding				0		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0187)|Epithelial(112;0.0803)|OV - Ovarian serous cystadenocarcinoma(117;0.0864)		ACCATCTCCCCTCTACTTCTC	0.413													46	67					0	0	0.139131	0	0		T	31338224	T	T	31338224	3	4	74	1	0	0	0	0	1	0	0	0	541	681	24	4	485	4	ALOX5AP	13	31338224	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08		31338224	83831654	80	48682											
HSPA2	3306	broad.mit.edu	37	chr14	65009426	65009426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttaccaaggtggtcctggcgGcggcagcggcggcggcggtt	4	7	19	11	6	0	0	0	0	0	0	1	0	1	0	2	9	2	2	2	9	2	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr14:65009426G>A	uc001xhj.2	+	2	1935	c.1859G>A	c.(1858-1860)GGC>GAC	p.G620D	HSPA2_uc001xhk.3_Missense_Mutation_p.G620D	NM_021979	NP_068814	P54652	HSP72_HUMAN	heat shock 70kDa protein 2	620					response to unfolded protein|spermatid development	cell surface	ATP binding|unfolded protein binding			skin(1)	1				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)		GGTCCTggcggcggcagcggc	0.433													17	9					0	0	0.038395	0	0		A	65009426	A	A	65009426	3	1	74	1	0	0	0	0	1	0	0	0	7427	1203	42	2	1861	2	HSPA2	14	65009426	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08		65009426	42340114	81	48683											
HEATR4	399671	broad.mit.edu	37	chr14	73989212	73989212	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgcttgctctggatccatcgGgctgtgcgctcgttcagctt	3	13	12	13	4	2	0	1	0	1	0	5	1	3	1	1	2	3	6	1	2	0	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr14:73989212G>T	uc010tub.1	-	3	967	c.645C>A	c.(643-645)GCC>GCA	p.A215A	HEATR4_uc010tua.1_Silent_p.A168A	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		GGATCCATCGGGCTGTGCGCT	0.602													9	27					0.000274275	0.000280029	0.047766	1	0		T	73989212	T	T	73989212	2	4	74	1	0	0	0	0	0	0	0	1	7046	1219	43	5		5	HEATR4	14	73989212	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	8979786	73989212	33360328	82	48684											
AHNAK2	113146	broad.mit.edu	37	chr14	105418917	105418917	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgggcagagacacctcGccatcgggggctgtcacttc	7	8	13	13	2	1	1	1	0	0	1	4	2	1	1	2	3	1	3	2	3	0	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr14:105418917G>A	uc010axc.1	-	7	2991	c.2871C>T	c.(2869-2871)GGC>GGT	p.G957G	AHNAK2_uc001ypx.2_Silent_p.G857G	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	957						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GAGACACCTCGCCATCGGGGG	0.632													116	102					0	0	0.139131	0	0		A	105418917	A	A	105418917	2	1	74	1	0	0	0	0	0	0	0	1	415	1074	38	1		1	AHNAK2	14	105418917	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	31429705	105418917	1930623	83	48685											
PIAS1	8554	broad.mit.edu	37	chr15	68445992	68445992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttcttcttcagaggttacGagcaaagggaataaggaatc	14	10	11	6	1	3	1	1	0	2	1	4	4	3	3	0	3	2	3	0	3	5	5			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr15:68445992G>A	uc002aqz.2	+	7	989	c.893G>A	c.(892-894)CGA>CAA	p.R298Q	PIAS1_uc010ujx.1_Missense_Mutation_p.R298Q	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	298					androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						CAGAGGTTACGAGCAAAGGGA	0.328													3	5					0	0	0.014758	0	0		A	68445992	A	A	68445992	3	1	74	1	0	0	0	0	1	0	0	0	11894	1058	37	1	919	1	PIAS1	15	68445992	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08		68445992	34085400	84	48686											
PTX4	390667	broad.mit.edu	37	chr16	1538406	1538406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaccccgcgtgggagtccGggaggccgttcacaccgact	6	6	15	14	5	1	0	1	0	0	0	2	4	2	3	5	4	0	1	5	4	0	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr16:1538406G>A	uc010uvf.1	-	1	63	c.63C>T	c.(61-63)CCC>CCT	p.P21P		NM_001013658	NP_001013680	Q96A99	PTX4_HUMAN	neuronal pentraxin II-like	Error:Variant_position_missing_in_Q96A99_after_alignment						extracellular region	metal ion binding				0						GTGGGAGTCCGGGAGGCCGTT	0.657													5	61					0	0	0.014758	0	0		A	1538406	A	A	1538406	2	1	74	1	0	0	0	0	0	0	0	1	12848	1103	39	1		1	PTX4	16	1538406	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08		1538406	88816347	85	48687											
ABAT	18	broad.mit.edu	37	chr16	8858686	8858686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccatcttcatgtggtaccGggtgaggtttggggcacaca	8	10	14	9	1	2	1	1	1	1	0	2	2	2	1	2	5	1	3	2	5	1	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr16:8858686G>A	uc002czc.3	+	8	705	c.539G>A	c.(538-540)CGG>CAG	p.R180Q	ABAT_uc002czd.3_Missense_Mutation_p.R180Q|ABAT_uc010buh.2_Missense_Mutation_p.R122Q|ABAT_uc010bui.2_Missense_Mutation_p.R180Q	NM_020686	NP_065737	P80404	GABT_HUMAN	4-aminobutyrate aminotransferase precursor	180					behavioral response to cocaine|gamma-aminobutyric acid catabolic process|neurotransmitter catabolic process|neurotransmitter secretion	4-aminobutyrate transaminase complex|mitochondrial matrix	(S)-3-amino-2-methylpropionate transaminase activity|4-aminobutyrate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|succinate-semialdehyde dehydrogenase binding			upper_aerodigestive_tract(1)	1					Divalproex sodium(DB00510)|Isoniazid(DB00951)|L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)|Tiagabine(DB00906)|Valproic Acid(DB00313)|Vigabatrin(DB01080)	ATGTGGTACCGGGTGAGGTTT	0.522													23	22					0	0	0.083992	0	0		A	8858686	A	A	8858686	3	1	74	1	0	0	0	0	1	0	0	0	27	1130	39	1	565	1	ABAT	16	8858686	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	7320280	8858686	81496067	86	48688											
KIAA0182	23199	broad.mit.edu	37	chr16	85695249	85695249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagcctggctcgccctaccGgcccccagtgccacgggccc	5	4	12	20	3	0	0	0	0	0	0	1	1	0	0	7	3	3	1	7	3	2	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr16:85695249G>A	uc002fix.2	+	9	2212	c.2138G>A	c.(2137-2139)CGG>CAG	p.R713Q	KIAA0182_uc002fiw.2_Missense_Mutation_p.R609Q|KIAA0182_uc002fiy.2_Missense_Mutation_p.R640Q|KIAA0182_uc002fiz.2_5'Flank|KIAA0182_uc010cho.2_5'Flank	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	713	Pro-rich.						protein binding			large_intestine(3)|ovary(1)|skin(1)	5						TCGCCCTACCGGCCCCCAGTG	0.697													3	10					0	0	0.115264	0	0		A	85695249	A	A	85695249	3	1	74	1	0	0	0	0	1	0	0	0	8175	1116	39	1	2172	1	KIAA0182	16	85695249	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	76836563	85695249	4659504	87	48689											
ZCCHC14	23174	broad.mit.edu	37	chr16	87525317	87525317	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcgcgccgcccggcccGggcgcgcccttgccgccgtg	1	3	17	20	9	0	0	0	0	0	0	0	0	0	0	6	3	2	1	6	3	0	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr16:87525317G>A	uc002fjz.1	-	1	144	c.117C>T	c.(115-117)CCC>CCT	p.P39P	ZCCHC14_uc002fka.1_RNA|uc002fkc.1_5'Flank	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	39					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		cgcccggcccgggcgcgccct	0.488													4	2					0	0	0.009096	0	0		A	87525317	A	A	87525317	2	1	74	1	0	0	0	0	0	0	0	1	17608	1103	39	1		1	ZCCHC14	16	87525317	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	1830068	87525317	2829436	88	48690											
NEURL4	84461	broad.mit.edu	37	chr17	7224449	7224449	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcccaggccatgctcctcGccctcgtcatcctcctcgcc	4	9	6	22	3	1	0	1	0	0	0	8	0	5	0	7	1	1	1	7	1	0	0			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr17:7224449G>A	uc002gga.1	-	20	3349	c.3342C>T	c.(3340-3342)GGC>GGT	p.G1114G	NEURL4_uc002gfy.1_5'Flank|GPS2_uc002gfz.1_5'Flank|NEURL4_uc002ggb.1_Silent_p.G1112G	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	1114							protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						CATGCTCCTCGCCCTCGTCAT	0.602													22	19					0	0	0.083992	0	0		A	7224449	A	A	7224449	2	1	74	1	0	0	0	0	0	0	0	1	10366	1074	38	1		1	NEURL4	17	7224449	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08		7224449	73970761	89	48691											
SYNGR2	9144	broad.mit.edu	37	chr17	76167103	76167103	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaacgccactgaccgcaAgtacctggtcattggtgacc	10	7	10	14	2	1	2	1	2	0	0	1	2	1	2	4	2	3	3	4	2	3	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr17:76167103A>T	uc002juu.1	+	2	332	c.305A>T	c.(304-306)AAG>ATG	p.K102M	SYNGR2_uc002jut.2_Missense_Mutation_p.K102M|SYNGR2_uc002juv.1_Missense_Mutation_p.K102M|SYNGR2_uc010dhi.1_Intron	NM_004710	NP_004701	O43760	SNG2_HUMAN	synaptogyrin 2	102	MARVEL.					integral to plasma membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.0994)			ACTGACCGCAAGTACCTGGTC	0.587													13	47					0	0	0.09319	0	0		T	76167103	T	T	76167103	3	4	74	1	0	0	0	0	1	0	0	0	15474	72	3	5	311	5	SYNGR2	17	76167103	Missense_Mutation	SNP	A	TCGA-BR-8373-01A-11D-2340-08	68942654	76167103	5028107	90	48692											
DNAH17	8632	broad.mit.edu	37	chr17	76422673	76422673	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccacgtcggtcgtgatggtCagttctccctaggagacaca	8	10	11	12	3	2	2	1	1	1	1	6	3	3	2	2	3	0	1	2	3	1	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr17:76422673C>T	uc010dhp.1	-	24	4002	c.3780G>A	c.(3778-3780)CTG>CTA	p.L1260L	DNAH17_uc002jvq.2_Silent_p.L545L|DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			TCGTGATGGTCAGTTCTCCCT	0.612													7	63					0	0	0.058154	0	0		T	76422673	T	T	76422673	2	4	74	1	0	0	0	0	0	0	0	1	4607	813	29	4		4	DNAH17	17	76422673	Silent	SNP	C	TCGA-BR-8373-01A-11D-2340-08	255570	76422673	4772537	91	48693											
LAMA1	284217	broad.mit.edu	37	chr18	7037694	7037694	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagtgcatcttgctgagaCgggatcttcctgggactgat	7	12	12	10	1	2	2	0	2	2	1	3	5	3	4	2	2	2	2	2	2	1	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr18:7037694C>T	uc002knm.2	-	12	1714	c.1620G>A	c.(1618-1620)CCG>CCA	p.P540P	LAMA1_uc010wzj.1_Silent_p.P16P	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	540	Laminin IV type A 1.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTTGCTGAGACGGGATCTTCC	0.507													27	33					0	0	0.099896	0	0		T	7037694	T	T	7037694	2	4	74	1	0	0	0	0	0	0	0	1	8621	523	19	1		1	LAMA1	18	7037694	Silent	SNP	C	TCGA-BR-8373-01A-11D-2340-08		7037694	71039554	92	48694											
SLC14A2	8170	broad.mit.edu	37	chr18	43248324	43248324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctgccaggtcggccatcGctgcaggatttcacggctac	6	9	11	15	3	1	0	1	0	0	0	4	1	2	1	3	4	3	3	3	4	1	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr18:43248324G>A	uc010dnj.2	+	16	2239	c.1918G>A	c.(1918-1920)GCT>ACT	p.A640T	SLC14A2_uc002lbe.2_Missense_Mutation_p.A640T	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	640	Helical; (Potential).					apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						GTCGGCCATCGCTGCAGGATT	0.567													16	47					0	0	0.0333	0	0		A	43248324	A	A	43248324	3	1	74	1	0	0	0	0	1	0	0	0	14422	1087	38	1	1972	1	SLC14A2	18	43248324	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	36210630	43248324	34828924	93	48695											
ZNF560	147741	broad.mit.edu	37	chr19	9577900	9577900	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaggctttcccacatttcaTacattcatagggtttctctc	9	15	6	11	0	3	0	2	0	1	0	6	1	4	0	1	2	1	2	1	2	3	6			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr19:9577900T>G	uc002mlp.1	-	10	1933	c.1723A>C	c.(1723-1725)ATG>CTG	p.M575L	ZNF560_uc010dwr.1_Missense_Mutation_p.M469L	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	575	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						CCACATTTCATACATTCATAG	0.393													68	37					0	0	0.139131	0	0		G	9577900	G	G	9577900	3	3	74	1	0	0	0	0	1	0	0	0	18016	1406	49	5	653	5	ZNF560	19	9577900	Missense_Mutation	SNP	T	TCGA-BR-8373-01A-11D-2340-08		9577900	49551083	94	48696											
BRD4	23476	broad.mit.edu	37	chr19	15353741	15353741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggtccgacttgtggtgccGgggtgaatggtggtgctgga	4	10	21	6	2	0	1	0	1	0	0	1	3	1	2	2	8	2	1	2	8	1	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr19:15353741G>A	uc002nar.2	-	14	3361	c.3139C>T	c.(3139-3141)CGG>TGG	p.R1047W		NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	1047					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			TTGTGGTGCCGGGGTGAATGG	0.657			T	NUT|C15orf55	lethal midline carcinoma of young people								4	7					0	0	0.014758	0	0		A	15353741	A	A	15353741	3	1	74	1	0	0	0	0	1	0	0	0	1507	1115	39	1	977	1	BRD4	19	15353741	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08	5775841	15353741	43775242	95	48697											
IFI30	10437	broad.mit.edu	37	chr19	18285919	18285919	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtcaatgtgaccctctacTatgaagcactgtgcggtggc	8	12	11	10	1	2	2	1	2	1	0	2	2	2	2	1	2	3	1	1	2	4	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr19:18285919T>A	uc002nic.1	+	2	275	c.202T>A	c.(202-204)TAT>AAT	p.Y68N	PIK3R2_uc002nib.1_RNA	NM_006332	NP_006323	P13284	GILT_HUMAN	interferon, gamma-inducible protein 30	68					antigen processing and presentation of exogenous peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway	cell junction|extracellular region|lysosome	oxidoreductase activity, acting on a sulfur group of donors				0						GACCCTCTACTATGAAGCACT	0.572													6	65					0	0	0.021553	0	0		A	18285919	A	A	18285919	3	1	74	1	0	0	0	0	1	0	0	0	7531	1522	53	5	208	5	IFI30	19	18285919	Missense_Mutation	SNP	T	TCGA-BR-8373-01A-11D-2340-08	2932178	18285919	40843064	96	48698											
PDE4C	5143	broad.mit.edu	37	chr19	18329839	18329839	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtccccacttgttggtgtCttctagctcctaagatatga	9	14	8	10	0	2	2	0	1	2	1	4	2	4	2	3	1	1	2	3	1	4	6			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr19:18329839C>A	uc010xqc.1	-	9	1456	c.976G>T	c.(976-978)GAC>TAC	p.D326Y	PDE4C_uc002nik.3_Missense_Mutation_p.D326Y|PDE4C_uc002nil.3_Missense_Mutation_p.D326Y|PDE4C_uc002nif.3_Missense_Mutation_p.D95Y|PDE4C_uc002nig.3_Missense_Mutation_p.D96Y|PDE4C_uc002nih.3_Missense_Mutation_p.D96Y|PDE4C_uc010ebk.2_Missense_Mutation_p.D220Y|PDE4C_uc002nii.3_Missense_Mutation_p.D294Y|PDE4C_uc010ebl.2_Missense_Mutation_p.D40Y|PDE4C_uc010xqd.1_Missense_Mutation_p.D95Y	NM_001098819	NP_001092289	Q08493	PDE4C_HUMAN	phosphodiesterase 4C isoform PDE4C-2	326					signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|skin(2)|central_nervous_system(1)	5					Dyphylline(DB00651)	TTGTTGGTGTCTTCTAGCTCC	0.517													25	63					4.26978e-12	4.55027e-12	0.083992	1	0		A	18329839	A	A	18329839	3	1	74	1	0	0	0	0	1	0	0	0	11660	913	32	5	1190	5	PDE4C	19	18329839	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	43920	18329839	40799144	97	48699											
KLC3	147700	broad.mit.edu	37	chr19	45852836	45852836	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgggccccatgaccccaaCgtggccaagaccaagaacaa	13	2	11	15	2	0	3	0	1	0	2	0	3	0	3	6	3	2	0	6	3	5	0			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr19:45852836C>T	uc002pbf.1	+	8	1234	c.1119C>T	c.(1117-1119)AAC>AAT	p.N373N	KLC3_uc010ejy.1_Silent_p.N372N|KLC3_uc002pbg.1_Silent_p.N387N	NM_177417	NP_803136	Q6P597	KLC3_HUMAN	kinesin light chain 3	373						cytoplasm|kinesin complex|microtubule	microtubule motor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		ATGACCCCAACGTGGCCAAGA	0.642													10	34					0	0	0.058154	0	0		T	45852836	T	T	45852836	2	4	74	1	0	0	0	0	0	0	0	1	8351	535	19	1		1	KLC3	19	45852836	Silent	SNP	C	TCGA-BR-8373-01A-11D-2340-08	27522997	45852836	13276147	98	48700											
CD33	945	broad.mit.edu	37	chr19	51742771	51742771	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccttctttcctctccataAgaaacaccagaagaagtcca	13	9	4	15	0	2	3	0	0	2	3	5	3	4	3	6	0	1	0	6	0	4	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr19:51742771A>C	uc002pwa.2	+	7	965	c.925_splice	c.e7-2	p.K309_splice	CD33_uc010eos.1_3'UTR|CD33_uc010eot.1_Splice_Site_p.K182_splice|CD33_uc010eou.1_RNA	NM_001772	NP_001763	P20138	CD33_HUMAN	CD33 antigen isoform 1 precursor						cell adhesion|cell-cell signaling|negative regulation of cell proliferation	external side of plasma membrane|integral to plasma membrane	receptor activity|sugar binding				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	CCTCTCCATAAGAAACACCAG	0.502													5	27					0	0	0.021553	0	0		C	51742771	C	C	51742771	5	2	74	1	0	0	0	0	0	0	1	0	3008	86	3	5	962	5	CD33	19	51742771	Splice_Site	SNP	A	TCGA-BR-8373-01A-11D-2340-08	5889935	51742771	7386212	99	48701											
FASTKD5	60493	broad.mit.edu	37	chr20	3129655	3129655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacttcggactgcaccaaagGcagaaggactgcaaaatgct	14	6	10	11	1	0	1	0	0	0	1	1	3	0	3	1	3	3	4	1	3	4	1			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr20:3129655G>A	uc002whz.2	-	2	373	c.62C>T	c.(61-63)GCC>GTC	p.A21V	uc002whv.1_Intron|UBOX5_uc002whw.2_Intron|UBOX5_uc002whx.2_Intron|UBOX5_uc002why.1_Intron	NM_021826	NP_068598	Q7L8L6	FAKD5_HUMAN	FAST kinase domains 5	21					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity				0						TGCACCAAAGGCAGAAGGACT	0.473													36	65					0	0	0.080422	0	0		A	3129655	A	A	3129655	3	1	74	1	0	0	0	0	1	0	0	0	5702	1203	42	2	2236	2	FASTKD5	20	3129655	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08		3129655	59895865	100	48702											
PTPRT	11122	broad.mit.edu	37	chr20	40710603	40710603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgatgttttgctgctggatCatctcacacacactgcagat	10	13	8	10	0	2	2	2	1	1	1	3	3	2	3	0	1	3	4	0	1	0	2			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr20:40710603C>T	uc002xkg.2	-	30	4375	c.4191G>A	c.(4189-4191)ATG>ATA	p.M1397I	PTPRT_uc010ggj.2_Missense_Mutation_p.M1416I|PTPRT_uc010ggi.2_Missense_Mutation_p.M600I	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1397	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GCTGCTGGATCATCTCACACA	0.498													22	90					0	0	0.076483	0	0		T	40710603	T	T	40710603	3	4	74	1	0	0	0	0	1	0	0	0	12837	826	29	4	142	4	PTPRT	20	40710603	Missense_Mutation	SNP	C	TCGA-BR-8373-01A-11D-2340-08	37580948	40710603	22314917	101	48703											
SFRS6	6431	broad.mit.edu	37	chr20	42087128	42087129	+	In_Frame_Ins	INS	-	GCTACA	GCTACA																															cccgcgtcgcgatcgcgacgINSgctacagctacggaagccgc																										TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr20:42087128_42087129insGCTACA	uc010zwg.1	+	2	405_406	c.235_236insGCTACA	c.(235-237)GGC>GGCTACAGC	p.81_82insYS	SFRS6_uc002xki.2_5'UTR|SFRS6_uc002xkk.2_In_Frame_Ins_p.81_82insYS	NM_006275	NP_006266	Q13247	SRSF6_HUMAN	arginine/serine-rich splicing factor 6	81_82					mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			CGATCGCGACGGCTACAGCTAC	0.752													2	4	---	---	---	---						.	GCTACA	42087129	GCTACA	GCTACA	42087128	7	5	74	1	0	1	1	0	0	0	0	0	14206	1116	39	0	241	0	SFRS6	20	42087128	In_Frame_Ins	INS	-	TCGA-BR-8373-01A-11D-2340-08	1376525	42087128	20938392	102	48704											
KRTAP10-2	386679	broad.mit.edu	37	chr21	45971299	45971299	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtccacctgccaggagtTggtgcaggcgctggagcaga	7	7	16	11	2	0	1	0	0	0	1	2	3	1	3	3	4	3	4	3	4	0	1	rs233240	by1000genomes	TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr21:45971299T>C	uc002zfi.1	-	1	90	c.43A>G	c.(43-45)AAC>GAC	p.N15D	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198693	NP_941966	P60368	KR102_HUMAN	keratin associated protein 10-2	15						keratin filament		p.N15D(1)		large_intestine(1)	1						TGCCAGGAGTTGGTGCAGGCG	0.597													5	88					0	0	0.014758	0	0		C	45971299	C	C	45971299	3	2	74	1	0	0	0	0	1	0	0	0	8525	1812	63	3	728	3	KRTAP10-2	21	45971299	Missense_Mutation	SNP	T	TCGA-BR-8373-01A-11D-2340-08		45971299	2158596	103	48705											
RAB36	9609	broad.mit.edu	37	chr22	23503113	23503113	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgtagccgccctggcattcGagcagtcggtgctgcaggac	6	7	15	13	4	0	0	0	0	0	0	2	2	0	1	2	3	4	5	2	3	1	2	rs145390018		TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr22:23503113G>A	uc002zwv.1	+	10	905	c.865G>A	c.(865-867)GAG>AAG	p.E289K	RAB36_uc010gtw.1_Missense_Mutation_p.E267K	NM_004914	NP_004905	O95755	RAB36_HUMAN	RAB36, member RAS oncogene family	289					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.155)		CCTGGCATTCGAGCAGTCGGT	0.607													20	46					0	0	0.043863	0	0		A	23503113	A	A	23503113	3	1	74	1	0	0	0	0	1	0	0	0	12951	1059	37	1	903	1	RAB36	22	23503113	Missense_Mutation	SNP	G	TCGA-BR-8373-01A-11D-2340-08		23503113	27801453	104	48706											
SELO	83642	broad.mit.edu	37	chr22	50647001	50647001	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttttaagtctgcagatgaGcacacagggcgtgcaggccc	10	9	12	10	1	1	2	0	1	1	1	1	2	1	2	1	2	3	3	1	2	1	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chr22:50647001G>A	uc011arr.1	+	3	853	c.795G>A	c.(793-795)GAG>GAA	p.E265E	SELO_uc010hap.2_Silent_p.E76E|SELO_uc003bjy.2_5'UTR|SELO_uc003bjz.2_5'Flank	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O	265											0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		CTGCAGATGAGCACACAGGGC	0.552													4	67					0	0	0.009096	0	0		A	50647001	A	A	50647001	2	1	74	1	0	0	0	0	0	0	0	1	14043	962	34	2		2	SELO	22	50647001	Silent	SNP	G	TCGA-BR-8373-01A-11D-2340-08	27143888	50647001	657565	105	48707											
VCX	26609	broad.mit.edu	37	chrX	7812055	7812055	+	Nonstop_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaagaactaccgagtgtgTagacggccaagtactcccct	11	8	11	11	2	0	2	0	0	0	2	1	4	1	3	4	2	3	2	4	2	6	3			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chrX:7812055T>A	uc004crz.2	+	3	838	c.619T>A	c.(619-621)TAG>AAG	p.*207K		NM_013452	NP_038480	Q9H320	VCX1_HUMAN	variable charge, X chromosome	207					chromatin organization|ribosome assembly|spermatogenesis	nucleolus	chromatin binding				0		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)				ACCGAGTGTGTAGACGGCCAA	0.572													4	34					0	0	0.009096	0	0		A	7812055	A	A	7812055	4	1	74	1	0	0	0	0	0	0	0	0	17168	1651	57	5	625	5	VCX	23	7812055	Nonstop_Mutation	SNP	T	TCGA-BR-8373-01A-11D-2340-08		7812055	147458505	106	48708											
BRS3	680	broad.mit.edu	37	chrX	135572290	135572290	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctctgattatgtgtttctAgatacaaggcagttgtgaag	10	14	11	6	0	2	3	0	2	2	1	2	3	2	3	1	1	1	3	1	1	5	5			TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chrX:135572290A>G	uc004ezv.1	+	2	584	c.435_splice	c.e2-2	p.R145_splice		NM_001727	NP_001718	P32247	BRS3_HUMAN	bombesin-like receptor 3						adult feeding behavior|glucose metabolic process|regulation of blood pressure	integral to membrane|plasma membrane	bombesin receptor activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					ATGTGTTTCTAGATACAAGGC	0.313													4	61					0	0	0.009096	0	0		G	135572290	G	G	135572290	5	3	74	1	0	0	0	0	0	0	1	0	1525	434	15	3	439	3	BRS3	23	135572290	Splice_Site	SNP	A	TCGA-BR-8373-01A-11D-2340-08	127760235	135572290	19698270	107	48709											
MAGEA12	4111	broad.mit.edu	37	chrX	151896273	151896273	+	RNA	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggtttttttgaagcggCggtcttttagggagagcctt	6	15	13	7	2	2	2	1	1	1	1	2	3	2	2	1	4	2	1	1	4	2	6	rs2471768	by1000genomes	TCGA-BR-8373-01A-11D-2340-08	TCGA-BR-8373-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	1f2a8889-4374-4037-bb56-0f20733380e3	2c5cc2c4-1c45-478b-9575-8e0206bb7de3	g.chrX:151896273C>T	uc004fgb.2	-	4		c.494G>A						P43365	MAGAC_HUMAN	Homo sapiens melanoma antigen family A, 12, mRNA (cDNA clone MGC:4914 IMAGE:3450217), complete cds.											skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TTTGAAGCGGCGGTCTTTTAG	0.502													4	72					0	0	0.009096	0	0		T	151896273	T	T	151896273	1	4	74	0	1	0	0	0	0	0	0	0	9184	783	27	1		1	MAGEA12	23	151896273	RNA	SNP	C	TCGA-BR-8373-01A-11D-2340-08	16323983	151896273	3374287	108	48710											
ARID1A	8289	broad.mit.edu	37	chr1	27107180	27107180	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgttggacatctcggtatCaccgttgatgaactcattgg	8	13	11	9	2	3	2	2	2	1	0	4	3	3	3	1	3	1	4	1	3	2	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr1:27107180C>A	uc001bmv.1	+	20	7164	c.6791C>A	c.(6790-6792)TCA>TAA	p.S2264*	ARID1A_uc001bmu.1_Nonsense_Mutation_p.S2047*|ARID1A_uc001bmx.1_Nonsense_Mutation_p.S1110*|ARID1A_uc009vsm.1_Nonsense_Mutation_p.S592*|ARID1A_uc009vsn.1_Nonsense_Mutation_p.S506*	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2264					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.S2264*(1)		ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		ATCTCGGTATCACCGTTGATG	0.547			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								11	142					1.08611e-07	1.21696e-07	0.010729	1	0		A	27107180	A	A	27107180	4	1	75	1	0	0	0	0	0	1	0	0	913	838	29	5	6869	5	ARID1A	1	27107180	Nonsense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08		27107180	222143441	1	48711											
LRRC7	57554	broad.mit.edu	37	chr1	70493942	70493942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaatttggtgggtaagcCaagccatggagtgcgtgttg	10	11	14	6	1	1	0	1	0	0	0	1	1	1	1	2	3	3	2	2	3	4	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr1:70493942C>T	uc001dep.2	+	16	1799	c.1769C>T	c.(1768-1770)CCA>CTA	p.P590L	LRRC7_uc009wbg.2_Intron	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	590						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GTGGGTAAGCCAAGCCATGGA	0.403													12	58					0	0	0.013537	0	0		T	70493942	T	T	70493942	3	4	75	1	0	0	0	0	1	0	0	0	9038	594	21	4	1831	4	LRRC7	1	70493942	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	43386762	70493942	178756679	2	48712											
LRRC7	57554	broad.mit.edu	37	chr1	70504683	70504683	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggccacaacaacaaaaagCttctatgacaaaaaaagtct	19	6	7	9	0	2	1	0	1	2	0	2	1	2	1	1	2	3	1	1	2	8	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr1:70504683C>A	uc001dep.2	+	19	3092	c.3062C>A	c.(3061-3063)GCT>GAT	p.A1021D	LRRC7_uc009wbg.2_Missense_Mutation_p.A305D|LRRC7_uc001deq.2_Missense_Mutation_p.A262D	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1021						centrosome|focal adhesion|nucleolus	protein binding	p.A1021S(1)		ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CAACAAAAAGCTTCTATGACA	0.453													6	44					0.00116845	0.00122786	0.001168	1	0		A	70504683	A	A	70504683	3	1	75	1	0	0	0	0	1	0	0	0	9038	797	28	5	3136	5	LRRC7	1	70504683	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	10741	70504683	178745938	3	48713											
TCHH	7062	broad.mit.edu	37	chr1	152084711	152084711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcctcctgctgctcgcGcctctcctgctgctcgcgcc	0	11	8	22	4	2	0	0	0	2	0	7	0	3	0	6	0	4	4	6	0	0	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr1:152084711G>A	uc001ezp.2	-	2	982	c.982C>T	c.(982-984)CGC>TGC	p.R328C	TCHH_uc009wne.1_Missense_Mutation_p.R328C	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	328	5 X 13 AA tandem repeats of R-R-E-Q-E-E- E-R-R-E-Q-Q-L.|1-2; approximate.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			tgctgctcgcgcctctcctgc	0													10	76					0	0	0.006214	0	0		A	152084711	A	A	152084711	3	1	75	1	0	0	0	0	1	0	0	0	15725	1087	38	1	4853	1	TCHH	1	152084711	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	81580028	152084711	97165910	4	48714											
FLG2	388698	broad.mit.edu	37	chr1	152327388	152327388	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatgttggccaaagccagaGgattgacctgagcctgacct	10	8	11	12	0	0	4	0	3	0	1	0	5	0	5	6	2	2	1	6	2	1	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr1:152327388G>T	uc001ezw.3	-	3	2947	c.2874C>A	c.(2872-2874)TCC>TCA	p.S958S	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	958	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CAAAGCCAGAGGATTGACCTG	0.502													65	573					1.85135e-42	2.13883e-42	0.01441	1	0		T	152327388	T	T	152327388	2	4	75	1	0	0	0	0	0	0	0	1	5937	987	35	5		5	FLG2	1	152327388	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	242677	152327388	96923233	5	48715											
TDRD10	126668	broad.mit.edu	37	chr1	154516513	154516513	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactcatccatagcgtccGtggggaggcggggctgctgg	5	7	18	11	3	1	0	1	0	0	0	3	1	3	1	2	7	2	3	2	7	1	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr1:154516513G>T	uc009wow.2	+	9	1416	c.578G>T	c.(577-579)CGT>CTT	p.R193L	TDRD10_uc001ffd.2_Missense_Mutation_p.R193L|TDRD10_uc001ffe.2_Missense_Mutation_p.R114L	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	193							nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			CATAGCGTCCGTGGGGAGGCG	0.617													9	161					0.000442599	0.00047042	0.006214	1	0		T	154516513	T	T	154516513	3	4	75	1	0	0	0	0	1	0	0	0	15756	1145	40	5	608	5	TDRD10	1	154516513	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	2189125	154516513	94734108	6	48716											
NOS1AP	9722	broad.mit.edu	37	chr1	162325084	162325084	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatgtcctggaattcagcCgaggtgtgactgatctagat	10	12	12	7	1	2	4	1	3	1	1	3	6	3	5	2	2	1	0	2	2	2	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr1:162325084C>T	uc001gbv.2	+	7	1090	c.703C>T	c.(703-705)CGA>TGA	p.R235*	NOS1AP_uc010pkr.1_Nonsense_Mutation_p.R230*|NOS1AP_uc010pks.1_RNA|NOS1AP_uc001gbw.2_Nonsense_Mutation_p.R230*	NM_014697	NP_055512	O75052	CAPON_HUMAN	nitric oxide synthase 1 (neuronal) adaptor	235					regulation of apoptosis|regulation of nitric oxide biosynthetic process|regulation of nitric-oxide synthase activity		nitric-oxide synthase binding|PDZ domain binding			lung(2)|upper_aerodigestive_tract(1)	3	all_hematologic(112;0.203)		BRCA - Breast invasive adenocarcinoma(70;0.0537)			GGAATTCAGCCGAGGTGTGAC	0.577													11	130					0	0	0.010729	0	0		T	162325084	T	T	162325084	4	4	75	1	0	0	0	0	0	1	0	0	10561	644	23	1	729	1	NOS1AP	1	162325084	Nonsense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	7808571	162325084	86925537	7	48717											
NFASC	23114	broad.mit.edu	37	chr1	204951064	204951064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcagaccccagtctacgtgCcctatgagatccgagtccag	9	7	11	14	2	1	2	0	1	1	2	3	4	3	2	5	1	2	1	5	1	2	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr1:204951064C>T	uc001hbj.2	+	21	2714	c.2386C>T	c.(2386-2388)CCC>TCC	p.P796S	NFASC_uc010pra.1_Missense_Mutation_p.P792S|NFASC_uc001hbi.2_Missense_Mutation_p.P792S|NFASC_uc010prb.1_Missense_Mutation_p.P807S|NFASC_uc010prc.1_Missense_Mutation_p.P363S|NFASC_uc001hbk.1_Missense_Mutation_p.P602S|NFASC_uc001hbl.1_Missense_Mutation_p.P46S	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	796	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			AGTCTACGTGCCCTATGAGAT	0.577													22	30					0	0	0.010504	0	0		T	204951064	T	T	204951064	3	4	75	1	0	0	0	0	1	0	0	0	10378	739	26	2	2544	2	NFASC	1	204951064	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	42625980	204951064	44299557	8	48718											
KCNH1	3756	broad.mit.edu	37	chr1	211192417	211192417	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacaaccagccaggccacaTtattctgcctggttttgaag	11	10	8	12	0	1	1	0	1	1	0	1	1	1	1	4	2	4	1	4	2	4	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr1:211192417T>C	uc001hib.2	-	6	910	c.740A>G	c.(739-741)AAT>AGT	p.N247S	KCNH1_uc001hic.2_Missense_Mutation_p.N247S	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	247	Extracellular (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		CCAGGCCACATTATTCTGCCT	0.443													7	101					0	0	0.001984	0	0		C	211192417	C	C	211192417	3	2	75	1	0	0	0	0	1	0	0	0	8047	1493	52	3	2253	3	KCNH1	1	211192417	Missense_Mutation	SNP	T	TCGA-BR-8381-01A-11D-2394-08	6241353	211192417	38058204	9	48719											
DISP1	84976	broad.mit.edu	37	chr1	223179252	223179252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaaacatggaagccaatGtgcctgctgtattaacacac	13	9	8	11	0	0	0	0	0	0	0	0	1	0	1	3	1	6	2	3	1	5	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr1:223179252G>A	uc001hnu.1	+	8	4660	c.4513G>A	c.(4513-4515)GTG>ATG	p.V1505M		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1505					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		GGAAGCCAATGTGCCTGCTGT	0.388													8	85					0	0	0.004482	0	0		A	223179252	A	A	223179252	3	1	75	1	0	0	0	0	1	0	0	0	4545	1377	48	4	4539	4	DISP1	1	223179252	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	11986835	223179252	26071369	10	48720											
CHML	1122	broad.mit.edu	37	chr1	241798733	241798733	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagcaccaatctcttcaacGttgtcctccatatcctgact	10	12	5	14	1	2	2	1	1	1	1	6	2	5	2	4	0	2	2	4	0	3	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr1:241798733G>A	uc001hzd.2	-	1	500	c.336C>T	c.(334-336)AAC>AAT	p.N112N	OPN3_uc001hza.2_Intron|OPN3_uc001hzb.2_Intron|OPN3_uc001hzc.2_Intron	NM_001821	NP_001812	P26374	RAE2_HUMAN	choroideremia-like Rab escort protein 2	112					intracellular protein transport|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(4)|skin(2)	6	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			TCTCTTCAACGTTGTCCTCCA	0.428													14	378					0	0	0.00245	0	0		A	241798733	A	A	241798733	2	1	75	1	0	0	0	0	0	0	0	1	3354	1136	40	1		1	CHML	1	241798733	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	18619481	241798733	7451888	11	48721											
SLC30A3	7781	broad.mit.edu	37	chr2	27481713	27481713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcaggggtaaggcccggcGgcggaagggggtccctgtgg	5	6	20	10	3	1	0	1	0	1	0	3	1	2	1	2	9	0	1	2	9	2	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr2:27481713G>A	uc002rjk.2	-	2	371	c.185C>T	c.(184-186)CCG>CTG	p.P62L	SLC30A3_uc002rjj.2_5'Flank|SLC30A3_uc010ylh.1_Missense_Mutation_p.P57L	NM_003459	NP_003450	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter),	62	Cytoplasmic (Potential).				regulation of sequestering of zinc ion	cell junction|integral to plasma membrane|late endosome|membrane fraction|synaptic vesicle membrane	zinc transporting ATPase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAGGCCCGGCGGCGGAAGGGG	0.617													13	31					0	0	0.013537	0	0		A	27481713	A	A	27481713	3	1	75	1	0	0	0	0	1	0	0	0	14581	1116	39	1	1009	1	SLC30A3	2	27481713	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08		27481713	215717660	12	48722											
FSHR	2492	broad.mit.edu	37	chr2	49195873	49195873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaaaggcacagcaatggCtgggataggtgaggctggct	10	8	16	7	0	0	1	0	1	0	0	0	2	0	2	0	6	2	6	0	6	3	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr2:49195873C>T	uc002rww.2	-	9	892	c.818G>A	c.(817-819)AGC>AAC	p.S273N	FSHR_uc002rwx.2_Intron|FSHR_uc010fbn.2_Missense_Mutation_p.S247N	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	273	Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	ACAGCAATGGCTGGGATAGGT	0.483									Gonadal_Dysgenesis_46_XX				18	60					0	0	0.010504	0	0		T	49195873	T	T	49195873	3	4	75	1	0	0	0	0	1	0	0	0	6087	797	28	2	1277	2	FSHR	2	49195873	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	21714160	49195873	194003500	13	48723											
ANAPC1	64682	broad.mit.edu	37	chr2	112566679	112566679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgtgaatgctaagaagcCgagtaatagacatatccatg	16	9	10	6	1	0	3	0	1	0	2	1	5	1	3	2	0	2	2	2	0	7	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr2:112566679C>T	uc002thi.2	-	29	3924	c.3677G>A	c.(3676-3678)CGG>CAG	p.R1226Q		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	1226					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						GCTAAGAAGCCGAGTAATAGA	0.463													7	110					0	0	0.001984	0	0		T	112566679	T	T	112566679	3	4	75	1	0	0	0	0	1	0	0	0	598	652	23	1	2237	1	ANAPC1	2	112566679	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	63370806	112566679	130632694	14	48724											
FBLN7	129804	broad.mit.edu	37	chr2	112940369	112940369	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcacttctgtctgcagaCgtgaacgagtgtgagctcta	9	11	12	9	2	3	4	0	3	3	1	3	5	3	4	0	0	4	3	0	0	2	2	rs147423265	byFrequency	TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr2:112940369C>T	uc002tho.1	+	6	943	c.672C>T	c.(670-672)GAC>GAT	p.D224D	FBLN7_uc002thn.2_Silent_p.D224D|FBLN7_uc010fki.1_Silent_p.D178D|FBLN7_uc010fkj.1_Intron	NM_153214	NP_694946	Q53RD9	FBLN7_HUMAN	fibulin 7 isoform 1	224	EGF-like 2; calcium-binding (Potential).				cell adhesion	proteinaceous extracellular matrix	calcium ion binding|heparin binding			ovary(1)|central_nervous_system(1)	2						TGTCTGCAGACGTGAACGAGT	0.607													4	69					0	0	0.009096	0	0		T	112940369	T	T	112940369	2	4	75	1	0	0	0	0	0	0	0	1	5715	550	19	1		1	FBLN7	2	112940369	Silent	SNP	C	TCGA-BR-8381-01A-11D-2394-08	373690	112940369	130259004	15	48725											
WDSUB1	151525	broad.mit.edu	37	chr2	160128292	160128292	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccactcagtgtacttttatAttttaattcaaaacctgcaa	13	15	3	10	0	2	0	2	0	0	0	2	0	2	0	2	0	3	2	2	0	7	7			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr2:160128292A>G	uc002uaj.3	-	5	840	c.691T>C	c.(691-693)TAT>CAT	p.Y231H	WDSUB1_uc002uak.3_Missense_Mutation_p.Y231H|WDSUB1_uc002ual.3_Missense_Mutation_p.Y231H|WDSUB1_uc002uam.3_Missense_Mutation_p.Y231H|WDSUB1_uc010foo.2_Intron	NM_152528	NP_689741	Q8N9V3	WSDU1_HUMAN	WD repeat, sterile alpha motif and U-box domain	231						ubiquitin ligase complex	ubiquitin-protein ligase activity				0						GTACTTTTATATTTTAATTCA	0.363													4	31					0	0	0.000602	0	0		G	160128292	G	G	160128292	3	3	75	1	0	0	0	0	1	0	0	0	17367	449	16	3	767	3	WDSUB1	2	160128292	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08	47187923	160128292	83071081	16	48726											
ZDBF2	57683	broad.mit.edu	37	chr2	207170039	207170039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatcaaataggaaatctttaCgcatgaattcagataagttg	17	12	7	5	1	3	2	2	1	1	1	3	3	3	3	0	1	1	2	0	1	7	6			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr2:207170039C>T	uc002vbp.2	+	5	1037	c.787C>T	c.(787-789)CGC>TGC	p.R263C		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	263							nucleic acid binding|zinc ion binding			ovary(3)	3						GAAATCTTTACGCATGAATTC	0.388													3	15					0	0	0.009096	0	0		T	207170039	T	T	207170039	3	4	75	1	0	0	0	0	1	0	0	0	17624	536	19	1	797	1	ZDBF2	2	207170039	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	47041747	207170039	36029334	17	48727											
ADAM23	8745	broad.mit.edu	37	chr2	207413054	207413054	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctctgaattacagtggttGaaaagaaggaagagagcagt	15	9	12	5	0	1	4	0	2	1	2	2	6	1	5	0	2	2	2	0	2	6	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr2:207413054G>A	uc002vbq.2	+	8	1066	c.843G>A	c.(841-843)TTG>TTA	p.L281L	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	281					cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		TACAGTGGTTGAAAAGAAGGA	0.413													10	81					0	0	0.010729	0	0		A	207413054	A	A	207413054	2	1	75	1	0	0	0	0	0	0	0	1	245	1281	45	4		4	ADAM23	2	207413054	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	243015	207413054	35786319	18	48728											
CNTN4	152330	broad.mit.edu	37	chr3	2613203	2613203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgaagatgaggttgccatggGaactgctggtactgcaatca	11	10	13	7	0	1	3	1	2	0	1	1	4	1	4	1	3	5	4	1	3	4	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr3:2613203G>A	uc003bpc.2	+	3	237	c.16G>A	c.(16-18)GAA>AAA	p.E6K	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Missense_Mutation_p.E6K	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	6					axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		GTTGCCATGGGAACTGCTGGT	0.368													11	50					0	0	0.010729	0	0		A	2613203	A	A	2613203	3	1	75	1	0	0	0	0	1	0	0	0	3646	1175	41	4	18	4	CNTN4	3	2613203	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08		2613203	195409227	19	48729											
NUP210	23225	broad.mit.edu	37	chr3	13395089	13395089	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggcagagctgaggtgggactCctggtagccagtggcagtgg	7	7	19	8	0	0	2	0	1	0	1	1	3	1	3	2	6	2	4	2	6	1	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr3:13395089C>G	uc003bxv.1	-	18	2676	c.2593G>C	c.(2593-2595)GAG>CAG	p.E865Q	NUP210_uc003bxw.2_Missense_Mutation_p.E41Q|NUP210_uc003bxx.2_Missense_Mutation_p.E537Q	NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	865	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					AGGTGGGACTCCTGGTAGCCA	0.587													8	67					0	0	0.00308	0	0		G	13395089	G	G	13395089	3	3	75	1	0	0	0	0	1	0	0	0	10779	864	30	5	3162	5	NUP210	3	13395089	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	10781886	13395089	184627341	20	48730											
NEK10	152110	broad.mit.edu	37	chr3	27152780	27152780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttcatcttttggttgggtGattcttggtcccccatggat	4	19	10	8	0	3	1	1	1	2	0	4	2	4	2	2	4	0	1	2	4	0	7			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr3:27152780G>A	uc010hfk.2	-	17	1667	c.1438C>T	c.(1438-1440)CAC>TAC	p.H480Y	NEK10_uc010hfj.2_Missense_Mutation_p.H423Y			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	1168							ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						TTGGTTGGGTGATTCTTGGTC	0.373													8	44					0	0	0.004482	0	0		A	27152780	A	A	27152780	3	1	75	1	0	0	0	0	1	0	0	0	10341	1305	45	4		4	NEK10	3	27152780	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	13757691	27152780	170869650	21	48731											
DCLK3	85443	broad.mit.edu	37	chr3	36779379	36779379	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtccttcttcacctcccTcagcccctcctctgtgacag	4	12	7	18	0	4	1	2	1	2	0	7	1	7	1	6	1	1	0	6	1	0	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr3:36779379T>G	uc003cgi.2	-	2	1263	c.772A>C	c.(772-774)AGG>CGG	p.R258R		NM_033403	NP_208382	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	258						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			lung(3)|large_intestine(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	9						TTCACCTCCCTCAGCCCCTCC	0.597													17	154					0	0	0.006122	0	0		G	36779379	G	G	36779379	2	3	75	1	0	0	0	0	0	0	0	1	4296	1550	54	5		5	DCLK3	3	36779379	Silent	SNP	T	TCGA-BR-8381-01A-11D-2394-08	9626599	36779379	161243051	22	48732											
PIK3CA	5290	broad.mit.edu	37	chr3	178916639	178916639	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacgaccatcatcaggtgAactgtggggcatccacttga	10	9	10	12	1	2	2	2	2	0	0	4	3	4	2	3	3	1	1	3	3	1	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr3:178916639A>G	uc003fjk.2	+	2	183	c.26A>G	c.(25-27)GAA>GGA	p.E9G		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	9					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E9_R19del(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCATCAGGTGAACTGTGGGGC	0.403		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			10	60					0	0	0.006214	0	0		G	178916639	G	G	178916639	3	3	75	1	0	0	0	0	1	0	0	0	11932	246	9	3	28	3	PIK3CA	3	178916639	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08	142137260	178916639	19105791	23	48733											
MCF2L2	23101	broad.mit.edu	37	chr3	182925454	182925454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctggtccccaggctccattCgtatcttacagaacactatt	9	12	6	14	1	1	1	0	0	1	1	4	1	3	1	4	2	2	2	4	2	4	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr3:182925454C>T	uc003fli.1	-	23	2744	c.2654G>A	c.(2653-2655)CGA>CAA	p.R885Q		NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	885	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			AGGCTCCATTCGTATCTTACA	0.433													19	106					0	0	0.007413	0	0		T	182925454	T	T	182925454	3	4	75	1	0	0	0	0	1	0	0	0	9398	884	31	1	722	1	MCF2L2	3	182925454	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	4008815	182925454	15096976	24	48734											
PPARGC1A	10891	broad.mit.edu	37	chr4	23803389	23803389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacttgaaaaattgcttgcGtccacaaaagtacagctcaa	16	9	7	9	1	1	2	1	1	0	1	2	2	2	2	1	0	4	3	1	0	6	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr4:23803389G>A	uc003gqs.2	-	12	2377	c.2257C>T	c.(2257-2259)CGC>TGC	p.R753C	PPARGC1A_uc003gqt.2_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	753	RRM.				androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				AATTGCTTGCGTCCACAAAAG	0.403													6	50					0	0	0.001984	0	0		A	23803389	A	A	23803389	3	1	75	1	0	0	0	0	1	0	0	0	12319	1145	40	1	147	1	PPARGC1A	4	23803389	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08		23803389	167350887	25	48735											
LPHN3	23284	broad.mit.edu	37	chr4	62903554	62903554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttctcgaactcctggaCgctactccacaggctcacag	8	9	9	15	2	2	0	1	0	1	0	5	2	4	1	2	3	2	3	2	3	2	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr4:62903554C>T	uc010ihh.2	+	21	3666	c.3493C>T	c.(3493-3495)CGC>TGC	p.R1165C	LPHN3_uc003hcq.3_Missense_Mutation_p.R1165C|LPHN3_uc003hct.2_Missense_Mutation_p.R549C	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	1143	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						AACTCCTGGACGCTACTCCAC	0.408													7	76					0	0	0.00308	0	0		T	62903554	T	T	62903554	3	4	75	1	0	0	0	0	1	0	0	0	8935	536	19	1	3575	1	LPHN3	4	62903554	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	39100165	62903554	128250722	26	48736											
TECRL	253017	broad.mit.edu	37	chr4	65188413	65188413	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaattaacacttactgtggtCcaactgacttgttgacctag	12	13	7	9	0	0	2	0	2	0	0	1	2	1	2	2	1	3	1	2	1	5	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr4:65188413C>T	uc003hcv.2	-	4	538	c.429G>A	c.(427-429)TGG>TGA	p.W143*	TECRL_uc003hcw.2_Nonsense_Mutation_p.W143*	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	143	Helical; (Potential).				lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						TTACTGTGGTCCAACTGACTT	0.343													6	45					0	0	0.001168	0	0		T	65188413	T	T	65188413	4	4	75	1	0	0	0	0	0	1	0	0	15771	856	30	4	698	4	TECRL	4	65188413	Nonsense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	2284859	65188413	125965863	27	48737											
PRDM9	56979	broad.mit.edu	37	chr5	23524471	23524471	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actgtgcccgggatgatgaaGagcagaacctggtggccttc	9	8	14	10	1	0	4	0	2	0	2	1	5	0	5	3	3	3	1	3	3	2	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr5:23524471G>C	uc003jgo.2	+	10	1161	c.979G>C	c.(979-981)GAG>CAG	p.E327Q		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	327	SET.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						GGATGATGAAGAGCAGAACCT	0.532										HNSCC(3;0.000094)			7	58					0	0	0.00308	0	0		C	23524471	C	C	23524471	3	2	75	1	0	0	0	0	1	0	0	0	12485	943	33	5	1013	5	PRDM9	5	23524471	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08		23524471	157390789	28	48738											
PRDM9	56979	broad.mit.edu	37	chr5	23527567	23527567	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggctttagagataagtcaaaCctcctcagtcaccagaggac	13	8	9	11	0	3	2	3	0	0	2	4	4	4	3	3	2	1	1	3	2	3	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr5:23527567C>A	uc003jgo.2	+	11	2552	c.2370C>A	c.(2368-2370)AAC>AAA	p.N790K		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	790	C2H2-type 11.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						ATAAGTCAAACCTCCTCAGTC	0.557										HNSCC(3;0.000094)			8	173					1.12685e-05	1.21857e-05	0.004482	1	0		A	23527567	A	A	23527567	3	1	75	1	0	0	0	0	1	0	0	0	12485	506	18	5	2408	5	PRDM9	5	23527567	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	3096	23527567	157387693	29	48739											
RXFP3	51289	broad.mit.edu	37	chr5	33937051	33937051	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggacatcccccgggcagcgGcggggcagagagcgcggaca	9	1	18	13	5	0	1	0	0	0	1	1	4	1	3	2	6	2	2	2	6	0	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr5:33937051G>T	uc003jic.1	+	1	563	c.206G>T	c.(205-207)GGC>GTC	p.G69V		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	69	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CCGGGCAGCGGCGGGGCAGAG	0.692													14	78					1.49906e-05	1.61171e-05	0.00245	1	0		T	33937051	T	T	33937051	3	4	75	1	0	0	0	0	1	0	0	0	13786	1203	42	5	208	5	RXFP3	5	33937051	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	10409484	33937051	146978209	30	48740											
OXCT1	5019	broad.mit.edu	37	chr5	41762218	41762218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagtacatgttacctttgCagaatgctccatggtgacca	11	11	8	11	0	0	2	0	1	0	1	1	2	1	2	3	1	4	4	3	1	3	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr5:41762218C>T	uc003jmn.2	-	14	1664	c.1333G>A	c.(1333-1335)GCA>ACA	p.A445T	OXCT1_uc011cpo.1_Missense_Mutation_p.A48T|OXCT1_uc011cpp.1_Missense_Mutation_p.A48T	NM_000436	NP_000427	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1 precursor	445					cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)	GTTACCTTTGCAGAATGCTCC	0.428													27	152					0	0	0.004656	0	0		T	41762218	T	T	41762218	3	4	75	1	0	0	0	0	1	0	0	0	11348	710	25	2	245	2	OXCT1	5	41762218	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	7825167	41762218	139153042	31	48741											
MCTP1	79772	broad.mit.edu	37	chr5	94224655	94224655	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaatcccacatctttcaggTtgtgaaatatcctcaatggg	12	12	8	9	0	3	1	2	1	1	0	5	2	5	1	2	2	0	1	2	2	4	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr5:94224655T>C	uc003kkx.2	-	12	1862	c.1862A>G	c.(1861-1863)AAC>AGC	p.N621S	MCTP1_uc003kkv.2_Missense_Mutation_p.N400S|MCTP1_uc003kkw.2_Missense_Mutation_p.N354S|MCTP1_uc003kkz.2_Missense_Mutation_p.N282S|MCTP1_uc003kku.2_Missense_Mutation_p.N137S	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L	621	C2 3.				calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		ATCTTTCAGGTTGTGAAATAT	0.443													12	81					0	0	0.001855	0	0		C	94224655	C	C	94224655	3	2	75	1	0	0	0	0	1	0	0	0	9418	1725	60	3	1185	3	MCTP1	5	94224655	Missense_Mutation	SNP	T	TCGA-BR-8381-01A-11D-2394-08	52462437	94224655	86690605	32	48742											
PCDHB4	56131	broad.mit.edu	37	chr5	140501880	140501880	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgtggtcctattgaaccGtgtgtactgcatttccaagt	7	15	9	10	1	1	1	0	1	1	0	3	1	3	1	3	1	3	2	3	1	4	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr5:140501880G>A	uc003lip.1	+	1	300	c.300G>A	c.(298-300)CCG>CCA	p.P100P		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	100	Cadherin 1.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTATTGAACCGTGTGTACTGC	0.463													9	70					0	0	0.004482	0	0		A	140501880	A	A	140501880	2	1	75	1	0	0	0	0	0	0	0	1	11563	1132	40	1		1	PCDHB4	5	140501880	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	46277225	140501880	40413380	33	48743											
MED7	9443	broad.mit.edu	37	chr5	156565878	156565878	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgctatcatcagcatccaTtggttcagtttttactctca	8	17	6	10	0	4	0	4	0	1	0	6	0	5	0	1	1	3	5	1	1	2	7	rs138235255		TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr5:156565878T>C	uc010jik.2	-	2	957	c.565A>G	c.(565-567)ATG>GTG	p.M189V	MED7_uc003lwm.3_Missense_Mutation_p.M189V	NM_001100816	NP_001094286	O43513	MED7_HUMAN	mediator complex subunit 7	189					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	protein binding|transcription coactivator activity				0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TCAGCATCCATTGGTTCAGTT	0.393													22	104					0	0	0.012319	0	0		C	156565878	C	C	156565878	3	2	75	1	0	0	0	0	1	0	0	0	9470	1493	52	3	140	3	MED7	5	156565878	Missense_Mutation	SNP	T	TCGA-BR-8381-01A-11D-2394-08	16063998	156565878	24349382	34	48744											
GABRA1	2554	broad.mit.edu	37	chr5	161317942	161317942	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactcatttccacttgaagAgaaagattggctactttgtt	11	14	7	9	0	1	3	1	1	0	2	2	4	2	3	2	1	1	2	2	1	3	6			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr5:161317942A>G	uc010jiw.2	+	9	1210	c.742A>G	c.(742-744)AGA>GGA	p.R248G	GABRA1_uc010jix.2_Missense_Mutation_p.R248G|GABRA1_uc010jiy.2_Missense_Mutation_p.R248G|GABRA1_uc003lyx.3_Missense_Mutation_p.R248G|GABRA1_uc010jiz.2_Missense_Mutation_p.R248G|GABRA1_uc010jja.2_Missense_Mutation_p.R248G|GABRA1_uc010jjb.2_Missense_Mutation_p.R248G	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	248	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	CCACTTGAAGAGAAAGATTGG	0.388													6	78					0	0	0.001984	0	0		G	161317942	G	G	161317942	3	3	75	1	0	0	0	0	1	0	0	0	6174	296	11	3	768	3	GABRA1	5	161317942	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08	4752064	161317942	19597318	35	48745											
FGFR4	2264	broad.mit.edu	37	chr5	176523169	176523169	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacattgactactataagAaaaccagcaacgtgagggag	17	6	9	9	1	0	3	0	2	0	1	0	4	0	4	2	1	4	1	2	1	6	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr5:176523169A>G	uc003mfl.2	+	14	2100	c.1933A>G	c.(1933-1935)AAA>GAA	p.K645E	FGFR4_uc003mfm.2_Missense_Mutation_p.K645E|FGFR4_uc011dfu.1_Missense_Mutation_p.K577E|FGFR4_uc003mfo.2_Missense_Mutation_p.K605E	NM_002011	NP_002002	P22455	FGFR4_HUMAN	fibroblast growth factor receptor 4 isoform 1	645	Protein kinase.|Cytoplasmic (Potential).				insulin receptor signaling pathway|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity			lung(11)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|prostate(1)	16	all_cancers(89;5.93e-05)|Renal(175;0.000269)|Lung NSC(126;0.0088)|all_lung(126;0.0142)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Palifermin(DB00039)	CTACTATAAGAAAACCAGCAA	0.607										TSP Lung(9;0.080)			9	72					0	0	0.006214	0	0		G	176523169	G	G	176523169	3	3	75	1	0	0	0	0	1	0	0	0	5882	247	9	3	2053	3	FGFR4	5	176523169	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08	15205227	176523169	4392091	36	48746											
OR2B2	81697	broad.mit.edu	37	chr6	27879418	27879418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaccttcagcagactggattCtcaacactgcttggacaata	12	10	8	11	0	2	1	2	0	1	1	3	4	2	3	1	2	3	2	1	2	3	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr6:27879418C>T	uc011dkw.1	-	1	680	c.680G>A	c.(679-681)AGA>AAA	p.R227K		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGACTGGATTCTCAACACTGC	0.428													17	97					0	0	0.008871	0	0		T	27879418	T	T	27879418	3	4	75	1	0	0	0	0	1	0	0	0	11008	913	32	4	397	4	OR2B2	6	27879418	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08		27879418	143235649	37	48747											
ZNF311	282890	broad.mit.edu	37	chr6	28963041	28963041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgcaggtgtatggcttctCaccagtgtggattcttttgt	6	16	11	8	0	2	0	1	0	2	0	3	1	2	1	1	3	1	3	1	3	1	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr6:28963041C>T	uc003nlu.2	-	7	2251	c.1738G>A	c.(1738-1740)GAG>AAG	p.E580K	ZNF311_uc011dlk.1_Missense_Mutation_p.E488K|ZNF311_uc003nlv.2_Missense_Mutation_p.E488K	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	580					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						TATGGCTTCTCACCAGTGTGG	0.488													6	99					0	0	0.001168	0	0		T	28963041	T	T	28963041	3	4	75	1	0	0	0	0	1	0	0	0	17859	835	29	4	266	4	ZNF311	6	28963041	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	1083623	28963041	142152026	38	48748											
DNAH8	1769	broad.mit.edu	37	chr6	38810483	38810483	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagattggcaagctttttTggatctcaaaaagagaattg	15	13	9	4	0	1	2	1	0	1	2	2	4	1	3	0	2	1	2	0	2	6	6			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr6:38810483T>G	uc003ooe.1	+	33	4598	c.3998T>G	c.(3997-3999)TTG>TGG	p.L1333W		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CAAGCTTTTTTGGATCTCAAA	0.368													8	80					0	0	0.00308	0	0		G	38810483	G	G	38810483	3	3	75	1	0	0	0	0	1	0	0	0	4613	1821	63	5	4120	5	DNAH8	6	38810483	Missense_Mutation	SNP	T	TCGA-BR-8381-01A-11D-2394-08	9847442	38810483	132304584	39	48749											
RRAGD	58528	broad.mit.edu	37	chr6	90097256	90097256	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcttctcctcaggcccaTgagcaggattctcggcttca	6	10	10	15	2	4	1	2	1	2	0	6	2	4	2	3	3	1	3	3	3	0	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr6:90097256T>C	uc003pnd.3	-	2	485	c.202A>G	c.(202-204)ATG>GTG	p.M68V	RRAGD_uc010kcc.2_Intron	NM_021244	NP_067067	Q9NQL2	RRAGD_HUMAN	Ras-related GTP binding D	68					cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade	lysosome|nucleus	GTP binding|protein heterodimerization activity			ovary(2)|central_nervous_system(1)	3		all_cancers(76;7.01e-07)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00139)		BRCA - Breast invasive adenocarcinoma(108;0.0144)		CTCAGGCCCATGAGCAGGATT	0.458													46	347					0	0	0.01441	0	0		C	90097256	C	C	90097256	3	2	75	1	0	0	0	0	1	0	0	0	13700	1464	51	3	1024	3	RRAGD	6	90097256	Missense_Mutation	SNP	T	TCGA-BR-8381-01A-11D-2394-08	51286773	90097256	81017811	40	48750											
MDN1	23195	broad.mit.edu	37	chr6	90428148	90428148	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcaataacactgcttctaGtttgttgacaatctccatcg	12	13	6	10	1	2	1	0	1	2	0	4	1	2	1	1	0	3	4	1	0	5	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr6:90428148G>C	uc003pnn.1	-	43	6636	c.6520C>G	c.(6520-6522)CTA>GTA	p.L2174V		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2174					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		ACTGCTTCTAGTTTGTTGACA	0.408													6	94					0	0	0.001984	0	0		C	90428148	C	C	90428148	3	2	75	1	0	0	0	0	1	0	0	0	9433	1020	36	5	10510	5	MDN1	6	90428148	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	330892	90428148	80686919	41	48751											
GPR6	2830	broad.mit.edu	37	chr6	110300581	110300581	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggacagtgatcgctggagAaaacgcgctggtggtggcgc	8	6	19	8	4	0	2	0	1	0	1	1	4	0	3	0	6	1	2	0	6	2	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr6:110300581A>G	uc011eaw.1	+	2	446	c.266A>G	c.(265-267)GAA>GGA	p.E89G	GPR6_uc011eav.1_Missense_Mutation_p.E104G|GPR6_uc003ptu.2_Missense_Mutation_p.E89G	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	89	Helical; Name=1; (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		ATCGCTGGAGAAAACGCGCTG	0.687													22	119					0	0	0.012319	0	0		G	110300581	G	G	110300581	3	3	75	1	0	0	0	0	1	0	0	0	6716	246	9	3	268	3	GPR6	6	110300581	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08	19872433	110300581	60814486	42	48752											
ENPP1	5167	broad.mit.edu	37	chr6	132176074	132176074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcattacccaggtttgaaaCgcctcctaccctcttatttt	8	16	4	13	1	2	1	1	1	1	0	3	1	3	1	4	1	3	1	4	1	4	7			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr6:132176074C>T	uc011ecf.1	+	6	646	c.626C>T	c.(625-627)ACG>ATG	p.T209M		NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	209	Phosphodiesterase.|Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	AGGTTTGAAACGCCTCCTACC	0.393													5	72					0	0	0.001168	0	0		T	132176074	T	T	132176074	3	4	75	1	0	0	0	0	1	0	0	0	5137	536	19	1	648	1	ENPP1	6	132176074	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	21875493	132176074	38938993	43	48753											
UTRN	7402	broad.mit.edu	37	chr6	145119080	145119080	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggagactgcaaaacatCaggccaaatgcaacatctgt	15	6	9	11	1	2	1	1	0	1	1	2	2	2	1	1	2	5	2	1	2	4	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr6:145119080C>A	uc003qkt.2	+	63	9291	c.9199C>A	c.(9199-9201)CAG>AAG	p.Q3067K		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	3067	Interaction with SYNM.|ZZ-type.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TGCAAAACATCAGGCCAAATG	0.458													12	93					2.27111e-07	2.5295e-07	0.013537	1	0		A	145119080	A	A	145119080	3	1	75	1	0	0	0	0	1	0	0	0	17129	827	29	5	9449	5	UTRN	6	145119080	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	12943006	145119080	25995987	44	48754											
PRKAR1B	5575	broad.mit.edu	37	chr7	635929	635929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttggtcacccactctcCgttcacgtacacctttgggg	6	12	10	13	2	3	0	2	0	1	0	4	1	3	0	3	3	1	3	3	3	1	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr7:635929C>T	uc003siu.1	-	8	668	c.562G>A	c.(562-564)GGA>AGA	p.G188R	PRKAR1B_uc003siv.2_Missense_Mutation_p.G188R|PRKAR1B_uc003siw.1_Missense_Mutation_p.G188R|PRKAR1B_uc003six.1_RNA	NM_002735	NP_002726	P31321	KAP1_HUMAN	protein kinase, cAMP-dependent, regulatory, type	188	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)		ACCCACTCTCCGTTCACGTAC	0.612													5	51					0	0	0.000602	0	0		T	635929	T	T	635929	3	4	75	1	0	0	0	0	1	0	0	0	12526	661	23	1	603	1	PRKAR1B	7	635929	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08		635929	158502734	45	48755											
EIF3B	8662	broad.mit.edu	37	chr7	2402282	2402282	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggccctctctcactcaggtAtattttcctggagtacgcgt	6	13	9	13	3	3	0	2	0	1	0	5	1	4	1	2	3	1	2	2	3	3	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr7:2402282A>G	uc003slx.2	+	3	778	c.695A>G	c.(694-696)TAT>TGT	p.Y232C	EIF3B_uc003sly.2_Missense_Mutation_p.Y232C|EIF3B_uc003slz.1_Missense_Mutation_p.Y193C|EIF3B_uc003sma.2_5'UTR	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,	232	Sufficient for interaction with EIF3E.|RRM.|Sufficient for interaction with EIF3J.				regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		TCACTCAGGTATATTTTCCTG	0.463													6	85					0	0	0.004482	0	0		G	2402282	G	G	2402282	3	3	75	1	0	0	0	0	1	0	0	0	5019	449	16	3	705	3	EIF3B	7	2402282	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08	1766353	2402282	156736381	46	48756											
RAPGEF5	9771	broad.mit.edu	37	chr7	22197496	22197496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttttgtggtgaatattcatCtacagtgctgaaaggaaaaa	14	14	9	4	0	2	2	1	2	1	0	2	3	2	3	0	2	2	1	0	2	6	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr7:22197496C>T	uc003svg.2	-	15	1388	c.1075G>A	c.(1075-1077)GAT>AAT	p.D359N	RAPGEF5_uc011jyl.1_Missense_Mutation_p.D40N	NM_012294	NP_036426	Q92565	RPGF5_HUMAN	Rap guanine nucleotide exchange factor (GEF) 5	209					nervous system development|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	nucleus	GTP-dependent protein binding|Rap guanyl-nucleotide exchange factor activity			ovary(1)	1						GAATATTCATCTACAGTGCTG	0.413													7	47					0	0	0.001984	0	0		T	22197496	T	T	22197496	3	4	75	1	0	0	0	0	1	0	0	0	13072	913	32	4	1165	4	RAPGEF5	7	22197496	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	19795214	22197496	136941167	47	48757											
CREB5	9586	broad.mit.edu	37	chr7	28857755	28857755	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgttaacacataaagactGcccaataacagccatgcaga	16	8	7	10	0	0	2	0	0	0	2	0	2	0	2	2	0	5	3	2	0	5	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr7:28857755G>T	uc003szq.2	+	10	1712	c.1322G>T	c.(1321-1323)TGC>TTC	p.C441F	CREB5_uc003szo.2_Missense_Mutation_p.C408F|CREB5_uc003szr.2_Missense_Mutation_p.C434F|CREB5_uc003szs.2_Missense_Mutation_p.C302F	NM_182898	NP_878901	Q02930	CREB5_HUMAN	cAMP responsive element binding protein 5	441					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						CATAAAGACTGCCCAATAACA	0.358													8	106					3.07112e-06	3.34051e-06	0.010729	1	0		T	28857755	T	T	28857755	3	4	75	1	0	0	0	0	1	0	0	0	3863	1319	46	5	1411	5	CREB5	7	28857755	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	6660259	28857755	130280908	48	48758											
CAV1	857	broad.mit.edu	37	chr7	116166604	116166604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctctacaccgttcccatccGggaacagggcaacatctaca	11	8	7	15	2	2	0	0	0	2	0	5	1	4	1	3	2	4	2	3	2	4	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr7:116166604G>A	uc003vif.1	+	2	334	c.56G>A	c.(55-57)CGG>CAG	p.R19Q	CAV1_uc010lkd.1_5'UTR|CAV1_uc010lke.1_5'UTR|CAV1_uc003vig.1_RNA|CAV1_uc003vih.2_5'UTR|CAV1_uc010lkf.1_5'UTR	NM_001753	NP_001744	Q03135	CAV1_HUMAN	caveolin 1	19	Cytoplasmic (Potential).				blood coagulation|calcium ion transport|caveola assembly|cellular response to starvation|cholesterol homeostasis|cytosolic calcium ion homeostasis|inactivation of MAPK activity|interspecies interaction between organisms|leukocyte migration|lipid storage|maintenance of protein location in cell|mammary gland involution|membrane depolarization|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of endothelial cell proliferation|negative regulation of epithelial cell differentiation|negative regulation of nitric oxide biosynthetic process|negative regulation of peptidyl-serine phosphorylation|negative regulation of protein binding|negative regulation of transcription from RNA polymerase II promoter|nitric oxide homeostasis|nitric oxide metabolic process|positive regulation of calcium ion transport into cytosol|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of metalloenzyme activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of vasoconstriction|protein homooligomerization|receptor internalization|regulation of blood coagulation|regulation of fatty acid metabolic process|regulation of nitric-oxide synthase activity|regulation of smooth muscle contraction|response to calcium ion|response to estrogen stimulus|response to hypoxia|response to progesterone stimulus|skeletal muscle tissue development|T cell costimulation|triglyceride metabolic process|vasculogenesis|vesicle organization	apical plasma membrane|basolateral plasma membrane|caveola|caveola|cytosol|endoplasmic reticulum|endosome|Golgi membrane|lipid particle|perinuclear region of cytoplasm	cholesterol binding|nitric-oxide synthase binding|peptidase activator activity|protein binding|protein complex scaffold|receptor binding				0	all_epithelial(6;1.42e-06)|Lung NSC(10;0.0056)|all_lung(10;0.00609)		STAD - Stomach adenocarcinoma(10;0.00878)			GTTCCCATCCGGGAACAGGGC	0.602											OREG0018273	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	70					0	0	0.001168	0	0		A	116166604	A	A	116166604	3	1	75	1	0	0	0	0	1	0	0	0	2696	1116	39	1	62	1	CAV1	7	116166604	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	87308849	116166604	42972059	49	48759											
ANKRD7	56311	broad.mit.edu	37	chr7	117876121	117876121	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatactccactattagttgcCgttattaacaataatccaaa	15	14	3	9	1	0	0	0	0	0	0	2	0	2	0	3	0	3	2	3	0	9	8			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr7:117876121C>T	uc003vji.2	+	4	668	c.495C>T	c.(493-495)GCC>GCT	p.A165A		NM_019644	NP_062618	Q92527	ANKR7_HUMAN	ankyrin repeat domain 7	165	ANK 4.				male gonad development						0						TATTAGTTGCCGTTATTAACA	0.259													11	89					0	0	0.010729	0	0		T	117876121	T	T	117876121	2	4	75	1	0	0	0	0	0	0	0	1	686	639	23	1		1	ANKRD7	7	117876121	Silent	SNP	C	TCGA-BR-8381-01A-11D-2394-08	1709517	117876121	41262542	50	48760											
CPA4	51200	broad.mit.edu	37	chr7	129962450	129962450	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctaaccagatcatcccCactgcagaggagacgtggct	11	6	10	14	1	1	3	1	0	0	3	2	4	2	3	4	2	3	3	4	2	1	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr7:129962450C>G	uc003vpr.2	+	11	1247	c.1200C>G	c.(1198-1200)CCC>CCG	p.P400P	CPA4_uc011kpd.1_Silent_p.P367P|CPA4_uc011kpe.1_Silent_p.P296P	NM_016352	NP_057436	Q9UI42	CBPA4_HUMAN	carboxypeptidase A4 preproprotein	400					histone acetylation|proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					AGATCATCCCCACTGCAGAGG	0.512													9	163					0	0	0.006214	0	0		G	129962450	G	G	129962450	2	3	75	1	0	0	0	0	0	0	0	1	3795	581	21	5		5	CPA4	7	129962450	Silent	SNP	C	TCGA-BR-8381-01A-11D-2394-08	12086329	129962450	29176213	51	48761											
EXOC4	60412	broad.mit.edu	37	chr7	132990651	132990651	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcagcagttgagtctttGgagggccccctgctccaggt	5	11	14	11	0	2	1	1	1	1	0	3	2	3	2	3	3	2	3	3	3	0	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr7:132990651G>A	uc003vrk.2	+	4	527	c.492G>A	c.(490-492)TTG>TTA	p.L164L	EXOC4_uc011kpo.1_Silent_p.L63L|EXOC4_uc003vri.2_Silent_p.L164L|EXOC4_uc003vrj.2_Silent_p.L164L	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	164					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				TTGAGTCTTTGGAGGGCCCCC	0.408													7	64					0	0	0.00308	0	0		A	132990651	A	A	132990651	2	1	75	1	0	0	0	0	0	0	0	1	5314	1339	47	4		4	EXOC4	7	132990651	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	3028201	132990651	26148012	52	48762											
CHPF2	54480	broad.mit.edu	37	chr7	150932532	150932532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcgcaggcgagcaggcccGgtactgtcatgggggctttg	5	8	18	10	3	1	0	1	0	0	0	1	1	1	0	1	6	2	4	1	6	1	2	rs148527739		TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr7:150932532G>A	uc003wjr.1	+	2	2175	c.662G>A	c.(661-663)CGG>CAG	p.R221Q	CHPF2_uc003wjq.1_Missense_Mutation_p.R213Q|MIR671_hsa-mir-671|MI0003760_5'Flank	NM_019015	NP_061888	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	221	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(1)	1						GAGCAGGCCCGGTACTGTCAT	0.632													10	130					0	0	0.006214	0	0		A	150932532	A	A	150932532	3	1	75	1	0	0	0	0	1	0	0	0	3372	1116	39	1	668	1	CHPF2	7	150932532	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	17941881	150932532	8206131	53	48763											
MSR1	4481	broad.mit.edu	37	chr8	15978038	15978038	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtcacaaattgtaccccActggccgctgtggagtatct	9	11	9	12	2	2	0	1	0	1	0	3	1	2	1	3	2	1	3	3	2	3	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr8:15978038A>T	uc003wwz.2	-	9	1309	c.1111T>A	c.(1111-1113)TGG>AGG	p.W371R	MSR1_uc010lsu.2_Missense_Mutation_p.W389R|MSR1_uc003wxa.2_Intron	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	371	SRCR.|Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		ATTGTACCCCACTGGCCGCTG	0.537													12	150					0	0	0.00245	0	0		T	15978038	T	T	15978038	3	4	75	1	0	0	0	0	1	0	0	0	9904	159	6	5	252	5	MSR1	8	15978038	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08		15978038	130385984	54	48764											
SNTG1	54212	broad.mit.edu	37	chr8	51449257	51449257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacacattatcatgctcgtCgtggccgacgtctccaggct	7	10	11	13	4	2	0	1	0	1	0	5	2	2	1	2	3	1	2	2	3	1	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr8:51449257C>T	uc010lxy.1	+	12	940	c.569C>T	c.(568-570)TCG>TTG	p.S190L	SNTG1_uc003xqs.1_Missense_Mutation_p.S190L|SNTG1_uc010lxz.1_Missense_Mutation_p.S190L|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	190					cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				TCATGCTCGTCGTGGCCGACG	0.478													27	160					0	0	0.005443	0	0		T	51449257	T	T	51449257	3	4	75	1	0	0	0	0	1	0	0	0	14899	893	31	1	603	1	SNTG1	8	51449257	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	35471219	51449257	94914765	55	48765											
SLC26A7	115111	broad.mit.edu	37	chr8	92330586	92330586	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatgaaaatgccatatatatCcggaccacttggattctttt	13	14	6	8	1	1	1	0	1	1	0	2	3	2	3	3	2	1	0	3	2	6	7			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr8:92330586C>A	uc003yex.2	+	6	898	c.620C>A	c.(619-621)TCC>TAC	p.S207Y	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Missense_Mutation_p.S207Y|SLC26A7_uc003yfa.2_Missense_Mutation_p.S207Y	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	207	Helical; (Potential).					basolateral plasma membrane|integral to membrane|recycling endosome membrane	anion:anion antiporter activity|bicarbonate transmembrane transporter activity|chloride channel activity|oxalate transmembrane transporter activity|sulfate transmembrane transporter activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.00802)			CCATATATATCCGGACCACTT	0.393													9	120					3.07112e-06	3.34051e-06	0.010729	1	0		A	92330586	A	A	92330586	3	1	75	1	0	0	0	0	1	0	0	0	14547	855	30	5	634	5	SLC26A7	8	92330586	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	40881329	92330586	54033436	56	48766											
KCNS2	3788	broad.mit.edu	37	chr8	99440584	99440584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctacagctaccatggccGcaaagtagagcccgagcagg	12	4	12	13	2	0	1	0	0	0	1	0	2	0	1	3	2	6	5	3	2	4	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr8:99440584G>A	uc003yin.2	+	2	727	c.377G>A	c.(376-378)CGC>CAC	p.R126H		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	126	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			TACCATGGCCGCAAAGTAGAG	0.552													5	75					0	0	0.000602	0	0		A	99440584	A	A	99440584	3	1	75	1	0	0	0	0	1	0	0	0	8105	1087	38	1	379	1	KCNS2	8	99440584	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	7109998	99440584	46923438	57	48767											
TAF2	6873	broad.mit.edu	37	chr8	120758995	120758995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgcttggattatttgcagCttcttggttgcctgctactg	5	17	10	9	0	1	0	0	0	1	0	1	1	1	1	1	2	6	5	1	2	2	7			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr8:120758995C>T	uc003you.2	-	23	3328	c.3058G>A	c.(3058-3060)GCT>ACT	p.A1020T		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	1020					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TTATTTGCAGCTTCTTGGTTG	0.408													11	246					0	0	0.001855	0	0		T	120758995	T	T	120758995	3	4	75	1	0	0	0	0	1	0	0	0	15549	797	28	2	557	2	TAF2	8	120758995	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	21318411	120758995	25605027	58	48768											
COL22A1	169044	broad.mit.edu	37	chr8	139833571	139833571	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcattgacccgagaacctcgGaagaccaccctgacagcatc	12	6	8	15	2	1	4	1	2	0	2	3	6	1	5	4	1	2	1	4	1	2	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr8:139833571G>A	uc003yvd.2	-	7	1500	c.1053C>T	c.(1051-1053)TTC>TTT	p.F351F		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	351	TSP N-terminal.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GAGAACCTCGGAAGACCACCC	0.582										HNSCC(7;0.00092)			22	120					0	0	0.014323	0	0		A	139833571	A	A	139833571	2	1	75	1	0	0	0	0	0	0	0	1	3684	1165	41	4		4	COL22A1	8	139833571	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	19074576	139833571	6530451	59	48769											
SH3GL2	6456	broad.mit.edu	37	chr9	17795588	17795588	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagctctgtacgactttgaAcctgaaaatgaaggggagtt	12	10	12	7	2	1	3	0	3	1	0	1	6	1	4	1	2	3	3	1	2	5	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr9:17795588A>T	uc003zna.2	+	9	1194	c.906A>T	c.(904-906)GAA>GAT	p.E302D	SH3GL2_uc011lmy.1_Missense_Mutation_p.E255D	NM_003026	NP_003017	Q99962	SH3G2_HUMAN	SH3-domain GRB2-like 2	302	SH3.				axon guidance|central nervous system development|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	cytosol|Golgi membrane|plasma membrane	identical protein binding|lipid binding			skin(1)	1				GBM - Glioblastoma multiforme(50;2.71e-10)|Lung(42;0.203)		ACGACTTTGAACCTGAAAATG	0.463													8	36					0	0	0.00308	0	0		T	17795588	T	T	17795588	3	4	75	1	0	0	0	0	1	0	0	0	14276	40	2	5	940	5	SH3GL2	9	17795588	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08		17795588	123417843	60	48770											
DDX58	23586	broad.mit.edu	37	chr9	32457294	32457294	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attccccagtcatggctgcaGttctgtcgggcacagaatat	9	11	10	11	1	2	1	1	0	1	1	4	1	3	1	2	2	1	4	2	2	2	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr9:32457294G>C	uc003zra.2	-	18	2762	c.2604C>G	c.(2602-2604)AAC>AAG	p.N868K	DDX58_uc010mjj.2_RNA|DDX58_uc010mji.2_Missense_Mutation_p.N797K	NM_014314	NP_055129	O95786	DDX58_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	868	Repressor domain.				detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		CATGGCTGCAGTTCTGTCGGG	0.403													13	126					0	0	0.001855	0	0		C	32457294	C	C	32457294	3	2	75	1	0	0	0	0	1	0	0	0	4378	1020	36	5	177	5	DDX58	9	32457294	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	14661706	32457294	108756137	61	48771											
DNAJB5	25822	broad.mit.edu	37	chr9	34993304	34993304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagatcaagaaagcctaccGgaagatggccttgaagtacc	14	7	11	9	1	1	4	1	2	0	3	1	6	1	5	4	2	3	1	4	2	6	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr9:34993304G>A	uc003zvt.2	+	2	212	c.74G>A	c.(73-75)CGG>CAG	p.R25Q	DNAJB5_uc003zvs.2_Missense_Mutation_p.R59Q|DNAJB5_uc011los.1_Missense_Mutation_p.R97Q	NM_012266	NP_036398	O75953	DNJB5_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 5	25	J.				protein folding|response to unfolded protein		heat shock protein binding|unfolded protein binding				0			LUSC - Lung squamous cell carcinoma(32;0.00575)			AAAGCCTACCGGAAGATGGCC	0.498													17	122					0	0	0.004007	0	0		A	34993304	A	A	34993304	3	1	75	1	0	0	0	0	1	0	0	0	4629	1116	39	1	296	1	DNAJB5	9	34993304	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	2536010	34993304	106220127	62	48772											
WNK2	65268	broad.mit.edu	37	chr9	96021401	96021401	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccccagccttgcctctgcaGgctgtgaagctgccccaccc	5	8	9	19	0	1	1	0	1	1	0	2	1	2	1	7	1	5	3	7	1	1	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr9:96021401G>A	uc004ati.1	+	11	2571	c.2571G>A	c.(2569-2571)CAG>CAA	p.Q857Q	WNK2_uc011lud.1_Silent_p.Q857Q|WNK2_uc004atj.2_Silent_p.Q857Q|WNK2_uc004atk.2_Silent_p.Q494Q|WNK2_uc010mrc.1_Silent_p.Q805Q	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	857					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						TGCCTCTGCAGGCTGTGAAGC	0.687													5	23					0	0	0.000602	0	0		A	96021401	A	A	96021401	2	1	75	1	0	0	0	0	0	0	0	1	17404	991	35	4		4	WNK2	9	96021401	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	61028097	96021401	45192030	63	48773											
ASTN2	23245	broad.mit.edu	37	chr9	119976958	119976958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgacgcttctgccaacGtcgctgggcgtacagcgcca	6	6	14	15	7	1	0	0	0	1	0	2	1	1	0	2	2	4	3	2	2	2	2	rs138260564		TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr9:119976958G>A	uc004bjs.1	-	3	795	c.694C>T	c.(694-696)CGT>TGT	p.R232C	ASTN2_uc004bjr.1_Missense_Mutation_p.R232C|ASTN2_uc004bjt.1_Missense_Mutation_p.R232C	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	232	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TTCTGCCAACGTCGCTGGGCG	0.632													7	44					0	0	0.00308	0	0		A	119976958	A	A	119976958	3	1	75	1	0	0	0	0	1	0	0	0	1066	1145	40	1	3484	1	ASTN2	9	119976958	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	23955557	119976958	21236473	64	48774											
SEC16A	9919	broad.mit.edu	37	chr9	139369132	139369132	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactggaatggtttgccttaTtaccatcaggcaccagggtg	9	11	12	9	0	1	0	1	0	0	0	1	2	1	1	3	4	2	2	3	4	3	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr9:139369132T>C	uc004chx.2	-	3	3245	c.2936A>G	c.(2935-2937)AAT>AGT	p.N979S	SEC16A_uc004chv.3_Intron|SEC16A_uc004chw.2_Missense_Mutation_p.N979S|SEC16A_uc010nbn.2_Missense_Mutation_p.N979S|SEC16A_uc010nbo.1_Missense_Mutation_p.N979S	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	801					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GTTTGCCTTATTACCATCAGG	0.502													7	42					0	0	0.00308	0	0		C	139369132	C	C	139369132	3	2	75	1	0	0	0	0	1	0	0	0	14011	1493	52	3	4257	3	SEC16A	9	139369132	Missense_Mutation	SNP	T	TCGA-BR-8381-01A-11D-2394-08	19392174	139369132	1844299	65	48775											
NCOA4	8031	broad.mit.edu	37	chr10	51579230	51579230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggagggacttggagcttgCtattggtggagttctccggg	6	11	17	7	2	1	0	0	0	1	0	2	4	1	4	1	6	2	3	1	6	1	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr10:51579230C>T	uc001jis.3	+	2	292	c.89C>T	c.(88-90)GCT>GTT	p.A30V	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|NCOA4_uc009xon.2_Missense_Mutation_p.A46V|NCOA4_uc010qhd.1_Missense_Mutation_p.A46V|NCOA4_uc010qhe.1_Intron|NCOA4_uc010qhf.1_Intron|NCOA4_uc001jit.2_Missense_Mutation_p.A30V|NCOA4_uc009xoo.2_Missense_Mutation_p.A30V	NM_001145263	NP_001138735	Q13772	NCOA4_HUMAN	nuclear receptor coactivator 4 isoform 3	30					androgen receptor signaling pathway|male gonad development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	androgen receptor binding|transcription coactivator activity			central_nervous_system(1)|kidney(1)	2						TTGGAGCTTGCTATTGGTGGA	0.488			T	RET	papillary thyroid 								24	110					0	0	0.00333	0	0		T	51579230	T	T	51579230	3	4	75	1	0	0	0	0	1	0	0	0	10250	797	28	2	143	2	NCOA4	10	51579230	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08		51579230	83955517	66	48776											
CCAR1	55749	broad.mit.edu	37	chr10	70509365	70509365	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagatctccacgaagagaGcgagagcgatcacctcggag	14	4	13	10	4	2	3	1	0	1	3	4	9	2	4	2	1	2	0	2	1	2	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr10:70509365G>A	uc001joo.2	+	10	1160	c.1041G>A	c.(1039-1041)GAG>GAA	p.E347E	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Silent_p.E152E|CCAR1_uc009xpx.1_Silent_p.E321E|CCAR1_uc001jon.1_Silent_p.E293E|CCAR1_uc010qiz.1_Silent_p.E332E|CCAR1_uc010qja.1_Silent_p.E332E|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	347	Arg-rich.				apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						CACGAAGAGAGCGAGAGCGAT	0.453													7	81					0	0	0.001984	0	0		A	70509365	A	A	70509365	2	1	75	1	0	0	0	0	0	0	0	1	2733	962	34	2		2	CCAR1	10	70509365	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	18930135	70509365	65025382	67	48777											
NODAL	4838	broad.mit.edu	37	chr10	72192776	72192776	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccacatacagcatgctcagCggcttggtcttcactggggc	7	10	11	13	1	3	0	2	0	1	0	4	0	4	0	1	4	4	3	1	4	1	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr10:72192776C>T	uc001jrc.2	-	3	1002	c.960G>A	c.(958-960)CCG>CCA	p.P320P		NM_018055	NP_060525	Q96S42	NODAL_HUMAN	nodal precursor	320					growth	extracellular space	cytokine activity|growth factor activity			large_intestine(1)|kidney(1)	2						GCATGCTCAGCGGCTTGGTCT	0.512													23	138					0	0	0.00278	0	0		T	72192776	T	T	72192776	2	4	75	1	0	0	0	0	0	0	0	1	10537	755	27	1		1	NODAL	10	72192776	Silent	SNP	C	TCGA-BR-8381-01A-11D-2394-08	1683411	72192776	63341971	68	48778											
PTEN	5728	broad.mit.edu	37	chr10	89624298	89624298	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatggattcgacttagaCttgacctgtatccatttctg	9	14	10	8	1	1	2	0	1	1	1	3	6	2	4	2	2	0	1	2	2	2	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr10:89624298C>G	uc001kfb.2	+	2	1103	c.72C>G	c.(70-72)GAC>GAG	p.D24E	KILLIN_uc009xti.2_5'Flank	NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	24	Phosphatase tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(13)|p.0?(12)|p.D24G(4)|p.D24E(2)|p.D24N(2)|p.D24fs*19(2)|p.D24Y(2)|p.D24fs*20(2)|p.D24_L25del(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TCGACTTAGACTTGACCTGTA	0.463		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			5	72					0	0	0.000602	0	0		G	89624298	G	G	89624298	3	3	75	1	0	0	0	0	1	0	0	0	12760	564	20	5	74	5	PTEN	10	89624298	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	17431522	89624298	45910449	69	48779											
TDRD1	56165	broad.mit.edu	37	chr10	115966034	115966034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccatgtgcttatagaaatGggatatggcttgaaacccag	13	10	11	7	0	0	2	0	1	0	1	0	4	0	3	2	2	2	2	2	2	5	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr10:115966034G>A	uc001lbg.1	+	11	1482	c.1329G>A	c.(1327-1329)ATG>ATA	p.M443I	TDRD1_uc001lbf.2_Missense_Mutation_p.M434I|TDRD1_uc001lbh.1_Missense_Mutation_p.M434I|TDRD1_uc001lbi.1_Missense_Mutation_p.M434I|TDRD1_uc010qsc.1_Missense_Mutation_p.M104I|TDRD1_uc001lbj.2_Missense_Mutation_p.M152I	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	443					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		TTATAGAAATGGGATATGGCT	0.343													6	48					0	0	0.001168	0	0		A	115966034	A	A	115966034	3	1	75	1	0	0	0	0	1	0	0	0	15755	1348	47	4	1367	4	TDRD1	10	115966034	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	26341736	115966034	19568713	70	48780											
TCERG1L	256536	broad.mit.edu	37	chr10	132944801	132944801	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcttgcgtttgtggggcGggtcctcaatgatcctgttg	4	13	14	10	2	1	1	1	1	0	0	3	1	3	1	3	3	2	3	3	3	1	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr10:132944801G>A	uc001lkp.2	-	7	1243	c.1157C>T	c.(1156-1158)CCG>CTG	p.P386L	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	386										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		TTTGTGGGGCGGGTCCTCAAT	0.502													9	54					0	0	0.004482	0	0		A	132944801	A	A	132944801	3	1	75	1	0	0	0	0	1	0	0	0	15711	1116	39	1	627	1	TCERG1L	10	132944801	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	16978767	132944801	2589946	71	48781											
TSSC4	10078	broad.mit.edu	37	chr11	2424472	2424472	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtgtcctccttcaaccaGgatccctccagctgtgggga	6	10	11	14	1	1	0	1	0	0	0	5	2	5	2	5	3	3	1	5	3	1	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:2424472G>A	uc001lwj.2	+	4	970	c.609G>A	c.(607-609)CAG>CAA	p.Q203Q	TSSC4_uc001lwi.2_Silent_p.Q139Q|TSSC4_uc001lwk.2_Silent_p.Q203Q|TSSC4_uc001lwl.2_Silent_p.Q203Q	NM_005706	NP_005697	Q9Y5U2	TSSC4_HUMAN	tumor suppressing subtransferable candidate 4	203											0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.00145)|LUSC - Lung squamous cell carcinoma(625;0.19)		CCTTCAACCAGGATCCCTCCA	0.647													7	39					0	0	0.00308	0	0		A	2424472	A	A	2424472	2	1	75	1	0	0	0	0	0	0	0	1	16693	991	35	4		4	TSSC4	11	2424472	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08		2424472	132582044	72	48782											
OR56B1	387748	broad.mit.edu	37	chr11	5758141	5758141	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcatggcttttgatagatAtgtggctatttgtcaccctc	7	16	9	9	0	1	2	1	1	0	1	2	2	1	2	1	2	1	3	1	2	3	6			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:5758141A>T	uc001mbt.1	+	1	395	c.395A>T	c.(394-396)TAT>TTT	p.Y132F	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|OR56B1_uc001mbs.1_Missense_Mutation_p.Y132F|OR56B1_uc009yev.1_Missense_Mutation_p.Y132F	NM_001005180	NP_001005180	Q8NGI3	O56B1_HUMAN	olfactory receptor, family 56, subfamily B,	132	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.086)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.184)		TTTGATAGATATGTGGCTATT	0.428													9	72					0	0	0.006214	0	0		T	5758141	T	T	5758141	3	4	75	1	0	0	0	0	1	0	0	0	11156	449	16	5	397	5	OR56B1	11	5758141	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08	3333669	5758141	129248375	73	48783											
FIBIN	387758	broad.mit.edu	37	chr11	27016359	27016359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggtggaggatgctgggCgcgtgctggagggcatcagc	6	6	20	9	2	1	0	1	0	0	0	1	3	1	3	1	6	3	3	1	6	0	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:27016359C>T	uc001mrd.2	+	1	732	c.286C>T	c.(286-288)CGC>TGC	p.R96C		NM_203371	NP_976249	Q8TAL6	FIBIN_HUMAN	fin bud initiation factor homolog precursor	96						extracellular region|Golgi apparatus					0						GGATGCTGGGCGCGTGCTGGA	0.667													10	38					0	0	0.006214	0	0		T	27016359	T	T	27016359	3	4	75	1	0	0	0	0	1	0	0	0	5899	768	27	1	288	1	FIBIN	11	27016359	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	21258218	27016359	107990157	74	48784											
ACP2	53	broad.mit.edu	37	chr11	47264443	47264443	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgaaagtacatctccactgaGaaattcctgagggtcgacag	13	8	10	10	2	1	2	0	2	1	1	4	5	2	2	2	1	1	1	2	1	3	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:47264443G>A	uc001nei.2	-	10	1086	c.969C>T	c.(967-969)TTC>TTT	p.F323F	ACP2_uc010rhe.1_Silent_p.F295F|ACP2_uc009ylj.2_Silent_p.F251F|ACP2_uc010rhf.1_Silent_p.F291F|ACP2_uc010rhg.1_Silent_p.F260F|ACP2_uc010rhh.1_Silent_p.F136F|ACP2_uc010rhi.1_Silent_p.F136F|ACP2_uc009ylk.2_Silent_p.F290F	NM_001610	NP_001601	P11117	PPAL_HUMAN	acid phosphatase 2, lysosomal isoform 1	323	Lumenal (Potential).					integral to membrane|lysosomal lumen|lysosomal membrane	acid phosphatase activity			ovary(1)	1						TCTCCACTGAGAAATTCCTGA	0.657													4	48					0	0	0.009096	0	0		A	47264443	A	A	47264443	2	1	75	1	0	0	0	0	0	0	0	1	163	933	33	4		4	ACP2	11	47264443	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	20248084	47264443	87742073	75	48785											
OR8J3	81168	broad.mit.edu	37	chr11	55904988	55904988	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtagagttgccaagattGatgatagctagatgtctcag	13	11	11	6	0	1	5	1	2	1	3	2	5	1	5	1	0	2	3	1	0	4	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:55904988G>T	uc010riz.1	-	1	207	c.207C>A	c.(205-207)ATC>ATA	p.I69I		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					TGCCAAGATTGATGATAGCTA	0.448													15	127					7.93312e-07	8.7831e-07	0.00245	1	0		T	55904988	T	T	55904988	2	4	75	1	0	0	0	0	0	0	0	1	11261	1280	45	5		5	OR8J3	11	55904988	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	8640545	55904988	79101528	76	48786											
OR5A1	219982	broad.mit.edu	37	chr11	59211548	59211548	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacaaagagatcaaggatGccctgtggaaggtgttggaa	14	7	15	5	0	1	1	1	0	0	1	1	6	1	5	1	5	2	1	1	5	5	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:59211548G>T	uc001nnx.1	+	1	907	c.907G>T	c.(907-909)GCC>TCC	p.A303S		NM_001004728	NP_001004728	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2						GATCAAGGATGCCCTGTGGAA	0.428													18	168					3.99206e-14	4.58347e-14	0.007413	1	0		T	59211548	T	T	59211548	3	4	75	1	0	0	0	0	1	0	0	0	11158	1319	46	5	909	5	OR5A1	11	59211548	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	3306560	59211548	75794968	77	48787											
TAF6L	10629	broad.mit.edu	37	chr11	62554020	62554020	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgactgctgaagatgaaggCccaggcagcagagcccaaca	13	3	13	12	1	0	4	0	2	0	2	0	5	0	4	2	2	4	3	2	2	3	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:62554020C>G	uc001nvc.2	+	11	1222	c.1121C>G	c.(1120-1122)GCC>GGC	p.A374G	TMEM179B_uc001nvd.3_5'Flank	NM_006473	NP_006464	Q9Y6J9	TAF6L_HUMAN	TAF6-like RNA polymerase II	374					chromatin remodeling|histone H3 acetylation|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	histone deacetylase complex|STAGA complex	DNA binding|protein binding|transcription coactivator activity			ovary(3)	3						AAGATGAAGGCCCAGGCAGCA	0.577											OREG0021030	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	25					0	0	0.00308	0	0		G	62554020	G	G	62554020	3	3	75	1	0	0	0	0	1	0	0	0	15556	739	26	5	1159	5	TAF6L	11	62554020	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	3342472	62554020	72452496	78	48788											
NRXN2	9379	broad.mit.edu	37	chr11	64434944	64434944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagagcagcagcccattggGctcggtggtgcggaagtcta	9	7	16	9	2	1	1	0	0	1	1	2	3	1	2	1	4	4	3	1	4	3	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:64434944G>A	uc001oar.2	-	10	2015	c.1576C>T	c.(1576-1578)CCC>TCC	p.P526S	NRXN2_uc001oas.2_Missense_Mutation_p.P495S|NRXN2_uc001oaq.2_Missense_Mutation_p.P193S	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:Variant_position_missing_in_P58401_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						AGCCCATTGGGCTCGGTGGTG	0.657													11	75					0	0	0.010729	0	0		A	64434944	A	A	64434944	3	1	75	1	0	0	0	0	1	0	0	0	10685	1203	42	2	3891	2	NRXN2	11	64434944	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	1880924	64434944	70571572	79	48789											
RELA	5970	broad.mit.edu	37	chr11	65425949	65425949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctcccagcctggtcccGtgaaatacacctcaatgtcc	8	8	9	16	1	1	1	1	1	0	0	4	1	4	1	6	2	2	0	6	2	3	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:65425949G>A	uc001ofg.2	-	8	826	c.686C>T	c.(685-687)ACG>ATG	p.T229M	RELA_uc001ofh.2_Missense_Mutation_p.T226M|RELA_uc010ron.1_Missense_Mutation_p.T240M|RELA_uc009yqr.2_Missense_Mutation_p.T176M|RELA_uc001ofe.2_Missense_Mutation_p.T229M|RELA_uc001off.2_Missense_Mutation_p.T229M|RELA_uc009yqs.1_Intron	NM_021975	NP_068810	Q04206	TF65_HUMAN	v-rel reticuloendotheliosis viral oncogene	229	RHD.				anti-apoptosis|cellular defense response|cytokine-mediated signaling pathway|defense response to virus|inflammatory response|innate immune response|interspecies interaction between organisms|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription, DNA-dependent|nerve growth factor receptor signaling pathway|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of inflammatory response|response to interleukin-1|response to UV-B|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|transcription factor complex	activating transcription factor binding|chromatin binding|identical protein binding|NF-kappaB binding|phosphate binding|protein kinase binding|protein N-terminus binding|repressing transcription factor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding			lung(3)|ovary(1)	4						GCCTGGTCCCGTGAAATACAC	0.587													5	21					0	0	0.001984	0	0		A	65425949	A	A	65425949	3	1	75	1	0	0	0	0	1	0	0	0	13241	1145	40	1	985	1	RELA	11	65425949	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	991005	65425949	69580567	80	48790											
ARHGEF17	9828	broad.mit.edu	37	chr11	73022573	73022573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgccatgccagtgtgcccGccacatttatgcctattgtg	6	13	9	13	2	0	0	0	0	0	0	1	0	0	0	5	0	3	0	5	0	2	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:73022573G>A	uc001otu.2	+	1	2911	c.2890G>A	c.(2890-2892)GCC>ACC	p.A964T		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	964	Pro-rich.				actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						CAGTGTGCCCGCCACATTTAT	0.627													7	77					0	0	0.001984	0	0		A	73022573	A	A	73022573	3	1	75	1	0	0	0	0	1	0	0	0	900	1087	38	1	2892	1	ARHGEF17	11	73022573	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	7596624	73022573	61983943	81	48791											
SYTL2	54843	broad.mit.edu	37	chr11	85407418	85407418	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacttttcctacttgtatCtggaaggatggtactacaaa	11	13	9	8	1	1	0	0	0	1	0	2	3	2	2	1	3	3	2	1	3	6	7			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:85407418C>A	uc010rth.1	-	17	2743	c.2467G>T	c.(2467-2469)GAT>TAT	p.D823Y	SYTL2_uc010rtg.1_Missense_Mutation_p.D824Y|SYTL2_uc010rti.1_Missense_Mutation_p.D799Y|SYTL2_uc010rtj.1_Missense_Mutation_p.D791Y|SYTL2_uc001pav.2_Missense_Mutation_p.D265Y|SYTL2_uc010rte.1_Missense_Mutation_p.D225Y|SYTL2_uc001pax.2_Missense_Mutation_p.D265Y|SYTL2_uc001paz.2_Missense_Mutation_p.D144Y|SYTL2_uc001pba.2_Missense_Mutation_p.D208Y|SYTL2_uc001pay.2_Missense_Mutation_p.D254Y|SYTL2_uc001paw.2_Missense_Mutation_p.D225Y|SYTL2_uc009yvj.2_RNA|SYTL2_uc001pbd.2_Missense_Mutation_p.D1121Y|SYTL2_uc001pbb.2_Missense_Mutation_p.D1161Y|SYTL2_uc001pbc.2_Missense_Mutation_p.D1145Y|SYTL2_uc010rtf.1_Missense_Mutation_p.D641Y	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	823	C2 2.				intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		CTACTTGTATCTGGAAGGATG	0.408													7	87					2.0095e-06	2.21164e-06	0.001984	1	0		A	85407418	A	A	85407418	3	1	75	1	0	0	0	0	1	0	0	0	15508	913	32	5	345	5	SYTL2	11	85407418	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	12384845	85407418	49599098	82	48792											
FAT3	120114	broad.mit.edu	37	chr11	92534929	92534929	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgtcagagtgacagataTaaatgacaatgcaccagtct	14	10	8	9	0	3	4	1	2	2	2	3	4	3	4	1	0	1	1	1	0	4	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:92534929T>A	uc001pdj.3	+	9	8767	c.8750T>A	c.(8749-8751)ATA>AAA	p.I2917K		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2917	Cadherin 26.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GTGACAGATATAAATGACAAT	0.567										TCGA Ovarian(4;0.039)			6	99					0	0	0.001168	0	0		A	92534929	A	A	92534929	3	1	75	1	0	0	0	0	1	0	0	0	5705	1406	49	5	8784	5	FAT3	11	92534929	Missense_Mutation	SNP	T	TCGA-BR-8381-01A-11D-2394-08	7127511	92534929	42471587	83	48793											
CARD16	114769	broad.mit.edu	37	chr11	104915338	104915338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taagccatttattgtaccttCacccatggaatggataaaca	14	12	6	9	0	1	0	1	0	0	0	1	2	1	2	3	2	3	1	3	2	6	7			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr11:104915338C>T	uc001pip.1	-	2	82	c.55G>A	c.(55-57)GAA>AAA	p.E19K	CASP1_uc010rve.1_Intron|CASP1_uc010rvf.1_Intron|CASP1_uc010rvg.1_Intron|CASP1_uc010rvh.1_Intron|CASP1_uc010rvi.1_Intron|CARD16_uc001pio.1_Missense_Mutation_p.E19K	NM_001017534	NP_001017534	Q5EG05	CAR16_HUMAN	caspase-1 dominant-negative inhibitor pseudo-ICE	19	CARD.				regulation of apoptosis	intracellular	cysteine-type endopeptidase inhibitor activity			skin(1)	1						ATTGTACCTTCACCCATGGAA	0.408													30	277					0	0	0.009535	0	0		T	104915338	T	T	104915338	3	4	75	1	0	0	0	0	1	0	0	0	2650	835	29	4	570	4	CARD16	11	104915338	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	12380409	104915338	30091178	84	48794											
CCND2	894	broad.mit.edu	37	chr12	4409052	4409052	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaagcttgccaggagcaGattgaggcggtgctcctcaa	10	8	12	11	1	2	2	2	1	0	1	3	3	3	3	2	3	4	3	2	3	2	2	rs149961693		TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr12:4409052G>T	uc001qmo.2	+	5	1052	c.747G>T	c.(745-747)CAG>CAT	p.Q249H		NM_001759	NP_001750	P30279	CCND2_HUMAN	cyclin D2	249					cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding			haematopoietic_and_lymphoid_tissue(1)|breast(1)|kidney(1)	3			all cancers(3;4.15e-10)|GBM - Glioblastoma multiforme(3;6.34e-05)|Colorectal(7;0.00245)|OV - Ovarian serous cystadenocarcinoma(31;0.00301)|COAD - Colon adenocarcinoma(12;0.0264)|STAD - Stomach adenocarcinoma(119;0.206)			GCCAGGAGCAGATTGAGGCGG	0.527			T	IGL@	NHL,CLL								11	58					4.36969e-10	4.98627e-10	0.001855	1	0		T	4409052	T	T	4409052	3	4	75	1	0	0	0	0	1	0	0	0	2920	933	33	5	765	5	CCND2	12	4409052	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08		4409052	129442843	85	48795											
USP5	8078	broad.mit.edu	37	chr12	6973267	6973267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggccgggctccacaagcGcagcagccgacccccctcct	6	4	12	19	3	0	0	0	0	0	0	2	1	2	0	7	2	3	3	7	2	1	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr12:6973267G>A	uc001qri.3	+	17	2211	c.2152G>A	c.(2152-2154)GCA>ACA	p.A718T	USP5_uc001qrh.3_Missense_Mutation_p.A695T	NM_001098536	NP_001092006	P45974	UBP5_HUMAN	ubiquitin specific peptidase 5 isoform 1	718					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process	lysosome	cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			lung(2)|breast(1)|skin(1)	4						CTCCACAAGCGCAGCAGCCGA	0.627													16	139					0	0	0.00499	0	0		A	6973267	A	A	6973267	3	1	75	1	0	0	0	0	1	0	0	0	17107	1087	38	1	2218	1	USP5	12	6973267	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	2564215	6973267	126878628	86	48796											
ABCC9	10060	broad.mit.edu	37	chr12	22069960	22069960	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaaacgcaggtttgataTgtccaagccagactgacagt	13	8	11	9	1	0	4	0	2	0	2	1	4	1	4	2	1	2	3	2	1	3	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr12:22069960T>G	uc001rfi.1	-	4	504	c.484A>C	c.(484-486)ATA>CTA	p.I162L	ABCC9_uc001rfh.2_Missense_Mutation_p.I162L|ABCC9_uc001rfj.1_Missense_Mutation_p.I162L	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	162	Extracellular (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AGGTTTGATATGTCCAAGCCA	0.413													19	167					0	0	0.008871	0	0		G	22069960	G	G	22069960	3	3	75	1	0	0	0	0	1	0	0	0	59	1464	51	5	4447	5	ABCC9	12	22069960	Missense_Mutation	SNP	T	TCGA-BR-8381-01A-11D-2394-08	15096693	22069960	111781935	87	48797											
LRRK2	120892	broad.mit.edu	37	chr12	40626149	40626149	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcttaatgggaccccaggAtgttggaaatgattgggaag	13	9	14	5	0	0	1	0	1	0	0	0	5	0	5	2	4	1	2	2	4	4	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr12:40626149A>T	uc001rmg.3	+	3	432	c.311A>T	c.(310-312)GAT>GTT	p.D104V		NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	104					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				GGACCCCAGGATGTTGGAAAT	0.388													6	70					0	0	0.00308	0	0		T	40626149	T	T	40626149	3	4	75	1	0	0	0	0	1	0	0	0	9051	333	12	5	321	5	LRRK2	12	40626149	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08	18556189	40626149	93225746	88	48798											
MLL2	8085	broad.mit.edu	37	chr12	49425038	49425038	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcccgttgatctcagctcGcagcccctcggacccccgcc	4	7	10	20	4	1	1	1	1	1	0	4	2	1	2	6	1	3	3	6	1	0	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr12:49425038G>A	uc001rta.3	-	39	13450	c.13450C>T	c.(13450-13452)CGA>TGA	p.R4484*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4484					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						ATCTCAGCTCGCAGCCCCTCG	0.597			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			14	109					0	0	0.001855	0	0		A	49425038	A	A	49425038	4	1	75	1	0	0	0	0	0	1	0	0	9639	1095	38	1	3227	1	MLL2	12	49425038	Nonsense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	8798889	49425038	84426857	89	48799											
DNAJC14	85406	broad.mit.edu	37	chr12	56222006	56222006	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agttgctagaagaaccatttCctccctcagagtaaggccct	11	10	8	12	0	1	3	1	0	0	3	3	3	3	3	4	1	2	3	4	1	4	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr12:56222006C>A	uc001shx.1	-	2	641	c.437G>T	c.(436-438)GGA>GTA	p.G146V	DNAJC14_uc001shu.1_Missense_Mutation_p.G146V|DNAJC14_uc009zob.1_Missense_Mutation_p.G146V|DNAJC14_uc001shy.1_Missense_Mutation_p.G146V	NM_032364	NP_115740	Q6Y2X3	DJC14_HUMAN	dopamine receptor interacting protein	146					protein folding|protein transport	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|unfolded protein binding			ovary(3)|large_intestine(1)	4						AGAACCATTTCCTCCCTCAGA	0.473													9	180					0.000442599	0.00047042	0.006214	1	0		A	56222006	A	A	56222006	3	1	75	1	0	0	0	0	1	0	0	0	4639	855	30	5	1695	5	DNAJC14	12	56222006	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	6796968	56222006	77629889	90	48800											
ERBB3	2065	broad.mit.edu	37	chr12	56482393	56482393	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacaagatggaagtagataAaaatgggctcaagatgtgtg	16	9	13	3	0	1	4	1	1	0	3	1	5	1	5	0	2	0	2	0	2	7	2	rs137870123		TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr12:56482393A>C	uc001sjh.2	+	8	1134	c.941A>C	c.(940-942)AAA>ACA	p.K314T	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.K255T|ERBB3_uc001sji.2_Missense_Mutation_p.K5T	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	314	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			GAAGTAGATAAAAATGGGCTC	0.483													32	219					0	0	0.003271	0	0		C	56482393	C	C	56482393	3	2	75	1	0	0	0	0	1	0	0	0	5216	14	1	5	1102	5	ERBB3	12	56482393	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08	260387	56482393	77369502	91	48801											
LRP1	4035	broad.mit.edu	37	chr12	57605026	57605026	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgatggctcccgacaatgCcgctgcactgcctactttga	7	10	10	14	2	0	2	0	2	0	0	1	3	1	2	3	1	4	4	3	1	2	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr12:57605026C>T	uc001snd.2	+	84	13450	c.12984C>T	c.(12982-12984)TGC>TGT	p.C4328C		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	4328	Extracellular (Potential).|EGF-like 20.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CCCGACAATGCCGCTGCACTG	0.582													18	48					0	0	0.007413	0	0		T	57605026	T	T	57605026	2	4	75	1	0	0	0	0	0	0	0	1	8969	747	26	2		2	LRP1	12	57605026	Silent	SNP	C	TCGA-BR-8381-01A-11D-2394-08	1122633	57605026	76246869	92	48802											
PPFIA2	8499	broad.mit.edu	37	chr12	81732996	81732996	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctttttcttttttaccaaaCaaacgtcctattgaagactt	11	17	4	9	1	1	2	0	1	1	1	2	2	2	2	2	0	3	1	2	0	5	8			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr12:81732996C>T	uc001szo.1	-	21	2672	c.2511G>A	c.(2509-2511)TTG>TTA	p.L837L	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	763										ovary(3)|lung(2)|pancreas(1)	6						TTTTACCAAACAAACGTCCTA	0.453													14	128					0	0	0.003163	0	0		T	81732996	T	T	81732996	2	4	75	1	0	0	0	0	0	0	0	1	12329	477	17	4		4	PPFIA2	12	81732996	Silent	SNP	C	TCGA-BR-8381-01A-11D-2394-08	24127970	81732996	52118899	93	48803											
TCP11L2	255394	broad.mit.edu	37	chr12	106729908	106729908	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaattaccaacaacatggtGggtgctattacaggaggcct	12	10	10	9	0	0	0	0	0	0	0	0	1	0	1	2	4	5	1	2	4	6	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr12:106729908G>A	uc001tln.2	+	8	1233	c.1059G>A	c.(1057-1059)GTG>GTA	p.V353V		NM_152772	NP_689985	Q8N4U5	T11L2_HUMAN	t-complex 11 (mouse) like 2	353										ovary(3)	3						ACAACATGGTGGGTGCTATTA	0.418													7	77					0	0	0.00308	0	0		A	106729908	A	A	106729908	2	1	75	1	0	0	0	0	0	0	0	1	15740	1335	47	4		4	TCP11L2	12	106729908	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	24996912	106729908	27121987	94	48804											
TBX5	6910	broad.mit.edu	37	chr12	114793594	114793594	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agccagccgagggaccagggGccccgaggtgaagtgagcgg	9	2	19	11	3	0	2	0	2	0	0	0	5	0	3	5	5	3	0	5	5	1	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr12:114793594G>A	uc001tvo.2	-	9	1795	c.1300C>T	c.(1300-1302)CCC>TCC	p.P434S	TBX5_uc001tvp.2_Missense_Mutation_p.P434S|TBX5_uc001tvq.2_Missense_Mutation_p.P384S	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	434				MDRLPYQHFSAHFTSGPLVPRLAGMANHGSPQLGEGMFQHQ TS -> WTGYPTSTSPLTSPRGPWSLGWLAWQPWLPTAGRG NVPSTRPP (in Ref. 1; CAA70592).	cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		GGGACCAGGGGCCCCGAGGTG	0.652													8	27					0	0	0.00308	0	0		A	114793594	A	A	114793594	3	1	75	1	0	0	0	0	1	0	0	0	15686	1203	42	2	260	2	TBX5	12	114793594	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	8063686	114793594	19058301	95	48805											
SLITRK6	84189	broad.mit.edu	37	chr13	86370491	86370491	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagataccatcttgataccTtttgcttcacaatttattag	11	17	4	9	0	3	2	2	1	1	1	3	2	3	2	2	0	3	1	2	0	5	9			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr13:86370491T>A	uc001vll.1	-	2	612	c.153A>T	c.(151-153)AAA>AAT	p.K51N	SLITRK6_uc010afe.1_5'Flank	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	51	LRRNT 1.|Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		TCTTGATACCTTTTGCTTCAC	0.398													11	204					0	0	0.010729	0	0		A	86370491	A	A	86370491	3	1	75	1	0	0	0	0	1	0	0	0	14772	1606	56	5	2376	5	SLITRK6	13	86370491	Missense_Mutation	SNP	T	TCGA-BR-8381-01A-11D-2394-08		86370491	28799387	96	48806											
SLITRK5	26050	broad.mit.edu	37	chr13	88328927	88328927	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcgtgcgcaggacagaCttcctggaggccacggggct	6	7	16	12	3	0	1	0	0	0	1	2	3	1	3	2	5	1	3	2	5	0	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr13:88328927C>T	uc001vln.2	+	2	1503	c.1284C>T	c.(1282-1284)GAC>GAT	p.D428D	SLITRK5_uc010tic.1_Silent_p.D187D	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	428	LRR 7.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GCAGGACAGACTTCCTGGAGG	0.577													10	59					0	0	0.008291	0	0		T	88328927	T	T	88328927	2	4	75	1	0	0	0	0	0	0	0	1	14771	564	20	4		4	SLITRK5	13	88328927	Silent	SNP	C	TCGA-BR-8381-01A-11D-2394-08	1958436	88328927	26840951	97	48807											
LIG4	3981	broad.mit.edu	37	chr13	108861005	108861005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctttaaaatctgcaacaCgactatgatcttccccaatt	14	12	4	11	1	2	1	0	1	2	0	3	2	3	1	2	0	3	2	2	0	6	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr13:108861005C>T	uc001vqn.2	-	2	2885	c.2612G>A	c.(2611-2613)CGT>CAT	p.R871H	LIG4_uc001vqo.2_Missense_Mutation_p.R871H|LIG4_uc010agg.1_Missense_Mutation_p.R804H|LIG4_uc010agf.2_Missense_Mutation_p.R871H|LIG4_uc001vqp.2_Missense_Mutation_p.R871H	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	871	BRCT 2.				cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					ATCTGCAACACGACTATGATC	0.343								NHEJ					9	78					0	0	0.006214	0	0		T	108861005	T	T	108861005	3	4	75	1	0	0	0	0	1	0	0	0	8799	536	19	1	127	1	LIG4	13	108861005	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	20532078	108861005	6308873	98	48808											
DCAF11	80344	broad.mit.edu	37	chr14	24587663	24587663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaagagcatcaaggcccGcgacgtaggctggagcgtct	10	7	13	11	4	3	1	2	0	1	1	3	3	3	2	1	3	2	3	1	3	3	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr14:24587663G>A	uc001wlv.2	+	7	924	c.644G>A	c.(643-645)CGC>CAC	p.R215H	DCAF11_uc001wlw.2_Missense_Mutation_p.R215H|DCAF11_uc001wlz.2_Missense_Mutation_p.R115H|DCAF11_uc001wly.2_Missense_Mutation_p.R171H|DCAF11_uc001wme.2_Missense_Mutation_p.R175H|DCAF11_uc010tny.1_Missense_Mutation_p.R82H|DCAF11_uc001wmd.2_Missense_Mutation_p.R215H|DCAF11_uc001wmc.2_Missense_Mutation_p.R115H|DCAF11_uc001wmb.3_Missense_Mutation_p.R189H|DCAF11_uc001wma.3_Missense_Mutation_p.R215H	NM_001163484	NP_001156956	Q8TEB1	DCA11_HUMAN	DDB1 and CUL4 associated factor 11 isoform 1	215						CUL4 RING ubiquitin ligase complex	protein binding				0						ATCAAGGCCCGCGACGTAGGC	0.512													14	83					0	0	0.001855	0	0		A	24587663	A	A	24587663	3	1	75	1	0	0	0	0	1	0	0	0	4265	1087	38	1	666	1	DCAF11	14	24587663	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08		24587663	82761877	99	48809											
TRIM9	114088	broad.mit.edu	37	chr14	51561035	51561035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggccgggggcaccaggCggtgcttggctaggggcccc	3	5	19	14	2	0	0	0	0	0	0	0	0	0	0	5	8	1	3	5	8	1	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr14:51561035C>T	uc001wyx.3	-	1	1388	c.623G>A	c.(622-624)CGC>CAC	p.R208H	TRIM9_uc001wyy.2_Missense_Mutation_p.R208H|TRIM9_uc001wyz.3_Missense_Mutation_p.R208H	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	208	B box-type 1.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					GGGCACCAGGCGGTGCTTGGC	0.677													7	41					0	0	0.001984	0	0		T	51561035	T	T	51561035	3	4	75	1	0	0	0	0	1	0	0	0	16575	768	27	1	1599	1	TRIM9	14	51561035	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	26973372	51561035	55788505	100	48810											
NID2	22795	broad.mit.edu	37	chr14	52535485	52535485	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggagggggctgaacttacGtagaggttgctgaatcgggc	9	8	17	7	2	0	3	0	2	0	1	1	4	0	4	0	5	3	4	0	5	4	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr14:52535485G>A	uc001wzo.2	-	1	462	c.228C>T	c.(226-228)TAC>TAT	p.Y76Y	NID2_uc010tqs.1_Silent_p.Y76Y|NID2_uc010tqt.1_Silent_p.Y76Y|NID2_uc001wzp.2_Silent_p.Y76Y	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	76						basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CTGAACTTACGTAGAGGTTGC	0.617													11	57					0	0	0.013537	0	0		A	52535485	A	A	52535485	2	1	75	1	0	0	0	0	0	0	0	1	10434	1159	40	1		1	NID2	14	52535485	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	974450	52535485	54814055	101	48811											
ABCD4	5826	broad.mit.edu	37	chr14	74764652	74764652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggttatcgatgtcatcccGcagcacgttgagggtgtagt	7	11	14	9	4	1	1	1	1	0	0	3	2	2	1	1	2	1	5	1	2	2	3	rs145141432	byFrequency	TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr14:74764652G>A	uc001xpr.2	-	4	558	c.406C>T	c.(406-408)CGG>TGG	p.R136W	ABCD4_uc001xps.2_5'UTR|ABCD4_uc001xpt.2_5'UTR|ABCD4_uc010tur.1_Missense_Mutation_p.R49W|ABCD4_uc001xpu.2_Intron|ABCD4_uc001xpv.2_RNA	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	136	ABC transmembrane type-1.					ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)		ATGTCATCCCGCAGCACGTTG	0.587													6	34					0	0	0.001168	0	0		A	74764652	A	A	74764652	3	1	75	1	0	0	0	0	1	0	0	0	63	1086	38	1	1478	1	ABCD4	14	74764652	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	22229167	74764652	32584888	102	48812											
GPR132	29933	broad.mit.edu	37	chr14	105517676	105517676	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagtaggaaaaggcagcGgctttgacgaggagaaccag	13	6	15	7	2	0	2	0	1	0	1	0	5	0	3	1	4	2	4	1	4	5	3	rs45441203	byFrequency	TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr14:105517676G>A	uc001yqd.2	-	4	1697	c.798C>T	c.(796-798)GCC>GCT	p.A266A	GPR132_uc001yqc.2_Silent_p.A78A|GPR132_uc001yqe.2_Silent_p.A257A	NM_013345	NP_037477	Q9UNW8	GP132_HUMAN	G protein-coupled receptor 132	266	Helical; Name=6; (Potential).				response to stress	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.0953)|Melanoma(154;0.155)|all_epithelial(191;0.219)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.02)|all cancers(159;0.0419)|OV - Ovarian serous cystadenocarcinoma(161;0.0521)		AAAAGGCAGCGGCTTTGACGA	0.587													4	60					0	0	0.009096	0	0		A	105517676	A	A	105517676	2	1	75	1	0	0	0	0	0	0	0	1	6657	1103	39	1		1	GPR132	14	105517676	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	30753024	105517676	1831864	103	48813											
GABRG3	2567	broad.mit.edu	37	chr15	27271924	27271924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaccgaccgtaattgacgttGacatttatgttaacagcatt	13	13	7	8	3	0	2	0	2	0	0	0	3	0	2	2	0	3	4	2	0	4	7			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr15:27271924G>A	uc001zbg.1	+	3	392	c.226G>A	c.(226-228)GAC>AAC	p.D76N	GABRG3_uc001zbf.2_Missense_Mutation_p.D76N	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	76	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		AATTGACGTTGACATTTATGT	0.393													6	20					0	0	0.001168	0	0		A	27271924	A	A	27271924	3	1	75	1	0	0	0	0	1	0	0	0	6187	1290	45	4	236	4	GABRG3	15	27271924	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08		27271924	75259468	104	48814											
APBA2	321	broad.mit.edu	37	chr15	29346438	29346438	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagagggcatggactgcaaCggggaggagtacctggccca	10	5	16	10	1	0	1	0	0	0	1	0	4	0	4	2	6	3	3	2	6	3	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr15:29346438C>T	uc001zck.2	+	3	558	c.351C>T	c.(349-351)AAC>AAT	p.N117N	APBA2_uc010azj.2_Silent_p.N117N|APBA2_uc010uat.1_Silent_p.N117N|APBA2_uc001zcl.2_Silent_p.N117N|APBA2_uc010uas.1_Silent_p.N117N	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	117					nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		TGGACTGCAACGGGGAGGAGT	0.647													18	103					0	0	0.006122	0	0		T	29346438	T	T	29346438	2	4	75	1	0	0	0	0	0	0	0	1	757	535	19	1		1	APBA2	15	29346438	Silent	SNP	C	TCGA-BR-8381-01A-11D-2394-08	2074514	29346438	73184954	105	48815											
INO80	54617	broad.mit.edu	37	chr15	41275164	41275164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactgcctgccgtggactttCggctccggcccttccctgct	2	11	10	18	3	0	0	0	0	0	0	3	1	2	1	5	3	3	2	5	3	0	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr15:41275164C>T	uc001zni.2	-	35	4562	c.4349G>A	c.(4348-4350)CGA>CAA	p.R1450Q	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	1450	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						CGTGGACTTTCGGCTCCGGCC	0.642													9	84					0	0	0.004482	0	0		T	41275164	T	T	41275164	3	4	75	1	0	0	0	0	1	0	0	0	7762	884	31	1	329	1	INO80	15	41275164	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	11928726	41275164	61256228	106	48816											
RAB27A	5873	broad.mit.edu	37	chr15	55516100	55516100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactcacccatatttctctgCgagtgctatggcttcctcct	6	15	6	14	1	2	0	1	0	1	0	5	1	4	0	3	1	3	2	3	1	3	5	rs104894499		TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr15:55516100C>T	uc002aco.2	-	6	687	c.454G>A	c.(454-456)GCA>ACA	p.A152T	RAB27A_uc002acr.2_Missense_Mutation_p.A152T|RAB27A_uc002acp.2_Missense_Mutation_p.A152T|RAB27A_uc002acq.2_Missense_Mutation_p.A152T	NM_183234	NP_899057	P51159	RB27A_HUMAN	Ras-related protein Rab-27A	152			A -> P (in GS2; may affect GTP binding; interferes with melanosome transport).		small GTPase mediated signal transduction	dendrite|exocytic vesicle|late endosome|lysosome|melanosome	GTP binding|GTPase activity			ovary(1)	1				all cancers(107;0.0273)|GBM - Glioblastoma multiforme(80;0.0993)		TATTTCTCTGCGAGTGCTATG	0.393													26	235					0	0	0.008361	0	0		T	55516100	T	T	55516100	3	4	75	1	0	0	0	0	1	0	0	0	12939	768	27	1	219	1	RAB27A	15	55516100	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	14240936	55516100	47015292	107	48817											
MEFV	4210	broad.mit.edu	37	chr16	3293377	3293377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagcaggcgggtcgggggaaCgctggacgcctggtactcat	7	7	17	10	4	1	0	1	0	0	0	2	2	1	2	1	6	3	3	1	6	3	2	rs104895096		TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr16:3293377C>T	uc002cun.1	-	10	2150	c.2110G>A	c.(2110-2112)GTT>ATT	p.V704I		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	704	B30.2/SPRY.		V -> I (in arFMF).		inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	GTCGGGGGAACGCTGGACGCC	0.517													11	111					0	0	0.010729	0	0		T	3293377	T	T	3293377	3	4	75	1	0	0	0	0	1	0	0	0	9477	536	19	1	239	1	MEFV	16	3293377	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08		3293377	87061376	108	48818											
MPV17L	255027	broad.mit.edu	37	chr16	15501819	15501819	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagccttgttcctgttcaAtggagaacagcttacgctgg	8	13	10	10	1	2	1	2	0	0	1	3	2	3	1	2	2	4	4	2	2	3	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr16:15501819A>G	uc002ddn.2	+	4	585	c.441A>G	c.(439-441)CAA>CAG	p.Q147Q	MPV17L_uc002ddm.2_Missense_Mutation_p.M124V	NM_001128423	NP_001121895	Q2QL34	MP17L_HUMAN	MPV17 mitochondrial membrane protein-like	147	Lumenal.					integral to membrane|peroxisomal membrane					0						TTCCTGTTCAATGGAGAACAG	0.498													8	70					0	0	0.00308	0	0		G	15501819	G	G	15501819	2	3	75	1	0	0	0	0	0	0	0	1	9764	101	4	3		3	MPV17L	16	15501819	Silent	SNP	A	TCGA-BR-8381-01A-11D-2394-08	12208442	15501819	74852934	109	48819											
SCNN1G	6340	broad.mit.edu	37	chr16	23221166	23221166	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tacaacgctgcctactcgctCcaggtaacagattggcaggg	10	8	11	12	2	0	1	0	0	0	1	2	1	1	1	2	3	5	4	2	3	4	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr16:23221166C>T	uc002dlm.1	+	7	1312	c.1173C>T	c.(1171-1173)CTC>CTT	p.L391L		NM_001039	NP_001030	P51170	SCNNG_HUMAN	sodium channel, nonvoltage-gated 1, gamma	391	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane|integral to plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(48;0.0366)	Amiloride(DB00594)|Triamterene(DB00384)	CCTACTCGCTCCAGGTAACAG	0.567													5	60					0	0	0.000602	0	0		T	23221166	T	T	23221166	2	4	75	1	0	0	0	0	0	0	0	1	13955	842	30	4		4	SCNN1G	16	23221166	Silent	SNP	C	TCGA-BR-8381-01A-11D-2394-08	7719347	23221166	67133587	110	48820											
IRX5	10265	broad.mit.edu	37	chr16	54966567	54966567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctggctcaacgagcaccGcaagaacccctaccccacca	11	3	8	19	2	1	1	1	0	0	1	1	2	1	1	7	2	4	3	7	2	4	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr16:54966567G>A	uc002ehv.2	+	2	407	c.407G>A	c.(406-408)CGC>CAC	p.R136H	IRX5_uc010cca.1_Missense_Mutation_p.R188H|IRX5_uc002ehw.2_Missense_Mutation_p.R70H	NM_005853	NP_005844	P78411	IRX5_HUMAN	iroquois homeobox protein 5	136	Homeobox; TALE-type.				response to stimulus|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|vitamin D binding				0						AACGAGCACCGCAAGAACCCC	0.652													21	97					0	0	0.00278	0	0		A	54966567	A	A	54966567	3	1	75	1	0	0	0	0	1	0	0	0	7863	1087	38	1	413	1	IRX5	16	54966567	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	31745401	54966567	35388186	111	48821											
CHST5	23563	broad.mit.edu	37	chr16	75563598	75563598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctcccgggagcgcagcaCggcccgcgggtcgcgcacca	5	2	15	19	8	0	0	0	0	0	0	2	1	1	1	4	3	2	3	4	3	0	0	rs147923696	byFrequency	TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr16:75563598C>T	uc002fei.2	-	3	2080	c.685G>A	c.(685-687)GTG>ATG	p.V229M	CHST5_uc002fej.1_Missense_Mutation_p.V235M	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	229	Lumenal (Potential).|PAPS (By similarity).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						GAGCGCAGCACGGCCCGCGGG	0.706													11	87					0	0	0.008291	0	0		T	75563598	T	T	75563598	3	4	75	1	0	0	0	0	1	0	0	0	3410	536	19	1	554	1	CHST5	16	75563598	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	20597031	75563598	14791155	112	48822											
DNAH9	1770	broad.mit.edu	37	chr17	11583146	11583146	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagttgaaaaaggagatttCcaaggcttggttgagatcat	15	11	11	4	0	1	3	1	2	0	2	2	5	2	3	1	3	0	3	1	3	4	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr17:11583146C>A	uc002gne.2	+	18	3494	c.3426C>A	c.(3424-3426)TTC>TTA	p.F1142L	DNAH9_uc010coo.2_Missense_Mutation_p.F436L	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1142	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AAGGAGATTTCCAAGGCTTGG	0.423													9	143					1.76689e-08	2.00392e-08	0.006214	1	0		A	11583146	A	A	11583146	3	1	75	1	0	0	0	0	1	0	0	0	4614	854	30	5	3496	5	DNAH9	17	11583146	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08		11583146	69612064	113	48823											
GIT1	28964	broad.mit.edu	37	chr17	27903635	27903635	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtagccagggccttcttcaGctccaggtactcctgcagcg	6	10	11	14	1	2	0	1	0	1	0	4	0	4	0	4	2	5	4	4	2	2	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr17:27903635G>A	uc002hef.2	-	13	1499	c.1285C>T	c.(1285-1287)CTG>TTG	p.L429L	GIT1_uc002heg.2_Silent_p.L438L|GIT1_uc010wbg.1_Silent_p.L438L|GIT1_uc010csb.1_Silent_p.L429L	NM_014030	NP_054749	Q9Y2X7	GIT1_HUMAN	G protein-coupled receptor kinase interactor 1	429					regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|focal adhesion	ARF GTPase activator activity|protein binding|zinc ion binding				0				READ - Rectum adenocarcinoma(3;0.0419)|Colorectal(3;0.069)		GCCTTCTTCAGCTCCAGGTAC	0.612													9	54					0	0	0.006214	0	0		A	27903635	A	A	27903635	2	1	75	1	0	0	0	0	0	0	0	1	6411	962	34	2		2	GIT1	17	27903635	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	16320489	27903635	53291575	114	48824											
STAT3	6774	broad.mit.edu	37	chr17	40474481	40474481	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgttcagctgctgctttgtGtatggttccacggactggat	5	16	12	8	1	1	0	1	0	0	0	2	2	2	2	1	3	3	6	1	3	1	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr17:40474481G>A	uc002hzl.1	-	21	2160	c.1920C>T	c.(1918-1920)TAC>TAT	p.Y640Y	STAT3_uc002hzk.1_Silent_p.Y640Y|STAT3_uc002hzm.1_Silent_p.Y640Y|STAT3_uc010wgh.1_Silent_p.Y542Y|STAT3_uc002hzn.1_Silent_p.Y640Y	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	640	SH2.				cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		GCTGCTTTGTGTATGGTTCCA	0.463									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				12	200					0	0	0.010729	0	0		A	40474481	A	A	40474481	2	1	75	1	0	0	0	0	0	0	0	1	15291	1372	48	4		4	STAT3	17	40474481	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	12570846	40474481	40720729	115	48825											
ABCC3	8714	broad.mit.edu	37	chr17	48753410	48753410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagtagacagaacaacacttCcctgaggctgggcgtctatg	11	8	11	11	1	1	3	0	1	1	2	2	3	2	3	1	2	2	2	1	2	4	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr17:48753410C>T	uc002isl.2	+	22	3106	c.3026C>T	c.(3025-3027)TCC>TTC	p.S1009F	ABCC3_uc002isn.2_5'Flank	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	1009	ABC transmembrane type-1 2.|Extracellular (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	AACAACACTTCCCTGAGGCTG	0.547													5	40					0	0	0.001168	0	0		T	48753410	T	T	48753410	3	4	75	1	0	0	0	0	1	0	0	0	54	855	30	4	3196	4	ABCC3	17	48753410	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	8278929	48753410	32441800	116	48826											
CCDC46	201134	broad.mit.edu	37	chr17	64092380	64092380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattcctacctctttctcacGtattcgagagagaaaatgat	12	13	6	10	2	2	3	1	1	2	2	5	5	3	3	2	0	1	1	2	0	4	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr17:64092380G>A	uc002jfl.2	-	8	976	c.757C>T	c.(757-759)CGT>TGT	p.R253C	CCDC46_uc002jfm.2_Missense_Mutation_p.R253C|CCDC46_uc010dep.2_Intron	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	253						centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			TCTTTCTCACGTATTCGAGAG	0.318													6	101					0	0	0.004482	0	0		A	64092380	A	A	64092380	3	1	75	1	0	0	0	0	1	0	0	0	2820	1145	40	1	2356	1	CCDC46	17	64092380	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	15338970	64092380	17102830	117	48827											
AATK	9625	broad.mit.edu	37	chr17	79094804	79094804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagggaggtggagagccGtgtctcgggcccggggccct	5	6	19	11	3	1	2	0	1	1	1	2	4	1	3	3	6	1	0	3	6	0	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr17:79094804G>A	uc010dia.2	-	11	3012	c.2932C>T	c.(2932-2934)CGG>TGG	p.R978W	AATK_uc010dhz.2_Intron	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	978						integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			GTGGAGAGCCGTGTCTCGGGC	0.652													6	15					0	0	0.001984	0	0		A	79094804	A	A	79094804	3	1	75	1	0	0	0	0	1	0	0	0	26	1144	40	1	1208	1	AATK	17	79094804	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	15002424	79094804	2100406	118	48828											
NFATC1	4772	broad.mit.edu	37	chr18	77170747	77170747	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctccacggccacgctgAgtctgcccagcctggaggcc	5	5	11	20	2	1	1	0	1	1	0	2	2	2	2	7	3	2	1	7	3	0	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr18:77170747A>C	uc010xfg.1	+	2	925	c.472A>C	c.(472-474)AGT>CGT	p.S158R	NFATC1_uc002lnc.1_Missense_Mutation_p.S158R|NFATC1_uc010xff.1_Missense_Mutation_p.S158R|NFATC1_uc002lnd.2_Missense_Mutation_p.S158R|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Missense_Mutation_p.S158R|NFATC1_uc010xfi.1_Missense_Mutation_p.S145R|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Missense_Mutation_p.S145R|NFATC1_uc002lng.2_Missense_Mutation_p.S145R|NFATC1_uc010xfk.1_Missense_Mutation_p.S145R	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	158	Trans-activation domain A (TAD-A).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		GGCCACGCTGAGTCTGCCCAG	0.627													7	52					0	0	0.001984	0	0		C	77170747	C	C	77170747	3	2	75	1	0	0	0	0	1	0	0	0	10380	304	11	5	570	5	NFATC1	18	77170747	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08		77170747	906501	119	48829											
DUS3L	56931	broad.mit.edu	37	chr19	5789320	5789320	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctagtgcccggccctgcGgggacctgctgggcaccaca	5	6	15	15	2	0	0	0	0	0	0	0	1	0	1	4	4	4	3	4	4	1	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr19:5789320G>A	uc002mdc.2	-	3	895	c.798C>T	c.(796-798)CCC>CCT	p.P266P	DUS3L_uc002mdd.2_Intron|DUS3L_uc010duk.2_5'UTR|DUS3L_uc010xiw.1_RNA	NM_020175	NP_064560	Q96G46	DUS3L_HUMAN	dihydrouridine synthase 3-like isoform 1	266					tRNA processing		flavin adenine dinucleotide binding|nucleic acid binding|tRNA dihydrouridine synthase activity|zinc ion binding				0						CCGGCCCTGCGGGGACCTGCT	0.731													5	31					0	0	0.000602	0	0		A	5789320	A	A	5789320	2	1	75	1	0	0	0	0	0	0	0	1	4813	1103	39	1		1	DUS3L	19	5789320	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08		5789320	53339663	120	48830											
OR7A10	390892	broad.mit.edu	37	chr19	14952325	14952325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacagatggccacaaacCggtcataggccatcacggtc	11	6	12	12	2	2	2	2	1	0	1	3	2	2	2	3	5	1	0	3	5	2	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr19:14952325C>T	uc002mzx.1	-	1	365	c.365G>A	c.(364-366)CGG>CAG	p.R122Q		NM_001005190	NP_001005190	O76100	OR7AA_HUMAN	olfactory receptor, family 7, subfamily A,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					GGCCACAAACCGGTCATAGGC	0.473													13	66					0	0	0.013537	0	0		T	14952325	T	T	14952325	3	4	75	1	0	0	0	0	1	0	0	0	11233	652	23	1	568	1	OR7A10	19	14952325	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	9163005	14952325	44176658	121	48831											
MAP1S	55201	broad.mit.edu	37	chr19	17837325	17837325	+	Frame_Shift_Del	DEL	C	-	-																															cactcagccgcggccccgtgCcagccaaacccaccgtgctc																										TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr19:17837325delC	uc002nhe.1	+	5	1141	c.1132delC	c.(1132-1134)CCAfs	p.P378fs	MAP1S_uc010eaz.1_RNA|MAP1S_uc010eba.1_Frame_Shift_Del_p.P378fs|MAP1S_uc002nhf.1_Intron|MAP1S_uc010xpv.1_Frame_Shift_Del_p.P352fs	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	378	Necessary for the microtubule-organizing center localization.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						CGGCCCCGTGCCAGCCAAACC	0.736													2	4	---	---	---	---						.	-	17837325	-	-	17837325	7	5	75	1	0	1	0	1	0	0	0	0	9252	739	26	0	1150	0	MAP1S	19	17837325	Frame_Shift_Del	DEL	C	TCGA-BR-8381-01A-11D-2394-08	2885000	17837325	41291658	122	48832											
JAK3	3718	broad.mit.edu	37	chr19	17951085	17951085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcaaagtcctgggggctgCggcggagaacataggagcca	10	6	16	9	2	1	1	1	0	0	1	2	3	2	2	2	5	3	1	2	5	3	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr19:17951085C>T	uc002nhn.3	-	9	1308	c.1208G>A	c.(1207-1209)CGC>CAC	p.R403H	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Missense_Mutation_p.R403H|JAK3_uc010xpx.1_Missense_Mutation_p.R403H	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	403	SH2; atypical.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						CTGGGGGCTGCGGCGGAGAAC	0.478		2	Mis		acute megakaryocytic leukemia|								5	34					0	0	0.001168	0	0		T	17951085	T	T	17951085	3	4	75	1	0	0	0	0	1	0	0	0	7955	768	27	1	2230	1	JAK3	19	17951085	Missense_Mutation	SNP	C	TCGA-BR-8381-01A-11D-2394-08	113760	17951085	41177898	123	48833											
MLL4	9757	broad.mit.edu	37	chr19	36210704	36210704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtcgagcgccccgaggtcGgggtcgcaagcataagacga	10	4	16	11	6	0	1	0	0	0	1	3	4	0	1	2	4	2	2	2	4	2	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr19:36210704G>A	uc010eei.2	+	3	455	c.455G>A	c.(454-456)CGG>CAG	p.R152Q		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	152					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCCCGAGGTCGGGGTCGCAAG	0.547													23	167					0	0	0.00278	0	0		A	36210704	A	A	36210704	3	1	75	1	0	0	0	0	1	0	0	0	9641	1116	39	1	465	1	MLL4	19	36210704	Missense_Mutation	SNP	G	TCGA-BR-8381-01A-11D-2394-08	18259619	36210704	22918279	124	48834											
ZFP30	22835	broad.mit.edu	37	chr19	38126845	38126845	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctctgatgtcgactgaggtgGgcacactgtctaaaggcttt	8	12	12	9	1	2	2	0	2	2	0	3	3	2	2	0	3	0	2	0	3	2	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr19:38126845G>A	uc002ogv.1	-	6	1113	c.597C>T	c.(595-597)GCC>GCT	p.A199A	ZFP30_uc002ogw.1_Silent_p.A199A|ZFP30_uc002ogx.1_Silent_p.A199A|ZFP30_uc010xtt.1_Silent_p.A198A	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog	199	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GACTGAGGTGGGCACACTGTC	0.388													10	122					0	0	0.013537	0	0		A	38126845	A	A	38126845	2	1	75	1	0	0	0	0	0	0	0	1	17669	1219	43	4		4	ZFP30	19	38126845	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	1916141	38126845	21002138	125	48835											
RRAS	6237	broad.mit.edu	37	chr19	50140101	50140101	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctgccggtcgttaatggcGaacaccagcaggaagccgtg	9	7	13	12	4	1	0	0	0	1	0	2	2	1	1	3	3	4	2	3	3	3	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr19:50140101G>A	uc002pop.1	-	3	369	c.324C>T	c.(322-324)TTC>TTT	p.F108F		NM_006270	NP_006261	P10301	RRAS_HUMAN	related RAS viral (r-ras) oncogene homolog	108					axon guidance|Ras protein signal transduction|synaptic transmission	intracellular|plasma membrane	GDP binding|GTP binding|GTPase activity|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00114)|GBM - Glioblastoma multiforme(134;0.0206)		CGTTAATGGCGAACACCAGCA	0.647													8	90					0	0	0.004482	0	0		A	50140101	A	A	50140101	2	1	75	1	0	0	0	0	0	0	0	1	13701	1049	37	1		1	RRAS	19	50140101	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	12013256	50140101	8988882	126	48836											
CHGB	1114	broad.mit.edu	37	chr20	5903072	5903072	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacccagctgatgcctcggaAgcccacgagtcctccagcag	9	5	11	16	2	0	1	0	1	0	0	3	4	2	2	5	1	4	2	5	1	1	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr20:5903072A>C	uc002wmg.2	+	4	588	c.282A>C	c.(280-282)GAA>GAC	p.E94D	CHGB_uc010zqz.1_Intron	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	94						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						ATGCCTCGGAAGCCCACGAGT	0.507													8	63					0	0	0.00308	0	0		C	5903072	C	C	5903072	3	2	75	1	0	0	0	0	1	0	0	0	3342	69	3	5	296	5	CHGB	20	5903072	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08		5903072	57122448	127	48837											
MCM8	84515	broad.mit.edu	37	chr20	5948582	5948582	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttctgaggatgggtgtaaGcatggaatgttgatggagtt	10	13	16	2	0	1	2	0	2	1	0	1	5	1	5	0	4	1	5	0	4	2	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr20:5948582G>A	uc002wmi.2	+	10	1511	c.1134G>A	c.(1132-1134)AAG>AAA	p.K378K	MCM8_uc002wmj.2_Silent_p.K362K|MCM8_uc002wmk.2_Silent_p.K378K|MCM8_uc002wml.2_Silent_p.K378K|MCM8_uc010gbp.2_Silent_p.K378K|MCM8_uc002wmm.2_5'Flank	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	378					cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						ATGGGTGTAAGCATGGAATGT	0.348													13	119					0	0	0.013537	0	0		A	5948582	A	A	5948582	2	1	75	1	0	0	0	0	0	0	0	1	9411	962	34	2		2	MCM8	20	5948582	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	45510	5948582	57076938	128	48838											
FLRT3	23767	broad.mit.edu	37	chr20	14306206	14306206	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgagtccttcagcatcaTgagtgtgagtgatctgagtc	8	13	12	8	0	3	5	2	5	1	0	5	5	4	5	1	0	1	1	1	0	0	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr20:14306206T>G	uc002wov.1	-	3	2414	c.1947A>C	c.(1945-1947)TCA>TCC	p.S649S	MACROD2_uc002wot.2_Intron|MACROD2_uc002wou.2_Intron|FLRT3_uc002wow.1_Silent_p.S649S	NM_198391	NP_938205	Q9NZU0	FLRT3_HUMAN	fibronectin leucine rich transmembrane protein 3	649	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			kidney(1)	1		Colorectal(1;0.0464)	COAD - Colon adenocarcinoma(2;0.129)	Colorectal(1;0.0393)		TTCAGCATCATGAGTGTGAGT	0.423													17	174					0	0	0.00499	0	0		G	14306206	G	G	14306206	2	3	75	1	0	0	0	0	0	0	0	1	5954	1451	51	5		5	FLRT3	20	14306206	Silent	SNP	T	TCGA-BR-8381-01A-11D-2394-08	8357624	14306206	48719314	129	48839											
LBP	3929	broad.mit.edu	37	chr20	36999964	36999964	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccaaagttggactattcAatgtaagttgtttttattga	13	17	7	4	0	1	1	1	1	0	0	2	2	2	2	1	1	0	4	1	1	6	9			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr20:36999964A>G	uc002xic.1	+	12	1293	c.1258A>G	c.(1258-1260)AAT>GAT	p.N420D		NM_004139	NP_004130	P18428	LBP_HUMAN	lipopolysaccharide-binding protein precursor	420					acute-phase response|cellular defense response|cellular response to lipoteichoic acid|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|detection of molecule of bacterial origin|innate immune response|lipid transport|lipopolysaccharide transport|lipopolysaccharide-mediated signaling pathway|macrophage activation involved in immune response|negative regulation of tumor necrosis factor production|opsonization|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of macrophage activation|positive regulation of respiratory burst involved in inflammatory response|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of tumor necrosis factor production|Toll signaling pathway	extracellular space	Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|lipid binding|lipopolysaccharide binding|lipoteichoic acid binding|receptor binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.00878)				TGGACTATTCAATGTAAGTTG	0.343													4	31					0	0	0.009096	0	0		G	36999964	G	G	36999964	3	3	75	1	0	0	0	0	1	0	0	0	8667	130	5	3	1304	3	LBP	20	36999964	Missense_Mutation	SNP	A	TCGA-BR-8381-01A-11D-2394-08	22693758	36999964	26025556	130	48840											
SLC32A1	140679	broad.mit.edu	37	chr20	37353478	37353478	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgggttttcaggcggccacGgatgaggaggcggtgggctt	6	9	19	7	3	1	1	1	1	0	0	1	3	1	3	1	8	0	2	1	8	0	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr20:37353478G>A	uc002xjc.2	+	1	374	c.111G>A	c.(109-111)ACG>ACA	p.T37T		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	37	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	AGGCGGCCACGGATGAGGAGG	0.637													7	52					0	0	0.001984	0	0		A	37353478	A	A	37353478	2	1	75	1	0	0	0	0	0	0	0	1	14590	1103	39	1		1	SLC32A1	20	37353478	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	353514	37353478	25672042	131	48841											
DIP2A	23181	broad.mit.edu	37	chr21	47918694	47918694	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgctgcagccacgccGggggccgccgctaccactgc	5	4	13	19	4	0	0	0	0	0	0	0	0	0	0	6	2	5	3	6	2	1	1			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr21:47918694G>A	uc002zjo.2	+	5	786	c.603G>A	c.(601-603)CCG>CCA	p.P201P	DIP2A_uc011afy.1_Silent_p.P137P|DIP2A_uc011afz.1_Silent_p.P201P|DIP2A_uc002zjl.2_Silent_p.P201P|DIP2A_uc002zjm.2_Silent_p.P201P|DIP2A_uc010gql.2_Silent_p.P201P|DIP2A_uc002zjn.2_Silent_p.P201P	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	201					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		CAGCCACGCCGGGGGCCGCCG	0.667													6	59					0	0	0.001168	0	0		A	47918694	A	A	47918694	2	1	75	1	0	0	0	0	0	0	0	1	4533	1103	39	1		1	DIP2A	21	47918694	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08		47918694	211201	132	48842											
EP300	2033	broad.mit.edu	37	chr22	41566511	41566511	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatacccaagcccaagcgacTgcaggaatggtacaaaaaaa	18	4	9	10	1	0	0	0	0	0	0	0	3	0	1	2	2	5	2	2	2	8	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr22:41566511T>G	uc003azl.3	+	27	4783	c.4388T>G	c.(4387-4389)CTG>CGG	p.L1463R		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1463					apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CCCAAGCGACTGCAGGAATGG	0.478			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				6	79					0	0	0.001168	0	0		G	41566511	G	G	41566511	3	3	75	1	0	0	0	0	1	0	0	0	5156	1580	55	5	4494	5	EP300	22	41566511	Missense_Mutation	SNP	T	TCGA-BR-8381-01A-11D-2394-08		41566511	9738055	133	48843											
MLC1	23209	broad.mit.edu	37	chr22	50515884	50515884	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcgatgatcaccgtggcCgccatgagcagctccagcag	9	5	13	14	3	1	2	1	2	0	0	2	3	2	2	4	1	4	4	4	1	0	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr22:50515884C>T	uc003bjg.1	-	6	744	c.471G>A	c.(469-471)GCG>GCA	p.A157A	MLC1_uc011arl.1_Silent_p.A105A|MLC1_uc003bjh.1_Silent_p.A157A|MLC1_uc011arm.1_Silent_p.A127A|MLC1_uc011arn.1_Silent_p.A78A|MLC1_uc011aro.1_Silent_p.A123A	NM_139202	NP_631941	Q15049	MLC1_HUMAN	megalencephalic leukoencephalopathy with	157	Helical; (Potential).					basolateral plasma membrane|endosome|integral to membrane|integral to membrane of membrane fraction	ion channel activity			pancreas(1)	1		all_cancers(38;7.69e-11)|all_epithelial(38;9.52e-10)|all_lung(38;3.67e-05)|Breast(42;0.000776)|Lung NSC(38;0.000946)|Ovarian(80;0.0365)|Lung SC(80;0.113)		READ - Rectum adenocarcinoma(2;0.000669)|Colorectal(2;0.00242)|LUAD - Lung adenocarcinoma(64;0.0695)|BRCA - Breast invasive adenocarcinoma(115;0.216)		TCACCGTGGCCGCCATGAGCA	0.632													5	45					0	0	0.000602	0	0		T	50515884	T	T	50515884	2	4	75	1	0	0	0	0	0	0	0	1	9630	639	23	1		1	MLC1	22	50515884	Silent	SNP	C	TCGA-BR-8381-01A-11D-2394-08	8949373	50515884	788682	134	48844											
PLXNB2	23654	broad.mit.edu	37	chr22	50720370	50720370	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcacgtactcgaaggccccGgcctctgttctgagcagggc	6	7	14	14	3	2	1	0	1	2	0	3	2	2	1	3	4	2	4	3	4	2	2			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chr22:50720370G>A	uc003bkv.3	-	20	3364	c.3258C>T	c.(3256-3258)GCC>GCT	p.A1086A	PLXNB2_uc003bkt.1_5'UTR|PLXNB2_uc003bku.1_Silent_p.A71A	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1086	IPT/TIG 3.|Extracellular (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CGAAGGCCCCGGCCTCTGTTC	0.627													4	45					0	0	0.009096	0	0		A	50720370	A	A	50720370	2	1	75	1	0	0	0	0	0	0	0	1	12143	1103	39	1		1	PLXNB2	22	50720370	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	204486	50720370	584196	135	48845											
ASMTL	8623	broad.mit.edu	37	chrX	1522378	1522378	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctccaccagcagcaggccGgcccctgagggagacagcag	9	3	14	15	1	1	2	0	1	1	1	2	3	1	2	5	3	3	3	5	3	0	0			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chrX:1522378G>A	uc004cpx.1	-	13	1761	c.1650C>T	c.(1648-1650)GCC>GCT	p.A550A	NCRNA00105_uc004cpv.2_RNA|NCRNA00105_uc004cpw.2_RNA|ASMTL_uc011mhe.1_Silent_p.A474A|ASMTL_uc004cpy.1_Silent_p.A534A|ASMTL_uc011mhf.1_Silent_p.A492A	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	550	ASMT-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCAGCAGGCCGGCCCCTGAGG	0.642													9	58					0	0	0.006214	0	0		A	1522378	A	A	1522378	2	1	75	1	0	0	0	0	0	0	0	1	1047	1103	39	1		1	ASMTL	23	1522378	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08		1522378	153748182	136	48846											
MXRA5	25878	broad.mit.edu	37	chrX	3227994	3227994	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatgcagttcagtttcacGgtgttcccgggccgggtgta	5	11	14	11	3	2	0	2	0	0	0	3	0	3	0	3	3	1	5	3	3	1	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chrX:3227994G>A	uc004crg.3	-	7	8407	c.8250C>T	c.(8248-8250)ACC>ACT	p.T2750T		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2750	Ig-like C2-type 12.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TCAGTTTCACGGTGTTCCCGG	0.597													16	25					0	0	0.004007	0	0		A	3227994	A	A	3227994	2	1	75	1	0	0	0	0	0	0	0	1	10021	1103	39	1		1	MXRA5	23	3227994	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	1705616	3227994	152042566	137	48847											
CLCN5	1184	broad.mit.edu	37	chrX	49855541	49855541	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgcctggttacacacaaCgggtaagaagtcttgagtga	12	9	12	8	1	1	3	0	2	1	1	1	3	1	3	1	2	3	2	1	2	4	3			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chrX:49855541C>T	uc004dos.1	+	11	2396	c.2148C>T	c.(2146-2148)AAC>AAT	p.N716N	CLCN5_uc004dor.1_Silent_p.N786N|CLCN5_uc004doq.1_Silent_p.N786N|CLCN5_uc004dot.1_Silent_p.N716N	NM_000084	NP_000075	P51795	CLCN5_HUMAN	chloride channel 5 isoform b	716	CBS 2.|Cytoplasmic (By similarity).				excretion	apical part of cell|endosome membrane|Golgi membrane|integral to plasma membrane	antiporter activity|ATP binding			ovary(2)|lung(1)|central_nervous_system(1)	4	Ovarian(276;0.236)					TTACACACAACGGGTAAGAAG	0.408													3	19					0	0	0.004672	0	0		T	49855541	T	T	49855541	2	4	75	1	0	0	0	0	0	0	0	1	3469	535	19	1		1	CLCN5	23	49855541	Silent	SNP	C	TCGA-BR-8381-01A-11D-2394-08	46627547	49855541	105415019	138	48848											
COL4A6	1288	broad.mit.edu	37	chrX	107412792	107412792	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgccaattcctggatatccTttttctcctttgggtccagg	6	16	8	11	0	1	0	0	0	1	0	5	1	4	1	5	3	1	0	5	3	2	5			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chrX:107412792T>C	uc004enw.3	-	37	3730	c.3627A>G	c.(3625-3627)AAA>AAG	p.K1209K	COL4A6_uc004env.3_Silent_p.K1208K|COL4A6_uc011msn.1_Silent_p.K1184K|COL4A6_uc010npk.2_Silent_p.K1184K	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1209	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						CTGGATATCCTTTTTCTCCTT	0.587									Alport_syndrome_with_Diffuse_Leiomyomatosis				8	17					0	0	0.004482	0	0		C	107412792	C	C	107412792	2	2	75	1	0	0	0	0	0	0	0	1	3698	1606	56	3		3	COL4A6	23	107412792	Silent	SNP	T	TCGA-BR-8381-01A-11D-2394-08	57557251	107412792	47857768	139	48849											
ZNF280C	55609	broad.mit.edu	37	chrX	129339386	129339386	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaggcacactagagtaatGcccctatgaaaaaaaagaag	19	7	8	7	0	0	3	0	1	0	2	0	3	0	3	2	1	1	2	2	1	9	4			TCGA-BR-8381-01A-11D-2394-08	TCGA-BR-8381-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6738c83-7b52-4224-846a-67bd085aaab8	69e6cf8a-eb68-478c-a849-51fb2f8736ac	g.chrX:129339386G>T	uc004evm.2	-	17	2200	c.2046C>A	c.(2044-2046)GGC>GGA	p.G682G		NM_017666	NP_060136	Q8ND82	Z280C_HUMAN	zinc finger protein 280C	682					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)	3						CTAGAGTAATGCCCCTATGAA	0.338													10	21					1.08611e-07	1.21696e-07	0.010729	1	0		T	129339386	T	T	129339386	2	4	75	1	0	0	0	0	0	0	0	1	17841	1306	46	5		5	ZNF280C	23	129339386	Silent	SNP	G	TCGA-BR-8381-01A-11D-2394-08	21926594	129339386	25931174	140	48850											
TTLL10	254173	broad.mit.edu	37	chr1	1118373	1118373	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccggagcatggaggacgAccccatccaccacaagacgc	12	2	11	16	3	0	1	0	0	0	1	1	6	1	4	5	3	1	1	5	3	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:1118373A>G	uc001acy.2	+	11	1185	c.1034A>G	c.(1033-1035)GAC>GGC	p.D345G	TTLL10_uc010nyg.1_Missense_Mutation_p.D345G|TTLL10_uc001acz.1_Missense_Mutation_p.D272G	NM_001130045	NP_001123517	Q6ZVT0	TTL10_HUMAN	tubulin tyrosine ligase-like family, member 10	345	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			large_intestine(1)	1	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;4.75e-36)|OV - Ovarian serous cystadenocarcinoma(86;5.82e-22)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;4.22e-05)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		ATGGAGGACGACCCCATCCAC	0.692													3	16					0	0	0.004672	0	0		G	1118373	G	G	1118373	3	3	76	1	0	0	0	0	1	0	0	0	16749	275	10	3	1064	3	TTLL10	1	1118373	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08		1118373	248132248	1	48851											
CCNL2	81669	broad.mit.edu	37	chr1	1333712	1333712	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccaggtggacacaggccAttgacacatgctgaagcgga	13	5	13	10	1	0	2	0	2	0	0	0	4	0	4	2	4	3	1	2	4	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:1333712A>G	uc001afi.2	-	3	406	c.374T>C	c.(373-375)ATG>ACG	p.M125T	CCNL2_uc001afg.1_5'UTR|CCNL2_uc001afh.2_Missense_Mutation_p.M125T|CCNL2_uc001afj.2_Missense_Mutation_p.M125T|CCNL2_uc001afk.2_Missense_Mutation_p.M125T|LOC148413_uc001afm.2_5'Flank|LOC148413_uc001afn.1_5'Flank|LOC148413_uc009vkc.1_5'Flank|LOC148413_uc009vkd.2_5'Flank	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A	125	Cyclin-like 1.				regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		GACACAGGCCATTGACACATG	0.552													12	79					0	0	0.000978	0	0		G	1333712	G	G	1333712	3	3	76	1	0	0	0	0	1	0	0	0	2935	217	8	3	1250	3	CCNL2	1	1333712	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	215339	1333712	247916909	2	48852											
GABRD	2563	broad.mit.edu	37	chr1	1961102	1961102	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctggatctgctatgtcttCgtgtttgccgccctggtgga	3	16	12	10	2	3	0	0	0	3	0	4	2	3	2	2	3	2	2	2	3	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:1961102C>T	uc001aip.2	+	8	1055	c.960C>T	c.(958-960)TTC>TTT	p.F320F		NM_000815	NP_000806	O14764	GBRD_HUMAN	gamma-aminobutyric acid (GABA) A receptor, delta	320	Helical; (Probable).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;2.7e-19)|all_lung(118;1.22e-08)|Lung NSC(185;1.24e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;2.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.17e-24)|GBM - Glioblastoma multiforme(42;9.56e-08)|Colorectal(212;4.12e-05)|COAD - Colon adenocarcinoma(227;0.000194)|Kidney(185;0.00231)|BRCA - Breast invasive adenocarcinoma(365;0.00441)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		GCTATGTCTTCGTGTTTGCCG	0.587													10	41					0	0	0.006214	0	0		T	1961102	T	T	1961102	2	4	76	1	0	0	0	0	0	0	0	1	6183	883	31	1		1	GABRD	1	1961102	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	627390	1961102	247289519	3	48853											
SKI	6497	broad.mit.edu	37	chr1	2235477	2235477	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccagagacgctggcgccCgtggctgccccagaggagga	7	3	16	15	3	0	2	0	0	0	2	0	5	0	4	5	4	1	2	5	4	0	0	rs150985728	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:2235477C>T	uc001aja.3	+	4	1482	c.1410C>T	c.(1408-1410)CCC>CCT	p.P470P		NM_003036	NP_003027	P12755	SKI_HUMAN	v-ski sarcoma viral oncogene homolog	470					anterior/posterior axis specification|BMP signaling pathway|bone morphogenesis|cell motility|cell proliferation|embryonic limb morphogenesis|face morphogenesis|lens morphogenesis in camera-type eye|myelination in peripheral nervous system|myotube differentiation|negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of fibroblast proliferation|negative regulation of osteoblast differentiation|negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|neural tube closure|nose morphogenesis|olfactory bulb development|palate development|positive regulation of DNA binding|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|protein homotrimerization|regulation of apoptosis|retina development in camera-type eye|skeletal muscle fiber development|SMAD protein signal transduction|somatic stem cell maintenance|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|PML body|transcription factor complex|transcriptional repressor complex	histone deacetylase inhibitor activity|nucleotide binding|protein domain specific binding|protein kinase binding|repressing transcription factor binding|SMAD binding|transcription corepressor activity|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(77;0.000139)|all_epithelial(69;4.45e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)			Epithelial(90;2.14e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.72e-29)|GBM - Glioblastoma multiforme(42;2.45e-08)|Colorectal(212;5.33e-05)|COAD - Colon adenocarcinoma(227;0.000228)|Kidney(185;0.00268)|BRCA - Breast invasive adenocarcinoma(365;0.00471)|STAD - Stomach adenocarcinoma(132;0.0147)|KIRC - Kidney renal clear cell carcinoma(229;0.0385)|Lung(427;0.207)		CGCTGGCGCCCGTGGCTGCCC	0.667													13	33					0	0	0.001368	0	0		T	2235477	T	T	2235477	2	4	76	1	0	0	0	0	0	0	0	1	14382	639	23	1		1	SKI	1	2235477	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	274375	2235477	247015144	4	48854											
PRDM16	63976	broad.mit.edu	37	chr1	3328391	3328391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gccccctgaaccacacccagGacgccaagctccccagtccc	9	3	7	22	1	0	1	0	1	0	0	2	2	2	2	8	1	2	1	8	1	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:3328391G>A	uc001akf.2	+	9	1710	c.1630G>A	c.(1630-1632)GAC>AAC	p.D544N	PRDM16_uc001akc.2_Missense_Mutation_p.D544N|PRDM16_uc001akd.2_Missense_Mutation_p.D544N|PRDM16_uc001ake.2_Missense_Mutation_p.D544N|PRDM16_uc009vlh.2_Missense_Mutation_p.D245N	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	544	Pro-rich.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		CCACACCCAGGACGCCAAGCT	0.701			T	EVI1	MDS|AML								31	121					0	0	0.002445	0	0		A	3328391	A	A	3328391	3	1	76	1	0	0	0	0	1	0	0	0	12479	1174	41	4	1664	4	PRDM16	1	3328391	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1092914	3328391	245922230	5	48855											
PRDM16	63976	broad.mit.edu	37	chr1	3328975	3328975	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacttcccccactccctttaCcccttcacggaccgagccct	7	9	4	21	2	1	0	1	0	0	0	3	2	3	1	7	1	3	0	7	1	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:3328975C>A	uc001akf.2	+	9	2294	c.2214C>A	c.(2212-2214)TAC>TAA	p.Y738*	PRDM16_uc001akc.2_Nonsense_Mutation_p.Y738*|PRDM16_uc001akd.2_Nonsense_Mutation_p.Y738*|PRDM16_uc001ake.2_Nonsense_Mutation_p.Y738*|PRDM16_uc009vlh.2_Nonsense_Mutation_p.Y439*	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	738	Interaction with CTBP1 and CTBP2 (By similarity).				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		ACTCCCTTTACCCCTTCACGG	0.667			T	EVI1	MDS|AML								21	101					7.41877e-09	8.10277e-09	0.001882	1	0		A	3328975	A	A	3328975	4	1	76	1	0	0	0	0	0	1	0	0	12479	518	18	5	2248	5	PRDM16	1	3328975	Nonsense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	584	3328975	245921646	6	48856											
CAMTA1	23261	broad.mit.edu	37	chr1	7527916	7527916	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacggctgctatgtccattcCtccatcatccccaccttcca	7	12	4	18	1	1	0	1	0	0	0	6	0	6	0	7	1	2	2	7	1	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:7527916C>T	uc001aoi.2	+	6	672	c.465C>T	c.(463-465)TCC>TCT	p.S155S		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	155	CG-1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		ATGTCCATTCCTCCATCATCC	0.468													26	142					0	0	0.00632	0	0		T	7527916	T	T	7527916	2	4	76	1	0	0	0	0	0	0	0	1	2616	668	24	4		4	CAMTA1	1	7527916	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4198941	7527916	241722705	7	48857											
SLC2A5	6518	broad.mit.edu	37	chr1	9099965	9099965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcacggagatgaagcccGcggccttctctgcctcatcc	7	8	10	16	3	3	2	2	1	1	1	5	3	4	2	4	2	3	1	4	2	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:9099965G>A	uc001apo.2	-	7	1071	c.779C>T	c.(778-780)GCG>GTG	p.A260V	SLC2A5_uc010nzy.1_Missense_Mutation_p.A201V|SLC2A5_uc010nzz.1_Missense_Mutation_p.A145V|SLC2A5_uc010oaa.1_Missense_Mutation_p.A216V|SLC2A5_uc010oab.1_Missense_Mutation_p.A260V	NM_003039	NP_003030	P22732	GTR5_HUMAN	solute carrier family 2 (facilitated	260	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	fructose transmembrane transporter activity|glucose transmembrane transporter activity			pancreas(2)|ovary(1)	3	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.78e-07)|COAD - Colon adenocarcinoma(227;8.83e-05)|Kidney(185;0.000286)|KIRC - Kidney renal clear cell carcinoma(229;0.00103)|STAD - Stomach adenocarcinoma(132;0.0019)|BRCA - Breast invasive adenocarcinoma(304;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		GATGAAGCCCGCGGCCTTCTC	0.677													8	33					0	0	0.00308	0	0		A	9099965	A	A	9099965	3	1	76	1	0	0	0	0	1	0	0	0	14573	1087	38	1	750	1	SLC2A5	1	9099965	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1572049	9099965	240150656	8	48858											
TMEM201	199953	broad.mit.edu	37	chr1	9656056	9656056	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccactgcgagcagtacaaCggcttccaggaggtgtgggt	8	7	14	12	2	0	0	0	0	0	0	1	2	1	1	3	4	4	3	3	4	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:9656056C>T	uc001apz.2	+	2	234	c.222C>T	c.(220-222)AAC>AAT	p.N74N	TMEM201_uc001apy.2_Silent_p.N74N	NM_001130924	NP_001124396	Q5SNT2	TM201_HUMAN	transmembrane protein 201 isoform 1	74						integral to membrane|nuclear inner membrane					0	all_lung(157;0.222)	all_epithelial(116;2.09e-14)|Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|STAD - Stomach adenocarcinoma(132;0.00345)|READ - Rectum adenocarcinoma(331;0.0419)		AGCAGTACAACGGCTTCCAGG	0.622													5	24					0	0	0.001168	0	0		T	9656056	T	T	9656056	2	4	76	1	0	0	0	0	0	0	0	1	16151	535	19	1		1	TMEM201	1	9656056	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	556091	9656056	239594565	9	48859											
APITD1	378708	broad.mit.edu	37	chr1	10493999	10493999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagaccattgcggccatttCggagctgactttccgacagt	9	10	10	12	3	0	2	0	1	0	1	2	4	1	3	3	2	2	1	3	2	0	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:10493999C>T	uc001are.2	+	2	568	c.152C>T	c.(151-153)TCG>TTG	p.S51L	APITD1_uc001arf.2_Missense_Mutation_p.S51L|APITD1_uc001arg.2_Silent_p.F130F|APITD1_uc001arh.2_Missense_Mutation_p.S12L	NM_199294	NP_954988	Q8N2Z9	CENPS_HUMAN	apoptosis-inducing, TAF9-like domain 1 isoform	51					DNA repair|mitotic prometaphase|transcription initiation, DNA-dependent	chromosome, centromeric region|cytosol|Fanconi anaemia nuclear complex	chromatin binding|DNA binding|protein binding			ovary(1)	1	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.31e-07)|COAD - Colon adenocarcinoma(227;7.32e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000297)|Kidney(185;0.000747)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0487)		GCGGCCATTTCGGAGCTGACT	0.522													23	116					0	0	0.00278	0	0		T	10493999	T	T	10493999	3	4	76	1	0	0	0	0	1	0	0	0	775	893	31	1	158	1	APITD1	1	10493999	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	837943	10493999	238756622	10	48860											
CASZ1	54897	broad.mit.edu	37	chr1	10703273	10703273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctccgcatgtgcttccGcgcgtgggaggtcatctggt	4	11	13	13	4	2	0	1	0	1	0	5	1	5	1	3	3	1	2	3	3	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:10703273G>A	uc001aro.2	-	19	4284	c.3964C>T	c.(3964-3966)CGG>TGG	p.R1322W		NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	1322	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		ATGTGCTTCCGCGCGTGGGAG	0.642													12	59					0	0	0.000978	0	0		A	10703273	A	A	10703273	3	1	76	1	0	0	0	0	1	0	0	0	2688	1086	38	1	1327	1	CASZ1	1	10703273	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	209274	10703273	238547348	11	48861											
MTOR	2475	broad.mit.edu	37	chr1	11308061	11308061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgaagggggtaatgtgacGaggttttgttccgaagccca	9	10	16	6	2	0	2	0	2	0	0	1	4	1	2	2	4	1	3	2	4	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:11308061G>A	uc001asd.2	-	7	1052	c.931C>T	c.(931-933)CGT>TGT	p.R311C		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	311					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GTAATGTGACGAGGTTTTGTT	0.512													26	111					0	0	0.004656	0	0		A	11308061	A	A	11308061	3	1	76	1	0	0	0	0	1	0	0	0	9972	1058	37	1	6926	1	MTOR	1	11308061	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	604788	11308061	237942560	12	48862											
MTHFR	4524	broad.mit.edu	37	chr1	11854789	11854789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtctgcaggccctcaccagCggccgttagggaactcgtcc	6	7	13	15	3	2	0	1	0	1	0	4	1	3	1	4	4	3	2	4	4	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:11854789C>T	uc001atc.1	-	7	1347	c.1163G>A	c.(1162-1164)CGC>CAC	p.R388H	MTHFR_uc001atb.1_Missense_Mutation_p.R411H	NM_005957	NP_005948	P42898	MTHR_HUMAN	5,10-methylenetetrahydrofolate reductase	388					blood circulation|folic acid metabolic process	cytosol	methylenetetrahydrofolate reductase (NADPH) activity|protein binding				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)	Benazepril(DB00542)|Cyanocobalamin(DB00115)|Folic Acid(DB00158)|L-Methionine(DB00134)|Menadione(DB00170)|Methotrexate(DB00563)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|Raltitrexed(DB00293)|Riboflavin(DB00140)|S-Adenosylmethionine(DB00118)|Tetrahydrofolic acid(DB00116)	CCCTCACCAGCGGCCGTTAGG	0.562													26	156					0	0	0.005443	0	0		T	11854789	T	T	11854789	3	4	76	1	0	0	0	0	1	0	0	0	9949	768	27	1	831	1	MTHFR	1	11854789	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	546728	11854789	237395832	13	48863											
PRDM2	7799	broad.mit.edu	37	chr1	14105788	14105788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactcatactaatatgagaCggcatcagcgtagagttcac	14	9	9	9	2	3	2	3	1	0	2	3	4	3	2	0	1	3	3	0	1	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:14105788C>T	uc001avi.2	+	8	2354	c.1498C>T	c.(1498-1500)CGG>TGG	p.R500W	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.R500W|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.R257W|PRDM2_uc001avk.2_Missense_Mutation_p.R299W|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	500	C2H2-type 3.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		TAATATGAGACGGCATCAGCG	0.458													10	48					0	0	0.008291	0	0		T	14105788	T	T	14105788	3	4	76	1	0	0	0	0	1	0	0	0	12480	527	19	1	1524	1	PRDM2	1	14105788	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2250999	14105788	235144833	14	48864											
TAS1R2	80834	broad.mit.edu	37	chr1	19181096	19181096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgccagtgaagttctggcGcagcacctcattgaagaagt	10	8	13	10	2	2	3	1	2	1	1	2	3	2	3	2	2	1	3	2	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:19181096G>A	uc001bba.1	-	3	869	c.868C>T	c.(868-870)CGC>TGC	p.R290C		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	290	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	AAGTTCTGGCGCAGCACCTCA	0.632													14	47					0	0	0.00245	0	0		A	19181096	A	A	19181096	3	1	76	1	0	0	0	0	1	0	0	0	15588	1087	38	1	1667	1	TAS1R2	1	19181096	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	5075308	19181096	230069525	15	48865											
UBR4	23352	broad.mit.edu	37	chr1	19487483	19487483	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgggcttctcttcgtcAgcaacctttccatcactgat	6	16	6	13	1	4	1	2	1	2	0	7	1	5	1	2	1	2	2	2	1	1	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:19487483A>C	uc001bbi.2	-	38	5338	c.5334T>G	c.(5332-5334)GCT>GCG	p.A1778A	UBR4_uc001bbm.1_Silent_p.A989A	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	1778					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TCTCTTCGTCAGCAACCTTTC	0.547													10	45					0	0	0.008291	0	0		C	19487483	C	C	19487483	2	2	76	1	0	0	0	0	0	0	0	1	16930	175	7	5		5	UBR4	1	19487483	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	306387	19487483	229763138	16	48866											
AKR7L	246181	broad.mit.edu	37	chr1	19593833	19593833	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cattcgtgggcaaacaaatgCcaggcttgattaaaggcgtc	12	9	11	9	2	0	1	0	1	0	0	2	1	0	1	1	3	2	2	1	3	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:19593833C>A	uc010ocx.1	-	8	957	c.957G>T	c.(955-957)TGG>TGT	p.W319C	AKR7L_uc010ocy.1_3'UTR	NM_201252	NP_957704			aflatoxin B1 aldehyde reductase 3 isoform 1												0						CAAACAAATGCCAGGCTTGAT	0.562													15	79					2.61681e-11	2.8992e-11	0.00245	1	0		A	19593833	A	A	19593833	3	1	76	1	0	0	0	0	1	0	0	0	477	740	26	5	42	5	AKR7L	1	19593833	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	106350	19593833	229656788	17	48867											
C1QA	712	broad.mit.edu	37	chr1	22965798	22965798	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttcagctgcagcagggTgaccaggtctgggttgaaaa	9	9	15	8	0	2	2	1	2	1	0	2	2	2	2	1	3	4	5	1	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:22965798T>C	uc001bfy.2	+	3	721	c.636T>C	c.(634-636)GGT>GGC	p.G212G	C1QA_uc001bfz.2_Silent_p.G212G	NM_015991	NP_057075	P02745	C1QA_HUMAN	complement component 1, q subcomponent, A chain	212	C1q.				cell-cell signaling|complement activation, classical pathway|innate immune response	collagen|complement component C1 complex					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.41e-27)|Colorectal(126;1.52e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.63e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000541)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TGCAGCAGGGTGACCAGGTCT	0.597													14	60					0	0	0.00245	0	0		C	22965798	C	C	22965798	2	2	76	1	0	0	0	0	0	0	0	1	1957	1683	59	3		3	C1QA	1	22965798	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3371965	22965798	226284823	18	48868											
ARID1A	8289	broad.mit.edu	37	chr1	27099909	27099909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgacccctacagtcgtgCtgccggccctgggctaggaa	6	7	15	13	2	0	1	0	1	0	0	1	2	0	2	4	4	3	2	4	4	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:27099909C>T	uc001bmv.1	+	15	4161	c.3788C>T	c.(3787-3789)GCT>GTT	p.A1263V	ARID1A_uc001bmt.1_Missense_Mutation_p.A1262V|ARID1A_uc001bmu.1_Missense_Mutation_p.A1263V|ARID1A_uc001bmw.1_Missense_Mutation_p.A880V|ARID1A_uc001bmx.1_Missense_Mutation_p.A109V|ARID1A_uc009vsm.1_5'UTR|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1263					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TACAGTCGTGCTGCCGGCCCT	0.602			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								13	50					0	0	0.00245	0	0		T	27099909	T	T	27099909	3	4	76	1	0	0	0	0	1	0	0	0	913	797	28	2	3846	2	ARID1A	1	27099909	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4134111	27099909	222150712	19	48869											
EPB41	2035	broad.mit.edu	37	chr1	29365854	29365854	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggactcaagctcagaccAggcaagctagtgctctaatt	11	8	10	12	1	3	1	2	0	1	1	3	2	3	2	2	2	3	4	2	2	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:29365854A>G	uc001brm.1	+	10	1559	c.1552A>G	c.(1552-1554)AGG>GGG	p.R518G	EPB41_uc001brg.1_Missense_Mutation_p.R309G|EPB41_uc001brh.1_Missense_Mutation_p.R309G|EPB41_uc001bri.1_Missense_Mutation_p.R483G|EPB41_uc001brj.1_Missense_Mutation_p.R309G|EPB41_uc009vtk.1_Missense_Mutation_p.R483G|EPB41_uc001brk.2_Missense_Mutation_p.R518G|EPB41_uc001brl.1_Missense_Mutation_p.R518G|EPB41_uc009vtl.1_Missense_Mutation_p.R309G|EPB41_uc009vtm.1_Missense_Mutation_p.R151G	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1	518	Hydrophilic.				blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)		AGCTCAGACCAGGCAAGCTAG	0.498													17	100					0	0	0.004007	0	0		G	29365854	G	G	29365854	3	3	76	1	0	0	0	0	1	0	0	0	5159	179	7	3	1590	3	EPB41	1	29365854	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	2265945	29365854	219884767	20	48870											
ZNF362	149076	broad.mit.edu	37	chr1	33745971	33745971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccgcaaaaagatcaaggCggagaacccggggggtccgc	11	2	16	12	5	1	2	1	0	0	2	2	3	2	2	3	6	1	1	3	6	4	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:33745971C>T	uc001bxc.1	+	5	766	c.596C>T	c.(595-597)GCG>GTG	p.A199V		NM_152493	NP_689706	Q5T0B9	ZN362_HUMAN	zinc finger protein 362	199					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AAGATCAAGGCGGAGAACCCG	0.652													14	42					0	0	0.001855	0	0		T	33745971	T	T	33745971	3	4	76	1	0	0	0	0	1	0	0	0	17893	768	27	1	610	1	ZNF362	1	33745971	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4380117	33745971	215504650	21	48871											
C1orf94	84970	broad.mit.edu	37	chr1	34666581	34666581	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggccaccaagaacccaagCgggcagccgagacttcgaaa	13	2	13	13	3	0	2	0	0	0	2	1	4	0	2	4	3	3	1	4	3	4	1	rs145466967		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:34666581C>T	uc001bxs.3	+	3	1047	c.648C>T	c.(646-648)AGC>AGT	p.S216S	C1orf94_uc001bxt.2_Silent_p.S406S	NM_032884	NP_116273	Q6P1W5	CA094_HUMAN	hypothetical protein LOC84970 isoform b	216							protein binding				0		Myeloproliferative disorder(586;0.0393)				AGAACCCAAGCGGGCAGCCGA	0.587													7	25					0	0	0.001984	0	0		T	34666581	T	T	34666581	2	4	76	1	0	0	0	0	0	0	0	1	2074	767	27	1		1	C1orf94	1	34666581	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	920610	34666581	214584040	22	48872											
ZC3H12A	80149	broad.mit.edu	37	chr1	37949047	37949047	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcaggagcccgtggggcagGgcaggcagcctggccaagga	8	2	20	11	1	0	0	0	0	0	0	0	2	0	2	3	8	2	4	3	8	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:37949047G>T	uc001cbb.3	+	6	1785	c.1635G>T	c.(1633-1635)AGG>AGT	p.R545S	ZC3H12A_uc001cbc.1_Missense_Mutation_p.R340S	NM_025079	NP_079355	Q5D1E8	ZC12A_HUMAN	zinc finger CCCH-type containing 12A	545					angiogenesis|apoptosis|cell differentiation	cytoplasm|nucleus|plasma membrane	endonuclease activity|metal ion binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CGTGGGGCAGGGCAGGCAGCC	0.652													13	119					3.27435e-08	3.56181e-08	0.00245	1	0		T	37949047	T	T	37949047	3	4	76	1	0	0	0	0	1	0	0	0	17586	1223	43	5	1653	5	ZC3H12A	1	37949047	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3282466	37949047	211301574	23	48873											
GNL2	29889	broad.mit.edu	37	chr1	38034527	38034527	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatcttctcatccagtgctTtaataacggctttggtgtcg	8	15	8	10	2	2	0	1	0	2	0	5	0	3	0	1	2	2	2	1	2	3	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:38034527T>G	uc001cbk.2	-	13	1956	c.1793A>C	c.(1792-1794)AAA>ACA	p.K598T		NM_013285	NP_037417	Q13823	NOG2_HUMAN	guanine nucleotide binding protein-like 2	598					ribosome biogenesis	nucleolus	GTP binding|GTPase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)				ATCCAGTGCTTTAATAACGGC	0.428													32	174					0	0	0.002836	0	0		G	38034527	G	G	38034527	3	3	76	1	0	0	0	0	1	0	0	0	6551	1841	64	5	418	5	GNL2	1	38034527	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	85480	38034527	211216094	24	48874											
HYI	81888	broad.mit.edu	37	chr1	43916935	43916935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcctctgggtggccccGcctatcccagtatgaacgta	7	8	11	15	2	1	1	0	1	1	0	2	1	2	1	6	2	2	2	6	2	4	3	rs142109071		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:43916935G>A	uc001cjo.2	-	8	978	c.808C>T	c.(808-810)CGG>TGG	p.R270W	KIAA0467_uc001cjk.1_3'UTR|KIAA0467_uc001cjl.1_3'UTR|HYI_uc001cjm.2_3'UTR|HYI_uc001cjn.2_3'UTR|HYI_uc001cjp.2_Missense_Mutation_p.R197W	NM_031207	NP_112484	Q5T013	HYI_HUMAN	hydroxypyruvate isomerase homolog	270							hydroxypyruvate isomerase activity			ovary(1)	1	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GGGTGGCCCCGCCTATCCCAG	0.612													31	111					0	0	0.002096	0	0		A	43916935	A	A	43916935	3	1	76	1	0	0	0	0	1	0	0	0	7484	1086	38	1	29	1	HYI	1	43916935	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	5882408	43916935	205333686	25	48875											
TESK2	10420	broad.mit.edu	37	chr1	45813321	45813321	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggagaacctcaggtgccAtccagaatggggaacccacc	11	5	11	14	1	1	2	1	0	0	2	3	4	2	3	5	4	3	0	5	4	3	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:45813321A>G	uc001cns.1	-	7	1071	c.668T>C	c.(667-669)ATG>ACG	p.M223T	TESK2_uc009vxr.1_Missense_Mutation_p.M223T|TESK2_uc010olo.1_Missense_Mutation_p.M140T|TESK2_uc009vxs.1_Missense_Mutation_p.M15T	NM_007170	NP_009101	Q96S53	TESK2_HUMAN	testis-specific protein kinase 2	223	Protein kinase.				actin cytoskeleton organization|focal adhesion assembly|spermatogenesis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(2)|pancreas(1)	5	Acute lymphoblastic leukemia(166;0.155)					CTCAGGTGCCATCCAGAATGG	0.443													27	155					0	0	0.007291	0	0		G	45813321	G	G	45813321	3	3	76	1	0	0	0	0	1	0	0	0	15793	217	8	3	1067	3	TESK2	1	45813321	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1896386	45813321	203437300	26	48876											
LRRC41	10489	broad.mit.edu	37	chr1	46744617	46744617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcaggtagcccggagccGccggatggcttccctggctg	5	7	16	13	3	0	0	0	0	0	0	1	2	1	2	4	6	2	4	4	6	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:46744617G>A	uc001cpn.2	-	10	2403	c.2359C>T	c.(2359-2361)CGG>TGG	p.R787W		NM_006369	NP_006360	Q15345	LRC41_HUMAN	MUF1 protein	787										ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(166;0.155)					GCCCGGAGCCGCCGGATGGCT	0.617													14	72					0	0	0.00499	0	0		A	46744617	A	A	46744617	3	1	76	1	0	0	0	0	1	0	0	0	9017	1086	38	1	83	1	LRRC41	1	46744617	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	931296	46744617	202506004	27	48877											
SLC5A9	200010	broad.mit.edu	37	chr1	48688549	48688549	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtcatctactttgtcttCgtcattgctgtggggatctg	4	17	12	8	1	5	0	2	0	3	0	6	1	5	1	0	3	2	1	0	3	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:48688549C>T	uc001cro.2	+	1	193	c.141C>T	c.(139-141)TTC>TTT	p.F47F	SLC5A9_uc010oms.1_RNA|SLC5A9_uc001crn.2_Silent_p.F47F|SLC5A9_uc010omt.1_Silent_p.F40F|SLC5A9_uc001crp.2_5'UTR|SLC5A9_uc010omu.1_5'UTR	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	47	Helical; (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						ACTTTGTCTTCGTCATTGCTG	0.602													5	22					0	0	0.000602	0	0		T	48688549	T	T	48688549	2	4	76	1	0	0	0	0	0	0	0	1	14697	883	31	1		1	SLC5A9	1	48688549	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1943932	48688549	200562072	28	48878											
SLC5A9	200010	broad.mit.edu	37	chr1	48701407	48701407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtctctccccaggtctgcGggggctgatgattgccgtga	4	11	14	12	3	2	3	0	3	2	0	5	3	3	3	3	3	2	1	3	3	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:48701407G>A	uc001cro.2	+	10	1200	c.1148G>A	c.(1147-1149)CGG>CAG	p.R383Q	SLC5A9_uc010oms.1_RNA|SLC5A9_uc001crn.2_Missense_Mutation_p.R408Q|SLC5A9_uc010omt.1_Missense_Mutation_p.R397Q|SLC5A9_uc001crp.2_Missense_Mutation_p.R50Q|SLC5A9_uc010omu.1_Missense_Mutation_p.R50Q	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	383	Extracellular (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						CCAGGTCTGCGGGGGCTGATG	0.582													9	64					0	0	0.006214	0	0		A	48701407	A	A	48701407	3	1	76	1	0	0	0	0	1	0	0	0	14697	1116	39	1	1265	1	SLC5A9	1	48701407	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	12858	48701407	200549214	29	48879											
ZCCHC11	23318	broad.mit.edu	37	chr1	52927267	52927267	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggcactttggcagtagttAtaggcaaaatgtttcttaaa	13	14	9	5	0	1	0	0	0	1	0	1	0	1	0	0	3	0	6	0	3	8	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:52927267A>G	uc001ctx.2	-	18	3383	c.3149T>C	c.(3148-3150)ATA>ACA	p.I1050T	ZCCHC11_uc001cty.2_Missense_Mutation_p.I1050T|ZCCHC11_uc001ctz.2_Missense_Mutation_p.I1050T|ZCCHC11_uc009vze.1_Missense_Mutation_p.I1050T|ZCCHC11_uc009vzf.1_Missense_Mutation_p.I809T|ZCCHC11_uc001cua.1_5'UTR	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	1050					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						GGCAGTAGTTATAGGCAAAAT	0.269													9	34					0	0	0.006214	0	0		G	52927267	G	G	52927267	3	3	76	1	0	0	0	0	1	0	0	0	17605	449	16	3	1840	3	ZCCHC11	1	52927267	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	4225860	52927267	196323354	30	48880											
USP24	23358	broad.mit.edu	37	chr1	55559693	55559693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttggtaagaatagacagccGgtcattgttcggcctatggg	9	11	13	8	2	1	2	1	0	0	2	2	2	1	2	2	4	1	2	2	4	4	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:55559693G>A	uc001cyg.3	-	49	5791	c.5791C>T	c.(5791-5793)CGG>TGG	p.R1931W		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	2091					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						ATAGACAGCCGGTCATTGTTC	0.438													8	18					0	0	0.00308	0	0		A	55559693	A	A	55559693	3	1	76	1	0	0	0	0	1	0	0	0	17081	1115	39	1	1659	1	USP24	1	55559693	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2632426	55559693	193690928	31	48881											
DNAJC6	9829	broad.mit.edu	37	chr1	65852530	65852530	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agatggaaaaatcttcattcCcttgaacatcactgtgcaag	14	11	7	9	0	3	2	2	1	1	1	4	3	4	3	1	1	2	1	1	1	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:65852530C>A	uc001dcd.1	+	8	1024	c.860C>A	c.(859-861)CCC>CAC	p.P287H	DNAJC6_uc001dcc.1_Missense_Mutation_p.P318H|DNAJC6_uc010opc.1_Missense_Mutation_p.P274H|DNAJC6_uc001dce.1_Missense_Mutation_p.P344H	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	287	C2 tensin-type.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						ATCTTCATTCCCTTGAACATC	0.423													11	45					5.50884e-06	5.8278e-06	0.001368	1	0		A	65852530	A	A	65852530	3	1	76	1	0	0	0	0	1	0	0	0	4659	623	22	5	890	5	DNAJC6	1	65852530	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	10292837	65852530	183398091	32	48882											
MIER1	57708	broad.mit.edu	37	chr1	67411943	67411943	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaaatgatggaaggagaaAcaaacttcagctctgaaata	20	7	9	5	0	2	4	1	2	1	2	2	6	2	5	0	2	3	1	0	2	7	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:67411943A>G	uc001dde.2	+	4	438	c.304A>G	c.(304-306)ACA>GCA	p.T102A	MIER1_uc001dda.3_3'UTR|MIER1_uc010opf.1_Missense_Mutation_p.T66A|MIER1_uc009way.2_Missense_Mutation_p.T66A|MIER1_uc001ddc.2_Missense_Mutation_p.T102A|MIER1_uc001ddh.2_Intron|MIER1_uc001ddf.2_Missense_Mutation_p.T66A|MIER1_uc001ddg.2_Missense_Mutation_p.T22A|MIER1_uc010opg.1_Missense_Mutation_p.T66A|MIER1_uc001ddj.1_Missense_Mutation_p.T49A|MIER1_uc001ddi.2_Missense_Mutation_p.T49A	NM_001077700	NP_001071168	Q8N108	MIER1_HUMAN	mesoderm induction early response 1 isoform b	73	Glu-rich.				positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)	1						GGAAGGAGAAACAAACTTCAG	0.373													7	68					0	0	0.00308	0	0		G	67411943	G	G	67411943	3	3	76	1	0	0	0	0	1	0	0	0	9598	43	2	3	395	3	MIER1	1	67411943	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1559413	67411943	181838678	33	48883											
LRRC7	57554	broad.mit.edu	37	chr1	70257797	70257797	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcaaatctgccaaccacTattgctagtttagttaatct	11	16	4	10	0	3	0	1	0	2	0	3	0	3	0	2	0	3	3	2	0	6	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:70257797T>C	uc001dep.2	+	2	291	c.261T>C	c.(259-261)ACT>ACC	p.T87T	LRRC7_uc001deo.1_Silent_p.T125T|LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	87	LRR 3.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TGCCAACCACTATTGCTAGTT	0.299													6	46					0	0	0.001168	0	0		C	70257797	C	C	70257797	2	2	76	1	0	0	0	0	0	0	0	1	9038	1509	53	3		3	LRRC7	1	70257797	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2845854	70257797	178992824	34	48884											
CLCA4	22802	broad.mit.edu	37	chr1	87041015	87041015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atttctgttgaaacttttagGtgggcacttgggcatacaat	10	15	10	6	0	1	1	0	1	1	0	1	1	1	1	0	3	2	3	0	3	4	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:87041015G>A	uc009wcs.2	+	11	1728	c.1684G>A	c.(1684-1686)GTG>ATG	p.V562M	CLCA4_uc009wct.2_Missense_Mutation_p.V325M|CLCA4_uc009wcu.2_Missense_Mutation_p.V382M	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	562						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		AAACTTTTAGGTGGGCACTTG	0.348													11	48					0	0	0.000978	0	0		A	87041015	A	A	87041015	3	1	76	1	0	0	0	0	1	0	0	0	3462	1275	44	4	1726	4	CLCA4	1	87041015	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	16783218	87041015	162209606	35	48885											
GBP6	163351	broad.mit.edu	37	chr1	89846020	89846020	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttccaaaacggaagtgttTcgtctttgaccggccaacaa	11	11	8	11	3	1	1	0	1	1	0	3	2	2	2	3	2	2	1	3	2	5	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:89846020T>C	uc001dnf.2	+	6	975	c.701T>C	c.(700-702)TTC>TCC	p.F234S	GBP6_uc010ost.1_Missense_Mutation_p.F104S	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	234							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		CGGAAGTGTTTCGTCTTTGAC	0.413													16	37					0	0	0.003163	0	0		C	89846020	C	C	89846020	3	2	76	1	0	0	0	0	1	0	0	0	6293	1783	62	3	719	3	GBP6	1	89846020	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2805005	89846020	159404601	36	48886											
ZNF644	84146	broad.mit.edu	37	chr1	91405341	91405341	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acactcttcacagcagtagtAccttttatctttttcatggg	9	16	6	10	0	4	0	2	0	2	0	4	0	4	0	1	1	2	3	1	1	3	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:91405341A>G	uc001dnw.2	-	3	1712	c.1570T>C	c.(1570-1572)TAC>CAC	p.Y524H	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.Y524H	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	524					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		CAGCAGTAGTACCTTTTATCT	0.428													18	77					0	0	0.006122	0	0		G	91405341	G	G	91405341	3	3	76	1	0	0	0	0	1	0	0	0	18085	391	14	3	2429	3	ZNF644	1	91405341	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1559321	91405341	157845280	37	48887											
ABCA4	24	broad.mit.edu	37	chr1	94480230	94480230	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggatgctgggtacatcaTgggaatgaccgcccatctgt	10	9	13	9	1	2	1	1	1	1	0	2	4	2	3	2	3	2	2	2	3	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:94480230T>C	uc001dqh.2	-	38	5433	c.5329A>G	c.(5329-5331)ATG>GTG	p.M1777V	ABCA4_uc009wdp.1_Missense_Mutation_p.M45V	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1777	Helical; (Potential).				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		GGGTACATCATGGGAATGACC	0.468													26	137					0	0	0.003954	0	0		C	94480230	C	C	94480230	3	2	76	1	0	0	0	0	1	0	0	0	34	1464	51	3	1544	3	ABCA4	1	94480230	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3074889	94480230	154770391	38	48888											
NTNG1	22854	broad.mit.edu	37	chr1	108023366	108023366	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgaggaggctggcagctgCggctccgactctggccaggg	5	6	18	12	3	1	0	0	0	1	0	2	3	2	1	2	6	3	4	2	6	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:108023366C>A	uc001dvh.3	+	8	2242	c.1524C>A	c.(1522-1524)TGC>TGA	p.C508*	NTNG1_uc001dvf.3_Nonsense_Mutation_p.C449*|NTNG1_uc010out.1_Nonsense_Mutation_p.C474*|NTNG1_uc001dvc.3_Nonsense_Mutation_p.C407*|NTNG1_uc001dvi.2_Missense_Mutation_p.A76E|NTNG1_uc001dve.2_RNA|NTNG1_uc009wek.2_RNA|NTNG1_uc001dvg.2_RNA|NTNG1_uc009wem.2_Silent_p.R71R	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	508					axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		CTGGCAGCTGCGGCTCCGACT	0.701													7	31					1.06961e-07	1.15651e-07	0.00308	1	0		A	108023366	A	A	108023366	4	1	76	1	0	0	0	0	0	1	0	0	10723	776	27	5	1684	5	NTNG1	1	108023366	Nonsense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	13543136	108023366	141227255	39	48889											
CLCC1	23155	broad.mit.edu	37	chr1	109479918	109479918	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctgctccaccatcaggTctataatcaatttcctcctg	9	13	4	15	0	4	0	3	0	1	0	7	0	7	0	5	1	1	1	5	1	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:109479918T>C	uc001dwe.1	-	10	1256	c.1164A>G	c.(1162-1164)AGA>AGG	p.R388R	AKNAD1_uc010ovb.1_Intron|CLCC1_uc001dwf.1_Silent_p.R388R|CLCC1_uc001dwg.1_Silent_p.R338R|CLCC1_uc009wes.1_Silent_p.R267R|CLCC1_uc009wet.1_Silent_p.R203R	NM_001048210	NP_001041675	Q96S66	CLCC1_HUMAN	Mid-1-related chloride channel 1 isoform 1	388						endoplasmic reticulum|Golgi apparatus|integral to membrane|nucleus				liver(1)	1		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.231)		CACCATCAGGTCTATAATCAA	0.522													9	58					0	0	0.004482	0	0		C	109479918	C	C	109479918	2	2	76	1	0	0	0	0	0	0	0	1	3463	1664	58	3		3	CLCC1	1	109479918	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	1456552	109479918	139770703	40	48890											
SORT1	6272	broad.mit.edu	37	chr1	109888405	109888405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagaggcaaaaaggaaacGtcccccaagaccaaatgagt	18	3	9	11	1	0	3	0	1	0	2	1	4	1	4	3	2	1	1	3	2	5	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:109888405G>A	uc001dxm.1	-	8	980	c.931C>T	c.(931-933)CGT>TGT	p.R311C	SORT1_uc010ovi.1_Missense_Mutation_p.R174C|SORT1_uc009wfb.2_Missense_Mutation_p.R175C	NM_002959	NP_002950	Q99523	SORT_HUMAN	sortilin 1 preproprotein	311	Extracellular (Potential).				endocytosis|endosome to lysosome transport|endosome transport via multivesicular body sorting pathway|glucose import|Golgi to endosome transport|induction of apoptosis by extracellular signals|myotube differentiation|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|neuropeptide signaling pathway|ossification|plasma membrane to endosome transport|regulation of gene expression|response to insulin stimulus|vesicle organization	cell surface|coated pit|early endosome|endoplasmic reticulum membrane|endosome membrane|Golgi cisterna membrane|integral to membrane|lysosomal membrane|microsome|nuclear membrane|perinuclear region of cytoplasm|plasma membrane	enzyme binding|nerve growth factor binding|nerve growth factor receptor activity|neurotensin receptor activity, non-G-protein coupled			ovary(1)	1		all_epithelial(167;4.69e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0529)|Colorectal(144;0.142)|Epithelial(280;0.145)|Kidney(133;0.169)|all cancers(265;0.184)		AAAAGGAAACGTCCCCCAAGA	0.428													25	64					0	0	0.00333	0	0		A	109888405	A	A	109888405	3	1	76	1	0	0	0	0	1	0	0	0	14960	1145	40	1	1616	1	SORT1	1	109888405	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	408487	109888405	139362216	41	48891											
ATXN7L2	127002	broad.mit.edu	37	chr1	110032674	110032674	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctccagcgaagagagtgAggaggaggggacatctgacg	11	4	18	8	2	1	3	0	2	1	1	2	8	2	6	2	5	1	0	2	5	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:110032674A>G	uc001dxr.2	+	8	1175	c.1160A>G	c.(1159-1161)GAG>GGG	p.E387G	ATXN7L2_uc001dxs.2_Missense_Mutation_p.E14G|ATXN7L2_uc001dxt.2_5'Flank	NM_153340	NP_699171	Q5T6C5	AT7L2_HUMAN	ataxin 7-like 2	387										ovary(2)	2		all_epithelial(167;0.00197)|all_lung(203;0.00291)|Lung NSC(277;0.00453)		Colorectal(144;0.0129)|Lung(183;0.0426)|Epithelial(280;0.0675)|READ - Rectum adenocarcinoma(129;0.0693)|all cancers(265;0.071)|LUSC - Lung squamous cell carcinoma(189;0.228)		GAAGAGAGTGAGGAGGAGGGG	0.647													22	126					0	0	0.002299	0	0		G	110032674	G	G	110032674	3	3	76	1	0	0	0	0	1	0	0	0	1218	304	11	3	1190	3	ATXN7L2	1	110032674	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	144269	110032674	139217947	42	48892											
GSTM4	2948	broad.mit.edu	37	chr1	110200420	110200420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agacagaagaggagaagattCgtgtggacattttggagaac	15	8	14	4	1	0	6	0	0	0	6	1	9	0	7	0	3	1	0	0	3	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:110200420C>T	uc001dyf.2	+	5	600	c.286C>T	c.(286-288)CGT>TGT	p.R96C	GSTM4_uc001dyg.2_5'UTR|GSTM4_uc009wfj.2_Intron|GSTM4_uc001dyh.2_Missense_Mutation_p.R96C|GSTM2_uc001dyi.2_Intron	NM_000850	NP_000841	Q03013	GSTM4_HUMAN	glutathione S-transferase mu 4 isoform 1	96	GST C-terminal.				xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity				0		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		all cancers(265;0.0123)|Colorectal(144;0.0129)|Epithelial(280;0.0147)|Lung(183;0.0422)|COAD - Colon adenocarcinoma(174;0.0471)|LUSC - Lung squamous cell carcinoma(189;0.227)	Glutathione(DB00143)	GGAGAAGATTCGTGTGGACAT	0.562													14	84					0	0	0.00245	0	0		T	110200420	T	T	110200420	3	4	76	1	0	0	0	0	1	0	0	0	6856	884	31	1	304	1	GSTM4	1	110200420	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	167746	110200420	139050201	43	48893											
UBL4B	164153	broad.mit.edu	37	chr1	110655253	110655253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagagactggtgtccaggCggctgaaggtgcctgaggag	9	7	18	7	1	0	4	0	3	0	1	1	6	1	5	2	5	1	1	2	5	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:110655253C>T	uc001dzc.2	+	1	192	c.97C>T	c.(97-99)CGG>TGG	p.R33W		NM_203412	NP_981957	Q8N7F7	UBL4B_HUMAN	ubiquitin-like 4B	33	Ubiquitin-like.					cytoplasm				ovary(1)	1		all_cancers(81;1.14e-05)|all_epithelial(167;3.23e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0236)|all cancers(265;0.0823)|Epithelial(280;0.0917)|Colorectal(144;0.109)|LUSC - Lung squamous cell carcinoma(189;0.134)		GGTGTCCAGGCGGCTGAAGGT	0.592													16	89					0	0	0.004007	0	0		T	110655253	T	T	110655253	3	4	76	1	0	0	0	0	1	0	0	0	16914	759	27	1	99	1	UBL4B	1	110655253	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	454833	110655253	138595368	44	48894											
SYT6	148281	broad.mit.edu	37	chr1	114641766	114641766	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacttgatccatgttttcCgggggaatgtcaaagatgat	10	13	11	7	1	1	4	1	3	0	1	3	5	3	5	2	2	0	1	2	2	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:114641766C>T	uc001eev.2	-	5	1309	c.1059G>A	c.(1057-1059)CCG>CCA	p.P353P	SYT6_uc001eeu.2_5'UTR	NM_205848	NP_995320	Q5T7P8	SYT6_HUMAN	synaptotagmin VI	438	Cytoplasmic (Potential).|C2 2.				acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCATGTTTTCCGGGGGAATGT	0.483													24	114					0	0	0.003954	0	0		T	114641766	T	T	114641766	2	4	76	1	0	0	0	0	0	0	0	1	15503	639	23	1		1	SYT6	1	114641766	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3986513	114641766	134608855	45	48895											
SYCP1	6847	broad.mit.edu	37	chr1	115418728	115418728	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaacttcgtgtgcaagcTgagaattccagactggaaat	13	9	12	7	1	0	2	0	1	0	2	2	6	1	4	1	2	3	2	1	2	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:115418728T>G	uc001efr.2	+	10	905	c.696T>G	c.(694-696)GCT>GCG	p.A232A	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Silent_p.A232A|SYCP1_uc009wgw.2_Silent_p.A232A	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	232	Potential.				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTGTGCAAGCTGAGAATTCCA	0.274													4	29					0	0	0.009096	0	0		G	115418728	G	G	115418728	2	3	76	1	0	0	0	0	0	0	0	1	15456	1567	55	5		5	SYCP1	1	115418728	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	776962	115418728	133831893	46	48896											
NOTCH2	4853	broad.mit.edu	37	chr1	120465332	120465332	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagagctgctgctgcatcCgtgttcttgaagcagtggtc	7	11	14	9	1	1	2	0	1	1	1	3	3	2	2	1	2	5	6	1	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:120465332C>T	uc001eik.2	-	27	5185	c.4929G>A	c.(4927-4929)ACG>ACA	p.T1643T		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1643	Negative regulatory region (NRR).|Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTGCTGCATCCGTGTTCTTGA	0.542			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				29	129					0	0	0.00632	0	0		T	120465332	T	T	120465332	2	4	76	1	0	0	0	0	0	0	0	1	10567	639	23	1		1	NOTCH2	1	120465332	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	5046604	120465332	128785289	47	48897											
PDE4DIP	9659	broad.mit.edu	37	chr1	144859831	144859831	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttaatggaggaggggctgaGgctggctttgccagcaccgc	7	8	17	9	1	0	1	0	1	0	0	0	3	0	3	2	6	2	5	2	6	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:144859831G>T	uc001elw.3	-	38	6544	c.6253C>A	c.(6253-6255)CTC>ATC	p.L2085I	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.L1979I|PDE4DIP_uc001elv.3_Missense_Mutation_p.L1092I	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	2085					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GAGGGGCTGAGGCTGGCTTTG	0.572			T	PDGFRB	MPD								11	119					4.68919e-08	5.09058e-08	0.008291	1	0		T	144859831	T	T	144859831	3	4	76	1	0	0	0	0	1	0	0	0	11662	1000	35	5	815	5	PDE4DIP	1	144859831	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	24394499	144859831	104390790	48	48898											
PDE4DIP	9659	broad.mit.edu	37	chr1	144917533	144917533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattggaggagaggacatcgCgcagtctctctaagtcatga	11	9	12	9	2	3	2	1	1	2	1	5	5	3	4	0	3	0	1	0	3	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:144917533C>T	uc001elw.3	-	12	1862	c.1571G>A	c.(1570-1572)CGC>CAC	p.R524H	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R590H|PDE4DIP_uc001emc.1_Missense_Mutation_p.R524H|PDE4DIP_uc001emd.1_Missense_Mutation_p.R524H|PDE4DIP_uc001emb.1_Missense_Mutation_p.R687H|PDE4DIP_uc001eme.1_Missense_Mutation_p.R53H|PDE4DIP_uc001emf.1_Missense_Mutation_p.R311H	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	524	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GAGGACATCGCGCAGTCTCTC	0.458			T	PDGFRB	MPD								34	346					0	0	0.002836	0	0		T	144917533	T	T	144917533	3	4	76	1	0	0	0	0	1	0	0	0	11662	768	27	1	5611	1	PDE4DIP	1	144917533	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	57702	144917533	104333088	49	48899											
ANKRD35	148741	broad.mit.edu	37	chr1	145562653	145562653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcatccccccaagtggccGctctggagcaagacctgggg	8	5	13	15	1	1	1	0	0	1	1	2	2	2	2	5	4	2	3	5	4	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:145562653G>A	uc001eob.1	+	10	2449	c.2341G>A	c.(2341-2343)GCT>ACT	p.A781T	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Missense_Mutation_p.A624T	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	781	Potential.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CCAAGTGGCCGCTCTGGAGCA	0.627													4	19					0	0	0.000602	0	0		A	145562653	A	A	145562653	3	1	76	1	0	0	0	0	1	0	0	0	664	1087	38	1	2379	1	ANKRD35	1	145562653	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	645120	145562653	103687968	50	48900											
LYSMD1	388695	broad.mit.edu	37	chr1	151134223	151134223	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagactcacccattttccccTtttttcagcttctgagcagc	8	14	5	14	0	3	2	2	1	1	1	4	2	4	2	3	0	3	2	3	0	1	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:151134223T>C	uc001ewy.2	-	2	1170	c.534A>G	c.(532-534)AAA>AAG	p.K178K	LYSMD1_uc010pcr.1_Silent_p.K130K	NM_212551	NP_997716	Q96S90	LYSM1_HUMAN	LysM, putative peptidoglycan-binding, domain	178					cell wall macromolecule catabolic process						0	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CATTTTCCCCTTTTTTCAGCT	0.473													30	129					0	0	0.002096	0	0		C	151134223	C	C	151134223	2	2	76	1	0	0	0	0	0	0	0	1	9142	1606	56	3		3	LYSMD1	1	151134223	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	5571570	151134223	98116398	51	48901											
HRNR	388697	broad.mit.edu	37	chr1	152193102	152193102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagactcataatggccacGgctgtaagagtaacttgagc	12	8	11	10	1	1	3	1	1	0	2	1	3	1	3	2	2	2	3	2	2	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:152193102G>A	uc001ezt.1	-	3	1079	c.1003C>T	c.(1003-1005)CGT>TGT	p.R335C		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	335	3.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TAATGGCCACGGCTGTAAGAG	0.582													36	131					0	0	0.003755	0	0		A	152193102	A	A	152193102	3	1	76	1	0	0	0	0	1	0	0	0	7375	1116	39	1	7553	1	HRNR	1	152193102	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1058879	152193102	97057519	52	48902											
LCE3A	353142	broad.mit.edu	37	chr1	152595541	152595541	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttgcagggcacttgggCggaggctggcactgctgctg	4	10	16	11	1	1	0	0	0	1	0	1	1	1	1	0	5	3	6	0	5	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:152595541C>T	uc010pdt.1	-	1	39	c.39G>A	c.(37-39)CCG>CCA	p.P13P		NM_178431	NP_848518	Q5TA76	LCE3A_HUMAN	late cornified envelope 3A	13					keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGCACTTGGGCGGAGGCTGGC	0.607													21	108					0	0	0.001882	0	0		T	152595541	T	T	152595541	2	4	76	1	0	0	0	0	0	0	0	1	8685	755	27	1		1	LCE3A	1	152595541	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	402439	152595541	96655080	53	48903											
TDRD10	126668	broad.mit.edu	37	chr1	154516454	154516454	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcagagggtccttcctggtGctgctcctgagggaatgctt	5	11	14	11	1	0	2	0	1	0	1	3	3	3	3	3	3	3	4	3	3	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:154516454G>A	uc009wow.2	+	9	1357	c.519G>A	c.(517-519)GTG>GTA	p.V173V	TDRD10_uc001ffd.2_Silent_p.V173V|TDRD10_uc001ffe.2_Silent_p.V94V	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	173							nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			CCTTCCTGGTGCTGCTCCTGA	0.612													23	139					0	0	0.00333	0	0		A	154516454	A	A	154516454	2	1	76	1	0	0	0	0	0	0	0	1	15756	1306	46	2		2	TDRD10	1	154516454	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1920913	154516454	94734167	54	48904											
PBXIP1	57326	broad.mit.edu	37	chr1	154920759	154920759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggtgggccggcctcccGgccccgccgtctccgcagac	3	5	14	19	5	1	2	0	1	1	1	3	2	2	2	7	4	0	1	7	4	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:154920759G>A	uc001ffr.2	-	6	552	c.493C>T	c.(493-495)CGG>TGG	p.R165W	PBXIP1_uc001ffs.2_Missense_Mutation_p.R136W|PBXIP1_uc010pep.1_Missense_Mutation_p.R10W	NM_020524	NP_065385	Q96AQ6	PBIP1_HUMAN	pre-B-cell leukemia homeobox interacting protein	165	Poly-Arg.				cell differentiation|multicellular organismal development|negative regulation of transcription, DNA-dependent	cytosol|microtubule|nucleus	protein binding|transcription corepressor activity	p.R165W(1)		large_intestine(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CCGGCCTCCCGGCCCCGCCGT	0.682													8	19					0	0	0.00308	0	0		A	154920759	A	A	154920759	3	1	76	1	0	0	0	0	1	0	0	0	11515	1115	39	1	1726	1	PBXIP1	1	154920759	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	404305	154920759	94329862	55	48905											
SHC1	6464	broad.mit.edu	37	chr1	154938496	154938496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaccacccactgcttgcCgggccttgtctaggttctgg	5	10	11	15	1	2	0	0	0	2	0	2	0	2	0	4	3	3	3	4	3	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:154938496C>T	uc001ffv.2	-	10	1531	c.1310G>A	c.(1309-1311)CGG>CAG	p.R437Q	SHC1_uc001ffu.2_5'Flank|SHC1_uc001ffz.1_Missense_Mutation_p.R208Q|SHC1_uc001ffw.2_Missense_Mutation_p.R438Q|SHC1_uc001ffx.2_Missense_Mutation_p.R328Q|SHC1_uc001ffy.2_Missense_Mutation_p.R327Q	NM_183001	NP_892113	P29353	SHC1_HUMAN	SHC-transforming protein 1 isoform 1	437	Pro-rich.|CH1.				activation of MAPK activity|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|positive regulation of DNA replication|Ras protein signal transduction|regulation of epidermal growth factor receptor activity|regulation of growth	cytosol|mitochondrial matrix|Shc-EGFR complex	epidermal growth factor receptor binding|insulin receptor binding|insulin-like growth factor receptor binding|phospholipid binding|protein binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(1)|skin(1)	2	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CACTGCTTGCCGGGCCTTGTC	0.577													22	97					0	0	0.010504	0	0		T	154938496	T	T	154938496	3	4	76	1	0	0	0	0	1	0	0	0	14295	652	23	1	453	1	SHC1	1	154938496	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	17737	154938496	94312125	56	48906											
ZBTB7B	51043	broad.mit.edu	37	chr1	154987334	154987334	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagcttttcactgagggCggtggcggagctgtcatggg	8	9	17	7	2	2	2	2	1	0	1	2	3	2	3	0	5	2	2	0	5	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:154987334C>T	uc001fgk.3	+	3	356	c.198C>T	c.(196-198)GGC>GGT	p.G66G	ZBTB7B_uc009wpa.2_Silent_p.G66G|ZBTB7B_uc001fgj.3_Silent_p.G100G|ZBTB7B_uc010peq.1_Silent_p.G100G|ZBTB7B_uc001fgl.3_Silent_p.G66G	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	66	BTB.				cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TCACTGAGGGCGGTGGCGGAG	0.632													18	97					0	0	0.006122	0	0		T	154987334	T	T	154987334	2	4	76	1	0	0	0	0	0	0	0	1	17579	755	27	1		1	ZBTB7B	1	154987334	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	48838	154987334	94263287	57	48907											
DCST1	149095	broad.mit.edu	37	chr1	155019720	155019720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggagactccatgctagcccGgcttcttcgaaaaaccattg	10	9	10	12	2	1	1	0	0	1	1	3	3	2	1	3	2	3	2	3	2	3	4	rs138386761		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:155019720G>A	uc001fgn.1	+	14	1640	c.1544G>A	c.(1543-1545)CGG>CAG	p.R515Q	DCST1_uc010pes.1_Missense_Mutation_p.R490Q|uc001fgo.2_Intron	NM_152494	NP_689707	Q5T197	DCST1_HUMAN	DC-STAMP domain containing 1 isoform 1	515	Extracellular (Potential).					integral to membrane	zinc ion binding			ovary(1)|skin(1)	2	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			ATGCTAGCCCGGCTTCTTCGA	0.532													22	77					0	0	0.010504	0	0		A	155019720	A	A	155019720	3	1	76	1	0	0	0	0	1	0	0	0	4305	1116	39	1	1594	1	DCST1	1	155019720	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	32386	155019720	94230901	58	48908											
ADAM15	8751	broad.mit.edu	37	chr1	155032817	155032817	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagggacccacctgccagtaCaggtatgagcatcacctccc	11	6	9	15	0	1	1	1	1	0	0	2	2	2	2	5	2	3	3	5	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:155032817C>T	uc001fgr.1	+	18	2306	c.2205C>T	c.(2203-2205)TAC>TAT	p.Y735Y	ADAM15_uc001fgq.1_Silent_p.Y420Y|ADAM15_uc010peu.1_Silent_p.Y752Y|ADAM15_uc001fgt.1_Silent_p.Y735Y|ADAM15_uc010pev.1_Silent_p.Y745Y|ADAM15_uc001fgs.1_Silent_p.Y735Y|ADAM15_uc001fgu.1_Silent_p.Y735Y|ADAM15_uc001fgw.1_Silent_p.Y735Y|ADAM15_uc001fgv.1_Silent_p.Y735Y|ADAM15_uc001fgx.1_Silent_p.Y735Y|ADAM15_uc001fgz.1_RNA|ADAM15_uc001fgy.1_RNA|ADAM15_uc001fha.1_RNA|ADAM15_uc001fhb.1_Silent_p.Y26Y	NM_207197	NP_997080	Q13444	ADA15_HUMAN	a disintegrin and metalloproteinase domain 15	735	Cytoplasmic (Potential).				angiogenesis|cell-matrix adhesion|collagen catabolic process|proteolysis	acrosomal vesicle|adherens junction|endomembrane system|flagellum|integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			central_nervous_system(3)|skin(2)|ovary(1)	6	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			CCTGCCAGTACAGGTATGAGC	0.607													9	63					0	0	0.004482	0	0		T	155032817	T	T	155032817	2	4	76	1	0	0	0	0	0	0	0	1	237	489	17	4		4	ADAM15	1	155032817	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	13097	155032817	94217804	59	48909											
MEX3A	92312	broad.mit.edu	37	chr1	156046883	156046883	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtggggcctcaaagccagAgtccactccgcactcgccga	8	5	12	16	4	1	1	1	0	0	1	4	2	3	1	5	2	1	1	5	2	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:156046883A>C	uc001fnd.3	-	2	1045	c.1045T>G	c.(1045-1047)TCT>GCT	p.S349A		NM_001093725	NP_001087194	A1L020	MEX3A_HUMAN	MEX3A protein	349						cytoplasmic mRNA processing body|nucleus	RNA binding|zinc ion binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					TCAAAGCCAGAGTCCACTCCG	0.672													15	99					0	0	0.00245	0	0		C	156046883	C	C	156046883	3	2	76	1	0	0	0	0	1	0	0	0	9527	304	11	5	521	5	MEX3A	1	156046883	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1014066	156046883	93203738	60	48910											
HAPLN2	60484	broad.mit.edu	37	chr1	156594190	156594190	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggccggtaccagttcaatTactacgaggcgaagcaggcg	10	6	15	10	4	1	0	1	0	0	0	1	2	1	0	2	5	4	3	2	5	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:156594190T>C	uc001fpn.1	+	5	894	c.487T>C	c.(487-489)TAC>CAC	p.Y163H		NM_021817	NP_068589	Q9GZV7	HPLN2_HUMAN	brain link protein-1 precursor	163	Link 1.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCAGTTCAATTACTACGAGGC	0.672													4	17					0	0	0.009096	0	0		C	156594190	C	C	156594190	3	2	76	1	0	0	0	0	1	0	0	0	6971	1754	61	3	497	3	HAPLN2	1	156594190	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	547307	156594190	92656431	61	48911											
PRCC	5546	broad.mit.edu	37	chr1	156737593	156737593	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcttacgccagcagcgaTgagagcgagccggatgaggc	9	6	16	10	4	0	2	0	2	0	1	0	6	0	3	2	2	6	3	2	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:156737593T>C	uc001fqa.2	+	1	320	c.30T>C	c.(28-30)GAT>GAC	p.D10D	PRCC_uc001fqb.2_Silent_p.D10D|HDGF_uc009wsf.2_5'Flank	NM_005973	NP_005964	Q92733	PRCC_HUMAN	papillary renal cell carcinoma	10	Mediates interaction with MAD2L2.				cell cycle|mitotic cell cycle checkpoint	nucleus	protein binding		PRCC/TFE3(25)	kidney(25)|central_nervous_system(2)	27	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CCAGCAGCGATGAGAGCGAGC	0.672			T	TFE3	papillary renal 								5	18					0	0	0.000602	0	0		C	156737593	C	C	156737593	2	2	76	1	0	0	0	0	0	0	0	1	12469	1461	51	3		3	PRCC	1	156737593	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	143403	156737593	92513028	62	48912											
CD1A	909	broad.mit.edu	37	chr1	158225130	158225130	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtagatacgcccatgaattGcagtttgaatgtgagttcag	11	12	11	7	2	1	4	1	3	0	1	1	4	1	4	1	0	2	4	1	0	4	5	rs11800924	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:158225130G>T	uc001frt.2	+	2	848	c.315G>T	c.(313-315)TTG>TTT	p.L105F		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	105	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	CCCATGAATTGCAGTTTGAAT	0.453													7	43					0.00307968	0.00314682	0.00308	1	0		T	158225130	T	T	158225130	3	4	76	1	0	0	0	0	1	0	0	0	2977	1310	46	5	321	5	CD1A	1	158225130	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1487537	158225130	91025491	63	48913											
PEA15	8682	broad.mit.edu	37	chr1	160181415	160181415	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacagctcaagtcggcctgCaaggaagacatccccagcga	13	4	11	13	2	1	1	1	0	0	1	3	4	2	2	3	2	4	2	3	2	4	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:160181415C>T	uc001fvk.2	+	2	271	c.81C>T	c.(79-81)TGC>TGT	p.C27C	uc001fvj.1_5'Flank|PEA15_uc001fvl.2_Silent_p.C48C|PEA15_uc001fvm.2_Silent_p.C27C	NM_003768	NP_003759	Q15121	PEA15_HUMAN	phosphoprotein enriched in astrocytes 15	27	DED.				anti-apoptosis|apoptosis|carbohydrate transport|negative regulation of glucose import	cytoplasm|microtubule associated complex	protein binding				0	all_cancers(52;3.11e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AGTCGGCCTGCAAGGAAGACA	0.557													7	65					0	0	0.00308	0	0		T	160181415	T	T	160181415	2	4	76	1	0	0	0	0	0	0	0	1	11730	718	25	2		2	PEA15	1	160181415	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1956285	160181415	89069206	64	48914											
C1orf226	400793	broad.mit.edu	37	chr1	162353432	162353432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcacggacctccagcctcGacaatgagggccctcaccca	10	4	10	17	2	1	1	1	1	0	0	3	3	2	2	5	3	1	1	5	3	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:162353432G>A	uc001gby.2	+	2	950	c.778G>A	c.(778-780)GAC>AAC	p.D260N	C1orf226_uc010pkt.1_Missense_Mutation_p.D303N	NM_001085375	NP_001078844	A1L170	CA226_HUMAN	hypothetical protein LOC400793 isoform 2	260										ovary(1)	1						CTCCAGCCTCGACAATGAGGG	0.587													5	14					0	0	0.000602	0	0		A	162353432	A	A	162353432	3	1	76	1	0	0	0	0	1	0	0	0	2035	1058	37	1	917	1	C1orf226	1	162353432	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2172017	162353432	86897189	65	48915											
LMX1A	4009	broad.mit.edu	37	chr1	165218652	165218652	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggcactcacctgagtcTgaggctgctgggctcaccag	7	8	12	14	0	3	2	2	2	1	0	3	2	3	2	3	3	1	4	3	3	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:165218652T>C	uc001gcy.1	-	3	710	c.489A>G	c.(487-489)TCA>TCG	p.S163S	LMX1A_uc001gcz.1_Silent_p.S163S	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	163						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					CACCTGAGTCTGAGGCTGCTG	0.607													19	66					0	0	0.010504	0	0		C	165218652	C	C	165218652	2	2	76	1	0	0	0	0	0	0	0	1	8878	1567	55	3		3	LMX1A	1	165218652	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2865220	165218652	84031969	66	48916											
POU2F1	5451	broad.mit.edu	37	chr1	167365537	167365537	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtagggtgatgttgggctCgctatggggaaactatatgg	8	12	17	4	1	0	1	0	1	0	0	1	2	0	2	0	5	1	4	0	5	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:167365537C>T	uc001gec.2	+	11	1095	c.933C>T	c.(931-933)CTC>CTT	p.L311L	POU2F1_uc010plg.1_RNA|POU2F1_uc001ged.2_Silent_p.L309L|POU2F1_uc001gee.2_Silent_p.L311L|POU2F1_uc010plh.1_Silent_p.L248L|POU2F1_uc001gef.2_Silent_p.L323L|POU2F1_uc001geg.2_Silent_p.L209L|POU2F1_uc009wvg.1_5'Flank	NM_002697	NP_002688	P14859	PO2F1_HUMAN	POU class 2 homeobox 1	311	POU-specific.				negative regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|skin(2)|breast(1)	5						ATGTTGGGCTCGCTATGGGGA	0.463													21	88					0	0	0.002299	0	0		T	167365537	T	T	167365537	2	4	76	1	0	0	0	0	0	0	0	1	12290	871	31	1		1	POU2F1	1	167365537	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2146885	167365537	81885084	67	48917											
FAM5B	57795	broad.mit.edu	37	chr1	177250045	177250045	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgcagatctgtctcaccaAgaacagcaccctggagcctg	10	8	9	14	0	2	2	1	0	2	2	3	3	2	3	3	1	4	2	3	1	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:177250045A>C	uc001glf.2	+	8	2045	c.1733A>C	c.(1732-1734)AAG>ACG	p.K578T	FAM5B_uc001glg.2_Missense_Mutation_p.K473T	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	578						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TGTCTCACCAAGAACAGCACC	0.567													4	42					0	0	0.000602	0	0		C	177250045	C	C	177250045	3	2	76	1	0	0	0	0	1	0	0	0	5607	72	3	5	1759	5	FAM5B	1	177250045	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	9884508	177250045	72000576	68	48918											
CEP350	9857	broad.mit.edu	37	chr1	179993662	179993662	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcccagtctgctgcatcGtctcgttcatctacttcttc	5	14	8	14	2	5	0	1	0	4	0	8	1	5	1	1	1	4	3	1	1	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:179993662G>A	uc001gnt.2	+	14	3878	c.3495G>A	c.(3493-3495)TCG>TCA	p.S1165S	CEP350_uc009wxl.2_Silent_p.S1164S|CEP350_uc001gnu.2_Silent_p.S998S	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1165	Ser-rich.					centrosome|nucleus|spindle				ovary(4)	4						CTGCTGCATCGTCTCGTTCAT	0.423													7	38					0	0	0.00308	0	0		A	179993662	A	A	179993662	2	1	76	1	0	0	0	0	0	0	0	1	3257	1132	40	1		1	CEP350	1	179993662	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2743617	179993662	69256959	69	48919											
CFHR2	3080	broad.mit.edu	37	chr1	196918663	196918663	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taagccattttcccaagttcCtacaggggaagttttctatt	10	15	7	9	0	1	0	0	0	1	0	3	1	3	1	3	2	2	2	3	2	5	9			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:196918663C>A	uc001gtq.1	+	2	214	c.137C>A	c.(136-138)CCT>CAT	p.P46H	CFHR2_uc001gtr.1_Intron	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	46	Sushi 1.					extracellular region				skin(2)|ovary(1)	3						TCCCAAGTTCCTACAGGGGAA	0.363													8	33					0.000157383	0.000163448	0.00308	1	0		A	196918663	A	A	196918663	3	1	76	1	0	0	0	0	1	0	0	0	3288	681	24	5	143	5	CFHR2	1	196918663	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	16925001	196918663	52331958	70	48920											
F13B	2165	broad.mit.edu	37	chr1	197030128	197030128	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagtagcacattcgtattGtactttgtccttcactttga	8	16	7	10	1	1	1	1	1	0	0	3	1	2	1	2	0	2	4	2	0	3	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:197030128G>T	uc001gtt.1	-	4	573	c.529C>A	c.(529-531)CAA>AAA	p.Q177K		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	177	Sushi 3.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CATTCGTATTGTACTTTGTCC	0.358													15	59					2.61681e-11	2.8992e-11	0.00245	1	0		T	197030128	T	T	197030128	3	4	76	1	0	0	0	0	1	0	0	0	5349	1386	48	5	1492	5	F13B	1	197030128	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	111465	197030128	52220493	71	48921											
KIF21B	23046	broad.mit.edu	37	chr1	200959409	200959409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggctctcagcctgcagccGctcccgcttcctccgcagtg	3	8	12	18	3	1	0	1	0	1	0	5	0	4	0	5	2	3	5	5	2	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:200959409G>A	uc001gvs.1	-	20	3204	c.2887C>T	c.(2887-2889)CGG>TGG	p.R963W	KIF21B_uc001gvr.1_Missense_Mutation_p.R963W|KIF21B_uc009wzl.1_Missense_Mutation_p.R963W|KIF21B_uc010ppn.1_Missense_Mutation_p.R963W	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	963	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						GCCTGCAGCCGCTCCCGCTTC	0.612													6	38					0	0	0.001984	0	0		A	200959409	A	A	200959409	3	1	76	1	0	0	0	0	1	0	0	0	8305	1086	38	1	2047	1	KIF21B	1	200959409	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3929281	200959409	48291212	72	48922											
LAD1	3898	broad.mit.edu	37	chr1	201356046	201356046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggggccccgctgttccCgactcagtctccggcgaggt	4	7	13	17	4	2	0	1	0	1	0	4	2	3	0	5	4	0	2	5	4	0	1	rs112179009		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:201356046C>T	uc001gwm.2	-	3	678	c.443G>A	c.(442-444)CGG>CAG	p.R148Q	LAD1_uc009wzu.1_Missense_Mutation_p.R170Q	NM_005558	NP_005549	O00515	LAD1_HUMAN	ladinin 1	148						basement membrane	structural molecule activity				0						CCGCTGTTCCCGACTCAGTCT	0.612													20	91					0	0	0.008871	0	0		T	201356046	T	T	201356046	3	4	76	1	0	0	0	0	1	0	0	0	8615	652	23	1	1142	1	LAD1	1	201356046	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	396637	201356046	47894575	73	48923											
NFASC	23114	broad.mit.edu	37	chr1	204943372	204943372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattctttacaaccggacgCggctggactgccctttcttt	6	14	9	12	3	2	1	0	1	2	0	2	3	2	3	2	3	3	1	2	3	2	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:204943372C>T	uc001hbj.2	+	13	1673	c.1345C>T	c.(1345-1347)CGG>TGG	p.R449W	NFASC_uc001hbh.2_Missense_Mutation_p.R449W|NFASC_uc010pqz.1_Missense_Mutation_p.R443W|NFASC_uc010pra.1_Missense_Mutation_p.R460W|NFASC_uc001hbi.2_Missense_Mutation_p.R460W|NFASC_uc009xbg.1_Missense_Mutation_p.R533W|NFASC_uc010prb.1_Missense_Mutation_p.R460W|NFASC_uc010prc.1_5'UTR|NFASC_uc001hbk.1_Missense_Mutation_p.R270W	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	449	Extracellular (Potential).|Ig-like C2-type 5.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			CAACCGGACGCGGCTGGACTG	0.562													4	30					0	0	0.000602	0	0		T	204943372	T	T	204943372	3	4	76	1	0	0	0	0	1	0	0	0	10378	759	27	1	1442	1	NFASC	1	204943372	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3587326	204943372	44307249	74	48924											
PIGR	5284	broad.mit.edu	37	chr1	207107940	207107940	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggccttgctggggccttcGtcttggctgggcagggcctg	3	10	17	11	1	1	0	0	0	1	0	2	0	1	0	3	6	1	3	3	6	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:207107940G>A	uc001hez.2	-	6	1714	c.1530C>T	c.(1528-1530)GAC>GAT	p.D510D	PIGR_uc009xbz.2_Silent_p.D510D	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	510	Ig-like V-type 5.|Extracellular (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						TGGGGCCTTCGTCTTGGCTGG	0.577													15	87					0	0	0.00499	0	0		A	207107940	A	A	207107940	2	1	76	1	0	0	0	0	0	0	0	1	11916	1136	40	1		1	PIGR	1	207107940	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2164568	207107940	42142681	75	48925											
CR1	1378	broad.mit.edu	37	chr1	207679348	207679348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatctgaactatgaatgccGccctggttattccggaagac	11	11	9	10	2	1	3	0	2	1	1	2	4	2	4	3	2	2	1	3	2	6	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:207679348G>A	uc001hfy.2	+	2	361	c.221G>A	c.(220-222)CGC>CAC	p.R74H	CR1_uc009xcl.1_Missense_Mutation_p.R74H|CR1_uc001hfx.2_Missense_Mutation_p.R74H|CR1_uc010psg.1_Missense_Mutation_p.R74H|CR1_uc009xcj.1_Missense_Mutation_p.R74H|CR1_uc009xck.1_Missense_Mutation_p.R74H	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	74	Sushi 1.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TATGAATGCCGCCCTGGTTAT	0.478													21	93					0	0	0.010504	0	0		A	207679348	A	A	207679348	3	1	76	1	0	0	0	0	1	0	0	0	3843	1087	38	1	227	1	CR1	1	207679348	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	571408	207679348	41571273	76	48926											
RPS6KC1	26750	broad.mit.edu	37	chr1	213303055	213303055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagcaaaacagaagaagaaCgggaaagtcgtagcctcttt	17	6	11	7	2	1	4	0	0	1	4	2	5	1	5	1	1	4	2	1	1	7	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:213303055C>T	uc010ptr.1	+	6	817	c.658C>T	c.(658-660)CGG>TGG	p.R220W	RPS6KC1_uc001hkd.2_Missense_Mutation_p.R208W|RPS6KC1_uc010pts.1_Missense_Mutation_p.R39W|RPS6KC1_uc010ptt.1_Missense_Mutation_p.R39W|RPS6KC1_uc010ptu.1_Missense_Mutation_p.R39W|RPS6KC1_uc010ptv.1_Translation_Start_Site|RPS6KC1_uc001hke.2_Missense_Mutation_p.R39W	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	220					cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		AGAAGAAGAACGGGAAAGTCG	0.413													8	40					0	0	0.00308	0	0		T	213303055	T	T	213303055	3	4	76	1	0	0	0	0	1	0	0	0	13683	527	19	1	680	1	RPS6KC1	1	213303055	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	5623707	213303055	35947566	77	48927											
USH2A	7399	broad.mit.edu	37	chr1	216062163	216062163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtctgggactctggtgaaaGggaacatccttttgaagtgc	10	11	13	7	0	2	2	0	2	2	0	3	4	3	4	1	3	2	0	1	3	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:216062163G>A	uc001hku.1	-	41	8215	c.7828C>T	c.(7828-7830)CTT>TTT	p.L2610F		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2610	Fibronectin type-III 12.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TCTGGTGAAAGGGAACATCCT	0.473										HNSCC(13;0.011)			13	59					0	0	0.001368	0	0		A	216062163	A	A	216062163	3	1	76	1	0	0	0	0	1	0	0	0	17062	1000	35	4	7908	4	USH2A	1	216062163	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2759108	216062163	33188458	78	48928											
TP53BP2	7159	broad.mit.edu	37	chr1	224009062	224009062	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttactgagatacacggtaAgaaacatctaaaaattaaga	19	10	7	5	1	1	3	0	1	1	3	1	4	1	3	0	1	3	2	0	1	8	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:224009062A>G	uc010pvb.1	-	2	327	c.35T>C	c.(34-36)CTT>CCT	p.L12P	TP53BP2_uc001hod.2_5'UTR	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	6					apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		ATACACGGTAAGAAACATCTA	0.408													37	184					0	0	0.005524	0	0		G	224009062	G	G	224009062	3	3	76	1	0	0	0	0	1	0	0	0	16410	72	3	3	3437	3	TP53BP2	1	224009062	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	7946899	224009062	25241559	79	48929											
CDC42BPA	8476	broad.mit.edu	37	chr1	227348245	227348245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggatttatctttatttaccGttccatcttccatcagcttc	8	18	4	11	1	3	0	1	0	2	0	6	1	5	1	3	1	2	2	3	1	3	9	rs34614709	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:227348245G>A	uc001hqr.2	-	6	1635	c.692C>T	c.(691-693)ACG>ATG	p.T231M	CDC42BPA_uc001hqs.2_Missense_Mutation_p.T231M|CDC42BPA_uc009xes.2_Missense_Mutation_p.T231M|CDC42BPA_uc010pvs.1_Missense_Mutation_p.T231M	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	231	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TTTATTTACCGTTCCATCTTC	0.318													10	43					0	0	0.000978	0	0		A	227348245	A	A	227348245	3	1	76	1	0	0	0	0	1	0	0	0	3075	1159	40	1	4591	1	CDC42BPA	1	227348245	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3339183	227348245	21902376	80	48930											
KIAA1383	54627	broad.mit.edu	37	chr1	232942219	232942219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcttctcctgaaaaaaagCgtgtaaatcccccagcacac	14	8	6	13	1	1	1	0	1	1	0	3	1	2	1	3	0	3	3	3	0	5	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:232942219C>T	uc001hvh.2	+	1	1582	c.1450C>T	c.(1450-1452)CGT>TGT	p.R484C		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	342										ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				TGAAAAAAAGCGTGTAAATCC	0.453													14	53					0	0	0.001855	0	0		T	232942219	T	T	232942219	3	4	76	1	0	0	0	0	1	0	0	0	8244	768	27	1	1452	1	KIAA1383	1	232942219	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	5593974	232942219	16308402	81	48931											
PCNXL2	80003	broad.mit.edu	37	chr1	233388424	233388424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgagtgcatgcggggcCggtgctagtatggtcttgac	6	10	17	8	2	1	2	0	2	1	0	1	2	1	2	1	5	3	4	1	5	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:233388424C>T	uc001hvl.2	-	6	2180	c.1945G>A	c.(1945-1947)GGC>AGC	p.G649S	PCNXL2_uc009xfu.2_RNA|PCNXL2_uc009xfv.1_RNA|PCNXL2_uc001hvq.1_5'UTR	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	649						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				CATGCGGGGCCGGTGCTAGTA	0.443													27	99					0	0	0.003271	0	0		T	233388424	T	T	233388424	3	4	76	1	0	0	0	0	1	0	0	0	11611	652	23	1	4584	1	PCNXL2	1	233388424	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	446205	233388424	15862197	82	48932											
RYR2	6262	broad.mit.edu	37	chr1	237608789	237608789	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcacagcccgagttatccGgagcacagtcttccttttca	9	10	8	14	3	2	0	1	0	1	0	4	2	4	1	3	1	2	3	3	1	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:237608789G>A	uc001hyl.1	+	14	1379	c.1259G>A	c.(1258-1260)CGG>CAG	p.R420Q		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	420	Cytoplasmic (By similarity).		R -> W (in CPVT1).		cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CGAGTTATCCGGAGCACAGTC	0.388													8	79					0	0	0.00308	0	0		A	237608789	A	A	237608789	3	1	76	1	0	0	0	0	1	0	0	0	13794	1116	39	1	1313	1	RYR2	1	237608789	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4220365	237608789	11641832	83	48933											
GREM2	64388	broad.mit.edu	37	chr1	240656622	240656622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctggctggaggccagcaCctccttgatctggtgctgcc	4	10	12	15	0	1	1	0	1	1	0	3	2	3	2	5	4	3	3	5	4	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:240656622C>T	uc001hys.2	-	2	434	c.154G>A	c.(154-156)GTG>ATG	p.V52M		NM_022469	NP_071914	Q9H772	GREM2_HUMAN	gremlin 2 precursor	52					BMP signaling pathway	extracellular space	cytokine activity				0		all_cancers(173;0.0196)	OV - Ovarian serous cystadenocarcinoma(106;0.0123)			GAGGCCAGCACCTCCTTGATC	0.662													10	67					0	0	0.006214	0	0		T	240656622	T	T	240656622	3	4	76	1	0	0	0	0	1	0	0	0	6778	507	18	4	356	4	GREM2	1	240656622	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3047833	240656622	8593999	84	48934											
KIF26B	55083	broad.mit.edu	37	chr1	245861420	245861420	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcaggttctcagagacGgaggcttatcccagcactat	9	10	9	13	1	2	1	2	0	1	1	5	3	4	2	2	3	1	3	2	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:245861420G>T	uc001ibf.1	+	13	6277	c.5837G>T	c.(5836-5838)CGG>CTG	p.R1946L		NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1946					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			TCTCAGAGACGGAGGCTTATC	0.453													6	26					0.00198382	0.00203092	0.001984	1	0		T	245861420	T	T	245861420	3	4	76	1	0	0	0	0	1	0	0	0	8311	1116	39	5	5887	5	KIF26B	1	245861420	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	5204798	245861420	3389201	85	48935											
C1orf150	148823	broad.mit.edu	37	chr1	247719754	247719754	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagaaaggaaacccagaTgaggaaagaaaacggtaaga	21	2	11	7	1	0	5	0	1	0	4	0	7	0	7	2	3	2	1	2	3	7	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:247719754T>C	uc001idf.2	+	2	120	c.75T>C	c.(73-75)GAT>GAC	p.D25D	C1orf150_uc009xgw.2_RNA|C1orf150_uc001ida.3_Intron|C1orf150_uc001idb.3_Intron|C1orf150_uc009xgx.2_Intron	NM_145278	NP_660321	Q5JQS6	CA150_HUMAN	hypothetical protein LOC148823	25											0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0241)			GAAACCCAGATGAGGAAAGAA	0.358													6	12					0	0	0.001168	0	0		C	247719754	C	C	247719754	2	2	76	1	0	0	0	0	0	0	0	1	2007	1461	51	3		3	C1orf150	1	247719754	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	1858334	247719754	1530867	86	48936											
OR2L13	284521	broad.mit.edu	37	chr1	248262815	248262815	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtaactcggccatgattcaCctcatccacgtggatcctcg	8	10	9	14	3	2	1	2	1	0	0	6	2	4	2	4	3	1	1	4	3	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:248262815C>T	uc001ids.2	+	3	475	c.138C>T	c.(136-138)CAC>CAT	p.H46H		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	46	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			CCATGATTCACCTCATCCACG	0.502													26	123					0	0	0.004656	0	0		T	248262815	T	T	248262815	2	4	76	1	0	0	0	0	0	0	0	1	11025	506	18	4		4	OR2L13	1	248262815	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	543061	248262815	987806	87	48937											
OR2T4	127074	broad.mit.edu	37	chr1	248525518	248525518	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcatcatttcttctgtgaAgttcctgctgtattgaatct	8	19	6	8	0	5	2	2	2	3	0	6	2	6	2	1	0	1	3	1	0	3	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr1:248525518A>C	uc001ieh.1	+	1	636	c.636A>C	c.(634-636)GAA>GAC	p.E212D		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	212	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCTTCTGTGAAGTTCCTGCTG	0.502													21	183					0	0	0.008871	0	0		C	248525518	C	C	248525518	3	2	76	1	0	0	0	0	1	0	0	0	11046	69	3	5	638	5	OR2T4	1	248525518	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	262703	248525518	725103	88	48938											
PQLC3	130814	broad.mit.edu	37	chr2	11312071	11312071	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatctatgtactttcatcagCgcggccagtaagtttgcaca	11	12	8	10	2	3	0	2	0	1	0	3	0	3	0	1	1	3	4	1	1	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:11312071C>T	uc002rbc.2	+	5	508	c.375C>T	c.(373-375)AGC>AGT	p.S125S	PQLC3_uc010yjk.1_Silent_p.S125S	NM_152391	NP_689604	Q8N755	PQLC3_HUMAN	PQ loop repeat containing 3 precursor	125						integral to membrane					0	all_hematologic(175;0.0797)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.0978)|OV - Ovarian serous cystadenocarcinoma(76;0.132)		CTTTCATCAGCGCGGCCAGTA	0.398													16	70					0	0	0.004007	0	0		T	11312071	T	T	11312071	2	4	76	1	0	0	0	0	0	0	0	1	12442	767	27	1		1	PQLC3	2	11312071	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08		11312071	231887302	89	48939											
OTOF	9381	broad.mit.edu	37	chr2	26684616	26684616	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccagatctgcagggtgagCcgcgcggggatcttgtactc	6	9	14	12	3	2	2	0	1	2	1	4	3	3	3	2	3	3	2	2	3	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:26684616C>T	uc002rhk.2	-	43	5608	c.5481G>A	c.(5479-5481)CGG>CGA	p.R1827R	OTOF_uc010yla.1_Silent_p.R557R|OTOF_uc002rhh.2_Silent_p.R1060R|OTOF_uc002rhi.2_Silent_p.R1137R|OTOF_uc002rhj.2_Silent_p.R1060R	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1827	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCAGGGTGAGCCGCGCGGGGA	0.597													25	126					0	0	0.003954	0	0		T	26684616	T	T	26684616	2	4	76	1	0	0	0	0	0	0	0	1	11322	726	26	2		2	OTOF	2	26684616	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	15372545	26684616	216514757	90	48940											
DPYSL5	56896	broad.mit.edu	37	chr2	27157457	27157457	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttccagggaaggttgtgCtggcggagaccaccactgca	8	9	13	11	1	1	1	0	0	1	1	2	3	2	2	3	4	2	3	3	4	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:27157457C>T	uc002rhu.3	+	8	960	c.802C>T	c.(802-804)CTG>TTG	p.L268L	DPYSL5_uc002rhv.3_Silent_p.L268L	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	268					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAAGGTTGTGCTGGCGGAGAC	0.448													34	147					0	0	0.003271	0	0		T	27157457	T	T	27157457	2	4	76	1	0	0	0	0	0	0	0	1	4756	796	28	2		2	DPYSL5	2	27157457	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	472841	27157457	216041916	91	48941											
C2orf16	84226	broad.mit.edu	37	chr2	27804551	27804551	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagaggagccatcgtggTccctctgagagaagacatca	11	8	11	11	1	3	4	2	1	2	3	6	6	4	5	2	2	1	0	2	2	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:27804551T>A	uc002rkz.3	+	1	5163	c.5112T>A	c.(5110-5112)GGT>GGA	p.G1704G	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1704	9.|27 X 8 AA approximative tandem repeat of P-S-E-R-S-H-H-S.|Arg-rich.									large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					GCCATCGTGGTCCCTCTGAGA	0.592													62	259					0	0	0.00361	0	0		A	27804551	A	A	27804551	2	1	76	1	0	0	0	0	0	0	0	1	2160	1654	58	5		5	C2orf16	2	27804551	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	647094	27804551	215394822	92	48942											
LTBP1	4052	broad.mit.edu	37	chr2	33567940	33567940	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacaacactgtttgtgacAgtcacgggttttgtgacaat	12	13	9	7	1	1	2	1	2	0	0	1	2	1	2	0	1	2	2	0	1	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:33567940A>C	uc002ros.2	+	25	3769	c.3769A>C	c.(3769-3771)AGT>CGT	p.S1257R	LTBP1_uc002rot.2_Missense_Mutation_p.S931R|LTBP1_uc002rou.2_Missense_Mutation_p.S930R|LTBP1_uc002rov.2_Missense_Mutation_p.S877R|LTBP1_uc010ymz.1_Intron|LTBP1_uc010yna.1_Intron|LTBP1_uc010ynb.1_Intron	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1256	EGF-like 13; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				TGTTTGTGACAGTCACGGGTT	0.443													9	56					0	0	0.004482	0	0		C	33567940	C	C	33567940	3	2	76	1	0	0	0	0	1	0	0	0	9091	188	7	5	3919	5	LTBP1	2	33567940	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	5763389	33567940	209631433	93	48943											
LTBP1	4052	broad.mit.edu	37	chr2	33588554	33588554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctactgtaagcaagggacGtactatgatcctgtgaaact	12	11	10	8	1	0	2	0	2	0	0	1	3	1	3	1	1	5	4	1	1	6	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:33588554G>A	uc002ros.2	+	29	4371	c.4371G>A	c.(4369-4371)ACG>ACA	p.T1457T	LTBP1_uc002rot.2_Silent_p.T1131T|LTBP1_uc002rou.2_Silent_p.T1130T|LTBP1_uc002rov.2_Silent_p.T1077T|LTBP1_uc010ymz.1_Silent_p.T1088T|LTBP1_uc010yna.1_Silent_p.T1035T|LTBP1_uc010ynb.1_Silent_p.T354T	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1456	EGF-like 15; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				AGCAAGGGACGTACTATGATC	0.393													16	59					0	0	0.010504	0	0		A	33588554	A	A	33588554	2	1	76	1	0	0	0	0	0	0	0	1	9091	1132	40	1		1	LTBP1	2	33588554	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	20614	33588554	209610819	94	48944											
TSPYL6	388951	broad.mit.edu	37	chr2	54482990	54482990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtcagcgaggcagaggccGcttctaggccctccgcgggt	5	8	15	13	4	2	1	1	0	1	1	3	2	3	1	3	4	1	2	3	4	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:54482990G>A	uc002rxr.2	-	1	420	c.299C>T	c.(298-300)GCG>GTG	p.A100V	ACYP2_uc002rxq.3_Intron	NM_001003937	NP_001003937	Q8N831	TSYL6_HUMAN	TSPY-like 6	100					nucleosome assembly	nucleus					0						GGCAGAGGCCGCTTCTAGGCC	0.607													23	68					0	0	0.002299	0	0		A	54482990	A	A	54482990	3	1	76	1	0	0	0	0	1	0	0	0	16689	1087	38	1	937	1	TSPYL6	2	54482990	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	20894436	54482990	188716383	95	48945											
MPHOSPH10	10199	broad.mit.edu	37	chr2	71361861	71361861	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcggaaactgaagatacAggtgttttaaatgtaaagaa	17	10	11	3	1	0	3	0	1	0	2	0	5	0	4	0	2	3	2	0	2	8	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:71361861A>G	uc002sht.1	+	4	1384	c.1032A>G	c.(1030-1032)ACA>ACG	p.T344T	MPHOSPH10_uc010feb.1_Silent_p.T344T	NM_005791	NP_005782	O00566	MPP10_HUMAN	M-phase phosphoprotein 10	344					RNA splicing, via transesterification reactions|rRNA processing	chromosome|nucleolus|small nucleolar ribonucleoprotein complex	protein binding			skin(2)|ovary(1)	3						CTGAAGATACAGGTGTTTTAA	0.294													15	59					0	0	0.00245	0	0		G	71361861	G	G	71361861	2	3	76	1	0	0	0	0	0	0	0	1	9743	175	7	3		3	MPHOSPH10	2	71361861	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	16878871	71361861	171837512	96	48946											
DYSF	8291	broad.mit.edu	37	chr2	71795404	71795404	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaagatcaagctacccaagGacagcttccgcccctcggcc	10	5	9	17	2	1	1	1	0	0	1	3	2	2	2	5	2	3	3	5	2	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:71795404G>T	uc002sie.2	+	26	3122	c.2746G>T	c.(2746-2748)GAC>TAC	p.D916Y	DYSF_uc010feg.2_Missense_Mutation_p.D947Y|DYSF_uc010feh.2_Missense_Mutation_p.D902Y|DYSF_uc002sig.3_Missense_Mutation_p.D902Y|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.D916Y|DYSF_uc010fef.2_Missense_Mutation_p.D933Y|DYSF_uc010fei.2_Missense_Mutation_p.D933Y|DYSF_uc010fek.2_Missense_Mutation_p.D934Y|DYSF_uc010fej.2_Missense_Mutation_p.D903Y|DYSF_uc010fel.2_Missense_Mutation_p.D903Y|DYSF_uc010feo.2_Missense_Mutation_p.D948Y|DYSF_uc010fem.2_Missense_Mutation_p.D917Y|DYSF_uc010fen.2_Missense_Mutation_p.D934Y|DYSF_uc002sif.2_Missense_Mutation_p.D917Y	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	916	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GCTACCCAAGGACAGCTTCCG	0.617													70	431					3.12118e-38	3.53057e-38	0.00361	1	0		T	71795404	T	T	71795404	3	4	76	1	0	0	0	0	1	0	0	0	4865	1174	41	5	3040	5	DYSF	2	71795404	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	433543	71795404	171403969	97	48947											
DYSF	8291	broad.mit.edu	37	chr2	71909668	71909668	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgcttccaggcgccccgAcacctccttcctgtggttta	4	12	8	17	3	1	0	0	0	1	0	5	1	4	0	6	2	0	2	6	2	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:71909668A>G	uc002sie.2	+	54	6441	c.6065A>G	c.(6064-6066)GAC>GGC	p.D2022G	DYSF_uc010feg.2_Missense_Mutation_p.D2053G|DYSF_uc010feh.2_Missense_Mutation_p.D2029G|DYSF_uc002sig.3_Missense_Mutation_p.D2008G|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.D2043G|DYSF_uc010fef.2_Missense_Mutation_p.D2060G|DYSF_uc010fei.2_Missense_Mutation_p.D2039G|DYSF_uc010fek.2_Missense_Mutation_p.D2040G|DYSF_uc010fej.2_Missense_Mutation_p.D2030G|DYSF_uc010fel.2_Missense_Mutation_p.D2009G|DYSF_uc010feo.2_Missense_Mutation_p.D2054G|DYSF_uc010fem.2_Missense_Mutation_p.D2044G|DYSF_uc010fen.2_Missense_Mutation_p.D2061G|DYSF_uc002sif.2_Missense_Mutation_p.D2023G|DYSF_uc010yqy.1_Missense_Mutation_p.D903G|DYSF_uc010yqz.1_Missense_Mutation_p.D783G	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	2022	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						AGGCGCCCCGACACCTCCTTC	0.498													15	128					0	0	0.006122	0	0		G	71909668	G	G	71909668	3	3	76	1	0	0	0	0	1	0	0	0	4865	275	10	3	6538	3	DYSF	2	71909668	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	114264	71909668	171289705	98	48948											
TET3	200424	broad.mit.edu	37	chr2	74273836	74273836	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acggccctggccctcgcgcgGcatggtatgaaaccacccaa	9	5	11	16	4	0	1	0	1	0	0	1	1	0	1	4	4	1	2	4	4	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:74273836G>A	uc002skb.3	+	1	387	c.387G>A	c.(385-387)CGG>CGA	p.R129R	TET3_uc010fez.1_Silent_p.R129R	NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	129							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CCCTCGCGCGGCATGGTATGA	0.627													14	90					0	0	0.00245	0	0		A	74273836	A	A	74273836	2	1	76	1	0	0	0	0	0	0	0	1	15796	1190	42	2		2	TET3	2	74273836	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2364168	74273836	168925537	99	48949											
INO80B	83444	broad.mit.edu	37	chr2	74683363	74683363	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgacaatggagacctcaaGaaggagatcaatgagcggct	15	6	13	7	1	2	5	2	2	0	3	2	8	2	5	1	3	1	1	1	3	4	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:74683363G>T	uc002slg.2	+	4	549	c.504G>T	c.(502-504)AAG>AAT	p.K168N	INO80B_uc002slf.1_Missense_Mutation_p.K155N|INO80B_uc010yrr.1_Missense_Mutation_p.K140N|WBP1_uc002slh.1_RNA|INO80B_uc002sli.1_RNA|INO80B_uc010yrs.1_Missense_Mutation_p.K186N|WBP1_uc002slj.1_5'Flank|WBP1_uc002slk.1_5'Flank|WBP1_uc002sll.1_5'Flank	NM_031288	NP_112578	Q9C086	IN80B_HUMAN	high mobility group AT-hook 1-like 4	168					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex|nucleolus	metal ion binding|protein binding			pancreas(1)	1						GAGACCTCAAGAAGGAGATCA	0.423													15	57					2.4624e-09	2.69489e-09	0.008871	1	0		T	74683363	T	T	74683363	3	4	76	1	0	0	0	0	1	0	0	0	7763	933	33	5	518	5	INO80B	2	74683363	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	409527	74683363	168516010	100	48950											
ZAP70	7535	broad.mit.edu	37	chr2	98340609	98340609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgggctcttcctgctgcGccagtgcctgcgctcgctgg	2	9	15	15	4	1	0	0	0	1	0	3	1	2	1	3	3	4	4	3	3	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:98340609G>A	uc002syd.1	+	3	317	c.110G>A	c.(109-111)CGC>CAC	p.R37H	ZAP70_uc010yvf.1_Missense_Mutation_p.R37H|ZAP70_uc002sye.1_5'Flank	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	37	SH2 1.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						TTCCTGCTGCGCCAGTGCCTG	0.687													3	15					0	0	0.009096	0	0		A	98340609	A	A	98340609	3	1	76	1	0	0	0	0	1	0	0	0	17540	1087	38	1	112	1	ZAP70	2	98340609	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	23657246	98340609	144858764	101	48951											
SLC35F5	80255	broad.mit.edu	37	chr2	114500441	114500441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatattactgaacctcacaCgagactttttgggggcttaa	11	13	9	8	1	1	3	1	2	0	1	1	4	1	3	1	2	2	1	1	2	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:114500441C>T	uc002tku.1	-	7	1002	c.578G>A	c.(577-579)CGT>CAT	p.R193H	SLC35F5_uc002tkt.2_RNA|SLC35F5_uc002tkv.2_Missense_Mutation_p.R187H|SLC35F5_uc002tkw.2_Missense_Mutation_p.R193H	NM_025181	NP_079457	Q8WV83	S35F5_HUMAN	solute carrier family 35, member F5	193					transport	integral to membrane					0						GAACCTCACACGAGACTTTTT	0.353													14	49					0	0	0.00245	0	0		T	114500441	T	T	114500441	3	4	76	1	0	0	0	0	1	0	0	0	14617	536	19	1	1029	1	SLC35F5	2	114500441	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	16159832	114500441	128698932	102	48952											
TFCP2L1	29842	broad.mit.edu	37	chr2	122000030	122000030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggtcagtcttctgtttccGatcggctcccttcggctgcg	2	13	11	15	5	3	0	1	0	2	0	7	1	5	0	3	3	1	3	3	3	0	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:122000030G>A	uc002tmx.2	-	7	766	c.673C>T	c.(673-675)CGG>TGG	p.R225W	TFCP2L1_uc010flr.2_Missense_Mutation_p.R225W	NM_014553	NP_055368	Q9NZI6	TF2L1_HUMAN	LBP-9	225					female pregnancy|steroid biosynthetic process	mitochondrion|nucleolus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			pancreas(2)|ovary(1)	3	Renal(3;0.01)					TTCTGTTTCCGATCGGCTCCC	0.557													23	138					0	0	0.002299	0	0		A	122000030	A	A	122000030	3	1	76	1	0	0	0	0	1	0	0	0	15821	1057	37	1	802	1	TFCP2L1	2	122000030	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	7499589	122000030	121199343	103	48953											
TUBA3E	112714	broad.mit.edu	37	chr2	130949655	130949655	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgctgcaccttggccaGgtctcccccggggaccactg	4	6	13	18	2	1	0	0	0	1	0	2	1	1	1	6	5	1	2	6	5	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:130949655G>A	uc002tqv.2	-	5	1203	c.1102C>T	c.(1102-1104)CTG>TTG	p.L368L		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	368					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					ACCTTGGCCAGGTCTCCCCCG	0.582													17	59					0	0	0.010504	0	0		A	130949655	A	A	130949655	2	1	76	1	0	0	0	0	0	0	0	1	16774	991	35	4		4	TUBA3E	2	130949655	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	8949625	130949655	112249718	104	48954											
CACNB4	785	broad.mit.edu	37	chr2	152695680	152695680	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatcccccaggtgatcctcGgttcctatggggtttgtaag	7	13	11	10	1	0	1	0	1	0	0	4	1	3	1	4	4	0	3	4	4	3	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:152695680G>A	uc002tya.2	-	14	1584	c.1516C>T	c.(1516-1518)CGA>TGA	p.R506*	CACNB4_uc002txy.2_Nonsense_Mutation_p.R472*|CACNB4_uc002txz.2_Nonsense_Mutation_p.R488*|CACNB4_uc010fnz.2_Nonsense_Mutation_p.R444*	NM_000726	NP_000717	O00305	CACB4_HUMAN	calcium channel, voltage-dependent, beta 4	506					axon guidance|membrane depolarization|synaptic transmission	cytosol|internal side of plasma membrane|plasma membrane|synapse|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.156)	Verapamil(DB00661)	GGTGATCCTCGGTTCCTATGG	0.453													8	21					0	0	0.00308	0	0		A	152695680	A	A	152695680	4	1	76	1	0	0	0	0	0	1	0	0	2558	1124	39	1	50	1	CACNB4	2	152695680	Nonsense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	21746025	152695680	90503693	105	48955											
BAZ2B	29994	broad.mit.edu	37	chr2	160242867	160242867	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attttgtttttttttaccttGtatcctgttattagacctgg	6	23	6	6	0	0	1	0	0	0	1	1	1	1	1	3	1	1	3	3	1	4	11			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:160242867G>A	uc002uao.2	-	22	3820	c.3468C>T	c.(3466-3468)TAC>TAT	p.Y1156Y	BAZ2B_uc002uap.2_Silent_p.Y1120Y	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	1156					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TTTTTACCTTGTATCCTGTTA	0.358													9	40					0	0	0.004482	0	0		A	160242867	A	A	160242867	2	1	76	1	0	0	0	0	0	0	0	1	1333	1372	48	4		4	BAZ2B	2	160242867	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	7547187	160242867	82956506	106	48956											
RBMS1	5937	broad.mit.edu	37	chr2	161159865	161159865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagccaacaccacgacttGtaccactggaatcacgtagt	14	7	7	13	2	1	0	1	0	0	0	1	2	1	1	3	1	3	2	3	1	5	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:161159865G>A	uc002ubo.2	-	5	980	c.536C>T	c.(535-537)ACA>ATA	p.T179I	RBMS1_uc002ubj.2_Missense_Mutation_p.T146I|RBMS1_uc002ubk.2_Missense_Mutation_p.T146I|RBMS1_uc002ubl.2_Missense_Mutation_p.T177I|RBMS1_uc002ubn.2_Missense_Mutation_p.T179I|RBMS1_uc002ubi.3_Missense_Mutation_p.T179I|RBMS1_uc002ubm.2_Missense_Mutation_p.T146I|RBMS1_uc002ubp.2_Missense_Mutation_p.T179I|RBMS1_uc010fox.2_Missense_Mutation_p.T179I	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	179	RRM 2.				DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						ACCACGACTTGTACCACTGGA	0.383													17	60					0	0	0.008871	0	0		A	161159865	A	A	161159865	3	1	76	1	0	0	0	0	1	0	0	0	13173	1377	48	4	720	4	RBMS1	2	161159865	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	916998	161159865	82039508	107	48957											
FAP	2191	broad.mit.edu	37	chr2	163074649	163074649	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttgtagcaagcatttcCtctgaaaaataagtactagg	14	14	7	6	0	1	1	0	1	1	0	2	1	2	1	1	1	3	4	1	1	8	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:163074649C>A	uc002ucd.2	-	9	817	c.609G>T	c.(607-609)GAG>GAT	p.E203D	FAP_uc010zct.1_Missense_Mutation_p.E178D|FAP_uc010fpd.2_Intron|FAP_uc010fpe.1_Missense_Mutation_p.E170D	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	203	Extracellular (Potential).	Substrate.			endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						CAAGCATTTCCTCTGAAAAAT	0.284													10	43					0.000442599	0.000457452	0.006214	1	0		A	163074649	A	A	163074649	3	1	76	1	0	0	0	0	1	0	0	0	5687	695	24	5	1745	5	FAP	2	163074649	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1914784	163074649	80124724	108	48958											
CSRNP3	80034	broad.mit.edu	37	chr2	166536162	166536162	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgaatggtgacagtcacAtttcagagcatcctgctgaa	12	11	9	9	0	2	4	2	3	0	1	3	4	3	4	1	1	2	2	1	1	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:166536162A>G	uc002udf.2	+	7	2033	c.1657A>G	c.(1657-1659)ATT>GTT	p.I553V	CSRNP3_uc002udg.2_Missense_Mutation_p.I553V	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	553					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						TGACAGTCACATTTCAGAGCA	0.453													24	93					0	0	0.005443	0	0		G	166536162	G	G	166536162	3	3	76	1	0	0	0	0	1	0	0	0	3968	217	8	3	1671	3	CSRNP3	2	166536162	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	3461513	166536162	76663211	109	48959											
SP3	6670	broad.mit.edu	37	chr2	174774753	174774753	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatcttgattgctggtggcGgaagtattaacagttcctat	10	15	10	6	1	1	1	0	1	1	0	2	2	2	2	1	3	2	3	1	3	5	7	rs149409403		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:174774753G>T	uc002uig.2	-	7	2426	c.2262C>A	c.(2260-2262)TCC>TCA	p.S754S	SP3_uc002uie.2_Silent_p.S686S|SP3_uc002uif.2_Silent_p.S701S|SP3_uc010zel.1_Silent_p.S751S	NM_003111	NP_003102	Q02447	SP3_HUMAN	Sp3 transcription factor isoform 1	754					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	protein binding|zinc ion binding		EWSR1/SP3(3)	soft_tissue(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.185)			TGCTGGTGGCGGAAGTATTAA	0.393													10	51					3.86212e-05	4.03818e-05	0.008291	1	0		T	174774753	T	T	174774753	2	4	76	1	0	0	0	0	0	0	0	1	14990	1103	39	5		5	SP3	2	174774753	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	8238591	174774753	68424620	110	48960											
HOXD11	3237	broad.mit.edu	37	chr2	176972292	176972292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgactacggcctggagcGcgccaagtggccgtaccgcg	6	4	15	16	8	0	0	0	0	0	0	0	2	0	1	5	3	3	1	5	3	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:176972292G>A	uc002uki.2	+	1	209	c.209G>A	c.(208-210)CGC>CAC	p.R70H	HOXD11_uc010fqx.2_Intron	NM_021192	NP_067015	P31277	HXD11_HUMAN	homeobox D11	70						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0521)|READ - Rectum adenocarcinoma(9;0.0678)		GGCCTGGAGCGCGCCAAGTGG	0.388			T	NUP98	AML								6	35					0	0	0.001168	0	0		A	176972292	A	A	176972292	3	1	76	1	0	0	0	0	1	0	0	0	7336	1087	38	1	211	1	HOXD11	2	176972292	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2197539	176972292	66227081	111	48961											
TTN	7273	broad.mit.edu	37	chr2	179425103	179425103	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctctcgcctttcaattaTatatccagatatttcactac	10	18	2	11	1	3	1	2	0	1	1	6	1	4	1	2	0	1	0	2	0	6	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:179425103T>C	uc010zfg.1	-	275	78276	c.78052A>G	c.(78052-78054)ATA>GTA	p.I26018V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I19713V|TTN_uc010zfi.1_Missense_Mutation_p.I19646V|TTN_uc010zfj.1_Missense_Mutation_p.I19521V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26945							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTTCAATTATATATCCAGAT	0.408													6	35					0	0	0.00308	0	0		C	179425103	C	C	179425103	3	2	76	1	0	0	0	0	1	0	0	0	16761	1406	49	3	22371	3	TTN	2	179425103	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2452811	179425103	63774270	112	48962											
TTN	7273	broad.mit.edu	37	chr2	179469726	179469726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacttaccatatacttcaaCgtgaacatttcggaacactg	13	12	5	11	2	2	1	2	1	0	0	3	2	2	2	1	1	5	0	1	1	6	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:179469726C>T	uc010zfg.1	-	229	46698	c.46474G>A	c.(46474-46476)GTT>ATT	p.V15492I	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V9187I|TTN_uc010zfi.1_Missense_Mutation_p.V9120I|TTN_uc010zfj.1_Missense_Mutation_p.V8995I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16419							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TATACTTCAACGTGAACATTT	0.428													20	124					0	0	0.00278	0	0		T	179469726	T	T	179469726	3	4	76	1	0	0	0	0	1	0	0	0	16761	536	19	1	53847	1	TTN	2	179469726	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	44623	179469726	63729647	113	48963											
TTN	7273	broad.mit.edu	37	chr2	179577126	179577126	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcctgcatcctctactgTgctacttggaatttccagga	7	15	8	11	0	1	0	0	0	1	0	4	2	4	2	3	2	4	2	3	2	3	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:179577126T>C	uc010zfg.1	-	92	24015	c.23791A>G	c.(23791-23793)ACA>GCA	p.T7931A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T4592A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8858							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCCTCTACTGTGCTACTTGGA	0.393													16	112					0	0	0.003163	0	0		C	179577126	C	C	179577126	3	2	76	1	0	0	0	0	1	0	0	0	16761	1696	59	3	77078	3	TTN	2	179577126	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	107400	179577126	63622247	114	48964											
MFSD6	54842	broad.mit.edu	37	chr2	191300954	191300954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgtgttaagataaacaacGatcttctaatttccaaggtc	14	14	6	7	1	2	1	0	0	2	1	4	2	3	1	1	1	2	1	1	1	6	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:191300954G>A	uc002urz.2	+	3	523	c.199G>A	c.(199-201)GAT>AAT	p.D67N		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	67					transmembrane transport	integral to membrane				ovary(2)	2						GATAAACAACGATCTTCTAAT	0.398													14	73					0	0	0.001855	0	0		A	191300954	A	A	191300954	3	1	76	1	0	0	0	0	1	0	0	0	9553	1058	37	1	201	1	MFSD6	2	191300954	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	11723828	191300954	51898419	115	48965											
COQ10B	80219	broad.mit.edu	37	chr2	198327368	198327368	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatcaaagagatctggataTtgtaaaacaagattagaaat	20	11	7	3	0	2	3	1	0	1	3	2	5	2	4	0	1	1	1	0	1	8	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:198327368T>G	uc002uuh.1	+	3	414	c.360T>G	c.(358-360)TAT>TAG	p.Y120*	COQ10B_uc010fsl.1_Nonsense_Mutation_p.Y92*	NM_025147	NP_079423	Q9H8M1	CQ10B_HUMAN	coenzyme Q10 homolog B precursor	120						mitochondrial inner membrane					0			Epithelial(96;0.231)|OV - Ovarian serous cystadenocarcinoma(117;0.246)			GATCTGGATATTGTAAAACAA	0.358													5	38					0	0	0.000602	0	0		G	198327368	G	G	198327368	4	3	76	1	0	0	0	0	0	1	0	0	3747	1500	52	5	370	5	COQ10B	2	198327368	Nonsense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	7026414	198327368	44872005	116	48966											
C2orf69	205327	broad.mit.edu	37	chr2	200789976	200789976	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaacatgtttggtgccccAgaacacaatactgactttgg	12	11	9	9	0	0	2	0	1	0	1	0	2	0	2	2	2	4	2	2	2	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:200789976A>C	uc010zhb.1	+	2	708	c.525A>C	c.(523-525)CCA>CCC	p.P175P		NM_153689	NP_710156	Q8N8R5	CB069_HUMAN	hypothetical protein LOC205327 precursor	175						extracellular region				central_nervous_system(1)	1						TTGGTGCCCCAGAACACAATA	0.323													19	60					0	0	0.001882	0	0		C	200789976	C	C	200789976	2	2	76	1	0	0	0	0	0	0	0	1	2191	175	7	5		5	C2orf69	2	200789976	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	2462608	200789976	42409397	117	48967											
CYP27A1	1593	broad.mit.edu	37	chr2	219677014	219677014	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaagccagcggaagcagcGctctatacggatgctttcaa	11	8	11	11	3	2	1	1	1	1	0	2	3	2	3	1	2	6	3	1	2	5	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:219677014G>A	uc002viz.3	+	3	950	c.516G>A	c.(514-516)GCG>GCA	p.A172A		NM_000784	NP_000775	Q02318	CP27A_HUMAN	cytochrome P450, family 27, subfamily A,	172					bile acid biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	cholestanetriol 26-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;9.48e-07)|all cancers(144;0.000171)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00981)	Cholecalciferol(DB00169)	CGGAAGCAGCGCTCTATACGG	0.572													25	136					0	0	0.00278	0	0		A	219677014	A	A	219677014	2	1	76	1	0	0	0	0	0	0	0	1	4161	1074	38	1		1	CYP27A1	2	219677014	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	18887038	219677014	23522359	118	48968											
OBSL1	23363	broad.mit.edu	37	chr2	220421238	220421238	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagtcacggtccctgcaTcccccagttggcagcctcgc	7	7	10	17	2	1	0	1	0	0	0	4	0	3	0	4	2	2	4	4	2	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:220421238T>C	uc010fwk.2	-	13	4331	c.4274A>G	c.(4273-4275)GAT>GGT	p.D1425G	OBSL1_uc002vmh.1_Missense_Mutation_p.D324G|OBSL1_uc010zli.1_Missense_Mutation_p.D232G|OBSL1_uc010fwl.1_Missense_Mutation_p.D900G	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	1425	Ig-like 12.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		GGTCCCTGCATCCCCCAGTTG	0.617													28	117					0	0	0.009535	0	0		C	220421238	C	C	220421238	3	2	76	1	0	0	0	0	1	0	0	0	10832	1435	50	3	1475	3	OBSL1	2	220421238	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	744224	220421238	22778135	119	48969											
SLC4A3	6508	broad.mit.edu	37	chr2	220502442	220502442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgaggaaccagcccaataCggcactgctctcactcatcc	10	6	7	18	2	2	0	2	0	1	0	4	2	3	1	4	2	4	2	4	2	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:220502442C>T	uc002vmp.3	+	17	2944	c.2675C>T	c.(2674-2676)ACG>ATG	p.T892M	SLC4A3_uc002vmo.3_Missense_Mutation_p.T919M|SLC4A3_uc010fwm.2_Missense_Mutation_p.T442M|SLC4A3_uc010fwn.1_Missense_Mutation_p.T401M	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	892	Membrane (anion exchange).				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAGCCCAATACGGCACTGCTC	0.657													18	70					0	0	0.006122	0	0		T	220502442	T	T	220502442	3	4	76	1	0	0	0	0	1	0	0	0	14680	536	19	1	2818	1	SLC4A3	2	220502442	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	81204	220502442	22696931	120	48970											
AGAP1	116987	broad.mit.edu	37	chr2	236949398	236949398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctccgtgcccagtccCggctgacgagccagagcgag	6	7	12	16	4	1	2	0	1	1	1	4	4	4	2	5	1	3	1	5	1	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:236949398C>T	uc002vvs.2	+	15	2399	c.1804C>T	c.(1804-1806)CGG>TGG	p.R602W	AGAP1_uc002vvt.2_Missense_Mutation_p.R549W	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	602					protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						TGCCCAGTCCCGGCTGACGAG	0.577													9	48					0	0	0.004482	0	0		T	236949398	T	T	236949398	3	4	76	1	0	0	0	0	1	0	0	0	366	643	23	1	1862	1	AGAP1	2	236949398	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	16446956	236949398	6249975	121	48971											
ANKMY1	51281	broad.mit.edu	37	chr2	241468913	241468913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcccaaaccgctggtccGctttgtatagcccctgccaa	7	9	9	16	2	0	0	0	0	0	0	1	0	1	0	6	2	3	3	6	2	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:241468913G>A	uc002vyz.1	-	4	456	c.227C>T	c.(226-228)GCG>GTG	p.A76V	ANKMY1_uc002vza.1_Intron|ANKMY1_uc010fzd.1_Missense_Mutation_p.A165V|ANKMY1_uc002vzb.1_Intron|ANKMY1_uc002vzc.1_Intron|ANKMY1_uc002vzd.1_Intron|ANKMY1_uc010fze.1_Intron|ANKMY1_uc002vze.2_Intron	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	76	MORN 3.						zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		CCGCTGGTCCGCTTTGTATAG	0.562													8	28					0	0	0.00308	0	0		A	241468913	A	A	241468913	3	1	76	1	0	0	0	0	1	0	0	0	634	1087	38	1	2654	1	ANKMY1	2	241468913	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4519515	241468913	1730460	122	48972											
KIF1A	547	broad.mit.edu	37	chr2	241706365	241706365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggagtcgctccggaagaCgcagtgctcctccttgatga	7	9	12	13	3	0	3	0	2	0	1	4	5	3	5	4	2	1	3	4	2	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:241706365C>T	uc002vzy.2	-	18	1770	c.1624G>A	c.(1624-1626)GTC>ATC	p.V542I	KIF1A_uc010fzk.2_Missense_Mutation_p.V551I|KIF1A_uc002vzz.1_Missense_Mutation_p.V551I	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	542	FHA.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		CTCCGGAAGACGCAGTGCTCC	0.637													8	21					0	0	0.008291	0	0		T	241706365	T	T	241706365	3	4	76	1	0	0	0	0	1	0	0	0	8299	536	19	1	3568	1	KIF1A	2	241706365	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	237452	241706365	1493008	123	48973											
HDLBP	3069	broad.mit.edu	37	chr2	242181952	242181952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccctgataacaacggtgtCgcttcctgaaccttccacgg	8	9	9	15	3	0	2	0	2	0	0	3	2	2	2	5	2	3	1	5	2	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr2:242181952C>T	uc002waz.2	-	17	2320	c.2092G>A	c.(2092-2094)GAC>AAC	p.D698N	HDLBP_uc002wba.2_Missense_Mutation_p.D698N|HDLBP_uc002wbb.2_Missense_Mutation_p.D650N	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	698	KH 8.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		ACAACGGTGTCGCTTCCTGAA	0.602													7	46					0	0	0.001984	0	0		T	242181952	T	T	242181952	3	4	76	1	0	0	0	0	1	0	0	0	7041	884	31	1	1762	1	HDLBP	2	242181952	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	475587	242181952	1017421	124	48974											
SUMF1	285362	broad.mit.edu	37	chr3	4452611	4452611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctgaagtccattcccatgCgttccccactatgttgtata	8	14	7	12	1	1	1	0	1	1	0	4	1	4	1	4	0	1	3	4	0	4	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:4452611C>T	uc003bpz.1	-	7	917	c.892G>A	c.(892-894)GCA>ACA	p.A298T	SUMF1_uc003bps.1_RNA|SUMF1_uc011ass.1_Missense_Mutation_p.A273T|SUMF1_uc010hby.1_Missense_Mutation_p.A298T|SUMF1_uc011ast.1_Missense_Mutation_p.A166T	NM_182760	NP_877437	Q8NBK3	SUMF1_HUMAN	sulfatase modifying factor 1 isoform 1	298		Calcium 2; via carbonyl oxygen.				endoplasmic reticulum lumen	metal ion binding|oxidoreductase activity			upper_aerodigestive_tract(1)	1		Melanoma(143;0.068)|Colorectal(144;0.233)		Epithelial(13;0.0147)|OV - Ovarian serous cystadenocarcinoma(96;0.0444)|all cancers(10;0.0549)		CATTCCCATGCGTTCCCCACT	0.423													24	90					0	0	0.004656	0	0		T	4452611	T	T	4452611	3	4	76	1	0	0	0	0	1	0	0	0	15410	768	27	1	244	1	SUMF1	3	4452611	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08		4452611	193569819	125	48975											
ITPR1	3708	broad.mit.edu	37	chr3	4683889	4683889	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctggaaatgaagggtcctGgttttatattcagccattct	9	14	11	7	0	2	1	1	1	1	0	3	2	3	2	2	4	1	2	2	4	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:4683889G>T	uc003bqa.2	+	7	827	c.479G>T	c.(478-480)TGG>TTG	p.W160L	ITPR1_uc010hbz.2_Missense_Mutation_p.W160L|ITPR1_uc010hca.1_Missense_Mutation_p.W160L|ITPR1_uc011asu.1_Missense_Mutation_p.W160L|ITPR1_uc010hcb.1_Missense_Mutation_p.W160L	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	160	MIR 1.|Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GAAGGGTCCTGGTTTTATATT	0.453													9	22					0.000442599	0.000457452	0.006214	1	0		T	4683889	T	T	4683889	3	4	76	1	0	0	0	0	1	0	0	0	7936	1357	47	5	497	5	ITPR1	3	4683889	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	231278	4683889	193338541	126	48976											
ITPR1	3708	broad.mit.edu	37	chr3	4821278	4821278	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcatggaaagcaggcaCgacagtgaaaacgcagagag	16	3	13	9	2	1	2	1	1	0	1	1	5	1	3	1	2	2	3	1	2	3	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:4821278C>T	uc003bqa.2	+	46	6540	c.6192C>T	c.(6190-6192)CAC>CAT	p.H2064H	ITPR1_uc010hca.1_Silent_p.H2049H|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Silent_p.H1034H	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	2112	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		AAAGCAGGCACGACAGTGAAA	0.537													14	99					0	0	0.001855	0	0		T	4821278	T	T	4821278	2	4	76	1	0	0	0	0	0	0	0	1	7936	535	19	1		1	ITPR1	3	4821278	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	137389	4821278	193201152	127	48977											
EDEM1	9695	broad.mit.edu	37	chr3	5255177	5255177	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacaggccgaaacctcaTgagttaaaagtcatcaactc	14	8	8	11	1	3	1	3	1	0	0	4	2	3	1	2	1	3	2	2	1	4	1	rs142859843	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:5255177T>C	uc003bqi.2	+	11	1986	c.1854T>C	c.(1852-1854)CAT>CAC	p.H618H		NM_014674	NP_055489	Q92611	EDEM1_HUMAN	ER degradation enhancer, mannosidase alpha-like	618	Lumenal (Potential).				ER-associated protein catabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	integral to endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			ovary(2)|breast(1)	3				Epithelial(13;0.0588)|OV - Ovarian serous cystadenocarcinoma(96;0.0682)		CGAAACCTCATGAGTTAAAAG	0.468													8	28					0	0	0.006214	0	0		C	5255177	C	C	5255177	2	2	76	1	0	0	0	0	0	0	0	1	4917	1461	51	3		3	EDEM1	3	5255177	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	433899	5255177	192767253	128	48978											
GRM7	2917	broad.mit.edu	37	chr3	7721878	7721878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggaagcgaagcttcaaggCggtagtcacagcagccacca	13	4	12	12	3	2	0	2	0	0	0	2	2	2	1	2	3	4	3	2	3	4	2	rs55716077		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:7721878C>T	uc003bqm.2	+	9	2868	c.2594C>T	c.(2593-2595)GCG>GTG	p.A865V	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.A865V|GRM7_uc003bql.2_Missense_Mutation_p.A865V|GRM7_uc003bqn.1_Missense_Mutation_p.A448V	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	865	Cytoplasmic (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	AGCTTCAAGGCGGTAGTCACA	0.522													14	45					0	0	0.00245	0	0		T	7721878	T	T	7721878	3	4	76	1	0	0	0	0	1	0	0	0	6818	768	27	1	2628	1	GRM7	3	7721878	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2466701	7721878	190300552	129	48979											
IRAK2	3656	broad.mit.edu	37	chr3	10276206	10276206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctccaggaagacgggcGtggagaacgtgatggcaaag	11	6	16	8	3	1	3	0	1	1	2	2	5	2	4	1	4	2	2	1	4	3	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:10276206G>A	uc003bve.1	+	11	1412	c.1336G>A	c.(1336-1338)GTG>ATG	p.V446M		NM_001570	NP_001561	O43187	IRAK2_HUMAN	interleukin-1 receptor-associated kinase 2	446	Protein kinase.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|endosome membrane|plasma membrane	ATP binding|NF-kappaB-inducing kinase activity|protein heterodimerization activity|protein homodimerization activity			lung(5)|breast(3)	8						GAAGACGGGCGTGGAGAACGT	0.612													10	116					0	0	0.008291	0	0		A	10276206	A	A	10276206	3	1	76	1	0	0	0	0	1	0	0	0	7839	1145	40	1	1378	1	IRAK2	3	10276206	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2554328	10276206	187746224	130	48980											
IQSEC1	9922	broad.mit.edu	37	chr3	12977013	12977013	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcgttgctaaaggcaggCgagtcccagctgttgcgggc	8	8	14	11	3	0	0	0	0	0	0	2	1	1	0	1	3	3	5	1	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:12977013C>T	uc003bxt.2	-	3	1554	c.1545G>A	c.(1543-1545)TCG>TCA	p.S515S	IQSEC1_uc003bxu.3_Silent_p.S393S|IQSEC1_uc011auw.1_Silent_p.S501S	NM_014869	NP_055684	Q6DN90	IQEC1_HUMAN	IQ motif and Sec7 domain 1 isoform b	515					regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1						TAAAGGCAGGCGAGTCCCAGC	0.607													13	85					0	0	0.001855	0	0		T	12977013	T	T	12977013	2	4	76	1	0	0	0	0	0	0	0	1	7833	755	27	1		1	IQSEC1	3	12977013	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2700807	12977013	185045417	131	48981											
OSBPL10	114884	broad.mit.edu	37	chr3	31705656	31705656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcttctcctccaggtgcCgcttctgctcggtggctgcg	1	13	13	14	3	2	0	0	0	2	0	5	0	3	0	3	3	4	5	3	3	0	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:31705656C>T	uc003cev.2	-	12	2546	c.2165G>A	c.(2164-2166)CGG>CAG	p.R722Q	OSBPL10_uc003ceu.1_Missense_Mutation_p.R479Q|OSBPL10_uc011axf.1_Missense_Mutation_p.R658Q	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	722					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		CTCCAGGTGCCGCTTCTGCTC	0.602													21	114					0	0	0.001882	0	0		T	31705656	T	T	31705656	3	4	76	1	0	0	0	0	1	0	0	0	11294	652	23	1	137	1	OSBPL10	3	31705656	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	18728643	31705656	166316774	132	48982											
VILL	50853	broad.mit.edu	37	chr3	38039115	38039115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgcagggtgggcagcctgCgtgccgccacgcccagcaag	6	3	16	16	4	0	0	0	0	0	0	0	0	0	0	5	2	4	3	5	2	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:38039115C>T	uc003chj.2	+	7	989	c.703C>T	c.(703-705)CGT>TGT	p.R235C	VILL_uc003chk.1_Missense_Mutation_p.R235C|VILL_uc003chl.2_Missense_Mutation_p.R235C|VILL_uc010hgu.2_Missense_Mutation_p.R65C	NM_015873	NP_056957	O15195	VILL_HUMAN	villin-like protein	235					actin filament capping|cytoskeleton organization	actin cytoskeleton	actin binding|structural constituent of cytoskeleton				0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		GGGCAGCCTGCGTGCCGCCAC	0.632													8	58					0	0	0.006214	0	0		T	38039115	T	T	38039115	3	4	76	1	0	0	0	0	1	0	0	0	17191	768	27	1	725	1	VILL	3	38039115	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	6333459	38039115	159983315	133	48983											
ACVR2B	93	broad.mit.edu	37	chr3	38524694	38524694	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcagaggctcgcttgtcCgcgggctgtgtggaggagcg	5	8	19	9	4	0	1	0	0	0	1	2	4	1	3	1	4	2	4	1	4	0	1	rs141985115	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:38524694C>T	uc003cif.2	+	11	1434	c.1410C>T	c.(1408-1410)TCC>TCT	p.S470S	ACVR2B_uc003cig.2_Silent_p.S261S	NM_001106	NP_001097	Q13705	AVR2B_HUMAN	activin A receptor, type IIB precursor	470	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|anterior/posterior pattern formation|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|regulation of transcription, DNA-dependent	cell surface|cytoplasm|integral to plasma membrane	activin receptor activity|ATP binding|growth factor binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)		CTCGCTTGTCCGCGGGCTGTG	0.597													29	122					0	0	0.009535	0	0		T	38524694	T	T	38524694	2	4	76	1	0	0	0	0	0	0	0	1	224	639	23	1		1	ACVR2B	3	38524694	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	485579	38524694	159497736	134	48984											
ZNF620	253639	broad.mit.edu	37	chr3	40557930	40557930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagaaaagccctatgaatGtaaggagtgcggcaaggcct	13	7	14	7	1	0	2	0	1	0	1	0	4	0	3	2	4	2	2	2	4	6	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:40557930G>A	uc003ckk.2	+	5	994	c.845G>A	c.(844-846)TGT>TAT	p.C282Y	ZNF620_uc003ckl.2_Missense_Mutation_p.C168Y	NM_175888	NP_787084	Q6ZNG0	ZN620_HUMAN	zinc finger protein 620	282	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		CCCTATGAATGTAAGGAGTGC	0.443													8	69					0	0	0.004482	0	0		A	40557930	A	A	40557930	3	1	76	1	0	0	0	0	1	0	0	0	18069	1377	48	4	859	4	ZNF620	3	40557930	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2033236	40557930	157464500	135	48985											
TGM4	7047	broad.mit.edu	37	chr3	44929185	44929185	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttgggtgtctccagggccGaatcctagcatcgccaaaca	9	9	10	13	2	1	0	0	0	1	0	4	1	2	0	4	2	2	1	4	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:44929185G>A	uc003coc.3	+	3	271	c.198G>A	c.(196-198)CCG>CCA	p.P66P	TGM4_uc003coa.2_Silent_p.P66P|TGM4_uc003cob.2_Intron	NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)	66					peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	CTCCAGGGCCGAATCCTAGCA	0.592													6	42					0	0	0.001984	0	0		A	44929185	A	A	44929185	2	1	76	1	0	0	0	0	0	0	0	1	15857	1045	37	1		1	TGM4	3	44929185	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4371255	44929185	153093245	136	48986											
CDCP1	64866	broad.mit.edu	37	chr3	45132792	45132792	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttggggagcacatcctcGtccaggctgaagatctcctc	7	9	12	13	1	1	2	0	1	1	1	6	3	3	3	3	4	1	3	3	4	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:45132792G>A	uc003com.2	-	7	2001	c.1866C>T	c.(1864-1866)GAC>GAT	p.D622D		NM_022842	NP_073753	Q9H5V8	CDCP1_HUMAN	CUB domain-containing protein 1 isoform 1	622	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		GCACATCCTCGTCCAGGCTGA	0.592													17	95					0	0	0.007413	0	0		A	45132792	A	A	45132792	2	1	76	1	0	0	0	0	0	0	0	1	3096	1136	40	1		1	CDCP1	3	45132792	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	203607	45132792	152889638	137	48987											
CCR9	10803	broad.mit.edu	37	chr3	45942873	45942873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatccggcattgctatctGcaccatggtttaccctagcg	8	11	10	12	2	1	0	0	0	1	0	2	1	2	1	3	3	4	4	3	3	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:45942873G>A	uc003coz.1	+	3	750	c.593G>A	c.(592-594)TGC>TAC	p.C198Y	LZTFL1_uc003coy.1_Intron|LZTFL1_uc011bak.1_Intron|CCR9_uc010hiv.1_Missense_Mutation_p.C186Y|CCR9_uc003cpa.1_Missense_Mutation_p.C186Y	NM_031200	NP_112477	P51686	CCR9_HUMAN	chemokine (C-C motif) receptor 9 isoform A	198	Extracellular (Potential).				cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|immune response	integral to plasma membrane				ovary(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00118)|KIRC - Kidney renal clear cell carcinoma(197;0.0182)|Kidney(197;0.0214)		ATTGCTATCTGCACCATGGTT	0.488													8	67					0	0	0.004482	0	0		A	45942873	A	A	45942873	3	1	76	1	0	0	0	0	1	0	0	0	2951	1319	46	2	599	2	CCR9	3	45942873	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	810081	45942873	152079557	138	48988											
LAMB2	3913	broad.mit.edu	37	chr3	49168514	49168514	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctctcggatctccctccgtgGgtcgagtaggttgtctccca	4	12	11	14	3	3	0	0	0	3	0	8	2	4	1	3	3	0	2	3	3	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:49168514G>T	uc003cwe.2	-	7	1083	c.784C>A	c.(784-786)CCA>ACA	p.P262T	LAMB2_uc003cwf.1_Missense_Mutation_p.P262T	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	262	Laminin N-terminal.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TCCCTCCGTGGGTCGAGTAGG	0.577													12	73					4.36969e-10	4.81649e-10	0.001855	1	0		T	49168514	T	T	49168514	3	4	76	1	0	0	0	0	1	0	0	0	8627	1232	43	5	4716	5	LAMB2	3	49168514	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3225641	49168514	148853916	139	48989											
RBM6	10180	broad.mit.edu	37	chr3	50099450	50099450	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggaagaagagatcaaggAaaaaaaacccaccagtcaag	21	3	10	7	0	2	3	2	1	0	2	2	6	2	5	2	2	1	0	2	2	8	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:50099450A>G	uc003cyc.2	+	15	2628	c.2495A>G	c.(2494-2496)GAA>GGA	p.E832G	RBM6_uc010hlc.1_Missense_Mutation_p.E351G|RBM6_uc003cyd.2_Missense_Mutation_p.E310G|RBM6_uc003cye.2_Missense_Mutation_p.E310G|RBM6_uc011bdi.1_Missense_Mutation_p.E174G|RBM6_uc010hld.1_RNA|RBM6_uc010hle.1_RNA|RBM6_uc010hlf.1_RNA	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	832					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		GAGATCAAGGAAAAAAAACCC	0.428													13	48					0	0	0.00245	0	0		G	50099450	G	G	50099450	3	3	76	1	0	0	0	0	1	0	0	0	13169	246	9	3	2549	3	RBM6	3	50099450	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	930936	50099450	147922980	140	48990											
DOCK3	1795	broad.mit.edu	37	chr3	51101994	51101994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtgcgggaggttaagcGgcacatcaccgtgcgcctgg	7	7	16	11	4	2	0	2	0	0	0	2	1	2	1	2	5	3	2	2	5	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:51101994G>A	uc011bds.1	+	6	454	c.431G>A	c.(430-432)CGG>CAG	p.R144Q		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	144						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		GAGGTTAAGCGGCACATCACC	0.463													22	74					0	0	0.00278	0	0		A	51101994	A	A	51101994	3	1	76	1	0	0	0	0	1	0	0	0	4694	1116	39	1	453	1	DOCK3	3	51101994	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1002544	51101994	146920436	141	48991											
PCBP4	57060	broad.mit.edu	37	chr3	51993974	51993974	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcaggcaccccagatacCgtaacagctcgctctgtgga	10	7	10	14	2	2	1	1	0	1	1	3	2	2	2	3	2	3	5	3	2	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:51993974C>T	uc003dcd.1	-	6	849	c.453G>A	c.(451-453)ACG>ACA	p.T151T	PCBP4_uc003dcb.1_Silent_p.T117T|PCBP4_uc003dcc.1_Silent_p.T172T|PCBP4_uc003dce.1_Silent_p.T151T|PCBP4_uc003dcf.1_Silent_p.T151T|PCBP4_uc003dcg.1_Silent_p.T117T|PCBP4_uc003dch.1_Silent_p.T151T|PCBP4_uc003dci.1_Intron|PCBP4_uc003dcj.1_Silent_p.T151T|PCBP4_uc003dck.1_Intron|PCBP4_uc003dcl.1_Silent_p.T151T	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	151	KH 2.					cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CCCCAGATACCGTAACAGCTC	0.617													21	84					0	0	0.001882	0	0		T	51993974	T	T	51993974	2	4	76	1	0	0	0	0	0	0	0	1	11522	639	23	1		1	PCBP4	3	51993974	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	891980	51993974	146028456	142	48992											
POC1A	25886	broad.mit.edu	37	chr3	52183364	52183364	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagaagtggacactcctcActgtggctgtgtgtgcacga	8	10	13	10	1	1	1	1	0	0	1	2	3	2	2	1	2	2	3	1	2	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:52183364A>G	uc003dcu.2	-	4	635	c.317T>C	c.(316-318)GTG>GCG	p.V106A	POC1A_uc003dcv.2_Missense_Mutation_p.V68A|POC1A_uc003dcw.2_Missense_Mutation_p.V106A	NM_015426	NP_056241	Q8NBT0	POC1A_HUMAN	WD repeat domain 51A isoform 1	106	WD 3.					centriole|microtubule basal body					0						GACACTCCTCACTGTGGCTGT	0.512													13	55					0	0	0.001368	0	0		G	52183364	G	G	52183364	3	3	76	1	0	0	0	0	1	0	0	0	12194	159	6	3	938	3	POC1A	3	52183364	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	189390	52183364	145839066	143	48993											
NISCH	11188	broad.mit.edu	37	chr3	52521807	52521807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttttgcttcccgcatggcGacctcaccgagtttggcttc	4	14	9	14	3	2	0	1	0	1	0	4	2	3	0	3	2	1	4	3	2	0	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:52521807G>A	uc011beg.1	+	17	2371	c.2299G>A	c.(2299-2301)GAC>AAC	p.D767N	NISCH_uc003ded.3_Missense_Mutation_p.D767N|NISCH_uc003dee.3_Missense_Mutation_p.D256N|NISCH_uc003deg.1_RNA	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	767	Interaction with LIMK (By similarity).|Interaction with ITGA5 (By similarity).|Interaction with PAK1 (By similarity).				apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		CCCGCATGGCGACCTCACCGA	0.597													16	55					0	0	0.003163	0	0		A	52521807	A	A	52521807	3	1	76	1	0	0	0	0	1	0	0	0	10451	1058	37	1	2361	1	NISCH	3	52521807	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	338443	52521807	145500623	144	48994											
NISCH	11188	broad.mit.edu	37	chr3	52522496	52522496	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagttccacttcctgcgCgtctacaaccagctgcgggc	8	8	11	14	3	1	1	0	0	1	1	3	2	3	1	3	1	5	2	3	1	3	3	rs144542629		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:52522496C>T	uc011beg.1	+	17	3060	c.2988C>T	c.(2986-2988)CGC>CGT	p.R996R	NISCH_uc003ded.3_Silent_p.R996R|NISCH_uc003dee.3_Silent_p.R485R|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_5'Flank	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	996					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		ACTTCCTGCGCGTCTACAACC	0.647													14	79					0	0	0.001855	0	0		T	52522496	T	T	52522496	2	4	76	1	0	0	0	0	0	0	0	1	10451	755	27	1		1	NISCH	3	52522496	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	689	52522496	145499934	145	48995											
PBRM1	55193	broad.mit.edu	37	chr3	52702537	52702537	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataataggactttgcattgtTaaaaagaagctggaagtcag	16	11	10	4	0	1	1	1	0	0	1	1	3	1	3	0	2	2	3	0	2	7	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:52702537T>A	uc003des.2	-	3	373	c.361A>T	c.(361-363)AAC>TAC	p.N121Y	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.N121Y|PBRM1_uc003der.2_Missense_Mutation_p.N121Y|PBRM1_uc003det.2_Missense_Mutation_p.N121Y|PBRM1_uc003deu.2_Missense_Mutation_p.N121Y|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.N121Y|PBRM1_uc010hmk.1_Missense_Mutation_p.N121Y|PBRM1_uc003dey.2_Missense_Mutation_p.N121Y|PBRM1_uc003dez.1_Missense_Mutation_p.N121Y|PBRM1_uc003dfb.1_Missense_Mutation_p.N19Y	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	121	Bromo 1.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding	p.N121fs*7(1)		kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TTTGCATTGTTAAAAAGAAGC	0.289			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								5	12					0	0	0.000602	0	0		A	52702537	A	A	52702537	3	1	76	1	0	0	0	0	1	0	0	0	11510	1754	61	5	4651	5	PBRM1	3	52702537	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	180041	52702537	145319893	146	48996											
PBRM1	55193	broad.mit.edu	37	chr3	52702554	52702554	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaaaaagaagctggaagTcagcagtcagcaaattaaca	18	8	9	6	0	2	1	2	0	0	1	2	2	2	2	0	1	4	4	0	1	7	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:52702554T>A	uc003des.2	-	3	356	c.344A>T	c.(343-345)GAC>GTC	p.D115V	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.D115V|PBRM1_uc003der.2_Missense_Mutation_p.D115V|PBRM1_uc003det.2_Missense_Mutation_p.D115V|PBRM1_uc003deu.2_Missense_Mutation_p.D115V|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.D115V|PBRM1_uc010hmk.1_Missense_Mutation_p.D115V|PBRM1_uc003dey.2_Missense_Mutation_p.D115V|PBRM1_uc003dez.1_Missense_Mutation_p.D115V|PBRM1_uc003dfb.1_Missense_Mutation_p.D13V	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	115	Bromo 1.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		AAGCTGGAAGTCAGCAGTCAG	0.318			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								5	15					0	0	0.000602	0	0		A	52702554	A	A	52702554	3	1	76	1	0	0	0	0	1	0	0	0	11510	1667	58	5	4668	5	PBRM1	3	52702554	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	17	52702554	145319876	147	48997											
CACNA1D	776	broad.mit.edu	37	chr3	53736702	53736702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagagaaggcaaaagcaCggggagatttccagaagctc	17	4	13	7	1	0	4	0	0	0	4	2	6	1	4	1	3	2	3	1	3	5	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:53736702C>T	uc003dgv.3	+	9	1418	c.1255C>T	c.(1255-1257)CGG>TGG	p.R419W	CACNA1D_uc003dgu.3_Missense_Mutation_p.R419W|CACNA1D_uc003dgy.3_Missense_Mutation_p.R419W|CACNA1D_uc003dgw.3_Missense_Mutation_p.R66W	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	419	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	GGCAAAAGCACGGGGAGATTT	0.522													11	40					0	0	0.008291	0	0		T	53736702	T	T	53736702	3	4	76	1	0	0	0	0	1	0	0	0	2544	527	19	1	1397	1	CACNA1D	3	53736702	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1034148	53736702	144285728	148	48998											
MAGI1	9223	broad.mit.edu	37	chr3	65387114	65387114	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaactgacaagtccttacCgactttgggctcttcttggg	8	13	10	10	1	2	1	0	1	2	0	3	2	3	1	2	2	2	2	2	2	3	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:65387114C>T	uc003dmn.2	-	13	2725	c.2199G>A	c.(2197-2199)TCG>TCA	p.S733S	MAGI1_uc003dmm.2_Silent_p.S733S|MAGI1_uc003dmo.2_Silent_p.S733S|MAGI1_uc003dmp.2_Silent_p.S733S|MAGI1_uc010hnx.1_Intron	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	733					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		AAGTCCTTACCGACTTTGGGC	0.502													3	16					0	0	0.004672	0	0		T	65387114	T	T	65387114	2	4	76	1	0	0	0	0	0	0	0	1	9208	666	23	1		1	MAGI1	3	65387114	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	11650412	65387114	132635316	149	48999											
COL8A1	1295	broad.mit.edu	37	chr3	99514770	99514770	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcaaggggggcaacgtgtgGgttgctctattcaagaacaa	11	9	14	7	1	2	1	1	0	1	1	2	1	2	1	0	4	4	4	0	4	6	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:99514770G>T	uc003dtg.1	+	5	2270	c.2025G>T	c.(2023-2025)TGG>TGT	p.W675C	COL8A1_uc003dth.1_Missense_Mutation_p.W675C|COL8A1_uc003dti.1_Missense_Mutation_p.W676C	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	675	C1q.|Nonhelical region (NC1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						GCAACGTGTGGGTTGCTCTAT	0.542													13	56					0.000151284	0.000157418	0.001855	1	0		T	99514770	T	T	99514770	3	4	76	1	0	0	0	0	1	0	0	0	3708	1241	43	5	2031	5	COL8A1	3	99514770	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	34127656	99514770	98507660	150	49000											
GPR128	84873	broad.mit.edu	37	chr3	100413765	100413765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattgccaaccttacatgaaCgctttaggctactggaaacc	12	10	7	12	1	0	1	0	1	0	0	0	2	0	2	3	2	6	2	3	2	6	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:100413765C>T	uc003duc.2	+	16	2582	c.2314C>T	c.(2314-2316)CGC>TGC	p.R772C	GPR128_uc011bhc.1_Missense_Mutation_p.R473C|GPR128_uc003dud.2_Missense_Mutation_p.R295C	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	772	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						CTTACATGAACGCTTTAGGCT	0.453													13	57					0	0	0.001855	0	0		T	100413765	T	T	100413765	3	4	76	1	0	0	0	0	1	0	0	0	6656	536	19	1	2376	1	GPR128	3	100413765	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	898995	100413765	97608665	151	49001											
IMPG2	50939	broad.mit.edu	37	chr3	101038523	101038523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggaaacagaatagatctcCgccttctgattaaccactgt	13	11	7	10	1	2	3	0	1	2	2	3	4	2	4	3	1	2	0	3	1	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:101038523C>T	uc003duq.1	-	2	442	c.239G>A	c.(238-240)CGG>CAG	p.R80Q	IMPG2_uc011bhe.1_5'UTR	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	80	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						AATAGATCTCCGCCTTCTGAT	0.433													17	92					0	0	0.004007	0	0		T	101038523	T	T	101038523	3	4	76	1	0	0	0	0	1	0	0	0	7745	652	23	1	3558	1	IMPG2	3	101038523	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	624758	101038523	96983907	152	49002											
ZNF80	7634	broad.mit.edu	37	chr3	113955576	113955576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacaggaggtgcgacctgcGgttgaagaccttcccgcact	8	7	13	13	3	0	2	0	1	0	1	1	4	1	3	3	3	2	3	3	3	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:113955576G>A	uc010hqo.2	-	1	850	c.346C>T	c.(346-348)CGC>TGC	p.R116C	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	116	C2H2-type 3; atypical.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)				TGCGACCTGCGGTTGAAGACC	0.537													15	34					0	0	0.003163	0	0		A	113955576	A	A	113955576	3	1	76	1	0	0	0	0	1	0	0	0	18193	1116	39	1	479	1	ZNF80	3	113955576	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	12917053	113955576	84066854	153	49003											
ZBTB20	26137	broad.mit.edu	37	chr3	114058003	114058003	+	Frame_Shift_Del	DEL	G	-	-																															cacctgggggtgtgcctgcaGggggggtcccattgctggca																										TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:114058003delG	uc003ebi.2	-	5	2255	c.2075delC	c.(2074-2076)CCTfs	p.P692fs	ZBTB20_uc003ebj.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc010hqp.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebk.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebl.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebm.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebn.2_Frame_Shift_Del_p.P619fs	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	692					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TGTGCCTGCAGGGGGGGTCCC	0.632													36	73	---	---	---	---						.	-	114058003	-	-	114058003	7	5	76	1	0	1	0	1	0	0	0	0	17554	1000	35	0	154	0	ZBTB20	3	114058003	Frame_Shift_Del	DEL	G	TCGA-BR-8382-01A-11D-2394-08	102427	114058003	83964427	154	49004											
ZBTB20	26137	broad.mit.edu	37	chr3	114069871	114069871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccgtgcactcctcggattCgttgcgttccaggatctgca	5	13	10	13	4	1	0	0	0	1	0	6	2	4	2	3	2	3	4	3	2	0	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:114069871C>T	uc003ebi.2	-	4	1234	c.1054G>A	c.(1054-1056)GAA>AAA	p.E352K	ZBTB20_uc003ebj.2_Missense_Mutation_p.E279K|ZBTB20_uc010hqp.2_Missense_Mutation_p.E279K|ZBTB20_uc003ebk.2_Missense_Mutation_p.E279K|ZBTB20_uc003ebl.2_Missense_Mutation_p.E279K|ZBTB20_uc003ebm.2_Missense_Mutation_p.E279K|ZBTB20_uc003ebn.2_Missense_Mutation_p.E279K|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	352					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TCCTCGGATTCGTTGCGTTCC	0.587													23	77					0	0	0.002299	0	0		T	114069871	T	T	114069871	3	4	76	1	0	0	0	0	1	0	0	0	17554	893	31	1	1179	1	ZBTB20	3	114069871	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	11868	114069871	83952559	155	49005											
POLQ	10721	broad.mit.edu	37	chr3	121200437	121200437	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttgaaggttttccttctGcaacaaagagttgagctgat	11	13	9	8	0	1	4	0	3	1	1	2	4	2	4	2	1	3	4	2	1	3	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:121200437G>A	uc003eee.3	-	19	6322	c.6193C>T	c.(6193-6195)CAG>TAG	p.Q2065*	POLQ_uc003eed.2_Nonsense_Mutation_p.Q1237*	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	2065					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TTTTCCTTCTGCAACAAAGAG	0.393								DNA_polymerases_(catalytic_subunits)					8	53					0	0	0.00308	0	0		A	121200437	A	A	121200437	4	1	76	1	0	0	0	0	0	1	0	0	12227	1328	46	2	1627	2	POLQ	3	121200437	Nonsense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	7130566	121200437	76821993	156	49006											
GOLGB1	2804	broad.mit.edu	37	chr3	121415133	121415133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtccagaaaggtagctaaCgtcttcttcctttttgctta	8	17	7	9	1	2	1	0	0	2	1	4	1	4	1	2	1	3	3	2	1	4	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:121415133C>T	uc003eei.3	-	13	4348	c.4222G>A	c.(4222-4224)GTT>ATT	p.V1408I	GOLGB1_uc010hrc.2_Missense_Mutation_p.V1413I|GOLGB1_uc003eej.3_Missense_Mutation_p.V1374I|GOLGB1_uc011bjm.1_Missense_Mutation_p.V1294I|GOLGB1_uc010hrd.1_Missense_Mutation_p.V1372I	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1408	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		AGGTAGCTAACGTCTTCTTCC	0.383													21	97					0	0	0.001882	0	0		T	121415133	T	T	121415133	3	4	76	1	0	0	0	0	1	0	0	0	6580	536	19	1	5597	1	GOLGB1	3	121415133	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	214696	121415133	76607297	157	49007											
MCM2	4171	broad.mit.edu	37	chr3	127335840	127335840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaccactggccagggggCgtcggctgtgggcctcacgg	4	7	16	14	3	2	0	2	0	0	0	3	0	2	0	3	6	0	1	3	6	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:127335840C>T	uc003ejp.2	+	10	1709	c.1652C>T	c.(1651-1653)GCG>GTG	p.A551V	MCM2_uc011bkm.1_Missense_Mutation_p.A421V|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.A504V	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	551	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						GGCCAGGGGGCGTCGGCTGTG	0.617													24	140					0	0	0.004656	0	0		T	127335840	T	T	127335840	3	4	76	1	0	0	0	0	1	0	0	0	9404	768	27	1	1690	1	MCM2	3	127335840	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	5920707	127335840	70686590	158	49008											
TMCC1	23023	broad.mit.edu	37	chr3	129389916	129389916	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtattcagcaacgttgtcGtcccgggctgtttgtgcaat	8	13	11	9	3	1	0	1	0	0	0	3	0	2	0	1	1	3	6	1	1	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:129389916G>A	uc003emz.3	-	5	1269	c.768C>T	c.(766-768)GAC>GAT	p.D256D	TMCC1_uc003emy.3_Translation_Start_Site|TMCC1_uc011blc.1_Silent_p.D77D|TMCC1_uc010htg.2_Silent_p.D142D	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	256	Potential.					integral to membrane				skin(1)	1						CAACGTTGTCGTCCCGGGCTG	0.512													27	178					0	0	0.00632	0	0		A	129389916	A	A	129389916	2	1	76	1	0	0	0	0	0	0	0	1	16017	1136	40	1		1	TMCC1	3	129389916	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2054076	129389916	68632514	159	49009											
A4GNT	51146	broad.mit.edu	37	chr3	137843319	137843319	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcccacacttcatagtaGcgcctccactctcgatagga	10	10	7	14	2	2	0	1	0	1	0	5	2	4	1	3	1	1	2	3	1	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:137843319G>A	uc003ers.2	-	3	1012	c.810C>T	c.(808-810)CGC>CGT	p.R270R		NM_016161	NP_057245	Q9UNA3	A4GCT_HUMAN	alpha-1,4-N-acetylglucosaminyltransferase	270	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	acetylglucosaminyltransferase activity|galactosyltransferase activity			central_nervous_system(1)	1						CTTCATAGTAGCGCCTCCACT	0.498													14	56					0	0	0.00245	0	0		A	137843319	A	A	137843319	2	1	76	1	0	0	0	0	0	0	0	1	7	958	34	2		2	A4GNT	3	137843319	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	8453403	137843319	60179111	160	49010											
HLTF	6596	broad.mit.edu	37	chr3	148802525	148802525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcaaacttccaaataaaaCggaatctacttcttcatcac	15	12	2	12	1	5	0	3	0	3	0	7	1	6	1	1	1	3	0	1	1	6	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:148802525C>T	uc003ewq.1	-	2	390	c.172G>A	c.(172-174)GTT>ATT	p.V58I	HLTF_uc003ewr.1_Missense_Mutation_p.V58I|HLTF_uc003ews.1_Missense_Mutation_p.V58I|HLTF_uc010hve.1_Missense_Mutation_p.V58I	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	58					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			CCAAATAAAACGGAATCTACT	0.363													13	30					0	0	0.00245	0	0		T	148802525	T	T	148802525	3	4	76	1	0	0	0	0	1	0	0	0	7231	536	19	1	2953	1	HLTF	3	148802525	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	10959206	148802525	49219905	161	49011											
HPS3	84343	broad.mit.edu	37	chr3	148872966	148872966	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggtggaatttgtatattgtGaatacgatctcaccagtgca	11	13	11	6	1	1	1	1	1	1	0	2	3	1	2	1	2	2	2	1	2	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:148872966G>A	uc003ewu.1	+	8	1613	c.1473G>A	c.(1471-1473)GTG>GTA	p.V491V	HPS3_uc011bnq.1_Silent_p.V326V	NM_032383	NP_115759	Q969F9	HPS3_HUMAN	Hermansky-Pudlak syndrome 3 protein	491						cytoplasm				ovary(5)|large_intestine(1)	6			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			TGTATATTGTGAATACGATCT	0.343									Hermansky-Pudlak_syndrome				6	40					0	0	0.001168	0	0		A	148872966	A	A	148872966	2	1	76	1	0	0	0	0	0	0	0	1	7356	1277	45	4		4	HPS3	3	148872966	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	70441	148872966	49149464	162	49012											
SIAH2	6478	broad.mit.edu	37	chr3	150460061	150460061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacaccgtcatgaatcgaaCggggcgtggcctcccaggtc	8	6	12	15	4	1	1	1	1	0	0	4	2	2	1	4	4	1	0	4	4	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:150460061C>T	uc003eyi.2	-	2	1469	c.842G>A	c.(841-843)CGT>CAT	p.R281H		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	281	SBD.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			ATGAATCGAACGGGGCGTGGC	0.547													16	48					0	0	0.004007	0	0		T	150460061	T	T	150460061	3	4	76	1	0	0	0	0	1	0	0	0	14325	536	19	1	136	1	SIAH2	3	150460061	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1587095	150460061	47562369	163	49013											
MED12L	116931	broad.mit.edu	37	chr3	151082765	151082765	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttttttcttataacctcAgtagtgcctgttcaaaagta	11	17	5	8	0	3	0	2	0	1	0	3	0	3	0	2	0	2	3	2	0	6	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:151082765A>C	uc003eyp.2	+	20	2891	c.2853_splice	c.e20-2	p.S951_splice	MED12L_uc011bnz.1_Splice_Site_p.S811_splice|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Intron	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TTATAACCTCAGTAGTGCCTG	0.318													17	91					0	0	0.00499	0	0		C	151082765	C	C	151082765	5	2	76	1	0	0	0	0	0	0	1	0	9447	202	7	5	2929	5	MED12L	3	151082765	Splice_Site	SNP	A	TCGA-BR-8382-01A-11D-2394-08	622704	151082765	46939665	164	49014											
SI	6476	broad.mit.edu	37	chr3	164716334	164716334	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactttcacttaccaatgaTtgatttgtccatgttgtccc	8	17	6	10	0	1	3	1	3	0	0	3	3	3	3	3	0	1	1	3	0	2	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:164716334T>A	uc003fei.2	-	38	4596	c.4534A>T	c.(4534-4536)ATC>TTC	p.I1512F		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1512	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TTACCAATGATTGATTTGTCC	0.398										HNSCC(35;0.089)			23	77					0	0	0.001882	0	0		A	164716334	A	A	164716334	3	1	76	1	0	0	0	0	1	0	0	0	14322	1493	52	5	993	5	SI	3	164716334	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	13633569	164716334	33306096	165	49015											
SLC7A14	57709	broad.mit.edu	37	chr3	170185060	170185060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctccactgagaaggggTcatccacgtcgtagcgttgg	7	9	12	13	3	1	1	1	1	0	1	5	2	4	1	4	3	1	2	4	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:170185060T>C	uc003fgz.2	-	8	2415	c.2099A>G	c.(2098-2100)GAC>GGC	p.D700G	CLDN11_uc011bpt.1_Intron|uc003fha.1_5'Flank	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	700						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			TGAGAAGGGGTCATCCACGTC	0.557													13	46					0	0	0.00245	0	0		C	170185060	C	C	170185060	3	2	76	1	0	0	0	0	1	0	0	0	14721	1667	58	3	220	3	SLC7A14	3	170185060	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	5468726	170185060	27837370	166	49016											
SLC7A14	57709	broad.mit.edu	37	chr3	170201151	170201151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cataaatgaccctcggcatcGggaagagggaccccagcaag	13	4	12	12	2	0	2	0	1	0	1	2	4	0	4	3	3	1	2	3	3	4	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:170201151G>A	uc003fgz.2	-	6	1383	c.1067C>T	c.(1066-1068)CCG>CTG	p.P356L	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	356	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			CCTCGGCATCGGGAAGAGGGA	0.542											OREG0015917	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	87					0	0	0.004007	0	0		A	170201151	A	A	170201151	3	1	76	1	0	0	0	0	1	0	0	0	14721	1116	39	1	1260	1	SLC7A14	3	170201151	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	16091	170201151	27821279	167	49017											
USP13	8975	broad.mit.edu	37	chr3	179459997	179459997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccttcagaggaaccgcatcGgctcagaaaacccaagcgat	13	6	9	13	3	2	2	2	0	0	2	4	4	3	3	3	2	3	2	3	2	4	1	rs61750381		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:179459997G>A	uc003fkh.2	+	12	1474	c.1393G>A	c.(1393-1395)GGC>AGC	p.G465S	USP13_uc003fkf.2_Missense_Mutation_p.G465S	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	465					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			GAACCGCATCGGCTCAGAAAA	0.443													12	37					0	0	0.001368	0	0		A	179459997	A	A	179459997	3	1	76	1	0	0	0	0	1	0	0	0	17070	1116	39	1	1439	1	USP13	3	179459997	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	9258846	179459997	18562433	168	49018											
FXR1	8087	broad.mit.edu	37	chr3	180666221	180666221	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggcctgtcaatcaaaataaAactgtcaaaaaaaatacctt	19	9	4	9	1	3	0	3	0	0	0	3	0	3	0	2	1	2	0	2	1	10	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:180666221A>G	uc003fkq.2	+	5	379	c.357A>G	c.(355-357)AAA>AAG	p.K119K	FXR1_uc003fkp.2_Silent_p.K34K|FXR1_uc003fkr.2_Silent_p.K119K|FXR1_uc011bqj.1_Silent_p.K33K|FXR1_uc003fks.2_Silent_p.K33K|FXR1_uc011bqk.1_Silent_p.K70K|FXR1_uc011bql.1_Silent_p.K106K	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	119					apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			ATCAAAATAAAACTGTCAAAA	0.333													9	36					0	0	0.008291	0	0		G	180666221	G	G	180666221	2	3	76	1	0	0	0	0	0	0	0	1	6129	11	1	3		3	FXR1	3	180666221	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1206224	180666221	17356209	169	49019											
HTR3E	285242	broad.mit.edu	37	chr3	183822019	183822019	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaggaatgtgagggcaTcacgaagatgagtatggcag	13	6	15	7	1	1	4	1	2	0	2	1	6	1	5	1	3	0	3	1	3	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:183822019T>C	uc010hxq.2	+	4	795	c.329T>C	c.(328-330)ATC>ACC	p.I110T	HTR3E_uc003fml.3_Missense_Mutation_p.I95T|HTR3E_uc003fmm.2_Missense_Mutation_p.I125T|HTR3E_uc010hxr.2_Missense_Mutation_p.I110T|HTR3E_uc003fmn.2_Missense_Mutation_p.I110T	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	110	Extracellular (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			TGTGAGGGCATCACGAAGATG	0.498													4	21					0	0	0.000602	0	0		C	183822019	C	C	183822019	3	2	76	1	0	0	0	0	1	0	0	0	7464	1435	50	3	384	3	HTR3E	3	183822019	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3155798	183822019	14200411	170	49020											
DVL3	1857	broad.mit.edu	37	chr3	183883972	183883972	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaacgagcgtggtgacggCggcatctacattggctctat	9	9	13	10	4	2	1	0	1	2	0	2	2	2	1	0	4	4	3	0	4	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:183883972C>T	uc003fms.2	+	8	962	c.822C>T	c.(820-822)GGC>GGT	p.G274G	DVL3_uc011bqw.1_Silent_p.G274G|DVL3_uc003fmt.2_5'UTR|DVL3_uc003fmu.2_Silent_p.G106G	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	274	PDZ.				canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			GTGGTGACGGCGGCATCTACA	0.502													14	72					0	0	0.001855	0	0		T	183883972	T	T	183883972	2	4	76	1	0	0	0	0	0	0	0	1	4843	755	27	1		1	DVL3	3	183883972	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	61953	183883972	14138458	171	49021											
EIF4G1	1981	broad.mit.edu	37	chr3	184035263	184035263	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcctacccagcctcccaggGggcctactacatccctggac	7	7	8	19	0	0	0	0	0	0	0	3	1	3	1	6	3	4	0	6	3	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:184035263G>T	uc003fnp.2	+	5	500	c.302G>T	c.(301-303)GGG>GTG	p.G101V	EIF4G1_uc003fno.1_Intron|EIF4G1_uc010hxw.1_Intron|EIF4G1_uc003fnt.2_Intron|EIF4G1_uc003fnq.2_Missense_Mutation_p.G14V|EIF4G1_uc003fnr.2_Intron|EIF4G1_uc010hxx.2_Missense_Mutation_p.G108V|EIF4G1_uc003fns.2_Missense_Mutation_p.G61V|EIF4G1_uc010hxy.2_Missense_Mutation_p.G108V|EIF4G1_uc010hxz.1_Missense_Mutation_p.G14V|EIF4G1_uc003fnv.3_Missense_Mutation_p.G101V|EIF4G1_uc003fnu.3_Missense_Mutation_p.G101V|EIF4G1_uc003fnw.2_Missense_Mutation_p.G108V|EIF4G1_uc003fnx.2_5'Flank|EIF4G1_uc003fny.3_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	101					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCCTCCCAGGGGGCCTACTAC	0.607													13	75					4.93089e-13	5.50829e-13	0.00245	1	0		T	184035263	T	T	184035263	3	4	76	1	0	0	0	0	1	0	0	0	5044	1232	43	5	312	5	EIF4G1	3	184035263	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	151291	184035263	13987167	172	49022											
EIF4G1	1981	broad.mit.edu	37	chr3	184040486	184040486	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaatgctgagaacatccAgcccggggaacagaagtatg	14	6	11	10	1	1	2	1	1	0	2	2	4	2	3	2	2	4	2	2	2	5	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:184040486A>G	uc003fnp.2	+	12	1961	c.1763A>G	c.(1762-1764)CAG>CGG	p.Q588R	EIF4G1_uc003fno.1_Missense_Mutation_p.Q529R|EIF4G1_uc010hxw.1_Missense_Mutation_p.Q424R|EIF4G1_uc003fnt.2_Missense_Mutation_p.Q299R|EIF4G1_uc003fnq.2_Missense_Mutation_p.Q501R|EIF4G1_uc003fnr.2_Missense_Mutation_p.Q424R|EIF4G1_uc010hxx.2_Missense_Mutation_p.Q595R|EIF4G1_uc003fns.2_Missense_Mutation_p.Q548R|EIF4G1_uc010hxy.2_Missense_Mutation_p.Q595R|EIF4G1_uc003fnv.3_Missense_Mutation_p.Q588R|EIF4G1_uc003fnu.3_Missense_Mutation_p.Q588R|EIF4G1_uc003fnw.2_Missense_Mutation_p.Q595R|EIF4G1_uc003fnx.2_Missense_Mutation_p.Q392R|EIF4G1_uc003fny.3_Missense_Mutation_p.Q392R|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	588	MIF4G.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GAGAACATCCAGCCCGGGGAA	0.498													9	46					0	0	0.006214	0	0		G	184040486	G	G	184040486	3	3	76	1	0	0	0	0	1	0	0	0	5044	188	7	3	1801	3	EIF4G1	3	184040486	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	5223	184040486	13981944	173	49023											
TPRG1	285386	broad.mit.edu	37	chr3	189038571	189038571	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcattggaaaccgcaacaaaCttggctattcccttgcccgt	10	11	7	13	2	1	0	1	0	0	0	2	1	2	1	3	2	4	2	3	2	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:189038571C>T	uc003frv.1	+	11	2017	c.790C>T	c.(790-792)CTT>TTT	p.L264F	TPRG1_uc003frw.1_Missense_Mutation_p.L264F	NM_198485	NP_940887	Q6ZUI0	TPRG1_HUMAN	tumor protein p63 regulated 1	264											0	all_cancers(143;6.12e-12)|all_hematologic(3;0.0359)|Ovarian(172;0.0925)	all_lung(153;8.23e-09)|Lung NSC(153;3.55e-06)|all_neural(597;0.0019)|Myeloproliferative disorder(1037;0.0255)	Lung(62;6.93e-06)	GBM - Glioblastoma multiforme(93;4.77e-14)		CCGCAACAAACTTGGCTATTC	0.413													5	17					0	0	0.000602	0	0		T	189038571	T	T	189038571	3	4	76	1	0	0	0	0	1	0	0	0	16444	565	20	4	808	4	TPRG1	3	189038571	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4998085	189038571	8983859	174	49024											
TP63	8626	broad.mit.edu	37	chr3	189349368	189349368	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacccttacatccagcggTgagtttgaatgtgacataac	11	11	9	10	1	0	4	0	4	0	0	1	4	1	4	2	1	3	1	2	1	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:189349368T>C	uc003fry.2	+	1	151	c.62_splice	c.e1+2	p.R21_splice	TP63_uc003frx.2_Splice_Site_p.R21_splice|TP63_uc003frz.2_Splice_Site_p.R21_splice|TP63_uc010hzc.1_Splice_Site_p.R21_splice	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1						anti-apoptosis|cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		CATCCAGCGGTGAGTTTGAAT	0.408									Hay-Wells_syndrome	HNSCC(45;0.13)			16	110					0	0	0.006122	0	0		C	189349368	C	C	189349368	5	2	76	1	0	0	0	0	0	0	1	0	16418	1710	59	3	66	3	TP63	3	189349368	Splice_Site	SNP	T	TCGA-BR-8382-01A-11D-2394-08	310797	189349368	8673062	175	49025											
MUC4	4585	broad.mit.edu	37	chr3	195481147	195481147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgcagcccttcccaggaaCgcagtggacactcgggaagc	9	5	12	15	3	0	0	0	0	0	0	3	3	1	3	2	3	3	2	2	3	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:195481147C>T	uc011bto.1	-	20	15341	c.14881G>A	c.(14881-14883)GTT>ATT	p.V4961I	MUC4_uc010hzq.2_5'Flank|MUC4_uc003fuz.2_Missense_Mutation_p.V687I|MUC4_uc003fva.2_Missense_Mutation_p.V569I|MUC4_uc003fvb.2_Missense_Mutation_p.V605I|MUC4_uc003fvc.2_Intron|MUC4_uc003fvd.2_Intron|MUC4_uc003fve.2_Missense_Mutation_p.V605I|MUC4_uc010hzr.2_Intron|MUC4_uc011btf.1_Missense_Mutation_p.V569I|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Missense_Mutation_p.V653I|MUC4_uc011bti.1_Missense_Mutation_p.V653I|MUC4_uc011btj.1_Missense_Mutation_p.V830I|MUC4_uc011btk.1_Missense_Mutation_p.V569I|MUC4_uc011btl.1_Missense_Mutation_p.V598I|MUC4_uc011btm.1_Missense_Mutation_p.V778I|MUC4_uc011btn.1_Missense_Mutation_p.V569I|MUC4_uc003fvo.2_Missense_Mutation_p.V853I|MUC4_uc003fvp.2_Missense_Mutation_p.V802I	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1846					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TTCCCAGGAACGCAGTGGACA	0.687													13	106					0	0	0.001368	0	0		T	195481147	T	T	195481147	3	4	76	1	0	0	0	0	1	0	0	0	9996	536	19	1	1001	1	MUC4	3	195481147	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	6131779	195481147	2541283	176	49026											
LMLN	89782	broad.mit.edu	37	chr3	197751625	197751625	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagtgtgagaggaagcTgagttacccagactggggaa	13	6	17	5	0	0	4	0	2	0	3	0	8	0	6	1	4	2	2	1	4	4	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr3:197751625T>C	uc011buo.1	+	14	1644	c.1622T>C	c.(1621-1623)CTG>CCG	p.L541P	LMLN_uc003fyt.2_Missense_Mutation_p.L526P|LMLN_uc010iar.2_Missense_Mutation_p.L578P|LMLN_uc010ias.2_Missense_Mutation_p.L489P|LMLN_uc003fyu.2_Missense_Mutation_p.L338P	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2	541					cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		GAGAGGAAGCTGAGTTACCCA	0.373													20	82					0	0	0.00333	0	0		C	197751625	C	C	197751625	3	2	76	1	0	0	0	0	1	0	0	0	8864	1580	55	3	1791	3	LMLN	3	197751625	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2270478	197751625	270805	177	49027											
MFSD7	84179	broad.mit.edu	37	chr4	678306	678306	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcacagaggatctgctccAggagggctgagaagctggca	10	7	15	9	0	1	2	0	1	1	2	2	5	2	4	1	4	3	5	1	4	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:678306A>G	uc003gay.2	-	6	866	c.809T>C	c.(808-810)CTG>CCG	p.L270P	MFSD7_uc003gaw.2_Missense_Mutation_p.L12P|MFSD7_uc003gax.2_Missense_Mutation_p.L269P|MFSD7_uc003gaz.2_Missense_Mutation_p.L151P|MFSD7_uc003gba.2_Missense_Mutation_p.L173P|MFSD7_uc003gbb.1_Missense_Mutation_p.L205P	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	270	Helical; (Potential).				transmembrane transport	integral to membrane					0						GATCTGCTCCAGGAGGGCTGA	0.617											OREG0016025	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	104					0	0	0.00333	0	0		G	678306	G	G	678306	3	3	76	1	0	0	0	0	1	0	0	0	9555	188	7	3	893	3	MFSD7	4	678306	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08		678306	190475970	178	49028											
PCGF3	10336	broad.mit.edu	37	chr4	727522	727522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgcccacatcacctgccGcctgtgcagcgggtacctca	8	6	9	18	3	2	0	2	0	0	0	2	0	2	0	5	1	5	2	5	1	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:727522G>A	uc011bva.1	+	5	528	c.53G>A	c.(52-54)CGC>CAC	p.R18H	PCGF3_uc003gbc.1_RNA|PCGF3_uc003gbd.1_RNA|PCGF3_uc003gbe.2_Missense_Mutation_p.R18H|PCGF3_uc010ibh.2_Missense_Mutation_p.R18H|PCGF3_uc003gbg.1_5'Flank|PCGF3_uc003gbh.2_5'Flank	NM_006315	NP_006306	Q3KNV8	PCGF3_HUMAN	ring finger protein 3	18	RING-type.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	PcG protein complex	zinc ion binding				0						ATCACCTGCCGCCTGTGCAGC	0.587													19	93					0	0	0.001882	0	0		A	727522	A	A	727522	3	1	76	1	0	0	0	0	1	0	0	0	11595	1087	38	1	55	1	PCGF3	4	727522	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	49216	727522	190426754	179	49029											
HGFAC	3083	broad.mit.edu	37	chr4	3451076	3451076	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagccgggggtctacacccGcgtggccaactatgtggact	8	7	13	13	3	1	0	0	0	1	0	1	1	1	1	3	4	3	0	3	4	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:3451076G>A	uc003ghc.2	+	14	1901	c.1898G>A	c.(1897-1899)CGC>CAC	p.R633H	HGFAC_uc010icw.2_Missense_Mutation_p.R640H	NM_001528	NP_001519	Q04756	HGFA_HUMAN	HGF activator preproprotein	633	Peptidase S1.				proteolysis	extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(2)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		GTCTACACCCGCGTGGCCAAC	0.672													19	72					0	0	0.007413	0	0		A	3451076	A	A	3451076	3	1	76	1	0	0	0	0	1	0	0	0	7102	1087	38	1	1952	1	HGFAC	4	3451076	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2723554	3451076	187703200	180	49030											
AFAP1	60312	broad.mit.edu	37	chr4	7776532	7776532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctgggccagcctattccGcagggcctctttcctcttca	5	11	10	15	1	3	0	1	0	2	0	5	1	5	0	5	2	2	2	5	2	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:7776532G>A	uc003gkg.1	-	14	2017	c.1744C>T	c.(1744-1746)CGG>TGG	p.R582W	AFAP1_uc011bwk.1_Missense_Mutation_p.R666W|LOC84740_uc003gkd.3_RNA	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	582	Potential.					actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						AGCCTATTCCGCAGGGCCTCT	0.562													16	62					0	0	0.004007	0	0		A	7776532	A	A	7776532	3	1	76	1	0	0	0	0	1	0	0	0	353	1086	38	1	464	1	AFAP1	4	7776532	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4325456	7776532	183377744	181	49031											
SH3TC1	54436	broad.mit.edu	37	chr4	8233879	8233879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctacctgtccctgggcaccGagcggtgagggctggctctg	4	9	15	13	2	2	1	0	1	2	0	3	2	3	1	3	4	2	3	3	4	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:8233879G>A	uc003gkv.3	+	13	3228	c.3127G>A	c.(3127-3129)GAG>AAG	p.E1043K	SH3TC1_uc003gkw.3_Missense_Mutation_p.E967K|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_RNA	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	1043	TPR 7.						binding			large_intestine(2)|pancreas(1)	3						CCTGGGCACCGAGCGGTGAGG	0.512													6	21					0	0	0.001168	0	0		A	8233879	A	A	8233879	3	1	76	1	0	0	0	0	1	0	0	0	14286	1059	37	1	3173	1	SH3TC1	4	8233879	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	457347	8233879	182920397	182	49032											
LCORL	254251	broad.mit.edu	37	chr4	17847433	17847433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagattccattcaatgggacGattaaggcacatcttaatgg	13	11	9	8	1	2	1	1	0	1	1	3	3	3	2	1	3	0	1	1	3	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:17847433G>A	uc003gpq.2	-	7	879	c.868C>T	c.(868-870)CGT>TGT	p.R290C	LCORL_uc011bxk.1_3'UTR	NM_153686	NP_710153	Q8N3X6	LCORL_HUMAN	ligand dependent nuclear receptor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0						TCAATGGGACGATTAAGGCAC	0.398													13	72					0	0	0.001855	0	0		A	17847433	A	A	17847433	3	1	76	1	0	0	0	0	1	0	0	0	8706	1058	37	1	92	1	LCORL	4	17847433	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	9613554	17847433	173306843	183	49033											
PCDH7	5099	broad.mit.edu	37	chr4	30724711	30724711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggcgagagggtggccaCggtgctggcgacagacgcag	7	3	19	12	5	0	2	0	0	0	2	0	4	0	2	2	5	1	2	2	5	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:30724711C>T	uc003gsk.1	+	1	2675	c.1667C>T	c.(1666-1668)ACG>ATG	p.T556M	PCDH7_uc011bxw.1_Missense_Mutation_p.T509M|PCDH7_uc011bxx.1_Missense_Mutation_p.T556M	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	556	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						AGGGTGGCCACGGTGCTGGCG	0.607													12	51					0	0	0.000978	0	0		T	30724711	T	T	30724711	3	4	76	1	0	0	0	0	1	0	0	0	11535	536	19	1	1669	1	PCDH7	4	30724711	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	12877278	30724711	160429565	184	49034											
KLB	152831	broad.mit.edu	37	chr4	39408583	39408583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcaaatgaagccaggctGtgcggcaggatctccaggga	10	6	16	9	1	1	1	0	1	1	0	2	3	1	3	2	5	2	3	2	5	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:39408583G>A	uc003gua.2	+	1	111	c.14G>A	c.(13-15)TGT>TAT	p.C5Y	KLB_uc011byj.1_Missense_Mutation_p.C5Y	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	5	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						AAGCCAGGCTGTGCGGCAGGA	0.443													6	22					0	0	0.001168	0	0		A	39408583	A	A	39408583	3	1	76	1	0	0	0	0	1	0	0	0	8348	1377	48	4	16	4	KLB	4	39408583	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	8683872	39408583	151745693	185	49035											
KLB	152831	broad.mit.edu	37	chr4	39448221	39448221	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctgaggtactacaggtgCgtggtcagtgaggggctgaa	8	8	17	8	1	1	3	1	3	0	0	1	3	1	3	1	5	3	2	1	5	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:39448221C>T	uc003gua.2	+	4	1972	c.1875C>T	c.(1873-1875)TGC>TGT	p.C625C	KLB_uc011byj.1_Silent_p.C616C	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	625	Extracellular (Potential).|Glycosyl hydrolase-1 2.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						ACTACAGGTGCGTGGTCAGTG	0.617													19	71					0	0	0.007413	0	0		T	39448221	T	T	39448221	2	4	76	1	0	0	0	0	0	0	0	1	8348	776	27	1		1	KLB	4	39448221	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	39638	39448221	151706055	186	49036											
NFXL1	152518	broad.mit.edu	37	chr4	47901013	47901013	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacacttatgttgcccacaAagcaacttctgtccacatgg	11	11	6	13	0	2	0	1	0	1	0	3	0	3	0	2	1	3	2	2	1	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:47901013A>T	uc010igh.2	-	7	1128	c.951T>A	c.(949-951)CTT>CTA	p.L317L	NFXL1_uc003gxp.2_Silent_p.L317L|NFXL1_uc003gxq.3_RNA|NFXL1_uc010igi.2_Silent_p.L317L	NM_152995	NP_694540	Q6ZNB6	NFXL1_HUMAN	nuclear transcription factor, X-box binding-like	317						integral to membrane|nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						GTTGCCCACAAAGCAACTTCT	0.418													13	43					0	0	0.00245	0	0		T	47901013	T	T	47901013	2	4	76	1	0	0	0	0	0	0	0	1	10407	1	1	5		5	NFXL1	4	47901013	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	8452792	47901013	143253263	187	49037											
SPATA18	132671	broad.mit.edu	37	chr4	52943184	52943184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggctgagaccgttcagcGgatcatctacatcgccacag	11	7	10	13	3	3	1	2	1	1	1	4	3	3	2	2	2	2	2	2	2	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:52943184G>A	uc003gzl.2	+	7	1276	c.998G>A	c.(997-999)CGG>CAG	p.R333Q	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.R301Q|SPATA18_uc003gzk.1_Missense_Mutation_p.R333Q	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	333					mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			ACCGTTCAGCGGATCATCTAC	0.607													6	21					0	0	0.001168	0	0		A	52943184	A	A	52943184	3	1	76	1	0	0	0	0	1	0	0	0	15028	1116	39	1	1024	1	SPATA18	4	52943184	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	5042171	52943184	138211092	188	49038											
PDGFRA	5156	broad.mit.edu	37	chr4	55138612	55138612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcaccatggctcaactggggGacagacggtgaggtgcacag	10	6	15	10	1	2	2	2	1	0	1	2	3	2	3	1	5	2	2	1	5	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:55138612G>A	uc003han.3	+	9	1620	c.1289G>A	c.(1288-1290)GGA>GAA	p.G430E	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Missense_Mutation_p.G324E|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	430	Ig-like C2-type 5.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	TCAACTGGGGGACAGACGGTG	0.473			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			12	56					0	0	0.000978	0	0		A	55138612	A	A	55138612	3	1	76	1	0	0	0	0	1	0	0	0	11680	1174	41	4	1319	4	PDGFRA	4	55138612	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2195428	55138612	136015664	189	49039											
EXOC1	55763	broad.mit.edu	37	chr4	56736875	56736875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaatcatggcatctgaaaAacaagtcaacatcctgatga	16	9	7	9	0	4	3	3	3	1	0	5	3	5	3	1	1	2	1	1	1	5	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:56736875A>G	uc003hbe.1	+	6	793	c.635A>G	c.(634-636)AAA>AGA	p.K212R	EXOC1_uc003hbf.1_Missense_Mutation_p.K212R|EXOC1_uc003hbg.1_Missense_Mutation_p.K212R	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	212	Potential.				exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					GCATCTGAAAAACAAGTCAAC	0.303													7	45					0	0	0.00308	0	0		G	56736875	G	G	56736875	3	3	76	1	0	0	0	0	1	0	0	0	5309	14	1	3	653	3	EXOC1	4	56736875	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1598263	56736875	134417401	190	49040											
EPHA5	2044	broad.mit.edu	37	chr4	66467570	66467570	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagtgtcgtaccacagaaggGcattttttatagtatacacg	13	12	9	7	2	0	1	0	0	0	1	1	1	0	1	1	1	2	3	1	1	7	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:66467570G>A	uc003hcy.2	-	3	892	c.699C>T	c.(697-699)TGC>TGT	p.C233C	EPHA5_uc003hcx.2_Silent_p.C164C|EPHA5_uc003hcz.2_Silent_p.C233C|EPHA5_uc011cah.1_Silent_p.C233C|EPHA5_uc011cai.1_Silent_p.C233C|EPHA5_uc003hda.2_Silent_p.C233C	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	233	Extracellular (Potential).|Cys-rich.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CCACAGAAGGGCATTTTTTAT	0.453										TSP Lung(17;0.13)			9	44					0	0	0.004482	0	0		A	66467570	A	A	66467570	2	1	76	1	0	0	0	0	0	0	0	1	5178	1195	42	2		2	EPHA5	4	66467570	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	9730695	66467570	124686706	191	49041											
TMPRSS11A	339967	broad.mit.edu	37	chr4	68784721	68784721	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgctccaaatcctgtgaTgtggacagtcaaatttggtt	11	13	10	7	0	1	1	1	1	0	0	3	2	3	2	2	2	1	2	2	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:68784721T>C	uc003hdr.1	-	8	1052	c.931A>G	c.(931-933)ATC>GTC	p.I311V	LOC550112_uc003hdl.3_Intron|TMPRSS11A_uc003hds.1_Missense_Mutation_p.I308V	NM_182606	NP_872412	Q6ZMR5	TM11A_HUMAN	transmembrane protease, serine 11A isoform 1	311	Peptidase S1.|Extracellular (Potential).				cell cycle|proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			skin(1)	1						AATCCTGTGATGTGGACAGTC	0.463													28	80					0	0	0.008361	0	0		C	68784721	C	C	68784721	3	2	76	1	0	0	0	0	1	0	0	0	16264	1464	51	3	346	3	TMPRSS11A	4	68784721	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2317151	68784721	122369555	192	49042											
UGT2B10	7365	broad.mit.edu	37	chr4	69885523	69885523	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttgacataacaacaggtaCgtaggaaggagggaaaataa	18	8	11	4	1	0	1	0	1	0	0	0	4	0	4	0	4	3	2	0	4	8	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:69885523C>A	uc011cao.1	-	4	602	c.466G>T	c.(466-468)GTA>TTA	p.V156L	UGT2B10_uc011can.1_Intron			P36537	UDB10_HUMAN	RecName: Full=UDP-glucuronosyltransferase 2B28;          Short=UDPGT 2B28;          EC=2.4.1.17; Flags: Precursor;	193					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						ACAACAGGTACGTAGGAAGGA	0.388													13	56					1.49906e-05	1.57503e-05	0.00245	1	0		A	69885523	A	A	69885523	3	1	76	1	0	0	0	0	1	0	0	0	16982	536	19	5	2644	5	UGT2B10	4	69885523	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1100802	69885523	121268753	193	49043											
FRAS1	80144	broad.mit.edu	37	chr4	79373470	79373470	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctacagaatcaccagacAgccccagctgggccacttgg	11	6	10	14	0	2	2	1	0	1	2	2	3	2	2	4	2	3	1	4	2	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:79373470A>C	uc003hlb.2	+	47	7165	c.6725A>C	c.(6724-6726)CAG>CCG	p.Q2242P		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2241	CSPG 10.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						ATCACCAGACAGCCCCAGCTG	0.468													6	44					0	0	0.001984	0	0		C	79373470	C	C	79373470	3	2	76	1	0	0	0	0	1	0	0	0	6056	188	7	5	6986	5	FRAS1	4	79373470	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	9487947	79373470	111780806	194	49044											
GRID2	2895	broad.mit.edu	37	chr4	94032058	94032058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgagacactcttaggcgagCgatccttgttatgaatcctg	9	12	10	10	3	1	2	0	1	1	1	4	5	3	2	2	1	1	1	2	1	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:94032058C>T	uc011cdt.1	+	4	947	c.689C>T	c.(688-690)GCG>GTG	p.A230V	GRID2_uc010ikx.2_Missense_Mutation_p.A230V|GRID2_uc011cdu.1_Missense_Mutation_p.A135V|GRID2_uc011cdv.1_RNA	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	230	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CTTAGGCGAGCGATCCTTGTT	0.388													5	71					0	0	0.001168	0	0		T	94032058	T	T	94032058	3	4	76	1	0	0	0	0	1	0	0	0	6788	768	27	1	703	1	GRID2	4	94032058	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	14658588	94032058	97122218	195	49045											
PDLIM5	10611	broad.mit.edu	37	chr4	95539205	95539205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcggtagcttccacacGgagcatgcccgagagcctgg	7	8	12	14	3	0	1	0	0	0	1	3	3	2	2	4	3	4	3	4	3	1	3	rs115018620	by1000genomes	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:95539205G>A	uc003hti.2	+	8	1122	c.971G>A	c.(970-972)CGG>CAG	p.R324Q	PDLIM5_uc011cdx.1_Missense_Mutation_p.R221Q|PDLIM5_uc003hth.2_Missense_Mutation_p.R215Q|PDLIM5_uc003htj.2_5'UTR|PDLIM5_uc003htk.2_Missense_Mutation_p.R353Q|PDLIM5_uc011cdy.1_Missense_Mutation_p.R202Q|PDLIM5_uc003htl.2_5'UTR	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	324					regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		GCTTCCACACGGAGCATGCCC	0.547													14	36					0	0	0.001855	0	0		A	95539205	A	A	95539205	3	1	76	1	0	0	0	0	1	0	0	0	11702	1116	39	1	1157	1	PDLIM5	4	95539205	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1507147	95539205	95615071	196	49046											
NHEDC1	150159	broad.mit.edu	37	chr4	103822279	103822279	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaggtaaactttttaatGatgttctaatgttgacaact	13	16	7	5	0	1	3	0	3	1	0	1	3	1	3	0	1	2	3	0	1	5	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:103822279G>T	uc003hww.2	-	12	1665	c.1543C>A	c.(1543-1545)CAT>AAT	p.H515N	NHEDC1_uc003hwu.2_Intron|NHEDC1_uc010ilm.2_Intron|NHEDC1_uc003hwv.2_Intron|NHEDC1_uc011cev.1_Missense_Mutation_p.H288N	NM_139173	NP_631912	Q4ZJI4	NHDC1_HUMAN	Na+/H+ exchanger domain containing 1 isoform 1	515						integral to membrane	solute:hydrogen antiporter activity			ovary(1)|skin(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;1.5e-08)		ACTTTTTAATGATGTTCTAAT	0.363													12	93					1.45105e-14	1.63111e-14	0.006122	1	0		T	103822279	T	T	103822279	3	4	76	1	0	0	0	0	1	0	0	0	10419	1290	45	5	108	5	NHEDC1	4	103822279	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	8283074	103822279	87331997	197	49047											
TET2	54790	broad.mit.edu	37	chr4	106157081	106157081	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaccctcacaccaggtgcActtctccaaaacagaccatt	15	7	4	15	0	2	1	1	0	1	1	3	1	2	1	4	1	3	1	4	1	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:106157081A>G	uc003hxk.2	+	3	2368	c.1982A>G	c.(1981-1983)CAC>CGC	p.H661R	TET2_uc011cez.1_Missense_Mutation_p.H682R|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Missense_Mutation_p.H661R|TET2_uc003hxi.1_Missense_Mutation_p.H661R	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	661	Gln-rich.				cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		CACCAGGTGCACTTCTCCAAA	0.433			Mis N|F		MDS								13	47					0	0	0.001368	0	0		G	106157081	G	G	106157081	3	3	76	1	0	0	0	0	1	0	0	0	15795	159	6	3	1984	3	TET2	4	106157081	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	2334802	106157081	84997195	198	49048											
CCDC109B	55013	broad.mit.edu	37	chr4	110606496	110606496	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactttgatgtgcagcaataCaacaagttaaaagaagacct	17	9	7	8	0	0	3	0	1	0	2	0	3	0	3	1	0	4	3	1	0	7	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:110606496C>T	uc011cfs.1	+	7	1045	c.906C>T	c.(904-906)TAC>TAT	p.Y302Y		NM_017918	NP_060388	Q9NWR8	C109B_HUMAN	coiled-coil domain containing 109B	302	Potential.					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;6.65e-06)		TGCAGCAATACAACAAGTTAA	0.358													4	27					0	0	0.009096	0	0		T	110606496	T	T	110606496	2	4	76	1	0	0	0	0	0	0	0	1	2748	489	17	4		4	CCDC109B	4	110606496	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4449415	110606496	80547780	199	49049											
NDST4	64579	broad.mit.edu	37	chr4	115858656	115858656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgttgattggtattccatGttcctaaaacaaagccagaa	14	12	7	8	0	0	2	0	1	0	1	2	2	2	2	3	1	2	3	3	1	5	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:115858656G>A	uc003ibu.2	-	5	1904	c.1225C>T	c.(1225-1227)CAT>TAT	p.H409Y	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	409	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		GGTATTCCATGTTCCTAAAAC	0.383													13	47					0	0	0.001855	0	0		A	115858656	A	A	115858656	3	1	76	1	0	0	0	0	1	0	0	0	10277	1377	48	4	1433	4	NDST4	4	115858656	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	5252160	115858656	75295620	200	49050											
KIAA1109	84162	broad.mit.edu	37	chr4	123202741	123202741	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccactaccttctgaaaaaaCcccaacaagtgttaatcaaa	17	8	3	13	0	2	1	1	1	1	0	2	1	2	1	4	0	3	1	4	0	8	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:123202741C>A	uc003ieh.2	+	50	8894	c.8849C>A	c.(8848-8850)ACC>AAC	p.T2950N	KIAA1109_uc003iel.1_Missense_Mutation_p.T885N	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2950					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TCTGAAAAAACCCCAACAAGT	0.358													10	47					5.50884e-06	5.8278e-06	0.001368	1	0		A	123202741	A	A	123202741	3	1	76	1	0	0	0	0	1	0	0	0	8224	507	18	5	9047	5	KIAA1109	4	123202741	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	7344085	123202741	67951535	201	49051											
KIAA1109	84162	broad.mit.edu	37	chr4	123237962	123237962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggaagaaaaattatgaagCgtatagtggatatcagagaa	19	8	12	2	1	1	3	1	1	0	2	1	7	1	5	0	2	1	1	0	2	9	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:123237962C>T	uc003ieh.2	+	60	10660	c.10615C>T	c.(10615-10617)CGT>TGT	p.R3539C	KIAA1109_uc003iel.1_Missense_Mutation_p.R1474C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3539					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AATTATGAAGCGTATAGTGGA	0.363													14	44					0	0	0.00245	0	0		T	123237962	T	T	123237962	3	4	76	1	0	0	0	0	1	0	0	0	8224	768	27	1	10853	1	KIAA1109	4	123237962	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	35221	123237962	67916314	202	49052											
TBC1D9	23158	broad.mit.edu	37	chr4	141543721	141543721	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcatggaggagcaggccccGttgtcccggggcgaggagtc	7	5	18	11	3	0	0	0	0	0	0	2	4	1	3	3	6	2	3	3	6	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:141543721G>A	uc010ioj.2	-	21	3701	c.3429C>T	c.(3427-3429)AAC>AAT	p.N1143N		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	1143						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				AGCAGGCCCCGTTGTCCCGGG	0.637													22	94					0	0	0.00333	0	0		A	141543721	A	A	141543721	2	1	76	1	0	0	0	0	0	0	0	1	15652	1136	40	1		1	TBC1D9	4	141543721	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	18305759	141543721	49610555	203	49053											
DCLK2	166614	broad.mit.edu	37	chr4	151000236	151000236	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaacgggacaaaaggccGcggccggggtcgcggagagg	10	1	21	9	6	0	1	0	0	0	1	1	5	0	3	2	8	1	0	2	8	3	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:151000236G>A	uc003ilm.3	+	1	157	c.57G>A	c.(55-57)CCG>CCA	p.P19P	DCLK2_uc003iln.3_Silent_p.P19P|DCLK2_uc003ilo.3_Silent_p.P19P|DCLK2_uc003ilp.3_RNA	NM_001040260	NP_001035350	Q8N568	DCLK2_HUMAN	doublecortin-like kinase 2 isoform a	19					intracellular signal transduction	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)					ACAAAAGGCCGCGGCCGGGGT	0.706													6	17					0	0	0.001984	0	0		A	151000236	A	A	151000236	2	1	76	1	0	0	0	0	0	0	0	1	4295	1074	38	1		1	DCLK2	4	151000236	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	9456515	151000236	40154040	204	49054											
PET112L	5188	broad.mit.edu	37	chr4	152629223	152629223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctccccagggtgatgcacgGatatattggcatccactctc	8	10	10	13	1	1	1	0	1	1	0	4	2	3	2	3	3	1	3	3	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:152629223G>A	uc003iml.2	-	6	806	c.794C>T	c.(793-795)TCC>TTC	p.S265F	PET112L_uc003imm.3_Missense_Mutation_p.S265F	NM_004564	NP_004555	O75879	GATB_HUMAN	PET112-like precursor	265						mitochondrion	ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor|translation factor activity, nucleic acid binding				0	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)			L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GTGATGCACGGATATATTGGC	0.498													8	48					0	0	0.00308	0	0		A	152629223	A	A	152629223	3	1	76	1	0	0	0	0	1	0	0	0	11753	1174	41	4	911	4	PET112L	4	152629223	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1628987	152629223	38525053	205	49055											
LRAT	9227	broad.mit.edu	37	chr4	155665737	155665737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgacagacgacatggggCgcacgcagaaggtggtctcc	9	5	14	13	3	1	3	0	1	1	2	2	4	1	3	2	4	0	2	2	4	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:155665737C>T	uc003iom.1	+	1	586	c.259C>T	c.(259-261)CGC>TGC	p.R87C	uc003iol.2_Intron|LRAT_uc003ion.1_Missense_Mutation_p.R87C	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	87	Cytoplasmic (By similarity).				response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)	CGACATGGGGCGCACGCAGAA	0.602													11	56					0	0	0.008291	0	0		T	155665737	T	T	155665737	3	4	76	1	0	0	0	0	1	0	0	0	8948	768	27	1	261	1	LRAT	4	155665737	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3036514	155665737	35488539	206	49056											
NPY2R	4887	broad.mit.edu	37	chr4	156135336	156135336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcaaattcaagagcatgcGcacagtaaccaactttttca	15	10	6	10	1	3	1	3	0	0	1	3	2	3	1	1	0	4	3	1	0	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:156135336G>A	uc003ioq.2	+	2	740	c.245G>A	c.(244-246)CGC>CAC	p.R82H	NPY2R_uc003ior.2_Missense_Mutation_p.R82H	NM_000910	NP_000901	P49146	NPY2R_HUMAN	neuropeptide Y receptor Y2	82	Cytoplasmic (Potential).				cardiac left ventricle morphogenesis|inhibition of adenylate cyclase activity by G-protein signaling pathway|locomotory behavior|outflow tract morphogenesis	integral to plasma membrane	calcium channel regulator activity			lung(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0854)				AAGAGCATGCGCACAGTAACC	0.453													8	46					0	0	0.00308	0	0		A	156135336	A	A	156135336	3	1	76	1	0	0	0	0	1	0	0	0	10628	1087	38	1	247	1	NPY2R	4	156135336	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	469599	156135336	35018940	207	49057											
GRIA2	2891	broad.mit.edu	37	chr4	158233993	158233993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcgtgtaattctggactGtgaaagggataaagtaaacg	14	9	13	5	3	1	1	0	1	1	0	1	3	1	3	0	3	1	2	0	3	6	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:158233993G>A	uc003ipm.3	+	4	1091	c.632G>A	c.(631-633)TGT>TAT	p.C211Y	GRIA2_uc011cit.1_Missense_Mutation_p.C164Y|GRIA2_uc003ipl.3_Missense_Mutation_p.C211Y|GRIA2_uc003ipk.3_Missense_Mutation_p.C164Y|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	211	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	ATTCTGGACTGTGAAAGGGAT	0.368													19	84					0	0	0.010504	0	0		A	158233993	A	A	158233993	3	1	76	1	0	0	0	0	1	0	0	0	6784	1377	48	4	646	4	GRIA2	4	158233993	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2098657	158233993	32920283	208	49058											
FAM198B	51313	broad.mit.edu	37	chr4	159091771	159091771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggagcacagcgccaggtgCgcccccctccagcaccagca	8	2	12	19	3	0	0	0	0	0	0	1	1	1	1	6	2	5	3	6	2	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:159091771C>T	uc003ipp.3	-	2	1209	c.757G>A	c.(757-759)GCA>ACA	p.A253T	uc003ipu.1_5'Flank|FAM198B_uc003ipq.3_Missense_Mutation_p.A253T|FAM198B_uc003ipr.3_Missense_Mutation_p.A253T|FAM198B_uc003ips.2_Missense_Mutation_p.A253T|uc003ipt.1_5'Flank	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	253	Extracellular (Potential).					Golgi membrane|integral to membrane					0						GCGCCAGGTGCGCCCCCCTCC	0.637											OREG0016378	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	46					0	0	0.00245	0	0		T	159091771	T	T	159091771	3	4	76	1	0	0	0	0	1	0	0	0	5540	768	27	1	923	1	FAM198B	4	159091771	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	857778	159091771	32062505	209	49059											
RXFP1	59350	broad.mit.edu	37	chr4	159493936	159493936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgcttgcctcagctcctgCactgtaacggtgtggacgac	7	10	12	12	2	1	0	1	0	0	0	2	2	2	1	2	2	5	4	2	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:159493936C>T	uc003ipz.2	+	2	218	c.136C>T	c.(136-138)CAC>TAC	p.H46Y	RXFP1_uc010iqj.1_5'UTR|RXFP1_uc011cja.1_5'UTR|RXFP1_uc010iqo.2_Missense_Mutation_p.H46Y|RXFP1_uc011cjb.1_5'UTR|RXFP1_uc010iqk.2_5'UTR|RXFP1_uc011cjc.1_5'UTR|RXFP1_uc011cjd.1_5'UTR|RXFP1_uc010iql.2_5'UTR|RXFP1_uc011cje.1_Missense_Mutation_p.H46Y|RXFP1_uc010iqm.2_Missense_Mutation_p.H46Y|RXFP1_uc011cjf.1_5'UTR|RXFP1_uc010iqn.2_Intron	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	46	Extracellular (Potential).|LDL-receptor class A.					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		TCAGCTCCTGCACTGTAACGG	0.552													16	102					0	0	0.004007	0	0		T	159493936	T	T	159493936	3	4	76	1	0	0	0	0	1	0	0	0	13784	710	25	2	142	2	RXFP1	4	159493936	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	402165	159493936	31660340	210	49060											
RXFP1	59350	broad.mit.edu	37	chr4	159526258	159526258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataagaaagcttcctcctgAttgcttcaagaattatcatg	14	13	6	8	0	2	3	2	1	0	2	4	3	4	3	2	0	2	2	2	0	6	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:159526258A>G	uc003ipz.2	+	5	513	c.431A>G	c.(430-432)GAT>GGT	p.D144G	RXFP1_uc010iqj.1_5'UTR|RXFP1_uc011cja.1_Missense_Mutation_p.D63G|RXFP1_uc010iqo.2_Missense_Mutation_p.D144G|RXFP1_uc011cjb.1_Missense_Mutation_p.D90G|RXFP1_uc010iqk.2_5'UTR|RXFP1_uc011cjc.1_Missense_Mutation_p.D63G|RXFP1_uc011cjd.1_Missense_Mutation_p.D63G|RXFP1_uc010iql.2_5'UTR|RXFP1_uc011cje.1_Missense_Mutation_p.D171G|RXFP1_uc010iqm.2_Missense_Mutation_p.D111G|RXFP1_uc011cjf.1_Missense_Mutation_p.D14G|RXFP1_uc010iqn.2_Missense_Mutation_p.D90G	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	144	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		CTTCCTCCTGATTGCTTCAAG	0.294													4	19					0	0	0.009096	0	0		G	159526258	G	G	159526258	3	3	76	1	0	0	0	0	1	0	0	0	13784	333	12	3	449	3	RXFP1	4	159526258	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	32322	159526258	31628018	211	49061											
DDX60L	91351	broad.mit.edu	37	chr4	169336605	169336605	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgaaaatgatcaaaataaAcatcatcatgttttactgaa	19	12	5	5	0	3	3	3	3	0	0	3	4	3	3	0	0	2	1	0	0	8	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:169336605A>C	uc003irq.3	-	22	3154	c.2933T>G	c.(2932-2934)GTT>GGT	p.V978G	DDX60L_uc003irr.1_Missense_Mutation_p.V978G|DDX60L_uc003irs.1_Missense_Mutation_p.V673G	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	978							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		ATCAAAATAAACATCATCATG	0.333													5	22					0	0	0.001984	0	0		C	169336605	C	C	169336605	3	2	76	1	0	0	0	0	1	0	0	0	4382	43	2	5	2255	5	DDX60L	4	169336605	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	9810347	169336605	21817671	212	49062											
ADAM29	11086	broad.mit.edu	37	chr4	175898136	175898136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtggaagatggaattccctGtaaggagaggggctactgct	10	10	15	6	0	0	2	0	0	0	2	1	5	1	4	1	5	2	3	1	5	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:175898136G>A	uc003iuc.2	+	5	2130	c.1460G>A	c.(1459-1461)TGT>TAT	p.C487Y	ADAM29_uc003iud.2_Missense_Mutation_p.C487Y|ADAM29_uc010irr.2_Missense_Mutation_p.C487Y|ADAM29_uc011cki.1_Missense_Mutation_p.C487Y	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	487	Cys-rich.|Extracellular (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		GGAATTCCCTGTAAGGAGAGG	0.463													26	83					0	0	0.005443	0	0		A	175898136	A	A	175898136	3	1	76	1	0	0	0	0	1	0	0	0	247	1377	48	4	1462	4	ADAM29	4	175898136	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	6561531	175898136	15256140	213	49063											
ODZ3	55714	broad.mit.edu	37	chr4	183267894	183267894	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaatggggctccctcacaGaggttactctatcagtgcag	10	9	12	10	0	3	1	2	0	1	1	4	2	4	2	1	4	2	3	1	4	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:183267894G>T	uc003ivd.1	+	2	360	c.323G>T	c.(322-324)AGA>ATA	p.R108I	ODZ3_uc010irv.1_Missense_Mutation_p.R108I	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	108	Cytoplasmic (Potential).|Teneurin N-terminal.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CTCCCTCACAGAGGTTACTCT	0.493													5	22					0.000602214	0.000620638	0.000602	1	0		T	183267894	T	T	183267894	3	4	76	1	0	0	0	0	1	0	0	0	10855	942	33	5	329	5	ODZ3	4	183267894	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	7369758	183267894	7886382	214	49064											
STOX2	56977	broad.mit.edu	37	chr4	184930580	184930580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattgccccgaaaccactgcGactcttgccactgctgcaga	9	8	8	16	2	1	1	0	0	1	1	1	3	1	1	4	0	6	2	4	0	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:184930580G>A	uc003ivz.1	+	3	2024	c.589G>A	c.(589-591)GAC>AAC	p.D197N	STOX2_uc003iwa.1_5'UTR	NM_020225	NP_064610	Q9P2F5	STOX2_HUMAN	storkhead box 2	197					embryo development|maternal placenta development						0		all_lung(41;1.89e-12)|Lung NSC(41;3.48e-12)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|all_hematologic(60;0.027)|Prostate(90;0.0283)		all cancers(43;2.85e-26)|Epithelial(43;2.27e-22)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-10)|Colorectal(24;8.23e-06)|GBM - Glioblastoma multiforme(59;1.64e-05)|STAD - Stomach adenocarcinoma(60;3.6e-05)|COAD - Colon adenocarcinoma(29;4.37e-05)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.227)		AAACCACTGCGACTCTTGCCA	0.597													25	87					0	0	0.003954	0	0		A	184930580	A	A	184930580	3	1	76	1	0	0	0	0	1	0	0	0	15345	1058	37	1	599	1	STOX2	4	184930580	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1662686	184930580	6223696	215	49065											
ZFP42	132625	broad.mit.edu	37	chr4	188924176	188924176	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatgatttctcagactgttAcatagaatgcgtcataaggg	12	12	11	6	1	2	3	2	1	1	2	3	4	2	4	0	2	2	1	0	2	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:188924176A>G	uc003izg.1	+	3	460	c.215A>G	c.(214-216)TAC>TGC	p.Y72C	ZFP42_uc003izh.1_Missense_Mutation_p.Y72C|ZFP42_uc003izi.1_Missense_Mutation_p.Y72C	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	72					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		TCAGACTGTTACATAGAATGC	0.483													13	52					0	0	0.001368	0	0		G	188924176	G	G	188924176	3	3	76	1	0	0	0	0	1	0	0	0	17675	391	14	3	217	3	ZFP42	4	188924176	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	3993596	188924176	2230100	216	49066											
TRIML1	339976	broad.mit.edu	37	chr4	189068025	189068025	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgcctatctcgtgttgtcGgaggatctgaagagtgtgaa	10	12	13	6	2	2	3	0	2	2	1	4	5	2	5	1	2	1	1	1	2	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr4:189068025G>A	uc003izm.1	+	6	1021	c.906G>A	c.(904-906)TCG>TCA	p.S302S	TRIML1_uc003izn.1_Silent_p.S26S	NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	302	B30.2/SPRY.				multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		TCGTGTTGTCGGAGGATCTGA	0.517													23	139					0	0	0.00278	0	0		A	189068025	A	A	189068025	2	1	76	1	0	0	0	0	0	0	0	1	16576	1103	39	1		1	TRIML1	4	189068025	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	143849	189068025	2086251	217	49067											
CEP72	55722	broad.mit.edu	37	chr5	634017	634017	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcctcccgggagcacgAgcttcagccagaaggggcgt	8	4	16	13	3	1	1	1	0	0	1	2	3	2	2	3	4	3	3	3	4	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:634017A>G	uc003jbf.2	+	5	718	c.646A>G	c.(646-648)AGC>GGC	p.S216G	CEP72_uc011clz.1_Intron	NM_018140	NP_060610	Q9P209	CEP72_HUMAN	centrosomal protein 72 kDa	216					G2/M transition of mitotic cell cycle|gamma-tubulin complex localization|spindle organization	centrosome|cytosol				ovary(1)	1			Epithelial(17;0.000339)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|Lung(60;0.0863)			CGGGAGCACGAGCTTCAGCCA	0.627													28	134					0	0	0.007291	0	0		G	634017	G	G	634017	3	3	76	1	0	0	0	0	1	0	0	0	3263	304	11	3	664	3	CEP72	5	634017	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08		634017	180281243	218	49068											
ADAMTS16	170690	broad.mit.edu	37	chr5	5232586	5232586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccatgctccaggacctgcGgagggggagtatctcatagg	8	7	14	12	1	1	0	1	0	1	0	3	3	2	3	4	5	2	2	4	5	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:5232586G>A	uc003jdl.2	+	12	1945	c.1807G>A	c.(1807-1809)GGA>AGA	p.G603R	ADAMTS16_uc003jdk.1_Missense_Mutation_p.G603R|ADAMTS16_uc010itk.1_5'Flank	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	603	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CAGGACCTGCGGAGGGGGAGT	0.567													12	109					0	0	0.001368	0	0		A	5232586	A	A	5232586	3	1	76	1	0	0	0	0	1	0	0	0	261	1117	39	1	1853	1	ADAMTS16	5	5232586	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4598569	5232586	175682674	219	49069											
ADAMTS16	170690	broad.mit.edu	37	chr5	5303727	5303727	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtggaggaagcgggcagtgGcctgtaagagcaccaacccc	10	4	16	11	1	0	1	0	0	0	1	0	3	0	3	4	5	3	3	4	5	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:5303727G>A	uc003jdl.2	+	20	3172	c.3034G>A	c.(3034-3036)GCC>ACC	p.A1012T	ADAMTS16_uc003jdk.1_Missense_Mutation_p.A1012T	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1012	TSP type-1 4.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GCGGGCAGTGGCCTGTAAGAG	0.612													16	62					0	0	0.004007	0	0		A	5303727	A	A	5303727	3	1	76	1	0	0	0	0	1	0	0	0	261	1203	42	2	3112	2	ADAMTS16	5	5303727	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	71141	5303727	175611533	220	49070											
ADAMTS16	170690	broad.mit.edu	37	chr5	5306762	5306762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggaacgtgcctgcgcccCgcttccatgccccaggcacc	5	6	11	19	3	0	0	0	0	0	0	1	1	1	1	7	2	4	3	7	2	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:5306762C>T	uc003jdl.2	+	21	3470	c.3332C>T	c.(3331-3333)CCG>CTG	p.P1111L		NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1111	TSP type-1 5.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GCCTGCGCCCCGCTTCCATGC	0.612													6	38					0	0	0.001168	0	0		T	5306762	T	T	5306762	3	4	76	1	0	0	0	0	1	0	0	0	261	652	23	1	3414	1	ADAMTS16	5	5306762	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3035	5306762	175608498	221	49071											
SEMA5A	9037	broad.mit.edu	37	chr5	9122806	9122806	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgccagggccctcgcaCtgccagccaccacactgcgg	7	5	10	19	2	0	0	0	0	0	0	2	0	1	0	6	2	4	1	6	2	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:9122806C>T	uc003jek.2	-	14	2455	c.1743G>A	c.(1741-1743)CAG>CAA	p.Q581Q		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	581	Extracellular (Potential).|TSP type-1 1.				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						GGCCCTCGCACTGCCAGCCAC	0.627													27	67					0	0	0.005443	0	0		T	9122806	T	T	9122806	2	4	76	1	0	0	0	0	0	0	0	1	14062	564	20	4		4	SEMA5A	5	9122806	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3816044	9122806	171792454	222	49072											
DNAH5	1767	broad.mit.edu	37	chr5	13729585	13729585	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaactgtctgagtttgctaAgttccaccaaattcagccat	13	12	6	10	0	2	1	1	1	1	0	3	1	3	1	3	0	3	3	3	0	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:13729585A>C	uc003jfd.2	-	69	11888	c.11846T>G	c.(11845-11847)CTT>CGT	p.L3949R	DNAH5_uc003jfc.2_Missense_Mutation_p.L117R	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3949					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GAGTTTGCTAAGTTCCACCAA	0.383									Kartagener_syndrome				17	70					0	0	0.007413	0	0		C	13729585	C	C	13729585	3	2	76	1	0	0	0	0	1	0	0	0	4610	72	3	5	2072	5	DNAH5	5	13729585	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	4606779	13729585	167185675	223	49073											
DNAH5	1767	broad.mit.edu	37	chr5	13751371	13751371	+	Splice_Site	DEL	T	-	-																															ccttgtcaccaactttcaccTtttttataaaaagaaattta																										TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:13751371delT	uc003jfd.2	-	65	11071	c.11029_splice	c.e65-1	p.V3677_splice	DNAH5_uc003jfc.2_Splice_Site	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5						microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AACTTTCACCttttttataaa	0.318									Kartagener_syndrome				5	9	---	---	---	---						.	-	13751371	-	-	13751371	8	5	76	1	0	1	0	1	0	0	1	0	4610	1623	56	0	2907	0	DNAH5	5	13751371	Splice_Site	DEL	T	TCGA-BR-8382-01A-11D-2394-08	21786	13751371	167163889	224	49074											
TRIO	7204	broad.mit.edu	37	chr5	14498708	14498708	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtgcatcgctgtcaatgAcatgggttcagcctcatcgt	8	11	10	12	3	3	1	3	1	0	0	5	1	3	1	1	1	2	3	1	1	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:14498708A>C	uc003jff.2	+	53	8297	c.8291A>C	c.(8290-8292)GAC>GCC	p.D2764A	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2764	Ig-like C2-type.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GCTGTCAATGACATGGGTTCA	0.582													29	123					0	0	0.00632	0	0		C	14498708	C	C	14498708	3	2	76	1	0	0	0	0	1	0	0	0	16578	275	10	5	8501	5	TRIO	5	14498708	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	747337	14498708	166416552	225	49075											
C5orf42	65250	broad.mit.edu	37	chr5	37183092	37183092	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgctaaaggaagatcttCttgagggttaatatcattgc	12	14	10	5	0	3	2	1	1	2	1	3	3	3	3	0	2	2	2	0	2	6	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:37183092C>A	uc011cpa.1	-	26	5422	c.5191G>T	c.(5191-5193)GAA>TAA	p.E1731*	C5orf42_uc011coy.1_Nonsense_Mutation_p.E232*|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Nonsense_Mutation_p.E806*|C5orf42_uc011cpb.1_Nonsense_Mutation_p.E612*	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1731										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			GGAAGATCTTCTTGAGGGTTA	0.373													11	48					1.58986e-06	1.69188e-06	0.008291	1	0		A	37183092	A	A	37183092	4	1	76	1	0	0	0	0	0	1	0	0	2304	922	32	5	4510	5	C5orf42	5	37183092	Nonsense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	22684384	37183092	143732168	226	49076											
RICTOR	253260	broad.mit.edu	37	chr5	38960545	38960545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaactggcaacctacaacCgtgagctgtttggccttggc	9	10	11	11	1	0	1	0	1	0	0	0	1	0	1	3	3	5	4	3	3	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:38960545C>T	uc003jlp.2	-	20	1830	c.1806G>A	c.(1804-1806)ACG>ACA	p.T602T	RICTOR_uc003jlo.2_Silent_p.T602T|RICTOR_uc010ivf.2_Silent_p.T317T	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	602					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					AACCTACAACCGTGAGCTGTT	0.378													18	78					0	0	0.010504	0	0		T	38960545	T	T	38960545	2	4	76	1	0	0	0	0	0	0	0	1	13383	639	23	1		1	RICTOR	5	38960545	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1777453	38960545	141954715	227	49077											
MGC42105	167359	broad.mit.edu	37	chr5	43280418	43280418	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgtcagagccctgccacCgactcatccgaggagtcctt	8	8	10	15	3	2	1	2	0	0	1	4	4	4	2	5	1	2	0	5	1	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:43280418C>T	uc003jno.2	+	4	1779	c.898C>T	c.(898-900)CGA>TGA	p.R300*		NM_153361	NP_699192	Q8IY84	NIM1_HUMAN	serine/threonine-protein kinase NIM1	300	Protein kinase.						ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|stomach(1)|large_intestine(1)|breast(1)	9						GCCCTGCCACCGACTCATCCG	0.557													23	75					0	0	0.002299	0	0		T	43280418	T	T	43280418	4	4	76	1	0	0	0	0	0	1	0	0	9570	644	23	1	908	1	MGC42105	5	43280418	Nonsense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4319873	43280418	137634842	228	49078											
PDE4D	5144	broad.mit.edu	37	chr5	59284456	59284456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagggggaagctgaatattgCgacatgaaagtctccggaca	13	7	14	7	2	1	2	0	2	1	0	2	6	1	4	1	3	2	1	1	3	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:59284456C>T	uc003jsb.2	-	3	344	c.131G>A	c.(130-132)CGC>CAC	p.R44H	PDE4D_uc010iwj.1_Missense_Mutation_p.R44H|PDE4D_uc003jse.1_Missense_Mutation_p.R56H	NM_006203	NP_006194	Q08499	PDE4D_HUMAN	phosphodiesterase 4D isoform 2	Error:Variant_position_missing_in_Q08499_after_alignment					signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)	CTGAATATTGCGACATGAAAG	0.483													22	80					0	0	0.002299	0	0		T	59284456	T	T	59284456	3	4	76	1	0	0	0	0	1	0	0	0	11661	768	27	1	2685	1	PDE4D	5	59284456	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	16004038	59284456	121630804	229	49079											
HTR1A	3350	broad.mit.edu	37	chr5	63257400	63257400	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgcattgcccagcaccgcGcagaagatgagcgtgcccag	10	4	12	15	4	0	3	0	1	0	2	0	3	0	3	3	0	4	3	3	0	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:63257400G>A	uc011cqt.1	-	1	147	c.147C>T	c.(145-147)TGC>TGT	p.C49C		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	49	Helical; Name=1; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	CCAGCACCGCGCAGAAGATGA	0.607													6	66					0	0	0.001168	0	0		A	63257400	A	A	63257400	2	1	76	1	0	0	0	0	0	0	0	1	7452	1079	38	1		1	HTR1A	5	63257400	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3972944	63257400	117657860	230	49080											
ZNF366	167465	broad.mit.edu	37	chr5	71756924	71756924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtagaattggaagcccaCgttgcacaggtcgatcatct	10	9	12	10	3	2	1	1	0	1	1	3	3	2	2	1	3	2	3	1	3	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:71756924C>T	uc003kce.1	-	2	586	c.400G>A	c.(400-402)GTG>ATG	p.V134M		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	134					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		TGGAAGCCCACGTTGCACAGG	0.607													28	156					0	0	0.008361	0	0		T	71756924	T	T	71756924	3	4	76	1	0	0	0	0	1	0	0	0	17895	536	19	1	1850	1	ZNF366	5	71756924	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	8499524	71756924	109158336	231	49081											
GFM2	84340	broad.mit.edu	37	chr5	74034388	74034388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatagtgcctgagtaaatgcGcataaaaaccagtggtcctc	13	10	9	9	1	0	1	0	1	0	0	2	1	1	1	3	1	3	2	3	1	7	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:74034388G>A	uc003kdh.1	-	13	1463	c.1159C>T	c.(1159-1161)CGC>TGC	p.R387C	GFM2_uc003kdi.1_Intron|GFM2_uc010izj.1_Missense_Mutation_p.R419C|GFM2_uc010izk.1_RNA|GFM2_uc003kdj.1_Missense_Mutation_p.R387C	NM_032380	NP_115756	Q969S9	RRF2M_HUMAN	mitochondrial elongation factor G2 isoform 1	387					mitochondrial translation|ribosome disassembly	mitochondrion	GTP binding|GTPase activity				0		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.86e-56)		GAGTAAATGCGCATAAAAACC	0.363													11	67					0	0	0.000978	0	0		A	74034388	A	A	74034388	3	1	76	1	0	0	0	0	1	0	0	0	6357	1087	38	1	1248	1	GFM2	5	74034388	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2277464	74034388	106880872	232	49082											
COL4A3BP	10087	broad.mit.edu	37	chr5	74681746	74681746	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcccagtcattgcgaacGtcaacattccagaaataatt	13	12	5	11	2	2	1	2	0	0	1	4	2	4	1	2	0	3	0	2	0	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:74681746G>A	uc011csu.1	-	13	1820	c.1398C>T	c.(1396-1398)GAC>GAT	p.D466D	COL4A3BP_uc003kds.2_Silent_p.D440D|COL4A3BP_uc003kdt.2_Silent_p.D594D|COL4A3BP_uc003kdu.2_Silent_p.D466D	NM_005713	NP_005704	Q9Y5P4	C43BP_HUMAN	alpha 3 type IV collagen binding protein isoform	466	START.				ER to Golgi ceramide transport|immune response	cytosol|endoplasmic reticulum membrane|Golgi apparatus	ceramide binding|phosphatidylinositol-4-phosphate binding|protein binding|protein kinase activity			skin(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;1e-53)		CATTGCGAACGTCAACATTCC	0.333													3	15					0	0	0.004672	0	0		A	74681746	A	A	74681746	2	1	76	1	0	0	0	0	0	0	0	1	3695	1136	40	1		1	COL4A3BP	5	74681746	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	647358	74681746	106233514	233	49083											
TTC37	9652	broad.mit.edu	37	chr5	94852450	94852450	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtctcactgcttttttcAgacactgaaaagaagttaaa	14	12	7	8	1	2	3	2	1	1	2	3	4	2	3	0	0	1	2	0	0	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:94852450A>G	uc003klb.2	-	23	2711	c.2441T>C	c.(2440-2442)CTG>CCG	p.L814P		NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	814	TPR 13.						binding			ovary(3)|pancreas(1)	4						TGCTTTTTTCAGACACTGAAA	0.318													7	18					0	0	0.001984	0	0		G	94852450	G	G	94852450	3	3	76	1	0	0	0	0	1	0	0	0	16731	188	7	3	2337	3	TTC37	5	94852450	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	20170704	94852450	86062810	234	49084											
SLCO6A1	133482	broad.mit.edu	37	chr5	101834417	101834417	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agataccggtgttttttcccGggcttcgaggacttcggggt	5	13	14	9	4	0	1	0	0	0	1	3	3	1	2	2	5	1	2	2	5	1	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:101834417G>A	uc003knn.2	-	1	304	c.132C>T	c.(130-132)CCC>CCT	p.P44P	SLCO6A1_uc003kno.2_Silent_p.P44P|SLCO6A1_uc003knp.2_Silent_p.P44P|SLCO6A1_uc003knq.2_Silent_p.P44P	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	44	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		GTTTTTTCCCGGGCTTCGAGG	0.572													59	290					0	0	0.00361	0	0		A	101834417	A	A	101834417	2	1	76	1	0	0	0	0	0	0	0	1	14757	1103	39	1		1	SLCO6A1	5	101834417	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	6981967	101834417	79080843	235	49085											
MCC	4163	broad.mit.edu	37	chr5	112399732	112399732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggctgcacgctgcagccgGccacggcaaaggctccccca	8	3	13	17	3	0	0	0	0	0	0	1	0	1	0	4	4	3	6	4	4	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:112399732G>A	uc003kqj.3	-	12	2122	c.1592C>T	c.(1591-1593)GCC>GTC	p.A531V	MCC_uc003kqk.3_RNA|MCC_uc003kql.3_Missense_Mutation_p.A721V|MCC_uc011cwb.1_Missense_Mutation_p.A531V	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2	531					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		GCTGCAGCCGGCCACGGCAAA	0.627													19	112					0	0	0.008871	0	0		A	112399732	A	A	112399732	3	1	76	1	0	0	0	0	1	0	0	0	9391	1203	42	2	921	2	MCC	5	112399732	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	10565315	112399732	68515528	236	49086											
SLC12A2	6558	broad.mit.edu	37	chr5	127487003	127487003	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaattctttgttgcatagtAatgttcgtcattaactggtg	9	17	9	6	1	2	0	1	0	1	0	3	0	2	0	0	1	2	5	0	1	4	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:127487003A>T	uc003kus.2	+	14	2342	c.2178A>T	c.(2176-2178)GTA>GTT	p.V726V	SLC12A2_uc010jdf.2_RNA|SLC12A2_uc010jdg.2_Silent_p.V726V	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12	726	Helical; (Potential).				potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	GTTGCATAGTAATGTTCGTCA	0.368													18	74					0	0	0.008871	0	0		T	127487003	T	T	127487003	2	4	76	1	0	0	0	0	0	0	0	1	14408	349	13	5		5	SLC12A2	5	127487003	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	15087271	127487003	53428257	237	49087											
ADAMTS19	171019	broad.mit.edu	37	chr5	129037216	129037216	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggactgcattgggcccaaGcccgcctctgcccagcgctg	6	6	13	16	2	1	0	0	0	1	0	1	1	1	1	4	2	4	2	4	2	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:129037216G>T	uc003kvb.1	+	20	3072	c.3072G>T	c.(3070-3072)AAG>AAT	p.K1024N	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1024	TSP type-1 3.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		TTGGGCCCAAGCCCGCCTCTG	0.582													14	70					2.32078e-09	2.54249e-09	0.003163	1	0		T	129037216	T	T	129037216	3	4	76	1	0	0	0	0	1	0	0	0	264	962	34	5	3150	5	ADAMTS19	5	129037216	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1550213	129037216	51878044	238	49088											
PDLIM4	8572	broad.mit.edu	37	chr5	131606734	131606734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccctcacaatggcagcagcGaggccaccctgccagcccag	9	4	10	18	1	1	0	1	0	0	0	2	1	2	0	5	2	4	2	5	2	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:131606734G>A	uc003kwn.2	+	4	531	c.454G>A	c.(454-456)GAG>AAG	p.E152K	uc003kwm.3_Intron|PDLIM4_uc003kwp.2_Missense_Mutation_p.E152K|PDLIM4_uc003kwo.2_Missense_Mutation_p.E152K	NM_003687	NP_003678	P50479	PDLI4_HUMAN	PDZ and LIM domain 4 isoform 1	152							protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TGGCAGCAGCGAGGCCACCCT	0.622													59	169					0	0	0.00361	0	0		A	131606734	A	A	131606734	3	1	76	1	0	0	0	0	1	0	0	0	11701	1059	37	1	468	1	PDLIM4	5	131606734	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2569518	131606734	49308526	239	49089											
RAD50	10111	broad.mit.edu	37	chr5	131973851	131973851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggcggaattataactaccGagtggtgatgctgaagggag	13	8	15	5	2	0	2	0	2	0	0	0	5	0	4	1	4	3	1	1	4	6	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:131973851G>A	uc003kxi.2	+	23	3941	c.3554G>A	c.(3553-3555)CGA>CAA	p.R1185Q	RAD50_uc003kxh.2_Missense_Mutation_p.R1046Q	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	1185					DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TATAACTACCGAGTGGTGATG	0.453								Homologous_recombination					18	47					0	0	0.008871	0	0		A	131973851	A	A	131973851	3	1	76	1	0	0	0	0	1	0	0	0	13009	1058	37	1	3644	1	RAD50	5	131973851	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	367117	131973851	48941409	240	49090											
KIF3A	11127	broad.mit.edu	37	chr5	132061858	132061858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccttgcccaaaaggtcacGaacttcttcattatatattt	12	15	4	10	1	3	0	2	0	1	0	4	1	4	0	2	1	2	0	2	1	6	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:132061858G>A	uc003kxo.2	-	4	626	c.472C>T	c.(472-474)CGT>TGT	p.R158C	KIF3A_uc003kxn.2_Missense_Mutation_p.R117C|KIF3A_uc011cxf.1_Missense_Mutation_p.R158C|KIF3A_uc003kxp.2_Missense_Mutation_p.R158C	NM_007054	NP_008985	Q9Y496	KIF3A_HUMAN	kinesin family member 3A	158	Kinesin-motor.				blood coagulation|organelle organization|plus-end-directed vesicle transport along microtubule	centrosome|cytosol|kinesin II complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|protein binding			pancreas(1)	1		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AAAAGGTCACGAACTTCTTCA	0.303													5	36					0	0	0.000602	0	0		A	132061858	A	A	132061858	3	1	76	1	0	0	0	0	1	0	0	0	8316	1058	37	1	1683	1	KIF3A	5	132061858	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	88007	132061858	48853402	241	49091											
TRPC7	57113	broad.mit.edu	37	chr5	135567162	135567162	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctcgatgaatttgtggtcGtatttcagcaccactgagat	9	15	9	8	2	2	2	1	2	1	1	4	4	2	2	1	1	1	2	1	1	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:135567162G>A	uc003lbn.1	-	7	1920	c.1917C>T	c.(1915-1917)TAC>TAT	p.Y639Y	TRPC7_uc010jef.1_Silent_p.Y576Y|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Silent_p.Y570Y|TRPC7_uc010jei.1_Silent_p.Y515Y|TRPC7_uc010jej.1_Silent_p.Y191Y	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	640	Extracellular (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ATTTGTGGTCGTATTTCAGCA	0.403													4	15					0	0	0.009096	0	0		A	135567162	A	A	135567162	2	1	76	1	0	0	0	0	0	0	0	1	16610	1140	40	1		1	TRPC7	5	135567162	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3505304	135567162	45348098	242	49092											
GFRA3	2676	broad.mit.edu	37	chr5	137599951	137599951	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctataatgggagcctcaccAaggctgcgggcacggtgaac	10	7	13	11	2	2	1	1	1	1	0	2	2	2	2	2	4	3	2	2	4	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:137599951A>G	uc003lcn.2	-	2	518	c.378T>C	c.(376-378)CTT>CTC	p.L126L	GFRA3_uc003lco.2_Silent_p.L126L	NM_001496	NP_001487	O60609	GFRA3_HUMAN	GDNF family receptor alpha 3 preproprotein	126					peripheral nervous system development	anchored to membrane|cytoplasm|extrinsic to membrane|intracellular membrane-bounded organelle	receptor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			GAGCCTCACCAAGGCTGCGGG	0.537													10	68					0	0	0.008291	0	0		G	137599951	G	G	137599951	2	3	76	1	0	0	0	0	0	0	0	1	6364	144	5	3		3	GFRA3	5	137599951	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	2032789	137599951	43315309	243	49093											
GFRA3	2676	broad.mit.edu	37	chr5	137599991	137599991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtccaatagatgtccaagCaggcaacctggttcttcatg	10	10	10	11	1	2	1	1	0	1	1	4	1	4	1	3	3	2	3	3	3	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:137599991C>T	uc003lcn.2	-	2	478	c.338G>A	c.(337-339)TGC>TAC	p.C113Y	GFRA3_uc003lco.2_Missense_Mutation_p.C113Y	NM_001496	NP_001487	O60609	GFRA3_HUMAN	GDNF family receptor alpha 3 preproprotein	113					peripheral nervous system development	anchored to membrane|cytoplasm|extrinsic to membrane|intracellular membrane-bounded organelle	receptor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			GATGTCCAAGCAGGCAACCTG	0.572													10	73					0	0	0.008291	0	0		T	137599991	T	T	137599991	3	4	76	1	0	0	0	0	1	0	0	0	6364	710	25	2	892	2	GFRA3	5	137599991	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	40	137599991	43315269	244	49094											
KDM3B	51780	broad.mit.edu	37	chr5	137708479	137708479	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtatgggcgccccgtgaggaCccagtccttctccagggcat	6	8	13	14	2	1	1	0	1	1	0	3	2	2	2	5	3	0	2	5	3	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:137708479C>T	uc003lcy.1	+	2	509	c.309C>T	c.(307-309)GAC>GAT	p.D103D	KDM3B_uc010jew.1_5'UTR	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	103					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						CCCGTGAGGACCCAGTCCTTC	0.522													8	55					0	0	0.00308	0	0		T	137708479	T	T	137708479	2	4	76	1	0	0	0	0	0	0	0	1	8143	506	18	4		4	KDM3B	5	137708479	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	108488	137708479	43206781	245	49095											
PCDHA7	56141	broad.mit.edu	37	chr5	140215698	140215698	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggcactggtggcgcagTgagagagcttgtgccgcggt	5	8	20	8	3	0	2	0	1	0	1	0	3	0	2	1	5	2	3	1	5	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140215698T>C	uc003lhq.2	+	1	1730	c.1730T>C	c.(1729-1731)GTG>GCG	p.V577A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.V577A	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	577	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGGCGCAGTGAGAGAGCTT	0.652													37	151					0	0	0.003755	0	0		C	140215698	C	C	140215698	3	2	76	1	0	0	0	0	1	0	0	0	11548	1696	59	3	1732	3	PCDHA7	5	140215698	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2507219	140215698	40699562	246	49096											
PCDHA8	56140	broad.mit.edu	37	chr5	140222458	140222458	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacggagagcggcaaggtgTacgcgctgcagccgctggac	9	4	16	12	5	0	1	0	0	0	1	0	3	0	2	1	4	4	5	1	4	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140222458T>C	uc003lhs.2	+	1	1552	c.1552T>C	c.(1552-1554)TAC>CAC	p.Y518H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.Y518H	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	518	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGCAAGGTGTACGCGCTGCA	0.682													56	271					0	0	0.00361	0	0		C	140222458	C	C	140222458	3	2	76	1	0	0	0	0	1	0	0	0	11549	1638	57	3	1554	3	PCDHA8	5	140222458	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	6760	140222458	40692802	247	49097											
PCDHA11	56138	broad.mit.edu	37	chr5	140249249	140249249	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattcaccaacaaatggtaaGcagattaaaagactgtcact	17	9	7	8	0	2	2	2	0	0	2	2	3	2	2	1	1	2	2	1	1	5	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140249249G>A	uc003lia.2	+	1	1419	c.561G>A	c.(559-561)AAG>AAA	p.K187K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Silent_p.K187K	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	187	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAAATGGTAAGCAGATTAAAA	0.383													5	71					0	0	0.000602	0	0		A	140249249	A	A	140249249	2	1	76	1	0	0	0	0	0	0	0	1	11540	962	34	2		2	PCDHA11	5	140249249	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	26791	140249249	40666011	248	49098											
PCDHA12	56137	broad.mit.edu	37	chr5	140256404	140256404	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggaggtggccgacgtgaaCgacaatgcgcctgcgttcgc	7	7	16	11	6	0	1	0	1	0	0	1	4	0	2	2	3	3	1	2	3	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140256404C>T	uc003lic.2	+	1	1474	c.1347C>T	c.(1345-1347)AAC>AAT	p.N449N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.N449N	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	449	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGACGTGAACGACAATGCGC	0.657													51	218					0	0	0.00361	0	0		T	140256404	T	T	140256404	2	4	76	1	0	0	0	0	0	0	0	1	11541	535	19	1		1	PCDHA12	5	140256404	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	7155	140256404	40658856	249	49099											
PCDHA12	56137	broad.mit.edu	37	chr5	140257030	140257030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggaccacggtgagcccgCgctgacgtccacggccacgg	8	3	15	15	6	0	2	0	2	0	0	1	4	1	3	4	4	1	1	4	4	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140257030C>T	uc003lic.2	+	1	2100	c.1973C>T	c.(1972-1974)GCG>GTG	p.A658V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.A658V	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	658	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGAGCCCGCGCTGACGTCC	0.692													11	75					0	0	0.000978	0	0		T	140257030	T	T	140257030	3	4	76	1	0	0	0	0	1	0	0	0	11541	768	27	1	1975	1	PCDHA12	5	140257030	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	626	140257030	40658230	250	49100											
PCDHAC2	56134	broad.mit.edu	37	chr5	140346798	140346798	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaactcaccgcgtttcccGcggcccaactaccagcttca	9	7	7	18	4	2	0	2	0	0	0	3	1	3	0	4	1	4	2	4	1	3	3	rs139717123		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140346798G>A	uc003lii.2	+	1	687	c.447G>A	c.(445-447)CCG>CCA	p.P149P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Silent_p.P149P	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	149	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGTTTCCCGCGGCCCAACT	0.617													13	58					0	0	0.001368	0	0		A	140346798	A	A	140346798	2	1	76	1	0	0	0	0	0	0	0	1	11552	1074	38	1		1	PCDHAC2	5	140346798	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	89768	140346798	40568462	251	49101											
PCDHB2	56133	broad.mit.edu	37	chr5	140474496	140474496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctattcagtggccgaggaaaCggagagtggctcctttgtgg	8	10	15	8	2	1	1	1	0	0	1	2	4	2	2	2	5	1	1	2	5	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140474496C>T	uc003lil.2	+	1	260	c.122C>T	c.(121-123)ACG>ATG	p.T41M	PCDHB2_uc003lim.1_Intron	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	41	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCGAGGAAACGGAGAGTGGC	0.512													10	62					0	0	0.006214	0	0		T	140474496	T	T	140474496	3	4	76	1	0	0	0	0	1	0	0	0	11561	536	19	1	124	1	PCDHB2	5	140474496	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	127698	140474496	40440764	252	49102											
PCDHB3	56132	broad.mit.edu	37	chr5	140480564	140480564	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacattttcagatattactgCaaaaccctttgcaattcgtt	12	16	4	9	1	1	1	1	0	0	1	2	1	1	1	1	0	5	3	1	0	6	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140480564C>T	uc003lio.2	+	1	331	c.331C>T	c.(331-333)CAA>TAA	p.Q111*	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	111	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GATATTACTGCAAAACCCTTT	0.418													24	83					0	0	0.00278	0	0		T	140480564	T	T	140480564	4	4	76	1	0	0	0	0	0	1	0	0	11562	711	25	2	333	2	PCDHB3	5	140480564	Nonsense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	6068	140480564	40434696	253	49103											
PCDHB3	56132	broad.mit.edu	37	chr5	140482112	140482112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatggcgaagtgcgcaccGccaggctgctgagcgagcgc	9	4	15	13	5	0	1	0	1	0	0	0	3	0	1	2	2	4	3	2	2	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140482112G>A	uc003lio.2	+	1	1879	c.1879G>A	c.(1879-1881)GCC>ACC	p.A627T	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	627	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGTGCGCACCGCCAGGCTGCT	0.701													40	187					0	0	0.007835	0	0		A	140482112	A	A	140482112	3	1	76	1	0	0	0	0	1	0	0	0	11562	1087	38	1	1881	1	PCDHB3	5	140482112	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1548	140482112	40433148	254	49104											
PCDHB16	57717	broad.mit.edu	37	chr5	140564388	140564388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcccagagctaccaatacGaggtgtgtctgacaggaggc	10	8	13	10	1	1	2	0	1	1	1	2	4	2	3	2	3	3	1	2	3	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140564388G>A	uc003liv.2	+	1	3409	c.2254G>A	c.(2254-2256)GAG>AAG	p.E752K	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	752	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTACCAATACGAGGTGTGTCT	0.572													37	171					0	0	0.004289	0	0		A	140564388	A	A	140564388	3	1	76	1	0	0	0	0	1	0	0	0	11560	1059	37	1	2256	1	PCDHB16	5	140564388	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	82276	140564388	40350872	255	49105											
PCDHB11	56125	broad.mit.edu	37	chr5	140580935	140580935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcaggctttcgacttcCgcgtgggcgccacagaccgc	5	7	12	17	5	0	1	0	0	0	1	2	2	1	1	4	2	1	2	4	2	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140580935C>T	uc003liy.2	+	1	1588	c.1588C>T	c.(1588-1590)CGC>TGC	p.R530C	PCDHB11_uc011daj.1_Missense_Mutation_p.R165C	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	530	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTTCGACTTCCGCGTGGGCGC	0.672													49	177					0	0	0.00361	0	0		T	140580935	T	T	140580935	3	4	76	1	0	0	0	0	1	0	0	0	11555	652	23	1	1590	1	PCDHB11	5	140580935	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	16547	140580935	40334325	256	49106											
PCDHB12	56124	broad.mit.edu	37	chr5	140590609	140590609	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggtgctcctgttcgtggcGgtgcggctgtgcaggaggag	3	10	19	9	4	0	0	0	0	0	0	3	2	1	2	1	6	3	4	1	6	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140590609G>A	uc003liz.2	+	1	2319	c.2130G>A	c.(2128-2130)GCG>GCA	p.A710A	PCDHB12_uc011dak.1_Silent_p.A373A|PCDHB13_uc003lja.1_5'Flank	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	710	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGTTCGTGGCGGTGCGGCTGT	0.692													65	252					0	0	0.00361	0	0		A	140590609	A	A	140590609	2	1	76	1	0	0	0	0	0	0	0	1	11556	1103	39	1		1	PCDHB12	5	140590609	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	9674	140590609	40324651	257	49107											
PCDHB15	56121	broad.mit.edu	37	chr5	140626606	140626606	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggcaccaacgcccaggtcaCctactcgctgctgccgcccc	6	5	10	20	3	1	0	1	0	0	0	2	0	1	0	6	2	4	3	6	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140626606C>A	uc003lje.2	+	1	1460	c.1460C>A	c.(1459-1461)ACC>AAC	p.T487N		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	487	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCCAGGTCACCTACTCGCTG	0.657													36	199					4.01344e-20	4.52561e-20	0.00361	1	0		A	140626606	A	A	140626606	3	1	76	1	0	0	0	0	1	0	0	0	11559	507	18	5	1462	5	PCDHB15	5	140626606	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	35997	140626606	40288654	258	49108											
PCDHGB3	56102	broad.mit.edu	37	chr5	140751609	140751609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccaacgtgagcctgcgcGtgttggtggacgaccgcaac	7	6	15	13	6	0	1	0	1	0	0	0	3	0	2	3	2	4	2	3	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140751609G>A	uc003ljw.1	+	1	1648	c.1648G>A	c.(1648-1650)GTG>ATG	p.V550M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.V550M|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	550	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGCCTGCGCGTGTTGGTGGA	0.667													5	59					0	0	0.001168	0	0		A	140751609	A	A	140751609	3	1	76	1	0	0	0	0	1	0	0	0	11583	1145	40	1	1650	1	PCDHGB3	5	140751609	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	125003	140751609	40163651	259	49109											
PCDHGA7	56108	broad.mit.edu	37	chr5	140764749	140764749	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgaggtctccctcaccgcGgactctcggaagagtcacct	8	8	10	15	3	4	2	2	1	2	1	6	4	4	4	3	3	0	0	3	3	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140764749G>A	uc003lka.1	+	1	2283	c.2283G>A	c.(2281-2283)GCG>GCA	p.A761A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGB4_uc003lkc.1_5'Flank|PCDHGA7_uc003ljz.1_Silent_p.A761A|PCDHGB4_uc011dav.1_5'Flank	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	761	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTCACCGCGGACTCTCGGA	0.557													28	163					0	0	0.003271	0	0		A	140764749	A	A	140764749	2	1	76	1	0	0	0	0	0	0	0	1	11578	1103	39	1		1	PCDHGA7	5	140764749	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	13140	140764749	40150511	260	49110											
PCDHGA9	56107	broad.mit.edu	37	chr5	140783914	140783914	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctacctcccggaaaacaaCgccagaggtacttccatctt	11	9	7	14	2	2	1	0	0	2	1	4	2	4	2	4	2	4	1	4	2	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140783914C>T	uc003lkh.1	+	1	1395	c.1395C>T	c.(1393-1395)AAC>AAT	p.N465N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Silent_p.N465N	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	465	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGAAAACAACGCCAGAGGTA	0.463													16	44					0	0	0.00499	0	0		T	140783914	T	T	140783914	2	4	76	1	0	0	0	0	0	0	0	1	11580	535	19	1		1	PCDHGA9	5	140783914	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	19165	140783914	40131346	261	49111											
PCDHGC5	56097	broad.mit.edu	37	chr5	140870540	140870540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacactcagccccccagcGtctccctcgctctgctcctc	5	8	7	21	2	3	0	1	0	2	0	7	1	4	1	5	1	4	2	5	1	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:140870540G>A	uc003lla.1	+	1	1733	c.1733G>A	c.(1732-1734)CGT>CAT	p.R578H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc003lky.1_Intron|PCDHGC5_uc011dbc.1_Missense_Mutation_p.R578H	NM_018929	NP_061752	Q9Y5F6	PCDGM_HUMAN	protocadherin gamma subfamily C, 5 isoform 1	578	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCCCCCAGCGTCTCCCTCGC	0.587													15	75					0	0	0.00499	0	0		A	140870540	A	A	140870540	3	1	76	1	0	0	0	0	1	0	0	0	11590	1145	40	1	1735	1	PCDHGC5	5	140870540	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	86626	140870540	40044720	262	49112											
FBXO38	81545	broad.mit.edu	37	chr5	147778563	147778563	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttctttctctcacaaaggTacctccctctgcaggatatc	8	14	6	13	0	4	0	1	0	3	0	7	1	5	1	2	2	2	3	2	2	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:147778563T>C	uc003lpf.1	+	3	250	c.130T>C	c.(130-132)TAC>CAC	p.Y44H	FBXO38_uc003lpg.1_Missense_Mutation_p.Y44H|FBXO38_uc003lph.2_Missense_Mutation_p.Y44H	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	44	F-box.					cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCACAAAGGTACCTCCCTCT	0.403													6	68					0	0	0.001984	0	0		C	147778563	C	C	147778563	3	2	76	1	0	0	0	0	1	0	0	0	5760	1652	57	3	136	3	FBXO38	5	147778563	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	6908023	147778563	33136697	263	49113											
GLRA1	2741	broad.mit.edu	37	chr5	151239373	151239373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagaggacattcccattcCgggagatccttagcaatttg	10	12	10	9	1	0	2	0	0	0	2	3	4	3	3	3	2	1	2	3	2	3	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:151239373C>T	uc003lut.2	-	4	736	c.449G>A	c.(448-450)CGG>CAG	p.R150Q	GLRA1_uc003lur.2_Missense_Mutation_p.R150Q|GLRA1_uc003lus.2_Missense_Mutation_p.R67Q	NM_001146040	NP_001139512	P23415	GLRA1_HUMAN	glycine receptor, alpha 1 isoform 1 precursor	150	Extracellular (Probable).				muscle contraction|negative regulation of transmission of nerve impulse|neuropeptide signaling pathway|positive regulation of acrosome reaction|regulation of membrane potential|startle response	cell junction|chloride channel complex|integral to plasma membrane|intracellular membrane-bounded organelle|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|protein binding|receptor activity|taurine binding|transmitter-gated ion channel activity			ovary(1)|central_nervous_system(1)	2		all_hematologic(541;0.0341)|Medulloblastoma(196;0.0912)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Ethanol(DB00898)|Glycine(DB00145)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	ATTCCCATTCCGGGAGATCCT	0.522													11	50					0	0	0.001368	0	0		T	151239373	T	T	151239373	3	4	76	1	0	0	0	0	1	0	0	0	6469	652	23	1	948	1	GLRA1	5	151239373	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3460810	151239373	29675887	264	49114											
RNF145	153830	broad.mit.edu	37	chr5	158586021	158586021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaaaatgactgcaaggcGtgatcacagcagatttcatg	15	8	11	7	1	2	3	2	2	0	1	2	4	2	4	0	2	2	2	0	2	4	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:158586021G>A	uc003lxp.2	-	11	1962	c.1649C>T	c.(1648-1650)ACG>ATG	p.T550M	RNF145_uc011ddy.1_Missense_Mutation_p.T564M|RNF145_uc003lxo.1_Missense_Mutation_p.T578M|RNF145_uc011ddz.1_Missense_Mutation_p.T567M|RNF145_uc010jiq.1_Missense_Mutation_p.T580M	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	550	RING-type; atypical.					integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACTGCAAGGCGTGATCACAGC	0.448													10	46					0	0	0.008291	0	0		A	158586021	A	A	158586021	3	1	76	1	0	0	0	0	1	0	0	0	13472	1145	40	1	346	1	RNF145	5	158586021	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	7346648	158586021	22329239	265	49115											
CCNJL	79616	broad.mit.edu	37	chr5	159686753	159686753	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgctccaacttggggacGtggtcttcccgatcctcgaa	7	12	10	12	3	1	0	0	0	1	0	5	3	4	1	3	3	2	1	3	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:159686753G>A	uc003lyb.1	-	5	702	c.450C>T	c.(448-450)CAC>CAT	p.H150H	CCNJL_uc011dee.1_Silent_p.H102H|CCNJL_uc003lyc.1_RNA|CCNJL_uc011def.1_Silent_p.H102H	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	150	Cyclin N-terminal.					nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACTTGGGGACGTGGTCTTCCC	0.562													20	83					0	0	0.010504	0	0		A	159686753	A	A	159686753	2	1	76	1	0	0	0	0	0	0	0	1	2932	1136	40	1		1	CCNJL	5	159686753	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1100732	159686753	21228507	266	49116											
STK10	6793	broad.mit.edu	37	chr5	171488254	171488254	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggtcctccttctgctTggctacaaagtcccggtcct	5	12	8	16	1	1	0	0	0	1	0	6	0	6	0	5	3	2	2	5	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:171488254T>G	uc003mbo.1	-	14	2401	c.2101A>C	c.(2101-2103)AAG>CAG	p.K701Q		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	701	Potential.						ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TCCTTCTGCTTGGCTACAAAG	0.577													25	144					0	0	0.00333	0	0		G	171488254	G	G	171488254	3	3	76	1	0	0	0	0	1	0	0	0	15311	1821	63	5	829	5	STK10	5	171488254	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	11801501	171488254	9427006	267	49117											
SH3PXD2B	285590	broad.mit.edu	37	chr5	171821626	171821626	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtcccggatgtggcttcGtctgaagagaatcttacctg	8	11	11	11	3	2	2	0	1	2	1	4	4	3	3	2	2	1	1	2	2	3	2	rs61755907		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:171821626G>A	uc003mbr.2	-	4	421	c.250C>T	c.(250-252)CGA>TGA	p.R84*	SH3PXD2B_uc003mbs.1_Nonsense_Mutation_p.R84*	NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	84	PX.				adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			ATGTGGCTTCGTCTGAAGAGA	0.512													4	27					0	0	0.000602	0	0		A	171821626	A	A	171821626	4	1	76	1	0	0	0	0	0	1	0	0	14282	1153	40	1	2525	1	SH3PXD2B	5	171821626	Nonsense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	333372	171821626	9093634	268	49118											
DUSP1	1843	broad.mit.edu	37	chr5	172195896	172195896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtcgagcacagccatggCggggctcccagcctctgccg	5	6	14	16	4	1	0	0	0	1	0	4	1	2	0	4	4	4	2	4	4	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:172195896C>T	uc003mbv.1	-	4	1221	c.973G>A	c.(973-975)GCC>ACC	p.A325T	DUSP1_uc011dez.1_Missense_Mutation_p.A183T|DUSP1_uc003mbu.1_Missense_Mutation_p.A213T	NM_004417	NP_004408	P28562	DUS1_HUMAN	dual specificity phosphatase 1	325	Tyrosine-protein phosphatase.				cell cycle|endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|non-membrane spanning protein tyrosine phosphatase activity|protein binding			breast(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00431)|all_lung(126;0.00729)	all_hematologic(541;4.11e-18)|Breast(839;0.00637)|Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.15)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)	GBM - Glioblastoma multiforme(465;0.0103)		ACAGCCATGGCGGGGCTCCCA	0.617													15	83					0	0	0.003163	0	0		T	172195896	T	T	172195896	3	4	76	1	0	0	0	0	1	0	0	0	4815	768	27	1	134	1	DUSP1	5	172195896	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	374270	172195896	8719364	269	49119											
CLTB	1212	broad.mit.edu	37	chr5	175824994	175824994	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctctcaggctcctgggTcagcctgtcagcctgggcaa	6	9	13	13	0	3	0	3	0	1	0	5	1	4	0	3	3	3	3	3	3	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:175824994T>C	uc003meh.2	-	4	464	c.289A>G	c.(289-291)ACC>GCC	p.T97A	CLTB_uc003mei.2_Missense_Mutation_p.T97A|CLTB_uc011dfn.1_RNA	NM_007097	NP_009028	P09497	CLCB_HUMAN	clathrin, light polypeptide isoform b	97	Involved in binding clathrin heavy chain.				intracellular protein transport|vesicle-mediated transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle	protein binding|structural molecule activity				0	all_cancers(89;0.00522)|Renal(175;0.000269)|Lung NSC(126;0.0105)|all_lung(126;0.0168)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.098)		GGCTCCTGGGTCAGCCTGTCA	0.647													27	153					0	0	0.002096	0	0		C	175824994	C	C	175824994	3	2	76	1	0	0	0	0	1	0	0	0	3568	1667	58	3	416	3	CLTB	5	175824994	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3629098	175824994	5090266	270	49120											
HNRNPH1	3187	broad.mit.edu	37	chr5	179045188	179045188	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctctcaaagccagctcCtctgccaatgctgttatacc	9	11	5	16	0	2	0	1	0	2	0	5	0	4	0	5	0	5	3	5	0	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:179045188C>A	uc003mkf.3	-	6	779	c.673G>T	c.(673-675)GGA>TGA	p.G225*	HNRNPH1_uc011dgn.1_5'Flank|HNRNPH1_uc003mkg.3_Nonsense_Mutation_p.G133*|HNRNPH1_uc003mke.3_Nonsense_Mutation_p.G225*|HNRNPH1_uc003mkh.3_Nonsense_Mutation_p.G225*	NM_005520	NP_005511	P31943	HNRH1_HUMAN	heterogeneous nuclear ribonucleoprotein H1	225					regulation of RNA splicing	actin cytoskeleton|catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|poly(U) RNA binding|protein binding				0						AAGCCAGCTCCTCTGCCAATG	0.507													21	134					2.89027e-11	3.19888e-11	0.002299	1	0		A	179045188	A	A	179045188	4	1	76	1	0	0	0	0	0	1	0	0	7282	690	24	5	708	5	HNRNPH1	5	179045188	Nonsense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3220194	179045188	1870072	271	49121											
TBC1D9B	23061	broad.mit.edu	37	chr5	179290716	179290716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacattgcagggagcccGtgctgaccaccgagtaggag	9	7	13	12	2	1	1	1	1	0	0	1	4	1	3	3	2	3	3	3	2	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:179290716G>A	uc003mlh.2	-	22	3522	c.3485C>T	c.(3484-3486)ACG>ATG	p.T1162M	TBC1D9B_uc003mli.2_Missense_Mutation_p.T1145M|TBC1D9B_uc003mlj.2_Missense_Mutation_p.T1144M|TBC1D9B_uc003mlf.2_Missense_Mutation_p.T236M|TBC1D9B_uc003mlg.2_Missense_Mutation_p.T321M|TBC1D9B_uc011dgv.1_Missense_Mutation_p.T321M	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	1162						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAGGGAGCCCGTGCTGACCAC	0.662													17	115					0	0	0.010504	0	0		A	179290716	A	A	179290716	3	1	76	1	0	0	0	0	1	0	0	0	15653	1145	40	1	271	1	TBC1D9B	5	179290716	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	245528	179290716	1624544	272	49122											
TBC1D9B	23061	broad.mit.edu	37	chr5	179305416	179305416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggtgctcgggcatggagcGgtgcaggtctcgctcgatct	5	9	17	10	4	2	0	0	0	2	0	5	2	2	1	0	5	3	4	0	5	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr5:179305416G>A	uc003mlh.2	-	10	1712	c.1675C>T	c.(1675-1677)CGC>TGC	p.R559C	TBC1D9B_uc003mli.2_Missense_Mutation_p.R559C|TBC1D9B_uc003mlj.2_Missense_Mutation_p.R559C	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	559	Rab-GAP TBC.					integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGCATGGAGCGGTGCAGGTCT	0.622													8	21					0	0	0.00308	0	0		A	179305416	A	A	179305416	3	1	76	1	0	0	0	0	1	0	0	0	15653	1116	39	1	2129	1	TBC1D9B	5	179305416	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	14700	179305416	1609844	273	49123											
BPHL	670	broad.mit.edu	37	chr6	3127585	3127585	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattccaggcccccagatcgCgatttcccagcagacttttt	8	11	7	15	2	0	2	0	0	0	2	3	3	2	2	4	1	1	1	4	1	0	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:3127585C>T	uc003mva.2	+	3	370	c.321C>T	c.(319-321)CGC>CGT	p.R107R	BPHL_uc003muz.2_RNA|BPHL_uc011dht.1_RNA|BPHL_uc003muy.2_Silent_p.R90R	NM_004332	NP_004323	Q86WA6	BPHL_HUMAN	biphenyl hydrolase-like precursor	107					cellular amino acid metabolic process|response to toxin	mitochondrion	hydrolase activity				0	Ovarian(93;0.0386)	all_hematologic(90;0.108)				CCCCAGATCGCGATTTCCCAG	0.527													21	93					0	0	0.001882	0	0		T	3127585	T	T	3127585	2	4	76	1	0	0	0	0	0	0	0	1	1492	755	27	1		1	BPHL	6	3127585	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08		3127585	167987482	274	49124											
FAM50B	26240	broad.mit.edu	37	chr6	3850301	3850301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctggtcagggagcgcgagCggcagctggccaagcgccag	7	3	17	14	4	1	0	1	0	0	0	1	2	1	1	3	4	4	2	3	4	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:3850301C>T	uc003mvu.2	+	2	368	c.256C>T	c.(256-258)CGG>TGG	p.R86W		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	86						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				GGAGCGCGAGCGGCAGCTGGC	0.527													4	25					0	0	0.000602	0	0		T	3850301	T	T	3850301	3	4	76	1	0	0	0	0	1	0	0	0	5592	759	27	1	258	1	FAM50B	6	3850301	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	722716	3850301	167264766	275	49125											
SYCP2L	221711	broad.mit.edu	37	chr6	10961554	10961554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttagactcaataaactagagCgctttcaaaatttggttctt	13	15	6	7	1	3	2	2	0	1	2	3	2	3	2	0	1	2	2	0	1	7	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:10961554C>T	uc003mzo.2	+	27	2568	c.2272C>T	c.(2272-2274)CGC>TGC	p.R758C	SYCP2L_uc010jow.2_Missense_Mutation_p.R378C	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	758						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			TAAACTAGAGCGCTTTCAAAA	0.383													5	35					0	0	0.000602	0	0		T	10961554	T	T	10961554	3	4	76	1	0	0	0	0	1	0	0	0	15458	768	27	1	2378	1	SYCP2L	6	10961554	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	7111253	10961554	160153513	276	49126											
NEDD9	4739	broad.mit.edu	37	chr6	11193859	11193859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggagggatatcatagaCgtccttttggtatctggatg	11	12	13	5	1	2	2	1	0	1	2	3	5	3	5	1	4	0	1	1	4	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:11193859C>T	uc003mzv.2	-	3	693	c.526G>A	c.(526-528)GTC>ATC	p.V176I	NEDD9_uc010joz.2_Missense_Mutation_p.V176I|NEDD9_uc003mzw.3_Missense_Mutation_p.V30I	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	176	Interacts strongly with spindle- regulatory protein D1M1.				actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			ATATCATAGACGTCCTTTTGG	0.512													10	46					0	0	0.001368	0	0		T	11193859	T	T	11193859	3	4	76	1	0	0	0	0	1	0	0	0	10332	536	19	1	1998	1	NEDD9	6	11193859	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	232305	11193859	159921208	277	49127											
RNF182	221687	broad.mit.edu	37	chr6	13977703	13977703	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaagaggctggcctctcTggtcagtccttctcacacgt	6	10	9	16	1	3	1	2	0	2	1	6	1	4	1	4	3	0	1	4	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:13977703T>C	uc003nbe.2	+	3	771	c.353T>C	c.(352-354)CTG>CCG	p.L118P	RNF182_uc003nbf.2_Missense_Mutation_p.L118P|RNF182_uc003nbg.2_Missense_Mutation_p.L118P	NM_152737	NP_689950	Q8N6D2	RN182_HUMAN	ring finger protein 182	118						cytoplasm|integral to membrane|intracellular membrane-bounded organelle	protein binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Breast(50;0.00405)|Ovarian(93;0.0964)	all_hematologic(90;0.135)	Epithelial(50;0.195)			CTGGCCTCTCTGGTCAGTCCT	0.552													12	54					0	0	0.001368	0	0		C	13977703	C	C	13977703	3	2	76	1	0	0	0	0	1	0	0	0	13491	1580	55	3	355	3	RNF182	6	13977703	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2783844	13977703	157137364	278	49128											
KAAG1	353219	broad.mit.edu	37	chr6	24358064	24358064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcaccgcacccagggcgCgggatcgcctcctgaaacga	8	4	12	17	5	1	1	1	1	0	0	3	3	2	2	5	2	1	1	5	2	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:24358064C>T	uc003ndz.1	+	1	934	c.197C>T	c.(196-198)GCG>GTG	p.A66V	DCDC2_uc003ndx.2_5'UTR|DCDC2_uc003ndy.2_5'UTR	NM_181337	NP_851854	Q9UBP8	KAAG1_HUMAN	kidney associated antigen 1	66					immune response						0						ACCCAGGGCGCGGGATCGCCT	0.662													21	63					0	0	0.002299	0	0		T	24358064	T	T	24358064	3	4	76	1	0	0	0	0	1	0	0	0	7989	768	27	1	199	1	KAAG1	6	24358064	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	10380361	24358064	146757003	279	49129											
TRIM26	7726	broad.mit.edu	37	chr6	30153714	30153714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggaaggggaccaggcgcCgggtgaaggtggcagtgaag	11	3	20	7	2	0	2	0	2	0	0	0	4	0	4	2	7	0	1	2	7	3	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:30153714C>T	uc003npr.2	-	9	1768	c.1559G>A	c.(1558-1560)CGG>CAG	p.R520Q	TRIM26_uc003nps.2_Missense_Mutation_p.R520Q|TRIM26_uc010jry.2_Missense_Mutation_p.R250Q|TRIM26_uc003npt.2_Missense_Mutation_p.R520Q	NM_003449	NP_003440	Q12899	TRI26_HUMAN	tripartite motif-containing 26	520	B30.2/SPRY.						DNA binding|zinc ion binding			ovary(2)|lung(1)	3						GACCAGGCGCCGGGTGAAGGT	0.607													8	35					0	0	0.00308	0	0		T	30153714	T	T	30153714	3	4	76	1	0	0	0	0	1	0	0	0	16526	652	23	1	64	1	TRIM26	6	30153714	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	5795650	30153714	140961353	280	49130											
MDC1	9656	broad.mit.edu	37	chr6	30671952	30671952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctatggcctcaggggtgaCggactggtctgtgggggtaa	7	9	18	7	1	2	1	1	1	1	0	2	2	2	2	1	7	1	2	1	7	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:30671952C>T	uc003nrg.3	-	10	5448	c.5008G>A	c.(5008-5010)GTC>ATC	p.V1670I	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Missense_Mutation_p.V1277I	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1670					cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TCAGGGGTGACGGACTGGTCT	0.532								Other_conserved_DNA_damage_response_genes					23	124					0	0	0.002299	0	0		T	30671952	T	T	30671952	3	4	76	1	0	0	0	0	1	0	0	0	9421	536	19	1	1285	1	MDC1	6	30671952	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	518238	30671952	140443115	281	49131											
GTF2H4	2968	broad.mit.edu	37	chr6	30877746	30877746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggctgctgagcggcctcCggatctggcacacacagctg	7	6	14	14	2	1	1	0	1	1	0	2	2	2	2	2	4	3	4	2	4	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:30877746C>T	uc003nsa.1	+	4	487	c.280C>T	c.(280-282)CGG>TGG	p.R94W	GTF2H4_uc010jsf.2_Missense_Mutation_p.R94W|GTF2H4_uc011dmv.1_Missense_Mutation_p.R38W|GTF2H4_uc003nsb.1_5'UTR|GTF2H4_uc011dmw.1_Missense_Mutation_p.R100W	NM_001517	NP_001508	Q92759	TF2H4_HUMAN	general transcription factor IIH, polypeptide 4,	94					mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3						GAGCGGCCTCCGGATCTGGCA	0.577								NER					28	127					0	0	0.007291	0	0		T	30877746	T	T	30877746	3	4	76	1	0	0	0	0	1	0	0	0	6881	643	23	1	290	1	GTF2H4	6	30877746	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	205794	30877746	140237321	282	49132											
LY6G6F	259215	broad.mit.edu	37	chr6	31683367	31683367	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcgagggcagaccccaGccaggcctggaacagatcaa	11	4	14	12	1	1	2	1	0	0	2	1	4	1	3	4	4	2	1	4	4	2	0	rs143744153		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:31683367G>A	uc003nwb.1	+	5	891	c.891G>A	c.(889-891)CAG>CAA	p.Q297Q	BAT5_uc011dnz.1_5'Flank|LY6G6E_uc011dob.1_5'Flank|LY6G6E_uc003nwc.2_5'Flank|LY6G6E_uc003nwd.2_5'Flank|LY6G6E_uc003nwe.2_5'Flank|LY6G6D_uc003nwf.1_Silent_p.Q48Q|LY6G6D_uc003nwg.1_Silent_p.Q27Q	NM_001003693	NP_001003693	Q5SQ64	LY66F_HUMAN	G6f protein precursor	Error:Variant_position_missing_in_Q5SQ64_after_alignment						integral to membrane|plasma membrane				breast(1)|central_nervous_system(1)	2						GCAGACCCCAGCCAGGCCTGG	0.582													8	52					0	0	0.004482	0	0		A	31683367	A	A	31683367	2	1	76	1	0	0	0	0	0	0	0	1	9114	962	34	2		2	LY6G6F	6	31683367	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	805621	31683367	139431700	283	49133											
HSPA1L	3305	broad.mit.edu	37	chr6	31778622	31778622	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaggatggctgcttgtacCgcagccccatatgctacggc	8	9	11	13	2	1	0	1	0	0	0	1	1	1	1	3	3	5	5	3	3	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:31778622C>T	uc003nxh.2	-	2	1311	c.1128G>A	c.(1126-1128)GCG>GCA	p.A376A	HSPA1L_uc010jte.2_Silent_p.A376A	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	376					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						CTGCTTGTACCGCAGCCCCAT	0.607													20	79					0	0	0.007413	0	0		T	31778622	T	T	31778622	2	4	76	1	0	0	0	0	0	0	0	1	7426	639	23	1		1	HSPA1L	6	31778622	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	95255	31778622	139336445	284	49134											
NOTCH4	4855	broad.mit.edu	37	chr6	32166740	32166740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcctagtgggggccggcGtcggtggggagctgactgag	4	7	20	10	4	0	2	0	2	0	0	2	3	0	3	2	6	1	1	2	6	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:32166740G>A	uc003obb.2	-	24	4637	c.4498C>T	c.(4498-4500)CGC>TGC	p.R1500C	NOTCH4_uc011dpt.1_5'Flank|NOTCH4_uc003oba.2_Missense_Mutation_p.R163C|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc011dpw.1_5'Flank	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1500	Cytoplasmic (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						GGGGGCCGGCGTCGGTGGGGA	0.612													43	178					0	0	0.00361	0	0		A	32166740	A	A	32166740	3	1	76	1	0	0	0	0	1	0	0	0	10570	1145	40	1	1541	1	NOTCH4	6	32166740	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	388118	32166740	138948327	285	49135											
DAXX	1616	broad.mit.edu	37	chr6	33288764	33288764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgttaacctctgggtagCgggtgccacggtaggggatg	6	9	17	9	2	1	0	0	0	1	0	1	1	1	1	3	5	3	3	3	5	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:33288764C>T	uc003oec.2	-	3	992	c.788G>A	c.(787-789)CGC>CAC	p.R263H	DAXX_uc011drd.1_Missense_Mutation_p.R188H|DAXX_uc011dre.1_Missense_Mutation_p.R275H|DAXX_uc003oed.2_Missense_Mutation_p.R263H|DAXX_uc010juw.2_Missense_Mutation_p.R188H	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	263				R -> H (in Ref. 5; AAC72843).	activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						CTCTGGGTAGCGGGTGCCACG	0.577			Mis|F|N		Pancreatic neuroendocrine tumors								25	90					0	0	0.003954	0	0		T	33288764	T	T	33288764	3	4	76	1	0	0	0	0	1	0	0	0	4246	768	27	1	1458	1	DAXX	6	33288764	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1122024	33288764	137826303	286	49136											
ITPR3	3710	broad.mit.edu	37	chr6	33652577	33652577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccagactggtcggcaatcGcagccacccagtgccggctg	8	5	12	16	3	0	1	0	0	0	1	2	1	0	1	4	3	2	3	4	3	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:33652577G>A	uc011drk.1	+	39	5383	c.5164G>A	c.(5164-5166)GCA>ACA	p.A1722T	ITPR3_uc003oey.2_5'Flank	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1722	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GTCGGCAATCGCAGCCACCCA	0.642													27	107					0	0	0.005443	0	0		A	33652577	A	A	33652577	3	1	76	1	0	0	0	0	1	0	0	0	7938	1087	38	1	5318	1	ITPR3	6	33652577	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	363813	33652577	137462490	287	49137											
ITPR3	3710	broad.mit.edu	37	chr6	33656440	33656440	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcctcttcaggcatgccGctgatctactggttctcccg	4	12	8	17	2	4	1	1	1	3	0	6	1	5	1	4	2	2	3	4	2	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:33656440G>A	uc011drk.1	+	49	6795	c.6576G>A	c.(6574-6576)CCG>CCA	p.P2192P	ITPR3_uc003oey.2_Silent_p.P279P	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	2192	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CAGGCATGCCGCTGATCTACT	0.602													12	23					0	0	0.001368	0	0		A	33656440	A	A	33656440	2	1	76	1	0	0	0	0	0	0	0	1	7938	1074	38	1		1	ITPR3	6	33656440	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3863	33656440	137458627	288	49138											
ITPR3	3710	broad.mit.edu	37	chr6	33660616	33660616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgacaccttcgctgacctgCgtagtgagaagcagaagaag	12	7	12	10	3	0	4	0	2	0	3	2	6	0	4	2	0	2	3	2	0	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:33660616C>T	uc011drk.1	+	55	7789	c.7570C>T	c.(7570-7572)CGT>TGT	p.R2524C	ITPR3_uc003oey.2_Missense_Mutation_p.R611C	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	2524	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CGCTGACCTGCGTAGTGAGAA	0.537													6	63					0	0	0.001984	0	0		T	33660616	T	T	33660616	3	4	76	1	0	0	0	0	1	0	0	0	7938	768	27	1	7788	1	ITPR3	6	33660616	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4176	33660616	137454451	289	49139											
PPARD	5467	broad.mit.edu	37	chr6	35389648	35389648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagtacgagaagtgtgagCgcagctgcaagattcagaag	13	7	15	6	2	1	4	1	1	0	3	1	6	1	5	0	1	4	4	0	1	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:35389648C>T	uc003okm.2	+	5	646	c.337C>T	c.(337-339)CGC>TGC	p.R113C	PPARD_uc003okl.2_Missense_Mutation_p.R113C|PPARD_uc003okn.2_Missense_Mutation_p.R113C|PPARD_uc011dtb.1_Missense_Mutation_p.R74C|PPARD_uc011dtc.1_Intron|PPARD_uc010jvv.1_RNA	NM_006238	NP_006229	Q03181	PPARD_HUMAN	peroxisome proliferative activated receptor,	113	Nuclear receptor.|NR C4-type.				apoptosis|axon ensheathment|cholesterol metabolic process|decidualization|embryo implantation|fatty acid beta-oxidation|fatty acid transport|generation of precursor metabolites and energy|glucose metabolic process|glucose transport|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fat cell differentiation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|linoleic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1					Icosapent(DB00159)|Sulindac(DB00605)|Treprostinil(DB00374)	GAAGTGTGAGCGCAGCTGCAA	0.567													11	70					0	0	0.000978	0	0		T	35389648	T	T	35389648	3	4	76	1	0	0	0	0	1	0	0	0	12317	768	27	1	364	1	PPARD	6	35389648	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1729032	35389648	135725419	290	49140											
TEAD3	7005	broad.mit.edu	37	chr6	35443481	35443481	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggatggtgctgttgaggtcGgcctgggcatgggggtgggg	3	10	23	5	1	0	1	0	1	0	0	1	2	0	2	1	9	1	3	1	9	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:35443481G>A	uc003oku.3	-	11	1139	c.903C>T	c.(901-903)GCC>GCT	p.A301A	TEAD3_uc003okt.2_Silent_p.A190A|TEAD3_uc010jvx.2_Silent_p.A241A	NM_003214	NP_003205	Q99594	TEAD3_HUMAN	TEA domain family member 3	301	Transcriptional activation (Potential).				female pregnancy|hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGTTGAGGTCGGCCTGGGCAT	0.602													19	89					0	0	0.00333	0	0		A	35443481	A	A	35443481	2	1	76	1	0	0	0	0	0	0	0	1	15765	1103	39	1		1	TEAD3	6	35443481	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	53833	35443481	135671586	291	49141											
CPNE5	57699	broad.mit.edu	37	chr6	36714354	36714354	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgtggactgtgaggggttcCctgtaacacaggacatggga	10	9	15	7	0	0	1	0	1	0	0	1	4	1	4	1	5	1	2	1	5	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:36714354C>A	uc003omr.1	-	16	1086	c.1019G>T	c.(1018-1020)GGG>GTG	p.G340V	CPNE5_uc003omp.1_Missense_Mutation_p.G48V|CPNE5_uc010jwn.1_5'UTR|CPNE5_uc003omq.1_5'UTR	NM_020939	NP_065990	Q9HCH3	CPNE5_HUMAN	copine V	340	VWFA.									skin(1)	1						TGAGGGGTTCCCTGTAACACA	0.577													11	43					0.000978159	0.00100712	0.000978	1	0		A	36714354	A	A	36714354	3	1	76	1	0	0	0	0	1	0	0	0	3818	637	22	5	786	5	CPNE5	6	36714354	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1270873	36714354	134400713	292	49142											
DAAM2	23500	broad.mit.edu	37	chr6	39835355	39835355	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctccggagcatggaccaCgccacctgtgagagccgcat	8	7	11	15	3	0	1	0	1	0	1	2	4	2	3	6	2	2	2	6	2	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:39835355C>T	uc003oow.2	+	6	654	c.498C>T	c.(496-498)CAC>CAT	p.H166H	DAAM2_uc010jxc.2_Silent_p.H166H|DAAM2_uc003oox.2_Silent_p.H166H	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	166	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GCATGGACCACGCCACCTGTG	0.527													20	123					0	0	0.010504	0	0		T	39835355	T	T	39835355	2	4	76	1	0	0	0	0	0	0	0	1	4219	535	19	1		1	DAAM2	6	39835355	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3121001	39835355	131279712	293	49143											
KIAA0240	23506	broad.mit.edu	37	chr6	42796577	42796577	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagcctataggggtgaCgcatgtgcctgttggagcat	7	10	15	9	1	0	1	0	1	0	0	0	2	0	2	2	3	4	5	2	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:42796577C>T	uc003osn.1	+	6	657	c.506C>T	c.(505-507)ACG>ATG	p.T169M	KIAA0240_uc003osm.1_Missense_Mutation_p.T169M|KIAA0240_uc011duw.1_Missense_Mutation_p.T169M|KIAA0240_uc003oso.1_Missense_Mutation_p.T169M|KIAA0240_uc003osp.1_Missense_Mutation_p.T169M	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	169										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			ATAGGGGTGACGCATGTGCCT	0.473													16	132					0	0	0.003163	0	0		T	42796577	T	T	42796577	3	4	76	1	0	0	0	0	1	0	0	0	8180	536	19	1	520	1	KIAA0240	6	42796577	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2961222	42796577	128318490	294	49144											
PEX6	5190	broad.mit.edu	37	chr6	42942631	42942631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgggtatctgaaagtgcCggtaaagaacaccgtcataa	14	8	10	9	2	2	2	1	1	1	1	2	2	2	2	3	2	2	2	3	2	6	3	rs111282915	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:42942631C>T	uc003otf.2	-	2	1121	c.1028G>A	c.(1027-1029)CGG>CAG	p.R343Q	PEX6_uc010jya.2_RNA	NM_000287	NP_000278	Q13608	PEX6_HUMAN	peroxisomal biogenesis factor 6	343					protein import into peroxisome matrix, translocation|protein stabilization	cytosol|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)	1			all cancers(41;0.00235)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0562)			CTGAAAGTGCCGGTAAAGAAC	0.463													24	123					0	0	0.00278	0	0		T	42942631	T	T	42942631	3	4	76	1	0	0	0	0	1	0	0	0	11769	652	23	1	1978	1	PEX6	6	42942631	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	146054	42942631	128172436	295	49145											
CUL7	9820	broad.mit.edu	37	chr6	43020028	43020028	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggactactcaacatgtgcaTgagcaagtccaggacccttg	12	8	10	11	0	1	1	1	1	0	0	2	3	2	3	2	2	4	2	2	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:43020028T>C	uc003otq.2	-	2	802	c.499A>G	c.(499-501)ATG>GTG	p.M167V	CUL7_uc011dvb.1_Missense_Mutation_p.M219V|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	167					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			AACATGTGCATGAGCAAGTCC	0.562													14	48					0	0	0.00245	0	0		C	43020028	C	C	43020028	3	2	76	1	0	0	0	0	1	0	0	0	4063	1464	51	3	4793	3	CUL7	6	43020028	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	77397	43020028	128095039	296	49146											
SRF	6722	broad.mit.edu	37	chr6	43141756	43141756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagactctccaccccgttcaGaccccacaacagaccagaga	13	4	6	18	1	2	4	1	0	1	4	3	5	2	4	6	0	1	1	6	0	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:43141756G>A	uc003oui.2	+	2	1160	c.685G>A	c.(685-687)GAC>AAC	p.D229N	SRF_uc011dvf.1_Missense_Mutation_p.D25N	NM_003131	NP_003122	P11831	SRF_HUMAN	serum response factor (c-fos serum response	229					angiogenesis involved in wound healing|cell migration involved in sprouting angiogenesis|cellular senescence|heart looping|muscle cell homeostasis|neuron development|positive regulation of cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of smooth muscle cell differentiation|response to cytokine stimulus|response to hormone stimulus|response to toxin|transcription from RNA polymerase II promoter|trophectodermal cell differentiation	endoplasmic reticulum	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			ovary(1)|breast(1)|central_nervous_system(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.011)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			ACCCCGTTCAGACCCCACAAC	0.562													11	60					0	0	0.001368	0	0		A	43141756	A	A	43141756	3	1	76	1	0	0	0	0	1	0	0	0	15168	942	33	4	691	4	SRF	6	43141756	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	121728	43141756	127973311	297	49147											
RSPH9	221421	broad.mit.edu	37	chr6	43612854	43612854	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggacgccgacagcctcCtgctgtctctggagctggcg	5	9	14	13	3	1	1	0	1	1	0	3	4	2	3	3	3	3	2	3	3	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:43612854C>A	uc003ovw.1	+	1	45	c.19C>A	c.(19-21)CTG>ATG	p.L7M	RSPH9_uc003ovx.1_Missense_Mutation_p.L7M	NM_152732	NP_689945	Q9H1X1	RSPH9_HUMAN	radial spoke head 9 homolog	7					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton				upper_aerodigestive_tract(1)|skin(1)	2						CGACAGCCTCCTGCTGTCTCT	0.672									Kartagener_syndrome				17	41					1.5739e-10	1.74017e-10	0.004007	1	0		A	43612854	A	A	43612854	3	1	76	1	0	0	0	0	1	0	0	0	13733	680	24	5	21	5	RSPH9	6	43612854	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	471098	43612854	127502213	298	49148											
AARS2	57505	broad.mit.edu	37	chr6	44275066	44275066	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcagccaccacgcggtaCgctgtgtctgtgcgcccctc	4	9	12	16	4	2	0	1	0	1	0	3	0	2	0	4	2	3	2	4	2	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:44275066C>T	uc010jza.1	-	6	963	c.960G>A	c.(958-960)GCG>GCA	p.A320A	SPATS1_uc003oxg.2_RNA|TMEM151B_uc003oxf.2_3'UTR	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	320					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	CCACGCGGTACGCTGTGTCTG	0.632													5	26					0	0	0.001168	0	0		T	44275066	T	T	44275066	2	4	76	1	0	0	0	0	0	0	0	1	20	523	19	1		1	AARS2	6	44275066	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	662212	44275066	126840001	299	49149											
CLIC5	53405	broad.mit.edu	37	chr6	45922893	45922893	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcagatccacagtggtgAcattgaacacgactcctttc	10	13	7	11	1	1	3	1	2	0	1	4	4	3	3	2	1	1	0	2	1	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:45922893A>G	uc003oxv.3	-	2	735	c.629T>C	c.(628-630)GTC>GCC	p.V210A	CLIC5_uc003oxu.3_Missense_Mutation_p.V51A|CLIC5_uc003oxx.2_Missense_Mutation_p.V51A	NM_001114086	NP_001107558	Q9NZA1	CLIC5_HUMAN	chloride intracellular channel 5 isoform a	210	Helical; Note=After insertion into the membrane; (Potential).				female pregnancy	actin cytoskeleton|cell cortex|chloride channel complex|Golgi apparatus|Golgi apparatus|insoluble fraction|microtubule organizing center	protein binding|voltage-gated chloride channel activity			ovary(1)|skin(1)	2						CACAGTGGTGACATTGAACAC	0.473													9	53					0	0	0.006214	0	0		G	45922893	G	G	45922893	3	3	76	1	0	0	0	0	1	0	0	0	3532	275	10	3	623	3	CLIC5	6	45922893	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1647827	45922893	125192174	300	49150											
MYO6	4646	broad.mit.edu	37	chr6	76599952	76599952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgaagaagacgaaaaacGtcgaagaaaggaagaggagg	20	2	15	4	4	0	5	0	1	0	4	1	9	0	7	0	3	1	0	0	3	7	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:76599952G>A	uc003pih.1	+	26	3116	c.2837G>A	c.(2836-2838)CGT>CAT	p.R946H	MYO6_uc003pig.1_Missense_Mutation_p.R946H|MYO6_uc003pii.1_Missense_Mutation_p.R946H	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	946	Glu-rich.|Potential.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		GACGAAAAACGTCGAAGAAAG	0.368													8	41					0	0	0.00308	0	0		A	76599952	A	A	76599952	3	1	76	1	0	0	0	0	1	0	0	0	10099	1145	40	1	2935	1	MYO6	6	76599952	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	30677059	76599952	94515115	301	49151											
HTR1B	3351	broad.mit.edu	37	chr6	78172950	78172950	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtggccaaggtgatgagCgccaatagcataaccagcag	12	6	14	9	1	0	2	0	2	0	0	0	2	0	2	3	3	4	2	3	3	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:78172950C>T	uc003pil.1	-	1	171	c.171G>A	c.(169-171)GCG>GCA	p.A57A		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	57	Helical; Name=1; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	AGGTGATGAGCGCCAATAGCA	0.547													32	169					0	0	0.003271	0	0		T	78172950	T	T	78172950	2	4	76	1	0	0	0	0	0	0	0	1	7453	755	27	1		1	HTR1B	6	78172950	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1572998	78172950	92942117	302	49152											
IBTK	25998	broad.mit.edu	37	chr6	82933168	82933168	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacacatacttagaagccatCttcttgcactgatagtctgc	11	13	6	11	0	3	2	0	1	3	1	3	2	3	2	1	0	5	1	1	0	5	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:82933168C>T	uc003pjl.1	-	8	1640	c.1113G>A	c.(1111-1113)AAG>AAA	p.K371K	IBTK_uc011dyv.1_Silent_p.K371K|IBTK_uc011dyw.1_Silent_p.K371K|IBTK_uc010kbi.1_Silent_p.K65K|IBTK_uc003pjm.2_Silent_p.K371K	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	371					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		TAGAAGCCATCTTCTTGCACT	0.368													9	44					0	0	0.004482	0	0		T	82933168	T	T	82933168	2	4	76	1	0	0	0	0	0	0	0	1	7492	912	32	4		4	IBTK	6	82933168	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4760218	82933168	88181899	303	49153											
MDN1	23195	broad.mit.edu	37	chr6	90428228	90428228	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcagaagaaaatgactcCaggctcgcagcactacttct	13	9	8	11	1	2	3	1	1	1	2	4	3	3	3	1	1	2	3	1	1	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:90428228C>T	uc003pnn.1	-	43	6556	c.6440G>A	c.(6439-6441)TGG>TAG	p.W2147*		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2147					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		AAAATGACTCCAGGCTCGCAG	0.463													17	70					0	0	0.004007	0	0		T	90428228	T	T	90428228	4	4	76	1	0	0	0	0	0	1	0	0	9433	595	21	4	10590	4	MDN1	6	90428228	Nonsense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	7495060	90428228	80686839	304	49154											
MDN1	23195	broad.mit.edu	37	chr6	90428637	90428637	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgaccatccagctcatcTgcacacacttcatgattgac	11	10	7	13	0	3	3	2	3	1	0	4	4	4	4	2	1	2	2	2	1	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:90428637T>G	uc003pnn.1	-	42	6286	c.6170A>C	c.(6169-6171)CAG>CCG	p.Q2057P		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2057					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CCAGCTCATCTGCACACACTT	0.577													17	78					0	0	0.004007	0	0		G	90428637	G	G	90428637	3	3	76	1	0	0	0	0	1	0	0	0	9433	1580	55	5	10864	5	MDN1	6	90428637	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	409	90428637	80686430	305	49155											
MDN1	23195	broad.mit.edu	37	chr6	90453398	90453398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ataatttctgatttgccaagGctgcaaatacctgacagata	14	12	7	8	0	1	3	0	2	1	1	1	3	1	3	2	1	3	2	2	1	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:90453398G>A	uc003pnn.1	-	30	4330	c.4214C>T	c.(4213-4215)GCC>GTC	p.A1405V		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1405					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		ATTTGCCAAGGCTGCAAATAC	0.463													14	83					0	0	0.001855	0	0		A	90453398	A	A	90453398	3	1	76	1	0	0	0	0	1	0	0	0	9433	1203	42	2	12868	2	MDN1	6	90453398	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	24761	90453398	80661669	306	49156											
PRDM13	59336	broad.mit.edu	37	chr6	100062567	100062567	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagagcgacgacagtgacGtggacgtctgcttcacagac	11	6	12	12	4	2	3	1	1	1	2	2	6	2	4	1	1	2	1	1	1	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:100062567G>T	uc003pqg.1	+	4	2317	c.2056G>T	c.(2056-2058)GTG>TTG	p.V686L		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	686					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		CGACAGTGACGTGGACGTCTG	0.701													25	61					2.64397e-27	2.98451e-27	0.005443	1	0		T	100062567	T	T	100062567	3	4	76	1	0	0	0	0	1	0	0	0	12476	1145	40	5	2070	5	PRDM13	6	100062567	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	9609169	100062567	71052500	307	49157											
LAMA4	3910	broad.mit.edu	37	chr6	112493824	112493824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgctgtacctcatggtcccGctgcctggctgctgtggccc	2	10	12	17	2	1	0	1	0	0	0	2	0	2	0	5	3	3	5	5	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:112493824G>A	uc003pvu.2	-	12	1849	c.1540C>T	c.(1540-1542)CGG>TGG	p.R514W	LAMA4_uc003pvv.2_Missense_Mutation_p.R507W|LAMA4_uc003pvt.2_Missense_Mutation_p.R507W	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	514	Potential.|Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		TCATGGTCCCGCTGCCTGGCT	0.483													15	44					0	0	0.006122	0	0		A	112493824	A	A	112493824	3	1	76	1	0	0	0	0	1	0	0	0	8624	1086	38	1	4043	1	LAMA4	6	112493824	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	12431257	112493824	58621243	308	49158											
FAM162B	221303	broad.mit.edu	37	chr6	117086316	117086316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgccacacttacgggatcCgaggcgggatctcctccatc	7	8	11	15	4	1	0	0	0	1	0	6	3	3	2	4	3	1	0	4	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:117086316C>T	uc003pxi.2	-	2	422	c.275G>A	c.(274-276)CGG>CAG	p.R92Q		NM_001085480	NP_001078949	Q5T6X4	F162B_HUMAN	hypothetical protein LOC221303	92						integral to membrane					0						TTACGGGATCCGAGGCGGGAT	0.647													18	70					0	0	0.010504	0	0		T	117086316	T	T	117086316	3	4	76	1	0	0	0	0	1	0	0	0	5486	652	23	1	225	1	FAM162B	6	117086316	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4592492	117086316	54028751	309	49159											
GOPC	57120	broad.mit.edu	37	chr6	117894635	117894635	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagcaaacatacatggcCtggtggtgcttgcattggtc	10	10	12	9	0	0	0	0	0	0	0	1	0	0	0	1	4	5	4	1	4	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:117894635C>A	uc003pxu.2	-	5	1041	c.811G>T	c.(811-813)GGC>TGC	p.G271C	GOPC_uc003pxq.1_Missense_Mutation_p.G44C|GOPC_uc003pxv.2_Missense_Mutation_p.G263C	NM_020399	NP_065132	Q9HD26	GOPC_HUMAN	golgi associated PDZ and coiled-coil motif	271					apical protein localization|cytoplasmic sequestering of CFTR protein|ER to Golgi vesicle-mediated transport|Golgi to plasma membrane transport|protein homooligomerization|protein transport	cell junction|dendrite|Golgi membrane|postsynaptic density|postsynaptic membrane|trans-Golgi network transport vesicle	cystic fibrosis transmembrane conductance regulator binding			ovary(1)	1		all_cancers(87;0.00844)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0363)|OV - Ovarian serous cystadenocarcinoma(136;0.0821)|all cancers(137;0.0976)		CATACATGGCCTGGTGGTGCT	0.428			O	ROS1	glioblastoma								14	57					6.31663e-08	6.83667e-08	0.003163	1	0		A	117894635	A	A	117894635	3	1	76	1	0	0	0	0	1	0	0	0	6588	681	24	5	597	5	GOPC	6	117894635	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	808319	117894635	53220432	310	49160											
C6orf204	387119	broad.mit.edu	37	chr6	118886986	118886986	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctaagagtagaggaagaGgctctaaagtcctccttgct	11	10	10	10	0	1	3	0	0	1	3	4	4	4	4	3	2	1	3	3	2	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:118886986G>A	uc003pxz.1	-	3	1314	c.726C>T	c.(724-726)GCC>GCT	p.A242A	C6orf204_uc003pya.1_Silent_p.A245A|C6orf204_uc003pyb.2_Silent_p.A242A|C6orf204_uc011ebj.1_Silent_p.A140A|C6orf204_uc003pyc.2_Silent_p.A245A|C6orf204_uc011ebl.1_Silent_p.A140A	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	242						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		TAGAGGAAGAGGCTCTAAAGT	0.423													23	80					0	0	0.002299	0	0		A	118886986	A	A	118886986	2	1	76	1	0	0	0	0	0	0	0	1	2356	987	35	4		4	C6orf204	6	118886986	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	992351	118886986	52228081	311	49161											
SERINC1	57515	broad.mit.edu	37	chr6	122768329	122768329	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttgagcatgccaccacTggactgactgcccttccttt	6	13	7	15	0	0	2	0	2	0	0	2	3	2	3	5	1	3	1	5	1	0	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:122768329T>G	uc003pyy.1	-	8	1002	c.932A>C	c.(931-933)CAG>CCG	p.Q311P	SERINC1_uc003pyx.1_5'Flank	NM_020755	NP_065806	Q9NRX5	SERC1_HUMAN	serine incorporator 1	311	Helical; (Potential).				phosphatidylserine metabolic process|phospholipid biosynthetic process|positive regulation of transferase activity|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	L-serine transmembrane transporter activity|protein binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.126)		ATGCCACCACTGGACTGACTG	0.358													22	104					0	0	0.00278	0	0		G	122768329	G	G	122768329	3	3	76	1	0	0	0	0	1	0	0	0	14104	1580	55	5	441	5	SERINC1	6	122768329	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3881343	122768329	48346738	312	49162											
STX7	8417	broad.mit.edu	37	chr6	132792740	132792740	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtattttcctttgacgCtagaggaaagagaagaaaaa	15	12	9	5	1	1	4	0	1	1	3	2	6	2	5	1	1	0	2	1	1	6	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:132792740C>T	uc003qdg.2	-	5	500	c.250_splice	c.e5-1	p.R84_splice	STX7_uc011ecg.1_Intron|STX7_uc011ech.1_Intron	NM_003569	NP_003560	O15400	STX7_HUMAN	syntaxin 7						intracellular protein transport|post-Golgi vesicle-mediated transport	early endosome membrane|integral to membrane	SNAP receptor activity				0	Breast(56;0.0615)			OV - Ovarian serous cystadenocarcinoma(155;0.00532)|GBM - Glioblastoma multiforme(226;0.0114)		TCCTTTGACGCTAGAGGAAAG	0.433													16	68					0	0	0.004007	0	0		T	132792740	T	T	132792740	5	4	76	1	0	0	0	0	0	0	1	0	15375	811	28	2	560	2	STX7	6	132792740	Splice_Site	SNP	C	TCGA-BR-8382-01A-11D-2394-08	10024411	132792740	38322327	313	49163											
IL20RA	53832	broad.mit.edu	37	chr6	137329814	137329814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgaaggactccacgtgtaCgcagtaaagagtgttcggct	11	8	13	9	4	0	1	0	0	0	1	2	4	1	2	1	2	1	5	1	2	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:137329814C>T	uc003qhj.2	-	5	1079	c.646G>A	c.(646-648)GTA>ATA	p.V216I	IL20RA_uc011edl.1_Missense_Mutation_p.V167I|IL20RA_uc003qhk.2_Missense_Mutation_p.V105I|IL20RA_uc003qhi.2_5'UTR	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	216	Extracellular (Potential).|Fibronectin type-III 2.					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)		TCCACGTGTACGCAGTAAAGA	0.537													28	106					0	0	0.00632	0	0		T	137329814	T	T	137329814	3	4	76	1	0	0	0	0	1	0	0	0	7684	536	19	1	1027	1	IL20RA	6	137329814	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4537074	137329814	33785253	314	49164											
HEBP2	23593	broad.mit.edu	37	chr6	138727266	138727266	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcttcattgaagatagaGccgaaatgactgtgtttgta	12	14	10	5	1	2	4	1	2	1	2	2	5	2	4	1	0	1	2	1	0	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:138727266G>T	uc003qhw.1	+	3	694	c.397G>T	c.(397-399)GCC>TCC	p.A133S		NM_014320	NP_055135	Q9Y5Z4	HEBP2_HUMAN	heme binding protein 2	133						mitochondrion					0	Breast(32;0.0933)			GBM - Glioblastoma multiforme(68;0.000732)|OV - Ovarian serous cystadenocarcinoma(155;0.00171)		TGAAGATAGAGCCGAAATGAC	0.408													25	134					1.17739e-12	1.3139e-12	0.005443	1	0		T	138727266	T	T	138727266	3	4	76	1	0	0	0	0	1	0	0	0	7053	971	34	5	407	5	HEBP2	6	138727266	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1397452	138727266	32387801	315	49165											
NMBR	4829	broad.mit.edu	37	chr6	142409496	142409496	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaagaagtagcgcgaggcGtccaccgggacgcaggtgag	10	4	17	10	6	0	2	0	1	0	1	2	5	1	3	2	3	1	2	2	3	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:142409496G>A	uc003qiu.2	-	1	441	c.300C>T	c.(298-300)GAC>GAT	p.D100D		NM_002511	NP_002502	P28336	NMBR_HUMAN	neuromedin B receptor	100	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			central_nervous_system(3)|breast(1)	4	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		AGCGCGAGGCGTCCACCGGGA	0.592													11	41					0	0	0.008291	0	0		A	142409496	A	A	142409496	2	1	76	1	0	0	0	0	0	0	0	1	10506	1136	40	1		1	NMBR	6	142409496	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3682230	142409496	28705571	316	49166											
HIVEP2	3097	broad.mit.edu	37	chr6	143094969	143094969	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctgctggcaatgtccaGtgggatgggtggaccaggac	7	8	16	10	0	1	0	0	0	1	0	2	3	2	3	3	5	1	2	3	5	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:143094969G>A	uc003qjd.2	-	5	1650	c.907C>T	c.(907-909)CTG>TTG	p.L303L		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	303					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GCAATGTCCAGTGGGATGGGT	0.468													11	71					0	0	0.001368	0	0		A	143094969	A	A	143094969	2	1	76	1	0	0	0	0	0	0	0	1	7203	1020	36	4		4	HIVEP2	6	143094969	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	685473	143094969	28020098	317	49167											
STX11	8676	broad.mit.edu	37	chr6	144507947	144507947	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagctgctggtggccgaCgtgaagcggctgggaaagca	10	5	16	10	3	0	1	0	1	0	0	0	3	0	2	2	4	5	4	2	4	3	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:144507947C>T	uc003qks.3	+	2	375	c.183C>T	c.(181-183)GAC>GAT	p.D61D		NM_003764	NP_003755	O75558	STX11_HUMAN	syntaxin 11	61	Potential.			D -> N (in Ref. 1; AAD02107).	cellular membrane fusion|intracellular protein transport|vesicle-mediated transport	Golgi apparatus|membrane	SNAP receptor activity			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(155;2.17e-06)|GBM - Glioblastoma multiforme(68;0.0492)		TGGTGGCCGACGTGAAGCGGC	0.617									Familial_Hemophagocytic_Lymphohistiocytosis				11	41					0	0	0.008291	0	0		T	144507947	T	T	144507947	2	4	76	1	0	0	0	0	0	0	0	1	15362	535	19	1		1	STX11	6	144507947	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1412978	144507947	26607120	318	49168											
ULBP1	80329	broad.mit.edu	37	chr6	150290471	150290471	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgaagaatttttgatgtaCtgggaacaaatgctggatcc	12	13	10	6	0	0	3	0	2	0	1	1	5	1	5	1	2	3	2	1	2	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:150290471C>T	uc003qnp.2	+	3	643	c.600C>T	c.(598-600)TAC>TAT	p.Y200Y		NM_025218	NP_079494	Q9BZM6	N2DL1_HUMAN	UL16 binding protein 1 precursor	200	MHC class I alpha-2 like.				antigen processing and presentation|immune response|natural killer cell activation|regulation of immune response	anchored to membrane|endoplasmic reticulum|MHC class I protein complex	MHC class I receptor activity			pancreas(1)	1		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.14e-11)		TTTTGATGTACTGGGAACAAA	0.393													18	104					0	0	0.001882	0	0		T	150290471	T	T	150290471	2	4	76	1	0	0	0	0	0	0	0	1	16998	576	20	4		4	ULBP1	6	150290471	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	5782524	150290471	20824596	319	49169											
SYNE1	23345	broad.mit.edu	37	chr6	152472791	152472791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaccagaatgctgtcccgcGcagtctcaaactcctcacgc	10	7	8	16	3	2	2	2	0	1	2	5	2	4	2	3	0	2	2	3	0	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:152472791G>A	uc010kiw.2	-	135	24949	c.24347C>T	c.(24346-24348)GCG>GTG	p.A8116V	SYNE1_uc010kiv.2_Missense_Mutation_p.A2640V|SYNE1_uc003qos.3_Missense_Mutation_p.A2640V|SYNE1_uc003qot.3_Missense_Mutation_p.A8045V|SYNE1_uc003qou.3_Missense_Mutation_p.A8116V|SYNE1_uc003qop.3_Missense_Mutation_p.A278V|SYNE1_uc011eez.1_Missense_Mutation_p.A318V|SYNE1_uc003qoq.3_Missense_Mutation_p.A318V|SYNE1_uc003qor.3_Missense_Mutation_p.A1016V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	8116	Spectrin 30.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GCTGTCCCGCGCAGTCTCAAA	0.403										HNSCC(10;0.0054)			9	23					0	0	0.006214	0	0		A	152472791	A	A	152472791	3	1	76	1	0	0	0	0	1	0	0	0	15470	1087	38	1	2167	1	SYNE1	6	152472791	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2182320	152472791	18642276	320	49170											
SYNE1	23345	broad.mit.edu	37	chr6	152560775	152560775	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtttccttttggactgcaaAgctgattatctttctgaaga	9	16	9	7	0	2	3	0	2	2	1	3	4	3	4	1	2	2	3	1	2	3	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:152560775A>G	uc010kiw.2	-	108	20562	c.19960T>C	c.(19960-19962)TTT>CTT	p.F6654L	SYNE1_uc010kiv.2_Missense_Mutation_p.F1178L|SYNE1_uc003qos.3_Missense_Mutation_p.F1178L|SYNE1_uc003qot.3_Missense_Mutation_p.F6583L|SYNE1_uc003qou.3_Missense_Mutation_p.F6654L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6654	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TGGACTGCAAAGCTGATTATC	0.453										HNSCC(10;0.0054)			12	57					0	0	0.000978	0	0		G	152560775	G	G	152560775	3	3	76	1	0	0	0	0	1	0	0	0	15470	72	3	3	6662	3	SYNE1	6	152560775	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	87984	152560775	18554292	321	49171											
WTAP	9589	broad.mit.edu	37	chr6	160176302	160176303	+	Missense_Mutation	DNP	CG	TA	TA																															caagtaatggtagctcctccCgccagaggacgtctgggtct																										TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:160176302_160176303CG>TA	uc003qsl.2	+	8	1072_1073	c.850_851CG>TA	c.(850-852)CGC>TAC	p.R284Y	WTAP_uc003qso.2_Missense_Mutation_p.R165Y	NM_004906	NP_004897	Q15007	FL2D_HUMAN	Wilms' tumour 1-associating protein isoform 1	284					cell cycle|mRNA processing|RNA splicing	nuclear membrane|nucleolus					0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.75e-18)|BRCA - Breast invasive adenocarcinoma(81;5.93e-06)		TAGCTCCTCCCGCCAGAGGACG	0.51													12	59					0	0	0.004672	0	0		TA	160176303	TA	TA	160176302	3	4	76	1	0	0	0	0	1	0	0	0	17435	652	23	1	880	1	WTAP	6	160176302	Missense_Mutation	DNP	CG	TCGA-BR-8382-01A-11D-2394-08	7615527	160176302	10938765	322	49172											
PLG	5340	broad.mit.edu	37	chr6	161173964	161173964	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctctggtttgcttcgaGaaggacaaatacattttaca	11	13	9	8	1	1	1	0	0	1	1	3	3	2	2	1	3	3	2	1	3	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:161173964G>T	uc003qtm.3	+	19	2367	c.2304G>T	c.(2302-2304)GAG>GAT	p.E768D		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	768	Peptidase S1.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	TTTGCTTCGAGAAGGACAAAT	0.473													10	49					3.52763e-06	3.73922e-06	0.00499	1	0		T	161173964	T	T	161173964	3	4	76	1	0	0	0	0	1	0	0	0	12105	933	33	5	2382	5	PLG	6	161173964	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	997662	161173964	9941103	323	49173											
DLL1	28514	broad.mit.edu	37	chr6	170594100	170594100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggcagctgtaccctccatCggggctgtctgagcaccgac	6	7	13	15	3	1	1	0	1	1	0	3	2	2	1	3	3	3	5	3	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:170594100C>T	uc003qxm.2	-	8	1626	c.1156G>A	c.(1156-1158)GAT>AAT	p.D386N		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	386	Extracellular (Potential).|EGF-like 5.				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		TACCCTCCATCGGGGCTGTCT	0.572													12	53					0	0	0.001368	0	0		T	170594100	T	T	170594100	3	4	76	1	0	0	0	0	1	0	0	0	4572	884	31	1	1031	1	DLL1	6	170594100	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	9420136	170594100	520967	324	49174											
DLL1	28514	broad.mit.edu	37	chr6	170597853	170597853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagaatctgtgtggagagCttcaataatcagagagaagg	15	8	14	4	0	3	4	2	0	1	4	3	7	3	4	0	3	1	1	0	3	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:170597853C>T	uc003qxm.2	-	3	846	c.376G>A	c.(376-378)GCT>ACT	p.A126T	DLL1_uc011ehc.1_Missense_Mutation_p.A126T|DLL1_uc003qxn.3_3'UTR	NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	126	Extracellular (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		GTGTGGAGAGCTTCAATAATC	0.463													13	83					0	0	0.001368	0	0		T	170597853	T	T	170597853	3	4	76	1	0	0	0	0	1	0	0	0	4572	797	28	2	1831	2	DLL1	6	170597853	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3753	170597853	517214	325	49175											
TBP	6908	broad.mit.edu	37	chr6	170878836	170878836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtttcctataaggttagaaGgccttgtgctcacccaccaa	11	11	8	11	0	1	1	1	0	0	1	2	1	2	1	4	2	1	3	4	2	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr6:170878836G>A	uc003qxt.2	+	6	1046	c.814G>A	c.(814-816)GGC>AGC	p.G272S	TBP_uc003qxu.2_Missense_Mutation_p.G272S|TBP_uc011ehf.1_Missense_Mutation_p.G252S	NM_003194	NP_003185	P20226	TBP_HUMAN	TATA box binding protein	272	2.				cell death|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription from RNA polymerase III promoter|viral reproduction	transcription factor TFIIA complex|transcription factor TFIID complex	repressing transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;1.07e-22)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00591)		AAGGTTAGAAGGCCTTGTGCT	0.368													4	25					0	0	0.000602	0	0		A	170878836	A	A	170878836	3	1	76	1	0	0	0	0	1	0	0	0	15669	1000	35	4	832	4	TBP	6	170878836	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	280983	170878836	236231	326	49176											
SDK1	221935	broad.mit.edu	37	chr7	4051851	4051851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagcacaacggggtgttgCgtggatacatcctcaggcaa	11	7	13	10	2	1	1	1	0	0	1	2	2	2	2	1	4	4	3	1	4	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:4051851C>T	uc003smx.2	+	16	2543	c.2404C>T	c.(2404-2406)CGT>TGT	p.R802C	SDK1_uc010kso.2_Missense_Mutation_p.R78C	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	802	Fibronectin type-III 2.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CGGGGTGTTGCGTGGATACAT	0.483													25	119					0	0	0.00333	0	0		T	4051851	T	T	4051851	3	4	76	1	0	0	0	0	1	0	0	0	13993	768	27	1	2466	1	SDK1	7	4051851	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08		4051851	155086812	327	49177											
SDK1	221935	broad.mit.edu	37	chr7	4285315	4285315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcctcatcctaggtccccaCcccggcctagccccggcggc	4	6	10	21	3	1	0	1	0	0	0	4	0	4	0	9	4	1	0	9	4	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:4285315C>T	uc003smx.2	+	44	6398	c.6259C>T	c.(6259-6261)CCC>TCC	p.P2087S	SDK1_uc010kso.2_Missense_Mutation_p.P1343S|SDK1_uc003smy.2_Missense_Mutation_p.P574S|SDK1_uc003smz.2_Missense_Mutation_p.P147S	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	2087	Extracellular (Potential).|Cytoplasmic (Potential).				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TAGGTCCCCACCCCGGCCTAG	0.602													6	44					0	0	0.001984	0	0		T	4285315	T	T	4285315	3	4	76	1	0	0	0	0	1	0	0	0	13993	507	18	4	6433	4	SDK1	7	4285315	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	233464	4285315	154853348	328	49178											
TNRC18	84629	broad.mit.edu	37	chr7	5427330	5427330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttactcagcgacagagagcGctcctggtctaccagcccag	9	7	11	14	2	2	1	1	0	1	1	3	3	3	1	3	1	5	2	3	1	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:5427330G>A	uc003soi.3	-	5	2474	c.2125C>T	c.(2125-2127)CGC>TGC	p.R709C	TNRC18_uc010ksx.1_Missense_Mutation_p.R635C	NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	709							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GACAGAGAGCGCTCCTGGTCT	0.587													7	121					0	0	0.001984	0	0		A	5427330	A	A	5427330	3	1	76	1	0	0	0	0	1	0	0	0	16364	1087	38	1	6885	1	TNRC18	7	5427330	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1142015	5427330	153711333	329	49179											
THSD7A	221981	broad.mit.edu	37	chr7	11675888	11675888	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttttcttaataagctcGcgggcttctggatcctttac	6	17	7	11	2	3	0	0	0	3	0	5	1	4	1	1	2	2	2	1	2	3	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:11675888G>A	uc003ssf.3	-	2	1143	c.891C>T	c.(889-891)CGC>CGT	p.R297R		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	297	Extracellular (Potential).|Potential.					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TAATAAGCTCGCGGGCTTCTG	0.463										HNSCC(18;0.044)			12	98					0	0	0.001855	0	0		A	11675888	A	A	11675888	2	1	76	1	0	0	0	0	0	0	0	1	15904	1074	38	1		1	THSD7A	7	11675888	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	6248558	11675888	147462775	330	49180											
ITGB8	3696	broad.mit.edu	37	chr7	20449534	20449534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtgtttgcacaagagcaGtcacctaccgacgtgagaag	14	7	11	9	2	1	2	1	1	0	2	1	4	1	2	2	0	3	3	2	0	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:20449534G>A	uc003suu.2	+	14	2929	c.2224G>A	c.(2224-2226)GTC>ATC	p.V742I	ITGB8_uc011jyh.1_Missense_Mutation_p.V607I	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	742	Cytoplasmic (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						CACAAGAGCAGTCACCTACCG	0.318													10	58					0	0	0.006214	0	0		A	20449534	A	A	20449534	3	1	76	1	0	0	0	0	1	0	0	0	7917	1029	36	4	2278	4	ITGB8	7	20449534	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	8773646	20449534	138689129	331	49181											
ELMO1	9844	broad.mit.edu	37	chr7	36910077	36910077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggctttgatatctgccaccGgcactgcaattcataaaaga	12	10	8	11	2	2	2	1	1	1	1	2	2	2	2	2	2	2	3	2	2	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:36910077G>A	uc003tfk.1	-	20	2133	c.1826C>T	c.(1825-1827)CCG>CTG	p.P609L	ELMO1_uc003tfi.1_Missense_Mutation_p.P129L|ELMO1_uc003tfj.1_Missense_Mutation_p.P129L|ELMO1_uc011kbb.1_RNA|ELMO1_uc011kbc.1_Missense_Mutation_p.P513L|ELMO1_uc010kxg.1_Missense_Mutation_p.P609L	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	609	PH.				actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						ATCTGCCACCGGCACTGCAAT	0.418													7	49					0	0	0.004482	0	0		A	36910077	A	A	36910077	3	1	76	1	0	0	0	0	1	0	0	0	5073	1116	39	1	369	1	ELMO1	7	36910077	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	16460543	36910077	122228586	332	49182											
ELMO1	9844	broad.mit.edu	37	chr7	37136283	37136283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagctctatactactgcggCcaaagggacattcatgcttg	10	11	9	11	1	3	0	2	0	1	0	3	1	3	1	1	2	5	2	1	2	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:37136283C>T	uc003tfk.1	-	15	1548	c.1241G>A	c.(1240-1242)GGC>GAC	p.G414D	ELMO1_uc011kbc.1_Missense_Mutation_p.G318D|ELMO1_uc010kxg.1_Missense_Mutation_p.G414D	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	414	ELMO.				actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						ACTACTGCGGCCAAAGGGACA	0.433													5	56					0	0	0.001168	0	0		T	37136283	T	T	37136283	3	4	76	1	0	0	0	0	1	0	0	0	5073	739	26	2	974	2	ELMO1	7	37136283	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	226206	37136283	122002380	333	49183											
GLI3	2737	broad.mit.edu	37	chr7	42005555	42005555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgagactgcgcttctccGcggacgtggccatcgccggg	5	6	15	15	7	1	1	0	0	1	1	3	3	1	2	3	3	1	2	3	3	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:42005555G>A	uc011kbh.1	-	15	3207	c.3116C>T	c.(3115-3117)GCG>GTG	p.A1039V	GLI3_uc011kbg.1_Missense_Mutation_p.A980V	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1039					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GCGCTTCTCCGCGGACGTGGC	0.687									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				8	63					0	0	0.004482	0	0		A	42005555	A	A	42005555	3	1	76	1	0	0	0	0	1	0	0	0	6454	1087	38	1	1630	1	GLI3	7	42005555	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4869272	42005555	117133108	334	49184											
PSMA2	5683	broad.mit.edu	37	chr7	42957428	42957428	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaagttccagatcttcAttatatctgaagaatttaaa	14	16	4	7	0	5	3	2	1	3	2	6	3	6	3	1	0	0	1	1	0	7	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:42957428A>G	uc003thy.2	-	7	585	c.537T>C	c.(535-537)AAT>AAC	p.N179N	C7orf25_uc010kxr.2_Intron|PSMA2_uc010kxt.2_Silent_p.N101N	NM_002787	NP_002778	P25787	PSA2_HUMAN	proteasome subunit alpha type 2	179					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|response to virus|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	protein binding|threonine-type endopeptidase activity			large_intestine(2)|ovary(1)	3						CCAGATCTTCATTATATCTGA	0.269													10	31					0	0	0.008291	0	0		G	42957428	G	G	42957428	2	3	76	1	0	0	0	0	0	0	0	1	12689	214	8	3		3	PSMA2	7	42957428	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	951873	42957428	116181235	335	49185											
ADCY1	107	broad.mit.edu	37	chr7	45699644	45699644	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctcctccttttgtaggaaGgttcatatcacaaagacgac	11	11	8	11	1	2	1	2	0	0	1	4	3	4	2	3	2	0	2	3	2	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:45699644G>T	uc003tne.3	+	7	1329	c.1311G>T	c.(1309-1311)AAG>AAT	p.K437N	ADCY1_uc003tnd.2_Missense_Mutation_p.K212N	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	437	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TTTGTAGGAAGGTTCATATCA	0.522													12	54					9.31168e-06	9.83153e-06	0.001855	1	0		T	45699644	T	T	45699644	3	4	76	1	0	0	0	0	1	0	0	0	292	991	35	5	1337	5	ADCY1	7	45699644	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2742216	45699644	113439019	336	49186											
IKZF1	10320	broad.mit.edu	37	chr7	50468038	50468038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgccccgcacgcgcgcaacGggctgtcgctcaaggaggag	7	4	15	15	7	1	0	1	0	0	0	3	2	1	2	2	3	1	4	2	3	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:50468038G>A	uc003tow.3	+	9	1441	c.1273G>A	c.(1273-1275)GGG>AGG	p.G425R	IKZF1_uc003tox.3_Missense_Mutation_p.G383R|IKZF1_uc003toy.3_Missense_Mutation_p.G383R|IKZF1_uc011kck.1_Missense_Mutation_p.G338R|IKZF1_uc003toz.3_Missense_Mutation_p.G395R|IKZF1_uc010kyx.2_Missense_Mutation_p.G165R|IKZF1_uc003tpa.3_Missense_Mutation_p.G167R	NM_006060	NP_006051	Q13422	IKZF1_HUMAN	zinc finger protein, subfamily 1A, 1 (Ikaros)	425				PHARNGL -> RRAQRV (in Ref. 2; AAB50683).	cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding			haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				CGCGCGCAACGGGCTGTCGCT	0.677			D		ALL								6	62					0	0	0.001168	0	0		A	50468038	A	A	50468038	3	1	76	1	0	0	0	0	1	0	0	0	7630	1116	39	1	1299	1	IKZF1	7	50468038	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4768394	50468038	108670625	337	49187											
ZNF716	441234	broad.mit.edu	37	chr7	57522203	57522203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agacatagctatagaattttCtctggcggaatggcaatgcc	12	11	10	8	1	1	2	0	0	1	2	2	3	1	3	1	3	2	2	1	3	6	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:57522203C>T	uc011kdi.1	+	2	189	c.77C>T	c.(76-78)TCT>TTT	p.S26F		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						ATAGAATTTTCTCTGGCGGAA	0.383													11	31					0	0	0.008291	0	0		T	57522203	T	T	57522203	3	4	76	1	0	0	0	0	1	0	0	0	18144	913	32	4	83	4	ZNF716	7	57522203	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	7054165	57522203	101616460	338	49188											
WBSCR17	64409	broad.mit.edu	37	chr7	70853304	70853304	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggccctgtcggtgatccTgcggtccgtgcacagtgccg	4	8	15	14	5	0	1	0	1	0	0	3	2	2	1	4	3	3	1	4	3	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:70853304T>C	uc003tvy.2	+	3	506	c.506T>C	c.(505-507)CTG>CCG	p.L169P	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	169	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TCGGTGATCCTGCGGTCCGTG	0.552													14	60					0	0	0.003163	0	0		C	70853304	C	C	70853304	3	2	76	1	0	0	0	0	1	0	0	0	17290	1580	55	3	516	3	WBSCR17	7	70853304	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	13331101	70853304	88285359	339	49189											
POM121	9883	broad.mit.edu	37	chr7	72416706	72416706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctttcattttccattggtgCgggatccaagaccccagggg	7	11	11	12	1	1	1	1	0	0	1	3	2	3	2	5	4	1	0	5	4	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:72416706C>T	uc003twj.2	+	15	3865	c.2888C>T	c.(2887-2889)GCG>GTG	p.A963V	POM121_uc010lam.1_Intron	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	1228	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				TCCATTGGTGCGGGATCCAAG	0.587													7	55					0	0	0.00308	0	0		T	72416706	T	T	72416706	3	4	76	1	0	0	0	0	1	0	0	0	12258	768	27	1	2934	1	POM121	7	72416706	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1563402	72416706	86721957	340	49190											
BAZ1B	9031	broad.mit.edu	37	chr7	72892375	72892375	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggtgtagggctgcaggAggcagatgtttatgaggttt	9	12	17	3	0	0	3	0	2	0	1	0	4	0	4	0	5	1	6	0	5	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:72892375A>T	uc003tyc.2	-	7	1761	c.1416T>A	c.(1414-1416)CCT>CCA	p.P472P		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	472	Lys-rich.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				GGGCTGCAGGAGGCAGATGTT	0.502													10	71					0	0	0.000978	0	0		T	72892375	T	T	72892375	2	4	76	1	0	0	0	0	0	0	0	1	1331	291	11	5		5	BAZ1B	7	72892375	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	475669	72892375	86246288	341	49191											
MLXIPL	51085	broad.mit.edu	37	chr7	73011913	73011913	+	Frame_Shift_Del	DEL	G	-	-																															ccaggcctggcaccttggcaGggggagggtaatgcagcaga																										TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:73011913delG	uc003tyn.1	-	9	1250	c.1202delC	c.(1201-1203)CCTfs	p.P401fs	MLXIPL_uc003tyj.1_5'UTR|MLXIPL_uc003tyk.1_Frame_Shift_Del_p.P401fs|MLXIPL_uc003tyl.1_Frame_Shift_Del_p.P401fs|MLXIPL_uc003tym.1_Frame_Shift_Del_p.P401fs|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_Frame_Shift_Del_p.P308fs|MLXIPL_uc003tyq.1_Frame_Shift_Del_p.P143fs	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	401					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				CACCTTGGCAGGGGGAGGGTA	0.647													4	7	---	---	---	---						.	-	73011913	-	-	73011913	7	5	76	1	0	1	0	1	0	0	0	0	9655	1000	35	0	1392	0	MLXIPL	7	73011913	Frame_Shift_Del	DEL	G	TCGA-BR-8382-01A-11D-2394-08	119538	73011913	86126750	342	49192											
ELN	2006	broad.mit.edu	37	chr7	73462021	73462021	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtggctatggactgccCtacaccacagggaaactgcc	10	6	11	14	0	0	0	0	0	0	0	0	2	0	2	4	4	4	1	4	4	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:73462021C>A	uc003tzw.2	+	13	751	c.660C>A	c.(658-660)CCC>CCA	p.P220P	RFC2_uc011kfa.1_Intron|ELN_uc003tzm.1_Intron|ELN_uc011kfe.1_Silent_p.P189P|ELN_uc003tzn.2_Silent_p.P220P|ELN_uc003tzz.2_Intron|ELN_uc003tzo.2_Intron|ELN_uc003tzp.2_Silent_p.P176P|ELN_uc003tzq.2_Intron|ELN_uc003tzr.2_RNA|ELN_uc003tzs.2_Silent_p.P220P|ELN_uc003tzt.2_Silent_p.P225P|ELN_uc003tzu.2_Silent_p.P225P|ELN_uc003tzv.2_Silent_p.P210P|ELN_uc003tzx.2_Silent_p.P210P|ELN_uc011kff.1_Silent_p.P220P|ELN_uc003tzy.2_Silent_p.P215P	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	220					blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	ATGGACTGCCCTACACCACAG	0.597			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						16	79					2.5808e-16	2.90407e-16	0.006122	1	0		A	73462021	A	A	73462021	2	1	76	1	0	0	0	0	0	0	0	1	5079	668	24	5		5	ELN	7	73462021	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	450108	73462021	85676642	343	49193											
GTF2I	2969	broad.mit.edu	37	chr7	74129222	74129222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatgaaaaacagcccctatCgaagcctttgcaaggtataa	15	9	8	9	1	0	2	0	2	0	0	1	3	0	2	3	1	4	2	3	1	7	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:74129222C>T	uc003uau.2	+	10	1179	c.809C>T	c.(808-810)TCG>TTG	p.S270L	GTF2I_uc003uat.2_Intron|GTF2I_uc003uav.2_Missense_Mutation_p.S270L|GTF2I_uc003uaw.2_Intron|GTF2I_uc003uay.2_Missense_Mutation_p.S269L|GTF2I_uc003uax.2_Intron|uc003uaz.2_Intron	NM_032999	NP_127492	P78347	GTF2I_HUMAN	general transcription factor IIi isoform 1	270					negative regulation of angiogenesis|signal transduction|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0						CAGCCCCTATCGAAGCCTTTG	0.363													12	83					0	0	0.003163	0	0		T	74129222	T	T	74129222	3	4	76	1	0	0	0	0	1	0	0	0	6883	893	31	1	843	1	GTF2I	7	74129222	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	667201	74129222	85009441	344	49194											
HIP1	3092	broad.mit.edu	37	chr7	75203108	75203108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgacagtgtagtcataaaGgtggctgcagtccaagatga	12	10	12	7	0	1	3	1	2	0	1	2	3	2	3	1	2	1	3	1	2	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:75203108G>A	uc003uds.1	-	8	744	c.703C>T	c.(703-705)CTT>TTT	p.L235F	HIP1_uc011kfz.1_Missense_Mutation_p.L112F	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	235					activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						TAGTCATAAAGGTGGCTGCAG	0.567			T	PDGFRB	CMML								9	60					0	0	0.006214	0	0		A	75203108	A	A	75203108	3	1	76	1	0	0	0	0	1	0	0	0	7130	1000	35	4	2506	4	HIP1	7	75203108	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1073886	75203108	83935555	345	49195											
HEPACAM2	253012	broad.mit.edu	37	chr7	92855767	92855767	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctgtcccatgcatgcaGtgccctgttctcagtggtaa	7	12	9	13	0	1	0	1	0	1	0	4	0	3	0	3	1	3	4	3	1	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:92855767G>T	uc003umm.2	-	1	16	c.-7C>A	c.(-9--5)CACTG>CAATG		HEPACAM2_uc011khy.1_Translation_Start_Site	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1							integral to membrane				ovary(3)|breast(1)|kidney(1)	5						CATGCATGCAGTGCCCTGTTC	0.498													7	41					0.000157383	0.000163448	0.00308	1	0		T	92855767	T	T	92855767	1	4	76	1	0	0	0	0	0	0	0	0	7069	1044	36	5		5	HEPACAM2	7	92855767	Translation_Start_Site	SNP	G	TCGA-BR-8382-01A-11D-2394-08	17652659	92855767	66282896	346	49196											
LMTK2	22853	broad.mit.edu	37	chr7	97822238	97822238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtacctcctacctccttcGaaacagaagaaacgccccgt	12	7	7	15	3	0	2	0	0	0	2	3	3	2	2	6	1	4	1	6	1	5	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:97822238G>A	uc003upd.1	+	11	2754	c.2461G>A	c.(2461-2463)GAA>AAA	p.E821K		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	821					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					TACCTCCTTCGAAACAGAAGA	0.537													32	111					0	0	0.002096	0	0		A	97822238	A	A	97822238	3	1	76	1	0	0	0	0	1	0	0	0	8876	1059	37	1	2503	1	LMTK2	7	97822238	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4966471	97822238	61316425	347	49197											
TRRAP	8295	broad.mit.edu	37	chr7	98559064	98559064	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccgtccacagccttctcTcgcgcctgatgagcattttc	6	11	9	15	3	1	2	0	2	1	0	5	3	2	2	4	0	3	1	4	0	0	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:98559064T>C	uc003upp.2	+	45	6858	c.6649T>C	c.(6649-6651)TCG>CCG	p.S2217P	TRRAP_uc011kis.1_Missense_Mutation_p.S2199P|TRRAP_uc003upr.2_Missense_Mutation_p.S1916P	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2217	Interaction with TP53.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CAGCCTTCTCTCGCGCCTGAT	0.557													16	85					0	0	0.007413	0	0		C	98559064	C	C	98559064	3	2	76	1	0	0	0	0	1	0	0	0	16627	1551	54	3	6765	3	TRRAP	7	98559064	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	736826	98559064	60579599	348	49198											
STAG3	10734	broad.mit.edu	37	chr7	99796140	99796140	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacgcggattgtgagagcgtCtacccagttgtgtatgcctc	7	11	13	10	3	1	1	0	1	1	1	2	4	1	2	2	1	3	2	2	1	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:99796140C>T	uc003utx.1	+	13	1442	c.1287C>T	c.(1285-1287)GTC>GTT	p.V429V	STAG3_uc010lgs.1_Silent_p.V217V|STAG3_uc011kjk.1_Silent_p.V371V|STAG3_uc003uub.1_5'Flank	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	429					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GTGAGAGCGTCTACCCAGTTG	0.517													6	103					0	0	0.001984	0	0		T	99796140	T	T	99796140	2	4	76	1	0	0	0	0	0	0	0	1	15269	900	32	4		4	STAG3	7	99796140	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1237076	99796140	59342523	349	49199											
C7orf51	222950	broad.mit.edu	37	chr7	100086950	100086950	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcctggcctccccccacAgccttccggacccaactgta	6	7	8	20	1	0	0	0	0	0	0	2	1	2	1	8	2	3	2	8	2	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:100086950A>C	uc003uvd.1	+	4	1765	c.1606A>C	c.(1606-1608)AGC>CGC	p.S536R	C7orf51_uc003uve.1_Missense_Mutation_p.S318R	NM_173564	NP_775835	Q6ZVC0	CG051_HUMAN	hypothetical protein FLJ37538	536										skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CTCCCCCCACAGCCTTCCGGA	0.701													9	24					0	0	0.004482	0	0		C	100086950	C	C	100086950	3	2	76	1	0	0	0	0	1	0	0	0	2403	188	7	5	1616	5	C7orf51	7	100086950	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	290810	100086950	59051713	350	49200											
MUC17	140453	broad.mit.edu	37	chr7	100687017	100687017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggaccacttccttccccaCggtgaccaccaccgctgtcc	7	7	7	20	3	0	1	0	1	0	0	3	2	3	2	8	2	0	1	8	2	0	2	rs150141937	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:100687017C>T	uc003uxp.1	+	3	12373	c.12320C>T	c.(12319-12321)ACG>ATG	p.T4107M	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	4107	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TCCTTCCCCACGGTGACCACC	0.537													18	99					0	0	0.00499	0	0		T	100687017	T	T	100687017	3	4	76	1	0	0	0	0	1	0	0	0	9992	536	19	1	12330	1	MUC17	7	100687017	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	600067	100687017	58451646	351	49201											
CUX1	1523	broad.mit.edu	37	chr7	101926330	101926330	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggttcgctgaccacctgcAcaagttccacgagaatgaca	12	7	9	13	2	0	3	0	2	0	1	2	4	1	3	3	1	1	4	3	1	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:101926330A>G	uc003uyt.2	+	23	2004	c.1985A>G	c.(1984-1986)CAC>CGC	p.H662R	CUX1_uc011kkn.1_Missense_Mutation_p.H623R|CUX1_uc003uyw.2_Missense_Mutation_p.H616R|CUX1_uc003uyv.2_Missense_Mutation_p.H646R|CUX1_uc003uyu.2_Missense_Mutation_p.H660R|CUX1_uc003uyz.2_RNA|SH2B2_uc011kko.1_5'Flank	NM_001913	NP_001904	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform b	Error:Variant_position_missing_in_P39880_after_alignment					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						GACCACCTGCACAAGTTCCAC	0.642													5	55					0	0	0.000602	0	0		G	101926330	G	G	101926330	3	3	76	1	0	0	0	0	1	0	0	0	4067	159	6	3	5445	3	CUX1	7	101926330	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1239313	101926330	57212333	352	49202											
POLR2J	5439	broad.mit.edu	37	chr7	102114856	102114856	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcactgatgaggtcggtgatGgcgttggtaaaggcttcctg	7	12	15	7	2	1	3	1	3	0	0	3	3	2	3	1	5	0	3	1	5	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:102114856G>A	uc003uzp.1	-	3	344	c.270C>T	c.(268-270)GCC>GCT	p.A90A		NM_006234	NP_006225	P52435	RPB11_HUMAN	DNA directed RNA polymerase II polypeptide J	90					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|LRR domain binding|protein dimerization activity			pancreas(1)	1						GGTCGGTGATGGCGTTGGTAA	0.632													25	150					0	0	0.003271	0	0		A	102114856	A	A	102114856	2	1	76	1	0	0	0	0	0	0	0	1	12242	1335	47	4		4	POLR2J	7	102114856	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	188526	102114856	57023807	353	49203											
RELN	5649	broad.mit.edu	37	chr7	103130255	103130255	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtgcccgctgcagagctTggggcaagcctctccaatgt	6	9	12	14	2	1	1	0	0	1	1	3	1	2	1	4	2	4	4	4	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:103130255T>C	uc003vca.2	-	60	9857	c.9697A>G	c.(9697-9699)AAG>GAG	p.K3233E	RELN_uc010liz.2_Missense_Mutation_p.K3233E	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3233	EGF-like 8.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CTGCAGAGCTTGGGGCAAGCC	0.527													4	48					0	0	0.009096	0	0		C	103130255	C	C	103130255	3	2	76	1	0	0	0	0	1	0	0	0	13245	1821	63	3	709	3	RELN	7	103130255	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	1015399	103130255	56008408	354	49204											
PRKAR2B	5577	broad.mit.edu	37	chr7	106797730	106797730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtaactaacaaacctcgaGcagcttctgcccacgccatt	11	9	7	14	2	1	0	0	0	1	0	2	1	1	0	3	1	6	3	3	1	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:106797730G>A	uc003vdx.2	+	10	1259	c.1084G>A	c.(1084-1086)GCA>ACA	p.A362T		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	362	cAMP 2.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						CAAACCTCGAGCAGCTTCTGC	0.488													9	29					0	0	0.006214	0	0		A	106797730	A	A	106797730	3	1	76	1	0	0	0	0	1	0	0	0	12528	971	34	2	1122	2	PRKAR2B	7	106797730	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3667475	106797730	52340933	355	49205											
SLC26A4	5172	broad.mit.edu	37	chr7	107303783	107303783	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgctaaagactcttgtGcccatcttggagtggctccc	6	12	12	11	0	2	1	0	0	2	1	3	2	3	2	2	3	2	2	2	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:107303783G>A	uc003vep.2	+	3	431	c.207G>A	c.(205-207)GTG>GTA	p.V69V	LOC286002_uc003veo.3_5'Flank	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	69	Cytoplasmic (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						AGACTCTTGTGCCCATCTTGG	0.468									Pendred_syndrome				14	66					0	0	0.003163	0	0		A	107303783	A	A	107303783	2	1	76	1	0	0	0	0	0	0	0	1	14544	1306	46	2		2	SLC26A4	7	107303783	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	506053	107303783	51834880	356	49206											
LAMB4	22798	broad.mit.edu	37	chr7	107703425	107703425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgggactcacgccggaagCatggcaggagcatcctgtga	10	6	14	11	2	1	1	1	1	0	0	2	4	2	4	2	4	2	3	2	4	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:107703425C>T	uc010ljo.1	-	23	3160	c.3076G>A	c.(3076-3078)GCT>ACT	p.A1026T	LAMB4_uc003vey.2_Missense_Mutation_p.A1026T|LAMB4_uc010ljp.1_5'UTR	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	1026	Laminin EGF-like 11.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						ACGCCGGAAGCATGGCAGGAG	0.512													7	34					0	0	0.001984	0	0		T	107703425	T	T	107703425	3	4	76	1	0	0	0	0	1	0	0	0	8629	710	25	2	2257	2	LAMB4	7	107703425	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	399642	107703425	51435238	357	49207											
LAMB4	22798	broad.mit.edu	37	chr7	107706317	107706317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctggacacaggcaaggaCgacagggctgtcctgaagaa	13	5	13	10	1	1	2	0	1	1	1	2	5	2	4	1	4	0	2	1	4	3	0	rs146445677		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:107706317C>T	uc010ljo.1	-	21	2810	c.2726G>A	c.(2725-2727)CGT>CAT	p.R909H	LAMB4_uc003vey.2_Missense_Mutation_p.R909H|LAMB4_uc010ljp.1_5'Flank	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	909	Laminin EGF-like 8.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						CAGGCAAGGACGACAGGGCTG	0.418													16	81					0	0	0.004007	0	0		T	107706317	T	T	107706317	3	4	76	1	0	0	0	0	1	0	0	0	8629	536	19	1	2615	1	LAMB4	7	107706317	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2892	107706317	51432346	358	49208											
LRRN3	54674	broad.mit.edu	37	chr7	110763995	110763995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaccaacattcgattcatGgagccagattcactgttttg	13	12	7	9	1	2	1	2	0	0	1	3	3	2	2	2	1	3	1	2	1	3	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:110763995G>A	uc003vft.3	+	4	2213	c.1167G>A	c.(1165-1167)ATG>ATA	p.M389I	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.M389I|LRRN3_uc003vfs.3_Missense_Mutation_p.M389I	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	389	Extracellular (Potential).|LRRCT.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		TTCGATTCATGGAGCCAGATT	0.458													9	53					0	0	0.004482	0	0		A	110763995	A	A	110763995	3	1	76	1	0	0	0	0	1	0	0	0	9054	1348	47	4	1169	4	LRRN3	7	110763995	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3057678	110763995	48374668	359	49209											
C7orf60	154743	broad.mit.edu	37	chr7	112462157	112462157	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagcttttcatcatcataGcatgacggttctgatgggag	9	13	10	9	1	4	2	3	2	1	0	5	3	5	3	1	2	2	3	1	2	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:112462157G>A	uc003vgo.1	-	5	987	c.860C>T	c.(859-861)GCT>GTT	p.A287V	C7orf60_uc011kms.1_Missense_Mutation_p.A313V	NM_152556	NP_689769	Q1RMZ1	CG060_HUMAN	hypothetical protein LOC154743	287										ovary(2)|skin(1)	3						CATCATCATAGCATGACGGTT	0.398													17	54					0	0	0.00499	0	0		A	112462157	A	A	112462157	3	1	76	1	0	0	0	0	1	0	0	0	2410	971	34	2	361	2	C7orf60	7	112462157	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1698162	112462157	46676506	360	49210											
PPP1R3A	5506	broad.mit.edu	37	chr7	113519374	113519374	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggttaacacagcttcttcCcaacttaaatttgtccttgg	9	14	8	10	0	1	0	0	0	1	0	3	0	3	0	2	3	3	2	2	3	4	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:113519374C>T	uc010ljy.1	-	4	1804	c.1773G>A	c.(1771-1773)TGG>TGA	p.W591*		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	591					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						CAGCTTCTTCCCAACTTAAAT	0.473													13	99					0	0	0.001368	0	0		T	113519374	T	T	113519374	4	4	76	1	0	0	0	0	0	1	0	0	12393	624	22	4	1599	4	PPP1R3A	7	113519374	Nonsense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1057217	113519374	45619289	361	49211											
GRM8	2918	broad.mit.edu	37	chr7	126544078	126544078	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccccttctgcaatctcCtcttgctgatagacaggtgc	8	11	8	14	0	3	2	0	1	3	1	4	2	3	2	3	1	4	2	3	1	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:126544078C>A	uc003vlr.2	-	4	1277	c.966G>T	c.(964-966)GAG>GAT	p.E322D	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.E322D|GRM8_uc010lkz.1_RNA|GRM8_uc003vlu.1_Missense_Mutation_p.E43D	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	322	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	CTGCAATCTCCTCTTGCTGAT	0.418										HNSCC(24;0.065)			25	97					1.85244e-09	2.03147e-09	0.00333	1	0		A	126544078	A	A	126544078	3	1	76	1	0	0	0	0	1	0	0	0	6819	680	24	5	1838	5	GRM8	7	126544078	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	13024704	126544078	32594585	362	49212											
FAM71F1	84691	broad.mit.edu	37	chr7	128359092	128359092	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaggattcttgtcacgcaCtgcctggtacccaagaactg	9	10	9	13	1	2	1	1	0	1	1	2	2	2	2	3	2	3	2	3	2	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:128359092C>G	uc003vno.1	+	3	695	c.642C>G	c.(640-642)CAC>CAG	p.H214Q	FAM71F1_uc010llo.1_Missense_Mutation_p.H115Q|FAM71F1_uc011koq.1_Missense_Mutation_p.H106Q|FAM71F1_uc003vnm.1_RNA|FAM71F1_uc003vnn.1_Missense_Mutation_p.H115Q|FAM71F1_uc010llp.1_RNA|FAM71F1_uc003vnp.1_Missense_Mutation_p.H214Q	NM_032599	NP_115988	Q96KD3	F71F1_HUMAN	testes development-related NYD-SP18	214										skin(1)	1						TTGTCACGCACTGCCTGGTAC	0.532													15	106					0	0	0.008871	0	0		G	128359092	G	G	128359092	3	3	76	1	0	0	0	0	1	0	0	0	5626	564	20	5	652	5	FAM71F1	7	128359092	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1815014	128359092	30779571	363	49213											
FAM71F1	84691	broad.mit.edu	37	chr7	128370103	128370103	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggcagcctccaccgggcCacagctggccccacccatag	7	5	10	19	1	1	0	0	0	1	0	2	0	2	0	7	3	2	2	7	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:128370103C>A	uc003vno.1	+	6	1054	c.1001C>A	c.(1000-1002)CCA>CAA	p.P334Q	FAM71F1_uc003vnm.1_RNA|FAM71F1_uc003vnn.1_Missense_Mutation_p.P233Q|FAM71F1_uc003vnp.1_Missense_Mutation_p.P332Q	NM_032599	NP_115988	Q96KD3	F71F1_HUMAN	testes development-related NYD-SP18	334										skin(1)	1						TCCACCGGGCCACAGCTGGCC	0.632													19	141					8.00594e-06	8.46118e-06	0.007413	1	0		A	128370103	A	A	128370103	3	1	76	1	0	0	0	0	1	0	0	0	5626	594	21	5	1023	5	FAM71F1	7	128370103	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	11011	128370103	30768560	364	49214											
NRF1	4899	broad.mit.edu	37	chr7	129317486	129317486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaggaaacttcgagccaCgttagatgaatatactactc	14	11	7	9	2	1	2	1	1	0	1	3	4	1	3	1	1	4	1	1	1	6	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:129317486C>T	uc003voz.2	+	4	470	c.353C>T	c.(352-354)ACG>ATG	p.T118M	NRF1_uc003vpa.2_Missense_Mutation_p.T118M|NRF1_uc011kpa.1_Translation_Start_Site|NRF1_uc003vpb.2_Missense_Mutation_p.T118M	NM_005011	NP_005002	Q16656	NRF1_HUMAN	nuclear respiratory factor 1	118					generation of precursor metabolites and energy|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						CTTCGAGCCACGTTAGATGAA	0.393													14	76					0	0	0.001855	0	0		T	129317486	T	T	129317486	3	4	76	1	0	0	0	0	1	0	0	0	10665	536	19	1	363	1	NRF1	7	129317486	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	947383	129317486	29821177	365	49215											
AKR1B1	231	broad.mit.edu	37	chr7	134135550	134135550	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccataccttaaagccagtCggccagtgaataaggtagag	13	8	10	10	1	0	2	0	1	0	1	2	2	1	2	4	2	2	1	4	2	6	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:134135550C>T	uc003vrp.1	-	3	413	c.339G>A	c.(337-339)CCG>CCA	p.P113P	AKR1B1_uc003vrq.1_RNA	NM_001628	NP_001619	P15121	ALDR_HUMAN	aldo-keto reductase family 1, member B1	113					C21-steroid hormone biosynthetic process|carbohydrate metabolic process|response to stress	cytosol|extracellular space|nucleus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding	p.P113L(1)		ovary(3)	3					NADH(DB00157)|Sulindac(DB00605)	TAAAGCCAGTCGGCCAGTGAA	0.562													10	52					0	0	0.000978	0	0		T	134135550	T	T	134135550	2	4	76	1	0	0	0	0	0	0	0	1	466	871	31	1		1	AKR1B1	7	134135550	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4818064	134135550	25003113	366	49216											
CHRM2	1129	broad.mit.edu	37	chr7	136700458	136700458	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggagaggagaaggagagCtccaatgactccacctcagt	13	5	13	10	0	1	4	1	1	0	3	3	7	3	4	3	3	1	1	3	3	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:136700458C>T	uc003vtf.1	+	4	1469	c.846C>T	c.(844-846)AGC>AGT	p.S282S	CHRM2_uc003vtg.1_Silent_p.S282S|CHRM2_uc003vtj.1_Silent_p.S282S|CHRM2_uc003vtk.1_Silent_p.S282S|CHRM2_uc003vtl.1_Silent_p.S282S|CHRM2_uc003vtm.1_Silent_p.S282S|CHRM2_uc003vti.1_Silent_p.S282S|CHRM2_uc003vto.1_Silent_p.S282S|CHRM2_uc003vtn.1_Silent_p.S282S|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	282	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	AGAAGGAGAGCTCCAATGACT	0.502													10	45					0	0	0.008291	0	0		T	136700458	T	T	136700458	2	4	76	1	0	0	0	0	0	0	0	1	3380	796	28	2		2	CHRM2	7	136700458	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2564908	136700458	22438205	367	49217											
ATP6V0A4	50617	broad.mit.edu	37	chr7	138444498	138444498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcccaaggttcccaccGtcacaggatcctccagaggg	9	6	11	15	1	1	1	1	0	0	1	4	2	4	2	5	3	2	2	5	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:138444498G>A	uc003vuf.2	-	7	876	c.638C>T	c.(637-639)ACG>ATG	p.T213M	ATP6V0A4_uc003vug.2_Missense_Mutation_p.T213M|ATP6V0A4_uc003vuh.2_Missense_Mutation_p.T213M	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	213	Cytoplasmic (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						GGTTCCCACCGTCACAGGATC	0.522													6	38					0	0	0.001168	0	0		A	138444498	A	A	138444498	3	1	76	1	0	0	0	0	1	0	0	0	1171	1159	40	1	1944	1	ATP6V0A4	7	138444498	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1744040	138444498	20694165	368	49218											
KIAA1549	57670	broad.mit.edu	37	chr7	138603675	138603675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggtgcgaaaagctgaccGaaaggtgtggaaatgactgg	14	6	16	5	2	0	3	0	2	0	1	0	6	0	4	1	4	2	1	1	4	4	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:138603675G>A	uc011kql.1	-	2	746	c.697C>T	c.(697-699)CGG>TGG	p.R233W	KIAA1549_uc003vuk.3_Missense_Mutation_p.R183W|KIAA1549_uc011kqj.1_Missense_Mutation_p.R233W	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	233						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						AAAGCTGACCGAAAGGTGTGG	0.493			O	BRAF	pilocytic astrocytoma								26	118					0	0	0.005443	0	0		A	138603675	A	A	138603675	3	1	76	1	0	0	0	0	1	0	0	0	8260	1057	37	1	5231	1	KIAA1549	7	138603675	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	159177	138603675	20534988	369	49219											
DENND2A	27147	broad.mit.edu	37	chr7	140301723	140301723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttgacctgcttcagcaCggagaggggatcgttctgaa	8	12	12	9	2	3	3	1	2	2	1	4	5	3	4	1	3	2	3	1	3	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:140301723C>T	uc010lnj.2	-	1	620	c.475G>A	c.(475-477)GTG>ATG	p.V159M	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.V159M|DENND2A_uc003vvw.2_Missense_Mutation_p.V159M|DENND2A_uc003vvx.2_Missense_Mutation_p.V159M	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	159										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					TGCTTCAGCACGGAGAGGGGA	0.592													27	109					0	0	0.003954	0	0		T	140301723	T	T	140301723	3	4	76	1	0	0	0	0	1	0	0	0	4435	536	19	1	2626	1	DENND2A	7	140301723	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1698048	140301723	18836940	370	49220											
EPHA1	2041	broad.mit.edu	37	chr7	143096874	143096874	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggcctggggctggcccgCgcgtggggcaagcaggtccc	4	4	20	13	3	0	0	0	0	0	0	1	1	1	0	3	7	1	3	3	7	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:143096874C>T	uc003wcz.2	-	4	792	c.705G>A	c.(703-705)GCG>GCA	p.A235A		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	235	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				GGCTGGCCCGCGCGTGGGGCA	0.677													6	23					0	0	0.001168	0	0		T	143096874	T	T	143096874	2	4	76	1	0	0	0	0	0	0	0	1	5173	755	27	1		1	EPHA1	7	143096874	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2795151	143096874	16041789	371	49221											
LOC441294	441294	broad.mit.edu	37	chr7	143268907	143268907	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccgccagagcagcctcgaCgctatggaggagcccggtgc	8	4	15	14	4	0	1	0	0	0	1	1	5	0	3	4	3	4	2	4	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:143268907C>T	uc011kth.1	+	1	18	c.-3C>T	c.(-5--1)GACGC>GATGC			NM_001008747	NP_001008747	A4D2H0	A4D2H0_HUMAN	hypothetical protein LOC441294												0	Melanoma(164;0.0903)					GCAGCCTCGACGCTATGGAGG	0.617													7	121					0	0	0.000978	0	0		T	143268907	T	T	143268907	1	4	76	1	0	0	0	0	0	0	0	0	8898	551	19	1		1	LOC441294	7	143268907	Translation_Start_Site	SNP	C	TCGA-BR-8382-01A-11D-2394-08	172033	143268907	15869756	372	49222											
CNTNAP2	26047	broad.mit.edu	37	chr7	147675027	147675027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggttggagatactgacCgtcaaggctcagaagccaaa	12	8	13	8	1	2	3	2	1	0	2	2	4	2	3	2	4	2	2	2	4	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:147675027C>T	uc003weu.1	+	15	2845	c.2329C>T	c.(2329-2331)CGT>TGT	p.R777C		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	777	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			AGATACTGACCGTCAAGGCTC	0.478										HNSCC(39;0.1)			9	58					0	0	0.004482	0	0		T	147675027	T	T	147675027	3	4	76	1	0	0	0	0	1	0	0	0	3650	652	23	1	2387	1	CNTNAP2	7	147675027	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4406120	147675027	11463636	373	49223											
CUL1	8454	broad.mit.edu	37	chr7	148454198	148454198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatagacattgggttcgcCgtgaatgtgacgaaggacga	12	9	13	7	4	1	3	1	2	0	1	2	6	1	4	1	2	0	1	1	2	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:148454198C>T	uc010lpg.2	+	4	965	c.439C>T	c.(439-441)CGT>TGT	p.R147C	CUL1_uc003wey.2_Missense_Mutation_p.R147C|CUL1_uc003wez.2_Missense_Mutation_p.R37C	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	147					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			TTGGGTTCGCCGTGAATGTGA	0.313													11	44					0	0	0.001855	0	0		T	148454198	T	T	148454198	3	4	76	1	0	0	0	0	1	0	0	0	4057	652	23	1	449	1	CUL1	7	148454198	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	779171	148454198	10684465	374	49224											
MLL3	58508	broad.mit.edu	37	chr7	151960144	151960144	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactgatttcataactggtTgaagacaaaaagtatgatac	16	12	8	5	0	1	4	1	3	0	1	1	4	1	4	0	1	3	3	0	1	7	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr7:151960144T>C	uc003wla.2	-	9	1475	c.1256A>G	c.(1255-1257)CAA>CGA	p.Q419R		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	419	PHD-type 2.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CATAACTGGTTGAAGACAAAA	0.333			N		medulloblastoma								10	59					0	0	0.000978	0	0		C	151960144	C	C	151960144	3	2	76	1	0	0	0	0	1	0	0	0	9640	1812	63	3	13683	3	MLL3	7	151960144	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3505946	151960144	7178519	375	49225											
TNKS	8658	broad.mit.edu	37	chr8	9564436	9564436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagccatggcgctgatcctaCattagtcaactgccatggca	10	10	9	12	1	1	1	1	1	0	0	2	1	2	1	3	2	4	2	3	2	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:9564436C>T	uc003wss.2	+	8	1390	c.1385C>T	c.(1384-1386)ACA>ATA	p.T462I	TNKS_uc011kwv.1_Missense_Mutation_p.T462I|TNKS_uc011kww.1_Missense_Mutation_p.T225I	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	462	ANK 6.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		GCTGATCCTACATTAGTCAAC	0.468													6	45					0	0	0.001168	0	0		T	9564436	T	T	9564436	3	4	76	1	0	0	0	0	1	0	0	0	16344	478	17	4	1415	4	TNKS	8	9564436	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08		9564436	136799586	376	49226											
SOX7	83595	broad.mit.edu	37	chr8	10584161	10584161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctgggacagcgtcagcGccttccacgactttcctgct	5	12	9	15	3	3	0	1	0	2	0	5	2	5	1	3	1	3	1	3	1	0	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:10584161G>A	uc003wtf.2	-	2	333	c.254C>T	c.(253-255)GCG>GTG	p.A85V	SOX7_uc011kwz.1_Missense_Mutation_p.A137V|uc003wtg.1_5'Flank	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	85	HMG box.				endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		CAGCGTCAGCGCCTTCCACGA	0.542													9	47					0	0	0.006214	0	0		A	10584161	A	A	10584161	3	1	76	1	0	0	0	0	1	0	0	0	14981	1087	38	1	916	1	SOX7	8	10584161	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1019725	10584161	135779861	377	49227											
TUSC3	7991	broad.mit.edu	37	chr8	15480617	15480617	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaaaaagtagagcagcTgatggaatggagttccagac	15	7	13	6	0	0	4	0	2	0	2	1	6	1	6	1	2	3	5	1	2	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:15480617T>C	uc003wwt.2	+	2	377	c.167T>C	c.(166-168)CTG>CCG	p.L56P	TUSC3_uc003wwr.2_Missense_Mutation_p.L56P|TUSC3_uc003wws.2_Missense_Mutation_p.L56P|TUSC3_uc003wwu.2_Missense_Mutation_p.L56P|TUSC3_uc003wwv.2_Missense_Mutation_p.L56P|TUSC3_uc003www.2_Missense_Mutation_p.L56P|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.L56P	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	56					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		GTAGAGCAGCTGATGGAATGG	0.338													13	50					0	0	0.001855	0	0		C	15480617	C	C	15480617	3	2	76	1	0	0	0	0	1	0	0	0	16804	1580	55	3	173	3	TUSC3	8	15480617	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	4896456	15480617	130883405	378	49228											
SLC7A2	6542	broad.mit.edu	37	chr8	17401103	17401103	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagtgatggctggcctctgCtatgccgaatttggggcccg	5	11	14	11	2	2	1	1	1	1	0	2	2	2	1	3	4	2	2	3	4	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:17401103C>T	uc011kyc.1	+	2	424	c.255C>T	c.(253-255)TGC>TGT	p.C85C	SLC7A2_uc011kyd.1_Silent_p.C125C|SLC7A2_uc011kye.1_Silent_p.C125C|SLC7A2_uc011kyf.1_Silent_p.C85C	NM_001008539	NP_001008539	P52569	CTR2_HUMAN	solute carrier family 7, member 2 isoform 2	85	Cytoplasmic (Potential).				cellular amino acid metabolic process|ion transport	cytoplasm|integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity			ovary(2)|skin(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	L-Lysine(DB00123)|L-Ornithine(DB00129)	CTGGCCTCTGCTATGCCGAAT	0.587													13	72					0	0	0.001368	0	0		T	17401103	T	T	17401103	2	4	76	1	0	0	0	0	0	0	0	1	14722	805	28	2		2	SLC7A2	8	17401103	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1920486	17401103	128962919	379	49229											
XPO7	23039	broad.mit.edu	37	chr8	21827021	21827021	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcccagttactggcagctAcatgccttaccaagcttgta	10	11	7	13	0	0	0	0	0	0	0	1	0	1	0	3	1	6	5	3	1	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:21827021A>G	uc003xaa.3	+	3	295	c.193A>G	c.(193-195)ACA>GCA	p.T65A	XPO7_uc010lti.2_Missense_Mutation_p.T65A|XPO7_uc010ltj.1_RNA|XPO7_uc010ltk.2_Missense_Mutation_p.T66A	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	65	Importin N-terminal.				mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		ACTGGCAGCTACATGCCTTAC	0.408													4	32					0	0	0.009096	0	0		G	21827021	G	G	21827021	3	3	76	1	0	0	0	0	1	0	0	0	17475	391	14	3	228	3	XPO7	8	21827021	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	4425918	21827021	124537001	380	49230											
FGF17	8822	broad.mit.edu	37	chr8	21905676	21905676	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccttccccaaccacgcCgagaagcagaagcagttcga	11	5	9	16	3	0	2	0	0	0	2	2	4	1	2	5	0	4	3	5	0	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:21905676C>T	uc003xag.2	+	5	579	c.567C>T	c.(565-567)GCC>GCT	p.A189A	FGF17_uc003xah.2_Silent_p.A178A|FGF17_uc003xai.2_Silent_p.A212A	NM_003867	NP_003858	O60258	FGF17_HUMAN	fibroblast growth factor 17 precursor	189					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|nervous system development	extracellular space	growth factor activity|type 1 fibroblast growth factor receptor binding|type 2 fibroblast growth factor receptor binding				0				Colorectal(74;8.48e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0618)		CCAACCACGCCGAGAAGCAGA	0.706													7	44					0	0	0.00308	0	0		T	21905676	T	T	21905676	2	4	76	1	0	0	0	0	0	0	0	1	5859	639	23	1		1	FGF17	8	21905676	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	78655	21905676	124458346	381	49231											
NUDT18	79873	broad.mit.edu	37	chr8	21965188	21965188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacacccacactgtctgggCgctggtaaaggtagccacga	11	7	11	12	2	1	0	0	0	1	0	1	1	1	0	2	3	2	3	2	3	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:21965188C>T	uc003xaq.1	-	6	714	c.595G>A	c.(595-597)GCC>ACC	p.A199T	NUDT18_uc003xar.1_3'UTR	NM_024815	NP_079091	Q6ZVK8	NUD18_HUMAN	nudix (nucleoside diphosphate linked moiety	199							hydrolase activity|metal ion binding|protein binding				0				Colorectal(74;0.00185)|COAD - Colon adenocarcinoma(73;0.0608)|READ - Rectum adenocarcinoma(5;0.0986)		ACTGTCTGGGCGCTGGTAAAG	0.612													13	65					0	0	0.001855	0	0		T	21965188	T	T	21965188	3	4	76	1	0	0	0	0	1	0	0	0	10754	768	27	1	380	1	NUDT18	8	21965188	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	59512	21965188	124398834	382	49232											
SLC39A14	23516	broad.mit.edu	37	chr8	22273425	22273425	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgagctggacggcaaggcGcccatggtggacgagaaggt	10	5	18	8	3	0	2	0	1	0	1	0	5	0	4	1	6	1	2	1	6	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:22273425G>A	uc003xbq.3	+	6	1069	c.894G>A	c.(892-894)GCG>GCA	p.A298A	SLC39A14_uc011kzg.1_Silent_p.A298A|SLC39A14_uc003xbp.3_Silent_p.A298A|SLC39A14_uc011kzh.1_Silent_p.A298A	NM_001128431	NP_001121903	Q15043	S39AE_HUMAN	solute carrier family 39 (zinc transporter),	298	Cytoplasmic (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|lamellipodium|plasma membrane	zinc ion transmembrane transporter activity				0				Colorectal(74;0.019)|COAD - Colon adenocarcinoma(73;0.0731)		ACGGCAAGGCGCCCATGGTGG	0.602													23	155					0	0	0.003954	0	0		A	22273425	A	A	22273425	2	1	76	1	0	0	0	0	0	0	0	1	14642	1074	38	1		1	SLC39A14	8	22273425	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	308237	22273425	124090597	383	49233											
ADRA1A	148	broad.mit.edu	37	chr8	26721669	26721669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccgaccacgatgcccagcGttttggccgctttcttctcc	5	11	9	16	4	2	0	0	0	2	0	3	2	2	0	5	1	3	2	5	1	0	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:26721669G>A	uc003xfh.1	-	1	1254	c.818C>T	c.(817-819)ACG>ATG	p.T273M	ADRA1A_uc003xfc.1_Missense_Mutation_p.T273M|ADRA1A_uc010lul.1_Missense_Mutation_p.T273M|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.T273M|ADRA1A_uc010lum.1_Missense_Mutation_p.T273M|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.T273M	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	273	Cytoplasmic (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	GATGCCCAGCGTTTTGGCCGC	0.582													9	53					0	0	0.004482	0	0		A	26721669	A	A	26721669	3	1	76	1	0	0	0	0	1	0	0	0	334	1145	40	1	881	1	ADRA1A	8	26721669	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4448244	26721669	119642353	384	49234											
PTK2B	2185	broad.mit.edu	37	chr8	27293788	27293788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccacagtatggcattgccCgtgaagatgtggtcctgaat	9	11	12	9	1	0	3	0	2	0	1	2	3	2	3	3	2	1	2	3	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:27293788C>T	uc003xfn.1	+	20	2072	c.1264C>T	c.(1264-1266)CGT>TGT	p.R422C	PTK2B_uc003xfo.1_Missense_Mutation_p.R422C|PTK2B_uc003xfp.1_Missense_Mutation_p.R422C|PTK2B_uc003xfq.1_Missense_Mutation_p.R422C|PTK2B_uc010luq.1_Missense_Mutation_p.R180C|PTK2B_uc003xfr.1_Missense_Mutation_p.R168C	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	422					apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		TGGCATTGCCCGTGAAGATGT	0.493													34	168					0	0	0.003755	0	0		T	27293788	T	T	27293788	3	4	76	1	0	0	0	0	1	0	0	0	12786	652	23	1	1318	1	PTK2B	8	27293788	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	572119	27293788	119070234	385	49235											
NRG1	3084	broad.mit.edu	37	chr8	32621514	32621514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttccaccacaaccccgCgcatgacagtaacagcctcc	10	6	5	20	2	0	1	0	1	0	0	3	1	3	1	7	0	3	2	7	0	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:32621514C>T	uc003xiv.2	+	12	2034	c.1517C>T	c.(1516-1518)GCG>GTG	p.A506V	NRG1_uc010lvo.2_3'UTR|NRG1_uc003xiu.2_Missense_Mutation_p.A511V|NRG1_uc003xiw.2_Missense_Mutation_p.A503V|NRG1_uc003xit.2_3'UTR|NRG1_uc010lvr.2_Missense_Mutation_p.A248V|NRG1_uc010lvs.2_Missense_Mutation_p.A248V|NRG1_uc010lvp.2_Missense_Mutation_p.A460V|NRG1_uc010lvq.2_Missense_Mutation_p.A443V|NRG1_uc011lbg.1_3'UTR|NRG1_uc011lbh.1_Missense_Mutation_p.A349V|NRG1_uc003xja.2_Missense_Mutation_p.A317V	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	506	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		CACAACCCCGCGCATGACAGT	0.547													13	77					0	0	0.00245	0	0		T	32621514	T	T	32621514	3	4	76	1	0	0	0	0	1	0	0	0	10666	768	27	1	3288	1	NRG1	8	32621514	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	5327726	32621514	113742508	386	49236											
UNC5D	137970	broad.mit.edu	37	chr8	35647984	35647984	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactccctggcctgtgcccTtgaagagattgggaggacac	8	9	13	11	0	0	3	0	2	0	1	1	6	1	5	3	3	1	0	3	3	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:35647984T>G	uc003xjr.1	+	17	3093	c.2765T>G	c.(2764-2766)CTT>CGT	p.L922R	UNC5D_uc003xjs.1_Missense_Mutation_p.L917R|UNC5D_uc003xju.1_Missense_Mutation_p.L498R	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	922	Death.|Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		GCCTGTGCCCTTGAAGAGATT	0.478													18	73					0	0	0.00499	0	0		G	35647984	G	G	35647984	3	3	76	1	0	0	0	0	1	0	0	0	17021	1609	56	5	2831	5	UNC5D	8	35647984	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3026470	35647984	110716038	387	49237											
CHRNB3	1142	broad.mit.edu	37	chr8	42565570	42565570	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgacaaccaatgtgtggcTcaaacaggtaaatttcaatc	15	10	8	8	0	2	1	2	1	0	0	3	2	2	1	1	2	2	2	1	2	6	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:42565570T>C	uc003xpi.1	+	3	370	c.242T>C	c.(241-243)CTC>CCC	p.L81P		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	81	Extracellular (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			AATGTGTGGCTCAAACAGGTA	0.308													5	36					0	0	0.001168	0	0		C	42565570	C	C	42565570	3	2	76	1	0	0	0	0	1	0	0	0	3395	1551	54	3	252	3	CHRNB3	8	42565570	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	6917586	42565570	103798452	388	49238											
PRKDC	5591	broad.mit.edu	37	chr8	48772214	48772214	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggtctagggtcttgggaGctgtatgaatagctctgaac	9	11	14	7	0	3	2	0	2	3	0	3	3	3	3	0	3	3	4	0	3	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:48772214G>T	uc003xqi.2	-	47	6222	c.6165C>A	c.(6163-6165)AGC>AGA	p.S2055R	PRKDC_uc003xqj.2_Missense_Mutation_p.S2055R|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2055					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				GGTCTTGGGAGCTGTATGAAT	0.443								NHEJ					22	167					0.00188189	0.00193207	0.001882	1	0		T	48772214	T	T	48772214	3	4	76	1	0	0	0	0	1	0	0	0	12543	962	34	5	6385	5	PRKDC	8	48772214	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	6206644	48772214	97591808	389	49239											
RGS20	8601	broad.mit.edu	37	chr8	54791937	54791937	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctccggcgaccccctccCgaggctccccggaggcgcct	3	6	11	21	5	1	0	0	0	1	0	4	3	3	1	7	4	0	1	7	4	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:54791937C>T	uc003xrp.2	+	2	377	c.285C>T	c.(283-285)CCC>CCT	p.P95P	RGS20_uc003xrq.2_Intron|RGS20_uc010lye.2_Intron|RGS20_uc010lyf.2_Intron|RGS20_uc003xrr.2_5'Flank|RGS20_uc003xrs.2_5'Flank|RGS20_uc003xrt.2_5'Flank	NM_170587	NP_733466	O76081	RGS20_HUMAN	regulator of G-protein signaling 20 isoform a	95					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|nucleus|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(7;1.37e-06)|Epithelial(17;0.000126)|all cancers(17;0.0009)			GACCCCCTCCCGAGGCTCCCC	0.726													41	138					0	0	0.00623	0	0		T	54791937	T	T	54791937	2	4	76	1	0	0	0	0	0	0	0	1	13328	639	23	1		1	RGS20	8	54791937	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	6019723	54791937	91572085	390	49240											
MTFR1	9650	broad.mit.edu	37	chr8	66619471	66619471	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaaagagatgaacagtgtAaaacttcggtcagtgaagag	16	9	11	5	1	1	4	1	2	0	2	2	5	1	4	0	1	2	1	0	1	6	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:66619471A>G	uc003xvm.2	+	6	956	c.744A>G	c.(742-744)GTA>GTG	p.V248V	MTFR1_uc011lep.1_Silent_p.V248V|MTFR1_uc003xvn.2_Silent_p.V215V|MTFR1_uc003xvo.1_Silent_p.V238V	NM_014637	NP_055452	Q15390	MTFR1_HUMAN	mitochondrial fission regulator 1 isoform 1	248						mitochondrion|plasma membrane				pancreas(1)	1			Epithelial(68;0.0526)|BRCA - Breast invasive adenocarcinoma(89;0.156)|all cancers(69;0.171)|OV - Ovarian serous cystadenocarcinoma(28;0.194)			TGAACAGTGTAAAACTTCGGT	0.383													10	56					0	0	0.008291	0	0		G	66619471	G	G	66619471	2	3	76	1	0	0	0	0	0	0	0	1	9943	349	13	3		3	MTFR1	8	66619471	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	11827534	66619471	79744551	391	49241											
TRIM55	84675	broad.mit.edu	37	chr8	67039509	67039509	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggacagcgaggagatgagCgcatctctgaattacaaatc	13	7	13	8	2	1	3	0	2	1	1	3	6	1	4	0	3	3	1	0	3	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:67039509C>T	uc003xvv.2	+	1	232	c.6C>T	c.(4-6)AGC>AGT	p.S2S	TRIM55_uc003xvu.2_Silent_p.S2S|TRIM55_uc003xvw.2_Silent_p.S2S|TRIM55_uc003xvx.2_Silent_p.S2S	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	2						cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			AGGAGATGAGCGCATCTCTGA	0.478													10	81					0	0	0.000978	0	0		T	67039509	T	T	67039509	2	4	76	1	0	0	0	0	0	0	0	1	16555	767	27	1		1	TRIM55	8	67039509	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	420038	67039509	79324513	392	49242											
CSPP1	79848	broad.mit.edu	37	chr8	68105705	68105705	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctaactacaggatagcAgtcgtcctaatgtagcacca	12	12	7	10	1	1	0	0	0	1	0	3	1	2	1	2	1	4	3	2	1	5	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:68105705A>G	uc003xxi.2	+	30	3458	c.3427A>G	c.(3427-3429)AGT>GGT	p.S1143G	ARFGEF1_uc003xxl.1_Intron|CSPP1_uc003xxj.2_Missense_Mutation_p.S1108G|CSPP1_uc003xxk.2_Missense_Mutation_p.S763G|CSPP1_uc010lyw.2_Intron	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	1143						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			ACAGGATAGCAGTCGTCCTAA	0.323													12	54					0	0	0.001855	0	0		G	68105705	G	G	68105705	3	3	76	1	0	0	0	0	1	0	0	0	3965	188	7	3	3545	3	CSPP1	8	68105705	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1066196	68105705	78258317	393	49243											
PREX2	80243	broad.mit.edu	37	chr8	68864748	68864748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaccgagcgggactatgtggGcacgctggagttcctggtgt	6	9	17	9	3	0	0	0	0	0	0	1	4	1	2	2	4	1	3	2	4	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:68864748G>A	uc003xxv.1	+	1	146	c.119G>A	c.(118-120)GGC>GAC	p.G40D	PREX2_uc003xxu.1_Missense_Mutation_p.G40D|PREX2_uc011lez.1_Missense_Mutation_p.G40D|PREX2_uc003xxt.2_Missense_Mutation_p.G40D	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	40	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GACTATGTGGGCACGCTGGAG	0.612													6	31					0	0	0.001984	0	0		A	68864748	A	A	68864748	3	1	76	1	0	0	0	0	1	0	0	0	12499	1203	42	2	121	2	PREX2	8	68864748	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	759043	68864748	77499274	394	49244											
PREX2	80243	broad.mit.edu	37	chr8	68972999	68972999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacaagcattattagaaaatGgaatcattcaccatggtaat	17	11	7	6	0	2	1	2	0	0	1	2	3	2	2	1	2	1	2	1	2	7	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:68972999G>A	uc003xxv.1	+	11	1351	c.1324G>A	c.(1324-1326)GGA>AGA	p.G442R	PREX2_uc003xxu.1_Missense_Mutation_p.G442R|PREX2_uc011lez.1_Missense_Mutation_p.G377R	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	442	DEP 1.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ATTAGAAAATGGAATCATTCA	0.348													23	52					0	0	0.003954	0	0		A	68972999	A	A	68972999	3	1	76	1	0	0	0	0	1	0	0	0	12499	1349	47	4	1366	4	PREX2	8	68972999	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	108251	68972999	77391023	395	49245											
SULF1	23213	broad.mit.edu	37	chr8	70533371	70533371	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagcacgcggaacctctaCgctcgcggcttccatgacaa	10	6	10	15	5	1	2	0	1	1	1	3	3	2	3	2	2	3	3	2	2	3	2	rs146435519		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:70533371C>T	uc010lza.1	+	14	2196	c.1479C>T	c.(1477-1479)TAC>TAT	p.Y493Y	SULF1_uc003xyd.2_Silent_p.Y493Y|SULF1_uc003xye.2_Silent_p.Y493Y|SULF1_uc003xyf.2_Silent_p.Y493Y|SULF1_uc003xyg.2_Silent_p.Y493Y|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	493					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			GGAACCTCTACGCTCGCGGCT	0.512													16	82					0	0	0.003163	0	0		T	70533371	T	T	70533371	2	4	76	1	0	0	0	0	0	0	0	1	15395	547	19	1		1	SULF1	8	70533371	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1560372	70533371	75830651	396	49246											
NCOA2	10499	broad.mit.edu	37	chr8	71036947	71036947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgcccatgttcccctgcGcccatccatttatgtcggag	5	12	8	16	3	0	0	0	0	0	0	4	1	3	1	6	1	1	1	6	1	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:71036947G>A	uc003xyn.1	-	20	4232	c.4070C>T	c.(4069-4071)GCG>GTG	p.A1357V	NCOA2_uc011lfb.1_Missense_Mutation_p.A445V	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	1357					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			GTTCCCCTGCGCCCATCCATT	0.557			T	RUNXBP2	AML								7	51					0	0	0.001984	0	0		A	71036947	A	A	71036947	3	1	76	1	0	0	0	0	1	0	0	0	10248	1087	38	1	340	1	NCOA2	8	71036947	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	503576	71036947	75327075	397	49247											
ZFHX4	79776	broad.mit.edu	37	chr8	77618450	77618450	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttgtaactactctaccacTaccaaaggcaacctcagtat	13	11	5	12	0	2	0	1	0	1	0	2	0	2	0	3	1	5	4	3	1	7	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:77618450T>C	uc003yav.2	+	2	2514	c.2127T>C	c.(2125-2127)ACT>ACC	p.T709T	ZFHX4_uc003yat.1_Silent_p.T709T|ZFHX4_uc003yau.1_Silent_p.T709T|ZFHX4_uc003yaw.1_Silent_p.T709T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	709	C2H2-type 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACTCTACCACTACCAAAGGCA	0.493										HNSCC(33;0.089)			4	44					0	0	0.000602	0	0		C	77618450	C	C	77618450	2	2	76	1	0	0	0	0	0	0	0	1	17660	1509	53	3		3	ZFHX4	8	77618450	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	6581503	77618450	68745572	398	49248											
ESRP1	54845	broad.mit.edu	37	chr8	95690487	95690487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagttattcctacagaaGctgccatttaccagccctct	9	12	6	14	0	1	1	0	0	1	1	2	1	2	1	4	0	6	3	4	0	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:95690487G>A	uc003ygq.3	+	13	1891	c.1708G>A	c.(1708-1710)GCT>ACT	p.A570T	ESRP1_uc003ygr.3_Missense_Mutation_p.A566T|ESRP1_uc003ygs.3_Missense_Mutation_p.A566T|ESRP1_uc003ygt.3_Missense_Mutation_p.A570T|ESRP1_uc003ygu.3_Missense_Mutation_p.A566T|ESRP1_uc003ygv.2_Missense_Mutation_p.A410T|ESRP1_uc003ygw.2_Missense_Mutation_p.A410T	NM_017697	NP_060167	Q6NXG1	ESRP1_HUMAN	RNA binding motif protein 35A isoform 1	570					mRNA processing|regulation of RNA splicing|RNA splicing	nucleus|plasma membrane	mRNA binding|nucleotide binding		ESRP1/RAF1(4)	prostate(4)	4						TCCTACAGAAGCTGCCATTTA	0.488													6	51					0	0	0.00308	0	0		A	95690487	A	A	95690487	3	1	76	1	0	0	0	0	1	0	0	0	5266	971	34	2	1758	2	ESRP1	8	95690487	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	18072037	95690487	50673535	399	49249											
PLEKHF2	79666	broad.mit.edu	37	chr8	96166659	96166659	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaatcatataaataaatgTgttactgatttactctccaa	16	15	4	6	0	2	2	1	2	1	0	3	2	2	2	1	0	2	1	1	0	9	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:96166659T>G	uc003yhn.1	+	2	634	c.387T>G	c.(385-387)TGT>TGG	p.C129W		NM_024613	NP_078889	Q9H8W4	PKHF2_HUMAN	phafin 2	129	PH.					transport vesicle	metal ion binding|protein binding			ovary(2)	2	Breast(36;3.18e-05)					TAAATAAATGTGTTACTGATT	0.408													25	93					0	0	0.004656	0	0		G	96166659	G	G	96166659	3	3	76	1	0	0	0	0	1	0	0	0	12086	1702	59	5	389	5	PLEKHF2	8	96166659	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	476172	96166659	50197363	400	49250											
GDF6	392255	broad.mit.edu	37	chr8	97157634	97157634	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggctggtggcccccagggCgctgagggcgcctggcgaaa	5	4	18	14	4	0	1	0	1	0	0	0	2	0	1	4	6	0	2	4	6	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:97157634C>T	uc003yhp.2	-	2	625	c.525G>A	c.(523-525)GCG>GCA	p.A175A		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	175					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GCCCCCAGGGCGCTGAGGGCG	0.672													3	9					0	0	0.004672	0	0		T	97157634	T	T	97157634	2	4	76	1	0	0	0	0	0	0	0	1	6332	755	27	1		1	GDF6	8	97157634	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	990975	97157634	49206388	401	49251											
TSPYL5	85453	broad.mit.edu	37	chr8	98289667	98289667	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgccggtttccaacgcgggGggcatttttcggccttccca	5	10	12	14	5	0	0	0	0	0	0	3	0	2	0	4	5	1	2	4	5	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:98289667G>T	uc003yhy.2	-	1	510	c.406C>A	c.(406-408)CCC>ACC	p.P136T		NM_033512	NP_277047	Q86VY4	TSYL5_HUMAN	TSPY-like 5	136					cellular response to gamma radiation|nucleosome assembly|positive regulation of cell proliferation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|regulation of growth	nucleus	protein binding			large_intestine(1)|ovary(1)	2	Breast(36;2.56e-06)					CCAACGCGGGGGGCATTTTTC	0.682													15	71					2.61681e-11	2.8992e-11	0.00245	1	0		T	98289667	T	T	98289667	3	4	76	1	0	0	0	0	1	0	0	0	16688	1232	43	5	851	5	TSPYL5	8	98289667	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1132033	98289667	48074355	402	49252											
VPS13B	157680	broad.mit.edu	37	chr8	100148975	100148975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacaatggagaacactagtgGcaaaggtattggcttctttc	12	12	10	7	0	1	1	0	0	1	1	2	2	1	1	0	4	2	3	0	4	6	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:100148975G>A	uc003yiv.2	+	12	1757	c.1646G>A	c.(1645-1647)GGC>GAC	p.G549D	VPS13B_uc003yiw.2_Missense_Mutation_p.G549D|VPS13B_uc003yit.2_Missense_Mutation_p.G549D|VPS13B_uc003yiu.1_Missense_Mutation_p.G549D|VPS13B_uc003yix.1_Missense_Mutation_p.G20D	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	549					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AACACTAGTGGCAAAGGTATT	0.423													13	96					0	0	0.001855	0	0		A	100148975	A	A	100148975	3	1	76	1	0	0	0	0	1	0	0	0	17216	1203	42	2	1730	2	VPS13B	8	100148975	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1859308	100148975	46215047	403	49253											
NCALD	83988	broad.mit.edu	37	chr8	102731539	102731539	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttccgtccaggtcgtacaTgctgaaggcccatttcagct	8	12	9	12	2	1	1	1	1	0	0	4	1	3	1	3	2	3	3	3	2	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:102731539T>C	uc003yke.2	-	2	688	c.319A>G	c.(319-321)ATG>GTG	p.M107V	NCALD_uc003ykf.2_Missense_Mutation_p.M107V|NCALD_uc003ykg.2_Missense_Mutation_p.M107V|NCALD_uc003ykh.2_Missense_Mutation_p.M107V|NCALD_uc003yki.2_Missense_Mutation_p.M107V|NCALD_uc003ykj.2_Missense_Mutation_p.M107V|NCALD_uc003ykk.2_Missense_Mutation_p.M107V|NCALD_uc003ykl.2_Missense_Mutation_p.M107V	NM_032041	NP_114430	P61601	NCALD_HUMAN	neurocalcin delta	107	EF-hand 3.				synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)			AGGTCGTACATGCTGAAGGCC	0.473													28	147					0	0	0.007291	0	0		C	102731539	C	C	102731539	3	2	76	1	0	0	0	0	1	0	0	0	10220	1464	51	3	274	3	NCALD	8	102731539	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2582564	102731539	43632483	404	49254											
ODF1	4956	broad.mit.edu	37	chr8	103564043	103564043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcaactgagatgcatcgacGaatttagcacacggtgcctg	11	8	12	10	3	0	1	0	1	0	1	1	4	0	1	1	2	4	3	1	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:103564043G>A	uc003ykt.2	+	1	196	c.88G>A	c.(88-90)GAA>AAA	p.E30K		NM_024410	NP_077721	Q14990	ODFP1_HUMAN	outer dense fiber of sperm tails 1	30					cell differentiation|multicellular organismal development|spermatogenesis	outer dense fiber	structural molecule activity			ovary(2)	2	all_cancers(14;2.76e-05)|all_epithelial(15;4.54e-08)|Lung NSC(17;4.08e-05)|all_lung(17;9.15e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000125)|STAD - Stomach adenocarcinoma(118;0.0826)			ATGCATCGACGAATTTAGCAC	0.493													31	165					0	0	0.009535	0	0		A	103564043	A	A	103564043	3	1	76	1	0	0	0	0	1	0	0	0	10845	1059	37	1	90	1	ODF1	8	103564043	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	832504	103564043	42799979	405	49255											
LRP12	29967	broad.mit.edu	37	chr8	105601048	105601048	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggggacgcggacacttaccGtacaccccagcgaggaaaag	12	3	13	13	5	0	0	0	0	0	0	0	4	0	3	3	4	3	1	3	4	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:105601048G>A	uc003yma.2	-	1	173	c.78C>T	c.(76-78)TAC>TAT	p.Y26Y	LRP12_uc003ymb.2_Silent_p.Y26Y|LRP12_uc003ymc.3_Silent_p.Y26Y	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	26					endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GACACTTACCGTACACCCCAG	0.637													4	29					0	0	0.001168	0	0		A	105601048	A	A	105601048	2	1	76	1	0	0	0	0	0	0	0	1	8972	1159	40	1		1	LRP12	8	105601048	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2037005	105601048	40762974	406	49256											
TMEM74	157753	broad.mit.edu	37	chr8	109796921	109796921	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcccagccaagctccccaGggtgattatgcccttttgct	6	13	8	14	0	0	1	0	1	0	0	2	1	2	1	5	1	4	2	5	1	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:109796921G>T	uc003ymy.1	-	2	512	c.407C>A	c.(406-408)CCT>CAT	p.P136H	TMEM74_uc003ymx.2_Intron	NM_153015	NP_694560	Q96NL1	TMM74_HUMAN	transmembrane protein 74	136					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(57;3.08e-10)			AAGCTCCCCAGGGTGATTATG	0.478													14	89					7.93312e-07	8.47562e-07	0.00245	1	0		T	109796921	T	T	109796921	3	4	76	1	0	0	0	0	1	0	0	0	16227	1000	35	5	514	5	TMEM74	8	109796921	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4195873	109796921	36567101	407	49257											
PKHD1L1	93035	broad.mit.edu	37	chr8	110439310	110439310	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggaagaatctcagttacAcgagagggaacctgtgctgg	12	8	14	7	1	1	2	1	0	1	2	2	5	1	4	1	3	3	2	1	3	4	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:110439310A>G	uc003yne.2	+	25	3029	c.2925A>G	c.(2923-2925)ACA>ACG	p.T975T		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	975	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TCTCAGTTACACGAGAGGGAA	0.552										HNSCC(38;0.096)			23	82					0	0	0.00278	0	0		G	110439310	G	G	110439310	2	3	76	1	0	0	0	0	0	0	0	1	11991	146	6	3		3	PKHD1L1	8	110439310	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	642389	110439310	35924712	408	49258											
PKHD1L1	93035	broad.mit.edu	37	chr8	110477120	110477120	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctggaattgagactaagAggatcctggctccttatgtt	10	12	12	7	0	0	2	0	1	0	2	2	5	2	4	2	4	0	3	2	4	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:110477120A>C	uc003yne.2	+	49	8163	c.8059A>C	c.(8059-8061)AGG>CGG	p.R2687R		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2687	Extracellular (Potential).|PbH1 3.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TGAGACTAAGAGGATCCTGGC	0.458										HNSCC(38;0.096)			21	75					0	0	0.008871	0	0		C	110477120	C	C	110477120	2	2	76	1	0	0	0	0	0	0	0	1	11991	295	11	5		5	PKHD1L1	8	110477120	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	37810	110477120	35886902	409	49259											
EXT1	2131	broad.mit.edu	37	chr8	118830694	118830694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctctctccttcaatgaCgacgacaggcacagcagtgg	9	9	10	13	2	2	1	1	1	1	0	4	3	3	1	1	2	2	3	1	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:118830694C>T	uc003yok.1	-	7	2385	c.1612G>A	c.(1612-1614)GTC>ATC	p.V538I		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	538	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			CCTTCAATGACGACGACAGGC	0.527			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				31	159					0	0	0.003755	0	0		T	118830694	T	T	118830694	3	4	76	1	0	0	0	0	1	0	0	0	5331	536	19	1	648	1	EXT1	8	118830694	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	8353574	118830694	27533328	410	49260											
TRMT12	55039	broad.mit.edu	37	chr8	125464402	125464402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcttcagcaggtgcatGggaaaccatggaagacacaa	13	8	10	10	0	3	1	1	0	2	1	3	3	3	3	1	3	3	2	1	3	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:125464402G>A	uc003yra.3	+	1	1355	c.1234G>A	c.(1234-1236)GGG>AGG	p.G412R		NM_017956	NP_060426	Q53H54	TYW2_HUMAN	homolog of yeast tRNA methyltransferase 12	412					tRNA processing		methyltransferase activity			upper_aerodigestive_tract(1)	1	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			GCAGGTGCATGGGAAACCATG	0.512													8	47					0	0	0.004482	0	0		A	125464402	A	A	125464402	3	1	76	1	0	0	0	0	1	0	0	0	16590	1348	47	4	1236	4	TRMT12	8	125464402	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	6633708	125464402	20899620	411	49261											
POU5F1B	5462	broad.mit.edu	37	chr8	128429156	128429156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtctttcccccagtctccGtcatcactctgggctctccc	5	12	6	18	1	6	0	2	0	4	0	9	0	7	0	4	1	0	1	4	1	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:128429156G>A	uc003ysf.2	+	1	1300	c.1045G>A	c.(1045-1047)GTC>ATC	p.V349I	uc003ysc.1_Intron|uc003ysd.1_Intron|LOC727677_uc003yse.1_Intron|uc011liu.1_5'Flank	NM_001159542	NP_001153014	Q06416	P5F1B_HUMAN	POU class 5 homeobox 1B	349						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CCCAGTCTCCGTCATCACTCT	0.577													7	14					0	0	0.00308	0	0		A	128429156	A	A	128429156	3	1	76	1	0	0	0	0	1	0	0	0	12301	1145	40	1	1047	1	POU5F1B	8	128429156	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2964754	128429156	17934866	412	49262											
ASAP1	50807	broad.mit.edu	37	chr8	131072825	131072825	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacattgtcccacccacCgtattgatttttctgggcag	8	13	8	12	1	1	2	0	2	1	0	2	2	2	2	3	1	1	2	3	1	2	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:131072825C>T	uc003yta.1	-	27	3220	c.3192G>A	c.(3190-3192)ACG>ACA	p.T1064T	ASAP1_uc003ysz.1_Silent_p.T875T|ASAP1_uc011liw.1_Silent_p.T1057T	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	1064					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TCCCACCCACCGTATTGATTT	0.527													38	237					0	0	0.00623	0	0		T	131072825	T	T	131072825	2	4	76	1	0	0	0	0	0	0	0	1	1011	666	23	1		1	ASAP1	8	131072825	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2643669	131072825	15291197	413	49263											
ST3GAL1	6482	broad.mit.edu	37	chr8	134472060	134472060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccaaggtggccgtcaCgttagactcaaagtctgcat	10	8	13	10	2	3	1	2	0	1	1	3	2	3	2	2	4	1	2	2	4	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:134472060C>T	uc003yuk.2	-	10	1799	c.970G>A	c.(970-972)GTG>ATG	p.V324M	ST3GAL1_uc003yum.2_Missense_Mutation_p.V324M	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	324	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			GTGGCCGTCACGTTAGACTCA	0.562													25	173					0	0	0.00278	0	0		T	134472060	T	T	134472060	3	4	76	1	0	0	0	0	1	0	0	0	15239	536	19	1	56	1	ST3GAL1	8	134472060	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3399235	134472060	11891962	414	49264											
ST3GAL1	6482	broad.mit.edu	37	chr8	134472082	134472082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagactcaaagtctgcatcGtgcacccccgtcttgcgaaa	10	10	8	13	3	3	1	1	0	2	1	4	2	3	1	2	0	3	2	2	0	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:134472082G>A	uc003yuk.2	-	10	1777	c.948C>T	c.(946-948)CAC>CAT	p.H316H	ST3GAL1_uc003yum.2_Silent_p.H316H	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	316	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			AGTCTGCATCGTGCACCCCCG	0.572													26	190					0	0	0.00333	0	0		A	134472082	A	A	134472082	2	1	76	1	0	0	0	0	0	0	0	1	15239	1136	40	1		1	ST3GAL1	8	134472082	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	22	134472082	11891940	415	49265											
KHDRBS3	10656	broad.mit.edu	37	chr8	136657326	136657326	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgattactatgattacggAcatggactcagtgaggagac	12	10	12	7	1	1	4	1	3	0	1	1	7	1	6	0	3	2	1	0	3	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:136657326A>G	uc003yuv.2	+	8	1309	c.915A>G	c.(913-915)GGA>GGG	p.G305G	KHDRBS3_uc003yuw.2_3'UTR|KHDRBS3_uc010mek.2_RNA	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal	305	Tyr-rich.				regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			ATGATTACGGACATGGACTCA	0.423													7	85					0	0	0.001984	0	0		G	136657326	G	G	136657326	2	3	76	1	0	0	0	0	0	0	0	1	8164	262	10	3		3	KHDRBS3	8	136657326	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	2185244	136657326	9706696	416	49266											
FAM135B	51059	broad.mit.edu	37	chr8	139164495	139164495	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgagagaagcctggatgccGcttggcaaacttgtgttact	9	11	13	8	1	0	2	0	1	0	1	0	4	0	3	2	2	4	3	2	2	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:139164495G>A	uc003yuy.2	-	13	2394	c.2223C>T	c.(2221-2223)AGC>AGT	p.S741S	FAM135B_uc003yux.2_Silent_p.S642S|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Silent_p.S303S|FAM135B_uc003yvb.2_Silent_p.S303S	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	741										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CCTGGATGCCGCTTGGCAAAC	0.527										HNSCC(54;0.14)			5	44					0	0	0.000602	0	0		A	139164495	A	A	139164495	2	1	76	1	0	0	0	0	0	0	0	1	5460	1078	38	1		1	FAM135B	8	139164495	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2507169	139164495	7199527	417	49267											
SLC45A4	57210	broad.mit.edu	37	chr8	142228396	142228396	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcgcgacggcttgatcAgcaccacggcgttggcgcgc	5	7	15	14	7	1	1	1	1	0	0	1	2	1	1	1	3	3	4	1	3	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:142228396A>G	uc003ywd.1	-	4	1498	c.1190T>C	c.(1189-1191)CTG>CCG	p.L397P	SLC45A4_uc003ywc.1_Missense_Mutation_p.L397P|SLC45A4_uc010meq.1_Missense_Mutation_p.L395P	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	448					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CGGCTTGATCAGCACCACGGC	0.692													15	101					0	0	0.007413	0	0		G	142228396	G	G	142228396	3	3	76	1	0	0	0	0	1	0	0	0	14668	188	7	3	1226	3	SLC45A4	8	142228396	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	3063901	142228396	4135626	418	49268											
TSNARE1	203062	broad.mit.edu	37	chr8	143412317	143412317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctaaggactgaaggctccGctccaaggaggtcactgccc	9	6	11	15	1	1	1	1	1	0	0	3	3	3	3	4	4	1	2	4	4	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:143412317G>A	uc003ywk.2	-	6	956	c.838C>T	c.(838-840)CGG>TGG	p.R280W	TSNARE1_uc011lju.1_Missense_Mutation_p.R280W|TSNARE1_uc003ywj.2_Missense_Mutation_p.R280W|TSNARE1_uc003ywl.3_Missense_Mutation_p.R61W	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	280					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					TGAAGGCTCCGCTCCAAGGAG	0.632													8	55					0	0	0.00308	0	0		A	143412317	A	A	143412317	3	1	76	1	0	0	0	0	1	0	0	0	16656	1086	38	1	735	1	TSNARE1	8	143412317	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1183921	143412317	2951705	419	49269											
ZNF623	9831	broad.mit.edu	37	chr8	144732141	144732141	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgaaaactcacataggacGacgtcagacagactcacggt	15	6	10	10	3	3	3	3	1	0	2	3	6	3	4	0	2	1	0	0	2	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:144732141G>A	uc003yzd.2	+	1	188	c.99G>A	c.(97-99)ACG>ACA	p.T33T	ZNF623_uc011lkp.1_5'UTR|ZNF623_uc003yzc.2_5'UTR	NM_014789	NP_055604	O75123	ZN623_HUMAN	zinc finger protein 623 isoform 1	33					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;5.28e-40)|all cancers(56;5.23e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CACATAGGACGACGTCAGACA	0.483													14	66					0	0	0.00245	0	0		A	144732141	A	A	144732141	2	1	76	1	0	0	0	0	0	0	0	1	18072	1045	37	1		1	ZNF623	8	144732141	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1319824	144732141	1631881	420	49270											
EPPK1	83481	broad.mit.edu	37	chr8	144940477	144940477	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagagggagatctgctgcccGgtgtaggggtcggtgtagcc	7	8	18	8	2	1	2	0	0	1	2	2	3	1	2	2	5	3	3	2	5	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:144940477G>T	uc003zaa.1	-	2	14968	c.14955C>A	c.(14953-14955)ACC>ACA	p.T4985T		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	4985	Plectin 63.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TCTGCTGCCCGGTGTAGGGGT	0.711													25	474					2.41591e-17	2.72137e-17	0.004656	1	0		T	144940477	T	T	144940477	2	4	76	1	0	0	0	0	0	0	0	1	5198	1103	39	5		5	EPPK1	8	144940477	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	208336	144940477	1423545	421	49271											
EPPK1	83481	broad.mit.edu	37	chr8	144942153	144942153	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctttctttatgatttgtaGcaggtacaggcccgtctcgg	6	15	10	10	2	2	1	0	1	2	0	4	1	3	1	2	3	2	3	2	3	3	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:144942153G>A	uc003zaa.1	-	1	5282	c.5269C>T	c.(5269-5271)CTA>TTA	p.L1757L		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1757						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ATGATTTGTAGCAGGTACAGG	0.542													16	91					0	0	0.003163	0	0		A	144942153	A	A	144942153	2	1	76	1	0	0	0	0	0	0	0	1	5198	962	34	2		2	EPPK1	8	144942153	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1676	144942153	1421869	422	49272											
PLEC	5339	broad.mit.edu	37	chr8	144993942	144993942	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccactgccctgcagcagCgtccgcacggagcccagctc	7	4	11	19	3	0	0	0	0	0	0	2	1	1	1	4	1	7	4	4	1	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:144993942C>T	uc003zaf.1	-	32	10628	c.10458G>A	c.(10456-10458)ACG>ACA	p.T3486T	PLEC_uc003zab.1_Silent_p.T3349T|PLEC_uc003zac.1_Silent_p.T3353T|PLEC_uc003zad.2_Silent_p.T3349T|PLEC_uc003zae.1_Silent_p.T3317T|PLEC_uc003zag.1_Silent_p.T3327T|PLEC_uc003zah.2_Silent_p.T3335T|PLEC_uc003zaj.2_Silent_p.T3376T	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3486	Plectin 12.|Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CCTGCAGCAGCGTCCGCACGG	0.652													13	83					0	0	0.001368	0	0		T	144993942	T	T	144993942	2	4	76	1	0	0	0	0	0	0	0	1	12071	755	27	1		1	PLEC	8	144993942	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	51789	144993942	1370080	423	49273											
PLEC	5339	broad.mit.edu	37	chr8	144994298	144994298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcttttcaaaggtctcacGggcctgcagctctgagtaga	8	11	12	10	1	4	2	2	1	3	1	5	2	4	2	1	3	2	3	1	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:144994298G>A	uc003zaf.1	-	32	10272	c.10102C>T	c.(10102-10104)CGT>TGT	p.R3368C	PLEC_uc003zab.1_Missense_Mutation_p.R3231C|PLEC_uc003zac.1_Missense_Mutation_p.R3235C|PLEC_uc003zad.2_Missense_Mutation_p.R3231C|PLEC_uc003zae.1_Missense_Mutation_p.R3199C|PLEC_uc003zag.1_Missense_Mutation_p.R3209C|PLEC_uc003zah.2_Missense_Mutation_p.R3217C|PLEC_uc003zaj.2_Missense_Mutation_p.R3258C	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3368	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						AAGGTCTCACGGGCCTGCAGC	0.652													17	105					0	0	0.007413	0	0		A	144994298	A	A	144994298	3	1	76	1	0	0	0	0	1	0	0	0	12071	1116	39	1	3956	1	PLEC	8	144994298	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	356	144994298	1369724	424	49274											
SLC39A4	55630	broad.mit.edu	37	chr8	145637935	145637935	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtatcagaaggtgatgTcatcctcgtacagggacagc	11	8	13	9	1	2	2	2	1	0	1	4	3	3	3	1	3	2	2	1	3	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr8:145637935T>C	uc003zcq.2	-	12	2031	c.1931A>G	c.(1930-1932)GAC>GGC	p.D644G	SLC39A4_uc003zcm.1_3'UTR|SLC39A4_uc003zcn.2_Missense_Mutation_p.D146G|SLC39A4_uc003zco.2_Missense_Mutation_p.D368G|SLC39A4_uc003zcp.2_Missense_Mutation_p.D619G	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	644	Extracellular (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|recycling endosome membrane	zinc ion transmembrane transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			GAAGGTGATGTCATCCTCGTA	0.602													32	189					0	0	0.002445	0	0		C	145637935	C	C	145637935	3	2	76	1	0	0	0	0	1	0	0	0	14645	1667	58	3	16	3	SLC39A4	8	145637935	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	643637	145637935	726087	425	49275											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													9	145					0	0	0.006214	0	0		G	164038	G	G	164038	5	3	76	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-8382-01A-11D-2394-08		164038	141049393	426	49276											
BNC2	54796	broad.mit.edu	37	chr9	16419583	16419583	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagggagggctgcgacgagtCcaggcccatgtcatcgagtt	9	7	15	10	3	1	0	1	0	0	0	3	4	2	1	2	3	1	2	2	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:16419583C>A	uc003zml.2	-	7	2844	c.2704G>T	c.(2704-2706)GAC>TAC	p.D902Y	BNC2_uc011lmw.1_Missense_Mutation_p.D807Y|BNC2_uc003zmm.2_3'UTR|BNC2_uc011lmv.1_3'UTR|BNC2_uc003zmj.2_3'UTR|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.D689Y	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	902					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		TGCGACGAGTCCAGGCCCATG	0.532													17	100					6.94344e-10	7.64559e-10	0.006122	1	0		A	16419583	A	A	16419583	3	1	76	1	0	0	0	0	1	0	0	0	1476	855	30	5	599	5	BNC2	9	16419583	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	16255545	16419583	124793848	427	49277											
ACER2	340485	broad.mit.edu	37	chr9	19446317	19446317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttaagctgggcctcttctCgggcctctggtggaccctgg	3	12	14	12	1	3	0	0	0	3	0	4	1	3	1	3	5	1	2	3	5	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:19446317C>T	uc003zny.1	+	5	700	c.542C>T	c.(541-543)TCG>TTG	p.S181L	ACER2_uc003znx.1_RNA|ACER2_uc003znz.1_Missense_Mutation_p.S132L	NM_001010887	NP_001010887	Q5QJU3	ACER2_HUMAN	alkaline ceramidase 2	181	Helical; (Potential).				ceramide metabolic process|negative regulation of cell adhesion mediated by integrin|negative regulation of cell-matrix adhesion|negative regulation of protein glycosylation in Golgi|positive regulation of cell proliferation|response to retinoic acid|sphingosine biosynthetic process	integral to Golgi membrane	ceramidase activity			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2						GGCCTCTTCTCGGGCCTCTGG	0.507													30	140					0	0	0.007291	0	0		T	19446317	T	T	19446317	3	4	76	1	0	0	0	0	1	0	0	0	139	893	31	1	560	1	ACER2	9	19446317	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3026734	19446317	121767114	428	49278											
PRSS3	5646	broad.mit.edu	37	chr9	33799074	33799074	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggacagctccaaggagttGtctcctggggccatggctgt	7	9	14	11	1	1	0	0	0	1	0	3	2	2	2	3	5	1	3	3	5	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:33799074G>T	uc003ztj.3	+	5	811	c.811G>T	c.(811-813)GTC>TTC	p.V271F	uc003ztk.1_Intron|PRSS3_uc003zti.3_Missense_Mutation_p.V228F|PRSS3_uc003ztl.3_Missense_Mutation_p.V214F	NM_007343	NP_031369	P35030	TRY3_HUMAN	mesotrypsin isoform 1 preproprotein	271	Peptidase S1.				digestion|endothelial cell migration|zymogen activation	extracellular space	calcium ion binding|protein binding|serine-type endopeptidase activity|serine-type peptidase activity				0			LUSC - Lung squamous cell carcinoma(29;0.0176)			CCAAGGAGTTGTCTCCTGGGG	0.537													20	114					8.34094e-07	8.9025e-07	0.008871	1	0		T	33799074	T	T	33799074	3	4	76	1	0	0	0	0	1	0	0	0	12644	1377	48	5	873	5	PRSS3	9	33799074	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	14352757	33799074	107414357	429	49279											
KIAA1161	57462	broad.mit.edu	37	chr9	34371332	34371332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgctgacggtgagcaccGcggggatgagtgagcgcaac	9	5	17	10	4	0	4	0	4	0	0	0	5	0	5	1	3	4	4	1	3	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:34371332G>A	uc003zue.3	-	3	1777	c.1610C>T	c.(1609-1611)GCG>GTG	p.A537V		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	537	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		GGTGAGCACCGCGGGGATGAG	0.652													9	34					0	0	0.004482	0	0		A	34371332	A	A	34371332	3	1	76	1	0	0	0	0	1	0	0	0	8227	1087	38	1	538	1	KIAA1161	9	34371332	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	572258	34371332	106842099	430	49280											
KIAA1045	23349	broad.mit.edu	37	chr9	34971465	34971465	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgtccaggaggtacaggAggagaaggaagcagaagcag	14	3	16	8	1	0	2	0	0	0	2	2	6	2	5	2	5	3	3	2	5	4	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:34971465A>G	uc003zvq.2	+	2	348	c.170A>G	c.(169-171)GAG>GGG	p.E57G	KIAA1045_uc003zvr.2_Missense_Mutation_p.E57G	NM_015297	NP_056112	Q9UPV7	K1045_HUMAN	hypothetical protein LOC23349	57							calcium ion binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00575)			GAGGTACAGGAGGAGAAGGAA	0.667													10	119					0	0	0.006214	0	0		G	34971465	G	G	34971465	3	3	76	1	0	0	0	0	1	0	0	0	8223	304	11	3	172	3	KIAA1045	9	34971465	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	600133	34971465	106241966	431	49281											
FANCG	2189	broad.mit.edu	37	chr9	35079503	35079503	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcagctggagcccacagAggtggtctggcgggacatgg	8	5	18	10	1	1	1	0	0	1	1	1	3	1	3	1	7	2	2	1	7	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:35079503A>C	uc003zwb.1	-	1	511	c.19T>G	c.(19-21)TCT>GCT	p.S7A	FANCG_uc003zwa.1_5'Flank|FANCG_uc010mkj.1_5'UTR|FANCG_uc011lot.1_Missense_Mutation_p.S7A	NM_004629	NP_004620	O15287	FANCG_HUMAN	Fanconi anemia, complementation group G	7					cell cycle checkpoint|DNA repair|mitochondrion organization	mitochondrion|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|large_intestine(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GAGCCCACAGAGGTGGTCTGG	0.647			Mis|N|F|S			AML|leukemia		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				24	91					0	0	0.003954	0	0		C	35079503	C	C	35079503	3	2	76	1	0	0	0	0	1	0	0	0	5682	304	11	5	1905	5	FANCG	9	35079503	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	108038	35079503	106133928	432	49282											
OR13J1	392309	broad.mit.edu	37	chr9	35869820	35869820	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggaagtcttcgctgacCgacgtgttgccgcatgccag	8	8	13	12	4	1	1	0	1	1	0	2	3	1	2	3	1	3	4	3	1	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:35869820C>T	uc011lph.1	-	1	579	c.579G>A	c.(577-579)TCG>TCA	p.S193S		NM_001004487	NP_001004487	Q8NGT2	O13J1_HUMAN	olfactory receptor, family 13, subfamily J,	193	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_epithelial(49;0.169)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00494)|STAD - Stomach adenocarcinoma(86;0.194)			CTTCGCTGACCGACGTGTTGC	0.597													10	61					0	0	0.008291	0	0		T	35869820	T	T	35869820	2	4	76	1	0	0	0	0	0	0	0	1	10963	639	23	1		1	OR13J1	9	35869820	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	790317	35869820	105343611	433	49283											
CNTNAP3	79937	broad.mit.edu	37	chr9	39171366	39171366	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgggaatacaactgttacCtgctgtgacattccttggtg	9	14	10	8	0	0	1	0	1	0	0	1	2	1	2	2	2	4	2	2	2	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:39171366C>A	uc004abi.2	-	8	1572	c.1333G>T	c.(1333-1335)GGT>TGT	p.G445C	CNTNAP3_uc004abj.2_Missense_Mutation_p.G445C|CNTNAP3_uc011lqr.1_RNA|CNTNAP3_uc004abk.1_Missense_Mutation_p.G445C|CNTNAP3_uc011lqs.1_Missense_Mutation_p.G445C|CNTNAP3_uc004abl.1_Missense_Mutation_p.G357C	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor	445	Extracellular (Potential).|Laminin G-like 2.				cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		CAACTGTTACCTGCTGTGACA	0.483													30	120					8.4185e-14	9.42383e-14	0.002445	1	0		A	39171366	A	A	39171366	3	1	76	1	0	0	0	0	1	0	0	0	3651	695	24	5	2601	5	CNTNAP3	9	39171366	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3301546	39171366	102042065	434	49284											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													8	67					0	0	0.004482	0	0		G	70993145	G	G	70993145	3	3	76	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	31821779	70993145	70220286	435	49285											
ALDH1A1	216	broad.mit.edu	37	chr9	75545879	75545879	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcatccatagtacgccaCggggatccaatctgaaaagc	14	6	10	11	2	1	1	0	1	1	0	3	3	3	2	3	2	3	2	3	2	6	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:75545879C>T	uc004ajd.2	-	3	281	c.228G>A	c.(226-228)CCG>CCA	p.P76P	ALDH1A1_uc011lsh.1_Translation_Start_Site	NM_000689	NP_000680	P00352	AL1A1_HUMAN	aldehyde dehydrogenase 1A1	76					cellular aldehyde metabolic process|ethanol oxidation|xenobiotic metabolic process	cytosol	aldehyde dehydrogenase (NAD) activity|androgen binding|Ras GTPase activator activity|retinal dehydrogenase activity			ovary(3)|lung(1)	4					NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	TAGTACGCCACGGGGATCCAA	0.463													11	72					0	0	0.008291	0	0		T	75545879	T	T	75545879	2	4	76	1	0	0	0	0	0	0	0	1	490	523	19	1		1	ALDH1A1	9	75545879	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4552734	75545879	65667552	436	49286											
PCSK5	5125	broad.mit.edu	37	chr9	78686670	78686670	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgctggacggagatgtcacGgacatggttgaagcaaaatc	13	8	13	7	2	1	2	1	1	0	1	2	5	1	4	0	4	2	3	0	4	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:78686670G>T	uc004ajz.2	+	7	1288	c.750G>T	c.(748-750)ACG>ACT	p.T250T	PCSK5_uc004ajy.2_Silent_p.T250T|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	250	Catalytic.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						GAGATGTCACGGACATGGTTG	0.527													29	143					1.75199e-13	1.95917e-13	0.007291	1	0		T	78686670	T	T	78686670	2	4	76	1	0	0	0	0	0	0	0	1	11622	1103	39	5		5	PCSK5	9	78686670	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3140791	78686670	62526761	437	49287											
UBQLN1	29979	broad.mit.edu	37	chr9	86292653	86292653	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagcatacctcctactccaGgcaccaaatttggcgcagta	13	8	7	13	1	0	0	0	0	0	0	2	0	2	0	4	2	3	4	4	2	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:86292653G>T	uc004amv.2	-	6	1668	c.1094C>A	c.(1093-1095)CCT>CAT	p.P365H	UBQLN1_uc004amw.2_Missense_Mutation_p.P365H	NM_013438	NP_038466	Q9UMX0	UBQL1_HUMAN	ubiquilin 1 isoform 1	365					apoptosis|regulation of protein ubiquitination|response to hypoxia	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm|proteasome complex	kinase binding				0						TCCTACTCCAGGCACCAAATT	0.443													6	41					0.00116845	0.00120189	0.001168	1	0		T	86292653	T	T	86292653	3	4	76	1	0	0	0	0	1	0	0	0	16922	1000	35	5	699	5	UBQLN1	9	86292653	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	7605983	86292653	54920778	438	49288											
S1PR3	1903	broad.mit.edu	37	chr9	91616794	91616794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggtgaagtccagcagcCgtaaggtggccaaccacaac	11	6	11	13	1	0	1	0	1	0	0	2	1	2	1	5	3	4	2	5	3	4	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:91616794C>T	uc004aqe.2	+	2	1075	c.679C>T	c.(679-681)CGT>TGT	p.R227C		NM_005226	NP_005217	Q99500	S1PR3_HUMAN	sphingosine-1-phosphate receptor 3	227	Cytoplasmic (By similarity).				anatomical structure morphogenesis|elevation of cytosolic calcium ion concentration|inflammatory response|positive regulation of cell proliferation	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)|central_nervous_system(1)|skin(1)	5						GTCCAGCAGCCGTAAGGTGGC	0.567											OREG0019291	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	65					0	0	0.007413	0	0		T	91616794	T	T	91616794	3	4	76	1	0	0	0	0	1	0	0	0	13820	652	23	1	681	1	S1PR3	9	91616794	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	5324141	91616794	49596637	439	49289											
IARS	3376	broad.mit.edu	37	chr9	95043054	95043054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttcacatattgcatttctGgattaacacacacagcaagg	13	13	6	9	0	2	0	1	0	1	0	2	1	2	1	0	2	3	2	0	2	3	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:95043054G>A	uc004art.1	-	7	976	c.719C>T	c.(718-720)CCA>CTA	p.P240L	IARS_uc004ars.1_Missense_Mutation_p.P85L|IARS_uc004aru.3_Missense_Mutation_p.P240L|IARS_uc010mqr.2_Missense_Mutation_p.P130L|IARS_uc010mqt.2_Intron	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	240					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	TTGCATTTCTGGATTAACACA	0.343													6	29					0	0	0.00308	0	0		A	95043054	A	A	95043054	3	1	76	1	0	0	0	0	1	0	0	0	7489	1348	47	4	3181	4	IARS	9	95043054	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3426260	95043054	46170377	440	49290											
GALNT12	79695	broad.mit.edu	37	chr9	101602364	101602364	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaagtggttcttggagacTgtgtatccagaactgcatgt	9	14	11	7	0	2	2	1	0	1	2	3	3	3	2	1	2	2	3	1	2	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:101602364T>G	uc004ayz.2	+	7	1293	c.1293T>G	c.(1291-1293)ACT>ACG	p.T431T		NM_024642	NP_078918	Q8IXK2	GLT12_HUMAN	N-acetylgalactosaminyltransferase 12	431	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(62;0.0559)				TCTTGGAGACTGTGTATCCAG	0.552													22	122					0	0	0.001882	0	0		G	101602364	G	G	101602364	2	3	76	1	0	0	0	0	0	0	0	1	6225	1567	55	5		5	GALNT12	9	101602364	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	6559310	101602364	39611067	441	49291											
COL15A1	1306	broad.mit.edu	37	chr9	101810227	101810227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgtgggttccagggtcGcccaggactgaatggcctca	6	9	14	12	1	1	1	1	1	0	0	3	2	2	2	3	4	1	2	3	4	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:101810227G>A	uc004azb.1	+	28	2944	c.2738G>A	c.(2737-2739)CGC>CAC	p.R913H		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	913	Triple-helical region 5 (COL5).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				TTCCAGGGTCGCCCAGGACTG	0.602													10	30					0	0	0.006214	0	0		A	101810227	A	A	101810227	3	1	76	1	0	0	0	0	1	0	0	0	3675	1087	38	1	2848	1	COL15A1	9	101810227	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	207863	101810227	39403204	442	49292											
PPP3R2	5535	broad.mit.edu	37	chr9	104357179	104357179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagtgggagcacatctccgCcgggtaactggcctcgtttc	8	9	12	12	3	1	0	0	0	1	0	4	1	1	1	3	3	2	3	3	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:104357179C>T	uc004bbr.2	-	1	105	c.34G>A	c.(34-36)GCG>ACG	p.A12T	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_RNA	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	9							calcium ion binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	CACATCTCCGCCGGGTAACTG	0.577													18	94					0	0	0.006122	0	0		T	104357179	T	T	104357179	3	4	76	1	0	0	0	0	1	0	0	0	12423	739	26	2	491	2	PPP3R2	9	104357179	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2546952	104357179	36856252	443	49293											
KLF4	9314	broad.mit.edu	37	chr9	110250239	110250239	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggtgaagctgcaggtggAgggcgcgctggcagggccgc	7	5	20	9	3	0	1	0	1	0	0	0	2	0	2	1	6	2	4	1	6	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:110250239A>C	uc004bdh.2	-	3	1030	c.409T>G	c.(409-411)TCC>GCC	p.S137A	KLF4_uc004bdf.1_Missense_Mutation_p.S96A|KLF4_uc004bdg.2_Missense_Mutation_p.S146A	NM_004235	NP_004226	O43474	KLF4_HUMAN	Kruppel-like factor 4 (gut)	146	Ser-rich.				fat cell differentiation|mesodermal cell fate determination|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|stem cell maintenance|transcription from RNA polymerase II promoter	nucleus	RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor recruiting transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(2)|lung(1)	3						CTGCAGGTGGAGGGCGCGCTG	0.726													3	3					0	0	0.004672	0	0		C	110250239	C	C	110250239	3	2	76	1	0	0	0	0	1	0	0	0	8364	304	11	5	1015	5	KLF4	9	110250239	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	5893060	110250239	30963192	444	49294											
ACTL7B	10880	broad.mit.edu	37	chr9	111617074	111617074	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggaaccgccggtccacacGgaggtcttcctctcaggagc	8	7	12	14	3	2	0	1	0	2	0	5	3	4	3	4	5	2	0	4	5	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:111617074G>A	uc004bdi.2	-	1	1202	c.1137C>T	c.(1135-1137)TCC>TCT	p.S379S		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	379						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						CGGTCCACACGGAGGTCTTCC	0.652													21	88					0	0	0.008871	0	0		A	111617074	A	A	111617074	2	1	76	1	0	0	0	0	0	0	0	1	201	1103	39	1		1	ACTL7B	9	111617074	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1366835	111617074	29596357	445	49295											
CTNNAL1	8727	broad.mit.edu	37	chr9	111705293	111705293	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggactaagagagccatcAtggatcttgtcttcgtaata	11	13	10	7	1	3	1	1	0	2	1	4	4	3	3	1	2	1	2	1	2	3	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:111705293A>G	uc004bdo.1	-	18	2129	c.2087T>C	c.(2086-2088)ATG>ACG	p.M696T	CTNNAL1_uc010mts.1_Missense_Mutation_p.M348T|CTNNAL1_uc010mtt.1_Missense_Mutation_p.M658T|CTNNAL1_uc004bdp.1_Missense_Mutation_p.M696T|CTNNAL1_uc004bdq.1_Missense_Mutation_p.M182T	NM_003798	NP_003789	Q9UBT7	CTNL1_HUMAN	catenin, alpha-like 1	696					cell adhesion|Rho protein signal transduction	actin cytoskeleton|cytosol|plasma membrane	cadherin binding|structural molecule activity			ovary(1)	1				STAD - Stomach adenocarcinoma(157;0.0768)		GAGAGCCATCATGGATCTTGT	0.313													5	21					0	0	0.001168	0	0		G	111705293	G	G	111705293	3	3	76	1	0	0	0	0	1	0	0	0	4018	217	8	3	125	3	CTNNAL1	9	111705293	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	88219	111705293	29508138	446	49296											
PTPN3	5774	broad.mit.edu	37	chr9	112199206	112199206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catagaagtcgagggtccgcGctatgttgatatagcaggat	11	10	13	7	3	0	2	0	1	0	1	2	4	1	3	1	2	1	3	1	2	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:112199206G>A	uc004bed.2	-	9	744	c.632C>T	c.(631-633)GCG>GTG	p.A211V	PTPN3_uc004beb.2_Missense_Mutation_p.A80V|PTPN3_uc004bec.2_Missense_Mutation_p.A80V|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Missense_Mutation_p.A211V|PTPN3_uc011lwh.1_Missense_Mutation_p.A102V	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	211	FERM.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						GAGGGTCCGCGCTATGTTGAT	0.398													6	36					0	0	0.001984	0	0		A	112199206	A	A	112199206	3	1	76	1	0	0	0	0	1	0	0	0	12814	1087	38	1	2181	1	PTPN3	9	112199206	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	493913	112199206	29014225	447	49297											
KIAA1958	158405	broad.mit.edu	37	chr9	115421571	115421571	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaagttgaacgagctgcTcgagaacttttatgtcaccg	11	11	11	8	3	1	3	1	2	0	1	2	5	1	3	1	0	4	3	1	0	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:115421571T>A	uc004bgf.1	+	4	1548	c.1373T>A	c.(1372-1374)CTC>CAC	p.L458H	KIAA1958_uc011lwx.1_Missense_Mutation_p.L486H	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	458										skin(1)	1						AACGAGCTGCTCGAGAACTTT	0.532													19	101					0	0	0.006122	0	0		A	115421571	A	A	115421571	3	1	76	1	0	0	0	0	1	0	0	0	8280	1551	54	5	1383	5	KIAA1958	9	115421571	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3222365	115421571	25791860	448	49298											
COL27A1	85301	broad.mit.edu	37	chr9	116945337	116945337	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggaaatccaggtctcccCggccctcctggagccaaagt	9	8	10	14	1	1	0	0	0	1	0	4	2	3	2	6	4	1	0	6	4	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:116945337C>T	uc011lxl.1	+	5	1998	c.1998C>T	c.(1996-1998)CCC>CCT	p.P666P	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Silent_p.P516P	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	666	Pro-rich.|Collagen-like 1.|Triple-helical region.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						CAGGTCTCCCCGGCCCTCCTG	0.547													15	83					0	0	0.004007	0	0		T	116945337	T	T	116945337	2	4	76	1	0	0	0	0	0	0	0	1	3688	639	23	1		1	COL27A1	9	116945337	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1523766	116945337	24268094	449	49299											
AKNA	80709	broad.mit.edu	37	chr9	117124787	117124787	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcctcctctagggccgcGtgggcagccttcagccgctg	4	9	12	16	3	2	0	1	0	1	0	4	0	4	0	5	2	3	2	5	2	2	3	rs150191572	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:117124787G>A	uc004biq.3	-	7	1950	c.1815C>T	c.(1813-1815)CAC>CAT	p.H605H	AKNA_uc004bin.3_5'Flank|AKNA_uc004bio.3_Silent_p.H65H|AKNA_uc004bip.3_Silent_p.H524H|AKNA_uc004bir.3_Silent_p.H605H|AKNA_uc004bis.3_Silent_p.H605H|AKNA_uc010mve.2_Silent_p.H486H|AKNA_uc004biu.1_Silent_p.H346H|AKNA_uc004biv.1_Silent_p.H605H	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	605					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(2)	6						CTAGGGCCGCGTGGGCAGCCT	0.637													5	14					0	0	0.000602	0	0		A	117124787	A	A	117124787	2	1	76	1	0	0	0	0	0	0	0	1	463	1136	40	1		1	AKNA	9	117124787	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	179450	117124787	24088644	450	49300											
TNC	3371	broad.mit.edu	37	chr9	117808794	117808794	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagacctgttatgtccctggTacgttcgggggcaagtaggg	7	10	16	8	2	0	1	0	0	0	1	2	2	1	1	2	4	1	5	2	4	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:117808794T>C	uc004bjj.3	-	17	5382	c.5020A>G	c.(5020-5022)ACC>GCC	p.T1674A	TNC_uc010mvf.2_Intron	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1674	Fibronectin type-III 12.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						ATGTCCCTGGTACGTTCGGGG	0.458													35	127					0	0	0.002836	0	0		C	117808794	C	C	117808794	3	2	76	1	0	0	0	0	1	0	0	0	16295	1638	57	3	1633	3	TNC	9	117808794	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	684007	117808794	23404637	451	49301											
ASTN2	23245	broad.mit.edu	37	chr9	119739005	119739005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actctgtccccagtcactgcGcacacacaggtgtctgtgaa	9	9	9	14	1	3	1	1	1	2	0	4	1	4	1	2	1	1	1	2	1	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:119739005G>A	uc004bjs.1	-	8	1752	c.1651C>T	c.(1651-1653)CGC>TGC	p.R551C	ASTN2_uc004bjr.1_Missense_Mutation_p.R551C|ASTN2_uc004bjt.1_Missense_Mutation_p.R500C	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	551	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CAGTCACTGCGCACACACAGG	0.507													9	66					0	0	0.006214	0	0		A	119739005	A	A	119739005	3	1	76	1	0	0	0	0	1	0	0	0	1066	1087	38	1	2664	1	ASTN2	9	119739005	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1930211	119739005	21474426	452	49302											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123292371	123292371	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcctctttaaggcactgaAttaaagcttctttgctcttc	8	17	5	11	0	4	1	0	1	4	0	6	1	4	1	1	1	2	3	1	1	4	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:123292371A>G	uc004bkf.2	-	8	891	c.710T>C	c.(709-711)ATT>ACT	p.I237T	CDK5RAP2_uc004bkg.2_Missense_Mutation_p.I237T|CDK5RAP2_uc011lxw.1_5'UTR|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_5'UTR|CDK5RAP2_uc011lya.1_5'UTR|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.I237T|CDK5RAP2_uc004bki.2_Missense_Mutation_p.I36T	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	237					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						AAGGCACTGAATTAAAGCTTC	0.398													12	82					0	0	0.001855	0	0		G	123292371	G	G	123292371	3	3	76	1	0	0	0	0	1	0	0	0	3149	101	4	3	5095	3	CDK5RAP2	9	123292371	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	3553366	123292371	17921060	453	49303											
FAM125B	89853	broad.mit.edu	37	chr9	129157978	129157978	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccccaaccttcccaggTgaggccttgtcggggtgtct	5	9	12	15	1	1	1	0	1	1	0	3	1	2	1	5	4	2	0	5	4	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:129157978T>C	uc004bqh.1	+	6	743	c.662_splice	c.e6+2	p.R221_splice	FAM125B_uc004bqg.1_Nonstop_Mutation_p.*222R|FAM125B_uc011lzy.1_Splice_Site_p.R206_splice|FAM125B_uc010mxd.2_Splice_Site_p.R214_splice|FAM125B_uc011lzz.1_Nonstop_Mutation_p.*215R	NM_033446	NP_258257	Q9H7P6	F125B_HUMAN	hypothetical protein LOC89853 isoform 1						protein transport	late endosome membrane					0						CCTTCCCAGGTGAGGCCTTGT	0.522													20	107					0	0	0.002299	0	0		C	129157978	C	C	129157978	5	2	76	1	0	0	0	0	0	0	1	0	5439	1710	59	3	686	3	FAM125B	9	129157978	Splice_Site	SNP	T	TCGA-BR-8382-01A-11D-2394-08	5865607	129157978	12055453	454	49304											
SLC2A8	29988	broad.mit.edu	37	chr9	130165962	130165962	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttcacctggccctgctgcgGcagcccggcatctacaagcc	6	8	10	17	2	2	0	1	0	1	0	2	0	2	0	4	3	5	3	4	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:130165962G>A	uc004bqu.2	+	6	792	c.747G>A	c.(745-747)CGG>CGA	p.R249R	SLC2A8_uc010mxj.2_Silent_p.R249R|SLC2A8_uc004bqv.2_5'Flank	NM_014580	NP_055395	Q9NY64	GTR8_HUMAN	solute carrier family 2 (facilitated glucose	249	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to plasma membrane	D-glucose transmembrane transporter activity			ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2						CCCTGCTGCGGCAGCCCGGCA	0.617													13	62					0	0	0.001368	0	0		A	130165962	A	A	130165962	2	1	76	1	0	0	0	0	0	0	0	1	14576	1190	42	2		2	SLC2A8	9	130165962	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1007984	130165962	11047469	455	49305											
SLC25A25	114789	broad.mit.edu	37	chr9	130869723	130869723	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcgtgcagtcgcggtgAcggggggagggccgcccggc	3	4	22	12	6	0	1	0	1	0	0	1	2	0	2	2	7	1	1	2	7	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:130869723A>G	uc004bte.2	+	10	1439	c.1410A>G	c.(1408-1410)TGA>TGG	p.*470W	SLC25A25_uc004btb.2_Nonstop_Mutation_p.*504W|SLC25A25_uc004btc.2_Nonstop_Mutation_p.*490W|SLC25A25_uc004btd.2_Nonstop_Mutation_p.*502W|SLC25A25_uc004btf.2_Nonstop_Mutation_p.*367W	NM_052901	NP_443133	Q6KCM7	SCMC2_HUMAN	solute carrier family 25, member 25 isoform a	470					transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding				0						AGTCGCGGTGACGGGGGGAGG	0.627													27	119					0	0	0.004656	0	0		G	130869723	G	G	130869723	4	3	76	1	0	0	0	0	0	0	0	0	14513	288	10	3	1936	3	SLC25A25	9	130869723	Nonstop_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	703761	130869723	10343708	456	49306											
SLC27A4	10999	broad.mit.edu	37	chr9	131122642	131122642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttccagaagacagagctaCggaaggagggctttgacccg	12	6	14	9	2	0	4	0	1	0	3	1	6	1	6	2	3	2	3	2	3	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:131122642C>T	uc004but.2	+	13	2088	c.1804C>T	c.(1804-1806)CGG>TGG	p.R602W	SLC27A4_uc004buu.2_Missense_Mutation_p.R196W	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	602					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						GACAGAGCTACGGAAGGAGGG	0.592													23	105					0	0	0.00278	0	0		T	131122642	T	T	131122642	3	4	76	1	0	0	0	0	1	0	0	0	14553	527	19	1	1850	1	SLC27A4	9	131122642	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	252919	131122642	10090789	457	49307											
SET	6418	broad.mit.edu	37	chr9	131454979	131454979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaagatgaagaggcactgCattatttgaccagagttgaa	15	9	12	5	0	0	6	0	3	0	3	0	7	0	7	1	2	1	3	1	2	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:131454979C>T	uc004bvt.3	+	4	593	c.352C>T	c.(352-354)CAT>TAT	p.H118Y	SET_uc004bvu.3_Missense_Mutation_p.H105Y|SET_uc010myg.2_RNA|SET_uc011mbj.1_Missense_Mutation_p.H94Y	NM_001122821	NP_001116293	Q01105	SET_HUMAN	SET translocation (myeloid leukemia-associated)	118					DNA replication|mRNA metabolic process|negative regulation of histone acetylation|negative regulation of neuron apoptosis|negative regulation of transcription, DNA-dependent|nucleocytoplasmic transport|nucleosome assembly|nucleosome disassembly	cytosol|endoplasmic reticulum|nucleoplasm|perinuclear region of cytoplasm|protein complex	histone binding|protein phosphatase inhibitor activity|protein phosphatase type 2A regulator activity				0		Myeloproliferative disorder(178;0.204)		GBM - Glioblastoma multiforme(294;3.1e-09)		AGAGGCACTGCATTATTTGAC	0.378			T	NUP214	AML								8	48					0	0	0.008291	0	0		T	131454979	T	T	131454979	3	4	76	1	0	0	0	0	1	0	0	0	14153	710	25	2	443	2	SET	9	131454979	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	332337	131454979	9758452	458	49308											
LAMC3	10319	broad.mit.edu	37	chr9	133914404	133914404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctatcactgggacccgcGgatgccatgccagccctgtg	6	10	11	14	2	2	0	1	0	1	0	2	2	2	2	4	2	3	0	4	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:133914404G>A	uc004caa.1	+	5	1228	c.1130G>A	c.(1129-1131)CGG>CAG	p.R377Q		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	377	Laminin EGF-like 2.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		TGGGACCCGCGGATGCCATGC	0.647													15	42					0	0	0.00245	0	0		A	133914404	A	A	133914404	3	1	76	1	0	0	0	0	1	0	0	0	8632	1116	39	1	1148	1	LAMC3	9	133914404	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2459425	133914404	7299027	459	49309											
TTF1	7270	broad.mit.edu	37	chr9	135271838	135271838	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcctttgtaattgttgAcatcgaacatcttctttgct	8	17	6	10	1	2	1	0	1	2	0	3	2	2	1	2	0	3	3	2	0	2	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:135271838A>G	uc004cbl.2	-	5	1890	c.1838T>C	c.(1837-1839)GTC>GCC	p.V613A	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Missense_Mutation_p.V98A	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	613	Myb-like 1.				negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		GTAATTGTTGACATCGAACAT	0.398													10	32					0	0	0.000978	0	0		G	135271838	G	G	135271838	3	3	76	1	0	0	0	0	1	0	0	0	16744	275	10	3	907	3	TTF1	9	135271838	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1357434	135271838	5941593	460	49310											
DDX31	64794	broad.mit.edu	37	chr9	135493777	135493777	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaatcttcaaataccgtctGcaagactgtggctcgctctc	9	12	8	12	2	4	1	1	0	3	1	6	1	4	1	1	1	2	4	1	1	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:135493777G>A	uc004cbq.1	-	18	2232	c.2080C>T	c.(2080-2082)CAG>TAG	p.Q694*	DDX31_uc010mzu.1_Intron	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	694						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		AATACCGTCTGCAAGACTGTG	0.532													14	96					0	0	0.00499	0	0		A	135493777	A	A	135493777	4	1	76	1	0	0	0	0	0	1	0	0	4359	1328	46	2	487	2	DDX31	9	135493777	Nonsense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	221939	135493777	5719654	461	49311											
ABCA2	20	broad.mit.edu	37	chr9	139903448	139903448	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggttgaagaaccgcaccacGtccttcacactctggctgct	8	9	9	15	3	2	2	1	1	1	1	3	2	3	2	3	2	2	4	3	2	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:139903448G>A	uc011mem.1	-	45	7030	c.6882C>T	c.(6880-6882)GAC>GAT	p.D2294D	ABCA2_uc011mel.1_Silent_p.D2295D|ABCA2_uc004ckl.1_Silent_p.D2225D|ABCA2_uc004ckm.1_Silent_p.D2325D	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	2294					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		ACCGCACCACGTCCTTCACAC	0.682													10	40					0	0	0.000978	0	0		A	139903448	A	A	139903448	2	1	76	1	0	0	0	0	0	0	0	1	32	1136	40	1		1	ABCA2	9	139903448	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4409671	139903448	1309983	462	49312											
TPRN	286262	broad.mit.edu	37	chr9	140087050	140087050	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctcctcctcctcctcctcctCctgctggtccacctcttcct	1	14	3	23	0	1	0	0	0	1	0	10	0	10	0	10	1	1	1	10	1	0	1	rs77086130		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:140087050C>G	uc004clt.2	-	2	1636	c.1636G>C	c.(1636-1638)GAG>CAG	p.E546Q	TPRN_uc004clu.2_Missense_Mutation_p.E546Q	NM_173691	NP_775962	Q4KMQ1	TPRN_HUMAN	hypothetical protein LOC286262 isoform 2	607	Glu-rich.				sensory perception of sound	stereocilium					0						tcctcctcctcctgctggtcc	0.353													11	24					0	0	0.008291	0	0		G	140087050	G	G	140087050	3	3	76	1	0	0	0	0	1	0	0	0	16447	864	30	5	408	5	TPRN	9	140087050	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	183602	140087050	1126381	463	49313											
TPRN	286262	broad.mit.edu	37	chr9	140093702	140093702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagctctgccacgcaccCgggcctggcagggtgcagag	7	5	15	14	2	1	2	0	1	1	1	1	2	1	2	3	3	3	4	3	3	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:140093702C>T	uc004clt.2	-	1	1279	c.1279G>A	c.(1279-1281)GGG>AGG	p.G427R	TPRN_uc004clu.2_Missense_Mutation_p.G427R	NM_173691	NP_775962	Q4KMQ1	TPRN_HUMAN	hypothetical protein LOC286262 isoform 2	488					sensory perception of sound	stereocilium					0						GCCACGCACCCGGGCCTGGCA	0.642													9	58					0	0	0.006214	0	0		T	140093702	T	T	140093702	3	4	76	1	0	0	0	0	1	0	0	0	16447	652	23	1	769	1	TPRN	9	140093702	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	6652	140093702	1119729	464	49314											
EHMT1	79813	broad.mit.edu	37	chr9	140669655	140669655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtgaagaccaccggggccGcatggtgaagcaccagtgct	9	6	15	11	2	0	3	0	2	0	1	0	3	0	3	4	3	2	3	4	3	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr9:140669655G>A	uc011mfc.1	+	11	1779	c.1742G>A	c.(1741-1743)CGC>CAC	p.R581H	EHMT1_uc004coa.2_Missense_Mutation_p.R581H|EHMT1_uc004cob.1_Missense_Mutation_p.R550H	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	581					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		CACCGGGGCCGCATGGTGAAG	0.622													11	57					0	0	0.008291	0	0		A	140669655	A	A	140669655	3	1	76	1	0	0	0	0	1	0	0	0	4989	1087	38	1	1784	1	EHMT1	9	140669655	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	575953	140669655	543776	465	49315											
RBM17	84991	broad.mit.edu	37	chr10	6146944	6146944	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagttctgattcccttagcTgacgaatatgaccctatgtt	10	14	8	9	1	1	3	0	3	1	0	2	5	2	3	2	0	1	3	2	0	5	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:6146944T>G	uc001ijb.2	+	4	517	c.291T>G	c.(289-291)GCT>GCG	p.A97A	RBM17_uc010qav.1_Silent_p.A97A	NM_032905	NP_116294	Q96I25	SPF45_HUMAN	RNA binding motif protein 17	97					mRNA processing|RNA splicing	spliceosomal complex	nucleotide binding|protein binding|RNA binding				0						TTCCCTTAGCTGACGAATATG	0.438													13	81					0	0	0.001855	0	0		G	6146944	G	G	6146944	2	3	76	1	0	0	0	0	0	0	0	1	13144	1567	55	5		5	RBM17	10	6146944	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08		6146944	129387803	466	49316											
CUBN	8029	broad.mit.edu	37	chr10	17126369	17126369	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgcttcatcatatagacGcattgcctggtgtgagtgaa	9	12	12	8	1	2	3	2	2	0	1	2	3	2	3	1	2	2	3	1	2	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:17126369G>A	uc001ioo.2	-	17	2254	c.2202C>T	c.(2200-2202)TGC>TGT	p.C734C		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	734	CUB 3.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TCATATAGACGCATTGCCTGG	0.502													4	35					0	0	0.009096	0	0		A	17126369	A	A	17126369	2	1	76	1	0	0	0	0	0	0	0	1	4054	1079	38	1		1	CUBN	10	17126369	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	10979425	17126369	118408378	467	49317											
PDSS1	23590	broad.mit.edu	37	chr10	27024408	27024408	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgccagctaatagatgatgTattggacttcacctcgtgtt	9	15	9	8	1	1	2	1	1	0	1	2	3	1	3	2	1	2	3	2	1	3	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:27024408T>C	uc001isv.2	+	10	972	c.926T>C	c.(925-927)GTA>GCA	p.V309A	PDSS1_uc001isw.2_Intron|PDSS1_uc010qdf.1_Missense_Mutation_p.V47A	NM_014317	NP_055132	Q5T2R2	DPS1_HUMAN	prenyl diphosphate synthase, subunit 1	309					isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	metal ion binding|protein heterodimerization activity				0						ATAGATGATGTATTGGACTTC	0.483													12	47					0	0	0.001368	0	0		C	27024408	C	C	27024408	3	2	76	1	0	0	0	0	1	0	0	0	11712	1638	57	3	964	3	PDSS1	10	27024408	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	9898039	27024408	108510339	468	49318											
ZEB1	6935	broad.mit.edu	37	chr10	31608218	31608218	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcgaacccgcggcgcaatAacggtgagtggcggagggga	10	3	19	9	6	0	1	0	1	0	0	0	4	0	3	1	7	2	1	1	7	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:31608218A>G	uc001ivs.3	+	1	118	c.55A>G	c.(55-57)AAC>GAC	p.N19D	ZEB1_uc001ivr.3_Intron|ZEB1_uc010qee.1_Intron|ZEB1_uc010qef.1_Intron|ZEB1_uc009xlh.1_RNA|ZEB1_uc009xli.1_RNA|ZEB1_uc009xlj.1_Missense_Mutation_p.N19D|ZEB1_uc010qeg.1_Missense_Mutation_p.N19D|ZEB1_uc009xlk.1_Translation_Start_Site|ZEB1_uc001ivt.3_Translation_Start_Site|ZEB1_uc001ivu.3_Missense_Mutation_p.N19D|ZEB1_uc001ivv.3_Missense_Mutation_p.N19D|ZEB1_uc010qeh.1_Missense_Mutation_p.N19D|ZEB1_uc009xll.2_5'Flank|ZEB1_uc009xlm.1_5'Flank|ZEB1_uc009xln.1_5'Flank|ZEB1_uc009xlo.1_5'Flank|ZEB1_uc009xlp.2_5'Flank|LOC220930_uc010qed.1_5'Flank	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	19					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				GCGGCGCAATAACGGTGAGTg	0.279													3	14					0	0	0.000602	0	0		G	31608218	G	G	31608218	3	3	76	1	0	0	0	0	1	0	0	0	17648	362	13	3	57	3	ZEB1	10	31608218	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	4583810	31608218	103926529	469	49319											
KIF5B	3799	broad.mit.edu	37	chr10	32324901	32324901	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttcatccagcacagcacCttcagctccagttttactaa	11	11	5	14	0	2	0	2	0	0	0	4	0	4	0	3	0	5	5	3	0	2	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:32324901C>A	uc001iwe.3	-	9	1203	c.733G>T	c.(733-735)GGT>TGT	p.G245C		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	245	Kinesin-motor.				stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				AGCACAGCACCTTCAGCTCCA	0.323													6	45					1.12685e-05	1.18512e-05	0.004482	1	0		A	32324901	A	A	32324901	3	1	76	1	0	0	0	0	1	0	0	0	8322	681	24	5	2226	5	KIF5B	10	32324901	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	716683	32324901	103209846	470	49320											
ITGB1	3688	broad.mit.edu	37	chr10	33214866	33214866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatccaaatttccagatatgCgctgttttccaacaagttca	13	13	5	10	1	1	1	1	0	0	1	4	1	4	1	3	0	2	3	3	0	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:33214866C>T	uc001iws.3	-	6	855	c.719G>A	c.(718-720)CGC>CAC	p.R240H	ITGB1_uc001iwp.3_Missense_Mutation_p.R240H|ITGB1_uc001iwq.3_Missense_Mutation_p.R240H|ITGB1_uc001iwr.3_Missense_Mutation_p.R240H|ITGB1_uc001iwt.3_Missense_Mutation_p.R240H|ITGB1_uc001iwu.1_Missense_Mutation_p.R240H	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	240	Extracellular (Potential).|VWFA.				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				TCCAGATATGCGCTGTTTTCC	0.408													13	81					0	0	0.001368	0	0		T	33214866	T	T	33214866	3	4	76	1	0	0	0	0	1	0	0	0	7906	768	27	1	1959	1	ITGB1	10	33214866	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	889965	33214866	102319881	471	49321											
CCNY	219771	broad.mit.edu	37	chr10	35855055	35855055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcgttctctggcagaagCgaacaacctgagctttccct	8	12	8	13	2	2	2	0	1	2	1	5	3	3	2	2	1	4	3	2	1	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:35855055C>T	uc001iyw.3	+	9	1031	c.851C>T	c.(850-852)GCG>GTG	p.A284V	CCNY_uc001iyu.3_Missense_Mutation_p.A230V|CCNY_uc001iyv.3_Missense_Mutation_p.A230V|CCNY_uc001iyx.3_Missense_Mutation_p.A230V|CCNY_uc009xmb.2_Missense_Mutation_p.A259V|CCNY_uc010qet.1_Missense_Mutation_p.A151V	NM_145012	NP_659449	Q8ND76	CCNY_HUMAN	cyclin Y isoform 1	284					cell division|G2/M transition of mitotic cell cycle|positive regulation of cyclin-dependent protein kinase activity|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	cyclin-dependent protein kinase regulator activity|protein kinase binding				0						CTGGCAGAAGCGAACAACCTG	0.473													18	69					0	0	0.00499	0	0		T	35855055	T	T	35855055	3	4	76	1	0	0	0	0	1	0	0	0	2939	768	27	1	885	1	CCNY	10	35855055	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2640189	35855055	99679692	472	49322											
ZNF33B	7582	broad.mit.edu	37	chr10	43089480	43089480	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcctgaaattattcccActttcaccacaatcatagtg	11	14	3	13	0	2	1	2	1	0	0	5	1	5	1	4	0	0	0	4	0	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:43089480A>G	uc001jaf.1	-	5	1033	c.918T>C	c.(916-918)AGT>AGC	p.S306S	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Silent_p.S194S|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	306						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AATTATTCCCACTTTCACCAC	0.393													7	97					0	0	0.001984	0	0		G	43089480	G	G	43089480	2	3	76	1	0	0	0	0	0	0	0	1	17880	156	6	3		3	ZNF33B	10	43089480	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	7234425	43089480	92445267	473	49323											
HNRNPF	3185	broad.mit.edu	37	chr10	43882176	43882176	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggccactgtaagtggccTgggcagcagacacccccatg	9	5	12	15	0	0	1	0	0	0	1	0	1	0	1	5	3	1	3	5	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:43882176T>G	uc009xmh.1	-	3	1644	c.1157A>C	c.(1156-1158)CAG>CCG	p.Q386P	HNRNPF_uc001jar.2_Missense_Mutation_p.Q386P|HNRNPF_uc001jas.2_Missense_Mutation_p.Q386P|HNRNPF_uc001jat.2_Missense_Mutation_p.Q386P|HNRNPF_uc001jav.2_Missense_Mutation_p.Q386P|HNRNPF_uc001jau.2_Missense_Mutation_p.Q386P|uc010qfa.1_5'UTR	NM_001098208	NP_001091678	P52597	HNRPF_HUMAN	heterogeneous nuclear ribonucleoprotein F	386					regulation of RNA splicing	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding				0						GTAAGTGGCCTGGGCAGCAGA	0.547													30	144					0	0	0.009535	0	0		G	43882176	G	G	43882176	3	3	76	1	0	0	0	0	1	0	0	0	7281	1580	55	5	94	5	HNRNPF	10	43882176	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	792696	43882176	91652571	474	49324											
GPRIN2	9721	broad.mit.edu	37	chr10	47000005	47000005	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtccagcctggaggaggtGccgtcccctgtgcgggatgt	4	8	18	11	2	0	0	0	0	0	0	2	3	2	3	5	5	3	0	5	5	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:47000005G>A	uc001jec.2	+	3	1260	c.1125G>A	c.(1123-1125)GTG>GTA	p.V375V	GPRIN2_uc010qfq.1_Silent_p.V138V	NM_014696	NP_055511	O60269	GRIN2_HUMAN	G protein-regulated inducer of neurite outgrowth	375											0						TGGAGGAGGTGCCGTCCCCTG	0.657													13	131					0	0	0.001855	0	0		A	47000005	A	A	47000005	2	1	76	1	0	0	0	0	0	0	0	1	6746	1306	46	2		2	GPRIN2	10	47000005	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3117829	47000005	88534742	475	49325											
PPYR1	5540	broad.mit.edu	37	chr10	47087826	47087826	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagcgcccccctggaggAgtcggagcatctgcccctgt	6	6	14	15	2	1	1	0	0	1	1	2	4	1	4	5	3	3	2	5	3	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:47087826A>G	uc001jee.2	+	3	1462	c.1043A>G	c.(1042-1044)GAG>GGG	p.E348G	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.E348G	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	348	Cytoplasmic (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						CCCCTGGAGGAGTCGGAGCAT	0.547													13	156					0	0	0.004007	0	0		G	47087826	G	G	47087826	3	3	76	1	0	0	0	0	1	0	0	0	12438	304	11	3	1045	3	PPYR1	10	47087826	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	87821	47087826	88446921	476	49326											
RBP3	5949	broad.mit.edu	37	chr10	48382208	48382208	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcctccgcggtgccggcCgtcacactgctggtcagaat	7	8	11	15	4	2	1	2	0	0	1	4	1	4	1	4	3	3	1	4	3	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:48382208C>T	uc001jez.2	-	4	3555	c.3441G>A	c.(3439-3441)ACG>ACA	p.T1147T		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	1147	4 X approximate tandem repeats.|4.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	CGGTGCCGGCCGTCACACTGC	0.607													6	52					0	0	0.00308	0	0		T	48382208	T	T	48382208	2	4	76	1	0	0	0	0	0	0	0	1	13182	639	23	1		1	RBP3	10	48382208	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1294382	48382208	87152539	477	49327											
SLC18A3	6572	broad.mit.edu	37	chr10	50819083	50819083	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacacggccaacacctcggcGtccccgacagctgcgtggcc	7	5	11	18	5	0	0	0	0	0	0	2	1	1	0	5	3	4	1	5	3	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:50819083G>A	uc001jhw.2	+	1	737	c.297G>A	c.(295-297)GCG>GCA	p.A99A	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	99	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						ACACCTCGGCGTCCCCGACAG	0.706													16	71					0	0	0.004007	0	0		A	50819083	A	A	50819083	2	1	76	1	0	0	0	0	0	0	0	1	14452	1132	40	1		1	SLC18A3	10	50819083	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2436875	50819083	84715664	478	49328											
BICC1	80114	broad.mit.edu	37	chr10	60573605	60573605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagggctcatccatgtccCtttcacggtccaacagtcgt	8	11	8	14	2	2	0	2	0	0	0	6	0	5	0	3	2	2	1	3	2	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:60573605C>T	uc001jki.1	+	18	2392	c.2392C>T	c.(2392-2394)CTT>TTT	p.L798F	BICC1_uc001jkj.1_Missense_Mutation_p.L439F	NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	798					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						ATCCATGTCCCTTTCACGGTC	0.458													28	102					0	0	0.009535	0	0		T	60573605	T	T	60573605	3	4	76	1	0	0	0	0	1	0	0	0	1428	681	24	4	2462	4	BICC1	10	60573605	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	9754522	60573605	74961142	479	49329											
CTNNA3	29119	broad.mit.edu	37	chr10	68280472	68280472	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacgcttgtacatttccatGgtgtttttgaccgcttgact	6	17	9	9	2	0	2	0	2	0	0	1	2	1	2	2	1	2	5	2	1	2	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:68280472G>A	uc009xpn.1	-	11	1557	c.1434C>T	c.(1432-1434)ACC>ACT	p.T478T	CTNNA3_uc001jmw.2_Silent_p.T478T|CTNNA3_uc001jmx.3_Silent_p.T478T	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	478					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						ACATTTCCATGGTGTTTTTGA	0.338													16	68					0	0	0.007413	0	0		A	68280472	A	A	68280472	2	1	76	1	0	0	0	0	0	0	0	1	4017	1335	47	4		4	CTNNA3	10	68280472	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	7706867	68280472	67254275	480	49330											
CCAR1	55749	broad.mit.edu	37	chr10	70509303	70509303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagagagagagagaaagaCgtagatcgagagaaagatca	19	4	15	3	2	1	8	1	1	0	7	2	13	1	8	0	0	0	1	0	0	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:70509303C>T	uc001joo.2	+	10	1098	c.979C>T	c.(979-981)CGT>TGT	p.R327C	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Missense_Mutation_p.R132C|CCAR1_uc009xpx.1_Missense_Mutation_p.R301C|CCAR1_uc001jon.1_Missense_Mutation_p.R273C|CCAR1_uc010qiz.1_Missense_Mutation_p.R312C|CCAR1_uc010qja.1_Missense_Mutation_p.R312C|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	327	Arg-rich.				apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						GAGAGAAAGACGTAGATCGAG	0.413													13	46					0	0	0.00245	0	0		T	70509303	T	T	70509303	3	4	76	1	0	0	0	0	1	0	0	0	2733	536	19	1	1013	1	CCAR1	10	70509303	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2228831	70509303	65025444	481	49331											
SRGN	5552	broad.mit.edu	37	chr10	70863692	70863692	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactactctggatcaggctTcggctccggctccggctctg	4	10	13	14	3	3	0	1	0	2	0	6	2	5	2	2	6	1	4	2	6	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:70863692T>C	uc001joz.2	+	3	379	c.293T>C	c.(292-294)TTC>TCC	p.F98S		NM_002727	NP_002718	P10124	SRGN_HUMAN	serglycin precursor	98	3.|9 X 2 AA tandem repeats of [SF]-G.				apoptosis|biomineral tissue development|maintenance of granzyme B location in T cell secretory granule|maintenance of protease location in mast cell secretory granule|negative regulation of bone mineralization|negative regulation of cytokine secretion|platelet activation|platelet degranulation|protein maturation by peptide bond cleavage	extracellular space|mast cell granule|platelet alpha granule lumen					0						GGATCAGGCTTCGGCTCCGGC	0.468													14	71					0	0	0.001855	0	0		C	70863692	C	C	70863692	3	2	76	1	0	0	0	0	1	0	0	0	15173	1783	62	3	303	3	SRGN	10	70863692	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	354389	70863692	64671055	482	49332											
CHST3	9469	broad.mit.edu	37	chr10	73767393	73767393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctgtgcgacctgtacGtgctggagcacttcatcacg	6	12	10	13	3	3	0	2	0	1	0	4	2	4	1	2	1	4	3	2	1	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:73767393G>A	uc001jsn.2	+	3	1044	c.604G>A	c.(604-606)GTG>ATG	p.V202M		NM_004273	NP_004264	Q7LGC8	CHST3_HUMAN	chondroitin 6-sulfotransferase 3	202	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity				0						CGACCTGTACGTGCTGGAGCA	0.682													7	32					0	0	0.001984	0	0		A	73767393	A	A	73767393	3	1	76	1	0	0	0	0	1	0	0	0	3408	1145	40	1	610	1	CHST3	10	73767393	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2903701	73767393	61767354	483	49333											
SPOCK2	9806	broad.mit.edu	37	chr10	73826724	73826724	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatccttgtaggtgtcacaGgagttgaagaagggacggat	11	9	14	7	1	1	2	1	1	0	1	2	5	2	5	2	4	0	2	2	4	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:73826724G>T	uc001jso.1	-	8	1309	c.864C>A	c.(862-864)TCC>TCA	p.S288S	SPOCK2_uc001jsp.2_Silent_p.S288S	NM_014767	NP_055582	Q92563	TICN2_HUMAN	sparc/osteonectin, cwcv and kazal-like domains	288					extracellular matrix organization|regulation of cell differentiation|signal transduction|synapse assembly	proteinaceous extracellular matrix	calcium ion binding				0						AGGTGTCACAGGAGTTGAAGA	0.612													14	128					7.93312e-07	8.47562e-07	0.00245	1	0		T	73826724	T	T	73826724	2	4	76	1	0	0	0	0	0	0	0	1	15105	987	35	5		5	SPOCK2	10	73826724	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	59331	73826724	61708023	484	49334											
DNAJB12	54788	broad.mit.edu	37	chr10	74100601	74100601	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtaggtatagcgcatgcgGccgttgctgtagacgtggac	7	10	16	8	4	0	1	0	0	0	1	0	2	0	2	1	4	3	6	1	4	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:74100601G>A	uc010qjv.1	-	5	921	c.771C>T	c.(769-771)GGC>GGT	p.G257G	DNAJB12_uc001jsz.2_Silent_p.G257G|DNAJB12_uc001jta.2_Silent_p.G257G	NM_017626	NP_060096	Q9NXW2	DJB12_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 12	223					protein folding	endoplasmic reticulum|integral to membrane	heat shock protein binding|unfolded protein binding				0						AGCGCATGCGGCCGTTGCTGT	0.622													8	29					0	0	0.006214	0	0		A	74100601	A	A	74100601	2	1	76	1	0	0	0	0	0	0	0	1	4623	1190	42	2		2	DNAJB12	10	74100601	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	273877	74100601	61434146	485	49335											
CAMK2G	818	broad.mit.edu	37	chr10	75606993	75606993	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacacttacacagacccacGggtgcttgagagcctggtca	11	7	11	12	1	1	3	1	1	0	3	1	4	1	3	2	2	3	1	2	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:75606993G>T	uc001jvv.1	-	10	909	c.785C>A	c.(784-786)CCG>CAG	p.P262Q	CAMK2G_uc001jvm.1_Missense_Mutation_p.P270Q|CAMK2G_uc001jvo.1_Missense_Mutation_p.P270Q|CAMK2G_uc001jvq.1_Missense_Mutation_p.P270Q|CAMK2G_uc001jvr.1_Missense_Mutation_p.P270Q|CAMK2G_uc001jvp.1_Missense_Mutation_p.P270Q|CAMK2G_uc001jvs.1_Missense_Mutation_p.P270Q|CAMK2G_uc001jvt.1_RNA|CAMK2G_uc001jvu.1_Missense_Mutation_p.P248Q|CAMK2G_uc010qkv.1_Intron	NM_172171	NP_751911	Q13555	KCC2G_HUMAN	calcium/calmodulin-dependent protein kinase II	270	Protein kinase.				insulin secretion|interferon-gamma-mediated signaling pathway|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calcium-dependent protein serine/threonine phosphatase activity|calmodulin binding|calmodulin-dependent protein kinase activity			lung(1)|stomach(1)	2	Prostate(51;0.0112)					ACAGACCCACGGGTGCTTGAG	0.557													10	50					1.08611e-07	1.17082e-07	0.000978	1	0		T	75606993	T	T	75606993	3	4	76	1	0	0	0	0	1	0	0	0	2605	1116	39	5	1009	5	CAMK2G	10	75606993	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1506392	75606993	59927754	486	49336											
SH2D4B	387694	broad.mit.edu	37	chr10	82331221	82331221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagatcaccaagaagttcCgggatgctctggccaatgag	12	7	12	10	1	2	3	1	1	1	2	3	5	3	4	3	2	1	2	3	2	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:82331221C>T	uc001kck.1	+	3	812	c.382C>T	c.(382-384)CGG>TGG	p.R128W	SH2D4B_uc001kcl.1_Missense_Mutation_p.R79W	NM_207372	NP_997255	Q5SQS7	SH24B_HUMAN	SH2 domain containing 4B isoform 1	127	Glu-rich.										0			Colorectal(32;0.229)			CAAGAAGTTCCGGGATGCTCT	0.512													12	38					0	0	0.001368	0	0		T	82331221	T	T	82331221	3	4	76	1	0	0	0	0	1	0	0	0	14261	643	23	1	433	1	SH2D4B	10	82331221	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	6724228	82331221	53203526	487	49337											
ANKRD22	118932	broad.mit.edu	37	chr10	90591666	90591666	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacatgccctcgcctgcaagCacagatcaggggcgtgtctc	8	7	11	15	2	2	1	1	0	1	1	4	1	2	1	2	2	3	2	2	2	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:90591666C>T	uc001kfj.3	-	2	507	c.139G>A	c.(139-141)GCT>ACT	p.A47T		NM_144590	NP_653191	Q5VYY1	ANR22_HUMAN	ankyrin repeat domain 22	47	ANK 1.										0		Colorectal(252;0.0163)		Colorectal(12;6.29e-05)|COAD - Colon adenocarcinoma(12;7.69e-05)		CGCCTGCAAGCACAGATCAGG	0.468													36	228					0	0	0.003271	0	0		T	90591666	T	T	90591666	3	4	76	1	0	0	0	0	1	0	0	0	651	710	25	2	456	2	ANKRD22	10	90591666	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	8260445	90591666	44943081	488	49338											
IFIT5	24138	broad.mit.edu	37	chr10	91178104	91178104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcagatccattaccactatgGccgctttcaggaatttcacc	10	12	6	13	1	3	1	3	0	0	1	4	2	4	2	4	2	1	1	4	2	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:91178104G>A	uc010qnh.1	+	2	1379	c.1148G>A	c.(1147-1149)GGC>GAC	p.G383D	IFIT5_uc010qng.1_Missense_Mutation_p.G335D	NM_012420	NP_036552	Q13325	IFIT5_HUMAN	interferon-induced protein with	383	TPR 7.						binding				0						TACCACTATGGCCGCTTTCAG	0.438													5	39					0	0	0.000602	0	0		A	91178104	A	A	91178104	3	1	76	1	0	0	0	0	1	0	0	0	7541	1203	42	2	1154	2	IFIT5	10	91178104	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	586438	91178104	44356643	489	49339											
MYOF	26509	broad.mit.edu	37	chr10	95119596	95119596	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgcttctcttacccttgcGgtgcttgaagcagtctgtgt	4	16	10	11	1	2	1	0	1	2	0	3	1	2	1	1	1	5	3	1	1	2	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:95119596G>A	uc001kin.2	-	29	3237	c.3114C>T	c.(3112-3114)ACC>ACT	p.T1038T	MYOF_uc001kio.2_Silent_p.T1025T|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1038	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						TTACCCTTGCGGTGCTTGAAG	0.498													18	85					0	0	0.007413	0	0		A	95119596	A	A	95119596	2	1	76	1	0	0	0	0	0	0	0	1	10107	1103	39	1		1	MYOF	10	95119596	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3941492	95119596	40415151	490	49340											
C10orf12	26148	broad.mit.edu	37	chr10	98744071	98744071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggccctaattctgaagacaGcatagaggaagtcaaggaag	15	6	12	8	1	2	3	1	1	1	2	2	5	2	5	1	3	1	1	1	3	6	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:98744071G>A	uc001kmv.2	+	1	3031	c.2924G>A	c.(2923-2925)AGC>AAC	p.S975N		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	975										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		TCTGAAGACAGCATAGAGGAA	0.478													21	92					0	0	0.008871	0	0		A	98744071	A	A	98744071	3	1	76	1	0	0	0	0	1	0	0	0	1592	971	34	2	2926	2	C10orf12	10	98744071	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3624475	98744071	36790676	491	49341											
SLIT1	6585	broad.mit.edu	37	chr10	98766411	98766411	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acacagttggccccattctgGcactcagtcccctcacaggg	8	8	9	16	0	3	0	2	0	1	0	4	0	4	0	4	3	0	2	4	3	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:98766411G>A	uc001kmw.2	-	32	3660	c.3408C>T	c.(3406-3408)TGC>TGT	p.C1136C		NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	1136	EGF-like 6.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		CCCCATTCTGGCACTCAGTCC	0.597													6	37					0	0	0.001984	0	0		A	98766411	A	A	98766411	2	1	76	1	0	0	0	0	0	0	0	1	14764	1195	42	2		2	SLIT1	10	98766411	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	22340	98766411	36768336	492	49342											
SEMA4G	57715	broad.mit.edu	37	chr10	102732747	102732747	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccctcactgcggagaccGtctagagaactagatgccac	11	6	11	13	2	2	3	1	0	1	3	2	6	2	4	3	2	3	0	3	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:102732747G>A	uc010qpt.1	+	2	521	c.78G>A	c.(76-78)CCG>CCA	p.P26P	SEMA4G_uc001krv.2_RNA|SEMA4G_uc001krw.1_Silent_p.P26P|SEMA4G_uc001krx.2_Silent_p.P26P|MIR608_hsa-mir-608|MI0003621_5'Flank	NM_017893	NP_060363	Q9NTN9	SEM4G_HUMAN	semaphorin 4G	26	Extracellular (Potential).				cell differentiation|nervous system development	integral to membrane	receptor activity			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3.71e-09)|all cancers(201;2.1e-07)		TGCGGAGACCGTCTAGAGAAC	0.607													23	87					0	0	0.002299	0	0		A	102732747	A	A	102732747	2	1	76	1	0	0	0	0	0	0	0	1	14061	1132	40	1		1	SEMA4G	10	102732747	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3966336	102732747	32802000	493	49343											
SORCS3	22986	broad.mit.edu	37	chr10	106401696	106401696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagccatggtgcactggtCgggacacaacagcagcgtga	11	5	13	12	2	0	1	0	1	0	0	1	2	0	2	2	3	5	2	2	3	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:106401696C>T	uc001kyi.1	+	1	838	c.611C>T	c.(610-612)TCG>TTG	p.S204L		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	204	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GTGCACTGGTCGGGACACAAC	0.697													5	16					0	0	0.000602	0	0		T	106401696	T	T	106401696	3	4	76	1	0	0	0	0	1	0	0	0	14957	893	31	1	613	1	SORCS3	10	106401696	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3668949	106401696	29133051	494	49344											
DUSP5	1847	broad.mit.edu	37	chr10	112257938	112257938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctccgcaaggaggcggCggcgcgctgcgtggtgctcg	4	6	19	12	7	0	0	0	0	0	0	2	2	1	1	1	5	3	4	1	5	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:112257938C>T	uc001kzd.2	+	1	314	c.59C>T	c.(58-60)GCG>GTG	p.A20V		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	20	Rhodanese.				endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		AAGGAGGCGGCGGCGCGCTGC	0.522													11	50					0	0	0.000978	0	0		T	112257938	T	T	112257938	3	4	76	1	0	0	0	0	1	0	0	0	4834	768	27	1	61	1	DUSP5	10	112257938	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	5856242	112257938	23276809	495	49345											
ADRB1	153	broad.mit.edu	37	chr10	115804478	115804478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttcctgcccatcctcaTgcactggtggcgggcggaga	5	9	13	14	2	1	1	1	0	0	1	4	2	4	1	4	4	2	1	4	4	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:115804478T>C	uc001lba.2	+	1	673	c.587T>C	c.(586-588)ATG>ACG	p.M196T		NM_000684	NP_000675	P08588	ADRB1_HUMAN	beta-1-adrenergic receptor	196	Helical; Name=4; (By similarity).				positive regulation of cAMP biosynthetic process	integral to plasma membrane	alpha-2A adrenergic receptor binding|beta1-adrenergic receptor activity|protein heterodimerization activity				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0124)|all cancers(201;0.0298)	Acebutolol(DB01193)|Alprenolol(DB00866)|Amiodarone(DB01118)|Arbutamine(DB01102)|Atenolol(DB00335)|Betaxolol(DB00195)|Bevantolol(DB01295)|Bisoprolol(DB00612)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Desipramine(DB01151)|Dobutamine(DB00841)|Dopamine(DB00988)|Epinephrine(DB00668)|Esmolol(DB00187)|Isoetharine(DB00221)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Metoprolol(DB00264)|Nadolol(DB01203)|Norepinephrine(DB00368)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Practolol(DB01297)|Propranolol(DB00571)|Risperidone(DB00734)|Timolol(DB00373)|Ziprasidone(DB00246)	CCCATCCTCATGCACTGGTGG	0.602													14	50					0	0	0.003163	0	0		C	115804478	C	C	115804478	3	2	76	1	0	0	0	0	1	0	0	0	340	1464	51	3	589	3	ADRB1	10	115804478	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3546540	115804478	19730269	496	49346											
PNLIPRP3	119548	broad.mit.edu	37	chr10	118228695	118228695	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctttcattttctgtcatcAgggaaattgcttcttttgtt	7	20	6	8	0	5	0	3	0	2	0	5	1	5	1	1	1	1	2	1	1	1	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:118228695A>G	uc001lcl.3	+	9	1029	c.928_splice	c.e9-2	p.G310_splice		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor						lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		TTCTGTCATCAGGGAAATTGC	0.303													8	32					0	0	0.00308	0	0		G	118228695	G	G	118228695	5	3	76	1	0	0	0	0	0	0	1	0	12171	202	7	3	960	3	PNLIPRP3	10	118228695	Splice_Site	SNP	A	TCGA-BR-8382-01A-11D-2394-08	2424217	118228695	17306052	497	49347											
KCNK18	338567	broad.mit.edu	37	chr10	118969223	118969223	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatctctcttcaagaaaaaaCcggaccccaagcccgcagat	15	6	6	14	2	3	2	1	0	2	2	4	3	3	3	4	1	2	1	4	1	6	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:118969223C>A	uc010qsr.1	+	3	568	c.568C>A	c.(568-570)CCG>ACG	p.P190T		NM_181840	NP_862823	Q7Z418	KCNKI_HUMAN	potassium channel, subfamily K, member 18	190	Cytoplasmic (Potential).					integral to membrane|plasma membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;0.19)		all cancers(201;0.0211)		CAAGAAAAAACCGGACCCCAA	0.507													15	95					6.31663e-08	6.83667e-08	0.003163	1	0		A	118969223	A	A	118969223	3	1	76	1	0	0	0	0	1	0	0	0	8081	507	18	5	578	5	KCNK18	10	118969223	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	740528	118969223	16565524	498	49348											
CHST15	51363	broad.mit.edu	37	chr10	125769827	125769827	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcggggctcttggtcatCaaagcctcctgcttctcact	6	12	10	13	1	4	0	3	0	2	0	6	1	5	0	2	3	3	2	2	3	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr10:125769827C>A	uc001lhl.2	-	7	2037	c.1524G>T	c.(1522-1524)TTG>TTT	p.L508F	CHST15_uc001lhm.2_Missense_Mutation_p.L508F|CHST15_uc001lhn.2_Missense_Mutation_p.L508F	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	508	Lumenal (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1						TCTTGGTCATCAAAGCCTCCT	0.547													3	12					0.004672	0.00476482	0.004672	1	0		A	125769827	A	A	125769827	3	1	76	1	0	0	0	0	1	0	0	0	3406	825	29	5	165	5	CHST15	10	125769827	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	6800604	125769827	9764920	499	49349											
IFITM5	387733	broad.mit.edu	37	chr11	299306	299306	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggtagggcccctgcccaccTtgatggagtaggccagcgcc	6	6	14	15	2	0	1	0	1	0	0	0	2	0	2	6	4	2	2	6	4	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:299306T>C	uc001low.1	-	1	221	c.185A>G	c.(184-186)AAG>AGG	p.K62R		NM_001025295	NP_001020466	A6NNB3	IFM5_HUMAN	interferon induced transmembrane protein 5	62	Cytoplasmic (Potential).				multicellular organismal development|regulation of bone mineralization|response to biotic stimulus	integral to membrane|plasma membrane					0		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.73e-28)|Epithelial(43;3.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.14e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0328)|LUSC - Lung squamous cell carcinoma(625;0.122)		CCTGCCCACCTTGATGGAGTA	0.662													4	11					0	0	0.009096	0	0		C	299306	C	C	299306	3	2	76	1	0	0	0	0	1	0	0	0	7545	1623	56	3	221	3	IFITM5	11	299306	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08		299306	134707210	500	49350											
ANO9	338440	broad.mit.edu	37	chr11	418410	418410	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcactgaagatggatgctggGgtgggatgggcaggcattgg	8	8	20	5	0	0	2	0	1	0	1	0	4	0	4	0	7	1	4	0	7	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:418410G>T	uc001lpi.2	-	23	2395	c.2310C>A	c.(2308-2310)ACC>ACA	p.T770T	SIGIRR_uc001lpf.2_5'Flank|SIGIRR_uc001lpe.1_5'Flank|ANO9_uc001lph.2_Silent_p.T463T|ANO9_uc010qvv.1_Silent_p.T626T	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	770	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						TGGATGCTGGGGTGGGATGGG	0.647													7	33					8.12818e-05	8.46588e-05	0.001984	1	0		T	418410	T	T	418410	2	4	76	1	0	0	0	0	0	0	0	1	704	1219	43	5		5	ANO9	11	418410	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	119104	418410	134588106	501	49351											
RNH1	6050	broad.mit.edu	37	chr11	498110	498110	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgagctgaagtgggagcAgcaggcggctgtgaagctgc	9	6	17	9	1	0	3	0	3	0	0	0	4	0	4	0	3	5	5	0	3	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:498110A>G	uc001lpk.1	-	7	2396	c.988T>C	c.(988-990)TGC>CGC	p.C330R	RNH1_uc001lpl.1_Missense_Mutation_p.C330R|RNH1_uc001lpm.1_Missense_Mutation_p.C330R|RNH1_uc001lpn.1_Missense_Mutation_p.C330R|RNH1_uc001lpo.1_Missense_Mutation_p.C330R|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Missense_Mutation_p.C330R|RNH1_uc001lpt.1_Missense_Mutation_p.C87R|RNH1_uc001lpq.1_Missense_Mutation_p.C330R|RNH1_uc001lpr.1_Missense_Mutation_p.C330R|RNH1_uc001lps.1_Missense_Mutation_p.C330R	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	330	LRR 11.				mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AAGTGGGAGCAGCAGGCGGCT	0.637													5	43					0	0	0.000602	0	0		G	498110	G	G	498110	3	3	76	1	0	0	0	0	1	0	0	0	13529	188	7	3	409	3	RNH1	11	498110	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	79700	498110	134508406	502	49352											
PDDC1	347862	broad.mit.edu	37	chr11	774114	774114	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaattccatggctttcccCtggagaagcagagcccaggg	11	7	11	12	0	0	2	0	0	0	2	2	3	2	2	4	3	2	2	4	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:774114C>A	uc001lrc.2	-	3	167	c.142_splice	c.e3-1	p.G48_splice	PDDC1_uc010qwm.1_Splice_Site|PDDC1_uc001lrd.2_Splice_Site_p.G48_splice|PDDC1_uc001lrf.1_Splice_Site_p.G48_splice|PDDC1_uc001lrg.1_Splice_Site|PDDC1_uc009ycg.2_Splice_Site|PDDC1_uc010qwn.1_Splice_Site|PDDC1_uc010qwo.1_Splice_Site|PDDC1_uc010qwp.1_Splice_Site_p.G48_splice|PDDC1_uc010qwq.1_Splice_Site|PDDC1_uc010qwr.1_Splice_Site_p.G48_splice|PDDC1_uc010qws.1_Splice_Site	NM_182612	NP_872418	Q8NB37	PDDC1_HUMAN	Parkinson disease 7 domain containing 1							extracellular region					0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;3.66e-26)|Epithelial(43;2.43e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-19)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGGCTTTCCCCTGGAGAAGCA	0.602													9	47					0.000274275	0.000284297	0.004482	1	0		A	774114	A	A	774114	5	1	76	1	0	0	0	0	0	0	1	0	11648	695	24	5	545	5	PDDC1	11	774114	Splice_Site	SNP	C	TCGA-BR-8382-01A-11D-2394-08	276004	774114	134232402	503	49353											
MUC6	4588	broad.mit.edu	37	chr11	1015989	1015989	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtgagagaagtggaccgcGaggtggtggactgagaggag	10	6	21	4	2	0	3	0	2	0	2	0	9	0	6	1	6	0	0	1	6	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:1015989G>A	uc001lsw.2	-	31	6863	c.6812C>T	c.(6811-6813)TCG>TTG	p.S2271L		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2271	Ser-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGTGGACCGCGAGGTGGTGGA	0.627													25	156					0	0	0.005443	0	0		A	1015989	A	A	1015989	3	1	76	1	0	0	0	0	1	0	0	0	9998	1059	37	1	519	1	MUC6	11	1015989	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	241875	1015989	133990527	504	49354											
MRPL23	6150	broad.mit.edu	37	chr11	1972219	1972219	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcccggtgtggcccagccCgaggacaccgtgcagttccg	5	5	15	16	5	0	0	0	0	0	0	1	2	1	1	5	4	2	2	5	4	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:1972219C>T	uc001lux.2	+	2	199	c.108C>T	c.(106-108)CCC>CCT	p.P36P		NM_021134	NP_066957	Q16540	RM23_HUMAN	mitochondrial ribosomal protein L23	36					translation	mitochondrial large ribosomal subunit	nucleotide binding|RNA binding|structural constituent of ribosome			large_intestine(2)|ovary(1)	3		all_epithelial(84;6.24e-05)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.0026)|Lung(200;0.0171)|LUSC - Lung squamous cell carcinoma(625;0.0842)		TGGCCCAGCCCGAGGACACCG	0.657													4	14					0	0	0.009096	0	0		T	1972219	T	T	1972219	2	4	76	1	0	0	0	0	0	0	0	1	9807	639	23	1		1	MRPL23	11	1972219	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	956230	1972219	133034297	505	49355											
UBQLN3	50613	broad.mit.edu	37	chr11	5529402	5529402	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaatggctgccgtgggggAaaaagataagggagcaaatg	15	5	17	4	1	0	1	0	0	0	1	0	4	0	4	1	5	2	2	1	5	5	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:5529402A>G	uc001may.1	-	2	1473	c.1387T>C	c.(1387-1389)TCC>CCC	p.S463P	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	463										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCCGTGGGGGAAAAAGATAAG	0.547													16	56					0	0	0.004007	0	0		G	5529402	G	G	5529402	3	3	76	1	0	0	0	0	1	0	0	0	16924	246	9	3	584	3	UBQLN3	11	5529402	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	3557183	5529402	129477114	506	49356											
CNGA4	1262	broad.mit.edu	37	chr11	6260939	6260939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttccccgacttgcagcacGgttatctggtggcctggttg	4	12	13	12	2	1	0	0	0	1	0	2	1	2	0	3	4	2	5	3	4	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:6260939G>A	uc001mco.2	+	3	297	c.190G>A	c.(190-192)GGT>AGT	p.G64S	CNGA4_uc010raa.1_Missense_Mutation_p.G24S|CNGA4_uc001mcn.2_Missense_Mutation_p.G24S	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	64	Extracellular (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTTGCAGCACGGTTATCTGGT	0.572													5	29					0	0	0.001168	0	0		A	6260939	A	A	6260939	3	1	76	1	0	0	0	0	1	0	0	0	3602	1116	39	1	200	1	CNGA4	11	6260939	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	731537	6260939	128745577	507	49357											
OLFML1	283298	broad.mit.edu	37	chr11	7530851	7530851	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcctaacactttcctggcAgggaacaggccaagtgatct	12	9	9	11	0	1	1	0	1	1	0	3	2	3	2	3	3	2	1	3	3	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:7530851A>G	uc001mfi.2	+	3	993	c.641A>G	c.(640-642)CAG>CGG	p.Q214R	OLFML1_uc010raz.1_Missense_Mutation_p.Q78R|OLFML1_uc010rba.1_Missense_Mutation_p.Q214R	NM_198474	NP_940876	Q6UWY5	OLFL1_HUMAN	olfactomedin-like 1 precursor	214	Olfactomedin-like.					extracellular region				ovary(2)	2				Epithelial(150;6.96e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		CTTTCCTGGCAGGGAACAGGC	0.423													16	58					0	0	0.00499	0	0		G	7530851	G	G	7530851	3	3	76	1	0	0	0	0	1	0	0	0	10875	188	7	3	651	3	OLFML1	11	7530851	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1269912	7530851	127475665	508	49358											
NLRP10	338322	broad.mit.edu	37	chr11	7982583	7982583	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcctgggtacagagtaccGgtggcccagtccaacaccat	9	6	12	14	2	0	1	0	0	0	1	1	1	1	1	5	4	3	2	5	4	3	2	rs138681119	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:7982583G>A	uc001mfv.1	-	2	593	c.576C>T	c.(574-576)ACC>ACT	p.T192T		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	192	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ACAGAGTACCGGTGGCCCAGT	0.532													6	50					0	0	0.001168	0	0		A	7982583	A	A	7982583	2	1	76	1	0	0	0	0	0	0	0	1	10491	1103	39	1		1	NLRP10	11	7982583	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	451732	7982583	127023933	509	49359											
EIF3F	8665	broad.mit.edu	37	chr11	8009136	8009136	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgcccgctctgcctggTcctgctcttccagggccctt	2	10	10	19	2	2	0	0	0	2	0	4	0	4	0	6	2	3	2	6	2	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:8009136T>C	uc001mfw.2	+	1	270	c.237T>C	c.(235-237)GGT>GGC	p.G79G	EIF3F_uc010rbj.1_5'UTR	NM_003754	NP_003745	O00303	EIF3F_HUMAN	eukaryotic translation initiation factor 3,	79						cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(1)	1				Epithelial(150;1.44e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CTCTGCCTGGTCCTGCTCTTC	0.657											OREG0020726	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	28					0	0	0.006214	0	0		C	8009136	C	C	8009136	2	2	76	1	0	0	0	0	0	0	0	1	5024	1654	58	3		3	EIF3F	11	8009136	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	26553	8009136	126997380	510	49360											
IPO7	10527	broad.mit.edu	37	chr11	9459747	9459747	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttttatccttttatttaaCggattgaaaagagcatatgc	12	16	7	6	1	0	2	0	1	0	1	1	3	1	3	1	1	3	2	1	1	6	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:9459747C>T	uc001mho.2	+	22	2752	c.2610C>T	c.(2608-2610)AAC>AAT	p.N870N		NM_006391	NP_006382	O95373	IPO7_HUMAN	importin 7	870					interspecies interaction between organisms|signal transduction	Golgi apparatus|nuclear pore|soluble fraction	protein transporter activity|Ran GTPase binding|small GTPase regulator activity			lung(1)|breast(1)	2				all cancers(16;8.29e-09)|Epithelial(150;4.76e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0217)		TTTTATTTAACGGATTGAAAA	0.338													22	108					0	0	0.002299	0	0		T	9459747	T	T	9459747	2	4	76	1	0	0	0	0	0	0	0	1	7813	535	19	1		1	IPO7	11	9459747	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1450611	9459747	125546769	511	49361											
ARNTL	406	broad.mit.edu	37	chr11	13402723	13402723	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggataagagggtcatcGccttctagctgtggctccag	9	9	13	10	1	2	1	1	0	1	1	4	3	3	2	2	3	1	2	2	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:13402723G>A	uc001mkr.2	+	18	1947	c.1539G>A	c.(1537-1539)TCG>TCA	p.S513S	ARNTL_uc001mko.2_Silent_p.S469S|ARNTL_uc001mkp.2_Silent_p.S512S|ARNTL_uc001mkq.2_Silent_p.S512S|ARNTL_uc001mks.2_Silent_p.S470S|ARNTL_uc001mkt.2_Silent_p.S513S|ARNTL_uc001mku.2_RNA|ARNTL_uc001mkw.2_Silent_p.S470S|ARNTL_uc001mkx.2_Silent_p.S511S|ARNTL_uc001mky.2_Silent_p.S51S	NM_001178	NP_001169	O00327	BMAL1_HUMAN	aryl hydrocarbon receptor nuclear	513				SP -> LR (in Ref. 2; AAC51213).	circadian rhythm|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	aryl hydrocarbon receptor binding|DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0				Epithelial(150;0.0243)		GAGGGTCATCGCCTTCTAGCT	0.478													20	81					0	0	0.001882	0	0		A	13402723	A	A	13402723	2	1	76	1	0	0	0	0	0	0	0	1	968	1074	38	1		1	ARNTL	11	13402723	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3942976	13402723	121603793	512	49362											
PRMT3	10196	broad.mit.edu	37	chr11	20515731	20515731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtcgtgttctctacgggcCctcagagcaccaaaacacac	11	7	9	14	2	2	1	1	0	1	1	4	1	2	1	2	2	3	2	2	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:20515731C>T	uc001mqb.2	+	15	1634	c.1417C>T	c.(1417-1419)CCT>TCT	p.P473S	PRMT3_uc001mqc.2_Missense_Mutation_p.P396S|PRMT3_uc010rdn.1_Missense_Mutation_p.P411S	NM_005788	NP_005779	O60678	ANM3_HUMAN	protein arginine methyltransferase 3 isoform 1	473							zinc ion binding				0						CTCTACGGGCCCTCAGAGCAC	0.373													14	133					0	0	0.006122	0	0		T	20515731	T	T	20515731	3	4	76	1	0	0	0	0	1	0	0	0	12560	623	22	4	1475	4	PRMT3	11	20515731	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	7113008	20515731	114490785	513	49363											
BDNF	627	broad.mit.edu	37	chr11	27680043	27680043	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgtcctcggatgtttgcTtctttcatgggggcagcctt	3	16	11	11	1	2	0	1	0	1	0	4	1	3	1	3	3	2	3	3	3	0	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:27680043T>C	uc010rdu.1	-	2	920	c.69A>G	c.(67-69)GAA>GAG	p.E23E	BDNFOS_uc001mrm.2_Intron|BDNFOS_uc009yij.2_RNA|BDNFOS_uc009yik.2_Intron|BDNFOS_uc009yil.2_RNA|BDNFOS_uc001mrp.2_Intron|BDNFOS_uc009yim.2_RNA|BDNFOS_uc009yin.2_Intron|BDNFOS_uc009yio.2_RNA|BDNFOS_uc009yip.2_RNA|BDNFOS_uc001mrn.2_Intron|BDNFOS_uc009yiq.2_RNA|BDNFOS_uc001mro.2_Intron|BDNFOS_uc009yir.2_RNA|BDNFOS_uc009yis.2_Intron|BDNFOS_uc009yit.2_Intron|BDNFOS_uc009yiu.2_RNA|BDNFOS_uc009yiv.2_Intron|BDNFOS_uc009yiw.2_RNA|BDNFOS_uc009yix.2_Intron|BDNFOS_uc009yiy.2_RNA|BDNFOS_uc009yiz.2_RNA|BDNFOS_uc001mrq.3_Intron|BDNFOS_uc001mrr.3_Intron|BDNFOS_uc009yja.2_Intron|BDNFOS_uc009yjb.2_RNA|BDNF_uc010rdv.1_Silent_p.E23E|BDNF_uc001mrt.2_Silent_p.E38E|BDNF_uc010rdw.1_Silent_p.E23E|BDNF_uc009yjd.2_Silent_p.E23E|BDNF_uc001mru.2_Silent_p.E23E|BDNF_uc010rdx.1_Silent_p.E23E|BDNF_uc010rdy.1_Silent_p.E23E|BDNF_uc009yjg.2_Silent_p.E23E|BDNF_uc009yje.2_Silent_p.E105E|BDNF_uc009yjf.2_Silent_p.E52E|BDNF_uc001mrv.2_Silent_p.E23E|BDNF_uc001mrw.3_Silent_p.E23E|BDNF_uc001mrx.2_Silent_p.E23E|BDNF_uc001mry.3_Silent_p.E23E|BDNF_uc001mrz.3_Silent_p.E23E|BDNF_uc001msa.2_Silent_p.E31E	NM_001143816	NP_001137288	P23560	BDNF_HUMAN	brain-derived neurotrophic factor isoform a	23						extracellular region	growth factor activity				0						GGATGTTTGCTTCTTTCATGG	0.522													20	107					0	0	0.008871	0	0		C	27680043	C	C	27680043	2	2	76	1	0	0	0	0	0	0	0	1	1395	1606	56	3		3	BDNF	11	27680043	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	7164312	27680043	107326473	514	49364											
PAX6	5080	broad.mit.edu	37	chr11	31823109	31823109	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgttctcaatgaacttacGcttggtatgttatcgttggt	8	17	10	6	2	1	1	1	1	1	0	3	2	1	1	0	2	2	5	0	2	5	6	rs121907928		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:31823109G>A	uc001mtd.3	-	5	1247	c.357C>T	c.(355-357)AGC>AGT	p.S119S	PAX6_uc001mte.3_Silent_p.S119S|PAX6_uc001mtg.3_Silent_p.S133S|PAX6_uc001mtf.3_Silent_p.S119S|PAX6_uc001mth.3_Silent_p.S119S|PAX6_uc009yjr.2_Silent_p.S119S	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	119	Paired.		S -> R (in AN).		blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					ATGAACTTACGCTTGGTATGT	0.512									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				12	55					0	0	0.001368	0	0		A	31823109	A	A	31823109	2	1	76	1	0	0	0	0	0	0	0	1	11502	1101	38	1		1	PAX6	11	31823109	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4143066	31823109	103183407	515	49365											
OR4C15	81309	broad.mit.edu	37	chr11	55322544	55322544	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggcctcatggtggtcatCaacagtgggtttatctgcat	7	15	11	8	0	4	0	3	0	1	0	4	0	4	0	1	4	2	2	1	4	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:55322544C>A	uc010rig.1	+	1	762	c.762C>A	c.(760-762)ATC>ATA	p.I254I		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	200	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGGTGGTCATCAACAGTGGGT	0.468										HNSCC(20;0.049)			10	43					2.17888e-05	2.28263e-05	0.006214	1	0		A	55322544	A	A	55322544	2	1	76	1	0	0	0	0	0	0	0	1	11067	816	29	5		5	OR4C15	11	55322544	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	23499435	55322544	79683972	516	49366											
OR5F1	338674	broad.mit.edu	37	chr11	55761467	55761467	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtaggaggagaggatgacaAgcagagtccccacaatattc	15	6	12	8	0	0	3	0	1	0	2	2	6	1	5	2	3	1	2	2	3	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:55761467A>C	uc010riv.1	-	1	635	c.635T>G	c.(634-636)CTT>CGT	p.L212R		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	212	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					GAGGATGACAAGCAGAGTCCC	0.483													16	54					0	0	0.004007	0	0		C	55761467	C	C	55761467	3	2	76	1	0	0	0	0	1	0	0	0	11177	72	3	5	312	5	OR5F1	11	55761467	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	438923	55761467	79245049	517	49367											
OR5M3	219482	broad.mit.edu	37	chr11	56237279	56237279	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtggaaaaggccttctgcCttccttctgctgagcgcatt	7	13	10	11	1	2	1	0	1	2	0	3	2	3	2	3	2	3	2	3	2	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:56237279C>A	uc010rjk.1	-	1	695	c.695G>T	c.(694-696)AGG>ATG	p.R232M		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GGCCTTCTGCCTTCCTTCTGC	0.443													8	55					2.17888e-05	2.28263e-05	0.006214	1	0		A	56237279	A	A	56237279	3	1	76	1	0	0	0	0	1	0	0	0	11194	681	24	5	230	5	OR5M3	11	56237279	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	475812	56237279	78769237	518	49368											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57068391	57068391	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcttgggaggtaacgtgAggggctttcccagtcctggg	5	10	17	9	1	0	1	0	1	0	0	2	2	2	2	2	6	1	3	2	6	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:57068391A>G	uc001njr.2	-	9	5408	c.5096T>C	c.(5095-5097)CTC>CCC	p.L1699P	TNKS1BP1_uc001njp.2_Missense_Mutation_p.L271P|TNKS1BP1_uc001njq.2_Missense_Mutation_p.L272P|TNKS1BP1_uc001njs.2_Missense_Mutation_p.L1699P	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	1699	Arg/Glu/Lys-rich (charged).				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				AGGTAACGTGAGGGGCTTTCC	0.552													17	109					0	0	0.010504	0	0		G	57068391	G	G	57068391	3	3	76	1	0	0	0	0	1	0	0	0	16345	304	11	3	101	3	TNKS1BP1	11	57068391	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	831112	57068391	77938125	519	49369											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57080070	57080070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctccccgccttgcacCgccaccactgggtggtggtg	4	8	12	17	2	0	0	0	0	0	0	2	0	2	0	7	3	2	2	7	3	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:57080070C>T	uc001njr.2	-	4	2404	c.2092G>A	c.(2092-2094)GGT>AGT	p.G698S	TNKS1BP1_uc001njs.2_Missense_Mutation_p.G698S|TNKS1BP1_uc009ymd.1_Missense_Mutation_p.G149S	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	698	Pro-rich.|Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				CGCCTTGCACCGCCACCACTG	0.627													15	66					0	0	0.00245	0	0		T	57080070	T	T	57080070	3	4	76	1	0	0	0	0	1	0	0	0	16345	652	23	1	3125	1	TNKS1BP1	11	57080070	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	11679	57080070	77926446	520	49370											
CTNND1	1500	broad.mit.edu	37	chr11	57569533	57569533	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagtgcaccttggagccTgtggagctctcaagaatatc	11	9	12	9	0	1	1	1	0	1	1	3	4	1	4	2	3	3	2	2	3	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:57569533T>C	uc001nmc.3	+	7	1856	c.1285T>C	c.(1285-1287)TGT>CGT	p.C429R	CTNND1_uc001nlh.1_Missense_Mutation_p.C429R|CTNND1_uc001nlu.3_Missense_Mutation_p.C328R|CTNND1_uc001nlt.3_Missense_Mutation_p.C328R|CTNND1_uc001nls.3_Missense_Mutation_p.C328R|CTNND1_uc001nlw.3_Missense_Mutation_p.C328R|CTNND1_uc001nmf.3_Missense_Mutation_p.C429R|CTNND1_uc001nmd.3_Missense_Mutation_p.C375R|CTNND1_uc001nlk.3_Missense_Mutation_p.C375R|CTNND1_uc001nme.3_Missense_Mutation_p.C429R|CTNND1_uc001nll.3_Missense_Mutation_p.C375R|CTNND1_uc001nmg.3_Missense_Mutation_p.C375R|CTNND1_uc001nlj.3_Missense_Mutation_p.C375R|CTNND1_uc001nlr.3_Missense_Mutation_p.C375R|CTNND1_uc001nlp.3_Missense_Mutation_p.C375R|CTNND1_uc001nlx.3_Missense_Mutation_p.C106R|CTNND1_uc001nlz.3_Missense_Mutation_p.C106R|CTNND1_uc009ymn.2_Missense_Mutation_p.C106R|CTNND1_uc001nlm.3_Missense_Mutation_p.C429R|CTNND1_uc001nly.3_Missense_Mutation_p.C106R|CTNND1_uc001nmb.3_Missense_Mutation_p.C106R|CTNND1_uc001nma.3_Missense_Mutation_p.C106R|CTNND1_uc001nmi.3_Missense_Mutation_p.C328R|CTNND1_uc001nmh.3_Missense_Mutation_p.C429R|CTNND1_uc001nlq.3_Missense_Mutation_p.C328R|CTNND1_uc001nln.3_Missense_Mutation_p.C429R|CTNND1_uc001nli.3_Missense_Mutation_p.C429R|CTNND1_uc001nlo.3_Missense_Mutation_p.C328R|CTNND1_uc001nlv.3_Missense_Mutation_p.C328R	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	429	ARM 2.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				CCTTGGAGCCTGTGGAGCTCT	0.493													35	158					0	0	0.002445	0	0		C	57569533	C	C	57569533	3	2	76	1	0	0	0	0	1	0	0	0	4022	1580	55	3	1303	3	CTNND1	11	57569533	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	489463	57569533	77436983	521	49371											
SCGB1D4	404552	broad.mit.edu	37	chr11	62064988	62064988	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttaaaagatatctgatcGgtgcagtgcttcacttccaa	11	14	7	9	1	3	2	1	1	2	1	5	2	4	2	1	1	2	2	1	1	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:62064988G>A	uc001ntd.1	-	2	252	c.198C>T	c.(196-198)ACC>ACT	p.T66T		NM_206998	NP_996881	Q6XE38	SG1D4_HUMAN	secretoglobin family 1D member 4 precursor	66						extracellular region	binding				0						ATATCTGATCGGTGCAGTGCT	0.438													33	220					0	0	0.004289	0	0		A	62064988	A	A	62064988	2	1	76	1	0	0	0	0	0	0	0	1	13923	1103	39	1		1	SCGB1D4	11	62064988	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4495455	62064988	72941528	522	49372											
MTA2	9219	broad.mit.edu	37	chr11	62361871	62361871	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagagaaaggaacccctgcCcctgccatctggaaaagggg	12	4	13	12	0	1	1	0	0	1	1	1	4	1	3	5	4	3	1	5	4	4	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:62361871C>T	uc001ntq.1	-	17	2082	c.1701G>A	c.(1699-1701)GGG>GGA	p.G567G	TUT1_uc001nto.2_5'Flank|MTA2_uc010rlx.1_Silent_p.G394G	NM_004739	NP_004730	O94776	MTA2_HUMAN	metastasis-associated protein 2	567					chromatin assembly or disassembly	NuRD complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GAACCCCTGCCCCTGCCATCT	0.557													17	91					0	0	0.004007	0	0		T	62361871	T	T	62361871	2	4	76	1	0	0	0	0	0	0	0	1	9927	610	22	4		4	MTA2	11	62361871	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	296883	62361871	72644645	523	49373											
LRRN4CL	221091	broad.mit.edu	37	chr11	62455768	62455768	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggagagtcctgggcacagGcaggccgccggcccgaccct	6	4	15	16	3	0	1	0	0	0	1	1	3	1	1	5	5	0	2	5	5	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:62455768G>A	uc001nun.2	-	2	520	c.213C>T	c.(211-213)TGC>TGT	p.C71C		NM_203422	NP_981967	Q8ND94	LRN4L_HUMAN	LRRN4 C-terminal like precursor	71	Extracellular (Potential).					integral to membrane					0						CTGGGCACAGGCAGGCCGCCG	0.726													9	29					0	0	0.006214	0	0		A	62455768	A	A	62455768	2	1	76	1	0	0	0	0	0	0	0	1	9056	1195	42	2		2	LRRN4CL	11	62455768	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	93897	62455768	72550748	524	49374											
SLC22A11	55867	broad.mit.edu	37	chr11	64336156	64336156	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccagatttgcagaccctgCgtgtggtctttgctgtgctg	5	13	12	11	1	1	2	0	0	1	2	1	2	1	2	2	1	4	3	2	1	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:64336156C>T	uc001oai.2	+	8	1662	c.1288C>T	c.(1288-1290)CGT>TGT	p.R430C	SLC22A11_uc001oaj.2_Missense_Mutation_p.R430C|SLC22A11_uc009ypq.2_Intron	NM_018484	NP_060954	Q9NSA0	S22AB_HUMAN	solute carrier family 22 member 11	430	Extracellular (Potential).				urate metabolic process	apical plasma membrane|external side of plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium-independent organic anion transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2					Probenecid(DB01032)	GCAGACCCTGCGTGTGGTCTT	0.582													18	81					0	0	0.008871	0	0		T	64336156	T	T	64336156	3	4	76	1	0	0	0	0	1	0	0	0	14467	768	27	1	1318	1	SLC22A11	11	64336156	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1880388	64336156	70670360	525	49375											
PYGM	5837	broad.mit.edu	37	chr11	64527189	64527189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgccccacgaggtggtcgCgcacggtatgggccagagca	8	4	16	13	5	0	1	0	0	0	1	1	2	0	1	3	4	2	3	3	4	1	1	rs145514333	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:64527189C>T	uc001oax.3	-	1	999	c.182G>A	c.(181-183)CGC>CAC	p.R61H	PYGM_uc001oay.3_Missense_Mutation_p.R61H	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	61					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	GAGGTGGTCGCGCACGGTATG	0.597													55	223					0	0	0.00361	0	0		T	64527189	T	T	64527189	3	4	76	1	0	0	0	0	1	0	0	0	12887	768	27	1	2426	1	PYGM	11	64527189	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	191033	64527189	70479327	526	49376											
CDC42BPG	55561	broad.mit.edu	37	chr11	64603009	64603009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagctgctctcgcagggCggccacctccttcctcagtt	4	10	9	18	2	2	0	1	0	1	0	6	0	5	0	5	2	2	4	5	2	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:64603009C>T	uc001obs.3	-	15	1843	c.1843G>A	c.(1843-1845)GCC>ACC	p.A615T		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	615	Potential.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						TCTCGCAGGGCGGCCACCTCC	0.692													24	109					0	0	0.002299	0	0		T	64603009	T	T	64603009	3	4	76	1	0	0	0	0	1	0	0	0	3077	768	27	1	2904	1	CDC42BPG	11	64603009	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	75820	64603009	70403507	527	49377											
CDC42BPG	55561	broad.mit.edu	37	chr11	64606620	64606620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accaccagtcacactgtgggCcgtagtggcccttgccctcc	6	8	10	17	1	1	0	1	0	0	0	2	0	2	0	6	2	1	1	6	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:64606620C>T	uc001obs.3	-	7	761	c.761G>A	c.(760-762)GGC>GAC	p.G254D		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	254	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						ACACTGTGGGCCGTAGTGGCC	0.597													27	130					0	0	0.004656	0	0		T	64606620	T	T	64606620	3	4	76	1	0	0	0	0	1	0	0	0	3077	739	26	2	4018	2	CDC42BPG	11	64606620	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3611	64606620	70399896	528	49378											
ATG2A	23130	broad.mit.edu	37	chr11	64665575	64665575	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccctcagcggaggtctccCctgggaccacggggttgatg	6	7	14	14	2	2	1	1	1	1	0	3	3	2	3	4	5	1	1	4	5	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:64665575C>A	uc001obx.2	-	34	4956	c.4841G>T	c.(4840-4842)GGG>GTG	p.G1614V	ATG2A_uc001obw.2_Missense_Mutation_p.G379V	NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1614							protein binding			ovary(1)|central_nervous_system(1)	2						GGAGGTCTCCCCTGGGACCAC	0.622											OREG0004029	type=REGULATORY REGION|Gene=BC033850|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	19	80					1.55795e-14	1.74944e-14	0.001882	1	0		A	64665575	A	A	64665575	3	1	76	1	0	0	0	0	1	0	0	0	1094	623	22	5	1007	5	ATG2A	11	64665575	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	58955	64665575	70340941	529	49379											
MAP3K11	4296	broad.mit.edu	37	chr11	65365879	65365879	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagtcccagaaggggtcTgagtccgggaacaaggtcca	10	5	17	9	1	1	2	0	1	1	1	4	4	4	4	3	6	1	0	3	6	3	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:65365879T>G	uc001oew.2	-	10	2920	c.2427A>C	c.(2425-2427)TCA>TCC	p.S809S	KCNK7_uc001oeq.2_5'Flank|KCNK7_uc001oer.2_5'Flank|KCNK7_uc001oes.2_5'Flank|KCNK7_uc001oeu.2_5'Flank|MAP3K11_uc001oev.2_Silent_p.S225S|MAP3K11_uc010rol.1_Silent_p.S552S|MAP3K11_uc001oex.1_Silent_p.S298S	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	809	Pro-rich.				activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						AGAAGGGGTCTGAGTCCGGGA	0.672													6	35					0	0	0.001168	0	0		G	65365879	G	G	65365879	2	3	76	1	0	0	0	0	0	0	0	1	9263	1567	55	5		5	MAP3K11	11	65365879	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	700304	65365879	69640637	530	49380											
PCNXL3	399909	broad.mit.edu	37	chr11	65396109	65396109	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtttcgtgctgacctacaTcgcgccctggcagatcacct	6	10	10	15	4	1	2	1	1	0	1	3	2	1	2	3	1	2	3	3	1	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:65396109T>G	uc001oey.2	+	23	3746	c.3746T>G	c.(3745-3747)ATC>AGC	p.I1249S	PCNXL3_uc001oez.2_Missense_Mutation_p.I136S	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1249	Helical; (Potential).					integral to membrane					0						CTGACCTACATCGCGCCCTGG	0.602													15	66					0	0	0.004007	0	0		G	65396109	G	G	65396109	3	3	76	1	0	0	0	0	1	0	0	0	11612	1435	50	5	3836	5	PCNXL3	11	65396109	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	30230	65396109	69610407	531	49381											
KAT5	10524	broad.mit.edu	37	chr11	65481995	65481995	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagctctgatggaataccGtcagcaccacgcatgactgg	11	7	11	12	2	2	2	1	2	1	0	2	4	2	3	2	2	3	3	2	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:65481995G>A	uc001ofi.2	+	8	871	c.621G>A	c.(619-621)CCG>CCA	p.P207P	KAT5_uc001ofj.2_Silent_p.P155P|KAT5_uc001ofk.2_Silent_p.P240P|KAT5_uc010roo.1_Silent_p.P188P|KAT5_uc001ofl.2_5'UTR	NM_006388	NP_006379	Q92993	KAT5_HUMAN	K(lysine) acetyltransferase 5 isoform 2	207					androgen receptor signaling pathway|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|double-strand break repair|interspecies interaction between organisms|negative regulation of interleukin-2 production|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nucleolus|perinuclear region of cytoplasm|Piccolo NuA4 histone acetyltransferase complex	androgen receptor binding|histone acetyltransferase activity|metal ion binding|repressing transcription factor binding|transcription coactivator activity				0						ATGGAATACCGTCAGCACCAC	0.527													16	53					0	0	0.003163	0	0		A	65481995	A	A	65481995	2	1	76	1	0	0	0	0	0	0	0	1	7999	1132	40	1		1	KAT5	11	65481995	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	85886	65481995	69524521	532	49382											
CCDC85B	11007	broad.mit.edu	37	chr11	65658545	65658545	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcggcgcgccgcacgccaGtggcagctcttcgggaccca	5	4	16	16	6	1	0	0	0	1	0	2	1	1	1	3	4	1	3	3	4	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:65658545G>A	uc001ogf.2	+	1	671	c.291G>A	c.(289-291)CAG>CAA	p.Q97Q	FIBP_uc009yqu.2_5'Flank|FIBP_uc001ogd.2_5'Flank|FIBP_uc001oge.2_5'Flank|FIBP_uc010roq.1_5'Flank|FIBP_uc010ror.1_5'Flank	NM_006848	NP_006839	Q15834	CC85B_HUMAN	hepatitis delta antigen-interacting protein A	97					cell differentiation|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	protein binding				0				READ - Rectum adenocarcinoma(159;0.166)		CCGCACGCCAGTGGCAGCTCT	0.721													3	3					0	0	0.004672	0	0		A	65658545	A	A	65658545	2	1	76	1	0	0	0	0	0	0	0	1	2863	1020	36	4		4	CCDC85B	11	65658545	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	176550	65658545	69347971	533	49383											
SF3B2	10992	broad.mit.edu	37	chr11	65827423	65827423	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagccccccttcgagctGccagacttcatcaaacgcac	11	6	8	16	2	2	2	2	0	0	2	3	4	2	2	4	0	4	2	4	0	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:65827423G>A	uc001ogy.1	+	13	1612	c.1572G>A	c.(1570-1572)CTG>CTA	p.L524L		NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	524					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						CCTTCGAGCTGCCAGACTTCA	0.617													12	67					0	0	0.001855	0	0		A	65827423	A	A	65827423	2	1	76	1	0	0	0	0	0	0	0	1	14176	1306	46	2		2	SF3B2	11	65827423	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	168878	65827423	69179093	534	49384											
KDM2A	22992	broad.mit.edu	37	chr11	67018078	67018078	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggggggagaggaggaggaAgaggaggaggaggaggagga	13	1	26	1	0	0	2	0	0	0	2	0	12	0	11	0	12	0	0	0	12	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:67018078A>G	uc001ojw.2	+	17	3441	c.2577A>G	c.(2575-2577)GAA>GAG	p.E859E	KDM2A_uc001ojx.2_Intron|KDM2A_uc001ojy.2_Silent_p.E553E|KDM2A_uc010rpn.1_Silent_p.E420E|KDM2A_uc001ojz.1_Silent_p.E317E|KDM2A_uc001oka.2_5'Flank	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	859					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						aggaggaggaagaggaggagg	0.473													10	23					0	0	0.008291	0	0		G	67018078	G	G	67018078	2	3	76	1	0	0	0	0	0	0	0	1	8140	69	3	3		3	KDM2A	11	67018078	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1190655	67018078	67988438	535	49385											
RPS6KB2	6199	broad.mit.edu	37	chr11	67201891	67201891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttgatacccgcttcacacGgcagacgccggtggacagtc	8	8	12	13	4	1	2	1	1	0	1	2	3	1	3	2	3	1	3	2	3	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:67201891G>A	uc001old.2	+	13	1173	c.1091G>A	c.(1090-1092)CGG>CAG	p.R364Q	RPS6KB2_uc001olf.2_Missense_Mutation_p.R164Q|RPS6KB2_uc001olg.2_Missense_Mutation_p.R364Q|RPS6KB2_uc009yrq.2_Missense_Mutation_p.R164Q|RPS6KB2_uc001ole.2_RNA|RPS6KB2_uc001olh.2_RNA|RPS6KB2_uc009yrr.2_Missense_Mutation_p.R195Q	NM_003952	NP_003943	Q9UBS0	KS6B2_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	364	AGC-kinase C-terminal.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of translational initiation|translation	nucleoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|stomach(1)|lung(1)|salivary_gland(1)	7			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			CGCTTCACACGGCAGACGCCG	0.647													13	49					0	0	0.006122	0	0		A	67201891	A	A	67201891	3	1	76	1	0	0	0	0	1	0	0	0	13682	1116	39	1	1141	1	RPS6KB2	11	67201891	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	183813	67201891	67804625	536	49386											
GDPD4	220032	broad.mit.edu	37	chr11	76938960	76938960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttttcagtctctctccGcctagaaggaagcagaccat	9	13	7	12	1	4	2	1	0	3	2	6	3	4	3	3	1	1	1	3	1	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:76938960G>A	uc001oyf.2	-	15	1725	c.1474C>T	c.(1474-1476)CGG>TGG	p.R492W		NM_182833	NP_878253	Q6W3E5	GDPD4_HUMAN	glycerophosphodiester phosphodiesterase domain	492	Cytoplasmic (Potential).				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding			skin(1)	1						GTCTCTCTCCGCCTAGAAGGA	0.478													22	83					0	0	0.003954	0	0		A	76938960	A	A	76938960	3	1	76	1	0	0	0	0	1	0	0	0	6341	1101	38	1	96	1	GDPD4	11	76938960	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	9737069	76938960	58067556	537	49387											
KCTD21	283219	broad.mit.edu	37	chr11	77885448	77885448	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcggaacactttgccgtcAcggtcaatgaagcagttgcc	10	9	11	11	3	2	1	2	1	0	0	2	2	2	2	2	2	5	2	2	2	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:77885448A>C	uc001ozb.2	-	2	228	c.153T>G	c.(151-153)CGT>CGG	p.R51R		NM_001029859	NP_001025030	Q4G0X4	KCD21_HUMAN	potassium channel tetramerisation domain	51	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.46e-24)			CTTTGCCGTCACGGTCAATGA	0.612													17	47					0	0	0.00499	0	0		C	77885448	C	C	77885448	2	2	76	1	0	0	0	0	0	0	0	1	8125	146	6	5		5	KCTD21	11	77885448	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	946488	77885448	57121068	538	49388											
PIWIL4	143689	broad.mit.edu	37	chr11	94320238	94320238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatccctttggcctgggtttGccatttctgtgtcatatttt	4	20	8	9	0	2	0	1	0	1	0	3	0	3	0	3	2	1	1	3	2	2	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:94320238G>A	uc001pfa.2	+	7	950	c.739G>A	c.(739-741)GCC>ACC	p.A247T	PIWIL4_uc010rue.1_RNA|PIWIL4_uc009ywk.1_RNA	NM_152431	NP_689644	Q7Z3Z4	PIWL4_HUMAN	piwi-like 4	247					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|meiosis|multicellular organismal development|piRNA metabolic process|regulation of translation|spermatogenesis	nucleus|piP-body	piRNA binding			skin(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				GCCTGGGTTTGCCATTTCTGT	0.358													21	113					0	0	0.008871	0	0		A	94320238	A	A	94320238	3	1	76	1	0	0	0	0	1	0	0	0	11979	1319	46	2	765	2	PIWIL4	11	94320238	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	16434790	94320238	40686278	539	49389											
DDI1	414301	broad.mit.edu	37	chr11	103908053	103908053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacgcaaccctcccttggCggaagccctgctcagcggaa	9	5	12	15	3	1	0	1	0	0	0	2	3	2	3	3	4	5	2	3	4	4	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:103908053C>T	uc001phr.2	+	1	746	c.503C>T	c.(502-504)GCG>GTG	p.A168V	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	168					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		CCTCCCTTGGCGGAAGCCCTG	0.612													15	111					0	0	0.00499	0	0		T	103908053	T	T	103908053	3	4	76	1	0	0	0	0	1	0	0	0	4331	768	27	1	505	1	DDI1	11	103908053	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	9587815	103908053	31098463	540	49390											
HTR3B	9177	broad.mit.edu	37	chr11	113813714	113813714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccggccaggtggtgatgcGcaggcaccccctggtctatg	5	8	14	14	2	1	1	0	1	1	0	2	1	2	1	4	5	1	2	4	5	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:113813714G>A	uc001pok.2	+	7	774	c.707G>A	c.(706-708)CGC>CAC	p.R236H	HTR3B_uc001pol.2_Missense_Mutation_p.R225H	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	236	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		GTGGTGATGCGCAGGCACCCC	0.552													10	43					0	0	0.001368	0	0		A	113813714	A	A	113813714	3	1	76	1	0	0	0	0	1	0	0	0	7461	1087	38	1	733	1	HTR3B	11	113813714	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	9905661	113813714	21192802	541	49391											
FAM55D	54827	broad.mit.edu	37	chr11	114453511	114453511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggtctcccctgcagtacGtatctcgagggttgaggatg	6	11	14	10	2	2	1	0	1	2	0	4	3	2	2	2	3	2	5	2	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:114453511G>A	uc001ppc.2	-	3	510	c.329C>T	c.(328-330)ACG>ATG	p.T110M	FAM55D_uc001ppd.2_Translation_Start_Site	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	110						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		CCTGCAGTACGTATCTCGAGG	0.577													32	134					0	0	0.002445	0	0		A	114453511	A	A	114453511	3	1	76	1	0	0	0	0	1	0	0	0	5601	1145	40	1	1321	1	FAM55D	11	114453511	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	639797	114453511	20553005	542	49392											
BCL9L	283149	broad.mit.edu	37	chr11	118773280	118773280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctgagcccaccaggctgCgctgcccatttccaggggcg	5	7	12	17	2	1	1	0	1	1	0	2	1	2	1	5	3	3	2	5	3	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:118773280C>T	uc001pug.2	-	6	2137	c.1172G>A	c.(1171-1173)CGC>CAC	p.R391H	BCL9L_uc009zal.2_Missense_Mutation_p.R386H	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	391	Pro-rich.|Necessary for interaction with CTNNB1 (By similarity).				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		CACCAGGCTGCGCTGCCCATT	0.682													9	57					0	0	0.008291	0	0		T	118773280	T	T	118773280	3	4	76	1	0	0	0	0	1	0	0	0	1383	768	27	1	3339	1	BCL9L	11	118773280	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4319769	118773280	16233236	543	49393											
VPS11	55823	broad.mit.edu	37	chr11	118942398	118942398	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctaagtgacccttctcaGgacctgcagttcattgtggc	7	11	10	13	0	2	1	2	1	1	0	3	2	2	2	3	2	1	2	3	2	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:118942398G>T	uc010ryx.1	+	6	771	c.729G>T	c.(727-729)CAG>CAT	p.Q243H	VPS11_uc010ryy.1_Missense_Mutation_p.Q89H	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	243					protein transport	endocytic vesicle|HOPS complex|late endosome membrane|lysosomal membrane	nucleotide binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.88e-05)		ACCCTTCTCAGGACCTGCAGT	0.557													9	52					1.12685e-05	1.18512e-05	0.004482	1	0		T	118942398	T	T	118942398	3	4	76	1	0	0	0	0	1	0	0	0	17214	991	35	5	746	5	VPS11	11	118942398	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	169118	118942398	16064118	544	49394											
RNF26	79102	broad.mit.edu	37	chr11	119206740	119206740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggcgagttggccaaaccGgggaggggcacctggagctc	7	5	18	11	2	0	0	0	0	0	0	1	3	0	2	3	7	2	4	3	7	1	1	rs144743618	by1000genomes	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:119206740G>A	uc001pwh.2	+	1	1504	c.908G>A	c.(907-909)CGG>CAG	p.R303Q		NM_032015	NP_114404	Q9BY78	RNF26_HUMAN	ring finger protein 26	303							zinc ion binding			ovary(1)	1		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.8e-05)		TGGCCAAACCGGGGAGGGGCA	0.637													9	37					0	0	0.004482	0	0		A	119206740	A	A	119206740	3	1	76	1	0	0	0	0	1	0	0	0	13511	1116	39	1	910	1	RNF26	11	119206740	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	264342	119206740	15799776	545	49395											
CCDC15	80071	broad.mit.edu	37	chr11	124824758	124824758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggctatagtaccagttgggGcatgggtggaacctgcctca	9	9	14	9	0	1	0	1	0	0	0	1	1	1	1	3	5	3	4	3	5	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:124824758G>A	uc001qbm.3	+	2	389	c.130G>A	c.(130-132)GCA>ACA	p.A44T		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	44						centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		ACCAGTTGGGGCATGGGTGGA	0.517													6	79					0	0	0.001168	0	0		A	124824758	A	A	124824758	3	1	76	1	0	0	0	0	1	0	0	0	2787	1203	42	2	132	2	CCDC15	11	124824758	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	5618018	124824758	10181758	546	49396											
ARHGAP32	9743	broad.mit.edu	37	chr11	128840482	128840482	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttataacgaagacccatggaGgctggtggctctgacctggc	9	9	13	10	1	1	2	0	1	1	1	1	4	1	3	2	5	1	2	2	5	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr11:128840482G>T	uc009zcp.2	-	22	4584	c.4584C>A	c.(4582-4584)GCC>GCA	p.A1528A	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Silent_p.A487A|ARHGAP32_uc001qez.2_Silent_p.A1179A	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1528	Interaction with GAB2.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						GACCCATGGAGGCTGGTGGCT	0.522													12	48					1.08611e-07	1.17082e-07	0.000978	1	0		T	128840482	T	T	128840482	2	4	76	1	0	0	0	0	0	0	0	1	881	987	35	5		5	ARHGAP32	11	128840482	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4015724	128840482	6166034	547	49397											
NTF3	4908	broad.mit.edu	37	chr12	5603748	5603748	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgtatctcatggaggattAcgtgggcagccccgtggtgg	6	11	15	9	2	1	0	1	0	1	0	2	2	1	2	2	5	2	2	2	5	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:5603748A>G	uc001qnl.3	+	1	451	c.368A>G	c.(367-369)TAC>TGC	p.Y123C	NTF3_uc001qnk.3_Missense_Mutation_p.Y136C	NM_002527	NP_002518	P20783	NTF3_HUMAN	neurotrophin 3 isoform 2 preproprotein	123					signal transduction	extracellular region	growth factor activity|neurotrophin receptor binding			pancreas(1)	1						ATGGAGGATTACGTGGGCAGC	0.602													24	94					0	0	0.00278	0	0		G	5603748	G	G	5603748	3	3	76	1	0	0	0	0	1	0	0	0	10715	391	14	3	413	3	NTF3	12	5603748	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08		5603748	128248147	548	49398											
NCAPD2	9918	broad.mit.edu	37	chr12	6619795	6619795	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagattctgcccctcacagTggtatcccgccactcccagg	8	8	8	17	1	2	1	1	0	1	1	4	1	4	1	5	2	1	1	5	2	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:6619795T>C	uc001qoo.2	+	5	309	c.263T>C	c.(262-264)GTG>GCG	p.V88A	NCAPD2_uc009zen.1_Intron|NCAPD2_uc010sfd.1_Missense_Mutation_p.M43T	NM_014865	NP_055680	Q15021	CND1_HUMAN	non-SMC condensin I complex, subunit D2	88	Interactions with SMC2 and SMC4.				cell division|mitotic chromosome condensation	condensin core heterodimer|cytoplasm	histone binding			ovary(2)|lung(1)|breast(1)|kidney(1)	5						CCCCTCACAGTGGTATCCCGC	0.463													11	50					0	0	0.008291	0	0		C	6619795	C	C	6619795	3	2	76	1	0	0	0	0	1	0	0	0	10224	1710	59	3	277	3	NCAPD2	12	6619795	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	1016047	6619795	127232100	549	49399											
CD163L1	283316	broad.mit.edu	37	chr12	7526069	7526069	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttagataaaggggcgaggcTgacaactccattctccccac	11	8	9	13	1	1	2	0	1	1	1	3	3	2	2	3	3	1	1	3	3	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:7526069T>C	uc001qsy.2	-	14	3603	c.3577A>G	c.(3577-3579)AGC>GGC	p.S1193G	CD163L1_uc010sge.1_Missense_Mutation_p.S1203G	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	1193	SRCR 11.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						GGGGCGAGGCTGACAACTCCA	0.557													34	130					0	0	0.002836	0	0		C	7526069	C	C	7526069	3	2	76	1	0	0	0	0	1	0	0	0	2971	1580	55	3	808	3	CD163L1	12	7526069	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	906274	7526069	126325826	550	49400											
NECAP1	25977	broad.mit.edu	37	chr12	8245509	8245509	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcttctaagcccaggacTgcaaggggtgggggtctgag	7	8	18	8	0	2	1	0	1	2	0	2	2	2	2	1	6	3	2	1	6	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:8245509T>C	uc001qtx.2	+	6	612	c.534T>C	c.(532-534)ACT>ACC	p.T178T	NECAP1_uc001qty.2_Silent_p.T36T	NM_015509	NP_056324	Q8NC96	NECP1_HUMAN	NECAP endocytosis associated 1	178					endocytosis|protein transport	clathrin coated vesicle membrane|plasma membrane				ovary(1)	1				Kidney(36;0.0915)		AGCCCAGGACTGCAAGGGGTG	0.498													37	167					0	0	0.003271	0	0		C	8245509	C	C	8245509	2	2	76	1	0	0	0	0	0	0	0	1	10326	1567	55	3		3	NECAP1	12	8245509	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	719440	8245509	125606386	551	49401											
CLEC7A	64581	broad.mit.edu	37	chr12	10278042	10278042	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggacaagggctggaaaGaacccctggaaataaaagat	18	4	13	6	0	0	2	0	0	0	2	0	6	0	6	2	5	1	1	2	5	6	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:10278042G>T	uc001qxg.2	-	4	533	c.346C>A	c.(346-348)CTT>ATT	p.L116I	CLEC7A_uc001qxe.3_RNA|CLEC7A_uc001qxf.2_Missense_Mutation_p.L70I|CLEC7A_uc001qxh.2_Missense_Mutation_p.L70I|CLEC7A_uc001qxi.2_Missense_Mutation_p.L116I|CLEC7A_uc001qxj.2_Missense_Mutation_p.L37I|CLEC7A_uc009zhg.1_Intron|CLEC7A_uc001qxk.1_RNA|CLEC7A_uc001qxl.1_Missense_Mutation_p.L116I|CLEC7A_uc010sgy.1_Missense_Mutation_p.L70I|CLEC7A_uc001qxm.1_Missense_Mutation_p.L70I	NM_197947	NP_922938	Q9BXN2	CLC7A_HUMAN	dendritic cell-associated C-type lectin 1	116	Extracellular (Potential).				carbohydrate mediated signaling|defense response to protozoan|inflammatory response|innate immune response|phagocytosis, recognition|T cell activation	cytoplasm|integral to membrane	metal ion binding|MHC protein binding|sugar binding			central_nervous_system(1)	1						GGGCTGGAAAGAACCCCTGGA	0.373													4	28					2.56e-06	2.71622e-06	0.009096	1	0		T	10278042	T	T	10278042	3	4	76	1	0	0	0	0	1	0	0	0	3524	942	33	5	409	5	CLEC7A	12	10278042	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2032533	10278042	123573853	552	49402											
C12orf59	120939	broad.mit.edu	37	chr12	10339021	10339021	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtgggcttttgcaggtTgctagtggtaattggcgcgc	4	12	15	10	3	0	0	0	0	0	0	0	0	0	0	2	4	2	5	2	4	2	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:10339021T>C	uc001qxr.2	+	4	757	c.140T>C	c.(139-141)TTG>TCG	p.L47S	C12orf59_uc001qxq.2_Missense_Mutation_p.L27S			Q4KMG9	CL059_HUMAN	RecName: Full=Uncharacterized protein C12orf59; Flags: Precursor;	47	Helical; (Potential).					integral to membrane				ovary(1)	1						TTTTGCAGGTTGCTAGTGGTA	0.557													14	54					0	0	0.00245	0	0		C	10339021	C	C	10339021	3	2	76	1	0	0	0	0	1	0	0	0	1705	1821	63	3	90	3	C12orf59	12	10339021	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	60979	10339021	123512874	553	49403											
CSDA	8531	broad.mit.edu	37	chr12	10865891	10865891	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtaacgactcccttccacAggaactccatccgggccagt	9	7	9	16	3	0	0	0	0	0	0	4	2	4	1	5	2	2	1	5	2	2	2	rs138612290		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:10865891A>G	uc001qyt.2	-	5	735	c.492T>C	c.(490-492)CCT>CCC	p.P164P	CSDA_uc001qyu.2_Silent_p.P164P	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	164					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					TCCCTTCCACAGGAACTCCAT	0.493													24	145					0	0	0.003954	0	0		G	10865891	G	G	10865891	2	3	76	1	0	0	0	0	0	0	0	1	3930	175	7	3		3	CSDA	12	10865891	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	526870	10865891	122986004	554	49404											
LMO3	55885	broad.mit.edu	37	chr12	16753742	16753742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gataccggtccttgatctttCggttgcagccagcacaacct	8	11	9	13	2	1	1	0	1	1	0	3	2	2	1	4	2	5	3	4	2	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:16753742C>T	uc001rdk.1	-	2	493	c.53G>A	c.(52-54)CGA>CAA	p.R18Q	LMO3_uc001rdj.1_Missense_Mutation_p.R29Q|LMO3_uc010shy.1_Missense_Mutation_p.R36Q|LMO3_uc001rdl.1_Missense_Mutation_p.R18Q|LMO3_uc009zii.1_RNA|LMO3_uc010shz.1_Missense_Mutation_p.R18Q|LMO3_uc001rdm.1_Missense_Mutation_p.R18Q|LMO3_uc001rdo.1_RNA|LMO3_uc001rdp.1_RNA|LMO3_uc001rdn.1_Missense_Mutation_p.R18Q|LMO3_uc009zij.1_RNA|LMO3_uc009zik.1_RNA	NM_018640	NP_061110	Q8TAP4	LMO3_HUMAN	LIM domain only 3	18	LIM zinc-binding 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent		zinc ion binding				0		Hepatocellular(102;0.244)				CTTGATCTTTCGGTTGCAGCC	0.502													16	54					0	0	0.004007	0	0		T	16753742	T	T	16753742	3	4	76	1	0	0	0	0	1	0	0	0	8870	884	31	1	396	1	LMO3	12	16753742	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	5887851	16753742	117098153	555	49405											
ABCC9	10060	broad.mit.edu	37	chr12	21965082	21965082	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtctatcccatcaatgAcaatttttcctgttaaggag	13	14	6	8	0	2	1	1	1	1	0	4	2	4	2	2	1	0	1	2	1	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:21965082A>G	uc001rfi.1	-	34	4132	c.4112T>C	c.(4111-4113)GTC>GCC	p.V1371A	ABCC9_uc001rfh.2_Missense_Mutation_p.V1371A|ABCC9_uc001rfj.1_Missense_Mutation_p.V1335A	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1371	Cytoplasmic (Potential).|ABC transporter 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CCCATCAATGACAATTTTTCC	0.328													9	39					0	0	0.004482	0	0		G	21965082	G	G	21965082	3	3	76	1	0	0	0	0	1	0	0	0	59	275	10	3	699	3	ABCC9	12	21965082	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	5211340	21965082	111886813	556	49406											
PKP2	5318	broad.mit.edu	37	chr12	33030839	33030839	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agattcccacttccccctgcGgccgcctggccgacagtcaa	7	7	9	18	3	1	1	1	0	0	1	3	2	3	1	6	2	1	0	6	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:33030839G>A	uc001rlj.3	-	3	1090	c.975C>T	c.(973-975)GCC>GCT	p.A325A	PKP2_uc001rlk.3_Silent_p.A325A|PKP2_uc010skj.1_Silent_p.A325A	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	325					cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					TTCCCCCTGCGGCCGCCTGGC	0.622													12	54					0	0	0.000978	0	0		A	33030839	A	A	33030839	2	1	76	1	0	0	0	0	0	0	0	1	12004	1103	39	1		1	PKP2	12	33030839	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	11065757	33030839	100821056	557	49407											
RAPGEF3	10411	broad.mit.edu	37	chr12	48141517	48141517	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaagctggtggccacaGggtcagtgtggagcatggag	9	6	20	6	0	1	0	1	0	0	0	1	4	1	4	1	7	2	2	1	7	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:48141517G>T	uc009zkp.2	-	13	1765	c.1325C>A	c.(1324-1326)CCT>CAT	p.P442H	RAPGEF3_uc001rpx.2_5'Flank|RAPGEF3_uc010sln.1_Missense_Mutation_p.P6H|RAPGEF3_uc001rpy.2_RNA|RAPGEF3_uc009zkq.2_Missense_Mutation_p.P442H|RAPGEF3_uc001rpz.3_Missense_Mutation_p.P484H|RAPGEF3_uc001rqa.2_Missense_Mutation_p.P6H	NM_001098532	NP_001092002	A8K2G5	A8K2G5_HUMAN	Rap guanine nucleotide exchange factor 3 isoform	442					regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex	cAMP-dependent protein kinase regulator activity|guanyl-nucleotide exchange factor activity			lung(2)|skin(1)|pancreas(1)	4	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.0375)		GGTGGCCACAGGGTCAGTGTG	0.632													11	47					3.86212e-05	4.03818e-05	0.008291	1	0		T	48141517	T	T	48141517	3	4	76	1	0	0	0	0	1	0	0	0	13070	1000	35	5	1380	5	RAPGEF3	12	48141517	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	15110678	48141517	85710378	558	49408											
FMNL3	91010	broad.mit.edu	37	chr12	50048048	50048048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaagttcatgtcctccaccGagtgcaccacgatgttgatg	9	10	11	11	2	1	1	1	1	0	0	3	4	3	2	4	1	1	3	4	1	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:50048048G>A	uc001ruv.1	-	11	1232	c.998C>T	c.(997-999)TCG>TTG	p.S333L	FMNL3_uc001ruw.1_Missense_Mutation_p.S282L|FMNL3_uc001rut.1_5'Flank|FMNL3_uc001ruu.1_Missense_Mutation_p.S183L	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1	333	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						GTCCTCCACCGAGTGCACCAC	0.567													11	36					0	0	0.000978	0	0		A	50048048	A	A	50048048	3	1	76	1	0	0	0	0	1	0	0	0	5967	1059	37	1	2149	1	FMNL3	12	50048048	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1906531	50048048	83803847	559	49409											
CSRNP2	81566	broad.mit.edu	37	chr12	51461619	51461619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagcagggcccgtcgcCgtttggtgggcagaggctgc	4	7	16	14	3	1	1	1	0	0	1	2	1	1	1	3	4	2	4	3	4	0	1	rs148149139		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:51461619C>T	uc001rxu.1	-	4	843	c.545G>A	c.(544-546)CGG>CAG	p.R182Q		NM_030809	NP_110436	Q9H175	CSRN2_HUMAN	TGF-beta induced apoptosis protein 12	182					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GGCCCGTCGCCGTTTGGTGGG	0.537													26	109					0	0	0.00632	0	0		T	51461619	T	T	51461619	3	4	76	1	0	0	0	0	1	0	0	0	3967	652	23	1	1094	1	CSRNP2	12	51461619	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1413571	51461619	82390276	560	49410											
AMHR2	269	broad.mit.edu	37	chr12	53818998	53818998	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctggggctgttcctcctcctCctgctgctgctgggcagcat	2	12	12	15	0	0	0	0	0	0	0	4	0	4	0	4	3	4	7	4	3	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:53818998C>G	uc001scx.1	+	4	552	c.474C>G	c.(472-474)CTC>CTG	p.L158L	AMHR2_uc009zmy.1_Silent_p.L158L	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	158	Helical; (Potential).				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	TCCTCCTCCTCCTGCTGCTGC	0.582									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				11	107					0	0	0.000978	0	0		G	53818998	G	G	53818998	2	3	76	1	0	0	0	0	0	0	0	1	573	842	30	5		5	AMHR2	12	53818998	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2357379	53818998	80032897	561	49411											
ITGA7	3679	broad.mit.edu	37	chr12	56094925	56094925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcgctgccttgcctcatatCggtgtgcacaggtctggggg	4	11	14	12	2	2	0	1	0	1	0	4	0	2	0	2	4	3	2	2	4	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:56094925C>T	uc001shh.2	-	4	648	c.428G>A	c.(427-429)CGA>CAA	p.R143Q	ITGA7_uc001shg.2_Missense_Mutation_p.R143Q|ITGA7_uc010sps.1_Missense_Mutation_p.R46Q|ITGA7_uc009znx.2_Missense_Mutation_p.R30Q	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	143	FG-GAP 2.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						TGCCTCATATCGGTGTGCACA	0.582													23	78					0	0	0.00333	0	0		T	56094925	T	T	56094925	3	4	76	1	0	0	0	0	1	0	0	0	7897	884	31	1	3209	1	ITGA7	12	56094925	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2275927	56094925	77756970	562	49412											
ERBB3	2065	broad.mit.edu	37	chr12	56478854	56478854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccattgcccaacctccgcGtggtgcgagggacccaggtc	7	7	12	15	3	0	0	0	0	0	0	2	2	1	1	5	3	4	0	5	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:56478854G>A	uc001sjh.2	+	3	503	c.310G>A	c.(310-312)GTG>ATG	p.V104M	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.V45M|ERBB3_uc001sjg.2_Missense_Mutation_p.V104M	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	104	Extracellular (Potential).		V -> M (in an ovarian mucinous carcinoma sample; somatic mutation).		cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity	p.V104M(1)		lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CAACCTCCGCGTGGTGCGAGG	0.517													22	127					0	0	0.00278	0	0		A	56478854	A	A	56478854	3	1	76	1	0	0	0	0	1	0	0	0	5216	1145	40	1	320	1	ERBB3	12	56478854	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	383929	56478854	77373041	563	49413											
ERBB3	2065	broad.mit.edu	37	chr12	56487212	56487212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggaaattagtgctgggcGtatctatataagtgccaata	14	11	11	5	1	1	0	0	0	1	0	1	2	1	1	1	2	2	2	1	2	9	6	rs144549266	by1000genomes	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:56487212G>A	uc001sjh.2	+	12	1551	c.1358G>A	c.(1357-1359)CGT>CAT	p.R453H	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.R394H|ERBB3_uc009zok.2_5'Flank|ERBB3_uc001sjk.2_5'Flank|ERBB3_uc001sjj.1_Missense_Mutation_p.R21H	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	453	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			AGTGCTGGGCGTATCTATATA	0.493													14	80					0	0	0.00245	0	0		A	56487212	A	A	56487212	3	1	76	1	0	0	0	0	1	0	0	0	5216	1145	40	1	1535	1	ERBB3	12	56487212	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	8358	56487212	77364683	564	49414											
ARHGAP9	64333	broad.mit.edu	37	chr12	57869299	57869299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgctgaggcgcagcagcgGcttggacaccagctccgact	7	6	14	14	3	0	1	0	1	0	0	1	3	1	2	2	3	4	6	2	3	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:57869299G>A	uc001sod.2	-	14	1874	c.1681C>T	c.(1681-1683)CCG>TCG	p.P561S	ARHGAP9_uc001sny.2_5'Flank|ARHGAP9_uc001snz.2_Missense_Mutation_p.P287S|ARHGAP9_uc001soa.2_Missense_Mutation_p.P160S|ARHGAP9_uc001sob.2_Missense_Mutation_p.P471S|ARHGAP9_uc001soc.2_Missense_Mutation_p.P471S|ARHGAP9_uc001soe.1_Missense_Mutation_p.P550S	NM_032496	NP_115885	Q9BRR9	RHG09_HUMAN	Rho GTPase activating protein 9 isoform 1	490					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			lung(1)	1			GBM - Glioblastoma multiforme(3;3.37e-34)			CGCAGCAGCGGCTTGGACACC	0.731													4	25					0	0	0.009096	0	0		A	57869299	A	A	57869299	3	1	76	1	0	0	0	0	1	0	0	0	889	1203	42	2	816	2	ARHGAP9	12	57869299	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1382087	57869299	75982596	565	49415											
DTX3	196403	broad.mit.edu	37	chr12	58001201	58001201	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtgccggcattcattctgCgagggctgcatcacccgggc	7	8	13	13	3	3	0	2	0	1	0	3	1	3	0	2	3	3	3	2	3	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:58001201C>T	uc001sow.1	+	5	892	c.555C>T	c.(553-555)TGC>TGT	p.C185C	DTX3_uc001sov.1_Silent_p.C178C|DTX3_uc001sox.1_Silent_p.C178C|DTX3_uc001soy.1_Silent_p.C178C|GEFT_uc009zpy.2_5'Flank|GEFT_uc001soz.1_5'Flank	NM_178502	NP_848597	Q8N9I9	DTX3_HUMAN	deltex homolog 3	185	RING-type.				Notch signaling pathway	cytoplasm	zinc ion binding			breast(1)|central_nervous_system(1)	2	Melanoma(17;0.122)					ATTCATTCTGCGAGGGCTGCA	0.602													7	31					0	0	0.001984	0	0		T	58001201	T	T	58001201	2	4	76	1	0	0	0	0	0	0	0	1	4801	776	27	1		1	DTX3	12	58001201	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	131902	58001201	75850694	566	49416											
ZFC3H1	196441	broad.mit.edu	37	chr12	72026034	72026034	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcaacatcattttcttcAgtgtccagggttaatttatc	10	17	5	9	0	5	0	4	0	1	0	7	0	6	0	1	1	1	1	1	1	3	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:72026034A>C	uc001swo.2	-	15	3437	c.3078T>G	c.(3076-3078)ACT>ACG	p.T1026T		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	1026					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						CATTTTCTTCAGTGTCCAGGG	0.358													15	93					0	0	0.003163	0	0		C	72026034	C	C	72026034	2	2	76	1	0	0	0	0	0	0	0	1	17658	175	7	5		5	ZFC3H1	12	72026034	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	14024833	72026034	61825861	567	49417											
NAV3	89795	broad.mit.edu	37	chr12	78531042	78531042	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagcccaagactcttccttCgatctctatgatgactccca	9	11	5	16	1	2	3	0	2	2	1	6	4	4	3	4	0	1	0	4	0	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:78531042C>T	uc001syp.2	+	19	4700	c.4527C>T	c.(4525-4527)TTC>TTT	p.F1509F	NAV3_uc001syo.2_Silent_p.F1509F|NAV3_uc010sub.1_Silent_p.F995F|NAV3_uc009zsf.2_Silent_p.F340F	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1509	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						ACTCTTCCTTCGATCTCTATG	0.502										HNSCC(70;0.22)			11	71					0	0	0.001368	0	0		T	78531042	T	T	78531042	2	4	76	1	0	0	0	0	0	0	0	1	10203	883	31	1		1	NAV3	12	78531042	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	6505008	78531042	55320853	568	49418											
CCDC59	29080	broad.mit.edu	37	chr12	82750907	82750907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctatgtctttcctcttcaGctaaatagagatgtttcaga	10	16	6	9	0	4	2	2	0	2	2	6	3	6	2	2	0	1	2	2	0	4	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:82750907G>A	uc001szp.3	-	2	340	c.296C>T	c.(295-297)GCT>GTT	p.A99V	C12orf26_uc001szq.2_5'Flank	NM_014167	NP_054886	Q9P031	TAP26_HUMAN	coiled-coil domain containing 59	99					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding				0						TTCCTCTTCAGCTAAATAGAG	0.418													30	112					0	0	0.00632	0	0		A	82750907	A	A	82750907	3	1	76	1	0	0	0	0	1	0	0	0	2832	971	34	2	441	2	CCDC59	12	82750907	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4219865	82750907	51100988	569	49419											
DCN	1634	broad.mit.edu	37	chr12	91546948	91546948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccatcaagatgtaattccGtaagggaaggaggaagacct	14	8	12	7	1	1	2	1	0	0	2	2	5	2	5	3	3	1	2	3	3	5	3	rs144174426		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:91546948G>A	uc001tbs.2	-	5	765	c.671C>T	c.(670-672)ACG>ATG	p.T224M	DCN_uc001tbo.2_Missense_Mutation_p.T115M|DCN_uc001tbp.2_Missense_Mutation_p.T77M|DCN_uc001tbq.2_Intron|DCN_uc001tbr.2_Intron|DCN_uc001tbt.2_Missense_Mutation_p.T224M|DCN_uc001tbu.2_Missense_Mutation_p.T224M	NM_133503	NP_598010	P07585	PGS2_HUMAN	decorin isoform a preproprotein	224	LRR 7.				organ morphogenesis	extracellular space				central_nervous_system(2)|ovary(1)|lung(1)	4						ATGTAATTCCGTAAGGGAAGG	0.348													8	48					0	0	0.008291	0	0		A	91546948	A	A	91546948	3	1	76	1	0	0	0	0	1	0	0	0	4300	1145	40	1	420	1	DCN	12	91546948	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	8796041	91546948	42304947	570	49420											
PLEKHG7	440107	broad.mit.edu	37	chr12	93148041	93148041	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaggtggaaaagtccatccGtaagtccctgagataagtga	15	8	11	7	1	0	2	0	2	0	1	3	4	3	3	3	2	0	1	3	2	5	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:93148041G>A	uc001tcj.2	+	6	720	c.490_splice	c.e6+1	p.R164_splice		NM_001004330	NP_001004330	Q6ZR37	PKHG7_HUMAN	pleckstrin homology domain containing, family G						regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1						AAGTCCATCCGTAAGTCCCTG	0.438													10	27					0	0	0.008291	0	0		A	93148041	A	A	93148041	5	1	76	1	0	0	0	0	0	0	1	0	12094	1159	40	1	509	1	PLEKHG7	12	93148041	Splice_Site	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1601093	93148041	40703854	571	49421											
PLXNC1	10154	broad.mit.edu	37	chr12	94563012	94563012	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacatccgtttatggcacCgtggtaatgaacaggactgt	10	11	11	9	2	0	2	0	2	0	0	1	3	1	3	2	3	1	3	2	3	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:94563012C>T	uc001tdc.2	+	2	1395	c.1146C>T	c.(1144-1146)ACC>ACT	p.T382T		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	382	Extracellular (Potential).|Sema.				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						TTTATGGCACCGTGGTAATGA	0.433													13	58					0	0	0.00245	0	0		T	94563012	T	T	94563012	2	4	76	1	0	0	0	0	0	0	0	1	12145	639	23	1		1	PLXNC1	12	94563012	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1414971	94563012	39288883	572	49422											
PAH	5053	broad.mit.edu	37	chr12	103246714	103246714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagccacaggtcggaggcGgaaaccagtgcaagctggga	11	3	16	11	2	0	0	0	0	0	0	1	3	0	3	3	5	4	2	3	5	2	0	rs76687508		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:103246714G>A	uc001tjq.1	-	8	1193	c.721C>T	c.(721-723)CGC>TGC	p.R241C		NM_000277	NP_000268	P00439	PH4H_HUMAN	phenylalanine hydroxylase	241			R -> C (in non-PKU HPA and PKU; haplotype 34).|R -> H (in PKU; haplotypes 1,5).|R -> L (in PKU).		catecholamine biosynthetic process|L-phenylalanine catabolic process|neurotransmitter biosynthetic process	cytosol	phenylalanine 4-monooxygenase activity			ovary(4)	4					Epinephrine(DB00668)|L-Phenylalanine(DB00120)|Levodopa(DB01235)|Norepinephrine(DB00368)|Tetrahydrobiopterin(DB00360)	GGTCGGAGGCGGAAACCAGTG	0.517													14	50					0	0	0.001855	0	0		A	103246714	A	A	103246714	3	1	76	1	0	0	0	0	1	0	0	0	11413	1116	39	1	665	1	PAH	12	103246714	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	8683702	103246714	30605181	573	49423											
BTBD11	121551	broad.mit.edu	37	chr12	108004005	108004005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatctcgaaagctggatgCggtggccatcgaagccaagt	10	8	13	10	3	1	0	0	0	1	0	3	3	1	1	2	3	4	2	2	3	3	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:108004005C>T	uc001tmk.1	+	5	2203	c.1682C>T	c.(1681-1683)GCG>GTG	p.A561V	BTBD11_uc009zut.1_Missense_Mutation_p.A561V|BTBD11_uc001tmj.2_Missense_Mutation_p.A561V|BTBD11_uc001tml.1_Missense_Mutation_p.A98V	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	561						integral to membrane	DNA binding			skin(2)|ovary(1)	3						AAGCTGGATGCGGTGGCCATC	0.582											OREG0022090	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	121					0	0	0.005443	0	0		T	108004005	T	T	108004005	3	4	76	1	0	0	0	0	1	0	0	0	1542	768	27	1	1805	1	BTBD11	12	108004005	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4757291	108004005	25847890	574	49424											
SELPLG	6404	broad.mit.edu	37	chr12	109017883	109017883	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtcagaggagtggtgtcAgtgctgttcctcagcatttc	7	12	12	10	0	3	1	3	0	0	1	5	2	4	2	2	2	2	3	2	2	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:109017883A>C	uc001tni.2	-	2	361	c.201T>G	c.(199-201)ACT>ACG	p.T67T	SELPLG_uc001tnh.2_Silent_p.T67T|SELPLG_uc010sxe.1_Silent_p.T83T	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	67	Extracellular (Potential).				blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0						GAGTGGTGTCAGTGCTGTTCC	0.582													10	50					0	0	0.008291	0	0		C	109017883	C	C	109017883	2	2	76	1	0	0	0	0	0	0	0	1	14045	175	7	5		5	SELPLG	12	109017883	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1013878	109017883	24834012	575	49425											
MMAB	326625	broad.mit.edu	37	chr12	109998868	109998868	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcggcccggcggcacacGgcccggcagaaatgcagcgc	7	3	14	17	6	1	1	0	0	1	1	2	1	1	1	2	5	2	3	2	5	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:109998868G>A	uc001tou.2	-	7	634	c.561C>T	c.(559-561)GCC>GCT	p.A187A	MMAB_uc001tov.2_RNA|MMAB_uc001tow.2_RNA|MMAB_uc010sxq.1_Silent_p.A96A|MMAB_uc001tox.2_Silent_p.A135A	NM_052845	NP_443077	Q96EY8	MMAB_HUMAN	cob(I)alamin adenosyltransferase precursor	187					cobalamin biosynthetic process	mitochondrion	ATP binding|cob(I)yrinic acid a,c-diamide adenosyltransferase activity				0					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GGCGGCACACGGCCCGGCAGA	0.438													10	54					0	0	0.006214	0	0		A	109998868	A	A	109998868	2	1	76	1	0	0	0	0	0	0	0	1	9658	1103	39	1		1	MMAB	12	109998868	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	980985	109998868	23853027	576	49426											
ANKRD13A	88455	broad.mit.edu	37	chr12	110461908	110461908	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagaagttgttaatggttaCgaagcaaaggtaaaaggaaa	18	8	12	3	1	0	1	0	0	0	1	0	3	0	2	0	3	2	6	0	3	8	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:110461908C>T	uc001tpx.2	+	7	1051	c.792C>T	c.(790-792)TAC>TAT	p.Y264Y	ANKRD13A_uc009zvl.1_Intron|ANKRD13A_uc010sxw.1_Silent_p.Y264Y|ANKRD13A_uc001tpy.2_5'Flank	NM_033121	NP_149112	Q8IZ07	AN13A_HUMAN	ankyrin repeat domain 13	264											0						TTAATGGTTACGAAGCAAAGG	0.343													22	96					0	0	0.010504	0	0		T	110461908	T	T	110461908	2	4	76	1	0	0	0	0	0	0	0	1	641	547	19	1		1	ANKRD13A	12	110461908	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	463040	110461908	23389987	577	49427											
TBX3	6926	broad.mit.edu	37	chr12	115114185	115114185	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcgaagcagttgaaagcTgcttgttcactggaggactc	9	10	14	8	1	1	1	1	1	0	0	2	4	1	3	0	3	3	5	0	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:115114185T>C	uc001tvt.1	-	6	1996	c.1032A>G	c.(1030-1032)GCA>GCG	p.A344A	TBX3_uc001tvu.1_Silent_p.A324A	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	344					anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		AGTTGAAAGCTGCTTGTTCAC	0.507													17	74					0	0	0.004007	0	0		C	115114185	C	C	115114185	2	2	76	1	0	0	0	0	0	0	0	1	15684	1567	55	3		3	TBX3	12	115114185	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	4652277	115114185	18737710	578	49428											
BCL7A	605	broad.mit.edu	37	chr12	122468634	122468634	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggtgaccgttggtgacAcatccctacgaatctacaaa	13	9	9	10	2	1	2	0	2	1	0	2	3	2	2	2	2	2	1	2	2	5	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:122468634A>G	uc001ubp.2	+	2	258	c.121A>G	c.(121-123)ACA>GCA	p.T41A	BCL7A_uc001ubo.2_Missense_Mutation_p.T41A	NM_001024808	NP_001019979	Q4VC05	BCL7A_HUMAN	B-cell CLL/lymphoma 7A isoform b	41					negative regulation of transcription, DNA-dependent					ovary(1)|lung(1)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000202)|Epithelial(86;0.000386)|BRCA - Breast invasive adenocarcinoma(302;0.231)		CGTTGGTGACACATCCCTACG	0.587			T	MYC	BNHL								12	77					0	0	0.00245	0	0		G	122468634	G	G	122468634	3	3	76	1	0	0	0	0	1	0	0	0	1379	159	6	3	127	3	BCL7A	12	122468634	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	7354449	122468634	11383261	579	49429											
SBNO1	55206	broad.mit.edu	37	chr12	123810761	123810761	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaactttggatgctatgcAtaagtatttgaagaacctct	12	16	7	6	0	1	2	0	1	1	1	1	3	1	3	1	1	4	3	1	1	6	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:123810761A>G	uc010tap.1	-	13	1813	c.1813T>C	c.(1813-1815)TGC>CGC	p.C605R	SBNO1_uc010tao.1_Missense_Mutation_p.C604R|SBNO1_uc010taq.1_Intron|SBNO1_uc001uet.2_Missense_Mutation_p.C605R|SBNO1_uc001ueu.2_Missense_Mutation_p.C604R|SBNO1_uc001uev.2_Missense_Mutation_p.C603R|SBNO1_uc009zxy.1_Missense_Mutation_p.C570R	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	605							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		GATGCTATGCATAAGTATTTG	0.423													25	123					0	0	0.003954	0	0		G	123810761	G	G	123810761	3	3	76	1	0	0	0	0	1	0	0	0	13887	217	8	3	2444	3	SBNO1	12	123810761	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1342127	123810761	10041134	580	49430											
DNAH10	196385	broad.mit.edu	37	chr12	124409684	124409684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagaagttgcttattttgCgctgtttccgtgtggatcgg	5	16	12	8	3	0	1	0	0	0	1	3	2	2	2	2	2	2	4	2	2	2	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:124409684C>T	uc001uft.3	+	67	11525	c.11500C>T	c.(11500-11502)CGC>TGC	p.R3834C	DNAH10_uc001ufu.3_5'UTR	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	3834	TPR 4.				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GCTTATTTTGCGCTGTTTCCG	0.478													7	51					0	0	0.001984	0	0		T	124409684	T	T	124409684	3	4	76	1	0	0	0	0	1	0	0	0	4604	768	27	1	11766	1	DNAH10	12	124409684	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	598923	124409684	9442211	581	49431											
CHFR	55743	broad.mit.edu	37	chr12	133438121	133438121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttccaacgacgaaaaggacGcagtctttctgtctgggaga	11	9	12	9	3	3	1	0	0	3	1	4	5	4	2	1	2	1	2	1	2	3	2	rs150995074	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr12:133438121G>A	uc001ulf.2	-	7	803	c.719C>T	c.(718-720)GCG>GTG	p.A240V	CHFR_uc001ulc.1_RNA|CHFR_uc001ule.2_Missense_Mutation_p.A228V|CHFR_uc010tbs.1_Missense_Mutation_p.A240V|CHFR_uc001uld.2_Missense_Mutation_p.A199V|CHFR_uc010tbt.1_Missense_Mutation_p.A148V	NM_001161344	NP_001154816	Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains	240					cell division|mitosis|mitotic cell cycle checkpoint|modification-dependent protein catabolic process|protein polyubiquitination	PML body	nucleotide binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00552)|all_epithelial(31;0.226)		OV - Ovarian serous cystadenocarcinoma(86;2.59e-08)|Epithelial(86;6.38e-07)|all cancers(50;1.56e-05)		CGAAAAGGACGCAGTCTTTCT	0.542													16	94					0	0	0.008871	0	0		A	133438121	A	A	133438121	3	1	76	1	0	0	0	0	1	0	0	0	3340	1087	38	1	1323	1	CHFR	12	133438121	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	9028437	133438121	413774	582	49432											
XPO4	64328	broad.mit.edu	37	chr13	21417071	21417071	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccagctcaagacttgattGgcgagtgcaaggtaacgctg	10	10	12	9	2	1	2	1	1	0	1	2	3	2	2	1	2	3	4	1	2	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:21417071G>A	uc001unq.3	-	6	726	c.690C>T	c.(688-690)GCC>GCT	p.A230A	XPO4_uc010tcr.1_Silent_p.A156A	NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	230					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		AGACTTGATTGGCGAGTGCAA	0.388													7	24					0	0	0.001984	0	0		A	21417071	A	A	21417071	2	1	76	1	0	0	0	0	0	0	0	1	17472	1335	47	4		4	XPO4	13	21417071	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08		21417071	93752807	583	49433											
PAN3	255967	broad.mit.edu	37	chr13	28866563	28866563	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagcctgatttccagagaTgagaagagtgtacttgtggt	12	12	12	5	0	0	4	0	2	0	3	1	6	1	4	2	1	2	1	2	1	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:28866563T>C	uc001urz.2	+	18	2138	c.2130T>C	c.(2128-2130)GAT>GAC	p.D710D	PAN3_uc001ury.2_Silent_p.D544D|PAN3_uc001urx.2_Silent_p.D656D	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	856	Interaction with PAN2.			D -> G (in Ref. 5; BAD02262/BAD93184).	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		TTTCCAGAGATGAGAAGAGTG	0.358													25	50					0	0	0.00333	0	0		C	28866563	C	C	28866563	2	2	76	1	0	0	0	0	0	0	0	1	11434	1461	51	3		3	PAN3	13	28866563	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	7449492	28866563	86303315	584	49434											
MTUS2	23281	broad.mit.edu	37	chr13	29600668	29600668	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaaggacacaccttcctcGcaggagggaatggagaacta	13	6	11	11	1	0	1	0	0	0	1	3	5	2	4	3	4	1	1	3	4	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:29600668G>A	uc001usl.3	+	1	1921	c.1863G>A	c.(1861-1863)TCG>TCA	p.S621S		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	611						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						CACCTTCCTCGCAGGAGGGAA	0.517													8	35					0	0	0.006214	0	0		A	29600668	A	A	29600668	2	1	76	1	0	0	0	0	0	0	0	1	9984	1074	38	1		1	MTUS2	13	29600668	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	734105	29600668	85569210	585	49435											
STARD13	90627	broad.mit.edu	37	chr13	33701564	33701564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccatgatggccgtgaggCggagcagtgagaagcgctgg	8	7	17	9	3	1	3	0	3	1	1	2	5	1	4	2	4	2	2	2	4	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:33701564C>T	uc001uuw.2	-	6	1994	c.1868G>A	c.(1867-1869)CGC>CAC	p.R623H	STARD13_uc001uuu.2_Missense_Mutation_p.R615H|STARD13_uc001uuv.2_Missense_Mutation_p.R505H|STARD13_uc001uux.2_Missense_Mutation_p.R588H|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Missense_Mutation_p.R608H	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	623					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		GGCCGTGAGGCGGAGCAGTGA	0.632													8	25					0	0	0.004482	0	0		T	33701564	T	T	33701564	3	4	76	1	0	0	0	0	1	0	0	0	15281	768	27	1	1509	1	STARD13	13	33701564	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4100896	33701564	81468314	586	49436											
POSTN	10631	broad.mit.edu	37	chr13	38164611	38164611	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggcgtcagaatagcgctgCgttgtggtggctcccacgat	7	9	15	10	4	1	1	1	0	0	1	2	3	2	1	1	3	2	3	1	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:38164611C>T	uc001uwo.3	-	4	457	c.339G>A	c.(337-339)ACG>ACA	p.T113T	POSTN_uc001uwp.3_Silent_p.T113T|POSTN_uc001uwr.2_Silent_p.T113T|POSTN_uc001uwq.2_Silent_p.T113T|POSTN_uc010teu.1_Silent_p.T113T|POSTN_uc010tev.1_Silent_p.T113T|POSTN_uc010tew.1_Silent_p.T113T|POSTN_uc010tex.1_Silent_p.T28T	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	113	FAS1 1.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		AATAGCGCTGCGTTGTGGTGG	0.468													9	30					0	0	0.008291	0	0		T	38164611	T	T	38164611	2	4	76	1	0	0	0	0	0	0	0	1	12278	755	27	1		1	POSTN	13	38164611	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4463047	38164611	77005267	587	49437											
TRPC4	7223	broad.mit.edu	37	chr13	38357396	38357396	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcgagagttctgattcTgctcttactatccttagagg	8	14	11	8	1	3	3	0	1	3	2	4	5	4	3	1	2	2	2	1	2	3	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:38357396T>C	uc001uws.2	-	2	310	c.75A>G	c.(73-75)GCA>GCG	p.A25A	TRPC4_uc010abv.2_5'UTR|TRPC4_uc001uwt.2_Silent_p.A25A|TRPC4_uc010tey.1_Silent_p.A25A|TRPC4_uc010abw.2_Silent_p.A25A|TRPC4_uc010abx.2_Silent_p.A25A|TRPC4_uc010aby.2_Silent_p.A25A	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	25	Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		GTTCTGATTCTGCTCTTACTA	0.403													40	86					0	0	0.00623	0	0		C	38357396	C	C	38357396	2	2	76	1	0	0	0	0	0	0	0	1	16606	1567	55	3		3	TRPC4	13	38357396	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	192785	38357396	76812482	588	49438											
ZC3H13	23091	broad.mit.edu	37	chr13	46542002	46542002	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcggtcccattctctctGcctcgtatctctcctctctc	3	16	4	18	2	5	0	0	0	5	0	13	0	7	0	3	1	1	1	3	1	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:46542002G>A	uc010tfw.1	-	14	3964	c.3958C>T	c.(3958-3960)CAG>TAG	p.Q1320*	ZC3H13_uc001vaq.2_5'UTR|ZC3H13_uc001vas.1_Nonsense_Mutation_p.Q1320*	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	1320	Potential.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		cattctctctgcctcgtatct	0.139													21	68					0	0	0.010504	0	0		A	46542002	A	A	46542002	4	1	76	1	0	0	0	0	0	1	0	0	17590	1328	46	2	748	2	ZC3H13	13	46542002	Nonsense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	8184606	46542002	68627876	589	49439											
ATP7B	540	broad.mit.edu	37	chr13	52518300	52518300	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgttcactgctggcctccGcagtccccaccacagccaga	7	7	10	17	1	1	1	1	0	0	1	3	1	3	1	6	2	2	3	6	2	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:52518300G>A	uc001vfw.2	-	14	3345	c.3188C>T	c.(3187-3189)GCG>GTG	p.A1063V	ATP7B_uc010adv.2_Missense_Mutation_p.A633V|ATP7B_uc001vfx.2_Missense_Mutation_p.A856V|ATP7B_uc001vfy.2_Missense_Mutation_p.A952V|ATP7B_uc010tgt.1_Missense_Mutation_p.A998V|ATP7B_uc010tgu.1_Missense_Mutation_p.A1015V|ATP7B_uc010tgv.1_Missense_Mutation_p.A985V|ATP7B_uc001vfv.2_Missense_Mutation_p.A335V|ATP7B_uc010tgs.1_Intron	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	1063	Cytoplasmic (Potential).		A -> V (in WD; could be a polymorphism).		ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		GCTGGCCTCCGCAGTCCCCAC	0.637									Wilson_disease				19	47					0	0	0.008871	0	0		A	52518300	A	A	52518300	3	1	76	1	0	0	0	0	1	0	0	0	1192	1087	38	1	1241	1	ATP7B	13	52518300	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	5976298	52518300	62651578	590	49440											
HNRNPA1L2	144983	broad.mit.edu	37	chr13	53216744	53216744	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattttgagcaatggggaacGctcacagactgtgtggtaat	11	11	12	7	1	1	2	1	1	0	1	1	3	1	3	0	3	2	3	0	3	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:53216744G>A	uc001vgx.1	+	7	1190	c.117G>A	c.(115-117)ACG>ACA	p.T39T	HNRNPA1L2_uc001vgy.1_Silent_p.T39T|HNRNPA1L2_uc001vgz.1_Silent_p.T39T	NM_001011724	NP_001011724	Q32P51	RA1L2_HUMAN	heterogeneous nuclear ribonucleoprotein A1-like	39	Globular A domain.|RRM 1.				mRNA processing|mRNA transport|RNA splicing	cytoplasm|spliceosomal complex	nucleotide binding|RNA binding				0						AATGGGGAACGCTCACAGACT	0.512													6	48					0	0	0.001984	0	0		A	53216744	A	A	53216744	2	1	76	1	0	0	0	0	0	0	0	1	7274	1074	38	1		1	HNRNPA1L2	13	53216744	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	698444	53216744	61953134	591	49441											
PCDH17	27253	broad.mit.edu	37	chr13	58299326	58299326	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagcttgaccaccccaacagGgatctgggcagagagtctgt	10	7	12	12	0	2	2	0	1	2	1	2	4	2	3	3	2	2	2	3	2	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:58299326G>T	uc001vhq.1	+	4	4270	c.3378G>T	c.(3376-3378)AGG>AGT	p.R1126S	PCDH17_uc010aec.1_Missense_Mutation_p.R1125S|PCDH17_uc001vhr.1_Missense_Mutation_p.R215S	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	1126	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		ACCCCAACAGGGATCTGGGCA	0.532													50	204					4.1673e-28	4.70897e-28	0.00361	1	0		T	58299326	T	T	58299326	3	4	76	1	0	0	0	0	1	0	0	0	11531	1223	43	5	3392	5	PCDH17	13	58299326	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	5082582	58299326	56870552	592	49442											
TBC1D4	9882	broad.mit.edu	37	chr13	76055811	76055811	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccggaaccgcttatcgctTggcttcccggggccgggctg	4	8	15	14	5	0	0	0	0	0	0	2	1	1	1	4	5	2	4	4	5	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:76055811T>C	uc001vjl.1	-	1	440	c.93A>G	c.(91-93)CCA>CCG	p.P31P	TBC1D4_uc010aer.2_Silent_p.P31P|TBC1D4_uc010aes.2_Silent_p.P31P	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	31						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		GCTTATCGCTTGGCTTCCCGG	0.682													10	15					0	0	0.000978	0	0		C	76055811	C	C	76055811	2	2	76	1	0	0	0	0	0	0	0	1	15647	1799	63	3		3	TBC1D4	13	76055811	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	17756485	76055811	39114067	593	49443											
SLITRK6	84189	broad.mit.edu	37	chr13	86368486	86368486	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attttcctgttccaaaagacTtctttggagatgttttgcat	9	18	7	7	0	1	2	0	0	1	2	3	3	3	2	2	1	1	3	2	1	2	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:86368486T>G	uc001vll.1	-	2	2617	c.2158A>C	c.(2158-2160)AGT>CGT	p.S720R	SLITRK6_uc010afe.1_Missense_Mutation_p.S173R	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	720	Cytoplasmic (Potential).					integral to membrane		p.S720C(1)		large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		TCCAAAAGACTTCTTTGGAGA	0.398													14	260					0	0	0.00245	0	0		G	86368486	G	G	86368486	3	3	76	1	0	0	0	0	1	0	0	0	14772	1609	56	5	371	5	SLITRK6	13	86368486	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	10312675	86368486	28801392	594	49444											
SLITRK5	26050	broad.mit.edu	37	chr13	88330473	88330473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caaaactaaacgttgagccgGactacctcgaagtgctggaa	14	7	10	10	3	0	1	0	1	0	0	1	4	0	3	2	2	5	2	2	2	7	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:88330473G>A	uc001vln.2	+	2	3049	c.2830G>A	c.(2830-2832)GAC>AAC	p.D944N	SLITRK5_uc010tic.1_Missense_Mutation_p.D703N	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	944	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CGTTGAGCCGGACTACCTCGA	0.463													41	117					0	0	0.003214	0	0		A	88330473	A	A	88330473	3	1	76	1	0	0	0	0	1	0	0	0	14771	1174	41	4	2832	4	SLITRK5	13	88330473	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1961987	88330473	26839405	595	49445											
SOX21	11166	broad.mit.edu	37	chr13	95364182	95364182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttccactcggcgcccaagCgcttgctgatctccgagttg	5	11	11	14	4	1	1	0	1	1	0	4	2	2	1	3	1	2	4	3	1	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:95364182C>T	uc001vma.2	-	1	208	c.122G>A	c.(121-123)CGC>CAC	p.R41H	uc001vmb.1_5'Flank	NM_007084	NP_009015	Q9Y651	SOX21_HUMAN	SRY-box 21	41	HMG box.			R -> P (in Ref. 4; CAA50466).	regulation of transcription from RNA polymerase II promoter|stem cell differentiation	nucleus	DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity				0	all_neural(89;0.0646)|Medulloblastoma(90;0.163)					GGCGCCCAAGCGCTTGCTGAT	0.627													18	121					0	0	0.007413	0	0		T	95364182	T	T	95364182	3	4	76	1	0	0	0	0	1	0	0	0	14975	768	27	1	712	1	SOX21	13	95364182	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	7033709	95364182	19805696	596	49446											
FARP1	10160	broad.mit.edu	37	chr13	99093014	99093014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcgccaggccccgcaccGcggcaacacaatggtgcacg	9	2	14	16	5	0	0	0	0	0	0	0	1	0	1	4	4	3	3	4	4	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:99093014G>A	uc001vnj.2	+	24	3056	c.2720G>A	c.(2719-2721)CGC>CAC	p.R907H	FARP1_uc001vnh.2_Missense_Mutation_p.R938H	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	907					regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			GCCCCGCACCGCGGCAACACA	0.647													5	37					0	0	0.000602	0	0		A	99093014	A	A	99093014	3	1	76	1	0	0	0	0	1	0	0	0	5690	1087	38	1	3033	1	FARP1	13	99093014	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3728832	99093014	16076864	597	49447											
TPP2	7174	broad.mit.edu	37	chr13	103288709	103288709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcaccttcagatcatggcGttggcattgaacctgtattt	8	14	9	10	1	2	2	2	1	0	1	2	2	2	2	2	2	2	4	2	2	2	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:103288709G>A	uc001vpi.3	+	13	1748	c.1645G>A	c.(1645-1647)GTT>ATT	p.V549I		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	549					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGATCATGGCGTTGGCATTGA	0.423													16	33					0	0	0.00499	0	0		A	103288709	A	A	103288709	3	1	76	1	0	0	0	0	1	0	0	0	16438	1145	40	1	1695	1	TPP2	13	103288709	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4195695	103288709	11881169	598	49448											
ERCC5	2073	broad.mit.edu	37	chr13	103459756	103459756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctcaggagcacccttgggtCccaaaggagatggtcattat	10	9	11	11	0	2	1	2	0	0	1	3	3	3	2	3	4	1	1	3	4	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:103459756C>T	uc001vpu.1	+	1	261	c.139C>T	c.(139-141)CCC>TCC	p.P47S	BIVM_uc001vps.2_Missense_Mutation_p.P47S|BIVM_uc010agc.2_Intron|BIVM_uc001vpt.2_Missense_Mutation_p.P47S	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	Error:Variant_position_missing_in_P28715_after_alignment					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					ACCCTTGGGTCCCAAAGGAGA	0.463			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				8	59					0	0	0.00308	0	0		T	103459756	T	T	103459756	3	4	76	1	0	0	0	0	1	0	0	0	5224	855	30	4		4	ERCC5	13	103459756	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	171047	103459756	11710122	599	49449											
CARS2	79587	broad.mit.edu	37	chr13	111303398	111303398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgagcggtagctgctcCgcaggcagaagaaccggaag	11	4	14	12	3	0	3	0	1	0	2	1	4	1	4	3	3	4	5	3	3	4	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:111303398C>T	uc001vrd.2	-	10	1077	c.1037G>A	c.(1036-1038)CGG>CAG	p.R346Q	CARS2_uc010tjm.1_RNA	NM_024537	NP_078813	Q9HA77	SYCM_HUMAN	cysteinyl-tRNA synthetase 2, mitochondrial	346					cysteinyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|cysteine-tRNA ligase activity|metal ion binding				0	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.163)		L-Cysteine(DB00151)	GTAGCTGCTCCGCAGGCAGAA	0.562													17	95					0	0	0.007413	0	0		T	111303398	T	T	111303398	3	4	76	1	0	0	0	0	1	0	0	0	2661	652	23	1	681	1	CARS2	13	111303398	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	7843642	111303398	3866480	600	49450											
MCF2L	23263	broad.mit.edu	37	chr13	113742894	113742894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagccagccagcaccgggCgctggagcagtcacagagcc	11	2	14	14	2	1	2	1	0	0	2	1	3	1	3	4	2	5	3	4	2	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:113742894C>T	uc001vsu.2	+	25	2979	c.2957C>T	c.(2956-2958)GCG>GTG	p.A986V	MCF2L_uc001vsq.2_Missense_Mutation_p.A986V|MCF2L_uc010tjr.1_Missense_Mutation_p.A929V|MCF2L_uc001vsr.2_Missense_Mutation_p.A933V|MCF2L_uc001vss.3_Missense_Mutation_p.A927V|MCF2L_uc010tjs.1_Missense_Mutation_p.A927V	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	959					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				CAGCACCGGGCGCTGGAGCAG	0.657													6	14					0	0	0.001984	0	0		T	113742894	T	T	113742894	3	4	76	1	0	0	0	0	1	0	0	0	9397	768	27	1	3150	1	MCF2L	13	113742894	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2439496	113742894	1426984	601	49451											
PROZ	8858	broad.mit.edu	37	chr13	113812986	113812986	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgggtgggaatggcaggctgCgtcccactgctccagggcct	5	7	16	13	2	0	0	0	0	0	0	2	1	2	1	3	5	2	3	3	5	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr13:113812986C>T	uc001vta.1	+	1	19	c.12C>T	c.(10-12)TGC>TGT	p.C4C	PROZ_uc010agr.1_Silent_p.C4C	NM_003891	NP_003882	P22891	PROZ_HUMAN	protein Z, vitamin K-dependent plasma	4					blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.216)	all cancers(43;0.104)		Menadione(DB00170)	TGGCAGGCTGCGTCCCACTGC	0.662													8	13					0	0	0.004482	0	0		T	113812986	T	T	113812986	2	4	76	1	0	0	0	0	0	0	0	1	12584	776	27	1		1	PROZ	13	113812986	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	70092	113812986	1356892	602	49452											
OR5AU1	390445	broad.mit.edu	37	chr14	21623694	21623694	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccatggcagcgatgagaTagcactcactggtggcaaaa	13	6	13	9	1	1	1	1	1	0	1	1	3	1	1	1	4	2	3	1	4	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:21623694T>C	uc010tlp.1	-	1	491	c.491A>G	c.(490-492)TAT>TGT	p.Y164C		NM_001004731	NP_001004731	Q8NGC0	O5AU1_HUMAN	olfactory receptor, family 5, subfamily AU,	164	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(95;0.00238)		Epithelial(56;6.88e-07)|all cancers(55;6.02e-06)	GBM - Glioblastoma multiforme(265;0.0192)		AGCGATGAGATAGCACTCACT	0.507													8	33					0	0	0.00308	0	0		C	21623694	C	C	21623694	3	2	76	1	0	0	0	0	1	0	0	0	11166	1406	49	3	600	3	OR5AU1	14	21623694	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08		21623694	85725846	603	49453											
MYH7	4625	broad.mit.edu	37	chr14	23886806	23886806	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgatctcattctgtagcCggtgcttggtcttctccagc	4	14	9	14	2	4	0	1	0	4	0	7	1	4	0	3	2	3	2	3	2	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:23886806C>A	uc001wjx.2	-	31	4365	c.4259G>T	c.(4258-4260)CGG>CTG	p.R1420L		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1420	Potential.		R -> W (in CMH1).		adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		ATTCTGTAGCCGGTGCTTGGT	0.602													27	113					2.79863e-10	3.09111e-10	0.004656	1	0		A	23886806	A	A	23886806	3	1	76	1	0	0	0	0	1	0	0	0	10057	652	23	5	1588	5	MYH7	14	23886806	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2263112	23886806	83462734	604	49454											
NGDN	25983	broad.mit.edu	37	chr14	23945486	23945486	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagaagaagcgtctagaaCgagccaagagacgggcattg	14	4	16	7	3	1	4	0	0	1	4	1	7	1	4	1	2	3	1	1	2	5	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:23945486C>T	uc001wjy.2	+	8	610	c.583C>T	c.(583-585)CGA>TGA	p.R195*	NGDN_uc001wjz.2_Nonsense_Mutation_p.R195*|NGDN_uc001wka.2_RNA	NM_001042635	NP_001036100	Q8NEJ9	NGDN_HUMAN	neuroguidin isoform 1	195	Potential.				regulation of translation	axon|cytoplasm|dendrite|filopodium|nucleus					0	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		GCGTCTAGAACGAGCCAAGAG	0.473													16	50					0	0	0.00499	0	0		T	23945486	T	T	23945486	4	4	76	1	0	0	0	0	0	1	0	0	10412	528	19	1	613	1	NGDN	14	23945486	Nonsense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	58680	23945486	83404054	605	49455											
IPO4	79711	broad.mit.edu	37	chr14	24656743	24656743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtggggttggaaggcctCgggccgggaggtcaccacca	6	6	19	10	2	1	0	1	0	0	0	2	2	1	2	4	8	0	1	4	8	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:24656743C>T	uc001wmv.1	-	6	582	c.451G>A	c.(451-453)GAG>AAG	p.E151K	IPO4_uc001wmt.1_5'Flank|IPO4_uc001wmu.2_5'UTR|IPO4_uc001wmx.1_Missense_Mutation_p.E15K|IPO4_uc001wmy.1_Missense_Mutation_p.E15K|IPO4_uc010tnz.1_RNA|IPO4_uc001wmw.1_RNA|IPO4_uc001wmz.1_Missense_Mutation_p.E151K	NM_024658	NP_078934	Q8TEX9	IPO4_HUMAN	importin 4	151					intracellular protein transport	cytoplasm|nucleus	protein binding|protein transporter activity			kidney(1)	1				GBM - Glioblastoma multiforme(265;0.0087)		TGGAAGGCCTCGGGCCGGGAG	0.582													23	107					0	0	0.002299	0	0		T	24656743	T	T	24656743	3	4	76	1	0	0	0	0	1	0	0	0	7811	893	31	1	2894	1	IPO4	14	24656743	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	711257	24656743	82692797	606	49456											
PRKD1	5587	broad.mit.edu	37	chr14	30047479	30047479	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactcagtgattattgtttAcctgtagccaagggtggctc	10	13	10	8	0	1	1	1	1	0	0	2	1	1	1	2	2	3	3	2	2	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:30047479A>G	uc001wqh.2	-	17	2701	c.2520_splice	c.e17+1	p.Q840_splice		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1						cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		ATTATTGTTTACCTGTAGCCA	0.308													4	14					0	0	0.009096	0	0		G	30047479	G	G	30047479	5	3	76	1	0	0	0	0	0	0	1	0	12540	405	14	3	224	3	PRKD1	14	30047479	Splice_Site	SNP	A	TCGA-BR-8382-01A-11D-2394-08	5390736	30047479	77302061	607	49457											
HECTD1	25831	broad.mit.edu	37	chr14	31592134	31592134	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctaccataacctcctcgtAttcttggtcctcctgattgt	6	16	5	14	1	2	1	0	1	2	0	6	1	5	1	5	1	2	1	5	1	3	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:31592134A>G	uc001wrc.1	-	27	5590	c.5101T>C	c.(5101-5103)TAC>CAC	p.Y1701H	HECTD1_uc001wra.1_5'UTR|HECTD1_uc001wrb.1_5'UTR|HECTD1_uc001wrd.1_Missense_Mutation_p.Y1169H	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1701					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		ACCTCCTCGTATTCTTGGTCC	0.393													13	114					0	0	0.001855	0	0		G	31592134	G	G	31592134	3	3	76	1	0	0	0	0	1	0	0	0	7055	449	16	3	2799	3	HECTD1	14	31592134	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1544655	31592134	75757406	608	49458											
HECTD1	25831	broad.mit.edu	37	chr14	31619373	31619373	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgattgaccagtctctccAatgatatggtttaccttgtt	10	16	7	8	0	1	3	0	3	1	0	3	3	2	3	3	1	1	2	3	1	4	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:31619373A>G	uc001wrc.1	-	13	2476	c.1987T>C	c.(1987-1989)TGG>CGG	p.W663R	HECTD1_uc001wrd.1_Missense_Mutation_p.W178R	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	663					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		CAGTCTCTCCAATGATATGGT	0.358													32	130					0	0	0.002096	0	0		G	31619373	G	G	31619373	3	3	76	1	0	0	0	0	1	0	0	0	7055	130	5	3	5969	3	HECTD1	14	31619373	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	27239	31619373	75730167	609	49459											
HEATR5A	25938	broad.mit.edu	37	chr14	31856542	31856542	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcaaaatttttctctaGccaagctcctcctagtgttg	9	13	8	11	0	1	0	0	0	1	0	4	0	3	0	3	1	3	4	3	1	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:31856542G>A	uc001wrf.3	-	2	171	c.94C>T	c.(94-96)CTA>TTA	p.L32L	HEATR5A_uc010ami.2_5'UTR|HEATR5A_uc001wrg.1_5'UTR|HEATR5A_uc010tpk.1_Silent_p.L325L	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	319							binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		TTTTTCTCTAGCCAAGCTCCT	0.403													9	36					0	0	0.004482	0	0		A	31856542	A	A	31856542	2	1	76	1	0	0	0	0	0	0	0	1	7047	962	34	2		2	HEATR5A	14	31856542	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	237169	31856542	75492998	610	49460											
INSM2	84684	broad.mit.edu	37	chr14	36004422	36004422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtcctgcggctgcaaacGccgccacagtctcctccgcc	5	6	10	20	6	1	0	0	0	1	0	4	0	3	0	6	1	3	2	6	1	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:36004422G>A	uc001wth.1	+	1	1175	c.964G>A	c.(964-966)GCC>ACC	p.A322T		NM_032594	NP_115983	Q96T92	INSM2_HUMAN	insulinoma-associated protein IA-6	322					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)|skin(1)	2	Breast(36;0.122)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(9;2.16e-07)|Lung(238;2.63e-07)|Epithelial(34;0.00145)|all cancers(34;0.00452)	GBM - Glioblastoma multiforme(112;0.0223)		GGCTGCAAACGCCGCCACAGT	0.647													10	53					0	0	0.000978	0	0		A	36004422	A	A	36004422	3	1	76	1	0	0	0	0	1	0	0	0	7788	1087	38	1	966	1	INSM2	14	36004422	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4147880	36004422	71345118	611	49461											
TRIM9	114088	broad.mit.edu	37	chr14	51561212	51561212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattaccccttccagtacgCgattcttggggaagccgcgg	8	9	11	13	4	1	0	0	0	1	0	2	2	2	1	4	3	3	1	4	3	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:51561212C>T	uc001wyx.3	-	1	1211	c.446G>A	c.(445-447)CGC>CAC	p.R149H	TRIM9_uc001wyy.2_Missense_Mutation_p.R149H|TRIM9_uc001wyz.3_Missense_Mutation_p.R149H	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	149					proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					TTCCAGTACGCGATTCTTGGG	0.657													6	31					0	0	0.001168	0	0		T	51561212	T	T	51561212	3	4	76	1	0	0	0	0	1	0	0	0	16575	768	27	1	1776	1	TRIM9	14	51561212	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	15556790	51561212	55788328	612	49462											
SAMD4A	23034	broad.mit.edu	37	chr14	55203855	55203855	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgtctcatgaggacttaCgagctagaggaccccagtgc	10	8	13	10	1	1	2	1	1	1	1	2	6	1	5	2	3	3	1	2	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:55203855C>T	uc001xbb.2	+	3	827	c.826C>T	c.(826-828)CGA>TGA	p.R276*	SAMD4A_uc001xbc.2_Intron	NM_015589	NP_056404	Q9UPU9	SMAG1_HUMAN	sterile alpha motif domain containing 4 isoform	277					positive regulation of translation	cell junction|cytoplasm|dendrite|synapse|synaptosome	translation repressor activity				0						TGAGGACTTACGAGCTAGAGG	0.542													55	245					0	0	0.00361	0	0		T	55203855	T	T	55203855	4	4	76	1	0	0	0	0	0	1	0	0	13846	528	19	1	836	1	SAMD4A	14	55203855	Nonsense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3642643	55203855	52145685	613	49463											
SLC35F4	341880	broad.mit.edu	37	chr14	58038711	58038711	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgccatcatgacaatgccGgtaattgccattattgcagc	11	12	8	10	1	1	1	1	1	0	0	1	1	1	1	3	1	5	2	3	1	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:58038711G>A	uc001xdb.1	-	5	942	c.942C>T	c.(940-942)ACC>ACT	p.T314T	SLC35F4_uc010aoz.1_RNA|SLC35F4_uc010apa.1_Silent_p.T155T	NM_001080455	NP_001073924			solute carrier family 35, member F4											ovary(2)	2						TGACAATGCCGGTAATTGCCA	0.433													4	11					0	0	0.009096	0	0		A	58038711	A	A	58038711	2	1	76	1	0	0	0	0	0	0	0	1	14616	1103	39	1		1	SLC35F4	14	58038711	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2834856	58038711	49310829	614	49464											
C14orf135	64430	broad.mit.edu	37	chr14	60585059	60585059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctacaggttggtatcataCgtgatcgtttgattcagttc	8	17	9	7	2	3	2	2	2	1	0	5	2	3	2	0	2	2	4	0	2	3	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:60585059C>T	uc001xer.3	+	6	1411	c.889C>T	c.(889-891)CGT>TGT	p.R297C	C14orf135_uc001xeq.2_Missense_Mutation_p.R297C|C14orf135_uc010apm.2_RNA	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	531						integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		TGGTATCATACGTGATCGTTT	0.323													6	15					0	0	0.001984	0	0		T	60585059	T	T	60585059	3	4	76	1	0	0	0	0	1	0	0	0	1748	536	19	1	907	1	C14orf135	14	60585059	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2546348	60585059	46764481	615	49465											
KCNH5	27133	broad.mit.edu	37	chr14	63269210	63269210	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagacacccatcgctggcCaatcgaaaagcaggatgttc	12	6	10	13	3	0	1	0	0	0	1	3	3	0	2	2	2	1	4	2	2	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:63269210C>T	uc001xfx.2	-	9	1710	c.1659G>A	c.(1657-1659)TTG>TTA	p.L553L	KCNH5_uc001xfy.2_Silent_p.L553L|KCNH5_uc001xfz.1_Silent_p.L495L	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	553	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		CATCGCTGGCCAATCGAAAAG	0.507													11	84					0	0	0.008291	0	0		T	63269210	T	T	63269210	2	4	76	1	0	0	0	0	0	0	0	1	8051	593	21	4		4	KCNH5	14	63269210	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2684151	63269210	44080330	616	49466											
ESR2	2100	broad.mit.edu	37	chr14	64749567	64749567	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagggctatagaatgtcAtggctggatattcatggtgg	10	11	14	6	0	2	1	2	0	0	1	2	2	2	2	0	5	1	3	0	5	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:64749567A>G	uc001xha.1	-	2	605	c.137T>C	c.(136-138)ATG>ACG	p.M46T	ESR2_uc001xgu.2_Missense_Mutation_p.M46T|ESR2_uc001xgv.2_Missense_Mutation_p.M46T|ESR2_uc001xgw.2_RNA|ESR2_uc001xgx.2_Missense_Mutation_p.M46T|ESR2_uc001xgy.1_Missense_Mutation_p.M46T|ESR2_uc001xgz.1_Missense_Mutation_p.M46T|ESR2_uc010aqb.1_RNA|ESR2_uc010aqc.1_Missense_Mutation_p.M46T	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1	46	Modulating.				cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	ATAGAATGTCATGGCTGGATA	0.498													15	91					0	0	0.003163	0	0		G	64749567	G	G	64749567	3	3	76	1	0	0	0	0	1	0	0	0	5265	217	8	3	1573	3	ESR2	14	64749567	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1480357	64749567	42599973	617	49467											
SFRS5	6430	broad.mit.edu	37	chr14	70237232	70237232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggaagtaacgtttgcggatGcacaccgacctaaattaaat	14	9	10	8	3	0	0	0	0	0	0	0	3	0	2	2	2	3	3	2	2	6	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:70237232G>A	uc001xll.2	+	7	1866	c.415G>A	c.(415-417)GCA>ACA	p.A139T	SFRS5_uc001xlm.2_RNA|SFRS5_uc001xln.1_3'UTR|SFRS5_uc001xlo.2_Missense_Mutation_p.A139T|SFRS5_uc001xlp.2_Missense_Mutation_p.A139T|SFRS5_uc001xlq.2_Missense_Mutation_p.A136T	NM_006925	NP_008856	Q13243	SRSF5_HUMAN	splicing factor, arginine/serine-rich 5	139	RRM 2.				mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|protein binding|RNA binding				0				all cancers(60;0.00144)|BRCA - Breast invasive adenocarcinoma(234;0.0132)|OV - Ovarian serous cystadenocarcinoma(108;0.0154)		GTTTGCGGATGCACACCGACC	0.368													10	34					0	0	0.000978	0	0		A	70237232	A	A	70237232	3	1	76	1	0	0	0	0	1	0	0	0	14205	1319	46	2	433	2	SFRS5	14	70237232	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	5487665	70237232	37112308	618	49468											
ADAM20	8748	broad.mit.edu	37	chr14	70990808	70990808	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgttgcattactttgagAgaaaagatatctaatattat	14	17	7	3	0	1	3	0	1	1	2	1	4	1	3	0	0	2	3	0	0	7	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:70990808A>G	uc001xme.2	-	2	1062	c.817T>C	c.(817-819)TCT>CCT	p.S273P		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	223	Peptidase M12B.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		TTACTTTGAGAGAAAAGATAT	0.388													4	24					0	0	0.009096	0	0		G	70990808	G	G	70990808	3	3	76	1	0	0	0	0	1	0	0	0	242	304	11	3	1517	3	ADAM20	14	70990808	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	753576	70990808	36358732	619	49469											
DCAF4	26094	broad.mit.edu	37	chr14	73422258	73422258	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtttaatggctgccgcTctggggaaatctttgccatt	6	15	11	9	1	2	0	0	0	2	0	2	1	2	1	2	3	3	4	2	3	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:73422258T>C	uc001xng.2	+	12	1253	c.1033T>C	c.(1033-1035)TCT>CCT	p.S345P	DCAF4_uc001xnj.2_Missense_Mutation_p.S339P|DCAF4_uc010ttr.1_Missense_Mutation_p.S324P|DCAF4_uc001xnh.2_Missense_Mutation_p.S245P|DCAF4_uc010tts.1_Missense_Mutation_p.S285P|DCAF4_uc010ttt.1_Missense_Mutation_p.S131P|DCAF4_uc001xni.2_Missense_Mutation_p.S175P|DCAF4_uc001xnk.2_Missense_Mutation_p.S345P	NM_015604	NP_056419	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4 isoform 1	345						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)|skin(1)	3						TGGCTGCCGCTCTGGGGAAAT	0.557													24	168					0	0	0.003954	0	0		C	73422258	C	C	73422258	3	2	76	1	0	0	0	0	1	0	0	0	4273	1551	54	3	1078	3	DCAF4	14	73422258	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2431450	73422258	33927282	620	49470											
PAPLN	89932	broad.mit.edu	37	chr14	73721644	73721644	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatctgtgccattgggccGcccagccactgcgggagcct	5	8	13	15	2	2	0	1	0	1	0	2	1	2	1	5	2	4	0	5	2	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:73721644G>A	uc010ttx.1	+	13	1708	c.1545G>A	c.(1543-1545)CCG>CCA	p.P515P	PAPLN_uc001xnw.3_Silent_p.P488P|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Silent_p.P515P	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	515	TSP type-1 5.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		CCATTGGGCCGCCCAGCCACT	0.642													11	44					0	0	0.001855	0	0		A	73721644	A	A	73721644	2	1	76	1	0	0	0	0	0	0	0	1	11447	1074	38	1		1	PAPLN	14	73721644	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	299386	73721644	33627896	621	49471											
YLPM1	56252	broad.mit.edu	37	chr14	75265236	75265236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacagaggagaaggtagccGggacagagggttggtgaggc	12	4	20	5	1	0	4	0	1	0	3	0	7	0	5	1	6	2	2	1	6	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:75265236G>A	uc001xqj.3	+	5	3360	c.3236G>A	c.(3235-3237)CGG>CAG	p.R1079Q	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	884	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		GAAGGTAGCCGGGACAGAGGG	0.557													14	69					0	0	0.003163	0	0		A	75265236	A	A	75265236	3	1	76	1	0	0	0	0	1	0	0	0	17512	1116	39	1	3254	1	YLPM1	14	75265236	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1543592	75265236	32084304	622	49472											
TMED10	10972	broad.mit.edu	37	chr14	75614415	75614415	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcttcatgtctaggatcacGagttggtcaggtatccgccc	7	12	11	11	2	4	0	3	0	1	0	5	2	5	1	2	3	1	3	2	3	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:75614415G>A	uc001xrm.1	-	3	430	c.363C>T	c.(361-363)CTC>CTT	p.L121L	TMED10_uc010ash.1_RNA|TMED10_uc010asg.1_RNA|TMED10_uc010tuz.1_5'UTR	NM_006827	NP_006818	P49755	TMEDA_HUMAN	transmembrane emp24 domain-containing protein 10	121	Lumenal (Potential).|GOLD.				protein transport|regulated secretory pathway|vesicle targeting, to, from or within Golgi	cis-Golgi network|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|melanosome|microsome|zymogen granule membrane	protein binding				0				BRCA - Breast invasive adenocarcinoma(234;0.0126)		CTAGGATCACGAGTTGGTCAG	0.493													40	169					0	0	0.009718	0	0		A	75614415	A	A	75614415	2	1	76	1	0	0	0	0	0	0	0	1	16028	1045	37	1		1	TMED10	14	75614415	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	349179	75614415	31735125	623	49473											
PSMC1	5700	broad.mit.edu	37	chr14	90734679	90734679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatgggcccaaactcgtacGggaattgttccgagttgctg	8	11	13	9	3	0	1	0	1	0	0	2	3	1	2	2	2	3	4	2	2	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:90734679G>A	uc001xyf.2	+	8	851	c.803G>A	c.(802-804)CGG>CAG	p.R268Q	PSMC1_uc001xyg.2_Missense_Mutation_p.R195Q|PSMC1_uc001xyh.2_Missense_Mutation_p.R195Q|PSMC1_uc010twh.1_Missense_Mutation_p.R195Q	NM_002802	NP_002793	P62191	PRS4_HUMAN	proteasome 26S ATPase subunit 1	268					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0		all_cancers(154;0.142)		COAD - Colon adenocarcinoma(157;0.21)		AAACTCGTACGGGAATTGTTC	0.438													7	58					0	0	0.008291	0	0		A	90734679	A	A	90734679	3	1	76	1	0	0	0	0	1	0	0	0	12707	1116	39	1	833	1	PSMC1	14	90734679	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	15120264	90734679	16614861	624	49474											
TTC7B	145567	broad.mit.edu	37	chr14	91044549	91044549	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccccggagctcagcaatctgGccgcgcatgtagaggacatt	9	7	12	13	3	2	1	1	0	1	1	2	3	2	3	3	3	2	4	3	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:91044549G>A	uc001xyp.2	-	19	2333	c.2211C>T	c.(2209-2211)GGC>GGT	p.G737G	TTC7B_uc001xyo.2_Silent_p.G181G|TTC7B_uc010ats.2_RNA	NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	737	TPR 9.						binding			ovary(2)	2		Melanoma(154;0.222)				CAGCAATCTGGCCGCGCATGT	0.592													6	25					0	0	0.001168	0	0		A	91044549	A	A	91044549	2	1	76	1	0	0	0	0	0	0	0	1	16739	1190	42	2		2	TTC7B	14	91044549	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	309870	91044549	16304991	625	49475											
TTC7B	145567	broad.mit.edu	37	chr14	91196513	91196513	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagggccaggcttagggcTtctgttttgaatattagaaa	11	12	12	6	0	1	2	0	1	1	1	1	2	1	2	1	3	1	4	1	3	5	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:91196513T>C	uc001xyp.2	-	5	726	c.604A>G	c.(604-606)AGC>GGC	p.S202G		NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	202							binding			ovary(2)	2		Melanoma(154;0.222)				GGCTTAGGGCTTCTGTTTTGA	0.418													18	62					0	0	0.006122	0	0		C	91196513	C	C	91196513	3	2	76	1	0	0	0	0	1	0	0	0	16739	1609	56	3	1991	3	TTC7B	14	91196513	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	151964	91196513	16153027	626	49476											
ITPK1	3705	broad.mit.edu	37	chr14	93412766	93412766	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgacacgcccagtgcctGccgcagggcccgggagagct	7	4	16	14	3	0	2	0	1	0	1	0	4	0	2	4	2	3	2	4	2	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:93412766G>A	uc001ybg.2	-	10	1100	c.811C>T	c.(811-813)CAG>TAG	p.Q271*	ITPK1_uc001ybe.2_Nonsense_Mutation_p.Q271*|ITPK1_uc001ybf.2_Nonsense_Mutation_p.Q152*|ITPK1_uc001ybh.2_Nonsense_Mutation_p.Q271*	NM_014216	NP_055031	Q13572	ITPK1_HUMAN	inositol 1,3,4-triphosphate 5/6 kinase isoform	271	ATP-grasp.				blood coagulation|inositol trisphosphate metabolic process|signal transduction	cytosol	ATP binding|hydrolase activity|inositol tetrakisphosphate 1-kinase activity|inositol-1,3,4-trisphosphate 5/6-kinase activity|isomerase activity|ligase activity|magnesium ion binding				0		all_cancers(154;0.077)|all_epithelial(191;0.247)		Epithelial(152;0.124)|all cancers(159;0.169)		CCCAGTGCCTGCCGCAGGGCC	0.617													13	105					0	0	0.001368	0	0		A	93412766	A	A	93412766	4	1	76	1	0	0	0	0	0	1	0	0	7932	1328	46	2	489	2	ITPK1	14	93412766	Nonsense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2216253	93412766	13936774	627	49477											
CLMN	79789	broad.mit.edu	37	chr14	95786068	95786068	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcaggttctgcactcggAtgtcgctaatctgcccgatg	6	12	11	12	3	2	0	0	0	2	0	4	2	2	1	1	2	3	4	1	2	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:95786068A>G	uc001yef.2	-	1	178	c.62T>C	c.(61-63)ATC>ACC	p.I21T		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	21	Actin-binding.|CH 1.					integral to membrane	actin binding				0				Epithelial(152;0.193)		CTGCACTCGGATGTCGCTAAT	0.632													5	28					0	0	0.001168	0	0		G	95786068	G	G	95786068	3	3	76	1	0	0	0	0	1	0	0	0	3545	333	12	3	2998	3	CLMN	14	95786068	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	2373302	95786068	11563472	628	49478											
BDKRB1	623	broad.mit.edu	37	chr14	96730468	96730468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccagccggaggcagcagcGgcggaggcaggcccgggtca	7	1	20	13	4	1	0	1	0	0	0	1	2	1	2	3	8	3	3	3	8	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:96730468G>A	uc001yfh.2	+	3	657	c.449G>A	c.(448-450)CGG>CAG	p.R150Q	BDKRB1_uc010avn.2_Missense_Mutation_p.R150Q	NM_000710	NP_000701	P46663	BKRB1_HUMAN	bradykinin receptor B1	150	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration	endoplasmic reticulum|integral to plasma membrane	bradykinin receptor activity			ovary(3)	3		all_cancers(154;0.0677)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.208)|Epithelial(152;0.226)		AGGCAGCAGCGGCGGAGGCAG	0.632													29	110					0	0	0.00632	0	0		A	96730468	A	A	96730468	3	1	76	1	0	0	0	0	1	0	0	0	1393	1116	39	1	451	1	BDKRB1	14	96730468	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	944400	96730468	10619072	629	49479											
BCL11B	64919	broad.mit.edu	37	chr14	99641328	99641328	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgcgcttctgcttgtcGgccaggagctcgccgtactg	3	9	14	15	6	1	0	0	0	1	0	3	1	1	1	3	2	3	4	3	2	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:99641328G>A	uc001yga.2	-	4	2112	c.1845C>T	c.(1843-1845)GCC>GCT	p.A615A	BCL11B_uc001ygb.2_Silent_p.A544A	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	615	Gly-rich.					nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		TCTGCTTGTCGGCCAGGAGCT	0.428			T	TLX3	T-ALL								15	40					0	0	0.003163	0	0		A	99641328	A	A	99641328	2	1	76	1	0	0	0	0	0	0	0	1	1365	1103	39	1		1	BCL11B	14	99641328	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2910860	99641328	7708212	630	49480											
CYP46A1	10858	broad.mit.edu	37	chr14	100191749	100191749	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcacctatgtcatggggCggatggacacatactttgag	10	10	12	9	1	2	1	2	1	0	0	2	3	2	3	1	4	2	1	1	4	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:100191749C>T	uc001ygo.2	+	13	1198	c.1198C>T	c.(1198-1200)CGG>TGG	p.R400W	CYP46A1_uc001ygp.2_Missense_Mutation_p.R237W	NM_006668	NP_006659	Q9Y6A2	CP46A_HUMAN	cytochrome P450, family 46	400					bile acid biosynthetic process|cholesterol catabolic process|nervous system development|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol 24-hydroxylase activity|electron carrier activity|heme binding|steroid hydroxylase activity				0		Melanoma(154;0.0866)|all_epithelial(191;0.179)				TGTCATGGGGCGGATGGACAC	0.602													10	69					0	0	0.008291	0	0		T	100191749	T	T	100191749	3	4	76	1	0	0	0	0	1	0	0	0	4185	759	27	1	1248	1	CYP46A1	14	100191749	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	550421	100191749	7157791	631	49481											
EML1	2009	broad.mit.edu	37	chr14	100377791	100377791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taagctatgcagttcaggggGcccatgagggtggcattttt	8	12	14	7	0	1	1	1	1	0	0	1	1	1	1	1	4	2	4	1	4	2	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:100377791G>A	uc001ygs.2	+	13	1441	c.1372G>A	c.(1372-1374)GCC>ACC	p.A458T	EML1_uc010tww.1_Missense_Mutation_p.A446T|EML1_uc001ygq.2_Missense_Mutation_p.A477T|EML1_uc001ygr.2_Missense_Mutation_p.A477T	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	458	WD 5.					cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				AGTTCAGGGGGCCCATGAGGG	0.453													16	77					0	0	0.00499	0	0		A	100377791	A	A	100377791	3	1	76	1	0	0	0	0	1	0	0	0	5104	1203	42	2	1483	2	EML1	14	100377791	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	186042	100377791	6971749	632	49482											
PPP1R13B	23368	broad.mit.edu	37	chr14	104206305	104206305	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgttattgtcctctgcCggctcggcagtttggtgggt	2	17	14	8	2	1	0	0	0	1	0	3	0	2	0	2	4	1	5	2	4	1	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:104206305C>T	uc001yof.1	-	12	2731	c.2448G>A	c.(2446-2448)CCG>CCA	p.P816P	PPP1R13B_uc010awv.1_RNA|PPP1R13B_uc001yog.1_Silent_p.P683P	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	816	Pro-rich.				apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				TGTCCTCTGCCGGCTCGGCAG	0.602													14	55					0	0	0.00245	0	0		T	104206305	T	T	104206305	2	4	76	1	0	0	0	0	0	0	0	1	12379	639	23	1		1	PPP1R13B	14	104206305	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3828514	104206305	3143235	633	49483											
KIAA0284	283638	broad.mit.edu	37	chr14	105353081	105353081	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccccagcacgggatggCgtctatgtcagtgccaatgg	8	7	13	13	2	2	0	1	0	1	0	2	1	2	1	4	3	3	1	4	3	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:105353081C>T	uc010axb.2	+	12	2729	c.2505C>T	c.(2503-2505)GGC>GGT	p.G835G	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Silent_p.G765G|KIAA0284_uc001yps.2_Silent_p.G741G|KIAA0284_uc001ypt.2_5'Flank	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	835						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		CACGGGATGGCGTCTATGTCA	0.642													8	52					0	0	0.004482	0	0		T	105353081	T	T	105353081	2	4	76	1	0	0	0	0	0	0	0	1	8182	755	27	1		1	KIAA0284	14	105353081	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1146776	105353081	1996459	634	49484											
AHNAK2	113146	broad.mit.edu	37	chr14	105409804	105409804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcggcctccacctttggcGcggtcacatccactgatgcc	5	9	10	17	4	1	1	1	1	0	0	4	1	3	1	5	3	1	0	5	3	0	1	rs146136367	by1000genomes	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr14:105409804G>A	uc010axc.1	-	7	12104	c.11984C>T	c.(11983-11985)GCG>GTG	p.A3995V	AHNAK2_uc001ypx.2_Missense_Mutation_p.A3895V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3995						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CACCTTTGGCGCGGTCACATC	0.612													48	300					0	0	0.00361	0	0		A	105409804	A	A	105409804	3	1	76	1	0	0	0	0	1	0	0	0	415	1087	38	1	5407	1	AHNAK2	14	105409804	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	56723	105409804	1939736	635	49485											
SPTBN5	51332	broad.mit.edu	37	chr15	42180139	42180139	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacacctgtgggcatggaTgagggcattgaagcccagcc	9	7	14	11	0	1	2	1	2	0	0	1	3	1	3	3	3	2	2	3	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:42180139T>C	uc001zos.2	-	5	874	c.541A>G	c.(541-543)ATC>GTC	p.I181V		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	216	Actin-binding.|CH 2.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		TGGGCATGGATGAGGGCATTG	0.602													3	21					0	0	0.009096	0	0		C	42180139	C	C	42180139	3	2	76	1	0	0	0	0	1	0	0	0	15147	1464	51	3	10634	3	SPTBN5	15	42180139	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08		42180139	60351253	636	49486											
FRMD5	84978	broad.mit.edu	37	chr15	44175999	44175999	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagctccggctgggaaccAtccctgctctgaggttaaag	9	8	12	12	1	1	1	0	1	1	0	3	3	3	2	3	3	3	4	3	3	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:44175999A>G	uc001ztl.2	-	13	1214	c.1037T>C	c.(1036-1038)ATG>ACG	p.M346T	FRMD5_uc001ztj.1_Missense_Mutation_p.M19T|FRMD5_uc001ztk.1_Missense_Mutation_p.M252T|FRMD5_uc010uef.1_Missense_Mutation_p.M19T|FRMD5_uc001ztm.2_Missense_Mutation_p.M19T|FRMD5_uc001ztn.2_Missense_Mutation_p.M112T	NM_032892	NP_116281	Q7Z6J6	FRMD5_HUMAN	FERM domain containing 5 isoform 2	346						cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(109;2.29e-15)|all_epithelial(112;9.98e-13)|Lung NSC(122;4.89e-08)|all_lung(180;5.08e-07)|Melanoma(134;0.0275)		all cancers(107;8.63e-20)|GBM - Glioblastoma multiforme(94;3.63e-06)		GCTGGGAACCATCCCTGCTCT	0.507													11	90					0	0	0.001368	0	0		G	44175999	G	G	44175999	3	3	76	1	0	0	0	0	1	0	0	0	6067	217	8	3	683	3	FRMD5	15	44175999	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1995860	44175999	58355393	637	49487											
FBN1	2200	broad.mit.edu	37	chr15	48703398	48703398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttggttgattttaaagaagCcatcttcatttccagattcg	10	17	7	7	1	2	3	1	1	1	2	4	3	3	3	2	1	1	1	2	1	3	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:48703398C>T	uc001zwx.1	-	66	8733	c.8405G>A	c.(8404-8406)GGC>GAC	p.G2802D	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2802					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		TTTAAAGAAGCCATCTTCATT	0.423													18	69					0	0	0.007413	0	0		T	48703398	T	T	48703398	3	4	76	1	0	0	0	0	1	0	0	0	5716	739	26	2	214	2	FBN1	15	48703398	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4527399	48703398	53827994	638	49488											
SHC4	399694	broad.mit.edu	37	chr15	49254719	49254719	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggctccccagggccaggaAgcgggcacgaatcaggggtt	8	6	16	11	2	1	0	1	0	0	0	2	2	2	1	3	6	1	3	3	6	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:49254719A>C	uc001zxb.1	-	1	923	c.494T>G	c.(493-495)CTT>CGT	p.L165R		NM_203349	NP_976224	Q6S5L8	SHC4_HUMAN	rai-like protein	165	CH2.				intracellular signal transduction	cell junction|postsynaptic membrane				ovary(3)|pancreas(2)	5		all_lung(180;0.00466)		all cancers(107;9.4e-08)|GBM - Glioblastoma multiforme(94;5.94e-07)		AGGGCCAGGAAGCGGGCACGA	0.597													9	66					0	0	0.004482	0	0		C	49254719	C	C	49254719	3	2	76	1	0	0	0	0	1	0	0	0	14298	72	3	5	1446	5	SHC4	15	49254719	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	551321	49254719	53276673	639	49489											
USP8	9101	broad.mit.edu	37	chr15	50733661	50733661	+	Frame_Shift_Del	DEL	A	-	-																															tgactgtttataatcttatcAaaaaaagacctgatttcaag																										TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:50733661delA	uc001zym.3	+	4	720	c.220delA	c.(220-222)AAAfs	p.K74fs	USP8_uc001zyk.1_5'UTR|USP8_uc001zyl.3_Frame_Shift_Del_p.K74fs|USP8_uc001zyn.3_Frame_Shift_Del_p.K74fs|USP8_uc010ufh.1_Intron|USP8_uc010bev.1_5'UTR	NM_001128611	NP_001122083	P40818	UBP8_HUMAN	ubiquitin specific peptidase 8	74	MIT.				cell cycle|cell proliferation|endosome organization|protein K48-linked deubiquitination|protein K63-linked deubiquitination|ubiquitin-dependent protein catabolic process	cytosol|early endosome|extrinsic to plasma membrane|nucleus	cysteine-type endopeptidase activity|SH3 domain binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)|central_nervous_system(1)	2				all cancers(107;0.000225)|GBM - Glioblastoma multiforme(94;0.000771)		TAATCTTATCAAAAAAAGACC	0.318													15	29	---	---	---	---						.	-	50733661	-	-	50733661	7	5	76	1	0	1	0	1	0	0	0	0	17115	131	5	0	226	0	USP8	15	50733661	Frame_Shift_Del	DEL	A	TCGA-BR-8382-01A-11D-2394-08	1478942	50733661	51797731	640	49490											
MYO5A	4644	broad.mit.edu	37	chr15	52668649	52668649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggatggtcttctggatcCggatgcaggcagctctcagt	6	11	13	11	2	3	0	1	0	3	0	6	3	4	3	1	5	2	3	1	5	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:52668649C>T	uc002aby.2	-	19	2559	c.2315G>A	c.(2314-2316)CGG>CAG	p.R772Q	MYO5A_uc002abx.3_Missense_Mutation_p.R772Q|MYO5A_uc010uge.1_Missense_Mutation_p.R641Q	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	772	IQ 1.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		CTTCTGGATCCGGATGCAGGC	0.522													7	42					0	0	0.00308	0	0		T	52668649	T	T	52668649	3	4	76	1	0	0	0	0	1	0	0	0	10096	652	23	1	3344	1	MYO5A	15	52668649	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1934988	52668649	49862743	641	49491											
ZNF280D	54816	broad.mit.edu	37	chr15	56968927	56968927	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaataactttgaggcaaaAcgggcatagcaagttcttag	14	12	9	6	1	1	1	0	1	1	0	1	1	1	1	0	2	3	4	0	2	7	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:56968927A>C	uc002adu.2	-	13	1568	c.1351T>G	c.(1351-1353)TTT>GTT	p.F451V	ZNF280D_uc002adv.2_Missense_Mutation_p.F438V|ZNF280D_uc010bfq.2_Missense_Mutation_p.F451V|ZNF280D_uc002adw.1_Missense_Mutation_p.F479V|ZNF280D_uc010bfr.1_RNA|ZNF280D_uc010bfp.2_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	451	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		TTGAGGCAAAACGGGCATAGC	0.299													9	47					0	0	0.004482	0	0		C	56968927	C	C	56968927	3	2	76	1	0	0	0	0	1	0	0	0	17842	43	2	5	1628	5	ZNF280D	15	56968927	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	4300278	56968927	45562465	642	49492											
TLN2	83660	broad.mit.edu	37	chr15	63029211	63029211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacgtgatggagggctccGccatgctcattcaagaggcc	9	7	14	11	2	2	3	2	1	0	2	3	5	3	4	3	3	1	2	3	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:63029211G>A	uc002alb.3	+	26	3493	c.3493G>A	c.(3493-3495)GCC>ACC	p.A1165T		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1165	Ala-rich.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GGAGGGCTCCGCCATGCTCAT	0.597													18	48					0	0	0.007413	0	0		A	63029211	A	A	63029211	3	1	76	1	0	0	0	0	1	0	0	0	15973	1087	38	1	3595	1	TLN2	15	63029211	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	6060284	63029211	39502181	643	49493											
SPG21	51324	broad.mit.edu	37	chr15	65273318	65273318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatacttcgggggcccgCgtcatagagcgaccatatct	8	9	11	13	4	2	2	1	1	1	1	3	3	2	2	3	2	2	0	3	2	3	4	rs142452716		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:65273318C>T	uc002aod.2	-	3	202	c.109G>A	c.(109-111)GCG>ACG	p.A37T	SPG21_uc002aoe.2_Missense_Mutation_p.A37T|SPG21_uc010bhb.2_Missense_Mutation_p.A37T|SPG21_uc010bhc.2_5'UTR	NM_001127889	NP_001121361	Q9NZD8	SPG21_HUMAN	spastic paraplegia 21 isoform a	37					cell death	cytosol|endosome membrane|trans-Golgi network transport vesicle	CD4 receptor binding				0						CGGGGGCCCGCGTCATAGAGC	0.453													16	58					0	0	0.00499	0	0		T	65273318	T	T	65273318	3	4	76	1	0	0	0	0	1	0	0	0	15068	768	27	1	845	1	SPG21	15	65273318	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2244107	65273318	37258074	644	49494											
MEGF11	84465	broad.mit.edu	37	chr15	66262946	66262946	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtcacgtggtcacactGccctccatggtggcaaggac	8	8	11	14	1	2	0	2	0	0	0	4	1	4	1	3	4	1	1	3	4	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:66262946G>A	uc002apm.2	-	8	985	c.844C>T	c.(844-846)CAG>TAG	p.Q282*	MEGF11_uc002apl.2_Nonsense_Mutation_p.Q207*|MEGF11_uc002apn.1_Nonsense_Mutation_p.Q282*	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	282	EGF-like 5.					basolateral plasma membrane|integral to membrane				pancreas(1)	1						TGGTCACACTGCCCTCCATGG	0.527													9	35					0	0	0.008291	0	0		A	66262946	A	A	66262946	4	1	76	1	0	0	0	0	0	1	0	0	9479	1328	46	2	2354	2	MEGF11	15	66262946	Nonsense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	989628	66262946	36268446	645	49495											
LCTL	197021	broad.mit.edu	37	chr15	66850103	66850103	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtagtcaccggcataaatGgggttggcaaaccagcccag	11	6	14	10	1	1	0	1	0	0	0	1	0	1	0	3	5	2	4	3	5	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:66850103G>T	uc002aqc.2	-	8	1011	c.879C>A	c.(877-879)CCC>CCA	p.P293P	LCTL_uc002aqd.3_Silent_p.P120P|LCTL_uc010bhw.2_5'UTR	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	293	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						CGGCATAAATGGGGTTGGCAA	0.507													10	143					6.40141e-05	6.67381e-05	0.000978	1	0		T	66850103	T	T	66850103	2	4	76	1	0	0	0	0	0	0	0	1	8710	1335	47	5		5	LCTL	15	66850103	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	587157	66850103	35681289	646	49496											
HCN4	10021	broad.mit.edu	37	chr15	73622033	73622033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcatggtgagccagacgtCggacatgcccacgggcgcct	8	5	15	13	4	0	2	0	1	0	1	1	4	0	3	3	3	3	1	3	3	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:73622033C>T	uc002avp.2	-	4	2465	c.1471G>A	c.(1471-1473)GAC>AAC	p.D491N		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	491	Extracellular (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		AGCCAGACGTCGGACATGCCC	0.632													17	88					0	0	0.006122	0	0		T	73622033	T	T	73622033	3	4	76	1	0	0	0	0	1	0	0	0	7015	884	31	1	2160	1	HCN4	15	73622033	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	6771930	73622033	28909359	647	49497											
SCAMP2	10066	broad.mit.edu	37	chr15	75141038	75141038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagaagctgaaagagttgtCggacctgtggagagagaggg	14	6	17	4	1	0	5	0	1	0	4	1	8	0	6	1	3	1	2	1	3	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:75141038C>T	uc002azb.1	-	7	711	c.637G>A	c.(637-639)GAC>AAC	p.D213N	SCAMP2_uc002aza.1_Missense_Mutation_p.D63N|SCAMP2_uc010bkg.1_Intron	NM_005697	NP_005688	O15127	SCAM2_HUMAN	secretory carrier membrane protein 2	213	Cytoplasmic (Potential).|Interaction with SLC9A7.				post-Golgi vesicle-mediated transport|protein transport	integral to membrane|nucleus|recycling endosome membrane|trans-Golgi network membrane	protein binding			ovary(1)	1						AAAGAGTTGTCGGACCTGTGG	0.493													5	26					0	0	0.001984	0	0		T	75141038	T	T	75141038	3	4	76	1	0	0	0	0	1	0	0	0	13896	884	31	1	364	1	SCAMP2	15	75141038	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1519005	75141038	27390354	648	49498											
PSMA4	5685	broad.mit.edu	37	chr15	78837238	78837238	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacagtatcaggagccaatAccttgtgagcagttggttac	11	12	10	8	0	1	1	1	1	0	0	1	2	1	2	2	2	5	4	2	2	5	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:78837238A>G	uc002bdu.3	+	6	473	c.315A>G	c.(313-315)ATA>ATG	p.I105M	PSMA4_uc010blf.2_Missense_Mutation_p.I105M|PSMA4_uc002bdv.3_Missense_Mutation_p.I34M|PSMA4_uc002bdw.3_Missense_Mutation_p.I81M|PSMA4_uc002bdx.3_Missense_Mutation_p.I34M	NM_002789	NP_002780	P25789	PSA4_HUMAN	proteasome alpha 4 subunit isoform 1	105					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0						AGGAGCCAATACCTTGTGAGC	0.328													10	27					0	0	0.001855	0	0		G	78837238	G	G	78837238	3	3	76	1	0	0	0	0	1	0	0	0	12691	381	14	3	333	3	PSMA4	15	78837238	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	3696200	78837238	23694154	649	49499											
CHRNA3	1136	broad.mit.edu	37	chr15	78888987	78888987	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggggttgcagaaacaatcCtgctgtccctagaatgcaca	12	8	10	11	0	0	2	0	0	0	2	2	2	2	2	2	2	4	4	2	2	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:78888987C>A	uc002bec.2	-	6	1663	c.1477G>T	c.(1477-1479)GGA>TGA	p.G493*	CHRNA3_uc002bea.2_RNA|CHRNA3_uc002beb.2_Intron|CHRNA3_uc010blg.1_RNA	NM_000743	NP_000734	P32297	ACHA3_HUMAN	cholinergic receptor, nicotinic, alpha 3	493	Helical; (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|behavioral response to nicotine|locomotory behavior|regulation of acetylcholine secretion|regulation of dendrite morphogenesis|regulation of excitatory postsynaptic membrane potential|regulation of smooth muscle contraction|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|dendrite|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic density|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(3)|ovary(1)	4						AGAAACAATCCTGCTGTCCCT	0.488													9	48					1.76689e-08	1.9259e-08	0.006214	1	0		A	78888987	A	A	78888987	4	1	76	1	0	0	0	0	0	1	0	0	3387	690	24	5	129	5	CHRNA3	15	78888987	Nonsense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	51749	78888987	23642405	650	49500											
MEX3B	84206	broad.mit.edu	37	chr15	82336301	82336301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcgctgctgctggtccCgccgccgaaataagagtctg	6	8	13	14	5	1	1	0	0	1	1	2	2	2	1	3	1	3	4	3	1	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:82336301C>T	uc002bgq.1	-	2	1225	c.910G>A	c.(910-912)GGG>AGG	p.G304R		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	304					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						CTGCTGGTCCCGCCGCCGAAA	0.632													16	88					0	0	0.00499	0	0		T	82336301	T	T	82336301	3	4	76	1	0	0	0	0	1	0	0	0	9528	652	23	1	803	1	MEX3B	15	82336301	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3447314	82336301	20195091	651	49501											
AKAP13	11214	broad.mit.edu	37	chr15	86124026	86124026	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttagattcagttttgacTgaagaaggaaaacttctggt	12	14	10	5	0	2	4	1	2	1	2	2	5	2	5	0	2	1	2	0	2	5	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:86124026T>C	uc002blv.1	+	7	2897	c.2727T>C	c.(2725-2727)ACT>ACC	p.T909T	AKAP13_uc002blt.1_Silent_p.T909T|AKAP13_uc002blu.1_Silent_p.T909T|AKAP13_uc010bne.1_5'Flank	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	909					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CAGTTTTGACTGAAGAAGGAA	0.458													10	66					0	0	0.006214	0	0		C	86124026	C	C	86124026	2	2	76	1	0	0	0	0	0	0	0	1	449	1567	55	3		3	AKAP13	15	86124026	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3787725	86124026	16407366	652	49502											
RLBP1	6017	broad.mit.edu	37	chr15	89758344	89758344	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcaatgttgaagagcatgaCcactcggccatacttgtccc	10	10	8	13	1	1	3	1	2	0	1	3	3	2	3	3	1	2	2	3	1	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:89758344C>T	uc002bnl.2	-	6	852	c.472G>A	c.(472-474)GTC>ATC	p.V158I		NM_000326	NP_000317	P12271	RLBP1_HUMAN	retinaldehyde binding protein 1	158	CRAL-TRIO.				response to stimulus|visual perception|vitamin A metabolic process	cytoplasm|soluble fraction	retinol binding|transporter activity			central_nervous_system(1)	1	Lung NSC(78;0.0472)|all_lung(78;0.089)				Vitamin A(DB00162)	AAGAGCATGACCACTCGGCCA	0.572													11	96					0	0	0.008291	0	0		T	89758344	T	T	89758344	3	4	76	1	0	0	0	0	1	0	0	0	13413	507	18	4	497	4	RLBP1	15	89758344	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3634318	89758344	12773048	653	49503											
C15orf42	90381	broad.mit.edu	37	chr15	90118931	90118931	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctatctgagttgccgattCggcctggccagggtccactg	6	10	12	13	2	1	1	0	1	1	0	3	2	2	1	5	3	1	1	5	3	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:90118931C>T	uc002boe.2	+	1	114	c.114C>T	c.(112-114)TTC>TTT	p.F38F		NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	38					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GTTGCCGATTCGGCCTGGCCA	0.498													3	12					0	0	0.009096	0	0		T	90118931	T	T	90118931	2	4	76	1	0	0	0	0	0	0	0	1	1799	883	31	1		1	C15orf42	15	90118931	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	360587	90118931	12412461	654	49504											
MAN2A2	4122	broad.mit.edu	37	chr15	91452612	91452612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagctgttccgaagcaacGtcctcctggtgcctcttgga	6	10	10	15	2	1	0	0	0	1	0	4	2	4	1	5	2	4	3	5	2	2	2	rs145039941		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:91452612G>A	uc010bnz.2	+	9	1367	c.1252G>A	c.(1252-1254)GTC>ATC	p.V418I	MAN2A2_uc010boa.2_Missense_Mutation_p.V460I|MAN2A2_uc002bqc.2_Missense_Mutation_p.V418I|MAN2A2_uc010uql.1_Missense_Mutation_p.V122I|MAN2A2_uc010uqm.1_Silent_p.T64T|MAN2A2_uc010uqn.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	418	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			CCGAAGCAACGTCCTCCTGGT	0.542													10	54					0	0	0.000978	0	0		A	91452612	A	A	91452612	3	1	76	1	0	0	0	0	1	0	0	0	9233	1145	40	1	1282	1	MAN2A2	15	91452612	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1333681	91452612	11078780	655	49505											
SV2B	9899	broad.mit.edu	37	chr15	91769857	91769857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggtttggccctgatggccGatggggtggaagtgttcgtg	4	12	19	6	2	0	1	0	1	0	0	1	3	0	2	2	6	0	2	2	6	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr15:91769857G>A	uc002bqv.2	+	1	755	c.364G>A	c.(364-366)GAT>AAT	p.D122N	SV2B_uc002bqt.2_Missense_Mutation_p.D122N|SV2B_uc010uqv.1_Intron|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	122	Helical; (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			CCTGATGGCCGATGGGGTGGA	0.532													5	50					0	0	0.000602	0	0		A	91769857	A	A	91769857	3	1	76	1	0	0	0	0	1	0	0	0	15443	1058	37	1	366	1	SV2B	15	91769857	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	317245	91769857	10761535	656	49506											
RHBDF1	64285	broad.mit.edu	37	chr16	114974	114974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagccagggtggcttcttgcGctgcaggctgctcgtgctgt	3	12	15	11	2	1	0	0	0	1	0	2	0	1	0	1	3	5	6	1	3	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:114974G>A	uc002cfl.3	-	5	188	c.40C>T	c.(40-42)CGC>TGC	p.R14C	RHBDF1_uc010uty.1_Missense_Mutation_p.R14C|RHBDF1_uc010utz.1_Missense_Mutation_p.R14C|RHBDF1_uc010bqo.1_RNA	NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	14	Cytoplasmic (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				GGCTTCTTGCGCTGCAGGCTG	0.617													25	85					0	0	0.003954	0	0		A	114974	A	A	114974	3	1	76	1	0	0	0	0	1	0	0	0	13344	1087	38	1	2595	1	RHBDF1	16	114974	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08		114974	90239779	657	49507											
MSLN	10232	broad.mit.edu	37	chr16	815589	815589	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcctgctgcccgtgctggGccagcccatcatccgcagca	5	6	13	17	2	1	0	1	0	0	0	2	0	2	0	5	2	5	4	5	2	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:815589G>C	uc002cjw.1	+	9	818	c.767G>C	c.(766-768)GGC>GCC	p.G256A	MSLN_uc002cjt.1_Missense_Mutation_p.G256A|MSLN_uc002cju.1_Missense_Mutation_p.G256A|MSLN_uc010brd.1_Missense_Mutation_p.G255A|MSLN_uc002cjv.1_Missense_Mutation_p.G256A|MSLN_uc002cjx.1_Missense_Mutation_p.G256A|MSLN_uc002cjy.1_5'Flank	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein	256					cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)				CCCGTGCTGGGCCAGCCCATC	0.701													8	39					0	0	0.004482	0	0		C	815589	C	C	815589	3	2	76	1	0	0	0	0	1	0	0	0	9899	1203	42	5	797	5	MSLN	16	815589	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	700615	815589	89539164	658	49508											
PKD1	5310	broad.mit.edu	37	chr16	2139989	2139989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgagcagggcctcgaacacGgcttggaggcgggagggctc	7	5	19	10	3	0	1	0	1	0	0	2	4	0	3	1	6	2	3	1	6	1	1	rs141412586		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:2139989G>A	uc002cos.1	-	46	12860	c.12651C>T	c.(12649-12651)GCC>GCT	p.A4217A	PKD1_uc002cot.1_Silent_p.A4216A	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	4217	Cytoplasmic (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CCTCGAACACGGCTTGGAGGC	0.672													6	27					0	0	0.001168	0	0		A	2139989	A	A	2139989	2	1	76	1	0	0	0	0	0	0	0	1	11982	1103	39	1		1	PKD1	16	2139989	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1324400	2139989	88214764	659	49509											
CREBBP	1387	broad.mit.edu	37	chr16	3778452	3778452	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgttgctgctgctgcTgcagcagctgcctccgtaac	4	11	12	14	1	0	0	0	0	0	0	1	0	1	0	2	0	10	11	2	0	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:3778452T>A	uc002cvv.2	-	31	6800	c.6596A>T	c.(6595-6597)CAG>CTG	p.Q2199L	CREBBP_uc002cvw.2_Missense_Mutation_p.Q2161L	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2199	Poly-Gln.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		ctgctgctgctgcagcagctg	0.418			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				5	49					0	0	0.000602	0	0		A	3778452	A	A	3778452	3	1	76	1	0	0	0	0	1	0	0	0	3864	1580	55	5	736	5	CREBBP	16	3778452	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	1638463	3778452	86576301	660	49510											
MKL2	57496	broad.mit.edu	37	chr16	14355230	14355230	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaggactcactcctctcAgcaccaccgcgccgagcatg	8	7	8	18	3	3	0	3	0	1	0	5	2	4	1	4	1	2	2	4	1	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:14355230A>G	uc010uza.1	+	17	3384	c.3229A>G	c.(3229-3231)AGC>GGC	p.S1077G	MKL2_uc002dcg.2_Missense_Mutation_p.S1027G|MKL2_uc002dcj.2_Missense_Mutation_p.S322G	NM_014048	NP_054767	Q9ULH7	MKL2_HUMAN	megakaryoblastic leukemia 2 protein	1066					cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5						CACTCCTCTCAGCACCACCGC	0.517													11	71					0	0	0.008291	0	0		G	14355230	G	G	14355230	3	3	76	1	0	0	0	0	1	0	0	0	9620	188	7	3	3137	3	MKL2	16	14355230	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	10576778	14355230	75999523	661	49511											
TMC5	79838	broad.mit.edu	37	chr16	19451390	19451390	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactacaggaataactggtcTgaggaagacccagattaccc	14	8	9	10	0	1	3	0	1	1	2	1	5	1	5	2	3	4	0	2	3	6	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:19451390T>C	uc002dgc.3	+	3	779	c.30T>C	c.(28-30)TCT>TCC	p.S10S	TMC5_uc010vaq.1_Silent_p.S10S|TMC5_uc002dgb.3_Silent_p.S10S|TMC5_uc010var.1_Silent_p.S10S	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	10	Extracellular (Potential).					integral to membrane				skin(1)	1						ATAACTGGTCTGAGGAAGACC	0.458													19	62					0	0	0.001882	0	0		C	19451390	C	C	19451390	2	2	76	1	0	0	0	0	0	0	0	1	16013	1567	55	3		3	TMC5	16	19451390	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	5096160	19451390	70903363	662	49512											
DNAH3	55567	broad.mit.edu	37	chr16	20976519	20976519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccaccaccttggccacgCgatcgtacacctccatggcc	8	6	9	18	3	0	0	0	0	0	0	2	2	1	0	7	2	2	1	7	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:20976519C>T	uc010vbe.1	-	53	8687	c.8687G>A	c.(8686-8688)CGC>CAC	p.R2896H	DNAH3_uc010vbd.1_Missense_Mutation_p.R331H	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2896	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CTTGGCCACGCGATCGTACAC	0.567													34	161					0	0	0.003755	0	0		T	20976519	T	T	20976519	3	4	76	1	0	0	0	0	1	0	0	0	4609	768	27	1	3702	1	DNAH3	16	20976519	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1525129	20976519	69378234	663	49513											
ZP2	7783	broad.mit.edu	37	chr16	21210127	21210127	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaggagtcatctgacaacaGgagaatgggtcctgggaggc	11	7	16	7	0	2	3	1	2	1	1	3	6	3	5	1	5	1	0	1	5	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:21210127G>T	uc002dii.2	-	17	1984	c.1984C>A	c.(1984-1986)CTG>ATG	p.L662M	ZP2_uc010bwn.1_Missense_Mutation_p.L692M	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	662	Extracellular (Potential).				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		TCTGACAACAGGAGAATGGGT	0.488													6	32					0.00198382	0.00203092	0.001984	1	0		T	21210127	T	T	21210127	3	4	76	1	0	0	0	0	1	0	0	0	18241	991	35	5	265	5	ZP2	16	21210127	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	233608	21210127	69144626	664	49514											
HS3ST2	9956	broad.mit.edu	37	chr16	22926525	22926525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgtcatggaacgccatccGcatcggcatgtacgtgctgc	7	9	12	13	5	1	0	1	0	0	0	3	1	2	1	2	2	4	4	2	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:22926525G>A	uc002dli.2	+	2	818	c.746G>A	c.(745-747)CGC>CAC	p.R249H	HS3ST2_uc002dlj.2_RNA	NM_006043	NP_006034	Q9Y278	HS3S2_HUMAN	heparan sulfate D-glucosaminyl	249	Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 2 activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(48;0.0299)		AACGCCATCCGCATCGGCATG	0.617													23	163					0	0	0.001882	0	0		A	22926525	A	A	22926525	3	1	76	1	0	0	0	0	1	0	0	0	7380	1087	38	1	752	1	HS3ST2	16	22926525	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1716398	22926525	67428228	665	49515											
USP31	57478	broad.mit.edu	37	chr16	23091458	23091458	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagtcaaggggaatttgAccatgttctgaagtttcatg	10	12	12	7	0	3	2	2	2	1	0	3	3	3	3	2	3	0	2	2	3	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:23091458A>T	uc002dll.2	-	13	1985	c.1985T>A	c.(1984-1986)GTC>GAC	p.V662D	USP31_uc010bxm.2_5'UTR	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	662					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		GGGGAATTTGACCATGTTCTG	0.498													17	88					0	0	0.006122	0	0		T	23091458	T	T	23091458	3	4	76	1	0	0	0	0	1	0	0	0	17088	275	10	5	2089	5	USP31	16	23091458	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	164933	23091458	67263295	666	49516											
AQP8	343	broad.mit.edu	37	chr16	25228664	25228664	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttcatcttcatcgggtGcctgtcggtcattgagaatg	6	15	10	10	2	5	1	3	1	2	1	8	2	5	1	1	2	1	0	1	2	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:25228664G>T	uc002doc.2	+	2	240	c.158G>T	c.(157-159)TGC>TTC	p.C53F		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	53	Helical; (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		TTCATCGGGTGCCTGTCGGTC	0.627													25	233					2.44723e-14	2.74518e-14	0.004656	1	0		T	25228664	T	T	25228664	3	4	76	1	0	0	0	0	1	0	0	0	832	1319	46	5	164	5	AQP8	16	25228664	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2137206	25228664	65126089	667	49517											
TUFM	7284	broad.mit.edu	37	chr16	28855345	28855345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccgccgcaagtcctcccGcttcaagcctcggaccaggg	6	5	11	19	4	1	0	1	0	0	0	4	1	3	1	7	2	1	2	7	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:28855345G>A	uc002drh.2	-	8	1139	c.1000C>T	c.(1000-1002)CGG>TGG	p.R334W	uc010vct.1_Intron|SH2B1_uc002dri.2_5'Flank	NM_003321	NP_003312	P49411	EFTU_HUMAN	Tu translation elongation factor, mitochondrial	331						mitochondrial nucleoid	GTP binding|GTPase activity|protein binding|translation elongation factor activity			ovary(1)	1						AAGTCCTCCCGCTTCAAGCCT	0.637													8	59					0	0	0.00308	0	0		A	28855345	A	A	28855345	3	1	76	1	0	0	0	0	1	0	0	0	16797	1086	38	1	379	1	TUFM	16	28855345	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3626681	28855345	61499408	668	49518											
SEPHS2	22928	broad.mit.edu	37	chr16	30455823	30455823	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccgggccgttcggtttcccTtttccacaatgccaacgatc	6	12	8	15	4	0	0	0	0	0	0	5	1	3	0	5	2	2	2	5	2	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:30455823T>C	uc010ves.1	-	2	1402	c.1226A>G	c.(1225-1227)AAG>AGG	p.K409R	SEPHS2_uc002dyh.1_Missense_Mutation_p.K352R|SEPHS2_uc010vet.1_Missense_Mutation_p.K291R	NM_012248	NP_036380	Q99611	SPS2_HUMAN	selenophosphate synthetase 2	409					selenocysteine biosynthetic process		ATP binding|selenide, water dikinase activity			breast(2)	2						TCGGTTTCCCTTTTCCACAAT	0.527													19	65					0	0	0.010504	0	0		C	30455823	C	C	30455823	3	2	76	1	0	0	0	0	1	0	0	0	14080	1609	56	3	124	3	SEPHS2	16	30455823	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	1600478	30455823	59898930	669	49519											
ITGAL	3683	broad.mit.edu	37	chr16	30521775	30521775	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaatgtgagctctcccatcTtcaaagcaggccactcggtg	9	9	10	13	1	3	1	1	1	2	0	5	1	3	1	2	2	2	3	2	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:30521775T>G	uc002dyi.3	+	22	2778	c.2602T>G	c.(2602-2604)TTC>GTC	p.F868V	ITGAL_uc002dyj.3_Missense_Mutation_p.F784V|ITGAL_uc010vev.1_Intron	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	868	Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	CTCTCCCATCTTCAAAGCAGG	0.587													10	75					0	0	0.008291	0	0		G	30521775	G	G	30521775	3	3	76	1	0	0	0	0	1	0	0	0	7902	1609	56	5	2688	5	ITGAL	16	30521775	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	65952	30521775	59832978	670	49520											
PRR14	78994	broad.mit.edu	37	chr16	30666359	30666359	+	Silent	SNP	A	G	G																															gctccaccccaaccaagccgAccacggccgcggcggcacac																										TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:30666359A>G	uc002dyy.2	+	8	1326	c.1068A>G	c.(1066-1068)CGA>CGG	p.R356R	PRR14_uc002dyz.2_Silent_p.R201R|PRR14_uc002dza.2_Silent_p.R356R|PRR14_uc002dzb.1_Silent_p.R170R	NM_024031	NP_076936	Q9BWN1	PRR14_HUMAN	proline rich 14	356	Pro-rich.										0			Colorectal(24;0.103)			AACCAAGCCGACCACGGCCGC	0.697													19	69					0	0	0.001882	0	0		G	30666359	G	G	30666359	2	3	76	1	0	0	0	0	0	0	0	1	12608	262	10	3		3	PRR14	16	30666359	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	144584	30666359	59688394	671	49521	93	2									
PRR14	78994	broad.mit.edu	37	chr16	30666362	30666362	+	Silent	SNP	A	G	G																															ccaccccaaccaagccgaccAcggccgcggcggcacactgt																										TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:30666362A>G	uc002dyy.2	+	8	1329	c.1071A>G	c.(1069-1071)CCA>CCG	p.P357P	PRR14_uc002dyz.2_Silent_p.P202P|PRR14_uc002dza.2_Silent_p.P357P|PRR14_uc002dzb.1_Silent_p.P171P	NM_024031	NP_076936	Q9BWN1	PRR14_HUMAN	proline rich 14	357	Pro-rich.										0			Colorectal(24;0.103)			CAAGCCGACCACGGCCGCGGC	0.697													19	70					0	0	0.010504	0	0		G	30666362	G	G	30666362	2	3	76	1	0	0	0	0	0	0	0	1	12608	146	6	3		3	PRR14	16	30666362	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	3	30666362	59688391	672	49522	93	2									
PRR14	78994	broad.mit.edu	37	chr16	30666716	30666716	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaagagcctcaaaggaccAggtgctttcagaacctgaga	13	6	11	11	0	2	3	2	1	0	3	2	5	2	4	4	2	3	1	4	2	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:30666716A>G	uc002dyy.2	+	9	1547	c.1289A>G	c.(1288-1290)CAG>CGG	p.Q430R	PRR14_uc002dyz.2_Missense_Mutation_p.Q275R|PRR14_uc002dza.2_Missense_Mutation_p.Q430R	NM_024031	NP_076936	Q9BWN1	PRR14_HUMAN	proline rich 14	430											0			Colorectal(24;0.103)			TCAAAGGACCAGGTGCTTTCA	0.537													12	69					0	0	0.000978	0	0		G	30666716	G	G	30666716	3	3	76	1	0	0	0	0	1	0	0	0	12608	188	7	3	1319	3	PRR14	16	30666716	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	354	30666716	59688037	673	49523											
C16orf78	123970	broad.mit.edu	37	chr16	49412460	49412460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaaaaggggaaacacctcaGcatggtccctggcagctaca	13	5	11	12	0	1	0	1	0	0	0	2	1	2	1	2	4	4	4	2	4	4	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:49412460G>A	uc002efr.2	+	3	393	c.350G>A	c.(349-351)AGC>AAC	p.S117N		NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970	117										central_nervous_system(1)	1						AAACACCTCAGCATGGTCCCT	0.552													3	21					0	0	0.004672	0	0		A	49412460	A	A	49412460	3	1	76	1	0	0	0	0	1	0	0	0	1838	971	34	2	360	2	C16orf78	16	49412460	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	18745744	49412460	40942293	674	49524											
GPR114	221188	broad.mit.edu	37	chr16	57598979	57598979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctctgctgaataactacGtcctgggggcccagctgagt	8	10	11	12	1	1	2	0	2	1	0	3	2	2	2	2	2	4	2	2	2	3	2	rs143828233		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:57598979G>A	uc002elx.3	+	6	548	c.463G>A	c.(463-465)GTC>ATC	p.V155I	GPR114_uc010vhr.1_Missense_Mutation_p.V155I|GPR114_uc002ely.2_Missense_Mutation_p.V155I	NM_153837	NP_722579	Q8IZF4	GP114_HUMAN	G protein-coupled receptor 114 precursor	155	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)	1						GAATAACTACGTCCTGGGGGC	0.577													20	100					0	0	0.001882	0	0		A	57598979	A	A	57598979	3	1	76	1	0	0	0	0	1	0	0	0	6646	1145	40	1	481	1	GPR114	16	57598979	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	8186519	57598979	32755774	675	49525											
GPR56	9289	broad.mit.edu	37	chr16	57693479	57693479	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcctgcacttctccctgCtcacctgcctttcctggatg	3	15	6	17	0	3	0	1	0	2	0	6	1	5	1	5	1	3	2	5	1	0	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:57693479C>A	uc002emb.2	+	12	1751	c.1459C>A	c.(1459-1461)CTC>ATC	p.L487I	GPR56_uc002elz.1_Missense_Mutation_p.L317I|GPR56_uc002ema.1_Missense_Mutation_p.L312I|GPR56_uc002emc.2_Missense_Mutation_p.L481I|GPR56_uc002emf.2_Missense_Mutation_p.L481I|GPR56_uc010vhs.1_Missense_Mutation_p.L487I|GPR56_uc002emd.2_Missense_Mutation_p.L481I|GPR56_uc002eme.2_Missense_Mutation_p.L481I|GPR56_uc010vht.1_Missense_Mutation_p.L486I|GPR56_uc002emg.3_Missense_Mutation_p.L481I|GPR56_uc010vhu.1_Missense_Mutation_p.L306I	NM_005682	NP_005673	Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56 isoform a	487	Helical; Name=3; (Potential).				brain development|cell adhesion|cell-cell signaling|neuropeptide signaling pathway	integral to plasma membrane	G-protein coupled receptor activity				0						CTTCTCCCTGCTCACCTGCCT	0.617													16	112					1.99824e-07	2.1498e-07	0.00499	1	0		A	57693479	A	A	57693479	3	1	76	1	0	0	0	0	1	0	0	0	6715	797	28	5	1512	5	GPR56	16	57693479	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	94500	57693479	32661274	676	49526											
CNOT1	23019	broad.mit.edu	37	chr16	58576171	58576171	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggcatccgttcagcttgAtatgttaaaacaacaggatc	12	12	8	9	1	2	1	1	1	1	0	4	2	3	2	1	2	3	4	1	2	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:58576171A>G	uc002env.2	-	33	4937	c.4644T>C	c.(4642-4644)TAT>TAC	p.Y1548Y	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Silent_p.Y1543Y|CNOT1_uc010vik.1_Silent_p.Y505Y	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1548					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		GTTCAGCTTGATATGTTAAAA	0.408													11	56					0	0	0.001855	0	0		G	58576171	G	G	58576171	2	3	76	1	0	0	0	0	0	0	0	1	3620	340	12	3		3	CNOT1	16	58576171	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	882692	58576171	31778582	677	49527											
CNOT1	23019	broad.mit.edu	37	chr16	58612691	58612691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtggagataagttcatggCgcaaggtatgccaagaggtg	12	8	16	5	1	1	2	1	0	0	2	1	4	1	2	1	4	1	3	1	4	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:58612691C>T	uc002env.2	-	13	1789	c.1496G>A	c.(1495-1497)CGC>CAC	p.R499H	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.R499H|CNOT1_uc002enx.2_Missense_Mutation_p.R499H|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	499					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		AAGTTCATGGCGCAAGGTATG	0.438													14	69					0	0	0.004007	0	0		T	58612691	T	T	58612691	3	4	76	1	0	0	0	0	1	0	0	0	3620	768	27	1	6004	1	CNOT1	16	58612691	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	36520	58612691	31742062	678	49528											
CDH11	1009	broad.mit.edu	37	chr16	65006930	65006930	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tctgtcgaggtcagtgtgacGatcgatggaatacctaagca	11	10	12	8	3	2	1	1	1	1	0	4	5	2	2	1	2	2	1	1	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:65006930G>C	uc002eoi.2	-	9	1701	c.1267C>G	c.(1267-1269)CGT>GGT	p.R423G	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Missense_Mutation_p.R423G|CDH11_uc010vin.1_Missense_Mutation_p.R297G	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	423	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		TCAGTGTGACGATCGATGGAA	0.368			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			7	35					0	0	0.001984	0	0		C	65006930	C	C	65006930	3	2	76	1	0	0	0	0	1	0	0	0	3100	1058	37	5	1143	5	CDH11	16	65006930	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	6394239	65006930	25347823	679	49529											
PDP2	57546	broad.mit.edu	37	chr16	66919107	66919107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgtctgccccttacacGtgaccacaatgcctggaacc	8	10	8	15	1	2	1	0	1	2	0	2	2	2	2	5	1	4	0	5	1	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:66919107G>A	uc002eqk.1	+	2	1082	c.920G>A	c.(919-921)CGT>CAT	p.R307H		NM_020786	NP_065837	Q9P2J9	PDP2_HUMAN	pyruvate dehydrogenase phosphatase isoenzyme 2	307					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity|metal ion binding			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		CCCCTTACACGTGACCACAAT	0.567													22	48					0	0	0.001882	0	0		A	66919107	A	A	66919107	3	1	76	1	0	0	0	0	1	0	0	0	11705	1145	40	1	922	1	PDP2	16	66919107	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1912177	66919107	23435646	680	49530											
HSF4	3299	broad.mit.edu	37	chr16	67200243	67200243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagaacgagatcttgtggcGggaggtggtgacacttcggc	8	8	17	8	3	1	3	0	1	1	2	2	5	1	4	0	5	1	1	0	5	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:67200243G>A	uc002erl.1	+	7	1471	c.506G>A	c.(505-507)CGG>CAG	p.R169Q	HSF4_uc002erm.1_Missense_Mutation_p.R169Q|HSF4_uc002ern.1_RNA|HSF4_uc010cec.1_RNA	NM_001040667	NP_001035757	Q9ULV5	HSF4_HUMAN	heat shock transcription factor 4 isoform b	169	Hydrophobic repeat HR-A/B.				response to stress	nucleus	sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		ATCTTGTGGCGGGAGGTGGTG	0.632													5	12					0	0	0.001168	0	0		A	67200243	A	A	67200243	3	1	76	1	0	0	0	0	1	0	0	0	7414	1116	39	1	524	1	HSF4	16	67200243	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	281136	67200243	23154510	681	49531											
EXOC3L	283849	broad.mit.edu	37	chr16	67219046	67219046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccccaacccacctgaaccGtggggttccgcacgcgccag	7	5	10	19	4	0	1	0	1	0	0	2	1	2	1	7	2	2	2	7	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:67219046G>A	uc002erx.1	-	11	1983	c.1742C>T	c.(1741-1743)ACG>ATG	p.T581M	KIAA0895L_uc002ert.2_5'Flank|KIAA0895L_uc002eru.2_5'Flank|EXOC3L_uc002erv.1_RNA|EXOC3L_uc002erw.1_Missense_Mutation_p.T232M|EXOC3L_uc002ery.1_Missense_Mutation_p.T483M|EXOC3L_uc010vje.1_Missense_Mutation_p.T478M	NM_178516	NP_848611	Q86VI1	EX3L1_HUMAN	exocyst complex component 3-like	581					exocytosis|peptide hormone secretion	exocyst|stored secretory granule|transport vesicle					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0021)|Epithelial(162;0.0073)|all cancers(182;0.0616)		CACCTGAACCGTGGGGTTCCG	0.677													29	88					0	0	0.00632	0	0		A	67219046	A	A	67219046	3	1	76	1	0	0	0	0	1	0	0	0	5312	1145	40	1	514	1	EXOC3L	16	67219046	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	18803	67219046	23135707	682	49532											
CENPT	80152	broad.mit.edu	37	chr16	67862748	67862748	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggctctgaagataagcTgagggcaacagtggacagag	13	6	15	7	0	1	4	0	2	1	2	1	5	1	5	0	3	3	4	0	3	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:67862748T>G	uc002eun.3	-	14	1830	c.1281_splice	c.e14-1	p.V427_splice	CENPT_uc002eum.3_Splice_Site_p.V372_splice|CENPT_uc010vkc.1_Splice_Site_p.V185_splice|CENPT_uc010vkd.1_Splice_Site_p.V180_splice	NM_025082	NP_079358	Q96BT3	CENPT_HUMAN	centromere protein T						mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleus	DNA binding				0		Acute lymphoblastic leukemia(13;0.000299)|all_hematologic(13;0.0184)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00429)|Epithelial(162;0.019)|all cancers(182;0.124)		GAAGATAAGCTGAGGGCAACA	0.622													10	87					0	0	0.006214	0	0		G	67862748	G	G	67862748	5	3	76	1	0	0	0	0	0	0	1	0	3245	1594	55	5	418	5	CENPT	16	67862748	Splice_Site	SNP	T	TCGA-BR-8382-01A-11D-2394-08	643702	67862748	22492005	683	49533											
COG8	84342	broad.mit.edu	37	chr16	69369001	69369001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatatcaaagagatggacaCgggaggcctcgatggttttt	11	11	13	6	2	1	2	1	1	0	1	2	6	1	4	1	4	0	1	1	4	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:69369001C>T	uc002ewy.2	-	3	907	c.836G>A	c.(835-837)CGT>CAT	p.R279H	COG8_uc002ewz.3_Missense_Mutation_p.R279H	NM_032382	NP_115758	Q96MW5	COG8_HUMAN	component of oligomeric golgi complex 8	279					protein transport	Golgi membrane|Golgi transport complex				ovary(1)	1						GAGATGGACACGGGAGGCCTC	0.517													9	39					0	0	0.004482	0	0		T	69369001	T	T	69369001	3	4	76	1	0	0	0	0	1	0	0	0	3667	536	19	1	1014	1	COG8	16	69369001	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1506253	69369001	20985752	684	49534											
NFAT5	10725	broad.mit.edu	37	chr16	69660352	69660352	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagttacagttacctccatcTagagaaacatctgtagcatc	13	11	7	10	0	2	1	0	0	2	1	4	3	3	1	2	0	4	4	2	0	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:69660352T>C	uc002exm.1	+	2	1328	c.120T>C	c.(118-120)TCT>TCC	p.S40S	NFAT5_uc002exh.1_5'UTR|NFAT5_uc002exi.2_5'UTR|NFAT5_uc002exj.1_5'UTR|NFAT5_uc002exk.1_5'UTR|NFAT5_uc002exl.1_Silent_p.S58S|NFAT5_uc002exn.1_Silent_p.S58S	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	40					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						TACCTCCATCTAGAGAAACAT	0.443													11	34					0	0	0.008291	0	0		C	69660352	C	C	69660352	2	2	76	1	0	0	0	0	0	0	0	1	10379	1509	53	3		3	NFAT5	16	69660352	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	291351	69660352	20694401	685	49535											
WWP2	11060	broad.mit.edu	37	chr16	69942710	69942710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtgtctattatgttgacCacaataccaagaccaccacc	13	9	6	13	1	1	2	0	1	1	1	1	3	1	2	5	0	1	1	5	0	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:69942710C>T	uc002exu.1	+	10	1050	c.961C>T	c.(961-963)CAC>TAC	p.H321Y	WWP2_uc002ext.2_Missense_Mutation_p.H321Y|WWP2_uc002exv.1_Missense_Mutation_p.H321Y|WWP2_uc010vlm.1_Missense_Mutation_p.H205Y	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	321	WW 1.				entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						TTATGTTGACCACAATACCAA	0.522													21	91					0	0	0.002299	0	0		T	69942710	T	T	69942710	3	4	76	1	0	0	0	0	1	0	0	0	17442	594	21	4	991	4	WWP2	16	69942710	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	282358	69942710	20412043	686	49536											
CLEC18A	348174	broad.mit.edu	37	chr16	69988310	69988310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccccaaccccgagcctggCgtccggcctgtggcgcaccc	6	4	11	20	4	0	0	0	0	0	0	1	1	1	0	8	3	3	1	8	3	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:69988310C>T	uc010vlo.1	+	4	410	c.290C>T	c.(289-291)GCG>GTG	p.A97V	CLEC18C_uc002exy.2_Missense_Mutation_p.A97V|CLEC18A_uc002exz.2_Missense_Mutation_p.A97V|CLEC18A_uc002eya.2_Missense_Mutation_p.A97V|CLEC18A_uc010vlp.1_Missense_Mutation_p.A97V	NM_001136214	NP_001129686	A5D8T8	CL18A_HUMAN	secretory protein LOC348174 precursor	97	SCP.					extracellular region	sugar binding				0						CCGAGCCTGGCGTCCGGCCTG	0.637													7	67					0	0	0.00308	0	0		T	69988310	T	T	69988310	3	4	76	1	0	0	0	0	1	0	0	0	3505	768	27	1	300	1	CLEC18A	16	69988310	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	45600	69988310	20366443	687	49537											
MARVELD3	91862	broad.mit.edu	37	chr16	71668202	71668202	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcaccagcttggggggCatttactactatcagttcgg	8	11	12	10	1	2	0	2	0	0	0	3	0	2	0	1	5	3	4	1	5	3	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:71668202C>T	uc002fat.2	+	3	765	c.702C>T	c.(700-702)GGC>GGT	p.G234G	MARVELD3_uc002fau.2_Intron|MARVELD3_uc010cge.2_Intron	NM_052858	NP_443090	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 2	234	MARVEL.|Helical; (Potential).					integral to membrane				skin(1)	1		Ovarian(137;0.125)				GCTTGGGGGGCATTTACTACT	0.557													27	137					0	0	0.008361	0	0		T	71668202	T	T	71668202	2	4	76	1	0	0	0	0	0	0	0	1	9337	697	25	2		2	MARVELD3	16	71668202	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1679892	71668202	18686551	688	49538											
ZFHX3	463	broad.mit.edu	37	chr16	72827613	72827613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attctggaaccagacctgaaCgactctctttggcagtccaa	11	10	8	12	1	2	2	0	1	2	1	4	4	3	3	3	2	2	1	3	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:72827613C>T	uc002fck.2	-	9	9641	c.8968G>A	c.(8968-8970)GTT>ATT	p.V2990I	ZFHX3_uc002fcl.2_Missense_Mutation_p.V2076I	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2990	Homeobox 4.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CAGACCTGAACGACTCTCTTT	0.473													24	96					0	0	0.00333	0	0		T	72827613	T	T	72827613	3	4	76	1	0	0	0	0	1	0	0	0	17659	536	19	1	2151	1	ZFHX3	16	72827613	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1159411	72827613	17527140	689	49539											
GLG1	2734	broad.mit.edu	37	chr16	74525092	74525092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccagcatctccccctggCactcactgctgacttgtcgc	7	10	7	17	1	2	1	1	1	1	0	5	1	3	1	3	1	2	3	3	1	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:74525092C>T	uc002fcy.3	-	8	1306	c.1256G>A	c.(1255-1257)TGC>TAC	p.C419Y	GLG1_uc002fcx.2_Missense_Mutation_p.C419Y|GLG1_uc002fcw.3_Missense_Mutation_p.C408Y|GLG1_uc002fcz.3_Intron	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	419	Extracellular (Potential).|Cys-rich GLG1 6.					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						CTCCCCCTGGCACTCACTGCT	0.458													19	105					0	0	0.001882	0	0		T	74525092	T	T	74525092	3	4	76	1	0	0	0	0	1	0	0	0	6451	710	25	2	2439	2	GLG1	16	74525092	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1697479	74525092	15829661	690	49540											
ADAMTS18	170692	broad.mit.edu	37	chr16	77317937	77317937	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctgaggaactaggtgacaCcagttgaagaaatctacgca	14	8	11	8	1	1	4	0	3	1	1	1	5	1	5	1	2	3	3	1	2	5	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:77317937C>A	uc002ffc.3	-	23	4001	c.3582G>T	c.(3580-3582)TGG>TGT	p.W1194C		NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1194	PLAC.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						CTAGGTGACACCAGTTGAAGA	0.388													14	61					1.3612e-06	1.44998e-06	0.003163	1	0		A	77317937	A	A	77317937	3	1	76	1	0	0	0	0	1	0	0	0	263	508	18	5	87	5	ADAMTS18	16	77317937	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2792845	77317937	13036816	691	49541											
PKD1L2	114780	broad.mit.edu	37	chr16	81145850	81145850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcacggcgtagggctgccGtgatcatgttcattttggga	7	11	15	8	3	2	1	2	1	0	0	2	2	2	2	1	4	1	4	1	4	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:81145850G>A	uc002fgh.1	-	42	6902	c.6902C>T	c.(6901-6903)ACG>ATG	p.T2301M	PKD1L2_uc002fgf.1_Missense_Mutation_p.T101M|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	2301	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TAGGGCTGCCGTGATCATGTT	0.532													29	149					0	0	0.007291	0	0		A	81145850	A	A	81145850	3	1	76	1	0	0	0	0	1	0	0	0	11984	1145	40	1	493	1	PKD1L2	16	81145850	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3827913	81145850	9208903	692	49542											
PKD1L2	114780	broad.mit.edu	37	chr16	81161488	81161488	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggtactgccattactgAgggtggtggcattccagcct	6	12	12	11	0	1	1	0	1	1	0	2	1	2	1	3	4	4	2	3	4	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:81161488A>C	uc002fgh.1	-	37	6227	c.6227T>G	c.(6226-6228)CTC>CGC	p.L2076R	PKD1L2_uc002fgf.1_5'UTR|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	2076	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GCCATTACTGAGGGTGGTGGC	0.587													8	31					0	0	0.004482	0	0		C	81161488	C	C	81161488	3	2	76	1	0	0	0	0	1	0	0	0	11984	304	11	5	1183	5	PKD1L2	16	81161488	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	15638	81161488	9193265	693	49543											
PLCG2	5336	broad.mit.edu	37	chr16	81969978	81969978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcactcaatttccagaCggcaggtaaaggccgactga	11	7	13	10	2	1	2	1	1	0	1	2	3	2	2	2	5	0	3	2	5	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr16:81969978C>T	uc002fgt.2	+	27	3199	c.3047C>T	c.(3046-3048)ACG>ATG	p.T1016M		NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	1016	PI-PLC Y-box.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						AATTTCCAGACGGCAGGTAAA	0.577													4	48					0	0	0.000602	0	0		T	81969978	T	T	81969978	3	4	76	1	0	0	0	0	1	0	0	0	12055	536	19	1	3149	1	PLCG2	16	81969978	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	808490	81969978	8384775	694	49544											
MYO1C	4641	broad.mit.edu	37	chr17	1386933	1386933	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacttcatagaagctgacGccacggtaacgctccatatg	11	8	10	12	3	1	2	1	1	0	1	2	2	2	2	2	2	2	4	2	2	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:1386933G>A	uc002fsp.2	-	3	538	c.318C>T	c.(316-318)GGC>GGT	p.G106G	MYO1C_uc002fsn.2_Silent_p.G87G|MYO1C_uc002fso.2_Silent_p.G71G|MYO1C_uc010vqj.1_Silent_p.G71G|MYO1C_uc010vqk.1_Silent_p.G82G	NM_001080779	NP_001074248	O00159	MYO1C_HUMAN	myosin IC isoform a	106	Myosin head-like.				mRNA transport|protein transport|transmembrane transport	basal plasma membrane|cytoplasm|filamentous actin|lateral plasma membrane|nuclear pore|nucleolus|nucleoplasm|stereocilium membrane	actin binding|ATP binding|calmodulin binding|motor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		AGAAGCTGACGCCACGGTAAC	0.627													4	13					0	0	0.009096	0	0		A	1386933	A	A	1386933	2	1	76	1	0	0	0	0	0	0	0	1	10088	1074	38	1		1	MYO1C	17	1386933	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08		1386933	79808277	695	49545											
SCARF1	8578	broad.mit.edu	37	chr17	1548908	1548908	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgctggccacacagacGtgctgccctttggggtccag	6	8	12	15	1	0	1	0	0	0	1	1	1	1	1	4	3	3	2	4	3	0	1	rs143791504	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:1548908G>A	uc002fsz.1	-	1	134	c.84C>T	c.(82-84)CAC>CAT	p.H28H	SCARF1_uc002fsy.1_Silent_p.H28H|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Silent_p.H28H	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	28	Extracellular (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CCACACAGACGTGCTGCCCTT	0.677													8	19					0	0	0.004482	0	0		A	1548908	A	A	1548908	2	1	76	1	0	0	0	0	0	0	0	1	13908	1136	40	1		1	SCARF1	17	1548908	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	161975	1548908	79646302	696	49546											
TSR1	55720	broad.mit.edu	37	chr17	2234242	2234242	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaaggaggatagataccTcagctccttcaacctctttt	12	11	7	11	0	3	1	2	0	1	1	4	4	4	3	3	2	4	1	3	2	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:2234242T>C	uc002fuj.2	-	9	2615	c.1658A>G	c.(1657-1659)GAG>GGG	p.E553G	SNORD91B_uc002fuk.1_5'Flank|SNORD91A_uc002ful.1_5'Flank	NM_018128	NP_060598	Q2NL82	TSR1_HUMAN	TSR1, 20S rRNA accumulation	553					ribosome assembly	nucleolus	protein binding			ovary(1)	1						GATAGATACCTCAGCTCCTTC	0.378													13	39					0	0	0.001855	0	0		C	2234242	C	C	2234242	3	2	76	1	0	0	0	0	1	0	0	0	16690	1565	54	3	784	3	TSR1	17	2234242	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	685334	2234242	78960968	697	49547											
BCL6B	255877	broad.mit.edu	37	chr17	6930865	6930865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggcacaagagtcaactgcGgctgcatctgcgccagaaac	11	5	11	14	3	2	2	1	0	1	2	2	2	2	2	2	2	5	3	2	2	3	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:6930865G>A	uc002geg.2	+	9	1424	c.1367G>A	c.(1366-1368)CGG>CAG	p.R456Q	BCL6B_uc010clt.1_Missense_Mutation_p.R457Q	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	456	C2H2-type 5.					nucleus	zinc ion binding			skin(1)	1						AGTCAACTGCGGCTGCATCTG	0.607													20	69					0	0	0.008871	0	0		A	6930865	A	A	6930865	3	1	76	1	0	0	0	0	1	0	0	0	1378	1116	39	1	1397	1	BCL6B	17	6930865	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	4696623	6930865	74264345	698	49548											
PHF23	79142	broad.mit.edu	37	chr17	7140781	7140781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatcctcaattgttctccGccgtttctctggtggctgaa	7	14	9	11	2	3	1	1	1	2	0	6	2	4	1	3	2	0	3	3	2	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:7140781G>A	uc002gfa.2	-	3	309	c.82C>T	c.(82-84)CGG>TGG	p.R28W	DVL2_uc002gez.1_5'Flank|DVL2_uc010vtr.1_5'Flank|DVL2_uc010clz.1_5'Flank|PHF23_uc010vtt.1_Missense_Mutation_p.R28W|PHF23_uc010cma.2_5'UTR	NM_024297	NP_077273	Q9BUL5	PHF23_HUMAN	PHD finger protein 23	28							zinc ion binding				0						ATTGTTCTCCGCCGTTTCTCT	0.448													16	72					0	0	0.006122	0	0		A	7140781	A	A	7140781	3	1	76	1	0	0	0	0	1	0	0	0	11854	1086	38	1	1141	1	PHF23	17	7140781	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	209916	7140781	74054429	699	49549											
C17orf74	201243	broad.mit.edu	37	chr17	7329699	7329699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcgtcgccgccgccgccGccaccgccgttgtcgccgtc	1	8	12	20	10	0	0	0	0	0	0	4	0	0	0	8	0	0	2	8	0	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:7329699G>A	uc002ggw.2	+	3	462	c.389G>A	c.(388-390)CGC>CAC	p.R130H	FGF11_uc010vtw.1_Intron	NM_175734	NP_783861	Q0P670	CQ074_HUMAN	hypothetical protein LOC201243	130	Arg-rich.					integral to membrane					0		Prostate(122;0.157)				cgccgccgccgccaccgccgt	0.418													25	124					0	0	0.00333	0	0		A	7329699	A	A	7329699	3	1	76	1	0	0	0	0	1	0	0	0	1882	1087	38	1	399	1	C17orf74	17	7329699	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	188918	7329699	73865511	700	49550											
TMEM102	284114	broad.mit.edu	37	chr17	7339811	7339811	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccagtcccaggagcacgTgattcgatccaccgaacgga	10	5	10	16	4	0	1	0	1	0	0	3	5	2	3	5	2	2	1	5	2	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:7339811T>C	uc002ggx.1	+	3	786	c.513T>C	c.(511-513)CGT>CGC	p.R171R	FGF11_uc010vtw.1_Intron|TMEM102_uc002ggy.1_Silent_p.R171R	NM_178518	NP_848613	Q8N9M5	TM102_HUMAN	transmembrane protein 102	171	Extracellular (Potential).				regulation of apoptosis|response to cytokine stimulus|signal transduction	cell surface|integral to membrane|intracellular	protein binding				0		Prostate(122;0.173)				CAGGAGCACGTGATTCGATCC	0.592													12	65					0	0	0.001368	0	0		C	7339811	C	C	7339811	2	2	76	1	0	0	0	0	0	0	0	1	16042	1683	59	3		3	TMEM102	17	7339811	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	10112	7339811	73855399	701	49551											
KDM6B	23135	broad.mit.edu	37	chr17	7756403	7756403	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaatcgcttaccagggcCgtgtcaaggacgagccagcc	12	5	12	12	3	1	1	1	0	0	1	2	3	1	2	4	2	3	1	4	2	4	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:7756403C>A	uc002giw.1	+	21	5072	c.4696C>A	c.(4696-4698)CGT>AGT	p.R1566S	KDM6B_uc002gix.2_Missense_Mutation_p.R868S|TMEM88_uc002giy.2_5'Flank	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	1566					inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						TTACCAGGGCCGTGTCAAGGA	0.637													10	39					1.08611e-07	1.17082e-07	0.000978	1	0		A	7756403	A	A	7756403	3	1	76	1	0	0	0	0	1	0	0	0	8154	652	23	5	4766	5	KDM6B	17	7756403	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	416592	7756403	73438807	702	49552											
CHD3	1107	broad.mit.edu	37	chr17	7813796	7813796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgaaggcggacgtgaccCgcctgccagccacgctgtcc	8	5	12	16	4	0	2	0	2	0	0	1	3	1	3	5	2	2	1	5	2	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:7813796C>T	uc002gje.2	+	38	5791	c.5641C>T	c.(5641-5643)CGC>TGC	p.R1881C	CHD3_uc002gjd.2_Missense_Mutation_p.R1940C|CHD3_uc002gjf.2_Missense_Mutation_p.R1847C|CHD3_uc002gjh.2_Missense_Mutation_p.R458C|CHD3_uc002gjj.2_Missense_Mutation_p.R44C	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1881	Required for interaction with PCNT.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GGACGTGACCCGCCTGCCAGC	0.567													13	90					0	0	0.001855	0	0		T	7813796	T	T	7813796	3	4	76	1	0	0	0	0	1	0	0	0	3329	652	23	1	6072	1	CHD3	17	7813796	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	57393	7813796	73381414	703	49553											
GUCY2D	3000	broad.mit.edu	37	chr17	7915595	7915595	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacgcggggctctcttcAggacctcctcgctcagagag	6	8	12	15	3	3	1	2	0	1	1	6	3	4	2	2	3	1	3	2	3	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:7915595A>G	uc002gjt.2	+	9	1957	c.1883A>G	c.(1882-1884)CAG>CGG	p.Q628R		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	628	Protein kinase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				GGCTCTCTTCAGGACCTCCTC	0.612													12	78					0	0	0.000978	0	0		G	7915595	G	G	7915595	3	3	76	1	0	0	0	0	1	0	0	0	6913	188	7	3	1913	3	GUCY2D	17	7915595	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	101799	7915595	73279615	704	49554											
PER1	5187	broad.mit.edu	37	chr17	8047100	8047100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtgagacatagcagggCgcttcagcccgagggttctg	7	8	17	9	2	2	1	1	1	1	1	2	3	2	1	1	3	2	3	1	3	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:8047100C>T	uc002gkd.2	-	19	2794	c.2556G>A	c.(2554-2556)GCG>GCA	p.A852A	PER1_uc010cns.2_5'Flank|PER1_uc010vuq.1_Intron	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	852	Pro-rich.				circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						CATAGCAGGGCGCTTCAGCCC	0.697			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					9	38					0	0	0.006214	0	0		T	8047100	T	T	8047100	2	4	76	1	0	0	0	0	0	0	0	1	11748	755	27	1		1	PER1	17	8047100	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	131505	8047100	73148110	705	49555											
ARHGEF15	22899	broad.mit.edu	37	chr17	8221918	8221918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcagcgctgaggtggggCgcatgaagcagactgaagag	10	6	18	7	2	0	5	0	3	0	2	0	5	0	5	0	3	3	5	0	3	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:8221918C>T	uc002glc.2	+	11	1931	c.1810C>T	c.(1810-1812)CGC>TGC	p.R604C	ARHGEF15_uc002gld.2_Missense_Mutation_p.R604C|ARHGEF15_uc010vuw.1_Missense_Mutation_p.R493C	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	604					negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						TGAGGTGGGGCGCATGAAGCA	0.617													14	59					0	0	0.001855	0	0		T	8221918	T	T	8221918	3	4	76	1	0	0	0	0	1	0	0	0	898	768	27	1	1848	1	ARHGEF15	17	8221918	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	174818	8221918	72973292	706	49556											
DNAH9	1770	broad.mit.edu	37	chr17	11650994	11650994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatcagatcatgaaacggcGccccgtctggactgacctca	10	8	9	14	3	4	3	3	2	1	1	4	4	4	4	3	2	1	0	3	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:11650994G>A	uc002gne.2	+	32	6589	c.6521G>A	c.(6520-6522)CGC>CAC	p.R2174H	DNAH9_uc010coo.2_Missense_Mutation_p.R1468H	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2174	AAA 2 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		ATGAAACGGCGCCCCGTCTGG	0.542													21	78					0	0	0.00278	0	0		A	11650994	A	A	11650994	3	1	76	1	0	0	0	0	1	0	0	0	4614	1087	38	1	6647	1	DNAH9	17	11650994	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3429076	11650994	69544216	707	49557											
TRIM16	10626	broad.mit.edu	37	chr17	15534998	15534998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatatttgcgctgaacaacgGcagacacttgagttctgatg	12	11	10	8	2	1	4	0	3	1	1	1	4	1	4	0	1	3	3	0	1	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:15534998G>A	uc002gox.2	-	8	1603	c.1046C>T	c.(1045-1047)GCC>GTC	p.A349V	TRIM16_uc002gor.1_Missense_Mutation_p.A349V|TRIM16_uc002gow.2_Missense_Mutation_p.A133V|TRIM16_uc002goy.2_Missense_Mutation_p.A219V	NM_006470	NP_006461	O95361	TRI16_HUMAN	tripartite motif-containing 16	349					histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		CTGAACAACGGCAGACACTTG	0.483													8	58					0	0	0.00308	0	0		A	15534998	A	A	15534998	3	1	76	1	0	0	0	0	1	0	0	0	16517	1203	42	2	656	2	TRIM16	17	15534998	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3884004	15534998	65660212	708	49558											
SMCR7	125170	broad.mit.edu	37	chr17	18166044	18166044	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggcagaccatggcagagTtctcccagaaacgggggaag	13	4	14	10	1	1	3	0	0	1	3	2	4	1	4	2	4	1	3	2	4	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:18166044T>C	uc002gst.2	+	2	221	c.10T>C	c.(10-12)TTC>CTC	p.F4L	SMCR7_uc002gsu.2_Missense_Mutation_p.F4L|SMCR7_uc010vxq.1_Missense_Mutation_p.F15L	NM_139162	NP_631901	Q96C03	SMCR7_HUMAN	Smith-Magenis syndrome chromosome region,	4						integral to membrane	protein binding				0	all_neural(463;0.228)					CATGGCAGAGTTCTCCCAGAA	0.672													10	27					0	0	0.006214	0	0		C	18166044	C	C	18166044	3	2	76	1	0	0	0	0	1	0	0	0	14815	1725	60	3	49	3	SMCR7	17	18166044	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2631046	18166044	63029166	709	49559											
MAPK7	5598	broad.mit.edu	37	chr17	19286450	19286450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgactggctcgaaggccatgGcatgaaccctgccgatattg	9	9	12	11	2	0	2	0	2	0	0	1	4	0	2	3	3	2	2	3	3	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:19286450G>A	uc002gvn.2	+	7	2743	c.2357G>A	c.(2356-2358)GGC>GAC	p.G786D	MAPK7_uc002gvo.2_Missense_Mutation_p.G647D|MAPK7_uc002gvq.2_Missense_Mutation_p.G786D|MAPK7_uc002gvp.2_Missense_Mutation_p.G786D|uc010vyt.1_5'Flank	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	786	May not be required for kinase activity; required to stimulate MEF2C activity (By similarity).				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					GAAGGCCATGGCATGAACCCT	0.612													18	77					0	0	0.007413	0	0		A	19286450	A	A	19286450	3	1	76	1	0	0	0	0	1	0	0	0	9300	1203	42	2	2379	2	MAPK7	17	19286450	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1120406	19286450	61908760	710	49560											
KIAA0100	9703	broad.mit.edu	37	chr17	26958685	26958685	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaatcagagataaggcgccGcatcactgtgcctgctgaga	11	7	11	12	2	2	2	2	1	0	2	2	4	2	2	3	1	2	2	3	1	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:26958685G>A	uc002hbu.2	-	23	4210	c.4111C>T	c.(4111-4113)CGG>TGG	p.R1371W		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	1371						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					ATAAGGCGCCGCATCACTGTG	0.512													7	36					0	0	0.001984	0	0		A	26958685	A	A	26958685	3	1	76	1	0	0	0	0	1	0	0	0	8170	1086	38	1	2664	1	KIAA0100	17	26958685	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	7672235	26958685	54236525	711	49561											
SUPT6H	6830	broad.mit.edu	37	chr17	27000493	27000493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaggcgaggtggtaccccGagtcaccaagaaatttgtgg	11	8	14	8	2	1	2	1	1	0	1	1	4	1	2	3	4	1	1	3	4	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:27000493G>A	uc002hby.2	+	2	164	c.74G>A	c.(73-75)CGA>CAA	p.R25Q	SUPT6H_uc010crt.2_Missense_Mutation_p.R25Q	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	25	Asp/Glu-rich.				chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					GTGGTACCCCGAGTCACCAAG	0.502													4	33					0	0	0.009096	0	0		A	27000493	A	A	27000493	3	1	76	1	0	0	0	0	1	0	0	0	15425	1058	37	1	76	1	SUPT6H	17	27000493	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	41808	27000493	54194717	712	49562											
C17orf63	55731	broad.mit.edu	37	chr17	27086626	27086626	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaccgggctcgggtgccGtcaaagtccttgagtatgct	8	9	13	11	3	1	1	1	1	0	0	3	1	2	1	3	2	4	4	3	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:27086626G>A	uc002hct.1	-	3	618	c.351C>T	c.(349-351)GAC>GAT	p.D117D	C17orf63_uc010wax.1_Silent_p.D117D|C17orf63_uc010way.1_Silent_p.D117D|C17orf63_uc002hcw.2_Translation_Start_Site	NM_018182	NP_060652	Q8WU58	CQ063_HUMAN	hypothetical protein LOC55731	117										ovary(1)	1	all_epithelial(6;5.06e-20)|Lung NSC(42;0.01)		Epithelial(11;3.38e-06)|all cancers(11;2.46e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.104)			CTCGGGTGCCGTCAAAGTCCT	0.627													3	19					0	0	0.004672	0	0		A	27086626	A	A	27086626	2	1	76	1	0	0	0	0	0	0	0	1	1874	1136	40	1		1	C17orf63	17	27086626	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	86133	27086626	54108584	713	49563											
SSH2	85464	broad.mit.edu	37	chr17	27957928	27957928	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttttcagtctcctaaggggGtgagttctgccgtgttgctg	4	16	13	8	1	3	1	1	1	2	0	4	1	3	1	2	2	2	3	2	2	1	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:27957928G>A	uc002heo.1	-	15	4203	c.4203C>T	c.(4201-4203)CAC>CAT	p.H1401H	SSH2_uc010wbh.1_Silent_p.H1428H	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1401					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TCCTAAGGGGGTGAGTTCTGC	0.537													46	143					0	0	0.00361	0	0		A	27957928	A	A	27957928	2	1	76	1	0	0	0	0	0	0	0	1	15210	1252	44	4		4	SSH2	17	27957928	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	871302	27957928	53237282	714	49564											
NF1	4763	broad.mit.edu	37	chr17	29576057	29576057	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacctccttcagatgactGaaaagttcttccatgccatc	11	11	7	12	0	2	3	1	2	1	1	5	4	4	4	4	1	2	1	4	1	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:29576057G>T	uc002hgg.2	+	30	4363	c.4030G>T	c.(4030-4032)GAA>TAA	p.E1344*	NF1_uc002hgh.2_Nonsense_Mutation_p.E1344*|NF1_uc010csn.1_Nonsense_Mutation_p.E1204*|NF1_uc002hgi.1_Nonsense_Mutation_p.E377*	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	1344	Ras-GAP.				actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TCAGATGACTGAAAAGTTCTT	0.398			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			16	76					1.02788e-11	1.14233e-11	0.00499	1	0		T	29576057	T	T	29576057	4	4	76	1	0	0	0	0	0	1	0	0	10375	1291	45	5	4209	5	NF1	17	29576057	Nonsense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1618129	29576057	51619153	715	49565											
MYO1D	4642	broad.mit.edu	37	chr17	30821885	30821885	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgcacttcttcccgtgcagGctgcactgtactgggttggt	4	13	13	11	1	1	0	0	0	1	0	2	0	2	0	1	3	4	6	1	3	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:30821885G>A	uc002hho.1	-	22	2925	c.2913C>T	c.(2911-2913)AGC>AGT	p.S971S		NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	971						myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			TCCCGTGCAGGCTGCACTGTA	0.597													8	38					0	0	0.006214	0	0		A	30821885	A	A	30821885	2	1	76	1	0	0	0	0	0	0	0	1	10089	1194	42	2		2	MYO1D	17	30821885	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1245828	30821885	50373325	716	49566											
PSMD3	5709	broad.mit.edu	37	chr17	38151523	38151523	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acctacaccctaattatccgGctgcggcacaacgtgattaa	12	9	7	13	3	0	1	0	1	0	0	1	1	1	1	3	2	3	2	3	2	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:38151523G>A	uc002htn.1	+	8	1355	c.1191G>A	c.(1189-1191)CGG>CGA	p.R397R	PSMD3_uc010wen.1_RNA|PSMD3_uc010weo.1_Silent_p.R298R	NM_002809	NP_002800	O43242	PSMD3_HUMAN	proteasome 26S non-ATPase subunit 3	397	PCI.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	enzyme regulator activity|protein binding			ovary(1)|pancreas(1)	2	Colorectal(19;0.000442)					TAATTATCCGGCTGCGGCACA	0.547													28	151					0	0	0.004656	0	0		A	38151523	A	A	38151523	2	1	76	1	0	0	0	0	0	0	0	1	12721	1190	42	2		2	PSMD3	17	38151523	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	7329638	38151523	43043687	717	49567											
KRT23	25984	broad.mit.edu	37	chr17	39092549	39092549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgccatttcaggatgcGgctttccagcttcatgttgg	5	14	12	10	1	2	0	2	0	0	0	3	1	3	1	2	4	3	3	2	4	0	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:39092549G>A	uc002hvm.1	-	2	896	c.307C>T	c.(307-309)CGC>TGC	p.R103C	KRT23_uc010wfl.1_Intron|KRT23_uc010cxf.1_Intron|KRT23_uc010cxg.2_Missense_Mutation_p.R103C|KRT23_uc002hvn.1_Missense_Mutation_p.R103C	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	103	Rod.|Coil 1A.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				TTCAGGATGCGGCTTTCCAGC	0.542													22	110					0	0	0.001882	0	0		A	39092549	A	A	39092549	3	1	76	1	0	0	0	0	1	0	0	0	8476	1116	39	1	993	1	KRT23	17	39092549	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	941026	39092549	42102661	718	49568											
KRT23	25984	broad.mit.edu	37	chr17	39092832	39092832	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaggaggccgagggggtctgGctgaagctgtgtccggagtt	7	8	19	7	2	1	1	0	1	1	0	2	4	2	3	2	6	1	3	2	6	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:39092832G>A	uc002hvm.1	-	2	613	c.24C>T	c.(22-24)AGC>AGT	p.S8S	KRT23_uc010wfl.1_Intron|KRT23_uc010cxf.1_Intron|KRT23_uc010cxg.2_Silent_p.S8S|KRT23_uc002hvn.1_Silent_p.S8S	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	8	Head.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				AGGGGGTCTGGCTGAAGCTGT	0.701													9	73					0	0	0.006214	0	0		A	39092832	A	A	39092832	2	1	76	1	0	0	0	0	0	0	0	1	8476	1194	42	2		2	KRT23	17	39092832	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	283	39092832	42102378	719	49569											
ATP6V0A1	535	broad.mit.edu	37	chr17	40652943	40652943	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgttgtattctggacaggTacgtcagcccagaggcagac	11	9	12	9	1	2	2	1	0	1	2	2	3	2	3	1	3	2	4	1	3	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:40652943T>C	uc002hzr.2	+	16	2063	c.1896_splice	c.e16+2	p.Q632_splice	ATP6V0A1_uc002hzq.2_Splice_Site_p.Q632_splice|ATP6V0A1_uc002hzs.2_Splice_Site_p.Q639_splice|ATP6V0A1_uc010wgj.1_Splice_Site_p.Q589_splice|ATP6V0A1_uc010wgk.1_Splice_Site_p.Q589_splice|ATP6V0A1_uc010cyg.2_Splice_Site_p.Q278_splice|ATP6V0A1_uc010wgl.1_Splice_Site_p.Q491_splice	NM_001130021	NP_001123493	Q93050	VPP1_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a1						ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytoplasmic vesicle membrane|endosome membrane|Golgi apparatus|integral to membrane|melanosome|nucleus|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1		all_cancers(22;1.18e-05)|Breast(137;0.000105)|all_epithelial(22;0.000254)		BRCA - Breast invasive adenocarcinoma(366;0.137)		TCTGGACAGGTACGTCAGCCC	0.428													21	79					0	0	0.008871	0	0		C	40652943	C	C	40652943	5	2	76	1	0	0	0	0	0	0	1	0	1169	1652	57	3	1977	3	ATP6V0A1	17	40652943	Splice_Site	SNP	T	TCGA-BR-8382-01A-11D-2394-08	1560111	40652943	40542267	720	49570											
TUBG1	7283	broad.mit.edu	37	chr17	40766300	40766300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagcgtgaggaagaccaCggtcctggatgtcatgaggc	9	6	16	10	2	1	3	1	2	0	1	2	5	2	5	3	5	1	0	3	5	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:40766300C>T	uc002ian.2	+	9	1264	c.866C>T	c.(865-867)ACG>ATG	p.T289M		NM_001070	NP_001061	P23258	TBG1_HUMAN	tubulin, gamma 1	289					G2/M transition of mitotic cell cycle|meiotic spindle organization|protein polymerization	condensed nuclear chromosome|cytosol|gamma-tubulin complex|polar microtubule	GTP binding|GTPase activity|protein binding|structural constituent of cytoskeleton			ovary(1)	1		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.129)		AGGAAGACCACGGTCCTGGAT	0.612													18	77					0	0	0.001882	0	0		T	40766300	T	T	40766300	3	4	76	1	0	0	0	0	1	0	0	0	16790	536	19	1	900	1	TUBG1	17	40766300	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	113357	40766300	40428910	721	49571											
ETV4	2118	broad.mit.edu	37	chr17	41606988	41606988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacagctgcagggcaccccGgcgctggtagggcggcccct	5	4	15	17	3	0	0	0	0	0	0	0	0	0	0	5	5	2	5	5	5	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:41606988G>A	uc002idw.2	-	11	1140	c.1012C>T	c.(1012-1014)CGG>TGG	p.R338W	ETV4_uc002idv.2_Missense_Mutation_p.R61W|ETV4_uc010wih.1_Missense_Mutation_p.R284W|ETV4_uc010czh.2_Missense_Mutation_p.R337W|ETV4_uc010wii.1_Missense_Mutation_p.R299W|ETV4_uc002idx.2_Missense_Mutation_p.R338W|ETV4_uc010wij.1_Missense_Mutation_p.R299W	NM_001986	NP_001977	P43268	ETV4_HUMAN	ets variant gene 4 (E1A enhancer binding	338					positive regulation of transcription, DNA-dependent	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/ETV4(6)	bone(4)|soft_tissue(2)|ovary(1)	7		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.0798)		AGGGCACCCCGGCGCTGGTAG	0.582			T	EWSR1|TMPRSS2|DDX5|KLK2|CANT1	Ewing sarcoma|Prostate carcinoma								22	113					0	0	0.00333	0	0		A	41606988	A	A	41606988	3	1	76	1	0	0	0	0	1	0	0	0	5289	1115	39	1	454	1	ETV4	17	41606988	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	840688	41606988	39588222	722	49572											
MEOX1	4222	broad.mit.edu	37	chr17	41719304	41719304	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacttggagaggctgtggAgtccccatcctcagggtcct	7	10	13	11	0	1	2	1	1	0	1	4	4	4	3	4	4	1	1	4	4	1	1	rs78282512		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:41719304A>G	uc002idz.2	-	3	768	c.739T>C	c.(739-741)TCC>CCC	p.S247P	MEOX1_uc002iea.2_3'UTR|MEOX1_uc002ieb.2_Missense_Mutation_p.S132P	NM_004527	NP_004518	P50221	MEOX1_HUMAN	mesenchyme homeobox 1 isoform 1	247						nucleus	sequence-specific DNA binding				0		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.0753)		GAGGCTGTGGAGTCCCCATCC	0.562													14	127					0	0	0.003163	0	0		G	41719304	G	G	41719304	3	3	76	1	0	0	0	0	1	0	0	0	9491	304	11	3	29	3	MEOX1	17	41719304	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	112316	41719304	39475906	723	49573											
NAGS	162417	broad.mit.edu	37	chr17	42082082	42082082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgggcagctgctgtagccccGaggctgagaggccggggagg	6	4	20	11	3	0	1	0	1	0	1	0	4	0	2	3	6	3	5	3	6	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:42082082G>A	uc002ies.2	+	1	51	c.51G>A	c.(49-51)CCG>CCA	p.P17P	PYY_uc002ieq.2_5'Flank|NAGS_uc010czn.2_Silent_p.P17P|NAGS_uc002iet.2_5'Flank	NM_153006	NP_694551	Q8N159	NAGS_HUMAN	N-acetylglutamate synthase	17					arginine biosynthetic process|urea cycle	mitochondrial matrix	acetyl-CoA:L-glutamate N-acetyltransferase activity				0		Breast(137;0.00536)|Prostate(33;0.0724)		BRCA - Breast invasive adenocarcinoma(366;0.113)	L-Glutamic Acid(DB00142)	CTGTAGCCCCGAGGCTGAGAG	0.512													8	16					0	0	0.008291	0	0		A	42082082	A	A	42082082	2	1	76	1	0	0	0	0	0	0	0	1	10163	1045	37	1		1	NAGS	17	42082082	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	362778	42082082	39113128	724	49574											
GPATCH8	23131	broad.mit.edu	37	chr17	42478563	42478563	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacactcccaatttttgcaaTggggtccccagattattctt	9	14	7	11	0	1	1	0	0	1	1	3	2	3	1	3	2	1	1	3	2	3	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:42478563T>C	uc002igw.1	-	8	946	c.882A>G	c.(880-882)CCA>CCG	p.P294P	GPATCH8_uc002igv.1_Silent_p.P216P|GPATCH8_uc010wiz.1_Silent_p.P216P	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	294						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		ATTTTTGCAATGGGGTCCCCA	0.473													24	134					0	0	0.00278	0	0		C	42478563	C	C	42478563	2	2	76	1	0	0	0	0	0	0	0	1	6609	1451	51	3		3	GPATCH8	17	42478563	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	396481	42478563	38716647	725	49575											
KIAA1267	284058	broad.mit.edu	37	chr17	44172020	44172020	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagccagttccagcggctgAcaatagctgcccggtctgca	9	7	12	13	2	1	1	0	1	1	0	2	2	2	1	3	2	5	4	3	2	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:44172020A>G	uc002ikb.2	-	2	1422	c.1337T>C	c.(1336-1338)GTC>GCC	p.V446A	KIAA1267_uc002ikc.2_Missense_Mutation_p.V446A|KIAA1267_uc002ikd.2_Missense_Mutation_p.V446A|KIAA1267_uc010dav.2_Missense_Mutation_p.V446A	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	446						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				CCAGCGGCTGACAATAGCTGC	0.438													25	127					0	0	0.005443	0	0		G	44172020	G	G	44172020	3	3	76	1	0	0	0	0	1	0	0	0	8235	275	10	3	2032	3	KIAA1267	17	44172020	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1693457	44172020	37023190	726	49576											
WNT3	7473	broad.mit.edu	37	chr17	44847252	44847252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactaacacgccgaagtcaGcgtcctcgctgcagccgccc	9	5	9	18	5	1	0	1	0	0	0	3	1	2	0	4	0	4	2	4	0	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:44847252G>A	uc002ikv.2	-	3	604	c.485C>T	c.(484-486)GCT>GTT	p.A162V		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	162					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			GCCGAAGTCAGCGTCCTCGCT	0.677													9	43					0	0	0.006214	0	0		A	44847252	A	A	44847252	3	1	76	1	0	0	0	0	1	0	0	0	17414	971	34	2	590	2	WNT3	17	44847252	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	675232	44847252	36347958	727	49577											
RPRML	388394	broad.mit.edu	37	chr17	45056149	45056149	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaccacggtaagcgacagCacgcagagcacggcgatctg	13	3	13	12	5	1	2	0	0	1	2	1	4	1	2	1	2	3	4	1	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:45056149C>T	uc002ilb.2	-	1	466	c.225G>A	c.(223-225)GTG>GTA	p.V75V	GOSR2_uc010wkh.1_Intron	NM_203400	NP_981945	Q8N4K4	RPRML_HUMAN	reprimo-like	75	Helical; (Potential).					integral to membrane					0						TAAGCGACAGCACGCAGAGCA	0.692													6	24					0	0	0.001984	0	0		T	45056149	T	T	45056149	2	4	76	1	0	0	0	0	0	0	0	1	13644	697	25	2		2	RPRML	17	45056149	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	208897	45056149	36139061	728	49578											
KPNB1	3837	broad.mit.edu	37	chr17	45750473	45750473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccaaggattgttatcctgCtgtccagaaaacgactttgg	10	12	10	9	1	0	1	0	0	0	1	2	3	2	2	3	2	3	2	3	2	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:45750473C>T	uc002ilt.1	+	13	1973	c.1637C>T	c.(1636-1638)GCT>GTT	p.A546V	KPNB1_uc010wkw.1_Missense_Mutation_p.A401V|KPNB1_uc010wkx.1_Missense_Mutation_p.A330V	NM_002265	NP_002256	Q14974	IMB1_HUMAN	karyopherin beta 1	546					DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|protein import into nucleus, translocation|ribosomal protein import into nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein domain specific binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TGTTATCCTGCTGTCCAGAAA	0.463													11	49					0	0	0.001368	0	0		T	45750473	T	T	45750473	3	4	76	1	0	0	0	0	1	0	0	0	8451	797	28	2	1687	2	KPNB1	17	45750473	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	694324	45750473	35444737	729	49579											
HOXB1	3211	broad.mit.edu	37	chr17	46608028	46608028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagcataccccgagggcGcggagctggggaagggcacc	9	2	18	12	3	0	0	0	0	0	0	0	4	0	3	3	6	3	3	3	6	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:46608028G>A	uc002ink.1	-	1	245	c.239C>T	c.(238-240)GCG>GTG	p.A80V		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	80						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCCCGAGGGCGCGGAGCTGGG	0.662													25	94					0	0	0.00333	0	0		A	46608028	A	A	46608028	3	1	76	1	0	0	0	0	1	0	0	0	7315	1087	38	1	674	1	HOXB1	17	46608028	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	857555	46608028	34587182	730	49580											
ANKRD40	91369	broad.mit.edu	37	chr17	48777241	48777241	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatcatcatcatcatcAtcttcttcttccacttaaaa	12	16	0	13	0	10	0	7	0	3	0	11	0	11	0	1	0	0	0	1	0	2	4	rs145395652		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:48777241A>T	uc002iso.2	-	3	552	c.297T>A	c.(295-297)GAT>GAA	p.D99E		NM_052855	NP_443087	Q6AI12	ANR40_HUMAN	ankyrin repeat domain 40	99	Poly-Asp.										0			BRCA - Breast invasive adenocarcinoma(22;2.03e-09)			catcatcatcatcTTCTTCTT	0.358													8	25					0	0	0.00308	0	0		T	48777241	T	T	48777241	3	4	76	1	0	0	0	0	1	0	0	0	669	214	8	5	821	5	ANKRD40	17	48777241	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	2169213	48777241	32417969	731	49581											
CA10	56934	broad.mit.edu	37	chr17	49713241	49713241	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggttatatagacaggtTtgttcattatgatccaactt	10	17	7	7	0	1	2	1	1	0	1	3	2	3	2	2	2	1	3	2	2	5	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:49713241T>G	uc002itw.3	-	7	1750	c.764A>C	c.(763-765)AAA>ACA	p.K255T	CA10_uc002itu.3_Missense_Mutation_p.K184T|CA10_uc002itv.3_Missense_Mutation_p.K261T|CA10_uc002itx.3_Missense_Mutation_p.K255T|CA10_uc002ity.3_Missense_Mutation_p.K255T|CA10_uc002itz.2_Missense_Mutation_p.K255T	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	255					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			ATAGACAGGTTTGTTCATTAT	0.403													6	39					0	0	0.00308	0	0		G	49713241	G	G	49713241	3	3	76	1	0	0	0	0	1	0	0	0	2514	1841	64	5	234	5	CA10	17	49713241	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	936000	49713241	31481969	732	49582											
MRPS23	51649	broad.mit.edu	37	chr17	55917278	55917278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgttcggatttccgggaaaCgtgactacctccgtgttgct	6	13	12	10	4	0	1	0	1	0	0	3	3	2	3	3	2	3	3	3	2	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:55917278C>T	uc002ivc.2	-	5	467	c.439G>A	c.(439-441)GTT>ATT	p.V147I		NM_016070	NP_057154	Q9Y3D9	RT23_HUMAN	mitochondrial ribosomal protein S23	147					translation	intermediate filament cytoskeleton|mitochondrion|nuclear membrane|ribosome	structural constituent of ribosome				0	Breast(9;8.75e-08)					TTCCGGGAAACGTGACTACCT	0.423													12	55					0	0	0.000978	0	0		T	55917278	T	T	55917278	3	4	76	1	0	0	0	0	1	0	0	0	9852	536	19	1	137	1	MRPS23	17	55917278	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	6204037	55917278	25277932	733	49583											
LPO	4025	broad.mit.edu	37	chr17	56324919	56324919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatgccaaaggccggacgcGcacagccatccgcaatggac	11	3	12	15	4	0	0	0	0	0	0	1	2	1	2	4	3	2	3	4	3	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:56324919G>A	uc002ivt.2	+	4	561	c.245G>A	c.(244-246)CGC>CAC	p.R82H	LPO_uc010dco.2_Missense_Mutation_p.R82H|LPO_uc010wnr.1_Intron|LPO_uc010wns.1_Missense_Mutation_p.R23H|LPO_uc010dcp.2_Intron|LPO_uc010dcq.2_5'Flank	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	82					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						GGCCGGACGCGCACAGCCATC	0.567													11	80					0	0	0.008291	0	0		A	56324919	A	A	56324919	3	1	76	1	0	0	0	0	1	0	0	0	8940	1087	38	1	255	1	LPO	17	56324919	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	407641	56324919	24870291	734	49584											
BZRAP1	9256	broad.mit.edu	37	chr17	56382464	56382464	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggttccctgtccaggccGcctgcctcaggcccagggcc	3	7	13	18	1	1	0	1	0	0	0	3	0	3	0	7	4	1	1	7	4	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:56382464G>A	uc002ivx.3	-	30	6373	c.5502C>T	c.(5500-5502)GGC>GGT	p.G1834G	BZRAP1_uc002ivv.2_Silent_p.G64G|BZRAP1_uc002ivw.2_Silent_p.G66G|BZRAP1_uc010dcs.2_Silent_p.G1774G|BZRAP1_uc010wnt.1_Silent_p.G1825G	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	1834						mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGTCCAGGCCGCCTGCCTCAG	0.627													10	61					0	0	0.008291	0	0		A	56382464	A	A	56382464	2	1	76	1	0	0	0	0	0	0	0	1	1580	1074	38	1		1	BZRAP1	17	56382464	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	57545	56382464	24812746	735	49585											
RPS6KB1	6198	broad.mit.edu	37	chr17	58024111	58024111	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaacaagcttttcccatgAtctccaaacggccagagcac	15	7	6	13	1	1	2	0	1	1	1	3	2	2	2	3	1	4	2	3	1	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:58024111A>G	uc002ixy.2	+	15	1643	c.1540A>G	c.(1540-1542)ATC>GTC	p.I514V	RPS6KB1_uc010ddj.1_Intron|RPS6KB1_uc010wom.1_Missense_Mutation_p.I461V|RPS6KB1_uc010won.1_Missense_Mutation_p.I491V|RPS6KB1_uc010woo.1_Missense_Mutation_p.I449V|RPS6KB1_uc002ixz.2_RNA	NM_003161	NP_003152	P23443	KS6B1_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	514	Autoinhibitory domain.				apoptosis|G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|negative regulation of apoptosis|phosphatidylinositol-mediated signaling|positive regulation of mitotic cell cycle|positive regulation of translational initiation|TOR signaling cascade	cell junction|cytoplasm|cytosol|mitochondrial outer membrane|nucleus|nucleus|synapse|synaptosome	ATP binding|protein binding|protein kinase activity			large_intestine(1)	1	all_cancers(5;1.63e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.57e-12)|all cancers(12;6.41e-11)			TTTTCCCATGATCTCCAAACG	0.468													13	78					0	0	0.00245	0	0		G	58024111	G	G	58024111	3	3	76	1	0	0	0	0	1	0	0	0	13681	333	12	3	1598	3	RPS6KB1	17	58024111	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1641647	58024111	23171099	736	49586											
ACE	1636	broad.mit.edu	37	chr17	61557711	61557711	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccccaggcttcacagacacGggggcctactggcgctcctg	6	6	12	17	2	1	1	1	0	0	1	2	1	2	1	4	4	1	2	4	4	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:61557711G>A	uc002jau.1	+	5	691	c.669G>A	c.(667-669)ACG>ACA	p.T223T	ACE_uc010wpi.1_Silent_p.T223T|ACE_uc010ddu.1_Silent_p.T40T	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	223	Extracellular (Potential).|Peptidase M2 1.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	TCACAGACACGGGGGCCTACT	0.612													8	70					0	0	0.006214	0	0		A	61557711	A	A	61557711	2	1	76	1	0	0	0	0	0	0	0	1	136	1103	39	1		1	ACE	17	61557711	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3533600	61557711	19637499	737	49587											
ERN1	2081	broad.mit.edu	37	chr17	62131738	62131738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagctggacctcacggtctgCgaagctaaaacactcgggga	11	6	12	12	3	2	0	1	0	1	0	3	3	2	2	1	4	4	2	1	4	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:62131738C>T	uc002jdz.2	-	15	1938	c.1825G>A	c.(1825-1827)GCA>ACA	p.A609T		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	609	Cytoplasmic (Potential).|Protein kinase.				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						TCACGGTCTGCGAAGCTAAAA	0.577													5	14					0	0	0.000602	0	0		T	62131738	T	T	62131738	3	4	76	1	0	0	0	0	1	0	0	0	5245	768	27	1	1140	1	ERN1	17	62131738	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	574027	62131738	19063472	738	49588											
CACNG1	786	broad.mit.edu	37	chr17	65040929	65040929	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctgcgaggcggcccacttCggcctctggcggatttgtac	5	9	13	14	4	1	0	0	0	1	0	2	2	1	1	3	5	2	1	3	5	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:65040929C>T	uc002jfu.2	+	1	224	c.153C>T	c.(151-153)TTC>TTT	p.F51F		NM_000727	NP_000718	Q06432	CCG1_HUMAN	voltage-dependent calcium channel gamma-1	51					muscle contraction	voltage-gated calcium channel complex	voltage-gated calcium channel activity				0	all_cancers(12;1.04e-10)|Breast(2;1.45e-16)|all_epithelial(3;4.81e-12)				Amlodipine(DB00381)|Diltiazem(DB00343)|Ibutilide(DB00308)|Lercanidipine(DB00528)|Magnesium Sulfate(DB00653)|Nimodipine(DB00393)|Nitrendipine(DB01054)|Verapamil(DB00661)	CGGCCCACTTCGGCCTCTGGC	0.657													11	55					0	0	0.000978	0	0		T	65040929	T	T	65040929	2	4	76	1	0	0	0	0	0	0	0	1	2559	883	31	1		1	CACNG1	17	65040929	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2909191	65040929	16154281	739	49589											
HELZ	9931	broad.mit.edu	37	chr17	65199438	65199438	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agagcttatcaacataccagGgactctcctgtgagtgactt	11	11	9	10	0	2	3	1	2	1	1	3	4	2	4	2	1	3	1	2	1	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:65199438G>T	uc010wqk.1	-	6	556	c.369C>A	c.(367-369)TCC>TCA	p.S123S	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Silent_p.S123S|HELZ_uc010des.1_Silent_p.S123S	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					AACATACCAGGGACTCTCCTG	0.408													10	77					4.68919e-08	5.09058e-08	0.008291	1	0		T	65199438	T	T	65199438	2	4	76	1	0	0	0	0	0	0	0	1	7065	1219	43	5		5	HELZ	17	65199438	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	158509	65199438	15995772	740	49590											
PSMD12	5718	broad.mit.edu	37	chr17	65344745	65344745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgctaatgttttagtcagtCgcgcacgctcaatttcaaca	10	14	7	10	3	3	0	3	0	0	0	4	0	3	0	0	0	2	4	0	0	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:65344745C>T	uc002jfy.2	-	5	517	c.431G>A	c.(430-432)CGA>CAA	p.R144Q	PSMD12_uc002jga.2_Missense_Mutation_p.R124Q|PSMD12_uc002jfz.2_Missense_Mutation_p.R85Q|PSMD12_uc010det.1_Missense_Mutation_p.R144Q	NM_002816	NP_002807	O00232	PSD12_HUMAN	proteasome 26S non-ATPase subunit 12 isoform 1	144					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding				0	all_cancers(12;2.38e-11)|all_epithelial(3;8.27e-13)					TTTAGTCAGTCGCGCACGCTC	0.308													7	60					0	0	0.001984	0	0		T	65344745	T	T	65344745	3	4	76	1	0	0	0	0	1	0	0	0	12717	884	31	1	967	1	PSMD12	17	65344745	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	145307	65344745	15850465	741	49591											
ABCA6	23460	broad.mit.edu	37	chr17	67099024	67099024	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattgtatgagaggccatcAgtaccatttctgttttcaaa	11	14	7	9	0	3	1	2	1	1	1	3	2	3	1	3	1	1	3	3	1	3	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:67099024A>C	uc002jhw.1	-	21	3001	c.2826T>G	c.(2824-2826)ACT>ACG	p.T942T		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	942					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					AGAGGCCATCAGTACCATTTC	0.284													4	16					0	0	0.009096	0	0		C	67099024	C	C	67099024	2	2	76	1	0	0	0	0	0	0	0	1	36	175	7	5		5	ABCA6	17	67099024	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1754279	67099024	14096186	742	49592											
ABCA10	10349	broad.mit.edu	37	chr17	67183901	67183901	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagatttgtcgtctccagaGagctgcactactgacagcct	10	11	9	11	1	1	3	0	1	1	2	3	4	1	3	2	0	4	2	2	0	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:67183901G>T	uc010dfa.1	-	20	3130	c.2251C>A	c.(2251-2253)CTC>ATC	p.L751I	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_Missense_Mutation_p.L352I	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	751					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					CGTCTCCAGAGAGCTGCACTA	0.403													17	70					2.23348e-06	2.37211e-06	0.004007	1	0		T	67183901	T	T	67183901	3	4	76	1	0	0	0	0	1	0	0	0	29	942	33	5	2464	5	ABCA10	17	67183901	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	84877	67183901	14011309	743	49593											
SDK2	54549	broad.mit.edu	37	chr17	71346827	71346827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtacttcttgctctggcccCggatgatgagcacgaagacc	8	9	11	13	3	2	3	0	2	2	1	2	5	2	4	3	2	3	3	3	2	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:71346827C>T	uc010dfm.2	-	42	5861	c.5861G>A	c.(5860-5862)CGG>CAG	p.R1954Q	SDK2_uc002jjt.3_Missense_Mutation_p.R1094Q	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1954	Cytoplasmic (Potential).				cell adhesion	integral to membrane				ovary(2)	2						GCTCTGGCCCCGGATGATGAG	0.542													10	66					0	0	0.006214	0	0		T	71346827	T	T	71346827	3	4	76	1	0	0	0	0	1	0	0	0	13994	652	23	1	673	1	SDK2	17	71346827	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4162926	71346827	9848383	744	49594											
TMEM104	54868	broad.mit.edu	37	chr17	72781738	72781738	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggtgttcctgggcttcAtgaggtgagaggcagcgggg	5	10	19	7	1	1	2	1	2	0	1	2	3	2	2	1	6	2	4	1	6	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:72781738A>G	uc002jls.3	+	3	325	c.163A>G	c.(163-165)ATG>GTG	p.M55V	TMEM104_uc010wrf.1_Missense_Mutation_p.M55V|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Missense_Mutation_p.M55V	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	55	Helical; (Potential).					integral to membrane					0	all_lung(278;0.23)					CCTGGGCTTCATGAGGTGAGA	0.647													13	44					0	0	0.00245	0	0		G	72781738	G	G	72781738	3	3	76	1	0	0	0	0	1	0	0	0	16043	217	8	3	169	3	TMEM104	17	72781738	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	1434911	72781738	8413472	745	49595											
TMEM104	54868	broad.mit.edu	37	chr17	72832492	72832492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaagacactcttccaccGcgagggcggcacgtacccgt	8	6	12	15	5	1	1	0	0	1	1	2	3	2	2	3	3	1	2	3	3	2	2	rs146415645		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:72832492G>A	uc002jls.3	+	10	1319	c.1157G>A	c.(1156-1158)CGC>CAC	p.R386H	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Missense_Mutation_p.R386H	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	386	Cytoplasmic (Potential).					integral to membrane					0	all_lung(278;0.23)					CTCTTCCACCGCGAGGGCGGC	0.632													27	129					0	0	0.005443	0	0		A	72832492	A	A	72832492	3	1	76	1	0	0	0	0	1	0	0	0	16043	1087	38	1	1191	1	TMEM104	17	72832492	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	50754	72832492	8362718	746	49596											
GALR2	8811	broad.mit.edu	37	chr17	74072970	74072970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttctcggcctgacctacGcgcgcaccttgcgctacctc	4	10	10	17	5	1	1	0	1	1	0	3	1	1	1	4	2	3	3	4	2	2	4	rs142971884		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:74072970G>A	uc002jqm.1	+	2	703	c.622G>A	c.(622-624)GCG>ACG	p.A208T	ZACN_uc002jqn.2_5'Flank|ZACN_uc002jqo.2_5'Flank|ZACN_uc010dgu.2_5'Flank	NM_003857	NP_003848	O43603	GALR2_HUMAN	galanin receptor 2	208	Helical; Name=5; (Potential).				digestion|elevation of cytosolic calcium ion concentration|feeding behavior|learning or memory|muscle contraction	integral to membrane|plasma membrane	galanin receptor activity				0						CCTGACCTACGCGCGCACCTT	0.697													7	39					0	0	0.001984	0	0		A	74072970	A	A	74072970	3	1	76	1	0	0	0	0	1	0	0	0	6243	1087	38	1	628	1	GALR2	17	74072970	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1240478	74072970	7122240	747	49597											
CCDC40	55036	broad.mit.edu	37	chr17	78059814	78059814	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cggtctagggggaagaagtgGggcccctggagcttgaaatc	9	7	17	8	1	1	2	0	1	1	1	2	4	1	4	2	6	1	1	2	6	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:78059814G>T	uc010dht.2	+	14	2275	c.2248G>T	c.(2248-2250)GGG>TGG	p.G750W	CCDC40_uc002jxm.3_Missense_Mutation_p.G533W|CCDC40_uc002jxn.3_Missense_Mutation_p.G146W	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	750	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GGAAGAAGTGGGGCCCCTGGA	0.408													11	77					6.40141e-05	6.67381e-05	0.000978	1	0		T	78059814	T	T	78059814	3	4	76	1	0	0	0	0	1	0	0	0	2815	1232	43	5	2302	5	CCDC40	17	78059814	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3986844	78059814	3135396	748	49598											
SLC26A11	284129	broad.mit.edu	37	chr17	78210884	78210884	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccaacgggacgatctcCttcaccgagatggtgcaggt	10	7	12	12	3	2	1	1	0	1	1	3	4	2	2	3	3	3	1	3	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:78210884C>A	uc002jyb.1	+	8	1163	c.894C>A	c.(892-894)TCC>TCA	p.S298S	SLC26A11_uc002jyc.1_Silent_p.S298S|SLC26A11_uc002jyd.1_Silent_p.S298S|SLC26A11_uc010dhv.1_Silent_p.S298S	NM_173626	NP_775897	Q86WA9	S2611_HUMAN	solute carrier family 26, member 11	298	Cytoplasmic (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|plasma membrane	anion:anion antiporter activity|secondary active sulfate transmembrane transporter activity				0	all_neural(118;0.0538)		OV - Ovarian serous cystadenocarcinoma(97;0.0344)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			GGACGATCTCCTTCACCGAGA	0.647													10	51					9.70103e-10	1.06603e-09	0.008291	1	0		A	78210884	A	A	78210884	2	1	76	1	0	0	0	0	0	0	0	1	14541	668	24	5		5	SLC26A11	17	78210884	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	151070	78210884	2984326	749	49599											
P4HB	5034	broad.mit.edu	37	chr17	79804412	79804412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcctccagggtgatgaGgcgcacggccgggcactctt	5	8	13	15	3	1	2	0	2	1	0	4	2	4	2	4	4	0	2	4	4	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:79804412G>A	uc002kbn.1	-	7	1146	c.949C>T	c.(949-951)CTC>TTC	p.L317F	P4HB_uc002kbl.1_5'UTR|P4HB_uc002kbm.1_5'UTR	NM_000918	NP_000909	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta subunit precursor	317					cell redox homeostasis|glycerol ether metabolic process|lipid metabolic process|lipoprotein metabolic process|peptidyl-proline hydroxylation to 4-hydroxy-L-proline	cell surface|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|extracellular region|melanosome|plasma membrane	electron carrier activity|procollagen-proline 4-dioxygenase activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			AGGGTGATGAGGCGCACGGCC	0.592													14	97					0	0	0.001855	0	0		A	79804412	A	A	79804412	3	1	76	1	0	0	0	0	1	0	0	0	11378	1000	35	4	597	4	P4HB	17	79804412	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1593528	79804412	1390798	750	49600											
FASN	2194	broad.mit.edu	37	chr17	80045689	80045689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttgggggtggggctttccGggtggtcgaagagcctgggg	3	9	23	6	2	0	1	0	0	0	1	2	2	1	1	2	9	1	2	2	9	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:80045689G>A	uc002kdu.2	-	19	3032	c.2915C>T	c.(2914-2916)CCG>CTG	p.P972L	FASN_uc002kdw.1_Missense_Mutation_p.P188L	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	972					energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	GGGGCTTTCCGGGTGGTCGAA	0.652													10	36					0	0	0.008291	0	0		A	80045689	A	A	80045689	3	1	76	1	0	0	0	0	1	0	0	0	5697	1116	39	1	4720	1	FASN	17	80045689	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	241277	80045689	1149521	751	49601											
SECTM1	6398	broad.mit.edu	37	chr17	80280150	80280150	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggggtgggctcggagtctgGggtccacagttcagcggagg	5	8	20	8	2	2	0	1	0	1	0	4	2	3	2	1	8	1	2	1	8	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr17:80280150G>T	uc002keo.2	-	5	1032	c.634C>A	c.(634-636)CCA>ACA	p.P212T	SECTM1_uc002ken.2_Missense_Mutation_p.P210T|SECTM1_uc002kep.2_3'UTR	NM_003004	NP_002995	Q8WVN6	SCTM1_HUMAN	secreted and transmembrane 1 precursor	212	Cytoplasmic (Potential).				immune response|mesoderm development|positive regulation of I-kappaB kinase/NF-kappaB cascade	extracellular space|Golgi apparatus|integral to membrane|plasma membrane	cytokine activity|signal transducer activity				0	Breast(20;0.000675)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.249)		OV - Ovarian serous cystadenocarcinoma(97;0.00928)|BRCA - Breast invasive adenocarcinoma(99;0.0833)			TCGGAGTCTGGGGTCCACAGT	0.622													15	69					3.27435e-08	3.56181e-08	0.00245	1	0		T	80280150	T	T	80280150	3	4	76	1	0	0	0	0	1	0	0	0	14033	1232	43	5	116	5	SECTM1	17	80280150	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	234461	80280150	915060	752	49602											
TGIF1	7050	broad.mit.edu	37	chr18	3452168	3452168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctaccttcccccagcgcCgtggtcctccctggcgaccc	3	7	10	21	3	0	0	0	0	0	0	3	1	3	0	8	3	2	0	8	3	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr18:3452168C>T	uc002klz.2	+	1	578	c.191C>T	c.(190-192)CCG>CTG	p.P64L	TGIF1_uc002klu.2_Intron|TGIF1_uc002klv.2_Intron|TGIF1_uc002klx.2_Intron|TGIF1_uc002klw.2_Intron|TGIF1_uc010dkm.1_Intron|TGIF1_uc002kly.2_Intron|TGIF1_uc002kma.2_Intron|TGIF1_uc002kmb.2_5'Flank	NM_170695	NP_733796	Q15583	TGIF1_HUMAN	TG-interacting factor isoform a	64					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Esophageal squamous(4;0.0859)	Colorectal(8;0.0104)				CCCCCAGCGCCGTGGTCCTCC	0.736													19	88					0	0	0.010504	0	0		T	3452168	T	T	3452168	3	4	76	1	0	0	0	0	1	0	0	0	15850	652	23	1	275	1	TGIF1	18	3452168	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08		3452168	74625080	753	49603											
RIOK3	8780	broad.mit.edu	37	chr18	21044006	21044006	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgctggctcagatgctacaGatggaatatgacagagaata	15	9	11	6	0	1	4	1	1	0	3	1	6	1	5	0	2	3	3	0	2	5	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr18:21044006G>A	uc002kui.3	+	3	872	c.255G>A	c.(253-255)CAG>CAA	p.Q85Q	RIOK3_uc010dls.2_Silent_p.Q85Q|RIOK3_uc010xas.1_Silent_p.Q69Q|RIOK3_uc010xat.1_5'Flank	NM_003831	NP_003822	O14730	RIOK3_HUMAN	sudD suppressor of bimD6 homolog	85					chromosome segregation		ATP binding|protein binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(21;0.000106)|all_epithelial(16;6.74e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0202)|Ovarian(20;0.127)					AGATGCTACAGATGGAATATG	0.353													17	68					0	0	0.00499	0	0		A	21044006	A	A	21044006	2	1	76	1	0	0	0	0	0	0	0	1	13404	933	33	4		4	RIOK3	18	21044006	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	17591838	21044006	57033242	754	49604											
C18orf8	29919	broad.mit.edu	37	chr18	21095895	21095895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attggtacatgtactgccccGagagcgccgtgatcttgctg	7	11	12	11	3	1	2	0	1	1	1	1	3	1	2	3	1	5	3	3	1	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr18:21095895G>A	uc010xax.1	+	6	605	c.484G>A	c.(484-486)GAG>AAG	p.E162K	C18orf8_uc010xau.1_Missense_Mutation_p.E5K|C18orf8_uc010xav.1_Missense_Mutation_p.E114K|C18orf8_uc010xaw.1_Missense_Mutation_p.E5K|C18orf8_uc002kul.2_RNA	NM_013326	NP_037458	Q96DM3	MIC1_HUMAN	colon cancer-associated protein Mic1	162										ovary(1)	1	all_cancers(21;0.000122)|all_epithelial(16;8.08e-07)|Lung NSC(20;0.00206)|all_lung(20;0.00659)|Colorectal(14;0.0202)|Ovarian(20;0.127)					GTACTGCCCCGAGAGCGCCGT	0.473											OREG0024894	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	96					0	0	0.006122	0	0		A	21095895	A	A	21095895	3	1	76	1	0	0	0	0	1	0	0	0	1910	1059	37	1	506	1	C18orf8	18	21095895	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	51889	21095895	56981353	755	49605											
DSC2	1824	broad.mit.edu	37	chr18	28654723	28654723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gactaaagtcaaagggtgggCcatggataggctcatcagga	13	7	14	7	0	3	0	3	0	0	0	3	3	3	2	1	5	0	1	1	5	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr18:28654723C>T	uc002kwl.3	-	12	2268	c.1814G>A	c.(1813-1815)GGC>GAC	p.G605D	DSC2_uc002kwk.3_Missense_Mutation_p.G605D	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	605	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			AAAGGGTGGGCCATGGATAGG	0.413													6	31					0	0	0.00308	0	0		T	28654723	T	T	28654723	3	4	76	1	0	0	0	0	1	0	0	0	4772	739	26	2	951	2	DSC2	18	28654723	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	7558828	28654723	49422525	756	49606											
ZNF397OS	100101467	broad.mit.edu	37	chr18	32844198	32844198	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacctcttggctccaggggTtttcctgaaggccaaagtcc	8	11	10	12	0	1	1	0	1	1	0	4	1	4	1	5	4	1	2	5	4	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr18:32844198T>G	uc002kym.2	-	2	347	c.119A>C	c.(118-120)AAC>ACC	p.N40T	ZNF397_uc010dmr.2_Intron|ZNF397OS_uc010xce.1_Missense_Mutation_p.N40T|ZNF397OS_uc002kyn.1_Missense_Mutation_p.N40T	NM_001112734	NP_001106205	Q86W11	ZSC30_HUMAN	zinc finger protein 397 opposite strand	40					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCTCCAGGGGTTTTCCTGAAG	0.517													8	62					0	0	0.006214	0	0		G	32844198	G	G	32844198	3	3	76	1	0	0	0	0	1	0	0	0	17909	1725	60	5	1377	5	ZNF397OS	18	32844198	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	4189475	32844198	45233050	757	49607											
SLC14A2	8170	broad.mit.edu	37	chr18	43204714	43204714	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagagtttaccagcccgAgctggccctcgacatccccg	8	6	11	16	3	0	1	0	0	0	1	2	3	1	1	5	2	3	3	5	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr18:43204714A>G	uc010dnj.2	+	3	406	c.85A>G	c.(85-87)AGC>GGC	p.S29G	SLC14A2_uc002lbb.2_Missense_Mutation_p.S29G|SLC14A2_uc002lbe.2_Missense_Mutation_p.S29G	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	29						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						TACCAGCCCGAGCTGGCCCTC	0.572													17	85					0	0	0.00499	0	0		G	43204714	G	G	43204714	3	3	76	1	0	0	0	0	1	0	0	0	14422	304	11	3	87	3	SLC14A2	18	43204714	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	10360516	43204714	34872534	758	49608											
CXXC1	30827	broad.mit.edu	37	chr18	47810401	47810401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgttcgagcagcttcttgcCgtgctcttcagcaatgcaag	7	11	11	12	3	3	0	1	0	2	0	4	1	3	0	1	0	6	6	1	0	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr18:47810401C>T	uc002leq.3	-	10	2009	c.1276G>A	c.(1276-1278)GGC>AGC	p.G426S	MBD1_uc002leg.2_5'Flank|MBD1_uc010dow.1_5'Flank|MBD1_uc010xdi.1_5'Flank|MBD1_uc002leh.3_5'Flank|MBD1_uc002len.2_5'Flank|MBD1_uc002lei.3_5'Flank|MBD1_uc002lej.3_5'Flank|MBD1_uc002lek.3_5'Flank|MBD1_uc002lel.3_5'Flank|MBD1_uc002lem.3_5'Flank|MBD1_uc010xdj.1_5'Flank|MBD1_uc010xdk.1_5'Flank|MBD1_uc002leo.2_5'Flank|CXXC1_uc002lep.3_Missense_Mutation_p.G283S|CXXC1_uc002ler.3_Missense_Mutation_p.G430S|CXXC1_uc010doy.2_Missense_Mutation_p.G426S|CXXC1_uc002les.2_Missense_Mutation_p.G426S	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	426	Potential.				histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						AGCTTCTTGCCGTGCTCTTCA	0.577													23	94					0	0	0.00278	0	0		T	47810401	T	T	47810401	3	4	76	1	0	0	0	0	1	0	0	0	4100	652	23	1	718	1	CXXC1	18	47810401	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4605687	47810401	30266847	759	49609											
DCC	1630	broad.mit.edu	37	chr18	50832030	50832030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaattcgacacagaaagaCgacccgcaggggtgagatgg	15	5	13	8	3	0	3	0	1	0	3	1	6	0	3	1	3	0	1	1	3	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr18:50832030C>T	uc002lfe.1	+	13	2581	c.1994C>T	c.(1993-1995)ACG>ATG	p.T665M	DCC_uc010xdr.1_Missense_Mutation_p.T513M|DCC_uc010dpf.1_Missense_Mutation_p.T320M	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	665	Extracellular (Potential).|Fibronectin type-III 3.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		CACAGAAAGACGACCCGCAGG	0.438													14	56					0	0	0.001855	0	0		T	50832030	T	T	50832030	3	4	76	1	0	0	0	0	1	0	0	0	4285	536	19	1	2044	1	DCC	18	50832030	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3021629	50832030	27245218	760	49610											
ALPK2	115701	broad.mit.edu	37	chr18	56184321	56184321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaaagtgcagctcctccGtggcgatctgaccacgcagg	8	7	11	15	3	1	1	0	1	1	0	4	2	4	1	4	2	2	3	4	2	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr18:56184321G>A	uc002lhj.3	-	9	5973	c.5759C>T	c.(5758-5760)ACG>ATG	p.T1920M		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1920	Alpha-type protein kinase.						ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						CAGCTCCTCCGTGGCGATCTG	0.547													16	80					0	0	0.00499	0	0		A	56184321	A	A	56184321	3	1	76	1	0	0	0	0	1	0	0	0	545	1145	40	1	773	1	ALPK2	18	56184321	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	5352291	56184321	21892927	761	49611											
PHLPP1	23239	broad.mit.edu	37	chr18	60645706	60645706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcccgatgccctggctgctgCcaagaagctgtgtaccctgg	6	8	13	14	1	0	1	0	0	0	1	0	2	0	1	4	2	5	4	4	2	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr18:60645706C>T	uc002lis.2	+	18	2838	c.2660C>T	c.(2659-2661)GCC>GTC	p.A887V		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	1399	PP2C-like.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						CTGGCTGCTGCCAAGAAGCTG	0.622													5	25					0	0	0.000602	0	0		T	60645706	T	T	60645706	3	4	76	1	0	0	0	0	1	0	0	0	11873	739	26	2	4262	2	PHLPP1	18	60645706	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4461385	60645706	17431542	762	49612											
PARD6G	84552	broad.mit.edu	37	chr18	77917987	77917987	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgtccgagggcggtccCgagctgcccaacgcgcggcc	4	4	16	17	7	0	0	0	0	0	0	2	2	2	0	5	3	4	1	5	3	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr18:77917987C>T	uc002lny.2	-	3	964	c.798G>A	c.(796-798)TCG>TCA	p.S266S	LOC100130522_uc002lnx.2_Intron|LOC100130522_uc010xfn.1_Intron|LOC100130522_uc010xfo.1_Intron	NM_032510	NP_115899	Q9BYG4	PAR6G_HUMAN	PAR-6 gamma protein	266					cell cycle|cell division|tight junction assembly	cytosol|tight junction	protein binding				0		all_cancers(4;5.63e-22)|all_epithelial(4;5.86e-15)|all_lung(4;1.32e-05)|Ovarian(4;1.33e-05)|Lung NSC(4;2.77e-05)|Esophageal squamous(42;0.0157)|all_hematologic(56;0.13)|Melanoma(33;0.144)		Epithelial(2;1.48e-13)|all cancers(1;5.77e-13)|OV - Ovarian serous cystadenocarcinoma(15;2.74e-10)|BRCA - Breast invasive adenocarcinoma(31;0.00166)|STAD - Stomach adenocarcinoma(84;0.18)|Lung(128;0.23)		AGGGCGGTCCCGAGCTGCCCA	0.701													11	27					0	0	0.008291	0	0		T	77917987	T	T	77917987	2	4	76	1	0	0	0	0	0	0	0	1	11466	639	23	1		1	PARD6G	18	77917987	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	17272281	77917987	159261	763	49613											
POLRMT	5442	broad.mit.edu	37	chr19	618551	618551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgagtggatgaagttgggcGggaagccgttcttctgctta	7	11	16	7	3	2	1	0	1	2	0	2	4	2	3	1	3	2	3	1	3	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:618551G>A	uc002lpf.1	-	17	3415	c.3359C>T	c.(3358-3360)CCG>CTG	p.P1120L		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	1120	Mediates interaction with TEFM.				transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAAGTTGGGCGGGAAGCCGTT	0.657													9	36					0	0	0.008291	0	0		A	618551	A	A	618551	3	1	76	1	0	0	0	0	1	0	0	0	12257	1116	39	1	353	1	POLRMT	19	618551	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08		618551	58510432	764	49614											
ABCA7	10347	broad.mit.edu	37	chr19	1049320	1049320	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtctccgttcgcagcctGgagaagcgctttcctggaag	6	9	14	12	4	1	1	0	0	1	1	4	3	2	2	3	3	2	3	3	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:1049320G>A	uc002lqw.3	+	18	2667	c.2436G>A	c.(2434-2436)CTG>CTA	p.L812L	ABCA7_uc010dsb.1_Silent_p.L674L	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	812	ABC transporter 1.				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTCGCAGCCTGGAGAAGCGCT	0.672													22	110					0	0	0.001882	0	0		A	1049320	A	A	1049320	2	1	76	1	0	0	0	0	0	0	0	1	37	1335	47	4		4	ABCA7	19	1049320	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	430769	1049320	58079663	765	49615											
CHAF1A	10036	broad.mit.edu	37	chr19	4433428	4433428	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaaagaggacagtggcagCgtcccctccacggggcccag	9	3	13	16	2	0	1	0	0	0	1	2	2	2	2	5	4	1	1	5	4	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:4433428C>T	uc002mal.2	+	13	2665	c.2565C>T	c.(2563-2565)AGC>AGT	p.S855S		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	855	Binds to p60.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		ACAGTGGCAGCGTCCCCTCCA	0.642								Chromatin_Structure					13	102					0	0	0.001368	0	0		T	4433428	T	T	4433428	2	4	76	1	0	0	0	0	0	0	0	1	3314	767	27	1		1	CHAF1A	19	4433428	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3384108	4433428	54695555	766	49616											
SEMA6B	10501	broad.mit.edu	37	chr19	4550161	4550161	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtccgcaggatccagggCgcatggcccagcgagggcac	8	3	17	13	3	0	0	0	0	0	0	2	2	2	1	3	5	1	3	3	5	0	0	rs144907430		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:4550161C>T	uc010duc.1	-	11	1283	c.1245G>A	c.(1243-1245)GCG>GCA	p.A415A	SEMA6B_uc010dud.2_Silent_p.A415A|SEMA6B_uc010xih.1_Silent_p.A415A	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	415	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		GGATCCAGGGCGCATGGCCCA	0.627													7	46					0	0	0.00308	0	0		T	4550161	T	T	4550161	2	4	76	1	0	0	0	0	0	0	0	1	14065	755	27	1		1	SEMA6B	19	4550161	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	116733	4550161	54578822	767	49617											
FBN3	84467	broad.mit.edu	37	chr19	8161800	8161800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggcgacagtttgtaccctCgggtgcacttgcagcggtag	6	10	14	11	3	0	0	0	0	0	0	1	1	0	0	1	3	4	5	1	3	2	4	rs143230386	by1000genomes	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:8161800C>T	uc002mjf.2	-	42	5399	c.5378G>A	c.(5377-5379)CGA>CAA	p.R1793Q		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1793	EGF-like 27; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						TTTGTACCCTCGGGTGCACTT	0.607													16	88					0	0	0.004007	0	0		T	8161800	T	T	8161800	3	4	76	1	0	0	0	0	1	0	0	0	5718	884	31	1	3139	1	FBN3	19	8161800	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3611639	8161800	50967183	768	49618											
FBN3	84467	broad.mit.edu	37	chr19	8176580	8176580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctggcggcaggtgcagcGgtaggagccagggacattga	8	5	18	10	2	0	1	0	1	0	0	0	3	0	3	2	6	3	3	2	6	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:8176580G>A	uc002mjf.2	-	31	4057	c.4036C>T	c.(4036-4038)CGC>TGC	p.R1346C		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1346	EGF-like 20; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CAGGTGCAGCGGTAGGAGCCA	0.652													10	53					0	0	0.008291	0	0		A	8176580	A	A	8176580	3	1	76	1	0	0	0	0	1	0	0	0	5718	1116	39	1	4525	1	FBN3	19	8176580	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	14780	8176580	50952403	769	49619											
CDC37	11140	broad.mit.edu	37	chr19	10503977	10503977	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgacggggtccaggccgccGgggccgagccgcttcttgcg	3	6	17	15	7	1	0	0	0	1	0	3	2	2	0	5	5	2	1	5	5	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:10503977G>A	uc002mof.1	-	6	983	c.867C>T	c.(865-867)CCC>CCT	p.P289P	CDC37_uc002moe.1_Silent_p.P244P|CDC37_uc010dxf.1_Silent_p.P126P|CDC37_uc002mog.1_Intron|CDC37_uc002moh.2_Silent_p.P289P	NM_007065	NP_008996	Q16543	CDC37_HUMAN	cell division cycle 37 protein	289					protein targeting|regulation of cyclin-dependent protein kinase activity|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway		unfolded protein binding				0			OV - Ovarian serous cystadenocarcinoma(20;4.65e-10)|Epithelial(33;6.48e-07)|all cancers(31;2.31e-06)	GBM - Glioblastoma multiforme(1328;0.0318)		CCAGGCCGCCGGGGCCGAGCC	0.706													12	69					0	0	0.001855	0	0		A	10503977	A	A	10503977	2	1	76	1	0	0	0	0	0	0	0	1	3071	1103	39	1		1	CDC37	19	10503977	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2327397	10503977	48625006	770	49620											
SLC44A2	57153	broad.mit.edu	37	chr19	10738649	10738649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accccactgacagccggggcGagttctgcgggcagaagggc	8	4	16	13	3	1	2	0	1	1	1	1	3	1	2	3	4	2	2	3	4	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:10738649G>A	uc002mpf.2	+	4	353	c.214G>A	c.(214-216)GAG>AAG	p.E72K	SLC44A2_uc002mpe.3_Missense_Mutation_p.E70K	NM_020428	NP_065161	Q8IWA5	CTL2_HUMAN	solute carrier family 44, member 2 isoform 1	72	Extracellular (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane|plasma membrane	choline transmembrane transporter activity|signal transducer activity			ovary(1)	1			Epithelial(33;8.7e-06)|all cancers(31;2.77e-05)		Choline(DB00122)	CAGCCGGGGCGAGTTCTGCGG	0.582													4	33					0	0	0.009096	0	0		A	10738649	A	A	10738649	3	1	76	1	0	0	0	0	1	0	0	0	14661	1059	37	1	263	1	SLC44A2	19	10738649	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	234672	10738649	48390334	771	49621											
KANK2	25959	broad.mit.edu	37	chr19	11303908	11303908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaccttggcggcgagggcaGcctccccatcaggcatgccc	6	5	13	17	3	1	0	1	0	0	0	2	2	2	0	5	4	2	2	5	4	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:11303908G>A	uc010dxv.2	-	6	1406	c.848C>T	c.(847-849)GCT>GTT	p.A283V	KANK2_uc002mqm.2_Missense_Mutation_p.A283V|KANK2_uc002mqo.3_Missense_Mutation_p.A283V|KANK2_uc002mqp.1_Missense_Mutation_p.A92V|KANK2_uc002mqq.2_Missense_Mutation_p.A283V	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	283	Potential.										0						GGCGAGGGCAGCCTCCCCATC	0.692													10	53					0	0	0.008291	0	0		A	11303908	A	A	11303908	3	1	76	1	0	0	0	0	1	0	0	0	7993	971	34	2	1771	2	KANK2	19	11303908	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	565259	11303908	47825075	772	49622											
RGL3	57139	broad.mit.edu	37	chr19	11508131	11508131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcccctcaccaagatgcttCgatacaggttcccgtggtca	9	9	9	14	2	2	1	2	0	0	1	4	2	3	1	4	2	3	2	4	2	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:11508131C>T	uc002mrp.2	-	17	1953	c.1889G>A	c.(1888-1890)CGA>CAA	p.R630Q	RGL3_uc002mrn.2_Missense_Mutation_p.R394Q|RGL3_uc002mrm.2_Missense_Mutation_p.R394Q|RGL3_uc002mro.2_Missense_Mutation_p.R636Q	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	630	Interaction with HRAS, MRAS and RIT1 (By similarity).|Ras-associating.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						CAAGATGCTTCGATACAGGTT	0.677													18	85					0	0	0.007413	0	0		T	11508131	T	T	11508131	3	4	76	1	0	0	0	0	1	0	0	0	13303	884	31	1	255	1	RGL3	19	11508131	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	204223	11508131	47620852	773	49623											
ZNF441	126068	broad.mit.edu	37	chr19	11891996	11891996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctataaatgtaaacaatgcGgaaaagccttcaggtcttcc	14	10	7	10	1	2	0	1	0	1	0	3	1	3	1	3	2	3	1	3	2	8	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:11891996G>A	uc010dyj.2	+	4	1551	c.1357G>A	c.(1357-1359)GGA>AGA	p.G453R	ZNF441_uc002msn.3_Missense_Mutation_p.G409R	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	453	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TAAACAATGCGGAAAAGCCTT	0.383													8	37					0	0	0.00308	0	0		A	11891996	A	A	11891996	3	1	76	1	0	0	0	0	1	0	0	0	17939	1117	39	1	1371	1	ZNF441	19	11891996	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	383865	11891996	47236987	774	49624											
ZNF563	147837	broad.mit.edu	37	chr19	12430297	12430297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgtcttcgaaggtttctaCgagaactgaaggtttttcca	9	15	10	7	2	2	2	0	1	2	1	4	4	3	2	1	2	2	2	1	2	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:12430297C>T	uc002mtp.2	-	4	780	c.542G>A	c.(541-543)CGT>CAT	p.R181H	ZNF563_uc002mtq.2_Missense_Mutation_p.R181H	NM_145276	NP_660319	Q8TA94	ZN563_HUMAN	zinc finger protein 563	181	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAGGTTTCTACGAGAACTGAA	0.423													24	95					0	0	0.00278	0	0		T	12430297	T	T	12430297	3	4	76	1	0	0	0	0	1	0	0	0	18019	536	19	1	892	1	ZNF563	19	12430297	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	538301	12430297	46698686	775	49625											
PRDX2	7001	broad.mit.edu	37	chr19	12911023	12911023	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcatctgttttcagcacGccgtaatcctcagacaagcg	9	10	7	15	3	4	1	3	0	1	1	5	1	5	1	3	0	2	3	3	0	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:12911023G>A	uc002mvd.2	-	4	498	c.348C>T	c.(346-348)GGC>GGT	p.G116G		NM_005809	NP_005800	P32119	PRDX2_HUMAN	peroxiredoxin 2 isoform a	116	Thioredoxin.				anti-apoptosis|cell redox homeostasis|hydrogen peroxide catabolic process|removal of superoxide radicals		thioredoxin peroxidase activity				0						TTTTCAGCACGCCGTAATCCT	0.617													23	89					0	0	0.002299	0	0		A	12911023	A	A	12911023	2	1	76	1	0	0	0	0	0	0	0	1	12487	1074	38	1		1	PRDX2	19	12911023	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	480726	12911023	46217960	776	49626											
MAST1	22983	broad.mit.edu	37	chr19	12979551	12979551	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttggttctgcgccgggcGcggcaccagcagatgtcagg	6	7	16	12	4	2	1	1	0	1	1	2	2	2	1	2	4	2	3	2	4	0	2	rs142536814	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:12979551G>A	uc002mvm.2	+	21	2789	c.2661G>A	c.(2659-2661)GCG>GCA	p.A887A		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	887					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						TGCGCCGGGCGCGGCACCAGC	0.597													12	162					0	0	0.000978	0	0		A	12979551	A	A	12979551	2	1	76	1	0	0	0	0	0	0	0	1	9342	1074	38	1		1	MAST1	19	12979551	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	68528	12979551	46149432	777	49627											
LPHN1	22859	broad.mit.edu	37	chr19	14270398	14270398	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgtctccaccacggccTgcacaggcagagggcatggt	8	6	12	15	1	1	1	0	0	1	1	2	1	1	1	4	4	1	3	4	4	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:14270398T>G	uc010xnn.1	-	11	2151	c.1855_splice	c.e11-1	p.A619_splice	LPHN1_uc010xno.1_Splice_Site_p.A614_splice|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						CACCACGGCCTGCACAGGCAG	0.622													9	76					0	0	0.008291	0	0		G	14270398	G	G	14270398	5	3	76	1	0	0	0	0	0	0	1	0	8933	1594	55	5	2627	5	LPHN1	19	14270398	Splice_Site	SNP	T	TCGA-BR-8382-01A-11D-2394-08	1290847	14270398	44858585	778	49628											
MYO9B	4650	broad.mit.edu	37	chr19	17213299	17213299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcatccactgcctcaccGccctcagccagaagggctac	8	7	7	19	1	3	1	3	0	0	1	5	1	5	1	6	1	3	1	6	1	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:17213299G>A	uc010eak.2	+	2	924	c.772G>A	c.(772-774)GCC>ACC	p.A258T	MYO9B_uc002nfi.2_Missense_Mutation_p.A258T|MYO9B_uc002nfj.1_Missense_Mutation_p.A258T	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	258	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						CTGCCTCACCGCCCTCAGCCA	0.652													6	35					0	0	0.001168	0	0		A	17213299	A	A	17213299	3	1	76	1	0	0	0	0	1	0	0	0	10103	1087	38	1	774	1	MYO9B	19	17213299	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2942901	17213299	41915684	779	49629											
UNC13A	23025	broad.mit.edu	37	chr19	17783305	17783305	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccagacggttaatctcgCtgcagaaaaaggagaggggg	14	6	14	7	2	1	3	0	0	1	3	3	4	2	3	1	4	1	3	1	4	4	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:17783305C>A	uc002nhd.2	-	5	417	c.417_splice	c.e5-1	p.F139_splice		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A						exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						GTTAATCTCGCTGCAGAAAAA	0.398													7	34					3.09899e-07	3.3274e-07	0.004482	1	0		A	17783305	A	A	17783305	5	1	76	1	0	0	0	0	0	0	1	0	17010	811	28	5	5115	5	UNC13A	19	17783305	Splice_Site	SNP	C	TCGA-BR-8382-01A-11D-2394-08	570006	17783305	41345678	780	49630											
CCDC124	115098	broad.mit.edu	37	chr19	18047384	18047384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtcatgaggaaggagcagcGcaaggtgcgtgcactccgag	10	5	16	10	4	1	1	1	1	0	0	2	4	2	3	1	3	4	3	1	3	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:18047384G>A	uc010xpz.1	+	2	200	c.155G>A	c.(154-156)CGC>CAC	p.R52H	CCDC124_uc002nhs.2_Missense_Mutation_p.R52H	NM_001136203	NP_001129675	Q96CT7	CC124_HUMAN	coiled-coil domain containing 124	52	Potential.						DNA binding				0						AAGGAGCAGCGCAAGGTGCGT	0.612													3	12					0	0	0.009096	0	0		A	18047384	A	A	18047384	3	1	76	1	0	0	0	0	1	0	0	0	2763	1087	38	1	157	1	CCDC124	19	18047384	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	264079	18047384	41081599	781	49631											
KIAA1683	80726	broad.mit.edu	37	chr19	18378125	18378125	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgtgggacgcggcgggaCgccgtcttgccttcggcagg	4	6	19	12	7	1	0	0	0	1	0	2	2	1	2	2	6	1	1	2	6	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:18378125C>T	uc002nin.2	-	3	441	c.225G>A	c.(223-225)GCG>GCA	p.A75A	KIAA1683_uc010ebn.2_Silent_p.A75A|KIAA1683_uc010xqe.1_Silent_p.A29A	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	75						mitochondrion				ovary(2)	2						CGCGGCGGGACGCCGTCTTGC	0.637													25	97					0	0	0.003954	0	0		T	18378125	T	T	18378125	2	4	76	1	0	0	0	0	0	0	0	1	8267	523	19	1		1	KIAA1683	19	18378125	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	330741	18378125	40750858	782	49632											
KLHL26	55295	broad.mit.edu	37	chr19	18778576	18778576	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcatcgacttcgcctacagCgccgaggtgacactggacct	9	8	10	14	4	1	1	1	1	0	0	3	4	1	2	3	2	2	0	3	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:18778576C>T	uc002njz.1	+	3	396	c.369C>T	c.(367-369)AGC>AGT	p.S123S		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	123	BTB.									ovary(1)	1						TCGCCTACAGCGCCGAGGTGA	0.662													30	100					0	0	0.009535	0	0		T	18778576	T	T	18778576	2	4	76	1	0	0	0	0	0	0	0	1	8397	767	27	1		1	KLHL26	19	18778576	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	400451	18778576	40350407	783	49633											
KLHL26	55295	broad.mit.edu	37	chr19	18778628	18778628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacgtgctgggcgcggccGtgttcttgcagatgctgccc	4	9	16	12	4	1	1	0	0	1	1	1	2	1	2	2	3	4	4	2	3	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:18778628G>A	uc002njz.1	+	3	448	c.421G>A	c.(421-423)GTG>ATG	p.V141M		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	141										ovary(1)	1						GGGCGCGGCCGTGTTCTTGCA	0.667													11	89					0	0	0.000978	0	0		A	18778628	A	A	18778628	3	1	76	1	0	0	0	0	1	0	0	0	8397	1145	40	1	431	1	KLHL26	19	18778628	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	52	18778628	40350355	784	49634											
HAPLN4	404037	broad.mit.edu	37	chr19	19371714	19371714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcttgcagcgtgacgttgCggaggaccagggaggcatcc	8	7	16	10	3	1	1	0	1	1	0	2	4	2	4	2	4	3	3	2	4	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:19371714C>T	uc002nmb.2	-	3	447	c.392G>A	c.(391-393)CGC>CAC	p.R131H	HAPLN4_uc002nmc.2_Missense_Mutation_p.R131H	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	131	Ig-like C2-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			CGTGACGTTGCGGAGGACCAG	0.642													8	82					0	0	0.004482	0	0		T	19371714	T	T	19371714	3	4	76	1	0	0	0	0	1	0	0	0	6973	768	27	1	828	1	HAPLN4	19	19371714	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	593086	19371714	39757269	785	49635											
ZNF99	7652	broad.mit.edu	37	chr19	22941044	22941044	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcccagtatgaattatcTtatgtttcataagggttgag	10	17	8	6	0	3	2	1	2	2	0	4	2	4	2	1	1	0	3	1	1	5	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:22941044T>A	uc010xrh.1	-	5	1394	c.1394A>T	c.(1393-1395)AAG>ATG	p.K465M		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				ATGAATTATCTTATGTTTCAT	0.343													4	32					0	0	0.009096	0	0		A	22941044	A	A	22941044	3	1	76	1	0	0	0	0	1	0	0	0	18229	1609	56	5	1730	5	ZNF99	19	22941044	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3569330	22941044	36187939	786	49636											
ZNF536	9745	broad.mit.edu	37	chr19	30935211	30935211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgcaggctaaccacagcGttcccgacgtggcccacccg	7	5	10	19	4	0	0	0	0	0	0	1	1	1	0	5	2	3	3	5	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:30935211G>A	uc002nsu.1	+	2	880	c.742G>A	c.(742-744)GTT>ATT	p.V248I	ZNF536_uc010edd.1_Missense_Mutation_p.V248I	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	248					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TAACCACAGCGTTCCCGACGT	0.756													5	19					0	0	0.000602	0	0		A	30935211	A	A	30935211	3	1	76	1	0	0	0	0	1	0	0	0	17999	1145	40	1	744	1	ZNF536	19	30935211	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	7994167	30935211	28193772	787	49637											
CHST8	64377	broad.mit.edu	37	chr19	34263898	34263898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcggccctgcaaaggcagcGcacctacgacttctactaca	10	7	8	16	3	1	0	0	0	1	0	2	1	1	0	2	2	5	3	2	2	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:34263898G>A	uc002nus.3	+	5	1710	c.1205G>A	c.(1204-1206)CGC>CAC	p.R402H	CHST8_uc002nut.3_Missense_Mutation_p.R402H|CHST8_uc002nuu.2_Missense_Mutation_p.R402H	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	402	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)					CAAAGGCAGCGCACCTACGAC	0.622													12	44					0	0	0.001368	0	0		A	34263898	A	A	34263898	3	1	76	1	0	0	0	0	1	0	0	0	3413	1087	38	1	1215	1	CHST8	19	34263898	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	3328687	34263898	24865085	788	49638											
MAG	4099	broad.mit.edu	37	chr19	35800998	35800998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggcccaggccccgcccCgcgtcatctgcaccgcgagg	5	3	14	19	5	2	0	1	0	1	0	2	1	2	0	6	4	1	2	6	4	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:35800998C>T	uc002nyy.1	+	8	1602	c.1453C>T	c.(1453-1455)CGC>TGC	p.R485C	MAG_uc002nyx.1_Missense_Mutation_p.R485C|MAG_uc010eds.1_Missense_Mutation_p.R460C|MAG_uc002nyz.1_Missense_Mutation_p.R485C	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	485	Ig-like C2-type 4.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GGCCCCGCCCCGCGTCATCTG	0.697													6	82					0	0	0.001984	0	0		T	35800998	T	T	35800998	3	4	76	1	0	0	0	0	1	0	0	0	9180	652	23	1	1475	1	MAG	19	35800998	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1537100	35800998	23327985	789	49639											
RBM42	79171	broad.mit.edu	37	chr19	36128361	36128361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggaagtatgtgggctcgCgccccatcaagcttcgcaag	9	7	13	12	3	1	0	1	0	0	0	3	1	1	1	2	2	1	4	2	2	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:36128361C>T	uc002oan.2	+	10	1424	c.1348C>T	c.(1348-1350)CGC>TGC	p.R450C	RBM42_uc010eef.2_Missense_Mutation_p.R396C|RBM42_uc002oao.2_Missense_Mutation_p.R428C|RBM42_uc002oap.2_Missense_Mutation_p.R420C|RBM42_uc002oaq.2_Missense_Mutation_p.R421C|RBM42_uc010eeg.2_Missense_Mutation_p.R356C	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	450	Necessary for interaction with HNRNPK (By similarity).|RRM.					cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			TGTGGGCTCGCGCCCCATCAA	0.617													15	86					0	0	0.00245	0	0		T	36128361	T	T	36128361	3	4	76	1	0	0	0	0	1	0	0	0	13161	768	27	1	1386	1	RBM42	19	36128361	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	327363	36128361	23000622	790	49640											
TMEM149	79713	broad.mit.edu	37	chr19	36232025	36232025	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtactgggaggcttccggCggtggcgccagggccagaag	7	5	18	11	3	0	1	0	0	0	1	1	2	1	2	3	6	1	2	3	6	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:36232025C>T	uc002obc.2	-	2	158	c.57G>A	c.(55-57)CCG>CCA	p.P19P	TMEM149_uc002obb.2_Silent_p.P19P|TMEM149_uc002obd.3_Silent_p.P19P|TMEM149_uc010xsy.1_RNA|TMEM149_uc010eej.2_Silent_p.P99P	NM_024660	NP_078936	Q9H665	IGFR1_HUMAN	transmembrane protein 149 precursor	19						integral to membrane|plasma membrane	protein binding|receptor activity				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGGCTTCCGGCGGTGGCGCCA	0.672													4	20					0	0	0.009096	0	0		T	36232025	T	T	36232025	2	4	76	1	0	0	0	0	0	0	0	1	16087	755	27	1		1	TMEM149	19	36232025	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	103664	36232025	22896958	791	49641											
ARHGAP33	115703	broad.mit.edu	37	chr19	36279053	36279053	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgcccacccccgaagcCgttcagatcccggtccccca	6	6	7	22	3	1	1	1	0	0	1	4	2	4	1	8	1	2	1	8	1	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:36279053C>A	uc002obs.1	+	21	3188	c.3103C>A	c.(3103-3105)CGT>AGT	p.R1035S	ARHGAP33_uc002obt.1_Missense_Mutation_p.R1032S|ARHGAP33_uc010eel.2_Intron|ARHGAP33_uc002obv.1_Missense_Mutation_p.R784S	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	1196					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						CCCCCGAAGCCGTTCAGATCC	0.687													21	74					3.62473e-10	3.99945e-10	0.001882	1	0		A	36279053	A	A	36279053	3	1	76	1	0	0	0	0	1	0	0	0	882	652	23	5	3668	5	ARHGAP33	19	36279053	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	47028	36279053	22849930	792	49642											
C19orf46	163183	broad.mit.edu	37	chr19	36499174	36499174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagagggtgttgaccatctcGgggggtgagcggcaggctca	8	7	18	8	2	2	3	1	2	1	1	3	3	2	3	1	6	1	3	1	6	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:36499174G>A	uc002ocq.1	-	2	313	c.224C>T	c.(223-225)CCG>CTG	p.P75L	C19orf46_uc002ocr.1_Missense_Mutation_p.P75L|C19orf46_uc002ocs.1_Missense_Mutation_p.P75L|C19orf46_uc010een.1_Intron	NM_001039876	NP_001034965	Q8N205	SYNE4_HUMAN	hypothetical protein LOC163183	75	Cytoplasmic (Potential).				establishment of epithelial cell apical/basal polarity	integral to nuclear outer membrane	actin binding			ovary(1)	1	all_lung(56;1.35e-06)|Lung NSC(56;2.15e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TGACCATCTCGGGGGGTGAGC	0.657													11	55					0	0	0.001855	0	0		A	36499174	A	A	36499174	3	1	76	1	0	0	0	0	1	0	0	0	1932	1116	39	1	1018	1	C19orf46	19	36499174	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	220121	36499174	22629809	793	49643											
CLIP3	25999	broad.mit.edu	37	chr19	36510166	36510166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccacgcccacccactggcCgctggcaaactccgtggtcc	6	6	9	20	3	0	0	0	0	0	0	3	0	3	0	6	3	1	2	6	3	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:36510166C>T	uc010eeq.1	-	7	1243	c.961G>A	c.(961-963)GGC>AGC	p.G321S	uc002ocy.2_Missense_Mutation_p.R27C|CLIP3_uc002ocz.1_Missense_Mutation_p.G321S	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	321	CAP-Gly 1.				chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			ACCCACTGGCCGCTGGCAAAC	0.627													14	39					0	0	0.001855	0	0		T	36510166	T	T	36510166	3	4	76	1	0	0	0	0	1	0	0	0	3537	652	23	1	710	1	CLIP3	19	36510166	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	10992	36510166	22618817	794	49644											
GGN	199720	broad.mit.edu	37	chr19	38877092	38877092	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggccgccgcctccgccGccccccagcgaagctttggc	6	4	12	19	5	0	1	0	0	0	1	1	2	1	1	8	2	2	1	8	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:38877092G>A	uc002oij.1	-	3	945	c.810C>T	c.(808-810)GGC>GGT	p.G270G	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Silent_p.G187G	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	270	Interaction with GGNBP1 (By similarity).|Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CGCCTCCGCCGCCCCCCAGCG	0.657													14	48					0	0	0.00245	0	0		A	38877092	A	A	38877092	2	1	76	1	0	0	0	0	0	0	0	1	6373	1074	38	1		1	GGN	19	38877092	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2366926	38877092	20251891	795	49645											
GGN	199720	broad.mit.edu	37	chr19	38877558	38877558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggggaactggagtgcccGcgggcttttgccatttagac	6	10	14	11	3	0	1	0	0	0	1	1	3	1	3	3	4	3	1	3	4	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:38877558G>A	uc002oij.1	-	3	479	c.344C>T	c.(343-345)GCG>GTG	p.A115V	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Missense_Mutation_p.A32V	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	115	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TGGAGTGCCCGCGGGCTTTTG	0.756													4	11					0	0	0.000602	0	0		A	38877558	A	A	38877558	3	1	76	1	0	0	0	0	1	0	0	0	6373	1087	38	1	1622	1	GGN	19	38877558	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	466	38877558	20251425	796	49646											
RYR1	6261	broad.mit.edu	37	chr19	38949887	38949887	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgccgtccatctccttcCgcatcaacggctgccccgtg	4	9	10	18	5	2	0	1	0	1	0	5	0	4	0	6	1	3	2	6	1	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:38949887C>A	uc002oit.2	+	19	2399	c.2269C>A	c.(2269-2271)CGC>AGC	p.R757S	RYR1_uc002oiu.2_Missense_Mutation_p.R757S	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	757	Cytoplasmic.|B30.2/SPRY 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CATCTCCTTCCGCATCAACGG	0.612													13	44					0.00185496	0.00190624	0.001855	1	0		A	38949887	A	A	38949887	3	1	76	1	0	0	0	0	1	0	0	0	13793	652	23	5	2343	5	RYR1	19	38949887	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	72329	38949887	20179096	797	49647											
RYR1	6261	broad.mit.edu	37	chr19	38990283	38990283	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggtggccaggcgagagcGtggaggagaacgccaatgtg	9	4	20	8	4	0	2	0	0	0	2	0	5	0	3	2	5	2	0	2	5	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:38990283G>A	uc002oit.2	+	44	7166	c.7036G>A	c.(7036-7038)GTG>ATG	p.V2346M	RYR1_uc002oiu.2_Missense_Mutation_p.V2346M|RYR1_uc002oiv.1_Translation_Start_Site	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2346	Cytoplasmic.|6 X approximate repeats.		V -> M (in MHS1).		muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AGGCGAGAGCGTGGAGGAGAA	0.667													8	31					0	0	0.00308	0	0		A	38990283	A	A	38990283	3	1	76	1	0	0	0	0	1	0	0	0	13793	1145	40	1	7210	1	RYR1	19	38990283	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	40396	38990283	20138700	798	49648											
IL28A	282616	broad.mit.edu	37	chr19	39759369	39759369	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggccgcagtgctgacCgtgactggagcagttcctgt	6	10	14	11	2	0	3	0	3	0	0	1	4	1	4	3	2	2	4	3	2	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:39759369C>T	uc002oku.1	+	2	115	c.63C>T	c.(61-63)ACC>ACT	p.T21T		NM_172138	NP_742150	Q8IZJ0	IL28A_HUMAN	interleukin 28A precursor	21					response to virus	extracellular space	cytokine activity			ovary(1)|skin(1)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;5.39e-26)|all cancers(26;4.1e-23)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			CAGTGCTGACCGTGACTGGAG	0.632													6	55					0	0	0.001984	0	0		T	39759369	T	T	39759369	2	4	76	1	0	0	0	0	0	0	0	1	7698	639	23	1		1	IL28A	19	39759369	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	769086	39759369	19369614	799	49649											
ZNF780A	284323	broad.mit.edu	37	chr19	40581804	40581804	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtatgaatactctgatgcTgaataagatttgcactacga	14	12	8	7	1	1	4	0	3	1	1	1	5	1	4	0	0	4	3	0	0	6	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:40581804T>C	uc002omy.2	-	6	770	c.545A>G	c.(544-546)CAG>CGG	p.Q182R	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.Q182R|ZNF780A_uc010xvh.1_Missense_Mutation_p.Q183R	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	182	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					ACTCTGATGCTGAATAAGATT	0.373													5	46					0	0	0.000602	0	0		C	40581804	C	C	40581804	3	2	76	1	0	0	0	0	1	0	0	0	18177	1580	55	3	1511	3	ZNF780A	19	40581804	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	822435	40581804	18547179	800	49650											
AKT2	208	broad.mit.edu	37	chr19	40741932	40741932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggttgtagaagggcaggCggccgcacatcatctcgtac	8	8	13	12	3	2	1	1	0	1	1	3	1	2	1	2	4	1	5	2	4	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:40741932C>T	uc002onf.2	-	11	1302	c.1040G>A	c.(1039-1041)CGC>CAC	p.R347H	AKT2_uc010egs.2_Missense_Mutation_p.R304H|AKT2_uc010egt.2_Missense_Mutation_p.R285H|AKT2_uc010xvj.1_Missense_Mutation_p.R285H|AKT2_uc010egu.1_Missense_Mutation_p.R285H|AKT2_uc002one.2_Missense_Mutation_p.R243H	NM_001626	NP_001617	P31751	AKT2_HUMAN	AKT2 kinase	347	Protein kinase.				insulin receptor signaling pathway|negative regulation of plasma membrane long-chain fatty acid transport|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2			Lung(22;0.000499)			GAAGGGCAGGCGGCCGCACAT	0.622			A		ovarian|pancreatic 								13	74					0	0	0.001368	0	0		T	40741932	T	T	40741932	3	4	76	1	0	0	0	0	1	0	0	0	480	768	27	1	421	1	AKT2	19	40741932	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	160128	40741932	18387051	801	49651											
SPTBN4	57731	broad.mit.edu	37	chr19	41071344	41071344	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagggacgtgtcatcagtGgaggtgctcatgaactacca	10	9	13	9	1	3	1	3	1	0	0	3	3	3	3	1	3	4	2	1	3	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:41071344G>T	uc002ony.2	+	28	6017	c.5931G>T	c.(5929-5931)GTG>GTT	p.V1977V	SPTBN4_uc002onz.2_Silent_p.V1977V|SPTBN4_uc010egx.2_Silent_p.V720V	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1977	Spectrin 17.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TGTCATCAGTGGAGGTGCTCA	0.632													7	81					2.17888e-05	2.28263e-05	0.006214	1	0		T	41071344	T	T	41071344	2	4	76	1	0	0	0	0	0	0	0	1	15146	1335	47	5		5	SPTBN4	19	41071344	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	329412	41071344	18057639	802	49652											
SNRPA	6626	broad.mit.edu	37	chr19	41265514	41265514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtccaggggcctgtccCggtaagccaggtcccggaga	6	6	16	13	2	0	1	0	0	0	1	3	2	3	1	5	6	1	2	5	6	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:41265514C>T	uc002ooz.2	+	3	960	c.425C>T	c.(424-426)CCG>CTG	p.P142L	SNRPA_uc002opa.2_Missense_Mutation_p.P92L	NM_004596	NP_004587	P09012	SNRPA_HUMAN	small nuclear ribonucleoprotein polypeptide A	142	Pro-rich.					nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding			skin(2)|ovary(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			GGGCCTGTCCCGGTAAGCCAG	0.672													16	32					0	0	0.004007	0	0		T	41265514	T	T	41265514	3	4	76	1	0	0	0	0	1	0	0	0	14884	666	23	1	435	1	SNRPA	19	41265514	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	194170	41265514	17863469	803	49653											
CYP2A13	1553	broad.mit.edu	37	chr19	41596364	41596364	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagtctccaatgtcatcagCtccattgtctttggggaccg	8	12	9	12	1	4	0	2	0	2	0	6	1	5	1	3	2	1	1	3	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:41596364C>T	uc002opt.2	+	4	558	c.549C>T	c.(547-549)AGC>AGT	p.S183S		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	183					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	ATGTCATCAGCTCCATTGTCT	0.557													23	127					0	0	0.00278	0	0		T	41596364	T	T	41596364	2	4	76	1	0	0	0	0	0	0	0	1	4164	796	28	2		2	CYP2A13	19	41596364	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	330850	41596364	17532619	804	49654											
AXL	558	broad.mit.edu	37	chr19	41726615	41726615	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggggactcacgggcaccCttcggtgtcagctccaggtt	5	8	13	15	3	2	0	2	0	0	0	4	1	3	1	3	5	1	3	3	5	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:41726615C>A	uc010ehj.2	+	2	350	c.160C>A	c.(160-162)CTT>ATT	p.L54I	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Missense_Mutation_p.L54I|AXL_uc010ehk.2_Missense_Mutation_p.L54I	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	54	Extracellular (Potential).|Interaction with GAS6.|Ig-like C2-type 1.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						CACGGGCACCCTTCGGTGTCA	0.632													6	21					0.00198382	0.00203092	0.001984	1	0		A	41726615	A	A	41726615	3	1	76	1	0	0	0	0	1	0	0	0	1239	681	24	5	166	5	AXL	19	41726615	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	130251	41726615	17402368	805	49655											
ZNF574	64763	broad.mit.edu	37	chr19	42584303	42584303	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtgcgtaaccacctgcgCacacacacaggggagcggcc	10	3	12	16	4	0	0	0	0	0	0	0	1	0	1	3	3	4	2	3	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:42584303C>T	uc002osm.3	+	2	1714	c.1545C>T	c.(1543-1545)CGC>CGT	p.R515R	ZNF574_uc002osk.3_Silent_p.R605R	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	515	C2H2-type 10; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				ACCACCTGCGCACACACACAG	0.607													69	352					0	0	0.00361	0	0		T	42584303	T	T	42584303	2	4	76	1	0	0	0	0	0	0	0	1	18031	697	25	2		2	ZNF574	19	42584303	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	857688	42584303	16544680	806	49656											
PRR19	284338	broad.mit.edu	37	chr19	42814313	42814313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaccttgccctggtgcttCggggctgccagccacccttg	3	10	12	16	1	0	1	0	1	0	0	1	1	0	1	5	3	4	2	5	3	0	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:42814313C>T	uc002oti.2	+	2	955	c.577C>T	c.(577-579)CGG>TGG	p.R193W	PRR19_uc002oth.1_Missense_Mutation_p.R193W|PRR19_uc002otj.2_Missense_Mutation_p.R193W	NM_199285	NP_954979	A6NJB7	PRR19_HUMAN	proline rich 19	193											0		Prostate(69;0.00682)				CCTGGTGCTTCGGGGCTGCCA	0.612													18	64					0	0	0.008871	0	0		T	42814313	T	T	42814313	3	4	76	1	0	0	0	0	1	0	0	0	12613	875	31	1	579	1	PRR19	19	42814313	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	230010	42814313	16314670	807	49657											
IRGQ	126298	broad.mit.edu	37	chr19	44099118	44099118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgatcacgggcctgggCggcagtctgtgaatccccag	6	9	14	12	2	3	2	1	2	2	0	4	2	4	2	3	3	0	1	3	3	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:44099118C>T	uc002oww.2	-	1	491	c.373G>A	c.(373-375)GCC>ACC	p.A125T	IRGQ_uc010eiv.2_Missense_Mutation_p.A125T|ZNF576_uc002owy.2_5'Flank|ZNF576_uc002owz.2_5'Flank|SRRM5_uc002oxb.2_5'Flank	NM_001007561	NP_001007562	Q8WZA9	IRGQ_HUMAN	immunity-related GTPase family, Q	125							protein binding			ovary(1)|pancreas(1)	2		Prostate(69;0.0199)				CGGGCCTGGGCGGCAGTCTGT	0.682													10	47					0	0	0.006214	0	0		T	44099118	T	T	44099118	3	4	76	1	0	0	0	0	1	0	0	0	7855	768	27	1	1506	1	IRGQ	19	44099118	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1284805	44099118	15029865	808	49658											
ZNF285	26974	broad.mit.edu	37	chr19	44891368	44891368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaccctttcccacattcatCgcatttgtagggcatctccc	9	12	5	15	1	2	0	1	0	1	0	5	0	3	0	3	1	1	3	3	1	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:44891368C>T	uc002ozd.3	-	4	1126	c.1039G>A	c.(1039-1041)GAT>AAT	p.D347N	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Missense_Mutation_p.D354N	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	347	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						CCACATTCATCGCATTTGTAG	0.473													13	56					0	0	0.00245	0	0		T	44891368	T	T	44891368	3	4	76	1	0	0	0	0	1	0	0	0	17847	884	31	1	737	1	ZNF285	19	44891368	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	792250	44891368	14237615	809	49659											
CLPTM1	1209	broad.mit.edu	37	chr19	45493811	45493811	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattggggtcctcatcgacCtctggaagatcaccaaggtc	9	10	10	12	1	4	1	3	0	1	1	7	3	5	2	3	4	0	0	3	4	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:45493811C>A	uc002pai.2	+	10	1306	c.1291C>A	c.(1291-1293)CTC>ATC	p.L431I	CLPTM1_uc010xxf.1_Missense_Mutation_p.L329I|CLPTM1_uc010xxg.1_Missense_Mutation_p.L417I	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane	431	Helical; (Potential).				cell differentiation|multicellular organismal development|regulation of T cell differentiation in thymus	external side of plasma membrane|integral to plasma membrane				ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00354)|Epithelial(262;0.187)		CCTCATCGACCTCTGGAAGAT	0.602													23	122					7.92952e-12	8.8306e-12	0.003954	1	0		A	45493811	A	A	45493811	3	1	76	1	0	0	0	0	1	0	0	0	3557	681	24	5	1329	5	CLPTM1	19	45493811	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	602443	45493811	13635172	810	49660											
NOVA2	4858	broad.mit.edu	37	chr19	46443245	46443245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgacccgccggttccgcGtgcctggcaggaactcgccc	4	7	14	16	5	0	1	0	1	0	0	2	2	1	2	5	4	2	2	5	4	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:46443245G>A	uc002pdv.2	-	4	1403	c.1355C>T	c.(1354-1356)ACG>ATG	p.T452M		NM_002516	NP_002507	Q9UNW9	NOVA2_HUMAN	neuro-oncological ventral antigen 2	452	KH 3.					nucleus	RNA binding				0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00245)|GBM - Glioblastoma multiforme(486;0.0782)|Epithelial(262;0.179)		CCGGTTCCGCGTGCCTGGCAG	0.667													30	142					0	0	0.002445	0	0		A	46443245	A	A	46443245	3	1	76	1	0	0	0	0	1	0	0	0	10574	1145	40	1	127	1	NOVA2	19	46443245	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	949434	46443245	12685738	811	49661											
KCNJ14	3770	broad.mit.edu	37	chr19	48967762	48967762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccagtatgaggtcgactatCgccacttccatcgcacttat	9	11	7	14	3	0	1	0	1	0	0	4	2	1	1	3	1	0	2	3	1	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:48967762C>T	uc002pje.1	+	3	1444	c.1039C>T	c.(1039-1041)CGC>TGC	p.R347C	KCNJ14_uc002pjf.1_Missense_Mutation_p.R347C	NM_013348	NP_037480	Q9UNX9	IRK14_HUMAN	potassium inwardly-rectifying channel J14	347	Cytoplasmic (By similarity).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			skin(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000109)|all cancers(93;0.000129)|Epithelial(262;0.0081)|GBM - Glioblastoma multiforme(486;0.0222)		GGTCGACTATCGCCACTTCCA	0.582													7	43					0	0	0.001984	0	0		T	48967762	T	T	48967762	3	4	76	1	0	0	0	0	1	0	0	0	8064	884	31	1	1045	1	KCNJ14	19	48967762	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2524517	48967762	10161221	812	49662											
PIH1D1	55011	broad.mit.edu	37	chr19	49951145	49951145	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggcgatggtgatcacgagCtcccgcaagaaatcgctgtt	9	9	12	11	4	1	2	1	1	0	1	3	4	2	2	1	2	1	4	1	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:49951145C>T	uc002pns.2	-	5	704	c.420G>A	c.(418-420)GAG>GAA	p.E140E	PIH1D1_uc010yap.1_Missense_Mutation_p.A171T	NM_017916	NP_060386	Q9NWS0	PIHD1_HUMAN	NOP17	140					box C/D snoRNP assembly	pre-snoRNP complex					0		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00152)|GBM - Glioblastoma multiforme(486;0.0244)		TGATCACGAGCTCCCGCAAGA	0.627													30	134					0	0	0.002836	0	0		T	49951145	T	T	49951145	2	4	76	1	0	0	0	0	0	0	0	1	11925	796	28	2		2	PIH1D1	19	49951145	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	983383	49951145	9177838	813	49663											
POLD1	5424	broad.mit.edu	37	chr19	50917112	50917112	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcaggtcacttcccgtcGcccatccggctggagtttga	5	11	12	13	3	2	1	2	1	0	0	5	2	4	2	3	3	0	2	3	3	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:50917112G>A	uc002psb.3	+	19	2420	c.2364G>A	c.(2362-2364)TCG>TCA	p.S788S	POLD1_uc002psc.3_Silent_p.S788S|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Silent_p.S814S	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	788					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		ACTTCCCGTCGCCCATCCGGC	0.637								DNA_polymerases_(catalytic_subunits)					12	64					0	0	0.000978	0	0		A	50917112	A	A	50917112	2	1	76	1	0	0	0	0	0	0	0	1	12209	1074	38	1		1	POLD1	19	50917112	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	965967	50917112	8211871	814	49664											
SIGLEC8	27181	broad.mit.edu	37	chr19	51955752	51955752	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagtggcctcctgtccctGcgggtcctgaggcttcactt	3	12	12	14	1	2	1	2	1	0	0	5	1	5	1	4	3	1	1	4	3	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:51955752G>A	uc002pwt.2	-	7	1448	c.1381C>T	c.(1381-1383)CAG>TAG	p.Q461*	SIGLEC8_uc010yda.1_Nonsense_Mutation_p.Q352*|SIGLEC8_uc002pwu.2_Intron|SIGLEC8_uc010eox.2_Nonsense_Mutation_p.Q368*	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	461	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		TCCTGTCCCTGCGGGTCCTGA	0.562													21	73					0	0	0.00333	0	0		A	51955752	A	A	51955752	4	1	76	1	0	0	0	0	0	1	0	0	14339	1328	46	2	122	2	SIGLEC8	19	51955752	Nonsense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1038640	51955752	7173231	815	49665											
ZNF534	147658	broad.mit.edu	37	chr19	52941489	52941489	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaattcacaccttgcacAacatcagaaaattcatactg	16	10	4	11	0	4	2	4	0	0	2	4	2	4	2	1	0	3	1	1	0	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:52941489A>G	uc002pzk.2	+	4	876	c.815A>G	c.(814-816)CAA>CGA	p.Q272R	ZNF534_uc002pzj.1_Intron|ZNF534_uc010epo.1_Intron|ZNF534_uc002pzl.2_Missense_Mutation_p.Q259R	NM_001143939	NP_001137411	Q76KX8	ZN534_HUMAN	zinc finger protein 534 isoform 2	272	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACCTTGCACAACATCAGAAA	0.368													5	22					0	0	0.000602	0	0		G	52941489	G	G	52941489	3	3	76	1	0	0	0	0	1	0	0	0	17998	130	5	3	829	3	ZNF534	19	52941489	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	985737	52941489	6187494	816	49666											
ZNF765	91661	broad.mit.edu	37	chr19	53911570	53911570	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggcaaggtctttaattcGaagcgatacgttgcacgcca	10	11	11	9	4	1	0	0	0	1	0	2	2	1	0	1	2	3	3	1	2	4	5	rs117283634	by1000genomes	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:53911570G>A	uc010ydx.1	+	6	1089	c.762G>A	c.(760-762)TCG>TCA	p.S254S	ZNF765_uc002qbm.2_Silent_p.S254S|ZNF765_uc002qbn.2_Intron	NM_001040185	NP_001035275	Q7L2R6	ZN765_HUMAN	zinc finger protein 765	254	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00379)		TCTTTAATTCGAAGCGATACG	0.393													6	68					0	0	0.001168	0	0		A	53911570	A	A	53911570	2	1	76	1	0	0	0	0	0	0	0	1	18164	1045	37	1		1	ZNF765	19	53911570	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	970081	53911570	5217413	817	49667											
CACNG8	59283	broad.mit.edu	37	chr19	54483177	54483177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgccatcctgctgctgctcGggggtgtgtgcgtggcggcc	1	9	18	13	4	0	0	0	0	0	0	2	0	1	0	3	4	4	3	3	4	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:54483177G>A	uc002qcs.1	+	3	527	c.421G>A	c.(421-423)GGG>AGG	p.G141R	MIR935_hsa-mir-935|MI0005757_5'Flank	NM_031895	NP_114101	Q8WXS5	CCG8_HUMAN	voltage-dependent calcium channel gamma-8	142	Helical; (Potential).				regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic density|postsynaptic membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0	all_cancers(19;0.0385)|all_epithelial(19;0.0207)|all_lung(19;0.145)|Lung NSC(19;0.168)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.162)		GCTGCTGCTCGGGGGTGTGTG	0.637													6	29					0	0	0.001168	0	0		A	54483177	A	A	54483177	3	1	76	1	0	0	0	0	1	0	0	0	2566	1116	39	1	434	1	CACNG8	19	54483177	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	571607	54483177	4645806	818	49668											
OSCAR	126014	broad.mit.edu	37	chr19	54600440	54600440	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggcttagggtggtatgAagctggggggactgaataaa	11	9	16	5	0	0	2	0	2	0	0	0	3	0	3	1	6	1	3	1	6	6	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:54600440A>G	uc002qdd.2	-	4	274	c.157T>C	c.(157-159)TCA>CCA	p.S53P	OSCAR_uc002qcy.2_Missense_Mutation_p.S32P|OSCAR_uc002qcz.2_Missense_Mutation_p.S28P|OSCAR_uc002qda.2_Missense_Mutation_p.S32P|OSCAR_uc002qdb.2_Missense_Mutation_p.S17P|OSCAR_uc010erc.2_5'UTR|OSCAR_uc002qdc.2_Missense_Mutation_p.S42P	NM_206818	NP_996554	Q8IYS5	OSCAR_HUMAN	osteoclast-associated receptor isoform 1	28	Ig-like 1.					extracellular region|integral to membrane|plasma membrane	receptor activity				0	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)					GGGTGGTATGAAGCTGGGGGG	0.592													16	59					0	0	0.003163	0	0		G	54600440	G	G	54600440	3	3	76	1	0	0	0	0	1	0	0	0	11304	246	9	3	915	3	OSCAR	19	54600440	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	117263	54600440	4528543	819	49669											
LILRB5	10990	broad.mit.edu	37	chr19	54760025	54760025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgggacccacagggaacAgggcctgggatggccctttg	8	6	15	12	1	1	0	1	0	0	0	1	3	1	3	3	5	1	0	3	5	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:54760025A>G	uc002qex.2	-	4	647	c.536T>C	c.(535-537)CTG>CCG	p.L179P	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.L170P|LILRB5_uc002qey.2_Missense_Mutation_p.L179P|LILRB5_uc002qez.2_Intron|LILRB5_uc002qfa.1_Intron|LILRB5_uc010yes.1_Intron	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	179	Extracellular (Potential).|Ig-like C2-type 2.				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CACAGGGAACAGGGCCTGGGA	0.557													13	78					0	0	0.001368	0	0		G	54760025	G	G	54760025	3	3	76	1	0	0	0	0	1	0	0	0	8810	188	7	3	1279	3	LILRB5	19	54760025	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	159585	54760025	4368958	820	49670											
BRSK1	84446	broad.mit.edu	37	chr19	55814186	55814186	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagagagcatggcatcactgGgctgcttcagggaccgcgag	9	7	15	10	2	2	1	2	0	0	1	2	4	2	2	1	3	2	4	1	3	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:55814186G>T	uc002qkg.2	+	10	1256	c.979G>T	c.(979-981)GGC>TGC	p.G327C	BRSK1_uc002qkf.2_Missense_Mutation_p.G343C|BRSK1_uc002qkh.2_Missense_Mutation_p.G22C	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	327	UBA.			G->A: Abolishes activation of kinase activity.	establishment of cell polarity|G2/M transition DNA damage checkpoint|neuron differentiation|response to UV	cell junction|cytoplasm|nucleus	magnesium ion binding|protein serine/threonine kinase activity	p.G327D(1)		ovary(2)|stomach(1)|lung(1)|breast(1)|skin(1)	6		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0474)		GGCATCACTGGGCTGCTTCAG	0.682													14	74					4.3838e-07	4.70223e-07	0.001855	1	0		T	55814186	T	T	55814186	3	4	76	1	0	0	0	0	1	0	0	0	1526	1232	43	5	1017	5	BRSK1	19	55814186	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1054161	55814186	3314797	821	49671											
ZNF587	84914	broad.mit.edu	37	chr19	58367595	58367595	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacctggctctcatatccTcgctgggtaagttgctcacg	8	11	10	12	2	2	1	2	0	1	1	5	1	3	1	2	2	2	5	2	2	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:58367595T>A	uc002qql.2	+	2	295	c.157T>A	c.(157-159)TCG>ACG	p.S53T	ZNF587_uc002qqb.2_Missense_Mutation_p.S10T|ZNF587_uc010yhh.1_Missense_Mutation_p.S10T|ZNF587_uc002qqi.1_Missense_Mutation_p.S10T|ZNF587_uc002qqj.1_RNA|ZNF814_uc002qqk.2_Intron|ZNF587_uc010yhk.1_Missense_Mutation_p.S52T	NM_032828	NP_116217	Q96SQ5	ZN587_HUMAN	zinc finger protein 587	53	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)		TCTCATATCCTCGCTGGGTAA	0.502													19	52					0	0	0.00278	0	0		A	58367595	A	A	58367595	3	1	76	1	0	0	0	0	1	0	0	0	18045	1551	54	5	163	5	ZNF587	19	58367595	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2553409	58367595	761388	822	49672											
ZNF606	80095	broad.mit.edu	37	chr19	58491210	58491210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctccagtttgtattcttgCagggtaaataggttgaatgg	10	15	11	5	0	2	1	0	1	2	0	3	1	2	1	1	3	1	5	1	3	5	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:58491210C>T	uc002qqw.2	-	7	1456	c.838G>A	c.(838-840)GCA>ACA	p.A280T	ZNF606_uc010yhp.1_Missense_Mutation_p.A190T	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	280					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		TGTATTCTTGCAGGGTAAATA	0.328													8	55					0	0	0.004482	0	0		T	58491210	T	T	58491210	3	4	76	1	0	0	0	0	1	0	0	0	18057	710	25	2	1544	2	ZNF606	19	58491210	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	123615	58491210	637773	823	49673											
ZBTB45	84878	broad.mit.edu	37	chr19	59027859	59027859	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggctcagcacctggggtGcgagcaggggtgcctgaggg	5	6	21	9	1	1	1	1	1	0	0	1	2	1	1	2	7	4	3	2	7	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr19:59027859G>A	uc002qtd.2	-	2	1474	c.1182C>T	c.(1180-1182)CGC>CGT	p.R394R	ZBTB45_uc002qte.2_Silent_p.R394R|ZBTB45_uc002qtf.2_Silent_p.R394R	NM_032792	NP_116181	Q96K62	ZBT45_HUMAN	zinc finger and BTB domain containing 45	394	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0165)|Lung(386;0.18)		CACCTGGGGTGCGAGCAGGGG	0.647													9	22					0	0	0.004482	0	0		A	59027859	A	A	59027859	2	1	76	1	0	0	0	0	0	0	0	1	17571	1306	46	2		2	ZBTB45	19	59027859	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	536649	59027859	101124	824	49674											
ProSAPiP1	9762	broad.mit.edu	37	chr20	3145154	3145154	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagggggtccaggccttcttCtcctcgccatgctggggagt	4	10	15	12	1	2	0	0	0	2	0	5	2	3	1	4	5	1	1	4	5	0	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:3145154C>T	uc002wia.1	-	3	3366	c.1968G>A	c.(1966-1968)GAG>GAA	p.E656E	ProSAPiP1_uc002wib.1_Silent_p.E610E	NM_014731	NP_055546	O60299	PRIP1_HUMAN	ProSAPiP1 protein	656						cell junction|cytoplasm|postsynaptic density|postsynaptic membrane				pancreas(1)	1						AGGCCTTCTTCTCCTCGCCAT	0.642													20	87					0	0	0.00278	0	0		T	3145154	T	T	3145154	2	4	76	1	0	0	0	0	0	0	0	1	12895	912	32	4		4	ProSAPiP1	20	3145154	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08		3145154	59880366	825	49675											
ITPA	3704	broad.mit.edu	37	chr20	3204042	3204042	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcctaaggcggagaagaaCgctgtctcccatcgcttccg	9	8	11	13	4	1	2	0	0	1	2	4	3	2	2	3	2	2	2	3	2	3	2	rs145578636	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:3204042C>T	uc002wid.2	+	8	661	c.519C>T	c.(517-519)AAC>AAT	p.N173N	ITPA_uc002wie.2_Silent_p.N156N|ITPA_uc002wif.2_RNA	NM_033453	NP_258412	Q9BY32	ITPA_HUMAN	inosine triphosphatase isoform a	173					nucleotide metabolic process	cytoplasm	metal ion binding|nucleoside-triphosphate diphosphatase activity|nucleotide binding			ovary(1)	1						CGGAGAAGAACGCTGTCTCCC	0.622													9	41					0	0	0.006214	0	0		T	3204042	T	T	3204042	2	4	76	1	0	0	0	0	0	0	0	1	7931	535	19	1		1	ITPA	20	3204042	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	58888	3204042	59821478	826	49676											
KIF16B	55614	broad.mit.edu	37	chr20	16359990	16359990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaatcttgaggcacttccGtgacatctgtgacactctca	10	11	8	12	2	3	3	1	3	3	0	5	4	4	3	1	1	0	1	1	1	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:16359990G>A	uc002wpg.1	-	19	2815	c.2657C>T	c.(2656-2658)ACG>ATG	p.T886M	KIF16B_uc002wpe.1_Missense_Mutation_p.T268M|KIF16B_uc002wpf.1_Missense_Mutation_p.T268M|KIF16B_uc010gch.1_Missense_Mutation_p.T886M|KIF16B_uc010gci.1_Missense_Mutation_p.T886M|KIF16B_uc010gcj.1_Missense_Mutation_p.T897M	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	886	Glu-rich.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						AGGCACTTCCGTGACATCTGT	0.418													16	84					0	0	0.003163	0	0		A	16359990	A	A	16359990	3	1	76	1	0	0	0	0	1	0	0	0	8294	1145	40	1	1328	1	KIF16B	20	16359990	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	13155948	16359990	46665530	827	49677											
NKX2-2	4821	broad.mit.edu	37	chr20	21492693	21492693	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcagaaaagggaatgccCgcctggaaggtggcggctgc	10	5	17	9	2	0	1	0	0	0	1	0	3	0	3	2	6	2	2	2	6	5	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:21492693C>T	uc002wsi.2	-	2	1047	c.690G>A	c.(688-690)GCG>GCA	p.A230A		NM_002509	NP_002500	O95096	NKX22_HUMAN	NK2 transcription factor related, locus 2	230					brain development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	chromatin binding|core promoter proximal region DNA binding|transcription coactivator activity			pancreas(1)|skin(1)	2						AGGGAATGCCCGCCTGGAAGG	0.672													12	53					0	0	0.001368	0	0		T	21492693	T	T	21492693	2	4	76	1	0	0	0	0	0	0	0	1	10469	639	23	1		1	NKX2-2	20	21492693	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	5132703	21492693	41532827	828	49678											
SSTR4	6754	broad.mit.edu	37	chr20	23016705	23016705	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggctcgcggcggccaggcCgtggcctgcaacctgcagtg	4	5	16	16	5	0	0	0	0	0	0	1	0	0	0	5	5	3	3	5	5	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:23016705C>T	uc002wsr.2	+	1	649	c.585C>T	c.(583-585)GCC>GCT	p.A195A		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	195	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GCGGCCAGGCCGTGGCCTGCA	0.662													13	85					0	0	0.004007	0	0		T	23016705	T	T	23016705	2	4	76	1	0	0	0	0	0	0	0	1	15225	639	23	1		1	SSTR4	20	23016705	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1524012	23016705	40008815	829	49679											
HCK	3055	broad.mit.edu	37	chr20	30672331	30672331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacttggagctgggcagtttGgggaagtctggatgggtaag	9	10	18	4	0	1	0	0	0	1	0	1	3	1	3	0	6	2	4	0	6	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:30672331G>A	uc002wxh.2	+	8	991	c.820G>A	c.(820-822)GGG>AGG	p.G274R	HCK_uc010gdy.2_Missense_Mutation_p.G253R|HCK_uc002wxi.2_Missense_Mutation_p.G252R	NM_002110	NP_002101	P08631	HCK_HUMAN	hemopoietic cell kinase isoform p61HCK	274	Protein kinase.|ATP.				interspecies interaction between organisms|mesoderm development|regulation of defense response to virus by virus|viral reproduction	caveola|cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|ovary(2)|central_nervous_system(2)|pancreas(1)	9			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			TGGGCAGTTTGGGGAAGTCTG	0.587													8	57					0	0	0.004482	0	0		A	30672331	A	A	30672331	3	1	76	1	0	0	0	0	1	0	0	0	7010	1348	47	4	856	4	HCK	20	30672331	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	7655626	30672331	32353189	830	49680											
ASXL1	171023	broad.mit.edu	37	chr20	30956840	30956840	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacttcccctctcgcatgcCtcaatgctatgctacattcc	7	12	6	16	1	2	0	1	0	1	0	5	1	4	1	4	1	4	3	4	1	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:30956840C>A	uc002wxs.2	+	3	592	c.166C>A	c.(166-168)CTC>ATC	p.L56I	ASXL1_uc002wxr.1_RNA|ASXL1_uc002wxt.2_RNA|ASXL1_uc010geb.2_5'UTR	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	56					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						TCTCGCATGCCTCAATGCTAT	0.443			F|N|Mis		MDS|CMML								9	62					7.48243e-07	8.00999e-07	0.006214	1	0		A	30956840	A	A	30956840	3	1	76	1	0	0	0	0	1	0	0	0	1067	681	24	5	176	5	ASXL1	20	30956840	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	284509	30956840	32068680	831	49681											
ASXL1	171023	broad.mit.edu	37	chr20	31022318	31022318	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccggatcatccccaccacGgagtcctcctgccggggttg	5	7	11	18	3	1	0	1	0	0	0	4	2	4	2	8	4	1	1	8	4	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:31022318G>A	uc002wxs.2	+	12	2229	c.1803G>A	c.(1801-1803)ACG>ACA	p.T601T	ASXL1_uc010geb.2_Silent_p.T492T	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	601					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding	p.Q592fs*5(1)		haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						TCCCCACCACGGAGTCCTCCT	0.562			F|N|Mis		MDS|CMML								14	59					0	0	0.00245	0	0		A	31022318	A	A	31022318	2	1	76	1	0	0	0	0	0	0	0	1	1067	1103	39	1		1	ASXL1	20	31022318	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	65478	31022318	32003202	832	49682											
BPIL3	128859	broad.mit.edu	37	chr20	31619462	31619462	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acaggtggtgccatgctgcgGatcctgtgcctggcactctg	5	10	14	12	1	1	0	0	0	1	0	2	1	2	1	3	4	4	2	3	4	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:31619462G>A	uc010zuc.1	+	1	9	c.9G>A	c.(7-9)CGG>CGA	p.R3R	BPIL3_uc010zud.1_5'UTR	NM_174897	NP_777557	Q8NFQ5	BPIL3_HUMAN	bactericidal/permeability-increasing	3						extracellular region	lipid binding			ovary(1)|pancreas(1)	2						CCATGCTGCGGATCCTGTGCC	0.642													5	22					0	0	0.000602	0	0		A	31619462	A	A	31619462	2	1	76	1	0	0	0	0	0	0	0	1	1496	1161	41	4		4	BPIL3	20	31619462	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	597144	31619462	31406058	833	49683											
NCOA6	23054	broad.mit.edu	37	chr20	33330813	33330813	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcacggaggcaggtccttGcagactgaccatgacaggca	10	6	14	11	1	0	3	0	2	0	1	1	4	1	4	2	5	1	4	2	5	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:33330813G>A	uc002xav.2	-	12	5818	c.3247C>T	c.(3247-3249)CAA>TAA	p.Q1083*	NCOA6_uc002xaw.2_Nonsense_Mutation_p.Q1083*	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1083	NCOA1-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						GCAGGTCCTTGCAGACTGACC	0.522													20	127					0	0	0.007413	0	0		A	33330813	A	A	33330813	4	1	76	1	0	0	0	0	0	1	0	0	10252	1328	46	2	2964	2	NCOA6	20	33330813	Nonsense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1711351	33330813	29694707	834	49684											
NCOA6	23054	broad.mit.edu	37	chr20	33331122	33331122	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctgctgaagtggcctctGttcaactggttgagaaggat	9	12	12	8	0	3	2	1	2	2	1	3	4	3	3	1	3	2	3	1	3	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:33331122G>A	uc002xav.2	-	12	5509	c.2938C>T	c.(2938-2940)CAG>TAG	p.Q980*	NCOA6_uc002xaw.2_Nonsense_Mutation_p.Q980*	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	980	NCOA1-binding region.|Gln-rich.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						AGTGGCCTCTGTTCAACTGGT	0.502													15	79					0	0	0.007413	0	0		A	33331122	A	A	33331122	4	1	76	1	0	0	0	0	0	1	0	0	10252	1386	48	4	3273	4	NCOA6	20	33331122	Nonsense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	309	33331122	29694398	835	49685											
GGT7	2686	broad.mit.edu	37	chr20	33442648	33442648	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggataccaggctggtgagaTtgaagccctccaggatgttg	9	9	15	8	0	0	2	0	2	0	1	1	5	1	4	3	4	2	2	3	4	2	3	rs141899095	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:33442648T>C	uc002xay.2	-	9	1224	c.1181A>G	c.(1180-1182)AAT>AGT	p.N394S	GGT7_uc002xaz.1_Missense_Mutation_p.N411S	NM_178026	NP_821158	Q9UJ14	GGT7_HUMAN	gamma-glutamyltransferase 7	394	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(1)	1						GCTGGTGAGATTGAAGCCCTC	0.572													5	68					0	0	0.000602	0	0		C	33442648	C	C	33442648	3	2	76	1	0	0	0	0	1	0	0	0	6379	1493	52	3	835	3	GGT7	20	33442648	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	111526	33442648	29582872	836	49686											
ERGIC3	51614	broad.mit.edu	37	chr20	34143892	34143892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaccacaccaatgtcactgCgccccaaggtaccagcccgg	10	4	10	17	2	1	0	1	0	0	0	1	1	1	1	6	3	3	1	6	3	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:34143892C>T	uc002xct.2	+	9	875	c.806C>T	c.(805-807)GCG>GTG	p.A269V	ERGIC3_uc010zvg.1_Missense_Mutation_p.A269V|ERGIC3_uc002xcs.2_Missense_Mutation_p.A274V|ERGIC3_uc002xcu.2_Missense_Mutation_p.A284V|ERGIC3_uc002xcv.2_Missense_Mutation_p.A232V	NM_015966	NP_057050	Q9Y282	ERGI3_HUMAN	serologically defined breast cancer antigen 84	269	Lumenal (Potential).				vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane	protein binding			large_intestine(2)|ovary(1)	3	Lung NSC(9;0.00489)|all_lung(11;0.00729)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			AATGTCACTGCGCCCCAAGGT	0.587													29	174					0	0	0.00632	0	0		T	34143892	T	T	34143892	3	4	76	1	0	0	0	0	1	0	0	0	5233	768	27	1	859	1	ERGIC3	20	34143892	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	701244	34143892	28881628	837	49687											
RBM39	9584	broad.mit.edu	37	chr20	34313012	34313012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttggtcgaattcttgccGccagctgcatacagaagact	9	10	9	13	2	1	2	0	0	1	2	2	3	1	2	3	1	4	2	3	1	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:34313012G>A	uc002xeb.2	-	7	826	c.482C>T	c.(481-483)GCG>GTG	p.A161V	RBM39_uc002xdz.2_Missense_Mutation_p.A137V|RBM39_uc002xea.2_Missense_Mutation_p.A4V|RBM39_uc010gfn.2_Missense_Mutation_p.A4V|RBM39_uc010zvm.1_Missense_Mutation_p.A139V|RBM39_uc002xeg.2_Missense_Mutation_p.A139V|RBM39_uc002xec.2_Missense_Mutation_p.A161V|RBM39_uc002xed.2_5'UTR|RBM39_uc002xee.2_Missense_Mutation_p.A4V|RBM39_uc002xef.2_Missense_Mutation_p.A4V|RBM39_uc010zvn.1_Missense_Mutation_p.A4V	NM_184234	NP_909122	Q14498	RBM39_HUMAN	RNA binding motif protein 39 isoform a	161	RRM 1.				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	centrosome|nuclear speck	nucleotide binding|protein binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_epithelial(2;0.00295)|Lung NSC(9;0.00453)|Breast(12;0.00544)|all_lung(11;0.00676)					AATTCTTGCCGCCAGCTGCAT	0.368													11	86					0	0	0.00245	0	0		A	34313012	A	A	34313012	3	1	76	1	0	0	0	0	1	0	0	0	13158	1087	38	1	1154	1	RBM39	20	34313012	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	169120	34313012	28712508	838	49688											
KCNB1	3745	broad.mit.edu	37	chr20	47991220	47991220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagatctggaccacgcggcGgacattctggaattgcagca	11	7	13	10	3	2	1	0	0	2	1	2	5	2	4	1	4	2	2	1	4	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:47991220G>A	uc002xur.1	-	2	1041	c.877C>T	c.(877-879)CGC>TGC	p.R293C	KCNB1_uc002xus.1_Missense_Mutation_p.R293C	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	293					energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			ACCACGCGGCGGACATTCTGG	0.542													17	77					0	0	0.00499	0	0		A	47991220	A	A	47991220	3	1	76	1	0	0	0	0	1	0	0	0	8028	1116	39	1	1703	1	KCNB1	20	47991220	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	13678208	47991220	15034300	839	49689											
ZNF217	7764	broad.mit.edu	37	chr20	52192367	52192367	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcagcacatttggagaaTcgacctcgctggagctcagg	10	8	12	11	2	2	1	2	0	0	1	4	4	2	2	1	3	2	3	1	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:52192367T>A	uc002xwq.3	-	3	3207	c.2936A>T	c.(2935-2937)GAT>GTT	p.D979V	ZNF217_uc010gij.1_Missense_Mutation_p.D971V	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	979					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			ATTTGGAGAATCGACCTCGCT	0.552													12	61					0	0	0.000978	0	0		A	52192367	A	A	52192367	3	1	76	1	0	0	0	0	1	0	0	0	17797	1435	50	5	218	5	ZNF217	20	52192367	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	4201147	52192367	10833153	840	49690											
DOK5	55816	broad.mit.edu	37	chr20	53205319	53205319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggagagcctgacttactggCcactggggttgagagagaac	10	8	15	8	0	0	4	0	2	0	3	0	7	0	4	2	4	3	1	2	4	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:53205319C>T	uc002xwy.2	+	4	603	c.383C>T	c.(382-384)GCC>GTC	p.A128V	DOK5_uc010gin.2_Missense_Mutation_p.A20V|DOK5_uc002xwz.2_Missense_Mutation_p.P12S	NM_018431	NP_060901	Q9P104	DOK5_HUMAN	docking protein 5	128							insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)			GACTTACTGGCCACTGGGGTT	0.418													11	48					0	0	0.000978	0	0		T	53205319	T	T	53205319	3	4	76	1	0	0	0	0	1	0	0	0	4706	739	26	2	397	2	DOK5	20	53205319	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1012952	53205319	9820201	841	49691											
GMEB2	26205	broad.mit.edu	37	chr20	62221599	62221599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggcccaggccaggcaacGtgagcagctgtagcgggctg	7	5	18	11	2	0	1	0	1	0	0	0	1	0	1	2	5	4	5	2	5	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:62221599G>A	uc002yfp.1	-	9	1915	c.1436C>T	c.(1435-1437)ACG>ATG	p.T479M	GMEB2_uc002yfo.1_Missense_Mutation_p.T401M|GMEB2_uc002yfq.1_Missense_Mutation_p.T479M	NM_012384	NP_036516	Q9UKD1	GMEB2_HUMAN	glucocorticoid modulatory element binding	479					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|metal ion binding				0	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;4.79e-09)|all cancers(9;2.76e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.0114)			GCCAGGCAACGTGAGCAGCTG	0.697													9	59					0	0	0.006214	0	0		A	62221599	A	A	62221599	3	1	76	1	0	0	0	0	1	0	0	0	6503	1145	40	1	160	1	GMEB2	20	62221599	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	9016280	62221599	803921	842	49692											
ZGPAT	84619	broad.mit.edu	37	chr20	62364695	62364695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcctctggcacgcagcaCgcatcaccggtgaggctggc	7	6	14	14	3	2	1	1	1	1	0	2	1	2	1	2	5	1	5	2	5	0	0	rs145256068		TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr20:62364695C>T	uc002ygk.2	+	3	887	c.709C>T	c.(709-711)CGC>TGC	p.R237C	ZGPAT_uc002ygi.2_Missense_Mutation_p.R237C|ZGPAT_uc002ygj.2_Missense_Mutation_p.R237C|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Missense_Mutation_p.R237C|ZGPAT_uc002ygm.2_Missense_Mutation_p.R237C|ZGPAT_uc002ygn.3_RNA|LIME1_uc011abi.1_5'Flank	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	237					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					GCACGCAGCACGCATCACCGG	0.672													6	31					0	0	0.001168	0	0		T	62364695	T	T	62364695	3	4	76	1	0	0	0	0	1	0	0	0	17699	536	19	1	715	1	ZGPAT	20	62364695	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	143096	62364695	660825	843	49693											
KRTAP11-1	337880	broad.mit.edu	37	chr21	32253379	32253379	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcttcggcagctggacacGcaggactgctgatacgtcct	7	10	12	12	3	1	1	0	1	1	0	3	3	2	3	1	3	3	5	1	3	1	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr21:32253379G>A	uc002yov.2	-	1	496	c.465C>T	c.(463-465)TGC>TGT	p.C155C		NM_175858	NP_787054	Q8IUC1	KR111_HUMAN	keratin associated protein 11-1	155						keratin filament	structural molecule activity			pancreas(1)	1						AGCTGGACACGCAGGACTGCT	0.582													21	107					0	0	0.010504	0	0		A	32253379	A	A	32253379	2	1	76	1	0	0	0	0	0	0	0	1	8533	1079	38	1		1	KRTAP11-1	21	32253379	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08		32253379	15876516	844	49694											
TIAM1	7074	broad.mit.edu	37	chr21	32617947	32617947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtctatcccagacctgcCgtcgctctcgtagaaaaata	10	10	9	12	3	2	2	0	0	2	2	5	2	3	2	3	1	1	2	3	1	5	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr21:32617947C>T	uc002yow.1	-	7	1913	c.1441G>A	c.(1441-1443)GGC>AGC	p.G481S	TIAM1_uc011adk.1_Missense_Mutation_p.G481S|TIAM1_uc011adl.1_Missense_Mutation_p.G481S|TIAM1_uc002yox.1_Missense_Mutation_p.G89S	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	481	PH 1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CCAGACCTGCCGTCGCTCTCG	0.527													6	30					0	0	0.001984	0	0		T	32617947	T	T	32617947	3	4	76	1	0	0	0	0	1	0	0	0	15915	652	23	1	3426	1	TIAM1	21	32617947	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	364568	32617947	15511948	845	49695											
GART	2618	broad.mit.edu	37	chr21	34882226	34882226	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgactttcacacgtggggaAccttcatttcaaacatatcc	11	13	6	11	1	3	1	3	1	0	0	4	2	4	2	2	2	2	0	2	2	3	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr21:34882226A>G	uc002yrx.2	-	18	2451	c.2316T>C	c.(2314-2316)GGT>GGC	p.G772G	GART_uc002yrz.2_Silent_p.G772G|GART_uc010gmd.2_Silent_p.G434G|GART_uc002yry.2_Silent_p.G772G	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	772	AIRS.				'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	CACGTGGGGAACCTTCATTTC	0.303													11	22					0	0	0.000978	0	0		G	34882226	G	G	34882226	2	3	76	1	0	0	0	0	0	0	0	1	6258	57	2	3		3	GART	21	34882226	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	2264279	34882226	13247669	846	49696											
GART	2618	broad.mit.edu	37	chr21	34903066	34903066	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtcttcgggaagtaccTgaggggctggacaataggct	10	8	15	8	1	1	2	0	1	1	1	2	4	1	4	1	5	1	3	1	5	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr21:34903066T>C	uc002yrx.2	-	7	857	c.722A>G	c.(721-723)CAG>CGG	p.Q241R	GART_uc002yrz.2_Missense_Mutation_p.Q241R|GART_uc010gmd.2_5'UTR|GART_uc002yry.2_Missense_Mutation_p.Q241R|GART_uc002ysa.2_Missense_Mutation_p.Q241R	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	241	ATP-grasp.				'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	GGGAAGTACCTGAGGGGCTGG	0.483													10	48					0	0	0.001368	0	0		C	34903066	C	C	34903066	3	2	76	1	0	0	0	0	1	0	0	0	6258	1594	55	3	2378	3	GART	21	34903066	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	20840	34903066	13226829	847	49697											
TTC3	7267	broad.mit.edu	37	chr21	38522411	38522411	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatatgtcttacccctgacTgtgaaggtgtcatttctaag	10	14	9	8	0	3	2	1	2	2	0	3	3	3	2	2	1	1	0	2	1	5	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr21:38522411T>C	uc002yvz.2	+	24	2257	c.2152T>C	c.(2152-2154)TGT>CGT	p.C718R	TTC3_uc011aee.1_Missense_Mutation_p.C408R|TTC3_uc002ywa.2_Missense_Mutation_p.C718R|TTC3_uc002ywb.2_Missense_Mutation_p.C718R|TTC3_uc010gnf.2_Missense_Mutation_p.C483R|TTC3_uc002ywc.2_Missense_Mutation_p.C408R|TTC3_uc011aed.1_Missense_Mutation_p.C408R	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	718					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				TACCCCTGACTGTGAAGGTGT	0.323													7	30					0	0	0.00308	0	0		C	38522411	C	C	38522411	3	2	76	1	0	0	0	0	1	0	0	0	16723	1580	55	3	2242	3	TTC3	21	38522411	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3619345	38522411	9607484	848	49698											
POFUT2	23275	broad.mit.edu	37	chr21	46689763	46689763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctccataccctttctgaCggcatctgtggccacaaaca	11	9	7	14	1	2	1	0	1	2	0	3	1	3	1	3	2	3	2	3	2	3	2	rs141785110	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr21:46689763C>T	uc002zhc.2	-	7	1028	c.1003G>A	c.(1003-1005)GTC>ATC	p.V335I	POFUT2_uc002zha.2_RNA|POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Missense_Mutation_p.V335I	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	335					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)		CCCTTTCTGACGGCATCTGTG	0.383													9	57					0	0	0.000978	0	0		T	46689763	T	T	46689763	3	4	76	1	0	0	0	0	1	0	0	0	12203	536	19	1	437	1	POFUT2	21	46689763	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	8167352	46689763	1440132	849	49699											
COL6A1	1291	broad.mit.edu	37	chr21	47401807	47401807	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccctgctgctgcaggccTgctggacagccgcgcaggat	5	7	14	15	2	0	0	0	0	0	0	0	2	0	2	4	3	6	5	4	3	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr21:47401807T>C	uc002zhu.1	+	1	145	c.43T>C	c.(43-45)TGC>CGC	p.C15R		NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	15					axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	GCTGCAGGCCTGCTGGACAGC	0.736													8	12					0	0	0.008291	0	0		C	47401807	C	C	47401807	3	2	76	1	0	0	0	0	1	0	0	0	3702	1580	55	3	45	3	COL6A1	21	47401807	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	712044	47401807	728088	850	49700											
COL6A2	1292	broad.mit.edu	37	chr21	47552160	47552160	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactccttctcgcacgtgggCgcaggcgtggtgcacgccat	6	8	13	14	5	1	0	0	0	1	0	3	0	2	0	2	3	2	3	2	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr21:47552160C>T	uc002zia.1	+	28	2836	c.2754C>T	c.(2752-2754)GGC>GGT	p.G918G	COL6A2_uc002zib.1_Silent_p.G324G|COL6A2_uc002zic.1_5'UTR|COL6A2_uc010gqe.1_RNA	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	918	Nonhelical region.|VWFA 3.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		CGCACGTGGGCGCAGGCGTGG	0.677													5	28					0	0	0.000602	0	0		T	47552160	T	T	47552160	2	4	76	1	0	0	0	0	0	0	0	1	3703	755	27	1		1	COL6A2	21	47552160	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	150353	47552160	577735	851	49701											
PCNT	5116	broad.mit.edu	37	chr21	47841889	47841889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggtgtttttaggtgacGgctcgggttttggagcaaga	6	14	16	5	2	0	2	0	1	0	1	1	3	0	3	0	5	1	4	0	5	2	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr21:47841889G>A	uc002zji.3	+	32	7137	c.7030G>A	c.(7030-7032)GGC>AGC	p.G2344S	PCNT_uc002zjj.2_Missense_Mutation_p.G2226S	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2344					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TTTAGGTGACGGCTCGGGTTT	0.637													13	76					0	0	0.00245	0	0		A	47841889	A	A	47841889	3	1	76	1	0	0	0	0	1	0	0	0	11609	1116	39	1	7156	1	PCNT	21	47841889	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	289729	47841889	288006	852	49702											
CCT8L2	150160	broad.mit.edu	37	chr22	17072813	17072813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatcctccagtgtcccccCgggcagcgcgcacaccccaa	8	4	10	19	3	0	0	0	0	0	0	3	1	3	1	7	2	1	2	7	2	2	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:17072813C>T	uc002zlp.1	-	1	888	c.628G>A	c.(628-630)GGG>AGG	p.G210R		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	210					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				AGTGTCCCCCCGGGCAGCGCG	0.612													16	98					0	0	0.004007	0	0		T	17072813	T	T	17072813	3	4	76	1	0	0	0	0	1	0	0	0	2964	652	23	1	1049	1	CCT8L2	22	17072813	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08		17072813	34231753	853	49703											
SLC25A18	83733	broad.mit.edu	37	chr22	18072980	18072980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttattgggattggagagcGcatcttaaagtgttttgact	9	17	11	4	1	1	2	0	1	1	1	1	4	1	3	0	2	1	2	0	2	3	7	rs140365489	byFrequency	TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:18072980G>A	uc002zmp.1	+	11	1420	c.926G>A	c.(925-927)CGC>CAC	p.R309H	SLC25A18_uc002zmq.1_Missense_Mutation_p.R309H	NM_031481	NP_113669	Q9H1K4	GHC2_HUMAN	solute carrier	309						integral to membrane|mitochondrial inner membrane	binding|symporter activity				0				Lung(27;0.124)	L-Glutamic Acid(DB00142)	ATTGGAGAGCGCATCTTAAAG	0.542													28	121					0	0	0.002836	0	0		A	18072980	A	A	18072980	3	1	76	1	0	0	0	0	1	0	0	0	14505	1087	38	1	960	1	SLC25A18	22	18072980	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1000167	18072980	33231586	854	49704											
DGCR14	8220	broad.mit.edu	37	chr22	19130370	19130370	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcctggagcttctccacaTcaggaaagaaatccctttgg	10	10	10	11	0	2	1	1	0	1	1	4	3	3	3	3	3	2	1	3	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:19130370T>G	uc002zou.2	-	2	210	c.173A>C	c.(172-174)GAT>GCT	p.D58A	DGCR14_uc002zot.2_5'UTR|DGCR14_uc002zov.2_RNA	NM_022719	NP_073210	Q96DF8	DGC14_HUMAN	DiGeorge syndrome critical region protein 14	58					nervous system development	catalytic step 2 spliceosome				ovary(1)	1	Colorectal(54;0.0993)					CTTCTCCACATCAGGAAAGAA	0.438													23	138					0	0	0.00278	0	0		G	19130370	G	G	19130370	3	3	76	1	0	0	0	0	1	0	0	0	4466	1435	50	5	1293	5	DGCR14	22	19130370	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	1057390	19130370	32174196	855	49705											
CLDN5	7122	broad.mit.edu	37	chr22	19511290	19511290	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgcccagccgatgtacagCgctgcgcccagctcgtactt	6	7	11	17	5	0	0	0	0	0	0	1	1	0	0	4	0	6	4	4	0	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:19511290C>T	uc002zpu.2	-	2	959	c.744G>A	c.(742-744)GCG>GCA	p.A248A	CLDN5_uc010grr.2_Silent_p.A248A	NM_003277	NP_003268	O00501	CLD5_HUMAN	claudin 5	163	Helical; (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity				0	Colorectal(54;0.0993)					CGATGTACAGCGCTGCGCCCA	0.672													5	20					0	0	0.000602	0	0		T	19511290	T	T	19511290	2	4	76	1	0	0	0	0	0	0	0	1	3491	755	27	1		1	CLDN5	22	19511290	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	380920	19511290	31793276	856	49706											
TBX1	6899	broad.mit.edu	37	chr22	19748693	19748693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggccgcagccaaggcgccGgtgaagaagaacgcgaaggt	11	2	17	11	6	0	3	0	1	0	2	0	4	0	3	3	4	2	1	3	4	5	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:19748693G>A	uc002zqb.2	+	3	429	c.300G>A	c.(298-300)CCG>CCA	p.P100P	TBX1_uc002zqa.1_Silent_p.P100P|TBX1_uc002zqc.2_Silent_p.P100P	NM_080646	NP_542377	O43435	TBX1_HUMAN	T-box 1 isoform A	100					embryonic viscerocranium morphogenesis|heart development|parathyroid gland development|pharyngeal system development|regulation of transcription from RNA polymerase II promoter|soft palate development|thymus development	nucleus	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)	2	Colorectal(54;0.0993)	all_lung(157;3.05e-06)				CCAAGGCGCCGGTGAAGAAGA	0.493													6	21					0	0	0.001168	0	0		A	19748693	A	A	19748693	2	1	76	1	0	0	0	0	0	0	0	1	15675	1103	39	1		1	TBX1	22	19748693	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	237403	19748693	31555873	857	49707											
ARVCF	421	broad.mit.edu	37	chr22	19961272	19961272	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagttccacaagcaccggCagcccgcgctctttgcgcac	8	6	10	17	4	1	0	0	0	1	0	2	0	2	0	3	1	4	6	3	1	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:19961272C>T	uc002zqz.2	-	13	2404	c.2133G>A	c.(2131-2133)CTG>CTA	p.L711L	ARVCF_uc002zqy.2_Silent_p.L227L	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	711	ARM 8.				cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					CAAGCACCGGCAGCCCGCGCT	0.657													35	110					0	0	0.003271	0	0		T	19961272	T	T	19961272	2	4	76	1	0	0	0	0	0	0	0	1	1004	697	25	2		2	ARVCF	22	19961272	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	212579	19961272	31343294	858	49708											
GNAZ	2781	broad.mit.edu	37	chr22	23438138	23438138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgctgacccgcatcatcCgggccctggccgccctcagg	5	6	11	19	4	2	1	2	1	0	0	4	1	3	1	5	3	0	2	5	3	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:23438138C>T	uc002zwu.1	+	2	793	c.256C>T	c.(256-258)CGG>TGG	p.R86W	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	86						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		CCGCATCATCCGGGCCCTGGC	0.632													44	229					0	0	0.002852	0	0		T	23438138	T	T	23438138	3	4	76	1	0	0	0	0	1	0	0	0	6529	643	23	1	258	1	GNAZ	22	23438138	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3476866	23438138	27866428	859	49709											
CABIN1	23523	broad.mit.edu	37	chr22	24572175	24572175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcccccacaagttcccCggcagagccacactgctggc	8	5	11	17	1	0	1	0	0	0	1	1	2	1	1	5	3	2	3	5	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:24572175C>T	uc002zzi.1	+	35	6264	c.6137C>T	c.(6136-6138)CCG>CTG	p.P2046L	CABIN1_uc002zzj.1_Missense_Mutation_p.P1967L|CABIN1_uc002zzl.1_Missense_Mutation_p.P2046L|CABIN1_uc010gul.1_Intron	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	2046					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						ACAAGTTCCCCGGCAGAGCCA	0.682													3	15					0	0	0.004672	0	0		T	24572175	T	T	24572175	3	4	76	1	0	0	0	0	1	0	0	0	2531	652	23	1	6271	1	CABIN1	22	24572175	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1134037	24572175	26732391	860	49710											
CABIN1	23523	broad.mit.edu	37	chr22	24574128	24574128	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggagtcctcgctggagagCgagacagacgaggacgacga	12	3	16	10	5	0	3	0	0	0	3	2	10	1	5	1	3	1	1	1	3	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:24574128C>T	uc002zzi.1	+	37	6754	c.6627C>T	c.(6625-6627)AGC>AGT	p.S2209S	CABIN1_uc002zzj.1_Silent_p.S2130S|CABIN1_uc002zzl.1_Silent_p.S2209S|CABIN1_uc010gul.1_Silent_p.S147S	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	2209					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CGCTGGAGAGCGAGACAGACG	0.617													10	63					0	0	0.000978	0	0		T	24574128	T	T	24574128	2	4	76	1	0	0	0	0	0	0	0	1	2531	767	27	1		1	CABIN1	22	24574128	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1953	24574128	26730438	861	49711											
GGT1	2678	broad.mit.edu	37	chr22	25024064	25024064	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggaagcagccgctctcGtccatgtgcccgacgatcat	8	7	12	14	4	2	0	1	0	1	0	4	3	3	1	3	1	3	3	3	1	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:25024064G>A	uc003aan.1	+	14	1840	c.1353G>A	c.(1351-1353)TCG>TCA	p.S451S	GGT1_uc003aas.1_Silent_p.S451S|GGT1_uc003aat.1_Silent_p.S451S|GGT1_uc003aau.1_Silent_p.S451S|GGT1_uc003aav.1_Silent_p.S451S|GGT1_uc003aaw.1_Silent_p.S451S|GGT1_uc003aax.1_Silent_p.S451S|GGT1_uc003aay.1_Silent_p.S107S	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor	451	Extracellular (Potential).			S->A: Reduces enzyme activity by 99%. Abolishes activity; when associated with A-452.	glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	AGCCGCTCTCGTCCATGTGCC	0.687													22	109					0	0	0.002299	0	0		A	25024064	A	A	25024064	2	1	76	1	0	0	0	0	0	0	0	1	6376	1132	40	1		1	GGT1	22	25024064	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	449936	25024064	26280502	862	49712											
CRYBB3	1417	broad.mit.edu	37	chr22	25601264	25601264	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagatagtggatgatgaCgtgcccagcctgtgggctca	9	9	15	8	1	1	3	1	2	0	1	1	5	1	4	2	3	2	1	2	3	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:25601264C>T	uc003abo.1	+	5	477	c.405C>T	c.(403-405)GAC>GAT	p.D135D		NM_004076	NP_004067	P26998	CRBB3_HUMAN	crystallin, beta B3	135	Beta/gamma crystallin 'Greek key' 3.				visual perception		protein binding|structural constituent of eye lens				0						TGGATGATGACGTGCCCAGCC	0.572													12	31					0	0	0.000978	0	0		T	25601264	T	T	25601264	2	4	76	1	0	0	0	0	0	0	0	1	3915	535	19	1		1	CRYBB3	22	25601264	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	577200	25601264	25703302	863	49713											
HPS4	89781	broad.mit.edu	37	chr22	26860585	26860585	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagttgtgcagtcctgcgggCctgatgctctccagatcatg	6	11	13	11	1	2	2	1	1	1	1	4	3	3	2	3	1	3	3	3	1	0	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:26860585C>T	uc003acl.2	-	11	1670	c.1011G>A	c.(1009-1011)AGG>AGA	p.R337R	HPS4_uc003aci.2_Silent_p.R332R|HPS4_uc003acj.2_Silent_p.R201R|HPS4_uc003ack.2_Silent_p.R128R|HPS4_uc003acn.2_Silent_p.R183R|HPS4_uc010gvd.1_Silent_p.R355R|HPS4_uc003ach.2_Silent_p.R72R	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	337					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						GTCCTGCGGGCCTGATGCTCT	0.577									Hermansky-Pudlak_syndrome				16	81					0	0	0.003163	0	0		T	26860585	T	T	26860585	2	4	76	1	0	0	0	0	0	0	0	1	7357	738	26	2		2	HPS4	22	26860585	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1259321	26860585	24443981	864	49714											
CRYBA4	1413	broad.mit.edu	37	chr22	27021580	27021580	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccttccggcctgcggcCtgtgctgtaagttctaccac	5	11	9	16	2	1	0	0	0	1	0	3	0	3	0	6	2	3	3	6	2	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:27021580C>A	uc003acz.3	+	4	329	c.294C>A	c.(292-294)GCC>GCA	p.A98A		NM_001886	NP_001877	P53673	CRBA4_HUMAN	crystallin, beta A4	98	Beta/gamma crystallin 'Greek key' 2.				camera-type eye development|visual perception	soluble fraction	structural constituent of eye lens				0						GGCCTGCGGCCTGTGCTGTAA	0.507													20	159					7.41877e-09	8.10277e-09	0.001882	1	0		A	27021580	A	A	27021580	2	1	76	1	0	0	0	0	0	0	0	1	3912	668	24	5		5	CRYBA4	22	27021580	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	160995	27021580	24282986	865	49715											
MN1	4330	broad.mit.edu	37	chr22	28193443	28193443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tactgtccgacttggccccgCcgtccagggacccaatgagg	7	7	12	15	3	0	1	0	1	0	0	2	3	2	2	6	3	1	0	6	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:28193443C>T	uc003adj.2	-	1	4044	c.3089G>A	c.(3088-3090)GGC>GAC	p.G1030D		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	1030							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						CTTGGCCCCGCCGTCCAGGGA	0.652			T	ETV6	AML|meningioma								18	115					0	0	0.007413	0	0		T	28193443	T	T	28193443	3	4	76	1	0	0	0	0	1	0	0	0	9691	739	26	2	881	2	MN1	22	28193443	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1171863	28193443	23111123	866	49716											
NEFH	4744	broad.mit.edu	37	chr22	29879422	29879422	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagacgctatgcgctcagcGcaggaggagataactgagta	13	6	13	9	3	1	3	1	1	0	2	1	5	1	4	0	2	3	4	0	2	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:29879422G>A	uc003afo.2	+	2	1013	c.942G>A	c.(940-942)GCG>GCA	p.A314A		NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	314	Coil 2B.|Rod.				cell death|nervous system development	neurofilament					0						TGCGCTCAGCGCAGGAGGAGA	0.612													34	164					0	0	0.002096	0	0		A	29879422	A	A	29879422	2	1	76	1	0	0	0	0	0	0	0	1	10333	1074	38	1		1	NEFH	22	29879422	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1685979	29879422	21425144	867	49717											
OSBP2	23762	broad.mit.edu	37	chr22	31091509	31091509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaccagcgccgctggttcGtgctgggcaatggtttgctc	4	11	14	12	3	0	0	0	0	0	0	2	0	0	0	2	3	4	7	2	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:31091509G>A	uc003aiy.1	+	1	717	c.613G>A	c.(613-615)GTG>ATG	p.V205M	OSBP2_uc011ala.1_Intron|OSBP2_uc010gwc.1_Intron|OSBP2_uc003aix.1_Missense_Mutation_p.V205M|OSBP2_uc011alb.1_Missense_Mutation_p.V205M|OSBP2_uc003aiz.1_Missense_Mutation_p.V205M	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	205	PH.				lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						CCGCTGGTTCGTGCTGGGCAA	0.602													23	112					0	0	0.00333	0	0		A	31091509	A	A	31091509	3	1	76	1	0	0	0	0	1	0	0	0	11293	1145	40	1	615	1	OSBP2	22	31091509	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1212087	31091509	20213057	868	49718											
DEPDC5	9681	broad.mit.edu	37	chr22	32200851	32200851	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataatcggagtgctccccgTgattctcgtctgggcgatga	7	11	12	11	4	2	2	0	2	2	0	5	4	3	3	2	2	1	1	2	2	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:32200851T>C	uc003als.2	+	17	1309	c.1167T>C	c.(1165-1167)CGT>CGC	p.R389R	DEPDC5_uc011als.1_Silent_p.R389R|DEPDC5_uc011alu.1_Silent_p.R389R|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Silent_p.R389R|DEPDC5_uc003alr.1_Silent_p.R389R|DEPDC5_uc011alt.1_Silent_p.R361R	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	389					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						GTGCTCCCCGTGATTCTCGTC	0.443													32	151					0	0	0.004878	0	0		C	32200851	C	C	32200851	2	2	76	1	0	0	0	0	0	0	0	1	4448	1683	59	3		3	DEPDC5	22	32200851	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	1109342	32200851	19103715	869	49719											
MYH9	4627	broad.mit.edu	37	chr22	36714278	36714278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagtctgcgccttctggaCgtaatcccgtcccaccttga	6	13	8	14	3	2	1	0	1	2	0	4	2	4	2	4	1	1	1	4	1	2	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:36714278C>T	uc003apg.2	-	11	1432	c.1201G>A	c.(1201-1203)GTC>ATC	p.V401I	MYH9_uc003aph.1_Missense_Mutation_p.V265I	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	401	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GCCTTCTGGACGTAATCCCGT	0.562			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				26	144					0	0	0.00333	0	0		T	36714278	T	T	36714278	3	4	76	1	0	0	0	0	1	0	0	0	10060	536	19	1	4805	1	MYH9	22	36714278	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4513427	36714278	14590288	870	49720											
IL2RB	3560	broad.mit.edu	37	chr22	37524763	37524763	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaaggatgcgggctcaggCaccttgtcctgctgcaggag	7	9	14	11	1	1	0	1	0	0	0	2	2	2	2	2	4	3	4	2	4	1	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:37524763C>T	uc003aqv.1	-	10	1160	c.1029G>A	c.(1027-1029)GTG>GTA	p.V343V		NM_000878	NP_000869	P14784	IL2RB_HUMAN	interleukin 2 receptor beta precursor	343	Cytoplasmic (Potential).				interspecies interaction between organisms|positive regulation of survival gene product expression|protein complex assembly	external side of plasma membrane|integral to plasma membrane	interleukin-2 receptor activity				0					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	CGGGCTCAGGCACCTTGTCCT	0.597													5	51					0	0	0.001168	0	0		T	37524763	T	T	37524763	2	4	76	1	0	0	0	0	0	0	0	1	7703	697	25	2		2	IL2RB	22	37524763	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	810485	37524763	13779803	871	49721											
GGA1	26088	broad.mit.edu	37	chr22	38016860	38016860	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcttccagatgacactacCtttccccttcctcctccacg	8	11	4	18	1	0	2	0	1	0	1	5	2	5	2	7	0	2	1	7	0	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:38016860C>A	uc003atc.2	+	6	833	c.468C>A	c.(466-468)ACC>ACA	p.T156T	GGA1_uc003atd.2_Silent_p.T156T|GGA1_uc003ate.2_Silent_p.T156T|GGA1_uc003atf.2_Silent_p.T83T	NM_013365	NP_037497	Q9UJY5	GGA1_HUMAN	golgi associated, gamma adaptin ear containing,	156	Interaction with ARF3.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|Golgi apparatus part	protein binding			breast(2)|ovary(1)	3	Melanoma(58;0.0574)					ATGACACTACCTTTCCCCTTC	0.522													20	96					0.000295444	0.000305945	0.002299	1	0		A	38016860	A	A	38016860	2	1	76	1	0	0	0	0	0	0	0	1	6367	668	24	5		5	GGA1	22	38016860	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	492097	38016860	13287706	872	49722											
PLA2G6	8398	broad.mit.edu	37	chr22	38531068	38531068	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggatctggctgctgtccAtgctgatgatcatctccgca	6	13	11	11	1	3	2	1	2	2	0	5	3	4	3	2	2	2	4	2	2	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:38531068A>G	uc003auy.1	-	6	957	c.821T>C	c.(820-822)ATG>ACG	p.M274T	PLA2G6_uc003auz.1_Missense_Mutation_p.M274T|PLA2G6_uc003ava.1_Missense_Mutation_p.M274T|PLA2G6_uc003avb.2_Missense_Mutation_p.M274T|PLA2G6_uc010gxk.1_RNA|PLA2G6_uc011ano.1_Missense_Mutation_p.M239T	NM_003560	NP_003551	O60733	PA2G6_HUMAN	phospholipase A2, group VI isoform a	274	ANK 4.				cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)	GCTGCTGTCCATGCTGATGAT	0.622													5	43					0	0	0.000602	0	0		G	38531068	G	G	38531068	3	3	76	1	0	0	0	0	1	0	0	0	12027	217	8	3	1647	3	PLA2G6	22	38531068	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	514208	38531068	12773498	873	49723											
DMC1	11144	broad.mit.edu	37	chr22	38933618	38933618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcatagttgctcctggatcgGcagtcatttgattggtcaca	8	14	10	9	1	3	1	3	1	0	0	5	2	4	2	1	3	1	3	1	3	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:38933618G>A	uc003avz.1	-	12	990	c.815C>T	c.(814-816)GCC>GTC	p.A272V	DMC1_uc011anv.1_Missense_Mutation_p.A217V	NM_007068	NP_008999	Q14565	DMC1_HUMAN	DMC1 dosage suppressor of mck1 homolog	272					reciprocal meiotic recombination	condensed nuclear chromosome	ATP binding|DNA binding|DNA-dependent ATPase activity|protein binding			ovary(1)	1	Melanoma(58;0.0286)					TCCTGGATCGGCAGTCATTTG	0.323								Homologous_recombination					9	48					0	0	0.006214	0	0		A	38933618	A	A	38933618	3	1	76	1	0	0	0	0	1	0	0	0	4585	1203	42	2	219	2	DMC1	22	38933618	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	402550	38933618	12370948	874	49724											
CBX6	23466	broad.mit.edu	37	chr22	39263058	39263058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccgggcggggcaggggaCggcgggacatacggtggcag	6	3	23	9	5	0	0	0	0	0	0	1	2	1	2	1	10	1	2	1	10	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:39263058C>T	uc003awl.2	-	5	458	c.395G>A	c.(394-396)CGT>CAT	p.R132H		NM_014292	NP_055107	O95503	CBX6_HUMAN	chromobox homolog 6	132					chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	PcG protein complex					0	Melanoma(58;0.04)					GGGCAGGGGACGGCGGGACAT	0.706													11	24					0	0	0.000978	0	0		T	39263058	T	T	39263058	3	4	76	1	0	0	0	0	1	0	0	0	2725	536	19	1	847	1	CBX6	22	39263058	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	329440	39263058	12041508	875	49725											
XPNPEP3	63929	broad.mit.edu	37	chr22	41310311	41310311	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagtgacatcacacgtacGtggccagtcaatggcaggta	11	8	13	9	2	2	2	2	2	0	0	2	2	2	2	1	3	1	3	1	3	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:41310311G>A	uc003azh.2	+	7	1130	c.1038G>A	c.(1036-1038)ACG>ACA	p.T346T	XPNPEP3_uc003azi.2_Silent_p.T267T|XPNPEP3_uc011aoy.1_RNA	NM_022098	NP_071381	Q9NQH7	XPP3_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 3,	346					cellular process	mitochondrion	aminopeptidase activity|manganese ion binding|metallopeptidase activity				0						TCACACGTACGTGGCCAGTCA	0.448													10	66					0	0	0.008291	0	0		A	41310311	A	A	41310311	2	1	76	1	0	0	0	0	0	0	0	1	17470	1132	40	1		1	XPNPEP3	22	41310311	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2047253	41310311	9994255	876	49726											
EP300	2033	broad.mit.edu	37	chr22	41566520	41566520	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccaagcgactgcaggaatGgtacaaaaaaatgcttgaca	16	6	10	9	1	0	1	0	1	0	0	0	3	0	2	1	2	4	3	1	2	6	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:41566520G>T	uc003azl.3	+	27	4792	c.4397G>T	c.(4396-4398)TGG>TTG	p.W1466L		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1466					apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CTGCAGGAATGGTACAAAAAA	0.478			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				16	60					9.16793e-09	1.00031e-08	0.00499	1	0		T	41566520	T	T	41566520	3	4	76	1	0	0	0	0	1	0	0	0	5156	1357	47	5	4503	5	EP300	22	41566520	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	256209	41566520	9738046	877	49727											
POLDIP3	84271	broad.mit.edu	37	chr22	42998873	42998873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaagctgatcttctccCgggcatcagcaacctggcgg	7	10	10	14	2	5	1	2	1	3	0	6	1	5	1	2	3	3	3	2	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:42998873C>T	uc003bcu.2	-	2	452	c.353G>A	c.(352-354)CGG>CAG	p.R118Q	POLDIP3_uc011app.1_Missense_Mutation_p.R22Q|POLDIP3_uc003bcv.2_Missense_Mutation_p.R118Q|POLDIP3_uc011apq.1_Missense_Mutation_p.R118Q|POLDIP3_uc010gza.2_RNA|POLDIP3_uc011apr.1_RNA|POLDIP3_uc010gzb.1_Missense_Mutation_p.R118Q	NM_032311	NP_115687	Q9BY77	PDIP3_HUMAN	DNA polymerase delta interacting protein 3	118					positive regulation of translation	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding				0						GATCTTCTCCCGGGCATCAGC	0.557													31	121					0	0	0.002096	0	0		T	42998873	T	T	42998873	3	4	76	1	0	0	0	0	1	0	0	0	12214	652	23	1	944	1	POLDIP3	22	42998873	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	1432353	42998873	8305693	878	49728											
SCUBE1	80274	broad.mit.edu	37	chr22	43617179	43617179	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcagggcgtcccactcacCcagcagcggctgcctggcgg	6	4	15	16	3	1	0	1	0	0	0	2	1	2	0	3	4	4	3	3	4	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:43617179C>A	uc003bdt.1	-	13	1637	c.1549G>T	c.(1549-1551)GAC>TAC	p.D517Y		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	517					adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				TCCCACTCACCCAGCAGCGGC	0.647													8	37					1.12685e-05	1.18512e-05	0.004482	1	0		A	43617179	A	A	43617179	3	1	76	1	0	0	0	0	1	0	0	0	13969	637	22	5	1457	5	SCUBE1	22	43617179	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	618306	43617179	7687387	879	49729											
EFCAB6	64800	broad.mit.edu	37	chr22	43924750	43924750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtctactggaggaatgcccGgaggaagtcgttgtaggaga	10	9	16	6	2	1	1	0	0	1	1	2	6	1	5	1	5	2	2	1	5	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:43924750G>A	uc003bdy.1	-	32	4704	c.4489C>T	c.(4489-4491)CGG>TGG	p.R1497W	EFCAB6_uc003bdz.1_Missense_Mutation_p.R1345W|EFCAB6_uc010gzi.1_Missense_Mutation_p.R1345W	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1497	Interaction with AR.|Interaction with PARK7.|EF-hand 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				AGGAATGCCCGGAGGAAGTCG	0.483													19	64					0	0	0.008871	0	0		A	43924750	A	A	43924750	3	1	76	1	0	0	0	0	1	0	0	0	4945	1115	39	1	20	1	EFCAB6	22	43924750	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	307571	43924750	7379816	880	49730											
GTSE1	51512	broad.mit.edu	37	chr22	46704465	46704465	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccaagcctgaagacccTcggagccagggcgtggaaag	10	4	15	12	2	0	2	0	1	0	1	1	4	0	4	4	3	3	1	4	3	3	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:46704465T>A	uc011aqy.1	+	4	599	c.387T>A	c.(385-387)CCT>CCA	p.P129P	GTSE1_uc011aqz.1_5'UTR	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	110					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		CTGAAGACCCTCGGAGCCAGG	0.463													16	86					0	0	0.003163	0	0		A	46704465	A	A	46704465	2	1	76	1	0	0	0	0	0	0	0	1	6901	1538	54	5		5	GTSE1	22	46704465	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2779715	46704465	4600101	881	49731											
BRD1	23774	broad.mit.edu	37	chr22	50187724	50187724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcgcagctccgtcctcttCgaagccttccaagcctggcc	6	8	9	18	3	1	0	0	0	1	0	5	1	4	0	6	1	4	2	6	1	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:50187724C>T	uc003biv.2	-	6	2804	c.2317G>A	c.(2317-2319)GAA>AAA	p.E773K	BRD1_uc011arf.1_Missense_Mutation_p.E368K|BRD1_uc011arg.1_Missense_Mutation_p.E822K|BRD1_uc011arh.1_Missense_Mutation_p.E773K|BRD1_uc003biu.3_Missense_Mutation_p.E773K	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	773					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CCGTCCTCTTCGAAGCCTTCC	0.652													10	58					0	0	0.008291	0	0		T	50187724	T	T	50187724	3	4	76	1	0	0	0	0	1	0	0	0	1504	893	31	1	887	1	BRD1	22	50187724	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	3483259	50187724	1116842	882	49732											
PANX2	56666	broad.mit.edu	37	chr22	50615792	50615792	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagtacctggagcgccgCggccgcagcaacttcctggc	8	5	14	14	4	0	1	0	0	0	1	1	3	1	2	4	3	4	3	4	3	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:50615792C>T	uc003bjn.3	+	2	651	c.651C>T	c.(649-651)CGC>CGT	p.R217R	PANX2_uc003bjp.3_Silent_p.R83R|PANX2_uc003bjo.3_Silent_p.R217R	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	217	Cytoplasmic (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		TGGAGCGCCGCGGCCGCAGCA	0.647													4	20					0	0	0.009096	0	0		T	50615792	T	T	50615792	2	4	76	1	0	0	0	0	0	0	0	1	11440	755	27	1		1	PANX2	22	50615792	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	428068	50615792	688774	883	49733											
PANX2	56666	broad.mit.edu	37	chr22	50617461	50617461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtccgctcacctcccgccGcccctgctgtggcccctctg	2	8	9	22	4	2	0	1	0	1	0	4	0	4	0	8	1	1	2	8	1	0	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:50617461G>A	uc003bjn.3	+	3	1789	c.1789G>A	c.(1789-1791)GCC>ACC	p.A597T	PANX2_uc003bjp.3_Missense_Mutation_p.A463T|PANX2_uc003bjo.3_Missense_Mutation_p.A597T	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	597	Cytoplasmic (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		ACCTCCCGCCGCCCCTGCTGT	0.692													9	28					0	0	0.004482	0	0		A	50617461	A	A	50617461	3	1	76	1	0	0	0	0	1	0	0	0	11440	1087	38	1	1799	1	PANX2	22	50617461	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	1669	50617461	687105	884	49734											
SBF1	6305	broad.mit.edu	37	chr22	50885994	50885994	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaaccagcgggccttccaaGgcttcatgaaggcccccttc	8	7	10	16	2	1	1	1	1	0	0	3	2	2	1	5	3	2	1	5	3	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chr22:50885994G>T	uc003blh.2	-	39	5603	c.5408C>A	c.(5407-5409)CCT>CAT	p.P1803H	SBF1_uc003ble.2_Missense_Mutation_p.P267H|SBF1_uc003blf.2_Missense_Mutation_p.P279H|SBF1_uc011arx.1_Missense_Mutation_p.P1441H	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1777	PH.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		GGCCTTCCAAGGCTTCATGAA	0.632													7	42					2.0095e-06	2.13633e-06	0.001984	1	0		T	50885994	T	T	50885994	3	4	76	1	0	0	0	0	1	0	0	0	13883	1000	35	5	285	5	SBF1	22	50885994	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	268533	50885994	418572	885	49735											
DHRSX	207063	broad.mit.edu	37	chrX	2139163	2139163	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttctggttgtaggtgacGtggagggacttggtctcttt	5	16	15	5	1	2	1	0	1	2	0	3	3	2	3	0	5	0	3	0	5	1	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:2139163G>A	uc004cqf.3	-	7	961	c.912C>T	c.(910-912)CAC>CAT	p.H304H		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	304							binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				TGTAGGTGACGTGGAGGGACT	0.522													21	107					0	0	0.001882	0	0		A	2139163	A	A	2139163	2	1	76	1	0	0	0	0	0	0	0	1	4505	1136	40	1		1	DHRSX	23	2139163	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08		2139163	153131397	886	49736											
TLR7	51284	broad.mit.edu	37	chrX	12906073	12906073	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccacagatgtgacttgtgtgGggccaggagcacacaagggc	10	6	15	10	0	0	2	0	1	0	1	0	3	0	3	2	4	1	1	2	4	1	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:12906073G>T	uc004cvc.2	+	3	2585	c.2446G>T	c.(2446-2448)GGG>TGG	p.G816W		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	816	Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	GACTTGTGTGGGGCCAGGAGC	0.488													15	107					6.31663e-08	6.83667e-08	0.003163	1	0		T	12906073	T	T	12906073	3	4	76	1	0	0	0	0	1	0	0	0	15981	1232	43	5	2452	5	TLR7	23	12906073	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	10766910	12906073	142364487	887	49737											
ASB11	140456	broad.mit.edu	37	chrX	15306058	15306058	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttggagccgccagatcaagCgcacttttgccctgagcatt	8	11	10	12	2	1	2	1	1	0	1	1	3	1	3	3	1	4	2	3	1	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:15306058C>T	uc004cwp.1	-	6	792	c.792G>A	c.(790-792)GCG>GCA	p.A264A	ASB11_uc004cwo.1_Silent_p.A243A|ASB11_uc010nes.1_RNA|ASB11_uc010net.1_Silent_p.A247A	NM_080873	NP_543149	Q8WXH4	ASB11_HUMAN	ankyrin repeat and SOCS box-containing protein	264					intracellular signal transduction					breast(2)|skin(1)	3	Hepatocellular(33;0.183)					CCAGATCAAGCGCACTTTTGC	0.537													13	77					0	0	0.001855	0	0		T	15306058	T	T	15306058	2	4	76	1	0	0	0	0	0	0	0	1	1016	755	27	1		1	ASB11	23	15306058	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2399985	15306058	139964502	888	49738											
BEND2	139105	broad.mit.edu	37	chrX	18198717	18198717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcgattcattgtgttgaCgctgttttccgtgttggtgt	4	18	13	6	3	1	2	1	2	0	0	2	3	2	2	1	1	1	4	1	1	0	6			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:18198717C>T	uc004cyj.3	-	9	1496	c.1342G>A	c.(1342-1344)GTC>ATC	p.V448I	BEND2_uc010nfb.2_Missense_Mutation_p.V357I	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	448										ovary(3)|kidney(1)|central_nervous_system(1)	5						ATTGTGTTGACGCTGTTTTCC	0.313													21	82					0	0	0.010504	0	0		T	18198717	T	T	18198717	3	4	76	1	0	0	0	0	1	0	0	0	1399	536	19	1	1107	1	BEND2	23	18198717	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2892659	18198717	137071843	889	49739											
PTCHD1	139411	broad.mit.edu	37	chrX	23353224	23353224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcctcttcccggtcaacCgctccaagcaccgtctctac	8	8	6	19	3	3	0	1	0	2	0	6	0	5	0	5	1	4	2	5	1	3	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:23353224C>T	uc004dal.3	+	1	240	c.232C>T	c.(232-234)CGC>TGC	p.R78C	PTCHD1_uc010nfu.1_Missense_Mutation_p.R78C	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	78					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						CCCGGTCAACCGCTCCAAGCA	0.642													15	68					0	0	0.007413	0	0		T	23353224	T	T	23353224	3	4	76	1	0	0	0	0	1	0	0	0	12754	652	23	1	234	1	PTCHD1	23	23353224	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	5154507	23353224	131917336	890	49740											
CXorf22	170063	broad.mit.edu	37	chrX	36007458	36007458	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgttgaagcatattcctcActggaatgtgaagtaacttg	12	13	9	7	0	1	2	1	2	0	0	2	3	2	3	1	1	2	3	1	1	5	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:36007458A>C	uc004ddj.2	+	16	2795	c.2736A>C	c.(2734-2736)TCA>TCC	p.S912S	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	912										large_intestine(1)|lung(1)|ovary(1)	3						CATATTCCTCACTGGAATGTG	0.353													5	26					0	0	0.001168	0	0		C	36007458	C	C	36007458	2	2	76	1	0	0	0	0	0	0	0	1	4105	146	6	5		5	CXorf22	23	36007458	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	12654234	36007458	119263102	891	49741											
ZNF182	7569	broad.mit.edu	37	chrX	47836703	47836703	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacattcggtacatccaaaAggtttctctcccgtatgagt	10	12	7	12	2	1	1	0	1	1	0	5	1	3	1	3	2	1	3	3	2	4	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:47836703A>G	uc004dir.2	-	7	1129	c.783T>C	c.(781-783)CCT>CCC	p.P261P	ZNF182_uc004dis.2_Silent_p.P242P|ZNF182_uc004dit.2_Silent_p.P261P|ZNF182_uc011mlu.1_Silent_p.P241P	NM_006962	NP_008893	P17025	ZN182_HUMAN	zinc finger protein 21 isoform 1	261					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3						TACATCCAAAAGGTTTCTCTC	0.413													16	58					0	0	0.004007	0	0		G	47836703	G	G	47836703	2	3	76	1	0	0	0	0	0	0	0	1	17775	59	3	3		3	ZNF182	23	47836703	Silent	SNP	A	TCGA-BR-8382-01A-11D-2394-08	11829245	47836703	107433857	892	49742											
ZNF182	7569	broad.mit.edu	37	chrX	47837005	47837005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catattatttccaaatgattCgtgtttatcgggtctttgta	9	19	7	6	2	1	1	0	1	1	0	4	1	2	1	1	1	0	2	1	1	5	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:47837005C>T	uc004dir.2	-	7	827	c.481G>A	c.(481-483)GAA>AAA	p.E161K	ZNF182_uc004dis.2_Missense_Mutation_p.E142K|ZNF182_uc004dit.2_Missense_Mutation_p.E161K|ZNF182_uc011mlu.1_Missense_Mutation_p.E141K	NM_006962	NP_008893	P17025	ZN182_HUMAN	zinc finger protein 21 isoform 1	161					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3						CCAAATGATTCGTGTTTATCG	0.328													15	31					0	0	0.003163	0	0		T	47837005	T	T	47837005	3	4	76	1	0	0	0	0	1	0	0	0	17775	893	31	1	1442	1	ZNF182	23	47837005	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	302	47837005	107433555	893	49743											
AKAP4	8852	broad.mit.edu	37	chrX	49958568	49958568	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agaagcaatcttgctcgcagGagttcggggactgattctct	9	11	12	9	2	2	2	0	1	2	1	5	4	2	4	0	3	2	4	0	3	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:49958568G>C	uc004dow.1	-	5	920	c.796C>G	c.(796-798)CCT>GCT	p.P266A	AKAP4_uc004dov.1_Intron|AKAP4_uc010njp.1_Missense_Mutation_p.P88A|AKAP4_uc004dou.1_Missense_Mutation_p.P257A	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	266					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					TTGCTCGCAGGAGTTCGGGGA	0.493													9	76					0	0	0.001368	0	0		C	49958568	C	C	49958568	3	2	76	1	0	0	0	0	1	0	0	0	453	1174	41	5	1776	5	AKAP4	23	49958568	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2121563	49958568	105311992	894	49744											
SHROOM4	57477	broad.mit.edu	37	chrX	50377623	50377623	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgtcccaaaactaaagAcctgtcatccacttgtctgg	10	11	8	12	0	2	1	1	0	1	1	4	1	4	1	3	2	1	0	3	2	4	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:50377623A>G	uc004dpe.2	-	4	1476	c.1450T>C	c.(1450-1452)TCT>CCT	p.S484P	SHROOM4_uc004dpd.3_RNA|SHROOM4_uc004dpf.1_Missense_Mutation_p.S368P	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	484					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					AAAACTAAAGACCTGTCATCC	0.522													7	127					0	0	0.001984	0	0		G	50377623	G	G	50377623	3	3	76	1	0	0	0	0	1	0	0	0	14321	275	10	3	3055	3	SHROOM4	23	50377623	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	419055	50377623	104892937	895	49745											
PHF8	23133	broad.mit.edu	37	chrX	53966872	53966872	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcagactgagattggagtcTtgagggcgaggctgttctac	8	11	15	7	1	3	3	1	2	2	2	3	6	3	4	0	3	1	2	0	3	1	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:53966872T>A	uc004dsu.2	-	21	2908	c.2835A>T	c.(2833-2835)CAA>CAT	p.Q945H	PHF8_uc004dst.2_Missense_Mutation_p.Q909H|PHF8_uc004dsv.2_Missense_Mutation_p.Q775H|PHF8_uc004dsw.2_Missense_Mutation_p.Q808H	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	945					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						GATTGGAGTCTTGAGGGCGAG	0.522													4	21					0	0	0.009096	0	0		A	53966872	A	A	53966872	3	1	76	1	0	0	0	0	1	0	0	0	11859	1606	56	5	438	5	PHF8	23	53966872	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	3589249	53966872	101303688	896	49746											
GNL3L	54552	broad.mit.edu	37	chrX	54585017	54585017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagaggatcatggagaCggaccccctgcaacagggcc	10	4	14	13	1	1	2	1	0	0	2	1	5	1	4	3	4	3	3	3	4	1	0			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:54585017C>T	uc004dth.1	+	15	1734	c.1595C>T	c.(1594-1596)ACG>ATG	p.T532M	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	532					ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						ATCATGGAGACGGACCCCCTG	0.582													5	42					0	0	0.000602	0	0		T	54585017	T	T	54585017	3	4	76	1	0	0	0	0	1	0	0	0	6553	536	19	1	1649	1	GNL3L	23	54585017	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	618145	54585017	100685543	897	49747											
FAAH2	158584	broad.mit.edu	37	chrX	57318993	57318993	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacgtgaacccaatgatCaatggaattgtcaagtacag	16	8	10	7	1	2	2	2	2	0	0	2	4	2	4	1	2	2	1	1	2	7	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:57318993C>A	uc004dvc.2	+	2	404	c.255C>A	c.(253-255)ATC>ATA	p.I85I		NM_174912	NP_777572	Q6GMR7	FAAH2_HUMAN	fatty acid amide hydrolase 2	85						integral to membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|hydrolase activity			ovary(3)	3						ACCCAATGATCAATGGAATTG	0.383										HNSCC(52;0.14)			14	61					1.3612e-06	1.44998e-06	0.003163	1	0		A	57318993	A	A	57318993	2	1	76	1	0	0	0	0	0	0	0	1	5365	816	29	5		5	FAAH2	23	57318993	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2733976	57318993	97951567	898	49748											
SPIN4	139886	broad.mit.edu	37	chrX	62570006	62570006	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcatcatcaaacttaatGaagtaaacagatggcttcgc	16	11	6	8	1	3	2	3	1	0	1	4	2	3	2	0	1	2	2	0	1	6	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:62570006G>T	uc004dvf.2	-	1	1213	c.693C>A	c.(691-693)TTC>TTA	p.F231L		NM_001012968	NP_001012986	Q56A73	SPIN4_HUMAN	spindlin family, member 4	231					gamete generation					ovary(1)|lung(1)	2						CAAACTTAATGAAGTAAACAG	0.408													18	77					1.99824e-07	2.1498e-07	0.00499	1	0		T	62570006	T	T	62570006	3	4	76	1	0	0	0	0	1	0	0	0	15081	1281	45	5	60	5	SPIN4	23	62570006	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	5251013	62570006	92700554	899	49749											
HEPH	9843	broad.mit.edu	37	chrX	65423338	65423338	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcaagaatctactataTcatggcagaagaagtagagt	16	9	10	6	0	2	4	1	0	1	4	2	4	2	4	0	1	3	4	0	1	8	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:65423338T>C	uc011moz.1	+	13	2279	c.2219T>C	c.(2218-2220)ATC>ACC	p.I740T	HEPH_uc004dwn.2_Missense_Mutation_p.I740T|HEPH_uc004dwo.2_Missense_Mutation_p.I470T|HEPH_uc010nkr.2_Missense_Mutation_p.I548T|HEPH_uc011mpa.1_Missense_Mutation_p.I740T|HEPH_uc010nks.2_Missense_Mutation_p.I29T	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	737	Extracellular (Potential).|Plastocyanin-like 5.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						ATCTACTATATCATGGCAGAA	0.522													4	49					0	0	0.009096	0	0		C	65423338	C	C	65423338	3	2	76	1	0	0	0	0	1	0	0	0	7070	1435	50	3	2422	3	HEPH	23	65423338	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	2853332	65423338	89847222	900	49750											
MED12	9968	broad.mit.edu	37	chrX	70356310	70356310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgaggccccggccccgCgcctattacctggagccact	6	6	10	19	3	0	1	0	1	0	0	0	2	0	2	8	3	2	0	8	3	2	2			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:70356310C>T	uc004dyy.2	+	37	5404	c.5205C>T	c.(5203-5205)CGC>CGT	p.R1735R	MED12_uc011mpq.1_Silent_p.R1735R|MED12_uc004dyz.2_Silent_p.R1735R|MED12_uc004dza.2_Silent_p.R1582R|MED12_uc010nla.2_Silent_p.R361R	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1735	Pro-rich.|Interaction with CTNNB1 and GLI3.				androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					CCCGGCCCCGCGCCTATTACC	0.642													7	32					0	0	0.001984	0	0		T	70356310	T	T	70356310	2	4	76	1	0	0	0	0	0	0	0	1	9446	755	27	1		1	MED12	23	70356310	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	4932972	70356310	84914250	901	49751											
NLGN3	54413	broad.mit.edu	37	chrX	70367958	70367958	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcccgaagtcatgctgcCggtctggttcactgccaact	6	11	11	13	2	3	0	2	0	1	0	3	1	3	0	3	2	5	2	3	2	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:70367958C>T	uc004dzd.1	+	1	559	c.359C>T	c.(358-360)CCG>CTG	p.P120L	NLGN3_uc010nlb.1_Missense_Mutation_p.P120L|NLGN3_uc004dzb.2_Missense_Mutation_p.P120L|NLGN3_uc004dzc.2_Missense_Mutation_p.P3L|NLGN3_uc011mps.1_Missense_Mutation_p.P120L|NLGN3_uc011mpr.1_Missense_Mutation_p.P120L	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	120	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					GTCATGCTGCCGGTCTGGTTC	0.582													16	75					0	0	0.006122	0	0		T	70367958	T	T	70367958	3	4	76	1	0	0	0	0	1	0	0	0	10482	652	23	1	361	1	NLGN3	23	70367958	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	11648	70367958	84902602	902	49752											
LPAR4	2846	broad.mit.edu	37	chrX	78010799	78010799	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggccattgtctatccttttCgatctcgtactattaggact	7	17	7	10	2	2	0	0	0	2	0	5	2	3	1	2	2	1	1	2	2	4	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:78010799C>T	uc010nme.2	+	2	838	c.433C>T	c.(433-435)CGA>TGA	p.R145*		NM_005296	NP_005287	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	145	Cytoplasmic (Potential).					integral to plasma membrane	lipid binding|purinergic nucleotide receptor activity, G-protein coupled			ovary(3)	3						CTATCCTTTTCGATCTCGTAC	0.463													21	88					0	0	0.010504	0	0		T	78010799	T	T	78010799	4	4	76	1	0	0	0	0	0	1	0	0	8925	876	31	1	435	1	LPAR4	23	78010799	Nonsense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	7642841	78010799	77259761	903	49753											
CYLC1	1538	broad.mit.edu	37	chrX	83128372	83128372	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcctacatacaaagaacaAtccaaagaaagatttgaaga	21	8	5	7	0	0	5	0	1	0	4	2	5	2	5	2	0	3	0	2	0	8	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:83128372A>C	uc004eei.1	+	4	677	c.656A>C	c.(655-657)AAT>ACT	p.N219T	CYLC1_uc004eeh.1_Missense_Mutation_p.N218T	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	219					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						ACAAAGAACAATCCAAAGAAA	0.313													5	16					0	0	0.000602	0	0		C	83128372	C	C	83128372	3	2	76	1	0	0	0	0	1	0	0	0	4144	101	4	5	670	5	CYLC1	23	83128372	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	5117573	83128372	72142188	904	49754											
DACH2	117154	broad.mit.edu	37	chrX	85404095	85404095	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttcgaaactttgttcacCgattgcaccaatgccaggtg	10	11	9	11	2	1	0	1	0	0	0	2	3	1	0	3	1	3	2	3	1	2	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:85404095C>T	uc004eew.2	+	1	641	c.471C>T	c.(469-471)ACC>ACT	p.T157T	DACH2_uc004eex.2_Silent_p.T157T|DACH2_uc010nmq.2_5'UTR	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	157					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						CTTTGTTCACCGATTGCACCA	0.562													8	45					0	0	0.004482	0	0		T	85404095	T	T	85404095	2	4	76	1	0	0	0	0	0	0	0	1	4224	639	23	1		1	DACH2	23	85404095	Silent	SNP	C	TCGA-BR-8382-01A-11D-2394-08	2275723	85404095	69866465	905	49755											
TGIF2LX	90316	broad.mit.edu	37	chrX	89177210	89177210	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataacgcagatacaggcagAgttcttgccttaccagagca	14	8	9	10	1	1	3	0	0	1	3	1	3	1	3	2	1	5	4	2	1	4	5			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:89177210A>C	uc004efe.2	+	2	175	c.126A>C	c.(124-126)AGA>AGC	p.R42S		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	42						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						ATACAGGCAGAGTTCTTGCCT	0.527													16	61					0	0	0.00333	0	0		C	89177210	C	C	89177210	3	2	76	1	0	0	0	0	1	0	0	0	15852	301	11	5	128	5	TGIF2LX	23	89177210	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	3773115	89177210	66093350	906	49756											
SYTL4	94121	broad.mit.edu	37	chrX	99943432	99943432	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaatgtcttcttcttcttcTtcctcttcctggaacaataa	8	18	3	12	0	7	0	1	0	6	0	9	1	9	1	2	1	1	0	2	1	4	7			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:99943432T>C	uc004egd.3	-	12	1277	c.921A>G	c.(919-921)GAA>GAG	p.E307E	SYTL4_uc010nnb.2_5'UTR|SYTL4_uc010nnc.2_Silent_p.E307E|SYTL4_uc004ege.3_Silent_p.E307E|SYTL4_uc004egf.3_Silent_p.E307E|SYTL4_uc004egg.3_Silent_p.E307E	NM_080737	NP_542775	Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	307	Poly-Glu.				exocytosis|intracellular protein transport	extrinsic to membrane|plasma membrane|synaptic vesicle|transport vesicle membrane	neurexin binding|phospholipid binding|Rab GTPase binding|transporter activity|zinc ion binding			ovary(2)	2					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	cttcttcttcttcctcttcCT	0.328													8	27					0	0	0.004482	0	0		C	99943432	C	C	99943432	2	2	76	1	0	0	0	0	0	0	0	1	15510	1606	56	3		3	SYTL4	23	99943432	Silent	SNP	T	TCGA-BR-8382-01A-11D-2394-08	10766222	99943432	55327128	907	49757											
XKRX	402415	broad.mit.edu	37	chrX	100183284	100183284	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctcaggaatttcataaaCtctgtccattgtcgaggttc	9	14	7	11	1	3	0	2	0	1	0	7	2	5	1	2	2	1	1	2	2	3	4			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:100183284C>G	uc004egn.2	-	1	615	c.10G>C	c.(10-12)GTT>CTT	p.V4L	XKRX_uc011mre.1_5'UTR	NM_212559	NP_997724	Q6PP77	XKR2_HUMAN	XK, Kell blood group complex subunit-related,	4						integral to membrane|plasma membrane				breast(1)	1						ATTTCATAAACTCTGTCCATT	0.483													37	215					0	0	0.00623	0	0		G	100183284	G	G	100183284	3	3	76	1	0	0	0	0	1	0	0	0	17465	565	20	5	1351	5	XKRX	23	100183284	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	239852	100183284	55087276	908	49758											
IL1RAPL2	26280	broad.mit.edu	37	chrX	104984565	104984565	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaagagcatcttggagaaaAagaagttgaattggcactca	17	8	10	6	0	2	4	1	1	1	3	2	5	2	4	0	2	1	3	0	2	5	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:104984565A>C	uc004elz.1	+	8	1685	c.929A>C	c.(928-930)AAA>ACA	p.K310T		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	310	Ig-like C2-type 3.|Extracellular (Potential).				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						CTTGGAGAAAAAGAAGTTGAA	0.443													15	79					0	0	0.00499	0	0		C	104984565	C	C	104984565	3	2	76	1	0	0	0	0	1	0	0	0	7678	14	1	5	955	5	IL1RAPL2	23	104984565	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	4801281	104984565	50285995	909	49759											
IRS4	8471	broad.mit.edu	37	chrX	107976159	107976159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccggggctgcggcgagcGcggaggccgcagctacaact	6	4	17	14	6	0	0	0	0	0	0	0	2	0	1	2	5	6	3	2	5	2	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:107976159G>A	uc004eoc.2	-	1	3449	c.3416C>T	c.(3415-3417)GCG>GTG	p.A1139V		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	1139	Ala-rich.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						TGCGGCGAGCGCGGAGGCCGC	0.652													47	159					0	0	0.002852	0	0		A	107976159	A	A	107976159	3	1	76	1	0	0	0	0	1	0	0	0	7858	1087	38	1	361	1	IRS4	23	107976159	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	2991594	107976159	47294401	910	49760											
KIAA1210	57481	broad.mit.edu	37	chrX	118223525	118223525	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccttcactggattgtttaagGcttcttcctttgaattcaca	8	17	6	10	0	3	1	2	1	1	0	4	2	4	2	2	2	0	2	2	2	2	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:118223525G>A	uc004era.3	-	11	1668	c.1668C>T	c.(1666-1668)AGC>AGT	p.S556S		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	556										ovary(4)|skin(1)	5						ATTGTTTAAGGCTTCTTCCTT	0.478													30	180					0	0	0.002096	0	0		A	118223525	A	A	118223525	2	1	76	1	0	0	0	0	0	0	0	1	8230	1194	42	2		2	KIAA1210	23	118223525	Silent	SNP	G	TCGA-BR-8382-01A-11D-2394-08	10247366	118223525	37047035	911	49761											
AKAP14	158798	broad.mit.edu	37	chrX	119053878	119053878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccttctcttttttaggatgCacccattgttgtttcttatg	5	21	6	9	0	2	0	0	0	2	0	4	1	3	1	2	1	1	3	2	1	2	8			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:119053878C>T	uc004ese.2	+	6	584	c.446C>T	c.(445-447)GCA>GTA	p.A149V	AKAP14_uc004esf.2_Missense_Mutation_p.A89V	NM_178813	NP_848928	Q86UN6	AKA28_HUMAN	A kinase (PRKA) anchor protein 14 isoform a	149						cytoplasm					0						TTTTAGGATGCACCCATTGTT	0.318													14	80					0	0	0.003163	0	0		T	119053878	T	T	119053878	3	4	76	1	0	0	0	0	1	0	0	0	450	710	25	2	469	2	AKAP14	23	119053878	Missense_Mutation	SNP	C	TCGA-BR-8382-01A-11D-2394-08	830353	119053878	36216682	912	49762											
ODZ1	10178	broad.mit.edu	37	chrX	123556188	123556188	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggggcaccagcgatgatgtAgatctccccattggtggtta	8	10	14	9	1	1	2	0	1	1	1	2	3	1	2	3	4	1	3	3	4	2	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:123556188A>G	uc004euj.2	-	23	4448	c.4384T>C	c.(4384-4386)TAC>CAC	p.Y1462H	ODZ1_uc011muj.1_Missense_Mutation_p.Y1468H|ODZ1_uc010nqy.2_Missense_Mutation_p.Y1469H	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1462	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GCGATGATGTAGATCTCCCCA	0.493													31	110					0	0	0.009535	0	0		G	123556188	G	G	123556188	3	3	76	1	0	0	0	0	1	0	0	0	10853	420	15	3	3829	3	ODZ1	23	123556188	Missense_Mutation	SNP	A	TCGA-BR-8382-01A-11D-2394-08	4502310	123556188	31714372	913	49763											
MBNL3	55796	broad.mit.edu	37	chrX	131524939	131524939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagtctggcttgcaagtgtGcaggaggatgaaagtacttg	10	11	15	5	0	1	2	0	2	1	0	1	4	1	4	0	3	3	4	0	3	3	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:131524939G>A	uc004ewv.3	-	4	786	c.707C>T	c.(706-708)GCA>GTA	p.A236V	uc004ewr.1_Intron|MBNL3_uc004eww.2_Missense_Mutation_p.A140V|MBNL3_uc004ews.2_Missense_Mutation_p.A140V|MBNL3_uc004ewt.2_Missense_Mutation_p.A186V|MBNL3_uc011muz.1_Missense_Mutation_p.A140V|MBNL3_uc004ewu.3_Missense_Mutation_p.A236V|MBNL3_uc004ewx.1_Missense_Mutation_p.A186V	NM_018388	NP_060858	Q9NUK0	MBNL3_HUMAN	muscleblind-like 3 isoform G	236	C3H1-type 4.				mRNA processing|multicellular organismal development|regulation of RNA splicing|RNA splicing	Golgi apparatus|nucleus	nucleic acid binding|zinc ion binding				0	Acute lymphoblastic leukemia(192;0.000127)					TTGCAAGTGTGCAGGAGGATG	0.483													16	92					0	0	0.00499	0	0		A	131524939	A	A	131524939	3	1	76	1	0	0	0	0	1	0	0	0	9373	1319	46	2	438	2	MBNL3	23	131524939	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	7968751	131524939	23745621	914	49764											
ATP2B3	492	broad.mit.edu	37	chrX	152818528	152818528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacagcaatggcgaactccGgggctttcggcctcgggacc	8	6	14	13	4	0	0	0	0	0	0	3	3	1	1	3	5	3	2	3	5	3	1			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:152818528G>A	uc004fht.1	+	11	1985	c.1859G>A	c.(1858-1860)CGG>CAG	p.R620Q	ATP2B3_uc004fhs.1_Missense_Mutation_p.R620Q	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	620	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGCGAACTCCGGGGCTTTCGG	0.597													6	83					0	0	0.001168	0	0		A	152818528	A	A	152818528	3	1	76	1	0	0	0	0	1	0	0	0	1142	1116	39	1	1901	1	ATP2B3	23	152818528	Missense_Mutation	SNP	G	TCGA-BR-8382-01A-11D-2394-08	21293589	152818528	2452032	915	49765											
F8	2157	broad.mit.edu	37	chrX	154091411	154091411	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgctgcgaatgctataaTgagttgggtgcaaacggatg	11	10	15	5	2	0	1	0	1	0	0	0	4	0	2	0	2	5	4	0	2	4	3			TCGA-BR-8382-01A-11D-2394-08	TCGA-BR-8382-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe42ed1d-e913-4214-a3a4-7baf5288dbb7	a0801674-6113-406a-af1c-7e4f6c61d55f	g.chrX:154091411T>C	uc004fmt.2	-	23	6692	c.6521A>G	c.(6520-6522)CAT>CGT	p.H2174R	F8_uc004fms.2_Missense_Mutation_p.H39R	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	2174	F5/8 type C 1.		H -> D (in HEMA).		acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	AATGCTATAATGAGTTGGGTG	0.418													21	68					0	0	0.010504	0	0		C	154091411	C	C	154091411	3	2	76	1	0	0	0	0	1	0	0	0	5358	1464	51	3	550	3	F8	23	154091411	Missense_Mutation	SNP	T	TCGA-BR-8382-01A-11D-2394-08	1272883	154091411	1179149	916	49766											
CHD5	26038	broad.mit.edu	37	chr1	6209393	6209393	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggccctcgggcaggtgtcGcacaggatgatctccccacc	7	7	12	15	2	1	1	0	1	1	0	4	2	1	2	4	4	0	2	4	4	1	1	rs147670357		TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr1:6209393G>A	uc001amb.1	-	8	1174	c.1074C>T	c.(1072-1074)TGC>TGT	p.C358C	CHD5_uc001amc.1_5'Flank	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	358	PHD-type 1.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		GGCAGGTGTCGCACAGGATGA	0.602													7	57					0	0	1	0	0		A	6209393	A	A	6209393	2	1	77	1	0	0	0	0	0	0	0	1	3331	1079	38	1		1	CHD5	1	6209393	Silent	SNP	G	TCGA-BR-8384-01A-21D-2394-08		6209393	243041228	1	49767											
ASTN1	460	broad.mit.edu	37	chr1	176838101	176838101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaggagggtgttgtaggCggtctgctgctccttcccac	5	11	13	12	1	1	0	0	0	1	0	4	1	4	1	3	4	2	4	3	4	1	3			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr1:176838101C>T	uc001glc.2	-	22	3738	c.3526G>A	c.(3526-3528)GCC>ACC	p.A1176T	ASTN1_uc001glb.1_Missense_Mutation_p.A1176T|ASTN1_uc001gld.1_Missense_Mutation_p.A1176T	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	1184					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GTGTTGTAGGCGGTCTGCTGC	0.468													7	102					0	0	1	0	0		T	176838101	T	T	176838101	3	4	77	1	0	0	0	0	1	0	0	0	1065	768	27	1	370	1	ASTN1	1	176838101	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08	170628708	176838101	72412520	2	49768											
SIPA1L2	57568	broad.mit.edu	37	chr1	232551275	232551275	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatccacgaggtgggtcCaatctaaccctgtggctgtg	8	9	12	12	1	1	0	0	0	1	0	3	1	3	0	3	3	2	2	3	3	2	1			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr1:232551275C>A	uc001hvg.2	-	17	4885	c.4727G>T	c.(4726-4728)TGG>TTG	p.W1576L	SIPA1L2_uc001hvf.2_Missense_Mutation_p.W650L	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1576					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GAGGTGGGTCCAATCTAACCC	0.572													11	116					4.68919e-08	4.92762e-08	1	1	0		A	232551275	A	A	232551275	3	1	77	1	0	0	0	0	1	0	0	0	14355	595	21	5	461	5	SIPA1L2	1	232551275	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08	55713174	232551275	16699346	3	49769											
RGS7	6000	broad.mit.edu	37	chr1	240975337	240975337	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaccctctgctggctcggTtctttgctatagaagataaa	9	15	8	9	1	2	2	0	0	2	2	3	2	2	2	1	2	3	4	1	2	6	7			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr1:240975337T>G	uc001hyv.2	-	14	1293	c.963A>C	c.(961-963)GAA>GAC	p.E321D	RGS7_uc010pyh.1_Missense_Mutation_p.E295D|RGS7_uc010pyj.1_Missense_Mutation_p.E237D|RGS7_uc001hyu.2_Missense_Mutation_p.E321D|RGS7_uc009xgn.1_Missense_Mutation_p.E268D|RGS7_uc001hyw.2_Missense_Mutation_p.E321D|RGS7_uc001hyt.2_Missense_Mutation_p.E153D	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	321					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			GCTGGCTCGGTTCTTTGCTAT	0.398													7	98					0	0	1	0	0		G	240975337	G	G	240975337	3	3	77	1	0	0	0	0	1	0	0	0	13335	1722	60	5	520	5	RGS7	1	240975337	Missense_Mutation	SNP	T	TCGA-BR-8384-01A-21D-2394-08	8424062	240975337	8275284	4	49770											
OR2M5	127059	broad.mit.edu	37	chr1	248308867	248308867	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaatctcatgagacccaaaAtttgtggacttatgactgcc	12	11	7	11	0	1	2	1	2	1	1	2	4	1	3	3	1	1	0	3	1	4	2			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr1:248308867A>G	uc010pze.1	+	1	418	c.418A>G	c.(418-420)ATT>GTT	p.I140V		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			GAGACCCAAAATTTGTGGACT	0.468													31	383					0	0	1	0	0		G	248308867	G	G	248308867	3	3	77	1	0	0	0	0	1	0	0	0	11032	101	4	3	420	3	OR2M5	1	248308867	Missense_Mutation	SNP	A	TCGA-BR-8384-01A-21D-2394-08	7333530	248308867	941754	5	49771											
PXDN	7837	broad.mit.edu	37	chr2	1677547	1677547	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggtcccatcgtccagcaAgtttaggcgggaatctgtct	8	10	12	11	2	2	0	0	0	2	0	5	1	4	1	2	3	1	2	2	3	3	2			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr2:1677547A>C	uc002qxa.2	-	9	950	c.886T>G	c.(886-888)TTG>GTG	p.L296V	PXDN_uc002qxb.1_Missense_Mutation_p.L296V|PXDN_uc002qxc.1_Missense_Mutation_p.L113V	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	296	Ig-like C2-type 1.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		TCGTCCAGCAAGTTTAGGCGG	0.502													13	113					0	0	1	0	0		C	1677547	C	C	1677547	3	2	77	1	0	0	0	0	1	0	0	0	12872	69	3	5	3613	5	PXDN	2	1677547	Missense_Mutation	SNP	A	TCGA-BR-8384-01A-21D-2394-08		1677547	241521826	6	49772											
KCNIP3	30818	broad.mit.edu	37	chr2	96040939	96040939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctttgatgcggacgggaacGgggccatccactttgaggta	8	9	14	10	3	0	2	0	2	0	0	1	4	1	4	3	5	2	1	3	5	2	3			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr2:96040939G>A	uc002sup.2	+	5	545	c.430G>A	c.(430-432)GGG>AGG	p.G144R	KCNIP3_uc002suq.2_Missense_Mutation_p.G118R	NM_013434	NP_038462	Q9Y2W7	CSEN_HUMAN	Kv channel interacting protein 3 isoform 1	144	EF-hand 2.				apoptosis|signal transduction|transcription, DNA-dependent	endoplasmic reticulum|Golgi apparatus|nucleus|plasma membrane	calcium ion binding|DNA binding|potassium channel activity|transcription corepressor activity|voltage-gated ion channel activity			breast(2)|ovary(1)	3				READ - Rectum adenocarcinoma(193;0.13)		GGACGGGAACGGGGCCATCCA	0.622													10	101					0	0	1	0	0		A	96040939	A	A	96040939	3	1	77	1	0	0	0	0	1	0	0	0	8057	1116	39	1	555	1	KCNIP3	2	96040939	Missense_Mutation	SNP	G	TCGA-BR-8384-01A-21D-2394-08	94363392	96040939	147158434	7	49773											
HOXD3	3232	broad.mit.edu	37	chr2	177036736	177036736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatggcgagcaacggcggcGgcttcgccagcgccaacttg	7	5	14	15	6	0	0	0	0	0	0	1	1	0	0	3	4	4	2	3	4	2	2			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr2:177036736G>A	uc002ukt.1	+	3	1209	c.1033G>A	c.(1033-1035)GGC>AGC	p.G345S		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	345					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		CAACGGCGGCGGCTTCGCCAG	0.697													3	25					0	0	1	0	0		A	177036736	A	A	177036736	3	1	77	1	0	0	0	0	1	0	0	0	7339	1116	39	1	1039	1	HOXD3	2	177036736	Missense_Mutation	SNP	G	TCGA-BR-8384-01A-21D-2394-08	80995797	177036736	66162637	8	49774											
TTN	7273	broad.mit.edu	37	chr2	179640792	179640792	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaaggacagacctaaaatcTtccctctgttgaatctcaag	13	11	6	11	0	3	2	1	1	3	1	5	3	4	3	2	1	0	1	2	1	5	4			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr2:179640792T>G	uc010zfg.1	-	28	6023	c.5799A>C	c.(5797-5799)GAA>GAC	p.E1933D	TTN_uc010zfh.1_Missense_Mutation_p.E1887D|TTN_uc010zfi.1_Missense_Mutation_p.E1887D|TTN_uc010zfj.1_Missense_Mutation_p.E1887D|TTN_uc002unb.2_Missense_Mutation_p.E1933D|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1933							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACCTAAAATCTTCCCTCTGTT	0.443													10	214					0	0	1	0	0		G	179640792	G	G	179640792	3	3	77	1	0	0	0	0	1	0	0	0	16761	1606	56	5	105529	5	TTN	2	179640792	Missense_Mutation	SNP	T	TCGA-BR-8384-01A-21D-2394-08	2604056	179640792	63558581	9	49775											
OBSL1	23363	broad.mit.edu	37	chr2	220432469	220432469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgagaagcgtagtggtacggGagttgcccaggctaaaggtg	10	8	17	6	2	0	1	0	1	0	1	0	3	0	2	1	4	3	4	1	4	5	4			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr2:220432469G>A	uc010fwk.2	-	3	1562	c.1505C>T	c.(1504-1506)TCC>TTC	p.S502F	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Missense_Mutation_p.S502F|OBSL1_uc002vmj.2_Missense_Mutation_p.S89F	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	502					cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		AGTGGTACGGGAGTTGCCCAG	0.622													5	70					0	0	1	0	0		A	220432469	A	A	220432469	3	1	77	1	0	0	0	0	1	0	0	0	10832	1174	41	4	4413	4	OBSL1	2	220432469	Missense_Mutation	SNP	G	TCGA-BR-8384-01A-21D-2394-08	40791677	220432469	22766904	10	49776											
OR5K1	26339	broad.mit.edu	37	chr3	98188977	98188977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgatattcttcccttgtataGactctcttgtgttgatcctt	6	20	6	9	0	2	3	0	2	2	1	5	3	4	3	2	0	0	2	2	0	3	9			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr3:98188977G>A	uc003dsm.2	+	1	557	c.557G>A	c.(556-558)AGA>AAA	p.R186K		NM_001004736	NP_001004736	Q8NHB7	OR5K1_HUMAN	olfactory receptor, family 5, subfamily K,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)	1						CCCTTGTATAGACTCTCTTGT	0.363													17	163					0	0	1	0	0		A	98188977	A	A	98188977	3	1	77	1	0	0	0	0	1	0	0	0	11185	942	33	4	559	4	OR5K1	3	98188977	Missense_Mutation	SNP	G	TCGA-BR-8384-01A-21D-2394-08		98188977	99833453	11	49777											
DHX36	170506	broad.mit.edu	37	chr3	154010343	154010343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagagttcccaccttaccttCcagctcgaccttttctctgt	6	14	5	16	1	1	1	0	0	1	1	5	2	3	1	5	0	2	2	5	0	1	5			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr3:154010343C>T	uc003ezy.3	-	15	1892	c.1811G>A	c.(1810-1812)GGA>GAA	p.G604E	DHX36_uc010hvq.2_Missense_Mutation_p.G590E|DHX36_uc003ezz.3_Missense_Mutation_p.G604E	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	604	Helicase C-terminal.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			ACCTTACCTTCCAGCTCGACC	0.348													16	201					0	0	1	0	0		T	154010343	T	T	154010343	3	4	77	1	0	0	0	0	1	0	0	0	4515	855	30	4	1259	4	DHX36	3	154010343	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08	55821366	154010343	44012087	12	49778											
FNDC3B	64778	broad.mit.edu	37	chr3	172055153	172055153	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatggtggttcagaaatccTcaagtacttgctagagatta	13	12	9	7	0	2	2	2	0	0	2	3	3	3	2	1	2	2	3	1	2	6	5			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr3:172055153T>G	uc003fhy.2	+	16	1986	c.1814T>G	c.(1813-1815)CTC>CGC	p.L605R	FNDC3B_uc003fhz.3_Missense_Mutation_p.L605R|FNDC3B_uc003fia.2_Missense_Mutation_p.L536R	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	605	Fibronectin type-III 4.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		TCAGAAATCCTCAAGTACTTG	0.328													4	43					0	0	1	0	0		G	172055153	G	G	172055153	3	3	77	1	0	0	0	0	1	0	0	0	5984	1551	54	5	1872	5	FNDC3B	3	172055153	Missense_Mutation	SNP	T	TCGA-BR-8384-01A-21D-2394-08	18044810	172055153	25967277	13	49779											
WHSC1	7468	broad.mit.edu	37	chr4	1978261	1978261	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accaagaagaaaacgaggcgGcgcagagcaaaaggggaagg	18	0	16	7	3	0	3	0	0	0	3	0	5	0	4	1	5	2	2	1	5	7	0			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr4:1978261G>A	uc003gdz.3	+	21	3857	c.3681G>A	c.(3679-3681)CGG>CGA	p.R1227R	WHSC1_uc003geb.3_Silent_p.R1227R|WHSC1_uc003gec.3_Silent_p.R1227R|WHSC1_uc003ged.3_Silent_p.R1227R|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gei.3_Silent_p.R446R|WHSC1_uc011bvh.1_Silent_p.R288R|WHSC1_uc010icf.2_Silent_p.R575R	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	1227					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		AAACGAGGCGGCGCAGAGCAA	0.537			T	IGH@	MM								3	20					0	0	1	0	0		A	1978261	A	A	1978261	2	1	77	1	0	0	0	0	0	0	0	1	17388	1190	42	2		2	WHSC1	4	1978261	Silent	SNP	G	TCGA-BR-8384-01A-21D-2394-08		1978261	189176015	14	49780											
LATS1	9113	broad.mit.edu	37	chr6	150001244	150001244	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ataggctcatcatatcacccCcaggaatgtagtccattaca	13	10	6	12	0	3	0	3	0	0	0	4	1	4	1	3	2	1	2	3	2	5	4			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr6:150001244C>G	uc003qmu.1	-	5	2908	c.2360G>C	c.(2359-2361)GGG>GCG	p.G787A	LATS1_uc010kif.1_Missense_Mutation_p.G682A|LATS1_uc003qmv.1_Missense_Mutation_p.G787A	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	787	Protein kinase.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		CATATCACCCCCAGGAATGTA	0.388													11	95					0	0	1	0	0		G	150001244	G	G	150001244	3	3	77	1	0	0	0	0	1	0	0	0	8662	623	22	5	1048	5	LATS1	6	150001244	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08		150001244	21113823	15	49781											
CHRM2	1129	broad.mit.edu	37	chr7	136701002	136701002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcattataagaacataggcGctacaaggtaaaatatcttt	16	12	7	6	1	2	1	1	0	1	1	2	1	2	1	0	2	2	2	0	2	9	7			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr7:136701002G>A	uc003vtf.1	+	4	2013	c.1390G>A	c.(1390-1392)GCT>ACT	p.A464T	CHRM2_uc003vtg.1_Missense_Mutation_p.A464T|CHRM2_uc003vtj.1_Missense_Mutation_p.A464T|CHRM2_uc003vtk.1_Missense_Mutation_p.A464T|CHRM2_uc003vtl.1_Missense_Mutation_p.A464T|CHRM2_uc003vtm.1_Missense_Mutation_p.A464T|CHRM2_uc003vti.1_Missense_Mutation_p.A464T|CHRM2_uc003vto.1_Missense_Mutation_p.A464T|CHRM2_uc003vtn.1_Missense_Mutation_p.A464T|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	464	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	GAACATAGGCGCTACAAGGTA	0.408													7	73					0	0	1	0	0		A	136701002	A	A	136701002	3	1	77	1	0	0	0	0	1	0	0	0	3380	1087	38	1	1392	1	CHRM2	7	136701002	Missense_Mutation	SNP	G	TCGA-BR-8384-01A-21D-2394-08		136701002	22437661	16	49782											
RP1L1	94137	broad.mit.edu	37	chr8	10467031	10467031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccaggaaggccttctccGtcttcttcagtaacacggac	8	9	11	13	2	4	0	1	0	3	0	5	2	4	2	3	4	1	1	3	4	2	4			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr8:10467031G>A	uc003wtc.2	-	4	4806	c.4577C>T	c.(4576-4578)ACG>ATG	p.T1526M		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1526					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GGCCTTCTCCGTCTTCTTCAG	0.662													6	86					0	0	1	0	0		A	10467031	A	A	10467031	3	1	77	1	0	0	0	0	1	0	0	0	13558	1145	40	1	2629	1	RP1L1	8	10467031	Missense_Mutation	SNP	G	TCGA-BR-8384-01A-21D-2394-08		10467031	135896991	17	49783											
PSD3	23362	broad.mit.edu	37	chr8	18725257	18725257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcattcagcccattggtgaCgccactagaatagcccatca	12	9	7	13	1	3	2	3	1	0	1	3	2	3	2	3	1	2	0	3	1	3	4			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr8:18725257C>T	uc003wza.2	-	4	1664	c.1561G>A	c.(1561-1563)GTC>ATC	p.V521I		NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	521					regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		CCATTGGTGACGCCACTAGAA	0.522													14	152					0	0	1	0	0		T	18725257	T	T	18725257	3	4	77	1	0	0	0	0	1	0	0	0	12670	536	19	1	1670	1	PSD3	8	18725257	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08	8258226	18725257	127638765	18	49784											
UNC5D	137970	broad.mit.edu	37	chr8	35542177	35542177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatggcagaaacgttccCggacctgcaccaacccagct	11	5	11	14	2	0	1	0	0	0	1	1	4	1	3	4	3	4	4	4	3	2	1			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr8:35542177C>T	uc003xjr.1	+	6	1157	c.829C>T	c.(829-831)CGG>TGG	p.R277W	UNC5D_uc003xjs.1_Missense_Mutation_p.R272W|UNC5D_uc003xjt.1_Missense_Mutation_p.R46W	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	277	TSP type-1 1.|Extracellular (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		GAAACGTTCCCGGACCTGCAC	0.522													10	150					0	0	1	0	0		T	35542177	T	T	35542177	3	4	77	1	0	0	0	0	1	0	0	0	17021	643	23	1	851	1	UNC5D	8	35542177	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08	16816920	35542177	110821845	19	49785											
CSMD3	114788	broad.mit.edu	37	chr8	113960100	113960100	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgttttaatacctcccTcatttactgcaacagcaggg	11	12	7	11	0	1	0	1	0	0	0	2	0	2	0	2	1	6	4	2	1	5	5			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr8:113960100T>A	uc003ynu.2	-	9	1586	c.1427A>T	c.(1426-1428)GAG>GTG	p.E476V	CSMD3_uc003ynt.2_Missense_Mutation_p.E436V|CSMD3_uc011lhx.1_Missense_Mutation_p.E372V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	476	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AATACCTCCCTCATTTACTGC	0.274										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			6	47					0	0	1	0	0		A	113960100	A	A	113960100	3	1	77	1	0	0	0	0	1	0	0	0	3949	1551	54	5	9948	5	CSMD3	8	113960100	Missense_Mutation	SNP	T	TCGA-BR-8384-01A-21D-2394-08	78417923	113960100	32403922	20	49786											
SEC16A	9919	broad.mit.edu	37	chr9	139368957	139368957	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctgataaaaacggtcAaggttaggcgccccaggccc	11	6	11	13	2	1	1	1	1	0	0	1	1	1	1	4	4	2	2	4	4	5	2			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr9:139368957A>C	uc004chx.2	-	3	3420	c.3111T>G	c.(3109-3111)CTT>CTG	p.L1037L	SEC16A_uc004chv.3_Intron|SEC16A_uc004chw.2_Silent_p.L1037L|SEC16A_uc010nbn.2_Silent_p.L1037L|SEC16A_uc010nbo.1_Silent_p.L1037L	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	859					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		AAAAACGGTCAAGGTTAGGCG	0.582													4	29					0	0	1	0	0		C	139368957	C	C	139368957	2	2	77	1	0	0	0	0	0	0	0	1	14011	117	5	5		5	SEC16A	9	139368957	Silent	SNP	A	TCGA-BR-8384-01A-21D-2394-08		139368957	1844474	21	49787											
PCDH15	65217	broad.mit.edu	37	chr10	55582245	55582245	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaataggaggaggagggggAaggggacaggcagaaggaga	16	1	22	2	0	0	2	0	0	0	2	0	9	0	7	0	9	0	1	0	9	4	1			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr10:55582245A>G	uc001jju.1	-	33	5636	c.5241T>C	c.(5239-5241)CTT>CTC	p.L1747L	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.L1744L|PCDH15_uc010qhw.1_Silent_p.L1707L|PCDH15_uc010qhx.1_Silent_p.L1678L|PCDH15_uc010qhy.1_Silent_p.L1754L|PCDH15_uc010qhz.1_Silent_p.L1749L|PCDH15_uc010qia.1_Silent_p.L1727L|PCDH15_uc010qib.1_Silent_p.L1724L	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1747	Poly-Pro.|Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				gaggagggggaaggggaCAGG	0.179										HNSCC(58;0.16)			3	15					0	0	1	0	0		G	55582245	G	G	55582245	2	3	77	1	0	0	0	0	0	0	0	1	11530	233	9	3		3	PCDH15	10	55582245	Silent	SNP	A	TCGA-BR-8384-01A-21D-2394-08		55582245	79952502	22	49788											
HIF1AN	55662	broad.mit.edu	37	chr10	102305759	102305759	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccaaaatgtggttggttaCgaaacagtggttggccctgg	9	12	13	7	1	0	0	0	0	0	0	1	1	1	0	2	5	2	3	2	5	4	4			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr10:102305759C>T	uc001krj.3	+	5	858	c.783C>T	c.(781-783)TAC>TAT	p.Y261Y		NM_017902	NP_060372	Q9NWT6	HIF1N_HUMAN	hypoxia-inducible factor 1, alpha subunit	261	JmjC.|Interaction with HIF1A.|Interaction with VHL.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|protein binding				0		Colorectal(252;0.234)		Epithelial(162;6.75e-10)|all cancers(201;4.88e-08)		TGGTTGGTTACGAAACAGTGG	0.453													12	134					0	0	1	0	0		T	102305759	T	T	102305759	2	4	77	1	0	0	0	0	0	0	0	1	7120	547	19	1		1	HIF1AN	10	102305759	Silent	SNP	C	TCGA-BR-8384-01A-21D-2394-08	46723514	102305759	33228988	23	49789											
OR5AS1	219447	broad.mit.edu	37	chr11	55798495	55798495	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaccagcttctgctctttGctttgtgcagcttcatccag	6	15	7	13	0	4	0	2	0	2	0	5	0	5	0	2	0	6	5	2	0	1	4			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr11:55798495G>T	uc010riw.1	+	1	601	c.601G>T	c.(601-603)GCT>TCT	p.A201S		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	201	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					TCTGCTCTTTGCTTTGTGCAG	0.423													21	293					3.51602e-12	3.7585e-12	1	1	0		T	55798495	T	T	55798495	3	4	77	1	0	0	0	0	1	0	0	0	11165	1319	46	5	603	5	OR5AS1	11	55798495	Missense_Mutation	SNP	G	TCGA-BR-8384-01A-21D-2394-08		55798495	79208021	24	49790											
CHFR	55743	broad.mit.edu	37	chr12	133435715	133435715	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagcgtctcctccatcttgtCtggcttcccagccgctgctc	3	12	8	18	2	3	0	0	0	3	0	7	0	5	0	4	1	3	3	4	1	0	2			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr12:133435715C>G	uc001ulf.2	-	8	970	c.886G>C	c.(886-888)GAC>CAC	p.D296H	CHFR_uc001ulc.1_RNA|CHFR_uc001ule.2_Missense_Mutation_p.D284H|CHFR_uc010tbs.1_Missense_Mutation_p.D296H|CHFR_uc001uld.2_Missense_Mutation_p.D255H|CHFR_uc010tbt.1_Missense_Mutation_p.D204H	NM_001161344	NP_001154816	Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains	296					cell division|mitosis|mitotic cell cycle checkpoint|modification-dependent protein catabolic process|protein polyubiquitination	PML body	nucleotide binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00552)|all_epithelial(31;0.226)		OV - Ovarian serous cystadenocarcinoma(86;2.59e-08)|Epithelial(86;6.38e-07)|all cancers(50;1.56e-05)		TCCATCTTGTCTGGCTTCCCA	0.597													10	74					0	0	1	0	0		G	133435715	G	G	133435715	3	3	77	1	0	0	0	0	1	0	0	0	3340	913	32	5	1152	5	CHFR	12	133435715	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08		133435715	416180	25	49791											
BRCA2	675	broad.mit.edu	37	chr13	32911853	32911853	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctactatattagaagaaTcaggaagtcagtttgaattt	14	16	7	4	0	3	3	2	1	1	2	3	4	3	4	0	1	1	1	0	1	8	7			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr13:32911853T>A	uc001uub.1	+	11	3588	c.3361T>A	c.(3361-3363)TCA>ACA	p.S1121T		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1121					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		ATTAGAAGAATCAGGAAGTCA	0.338			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			5	55					0	0	1	0	0		A	32911853	A	A	32911853	3	1	77	1	0	0	0	0	1	0	0	0	1502	1435	50	5	3399	5	BRCA2	13	32911853	Missense_Mutation	SNP	T	TCGA-BR-8384-01A-21D-2394-08		32911853	82258025	26	49792											
BRCA2	675	broad.mit.edu	37	chr13	32911967	32911967	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagaccacttctgaggaaTgcagagatgctgatcttcat	13	11	9	8	0	3	4	1	2	2	2	3	6	3	5	1	1	2	2	1	1	3	3			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr13:32911967T>A	uc001uub.1	+	11	3702	c.3475T>A	c.(3475-3477)TGC>AGC	p.C1159S		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1159					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TTCTGAGGAATGCAGAGATGC	0.388			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			7	96					0	0	1	0	0		A	32911967	A	A	32911967	3	1	77	1	0	0	0	0	1	0	0	0	1502	1464	51	5	3513	5	BRCA2	13	32911967	Missense_Mutation	SNP	T	TCGA-BR-8384-01A-21D-2394-08	114	32911967	82257911	27	49793											
OCA2	4948	broad.mit.edu	37	chr15	28228574	28228574	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctcctccaatgtttgtgaAgatcacttctgcaatcagga	11	12	8	10	0	3	2	2	1	1	1	5	3	5	3	2	1	2	3	2	1	3	2			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr15:28228574A>C	uc001zbh.3	-	14	1530	c.1420T>G	c.(1420-1422)TTC>GTC	p.F474V	OCA2_uc010ayv.2_Missense_Mutation_p.F450V	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	474	Extracellular (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		ATGTTTGTGAAGATCACTTCT	0.468									Oculocutaneous_Albinism				8	97					0	0	1	0	0		C	28228574	C	C	28228574	3	2	77	1	0	0	0	0	1	0	0	0	10834	72	3	5	1140	5	OCA2	15	28228574	Missense_Mutation	SNP	A	TCGA-BR-8384-01A-21D-2394-08		28228574	74302818	28	49794											
TMEM85	51234	broad.mit.edu	37	chr15	34517759	34517759	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgaagtgaccggggcagtGgccagggagactcgctctac	8	6	16	11	3	1	2	0	1	1	1	3	4	1	2	2	4	1	2	2	4	2	1			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr15:34517759G>T	uc001zhq.2	+	2	180	c.109G>T	c.(109-111)GGC>TGC	p.G37C	TMEM85_uc010ucb.1_Missense_Mutation_p.G37C|TMEM85_uc001zhr.2_RNA|TMEM85_uc001zhs.2_Missense_Mutation_p.G37C|TMEM85_uc010bat.2_Intron	NM_016454	NP_057538	Q5J8M3	TMM85_HUMAN	transmembrane protein 85	37					apoptosis	integral to membrane					0		all_lung(180;1.15e-06)		all cancers(64;1.03e-17)|GBM - Glioblastoma multiforme(113;3.33e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0244)|Lung(196;0.217)		CCGGGGCAGTGGCCAGGGAGA	0.512													9	181					0.00829132	0.00829132	1	1	0		T	34517759	T	T	34517759	3	4	77	1	0	0	0	0	1	0	0	0	16232	1348	47	5	115	5	TMEM85	15	34517759	Missense_Mutation	SNP	G	TCGA-BR-8384-01A-21D-2394-08	6289185	34517759	68013633	29	49795											
ABCC12	94160	broad.mit.edu	37	chr16	48149471	48149471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggtcggagtagacagcgCgggccaggctaatcctctgc	8	6	15	12	4	1	1	0	0	1	1	3	3	2	2	2	4	2	2	2	4	2	2			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr16:48149471C>T	uc002efc.1	-	13	2190	c.1844G>A	c.(1843-1845)CGC>CAC	p.R615H	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	615	ABC transporter 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				GTAGACAGCGCGGGCCAGGCT	0.632													6	76					0	0	1	0	0		T	48149471	T	T	48149471	3	4	77	1	0	0	0	0	1	0	0	0	52	768	27	1	2303	1	ABCC12	16	48149471	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08		48149471	42205282	30	49796											
CDH8	1006	broad.mit.edu	37	chr16	61687741	61687741	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgcagccttacatttataAattcatcgacatcaacacca	15	11	3	12	1	2	0	2	0	0	0	3	1	2	0	2	0	4	1	2	0	5	5			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr16:61687741A>C	uc002eog.1	-	12	2423	c.2171T>G	c.(2170-2172)TTT>TGT	p.F724C		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	724	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TACATTTATAAATTCATCGAC	0.453													7	97					0	0	1	0	0		C	61687741	C	C	61687741	3	2	77	1	0	0	0	0	1	0	0	0	3119	14	1	5	232	5	CDH8	16	61687741	Missense_Mutation	SNP	A	TCGA-BR-8384-01A-21D-2394-08	13538270	61687741	28667012	31	49797											
MYH4	4622	broad.mit.edu	37	chr17	10368833	10368833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcctggcgctttttgcctCggtaggctgtcaccacctca	4	12	9	16	2	2	0	2	0	0	0	4	0	3	0	5	3	1	3	5	3	1	3			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr17:10368833C>T	uc002gmn.2	-	5	542	c.431G>A	c.(430-432)CGA>CAA	p.R144Q	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	144	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CTTTTTGCCTCGGTAGGCTGT	0.542													20	206					0	0	1	0	0		T	10368833	T	T	10368833	3	4	77	1	0	0	0	0	1	0	0	0	10055	884	31	1	5532	1	MYH4	17	10368833	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08		10368833	70826377	32	49798											
KRTAP9-9	81870	broad.mit.edu	37	chr17	39412077	39412077	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgccccgcctgctgtgagaCcacctgctgcaggaccactt	6	7	10	18	2	0	1	0	1	0	1	0	3	0	2	7	1	3	3	7	1	0	1			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr17:39412077C>G	uc010wfq.1	+	3	397	c.395C>G	c.(394-396)ACC>AGC	p.T132S		NM_030975	NP_112237	B5MDD6	B5MDD6_HUMAN	keratin associated protein 9-9	147						keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			TGCTGTGAGACCACCTGCTGC	0.607													27	271					0	0	1	0	0		G	39412077	G	G	39412077	3	3	77	1	0	0	0	0	1	0	0	0	8593	507	18	5	442	5	KRTAP9-9	17	39412077	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08	29043244	39412077	41783133	33	49799											
CLUL1	27098	broad.mit.edu	37	chr18	644941	644941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gattcatgaaggaaatatttCcaaacaagatgaaacaatga	20	9	7	5	0	1	4	1	3	0	1	2	6	2	5	1	1	2	0	1	1	7	3			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr18:644941C>T	uc002kkp.2	+	8	1386	c.1241C>T	c.(1240-1242)TCC>TTC	p.S414F	CLUL1_uc010wys.1_Missense_Mutation_p.S466F|CLUL1_uc002kkq.2_Missense_Mutation_p.S414F	NM_014410	NP_055225	Q15846	CLUL1_HUMAN	clusterin-like 1 (retinal) precursor	414					cell death	extracellular region				ovary(2)	2						GGAAATATTTCCAAACAAGAT	0.348													5	41					0	0	1	0	0		T	644941	T	T	644941	3	4	77	1	0	0	0	0	1	0	0	0	3573	855	30	4	1267	4	CLUL1	18	644941	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08		644941	77432307	34	49800											
FECH	2235	broad.mit.edu	37	chr18	55247314	55247314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagactcatacctcttctgcGgttgaacttgaggttttgca	8	15	9	9	1	3	3	1	2	2	1	3	3	3	3	1	2	4	3	1	2	3	7	rs150830931	byFrequency	TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr18:55247314G>A	uc002lgq.3	-	2	302	c.185C>T	c.(184-186)CCG>CTG	p.P62L	FECH_uc002lgp.3_Missense_Mutation_p.P62L|FECH_uc002lgr.3_5'UTR	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor	62			P -> R (in EPP).		generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)				CCTCTTCTGCGGTTGAACTTG	0.522													10	120					0	0	1	0	0		A	55247314	A	A	55247314	3	1	77	1	0	0	0	0	1	0	0	0	5822	1116	39	1	1144	1	FECH	18	55247314	Missense_Mutation	SNP	G	TCGA-BR-8384-01A-21D-2394-08	54602373	55247314	22829934	35	49801											
ZNF99	7652	broad.mit.edu	37	chr19	22940942	22940942	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacatttgtagggtttcTccccagtatgaattgcttta	8	17	7	9	0	2	1	1	1	1	0	3	1	2	1	2	1	1	4	2	1	4	8			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr19:22940942T>C	uc010xrh.1	-	5	1496	c.1496A>G	c.(1495-1497)GAG>GGG	p.E499G		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				GTAGGGTTTCTCCCCAGTATG	0.358													5	34					0	0	1	0	0		C	22940942	C	C	22940942	3	2	77	1	0	0	0	0	1	0	0	0	18229	1551	54	3	1628	3	ZNF99	19	22940942	Missense_Mutation	SNP	T	TCGA-BR-8384-01A-21D-2394-08		22940942	36188041	36	49802											
PSG2	5670	broad.mit.edu	37	chr19	43575896	43575896	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggagctttcctcgccagtgGctgagttacgaacagagcaa	10	9	12	10	2	0	2	0	1	0	1	2	4	1	3	2	2	4	4	2	2	3	2			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr19:43575896G>C	uc002ovr.2	-	4	1013	c.920C>G	c.(919-921)GCC>GGC	p.A307G	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.A307G|PSG2_uc010eiq.1_Missense_Mutation_p.A307G|PSG2_uc002ovs.3_Missense_Mutation_p.A307G|PSG2_uc002ovt.3_Missense_Mutation_p.A307G	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	307	Ig-like C2-type 2.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				CTCGCCAGTGGCTGAGTTACG	0.458													30	339					0	0	1	0	0		C	43575896	C	C	43575896	3	2	77	1	0	0	0	0	1	0	0	0	12677	1203	42	5	95	5	PSG2	19	43575896	Missense_Mutation	SNP	G	TCGA-BR-8384-01A-21D-2394-08	20634954	43575896	15553087	37	49803											
DPRX	503834	broad.mit.edu	37	chr19	54140031	54140031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgatcggcctggtgtacaCgggtcatcgagtcccctcat	6	9	11	15	4	2	0	2	0	0	0	5	2	3	0	4	3	1	1	4	3	1	1			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr19:54140031C>T	uc002qcf.1	+	3	416	c.365C>T	c.(364-366)ACG>ATG	p.T122M		NM_001012728	NP_001012746	A6NFQ7	DPRX_HUMAN	divergent-paired related homeobox	122						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.013)		CTGGTGTACACGGGTCATCGA	0.562													11	145					0	0	1	0	0		T	54140031	T	T	54140031	3	4	77	1	0	0	0	0	1	0	0	0	4744	536	19	1	375	1	DPRX	19	54140031	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08	10564135	54140031	4988952	38	49804											
ZNF274	10782	broad.mit.edu	37	chr19	58697083	58697083	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatctggatttttaggaacCagtgacctttgaagatgtaa	13	13	10	5	0	1	3	0	2	1	1	1	6	1	5	2	2	1	1	2	2	5	5			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr19:58697083C>G	uc002qrq.1	+	3	497	c.38C>G	c.(37-39)CCA>CGA	p.P13R	ZNF274_uc010yhu.1_RNA|ZNF274_uc010yhv.1_Intron|ZNF274_uc002qrr.1_Missense_Mutation_p.P13R|ZNF274_uc002qrs.1_Intron|ZNF274_uc010eum.1_5'UTR	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	13					viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		TTTTAGGAACCAGTGACCTTT	0.512													8	137					0	0	1	0	0		G	58697083	G	G	58697083	3	3	77	1	0	0	0	0	1	0	0	0	17834	594	21	5	44	5	ZNF274	19	58697083	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08	4557052	58697083	431900	39	49805											
SNPH	9751	broad.mit.edu	37	chr20	1277044	1277044	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccctgccaggaagtagacGgacctctgctggatcacgca	9	7	12	13	2	2	1	1	0	1	1	3	4	3	4	3	3	2	3	3	3	2	1			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr20:1277044G>C	uc002wes.2	+	3	265	c.29G>C	c.(28-30)CGG>CCG	p.R10P	SNPH_uc002wet.2_Missense_Mutation_p.R54P	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	10					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						GGAAGTAGACGGACCTCTGCT	0.642													4	58					0	0	1	0	0		C	1277044	C	C	1277044	3	2	77	1	0	0	0	0	1	0	0	0	14875	1116	39	5	31	5	SNPH	20	1277044	Missense_Mutation	SNP	G	TCGA-BR-8384-01A-21D-2394-08		1277044	61748476	40	49806											
GGTLC1	92086	broad.mit.edu	37	chr20	23967072	23967072	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcggcccagcagcccctaCtagaggttgatggtgctggt	7	8	15	11	1	0	2	0	1	0	1	0	2	0	2	3	5	4	3	3	5	2	3			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr20:23967072C>T	uc002wts.2	-	2	309	c.176_splice	c.e2+1	p.Y59_splice	GGTLC1_uc002wtu.2_Splice_Site_p.Y59_splice	NM_178312	NP_842564	Q9BX51	GGTL1_HUMAN	gamma-glutamyltransferase light chain 1								gamma-glutamyltransferase activity			ovary(1)	1						GCAGCCCCTACTAGAGGTTGA	0.632													5	36					0	0	1	0	0		T	23967072	T	T	23967072	5	4	77	1	0	0	0	0	0	0	1	0	6380	579	20	4	520	4	GGTLC1	20	23967072	Splice_Site	SNP	C	TCGA-BR-8384-01A-21D-2394-08	22690028	23967072	39058448	41	49807											
KRTAP21-2	337978	broad.mit.edu	37	chr21	32119459	32119459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cacaaccatatccacagccgGaactccagccagagccatat	14	5	6	16	1	0	1	0	0	0	1	2	2	2	2	6	1	5	0	6	1	4	2			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chr21:32119459G>A	uc011adh.1	-	1	62	c.62C>T	c.(61-63)TCC>TTC	p.S21F		NM_181617	NP_853648	Q3LI59	KR212_HUMAN	keratin associated protein 21-2	21						intermediate filament					0						tccacagccggaactccagcc	0.149													7	96					0	0	1	0	0		A	32119459	A	A	32119459	3	1	77	1	0	0	0	0	1	0	0	0	8555	1174	41	4	191	4	KRTAP21-2	21	32119459	Missense_Mutation	SNP	G	TCGA-BR-8384-01A-21D-2394-08		32119459	16010436	42	49808											
PCDH11X	27328	broad.mit.edu	37	chrX	91134131	91134131	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgaagcaccacatcatccaAgaactgcctctcgataacac	14	7	5	15	2	2	1	1	0	1	1	5	3	3	1	3	0	4	1	3	0	4	1			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chrX:91134131A>C	uc004efk.1	+	2	3737	c.2892A>C	c.(2890-2892)CAA>CAC	p.Q964H	PCDH11X_uc004efl.1_Missense_Mutation_p.Q964H|PCDH11X_uc004efo.1_Missense_Mutation_p.Q964H|PCDH11X_uc010nmv.1_Missense_Mutation_p.Q964H|PCDH11X_uc004efm.1_Missense_Mutation_p.Q964H|PCDH11X_uc004efn.1_Missense_Mutation_p.Q964H|PCDH11X_uc004efh.1_Missense_Mutation_p.Q964H|PCDH11X_uc004efj.1_Missense_Mutation_p.Q964H	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	964	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ACATCATCCAAGAACTGCCTC	0.507													29	151					0	0	1	0	0		C	91134131	C	C	91134131	3	2	77	1	0	0	0	0	1	0	0	0	11527	69	3	5	2898	5	PCDH11X	23	91134131	Missense_Mutation	SNP	A	TCGA-BR-8384-01A-21D-2394-08		91134131	64136429	43	49809											
NRK	203447	broad.mit.edu	37	chrX	105178264	105178264	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaggagccaggtggtggAaatgaggcctcaaatgccat	11	10	13	7	0	1	1	1	1	0	0	1	3	1	3	3	5	2	0	3	5	3	2			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chrX:105178264A>G	uc004emd.2	+	20	3630	c.3327A>G	c.(3325-3327)GGA>GGG	p.G1109G	NRK_uc010npc.1_Silent_p.G777G	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1109							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						CAGGTGGTGGAAATGAGGCCT	0.418										HNSCC(51;0.14)			6	34					0	0	1	0	0		G	105178264	G	G	105178264	2	3	77	1	0	0	0	0	0	0	0	1	10674	233	9	3		3	NRK	23	105178264	Silent	SNP	A	TCGA-BR-8384-01A-21D-2394-08	14044133	105178264	50092296	44	49810											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299770	125299770	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaccagcctgcgacgcgtCgccggccgcttctgcttctt	3	10	11	17	6	2	0	0	0	2	0	3	1	2	0	4	1	4	3	4	1	0	3			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chrX:125299770C>T	uc004euk.1	-	1	165	c.138G>A	c.(136-138)GCG>GCA	p.A46A		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	46										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						TGCGACGCGTCGCCGGCCGCT	0.741													4	30					0	0	1	0	0		T	125299770	T	T	125299770	2	4	77	1	0	0	0	0	0	0	0	1	4268	871	31	1		1	DCAF12L2	23	125299770	Silent	SNP	C	TCGA-BR-8384-01A-21D-2394-08	20121506	125299770	29970790	45	49811											
MAGEC1	9947	broad.mit.edu	37	chrX	140995303	140995303	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgagggagaggactccCtgtcttctctccattttcct	5	15	8	13	0	3	2	0	1	3	1	7	4	6	3	3	2	0	0	3	2	0	4			TCGA-BR-8384-01A-21D-2394-08	TCGA-BR-8384-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	67e2a6ef-86ba-44b7-8e27-caa5d939abc9	f3204691-0a34-4064-90ce-8fa32a8e43c4	g.chrX:140995303C>A	uc004fbt.2	+	4	2399	c.2113C>A	c.(2113-2115)CTG>ATG	p.L705M	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	705							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AGAGGACTCCCTGTCTTCTCT	0.562										HNSCC(15;0.026)			18	96					2.48551e-13	2.75181e-13	1	1	0		A	140995303	A	A	140995303	3	1	77	1	0	0	0	0	1	0	0	0	9198	680	24	5	2119	5	MAGEC1	23	140995303	Missense_Mutation	SNP	C	TCGA-BR-8384-01A-21D-2394-08	15695533	140995303	14275257	46	49812											
TAS1R3	83756	broad.mit.edu	37	chr1	1267838	1267838	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggctgacctctgacctggtCatggggctgcccggcatggc	4	9	15	13	1	2	2	1	2	1	0	2	2	2	2	3	6	1	3	3	6	0	0			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:1267838C>T	uc010nyk.1	+	3	927	c.927C>T	c.(925-927)GTC>GTT	p.V309V		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	309	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)	Aspartame(DB00168)	CTGACCTGGTCATGGGGCTGC	0.672													5	33					0	0	1	0	0		T	1267838	T	T	1267838	2	4	78	1	0	0	0	0	0	0	0	1	15589	813	29	4		4	TAS1R3	1	1267838	Silent	SNP	C	TCGA-BR-8484-01A-11D-2394-08		1267838	247982783	1	49813											
C1orf174	339448	broad.mit.edu	37	chr1	3807161	3807161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaacgtttccaaagaacCggctcacgggcattggctga	10	8	11	12	3	2	2	2	1	0	1	3	2	3	2	2	3	2	5	2	3	3	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:3807161C>T	uc001alf.2	-	3	697	c.590G>A	c.(589-591)CGG>CAG	p.R197Q	C1orf174_uc009vls.2_RNA	NM_207356	NP_997239	Q8IYL3	CA174_HUMAN	hypothetical protein LOC339448	197											0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;5.09e-25)|all_epithelial(116;9.35e-17)|all_lung(118;1.09e-06)|Lung NSC(185;0.000139)|all_neural(13;0.00287)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0219)|all_hematologic(16;0.027)|Colorectal(325;0.0276)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;1.55e-39)|OV - Ovarian serous cystadenocarcinoma(86;5.99e-23)|GBM - Glioblastoma multiforme(42;2.22e-17)|Colorectal(212;1.08e-05)|COAD - Colon adenocarcinoma(227;5.49e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000365)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.19)		TCCAAAGAACCGGCTCACGGG	0.567													58	55					0	0	1	0	0		T	3807161	T	T	3807161	3	4	78	1	0	0	0	0	1	0	0	0	2018	652	23	1	149	1	C1orf174	1	3807161	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	2539323	3807161	245443460	2	49814											
CASP9	842	broad.mit.edu	37	chr1	15831220	15831220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagggcatccatctgtgcCgtagacagcccctgggaact	9	7	11	14	1	1	1	0	0	1	1	2	2	2	2	4	2	3	2	4	2	2	1			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:15831220C>T	uc001awn.2	-	6	849	c.754G>A	c.(754-756)GGC>AGC	p.G252S	CASP9_uc001awm.1_Missense_Mutation_p.G252S|CASP9_uc001awo.2_Intron|CASP9_uc001awp.2_Missense_Mutation_p.G96S|CASP9_uc009voi.2_Missense_Mutation_p.G96S|CASP9_uc010obm.1_Missense_Mutation_p.G169S|CASP9_uc001awq.2_Missense_Mutation_p.G169S	NM_001229	NP_001220	P55211	CASP9_HUMAN	caspase 9 isoform alpha preproprotein	252					activation of caspase activity by cytochrome c|induction of apoptosis by intracellular signals|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol	cysteine-type endopeptidase activity|enzyme activator activity|protein binding			central_nervous_system(1)|kidney(1)	2		Breast(348;0.000207)|all_lung(284;0.000211)|Colorectal(325;0.000259)|Lung NSC(340;0.000269)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;8.49e-07)|COAD - Colon adenocarcinoma(227;4.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00013)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00763)|READ - Rectum adenocarcinoma(331;0.0655)		CCATCTGTGCCGTAGACAGCC	0.537													11	91					0	0	1	0	0		T	15831220	T	T	15831220	3	4	78	1	0	0	0	0	1	0	0	0	2682	652	23	1	512	1	CASP9	1	15831220	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	12024059	15831220	233419401	3	49815											
SPEN	23013	broad.mit.edu	37	chr1	16262482	16262482	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacccccacccctgccccCgtccctgtccctgtccccct	2	7	4	28	1	0	0	0	0	0	0	3	0	3	0	11	0	1	0	11	0	0	0			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:16262482C>T	uc001axk.1	+	11	9951	c.9747C>T	c.(9745-9747)CCC>CCT	p.P3249P	SPEN_uc010obp.1_Silent_p.P3208P	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	3249	Pro-rich.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		cccctgcccccgtccctgtcc	0.408													31	14					0	0	1	0	0		T	16262482	T	T	16262482	2	4	78	1	0	0	0	0	0	0	0	1	15063	639	23	1		1	SPEN	1	16262482	Silent	SNP	C	TCGA-BR-8484-01A-11D-2394-08	431262	16262482	232988139	4	49816											
ERI3	79033	broad.mit.edu	37	chr1	44687311	44687311	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcaatgttcttgcagtcGtctaaaaaggagagaagaca	14	10	11	6	1	2	2	0	0	2	2	3	4	2	3	0	2	1	3	0	2	5	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:44687311G>A	uc001clt.2	-	9	1174	c.933C>T	c.(931-933)GAC>GAT	p.D311D	ERI3_uc010okv.1_Silent_p.D134D|ERI3_uc009vxg.2_Silent_p.D339D|ERI3_uc010okw.1_Silent_p.D233D|ERI3_uc001clu.2_Missense_Mutation_p.T200M	NM_024066	NP_076971	O43414	ERI3_HUMAN	prion protein interacting protein	311	Exonuclease.					intracellular	exonuclease activity|metal ion binding|nucleic acid binding			ovary(2)|large_intestine(1)	3						TCTTGCAGTCGTCTAAAAAGG	0.522													6	36					0	0	1	0	0		A	44687311	A	A	44687311	2	1	78	1	0	0	0	0	0	0	0	1	5237	1159	40	1		1	ERI3	1	44687311	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08	28424829	44687311	204563310	5	49817											
ELAVL4	1996	broad.mit.edu	37	chr1	50659546	50659546	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagcaacttttctcgcaatAcggccgtatcatcacctcac	10	10	7	14	3	4	0	3	0	1	0	5	1	4	1	2	2	3	3	2	2	4	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:50659546A>G	uc001csb.2	+	4	732	c.464A>G	c.(463-465)TAC>TGC	p.Y155C	ELAVL4_uc001cry.3_Missense_Mutation_p.Y158C|ELAVL4_uc001crz.3_Missense_Mutation_p.Y155C|ELAVL4_uc001csa.3_Missense_Mutation_p.Y172C|ELAVL4_uc001csc.3_Missense_Mutation_p.Y155C|ELAVL4_uc009vyu.2_Missense_Mutation_p.Y160C|ELAVL4_uc010omz.1_Missense_Mutation_p.Y160C	NM_021952	NP_068771	P26378	ELAV4_HUMAN	ELAV-like 4 isoform 1	155	RRM 2.				mRNA processing		AU-rich element binding|mRNA 3'-UTR binding|nucleotide binding			ovary(1)|pancreas(1)	2						TTCTCGCAATACGGCCGTATC	0.468													9	154					0	0	1	0	0		G	50659546	G	G	50659546	3	3	78	1	0	0	0	0	1	0	0	0	5060	391	14	3	577	3	ELAVL4	1	50659546	Missense_Mutation	SNP	A	TCGA-BR-8484-01A-11D-2394-08	5972235	50659546	198591075	6	49818											
LPHN2	23266	broad.mit.edu	37	chr1	82456476	82456476	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaccaaccccagaagaaaGtgaagtccgagggaactgac	15	5	11	10	1	0	4	0	2	0	2	1	6	1	5	4	1	3	1	4	1	6	1			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:82456476G>C	uc001dit.3	+	21	4040	c.3859G>C	c.(3859-3861)GTG>CTG	p.V1287L	LPHN2_uc001dis.2_Missense_Mutation_p.V267L|LPHN2_uc001diu.2_Missense_Mutation_p.V1287L|LPHN2_uc001div.2_3'UTR|LPHN2_uc009wcd.2_3'UTR|LPHN2_uc001diw.2_Missense_Mutation_p.V914L	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	1343	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		CCAGAAGAAAGTGAAGTCCGA	0.532													11	103					0	0	1	0	0		C	82456476	C	C	82456476	3	2	78	1	0	0	0	0	1	0	0	0	8934	1029	36	5	3933	5	LPHN2	1	82456476	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	31796930	82456476	166794145	7	49819											
NBPF9	400818	broad.mit.edu	37	chr1	144617251	144617251	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagcaagctgaggagctcAggtgaggggaacccgtaggg	11	5	17	8	1	2	2	2	2	0	0	2	4	2	4	1	5	4	4	1	5	4	1	rs12057989	by1000genomes	TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:144617251A>G	uc009wig.1	+	5	353	c.277A>G	c.(277-279)AGG>GGG	p.R93G	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Intron|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Missense_Mutation_p.R24G|NBPF9_uc001eli.3_Intron|NBPF9_uc010oyf.1_Missense_Mutation_p.R24G|NBPF9_uc010oyg.1_Intron|NBPF9_uc009wii.1_Intron	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	93	Potential.					cytoplasm					0						TGAGGAGCTCAGGTGAGGGGA	0.542													14	248					0	0	1	0	0		G	144617251	G	G	144617251	3	3	78	1	0	0	0	0	1	0	0	0	10218	202	7	3	281	3	NBPF9	1	144617251	Missense_Mutation	SNP	A	TCGA-BR-8484-01A-11D-2394-08	62160775	144617251	104633370	8	49820											
LCE2A	353139	broad.mit.edu	37	chr1	152671675	152671675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggctctggctgctgcCacagctctggggactgctgc	3	9	16	13	0	2	0	0	0	2	0	2	1	2	1	1	5	5	5	1	5	0	0			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:152671675C>T	uc001faj.2	+	2	349	c.298C>T	c.(298-300)CAC>TAC	p.H100Y		NM_178428	NP_848515	Q5TA79	LCE2A_HUMAN	late cornified envelope 2A	100	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGGCTGCTGCCACAGCTCTGG	0.602													14	112					0	0	1	0	0		T	152671675	T	T	152671675	3	4	78	1	0	0	0	0	1	0	0	0	8681	594	21	4	300	4	LCE2A	1	152671675	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	8054424	152671675	96578946	9	49821											
FCRL3	115352	broad.mit.edu	37	chr1	157668421	157668421	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagcttttggggccaccccTaaacaggaaatagaaagatg	15	7	10	9	0	0	2	0	0	0	2	0	3	0	3	3	3	2	1	3	3	5	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:157668421T>G	uc001frb.2	-	4	345	c.53_splice	c.e4-1	p.G18_splice	FCRL3_uc001fqx.3_Splice_Site|FCRL3_uc001fqy.3_Splice_Site|FCRL3_uc001fqz.3_Splice_Site_p.G18_splice|FCRL3_uc009wsn.2_Splice_Site|FCRL3_uc009wso.2_Splice_Site|FCRL3_uc001fra.2_5'Flank|FCRL3_uc001frc.1_Splice_Site_p.G18_splice	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor							integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					GGGCCACCCCTAAACAGGAAA	0.502													5	58					0	0	1	0	0		G	157668421	G	G	157668421	5	3	78	1	0	0	0	0	0	0	1	0	5810	1536	53	5	2201	5	FCRL3	1	157668421	Splice_Site	SNP	T	TCGA-BR-8484-01A-11D-2394-08	4996746	157668421	91582200	10	49822											
OR10X1	128367	broad.mit.edu	37	chr1	158549445	158549445	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggtctcagagaaggagAgtgcactaaggaagagatac	16	5	14	6	0	1	3	1	0	1	3	2	7	1	4	0	3	3	2	0	3	4	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:158549445A>G	uc010pin.1	-	1	245	c.245T>C	c.(244-246)CTC>CCC	p.L82P		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	82	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AGAGAAGGAGAGTGCACTAAG	0.498													16	70					0	0	1	0	0		G	158549445	G	G	158549445	3	3	78	1	0	0	0	0	1	0	0	0	10941	304	11	3	730	3	OR10X1	1	158549445	Missense_Mutation	SNP	A	TCGA-BR-8484-01A-11D-2394-08	881024	158549445	90701176	11	49823											
OR6N2	81442	broad.mit.edu	37	chr1	158746982	158746982	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaggaagccacaagtccaAcaagcagcagccatcttggc	14	4	9	14	0	1	0	0	0	1	0	2	1	2	1	3	2	5	2	3	2	4	1			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:158746982A>T	uc010pir.1	-	1	444	c.444T>A	c.(442-444)TGT>TGA	p.C148*		NM_001005278	NP_001005278	Q8NGY6	OR6N2_HUMAN	olfactory receptor, family 6, subfamily N,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_hematologic(112;0.0378)					CACAAGTCCAACAAGCAGCAG	0.483													9	79					0	0	1	0	0		T	158746982	T	T	158746982	4	4	78	1	0	0	0	0	0	1	0	0	11226	41	2	5	512	5	OR6N2	1	158746982	Nonsense_Mutation	SNP	A	TCGA-BR-8484-01A-11D-2394-08	197537	158746982	90503639	12	49824											
ATP1A4	480	broad.mit.edu	37	chr1	160136459	160136459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaaccgcatgaccgtcGcccacatgtggtttgatatg	9	9	10	13	3	0	3	0	2	0	1	1	3	0	3	4	1	1	2	4	1	2	2	rs147875149	byFrequency	TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:160136459G>A	uc001fve.3	+	8	1668	c.1189G>A	c.(1189-1191)GCC>ACC	p.A397T	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_5'UTR	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	397	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CATGACCGTCGCCCACATGTG	0.577													24	94					0	0	1	0	0		A	160136459	A	A	160136459	3	1	78	1	0	0	0	0	1	0	0	0	1132	1087	38	1	1219	1	ATP1A4	1	160136459	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	1389477	160136459	89114162	13	49825											
TNR	7143	broad.mit.edu	37	chr1	175334354	175334354	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggggagatggatcactccaAgtgatgttcacactggagga	11	8	15	7	0	2	2	2	1	0	1	3	6	3	5	1	5	0	1	1	5	1	1			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:175334354A>G	uc001gkp.1	-	10	2460	c.2379T>C	c.(2377-2379)ACT>ACC	p.T793T	TNR_uc009wwu.1_Silent_p.T793T	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	793	Fibronectin type-III 6.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GATCACTCCAAGTGATGTTCA	0.517													5	56					0	0	1	0	0		G	175334354	G	G	175334354	2	3	78	1	0	0	0	0	0	0	0	1	16363	59	3	3		3	TNR	1	175334354	Silent	SNP	A	TCGA-BR-8484-01A-11D-2394-08	15197895	175334354	73916267	14	49826											
LAMC1	3915	broad.mit.edu	37	chr1	183099510	183099510	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatttgatggatcgcctacaGagagtgaataacactctgtc	13	11	9	8	1	1	3	0	2	1	1	3	5	1	4	1	1	2	0	1	1	4	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:183099510G>A	uc001gpy.3	+	19	3569	c.3312G>A	c.(3310-3312)CAG>CAA	p.Q1104Q		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	1104	Potential.|Domain II and I.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATCGCCTACAGAGAGTGAATA	0.413													15	81					0	0	1	0	0		A	183099510	A	A	183099510	2	1	78	1	0	0	0	0	0	0	0	1	8630	933	33	4		4	LAMC1	1	183099510	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08	7765156	183099510	66151111	15	49827											
FAM5C	339479	broad.mit.edu	37	chr1	190067640	190067640	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttataacactgcaggggTaggtccaacttagtccgctc	10	10	10	11	1	0	0	0	0	0	0	3	0	2	0	2	3	3	4	2	3	5	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:190067640T>C	uc001gse.1	-	8	2041	c.1809A>G	c.(1807-1809)CTA>CTG	p.L603L	FAM5C_uc010pot.1_Silent_p.L501L	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	603						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					ACTGCAGGGGTAGGTCCAACT	0.463													29	294					0	0	1	0	0		C	190067640	C	C	190067640	2	2	78	1	0	0	0	0	0	0	0	1	5608	1625	57	3		3	FAM5C	1	190067640	Silent	SNP	T	TCGA-BR-8484-01A-11D-2394-08	6968130	190067640	59182981	16	49828											
ZP4	57829	broad.mit.edu	37	chr1	238053765	238053765	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtcatcaaacttaccccaAgctattagtacaggaggaga	16	8	8	9	0	2	1	2	0	0	1	2	3	2	2	2	2	4	2	2	2	7	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr1:238053765A>T	uc001hym.2	-	1	171	c.171T>A	c.(169-171)GCT>GCA	p.A57A	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	57	Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			ACTTACCCCAAGCTATTAGTA	0.478													5	53					0	0	1	0	0		T	238053765	T	T	238053765	2	4	78	1	0	0	0	0	0	0	0	1	18243	59	3	5		5	ZP4	1	238053765	Silent	SNP	A	TCGA-BR-8484-01A-11D-2394-08	47986125	238053765	11196856	17	49829											
POLR1A	25885	broad.mit.edu	37	chr2	86315780	86315780	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgttcctttcggacaacGgatcgcccggtcctgtgcag	5	12	12	12	4	0	0	0	0	0	0	4	2	2	2	3	3	2	2	3	3	1	3	rs117639882	by1000genomes	TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr2:86315780G>A	uc002sqs.2	-	6	1018	c.639C>T	c.(637-639)TCC>TCT	p.S213S	POLR1A_uc002sqv.2_Silent_p.S213S	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	213					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						TTCGGACAACGGATCGCCCGG	0.512													5	62					0	0	1	0	0		A	86315780	A	A	86315780	2	1	78	1	0	0	0	0	0	0	0	1	12228	1103	39	1		1	POLR1A	2	86315780	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08		86315780	156883593	18	49830											
PTCD3	55037	broad.mit.edu	37	chr2	86364655	86364655	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgacagcagcagtgacagCgacagtgacaccagtgaagg	14	4	13	10	1	0	4	0	4	0	0	0	5	0	4	1	1	3	2	1	1	1	0			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr2:86364655C>T	uc002sqw.2	+	24	2109	c.2043C>T	c.(2041-2043)AGC>AGT	p.S681S	PTCD3_uc002sqx.1_Silent_p.S271S	NM_017952	NP_060422	Q96EY7	PTCD3_HUMAN	pentatricopeptide repeat domain 3 precursor	681						mitochondrion	protein binding			ovary(1)	1						GCAGTGACAGCGACAGTGACA	0.453													5	59					0	0	1	0	0		T	86364655	T	T	86364655	2	4	78	1	0	0	0	0	0	0	0	1	12751	767	27	1		1	PTCD3	2	86364655	Silent	SNP	C	TCGA-BR-8484-01A-11D-2394-08	48875	86364655	156834718	19	49831											
LOC150786	150786	broad.mit.edu	37	chr2	132120854	132120854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caataaacgtaacattcagcCctttggctttcctctctccc	9	13	4	15	1	2	0	1	0	1	0	5	0	4	0	3	1	3	2	3	1	4	5			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr2:132120854C>T	uc002tsr.2	-	1	878	c.440G>A	c.(439-441)GGG>GAG	p.G147E		NM_001077637	NP_001071105	Q53S08	Q53S08_HUMAN	RAB6C-like	147					protein transport|small GTPase mediated signal transduction		GTP binding				0				BRCA - Breast invasive adenocarcinoma(221;0.078)		AACATTCAGCCCTTTGGCTTT	0.448													13	177					0	0	1	0	0		T	132120854	T	T	132120854	3	4	78	1	0	0	0	0	1	0	0	0	8887	623	22	4	328	4	LOC150786	2	132120854	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	45756199	132120854	111078519	20	49832											
ACVR2A	92	broad.mit.edu	37	chr2	148602741	148602741	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggagctgctgcaaagtTggcgtttgccgtctttctta	7	14	12	8	2	2	0	0	0	2	0	2	1	2	1	1	2	4	5	1	2	3	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr2:148602741T>A	uc002twg.2	+	2	289	c.20T>A	c.(19-21)TTG>TAG	p.L7*	ACVR2A_uc010zbn.1_Intron|ACVR2A_uc002twh.2_Nonsense_Mutation_p.L7*	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	7					activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		GCTGCAAAGTTGGCGTTTGCC	0.637													23	44					0	0	1	0	0		A	148602741	A	A	148602741	4	1	78	1	0	0	0	0	0	1	0	0	223	1821	63	5	22	5	ACVR2A	2	148602741	Nonsense_Mutation	SNP	T	TCGA-BR-8484-01A-11D-2394-08	16481887	148602741	94596632	21	49833											
MAP2	4133	broad.mit.edu	37	chr2	210560980	210560980	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaagaggttgcactttcTgaatataagacagaaaccta	17	9	9	6	0	1	5	0	1	1	4	1	6	1	5	1	1	2	2	1	1	6	5			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr2:210560980T>C	uc002vde.1	+	7	4334	c.4086T>C	c.(4084-4086)TCT>TCC	p.S1362S	MAP2_uc002vdc.1_Silent_p.S1362S|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.S1358S	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1362					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	TTGCACTTTCTGAATATAAGA	0.502													7	106					0	0	1	0	0		C	210560980	C	C	210560980	2	2	78	1	0	0	0	0	0	0	0	1	9253	1567	55	3		3	MAP2	2	210560980	Silent	SNP	T	TCGA-BR-8484-01A-11D-2394-08	61958239	210560980	32638393	22	49834											
WNT10A	80326	broad.mit.edu	37	chr2	219746932	219746932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctccccccggagcccgtgCtcaatgccaacacagtgtgc	7	6	10	18	2	1	0	1	0	0	0	2	1	2	1	6	1	5	1	6	1	2	0			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr2:219746932C>T	uc002vjd.1	+	2	626	c.163C>T	c.(163-165)CTC>TTC	p.L55F		NM_025216	NP_079492	Q9GZT5	WN10A_HUMAN	wingless-type MMTV integration site family,	55					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to transforming growth factor beta stimulus|female gonad development|hair follicle morphogenesis|odontogenesis|regulation of odontogenesis of dentine-containing tooth|sebaceous gland development|skin development|tongue development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			lung(1)|skin(1)	2		Renal(207;0.0474)		Epithelial(149;4.26e-07)|all cancers(144;8.8e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGAGCCCGTGCTCAATGCCAA	0.617													14	41					0	0	1	0	0		T	219746932	T	T	219746932	3	4	78	1	0	0	0	0	1	0	0	0	17408	797	28	2	169	2	WNT10A	2	219746932	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	9185952	219746932	23452441	23	49835											
ZNF860	344787	broad.mit.edu	37	chr3	32031024	32031024	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catcctggaaacaagcctatCaaagatcagcttggattaag	15	9	8	9	0	2	1	2	0	0	1	3	3	3	3	2	2	3	1	2	2	5	3	rs4449357	by1000genomes	TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr3:32031024C>T	uc011axg.1	+	2	1002	c.453C>T	c.(451-453)ATC>ATT	p.I151I		NM_001137674	NP_001131146	A6NHJ4	ZN860_HUMAN	zinc finger protein 860	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ACAAGCCTATCAAAGATCAGC	0.398													6	95					0	0	1	0	0		T	32031024	T	T	32031024	2	4	78	1	0	0	0	0	0	0	0	1	18219	816	29	4		4	ZNF860	3	32031024	Silent	SNP	C	TCGA-BR-8484-01A-11D-2394-08		32031024	165991406	24	49836											
GPR149	344758	broad.mit.edu	37	chr3	154146457	154146457	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaaggacgacttttgtaagCgctaggatcaaagcgaagcg	14	7	12	8	4	1	0	1	0	0	0	1	4	1	2	0	2	3	2	0	2	5	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr3:154146457C>T	uc003faa.2	-	1	1048	c.948G>A	c.(946-948)GCG>GCA	p.A316A		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	316	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			CTTTTGTAAGCGCTAGGATCA	0.562													21	220					0	0	1	0	0		T	154146457	T	T	154146457	2	4	78	1	0	0	0	0	0	0	0	1	6669	755	27	1		1	GPR149	3	154146457	Silent	SNP	C	TCGA-BR-8484-01A-11D-2394-08	122115433	154146457	43875973	25	49837											
FXR1	8087	broad.mit.edu	37	chr3	180666236	180666236	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataaaactgtcaaaaaaaaTaccttctttaaatgcacagt	20	11	3	7	0	2	0	1	0	1	0	2	0	2	0	1	0	3	1	1	0	10	5			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr3:180666236T>A	uc003fkq.2	+	5	394	c.372T>A	c.(370-372)AAT>AAA	p.N124K	FXR1_uc003fkp.2_Missense_Mutation_p.N39K|FXR1_uc003fkr.2_Missense_Mutation_p.N124K|FXR1_uc011bqj.1_Missense_Mutation_p.N38K|FXR1_uc003fks.2_Missense_Mutation_p.N38K|FXR1_uc011bqk.1_Missense_Mutation_p.N75K|FXR1_uc011bql.1_Missense_Mutation_p.N111K	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	124					apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			TCAAAAAAAATACCTTCTTTA	0.328													5	65					0	0	1	0	0		A	180666236	A	A	180666236	3	1	78	1	0	0	0	0	1	0	0	0	6129	1403	49	5	390	5	FXR1	3	180666236	Missense_Mutation	SNP	T	TCGA-BR-8484-01A-11D-2394-08	26519779	180666236	17356194	26	49838											
BST1	683	broad.mit.edu	37	chr4	15733454	15733454	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttctggtgctggcttccAggactcaactgtaactggaa	8	13	10	10	0	3	0	1	0	2	0	4	2	4	2	1	4	3	3	1	4	3	3	rs1058212	byFrequency	TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr4:15733454A>C	uc003goh.3	+	9	1138	c.943A>C	c.(943-945)AGG>CGG	p.R315R	BST1_uc003goi.2_Intron	NM_004334	NP_004325	Q10588	BST1_HUMAN	bone marrow stromal cell antigen 1 precursor	315					humoral immune response|multicellular organismal development	anchored to membrane|extrinsic to membrane|plasma membrane	binding|NAD+ nucleosidase activity	p.R315R(1)		central_nervous_system(1)	1						GCTGGCTTCCAGGACTCAACT	0.493													3	24					0	0	1	0	0		C	15733454	C	C	15733454	2	2	78	1	0	0	0	0	0	0	0	1	1536	179	7	5		5	BST1	4	15733454	Silent	SNP	A	TCGA-BR-8484-01A-11D-2394-08		15733454	175420822	27	49839											
CWH43	80157	broad.mit.edu	37	chr4	49032878	49032878	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aattttggagagtgatgcttCtaagccctatatggggaaca	12	12	11	6	0	1	2	0	1	1	1	1	4	1	3	1	3	3	1	1	3	5	6			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr4:49032878C>G	uc003gyv.2	+	11	1591	c.1409C>G	c.(1408-1410)TCT>TGT	p.S470C	CWH43_uc011bzl.1_Missense_Mutation_p.S443C	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	470					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						AGTGATGCTTCTAAGCCCTAT	0.403													28	92					0	0	1	0	0		G	49032878	G	G	49032878	3	3	78	1	0	0	0	0	1	0	0	0	4076	913	32	5	1451	5	CWH43	4	49032878	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	33299424	49032878	142121398	28	49840											
SCLT1	132320	broad.mit.edu	37	chr4	129867285	129867285	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttttctgtaatcactctcaTttcctctgccttcacggtaa	7	17	5	12	1	5	0	3	0	3	0	7	0	6	0	2	1	1	3	2	1	2	6			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr4:129867285T>C	uc003igp.2	-	16	1822	c.1316A>G	c.(1315-1317)AAT>AGT	p.N439S	SCLT1_uc003ign.2_Missense_Mutation_p.N103S|SCLT1_uc003igo.2_Missense_Mutation_p.N49S|SCLT1_uc003igq.2_Intron|SCLT1_uc010iob.1_Intron	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	439	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						ATCACTCTCATTTCCTCTGCC	0.353													5	33					0	0	1	0	0		C	129867285	C	C	129867285	3	2	78	1	0	0	0	0	1	0	0	0	13931	1493	52	3	774	3	SCLT1	4	129867285	Missense_Mutation	SNP	T	TCGA-BR-8484-01A-11D-2394-08	80834407	129867285	61286991	29	49841											
USP38	84640	broad.mit.edu	37	chr4	144106972	144106972	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtccgtcggtgctggatctCtttagcctcctgcaggtaga	5	13	12	11	2	1	1	0	0	1	1	5	2	3	2	3	3	3	3	3	3	2	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr4:144106972C>T	uc003ijb.2	+	1	903	c.369C>T	c.(367-369)CTC>CTT	p.L123L	USP38_uc003ija.3_Silent_p.L123L|USP38_uc003ijc.2_RNA	NM_032557	NP_115946	Q8NB14	UBP38_HUMAN	ubiquitin specific peptidase 38	123					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_hematologic(180;0.158)					TGCTGGATCTCTTTAGCCTCC	0.557													11	63					0	0	1	0	0		T	144106972	T	T	144106972	2	4	78	1	0	0	0	0	0	0	0	1	17095	900	32	4		4	USP38	4	144106972	Silent	SNP	C	TCGA-BR-8484-01A-11D-2394-08	14239687	144106972	47047304	30	49842											
HTR1A	3350	broad.mit.edu	37	chr5	63256317	63256317	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacttaatgatcttcttaaaCgcgttttgaaagtccttgtt	10	17	6	8	2	2	2	0	2	2	0	3	2	3	2	1	0	1	2	1	0	4	7			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr5:63256317C>T	uc011cqt.1	-	1	1230	c.1230G>A	c.(1228-1230)GCG>GCA	p.A410A		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	410	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TCTTCTTAAACGCGTTTTGAA	0.512													16	272					0	0	1	0	0		T	63256317	T	T	63256317	2	4	78	1	0	0	0	0	0	0	0	1	7452	523	19	1		1	HTR1A	5	63256317	Silent	SNP	C	TCGA-BR-8484-01A-11D-2394-08		63256317	117658943	31	49843											
CYFIP2	26999	broad.mit.edu	37	chr5	156753275	156753275	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacgatgagatagaagctgaGgcaagtgatgtgcttctctt	11	12	12	6	1	1	4	0	3	1	2	2	6	1	4	0	1	3	3	0	1	4	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr5:156753275G>A	uc003lwq.2	+	20	2217	c.2079G>A	c.(2077-2079)GAG>GAA	p.E693E	CYFIP2_uc011ddn.1_Silent_p.E667E|CYFIP2_uc011ddo.1_Silent_p.E497E|CYFIP2_uc003lwr.2_Silent_p.E693E|CYFIP2_uc003lws.2_Silent_p.E693E|CYFIP2_uc003lwt.2_Silent_p.E596E|CYFIP2_uc011ddp.1_Silent_p.E427E	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	718					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TAGAAGCTGAGGCAAGTGATG	0.428													13	84					0	0	1	0	0		A	156753275	A	A	156753275	2	1	78	1	0	0	0	0	0	0	0	1	4141	1014	35	4		4	CYFIP2	5	156753275	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08	93496958	156753275	24161985	32	49844											
HK3	3101	broad.mit.edu	37	chr5	176308118	176308118	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggcaggcaacagcggtgaCcagggccgcacctttgccgg	7	4	16	14	4	0	1	0	1	0	0	0	1	0	1	4	5	3	3	4	5	1	1			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr5:176308118C>A	uc003mfa.2	-	19	2820	c.2728G>T	c.(2728-2730)GTC>TTC	p.V910F	HK3_uc003mez.2_Missense_Mutation_p.V466F	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	910	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACAGCGGTGACCAGGGCCGCA	0.677													6	23					8.12818e-05	8.25228e-05	1	1	0		A	176308118	A	A	176308118	3	1	78	1	0	0	0	0	1	0	0	0	7208	507	18	5	47	5	HK3	5	176308118	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	19554843	176308118	4607142	33	49845											
HIST1H3H	8357	broad.mit.edu	37	chr6	27778143	27778143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcgctgcaagaggcatgcGaggcctacctggtggggctc	6	7	17	11	2	0	1	0	0	0	1	1	2	0	1	2	6	3	4	2	6	2	1			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr6:27778143G>A	uc003njm.2	+	1	302	c.292G>A	c.(292-294)GAG>AAG	p.E98K	HIST1H2BL_uc003njl.2_5'Flank	NM_003536	NP_003527	P68431	H31_HUMAN	histone cluster 1, H3h	98					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1						AGAGGCATGCGAGGCCTACCT	0.602													11	54					0	0	1	0	0		A	27778143	A	A	27778143	3	1	78	1	0	0	0	0	1	0	0	0	7178	1059	37	1	294	1	HIST1H3H	6	27778143	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08		27778143	143336924	34	49846											
BAI3	577	broad.mit.edu	37	chr6	69943236	69943236	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaaactgtgcttaccgaTgcatcccatacgaaatgctt	12	12	7	10	2	0	0	0	0	0	0	1	2	1	0	2	0	6	4	2	0	5	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr6:69943236T>G	uc003pev.3	+	18	2983	c.2535T>G	c.(2533-2535)GAT>GAG	p.D845E	BAI3_uc010kak.2_Missense_Mutation_p.D845E|BAI3_uc011dxx.1_Missense_Mutation_p.D51E|BAI3_uc003pex.1_5'Flank	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	845	GPS.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TGCTTACCGATGCATCCCATA	0.483													50	139					0	0	1	0	0		G	69943236	G	G	69943236	3	3	78	1	0	0	0	0	1	0	0	0	1301	1461	51	5	2597	5	BAI3	6	69943236	Missense_Mutation	SNP	T	TCGA-BR-8484-01A-11D-2394-08	42165093	69943236	101171831	35	49847											
LAMA4	3910	broad.mit.edu	37	chr6	112528344	112528344	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttgtgttccgctggcaGtgctatgagacaaaagacaa	11	10	11	9	1	0	2	0	1	0	2	1	3	1	2	2	1	1	5	2	1	4	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr6:112528344G>A	uc003pvu.2	-	4	609	c.300C>T	c.(298-300)CAC>CAT	p.H100H	LAMA4_uc003pvv.2_Silent_p.H100H|LAMA4_uc003pvt.2_Silent_p.H100H	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	100	Laminin EGF-like 1.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		TCCGCTGGCAGTGCTATGAGA	0.463													6	67					0	0	1	0	0		A	112528344	A	A	112528344	2	1	78	1	0	0	0	0	0	0	0	1	8624	1020	36	4		4	LAMA4	6	112528344	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08	42585108	112528344	58586723	36	49848											
GPRC6A	222545	broad.mit.edu	37	chr6	117128249	117128249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccaatccagttccaacCagatttctgaatcaggtgag	12	10	9	10	0	2	3	1	2	1	1	4	4	4	3	4	1	2	1	4	1	3	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr6:117128249C>T	uc003pxj.1	-	3	641	c.619G>A	c.(619-621)GGT>AGT	p.G207S	GPRC6A_uc003pxk.1_Missense_Mutation_p.G207S|GPRC6A_uc003pxl.1_Missense_Mutation_p.G207S	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	207	Extracellular (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		CAGTTCCAACCAGATTTCTGA	0.408													9	214					0	0	1	0	0		T	117128249	T	T	117128249	3	4	78	1	0	0	0	0	1	0	0	0	6744	594	21	4	2177	4	GPRC6A	6	117128249	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	4599905	117128249	53986818	37	49849											
ROS1	6098	broad.mit.edu	37	chr6	117662377	117662377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgcaaactagtgttctctGgaaccaaggaataaggtttc	13	12	9	7	0	1	0	0	0	1	0	3	2	1	2	1	3	3	3	1	3	6	5			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr6:117662377G>A	uc003pxp.1	-	30	5199	c.5000C>T	c.(4999-5001)CCA>CTA	p.P1667L	ROS1_uc011ebi.1_Intron|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1667	Fibronectin type-III 8.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		AGTGTTCTCTGGAACCAAGGA	0.413			T	GOPC|ROS1	glioblastoma|NSCLC								6	89					0	0	1	0	0		A	117662377	A	A	117662377	3	1	78	1	0	0	0	0	1	0	0	0	13556	1348	47	4	2099	4	ROS1	6	117662377	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	534128	117662377	53452690	38	49850											
PCLO	27445	broad.mit.edu	37	chr7	82544523	82544523	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtgcccagtcctgtgccaAgagaagatcccataaatttt	12	11	8	10	0	0	2	0	0	0	2	2	3	2	2	4	0	2	0	4	0	4	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr7:82544523A>C	uc003uhx.2	-	7	13068	c.12779T>G	c.(12778-12780)CTT>CGT	p.L4260R	PCLO_uc003uhv.2_Missense_Mutation_p.L4260R|PCLO_uc010lec.2_Missense_Mutation_p.L1225R	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4191					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TCCTGTGCCAAGAGAAGATCC	0.428													3	20					0	0	1	0	0		C	82544523	C	C	82544523	3	2	78	1	0	0	0	0	1	0	0	0	11602	72	3	5	2742	5	PCLO	7	82544523	Missense_Mutation	SNP	A	TCGA-BR-8484-01A-11D-2394-08		82544523	76594140	39	49851											
AKAP9	10142	broad.mit.edu	37	chr7	91727029	91727029	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggaaccggctgtaatCatgaattagaaatgatcaga	16	8	12	5	1	2	4	2	2	0	2	2	7	2	6	1	3	1	2	1	3	5	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr7:91727029C>A	uc003ulg.2	+	42	10753	c.10528C>A	c.(10528-10530)CAT>AAT	p.H3510N	AKAP9_uc003ulf.2_Missense_Mutation_p.H3502N|AKAP9_uc003uli.2_Missense_Mutation_p.H3133N|AKAP9_uc003ulj.2_Missense_Mutation_p.H1280N|AKAP9_uc003ull.2_Missense_Mutation_p.H406N	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3514					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CGGCTGTAATCATGAATTAGA	0.378			T	BRAF	papillary thyroid								29	764					4.87955e-14	5.19185e-14	1	1	0		A	91727029	A	A	91727029	3	1	78	1	0	0	0	0	1	0	0	0	459	826	29	5	10694	5	AKAP9	7	91727029	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	9182506	91727029	67411634	40	49852											
SAMD9L	219285	broad.mit.edu	37	chr7	92760694	92760694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctacagagattagcttgcCttcagcctgaccagttagac	10	12	8	11	0	2	3	1	1	1	2	2	4	2	3	3	0	4	2	3	0	3	6			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr7:92760694C>T	uc003umh.1	-	5	5807	c.4591G>A	c.(4591-4593)GGC>AGC	p.G1531S	SAMD9L_uc003umj.1_Missense_Mutation_p.G1531S|SAMD9L_uc003umi.1_Missense_Mutation_p.G1531S|SAMD9L_uc010lfb.1_Missense_Mutation_p.G1531S|SAMD9L_uc003umk.1_Missense_Mutation_p.G1531S|SAMD9L_uc010lfc.1_Missense_Mutation_p.G1531S|SAMD9L_uc010lfd.1_Missense_Mutation_p.G1531S|SAMD9L_uc011khx.1_3'UTR	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1531										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			ATTAGCTTGCCTTCAGCCTGA	0.398													21	521					0	0	1	0	0		T	92760694	T	T	92760694	3	4	78	1	0	0	0	0	1	0	0	0	13852	681	24	4	167	4	SAMD9L	7	92760694	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	1033665	92760694	66377969	41	49853											
STAG3	10734	broad.mit.edu	37	chr7	99808776	99808776	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggttgaaagagatggaggaAgaagatggctcagagttgga	14	7	18	2	0	1	5	1	1	0	4	1	9	1	8	0	5	0	3	0	5	3	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr7:99808776A>G	uc003utx.1	+	30	3536	c.3381A>G	c.(3379-3381)GAA>GAG	p.E1127E	STAG3_uc011kjk.1_Silent_p.E1069E|GATS_uc003uty.3_Intron|GATS_uc003utz.3_Intron|GATS_uc003uua.3_Intron|GATS_uc010lgt.2_Intron|STAG3_uc003uub.1_Silent_p.E351E	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	1127					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AGATGGAGGAAGAAGATGGCT	0.577													9	62					0	0	1	0	0		G	99808776	G	G	99808776	2	3	78	1	0	0	0	0	0	0	0	1	15269	69	3	3		3	STAG3	7	99808776	Silent	SNP	A	TCGA-BR-8484-01A-11D-2394-08	7048082	99808776	59329887	42	49854											
CFTR	1080	broad.mit.edu	37	chr7	117232021	117232021	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgatggctaacaaaactagGattttggtcacttctaaaat	14	13	7	7	0	2	1	1	1	1	0	2	2	2	2	0	3	2	1	0	3	6	6			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr7:117232021G>A	uc003vjd.2	+	14	1932	c.1800G>A	c.(1798-1800)AGG>AGA	p.R600R	CFTR_uc011knq.1_Silent_p.R6R	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	600	Cytoplasmic (Potential).|ABC transporter 1.				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	ACAAAACTAGGATTTTGGTCA	0.279									Cystic_Fibrosis				8	86					0	0	1	0	0		A	117232021	A	A	117232021	2	1	78	1	0	0	0	0	0	0	0	1	3297	1165	41	4		4	CFTR	7	117232021	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08	17423245	117232021	41906642	43	49855											
KCND2	3751	broad.mit.edu	37	chr7	120373007	120373007	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaagatttttggttctaTctgttcgctgagtggggtct	6	16	14	5	1	3	2	0	1	3	1	4	3	3	3	0	4	0	3	0	4	2	5			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr7:120373007T>C	uc003vjj.1	+	2	2131	c.1166T>C	c.(1165-1167)ATC>ACC	p.I389T		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	389	Helical; Name=Segment S6; (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TTTGGTTCTATCTGTTCGCTG	0.408													11	70					0	0	1	0	0		C	120373007	C	C	120373007	3	2	78	1	0	0	0	0	1	0	0	0	8035	1435	50	3	1172	3	KCND2	7	120373007	Missense_Mutation	SNP	T	TCGA-BR-8484-01A-11D-2394-08	3140986	120373007	38765656	44	49856											
CHRM2	1129	broad.mit.edu	37	chr7	136699939	136699939	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactatgtggtcagcaatgcCtcagttatgaatctgctcat	10	13	9	9	0	4	1	3	1	1	0	4	2	4	1	1	1	3	3	1	1	4	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr7:136699939C>G	uc003vtf.1	+	4	950	c.327C>G	c.(325-327)GCC>GCG	p.A109A	CHRM2_uc003vtg.1_Silent_p.A109A|CHRM2_uc003vtj.1_Silent_p.A109A|CHRM2_uc003vtk.1_Silent_p.A109A|CHRM2_uc003vtl.1_Silent_p.A109A|CHRM2_uc003vtm.1_Silent_p.A109A|CHRM2_uc003vti.1_Silent_p.A109A|CHRM2_uc003vto.1_Silent_p.A109A|CHRM2_uc003vtn.1_Silent_p.A109A|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	109	Helical; Name=3; (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	TCAGCAATGCCTCAGTTATGA	0.488													22	134					0	0	1	0	0		G	136699939	G	G	136699939	2	3	78	1	0	0	0	0	0	0	0	1	3380	668	24	5		5	CHRM2	7	136699939	Silent	SNP	C	TCGA-BR-8484-01A-11D-2394-08	16326932	136699939	22438724	45	49857											
KCNH2	3757	broad.mit.edu	37	chr7	150654535	150654535	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaatggtgcggtagcgcacGaggtcggagtccgaggtgga	8	7	18	8	5	0	0	0	0	0	0	2	4	1	2	1	6	2	2	1	6	2	2	rs146297032		TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr7:150654535G>A	uc003wic.2	-	5	985	c.972C>T	c.(970-972)CTC>CTT	p.L324L	KCNH2_uc003wib.2_5'Flank|KCNH2_uc011kux.1_Silent_p.L228L|KCNH2_uc003wid.2_5'Flank|KCNH2_uc003wie.2_Silent_p.L324L	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	324	Cytoplasmic (Potential).				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	GGTAGCGCACGAGGTCGGAGT	0.632													6	25					0	0	1	0	0		A	150654535	A	A	150654535	2	1	78	1	0	0	0	0	0	0	0	1	8048	1045	37	1		1	KCNH2	7	150654535	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08	13954596	150654535	8484128	46	49858											
SHH	6469	broad.mit.edu	37	chr7	155599103	155599103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcggtcgcggtcagacGtggtgatgtccactgcgcgg	4	9	17	11	6	1	2	1	1	0	1	3	2	2	2	1	4	3	1	1	4	0	0			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr7:155599103G>A	uc003wmk.1	-	2	600	c.449C>T	c.(448-450)ACG>ATG	p.T150M	SHH_uc003wmh.1_RNA|SHH_uc003wmi.1_Missense_Mutation_p.T63M|SHH_uc003wmj.1_Missense_Mutation_p.T63M	NM_000193	NP_000184	Q15465	SHH_HUMAN	sonic hedgehog preproprotein	150			T -> R (in HPE3).|T -> K (in HPE3).		androgen metabolic process|axon guidance|branching involved in ureteric bud morphogenesis|CD4-positive or CD8-positive, alpha-beta T cell lineage commitment|embryonic digit morphogenesis|hindbrain development|intein-mediated protein splicing|lymphoid progenitor cell differentiation|metanephric mesenchymal cell proliferation involved in metanephros development|midbrain development|negative regulation of cell migration|negative regulation of kidney smooth muscle cell differentiation|negative regulation of ureter smooth muscle cell differentiation|negative thymic T cell selection|neural crest cell migration|neuroblast proliferation|patterning of blood vessels|positive regulation of alpha-beta T cell differentiation|positive regulation of immature T cell proliferation in thymus|positive regulation of kidney smooth muscle cell differentiation|positive regulation of mesenchymal cell proliferation involved in ureter development|positive regulation of T cell differentiation in thymus|positive regulation of ureter smooth muscle cell differentiation|positive thymic T cell selection|proteolysis|sclerotome development|stem cell development|thymus development|vasculogenesis|ventral midline development	cell surface|extracellular space|membrane raft|plasma membrane	calcium ion binding|laminin-1 binding|peptidase activity|signal transducer activity|zinc ion binding			central_nervous_system(3)|lung(1)	4	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00882)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCGGTCAGACGTGGTGATGTC	0.642													15	59					0	0	1	0	0		A	155599103	A	A	155599103	3	1	78	1	0	0	0	0	1	0	0	0	14304	1145	40	1	947	1	SHH	7	155599103	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	4944568	155599103	3539560	47	49859											
RHOBTB2	23221	broad.mit.edu	37	chr8	22868070	22868070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggtgtttccctacacaaGcaagagctgcatgcgggccg	8	8	14	11	2	0	1	0	0	0	1	1	1	1	1	2	3	5	4	2	3	3	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr8:22868070G>A	uc003xcq.2	+	7	2177	c.1640G>A	c.(1639-1641)AGC>AAC	p.S547N	RHOBTB2_uc003xcp.2_Missense_Mutation_p.S569N|RHOBTB2_uc011kzp.1_Missense_Mutation_p.S554N|uc003xcr.2_Intron	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	547	BTB 2.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		CCCTACACAAGCAAGAGCTGC	0.542													8	128					0	0	1	0	0		A	22868070	A	A	22868070	3	1	78	1	0	0	0	0	1	0	0	0	13359	971	34	2	1747	2	RHOBTB2	8	22868070	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08		22868070	123495952	48	49860											
XKR4	114786	broad.mit.edu	37	chr8	56270253	56270253	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctagatatttccacacaatAtacttaggtattcgaagccg	13	13	6	9	2	1	1	0	0	1	1	3	2	2	1	2	1	2	1	2	1	8	8			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr8:56270253A>T	uc003xsf.2	+	2	854	c.822A>T	c.(820-822)ATA>ATT	p.I274I		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	274						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			TCCACACAATATACTTAGGTA	0.388													10	61					0	0	1	0	0		T	56270253	T	T	56270253	2	4	78	1	0	0	0	0	0	0	0	1	17459	439	16	5		5	XKR4	8	56270253	Silent	SNP	A	TCGA-BR-8484-01A-11D-2394-08	33402183	56270253	90093769	49	49861											
FBXO43	286151	broad.mit.edu	37	chr8	101149837	101149837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatataaaatttcctcctccGatttgcatttttatcttgaa	11	18	4	8	1	1	1	0	1	1	0	4	3	4	1	3	0	1	1	3	0	5	8			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr8:101149837G>A	uc003yjd.2	-	3	2343	c.1630C>T	c.(1630-1632)CGG>TGG	p.R544W	FBXO43_uc003yje.2_Missense_Mutation_p.R510W|FBXO43_uc010mbp.1_Missense_Mutation_p.R544W	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	544	F-box.				meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			TTCCTCCTCCGATTTGCATTT	0.289													11	30					0	0	1	0	0		A	101149837	A	A	101149837	3	1	78	1	0	0	0	0	1	0	0	0	5766	1057	37	1	508	1	FBXO43	8	101149837	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	44879584	101149837	45214185	50	49862											
SMARCA2	6595	broad.mit.edu	37	chr9	2123850	2123850	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaggctcacctgtgaagaAgaggaggagaaaatatttgg	16	7	14	4	0	1	4	1	1	0	3	1	7	1	5	1	4	0	1	1	4	6	2	rs141291951		TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr9:2123850A>G	uc003zhc.2	+	27	3993	c.3894A>G	c.(3892-3894)GAA>GAG	p.E1298E	SMARCA2_uc003zhd.2_Silent_p.E1298E|SMARCA2_uc010mha.2_Silent_p.E1231E	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1298	Poly-Glu.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		CCTGTGAAGAAGAGGAGGAGA	0.562													4	9					0	0	1	0	0		G	2123850	G	G	2123850	2	3	78	1	0	0	0	0	0	0	0	1	14794	69	3	3		3	SMARCA2	9	2123850	Silent	SNP	A	TCGA-BR-8484-01A-11D-2394-08		2123850	139089581	51	49863											
IFNA10	3446	broad.mit.edu	37	chr9	21206570	21206570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgcaagtttgttgaaaacGagagggatctcatgatttct	11	15	10	5	1	2	3	1	2	2	1	3	5	2	4	0	1	2	3	0	1	3	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr9:21206570G>A	uc003zoq.1	-	1	573	c.527C>T	c.(526-528)TCG>TTG	p.S176L	IFNA14_uc003zoo.1_Intron	NM_002171	NP_002162	P01566	IFN10_HUMAN	interferon, alpha 10 precursor	176					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.17)		TGTTGAAAACGAGAGGGATCT	0.388													129	229					0	0	1	0	0		A	21206570	A	A	21206570	3	1	78	1	0	0	0	0	1	0	0	0	7548	1059	37	1	46	1	IFNA10	9	21206570	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	19082720	21206570	120006861	52	49864											
KIF24	347240	broad.mit.edu	37	chr9	34257621	34257621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caatggtgctgactcttctgGcttttttttggccacatgtc	5	17	9	10	0	2	1	0	1	2	0	3	1	2	1	1	3	1	2	1	3	1	5			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr9:34257621G>A	uc003zua.3	-	11	2104	c.1984C>T	c.(1984-1986)CCA>TCA	p.P662S	KIF24_uc010mkb.2_Intron	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	662					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			GACTCTTCTGGCTTTTTTTTG	0.522													12	74					0	0	1	0	0		A	34257621	A	A	34257621	3	1	78	1	0	0	0	0	1	0	0	0	8308	1203	42	2	2134	2	KIF24	9	34257621	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	13051051	34257621	106955810	53	49865											
SHC3	53358	broad.mit.edu	37	chr9	91657058	91657058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttctcccgtgggggccaCgtgcagtttcccttctggcg	2	12	13	14	3	2	0	0	0	2	0	4	0	3	0	3	3	2	3	3	3	0	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr9:91657058C>T	uc004aqg.2	-	10	1550	c.1243G>A	c.(1243-1245)GTG>ATG	p.V415M		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	415	CH1.				central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						GTGGGGGCCACGTGCAGTTTC	0.582													39	59					0	0	1	0	0		T	91657058	T	T	91657058	3	4	78	1	0	0	0	0	1	0	0	0	14297	536	19	1	553	1	SHC3	9	91657058	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	57399437	91657058	49556373	54	49866											
GABBR2	9568	broad.mit.edu	37	chr9	101065617	101065617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactggtgaccgaggtggacGttttagaatcttctttcttc	7	15	10	9	2	3	2	0	1	3	1	4	4	3	3	1	3	0	1	1	3	2	5	rs138346207	by1000genomes	TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr9:101065617G>A	uc004ays.2	-	16	2474	c.2318C>T	c.(2317-2319)ACG>ATG	p.T773M		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	773	Cytoplasmic (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	CGAGGTGGACGTTTTAGAATC	0.507													4	60					0	0	1	0	0		A	101065617	A	A	101065617	3	1	78	1	0	0	0	0	1	0	0	0	6170	1145	40	1	523	1	GABBR2	9	101065617	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	9408559	101065617	40147814	55	49867											
LAMC3	10319	broad.mit.edu	37	chr9	133932371	133932371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggccagggctttccccGccagcctcctgggtggagat	4	7	14	16	2	0	1	0	0	0	1	2	2	2	1	7	4	1	1	7	4	0	1			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr9:133932371G>A	uc004caa.1	+	12	2093	c.1995G>A	c.(1993-1995)CCG>CCA	p.P665P		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	665	Laminin IV type A.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		GGCTTTCCCCGCCAGCCTCCT	0.617													18	88					0	0	1	0	0		A	133932371	A	A	133932371	2	1	78	1	0	0	0	0	0	0	0	1	8632	1074	38	1		1	LAMC3	9	133932371	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08	32866754	133932371	7281060	56	49868											
CAMSAP1	157922	broad.mit.edu	37	chr9	138713938	138713938	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggactctgctccctcttctGcctccacgtcgtcagagggg	4	10	11	16	3	4	1	1	0	3	1	7	2	6	2	3	3	2	1	3	3	0	1			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr9:138713938G>A	uc004cgr.3	-	11	2569	c.2569C>T	c.(2569-2571)CAG>TAG	p.Q857*	CAMSAP1_uc004cgq.3_Nonsense_Mutation_p.Q747*|CAMSAP1_uc010nbg.2_Nonsense_Mutation_p.Q579*	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	857						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		TCCCTCTTCTGCCTCCACGTC	0.622													8	37					0	0	1	0	0		A	138713938	A	A	138713938	4	1	78	1	0	0	0	0	0	1	0	0	2614	1328	46	2	2267	2	CAMSAP1	9	138713938	Nonsense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	4781567	138713938	2499493	57	49869											
C10orf140	387640	broad.mit.edu	37	chr10	21804403	21804403	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgctttcccagtactagTgtccggtaattttttctcac	6	16	8	11	2	1	0	1	0	1	0	5	0	3	0	2	2	1	3	2	2	3	7			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr10:21804403T>C	uc009xkd.2	-	4	4602	c.2349A>G	c.(2347-2349)ACA>ACG	p.T783T	uc001iqp.1_Intron	NM_207371	NP_997254	Q1XH10	DLN1_HUMAN	hypothetical protein LOC387640	702						nucleus	nucleotide binding			ovary(1)	1						CCAGTACTAGTGTCCGGTAAT	0.458													48	93					0	0	1	0	0		C	21804403	C	C	21804403	2	2	78	1	0	0	0	0	0	0	0	1	1598	1683	59	3		3	C10orf140	10	21804403	Silent	SNP	T	TCGA-BR-8484-01A-11D-2394-08		21804403	113730344	58	49870											
PCDH15	65217	broad.mit.edu	37	chr10	55721560	55721560	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattgactcgtgttattacTcttccagaatcttcttccac	9	16	5	11	1	3	3	0	1	3	2	6	3	5	3	2	0	1	1	2	0	3	6			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr10:55721560T>A	uc001jju.1	-	22	3356	c.2961A>T	c.(2959-2961)AGA>AGT	p.R987S	PCDH15_uc010qhq.1_Missense_Mutation_p.R992S|PCDH15_uc010qhr.1_Missense_Mutation_p.R987S|PCDH15_uc010qhs.1_Missense_Mutation_p.R999S|PCDH15_uc010qht.1_Missense_Mutation_p.R994S|PCDH15_uc010qhu.1_Missense_Mutation_p.R987S|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.R987S|PCDH15_uc010qhw.1_Missense_Mutation_p.R950S|PCDH15_uc010qhx.1_Missense_Mutation_p.R916S|PCDH15_uc010qhy.1_Missense_Mutation_p.R992S|PCDH15_uc010qhz.1_Missense_Mutation_p.R987S|PCDH15_uc010qia.1_Missense_Mutation_p.R965S|PCDH15_uc010qib.1_Missense_Mutation_p.R965S	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	987	Extracellular (Potential).|Cadherin 9.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GTGTTATTACTCTTCCAGAAT	0.343										HNSCC(58;0.16)			8	79					0	0	1	0	0		A	55721560	A	A	55721560	3	1	78	1	0	0	0	0	1	0	0	0	11530	1548	54	5	4573	5	PCDH15	10	55721560	Missense_Mutation	SNP	T	TCGA-BR-8484-01A-11D-2394-08	33917157	55721560	79813187	59	49871											
ZNF365	22891	broad.mit.edu	37	chr10	64415333	64415333	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatacacttgcagagtcGtgctgtggtctctccgagct	7	12	11	11	2	1	2	0	1	1	1	4	3	2	2	1	1	4	3	1	1	2	2	rs141141483		TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr10:64415333G>A	uc001jmd.1	+	4	667	c.333G>A	c.(331-333)TCG>TCA	p.S111S	ZNF365_uc001jmc.2_Intron|ZNF365_uc001jme.1_Intron|ZNF365_uc001jmf.1_Intron|ZNF365_uc009xpg.1_Intron	NM_199452	NP_955524	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform D	111										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					TTGCAGAGTCGTGCTGTGGTC	0.512													5	77					0	0	1	0	0		A	64415333	A	A	64415333	2	1	78	1	0	0	0	0	0	0	0	1	17894	1132	40	1		1	ZNF365	10	64415333	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08	8693773	64415333	71119414	60	49872											
STOX1	219736	broad.mit.edu	37	chr10	70645465	70645465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggagaccaaacagactcCgcatagtctgccatcacgag	13	5	11	12	2	2	2	1	0	1	2	3	4	3	2	3	2	2	1	3	2	2	1			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr10:70645465C>T	uc001jos.2	+	3	2000	c.1913C>T	c.(1912-1914)CCG>CTG	p.P638L	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Missense_Mutation_p.P528L	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	638						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						AAACAGACTCCGCATAGTCTG	0.433													15	105					0	0	1	0	0		T	70645465	T	T	70645465	3	4	78	1	0	0	0	0	1	0	0	0	15344	652	23	1	1923	1	STOX1	10	70645465	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	6230132	70645465	64889282	61	49873											
LRIT1	26103	broad.mit.edu	37	chr10	85991896	85991896	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagcactttcggcagcgcttCtgaagagcactgcagcagac	11	7	11	12	2	1	3	0	1	1	2	2	3	1	3	0	1	5	6	0	1	2	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr10:85991896C>G	uc001kcz.1	-	4	1681	c.1659G>C	c.(1657-1659)CAG>CAC	p.Q553H		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	553	Cytoplasmic (Potential).					integral to endoplasmic reticulum membrane					0						GGCAGCGCTTCTGAAGAGCAC	0.552													7	34					0	0	1	0	0		G	85991896	G	G	85991896	3	3	78	1	0	0	0	0	1	0	0	0	8965	912	32	5	216	5	LRIT1	10	85991896	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	15346431	85991896	49542851	62	49874											
GRID1	2894	broad.mit.edu	37	chr10	87966203	87966203	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgacatcattgaggcggacGggtggtctcgaagccagtgt	9	9	15	8	3	2	2	1	2	1	0	3	4	2	3	1	4	1	0	1	4	1	1			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr10:87966203G>A	uc001kdl.1	-	3	539	c.438C>T	c.(436-438)CCC>CCT	p.P146P	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	146	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	TGAGGCGGACGGGTGGTCTCG	0.622										Multiple Myeloma(13;0.14)			28	33					0	0	1	0	0		A	87966203	A	A	87966203	2	1	78	1	0	0	0	0	0	0	0	1	6787	1103	39	1		1	GRID1	10	87966203	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08	1974307	87966203	47568544	63	49875											
MYOF	26509	broad.mit.edu	37	chr10	95119649	95119649	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgttttcggaccagccttcGccgtctatgagtgtggtaca	6	12	12	11	4	1	1	0	1	1	0	3	2	1	2	3	2	2	2	3	2	2	5			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr10:95119649G>A	uc001kin.2	-	29	3184	c.3061C>T	c.(3061-3063)CGA>TGA	p.R1021*	MYOF_uc001kio.2_Nonsense_Mutation_p.R1008*|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1021	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						ACCAGCCTTCGCCGTCTATGA	0.502													8	98					0	0	1	0	0		A	95119649	A	A	95119649	4	1	78	1	0	0	0	0	0	1	0	0	10107	1095	38	1	3228	1	MYOF	10	95119649	Nonsense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	7153446	95119649	40415098	64	49876											
PNLIPRP2	5408	broad.mit.edu	37	chr10	118385511	118385511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaaacttccaactggacCgcaagacacgcttcatcatc	12	9	5	15	2	3	1	3	0	0	1	5	2	4	2	2	1	2	2	2	1	3	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr10:118385511C>T	uc001lcq.2	+	6	285	c.262C>T	c.(262-264)CGC>TGC	p.R88C	PNLIPRP2_uc009xyu.1_RNA|PNLIPRP2_uc009xyv.1_RNA	NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2	87					galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		CCAACTGGACCGCAAGACACG	0.498													5	41					0	0	1	0	0		T	118385511	T	T	118385511	3	4	78	1	0	0	0	0	1	0	0	0	12170	652	23	1	275	1	PNLIPRP2	10	118385511	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	23265862	118385511	17149236	65	49877											
ODF3	113746	broad.mit.edu	37	chr11	197612	197612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaccggcctacagcttccGtggggcccccatgctcctgg	4	8	12	17	2	0	0	0	0	0	0	2	0	2	0	6	4	4	3	6	4	1	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr11:197612G>A	uc001lob.2	+	3	455	c.161G>A	c.(160-162)CGT>CAT	p.R54H	ODF3_uc010qvk.1_Missense_Mutation_p.R54H|ODF3_uc001loc.2_Missense_Mutation_p.R54H	NM_053280	NP_444510	Q96PU9	ODF3A_HUMAN	outer dense fiber of sperm tails 3	54					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm				ovary(1)	1		all_cancers(49;9.23e-07)|all_epithelial(84;0.000315)|Breast(177;0.00122)|Ovarian(85;0.0202)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;3.95e-27)|Epithelial(43;2.66e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.55e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		TACAGCTTCCGTGGGGCCCCC	0.632													6	50					0	0	1	0	0		A	197612	A	A	197612	3	1	78	1	0	0	0	0	1	0	0	0	10848	1145	40	1	167	1	ODF3	11	197612	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08		197612	134808904	66	49878											
SLC17A6	57084	broad.mit.edu	37	chr11	22391671	22391671	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgcagaagctggactttTtatttattgcttattagtca	9	19	7	6	0	2	1	1	0	1	1	2	2	2	2	0	1	3	3	0	1	5	9			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr11:22391671T>G	uc001mqk.2	+	8	1391	c.978T>G	c.(976-978)TTT>TTG	p.F326L		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	326	Helical; (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						GCTGGACTTTTTATTTATTGC	0.323													12	42					0	0	1	0	0		G	22391671	G	G	22391671	3	3	78	1	0	0	0	0	1	0	0	0	14446	1838	64	5	1008	5	SLC17A6	11	22391671	Missense_Mutation	SNP	T	TCGA-BR-8484-01A-11D-2394-08	22194059	22391671	112614845	67	49879											
DLG2	1740	broad.mit.edu	37	chr11	83641522	83641522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agtgctgtaaacaggttccgGaggcctggtgatacaagagg	11	8	15	7	1	0	2	0	1	0	1	1	3	1	3	2	5	3	3	2	5	4	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr11:83641522G>A	uc001paj.2	-	10	1333	c.1030C>T	c.(1030-1032)CCG>TCG	p.P344S	DLG2_uc001pai.2_Intron|DLG2_uc010rsy.1_Missense_Mutation_p.P311S|DLG2_uc010rsz.1_Missense_Mutation_p.P344S|DLG2_uc010rta.1_Missense_Mutation_p.P344S|DLG2_uc001pak.2_Missense_Mutation_p.P449S|DLG2_uc010rtb.1_Missense_Mutation_p.P311S|DLG2_uc001pal.1_Missense_Mutation_p.P344S|DLG2_uc001pam.1_Missense_Mutation_p.P383S	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	344						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				ACAGGTTCCGGAGGCCTGGTG	0.458													6	72					0	0	1	0	0		A	83641522	A	A	83641522	3	1	78	1	0	0	0	0	1	0	0	0	4561	1174	41	4	1688	4	DLG2	11	83641522	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	61249851	83641522	51364994	68	49880											
IL18	3606	broad.mit.edu	37	chr11	112014479	112014479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattatcatgtcctgggacaCttctctgaaagaatatgatg	12	14	8	7	0	2	3	1	2	1	1	4	4	3	4	1	1	0	0	1	1	5	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr11:112014479C>T	uc001pnb.1	-	6	642	c.422G>A	c.(421-423)AGT>AAT	p.S141N	IL18_uc001pna.1_Missense_Mutation_p.S115N|IL18_uc009yym.1_Missense_Mutation_p.S137N	NM_001562	NP_001553	Q14116	IL18_HUMAN	interleukin 18 proprotein	141					angiogenesis|cell-cell signaling|chemokine biosynthetic process|granulocyte macrophage colony-stimulating factor biosynthetic process|interferon-gamma biosynthetic process|interleukin-13 biosynthetic process|interleukin-2 biosynthetic process|positive regulation of activated T cell proliferation|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of interferon-gamma production|positive regulation of interleukin-17 production|positive regulation of natural killer cell proliferation|positive regulation of NK T cell proliferation|regulation of cell adhesion|sleep|T-helper 1 type immune response|type 2 immune response	cytosol|extracellular space	cytokine activity|signal transducer activity				0		all_cancers(61;5.7e-14)|all_epithelial(67;3.4e-08)|Melanoma(852;8.81e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;6.72e-07)|Epithelial(105;8.15e-07)|all cancers(92;1.43e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.055)		TCCTGGGACACTTCTCTGAAA	0.323													7	42					0	0	1	0	0		T	112014479	T	T	112014479	3	4	78	1	0	0	0	0	1	0	0	0	7661	565	20	4	163	4	IL18	11	112014479	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	28372957	112014479	22992037	69	49881											
OR8D2	283160	broad.mit.edu	37	chr11	124189480	124189480	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtagttgctaaggtattaActcctccaataatgaacagc	13	12	8	8	0	0	1	0	1	0	0	2	1	2	1	2	1	4	4	2	1	7	6			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr11:124189480A>C	uc010sah.1	-	1	614	c.614T>G	c.(613-615)GTT>GGT	p.V205G		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	205	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0525)		TAAGGTATTAACTCCTCCAAT	0.413													9	110					0	0	1	0	0		C	124189480	C	C	124189480	3	2	78	1	0	0	0	0	1	0	0	0	11251	43	2	5	324	5	OR8D2	11	124189480	Missense_Mutation	SNP	A	TCGA-BR-8484-01A-11D-2394-08	12175001	124189480	10817036	70	49882											
CLECL1	160365	broad.mit.edu	37	chr12	9885618	9885618	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcagcgtagactacatcTccagccattgcacagatcaa	13	9	7	12	1	3	2	2	0	1	2	4	2	3	2	2	0	4	2	2	0	3	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr12:9885618T>A	uc001qwj.2	-	1	243	c.243A>T	c.(241-243)GGA>GGT	p.G81G		NM_172004	NP_742001	Q8IZS7	CLCL1_HUMAN	type II transmembrane protein DCAL1	81	Helical; Signal-anchor for type II membrane protein; (Potential).					integral to membrane|plasma membrane	sugar binding				0						AGACTACATCTCCAGCCATTG	0.433													13	66					0	0	1	0	0		A	9885618	A	A	9885618	2	1	78	1	0	0	0	0	0	0	0	1	3526	1538	54	5		5	CLECL1	12	9885618	Silent	SNP	T	TCGA-BR-8484-01A-11D-2394-08		9885618	123966277	71	49883											
DNAH10	196385	broad.mit.edu	37	chr12	124359954	124359954	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgacccaagatttatttcGctattcagtgtcttcaatgt	9	17	7	8	1	3	2	2	1	1	1	4	2	3	2	1	0	0	2	1	0	4	7			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr12:124359954G>A	uc001uft.3	+	46	7786	c.7761G>A	c.(7759-7761)TCG>TCA	p.S2587S		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2587	AAA 3 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GATTTATTTCGCTATTCAGTG	0.443													11	55					0	0	1	0	0		A	124359954	A	A	124359954	2	1	78	1	0	0	0	0	0	0	0	1	4604	1074	38	1		1	DNAH10	12	124359954	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08	114474336	124359954	9491941	72	49884											
PCDH17	27253	broad.mit.edu	37	chr13	58207332	58207332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgctgactgccctggacGgtggcgagcctccacgttcc	4	9	13	15	4	0	1	0	1	0	0	3	3	2	2	4	3	3	2	4	3	0	1			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr13:58207332G>A	uc001vhq.1	+	1	1544	c.652G>A	c.(652-654)GGT>AGT	p.G218S	PCDH17_uc010aec.1_Missense_Mutation_p.G218S	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	218	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TGCCCTGGACGGTGGCGAGCC	0.607													6	63					0	0	1	0	0		A	58207332	A	A	58207332	3	1	78	1	0	0	0	0	1	0	0	0	11531	1116	39	1	654	1	PCDH17	13	58207332	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08		58207332	56962546	73	49885											
PCDH20	64881	broad.mit.edu	37	chr13	61987973	61987973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcagcagccgcaggtcctCggccaggctgccgatgagca	7	4	16	14	3	0	1	0	1	0	0	2	2	1	1	4	4	4	5	4	4	0	0			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr13:61987973C>T	uc001vid.3	-	2	623	c.259G>A	c.(259-261)GAG>AAG	p.E87K	PCDH20_uc010thj.1_Missense_Mutation_p.E87K	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	60	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		CGCAGGTCCTCGGCCAGGCTG	0.687													6	8					0	0	1	0	0		T	61987973	T	T	61987973	3	4	78	1	0	0	0	0	1	0	0	0	11534	893	31	1	2600	1	PCDH20	13	61987973	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	3780641	61987973	53181905	74	49886											
COL4A1	1282	broad.mit.edu	37	chr13	110829307	110829307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catggagccaggcttgccagGgagaccgacatcccccttat	9	7	11	14	1	0	1	0	0	0	1	1	4	1	2	5	3	2	1	5	3	1	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr13:110829307G>A	uc001vqw.3	-	34	2916	c.2794C>T	c.(2794-2796)CCT>TCT	p.P932S	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	932	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			GGCTTGCCAGGGAGACCGACA	0.587													7	80					0	0	1	0	0		A	110829307	A	A	110829307	3	1	78	1	0	0	0	0	1	0	0	0	3692	1232	43	4	2291	4	COL4A1	13	110829307	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	48841334	110829307	4340571	75	49887											
AKAP6	9472	broad.mit.edu	37	chr14	33046439	33046439	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaccttaaactgtatctggaGacacacttggtaggcaagat	13	10	10	8	0	1	2	0	0	1	2	1	4	1	2	1	3	1	3	1	3	5	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr14:33046439G>A	uc001wrq.2	+	5	2630	c.2460G>A	c.(2458-2460)GAG>GAA	p.E820E	AKAP6_uc010aml.2_Silent_p.E817E	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	820	Spectrin 1.				protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TGTATCTGGAGACACACTTGG	0.348													12	108					0	0	1	0	0		A	33046439	A	A	33046439	2	1	78	1	0	0	0	0	0	0	0	1	455	933	33	4		4	AKAP6	14	33046439	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08		33046439	74303101	76	49888											
SEMA6D	80031	broad.mit.edu	37	chr15	48055278	48055278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctttcgagaaatcgctGtcgaacataataatttaggc	12	14	7	8	3	2	1	0	0	2	1	5	3	2	1	0	1	1	1	0	1	5	6			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr15:48055278G>A	uc010bek.2	+	9	1084	c.724G>A	c.(724-726)GTC>ATC	p.V242I	SEMA6D_uc001zvw.2_Missense_Mutation_p.V242I|SEMA6D_uc001zvx.1_Missense_Mutation_p.V242I|SEMA6D_uc001zvy.2_Missense_Mutation_p.V242I|SEMA6D_uc001zvz.2_Missense_Mutation_p.V242I|SEMA6D_uc001zwa.2_Missense_Mutation_p.V242I|SEMA6D_uc001zwb.2_Missense_Mutation_p.V242I|SEMA6D_uc001zwc.2_Missense_Mutation_p.V242I	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	242	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity	p.V242V(1)		skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		AGAAATCGCTGTCGAACATAA	0.358													6	24					0	0	1	0	0		A	48055278	A	A	48055278	3	1	78	1	0	0	0	0	1	0	0	0	14067	1377	48	4	754	4	SEMA6D	15	48055278	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08		48055278	54476114	77	49889											
FBN1	2200	broad.mit.edu	37	chr15	48782113	48782113	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtcctctcggacacagcTcctcgtactcaggagtattt	7	11	10	13	3	2	0	1	0	1	0	6	2	4	2	2	3	2	3	2	3	2	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr15:48782113T>C	uc001zwx.1	-	25	3345	c.3017A>G	c.(3016-3018)GAG>GGG	p.E1006G		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1006	TB 5.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CGGACACAGCTCCTCGTACTC	0.542													18	89					0	0	1	0	0		C	48782113	C	C	48782113	3	2	78	1	0	0	0	0	1	0	0	0	5716	1551	54	3	5766	3	FBN1	15	48782113	Missense_Mutation	SNP	T	TCGA-BR-8484-01A-11D-2394-08	726835	48782113	53749279	78	49890											
PHKG2	5261	broad.mit.edu	37	chr16	30768205	30768205	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccactgaccaagaatgcactGttgagggacccttatgcgct	10	9	10	12	1	0	3	0	2	0	1	0	4	0	4	3	1	2	3	3	1	3	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr16:30768205G>A	uc002dzk.1	+	10	1101	c.1008G>A	c.(1006-1008)CTG>CTA	p.L336L	PHKG2_uc002dzi.1_Silent_p.L340L|PHKG2_uc002dzj.1_Silent_p.L234L	NM_000294	NP_000285	P15735	PHKG2_HUMAN	phosphorylase kinase, gamma 2 (testis)	336					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			ovary(1)	1			Colorectal(24;0.198)			AGAATGCACTGTTGAGGGACC	0.617													38	102					0	0	1	0	0		A	30768205	A	A	30768205	2	1	78	1	0	0	0	0	0	0	0	1	11866	1364	48	4		4	PHKG2	16	30768205	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08		30768205	59586548	79	49891											
LPCAT2	54947	broad.mit.edu	37	chr16	55608610	55608610	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcttgtgcaacccttccaAcacagaggagatcatccagg	11	9	9	12	0	2	2	1	0	1	2	4	3	4	2	3	2	3	1	3	2	2	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr16:55608610A>T	uc002eie.3	+	12	1464	c.1283A>T	c.(1282-1284)AAC>ATC	p.N428I	LPCAT2_uc002eic.2_Missense_Mutation_p.N158I	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	428	EF-hand 2.|Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						AACCCTTCCAACACAGAGGAG	0.453													13	64					0	0	1	0	0		T	55608610	T	T	55608610	3	4	78	1	0	0	0	0	1	0	0	0	8929	43	2	5	1329	5	LPCAT2	16	55608610	Missense_Mutation	SNP	A	TCGA-BR-8484-01A-11D-2394-08	24840405	55608610	34746143	80	49892											
TP53	7157	broad.mit.edu	37	chr17	7578406	7578406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgctcatggtgggggcagCgcctcacaacctccgtcatg	7	7	13	14	3	3	0	3	0	0	0	4	0	4	0	3	3	3	2	3	3	1	0	rs28934578		TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr17:7578406C>T	uc002gim.2	-	5	718	c.524G>A	c.(523-525)CGC>CAC	p.R175H	TP53_uc002gig.1_Missense_Mutation_p.R175H|TP53_uc002gih.2_Missense_Mutation_p.R175H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R43H|TP53_uc010cng.1_Missense_Mutation_p.R43H|TP53_uc002gii.1_Missense_Mutation_p.R43H|TP53_uc010cnh.1_Missense_Mutation_p.R175H|TP53_uc010cni.1_Missense_Mutation_p.R175H|TP53_uc002gij.2_Missense_Mutation_p.R175H|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R82H|TP53_uc002gio.2_Missense_Mutation_p.R43H|TP53_uc010vug.1_Missense_Mutation_p.R136H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	175	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R175H(729)|p.R175L(19)|p.R175C(12)|p.R175G(11)|p.0?(7)|p.R175P(5)|p.R175S(5)|p.R43H(5)|p.R82H(5)|p.R175R(4)|p.R174fs*24(3)|p.R175_E180delRCPHHE(3)|p.R175fs*5(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V173fs*69(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R174_H178>S(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R175fs*6(1)|p.R42fs*24(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R175fs*72(1)|p.R174fs*70(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.R174fs*3(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GTGGGGGCAGCGCCTCACAAC	0.652	R175H(KMS26_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R175H(HCC1395_BREAST)|R175H(KLE_ENDOMETRIUM)|R175H(NCIH196_LUNG)|R175H(AU565_BREAST)|R175H(TYKNU_OVARY)|R175H(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|R175H(SKUT1_SOFT_TISSUE)|R175H(CAL33_UPPER_AERODIGESTIVE_TRACT)|R175H(LS123_LARGE_INTESTINE)|R175H(SKBR3_BREAST)|R175H(RKN_OVARY)|R175H(HUCCT1_BILIARY_TRACT)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			28	34					0	0	1	0	0		T	7578406	T	T	7578406	3	4	78	1	0	0	0	0	1	0	0	0	16407	768	27	1	774	1	TP53	17	7578406	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08		7578406	73616804	81	49893											
C18orf34	374864	broad.mit.edu	37	chr18	30926368	30926368	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctttaactctggacaCttttcatcttaaacagaaat	12	15	4	10	0	3	1	1	0	2	1	4	2	4	2	1	1	3	1	1	1	4	5			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr18:30926368C>G	uc002kxn.2	-	8	607	c.465G>C	c.(463-465)AAG>AAC	p.K155N	C18orf34_uc010xbr.1_Missense_Mutation_p.K155N|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.K155N|C18orf34_uc002kxp.2_Missense_Mutation_p.K155N	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	155	Potential.									ovary(1)	1						ACTCTGGACACTTTTCATCTT	0.353													17	47					0	0	1	0	0		G	30926368	G	G	30926368	3	3	78	1	0	0	0	0	1	0	0	0	1905	564	20	5	2198	5	C18orf34	18	30926368	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08		30926368	47150880	82	49894											
MUC16	94025	broad.mit.edu	37	chr19	9010988	9010988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cactgctggtgggggccacaGagctccgatgggtgaaacct	8	7	15	11	1	0	2	0	1	0	1	1	3	1	2	3	4	3	2	3	4	1	0			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr19:9010988G>A	uc002mkp.2	-	37	39134	c.38930C>T	c.(38929-38931)TCT>TTT	p.S12977F	MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12979	Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGGGGCCACAGAGCTCCGATG	0.522													10	127					0	0	1	0	0		A	9010988	A	A	9010988	3	1	78	1	0	0	0	0	1	0	0	0	9991	942	33	4	4785	4	MUC16	19	9010988	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08		9010988	50117995	83	49895											
ZNF625	90589	broad.mit.edu	37	chr19	12256938	12256938	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctccacatgattttactCggggagttttcttcttcagc	6	17	7	11	1	4	1	1	1	3	0	6	2	4	2	1	2	2	1	1	2	1	7	rs112669855		TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr19:12256938C>A	uc002mth.2	-	4	445	c.95G>T	c.(94-96)CGA>CTA	p.R32L	ZNF20_uc002mtg.1_Intron|ZNF625_uc010dyn.1_RNA|ZNF625_uc010dyo.1_Missense_Mutation_p.R66L	NM_145233	NP_660276	Q96I27	ZN625_HUMAN	zinc finger protein 625	32	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGATTTTACTCGGGGAGTTTT	0.448													7	69					8.12818e-05	8.25228e-05	1	1	0		A	12256938	A	A	12256938	3	1	78	1	0	0	0	0	1	0	0	0	18074	884	31	5	829	5	ZNF625	19	12256938	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08	3245950	12256938	46872045	84	49896											
ZNF208	7757	broad.mit.edu	37	chr19	22156673	22156673	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctccagtatgaattttcTtatgataactaagggttgag	11	16	8	6	0	2	3	0	3	2	0	4	3	3	3	1	1	1	2	1	1	5	7			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr19:22156673T>G	uc002nqp.2	-	4	1312	c.1163A>C	c.(1162-1164)AAG>ACG	p.K388T	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				ATGAATTTTCTTATGATAACT	0.373													5	50					0	0	1	0	0		G	22156673	G	G	22156673	3	3	78	1	0	0	0	0	1	0	0	0	17791	1609	56	5	2683	5	ZNF208	19	22156673	Missense_Mutation	SNP	T	TCGA-BR-8484-01A-11D-2394-08	9899735	22156673	36972310	85	49897											
PSG11	5680	broad.mit.edu	37	chr19	43523024	43523024	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgtgacaccaaatagaaAgagggtcctgttggtttcag	11	12	11	7	0	1	3	1	1	0	2	2	3	2	3	2	2	0	2	2	2	3	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr19:43523024A>G	uc002ovm.1	-	3	714	c.607T>C	c.(607-609)TTT>CTT	p.F203L	PSG11_uc002ouw.2_Missense_Mutation_p.F209L|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Missense_Mutation_p.F209L|PSG11_uc002ovn.1_Missense_Mutation_p.F209L|PSG11_uc002ovo.1_Missense_Mutation_p.F81L|PSG11_uc002ovp.1_Missense_Mutation_p.F81L	NM_002785	NP_002776	Q9UQ72	PSG11_HUMAN	pregnancy specific beta-1-glycoprotein 11	203	Ig-like C2-type 1.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				CCAAATAGAAAGAGGGTCCTG	0.502													44	445					0	0	1	0	0		G	43523024	G	G	43523024	3	3	78	1	0	0	0	0	1	0	0	0	12676	72	3	3	412	3	PSG11	19	43523024	Missense_Mutation	SNP	A	TCGA-BR-8484-01A-11D-2394-08	21366351	43523024	15605959	86	49898											
HAS1	3036	broad.mit.edu	37	chr19	52222534	52222534	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcttgccgccccagcgctgCgccacgcacacgcacctgcg	5	4	11	21	7	0	0	0	0	0	0	0	0	0	0	5	0	4	4	5	0	0	1			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr19:52222534C>A	uc002pxo.1	-	2	662	c.627G>T	c.(625-627)GCG>GCT	p.A209A	HAS1_uc010epc.1_5'Flank|HAS1_uc010epd.1_Silent_p.A174A|HAS1_uc002pxn.1_Silent_p.A216A|HAS1_uc002pxp.1_Silent_p.A208A	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1	209	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding			ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		CCCAGCGCTGCGCCACGCACA	0.617													6	39					2.0095e-06	2.10443e-06	1	1	0		A	52222534	A	A	52222534	2	1	78	1	0	0	0	0	0	0	0	1	6977	755	27	5		5	HAS1	19	52222534	Silent	SNP	C	TCGA-BR-8484-01A-11D-2394-08	8699510	52222534	6906449	87	49899											
ZNF845	91664	broad.mit.edu	37	chr19	53855529	53855529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtggcaagacctttagtcGgaagtcatcccttacacgcc	10	10	9	12	2	1	1	1	0	0	1	3	2	2	2	3	2	1	1	3	2	4	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr19:53855529G>A	uc010ydv.1	+	4	1718	c.1601G>A	c.(1600-1602)CGG>CAG	p.R534Q	ZNF845_uc010ydw.1_Missense_Mutation_p.R534Q	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	534	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACCTTTAGTCGGAAGTCATCC	0.408													9	77					0	0	1	0	0		A	53855529	A	A	53855529	3	1	78	1	0	0	0	0	1	0	0	0	18216	1116	39	1	1611	1	ZNF845	19	53855529	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08	1632995	53855529	5273454	88	49900											
HAO1	54363	broad.mit.edu	37	chr20	7915153	7915153	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacagtggcaagctcgccGtccacatgagccatgcgctg	8	7	11	15	3	1	1	1	1	0	0	3	1	2	1	3	1	3	3	3	1	1	0	rs138052675		TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr20:7915153G>A	uc002wmw.1	-	2	291	c.267C>T	c.(265-267)GAC>GAT	p.D89D	HAO1_uc010gbu.2_Silent_p.D89D	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	89	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						CAAGCTCGCCGTCCACATGAG	0.522													8	140					0	0	1	0	0		A	7915153	A	A	7915153	2	1	78	1	0	0	0	0	0	0	0	1	6967	1136	40	1		1	HAO1	20	7915153	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08		7915153	55110367	89	49901											
SULF2	55959	broad.mit.edu	37	chr20	46290516	46290516	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgttggggtgcctactcaCccaggtccatgtttcgagtc	6	11	11	13	2	1	0	1	0	0	0	4	1	2	0	3	3	2	2	3	3	1	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr20:46290516C>T	uc002xto.2	-	18	2824	c.2494_splice	c.e18+1	p.G832_splice	SULF2_uc002xtr.2_Splice_Site_p.D832_splice|SULF2_uc002xtq.2_Splice_Site_p.G832_splice|SULF2_uc010zyd.1_Splice_Site_p.G111_splice	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor						bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						TGCCTACTCACCCAGGTCCAT	0.567													14	177					0	0	1	0	0		T	46290516	T	T	46290516	5	4	78	1	0	0	0	0	0	0	1	0	15396	521	18	4	133	4	SULF2	20	46290516	Splice_Site	SNP	C	TCGA-BR-8484-01A-11D-2394-08	38375363	46290516	16735004	90	49902											
SULF2	55959	broad.mit.edu	37	chr20	46331299	46331299	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtgcttctctttcaccccGttccgacacagcgtgtagtt	5	13	8	15	4	2	0	1	0	1	0	4	1	3	0	4	0	2	4	4	0	1	5			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr20:46331299G>A	uc002xto.2	-	4	861	c.531C>T	c.(529-531)AAC>AAT	p.N177N	SULF2_uc002xtr.2_Silent_p.N177N|SULF2_uc002xtq.2_Silent_p.N177N|SULF2_uc010ghv.1_Silent_p.N177N	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	177					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						CTTTCACCCCGTTCCGACACA	0.453													6	53					0	0	1	0	0		A	46331299	A	A	46331299	2	1	78	1	0	0	0	0	0	0	0	1	15396	1136	40	1		1	SULF2	20	46331299	Silent	SNP	G	TCGA-BR-8484-01A-11D-2394-08	40783	46331299	16694221	91	49903											
TSHZ2	128553	broad.mit.edu	37	chr20	51870928	51870928	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgaaggagccagtcccaAccatttcctcgaaaatggtc	11	10	8	12	1	0	1	0	1	0	0	4	3	2	2	4	2	2	0	4	2	4	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr20:51870928A>C	uc002xwo.2	+	2	1887	c.931A>C	c.(931-933)ACC>CCC	p.T311P		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	311					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GCCAGTCCCAACCATTTCCTC	0.448													7	144					0	0	1	0	0		C	51870928	C	C	51870928	3	2	78	1	0	0	0	0	1	0	0	0	16650	43	2	5	937	5	TSHZ2	20	51870928	Missense_Mutation	SNP	A	TCGA-BR-8484-01A-11D-2394-08	5539629	51870928	11154592	92	49904											
ADARB1	104	broad.mit.edu	37	chr21	46602544	46602544	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgataagtgtttctacaggaAcaaaatgtattaatggtgaa	16	13	9	3	0	1	2	0	2	1	0	1	3	1	3	0	2	2	2	0	2	8	5			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr21:46602544A>G	uc002zgy.2	+	6	1558	c.1123A>G	c.(1123-1125)ACA>GCA	p.T375A	ADARB1_uc002zgr.2_Missense_Mutation_p.T375A|ADARB1_uc002zgs.2_RNA|ADARB1_uc002zgw.2_Missense_Mutation_p.T375A|ADARB1_uc002zgv.2_RNA|ADARB1_uc002zgt.2_Missense_Mutation_p.T375A|ADARB1_uc010gpx.2_RNA|ADARB1_uc002zgq.2_RNA|ADARB1_uc002zgu.2_RNA	NM_015833	NP_056648	P78563	RED1_HUMAN	RNA-specific adenosine deaminase B1 isoform 2	375	A to I editase.				adenosine to inosine editing|mRNA modification|mRNA processing|RNA processing	nucleoplasm|nucleus	double-stranded RNA adenosine deaminase activity|double-stranded RNA adenosine deaminase activity|double-stranded RNA binding|double-stranded RNA binding|metal ion binding|mRNA binding|RNA binding			skin(1)	1				Colorectal(79;0.115)		TTCTACAGGAACAAAATGTAT	0.348													8	42					0	0	1	0	0		G	46602544	G	G	46602544	3	3	78	1	0	0	0	0	1	0	0	0	282	43	2	3	1137	3	ADARB1	21	46602544	Missense_Mutation	SNP	A	TCGA-BR-8484-01A-11D-2394-08		46602544	1527351	93	49905											
CACNA1I	8911	broad.mit.edu	37	chr22	40037148	40037148	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccacaagggtgccatcaaCtttgacaacatcggttatgc	11	9	8	13	1	1	1	1	1	0	0	2	1	1	1	3	2	4	1	3	2	4	2			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chr22:40037148C>A	uc003ayc.2	+	6	1017	c.1017C>A	c.(1015-1017)AAC>AAA	p.N339K	CACNA1I_uc003ayd.2_Missense_Mutation_p.N339K|CACNA1I_uc003aye.2_Missense_Mutation_p.N254K|CACNA1I_uc003ayf.2_Missense_Mutation_p.N254K	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	339	I.|Extracellular (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	GTGCCATCAACTTTGACAACA	0.577													24	43					3.01185e-09	3.17917e-09	1	1	0		A	40037148	A	A	40037148	3	1	78	1	0	0	0	0	1	0	0	0	2549	564	20	5	1039	5	CACNA1I	22	40037148	Missense_Mutation	SNP	C	TCGA-BR-8484-01A-11D-2394-08		40037148	11267418	94	49906											
DDX3X	1654	broad.mit.edu	37	chrX	41204467	41204467	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgaagctgatcggatgttgGatatggggtttgagcctcag	9	12	15	5	1	1	3	1	3	0	0	2	5	1	5	1	4	2	3	1	4	2	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chrX:41204467G>T	uc004dfe.2	+	11	1915	c.1060G>T	c.(1060-1062)GAT>TAT	p.D354Y	DDX3X_uc004dff.2_Missense_Mutation_p.D354Y|DDX3X_uc011mkq.1_Missense_Mutation_p.D338Y|DDX3X_uc011mkr.1_Missense_Mutation_p.D354Y|DDX3X_uc011mks.1_Intron|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	354	Necessary for interaction with XPO1.|Helicase ATP-binding.				interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						TCGGATGTTGGATATGGGGTT	0.398										HNSCC(61;0.18)			45	34					1.5731e-28	1.68728e-28	1	1	0		T	41204467	T	T	41204467	3	4	78	1	0	0	0	0	1	0	0	0	4361	1174	41	5	1102	5	DDX3X	23	41204467	Missense_Mutation	SNP	G	TCGA-BR-8484-01A-11D-2394-08		41204467	114066093	95	49907											
HUWE1	10075	broad.mit.edu	37	chrX	53672407	53672407	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaggaagccaataaagtTgtcaaatgctaaagggacaa	18	7	10	6	0	2	1	2	0	0	1	2	3	2	3	1	2	2	2	1	2	8	3			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chrX:53672407T>C	uc004dsp.2	-	7	762	c.360A>G	c.(358-360)ACA>ACG	p.T120T		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	120					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CCAATAAAGTTGTCAAATGCT	0.398													19	13					0	0	1	0	0		C	53672407	C	C	53672407	2	2	78	1	0	0	0	0	0	0	0	1	7477	1799	63	3		3	HUWE1	23	53672407	Silent	SNP	T	TCGA-BR-8484-01A-11D-2394-08	12467940	53672407	101598153	96	49908											
EDA2R	60401	broad.mit.edu	37	chrX	65835851	65835851	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtcccagtactcattttcTtggcaatccatggtgggaag	8	13	11	9	0	2	0	1	0	1	0	4	1	4	1	2	4	1	2	2	4	3	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chrX:65835851T>G	uc004dwq.2	-	1	23	c.12A>C	c.(10-12)CAA>CAC	p.Q4H	EDA2R_uc004dwr.2_Missense_Mutation_p.Q4H|EDA2R_uc004dws.2_Missense_Mutation_p.Q4H|EDA2R_uc011mpb.1_RNA|EDA2R_uc011mpc.1_5'UTR|EDA2R_uc010nkt.1_Missense_Mutation_p.Q4H|EDA2R_uc004dwt.1_Missense_Mutation_p.Q4H	NM_021783	NP_068555	Q9HAV5	TNR27_HUMAN	X-linked ectodysplasin receptor	4	TNFR-Cys 1.|Extracellular (Potential).				cell differentiation|embryo development|epidermis development|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity	integral to plasma membrane	tumor necrosis factor receptor activity			upper_aerodigestive_tract(1)	1						ACTCATTTTCTTGGCAATCCA	0.502													3	16					0	0	1	0	0		G	65835851	G	G	65835851	3	3	78	1	0	0	0	0	1	0	0	0	4910	1606	56	5	901	5	EDA2R	23	65835851	Missense_Mutation	SNP	T	TCGA-BR-8484-01A-11D-2394-08	12163444	65835851	89434709	97	49909											
KIAA2022	340533	broad.mit.edu	37	chrX	73961095	73961095	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatggtcctgggacaccctcTtggaacccctttagtgttcc	7	12	9	13	0	1	0	0	0	1	0	3	2	3	2	5	3	1	1	5	3	3	4			TCGA-BR-8484-01A-11D-2394-08	TCGA-BR-8484-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6f00fcf3-f10e-4c22-b4ea-d9cc765d2647	fb53f86c-6077-4496-a222-35622ccdedf8	g.chrX:73961095T>A	uc004eby.2	-	3	3914	c.3297A>T	c.(3295-3297)CAA>CAT	p.Q1099H		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1099					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GGACACCCTCTTGGAACCCCT	0.478													10	71					0	0	1	0	0		A	73961095	A	A	73961095	3	1	78	1	0	0	0	0	1	0	0	0	8285	1606	56	5	1261	5	KIAA2022	23	73961095	Missense_Mutation	SNP	T	TCGA-BR-8484-01A-11D-2394-08	8125244	73961095	81309465	98	49910											
CAMTA1	23261	broad.mit.edu	37	chr1	7724054	7724054	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccagaaaccaccatgaacTttgaccccgactgtttcctt	10	12	5	14	1	0	3	0	2	0	1	2	4	2	3	6	0	2	1	6	0	2	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:7724054T>G	uc001aoi.2	+	9	1654	c.1447T>G	c.(1447-1449)TTT>GTT	p.F483V		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	483					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		CACCATGAACTTTGACCCCGA	0.597													47	104					0	0	0.011902	0	0		G	7724054	G	G	7724054	3	3	79	1	0	0	0	0	1	0	0	0	2616	1609	56	5	1481	5	CAMTA1	1	7724054	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08		7724054	241526567	1	49911											
RNF19B	127544	broad.mit.edu	37	chr1	33407927	33407927	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagggctgcaaagctggcCgtttcgctgtaaggaccttg	8	9	15	9	2	0	1	0	0	0	1	1	3	0	2	2	3	2	6	2	3	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:33407927C>T	uc010oho.1	-	7	1539	c.1539G>A	c.(1537-1539)ACG>ACA	p.T513T	RNF19B_uc001bwm.3_Silent_p.T512T|RNF19B_uc010ohp.1_Silent_p.T512T	NM_153341	NP_699172	Q6ZMZ0	RN19B_HUMAN	ring finger protein 19B isoform a	513						integral to membrane	ligase activity|protein binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CAAAGCTGGCCGTTTCGCTGT	0.498													20	85					0	0	0.012319	0	0		T	33407927	T	T	33407927	2	4	79	1	0	0	0	0	0	0	0	1	13496	639	23	1		1	RNF19B	1	33407927	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	25683873	33407927	215842694	2	49912											
GJB3	2707	broad.mit.edu	37	chr1	35250846	35250846	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcaatatgccgcgcctGgtgcagtgtgccaacgtggc	6	9	14	12	3	1	0	1	0	0	0	1	0	1	0	3	3	4	2	3	3	3	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:35250846G>T	uc001bxx.2	+	2	1098	c.483G>T	c.(481-483)CTG>CTT	p.L161L	GJB3_uc001bxy.2_Silent_p.L161L|GJB3_uc001bxz.3_Silent_p.L161L|uc010ohs.1_RNA	NM_024009	NP_076872	O75712	CXB3_HUMAN	connexin 31	161	Extracellular (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				TGCCGCGCCTGGTGCAGTGTG	0.557													9	160					1.76689e-08	1.81536e-08	0.006214	1	0		T	35250846	T	T	35250846	2	4	79	1	0	0	0	0	0	0	0	1	6424	1335	47	5		5	GJB3	1	35250846	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08	1842919	35250846	213999775	3	49913											
NEGR1	257194	broad.mit.edu	37	chr1	72076711	72076711	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taatcacaaagtcctcacttCttctctcctttgtaccattc	9	16	2	14	0	4	0	2	0	2	0	8	0	6	0	3	0	1	1	3	0	3	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:72076711C>T	uc001dfw.2	-	5	886	c.786G>A	c.(784-786)AAG>AAA	p.K262K	NEGR1_uc001dfv.2_Silent_p.K134K|NEGR1_uc010oqs.1_Silent_p.K218K	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	262	Ig-like C2-type 3.				cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		GTCCTCACTTCTTCTCTCCTT	0.448													17	65					0	0	0.006122	0	0		T	72076711	T	T	72076711	2	4	79	1	0	0	0	0	0	0	0	1	10336	912	32	4		4	NEGR1	1	72076711	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	36825865	72076711	177173910	4	49914											
TNNI3K	51086	broad.mit.edu	37	chr1	74954890	74954890	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggaagacccgaattttcTgaagttgtcatgaagttaga	13	11	11	6	1	2	4	1	2	1	2	2	6	2	5	1	1	0	2	1	1	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:74954890T>G	uc001dgf.1	+	22	2190	c.2139T>G	c.(2137-2139)TCT>TCG	p.S713S	TNNI3K_uc001dge.1_Silent_p.S814S	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	713	Protein kinase.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						CCGAATTTTCTGAAGTTGTCA	0.358													14	37					0	0	0.003163	0	0		G	74954890	G	G	74954890	2	3	79	1	0	0	0	0	0	0	0	1	16354	1567	55	5		5	TNNI3K	1	74954890	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2878179	74954890	174295731	5	49915											
C1orf173	127254	broad.mit.edu	37	chr1	75097545	75097545	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaactgttaatgtttggaAgttgatatgaattcattctc	11	18	8	4	0	2	2	1	2	1	0	3	3	2	3	0	1	1	4	0	1	5	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:75097545A>C	uc001dgg.2	-	7	890	c.671T>G	c.(670-672)CTT>CGT	p.L224R	C1orf173_uc001dgi.3_Missense_Mutation_p.L18R	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	224										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						AATGTTTGGAAGTTGATATGA	0.403													22	35					0	0	0.014323	0	0		C	75097545	C	C	75097545	3	2	79	1	0	0	0	0	1	0	0	0	2017	72	3	5	3953	5	C1orf173	1	75097545	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	142655	75097545	174153076	6	49916											
IFI44L	10964	broad.mit.edu	37	chr1	79101176	79101176	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgccagacagatatcaggTaagatttcttcaatatccaa	15	12	6	8	0	3	3	2	0	1	3	4	3	4	3	2	1	1	1	2	1	6	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:79101176T>C	uc010oro.1	+	5	1055	c.876_splice	c.e5+2	p.Q292_splice	IFI44L_uc010orp.1_Splice_Site_p.Q29_splice|IFI44L_uc010orq.1_Splice_Site_p.Q29_splice	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like							cytoplasm					0						AGATATCAGGTAAGATTTCTT	0.378													5	53					0	0	0.000602	0	0		C	79101176	C	C	79101176	5	2	79	1	0	0	0	0	0	0	1	0	7534	1652	57	3	892	3	IFI44L	1	79101176	Splice_Site	SNP	T	TCGA-BR-8485-01A-11D-2394-08	4003631	79101176	170149445	7	49917											
IFI44L	10964	broad.mit.edu	37	chr1	79102722	79102722	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtttttataacagtttaaTtcccgtaaaccaattacacc	14	15	3	9	1	0	0	0	0	0	0	1	0	1	0	3	0	3	3	3	0	7	9			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:79102722T>A	uc010oro.1	+	6	1061	c.882T>A	c.(880-882)AAT>AAA	p.N294K	IFI44L_uc010orp.1_Missense_Mutation_p.N31K|IFI44L_uc010orq.1_Missense_Mutation_p.N31K	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	294						cytoplasm					0						AACAGTTTAATTCCCGTAAAC	0.358													21	70					0	0	0.00278	0	0		A	79102722	A	A	79102722	3	1	79	1	0	0	0	0	1	0	0	0	7534	1490	52	5	900	5	IFI44L	1	79102722	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	1546	79102722	170147899	8	49918											
LPHN2	23266	broad.mit.edu	37	chr1	82447530	82447530	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcgctcttctgtgtcttcTtggcctcacctggtcctttg	1	19	8	13	1	5	0	1	0	4	0	7	0	6	0	3	2	0	1	3	2	0	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:82447530T>A	uc001dit.3	+	18	3282	c.3101T>A	c.(3100-3102)CTT>CAT	p.L1034H	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.L1034H|LPHN2_uc001div.2_Missense_Mutation_p.L1034H|LPHN2_uc009wcd.2_Missense_Mutation_p.L1034H|LPHN2_uc001diw.2_Missense_Mutation_p.L618H|LPHN2_uc009wce.1_Missense_Mutation_p.L135H	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	1047	Helical; Name=6; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		CTGTGTCTTCTTGGCCTCACC	0.403													63	135					0	0	0.01441	0	0		A	82447530	A	A	82447530	3	1	79	1	0	0	0	0	1	0	0	0	8934	1609	56	5	3163	5	LPHN2	1	82447530	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	3344808	82447530	166803091	9	49919											
TTLL7	79739	broad.mit.edu	37	chr1	84412920	84412920	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattcagcaggaaagatccaAgttcgaggaacaaaggtata	17	8	10	6	1	1	1	1	0	0	1	3	4	2	3	1	3	2	3	1	3	7	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:84412920A>G	uc001djc.2	-	6	789	c.393T>C	c.(391-393)ACT>ACC	p.T131T	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_Intron|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	131	TTL.				cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		GAAAGATCCAAGTTCGAGGAA	0.323													11	21					0	0	0.010729	0	0		G	84412920	G	G	84412920	2	3	79	1	0	0	0	0	0	0	0	1	16758	59	3	3		3	TTLL7	1	84412920	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1965390	84412920	164837701	10	49920											
RPTN	126638	broad.mit.edu	37	chr1	152127241	152127241	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctctgatggttctgctcGtcttcatgggtttgcctgtc	3	17	10	11	1	4	1	1	1	3	0	7	1	4	1	1	2	2	3	1	2	0	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:152127241G>A	uc001ezs.1	-	3	2399	c.2334C>T	c.(2332-2334)GAC>GAT	p.D778D		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	778	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						GGTTCTGCTCGTCTTCATGGG	0.463													135	445					0	0	0.01441	0	0		A	152127241	A	A	152127241	2	1	79	1	0	0	0	0	0	0	0	1	13689	1136	40	1		1	RPTN	1	152127241	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08	67714321	152127241	97123380	11	49921											
LCE1C	353133	broad.mit.edu	37	chr1	152777850	152777850	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagagacaggagggcacttAgggggacactttgggggaca	12	5	18	6	0	0	1	0	0	0	1	0	6	0	4	0	6	0	1	0	6	2	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:152777850A>C	uc001fap.1	-	2	156	c.105T>G	c.(103-105)CCT>CCG	p.P35P		NM_178351	NP_848128	Q5T751	LCE1C_HUMAN	late cornified envelope 1C	35	Pro-rich.				keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GAGGGcacttagggggacact	0.428													56	94					0	0	0.01441	0	0		C	152777850	C	C	152777850	2	2	79	1	0	0	0	0	0	0	0	1	8677	407	15	5		5	LCE1C	1	152777850	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	650609	152777850	96472771	12	49922											
OR10T2	128360	broad.mit.edu	37	chr1	158368403	158368403	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactgtagacaagaggattaAgtaagggagtaaccactgtg	15	8	13	5	0	0	2	0	0	0	2	0	5	0	4	1	2	1	3	1	2	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:158368403A>C	uc010pih.1	-	1	854	c.854T>G	c.(853-855)CTT>CGT	p.L285R		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					AAGAGGATTAAGTAAGGGAGT	0.448													7	34					0	0	0.001984	0	0		C	158368403	C	C	158368403	3	2	79	1	0	0	0	0	1	0	0	0	10938	72	3	5	92	5	OR10T2	1	158368403	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	5590553	158368403	90882218	13	49923											
OR6Y1	391112	broad.mit.edu	37	chr1	158517216	158517216	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatcctgaggatggtggcaAggatagcagcgtaggatgcc	10	7	17	7	1	0	1	0	1	0	0	1	5	1	5	2	6	3	3	2	6	3	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:158517216A>C	uc010pil.1	-	1	680	c.680T>G	c.(679-681)CTT>CGT	p.L227R		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GATGGTGGCAAGGATAGCAGC	0.532													30	64					0	0	0.007291	0	0		C	158517216	C	C	158517216	3	2	79	1	0	0	0	0	1	0	0	0	11232	72	3	5	299	5	OR6Y1	1	158517216	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	148813	158517216	90733405	14	49924											
SPTA1	6708	broad.mit.edu	37	chr1	158590195	158590195	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgacaagttttcttccatcTtttcacaccagttgttcaaa	10	16	4	11	0	4	1	2	1	2	0	5	1	5	1	2	0	0	3	2	0	2	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:158590195T>G	uc001fst.1	-	44	6381	c.6182A>C	c.(6181-6183)AAG>ACG	p.K2061T		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2061	Spectrin 20.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TTCTTCCATCTTTTCACACCA	0.473													27	36					0	0	0.004656	0	0		G	158590195	G	G	158590195	3	3	79	1	0	0	0	0	1	0	0	0	15141	1609	56	5	1113	5	SPTA1	1	158590195	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	72979	158590195	90660426	15	49925											
CADM3	57863	broad.mit.edu	37	chr1	159163747	159163747	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggttacccgggaggatgAtggggcgagcatcgtgtgct	7	8	17	9	3	0	1	0	1	0	0	1	4	0	3	2	5	3	3	2	5	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:159163747A>G	uc001ftl.2	+	5	750	c.608A>G	c.(607-609)GAT>GGT	p.D203G	CADM3_uc009wsy.1_Intron|CADM3_uc001ftk.2_Missense_Mutation_p.D237G	NM_001127173	NP_001120645	Q8N126	CADM3_HUMAN	cell adhesion molecule 3 isoform 2	203	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|heterophilic cell-cell adhesion|homophilic cell adhesion	cell-cell junction|integral to membrane	protein homodimerization activity			ovary(2)	2	all_hematologic(112;0.0429)					CGGGAGGATGATGGGGCGAGC	0.502													29	48					0	0	0.008361	0	0		G	159163747	G	G	159163747	3	3	79	1	0	0	0	0	1	0	0	0	2571	333	12	3	732	3	CADM3	1	159163747	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	573552	159163747	90086874	16	49926											
CEP350	9857	broad.mit.edu	37	chr1	179965870	179965870	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgtcatcaatgatacagTtgttaggtttttaaatgatc	12	17	7	5	0	3	2	2	2	1	0	4	2	3	2	0	1	1	3	0	1	5	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:179965870T>G	uc001gnt.2	+	6	961	c.578T>G	c.(577-579)GTT>GGT	p.V193G	CEP350_uc001gnr.1_Missense_Mutation_p.V167G|CEP350_uc009wxl.2_Missense_Mutation_p.V192G|CEP350_uc001gnu.2_Missense_Mutation_p.V27G	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	193						centrosome|nucleus|spindle				ovary(4)	4						AATGATACAGTTGTTAGGTTT	0.408													10	13					0	0	0.008291	0	0		G	179965870	G	G	179965870	3	3	79	1	0	0	0	0	1	0	0	0	3257	1725	60	5	596	5	CEP350	1	179965870	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	20802123	179965870	69284751	17	49927											
CEP350	9857	broad.mit.edu	37	chr1	179972336	179972336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccttcagagaccaagattcGaacacctgatgggaaagtgt	13	8	10	10	1	1	3	1	1	0	2	2	6	1	4	3	1	1	0	3	1	3	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:179972336G>A	uc001gnt.2	+	7	1429	c.1046G>A	c.(1045-1047)CGA>CAA	p.R349Q	CEP350_uc009wxl.2_Missense_Mutation_p.R348Q|CEP350_uc001gnu.2_Missense_Mutation_p.R183Q	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	349						centrosome|nucleus|spindle				ovary(4)	4						ACCAAGATTCGAACACCTGAT	0.368													5	25					0	0	0.001984	0	0		A	179972336	A	A	179972336	3	1	79	1	0	0	0	0	1	0	0	0	3257	1058	37	1	1068	1	CEP350	1	179972336	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	6466	179972336	69278285	18	49928											
HMCN1	83872	broad.mit.edu	37	chr1	186106025	186106025	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttgaatgtgttgctcgaaActtaatgggttctgtccttg	8	17	10	6	1	1	1	0	1	1	0	3	2	2	1	1	1	2	3	1	1	3	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:186106025A>C	uc001grq.1	+	87	13767	c.13538A>C	c.(13537-13539)AAC>ACC	p.N4513T	HMCN1_uc001grs.1_Missense_Mutation_p.N82T	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4513	Ig-like C2-type 44.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GTTGCTCGAAACTTAATGGGT	0.423													44	89					0	0	0.009718	0	0		C	186106025	C	C	186106025	3	2	79	1	0	0	0	0	1	0	0	0	7236	43	2	5	13884	5	HMCN1	1	186106025	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	6133689	186106025	63144596	19	49929											
KCNT2	343450	broad.mit.edu	37	chr1	196459020	196459020	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactcggattatgtataataAgcagcttagtaatttgagag	14	14	9	4	1	0	1	0	1	0	1	1	3	0	2	0	1	3	4	0	1	7	8			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:196459020A>C	uc001gtd.1	-	3	283	c.223T>G	c.(223-225)TTA>GTA	p.L75V	KCNT2_uc001gte.1_Missense_Mutation_p.L75V|KCNT2_uc001gtf.1_Missense_Mutation_p.L75V|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.L75V|KCNT2_uc009wyv.1_Missense_Mutation_p.L75V	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	75	Helical; Name=Segment S1; (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						ATGTATAATAAGCAGCTTAGT	0.303													20	55					0	0	0.010504	0	0		C	196459020	C	C	196459020	3	2	79	1	0	0	0	0	1	0	0	0	8108	69	3	5	3288	5	KCNT2	1	196459020	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	10352995	196459020	52791601	20	49930											
CFHR5	81494	broad.mit.edu	37	chr1	196967334	196967334	+	Silent	SNP	T	C	C																															aagctatctgggaaagaattTaatcataattctagaatacg																										TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:196967334T>C	uc001gts.3	+	7	1175	c.1047T>C	c.(1045-1047)TTT>TTC	p.F349F		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	349	Sushi 6.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						GGAAAGAATTTAATCATAATT	0.333													9	10					0	0	0.004482	0	0		C	196967334	C	C	196967334	2	2	79	1	0	0	0	0	0	0	0	1	3291	1751	61	3		3	CFHR5	1	196967334	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	508314	196967334	52283287	21	49931	94	2									
CFHR5	81494	broad.mit.edu	37	chr1	196967340	196967340	+	Missense_Mutation	SNP	T	G	G																															tctgggaaagaatttaatcaTaattctagaatacgttacag																										TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:196967340T>G	uc001gts.3	+	7	1181	c.1053T>G	c.(1051-1053)CAT>CAG	p.H351Q		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	351	Sushi 6.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						AATTTAATCATAATTCTAGAA	0.338													10	12					0	0	0.008291	0	0		G	196967340	G	G	196967340	3	3	79	1	0	0	0	0	1	0	0	0	3291	1403	49	5	1079	5	CFHR5	1	196967340	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	6	196967340	52283281	22	49932	94	2									
CRB1	23418	broad.mit.edu	37	chr1	197390679	197390679	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatttcgtggaggtaatatTtgcagaggctgtgaccctta	9	13	12	7	1	0	2	0	1	0	1	1	3	0	3	1	3	1	4	1	3	3	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:197390679T>G	uc001gtz.2	+	6	1856	c.1721T>G	c.(1720-1722)TTT>TGT	p.F574C	CRB1_uc010poz.1_Missense_Mutation_p.F505C|CRB1_uc010ppa.1_Intron|CRB1_uc009wza.2_Missense_Mutation_p.F462C|CRB1_uc010ppb.1_Missense_Mutation_p.F574C|CRB1_uc010ppc.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.F55C|CRB1_uc001gub.1_Missense_Mutation_p.F223C	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	574	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						GAGGTAATATTTGCAGAGGCT	0.433													43	81					0	0	0.013114	0	0		G	197390679	G	G	197390679	3	3	79	1	0	0	0	0	1	0	0	0	3851	1841	64	5	1743	5	CRB1	1	197390679	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	423339	197390679	51859942	23	49933											
USH2A	7399	broad.mit.edu	37	chr1	216258109	216258109	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagctgttatacacgttgaTttgttcttcagaactctgcc	8	15	7	11	1	3	2	1	1	2	1	3	2	3	2	2	0	4	4	2	0	3	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:216258109T>G	uc001hku.1	-	25	5485	c.5098A>C	c.(5098-5100)ATC>CTC	p.I1700L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1700	Laminin G-like 1.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TACACGTTGATTTGTTCTTCA	0.428										HNSCC(13;0.011)			36	73					0	0	0.004289	0	0		G	216258109	G	G	216258109	3	3	79	1	0	0	0	0	1	0	0	0	17062	1493	52	5	10702	5	USH2A	1	216258109	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	18867430	216258109	32992512	24	49934											
PCNXL2	80003	broad.mit.edu	37	chr1	233134183	233134183	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcattgcaatccttccgcaTcctgtgggagggagaagtcc	8	9	13	11	1	0	1	0	0	0	1	4	3	4	2	4	3	1	3	4	3	2	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:233134183T>A	uc001hvl.2	-	32	5840	c.5605A>T	c.(5605-5607)ATG>TTG	p.M1869L	PCNXL2_uc001hvk.1_Missense_Mutation_p.M521L|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1869						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				TCCTTCCGCATCCTGTGGGAG	0.582													25	55					0	0	0.005443	0	0		A	233134183	A	A	233134183	3	1	79	1	0	0	0	0	1	0	0	0	11611	1449	50	5	820	5	PCNXL2	1	233134183	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	16876074	233134183	16116438	25	49935											
LYST	1130	broad.mit.edu	37	chr1	235904748	235904748	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatgggctgagacagtctcGtagtatttcctgatgatttg	8	14	13	6	1	1	3	0	3	1	1	3	5	2	4	1	2	0	3	1	2	2	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:235904748G>A	uc001hxj.2	-	31	8507	c.8332C>T	c.(8332-8334)CGA>TGA	p.R2778*	LYST_uc009xga.1_Nonsense_Mutation_p.R414*	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2778					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			AGACAGTCTCGTAGTATTTCC	0.388									Chediak-Higashi_syndrome				35	69					0	0	0.003755	0	0		A	235904748	A	A	235904748	4	1	79	1	0	0	0	0	0	1	0	0	9146	1153	40	1	3165	1	LYST	1	235904748	Nonsense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	2770565	235904748	13345873	26	49936											
MTR	4548	broad.mit.edu	37	chr1	237049613	237049613	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggagatacttacccttaAgtcaagccagaaaaagtggt	16	8	10	7	0	1	3	1	0	0	3	1	4	1	3	2	2	3	0	2	2	6	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:237049613A>C	uc001hyi.3	+	27	3220	c.2797A>C	c.(2797-2799)AGT>CGT	p.S933R	MTR_uc010pxw.1_Missense_Mutation_p.S526R|MTR_uc010pxx.1_Missense_Mutation_p.S882R|MTR_uc010pxy.1_Missense_Mutation_p.S787R	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	933	AdoMet activation.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	CTTACCCTTAAGTCAAGCCAG	0.413													11	24					0	0	0.010729	0	0		C	237049613	C	C	237049613	3	2	79	1	0	0	0	0	1	0	0	0	9976	72	3	5	2903	5	MTR	1	237049613	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1144865	237049613	12201008	27	49937											
FMN2	56776	broad.mit.edu	37	chr1	240374532	240374532	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctcaaagacgaaggctaaAcaagtgagtatttttgtgct	14	12	9	6	1	1	2	1	1	1	1	2	3	1	2	0	1	2	3	0	1	6	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:240374532A>C	uc010pyd.1	+	6	4287	c.4062A>C	c.(4060-4062)AAA>AAC	p.K1354N	FMN2_uc010pye.1_Missense_Mutation_p.K1358N	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1354	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CGAAGGCTAAACAAGTGAGTA	0.338													16	39					0	0	0.004007	0	0		C	240374532	C	C	240374532	3	2	79	1	0	0	0	0	1	0	0	0	5964	40	2	5	4084	5	FMN2	1	240374532	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	3324919	240374532	8876089	28	49938											
OR2L2	26246	broad.mit.edu	37	chr1	248202142	248202142	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgctagcctgcacagacacTtgggtctatgagagcacagt	11	8	11	11	1	1	2	0	1	1	2	1	3	1	2	1	1	3	3	1	1	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:248202142T>C	uc001idw.2	+	1	669	c.573T>C	c.(571-573)ACT>ACC	p.T191T	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			GCACAGACACTTGGGTCTATG	0.458													73	168					0	0	0.01441	0	0		C	248202142	C	C	248202142	2	2	79	1	0	0	0	0	0	0	0	1	11026	1596	56	3		3	OR2L2	1	248202142	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	7827610	248202142	1048479	29	49939											
OR2T5	401993	broad.mit.edu	37	chr1	248651944	248651944	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagttggatttcatcctcAtgggactcttcagacgatcc	10	12	9	10	1	4	1	3	0	1	1	6	5	6	3	2	2	0	1	2	2	1	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr1:248651944A>C	uc001iem.1	+	1	55	c.55A>C	c.(55-57)ATG>CTG	p.M19L		NM_001004697	NP_001004697	Q6IEZ7	OR2T5_HUMAN	olfactory receptor, family 2, subfamily T,	19	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTTCATCCTCATGGGACTCTT	0.483													14	67					0	0	0.00278	0	0		C	248651944	C	C	248651944	3	2	79	1	0	0	0	0	1	0	0	0	11047	217	8	5	57	5	OR2T5	1	248651944	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	449802	248651944	598677	30	49940											
SOCS5	9655	broad.mit.edu	37	chr2	46986226	46986226	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggttgcaggatactgtggGcttgtgttttcccatgagaa	8	13	14	6	0	0	1	0	1	0	1	1	4	1	2	1	3	2	4	1	3	2	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:46986226G>T	uc002rvf.2	+	2	721	c.557G>T	c.(556-558)GGC>GTC	p.G186V	SOCS5_uc010yoe.1_Missense_Mutation_p.G155V|SOCS5_uc002rvg.2_Missense_Mutation_p.G186V	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	186					cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			GATACTGTGGGCTTGTGTTTT	0.453													17	88					4.7546e-09	4.90952e-09	0.004007	1	0		T	46986226	T	T	46986226	3	4	79	1	0	0	0	0	1	0	0	0	14942	1203	42	5	559	5	SOCS5	2	46986226	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08		46986226	196213147	31	49941											
FSHR	2492	broad.mit.edu	37	chr2	49191060	49191060	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctgagtcatataatcaacTtcttgccttaaaatagattt	13	15	5	8	0	3	2	2	1	1	1	3	2	3	2	2	0	2	0	2	0	6	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:49191060T>G	uc002rww.2	-	10	974	c.900A>C	c.(898-900)GAA>GAC	p.E300D	FSHR_uc002rwx.2_Missense_Mutation_p.E238D|FSHR_uc010fbn.2_Missense_Mutation_p.E274D	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	300	Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	TATAATCAACTTCTTGCCTTA	0.388									Gonadal_Dysgenesis_46_XX				27	123					0	0	0.007291	0	0		G	49191060	G	G	49191060	3	3	79	1	0	0	0	0	1	0	0	0	6087	1606	56	5	1191	5	FSHR	2	49191060	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2204834	49191060	194008313	32	49942											
NRXN1	9378	broad.mit.edu	37	chr2	50779932	50779932	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcttgccatggctaaataAgatgaggccatttggctctg	9	12	12	8	0	1	2	0	1	1	1	1	2	1	2	2	4	1	3	2	4	3	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:50779932A>C	uc010fbq.2	-	9	3149	c.1672T>G	c.(1672-1674)TTA>GTA	p.L558V	NRXN1_uc002rxb.3_Missense_Mutation_p.L190V|NRXN1_uc002rxe.3_Missense_Mutation_p.L518V|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TGGCTAAATAAGATGAGGCCA	0.433													16	75					0	0	0.00499	0	0		C	50779932	C	C	50779932	3	2	79	1	0	0	0	0	1	0	0	0	10684	69	3	5	3294	5	NRXN1	2	50779932	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1588872	50779932	192419441	33	49943											
AFTPH	54812	broad.mit.edu	37	chr2	64779733	64779733	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatggattctgttaaaacTtctgatgatgaagttggttc	10	16	10	5	0	2	3	0	3	2	0	3	4	2	4	0	2	2	4	0	2	3	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:64779733T>A	uc002sdc.2	+	1	1157	c.1125T>A	c.(1123-1125)ACT>ACA	p.T375T	AFTPH_uc002scz.2_Silent_p.T375T|AFTPH_uc002sda.2_Silent_p.T375T|AFTPH_uc002sdb.2_Silent_p.T375T	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	375					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						CTGTTAAAACTTCTGATGATG	0.343													24	60					0	0	0.00278	0	0		A	64779733	A	A	64779733	2	1	79	1	0	0	0	0	0	0	0	1	364	1596	56	5		5	AFTPH	2	64779733	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	13999801	64779733	178419640	34	49944											
MEIS1	4211	broad.mit.edu	37	chr2	66796234	66796234	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggaggggcagtggcactaCatgtaaccttcatctagtta	11	11	11	8	0	2	0	1	0	1	0	2	1	2	1	1	4	2	4	1	4	4	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:66796234C>T	uc002sdu.2	+	12	1624	c.1167C>T	c.(1165-1167)TAC>TAT	p.Y389Y	MEIS1_uc002sdt.2_3'UTR|MEIS1_uc002sdv.2_Intron|MEIS1_uc010yqh.1_Intron|MEIS1_uc010yqi.1_Silent_p.Y324Y|MEIS1_uc002sdw.1_Silent_p.Y245Y	NM_002398	NP_002389	O00470	MEIS1_HUMAN	Meis homeobox 1	389	Required for transcriptional activation (By similarity).						sequence-specific DNA binding transcription factor activity				0						AGTGGCACTACATGTAACCTT	0.433													47	124					0	0	0.01441	0	0		T	66796234	T	T	66796234	2	4	79	1	0	0	0	0	0	0	0	1	9485	489	17	4		4	MEIS1	2	66796234	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	2016501	66796234	176403139	35	49945											
SULT1C3	442038	broad.mit.edu	37	chr2	108872118	108872118	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatgcctgatcctcagaacTtagaggaattttatgagaaa	14	13	8	6	0	1	4	1	2	0	3	2	6	2	5	2	1	2	0	2	1	6	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:108872118T>G	uc010ywo.1	+	4	490	c.490T>G	c.(490-492)TTA>GTA	p.L164V		NM_001008743	NP_001008743	Q6IMI6	ST1C3_HUMAN	sulfotransferase family, cytosolic, 1C, member	164						cytoplasm	alcohol sulfotransferase activity			skin(1)	1						TCCTCAGAACTTAGAGGAATT	0.418													16	61					0	0	0.003163	0	0		G	108872118	G	G	108872118	3	3	79	1	0	0	0	0	1	0	0	0	15403	1606	56	5	504	5	SULT1C3	2	108872118	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	42075884	108872118	134327255	36	49946											
MYO7B	4648	broad.mit.edu	37	chr2	128366344	128366344	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctctccctgccaagaagcGcagatccatctacgacaccg	10	6	8	17	4	2	2	0	0	2	2	4	3	3	2	4	0	3	2	4	0	3	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:128366344G>A	uc002top.2	+	22	2758	c.2705G>A	c.(2704-2706)CGC>CAC	p.R902H		NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	902						apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GCCAAGAAGCGCAGATCCATC	0.657													11	28					0	0	0.008291	0	0		A	128366344	A	A	128366344	3	1	79	1	0	0	0	0	1	0	0	0	10101	1087	38	1	2787	1	MYO7B	2	128366344	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	19494226	128366344	114833029	37	49947											
ZRANB3	84083	broad.mit.edu	37	chr2	136023244	136023244	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaccgttcagtgtgctccCtgtaacttgagcctacaaga	9	11	8	13	1	1	2	1	1	0	1	2	2	2	2	4	0	5	3	4	0	4	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:136023244C>G	uc002tum.2	-	12	1516	c.1399G>C	c.(1399-1401)GGG>CGG	p.G467R	ZRANB3_uc002tuk.2_Missense_Mutation_p.G10R|ZRANB3_uc002tul.2_Missense_Mutation_p.G467R	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	467	Helicase C-terminal.					intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		AGTGTGCTCCCTGTAACTTGA	0.383													5	26					0	0	0.000602	0	0		G	136023244	G	G	136023244	3	3	79	1	0	0	0	0	1	0	0	0	18249	681	24	5	1880	5	ZRANB3	2	136023244	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	7656900	136023244	107176129	38	49948											
LRP1B	53353	broad.mit.edu	37	chr2	141200150	141200150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttggaaatgcaatgcttcGtagtcttacactggaaatag	12	12	10	7	1	1	0	0	0	1	0	2	2	1	2	0	2	3	4	0	2	6	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:141200150G>A	uc002tvj.1	-	66	11309	c.10337C>T	c.(10336-10338)ACG>ATG	p.T3446M		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3446	Extracellular (Potential).|LDL-receptor class A 24.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GCAATGCTTCGTAGTCTTACA	0.428										TSP Lung(27;0.18)			33	55					0	0	0.003755	0	0		A	141200150	A	A	141200150	3	1	79	1	0	0	0	0	1	0	0	0	8973	1145	40	1	3566	1	LRP1B	2	141200150	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	5176906	141200150	101999223	39	49949											
GTDC1	79712	broad.mit.edu	37	chr2	144764977	144764977	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacactctgaattaaaattcTtcaataaatcctctgaatct	15	14	2	10	0	5	2	1	2	4	0	6	2	6	2	1	0	0	0	1	0	7	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:144764977T>G	uc002tvp.2	-	7	926	c.647A>C	c.(646-648)AAG>ACG	p.K216T	GTDC1_uc002tvo.2_Missense_Mutation_p.K216T|GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Missense_Mutation_p.K216T|GTDC1_uc010fnn.2_Missense_Mutation_p.K216T|GTDC1_uc002tvs.2_Missense_Mutation_p.K184T|GTDC1_uc010fno.2_Missense_Mutation_p.K87T|GTDC1_uc002tvt.1_Missense_Mutation_p.K216T	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	216					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		ATTAAAATTCTTCAATAAATC	0.418													6	64					0	0	0.001984	0	0		G	144764977	G	G	144764977	3	3	79	1	0	0	0	0	1	0	0	0	6867	1609	56	5	753	5	GTDC1	2	144764977	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	3564827	144764977	98434396	40	49950											
KCNJ3	3760	broad.mit.edu	37	chr2	155555450	155555450	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaagaacggccggtgcaatGtacagcacggcaacctgggc	12	4	13	12	3	0	1	0	0	0	1	0	1	0	1	2	4	5	4	2	4	5	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:155555450G>C	uc002tyv.1	+	1	358	c.163G>C	c.(163-165)GTA>CTA	p.V55L	KCNJ3_uc010zce.1_Missense_Mutation_p.V55L	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	55	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	CCGGTGCAATGTACAGCACGG	0.627													17	50					0	0	0.004007	0	0		C	155555450	C	C	155555450	3	2	79	1	0	0	0	0	1	0	0	0	8068	1377	48	5	165	5	KCNJ3	2	155555450	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	10790473	155555450	87643923	41	49951											
SLC4A10	57282	broad.mit.edu	37	chr2	162815046	162815046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttctttatatgggtgcttCatctctaaagggaattcagg	9	16	10	6	0	4	0	2	0	2	0	5	1	4	1	0	3	1	2	0	3	5	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:162815046C>T	uc002ubx.3	+	21	3027	c.2843C>T	c.(2842-2844)TCA>TTA	p.S948L	SLC4A10_uc002uby.3_Missense_Mutation_p.S918L|SLC4A10_uc010zcs.1_Missense_Mutation_p.S929L	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	948	Helical; (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						ATGGGTGCTTCATCTCTAAAG	0.368													5	22					0	0	0.000602	0	0		T	162815046	T	T	162815046	3	4	79	1	0	0	0	0	1	0	0	0	14676	838	29	4	3010	4	SLC4A10	2	162815046	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	7259596	162815046	80384327	42	49952											
SCN9A	6335	broad.mit.edu	37	chr2	167141153	167141153	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttactgctgcgtcgctccTggggtctgtggggcacaaac	5	11	14	11	2	1	0	0	0	1	0	3	0	2	0	1	4	4	4	1	4	2	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:167141153T>C	uc010fpl.2	-	12	2125	c.1784A>G	c.(1783-1785)CAG>CGG	p.Q595R	uc002udp.2_Intron|SCN9A_uc002udr.1_Missense_Mutation_p.Q466R|SCN9A_uc002uds.1_Missense_Mutation_p.Q466R|SCN9A_uc002udt.1_Missense_Mutation_p.Q466R	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	595						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GCGTCGCTCCTGGGGTCTGTG	0.537													13	86					0	0	0.00245	0	0		C	167141153	C	C	167141153	3	2	79	1	0	0	0	0	1	0	0	0	13950	1580	55	3	4213	3	SCN9A	2	167141153	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	4326107	167141153	76058220	43	49953											
TTN	7273	broad.mit.edu	37	chr2	179485466	179485466	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactattagattggctgcacTtttaacattttcacctctgt	9	18	5	9	0	2	1	1	0	1	1	2	1	2	1	1	1	3	2	1	1	4	8			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:179485466T>G	uc010zfg.1	-	196	38391	c.38167A>C	c.(38167-38169)AGT>CGT	p.S12723R	TTN_uc010zfh.1_Missense_Mutation_p.S6418R|TTN_uc010zfi.1_Missense_Mutation_p.S6351R|TTN_uc010zfj.1_Missense_Mutation_p.S6226R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13650							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGGCTGCACTTTTAACATTT	0.313													24	110					0	0	0.00333	0	0		G	179485466	G	G	179485466	3	3	79	1	0	0	0	0	1	0	0	0	16761	1609	56	5	62286	5	TTN	2	179485466	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	12344313	179485466	63713907	44	49954											
TTN	7273	broad.mit.edu	37	chr2	179603061	179603061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtgctacttccaggggttCgattttcctcttgatcactg	6	15	9	11	1	2	1	1	1	1	0	5	2	4	1	2	2	2	2	2	2	1	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:179603061C>T	uc010zfg.1	-	46	10611	c.10387G>A	c.(10387-10389)GAA>AAA	p.E3463K	TTN_uc010zfh.1_Missense_Mutation_p.E4536K|TTN_uc010zfi.1_Missense_Mutation_p.E4469K|TTN_uc010zfj.1_Missense_Mutation_p.E4344K|TTN_uc002umz.1_Missense_Mutation_p.E124K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4390							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCCAGGGGTTCGATTTTCCTC	0.463													19	21					0	0	0.008871	0	0		T	179603061	T	T	179603061	3	4	79	1	0	0	0	0	1	0	0	0	16761	893	31	1	90666	1	TTN	2	179603061	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	117595	179603061	63596312	45	49955											
TTN	7273	broad.mit.edu	37	chr2	179615852	179615852	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatgatctaccttataacTttcagctagatcagacatag	14	13	6	8	0	3	4	2	2	1	2	3	4	3	4	1	0	3	1	1	0	6	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:179615852T>A	uc002unb.2	-	46	11499	c.11275A>T	c.(11275-11277)AGT>TGT	p.S3759C	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACCTTATAACTTTCAGCTAGA	0.358													16	48					0	0	0.00499	0	0		A	179615852	A	A	179615852	3	1	79	1	0	0	0	0	1	0	0	0	16761	1609	56	5	99022	5	TTN	2	179615852	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	12791	179615852	63583521	46	49956											
ITGA4	3676	broad.mit.edu	37	chr2	182374426	182374426	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccaattcagattgaagcTgcttaccaccttggtcctca	10	11	6	14	0	2	2	2	1	0	1	3	2	3	2	5	1	3	2	5	1	3	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:182374426T>C	uc002unu.2	+	16	2500	c.1737T>C	c.(1735-1737)GCT>GCC	p.A579A	ITGA4_uc010frj.1_Silent_p.A61A	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	579	Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	AGATTGAAGCTGCTTACCACC	0.383													33	40					0	0	0.013726	0	0		C	182374426	C	C	182374426	2	2	79	1	0	0	0	0	0	0	0	1	7894	1567	55	3		3	ITGA4	2	182374426	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2758574	182374426	60824947	47	49957											
ZSWIM2	151112	broad.mit.edu	37	chr2	187692958	187692958	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtcttctttaggttgtggTtattacatttacagcctttg	7	19	9	6	0	2	0	0	0	2	0	2	1	2	0	1	2	3	2	1	2	4	9			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:187692958T>G	uc002upu.1	-	9	1695	c.1655A>C	c.(1654-1656)AAC>ACC	p.N552T		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	552					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			TAGGTTGTGGTTATTACATTT	0.393													8	32					0	0	0.004482	0	0		G	187692958	G	G	187692958	3	3	79	1	0	0	0	0	1	0	0	0	18266	1725	60	5	250	5	ZSWIM2	2	187692958	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	5318532	187692958	55506415	48	49958											
ERBB4	2066	broad.mit.edu	37	chr2	212248779	212248779	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctcctccactggattcAggtattctaaaggaataaaa	13	12	8	8	0	3	0	1	0	2	0	5	2	4	2	2	4	0	2	2	4	6	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:212248779A>G	uc002veg.1	-	28	3586	c.3488T>C	c.(3487-3489)CTG>CCG	p.L1163P	ERBB4_uc002veh.1_Missense_Mutation_p.L1147P|ERBB4_uc010zji.1_Missense_Mutation_p.L1153P|ERBB4_uc010zjj.1_Missense_Mutation_p.L1137P	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1163	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CACTGGATTCAGGTATTCTAA	0.373										TSP Lung(8;0.080)			13	69					0	0	0.013537	0	0		G	212248779	G	G	212248779	3	3	79	1	0	0	0	0	1	0	0	0	5217	188	7	3	442	3	ERBB4	2	212248779	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	24555821	212248779	30950594	49	49959											
ABCA12	26154	broad.mit.edu	37	chr2	215855595	215855595	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaccgagaagctgtagtccGaaaaatacaggaacaaaatg	19	6	9	7	2	0	1	0	0	0	1	1	4	1	2	2	1	4	2	2	1	9	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:215855595G>A	uc002vew.2	-	24	3675	c.3455C>T	c.(3454-3456)TCG>TTG	p.S1152L	ABCA12_uc002vev.2_Missense_Mutation_p.S834L|ABCA12_uc010zjn.1_Missense_Mutation_p.S79L	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1152	Helical; (Potential).				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GCTGTAGTCCGAAAAATACAG	0.388													36	51					0	0	0.003271	0	0		A	215855595	A	A	215855595	3	1	79	1	0	0	0	0	1	0	0	0	30	1059	37	1	4452	1	ABCA12	2	215855595	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	3606816	215855595	27343778	50	49960											
SPHKAP	80309	broad.mit.edu	37	chr2	228884001	228884001	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggggaaagttcgagaccacTtgctccattttgagtctttc	8	13	11	9	1	1	2	0	1	1	1	4	4	2	3	2	2	1	2	2	2	1	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:228884001T>G	uc002vpq.2	-	7	1616	c.1569A>C	c.(1567-1569)CAA>CAC	p.Q523H	SPHKAP_uc002vpp.2_Missense_Mutation_p.Q523H|SPHKAP_uc010zlx.1_Missense_Mutation_p.Q523H	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	523						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TCGAGACCACTTGCTCCATTT	0.512													24	81					0	0	0.014323	0	0		G	228884001	G	G	228884001	3	3	79	1	0	0	0	0	1	0	0	0	15073	1606	56	5	3557	5	SPHKAP	2	228884001	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	13028406	228884001	14315372	51	49961											
SP140	11262	broad.mit.edu	37	chr2	231157373	231157373	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttacaggaatcttggtgaAgtgtatacagactgaggatg	12	12	12	5	0	2	3	0	2	2	1	2	5	2	5	0	3	2	1	0	3	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr2:231157373A>C	uc002vql.2	+	20	1953	c.1838A>C	c.(1837-1839)AAG>ACG	p.K613T	SP140_uc010zma.1_RNA|SP140_uc002vqn.2_Missense_Mutation_p.K499T|SP140_uc002vqm.2_Missense_Mutation_p.K553T|SP140_uc010fxl.2_Missense_Mutation_p.K586T	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	613	SAND.				defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		ATCTTGGTGAAGTGTATACAG	0.498													30	82					0	0	0.008361	0	0		C	231157373	C	C	231157373	3	2	79	1	0	0	0	0	1	0	0	0	14987	72	3	5	2033	5	SP140	2	231157373	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	2273372	231157373	12042000	52	49962											
C3orf20	84077	broad.mit.edu	37	chr3	14803068	14803068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgaaacagatcttccGgtctcaacaggattacaaga	13	10	8	10	1	3	3	1	1	3	2	5	4	4	4	1	2	4	1	1	2	4	2	rs140063791	byFrequency	TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:14803068G>A	uc003byy.2	+	15	2845	c.2441G>A	c.(2440-2442)CGG>CAG	p.R814Q	C3orf20_uc003byz.2_Missense_Mutation_p.R692Q|C3orf20_uc003bza.2_Missense_Mutation_p.R692Q|C3orf20_uc003bzb.1_Missense_Mutation_p.R315Q|C3orf20_uc011avj.1_Missense_Mutation_p.R141Q	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	814						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						CAGATCTTCCGGTCTCAACAG	0.502													20	60					0	0	0.008871	0	0		A	14803068	A	A	14803068	3	1	79	1	0	0	0	0	1	0	0	0	2216	1116	39	1	2491	1	C3orf20	3	14803068	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08		14803068	183219362	53	49963											
SH3BP5	9467	broad.mit.edu	37	chr3	15300337	15300337	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccagtggagcccctgacttaCcagaaatggcatcaggctca	11	7	10	13	0	2	2	2	1	0	1	2	3	2	3	4	3	2	2	4	3	2	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:15300337C>T	uc003bzp.1	-	7	1078	c.889_splice	c.e7+1	p.V297_splice	SH3BP5_uc010hem.1_Splice_Site|SH3BP5_uc003bzq.1_Splice_Site_p.V140_splice|SH3BP5_uc003bzr.1_Splice_Site_p.V140_splice|uc003bzo.1_RNA	NM_004844	NP_004835	O60239	3BP5_HUMAN	SH3-domain binding protein 5 (BTK-associated)						intracellular signal transduction	mitochondrion	protein kinase inhibitor activity|SH3 domain binding				0						CCCTGACTTACCAGAAATGGC	0.557													31	30					0	0	0.009535	0	0		T	15300337	T	T	15300337	5	4	79	1	0	0	0	0	0	0	1	0	14272	521	18	4	489	4	SH3BP5	3	15300337	Splice_Site	SNP	C	TCGA-BR-8485-01A-11D-2394-08	497269	15300337	182722093	54	49964											
ZCWPW2	152098	broad.mit.edu	37	chr3	28566074	28566074	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtttgaaaaccactatgaAgaggactatcttgtaattga	14	13	8	6	0	1	4	0	3	1	1	1	5	1	5	1	1	1	2	1	1	6	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:28566074A>G	uc003ceh.2	+	10	1134	c.966A>G	c.(964-966)GAA>GAG	p.E322E	ZCWPW2_uc003cei.2_Silent_p.E322E|ZCWPW2_uc010hfo.2_Silent_p.E127E	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	322							zinc ion binding			ovary(2)	2						ACCACTATGAAGAGGACTATC	0.333													20	71					0	0	0.012319	0	0		G	28566074	G	G	28566074	2	3	79	1	0	0	0	0	0	0	0	1	17623	69	3	3		3	ZCWPW2	3	28566074	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	13265737	28566074	169456356	55	49965											
ACVR2B	93	broad.mit.edu	37	chr3	38524780	38524780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctcgtttccctggtgacctCtgtcaccaatgtggacctgc	5	13	9	14	1	3	1	1	1	2	0	5	2	4	2	4	2	1	1	4	2	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:38524780C>T	uc003cif.2	+	11	1520	c.1496C>T	c.(1495-1497)TCT>TTT	p.S499F	ACVR2B_uc003cig.2_Missense_Mutation_p.S290F	NM_001106	NP_001097	Q13705	AVR2B_HUMAN	activin A receptor, type IIB precursor	499	Cytoplasmic (Potential).				activin receptor signaling pathway|anterior/posterior pattern formation|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|regulation of transcription, DNA-dependent	cell surface|cytoplasm|integral to plasma membrane	activin receptor activity|ATP binding|growth factor binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)		CTGGTGACCTCTGTCACCAAT	0.552													20	73					0	0	0.010504	0	0		T	38524780	T	T	38524780	3	4	79	1	0	0	0	0	1	0	0	0	224	913	32	4	1538	4	ACVR2B	3	38524780	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	9958706	38524780	159497650	56	49966											
CNTN3	5067	broad.mit.edu	37	chr3	74350898	74350898	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaccttctttccaagagagTtgggctgttgtgtctgtaat	7	17	10	7	0	2	1	0	0	2	1	3	2	3	1	2	1	1	4	2	1	3	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:74350898T>C	uc003dpm.1	-	14	1925	c.1845A>G	c.(1843-1845)CAA>CAG	p.Q615Q		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	615	Fibronectin type-III 1.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		TCCAAGAGAGTTGGGCTGTTG	0.453													9	40					0	0	0.006214	0	0		C	74350898	C	C	74350898	2	2	79	1	0	0	0	0	0	0	0	1	3645	1722	60	3		3	CNTN3	3	74350898	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	35826118	74350898	123671532	57	49967											
EPHA6	285220	broad.mit.edu	37	chr3	96706694	96706694	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttgattcctcctctttggTtgaagtacggggttcttgtg	4	17	13	7	1	2	2	0	2	2	0	4	2	4	2	2	4	1	4	2	4	2	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:96706694T>A	uc010how.1	+	3	1014	c.971T>A	c.(970-972)GTT>GAT	p.V324D	EPHA6_uc003drp.1_Missense_Mutation_p.V324D	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	229	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						TCCTCTTTGGTTGAAGTACGG	0.478													37	91					0	0	0.004878	0	0		A	96706694	A	A	96706694	3	1	79	1	0	0	0	0	1	0	0	0	5179	1725	60	5	981	5	EPHA6	3	96706694	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	22355796	96706694	101315736	58	49968											
OR5H15	403274	broad.mit.edu	37	chr3	97887637	97887637	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacccctgttcttggcattcTtggtaatatatctcatcacc	8	16	5	12	0	4	0	2	0	3	0	5	0	4	0	3	2	1	3	3	2	4	8			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:97887637T>G	uc011bgu.1	+	1	94	c.94T>G	c.(94-96)TTG>GTG	p.L32V		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CTTGGCATTCTTGGTAATATA	0.418													55	145					0	0	0.01441	0	0		G	97887637	G	G	97887637	3	3	79	1	0	0	0	0	1	0	0	0	11180	1606	56	5	96	5	OR5H15	3	97887637	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	1180943	97887637	100134793	59	49969											
IFT57	55081	broad.mit.edu	37	chr3	107910459	107910460	+	Frame_Shift_Del	DEL	AT	-	-																															catctgttgtggattccaaaAtatcttcttgtttggcagtc																										TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:107910459_107910460delAT	uc003dwx.3	-	6	933_934	c.685_686delAT	c.(685-687)ATTfs	p.I229fs		NM_018010	NP_060480	Q9NWB7	IFT57_HUMAN	estrogen-related receptor beta like 1	229					activation of caspase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cilium|microtubule basal body	DNA binding|protein binding			ovary(1)|skin(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(3;0.0428)|Epithelial(53;0.246)			GGATTCCAAAATATCTTCTTGT	0.371													19	29	---	---	---	---						.	-	107910460	-	-	107910459	7	5	79	1	0	1	0	1	0	0	0	0	7578	101	4	0	627	0	IFT57	3	107910459	Frame_Shift_Del	DEL	AT	TCGA-BR-8485-01A-11D-2394-08	10022822	107910459	90111971	60	49970											
ZBED2	79413	broad.mit.edu	37	chr3	111312683	111312683	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgtggggccttggatcCtggcgctgcccagcctgacc	3	7	15	16	2	0	1	0	1	0	0	1	2	1	2	6	5	2	1	6	5	0	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:111312683C>T	uc003dxy.2	-	2	1251	c.366G>A	c.(364-366)CAG>CAA	p.Q122Q	CD96_uc003dxv.2_Intron|CD96_uc003dxw.2_Intron|CD96_uc003dxx.2_Intron|CD96_uc010hpy.1_Intron	NM_024508	NP_078784	Q9BTP6	ZBED2_HUMAN	zinc finger, BED domain containing 2	122							DNA binding|metal ion binding			skin(1)	1						GCCTTGGATCCTGGCGCTGCC	0.627													8	108					0	0	0.004482	0	0		T	111312683	T	T	111312683	2	4	79	1	0	0	0	0	0	0	0	1	17544	680	24	4		4	ZBED2	3	111312683	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	3402224	111312683	86709747	61	49971											
SLCO2A1	6578	broad.mit.edu	37	chr3	133748643	133748643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccgagcttgggcaggagccCcatggctgcgggcggctggc	4	5	19	13	3	0	0	0	0	0	0	0	2	0	1	3	6	3	4	3	6	0	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:133748643C>T	uc003eqa.3	-	1	278	c.4G>A	c.(4-6)GGG>AGG	p.G2R	SLCO2A1_uc003eqb.3_Missense_Mutation_p.G2R|SLCO2A1_uc011blv.1_Missense_Mutation_p.G2R|SLCO2A1_uc010htw.1_5'UTR	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	2	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						GGCAGGAGCCCCATGGCTGCG	0.766													3	6					0	0	0.004672	0	0		T	133748643	T	T	133748643	3	4	79	1	0	0	0	0	1	0	0	0	14751	623	22	4	1983	4	SLCO2A1	3	133748643	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	22435960	133748643	64273787	62	49972											
SLITRK3	22865	broad.mit.edu	37	chr3	164905856	164905856	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgctgtaagtctgggtaTtgcatgccaggagggtgcac	7	11	14	9	0	1	0	0	0	1	0	2	1	2	1	2	3	4	5	2	3	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:164905856T>C	uc003fej.3	-	2	3207	c.2763A>G	c.(2761-2763)CAA>CAG	p.Q921Q	SLITRK3_uc003fek.2_Silent_p.Q921Q	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	921	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						AGTCTGGGTATTGCATGCCAG	0.527										HNSCC(40;0.11)			42	68					0	0	0.006999	0	0		C	164905856	C	C	164905856	2	2	79	1	0	0	0	0	0	0	0	1	14769	1490	52	3		3	SLITRK3	3	164905856	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	31157213	164905856	33116574	63	49973											
OSTN	344901	broad.mit.edu	37	chr3	190936627	190936627	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacagcaaaactcttgcttcTtgatgaattggtgtccctag	10	13	9	9	0	2	2	0	2	2	0	3	3	3	2	1	1	3	2	1	1	4	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:190936627T>G	uc011bsn.1	+	2	194	c.194T>G	c.(193-195)CTT>CGT	p.L65R		NM_198184	NP_937827	P61366	OSTN_HUMAN	osteocrin precursor	65					cell differentiation|multicellular organismal development|ossification		hormone activity			pancreas(1)|skin(1)	2	all_cancers(143;6.79e-09)|Ovarian(172;0.103)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000254)		CTCTTGCTTCTTGATGAATTG	0.458													13	37					0	0	0.001855	0	0		G	190936627	G	G	190936627	3	3	79	1	0	0	0	0	1	0	0	0	11318	1609	56	5	200	5	OSTN	3	190936627	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	26030771	190936627	7085803	64	49974											
CCDC50	152137	broad.mit.edu	37	chr3	191074885	191074885	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	catctactctagtatgccgaGattttgctgtcctggaggac	8	13	10	10	1	2	1	0	0	2	1	3	4	3	3	2	2	3	2	2	2	3	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr3:191074885G>C	uc003fsw.2	+	2	648	c.58G>C	c.(58-60)GAT>CAT	p.D20H	CCDC50_uc003fsv.2_Missense_Mutation_p.D20H	NM_174908	NP_777568	Q8IVM0	CCD50_HUMAN	Ymer protein short isoform	20						cytoplasm	protein binding				0	all_cancers(143;8.88e-09)|Ovarian(172;0.103)|Breast(254;0.221)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000136)		AGTATGCCGAGATTTTGCTGT	0.378													7	22					0	0	0.004482	0	0		C	191074885	C	C	191074885	3	2	79	1	0	0	0	0	1	0	0	0	2823	942	33	5	64	5	CCDC50	3	191074885	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	138258	191074885	6947545	65	49975											
EVC2	132884	broad.mit.edu	37	chr4	5696169	5696169	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccactagaggctgcagaagTtgagagtgggatgaagactt	12	8	14	7	0	0	5	0	2	0	4	0	7	0	6	1	2	1	3	1	2	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr4:5696169T>C	uc003gij.2	-	3	397	c.343A>G	c.(343-345)ACT>GCT	p.T115A	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Missense_Mutation_p.T35A	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	115						integral to membrane				large_intestine(3)|ovary(2)	5						GCTGCAGAAGTTGAGAGTGGG	0.418													13	43					0	0	0.013537	0	0		C	5696169	C	C	5696169	3	2	79	1	0	0	0	0	1	0	0	0	5294	1725	60	3	3663	3	EVC2	4	5696169	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08		5696169	185458107	66	49976											
ODAM	54959	broad.mit.edu	37	chr4	71068595	71068595	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaatgttttcacttctgcTgtagaccaaactattacccc	11	13	4	13	0	2	1	1	0	1	1	2	1	2	1	4	0	3	3	4	0	5	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr4:71068595T>A	uc003hfc.2	+	9	788	c.771T>A	c.(769-771)GCT>GCA	p.A257A		NM_017855	NP_060325	A1E959	ODAM_HUMAN	odontogenic ameloblast-associated protein	257					biomineral tissue development|odontogenesis of dentine-containing tooth	fibril				ovary(3)|large_intestine(1)	4						TCACTTCTGCTGTAGACCAAA	0.378													12	39					0	0	0.013537	0	0		A	71068595	A	A	71068595	2	1	79	1	0	0	0	0	0	0	0	1	10843	1567	55	5		5	ODAM	4	71068595	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	65372426	71068595	120085681	67	49977											
IBSP	3381	broad.mit.edu	37	chr4	88732666	88732666	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaccaacagcacagaggcAgaaaacggcaacggcagcag	17	1	12	11	2	0	2	0	0	0	2	0	2	0	2	1	3	6	6	1	3	5	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr4:88732666A>G	uc003hqx.3	+	7	656	c.558A>G	c.(556-558)GCA>GCG	p.A186A		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	186					biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		GCACAGAGGCAGAAAACGGCA	0.403													12	30					0	0	0.010729	0	0		G	88732666	G	G	88732666	2	3	79	1	0	0	0	0	0	0	0	1	7491	175	7	3		3	IBSP	4	88732666	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	17664071	88732666	102421610	68	49978											
PPM1K	152926	broad.mit.edu	37	chr4	89198370	89198370	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggtcaacagagtttccaAgttcttctccttaggaagca	12	11	8	10	0	3	1	1	0	2	1	5	2	4	2	2	2	2	3	2	2	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr4:89198370A>C	uc003hrm.3	-	3	856	c.466T>G	c.(466-468)TTG>GTG	p.L156V	PPM1K_uc010ikp.1_Missense_Mutation_p.L156V|PPM1K_uc003hrn.2_Missense_Mutation_p.L156V	NM_152542	NP_689755	Q8N3J5	PPM1K_HUMAN	protein phosphatase 1K (PP2C domain containing)	156	PP2C-like.				protein dephosphorylation	mitochondrial matrix|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000192)		AGAGTTTCCAAGTTCTTCTCC	0.398													6	43					0	0	0.001168	0	0		C	89198370	C	C	89198370	3	2	79	1	0	0	0	0	1	0	0	0	12365	69	3	5	672	5	PPM1K	4	89198370	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	465704	89198370	101955906	69	49979											
USP38	84640	broad.mit.edu	37	chr4	144134809	144134809	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attctggaatgcagtgaaacTtctttacaggaagtagctag	13	12	10	6	0	2	1	0	1	2	0	2	3	2	3	0	2	4	3	0	2	6	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr4:144134809T>G	uc003ijb.2	+	9	2214	c.1680T>G	c.(1678-1680)ACT>ACG	p.T560T	USP38_uc003ija.3_Silent_p.T560T|USP38_uc003ijc.2_RNA	NM_032557	NP_115946	Q8NB14	UBP38_HUMAN	ubiquitin specific peptidase 38	560					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_hematologic(180;0.158)					GCAGTGAAACTTCTTTACAGG	0.403													11	20					0	0	0.008291	0	0		G	144134809	G	G	144134809	2	3	79	1	0	0	0	0	0	0	0	1	17095	1596	56	5		5	USP38	4	144134809	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	54936439	144134809	47019467	70	49980											
GYPE	2996	broad.mit.edu	37	chr4	144826643	144826643	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctgacaatagtaatacaaaGattatttttccatacatcct	15	14	3	9	0	0	2	0	1	0	1	2	2	2	2	3	0	2	1	3	0	7	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr4:144826643G>C	uc003ijj.2	-	1	74	c.18C>G	c.(16-18)ATC>ATG	p.I6M	GYPE_uc010ion.2_RNA|GYPE_uc003ijk.3_Missense_Mutation_p.I6M	NM_198682	NP_941391	P15421	GLPE_HUMAN	glycophorin E precursor	6						integral to plasma membrane					0	all_hematologic(180;0.158)					GTAATACAAAGATTATTTTTC	0.353													8	23					0	0	0.00308	0	0		C	144826643	C	C	144826643	3	2	79	1	0	0	0	0	1	0	0	0	6927	932	33	5	230	5	GYPE	4	144826643	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	691834	144826643	46327633	71	49981											
FBXW7	55294	broad.mit.edu	37	chr4	153251934	153251934	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagtatcaattctgtgctGtctgatgtatgcacttttcc	7	18	8	8	0	3	1	1	1	2	0	4	1	4	1	1	0	2	5	1	0	4	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr4:153251934G>A	uc003ims.2	-	7	1221	c.1072C>T	c.(1072-1074)CAG>TAG	p.Q358*	FBXW7_uc011cii.1_Nonsense_Mutation_p.Q358*|FBXW7_uc003imt.2_Nonsense_Mutation_p.Q358*|FBXW7_uc011cih.1_Nonsense_Mutation_p.Q182*|FBXW7_uc003imq.2_Nonsense_Mutation_p.Q278*|FBXW7_uc003imr.2_Nonsense_Mutation_p.Q240*	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	358					interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				ATTCTGTGCTGTCTGATGTAT	0.393			Mis|N|D|F		colorectal|endometrial|T-ALL								38	27					0	0	0.004289	0	0		A	153251934	A	A	153251934	4	1	79	1	0	0	0	0	0	1	0	0	5783	1386	48	4	1075	4	FBXW7	4	153251934	Nonsense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	8425291	153251934	37902342	72	49982											
RBM46	166863	broad.mit.edu	37	chr4	155719399	155719399	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatatgaatctcacagagcTgctgctatggcaaggaggaa	14	8	12	7	0	1	2	1	1	1	1	2	5	1	4	0	3	3	4	0	3	6	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr4:155719399T>C	uc003ioo.2	+	3	761	c.588T>C	c.(586-588)GCT>GCC	p.A196A	RBM46_uc011cim.1_Silent_p.A196A|RBM46_uc003iop.1_Silent_p.A196A	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	196	RRM 2.						nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				CTCACAGAGCTGCTGCTATGG	0.358													11	28					0	0	0.008291	0	0		C	155719399	C	C	155719399	2	2	79	1	0	0	0	0	0	0	0	1	13165	1567	55	3		3	RBM46	4	155719399	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2467465	155719399	35434877	73	49983											
TLL1	7092	broad.mit.edu	37	chr4	166999084	166999084	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagaagatccacagtccaAgtggcctcatcaccagtccc	13	6	7	15	0	2	2	2	0	0	2	5	2	5	2	5	1	1	0	5	1	3	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr4:166999084A>C	uc003irh.1	+	18	2991	c.2344A>C	c.(2344-2346)AGT>CGT	p.S782R	TLL1_uc011cjn.1_Missense_Mutation_p.S805R|TLL1_uc011cjo.1_Missense_Mutation_p.S606R	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	782	CUB 4.				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		CCACAGTCCAAGTGGCCTCAT	0.507													8	28					0	0	0.004482	0	0		C	166999084	C	C	166999084	3	2	79	1	0	0	0	0	1	0	0	0	15970	72	3	5	2414	5	TLL1	4	166999084	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	11279685	166999084	24155192	74	49984											
TPPP	11076	broad.mit.edu	37	chr5	665397	665397	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagcctcgacactgtgggCgacgagatggctttctgcaa	8	9	14	10	3	1	2	0	1	1	1	2	5	1	2	1	2	2	2	1	2	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:665397C>A	uc003jbg.3	-	3	1198	c.480G>T	c.(478-480)TCG>TCT	p.S160S	TPPP_uc003jbh.3_Silent_p.S160S	NM_007030	NP_008961	O94811	TPPP_HUMAN	tubulin polymerization promoting protein	160					microtubule bundle formation|microtubule polymerization|positive regulation of protein polymerization	nucleus|perinuclear region of cytoplasm|soluble fraction	calcium ion binding|microtubule binding				0		Ovarian(839;0.0563)	Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)	GBM - Glioblastoma multiforme(108;0.0191)		ACACTGTGGGCGACGAGATGG	0.642													13	36					9.05144e-12	9.441e-12	0.001855	1	0		A	665397	A	A	665397	2	1	79	1	0	0	0	0	0	0	0	1	16439	755	27	5		5	TPPP	5	665397	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08		665397	180249863	75	49985											
CTNND2	1501	broad.mit.edu	37	chr5	11364952	11364952	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggactgcagggcccgcaActctgggcccaggtgcccat	6	6	15	14	1	1	0	0	0	1	0	1	1	1	1	3	5	3	2	3	5	1	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:11364952A>G	uc003jfa.1	-	8	1373	c.1228T>C	c.(1228-1230)TTG>CTG	p.L410L	CTNND2_uc010itt.2_Silent_p.L319L|CTNND2_uc011cmy.1_Silent_p.L73L|CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_5'UTR	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	410	ARM 1.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						AGGGCCCGCAACTCTGGGCCC	0.572													19	50					0	0	0.007413	0	0		G	11364952	G	G	11364952	2	3	79	1	0	0	0	0	0	0	0	1	4023	40	2	3		3	CTNND2	5	11364952	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	10699555	11364952	169550308	76	49986											
DNAH5	1767	broad.mit.edu	37	chr5	13717530	13717530	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaccccagggcaccgaacTtgcgcctctcctggacagtg	7	7	10	17	2	1	0	0	0	1	0	3	2	2	1	6	2	2	1	6	2	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:13717530T>C	uc003jfd.2	-	73	12641	c.12599A>G	c.(12598-12600)AAG>AGG	p.K4200R	DNAH5_uc003jfc.2_Missense_Mutation_p.K368R	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4200	AAA 6 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity	p.K4200T(1)		ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GGCACCGAACTTGCGCCTCTC	0.552									Kartagener_syndrome				16	45					0	0	0.004007	0	0		C	13717530	C	C	13717530	3	2	79	1	0	0	0	0	1	0	0	0	4610	1609	56	3	1303	3	DNAH5	5	13717530	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2352578	13717530	167197730	77	49987											
DNAH5	1767	broad.mit.edu	37	chr5	13751329	13751329	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtggtaatgtagagtctaAagccatccaacacatctact	13	11	8	9	0	2	1	0	0	2	1	3	1	3	1	2	2	3	2	2	2	6	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:13751329A>C	uc003jfd.2	-	65	11111	c.11069T>G	c.(11068-11070)TTT>TGT	p.F3690C	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3690	AAA 5 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GTAGAGTCTAAAGCCATCCAA	0.368									Kartagener_syndrome				7	50					0	0	0.001984	0	0		C	13751329	C	C	13751329	3	2	79	1	0	0	0	0	1	0	0	0	4610	14	1	5	2865	5	DNAH5	5	13751329	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	33799	13751329	167163931	78	49988											
DNAH5	1767	broad.mit.edu	37	chr5	13824402	13824402	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgctgctcccaaggtccgaAgaactgacagaatgttacgc	11	9	10	11	2	0	3	0	1	0	2	2	4	2	3	2	1	4	3	2	1	5	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:13824402A>C	uc003jfd.2	-	39	6527	c.6485T>G	c.(6484-6486)CTT>CGT	p.L2162R		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2162	AAA 1 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CAAGGTCCGAAGAACTGACAG	0.418									Kartagener_syndrome				9	53					0	0	0.008291	0	0		C	13824402	C	C	13824402	3	2	79	1	0	0	0	0	1	0	0	0	4610	72	3	5	7553	5	DNAH5	5	13824402	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	73073	13824402	167090858	79	49989											
DNAH5	1767	broad.mit.edu	37	chr5	13864531	13864531	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcctctttatatttcagaAgaggtgcctccatgatattt	9	18	6	8	0	2	3	1	1	1	2	4	3	4	3	3	1	1	0	3	1	4	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:13864531A>C	uc003jfd.2	-	28	4613	c.4571T>G	c.(4570-4572)CTT>CGT	p.L1524R		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1524	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					ATATTTCAGAAGAGGTGCCTC	0.398									Kartagener_syndrome				11	45					0	0	0.008291	0	0		C	13864531	C	C	13864531	3	2	79	1	0	0	0	0	1	0	0	0	4610	72	3	5	9511	5	DNAH5	5	13864531	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	40129	13864531	167050729	80	49990											
ADAMTS12	81792	broad.mit.edu	37	chr5	33616122	33616122	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtttccagctccctcaatTtccatcactcttatgtccct	8	15	3	15	0	3	0	2	0	1	0	7	0	7	0	4	0	1	2	4	0	3	3	rs145853154		TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:33616122T>G	uc003jia.1	-	15	2362	c.2199A>C	c.(2197-2199)GAA>GAC	p.E733D	ADAMTS12_uc010iuq.1_Missense_Mutation_p.E648D	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	733	Spacer 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CTCCCTCAATTTCCATCACTC	0.443										HNSCC(64;0.19)			9	53					0	0	0.004482	0	0		G	33616122	G	G	33616122	3	3	79	1	0	0	0	0	1	0	0	0	257	1838	64	5	2625	5	ADAMTS12	5	33616122	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	19751591	33616122	147299138	81	49991											
RXFP3	51289	broad.mit.edu	37	chr5	33937101	33937101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgcggattctcatcagcGtggtgtactgggtggtgtgc	4	12	18	7	2	2	0	2	0	1	0	3	1	2	1	0	5	4	1	0	5	1	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:33937101G>A	uc003jic.1	+	1	613	c.256G>A	c.(256-258)GTG>ATG	p.V86M		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	86	Helical; Name=1; (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						TCTCATCAGCGTGGTGTACTG	0.677													39	79					0	0	0.004289	0	0		A	33937101	A	A	33937101	3	1	79	1	0	0	0	0	1	0	0	0	13786	1145	40	1	258	1	RXFP3	5	33937101	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	320979	33937101	146978159	82	49992											
PLCXD3	345557	broad.mit.edu	37	chr5	41382380	41382380	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcaaggccttcattgacTttggcactgaacaaaccatg	11	11	7	12	0	2	2	2	2	0	0	3	2	3	2	3	2	2	1	3	2	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:41382380T>G	uc003jmm.1	-	2	462	c.360A>C	c.(358-360)AAA>AAC	p.K120N		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	120	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						CTTCATTGACTTTGGCACTGA	0.433													31	78					0	0	0.012213	0	0		G	41382380	G	G	41382380	3	3	79	1	0	0	0	0	1	0	0	0	12062	1606	56	5	613	5	PLCXD3	5	41382380	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	7445279	41382380	139532880	83	49993											
PLCXD3	345557	broad.mit.edu	37	chr5	41382435	41382435	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattgtcggggtctctgggcTtggtggaaattcgaagatca	8	12	14	7	2	2	1	1	0	1	1	5	3	2	2	0	5	0	1	0	5	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:41382435T>C	uc003jmm.1	-	2	407	c.305A>G	c.(304-306)AAG>AGG	p.K102R		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	102	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						GTCTCTGGGCTTGGTGGAAAT	0.448													11	64					0	0	0.013537	0	0		C	41382435	C	C	41382435	3	2	79	1	0	0	0	0	1	0	0	0	12062	1609	56	3	668	3	PLCXD3	5	41382435	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	55	41382435	139532825	84	49994											
HCN1	348980	broad.mit.edu	37	chr5	45645680	45645680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgactagatttccaaccatCattataagcattattaaatc	16	14	3	8	0	1	2	1	1	0	1	3	2	2	2	2	0	2	1	2	0	7	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:45645680C>T	uc003jok.2	-	2	481	c.456G>A	c.(454-456)ATG>ATA	p.M152I		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	152	Helical; Name=Segment S1; (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TTCCAACCATCATTATAAGCA	0.318													10	43					0	0	0.006214	0	0		T	45645680	T	T	45645680	3	4	79	1	0	0	0	0	1	0	0	0	7012	826	29	4	2244	4	HCN1	5	45645680	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	4263245	45645680	135269580	85	49995											
EMB	133418	broad.mit.edu	37	chr5	49701604	49701604	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtccaatttaaaggaaaAcaattttgacatttacatgt	16	13	6	6	0	0	1	0	1	0	0	1	2	1	2	1	2	2	0	1	2	7	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:49701604A>C	uc003jom.2	-	5	804	c.555T>G	c.(553-555)TGT>TGG	p.C185W	EMB_uc010ivq.2_5'Flank|EMB_uc003jol.2_Missense_Mutation_p.C116W|EMB_uc011cpy.1_Missense_Mutation_p.C135W|EMB_uc010ivr.2_Missense_Mutation_p.C131W	NM_198449	NP_940851	Q6PCB8	EMB_HUMAN	embigin precursor	185	Extracellular (Potential).|Ig-like V-type 2.					integral to membrane					0	Lung SC(58;0.218)	Lung NSC(810;0.0795)				TTAAAGGAAAACAATTTTGAC	0.338													5	38					0	0	0.001984	0	0		C	49701604	C	C	49701604	3	2	79	1	0	0	0	0	1	0	0	0	5093	41	2	5	448	5	EMB	5	49701604	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	4055924	49701604	131213656	86	49996											
ANKRD55	79722	broad.mit.edu	37	chr5	55412549	55412549	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttgctgtccattcccaaCtccagcagtgactggacaca	10	9	9	13	0	0	1	0	1	0	0	3	2	3	2	3	2	3	3	3	2	1	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:55412549C>T	uc003jqu.2	-	9	1010	c.858G>A	c.(856-858)GAG>GAA	p.E286E	ANKRD55_uc003jqt.2_5'UTR	NM_024669	NP_078945	Q3KP44	ANR55_HUMAN	ankyrin repeat domain 55 isoform 1	285	ANK 8.									skin(1)	1		Lung NSC(810;8.69e-05)|Prostate(74;0.00634)|Breast(144;0.0334)|Ovarian(174;0.223)				CCATTCCCAACTCCAGCAGTG	0.582													13	33					0	0	0.013537	0	0		T	55412549	T	T	55412549	2	4	79	1	0	0	0	0	0	0	0	1	681	564	20	4		4	ANKRD55	5	55412549	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	5710945	55412549	125502711	87	49997											
GPR98	84059	broad.mit.edu	37	chr5	89949308	89949308	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gatagattttttactggttgGaattttccccaccaccgtgc	8	15	8	10	1	0	1	0	0	0	1	1	3	1	2	4	2	2	1	4	2	3	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:89949308G>C	uc003kju.2	+	20	4013	c.3917G>C	c.(3916-3918)GGA>GCA	p.G1306A	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1306	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TTACTGGTTGGAATTTTCCCC	0.498													7	21					0	0	0.001984	0	0		C	89949308	C	C	89949308	3	2	79	1	0	0	0	0	1	0	0	0	6737	1174	41	5	3995	5	GPR98	5	89949308	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	34536759	89949308	90965952	88	49998											
GPR98	84059	broad.mit.edu	37	chr5	89990466	89990466	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgttgttggtggaacagcTactgaaggtttagattttat	9	16	12	4	1	0	2	0	1	0	1	0	3	0	3	0	3	3	4	0	3	5	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:89990466T>C	uc003kju.2	+	33	7989	c.7893T>C	c.(7891-7893)GCT>GCC	p.A2631A	GPR98_uc003kjt.2_Silent_p.A337A|GPR98_uc003kjv.2_Silent_p.A231A	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2631	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GTGGAACAGCTACTGAAGGTT	0.483													23	56					0	0	0.00278	0	0		C	89990466	C	C	89990466	2	2	79	1	0	0	0	0	0	0	0	1	6737	1509	53	3		3	GPR98	5	89990466	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	41158	89990466	90924794	89	49999											
GPR98	84059	broad.mit.edu	37	chr5	90079735	90079735	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccacctagtgagcagaaTcataatagctaagagtgact	14	8	10	9	1	1	4	1	2	0	2	1	4	1	4	2	0	2	2	2	0	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:90079735T>C	uc003kju.2	+	67	13610	c.13514T>C	c.(13513-13515)ATC>ACC	p.I4505T	GPR98_uc003kjt.2_Missense_Mutation_p.I2211T|GPR98_uc003kjw.2_Missense_Mutation_p.I166T	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	4505	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GTGAGCAGAATCATAATAGCT	0.433													4	7					0	0	0.000602	0	0		C	90079735	C	C	90079735	3	2	79	1	0	0	0	0	1	0	0	0	6737	1435	50	3	13780	3	GPR98	5	90079735	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	89269	90079735	90835525	90	50000											
SEMA6A	57556	broad.mit.edu	37	chr5	115783129	115783129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcgttggggttgactctGgggtggggagggccgtcagg	4	8	22	7	2	2	1	1	1	1	0	2	2	2	2	1	8	1	3	1	8	0	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:115783129G>A	uc010jck.2	-	19	2982	c.2273C>T	c.(2272-2274)CCA>CTA	p.P758L	SEMA6A_uc003krx.3_Missense_Mutation_p.P775L|SEMA6A_uc011cwe.1_Missense_Mutation_p.P137L|SEMA6A_uc003krv.3_Missense_Mutation_p.P185L|SEMA6A_uc003krw.3_Missense_Mutation_p.P235L|SEMA6A_uc010jcj.2_Missense_Mutation_p.P302L	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	758	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		GGTTGACTCTGGGGTGGGGAG	0.622													41	138					0	0	0.00623	0	0		A	115783129	A	A	115783129	3	1	79	1	0	0	0	0	1	0	0	0	14064	1348	47	4	823	4	SEMA6A	5	115783129	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	25703394	115783129	65132131	91	50001											
FAM170A	340069	broad.mit.edu	37	chr5	118969843	118969843	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatatactacatgcaggtaCaaatgaacaaaggtgtggct	17	9	9	6	0	0	1	0	1	0	0	0	1	0	1	0	3	5	3	0	3	8	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:118969843C>A	uc003ksm.2	+	3	610	c.400C>A	c.(400-402)CAA>AAA	p.Q134K	FAM170A_uc003ksl.2_Missense_Mutation_p.Q134K|FAM170A_uc003ksn.2_Missense_Mutation_p.Q134K|FAM170A_uc003kso.2_Missense_Mutation_p.Q87K	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	134						intracellular	zinc ion binding			skin(1)	1						CATGCAGGTACAAATGAACAA	0.443													4	54					1.024e-07	1.04947e-07	0.000602	1	0		A	118969843	A	A	118969843	3	1	79	1	0	0	0	0	1	0	0	0	5500	479	17	5	410	5	FAM170A	5	118969843	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	3186714	118969843	61945417	92	50002											
SNCAIP	9627	broad.mit.edu	37	chr5	121786608	121786608	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacaactctgaggaccccaAgactaccccagtgaggaagg	14	4	10	13	0	1	3	0	2	1	1	1	5	1	5	4	3	3	0	4	3	5	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:121786608A>C	uc003ksw.1	+	10	2272	c.2066A>C	c.(2065-2067)AAG>ACG	p.K689T	SNCAIP_uc011cwl.1_Missense_Mutation_p.K247T|SNCAIP_uc003ksx.1_Missense_Mutation_p.K736T|SNCAIP_uc003ksy.1_Missense_Mutation_p.K323T|SNCAIP_uc003ksz.1_Missense_Mutation_p.K323T|SNCAIP_uc010jcu.2_Missense_Mutation_p.K285T|SNCAIP_uc011cwm.1_Missense_Mutation_p.K323T|SNCAIP_uc003kta.1_Missense_Mutation_p.K321T|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.K383T|SNCAIP_uc010jcx.1_Missense_Mutation_p.K629T|uc003ktb.1_Intron|SNCAIP_uc003ktc.1_Missense_Mutation_p.K205T	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	689					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		GAGGACCCCAAGACTACCCCA	0.542													21	39					0	0	0.008871	0	0		C	121786608	C	C	121786608	3	2	79	1	0	0	0	0	1	0	0	0	14866	72	3	5	2100	5	SNCAIP	5	121786608	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	2816765	121786608	59128652	93	50003											
HARS	3035	broad.mit.edu	37	chr5	140054668	140054668	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctagcagcttcttctgtgcAgatgccacaagcacctgtgt	8	12	9	12	0	3	1	0	0	3	1	3	1	3	1	2	0	5	4	2	0	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:140054668A>G	uc003lgv.2	-	11	1327	c.1245T>C	c.(1243-1245)TCT>TCC	p.S415S	DND1_uc003lgt.2_5'Flank|HARS_uc003lgu.2_Silent_p.S346S|HARS_uc011czm.1_Silent_p.S375S|HARS_uc003lgw.2_Silent_p.S395S|HARS_uc011czn.1_Silent_p.S355S|HARS_uc010jfu.2_Intron|HARS_uc011czo.1_Silent_p.S341S|HARS_uc011czp.1_Silent_p.S301S	NM_002109	NP_002100	P12081	SYHC_HUMAN	histidyl-tRNA synthetase	415					histidyl-tRNA aminoacylation	cytosol	ATP binding|histidine-tRNA ligase activity			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		L-Histidine(DB00117)	TCTTCTGTGCAGATGCCACAA	0.537													6	87					0	0	0.001984	0	0		G	140054668	G	G	140054668	2	3	79	1	0	0	0	0	0	0	0	1	6975	175	7	3		3	HARS	5	140054668	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	18268060	140054668	40860592	94	50004											
PCDHA7	56141	broad.mit.edu	37	chr5	140216285	140216285	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagacctcatggccttcAgtcccagccttcctcagggt	8	9	9	15	0	3	2	3	0	0	2	5	2	5	2	5	2	1	0	5	2	0	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:140216285A>C	uc003lhq.2	+	1	2317	c.2317A>C	c.(2317-2319)AGT>CGT	p.S773R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.S773R	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	773	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CATGGCCTTCAGTCCCAGCCT	0.522													4	62					0	0	0.000602	0	0		C	140216285	C	C	140216285	3	2	79	1	0	0	0	0	1	0	0	0	11548	188	7	5	2319	5	PCDHA7	5	140216285	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	161617	140216285	40698975	95	50005											
PCDHB3	56132	broad.mit.edu	37	chr5	140481107	140481107	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaagaaattcgcaaaactTttcagctaaatccaattact	16	12	4	9	1	1	2	1	1	0	1	3	2	2	2	1	0	3	2	1	0	8	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:140481107T>G	uc003lio.2	+	1	874	c.874T>G	c.(874-876)TTT>GTT	p.F292V	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	292	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGCAAAACTTTTCAGCTAAA	0.383													20	46					0	0	0.007413	0	0		G	140481107	G	G	140481107	3	3	79	1	0	0	0	0	1	0	0	0	11562	1841	64	5	876	5	PCDHB3	5	140481107	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	264822	140481107	40434153	96	50006											
PCDHB7	56129	broad.mit.edu	37	chr5	140554081	140554081	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgctggtgctggacgccaaCgacaactcgcccttcgtgct	6	9	12	14	4	0	0	0	0	0	0	2	2	0	1	2	2	5	3	2	2	2	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:140554081C>T	uc003lit.2	+	1	1839	c.1665C>T	c.(1663-1665)AAC>AAT	p.N555N		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	555	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGACGCCAACGACAACTCGC	0.726													95	130					0	0	0.01441	0	0		T	140554081	T	T	140554081	2	4	79	1	0	0	0	0	0	0	0	1	11566	535	19	1		1	PCDHB7	5	140554081	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	72974	140554081	40361179	97	50007											
SLC25A2	83884	broad.mit.edu	37	chr5	140683221	140683221	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcggcgacgtaggccataAgtgccgggccggtgcccttg	5	9	15	12	5	0	0	0	0	0	0	1	1	0	0	4	4	2	1	4	4	2	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:140683221A>C	uc003ljf.2	-	1	392	c.212T>G	c.(211-213)CTT>CGT	p.L71R		NM_031947	NP_114153	Q9BXI2	ORNT2_HUMAN	solute carrier family 25 member 2	71	Helical; Name=2; (Potential).|Solcar 1.				mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity			ovary(1)	1		all_lung(500;0.000249)|Lung NSC(810;0.0011)|Ovarian(839;0.00556)|Breast(839;0.0173)|all_hematologic(541;0.152)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.00204)	L-Ornithine(DB00129)	GTAGGCCATAAGTGCCGGGCC	0.582													22	92					0	0	0.014323	0	0		C	140683221	C	C	140683221	3	2	79	1	0	0	0	0	1	0	0	0	14507	72	3	5	697	5	SLC25A2	5	140683221	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	129140	140683221	40232039	98	50008											
CNOT8	9337	broad.mit.edu	37	chr5	154251334	154251334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagttgcttacagattctcGtttgccagaagaggaacatg	13	11	10	7	1	1	3	0	0	1	3	2	4	1	4	1	1	4	3	1	1	4	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:154251334G>A	uc003lvu.2	+	6	997	c.518G>A	c.(517-519)CGT>CAT	p.R173H	CNOT8_uc011ddf.1_Missense_Mutation_p.R67H|CNOT8_uc011ddg.1_Missense_Mutation_p.R67H|CNOT8_uc011ddh.1_Missense_Mutation_p.R9H|CNOT8_uc003lvv.2_Missense_Mutation_p.R173H|CNOT8_uc010jig.2_Missense_Mutation_p.R67H|CNOT8_uc010jif.2_Missense_Mutation_p.R67H|CNOT8_uc003lvw.2_Missense_Mutation_p.R173H|CNOT8_uc011ddi.1_Missense_Mutation_p.R67H|CNOT8_uc011ddj.1_Missense_Mutation_p.R119H	NM_004779	NP_004770	Q9UFF9	CNOT8_HUMAN	CCR4-NOT transcription complex, subunit 8	173					negative regulation of cell proliferation|nuclear-transcribed mRNA poly(A) tail shortening	cytosol|nucleus	nucleic acid binding|protein binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			ACAGATTCTCGTTTGCCAGAA	0.378								Direct_reversal_of_damage					13	32					0	0	0.013537	0	0		A	154251334	A	A	154251334	3	1	79	1	0	0	0	0	1	0	0	0	3628	1145	40	1	532	1	CNOT8	5	154251334	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	13568113	154251334	26663926	99	50009											
CYFIP2	26999	broad.mit.edu	37	chr5	156786056	156786056	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctacagctcctacaggaAtttcgtggggccacctcatt	9	11	8	13	1	2	0	1	0	1	0	4	1	3	1	3	3	3	1	3	3	3	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:156786056A>C	uc003lwq.2	+	26	2855	c.2717A>C	c.(2716-2718)AAT>ACT	p.N906T	CYFIP2_uc011ddn.1_Missense_Mutation_p.N880T|CYFIP2_uc011ddo.1_Missense_Mutation_p.N710T|CYFIP2_uc003lwr.2_Missense_Mutation_p.N906T|CYFIP2_uc003lws.2_Missense_Mutation_p.N906T|CYFIP2_uc003lwt.2_Missense_Mutation_p.N809T|CYFIP2_uc011ddp.1_Missense_Mutation_p.N640T	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	931					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TCCTACAGGAATTTCGTGGGG	0.493													31	149					0	0	0.012213	0	0		C	156786056	C	C	156786056	3	2	79	1	0	0	0	0	1	0	0	0	4141	101	4	5	2807	5	CYFIP2	5	156786056	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	2534722	156786056	24129204	100	50010											
C1QTNF2	114898	broad.mit.edu	37	chr5	159776372	159776372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgttggcatcaaaggtccGgatgcggtactggccgttgt	6	11	16	8	3	1	0	1	0	0	0	2	1	2	1	2	6	2	4	2	6	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr5:159776372G>A	uc003lyd.2	-	3	800	c.796C>T	c.(796-798)CGG>TGG	p.R266W		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	221	C1q.					collagen				skin(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCAAAGGTCCGGATGCGGTAC	0.597													34	95					0	0	0.010818	0	0		A	159776372	A	A	159776372	3	1	79	1	0	0	0	0	1	0	0	0	1966	1115	39	1	200	1	C1QTNF2	5	159776372	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	2990316	159776372	21138888	101	50011											
FAM8A1	51439	broad.mit.edu	37	chr6	17600920	17600920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaggagcaggcgggctgcGaggcgcccgaagccgcggcg	6	2	20	13	7	0	0	0	0	0	0	0	3	0	1	2	5	4	3	2	5	1	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:17600920G>A	uc003ncc.2	+	1	403	c.280G>A	c.(280-282)GAG>AAG	p.E94K		NM_016255	NP_057339	Q9UBU6	FA8A1_HUMAN	family with sequence similarity 8, member A1	94						integral to membrane					0	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.143)	all cancers(50;0.176)|Epithelial(50;0.204)			GGCGGGCTGCGAGGCGCCCGA	0.731													5	42					0	0	0.000602	0	0		A	17600920	A	A	17600920	3	1	79	1	0	0	0	0	1	0	0	0	5663	1059	37	1	282	1	FAM8A1	6	17600920	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08		17600920	153514147	102	50012											
NUP153	9972	broad.mit.edu	37	chr6	17629488	17629488	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaagaaagtccaaacttaAaattatcattcttactatct	17	13	3	8	0	3	2	1	0	2	2	4	2	4	2	1	0	2	0	1	0	8	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:17629488A>C	uc003ncd.1	-	18	3142	c.2942T>G	c.(2941-2943)TTT>TGT	p.F981C	NUP153_uc011dje.1_Missense_Mutation_p.F1012C|NUP153_uc010jpl.1_Missense_Mutation_p.F939C	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	981					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			TCCAAACTTAAAATTATCATT	0.323													14	35					0	0	0.00245	0	0		C	17629488	C	C	17629488	3	2	79	1	0	0	0	0	1	0	0	0	10774	14	1	5	1505	5	NUP153	6	17629488	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	28568	17629488	153485579	103	50013											
RXRB	6257	broad.mit.edu	37	chr6	33166234	33166234	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccccagggagtgacactgttGagttaatctgggatggggga	9	9	16	7	0	1	2	0	2	1	0	1	5	1	5	2	4	0	2	2	4	1	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:33166234G>C	uc003odb.2	-	3	670	c.491C>G	c.(490-492)TCA>TGA	p.S164*	RXRB_uc003odc.2_Nonsense_Mutation_p.S164*|RXRB_uc003odd.2_Nonsense_Mutation_p.S68*|RXRB_uc011dqr.1_Intron|RXRB_uc011dqs.1_Intron|RXRB_uc003ode.1_Nonsense_Mutation_p.S28*|RXRB_uc011dqt.1_Nonsense_Mutation_p.S164*|RXRB_uc011dqu.1_Nonsense_Mutation_p.S68*|SLC39A7_uc003odf.2_5'Flank|SLC39A7_uc003odg.2_5'Flank|SLC39A7_uc011dqv.1_5'Flank	NM_021976	NP_068811	P28702	RXRB_HUMAN	retinoid X receptor, beta	164	Modulating (By similarity).|Pro-rich.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			ovary(3)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Bexarotene(DB00307)|Etretinate(DB00926)|Tazarotene(DB00799)|Tretinoin(DB00755)	TGACACTGTTGAGTTAATCTG	0.547													33	137					0	0	0.003755	0	0		C	33166234	C	C	33166234	4	2	79	1	0	0	0	0	0	1	0	0	13789	1294	45	5	1142	5	RXRB	6	33166234	Nonsense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	15536746	33166234	137948833	104	50014											
PKHD1	5314	broad.mit.edu	37	chr6	51656136	51656136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcacatacagccctttgaAgaatggaagatctgtatcca	14	10	7	10	0	2	3	1	1	1	2	3	4	3	4	2	1	2	1	2	1	5	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:51656136A>G	uc003pah.1	-	53	8614	c.8338T>C	c.(8338-8340)TTC>CTC	p.F2780L	PKHD1_uc010jzn.1_Missense_Mutation_p.F763L|PKHD1_uc003pai.2_Missense_Mutation_p.F2780L	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2780	G8 2.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AGCCCTTTGAAGAATGGAAGA	0.448													14	88					0	0	0.00245	0	0		G	51656136	G	G	51656136	3	3	79	1	0	0	0	0	1	0	0	0	11990	72	3	3	3985	3	PKHD1	6	51656136	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	18489902	51656136	119458931	105	50015											
TINAG	27283	broad.mit.edu	37	chr6	54212312	54212312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtggtacctgagaaaacGtgggtaaatagctgctcaac	12	10	12	7	1	1	1	1	1	0	1	1	2	1	1	1	3	5	4	1	3	7	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:54212312G>A	uc003pcj.2	+	6	1042	c.896G>A	c.(895-897)CGT>CAT	p.R299H	TINAG_uc010jzt.2_Intron	NM_014464	NP_055279	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	299					cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity	p.R299C(1)		ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			CTGAGAAAACGTGGGTAAATA	0.398													15	36					0	0	0.00499	0	0		A	54212312	A	A	54212312	3	1	79	1	0	0	0	0	1	0	0	0	15946	1145	40	1	918	1	TINAG	6	54212312	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	2556176	54212312	116902755	106	50016											
COL21A1	81578	broad.mit.edu	37	chr6	55990378	55990378	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacttccctttttgccataaAatccaggtgatcctttgtct	8	17	5	11	0	1	1	0	1	1	0	4	1	4	1	4	1	2	0	4	1	3	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:55990378A>G	uc003pcs.2	-	14	1869	c.1637T>C	c.(1636-1638)TTT>TCT	p.F546S	COL21A1_uc010jzz.2_5'Flank|COL21A1_uc011dxg.1_5'Flank|COL21A1_uc011dxh.1_5'Flank|COL21A1_uc003pct.1_RNA|COL21A1_uc011dxi.1_Missense_Mutation_p.F546S|COL21A1_uc003pcu.1_Missense_Mutation_p.F543S	NM_030820	NP_110447	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1 precursor	546	Collagen-like 2.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(2)	2	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			TTTGCCATAAAATCCAGGTGA	0.303													5	16					0	0	0.001984	0	0		G	55990378	G	G	55990378	3	3	79	1	0	0	0	0	1	0	0	0	3683	14	1	3	1304	3	COL21A1	6	55990378	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1778066	55990378	115124689	107	50017											
EYS	346007	broad.mit.edu	37	chr6	66094372	66094372	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgctttctcacagtttttTtcagtaaatcctgatataca	11	18	4	8	0	2	1	2	1	1	0	4	1	3	1	1	0	2	3	1	0	4	8			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:66094372T>A	uc011dxu.1	-	8	1744	c.1206A>T	c.(1204-1206)GAA>GAT	p.E402D	EYS_uc003peq.2_Missense_Mutation_p.E402D|EYS_uc003per.1_Missense_Mutation_p.E402D	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	402	EGF-like 5.				response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						CACAGTTTTTTTCAGTAAATC	0.294													3	22					0	0	0.004672	0	0		A	66094372	A	A	66094372	3	1	79	1	0	0	0	0	1	0	0	0	5340	1838	64	5	8334	5	EYS	6	66094372	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	10103994	66094372	105020695	108	50018											
BAI3	577	broad.mit.edu	37	chr6	70049300	70049300	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcggttctggccatgacAgataaacgctccatattgtt	9	13	9	10	2	2	2	0	1	2	1	3	2	3	2	2	2	2	3	2	2	3	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:70049300A>G	uc003pev.3	+	26	3811	c.3363A>G	c.(3361-3363)ACA>ACG	p.T1121T	BAI3_uc010kak.2_Silent_p.T1121T|BAI3_uc011dxx.1_Silent_p.T327T|BAI3_uc003pex.1_Silent_p.T251T	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1121	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TGGCCATGACAGATAAACGCT	0.458													9	190					0	0	0.006214	0	0		G	70049300	G	G	70049300	2	3	79	1	0	0	0	0	0	0	0	1	1301	175	7	3		3	BAI3	6	70049300	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	3954928	70049300	101065767	109	50019											
COL19A1	1310	broad.mit.edu	37	chr6	70639447	70639447	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatcgtcagtggcacaaacTtggcattagtatacaatccc	12	11	8	10	1	1	1	1	1	0	0	3	1	2	1	1	2	2	3	1	2	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:70639447T>A	uc003pfc.1	+	6	638	c.521T>A	c.(520-522)CTT>CAT	p.L174H	COL19A1_uc010kam.1_Missense_Mutation_p.L70H	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	174	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TGGCACAAACTTGGCATTAGT	0.403													18	91					0	0	0.006122	0	0		A	70639447	A	A	70639447	3	1	79	1	0	0	0	0	1	0	0	0	3679	1609	56	5	539	5	COL19A1	6	70639447	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	590147	70639447	100475620	110	50020											
COL12A1	1303	broad.mit.edu	37	chr6	75811728	75811728	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactcactgttcggcctggaAgtcctggctctccagcatca	8	10	9	14	1	3	0	2	0	1	0	6	1	4	1	3	3	2	3	3	3	2	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:75811728A>G	uc003phs.2	-	57	8622	c.8456T>C	c.(8455-8457)CTT>CCT	p.L2819P	COL12A1_uc003pht.2_Missense_Mutation_p.L1655P	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2819	Triple-helical region (COL2) with 1 imperfection.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TCGGCCTGGAAGTCCTGGCTC	0.463													10	224					0	0	0.008291	0	0		G	75811728	G	G	75811728	3	3	79	1	0	0	0	0	1	0	0	0	3672	72	3	3	775	3	COL12A1	6	75811728	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	5172281	75811728	95303339	111	50021											
TBX18	9096	broad.mit.edu	37	chr6	85466473	85466473	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttgtcgaagctgataacTtgtctcatccaagtctcccc	9	12	7	13	1	2	1	1	1	2	0	6	2	3	1	3	0	3	2	3	0	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:85466473T>G	uc003pkl.1	-	4	714	c.714A>C	c.(712-714)CAA>CAC	p.Q238H	TBX18_uc010kbq.1_Missense_Mutation_p.Q80H	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	238	T-box.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		AGCTGATAACTTGTCTCATCC	0.527													10	59					0	0	0.006214	0	0		G	85466473	G	G	85466473	3	3	79	1	0	0	0	0	1	0	0	0	15678	1606	56	5	1129	5	TBX18	6	85466473	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	9654745	85466473	85648594	112	50022											
SLC35F1	222553	broad.mit.edu	37	chr6	118635388	118635388	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcctgggccaggagaccgaAgaggagcctcatgttcgtgt	9	7	15	10	2	1	2	1	0	0	2	2	5	1	3	4	3	2	1	4	3	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:118635388A>G	uc003pxx.3	+	8	1401	c.1200A>G	c.(1198-1200)GAA>GAG	p.E400E	SLC35F1_uc003pxy.1_Silent_p.E205E	NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	400					transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		AGGAGACCGAAGAGGAGCCTC	0.552													10	72					0	0	0.006214	0	0		G	118635388	G	G	118635388	2	3	79	1	0	0	0	0	0	0	0	1	14613	69	3	3		3	SLC35F1	6	118635388	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	33168915	118635388	52479679	113	50023											
BCLAF1	9774	broad.mit.edu	37	chr6	136582556	136582556	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccctctgccacgttgaaaAgtaccacgacctcttcctct	8	10	6	17	3	3	1	0	1	3	0	4	2	4	1	5	0	2	2	5	0	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:136582556A>T	uc003qgx.1	-	12	2857	c.2604T>A	c.(2602-2604)ACT>ACA	p.T868T	BCLAF1_uc011edb.1_Silent_p.T147T|BCLAF1_uc003qgw.1_Silent_p.T695T|BCLAF1_uc003qgy.1_Silent_p.T817T|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.T866T	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	868					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CACGTTGAAAAGTACCACGAC	0.413													29	240					0	0	0.010818	0	0		T	136582556	T	T	136582556	2	4	79	1	0	0	0	0	0	0	0	1	1384	59	3	5		5	BCLAF1	6	136582556	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	17947168	136582556	34532511	114	50024											
KIAA1244	57221	broad.mit.edu	37	chr6	138584055	138584055	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagatcaatgaggctgacTtccgctggcagcggcgagtg	8	8	16	9	3	1	3	1	2	0	1	2	5	2	3	1	4	1	3	1	4	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:138584055T>G	uc003qhu.2	+	12	1435	c.1435T>G	c.(1435-1437)TTC>GTC	p.F479V		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	479					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		TGAGGCTGACTTCCGCTGGCA	0.587													9	23					0	0	0.004482	0	0		G	138584055	G	G	138584055	3	3	79	1	0	0	0	0	1	0	0	0	8233	1609	56	5	1481	5	KIAA1244	6	138584055	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2001499	138584055	32531012	115	50025											
CCDC28A	25901	broad.mit.edu	37	chr6	139094902	139094902	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgtacctcttacgtcacTtccgtaaacaaacggagctg	10	10	9	12	3	2	0	1	0	1	0	3	1	3	1	2	2	5	4	2	2	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:139094902T>G	uc003qie.2	+	1	246	c.91T>G	c.(91-93)TTC>GTC	p.F31V	uc003qid.1_5'Flank	NM_015439	NP_056254	Q8IWP9	CC28A_HUMAN	coiled-coil domain containing 28A	31											0				OV - Ovarian serous cystadenocarcinoma(155;0.000201)|GBM - Glioblastoma multiforme(68;0.000306)		CTTACGTCACTTCCGTAAACA	0.632													12	268					0	0	0.001855	0	0		G	139094902	G	G	139094902	3	3	79	1	0	0	0	0	1	0	0	0	2805	1609	56	5	93	5	CCDC28A	6	139094902	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	510847	139094902	32020165	116	50026											
SYNE1	23345	broad.mit.edu	37	chr6	152557432	152557432	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtattcattaaggctagattTtaaatgctaaaatattgaaa	17	15	6	3	0	1	2	1	1	0	1	1	2	1	2	0	1	1	3	0	1	9	9			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:152557432T>G	uc010kiw.2	-	110	20808	c.20206A>C	c.(20206-20208)AAA>CAA	p.K6736Q	SYNE1_uc010kiv.2_Missense_Mutation_p.K1260Q|SYNE1_uc003qos.3_Missense_Mutation_p.K1260Q|SYNE1_uc003qot.3_Missense_Mutation_p.K6665Q|SYNE1_uc003qou.3_Missense_Mutation_p.K6736Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6736	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AGGCTAGATTTTAAATGCTAA	0.313										HNSCC(10;0.0054)			7	27					0	0	0.001984	0	0		G	152557432	G	G	152557432	3	3	79	1	0	0	0	0	1	0	0	0	15470	1850	64	5	6408	5	SYNE1	6	152557432	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	13462530	152557432	18557635	117	50027											
SYNE1	23345	broad.mit.edu	37	chr6	152722378	152722378	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattaataaacttctccacTtgtgtactttgagccgtgaa	11	15	6	9	1	2	2	1	2	1	0	3	2	2	2	2	0	3	1	2	0	5	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:152722378T>G	uc010kiw.2	-	47	7526	c.6924A>C	c.(6922-6924)CAA>CAC	p.Q2308H	SYNE1_uc003qot.3_Missense_Mutation_p.Q2315H|SYNE1_uc003qou.3_Missense_Mutation_p.Q2308H|SYNE1_uc010kjb.1_Missense_Mutation_p.Q2291H	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2308	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		ACTTCTCCACTTGTGTACTTT	0.378										HNSCC(10;0.0054)			9	47					0	0	0.006214	0	0		G	152722378	G	G	152722378	3	3	79	1	0	0	0	0	1	0	0	0	15470	1606	56	5	19942	5	SYNE1	6	152722378	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	164946	152722378	18392689	118	50028											
MYCT1	80177	broad.mit.edu	37	chr6	153019200	153019200	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatggctaataacacaacaAgtttagggagtccatggcca	14	10	9	8	0	0	0	0	0	0	0	1	1	1	1	2	3	2	2	2	3	6	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:153019200A>G	uc003qpd.3	+	1	171	c.163A>G	c.(163-165)AGT>GGT	p.S55G	MYCT1_uc010kjc.1_Missense_Mutation_p.S55G|MYCT1_uc003qpc.3_Missense_Mutation_p.S55G	NM_025107	NP_079383	Q8N699	MYCT1_HUMAN	myc target 1	55						nucleus				ovary(1)	1		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;1.33e-10)|BRCA - Breast invasive adenocarcinoma(81;0.143)		TAACACAACAAGTTTAGGGAG	0.313													8	16					0	0	0.004482	0	0		G	153019200	G	G	153019200	3	3	79	1	0	0	0	0	1	0	0	0	10040	72	3	3	165	3	MYCT1	6	153019200	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	296822	153019200	18095867	119	50029											
IGF2R	3482	broad.mit.edu	37	chr6	160445719	160445719	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacacttctctattcatcaAtgtttgtagagacataggta	12	14	8	7	0	3	1	2	0	1	1	4	3	3	2	0	2	0	3	0	2	5	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:160445719A>T	uc003qta.2	+	5	777	c.629A>T	c.(628-630)AAT>ATT	p.N210I		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	210	2.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		CTATTCATCAATGTTTGTAGA	0.433													27	86					0	0	0.004656	0	0		T	160445719	T	T	160445719	3	4	79	1	0	0	0	0	1	0	0	0	7592	101	4	5	647	5	IGF2R	6	160445719	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	7426519	160445719	10669348	120	50030											
PARK2	5071	broad.mit.edu	37	chr6	162683735	162683735	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccagttgcattcatttcTtgaccttttctccacggtct	5	17	5	14	1	4	1	1	1	3	0	6	1	5	1	4	1	1	2	4	1	0	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:162683735T>C	uc003qtx.3	-	3	368	c.234A>G	c.(232-234)CAA>CAG	p.Q78Q	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_5'UTR|PARK2_uc003qty.3_Silent_p.Q78Q|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Silent_p.Q78Q	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	78					aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		CATTCATTTCTTGACCTTTTC	0.507													8	91					0	0	0.006214	0	0		C	162683735	C	C	162683735	2	2	79	1	0	0	0	0	0	0	0	1	11468	1606	56	3		3	PARK2	6	162683735	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2238016	162683735	8431332	121	50031											
PRR18	285800	broad.mit.edu	37	chr6	166721313	166721313	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgccgaggtcgccgcataGgtggtcctcgctgggctgtg	3	8	16	14	5	0	0	0	0	0	0	3	1	1	0	4	4	0	3	4	4	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr6:166721313G>C	uc003quw.1	-	1	559	c.318C>G	c.(316-318)ACC>ACG	p.T106T		NM_175922	NP_787118	Q8N4B5	PRR18_HUMAN	proline rich region 18	106						endoplasmic reticulum					0		Breast(66;2.35e-05)|Ovarian(120;0.0606)|Prostate(117;0.0959)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-19)|BRCA - Breast invasive adenocarcinoma(81;4.45e-06)|GBM - Glioblastoma multiforme(31;7.96e-05)		TCGCCGCATAGGTGGTCCTCG	0.582													7	10					0	0	0.00308	0	0		C	166721313	C	C	166721313	2	2	79	1	0	0	0	0	0	0	0	1	12612	987	35	5		5	PRR18	6	166721313	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08	4037578	166721313	4393754	122	50032											
COL28A1	340267	broad.mit.edu	37	chr7	7412809	7412809	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcagtttctctttatcacGagaatctgtctgtccatcag	8	16	7	10	1	6	1	3	0	3	1	8	2	7	1	1	0	0	1	1	0	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:7412809G>A	uc003src.1	-	32	2845	c.2728C>T	c.(2728-2730)CGT>TGT	p.R910C	COL28A1_uc011jxe.1_Missense_Mutation_p.R593C	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	910	VWFA 2.				cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		TCTTTATCACGAGAATCTGTC	0.458													28	26					0	0	0.004656	0	0		A	7412809	A	A	7412809	3	1	79	1	0	0	0	0	1	0	0	0	3689	1058	37	1	665	1	COL28A1	7	7412809	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08		7412809	151725854	123	50033											
GLCCI1	113263	broad.mit.edu	37	chr7	8126036	8126036	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcccgggtttcctttacGtctctttctgatgacaccag	6	15	7	13	2	3	2	1	2	2	0	6	2	5	2	3	1	1	1	3	1	1	4	rs146979444		TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:8126036G>A	uc003srk.2	+	8	2071	c.1512G>A	c.(1510-1512)ACG>ACA	p.T504T		NM_138426	NP_612435	Q86VQ1	GLCI1_HUMAN	glucocorticoid induced transcript 1	504											0		Ovarian(82;0.0608)		UCEC - Uterine corpus endometrioid carcinoma (126;0.206)		TTTCCTTTACGTCTCTTTCTG	0.577													181	180					0	0	0.01441	0	0		A	8126036	A	A	8126036	2	1	79	1	0	0	0	0	0	0	0	1	6446	1132	40	1		1	GLCCI1	7	8126036	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08	713227	8126036	151012627	124	50034											
FERD3L	222894	broad.mit.edu	37	chr7	19184942	19184942	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacaggtctgcgacgaagTccagcaccgtagtgtccacg	9	6	14	12	4	1	0	0	0	1	0	3	3	3	1	3	2	2	2	3	2	2	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:19184942T>C	uc003suo.1	-	1	103	c.44A>G	c.(43-45)GAC>GGC	p.D15G	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	15					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						TGCGACGAAGTCCAGCACCGT	0.677													20	53					0	0	0.003954	0	0		C	19184942	C	C	19184942	3	2	79	1	0	0	0	0	1	0	0	0	5830	1667	58	3	460	3	FERD3L	7	19184942	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	11058906	19184942	139953721	125	50035											
DNAH11	8701	broad.mit.edu	37	chr7	21629008	21629008	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatggtcttctctgtgtcaAttttgacccaaaggtaggga	11	13	10	7	0	3	1	1	1	2	0	4	2	3	2	1	3	0	1	1	3	4	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:21629008A>C	uc003svc.2	+	12	2187	c.2156A>C	c.(2155-2157)AAT>ACT	p.N719T		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	719	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTCTGTGTCAATTTTGACCCA	0.303									Kartagener_syndrome				13	35					0	0	0.00245	0	0		C	21629008	C	C	21629008	3	2	79	1	0	0	0	0	1	0	0	0	4605	101	4	5	2202	5	DNAH11	7	21629008	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	2444066	21629008	137509655	126	50036											
BBS9	27241	broad.mit.edu	37	chr7	33427710	33427710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attcaaagataaaactcctgCccctcttcaacacctggaca	14	9	4	14	0	3	1	2	0	1	1	4	2	4	2	4	1	3	0	4	1	4	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:33427710C>T	uc003tdn.1	+	19	2582	c.2069C>T	c.(2068-2070)GCC>GTC	p.A690V	BBS9_uc003tdo.1_Missense_Mutation_p.A655V|BBS9_uc003tdp.1_Missense_Mutation_p.A685V|BBS9_uc003tdq.1_Missense_Mutation_p.A650V|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Missense_Mutation_p.A214V|BBS9_uc003tds.1_Missense_Mutation_p.A113V|BBS9_uc003tdt.2_RNA	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	690					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			AAAACTCCTGCCCCTCTTCAA	0.388									Bardet-Biedl_syndrome				36	106					0	0	0.006999	0	0		T	33427710	T	T	33427710	3	4	79	1	0	0	0	0	1	0	0	0	1343	739	26	2	2139	2	BBS9	7	33427710	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	11798702	33427710	125710953	127	50037											
AMPH	273	broad.mit.edu	37	chr7	38433635	38433635	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgcttcgagctcctctgcTtcaggttgggcactctctgc	3	14	11	13	1	3	0	1	0	2	0	6	1	4	0	1	2	4	6	1	2	0	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:38433635T>C	uc003tgu.2	-	18	1647	c.1578A>G	c.(1576-1578)GAA>GAG	p.E526E	AMPH_uc003tgv.2_Silent_p.E484E|AMPH_uc003tgt.2_Silent_p.E411E|AMPH_uc003tgw.1_Silent_p.E549E|AMPH_uc010kxl.1_RNA	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	526					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						GCTCCTCTGCTTCAGGTTGGG	0.582													48	128					0	0	0.01441	0	0		C	38433635	C	C	38433635	2	2	79	1	0	0	0	0	0	0	0	1	588	1606	56	3		3	AMPH	7	38433635	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	5005925	38433635	120705028	128	50038											
AMPH	273	broad.mit.edu	37	chr7	38462019	38462019	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacaaacccaaatcaacttAccaagttgcagatcatactc	16	8	4	13	0	2	1	2	0	0	1	3	1	2	1	2	0	5	3	2	0	6	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:38462019A>G	uc003tgu.2	-	16	1341	c.1272_splice	c.e16+1	p.L424_splice	AMPH_uc003tgv.2_Splice_Site_p.L424_splice|AMPH_uc003tgt.2_Splice_Site_p.L351_splice|AMPH_uc003tgw.1_Splice_Site_p.L489_splice|AMPH_uc010kxl.1_Splice_Site	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1						endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						AAATCAACTTACCAAGTTGCA	0.358													32	91					0	0	0.006999	0	0		G	38462019	G	G	38462019	5	3	79	1	0	0	0	0	0	0	1	0	588	405	14	3	837	3	AMPH	7	38462019	Splice_Site	SNP	A	TCGA-BR-8485-01A-11D-2394-08	28384	38462019	120676644	129	50039											
GLI3	2737	broad.mit.edu	37	chr7	42005876	42005876	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcctgtggcagccgcgtacTtggccttgaggcggtactgc	4	10	14	13	3	0	1	0	1	0	0	1	1	1	1	3	4	4	3	3	4	2	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:42005876T>G	uc011kbh.1	-	15	2886	c.2795A>C	c.(2794-2796)AAG>ACG	p.K932T	GLI3_uc011kbg.1_Missense_Mutation_p.K873T	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	932					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						AGCCGCGTACTTGGCCTTGAG	0.721									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				17	54					0	0	0.00499	0	0		G	42005876	G	G	42005876	3	3	79	1	0	0	0	0	1	0	0	0	6454	1609	56	5	1951	5	GLI3	7	42005876	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	3543857	42005876	117132787	130	50040											
ZMIZ2	83637	broad.mit.edu	37	chr7	44801438	44801438	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagacctcgcacaagccactCtacctgaagcatgtgtgcca	12	7	8	14	1	1	2	0	1	1	1	2	2	1	2	4	0	4	2	4	0	4	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:44801438C>G	uc003tlr.2	+	11	1653	c.1530C>G	c.(1528-1530)CTC>CTG	p.L510L	ZMIZ2_uc003tlq.2_Silent_p.L452L|ZMIZ2_uc003tls.2_Silent_p.L484L|ZMIZ2_uc003tlt.2_Silent_p.L133L|ZMIZ2_uc010kyj.2_Silent_p.L32L	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	510					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						ACAAGCCACTCTACCTGAAGC	0.587													8	52					0	0	0.004482	0	0		G	44801438	G	G	44801438	2	3	79	1	0	0	0	0	0	0	0	1	17722	900	32	5		5	ZMIZ2	7	44801438	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	2795562	44801438	114337225	131	50041											
ABCA13	154664	broad.mit.edu	37	chr7	48312083	48312083	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgaaccacaaaaacaagaAgttgataaaattttgactca	19	10	5	7	0	2	4	1	3	1	1	2	4	2	4	1	0	2	1	1	0	7	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:48312083A>C	uc003toq.2	+	17	2845	c.2820A>C	c.(2818-2820)GAA>GAC	p.E940D	ABCA13_uc010kyr.2_Missense_Mutation_p.E443D	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	940					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AAAAACAAGAAGTTGATAAAA	0.368													15	43					0	0	0.003163	0	0		C	48312083	C	C	48312083	3	2	79	1	0	0	0	0	1	0	0	0	31	69	3	5	2715	5	ABCA13	7	48312083	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	3510645	48312083	110826580	132	50042											
ABCA13	154664	broad.mit.edu	37	chr7	48313132	48313132	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcttgaagttttcattgAgtttagcagtacctcagaat	10	16	8	7	0	3	3	2	2	1	1	3	3	3	3	1	0	3	5	1	0	4	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:48313132A>C	uc003toq.2	+	17	3894	c.3869A>C	c.(3868-3870)GAG>GCG	p.E1290A	ABCA13_uc010kyr.2_Missense_Mutation_p.E793A	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1290					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GTTTTCATTGAGTTTAGCAGT	0.323													4	7					0	0	0.009096	0	0		C	48313132	C	C	48313132	3	2	79	1	0	0	0	0	1	0	0	0	31	304	11	5	3764	5	ABCA13	7	48313132	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1049	48313132	110825531	133	50043											
MAGI2	9863	broad.mit.edu	37	chr7	77885431	77885431	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtatttgtttcacccgctGtcctgtaggactgtcggcaa	8	13	10	10	2	1	0	1	0	0	0	3	1	2	1	2	2	0	5	2	2	4	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:77885431G>C	uc003ugx.2	-	10	2130	c.1876C>G	c.(1876-1878)CAG>GAG	p.Q626E	MAGI2_uc003ugy.2_Missense_Mutation_p.Q626E|MAGI2_uc010ldx.1_Missense_Mutation_p.Q235E|MAGI2_uc010ldy.1_Missense_Mutation_p.Q235E|MAGI2_uc011kgr.1_Missense_Mutation_p.Q458E|MAGI2_uc011kgs.1_Missense_Mutation_p.Q463E	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	626	PDZ 3.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TTCACCCGCTGTCCTGTAGGA	0.512													8	20					0	0	0.004482	0	0		C	77885431	C	C	77885431	3	2	79	1	0	0	0	0	1	0	0	0	9209	1386	48	5	2543	5	MAGI2	7	77885431	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	29572299	77885431	81253232	134	50044											
HGF	3082	broad.mit.edu	37	chr7	81346652	81346652	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcagtaattctcattcagcTtacttgcatctggttcccag	8	14	8	11	0	3	0	2	0	2	0	5	0	4	0	1	2	3	5	1	2	2	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:81346652T>G	uc003uhl.2	-	11	1466	c.1301A>C	c.(1300-1302)AAG>ACG	p.K434T	HGF_uc003uhm.2_Missense_Mutation_p.K429T	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	434	Kringle 4.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						CTCATTCAGCTTACTTGCATC	0.428													22	46					0	0	0.014323	0	0		G	81346652	G	G	81346652	3	3	79	1	0	0	0	0	1	0	0	0	7101	1609	56	5	917	5	HGF	7	81346652	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	3461221	81346652	77792011	135	50045											
SEMA3E	9723	broad.mit.edu	37	chr7	82996981	82996981	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcctgagggttggcatacTtccacttggagggtgacatt	7	14	12	8	0	0	2	0	2	0	0	2	3	2	3	2	4	1	2	2	4	1	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:82996981T>C	uc003uhy.1	-	17	2715	c.2249A>G	c.(2248-2250)AAG>AGG	p.K750R		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	750	Arg/Lys-rich (basic).				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				GTTGGCATACTTCCACTTGGA	0.483													46	146					0	0	0.01441	0	0		C	82996981	C	C	82996981	3	2	79	1	0	0	0	0	1	0	0	0	14053	1609	56	3	82	3	SEMA3E	7	82996981	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	1650329	82996981	76141682	136	50046											
COL1A2	1278	broad.mit.edu	37	chr7	94052389	94052389	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcagttggtccccctggcTtcgctggtgagaagggtccc	4	10	15	12	1	0	1	0	1	0	1	3	2	2	1	3	4	1	4	3	4	1	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:94052389T>G	uc003ung.1	+	40	2995	c.2524T>G	c.(2524-2526)TTC>GTC	p.F842V	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	842			Missing (in OI2A).		axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TCCCCCTGGCTTCGCTGGTGA	0.532										HNSCC(75;0.22)			35	97					0	0	0.003755	0	0		G	94052389	G	G	94052389	3	3	79	1	0	0	0	0	1	0	0	0	3681	1609	56	5	2682	5	COL1A2	7	94052389	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	11055408	94052389	65086274	137	50047											
TRRAP	8295	broad.mit.edu	37	chr7	98547092	98547092	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgggatgtgctggctgccaAccccaacaggttcatcaccc	8	7	11	15	1	2	0	2	0	0	0	2	1	2	1	4	3	4	3	4	3	2	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:98547092A>T	uc003upp.2	+	35	5029	c.4820A>T	c.(4819-4821)AAC>ATC	p.N1607I	TRRAP_uc011kis.1_Missense_Mutation_p.N1589I|TRRAP_uc003upr.2_Missense_Mutation_p.N1306I	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1607					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity	p.R1607H(1)		ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CTGGCTGCCAACCCCAACAGG	0.557													26	73					0	0	0.00632	0	0		T	98547092	T	T	98547092	3	4	79	1	0	0	0	0	1	0	0	0	16627	43	2	5	4896	5	TRRAP	7	98547092	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	4494703	98547092	60591571	138	50048											
CNPY4	245812	broad.mit.edu	37	chr7	99722428	99722428	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggaggaagagcaggaggagGaggaggaagaggaggaagag	16	0	24	1	0	0	3	0	0	0	3	0	12	0	12	0	9	1	1	0	9	3	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:99722428G>T	uc003uto.2	+	6	767	c.664G>T	c.(664-666)GAG>TAG	p.E222*	MBLAC1_uc003utp.2_5'Flank	NM_152755	NP_689968	Q8N129	CNPY4_HUMAN	canopy 4 homolog precursor	222	Glu-rich.					extracellular region					0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					gcaggaggaggaggaggaaga	0.353													36	61					3.03874e-20	3.18565e-20	0.003271	1	0		T	99722428	T	T	99722428	4	4	79	1	0	0	0	0	0	1	0	0	3633	1175	41	5	686	5	CNPY4	7	99722428	Nonsense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	1175336	99722428	59416235	139	50049											
MLL5	55904	broad.mit.edu	37	chr7	104753074	104753074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaccatcaaactgctgctgCcgtagtcccccctcctcctc	6	10	5	20	1	2	0	2	0	0	0	6	0	5	0	7	0	4	3	7	0	2	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:104753074C>T	uc003vcm.2	+	27	5405	c.4871C>T	c.(4870-4872)GCC>GTC	p.A1624V	MLL5_uc010ljc.2_Missense_Mutation_p.A1624V|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Missense_Mutation_p.A358V	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1624	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						ACTGCTGCTGCCGTAGTCCCC	0.562													31	97					0	0	0.004289	0	0		T	104753074	T	T	104753074	3	4	79	1	0	0	0	0	1	0	0	0	9642	739	26	2	4969	2	MLL5	7	104753074	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	5030646	104753074	54385589	140	50050											
DOCK4	9732	broad.mit.edu	37	chr7	111387326	111387326	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatacctaatccttacctcTtgatacctggaaacgccacc	12	10	4	15	1	1	1	0	1	1	0	2	2	2	2	6	1	4	0	6	1	6	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:111387326T>G	uc003vfx.2	-	42	4832	c.4563A>C	c.(4561-4563)CAA>CAC	p.Q1521H	DOCK4_uc011kml.1_Missense_Mutation_p.Q402H|DOCK4_uc011kmm.1_Missense_Mutation_p.Q428H|DOCK4_uc003vfw.2_Missense_Mutation_p.Q971H|DOCK4_uc003vfy.2_Missense_Mutation_p.Q1566H	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1521	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				TCCTTACCTCTTGATACCTGG	0.398													8	18					0	0	0.008291	0	0		G	111387326	G	G	111387326	3	3	79	1	0	0	0	0	1	0	0	0	4695	1606	56	5	1381	5	DOCK4	7	111387326	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	6634252	111387326	47751337	141	50051											
PPP1R3A	5506	broad.mit.edu	37	chr7	113518066	113518066	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcttactaatccttcattTtcatgccttgcttcttccat	7	18	4	12	0	3	0	2	0	1	0	5	1	5	0	3	0	4	2	3	0	2	8			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:113518066T>G	uc010ljy.1	-	4	3112	c.3081A>C	c.(3079-3081)GAA>GAC	p.E1027D		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	1027					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						ATCCTTCATTTTCATGCCTTG	0.398													42	106					0	0	0.011902	0	0		G	113518066	G	G	113518066	3	3	79	1	0	0	0	0	1	0	0	0	12393	1838	64	5	291	5	PPP1R3A	7	113518066	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2130740	113518066	45620597	142	50052											
PTPRZ1	5803	broad.mit.edu	37	chr7	121651971	121651971	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgattctgtgggtgtaacTtatcagggttccttatttag	8	17	10	6	0	2	1	1	1	1	0	3	1	3	1	1	2	1	2	1	2	4	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:121651971T>C	uc003vjy.2	+	12	3266	c.2871T>C	c.(2869-2871)ACT>ACC	p.T957T	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	957	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						TGGGTGTAACTTATCAGGGTT	0.443													33	64					0	0	0.010818	0	0		C	121651971	C	C	121651971	2	2	79	1	0	0	0	0	0	0	0	1	12839	1596	56	3		3	PTPRZ1	7	121651971	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	8133905	121651971	37486692	143	50053											
SMO	6608	broad.mit.edu	37	chr7	128846344	128846344	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgggatttgttttgtgggcTacaagaactaccgataccgt	9	13	12	7	2	0	1	0	0	0	1	0	3	0	2	2	2	4	2	2	2	5	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:128846344T>C	uc003vor.2	+	6	1460	c.1180T>C	c.(1180-1182)TAC>CAC	p.Y394H	SMO_uc003vos.2_Missense_Mutation_p.Y69H	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	394	Extracellular (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						TTTTGTGGGCTACAAGAACTA	0.597			Mis		skin basal cell 								60	203					0	0	0.01441	0	0		C	128846344	C	C	128846344	3	2	79	1	0	0	0	0	1	0	0	0	14825	1522	53	3	1202	3	SMO	7	128846344	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	7194373	128846344	30292319	144	50054											
MLL3	58508	broad.mit.edu	37	chr7	151962143	151962143	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcagttctggcacactttGcactcaggacattgccaacc	9	11	8	13	0	2	0	1	0	1	0	2	1	2	1	2	2	4	4	2	2	1	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr7:151962143G>A	uc003wla.2	-	8	1383	c.1164C>T	c.(1162-1164)TGC>TGT	p.C388C		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	388	PHD-type 1.|RING-type.|PHD-type 2.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGCACACTTTGCACTCAGGAC	0.408			N		medulloblastoma								11	230					0	0	0.003163	0	0		A	151962143	A	A	151962143	2	1	79	1	0	0	0	0	0	0	0	1	9640	1311	46	2		2	MLL3	7	151962143	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08	23115799	151962143	7176520	145	50055											
LONRF1	91694	broad.mit.edu	37	chr8	12586497	12586497	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaaccgctttcctccaacTgtatcaaccacagaccttcc	11	10	3	17	1	1	1	1	0	0	1	4	1	4	1	6	0	3	2	6	0	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr8:12586497T>C	uc003wwd.1	-	10	1986	c.1923A>G	c.(1921-1923)ACA>ACG	p.T641T	LONRF1_uc011kxv.1_Silent_p.T230T|LONRF1_uc010lsp.1_Silent_p.T241T	NM_152271	NP_689484	Q17RB8	LONF1_HUMAN	LON peptidase N-terminal domain and ring finger	641	Lon.				proteolysis		ATP-dependent peptidase activity|zinc ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(644;0.236)		TTCCTCCAACTGTATCAACCA	0.358													4	57					0	0	0.009096	0	0		C	12586497	C	C	12586497	2	2	79	1	0	0	0	0	0	0	0	1	8912	1567	55	3		3	LONRF1	8	12586497	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08		12586497	133777525	146	50056											
NRG1	3084	broad.mit.edu	37	chr8	32621594	32621594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaacgacccaagagtacgagCcagcccaagagcctgttaag	15	4	10	12	2	0	2	0	0	0	2	0	4	0	2	4	0	5	2	4	0	5	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr8:32621594C>T	uc003xiv.2	+	12	2114	c.1597C>T	c.(1597-1599)CCA>TCA	p.P533S	NRG1_uc010lvo.2_3'UTR|NRG1_uc003xiu.2_Missense_Mutation_p.P538S|NRG1_uc003xiw.2_Missense_Mutation_p.P530S|NRG1_uc003xit.2_3'UTR|NRG1_uc010lvr.2_Missense_Mutation_p.P275S|NRG1_uc010lvs.2_Missense_Mutation_p.P275S|NRG1_uc010lvp.2_Missense_Mutation_p.P487S|NRG1_uc010lvq.2_Missense_Mutation_p.P470S|NRG1_uc011lbg.1_3'UTR|NRG1_uc011lbh.1_Missense_Mutation_p.P376S|NRG1_uc003xja.2_Missense_Mutation_p.P344S	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	533	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		AGAGTACGAGCCAGCCCAAGA	0.547													21	32					0	0	0.010504	0	0		T	32621594	T	T	32621594	3	4	79	1	0	0	0	0	1	0	0	0	10666	739	26	2	3368	2	NRG1	8	32621594	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	20035097	32621594	113742428	147	50057											
PREX2	80243	broad.mit.edu	37	chr8	69028107	69028107	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaacgggtatgttttaatgTagcaggagatgaacaggaag	15	9	13	4	1	0	2	0	1	0	1	0	4	0	3	0	3	3	4	0	3	6	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr8:69028107T>C	uc003xxv.1	+	26	3293	c.3266T>C	c.(3265-3267)GTA>GCA	p.V1089A		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1089					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TGTTTTAATGTAGCAGGAGAT	0.383													17	100					0	0	0.007413	0	0		C	69028107	C	C	69028107	3	2	79	1	0	0	0	0	1	0	0	0	12499	1638	57	3	3597	3	PREX2	8	69028107	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	36406513	69028107	77335915	148	50058											
NCOA2	10499	broad.mit.edu	37	chr8	71036127	71036127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgggcactcacctgctcggGacccatggaggacagccctg	7	7	13	14	1	1	0	1	0	0	0	2	3	1	3	3	4	2	2	3	4	0	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr8:71036127G>A	uc003xyn.1	-	21	4447	c.4285C>T	c.(4285-4287)CCC>TCC	p.P1429S	NCOA2_uc011lfb.1_Missense_Mutation_p.P517S	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	1429					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			ACCTGCTCGGGACCCATGGAG	0.507			T	RUNXBP2	AML								6	47					0	0	0.001984	0	0		A	71036127	A	A	71036127	3	1	79	1	0	0	0	0	1	0	0	0	10248	1174	41	4	121	4	NCOA2	8	71036127	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	2008020	71036127	75327895	149	50059											
KCNB2	9312	broad.mit.edu	37	chr8	73480109	73480109	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggggggcctcaaccacgAagtcctgtggagaacgctgg	8	7	16	10	2	1	1	1	0	0	1	2	3	2	1	3	5	2	1	3	5	3	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr8:73480109A>G	uc003xzb.2	+	2	728	c.140A>G	c.(139-141)GAA>GGA	p.E47G		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	47	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			CTCAACCACGAAGTCCTGTGG	0.567													24	161					0	0	0.00333	0	0		G	73480109	G	G	73480109	3	3	79	1	0	0	0	0	1	0	0	0	8029	246	9	3	142	3	KCNB2	8	73480109	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	2443982	73480109	72883913	150	50060											
DECR1	1666	broad.mit.edu	37	chr8	91033213	91033213	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatgcttggaaaaccataaCtgacatagttctaaatggca	16	11	7	7	0	1	1	0	1	1	0	1	2	1	2	1	2	3	3	1	2	7	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr8:91033213C>G	uc003yek.1	+	5	635	c.494C>G	c.(493-495)ACT>AGT	p.T165S	DECR1_uc011lgc.1_Missense_Mutation_p.T156S|DECR1_uc011lgd.1_RNA	NM_001359	NP_001350	Q16698	DECR_HUMAN	2,4-dienoyl CoA reductase 1 precursor	165					fatty acid beta-oxidation|protein homotetramerization	mitochondrial matrix|nucleus|plasma membrane	2,4-dienoyl-CoA reductase (NADPH) activity|NADPH binding|oxidoreductase activity, acting on NADH or NADPH				0			BRCA - Breast invasive adenocarcinoma(11;0.00953)			AAAACCATAACTGACATAGTT	0.328													8	49					0	0	0.00308	0	0		G	91033213	G	G	91033213	3	3	79	1	0	0	0	0	1	0	0	0	4385	565	20	5	512	5	DECR1	8	91033213	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	17553104	91033213	55330809	151	50061											
RRM2B	50484	broad.mit.edu	37	chr8	103226371	103226371	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggaacatcaggcaagcaaAgtcacagtgaagtccctaaa	16	7	9	9	0	2	1	2	1	0	0	3	2	3	2	1	2	2	2	1	2	6	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr8:103226371A>T	uc003ykn.2	-	7	944	c.700T>A	c.(700-702)TTT>ATT	p.F234I	RRM2B_uc003yko.2_RNA|RRM2B_uc010mbv.1_Missense_Mutation_p.F182I|RRM2B_uc010mbw.1_Missense_Mutation_p.F22I|RRM2B_uc010mbx.1_Intron|RRM2B_uc010mby.1_Intron	NM_015713	NP_056528	Q7LG56	RIR2B_HUMAN	ribonucleotide reductase M2 B (TP53 inducible)	234					deoxyribonucleoside diphosphate metabolic process|DNA repair|nucleobase, nucleoside and nucleotide interconversion	nucleoplasm	ribonucleoside-diphosphate reductase activity|transition metal ion binding			ovary(2)	2	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000728)			AGGCAAGCAAAGTCACAGTGA	0.388								Direct_reversal_of_damage|Modulation_of_nucleotide_pools					7	48					0	0	0.00308	0	0		T	103226371	T	T	103226371	3	4	79	1	0	0	0	0	1	0	0	0	13708	72	3	5	367	5	RRM2B	8	103226371	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	12193158	103226371	43137651	152	50062											
RIMS2	9699	broad.mit.edu	37	chr8	105261784	105261784	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcatccgggcccgtggccTtgttgtaaaaccaggttcca	9	10	10	12	2	1	0	1	0	0	0	3	0	3	0	5	3	1	3	5	3	3	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr8:105261784T>C	uc003yls.2	+	26	3954	c.3713T>C	c.(3712-3714)CTT>CCT	p.L1238P	RIMS2_uc003ylp.2_Missense_Mutation_p.L1220P|RIMS2_uc003ylw.2_Missense_Mutation_p.L1227P|RIMS2_uc003ylq.2_Missense_Mutation_p.L1034P|RIMS2_uc003ylr.2_Missense_Mutation_p.L1059P	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1282	C2 2.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GCCCGTGGCCTTGTTGTAAAA	0.403										HNSCC(12;0.0054)			5	33					0	0	0.000602	0	0		C	105261784	C	C	105261784	3	2	79	1	0	0	0	0	1	0	0	0	13393	1609	56	3	3941	3	RIMS2	8	105261784	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2035413	105261784	41102238	153	50063											
CSMD3	114788	broad.mit.edu	37	chr8	113529326	113529326	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctgaatgcaggttattcTttcctctccttgaagttcat	8	17	6	10	0	3	2	1	2	2	0	5	2	4	2	3	1	2	3	3	1	4	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr8:113529326T>G	uc003ynu.2	-	28	4852	c.4693A>C	c.(4693-4695)AGA>CGA	p.R1565R	CSMD3_uc003yns.2_Silent_p.R837R|CSMD3_uc003ynt.2_Silent_p.R1525R|CSMD3_uc011lhx.1_Silent_p.R1461R	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1565	Extracellular (Potential).|Sushi 8.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CAGGTTATTCTTTCCTCTCCT	0.423										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			10	68					0	0	0.006214	0	0		G	113529326	G	G	113529326	2	3	79	1	0	0	0	0	0	0	0	1	3949	1617	56	5		5	CSMD3	8	113529326	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	8267542	113529326	32834696	154	50064											
FLJ43860	389690	broad.mit.edu	37	chr8	142500269	142500269	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcttctgtgtgggaagacGcccgtcaggagctccgtctc	6	9	14	12	3	3	1	1	0	2	1	5	3	4	3	2	3	1	2	2	3	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr8:142500269G>A	uc003ywi.2	-	5	726	c.645C>T	c.(643-645)GGC>GGT	p.G215G	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	215							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GTGGGAAGACGCCCGTCAGGA	0.637													17	28					0	0	0.004007	0	0		A	142500269	A	A	142500269	2	1	79	1	0	0	0	0	0	0	0	1	5944	1074	38	1		1	FLJ43860	8	142500269	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08	28970943	142500269	3863753	155	50065											
ZNF251	90987	broad.mit.edu	37	chr8	145948654	145948654	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatgcttcccgaaactcagCggcctgtgcattatccctta	8	11	7	15	2	1	0	1	0	0	0	3	1	3	0	4	1	4	2	4	1	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr8:145948654C>T	uc003zdv.3	-	5	647	c.391G>A	c.(391-393)GCT>ACT	p.A131T		NM_138367	NP_612376	Q9BRH9	ZN251_HUMAN	zinc finger protein 251	131					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;7.54e-38)|all cancers(56;6.19e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.198)		CGAAACTCAGCGGCCTGTGCA	0.443													14	52					0	0	0.00245	0	0		T	145948654	T	T	145948654	3	4	79	1	0	0	0	0	1	0	0	0	17821	768	27	1	1628	1	ZNF251	8	145948654	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	3448385	145948654	415368	156	50066											
DENND4C	55667	broad.mit.edu	37	chr9	19372168	19372168	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttttggagcgcctctcatTtaaatagagattcactagaa	12	14	8	7	1	2	2	2	0	1	2	3	4	2	3	1	1	1	1	1	1	5	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:19372168T>G	uc003znq.2	+	28	5052	c.5019T>G	c.(5017-5019)ATT>ATG	p.I1673M	DENND4C_uc011lnc.1_Missense_Mutation_p.I1003M|DENND4C_uc011lnd.1_Missense_Mutation_p.I961M|DENND4C_uc003znr.2_3'UTR|DENND4C_uc003zns.2_3'UTR	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	1673						integral to membrane				ovary(1)|skin(1)	2						CGCCTCTCATTTAAATAGAGA	0.403													27	53					0	0	0.009535	0	0		G	19372168	G	G	19372168	3	3	79	1	0	0	0	0	1	0	0	0	4441	1829	64	5	5129	5	DENND4C	9	19372168	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08		19372168	121841263	157	50067											
SLC24A2	25769	broad.mit.edu	37	chr9	19786835	19786835	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacaccatttctctagggaAgtgatggtggtgctttgttg	9	14	12	6	0	1	1	0	1	1	0	2	2	1	2	1	3	2	2	1	3	3	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:19786835A>C	uc003zoa.1	-	1	92	c.30T>G	c.(28-30)ACT>ACG	p.T10T	SLC24A2_uc003zob.1_Silent_p.T10T	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	10					visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		TCTCTAGGGAAGTGATGGTGG	0.423													35	77					0	0	0.003271	0	0		C	19786835	C	C	19786835	2	2	79	1	0	0	0	0	0	0	0	1	14491	59	3	5		5	SLC24A2	9	19786835	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	414667	19786835	121426596	158	50068											
TAF1L	138474	broad.mit.edu	37	chr9	32630782	32630782	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcaggtccattatacttaAcactgttggcaagaataagg	13	12	8	8	0	1	1	1	0	1	1	3	1	2	1	1	3	2	2	1	3	6	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:32630782A>C	uc003zrg.1	-	1	4886	c.4796T>G	c.(4795-4797)GTT>GGT	p.V1599G	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1599	Bromo 2.				male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		ATTATACTTAACACTGTTGGC	0.403													22	43					0	0	0.012319	0	0		C	32630782	C	C	32630782	3	2	79	1	0	0	0	0	1	0	0	0	15548	43	2	5	688	5	TAF1L	9	32630782	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	12843947	32630782	108582649	159	50069											
TAF1L	138474	broad.mit.edu	37	chr9	32632465	32632465	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacttcccagcgggacaacTttttaatctcttcctcaggc	8	13	6	14	1	3	0	2	0	1	0	6	1	5	1	2	2	2	0	2	2	2	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:32632465T>C	uc003zrg.1	-	1	3203	c.3113A>G	c.(3112-3114)AAG>AGG	p.K1038R	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1038					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		GCGGGACAACTTTTTAATCTC	0.483													49	190					0	0	0.01441	0	0		C	32632465	C	C	32632465	3	2	79	1	0	0	0	0	1	0	0	0	15548	1609	56	3	2371	3	TAF1L	9	32632465	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	1683	32632465	108580966	160	50070											
SIT1	27240	broad.mit.edu	37	chr9	35650844	35650844	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgagccgagggtcagcctGgttcatggcctgacggtttc	5	11	14	11	2	3	2	2	2	1	0	4	3	3	2	3	4	2	2	3	4	0	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:35650844G>C	uc003zxe.1	-	1	104	c.7C>G	c.(7-9)CAG>GAG	p.Q3E	SIT1_uc003zxf.1_RNA	NM_014450	NP_055265	Q9Y3P8	SIT1_HUMAN	SHP2-interacting transmembrane adaptor protein	3					regulation of T cell activation|signal transduction	integral to plasma membrane	kinase binding|SH2 domain binding				0			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GGGTCAGCCTGGTTCATGGCC	0.587													6	16					0	0	0.001168	0	0		C	35650844	C	C	35650844	3	2	79	1	0	0	0	0	1	0	0	0	14369	1357	47	5	603	5	SIT1	9	35650844	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	3018379	35650844	105562587	161	50071											
APBA1	320	broad.mit.edu	37	chr9	72131002	72131002	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcatgacccagatgggctcTttgggctcgtcgggggtgta	5	10	16	10	3	1	2	0	1	1	1	3	2	1	2	1	4	0	4	1	4	1	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:72131002T>C	uc004ahh.2	-	2	1401	c.1125A>G	c.(1123-1125)AAA>AAG	p.K375K		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	375	LIN-2/CASK binding.|Pro-rich.				axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						AGATGGGCTCTTTGGGCTCGT	0.602													39	89					0	0	0.00874	0	0		C	72131002	C	C	72131002	2	2	79	1	0	0	0	0	0	0	0	1	756	1606	56	3		3	APBA1	9	72131002	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	36480158	72131002	69082429	162	50072											
ZNF484	83744	broad.mit.edu	37	chr9	95609123	95609123	+	Frame_Shift_Del	DEL	G	-	-																															tctggtgtgtaaagagatttGatctgtcagtaaaagccttt																										TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:95609123delG	uc004asu.1	-	5	2095	c.1946delC	c.(1945-1947)TCAfs	p.S649fs	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Frame_Shift_Del_p.S651fs|ZNF484_uc010mrb.1_Frame_Shift_Del_p.S613fs|ZNF484_uc004asv.1_Frame_Shift_Del_p.S613fs	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	649	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAAGAGATTTGATCTGTCAGT	0.418													28	38	---	---	---	---						.	-	95609123	-	-	95609123	7	5	79	1	0	1	0	1	0	0	0	0	17962	1294	45	0	616	0	ZNF484	9	95609123	Frame_Shift_Del	DEL	G	TCGA-BR-8485-01A-11D-2394-08	23478121	95609123	45604308	163	50073											
KIAA1529	57653	broad.mit.edu	37	chr9	100124034	100124034	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcctgaaggaccaggaggaAgacagtgacatcctgacatc	14	6	11	10	0	0	4	0	3	0	1	3	7	2	7	3	3	0	0	3	3	2	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:100124034A>C	uc011lut.1	+	39	4832	c.4059A>C	c.(4057-4059)GAA>GAC	p.E1353D	KIAA1529_uc004axe.1_Missense_Mutation_p.E1185D|KIAA1529_uc004axg.1_Missense_Mutation_p.E1214D|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Missense_Mutation_p.E370D	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				ACCAGGAGGAAGACAGTGACA	0.602													12	49					0	0	0.010729	0	0		C	100124034	C	C	100124034	3	2	79	1	0	0	0	0	1	0	0	0	8256	69	3	5	3661	5	KIAA1529	9	100124034	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	4514911	100124034	41089397	164	50074											
OR13F1	138805	broad.mit.edu	37	chr9	107267289	107267289	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcccacctgatggtggtagTtttgttctatgggacggctc	6	13	13	9	1	1	1	0	1	1	0	2	2	1	2	2	4	1	4	2	4	2	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:107267289T>G	uc011lvm.1	+	1	746	c.746T>G	c.(745-747)GTT>GGT	p.V249G		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						ATGGTGGTAGTTTTGTTCTAT	0.478													30	60					0	0	0.008361	0	0		G	107267289	G	G	107267289	3	3	79	1	0	0	0	0	1	0	0	0	10960	1725	60	5	748	5	OR13F1	9	107267289	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	7143255	107267289	33946142	165	50075											
GSN	2934	broad.mit.edu	37	chr9	124062285	124062285	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggtgcccgaggcgcgggTgagtgcccggggggccccgg	2	3	23	13	6	0	1	0	1	0	0	0	2	0	1	4	7	2	0	4	7	0	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:124062285T>G	uc004blf.1	+	1	205	c.144_splice	c.e1+2	p.R48_splice	GSN_uc004bld.1_Intron|GSN_uc010mvq.1_Intron|GSN_uc010mvr.1_Intron|GSN_uc010mvu.1_Intron|GSN_uc010mvt.1_Intron|GSN_uc010mvs.1_Intron|GSN_uc004ble.1_Intron|GSN_uc010mvv.1_Intron|GSN_uc011lyh.1_Intron|GSN_uc011lyi.1_Intron|GSN_uc011lyj.1_5'Flank	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor						actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						gaggcgcgggtgagtgcccgg	0.348													9	14					0	0	0.004007	0	0		G	124062285	G	G	124062285	5	3	79	1	0	0	0	0	0	0	1	0	6841	1710	59	5	148	5	GSN	9	124062285	Splice_Site	SNP	T	TCGA-BR-8485-01A-11D-2394-08	16794996	124062285	17151146	166	50076											
OR1L6	392390	broad.mit.edu	37	chr9	125512140	125512140	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagacatggagataaagaActacagcagcagcacctcag	17	4	10	10	0	1	3	1	0	0	3	1	5	1	3	1	1	5	3	1	1	4	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:125512140A>C	uc011lzc.1	+	1	122	c.122A>C	c.(121-123)AAC>ACC	p.N41T		NM_001004453	NP_001004453	Q8NGR2	OR1L6_HUMAN	olfactory receptor, family 1, subfamily L,	41	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GAGATAAAGAACTACAGCAGC	0.498													50	134					0	0	0.01441	0	0		C	125512140	C	C	125512140	3	2	79	1	0	0	0	0	1	0	0	0	10985	43	2	5	16	5	OR1L6	9	125512140	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1449855	125512140	15701291	167	50077											
C9orf119	375757	broad.mit.edu	37	chr9	131038425	131038425	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcggaagggggcgtggctAtgcagcggcgtggccagagg	8	4	21	8	4	0	1	0	0	0	1	0	2	0	2	1	7	3	2	1	7	3	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:131038425A>C	uc004bup.2	+	1	1	c.1A>C	c.(1-3)ATG>CTG	p.M1L	GOLGA2_uc011maw.1_5'Flank|GOLGA2_uc010mxw.2_5'Flank|GOLGA2_uc004bul.1_5'Flank|C9orf119_uc010mxx.1_Missense_Mutation_p.M1L	NM_001040011	NP_001035100	Q1ZZU3	SWI5_HUMAN	hypothetical protein LOC375757	1					double-strand break repair via homologous recombination	Swi5-Sfr1 complex	protein binding				0						GGGCGTGGCTATGCAGCGGCG	0.637													25	106					0	0	0.004656	0	0		C	131038425	C	C	131038425	3	2	79	1	0	0	0	0	1	0	0	0	2455	463	16	5	3	5	C9orf119	9	131038425	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	5526285	131038425	10175006	168	50078											
TRUB2	26995	broad.mit.edu	37	chr9	131077859	131077859	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgtaccttggtaagatgaGcattgtacatatcggtgagg	10	12	12	7	2	0	3	0	2	0	1	2	3	0	3	1	3	3	4	1	3	4	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:131077859G>T	uc004buq.1	-	4	375	c.365C>A	c.(364-366)GCT>GAT	p.A122D		NM_015679	NP_056494	O95900	TRUB2_HUMAN	TruB pseudouridine (psi) synthase homolog 2	122					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(1)	1						GGTAAGATGAGCATTGTACAT	0.572													6	13					0.00116845	0.00118571	0.001168	1	0		T	131077859	T	T	131077859	3	4	79	1	0	0	0	0	1	0	0	0	16629	971	34	5	650	5	TRUB2	9	131077859	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	39434	131077859	10135572	169	50079											
COL5A1	1289	broad.mit.edu	37	chr9	137711978	137711978	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagggtcatccaggcctgaTcgggctcatcggtcctccgg	6	8	13	14	3	2	1	2	1	0	0	7	1	5	1	4	5	0	1	4	5	0	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:137711978T>G	uc004cfe.2	+	58	4845	c.4463T>G	c.(4462-4464)ATC>AGC	p.I1488S	uc004cff.2_RNA	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1488	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		CCAGGCCTGATCGGGCTCATC	0.642													61	37					0	0	0.01441	0	0		G	137711978	G	G	137711978	3	3	79	1	0	0	0	0	1	0	0	0	3699	1435	50	5	4693	5	COL5A1	9	137711978	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	6634119	137711978	3501453	170	50080											
ABCA2	20	broad.mit.edu	37	chr9	139905696	139905696	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccatctccatgagcccgtgGcccaggttgtagttggggaa	7	9	14	11	1	1	1	0	1	1	0	2	2	1	2	4	4	1	3	4	4	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr9:139905696G>A	uc011mem.1	-	37	6010	c.5862C>T	c.(5860-5862)GGC>GGT	p.G1954G	ABCA2_uc011mel.1_Silent_p.G1955G|ABCA2_uc004ckl.1_Silent_p.G1885G|ABCA2_uc004ckm.1_Silent_p.G1985G	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1954					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		TGAGCCCGTGGCCCAGGTTGT	0.627													4	63					0	0	0.009096	0	0		A	139905696	A	A	139905696	2	1	79	1	0	0	0	0	0	0	0	1	32	1190	42	2		2	ABCA2	9	139905696	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08	2193718	139905696	1307735	171	50081											
PRKCQ	5588	broad.mit.edu	37	chr10	6520990	6520990	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaaacatgtgcgtcagaaaCggatgctcccaggccaagga	14	5	11	11	2	1	1	1	0	0	1	2	3	2	3	2	3	4	1	2	3	4	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr10:6520990C>T	uc001ijj.1	-	12	1392	c.1317G>A	c.(1315-1317)CCG>CCA	p.P439P	PRKCQ_uc009xim.1_Silent_p.P439P|PRKCQ_uc001iji.1_Silent_p.P472P|PRKCQ_uc009xin.1_Silent_p.P403P|PRKCQ_uc010qax.1_Silent_p.P314P	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	439	Protein kinase.				axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						GCGTCAGAAACGGATGCTCCC	0.478													37	49					0	0	0.004289	0	0		T	6520990	T	T	6520990	2	4	79	1	0	0	0	0	0	0	0	1	12537	523	19	1		1	PRKCQ	10	6520990	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08		6520990	129013757	172	50082											
SEPHS1	22929	broad.mit.edu	37	chr10	13370452	13370452	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttattccatttctcaggcTgataatagaaatgtaggtga	12	15	8	6	0	2	3	1	2	2	1	4	3	3	3	1	2	0	2	1	2	5	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr10:13370452T>A	uc001imk.2	-	7	1011	c.652_splice	c.e7-1	p.P218_splice	SEPHS1_uc001imh.2_Splice_Site_p.P142_splice|SEPHS1_uc010qbs.1_Splice_Site_p.P170_splice|SEPHS1_uc001imi.2_Splice_Site_p.P218_splice|SEPHS1_uc001imj.2_Splice_Site_p.P218_splice|SEPHS1_uc010qbt.1_Splice_Site_p.P151_splice	NM_012247	NP_036379	P49903	SPS1_HUMAN	selenophosphate synthetase 1						protein modification process		ATP binding|GTP binding|selenide, water dikinase activity			skin(1)	1						TTTCTCAGGCTGATAATAGAA	0.403													7	109					0	0	0.001984	0	0		A	13370452	A	A	13370452	5	1	79	1	0	0	0	0	0	0	1	0	14079	1594	55	5	540	5	SEPHS1	10	13370452	Splice_Site	SNP	T	TCGA-BR-8485-01A-11D-2394-08	6849462	13370452	122164295	173	50083											
CUBN	8029	broad.mit.edu	37	chr10	16970291	16970291	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactgctagctgctgggccaAgttattatctcctacgttga	9	13	9	10	1	1	1	0	1	1	0	2	1	1	1	2	1	5	5	2	1	6	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr10:16970291A>C	uc001ioo.2	-	41	6188	c.6136T>G	c.(6136-6138)TTG>GTG	p.L2046V		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2046	CUB 14.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TGCTGGGCCAAGTTATTATCT	0.473													13	58					0	0	0.013537	0	0		C	16970291	C	C	16970291	3	2	79	1	0	0	0	0	1	0	0	0	4054	69	3	5	4843	5	CUBN	10	16970291	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	3599839	16970291	118564456	174	50084											
ARL5B	221079	broad.mit.edu	37	chr10	18957582	18957582	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gagtctctgcgatcatcctgGaacacatattactcaaatac	13	11	6	11	1	3	0	2	0	1	0	5	3	4	1	1	1	4	0	1	1	5	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr10:18957582G>C	uc001iqd.1	+	3	485	c.231G>C	c.(229-231)TGG>TGC	p.W77C		NM_178815	NP_848930	Q96KC2	ARL5B_HUMAN	ADP-ribosylation factor-like 8	77					small GTPase mediated signal transduction	intracellular	GTP binding			ovary(1)	1						GATCATCCTGGAACACATATT	0.383													12	51					0	0	0.003163	0	0		C	18957582	C	C	18957582	3	2	79	1	0	0	0	0	1	0	0	0	941	1183	41	5	241	5	ARL5B	10	18957582	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	1987291	18957582	116577165	175	50085											
CSTF2T	23283	broad.mit.edu	37	chr10	53458078	53458078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgctcgagaatctctaccaCctctaccatccataggtaga	11	10	6	14	2	2	2	0	0	2	2	6	3	3	2	4	1	2	2	4	1	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr10:53458078C>T	uc001jjp.2	-	1	1278	c.1232G>A	c.(1231-1233)GGT>GAT	p.G411D	PRKG1_uc001jjm.2_Intron|PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron	NM_015235	NP_056050	Q9H0L4	CSTFT_HUMAN	cleavage stimulation factor, 3' pre-RNA, subunit	411	Gly-rich.				mRNA processing	nucleus	nucleotide binding|RNA binding			ovary(1)	1				COAD - Colon adenocarcinoma(2;0.00736)|Colorectal(2;0.00898)|all cancers(4;0.0188)|GBM - Glioblastoma multiforme(4;0.0778)|Epithelial(53;0.122)		ATCTCTACCACCTCTACCATC	0.522													7	128					0	0	0.001984	0	0		T	53458078	T	T	53458078	3	4	79	1	0	0	0	0	1	0	0	0	3988	507	18	4	622	4	CSTF2T	10	53458078	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	34500496	53458078	82076669	176	50086											
DKK1	22943	broad.mit.edu	37	chr10	54074399	54074399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgcgccgggaatcctgtacCcgggcgggaataagtaccag	9	5	14	13	5	0	0	0	0	0	0	1	2	1	2	5	3	2	2	5	3	5	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr10:54074399C>T	uc001jjr.2	+	1	359	c.205C>T	c.(205-207)CCG>TCG	p.P69S	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	69					negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						AATCCTGTACCCGGGCGGGAA	0.617											OREG0020191	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	113					0	0	0.001984	0	0		T	54074399	T	T	54074399	3	4	79	1	0	0	0	0	1	0	0	0	4550	623	22	4	207	4	DKK1	10	54074399	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	616321	54074399	81460348	177	50087											
FAM13C	220965	broad.mit.edu	37	chr10	61011428	61011428	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctcggagatggtcaagaAgtacaggcctatataaggta	13	11	11	6	1	2	2	1	0	1	2	3	3	2	2	1	4	1	2	1	4	7	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr10:61011428A>C	uc001jkn.2	-	14	1675	c.1541T>G	c.(1540-1542)CTT>CGT	p.L514R	FAM13C_uc001jko.2_Missense_Mutation_p.L416R|FAM13C_uc010qid.1_Missense_Mutation_p.L430R|FAM13C_uc010qie.1_Missense_Mutation_p.L431R|FAM13C_uc010qif.1_Missense_Mutation_p.L536R	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	514										ovary(2)	2						ATGGTCAAGAAGTACAGGCCT	0.393													17	67					0	0	0.00499	0	0		C	61011428	C	C	61011428	3	2	79	1	0	0	0	0	1	0	0	0	5465	72	3	5	224	5	FAM13C	10	61011428	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	6937029	61011428	74523319	178	50088											
FAM190B	54462	broad.mit.edu	37	chr10	86131567	86131567	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtggatcttacaaagccTtatcagaaccaacagctatc	13	10	7	11	0	2	1	1	0	1	1	3	2	2	2	2	1	5	2	2	1	6	3	rs146103957	byFrequency	TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr10:86131567T>A	uc001kdh.1	+	2	953	c.759T>A	c.(757-759)CCT>CCA	p.P253P	FAM190B_uc001kdg.1_Silent_p.P253P|FAM190B_uc010qmd.1_Silent_p.P253P	NM_018999	NP_061872	Q9H7U1	F190B_HUMAN	granule cell antiserum positive 14	253										ovary(3)|skin(1)	4						TTACAAAGCCTTATCAGAACC	0.408													14	39					0	0	0.001855	0	0		A	86131567	A	A	86131567	2	1	79	1	0	0	0	0	0	0	0	1	5533	1596	56	5		5	FAM190B	10	86131567	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	25120139	86131567	49403180	179	50089											
LIPF	8513	broad.mit.edu	37	chr10	90435384	90435384	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacataatccagcaggaacTtctgttcaaaacatgttcca	14	11	5	11	0	3	0	2	0	1	0	5	1	5	1	2	1	3	3	2	1	4	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr10:90435384T>G	uc001kfg.1	+	8	1024	c.858T>G	c.(856-858)ACT>ACG	p.T286T	LIPF_uc001kfh.1_Silent_p.T263T|LIPF_uc010qmt.1_Silent_p.T296T|LIPF_uc010qmu.1_Silent_p.T253T	NM_004190	NP_004181	P07098	LIPG_HUMAN	lipase, gastric precursor	286					lipid catabolic process|triglyceride metabolic process	extracellular region	lipid binding|triglyceride lipase activity				0		Colorectal(252;0.0161)		Colorectal(12;3.91e-05)|COAD - Colon adenocarcinoma(12;5.43e-05)		CAGCAGGAACTTCTGTTCAAA	0.348													4	17					0	0	0.009096	0	0		G	90435384	G	G	90435384	2	3	79	1	0	0	0	0	0	0	0	1	8839	1596	56	5		5	LIPF	10	90435384	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	4303817	90435384	45099363	180	50090											
CYP2E1	1571	broad.mit.edu	37	chr10	135340998	135340998	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacagcagctggaatctgccCccaggccctttcccgcttcc	6	8	8	19	1	1	0	0	0	1	0	3	1	3	1	5	2	3	3	5	2	1	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr10:135340998C>T	uc001lnj.1	+	1	132	c.99C>T	c.(97-99)CCC>CCT	p.P33P	CYP2E1_uc001lnk.1_5'UTR|CYP2E1_uc009ybl.1_5'UTR|CYP2E1_uc009ybm.1_5'UTR	NM_000773	NP_000764	P05181	CP2E1_HUMAN	cytochrome P450, family 2, subfamily E,	33					drug metabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|enzyme binding|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen|oxygen binding			central_nervous_system(3)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)	Acetaminophen(DB00316)|Chlorzoxazone(DB00356)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Dacarbazine(DB00851)|Dapsone(DB00250)|Enflurane(DB00228)|Eszopiclone(DB00402)|Ethanol(DB00898)|Ethosuximide(DB00593)|Fomepizole(DB01213)|Glutathione(DB00143)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Isoniazid(DB00951)|Menadione(DB00170)|Mephenytoin(DB00532)|Methoxyflurane(DB01028)|Midazolam(DB00683)|Mitoxantrone(DB01204)|Nicotine(DB00184)|Nifedipine(DB01115)|Nitrofurantoin(DB00698)|Orphenadrine(DB01173)|Phenelzine(DB00780)|Quinidine(DB00908)|S-Adenosylmethionine(DB00118)|Sevoflurane(DB01236)|Theophylline(DB00277)|Tolbutamide(DB01124)	GGAATCTGCCCCCAGGCCCTT	0.572									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				9	97					0	0	0.006214	0	0		T	135340998	T	T	135340998	2	4	79	1	0	0	0	0	0	0	0	1	4173	610	22	4		4	CYP2E1	10	135340998	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	44905614	135340998	193749	181	50091											
LRDD	55367	broad.mit.edu	37	chr11	803460	803460	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcatctgcaggacacaggcCggcagtgtctccaggctgtt	7	8	13	13	2	2	0	0	0	2	0	3	1	2	1	2	4	1	5	2	4	0	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:803460C>T	uc001lro.1	-	3	565	c.423G>A	c.(421-423)CCG>CCA	p.P141P	LRDD_uc009yck.1_5'Flank|LRDD_uc001lrk.1_Silent_p.P141P|LRDD_uc001lrl.1_5'UTR|LRDD_uc001lrm.1_5'UTR|LRDD_uc001lrn.1_5'UTR|LRDD_uc001lrp.1_5'UTR	NM_145886	NP_665893	Q9HB75	PIDD_HUMAN	leucine rich repeat and death domain containing	141	LRR 1.				apoptosis|signal transduction	cytoplasm|nucleus	death receptor binding				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGACACAGGCCGGCAGTGTCT	0.667													18	82					0	0	0.006122	0	0		T	803460	T	T	803460	2	4	79	1	0	0	0	0	0	0	0	1	8954	639	23	1		1	LRDD	11	803460	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08		803460	134203056	182	50092											
KCNQ1	3784	broad.mit.edu	37	chr11	2549242	2549242	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggccacggggactctcttCtggatggtacgtagcatctg	6	11	13	11	2	3	0	0	0	3	0	4	2	3	2	1	5	2	3	1	5	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:2549242C>T	uc001lwn.2	+	2	579	c.471C>T	c.(469-471)TTC>TTT	p.F157F	KCNQ1_uc009ydo.1_3'UTR|KCNQ1_uc009ydp.1_Missense_Mutation_p.S10F|KCNQ1_uc001lwo.2_Silent_p.F30F	NM_000218	NP_000209	P51787	KCNQ1_HUMAN	potassium voltage-gated channel, KQT-like	157	Helical; Name=Segment S2; (Potential).		F -> C (in LQT1).		blood circulation|membrane depolarization|muscle contraction|sensory perception of sound		delayed rectifier potassium channel activity|protein binding			ovary(1)	1		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)	GGACTCTCTTCTGGATGGTAC	0.617													19	72					0	0	0.007413	0	0		T	2549242	T	T	2549242	2	4	79	1	0	0	0	0	0	0	0	1	8098	912	32	4		4	KCNQ1	11	2549242	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	1745782	2549242	132457274	183	50093											
OR51F2	119694	broad.mit.edu	37	chr11	4843208	4843208	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactgctaccatgttgatcTcatccaactctcctgcacag	9	13	5	14	0	2	1	1	1	2	0	5	1	3	1	3	0	5	3	3	0	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:4843208T>C	uc010qyn.1	+	1	593	c.593T>C	c.(592-594)CTC>CCC	p.L198P		NM_001004753	NP_001004753	Q8NH61	O51F2_HUMAN	olfactory receptor, family 51, subfamily F,	198	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		CATGTTGATCTCATCCAACTC	0.473													26	102					0	0	0.00333	0	0		C	4843208	C	C	4843208	3	2	79	1	0	0	0	0	1	0	0	0	11116	1551	54	3	595	3	OR51F2	11	4843208	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2293966	4843208	130163308	184	50094											
OR52N1	79473	broad.mit.edu	37	chr11	5809914	5809914	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgaggtacataaggccgaAgttccctgtaatagcaatgc	13	9	11	8	1	0	1	0	1	0	0	1	3	1	1	2	2	3	4	2	2	6	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:5809914A>C	uc010qzo.1	-	1	133	c.133T>G	c.(133-135)TTC>GTC	p.F45V	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001913	NP_001001913	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.05e-11)|LUSC - Lung squamous cell carcinoma(625;0.112)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.195)		ATAAGGCCGAAGTTCCCTGTA	0.463													18	39					0	0	0.00499	0	0		C	5809914	C	C	5809914	3	2	79	1	0	0	0	0	1	0	0	0	11146	72	3	5	832	5	OR52N1	11	5809914	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	966706	5809914	129196602	185	50095											
NLRP14	338323	broad.mit.edu	37	chr11	7064294	7064294	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaccagttttttgaagataAgaggtgggccatgaaagtat	13	13	11	4	0	0	4	0	2	0	2	0	4	0	4	2	2	1	2	2	2	5	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:7064294A>C	uc001mfb.1	+	4	1360	c.1037A>C	c.(1036-1038)AAG>ACG	p.K346T		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	346	NACHT.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		TTTGAAGATAAGAGGTGGGCC	0.423													36	92					0	0	0.004289	0	0		C	7064294	C	C	7064294	3	2	79	1	0	0	0	0	1	0	0	0	10495	72	3	5	1047	5	NLRP14	11	7064294	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1254380	7064294	127942222	186	50096											
KCNC1	3746	broad.mit.edu	37	chr11	17793502	17793502	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgactttgtggccatcctGcccttctacctggaggtggg	5	13	12	11	0	1	1	0	1	1	0	2	2	2	2	4	4	2	0	4	4	1	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:17793502G>A	uc001mnk.3	+	2	916	c.861G>A	c.(859-861)CTG>CTA	p.L287L	KCNC1_uc009yhc.1_Silent_p.L287L	NM_004976	NP_004967	P48547	KCNC1_HUMAN	Shaw-related voltage-gated potassium channel	287	Helical; Name=Segment S3; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)	1						TGGCCATCCTGCCCTTCTACC	0.577													11	146					0	0	0.001855	0	0		A	17793502	A	A	17793502	2	1	79	1	0	0	0	0	0	0	0	1	8030	1306	46	2		2	KCNC1	11	17793502	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08	10729208	17793502	117213014	187	50097											
NELL1	4745	broad.mit.edu	37	chr11	20907078	20907078	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcgcaaccaaaagcatggcTtattcaaagtaagcactaac	17	7	7	10	1	1	0	1	0	0	0	1	0	1	0	1	1	5	5	1	1	7	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:20907078T>C	uc001mqe.2	+	5	748	c.595T>C	c.(595-597)TTA>CTA	p.L199L	NELL1_uc001mqf.2_Silent_p.L199L|NELL1_uc009yid.2_Silent_p.L227L|NELL1_uc010rdo.1_Silent_p.L142L|NELL1_uc010rdp.1_Intron	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	199	TSP N-terminal.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						AAAGCATGGCTTATTCAAAGT	0.388													10	25					0	0	0.006214	0	0		C	20907078	C	C	20907078	2	2	79	1	0	0	0	0	0	0	0	1	10352	1606	56	3		3	NELL1	11	20907078	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	3113576	20907078	114099438	188	50098											
ANO3	63982	broad.mit.edu	37	chr11	26663444	26663444	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctgctctgtgatgtaggTtgatccagaactggtggtca	7	13	14	7	0	3	3	1	2	2	1	4	3	4	3	1	4	2	3	1	4	2	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:26663444T>C	uc001mqt.3	+	22	2288	c.2143T>C	c.(2143-2145)TTG>CTG	p.L715L	ANO3_uc010rdr.1_Silent_p.L699L|ANO3_uc010rds.1_Silent_p.L554L|ANO3_uc010rdt.1_Silent_p.L569L	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	715	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GTGATGTAGGTTGATCCAGAA	0.423													30	55					0	0	0.012213	0	0		C	26663444	C	C	26663444	2	2	79	1	0	0	0	0	0	0	0	1	698	1739	60	3		3	ANO3	11	26663444	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	5756366	26663444	108343072	189	50099											
KCNA4	3739	broad.mit.edu	37	chr11	30033274	30033274	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagatgacaatggagattaAgatgaccaggacggacacaa	19	5	11	6	1	0	5	0	2	0	3	0	8	0	7	1	3	0	0	1	3	4	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:30033274A>T	uc001msk.2	-	2	2104	c.952T>A	c.(952-954)TTA>ATA	p.L318I		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	318	Helical; Name=Segment S1; (Potential).					voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						ATGGAGATTAAGATGACCAGG	0.502													30	61					0	0	0.009535	0	0		T	30033274	T	T	30033274	3	4	79	1	0	0	0	0	1	0	0	0	8021	69	3	5	1013	5	KCNA4	11	30033274	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	3369830	30033274	104973242	190	50100											
IMMP1L	196294	broad.mit.edu	37	chr11	31454111	31454111	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaaaatcactcagaggcCaaatctgtaaaatcaaaatg	19	8	5	9	0	4	1	3	0	1	1	5	1	5	1	2	1	0	1	2	1	7	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:31454111C>A	uc001msy.1	-	7	633	c.437G>T	c.(436-438)TGG>TTG	p.W146L	IMMP1L_uc001msz.1_Missense_Mutation_p.W146L|DNAJC24_uc001msx.2_3'UTR|DNAJC24_uc009yjm.2_3'UTR|DNAJC24_uc009yjn.1_RNA	NM_144981	NP_659418	Q96LU5	IMP1L_HUMAN	IMP1 inner mitochondrial membrane	146					proteolysis	mitochondrial inner membrane	serine-type peptidase activity				0	Lung SC(675;0.225)					ACTCAGAGGCCAAATCTGTAA	0.353													8	42					0.000157383	0.000160898	0.00308	1	0		A	31454111	A	A	31454111	3	1	79	1	0	0	0	0	1	0	0	0	7732	595	21	5	67	5	IMMP1L	11	31454111	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	1420837	31454111	103552405	191	50101											
OR4S1	256148	broad.mit.edu	37	chr11	48327862	48327862	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacatgctttgtggtattcTtcctctttcatgtgctcact	6	19	6	10	0	4	0	2	0	2	0	5	0	5	0	1	1	3	3	1	1	2	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:48327862T>G	uc010rhu.1	+	1	88	c.88T>G	c.(88-90)TTC>GTC	p.F30V		NM_001004725	NP_001004725	Q8NGB4	OR4S1_HUMAN	olfactory receptor, family 4, subfamily S,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TGTGGTATTCTTCCTCTTTCA	0.453													35	190					0	0	0.003271	0	0		G	48327862	G	G	48327862	3	3	79	1	0	0	0	0	1	0	0	0	11101	1609	56	5	90	5	OR4S1	11	48327862	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	16873751	48327862	86678654	192	50102											
OR4C13	283092	broad.mit.edu	37	chr11	49974429	49974429	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcatgggtaggaggctttcTtcatgcaaccatacagatcc	10	11	10	10	0	3	1	2	0	1	1	4	2	4	2	2	3	3	3	2	3	3	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:49974429T>G	uc010rhz.1	+	1	455	c.455T>G	c.(454-456)CTT>CGT	p.L152R		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						GGAGGCTTTCTTCATGCAACC	0.448													34	81					0	0	0.010818	0	0		G	49974429	G	G	49974429	3	3	79	1	0	0	0	0	1	0	0	0	11066	1609	56	5	457	5	OR4C13	11	49974429	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	1646567	49974429	85032087	193	50103											
OR4A5	81318	broad.mit.edu	37	chr11	51411522	51411522	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtttttctatagcatttcTcatctctgaatttctcaacg	9	18	5	9	1	4	1	2	1	4	0	7	2	4	1	0	0	2	2	0	0	4	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:51411522T>C	uc001nhi.1	-	1	874	c.874A>G	c.(874-876)AGA>GGA	p.R292G		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	292	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				ATAGCATTTCTCATCTCTGAA	0.343													5	24					0	0	0.000602	0	0		C	51411522	C	C	51411522	3	2	79	1	0	0	0	0	1	0	0	0	11062	1559	54	3	77	3	OR4A5	11	51411522	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	1437093	51411522	83594994	194	50104											
OR5D14	219436	broad.mit.edu	37	chr11	55563320	55563320	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagataaaagcatcttctacTttagctgcatgatgcagtac	13	12	7	9	0	2	2	0	1	2	1	2	2	2	2	0	0	6	5	0	0	5	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:55563320T>G	uc010rim.1	+	1	289	c.289T>G	c.(289-291)TTT>GTT	p.F97V		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	97	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				CATCTTCTACTTTAGCTGCAT	0.453													6	58					0	0	0.001168	0	0		G	55563320	G	G	55563320	3	3	79	1	0	0	0	0	1	0	0	0	11174	1609	56	5	291	5	OR5D14	11	55563320	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	4151798	55563320	79443196	195	50105											
SPRYD5	84767	broad.mit.edu	37	chr11	55653074	55653074	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagtgctctgaatgcaagaAgacaacgcggcagagaaacc	15	5	11	10	2	2	4	1	1	1	3	2	5	2	4	1	1	4	3	1	1	5	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:55653074A>C	uc010rip.1	+	2	262	c.170A>C	c.(169-171)AAG>ACG	p.K57T	SPRYD5_uc010riq.1_5'Flank	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	57						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				GAATGCAAGAAGACAACGCGG	0.512													9	36					0	0	0.004482	0	0		C	55653074	C	C	55653074	3	2	79	1	0	0	0	0	1	0	0	0	15136	72	3	5	172	5	SPRYD5	11	55653074	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	89754	55653074	79353442	196	50106											
SPRYD5	84767	broad.mit.edu	37	chr11	55659067	55659067	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccccaattgctccttcTcacctcctctcaggcctatc	6	12	3	20	0	2	0	2	0	2	0	8	0	5	0	7	1	1	1	7	1	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:55659067T>C	uc010rip.1	+	7	1410	c.1318T>C	c.(1318-1320)TCA>CCA	p.S440P	SPRYD5_uc010riq.1_Missense_Mutation_p.S297P	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	440	B30.2/SPRY.					intracellular	zinc ion binding				0		all_epithelial(135;0.226)				TTGCTCCTTCTCACCTCCTCT	0.458													47	108					0	0	0.01441	0	0		C	55659067	C	C	55659067	3	2	79	1	0	0	0	0	1	0	0	0	15136	1551	54	3	1340	3	SPRYD5	11	55659067	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	5993	55659067	79347449	197	50107											
OR8J3	81168	broad.mit.edu	37	chr11	55905014	55905014	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctagatgtctcaggaaaaAgtacatggggttttgaagtc	13	11	12	5	0	1	2	1	1	1	1	3	3	1	3	0	3	2	3	0	3	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:55905014A>G	uc010riz.1	-	1	181	c.181T>C	c.(181-183)TTT>CTT	p.F61L		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	61	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					CTCAGGAAAAAGTACATGGGG	0.443													26	138					0	0	0.003954	0	0		G	55905014	G	G	55905014	3	3	79	1	0	0	0	0	1	0	0	0	11261	72	3	3	768	3	OR8J3	11	55905014	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	245947	55905014	79101502	198	50108											
OR5J2	282775	broad.mit.edu	37	chr11	55944631	55944631	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcagccacttcttctgtGacattccttcactgctaaag	8	14	6	13	0	4	1	2	1	2	0	5	1	5	1	2	0	2	1	2	0	2	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:55944631G>T	uc010rjb.1	+	1	538	c.538G>T	c.(538-540)GAC>TAC	p.D180Y		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					CTTCTTCTGTGACATTCCTTC	0.448													14	94					0.000308642	0.000314754	0.003163	1	0		T	55944631	T	T	55944631	3	4	79	1	0	0	0	0	1	0	0	0	11184	1290	45	5	540	5	OR5J2	11	55944631	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	39617	55944631	79061885	199	50109											
OR5T3	390154	broad.mit.edu	37	chr11	56020319	56020319	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtgatatgcctcctctccTtgctatttcttgttctgaca	5	19	6	11	0	3	2	0	2	3	0	5	2	4	2	3	0	2	2	3	0	2	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:56020319T>A	uc010rjd.1	+	1	644	c.644T>A	c.(643-645)CTT>CAT	p.L215H		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	215	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					CCTCCTCTCCTTGCTATTTCT	0.403													36	186					0	0	0.004289	0	0		A	56020319	A	A	56020319	3	1	79	1	0	0	0	0	1	0	0	0	11202	1609	56	5	646	5	OR5T3	11	56020319	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	75688	56020319	78986197	200	50110											
OR8K1	390157	broad.mit.edu	37	chr11	56113842	56113842	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgccactcagctagcattcTttgagattttcatcatctct	9	16	5	11	0	5	1	3	1	2	1	6	2	5	1	1	0	3	2	1	0	1	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:56113842T>G	uc010rjg.1	+	1	328	c.328T>G	c.(328-330)TTT>GTT	p.F110V		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					GCTAGCATTCTTTGAGATTTT	0.408										HNSCC(65;0.19)			46	123					0	0	0.010771	0	0		G	56113842	G	G	56113842	3	3	79	1	0	0	0	0	1	0	0	0	11262	1609	56	5	330	5	OR8K1	11	56113842	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	93523	56113842	78892674	201	50111											
OR5M11	219487	broad.mit.edu	37	chr11	56309940	56309940	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttagattcctcaacagtcTtatctgttggtggtcttata	8	19	7	7	0	4	1	1	0	3	1	5	1	5	1	1	2	1	1	1	2	5	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:56309940T>A	uc010rjl.1	-	1	794	c.794A>T	c.(793-795)AAG>ATG	p.K265M		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTCAACAGTCTTATCTGTTGG	0.418													19	60					0	0	0.006122	0	0		A	56309940	A	A	56309940	3	1	79	1	0	0	0	0	1	0	0	0	11193	1609	56	5	126	5	OR5M11	11	56309940	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	196098	56309940	78696576	202	50112											
MPEG1	219972	broad.mit.edu	37	chr11	58979085	58979085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgggataacaggtgcacCggggagtagccagaggggca	11	5	17	8	1	1	1	0	0	1	1	1	3	1	3	2	6	3	3	2	6	2	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:58979085C>T	uc001nnu.3	-	1	1410	c.1254G>A	c.(1252-1254)CCG>CCA	p.P418P		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	418	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				ACAGGTGCACCGGGGAGTAGC	0.542													11	53					0	0	0.008291	0	0		T	58979085	T	T	58979085	2	4	79	1	0	0	0	0	0	0	0	1	9741	639	23	1		1	MPEG1	11	58979085	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	2669145	58979085	76027431	203	50113											
GIF	2694	broad.mit.edu	37	chr11	59599167	59599167	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccttcattcaaaggtgtTacaccactaagaaactgcca	14	10	5	12	0	3	1	3	0	0	1	3	1	3	1	3	1	3	1	3	1	4	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:59599167T>C	uc001noi.2	-	8	1224	c.1176A>G	c.(1174-1176)GTA>GTG	p.V392V		NM_005142	NP_005133	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	392	Cobalamin binding.				cobalamin metabolic process|cobalamin transport|cobalt ion transport	apical plasma membrane|endosome|extracellular space|microvillus	cobalamin binding			ovary(1)|liver(1)	2						TCAAAGGTGTTACACCACTAA	0.343													4	63					0	0	0.000602	0	0		C	59599167	C	C	59599167	2	2	79	1	0	0	0	0	0	0	0	1	6391	1741	61	3		3	GIF	11	59599167	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	620082	59599167	75407349	204	50114											
GIF	2694	broad.mit.edu	37	chr11	59609977	59609977	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcggacggctatcggcaaGgtcgcctcagagttcttctg	8	9	13	11	4	3	1	1	0	2	1	5	2	3	2	1	4	1	3	1	4	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:59609977G>A	uc001noi.2	-	4	498	c.450C>T	c.(448-450)ACC>ACT	p.T150T	GIF_uc010rkz.1_3'UTR	NM_005142	NP_005133	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	150					cobalamin metabolic process|cobalamin transport|cobalt ion transport	apical plasma membrane|endosome|extracellular space|microvillus	cobalamin binding			ovary(1)|liver(1)	2						CTATCGGCAAGGTCGCCTCAG	0.577													27	87					0	0	0.004656	0	0		A	59609977	A	A	59609977	2	1	79	1	0	0	0	0	0	0	0	1	6391	987	35	4		4	GIF	11	59609977	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08	10810	59609977	75396539	205	50115											
OVOL1	5017	broad.mit.edu	37	chr11	65562559	65562559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtgacaaggccttcaCgcagcgctgctctctggagt	6	10	12	13	2	2	1	1	1	1	0	3	2	2	2	2	2	2	3	2	2	1	1	rs151272806		TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:65562559C>T	uc001ofp.2	+	4	867	c.551C>T	c.(550-552)ACG>ATG	p.T184M	OVOL1_uc001ofq.2_Missense_Mutation_p.T122M	NM_004561	NP_004552	O14753	OVOL1_HUMAN	OVO-like 1 binding protein	184	C2H2-type 3.				transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				READ - Rectum adenocarcinoma(159;0.17)		AAGGCCTTCACGCAGCGCTGC	0.617													9	64					0	0	0.004482	0	0		T	65562559	T	T	65562559	3	4	79	1	0	0	0	0	1	0	0	0	11345	536	19	1	565	1	OVOL1	11	65562559	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	5952582	65562559	69443957	206	50116											
DLG2	1740	broad.mit.edu	37	chr11	84996396	84996396	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttagcaatgtcacctcataAaattcttggatatctgtaaa	14	15	5	7	0	4	0	2	0	2	0	4	1	4	1	1	1	1	2	1	1	7	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:84996396A>G	uc001pak.2	-	4	366	c.54T>C	c.(52-54)TTT>TTC	p.F18F		NM_001142699	NP_001136171	Q15700	DLG2_HUMAN	chapsyn-110 isoform 1	Error:Variant_position_missing_in_Q15700_after_alignment						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				TCACCTCATAAAATTCTTGGA	0.333													11	37					0	0	0.010729	0	0		G	84996396	G	G	84996396	2	3	79	1	0	0	0	0	0	0	0	1	4561	11	1	3		3	DLG2	11	84996396	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	19433837	84996396	50010120	207	50117											
GRM5	2915	broad.mit.edu	37	chr11	88258487	88258487	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttgcttacctgctcattgTtgctctcccaccattcccca	5	15	5	16	0	2	0	1	0	1	0	4	0	3	0	5	0	4	5	5	0	1	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:88258487T>G	uc001pcq.2	-	8	2916	c.2716A>C	c.(2716-2718)ACA>CCA	p.T906P	GRM5_uc009yvm.2_Intron	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	906	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CTGCTCATTGTTGCTCTCCCA	0.507													63	240					0	0	0.01441	0	0		G	88258487	G	G	88258487	3	3	79	1	0	0	0	0	1	0	0	0	6816	1725	60	5	930	5	GRM5	11	88258487	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	3262091	88258487	46748029	208	50118											
TYR	7299	broad.mit.edu	37	chr11	88911404	88911404	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgccagtgctctggcaacTtcatgggattcaactgtgga	8	11	11	11	0	3	0	2	0	1	0	3	2	3	2	2	3	4	2	2	3	2	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:88911404T>C	uc001pcs.2	+	1	365	c.283T>C	c.(283-285)TTC>CTC	p.F95L		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	95	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	CTCTGGCAACTTCATGGGATT	0.502									Oculocutaneous_Albinism				11	46					0	0	0.008291	0	0		C	88911404	C	C	88911404	3	2	79	1	0	0	0	0	1	0	0	0	16839	1609	56	3	285	3	TYR	11	88911404	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	652917	88911404	46095112	209	50119											
KDM4D	55693	broad.mit.edu	37	chr11	94732108	94732108	+	Nonstop_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgggcccctgtgccctaAgtccacgggctgtctttata	6	11	11	13	1	1	0	0	0	1	0	2	0	2	0	4	2	2	2	4	2	3	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:94732108A>C	uc001pfe.2	+	3	2404	c.1572A>C	c.(1570-1572)TAA>TAC	p.*524Y		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	524					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CTGTGCCCTAAGTCCACGGGC	0.532													9	31					0	0	0.004482	0	0		C	94732108	C	C	94732108	4	2	79	1	0	0	0	0	0	0	0	0	8147	79	3	5	1574	5	KDM4D	11	94732108	Nonstop_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	5820704	94732108	40274408	210	50120											
TRPC6	7225	broad.mit.edu	37	chr11	101454101	101454101	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtagcaaggcagcggggctTgcgggcagccgtcttctccc	5	7	15	14	4	2	0	0	0	2	0	3	0	2	0	2	4	4	5	2	4	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:101454101T>C	uc001pgk.3	-	1	559	c.134A>G	c.(133-135)CAA>CGA	p.Q45R	TRPC6_uc009ywy.2_Missense_Mutation_p.Q45R|TRPC6_uc009ywz.1_Missense_Mutation_p.Q45R	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	45	Cytoplasmic (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		CAGCGGGGCTTGCGGGCAGCC	0.716													4	19					0	0	0.000602	0	0		C	101454101	C	C	101454101	3	2	79	1	0	0	0	0	1	0	0	0	16609	1812	63	3	2713	3	TRPC6	11	101454101	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	6721993	101454101	33552415	211	50121											
CARD18	59082	broad.mit.edu	37	chr11	105009613	105009613	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgataaatttgcagcaagacTtgggtccttttccagtaaca	12	13	8	8	0	0	2	0	1	0	1	2	2	2	2	2	1	3	3	2	1	4	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:105009613T>C	uc001pis.2	-	1	200	c.194A>G	c.(193-195)AAG>AGG	p.K65R		NM_021571	NP_067546	P57730	CAR18_HUMAN	ICEBERG caspase-1 inhibitor	67	CARD.				inflammatory response|regulation of apoptosis	intracellular	cysteine-type endopeptidase inhibitor activity			ovary(1)|central_nervous_system(1)	2						GCAGCAAGACTTGGGTCCTTT	0.418													38	97					0	0	0.004878	0	0		C	105009613	C	C	105009613	3	2	79	1	0	0	0	0	1	0	0	0	2652	1609	56	3	76	3	CARD18	11	105009613	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	3555512	105009613	29996903	212	50122											
ELMOD1	55531	broad.mit.edu	37	chr11	107518220	107518220	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattcttgaagcccaatacTccactggaatctcggatttc	12	12	6	11	1	2	1	0	1	2	0	5	3	3	3	2	2	2	0	2	2	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:107518220T>G	uc010rvs.1	+	7	851	c.447T>G	c.(445-447)ACT>ACG	p.T149T	ELMOD1_uc001pjm.2_Silent_p.T149T|ELMOD1_uc010rvt.1_Silent_p.T143T	NM_018712	NP_061182	Q8N336	ELMD1_HUMAN	ELMO/CED-12 domain containing 1 isoform 1	149	ELMO.				phagocytosis	cytoskeleton	GTPase activator activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00304)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Epithelial(105;0.00027)|all cancers(92;0.00481)		AGCCCAATACTCCACTGGAAT	0.383													4	36					0	0	0.009096	0	0		G	107518220	G	G	107518220	2	3	79	1	0	0	0	0	0	0	0	1	5076	1538	54	5		5	ELMOD1	11	107518220	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2508607	107518220	27488296	213	50123											
DRD2	1813	broad.mit.edu	37	chr11	113295322	113295322	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgttgaagggccggctccAgttctgcctctccagatcat	6	10	10	15	2	3	2	1	1	2	1	5	2	4	2	5	2	1	3	5	2	1	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:113295322A>G	uc001pnz.2	-	1	373	c.52T>C	c.(52-54)TGG>CGG	p.W18R	DRD2_uc010rwv.1_Missense_Mutation_p.W18R|DRD2_uc001poa.3_Missense_Mutation_p.W18R|DRD2_uc001pob.3_Missense_Mutation_p.W18R|DRD2_uc009yyr.1_Missense_Mutation_p.W18R	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	18	Extracellular (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		all_cancers(61;3.91e-16)|all_epithelial(67;2.95e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000977)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0494)		BRCA - Breast invasive adenocarcinoma(274;5.77e-06)|Epithelial(105;6.66e-05)|all cancers(92;0.000307)|OV - Ovarian serous cystadenocarcinoma(223;0.216)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	GGCCGGCTCCAGTTCTGCCTC	0.582													25	77					0	0	0.003954	0	0		G	113295322	G	G	113295322	3	3	79	1	0	0	0	0	1	0	0	0	4763	188	7	3	1307	3	DRD2	11	113295322	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	5777102	113295322	21711194	214	50124											
MLL	4297	broad.mit.edu	37	chr11	118392870	118392870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtggcgccaagaaatgcCggaagttcctaaactaaagc	14	7	10	10	2	0	1	0	0	0	1	1	2	1	2	3	2	3	1	3	2	7	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:118392870C>T	uc001pta.2	+	36	11916	c.11893C>T	c.(11893-11895)CGG>TGG	p.R3965W	MLL_uc001ptb.2_Missense_Mutation_p.R3968W|MLL_uc001ptf.2_5'Flank	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3965	Post-SET.				apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		CAAGAAATGCCGGAAGTTCCT	0.542			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								4	62					0	0	0.000602	0	0		T	118392870	T	T	118392870	3	4	79	1	0	0	0	0	1	0	0	0	9638	643	23	1	12035	1	MLL	11	118392870	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	5097548	118392870	16613646	215	50125											
TECTA	7007	broad.mit.edu	37	chr11	121008322	121008322	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caactttgaggggcaccaacTtgccaccaatgagaccttct	11	9	8	13	0	1	2	0	2	1	1	1	3	1	2	4	2	3	1	4	2	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:121008322T>G	uc010rzo.1	+	10	3134	c.3134T>G	c.(3133-3135)CTT>CGT	p.L1045R		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1045					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GGGCACCAACTTGCCACCAAT	0.567													10	78					0	0	0.010729	0	0		G	121008322	G	G	121008322	3	3	79	1	0	0	0	0	1	0	0	0	15772	1609	56	5	3172	5	TECTA	11	121008322	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2615452	121008322	13998194	216	50126											
OR6X1	390260	broad.mit.edu	37	chr11	123624329	123624329	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggcaagtcattgcctttcTtaaggctcccttcacctcct	6	14	7	14	0	3	0	2	0	1	0	5	0	5	0	4	2	1	2	4	2	2	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:123624329T>G	uc010rzy.1	-	1	898	c.898A>C	c.(898-900)AGA>CGA	p.R300R		NM_001005188	NP_001005188	Q8NH79	OR6X1_HUMAN	olfactory receptor, family 6, subfamily X,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		ATTGCCTTTCTTAAGGCTCCC	0.388													18	107					0	0	0.008871	0	0		G	123624329	G	G	123624329	2	3	79	1	0	0	0	0	0	0	0	1	11231	1617	56	5		5	OR6X1	11	123624329	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2616007	123624329	11382187	217	50127											
OR10G4	390264	broad.mit.edu	37	chr11	123886648	123886648	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgtcctatgatcgctacTtggccatcagttacccgctc	7	13	7	14	2	2	1	2	1	0	0	5	1	3	1	3	1	2	3	3	1	3	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:123886648T>G	uc010sac.1	+	1	367	c.367T>G	c.(367-369)TTG>GTG	p.L123V		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	123	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		TGATCGCTACTTGGCCATCAG	0.567													25	217					0	0	0.004878	0	0		G	123886648	G	G	123886648	3	3	79	1	0	0	0	0	1	0	0	0	10920	1606	56	5	369	5	OR10G4	11	123886648	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	262319	123886648	11119868	218	50128											
OR10G8	219869	broad.mit.edu	37	chr11	123900631	123900631	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctgcatggctcagctctAtttctttcacttcctagggg	6	14	9	12	0	4	0	2	0	2	0	5	0	5	0	1	3	3	4	1	3	2	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:123900631A>C	uc001pzp.1	+	1	302	c.302A>C	c.(301-303)TAT>TCT	p.Y101S		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	101	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		GCTCAGCTCTATTTCTTTCAC	0.537													39	143					0	0	0.005524	0	0		C	123900631	C	C	123900631	3	2	79	1	0	0	0	0	1	0	0	0	10922	449	16	5	304	5	OR10G8	11	123900631	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	13983	123900631	11105885	219	50129											
VWA5A	4013	broad.mit.edu	37	chr11	124007748	124007748	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattcaccgccttgctgccaAgtccttgctccagaccaagg	8	9	8	16	1	1	1	1	0	0	1	3	1	3	1	6	1	3	2	6	1	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr11:124007748A>G	uc001pzu.2	+	15	1861	c.1652A>G	c.(1651-1653)AAG>AGG	p.K551R	VWA5A_uc001pzt.2_Missense_Mutation_p.K551R	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	551										upper_aerodigestive_tract(1)|ovary(1)	2						CTTGCTGCCAAGTCCTTGCTC	0.458													19	80					0	0	0.007413	0	0		G	124007748	G	G	124007748	3	3	79	1	0	0	0	0	1	0	0	0	17268	72	3	3	1706	3	VWA5A	11	124007748	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	107117	124007748	10998768	220	50130											
PZP	5858	broad.mit.edu	37	chr12	9303324	9303324	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaaccatgaaggaaaaacTtagcgtctgatttgtcacct	14	10	8	9	1	2	3	1	2	1	1	2	4	2	4	2	1	3	0	2	1	5	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:9303324T>G	uc001qvl.2	-	34	4329	c.4300A>C	c.(4300-4302)AGT>CGT	p.S1434R	PZP_uc009zgl.2_Missense_Mutation_p.S1220R	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						AAGGAAAAACTTAGCGTCTGA	0.383													15	36					0	0	0.004007	0	0		G	9303324	G	G	9303324	3	3	79	1	0	0	0	0	1	0	0	0	12894	1609	56	5	160	5	PZP	12	9303324	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08		9303324	124548571	221	50131											
CLEC2B	9976	broad.mit.edu	37	chr12	10005931	10005931	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcctgcaaatccattttcTttcggtgtaacatctagctg	8	17	6	10	1	2	0	0	0	2	0	5	0	4	0	2	1	3	3	2	1	3	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:10005931T>G	uc001qwn.2	-	5	1075	c.418A>C	c.(418-420)AGA>CGA	p.R140R		NM_005127	NP_005118	Q92478	CLC2B_HUMAN	C-type lectin, superfamily member 2	140	C-type lectin.|Extracellular (Potential).					integral to plasma membrane	sugar binding				0						ATCCATTTTCTTTCGGTGTAA	0.378													8	41					0	0	0.004482	0	0		G	10005931	G	G	10005931	2	3	79	1	0	0	0	0	0	0	0	1	3510	1617	56	5		5	CLEC2B	12	10005931	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	702607	10005931	123845964	222	50132											
SLCO1B1	10599	broad.mit.edu	37	chr12	21392083	21392083	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttaaataaaaataaacattTtgtcccttctgctggggcag	13	13	7	8	0	1	0	0	0	1	0	2	0	2	0	1	2	2	2	1	2	7	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:21392083T>G	uc001req.3	+	15	2140	c.2036T>G	c.(2035-2037)TTT>TGT	p.F679C		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	679	Cytoplasmic (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	AATAAACATTTTGTCCCTTCT	0.358													7	52					0	0	0.004482	0	0		G	21392083	G	G	21392083	3	3	79	1	0	0	0	0	1	0	0	0	14748	1841	64	5	2090	5	SLCO1B1	12	21392083	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	11386152	21392083	112459812	223	50133											
KCNJ8	3764	broad.mit.edu	37	chr12	21919240	21919240	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcaggtgtagttgttttcTtgaccacctggatgcgcaca	7	14	10	10	1	2	1	1	1	1	0	2	2	2	2	2	2	1	4	2	2	1	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:21919240T>G	uc001rff.2	-	3	1030	c.692A>C	c.(691-693)AAG>ACG	p.K231T		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	231	Cytoplasmic (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	AGTTGTTTTCTTGACCACCTG	0.493													21	78					0	0	0.014323	0	0		G	21919240	G	G	21919240	3	3	79	1	0	0	0	0	1	0	0	0	8072	1609	56	5	586	5	KCNJ8	12	21919240	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	527157	21919240	111932655	224	50134											
ABCC9	10060	broad.mit.edu	37	chr12	22025656	22025656	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacttggcccacaatcatggTtaactgacctaggaaagcaa	14	9	8	10	0	1	1	1	1	0	0	1	2	1	2	2	3	3	2	2	3	6	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:22025656T>G	uc001rfi.1	-	16	2121	c.2101A>C	c.(2101-2103)ACC>CCC	p.T701P	ABCC9_uc001rfh.2_Missense_Mutation_p.T701P|ABCC9_uc001rfj.1_Missense_Mutation_p.T665P	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	701	Cytoplasmic (Potential).|ABC transporter 1.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ACAATCATGGTTAACTGACCT	0.403													25	119					0	0	0.004656	0	0		G	22025656	G	G	22025656	3	3	79	1	0	0	0	0	1	0	0	0	59	1725	60	5	2782	5	ABCC9	12	22025656	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	106416	22025656	111826239	225	50135											
OVCH1	341350	broad.mit.edu	37	chr12	29608191	29608191	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacaatttaccattgatttTtgattggatccagtccaaga	14	14	6	7	0	0	3	0	2	0	1	2	4	2	4	3	1	2	0	3	1	4	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:29608191T>C	uc001rix.1	-	20	2428	c.2428A>G	c.(2428-2430)AAA>GAA	p.K810E		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	810	Peptidase S1 2.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					CCATTGATTTTTGATTGGATC	0.413													21	61					0	0	0.014323	0	0		C	29608191	C	C	29608191	3	2	79	1	0	0	0	0	1	0	0	0	11342	1850	64	3	1012	3	OVCH1	12	29608191	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	7582535	29608191	104243704	226	50136											
LRRK2	120892	broad.mit.edu	37	chr12	40668743	40668743	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggacatctgctggcaaaaaTtctggtttccagcttatacc	10	13	8	10	0	2	0	0	0	2	0	3	1	3	1	2	3	3	4	2	3	4	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:40668743T>G	uc001rmg.3	+	16	2010	c.1889T>G	c.(1888-1890)ATT>AGT	p.I630S	LRRK2_uc001rmh.1_Missense_Mutation_p.I252S	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	630					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CTGGCAAAAATTCTGGTTTCC	0.353													6	29					0	0	0.001984	0	0		G	40668743	G	G	40668743	3	3	79	1	0	0	0	0	1	0	0	0	9051	1493	52	5	1951	5	LRRK2	12	40668743	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	11060552	40668743	93183152	227	50137											
LRRK2	120892	broad.mit.edu	37	chr12	40740625	40740625	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgatgtttattcatttggTttactactctatgacatttt	8	21	6	6	0	2	2	1	2	1	0	2	2	2	2	0	1	2	3	0	1	4	10			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:40740625T>G	uc001rmg.3	+	42	6301	c.6180T>G	c.(6178-6180)GGT>GGG	p.G2060G	LRRK2_uc009zjw.2_Silent_p.G898G|LRRK2_uc001rmi.2_Silent_p.G893G	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2060	Protein kinase.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				ATTCATTTGGTTTACTACTCT	0.338													5	18					0	0	0.000602	0	0		G	40740625	G	G	40740625	2	3	79	1	0	0	0	0	0	0	0	1	9051	1712	60	5		5	LRRK2	12	40740625	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	71882	40740625	93111270	228	50138											
ADAMTS20	80070	broad.mit.edu	37	chr12	43860519	43860519	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaggactcatgtgaaaacTtaaagcaggggccattacat	15	8	9	9	0	1	1	1	1	0	0	1	2	1	2	2	3	3	1	2	3	6	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:43860519T>G	uc010skx.1	-	9	1303	c.1303A>C	c.(1303-1305)AGT>CGT	p.S435R		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	435	Peptidase M12B.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		ATGTGAAAACTTAAAGCAGGG	0.308													6	34					0	0	0.001168	0	0		G	43860519	G	G	43860519	3	3	79	1	0	0	0	0	1	0	0	0	266	1609	56	5	4552	5	ADAMTS20	12	43860519	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	3119894	43860519	89991376	229	50139											
MAP3K12	7786	broad.mit.edu	37	chr12	53878136	53878136	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaatgatgggcgatttcGtggtttgctattcctgaaag	8	14	13	6	3	0	2	0	2	0	0	3	4	1	3	1	3	1	2	1	3	3	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:53878136G>A	uc001sdm.1	-	8	1152	c.1054C>T	c.(1054-1056)CGA>TGA	p.R352*	MAP3K12_uc001sdn.1_Nonsense_Mutation_p.R385*	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	352	Protein kinase.				histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						GGGCGATTTCGTGGTTTGCTA	0.458													4	45					0	0	0.000602	0	0		A	53878136	A	A	53878136	4	1	79	1	0	0	0	0	0	1	0	0	9264	1153	40	1	1557	1	MAP3K12	12	53878136	Nonsense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	10017617	53878136	79973759	230	50140											
OR6C3	254786	broad.mit.edu	37	chr12	55725759	55725759	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaataagactatttcctataAcaactgtgcagcccaactct	14	11	5	11	0	1	1	0	0	1	1	2	2	2	1	2	0	5	1	2	0	7	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:55725759A>C	uc010spj.1	+	1	275	c.275A>C	c.(274-276)AAC>ACC	p.N92T		NM_054104	NP_473445	Q9NZP0	OR6C3_HUMAN	olfactory receptor, family 6, subfamily C,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ATTTCCTATAACAACTGTGCA	0.413													18	84					0	0	0.007413	0	0		C	55725759	C	C	55725759	3	2	79	1	0	0	0	0	1	0	0	0	11211	43	2	5	277	5	OR6C3	12	55725759	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1847623	55725759	78126136	231	50141											
LRIG3	121227	broad.mit.edu	37	chr12	59307779	59307779	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacaaggagagaagtgtaaTatttgccgagactggtccca	13	10	11	7	1	0	2	0	0	0	2	1	5	1	3	2	2	2	1	2	2	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:59307779T>C	uc001sqr.2	-	3	613	c.367A>G	c.(367-369)ATT>GTT	p.I123V	LRIG3_uc009zqh.2_Missense_Mutation_p.I63V|LRIG3_uc010ssh.1_RNA	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like	123	LRR 3.					integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			AGAAGTGTAATATTTGCCGAG	0.383													8	46					0	0	0.006214	0	0		C	59307779	C	C	59307779	3	2	79	1	0	0	0	0	1	0	0	0	8964	1406	49	3	3060	3	LRIG3	12	59307779	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	3582020	59307779	74544116	232	50142											
TRHDE	29953	broad.mit.edu	37	chr12	72969051	72969051	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagagcaccacagaataacTtatttggacaaaggaagctg	16	8	9	8	0	1	2	1	0	0	2	1	4	1	4	1	2	3	2	1	2	5	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:72969051T>C	uc001sxa.2	+	11	2043	c.2013T>C	c.(2011-2013)ACT>ACC	p.T671T		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	671	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						ACAGAATAACTTATTTGGACA	0.338													7	32					0	0	0.00308	0	0		C	72969051	C	C	72969051	2	2	79	1	0	0	0	0	0	0	0	1	16505	1596	56	3		3	TRHDE	12	72969051	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	13661272	72969051	60882844	233	50143											
KCNC2	3747	broad.mit.edu	37	chr12	75444468	75444468	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggggtacatatccccataAcccagggtagtcatggtcac	10	9	11	11	0	2	0	2	0	0	0	3	0	3	0	3	4	2	2	3	4	4	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:75444468A>G	uc001sxg.1	-	3	1861	c.1317T>C	c.(1315-1317)GGT>GGC	p.G439G	KCNC2_uc009zry.2_Silent_p.G439G|KCNC2_uc001sxe.2_Silent_p.G439G|KCNC2_uc001sxf.2_Silent_p.G439G|KCNC2_uc010stw.1_Silent_p.G439G	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	439	Selectivity filter (By similarity).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						TATCCCCATAACCCAGGGTAG	0.537													12	36					0	0	0.001855	0	0		G	75444468	G	G	75444468	2	3	79	1	0	0	0	0	0	0	0	1	8031	30	2	3		3	KCNC2	12	75444468	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	2475417	75444468	58407427	234	50144											
E2F7	144455	broad.mit.edu	37	chr12	77438527	77438527	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaggaacagcatgacaaacTtctggctcataattctcaga	14	9	8	10	1	3	2	2	1	2	1	4	4	3	3	0	2	3	2	0	2	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:77438527T>G	uc001sym.3	-	6	1114	c.878A>C	c.(877-879)AAG>ACG	p.K293T		NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	293	Potential.				cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						CATGACAAACTTCTGGCTCAT	0.398													19	64					0	0	0.010504	0	0		G	77438527	G	G	77438527	3	3	79	1	0	0	0	0	1	0	0	0	4878	1609	56	5	1889	5	E2F7	12	77438527	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	1994059	77438527	56413368	235	50145											
SYT1	6857	broad.mit.edu	37	chr12	79747354	79747354	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaagctgactgttgtcattCtggaggcaaagaacctgaag	12	10	12	7	0	2	3	1	2	1	1	2	4	2	4	1	2	2	4	1	2	4	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:79747354C>A	uc001sys.2	+	10	1554	c.883C>A	c.(883-885)CTG>ATG	p.L295M	SYT1_uc001syt.2_Missense_Mutation_p.L295M|SYT1_uc001syu.2_Missense_Mutation_p.L292M|SYT1_uc001syv.2_Missense_Mutation_p.L295M	NM_001135805	NP_001129277	P21579	SYT1_HUMAN	synaptotagmin I	295	Cytoplasmic (Potential).|Phospholipid binding (Probable).|C2 2.				detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6						TGTTGTCATTCTGGAGGCAAA	0.428													29	165					6.38683e-12	6.67862e-12	0.008361	1	0		A	79747354	A	A	79747354	3	1	79	1	0	0	0	0	1	0	0	0	15490	912	32	5	905	5	SYT1	12	79747354	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	2308827	79747354	54104541	236	50146											
LIN7A	8825	broad.mit.edu	37	chr12	81283099	81283099	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagcttgtgcactggtacTtctccagattcctgtagttt	6	17	9	9	0	1	1	0	0	1	1	3	1	2	1	2	1	3	6	2	1	3	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:81283099T>G	uc001szj.1	-	2	325	c.132A>C	c.(130-132)GAA>GAC	p.E44D	LIN7A_uc001szk.1_RNA	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	44	L27.				exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						GCACTGGTACTTCTCCAGATT	0.333													4	24					0	0	0.009096	0	0		G	81283099	G	G	81283099	3	3	79	1	0	0	0	0	1	0	0	0	8827	1606	56	5	585	5	LIN7A	12	81283099	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	1535745	81283099	52568796	237	50147											
PPFIA2	8499	broad.mit.edu	37	chr12	81741391	81741391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagttgagtgtccactggggGgagatgaactggccagcgat	9	8	17	7	1	0	3	0	2	0	1	1	6	1	3	2	4	2	1	2	4	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:81741391G>A	uc001szo.1	-	18	2314	c.2153C>T	c.(2152-2154)CCC>CTC	p.P718L	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_Intron	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	644										ovary(3)|lung(2)|pancreas(1)	6						TCCACTGGGGGGAGATGAACT	0.557													53	78					0	0	0.01441	0	0		A	81741391	A	A	81741391	3	1	79	1	0	0	0	0	1	0	0	0	12329	1232	43	4	1680	4	PPFIA2	12	81741391	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	458292	81741391	52110504	238	50148											
LRRIQ1	84125	broad.mit.edu	37	chr12	85626509	85626509	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagttagatccagatgtacTtaatggtggaagagttcagc	12	12	12	5	0	1	4	1	1	0	3	2	5	2	5	1	2	2	3	1	2	4	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:85626509T>G	uc001tac.2	+	26	5102	c.4991T>G	c.(4990-4992)CTT>CGT	p.L1664R		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1664										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		CCAGATGTACTTAATGGTGGA	0.328													4	25					0	0	0.009096	0	0		G	85626509	G	G	85626509	3	3	79	1	0	0	0	0	1	0	0	0	9047	1609	56	5	5093	5	LRRIQ1	12	85626509	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	3885118	85626509	48225386	239	50149											
MGAT4C	25834	broad.mit.edu	37	chr12	86383276	86383276	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgttttctcaggcatctcaTtttatcaagtatttcaaaaa	13	16	4	8	1	4	0	4	0	2	0	6	0	4	0	0	1	0	3	0	1	5	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:86383276T>C	uc001tai.3	-	6	1299	c.49A>G	c.(49-51)ATG>GTG	p.M17V	MGAT4C_uc001tal.3_Missense_Mutation_p.M17V|MGAT4C_uc001taj.3_Missense_Mutation_p.M17V|MGAT4C_uc001tak.3_Missense_Mutation_p.M17V|MGAT4C_uc010sum.1_Missense_Mutation_p.M41V|MGAT4C_uc001tah.3_Missense_Mutation_p.M17V	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	17	Cytoplasmic (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						AGGCATCTCATTTTATCAAGT	0.328													3	15					0	0	0.004672	0	0		C	86383276	C	C	86383276	3	2	79	1	0	0	0	0	1	0	0	0	9565	1493	52	3	1399	3	MGAT4C	12	86383276	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	756767	86383276	47468619	240	50150											
RFX4	5992	broad.mit.edu	37	chr12	107141233	107141233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcaatgcagtcttacaCgtggtctctaacatacacag	13	9	9	10	1	2	0	0	0	2	0	3	1	2	1	0	2	5	2	0	2	4	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:107141233C>T	uc001tlr.2	+	16	1718	c.1652C>T	c.(1651-1653)ACG>ATG	p.T551M	RFX4_uc001tlt.2_Missense_Mutation_p.T560M|RFX4_uc001tlv.2_Missense_Mutation_p.T457M	NM_213594	NP_998759	Q33E94	RFX4_HUMAN	regulatory factor X4 isoform c	551					transcription, DNA-dependent	nucleus	DNA binding			upper_aerodigestive_tract(1)	1						CAGTCTTACACGTGGTCTCTA	0.438													6	80					0	0	0.001984	0	0		T	107141233	T	T	107141233	3	4	79	1	0	0	0	0	1	0	0	0	13290	536	19	1	1919	1	RFX4	12	107141233	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	20757957	107141233	26710662	241	50151											
ATXN2	6311	broad.mit.edu	37	chr12	111957774	111957774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctatcatcattttccagggCcactcgagctttgtactggg	7	13	9	12	1	2	0	2	0	0	0	4	1	3	0	3	2	2	2	3	2	2	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:111957774C>T	uc001tsj.2	-	8	1537	c.1375G>A	c.(1375-1377)GCC>ACC	p.A459T	ATXN2_uc001tsh.2_Missense_Mutation_p.A194T|ATXN2_uc001tsi.2_Missense_Mutation_p.A170T|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsm.1_Missense_Mutation_p.A194T	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	459					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						TTTTCCAGGGCCACTCGAGCT	0.413													15	55					0	0	0.003163	0	0		T	111957774	T	T	111957774	3	4	79	1	0	0	0	0	1	0	0	0	1212	739	26	2	2638	2	ATXN2	12	111957774	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	4816541	111957774	21894121	242	50152											
PRKAB1	5564	broad.mit.edu	37	chr12	120106129	120106129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccggagggacagctcgggggGcaccaaggacggggacaggc	9	1	20	11	3	0	0	0	0	0	0	1	4	0	4	2	9	1	2	2	9	1	0	rs61748075	byFrequency	TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:120106129G>A	uc009zwu.2	+	2	183	c.80G>A	c.(79-81)GGC>GAC	p.G27D	PRKAB1_uc001txg.2_Missense_Mutation_p.G27D	NM_006253	NP_006244	Q9Y478	AAKB1_HUMAN	AMP-activated protein kinase beta 1	27					cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol					0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.166)	Adenosine monophosphate(DB00131)|Metformin(DB00331)	AGCTCGGGGGGCACCAAGGAC	0.662													10	35					0	0	0.008291	0	0		A	120106129	A	A	120106129	3	1	79	1	0	0	0	0	1	0	0	0	12517	1203	42	2	82	2	PRKAB1	12	120106129	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	8148355	120106129	13745766	243	50153											
TMEM132B	114795	broad.mit.edu	37	chr12	126138479	126138479	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtaattccatagagcgCgaaggaaaccaggagagagc	15	5	12	9	2	1	2	1	0	0	2	2	6	2	4	2	2	3	1	2	2	4	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:126138479C>T	uc001uhe.1	+	9	2468	c.2460C>T	c.(2458-2460)CGC>CGT	p.R820R	TMEM132B_uc001uhf.1_Silent_p.R332R	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	820	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		CCATAGAGCGCGAAGGAAACC	0.493													11	47					0	0	0.013537	0	0		T	126138479	T	T	126138479	2	4	79	1	0	0	0	0	0	0	0	1	16071	755	27	1		1	TMEM132B	12	126138479	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	6032350	126138479	7713416	244	50154											
TMEM132B	114795	broad.mit.edu	37	chr12	126139242	126139242	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagactatatggaaagtctgCaagaccagatgtaaactcct	15	9	9	8	0	1	3	0	0	1	3	2	5	2	4	2	1	2	2	2	1	6	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:126139242C>G	uc001uhe.1	+	9	3231	c.3223C>G	c.(3223-3225)CAA>GAA	p.Q1075E	TMEM132B_uc001uhf.1_Missense_Mutation_p.Q587E	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	1075	Cytoplasmic (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		GGAAAGTCTGCAAGACCAGAT	0.428													4	65					0	0	0.009096	0	0		G	126139242	G	G	126139242	3	3	79	1	0	0	0	0	1	0	0	0	16071	711	25	5	3257	5	TMEM132B	12	126139242	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	763	126139242	7712653	245	50155											
MMP17	4326	broad.mit.edu	37	chr12	132325352	132325352	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggccaccaccacaccgcCggggacacccactttgacga	9	3	9	20	4	0	1	0	1	0	0	0	3	0	2	7	3	0	0	7	3	0	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr12:132325352C>T	uc001ujc.1	+	4	756	c.657C>T	c.(655-657)GCC>GCT	p.A219A	MMP17_uc001ujd.1_Silent_p.A135A	NM_016155	NP_057239	Q9ULZ9	MMP17_HUMAN	matrix metalloproteinase 17 preproprotein	219					proteolysis	anchored to membrane|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.82e-07)|Epithelial(86;1.51e-06)|all cancers(50;2.35e-05)		ACCACACCGCCGGGGACACCC	0.692													12	59					0	0	0.013537	0	0		T	132325352	T	T	132325352	2	4	79	1	0	0	0	0	0	0	0	1	9674	639	23	1		1	MMP17	12	132325352	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	6186110	132325352	1526543	246	50156											
SHISA2	387914	broad.mit.edu	37	chr13	26620785	26620785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggcacagagtcgtgctgcaCcgtgtaccccacgtatgggg	7	7	15	12	3	0	1	0	0	0	1	1	1	0	1	3	3	3	5	3	3	2	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr13:26620785C>T	uc001uqm.1	-	2	839	c.754G>A	c.(754-756)GTG>ATG	p.V252M		NM_001007538	NP_001007539	Q6UWI4	SHSA2_HUMAN	shisa homolog 2 precursor	252	Cytoplasmic (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2						TCGTGCTGCACCGTGTACCCC	0.577													28	80					0	0	0.004656	0	0		T	26620785	T	T	26620785	3	4	79	1	0	0	0	0	1	0	0	0	14305	507	18	4	137	4	SHISA2	13	26620785	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08		26620785	88549093	247	50157											
SOHLH2	54937	broad.mit.edu	37	chr13	36776025	36776025	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaagtttacctaattaacTtgatggcttccagctcctcg	9	15	7	10	1	0	2	0	2	0	0	3	2	2	2	3	1	3	3	3	1	4	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr13:36776025T>C	uc001uvj.2	-	2	343	c.254A>G	c.(253-255)AAG>AGG	p.K85R	SOHLH2_uc010tei.1_Missense_Mutation_p.K162R	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	85					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;4.63e-08)|Epithelial(112;2.67e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|BRCA - Breast invasive adenocarcinoma(63;0.00685)|GBM - Glioblastoma multiforme(144;0.0273)		CCTAATTAACTTGATGGCTTC	0.368													17	42					0	0	0.007413	0	0		C	36776025	C	C	36776025	3	2	79	1	0	0	0	0	1	0	0	0	14949	1609	56	3	1063	3	SOHLH2	13	36776025	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	10155240	36776025	78393853	248	50158											
C13orf36	400120	broad.mit.edu	37	chr13	37269503	37269503	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaagtctgcagcatttcCtctcagaggtccactttttc	7	15	8	11	0	2	1	1	0	2	1	6	2	4	2	2	2	2	2	2	2	1	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr13:37269503C>G	uc001uvt.3	+	2	734	c.288C>G	c.(286-288)TCC>TCG	p.S96S		NM_203451	NP_982276	A2A2V5	CM036_HUMAN	hypothetical protein LOC400120	96						integral to membrane				skin(1)	1						GCAGCATTTCCTCTCAGAGGT	0.478													23	57					0	0	0.00278	0	0		G	37269503	G	G	37269503	2	3	79	1	0	0	0	0	0	0	0	1	1733	668	24	5		5	C13orf36	13	37269503	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	493478	37269503	77900375	249	50159											
TRPC4	7223	broad.mit.edu	37	chr13	38211727	38211727	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcttagtaatcccaggacTtcaaagcggaaactagaaat	15	9	7	10	1	2	1	1	0	1	1	3	3	3	3	2	2	2	1	2	2	6	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr13:38211727T>G	uc001uws.2	-	11	2482	c.2247A>C	c.(2245-2247)GAA>GAC	p.E749D	TRPC4_uc010abv.2_Missense_Mutation_p.E329D|TRPC4_uc001uwt.2_Missense_Mutation_p.E749D|TRPC4_uc010tey.1_Intron|TRPC4_uc010abw.2_Missense_Mutation_p.E576D|TRPC4_uc010abx.2_Missense_Mutation_p.E754D|TRPC4_uc010aby.2_Missense_Mutation_p.E684D	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	749	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		ATCCCAGGACTTCAAAGCGGA	0.368													10	41					0	0	0.006214	0	0		G	38211727	G	G	38211727	3	3	79	1	0	0	0	0	1	0	0	0	16606	1606	56	5	690	5	TRPC4	13	38211727	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	942224	38211727	76958151	250	50160											
TRPC4	7223	broad.mit.edu	37	chr13	38229328	38229328	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatggtggcaccaacaaacTcagtaaattcatgctgtgct	13	10	8	10	0	2	0	2	0	0	0	2	0	2	0	1	2	4	4	1	2	4	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr13:38229328T>C	uc001uws.2	-	7	2016	c.1781A>G	c.(1780-1782)GAG>GGG	p.E594G	TRPC4_uc010abv.2_Missense_Mutation_p.E174G|TRPC4_uc001uwt.2_Missense_Mutation_p.E594G|TRPC4_uc010tey.1_Missense_Mutation_p.E594G|TRPC4_uc010abw.2_Missense_Mutation_p.E421G|TRPC4_uc010abx.2_Missense_Mutation_p.E594G|TRPC4_uc010aby.2_Missense_Mutation_p.E594G	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	594	Extracellular (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		ACCAACAAACTCAGTAAATTC	0.368													13	26					0	0	0.001855	0	0		C	38229328	C	C	38229328	3	2	79	1	0	0	0	0	1	0	0	0	16606	1551	54	3	1187	3	TRPC4	13	38229328	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	17601	38229328	76940550	251	50161											
FREM2	341640	broad.mit.edu	37	chr13	39262883	39262883	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcagtggtccgcaaaacTtggtcatcagcgatgaggat	11	8	13	9	2	2	1	2	1	0	0	3	3	3	2	1	4	2	2	1	4	2	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr13:39262883T>C	uc001uwv.2	+	1	1711	c.1402T>C	c.(1402-1404)TTG>CTG	p.L468L		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	468	Extracellular (Potential).|CSPG 2.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TCCGCAAAACTTGGTCATCAG	0.587													17	70					0	0	0.007413	0	0		C	39262883	C	C	39262883	2	2	79	1	0	0	0	0	0	0	0	1	6059	1606	56	3		3	FREM2	13	39262883	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	1033555	39262883	75906995	252	50162											
KLHL1	57626	broad.mit.edu	37	chr13	70314643	70314643	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcagatagctccagccaTcatggcctcccacagcataa	12	9	6	14	0	2	1	2	0	0	1	4	1	4	1	4	1	3	2	4	1	3	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr13:70314643T>G	uc001vip.2	-	8	2479	c.1685A>C	c.(1684-1686)GAT>GCT	p.D562A	KLHL1_uc010thm.1_Missense_Mutation_p.D501A	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	562	Kelch 3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		GCTCCAGCCATCATGGCCTCC	0.363													11	64					0	0	0.001855	0	0		G	70314643	G	G	70314643	3	3	79	1	0	0	0	0	1	0	0	0	8381	1435	50	5	577	5	KLHL1	13	70314643	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	31051760	70314643	44855235	253	50163											
TBC1D4	9882	broad.mit.edu	37	chr13	75936660	75936660	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgagagttgtaaaaggcGtcctcattatctttgctggg	8	15	11	7	1	3	1	1	1	2	1	4	2	4	1	1	2	1	3	1	2	3	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr13:75936660G>T	uc001vjl.1	-	2	929	c.582C>A	c.(580-582)GAC>GAA	p.D194E	TBC1D4_uc010aer.2_Missense_Mutation_p.D194E|TBC1D4_uc010aes.2_Missense_Mutation_p.D194E	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	194	PID 1.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		TGTAAAAGGCGTCCTCATTAT	0.468													16	248					6.72482e-11	6.99653e-11	0.003163	1	0		T	75936660	T	T	75936660	3	4	79	1	0	0	0	0	1	0	0	0	15647	1136	40	5	3394	5	TBC1D4	13	75936660	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	5622017	75936660	39233218	254	50164											
DZIP1	22873	broad.mit.edu	37	chr13	96237108	96237108	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcccagatttttttcccaaAgatatctcttcctctaggga	9	16	5	11	0	2	2	0	0	2	2	6	3	5	3	3	1	0	0	3	1	3	7	rs140431438		TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr13:96237108A>G	uc001vmk.2	-	22	3258	c.2406T>C	c.(2404-2406)TCT>TCC	p.S802S	DZIP1_uc001vmi.2_Silent_p.S50S|DZIP1_uc001vmj.2_Silent_p.S278S|DZIP1_uc001vml.2_Silent_p.S783S|DZIP1_uc001vmm.2_5'Flank	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	802					germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			TTTTTCCCAAAGATATCTCTT	0.408													14	55					0	0	0.001855	0	0		G	96237108	G	G	96237108	2	3	79	1	0	0	0	0	0	0	0	1	4869	59	3	3		3	DZIP1	13	96237108	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	20300448	96237108	18932770	255	50165											
STK24	8428	broad.mit.edu	37	chr13	99114041	99114041	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtaccttatttctgtccAagtccgatggctgaagagct	9	12	10	10	2	1	2	0	1	1	1	3	4	3	2	3	1	2	3	3	1	4	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr13:99114041A>C	uc001vnm.1	-	8	1311	c.1076T>G	c.(1075-1077)TTG>TGG	p.L359W	STK24_uc001vnn.1_Missense_Mutation_p.L347W|STK24_uc010tim.1_Missense_Mutation_p.L328W	NM_003576	NP_003567	Q9Y6E0	STK24_HUMAN	serine/threonine kinase 24 isoform a	359					cellular component disassembly involved in apoptosis|signal transduction	cytosol|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			ATTTCTGTCCAAGTCCGATGG	0.537													40	134					0	0	0.007835	0	0		C	99114041	C	C	99114041	3	2	79	1	0	0	0	0	1	0	0	0	15318	131	5	5	271	5	STK24	13	99114041	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	2876933	99114041	16055837	256	50166											
OR4N2	390429	broad.mit.edu	37	chr14	20295735	20295735	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcatcctccctggaaattTtctcattattttcaccataa	11	16	2	12	0	3	0	3	0	1	0	6	1	5	1	3	1	0	0	3	1	3	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr14:20295735T>G	uc010tkv.1	+	1	128	c.128T>G	c.(127-129)TTT>TGT	p.F43C		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CCTGGAAATTTTCTCATTATT	0.443													19	121					0	0	0.003271	0	0		G	20295735	G	G	20295735	3	3	79	1	0	0	0	0	1	0	0	0	11096	1841	64	5	130	5	OR4N2	14	20295735	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08		20295735	87053805	257	50167											
MYH6	4624	broad.mit.edu	37	chr14	23869976	23869976	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagtactggcgtggctgcTtggtctccagggtggcgttg	4	12	17	8	2	1	1	0	1	1	0	2	1	1	1	1	5	2	4	1	5	2	3	rs112494241		TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr14:23869976T>A	uc001wjv.2	-	13	1419	c.1352A>T	c.(1351-1353)AAG>ATG	p.K451M	MYH6_uc010akp.1_Missense_Mutation_p.K451M	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	451	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GCGTGGCTGCTTGGTCTCCAG	0.567													29	50					0	0	0.007291	0	0		A	23869976	A	A	23869976	3	1	79	1	0	0	0	0	1	0	0	0	10056	1609	56	5	4575	5	MYH6	14	23869976	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	3574241	23869976	83479564	258	50168											
LRFN5	145581	broad.mit.edu	37	chr14	42356513	42356513	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagcaacctcaggaatcataAgcccatctacttttgcatta	13	12	5	11	0	3	0	2	0	1	0	3	1	3	1	2	1	5	2	2	1	6	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr14:42356513A>G	uc001wvm.2	+	3	1883	c.685A>G	c.(685-687)AGC>GGC	p.S229G	LRFN5_uc010ana.2_Missense_Mutation_p.S229G	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	229	Extracellular (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AGGAATCATAAGCCCATCTAC	0.443										HNSCC(30;0.082)			19	81					0	0	0.010504	0	0		G	42356513	G	G	42356513	3	3	79	1	0	0	0	0	1	0	0	0	8959	72	3	3	687	3	LRFN5	14	42356513	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	18486537	42356513	64993027	259	50169											
SLC8A3	6547	broad.mit.edu	37	chr14	70634007	70634007	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctcatgctggaggccttcTtggcttgttctgctgcatgt	3	15	12	11	1	3	0	1	0	2	0	3	1	3	1	1	3	3	6	1	3	0	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr14:70634007T>G	uc001xly.2	-	2	1887	c.1133A>C	c.(1132-1134)AAG>ACG	p.K378T	SLC8A3_uc001xlw.2_Missense_Mutation_p.K378T|SLC8A3_uc001xlx.2_Missense_Mutation_p.K378T|SLC8A3_uc001xlz.2_Missense_Mutation_p.K378T|SLC8A3_uc010ara.2_RNA	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	378	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		GGAGGCCTTCTTGGCTTGTTC	0.512													30	84					0	0	0.00632	0	0		G	70634007	G	G	70634007	3	3	79	1	0	0	0	0	1	0	0	0	14733	1609	56	5	1789	5	SLC8A3	14	70634007	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	28277494	70634007	36715533	260	50170											
SERPINA10	51156	broad.mit.edu	37	chr14	94754773	94754773	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacatgacaacgaaaattcTtgtcaaaggtggaggcaaac	16	7	11	7	1	2	1	1	1	1	0	2	4	2	3	0	4	2	1	0	4	5	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr14:94754773T>G	uc001yct.2	-	3	1308	c.842A>C	c.(841-843)AAG>ACG	p.K281T	SERPINA10_uc001ycu.3_Missense_Mutation_p.K281T	NM_016186	NP_057270	Q9UK55	ZPI_HUMAN	serine (or cysteine) proteinase inhibitor, clade	281					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_cancers(154;0.105)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)		ACGAAAATTCTTGTCAAAGGT	0.507													6	53					0	0	0.001168	0	0		G	94754773	G	G	94754773	3	3	79	1	0	0	0	0	1	0	0	0	14112	1609	56	5	504	5	SERPINA10	14	94754773	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	24120766	94754773	12594767	261	50171											
SERPINA9	327657	broad.mit.edu	37	chr14	94933607	94933607	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctctgtatccaccccaaaAgcgaactgctctttctggtg	9	11	8	13	1	3	0	0	0	3	0	4	1	4	0	3	1	4	3	3	1	4	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr14:94933607A>C	uc001ydf.2	-	3	956	c.795T>G	c.(793-795)GCT>GCG	p.A265A	SERPINA9_uc001yde.2_Silent_p.A165A|SERPINA9_uc010avc.2_Silent_p.A116A|SERPINA9_uc001ydg.2_Silent_p.A229A|SERPINA9_uc001ydh.1_Silent_p.A265A|SERPINA9_uc001ydi.1_Silent_p.A229A	NM_175739	NP_783866	Q86WD7	SPA9_HUMAN	serine (or cysteine) proteinase inhibitor, clade	247					regulation of proteolysis	cytoplasm|extracellular region|membrane	serine-type endopeptidase inhibitor activity			lung(1)|central_nervous_system(1)	2		all_cancers(154;0.0691)|all_epithelial(191;0.233)		Epithelial(152;0.144)|COAD - Colon adenocarcinoma(157;0.224)|all cancers(159;0.24)		CCACCCCAAAAGCGAACTGCT	0.522													9	33					0	0	0.004482	0	0		C	94933607	C	C	94933607	2	2	79	1	0	0	0	0	0	0	0	1	14120	59	3	5		5	SERPINA9	14	94933607	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	178834	94933607	12415933	262	50172											
RYR3	6263	broad.mit.edu	37	chr15	33928718	33928718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgatcaccaacaaaggctctGaacttgccttcgctgactac	11	10	7	13	1	2	3	1	3	1	0	3	3	2	3	2	1	4	2	2	1	4	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr15:33928718G>A	uc001zhi.2	+	27	3593	c.3523G>A	c.(3523-3525)GAA>AAA	p.E1175K	RYR3_uc010bar.2_Missense_Mutation_p.E1175K	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1175	B30.2/SPRY 2.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CAAAGGCTCTGAACTTGCCTT	0.502													32	74					0	0	0.013726	0	0		A	33928718	A	A	33928718	3	1	79	1	0	0	0	0	1	0	0	0	13795	1291	45	4	3629	4	RYR3	15	33928718	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08		33928718	68602674	263	50173											
EIF2AK4	440275	broad.mit.edu	37	chr15	40258023	40258023	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accagtcaagaaaaagagaaGattgataagtgcaaaaagca	22	5	9	5	0	1	4	1	1	0	3	1	5	1	4	1	0	2	2	1	0	7	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr15:40258023G>A	uc001zkm.1	+	8	1046	c.996G>A	c.(994-996)AAG>AAA	p.K332K	EIF2AK4_uc001zkl.2_Silent_p.K332K|EIF2AK4_uc010bbj.1_Silent_p.K61K	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	332	Protein kinase 1.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		AAAAAGAGAAGATTGATAAGT	0.443													16	49					0	0	0.003163	0	0		A	40258023	A	A	40258023	2	1	79	1	0	0	0	0	0	0	0	1	5005	933	33	4		4	EIF2AK4	15	40258023	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08	6329305	40258023	62273369	264	50174											
SLC12A1	6557	broad.mit.edu	37	chr15	48533782	48533782	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgttgcctacttaggggTtgcaatttgtgtaggtaagt	8	15	12	6	0	0	0	0	0	0	0	0	0	0	0	1	3	3	5	1	3	5	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr15:48533782T>C	uc001zwn.3	+	10	1502	c.1286T>C	c.(1285-1287)GTT>GCT	p.V429A	SLC12A1_uc010uew.1_Missense_Mutation_p.V235A|SLC12A1_uc010bem.2_Missense_Mutation_p.V429A|SLC12A1_uc001zwq.3_Missense_Mutation_p.V200A|SLC12A1_uc001zwr.3_Missense_Mutation_p.V156A	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	429	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	TACTTAGGGGTTGCAATTTGT	0.448													41	96					0	0	0.009718	0	0		C	48533782	C	C	48533782	3	2	79	1	0	0	0	0	1	0	0	0	14407	1725	60	3	1420	3	SLC12A1	15	48533782	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	8275759	48533782	53997610	265	50175											
SECISBP2L	9728	broad.mit.edu	37	chr15	49284561	49284561	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtccatgcctcactgtccatCcctggctccagcacctcagg	6	9	8	18	0	2	0	2	0	0	0	6	0	6	0	6	2	2	2	6	2	0	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr15:49284561C>T	uc001zxe.1	-	18	3320	c.3186G>A	c.(3184-3186)GGG>GGA	p.G1062G	SECISBP2L_uc001zxd.1_Silent_p.G1017G	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	1062										breast(1)|skin(1)	2						CACTGTCCATCCCTGGCTCCA	0.527													29	85					0	0	0.007291	0	0		T	49284561	T	T	49284561	2	4	79	1	0	0	0	0	0	0	0	1	14032	842	30	4		4	SECISBP2L	15	49284561	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	750779	49284561	53246831	266	50176											
UNC13C	440279	broad.mit.edu	37	chr15	54307854	54307854	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaccttatgaaaccccacaAgatgagggttatgatggtcc	13	9	9	10	0	0	4	0	3	0	1	1	4	1	4	4	2	1	1	4	2	4	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr15:54307854A>G	uc002ack.2	+	1	2754	c.2754A>G	c.(2752-2754)CAA>CAG	p.Q918Q		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	918					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AAACCCCACAAGATGAGGGTT	0.378													21	41					0	0	0.012319	0	0		G	54307854	G	G	54307854	2	3	79	1	0	0	0	0	0	0	0	1	17012	69	3	3		3	UNC13C	15	54307854	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	5023293	54307854	48223538	267	50177											
UNC13C	440279	broad.mit.edu	37	chr15	54435824	54435824	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttcatttaaggctcgaaTagtaagtggcaatgatttgg	11	14	10	6	1	2	1	1	1	1	0	3	2	2	1	0	3	0	3	0	3	5	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr15:54435824T>C	uc002ack.2	+	3	3014	c.3014T>C	c.(3013-3015)ATA>ACA	p.I1005T		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1005					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AAGGCTCGAATAGTAAGTGGC	0.388													4	13					0	0	0.009096	0	0		C	54435824	C	C	54435824	3	2	79	1	0	0	0	0	1	0	0	0	17012	1406	49	3	3024	3	UNC13C	15	54435824	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	127970	54435824	48095568	268	50178											
THSD4	79875	broad.mit.edu	37	chr15	72037465	72037465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgcagtaccctattttcCgctgtgtgcacagaagcact	9	11	9	12	2	0	1	0	0	0	1	2	2	1	1	2	0	3	5	2	0	3	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr15:72037465C>T	uc002atb.1	+	11	2006	c.1927C>T	c.(1927-1929)CGC>TGC	p.R643C	THSD4_uc002ate.2_Missense_Mutation_p.R283C	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	643						proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						CCCTATTTTCCGCTGTGTGCA	0.542													135	291					0	0	0.01441	0	0		T	72037465	T	T	72037465	3	4	79	1	0	0	0	0	1	0	0	0	15903	652	23	1	1969	1	THSD4	15	72037465	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	17601641	72037465	30493927	269	50179											
AGBL1	123624	broad.mit.edu	37	chr15	86807985	86807985	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctctgtggtggacttcaAgatgatggcatttcctgatg	8	13	12	8	0	2	3	1	2	1	1	3	4	3	4	1	3	1	2	1	3	1	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr15:86807985A>G	uc002blz.1	+	10	1525	c.1445A>G	c.(1444-1446)AAG>AGG	p.K482R	AGBL1_uc002bma.1_Missense_Mutation_p.K213R|AGBL1_uc002bmb.1_Missense_Mutation_p.K176R	NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	482					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						GTGGACTTCAAGATGATGGCA	0.502													29	66					0	0	0.005443	0	0		G	86807985	G	G	86807985	3	3	79	1	0	0	0	0	1	0	0	0	375	72	3	3	1479	3	AGBL1	15	86807985	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	14770520	86807985	15723407	270	50180											
SOX8	30812	broad.mit.edu	37	chr16	1034896	1034896	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgccttcgacgtccacgAgttcgaccagtacctgcccc	7	7	10	17	5	0	0	0	0	0	0	3	4	1	1	6	1	2	2	6	1	1	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr16:1034896A>C	uc002ckn.2	+	3	966	c.851A>C	c.(850-852)GAG>GCG	p.E284A		NM_014587	NP_055402	P57073	SOX8_HUMAN	SRY (sex determining region Y)-box 8	284					adipose tissue development|enteric nervous system development|fat cell differentiation|in utero embryonic development|metanephric nephron tubule formation|morphogenesis of a branching epithelium|negative regulation of apoptosis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|neural crest cell migration|oligodendrocyte differentiation|osteoblast differentiation|peripheral nervous system development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of gliogenesis|positive regulation of osteoblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone levels|renal vesicle induction|retinal rod cell differentiation|Sertoli cell development|signal transduction|spermatogenesis|ureter morphogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2		Hepatocellular(780;0.00308)				GACGTCCACGAGTTCGACCAG	0.701													9	45					0	0	0.006214	0	0		C	1034896	C	C	1034896	3	2	79	1	0	0	0	0	1	0	0	0	14982	304	11	5	861	5	SOX8	16	1034896	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08		1034896	89319857	271	50181											
GRIN2A	2903	broad.mit.edu	37	chr16	9923493	9923493	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagcttttccaattgtaaaAgaaggcccatggggtgctgc	11	11	11	8	0	0	1	0	0	0	1	1	1	1	1	2	3	3	3	2	3	5	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr16:9923493A>C	uc002czo.3	-	9	2342	c.1794T>G	c.(1792-1794)TCT>TCG	p.S598S	GRIN2A_uc010uym.1_Silent_p.S598S|GRIN2A_uc010uyn.1_Silent_p.S441S|GRIN2A_uc002czr.3_Silent_p.S598S	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	598	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding	p.S598F(1)		skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CAATTGTAAAAGAAGGCCCAT	0.463													13	33					0	0	0.013537	0	0		C	9923493	C	C	9923493	2	2	79	1	0	0	0	0	0	0	0	1	6795	59	3	5		5	GRIN2A	16	9923493	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	8888597	9923493	80431260	272	50182											
TMC5	79838	broad.mit.edu	37	chr16	19451929	19451929	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccagaaagaatctggaacAtacaagttttagaatcaatc	18	10	6	7	0	2	3	1	0	1	3	4	4	3	4	1	1	2	1	1	1	8	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr16:19451929A>G	uc002dgc.3	+	3	1318	c.569A>G	c.(568-570)CAT>CGT	p.H190R	TMC5_uc010vaq.1_Missense_Mutation_p.H190R|TMC5_uc002dgb.3_Missense_Mutation_p.H190R|TMC5_uc010var.1_Missense_Mutation_p.H190R	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	190	Extracellular (Potential).					integral to membrane				skin(1)	1						AATCTGGAACATACAAGTTTT	0.488													17	99					0	0	0.004007	0	0		G	19451929	G	G	19451929	3	3	79	1	0	0	0	0	1	0	0	0	16013	217	8	3	571	3	TMC5	16	19451929	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	9528436	19451929	70902824	273	50183											
TMC5	79838	broad.mit.edu	37	chr16	19451957	19451957	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagaatcaatccatacgcAgactctctgggaaagcctga	13	10	8	10	1	2	3	1	1	1	2	4	4	3	4	2	1	2	1	2	1	5	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr16:19451957A>T	uc002dgc.3	+	3	1346	c.597A>T	c.(595-597)GCA>GCT	p.A199A	TMC5_uc010vaq.1_Silent_p.A199A|TMC5_uc002dgb.3_Silent_p.A199A|TMC5_uc010var.1_Silent_p.A199A	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	199	Extracellular (Potential).					integral to membrane				skin(1)	1						ATCCATACGCAGACTCTCTGG	0.473													15	81					0	0	0.00245	0	0		T	19451957	T	T	19451957	2	4	79	1	0	0	0	0	0	0	0	1	16013	175	7	5		5	TMC5	16	19451957	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	28	19451957	70902796	274	50184											
DNAH3	55567	broad.mit.edu	37	chr16	20975134	20975134	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaacggcacacgttgttgtAgatgctcagggtgaaatggt	11	10	14	6	2	1	3	1	1	0	2	1	3	1	3	0	3	2	5	0	3	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr16:20975134A>G	uc010vbe.1	-	53	10072	c.10072T>C	c.(10072-10074)TAC>CAC	p.Y3358H	DNAH3_uc010vbd.1_Missense_Mutation_p.Y793H	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3358					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ACGTTGTTGTAGATGCTCAGG	0.463													13	120					0	0	0.00245	0	0		G	20975134	G	G	20975134	3	3	79	1	0	0	0	0	1	0	0	0	4609	420	15	3	2317	3	DNAH3	16	20975134	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1523177	20975134	69379619	275	50185											
ABCC12	94160	broad.mit.edu	37	chr16	48174824	48174824	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggaggatttggtgaatgAgaactgtctgtaaaacagca	13	10	13	5	0	1	2	0	2	1	1	1	5	1	4	0	3	3	3	0	3	4	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr16:48174824A>C	uc002efc.1	-	4	777	c.431T>G	c.(430-432)CTC>CGC	p.L144R	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.L144R|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	144	ABC transmembrane type-1 1.|Helical; (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TTGGTGAATGAGAACTGTCTG	0.522													9	56					0	0	0.004482	0	0		C	48174824	C	C	48174824	3	2	79	1	0	0	0	0	1	0	0	0	52	304	11	5	3752	5	ABCC12	16	48174824	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	27199690	48174824	42179929	276	50186											
CNTNAP4	85445	broad.mit.edu	37	chr16	76523743	76523743	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgtgaacaggagtttacTtattactgcaagaagtcacg	13	11	9	8	1	1	2	1	1	0	1	1	3	1	3	0	1	4	2	0	1	6	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr16:76523743T>G	uc002feu.1	+	15	2428	c.2043T>G	c.(2041-2043)ACT>ACG	p.T681T	CNTNAP4_uc002fev.1_Silent_p.T545T|CNTNAP4_uc010chb.1_Silent_p.T608T|CNTNAP4_uc002fex.1_Silent_p.T684T|CNTNAP4_uc002few.2_Silent_p.T656T	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	681	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						AGGAGTTTACTTATTACTGCA	0.458													3	12					0	0	0.000602	0	0		G	76523743	G	G	76523743	2	3	79	1	0	0	0	0	0	0	0	1	3652	1596	56	5		5	CNTNAP4	16	76523743	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	28348919	76523743	13831010	277	50187											
ADAMTS18	170692	broad.mit.edu	37	chr16	77397765	77397765	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacttccaatagtcccatcTttaaataggccagaaacctg	13	11	5	12	0	2	1	1	0	1	1	4	1	4	1	4	1	1	0	4	1	6	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr16:77397765T>G	uc002ffc.3	-	6	1409	c.990A>C	c.(988-990)AAA>AAC	p.K330N	ADAMTS18_uc010chc.1_5'UTR|ADAMTS18_uc002ffe.1_Missense_Mutation_p.K26N|ADAMTS18_uc010vni.1_RNA	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	330	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TAGTCCCATCTTTAAATAGGC	0.373													13	54					0	0	0.00245	0	0		G	77397765	G	G	77397765	3	3	79	1	0	0	0	0	1	0	0	0	263	1606	56	5	2747	5	ADAMTS18	16	77397765	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	874022	77397765	12956988	278	50188											
CDH13	1012	broad.mit.edu	37	chr16	83159046	83159046	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacaaaagaggtccattgtGgtatctcccattttaattcc	12	13	7	9	0	1	2	0	0	1	2	4	2	3	2	3	2	0	1	3	2	4	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr16:83159046G>A	uc002fgx.2	+	4	543	c.423G>A	c.(421-423)GTG>GTA	p.V141V	CDH13_uc010chh.2_Silent_p.V141V|CDH13_uc010vns.1_Silent_p.V188V|CDH13_uc010vnt.1_5'UTR|CDH13_uc010vnu.1_Intron	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	141	Cadherin 1.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		GGTCCATTGTGGTATCTCCCA	0.358													3	27					0	0	0.004672	0	0		A	83159046	A	A	83159046	2	1	79	1	0	0	0	0	0	0	0	1	3102	1335	47	4		4	CDH13	16	83159046	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08	5761281	83159046	7195707	279	50189											
SPIRE2	84501	broad.mit.edu	37	chr16	89922632	89922632	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggtgcggggcgagggcTgggctgcccgcggtgagtga	3	5	22	11	5	0	2	0	2	0	0	0	3	0	2	2	6	2	2	2	6	0	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr16:89922632T>G	uc002foz.1	+	7	1142	c.1090T>G	c.(1090-1092)TGG>GGG	p.W364G	SPIRE2_uc010civ.1_Missense_Mutation_p.W279G|SPIRE2_uc010ciw.1_Missense_Mutation_p.W364G|SPIRE2_uc002fpa.1_Missense_Mutation_p.W316G|SPIRE2_uc010cix.1_Missense_Mutation_p.W231G	NM_032451	NP_115827	Q8WWL2	SPIR2_HUMAN	spire homolog 2	364					transport	cytoplasm|cytoskeleton	actin binding			central_nervous_system(1)	1		Lung NSC(15;5.15e-06)|all_lung(18;8.38e-06)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0286)		GGGCGAGGGCTGGGCTGCCCG	0.672													10	10					0	0	0.006214	0	0		G	89922632	G	G	89922632	3	3	79	1	0	0	0	0	1	0	0	0	15097	1580	55	5	1116	5	SPIRE2	16	89922632	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	6763586	89922632	432121	280	50190											
SMTNL2	342527	broad.mit.edu	37	chr17	4497135	4497135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaagaattcctctttcaCgtggtctgtgccaagctctg	9	12	10	10	1	4	2	1	0	3	2	5	3	5	2	2	1	2	1	2	1	3	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr17:4497135C>T	uc002fyf.1	+	4	816	c.749C>T	c.(748-750)ACG>ATG	p.T250M	SMTNL2_uc002fye.2_Missense_Mutation_p.T106M	NM_001114974	NP_001108446	Q2TAL5	SMTL2_HUMAN	smoothelin-like 2 isoform 1	250											0				READ - Rectum adenocarcinoma(115;0.0325)		TCCTCTTTCACGTGGTCTGTG	0.597													17	57					0	0	0.006122	0	0		T	4497135	T	T	4497135	3	4	79	1	0	0	0	0	1	0	0	0	14841	536	19	1	763	1	SMTNL2	17	4497135	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08		4497135	76698075	281	50191											
CCDC42	146849	broad.mit.edu	37	chr17	8644934	8644934	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcatgtgctggcacttgAgttctcgctccttgttggct	3	15	11	12	1	1	1	0	1	1	0	3	1	2	1	2	2	2	7	2	2	0	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr17:8644934A>G	uc002gln.2	-	4	577	c.350T>C	c.(349-351)CTC>CCC	p.L117P	CCDC42_uc002glo.2_Missense_Mutation_p.L117P	NM_144681	NP_653282	Q96M95	CCD42_HUMAN	coiled-coil domain containing 42 isoform 1	117	Potential.									ovary(1)	1						CTGGCACTTGAGTTCTCGCTC	0.637													33	69					0	0	0.009535	0	0		G	8644934	G	G	8644934	3	3	79	1	0	0	0	0	1	0	0	0	2817	304	11	3	616	3	CCDC42	17	8644934	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	4147799	8644934	72550276	282	50192											
GLP2R	9340	broad.mit.edu	37	chr17	9739737	9739737	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacgtgtgttggcctcattcTtctcctggaaatgtctctgt	5	17	9	10	1	4	0	1	0	3	0	6	1	4	1	2	2	1	1	2	2	2	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr17:9739737T>G	uc002gmd.1	+	3	327	c.327T>G	c.(325-327)TCT>TCG	p.S109S	GLP2R_uc010cog.1_RNA	NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	109	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	GGCCTCATTCTTCTCCTGGAA	0.418													44	111					0	0	0.01441	0	0		G	9739737	G	G	9739737	2	3	79	1	0	0	0	0	0	0	0	1	6468	1596	56	5		5	GLP2R	17	9739737	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	1094803	9739737	71455473	283	50193											
MYH3	4621	broad.mit.edu	37	chr17	10542945	10542945	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaggtcatcaatgtcttTcttgagctctgagcattcat	9	15	7	10	0	7	2	4	2	3	0	7	2	7	2	0	1	2	2	0	1	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr17:10542945T>C	uc002gmq.1	-	22	2934	c.2857A>G	c.(2857-2859)AAA>GAA	p.K953E		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	953	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TCAATGTCTTTCTTGAGCTCT	0.473													91	208					0	0	0.01441	0	0		C	10542945	C	C	10542945	3	2	79	1	0	0	0	0	1	0	0	0	10054	1792	62	3	3041	3	MYH3	17	10542945	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	803208	10542945	70652265	284	50194											
PMP22	5376	broad.mit.edu	37	chr17	15142792	15142792	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatccacaacttaccagcAagaatttggaagattccagt	15	9	6	11	0	0	2	0	0	0	2	2	3	2	3	4	1	3	1	4	1	5	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr17:15142792A>C	uc002goj.2	-	3	364	c.315T>G	c.(313-315)CTT>CTG	p.L105L	PMP22_uc002gok.2_Silent_p.L105L|PMP22_uc002gol.2_Silent_p.L105L	NM_153322	NP_696997	Q01453	PMP22_HUMAN	peripheral myelin protein 22	105	Helical; (By similarity).		L -> R (in CMT1A and DSS).		peripheral nervous system development|synaptic transmission	integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0884)|BRCA - Breast invasive adenocarcinoma(8;4.92e-06)		ACTTACCAGCAAGAATTTGGA	0.473													28	80					0	0	0.013726	0	0		C	15142792	C	C	15142792	2	2	79	1	0	0	0	0	0	0	0	1	12158	117	5	5		5	PMP22	17	15142792	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	4599847	15142792	66052418	285	50195											
AARSD1	80755	broad.mit.edu	37	chr17	41122335	41122335	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccatggcaggtggaggtcTcttggtgctgaccttcttca	6	13	12	10	0	3	1	1	1	2	0	5	2	4	2	2	5	1	2	2	5	0	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr17:41122335T>A	uc002icf.2	-	7	750	c.532A>T	c.(532-534)AGA>TGA	p.R178*	AARSD1_uc002icd.2_Nonsense_Mutation_p.R117*|AARSD1_uc002ice.2_Nonsense_Mutation_p.R87*|AARSD1_uc010whg.1_Nonsense_Mutation_p.R178*|AARSD1_uc002icg.2_RNA|AARSD1_uc002ich.2_Nonsense_Mutation_p.R140*|AARSD1_uc010whh.1_Nonsense_Mutation_p.R145*	NM_025267	NP_079543	Q9BTE6	AASD1_HUMAN	alanyl-tRNA synthetase domain containing 1	Error:Variant_position_missing_in_Q9BTE6_after_alignment					alanyl-tRNA aminoacylation	cytoplasm	alanine-tRNA ligase activity|ATP binding|metal ion binding|nucleic acid binding				0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		GGTGGAGGTCTCTTGGTGCTG	0.443													17	209					0	0	0.00499	0	0		A	41122335	A	A	41122335	4	1	79	1	0	0	0	0	0	1	0	0	21	1559	54	5	1319	5	AARSD1	17	41122335	Nonsense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	25979543	41122335	40072875	286	50196											
KIF2B	84643	broad.mit.edu	37	chr17	51902400	51902400	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actagctgacctccacgtgaAgagcaaggtagagtgaagcc	13	6	12	10	1	0	5	0	3	0	2	1	5	1	5	3	1	3	3	3	1	5	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr17:51902400A>G	uc002iua.2	+	1	2162	c.2006A>G	c.(2005-2007)AAG>AGG	p.K669R	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	669					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CTCCACGTGAAGAGCAAGGTA	0.438													5	29					0	0	0.000602	0	0		G	51902400	G	G	51902400	3	3	79	1	0	0	0	0	1	0	0	0	8314	72	3	3	2008	3	KIF2B	17	51902400	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	10780065	51902400	29292810	287	50197											
C17orf71	55181	broad.mit.edu	37	chr17	57290673	57290673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattcctggaaagagaagtgCggttgtaatgggaagaggaa	14	9	15	3	1	0	2	0	0	0	2	1	6	1	5	1	4	1	2	1	4	6	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr17:57290673C>T	uc002ixi.2	+	3	2531	c.2489C>T	c.(2488-2490)GCG>GTG	p.A830V		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	830					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					AAGAGAAGTGCGGTTGTAATG	0.478													17	109					0	0	0.00499	0	0		T	57290673	T	T	57290673	3	4	79	1	0	0	0	0	1	0	0	0	1881	768	27	1	2499	1	C17orf71	17	57290673	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	5388273	57290673	23904537	288	50198											
EPB41L3	23136	broad.mit.edu	37	chr18	5406839	5406839	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctggcggccagtcgcacgggGgaggtggaaagcctcttctc	6	7	16	12	3	2	0	0	0	2	0	4	2	2	2	2	6	1	1	2	6	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr18:5406839G>A	uc002kmt.1	-	16	2372	c.2286C>T	c.(2284-2286)TCC>TCT	p.S762S	EPB41L3_uc010wzh.1_Silent_p.S593S|EPB41L3_uc002kmu.1_Silent_p.S581S|EPB41L3_uc010dkq.1_Silent_p.S472S|EPB41L3_uc002kms.1_Silent_p.S34S|EPB41L3_uc010wze.1_Silent_p.S34S|EPB41L3_uc010wzf.1_Silent_p.S34S|EPB41L3_uc010wzg.1_Silent_p.S34S|EPB41L3_uc010dkr.2_Silent_p.S154S	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	762	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GTCGCACGGGGGAGGTGGAAA	0.512													29	76					0	0	0.008361	0	0		A	5406839	A	A	5406839	2	1	79	1	0	0	0	0	0	0	0	1	5162	1219	43	4		4	EPB41L3	18	5406839	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08		5406839	72670409	289	50199											
L3MBTL4	91133	broad.mit.edu	37	chr18	5969416	5969416	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccacagtccaacgtgccacTtggctggcccggatgtcagc	7	8	11	15	2	1	0	1	0	0	0	3	1	3	1	4	3	3	1	4	3	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr18:5969416T>C	uc002kmz.3	-	18	1777	c.1617A>G	c.(1615-1617)CAA>CAG	p.Q539Q	L3MBTL4_uc010dkt.2_Silent_p.Q539Q|L3MBTL4_uc002kmy.3_Silent_p.Q368Q	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	539					chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				AACGTGCCACTTGGCTGGCCC	0.637													33	97					0	0	0.004878	0	0		C	5969416	C	C	5969416	2	2	79	1	0	0	0	0	0	0	0	1	8610	1606	56	3		3	L3MBTL4	18	5969416	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	562577	5969416	72107832	290	50200											
ARHGAP28	79822	broad.mit.edu	37	chr18	6870702	6870702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaataaacttaagaaatcaGagattaagaaagaagactat	23	8	7	3	0	1	5	1	0	0	5	1	7	1	5	0	0	1	0	0	0	9	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr18:6870702G>A	uc010wzi.1	+	6	632	c.394G>A	c.(394-396)GAG>AAG	p.E132K	ARHGAP28_uc002knc.2_Missense_Mutation_p.E257K|ARHGAP28_uc002knd.2_Missense_Mutation_p.E150K|ARHGAP28_uc002kne.2_Missense_Mutation_p.E150K|ARHGAP28_uc002knf.2_Missense_Mutation_p.E141K			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	132					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				TAAGAAATCAGAGATTAAGAA	0.338													27	51					0	0	0.003954	0	0		A	6870702	A	A	6870702	3	1	79	1	0	0	0	0	1	0	0	0	877	943	33	4	466	4	ARHGAP28	18	6870702	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	901286	6870702	71206546	291	50201											
LAMA3	3909	broad.mit.edu	37	chr18	21526174	21526174	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactgagggcccgggagggaAgtttgcctggaaactccacc	9	6	15	11	1	0	1	0	1	0	0	1	5	1	4	4	4	2	1	4	4	2	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr18:21526174A>C	uc002kuq.2	+	70	9363	c.9277A>C	c.(9277-9279)AGT>CGT	p.S3093R	LAMA3_uc002kur.2_Missense_Mutation_p.S3037R|LAMA3_uc002kus.3_Missense_Mutation_p.S1484R|LAMA3_uc002kut.3_Missense_Mutation_p.S1428R	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	3093	Laminin G-like 4.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCGGGAGGGAAGTTTGCCTGG	0.502													31	62					0	0	0.007291	0	0		C	21526174	C	C	21526174	3	2	79	1	0	0	0	0	1	0	0	0	8623	72	3	5	9730	5	LAMA3	18	21526174	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	14655472	21526174	56551074	292	50202											
SETBP1	26040	broad.mit.edu	37	chr18	42281639	42281639	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagctaaagattcagaccAcaaagcgggctaagaaaccc	17	5	9	10	1	1	4	1	1	0	3	1	4	1	4	2	1	3	2	2	1	6	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr18:42281639A>G	uc010dni.2	+	2	624	c.328A>G	c.(328-330)ACA>GCA	p.T110A	SETBP1_uc002lay.2_Missense_Mutation_p.T110A	NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	110						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GATTCAGACCACAAAGCGGGC	0.473									Schinzel-Giedion_syndrome				30	64					0	0	0.008361	0	0		G	42281639	G	G	42281639	3	3	79	1	0	0	0	0	1	0	0	0	14154	159	6	3	330	3	SETBP1	18	42281639	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	20755465	42281639	35795609	293	50203											
SERPINB3	6317	broad.mit.edu	37	chr18	61322928	61322928	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccatagaagaggatgctgTtggtcttattttgccttatg	8	16	11	6	0	1	2	0	0	1	2	1	3	1	3	2	2	3	2	2	2	4	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr18:61322928T>G	uc002lji.2	-	8	1280	c.1136A>C	c.(1135-1137)AAC>ACC	p.N379T	SERPINB4_uc002ljg.2_Intron|SERPINB3_uc010dqa.2_Missense_Mutation_p.N327T	NM_006919	NP_008850	P29508	SPB3_HUMAN	serine (or cysteine) proteinase inhibitor, clade	379					regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GAGGATGCTGTTGGTCTTATT	0.418													44	123					0	0	0.01441	0	0		G	61322928	G	G	61322928	3	3	79	1	0	0	0	0	1	0	0	0	14127	1725	60	5	40	5	SERPINB3	18	61322928	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	19041289	61322928	16754320	294	50204											
CBLN2	147381	broad.mit.edu	37	chr18	70205481	70205481	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatgaggttgcctctctcaAgtttgagatgcactttgtct	7	15	9	10	0	3	2	1	2	2	1	4	3	3	2	2	1	2	3	2	1	1	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr18:70205481A>G	uc002lku.2	-	4	840	c.605T>C	c.(604-606)CTT>CCT	p.L202P	CBLN2_uc002lkv.2_Missense_Mutation_p.L202P	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	202	C1q.					integral to membrane					0		Esophageal squamous(42;0.131)				GCCTCTCTCAAGTTTGAGATG	0.527													31	82					0	0	0.010818	0	0		G	70205481	G	G	70205481	3	3	79	1	0	0	0	0	1	0	0	0	2708	72	3	3	73	3	CBLN2	18	70205481	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	8882553	70205481	7871767	295	50205											
ZNF236	7776	broad.mit.edu	37	chr18	74616428	74616428	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atagaccatacaagtgttttTactgtcatcgtgcatataaa	14	14	6	7	1	1	1	1	0	0	1	2	1	1	1	1	0	3	2	1	0	7	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr18:74616428T>C	uc002lmi.2	+	12	2179	c.1981T>C	c.(1981-1983)TAC>CAC	p.Y661H	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	661	C2H2-type 14.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CAAGTGTTTTTACTGTCATCG	0.338													3	30					0	0	0.004672	0	0		C	74616428	C	C	74616428	3	2	79	1	0	0	0	0	1	0	0	0	17814	1754	61	3	2027	3	ZNF236	18	74616428	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	4410947	74616428	3460820	296	50206											
MUC16	94025	broad.mit.edu	37	chr19	9058642	9058642	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcatcttgtaaaggacagTgcttgtctctgtggatgagg	8	12	15	6	0	2	1	0	1	2	0	3	3	2	3	0	4	1	3	0	4	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:9058642T>C	uc002mkp.2	-	3	29008	c.28804A>G	c.(28804-28806)ACT>GCT	p.T9602A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9604	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TAAAGGACAGTGCTTGTCTCT	0.527													8	29					0	0	0.004482	0	0		C	9058642	C	C	9058642	3	2	79	1	0	0	0	0	1	0	0	0	9991	1696	59	3	15047	3	MUC16	19	9058642	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08		9058642	50070341	297	50207											
MUC16	94025	broad.mit.edu	37	chr19	9075479	9075479	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgacatagaaactattgcTtgttccctggtggaggttgt	8	15	12	6	0	0	2	0	1	0	1	1	3	1	3	1	3	2	4	1	3	3	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:9075479T>G	uc002mkp.2	-	3	12171	c.11967A>C	c.(11965-11967)CAA>CAC	p.Q3989H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3991	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AAACTATTGCTTGTTCCCTGG	0.488													14	15					0	0	0.00245	0	0		G	9075479	G	G	9075479	3	3	79	1	0	0	0	0	1	0	0	0	9991	1606	56	5	31884	5	MUC16	19	9075479	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	16837	9075479	50053504	298	50208											
MUC16	94025	broad.mit.edu	37	chr19	9075509	9075509	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaggttgtaaccactggAgatgtgagtttggatgacgc	9	11	16	5	1	0	3	0	2	0	1	0	6	0	5	1	4	1	3	1	4	1	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:9075509A>C	uc002mkp.2	-	3	12141	c.11937T>G	c.(11935-11937)TCT>TCG	p.S3979S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3981	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TAACCACTGGAGATGTGAGTT	0.483													3	25					0	0	0.004672	0	0		C	9075509	C	C	9075509	2	2	79	1	0	0	0	0	0	0	0	1	9991	291	11	5		5	MUC16	19	9075509	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	30	9075509	50053474	299	50209											
MUC16	94025	broad.mit.edu	37	chr19	9083248	9083248	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgttaggaggcctgacTcagcactggtgggcttcaca	8	9	14	10	0	2	1	2	1	0	0	2	2	2	2	1	5	1	3	1	5	1	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:9083248T>C	uc002mkp.2	-	1	8771	c.8567A>G	c.(8566-8568)GAG>GGG	p.E2856G		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2856	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAGGCCTGACTCAGCACTGGT	0.547													5	11					0	0	0.000602	0	0		C	9083248	C	C	9083248	3	2	79	1	0	0	0	0	1	0	0	0	9991	1551	54	3	35292	3	MUC16	19	9083248	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	7739	9083248	50045735	300	50210											
EMR2	30817	broad.mit.edu	37	chr19	14875404	14875404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggggcctccagcagctcatCcagcgcctgtaagatgctct	8	8	11	14	1	2	1	1	0	1	1	4	1	4	1	4	2	4	4	4	2	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:14875404C>T	uc002mzp.1	-	11	1381	c.925G>A	c.(925-927)GAT>AAT	p.D309N	EMR2_uc010dzs.1_5'UTR|EMR2_uc010xnw.1_Missense_Mutation_p.D309N|EMR2_uc002mzo.1_Missense_Mutation_p.D309N|EMR2_uc002mzq.1_Missense_Mutation_p.D260N|EMR2_uc002mzr.1_Missense_Mutation_p.D260N|EMR2_uc002mzs.1_Missense_Mutation_p.D167N|EMR2_uc002mzt.1_Missense_Mutation_p.D216N|EMR2_uc002mzu.1_Missense_Mutation_p.D216N|EMR2_uc010xnx.1_RNA|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	309	Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						AGCAGCTCATCCAGCGCCTGT	0.632													14	46					0	0	0.004007	0	0		T	14875404	T	T	14875404	3	4	79	1	0	0	0	0	1	0	0	0	5113	855	30	4	1590	4	EMR2	19	14875404	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	5792156	14875404	44253579	301	50211											
ZNF208	7757	broad.mit.edu	37	chr19	22156135	22156135	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attttcttatgataactaagGgttgaggaccacttataggc	12	14	9	6	0	1	2	0	2	1	0	1	3	1	3	1	3	1	1	1	3	5	8			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:22156135G>T	uc002nqp.2	-	5	1550	c.1401C>A	c.(1399-1401)ACC>ACA	p.T467T	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GATAACTAAGGGTTGAGGACC	0.343													5	11					0.000602214	0.000612623	0.000602	1	0		T	22156135	T	T	22156135	2	4	79	1	0	0	0	0	0	0	0	1	17791	1219	43	5		5	ZNF208	19	22156135	Silent	SNP	G	TCGA-BR-8485-01A-11D-2394-08	7280731	22156135	36972848	302	50212											
UPK1A	11045	broad.mit.edu	37	chr19	36164136	36164136	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccctctgtctccccagtaCctggtgctcatgctcatcgt	4	13	7	17	1	4	0	2	0	2	0	7	0	5	0	4	1	3	3	4	1	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:36164136C>A	uc002oaw.2	+	3	288	c.288C>A	c.(286-288)TAC>TAA	p.Y96*	UPK1A_uc010eeh.2_Nonsense_Mutation_p.Y96*|uc002oax.1_Intron	NM_007000	NP_008931	O00322	UPK1A_HUMAN	uroplakin 1A	96	Helical; (Potential).				epithelial cell differentiation|protein oligomerization	endoplasmic reticulum|integral to membrane	monosaccharide binding|protein homodimerization activity				0	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTCCCCAGTACCTGGTGCTCA	0.602													48	142					2.01872e-29	2.12171e-29	0.01441	1	0		A	36164136	A	A	36164136	4	1	79	1	0	0	0	0	0	1	0	0	17033	518	18	5	298	5	UPK1A	19	36164136	Nonsense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	14008001	36164136	22964847	303	50213											
ZNF793	390927	broad.mit.edu	37	chr19	38023304	38023304	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggcttcacccaagaggAgtggcaccggctgagtcctg	7	8	15	11	1	1	2	1	1	0	1	2	3	2	3	3	4	0	3	3	4	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:38023304A>C	uc010efm.2	+	6	504	c.62A>C	c.(61-63)GAG>GCG	p.E21A	ZNF793_uc010xts.1_Missense_Mutation_p.E21A|ZNF793_uc010efo.2_Missense_Mutation_p.E21A	NM_001013659	NP_001013681	Q6ZN11	ZN793_HUMAN	zinc finger protein 793	21	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ACCCAAGAGGAGTGGCACCGG	0.473													6	51					0	0	0.001168	0	0		C	38023304	C	C	38023304	3	2	79	1	0	0	0	0	1	0	0	0	18190	304	11	5	68	5	ZNF793	19	38023304	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1859168	38023304	21105679	304	50214											
ZNF571	51276	broad.mit.edu	37	chr19	38057008	38057008	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggtaattttgacacacaTgtaaagcccttcctgacttg	12	12	7	10	0	0	2	0	2	0	0	1	2	1	2	2	1	1	2	2	1	3	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:38057008T>C	uc002ogt.2	-	4	423	c.322A>G	c.(322-324)ATG>GTG	p.M108V	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Missense_Mutation_p.M108V	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTGACACACATGTAAAGCCCT	0.398													30	53					0	0	0.003755	0	0		C	38057008	C	C	38057008	3	2	79	1	0	0	0	0	1	0	0	0	18028	1464	51	3	1511	3	ZNF571	19	38057008	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	33704	38057008	21071975	305	50215											
BCAM	4059	broad.mit.edu	37	chr19	45322958	45322958	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagggggcccctgctgcCgccagcggcgggagaagggg	7	2	20	12	3	0	1	0	0	0	1	0	2	0	1	4	6	3	2	4	6	2	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:45322958C>T	uc002ozu.2	+	13	1782	c.1738C>T	c.(1738-1740)CGC>TGC	p.R580C	BCAM_uc002ozt.1_Missense_Mutation_p.R580C	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	580	Cytoplasmic (Potential).				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				CCCCTGCTGCCGCCAGCGGCG	0.537													4	44					0	0	0.001984	0	0		T	45322958	T	T	45322958	3	4	79	1	0	0	0	0	1	0	0	0	1345	652	23	1	1788	1	BCAM	19	45322958	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	7265950	45322958	13806025	306	50216											
ZNF665	79788	broad.mit.edu	37	chr19	53669150	53669150	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctctccagtatgaattCtcttatgacttgttagccgt	7	17	7	10	1	2	2	0	2	2	0	5	2	3	2	2	0	1	3	2	0	4	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:53669150C>A	uc010eqm.1	-	4	693	c.593G>T	c.(592-594)AGA>ATA	p.R198I		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	133	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		AGTATGAATTCTCTTATGACT	0.388													28	57					1.68575e-08	1.73633e-08	0.007291	1	0		A	53669150	A	A	53669150	3	1	79	1	0	0	0	0	1	0	0	0	18098	913	32	5	1447	5	ZNF665	19	53669150	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	8346192	53669150	5459833	307	50217											
ZNF813	126017	broad.mit.edu	37	chr19	53993839	53993839	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccatgacagaaatcaaaaAgttgactggtagtgcagacc	16	7	9	9	0	1	4	1	2	0	2	1	4	1	4	2	1	1	3	2	1	4	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:53993839A>C	uc002qbu.2	+	4	481	c.353A>C	c.(352-354)AAG>ACG	p.K118T	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	118					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		GAAATCAAAAAGTTGACTGGT	0.393													19	184					0	0	0.007413	0	0		C	53993839	C	C	53993839	3	2	79	1	0	0	0	0	1	0	0	0	18200	72	3	5	363	5	ZNF813	19	53993839	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	324689	53993839	5135144	308	50218											
LILRA2	11027	broad.mit.edu	37	chr19	55098681	55098681	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccagcatccctaggccaAcacccccaggattacacagt	11	7	7	16	0	0	0	0	0	0	0	2	1	2	1	5	2	3	1	5	2	3	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:55098681A>C	uc002qgg.3	+	8	1409	c.1320A>C	c.(1318-1320)CAA>CAC	p.Q440H	LILRA2_uc010ern.2_3'UTR|LILRA2_uc002qgf.2_Missense_Mutation_p.Q423H|LILRA2_uc010ero.2_Missense_Mutation_p.Q411H|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	440	Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		CCCTAGGCCAACACCCCCAGG	0.587													7	85					0	0	0.001984	0	0		C	55098681	C	C	55098681	3	2	79	1	0	0	0	0	1	0	0	0	8801	40	2	5	1350	5	LILRA2	19	55098681	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1104842	55098681	4030302	309	50219											
NLRP13	126204	broad.mit.edu	37	chr19	56422095	56422095	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcctggaatcaaacttgcTtgtccttcatgagggagaga	11	11	10	9	0	2	2	2	1	0	1	4	5	4	4	2	2	2	1	2	2	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:56422095T>A	uc010ygg.1	-	6	2141	c.2116A>T	c.(2116-2118)AGC>TGC	p.S706C		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	706							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		TCAAACTTGCTTGTCCTTCAT	0.443													11	116					0	0	0.001855	0	0		A	56422095	A	A	56422095	3	1	79	1	0	0	0	0	1	0	0	0	10494	1609	56	5	1037	5	NLRP13	19	56422095	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	1323414	56422095	2706888	310	50220											
ZNF264	9422	broad.mit.edu	37	chr19	57723986	57723986	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaagcggattcatagtggAgagaagccctatgaatgtgt	13	9	12	7	1	1	2	1	1	0	1	1	5	1	4	1	2	2	0	1	2	5	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:57723986A>G	uc002qob.2	+	4	1934	c.1521A>G	c.(1519-1521)GGA>GGG	p.G507G		NM_003417	NP_003408	O43296	ZN264_HUMAN	zinc finger protein 264	507					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0135)		TTCATAGTGGAGAGAAGCCCT	0.512													11	68					0	0	0.013537	0	0		G	57723986	G	G	57723986	2	3	79	1	0	0	0	0	0	0	0	1	17829	291	11	3		3	ZNF264	19	57723986	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1301891	57723986	1404997	311	50221											
AURKC	6795	broad.mit.edu	37	chr19	57743421	57743421	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgcctcacagtcgatgActttgaaatcgggcgtcccc	7	8	12	14	5	1	2	1	2	0	0	4	3	2	2	3	2	0	0	3	2	1	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:57743421A>G	uc002qoe.2	+	3	314	c.125A>G	c.(124-126)GAC>GGC	p.D42G	AURKC_uc002qoc.2_Missense_Mutation_p.D23G|AURKC_uc002qod.2_Missense_Mutation_p.D8G|AURKC_uc010etv.2_Missense_Mutation_p.D39G	NM_001015878	NP_001015878	Q9UQB9	AURKC_HUMAN	aurora kinase C isoform 1	42					cell cycle|cytokinesis	condensed chromosome|cytoplasm|midbody|spindle midzone	ATP binding|protein serine/threonine kinase activity			lung(4)|ovary(2)	6		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0122)		ACAGTCGATGACTTTGAAATC	0.557													12	45					0	0	0.013537	0	0		G	57743421	G	G	57743421	3	3	79	1	0	0	0	0	1	0	0	0	1225	275	10	3	140	3	AURKC	19	57743421	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	19435	57743421	1385562	312	50222											
ZNF460	10794	broad.mit.edu	37	chr19	57802744	57802744	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggttcacagtggagagaagCcttttgtgtgcaatgaatgt	10	12	14	5	0	1	2	1	1	0	1	1	4	1	3	1	2	2	2	1	2	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:57802744C>T	uc002qog.2	+	3	1157	c.835C>T	c.(835-837)CCT>TCT	p.P279S	ZNF460_uc010ygv.1_Missense_Mutation_p.P238S	NM_006635	NP_006626	Q14592	ZN460_HUMAN	zinc finger protein 460	279					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGGAGAGAAGCCTTTTGTGTG	0.498													10	129					0	0	0.006214	0	0		T	57802744	T	T	57802744	3	4	79	1	0	0	0	0	1	0	0	0	17949	739	26	2	845	2	ZNF460	19	57802744	Missense_Mutation	SNP	C	TCGA-BR-8485-01A-11D-2394-08	59323	57802744	1326239	313	50223											
ZNF211	10520	broad.mit.edu	37	chr19	58152347	58152347	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacagaggcacctttcagaAgttatgtggacactgcctcg	10	11	10	10	1	1	2	1	0	0	2	2	3	1	3	2	2	2	2	2	2	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:58152347A>C	uc002qpq.2	+	3	673	c.493A>C	c.(493-495)AGT>CGT	p.S165R	ZNF211_uc010yhb.1_Missense_Mutation_p.S169R|ZNF211_uc002qpp.2_Missense_Mutation_p.S178R|ZNF211_uc002qpr.2_Missense_Mutation_p.S229R|ZNF211_uc002qps.2_Missense_Mutation_p.S230R|ZNF211_uc002qpt.2_Missense_Mutation_p.S177R|ZNF211_uc010yhc.1_Missense_Mutation_p.S177R|ZNF211_uc010yhd.1_Missense_Mutation_p.S104R|ZNF211_uc010yhe.1_Missense_Mutation_p.S156R	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	165						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ACCTTTCAGAAGTTATGTGGA	0.468													14	54					0	0	0.001855	0	0		C	58152347	C	C	58152347	3	2	79	1	0	0	0	0	1	0	0	0	17792	72	3	5	546	5	ZNF211	19	58152347	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	349603	58152347	976636	314	50224											
ZNF606	80095	broad.mit.edu	37	chr19	58491404	58491404	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctggctaaactctgccccaAgtccacagaattcagagctt	11	10	7	13	0	3	2	1	0	2	2	4	2	4	2	3	1	3	2	3	1	4	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:58491404A>G	uc002qqw.2	-	7	1262	c.644T>C	c.(643-645)CTT>CCT	p.L215P	ZNF606_uc010yhp.1_Missense_Mutation_p.L125P	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	215					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		CTCTGCCCCAAGTCCACAGAA	0.413													23	118					0	0	0.004656	0	0		G	58491404	G	G	58491404	3	3	79	1	0	0	0	0	1	0	0	0	18057	72	3	3	1738	3	ZNF606	19	58491404	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	339057	58491404	637579	315	50225											
ZNF329	79673	broad.mit.edu	37	chr19	58640334	58640334	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagtaaagatgttctcaaaAttcttaccttcatacgattt	14	15	5	7	1	3	2	2	0	2	2	4	3	3	2	1	0	2	2	1	0	6	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr19:58640334A>C	uc002qrn.2	-	4	774	c.537T>G	c.(535-537)AAT>AAG	p.N179K	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	179					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		TGTTCTCAAAATTCTTACCTT	0.353													8	51					0	0	0.00308	0	0		C	58640334	C	C	58640334	3	2	79	1	0	0	0	0	1	0	0	0	17872	98	4	5	1092	5	ZNF329	19	58640334	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	148930	58640334	488649	316	50226											
SPTLC3	55304	broad.mit.edu	37	chr20	13107335	13107335	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcatcagatcactaaaacTtatcatgggactggatggga	15	10	9	7	0	4	1	4	0	0	1	4	4	4	4	0	3	1	0	0	3	4	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr20:13107335T>G	uc002wod.1	+	9	1539	c.1250T>G	c.(1249-1251)CTT>CGT	p.L417R		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	417					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	TCACTAAAACTTATCATGGGA	0.493													30	142					0	0	0.008361	0	0		G	13107335	G	G	13107335	3	3	79	1	0	0	0	0	1	0	0	0	15150	1609	56	5	1284	5	SPTLC3	20	13107335	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08		13107335	49918185	317	50227											
SEC23B	10483	broad.mit.edu	37	chr20	18505155	18505155	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgaccttcaagcactcaaaGagtccctgcagatgtccctg	11	9	8	13	0	2	3	2	1	0	2	4	3	4	3	3	0	2	2	3	0	2	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr20:18505155G>C	uc002wqz.1	+	5	888	c.445G>C	c.(445-447)GAG>CAG	p.E149Q	SEC23B_uc002wra.1_Missense_Mutation_p.E149Q|SEC23B_uc002wrb.1_Missense_Mutation_p.E149Q|SEC23B_uc010zsb.1_Missense_Mutation_p.E131Q|SEC23B_uc002wrc.1_Missense_Mutation_p.E149Q	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	149					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						AGCACTCAAAGAGTCCCTGCA	0.502													21	94					0	0	0.008871	0	0		C	18505155	C	C	18505155	3	2	79	1	0	0	0	0	1	0	0	0	14017	943	33	5	459	5	SEC23B	20	18505155	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	5397820	18505155	44520365	318	50228											
XRN2	22803	broad.mit.edu	37	chr20	21312985	21312985	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accattattagagaagaattCaaaccaaacaagcccaaacc	20	6	4	11	0	1	2	1	0	0	2	1	3	1	2	4	0	4	0	4	0	8	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr20:21312985C>T	uc002wsf.1	+	9	860	c.765C>T	c.(763-765)TTC>TTT	p.F255F	XRN2_uc002wsg.1_Silent_p.F179F|XRN2_uc010zsk.1_Silent_p.F201F	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	255					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						GAGAAGAATTCAAACCAAACA	0.388													10	53					0	0	0.010729	0	0		T	21312985	T	T	21312985	2	4	79	1	0	0	0	0	0	0	0	1	17486	825	29	4		4	XRN2	20	21312985	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	2807830	21312985	41712535	319	50229											
ENTPD6	955	broad.mit.edu	37	chr20	25187739	25187739	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcacggtccttggcaaacaAggatgagaaaaatatccaac	17	6	9	9	1	0	1	0	1	0	1	2	3	2	2	2	3	3	2	2	3	6	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr20:25187739A>C	uc002wuj.2	+	3	262	c.82A>C	c.(82-84)AGG>CGG	p.R28R	ENTPD6_uc010zsy.1_Silent_p.R28R|ENTPD6_uc010gdj.1_5'UTR|ENTPD6_uc010zsz.1_Intron|ENTPD6_uc002wum.2_Silent_p.R11R|ENTPD6_uc010zta.1_Silent_p.R28R|ENTPD6_uc002wun.2_Silent_p.R28R|ENTPD6_uc002wuk.2_Silent_p.R27R|ENTPD6_uc002wul.2_Silent_p.R27R|ENTPD6_uc010ztb.1_5'UTR|ENTPD6_uc010ztc.1_5'UTR|ENTPD6_uc002wuo.2_Intron|ENTPD6_uc010ztd.1_5'Flank	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	28	Cytoplasmic (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						TTGGCAAACAAGGATGAGAAA	0.582													7	147					0	0	0.001984	0	0		C	25187739	C	C	25187739	2	2	79	1	0	0	0	0	0	0	0	1	5151	63	3	5		5	ENTPD6	20	25187739	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	3874754	25187739	37837781	320	50230											
DOK5	55816	broad.mit.edu	37	chr20	53171511	53171511	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtattcaagaaagcttcaAgcaaaggtccaaaaagactg	18	8	8	7	0	2	2	2	0	0	2	3	2	3	2	1	1	2	3	1	1	8	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr20:53171511A>G	uc002xwy.2	+	2	326	c.106A>G	c.(106-108)AGC>GGC	p.S36G	DOK5_uc010gin.2_5'UTR|DOK5_uc002xwz.2_5'UTR	NM_018431	NP_060901	Q9P104	DOK5_HUMAN	docking protein 5	36	PH.						insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)			GAAAGCTTCAAGCAAAGGTCC	0.388													7	48					0	0	0.004482	0	0		G	53171511	G	G	53171511	3	3	79	1	0	0	0	0	1	0	0	0	4706	72	3	3	112	3	DOK5	20	53171511	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	27983772	53171511	9854009	321	50231											
SAMSN1	64092	broad.mit.edu	37	chr21	15858379	15858379	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctaactgtgacttatttaAggagatgtctgagctcaagg	12	13	10	6	0	3	3	1	2	2	1	3	4	3	3	0	2	2	1	0	2	4	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr21:15858379A>C	uc002yju.1	-	8	1058	c.976T>G	c.(976-978)TTA>GTA	p.L326V	SAMSN1_uc010gky.1_Missense_Mutation_p.L158V|SAMSN1_uc002yjv.1_Missense_Mutation_p.L394V	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	326					negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		GACTTATTTAAGGAGATGTCT	0.408													6	37					0	0	0.001168	0	0		C	15858379	C	C	15858379	3	2	79	1	0	0	0	0	1	0	0	0	13855	69	3	5	149	5	SAMSN1	21	15858379	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08		15858379	32271516	322	50232											
TMPRSS15	5651	broad.mit.edu	37	chr21	19704431	19704431	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attagggtagctgtttggaaAgttcgtagaactgaatgttg	11	14	13	3	1	0	2	0	1	0	1	1	3	0	3	0	2	2	6	0	2	6	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr21:19704431A>C	uc002ykw.2	-	14	1655	c.1624T>G	c.(1624-1626)TTT>GTT	p.F542V		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	542	Extracellular (Potential).|CUB 2.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						CTGTTTGGAAAGTTCGTAGAA	0.423													9	42					0	0	0.006214	0	0		C	19704431	C	C	19704431	3	2	79	1	0	0	0	0	1	0	0	0	16271	72	3	5	1483	5	TMPRSS15	21	19704431	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	3846052	19704431	28425464	323	50233											
PRDM15	63977	broad.mit.edu	37	chr21	43221454	43221454	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcacctggggctgggcCgcctgctgtgggggtgcctg	1	8	19	13	1	0	0	0	0	0	0	0	0	0	0	5	5	3	3	5	5	0	0	rs142036110	byFrequency	TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr21:43221454C>T	uc002yzq.1	-	31	4581	c.4470G>A	c.(4468-4470)GCG>GCA	p.A1490A	PRDM15_uc002yzo.2_Silent_p.A1161A|PRDM15_uc002yzp.2_Silent_p.A1181A|PRDM15_uc002yzr.1_Silent_p.A1181A	NM_022115	NP_071398	P57071	PRD15_HUMAN	PR domain containing 15 isoform 1	1490					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGGGCTGGGCCGCCTGCTGTG	0.667													21	95					0	0	0.012319	0	0		T	43221454	T	T	43221454	2	4	79	1	0	0	0	0	0	0	0	1	12478	639	23	1		1	PRDM15	21	43221454	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08	23517023	43221454	4908441	324	50234											
CACNG2	10369	broad.mit.edu	37	chr22	36960743	36960743	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccgtggcgcgggccgtggcCcgcagctgtttgtgccggtc	1	9	17	14	6	0	0	0	0	0	0	2	0	1	0	4	4	2	3	4	4	0	1			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chr22:36960743C>T	uc003aps.1	-	4	909	c.627G>A	c.(625-627)CGG>CGA	p.R209R		NM_006078	NP_006069	Q9Y698	CCG2_HUMAN	voltage-dependent calcium channel gamma-2	209					membrane depolarization|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0						GGGCCGTGGCCCGCAGCTGTT	0.672													33	295					0	0	0.004878	0	0		T	36960743	T	T	36960743	2	4	79	1	0	0	0	0	0	0	0	1	2560	610	22	4		4	CACNG2	22	36960743	Silent	SNP	C	TCGA-BR-8485-01A-11D-2394-08		36960743	14343823	325	50235											
TBL1X	6907	broad.mit.edu	37	chrX	9665416	9665416	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcggaacacagacaacaaTaatttgggatgcccacacag	15	7	9	10	1	0	1	0	0	0	1	0	3	0	3	1	2	4	0	1	2	4	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:9665416T>G	uc010ndq.2	+	12	1429	c.1061T>G	c.(1060-1062)ATA>AGA	p.I354R	TBL1X_uc004csq.3_Missense_Mutation_p.I303R|TBL1X_uc010ndr.2_Missense_Mutation_p.I303R|TBL1X_uc004csr.2_Missense_Mutation_p.I354R|TBL1X_uc004css.2_Missense_Mutation_p.I305R	NM_001139466	NP_001132938	O60907	TBL1X_HUMAN	transducin beta-like 1X isoform a	354	WD 3.				canonical Wnt receptor signaling pathway|cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|sensory perception of sound|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein C-terminus binding|protein domain specific binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1		Hepatocellular(5;0.000888)				CAGACAACAATAATTTGGGAT	0.333													67	60					0	0	0.01441	0	0		G	9665416	G	G	9665416	3	3	79	1	0	0	0	0	1	0	0	0	15664	1406	49	5	1095	5	TBL1X	23	9665416	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08		9665416	145605144	326	50236											
REPS2	9185	broad.mit.edu	37	chrX	17153480	17153480	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagccttccactgctgcaAgtgggccagcttctgcggca	8	8	12	13	1	1	1	0	0	1	1	2	1	2	1	3	2	5	4	3	2	2	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:17153480A>C	uc004cxv.1	+	16	1930	c.1759A>C	c.(1759-1761)AGT>CGT	p.S587R	REPS2_uc004cxw.1_Missense_Mutation_p.S586R|REPS2_uc011miw.1_Missense_Mutation_p.S385R	NM_004726	NP_004717	Q8NFH8	REPS2_HUMAN	RALBP1 associated Eps domain containing 2	587	Interaction with ASAP1 (By similarity).|Interaction with RALBP1.				epidermal growth factor receptor signaling pathway|protein complex assembly	cytoplasm	calcium ion binding|protein binding			skin(2)|central_nervous_system(1)	3	Hepatocellular(33;0.183)					CACTGCTGCAAGTGGGCCAGC	0.473													62	118					0	0	0.01441	0	0		C	17153480	C	C	17153480	3	2	79	1	0	0	0	0	1	0	0	0	13254	72	3	5	1821	5	REPS2	23	17153480	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	7488064	17153480	138117080	327	50237											
MAGEB3	4114	broad.mit.edu	37	chrX	30254229	30254229	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggtcacgtagtgctctcaAgaagcctcagagagcactat	12	9	10	10	1	3	2	3	0	1	2	4	3	3	2	1	1	3	3	1	1	5	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:30254229A>G	uc004dca.1	+	5	925	c.188A>G	c.(187-189)AAG>AGG	p.K63R		NM_002365	NP_002356	O15480	MAGB3_HUMAN	melanoma antigen family B, 3	63											0						AGTGCTCTCAAGAAGCCTCAG	0.413													4	21					0	0	0.009096	0	0		G	30254229	G	G	30254229	3	3	79	1	0	0	0	0	1	0	0	0	9195	72	3	3	190	3	MAGEB3	23	30254229	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	13100749	30254229	125016331	328	50238											
DMD	1756	broad.mit.edu	37	chrX	32360278	32360278	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcaatttcccgccagcgcTtgctgagctggatctgagtt	6	13	10	12	2	2	2	1	2	2	0	4	3	3	3	2	1	3	4	2	1	1	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:32360278T>C	uc004dda.1	-	41	6105	c.5861A>G	c.(5860-5862)AAG>AGG	p.K1954R	DMD_uc004dcw.2_Missense_Mutation_p.K610R|DMD_uc004dcx.2_Missense_Mutation_p.K613R|DMD_uc004dcz.2_Missense_Mutation_p.K1831R|DMD_uc004dcy.1_Missense_Mutation_p.K1950R|DMD_uc004ddb.1_Missense_Mutation_p.K1946R|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1954	Spectrin 13.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CCGCCAGCGCTTGCTGAGCTG	0.502													8	34					0	0	0.004482	0	0		C	32360278	C	C	32360278	3	2	79	1	0	0	0	0	1	0	0	0	4586	1609	56	3	5500	3	DMD	23	32360278	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2106049	32360278	122910282	329	50239											
DMD	1756	broad.mit.edu	37	chrX	32430014	32430014	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatgctctgttcaagcaacTtttgcctccttacagcctaa	9	13	7	12	0	2	0	1	0	1	0	3	1	3	1	3	1	6	3	3	1	4	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:32430014T>G	uc004dda.1	-	30	4332	c.4088A>C	c.(4087-4089)AAG>ACG	p.K1363T	DMD_uc004dcw.2_Missense_Mutation_p.K19T|DMD_uc004dcx.2_Missense_Mutation_p.K22T|DMD_uc004dcz.2_Missense_Mutation_p.K1240T|DMD_uc004dcy.1_Missense_Mutation_p.K1359T|DMD_uc004ddb.1_Missense_Mutation_p.K1355T|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1363	Spectrin 9.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTCAAGCAACTTTTGCCTCCT	0.393													14	15					0	0	0.00245	0	0		G	32430014	G	G	32430014	3	3	79	1	0	0	0	0	1	0	0	0	4586	1609	56	5	7317	5	DMD	23	32430014	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	69736	32430014	122840546	330	50240											
MAGEB16	139604	broad.mit.edu	37	chrX	35821201	35821201	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcctggagtttgtggccaaAgttcatgggtcttacccaca	8	12	11	10	0	2	0	1	0	1	0	3	1	3	1	3	3	1	2	3	3	2	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:35821201A>G	uc010ngt.1	+	2	1167	c.888A>G	c.(886-888)AAA>AAG	p.K296K		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	296	MAGE.									lung(3)|ovary(2)|breast(1)|skin(1)	7						TTGTGGCCAAAGTTCATGGGT	0.498													5	27					0	0	0.000602	0	0		G	35821201	G	G	35821201	2	3	79	1	0	0	0	0	0	0	0	1	9192	69	3	3		3	MAGEB16	23	35821201	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	3391187	35821201	119449359	331	50241											
CACNA1F	778	broad.mit.edu	37	chrX	49071806	49071806	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggggtcagaggtcacctggTtcttgtccagctcacagttt	7	12	12	10	0	4	1	3	0	1	1	5	1	5	1	2	4	1	3	2	4	0	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:49071806T>G	uc004dnb.2	-	28	3529	c.3467A>C	c.(3466-3468)AAC>ACC	p.N1156T	CACNA1F_uc010nip.2_Missense_Mutation_p.N1145T	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	1156	Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	GGTCACCTGGTTCTTGTCCAG	0.557													18	14					0	0	0.007413	0	0		G	49071806	G	G	49071806	3	3	79	1	0	0	0	0	1	0	0	0	2546	1725	60	5	2550	5	CACNA1F	23	49071806	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	13250605	49071806	106198754	332	50242											
CCNB3	85417	broad.mit.edu	37	chrX	50051704	50051704	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaataagtcattatctttaAaaaagtgctcaaatcatgag	17	13	5	6	0	5	1	4	1	1	0	5	1	5	1	0	0	1	1	0	0	7	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:50051704A>C	uc004dox.3	+	6	833	c.535A>C	c.(535-537)AAA>CAA	p.K179Q	CCNB3_uc004doy.2_Missense_Mutation_p.K179Q|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	179					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					ATTATCTTTAAAAAAGTGCTC	0.428													36	31					0	0	0.003755	0	0		C	50051704	C	C	50051704	3	2	79	1	0	0	0	0	1	0	0	0	2917	15	1	5	549	5	CCNB3	23	50051704	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	979898	50051704	105218856	333	50243											
GPR173	54328	broad.mit.edu	37	chrX	53106155	53106155	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcatgctgttctgcatcAgcgtcacccgctacatggcc	6	11	8	16	2	4	0	3	0	1	0	4	0	4	0	3	1	4	4	3	1	1	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:53106155A>G	uc004dru.2	+	2	610	c.352A>G	c.(352-354)AGC>GGC	p.S118G		NM_018969	NP_061842	Q9NS66	GP173_HUMAN	G protein-coupled receptor 173	118	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						GTTCTGCATCAGCGTCACCCG	0.587													12	83					0	0	0.00245	0	0		G	53106155	G	G	53106155	3	3	79	1	0	0	0	0	1	0	0	0	6686	188	7	3	354	3	GPR173	23	53106155	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	3054451	53106155	102164405	334	50244											
PFKFB1	5207	broad.mit.edu	37	chrX	54987257	54987257	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaaaatattgggtacttacTtcctgatttgcagggcttcc	9	15	8	9	0	0	1	0	1	0	0	2	1	2	1	2	2	3	3	2	2	5	8			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:54987257T>A	uc004dty.1	-	3	388	c.317A>T	c.(316-318)AAG>ATG	p.K106M	PFKFB1_uc010nkd.1_Missense_Mutation_p.K92M|PFKFB1_uc011mol.1_Missense_Mutation_p.K41M	NM_002625	NP_002616	P16118	F261_HUMAN	6-phosphofructo-2-kinase/fructose-2,	106	6-phosphofructo-2-kinase.				energy reserve metabolic process|fructose 2,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|intracellular protein kinase cascade	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(1)	1						GGGTACTTACTTCCTGATTTG	0.443													11	40					0	0	0.008291	0	0		A	54987257	A	A	54987257	3	1	79	1	0	0	0	0	1	0	0	0	11779	1623	56	5	1146	5	PFKFB1	23	54987257	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	1881102	54987257	100283303	335	50245											
KIAA2022	340533	broad.mit.edu	37	chrX	73963789	73963789	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaagcctaggagctggtcTgagagcagctgctctccata	9	8	14	10	0	2	1	0	1	2	1	3	4	2	3	2	3	5	4	2	3	3	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:73963789T>G	uc004eby.2	-	3	1220	c.603A>C	c.(601-603)TCA>TCC	p.S201S		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	201					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GGAGCTGGTCTGAGAGCAGCT	0.458													13	57					0	0	0.013537	0	0		G	73963789	G	G	73963789	2	3	79	1	0	0	0	0	0	0	0	1	8285	1567	55	5		5	KIAA2022	23	73963789	Silent	SNP	T	TCGA-BR-8485-01A-11D-2394-08	18976532	73963789	81306771	336	50246											
CYSLTR1	10800	broad.mit.edu	37	chrX	77528938	77528938	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatagaggttgacatacaaAgcataggtgctgaggcggca	14	7	13	7	1	0	3	0	2	0	1	0	3	0	3	0	4	3	4	0	4	5	4			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:77528938A>G	uc004edb.2	-	3	706	c.306T>C	c.(304-306)GCT>GCC	p.A102A	CYSLTR1_uc010nma.2_Silent_p.A102A|CYSLTR1_uc010nmb.2_Silent_p.A102A	NM_006639	NP_006630	Q9Y271	CLTR1_HUMAN	cysteinyl leukotriene receptor 1	102	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|respiratory gaseous exchange	integral to plasma membrane|membrane fraction	leukotriene receptor activity			ovary(1)	1					Amlexanox(DB01025)|Cinalukast(DB00587)|Montelukast(DB00471)|Nedocromil(DB00716)|Pranlukast(DB01411)|Zafirlukast(DB00549)	TGACATACAAAGCATAGGTGC	0.428													15	22					0	0	0.00245	0	0		G	77528938	G	G	77528938	2	3	79	1	0	0	0	0	0	0	0	1	4204	59	3	3		3	CYSLTR1	23	77528938	Silent	SNP	A	TCGA-BR-8485-01A-11D-2394-08	3565149	77528938	77741622	337	50247											
P2RY10	27334	broad.mit.edu	37	chrX	78216154	78216154	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacctatatcctcatattcaTtcctggtcttctggctaaca	9	15	4	13	0	4	0	2	0	2	0	6	0	6	0	3	2	1	1	3	2	4	7			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:78216154T>A	uc004ede.2	+	4	506	c.137T>A	c.(136-138)ATT>AAT	p.I46N	P2RY10_uc004edf.2_Missense_Mutation_p.I46N	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	46	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						CTCATATTCATTCCTGGTCTT	0.428													6	93					0	0	0.00308	0	0		A	78216154	A	A	78216154	3	1	79	1	0	0	0	0	1	0	0	0	11366	1493	52	5	139	5	P2RY10	23	78216154	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	687216	78216154	77054406	338	50248											
FAM46D	169966	broad.mit.edu	37	chrX	79698243	79698243	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattgaatggttccgtagcaAgttacatacttgcaagccac	12	11	9	9	1	0	1	0	1	0	0	1	2	1	1	2	1	5	5	2	1	6	6			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:79698243A>C	uc004edl.1	+	5	539	c.205A>C	c.(205-207)AGT>CGT	p.S69R	FAM46D_uc004edm.1_Missense_Mutation_p.S69R	NM_152630	NP_689843	Q8NEK8	FA46D_HUMAN	hypothetical protein LOC169966	69										lung(2)	2						TTCCGTAGCAAGTTACATACT	0.378													14	56					0	0	0.003163	0	0		C	79698243	C	C	79698243	3	2	79	1	0	0	0	0	1	0	0	0	5582	72	3	5	207	5	FAM46D	23	79698243	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	1482089	79698243	75572317	339	50249											
CYLC1	1538	broad.mit.edu	37	chrX	83127964	83127964	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gataaggcattctttcagaaAaattttgcaatggccaccca	14	11	7	9	0	2	1	1	0	1	1	2	2	2	1	2	2	1	2	2	2	4	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:83127964A>C	uc004eei.1	+	4	269	c.248A>C	c.(247-249)AAA>ACA	p.K83T	CYLC1_uc004eeh.1_Missense_Mutation_p.K82T	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	83					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						TCTTTCAGAAAAATTTTGCAA	0.358													6	17					0	0	0.001168	0	0		C	83127964	C	C	83127964	3	2	79	1	0	0	0	0	1	0	0	0	4144	14	1	5	262	5	CYLC1	23	83127964	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	3429721	83127964	72142596	340	50250											
ARHGEF6	9459	broad.mit.edu	37	chrX	135750188	135750188	+	Nonstop_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccagtggcacagtgatggTtatggaagaattgaggtctt	11	11	13	6	0	1	3	0	2	1	1	1	4	1	4	1	4	0	2	1	4	3	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:135750188T>G	uc004fab.2	-	22	2793	c.2331A>C	c.(2329-2331)TAA>TAC	p.*777Y	ARHGEF6_uc011mwd.1_Nonstop_Mutation_p.*650Y|ARHGEF6_uc011mwe.1_Nonstop_Mutation_p.*623Y	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	777					apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					ACAGTGATGGTTATGGAAGAA	0.468													20	63					0	0	0.012319	0	0		G	135750188	G	G	135750188	4	3	79	1	0	0	0	0	0	0	0	0	910	1732	60	5	3	5	ARHGEF6	23	135750188	Nonstop_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	52622224	135750188	19520372	341	50251											
MCF2	4168	broad.mit.edu	37	chrX	138714595	138714595	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaaccaaaaccaagtgcaAgttcccagggaaggaagcct	17	5	9	10	0	0	0	0	0	0	0	1	2	1	2	4	2	4	2	4	2	8	2			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:138714595A>C	uc004fau.2	-	2	364	c.70T>G	c.(70-72)TTG>GTG	p.L24V	MCF2_uc004fav.2_Missense_Mutation_p.L24V|MCF2_uc011mwl.1_Missense_Mutation_p.L24V|MCF2_uc010nsh.1_Missense_Mutation_p.L24V|MCF2_uc011mwm.1_Missense_Mutation_p.L24V|MCF2_uc011mwn.1_Missense_Mutation_p.L169V|MCF2_uc004faw.2_Missense_Mutation_p.L84V|MCF2_uc011mwo.1_Missense_Mutation_p.L84V	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	24	CRAL-TRIO.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					ACCAAGTGCAAGTTCCCAGGG	0.373													9	27					0	0	0.008291	0	0		C	138714595	C	C	138714595	3	2	79	1	0	0	0	0	1	0	0	0	9396	69	3	5	2883	5	MCF2	23	138714595	Missense_Mutation	SNP	A	TCGA-BR-8485-01A-11D-2394-08	2964407	138714595	16555965	342	50252											
MAGEC3	139081	broad.mit.edu	37	chrX	140953386	140953386	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtcctctgccccacatacTtcaaggtaaggactctaagg	10	11	8	12	0	3	0	1	0	2	0	4	1	4	1	3	3	2	1	3	3	4	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:140953386T>G	uc011mwp.1	+	2	253	c.253T>G	c.(253-255)TTC>GTC	p.F85V		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	85										skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCCCACATACTTCAAGGTAAG	0.532													25	45					0	0	0.005443	0	0		G	140953386	G	G	140953386	3	3	79	1	0	0	0	0	1	0	0	0	9200	1609	56	5	259	5	MAGEC3	23	140953386	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	2238791	140953386	14317174	343	50253											
MAGEC1	9947	broad.mit.edu	37	chrX	140994814	140994814	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcctgagtgggaggacTccctgtctcctcactacttt	5	14	9	13	0	3	1	1	1	2	0	6	3	5	3	3	2	1	0	3	2	1	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:140994814T>C	uc004fbt.2	+	4	1910	c.1624T>C	c.(1624-1626)TCC>CCC	p.S542P	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	542							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GTGGGAGGACTCCCTGTCTCC	0.557										HNSCC(15;0.026)			59	209					0	0	0.01441	0	0		C	140994814	C	C	140994814	3	2	79	1	0	0	0	0	1	0	0	0	9198	1551	54	3	1630	3	MAGEC1	23	140994814	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	41428	140994814	14275746	344	50254											
PASD1	139135	broad.mit.edu	37	chrX	150773196	150773196	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgattacttcaaccaagTgacgctacaggtaagagggc	13	9	10	9	1	1	3	1	2	0	1	1	3	1	3	1	2	3	2	1	2	6	5			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:150773196T>G	uc004fev.3	+	3	439	c.107T>G	c.(106-108)GTG>GGG	p.V36G		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	36	PAS.					nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TTCAACCAAGTGACGCTACAG	0.303													5	8					0	0	0.000602	0	0		G	150773196	G	G	150773196	3	3	79	1	0	0	0	0	1	0	0	0	11490	1696	59	5	113	5	PASD1	23	150773196	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	9778382	150773196	4497364	345	50255											
ATP2B3	492	broad.mit.edu	37	chrX	152830478	152830478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgaggagctggccgaaggcGaggaagagatcgaccatgcc	12	3	16	10	4	0	1	0	0	0	1	1	8	0	3	3	4	2	1	3	4	2	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:152830478G>A	uc004fht.1	+	19	3385	c.3259G>A	c.(3259-3261)GAG>AAG	p.E1087K	ATP2B3_uc004fhs.1_Missense_Mutation_p.E1087K|ATP2B3_uc010nuf.1_Missense_Mutation_p.E110K|ATP2B3_uc004fhu.1_Missense_Mutation_p.E10K	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	1087	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGCCGAAGGCGAGGAAGAGAT	0.662													5	7					0	0	0.000602	0	0		A	152830478	A	A	152830478	3	1	79	1	0	0	0	0	1	0	0	0	1142	1059	37	1	3333	1	ATP2B3	23	152830478	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	2057282	152830478	2440082	346	50256											
FLNA	2316	broad.mit.edu	37	chrX	153592919	153592919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtggaagtcctggggcGcgtcacggatgtcagccatg	6	8	17	10	3	2	0	2	0	0	0	3	2	3	2	2	5	1	0	2	5	1	0			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:153592919G>A	uc004fkk.2	-	13	2246	c.1997C>T	c.(1996-1998)GCG>GTG	p.A666V	FLNA_uc010nuu.1_Missense_Mutation_p.A666V	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	666					actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding	p.A666A(1)		breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GTCCTGGGGCGCGTCACGGAT	0.627													39	37					0	0	0.007835	0	0		A	153592919	A	A	153592919	3	1	79	1	0	0	0	0	1	0	0	0	5947	1087	38	1	6090	1	FLNA	23	153592919	Missense_Mutation	SNP	G	TCGA-BR-8485-01A-11D-2394-08	762441	153592919	1677641	347	50257											
GAB3	139716	broad.mit.edu	37	chrX	153940729	153940729	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctacctgaatggtggaacTtaaggaactttccagcaatg	13	11	9	8	0	1	1	0	1	1	0	2	3	2	3	2	3	4	1	2	3	6	3			TCGA-BR-8485-01A-11D-2394-08	TCGA-BR-8485-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	402ccb96-9853-435a-8b18-f7331e3ef5d9	aeb401f8-7686-47d9-a690-d7fda664079a	g.chrX:153940729T>G	uc004fmj.1	-	4	889	c.841A>C	c.(841-843)AGT>CGT	p.S281R	GAB3_uc004fmk.1_Missense_Mutation_p.S282R|GAB3_uc010nve.1_Missense_Mutation_p.S282R|GAB3_uc004fml.1_Intron	NM_080612	NP_542179	Q8WWW8	GAB3_HUMAN	Gab3 protein isoform 2	281										ovary(1)	1	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					ATGGTGGAACTTAAGGAACTT	0.512													33	103					0	0	0.003271	0	0		G	153940729	G	G	153940729	3	3	79	1	0	0	0	0	1	0	0	0	6164	1609	56	5	947	5	GAB3	23	153940729	Missense_Mutation	SNP	T	TCGA-BR-8485-01A-11D-2394-08	347810	153940729	1329831	348	50258											
EYA3	2140	broad.mit.edu	37	chr1	28339654	28339654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgctgcaggtgcaggcGccatgacactaggcttctcc	6	10	12	13	1	2	1	0	1	2	0	3	1	2	1	2	3	3	4	2	3	1	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr1:28339654G>A	uc001bpi.1	-	9	902	c.737C>T	c.(736-738)GCG>GTG	p.A246V	EYA3_uc010ofs.1_Missense_Mutation_p.A193V|EYA3_uc010oft.1_Missense_Mutation_p.A200V|EYA3_uc001bpj.2_Missense_Mutation_p.A200V|EYA3_uc001bpk.1_RNA|EYA3_uc010ofu.1_RNA	NM_001990	NP_001981	Q99504	EYA3_HUMAN	eyes absent 3	246					anatomical structure morphogenesis|double-strand break repair|histone dephosphorylation|multicellular organismal development|positive regulation of DNA repair|regulation of transcription, DNA-dependent|response to ionizing radiation|transcription, DNA-dependent|visual perception	cytoplasm	metal ion binding|protein binding|protein tyrosine phosphatase activity			ovary(2)|skin(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000414)|Lung NSC(340;0.000432)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0484)|OV - Ovarian serous cystadenocarcinoma(117;1.25e-24)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;2.8e-06)|STAD - Stomach adenocarcinoma(196;0.00364)|KIRC - Kidney renal clear cell carcinoma(1967;0.00378)|BRCA - Breast invasive adenocarcinoma(304;0.00718)|READ - Rectum adenocarcinoma(331;0.0642)		AGGTGCAGGCGCCATGACACT	0.512													28	68					0	0	0.116897	0	0		A	28339654	A	A	28339654	3	1	80	1	0	0	0	0	1	0	0	0	5338	1087	38	1	1024	1	EYA3	1	28339654	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08		28339654	220910967	1	50259											
RCSD1	92241	broad.mit.edu	37	chr1	167666869	167666869	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatgacagccaagaaacAaagaagctggaggagggagc	18	2	14	7	0	0	3	0	1	0	2	0	7	0	6	1	3	5	1	1	3	5	0			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr1:167666869A>C	uc001gem.2	+	6	1195	c.1008A>C	c.(1006-1008)ACA>ACC	p.T336T	RCSD1_uc010pli.1_Silent_p.T306T	NM_052862	NP_443094	Q6JBY9	CPZIP_HUMAN	RCSD domain containing 1	336										ovary(2)|central_nervous_system(2)|skin(1)	5	all_hematologic(923;0.215)					GCCAAGAAACAAAGAAGCTGG	0.557													5	17					0	0	0.184627	0	0		C	167666869	C	C	167666869	2	2	80	1	0	0	0	0	0	0	0	1	13210	117	5	5		5	RCSD1	1	167666869	Silent	SNP	A	TCGA-BR-8486-01A-31D-2394-08	139327215	167666869	81583752	2	50260											
HMCN1	83872	broad.mit.edu	37	chr1	186107009	186107009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgcggcaaccaaaccaggaCcaggacttgcaataatccat	15	5	8	13	2	0	0	0	0	0	0	1	2	1	2	4	3	3	2	4	3	4	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr1:186107009C>T	uc001grq.1	+	89	14058	c.13829C>T	c.(13828-13830)ACC>ATC	p.T4610I	HMCN1_uc001grs.1_Missense_Mutation_p.T179I	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4610	TSP type-1 2.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CAAACCAGGACCAGGACTTGC	0.502													25	78					0	0	0.0918	0	0		T	186107009	T	T	186107009	3	4	80	1	0	0	0	0	1	0	0	0	7236	507	18	4	14183	4	HMCN1	1	186107009	Missense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08	18440140	186107009	63143612	3	50261											
STRN	6801	broad.mit.edu	37	chr2	37082457	37082457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctaccatatggctcgggtCactgctcactagatccacag	9	10	9	13	1	2	1	2	0	0	1	4	1	3	1	2	2	3	3	2	2	3	3			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr2:37082457C>T	uc002rpn.2	-	15	1885	c.1876G>A	c.(1876-1878)GAC>AAC	p.D626N	STRN_uc010ezx.2_Missense_Mutation_p.D589N	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	626					dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				TGGCTCGGGTCACTGCTCACT	0.393													11	24					0	0	0.09319	0	0		T	37082457	T	T	37082457	3	4	80	1	0	0	0	0	1	0	0	0	15354	826	29	4	482	4	STRN	2	37082457	Missense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08		37082457	206116916	4	50262											
SNRNP200	23020	broad.mit.edu	37	chr2	96950142	96950142	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcatccaccacgaagaggTtgatgttctgcacgttcttg	8	12	9	12	2	3	2	1	1	2	1	4	3	4	2	3	1	1	4	3	1	1	4			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr2:96950142T>C	uc002svu.2	-	31	4432	c.4346A>G	c.(4345-4347)AAC>AGC	p.N1449S	SNRNP200_uc002svt.2_Missense_Mutation_p.N59S|SNRNP200_uc010yuj.1_RNA|SNRNP200_uc002svv.1_5'UTR	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1449	Helicase ATP-binding 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						CACGAAGAGGTTGATGTTCTG	0.557													21	55					0	0	0.076483	0	0		C	96950142	C	C	96950142	3	2	80	1	0	0	0	0	1	0	0	0	14877	1725	60	3	2124	3	SNRNP200	2	96950142	Missense_Mutation	SNP	T	TCGA-BR-8486-01A-31D-2394-08	59867685	96950142	146249231	5	50263											
LRP1B	53353	broad.mit.edu	37	chr2	141128795	141128795	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccattacatttcaaagAtgctgaaatacatccatcac	14	13	3	11	0	3	2	2	1	1	1	5	2	4	2	2	0	3	1	2	0	4	4			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr2:141128795A>G	uc002tvj.1	-	70	11800	c.10828T>C	c.(10828-10830)TCT>CCT	p.S3610P		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3610	Extracellular (Potential).|LDL-receptor class A 28.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CATTTCAAAGATGCTGAAATA	0.294										TSP Lung(27;0.18)			4	4					0	0	0.184627	0	0		G	141128795	G	G	141128795	3	3	80	1	0	0	0	0	1	0	0	0	8973	333	12	3	3059	3	LRP1B	2	141128795	Missense_Mutation	SNP	A	TCGA-BR-8486-01A-31D-2394-08	44178653	141128795	102070578	6	50264											
SCN1A	6323	broad.mit.edu	37	chr2	166900312	166900312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgtgcatcttcccattcGctggaaacactgccagcatc	8	11	8	14	1	1	0	0	0	1	0	4	1	2	1	2	1	5	4	2	1	1	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr2:166900312G>A	uc010zcz.1	-	11	1928	c.1910C>T	c.(1909-1911)GCG>GTG	p.A637V	SCN1A_uc002udo.3_Missense_Mutation_p.A506V|SCN1A_uc010fpk.2_Missense_Mutation_p.A506V	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	637						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CTTCCCATTCGCTGGAAACAC	0.542													22	52					0	0	0.062417	0	0		A	166900312	A	A	166900312	3	1	80	1	0	0	0	0	1	0	0	0	13939	1087	38	1	4183	1	SCN1A	2	166900312	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	25771517	166900312	76299061	7	50265											
PPIG	9360	broad.mit.edu	37	chr2	170493840	170493840	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatcaaagtcccttctcaaAaataaaacaaagcagtcagg	19	7	6	9	0	3	1	3	0	1	1	5	1	4	1	1	1	2	1	1	1	6	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr2:170493840A>G	uc002uez.2	+	14	2292	c.2072A>G	c.(2071-2073)AAA>AGA	p.K691R	PPIG_uc010fpx.2_Missense_Mutation_p.K676R|PPIG_uc010fpy.2_Missense_Mutation_p.K684R|PPIG_uc002ufb.2_Missense_Mutation_p.K691R|PPIG_uc002ufd.2_Missense_Mutation_p.K688R	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G	691					protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	CCCTTCTCAAAAATAAAACAA	0.353													4	27					0	0	0.150653	0	0		G	170493840	G	G	170493840	3	3	80	1	0	0	0	0	1	0	0	0	12346	14	1	3	2118	3	PPIG	2	170493840	Missense_Mutation	SNP	A	TCGA-BR-8486-01A-31D-2394-08	3593528	170493840	72705533	8	50266											
STAT1	6772	broad.mit.edu	37	chr2	191851578	191851578	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaggaaactgatgtccctAccaggtgccgaaattcagcc	12	7	11	11	1	1	2	1	1	0	1	2	5	2	3	4	2	4	0	4	2	3	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr2:191851578A>G	uc002usj.2	-	14	1609	c.1221_splice	c.e14+1	p.L407_splice	STAT1_uc010fse.1_Splice_Site_p.L407_splice|STAT1_uc002usk.2_Splice_Site_p.L407_splice|STAT1_uc002usl.2_Splice_Site_p.L409_splice|STAT1_uc010fsf.1_Splice_Site_p.L219_splice	NM_007315	NP_009330	P42224	STAT1_HUMAN	signal transducer and activator of transcription						activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)	TGATGTCCCTACCAGGTGCCG	0.483													15	212					0	0	0.146539	0	0		G	191851578	G	G	191851578	5	3	80	1	0	0	0	0	0	0	1	0	15289	405	14	3	1081	3	STAT1	2	191851578	Splice_Site	SNP	A	TCGA-BR-8486-01A-31D-2394-08	21357738	191851578	51347795	9	50267											
DNPEP	23549	broad.mit.edu	37	chr2	220251022	220251022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaccttgacaatgacgcGtccagccagagtcaggtcac	10	7	9	15	2	2	3	2	2	0	1	4	3	4	3	4	1	1	0	4	1	1	1			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr2:220251022G>A	uc010zlg.1	-	5	551	c.469C>T	c.(469-471)CGC>TGC	p.R157C	DNPEP_uc010zlf.1_5'Flank|DNPEP_uc002vle.2_Missense_Mutation_p.R149C|DNPEP_uc002vlf.1_Missense_Mutation_p.R135C|DNPEP_uc002vlh.2_Missense_Mutation_p.R96C|DNPEP_uc002vli.1_Missense_Mutation_p.R96C|DNPEP_uc002vlj.2_Missense_Mutation_p.R139C|uc002vlk.1_5'Flank	NM_012100	NP_036232	Q9ULA0	DNPEP_HUMAN	aspartyl aminopeptidase	139					peptide metabolic process|proteolysis	cytoplasm	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0		Renal(207;0.0474)		Epithelial(149;1.09e-06)|all cancers(144;0.000179)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)	L-Glutamic Acid(DB00142)	ACAATGACGCGTCCAGCCAGA	0.627													26	105					0	0	0.108266	0	0		A	220251022	A	A	220251022	3	1	80	1	0	0	0	0	1	0	0	0	4685	1145	40	1	1056	1	DNPEP	2	220251022	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	28399444	220251022	22948351	10	50268											
WDR6	11180	broad.mit.edu	37	chr3	49051915	49051915	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccactcctttacacacgaGgcacccaaccagaggcggtg	10	6	10	15	2	0	1	0	0	0	1	2	2	2	1	4	3	2	1	4	3	2	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr3:49051915G>A	uc003cvj.2	+	4	2994	c.2856G>A	c.(2854-2856)GAG>GAA	p.E952E	WDR6_uc011bby.1_Silent_p.E400E|WDR6_uc010hkn.2_Silent_p.E896E|WDR6_uc011bbz.1_Silent_p.E871E	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	922	WD 14.				cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		TTACACACGAGGCACCCAACC	0.552											OREG0015565	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	39					0	0	0.092188	0	0		A	49051915	A	A	49051915	2	1	80	1	0	0	0	0	0	0	0	1	17336	991	35	4		4	WDR6	3	49051915	Silent	SNP	G	TCGA-BR-8486-01A-31D-2394-08		49051915	148970515	11	50269											
STAG1	10274	broad.mit.edu	37	chr3	136096591	136096591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttcctcaataccaacaaatCctcctgtaagacacattcaa	15	11	2	13	0	2	1	2	0	0	1	5	1	5	1	4	0	2	1	4	0	6	4			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr3:136096591C>T	uc003era.1	-	23	2573	c.2281G>A	c.(2281-2283)GAT>AAT	p.D761N	STAG1_uc003erb.1_Missense_Mutation_p.D761N|STAG1_uc003erc.1_Missense_Mutation_p.D535N	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	761					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						ACCAACAAATCCTCCTGTAAG	0.368													19	11					0	0	0.204396	0	0		T	136096591	T	T	136096591	3	4	80	1	0	0	0	0	1	0	0	0	15267	855	30	4	1543	4	STAG1	3	136096591	Missense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08	87044676	136096591	61925839	12	50270											
ADD1	118	broad.mit.edu	37	chr4	2896323	2896323	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcaggttaagatcaatctAcaaggagatatagtagatcg	15	12	9	5	1	3	3	2	0	1	3	4	4	3	3	0	2	1	2	0	2	7	6			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr4:2896323A>G	uc003gfr.2	+	6	794	c.606A>G	c.(604-606)CTA>CTG	p.L202L	ADD1_uc003gfn.2_Intron|ADD1_uc010ico.1_Silent_p.L202L|ADD1_uc003gfo.2_Silent_p.L202L|ADD1_uc003gfp.2_Silent_p.L202L|ADD1_uc003gfq.2_Silent_p.L202L|ADD1_uc003gfs.2_Silent_p.L202L|ADD1_uc003gft.3_Silent_p.L202L|ADD1_uc003gfu.2_5'UTR	NM_001119	NP_001110	P35611	ADDA_HUMAN	adducin 1 (alpha) isoform a	202					actin filament bundle assembly|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|positive regulation of protein binding	cytosol|F-actin capping protein complex|nucleus|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding|transcription factor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		AGATCAATCTACAAGGAGATA	0.323													5	34					0	0	0.021553	0	0		G	2896323	G	G	2896323	2	3	80	1	0	0	0	0	0	0	0	1	304	378	14	3		3	ADD1	4	2896323	Silent	SNP	A	TCGA-BR-8486-01A-31D-2394-08		2896323	188257953	13	50271											
IL13	3596	broad.mit.edu	37	chr5	131995159	131995159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagcatcaacctgacagctgGcatggtaaggacctttgggt	10	9	13	9	0	1	1	1	1	0	0	1	3	1	2	2	4	3	4	2	4	2	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr5:131995159G>A	uc003kxj.1	+	2	238	c.224G>A	c.(223-225)GGC>GAC	p.G75D		NM_002188	NP_002179	P35225	IL13_HUMAN	interleukin 13 precursor	75					cellular component movement|immune response|inflammatory response|signal transduction	extracellular space|soluble fraction	cytokine activity			ovary(1)|skin(1)	2		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CTGACAGCTGGCATGGTAAGG	0.592													3	12					0	0	0.150653	0	0		A	131995159	A	A	131995159	3	1	80	1	0	0	0	0	1	0	0	0	7644	1203	42	2	230	2	IL13	5	131995159	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08		131995159	48920101	14	50272											
PKHD1	5314	broad.mit.edu	37	chr6	51900507	51900507	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aactagagcctcggatggtgGcccagagccctcctgtaaca	10	7	11	13	1	0	2	0	0	0	2	2	3	1	3	4	3	4	1	4	3	3	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr6:51900507G>T	uc003pah.1	-	28	3386	c.3110C>A	c.(3109-3111)GCC>GAC	p.A1037D	PKHD1_uc003pai.2_Missense_Mutation_p.A1037D	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1037	IPT/TIG 5.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TCGGATGGTGGCCCAGAGCCC	0.408													7	30					2.74318e-10	2.85591e-10	0.058154	1	0		T	51900507	T	T	51900507	3	4	80	1	0	0	0	0	1	0	0	0	11990	1203	42	5	9313	5	PKHD1	6	51900507	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08		51900507	119214560	15	50273											
CARD11	84433	broad.mit.edu	37	chr7	2956965	2956965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagcttgctcgcgagagacGggggctgacccgggggtcgc	6	5	19	11	5	0	2	0	1	0	1	2	5	0	2	1	4	2	3	1	4	1	1	rs142828146		TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr7:2956965G>A	uc003smv.2	-	20	3066	c.2662C>T	c.(2662-2664)CGT>TGT	p.R888C		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	888					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity	p.R881C(1)		haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		CGCGAGAGACGGGGGCTGACC	0.557			Mis		DLBCL								9	17					0	0	0.069234	0	0		A	2956965	A	A	2956965	3	1	80	1	0	0	0	0	1	0	0	0	2648	1116	39	1	826	1	CARD11	7	2956965	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08		2956965	156181698	16	50274											
HOXA6	3203	broad.mit.edu	37	chr7	27185319	27185319	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtcctccccgctgggctgCgtggaattgatgagcttgtt	5	12	14	10	2	0	2	0	2	0	0	2	4	2	3	3	2	2	4	3	2	1	3			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr7:27185319C>T	uc003syo.1	-	2	660	c.660G>A	c.(658-660)ACG>ACA	p.T220T	HOXA5_uc003syn.1_5'Flank|uc003syp.1_5'Flank	NM_024014	NP_076919	P31267	HXA6_HUMAN	homeobox A6	220						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CGCTGGGCTGCGTGGAATTGA	0.612													13	131					0	0	0.105934	0	0		T	27185319	T	T	27185319	2	4	80	1	0	0	0	0	0	0	0	1	7312	755	27	1		1	HOXA6	7	27185319	Silent	SNP	C	TCGA-BR-8486-01A-31D-2394-08	24228354	27185319	131953344	17	50275											
GTF2IRD1	9569	broad.mit.edu	37	chr7	73922530	73922530	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtgtctgccttagactcCatggtgagtgtccccaccca	6	11	9	15	1	1	2	0	1	1	1	4	2	3	2	5	1	1	0	5	1	1	1			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr7:73922530C>A	uc003uaq.2	+	2	513	c.120C>A	c.(118-120)TCC>TCA	p.S40S	GTF2IRD1_uc010lbq.2_Silent_p.S40S|GTF2IRD1_uc003uap.2_Silent_p.S40S|GTF2IRD1_uc003uar.1_Silent_p.S40S	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	40						nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CCTTAGACTCCATGGTGAGTG	0.612													30	96					1.06801e-11	1.14322e-11	0.144211	1	0		A	73922530	A	A	73922530	2	1	80	1	0	0	0	0	0	0	0	1	6884	581	21	5		5	GTF2IRD1	7	73922530	Silent	SNP	C	TCGA-BR-8486-01A-31D-2394-08	46737211	73922530	85216133	18	50276											
GTF2IRD1	9569	broad.mit.edu	37	chr7	73933930	73933930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacggcgctccccaaccacgCcatccgagagctcaagcagg	10	3	10	18	4	1	1	1	0	0	1	3	2	3	1	5	2	3	3	5	2	2	0			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr7:73933930C>T	uc003uaq.2	+	6	1190	c.797C>T	c.(796-798)GCC>GTC	p.A266V	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.A298V|GTF2IRD1_uc003uap.2_Missense_Mutation_p.A266V|GTF2IRD1_uc003uar.1_Missense_Mutation_p.A266V	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	266						nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CCCAACCACGCCATCCGAGAG	0.692													29	88					0	0	0.116897	0	0		T	73933930	T	T	73933930	3	4	80	1	0	0	0	0	1	0	0	0	6884	739	26	2	815	2	GTF2IRD1	7	73933930	Missense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08	11400	73933930	85204733	19	50277											
PCLO	27445	broad.mit.edu	37	chr7	82582618	82582618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggggaaggcaatttataatCtgctgaagtcactaaattta	15	12	9	5	0	2	1	1	1	1	0	2	2	2	2	0	3	1	2	0	3	8	6			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr7:82582618C>T	uc003uhx.2	-	5	7940	c.7651G>A	c.(7651-7653)GAT>AAT	p.D2551N	PCLO_uc003uhv.2_Missense_Mutation_p.D2551N|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2482					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AATTTATAATCTGCTGAAGTC	0.398													12	49					0	0	0.080935	0	0		T	82582618	T	T	82582618	3	4	80	1	0	0	0	0	1	0	0	0	11602	913	32	4	7878	4	PCLO	7	82582618	Missense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08	8648688	82582618	76556045	20	50278											
AKAP9	10142	broad.mit.edu	37	chr7	91709233	91709233	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taaatcaactaagagaagatGagttggggtcagatatatca	17	10	10	4	0	3	4	3	1	0	3	3	5	3	4	0	2	1	1	0	2	7	5			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr7:91709233G>C	uc003ulg.2	+	31	8011	c.7786G>C	c.(7786-7788)GAG>CAG	p.E2596Q	AKAP9_uc003ulf.2_Missense_Mutation_p.E2588Q|AKAP9_uc003uli.2_Missense_Mutation_p.E2219Q|AKAP9_uc003ulj.2_Missense_Mutation_p.E366Q	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2608	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AAGAGAAGATGAGTTGGGGTC	0.318			T	BRAF	papillary thyroid								12	23					0	0	0.080935	0	0		C	91709233	C	C	91709233	3	2	80	1	0	0	0	0	1	0	0	0	459	1291	45	5	7908	5	AKAP9	7	91709233	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	9126615	91709233	67429430	21	50279											
ZNF3	7551	broad.mit.edu	37	chr7	99672845	99672845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaacgcttccactccttccGgatgaagtacacagctacat	12	9	6	14	2	0	1	0	1	0	0	3	2	3	2	3	1	4	3	3	1	4	4			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr7:99672845G>A	uc003usq.2	-	5	491	c.184C>T	c.(184-186)CGG>TGG	p.R62W	ZNF3_uc003usp.2_Missense_Mutation_p.R62W|ZNF3_uc003usr.2_Missense_Mutation_p.R62W|ZNF3_uc010lgj.2_Missense_Mutation_p.R26W|ZNF3_uc003uss.2_Missense_Mutation_p.R69W|ZNF3_uc003ust.3_Missense_Mutation_p.R62W	NM_032924	NP_116313	P17036	ZNF3_HUMAN	zinc finger protein 3 isoform 2	62	KRAB.				cell differentiation|leukocyte activation|multicellular organismal development	nucleus	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)	Ovarian(593;2.06e-05)|Myeloproliferative disorder(862;0.0122)|Breast(660;0.029)	STAD - Stomach adenocarcinoma(171;0.129)			CACTCCTTCCGGATGAAGTAC	0.488													35	95					0	0	0.080422	0	0		A	99672845	A	A	99672845	3	1	80	1	0	0	0	0	1	0	0	0	17854	1115	39	1	1293	1	ZNF3	7	99672845	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	7963612	99672845	59465818	22	50280											
SND1	27044	broad.mit.edu	37	chr7	127326707	127326707	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgtccgaggtcagcctcGtggtgggcctcctcctgagc	4	10	13	14	2	1	1	1	1	0	0	5	2	4	1	5	3	2	0	5	3	0	1			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr7:127326707G>T	uc003vmi.2	+	2	345	c.119G>T	c.(118-120)CGT>CTT	p.R40L		NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	40	TNase-like 1.				gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						GGTCAGCCTCGTGGTGGGCCT	0.567													25	79					3.01185e-09	3.09325e-09	0.0918	1	0		T	127326707	T	T	127326707	3	4	80	1	0	0	0	0	1	0	0	0	14869	1145	40	5	125	5	SND1	7	127326707	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	27653862	127326707	31811956	23	50281											
OR2A12	346525	broad.mit.edu	37	chr7	143792959	143792959	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggggcttttctttggcagCgccattgtcatgtacatggc	5	14	13	9	1	2	0	1	0	1	0	2	0	2	0	1	4	2	3	1	4	1	5			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr7:143792959C>T	uc011kty.1	+	1	759	c.759C>T	c.(757-759)AGC>AGT	p.S253S		NM_001004135	NP_001004135	Q8NGT7	O2A12_HUMAN	olfactory receptor, family 2, subfamily A,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	Melanoma(164;0.0783)					TCTTTGGCAGCGCCATTGTCA	0.562													18	203					0	0	0.175082	0	0		T	143792959	T	T	143792959	2	4	80	1	0	0	0	0	0	0	0	1	10994	767	27	1		1	OR2A12	7	143792959	Silent	SNP	C	TCGA-BR-8486-01A-31D-2394-08	16466252	143792959	15345704	24	50282											
ORM1	5004	broad.mit.edu	37	chr9	117087068	117087068	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggctccttttctcttccAgtgggaggccaagagcattt	8	12	11	10	0	1	2	0	0	1	2	4	3	3	3	3	3	1	2	3	3	1	4	rs112963597		TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr9:117087068A>T	uc004bik.3	+	4	440	c.329_splice	c.e4-2	p.V110_splice	ORM1_uc011lxo.1_Splice_Site_p.V110_splice	NM_000607	NP_000598	P02763	A1AG1_HUMAN	orosomucoid 1 precursor						acute-phase response|regulation of immune system process|transport	extracellular space	protein binding				0		Myeloproliferative disorder(63;0.163)			Acenocoumarol(DB01418)|Alfentanil(DB00802)|Aprindine(DB01429)|Disopyramide(DB00280)|Penbutolol(DB01359)|Phenprocoumon(DB00946)|Quinidine(DB00908)|Tamsulosin(DB00706)	TTTCTCTTCCAGTGGGAGGCC	0.537													14	27					0	0	0.160694	0	0		T	117087068	T	T	117087068	5	4	80	1	0	0	0	0	0	0	1	0	11286	202	7	5	341	5	ORM1	9	117087068	Splice_Site	SNP	A	TCGA-BR-8486-01A-31D-2394-08		117087068	24126363	25	50283											
SARDH	1757	broad.mit.edu	37	chr9	136531865	136531865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggggactcaccggcccacCgctggggtcatggatgtaac	9	6	14	12	2	2	0	2	0	0	0	2	2	2	2	3	6	1	2	3	6	2	1			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr9:136531865C>T	uc004cep.3	-	20	2757	c.2623G>A	c.(2623-2625)GGT>AGT	p.G875S	SARDH_uc004ceo.2_Missense_Mutation_p.G875S|SARDH_uc011mdn.1_Missense_Mutation_p.G875S|SARDH_uc011mdo.1_Missense_Mutation_p.G707S|SARDH_uc004cen.2_Missense_Mutation_p.G325S	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	875					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		ACCGGCCCACCGCTGGGGTCA	0.632													4	10					0	0	0.150653	0	0		T	136531865	T	T	136531865	3	4	80	1	0	0	0	0	1	0	0	0	13866	652	23	1	141	1	SARDH	9	136531865	Missense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08	19444797	136531865	4681566	26	50284											
PRKCQ	5588	broad.mit.edu	37	chr10	6525445	6525445	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattttgtgcaagataaaaTcctcaatttttagtttaatc	14	17	4	6	0	1	1	1	0	0	1	3	1	2	1	1	0	1	2	1	0	6	8			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr10:6525445T>C	uc001ijj.1	-	11	1211	c.1136A>G	c.(1135-1137)GAT>GGT	p.D379G	PRKCQ_uc009xim.1_Missense_Mutation_p.D379G|PRKCQ_uc001iji.1_Missense_Mutation_p.D412G|PRKCQ_uc009xin.1_Missense_Mutation_p.D343G|PRKCQ_uc010qax.1_Missense_Mutation_p.D254G	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	379					axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						CAAGATAAAATCCTCAATTTT	0.433													33	36					0	0	0.183431	0	0		C	6525445	C	C	6525445	3	2	80	1	0	0	0	0	1	0	0	0	12537	1435	50	3	1016	3	PRKCQ	10	6525445	Missense_Mutation	SNP	T	TCGA-BR-8486-01A-31D-2394-08		6525445	129009302	27	50285											
ST8SIA6	338596	broad.mit.edu	37	chr10	17365124	17365124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttactgccaacatctttaCtaacatctcctgtggttggg	8	16	7	10	0	2	0	0	0	2	0	3	0	2	0	2	2	5	1	2	2	4	6			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr10:17365124C>T	uc001ipd.2	-	7	668	c.668G>A	c.(667-669)AGT>AAT	p.S223N	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	223	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						AACATCTTTACTAACATCTCC	0.313													17	9					0	0	0.175082	0	0		T	17365124	T	T	17365124	3	4	80	1	0	0	0	0	1	0	0	0	15261	565	20	4	536	4	ST8SIA6	10	17365124	Missense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08	10839679	17365124	118169623	28	50286											
KCNJ11	3767	broad.mit.edu	37	chr11	17408516	17408516	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggcttggccttggccaTgggcacgctgcgcttgcgca	3	10	15	13	3	0	0	0	0	0	0	0	0	0	0	2	4	2	5	2	4	0	4			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr11:17408516T>C	uc001mna.2	-	1	1691	c.1123A>G	c.(1123-1125)ATG>GTG	p.M375V	KCNJ11_uc001mnb.3_Missense_Mutation_p.M288V	NM_000525	NP_000516	B4DWI4	B4DWI4_HUMAN	potassium inwardly-rectifying channel J11	375						integral to membrane	ATP-activated inward rectifier potassium channel activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0276)|Colorectal(2;0.0633)		GCCTTGGCCATGGGCACGCTG	0.652											OREG0020810	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	64					0	0	0.047766	0	0		C	17408516	C	C	17408516	3	2	80	1	0	0	0	0	1	0	0	0	8061	1464	51	3	53	3	KCNJ11	11	17408516	Missense_Mutation	SNP	T	TCGA-BR-8486-01A-31D-2394-08		17408516	117598000	29	50287											
NOP2	4839	broad.mit.edu	37	chr12	6675951	6675951	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccacacttacctctttcgAgcacgactagacagcctctt	10	10	5	16	2	2	1	0	0	2	1	3	3	2	1	3	0	3	1	3	0	2	4			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr12:6675951A>G	uc001qpk.1	-	2	185	c.141T>C	c.(139-141)GCT>GCC	p.A47A	NOP2_uc001qph.1_Silent_p.A47A|NOP2_uc001qpi.1_Silent_p.A47A|NOP2_uc001qpj.1_Intron|NOP2_uc001qpl.1_Silent_p.A47A|NOP2_uc001qpm.1_Silent_p.A47A			P46087	NOP2_HUMAN	Homo sapiens cDNA FLJ31646 fis, clone NT2RI2003921, highly similar to PROLIFERATING-CELL NUCLEOLAR ANTIGEN P120.	47					positive regulation of cell proliferation|rRNA processing	nucleolus	protein binding|RNA binding|S-adenosylmethionine-dependent methyltransferase activity			ovary(2)	2						ACCTCTTTCGAGCACGACTAG	0.393													4	15					0	0	0.150653	0	0		G	6675951	G	G	6675951	2	3	80	1	0	0	0	0	0	0	0	1	10557	291	11	3		3	NOP2	12	6675951	Silent	SNP	A	TCGA-BR-8486-01A-31D-2394-08		6675951	127175944	30	50288											
PRKD1	5587	broad.mit.edu	37	chr14	30066697	30066697	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgaatggaagatattacCttcatgagatatttccttcc	11	17	6	7	0	1	3	1	2	0	2	3	5	3	4	3	1	1	0	3	1	5	8			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr14:30066697C>A	uc001wqh.2	-	16	2615	c.2434G>T	c.(2434-2436)GCC>TCC	p.A812S		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	812	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		AAGATATTACCTTCATGAGAT	0.279													12	39					1.61879e-10	1.70872e-10	0.09319	1	0		A	30066697	A	A	30066697	3	1	80	1	0	0	0	0	1	0	0	0	12540	695	24	5	316	5	PRKD1	14	30066697	Missense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08		30066697	77282843	31	50289											
PAX9	5083	broad.mit.edu	37	chr14	37132197	37132197	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgcatcgtggaactggccCaactgggcatccgaccgtgt	7	9	12	13	4	0	0	0	0	0	0	3	2	1	1	3	3	2	2	3	3	2	1			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr14:37132197C>T	uc001wty.3	+	3	817	c.100C>T	c.(100-102)CAA>TAA	p.Q34*		NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	34	Paired.				multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		GGAACTGGCCCAACTGGGCAT	0.642													18	69					0	0	0.189662	0	0		T	37132197	T	T	37132197	4	4	80	1	0	0	0	0	0	1	0	0	11505	595	21	4	106	4	PAX9	14	37132197	Nonsense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08	7065500	37132197	70217343	32	50290											
KCNK13	56659	broad.mit.edu	37	chr14	90651085	90651085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaggcagcgtccggaaccGctgcaacatctccatagaga	11	5	11	14	3	1	1	0	0	1	1	3	3	2	2	4	2	4	3	4	2	3	1			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr14:90651085G>A	uc001xye.1	+	2	1407	c.965G>A	c.(964-966)CGC>CAC	p.R322H		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	322	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				GTCCGGAACCGCTGCAACATC	0.612													37	100					0	0	0.214465	0	0		A	90651085	A	A	90651085	3	1	80	1	0	0	0	0	1	0	0	0	8077	1087	38	1	971	1	KCNK13	14	90651085	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	53518888	90651085	16698455	33	50291											
TDRD9	122402	broad.mit.edu	37	chr14	104481153	104481153	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcatggaccaagagtataTatataagcagcgattcatcc	14	11	8	8	1	2	1	2	0	0	1	3	3	3	2	2	1	2	2	2	1	6	6	rs148349259	byFrequency	TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr14:104481153T>C	uc001yom.3	+	21	2228	c.2198T>C	c.(2197-2199)ATA>ACA	p.I733T	TDRD9_uc001yon.3_Missense_Mutation_p.I471T	NM_153046	NP_694591	Q8NDG6	TDRD9_HUMAN	tudor domain containing 9	733					cell differentiation|DNA methylation involved in gamete generation|fertilization|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	nucleus|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0768)				CAAGAGTATATATATAAGCAG	0.393													4	53					0	0	0.184627	0	0		C	104481153	C	C	104481153	3	2	80	1	0	0	0	0	1	0	0	0	15761	1406	49	3	2280	3	TDRD9	14	104481153	Missense_Mutation	SNP	T	TCGA-BR-8486-01A-31D-2394-08	13830068	104481153	2868387	34	50292											
MYEF2	50804	broad.mit.edu	37	chr15	48441243	48441243	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttaccacactgactgaatTtctcttttagtttctgccaa	10	16	4	11	0	2	2	0	2	2	0	3	2	2	2	2	0	2	1	2	0	4	5			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr15:48441243T>A	uc001zwi.3	-	16	1749	c.1625A>T	c.(1624-1626)AAA>ATA	p.K542I	MYEF2_uc001zwg.3_Missense_Mutation_p.K80I|MYEF2_uc001zwh.3_Missense_Mutation_p.K130I|MYEF2_uc001zwj.3_Missense_Mutation_p.K518I	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	542	RRM 3.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		CTGACTGAATTTCTCTTTTAG	0.299													20	52					0	0	0.062417	0	0		A	48441243	A	A	48441243	3	1	80	1	0	0	0	0	1	0	0	0	10042	1841	64	5	185	5	MYEF2	15	48441243	Missense_Mutation	SNP	T	TCGA-BR-8486-01A-31D-2394-08		48441243	54090149	35	50293											
THSD4	79875	broad.mit.edu	37	chr15	72040794	72040794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgtgggacagaggacccGtgatgtgaagtgtgtgagca	9	7	18	7	3	0	4	0	3	0	1	0	6	0	6	1	3	1	1	1	3	1	0			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr15:72040794G>A	uc002atb.1	+	13	2355	c.2276G>A	c.(2275-2277)CGT>CAT	p.R759H	THSD4_uc002ate.2_Missense_Mutation_p.R399H	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	759	TSP type-1 3.					proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						CAGAGGACCCGTGATGTGAAG	0.557													17	42					0	0	0.160694	0	0		A	72040794	A	A	72040794	3	1	80	1	0	0	0	0	1	0	0	0	15903	1145	40	1	2326	1	THSD4	15	72040794	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	23599551	72040794	30490598	36	50294											
SCAMP5	192683	broad.mit.edu	37	chr15	75308977	75308977	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctggtgggctgtctcgcGtggctgatcggaggcggggg	4	8	20	9	4	1	1	0	1	1	0	3	2	1	2	1	7	1	2	1	7	1	0			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr15:75308977G>A	uc002azk.1	+	4	342	c.180G>A	c.(178-180)GCG>GCA	p.A60A	SCAMP5_uc002azl.1_Silent_p.A60A|SCAMP5_uc002azm.1_Silent_p.A60A|SCAMP5_uc002azn.1_Silent_p.A60A|SCAMP5_uc010uly.1_Intron	NM_138967	NP_620417	Q8TAC9	SCAM5_HUMAN	secretory carrier membrane protein 5	60	Helical; (Potential).				exocytosis|negative regulation of endocytosis|positive regulation of calcium ion-dependent exocytosis|positive regulation of cytokine secretion|protein transport|response to endoplasmic reticulum stress	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane|trans-Golgi network membrane	protein binding			ovary(1)	1						GCTGTCTCGCGTGGCTGATCG	0.607													29	82					0	0	0.116897	0	0		A	75308977	A	A	75308977	2	1	80	1	0	0	0	0	0	0	0	1	13899	1132	40	1		1	SCAMP5	15	75308977	Silent	SNP	G	TCGA-BR-8486-01A-31D-2394-08	3268183	75308977	27222415	37	50295											
CHRNB4	1143	broad.mit.edu	37	chr15	78921738	78921738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagaaggtgaccagcacCatggtgaacatgaggtactt	13	8	13	7	0	0	4	0	3	0	1	0	5	0	4	2	4	3	2	2	4	3	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr15:78921738C>T	uc002bed.1	-	5	1021	c.909G>A	c.(907-909)ATG>ATA	p.M303I	CHRNB4_uc002bee.1_Intron|CHRNB4_uc010blh.1_Missense_Mutation_p.M121I	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	303	Helical; (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						TGACCAGCACCATGGTGAACA	0.592													22	61					0	0	0.069288	0	0		T	78921738	T	T	78921738	3	4	80	1	0	0	0	0	1	0	0	0	3396	594	21	4	595	4	CHRNB4	15	78921738	Missense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08	3612761	78921738	23609654	38	50296											
ZSCAN2	54993	broad.mit.edu	37	chr15	85164300	85164300	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctttagccggagtgccAacctcataacccaccagagg	12	6	10	13	1	1	2	1	0	0	2	1	3	1	3	5	2	5	1	5	2	3	3			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr15:85164300A>C	uc002bkr.2	+	3	1100	c.874A>C	c.(874-876)AAC>CAC	p.N292H	ZSCAN2_uc010bmz.1_Missense_Mutation_p.N290H|ZSCAN2_uc010bna.2_Missense_Mutation_p.N142H|ZSCAN2_uc010uox.1_Intron|ZSCAN2_uc010uoy.1_Intron|ZSCAN2_uc010uoz.1_Intron	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	292	C2H2-type 3.				cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		CCGGAGTGCCAACCTCATAAC	0.522													12	42					0	0	0.080935	0	0		C	85164300	C	C	85164300	3	2	80	1	0	0	0	0	1	0	0	0	18256	130	5	5	970	5	ZSCAN2	15	85164300	Missense_Mutation	SNP	A	TCGA-BR-8486-01A-31D-2394-08	6242562	85164300	17367092	39	50297											
ITGAM	3684	broad.mit.edu	37	chr16	31283290	31283290	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttgggcggacacacacGgccacgggcatccgcaaagt	9	5	13	14	4	0	0	0	0	0	0	1	1	1	1	2	4	1	3	2	4	1	1	rs41499844		TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr16:31283290G>A	uc002ebq.2	+	7	779	c.681G>A	c.(679-681)ACG>ACA	p.T227T	ITGAM_uc002ebr.2_Silent_p.T227T	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	227	VWFA.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						GGACACACACGGCCACGGGCA	0.522													28	80					0	0	0.144211	0	0		A	31283290	A	A	31283290	2	1	80	1	0	0	0	0	0	0	0	1	7903	1103	39	1		1	ITGAM	16	31283290	Silent	SNP	G	TCGA-BR-8486-01A-31D-2394-08		31283290	59071463	40	50298											
HYDIN	54768	broad.mit.edu	37	chr16	71218824	71218824	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatctgtggtcggcacaTcaaacgtgtttttgccagtc	8	13	11	9	2	2	1	1	1	1	0	4	2	2	1	1	2	2	2	1	2	1	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr16:71218824T>G	uc002ezr.2	-	3	333	c.205A>C	c.(205-207)ATG>CTG	p.M69L	HYDIN_uc010cfz.1_5'UTR|HYDIN_uc002ezv.2_Missense_Mutation_p.M69L|HYDIN_uc010vmc.1_Missense_Mutation_p.M86L|HYDIN_uc010vmd.1_Missense_Mutation_p.M96L|HYDIN_uc002ezw.3_Missense_Mutation_p.M86L	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	69										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GGTCGGCACATCAAACGTGTT	0.453													5	61					0	0	0.021553	0	0		G	71218824	G	G	71218824	3	3	80	1	0	0	0	0	1	0	0	0	7483	1435	50	5	15505	5	HYDIN	16	71218824	Missense_Mutation	SNP	T	TCGA-BR-8486-01A-31D-2394-08	39935534	71218824	19135929	41	50299											
ZZEF1	23140	broad.mit.edu	37	chr17	3977531	3977531	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatccagcccccaagacaCggcaacatcgggcagcccac	13	3	8	17	2	0	1	0	0	0	1	2	1	1	1	4	2	3	2	4	2	4	1			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr17:3977531C>T	uc002fxe.2	-	24	3662	c.3598G>A	c.(3598-3600)GTG>ATG	p.V1200M		NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	1200							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CCCCAAGACACGGCAACATCG	0.592													11	219					0	0	0.080935	0	0		T	3977531	T	T	3977531	3	4	80	1	0	0	0	0	1	0	0	0	18280	536	19	1	5415	1	ZZEF1	17	3977531	Missense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08		3977531	77217679	42	50300											
TP53	7157	broad.mit.edu	37	chr17	7579395	7579396	+	Frame_Shift_Ins	INS	-	C	C																															tggtaggttttctgggaaggINSgacagaagatgacaggggcc																										TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr17:7579395_7579396insC	uc002gim.2	-	4	485_486	c.291_292insG	c.(289-294)GTCCCTfs	p.V97fs	TP53_uc002gig.1_Frame_Shift_Ins_p.V97fs|TP53_uc002gih.2_Frame_Shift_Ins_p.V97fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Frame_Shift_Ins_p.V97fs|TP53_uc010cni.1_Frame_Shift_Ins_p.V97fs|TP53_uc002gij.2_Frame_Shift_Ins_p.V97fs|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Frame_Shift_Ins_p.V58fs|TP53_uc010cnk.1_Frame_Shift_Ins_p.V112fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	97_98	Interaction with WWOX.		P -> L (in sporadic cancers; somatic mutation).|P -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.P98S(4)|p.S99fs*48(3)|p.G59fs*23(3)|p.V73fs*9(1)|p.V97A(1)|p.V97I(1)|p.W91fs*13(1)|p.P13fs*18(1)|p.S33fs*23(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TTCTGGGAAGGGACAGAAGATG	0.639		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			55	56	---	---	---	---						.	C	7579396	C	C	7579395	7	5	80	1	0	1	1	0	0	0	0	0	16407	1232	43	0	1010	0	TP53	17	7579395	Frame_Shift_Ins	INS	-	TCGA-BR-8486-01A-31D-2394-08	3601864	7579395	73615815	43	50301											
TNFRSF13B	23495	broad.mit.edu	37	chr17	16852283	16852283	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacttgccttgctccttgcGgcagctgagtgaccctggga	6	10	13	12	1	0	2	0	2	0	0	1	4	1	3	3	2	5	3	3	2	1	3			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr17:16852283G>A	uc002gqs.1	-	3	227	c.214C>T	c.(214-216)CGC>TGC	p.R72C	TNFRSF13B_uc010vwt.1_RNA|TNFRSF13B_uc002gqt.1_Missense_Mutation_p.R26C|TNFRSF13B_uc010vwu.1_Missense_Mutation_p.R72C	NM_012452	NP_036584	O14836	TR13B_HUMAN	tumor necrosis factor receptor 13B	72	Extracellular (Potential).|TNFR-Cys 2.				cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding|receptor activity			kidney(2)	2						TGCTCCTTGCGGCAGCTGAGT	0.498									IgA_Deficiency_Selective				7	57					0	0	0.038147	0	0		A	16852283	A	A	16852283	3	1	80	1	0	0	0	0	1	0	0	0	16312	1116	39	1	679	1	TNFRSF13B	17	16852283	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	9272888	16852283	64342927	44	50302											
NEK8	284086	broad.mit.edu	37	chr17	27062001	27062001	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcatctccaagatccttagCagcaagagcaaggcctacac	13	6	9	13	0	1	2	0	0	1	2	3	2	2	2	3	2	4	4	3	2	5	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr17:27062001C>T	uc002hcp.2	+	3	465	c.465C>T	c.(463-465)AGC>AGT	p.S155S		NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	155	Protein kinase.					cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					AGATCCTTAGCAGCAAGAGCA	0.582													23	72					0	0	0.069288	0	0		T	27062001	T	T	27062001	2	4	80	1	0	0	0	0	0	0	0	1	10349	709	25	2		2	NEK8	17	27062001	Silent	SNP	C	TCGA-BR-8486-01A-31D-2394-08	10209718	27062001	54133209	45	50303											
FAM117A	81558	broad.mit.edu	37	chr17	47788765	47788765	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgggggaaggggagatcccGggtttgaggggcagttacgg	7	6	21	7	3	0	2	0	1	0	1	1	4	1	3	2	8	1	3	2	8	2	2	rs138923537		TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr17:47788765G>C	uc002ipk.2	-	8	1283	c.1214C>G	c.(1213-1215)CCG>CGG	p.P405R	FAM117A_uc010wlz.1_Missense_Mutation_p.P133R	NM_030802	NP_110429	Q9C073	F117A_HUMAN	family with sequence similarity 117, member A	405	Pro-rich.									ovary(1)	1						GGGAGATCCCGGGTTTGAGGG	0.647													29	23					0	0	0.108266	0	0		C	47788765	C	C	47788765	3	2	80	1	0	0	0	0	1	0	0	0	5420	1116	39	5	151	5	FAM117A	17	47788765	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	20726764	47788765	33406445	46	50304											
GMIP	51291	broad.mit.edu	37	chr19	19746378	19746378	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccagcccgtctcccaggTctgcagggagacagggtcag	7	7	13	14	1	4	1	1	0	3	1	6	2	4	1	3	3	2	1	3	3	0	0			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr19:19746378T>G	uc002nnd.2	-	15	1523	c.1406A>C	c.(1405-1407)GAC>GCC	p.D469A	GMIP_uc010xrb.1_Missense_Mutation_p.D443A|GMIP_uc010xrc.1_Missense_Mutation_p.D440A	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	469					negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						GTCTCCCAGGTCTGCAGGGAG	0.552													45	71					0	0	0.11126	0	0		G	19746378	G	G	19746378	3	3	80	1	0	0	0	0	1	0	0	0	6506	1681	58	5	1534	5	GMIP	19	19746378	Missense_Mutation	SNP	T	TCGA-BR-8486-01A-31D-2394-08		19746378	39382605	47	50305											
KCNB1	3745	broad.mit.edu	37	chr20	47990303	47990303	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagaatctggtggcctcaggGaagtctgtggcacagctaat	10	9	14	8	0	3	1	1	0	2	1	3	3	3	2	1	4	1	2	1	4	3	1			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr20:47990303G>A	uc002xur.1	-	2	1958	c.1794C>T	c.(1792-1794)TTC>TTT	p.F598F	KCNB1_uc002xus.1_Silent_p.F598F	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	598	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TGGCCTCAGGGAAGTCTGTGG	0.592													40	41					0	0	0.214465	0	0		A	47990303	A	A	47990303	2	1	80	1	0	0	0	0	0	0	0	1	8028	1165	41	4		4	KCNB1	20	47990303	Silent	SNP	G	TCGA-BR-8486-01A-31D-2394-08		47990303	15035217	48	50306											
KCNB1	3745	broad.mit.edu	37	chr20	47990462	47990462	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctgctgactccttggtattGaggatgggttgggattgggt	5	14	17	5	0	0	2	0	2	0	0	1	4	1	4	1	5	1	4	1	5	1	5			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr20:47990462G>C	uc002xur.1	-	2	1799	c.1635C>G	c.(1633-1635)CTC>CTG	p.L545L	KCNB1_uc002xus.1_Silent_p.L545L	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	545	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CCTTGGTATTGAGGATGGGTT	0.517													106	113					0	0	0.139131	0	0		C	47990462	C	C	47990462	2	2	80	1	0	0	0	0	0	0	0	1	8028	1277	45	5		5	KCNB1	20	47990462	Silent	SNP	G	TCGA-BR-8486-01A-31D-2394-08	159	47990462	15035058	49	50307											
MYT1	4661	broad.mit.edu	37	chr20	62850293	62850293	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcgcaggacgccgaggctGcacacatggctgccactgcc	8	5	12	16	3	0	0	0	0	0	0	1	2	0	1	3	3	3	4	3	3	0	0			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chr20:62850293G>T	uc002yii.2	+	12	2240	c.1876G>T	c.(1876-1878)GCA>TCA	p.A626S	MYT1_uc002yih.2_Missense_Mutation_p.A328S|MYT1_uc002yij.2_Missense_Mutation_p.A285S	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	626					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					CGCCGAGGCTGCACACATGGC	0.602													33	277					3.80469e-20	4.13081e-20	0.144211	1	0		T	62850293	T	T	62850293	3	4	80	1	0	0	0	0	1	0	0	0	10124	1319	46	5	1914	5	MYT1	20	62850293	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	14859831	62850293	175227	50	50308											
ARHGAP6	395	broad.mit.edu	37	chrX	11157185	11157185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttggcctccctggtccGtgggtgtctccacgccttcc	1	12	11	17	2	1	0	0	0	1	0	5	0	4	0	6	3	1	1	6	3	0	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chrX:11157185G>A	uc004cup.1	-	13	3596	c.2723C>T	c.(2722-2724)ACG>ATG	p.T908M	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cum.1_Missense_Mutation_p.T705M|ARHGAP6_uc004cun.1_Missense_Mutation_p.T728M	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	908					actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						TCCCTGGTCCGTGGGTGTCTC	0.706													8	18					0	0	0.047766	0	0		A	11157185	A	A	11157185	3	1	80	1	0	0	0	0	1	0	0	0	887	1145	40	1	205	1	ARHGAP6	23	11157185	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08		11157185	144113375	51	50309											
ATP6AP2	10159	broad.mit.edu	37	chrX	40450529	40450529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgggtaacctgtttcatcGtcctcgggctaccgtcatgg	6	12	12	11	3	2	0	2	0	0	0	5	0	3	0	3	3	2	3	3	3	2	3			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chrX:40450529G>A	uc004det.2	+	3	314	c.212G>A	c.(211-213)CGT>CAT	p.R71H	ATP6AP2_uc010nhc.2_RNA|ATP6AP2_uc011mkl.1_5'UTR|ATP6AP2_uc011mkm.1_Missense_Mutation_p.R71H|ATP6AP2_uc011mkn.1_Missense_Mutation_p.R71H	NM_005765	NP_005756	O75787	RENR_HUMAN	ATPase, H+ transporting, lysosomal accessory	71	Extracellular (Potential).				angiotensin maturation|positive regulation of transforming growth factor-beta1 production|regulation of MAPKKK cascade	external side of plasma membrane|integral to membrane	protein binding|receptor activity				0						CTGTTTCATCGTCCTCGGGCT	0.493													14	93					0	0	0.146539	0	0		A	40450529	A	A	40450529	3	1	80	1	0	0	0	0	1	0	0	0	1168	1145	40	1	222	1	ATP6AP2	23	40450529	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	29293344	40450529	114820031	52	50310											
CHST7	56548	broad.mit.edu	37	chrX	46433919	46433919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgcgcgcgccccggacacgGccaatcttaccacggccgcc	6	4	11	20	7	1	0	0	0	1	0	1	1	1	1	6	3	2	0	6	3	2	1			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chrX:46433919G>A	uc004dgt.2	+	1	728	c.553G>A	c.(553-555)GCC>ACC	p.A185T		NM_019886	NP_063939	Q9NS84	CHST7_HUMAN	chondroitin 6-sulfotransferase 7	185	Lumenal (Potential).				chondroitin sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity|N-acetylglucosamine 6-O-sulfotransferase activity			breast(3)	3						cccggACACGGCCAATCTTAC	0.562													15	47					0	0	0.11911	0	0		A	46433919	A	A	46433919	3	1	80	1	0	0	0	0	1	0	0	0	3412	1203	42	2	555	2	CHST7	23	46433919	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	5983390	46433919	108836641	53	50311											
HEPH	9843	broad.mit.edu	37	chrX	65392442	65392442	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctacgagaaggactctgaagGtaaaccattccaccgtttct	12	10	8	11	2	2	2	0	1	2	1	3	4	3	3	3	2	2	2	3	2	5	4			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chrX:65392442G>A	uc011moz.1	+	3	481	c.421_splice	c.e3+1	p.G141_splice	HEPH_uc004dwn.2_Splice_Site_p.G141_splice|HEPH_uc004dwo.2_Splice_Site|HEPH_uc010nkr.2_Splice_Site_p.G141_splice|HEPH_uc011mpa.1_Splice_Site_p.G141_splice	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a						cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						GACTCTGAAGGTAAACCATTC	0.443													22	126					0	0	0.062417	0	0		A	65392442	A	A	65392442	5	1	80	1	0	0	0	0	0	0	1	0	7070	1275	44	4	585	4	HEPH	23	65392442	Splice_Site	SNP	G	TCGA-BR-8486-01A-31D-2394-08	18958523	65392442	89878118	54	50312											
PCDH11X	27328	broad.mit.edu	37	chrX	91873740	91873740	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtcagtttgcagcaaggttGggtgcaaggtgctgatgggc	8	10	17	6	0	1	1	1	1	0	0	1	1	1	1	0	4	4	6	0	4	2	2			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chrX:91873740G>C	uc004efk.1	+	7	4690	c.3845G>C	c.(3844-3846)TGG>TCG	p.W1282S	PCDH11X_uc004efl.1_Missense_Mutation_p.W1272S|PCDH11X_uc004efo.1_Missense_Mutation_p.W1245S|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Missense_Mutation_p.W1274S|PCDH11X_uc004efn.1_Missense_Mutation_p.W1264S	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1282	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CAGCAAGGTTGGGTGCAAGGT	0.507													24	333					0	0	0.083992	0	0		C	91873740	C	C	91873740	3	2	80	1	0	0	0	0	1	0	0	0	11527	1357	47	5	3993	5	PCDH11X	23	91873740	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	26481298	91873740	63396820	55	50313											
PGRMC1	10857	broad.mit.edu	37	chrX	118370534	118370534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccctctgccccgcctcaagCggcgcgacttcacccccgcc	4	5	8	24	5	3	0	2	0	1	0	3	1	3	0	8	1	2	0	8	1	1	1			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chrX:118370534C>T	uc004erb.2	+	1	324	c.208C>T	c.(208-210)CGG>TGG	p.R70W	PGRMC1_uc011mts.1_Missense_Mutation_p.R70W	NM_006667	NP_006658	O00264	PGRC1_HUMAN	progesterone receptor membrane component 1	70	Cytoplasmic (Potential).					cell surface|endoplasmic reticulum membrane|integral to membrane|microsome|nucleolus	heme binding|protein binding|receptor activity|steroid binding				0						CCGCCTCAAGCGGCGCGACTT	0.687													10	59					0	0	0.069234	0	0		T	118370534	T	T	118370534	3	4	80	1	0	0	0	0	1	0	0	0	11825	759	27	1	210	1	PGRMC1	23	118370534	Missense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08	26496794	118370534	36900026	56	50314											
UPF3B	65109	broad.mit.edu	37	chrX	118972014	118972014	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccgctctcatcttcaggTctgcatgaaaaacaaatctg	11	11	7	12	1	5	1	2	1	4	0	6	1	5	1	1	1	3	2	1	1	3	1			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chrX:118972014T>C	uc004erz.1	-	10	1085	c.1008A>G	c.(1006-1008)AGA>AGG	p.R336R	UPF3B_uc004esa.1_Silent_p.R323R	NM_080632	NP_542199	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B	336	Sufficient for association with EJC core.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|termination of RNA polymerase II transcription	cytosol|exon-exon junction complex|nucleoplasm	mRNA binding|nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(2)|kidney(1)	3						CATCTTCAGGTCTGCATGAAA	0.478													11	178					0	0	0.069234	0	0		C	118972014	C	C	118972014	2	2	80	1	0	0	0	0	0	0	0	1	17032	1681	58	3		3	UPF3B	23	118972014	Silent	SNP	T	TCGA-BR-8486-01A-31D-2394-08	601480	118972014	36298546	57	50315											
ODZ1	10178	broad.mit.edu	37	chrX	123556374	123556374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtgaatggggcgtcctgCgatgatccgaacacgcctgt	8	8	14	11	4	0	2	0	2	0	0	2	4	2	2	3	2	2	1	3	2	2	0			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chrX:123556374C>T	uc004euj.2	-	23	4262	c.4198G>A	c.(4198-4200)GCA>ACA	p.A1400T	ODZ1_uc011muj.1_Missense_Mutation_p.A1406T|ODZ1_uc010nqy.2_Missense_Mutation_p.A1407T	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1400	NHL 3.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GGGCGTCCTGCGATGATCCGA	0.493													44	98					0	0	0.117977	0	0		T	123556374	T	T	123556374	3	4	80	1	0	0	0	0	1	0	0	0	10853	768	27	1	4015	1	ODZ1	23	123556374	Missense_Mutation	SNP	C	TCGA-BR-8486-01A-31D-2394-08	4584360	123556374	31714186	58	50316											
GPC4	2239	broad.mit.edu	37	chrX	132548987	132548987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcgcgggcaagccgaaccGtgccatggtgcgggccgggg	7	3	19	12	6	0	0	0	0	0	0	0	1	0	0	4	5	5	1	4	5	3	0			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chrX:132548987G>A	uc004exc.1	-	1	219	c.7C>T	c.(7-9)CGG>TGG	p.R3W	GPC4_uc011mvg.1_5'Flank	NM_001448	NP_001439	O75487	GPC4_HUMAN	glypican 4 precursor	3					anatomical structure morphogenesis|cell proliferation	anchored to membrane|external side of plasma membrane|extracellular space|insoluble fraction|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	Acute lymphoblastic leukemia(192;0.000127)					AAGCCGAACCGTGCCATGGTG	0.701													9	81					0	0	0.058154	0	0		A	132548987	A	A	132548987	3	1	80	1	0	0	0	0	1	0	0	0	6615	1144	40	1	1699	1	GPC4	23	132548987	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	8992613	132548987	22721573	59	50317											
MTM1	4534	broad.mit.edu	37	chrX	149787547	149787547	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttcgctttgaaacaggaaGgccacagcagaagagatatg	14	7	13	7	1	0	3	0	1	0	2	1	5	0	4	1	3	2	3	1	3	4	3			TCGA-BR-8486-01A-31D-2394-08	TCGA-BR-8486-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a7cdaf6-211e-4eb8-a70e-1153d69c45e4	0fa8cee4-2d26-4caf-9da2-96047854f29f	g.chrX:149787547G>T	uc004fef.3	+	6	455	c.379G>T	c.(379-381)GGC>TGC	p.G127C	MTM1_uc011mxx.1_RNA|MTM1_uc011mxy.1_Missense_Mutation_p.G90C|MTM1_uc011mxz.1_Missense_Mutation_p.G12C|MTM1_uc010nte.2_Intron	NM_000252	NP_000243	Q13496	MTM1_HUMAN	myotubularin	127					endosome to lysosome transport|intermediate filament organization|mitochondrion distribution|mitochondrion morphogenesis|phosphatidylinositol dephosphorylation|protein transport|regulation of vacuole organization	filopodium|late endosome|plasma membrane|ruffle	intermediate filament binding|phosphatidylinositol binding|phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GAAACAGGAAGGCCACAGCAG	0.468													8	86					0.000978159	0.000991201	0.080935	1	0		T	149787547	T	T	149787547	3	4	80	1	0	0	0	0	1	0	0	0	9955	1000	35	5	397	5	MTM1	23	149787547	Missense_Mutation	SNP	G	TCGA-BR-8486-01A-31D-2394-08	17238560	149787547	5483013	60	50318											
PLCH2	9651	broad.mit.edu	37	chr1	2435628	2435628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggcccccggcagccagaCggacggcaggagccagcccc	8	0	16	17	3	0	1	0	0	0	1	0	4	0	3	6	5	3	2	6	5	0	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr1:2435628C>T	uc001aji.1	+	22	3501	c.3227C>T	c.(3226-3228)ACG>ATG	p.T1076M	PLCH2_uc010nyz.1_3'UTR|PLCH2_uc009vle.1_Missense_Mutation_p.T828M|PLCH2_uc001ajj.1_3'UTR|PLCH2_uc001ajk.1_3'UTR|PLCH2_uc001ajl.1_Translation_Start_Site	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	1076					intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		GGCAGCCAGACGGACGGCAGG	0.731													3	7					0	0	0.004672	0	0		T	2435628	T	T	2435628	3	4	81	1	0	0	0	0	1	0	0	0	12057	536	19	1	3313	1	PLCH2	1	2435628	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08		2435628	246814993	1	50319											
CAMTA1	23261	broad.mit.edu	37	chr1	7792608	7792608	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaacaggcgagcggaggCggcagcagtggaggcggcag	11	1	19	10	4	0	0	0	0	0	0	0	3	0	2	0	7	3	3	0	7	1	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr1:7792608C>T	uc001aoi.2	+	12	3222	c.3015C>T	c.(3013-3015)GGC>GGT	p.G1005G	CAMTA1_uc010nzv.1_Silent_p.G92G|CAMTA1_uc001aok.3_Silent_p.G48G	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1005					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		CGAGCGGAGGCGGCAGCAGTG	0.612													3	20					0	0	0.004672	0	0		T	7792608	T	T	7792608	2	4	81	1	0	0	0	0	0	0	0	1	2616	755	27	1		1	CAMTA1	1	7792608	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08	5356980	7792608	241458013	2	50320											
MASP2	10747	broad.mit.edu	37	chr1	11087139	11087139	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtccttgcccccactttCtaagccagcacaaagcatgt	9	10	7	15	0	1	0	0	0	1	0	2	0	2	0	4	0	4	3	4	0	2	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr1:11087139C>A	uc001aru.2	-	11	1885	c.1864G>T	c.(1864-1866)GAA>TAA	p.E622*		NM_006610	NP_006601	O00187	MASP2_HUMAN	mannan-binding lectin serine protease 2 isoform	622	Peptidase S1.				complement activation, classical pathway|complement activation, lectin pathway|proteolysis	extracellular region	calcium ion binding|calcium-dependent protein binding|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.071)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.12e-07)|COAD - Colon adenocarcinoma(227;7.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)|STAD - Stomach adenocarcinoma(313;0.192)		CCCCCACTTTCTAAGCCAGCA	0.493													23	191					1.22574e-08	1.33299e-08	0.014323	1	0		A	11087139	A	A	11087139	4	1	81	1	0	0	0	0	0	1	0	0	9341	922	32	5	200	5	MASP2	1	11087139	Nonsense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	3294531	11087139	238163482	3	50321											
SFN	2810	broad.mit.edu	37	chr1	27189931	27189931	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacgaggagggctcggaggaGaaggggcccgaggtgcgtga	10	3	21	7	4	0	2	0	1	0	1	1	7	0	4	1	7	2	1	1	7	2	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr1:27189931G>A	uc001bnc.1	+	1	299	c.228G>A	c.(226-228)GAG>GAA	p.E76E	uc010ofi.1_RNA	NM_006142	NP_006133	P31947	1433S_HUMAN	stratifin	76					DNA damage response, signal transduction resulting in induction of apoptosis|negative regulation of caspase activity|release of cytochrome c from mitochondria	cytoplasm|extracellular space|nucleus	protein domain specific binding|protein kinase C inhibitor activity				0		all_cancers(24;1.23e-26)|all_epithelial(13;1.19e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;0.00017)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.1e-52)|Epithelial(14;2.31e-52)|OV - Ovarian serous cystadenocarcinoma(117;8.22e-30)|Colorectal(126;1.31e-09)|COAD - Colon adenocarcinoma(152;3.45e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000501)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)|GBM - Glioblastoma multiforme(114;0.0767)|Lung(427;0.215)		GCTCGGAGGAGAAGGGGCCCG	0.627													13	76					0	0	0.001855	0	0		A	27189931	A	A	27189931	2	1	81	1	0	0	0	0	0	0	0	1	14184	933	33	4		4	SFN	1	27189931	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08	16102792	27189931	222060690	4	50322											
CHRNB2	1141	broad.mit.edu	37	chr1	154544028	154544028	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacaccatcaacctcatcatCccctgtgtgctcatcacctc	9	11	3	18	0	5	0	5	0	0	0	7	0	6	0	5	0	3	1	5	0	2	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr1:154544028C>A	uc001ffg.2	+	5	993	c.729C>A	c.(727-729)ATC>ATA	p.I243I		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	243	Helical; (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	ACCTCATCATCCCCTGTGTGC	0.562													22	188					1.64293e-13	1.84433e-13	0.00333	1	0		A	154544028	A	A	154544028	2	1	81	1	0	0	0	0	0	0	0	1	3394	845	30	5		5	CHRNB2	1	154544028	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08	127354097	154544028	94706593	5	50323											
ADAM15	8751	broad.mit.edu	37	chr1	155030414	155030414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagacagctcccagtgtcccCctgatgtcagcctaggggat	8	8	12	13	0	1	2	1	1	0	1	3	4	3	3	4	2	2	1	4	2	1	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr1:155030414C>T	uc001fgr.1	+	14	1605	c.1504C>T	c.(1504-1506)CCT>TCT	p.P502S	ADAM15_uc001fgq.1_Missense_Mutation_p.P187S|ADAM15_uc010pet.1_Missense_Mutation_p.P486S|ADAM15_uc010peu.1_Missense_Mutation_p.P519S|ADAM15_uc001fgt.1_Missense_Mutation_p.P502S|ADAM15_uc010pev.1_Missense_Mutation_p.P512S|ADAM15_uc001fgs.1_Missense_Mutation_p.P502S|ADAM15_uc001fgu.1_Missense_Mutation_p.P502S|ADAM15_uc001fgw.1_Missense_Mutation_p.P502S|ADAM15_uc001fgv.1_Missense_Mutation_p.P502S|ADAM15_uc001fgx.1_Missense_Mutation_p.P502S|ADAM15_uc001fgz.1_RNA|ADAM15_uc001fgy.1_RNA|ADAM15_uc001fha.1_RNA|ADAM15_uc001fhb.1_5'Flank	NM_207197	NP_997080	Q13444	ADA15_HUMAN	a disintegrin and metalloproteinase domain 15	502	Disintegrin.|Extracellular (Potential).				angiogenesis|cell-matrix adhesion|collagen catabolic process|proteolysis	acrosomal vesicle|adherens junction|endomembrane system|flagellum|integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			central_nervous_system(3)|skin(2)|ovary(1)	6	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			CCAGTGTCCCCCTGATGTCAG	0.637													11	130					0	0	0.008291	0	0		T	155030414	T	T	155030414	3	4	81	1	0	0	0	0	1	0	0	0	237	623	22	4	1558	4	ADAM15	1	155030414	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	486386	155030414	94220207	6	50324											
C1orf25	81627	broad.mit.edu	37	chr1	185109148	185109148	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcagtacattggcatccaTtttggtcaccttaatattac	11	15	5	10	0	2	0	2	0	0	0	3	0	3	0	2	2	2	2	2	2	4	7			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr1:185109148T>C	uc001grf.3	-	8	1338	c.1066A>G	c.(1066-1068)ATG>GTG	p.M356V	C1orf25_uc010pon.1_Missense_Mutation_p.M200V	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	356						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						TTGGCATCCATTTTGGTCACC	0.353													32	57					0	0	0.009535	0	0		C	185109148	C	C	185109148	3	2	81	1	0	0	0	0	1	0	0	0	2037	1493	52	3	1167	3	C1orf25	1	185109148	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	30078734	185109148	64141473	7	50325											
HMCN1	83872	broad.mit.edu	37	chr1	186099106	186099106	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttccctcagcccactttGacagtgtgaatggacacagt	9	12	9	11	0	1	2	1	2	0	0	2	3	2	3	2	1	1	1	2	1	1	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr1:186099106G>T	uc001grq.1	+	84	13142	c.12913G>T	c.(12913-12915)GAC>TAC	p.D4305Y	HMCN1_uc001grs.1_5'UTR	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4305	Ig-like C2-type 42.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AGCCCACTTTGACAGTGTGAA	0.413													27	81					2.85442e-18	3.22512e-18	0.010818	1	0		T	186099106	T	T	186099106	3	4	81	1	0	0	0	0	1	0	0	0	7236	1290	45	5	13247	5	HMCN1	1	186099106	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	989958	186099106	63151515	8	50326											
ARL8A	127829	broad.mit.edu	37	chr1	202107141	202107141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcccacatgctgcggaaaCgcggctgtcccccaatgtcc	7	7	10	17	3	0	0	0	0	0	0	3	1	3	1	4	2	3	3	4	2	2	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr1:202107141C>T	uc001gxk.1	-	3	396	c.230G>A	c.(229-231)CGT>CAT	p.R77H		NM_138795	NP_620150	Q96BM9	ARL8A_HUMAN	ADP-ribosylation factor-like 8A	77					cell division|chromosome segregation|mitosis|small GTPase mediated signal transduction	late endosome membrane|lysosomal membrane|midbody|spindle midzone	alpha-tubulin binding|beta-tubulin binding|GTP binding|GTPase activity			ovary(2)	2						GCTGCGGAAACGCGGCTGTCC	0.617													6	74					0	0	0.001168	0	0		T	202107141	T	T	202107141	3	4	81	1	0	0	0	0	1	0	0	0	947	536	19	1	350	1	ARL8A	1	202107141	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	16008035	202107141	47143480	9	50327											
OR2W5	441932	broad.mit.edu	37	chr1	247654885	247654885	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtggcctggtgctgtggCttcctaaactccttcatcat	6	14	9	12	0	2	0	2	0	0	0	4	0	4	0	3	3	2	2	3	3	2	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr1:247654885C>T	uc001icz.1	+	1	456	c.456C>T	c.(454-456)GGC>GGT	p.G152G		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			GGTGCTGTGGCTTCCTAAACT	0.592													8	83					0	0	0.00308	0	0		T	247654885	T	T	247654885	2	4	81	1	0	0	0	0	0	0	0	1	11053	784	28	2		2	OR2W5	1	247654885	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08	45547744	247654885	1595736	10	50328											
OR14A16	284532	broad.mit.edu	37	chr1	247978434	247978434	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaatccaaaactacattaaTaaggatgagtgcaatttctc	17	11	6	7	0	1	1	0	1	1	0	3	3	2	2	1	1	3	1	1	1	7	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr1:247978434T>C	uc001idm.1	-	1	598	c.598A>G	c.(598-600)ATT>GTT	p.I200V		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	200	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACTACATTAATAAGGATGAGT	0.393													7	82					0	0	0.001984	0	0		C	247978434	C	C	247978434	3	2	81	1	0	0	0	0	1	0	0	0	10964	1406	49	3	335	3	OR14A16	1	247978434	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	323549	247978434	1272187	11	50329											
CEBPZ	10153	broad.mit.edu	37	chr2	37441097	37441097	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctttaacagcaactttttTataatacctataatattcat	14	18	1	8	0	2	0	1	0	1	0	2	0	2	0	1	0	4	1	1	0	8	11			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr2:37441097T>A	uc002rpz.2	-	10	2485	c.2455A>T	c.(2455-2457)AAA>TAA	p.K819*		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	819					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				GCAACTTTTTTATAATACCTA	0.303													5	24					0	0	0.000602	0	0		A	37441097	A	A	37441097	4	1	81	1	0	0	0	0	0	1	0	0	3207	1763	61	5	737	5	CEBPZ	2	37441097	Nonsense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08		37441097	205758276	12	50330											
TTN	7273	broad.mit.edu	37	chr2	179595379	179595379	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatttgtacttttcactagCtgatatttcttggtcatctt	8	20	6	7	0	4	1	2	1	2	0	4	2	4	1	0	1	2	2	0	1	4	9			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr2:179595379C>A	uc010zfg.1	-	58	14373	c.14149G>T	c.(14149-14151)GCT>TCT	p.A4717S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A1378S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5644							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTTCACTAGCTGATATTTCT	0.408													25	76					9.57634e-11	1.06133e-10	0.00333	1	0		A	179595379	A	A	179595379	3	1	81	1	0	0	0	0	1	0	0	0	16761	797	28	5	86856	5	TTN	2	179595379	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	142154282	179595379	63603994	13	50331											
TTN	7273	broad.mit.edu	37	chr2	179634998	179634998	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaacttcaaaggcaacagtGgcattttccaaggctgtcac	12	10	8	11	0	2	0	2	0	0	0	3	0	3	0	1	3	2	3	1	3	4	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr2:179634998G>A	uc010zfg.1	-	36	8654	c.8430C>T	c.(8428-8430)GCC>GCT	p.A2810A	TTN_uc010zfh.1_Silent_p.A2764A|TTN_uc010zfi.1_Silent_p.A2764A|TTN_uc010zfj.1_Silent_p.A2764A|TTN_uc002unb.2_Silent_p.A2810A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2810							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGGCAACAGTGGCATTTTCCA	0.403													12	133					0	0	0.013537	0	0		A	179634998	A	A	179634998	2	1	81	1	0	0	0	0	0	0	0	1	16761	1335	47	4		4	TTN	2	179634998	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08	39619	179634998	63564375	14	50332											
BMPR2	659	broad.mit.edu	37	chr2	203383565	203383565	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgattggccgaggtcgataTggagcagtatataaaggctc	11	10	13	7	2	0	1	0	1	0	0	2	4	0	2	1	4	1	3	1	4	5	5			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr2:203383565T>A	uc002uzf.3	+	6	1790	c.642T>A	c.(640-642)TAT>TAA	p.Y214*	BMPR2_uc010ftr.2_Nonsense_Mutation_p.Y214*	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	214	ATP.|Protein kinase.|Cytoplasmic (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						GAGGTCGATATGGAGCAGTAT	0.338													15	66					0	0	0.00245	0	0		A	203383565	A	A	203383565	4	1	81	1	0	0	0	0	0	1	0	0	1472	1471	51	5	664	5	BMPR2	2	203383565	Nonsense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	23748567	203383565	39815808	15	50333											
EPHA4	2043	broad.mit.edu	37	chr2	222291236	222291236	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtataaccagcagctgtgaAgttatccttataccggtcca	11	11	9	10	1	0	1	0	1	0	0	2	1	2	1	4	2	4	4	4	2	6	5			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr2:222291236A>C	uc002vmq.2	-	16	2836	c.2794T>G	c.(2794-2796)TTC>GTC	p.F932V	EPHA4_uc002vmr.2_Missense_Mutation_p.F932V|EPHA4_uc010zlm.1_Missense_Mutation_p.F873V|EPHA4_uc010zln.1_Missense_Mutation_p.F932V	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	932	Cytoplasmic (Potential).|SAM.					integral to plasma membrane	ATP binding|ephrin receptor activity	p.F932F(2)		lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		GCAGCTGTGAAGTTATCCTTA	0.463													7	42					0	0	0.00308	0	0		C	222291236	C	C	222291236	3	2	81	1	0	0	0	0	1	0	0	0	5177	72	3	5	174	5	EPHA4	2	222291236	Missense_Mutation	SNP	A	TCGA-BR-8588-01A-11D-2394-08	18907671	222291236	20908137	16	50334											
ATG16L1	55054	broad.mit.edu	37	chr2	234198933	234198933	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggatccagttgcaatgataTtgtctgcacagagcaatgtg	12	11	11	7	0	1	2	0	1	1	1	2	3	2	3	1	1	3	4	1	1	3	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr2:234198933T>C	uc002vty.2	+	14	1621	c.1364T>C	c.(1363-1365)ATT>ACT	p.I455T	ATG16L1_uc002vtx.1_Missense_Mutation_p.I292T|ATG16L1_uc002vua.2_Missense_Mutation_p.I436T|ATG16L1_uc002vub.2_Missense_Mutation_p.I313T|ATG16L1_uc002vtz.2_Missense_Mutation_p.I276T|ATG16L1_uc002vud.3_Missense_Mutation_p.I371T	NM_030803	NP_110430	Q676U5	A16L1_HUMAN	APG16 autophagy 16-like isoform 1	455	WD 4.				autophagic vacuole assembly|protein homooligomerization|protein transport	autophagic vacuole|pre-autophagosomal structure membrane	protein binding				0		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0539)		Epithelial(121;1.53e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000379)|LUSC - Lung squamous cell carcinoma(224;0.00619)|Lung(119;0.00732)|GBM - Glioblastoma multiforme(43;0.11)		TGCAATGATATTGTCTGCACA	0.418													49	101					0	0	0.01441	0	0		C	234198933	C	C	234198933	3	2	81	1	0	0	0	0	1	0	0	0	1092	1493	52	3	1418	3	ATG16L1	2	234198933	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	11907697	234198933	9000440	17	50335											
CNTN6	27255	broad.mit.edu	37	chr3	1371584	1371584	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccagggcagctatctcttgGaaaagaggaacggagaccct	12	6	12	11	1	1	2	0	0	1	2	2	5	1	4	2	4	2	2	2	4	4	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr3:1371584G>T	uc003boz.2	+	11	1596	c.1329G>T	c.(1327-1329)TGG>TGT	p.W443C	CNTN6_uc011asj.1_Missense_Mutation_p.W371C|CNTN6_uc003bpa.2_Missense_Mutation_p.W443C	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	443	Ig-like C2-type 5.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		CTATCTCTTGGAAAAGAGGAA	0.333													8	31					1.06961e-07	1.14884e-07	0.00308	1	0		T	1371584	T	T	1371584	3	4	81	1	0	0	0	0	1	0	0	0	3648	1183	41	5	1367	5	CNTN6	3	1371584	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08		1371584	196650846	18	50336											
LRRC3B	116135	broad.mit.edu	37	chr3	26751343	26751343	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctcaaggaaatacctagAgatcttcctcctgaaacagt	15	10	6	10	0	2	2	1	1	2	1	5	4	4	3	3	1	2	0	3	1	6	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr3:26751343A>T	uc003cdp.2	+	2	769	c.180A>T	c.(178-180)AGA>AGT	p.R60S	LRRC3B_uc003cdq.2_Missense_Mutation_p.R60S	NM_052953	NP_443185	Q96PB8	LRC3B_HUMAN	leucine rich repeat containing 3B precursor	60	LRRNT.					integral to membrane				pancreas(2)|ovary(1)|skin(1)	4						AAATACCTAGAGATCTTCCTC	0.423													4	56					0	0	0.000602	0	0		T	26751343	T	T	26751343	3	4	81	1	0	0	0	0	1	0	0	0	9014	301	11	5	182	5	LRRC3B	3	26751343	Missense_Mutation	SNP	A	TCGA-BR-8588-01A-11D-2394-08	25379759	26751343	171271087	19	50337											
FEZF2	55079	broad.mit.edu	37	chr3	62358293	62358293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactgagcagtgtctttgacGgcacctcgtagcctaggggc	8	9	13	11	2	1	2	0	2	1	0	2	2	1	2	2	3	3	3	2	3	3	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr3:62358293G>A	uc003dlh.2	-	1	458	c.251C>T	c.(250-252)CCG>CTG	p.P84L	FEZF2_uc003dli.2_Missense_Mutation_p.P84L	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	84					transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		TGTCTTTGACGGCACCTCGTA	0.502													7	43					0	0	0.00308	0	0		A	62358293	A	A	62358293	3	1	81	1	0	0	0	0	1	0	0	0	5840	1116	39	1	1144	1	FEZF2	3	62358293	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	35606950	62358293	135664137	20	50338											
KIAA2018	205717	broad.mit.edu	37	chr3	113379292	113379292	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctattaatgtttttcaaatCtgaagtactaacacttgaag	14	15	6	6	0	2	2	1	2	1	0	2	2	2	2	0	0	2	3	0	0	7	7			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr3:113379292C>A	uc003eam.2	-	7	1648	c.1237G>T	c.(1237-1239)GAT>TAT	p.D413Y	KIAA2018_uc003eal.2_Missense_Mutation_p.D357Y	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	413					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						TTTTTCAAATCTGAAGTACTA	0.428													14	88					6.31663e-08	6.82666e-08	0.003163	1	0		A	113379292	A	A	113379292	3	1	81	1	0	0	0	0	1	0	0	0	8284	913	32	5	5504	5	KIAA2018	3	113379292	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	51020999	113379292	84643138	21	50339											
ZBTB20	26137	broad.mit.edu	37	chr3	114070254	114070254	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccgactccgtgtcgctgCtctggcctgacgtgcctgac	4	9	12	16	4	1	2	0	2	1	0	3	3	2	2	4	1	3	2	4	1	0	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr3:114070254C>A	uc003ebi.2	-	4	851	c.671G>T	c.(670-672)AGC>ATC	p.S224I	ZBTB20_uc003ebj.2_Missense_Mutation_p.S151I|ZBTB20_uc010hqp.2_Missense_Mutation_p.S151I|ZBTB20_uc003ebk.2_Missense_Mutation_p.S151I|ZBTB20_uc003ebl.2_Missense_Mutation_p.S151I|ZBTB20_uc003ebm.2_Missense_Mutation_p.S151I|ZBTB20_uc003ebn.2_Missense_Mutation_p.S151I|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	224				S -> G (in Ref. 1; AAG28340).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		CGTGTCGCTGCTCTGGCCTGA	0.662													15	103					7.93312e-07	8.36584e-07	0.00245	1	0		A	114070254	A	A	114070254	3	1	81	1	0	0	0	0	1	0	0	0	17554	797	28	5	1562	5	ZBTB20	3	114070254	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	690962	114070254	83952176	22	50340											
PLSCR2	57047	broad.mit.edu	37	chr3	146173071	146173071	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacagttacatcttagtggTctttccagagttatgacttc	10	15	7	9	0	2	2	0	1	2	1	4	2	3	2	1	1	2	2	1	1	4	5			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr3:146173071T>C	uc003evv.1	-	5	609	c.276A>G	c.(274-276)AGA>AGG	p.R92R	PLSCR2_uc003evw.1_Silent_p.R161R	NM_020359	NP_065092	Q9NRY7	PLS2_HUMAN	phospholipid scramblase 2	92	Cytoplasmic (By similarity).				phospholipid scrambling	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity				0						ATCTTAGTGGTCTTTCCAGAG	0.423													8	82					0	0	0.006214	0	0		C	146173071	C	C	146173071	2	2	81	1	0	0	0	0	0	0	0	1	12129	1664	58	3		3	PLSCR2	3	146173071	Silent	SNP	T	TCGA-BR-8588-01A-11D-2394-08	32102817	146173071	51849359	23	50341											
PIK3CA	5290	broad.mit.edu	37	chr3	178916944	178916944	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtaggcaaccgtgaagaaAagatcctcaatcgagaaatt	17	7	9	8	2	1	4	1	1	0	3	3	5	2	4	2	1	1	2	2	1	7	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr3:178916944A>G	uc003fjk.2	+	2	488	c.331A>G	c.(331-333)AAG>GAG	p.K111E		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	111					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.K111N(10)|p.K111E(7)|p.K111R(1)|p.K111del(1)|p.K111_I112>N(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			CCGTGAAGAAAAGATCCTCAA	0.333		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			9	69					0	0	0.008291	0	0		G	178916944	G	G	178916944	3	3	81	1	0	0	0	0	1	0	0	0	11932	15	1	3	333	3	PIK3CA	3	178916944	Missense_Mutation	SNP	A	TCGA-BR-8588-01A-11D-2394-08	32743873	178916944	19105486	24	50342											
CHRD	8646	broad.mit.edu	37	chr3	184101337	184101337	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtagggacaagcagtgaGgtggtggccatgacactgga	10	7	18	6	0	0	2	0	2	0	0	0	4	0	4	1	6	1	2	1	6	2	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr3:184101337G>A	uc003fov.2	+	12	1593	c.1347G>A	c.(1345-1347)GAG>GAA	p.E449E	CHRD_uc003fow.2_Silent_p.E79E|CHRD_uc003fox.2_Silent_p.E449E|CHRD_uc003foy.2_Silent_p.E79E|CHRD_uc010hyc.2_Intron|CHRD_uc011brr.1_Silent_p.E79E	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	449	CHRD 3.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CAAGCAGTGAGGTGGTGGCCA	0.637													10	82					0	0	0.008291	0	0		A	184101337	A	A	184101337	2	1	81	1	0	0	0	0	0	0	0	1	3375	991	35	4		4	CHRD	3	184101337	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08	5184393	184101337	13921093	25	50343											
AHSG	197	broad.mit.edu	37	chr3	186330959	186330959	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcgtcctgctcctttgtcTtgctcagctctggggctgcc	1	14	10	16	1	3	0	1	0	2	0	6	0	5	0	4	2	4	4	4	2	0	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr3:186330959T>G	uc003fqk.3	+	1	110	c.29T>G	c.(28-30)CTT>CGT	p.L10R	AHSG_uc003fqj.2_Missense_Mutation_p.L10R|AHSG_uc003fql.3_Missense_Mutation_p.L10R|AHSG_uc003fqm.3_Missense_Mutation_p.L10R|AHSG_uc010hyp.2_Missense_Mutation_p.L10R	NM_001622	NP_001613	P02765	FETUA_HUMAN	alpha-2-HS-glycoprotein	10					acute-phase response|negative regulation of bone mineralization|negative regulation of insulin receptor signaling pathway|pinocytosis|positive regulation of phagocytosis|regulation of inflammatory response|skeletal system development	extracellular space	cysteine-type endopeptidase inhibitor activity|protein binding				0	all_cancers(143;3.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.27e-20)	GBM - Glioblastoma multiforme(93;0.0463)		CTCCTTTGTCTTGCTCAGCTC	0.607													5	57					0	0	0.001168	0	0		G	186330959	G	G	186330959	3	3	81	1	0	0	0	0	1	0	0	0	420	1609	56	5	31	5	AHSG	3	186330959	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	2229622	186330959	11691471	26	50344											
KIAA1530	57654	broad.mit.edu	37	chr4	1369243	1369243	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcggaccccacctctgcGgctgctcagctgcggcagct	4	8	13	16	3	2	0	1	0	1	0	3	1	2	1	3	3	5	5	3	3	0	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr4:1369243G>A	uc003gde.3	+	9	1827	c.1380G>A	c.(1378-1380)GCG>GCA	p.A460A	KIAA1530_uc010ibv.2_Silent_p.A11A	NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	460											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			CCACCTCTGCGGCTGCTCAGC	0.657													18	104					0	0	0.00499	0	0		A	1369243	A	A	1369243	2	1	81	1	0	0	0	0	0	0	0	1	8257	1103	39	1		1	KIAA1530	4	1369243	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08		1369243	189785033	27	50345											
NOP14	8602	broad.mit.edu	37	chr4	2952857	2952857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttactttgtaggaaagcaaaCgcctgtcatctttatctagc	11	14	7	9	1	3	0	1	0	2	0	3	1	3	1	1	1	4	2	1	1	6	6	rs143842679	byFrequency	TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr4:2952857C>T	uc003ggj.1	-	7	1058	c.986G>A	c.(985-987)CGT>CAT	p.R329H	C4orf10_uc003ggi.1_Intron|NOP14_uc010icp.2_Missense_Mutation_p.R75H|NOP14_uc003ggk.3_Missense_Mutation_p.R329H|NOP14_uc003ggl.2_Missense_Mutation_p.R329H|NOP14_uc010icq.1_RNA	NM_003703	NP_003694	P78316	NOP14_HUMAN	probable nucleolar complex protein 14	329					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	mitochondrion|Noc4p-Nop14p complex|small-subunit processome	snoRNA binding			pancreas(1)	1						GGAAAGCAAACGCCTGTCATC	0.323													29	181					0	0	0.010818	0	0		T	2952857	T	T	2952857	3	4	81	1	0	0	0	0	1	0	0	0	10555	536	19	1	1635	1	NOP14	4	2952857	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	1583614	2952857	188201419	28	50346											
KIAA1211	57482	broad.mit.edu	37	chr4	57181587	57181587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctggggagaaccctccccGaggccccggcgacgcgaggg	7	2	17	15	5	0	1	0	0	0	1	1	5	1	1	5	5	2	1	5	5	1	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr4:57181587G>A	uc003hbk.2	+	8	2310	c.1919G>A	c.(1918-1920)CGA>CAA	p.R640Q	KIAA1211_uc010iha.2_Missense_Mutation_p.R633Q|KIAA1211_uc011bzz.1_Missense_Mutation_p.R550Q|KIAA1211_uc003hbm.1_Missense_Mutation_p.R526Q	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	640										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					AACCCTCCCCGAGGCCCCGGC	0.682													5	30					0	0	0.000602	0	0		A	57181587	A	A	57181587	3	1	81	1	0	0	0	0	1	0	0	0	8231	1058	37	1	1937	1	KIAA1211	4	57181587	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	54228730	57181587	133972689	29	50347											
ATOH1	474	broad.mit.edu	37	chr4	94750923	94750923	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctcagccccagcttctgcGggagggtactcggtgcagct	5	10	13	13	2	2	0	1	0	2	0	4	1	2	1	2	3	6	4	2	3	1	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr4:94750923G>A	uc003hta.1	+	1	846	c.846G>A	c.(844-846)GCG>GCA	p.A282A		NM_005172	NP_005163	Q92858	ATOH1_HUMAN	atonal homolog 1	282					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;3.57e-07)		CAGCTTCTGCGGGAGGGTACT	0.652													8	91					0	0	0.00308	0	0		A	94750923	A	A	94750923	2	1	81	1	0	0	0	0	0	0	0	1	1113	1103	39	1		1	ATOH1	4	94750923	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08	37569336	94750923	96403353	30	50348											
PRDM9	56979	broad.mit.edu	37	chr5	23510114	23510114	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacacagaagattctgatgaAgaatggacccctaggcagca	15	6	11	9	0	1	5	0	2	1	3	1	7	1	6	2	2	1	2	2	2	4	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr5:23510114A>C	uc003jgo.2	+	4	461	c.279A>C	c.(277-279)GAA>GAC	p.E93D		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	93					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						ATTCTGATGAAGAATGGACCC	0.363										HNSCC(3;0.000094)			7	43					0	0	0.001984	0	0		C	23510114	C	C	23510114	3	2	81	1	0	0	0	0	1	0	0	0	12485	69	3	5	289	5	PRDM9	5	23510114	Missense_Mutation	SNP	A	TCGA-BR-8588-01A-11D-2394-08		23510114	157405146	31	50349											
PRDM9	56979	broad.mit.edu	37	chr5	23522456	23522456	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagatgtatagcctgcgAgaaagaaagggtcatgcata	17	7	12	5	1	1	4	1	0	0	4	1	5	1	4	1	1	3	2	1	1	6	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr5:23522456A>T	uc003jgo.2	+	7	734	c.552A>T	c.(550-552)CGA>CGT	p.R184R		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	184					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						ATAGCCTGCGAGAAAGAAAGG	0.458										HNSCC(3;0.000094)			9	134					0	0	0.006214	0	0		T	23522456	T	T	23522456	2	4	81	1	0	0	0	0	0	0	0	1	12485	291	11	5		5	PRDM9	5	23522456	Silent	SNP	A	TCGA-BR-8588-01A-11D-2394-08	12342	23522456	157392804	32	50350											
OSMR	9180	broad.mit.edu	37	chr5	38876363	38876363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttccaccaattctacgcGtcagagtttgcacttacaat	11	13	6	11	2	2	1	1	0	1	1	3	1	3	1	2	0	3	3	2	0	4	5	rs147223683		TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr5:38876363G>A	uc003jln.1	+	3	501	c.134G>A	c.(133-135)CGT>CAT	p.R45H	OSMR_uc003jlm.1_Missense_Mutation_p.R45H	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	45	Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					AATTCTACGCGTCAGAGTTTG	0.358													10	61					0	0	0.008291	0	0		A	38876363	A	A	38876363	3	1	81	1	0	0	0	0	1	0	0	0	11311	1145	40	1	140	1	OSMR	5	38876363	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	15353907	38876363	142038897	33	50351											
GPR98	84059	broad.mit.edu	37	chr5	90059209	90059209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaggaggaaaaggaaccGtccgacttgagtggaccata	13	5	12	11	2	0	1	0	1	0	0	1	6	1	5	5	4	1	0	5	4	4	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr5:90059209G>A	uc003kju.2	+	59	12304	c.12208G>A	c.(12208-12210)GTC>ATC	p.V4070I	GPR98_uc003kjt.2_Missense_Mutation_p.V1776I	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	4070	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AAAAGGAACCGTCCGACTTGA	0.443													6	42					0	0	0.001168	0	0		A	90059209	A	A	90059209	3	1	81	1	0	0	0	0	1	0	0	0	6737	1145	40	1	12442	1	GPR98	5	90059209	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	51182846	90059209	90856051	34	50352											
PCDHA3	56145	broad.mit.edu	37	chr5	140182233	140182233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgcgcgggacgcggacgCgcaggagaacgccctggtgt	6	5	18	12	7	1	1	0	0	1	1	1	4	1	3	1	4	2	1	1	4	1	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr5:140182233C>T	uc003lhf.2	+	1	1451	c.1451C>T	c.(1450-1452)GCG>GTG	p.A484V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.A484V	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	484	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGCGGACGCGCAGGAGAAC	0.667													33	181					0	0	0.005524	0	0		T	140182233	T	T	140182233	3	4	81	1	0	0	0	0	1	0	0	0	11544	768	27	1	1453	1	PCDHA3	5	140182233	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	50123024	140182233	40733027	35	50353											
PCDHA3	56145	broad.mit.edu	37	chr5	140183035	140183035	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggggagctggtcatactcGcagcagaggcagcagagggt	9	6	18	8	1	1	2	1	0	0	2	2	3	1	3	0	5	4	5	0	5	1	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr5:140183035G>A	uc003lhf.2	+	1	2253	c.2253G>A	c.(2251-2253)TCG>TCA	p.S751S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.S751S	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	751	Cytoplasmic (Potential).|6 X 4 AA repeats of P-X-X-P.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTCATACTCGCAGCAGAGGC	0.637													24	138					0	0	0.00333	0	0		A	140183035	A	A	140183035	2	1	81	1	0	0	0	0	0	0	0	1	11544	1074	38	1		1	PCDHA3	5	140183035	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08	802	140183035	40732225	36	50354											
ARHGEF37	389337	broad.mit.edu	37	chr5	148977438	148977438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatcagaggctggctgtcCgggagctcatcgacactgag	8	9	13	11	2	3	2	3	1	0	1	5	4	4	3	1	3	1	3	1	3	0	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr5:148977438C>T	uc003lra.1	+	2	170	c.106C>T	c.(106-108)CGG>TGG	p.R36W		NM_001001669	NP_001001669	A1IGU5	ARH37_HUMAN	hypothetical protein LOC389337	36	DH.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0						GCTGGCTGTCCGGGAGCTCAT	0.612													7	28					0	0	0.001984	0	0		T	148977438	T	T	148977438	3	4	81	1	0	0	0	0	1	0	0	0	906	643	23	1	108	1	ARHGEF37	5	148977438	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	8794403	148977438	31937822	37	50355											
FAT2	2196	broad.mit.edu	37	chr5	150901562	150901562	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaagatctccagtgggagaGcagaaggtgcatagtggctc	11	8	15	7	0	1	4	0	1	1	3	3	5	1	4	1	3	2	3	1	3	3	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr5:150901562G>T	uc003lue.3	-	18	10605	c.10592C>A	c.(10591-10593)GCT>GAT	p.A3531D	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.A224D	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3531	Extracellular (Potential).|Cadherin 31.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CAGTGGGAGAGCAGAAGGTGC	0.567													6	40					0.00198382	0.00199529	0.001984	1	0		T	150901562	T	T	150901562	3	4	81	1	0	0	0	0	1	0	0	0	5704	971	34	5	2481	5	FAT2	5	150901562	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	1924124	150901562	30013698	38	50356											
KIF4B	285643	broad.mit.edu	37	chr5	154395311	154395311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actaaaggaatccacagagcGtactgtctccaagctgaacc	14	7	8	12	1	1	2	0	1	1	1	3	3	2	3	3	1	4	2	3	1	6	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr5:154395311G>A	uc010jih.1	+	1	2052	c.1892G>A	c.(1891-1893)CGT>CAT	p.R631H		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	631	Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TCCACAGAGCGTACTGTCTCC	0.443													19	140					0	0	0.008871	0	0		A	154395311	A	A	154395311	3	1	81	1	0	0	0	0	1	0	0	0	8320	1145	40	1	1894	1	KIF4B	5	154395311	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	3493749	154395311	26519949	39	50357											
C5orf41	153222	broad.mit.edu	37	chr5	172517427	172517427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agatgtcctggataatgaggGtgctttaacctcaaactggg	11	11	12	7	0	1	2	1	1	0	1	2	3	2	3	2	3	3	1	2	3	3	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr5:172517427G>A	uc003mch.2	+	4	549	c.245G>A	c.(244-246)GGT>GAT	p.G82D	C5orf41_uc003mcg.2_Missense_Mutation_p.G82D|C5orf41_uc003mcf.2_Missense_Mutation_p.G82D|C5orf41_uc011dfd.1_Missense_Mutation_p.G82D	NM_153607	NP_705835	Q8IUR6	CE041_HUMAN	luman-recruiting factor	82							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GATAATGAGGGTGCTTTAACC	0.413													11	59					0	0	0.008291	0	0		A	172517427	A	A	172517427	3	1	81	1	0	0	0	0	1	0	0	0	2303	1261	44	4	255	4	C5orf41	5	172517427	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	18122116	172517427	8397833	40	50358											
FLT4	2324	broad.mit.edu	37	chr5	180056397	180056397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgggtctgctgggagcGtcgctcgggcacccacttac	4	10	15	12	3	1	0	0	0	1	0	3	1	1	1	1	3	3	3	1	3	1	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr5:180056397G>A	uc003mma.3	-	7	926	c.847C>T	c.(847-849)CGC>TGC	p.R283C	FLT4_uc003mlz.3_Missense_Mutation_p.R283C|FLT4_uc003mmb.1_Translation_Start_Site|FLT4_uc011dgy.1_Missense_Mutation_p.R283C|FLT4_uc011dgz.1_Intron	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	283	Ig-like C2-type 3.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	TGCTGGGAGCGTCGCTCGGGC	0.657									Congenital_Hereditary_Lymphedema				11	42					0	0	0.013537	0	0		A	180056397	A	A	180056397	3	1	81	1	0	0	0	0	1	0	0	0	5958	1145	40	1	3348	1	FLT4	5	180056397	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	7538970	180056397	858863	41	50359											
SYCP2L	221711	broad.mit.edu	37	chr6	10894339	10894339	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aactagataaaaatgaatttCagtctgtgtcactgttgctg	13	14	8	6	0	3	2	2	1	1	1	3	2	3	2	0	0	2	2	0	0	6	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr6:10894339C>T	uc003mzo.2	+	4	534	c.238C>T	c.(238-240)CAG>TAG	p.Q80*	SYCP2L_uc011dim.1_RNA	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	80						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			AAATGAATTTCAGTCTGTGTC	0.363													15	61					0	0	0.003163	0	0		T	10894339	T	T	10894339	4	4	81	1	0	0	0	0	0	1	0	0	15458	827	29	4	252	4	SYCP2L	6	10894339	Nonsense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08		10894339	160220728	42	50360											
HIST1H2BC	8347	broad.mit.edu	37	chr6	26123998	26123998	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgggatggacctgtttcagCaccttgtacacgtacacaga	10	10	10	11	2	1	1	1	0	0	1	2	3	1	3	2	2	3	4	2	2	2	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr6:26123998C>A	uc003ngk.3	-	1	157	c.135G>T	c.(133-135)GTG>GTT	p.V45V	HIST1H2BC_uc003ngl.2_Silent_p.V45V|HIST1H2AC_uc003ngm.2_5'Flank|HIST1H2AC_uc003ngn.2_5'Flank|HIST1H2AC_uc003ngo.2_5'Flank|HIST1H2AC_uc003ngp.2_5'Flank	NM_003526	NP_003517	P62807	H2B1C_HUMAN	histone cluster 1, H2bc	45					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			ovary(1)	1						CCTGTTTCAGCACCTTGTACA	0.527													25	232					4.4004e-07	4.66872e-07	0.00333	1	0		A	26123998	A	A	26123998	2	1	81	1	0	0	0	0	0	0	0	1	7158	697	25	5		5	HIST1H2BC	6	26123998	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08	15229659	26123998	144991069	43	50361											
HSPA1L	3305	broad.mit.edu	37	chr6	31778313	31778313	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccattggcatcaatgtcaaaCgtcacctcgatctgaggaac	12	9	8	12	2	4	1	3	1	1	0	5	3	4	2	2	2	2	1	2	2	3	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr6:31778313C>T	uc003nxh.2	-	2	1620	c.1437G>A	c.(1435-1437)ACG>ACA	p.T479T	HSPA1L_uc010jte.2_Silent_p.T479T	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	479					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						CAATGTCAAACGTCACCTCGA	0.552													15	120					0	0	0.003163	0	0		T	31778313	T	T	31778313	2	4	81	1	0	0	0	0	0	0	0	1	7426	523	19	1		1	HSPA1L	6	31778313	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08	5654315	31778313	139336754	44	50362											
TNXB	7148	broad.mit.edu	37	chr6	32010312	32010312	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgttgaggaagatggtgcTggtcctggaggcaccggctc	6	8	17	10	2	0	2	0	1	0	1	2	4	1	4	3	6	1	4	3	6	1	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr6:32010312T>C	uc003nzl.2	-	40	12326	c.12124A>G	c.(12124-12126)AGC>GGC	p.S4042G	TNXB_uc003nzg.1_Missense_Mutation_p.S473G|TNXB_uc003nzh.1_Missense_Mutation_p.S511G	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	4089	Fibrinogen C-terminal.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						AAGATGGTGCTGGTCCTGGAG	0.662													4	44					0	0	0.000602	0	0		C	32010312	C	C	32010312	3	2	81	1	0	0	0	0	1	0	0	0	16371	1580	55	3	2609	3	TNXB	6	32010312	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	231999	32010312	139104755	45	50363											
COL11A2	1302	broad.mit.edu	37	chr6	33136332	33136332	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgggggtccattctccccGgtgggaccaggggatcccta	5	8	14	14	1	1	0	0	0	1	0	4	2	3	2	6	6	0	0	6	6	1	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr6:33136332G>A	uc003ocx.1	-	54	4152	c.3924C>T	c.(3922-3924)ACC>ACT	p.T1308T	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Silent_p.T1222T|COL11A2_uc003ocz.1_Silent_p.T1201T	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1308	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						CATTCTCCCCGGTGGGACCAG	0.627													7	41					0	0	0.004482	0	0		A	33136332	A	A	33136332	2	1	81	1	0	0	0	0	0	0	0	1	3671	1103	39	1		1	COL11A2	6	33136332	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08	1126020	33136332	137978735	46	50364											
C6orf138	442213	broad.mit.edu	37	chr6	48036017	48036017	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggatcccctcagcctggagCaaaatattgtccccggttgg	9	9	11	12	1	1	0	1	0	0	0	3	2	3	2	5	4	2	2	5	4	3	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr6:48036017C>A	uc011dwm.1	-	1	409	c.324G>T	c.(322-324)TTG>TTT	p.L108F	C6orf138_uc011dwn.1_Intron|C6orf138_uc003ozf.2_Missense_Mutation_p.L125F	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	125						integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						CAGCCTGGAGCAAAATATTGT	0.537													19	109					2.4624e-09	2.6947e-09	0.008871	1	0		A	48036017	A	A	48036017	3	1	81	1	0	0	0	0	1	0	0	0	2335	709	25	5	2177	5	C6orf138	6	48036017	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	14899685	48036017	123079050	47	50365											
HMGCLL1	54511	broad.mit.edu	37	chr6	55304324	55304324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagggcagccacctaatcCggatactgcggagtccacca	12	6	10	13	2	0	0	0	0	0	0	2	2	2	2	5	3	3	1	5	3	3	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr6:55304324C>T	uc003pcn.2	-	9	1078	c.919G>A	c.(919-921)GGA>AGA	p.G307R	HMGCLL1_uc003pco.2_Missense_Mutation_p.G277R|HMGCLL1_uc010jzx.2_Missense_Mutation_p.G178R|HMGCLL1_uc011dxc.1_Missense_Mutation_p.G245R|HMGCLL1_uc011dxd.1_Missense_Mutation_p.G174R|HMGCLL1_uc011dxe.1_Missense_Mutation_p.G111R	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	307							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			CCACCTAATCCGGATACTGCG	0.418													12	88					0	0	0.001855	0	0		T	55304324	T	T	55304324	3	4	81	1	0	0	0	0	1	0	0	0	7246	661	23	1	201	1	HMGCLL1	6	55304324	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	7268307	55304324	115810743	48	50366											
C6orf174	387104	broad.mit.edu	37	chr6	127796968	127796968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcgaggccaggtcgtagcGctgcatgttggacataagca	9	8	15	9	3	0	0	0	0	0	0	1	2	0	1	1	3	4	5	1	3	2	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr6:127796968G>A	uc003qbd.2	-	6	3068	c.2203C>T	c.(2203-2205)CGC>TGC	p.R735C	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	735						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		AGGTCGTAGCGCTGCATGTTG	0.677													25	134					0	0	0.003954	0	0		A	127796968	A	A	127796968	3	1	81	1	0	0	0	0	1	0	0	0	2348	1087	38	1	648	1	C6orf174	6	127796968	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	72492644	127796968	43318099	49	50367											
HIVEP2	3097	broad.mit.edu	37	chr6	143090937	143090937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaagaagcaccaactcaCagtagttgttgtccgcagac	13	9	8	11	1	2	2	2	0	0	2	3	2	3	2	2	0	2	5	2	0	4	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr6:143090937C>T	uc003qjd.2	-	5	5682	c.4939G>A	c.(4939-4941)GTG>ATG	p.V1647M		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1647					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CACCAACTCACAGTAGTTGTT	0.478													13	76					0	0	0.00245	0	0		T	143090937	T	T	143090937	3	4	81	1	0	0	0	0	1	0	0	0	7203	478	17	4	2425	4	HIVEP2	6	143090937	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	15293969	143090937	28024130	50	50368											
TTLL2	83887	broad.mit.edu	37	chr6	167753692	167753692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccggctgtggtgcaaagcGtcctcctggagagggggtgg	5	7	18	11	2	0	1	0	0	0	1	2	2	2	1	4	6	2	2	4	6	1	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr6:167753692G>A	uc003qvs.1	+	3	392	c.304G>A	c.(304-306)GTC>ATC	p.V102I	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	102	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GGTGCAAAGCGTCCTCCTGGA	0.542													23	40					0	0	0.00333	0	0		A	167753692	A	A	167753692	3	1	81	1	0	0	0	0	1	0	0	0	16753	1145	40	1	314	1	TTLL2	6	167753692	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	24662755	167753692	3361375	51	50369											
PDE1C	5137	broad.mit.edu	37	chr7	31862790	31862790	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagatgacagaattgttgatCggggcacttccctctgaacc	10	10	11	10	1	1	5	0	3	1	2	3	6	2	5	2	2	1	2	2	2	2	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr7:31862790C>T	uc003tcm.1	-	14	1948	c.1479G>A	c.(1477-1479)CCG>CCA	p.P493P	PDE1C_uc003tcn.1_Silent_p.P493P|PDE1C_uc003tco.1_Silent_p.P553P|PDE1C_uc003tcr.2_Silent_p.P493P|PDE1C_uc003tcs.2_Silent_p.P493P	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	493	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			AATTGTTGATCGGGGCACTTC	0.468													5	91					0	0	0.001168	0	0		T	31862790	T	T	31862790	2	4	81	1	0	0	0	0	0	0	0	1	11654	871	31	1		1	PDE1C	7	31862790	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08		31862790	127275873	52	50370											
GLI3	2737	broad.mit.edu	37	chr7	42007484	42007484	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgggggactgttggctgCtgcatgaagactgaccacca	9	9	14	9	0	0	4	0	3	0	1	0	5	0	5	2	3	2	4	2	3	1	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr7:42007484C>A	uc011kbh.1	-	14	2232	c.2141G>T	c.(2140-2142)AGC>ATC	p.S714I	GLI3_uc011kbg.1_Missense_Mutation_p.S655I	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	714					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CTGTTGGCTGCTGCATGAAGA	0.532									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				25	135					4.26978e-12	4.76244e-12	0.00333	1	0		A	42007484	A	A	42007484	3	1	81	1	0	0	0	0	1	0	0	0	6454	797	28	5	2609	5	GLI3	7	42007484	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	10144694	42007484	117131179	53	50371											
HECW1	23072	broad.mit.edu	37	chr7	43503377	43503377	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggagtgactcagaagccGaatcttcccagtccagctta	11	8	11	11	1	2	2	1	1	1	1	4	5	4	3	3	1	2	1	3	1	3	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr7:43503377G>T	uc003tid.1	+	14	3375	c.2770G>T	c.(2770-2772)GAA>TAA	p.E924*	HECW1_uc011kbi.1_Nonsense_Mutation_p.E890*	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	924					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CTCAGAAGCCGAATCTTCCCA	0.587													14	164					1.5739e-10	1.73328e-10	0.004007	1	0		T	43503377	T	T	43503377	4	4	81	1	0	0	0	0	0	1	0	0	7058	1059	37	5	2816	5	HECW1	7	43503377	Nonsense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	1495893	43503377	115635286	54	50372											
MYO1G	64005	broad.mit.edu	37	chr7	45005235	45005235	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtggtgggctgagagtagtaCctgcagaagagtgcgtggca	9	8	18	6	1	0	3	0	1	0	3	0	4	0	3	1	3	3	5	1	3	3	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr7:45005235C>A	uc003tmh.2	-	17	2525	c.2381_splice	c.e17+1	p.R794_splice	MYO1G_uc003tmf.2_Splice_Site_p.R237_splice|MYO1G_uc003tmg.2_Splice_Site_p.R556_splice|MYO1G_uc010kym.2_Splice_Site_p.R679_splice	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG							myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						GAGAGTAGTACCTGCAGAAGA	0.607													14	73					1.3612e-06	1.4268e-06	0.003163	1	0		A	45005235	A	A	45005235	5	1	81	1	0	0	0	0	0	0	1	0	10092	521	18	5	698	5	MYO1G	7	45005235	Splice_Site	SNP	C	TCGA-BR-8588-01A-11D-2394-08	1501858	45005235	114133428	55	50373											
SMO	6608	broad.mit.edu	37	chr7	128845479	128845479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtggctgactggcggaactCgaatcgctaccctgctgtta	7	10	12	12	4	0	1	0	1	0	0	2	3	0	2	1	3	3	4	1	3	4	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr7:128845479C>T	uc003vor.2	+	4	1056	c.776C>T	c.(775-777)TCG>TTG	p.S259L	SMO_uc003vos.2_5'Flank	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	259	Cytoplasmic (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						TGGCGGAACTCGAATCGCTAC	0.547			Mis		skin basal cell 								14	111					0	0	0.00245	0	0		T	128845479	T	T	128845479	3	4	81	1	0	0	0	0	1	0	0	0	14825	893	31	1	790	1	SMO	7	128845479	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	83840244	128845479	30293184	56	50374											
LOXL2	4017	broad.mit.edu	37	chr8	23225708	23225708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcagctgaatcttggccaCgttggcgggggcctggggct	4	8	18	11	3	1	1	0	1	1	0	1	1	1	1	2	6	1	4	2	6	1	2	rs138503568	byFrequency	TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr8:23225708C>T	uc003xdh.1	-	2	496	c.157G>A	c.(157-159)GTG>ATG	p.V53M		NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	53					aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity	p.Q48_A54delQAPANVA(1)|p.Q48_A54del(1)		breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		ATCTTGGCCACGTTGGCGGGG	0.642													12	73					0	0	0.013537	0	0		T	23225708	T	T	23225708	3	4	81	1	0	0	0	0	1	0	0	0	8918	536	19	1	2219	1	LOXL2	8	23225708	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08		23225708	123138314	57	50375											
MMP16	4325	broad.mit.edu	37	chr8	89209420	89209420	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccacttttcctgtcatgTtaatgccatagaactgctgc	8	15	7	11	0	1	1	1	0	0	1	3	1	3	1	3	0	4	2	3	0	3	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr8:89209420T>G	uc003yeb.3	-	2	530	c.248A>C	c.(247-249)AAC>ACC	p.N83T	MMP16_uc003yec.2_Missense_Mutation_p.N83T	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	83					collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						TCCTGTCATGTTAATGCCATA	0.483													8	45					0	0	0.00308	0	0		G	89209420	G	G	89209420	3	3	81	1	0	0	0	0	1	0	0	0	9673	1725	60	5	1767	5	MMP16	8	89209420	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	65983712	89209420	57154602	58	50376											
RNF19A	25897	broad.mit.edu	37	chr8	101300277	101300277	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagaggactgaagatcTcgatctgaacccatttgccg	12	8	11	10	2	2	4	0	2	2	2	3	7	2	5	2	1	3	1	2	1	3	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr8:101300277T>A	uc003yjj.1	-	3	443	c.126A>T	c.(124-126)CGA>CGT	p.R42R	RNF19A_uc003yjk.1_Silent_p.R42R|RNF19A_uc003yjl.1_Silent_p.R42R	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	42					microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)			ACTGAAGATCTCGATCTGAAC	0.408													21	48					0	0	0.012319	0	0		A	101300277	A	A	101300277	2	1	81	1	0	0	0	0	0	0	0	1	13495	1538	54	5		5	RNF19A	8	101300277	Silent	SNP	T	TCGA-BR-8588-01A-11D-2394-08	12090857	101300277	45063745	59	50377											
CSMD3	114788	broad.mit.edu	37	chr8	113933924	113933924	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccgttgacaggtgatgctcTttgcgccctgtaggacataa	8	12	11	10	2	1	2	0	2	1	0	2	3	2	3	2	2	2	3	2	2	2	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr8:113933924T>C	uc003ynu.2	-	10	1724	c.1565A>G	c.(1564-1566)AAG>AGG	p.K522R	CSMD3_uc003ynt.2_Missense_Mutation_p.K482R|CSMD3_uc011lhx.1_Missense_Mutation_p.K418R	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	522	Extracellular (Potential).|Sushi 2.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GGTGATGCTCTTTGCGCCCTG	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			19	73					0	0	0.008871	0	0		C	113933924	C	C	113933924	3	2	81	1	0	0	0	0	1	0	0	0	3949	1609	56	3	9806	3	CSMD3	8	113933924	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	12633647	113933924	32430098	60	50378											
FAM75A6	389730	broad.mit.edu	37	chr9	43626720	43626720	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtccctctctagctggaacTtcaccttctgtgcctccttg	4	14	8	15	0	3	0	1	0	2	0	6	1	5	1	4	2	3	1	4	2	2	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr9:43626720T>G	uc011lrb.1	-	4	1996	c.1967A>C	c.(1966-1968)AAG>ACG	p.K656T		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	656						integral to membrane					0						TAGCTGGAACTTCACCTTCTG	0.562													28	265					0	0	0.010818	0	0		G	43626720	G	G	43626720	3	3	81	1	0	0	0	0	1	0	0	0	5636	1609	56	5	2068	5	FAM75A6	9	43626720	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08		43626720	97586711	61	50379											
ADAMTSL2	9719	broad.mit.edu	37	chr9	136409627	136409627	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacatcccggctggtgccCgagacatccagattgtagag	9	7	11	14	2	0	3	0	0	0	3	2	4	2	3	4	2	1	2	4	2	1	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr9:136409627C>T	uc011mdl.1	+	8	1275	c.718C>T	c.(718-720)CGA>TGA	p.R240*	ADAMTSL2_uc004cei.2_Nonsense_Mutation_p.R240*	NM_001145320	NP_001138792	Q86TH1	ATL2_HUMAN	ADAMTS-like 2 precursor	240					negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;9.31e-08)|Epithelial(140;6.62e-07)|all cancers(34;7.74e-06)		GGCTGGTGCCCGAGACATCCA	0.577													19	108					0	0	0.008871	0	0		T	136409627	T	T	136409627	4	4	81	1	0	0	0	0	0	1	0	0	275	644	23	1	744	1	ADAMTSL2	9	136409627	Nonsense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	92782907	136409627	4803804	62	50380											
OLFM1	10439	broad.mit.edu	37	chr9	138012012	138012012	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttccacgtcatccgctcCgacgagttgtagctccctcc	5	11	7	18	4	2	0	1	0	1	0	7	2	7	0	5	0	1	4	5	0	1	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr9:138012012C>T	uc010nar.2	+	6	1762	c.1446C>T	c.(1444-1446)TCC>TCT	p.S482S	OLFM1_uc004cfl.3_Silent_p.S464S|OLFM1_uc004cfn.3_Silent_p.S233S	NM_014279	NP_055094	Q99784	NOE1_HUMAN	olfactomedin related ER localized protein	482	Prevents secretion from ER (Potential).				nervous system development	endoplasmic reticulum lumen	protein binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(178;0.0333)		Epithelial(140;5.49e-08)|OV - Ovarian serous cystadenocarcinoma(145;9.68e-08)|all cancers(34;1.88e-07)		TCATCCGCTCCGACGAGTTGT	0.557													6	86					0	0	0.001984	0	0		T	138012012	T	T	138012012	2	4	81	1	0	0	0	0	0	0	0	1	10871	639	23	1		1	OLFM1	9	138012012	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08	1602385	138012012	3201419	63	50381											
CHST3	9469	broad.mit.edu	37	chr10	73767375	73767375	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgacgtgctcaagcagctcTtcctgtgcgacctgtacgtg	6	10	12	13	4	2	0	1	0	1	0	3	2	3	0	2	0	5	4	2	0	2	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr10:73767375T>A	uc001jsn.2	+	3	1026	c.586T>A	c.(586-588)TTC>ATC	p.F196I		NM_004273	NP_004264	Q7LGC8	CHST3_HUMAN	chondroitin 6-sulfotransferase 3	196	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity				0						CAAGCAGCTCTTCCTGTGCGA	0.682													3	24					0	0	0.004672	0	0		A	73767375	A	A	73767375	3	1	81	1	0	0	0	0	1	0	0	0	3408	1609	56	5	592	5	CHST3	10	73767375	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08		73767375	61767372	64	50382											
ACTR1A	10121	broad.mit.edu	37	chr10	104244121	104244121	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaccacccctgtggtcctGcctgtagcgtaactgaagca	9	8	10	14	1	0	1	0	1	0	0	1	1	1	1	5	1	5	4	5	1	3	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr10:104244121G>T	uc001kvv.2	-	6	561	c.453C>A	c.(451-453)GGC>GGA	p.G151G	ACTR1A_uc010qqn.1_Silent_p.G77G|ACTR1A_uc010qqo.1_Silent_p.G104G	NM_005736	NP_005727	P61163	ACTZ_HUMAN	ARP1 actin-related protein 1 homolog A,	151					G2/M transition of mitotic cell cycle|vesicle-mediated transport	centrosome|cytosol|dynactin complex	ATP binding			central_nervous_system(1)	1		Colorectal(252;0.122)		Epithelial(162;5.34e-09)|all cancers(201;1.43e-07)|BRCA - Breast invasive adenocarcinoma(275;0.222)		CTGTGGTCCTGCCTGTAGCGT	0.537													6	55					8.12818e-05	8.31944e-05	0.001984	1	0		T	104244121	T	T	104244121	2	4	81	1	0	0	0	0	0	0	0	1	209	1306	46	5		5	ACTR1A	10	104244121	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08	30476746	104244121	31290626	65	50383											
CPXM2	119587	broad.mit.edu	37	chr10	125539751	125539751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtcatctcgttccggcGgtgataataattattaggat	9	14	12	6	3	2	1	1	1	1	0	4	2	3	2	1	5	0	1	1	5	4	5	rs145723018		TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr10:125539751G>A	uc001lhk.1	-	7	1235	c.910C>T	c.(910-912)CGC>TGC	p.R304C	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	304					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		TCGTTCCGGCGGTGATAATAA	0.453													13	96					0	0	0.004007	0	0		A	125539751	A	A	125539751	3	1	81	1	0	0	0	0	1	0	0	0	3841	1116	39	1	1392	1	CPXM2	10	125539751	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	21295630	125539751	9994996	66	50384											
OR51A7	119687	broad.mit.edu	37	chr11	4929383	4929383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaccctggctgccatgcatCactttgccaagcacaaaagc	11	8	7	15	0	2	0	2	0	0	0	2	0	2	0	3	1	5	3	3	1	3	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr11:4929383C>T	uc010qyq.1	+	1	784	c.784C>T	c.(784-786)CAC>TAC	p.H262Y		NM_001004749	NP_001004749	Q8NH64	O51A7_HUMAN	olfactory receptor, family 51, subfamily A,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		TGCCATGCATCACTTTGCCAA	0.488													20	170					0	0	0.012319	0	0		T	4929383	T	T	4929383	3	4	81	1	0	0	0	0	1	0	0	0	11107	826	29	4	786	4	OR51A7	11	4929383	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08		4929383	130077133	67	50385											
OR5M3	219482	broad.mit.edu	37	chr11	56237908	56237908	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagatgatgaagaagagaacTtgccattctcgacggctcgt	13	9	11	8	3	1	5	0	2	1	3	3	7	1	5	1	1	2	1	1	1	4	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr11:56237908T>G	uc010rjk.1	-	1	66	c.66A>C	c.(64-66)CAA>CAC	p.Q22H		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AGAAGAGAACTTGCCATTCTC	0.418													10	86					0	0	0.008291	0	0		G	56237908	G	G	56237908	3	3	81	1	0	0	0	0	1	0	0	0	11194	1606	56	5	859	5	OR5M3	11	56237908	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	51308525	56237908	78768608	68	50386											
SF3B2	10992	broad.mit.edu	37	chr11	65825873	65825873	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagtgtccgtatctaaaaaGgaggtagggattggagctga	13	9	14	5	1	1	1	0	1	1	0	2	4	2	4	1	4	1	3	1	4	5	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr11:65825873G>T	uc001ogy.1	+	9	1003	c.963G>T	c.(961-963)AAG>AAT	p.K321N		NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	321					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						TATCTAAAAAGGAGGTAGGGA	0.463													14	75					9.31168e-06	9.64424e-06	0.001855	1	0		T	65825873	T	T	65825873	3	4	81	1	0	0	0	0	1	0	0	0	14176	991	35	5	997	5	SF3B2	11	65825873	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	9587965	65825873	69180643	69	50387											
DLG2	1740	broad.mit.edu	37	chr11	84996396	84996396	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttagcaatgtcacctcataAaattcttggatatctgtaaa	14	15	5	7	0	4	0	2	0	2	0	4	1	4	1	1	1	1	2	1	1	7	7			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr11:84996396A>C	uc001pak.2	-	4	366	c.54T>G	c.(52-54)TTT>TTG	p.F18L		NM_001142699	NP_001136171	Q15700	DLG2_HUMAN	chapsyn-110 isoform 1	Error:Variant_position_missing_in_Q15700_after_alignment						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				TCACCTCATAAAATTCTTGGA	0.333													9	69					0	0	0.004482	0	0		C	84996396	C	C	84996396	3	2	81	1	0	0	0	0	1	0	0	0	4561	11	1	5	3178	5	DLG2	11	84996396	Missense_Mutation	SNP	A	TCGA-BR-8588-01A-11D-2394-08	19170523	84996396	50010120	70	50388											
GUCY1A2	2977	broad.mit.edu	37	chr11	106888532	106888532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgagtccaggttgacccGcctccggcgctgcaccctcc	5	6	11	19	4	0	1	0	1	0	0	3	2	3	1	6	2	2	3	6	2	0	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr11:106888532G>A	uc001pjg.1	-	1	640	c.250C>T	c.(250-252)CGG>TGG	p.R84W	GUCY1A2_uc010rvo.1_Missense_Mutation_p.R84W|GUCY1A2_uc009yxn.1_Missense_Mutation_p.R84W	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	84					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		AGGTTGACCCGCCTCCGGCGC	0.483													4	12					0	0	0.000602	0	0		A	106888532	A	A	106888532	3	1	81	1	0	0	0	0	1	0	0	0	6909	1086	38	1	1980	1	GUCY1A2	11	106888532	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	21892136	106888532	28117984	71	50389											
C11orf87	399947	broad.mit.edu	37	chr11	109294782	109294782	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccgggactctcccttctgCgccccttccaacgcctcgtc	3	9	7	22	4	2	0	0	0	2	0	6	1	3	1	7	1	2	0	7	1	1	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr11:109294782C>T	uc001pkn.2	+	2	797	c.423C>T	c.(421-423)TGC>TGT	p.C141C	C11orf87_uc010rwb.1_5'Flank	NM_207645	NP_997528	Q6NUJ2	CK087_HUMAN	hypothetical protein LOC399947 precursor	141	Cytoplasmic (Potential).					integral to membrane				ovary(2)	2						CTCCCTTCTGCGCCCCTTCCA	0.721													13	124					0	0	0.013537	0	0		T	109294782	T	T	109294782	2	4	81	1	0	0	0	0	0	0	0	1	1672	776	27	1		1	C11orf87	11	109294782	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08	2406250	109294782	25711734	72	50390											
SIK3	23387	broad.mit.edu	37	chr11	116734447	116734447	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtgagctttgaaggcctgGatgctcgcagccccatctga	8	9	13	11	1	1	3	0	3	1	0	2	4	1	4	3	3	3	3	3	3	1	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr11:116734447G>T	uc001ppy.2	-	15	1758	c.1722C>A	c.(1720-1722)ATC>ATA	p.I574I	SIK3_uc001ppz.2_Silent_p.I473I|SIK3_uc001pqa.2_Silent_p.I574I|SIK3_uc001ppw.2_5'UTR|SIK3_uc001ppx.2_Missense_Mutation_p.S49Y|SIK3_uc001pqb.2_5'Flank	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	574						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						TGAAGGCCTGGATGCTCGCAG	0.552													25	165					2.52088e-20	2.86688e-20	0.00278	1	0		T	116734447	T	T	116734447	2	4	81	1	0	0	0	0	0	0	0	1	14344	1164	41	5		5	SIK3	11	116734447	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08	7439665	116734447	18272069	73	50391											
OR8G2	26492	broad.mit.edu	37	chr11	124095807	124095807	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacggcatatgaccgctatgTtgccatctgcagccccttgc	8	10	9	14	2	1	1	0	1	1	0	1	1	1	1	4	1	5	4	4	1	3	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr11:124095807T>G	uc010saf.1	+	1	410	c.410T>G	c.(409-411)GTT>GGT	p.V137G		NM_001007249	NP_001007250	Q15614	OR8G2_HUMAN	olfactory receptor, family 8, subfamily G,	137						integral to membrane	olfactory receptor activity				0		Breast(109;0.0157)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.91e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		GACCGCTATGTTGCCATCTGC	0.458													25	187					0	0	0.003954	0	0		G	124095807	G	G	124095807	3	3	81	1	0	0	0	0	1	0	0	0	11254	1725	60	5	412	5	OR8G2	11	124095807	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	7361360	124095807	10910709	74	50392											
RPUSD4	84881	broad.mit.edu	37	chr11	126075385	126075385	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgatgggctggagctccacGagggcggaggagagagtgct	8	6	20	7	2	0	2	0	1	0	1	1	7	1	5	1	5	2	3	1	5	0	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr11:126075385G>A	uc001qde.2	-	5	828	c.774C>T	c.(772-774)CTC>CTT	p.L258L	RPUSD4_uc010sbl.1_Silent_p.L65L|RPUSD4_uc009zbz.2_Silent_p.L227L|RPUSD4_uc009zby.2_RNA	NM_032795	NP_116184	Q96CM3	RUSD4_HUMAN	RNA pseudouridylate synthase domain containing 4	258					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			breast(1)	1	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0761)		GGAGCTCCACGAGGGCGGAGG	0.577													6	72					0	0	0.001168	0	0		A	126075385	A	A	126075385	2	1	81	1	0	0	0	0	0	0	0	1	13694	1045	37	1		1	RPUSD4	11	126075385	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08	1979578	126075385	8931131	75	50393											
KCNA1	3736	broad.mit.edu	37	chr12	5021222	5021222	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccttcttcatcgtggaaacGctgtgtatcatctggttctc	6	15	8	12	2	5	0	2	0	3	0	7	1	5	1	1	2	1	3	1	2	2	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr12:5021222G>A	uc001qnh.2	+	2	1783	c.678G>A	c.(676-678)ACG>ACA	p.T226T		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	226	Helical; Name=Segment S2; (Potential).		T -> M (in EA1).|T -> A (in EA1).		synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TCGTGGAAACGCTGTGTATCA	0.507													14	81					0	0	0.00245	0	0		A	5021222	A	A	5021222	2	1	81	1	0	0	0	0	0	0	0	1	8017	1074	38	1		1	KCNA1	12	5021222	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08		5021222	128830673	76	50394											
CLEC4D	338339	broad.mit.edu	37	chr12	8672848	8672848	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attattcagtttctggatagAcggctttcctatttccttgg	7	18	8	8	1	2	1	1	0	1	1	4	2	4	2	2	3	0	2	2	3	3	8	rs138110414	byFrequency	TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr12:8672848A>G	uc001qun.2	+	5	604	c.411A>G	c.(409-411)AGA>AGG	p.R137R		NM_080387	NP_525126	Q8WXI8	CLC4D_HUMAN	C-type lectin domain family 4, member D	137	C-type lectin.|Extracellular (Potential).				innate immune response	integral to membrane	sugar binding				0	Lung SC(5;0.184)					TTCTGGATAGACGGCTTTCCT	0.383													6	61					0	0	0.001984	0	0		G	8672848	G	G	8672848	2	3	81	1	0	0	0	0	0	0	0	1	3517	272	10	3		3	CLEC4D	12	8672848	Silent	SNP	A	TCGA-BR-8588-01A-11D-2394-08	3651626	8672848	125179047	77	50395											
ARID2	196528	broad.mit.edu	37	chr12	46246234	46246234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggcaacacagcaatttaGtggtactgatttgcttaatg	11	13	10	7	1	0	1	0	1	0	0	0	1	0	1	0	2	5	4	0	2	5	5			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr12:46246234G>A	uc001ros.1	+	15	4328	c.4328G>A	c.(4327-4329)AGT>AAT	p.S1443N	ARID2_uc001ror.2_Missense_Mutation_p.S1443N|ARID2_uc009zkg.1_Missense_Mutation_p.S899N|ARID2_uc009zkh.1_Missense_Mutation_p.S1070N|ARID2_uc001rou.1_Missense_Mutation_p.S777N	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1443					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		CAGCAATTTAGTGGTACTGAT	0.423													25	146					0	0	0.003954	0	0		A	46246234	A	A	46246234	3	1	81	1	0	0	0	0	1	0	0	0	915	1029	36	4	4386	4	ARID2	12	46246234	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	37573386	46246234	87605661	78	50396											
CCNT1	904	broad.mit.edu	37	chr12	49087216	49087216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttagggaagaggatttagtaCtcttggcaatcttggctgga	10	13	13	5	0	2	1	0	0	2	1	2	4	2	4	0	5	1	3	0	5	5	6			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr12:49087216C>T	uc001rse.1	-	9	2104	c.1781G>A	c.(1780-1782)AGT>AAT	p.S594N	LOC144438_uc001rsd.3_5'Flank|CCNT1_uc009zkz.1_Missense_Mutation_p.S309N	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	594	Ser-rich.				cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						GGATTTAGTACTCTTGGCAAT	0.468													20	81					0	0	0.007413	0	0		T	49087216	T	T	49087216	3	4	81	1	0	0	0	0	1	0	0	0	2937	565	20	4	403	4	CCNT1	12	49087216	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	2840982	49087216	84764679	79	50397											
RND1	27289	broad.mit.edu	37	chr12	49255803	49255803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagtcttaccttcttgagtgCgctgtccactgtctctggac	5	15	9	12	1	3	1	0	1	3	0	5	2	4	2	2	1	2	1	2	1	2	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr12:49255803C>T	uc001rsn.2	-	3	410	c.307G>A	c.(307-309)GCA>ACA	p.A103T		NM_014470	NP_055285	Q92730	RND1_HUMAN	GTP-binding protein RHO6 precursor	103					actin filament organization|axon guidance|negative regulation of cell adhesion|neuron remodeling|small GTPase mediated signal transduction	adherens junction|cytoskeleton|cytosol	GTP binding|GTPase activity|receptor binding			ovary(1)	1						TTCTTGAGTGCGCTGTCCACT	0.433													5	36					0	0	0.001168	0	0		T	49255803	T	T	49255803	3	4	81	1	0	0	0	0	1	0	0	0	13444	768	27	1	403	1	RND1	12	49255803	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	168587	49255803	84596092	80	50398											
ACVR1B	91	broad.mit.edu	37	chr12	52385743	52385743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatgtgatcagaagctgcGtcccaacatccccaactggt	10	10	9	12	1	1	2	1	1	0	1	3	2	3	2	3	1	4	2	3	1	4	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr12:52385743G>A	uc001rzn.2	+	8	1400	c.1358G>A	c.(1357-1359)CGT>CAT	p.R453H	ACVR1B_uc001rzm.2_Missense_Mutation_p.R453H|ACVR1B_uc010snn.1_Missense_Mutation_p.R494H	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	453	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	CAGAAGCTGCGTCCCAACATC	0.493													13	94					0	0	0.00245	0	0		A	52385743	A	A	52385743	3	1	81	1	0	0	0	0	1	0	0	0	221	1145	40	1	1515	1	ACVR1B	12	52385743	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	3129940	52385743	81466152	81	50399											
SRGAP1	57522	broad.mit.edu	37	chr12	64521762	64521762	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttgacctagggtccccaAgccttgccagtcacccccgg	7	7	10	17	1	1	1	1	1	0	0	2	1	2	1	7	2	2	1	7	2	2	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr12:64521762A>G	uc010ssp.1	+	21	2718	c.2662A>G	c.(2662-2664)AGC>GGC	p.S888G	SRGAP1_uc001srv.2_Missense_Mutation_p.S825G	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	888					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		AGGGTCCCCAAGCCTTGCCAG	0.632													16	84					0	0	0.003163	0	0		G	64521762	G	G	64521762	3	3	81	1	0	0	0	0	1	0	0	0	15170	72	3	3	2744	3	SRGAP1	12	64521762	Missense_Mutation	SNP	A	TCGA-BR-8588-01A-11D-2394-08	12136019	64521762	69330133	82	50400											
MGAT4C	25834	broad.mit.edu	37	chr12	86383233	86383233	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggagaaaaatgacaagaActcccaagaatgacactgta	21	5	8	7	0	0	5	0	2	0	3	1	6	1	5	1	1	1	1	1	1	8	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr12:86383233A>T	uc001tai.3	-	6	1342	c.92T>A	c.(91-93)GTT>GAT	p.V31D	MGAT4C_uc001tal.3_Missense_Mutation_p.V31D|MGAT4C_uc001taj.3_Missense_Mutation_p.V31D|MGAT4C_uc001tak.3_Missense_Mutation_p.V31D|MGAT4C_uc010sum.1_Missense_Mutation_p.V55D|MGAT4C_uc001tah.3_Missense_Mutation_p.V31D	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	31	Helical; Signal-anchor for type II membrane protein; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						AATGACAAGAACTCCCAAGAA	0.313													4	31					0	0	0.009096	0	0		T	86383233	T	T	86383233	3	4	81	1	0	0	0	0	1	0	0	0	9565	43	2	5	1356	5	MGAT4C	12	86383233	Missense_Mutation	SNP	A	TCGA-BR-8588-01A-11D-2394-08	21861471	86383233	47468662	83	50401											
HNF1A	6927	broad.mit.edu	37	chr12	121435358	121435358	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctgcagcccgtccagtTctcccagccgctgcacccct	5	7	7	22	2	1	0	0	0	1	0	3	0	2	0	7	0	4	4	7	0	0	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr12:121435358T>C	uc001tzg.2	+	7	1414	c.1391T>C	c.(1390-1392)TTC>TCC	p.F464S	HNF1A_uc001tzf.2_Missense_Mutation_p.F464S|HNF1A_uc010szn.1_Missense_Mutation_p.F464S	NM_000545	NP_000536	P20823	HNF1A_HUMAN	hepatic nuclear factor-1-alpha	464					glucose homeostasis|glucose import|insulin secretion|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|renal glucose absorption	cytoplasm|nucleus|protein complex	DNA binding|protein dimerization activity|protein heterodimerization activity|protein homodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			liver(92)|large_intestine(15)|endometrium(6)|breast(2)|lung(1)	116	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CCCGTCCAGTTCTCCCAGCCG	0.662									Hepatic_Adenoma_Familial_Clustering_of				5	38					0	0	0.001168	0	0		C	121435358	C	C	121435358	3	2	81	1	0	0	0	0	1	0	0	0	7267	1783	62	3	1417	3	HNF1A	12	121435358	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	35052125	121435358	12416537	84	50402											
RASL11A	387496	broad.mit.edu	37	chr13	27847440	27847440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttgaaatttccactagcGaaaactacgaagatgtctgt	13	12	7	9	2	1	2	0	1	1	1	3	4	3	2	2	0	3	0	2	0	6	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr13:27847440G>A	uc001urd.1	+	4	1156	c.538G>A	c.(538-540)GAA>AAA	p.E180K		NM_206827	NP_996563	Q6T310	RSLBA_HUMAN	RAS-like, family 11, member A	180	Small GTPase-like.				positive regulation of transcription from RNA polymerase I promoter|small GTPase mediated signal transduction|transcription, DNA-dependent	membrane|nucleolus	GTP binding|GTPase activity			breast(1)	1		Lung SC(185;0.0161)	Colorectal(13;0.00042)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.0173)|GBM - Glioblastoma multiforme(144;0.0557)|OV - Ovarian serous cystadenocarcinoma(117;0.152)|Epithelial(112;0.164)		TTCCACTAGCGAAAACTACGA	0.517													11	39					0	0	0.010729	0	0		A	27847440	A	A	27847440	3	1	81	1	0	0	0	0	1	0	0	0	13106	1059	37	1	552	1	RASL11A	13	27847440	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08		27847440	87322438	85	50403											
SLC7A1	6541	broad.mit.edu	37	chr13	30097526	30097526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtagggcatcatgagcGtgagggcagccgacacccca	12	4	14	11	2	1	3	1	2	0	1	1	4	1	3	3	2	2	3	3	2	2	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr13:30097526G>A	uc001uso.2	-	7	1313	c.926C>T	c.(925-927)ACG>ATG	p.T309M		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	309	Extracellular (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	CATCATGAGCGTGAGGGCAGC	0.612													9	101					0	0	0.004482	0	0		A	30097526	A	A	30097526	3	1	81	1	0	0	0	0	1	0	0	0	14717	1145	40	1	991	1	SLC7A1	13	30097526	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	2250086	30097526	85072352	86	50404											
FGF14	2259	broad.mit.edu	37	chr13	102568988	102568988	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagccgctagcgatggccGcggccatggtggccccggga	6	5	16	14	5	1	0	1	0	0	0	1	2	1	1	5	5	2	1	5	5	2	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr13:102568988G>T	uc001vpe.2	-	1	8	c.8C>A	c.(7-9)GCG>GAG	p.A3E	FGF14_uc001vpf.2_Intron	NM_004115	NP_004106	Q92915	FGF14_HUMAN	fibroblast growth factor 14 isoform 1A	3					cell death|cell-cell signaling|JNK cascade|nervous system development|signal transduction	nucleus	growth factor activity|heparin binding			ovary(2)|lung(1)|large_intestine(1)	4	all_neural(89;0.0239)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGCGATGGCCGCGGCCATGGT	0.761													6	12					3.09899e-07	3.30812e-07	0.004482	1	0		T	102568988	T	T	102568988	3	4	81	1	0	0	0	0	1	0	0	0	5857	1087	38	5	755	5	FGF14	13	102568988	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	72471462	102568988	12600890	87	50405											
ATP11A	23250	broad.mit.edu	37	chr13	113508679	113508679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgggagacaagatggagaCggccgcggccacgtgctacg	10	3	16	12	6	0	3	0	0	0	3	0	5	0	3	2	4	2	1	2	4	2	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr13:113508679C>T	uc001vsi.3	+	19	2166	c.2078C>T	c.(2077-2079)ACG>ATG	p.T693M	ATP11A_uc001vsj.3_Missense_Mutation_p.T693M|ATP11A_uc001vsm.1_Missense_Mutation_p.T569M|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	693	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				AAGATGGAGACGGCCGCGGCC	0.622													7	68					0	0	0.001984	0	0		T	113508679	T	T	113508679	3	4	81	1	0	0	0	0	1	0	0	0	1120	536	19	1	2152	1	ATP11A	13	113508679	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	10939691	113508679	1661199	88	50406											
MCF2L	23263	broad.mit.edu	37	chr13	113750783	113750783	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagctggtgcaggagggCgacgagggcctctggtaaga	8	6	20	7	2	1	1	0	0	1	1	1	5	1	3	1	6	2	3	1	6	1	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr13:113750783C>T	uc001vsu.2	+	28	3367	c.3345C>T	c.(3343-3345)GGC>GGT	p.G1115G	MCF2L_uc001vsq.2_Silent_p.G1115G|MCF2L_uc010tjr.1_Silent_p.G1058G|MCF2L_uc001vsr.2_Silent_p.G1062G|MCF2L_uc010tjs.1_Silent_p.G1056G	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	1088	SH3.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				TGCAGGAGGGCGACGAGGGCC	0.697													3	9					0	0	0.004672	0	0		T	113750783	T	T	113750783	2	4	81	1	0	0	0	0	0	0	0	1	9397	755	27	1		1	MCF2L	13	113750783	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08	242104	113750783	1419095	89	50407											
SYNE2	23224	broad.mit.edu	37	chr14	64681128	64681128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgggaccacacaggcgacGtggggggctcctcctctcac	7	6	14	14	2	1	0	1	0	1	0	4	2	3	1	3	5	0	1	3	5	0	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr14:64681128G>A	uc001xgm.2	+	106	19503	c.19273G>A	c.(19273-19275)GTG>ATG	p.V6425M	SYNE2_uc001xgl.2_Missense_Mutation_p.V6425M|SYNE2_uc010apy.2_Missense_Mutation_p.V2810M|SYNE2_uc001xgn.2_Missense_Mutation_p.V1387M|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.V395M|SYNE2_uc001xgq.2_Missense_Mutation_p.V790M|SYNE2_uc001xgr.2_Missense_Mutation_p.V208M|SYNE2_uc010tsi.1_Missense_Mutation_p.V59M|SYNE2_uc001xgs.2_Missense_Mutation_p.V59M|SYNE2_uc001xgt.2_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6425	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CACAGGCGACGTGGGGGGCTC	0.642													16	66					0	0	0.00499	0	0		A	64681128	A	A	64681128	3	1	81	1	0	0	0	0	1	0	0	0	15471	1145	40	1	19691	1	SYNE2	14	64681128	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08		64681128	42668412	90	50408											
ZFYVE26	23503	broad.mit.edu	37	chr14	68264796	68264796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagagacaaccttggaaagtCgatgcaggcggctctgcagt	11	7	13	10	2	1	1	0	0	1	1	2	4	1	2	1	3	3	3	1	3	2	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr14:68264796C>T	uc001xka.2	-	11	2322	c.2183G>A	c.(2182-2184)CGA>CAA	p.R728Q	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.R728Q|ZFYVE26_uc010tta.1_Missense_Mutation_p.R728Q	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	728					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		CTTGGAAAGTCGATGCAGGCG	0.552													5	102					0	0	0.000602	0	0		T	68264796	T	T	68264796	3	4	81	1	0	0	0	0	1	0	0	0	17693	884	31	1	5564	1	ZFYVE26	14	68264796	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	3583668	68264796	39084744	91	50409											
MTMR10	54893	broad.mit.edu	37	chr15	31244239	31244239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgaatgcttaaggaatGccctgaagagagaaaaggaa	16	7	12	6	0	0	4	0	2	0	2	0	7	0	6	1	2	3	2	1	2	7	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr15:31244239G>A	uc001zfh.1	-	12	1237	c.1139C>T	c.(1138-1140)GCA>GTA	p.A380V	MTMR10_uc001zfg.1_5'Flank|MTMR10_uc010azx.1_Missense_Mutation_p.A132V|MTMR10_uc001zfi.1_Missense_Mutation_p.A132V|MTMR10_uc001zfj.2_Missense_Mutation_p.A298V|MTMR10_uc001zfk.2_Missense_Mutation_p.A132V	NM_017762	NP_060232	Q9NXD2	MTMRA_HUMAN	myotubularin related protein 10	380	Myotubularin phosphatase.						phosphatase activity			ovary(1)	1		all_lung(180;2.81e-11)		all cancers(64;7.26e-15)|Epithelial(43;7.2e-11)|GBM - Glioblastoma multiforme(186;0.000158)|BRCA - Breast invasive adenocarcinoma(123;0.00426)|Lung(196;0.174)		CTTAAGGAATGCCCTGAAGAG	0.353													5	31					0	0	0.000602	0	0		A	31244239	A	A	31244239	3	1	81	1	0	0	0	0	1	0	0	0	9957	1319	46	2	1214	2	MTMR10	15	31244239	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08		31244239	71287153	92	50410											
HS3ST6	64711	broad.mit.edu	37	chr16	1962078	1962078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccgggtcacggggttcCgcaccaccacgatcagcttc	6	7	12	16	4	2	0	2	0	0	0	4	1	3	0	4	4	1	3	4	4	0	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr16:1962078C>T	uc002cnf.2	-	2	449	c.449G>A	c.(448-450)CGG>CAG	p.R150Q		NM_001009606	NP_001009606	C9JH64	C9JH64_HUMAN	heparan sulfate (glucosamine)	150											0						CACGGGGTTCCGCACCACCAC	0.697													10	45					0	0	0.010729	0	0		T	1962078	T	T	1962078	3	4	81	1	0	0	0	0	1	0	0	0	7385	652	23	1	490	1	HS3ST6	16	1962078	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08		1962078	88392675	93	50411											
RAB26	25837	broad.mit.edu	37	chr16	2201750	2201750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttacccatgcctactacCgggatgctcatggtgagccc	7	10	11	13	1	1	1	1	1	0	0	1	2	1	2	4	2	6	2	4	2	3	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr16:2201750C>T	uc002cou.2	+	4	537	c.403C>T	c.(403-405)CGG>TGG	p.R135W	RAB26_uc010bsf.2_Missense_Mutation_p.R69W	NM_014353	NP_055168	Q9ULW5	RAB26_HUMAN	RAB26, member RAS oncogene family	135					exocrine system development|protein transport|regulation of exocytosis|small GTPase mediated signal transduction	intrinsic to plasma membrane	GTP binding|protein binding				0						TGCCTACTACCGGGATGCTCA	0.632													5	40					0	0	0.000602	0	0		T	2201750	T	T	2201750	3	4	81	1	0	0	0	0	1	0	0	0	12938	643	23	1	417	1	RAB26	16	2201750	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	239672	2201750	88153003	94	50412											
ZKSCAN2	342357	broad.mit.edu	37	chr16	25258325	25258325	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcttttctggagactttTgaacttggttcgacactgtt	8	17	9	7	1	1	2	0	1	1	1	2	4	1	2	0	2	2	3	0	2	2	8			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr16:25258325T>C	uc002dod.3	-	5	1599	c.1192A>G	c.(1192-1194)AAA>GAA	p.K398E	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.K194E|ZKSCAN2_uc002doe.2_Missense_Mutation_p.K398E	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	398					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		TGGAGACTTTTGAACTTGGTT	0.507													17	158					0	0	0.006122	0	0		C	25258325	C	C	25258325	3	2	81	1	0	0	0	0	1	0	0	0	17712	1821	63	3	1723	3	ZKSCAN2	16	25258325	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	23056575	25258325	65096428	95	50413											
ZNF668	79759	broad.mit.edu	37	chr16	31073217	31073217	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtcccaggacgccacgaaCgtcttgtcacattgcaggca	10	7	11	13	3	2	0	1	0	1	0	3	2	3	1	2	3	2	2	2	3	1	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr16:31073217C>T	uc010caf.2	-	3	1389	c.1032G>A	c.(1030-1032)ACG>ACA	p.T344T	ZNF668_uc002eao.2_Silent_p.T344T	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	344	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						ACGCCACGAACGTCTTGTCAC	0.682													15	108					0	0	0.00245	0	0		T	31073217	T	T	31073217	2	4	81	1	0	0	0	0	0	0	0	1	18100	523	19	1		1	ZNF668	16	31073217	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08	5814892	31073217	59281536	96	50414											
MYLK3	91807	broad.mit.edu	37	chr16	46761267	46761267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttctcatctgtgatccggtCgaagagctcacccccgtcca	7	10	8	16	3	3	2	2	1	2	1	7	3	5	2	4	1	1	1	4	1	1	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr16:46761267C>T	uc002eei.3	-	8	1911	c.1795G>A	c.(1795-1797)GAC>AAC	p.D599N	MYLK3_uc010vge.1_Missense_Mutation_p.D258N|MYLK3_uc002eej.1_Missense_Mutation_p.D258N	NM_182493	NP_872299	Q32MK0	MYLK3_HUMAN	myosin light chain kinase 3	599	Protein kinase.				cardiac myofibril assembly|cellular response to interleukin-1|positive regulation of sarcomere organization|regulation of vascular permeability involved in acute inflammatory response|sarcomere organization|sarcomerogenesis	cytosol	ATP binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			stomach(2)|skin(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	7		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				GTGATCCGGTCGAAGAGCTCA	0.562													6	32					0	0	0.001168	0	0		T	46761267	T	T	46761267	3	4	81	1	0	0	0	0	1	0	0	0	10076	884	31	1	688	1	MYLK3	16	46761267	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	15688050	46761267	43593486	97	50415											
CX3CL1	6376	broad.mit.edu	37	chr16	57416298	57416298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggagggcctgtgggcaCggagcttttccgagtgcctc	5	9	17	10	2	0	0	0	0	0	0	2	4	1	3	3	5	2	2	3	5	0	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr16:57416298C>T	uc002eli.2	+	3	615	c.548C>T	c.(547-549)ACG>ATG	p.T183M		NM_002996	NP_002987	P78423	X3CL1_HUMAN	chemokine (C-X3-C motif) ligand 1 precursor	183	Mucin-like stalk.|Extracellular (Potential).				cell adhesion|cytokine-mediated signaling pathway|defense response|immune response|leukocyte adhesive activation|positive regulation of calcium-independent cell-cell adhesion|positive regulation of inflammatory response	cell surface|extracellular space|integral to membrane|plasma membrane	chemokine activity				0						CCTGTGGGCACGGAGCTTTTC	0.682													12	100					0	0	0.001855	0	0		T	57416298	T	T	57416298	3	4	81	1	0	0	0	0	1	0	0	0	4077	536	19	1	558	1	CX3CL1	16	57416298	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	10655031	57416298	32938455	98	50416											
CTCF	10664	broad.mit.edu	37	chr16	67654694	67654694	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagggacacatacaagcTgaaaaggcacatgagaaccc	17	3	10	11	0	0	2	0	2	0	1	0	4	0	3	1	2	4	3	1	2	5	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr16:67654694T>C	uc002etl.2	+	6	1471	c.1181T>C	c.(1180-1182)CTG>CCG	p.L394P	CTCF_uc010cek.2_Missense_Mutation_p.L66P	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor	394	C2H2-type 5.				chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)		ACATACAAGCTGAAAAGGCAC	0.468													10	84					0	0	0.008291	0	0		C	67654694	C	C	67654694	3	2	81	1	0	0	0	0	1	0	0	0	4003	1580	55	3	1195	3	CTCF	16	67654694	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	10238396	67654694	22700059	99	50417											
NEURL4	84461	broad.mit.edu	37	chr17	7224756	7224756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgtcatctgccccccgaCgaacacccacacggctcccc	7	6	7	21	4	2	0	1	0	1	0	4	2	3	0	6	1	2	1	6	1	1	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr17:7224756C>T	uc002gga.1	-	19	3129	c.3122G>A	c.(3121-3123)CGT>CAT	p.R1041H	NEURL4_uc002gfy.1_5'Flank|GPS2_uc002gfz.1_5'Flank|NEURL4_uc002ggb.1_Missense_Mutation_p.R1039H	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	1041	NHR 5.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						TGCCCCCCGACGAACACCCAC	0.622													9	102					0	0	0.006214	0	0		T	7224756	T	T	7224756	3	4	81	1	0	0	0	0	1	0	0	0	10366	536	19	1	1610	1	NEURL4	17	7224756	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08		7224756	73970454	100	50418											
RAB11FIP4	84440	broad.mit.edu	37	chr17	29855754	29855754	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcgagttcaatgccagggcCcgcgaggtggagctcgagca	8	5	17	11	4	1	0	1	0	0	0	2	4	1	1	2	4	3	3	2	4	1	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr17:29855754C>T	uc002hgn.1	+	13	1840	c.1611C>T	c.(1609-1611)GCC>GCT	p.A537A	RAB11FIP4_uc002hgo.2_Silent_p.A435A	NM_032932	NP_116321	Q86YS3	RFIP4_HUMAN	RAB11 family interacting protein 4 (class II)	537	Potential.|Necessary for interaction with RAB11A, subcellular location, homo- or heterooligomerization.				cytokinesis|interspecies interaction between organisms|protein transport	cleavage furrow|endocytic vesicle|midbody|recycling endosome membrane	ADP-ribosylation factor binding|calcium ion binding|protein homodimerization activity|Rab GTPase binding			skin(1)	1		all_cancers(10;3.62e-13)|all_epithelial(10;0.000387)|all_lung(9;0.0132)|Breast(31;0.014)|all_hematologic(16;0.015)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0259)|Ovarian(249;0.0423)|Lung NSC(157;0.066)				ATGCCAGGGCCCGCGAGGTGG	0.672													4	25					0	0	0.000602	0	0		T	29855754	T	T	29855754	2	4	81	1	0	0	0	0	0	0	0	1	12921	610	22	4		4	RAB11FIP4	17	29855754	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08	22630998	29855754	51339456	101	50419											
FBXO47	494188	broad.mit.edu	37	chr17	37101317	37101317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaaaaagcagaatcacttCgatgtgtccaatgatcaagg	16	8	8	9	1	2	2	2	1	0	1	4	3	3	2	2	1	1	1	2	1	5	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr17:37101317C>T	uc002hrc.2	-	7	889	c.689G>A	c.(688-690)CGA>CAA	p.R230Q		NM_001008777	NP_001008777	Q5MNV8	FBX47_HUMAN	F-box protein 47	230											0						AGAATCACTTCGATGTGTCCA	0.388													4	70					0	0	0.009096	0	0		T	37101317	T	T	37101317	3	4	81	1	0	0	0	0	1	0	0	0	5770	884	31	1	689	1	FBXO47	17	37101317	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	7245563	37101317	44093893	102	50420											
ERBB2	2064	broad.mit.edu	37	chr17	37868208	37868208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctttctacggacgtgggatCctgcaccctcgtctgccccc	4	10	9	18	3	2	0	0	0	2	0	4	2	3	2	5	2	3	1	5	2	1	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr17:37868208C>T	uc002hso.2	+	8	1167	c.929C>T	c.(928-930)TCC>TTC	p.S310F	ERBB2_uc002hsm.2_Missense_Mutation_p.S280F|ERBB2_uc010cwa.2_Missense_Mutation_p.S295F|ERBB2_uc002hsp.2_Missense_Mutation_p.S113F|ERBB2_uc010cwb.2_Missense_Mutation_p.S310F|ERBB2_uc010wek.1_Missense_Mutation_p.S34F|ERBB2_uc002hsl.2_Missense_Mutation_p.S280F|ERBB2_uc002hsn.1_Missense_Mutation_p.S310F	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	310	Extracellular (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.S310F(2)|p.S310Y(1)		lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	GACGTGGGATCCTGCACCCTC	0.582		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			60	198					0	0	0.01441	0	0		T	37868208	T	T	37868208	3	4	81	1	0	0	0	0	1	0	0	0	5214	855	30	4	959	4	ERBB2	17	37868208	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	766891	37868208	43327002	103	50421											
RNF43	54894	broad.mit.edu	37	chr17	56438233	56438233	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccactcaccccgggcctGcctgcagctggcctggtacc	4	7	12	18	1	1	0	1	0	0	0	1	0	1	0	7	4	4	3	7	4	1	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr17:56438233G>A	uc002iwf.2	-	6	2716	c.760C>T	c.(760-762)CAG>TAG	p.Q254*	RNF43_uc010wnv.1_Nonsense_Mutation_p.Q213*|RNF43_uc002iwh.3_Nonsense_Mutation_p.Q254*|RNF43_uc002iwg.3_Nonsense_Mutation_p.Q254*|RNF43_uc010dcw.2_Nonsense_Mutation_p.Q127*	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	254	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CCCCGGGCCTGCCTGCAGCTG	0.637													23	42					0	0	0.012319	0	0		A	56438233	A	A	56438233	4	1	81	1	0	0	0	0	0	1	0	0	13520	1328	46	2	1607	2	RNF43	17	56438233	Nonsense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	18570025	56438233	24756977	104	50422											
KDM4B	23030	broad.mit.edu	37	chr19	5077397	5077397	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcttcttccccgggagctcGcagggctgcgacgccttcct	3	9	13	16	4	1	0	0	0	1	0	4	2	3	1	4	3	2	4	4	3	0	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr19:5077397G>A	uc002mbq.3	+	8	922	c.696G>A	c.(694-696)TCG>TCA	p.S232S	KDM4B_uc010xil.1_Silent_p.S232S|KDM4B_uc010xim.1_Silent_p.S232S|KDM4B_uc002mbr.3_5'UTR	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	232	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						CCGGGAGCTCGCAGGGCTGCG	0.657													46	319					0	0	0.01441	0	0		A	5077397	A	A	5077397	2	1	81	1	0	0	0	0	0	0	0	1	8145	1074	38	1		1	KDM4B	19	5077397	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08		5077397	54051586	105	50423											
DNASE2	1777	broad.mit.edu	37	chr19	12986983	12986983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcaggtccagggcccttttgGggacacgcaccatttggagt	7	9	14	11	1	0	0	0	0	0	0	1	2	1	2	3	5	0	2	3	5	0	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr19:12986983G>A	uc002mvn.1	-	6	1050	c.904C>T	c.(904-906)CCA>TCA	p.P302S	DNASE2_uc010xmr.1_Missense_Mutation_p.P247S	NM_001375	NP_001366	O00115	DNS2A_HUMAN	deoxyribonuclease II, lysosomal precursor	302					apoptosis	lysosome	deoxyribonuclease II activity|DNA binding|protein binding				0						GGCCCTTTTGGGGACACGCAC	0.597								Direct_reversal_of_damage					22	91					0	0	0.010504	0	0		A	12986983	A	A	12986983	3	1	81	1	0	0	0	0	1	0	0	0	4670	1232	43	4	182	4	DNASE2	19	12986983	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	7909586	12986983	46142000	106	50424											
DDX39	10212	broad.mit.edu	37	chr19	14519889	14519889	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctggaagttctgccacAttaacttcaaaccggtcctg	9	12	7	13	1	3	0	1	0	2	0	5	1	5	1	4	2	3	1	4	2	3	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr19:14519889A>G	uc010xnp.1	-	10	1272	c.1227T>C	c.(1225-1227)AAT>AAC	p.N409N	DDX39_uc002myo.2_Silent_p.N409N|DDX39_uc010dzl.2_RNA	NM_005804	NP_005795	O00148	DX39A_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39	409	Helicase C-terminal.				mRNA export from nucleus|nuclear mRNA splicing, via spliceosome	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding				0						GTTCTGCCACATTAACTTCAA	0.557													16	168					0	0	0.003163	0	0		G	14519889	G	G	14519889	2	3	81	1	0	0	0	0	0	0	0	1	4360	214	8	3		3	DDX39	19	14519889	Silent	SNP	A	TCGA-BR-8588-01A-11D-2394-08	1532906	14519889	44609094	107	50425											
MAP1S	55201	broad.mit.edu	37	chr19	17837242	17837242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgcgtcgcggctggcgcGcggcgaggatgaggcggagc	4	3	22	12	9	0	1	0	1	0	0	1	4	0	3	1	7	1	1	1	7	0	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr19:17837242G>A	uc002nhe.1	+	5	1058	c.1049G>A	c.(1048-1050)CGC>CAC	p.R350H	MAP1S_uc010eaz.1_RNA|MAP1S_uc010eba.1_Missense_Mutation_p.R350H|MAP1S_uc002nhf.1_Intron|MAP1S_uc010xpv.1_Missense_Mutation_p.R324H	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	350	Necessary for the microtubule-organizing center localization.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						CGGCTGGCGCGCGGCGAGGAT	0.726													3	7					0	0	0.004672	0	0		A	17837242	A	A	17837242	3	1	81	1	0	0	0	0	1	0	0	0	9252	1087	38	1	1067	1	MAP1S	19	17837242	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	3317353	17837242	41291741	108	50426											
ZNF569	148266	broad.mit.edu	37	chr19	37903787	37903787	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatgtgcacaataagggaAgttctttgagagaaggcttt	12	12	11	6	0	2	2	1	1	1	1	2	4	2	3	0	2	1	3	0	2	4	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr19:37903787A>C	uc002ogi.2	-	6	2331	c.1773T>G	c.(1771-1773)ACT>ACG	p.T591T	ZNF569_uc002ogh.2_Silent_p.T432T|ZNF569_uc002ogj.2_Silent_p.T615T	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	591	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CAATAAGGGAAGTTCTTTGAG	0.408													14	102					0	0	0.001855	0	0		C	37903787	C	C	37903787	2	2	81	1	0	0	0	0	0	0	0	1	18025	59	3	5		5	ZNF569	19	37903787	Silent	SNP	A	TCGA-BR-8588-01A-11D-2394-08	20066545	37903787	21225196	109	50427											
RYR1	6261	broad.mit.edu	37	chr19	38993186	38993186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatggcgctggcgctgaacCgctacctgtgcctggccgtg	5	8	15	13	4	0	2	0	1	0	1	0	2	0	2	4	3	3	3	4	3	2	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr19:38993186C>T	uc002oit.2	+	48	7784	c.7654C>T	c.(7654-7656)CGC>TGC	p.R2552C	RYR1_uc002oiu.2_Missense_Mutation_p.R2552C|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2552	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GGCGCTGAACCGCTACCTGTG	0.652													3	34					0	0	0.004672	0	0		T	38993186	T	T	38993186	3	4	81	1	0	0	0	0	1	0	0	0	13793	652	23	1	7844	1	RYR1	19	38993186	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	1089399	38993186	20135797	110	50428											
MEIS3	56917	broad.mit.edu	37	chr19	47912430	47912430	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccccctcttcttgtttcGccgtcgctcctggtccaagt	3	14	8	16	3	2	0	0	0	2	0	7	1	5	0	5	1	0	2	5	1	1	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr19:47912430G>A	uc002pgu.2	-	8	1231	c.784C>T	c.(784-786)CGA>TGA	p.R262*	MEIS3_uc010xyp.1_5'Flank|MEIS3_uc002pgo.2_Nonsense_Mutation_p.R61*|MEIS3_uc002pgp.2_Nonsense_Mutation_p.R94*|MEIS3_uc002pgq.2_Nonsense_Mutation_p.R343*|MEIS3_uc002pgr.2_Nonsense_Mutation_p.R130*|MEIS3_uc002pgt.2_Nonsense_Mutation_p.R245*|MEIS3_uc002pgv.2_Nonsense_Mutation_p.R245*|MEIS3_uc002pgs.2_Nonsense_Mutation_p.R262*|MEIS3_uc010eld.2_Nonsense_Mutation_p.R262*	NM_001009813	NP_001009813	Q99687	MEIS3_HUMAN	Meis1, myeloid ecotropic viral integration site	262	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000198)|OV - Ovarian serous cystadenocarcinoma(262;0.000439)|Epithelial(262;0.0113)|GBM - Glioblastoma multiforme(486;0.0223)		TTCTTGTTTCGCCGTCGCTCC	0.617													11	62					0	0	0.010729	0	0		A	47912430	A	A	47912430	4	1	81	1	0	0	0	0	0	1	0	0	9487	1095	38	1	501	1	MEIS3	19	47912430	Nonsense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	8919244	47912430	11216553	111	50429											
PRR12	57479	broad.mit.edu	37	chr19	50102943	50102943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcccttcaccctgcaagCggcttgatgaggagctgaag	8	8	13	12	1	1	3	1	3	0	0	1	4	1	4	2	2	4	4	2	2	2	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr19:50102943C>T	uc002poo.3	+	5	4093	c.4093C>T	c.(4093-4095)CGG>TGG	p.R1365W		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	544	Pro-rich.						DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		ACCCTGCAAGCGGCTTGATGA	0.632													12	53					0	0	0.010729	0	0		T	50102943	T	T	50102943	3	4	81	1	0	0	0	0	1	0	0	0	12606	759	27	1	4111	1	PRR12	19	50102943	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	2190513	50102943	9026040	112	50430											
TSKS	60385	broad.mit.edu	37	chr19	50247605	50247605	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagaatgggtttcagtgggCccagcccctccagttcgctc	6	9	11	15	1	1	1	1	0	0	1	4	1	2	1	5	2	1	3	5	2	1	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr19:50247605C>A	uc002ppm.2	-	8	1255	c.1244G>T	c.(1243-1245)GGC>GTC	p.G415V		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	415							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		TTTCAGTGGGCCCAGCCCCTC	0.597													11	77					0.000673444	0.000681275	0.008291	1	0		A	50247605	A	A	50247605	3	1	81	1	0	0	0	0	1	0	0	0	16652	739	26	5	550	5	TSKS	19	50247605	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	144662	50247605	8881378	113	50431											
ZNF274	10782	broad.mit.edu	37	chr19	58723756	58723756	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagcactttgacaaccgTgagtcccaggcaaacagtgg	14	6	11	10	1	0	3	0	2	0	1	1	3	1	3	2	2	3	2	2	2	4	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr19:58723756T>C	uc002qrq.1	+	10	1668	c.1209T>C	c.(1207-1209)CGT>CGC	p.R403R	ZNF274_uc002qrr.1_Silent_p.R371R|ZNF274_uc002qrs.1_Silent_p.R298R|ZNF274_uc010eum.1_Silent_p.R162R	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	403					viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		TTGACAACCGTGAGTCCCAGG	0.512													6	56					0	0	0.001168	0	0		C	58723756	C	C	58723756	2	2	81	1	0	0	0	0	0	0	0	1	17834	1683	59	3		3	ZNF274	19	58723756	Silent	SNP	T	TCGA-BR-8588-01A-11D-2394-08	8476151	58723756	405227	114	50432											
SRC	6714	broad.mit.edu	37	chr20	36031241	36031241	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgtggtccttcgggatcCtgctgactgagctcaccaca	7	10	11	13	2	1	2	1	2	0	0	4	3	3	3	3	2	2	2	3	2	0	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr20:36031241C>G	uc002xgx.2	+	13	1809	c.1360C>G	c.(1360-1362)CTG>GTG	p.L454V	SRC_uc002xgy.2_Missense_Mutation_p.L454V	NM_005417	NP_005408	P12931	SRC_HUMAN	proto-oncogene tyrosine-protein kinase SRC	454	Protein kinase.				axon guidance|bone resorption|cell junction assembly|cellular membrane organization|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular protein kinase cascade|leukocyte migration|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of integrin activation|Ras protein signal transduction|regulation of bone resorption|regulation of vascular permeability|response to interleukin-1|signal complex assembly|T cell costimulation	caveola|cytosol|mitochondrial inner membrane	ATP binding|heme binding|integrin binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|SH3/SH2 adaptor activity			large_intestine(10)|lung(1)|central_nervous_system(1)|endometrium(1)	13		Myeloproliferative disorder(115;0.00878)			Dasatinib(DB01254)	CTTCGGGATCCTGCTGACTGA	0.478													14	110					0	0	0.006122	0	0		G	36031241	G	G	36031241	3	3	81	1	0	0	0	0	1	0	0	0	15159	680	24	5	1398	5	SRC	20	36031241	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08		36031241	26994279	115	50433											
TSHZ2	128553	broad.mit.edu	37	chr20	51872113	51872113	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtccgtcctgaacaatcacTtgggcaaagccacggagccc	11	6	10	14	2	1	1	1	1	0	0	3	2	3	2	4	2	3	1	4	2	3	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr20:51872113T>A	uc002xwo.2	+	2	3072	c.2116T>A	c.(2116-2118)TTG>ATG	p.L706M		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	706					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GAACAATCACTTGGGCAAAGC	0.577													10	70					0	0	0.006214	0	0		A	51872113	A	A	51872113	3	1	81	1	0	0	0	0	1	0	0	0	16650	1606	56	5	2122	5	TSHZ2	20	51872113	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	15840872	51872113	11153407	116	50434											
PHACTR3	116154	broad.mit.edu	37	chr20	58349321	58349321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcaaggaagagaaagtaaagGgtctccaaagaagcggctgg	16	5	14	6	1	2	2	1	0	1	2	3	4	2	3	1	4	1	2	1	4	7	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr20:58349321G>A	uc002yau.2	+	7	1417	c.950G>A	c.(949-951)GGG>GAG	p.G317E	PHACTR3_uc002yat.2_Missense_Mutation_p.G314E|PHACTR3_uc010zzw.1_Missense_Mutation_p.G276E|PHACTR3_uc002yav.2_Missense_Mutation_p.G276E|PHACTR3_uc002yaw.2_Missense_Mutation_p.G276E|PHACTR3_uc002yax.2_Missense_Mutation_p.G206E	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	317						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			GAAAGTAAAGGGTCTCCAAAG	0.527													5	52					0	0	0.000602	0	0		A	58349321	A	A	58349321	3	1	81	1	0	0	0	0	1	0	0	0	11830	1232	43	4	976	4	PHACTR3	20	58349321	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	6477208	58349321	4676199	117	50435											
C2CD2	25966	broad.mit.edu	37	chr21	43319370	43319370	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggcggggcagaggctgcCgccctctccggatgggatgg	4	7	18	12	3	2	1	0	0	2	1	3	3	2	3	3	7	1	2	3	7	0	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr21:43319370C>T	uc002yzw.2	-	13	1904	c.1662G>A	c.(1660-1662)GCG>GCA	p.A554A	C2CD2_uc002yzs.2_Silent_p.A23A|C2CD2_uc002yzt.2_Silent_p.A170A|C2CD2_uc002yzu.2_Silent_p.A386A|C2CD2_uc002yzv.2_Silent_p.A399A	NM_015500	NP_056315	Q9Y426	CU025_HUMAN	C2 calcium-dependent domain containing 2 isoform	554						cytosol|extracellular region|nucleus				ovary(1)	1						CAGAGGCTGCCGCCCTCTCCG	0.667													7	38					0	0	0.00308	0	0		T	43319370	T	T	43319370	2	4	81	1	0	0	0	0	0	0	0	1	2155	639	23	1		1	C2CD2	21	43319370	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08		43319370	4810525	118	50436											
CACNA1I	8911	broad.mit.edu	37	chr22	40043924	40043924	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccctggaaatgatcactcGggaagaggcaagccagggcc	11	5	13	12	1	1	2	1	1	0	1	3	4	2	4	4	4	1	1	4	4	3	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr22:40043924G>A	uc003ayc.2	+	9	1560	c.1560G>A	c.(1558-1560)TCG>TCA	p.S520S	CACNA1I_uc003ayd.2_Intron|CACNA1I_uc003aye.2_Silent_p.S435S|CACNA1I_uc003ayf.2_Intron	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	520	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	ATGATCACTCGGGAAGAGGCA	0.517													6	59					0	0	0.001168	0	0		A	40043924	A	A	40043924	2	1	81	1	0	0	0	0	0	0	0	1	2549	1103	39	1		1	CACNA1I	22	40043924	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08		40043924	11260642	119	50437											
SBF1	6305	broad.mit.edu	37	chr22	50901807	50901807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaggtgcagctcctgggCgaggcagcggcgggcagctc	6	5	18	12	3	0	0	0	0	0	0	2	1	1	0	1	5	5	6	1	5	0	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chr22:50901807C>T	uc003blh.2	-	16	1999	c.1804G>A	c.(1804-1806)GCC>ACC	p.A602T	SBF1_uc011arx.1_Missense_Mutation_p.A266T|SBF1_uc003bli.2_Missense_Mutation_p.A603T	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	602					protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		AGCTCCTGGGCGAGGCAGCGG	0.647													5	14					0	0	0.000602	0	0		T	50901807	T	T	50901807	3	4	81	1	0	0	0	0	1	0	0	0	13883	768	27	1	3981	1	SBF1	22	50901807	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	10857883	50901807	402759	120	50438											
KAL1	3730	broad.mit.edu	37	chrX	8538633	8538634	+	Missense_Mutation	DNP	GA	TG	TG																															accttgtaatgatgcacaggGatgtccggctcctcggggag																								rs137879324	byFrequency	TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:8538633_8538634GA>TG	uc004csf.2	-	7	1118_1119	c.968_969TC>CA	c.(967-969)ATC>ACA	p.I323T		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	323	Fibronectin type-III 2.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						GATGCACAGGGATGTCCGGCTC	0.55													6	32					0	0	0.004672	0	0		TG	8538634	TG	TG	8538633	3	4	81	1	0	0	0	0	1	0	0	0	7990	1164	41	5	1105	5	KAL1	23	8538633	Missense_Mutation	DNP	GA	TCGA-BR-8588-01A-11D-2394-08		8538633	146731927	121	50439											
SHROOM2	357	broad.mit.edu	37	chrX	9900503	9900503	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgctctccaagaggccAgccccacagaggccaccgcc	8	3	10	20	1	1	2	0	0	1	2	2	2	1	2	8	2	2	1	8	2	1	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:9900503A>G	uc004csu.1	+	6	3270	c.3180A>G	c.(3178-3180)CCA>CCG	p.P1060P	SHROOM2_uc004csv.2_5'UTR|SHROOM2_uc011mic.1_5'UTR|SHROOM2_uc004csw.1_5'UTR	NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	1060					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				CCAAGAGGCCAGCCCCACAGA	0.697													3	32					0	0	0.004672	0	0		G	9900503	G	G	9900503	2	3	81	1	0	0	0	0	0	0	0	1	14319	175	7	3		3	SHROOM2	23	9900503	Silent	SNP	A	TCGA-BR-8588-01A-11D-2394-08	1361870	9900503	145370057	122	50440											
FRMPD4	9758	broad.mit.edu	37	chrX	12735634	12735634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcaggtgtagccatcttgCgggcttatagtcctgagtct	7	13	12	9	1	2	1	0	1	2	0	3	1	3	1	2	2	3	3	2	2	3	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:12735634C>T	uc004cuz.1	+	16	3195	c.2689C>T	c.(2689-2691)CGG>TGG	p.R897W	FRMPD4_uc011mij.1_Missense_Mutation_p.R889W	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	897					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						AGCCATCTTGCGGGCTTATAG	0.438													27	129					0	0	0.004656	0	0		T	12735634	T	T	12735634	3	4	81	1	0	0	0	0	1	0	0	0	6073	759	27	1	2751	1	FRMPD4	23	12735634	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	2835131	12735634	142534926	123	50441											
PCYT1B	9468	broad.mit.edu	37	chrX	24597470	24597470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagttccttggctgtatacCctctctggaggttacgtcgg	5	14	11	11	2	2	0	1	0	1	0	5	1	3	1	2	4	2	4	2	4	3	5			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:24597470C>T	uc004dbi.2	-	6	904	c.671G>A	c.(670-672)GGG>GAG	p.G224E	PCYT1B_uc004dbk.3_Missense_Mutation_p.G224E|PCYT1B_uc004dbj.2_Missense_Mutation_p.G206E	NM_004845	NP_004836	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	224	Catalytic (Potential).					endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)	GGCTGTATACCCTCTCTGGAG	0.453													16	173					0	0	0.003163	0	0		T	24597470	T	T	24597470	3	4	81	1	0	0	0	0	1	0	0	0	11630	623	22	4	487	4	PCYT1B	23	24597470	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	11861836	24597470	130673090	124	50442											
FAM47A	158724	broad.mit.edu	37	chrX	34148983	34148983	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgggacacctgagtctcGggaggctgcaggcagggttc	7	7	18	9	1	1	1	0	1	1	0	3	4	1	4	1	6	1	4	1	6	0	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:34148983G>A	uc004ddg.2	-	1	1446	c.1413C>T	c.(1411-1413)CCC>CCT	p.P471P		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	471										ovary(4)|central_nervous_system(1)	5						CCTGAGTCTCGGGAGGCTGCA	0.602													21	111					0	0	0.012319	0	0		A	34148983	A	A	34148983	2	1	81	1	0	0	0	0	0	0	0	1	5583	1103	39	1		1	FAM47A	23	34148983	Silent	SNP	G	TCGA-BR-8588-01A-11D-2394-08	9551513	34148983	121121577	125	50443											
TMEM47	83604	broad.mit.edu	37	chrX	34657453	34657453	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccaccaggaatgcaatgAgaatgatggcagcgccgccc	13	4	11	13	2	0	2	0	2	0	1	0	4	0	3	4	2	3	2	4	2	4	0			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:34657453A>G	uc004ddh.2	-	2	537	c.278T>C	c.(277-279)CTC>CCC	p.L93P	TMEM47_uc010ngs.2_RNA	NM_031442	NP_113630	Q9BQJ4	TMM47_HUMAN	transmembrane protein 47	93	Helical; (Potential).					integral to membrane				lung(1)	1						GAATGCAATGAGAATGATGGC	0.443													3	22					0	0	0.004672	0	0		G	34657453	G	G	34657453	3	3	81	1	0	0	0	0	1	0	0	0	16196	304	11	3	275	3	TMEM47	23	34657453	Missense_Mutation	SNP	A	TCGA-BR-8588-01A-11D-2394-08	508470	34657453	120613107	126	50444											
RGN	9104	broad.mit.edu	37	chrX	46949185	46949185	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttgtaggcaccatggcTgaggaaacagctccagcagt	10	10	12	9	0	0	1	0	1	0	0	1	2	1	2	2	3	3	6	2	3	2	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:46949185T>C	uc004dgz.1	+	5	1326	c.357T>C	c.(355-357)GCT>GCC	p.A119A	RGN_uc004dha.1_Silent_p.A119A|RGN_uc010nho.1_Silent_p.A66A|RGN_uc010nhp.1_Intron	NM_152869	NP_690608	Q15493	RGN_HUMAN	regucalcin	119					cellular calcium ion homeostasis|positive regulation of ATPase activity|regulation of calcium-mediated signaling	cytoplasm|nucleus	calcium ion binding|enzyme regulator activity|gluconolactonase activity|zinc ion binding				0						GCACCATGGCTGAGGAAACAG	0.527													6	57					0	0	0.001984	0	0		C	46949185	C	C	46949185	2	2	81	1	0	0	0	0	0	0	0	1	13307	1567	55	3		3	RGN	23	46949185	Silent	SNP	T	TCGA-BR-8588-01A-11D-2394-08	12291732	46949185	108321375	127	50445											
PRICKLE3	4007	broad.mit.edu	37	chrX	49032336	49032336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgattatgatgatggtggcGgcgacggctgggggccctgg	5	9	20	7	3	0	3	0	3	0	0	0	4	0	3	1	7	0	1	1	7	1	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:49032336G>A	uc004dmy.1	-	9	1560	c.1534C>T	c.(1534-1536)CGC>TGC	p.R512C	PRICKLE3_uc011mmv.1_Missense_Mutation_p.R444C|PRICKLE3_uc011mmw.1_Missense_Mutation_p.R431C|PRICKLE3_uc011mmx.1_Missense_Mutation_p.R474C	NM_006150	NP_006141	O43900	PRIC3_HUMAN	LIM domain only 6	512							protein binding|zinc ion binding			breast(1)	1						tgatggtggCGGCGACGGCTG	0.592													8	77					0	0	0.00308	0	0		A	49032336	A	A	49032336	3	1	81	1	0	0	0	0	1	0	0	0	12510	1116	39	1	317	1	PRICKLE3	23	49032336	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	2083151	49032336	106238224	128	50446											
ALAS2	212	broad.mit.edu	37	chrX	55050237	55050237	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccttcccagagatctgcTcctgctcctggggaccggaa	7	9	11	14	1	1	2	0	1	1	1	4	5	4	4	5	3	2	2	5	3	1	1			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:55050237T>C	uc004dua.3	-	4	506	c.368A>G	c.(367-369)GAG>GGG	p.E123G	ALAS2_uc004dub.3_Intron|ALAS2_uc004dud.3_Intron	NM_000032	NP_000023	P22557	HEM0_HUMAN	5-aminolevulinate synthase 2 isoform a	123					cellular iron ion homeostasis|erythrocyte differentiation|heme biosynthetic process|hemoglobin biosynthetic process|oxygen homeostasis|response to hypoxia	mitochondrial inner membrane|mitochondrial matrix	5-aminolevulinate synthase activity|coenzyme binding|glycine binding|protein binding|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(1)	1					Glycine(DB00145)	AGAGATCTGCTCCTGCTCCTG	0.517													5	39					0	0	0.001984	0	0		C	55050237	C	C	55050237	3	2	81	1	0	0	0	0	1	0	0	0	485	1551	54	3	1427	3	ALAS2	23	55050237	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	6017901	55050237	100220323	129	50447											
CITED1	4435	broad.mit.edu	37	chrX	71521802	71521802	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagttttgcaggggtcctGcctccccgggttggcctgga	3	10	14	14	1	0	0	0	0	0	0	2	1	2	1	6	5	2	3	6	5	0	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:71521802G>T	uc011mqd.1	-	3	508	c.353C>A	c.(352-354)GCA>GAA	p.A118E	CITED1_uc011mqc.1_Missense_Mutation_p.A144E|CITED1_uc004eas.2_Missense_Mutation_p.A118E|CITED1_uc004eat.2_Missense_Mutation_p.A118E	NM_001144887	NP_001138359	Q99966	CITE1_HUMAN	melanocyte-specific gene 1 isoform 1	118					apoptosis|branching involved in ureteric bud morphogenesis|cell proliferation|melanin biosynthetic process|melanocyte differentiation|mesenchymal to epithelial transition|metanephros development|negative regulation of neuron apoptosis|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|nucleocytoplasmic transport|placenta development|positive regulation of anti-apoptosis|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transcription from RNA polymerase II promoter|response to cAMP|response to estrogen stimulus|response to insulin stimulus|response to interferon-gamma|response to interleukin-1|response to interleukin-11|response to interleukin-2|response to interleukin-4|response to interleukin-6|response to interleukin-9|response to lipopolysaccharide|response to parathyroid hormone stimulus|response to transforming growth factor beta stimulus|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	cytosol|nucleus	chromatin binding|co-SMAD binding|LBD domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding				0	Renal(35;0.156)					CAGGGGTCCTGCCTCCCCGGG	0.612													4	43					0.00024832	0.000252676	0.009096	1	0		T	71521802	T	T	71521802	3	4	81	1	0	0	0	0	1	0	0	0	3442	1319	46	5	232	5	CITED1	23	71521802	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	16471565	71521802	83748758	130	50448											
H2BFWT	158983	broad.mit.edu	37	chrX	103268176	103268176	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtggccattagatggcaCgaccagacaatggcggttgt	10	8	14	9	2	0	2	0	0	0	2	0	3	0	2	2	4	0	3	2	4	2	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:103268176C>T	uc004elr.2	-	1	81	c.57G>A	c.(55-57)TCG>TCA	p.S19S		NM_001002916	NP_001002916	Q7Z2G1	H2BWT_HUMAN	H2B histone family, member W, testis-specific	19					nucleosome assembly	nuclear membrane|nucleosome	DNA binding			ovary(1)	1						TTAGATGGCACGACCAGACAA	0.607													5	45					0	0	0.001168	0	0		T	103268176	T	T	103268176	2	4	81	1	0	0	0	0	0	0	0	1	6948	523	19	1		1	H2BFWT	23	103268176	Silent	SNP	C	TCGA-BR-8588-01A-11D-2394-08	31746374	103268176	52002384	131	50449											
TBC1D8B	54885	broad.mit.edu	37	chrX	106066491	106066491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgggatgaagtctcaaaaCttgaaaagacttcaaatgtc	15	10	8	8	0	2	3	2	2	1	1	4	4	2	4	1	1	1	0	1	1	6	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:106066491C>T	uc004emo.2	+	5	787	c.622C>T	c.(622-624)CTT>TTT	p.L208F	MORC4_uc004emp.3_Intron|TBC1D8B_uc004emm.2_Missense_Mutation_p.L208F|TBC1D8B_uc004emn.2_Missense_Mutation_p.L208F	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	208	GRAM 1.					intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						AGTCTCAAAACTTGAAAAGAC	0.323													4	50					0	0	0.000602	0	0		T	106066491	T	T	106066491	3	4	81	1	0	0	0	0	1	0	0	0	15651	565	20	4	640	4	TBC1D8B	23	106066491	Missense_Mutation	SNP	C	TCGA-BR-8588-01A-11D-2394-08	2798315	106066491	49204069	132	50450											
KIAA1210	57481	broad.mit.edu	37	chrX	118222008	118222008	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactcattgagtccaggaacTtaggcctctccgagggctgg	8	10	12	11	1	2	1	1	1	1	0	4	3	3	2	3	4	2	1	3	4	3	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:118222008T>C	uc004era.3	-	11	3185	c.3185A>G	c.(3184-3186)AAG>AGG	p.K1062R		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1062										ovary(4)|skin(1)	5						GTCCAGGAACTTAGGCCTCTC	0.532													16	154					0	0	0.003163	0	0		C	118222008	C	C	118222008	3	2	81	1	0	0	0	0	1	0	0	0	8230	1609	56	3	1960	3	KIAA1210	23	118222008	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	12155517	118222008	37048552	133	50451											
IGSF1	3547	broad.mit.edu	37	chrX	130412056	130412056	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttgcaccggagttgtagTtcctggccccggattgtggg	4	12	14	11	2	0	0	0	0	0	0	1	2	1	2	5	4	1	4	5	4	1	5			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:130412056T>A	uc004ewd.2	-	13	2332	c.2094A>T	c.(2092-2094)GAA>GAT	p.E698D	IGSF1_uc004ewe.3_Missense_Mutation_p.E692D|IGSF1_uc004ewf.2_Missense_Mutation_p.E678D	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	698	Extracellular (Potential).|Ig-like C2-type 7.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GGAGTTGTAGTTCCTGGCCCC	0.527													12	118					0	0	0.001855	0	0		A	130412056	A	A	130412056	3	1	81	1	0	0	0	0	1	0	0	0	7612	1722	60	5	1948	5	IGSF1	23	130412056	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	12190048	130412056	24858504	134	50452											
GPR112	139378	broad.mit.edu	37	chrX	135430802	135430802	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcacacctacgacctttcTctctccaacagagccaactt	11	10	4	16	1	3	1	1	0	2	1	5	3	3	1	4	0	4	0	4	0	3	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:135430802T>C	uc004ezu.1	+	6	5228	c.4937T>C	c.(4936-4938)CTC>CCC	p.L1646P	GPR112_uc010nsb.1_Missense_Mutation_p.L1441P|GPR112_uc010nsc.1_Missense_Mutation_p.L1413P	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1646	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					ACGACCTTTCTCTCTCCAACA	0.463													35	248					0	0	0.004878	0	0		C	135430802	C	C	135430802	3	2	81	1	0	0	0	0	1	0	0	0	6644	1551	54	3	4947	3	GPR112	23	135430802	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	5018746	135430802	19839758	135	50453											
SPANXE	171489	broad.mit.edu	37	chrX	140786498	140786498	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaacagtcttaccatctcgTtggcctcgttggaatcacag	9	12	8	12	2	3	0	1	0	2	0	5	1	3	1	2	2	2	2	2	2	3	4			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:140786498T>G	uc004fbq.2	-	1	158	c.65A>C	c.(64-66)AAC>ACC	p.N22T		NM_145665	NP_663698	Q8TAD1	SPNXE_HUMAN	SPANX family, member E	22						cytoplasm|nucleus					0	Acute lymphoblastic leukemia(192;7.65e-05)					TACCATCTCGTTGGCCTCGTT	0.299													15	229					0	0	0.012319	0	0		G	140786498	G	G	140786498	3	3	81	1	0	0	0	0	1	0	0	0	15014	1725	60	5	236	5	SPANXE	23	140786498	Missense_Mutation	SNP	T	TCGA-BR-8588-01A-11D-2394-08	5355696	140786498	14484062	136	50454											
SLITRK2	84631	broad.mit.edu	37	chrX	144903992	144903992	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttaaccgtggccgggatcTtacagacagagagtcgcaaa	12	8	12	9	3	1	2	0	0	1	2	2	4	1	3	2	2	2	2	2	2	3	2			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:144903992T>C	uc004fcd.2	+	5	1039	c.49T>C	c.(49-51)TTA>CTA	p.L17L	SLITRK2_uc010nsp.2_Silent_p.L17L|SLITRK2_uc010nso.2_Silent_p.L17L|SLITRK2_uc011mwq.1_Silent_p.L17L|SLITRK2_uc011mwr.1_Silent_p.L17L|SLITRK2_uc011mws.1_Silent_p.L17L|SLITRK2_uc004fcg.2_Silent_p.L17L|SLITRK2_uc011mwt.1_Silent_p.L17L	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	17						integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					GGCCGGGATCTTACAGACAGA	0.488													4	62					0	0	0.009096	0	0		C	144903992	C	C	144903992	2	2	81	1	0	0	0	0	0	0	0	1	14768	1606	56	3		3	SLITRK2	23	144903992	Silent	SNP	T	TCGA-BR-8588-01A-11D-2394-08	4117494	144903992	10366568	137	50455											
L1CAM	3897	broad.mit.edu	37	chrX	153129810	153129810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcacagccatttggtgccGgaacatcctctccttaaaca	10	11	6	14	1	2	0	1	0	1	0	4	1	3	1	4	2	4	0	4	2	3	3			TCGA-BR-8588-01A-11D-2394-08	TCGA-BR-8588-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	0fbb26a6-0430-47b7-8f85-9166e8b4130b	907aa997-170c-40e5-9e28-6d93395e5ae2	g.chrX:153129810G>A	uc004fjb.2	-	24	3397	c.3289C>T	c.(3289-3291)CGG>TGG	p.R1097W	L1CAM_uc004fjc.2_Missense_Mutation_p.R1097W|L1CAM_uc010nuo.2_Missense_Mutation_p.R1092W	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	1097	Fibronectin type-III 5.|Extracellular (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ATTTGGTGCCGGAACATCCTC	0.572													27	252					0	0	0.00632	0	0		A	153129810	A	A	153129810	3	1	81	1	0	0	0	0	1	0	0	0	8604	1115	39	1	504	1	L1CAM	23	153129810	Missense_Mutation	SNP	G	TCGA-BR-8588-01A-11D-2394-08	8225818	153129810	2140750	138	50456											
KCNAB2	8514	broad.mit.edu	37	chr1	6145300	6145300	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaacatcattaagaagaaAggatggaggtaacggccctg	16	6	13	6	1	1	2	1	0	0	2	1	5	1	5	1	5	2	1	1	5	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:6145300A>G	uc009vlv.1	+	7	453	c.318A>G	c.(316-318)AAA>AAG	p.K106K	KCNAB2_uc001alv.1_Silent_p.K106K|KCNAB2_uc001alw.1_Silent_p.K92K|KCNAB2_uc001alx.1_Silent_p.K106K|KCNAB2_uc001aly.1_Silent_p.K139K|KCNAB2_uc009vlw.1_Silent_p.K39K|KCNAB2_uc001alu.2_Silent_p.K106K	NM_003636	NP_003627	Q13303	KCAB2_HUMAN	potassium voltage-gated channel, shaker-related	106						cytoplasm|integral to membrane|juxtaparanode region of axon	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity				0	Ovarian(185;0.0634)	all_cancers(23;5.85e-39)|all_epithelial(116;4.88e-22)|all_lung(118;4.21e-08)|Lung NSC(185;9.77e-07)|all_hematologic(16;2.78e-06)|all_neural(13;3.18e-06)|Acute lymphoblastic leukemia(12;0.000272)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00106)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0393)|Medulloblastoma(700;0.211)		Epithelial(90;6.9e-37)|GBM - Glioblastoma multiforme(13;8.8e-31)|OV - Ovarian serous cystadenocarcinoma(86;1.45e-19)|Colorectal(212;2.46e-07)|COAD - Colon adenocarcinoma(227;2.07e-05)|Kidney(185;7.88e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00131)|BRCA - Breast invasive adenocarcinoma(365;0.00133)|STAD - Stomach adenocarcinoma(132;0.00391)|READ - Rectum adenocarcinoma(331;0.0649)		TTAAGAAGAAAGGATGGAGGT	0.557													19	53					0	0	1	0	0		G	6145300	G	G	6145300	2	3	82	1	0	0	0	0	0	0	0	1	8026	69	3	3		3	KCNAB2	1	6145300	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08		6145300	243105321	1	50457											
CASZ1	54897	broad.mit.edu	37	chr1	10713858	10713858	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtggcggcagtggcggcAgccagggacgcagaggactg	7	4	20	10	4	0	1	0	0	0	1	1	3	0	3	1	7	1	3	1	7	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:10713858A>G	uc001aro.2	-	11	2576	c.2256T>C	c.(2254-2256)GCT>GCC	p.A752A	CASZ1_uc001arp.1_Silent_p.A752A|CASZ1_uc009vmx.2_Silent_p.A776A	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	752					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		CAGTGGCGGCAGCCAGGGACG	0.667													7	46					0	0	1	0	0		G	10713858	G	G	10713858	2	3	82	1	0	0	0	0	0	0	0	1	2688	175	7	3		3	CASZ1	1	10713858	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4568558	10713858	238536763	2	50458											
MTOR	2475	broad.mit.edu	37	chr1	11298633	11298633	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgtgctcactgttcaggaAatgatccgcacagtggcgaa	10	10	11	10	2	2	1	2	1	0	0	3	3	3	2	1	2	1	3	1	2	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:11298633A>C	uc001asd.2	-	12	1949	c.1828T>G	c.(1828-1830)TTC>GTC	p.F610V		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	610					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						CTGTTCAGGAAATGATCCGCA	0.542													4	31					0	0	1	0	0		C	11298633	C	C	11298633	3	2	82	1	0	0	0	0	1	0	0	0	9972	14	1	5	6009	5	MTOR	1	11298633	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	584775	11298633	237951988	3	50459											
MTOR	2475	broad.mit.edu	37	chr1	11303171	11303171	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcataacagaggtgcttacTtatgggcgaagtcctttggg	10	12	12	7	1	1	1	1	0	0	1	2	2	2	1	1	3	3	1	1	3	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:11303171T>G	uc001asd.2	-	9	1533	c.1412A>C	c.(1411-1413)AAG>ACG	p.K471T		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	471					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						AGGTGCTTACTTATGGGCGAA	0.512													20	51					0	0	1	0	0		G	11303171	G	G	11303171	3	3	82	1	0	0	0	0	1	0	0	0	9972	1623	56	5	6437	5	MTOR	1	11303171	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4538	11303171	237947450	4	50460											
MAD2L2	10459	broad.mit.edu	37	chr1	11736991	11736991	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaaaatcaccaccaccacTttctccacatcattctgcaa	13	10	1	17	0	4	0	2	0	2	0	6	0	5	0	5	0	1	1	5	0	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:11736991T>C	uc001asp.2	-	5	434	c.246A>G	c.(244-246)AAA>AAG	p.K82K	MAD2L2_uc009vnc.2_Silent_p.K82K|MAD2L2_uc001asq.3_Silent_p.K82K	NM_006341	NP_006332	Q9UI95	MD2L2_HUMAN	MAD2 homolog	82	Mediates interaction with REV1 and REV3L and homodimerization.|HORMA.				cell division|DNA damage response, signal transduction resulting in transcription|double-strand break repair|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of mitotic anaphase-promoting complex activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of transcription, DNA-dependent|regulation of cell growth|transcription, DNA-dependent	cytoplasm|nucleoplasm|spindle|zeta DNA polymerase complex	JUN kinase binding				0	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.04e-06)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|Kidney(185;0.000733)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCACCACCACTTTCTCCACAT	0.582								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					5	43					0	0	1	0	0		C	11736991	C	C	11736991	2	2	82	1	0	0	0	0	0	0	0	1	9168	1606	56	3		3	MAD2L2	1	11736991	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	433820	11736991	237513630	5	50461											
VPS13D	55187	broad.mit.edu	37	chr1	12313878	12313878	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggatttgcctcagatggagTtacaggtacgatttcggcag	9	11	14	7	2	1	1	1	0	0	1	2	4	1	3	1	4	3	3	1	4	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:12313878T>G	uc001atv.2	+	7	805	c.664T>G	c.(664-666)TTA>GTA	p.L222V	VPS13D_uc001atw.2_Missense_Mutation_p.L222V	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	222					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TCAGATGGAGTTACAGGTACG	0.488													23	74					0	0	1	0	0		G	12313878	G	G	12313878	3	3	82	1	0	0	0	0	1	0	0	0	17218	1722	60	5	686	5	VPS13D	1	12313878	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	576887	12313878	236936743	6	50462											
PRAMEF11	440560	broad.mit.edu	37	chr1	12884956	12884956	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaatctgctccagcagagAgtaccatcagcaccataact	14	7	7	13	0	2	1	1	0	1	1	3	2	3	1	3	0	5	5	3	0	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:12884956A>G	uc001auk.2	-	4	1351	c.1155T>C	c.(1153-1155)ACT>ACC	p.T385T		NM_001146344	NP_001139816	O60813	PRA11_HUMAN	PRAME family member 11	385											0						TCCAGCAGAGAGTACCATCAG	0.502													42	295					0	0	1	0	0		G	12884956	G	G	12884956	2	3	82	1	0	0	0	0	0	0	0	1	12449	291	11	3		3	PRAMEF11	1	12884956	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	571078	12884956	236365665	7	50463											
NBPF1	55672	broad.mit.edu	37	chr1	16918430	16918430	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaactgctgtttgttctcTgccagctgggggcgcaattt	5	14	12	10	1	1	1	0	1	1	0	2	1	1	1	1	2	4	5	1	2	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:16918430T>C	uc009vos.1	-	7	975	c.87A>G	c.(85-87)GCA>GCG	p.A29A	NBPF1_uc010oce.1_Intron	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	29						cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		GTTTGTTCTCTGCCAGCTGGG	0.478													29	695					0	0	1	0	0		C	16918430	C	C	16918430	2	2	82	1	0	0	0	0	0	0	0	1	10210	1567	55	3		3	NBPF1	1	16918430	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4033474	16918430	232332191	8	50464											
PADI4	23569	broad.mit.edu	37	chr1	17666206	17666206	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggacatgtcgctgatgAccctgagcacgaagaccccc	10	6	11	14	2	0	4	0	3	0	1	1	6	0	5	3	1	2	3	3	1	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:17666206A>G	uc001baj.2	+	6	578	c.550A>G	c.(550-552)ACC>GCC	p.T184A	PADI4_uc009vpc.2_Missense_Mutation_p.T184A	NM_012387	NP_036519	Q9UM07	PADI4_HUMAN	peptidyl arginine deiminase, type IV	184					chromatin modification|peptidyl-citrulline biosynthetic process from peptidyl-arginine|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000338)|Lung NSC(340;0.00042)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00537)|BRCA - Breast invasive adenocarcinoma(304;8.54e-06)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(64;0.000223)|KIRC - Kidney renal clear cell carcinoma(64;0.00313)|STAD - Stomach adenocarcinoma(196;0.00707)|READ - Rectum adenocarcinoma(331;0.0689)|Lung(427;0.199)	L-Citrulline(DB00155)	GTCGCTGATGACCCTGAGCAC	0.577													13	47					0	0	1	0	0		G	17666206	G	G	17666206	3	3	82	1	0	0	0	0	1	0	0	0	11399	275	10	3	572	3	PADI4	1	17666206	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	747776	17666206	231584415	9	50465											
LIN28A	79727	broad.mit.edu	37	chr1	26752823	26752823	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacttctgccagagcatcagCcatatggtagcctcatgtcc	9	10	8	14	0	3	1	2	0	1	1	4	1	4	1	4	1	4	2	4	1	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:26752823C>T	uc001bmj.2	+	4	618	c.504C>T	c.(502-504)AGC>AGT	p.S168S	LIN28A_uc001bmi.1_RNA	NM_024674	NP_078950	Q9H9Z2	LN28A_HUMAN	lin-28 homolog	168	CCHC-type 2.				miRNA catabolic process|pre-miRNA processing|regulation of transcription, DNA-dependent|RNA 3'-end processing|stem cell maintenance	cytoplasmic mRNA processing body|nucleolus|stress granule	DNA binding|zinc ion binding			central_nervous_system(1)	1						AGAGCATCAGCCATATGGTAG	0.532													15	44					0	0	1	0	0		T	26752823	T	T	26752823	2	4	82	1	0	0	0	0	0	0	0	1	8822	738	26	2		2	LIN28A	1	26752823	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	9086617	26752823	222497798	10	50466											
ARID1A	8289	broad.mit.edu	37	chr1	27105610	27105610	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggtgggtgacccaggaCagagaacgctactggatcct	11	7	14	9	1	0	3	0	2	0	1	1	6	1	5	2	4	2	1	2	4	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:27105610C>T	uc001bmv.1	+	20	5594	c.5221C>T	c.(5221-5223)CAG>TAG	p.Q1741*	ARID1A_uc001bmu.1_Nonsense_Mutation_p.Q1524*|ARID1A_uc001bmx.1_Nonsense_Mutation_p.Q587*|ARID1A_uc009vsm.1_Nonsense_Mutation_p.Q69*|ARID1A_uc009vsn.1_5'UTR	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1741					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TGACCCAGGACAGAGAACGCT	0.493			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								25	135					0	0	1	0	0		T	27105610	T	T	27105610	4	4	82	1	0	0	0	0	0	1	0	0	913	479	17	4	5299	4	ARID1A	1	27105610	Nonsense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	352787	27105610	222145011	11	50467											
FGR	2268	broad.mit.edu	37	chr1	27949577	27949577	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcaggatgtggaacttcTcgcccttggtgaaggtgagg	7	12	15	7	1	2	2	1	2	1	0	3	4	2	4	1	5	1	1	1	5	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:27949577T>A	uc001boj.2	-	2	451	c.305A>T	c.(304-306)GAG>GTG	p.E102V	FGR_uc001bok.2_Missense_Mutation_p.E102V|FGR_uc001bol.2_Missense_Mutation_p.E102V|FGR_uc001bom.2_Missense_Mutation_p.E102V	NM_005248	NP_005239	P09769	FGR_HUMAN	proto-oncogene tyrosine-protein kinase FGR	102	SH3.				platelet activation|response to virus	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity			skin(2)	2		all_lung(284;2.05e-05)|Colorectal(325;3.46e-05)|Lung NSC(340;3.67e-05)|Renal(390;0.00121)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.25e-24)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00244)|KIRC - Kidney renal clear cell carcinoma(1967;0.0027)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		GTGGAACTTCTCGCCCTTGGT	0.408													14	35					0	0	1	0	0		A	27949577	A	A	27949577	3	1	82	1	0	0	0	0	1	0	0	0	5888	1551	54	5	1324	5	FGR	1	27949577	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	843967	27949577	221301044	12	50468											
ZSCAN20	7579	broad.mit.edu	37	chr1	33956645	33956645	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagttccagtttcaaaaccaAgtaatacctccgagaaagag	16	8	8	9	1	1	2	1	0	0	2	3	4	3	2	4	0	2	3	4	0	6	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:33956645A>C	uc001bxj.3	+	6	954	c.787A>C	c.(787-789)AGT>CGT	p.S263R	ZSCAN20_uc001bxk.2_Missense_Mutation_p.S209R|ZSCAN20_uc009vui.2_Missense_Mutation_p.S263R	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	263					viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				TTCAAAACCAAGTAATACCTC	0.423													8	41					0	0	1	0	0		C	33956645	C	C	33956645	3	2	82	1	0	0	0	0	1	0	0	0	18257	72	3	5	805	5	ZSCAN20	1	33956645	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6007068	33956645	215293976	13	50469											
ZMYM6	9204	broad.mit.edu	37	chr1	35453121	35453121	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtccttccaggtgctcaaAaataatccttgtgatgtctg	11	13	8	9	0	2	1	1	1	1	0	5	1	5	1	3	1	1	1	3	1	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:35453121A>C	uc001byh.2	-	16	3790	c.3562T>G	c.(3562-3564)TTT>GTT	p.F1188V	uc001byd.3_5'Flank|uc001bye.2_5'Flank|ZMYM6_uc001byf.1_Intron|ZMYM6_uc010oht.1_Missense_Mutation_p.F1091V	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258	1188					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				AGGTGCTCAAAAATAATCCTT	0.299													9	58					0	0	1	0	0		C	35453121	C	C	35453121	3	2	82	1	0	0	0	0	1	0	0	0	17729	14	1	5	419	5	ZMYM6	1	35453121	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1496476	35453121	213797500	14	50470											
ZMYM4	9202	broad.mit.edu	37	chr1	35847321	35847321	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatagagggacagtctaagAagttttgtagttcatcgtgt	12	13	12	4	1	2	3	1	0	1	3	3	4	2	4	0	1	0	3	0	1	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:35847321A>G	uc001byt.2	+	9	1611	c.1531A>G	c.(1531-1533)AAG>GAG	p.K511E	ZMYM4_uc009vuu.2_Missense_Mutation_p.K479E|ZMYM4_uc001byu.2_Missense_Mutation_p.K187E|ZMYM4_uc009vuv.2_Missense_Mutation_p.K250E	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	511	MYM-type 4.				multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				ACAGTCTAAGAAGTTTTGTAG	0.418													21	95					0	0	1	0	0		G	35847321	G	G	35847321	3	3	82	1	0	0	0	0	1	0	0	0	17727	247	9	3	1565	3	ZMYM4	1	35847321	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	394200	35847321	213403300	15	50471											
TEKT2	27285	broad.mit.edu	37	chr1	36552352	36552352	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caactccgaccatcggggcaAaatggagacactagagatcg	14	5	11	11	3	0	2	0	0	0	2	3	5	1	2	2	3	1	1	2	3	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:36552352A>C	uc001bzr.2	+	5	663	c.536A>C	c.(535-537)AAA>ACA	p.K179T	TEKT2_uc001bzs.2_Missense_Mutation_p.K85T|ADPRHL2_uc001bzt.2_5'Flank|ADPRHL2_uc001bzu.2_5'Flank	NM_014466	NP_055281	Q9UIF3	TEKT2_HUMAN	tektin 2	179					cell projection organization|microtubule cytoskeleton organization	actin cytoskeleton|cilium axoneme|flagellar axoneme|focal adhesion|microtubule|nucleolus					0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CATCGGGGCAAAATGGAGACA	0.567													7	67					0	0	1	0	0		C	36552352	C	C	36552352	3	2	82	1	0	0	0	0	1	0	0	0	15778	14	1	5	550	5	TEKT2	1	36552352	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	705031	36552352	212698269	16	50472											
GRIK3	2899	broad.mit.edu	37	chr1	37337949	37337949	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttgatggggccatgatgAgctcctgcagtcggatgagc	8	10	14	9	1	1	4	0	4	1	0	3	5	2	5	2	3	3	2	2	3	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:37337949A>G	uc001caz.2	-	4	707	c.572T>C	c.(571-573)CTC>CCC	p.L191P	GRIK3_uc001cba.1_Missense_Mutation_p.L191P	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	191	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GGCCATGATGAGCTCCTGCAG	0.572													11	56					0	0	1	0	0		G	37337949	G	G	37337949	3	3	82	1	0	0	0	0	1	0	0	0	6791	304	11	3	2239	3	GRIK3	1	37337949	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	785597	37337949	211912672	17	50473											
INPP5B	3633	broad.mit.edu	37	chr1	38328033	38328033	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaataaattcttgagccttcTtcttctctgtcatatcaagc	10	16	5	10	0	6	1	2	1	4	0	7	2	6	1	1	0	2	0	1	0	5	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:38328033T>G	uc001ccg.1	-	24	2790	c.2696A>C	c.(2695-2697)AAG>ACG	p.K899T	INPP5B_uc009vvk.1_3'UTR|MTF1_uc001cce.1_5'Flank|MTF1_uc009vvj.1_5'Flank|INPP5B_uc001ccf.1_Missense_Mutation_p.K735T	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	979	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TTGAGCCTTCTTCTTCTCTGT	0.438													8	66					0	0	1	0	0		G	38328033	G	G	38328033	3	3	82	1	0	0	0	0	1	0	0	0	7771	1609	56	5	49	5	INPP5B	1	38328033	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	990084	38328033	210922588	18	50474											
PABPC4	8761	broad.mit.edu	37	chr1	40035289	40035289	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattggcatcctcgtgttttTcgtaactcacaaagccaaag	11	13	7	10	2	1	0	1	0	0	0	4	0	2	0	2	1	2	3	2	1	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:40035289T>C	uc010oiv.1	-	5	1614	c.716A>G	c.(715-717)GAA>GGA	p.E239G	PABPC4_uc001cdl.2_Missense_Mutation_p.E239G|PABPC4_uc001cdm.2_Missense_Mutation_p.E239G|SNORA55_uc001cdo.1_5'Flank	NM_003819	NP_003810	Q13310	PABP4_HUMAN	poly A binding protein, cytoplasmic 4 isoform 2	239	RRM 3.				blood coagulation|RNA catabolic process|RNA processing|translation	cytoplasm|ribonucleoprotein complex	nucleotide binding|poly(A) RNA binding|poly(U) RNA binding|protein binding				0	Lung NSC(20;1.55e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.89e-18)|Epithelial(16;6.17e-17)|all cancers(16;1.18e-15)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CTCGTGTTTTTCGTAACTCAC	0.438													35	91					0	0	1	0	0		C	40035289	C	C	40035289	3	2	82	1	0	0	0	0	1	0	0	0	11385	1783	62	3	1310	3	PABPC4	1	40035289	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1707256	40035289	209215332	19	50475											
TMCO2	127391	broad.mit.edu	37	chr1	40717105	40717105	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggtctgcaagagaaaattTtgaaaaaacttaagacagtg	17	10	10	4	0	1	3	0	1	1	2	1	4	1	3	0	1	2	1	0	1	7	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:40717105T>G	uc001cfe.2	+	2	481	c.388T>G	c.(388-390)TTG>GTG	p.L130V		NM_001008740	NP_001008740	Q7Z6W1	TMCO2_HUMAN	transmembrane and coiled-coil domains 2	130	Potential.					integral to membrane				ovary(1)	1	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;6.3e-18)			AGAGAAAATTTTGAAAAAACT	0.408													12	62					0	0	1	0	0		G	40717105	G	G	40717105	3	3	82	1	0	0	0	0	1	0	0	0	16021	1838	64	5	394	5	TMCO2	1	40717105	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	681816	40717105	208533516	20	50476											
ZNF684	127396	broad.mit.edu	37	chr1	41012365	41012365	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accattataatatgagcacaAgtcttaatccaatgagaaaa	19	10	5	7	0	1	2	0	2	1	1	2	3	2	2	2	0	1	1	2	0	8	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:41012365A>C	uc001cft.1	+	5	621	c.370A>C	c.(370-372)AGT>CGT	p.S124R		NM_152373	NP_689586	Q5T5D7	ZN684_HUMAN	zinc finger protein 684	124					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;5.42e-18)			TATGAGCACAAGTCTTAATCC	0.303													17	45					0	0	1	0	0		C	41012365	C	C	41012365	3	2	82	1	0	0	0	0	1	0	0	0	18116	72	3	5	384	5	ZNF684	1	41012365	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	295260	41012365	208238256	21	50477											
HIVEP3	59269	broad.mit.edu	37	chr1	42048511	42048511	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcgtagttatcccttttcTtgtaccgagcaccacatatg	8	15	6	12	2	1	0	0	0	1	0	3	1	2	0	3	0	2	4	3	0	4	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:42048511T>G	uc001cgz.3	-	4	3171	c.1958A>C	c.(1957-1959)AAG>ACG	p.K653T	HIVEP3_uc001cha.3_Missense_Mutation_p.K653T|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	653	C2H2-type 3; degenerate.|No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				ATCCCTTTTCTTGTACCGAGC	0.458													25	92					0	0	1	0	0		G	42048511	G	G	42048511	3	3	82	1	0	0	0	0	1	0	0	0	7204	1609	56	5	5286	5	HIVEP3	1	42048511	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1036146	42048511	207202110	22	50478											
KIAA0467	23334	broad.mit.edu	37	chr1	43906924	43906924	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttgggttcccccaaaacaActgatgacattgtcctggat	11	12	8	10	0	0	2	0	2	0	0	2	3	2	3	3	2	2	1	3	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:43906924A>C	uc001cjk.1	+	38	5149	c.4687A>C	c.(4687-4689)ACT>CCT	p.T1563P		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	2462						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCCCAAAACAACTGATGACAT	0.577													17	175					0	0	1	0	0		C	43906924	C	C	43906924	3	2	82	1	0	0	0	0	1	0	0	0	8194	43	2	5	4829	5	KIAA0467	1	43906924	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1858413	43906924	205343697	23	50479											
EIF2B3	8891	broad.mit.edu	37	chr1	45392349	45392349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcttcatccaagtctgcttCattagccatgaagagcagcc	10	11	7	13	0	4	2	2	1	2	1	5	2	5	2	3	0	4	2	3	0	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:45392349C>T	uc001cmt.1	-	5	644	c.517G>A	c.(517-519)GAA>AAA	p.E173K	EIF2B3_uc001cmu.1_Missense_Mutation_p.E173K|EIF2B3_uc001cmv.1_Missense_Mutation_p.E173K|EIF2B3_uc001cmw.2_Missense_Mutation_p.E173K	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,	173					negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					AAGTCTGCTTCATTAGCCATG	0.413													18	85					0	0	1	0	0		T	45392349	T	T	45392349	3	4	82	1	0	0	0	0	1	0	0	0	5008	835	29	4	910	4	EIF2B3	1	45392349	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	1485425	45392349	203858272	24	50480											
EIF2B3	8891	broad.mit.edu	37	chr1	45392393	45392393	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctgtgctgtccactccaAtgaagtcacgctgctccact	7	12	7	15	1	1	1	1	1	0	0	5	1	5	1	4	0	2	3	4	0	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:45392393A>C	uc001cmt.1	-	5	600	c.473T>G	c.(472-474)ATT>AGT	p.I158S	EIF2B3_uc001cmu.1_Missense_Mutation_p.I158S|EIF2B3_uc001cmv.1_Missense_Mutation_p.I158S|EIF2B3_uc001cmw.2_Missense_Mutation_p.I158S	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,	158					negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GTCCACTCCAATGAAGTCACG	0.443													14	83					0	0	1	0	0		C	45392393	C	C	45392393	3	2	82	1	0	0	0	0	1	0	0	0	5008	101	4	5	954	5	EIF2B3	1	45392393	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	44	45392393	203858228	25	50481											
HECTD3	79654	broad.mit.edu	37	chr1	45470426	45470426	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgttagttccttcccaaacTtgaactcaaacgtctccttg	10	14	5	12	1	2	1	1	1	1	0	5	1	4	1	3	0	3	2	3	0	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:45470426T>A	uc009vxk.2	-	16	2086	c.1988A>T	c.(1987-1989)AAG>ATG	p.K663M	HECTD3_uc001cmx.3_Missense_Mutation_p.K12M|HECTD3_uc001cmy.3_Missense_Mutation_p.K273M|HECTD3_uc010olh.1_Missense_Mutation_p.K379M	NM_024602	NP_078878	Q5T447	HECD3_HUMAN	HECT domain containing 3	663	HECT.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	ubiquitin-protein ligase activity				0	Acute lymphoblastic leukemia(166;0.155)					CTTCCCAAACTTGAACTCAAA	0.517													22	85					0	0	1	0	0		A	45470426	A	A	45470426	3	1	82	1	0	0	0	0	1	0	0	0	7057	1609	56	5	621	5	HECTD3	1	45470426	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	78033	45470426	203780195	26	50482											
CYP4Z1	199974	broad.mit.edu	37	chr1	47534415	47534415	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatgacccagactatgccaAgattctcctgaaaagacaag	15	7	7	12	0	1	5	0	2	1	3	2	5	1	5	4	0	1	0	4	0	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:47534415A>C	uc001cqu.1	+	2	302	c.299A>C	c.(298-300)AAG>ACG	p.K100T		NM_178134	NP_835235	Q86W10	CP4Z1_HUMAN	cytochrome P450 4Z1	100	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			skin(1)	1						GACTATGCCAAGATTCTCCTG	0.488													36	83					0	0	1	0	0		C	47534415	C	C	47534415	3	2	82	1	0	0	0	0	1	0	0	0	4197	72	3	5	305	5	CYP4Z1	1	47534415	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2063989	47534415	201716206	27	50483											
DMRTA2	63950	broad.mit.edu	37	chr1	50884941	50884941	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgatggcctgcaccacgTcgccgccgcagccctgcaac	6	5	11	19	5	0	0	0	0	0	0	2	1	0	0	5	1	4	4	5	1	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:50884941T>G	uc010ona.1	-	2	1121	c.1025A>C	c.(1024-1026)GAC>GCC	p.D342A	DMRTA2_uc010onb.1_Missense_Mutation_p.D342A	NM_032110	NP_115486	Q96SC8	DMTA2_HUMAN	DMRT-like family A2	342	Gly-rich.				sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0						CTGCACCACGTCGCCGCCGCA	0.726													3	14					0	0	1	0	0		G	50884941	G	G	50884941	3	3	82	1	0	0	0	0	1	0	0	0	4595	1667	58	5	607	5	DMRTA2	1	50884941	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3350526	50884941	198365680	28	50484											
ZFYVE9	9372	broad.mit.edu	37	chr1	52703680	52703680	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaactgatcaatttagtttTagtataaatgagtccactga	15	14	6	6	0	1	3	1	3	0	0	2	3	2	3	1	0	1	2	1	0	7	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:52703680T>C	uc001cto.2	+	4	763	c.591T>C	c.(589-591)TTT>TTC	p.F197F	ZFYVE9_uc001ctn.2_Silent_p.F197F|ZFYVE9_uc001ctp.2_Silent_p.F197F	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	197					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						AATTTAGTTTTAGTATAAATG	0.333													19	52					0	0	1	0	0		C	52703680	C	C	52703680	2	2	82	1	0	0	0	0	0	0	0	1	17696	1751	61	3		3	ZFYVE9	1	52703680	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1818739	52703680	196546941	29	50485											
SCP2	6342	broad.mit.edu	37	chr1	53493736	53493736	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaggagattgagaagaaacTtgaagaggtaagatttatgt	17	11	12	1	0	0	6	0	2	0	5	0	8	0	6	0	2	1	1	0	2	6	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:53493736T>C	uc001cur.1	+	13	1452	c.1331T>C	c.(1330-1332)CTT>CCT	p.L444P	SCP2_uc001cus.1_RNA|SCP2_uc010ono.1_Missense_Mutation_p.L363P|SCP2_uc010onp.1_Missense_Mutation_p.L420P|SCP2_uc009vzi.1_Missense_Mutation_p.L400P|SCP2_uc010onq.1_Missense_Mutation_p.L40P|SCP2_uc001cut.1_Missense_Mutation_p.L37P|SCP2_uc001cuu.1_Missense_Mutation_p.L40P	NM_002979	NP_002970	P22307	NLTP_HUMAN	sterol carrier protein 2 isoform 1 proprotein	444	SCP2.				bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|lipid transport	mitochondrion|nucleus|peroxisomal matrix	propanoyl-CoA C-acyltransferase activity|propionyl-CoA C2-trimethyltridecanoyltransferase activity|protein binding|sterol binding			breast(1)	1						GAGAAGAAACTTGAAGAGGTA	0.408													5	22					0	0	1	0	0		C	53493736	C	C	53493736	3	2	82	1	0	0	0	0	1	0	0	0	13959	1609	56	3	1405	3	SCP2	1	53493736	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	790056	53493736	195756885	30	50486											
C1orf177	163747	broad.mit.edu	37	chr1	55279516	55279516	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccagggaactgatgaatttCaagagctttgtagaagaact	14	10	10	7	0	1	5	1	2	0	3	1	6	1	6	1	1	3	2	1	1	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:55279516C>T	uc001cyb.3	+	7	846	c.792C>T	c.(790-792)TTC>TTT	p.F264F	C1orf177_uc001cya.3_Silent_p.F264F	NM_001110533	NP_001104003	Q3ZCV2	CA177_HUMAN	hypothetical protein LOC163747 isoform 2	264											0						TGATGAATTTCAAGAGCTTTG	0.413													10	61					0	0	1	0	0		T	55279516	T	T	55279516	2	4	82	1	0	0	0	0	0	0	0	1	2020	825	29	4		4	C1orf177	1	55279516	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	1785780	55279516	193971105	31	50487											
PRKAA2	5563	broad.mit.edu	37	chr1	57173228	57173228	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttacacagaccaagatcaAgttttgattccacaactgca	14	10	6	11	0	1	3	1	1	0	2	2	3	2	3	2	0	3	3	2	0	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:57173228A>T	uc001cyk.3	+	9	1572	c.1501A>T	c.(1501-1503)AGT>TGT	p.S501C		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	501					carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						ACCAAGATCAAGTTTTGATTC	0.493													41	102					0	0	1	0	0		T	57173228	T	T	57173228	3	4	82	1	0	0	0	0	1	0	0	0	12516	72	3	5	1535	5	PRKAA2	1	57173228	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1893712	57173228	192077393	32	50488											
CYP2J2	1573	broad.mit.edu	37	chr1	60381714	60381714	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaagggcaagccagtaataAgaactgcagatatgtcacca	16	8	9	8	0	1	2	1	0	0	2	1	2	1	2	2	1	3	3	2	1	6	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:60381714A>C	uc001czq.2	-	2	274	c.269T>G	c.(268-270)CTT>CGT	p.L90R		NM_000775	NP_000766	P51589	CP2J2_HUMAN	cytochrome P450, family 2, subfamily J,	90					epoxygenase P450 pathway|linoleic acid metabolic process|regulation of heart contraction|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	arachidonic acid 11,12-epoxygenase activity|arachidonic acid 14,15-epoxygenase activity|aromatase activity|electron carrier activity|heme binding|linoleic acid epoxygenase activity			ovary(1)	1	all_cancers(7;0.000396)					GCCAGTAATAAGAACTGCAGA	0.403													8	67					0	0	1	0	0		C	60381714	C	C	60381714	3	2	82	1	0	0	0	0	1	0	0	0	4175	72	3	5	1271	5	CYP2J2	1	60381714	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3208486	60381714	188868907	33	50489											
NFIA	4774	broad.mit.edu	37	chr1	61743219	61743219	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatctgaaagtcccagccAgccaagtgacgctgacatta	13	8	8	12	1	2	3	1	3	1	0	3	3	3	3	3	0	2	1	3	0	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:61743219A>G	uc001czw.2	+	3	1071	c.587A>G	c.(586-588)CAG>CGG	p.Q196R	NFIA_uc001czy.2_Missense_Mutation_p.Q188R|NFIA_uc010oos.1_Missense_Mutation_p.Q241R|NFIA_uc001czv.2_Missense_Mutation_p.Q196R	NM_001134673	NP_001128145	Q12857	NFIA_HUMAN	nuclear factor I/A isoform 1	196					DNA replication|viral genome replication	cell junction|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)|skin(1)	2						AGTCCCAGCCAGCCAAGTGAC	0.473													11	66					0	0	1	0	0		G	61743219	G	G	61743219	3	3	82	1	0	0	0	0	1	0	0	0	10389	188	7	3	743	3	NFIA	1	61743219	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1361505	61743219	187507402	34	50490											
KANK4	163782	broad.mit.edu	37	chr1	62733982	62733982	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcggccttggagtgggggacTtcttccccaggcccactttc	4	11	12	14	1	1	0	0	0	1	0	4	2	2	2	4	5	0	0	4	5	0	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:62733982T>C	uc001dah.3	-	5	2585	c.2208A>G	c.(2206-2208)GAA>GAG	p.E736E	KANK4_uc001dai.3_Silent_p.E108E|KANK4_uc001dag.3_Silent_p.E92E	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	736										ovary(3)|skin(2)|lung(1)	6						AGTGGGGGACTTCTTCCCCAG	0.567													7	38					0	0	1	0	0		C	62733982	C	C	62733982	2	2	82	1	0	0	0	0	0	0	0	1	7995	1606	56	3		3	KANK4	1	62733982	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	990763	62733982	186516639	35	50491											
EFCAB7	84455	broad.mit.edu	37	chr1	64036736	64036736	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcagcaatgagctaagtaaAaactgcataaacaacagagg	20	6	8	7	0	1	2	1	1	0	1	1	2	1	2	0	1	6	4	0	1	8	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:64036736A>C	uc001dbf.2	+	13	2046	c.1752A>C	c.(1750-1752)AAA>AAC	p.K584N		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	584							calcium ion binding				0						AGCTAAGTAAAAACTGCATAA	0.299													5	86					0	0	1	0	0		C	64036736	C	C	64036736	3	2	82	1	0	0	0	0	1	0	0	0	4946	11	1	5	1798	5	EFCAB7	1	64036736	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1302754	64036736	185213885	36	50492											
SGIP1	84251	broad.mit.edu	37	chr1	67142729	67142729	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggggttcaggccaaccaaTtaatccaagcatggagtcgc	12	8	11	10	1	1	0	1	0	0	0	3	1	2	1	3	4	2	2	3	4	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:67142729T>G	uc001dcr.2	+	13	906	c.689T>G	c.(688-690)ATT>AGT	p.I230S	SGIP1_uc010opd.1_5'UTR|SGIP1_uc001dcs.2_5'UTR|SGIP1_uc001dct.2_5'UTR|uc010ope.1_5'Flank|SGIP1_uc009wat.2_5'UTR	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	230	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						GGCCAACCAATTAATCCAAGC	0.398													15	60					0	0	1	0	0		G	67142729	G	G	67142729	3	3	82	1	0	0	0	0	1	0	0	0	14231	1493	52	5	739	5	SGIP1	1	67142729	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3105993	67142729	182107892	37	50493											
DIRAS3	9077	broad.mit.edu	37	chr1	68512291	68512291	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctcttaaggcccagggcTcacatgattatgcacttgtc	8	12	10	11	0	2	1	1	1	1	0	3	1	2	1	1	3	1	3	1	3	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:68512291T>C	uc001ded.2	-	2	985	c.690A>G	c.(688-690)TGA>TGG	p.*230W	uc001deb.1_Intron|uc001dec.1_Intron	NM_004675	NP_004666	O95661	DIRA3_HUMAN	DIRAS family, GTP-binding RAS-like 3	230					regulation of cyclin-dependent protein kinase activity|regulation of gene expression by genetic imprinting|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						GGCCCAGGGCTCACATGATTA	0.483													18	62					0	0	1	0	0		C	68512291	C	C	68512291	4	2	82	1	0	0	0	0	0	0	0	0	4538	1564	54	3	3	3	DIRAS3	1	68512291	Nonstop_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1369562	68512291	180738330	38	50494											
RPE65	6121	broad.mit.edu	37	chr1	68912456	68912456	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaggagggcttgcccatcaAacaggtggtaaaatggctca	12	7	13	9	0	2	0	2	0	0	0	2	1	2	1	1	5	2	4	1	5	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:68912456A>C	uc001dei.1	-	3	236	c.182T>G	c.(181-183)TTT>TGT	p.F61C		NM_000329	NP_000320	Q16518	RPE65_HUMAN	retinal pigment epithelium-specific protein	61					visual perception	cytoplasm|plasma membrane	all-trans-retinyl-palmitate hydrolase activity|metal ion binding|retinol isomerase activity			ovary(1)	1						TTGCCCATCAAACAGGTGGTA	0.522													8	67					0	0	1	0	0		C	68912456	C	C	68912456	3	2	82	1	0	0	0	0	1	0	0	0	13570	14	1	5	1467	5	RPE65	1	68912456	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	400165	68912456	180338165	39	50495											
LRRIQ3	127255	broad.mit.edu	37	chr1	74621506	74621506	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaattgcattaatttttgaAgtaatatgtttaatattatt	15	20	5	1	0	0	2	0	1	0	1	0	2	0	2	0	0	1	3	0	0	8	11			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:74621506A>T	uc001dfy.3	-	4	810	c.618T>A	c.(616-618)ACT>ACA	p.T206T	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	206										ovary(2)	2						TAATTTTTGAAGTAATATGTT	0.244													15	33					0	0	1	0	0		T	74621506	T	T	74621506	2	4	82	1	0	0	0	0	0	0	0	1	9048	59	3	5		5	LRRIQ3	1	74621506	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5709050	74621506	174629115	40	50496											
LPHN2	23266	broad.mit.edu	37	chr1	82445580	82445580	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatcttcttggtgatcacaTtgtgcaaaatggtgaagcat	11	15	9	6	0	3	2	1	2	2	0	3	2	3	2	0	2	2	2	0	2	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:82445580T>G	uc001dit.3	+	17	3179	c.2998T>G	c.(2998-3000)TTG>GTG	p.L1000V	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.L1000V|LPHN2_uc001div.2_Missense_Mutation_p.L1000V|LPHN2_uc009wcd.2_Missense_Mutation_p.L1000V|LPHN2_uc001diw.2_Missense_Mutation_p.L584V|LPHN2_uc009wce.1_Missense_Mutation_p.L86V	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	1013	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		GGTGATCACATTGTGCAAAAT	0.294													11	36					0	0	1	0	0		G	82445580	G	G	82445580	3	3	82	1	0	0	0	0	1	0	0	0	8934	1490	52	5	3056	5	LPHN2	1	82445580	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7824074	82445580	166805041	41	50497											
TTLL7	79739	broad.mit.edu	37	chr1	84387044	84387044	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcctttgagcctcagctttTtgtttggccaagtttcttct	4	19	7	11	0	3	1	1	1	2	0	4	1	4	1	3	1	2	3	3	1	1	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:84387044T>G	uc001djc.2	-	11	1572	c.1176A>C	c.(1174-1176)CAA>CAC	p.Q392H	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_RNA|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	392					cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		CCTCAGCTTTTTGTTTGGCCA	0.428													9	39					0	0	1	0	0		G	84387044	G	G	84387044	3	3	82	1	0	0	0	0	1	0	0	0	16758	1838	64	5	1531	5	TTLL7	1	84387044	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1941464	84387044	164863577	42	50498											
TTLL7	79739	broad.mit.edu	37	chr1	84412957	84412957	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tataatccagaggccgagacTtgatcattctgtaaattgga	13	12	9	7	1	2	3	1	1	1	2	3	5	3	4	2	2	0	1	2	2	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:84412957T>A	uc001djc.2	-	6	752	c.356A>T	c.(355-357)AAG>ATG	p.K119M	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_Intron|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	119	TTL.				cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		AGGCCGAGACTTGATCATTCT	0.328													20	32					0	0	1	0	0		A	84412957	A	A	84412957	3	1	82	1	0	0	0	0	1	0	0	0	16758	1609	56	5	2371	5	TTLL7	1	84412957	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	25913	84412957	164837664	43	50499											
MCOLN3	55283	broad.mit.edu	37	chr1	85486830	85486830	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataaagaggctgatgaatgAgtagaggtaaattctactaa	17	11	10	3	0	1	5	0	3	1	2	1	5	1	5	0	2	1	3	0	2	9	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:85486830A>C	uc001dkp.2	-	12	1543	c.1450T>G	c.(1450-1452)TCA>GCA	p.S484A	MCOLN3_uc001dko.2_Missense_Mutation_p.S103A|MCOLN3_uc001dkq.2_Missense_Mutation_p.S428A	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	484	Helical; (Potential).					integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		CTGATGAATGAGTAGAGGTAA	0.338													15	40					0	0	1	0	0		C	85486830	C	C	85486830	3	2	82	1	0	0	0	0	1	0	0	0	9415	304	11	5	219	5	MCOLN3	1	85486830	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1073873	85486830	163763791	44	50500											
SYDE2	84144	broad.mit.edu	37	chr1	85648753	85648753	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaaagtttcctcacagtTcgtggagattttattttatc	10	17	8	6	1	1	1	1	0	0	1	4	3	2	2	1	2	0	2	1	2	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:85648753T>C	uc009wcm.2	-	3	1621	c.1572A>G	c.(1570-1572)CGA>CGG	p.R524R	SYDE2_uc001dku.3_Silent_p.R524R	NM_032184	NP_115560	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2	524					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|central_nervous_system(1)	2				all cancers(265;0.0126)|Epithelial(280;0.0336)		TCCTCACAGTTCGTGGAGATT	0.358													7	156					0	0	1	0	0		C	85648753	C	C	85648753	2	2	82	1	0	0	0	0	0	0	0	1	15461	1770	62	3		3	SYDE2	1	85648753	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	161923	85648753	163601868	45	50501											
BARHL2	343472	broad.mit.edu	37	chr1	91178170	91178170	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcccaccgctgtctgccgcTtccacttggtcctgaaagaa	7	9	10	15	2	1	2	0	1	1	1	3	2	3	2	5	2	1	2	5	2	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:91178170T>C	uc001dns.2	-	3	905	c.863A>G	c.(862-864)AAG>AGG	p.K288R		NM_020063	NP_064447	Q9NY43	BARH2_HUMAN	BarH-like homeobox 2	288	Homeobox.					nucleus	sequence-specific DNA binding			ovary(1)	1		all_lung(203;0.0263)|Lung SC(238;0.128)		all cancers(265;0.000897)|Epithelial(280;0.00516)|OV - Ovarian serous cystadenocarcinoma(397;0.211)		TGTCTGCCGCTTCCACTTGGT	0.622													3	25					0	0	1	0	0		C	91178170	C	C	91178170	3	2	82	1	0	0	0	0	1	0	0	0	1315	1609	56	3	304	3	BARHL2	1	91178170	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5529417	91178170	158072451	46	50502											
CCDC18	343099	broad.mit.edu	37	chr1	93667544	93667544	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtggctgaaaaactggaaaAggtaaaaggcagttgtgcaa	17	7	13	4	0	0	1	0	1	0	0	0	2	0	2	0	4	2	5	0	4	7	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:93667544A>C	uc001dpq.2	+	7	1316	c.1148A>C	c.(1147-1149)AAG>ACG	p.K383T		NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	265	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		AAACTGGAAAAGGTAAAAGGC	0.333													4	27					0	0	1	0	0		C	93667544	C	C	93667544	3	2	82	1	0	0	0	0	1	0	0	0	2797	86	3	5	1174	5	CCDC18	1	93667544	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2489374	93667544	155583077	47	50503											
F3	2152	broad.mit.edu	37	chr1	94998735	94998735	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttaggaaagtgttgttccTtctgactaaagtccgttcat	9	15	9	8	1	2	1	1	1	1	0	4	2	4	2	2	1	0	4	2	1	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:94998735T>G	uc001dqr.2	-	4	681	c.502A>C	c.(502-504)AGG>CGG	p.R168R	F3_uc001dqp.2_RNA|F3_uc001dqq.2_RNA|F3_uc001dqs.2_Silent_p.R168R	NM_001993	NP_001984	P13726	TF_HUMAN	coagulation factor III precursor	168	Extracellular (Potential).				activation of caspase activity|activation of plasma proteins involved in acute inflammatory response|anti-apoptosis|blood coagulation, extrinsic pathway|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of protein kinase B signaling cascade	extracellular matrix|extracellular space|integral to membrane	cell surface binding|phospholipid binding|protease binding			central_nervous_system(1)	1		all_lung(203;0.00106)|Lung NSC(277;0.00475)		all cancers(265;0.0232)|Epithelial(280;0.121)	Coagulation factor VIIa(DB00036)	GTGTTGTTCCTTCTGACTAAA	0.398													9	75					0	0	1	0	0		G	94998735	G	G	94998735	2	3	82	1	0	0	0	0	0	0	0	1	5355	1608	56	5		5	F3	1	94998735	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1331191	94998735	154251886	48	50504											
LPPR4	9890	broad.mit.edu	37	chr1	99771358	99771358	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accgacttttatctgctaaaAatggtagcagcagtgatgga	13	11	10	7	1	1	1	0	1	1	0	1	3	1	2	1	2	3	4	1	2	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:99771358A>G	uc001dse.2	+	7	1190	c.1084A>G	c.(1084-1086)AAT>GAT	p.N362D	LPPR4_uc010oue.1_Missense_Mutation_p.N304D	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	362							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		ATCTGCTAAAAATGGTAGCAG	0.458													18	101					0	0	1	0	0		G	99771358	G	G	99771358	3	3	82	1	0	0	0	0	1	0	0	0	8945	14	1	3	1110	3	LPPR4	1	99771358	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4772623	99771358	149479263	49	50505											
GPSM2	29899	broad.mit.edu	37	chr1	109444457	109444457	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaaagaccgagctgtagaAgcacagtcttgttacagtct	12	11	9	9	1	2	2	0	0	2	2	2	3	2	2	1	0	3	4	1	0	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:109444457A>C	uc010ovc.1	+	8	1339	c.843A>C	c.(841-843)GAA>GAC	p.E281D	AKNAD1_uc010ovb.1_Intron|GPSM2_uc010ovd.1_Missense_Mutation_p.E281D|GPSM2_uc010ove.1_Missense_Mutation_p.E281D	NM_013296	NP_037428	P81274	GPSM2_HUMAN	LGN protein	281					G-protein coupled receptor protein signaling pathway	cell cortex|nucleus	GTPase activator activity|identical protein binding			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0353)|Lung(183;0.0984)|COAD - Colon adenocarcinoma(174;0.129)|Epithelial(280;0.175)|all cancers(265;0.209)		GAGCTGTAGAAGCACAGTCTT	0.373													8	51					0	0	1	0	0		C	109444457	C	C	109444457	3	2	82	1	0	0	0	0	1	0	0	0	6751	69	3	5	869	5	GPSM2	1	109444457	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	9673099	109444457	139806164	50	50506											
KCNA10	3744	broad.mit.edu	37	chr1	111060063	111060063	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacaggcacagggagggcAatggtgaggacccctgcaat	12	5	15	9	0	0	2	0	2	0	0	0	4	0	4	2	5	1	3	2	5	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:111060063A>G	uc001dzt.1	-	1	1735	c.1347T>C	c.(1345-1347)ATT>ATC	p.I449I		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	449	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		CAGGGAGGGCAATGGTGAGGA	0.522													13	37					0	0	1	0	0		G	111060063	G	G	111060063	2	3	82	1	0	0	0	0	0	0	0	1	8018	126	5	3		3	KCNA10	1	111060063	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1615606	111060063	138190558	51	50507											
ST7L	54879	broad.mit.edu	37	chr1	113120988	113120988	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctgaaacagtccttgtcTtcaacagtgctgctgtgtaa	9	15	8	9	0	3	1	1	1	2	0	4	1	4	1	1	0	4	3	1	0	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:113120988T>G	uc001ecd.2	-	10	1426	c.1121A>C	c.(1120-1122)AAG>ACG	p.K374T	ST7L_uc009wgh.2_RNA|ST7L_uc001ecc.2_Missense_Mutation_p.K191T|ST7L_uc010owg.1_Missense_Mutation_p.K309T|ST7L_uc010owh.1_Missense_Mutation_p.K168T|ST7L_uc001ece.2_Missense_Mutation_p.K374T|ST7L_uc001ecf.2_Missense_Mutation_p.K357T|ST7L_uc001ecg.2_RNA|ST7L_uc010owi.1_Missense_Mutation_p.K309T|ST7L_uc001ech.2_Missense_Mutation_p.K357T|ST7L_uc001eci.2_Missense_Mutation_p.K374T|ST7L_uc009wgi.1_RNA|ST7L_uc010owj.1_Missense_Mutation_p.K357T	NM_017744	NP_060214	Q8TDW4	ST7L_HUMAN	suppression of tumorigenicity 7-like isoform 1	374					negative regulation of cell growth	integral to membrane	binding				0	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGTCCTTGTCTTCAACAGTGC	0.343													22	90					0	0	1	0	0		G	113120988	G	G	113120988	3	3	82	1	0	0	0	0	1	0	0	0	15255	1609	56	5	669	5	ST7L	1	113120988	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2060925	113120988	136129633	52	50508											
SYCP1	6847	broad.mit.edu	37	chr1	115418757	115418757	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagactggaaatgcattttaAgtgtaggtatagggatctta	13	13	11	4	0	1	1	0	0	1	1	1	3	1	3	0	3	1	3	0	3	6	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:115418757A>C	uc001efr.2	+	10	934	c.725A>C	c.(724-726)AAG>ACG	p.K242T	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.K242T|SYCP1_uc009wgw.2_Missense_Mutation_p.K242T	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	242	Potential.				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATGCATTTTAAGTGTAGGTAT	0.274													13	52					0	0	1	0	0		C	115418757	C	C	115418757	3	2	82	1	0	0	0	0	1	0	0	0	15456	72	3	5	759	5	SYCP1	1	115418757	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2297769	115418757	133831864	53	50509											
PTGFRN	5738	broad.mit.edu	37	chr1	117509665	117509665	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttctcatcatggctgagaAgcctgtcggcgacctctcca	7	11	10	13	2	3	1	2	1	2	1	6	3	3	1	3	2	1	2	3	2	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:117509665A>G	uc001egv.1	+	6	1909	c.1772A>G	c.(1771-1773)AAG>AGG	p.K591R		NM_020440	NP_065173	Q9P2B2	FPRP_HUMAN	prostaglandin F2 receptor negative regulator	591	Ig-like C2-type 5.|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	protein binding			liver(1)	1	Lung SC(450;0.225)	all_cancers(81;0.00104)|all_lung(203;8.97e-05)|all_epithelial(167;0.000139)|Lung NSC(69;0.000446)		Lung(183;0.0704)|LUSC - Lung squamous cell carcinoma(189;0.227)|Colorectal(144;0.248)		ATGGCTGAGAAGCCTGTCGGC	0.473													20	52					0	0	1	0	0		G	117509665	G	G	117509665	3	3	82	1	0	0	0	0	1	0	0	0	12773	72	3	3	1794	3	PTGFRN	1	117509665	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2090908	117509665	131740956	54	50510											
SPAG17	200162	broad.mit.edu	37	chr1	118571009	118571009	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaacaggttctggttctacTtcttcttcctgtaaataatt	11	17	5	8	0	4	0	0	0	4	0	5	0	5	0	1	2	2	3	1	2	6	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:118571009T>G	uc001ehk.2	-	26	3686	c.3618A>C	c.(3616-3618)GAA>GAC	p.E1206D		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1206						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		CTGGTTCTACTTCTTCTTCCT	0.413													27	74					0	0	1	0	0		G	118571009	G	G	118571009	3	3	82	1	0	0	0	0	1	0	0	0	15004	1606	56	5	3145	5	SPAG17	1	118571009	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1061344	118571009	130679612	55	50511											
SPAG17	200162	broad.mit.edu	37	chr1	118629317	118629317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgcgtacttcttgtgggCgtgtgcatcatgatagttca	7	15	12	7	2	3	1	2	1	1	0	3	1	3	1	0	1	3	3	0	1	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:118629317C>T	uc001ehk.2	-	12	1656	c.1588G>A	c.(1588-1590)GCC>ACC	p.A530T		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	530						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TTCTTGTGGGCGTGTGCATCA	0.393													18	65					0	0	1	0	0		T	118629317	T	T	118629317	3	4	82	1	0	0	0	0	1	0	0	0	15004	768	27	1	5231	1	SPAG17	1	118629317	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	58308	118629317	130621304	56	50512											
PDE4DIP	9659	broad.mit.edu	37	chr1	144922549	144922549	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgcttttcagagtttccttGaggttctgaattgtaccatc	7	17	8	9	0	2	3	1	2	1	1	4	3	3	3	2	1	2	4	2	1	2	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:144922549G>C	uc001elw.3	-	7	1149	c.858C>G	c.(856-858)CTC>CTG	p.L286L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Silent_p.L352L|PDE4DIP_uc001emc.1_Silent_p.L286L|PDE4DIP_uc001emd.1_Silent_p.L286L|PDE4DIP_uc001emb.1_Silent_p.L449L|PDE4DIP_uc001eme.1_5'Flank|PDE4DIP_uc001emf.1_Silent_p.L73L	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	286	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GAGTTTCCTTGAGGTTCTGAA	0.383			T	PDGFRB	MPD								55	386					0	0	1	0	0		C	144922549	C	C	144922549	2	2	82	1	0	0	0	0	0	0	0	1	11662	1277	45	5		5	PDE4DIP	1	144922549	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	26293232	144922549	104328072	57	50513											
PDE4DIP	9659	broad.mit.edu	37	chr1	144952201	144952201	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagcaccgaaggcacctacTtgtccctctgggccagggcc	8	6	12	15	1	1	1	0	0	1	1	2	2	2	1	5	3	2	2	5	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:144952201T>G	uc001elw.3	-	4	809	c.518A>C	c.(517-519)AAG>ACG	p.K173T	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.K239T|PDE4DIP_uc001emc.1_Missense_Mutation_p.K173T|PDE4DIP_uc001emd.1_Missense_Mutation_p.K173T|PDE4DIP_uc001emg.1_Missense_Mutation_p.K173T|PDE4DIP_uc001emh.2_Missense_Mutation_p.K310T	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	173	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		AGGCACCTACTTGTCCCTCTG	0.522			T	PDGFRB	MPD								8	170					0	0	1	0	0		G	144952201	G	G	144952201	3	3	82	1	0	0	0	0	1	0	0	0	11662	1623	56	5	7829	5	PDE4DIP	1	144952201	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	29652	144952201	104298420	58	50514											
NBPF10	100132406	broad.mit.edu	37	chr1	145297634	145297634	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctagaaaatgacgaagatgAggatgaagatgttcaagttg	16	10	12	3	1	2	6	1	3	1	3	2	8	2	7	0	1	0	2	0	1	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:145297634A>T	uc001end.3	+	4	544	c.509A>T	c.(508-510)GAG>GTG	p.E170V	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_Missense_Mutation_p.E170V|NBPF10_uc001emq.1_Intron	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	170											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		GACGAAGATGAGGATGAAGAT	0.433													27	469					0	0	1	0	0		T	145297634	T	T	145297634	3	4	82	1	0	0	0	0	1	0	0	0	10211	304	11	5	523	5	NBPF10	1	145297634	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	345433	145297634	103952987	59	50515											
TXNIP	10628	broad.mit.edu	37	chr1	145441019	145441019	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctttatgtatgcccctgAgttcaagttcatgccaccac	9	14	6	12	0	3	1	2	1	1	0	3	1	3	1	4	0	2	3	4	0	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:145441019A>T	uc001enn.3	+	7	1447	c.1106A>T	c.(1105-1107)GAG>GTG	p.E369V	NBPF10_uc001emp.3_Intron|TXNIP_uc001enm.1_Intron|TXNIP_uc010oys.1_Missense_Mutation_p.E314V	NM_006472	NP_006463	Q9H3M7	TXNIP_HUMAN	thioredoxin interacting protein	369					cell cycle|keratinocyte differentiation|transcription, DNA-dependent		ubiquitin protein ligase binding			ovary(2)	2	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TATGCCCCTGAGTTCAAGTTC	0.443													49	141					0	0	1	0	0		T	145441019	T	T	145441019	3	4	82	1	0	0	0	0	1	0	0	0	16829	304	11	5	1132	5	TXNIP	1	145441019	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	143385	145441019	103809602	60	50516											
NBPF15	284565	broad.mit.edu	37	chr1	148594490	148594490	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtcaatgtactttgaacaAcctgactcattccagcacta	12	11	5	13	1	2	2	2	2	0	0	3	2	3	2	3	0	4	2	3	0	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:148594490A>C	uc001esc.2	+	19	2352	c.1863A>C	c.(1861-1863)CAA>CAC	p.Q621H		NM_173638	NP_775909	Q8N660	NBPFF_HUMAN	hypothetical protein LOC284565	621	NBPF 6.					cytoplasm					0	all_hematologic(923;0.032)					ACTTTGAACAACCTGACTCAT	0.448													55	332					0	0	1	0	0		C	148594490	C	C	148594490	3	2	82	1	0	0	0	0	1	0	0	0	10214	40	2	5	1921	5	NBPF15	1	148594490	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3153471	148594490	100656131	61	50517											
PLEKHO1	51177	broad.mit.edu	37	chr1	150128276	150128276	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaggtaaaagatgagaaaaAtattcaagaggtatttgacc	18	10	9	4	0	1	4	1	2	0	3	1	5	1	4	1	2	0	2	1	2	8	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:150128276A>C	uc001ett.2	+	3	472	c.194A>C	c.(193-195)AAT>ACT	p.N65T	PLEKHO1_uc001etr.2_5'UTR|PLEKHO1_uc001ets.2_5'UTR|PLEKHO1_uc001etu.2_5'UTR	NM_016274	NP_057358	Q53GL0	PKHO1_HUMAN	pleckstrin homology domain containing, family O	65	PH.					cytoplasm|nucleus|plasma membrane				lung(1)	1	Lung NSC(24;7.78e-28)|Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GATGAGAAAAATATTCAAGAG	0.433													7	153					0	0	1	0	0		C	150128276	C	C	150128276	3	2	82	1	0	0	0	0	1	0	0	0	12103	101	4	5	204	5	PLEKHO1	1	150128276	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1533786	150128276	99122345	62	50518											
RPRD2	23248	broad.mit.edu	37	chr1	150443335	150443335	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttacagctacccacaatacTagccctgctgccccacctac	10	9	4	18	0	0	0	0	0	0	0	0	0	0	0	5	0	8	2	5	0	6	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:150443335T>C	uc009wlr.2	+	11	2112	c.1911T>C	c.(1909-1911)ACT>ACC	p.T637T	RPRD2_uc010pcc.1_Silent_p.T611T|RPRD2_uc001eup.3_Silent_p.T611T	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	637	Ser-rich.						protein binding			ovary(1)	1						CCCACAATACTAGCCCTGCTG	0.522													15	72					0	0	1	0	0		C	150443335	C	C	150443335	2	2	82	1	0	0	0	0	0	0	0	1	13642	1509	53	3		3	RPRD2	1	150443335	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	315059	150443335	98807286	63	50519											
POGZ	23126	broad.mit.edu	37	chr1	151384138	151384138	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgttggaatgcattgccaTttttgaagaccttcaggcaa	10	13	10	8	0	1	2	1	1	0	1	1	3	1	3	2	2	2	4	2	2	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:151384138T>G	uc001eyd.1	-	12	2195	c.1889A>C	c.(1888-1890)AAT>ACT	p.N630T	POGZ_uc001eye.1_Missense_Mutation_p.N577T|POGZ_uc010pdb.1_Missense_Mutation_p.N621T|POGZ_uc001eyf.1_Missense_Mutation_p.N586T|POGZ_uc010pdc.1_Missense_Mutation_p.N568T|POGZ_uc009wmv.1_Missense_Mutation_p.N535T|POGZ_uc010pdd.1_Missense_Mutation_p.N121T	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	630	C2H2-type 6.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TGCATTGCCATTTTTGAAGAC	0.438													28	65					0	0	1	0	0		G	151384138	G	G	151384138	3	3	82	1	0	0	0	0	1	0	0	0	12205	1493	52	5	2375	5	POGZ	1	151384138	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	940803	151384138	97866483	64	50520											
TCHHL1	126637	broad.mit.edu	37	chr1	152059288	152059288	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttctctttgtaggggtggTtcttgtatattagagtgttt	5	21	11	4	0	3	1	0	0	3	1	4	1	3	1	0	3	0	4	0	3	4	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:152059288T>G	uc001ezo.1	-	3	935	c.870A>C	c.(868-870)GAA>GAC	p.E290D		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	290							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			GTAGGGGTGGTTCTTGTATAT	0.443													51	155					0	0	1	0	0		G	152059288	G	G	152059288	3	3	82	1	0	0	0	0	1	0	0	0	15726	1722	60	5	1848	5	TCHHL1	1	152059288	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	675150	152059288	97191333	65	50521											
FLG	2312	broad.mit.edu	37	chr1	152278844	152278844	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttcctcattacgtgttgTtctgcttgcacttctggatc	4	19	8	10	1	3	0	1	0	2	0	5	1	4	1	1	1	3	5	1	1	1	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:152278844T>A	uc001ezu.1	-	3	8554	c.8518A>T	c.(8518-8520)ACA>TCA	p.T2840S		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2840	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTACGTGTTGTTCTGCTTGCA	0.562									Ichthyosis				90	625					0	0	1	0	0		A	152278844	A	A	152278844	3	1	82	1	0	0	0	0	1	0	0	0	5936	1725	60	5	3671	5	FLG	1	152278844	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	219556	152278844	96971777	66	50522											
FLG	2312	broad.mit.edu	37	chr1	152281847	152281847	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggctgtgatgagaccctgAgtgtccagaactatctaccg	9	10	12	10	1	1	4	0	3	1	2	2	5	2	4	3	1	2	1	3	1	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:152281847A>G	uc001ezu.1	-	3	5551	c.5515T>C	c.(5515-5517)TCA>CCA	p.S1839P		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1839	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGAGACCCTGAGTGTCCAGAA	0.547									Ichthyosis				22	505					0	0	1	0	0		G	152281847	G	G	152281847	3	3	82	1	0	0	0	0	1	0	0	0	5936	304	11	3	6674	3	FLG	1	152281847	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3003	152281847	96968774	67	50523											
FLG	2312	broad.mit.edu	37	chr1	152283117	152283117	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgctgatggggcccagcTtgtccgtgggctgacactga	5	10	14	12	1	1	3	0	3	1	0	2	3	2	3	2	3	2	3	2	3	0	1	rs150981235		TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:152283117T>C	uc001ezu.1	-	3	4281	c.4245A>G	c.(4243-4245)CAA>CAG	p.Q1415Q	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1415	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGGGCCCAGCTTGTCCGTGGG	0.562									Ichthyosis				89	279					0	0	1	0	0		C	152283117	C	C	152283117	2	2	82	1	0	0	0	0	0	0	0	1	5936	1606	56	3		3	FLG	1	152283117	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1270	152283117	96967504	68	50524											
SPRR2D	6703	broad.mit.edu	37	chr1	153012624	153012624	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacttgctcttgggtggacActttggctggcagggtgggg	4	13	17	7	0	1	0	0	0	1	0	1	1	1	1	0	7	2	3	0	7	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:153012624A>C	uc001fbb.2	-	2	259	c.199T>G	c.(199-201)TGT>GGT	p.C67G	SPRR2D_uc009wnz.2_RNA	NM_006945	NP_008876	P22532	SPR2D_HUMAN	small proline-rich protein 2D	67					keratinization	cornified envelope|cytoplasm					0	Lung NSC(65;1.49e-28)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			TTGGGTGGACACTTTGGCTGG	0.542													55	156					0	0	1	0	0		C	153012624	C	C	153012624	3	2	82	1	0	0	0	0	1	0	0	0	15124	159	6	5	23	5	SPRR2D	1	153012624	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	729507	153012624	96237997	69	50525											
ADAR	103	broad.mit.edu	37	chr1	154561054	154561054	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagatggaatgacacagtcTtttttatttggagcttttct	10	17	8	6	0	2	2	0	1	2	1	2	4	2	4	0	2	1	1	0	2	2	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:154561054T>C	uc001ffh.2	-	10	3058	c.2858A>G	c.(2857-2859)AAG>AGG	p.K953R	ADAR_uc001ffj.2_Missense_Mutation_p.K908R|ADAR_uc001ffi.2_Missense_Mutation_p.K927R|ADAR_uc001ffk.2_Missense_Mutation_p.K658R	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	953	A to I editase.				adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		TGACACAGTCTTTTTTATTTG	0.443													32	109					0	0	1	0	0		C	154561054	C	C	154561054	3	2	82	1	0	0	0	0	1	0	0	0	281	1609	56	3	846	3	ADAR	1	154561054	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1548430	154561054	94689567	70	50526											
ASH1L	55870	broad.mit.edu	37	chr1	155448496	155448496	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagcagctgtaaggggtgAaggagagtaaggcataccat	13	6	17	5	0	0	2	0	1	0	1	0	4	0	3	1	5	3	5	1	5	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:155448496A>C	uc009wqq.2	-	3	4645	c.4165T>G	c.(4165-4167)TCA>GCA	p.S1389A	ASH1L_uc001fkt.2_Missense_Mutation_p.S1389A|ASH1L_uc009wqr.1_Missense_Mutation_p.S1389A	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1389	Pro-rich.				cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			GTAAGGGGTGAAGGAGAGTAA	0.468													26	50					0	0	1	0	0		C	155448496	C	C	155448496	3	2	82	1	0	0	0	0	1	0	0	0	1042	246	9	5	4833	5	ASH1L	1	155448496	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	887442	155448496	93802125	71	50527											
ASH1L	55870	broad.mit.edu	37	chr1	155450488	155450488	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagaccggcatgtgcttcTtgccaccactttagtccacc	7	11	9	14	1	1	1	0	0	1	1	2	2	2	1	5	2	2	2	5	2	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:155450488T>C	uc009wqq.2	-	3	2653	c.2173A>G	c.(2173-2175)AGA>GGA	p.R725G	ASH1L_uc001fkt.2_Missense_Mutation_p.R725G|ASH1L_uc009wqr.1_Missense_Mutation_p.R725G	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	725					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			CATGTGCTTCTTGCCACCACT	0.403													13	61					0	0	1	0	0		C	155450488	C	C	155450488	3	2	82	1	0	0	0	0	1	0	0	0	1042	1617	56	3	6825	3	ASH1L	1	155450488	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1992	155450488	93800133	72	50528											
CCDC19	25790	broad.mit.edu	37	chr1	159842746	159842746	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcgcacctcagctcttcaAgctttttcctcttgatctca	7	14	5	15	1	5	1	3	1	3	0	7	1	6	1	2	0	3	3	2	0	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:159842746A>G	uc001fui.2	-	11	1583	c.1565T>C	c.(1564-1566)CTT>CCT	p.L522P	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.L437P|CCDC19_uc001ful.2_Missense_Mutation_p.L437P	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	522	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			CAGCTCTTCAAGCTTTTTCCT	0.567													5	45					0	0	1	0	0		G	159842746	G	G	159842746	3	3	82	1	0	0	0	0	1	0	0	0	2798	72	3	3	98	3	CCDC19	1	159842746	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4392258	159842746	89407875	73	50529											
CASQ1	844	broad.mit.edu	37	chr1	160168757	160168757	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaagatggtttcgagttcTtagagactctcaaggctgtg	9	13	11	8	1	2	2	1	0	2	2	5	4	3	2	1	2	0	3	1	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:160168757T>G	uc010pja.1	+	9	1155	c.898T>G	c.(898-900)TTA>GTA	p.L300V		NM_001231	NP_001222	P31415	CASQ1_HUMAN	calsequestrin 1	300						mitochondrial matrix|sarcoplasmic reticulum lumen|smooth endoplasmic reticulum	calcium ion binding			central_nervous_system(1)	1	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TTTCGAGTTCTTAGAGACTCT	0.507													17	62					0	0	1	0	0		G	160168757	G	G	160168757	3	3	82	1	0	0	0	0	1	0	0	0	2683	1606	56	5	932	5	CASQ1	1	160168757	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	326011	160168757	89081864	74	50530											
OLFML2B	25903	broad.mit.edu	37	chr1	161969998	161969998	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggccggccggcctctcAggtggacctgcctctgcagg	4	6	17	14	2	2	0	1	0	2	0	3	2	2	2	5	7	2	1	5	7	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:161969998A>C	uc001gbu.2	-	5	1278	c.854T>G	c.(853-855)CTG>CGG	p.L285R	OLFML2B_uc010pkq.1_Missense_Mutation_p.L286R	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	285										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			CCGGCCTCTCAGGTGGACCTG	0.597													9	68					0	0	1	0	0		C	161969998	C	C	161969998	3	2	82	1	0	0	0	0	1	0	0	0	10877	188	7	5	1414	5	OLFML2B	1	161969998	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1801241	161969998	87280623	75	50531											
LRRC52	440699	broad.mit.edu	37	chr1	165532984	165532984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaagatgaggacgaggccGggactagggtggaagtcagc	13	4	18	6	2	1	3	1	1	0	2	1	7	1	6	1	5	1	0	1	5	4	1	rs150359687	byFrequency	TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:165532984G>A	uc001gde.2	+	2	921	c.865G>A	c.(865-867)GGG>AGG	p.G289R	LOC400794_uc001gdc.2_Intron|LOC400794_uc001gdd.2_Intron|LOC400794_uc009wvd.2_Intron	NM_001005214	NP_001005214	Q8N7C0	LRC52_HUMAN	leucine rich repeat containing 52 precursor	289	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)					GGACGAGGCCGGGACTAGGGT	0.567													13	71					0	0	1	0	0		A	165532984	A	A	165532984	3	1	82	1	0	0	0	0	1	0	0	0	9028	1116	39	1	871	1	LRRC52	1	165532984	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	3562986	165532984	83717637	76	50532											
ADCY10	55811	broad.mit.edu	37	chr1	167823637	167823637	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcttttcctcagactccgtTtgttggaaaacgagtacctc	8	14	8	11	2	2	1	1	0	1	1	5	3	4	2	3	1	2	3	3	1	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:167823637T>C	uc001ger.2	-	18	2560	c.2262A>G	c.(2260-2262)CAA>CAG	p.Q754Q	ADCY10_uc009wvk.2_Silent_p.Q662Q|ADCY10_uc010plj.1_Silent_p.Q601Q|ADCY10_uc009wvl.2_Silent_p.Q753Q	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	754					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						CAGACTCCGTTTGTTGGAAAA	0.433													32	75					0	0	1	0	0		C	167823637	C	C	167823637	2	2	82	1	0	0	0	0	0	0	0	1	293	1838	64	3		3	ADCY10	1	167823637	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2290653	167823637	81426984	77	50533											
XCL1	6375	broad.mit.edu	37	chr1	168550314	168550314	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaccaaacgtggcctaaaAgtctgtgctgatccacaagc	13	9	8	11	1	1	1	0	1	1	0	2	1	2	1	3	1	4	1	3	1	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:168550314A>G	uc001gfo.1	+	3	221	c.201A>G	c.(199-201)AAA>AAG	p.K67K		NM_002995	NP_002986	P47992	XCL1_HUMAN	chemokine (C motif) ligand 1	67					CD4-positive, alpha-beta T cell proliferation|CD8-positive, alpha-beta T cell proliferation|cell-cell signaling|cellular response to interleukin-4|cellular response to transforming growth factor beta stimulus|immunoglobulin production in mucosal tissue|lymphocyte chemotaxis|negative regulation of interferon-gamma production|negative regulation of interleukin-2 production|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell cytokine production|negative regulation of T-helper 1 cell activation|negative regulation of transcription, DNA-dependent|neutrophil chemotaxis|positive regulation of activated T cell proliferation|positive regulation of B cell chemotaxis|positive regulation of granzyme A production|positive regulation of granzyme B production|positive regulation of interleukin-10 production|positive regulation of natural killer cell chemotaxis|positive regulation of neutrophil chemotaxis|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of T cell chemotaxis|positive regulation of T cell cytokine production|positive regulation of T cell mediated cytotoxicity|positive regulation of thymocyte migration|positive regulation of transforming growth factor-beta production|regulation of inflammatory response|release of sequestered calcium ion into cytosol|response to virus|T-helper 1 cell cytokine production|T-helper 2 cell cytokine production	extracellular space	chemokine activity|protein homodimerization activity				0	all_hematologic(923;0.208)					GTGGCCTAAAAGTCTGTGCTG	0.478													12	48					0	0	1	0	0		G	168550314	G	G	168550314	2	3	82	1	0	0	0	0	0	0	0	1	17449	69	3	3		3	XCL1	1	168550314	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	726677	168550314	80700307	78	50534											
F5	2153	broad.mit.edu	37	chr1	169510764	169510764	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtcacctggctgaggtcTggagagatgactgtctgcca	8	9	15	9	0	3	3	1	2	2	1	3	5	3	4	2	4	1	1	2	4	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:169510764T>C	uc001ggg.1	-	13	3709	c.3564A>G	c.(3562-3564)CCA>CCG	p.P1188P		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1188	2-1.|35 X 9 AA approximate tandem repeats of [TNP]-L-S-P-D-L-S-Q-T.|B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	GGCTGAGGTCTGGAGAGATGA	0.502													75	195					0	0	1	0	0		C	169510764	C	C	169510764	2	2	82	1	0	0	0	0	0	0	0	1	5356	1567	55	3		3	F5	1	169510764	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	960450	169510764	79739857	79	50535											
F5	2153	broad.mit.edu	37	chr1	169511737	169511737	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaccttgggtcccttatgcTtagcatgttcttgacttttg	5	18	8	10	0	1	1	0	1	1	0	2	1	2	1	2	1	3	3	2	1	3	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:169511737T>G	uc001ggg.1	-	13	2736	c.2591A>C	c.(2590-2592)AAG>ACG	p.K864T		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	864	B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TCCCTTATGCTTAGCATGTTC	0.443													25	185					0	0	1	0	0		G	169511737	G	G	169511737	3	3	82	1	0	0	0	0	1	0	0	0	5356	1609	56	5	4135	5	F5	1	169511737	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	973	169511737	79738884	80	50536											
FMO3	2328	broad.mit.edu	37	chr1	171086467	171086467	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagtgggaccggtcgttgaAacccatgcagacacgagtgg	10	6	14	11	3	0	2	0	1	0	1	1	4	0	3	3	3	2	2	3	3	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:171086467A>C	uc001ghi.2	+	9	1595	c.1484A>C	c.(1483-1485)AAA>ACA	p.K495T	FMO3_uc001ghh.2_Missense_Mutation_p.K495T|FMO3_uc010pmb.1_Missense_Mutation_p.K475T|FMO3_uc010pmc.1_Missense_Mutation_p.K432T	NM_001002294	NP_001002294	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	495					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CGGTCGTTGAAACCCATGCAG	0.517													15	49					0	0	1	0	0		C	171086467	C	C	171086467	3	2	82	1	0	0	0	0	1	0	0	0	5970	14	1	5	1514	5	FMO3	1	171086467	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1574730	171086467	78164154	81	50537											
SLC9A11	284525	broad.mit.edu	37	chr1	173503803	173503803	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatactatgtgaaatataaaAgtcagaaatgtattactcct	18	13	5	5	0	1	2	1	1	0	1	2	2	2	2	1	0	2	1	1	0	10	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:173503803A>G	uc001giz.2	-	16	2217	c.1794T>C	c.(1792-1794)ACT>ACC	p.T598T	SLC9A11_uc009wwe.2_Silent_p.T156T|SLC9A11_uc010pmq.1_Intron	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	598					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						GAAATATAAAAGTCAGAAATG	0.254													5	28					0	0	1	0	0		G	173503803	G	G	173503803	2	3	82	1	0	0	0	0	0	0	0	1	14736	59	3	3		3	SLC9A11	1	173503803	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2417336	173503803	75746818	82	50538											
ANGPTL1	9068	broad.mit.edu	37	chr1	178834562	178834562	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctttcctttctcagcagcTttacctcattcacaatgttt	7	17	5	12	0	3	0	3	0	1	0	5	0	4	0	2	1	3	4	2	1	2	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:178834562T>G	uc001gma.2	-	3	826	c.350A>C	c.(349-351)AAG>ACG	p.K117T	RALGPS2_uc001gly.1_Intron|RALGPS2_uc001glz.2_Intron|RALGPS2_uc010pnb.1_Intron|ANGPTL1_uc001gmb.2_Missense_Mutation_p.K117T|ANGPTL1_uc010pnc.1_Missense_Mutation_p.K39T	NM_004673	NP_004664	O95841	ANGL1_HUMAN	angiopoietin-like 1 precursor	117	Potential.					extracellular space	receptor binding				0						TCTCAGCAGCTTTACCTCATT	0.423													35	78					0	0	1	0	0		G	178834562	G	G	178834562	3	3	82	1	0	0	0	0	1	0	0	0	613	1609	56	5	1141	5	ANGPTL1	1	178834562	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5330759	178834562	70416059	83	50539											
ABL2	27	broad.mit.edu	37	chr1	179089374	179089374	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttccttcattactgcagcTtctttcaggaattcttctac	8	18	4	11	0	5	0	2	0	3	0	6	1	6	1	1	1	4	2	1	1	3	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:179089374T>G	uc001gmj.3	-	6	1283	c.996A>C	c.(994-996)GAA>GAC	p.E332D	ABL2_uc010pnf.1_Missense_Mutation_p.E332D|ABL2_uc010png.1_Missense_Mutation_p.E311D|ABL2_uc010pnh.1_Missense_Mutation_p.E311D|ABL2_uc009wxe.2_Missense_Mutation_p.E311D|ABL2_uc001gmg.3_Missense_Mutation_p.E317D|ABL2_uc001gmi.3_Missense_Mutation_p.E317D|ABL2_uc001gmh.3_Missense_Mutation_p.E296D|ABL2_uc010pne.1_Missense_Mutation_p.E296D|ABL2_uc009wxf.1_Missense_Mutation_p.E317D|ABL2_uc001gmk.2_Missense_Mutation_p.E296D	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	332	Protein kinase.				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	TTACTGCAGCTTCTTTCAGGA	0.393			T	ETV6	AML								16	125					0	0	1	0	0		G	179089374	G	G	179089374	3	3	82	1	0	0	0	0	1	0	0	0	93	1606	56	5	2625	5	ABL2	1	179089374	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	254812	179089374	70161247	84	50540											
ABL2	27	broad.mit.edu	37	chr1	179095648	179095648	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagactgctgagcagatacTcagctgcactgcgtgacaca	11	9	10	11	1	1	4	1	2	0	2	1	4	1	4	0	0	6	4	0	0	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:179095648T>C	uc001gmj.3	-	4	838	c.551A>G	c.(550-552)GAG>GGG	p.E184G	ABL2_uc010pnf.1_Missense_Mutation_p.E184G|ABL2_uc010png.1_Missense_Mutation_p.E163G|ABL2_uc010pnh.1_Missense_Mutation_p.E163G|ABL2_uc009wxe.2_Missense_Mutation_p.E163G|ABL2_uc001gmg.3_Missense_Mutation_p.E169G|ABL2_uc001gmi.3_Missense_Mutation_p.E169G|ABL2_uc001gmh.3_Missense_Mutation_p.E148G|ABL2_uc010pne.1_Missense_Mutation_p.E148G|ABL2_uc009wxf.1_Missense_Mutation_p.E169G|ABL2_uc001gmk.2_Missense_Mutation_p.E148G	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	184	SH2.				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	GAGCAGATACTCAGCTGCACT	0.557			T	ETV6	AML								8	116					0	0	1	0	0		C	179095648	C	C	179095648	3	2	82	1	0	0	0	0	1	0	0	0	93	1551	54	3	3078	3	ABL2	1	179095648	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	6274	179095648	70154973	85	50541											
SOAT1	6646	broad.mit.edu	37	chr1	179304702	179304702	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgattttgtgaccaatcTcattgaaaagtcagcatcat	13	14	7	7	0	3	4	3	4	1	0	4	4	3	4	1	0	1	1	1	0	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:179304702T>C	uc001gml.2	+	4	302	c.239T>C	c.(238-240)CTC>CCC	p.L80P	SOAT1_uc010pni.1_Missense_Mutation_p.L15P|SOAT1_uc001gmm.2_Missense_Mutation_p.L22P|SOAT1_uc010pnj.1_5'UTR|SOAT1_uc010pnk.1_Missense_Mutation_p.L15P	NM_003101	NP_003092	P35610	SOAT1_HUMAN	sterol O-acyltransferase 1	80					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|cholesterol storage|macrophage derived foam cell differentiation|positive regulation of amyloid precursor protein biosynthetic process|very-low-density lipoprotein particle assembly	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			central_nervous_system(1)|skin(1)	2					Ezetimibe(DB00973)|Hesperetin(DB01094)	GTGACCAATCTCATTGAAAAG	0.358													13	57					0	0	1	0	0		C	179304702	C	C	179304702	3	2	82	1	0	0	0	0	1	0	0	0	14935	1551	54	3	249	3	SOAT1	1	179304702	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	209054	179304702	69945919	86	50542											
GLUL	2752	broad.mit.edu	37	chr1	182355421	182355421	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaagccgttggaaggccAaccaaaggggtgcccatctg	10	6	15	10	1	1	0	0	0	1	0	1	2	1	2	4	5	3	1	4	5	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:182355421A>G	uc001gpa.1	-	4	657	c.445T>C	c.(445-447)TGG>CGG	p.W149R	GLUL_uc010pnt.1_5'Flank|GLUL_uc001gpb.1_Missense_Mutation_p.W149R|GLUL_uc001gpc.1_Missense_Mutation_p.W149R|GLUL_uc001gpd.1_Missense_Mutation_p.W149R	NM_001033056	NP_001028228	P15104	GLNA_HUMAN	glutamine synthetase	149					cell proliferation|glutamine biosynthetic process|neurotransmitter uptake	cytosol|Golgi apparatus|mitochondrion	ATP binding|glutamate decarboxylase activity|glutamate-ammonia ligase activity|identical protein binding				0					Asparaginase(DB00023)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)|L-Methionine(DB00134)	TTGGAAGGCCAACCAAAGGGG	0.562													32	126					0	0	1	0	0		G	182355421	G	G	182355421	3	3	82	1	0	0	0	0	1	0	0	0	6493	130	5	3	692	3	GLUL	1	182355421	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3050719	182355421	66895200	87	50543											
RGS16	6004	broad.mit.edu	37	chr1	182572397	182572397	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttactgccccactcgaacTtgccagtactcccagtatcg	8	11	7	15	2	0	0	0	0	0	0	3	1	1	0	4	0	5	3	4	0	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:182572397T>C	uc001gpl.3	-	2	276	c.122A>G	c.(121-123)AAG>AGG	p.K41R	RGS16_uc010pnv.1_Missense_Mutation_p.K41R	NM_002928	NP_002919	O15492	RGS16_HUMAN	regulator of G-protein signalling 16	41					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity			ovary(1)	1						CCACTCGAACTTGCCAGTACT	0.512													17	105					0	0	1	0	0		C	182572397	C	C	182572397	3	2	82	1	0	0	0	0	1	0	0	0	13323	1609	56	3	502	3	RGS16	1	182572397	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	216976	182572397	66678224	88	50544											
DHX9	1660	broad.mit.edu	37	chr1	182829162	182829162	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagttactgcctgtgaagaAatttgaaagtgagattctgg	13	12	12	4	0	1	5	0	3	1	3	1	6	1	5	1	1	2	1	1	1	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:182829162A>C	uc001gpr.2	+	12	1338	c.1175A>C	c.(1174-1176)AAA>ACA	p.K392T	DHX9_uc001gps.2_Missense_Mutation_p.K178T	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9	392					CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						CCTGTGAAGAAATTTGAAAGT	0.418													20	110					0	0	1	0	0		C	182829162	C	C	182829162	3	2	82	1	0	0	0	0	1	0	0	0	4522	14	1	5	1217	5	DHX9	1	182829162	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	256765	182829162	66421459	89	50545											
PTGS2	5743	broad.mit.edu	37	chr1	186643498	186643498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagacttctacagttcagtcGaacgttcttttagtagtact	10	16	7	8	2	3	1	1	0	2	1	4	2	3	1	0	0	3	4	0	0	6	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:186643498G>A	uc001gsb.2	-	10	1939	c.1802C>T	c.(1801-1803)TCG>TTG	p.S601L	PTGS2_uc009wyo.2_Missense_Mutation_p.S448L	NM_000963	NP_000954	P35354	PGH2_HUMAN	prostaglandin-endoperoxide synthase 2 precursor	601					cellular component movement|cyclooxygenase pathway|hormone biosynthetic process|positive regulation of brown fat cell differentiation|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of fever generation|positive regulation of fibroblast growth factor production|positive regulation of nitric oxide biosynthetic process|positive regulation of platelet-derived growth factor production|positive regulation of prostaglandin biosynthetic process|positive regulation of transforming growth factor-beta production|positive regulation vascular endothelial growth factor production|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|microsome|neuron projection|nucleus	enzyme binding|heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|central_nervous_system(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Carprofen(DB00821)|Celecoxib(DB00482)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Epoprostenol(DB01240)|Etodolac(DB00749)|Etoricoxib(DB01628)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ginseng(DB01404)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lenalidomide(DB00480)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mesalazine(DB00244)|Nabumetone(DB00461)|Naproxen(DB00788)|Oxaprozin(DB00991)|Phenylbutazone(DB00812)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Thalidomide(DB01041)|Tiaprofenic acid(DB01600)|Tolmetin(DB00500)|Valdecoxib(DB00580)	CAGTTCAGTCGAACGTTCTTT	0.313													15	92					0	0	1	0	0		A	186643498	A	A	186643498	3	1	82	1	0	0	0	0	1	0	0	0	12779	1059	37	1	16	1	PTGS2	1	186643498	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	3814336	186643498	62607123	90	50546											
LHX9	56956	broad.mit.edu	37	chr1	197890706	197890706	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggccctgccttacttcaAcggtacgggcaccgtgcaga	7	8	11	15	3	1	1	1	0	0	1	1	1	1	1	4	3	5	3	4	3	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:197890706A>C	uc001guk.1	+	3	1087	c.650A>C	c.(649-651)AAC>ACC	p.N217T	LHX9_uc001gui.1_Missense_Mutation_p.N208T|LHX9_uc001guj.1_Missense_Mutation_p.N223T	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	217					motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						CCTTACTTCAACGGTACGGGC	0.637													4	20					0	0	1	0	0		C	197890706	C	C	197890706	3	2	82	1	0	0	0	0	1	0	0	0	8793	43	2	5	692	5	LHX9	1	197890706	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	11247208	197890706	51359915	91	50547											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200822487	200822487	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagaatatatgaggcggaaAcaactgaaactaatggaaga	20	6	10	5	1	0	4	0	2	0	2	0	6	0	6	0	3	3	0	0	3	9	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:200822487A>C	uc001gvl.2	+	14	3990	c.3720A>C	c.(3718-3720)AAA>AAC	p.K1240N	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.K1229N|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.K1213N	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	1240						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TGAGGCGGAAACAACTGAAAC	0.368													12	73					0	0	1	0	0		C	200822487	C	C	200822487	3	2	82	1	0	0	0	0	1	0	0	0	2615	40	2	5	3737	5	CAMSAP1L1	1	200822487	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2931781	200822487	48428134	92	50548											
LAD1	3898	broad.mit.edu	37	chr1	201355652	201355652	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtggccctctttggggcCggcttagcatctgcagttgg	3	12	15	11	1	2	0	0	0	2	0	2	0	2	0	2	5	2	5	2	5	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:201355652C>T	uc001gwm.2	-	3	1072	c.837G>A	c.(835-837)CCG>CCA	p.P279P	LAD1_uc009wzu.1_Silent_p.P301P	NM_005558	NP_005549	O00515	LAD1_HUMAN	ladinin 1	279						basement membrane	structural molecule activity				0						TCTTTGGGGCCGGCTTAGCAT	0.637													21	94					0	0	1	0	0		T	201355652	T	T	201355652	2	4	82	1	0	0	0	0	0	0	0	1	8615	639	23	1		1	LAD1	1	201355652	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	533165	201355652	47894969	93	50549											
NAV1	89796	broad.mit.edu	37	chr1	201751840	201751840	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagcccctgtcaatcagAcagatcgggaaaaggagaag	14	5	11	11	1	2	3	2	0	0	3	4	5	3	4	3	2	1	0	3	2	4	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:201751840A>T	uc001gwu.2	+	6	2547	c.2200A>T	c.(2200-2202)ACA>TCA	p.T734S	NAV1_uc001gwv.1_Missense_Mutation_p.T242S|NAV1_uc001gww.1_Missense_Mutation_p.T343S|NAV1_uc001gwx.2_Missense_Mutation_p.T343S|NAV1_uc001gwy.1_Missense_Mutation_p.T115S	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	734	Potential.				cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						TGTCAATCAGACAGATCGGGA	0.557													14	58					0	0	1	0	0		T	201751840	T	T	201751840	3	4	82	1	0	0	0	0	1	0	0	0	10201	275	10	5	2279	5	NAV1	1	201751840	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	396188	201751840	47498781	94	50550											
LGR6	59352	broad.mit.edu	37	chr1	202287259	202287259	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgattgcaggcgccaacaccTtgactggcatttcctgtggc	7	10	11	13	2	0	1	0	1	0	0	1	2	1	1	3	3	2	2	3	3	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:202287259T>A	uc001gxu.2	+	18	1828	c.1828T>A	c.(1828-1830)TTG>ATG	p.L610M	LGR6_uc001gxv.2_Missense_Mutation_p.L558M|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Missense_Mutation_p.L471M	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	610	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						CGCCAACACCTTGACTGGCAT	0.627													16	38					0	0	1	0	0		A	202287259	A	A	202287259	3	1	82	1	0	0	0	0	1	0	0	0	8774	1606	56	5	2045	5	LGR6	1	202287259	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	535419	202287259	46963362	95	50551											
PRELP	5549	broad.mit.edu	37	chr1	203452402	203452402	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgaccaagacccgggacTgggcccgggcgcagacccag	10	1	15	15	4	0	3	0	0	0	3	0	5	0	4	4	3	0	1	4	3	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:203452402T>C	uc001gzs.2	+	2	290	c.90T>C	c.(88-90)ACT>ACC	p.T30T	PRELP_uc001gzt.2_Silent_p.T30T	NM_002725	NP_002716	P51888	PRELP_HUMAN	proline arginine-rich end leucine-rich repeat	30					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent			ovary(1)|central_nervous_system(1)|pancreas(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.109)			GACCCGGGACTGGGCCCGGGC	0.652													14	78					0	0	1	0	0		C	203452402	C	C	203452402	2	2	82	1	0	0	0	0	0	0	0	1	12495	1567	55	3		3	PRELP	1	203452402	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1165143	203452402	45798219	96	50552											
LAX1	54900	broad.mit.edu	37	chr1	203741246	203741246	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtactgagagcctcctcTccagaaattctgagagcccg	10	9	9	13	1	3	3	1	2	2	3	5	5	4	3	4	0	3	1	4	0	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:203741246T>A	uc001haa.2	+	4	771	c.361T>A	c.(361-363)TCC>ACC	p.S121T	LAX1_uc010pql.1_Missense_Mutation_p.S105T|LAX1_uc001hab.2_Missense_Mutation_p.S45T	NM_017773	NP_060243	Q8IWV1	LAX1_HUMAN	lymphocyte transmembrane adaptor 1 isoform a	121	Cytoplasmic (Potential).				B cell activation|immune response|inactivation of MAPK activity|intracellular signal transduction|negative regulation of T cell activation	Golgi apparatus|integral to membrane|plasma membrane	protein kinase binding|SH2 domain binding			central_nervous_system(2)	2	all_cancers(21;0.0915)		BRCA - Breast invasive adenocarcinoma(75;0.109)			GAGCCTCCTCTCCAGAAATTC	0.493													8	43					0	0	1	0	0		A	203741246	A	A	203741246	3	1	82	1	0	0	0	0	1	0	0	0	8664	1551	54	5	420	5	LAX1	1	203741246	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	288844	203741246	45509375	97	50553											
LRRN2	10446	broad.mit.edu	37	chr1	204587213	204587213	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggagaaggacagcgagAgccaggatggcaatgagccc	13	2	16	10	1	0	3	0	1	0	2	0	7	0	5	3	4	3	1	3	4	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:204587213A>G	uc001hbe.1	-	3	2296	c.1908T>C	c.(1906-1908)GCT>GCC	p.A636A	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Silent_p.A636A|LRRN2_uc009xbf.1_Silent_p.A636A|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	636	Helical; (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			GGACAGCGAGAGCCAGGATGG	0.647													6	35					0	0	1	0	0		G	204587213	G	G	204587213	2	3	82	1	0	0	0	0	0	0	0	1	9053	291	11	3		3	LRRN2	1	204587213	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	845967	204587213	44663408	98	50554											
CR1	1378	broad.mit.edu	37	chr1	207780607	207780607	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgctttaggtttcgactcaTtggttccccatctactactt	6	18	6	11	1	2	0	1	0	1	0	4	1	3	0	2	2	3	3	2	2	3	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:207780607T>G	uc001hfy.2	+	28	4612	c.4472T>G	c.(4471-4473)ATT>AGT	p.I1491S	CR1_uc009xcl.1_Missense_Mutation_p.I1041S|CR1_uc001hfx.2_Missense_Mutation_p.I1941S	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1491	Extracellular (Potential).|Sushi 23.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TTTCGACTCATTGGTTCCCCA	0.338													17	75					0	0	1	0	0		G	207780607	G	G	207780607	3	3	82	1	0	0	0	0	1	0	0	0	3843	1493	52	5	5964	5	CR1	1	207780607	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3193394	207780607	41470014	99	50555											
INTS7	25896	broad.mit.edu	37	chr1	212161319	212161319	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttttaagctgtcataaggAgtctggagggcacactcaca	12	10	11	8	0	3	0	2	0	1	0	3	2	3	2	0	3	1	3	0	3	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:212161319A>G	uc001hiw.1	-	8	1011	c.906T>C	c.(904-906)ACT>ACC	p.T302T	INTS7_uc009xdb.1_Silent_p.T302T|INTS7_uc001hix.1_Silent_p.T178T|INTS7_uc001hiy.1_Silent_p.T302T|INTS7_uc010pta.1_Silent_p.T253T	NM_015434	NP_056249	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	302					snRNA processing	integrator complex	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		TGTCATAAGGAGTCTGGAGGG	0.393													8	27					0	0	1	0	0		G	212161319	G	G	212161319	2	3	82	1	0	0	0	0	0	0	0	1	7799	291	11	3		3	INTS7	1	212161319	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4380712	212161319	37089302	100	50556											
USH2A	7399	broad.mit.edu	37	chr1	216595645	216595645	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaatgacctgaaacaagaAgccagagcccaatgaaagaa	19	5	8	9	0	1	6	1	3	0	3	1	6	1	6	3	0	3	0	3	0	7	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:216595645A>C	uc001hku.1	-	2	421	c.34T>G	c.(34-36)TTC>GTC	p.F12V	USH2A_uc001hkv.2_Missense_Mutation_p.F12V	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	12					maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGAAACAAGAAGCCAGAGCCC	0.423										HNSCC(13;0.011)			21	47					0	0	1	0	0		C	216595645	C	C	216595645	3	2	82	1	0	0	0	0	1	0	0	0	17062	72	3	5	15872	5	USH2A	1	216595645	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4434326	216595645	32654976	101	50557											
MOSC1	64757	broad.mit.edu	37	chr1	220970082	220970082	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccctaccgcctggtgcacTtcgagcctcacatgcgaccg	7	7	10	17	4	1	0	1	0	0	0	2	2	1	0	5	1	5	1	5	1	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:220970082T>G	uc001hms.2	+	3	795	c.547T>G	c.(547-549)TTC>GTC	p.F183V	MOSC1_uc001hmt.2_Missense_Mutation_p.F183V	NM_022746	NP_073583	Q5VT66	MOSC1_HUMAN	MOCO sulphurase C-terminal domain containing 1	183							molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.0358)		CCTGGTGCACTTCGAGCCTCA	0.592													12	24					0	0	1	0	0		G	220970082	G	G	220970082	3	3	82	1	0	0	0	0	1	0	0	0	9731	1609	56	5	557	5	MOSC1	1	220970082	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4374437	220970082	28280539	102	50558											
MOSC1	64757	broad.mit.edu	37	chr1	220978447	220978447	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaactgaaaagggtgatggcTtgttccaggtaaggtgcttt	10	12	14	5	0	0	2	0	2	0	0	1	3	1	2	1	4	2	4	1	4	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:220978447T>C	uc001hms.2	+	5	1055	c.807T>C	c.(805-807)GCT>GCC	p.A269A	MOSC1_uc001hmt.2_Silent_p.A286A	NM_022746	NP_073583	Q5VT66	MOSC1_HUMAN	MOCO sulphurase C-terminal domain containing 1	269	MOSC.						molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.0358)		GGGTGATGGCTTGTTCCAGGT	0.532													27	80					0	0	1	0	0		C	220978447	C	C	220978447	2	2	82	1	0	0	0	0	0	0	0	1	9731	1596	56	3		3	MOSC1	1	220978447	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	8365	220978447	28272174	103	50559											
MIA3	375056	broad.mit.edu	37	chr1	222806483	222806483	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacactcctatggatgctatTgatgcaaacaagcaaccaga	15	8	8	10	0	0	2	0	1	0	1	1	4	1	3	2	1	5	3	2	1	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:222806483T>C	uc001hnl.2	+	6	3378	c.3369T>C	c.(3367-3369)ATT>ATC	p.I1123I	MIA3_uc009xea.1_Silent_p.I959I	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	1123	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		TGGATGCTATTGATGCAAACA	0.383													56	193					0	0	1	0	0		C	222806483	C	C	222806483	2	2	82	1	0	0	0	0	0	0	0	1	9583	1800	63	3		3	MIA3	1	222806483	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1828036	222806483	26444138	104	50560											
LIN9	286826	broad.mit.edu	37	chr1	226455692	226455692	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggatggtatgggttccaAgccctgtcctatcaaaagtt	10	11	11	9	0	1	0	1	0	0	0	3	1	3	1	3	3	1	3	3	3	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:226455692A>C	uc001hqa.2	-	8	1140	c.830T>G	c.(829-831)CTT>CGT	p.L277R	LIN9_uc001hqb.2_Missense_Mutation_p.L242R|LIN9_uc001hqc.2_Missense_Mutation_p.L209R|LIN9_uc009xel.1_Missense_Mutation_p.L242R	NM_173083	NP_775106	Q5TKA1	LIN9_HUMAN	lin-9 homolog	261	Sufficient for interaction with RB1.				cell cycle|DNA replication	nucleoplasm					0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.131)		ATGGGTTCCAAGCCCTGTCCT	0.358													5	36					0	0	1	0	0		C	226455692	C	C	226455692	3	2	82	1	0	0	0	0	1	0	0	0	8830	72	3	5	878	5	LIN9	1	226455692	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3649209	226455692	22794929	105	50561											
URB2	9816	broad.mit.edu	37	chr1	229771360	229771360	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccccaggttgtttggcTgcttgaagatttcacacctg	6	15	9	11	0	2	2	1	1	1	1	3	2	2	2	3	2	1	4	3	2	1	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:229771360T>C	uc001hts.1	+	4	1136	c.1000T>C	c.(1000-1002)TGC>CGC	p.C334R	URB2_uc009xfd.1_Missense_Mutation_p.C334R	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	334						nucleolus				central_nervous_system(2)|ovary(1)	3						GTTGTTTGGCTGCTTGAAGAT	0.488													14	99					0	0	1	0	0		C	229771360	C	C	229771360	3	2	82	1	0	0	0	0	1	0	0	0	17051	1580	55	3	1010	3	URB2	1	229771360	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3315668	229771360	19479261	106	50562											
URB2	9816	broad.mit.edu	37	chr1	229773272	229773272	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgtatggtagtgatatttTtgaggttgtactgacctcat	9	17	10	5	0	1	3	1	3	0	0	1	3	1	3	1	2	1	4	1	2	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:229773272T>G	uc001hts.1	+	4	3048	c.2912T>G	c.(2911-2913)TTT>TGT	p.F971C	URB2_uc009xfd.1_Missense_Mutation_p.F971C	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	971						nucleolus				central_nervous_system(2)|ovary(1)	3						AGTGATATTTTTGAGGTTGTA	0.443													34	160					0	0	1	0	0		G	229773272	G	G	229773272	3	3	82	1	0	0	0	0	1	0	0	0	17051	1841	64	5	2922	5	URB2	1	229773272	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1912	229773272	19477349	107	50563											
PGBD5	79605	broad.mit.edu	37	chr1	230486768	230486768	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatttccgctttttcctcTttcgcagctcccgctctgtg	3	17	7	14	3	2	1	0	1	2	0	6	1	5	1	3	0	1	4	3	0	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:230486768T>C	uc010pwb.1	-	3	623	c.623A>G	c.(622-624)AAG>AGG	p.K208R	PGBD5_uc001htv.2_Missense_Mutation_p.K307R	NM_024554	NP_078830	Q8N414	PGBD5_HUMAN	piggyBac transposable element derived 5	208						integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(184;0.0397)	Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;0.201)		CTTTTTCCTCTTTCGCAGCTC	0.557													11	70					0	0	1	0	0		C	230486768	C	C	230486768	3	2	82	1	0	0	0	0	1	0	0	0	11803	1609	56	3	764	3	PGBD5	1	230486768	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	713496	230486768	18763853	108	50564											
SIPA1L2	57568	broad.mit.edu	37	chr1	232581415	232581415	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaggggctgcagggcaggAgtgggcacccggtgccacgt	7	4	20	10	2	0	1	0	0	0	1	0	3	0	2	2	6	2	4	2	6	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:232581415A>G	uc001hvg.2	-	9	3371	c.3213T>C	c.(3211-3213)ACT>ACC	p.T1071T	SIPA1L2_uc001hvf.2_Silent_p.T145T	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1071					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GCAGGGCAGGAGTGGGCACCC	0.652													19	50					0	0	1	0	0		G	232581415	G	G	232581415	2	3	82	1	0	0	0	0	0	0	0	1	14355	291	11	3		3	SIPA1L2	1	232581415	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2094647	232581415	16669206	109	50565											
PCNXL2	80003	broad.mit.edu	37	chr1	233136103	233136103	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcatgatgaccttgtacTcgtcggcaccctcgtccacc	7	9	10	15	3	0	2	0	2	0	0	4	3	1	3	4	2	2	3	4	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:233136103T>C	uc001hvl.2	-	30	5511	c.5276A>G	c.(5275-5277)GAG>GGG	p.E1759G	PCNXL2_uc001hvk.1_Missense_Mutation_p.E411G|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1759						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GACCTTGTACTCGTCGGCACC	0.612													19	82					0	0	1	0	0		C	233136103	C	C	233136103	3	2	82	1	0	0	0	0	1	0	0	0	11611	1551	54	3	1157	3	PCNXL2	1	233136103	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	554688	233136103	16114518	110	50566											
SLC35F3	148641	broad.mit.edu	37	chr1	234452387	234452387	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcgctggcattgtgatgAtgacctacgctgatggcttc	7	12	11	11	2	0	4	0	4	0	0	2	4	0	4	2	2	1	4	2	2	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:234452387A>C	uc001hwa.1	+	4	889	c.661A>C	c.(661-663)ATG>CTG	p.M221L	SLC35F3_uc001hvy.1_Missense_Mutation_p.M290L	NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	221	Helical; (Potential).				transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			CATTGTGATGATGACCTACGC	0.592													41	323					0	0	1	0	0		C	234452387	C	C	234452387	3	2	82	1	0	0	0	0	1	0	0	0	14615	333	12	5	886	5	SLC35F3	1	234452387	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1316284	234452387	14798234	111	50567											
TARBP1	6894	broad.mit.edu	37	chr1	234541725	234541725	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcatcaaattcttcaacacTtaacactttacacacagtcc	14	11	3	13	0	3	0	2	0	1	0	4	0	4	0	1	1	3	1	1	1	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:234541725T>G	uc001hwd.2	-	24	3913	c.3913A>C	c.(3913-3915)AGT>CGT	p.S1305R		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	1305					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			TCTTCAACACTTAACACTTTA	0.443													30	61					0	0	1	0	0		G	234541725	G	G	234541725	3	3	82	1	0	0	0	0	1	0	0	0	15580	1609	56	5	980	5	TARBP1	1	234541725	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	89338	234541725	14708896	112	50568											
LYST	1130	broad.mit.edu	37	chr1	235884124	235884124	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcccagtataccataaatTtgtcagagcggtgatgttac	11	13	9	8	1	1	2	1	1	0	1	1	2	1	2	2	1	4	2	2	1	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:235884124T>A	uc001hxj.2	-	40	9572	c.9397A>T	c.(9397-9399)AAT>TAT	p.N3133Y	LYST_uc001hxi.2_Missense_Mutation_p.N357Y	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3133	BEACH.				defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TACCATAAATTTGTCAGAGCG	0.373									Chediak-Higashi_syndrome				12	107					0	0	1	0	0		A	235884124	A	A	235884124	3	1	82	1	0	0	0	0	1	0	0	0	9146	1841	64	5	2064	5	LYST	1	235884124	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1342399	235884124	13366497	113	50569											
LYST	1130	broad.mit.edu	37	chr1	235993568	235993568	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtaagtaatagaaatccTcgaccatggacaaggtactg	14	10	10	7	1	0	1	0	0	0	1	2	3	1	2	2	3	1	3	2	3	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:235993568T>G	uc001hxj.2	-	3	325	c.150A>C	c.(148-150)CGA>CGC	p.R50R	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Silent_p.R50R|LYST_uc001hxm.2_RNA|LYST_uc001hxn.1_Silent_p.R50R	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	50					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			ATAGAAATCCTCGACCATGGA	0.418									Chediak-Higashi_syndrome				8	61					0	0	1	0	0		G	235993568	G	G	235993568	2	3	82	1	0	0	0	0	0	0	0	1	9146	1538	54	5		5	LYST	1	235993568	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	109444	235993568	13257053	114	50570											
ACTN2	88	broad.mit.edu	37	chr1	236906233	236906233	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaggctggagcaggctgAgaagggttacgaggagtggt	10	6	20	5	1	0	2	0	1	0	2	0	6	0	4	0	6	2	5	0	6	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:236906233A>G	uc001hyf.2	+	11	1349	c.1145A>G	c.(1144-1146)GAG>GGG	p.E382G	ACTN2_uc001hyg.2_Missense_Mutation_p.E174G|ACTN2_uc009xgi.1_Missense_Mutation_p.E382G|ACTN2_uc010pxu.1_Missense_Mutation_p.E71G|ACTN2_uc001hyh.2_Missense_Mutation_p.E70G	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	382	Spectrin 1.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GAGCAGGCTGAGAAGGGTTAC	0.542													13	69					0	0	1	0	0		G	236906233	G	G	236906233	3	3	82	1	0	0	0	0	1	0	0	0	205	304	11	3	1187	3	ACTN2	1	236906233	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	912665	236906233	12344388	115	50571											
ACTN2	88	broad.mit.edu	37	chr1	236914899	236914899	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaacatcagaatcagctcaAgcaacccgtacagcactgtc	15	6	6	14	1	3	1	3	0	0	1	4	1	3	1	1	0	6	4	1	0	5	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:236914899A>T	uc001hyf.2	+	15	1990	c.1786A>T	c.(1786-1788)AGC>TGC	p.S596C	ACTN2_uc001hyg.2_Missense_Mutation_p.S388C|ACTN2_uc009xgi.1_Missense_Mutation_p.S596C|ACTN2_uc010pxu.1_Missense_Mutation_p.S285C|ACTN2_uc001hyh.2_Missense_Mutation_p.S284C	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	596	Spectrin 3.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			AATCAGCTCAAGCAACCCGTA	0.602													20	54					0	0	1	0	0		T	236914899	T	T	236914899	3	4	82	1	0	0	0	0	1	0	0	0	205	72	3	5	1844	5	ACTN2	1	236914899	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	8666	236914899	12335722	116	50572											
RYR2	6262	broad.mit.edu	37	chr1	237754244	237754244	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctactaaaccagagtttaAcaaccacaaagattatgccc	17	8	5	11	0	0	2	0	0	0	2	0	2	0	2	3	0	6	2	3	0	7	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:237754244A>T	uc001hyl.1	+	31	4232	c.4112A>T	c.(4111-4113)AAC>ATC	p.N1371I		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1371	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CCAGAGTTTAACAACCACAAA	0.403													10	31					0	0	1	0	0		T	237754244	T	T	237754244	3	4	82	1	0	0	0	0	1	0	0	0	13794	43	2	5	4234	5	RYR2	1	237754244	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	839345	237754244	11496377	117	50573											
RYR2	6262	broad.mit.edu	37	chr1	237777619	237777619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agtacattgtccccatgacgGaggagacgaagagcatcacc	13	6	11	11	2	1	3	1	1	0	2	2	6	2	4	3	2	2	2	3	2	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:237777619G>A	uc001hyl.1	+	37	5311	c.5191G>A	c.(5191-5193)GAG>AAG	p.E1731K		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1731	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CCCCATGACGGAGGAGACGAA	0.552													11	34					0	0	1	0	0		A	237777619	A	A	237777619	3	1	82	1	0	0	0	0	1	0	0	0	13794	1175	41	4	5337	4	RYR2	1	237777619	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	23375	237777619	11473002	118	50574											
RYR2	6262	broad.mit.edu	37	chr1	237806735	237806735	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatcgcttttcagatgccaAcaatagccaaaggtaaggcc	13	8	9	11	1	1	1	1	0	0	1	2	1	1	1	3	2	3	3	3	2	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:237806735A>T	uc001hyl.1	+	48	7450	c.7330A>T	c.(7330-7332)ACA>TCA	p.T2444S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2444	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TCAGATGCCAACAATAGCCAA	0.448													26	70					0	0	1	0	0		T	237806735	T	T	237806735	3	4	82	1	0	0	0	0	1	0	0	0	13794	43	2	5	7520	5	RYR2	1	237806735	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	29116	237806735	11443886	119	50575											
CHRM3	1131	broad.mit.edu	37	chr1	240071166	240071166	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcgatgggccttagggaacTtggcctgtgacctctggctt	6	12	13	10	1	1	1	0	1	1	0	2	3	1	2	3	4	1	1	3	4	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:240071166T>A	uc001hyp.2	+	5	1194	c.415T>A	c.(415-417)TTG>ATG	p.L139M		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	139	Extracellular (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	CTTAGGGAACTTGGCCTGTGA	0.473													17	64					0	0	1	0	0		A	240071166	A	A	240071166	3	1	82	1	0	0	0	0	1	0	0	0	3381	1606	56	5	417	5	CHRM3	1	240071166	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2264431	240071166	9179455	120	50576											
ADSS	159	broad.mit.edu	37	chr1	244587330	244587330	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcagctttggacgaataaActgggccaatgccctttttt	10	12	10	9	1	0	0	0	0	0	0	0	3	0	1	2	2	4	2	2	2	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:244587330A>C	uc001iaj.2	-	6	800	c.506T>G	c.(505-507)GTT>GGT	p.V169G	ADSS_uc009xgr.1_RNA	NM_001126	NP_001117	P30520	PURA2_HUMAN	adenylosuccinate synthase	169					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol|plasma membrane	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(2)|kidney(1)	3	all_cancers(71;2.17e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)	all_cancers(173;0.0896)|all_epithelial(177;0.172)	all cancers(7;9.71e-08)|GBM - Glioblastoma multiforme(7;1.28e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.0014)		L-Aspartic Acid(DB00128)	GGACGAATAAACTGGGCCAAT	0.423													8	42					0	0	1	0	0		C	244587330	C	C	244587330	3	2	82	1	0	0	0	0	1	0	0	0	347	43	2	5	896	5	ADSS	1	244587330	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4516164	244587330	4663291	121	50577											
C1orf101	257044	broad.mit.edu	37	chr1	244724442	244724442	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcattattcatgaagtttTcataggtaaggcattctcag	12	14	8	7	0	3	1	3	1	1	0	4	1	3	1	0	2	1	4	0	2	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:244724442T>G	uc001iam.2	+	10	1561	c.1502T>G	c.(1501-1503)TTC>TGC	p.F501C	C1orf101_uc001iak.1_Missense_Mutation_p.F55C|C1orf101_uc001ial.2_Missense_Mutation_p.F501C|C1orf101_uc010pym.1_Missense_Mutation_p.F350C|C1orf101_uc010pyn.1_Missense_Mutation_p.F434C	NM_001130957	NP_001124429	Q5SY80	CA101_HUMAN	hypothetical protein LOC257044 isoform 1	501	Extracellular (Potential).					integral to membrane				ovary(1)|breast(1)	2	all_cancers(71;2.99e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)		all cancers(7;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.001)|GBM - Glioblastoma multiforme(7;0.0154)			CATGAAGTTTTCATAGGTAAG	0.338													32	89					0	0	1	0	0		G	244724442	G	G	244724442	3	3	82	1	0	0	0	0	1	0	0	0	1979	1783	62	5	1540	5	C1orf101	1	244724442	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	137112	244724442	4526179	122	50578											
NLRP3	114548	broad.mit.edu	37	chr1	247588114	247588114	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcagccccggggagggAgccaggagcacggcctctgc	6	4	17	14	2	1	0	0	0	1	0	1	3	1	3	4	5	6	3	4	5	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:247588114A>G	uc001icr.2	+	5	1507	c.1369A>G	c.(1369-1371)AGC>GGC	p.S457G	NLRP3_uc001ics.2_Missense_Mutation_p.S457G|NLRP3_uc001icu.2_Missense_Mutation_p.S457G|NLRP3_uc001icw.2_Missense_Mutation_p.S457G|NLRP3_uc001icv.2_Missense_Mutation_p.S457G|NLRP3_uc010pyw.1_Missense_Mutation_p.S455G|NLRP3_uc001ict.1_Missense_Mutation_p.S455G	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	457	NACHT.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			CCGGGGAGGGAGCCAGGAGCA	0.597													5	42					0	0	1	0	0		G	247588114	G	G	247588114	3	3	82	1	0	0	0	0	1	0	0	0	10497	304	11	3	1379	3	NLRP3	1	247588114	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2863672	247588114	1662507	123	50579											
OR11L1	391189	broad.mit.edu	37	chr1	248004777	248004777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccaccaccaacctggcaCagagcccacgatgcatgagg	13	3	10	15	1	0	3	0	1	0	2	0	4	0	3	5	2	3	2	5	2	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:248004777C>T	uc001idn.1	-	1	422	c.422G>A	c.(421-423)TGT>TAT	p.C141Y		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CAACCTGGCACAGAGCCCACG	0.592													11	57					0	0	1	0	0		T	248004777	T	T	248004777	3	4	82	1	0	0	0	0	1	0	0	0	10949	478	17	4	550	4	OR11L1	1	248004777	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	416663	248004777	1245844	124	50580											
OR2M5	127059	broad.mit.edu	37	chr1	248308778	248308778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctatgtatcactgcttggctCcgaatgctttctgttggctg	5	16	10	10	1	2	0	1	0	1	0	3	1	3	0	1	2	2	6	1	2	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:248308778C>T	uc010pze.1	+	1	329	c.329C>T	c.(328-330)TCC>TTC	p.S110F		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			CTGCTTGGCTCCGAATGCTTT	0.443													17	400					0	0	1	0	0		T	248308778	T	T	248308778	3	4	82	1	0	0	0	0	1	0	0	0	11032	855	30	4	331	4	OR2M5	1	248308778	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	304001	248308778	941843	125	50581											
OR2M4	26245	broad.mit.edu	37	chr1	248402855	248402855	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgtgtggtaatgctaatcTttccagtttcagttatcata	9	18	8	6	0	3	0	2	0	1	0	4	0	4	0	1	1	1	5	1	1	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:248402855T>C	uc010pzh.1	+	1	625	c.625T>C	c.(625-627)TTT>CTT	p.F209L		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	209	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AATGCTAATCTTTCCAGTTTC	0.448													28	70					0	0	1	0	0		C	248402855	C	C	248402855	3	2	82	1	0	0	0	0	1	0	0	0	11031	1609	56	3	627	3	OR2M4	1	248402855	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	94077	248402855	847766	126	50582											
OR2G6	391211	broad.mit.edu	37	chr1	248685651	248685651	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatcagctgcgggccgccAaaaggcctttgggacctgtt	10	8	12	11	2	1	0	1	0	0	0	1	1	1	1	4	3	2	2	4	3	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr1:248685651A>G	uc001ien.1	+	1	704	c.704A>G	c.(703-705)CAA>CGA	p.Q235R		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GCGGGCCGCCAAAAGGCCTTT	0.463													26	83					0	0	1	0	0		G	248685651	G	G	248685651	3	3	82	1	0	0	0	0	1	0	0	0	11019	130	5	3	706	3	OR2G6	1	248685651	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	282796	248685651	564970	127	50583											
ASAP2	8853	broad.mit.edu	37	chr2	9498920	9498920	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaacctgggcatcctgAcctgcatcgagtgttccgga	8	8	10	15	2	0	1	0	1	0	0	3	3	2	2	6	2	2	3	6	2	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:9498920A>T	uc002qzh.2	+	15	1703	c.1363A>T	c.(1363-1365)ACC>TCC	p.T455S	ASAP2_uc002qzi.2_Missense_Mutation_p.T455S	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	455	Arf-GAP.				regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						GGGCATCCTGACCTGCATCGA	0.512													23	245					0	0	1	0	0		T	9498920	T	T	9498920	3	4	82	1	0	0	0	0	1	0	0	0	1012	275	10	5	1421	5	ASAP2	2	9498920	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08		9498920	233700453	128	50584											
RRM2	6241	broad.mit.edu	37	chr2	10269377	10269377	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggttttcagagtagagaAcccatttgactttatggaga	12	13	10	6	0	2	4	2	1	0	3	2	6	2	4	1	2	1	2	1	2	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:10269377A>C	uc002rah.2	+	10	1225	c.1034A>C	c.(1033-1035)AAC>ACC	p.N345T		NM_001034	NP_001025	P31350	RIR2_HUMAN	ribonucleotide reductase M2 polypeptide isoform	345					deoxyribonucleoside diphosphate metabolic process|deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol	ribonucleoside-diphosphate reductase activity|transition metal ion binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.188)|OV - Ovarian serous cystadenocarcinoma(76;0.221)		AGAGTAGAGAACCCATTTGAC	0.388													23	61					0	0	1	0	0		C	10269377	C	C	10269377	3	2	82	1	0	0	0	0	1	0	0	0	13707	43	2	5	1252	5	RRM2	2	10269377	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	770457	10269377	232929996	129	50585											
NBAS	51594	broad.mit.edu	37	chr2	15607836	15607836	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgtctcttcttgagctccTtttcctttttattcttggca	3	22	5	11	0	3	1	0	1	3	0	6	1	5	1	2	1	1	2	2	1	1	10			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:15607836T>A	uc002rcc.1	-	18	1996	c.1970A>T	c.(1969-1971)AAG>ATG	p.K657M	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	657										ovary(2)|liver(1)|skin(1)	4						CTTGAGCTCCTTTTCCTTTTT	0.343													12	29					0	0	1	0	0		A	15607836	A	A	15607836	3	1	82	1	0	0	0	0	1	0	0	0	10204	1609	56	5	5285	5	NBAS	2	15607836	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5338459	15607836	227591537	130	50586											
PUM2	23369	broad.mit.edu	37	chr2	20508339	20508339	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcttgacgacttccaggAgtacgactacataaagaaaa	16	7	10	8	2	0	2	0	1	0	1	1	6	1	3	1	2	2	2	1	2	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:20508339A>T	uc002rds.1	-	5	548	c.525T>A	c.(523-525)ACT>ACA	p.T175T	PUM2_uc002rdt.1_Silent_p.T175T|PUM2_uc002rdr.2_Silent_p.T114T|PUM2_uc010yjy.1_Silent_p.T175T|PUM2_uc002rdu.1_Silent_p.T175T|PUM2_uc010yjz.1_Silent_p.T114T	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2	175	Interaction with SNAPIN.				regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GACTTCCAGGAGTACGACTAC	0.398													6	67					0	0	1	0	0		T	20508339	T	T	20508339	2	4	82	1	0	0	0	0	0	0	0	1	12851	291	11	5		5	PUM2	2	20508339	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4900503	20508339	222691034	131	50587											
APOB	338	broad.mit.edu	37	chr2	21228452	21228452	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtatttctctgaagtcaAgtttgcacgatggaacctga	10	15	9	7	1	2	2	1	2	1	0	3	4	2	3	1	1	2	3	1	1	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:21228452A>C	uc002red.2	-	26	11416	c.11288T>G	c.(11287-11289)CTT>CGT	p.L3763R		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3763					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TCTGAAGTCAAGTTTGCACGA	0.403													56	127					0	0	1	0	0		C	21228452	C	C	21228452	3	2	82	1	0	0	0	0	1	0	0	0	785	72	3	5	2419	5	APOB	2	21228452	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	720113	21228452	221970921	132	50588											
APOB	338	broad.mit.edu	37	chr2	21235329	21235329	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtttctttttggagtccaAatgaactgaagcagacatct	11	14	8	8	0	2	3	0	2	2	1	3	4	3	4	1	1	2	2	1	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:21235329A>C	uc002red.2	-	26	4539	c.4411T>G	c.(4411-4413)TTG>GTG	p.L1471V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1471					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTGGAGTCCAAATGAACTGAA	0.413													16	85					0	0	1	0	0		C	21235329	C	C	21235329	3	2	82	1	0	0	0	0	1	0	0	0	785	11	1	5	9296	5	APOB	2	21235329	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6877	21235329	221964044	133	50589											
ATAD2B	54454	broad.mit.edu	37	chr2	24118816	24118816	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagatacgtggctatcacTtaaactaccatcaacttcaa	15	10	6	10	1	3	1	3	0	0	1	3	2	3	1	1	2	4	1	1	2	7	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:24118816T>G	uc002rek.3	-	2	535	c.241A>C	c.(241-243)AGT>CGT	p.S81R	ATAD2B_uc010yki.1_RNA|ATAD2B_uc010exx.1_Missense_Mutation_p.S81R	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	81							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGGCTATCACTTAAACTACCA	0.328													12	15					0	0	1	0	0		G	24118816	G	G	24118816	3	3	82	1	0	0	0	0	1	0	0	0	1073	1609	56	5	4243	5	ATAD2B	2	24118816	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2883487	24118816	219080557	134	50590											
C2orf39	92749	broad.mit.edu	37	chr2	26647191	26647191	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaggacaaattcgatgaaAtcacctcaaagtgggaagag	16	6	11	8	1	2	2	2	1	0	1	3	5	2	4	2	2	0	0	2	2	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:26647191A>T	uc002rhg.2	+	4	483	c.409A>T	c.(409-411)ATC>TTC	p.I137F	C2orf39_uc010eym.1_Intron	NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	137	Potential.										0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATTCGATGAAATCACCTCAAA	0.488													22	175					0	0	1	0	0		T	26647191	T	T	26647191	3	4	82	1	0	0	0	0	1	0	0	0	2167	101	4	5	423	5	C2orf39	2	26647191	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2528375	26647191	216552182	135	50591											
OTOF	9381	broad.mit.edu	37	chr2	26697508	26697508	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgccatcttcaccaggggtTtggcgaaggtccggcccatg	6	9	13	13	2	2	0	1	0	1	0	3	1	3	0	4	5	1	1	4	5	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:26697508T>G	uc002rhk.2	-	26	3288	c.3161A>C	c.(3160-3162)AAA>ACA	p.K1054T	OTOF_uc010yla.1_5'Flank|OTOF_uc002rhh.2_Missense_Mutation_p.K307T|OTOF_uc002rhi.2_Missense_Mutation_p.K364T|OTOF_uc002rhj.2_Missense_Mutation_p.K307T	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1054	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CACCAGGGGTTTGGCGAAGGT	0.527													6	50					0	0	1	0	0		G	26697508	G	G	26697508	3	3	82	1	0	0	0	0	1	0	0	0	11322	1841	64	5	3101	5	OTOF	2	26697508	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	50317	26697508	216501865	136	50592											
DPYSL5	56896	broad.mit.edu	37	chr2	27165557	27165557	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcgccgagggcaccggcaAgttctgtcccctgaggtcct	5	8	14	14	3	1	1	0	1	1	0	3	2	3	1	5	3	1	3	5	3	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:27165557A>C	uc002rhu.3	+	11	1537	c.1379A>C	c.(1378-1380)AAG>ACG	p.K460T	DPYSL5_uc002rhv.3_Missense_Mutation_p.K460T	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	460					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCACCGGCAAGTTCTGTCCC	0.617											OREG0014510	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	71					0	0	1	0	0		C	27165557	C	C	27165557	3	2	82	1	0	0	0	0	1	0	0	0	4756	72	3	5	1417	5	DPYSL5	2	27165557	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	468049	27165557	216033816	137	50593											
C2orf16	84226	broad.mit.edu	37	chr2	27804228	27804228	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgcagtccctctaggaaaAaccattccagtccttctgag	11	10	7	13	0	2	1	0	1	2	0	5	2	5	2	4	1	2	1	4	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:27804228A>C	uc002rkz.3	+	1	4840	c.4789A>C	c.(4789-4791)AAC>CAC	p.N1597H	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1597	1.|27 X 8 AA approximative tandem repeat of P-S-E-R-S-H-H-S.|Arg-rich.									large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					CTCTAGGAAAAACCATTCCAG	0.552													39	138					0	0	1	0	0		C	27804228	C	C	27804228	3	2	82	1	0	0	0	0	1	0	0	0	2160	14	1	5	4791	5	C2orf16	2	27804228	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	638671	27804228	215395145	138	50594											
C2orf71	388939	broad.mit.edu	37	chr2	29296021	29296021	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggtgcaaggtcccagctGgtttgcttgcccagcttgtc	4	13	12	12	0	1	0	0	0	1	0	3	0	2	0	2	3	5	5	2	3	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:29296021G>A	uc002rmt.1	-	1	1107	c.1107C>T	c.(1105-1107)ACC>ACT	p.T369T		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	369					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						GGTCCCAGCTGGTTTGCTTGC	0.592													12	74					0	0	1	0	0		A	29296021	A	A	29296021	2	1	82	1	0	0	0	0	0	0	0	1	2194	1335	47	4		4	C2orf71	2	29296021	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1491793	29296021	213903352	139	50595											
C2orf71	388939	broad.mit.edu	37	chr2	29296170	29296170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcagagccctcaggaggcGttcatccacattcctttttg	7	12	8	14	1	3	1	3	0	0	1	5	2	5	2	4	2	1	1	4	2	0	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:29296170G>A	uc002rmt.1	-	1	958	c.958C>T	c.(958-960)CGC>TGC	p.R320C		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	320			R -> C.		response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						CTCAGGAGGCGTTCATCCACA	0.597													29	107					0	0	1	0	0		A	29296170	A	A	29296170	3	1	82	1	0	0	0	0	1	0	0	0	2194	1145	40	1	2916	1	C2orf71	2	29296170	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	149	29296170	213903203	140	50596											
EHD3	30845	broad.mit.edu	37	chr2	31483561	31483561	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcgagacgcagcagctgAtgcgggtgtacggggccctc	8	6	16	11	4	0	3	0	1	0	2	2	4	0	3	1	3	4	4	1	3	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:31483561A>C	uc002rnu.2	+	4	1296	c.688A>C	c.(688-690)ATG>CTG	p.M230L	EHD3_uc010ymt.1_Intron	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	230					blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					GCAGCAGCTGATGCGGGTGTA	0.572													9	47					0	0	1	0	0		C	31483561	C	C	31483561	3	2	82	1	0	0	0	0	1	0	0	0	4985	333	12	5	702	5	EHD3	2	31483561	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2187391	31483561	211715812	141	50597											
BIRC6	57448	broad.mit.edu	37	chr2	32828139	32828139	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtggaatcctcagacctcaAgctttttgcaagtaaacaaa	15	10	7	9	0	2	1	2	0	0	1	3	2	3	2	2	1	3	3	2	1	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:32828139A>C	uc010ezu.2	+	71	14193	c.14059A>C	c.(14059-14061)AGC>CGC	p.S4687R		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4687	Ubiquitin-conjugating.				anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					TCAGACCTCAAGCTTTTTGCA	0.318													9	31					0	0	1	0	0		C	32828139	C	C	32828139	3	2	82	1	0	0	0	0	1	0	0	0	1439	72	3	5	14341	5	BIRC6	2	32828139	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1344578	32828139	210371234	142	50598											
SOS1	6654	broad.mit.edu	37	chr2	39251221	39251221	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaacattaagcaaagctgTtattgcttgttttaaacatt	13	16	6	6	0	0	1	0	1	0	0	0	1	0	1	0	0	5	5	0	0	6	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:39251221T>A	uc002rrk.3	-	9	1173	c.1132A>T	c.(1132-1134)ACA>TCA	p.T378S	SOS1_uc010ynr.1_RNA|SOS1_uc002rrj.3_5'UTR|SOS1_uc002rrl.2_Missense_Mutation_p.T110S	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	378	DH.				apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				AGCAAAGCTGTTATTGCTTGT	0.303									Noonan_syndrome				9	50					0	0	1	0	0		A	39251221	A	A	39251221	3	1	82	1	0	0	0	0	1	0	0	0	14961	1725	60	5	2929	5	SOS1	2	39251221	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	6423082	39251221	203948152	143	50599											
PLEKHH2	130271	broad.mit.edu	37	chr2	43991482	43991482	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaccaacagagaaattacTttttgccatggcaaaaccca	17	8	5	11	0	0	1	0	0	0	1	0	2	0	1	3	1	5	1	3	1	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:43991482T>G	uc010yny.1	+	29	4357	c.4274T>G	c.(4273-4275)CTT>CGT	p.L1425R		NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	1425	FERM.					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				GAGAAATTACTTTTTGCCATG	0.378													9	50					0	0	1	0	0		G	43991482	G	G	43991482	3	3	82	1	0	0	0	0	1	0	0	0	12096	1609	56	5	4384	5	PLEKHH2	2	43991482	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4740261	43991482	199207891	144	50600											
PREPL	9581	broad.mit.edu	37	chr2	44571048	44571048	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagggctggtctaacttaAgttcctccaaattgaataaa	14	12	8	7	0	1	2	0	2	1	0	3	2	3	2	2	2	1	2	2	2	7	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:44571048A>C	uc002ruf.2	-	4	487	c.452T>G	c.(451-453)CTT>CGT	p.L151R	PREPL_uc002rug.2_Missense_Mutation_p.L151R|PREPL_uc002ruh.2_Missense_Mutation_p.L151R|PREPL_uc010fax.2_Missense_Mutation_p.L151R|PREPL_uc002rui.3_Missense_Mutation_p.L62R|PREPL_uc002ruj.1_Missense_Mutation_p.L62R|PREPL_uc002ruk.1_Missense_Mutation_p.L151R	NM_006036	NP_006027	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like isoform C	151					proteolysis	cytosol	serine-type endopeptidase activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GTCTAACTTAAGTTCCTCCAA	0.323													9	102					0	0	1	0	0		C	44571048	C	C	44571048	3	2	82	1	0	0	0	0	1	0	0	0	12497	72	3	5	1775	5	PREPL	2	44571048	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	579566	44571048	198628325	145	50601											
SOCS5	9655	broad.mit.edu	37	chr2	46985924	46985924	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcaaaattgtgccacagaAatccctcaaattgttgaaat	17	11	5	8	0	2	2	2	1	0	1	3	2	3	2	2	0	1	1	2	0	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:46985924A>T	uc002rvf.2	+	2	419	c.255A>T	c.(253-255)GAA>GAT	p.E85D	SOCS5_uc010yoe.1_Missense_Mutation_p.E54D|SOCS5_uc002rvg.2_Missense_Mutation_p.E85D	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	85					cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			GTGCCACAGAAATCCCTCAAA	0.403													7	76					0	0	1	0	0		T	46985924	T	T	46985924	3	4	82	1	0	0	0	0	1	0	0	0	14942	11	1	5	257	5	SOCS5	2	46985924	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2414876	46985924	196213449	146	50602											
ACYP2	98	broad.mit.edu	37	chr2	54531856	54531856	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagcaaggttggaagccctAgttctcgcattgaccgcaca	10	9	11	11	2	1	2	0	2	1	0	2	3	1	3	2	2	2	5	2	2	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:54531856A>G	uc002rxq.3	+	4	643	c.217A>G	c.(217-219)AGT>GGT	p.S73G		NM_138448	NP_612457	P14621	ACYP2_HUMAN	acylphosphatase 2	73	Acylphosphatase-like.				phosphate metabolic process		acylphosphatase activity				0						TGGAAGCCCTAGTTCTCGCAT	0.328													9	46					0	0	1	0	0		G	54531856	G	G	54531856	3	3	82	1	0	0	0	0	1	0	0	0	229	420	15	3	231	3	ACYP2	2	54531856	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	7545932	54531856	188667517	147	50603											
MTIF2	4528	broad.mit.edu	37	chr2	55476576	55476576	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaacatcacctccataatcTtcacataccacatcgtaagc	14	10	3	14	1	3	1	2	1	1	0	5	1	4	1	3	0	3	1	3	0	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:55476576T>G	uc002ryn.2	-	10	1673	c.936A>C	c.(934-936)GAA>GAC	p.E312D	MTIF2_uc010yox.1_5'UTR|MTIF2_uc002ryo.2_Missense_Mutation_p.E312D	NM_001005369	NP_001005369	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	312	G-domain.				regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1						CTCCATAATCTTCACATACCA	0.438													30	63					0	0	1	0	0		G	55476576	G	G	55476576	3	3	82	1	0	0	0	0	1	0	0	0	9952	1606	56	5	1279	5	MTIF2	2	55476576	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	944720	55476576	187722797	148	50604											
USP34	9736	broad.mit.edu	37	chr2	61508340	61508340	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagccctgacagggataacTtatagagaccactgcatgat	13	8	9	11	0	0	3	0	2	0	1	0	5	0	4	3	1	3	1	3	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:61508340T>G	uc002sbe.2	-	38	5058	c.5036A>C	c.(5035-5037)AAG>ACG	p.K1679T	USP34_uc002sbf.2_5'Flank	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	1679					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			CAGGGATAACTTATAGAGACC	0.393													6	28					0	0	1	0	0		G	61508340	G	G	61508340	3	3	82	1	0	0	0	0	1	0	0	0	17091	1609	56	5	5776	5	USP34	2	61508340	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	6031764	61508340	181691033	149	50605											
AFTPH	54812	broad.mit.edu	37	chr2	64778718	64778718	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttggtgggttttcagaagTtagcccttctggtgtagggt	6	16	14	5	0	2	1	1	0	1	1	2	1	2	1	1	4	1	3	1	4	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:64778718T>G	uc002sdc.2	+	1	142	c.110T>G	c.(109-111)GTT>GGT	p.V37G	AFTPH_uc002scz.2_Missense_Mutation_p.V37G|AFTPH_uc002sda.2_Missense_Mutation_p.V37G|AFTPH_uc002sdb.2_Missense_Mutation_p.V37G	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	37					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						TTTTCAGAAGTTAGCCCTTCT	0.413													47	153					0	0	1	0	0		G	64778718	G	G	64778718	3	3	82	1	0	0	0	0	1	0	0	0	364	1725	60	5	112	5	AFTPH	2	64778718	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3270378	64778718	178420655	150	50606											
ALMS1	7840	broad.mit.edu	37	chr2	73650099	73650099	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactaagttttgcacctcTgaggtaggatgatttatttg	10	16	10	5	0	1	3	0	3	1	0	1	4	1	4	1	2	2	3	1	2	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:73650099T>A	uc002sje.1	+	5	875	c.764T>A	c.(763-765)CTG>CAG	p.L255Q	ALMS1_uc002sjf.1_Missense_Mutation_p.L212Q	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	254					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TTTGCACCTCTGAGGTAGGAT	0.393													24	129					0	0	1	0	0		A	73650099	A	A	73650099	3	1	82	1	0	0	0	0	1	0	0	0	535	1580	55	5	775	5	ALMS1	2	73650099	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	8871381	73650099	169549274	151	50607											
HTRA2	27429	broad.mit.edu	37	chr2	74757775	74757775	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggccgcgaggtccctatcTcgaacggctcaggattcgtg	6	9	14	12	5	2	0	1	0	1	0	5	3	3	1	2	4	1	1	2	4	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:74757775T>C	uc002smi.1	+	2	1140	c.538T>C	c.(538-540)TCG>CCG	p.S180P	AUP1_uc002sme.2_5'Flank|AUP1_uc002smf.2_5'Flank|AUP1_uc002smg.2_5'Flank|AUP1_uc002smh.2_5'Flank|AUP1_uc010yrx.1_5'Flank|AUP1_uc010yry.1_5'Flank|HTRA2_uc002smj.1_Missense_Mutation_p.S180P|HTRA2_uc002smk.1_Missense_Mutation_p.S180P|HTRA2_uc002sml.1_Missense_Mutation_p.S180P|HTRA2_uc002smm.1_5'UTR|HTRA2_uc002smn.1_5'UTR|HTRA2_uc010ffl.2_5'UTR	NM_013247	NP_037379	O43464	HTRA2_HUMAN	HtrA serine peptidase 2 isoform 1 preproprotein	180	Serine protease.				apoptosis|proteolysis|response to stress	CD40 receptor complex|endoplasmic reticulum membrane|internal side of plasma membrane|mitochondrial intermembrane space|mitochondrial membrane|nucleus	serine-type endopeptidase activity|unfolded protein binding			ovary(1)	1						GGTCCCTATCTCGAACGGCTC	0.617													6	57					0	0	1	0	0		C	74757775	C	C	74757775	3	2	82	1	0	0	0	0	1	0	0	0	7470	1551	54	3	544	3	HTRA2	2	74757775	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1107676	74757775	168441598	152	50608											
SEMA4F	10505	broad.mit.edu	37	chr2	74902419	74902419	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgatggccaccccctgcTggtcactacagatacagcct	9	8	9	15	0	1	2	1	1	0	1	1	2	1	2	4	2	5	2	4	2	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:74902419T>A	uc002sna.1	+	10	1391	c.1280T>A	c.(1279-1281)CTG>CAG	p.L427Q	SEMA4F_uc010ffq.1_Missense_Mutation_p.L394Q|SEMA4F_uc010ffr.1_Missense_Mutation_p.L39Q|SEMA4F_uc002snb.1_Missense_Mutation_p.L39Q|SEMA4F_uc002snc.1_Missense_Mutation_p.L272Q	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	427	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CACCCCCTGCTGGTCACTACA	0.562											OREG0014721	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	37					0	0	1	0	0		A	74902419	A	A	74902419	3	1	82	1	0	0	0	0	1	0	0	0	14060	1580	55	5	1318	5	SEMA4F	2	74902419	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	144644	74902419	168296954	153	50609											
CNNM4	26504	broad.mit.edu	37	chr2	97474441	97474441	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggccagtacatctctgacTtcagcgtccgggcactcgtg	6	10	12	13	3	2	1	1	1	1	0	5	1	3	1	2	2	2	2	2	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:97474441T>G	uc002swx.2	+	6	2190	c.2092T>G	c.(2092-2094)TTC>GTC	p.F698V	CNNM4_uc010yuy.1_Missense_Mutation_p.F185V	NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	698					biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						CATCTCTGACTTCAGCGTCCG	0.562													26	40					0	0	1	0	0		G	97474441	G	G	97474441	3	3	82	1	0	0	0	0	1	0	0	0	3618	1609	56	5	2114	5	CNNM4	2	97474441	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	22572022	97474441	145724932	154	50610											
VWA3B	200403	broad.mit.edu	37	chr2	98809455	98809455	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacgtctcactcaatgaagAgcaaactggacttggtgaag	14	8	10	9	1	2	3	2	2	1	1	3	4	2	4	0	2	2	1	0	2	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:98809455A>T	uc002syo.2	+	11	1825	c.1561A>T	c.(1561-1563)AGC>TGC	p.S521C	VWA3B_uc010yvh.1_Missense_Mutation_p.S371C|VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Missense_Mutation_p.S40C|VWA3B_uc002sym.2_Missense_Mutation_p.S521C|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.S178C|VWA3B_uc002syp.1_5'UTR	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	521	VWFA.									ovary(3)|large_intestine(2)|skin(1)	6						CTCAATGAAGAGCAAACTGGA	0.423													6	109					0	0	1	0	0		T	98809455	T	T	98809455	3	4	82	1	0	0	0	0	1	0	0	0	17267	304	11	5	1599	5	VWA3B	2	98809455	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1335014	98809455	144389918	155	50611											
TSGA10	80705	broad.mit.edu	37	chr2	99681472	99681472	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctctgcctcagcagtgataAgttccagtttgagggtattg	8	13	11	9	0	2	2	1	2	1	0	3	2	3	2	3	1	2	4	3	1	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:99681472A>C	uc002szg.3	-	14	1962	c.1334T>G	c.(1333-1335)CTT>CGT	p.L445R	TSGA10_uc002szh.3_Missense_Mutation_p.L445R|TSGA10_uc002szi.3_Missense_Mutation_p.L445R|TSGA10_uc010fin.1_Missense_Mutation_p.L445R	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	445					spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						AGCAGTGATAAGTTCCAGTTT	0.383													25	75					0	0	1	0	0		C	99681472	C	C	99681472	3	2	82	1	0	0	0	0	1	0	0	0	16643	72	3	5	786	5	TSGA10	2	99681472	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	872017	99681472	143517901	156	50612											
EIF5B	9669	broad.mit.edu	37	chr2	100015285	100015285	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgcaaaaaaaggacaagaAgtttgtgtaaaaatagaacc	20	8	9	4	0	0	2	0	0	0	2	0	3	0	3	1	1	2	4	1	1	10	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:100015285A>C	uc002tab.2	+	23	3652	c.3468A>C	c.(3466-3468)GAA>GAC	p.E1156D	EIF5B_uc010yvq.1_Missense_Mutation_p.E138D	NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	1156					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						AAGGACAAGAAGTTTGTGTAA	0.308													4	24					0	0	1	0	0		C	100015285	C	C	100015285	3	2	82	1	0	0	0	0	1	0	0	0	5052	69	3	5	3558	5	EIF5B	2	100015285	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	333813	100015285	143184088	157	50613											
AFF3	3899	broad.mit.edu	37	chr2	100217911	100217911	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttacctcggggctggagaAgtgggggggcttgctgccct	4	9	18	10	1	0	1	0	0	0	1	1	2	0	1	2	6	3	4	2	6	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:100217911A>C	uc002tag.2	-	13	1593	c.1357T>G	c.(1357-1359)TTC>GTC	p.F453V	AFF3_uc002taf.2_Missense_Mutation_p.F478V|AFF3_uc010fiq.1_Missense_Mutation_p.F453V|AFF3_uc010yvr.1_Missense_Mutation_p.F606V|AFF3_uc002tah.1_Missense_Mutation_p.F478V	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	453					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						GGGCTGGAGAAGTGGGGGGGC	0.577													6	10					0	0	1	0	0		C	100217911	C	C	100217911	3	2	82	1	0	0	0	0	1	0	0	0	358	72	3	5	2371	5	AFF3	2	100217911	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	202626	100217911	142981462	158	50614											
RGPD3	653489	broad.mit.edu	37	chr2	107073515	107073515	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccatcagtaacatcatttTtacaaagcaattctgcaatc	14	14	3	10	0	3	0	2	0	1	0	5	0	4	0	1	0	4	3	1	0	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:107073515T>G	uc010ywi.1	-	4	374	c.317A>C	c.(316-318)AAA>ACA	p.K106T		NM_001144013	NP_001137485	A6NKT7	RGPD3_HUMAN	RANBP2-like and GRIP domain containing 3	106					intracellular transport		binding			ovary(1)	1						AACATCATTTTTACAAAGCAA	0.328													10	98					0	0	1	0	0		G	107073515	G	G	107073515	3	3	82	1	0	0	0	0	1	0	0	0	13312	1841	64	5	5039	5	RGPD3	2	107073515	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	6855604	107073515	136125858	159	50615											
RGPD4	285190	broad.mit.edu	37	chr2	108488388	108488388	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagtctcctgccaagttgAatcagagtgggacttcagtt	10	12	10	9	0	3	2	2	1	1	1	4	3	3	3	2	1	1	2	2	1	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:108488388A>C	uc010ywk.1	+	20	4010	c.3928A>C	c.(3928-3930)AAT>CAT	p.N1310H	RGPD4_uc002tdu.2_Missense_Mutation_p.N497H|RGPD4_uc010ywl.1_Intron	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	1310					intracellular transport		binding			skin(2)	2						TGCCAAGTTGAATCAGAGTGG	0.403													72	179					0	0	1	0	0		C	108488388	C	C	108488388	3	2	82	1	0	0	0	0	1	0	0	0	13313	246	9	5	4006	5	RGPD4	2	108488388	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1414873	108488388	134710985	160	50616											
GCC2	9648	broad.mit.edu	37	chr2	109103051	109103051	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagcaccagcgtacgctaAgtgcataccagcagagagtg	14	5	11	11	2	0	1	0	0	0	1	0	2	0	1	2	0	7	5	2	0	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:109103051A>C	uc002tec.2	+	16	4031	c.3877A>C	c.(3877-3879)AGT>CGT	p.S1293R	GCC2_uc002ted.2_Missense_Mutation_p.S1192R	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	1293	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						GCGTACGCTAAGTGCATACCA	0.507													24	44					0	0	1	0	0		C	109103051	C	C	109103051	3	2	82	1	0	0	0	0	1	0	0	0	6301	72	3	5	3939	5	GCC2	2	109103051	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	614663	109103051	134096322	161	50617											
GCC2	9648	broad.mit.edu	37	chr2	109116111	109116111	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttgctgcagttcattttcTtgaaaccaggtagtgaaaga	11	14	9	7	0	3	3	1	2	2	1	3	3	3	3	1	1	3	4	1	1	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:109116111T>C	uc002tec.2	+	22	5039	c.4885T>C	c.(4885-4887)TTG>CTG	p.L1629L	GCC2_uc002ted.2_Silent_p.L1528L	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	1629	Mediates interaction with RAB9A.|GRIP.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						GTTCATTTTCTTGAAACCAGG	0.423													35	402					0	0	1	0	0		C	109116111	C	C	109116111	2	2	82	1	0	0	0	0	0	0	0	1	6301	1606	56	3		3	GCC2	2	109116111	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	13060	109116111	134083262	162	50618											
EDAR	10913	broad.mit.edu	37	chr2	109546637	109546637	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcacagccccgtagtctggTtgtagtactcgttctcaccg	6	11	11	13	3	2	0	1	0	2	0	4	0	2	0	3	2	2	6	3	2	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:109546637T>G	uc002teq.3	-	3	544	c.113A>C	c.(112-114)AAC>ACC	p.N38T	EDAR_uc010fjn.2_Missense_Mutation_p.N38T|EDAR_uc010yws.1_Missense_Mutation_p.N38T	NM_022336	NP_071731	Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor precursor	38	TNFR-Cys 1.|Extracellular (Potential).				apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1						CGTAGTCTGGTTGTAGTACTC	0.627													7	47					0	0	1	0	0		G	109546637	G	G	109546637	3	3	82	1	0	0	0	0	1	0	0	0	4911	1725	60	5	1273	5	EDAR	2	109546637	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	430526	109546637	133652736	163	50619											
CYP27C1	339761	broad.mit.edu	37	chr2	127956986	127956986	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagcagcatctcagtcacgTtggcgtagatctcctgcagc	8	9	10	14	2	3	1	2	0	2	1	5	1	3	1	2	1	4	5	2	1	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:127956986T>G	uc002tod.2	-	4	649	c.518A>C	c.(517-519)AAC>ACC	p.N173T		NM_001001665	NP_001001665	Q4G0S4	C27C1_HUMAN	cytochrome P450, family 27, subfamily C,	173						membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.071)		CTCAGTCACGTTGGCGTAGAT	0.582													8	93					0	0	1	0	0		G	127956986	G	G	127956986	3	3	82	1	0	0	0	0	1	0	0	0	4163	1725	60	5	620	5	CYP27C1	2	127956986	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	18410349	127956986	115242387	164	50620											
ERCC3	2071	broad.mit.edu	37	chr2	128050327	128050327	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtactcatgcacatgggtTggtcggcacactggctctgc	6	12	12	11	1	2	0	1	0	1	0	3	0	2	0	0	4	3	5	0	4	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:128050327T>C	uc002toh.1	-	3	425	c.330A>G	c.(328-330)CCA>CCG	p.P110P	ERCC3_uc002toe.1_5'Flank|ERCC3_uc002tof.1_Silent_p.P46P|ERCC3_uc002tog.1_Silent_p.P46P|ERCC3_uc010flx.1_Intron|ERCC3_uc010yzh.1_RNA|ERCC3_uc010fly.2_Intron	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	110					cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		GCACATGGGTTGGTCGGCACA	0.512			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				28	65					0	0	1	0	0		C	128050327	C	C	128050327	2	2	82	1	0	0	0	0	0	0	0	1	5222	1799	63	3		3	ERCC3	2	128050327	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	93341	128050327	115149046	165	50621											
SAP130	79595	broad.mit.edu	37	chr2	128707874	128707874	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgctgttgctttcgaggcTttttccttggggaggcacca	5	14	12	10	1	0	0	0	0	0	0	2	2	1	1	2	4	2	5	2	4	0	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:128707874T>G	uc002tpp.2	-	16	2636	c.2504A>C	c.(2503-2505)AAG>ACG	p.K835T	SAP130_uc002tpn.2_Missense_Mutation_p.K595T|SAP130_uc002tpo.2_Missense_Mutation_p.K615T|SAP130_uc010fmd.2_Missense_Mutation_p.K870T	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	835	Pro-rich.				histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		CTTTCGAGGCTTTTTCCTTGG	0.498													12	99					0	0	1	0	0		G	128707874	G	G	128707874	3	3	82	1	0	0	0	0	1	0	0	0	13856	1609	56	5	662	5	SAP130	2	128707874	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	657547	128707874	114491499	166	50622											
IMP4	92856	broad.mit.edu	37	chr2	131103502	131103502	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctcctcccgcctgggcaAgcgggtgagtctgggggcct	3	9	15	14	2	2	1	0	1	2	0	4	1	3	1	4	4	1	1	4	4	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:131103502A>T	uc002tra.1	+	6	607	c.590A>T	c.(589-591)AAG>ATG	p.K197M		NM_033416	NP_219484	Q96G21	IMP4_HUMAN	IMP4, U3 small nucleolar ribonucleoprotein,	197	Brix.				rRNA processing|translation	nucleolus|ribonucleoprotein complex	aminoacyl-tRNA ligase activity|ATP binding|protein binding			central_nervous_system(2)	2	Colorectal(110;0.1)					CGCCTGGGCAAGCGGGTGAGT	0.632													6	27					0	0	1	0	0		T	131103502	T	T	131103502	3	4	82	1	0	0	0	0	1	0	0	0	7736	72	3	5	612	5	IMP4	2	131103502	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2395628	131103502	112095871	167	50623											
LCT	3938	broad.mit.edu	37	chr2	136561695	136561695	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtcccagtggtaaatggTcacctgggaagaagccagat	12	8	13	8	0	1	2	1	0	0	2	2	3	2	3	3	4	1	1	3	4	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:136561695T>A	uc002tuu.1	-	11	4479	c.4468A>T	c.(4468-4470)ACC>TCC	p.T1490S		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1490	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TGGTAAATGGTCACCTGGGAA	0.517													8	54					0	0	1	0	0		A	136561695	A	A	136561695	3	1	82	1	0	0	0	0	1	0	0	0	8709	1667	58	5	1343	5	LCT	2	136561695	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5458193	136561695	106637678	168	50624											
NEB	4703	broad.mit.edu	37	chr2	152423760	152423760	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacatccattggtgcaagtaAttacgataatcaatatcact	15	12	5	9	1	2	0	2	0	0	0	3	1	3	0	1	1	2	2	1	1	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:152423760A>C	uc010fnx.2	-	86	13166	c.12975T>G	c.(12973-12975)AAT>AAG	p.N4325K	NEB_uc002txr.2_Missense_Mutation_p.N748K	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	4325	Nebulin 118.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GGTGCAAGTAATTACGATAAT	0.423													17	86					0	0	1	0	0		C	152423760	C	C	152423760	3	2	82	1	0	0	0	0	1	0	0	0	10321	98	4	5	7884	5	NEB	2	152423760	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	15862065	152423760	90775613	169	50625											
NEB	4703	broad.mit.edu	37	chr2	152520300	152520300	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgcatgaagtgcaccagcTtggggtcatcttccaggctc	7	11	11	12	0	2	1	1	1	1	0	4	1	3	1	2	3	3	4	2	3	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:152520300T>G	uc010fnx.2	-	45	5716	c.5525A>C	c.(5524-5526)AAG>ACG	p.K1842T		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1842	Nebulin 48.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GTGCACCAGCTTGGGGTCATC	0.488													15	43					0	0	1	0	0		G	152520300	G	G	152520300	3	3	82	1	0	0	0	0	1	0	0	0	10321	1609	56	5	20713	5	NEB	2	152520300	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	96540	152520300	90679073	170	50626											
SCN3A	6328	broad.mit.edu	37	chr2	166011114	166011114	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccaaataaaatgagcccaAgaaaatgaccaggacaaaaa	23	3	6	9	0	0	3	0	2	0	1	0	4	0	4	3	1	1	0	3	1	8	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:166011114A>T	uc002ucx.2	-	11	1720	c.1228T>A	c.(1228-1230)TTG>ATG	p.L410M	SCN3A_uc002ucy.2_Missense_Mutation_p.L410M|SCN3A_uc002ucz.2_Missense_Mutation_p.L410M|SCN3A_uc002uda.1_Missense_Mutation_p.L279M|SCN3A_uc002udb.1_Missense_Mutation_p.L279M	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	410	Helical; Name=S6 of repeat I; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	AATGAGCCCAAGAAAATGACC	0.428													5	76					0	0	1	0	0		T	166011114	T	T	166011114	3	4	82	1	0	0	0	0	1	0	0	0	13943	69	3	5	4846	5	SCN3A	2	166011114	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	13490814	166011114	77188259	171	50627											
SCN2A	6326	broad.mit.edu	37	chr2	166210929	166210929	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagatctaaataataaaaaAgacagctgtatttccaacca	20	9	5	7	0	1	2	0	0	1	2	2	3	2	2	2	0	2	2	2	0	9	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:166210929A>C	uc002udc.2	+	17	3437	c.3147A>C	c.(3145-3147)AAA>AAC	p.K1049N	SCN2A_uc002udd.2_Missense_Mutation_p.K1049N|SCN2A_uc002ude.2_Missense_Mutation_p.K1049N	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1049					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ATAATAAAAAAGACAGCTGTA	0.348													6	65					0	0	1	0	0		C	166210929	C	C	166210929	3	2	82	1	0	0	0	0	1	0	0	0	13941	69	3	5	3305	5	SCN2A	2	166210929	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	199815	166210929	76988444	172	50628											
SCN2A	6326	broad.mit.edu	37	chr2	166237231	166237231	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagataacttcaaccaacagAaaaagaagataagtatatta	22	9	5	5	0	1	4	1	0	0	4	1	4	1	4	1	0	3	1	1	0	11	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:166237231A>G	uc002udc.2	+	24	4728	c.4438A>G	c.(4438-4440)AAA>GAA	p.K1480E	SCN2A_uc002udd.2_Missense_Mutation_p.K1480E|SCN2A_uc002ude.2_Missense_Mutation_p.K1480E	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1480	III.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	CAACCAACAGAAAAAGAAGAT	0.289													5	43					0	0	1	0	0		G	166237231	G	G	166237231	3	3	82	1	0	0	0	0	1	0	0	0	13941	247	9	3	4624	3	SCN2A	2	166237231	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	26302	166237231	76962142	173	50629											
TTC21B	79809	broad.mit.edu	37	chr2	166797624	166797624	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcaggaaggaagctcggaAaattcacgattatctggttc	14	9	11	7	2	2	0	1	0	1	0	4	4	2	3	0	4	2	3	0	4	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:166797624A>C	uc002udk.2	-	6	756	c.623T>G	c.(622-624)TTT>TGT	p.F208C	TTC21B_uc002udl.2_Missense_Mutation_p.F208C|uc002udm.1_Intron	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	208	TPR 3.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						GAAGCTCGGAAAATTCACGAT	0.413													7	57					0	0	1	0	0		C	166797624	C	C	166797624	3	2	82	1	0	0	0	0	1	0	0	0	16714	14	1	5	3423	5	TTC21B	2	166797624	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	560393	166797624	76401749	174	50630											
SCN1A	6323	broad.mit.edu	37	chr2	166901752	166901752	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcactcttggaactcaacTtagaggcttcagatgagctg	11	11	10	9	0	3	3	2	1	1	2	3	4	3	4	0	2	4	3	0	2	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:166901752T>G	uc010zcz.1	-	10	1481	c.1463A>C	c.(1462-1464)AAG>ACG	p.K488T	SCN1A_uc002udo.3_Missense_Mutation_p.K357T|SCN1A_uc010fpk.2_Missense_Mutation_p.K357T	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	488						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GGAACTCAACTTAGAGGCTTC	0.473													35	169					0	0	1	0	0		G	166901752	G	G	166901752	3	3	82	1	0	0	0	0	1	0	0	0	13939	1609	56	5	4634	5	SCN1A	2	166901752	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	104128	166901752	76297621	175	50631											
XIRP2	129446	broad.mit.edu	37	chr2	168104634	168104634	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaacaaaaagcgggagacTgatgttcacttgaaaagcca	17	6	9	9	1	1	3	1	2	0	1	1	4	1	3	2	1	3	1	2	1	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:168104634T>G	uc002udx.2	+	8	6750	c.6732T>G	c.(6730-6732)ACT>ACG	p.T2244T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.T2069T|XIRP2_uc010fpq.2_Silent_p.T2022T|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2069					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGCGGGAGACTGATGTTCACT	0.378													18	51					0	0	1	0	0		G	168104634	G	G	168104634	2	3	82	1	0	0	0	0	0	0	0	1	17456	1567	55	5		5	XIRP2	2	168104634	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1202882	168104634	75094739	176	50632											
B3GALT1	8708	broad.mit.edu	37	chr2	168725911	168725911	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgttcctcctgggcaagaAtgctgatcctgttctcaatc	7	13	8	13	0	1	2	1	1	1	1	6	2	4	2	4	1	1	4	4	1	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:168725911A>C	uc002udz.1	+	2	713	c.362A>C	c.(361-363)AAT>ACT	p.N121T		NM_020981	NP_066191	Q9Y5Z6	B3GT1_HUMAN	UDP-Gal:betaGlcNAc beta	121	Lumenal (Potential).				lipid glycosylation|protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4						CTGGGCAAGAATGCTGATCCT	0.483													16	69					0	0	1	0	0		C	168725911	C	C	168725911	3	2	82	1	0	0	0	0	1	0	0	0	1248	101	4	5	364	5	B3GALT1	2	168725911	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	621277	168725911	74473462	177	50633											
FASTKD1	79675	broad.mit.edu	37	chr2	170387195	170387195	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaaagtgcttttgaatccaAaaattccaaagcaatcctac	17	10	4	10	0	0	1	0	1	0	0	3	1	3	1	3	0	3	2	3	0	7	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:170387195A>C	uc002uev.3	-	14	2732	c.2344T>G	c.(2344-2346)TTG>GTG	p.L782V	FASTKD1_uc002uew.3_RNA|FASTKD1_uc002uex.3_Missense_Mutation_p.L725V	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	782	RAP.				apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4						TTTGAATCCAAAAATTCCAAA	0.303													6	87					0	0	1	0	0		C	170387195	C	C	170387195	3	2	82	1	0	0	0	0	1	0	0	0	5699	11	1	5	207	5	FASTKD1	2	170387195	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1661284	170387195	72812178	178	50634											
AGPS	8540	broad.mit.edu	37	chr2	178386063	178386063	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctttaactacaggggaatTagtgacccactgaccgtatt	11	11	9	10	1	0	2	0	2	0	0	0	3	0	3	3	2	2	1	3	2	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:178386063T>C	uc002ull.2	+	18	1811	c.1764T>C	c.(1762-1764)ATT>ATC	p.I588I	AGPS_uc010zfb.1_Silent_p.I498I	NM_003659	NP_003650	O00116	ADAS_HUMAN	alkyldihydroxyacetone phosphate synthase	588					ether lipid biosynthetic process	peroxisomal matrix|peroxisomal membrane|plasma membrane	alkylglycerone-phosphate synthase activity|flavin adenine dinucleotide binding|oxidoreductase activity			ovary(2)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0018)|Epithelial(96;0.00919)|all cancers(119;0.0358)			ACAGGGGAATTAGTGACCCAC	0.373													6	89					0	0	1	0	0		C	178386063	C	C	178386063	2	2	82	1	0	0	0	0	0	0	0	1	394	1742	61	3		3	AGPS	2	178386063	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7998868	178386063	64813310	179	50635											
OSBPL6	114880	broad.mit.edu	37	chr2	179257153	179257153	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccaggttccatgccaacaAactatgagctgtactatggc	11	11	8	11	0	0	1	0	1	0	0	2	1	2	1	3	2	5	3	3	2	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:179257153A>C	uc002ulx.2	+	23	2839	c.2461A>C	c.(2461-2463)AAC>CAC	p.N821H	OSBPL6_uc002uly.2_Missense_Mutation_p.N846H|OSBPL6_uc010zfe.1_Missense_Mutation_p.N790H|OSBPL6_uc002ulz.2_Missense_Mutation_p.N785H|OSBPL6_uc002uma.2_Missense_Mutation_p.N825H	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	821					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			CATGCCAACAAACTATGAGCT	0.463													16	55					0	0	1	0	0		C	179257153	C	C	179257153	3	2	82	1	0	0	0	0	1	0	0	0	11300	14	1	5	2665	5	OSBPL6	2	179257153	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	871090	179257153	63942220	180	50636											
TTN	7273	broad.mit.edu	37	chr2	179449266	179449266	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaatacagtccttgttgActttggtgactcgtgcattc	10	14	8	9	1	0	2	0	2	0	0	3	2	1	2	1	1	2	2	1	1	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:179449266A>G	uc010zfg.1	-	260	57532	c.57308T>C	c.(57307-57309)GTC>GCC	p.V19103A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V12798A|TTN_uc010zfi.1_Missense_Mutation_p.V12731A|TTN_uc010zfj.1_Missense_Mutation_p.V12606A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20030							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTCCTTGTTGACTTTGGTGAC	0.408													11	60					0	0	1	0	0		G	179449266	G	G	179449266	3	3	82	1	0	0	0	0	1	0	0	0	16761	275	10	3	43175	3	TTN	2	179449266	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	192113	179449266	63750107	181	50637											
TTN	7273	broad.mit.edu	37	chr2	179455636	179455636	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggtttaccaggaggagaCggaggactaaatttatgctt	12	11	12	6	1	0	1	0	0	0	1	0	5	0	4	1	5	2	2	1	5	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:179455636C>T	uc010zfg.1	-	253	53336	c.53112G>A	c.(53110-53112)CCG>CCA	p.P17704P	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.P11399P|TTN_uc010zfi.1_Silent_p.P11332P|TTN_uc010zfj.1_Silent_p.P11207P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	18631							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGGAGGAGACGGAGGACTAA	0.458													38	96					0	0	1	0	0		T	179455636	T	T	179455636	2	4	82	1	0	0	0	0	0	0	0	1	16761	523	19	1		1	TTN	2	179455636	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	6370	179455636	63743737	182	50638											
TTN	7273	broad.mit.edu	37	chr2	179528765	179528765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taacaggtgggacttcaggcTttttaggaggcaccaccgac	10	9	12	10	1	1	0	1	0	0	0	1	3	1	2	2	5	1	2	2	5	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:179528765T>C	uc010zfk.1	-	14	1327	c.779A>G	c.(778-780)AAG>AGG	p.K260R	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	11472							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.R256_K260>K(1)		ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GACTTCAGGCTTTTTAGGAGG	0.388													7	106					0	0	1	0	0		C	179528765	C	C	179528765	3	2	82	1	0	0	0	0	1	0	0	0	16761	1624	56	3		3	TTN	2	179528765	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	73129	179528765	63670608	183	50639											
TTN	7273	broad.mit.edu	37	chr2	179576069	179576069	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgagaaaatgatggtggaagTttttgctctgtaggaacaga	13	11	13	4	1	1	3	0	1	1	2	1	6	1	5	0	3	2	3	0	3	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:179576069T>G	uc010zfg.1	-	94	24386	c.24162A>C	c.(24160-24162)AAA>AAC	p.K8054N	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K4715N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8981							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGGTGGAAGTTTTTGCTCTG	0.338													14	36					0	0	1	0	0		G	179576069	G	G	179576069	3	3	82	1	0	0	0	0	1	0	0	0	16761	1722	60	5	76699	5	TTN	2	179576069	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	47304	179576069	63623304	184	50640											
TTN	7273	broad.mit.edu	37	chr2	179577516	179577516	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgatgtatctacatcgAacaactccagttcagcaact	12	13	6	10	1	2	1	1	1	1	0	4	2	3	1	1	0	5	3	1	0	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:179577516A>C	uc010zfg.1	-	91	23728	c.23504T>G	c.(23503-23505)TTC>TGC	p.F7835C	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.F4496C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8762							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATCTACATCGAACAACTCCAG	0.423													4	62					0	0	1	0	0		C	179577516	C	C	179577516	3	2	82	1	0	0	0	0	1	0	0	0	16761	246	9	5	77369	5	TTN	2	179577516	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1447	179577516	63621857	185	50641											
TTN	7273	broad.mit.edu	37	chr2	179577970	179577970	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttccactactgatctcaTttccttcatggaaccaggag	9	13	6	13	0	2	1	2	1	1	0	6	3	5	3	4	2	2	0	4	2	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:179577970T>C	uc010zfg.1	-	90	23383	c.23159A>G	c.(23158-23160)AAT>AGT	p.N7720S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.N4381S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8647							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACTGATCTCATTTCCTTCATG	0.433													6	24					0	0	1	0	0		C	179577970	C	C	179577970	3	2	82	1	0	0	0	0	1	0	0	0	16761	1493	52	3	77718	3	TTN	2	179577970	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	454	179577970	63621403	186	50642											
TTN	7273	broad.mit.edu	37	chr2	179595420	179595420	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaaccactggatgcttatgGgatgtgacccagccactata	11	10	10	10	0	0	2	0	2	0	0	0	4	0	4	3	2	3	1	3	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:179595420G>T	uc010zfg.1	-	58	14332	c.14108C>A	c.(14107-14109)CCC>CAC	p.P4703H	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P1364H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5630							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GATGCTTATGGGATGTGACCC	0.378													18	83					3.99206e-14	4.03654e-14	1	1	0		T	179595420	T	T	179595420	3	4	82	1	0	0	0	0	1	0	0	0	16761	1232	43	5	86897	5	TTN	2	179595420	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	17450	179595420	63603953	187	50643											
TTN	7273	broad.mit.edu	37	chr2	179610355	179610355	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctctcagccattcctgatTtgtttgtagctacacaccta	9	14	6	12	0	1	1	1	1	1	0	3	1	2	1	3	0	4	4	3	0	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:179610355T>G	uc002unb.2	-	46	16996	c.16772A>C	c.(16771-16773)AAA>ACA	p.K5591T	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATTCCTGATTTGTTTGTAGC	0.383													7	92					0	0	1	0	0		G	179610355	G	G	179610355	3	3	82	1	0	0	0	0	1	0	0	0	16761	1841	64	5	93525	5	TTN	2	179610355	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	14935	179610355	63589018	188	50644											
TTN	7273	broad.mit.edu	37	chr2	179639750	179639750	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggtcagtatggagaggaAgtgaacctttctgtcagagt	12	11	13	5	0	3	3	2	1	1	2	3	5	3	4	1	3	1	1	1	3	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:179639750A>T	uc010zfg.1	-	29	6912	c.6688T>A	c.(6688-6690)TTC>ATC	p.F2230I	TTN_uc010zfh.1_Missense_Mutation_p.F2184I|TTN_uc010zfi.1_Missense_Mutation_p.F2184I|TTN_uc010zfj.1_Missense_Mutation_p.F2184I|TTN_uc002unb.2_Missense_Mutation_p.F2230I|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2230							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGGAGAGGAAGTGAACCTTT	0.388													8	75					0	0	1	0	0		T	179639750	T	T	179639750	3	4	82	1	0	0	0	0	1	0	0	0	16761	72	3	5	104636	5	TTN	2	179639750	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	29395	179639750	63559623	189	50645											
TTN	7273	broad.mit.edu	37	chr2	179641097	179641097	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttctttctgatctgttgTtacacctgtaagtgcacctt	6	19	6	10	0	3	1	0	1	3	0	3	1	3	1	2	0	2	4	2	0	2	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:179641097T>G	uc010zfg.1	-	28	5718	c.5494A>C	c.(5494-5496)ACA>CCA	p.T1832P	TTN_uc010zfh.1_Missense_Mutation_p.T1786P|TTN_uc010zfi.1_Missense_Mutation_p.T1786P|TTN_uc010zfj.1_Missense_Mutation_p.T1786P|TTN_uc002unb.2_Missense_Mutation_p.T1832P|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1832							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGATCTGTTGTTACACCTGTA	0.458													37	103					0	0	1	0	0		G	179641097	G	G	179641097	3	3	82	1	0	0	0	0	1	0	0	0	16761	1725	60	5	105834	5	TTN	2	179641097	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1347	179641097	63558276	190	50646											
CWC22	57703	broad.mit.edu	37	chr2	180835492	180835492	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtggtccttgaatccatcTttccgtacagcaaacatcac	10	11	8	12	1	2	1	1	1	1	0	5	1	5	1	3	2	3	2	3	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:180835492T>G	uc010frh.1	-	10	1332	c.1032A>C	c.(1030-1032)AAA>AAC	p.K344N	CWC22_uc002unp.2_Missense_Mutation_p.K344N	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	344	MIF4G.					catalytic step 2 spliceosome	protein binding|RNA binding				0						TGAATCCATCTTTCCGTACAG	0.383													7	75					0	0	1	0	0		G	180835492	G	G	180835492	3	3	82	1	0	0	0	0	1	0	0	0	4071	1606	56	5	1738	5	CWC22	2	180835492	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1194395	180835492	62363881	191	50647											
ZSWIM2	151112	broad.mit.edu	37	chr2	187693238	187693238	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtattttcataggcatcttTtgggctttgaggtgtattca	7	19	10	5	0	3	1	2	1	1	0	3	1	3	1	0	3	0	4	0	3	3	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:187693238T>G	uc002upu.1	-	9	1415	c.1375A>C	c.(1375-1377)AAA>CAA	p.K459Q		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	459					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			TAGGCATCTTTTGGGCTTTGA	0.284													6	63					0	0	1	0	0		G	187693238	G	G	187693238	3	3	82	1	0	0	0	0	1	0	0	0	18266	1850	64	5	530	5	ZSWIM2	2	187693238	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	6857746	187693238	55506135	192	50648											
ANKAR	150709	broad.mit.edu	37	chr2	190554291	190554291	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggatccagactttaatgaaAtctatgatgaagacgtgaat	16	11	9	5	1	1	6	0	4	1	2	2	7	2	7	1	1	0	0	1	1	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:190554291A>C	uc002uqw.1	+	2	427	c.427A>C	c.(427-429)ATC>CTC	p.I143L	ANKAR_uc002uqu.2_RNA|ANKAR_uc002uqv.1_Missense_Mutation_p.I214L	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	214						integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			CTTTAATGAAATCTATGATGA	0.303													39	99					0	0	1	0	0		C	190554291	C	C	190554291	3	2	82	1	0	0	0	0	1	0	0	0	623	101	4	5	646	5	ANKAR	2	190554291	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2861053	190554291	52645082	193	50649											
ANKAR	150709	broad.mit.edu	37	chr2	190554626	190554626	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgttttctgattccattTctactgagtttaaagaagaa	13	17	6	5	0	2	4	0	2	2	2	3	4	3	4	1	0	1	2	1	0	6	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:190554626T>G	uc002uqw.1	+	2	762	c.762T>G	c.(760-762)TTT>TTG	p.F254L	ANKAR_uc002uqu.2_RNA|ANKAR_uc002uqv.1_Missense_Mutation_p.F325L	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	325	Helical; (Potential).					integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			TGATTCCATTTCTACTGAGTT	0.274													12	66					0	0	1	0	0		G	190554626	G	G	190554626	3	3	82	1	0	0	0	0	1	0	0	0	623	1780	62	5	981	5	ANKAR	2	190554626	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	335	190554626	52644747	194	50650											
ANKAR	150709	broad.mit.edu	37	chr2	190585496	190585496	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcccatatcttatcagatTtctgagttctgattcaggtg	8	16	7	10	0	5	3	2	2	3	1	6	3	6	3	2	1	0	1	2	1	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:190585496T>G	uc002uqw.1	+	11	2405	c.2405T>G	c.(2404-2406)TTT>TGT	p.F802C	ANKAR_uc002uqu.2_RNA|ANKAR_uc002uqx.1_RNA	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	873	ARM 4.					integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			CTTATCAGATTTCTGAGTTCT	0.343													24	184					0	0	1	0	0		G	190585496	G	G	190585496	3	3	82	1	0	0	0	0	1	0	0	0	623	1841	64	5	2660	5	ANKAR	2	190585496	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	30870	190585496	52613877	195	50651											
PMS1	5378	broad.mit.edu	37	chr2	190719033	190719033	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccattacctagtacaaattcTtatgaaaataataaaacaga	20	11	3	7	0	1	2	0	1	1	1	1	2	1	2	2	0	3	1	2	0	10	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:190719033T>C	uc002urh.3	+	9	1564	c.1035T>C	c.(1033-1035)TCT>TCC	p.S345S	PMS1_uc010zga.1_Silent_p.S306S|PMS1_uc010zgb.1_Silent_p.S284S|PMS1_uc002urk.3_Silent_p.S306S|PMS1_uc002uri.3_Silent_p.S345S|PMS1_uc010zgc.1_Silent_p.S169S|PMS1_uc010zgd.1_Silent_p.S169S|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Silent_p.S306S|PMS1_uc010frz.2_Intron|PMS1_uc002url.2_Silent_p.S130S|PMS1_uc002urm.2_RNA|PMS1_uc002urn.1_Silent_p.S13S	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	345					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			GTACAAATTCTTATGAAAATA	0.318			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					16	66					0	0	1	0	0		C	190719033	C	C	190719033	2	2	82	1	0	0	0	0	0	0	0	1	12161	1596	56	3		3	PMS1	2	190719033	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	133537	190719033	52480340	196	50652											
PMS1	5378	broad.mit.edu	37	chr2	190719376	190719376	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagtaaaacttgttttataAgttccgttaagcacacccag	14	13	6	8	1	0	0	0	0	0	0	1	0	1	0	2	0	2	5	2	0	6	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:190719376A>C	uc002urh.3	+	9	1907	c.1378A>C	c.(1378-1380)AGT>CGT	p.S460R	PMS1_uc010zga.1_Missense_Mutation_p.S421R|PMS1_uc010zgb.1_Missense_Mutation_p.S399R|PMS1_uc002urk.3_Missense_Mutation_p.S421R|PMS1_uc002uri.3_Missense_Mutation_p.S460R|PMS1_uc010zgc.1_Missense_Mutation_p.S284R|PMS1_uc010zgd.1_Missense_Mutation_p.S284R|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Missense_Mutation_p.S421R|PMS1_uc010frz.2_Intron|PMS1_uc002url.2_Missense_Mutation_p.S245R|PMS1_uc002urm.2_RNA|PMS1_uc002urn.1_Missense_Mutation_p.S128R	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	460					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			TTGTTTTATAAGTTCCGTTAA	0.358			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					6	87					0	0	1	0	0		C	190719376	C	C	190719376	3	2	82	1	0	0	0	0	1	0	0	0	12161	72	3	5	1408	5	PMS1	2	190719376	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	343	190719376	52479997	197	50653											
SLC39A10	57181	broad.mit.edu	37	chr2	196545252	196545252	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaagagacagttgaagtGtctgtaaaatctgatgataa	17	10	11	3	0	2	5	0	3	2	2	2	7	2	5	0	0	0	2	0	0	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:196545252G>T	uc002utg.3	+	2	700	c.486G>T	c.(484-486)GTG>GTT	p.V162V	SLC39A10_uc002uth.3_Silent_p.V162V|SLC39A10_uc010zgp.1_Intron	NM_001127257	NP_001120729	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter),	162	His-rich.				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.221)			CAGTTGAAGTGTCTGTAAAAT	0.363													23	81					1.85244e-09	1.87048e-09	1	1	0		T	196545252	T	T	196545252	2	4	82	1	0	0	0	0	0	0	0	1	14638	1364	48	5		5	SLC39A10	2	196545252	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	5825876	196545252	46654121	198	50654											
PGAP1	80055	broad.mit.edu	37	chr2	197712683	197712683	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacttaccccaacagaaacTtaatgataattacaaaagga	21	8	4	8	0	0	2	0	1	0	1	0	3	0	3	2	1	5	0	2	1	9	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:197712683T>G	uc002utw.2	-	21	2054	c.1940A>C	c.(1939-1941)AAG>ACG	p.K647T	PGAP1_uc002utx.2_Missense_Mutation_p.K473T|PGAP1_uc002uty.1_3'UTR|PGAP1_uc010fsi.2_5'Flank	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	647	Helical; (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						CAACAGAAACTTAATGATAAT	0.274													18	69					0	0	1	0	0		G	197712683	G	G	197712683	3	3	82	1	0	0	0	0	1	0	0	0	11796	1609	56	5	856	5	PGAP1	2	197712683	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1167431	197712683	45486690	199	50655											
BOLL	66037	broad.mit.edu	37	chr2	198641795	198641795	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcatacctcttgtaaaatTttttgtgcatcttcttgtgt	8	20	6	7	0	4	0	1	0	3	0	4	1	4	0	1	0	2	2	1	0	3	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:198641795T>G	uc002uus.2	-	4	574	c.264A>C	c.(262-264)AAA>AAC	p.K88N	BOLL_uc002uur.2_Missense_Mutation_p.K94N|BOLL_uc002uut.2_Missense_Mutation_p.K100N|BOLL_uc010zha.1_Intron|BOLL_uc002uuu.1_Missense_Mutation_p.K94N	NM_033030	NP_149019	Q8N9W6	BOLL_HUMAN	boule isoform 2	88	RRM.				cell differentiation|meiosis|multicellular organismal development|positive regulation of translational initiation|spermatogenesis	cytoplasm	nucleotide binding|protein binding|RNA binding|translation activator activity			ovary(2)	2						CTTGTAAAATTTTTTGTGCAT	0.254													11	45					0	0	1	0	0		G	198641795	G	G	198641795	3	3	82	1	0	0	0	0	1	0	0	0	1490	1838	64	5	619	5	BOLL	2	198641795	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	929112	198641795	44557578	200	50656											
TRAK2	66008	broad.mit.edu	37	chr2	202245793	202245793	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagaagtttggccaagcTcatggtgctactgaaggttg	9	13	13	6	0	1	2	1	1	0	1	1	2	1	2	1	3	3	5	1	3	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:202245793T>A	uc002uyb.3	-	16	2664	c.2218A>T	c.(2218-2220)AGC>TGC	p.S740C		NM_015049	NP_055864	O60296	TRAK2_HUMAN	trafficking protein, kinesin binding 2	740				Missing (in Ref. 2).		early endosome|plasma membrane	GABA receptor binding				0						TTGGCCAAGCTCATGGTGCTA	0.512													24	133					0	0	1	0	0		A	202245793	A	A	202245793	3	1	82	1	0	0	0	0	1	0	0	0	16476	1551	54	5	530	5	TRAK2	2	202245793	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3603998	202245793	40953580	201	50657											
ABI2	10152	broad.mit.edu	37	chr2	204291994	204291994	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaagaagaatgacgatggTtggtatgagggagttatgaa	15	10	14	2	1	1	5	1	3	0	2	1	7	1	6	0	3	0	3	0	3	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:204291994T>G	uc002vaa.2	+	11	1696	c.1461T>G	c.(1459-1461)GGT>GGG	p.G487G	ABI2_uc002uzz.2_Silent_p.G449G|ABI2_uc010zih.1_Silent_p.G135G|ABI2_uc010zii.1_Silent_p.G481G|ABI2_uc010zij.1_Silent_p.G364G|ABI2_uc002vab.2_Silent_p.G375G|ABI2_uc010zik.1_Silent_p.G212G|ABI2_uc010zil.1_Silent_p.G351G|ABI2_uc010zim.1_Silent_p.G300G|ABI2_uc002vac.2_Silent_p.G273G|ABI2_uc010zin.1_Silent_p.G164G	NM_005759	NP_005750	Q9NYB9	ABI2_HUMAN	abl interactor 2	487	SH3.				actin polymerization or depolymerization|cell migration|peptidyl-tyrosine phosphorylation	cytoskeleton|cytosol|filopodium|lamellipodium	cytoskeletal adaptor activity|DNA binding|kinase binding|proline-rich region binding|SH3 domain binding|ubiquitin protein ligase binding				0						ATGACGATGGTTGGTATGAGG	0.418													21	47					0	0	1	0	0		G	204291994	G	G	204291994	2	3	82	1	0	0	0	0	0	0	0	1	89	1712	60	5		5	ABI2	2	204291994	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2046201	204291994	38907379	202	50658											
MDH1B	130752	broad.mit.edu	37	chr2	207621681	207621681	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggcttcttcctcctgctcTttttctatatgtgcccccag	4	16	7	14	0	3	0	0	0	3	0	5	0	5	0	4	1	2	2	4	1	2	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:207621681T>A	uc002vbs.2	-	4	409	c.354A>T	c.(352-354)AAA>AAT	p.K118N	MDH1B_uc010ziw.1_RNA|MDH1B_uc010fui.2_Missense_Mutation_p.K118N|MDH1B_uc010fuj.2_Missense_Mutation_p.K20N|MDH1B_uc002vbt.2_RNA	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)	118					carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		CCTCCTGCTCTTTTTCTATAT	0.438													8	61					0	0	1	0	0		A	207621681	A	A	207621681	3	1	82	1	0	0	0	0	1	0	0	0	9427	1606	56	5	1238	5	MDH1B	2	207621681	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3329687	207621681	35577692	203	50659											
PIKFYVE	200576	broad.mit.edu	37	chr2	209179076	209179076	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctgcctttcacacctttGggctggcatcataacaacct	9	11	8	13	0	2	0	2	0	0	0	2	1	2	0	3	2	4	3	3	2	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:209179076G>A	uc002vcz.2	+	14	1913	c.1755G>A	c.(1753-1755)TTG>TTA	p.L585L	PIKFYVE_uc010fun.1_Silent_p.L266L|PIKFYVE_uc002vcy.1_Silent_p.L529L	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	585					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						TCACACCTTTGGGCTGGCATC	0.388													5	73					0	0	1	0	0		A	209179076	A	A	209179076	2	1	82	1	0	0	0	0	0	0	0	1	11943	1339	47	4		4	PIKFYVE	2	209179076	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1557395	209179076	34020297	204	50660											
SPAG16	79582	broad.mit.edu	37	chr2	214794832	214794832	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaattttgtggcttcctccTcactggataaaactagcaaa	12	12	7	10	0	1	0	1	0	0	0	3	1	3	1	2	2	2	3	2	2	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:214794832T>C	uc002veq.2	+	12	1455	c.1363T>C	c.(1363-1365)TCA>CCA	p.S455P	SPAG16_uc010fuz.1_Missense_Mutation_p.S306P|SPAG16_uc002ver.2_Missense_Mutation_p.S401P|SPAG16_uc010zjk.1_Missense_Mutation_p.S361P	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	455	WD 3.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		GGCTTCCTCCTCACTGGATAA	0.433													22	56					0	0	1	0	0		C	214794832	C	C	214794832	3	2	82	1	0	0	0	0	1	0	0	0	15003	1551	54	3	1425	3	SPAG16	2	214794832	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5615756	214794832	28404541	205	50661											
TNS1	7145	broad.mit.edu	37	chr2	218712817	218712817	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggtctctgccaatggcTgagggctgggcctgctggct	3	10	18	10	0	1	1	0	1	1	0	2	1	1	1	2	6	2	4	2	6	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:218712817T>C	uc002vgt.2	-	17	2446	c.2048A>G	c.(2047-2049)CAG>CGG	p.Q683R	TNS1_uc002vgr.2_Missense_Mutation_p.Q683R|TNS1_uc002vgs.2_Missense_Mutation_p.Q683R|TNS1_uc010zjv.1_Missense_Mutation_p.Q683R|TNS1_uc010fvj.1_Missense_Mutation_p.Q751R|TNS1_uc010fvk.1_Missense_Mutation_p.Q808R|TNS1_uc010fvi.1_Missense_Mutation_p.Q370R	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	683						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		TGCCAATGGCTGAGGGCTGGG	0.512													5	34					0	0	1	0	0		C	218712817	C	C	218712817	3	2	82	1	0	0	0	0	1	0	0	0	16368	1580	55	3	3227	3	TNS1	2	218712817	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3917985	218712817	24486556	206	50662											
TNS1	7145	broad.mit.edu	37	chr2	218713280	218713280	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgggtagcccccctcacTggtgttggtgaccccgtcca	4	10	11	16	1	2	1	1	1	1	0	3	1	3	1	6	3	1	2	6	3	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:218713280T>C	uc002vgt.2	-	17	1983	c.1585A>G	c.(1585-1587)AGT>GGT	p.S529G	TNS1_uc002vgr.2_Missense_Mutation_p.S529G|TNS1_uc002vgs.2_Missense_Mutation_p.S529G|TNS1_uc010zjv.1_Missense_Mutation_p.S529G|TNS1_uc010fvj.1_Missense_Mutation_p.S597G|TNS1_uc010fvk.1_Missense_Mutation_p.S654G|TNS1_uc010fvi.1_Missense_Mutation_p.S216G	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	529						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		CCCCCCTCACTGGTGTTGGTG	0.602													7	67					0	0	1	0	0		C	218713280	C	C	218713280	3	2	82	1	0	0	0	0	1	0	0	0	16368	1580	55	3	3690	3	TNS1	2	218713280	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	463	218713280	24486093	207	50663											
CXCR1	3577	broad.mit.edu	37	chr2	219029780	219029780	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagtttcccagcaggctcAgcaggaacactagggcatag	11	6	14	10	0	1	0	1	0	0	0	2	2	2	2	1	4	3	5	1	4	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:219029780A>C	uc002vhc.2	-	2	274	c.155T>G	c.(154-156)CTG>CGG	p.L52R		NM_000634	NP_000625	P25024	CXCR1_HUMAN	interleukin 8 receptor alpha	52	Helical; Name=1; (Potential).				dendritic cell chemotaxis|inflammatory response	integral to membrane|plasma membrane	interleukin-8 receptor activity			lung(2)	2						CAGCAGGCTCAGCAGGAACAC	0.542													17	150					0	0	1	0	0		C	219029780	C	C	219029780	3	2	82	1	0	0	0	0	1	0	0	0	4093	188	7	5	901	5	CXCR1	2	219029780	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	316500	219029780	24169593	208	50664											
PLCD4	84812	broad.mit.edu	37	chr2	219483332	219483332	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgtggagacaatacgtaAtggccatgattccgagttgc	11	11	12	7	2	0	3	0	2	0	1	1	5	1	3	2	2	2	2	2	2	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:219483332A>C	uc002vij.1	+	4	407	c.212A>C	c.(211-213)AAT>ACT	p.N71T	PLCD4_uc010zkj.1_Missense_Mutation_p.N18T|PLCD4_uc002vik.1_5'Flank|PLCD4_uc010zkk.1_5'Flank	NM_032726	NP_116115	Q9BRC7	PLCD4_HUMAN	phospholipase C, delta 4	71	PH.				intracellular signal transduction|lipid catabolic process	endoplasmic reticulum|membrane|nucleus	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)	3		Renal(207;0.0915)		Epithelial(149;5.11e-07)|all cancers(144;0.000104)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		ACAATACGTAATGGCCATGAT	0.542													9	31					0	0	1	0	0		C	219483332	C	C	219483332	3	2	82	1	0	0	0	0	1	0	0	0	12052	101	4	5	222	5	PLCD4	2	219483332	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	453552	219483332	23716041	209	50665											
GLB1L	79411	broad.mit.edu	37	chr2	220101987	220101987	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccctaggaaacagcaggAatcttggcacgtagagggtc	11	7	12	11	1	1	1	0	0	1	1	3	3	2	3	2	4	2	3	2	4	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:220101987A>G	uc002vkm.2	-	17	2011	c.1772T>C	c.(1771-1773)TTC>TCC	p.F591S	GLB1L_uc002vkk.2_Missense_Mutation_p.F348S|GLB1L_uc010zkx.1_Missense_Mutation_p.F501S|GLB1L_uc002vkn.2_Missense_Mutation_p.F591S	NM_024506	NP_078782	Q6UWU2	GLB1L_HUMAN	galactosidase, beta 1-like precursor	591					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds				0		all_lung(227;1.19e-05)|Lung NSC(271;2.76e-05)|Medulloblastoma(418;0.0208)|Esophageal squamous(248;0.0559)		Epithelial(149;1.3e-11)|all cancers(144;2.07e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AAACAGCAGGAATCTTGGCAC	0.512													6	50					0	0	1	0	0		G	220101987	G	G	220101987	3	3	82	1	0	0	0	0	1	0	0	0	6443	246	9	3	196	3	GLB1L	2	220101987	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	618655	220101987	23097386	210	50666											
EPHA4	2043	broad.mit.edu	37	chr2	222428958	222428958	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaagactattgcagtcccTcaaggtgaatttaatctcaa	13	11	8	9	1	2	2	2	1	1	1	4	3	3	3	1	2	1	1	1	2	6	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:222428958T>A	uc002vmq.2	-	3	358	c.316A>T	c.(316-318)AGG>TGG	p.R106W	EPHA4_uc002vmr.2_Missense_Mutation_p.R106W|EPHA4_uc010zlm.1_Missense_Mutation_p.R47W|EPHA4_uc010zln.1_Missense_Mutation_p.R106W	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	106	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		TTGCAGTCCCTCAAGGTGAAT	0.473													11	145					0	0	1	0	0		A	222428958	A	A	222428958	3	1	82	1	0	0	0	0	1	0	0	0	5177	1550	54	5	2704	5	EPHA4	2	222428958	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2326971	222428958	20770415	211	50667											
SCG2	7857	broad.mit.edu	37	chr2	224463728	224463728	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctttcatcgccattttcTttttgctgaagggggacaga	7	15	11	8	1	2	2	1	1	1	1	3	3	2	3	1	3	1	2	1	3	1	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:224463728T>G	uc002vnm.2	-	2	406	c.273A>C	c.(271-273)AAA>AAC	p.K91N		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	91					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		CGCCATTTTCTTTTTGCTGAA	0.453													6	110					0	0	1	0	0		G	224463728	G	G	224463728	3	3	82	1	0	0	0	0	1	0	0	0	13916	1606	56	5	1584	5	SCG2	2	224463728	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2034770	224463728	18735645	212	50668											
SLC19A3	80704	broad.mit.edu	37	chr2	228560750	228560750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagccagctctcccagaaGgtcccagttgactttcacat	10	9	8	14	0	2	3	1	1	1	2	4	3	3	3	3	1	2	2	3	1	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:228560750G>A	uc002vpi.2	-	4	1116	c.1027C>T	c.(1027-1029)CTT>TTT	p.L343F	SLC19A3_uc002vpj.2_RNA|SLC19A3_uc010zlv.1_Missense_Mutation_p.L339F	NM_025243	NP_079519	Q9BZV2	S19A3_HUMAN	solute carrier family 19, member 3	343	Helical; (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)	TCTCCCAGAAGGTCCCAGTTG	0.463													19	73					0	0	1	0	0		A	228560750	A	A	228560750	3	1	82	1	0	0	0	0	1	0	0	0	14455	1000	35	4	475	4	SLC19A3	2	228560750	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	4097022	228560750	14638623	213	50669											
SPHKAP	80309	broad.mit.edu	37	chr2	228846499	228846499	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgctcctcatgcattttGcagtactggacaactgcatg	8	14	8	11	0	2	0	1	0	1	0	3	1	3	1	1	1	6	5	1	1	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:228846499G>T	uc002vpq.2	-	12	5084	c.5037C>A	c.(5035-5037)TGC>TGA	p.C1679*	SPHKAP_uc002vpp.2_Nonsense_Mutation_p.C1650*|SPHKAP_uc010zlx.1_3'UTR	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1679						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CATGCATTTTGCAGTACTGGA	0.463													20	75					2.32416e-17	2.35333e-17	1	1	0		T	228846499	T	T	228846499	4	4	82	1	0	0	0	0	0	1	0	0	15073	1311	46	5	69	5	SPHKAP	2	228846499	Nonsense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	285749	228846499	14352874	214	50670											
SPHKAP	80309	broad.mit.edu	37	chr2	228881411	228881411	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagaagcagttttgctcaAagatgacactgggggctgtt	12	10	13	6	0	1	3	1	1	0	2	1	4	1	3	0	2	2	5	0	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:228881411A>C	uc002vpq.2	-	7	4206	c.4159T>G	c.(4159-4161)TTG>GTG	p.L1387V	SPHKAP_uc002vpp.2_Missense_Mutation_p.L1387V|SPHKAP_uc010zlx.1_Missense_Mutation_p.L1387V	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1387						cytoplasm	protein binding	p.L1387L(1)		skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GTTTTGCTCAAAGATGACACT	0.478													10	112					0	0	1	0	0		C	228881411	C	C	228881411	3	2	82	1	0	0	0	0	1	0	0	0	15073	11	1	5	967	5	SPHKAP	2	228881411	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	34912	228881411	14317962	215	50671											
FBXO36	130888	broad.mit.edu	37	chr2	230861562	230861562	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaacggctctcagacgatTtgctcctgactatcatttct	8	15	7	11	2	3	3	2	2	2	1	5	4	4	3	1	1	2	2	1	1	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:230861562T>C	uc002vqa.2	+	3	324	c.301T>C	c.(301-303)TTG>CTG	p.L101L	FBXO36_uc002vqb.2_Silent_p.L70L|FBXO36_uc010fxi.1_Silent_p.L101L|FBXO36_uc002vqc.2_RNA	NM_174899	NP_777559	Q8NEA4	FBX36_HUMAN	F-box protein 36	101	F-box.									ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0179)|Lung NSC(271;0.0804)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;7.56e-14)|all cancers(144;7.74e-11)|Lung(119;0.00488)|LUSC - Lung squamous cell carcinoma(224;0.008)		CTCAGACGATTTGCTCCTGAC	0.368													18	136					0	0	1	0	0		C	230861562	C	C	230861562	2	2	82	1	0	0	0	0	0	0	0	1	5759	1838	64	3		3	FBXO36	2	230861562	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1980151	230861562	12337811	216	50672											
SLC16A14	151473	broad.mit.edu	37	chr2	230910769	230910769	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgtgaactattgctataAttgacgtcagagggaaaacg	15	10	11	5	2	1	4	1	2	0	2	1	5	1	5	0	1	3	1	0	1	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:230910769A>C	uc002vqd.1	-	4	1436	c.1073T>G	c.(1072-1074)ATT>AGT	p.I358S	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Missense_Mutation_p.I358S|SLC16A14_uc002vqf.2_Missense_Mutation_p.I358S	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	358	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		TATTGCTATAATTGACGTCAG	0.438													12	50					0	0	1	0	0		C	230910769	C	C	230910769	3	2	82	1	0	0	0	0	1	0	0	0	14432	101	4	5	467	5	SLC16A14	2	230910769	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	49207	230910769	12288604	217	50673											
TRAF3IP1	26146	broad.mit.edu	37	chr2	239234574	239234574	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcctgaaagaacaaacgAgctgctccagataattggaa	16	7	10	8	1	0	4	0	2	0	2	1	6	1	5	2	1	5	2	2	1	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:239234574A>G	uc002vye.2	+	3	436	c.317A>G	c.(316-318)GAG>GGG	p.E106G	TRAF3IP1_uc002vyf.2_Missense_Mutation_p.E106G	NM_015650	NP_056465	Q8TDR0	MIPT3_HUMAN	TNF receptor-associated factor 3 interacting	106	Abolishes microtubules-binding when missing.					cytoplasm|cytoskeleton	protein binding			ovary(1)	1		all_epithelial(40;3.22e-10)|Breast(86;0.000523)|Renal(207;0.00571)|Ovarian(221;0.156)|all_hematologic(139;0.182)		Epithelial(121;9.92e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.85e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.01e-07)|BRCA - Breast invasive adenocarcinoma(100;7.72e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0184)		AGAACAAACGAGCTGCTCCAG	0.488													8	47					0	0	1	0	0		G	239234574	G	G	239234574	3	3	82	1	0	0	0	0	1	0	0	0	16466	304	11	3	327	3	TRAF3IP1	2	239234574	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	8323805	239234574	3964799	218	50674											
SNED1	25992	broad.mit.edu	37	chr2	241992724	241992724	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccacacggtgtctggagTgagcctccccagtgccttgg	6	8	13	14	1	1	1	0	1	1	0	2	2	2	2	5	3	3	0	5	3	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr2:241992724T>G	uc002wah.1	+	16	2238	c.2238T>G	c.(2236-2238)AGT>AGG	p.S746R		NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	746	Sushi.				cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		GTGTCTGGAGTGAGCCTCCCC	0.692													19	52					0	0	1	0	0		G	241992724	G	G	241992724	3	3	82	1	0	0	0	0	1	0	0	0	14870	1693	59	5	2300	5	SNED1	2	241992724	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2758150	241992724	1206649	219	50675											
CNTN4	152330	broad.mit.edu	37	chr3	2787211	2787211	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttttatactataggtggaAgttaaatggaacagatgttg	14	15	10	2	0	0	1	0	0	0	1	0	3	0	3	0	3	2	2	0	3	8	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:2787211A>C	uc003bpc.2	+	5	409	c.188A>C	c.(187-189)AAG>ACG	p.K63T	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Missense_Mutation_p.K63T	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	63	Ig-like C2-type 1.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		TATAGGTGGAAGTTAAATGGA	0.323													31	89					0	0	1	0	0		C	2787211	C	C	2787211	3	2	82	1	0	0	0	0	1	0	0	0	3646	72	3	5	198	5	CNTN4	3	2787211	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08		2787211	195235219	220	50676											
EDEM1	9695	broad.mit.edu	37	chr3	5246886	5246886	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaagacctagaaatgtttAatgctgcatatcagagtatt	16	12	8	5	0	1	4	1	0	0	4	1	4	1	4	1	0	2	4	1	0	7	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:5246886A>C	uc003bqi.2	+	6	1309	c.1177A>C	c.(1177-1179)AAT>CAT	p.N393H	EDEM1_uc011asz.1_Missense_Mutation_p.N171H|EDEM1_uc003bqh.2_Missense_Mutation_p.N393H	NM_014674	NP_055489	Q92611	EDEM1_HUMAN	ER degradation enhancer, mannosidase alpha-like	393	Lumenal (Potential).				ER-associated protein catabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	integral to endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			ovary(2)|breast(1)	3				Epithelial(13;0.0588)|OV - Ovarian serous cystadenocarcinoma(96;0.0682)		AGAAATGTTTAATGCTGCATA	0.418													26	71					0	0	1	0	0		C	5246886	C	C	5246886	3	2	82	1	0	0	0	0	1	0	0	0	4917	362	13	5	1199	5	EDEM1	3	5246886	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2459675	5246886	192775544	221	50677											
IL17RC	84818	broad.mit.edu	37	chr3	9975191	9975191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggcccttcagccagccctgGatagctacttccatcccccg	6	8	9	18	1	1	0	1	0	0	0	3	1	3	1	6	2	4	1	6	2	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:9975191G>A	uc003bua.2	+	19	2526	c.2290G>A	c.(2290-2292)GAT>AAT	p.D764N	CIDEC_uc003bto.2_Intron|IL17RC_uc003btz.2_Missense_Mutation_p.D693N|IL17RC_uc011atp.1_Missense_Mutation_p.D519N|IL17RC_uc003bud.2_Missense_Mutation_p.D234N|IL17RC_uc003bub.2_Missense_Mutation_p.D678N|IL17RC_uc010hct.2_Missense_Mutation_p.D680N|IL17RC_uc010hcu.2_Missense_Mutation_p.D663N|IL17RC_uc010hcv.2_Missense_Mutation_p.D661N|IL17RC_uc011atq.1_3'UTR|IL17RC_uc003buc.2_Missense_Mutation_p.D221N|IL17RC_uc003bue.2_Missense_Mutation_p.D316N|CRELD1_uc003buf.2_5'Flank|CRELD1_uc003bug.2_5'Flank|CRELD1_uc003buh.2_5'Flank|CRELD1_uc003bui.2_5'Flank|CRELD1_uc003buj.2_5'Flank	NM_153461	NP_703191	Q8NAC3	I17RC_HUMAN	interleukin 17 receptor C isoform 1 precursor	764	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|pancreas(1)	2						GCCAGCCCTGGATAGCTACTT	0.716													5	7					0	0	1	0	0		A	9975191	A	A	9975191	3	1	82	1	0	0	0	0	1	0	0	0	7657	1174	41	4	2364	4	IL17RC	3	9975191	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	4728305	9975191	188047239	222	50678											
IRAK2	3656	broad.mit.edu	37	chr3	10255072	10255072	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgggaagccattcgtcttcaAgaagctcagagaggtgagca	12	7	13	9	2	3	3	2	1	1	2	4	5	3	4	1	2	3	2	1	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:10255072A>C	uc003bve.1	+	5	786	c.710A>C	c.(709-711)AAG>ACG	p.K237T		NM_001570	NP_001561	O43187	IRAK2_HUMAN	interleukin-1 receptor-associated kinase 2	237	Protein kinase.	ATP (By similarity).			activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|endosome membrane|plasma membrane	ATP binding|NF-kappaB-inducing kinase activity|protein heterodimerization activity|protein homodimerization activity			lung(5)|breast(3)	8						TTCGTCTTCAAGAAGCTCAGA	0.542													14	52					0	0	1	0	0		C	10255072	C	C	10255072	3	2	82	1	0	0	0	0	1	0	0	0	7839	72	3	5	728	5	IRAK2	3	10255072	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	279881	10255072	187767358	223	50679											
NUP210	23225	broad.mit.edu	37	chr3	13427890	13427890	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaaaatcagcagcctgacTtctgcagggcgtacattctt	10	11	8	12	1	3	1	1	1	2	0	4	1	4	1	2	1	4	3	2	1	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:13427890T>G	uc003bxv.1	-	6	785	c.702A>C	c.(700-702)GAA>GAC	p.E234D		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	234	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					GCAGCCTGACTTCTGCAGGGC	0.498													27	74					0	0	1	0	0		G	13427890	G	G	13427890	3	3	82	1	0	0	0	0	1	0	0	0	10779	1606	56	5	5101	5	NUP210	3	13427890	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3172818	13427890	184594540	224	50680											
C3orf20	84077	broad.mit.edu	37	chr3	14731604	14731604	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttctctctctgctggaaaAgaagccaagaagaaaatagg	15	10	9	7	0	2	3	0	0	2	3	4	4	2	4	1	2	2	1	1	2	8	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:14731604A>C	uc003byy.2	+	5	1130	c.726A>C	c.(724-726)AAA>AAC	p.K242N	C3orf20_uc003byz.2_Missense_Mutation_p.K120N|C3orf20_uc003bza.2_Missense_Mutation_p.K120N|C3orf20_uc003byx.1_Missense_Mutation_p.K242N	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	242						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						CTGCTGGAAAAGAAGCCAAGA	0.522													6	75					0	0	1	0	0		C	14731604	C	C	14731604	3	2	82	1	0	0	0	0	1	0	0	0	2216	69	3	5	736	5	C3orf20	3	14731604	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1303714	14731604	183290826	225	50681											
ZFYVE20	64145	broad.mit.edu	37	chr3	15116058	15116058	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccctttctcgttccaacTcccgttcacgcaacatctgc	6	12	5	18	3	3	0	1	0	2	0	7	0	6	0	3	0	3	4	3	0	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:15116058T>G	uc003bzm.1	-	14	2200	c.1586A>C	c.(1585-1587)GAG>GCG	p.E529A	ZFYVE20_uc010hek.1_Missense_Mutation_p.E529A	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	529	Potential.|Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						TCGTTCCAACTCCCGTTCACG	0.602													33	118					0	0	1	0	0		G	15116058	G	G	15116058	3	3	82	1	0	0	0	0	1	0	0	0	17691	1551	54	5	772	5	ZFYVE20	3	15116058	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	384454	15116058	182906372	226	50682											
KAT2B	8850	broad.mit.edu	37	chr3	20187855	20187855	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcacaaattcgaaaagtTtaccctggactttcatgttt	12	13	7	9	1	1	0	1	0	0	0	2	2	1	1	1	2	1	3	1	2	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:20187855T>G	uc003cbq.2	+	14	2498	c.2052T>G	c.(2050-2052)GTT>GTG	p.V684V		NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	684					cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TTCGAAAAGTTTACCCTGGAC	0.338													18	146					0	0	1	0	0		G	20187855	G	G	20187855	2	3	82	1	0	0	0	0	0	0	0	1	7998	1828	64	5		5	KAT2B	3	20187855	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5071797	20187855	177834575	227	50683											
NEK10	152110	broad.mit.edu	37	chr3	27297800	27297800	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttaccaagaatacaggaTtgttccaaccacagaggtga	14	9	8	10	0	0	3	0	1	0	2	2	4	2	4	4	2	3	1	4	2	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:27297800T>G	uc003cdt.1	-	24	2351	c.2077A>C	c.(2077-2079)ATC>CTC	p.I693L	NEK10_uc003cds.1_Missense_Mutation_p.I90L	NM_199347	NP_955379	Q6ZWH5	NEK10_HUMAN	NIMA-related kinase 10 isoform 3	693	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						GAATACAGGATTGTTCCAACC	0.343													6	25					0	0	1	0	0		G	27297800	G	G	27297800	3	3	82	1	0	0	0	0	1	0	0	0	10341	1493	52	5	69	5	NEK10	3	27297800	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7109945	27297800	170724630	228	50684											
CMC1	152100	broad.mit.edu	37	chr3	28304858	28304858	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggccaaagagaggtgttcTgaacaagttcaaggtaacat	16	8	11	6	0	2	2	1	1	1	1	2	3	2	2	1	3	2	3	1	3	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:28304858T>C	uc003cea.2	+	2	257	c.96T>C	c.(94-96)TCT>TCC	p.S32S		NM_182523	NP_872329	Q7Z7K0	COXAM_HUMAN	COX assembly mitochondrial protein homolog	32						mitochondrion	metal ion binding				0						AGAGGTGTTCTGAACAAGTTC	0.308													8	54					0	0	1	0	0		C	28304858	C	C	28304858	2	2	82	1	0	0	0	0	0	0	0	1	3580	1567	55	3		3	CMC1	3	28304858	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1007058	28304858	169717572	229	50685											
AZI2	64343	broad.mit.edu	37	chr3	28368336	28368336	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttgcctttcttgattgcAgttgaggttttcagttttct	5	20	9	7	0	3	2	1	2	2	0	3	3	3	2	1	1	2	4	1	1	0	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:28368336A>T	uc003ceb.2	-	7	1285	c.753T>A	c.(751-753)ACT>ACA	p.T251T	AZI2_uc003cec.2_Silent_p.T139T|AZI2_uc003ced.2_Silent_p.T251T|AZI2_uc003cee.3_Silent_p.T251T	NM_022461	NP_071906	Q9H6S1	AZI2_HUMAN	5-azacytidine induced 2 isoform a	251	Interaction with TBK1.					mitochondrion|plasma membrane				ovary(2)	2						TCTTGATTGCAGTTGAGGTTT	0.398													29	98					0	0	1	0	0		T	28368336	T	T	28368336	2	4	82	1	0	0	0	0	0	0	0	1	1242	175	7	5		5	AZI2	3	28368336	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	63478	28368336	169654094	230	50686											
TGFBR2	7048	broad.mit.edu	37	chr3	30732958	30732958	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgagtgctgggaccacgAcccagaggcccgtctcacag	9	5	13	14	2	1	2	1	1	1	1	2	5	1	3	3	2	1	1	3	2	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:30732958A>G	uc003ceo.2	+	7	1953	c.1571A>G	c.(1570-1572)GAC>GGC	p.D524G	TGFBR2_uc003cen.2_Missense_Mutation_p.D549G	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	524	Protein kinase.|Cytoplasmic (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding	p.D524Y(1)		pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						TGGGACCACGACCCAGAGGCC	0.602													8	67					0	0	1	0	0		G	30732958	G	G	30732958	3	3	82	1	0	0	0	0	1	0	0	0	15847	275	10	3	1676	3	TGFBR2	3	30732958	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2364622	30732958	167289472	231	50687											
OSBPL10	114884	broad.mit.edu	37	chr3	31725256	31725256	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgggtgggtgatgggacacTtgctcagccacaaaccttag	10	9	13	9	0	1	1	1	1	0	0	1	2	1	2	2	3	3	1	2	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:31725256T>G	uc003cev.2	-	9	1977	c.1596A>C	c.(1594-1596)CAA>CAC	p.Q532H	OSBPL10_uc003ceu.1_Missense_Mutation_p.Q289H|OSBPL10_uc011axf.1_Missense_Mutation_p.Q468H	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	532					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		GATGGGACACTTGCTCAGCCA	0.527													13	107					0	0	1	0	0		G	31725256	G	G	31725256	3	3	82	1	0	0	0	0	1	0	0	0	11294	1606	56	5	718	5	OSBPL10	3	31725256	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	992298	31725256	166297174	232	50688											
TRIM71	131405	broad.mit.edu	37	chr3	32860404	32860404	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccgagcgcctcggcttcTgccagcaccacgacgacgag	7	6	11	17	6	1	0	0	0	1	0	3	4	2	0	4	1	3	2	4	1	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:32860404T>A	uc003cff.2	+	1	895	c.832T>A	c.(832-834)TGC>AGC	p.C278S		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	278	B box-type 2.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						CCTCGGCTTCTGCCAGCACCA	0.677													26	75					0	0	1	0	0		A	32860404	A	A	32860404	3	1	82	1	0	0	0	0	1	0	0	0	16570	1580	55	5	834	5	TRIM71	3	32860404	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1135148	32860404	165162026	233	50689											
CLASP2	23122	broad.mit.edu	37	chr3	33648173	33648173	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaagtaagtttgaagactcTtctgataagatggctcaagg	13	13	10	5	0	3	4	1	2	2	2	3	4	3	4	0	2	0	3	0	2	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:33648173T>C	uc003cfu.2	-	16	1958	c.1604A>G	c.(1603-1605)AAG>AGG	p.K535R	CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc003cfv.2_Missense_Mutation_p.K308R|CLASP2_uc011axu.1_Missense_Mutation_p.K312R|CLASP2_uc003cfw.2_Missense_Mutation_p.K308R|CLASP2_uc011axt.1_Missense_Mutation_p.K110R	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	536										ovary(3)|central_nervous_system(1)	4						TTGAAGACTCTTCTGATAAGA	0.398													31	66					0	0	1	0	0		C	33648173	C	C	33648173	3	2	82	1	0	0	0	0	1	0	0	0	3458	1609	56	3	3008	3	CLASP2	3	33648173	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	787769	33648173	164374257	234	50690											
GOLGA4	2803	broad.mit.edu	37	chr3	37368464	37368464	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcttggaagaaaaacttaAgtcagtggaaagttcacagt	16	10	9	6	0	3	1	2	0	1	1	3	3	3	3	0	2	1	1	0	2	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:37368464A>C	uc003cgv.2	+	14	5391	c.5087A>C	c.(5086-5088)AAG>ACG	p.K1696T	GOLGA4_uc010hgr.1_Missense_Mutation_p.K1257T|GOLGA4_uc003cgw.2_Missense_Mutation_p.K1718T|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.K1577T	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1696	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						GAAAAACTTAAGTCAGTGGAA	0.373													26	139					0	0	1	0	0		C	37368464	C	C	37368464	3	2	82	1	0	0	0	0	1	0	0	0	6570	72	3	5	5211	5	GOLGA4	3	37368464	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3720291	37368464	160653966	235	50691											
XYLB	9942	broad.mit.edu	37	chr3	38454461	38454461	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccccagtatgccaaacTcgagcagagaatcttgtctc	10	10	7	14	1	3	1	0	0	3	1	6	3	3	1	3	0	3	2	3	0	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:38454461T>C	uc003cic.2	+	19	1677	c.1568T>C	c.(1567-1569)CTC>CCC	p.L523P	XYLB_uc011ayp.1_Missense_Mutation_p.L386P	NM_005108	NP_005099	O75191	XYLB_HUMAN	xylulokinase	523					D-xylose metabolic process|generation of precursor metabolites and energy|xylulose catabolic process		ATP binding|xylulokinase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.00372)|Kidney(284;0.00405)		TATGCCAAACTCGAGCAGAGA	0.537													19	65					0	0	1	0	0		C	38454461	C	C	38454461	3	2	82	1	0	0	0	0	1	0	0	0	17488	1551	54	3	1642	3	XYLB	3	38454461	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1085997	38454461	159567969	236	50692											
SCN10A	6336	broad.mit.edu	37	chr3	38835305	38835305	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgggagctcaccatagAacttgggcagctggttgcag	8	9	14	10	0	1	1	1	0	0	1	1	2	1	2	1	3	5	6	1	3	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:38835305A>G	uc003ciq.2	-	1	197	c.197T>C	c.(196-198)TTC>TCC	p.F66S		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	66					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CTCACCATAGAACTTGGGCAG	0.547													14	143					0	0	1	0	0		G	38835305	G	G	38835305	3	3	82	1	0	0	0	0	1	0	0	0	13937	246	9	3	5781	3	SCN10A	3	38835305	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	380844	38835305	159187125	237	50693											
SCN11A	11280	broad.mit.edu	37	chr3	38926878	38926878	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacattctgatagtatacTggtaacatcagacttctgca	12	13	7	9	0	3	2	1	1	2	1	3	2	3	2	0	1	4	4	0	1	5	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:38926878T>A	uc011ays.1	-	17	3164	c.2965A>T	c.(2965-2967)AGT>TGT	p.S989C	SCN11A_uc010hhn.1_Missense_Mutation_p.S67C	NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	989					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	GATAGTATACTGGTAACATCA	0.428													9	60					0	0	1	0	0		A	38926878	A	A	38926878	3	1	82	1	0	0	0	0	1	0	0	0	13938	1580	55	5	2450	5	SCN11A	3	38926878	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	91573	38926878	159095552	238	50694											
SCN11A	11280	broad.mit.edu	37	chr3	38936103	38936103	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtcatcttcctcctccgcaAgtggtgccaaccaagtccaa	9	9	7	16	2	2	0	1	0	1	0	6	0	6	0	6	1	2	1	6	1	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:38936103A>C	uc011ays.1	-	15	2955	c.2756T>G	c.(2755-2757)CTT>CGT	p.L919R	SCN11A_uc010hhn.1_Missense_Mutation_p.L35R	NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	919					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CTCCTCCGCAAGTGGTGCCAA	0.498													50	123					0	0	1	0	0		C	38936103	C	C	38936103	3	2	82	1	0	0	0	0	1	0	0	0	13938	72	3	5	2667	5	SCN11A	3	38936103	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	9225	38936103	159086327	239	50695											
SCN11A	11280	broad.mit.edu	37	chr3	38968335	38968335	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagccagttccatggatcTcgaaggaaagaaaactcatc	14	8	8	11	1	2	1	1	0	1	1	6	4	4	3	3	2	2	1	3	2	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:38968335T>A	uc011ays.1	-	4	775	c.576A>T	c.(574-576)CGA>CGT	p.R192R		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	192	I.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	TCCATGGATCTCGAAGGAAAG	0.373													41	101					0	0	1	0	0		A	38968335	A	A	38968335	2	1	82	1	0	0	0	0	0	0	0	1	13938	1538	54	5		5	SCN11A	3	38968335	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	32232	38968335	159054095	240	50696											
RPSA	3921	broad.mit.edu	37	chr3	39452321	39452321	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactcctggaaccttcactaAccagatccaggcagccttcc	10	8	6	17	0	1	1	1	0	0	1	4	2	4	2	6	2	3	1	6	2	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:39452321A>T	uc003cjp.2	+	4	414	c.329A>T	c.(328-330)AAC>ATC	p.N110I	RPSA_uc003cjq.2_Missense_Mutation_p.N115I|RPSA_uc003cjr.2_Missense_Mutation_p.N110I|RPSA_uc003cjt.2_RNA|SNORA62_uc010hhs.2_5'Flank	NM_002295	NP_002286	P08865	RSSA_HUMAN	ribosomal protein SA	110	Interaction with PPP1R16B.				cell adhesion|endocrine pancreas development|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosomal small subunit assembly|rRNA export from nucleus|translational elongation|translational termination|viral transcription	90S preribosome|cytosolic small ribosomal subunit|nucleus|plasma membrane	protein binding|receptor activity|ribosome binding|structural constituent of ribosome			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0509)|Kidney(284;0.064)		ACCTTCACTAACCAGATCCAG	0.537													7	53					0	0	1	0	0		T	39452321	T	T	39452321	3	4	82	1	0	0	0	0	1	0	0	0	13688	43	2	5	339	5	RPSA	3	39452321	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	483986	39452321	158570109	241	50697											
ZNF621	285268	broad.mit.edu	37	chr3	40574022	40574022	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggcatacctgcagcatcAgagattacacacgggagaga	13	6	12	10	2	1	2	1	0	0	2	1	5	1	3	1	2	5	3	1	2	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:40574022A>G	uc003ckm.2	+	5	977	c.761A>G	c.(760-762)CAG>CGG	p.Q254R	ZNF621_uc003ckn.2_Missense_Mutation_p.Q254R|ZNF621_uc003cko.2_Missense_Mutation_p.Q219R|ZNF621_uc011aze.1_Missense_Mutation_p.Q246R	NM_001098414	NP_001091884	Q6ZSS3	ZN621_HUMAN	zinc finger protein 621	254	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0515)|Kidney(284;0.0648)		CTGCAGCATCAGAGATTACAC	0.443													6	62					0	0	1	0	0		G	40574022	G	G	40574022	3	3	82	1	0	0	0	0	1	0	0	0	18070	188	7	3	775	3	ZNF621	3	40574022	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1121701	40574022	157448408	242	50698											
CTNNB1	1499	broad.mit.edu	37	chr3	41266097	41266097	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggcagcaacagtcttacctgGactctggaatccattctggt	9	11	10	11	0	3	0	0	0	3	0	4	2	4	2	2	4	3	2	2	4	3	2	rs28931588		TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:41266097G>C	uc010hia.1	+	4	250	c.94G>C	c.(94-96)GAC>CAC	p.D32H	CTNNB1_uc003ckp.2_Missense_Mutation_p.D32H|CTNNB1_uc003ckq.2_Missense_Mutation_p.D32H|CTNNB1_uc003ckr.2_Missense_Mutation_p.D32H|CTNNB1_uc011azf.1_Missense_Mutation_p.D25H|CTNNB1_uc011azg.1_Intron|uc010hib.1_RNA	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	32			Missing (in hepatocellular carcinoma).|D -> A (in hepatocellular carcinoma).|D -> G (in PTR and hepatocellular carcinoma).		adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.D32Y(110)|p.A5_A80del(63)|p.D32N(58)|p.D32G(53)|p.D32H(37)|p.D32V(20)|p.D32A(12)|p.H24_S47del(9)|p.A5_A80>D(7)|p.A5_Q143del(7)|p.WQQQSYLD25?(5)|p.Q28_H134del(5)|p.W25_D32del(4)|p.W25_I140del(4)|p.S23_S33del(3)|p.V22_G38del(3)|p.T3_A126del(2)|p.M5_N141>D(2)|p.D32E(2)|p.D32_S47del(2)|p.W25_H36del(2)|p.Y30_S33del(2)|p.V22_S33del(2)|p.V22_L139>V(2)|p.A5_Y142>D(2)|p.A5fs*7(2)|p.?(2)|p.L10_N141del(2)|p.D6_A43del(1)|p.E9_S47del(1)|p.Q28_Q61del(1)|p.A20_R151del(1)|p.A20_N141del(1)|p.D11_Y142>H(1)|p.H24_G38del(1)|p.S29_H36del(1)|p.Y30_A97del(1)|p.A20_A80del(1)|p.Q28_A43del(1)|p.E15_I140>V(1)|p.D17_P128del(1)|p.H24_M131del(1)|p.L7_I140del(1)|p.K19_Y142>V(1)|p.A20_L148del(1)|p.V22_A80del(1)|p.W25_I35del(1)|p.V22_G80>NNNNN(1)|p.A5_I35del(1)|p.A20_Q143del(1)|p.A13_R151del(1)|p.D32del(1)|p.S23_I140del(1)|p.M1_A87del(1)|p.W25_S33del(1)|p.V22_T102del(1)|p.S23_A39del(1)|p.A21_A80del(1)|p.D6_I140del(1)|p.Q28_I140del(1)|p.E9_A80del(1)|p.M14_S45del(1)|p.M8_G50del(1)|p.A5_G80>(1)|p.D32_H36>D(1)|p.P16_K133del(1)|p.A5_T59del(1)|p.A20_I35del(1)|p.M1_V173del(1)|p.A5_R90del(1)|p.V22_Y64del(1)|p.M8_A80del(1)|p.E9_I140del(1)|p.D32_S33insS(1)|p.Y30_T40del(1)|p.M1_T42del(1)|p.A5_Q143>E(1)|p.A5_Q72del(1)|p.Q28_D32>H(1)|p.Y30_A80del(1)|p.D32fs*9(1)|p.D6_K133del(1)|p.A5_T42del(1)|p.A5_D144>D(1)|p.A5_T40del(1)|p.D17_A126del(1)|p.A5_E54del(1)|p.S23_I35del(1)|p.V22_S71>A(1)|p.W25_A80del(1)|p.A20_Q72del(1)|p.A20_S111del(1)|p.D32_H36del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	GTCTTACCTGGACTCTGGAAT	0.478	D32N(KE39_STOMACH)	15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				12	29					0	0	1	0	0		C	41266097	C	C	41266097	3	2	82	1	0	0	0	0	1	0	0	0	4019	1174	41	5	100	5	CTNNB1	3	41266097	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	692075	41266097	156756333	243	50699											
ZNF662	389114	broad.mit.edu	37	chr3	42956217	42956217	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaactcataatggagagAaggtctatggatgtaaggaa	18	8	12	3	0	2	2	1	0	1	2	2	6	2	5	0	4	1	1	0	4	7	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:42956217A>C	uc003cmi.2	+	5	1004	c.652A>C	c.(652-654)AAG>CAG	p.K218Q	ZNF662_uc003cmk.2_Missense_Mutation_p.K244Q|ZNF662_uc003cmj.2_Missense_Mutation_p.K110Q	NM_207404	NP_997287	Q6ZS27	ZN662_HUMAN	zinc finger protein 662 isoform 1	218					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.217)		TAATGGAGAGAAGGTCTATGG	0.383													17	121					0	0	1	0	0		C	42956217	C	C	42956217	3	2	82	1	0	0	0	0	1	0	0	0	18096	247	9	5	853	5	ZNF662	3	42956217	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1690120	42956217	155066213	244	50700											
ZNF501	115560	broad.mit.edu	37	chr3	44776252	44776252	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgcaatgaatgtggaaaAgccttttgtcagagcccatc	14	10	9	8	0	1	2	1	1	0	1	2	3	1	3	2	1	3	1	2	1	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:44776252A>C	uc003cnu.1	+	3	740	c.339A>C	c.(337-339)AAA>AAC	p.K113N	ZNF501_uc003cnv.1_Missense_Mutation_p.K113N	NM_145044	NP_659481	Q96CX3	ZN501_HUMAN	zinc finger protein 501	113	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00843)|KIRC - Kidney renal clear cell carcinoma(197;0.0463)|Kidney(197;0.0579)		AATGTGGAAAAGCCTTTTGTC	0.388													26	70					0	0	1	0	0		C	44776252	C	C	44776252	3	2	82	1	0	0	0	0	1	0	0	0	17974	69	3	5	341	5	ZNF501	3	44776252	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1820035	44776252	153246178	245	50701											
LARS2	23395	broad.mit.edu	37	chr3	45557745	45557745	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgctgcccctcctgagaAggatatcttgtgggatgtga	7	14	12	8	0	1	2	0	2	1	1	2	5	2	4	3	2	2	1	3	2	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:45557745A>C	uc003cop.1	+	17	2206	c.2021A>C	c.(2020-2022)AAG>ACG	p.K674T	LARS2_uc010hit.1_Missense_Mutation_p.K631T	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial	674					leucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|leucine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.0122)|KIRC - Kidney renal clear cell carcinoma(197;0.0313)|Kidney(197;0.0372)	L-Leucine(DB00149)	CCTCCTGAGAAGGATATCTTG	0.488													11	115					0	0	1	0	0		C	45557745	C	C	45557745	3	2	82	1	0	0	0	0	1	0	0	0	8651	72	3	5	2079	5	LARS2	3	45557745	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	781493	45557745	152464685	246	50702											
SLC6A20	54716	broad.mit.edu	37	chr3	45811859	45811859	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgttggtcagcagcagacTcaccctgcagagcagaccat	11	7	11	12	0	2	3	2	0	0	3	2	3	2	3	2	1	4	5	2	1	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:45811859T>A	uc011bai.1	-	7	1064	c.940A>T	c.(940-942)AGT>TGT	p.S314C	SLC6A20_uc003cow.2_5'UTR|SLC6A20_uc011baj.1_Missense_Mutation_p.S277C	NM_020208	NP_064593	Q9NP91	S6A20_HUMAN	solute carrier family 6, member 20 isoform 1	314	Extracellular (Potential).				cellular nitrogen compound metabolic process|glycine transport|proline transport	apical plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;0.01)|KIRC - Kidney renal clear cell carcinoma(197;0.0225)|Kidney(197;0.0267)		AGCAGCAGACTCACCCTGCAG	0.527													7	45					0	0	1	0	0		A	45811859	A	A	45811859	3	1	82	1	0	0	0	0	1	0	0	0	14709	1551	54	5	858	5	SLC6A20	3	45811859	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	254114	45811859	152210571	247	50703											
SETD2	29072	broad.mit.edu	37	chr3	47142946	47142946	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattagtagaaacaatacttAcccatatctctggaactgat	16	12	5	8	0	1	2	0	1	1	1	2	3	1	3	1	1	4	1	1	1	9	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:47142946A>G	uc003cqs.2	-	8	5068	c.5015_splice	c.e8+1	p.G1672_splice	SETD2_uc003cqv.2_Splice_Site_p.G1739_splice	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		AACAATACTTACCCATATCTC	0.358			N|F|S|Mis		clear cell renal carcinoma								46	144					0	0	1	0	0		G	47142946	G	G	47142946	5	3	82	1	0	0	0	0	0	0	1	0	14156	405	14	3	2733	3	SETD2	3	47142946	Splice_Site	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1331087	47142946	150879484	248	50704											
DHX30	22907	broad.mit.edu	37	chr3	47890551	47890551	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacctgctgtacgcacccAgcctgcgcttcatccacggt	9	8	8	16	3	1	0	1	0	0	0	2	0	2	0	4	1	5	4	4	1	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:47890551A>T	uc003cru.2	+	18	3337	c.2911A>T	c.(2911-2913)AGC>TGC	p.S971C	DHX30_uc003crt.2_Missense_Mutation_p.S932C|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	971						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		GTACGCACCCAGCCTGCGCTT	0.657													11	85					0	0	1	0	0		T	47890551	T	T	47890551	3	4	82	1	0	0	0	0	1	0	0	0	4510	188	7	5	2984	5	DHX30	3	47890551	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	747605	47890551	150131879	249	50705											
CELSR3	1951	broad.mit.edu	37	chr3	48699754	48699754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatccccagctcctcattcGgctgctcagggggccctcga	6	8	10	17	2	2	0	2	0	0	0	6	1	4	0	4	3	2	3	4	3	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:48699754G>A	uc003cul.2	-	1	595	c.314C>T	c.(313-315)CCG>CTG	p.P105L	CELSR3_uc003cuf.1_Missense_Mutation_p.P175L	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	105	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CTCCTCATTCGGCTGCTCAGG	0.652													40	124					0	0	1	0	0		A	48699754	A	A	48699754	3	1	82	1	0	0	0	0	1	0	0	0	3226	1116	39	1	9764	1	CELSR3	3	48699754	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	809203	48699754	149322676	250	50706											
NCKIPSD	51517	broad.mit.edu	37	chr3	48717555	48717555	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcctcatatagtgcccaActgcgctgctgggcgtcgtc	6	11	10	14	3	2	0	2	0	0	0	5	0	3	0	2	1	4	2	2	1	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:48717555A>C	uc003cun.2	-	6	1294	c.1200T>G	c.(1198-1200)AGT>AGG	p.S400R	NCKIPSD_uc003cum.2_Missense_Mutation_p.S393R	NM_016453	NP_057537	Q9NZQ3	SPN90_HUMAN	NCK interacting protein with SH3 domain isoform	400					cytoskeleton organization|NLS-bearing substrate import into nucleus|signal transduction	intermediate filament|nucleus	cytoskeletal protein binding|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		ATAGTGCCCAACTGCGCTGCT	0.617													16	45					0	0	1	0	0		C	48717555	C	C	48717555	3	2	82	1	0	0	0	0	1	0	0	0	10244	40	2	5	1000	5	NCKIPSD	3	48717555	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	17801	48717555	149304875	251	50707											
MST1R	4486	broad.mit.edu	37	chr3	49940444	49940444	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctgcgtccagtgaggatGccacgtagaaataggaggcc	10	6	15	10	3	0	2	0	1	0	1	1	4	1	4	3	4	2	2	3	4	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:49940444G>C	uc003cxy.3	-	1	863	c.599C>G	c.(598-600)GCA>GGA	p.A200G	MST1R_uc011bdd.1_Missense_Mutation_p.A200G|MST1R_uc011bde.1_Missense_Mutation_p.A200G|MST1R_uc011bdf.1_Missense_Mutation_p.A200G|MST1R_uc011bdg.1_Missense_Mutation_p.A200G	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	200	Extracellular (Potential).|Sema.				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		CAGTGAGGATGCCACGTAGAA	0.622													15	36					0	0	1	0	0		C	49940444	C	C	49940444	3	2	82	1	0	0	0	0	1	0	0	0	9909	1319	46	5	3683	5	MST1R	3	49940444	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1222889	49940444	148081986	252	50708											
HEMK1	51409	broad.mit.edu	37	chr3	50608706	50608706	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtctttgagaagaggggtatCcctgaggcccgggaatccag	9	8	15	9	1	1	3	0	2	1	2	3	5	3	4	3	4	0	1	3	4	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:50608706C>T	uc003dau.2	+	2	467	c.171C>T	c.(169-171)ATC>ATT	p.I57I	C3orf18_uc003dat.2_5'Flank|HEMK1_uc003dav.2_Silent_p.I57I|HEMK1_uc003daw.2_Silent_p.I57I	NM_016173	NP_057257	Q9Y5R4	HEMK1_HUMAN	HemK methyltransferase family member 1	57					DNA methylation		DNA binding|N-methyltransferase activity|protein methyltransferase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000283)|KIRC - Kidney renal clear cell carcinoma(197;0.0179)|Kidney(197;0.0212)		AGAGGGGTATCCCTGAGGCCC	0.552													9	54					0	0	1	0	0		T	50608706	T	T	50608706	2	4	82	1	0	0	0	0	0	0	0	1	7067	845	30	4		4	HEMK1	3	50608706	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	668262	50608706	147413724	253	50709											
RAD54L2	23132	broad.mit.edu	37	chr3	51671359	51671359	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtactggtgcatggtggacTttgtgcgcccagacttcctt	6	13	12	10	1	0	1	0	0	0	1	1	2	1	2	2	3	3	2	2	3	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:51671359T>C	uc011bdt.1	+	10	1647	c.1522T>C	c.(1522-1524)TTT>CTT	p.F508L	RAD54L2_uc003dbh.2_Missense_Mutation_p.F99L|RAD54L2_uc011bdu.1_Missense_Mutation_p.F202L|RAD54L2_uc003dbj.2_5'UTR	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	508	Helicase ATP-binding.					nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		CATGGTGGACTTTGTGCGCCC	0.552													7	28					0	0	1	0	0		C	51671359	C	C	51671359	3	2	82	1	0	0	0	0	1	0	0	0	13019	1609	56	3	1556	3	RAD54L2	3	51671359	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1062653	51671359	146351071	254	50710											
RAD54L2	23132	broad.mit.edu	37	chr3	51697390	51697390	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgggttcagctccaatgAtgatgaggataaagacgatg	12	10	14	5	1	1	4	1	3	0	1	2	6	2	5	1	3	1	3	1	3	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:51697390A>C	uc011bdt.1	+	22	4483	c.4358A>C	c.(4357-4359)GAT>GCT	p.D1453A	RAD54L2_uc003dbh.2_Missense_Mutation_p.D1042A|RAD54L2_uc011bdu.1_Missense_Mutation_p.D1147A|RAD54L2_uc003dbj.2_Missense_Mutation_p.D779A	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	1453						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		AGCTCCAATGATGATGAGGAT	0.577													8	48					0	0	1	0	0		C	51697390	C	C	51697390	3	2	82	1	0	0	0	0	1	0	0	0	13019	333	12	5	4440	5	RAD54L2	3	51697390	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	26031	51697390	146325040	255	50711											
RRP9	9136	broad.mit.edu	37	chr3	51969429	51969429	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtcccatcccggcccccAgccgtcacacagcactcccg	8	4	7	22	3	1	0	1	0	0	0	4	0	4	0	6	1	2	1	6	1	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:51969429A>G	uc003dbw.1	-	10	939	c.900T>C	c.(898-900)GCT>GCC	p.A300A		NM_004704	NP_004695	O43818	U3IP2_HUMAN	RNA, U3 small nucleolar interacting protein 2	300	WD 4.				rRNA processing	nucleolus|small nuclear ribonucleoprotein complex|small nucleolar ribonucleoprotein complex	RNA binding			breast(2)|ovary(1)	3				BRCA - Breast invasive adenocarcinoma(193;8.04e-05)|Kidney(197;0.000553)|KIRC - Kidney renal clear cell carcinoma(197;0.000724)		CCCGGCCCCCAGCCGTCACAC	0.642													4	46					0	0	1	0	0		G	51969429	G	G	51969429	2	3	82	1	0	0	0	0	0	0	0	1	13716	175	7	3		3	RRP9	3	51969429	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	272039	51969429	146053001	256	50712											
BAP1	8314	broad.mit.edu	37	chr3	52437539	52437539	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttgtagcgtatgcagtcaAcacgcagcaggctgtcatcc	9	9	12	11	2	2	0	2	0	0	0	3	0	3	0	1	2	4	7	1	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:52437539A>C	uc003ddx.2	-	13	1737	c.1622T>G	c.(1621-1623)GTT>GGT	p.V541G	BAP1_uc003ddw.2_RNA|BAP1_uc010hmg.2_RNA|BAP1_uc010hmh.2_Intron	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	541					monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		TATGCAGTCAACACGCAGCAG	0.627			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								13	53					0	0	1	0	0		C	52437539	C	C	52437539	3	2	82	1	0	0	0	0	1	0	0	0	1312	43	2	5	587	5	BAP1	3	52437539	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	468110	52437539	145584891	257	50713											
PBRM1	55193	broad.mit.edu	37	chr3	52620677	52620677	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaacatcctcatctcggaAgttttctgggcataacttaa	14	12	6	9	1	3	0	1	0	2	0	5	1	4	1	1	2	2	2	1	2	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:52620677A>C	uc003des.2	-	20	3163	c.3151T>G	c.(3151-3153)TTC>GTC	p.F1051V	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.F1051V|PBRM1_uc003der.2_Missense_Mutation_p.F1019V|PBRM1_uc003det.2_Missense_Mutation_p.F1066V|PBRM1_uc003deu.2_Missense_Mutation_p.F1066V|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.F1051V|PBRM1_uc010hmk.1_Missense_Mutation_p.F1026V|PBRM1_uc003dey.2_Missense_Mutation_p.F1026V|PBRM1_uc003dez.1_Missense_Mutation_p.F1050V|PBRM1_uc003dfb.1_Missense_Mutation_p.F963V|PBRM1_uc003dfa.1_Missense_Mutation_p.F397V	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	1051	BAH 1.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TCATCTCGGAAGTTTTCTGGG	0.373			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								21	49					0	0	1	0	0		C	52620677	C	C	52620677	3	2	82	1	0	0	0	0	1	0	0	0	11510	72	3	5	1793	5	PBRM1	3	52620677	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	183138	52620677	145401753	258	50714											
NEK4	6787	broad.mit.edu	37	chr3	52780851	52780851	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggaaggttcagacccagAgttgtgtggctgtaaatctg	10	10	14	7	0	2	2	1	0	1	2	2	3	2	3	1	3	0	4	1	3	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:52780851A>G	uc003dfq.3	-	9	1765	c.1576T>C	c.(1576-1578)TCT>CCT	p.S526P	NEK4_uc011bej.1_Missense_Mutation_p.S437P|NEK4_uc003dfr.2_Missense_Mutation_p.S480P	NM_003157	NP_003148	P51957	NEK4_HUMAN	NIMA-related kinase 4	526					cell division|mitosis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.44e-05)|Kidney(197;0.000711)|KIRC - Kidney renal clear cell carcinoma(197;0.00086)|OV - Ovarian serous cystadenocarcinoma(275;0.0513)		TCAGACCCAGAGTTGTGTGGC	0.443													21	50					0	0	1	0	0		G	52780851	G	G	52780851	3	3	82	1	0	0	0	0	1	0	0	0	10345	304	11	3	981	3	NEK4	3	52780851	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	160174	52780851	145241579	259	50715											
TKT	7086	broad.mit.edu	37	chr3	53274289	53274289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttgtcgaagtatttgcCggtgtaggccatcccacaag	8	10	12	11	2	0	0	0	0	0	0	2	1	1	0	4	3	1	2	4	3	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:53274289C>T	uc003dgo.2	-	4	525	c.415G>A	c.(415-417)GGC>AGC	p.G139S	TKT_uc011beo.1_Missense_Mutation_p.G92S|TKT_uc003dgq.2_Missense_Mutation_p.G139S|TKT_uc011beq.1_Missense_Mutation_p.G139S|TKT_uc011ber.1_5'UTR|TKT_uc011bep.1_Missense_Mutation_p.G56S	NM_001135055	NP_001128527	P29401	TKT_HUMAN	transketolase isoform 1	139					energy reserve metabolic process|xylulose biosynthetic process	cytosol	protein binding|transketolase activity			ovary(2)	2		Prostate(884;0.0959)		BRCA - Breast invasive adenocarcinoma(193;0.000159)|OV - Ovarian serous cystadenocarcinoma(275;0.000314)|Kidney(197;0.00178)|KIRC - Kidney renal clear cell carcinoma(197;0.00201)	Thiamine(DB00152)	AAGTATTTGCCGGTGTAGGCC	0.602													13	58					0	0	1	0	0		T	53274289	T	T	53274289	3	4	82	1	0	0	0	0	1	0	0	0	15959	652	23	1	1500	1	TKT	3	53274289	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	493438	53274289	144748141	260	50716											
PXK	54899	broad.mit.edu	37	chr3	58377558	58377558	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcagtgtctaatcaaacTtctgccttcttgtttggtga	7	19	7	8	0	5	1	2	1	3	0	5	1	5	1	1	1	2	1	1	1	2	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:58377558T>G	uc003djz.1	+	7	698	c.599T>G	c.(598-600)CTT>CGT	p.L200R	PXK_uc003djx.1_Missense_Mutation_p.L200R|PXK_uc003djy.1_Missense_Mutation_p.L183R|PXK_uc003dka.1_Missense_Mutation_p.L200R|PXK_uc003dkb.1_Missense_Mutation_p.L117R|PXK_uc003dkc.1_Missense_Mutation_p.L183R|PXK_uc011bfe.1_Missense_Mutation_p.L167R|PXK_uc010hnj.1_Missense_Mutation_p.L167R|PXK_uc003dkd.1_Missense_Mutation_p.L63R|PXK_uc010hnk.1_Intron	NM_017771	NP_060241	Q7Z7A4	PXK_HUMAN	PX domain containing serine/threonine kinase	200	Protein kinase.				cell communication|inflammatory response|negative regulation of ATPase activity|negative regulation of ion transport|regulation of synaptic transmission	centrosome|cytoplasm|nucleus|plasma membrane	actin binding|ATP binding|phosphatidylinositol binding|phosphatidylinositol binding|protein C-terminus binding|protein kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000249)|KIRC - Kidney renal clear cell carcinoma(10;0.00346)|Kidney(10;0.00368)|OV - Ovarian serous cystadenocarcinoma(275;0.22)		CTAATCAAACTTCTGCCTTCT	0.403													14	87					0	0	1	0	0		G	58377558	G	G	58377558	3	3	82	1	0	0	0	0	1	0	0	0	12874	1609	56	5	625	5	PXK	3	58377558	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5103269	58377558	139644872	261	50717											
ACOX2	8309	broad.mit.edu	37	chr3	58519189	58519189	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagtctccaggccaccatTtggtggcagtcagcgtgggg	7	8	14	12	1	2	0	1	0	1	0	3	0	2	0	3	5	1	1	3	5	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:58519189T>A	uc003dkl.2	-	5	741	c.566A>T	c.(565-567)AAA>ATA	p.K189I		NM_003500	NP_003491	Q99424	ACOX2_HUMAN	acyl-Coenzyme A oxidase 2	189					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3alpha,7alpha,12alpha-trihydroxy-5beta-cholestanoyl-CoA 24-hydroxylase activity|acyl-CoA dehydrogenase activity|pristanoyl-CoA oxidase activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000194)|Kidney(10;0.00255)|KIRC - Kidney renal clear cell carcinoma(10;0.00268)|OV - Ovarian serous cystadenocarcinoma(275;0.156)		AGGCCACCATTTGGTGGCAGT	0.438											OREG0015638	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	89					0	0	1	0	0		A	58519189	A	A	58519189	3	1	82	1	0	0	0	0	1	0	0	0	159	1841	64	5	1523	5	ACOX2	3	58519189	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	141631	58519189	139503241	262	50718											
TMF1	7110	broad.mit.edu	37	chr3	69096977	69096977	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatgcagagagaagctgAaaagatgtctgcatcaagtg	15	7	13	6	0	2	5	1	1	1	4	2	6	2	5	0	0	3	4	0	0	4	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:69096977A>C	uc003dnn.2	-	2	1126	c.879T>G	c.(877-879)TTT>TTG	p.F293L	TMF1_uc011bfx.1_Missense_Mutation_p.F293L	NM_007114	NP_009045	P82094	TMF1_HUMAN	TATA element modulatory factor 1	293					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi membrane|nucleus	DNA binding|protein binding|transcription cofactor activity				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;4.48e-05)|Epithelial(33;0.000274)|LUSC - Lung squamous cell carcinoma(21;0.0123)|KIRC - Kidney renal clear cell carcinoma(39;0.211)|Kidney(39;0.247)		AGAGAAGCTGAAAAGATGTCT	0.378													5	57					0	0	1	0	0		C	69096977	C	C	69096977	3	2	82	1	0	0	0	0	1	0	0	0	16253	243	9	5	2466	5	TMF1	3	69096977	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	10577788	69096977	128925453	263	50719											
CNTN3	5067	broad.mit.edu	37	chr3	74418407	74418407	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcaatgcattcataggaAcctgcatcttcctgttggaa	11	12	8	10	0	3	0	2	0	1	0	4	2	4	2	2	2	4	4	2	2	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:74418407A>C	uc003dpm.1	-	7	959	c.879T>G	c.(877-879)GGT>GGG	p.G293G		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	293	Ig-like C2-type 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		ATTCATAGGAACCTGCATCTT	0.428													12	40					0	0	1	0	0		C	74418407	C	C	74418407	2	2	82	1	0	0	0	0	0	0	0	1	3645	30	2	5		5	CNTN3	3	74418407	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5321430	74418407	123604023	264	50720											
ROBO1	6091	broad.mit.edu	37	chr3	78655933	78655933	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctcgttttgctgccttgTttccacgtcctttcccgtca	2	17	8	14	3	2	0	1	0	1	0	6	0	5	0	4	1	2	3	4	1	0	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:78655933T>C	uc003dqe.2	-	29	4902	c.4694A>G	c.(4693-4695)AAC>AGC	p.N1565S	ROBO1_uc003dqb.2_Missense_Mutation_p.N1526S|ROBO1_uc003dqc.2_Missense_Mutation_p.N1465S|ROBO1_uc003dqd.2_Missense_Mutation_p.N1520S|ROBO1_uc010hoh.2_Missense_Mutation_p.N757S|ROBO1_uc011bgl.1_Missense_Mutation_p.N1137S	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1565	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TGCTGCCTTGTTTCCACGTCC	0.453													139	394					0	0	1	0	0		C	78655933	C	C	78655933	3	2	82	1	0	0	0	0	1	0	0	0	13538	1725	60	3	273	3	ROBO1	3	78655933	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4237526	78655933	119366497	265	50721											
ROBO1	6091	broad.mit.edu	37	chr3	78735060	78735060	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggtggttgatatgagaaaAgtagattctagaacccagaa	15	10	12	4	0	1	5	0	2	1	4	1	6	1	5	1	2	1	2	1	2	7	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:78735060A>C	uc003dqe.2	-	10	1386	c.1178T>G	c.(1177-1179)CTT>CGT	p.L393R	ROBO1_uc003dqb.2_Missense_Mutation_p.L354R|ROBO1_uc003dqc.2_Missense_Mutation_p.L357R|ROBO1_uc003dqd.2_Missense_Mutation_p.L357R|ROBO1_uc010hoh.2_5'UTR|ROBO1_uc003dqf.1_Missense_Mutation_p.L72R	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	393	Extracellular (Potential).|Ig-like C2-type 4.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		ATATGAGAAAAGTAGATTCTA	0.348													7	5					0	0	1	0	0		C	78735060	C	C	78735060	3	2	82	1	0	0	0	0	1	0	0	0	13538	72	3	5	3865	5	ROBO1	3	78735060	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	79127	78735060	119287370	266	50722											
CADM2	253559	broad.mit.edu	37	chr3	86028312	86028312	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattttttttccactcaccAgatgttcccaacactttgct	9	17	3	12	0	1	1	1	0	0	1	3	1	3	1	3	0	2	2	3	0	2	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:86028312A>G	uc003dqj.2	+	8	1570	c.944_splice	c.e8-2	p.D315_splice	CADM2_uc003dqk.2_Intron|CADM2_uc003dql.2_Splice_Site_p.D317_splice	NM_153184	NP_694854	Q8N3J6	CADM2_HUMAN	immunoglobulin superfamily, member 4D						adherens junction organization|cell junction assembly	integral to membrane|plasma membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4		Lung NSC(201;0.0148)		LUSC - Lung squamous cell carcinoma(29;0.000815)|Lung(72;0.00304)|BRCA - Breast invasive adenocarcinoma(55;0.156)|Epithelial(33;0.157)		TCCACTCACCAGATGTTCCCA	0.368													56	169					0	0	1	0	0		G	86028312	G	G	86028312	5	3	82	1	0	0	0	0	0	0	1	0	2570	202	7	3	1043	3	CADM2	3	86028312	Splice_Site	SNP	A	TCGA-BR-8589-01A-11D-2394-08	7293252	86028312	111994118	267	50723											
EPHA3	2042	broad.mit.edu	37	chr3	89176368	89176368	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttattttagtcaatctacTggattcaaaaacaattcaag	15	16	4	6	0	4	0	3	0	1	0	4	1	4	1	0	1	2	0	0	1	8	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:89176368T>G	uc003dqy.2	+	2	323	c.98T>G	c.(97-99)CTG>CGG	p.L33R	EPHA3_uc003dqx.1_Missense_Mutation_p.L33R|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	33	Extracellular (Potential).					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		GTCAATCTACTGGATTCAAAA	0.338										TSP Lung(6;0.00050)			18	54					0	0	1	0	0		G	89176368	G	G	89176368	3	3	82	1	0	0	0	0	1	0	0	0	5176	1580	55	5	104	5	EPHA3	3	89176368	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3148056	89176368	108846062	268	50724											
ARL13B	200894	broad.mit.edu	37	chr3	93761872	93761872	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttagaatgaaggaaaacTtgaaagagagaaaaaaaacc	22	7	9	3	0	0	5	0	2	0	3	0	7	0	6	1	1	2	1	1	1	10	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:93761872T>C	uc003drc.2	+	7	1098	c.812T>C	c.(811-813)CTT>CCT	p.L271P	ARL13B_uc010hop.2_Missense_Mutation_p.L122P|ARL13B_uc003drd.2_Missense_Mutation_p.L164P|ARL13B_uc003dre.2_Missense_Mutation_p.L256P|ARL13B_uc003drf.2_Missense_Mutation_p.L271P|ARL13B_uc003drg.2_Missense_Mutation_p.L168P	NM_182896	NP_878899	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 2-like 1 isoform 1	271							GTP binding				0						GAAGGAAAACTTGAAAGAGAG	0.333													9	20					0	0	1	0	0		C	93761872	C	C	93761872	3	2	82	1	0	0	0	0	1	0	0	0	929	1609	56	3	838	3	ARL13B	3	93761872	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4585504	93761872	104260558	269	50725											
CRYBG3	131544	broad.mit.edu	37	chr3	97596378	97596378	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accatggccccaggaaatcaAgagacagtgaaaaccagtcc	16	4	9	12	0	1	2	1	1	0	1	2	4	2	3	5	2	1	0	5	2	4	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:97596378A>T	uc003drx.2	+	1	560	c.496A>T	c.(496-498)AGA>TGA	p.R166*		NM_153605	NP_705833			beta-gamma crystallin domain containing 3												0						CAGGAAATCAAGAGACAGTGA	0.438													29	82					0	0	1	0	0		T	97596378	T	T	97596378	4	4	82	1	0	0	0	0	0	1	0	0	3916	64	3	5	498	5	CRYBG3	3	97596378	Nonsense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3834506	97596378	100426052	270	50726											
OR5H6	79295	broad.mit.edu	37	chr3	97983357	97983357	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accttcatatcccaatgtacTtattccttgggagtttagcc	9	15	6	11	0	1	0	1	0	0	0	3	1	3	1	4	1	2	2	4	1	5	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:97983357T>G	uc003dsi.1	+	1	229	c.229T>G	c.(229-231)TTA>GTA	p.L77V		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	77	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						CCCAATGTACTTATTCCTTGG	0.413													84	225					0	0	1	0	0		G	97983357	G	G	97983357	3	3	82	1	0	0	0	0	1	0	0	0	11182	1606	56	5	231	5	OR5H6	3	97983357	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	386979	97983357	100039073	271	50727											
ABI3BP	25890	broad.mit.edu	37	chr3	100595371	100595371	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attaccttgcttgatgattgTtattgggattagtttccttg	7	20	9	5	0	0	2	0	2	0	0	1	3	1	3	2	1	2	3	2	1	3	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:100595371T>G	uc003dun.2	-	7	836	c.751A>C	c.(751-753)ACA>CCA	p.T251P	ABI3BP_uc003duo.2_Missense_Mutation_p.T244P|ABI3BP_uc003dup.3_Missense_Mutation_p.T244P	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	251						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						TTGATGATTGTTATTGGGATT	0.353													12	31					0	0	1	0	0		G	100595371	G	G	100595371	3	3	82	1	0	0	0	0	1	0	0	0	91	1725	60	5	2592	5	ABI3BP	3	100595371	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2612014	100595371	97427059	272	50728											
IMPG2	50939	broad.mit.edu	37	chr3	100963575	100963575	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaggttgagtgaatgaacTtgaaggcaatgaatcaatag	16	9	11	5	0	1	5	1	5	0	0	1	5	1	5	0	2	1	2	0	2	7	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:100963575T>A	uc003duq.1	-	13	1803	c.1600A>T	c.(1600-1602)AGT>TGT	p.S534C	IMPG2_uc011bhe.1_Missense_Mutation_p.S397C	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	534	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GTGAATGAACTTGAAGGCAAT	0.348													10	67					0	0	1	0	0		A	100963575	A	A	100963575	3	1	82	1	0	0	0	0	1	0	0	0	7745	1609	56	5	2153	5	IMPG2	3	100963575	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	368204	100963575	97058855	273	50729											
CBLB	868	broad.mit.edu	37	chr3	105378018	105378018	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttttctgtggtgaatttcTggtgcagtcctgcgcggtcg	3	15	15	8	3	2	1	0	1	2	0	4	1	3	1	1	4	2	2	1	4	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:105378018T>A	uc003dwc.2	-	19	3067	c.2745A>T	c.(2743-2745)CCA>CCT	p.P915P	CBLB_uc003dwa.2_Silent_p.P130P|CBLB_uc011bhi.1_Silent_p.P893P	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	915	Pro-rich.|Interaction with SH3KBP1.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						GGTGAATTTCTGGTGCAGTCC	0.463			Mis S		AML								17	71					0	0	1	0	0		A	105378018	A	A	105378018	2	1	82	1	0	0	0	0	0	0	0	1	2704	1567	55	5		5	CBLB	3	105378018	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4414443	105378018	92644412	274	50730											
CCDC54	84692	broad.mit.edu	37	chr3	107097406	107097406	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttgttccttaaaagaagaAgtaactcgactatagagtta	16	13	7	5	1	0	3	0	0	0	3	2	4	1	3	1	0	1	3	1	0	8	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:107097406A>C	uc003dwi.1	+	1	1219	c.972A>C	c.(970-972)GAA>GAC	p.E324D		NM_032600	NP_115989	Q8NEL0	CCD54_HUMAN	coiled-coil domain containing 54	324											0						TAAAAGAAGAAGTAACTCGAC	0.403													14	48					0	0	1	0	0		C	107097406	C	C	107097406	3	2	82	1	0	0	0	0	1	0	0	0	2827	69	3	5	974	5	CCDC54	3	107097406	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1719388	107097406	90925024	275	50731											
KIAA2018	205717	broad.mit.edu	37	chr3	113375311	113375311	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggctgttgactagctccacTtggtttaaacgtctgacaat	9	13	10	9	1	1	2	0	2	1	0	2	2	2	2	1	2	2	4	1	2	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:113375311T>G	uc003eam.2	-	7	5629	c.5218A>C	c.(5218-5220)AGT>CGT	p.S1740R	KIAA2018_uc003eal.2_Missense_Mutation_p.S1684R	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1740					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						CTAGCTCCACTTGGTTTAAAC	0.428													24	115					0	0	1	0	0		G	113375311	G	G	113375311	3	3	82	1	0	0	0	0	1	0	0	0	8284	1609	56	5	1523	5	KIAA2018	3	113375311	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	6277905	113375311	84647119	276	50732											
IGSF11	152404	broad.mit.edu	37	chr3	118645003	118645003	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctaacttctcccaaaggtaAgttggtcgaggaatgccttc	10	12	9	10	1	2	0	0	0	2	0	5	2	2	1	2	3	2	2	2	3	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:118645003A>C	uc003ebw.2	-	4	772	c.525T>G	c.(523-525)ACT>ACG	p.T175T	IGSF11_uc011biv.1_Silent_p.T175T|IGSF11_uc003ebx.2_Silent_p.T175T|IGSF11_uc003eby.2_Silent_p.T174T|IGSF11_uc003ebz.2_Silent_p.T174T|IGSF11_uc010hqs.2_Silent_p.T174T	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	175	Ig-like C2-type.|Extracellular (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						CCCAAAGGTAAGTTGGTCGAG	0.478													18	90					0	0	1	0	0		C	118645003	C	C	118645003	2	2	82	1	0	0	0	0	0	0	0	1	7614	59	3	5		5	IGSF11	3	118645003	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5269692	118645003	79377427	277	50733											
B4GALT4	8702	broad.mit.edu	37	chr3	118948756	118948756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgtggatgcttcattaGtcagagtttttcccttcccc	5	17	7	12	1	3	1	2	0	1	1	6	2	5	2	3	1	1	2	3	1	1	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:118948756G>A	uc003ecg.2	-	3	832	c.191C>T	c.(190-192)ACT>ATT	p.T64I	B4GALT4_uc003ece.1_Missense_Mutation_p.T64I|B4GALT4_uc003ecf.2_RNA|B4GALT4_uc003ech.2_Missense_Mutation_p.T64I|B4GALT4_uc003eci.2_Missense_Mutation_p.T64I|B4GALT4_uc011biy.1_Intron	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	64	Lumenal (Potential).				membrane lipid metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding|N-acetyllactosamine synthase activity				0				GBM - Glioblastoma multiforme(114;0.222)	N-Acetyl-D-glucosamine(DB00141)	TGCTTCATTAGTCAGAGTTTT	0.413													24	69					0	0	1	0	0		A	118948756	A	A	118948756	3	1	82	1	0	0	0	0	1	0	0	0	1274	1029	36	4	867	4	B4GALT4	3	118948756	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	303753	118948756	79073674	278	50734											
C3orf15	89876	broad.mit.edu	37	chr3	119426380	119426380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagggacataaggagaaaCacagagaagccctccggcag	16	2	14	9	1	0	2	0	0	0	2	1	6	1	4	2	4	2	1	2	4	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:119426380C>T	uc010hqx.1	+	3	408	c.331C>T	c.(331-333)CAC>TAC	p.H111Y	C3orf15_uc003edc.2_Missense_Mutation_p.H111Y|C3orf15_uc010hqy.1_Missense_Mutation_p.H111Y|C3orf15_uc003ede.3_Missense_Mutation_p.H111Y|C3orf15_uc010hqz.2_Missense_Mutation_p.H49Y|C3orf15_uc011bjd.1_Intron|C3orf15_uc011bje.1_Missense_Mutation_p.H91Y|C3orf15_uc010hra.1_5'UTR			Q7Z4T9	AAT1_HUMAN	RecName: Full=AMY-1-associating protein expressed in testis 1;          Short=AAT-1;	111						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		TAAGGAGAAACACAGAGAAGC	0.438													5	57					0	0	1	0	0		T	119426380	T	T	119426380	3	4	82	1	0	0	0	0	1	0	0	0	2212	478	17	4	341	4	C3orf15	3	119426380	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	477624	119426380	78596050	279	50735											
POLQ	10721	broad.mit.edu	37	chr3	121238762	121238762	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcacggccaaccatctgcTtataagtaagaatatctaga	15	9	7	10	1	2	2	0	0	2	2	2	2	2	2	2	1	3	3	2	1	7	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:121238762T>A	uc003eee.3	-	9	1553	c.1424A>T	c.(1423-1425)AAG>ATG	p.K475M		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	475	Helicase C-terminal.				DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AACCATCTGCTTATAAGTAAG	0.438								DNA_polymerases_(catalytic_subunits)					32	237					0	0	1	0	0		A	121238762	A	A	121238762	3	1	82	1	0	0	0	0	1	0	0	0	12227	1609	56	5	6436	5	POLQ	3	121238762	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1812382	121238762	76783668	280	50736											
FBXO40	51725	broad.mit.edu	37	chr3	121340935	121340935	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagtttggccagtgggaaaAtattttcagcaaagagcacg	14	9	11	7	1	1	1	1	0	0	1	1	2	1	2	1	2	2	3	1	2	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:121340935A>C	uc003eeg.2	+	3	869	c.659A>C	c.(658-660)AAT>ACT	p.N220T		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	220					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		CAGTGGGAAAATATTTTCAGC	0.468													20	70					0	0	1	0	0		C	121340935	C	C	121340935	3	2	82	1	0	0	0	0	1	0	0	0	5763	101	4	5	665	5	FBXO40	3	121340935	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	102173	121340935	76681495	281	50737											
GOLGB1	2804	broad.mit.edu	37	chr3	121414777	121414777	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttattttgagcagaaacTtggctttccacatctgccag	9	15	7	10	0	2	2	0	1	2	1	3	2	3	2	2	1	3	2	2	1	2	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:121414777T>G	uc003eei.3	-	13	4704	c.4578A>C	c.(4576-4578)CAA>CAC	p.Q1526H	GOLGB1_uc010hrc.2_Missense_Mutation_p.Q1531H|GOLGB1_uc003eej.3_Missense_Mutation_p.Q1492H|GOLGB1_uc011bjm.1_Missense_Mutation_p.Q1412H|GOLGB1_uc010hrd.1_Missense_Mutation_p.Q1490H	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1526	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		GAGCAGAAACTTGGCTTTCCA	0.393													57	179					0	0	1	0	0		G	121414777	G	G	121414777	3	3	82	1	0	0	0	0	1	0	0	0	6580	1606	56	5	5241	5	GOLGB1	3	121414777	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	73842	121414777	76607653	282	50738											
GOLGB1	2804	broad.mit.edu	37	chr3	121415485	121415485	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactcgcatcttcagaatgAgaaggccagtctgggcacaa	12	7	11	11	1	3	2	1	1	2	2	4	3	3	2	1	2	0	3	1	2	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:121415485A>G	uc003eei.3	-	13	3996	c.3870T>C	c.(3868-3870)TCT>TCC	p.S1290S	GOLGB1_uc010hrc.2_Silent_p.S1295S|GOLGB1_uc003eej.3_Silent_p.S1256S|GOLGB1_uc011bjm.1_Silent_p.S1176S|GOLGB1_uc010hrd.1_Silent_p.S1254S	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1290	Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CTTCAGAATGAGAAGGCCAGT	0.468													10	70					0	0	1	0	0		G	121415485	G	G	121415485	2	3	82	1	0	0	0	0	0	0	0	1	6580	291	11	3		3	GOLGB1	3	121415485	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	708	121415485	76606945	283	50739											
EAF2	55840	broad.mit.edu	37	chr3	121573582	121573582	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggttcaaaaaaaccttacTtaaaagaatgcattttgatt	18	13	5	5	0	1	2	1	1	0	1	1	2	1	2	1	1	3	2	1	1	8	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:121573582T>C	uc003een.2	+	3	349	c.250T>C	c.(250-252)TTA>CTA	p.L84L	EAF2_uc003eeo.2_Intron	NM_018456	NP_060926	Q96CJ1	EAF2_HUMAN	ELL associated factor 2	84	Necessary for interaction with ELL.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	protein binding				0				GBM - Glioblastoma multiforme(114;0.0972)		AAAACCTTACTTAAAAGAATG	0.299													5	78					0	0	1	0	0		C	121573582	C	C	121573582	2	2	82	1	0	0	0	0	0	0	0	1	4882	1606	56	3		3	EAF2	3	121573582	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	158097	121573582	76448848	284	50740											
CCDC58	131076	broad.mit.edu	37	chr3	122090532	122090532	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacacttacagactcataaAgttgtttacaggtttggctg	12	14	8	7	0	1	1	1	0	0	1	1	1	1	1	0	2	3	4	0	2	5	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:122090532A>C	uc003eey.2	-	2	170	c.167T>G	c.(166-168)CTT>CGT	p.L56R		NM_001017928	NP_001017928	Q4VC31	CCD58_HUMAN	coiled-coil domain containing 58	56											0				GBM - Glioblastoma multiforme(114;0.148)		AGACTCATAAAGTTGTTTACA	0.373													7	109					0	0	1	0	0		C	122090532	C	C	122090532	3	2	82	1	0	0	0	0	1	0	0	0	2831	72	3	5	283	5	CCDC58	3	122090532	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	516950	122090532	75931898	285	50741											
PARP14	54625	broad.mit.edu	37	chr3	122418264	122418264	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatcatggccacaaaacTcgacttcaataaaatgccac	16	7	4	14	1	2	0	2	0	0	0	3	1	2	0	3	1	2	0	3	1	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:122418264T>C	uc003efq.3	+	6	922	c.863T>C	c.(862-864)CTC>CCC	p.L288P	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Missense_Mutation_p.L5P|PARP14_uc003efs.1_Missense_Mutation_p.L5P	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	288					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		GCCACAAAACTCGACTTCAAT	0.393													29	23					0	0	1	0	0		C	122418264	C	C	122418264	3	2	82	1	0	0	0	0	1	0	0	0	11477	1551	54	3	885	3	PARP14	3	122418264	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	327732	122418264	75604166	286	50742											
PARP14	54625	broad.mit.edu	37	chr3	122418777	122418777	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatagaaagcactactcaaaAaattaaaagggaagagcaaa	24	5	7	5	0	1	2	1	0	0	2	1	3	1	3	0	1	3	2	0	1	11	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:122418777A>C	uc003efq.3	+	6	1435	c.1376A>C	c.(1375-1377)AAA>ACA	p.K459T	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Missense_Mutation_p.K176T|PARP14_uc003efs.1_Missense_Mutation_p.K176T	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	459					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		ACTACTCAAAAAATTAAAAGG	0.383													16	43					0	0	1	0	0		C	122418777	C	C	122418777	3	2	82	1	0	0	0	0	1	0	0	0	11477	14	1	5	1398	5	PARP14	3	122418777	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	513	122418777	75603653	287	50743											
ALDH1L1	10840	broad.mit.edu	37	chr3	125854444	125854444	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtccattctcaaaggcatccTtggctgcggccactgccttg	6	11	10	14	1	1	0	1	0	1	0	4	0	3	0	4	3	2	2	4	3	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:125854444T>G	uc003eim.1	-	12	1596	c.1406A>C	c.(1405-1407)AAG>ACG	p.K469T	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Missense_Mutation_p.K368T|ALDH1L1_uc003eio.2_Missense_Mutation_p.K171T|ALDH1L1_uc010hsf.1_Missense_Mutation_p.K495T	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	469	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	AAAGGCATCCTTGGCTGCGGC	0.607													13	62					0	0	1	0	0		G	125854444	G	G	125854444	3	3	82	1	0	0	0	0	1	0	0	0	494	1609	56	5	1350	5	ALDH1L1	3	125854444	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3435667	125854444	72167986	288	50744											
KIAA1257	57501	broad.mit.edu	37	chr3	128706568	128706568	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccagagcctcaaggtgatTttgtggaaatttattttctt	9	18	8	6	0	2	2	1	1	1	1	3	3	3	3	2	2	1	0	2	2	3	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:128706568T>C	uc003elj.3	-	4	754	c.558A>G	c.(556-558)AAA>AAG	p.K186K	KIAA1257_uc003elg.1_Silent_p.K186K|KIAA1257_uc003eli.3_Silent_p.K74K	NM_020741	NP_065792	Q9ULG3	K1257_HUMAN	hypothetical protein LOC57501	186											0						TCAAGGTGATTTTGTGGAAAT	0.428													12	67					0	0	1	0	0		C	128706568	C	C	128706568	2	2	82	1	0	0	0	0	0	0	0	1	8234	1838	64	3		3	KIAA1257	3	128706568	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2852124	128706568	69315862	289	50745											
IFT122	55764	broad.mit.edu	37	chr3	129195557	129195557	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaccagcttattttcagcAcagtccatgggctttacaag	10	13	7	11	0	2	0	1	0	1	0	3	0	3	0	2	1	4	3	2	1	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:129195557A>G	uc003emm.2	+	11	1266	c.1060A>G	c.(1060-1062)ACA>GCA	p.T354A	IFT122_uc003eml.2_Missense_Mutation_p.T405A|IFT122_uc003emn.2_Missense_Mutation_p.T295A|IFT122_uc003emo.2_Missense_Mutation_p.T243A|IFT122_uc003emp.2_Missense_Mutation_p.T204A|IFT122_uc010htc.2_Missense_Mutation_p.T346A|IFT122_uc011bky.1_Missense_Mutation_p.T145A|IFT122_uc003emq.2_Missense_Mutation_p.T194A|IFT122_uc003emr.2_Missense_Mutation_p.T145A|IFT122_uc011bla.1_Missense_Mutation_p.T145A|IFT122_uc011bkx.1_Missense_Mutation_p.T194A|IFT122_uc011bkz.1_RNA	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	354	WD 6.				camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						TATTTTCAGCACAGTCCATGG	0.532													25	93					0	0	1	0	0		G	129195557	G	G	129195557	3	3	82	1	0	0	0	0	1	0	0	0	7571	159	6	3	1259	3	IFT122	3	129195557	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	488989	129195557	68826873	290	50746											
IFT122	55764	broad.mit.edu	37	chr3	129233240	129233240	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcacggcaggaaaatacTcttcaccttggccaagcaga	12	9	9	11	1	3	1	2	0	1	1	3	2	3	2	2	3	2	3	2	3	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:129233240T>A	uc003emm.2	+	25	3202	c.2996T>A	c.(2995-2997)CTC>CAC	p.L999H	IFT122_uc003eml.2_Missense_Mutation_p.L1050H|IFT122_uc003emn.2_Missense_Mutation_p.L940H|IFT122_uc003emo.2_Missense_Mutation_p.L889H|IFT122_uc003emp.2_Missense_Mutation_p.L849H|IFT122_uc010htc.2_Missense_Mutation_p.L992H|IFT122_uc011bky.1_Missense_Mutation_p.L790H|IFT122_uc003emq.2_Missense_Mutation_p.L839H|IFT122_uc003emr.2_Missense_Mutation_p.L752H|IFT122_uc011bla.1_Missense_Mutation_p.L773H|IFT122_uc010hte.2_Missense_Mutation_p.L325H|IFT122_uc003ems.2_Missense_Mutation_p.L381H	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	999					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						AGGAAAATACTCTTCACCTTG	0.607													10	44					0	0	1	0	0		A	129233240	A	A	129233240	3	1	82	1	0	0	0	0	1	0	0	0	7571	1551	54	5	3254	5	IFT122	3	129233240	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	37683	129233240	68789190	291	50747											
TMCC1	23023	broad.mit.edu	37	chr3	129389315	129389315	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtagtgcatcaaatcctgAgctctgcatgtccagggtgt	9	12	11	9	0	2	1	1	1	1	0	4	1	4	1	2	1	3	4	2	1	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:129389315A>T	uc003emz.3	-	5	1870	c.1369T>A	c.(1369-1371)TCA>ACA	p.S457T	TMCC1_uc003emy.3_Missense_Mutation_p.S133T|TMCC1_uc011blc.1_Missense_Mutation_p.S278T|TMCC1_uc010htg.2_Missense_Mutation_p.S343T	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	457						integral to membrane				skin(1)	1						TCAAATCCTGAGCTCTGCATG	0.522													14	101					0	0	1	0	0		T	129389315	T	T	129389315	3	4	82	1	0	0	0	0	1	0	0	0	16017	304	11	5	604	5	TMCC1	3	129389315	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	156075	129389315	68633115	292	50748											
COL6A6	131873	broad.mit.edu	37	chr3	130286941	130286941	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctggtggacagttctggaAgtataggacctgaaaacttc	11	12	11	7	0	2	1	0	1	2	0	3	4	2	4	1	4	1	2	1	4	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:130286941A>C	uc010htl.2	+	5	1925	c.1894A>C	c.(1894-1896)AGT>CGT	p.S632R		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	632	Nonhelical region.|VWFA 4.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CAGTTCTGGAAGTATAGGACC	0.398													37	49					0	0	1	0	0		C	130286941	C	C	130286941	3	2	82	1	0	0	0	0	1	0	0	0	3706	72	3	5	1912	5	COL6A6	3	130286941	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	897626	130286941	67735489	293	50749											
ACAD11	84129	broad.mit.edu	37	chr3	132345663	132345663	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtacagtactgaaagttcTttgccaaaagaaaaaaggaa	19	9	8	5	0	1	2	0	1	1	1	1	3	1	3	1	1	3	3	1	1	10	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:132345663T>G	uc003eov.3	-	9	1451	c.1071_splice	c.e9-1	p.R357_splice	ACAD11_uc011blr.1_5'UTR|ACAD11_uc003eoy.2_Splice_Site_p.R357_splice	NM_032169	NP_115545	Q709F0	ACD11_HUMAN	putative acyl-CoA dehydrogenase							peroxisome	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|transferase activity, transferring phosphorus-containing groups			ovary(1)	1						CTGAAAGTTCTTTGCCAAAAG	0.279													4	51					0	0	1	0	0		G	132345663	G	G	132345663	5	3	82	1	0	0	0	0	0	0	1	0	109	1623	56	5	1321	5	ACAD11	3	132345663	Splice_Site	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2058722	132345663	65676767	294	50750											
TOPBP1	11073	broad.mit.edu	37	chr3	133339089	133339089	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttacaaccacttcttgaaAgggaagtcctctgcccttgg	9	12	9	11	0	2	1	0	1	2	0	3	2	3	2	3	2	3	1	3	2	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:133339089A>G	uc003eps.2	-	20	3413	c.3281T>C	c.(3280-3282)CTT>CCT	p.L1094P	TOPBP1_uc003ept.1_Missense_Mutation_p.L98P	NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	1094					DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						ACTTCTTGAAAGGGAAGTCCT	0.493								Other_conserved_DNA_damage_response_genes					11	65					0	0	1	0	0		G	133339089	G	G	133339089	3	3	82	1	0	0	0	0	1	0	0	0	16395	72	3	3	1323	3	TOPBP1	3	133339089	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	993426	133339089	64683341	295	50751											
RAB6B	51560	broad.mit.edu	37	chr3	133557075	133557075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgctcagttctttggcgcGctgctccccctcctcgatgg	3	11	11	16	4	2	0	1	0	1	0	5	2	4	0	3	2	1	4	3	2	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:133557075G>A	uc003epy.2	-	6	811	c.430C>T	c.(430-432)CGC>TGC	p.R144C	RAB6B_uc011blu.1_Missense_Mutation_p.R131C	NM_016577	NP_057661	Q9NRW1	RAB6B_HUMAN	RAB6B, member RAS oncogene family	144					protein transport|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|Golgi membrane	GTP binding|GTPase activity|protein binding			pancreas(1)	1						TCTTTGGCGCGCTGCTCCCCC	0.502													46	146					0	0	1	0	0		A	133557075	A	A	133557075	3	1	82	1	0	0	0	0	1	0	0	0	12977	1087	38	1	208	1	RAB6B	3	133557075	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	217986	133557075	64465355	296	50752											
ARMC8	25852	broad.mit.edu	37	chr3	137942279	137942279	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagcacagagctgaaaacTgaatgtgcagtggtgttggg	12	9	14	6	0	1	3	1	2	0	1	1	3	1	3	0	2	4	4	0	2	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:137942279T>G	uc003esa.1	+	5	568	c.201T>G	c.(199-201)ACT>ACG	p.T67T	ARMC8_uc003erw.2_Silent_p.T67T|ARMC8_uc003erx.2_Silent_p.T67T|ARMC8_uc003ery.2_Silent_p.T39T|ARMC8_uc003erz.2_Silent_p.T39T|ARMC8_uc011bmf.1_Silent_p.T81T|ARMC8_uc011bmg.1_Silent_p.T81T|ARMC8_uc011bmh.1_Silent_p.T39T|ARMC8_uc003esb.1_Silent_p.T39T	NM_015396	NP_056211	Q8IUR7	ARMC8_HUMAN	armadillo repeat containing 8 isoform 2	81	ARM 1.						binding				0						AGCTGAAAACTGAATGTGCAG	0.383													21	77					0	0	1	0	0		G	137942279	G	G	137942279	2	3	82	1	0	0	0	0	0	0	0	1	958	1567	55	5		5	ARMC8	3	137942279	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4385204	137942279	60080151	297	50753											
TRIM42	287015	broad.mit.edu	37	chr3	140407025	140407025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaagaaggtacgctcctcaGgggactccctgccctccccc	7	6	9	19	1	1	1	1	0	0	1	4	2	4	2	6	3	2	2	6	3	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:140407025G>A	uc003eto.1	+	3	1692	c.1501G>A	c.(1501-1503)GGG>AGG	p.G501R		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	501						intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						ACGCTCCTCAGGGGACTCCCT	0.567													6	101					0	0	1	0	0		A	140407025	A	A	140407025	3	1	82	1	0	0	0	0	1	0	0	0	16543	1000	35	4	1511	4	TRIM42	3	140407025	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	2464746	140407025	57615405	298	50754											
XRN1	54464	broad.mit.edu	37	chr3	142103387	142103387	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacaatagtttgataaacaAaaggaacaacttgttttgac	17	12	7	5	0	0	3	0	3	0	0	0	4	0	4	0	1	3	2	0	1	8	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:142103387A>C	uc003eus.2	-	21	2547	c.2480T>G	c.(2479-2481)TTT>TGT	p.F827C	XRN1_uc010huu.2_Missense_Mutation_p.F293C|XRN1_uc003eut.2_Missense_Mutation_p.F827C|XRN1_uc003euu.2_Missense_Mutation_p.F827C|XRN1_uc003euv.1_Missense_Mutation_p.F688C	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	827					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						TTGATAAACAAAAGGAACAAC	0.308													27	86					0	0	1	0	0		C	142103387	C	C	142103387	3	2	82	1	0	0	0	0	1	0	0	0	17485	14	1	5	2728	5	XRN1	3	142103387	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1696362	142103387	55919043	299	50755											
ATR	545	broad.mit.edu	37	chr3	142231116	142231116	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcacccattgagtctaccTtatttctgtttgatttgctg	7	18	6	10	0	3	2	1	2	2	0	3	2	3	2	2	0	2	2	2	0	2	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:142231116T>G	uc003eux.3	-	27	4960	c.4838A>C	c.(4837-4839)AAG>ACG	p.K1613T		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1613					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						TGAGTCTACCTTATTTCTGTT	0.368								Other_conserved_DNA_damage_response_genes					7	80					0	0	1	0	0		G	142231116	G	G	142231116	3	3	82	1	0	0	0	0	1	0	0	0	1205	1609	56	5	3180	5	ATR	3	142231116	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	127729	142231116	55791314	300	50756											
SLC9A9	285195	broad.mit.edu	37	chr3	143214209	143214209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tataaaaagagcattaaagaTatgattctggaacgtgaaca	19	10	8	4	1	1	4	0	2	1	2	1	5	1	5	0	1	3	1	0	1	9	5	rs138653730		TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:143214209T>C	uc003evn.2	-	10	1353	c.1171A>G	c.(1171-1173)ATC>GTC	p.I391V		NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	391	Helical; (Potential).				regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						GCATTAAAGATATGATTCTGG	0.353													21	126					0	0	1	0	0		C	143214209	C	C	143214209	3	2	82	1	0	0	0	0	1	0	0	0	14746	1406	49	3	794	3	SLC9A9	3	143214209	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	983093	143214209	54808221	301	50757											
PLOD2	5352	broad.mit.edu	37	chr3	145790437	145790437	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaaatatggggaaccaaaAgacatctggacagggctata	18	6	11	6	0	1	2	0	0	1	2	1	4	1	4	1	4	1	1	1	4	8	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:145790437A>C	uc003evs.1	-	16	2202	c.1696T>G	c.(1696-1698)TTT>GTT	p.F566V	PLOD2_uc003evq.1_Missense_Mutation_p.F247V|PLOD2_uc011bnm.1_Missense_Mutation_p.F532V|PLOD2_uc003evr.1_Missense_Mutation_p.F587V	NM_000935	NP_000926	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	566					protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)	GGGAACCAAAAGACATCTGGA	0.284													9	58					0	0	1	0	0		C	145790437	C	C	145790437	3	2	82	1	0	0	0	0	1	0	0	0	12121	72	3	5	533	5	PLOD2	3	145790437	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2576228	145790437	52231993	302	50758											
IGSF10	285313	broad.mit.edu	37	chr3	151165878	151165878	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggggtgacctgtaatattcTtaatgtgccattgtttagaa	10	15	10	6	1	1	2	0	1	1	1	1	2	1	2	2	2	1	2	2	2	5	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:151165878T>G	uc011bod.1	-	4	1891	c.1891A>C	c.(1891-1893)AGA>CGA	p.R631R		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	631	Ig-like C2-type 2.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TGTAATATTCTTAATGTGCCA	0.413													11	116					0	0	1	0	0		G	151165878	G	G	151165878	2	3	82	1	0	0	0	0	0	0	0	1	7613	1617	56	5		5	IGSF10	3	151165878	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5375441	151165878	46856552	303	50759											
MBNL1	4154	broad.mit.edu	37	chr3	152132860	152132860	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttggcccagcaaatgcaacTagccaatgccatgatgcctg	11	8	10	12	0	0	1	0	1	0	0	0	1	0	1	4	1	6	3	4	1	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:152132860T>C	uc003ezm.2	+	2	1094	c.305T>C	c.(304-306)CTA>CCA	p.L102P	MBNL1_uc003ezh.2_Missense_Mutation_p.L102P|MBNL1_uc003ezi.2_Missense_Mutation_p.L102P|MBNL1_uc003ezj.2_Missense_Mutation_p.L45P|MBNL1_uc003ezl.2_Missense_Mutation_p.L102P|MBNL1_uc003ezp.2_Missense_Mutation_p.L102P|MBNL1_uc003ezn.2_Missense_Mutation_p.L102P|MBNL1_uc003ezo.2_Missense_Mutation_p.L102P|MBNL1_uc010hvp.2_Missense_Mutation_p.L10P	NM_207293	NP_997176	Q9NR56	MBNL1_HUMAN	muscleblind-like 1 isoform c	102					embryonic limb morphogenesis|in utero embryonic development|myoblast differentiation|nervous system development	nucleus|stress granule	double-stranded RNA binding|protein binding|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			CAAATGCAACTAGCCAATGCC	0.438													6	116					0	0	1	0	0		C	152132860	C	C	152132860	3	2	82	1	0	0	0	0	1	0	0	0	9371	1522	53	3	311	3	MBNL1	3	152132860	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	966982	152132860	45889570	304	50760											
TIPARP	25976	broad.mit.edu	37	chr3	156413677	156413677	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcattcgattgattgaagaAgccaactctcggggtctgaa	11	11	11	8	2	3	4	1	3	2	1	5	5	3	4	1	2	2	0	1	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:156413677A>C	uc003fav.2	+	4	1358	c.1110A>C	c.(1108-1110)GAA>GAC	p.E370D	TIPARP_uc003faw.2_Missense_Mutation_p.E370D	NM_015508	NP_056323	Q7Z3E1	PARPT_HUMAN	TCDD-inducible poly(ADP-ribose) polymerase	370	WWE.						NAD+ ADP-ribosyltransferase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|breast(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			TGATTGAAGAAGCCAACTCTC	0.353													11	84					0	0	1	0	0		C	156413677	C	C	156413677	3	2	82	1	0	0	0	0	1	0	0	0	15949	69	3	5	1120	5	TIPARP	3	156413677	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4280817	156413677	41608753	305	50761											
IL12A	3592	broad.mit.edu	37	chr3	159713282	159713282	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcaagctctgcatacttcTtcatgctttcagaattcggg	10	14	7	10	1	5	1	3	0	2	1	6	1	5	1	0	1	4	3	0	1	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:159713282T>G	uc003fcx.2	+	7	913	c.698T>G	c.(697-699)CTT>CGT	p.L233R	uc003fcw.1_Intron	NM_000882	NP_000873	P29459	IL12A_HUMAN	interleukin 12A precursor	199					cell cycle arrest|cell migration|defense response to Gram-positive bacterium|immune response|negative regulation of interleukin-17 production|negative regulation of smooth muscle cell proliferation|positive regulation of cell adhesion|positive regulation of interferon-gamma production|positive regulation of natural killer cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|positive regulation of NK T cell activation|positive regulation of smooth muscle cell apoptosis|positive regulation of T cell mediated cytotoxicity|positive regulation of tyrosine phosphorylation of Stat4 protein|response to lipopolysaccharide|response to UV-B|response to virus	interleukin-12 complex	cytokine activity|growth factor activity|interleukin-12 receptor binding|interleukin-27 binding|protein heterodimerization activity				0			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TGCATACTTCTTCATGCTTTC	0.403													30	107					0	0	1	0	0		G	159713282	G	G	159713282	3	3	82	1	0	0	0	0	1	0	0	0	7640	1609	56	5	724	5	IL12A	3	159713282	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3299605	159713282	38309148	306	50762											
BCHE	590	broad.mit.edu	37	chr3	165548648	165548648	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggctgtgcatagggaatTccaagaaaggctgttaccgt	10	10	14	7	1	0	1	0	0	0	1	1	2	1	2	2	4	2	4	2	4	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:165548648T>G	uc003fem.3	-	2	334	c.174A>C	c.(172-174)GGA>GGC	p.G58G	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	58					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	CATAGGGAATTCCAAGAAAGG	0.413													6	84					0	0	1	0	0		G	165548648	G	G	165548648	2	3	82	1	0	0	0	0	0	0	0	1	1359	1770	62	5		5	BCHE	3	165548648	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5835366	165548648	32473782	307	50763											
SERPINI1	5274	broad.mit.edu	37	chr3	167510376	167510376	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctattcattttttcctaaatAgatctggtgaaagatttggt	11	18	7	5	0	2	3	1	1	1	2	3	3	3	3	1	2	0	0	1	2	5	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:167510376A>G	uc003ffa.3	+	4	680	c.482_splice	c.e4-2	p.N161_splice	SERPINI1_uc003ffb.3_Splice_Site_p.N161_splice	NM_001122752	NP_001116224	Q99574	NEUS_HUMAN	neuroserpin precursor						central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1						TTTCCTAAATAGATCTGGTGA	0.398													8	57					0	0	1	0	0		G	167510376	G	G	167510376	5	3	82	1	0	0	0	0	0	0	1	0	14143	434	15	3	490	3	SERPINI1	3	167510376	Splice_Site	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1961728	167510376	30512054	308	50764											
LRRC31	79782	broad.mit.edu	37	chr3	169578490	169578490	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagatatccagttcttccaAgtctgggagaaaaggcagca	13	8	12	8	0	2	2	0	0	2	2	4	4	4	2	2	3	1	3	2	3	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:169578490A>G	uc003fgc.1	-	3	423	c.346T>C	c.(346-348)TTG>CTG	p.L116L	LRRC31_uc010hwp.1_Intron	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	116										ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			AGTTCTTCCAAGTCTGGGAGA	0.398													10	84					0	0	1	0	0		G	169578490	G	G	169578490	2	3	82	1	0	0	0	0	0	0	0	1	9004	69	3	3		3	LRRC31	3	169578490	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2068114	169578490	28443940	309	50765											
SLC7A14	57709	broad.mit.edu	37	chr3	170201299	170201299	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatggcaccatcagagttaAgatcacgctcacctgttaaa	14	10	7	10	1	3	2	3	0	0	2	3	2	3	2	2	1	0	4	2	1	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:170201299A>C	uc003fgz.2	-	6	1235	c.919T>G	c.(919-921)TTA>GTA	p.L307V	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	307	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			ATCAGAGTTAAGATCACGCTC	0.512											OREG0015917	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	111					0	0	1	0	0		C	170201299	C	C	170201299	3	2	82	1	0	0	0	0	1	0	0	0	14721	69	3	5	1408	5	SLC7A14	3	170201299	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	622809	170201299	27821131	310	50766											
TNIK	23043	broad.mit.edu	37	chr3	170797363	170797363	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgatccagccttgtttcTtttctacttctgggtcatta	6	18	7	10	0	4	1	1	1	3	0	5	1	5	1	2	1	2	1	2	1	2	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:170797363T>C	uc003fhh.2	-	28	3737	c.3392A>G	c.(3391-3393)AAG>AGG	p.K1131R	TNIK_uc003fhi.2_Missense_Mutation_p.K1076R|TNIK_uc003fhj.2_Missense_Mutation_p.K1102R|TNIK_uc003fhk.2_Missense_Mutation_p.K1123R|TNIK_uc003fhl.2_Missense_Mutation_p.K1047R|TNIK_uc003fhm.2_Missense_Mutation_p.K1068R|TNIK_uc003fhn.2_Missense_Mutation_p.K1094R|TNIK_uc003fho.2_Missense_Mutation_p.K1039R|TNIK_uc003fhg.2_Missense_Mutation_p.K309R|TNIK_uc003fhp.2_Missense_Mutation_p.K63R	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	1131	CNH.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			GCCTTGTTTCTTTTCTACTTC	0.348													11	22					0	0	1	0	0		C	170797363	C	C	170797363	3	2	82	1	0	0	0	0	1	0	0	0	16338	1609	56	3	714	3	TNIK	3	170797363	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	596064	170797363	27225067	311	50767											
ECT2	1894	broad.mit.edu	37	chr3	172533486	172533486	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagcatcaagagcaataaaAaagacttcaaaaaaggtgag	22	5	9	5	0	2	4	2	1	0	3	2	4	2	4	0	1	2	2	0	1	8	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:172533486A>C	uc003fii.2	+	22	2538	c.2400A>C	c.(2398-2400)AAA>AAC	p.K800N	ECT2_uc010hwv.1_Missense_Mutation_p.K831N|ECT2_uc003fih.2_Missense_Mutation_p.K799N|ECT2_uc003fij.1_Missense_Mutation_p.K800N|ECT2_uc003fik.1_Missense_Mutation_p.K800N|ECT2_uc003fil.1_Missense_Mutation_p.K831N|ECT2_uc003fim.1_Missense_Mutation_p.K99N	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	800					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			GAGCAATAAAAAAGACTTCAA	0.303													10	68					0	0	1	0	0		C	172533486	C	C	172533486	3	2	82	1	0	0	0	0	1	0	0	0	4907	11	1	5	2482	5	ECT2	3	172533486	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1736123	172533486	25488944	312	50768											
SPATA16	83893	broad.mit.edu	37	chr3	172835109	172835109	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgaaggactctacaaacTcatagcgaacacccatttca	16	8	5	12	1	3	1	2	1	1	0	3	3	3	2	1	1	4	0	1	1	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:172835109T>G	uc003fin.3	-	2	571	c.413A>C	c.(412-414)GAG>GCG	p.E138A		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	138					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			CTCTACAAACTCATAGCGAAC	0.428													26	106					0	0	1	0	0		G	172835109	G	G	172835109	3	3	82	1	0	0	0	0	1	0	0	0	15026	1551	54	5	1336	5	SPATA16	3	172835109	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	301623	172835109	25187321	313	50769											
PIK3CA	5290	broad.mit.edu	37	chr3	178941911	178941911	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaaatgaggcgaccagatTtcatggatgctctacagggc	12	8	12	9	1	2	2	1	1	1	1	2	4	2	3	1	3	3	2	1	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:178941911T>A	uc003fjk.2	+	15	2387	c.2230T>A	c.(2230-2232)TTC>ATC	p.F744I		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	744					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GCGACCAGATTTCATGGATGC	0.358		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			57	58					0	0	1	0	0		A	178941911	A	A	178941911	3	1	82	1	0	0	0	0	1	0	0	0	11932	1841	64	5	2284	5	PIK3CA	3	178941911	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	6106802	178941911	19080519	314	50770											
PEX5L	51555	broad.mit.edu	37	chr3	179525470	179525470	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtacttcacctgtaggcGcccaggttgatgcagcttat	7	12	11	11	1	1	1	1	1	0	0	1	1	1	1	2	2	3	6	2	2	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:179525470G>A	uc003fki.1	-	14	1798	c.1668C>T	c.(1666-1668)GGC>GGT	p.G556G	PEX5L_uc011bqd.1_Silent_p.G513G|PEX5L_uc011bqe.1_Silent_p.G364G|PEX5L_uc011bqf.1_Silent_p.G448G|PEX5L_uc003fkj.1_Silent_p.G521G|PEX5L_uc010hxd.1_Silent_p.G554G|PEX5L_uc011bqg.1_Silent_p.G532G|PEX5L_uc011bqh.1_Silent_p.G497G	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	556	TPR 5.				protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			ACCTGTAGGCGCCCAGGTTGA	0.527													88	139					0	0	1	0	0		A	179525470	A	A	179525470	2	1	82	1	0	0	0	0	0	0	0	1	11768	1074	38	1		1	PEX5L	3	179525470	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	583559	179525470	18496960	315	50771											
MCCC1	56922	broad.mit.edu	37	chr3	182755192	182755192	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggccagacaggttgagtaAgaagtcaatgttggtgtgca	11	10	15	5	0	1	3	1	1	0	2	1	3	1	3	1	3	1	4	1	3	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:182755192A>G	uc003fle.2	-	13	1545	c.1408T>C	c.(1408-1410)TTA>CTA	p.L470L	MCCC1_uc010hxi.2_Intron|MCCC1_uc011bqo.1_RNA|MCCC1_uc003flf.2_Silent_p.L353L|MCCC1_uc003flg.2_Silent_p.L361L|MCCC1_uc011bqp.1_Silent_p.L423L	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	470	Biotin carboxylation.				biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	AGGTTGAGTAAGAAGTCAATG	0.478													4	48					0	0	1	0	0		G	182755192	G	G	182755192	2	3	82	1	0	0	0	0	0	0	0	1	9392	69	3	3		3	MCCC1	3	182755192	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3229722	182755192	15267238	316	50772											
ABCC5	10057	broad.mit.edu	37	chr3	183669329	183669329	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccttcggaaaagctcgtcAtgcagccgggaggaagctcg	10	7	13	11	4	1	0	1	0	0	0	5	3	2	3	2	3	4	3	2	3	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:183669329A>G	uc003fmg.2	-	20	3009	c.2844T>C	c.(2842-2844)CAT>CAC	p.H948H	ABCC5_uc011bqt.1_Silent_p.H476H|ABCC5_uc010hxl.2_Silent_p.H948H	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	948	ABC transmembrane type-1 2.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			AAAGCTCGTCATGCAGCCGGG	0.567													28	99					0	0	1	0	0		G	183669329	G	G	183669329	2	3	82	1	0	0	0	0	0	0	0	1	56	214	8	3		3	ABCC5	3	183669329	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	914137	183669329	14353101	317	50773											
EPHB3	2049	broad.mit.edu	37	chr3	184294690	184294690	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaacctcactgatcctcgAgtggagtgagccccgggacc	9	7	12	13	2	1	3	1	3	0	0	3	6	2	5	5	2	2	0	5	2	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:184294690A>C	uc003foz.2	+	5	1510	c.1073A>C	c.(1072-1074)GAG>GCG	p.E358A		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	358	Fibronectin type-III 1.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			CTGATCCTCGAGTGGAGTGAG	0.602													12	135					0	0	1	0	0		C	184294690	C	C	184294690	3	2	82	1	0	0	0	0	1	0	0	0	5184	304	11	5	1091	5	EPHB3	3	184294690	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	625361	184294690	13727740	318	50774											
EPHB3	2049	broad.mit.edu	37	chr3	184297675	184297675	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaagtcggccagttatgAtcctcactgagttcatggaa	12	10	9	10	1	2	2	2	2	0	0	4	3	3	3	3	2	0	2	3	2	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:184297675A>C	uc003foz.2	+	11	2562	c.2125A>C	c.(2125-2127)ATC>CTC	p.I709L		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	709	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			GCCAGTTATGATCCTCACTGA	0.592													28	99					0	0	1	0	0		C	184297675	C	C	184297675	3	2	82	1	0	0	0	0	1	0	0	0	5184	333	12	5	2167	5	EPHB3	3	184297675	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2985	184297675	13724755	319	50775											
IGF2BP2	10644	broad.mit.edu	37	chr3	185390359	185390359	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtagggggcagcggggggAgctccgcggggccctgctgg	3	5	23	10	3	0	0	0	0	0	0	1	1	1	1	2	9	3	4	2	9	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:185390359A>T	uc003fpo.2	-	10	1249	c.1170T>A	c.(1168-1170)GCT>GCA	p.A390A	IGF2BP2_uc010hyi.2_Silent_p.A333A|IGF2BP2_uc010hyj.2_Silent_p.A327A|IGF2BP2_uc010hyk.2_Silent_p.A254A|IGF2BP2_uc010hyl.2_Intron|IGF2BP2_uc003fpp.2_Intron|IGF2BP2_uc003fpq.2_Silent_p.A395A	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	390					anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			CAGCGGGGGGAGCTCCGCGGG	0.597													6	26					0	0	1	0	0		T	185390359	T	T	185390359	2	4	82	1	0	0	0	0	0	0	0	1	7590	291	11	5		5	IGF2BP2	3	185390359	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1092684	185390359	12632071	320	50776											
ETV5	2119	broad.mit.edu	37	chr3	185766624	185766624	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catctgggtcacagacaaatTtgtagacgtatcgctctcca	11	11	8	11	2	3	2	1	0	2	2	5	2	3	2	1	1	0	3	1	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:185766624T>G	uc003fpz.2	-	13	1584	c.1337A>C	c.(1336-1338)AAA>ACA	p.K446T	ETV5_uc003fpy.2_Missense_Mutation_p.K488T	NM_004454	NP_004445	P41161	ETV5_HUMAN	ets variant gene 5 (ets-related molecule)	446	ETS.				cellular response to oxidative stress	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|skin(2)|breast(1)	5	all_cancers(143;4.06e-12)|Ovarian(172;0.0386)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.62e-24)			ACAGACAAATTTGTAGACGTA	0.572			T	TMPRSS2|SCL45A3	Prostate 								6	51					0	0	1	0	0		G	185766624	G	G	185766624	3	3	82	1	0	0	0	0	1	0	0	0	5290	1841	64	5	199	5	ETV5	3	185766624	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	376265	185766624	12255806	321	50777											
DNAJB11	51726	broad.mit.edu	37	chr3	186290034	186290034	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccaggatctgggtgctgcTtatgaggtgagttgggaaaa	9	12	15	5	0	1	2	0	2	1	0	2	4	2	4	1	4	2	3	1	4	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:186290034T>G	uc003fqi.2	+	2	439	c.219T>G	c.(217-219)GCT>GCG	p.A73A	TBCCD1_uc011bry.1_5'Flank|TBCCD1_uc003fqh.2_5'Flank	NM_016306	NP_057390	Q9UBS4	DJB11_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 11	73	J.				protein folding	endoplasmic reticulum lumen	heat shock protein binding			ovary(1)|lung(1)	2	all_cancers(143;2.84e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.44e-20)	GBM - Glioblastoma multiforme(93;0.0476)		TGGGTGCTGCTTATGAGGTGA	0.418													13	41					0	0	1	0	0		G	186290034	G	G	186290034	2	3	82	1	0	0	0	0	0	0	0	1	4622	1596	56	5		5	DNAJB11	3	186290034	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	523410	186290034	11732396	322	50778											
RPL39L	116832	broad.mit.edu	37	chr3	186839075	186839075	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcgcttaatggtgaaagtcTtgtgagaagacatggcgaga	13	10	13	5	2	1	4	0	2	1	3	2	6	1	4	0	2	0	1	0	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:186839075T>A	uc003fre.1	-	3	369	c.14A>T	c.(13-15)AAG>ATG	p.K5M	RPL39L_uc003frf.1_RNA	NM_052969	NP_443201	Q96EH5	RL39L_HUMAN	ribosomal protein L39-like protein	5					spermatogenesis|translation	cytosolic large ribosomal subunit	structural constituent of ribosome				0	all_cancers(143;2.61e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.87e-18)	GBM - Glioblastoma multiforme(93;0.0745)		GGTGAAAGTCTTGTGAGAAGA	0.448													7	139					0	0	1	0	0		A	186839075	A	A	186839075	3	1	82	1	0	0	0	0	1	0	0	0	13618	1609	56	5	145	5	RPL39L	3	186839075	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	549041	186839075	11183355	323	50779											
TMEM207	131920	broad.mit.edu	37	chr3	190167579	190167579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcgctgaggtgacactgAaaagtctggatcttgacata	13	10	11	7	1	2	5	0	4	2	1	3	6	2	6	0	2	0	1	0	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:190167579A>G	uc003fsj.2	-	1	87	c.20T>C	c.(19-21)TTC>TCC	p.F7S		NM_207316	NP_997199	Q6UWW9	TM207_HUMAN	transmembrane protein 207 precursor	7						integral to membrane					0	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.0176)		GGTGACACTGAAAAGTCTGGA	0.413													6	67					0	0	1	0	0		G	190167579	G	G	190167579	3	3	82	1	0	0	0	0	1	0	0	0	16157	246	9	3	440	3	TMEM207	3	190167579	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3328504	190167579	7854851	324	50780											
ATP13A4	84239	broad.mit.edu	37	chr3	193156311	193156311	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggagttttggaagtgaaAggtgaggccacagatgcctc	10	11	14	6	0	0	3	0	2	0	1	1	5	0	5	2	4	1	1	2	4	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:193156311A>C	uc003ftd.2	-	23	2733	c.2625T>G	c.(2623-2625)CCT>CCG	p.P875P	ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	875	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		TGGAAGTGAAAGGTGAGGCCA	0.448													17	62					0	0	1	0	0		C	193156311	C	C	193156311	2	2	82	1	0	0	0	0	0	0	0	1	1127	59	3	5		5	ATP13A4	3	193156311	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2988732	193156311	4866119	325	50781											
ZDHHC19	131540	broad.mit.edu	37	chr3	195937536	195937536	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgagtgaaacaagactgaaGaaggtaaggacaaagaggga	19	5	14	3	0	0	6	0	3	0	3	0	8	0	8	0	3	1	1	0	3	6	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr3:195937536G>A	uc003fwc.2	-	2	333	c.219C>T	c.(217-219)TTC>TTT	p.F73F	ZDHHC19_uc010hzz.2_RNA|ZDHHC19_uc010iaa.2_Intron|ZDHHC19_uc010iab.2_RNA	NM_001039617	NP_001034706	Q8WVZ1	ZDH19_HUMAN	zinc finger, DHHC domain containing 19	73	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			ovary(3)	3	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.89e-25)|all cancers(36;1.46e-23)|OV - Ovarian serous cystadenocarcinoma(49;2.1e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0022)		CAAGACTGAAGAAGGTAAGGA	0.552													27	30					0	0	1	0	0		A	195937536	A	A	195937536	2	1	82	1	0	0	0	0	0	0	0	1	17634	933	33	4		4	ZDHHC19	3	195937536	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	2781225	195937536	2084894	326	50782											
ZNF595	152687	broad.mit.edu	37	chr4	87142	87142	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaacccttactaaacataAgagaattcatactggagaga	17	9	6	9	0	2	2	2	0	0	2	2	5	2	3	1	1	4	0	1	1	7	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:87142A>C	uc003fzv.1	+	6	1904	c.1748A>C	c.(1747-1749)AAG>ACG	p.K583T	ZNF595_uc003fzu.1_Intron|ZNF718_uc003fzt.3_Intron|ZNF595_uc011bus.1_Missense_Mutation_p.K351T|ZNF595_uc011but.1_Missense_Mutation_p.K351T	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	583					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		ACTAAACATAAGAGAATTCAT	0.378													19	38					0	0	1	0	0		C	87142	C	C	87142	3	2	82	1	0	0	0	0	1	0	0	0	18050	64	3	5	1761	5	ZNF595	4	87142	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08		87142	191067134	327	50783											
ZNF732	654254	broad.mit.edu	37	chr4	265143	265143	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacactcttcacattcgtaAggtttctctccagtatgaat	10	14	5	12	1	3	1	1	1	2	0	6	1	4	1	2	1	0	3	2	1	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:265143A>C	uc011buu.1	-	3	1514	c.1500T>G	c.(1498-1500)CCT>CCG	p.P500P	ZNF732_uc010ibb.1_Intron	NM_001137608	NP_001131080	B4DXR9	ZN732_HUMAN	zinc finger protein 732	501					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACATTCGTAAGGTTTCTCTC	0.388													4	6					0	0	1	0	0		C	265143	C	C	265143	2	2	82	1	0	0	0	0	0	0	0	1	18148	59	3	5		5	ZNF732	4	265143	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	178001	265143	190889133	328	50784											
SLBP	7884	broad.mit.edu	37	chr4	1696553	1696553	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgctttctgcagattcaAggtctacagggtgtctgtta	8	14	11	8	0	4	1	1	0	3	1	4	1	4	1	0	2	4	4	0	2	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:1696553A>C	uc003gdi.1	-	7	759	c.644T>G	c.(643-645)CTT>CGT	p.L215R	SLBP_uc010ibx.1_Missense_Mutation_p.L222R|SLBP_uc003gdj.1_Missense_Mutation_p.L195R|SLBP_uc003gdk.1_Missense_Mutation_p.L176R|SLBP_uc011bvf.1_Missense_Mutation_p.L180R|SLBP_uc003gdl.1_Missense_Mutation_p.L132R	NM_006527	NP_006518	Q14493	SLBP_HUMAN	stem-loop (histone) binding protein	215					DNA replication involved in S phase|histone mRNA 3'-end processing|mRNA export from nucleus|regulation of S phase|termination of RNA polymerase II transcription	cytosol|histone pre-mRNA 3'end processing complex|nucleoplasm	histone pre-mRNA DCP binding|histone pre-mRNA stem-loop binding|protein binding				0		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.0055)			TGCAGATTCAAGGTCTACAGG	0.493													5	86					0	0	1	0	0		C	1696553	C	C	1696553	3	2	82	1	0	0	0	0	1	0	0	0	14397	72	3	5	176	5	SLBP	4	1696553	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1431410	1696553	189457723	329	50785											
AFAP1	60312	broad.mit.edu	37	chr4	7774589	7774589	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggctcgatggccagcccCagggtgactccgcccgccag	5	6	14	16	3	0	1	0	1	0	0	2	2	1	1	6	3	1	1	6	3	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:7774589C>T	uc003gkg.1	-	15	2232	c.1959G>A	c.(1957-1959)CTG>CTA	p.L653L	AFAP1_uc011bwk.1_Silent_p.L737L|LOC84740_uc003gkd.3_RNA	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	653						actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						TGGCCAGCCCCAGGGTGACTC	0.672													4	28					0	0	1	0	0		T	7774589	T	T	7774589	2	4	82	1	0	0	0	0	0	0	0	1	353	581	21	4		4	AFAP1	4	7774589	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	6078036	7774589	183379687	330	50786											
CPZ	8532	broad.mit.edu	37	chr4	8621297	8621297	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccctggtggtggtcctacTtcacatcgctgagcacccac	7	9	10	15	1	1	1	1	1	0	0	3	1	2	1	3	3	3	2	3	3	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:8621297T>C	uc003glm.2	+	11	2038	c.1912T>C	c.(1912-1914)TTC>CTC	p.F638L	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Missense_Mutation_p.F501L|CPZ_uc003glo.2_Missense_Mutation_p.F627L|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	638					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						GTGGTCCTACTTCACATCGCT	0.701													3	31					0	0	1	0	0		C	8621297	C	C	8621297	3	2	82	1	0	0	0	0	1	0	0	0	3842	1609	56	3	1954	3	CPZ	4	8621297	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	846708	8621297	182532979	331	50787											
CD38	952	broad.mit.edu	37	chr4	15826541	15826541	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataaaagatctggcccatcAgttcacacaggtccagcggg	13	7	10	11	1	3	1	2	0	1	1	4	1	4	1	2	3	1	1	2	3	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:15826541A>G	uc011bxc.1	+	3	508	c.401A>G	c.(400-402)CAG>CGG	p.Q134R	CD38_uc003goj.1_Missense_Mutation_p.Q134R|CD38_uc003gol.1_Missense_Mutation_p.Q134R	NM_001775	NP_001766	P28907	CD38_HUMAN	CD38 antigen	134	Extracellular (Potential).				B cell receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of apoptosis|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of transcription, DNA-dependent|response to drug	integral to membrane|plasma membrane	binding|NAD+ nucleosidase activity|receptor activity			ovary(2)	2						CTGGCCCATCAGTTCACACAG	0.378													12	65					0	0	1	0	0		G	15826541	G	G	15826541	3	3	82	1	0	0	0	0	1	0	0	0	3012	188	7	3	411	3	CD38	4	15826541	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	7205244	15826541	175327735	332	50788											
LAP3	51056	broad.mit.edu	37	chr4	17586723	17586723	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaattattgagaagaatcTcaaaagtgctagtagtaaaa	19	11	8	3	0	1	3	1	2	1	2	2	4	1	3	0	0	1	3	0	0	10	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:17586723T>A	uc003gph.1	+	6	830	c.668T>A	c.(667-669)CTC>CAC	p.L223H	LAP3_uc010ieg.2_3'UTR	NM_015907	NP_056991	P28838	AMPL_HUMAN	leucine aminopeptidase 3	223					proteolysis	nucleus	aminopeptidase activity|magnesium ion binding|manganese ion binding|metalloexopeptidase activity|zinc ion binding				0						GAGAAGAATCTCAAAAGTGCT	0.343													9	84					0	0	1	0	0		A	17586723	A	A	17586723	3	1	82	1	0	0	0	0	1	0	0	0	8639	1551	54	5	690	5	LAP3	4	17586723	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1760182	17586723	173567553	333	50789											
LGI2	55203	broad.mit.edu	37	chr4	25028556	25028556	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgaatgagttagaattcAgcaatctgaaagtaagagac	16	10	10	5	1	2	5	1	3	1	2	3	6	2	5	0	0	1	3	0	0	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:25028556A>C	uc003grf.2	-	3	374	c.275T>G	c.(274-276)CTG>CGG	p.L92R		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	92	LRR 1.					extracellular region					0		Breast(46;0.173)				GTTAGAATTCAGCAATCTGAA	0.383													20	43					0	0	1	0	0		C	25028556	C	C	25028556	3	2	82	1	0	0	0	0	1	0	0	0	8768	188	7	5	1386	5	LGI2	4	25028556	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	7441833	25028556	166125720	334	50790											
RBPJ	3516	broad.mit.edu	37	chr4	26430438	26430438	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaccttaaggatacagaaAgaatgtatttgtgcctttct	12	16	7	6	0	1	2	0	0	1	2	1	3	1	3	2	1	3	1	2	1	6	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:26430438A>C	uc003grx.1	+	9	1119	c.883A>C	c.(883-885)AGA>CGA	p.R295R	RBPJ_uc003gry.1_Silent_p.R280R|RBPJ_uc003grz.1_Silent_p.R295R|RBPJ_uc011bxt.1_Silent_p.R295R|RBPJ_uc003gsa.1_Silent_p.R281R|RBPJ_uc003gsb.1_Silent_p.R282R|RBPJ_uc003gsc.1_Silent_p.R281R	NM_005349	NP_005340	Q06330	SUH_HUMAN	recombining binding protein suppressor of	295					DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)				GGATACAGAAAGAATGTATTT	0.333													12	24					0	0	1	0	0		C	26430438	C	C	26430438	2	2	82	1	0	0	0	0	0	0	0	1	13186	64	3	5		5	RBPJ	4	26430438	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1401882	26430438	164723838	335	50791											
TLR10	81793	broad.mit.edu	37	chr4	38776650	38776650	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcagttttgttgtgtttaAgatgggcaggctaccttctt	6	17	12	6	0	1	1	0	0	1	1	1	1	1	1	1	2	2	6	1	2	2	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:38776650A>C	uc003gti.2	-	2	941	c.562T>G	c.(562-564)TTA>GTA	p.L188V	TLR10_uc003gtj.2_Missense_Mutation_p.L188V|TLR10_uc003gtk.2_Missense_Mutation_p.L188V	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	188	Extracellular (Potential).				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						GTTGTGTTTAAGATGGGCAGG	0.348													30	79					0	0	1	0	0		C	38776650	C	C	38776650	3	2	82	1	0	0	0	0	1	0	0	0	15975	69	3	5	1877	5	TLR10	4	38776650	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	12346212	38776650	152377626	336	50792											
RFC1	5981	broad.mit.edu	37	chr4	39301996	39301996	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatgtgagcagtctcctcTccagctgcaaacactttccg	9	10	8	14	1	2	1	0	1	2	0	5	2	3	1	3	0	4	3	3	0	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:39301996T>C	uc003gty.1	-	20	2711	c.2577A>G	c.(2575-2577)GGA>GGG	p.G859G	RFC1_uc003gtx.1_Silent_p.G858G	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit	859					DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4						CAGTCTCCTCTCCAGCTGCAA	0.348													8	54					0	0	1	0	0		C	39301996	C	C	39301996	2	2	82	1	0	0	0	0	0	0	0	1	13269	1538	54	3		3	RFC1	4	39301996	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	525346	39301996	151852280	337	50793											
RBM47	54502	broad.mit.edu	37	chr4	40439938	40439938	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgccttctggtagcgcgAgtactgctccttgtccacgg	4	11	13	13	3	1	0	0	0	1	0	3	1	3	0	3	3	4	4	3	3	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:40439938A>G	uc003gvc.2	-	4	1683	c.973T>C	c.(973-975)TCG>CCG	p.S325P	RBM47_uc003gvd.2_Missense_Mutation_p.S325P|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Missense_Mutation_p.S287P|RBM47_uc003gvg.1_Missense_Mutation_p.S325P	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	325						nucleus	nucleotide binding|RNA binding			breast(3)	3						TGGTAGCGCGAGTACTGCTCC	0.662													15	53					0	0	1	0	0		G	40439938	G	G	40439938	3	3	82	1	0	0	0	0	1	0	0	0	13166	304	11	3	824	3	RBM47	4	40439938	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1137942	40439938	150714338	338	50794											
PHOX2B	8929	broad.mit.edu	37	chr4	41748224	41748224	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggcctctttgctctcgTcgtccctggaagagtcagac	5	13	10	13	2	4	2	1	0	3	2	7	3	5	3	2	2	1	1	2	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:41748224T>G	uc003gwf.3	-	3	905	c.545A>C	c.(544-546)GAC>GCC	p.D182A		NM_003924	NP_003915	Q99453	PHX2B_HUMAN	paired-like homeobox 2b	182					positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			autonomic_ganglia(7)|lung(2)|ovary(2)|central_nervous_system(1)	12						TTTGCTCTCGTCGTCCCTGGA	0.647			Mis|F		neuroblastoma	neuroblastoma	congenital central hypoventilation syndrome		Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				8	45					0	0	1	0	0		G	41748224	G	G	41748224	3	3	82	1	0	0	0	0	1	0	0	0	11878	1667	58	5	403	5	PHOX2B	4	41748224	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1308286	41748224	149406052	339	50795											
DCAF4L1	285429	broad.mit.edu	37	chr4	41984471	41984471	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacgggacaccagcagtcatTtgataccagcagtgatgtct	11	9	11	10	1	2	2	1	2	1	0	2	4	2	3	2	1	3	2	2	1	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:41984471T>G	uc003gwk.2	+	1	759	c.662T>G	c.(661-663)TTT>TGT	p.F221C		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	221										skin(1)	1						CAGCAGTCATTTGATACCAGC	0.552													34	178					0	0	1	0	0		G	41984471	G	G	41984471	3	3	82	1	0	0	0	0	1	0	0	0	4274	1841	64	5	664	5	DCAF4L1	4	41984471	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	236247	41984471	149169805	340	50796											
GABRB1	2560	broad.mit.edu	37	chr4	47322225	47322225	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaccctggagatcgaaagTtgtgagttacttggacaggg	10	10	14	7	1	0	2	0	1	0	1	1	5	0	3	1	3	2	3	1	3	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:47322225T>A	uc003gxh.2	+	5	917	c.543T>A	c.(541-543)AGT>AGA	p.S181R	GABRB1_uc011bze.1_Missense_Mutation_p.S111R	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	181	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	AGATCGAAAGTTGTGAGTTAC	0.433													13	44					0	0	1	0	0		A	47322225	A	A	47322225	3	1	82	1	0	0	0	0	1	0	0	0	6180	1739	60	5	561	5	GABRB1	4	47322225	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5337754	47322225	143832051	341	50797											
LRRC66	339977	broad.mit.edu	37	chr4	52861969	52861969	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttttgctctggcacttttTttgccacagtctgtcaacat	6	17	7	11	0	3	0	1	0	2	0	3	0	3	0	1	1	3	3	1	1	1	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:52861969T>G	uc003gzi.2	-	4	1232	c.1219A>C	c.(1219-1221)AAA>CAA	p.K407Q		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	407						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						TGGCACTTTTTTTGCCACAGT	0.557													10	73					0	0	1	0	0		G	52861969	G	G	52861969	3	3	82	1	0	0	0	0	1	0	0	0	9036	1850	64	5	1427	5	LRRC66	4	52861969	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5539744	52861969	138292307	342	50798											
KDR	3791	broad.mit.edu	37	chr4	55962481	55962481	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttgagttcagacatgagAgctcgatgctcactgtgtgt	9	13	11	8	1	3	3	2	2	1	2	4	5	3	3	0	0	2	3	0	0	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:55962481A>G	uc003has.2	-	19	2945	c.2643T>C	c.(2641-2643)GCT>GCC	p.A881A	KDR_uc003hat.1_Silent_p.A881A	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	881	Protein kinase.|Cytoplasmic (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	CAGACATGAGAGCTCGATGCT	0.468			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			27	47					0	0	1	0	0		G	55962481	G	G	55962481	2	3	82	1	0	0	0	0	0	0	0	1	8155	291	11	3		3	KDR	4	55962481	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3100512	55962481	135191795	343	50799											
MUC7	4589	broad.mit.edu	37	chr4	71346711	71346711	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacctaataacccccccaaaTtcccaaatcctcaccagcca	14	6	1	20	0	1	0	1	0	0	0	3	0	3	0	8	0	2	0	8	0	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:71346711T>G	uc011cat.1	+	4	538	c.250T>G	c.(250-252)TTC>GTC	p.F84V	MUC7_uc011cau.1_Missense_Mutation_p.F84V|MUC7_uc003hfj.2_Missense_Mutation_p.F84V|uc011cav.1_RNA	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	84						extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			CCCCCCCAAATTCCCAAATCC	0.463													21	93					0	0	1	0	0		G	71346711	G	G	71346711	3	3	82	1	0	0	0	0	1	0	0	0	9999	1493	52	5	256	5	MUC7	4	71346711	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	15384230	71346711	119807565	344	50800											
SLC4A4	8671	broad.mit.edu	37	chr4	72413427	72413427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgtcagtctttatggctcCcatcttgaaggtaaatatgt	9	16	8	8	0	4	1	1	1	3	0	5	1	5	1	1	2	0	2	1	2	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:72413427C>T	uc003hfy.2	+	20	2801	c.2684C>T	c.(2683-2685)CCC>CTC	p.P895L	SLC4A4_uc010iic.2_Missense_Mutation_p.P895L|SLC4A4_uc010iib.2_Intron|SLC4A4_uc003hfz.2_Missense_Mutation_p.P895L|SLC4A4_uc003hgc.3_Missense_Mutation_p.P851L|SLC4A4_uc010iid.2_Missense_Mutation_p.P99L	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	895	Helical; (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			TTTATGGCTCCCATCTTGAAG	0.388													8	118					0	0	1	0	0		T	72413427	T	T	72413427	3	4	82	1	0	0	0	0	1	0	0	0	14681	623	22	4	2879	4	SLC4A4	4	72413427	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	1066716	72413427	118740849	345	50801											
PARM1	25849	broad.mit.edu	37	chr4	75937967	75937967	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccacgttggaggaacacAgctcgggcactcctgaagca	12	5	11	13	2	0	1	0	1	0	0	2	3	1	3	2	3	4	4	2	3	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:75937967A>C	uc003hih.1	+	2	616	c.376A>C	c.(376-378)AGC>CGC	p.S126R		NM_015393	NP_056208	Q6UWI2	PARM1_HUMAN	prostatic androgen-repressed message-1	126	Extracellular (Potential).				positive regulation of telomerase activity	early endosome|endosome membrane|Golgi membrane|integral to membrane|late endosome|plasma membrane				ovary(1)	1						GGAGGAACACAGCTCGGGCAC	0.587													16	143					0	0	1	0	0		C	75937967	C	C	75937967	3	2	82	1	0	0	0	0	1	0	0	0	11471	188	7	5	382	5	PARM1	4	75937967	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3524540	75937967	115216309	346	50802											
C4orf26	152816	broad.mit.edu	37	chr4	76489614	76489614	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataggtatttccccagaagaAgactccagagaggaagctca	15	7	10	9	0	1	4	1	0	0	4	3	6	3	5	3	2	1	2	3	2	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:76489614A>C	uc003hip.1	+	2	393	c.358A>C	c.(358-360)AGA>CGA	p.R120R	C4orf26_uc011cbn.1_RNA|C4orf26_uc011cbo.1_Missense_Mutation_p.E134D	NM_178497	NP_848592	Q17RF5	CD026_HUMAN	hypothetical protein LOC152816 precursor	120						extracellular region					0			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			CCCCAGAAGAAGACTCCAGAG	0.428													17	183					0	0	1	0	0		C	76489614	C	C	76489614	2	2	82	1	0	0	0	0	0	0	0	1	2260	64	3	5		5	C4orf26	4	76489614	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	551647	76489614	114664662	347	50803											
CDKL2	8999	broad.mit.edu	37	chr4	76532367	76532367	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccattactgatgtcttacTtgccatacttgacatcacca	10	13	4	14	0	2	2	1	2	1	0	2	2	2	2	4	0	4	0	4	0	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:76532367T>C	uc003hiq.2	-	4	1067	c.542A>G	c.(541-543)AAG>AGG	p.K181R	CDKL2_uc011cbp.1_Missense_Mutation_p.K181R|CDKL2_uc010iix.1_Intron	NM_003948	NP_003939	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2	181	Protein kinase.				sex differentiation|signal transduction	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(2)|stomach(2)|breast(2)|skin(1)	7			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			GATGTCTTACTTGCCATACTT	0.418													12	54					0	0	1	0	0		C	76532367	C	C	76532367	3	2	82	1	0	0	0	0	1	0	0	0	3157	1623	56	3	971	3	CDKL2	4	76532367	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	42753	76532367	114621909	348	50804											
CXCL10	3627	broad.mit.edu	37	chr4	76944543	76944543	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttgaatgccacttagagtCagaaagataaggcagcaaat	16	8	9	8	0	1	4	1	1	0	3	1	4	1	4	2	1	2	2	2	1	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:76944543C>T	uc003hjl.3	-	1	112	c.42G>A	c.(40-42)CTG>CTA	p.L14L	ART3_uc003hji.2_Intron|ART3_uc003hjj.2_Intron|ART3_uc003hjk.2_Intron	NM_001565	NP_001556	P02778	CXL10_HUMAN	small inducible cytokine B10 precursor	14					blood circulation|cell surface receptor linked signaling pathway|cell-cell signaling|chemotaxis|inflammatory response|muscle organ development|positive regulation of cell proliferation	extracellular space	cAMP-dependent protein kinase regulator activity|chemokine activity				0			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			CACTTAGAGTCAGAAAGATAA	0.358													8	78					0	0	1	0	0		T	76944543	T	T	76944543	2	4	82	1	0	0	0	0	0	0	0	1	4081	813	29	4		4	CXCL10	4	76944543	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	412176	76944543	114209733	349	50805											
ART3	419	broad.mit.edu	37	chr4	77003337	77003337	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttccacttttacctcacaAgagccctgcagttgctgaga	9	12	7	13	0	1	2	1	1	0	2	2	3	2	2	3	0	4	3	3	0	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:77003337A>T	uc003hjo.2	+	3	549	c.430A>T	c.(430-432)AGA>TGA	p.R144*	ART3_uc003hji.2_Nonsense_Mutation_p.R144*|ART3_uc003hjj.2_Nonsense_Mutation_p.R144*|ART3_uc003hjk.2_Nonsense_Mutation_p.R144*|ART3_uc010ija.1_Nonsense_Mutation_p.R144*|ART3_uc003hjn.2_Nonsense_Mutation_p.R144*|ART3_uc003hjp.2_Intron|ART3_uc010ijb.2_Intron|ART3_uc003hjq.2_Intron|ART3_uc003hjr.2_Nonsense_Mutation_p.R114*|ART3_uc010ijc.2_Nonsense_Mutation_p.R114*|ART3_uc010ijd.2_Nonsense_Mutation_p.R114*	NM_001130016	NP_001123488	Q13508	NAR3_HUMAN	ADP-ribosyltransferase 3 isoform a	144					protein ADP-ribosylation	anchored to membrane|integral to plasma membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity			ovary(2)	2			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TTACCTCACAAGAGCCCTGCA	0.443													18	49					0	0	1	0	0		T	77003337	T	T	77003337	4	4	82	1	0	0	0	0	0	1	0	0	999	64	3	5	436	5	ART3	4	77003337	Nonsense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	58794	77003337	114150939	350	50806											
FRAS1	80144	broad.mit.edu	37	chr4	79308837	79308837	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccataatatactgttccaAgtgaagaccgtgcctcaggt	11	12	8	10	1	1	2	1	1	0	1	3	2	3	2	4	1	2	1	4	1	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:79308837A>C	uc003hlb.2	+	29	4397	c.3957A>C	c.(3955-3957)CAA>CAC	p.Q1319H	FRAS1_uc003hkw.2_Missense_Mutation_p.Q1319H	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	1318	CSPG 3.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TACTGTTCCAAGTGAAGACCG	0.438													4	24					0	0	1	0	0		C	79308837	C	C	79308837	3	2	82	1	0	0	0	0	1	0	0	0	6056	69	3	5	4071	5	FRAS1	4	79308837	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2305500	79308837	111845439	351	50807											
FRAS1	80144	broad.mit.edu	37	chr4	79369367	79369367	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttccagttctccctcacTgatggcctccacgtggacac	7	10	9	15	1	2	1	1	1	1	0	5	3	4	2	4	2	0	2	4	2	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:79369367T>C	uc003hlb.2	+	44	6611	c.6171T>C	c.(6169-6171)ACT>ACC	p.T2057T		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2056	CSPG 8.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TCTCCCTCACTGATGGCCTCC	0.542													13	27					0	0	1	0	0		C	79369367	C	C	79369367	2	2	82	1	0	0	0	0	0	0	0	1	6056	1567	55	3		3	FRAS1	4	79369367	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	60530	79369367	111784909	352	50808											
ANTXR2	118429	broad.mit.edu	37	chr4	80905052	80905052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccattcttttaattcctcCaacccctcgaccaccataat	10	13	1	17	1	1	0	0	0	1	0	5	1	4	0	7	0	1	0	7	0	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:80905052C>T	uc003hlz.3	-	14	1922	c.1159G>A	c.(1159-1161)GGA>AGA	p.G387R	ANTXR2_uc003hly.3_Missense_Mutation_p.G387R|ANTXR2_uc003hlx.1_RNA|ANTXR2_uc010ijn.2_Missense_Mutation_p.G284R	NM_001145794	NP_001139266	P58335	ANTR2_HUMAN	anthrax toxin receptor 2 isoform 2	387	Cytoplasmic (Potential).					endoplasmic reticulum membrane|extracellular region|integral to membrane|plasma membrane	metal ion binding|protein binding|receptor activity			ovary(1)	1						TTAATTCCTCCAACCCCTCGA	0.358									Juvenile_Hyaline_Fibromatosis				9	30					0	0	1	0	0		T	80905052	T	T	80905052	3	4	82	1	0	0	0	0	1	0	0	0	712	603	21	4	365	4	ANTXR2	4	80905052	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	1535685	80905052	110249224	353	50809											
PRKG2	5593	broad.mit.edu	37	chr4	82088337	82088337	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccaagcagtcaatgatcTtggttaatttatcttcaggt	10	16	7	8	0	4	1	2	1	2	0	5	1	5	1	1	2	1	2	1	2	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:82088337T>G	uc003hmh.2	-	5	904	c.890A>C	c.(889-891)AAG>ACG	p.K297T	PRKG2_uc011cch.1_Missense_Mutation_p.K297T	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	297	cGMP 2.				platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						GTCAATGATCTTGGTTAATTT	0.249													4	26					0	0	1	0	0		G	82088337	G	G	82088337	3	3	82	1	0	0	0	0	1	0	0	0	12545	1609	56	5	1454	5	PRKG2	4	82088337	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1183285	82088337	109065939	354	50810											
SCD5	79966	broad.mit.edu	37	chr4	83552614	83552614	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggttaaaatttaagccaaAttcactcgcagagtagtcaa	15	11	8	7	1	2	1	2	0	0	1	3	1	2	1	1	1	1	3	1	1	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:83552614A>C	uc003hna.2	-	5	1179	c.859T>G	c.(859-861)TTT>GTT	p.F287V		NM_001037582	NP_001032671	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5 isoform a	287					fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity			ovary(1)	1		Colorectal(4;0.0323)|Hepatocellular(203;0.115)				TTTAAGCCAAATTCACTCGCA	0.483													19	45					0	0	1	0	0		C	83552614	C	C	83552614	3	2	82	1	0	0	0	0	1	0	0	0	13912	101	4	5	137	5	SCD5	4	83552614	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1464277	83552614	107601662	355	50811											
THAP9	79725	broad.mit.edu	37	chr4	83839152	83839152	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattatgttttcccaaaggTcatgccttttccttatcttc	9	18	4	10	0	2	0	1	0	1	0	5	0	4	0	3	1	1	1	3	1	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:83839152T>G	uc003hnt.2	+	5	1906	c.1787T>G	c.(1786-1788)GTC>GGC	p.V596G	THAP9_uc003hns.1_Missense_Mutation_p.V452G|THAP9_uc003hnu.1_RNA|THAP9_uc003hnv.2_Missense_Mutation_p.V313G	NM_024672	NP_078948	Q9H5L6	THAP9_HUMAN	THAP domain containing 9	596							DNA binding|metal ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	5		Hepatocellular(203;0.114)				TTCCCAAAGGTCATGCCTTTT	0.348													8	47					0	0	1	0	0		G	83839152	G	G	83839152	3	3	82	1	0	0	0	0	1	0	0	0	15876	1667	58	5	1805	5	THAP9	4	83839152	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	286538	83839152	107315124	356	50812											
HPSE	10855	broad.mit.edu	37	chr4	84222200	84222200	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatagggtaaccgcaagtacTtggtgacattatggaggttt	11	12	13	5	1	0	1	0	1	0	0	0	3	0	2	1	4	2	4	1	4	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:84222200T>C	uc003hoj.3	-	11	1484	c.1385A>G	c.(1384-1386)AAG>AGG	p.K462R	HPSE_uc010ika.2_Missense_Mutation_p.K404R|HPSE_uc011ccq.1_RNA|HPSE_uc011ccr.1_RNA|HPSE_uc011ccs.1_Missense_Mutation_p.K205R|HPSE_uc011cct.1_Missense_Mutation_p.K388R|HPSE_uc003hok.3_Missense_Mutation_p.K462R	NM_001098540	NP_001092010	Q9Y251	HPSE_HUMAN	heparanase precursor	462					carbohydrate metabolic process|cell adhesion|proteoglycan metabolic process	extracellular region|lysosomal membrane|nucleus	beta-glucuronidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.114)		COAD - Colon adenocarcinoma(81;0.141)	Heparin(DB01109)	CCGCAAGTACTTGGTGACATT	0.348													22	46					0	0	1	0	0		C	84222200	C	C	84222200	3	2	82	1	0	0	0	0	1	0	0	0	7360	1609	56	3	254	3	HPSE	4	84222200	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	383048	84222200	106932076	357	50813											
MAPK10	5602	broad.mit.edu	37	chr4	87022315	87022315	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcctggccagtccaaagTccaggattttcaatgtgcaa	10	11	9	11	0	1	0	1	0	0	0	4	1	4	1	4	2	1	1	4	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:87022315T>G	uc003hpq.2	-	7	687	c.620A>C	c.(619-621)GAC>GCC	p.D207A	MAPK10_uc010ikg.2_Missense_Mutation_p.D169A|MAPK10_uc003hpr.2_Missense_Mutation_p.D169A|MAPK10_uc003hps.2_Missense_Mutation_p.D207A|MAPK10_uc003hpt.2_Missense_Mutation_p.D207A|MAPK10_uc003hpu.2_Missense_Mutation_p.D207A|MAPK10_uc003hpv.2_Missense_Mutation_p.D62A|MAPK10_uc003hpn.2_5'Flank|MAPK10_uc003hpo.2_Missense_Mutation_p.D62A|MAPK10_uc011ccw.1_Missense_Mutation_p.D93A|MAPK10_uc003hpp.2_Missense_Mutation_p.D62A	NM_138982	NP_620448	P53779	MK10_HUMAN	mitogen-activated protein kinase 10 isoform 2	207	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)		CAGTCCAAAGTCCAGGATTTT	0.438													9	47					0	0	1	0	0		G	87022315	G	G	87022315	3	3	82	1	0	0	0	0	1	0	0	0	9290	1667	58	5	807	5	MAPK10	4	87022315	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2800115	87022315	104131961	358	50814											
PTPN13	5783	broad.mit.edu	37	chr4	87622548	87622548	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacattttatcagataattcTggacgtgaagattctgaaaa	15	13	8	5	1	3	4	1	2	2	2	3	6	3	5	0	1	0	0	0	1	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:87622548T>G	uc003hpz.2	+	7	1269	c.789T>G	c.(787-789)TCT>TCG	p.S263S	PTPN13_uc003hpy.2_Silent_p.S263S|PTPN13_uc003hqa.2_Silent_p.S263S|PTPN13_uc003hqb.2_Silent_p.S263S	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	263						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		CAGATAATTCTGGACGTGAAG	0.368													7	21					0	0	1	0	0		G	87622548	G	G	87622548	2	3	82	1	0	0	0	0	0	0	0	1	12805	1567	55	5		5	PTPN13	4	87622548	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	600233	87622548	103531728	359	50815											
HSD17B13	345275	broad.mit.edu	37	chr4	88234976	88234976	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttgattttgaccttaccTtgtgcttggatttttggtga	7	19	9	6	0	0	3	0	3	0	0	0	4	0	4	2	2	3	1	2	2	2	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:88234976T>G	uc003hqo.2	-	5	757	c.694A>C	c.(694-696)AGA>CGA	p.R232R	HSD17B13_uc010ikk.2_Silent_p.R196R	NM_178135	NP_835236	Q7Z5P4	DHB13_HUMAN	hydroxysteroid (17-beta) dehydrogenase 13	232						extracellular region	binding|oxidoreductase activity				0		Acute lymphoblastic leukemia(40;0.244)|all_hematologic(202;0.248)		OV - Ovarian serous cystadenocarcinoma(123;0.000308)		TGACCTTACCTTGTGCTTGGA	0.373													9	63					0	0	1	0	0		G	88234976	G	G	88234976	2	3	82	1	0	0	0	0	0	0	0	1	7398	1623	56	5		5	HSD17B13	4	88234976	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	612428	88234976	102919300	360	50816											
DMP1	1758	broad.mit.edu	37	chr4	88583146	88583146	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgacagcactcagtcAgaggagggcctgggctctga	9	6	14	12	0	3	3	2	2	1	1	3	4	3	4	2	3	1	2	2	3	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:88583146A>G	uc003hqv.2	+	6	320	c.216A>G	c.(214-216)TCA>TCG	p.S72S	DMP1_uc003hqw.2_Silent_p.S56S	NM_004407	NP_004398	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1 isoform 1	72					biomineral tissue development|ossification	cytoplasm|nucleus|proteinaceous extracellular matrix	calcium ion binding|integrin binding			pancreas(1)|skin(1)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)		GCACTCAGTCAGAGGAGGGCC	0.473													6	66					0	0	1	0	0		G	88583146	G	G	88583146	2	3	82	1	0	0	0	0	0	0	0	1	4589	175	7	3		3	DMP1	4	88583146	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	348170	88583146	102571130	361	50817											
DMP1	1758	broad.mit.edu	37	chr4	88584170	88584170	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccagtgagagcctcaacTtctcagaggaaagcccggag	13	6	11	11	1	2	2	2	1	1	2	4	5	3	4	3	2	3	0	3	2	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:88584170T>G	uc003hqv.2	+	6	1344	c.1240T>G	c.(1240-1242)TTC>GTC	p.F414V	DMP1_uc003hqw.2_Missense_Mutation_p.F398V	NM_004407	NP_004398	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1 isoform 1	414					biomineral tissue development|ossification	cytoplasm|nucleus|proteinaceous extracellular matrix	calcium ion binding|integrin binding			pancreas(1)|skin(1)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)		GAGCCTCAACTTCTCAGAGGA	0.572													26	89					0	0	1	0	0		G	88584170	G	G	88584170	3	3	82	1	0	0	0	0	1	0	0	0	4589	1609	56	5	1258	5	DMP1	4	88584170	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1024	88584170	102570106	362	50818											
DMP1	1758	broad.mit.edu	37	chr4	88584322	88584322	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagcagcagatccaaagaAgatagcaactccacggagag	17	3	11	10	1	0	4	0	0	0	4	2	6	2	4	2	1	4	3	2	1	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:88584322A>C	uc003hqv.2	+	6	1496	c.1392A>C	c.(1390-1392)GAA>GAC	p.E464D	DMP1_uc003hqw.2_Missense_Mutation_p.E448D	NM_004407	NP_004398	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1 isoform 1	464					biomineral tissue development|ossification	cytoplasm|nucleus|proteinaceous extracellular matrix	calcium ion binding|integrin binding			pancreas(1)|skin(1)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)		GATCCAAAGAAGATAGCAACT	0.488													26	89					0	0	1	0	0		C	88584322	C	C	88584322	3	2	82	1	0	0	0	0	1	0	0	0	4589	69	3	5	1410	5	DMP1	4	88584322	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	152	88584322	102569954	363	50819											
HERC6	55008	broad.mit.edu	37	chr4	89311919	89311919	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaggggatcccactggcTcaggtggctgccggaggggc	5	6	19	11	1	1	0	1	0	0	0	2	3	2	3	2	9	1	2	2	9	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:89311919T>G	uc011cdi.1	+	4	735	c.552T>G	c.(550-552)GCT>GCG	p.A184A	HERC6_uc003hrp.1_RNA|HERC6_uc011cdj.1_Silent_p.A184A|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	184	RCC1 3.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		TCCCACTGGCTCAGGTGGCTG	0.657													8	32					0	0	1	0	0		G	89311919	G	G	89311919	2	3	82	1	0	0	0	0	0	0	0	1	7078	1538	54	5		5	HERC6	4	89311919	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	727597	89311919	101842357	364	50820											
ADH1B	125	broad.mit.edu	37	chr4	100232006	100232006	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaacgcatccagtgaaaacTtcttagccataaaatcagcc	15	10	5	11	1	2	1	1	1	1	0	3	1	3	1	3	0	4	1	3	0	6	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:100232006T>G	uc003hus.3	-	8	1103	c.1019A>C	c.(1018-1020)AAG>ACG	p.K340T	ADH1A_uc011ceg.1_Intron|ADH1B_uc003hut.3_Missense_Mutation_p.K300T|ADH1B_uc011ceh.1_Missense_Mutation_p.K185T|ADH1B_uc011cei.1_Missense_Mutation_p.K300T	NM_000668	NP_000659	P00325	ADH1B_HUMAN	class I alcohol dehydrogenase, beta subunit	340					ethanol oxidation|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|zinc ion binding			ovary(1)|breast(1)	2				OV - Ovarian serous cystadenocarcinoma(123;1.02e-07)	Fomepizole(DB01213)|NADH(DB00157)	CAGTGAAAACTTCTTAGCCAT	0.358													12	128					0	0	1	0	0		G	100232006	G	G	100232006	3	3	82	1	0	0	0	0	1	0	0	0	308	1609	56	5	116	5	ADH1B	4	100232006	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	10920087	100232006	90922270	365	50821											
ADH1B	125	broad.mit.edu	37	chr4	100237376	100237376	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcatcagaaacctactcatTtttcaagcagtagttgctct	12	13	6	10	0	4	1	3	0	1	1	4	1	4	1	1	0	5	5	1	0	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:100237376T>G	uc003hus.3	-	4	427	c.343A>C	c.(343-345)AAT>CAT	p.N115H	ADH1A_uc011ceg.1_Intron|ADH1B_uc003hut.3_Missense_Mutation_p.N75H|ADH1B_uc011ceh.1_Intron|ADH1B_uc011cei.1_Missense_Mutation_p.N75H	NM_000668	NP_000659	P00325	ADH1B_HUMAN	class I alcohol dehydrogenase, beta subunit	115					ethanol oxidation|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|zinc ion binding			ovary(1)|breast(1)	2				OV - Ovarian serous cystadenocarcinoma(123;1.02e-07)	Fomepizole(DB01213)|NADH(DB00157)	ACCTACTCATTTTTCAAGCAG	0.433													12	66					0	0	1	0	0		G	100237376	G	G	100237376	3	3	82	1	0	0	0	0	1	0	0	0	308	1841	64	5	808	5	ADH1B	4	100237376	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5370	100237376	90916900	366	50822											
DKK2	27123	broad.mit.edu	37	chr4	107846993	107846993	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggcagcacatgccatcTcggtggcagcgcttcttttt	5	12	12	12	2	2	0	0	0	2	0	3	0	2	0	1	4	3	4	1	4	0	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:107846993T>C	uc003hyi.2	-	2	1041	c.336A>G	c.(334-336)CGA>CGG	p.R112R	DKK2_uc010ilw.1_RNA|DKK2_uc003hyj.1_Silent_p.R112R	NM_014421	NP_055236	Q9UBU2	DKK2_HUMAN	dickkopf homolog 2 precursor	112	DKK-type Cys-1.				multicellular organismal development|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular space		p.R112G(1)		ovary(3)|lung(1)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.34e-06)		ACATGCCATCTCGGTGGCAGC	0.498													40	102					0	0	1	0	0		C	107846993	C	C	107846993	2	2	82	1	0	0	0	0	0	0	0	1	4551	1538	54	3		3	DKK2	4	107846993	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7609617	107846993	83307283	367	50823											
EGF	1950	broad.mit.edu	37	chr4	110862293	110862293	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtttttctgaatgggtcaAggcaagaggtaaaataccct	13	11	11	6	0	2	2	1	1	1	1	2	3	2	2	1	3	1	3	1	3	6	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:110862293A>C	uc003hzy.3	+	2	771	c.319A>C	c.(319-321)AGG>CGG	p.R107R	EGF_uc011cfu.1_Silent_p.R107R|EGF_uc011cfv.1_Silent_p.R107R	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	107	LDL-receptor class B 1.|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	GAATGGGTCAAGGCAAGAGGT	0.323													16	46					0	0	1	0	0		C	110862293	C	C	110862293	2	2	82	1	0	0	0	0	0	0	0	1	4968	63	3	5		5	EGF	4	110862293	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3015300	110862293	80291983	368	50824											
ANK2	287	broad.mit.edu	37	chr4	114278039	114278039	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtttccactgaggctgaAgacaggtcttatgataagct	10	12	11	8	0	1	4	0	3	1	1	2	4	2	4	1	2	1	4	1	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:114278039A>C	uc003ibe.3	+	38	8365	c.8265A>C	c.(8263-8265)GAA>GAC	p.E2755D	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.E57D|ANK2_uc011cgb.1_Missense_Mutation_p.E2770D	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2722					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CTGAGGCTGAAGACAGGTCTT	0.458													25	56					0	0	1	0	0		C	114278039	C	C	114278039	3	2	82	1	0	0	0	0	1	0	0	0	621	69	3	5	8480	5	ANK2	4	114278039	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3415746	114278039	76876237	369	50825											
SEC24D	9871	broad.mit.edu	37	chr4	119666127	119666127	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctgtattaaccagttttTtgtcatctctgtttttgagc	6	21	7	7	0	3	1	1	1	2	0	4	1	3	1	1	0	2	3	1	0	2	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:119666127T>G	uc003ici.3	-	14	2068	c.1796A>C	c.(1795-1797)AAA>ACA	p.K599T	SEC24D_uc003ich.3_RNA|SEC24D_uc003icj.3_Missense_Mutation_p.K600T|SEC24D_uc003icl.2_RNA	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D	599					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0						AACCAGTTTTTTGTCATCTCT	0.393													6	94					0	0	1	0	0		G	119666127	G	G	119666127	3	3	82	1	0	0	0	0	1	0	0	0	14022	1841	64	5	1342	5	SEC24D	4	119666127	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5388088	119666127	71488149	370	50826											
SYNPO2	171024	broad.mit.edu	37	chr4	119951776	119951776	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacgagtcccattgctgacTttcctgcacctccaccttac	7	12	6	16	1	0	2	0	2	0	0	3	3	3	2	5	0	3	2	5	0	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:119951776T>G	uc003icm.3	+	4	2042	c.1846T>G	c.(1846-1848)TTT>GTT	p.F616V	SYNPO2_uc010ina.2_Missense_Mutation_p.F616V|SYNPO2_uc010inb.2_Missense_Mutation_p.F616V|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Missense_Mutation_p.F544V	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	616	Pro-rich.					nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						CATTGCTGACTTTCCTGCACC	0.587													31	87					0	0	1	0	0		G	119951776	G	G	119951776	3	3	82	1	0	0	0	0	1	0	0	0	15482	1609	56	5	1860	5	SYNPO2	4	119951776	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	285649	119951776	71202500	371	50827											
KIAA1109	84162	broad.mit.edu	37	chr4	123091861	123091861	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactcaattagaagattttcTtacagaacacaattccaatg	17	12	4	8	0	2	3	1	0	1	3	3	3	3	3	1	0	3	0	1	0	8	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:123091861T>G	uc003ieh.2	+	1	104	c.59T>G	c.(58-60)CTT>CGT	p.L20R		NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	20					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GAAGATTTTCTTACAGAACAC	0.318													15	28					0	0	1	0	0		G	123091861	G	G	123091861	3	3	82	1	0	0	0	0	1	0	0	0	8224	1609	56	5	61	5	KIAA1109	4	123091861	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3140085	123091861	68062415	372	50828											
IL21	59067	broad.mit.edu	37	chr4	123542014	123542014	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaccaagtcattcacataAtttttcagctgatcaacaat	14	14	3	10	0	4	1	4	1	0	0	4	1	4	1	1	0	3	1	1	0	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:123542014A>C	uc003ies.2	-	1	198	c.153T>G	c.(151-153)AAT>AAG	p.N51K	uc003iet.2_Intron|IL21_uc010int.2_Missense_Mutation_p.N44K	NM_021803	NP_068575	Q9HBE4	IL21_HUMAN	interleukin 21	44					cell maturation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-17 production|positive regulation of T cell proliferation|signal transduction	extracellular space	cytokine activity|interleukin-2 receptor binding				0						CATTCACATAATTTTTCAGCT	0.343													31	59					0	0	1	0	0		C	123542014	C	C	123542014	3	2	82	1	0	0	0	0	1	0	0	0	7686	98	4	5	355	5	IL21	4	123542014	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	450153	123542014	67612262	373	50829											
PHF17	79960	broad.mit.edu	37	chr4	129767570	129767570	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgccatgaagttgcatgActcctaccagctgaatccgg	10	9	9	13	1	0	3	0	3	0	0	2	3	2	3	4	1	4	3	4	1	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:129767570A>G	uc003igk.2	+	4	459	c.179A>G	c.(178-180)GAC>GGC	p.D60G	PHF17_uc003igj.2_Missense_Mutation_p.D60G|PHF17_uc003igl.2_Missense_Mutation_p.D60G|PHF17_uc011cgy.1_Missense_Mutation_p.D60G|PHF17_uc003igm.2_Missense_Mutation_p.D60G	NM_199320	NP_955352	Q6IE81	JADE1_HUMAN	PHD finger protein 17 long isoform	60					apoptosis|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell growth|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	histone acetyltransferase complex|mitochondrion	protein binding|zinc ion binding				0						AAGTTGCATGACTCCTACCAG	0.502													31	144					0	0	1	0	0		G	129767570	G	G	129767570	3	3	82	1	0	0	0	0	1	0	0	0	11847	275	10	3	189	3	PHF17	4	129767570	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6225556	129767570	61386706	374	50830											
SMARCA5	8467	broad.mit.edu	37	chr4	144468627	144468627	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcgagaattcaaagaagaAtaagcatcaagaaagcactt	20	6	9	6	1	2	4	2	0	0	4	2	5	2	4	0	1	2	2	0	1	7	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:144468627A>G	uc003ijg.2	+	21	3205	c.2743A>G	c.(2743-2745)ATA>GTA	p.I915V		NM_003601	NP_003592	O60264	SMCA5_HUMAN	SWI/SNF-related matrix-associated	915					CenH3-containing nucleosome assembly at centromere|nucleosome positioning|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	condensed chromosome|nucleolus|nucleoplasm|NURF complex|RSF complex	ATP binding|ATPase activity|DNA binding|helicase activity|nucleosome binding|protein binding			skin(1)	1	all_hematologic(180;0.158)					TCAAAGAAGAATAAGCATCAA	0.383													5	83					0	0	1	0	0		G	144468627	G	G	144468627	3	3	82	1	0	0	0	0	1	0	0	0	14796	101	4	3	2825	3	SMARCA5	4	144468627	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	14701057	144468627	46685649	375	50831											
GYPA	2993	broad.mit.edu	37	chr4	144918742	144918742	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaagaggatcgttccaataAtaccagccatcacacacaaa	17	8	5	11	1	1	1	1	0	0	1	3	2	2	2	3	1	2	1	3	1	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:144918742A>T	uc003ijn.2	-	5	433	c.317T>A	c.(316-318)ATT>AAT	p.I106N	GYPB_uc011chs.1_Intron|GYPB_uc011cht.1_RNA|GYPB_uc011chu.1_RNA|GYPB_uc010ioo.1_Intron|GYPB_uc010iop.2_RNA|GYPB_uc011chv.1_RNA|GYPB_uc011chw.1_Intron|GYPB_uc011chx.1_RNA|GYPB_uc003ijm.1_Missense_Mutation_p.I74N|GYPB_uc011chy.1_RNA|GYPB_uc011chz.1_Intron			P02724	GLPA_HUMAN	SubName: Full=Glycophorin MiX; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					interspecies interaction between organisms	membrane fraction	receptor activity			central_nervous_system(2)	2	all_hematologic(180;0.15)					CGTTCCAATAATACCAGCCAT	0.348													12	39					0	0	1	0	0		T	144918742	T	T	144918742	3	4	82	1	0	0	0	0	1	0	0	0	6924	101	4	5		5	GYPA	4	144918742	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	450115	144918742	46235534	376	50832											
NR3C2	4306	broad.mit.edu	37	chr4	149356384	149356384	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggaactcaggtgttggaaAgattggtctctagccgatcg	11	10	13	7	2	2	1	1	0	1	1	4	4	2	3	1	4	2	1	1	4	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:149356384A>C	uc003ilj.3	-	2	1963	c.1629T>G	c.(1627-1629)TCT>TCG	p.S543S	NR3C2_uc003ilk.3_Silent_p.S543S|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	543	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	GGTGTTGGAAAGATTGGTCTC	0.473													12	105					0	0	1	0	0		C	149356384	C	C	149356384	2	2	82	1	0	0	0	0	0	0	0	1	10650	59	3	5		5	NR3C2	4	149356384	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4437642	149356384	41797892	377	50833											
KIAA0922	23240	broad.mit.edu	37	chr4	154553945	154553945	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaaactgcaccctggagaAcggcgtgccttgtgtgattc	8	11	11	11	2	0	2	0	1	0	1	1	3	0	2	2	2	4	1	2	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:154553945A>C	uc003inm.3	+	32	4332	c.4280A>C	c.(4279-4281)AAC>ACC	p.N1427T	KIAA0922_uc010ipp.2_Missense_Mutation_p.N1428T|KIAA0922_uc010ipq.2_Missense_Mutation_p.N1196T	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	1427	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				ACCCTGGAGAACGGCGTGCCT	0.537													20	57					0	0	1	0	0		C	154553945	C	C	154553945	3	2	82	1	0	0	0	0	1	0	0	0	8217	43	2	5	4409	5	KIAA0922	4	154553945	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5197561	154553945	36600331	378	50834											
DCHS2	54798	broad.mit.edu	37	chr4	155243495	155243495	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacattacctgaatattaacAactgcctgtccttgaagagg	14	11	7	9	0	0	3	0	2	0	1	1	3	1	3	3	1	5	0	3	1	7	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:155243495A>T	uc003inw.2	-	13	2799	c.2799T>A	c.(2797-2799)GTT>GTA	p.V933V		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	933	Cadherin 7.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GAATATTAACAACTGCCTGTC	0.353													14	56					0	0	1	0	0		T	155243495	T	T	155243495	2	4	82	1	0	0	0	0	0	0	0	1	4291	117	5	5		5	DCHS2	4	155243495	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	689550	155243495	35910781	379	50835											
NPY2R	4887	broad.mit.edu	37	chr4	156135225	156135225	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagcttatagatagtaccaAgctgattgaggtacaagttg	14	11	11	5	0	0	4	0	2	0	2	0	4	0	4	1	1	4	5	1	1	7	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:156135225A>G	uc003ioq.2	+	2	629	c.134A>G	c.(133-135)AAG>AGG	p.K45R	NPY2R_uc003ior.2_Missense_Mutation_p.K45R	NM_000910	NP_000901	P49146	NPY2R_HUMAN	neuropeptide Y receptor Y2	45	Extracellular (Potential).				cardiac left ventricle morphogenesis|inhibition of adenylate cyclase activity by G-protein signaling pathway|locomotory behavior|outflow tract morphogenesis	integral to plasma membrane	calcium channel regulator activity			lung(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0854)				GATAGTACCAAGCTGATTGAG	0.468													18	45					0	0	1	0	0		G	156135225	G	G	156135225	3	3	82	1	0	0	0	0	1	0	0	0	10628	72	3	3	136	3	NPY2R	4	156135225	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	891730	156135225	35019051	380	50836											
HMGB2	3148	broad.mit.edu	37	chr4	174254250	174254250	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggagcattggggtcctttTtcttccccttcttatcacct	5	17	7	12	0	3	0	1	0	2	0	5	1	5	1	4	3	1	1	4	3	2	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:174254250T>G	uc011ckc.1	-	2	386	c.266A>C	c.(265-267)AAA>ACA	p.K89T	HMGB2_uc003ita.3_Missense_Mutation_p.K89T|HMGB2_uc003itb.2_Missense_Mutation_p.K89T|HMGB2_uc003itc.2_Missense_Mutation_p.K89T	NM_001130689	NP_001124161	P26583	HMGB2_HUMAN	high-mobility group box 2	89					base-excision repair, DNA ligation|cell chemotaxis|cellular response to lipopolysaccharide|DNA fragmentation involved in apoptotic nuclear change|DNA topological change|negative regulation of transcription, DNA-dependent|nucleosome assembly|phosphatidylinositol-mediated signaling|positive regulation of DNA binding|positive regulation of endothelial cell proliferation|positive regulation of erythrocyte differentiation|positive regulation of megakaryocyte differentiation|positive regulation of nuclease activity|positive regulation of transcription from RNA polymerase II promoter|V(D)J recombination	condensed chromosome|extracellular space|nucleolus|nucleoplasm|perinuclear region of cytoplasm|protein complex	chemoattractant activity|damaged DNA binding|DNA bending activity|double-stranded DNA binding|RAGE receptor binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding|transcription regulatory region DNA binding				0		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;9.58e-18)|Epithelial(43;3.75e-16)|OV - Ovarian serous cystadenocarcinoma(60;6.24e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		GGGGTCCTTTTTCTTCCCCTT	0.398													33	176					0	0	1	0	0		G	174254250	G	G	174254250	3	3	82	1	0	0	0	0	1	0	0	0	7242	1841	64	5	375	5	HMGB2	4	174254250	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	18119025	174254250	16900026	381	50837											
FBXO8	26269	broad.mit.edu	37	chr4	175183927	175183927	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacttacccttgccagagaAgttcatcattcgcaaggtcc	11	11	7	12	1	2	1	2	0	0	1	4	2	3	1	3	1	3	2	3	1	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:175183927A>C	uc003itp.2	-	2	1167	c.317T>G	c.(316-318)CTT>CGT	p.L106R	FBXO8_uc003itq.2_Missense_Mutation_p.L65R	NM_012180	NP_036312	Q9NRD0	FBX8_HUMAN	F-box only protein 8	106	F-box.				regulation of ARF protein signal transduction|ubiquitin-dependent protein catabolic process	cytoplasm|ubiquitin ligase complex	ARF guanyl-nucleotide exchange factor activity			breast(2)	2		Prostate(90;0.00201)|Melanoma(52;0.012)|Renal(120;0.0183)|all_neural(102;0.0887)|all_hematologic(60;0.107)		all cancers(43;7.29e-18)|Epithelial(43;1.85e-15)|OV - Ovarian serous cystadenocarcinoma(60;5.62e-09)|GBM - Glioblastoma multiforme(59;0.00115)|STAD - Stomach adenocarcinoma(60;0.00299)|LUSC - Lung squamous cell carcinoma(193;0.1)		TTGCCAGAGAAGTTCATCATT	0.383													11	39					0	0	1	0	0		C	175183927	C	C	175183927	3	2	82	1	0	0	0	0	1	0	0	0	5775	72	3	5	662	5	FBXO8	4	175183927	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	929677	175183927	15970349	382	50838											
STOX2	56977	broad.mit.edu	37	chr4	184938289	184938289	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcaagcattgttgaaagtaAccgtcgtcagaaccccgctt	12	10	8	11	3	2	2	2	1	0	1	3	2	2	2	3	0	3	4	3	0	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:184938289A>C	uc003ivz.1	+	4	4068	c.2633A>C	c.(2632-2634)AAC>ACC	p.N878T	uc003iwb.1_5'Flank|STOX2_uc003iwa.1_3'UTR	NM_020225	NP_064610	Q9P2F5	STOX2_HUMAN	storkhead box 2	878					embryo development|maternal placenta development						0		all_lung(41;1.89e-12)|Lung NSC(41;3.48e-12)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|all_hematologic(60;0.027)|Prostate(90;0.0283)		all cancers(43;2.85e-26)|Epithelial(43;2.27e-22)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-10)|Colorectal(24;8.23e-06)|GBM - Glioblastoma multiforme(59;1.64e-05)|STAD - Stomach adenocarcinoma(60;3.6e-05)|COAD - Colon adenocarcinoma(29;4.37e-05)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.227)		GTTGAAAGTAACCGTCGTCAG	0.493													14	31					0	0	1	0	0		C	184938289	C	C	184938289	3	2	82	1	0	0	0	0	1	0	0	0	15345	43	2	5	2647	5	STOX2	4	184938289	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	9754362	184938289	6215987	383	50839											
ENPP6	133121	broad.mit.edu	37	chr4	185012349	185012349	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttatgcaagcaggaagagaAgaatcagtgccagggcacag	15	5	14	7	0	1	2	1	0	0	2	1	4	1	3	1	2	3	4	1	2	5	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr4:185012349A>T	uc003iwc.2	-	8	1446	c.1304T>A	c.(1303-1305)CTT>CAT	p.L435H		NM_153343	NP_699174	Q6UWR7	ENPP6_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	435	Helical; (Potential).				lipid catabolic process	extracellular region|integral to membrane|plasma membrane				central_nervous_system(1)	1		all_lung(41;7.99e-12)|Lung NSC(41;1.46e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;4.98e-27)|Epithelial(43;3.15e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.09e-12)|Colorectal(24;3.78e-05)|STAD - Stomach adenocarcinoma(60;4.5e-05)|COAD - Colon adenocarcinoma(29;0.000154)|GBM - Glioblastoma multiforme(59;0.000167)|BRCA - Breast invasive adenocarcinoma(30;0.000378)|LUSC - Lung squamous cell carcinoma(40;0.0151)		CAGGAAGAGAAGAATCAGTGC	0.527													23	77					0	0	1	0	0		T	185012349	T	T	185012349	3	4	82	1	0	0	0	0	1	0	0	0	5142	72	3	5	22	5	ENPP6	4	185012349	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	74060	185012349	6141927	384	50840											
AHRR	57491	broad.mit.edu	37	chr5	432582	432582	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgtgttcttcacagagtaAaagccaccaccagtctgtgc	10	11	8	12	0	4	1	1	0	3	1	4	1	4	1	3	0	2	2	3	0	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:432582A>C	uc003jav.2	+	10	1023	c.979A>C	c.(979-981)AAA>CAA	p.K327Q	AHRR_uc003jaw.2_Missense_Mutation_p.K305Q|AHRR_uc010isy.2_Missense_Mutation_p.K155Q|AHRR_uc010isz.2_Missense_Mutation_p.K305Q|AHRR_uc003jax.2_Missense_Mutation_p.K68Q|AHRR_uc003jay.2_Missense_Mutation_p.K165Q|AHRR_uc003jaz.2_5'UTR	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	309					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			TCACAGAGTAAAAGCCACCAC	0.398													6	61					0	0	1	0	0		C	432582	C	C	432582	3	2	82	1	0	0	0	0	1	0	0	0	417	15	1	5	1017	5	AHRR	5	432582	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08		432582	180482678	385	50841											
ADAMTS16	170690	broad.mit.edu	37	chr5	5319213	5319213	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccacaagttctacggcAagcagtgctgcaagacttgc	11	7	11	12	1	1	1	0	0	1	1	1	1	1	1	1	1	6	6	1	1	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:5319213A>G	uc003jdl.2	+	23	3775	c.3637A>G	c.(3637-3639)AAG>GAG	p.K1213E		NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1213	PLAC.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GTTCTACGGCAAGCAGTGCTG	0.517													4	15					0	0	1	0	0		G	5319213	G	G	5319213	3	3	82	1	0	0	0	0	1	0	0	0	261	131	5	3	3727	3	ADAMTS16	5	5319213	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4886631	5319213	175596047	386	50842											
TAS2R1	50834	broad.mit.edu	37	chr5	9629253	9629253	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacttctctctcactgacAgcacttactgtggaggagga	10	10	9	12	0	2	1	1	1	2	0	4	4	2	4	1	3	3	1	1	3	2	2	rs140442651	by1000genomes	TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:9629253A>C	uc003jem.1	-	1	1211	c.892T>G	c.(892-894)TGT>GGT	p.C298G		NM_019599	NP_062545	Q9NYW7	TA2R1_HUMAN	taste receptor T2R1	298	Cytoplasmic (Potential).				chemosensory behavior|sensory perception of taste	integral to membrane	taste receptor activity			ovary(3)	3						TCTCACTGACAGCACTTACTG	0.413													18	68					0	0	1	0	0		C	9629253	C	C	9629253	3	2	82	1	0	0	0	0	1	0	0	0	15590	188	7	5	11	5	TAS2R1	5	9629253	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4310040	9629253	171286007	387	50843											
DNAH5	1767	broad.mit.edu	37	chr5	13876847	13876847	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaactaattttacaatctcTttgttttcagaaacattctt	13	18	3	7	0	3	1	1	0	2	1	4	2	3	1	0	0	3	1	0	0	5	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:13876847T>C	uc003jfd.2	-	22	3384	c.3342A>G	c.(3340-3342)AAA>AAG	p.K1114K		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1114	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTACAATCTCTTTGTTTTCAG	0.368									Kartagener_syndrome				10	69					0	0	1	0	0		C	13876847	C	C	13876847	2	2	82	1	0	0	0	0	0	0	0	1	4610	1606	56	3		3	DNAH5	5	13876847	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4247594	13876847	167038413	388	50844											
DNAH5	1767	broad.mit.edu	37	chr5	13894825	13894825	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccaggtcagtgcagccaAgccaggttggagagcttcat	9	9	13	10	0	2	1	2	0	0	1	3	2	3	1	3	3	4	3	3	3	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:13894825A>C	uc003jfd.2	-	16	2407	c.2365T>G	c.(2365-2367)TTG>GTG	p.L789V		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	789	Potential.|Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGTGCAGCCAAGCCAGGTTGG	0.413									Kartagener_syndrome				33	96					0	0	1	0	0		C	13894825	C	C	13894825	3	2	82	1	0	0	0	0	1	0	0	0	4610	69	3	5	11765	5	DNAH5	5	13894825	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	17978	13894825	167020435	389	50845											
FAM105A	54491	broad.mit.edu	37	chr5	14602336	14602336	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcacattaaatgtgttcgAcaagtaaggagagataacta	17	10	8	6	1	1	1	1	0	0	1	2	4	1	2	0	1	1	2	0	1	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:14602336A>C	uc003jfj.2	+	5	506	c.393A>C	c.(391-393)CGA>CGC	p.R131R		NM_019018	NP_061891	Q9NUU6	F105A_HUMAN	hypothetical protein LOC54491	131										ovary(1)	1	Lung NSC(4;0.00592)					AATGTGTTCGACAAGTAAGGA	0.353													9	32					0	0	1	0	0		C	14602336	C	C	14602336	2	2	82	1	0	0	0	0	0	0	0	1	5398	262	10	5		5	FAM105A	5	14602336	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	707511	14602336	166312924	390	50846											
CDH9	1007	broad.mit.edu	37	chr5	26890056	26890056	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagggatgtggctactttgTtttgggttatctgcaacgag	8	14	13	6	1	1	0	0	0	1	0	1	2	1	1	0	3	3	4	0	3	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:26890056T>G	uc003jgs.1	-	9	1570	c.1401A>C	c.(1399-1401)AAA>AAC	p.K467N	CDH9_uc011cnv.1_Missense_Mutation_p.K60N	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	467	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						GGCTACTTTGTTTTGGGTTAT	0.383													42	75					0	0	1	0	0		G	26890056	G	G	26890056	3	3	82	1	0	0	0	0	1	0	0	0	3120	1722	60	5	984	5	CDH9	5	26890056	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	12287720	26890056	154025204	391	50847											
ADAMTS12	81792	broad.mit.edu	37	chr5	33684103	33684103	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggcttctgcttggcaagTtgtgcctctcccacttctcc	5	13	9	14	0	3	1	0	0	3	1	5	1	3	1	3	2	2	4	3	2	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:33684103T>G	uc003jia.1	-	4	855	c.692A>C	c.(691-693)AAC>ACC	p.N231T	ADAMTS12_uc010iuq.1_Missense_Mutation_p.N231T	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	231					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GCTTGGCAAGTTGTGCCTCTC	0.493										HNSCC(64;0.19)			19	49					0	0	1	0	0		G	33684103	G	G	33684103	3	3	82	1	0	0	0	0	1	0	0	0	257	1725	60	5	4176	5	ADAMTS12	5	33684103	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	6794047	33684103	147231157	392	50848											
SPEF2	79925	broad.mit.edu	37	chr5	35649522	35649522	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaaggatctccaagcaaaAgaaaggtgagatgtgagcta	19	6	11	5	0	1	3	0	2	1	2	2	5	1	4	1	2	2	2	1	2	7	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:35649522A>G	uc003jjo.2	+	6	897	c.786A>G	c.(784-786)AAA>AAG	p.K262K	SPEF2_uc003jjn.1_Silent_p.K262K|SPEF2_uc003jjq.3_Silent_p.K262K	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	262					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TCCAAGCAAAAGAAAGGTGAG	0.323													31	80					0	0	1	0	0		G	35649522	G	G	35649522	2	3	82	1	0	0	0	0	0	0	0	1	15060	69	3	3		3	SPEF2	5	35649522	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1965419	35649522	145265738	393	50849											
NIPBL	25836	broad.mit.edu	37	chr5	37010309	37010309	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaaggactctaatgcagaAgaagattcaaataaaaaagt	21	7	9	4	0	2	4	1	0	1	4	2	6	2	5	0	1	1	1	0	1	8	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:37010309A>C	uc003jkl.3	+	21	5041	c.4542A>C	c.(4540-4542)GAA>GAC	p.E1514D	NIPBL_uc003jkk.3_Missense_Mutation_p.E1514D	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1514					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			CTAATGCAGAAGAAGATTCAA	0.318													15	49					0	0	1	0	0		C	37010309	C	C	37010309	3	2	82	1	0	0	0	0	1	0	0	0	10447	69	3	5	4620	5	NIPBL	5	37010309	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1360787	37010309	143904951	394	50850											
C5orf42	65250	broad.mit.edu	37	chr5	37179471	37179471	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttattgacttacttcttctaActgctgtggtaaagtcatca	10	17	6	8	0	4	1	2	1	2	0	4	1	4	1	0	1	3	2	0	1	5	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:37179471A>C	uc011cpa.1	-	29	6043	c.5812T>G	c.(5812-5814)TTA>GTA	p.L1938V	C5orf42_uc011coy.1_Missense_Mutation_p.L438V|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.L1013V	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1938										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			ACTTCTTCTAACTGCTGTGGT	0.299													9	55					0	0	1	0	0		C	37179471	C	C	37179471	3	2	82	1	0	0	0	0	1	0	0	0	2304	40	2	5	3877	5	C5orf42	5	37179471	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	169162	37179471	143735789	395	50851											
LIFR	3977	broad.mit.edu	37	chr5	38484884	38484884	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagaactattaccattctcGtttccgatagcaaaggatac	13	11	7	10	2	1	1	0	0	1	1	3	3	2	2	2	1	4	3	2	1	6	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:38484884G>A	uc010ive.1	-	18	2916	c.2584C>T	c.(2584-2586)CGA>TGA	p.R862*	LIFR_uc003jli.2_Nonsense_Mutation_p.R862*	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	862	Cytoplasmic (Potential).				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					TACCATTCTCGTTTCCGATAG	0.363			T	PLAG1	salivary adenoma								5	43					0	0	1	0	0		A	38484884	A	A	38484884	4	1	82	1	0	0	0	0	0	1	0	0	8796	1153	40	1	721	1	LIFR	5	38484884	Nonsense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1305413	38484884	142430376	396	50852											
MGC42105	167359	broad.mit.edu	37	chr5	43245956	43245956	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcggcgcgacagtgtagaaAgtggctgtcagaccgagagt	11	7	15	8	4	1	3	1	0	0	3	2	5	1	3	1	2	0	2	1	2	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:43245956A>C	uc003jno.2	+	2	960	c.79A>C	c.(79-81)AGT>CGT	p.S27R		NM_153361	NP_699192	Q8IY84	NIM1_HUMAN	serine/threonine-protein kinase NIM1	27							ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|stomach(1)|large_intestine(1)|breast(1)	9						CAGTGTAGAAAGTGGCTGTCA	0.597													16	122					0	0	1	0	0		C	43245956	C	C	43245956	3	2	82	1	0	0	0	0	1	0	0	0	9570	72	3	5	81	5	MGC42105	5	43245956	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4761072	43245956	137669304	397	50853											
IPO11	51194	broad.mit.edu	37	chr5	61762980	61762980	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttctggaatttataattTtgcctgctctctgtggaatc	8	17	8	8	0	2	0	0	0	2	0	4	2	2	2	1	2	3	2	1	2	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:61762980T>G	uc003jtc.2	+	6	729	c.539T>G	c.(538-540)TTT>TGT	p.F180C	IPO11_uc011cqr.1_Missense_Mutation_p.F220C|IPO11_uc003jtb.1_Missense_Mutation_p.F180C	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	180						cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		ATTTATAATTTTGCCTGCTCT	0.343													5	64					0	0	1	0	0		G	61762980	G	G	61762980	3	3	82	1	0	0	0	0	1	0	0	0	7809	1841	64	5	681	5	IPO11	5	61762980	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	18517024	61762980	119152280	398	50854											
SLC30A5	64924	broad.mit.edu	37	chr5	68423839	68423839	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttatttgacagatacagaaAattgaaggattaatatcata	18	14	6	3	0	1	4	1	2	0	2	1	5	1	5	0	1	1	0	0	1	8	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:68423839A>C	uc003jvh.2	+	15	2208	c.2007A>C	c.(2005-2007)AAA>AAC	p.K669N	SLC30A5_uc003jvj.2_RNA|SLC30A5_uc003jvk.2_Intron	NM_022902	NP_075053	Q8TAD4	ZNT5_HUMAN	solute carrier family 30 (zinc transporter),	669	Cytoplasmic (Potential).				cellular zinc ion homeostasis|cobalt ion transport|regulation of proton transport|response to zinc ion	apical plasma membrane|Golgi apparatus|integral to plasma membrane|membrane fraction|secretory granule membrane	zinc ion binding|zinc ion transmembrane transporter activity			central_nervous_system(1)	1		Lung NSC(167;0.000986)|Prostate(74;0.00809)|Colorectal(97;0.0508)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		AGATACAGAAAATTGAAGGAT	0.373													14	145					0	0	1	0	0		C	68423839	C	C	68423839	3	2	82	1	0	0	0	0	1	0	0	0	14583	11	1	5	2153	5	SLC30A5	5	68423839	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6660859	68423839	112491421	399	50855											
RAD17	5884	broad.mit.edu	37	chr5	68687699	68687699	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaaaaaggaatgtctttaAaatcagatgctgtgctgtca	15	11	10	5	0	3	1	2	0	1	1	3	3	3	3	0	2	2	2	0	2	6	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:68687699A>T	uc003jwo.2	+	10	1143	c.1081A>T	c.(1081-1083)AAA>TAA	p.K361*	RAD17_uc003jwg.2_Nonsense_Mutation_p.K350*|RAD17_uc003jwh.2_Nonsense_Mutation_p.K350*|RAD17_uc003jwi.2_Nonsense_Mutation_p.K350*|RAD17_uc003jwj.2_Nonsense_Mutation_p.K350*|RAD17_uc003jwk.2_Nonsense_Mutation_p.K350*|RAD17_uc003jwl.2_Nonsense_Mutation_p.K350*|RAD17_uc003jwm.2_Nonsense_Mutation_p.K185*|RAD17_uc003jwn.2_Nonsense_Mutation_p.K264*|RAD17_uc003jwp.2_5'Flank	NM_133339	NP_579917	O75943	RAD17_HUMAN	RAD17 homolog isoform 2	361					cell cycle|DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint|mitotic cell cycle checkpoint|negative regulation of DNA replication|regulation of phosphorylation	nucleoplasm	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Lung NSC(167;5.19e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;9.36e-57)|Epithelial(20;1.21e-52)|all cancers(19;3.34e-48)|Lung(70;0.0183)		AATGTCTTTAAAATCAGATGC	0.308								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					35	69					0	0	1	0	0		T	68687699	T	T	68687699	4	4	82	1	0	0	0	0	0	1	0	0	13004	15	1	5	1132	5	RAD17	5	68687699	Nonsense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	263860	68687699	112227561	400	50856											
BDP1	55814	broad.mit.edu	37	chr5	70818663	70818663	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagagtctgctttggcaaaAatagatgcggaattagaaga	17	9	11	4	1	1	4	0	0	1	4	1	5	1	5	0	2	2	2	0	2	7	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:70818663A>C	uc003kbp.1	+	24	5537	c.5274A>C	c.(5272-5274)AAA>AAC	p.K1758N	BDP1_uc003kbo.2_Missense_Mutation_p.K1758N|BDP1_uc003kbq.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1758					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		CTTTGGCAAAAATAGATGCGG	0.383													19	62					0	0	1	0	0		C	70818663	C	C	70818663	3	2	82	1	0	0	0	0	1	0	0	0	1396	11	1	5	5368	5	BDP1	5	70818663	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2130964	70818663	110096597	401	50857											
ZNF366	167465	broad.mit.edu	37	chr5	71756638	71756638	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttcacgtccaccctctccAccttctgcttggtctcctcg	3	13	6	19	3	4	0	1	0	3	0	8	0	5	0	5	1	1	2	5	1	0	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:71756638A>G	uc003kce.1	-	2	872	c.686T>C	c.(685-687)GTG>GCG	p.V229A		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	229					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		CACCCTCTCCACCTTCTGCTT	0.647													29	92					0	0	1	0	0		G	71756638	G	G	71756638	3	3	82	1	0	0	0	0	1	0	0	0	17895	159	6	3	1564	3	ZNF366	5	71756638	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	937975	71756638	109158622	402	50858											
POLK	51426	broad.mit.edu	37	chr5	74872668	74872668	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagtcttgatgaagcctacTtgaatataacaaagcactta	15	12	7	7	0	1	4	0	4	1	0	1	4	1	4	1	0	4	1	1	0	7	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:74872668T>G	uc003kdw.2	+	6	700	c.604T>G	c.(604-606)TTG>GTG	p.L202V	POLK_uc003kdx.2_RNA|POLK_uc003kdy.2_RNA|POLK_uc003kea.2_Missense_Mutation_p.L202V|POLK_uc003keb.2_Missense_Mutation_p.L202V|POLK_uc010izq.2_Missense_Mutation_p.L202V|POLK_uc003kec.2_Missense_Mutation_p.L112V|POLK_uc010izr.2_RNA|POLK_uc010izs.2_RNA|POLK_uc003ked.2_Missense_Mutation_p.L112V|POLK_uc003kee.2_Missense_Mutation_p.L202V|POLK_uc003kef.2_Missense_Mutation_p.L112V	NM_016218	NP_057302	Q9UBT6	POLK_HUMAN	DNA-directed DNA polymerase kappa	202	UmuC.				DNA replication|nucleotide-excision repair, DNA gap filling	nucleus	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|kidney(2)	4		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;2.9e-54)|all cancers(79;1.27e-42)		TGAAGCCTACTTGAATATAAC	0.333								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					12	30					0	0	1	0	0		G	74872668	G	G	74872668	3	3	82	1	0	0	0	0	1	0	0	0	12223	1606	56	5	622	5	POLK	5	74872668	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3116030	74872668	106042592	403	50859											
F2R	2149	broad.mit.edu	37	chr5	76029324	76029324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catatacaaaaagctgttaaCttaggaaaagggactgctgg	16	9	10	6	0	0	0	0	0	0	0	0	2	0	2	0	3	4	3	0	3	8	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:76029324C>T	uc003ken.3	+	2	1539	c.1274C>T	c.(1273-1275)ACT>ATT	p.T425I		NM_001992	NP_001983	P25116	PAR1_HUMAN	coagulation factor II receptor precursor	425	Cytoplasmic (Potential).				activation of caspase activity|anatomical structure morphogenesis|connective tissue replacement involved in inflammatory response wound healing|negative regulation of cell proliferation|platelet activation|positive regulation of blood coagulation|positive regulation of cell migration|positive regulation of collagen biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of JAK-STAT cascade|positive regulation of MAPKKK cascade|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of transcription, DNA-dependent|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	caveola|extracellular region|Golgi apparatus|integral to plasma membrane|platelet dense tubular network	receptor binding|thrombin receptor activity			ovary(3)	3		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Prostate(461;0.00955)|Ovarian(174;0.0129)		all cancers(79;4.43e-43)	Streptokinase(DB00086)	AAGCTGTTAACTTAGGAAAAG	0.393													6	50					0	0	1	0	0		T	76029324	T	T	76029324	3	4	82	1	0	0	0	0	1	0	0	0	5351	565	20	4	1280	4	F2R	5	76029324	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	1156656	76029324	104885936	404	50860											
WDR41	55255	broad.mit.edu	37	chr5	76732142	76732142	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagctccagtgaacatgaagTagcattttcttgctgctttt	10	15	8	8	0	1	2	0	2	1	0	2	2	2	2	1	0	5	5	1	0	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:76732142T>C	uc003kff.1	-	12	1458	c.1171A>G	c.(1171-1173)ACT>GCT	p.T391A	WDR41_uc011csy.1_Missense_Mutation_p.T333A|WDR41_uc011csz.1_Missense_Mutation_p.T336A	NM_018268	NP_060738	Q9HAD4	WDR41_HUMAN	WD repeat domain 41	391											0		all_lung(232;0.000961)|Lung NSC(167;0.0011)|Ovarian(174;0.0105)|Prostate(461;0.059)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-50)|Epithelial(54;2.04e-44)|all cancers(79;6.84e-40)		GAACATGAAGTAGCATTTTCT	0.398													17	49					0	0	1	0	0		C	76732142	C	C	76732142	3	2	82	1	0	0	0	0	1	0	0	0	17320	1638	57	3	216	3	WDR41	5	76732142	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	702818	76732142	104183118	405	50861											
BHMT	635	broad.mit.edu	37	chr5	78426886	78426886	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagcagaaagaagccacaActgagcagcagctgaaagag	17	3	12	9	0	0	5	0	2	0	3	0	5	0	5	1	0	7	5	1	0	4	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:78426886A>G	uc003kfu.3	+	8	1273	c.1168A>G	c.(1168-1170)ACT>GCT	p.T390A	BHMT_uc011cti.1_Missense_Mutation_p.T237A	NM_001713	NP_001704	Q93088	BHMT1_HUMAN	betaine-homocysteine methyltransferase	390					protein methylation|regulation of homocysteine metabolic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)	AGAAGCCACAACTGAGCAGCA	0.463													34	122					0	0	1	0	0		G	78426886	G	G	78426886	3	3	82	1	0	0	0	0	1	0	0	0	1426	43	2	3	1198	3	BHMT	5	78426886	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1694744	78426886	102488374	406	50862											
CMYA5	202333	broad.mit.edu	37	chr5	79025083	79025083	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagatgttccaacaaacaaAaaaggcagtcctttaacttc	17	9	5	10	0	0	1	0	0	0	1	3	1	2	1	2	1	3	2	2	1	7	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:79025083A>C	uc003kgc.2	+	2	567	c.495A>C	c.(493-495)AAA>AAC	p.K165N		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	165						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CAACAAACAAAAAAGGCAGTC	0.388													7	42					0	0	1	0	0		C	79025083	C	C	79025083	3	2	82	1	0	0	0	0	1	0	0	0	3593	11	1	5	501	5	CMYA5	5	79025083	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	598197	79025083	101890177	407	50863											
THBS4	7060	broad.mit.edu	37	chr5	79372825	79372825	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctggtgccccctggaccAgacaactgccggctggtccc	6	6	12	17	1	0	1	0	0	0	1	1	3	1	2	6	4	3	1	6	4	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:79372825A>G	uc003kgh.2	+	17	2363	c.2040A>G	c.(2038-2040)CCA>CCG	p.P680P	uc003kgi.3_Intron	NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	680	TSP type-3 7.				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		CCCCTGGACCAGACAACTGCC	0.582													41	156					0	0	1	0	0		G	79372825	G	G	79372825	2	3	82	1	0	0	0	0	0	0	0	1	15881	175	7	3		3	THBS4	5	79372825	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	347742	79372825	101542435	408	50864											
SPZ1	84654	broad.mit.edu	37	chr5	79616290	79616290	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttaaaaatatggcaggtTttgaagagaagatcacagaa	17	11	9	4	0	2	4	1	1	1	3	2	5	2	4	0	2	0	2	0	2	7	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:79616290T>G	uc003kgn.2	+	1	501	c.256T>G	c.(256-258)TTT>GTT	p.F86V	uc011ctk.1_RNA	NM_032567	NP_115956	Q9BXG8	SPZ1_HUMAN	spermatogenic leucine zipper 1	86	Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(1)	1		Lung NSC(167;0.0393)|all_lung(232;0.0428)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;3.43e-47)|Epithelial(54;2.25e-41)|all cancers(79;4.19e-36)		TATGGCAGGTTTTGAAGAGAA	0.338													8	78					0	0	1	0	0		G	79616290	G	G	79616290	3	3	82	1	0	0	0	0	1	0	0	0	15152	1841	64	5	258	5	SPZ1	5	79616290	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	243465	79616290	101298970	409	50865											
TRIM36	55521	broad.mit.edu	37	chr5	114480405	114480405	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acataattcacagtacatgtTtattctctctgtttcatgtt	10	19	4	8	0	4	0	2	0	2	0	5	0	4	0	0	0	1	4	0	0	3	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:114480405T>G	uc003kqs.2	-	4	1170	c.661A>C	c.(661-663)AAC>CAC	p.N221H	TRIM36_uc011cwc.1_Missense_Mutation_p.N209H|TRIM36_uc003kqt.2_Missense_Mutation_p.N66H	NM_018700	NP_061170	Q9NQ86	TRI36_HUMAN	tripartite motif-containing 36 isoform 1	221	B box-type 2.					acrosomal vesicle|cytoskeleton	ligase activity|zinc ion binding			ovary(4)|lung(2)|breast(2)	8		all_cancers(142;0.00133)|all_epithelial(76;2.41e-05)|Prostate(80;0.00955)|Ovarian(225;0.0443)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;3.62e-08)|Epithelial(69;7.69e-08)|all cancers(49;9.33e-06)		CAGTACATGTTTATTCTCTCT	0.378													10	82					0	0	1	0	0		G	114480405	G	G	114480405	3	3	82	1	0	0	0	0	1	0	0	0	16536	1841	64	5	1553	5	TRIM36	5	114480405	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	34864115	114480405	66434855	410	50866											
ATG12	9140	broad.mit.edu	37	chr5	115173356	115173356	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccacaagtttaagaaacTttttgatgaagtcaatgagt	15	12	9	5	0	1	4	1	3	0	1	1	4	1	4	1	1	1	1	1	1	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:115173356T>G	uc003krh.2	-	2	519	c.410A>C	c.(409-411)AAG>ACG	p.K137T	ATG12_uc003kri.2_Intron|ATG12_uc003krj.2_RNA	NM_004707	NP_004698	O94817	ATG12_HUMAN	APG12 autophagy 12-like	90					autophagic vacuole assembly|negative regulation of type I interferon production	pre-autophagosomal structure membrane	protein binding				0		all_cancers(142;0.00377)|all_epithelial(76;0.000129)|Prostate(80;0.0132)|Ovarian(225;0.0776)|Lung NSC(810;0.245)		OV - Ovarian serous cystadenocarcinoma(64;7.59e-08)|Epithelial(69;7.05e-07)|all cancers(49;3.11e-05)		TTTAAGAAACTTTTTGATGAA	0.398													11	83					0	0	1	0	0		G	115173356	G	G	115173356	3	3	82	1	0	0	0	0	1	0	0	0	1091	1609	56	5	165	5	ATG12	5	115173356	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	692951	115173356	65741904	411	50867											
DMXL1	1657	broad.mit.edu	37	chr5	118502338	118502339	+	Frame_Shift_Ins	INS	-	T	T																															aaaacaccaggatgacacagINSttttttggacacaattttga																										TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:118502338_118502339insT	uc003ksd.2	+	22	5179_5180	c.4998_4999insT	c.(4996-5001)CAGTTTfs	p.Q1666fs	DMXL1_uc010jcl.1_Frame_Shift_Ins_p.Q1666fs	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1666_1667										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		GGATGACACAGTTTTTTGGACA	0.327													30	61	---	---	---	---						.	T	118502339	T	T	118502338	7	5	82	1	0	1	1	0	0	0	0	0	4600	1020	36	0	5084	0	DMXL1	5	118502338	Frame_Shift_Ins	INS	-	TCGA-BR-8589-01A-11D-2394-08	3328982	118502338	62412922	412	50868											
HSD17B4	3295	broad.mit.edu	37	chr5	118829639	118829640	+	Missense_Mutation	DNP	AA	TG	TG																															cagcaagcctcagagtatccAaggtaaagagagtccccgtc																										TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:118829639_118829640AA>TG	uc003ksj.2	+	11	989_990	c.866_867AA>TG	c.(865-867)CAA>CTG	p.Q289L	HSD17B4_uc011cwg.1_Missense_Mutation_p.Q265L|HSD17B4_uc011cwh.1_Missense_Mutation_p.Q271L|HSD17B4_uc011cwi.1_Missense_Mutation_p.Q314L|HSD17B4_uc003ksk.3_Missense_Mutation_p.Q142L|HSD17B4_uc011cwj.1_Missense_Mutation_p.Q142L|HSD17B4_uc010jcn.1_5'UTR	NM_000414	NP_000405	P51659	DHB4_HUMAN	hydroxysteroid (17-beta) dehydrogenase 4	289	(3R)-hydroxyacyl-CoA dehydrogenase.				bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3-hydroxyacyl-CoA dehydrogenase activity|3alpha,7alpha,12alpha-trihydroxy-5beta-cholest-24-enoyl-CoA hydratase activity|estradiol 17-beta-dehydrogenase activity|isomerase activity|long-chain-enoyl-CoA hydratase activity|protein binding|sterol binding|sterol transporter activity			ovary(1)|pancreas(1)	2		all_cancers(142;0.0206)|Prostate(80;0.0322)		OV - Ovarian serous cystadenocarcinoma(64;0.000247)|Epithelial(69;0.000849)|all cancers(49;0.0122)	NADH(DB00157)	CAGAGTATCCAAGGTAAAGAGA	0.441													6	59					0	0	1	0	0		TG	118829640	TG	TG	118829639	3	4	82	1	0	0	0	0	1	0	0	0	7402	130	5	5	908	5	HSD17B4	5	118829639	Missense_Mutation	DNP	AA	TCGA-BR-8589-01A-11D-2394-08	327301	118829639	62085621	413	50869											
LOX	4015	broad.mit.edu	37	chr5	121413231	121413231	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggttactgagcgcaggaacTtctcccggcgctgtctggtt	6	11	13	11	3	2	1	0	1	2	0	3	2	2	2	1	4	3	4	1	4	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:121413231T>G	uc003ksu.2	-	1	825	c.450A>C	c.(448-450)GAA>GAC	p.E150D	LOX_uc010jcq.2_5'Flank|LOX_uc011cwk.1_5'Flank|LOX_uc010jcr.2_5'Flank	NM_002317	NP_002308	P28300	LYOX_HUMAN	lysyl oxidase preproprotein	150					protein modification process	extracellular space	copper ion binding|protein-lysine 6-oxidase activity			lung(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)|Ovarian(225;0.0814)|Breast(839;0.143)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;2.14e-11)|OV - Ovarian serous cystadenocarcinoma(64;7.87e-10)|all cancers(49;2.49e-09)|COAD - Colon adenocarcinoma(49;0.02)		GCGCAGGAACTTCTCCCGGCG	0.647													4	53					0	0	1	0	0		G	121413231	G	G	121413231	3	3	82	1	0	0	0	0	1	0	0	0	8916	1606	56	5	831	5	LOX	5	121413231	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2583592	121413231	59502029	414	50870											
SNCAIP	9627	broad.mit.edu	37	chr5	121786636	121786636	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgaggaaggctgaccgAccaaggccgcagcccattgt	10	5	13	13	2	0	2	0	2	0	0	0	4	0	3	5	3	1	2	5	3	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:121786636A>C	uc003ksw.1	+	10	2300	c.2094A>C	c.(2092-2094)CGA>CGC	p.R698R	SNCAIP_uc011cwl.1_Silent_p.R256R|SNCAIP_uc003ksx.1_Silent_p.R745R|SNCAIP_uc003ksy.1_Silent_p.R332R|SNCAIP_uc003ksz.1_Silent_p.R332R|SNCAIP_uc010jcu.2_Silent_p.R294R|SNCAIP_uc011cwm.1_Silent_p.R332R|SNCAIP_uc003kta.1_Silent_p.R330R|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Silent_p.R392R|SNCAIP_uc010jcx.1_Silent_p.R638R|uc003ktb.1_Intron|SNCAIP_uc003ktc.1_Silent_p.R214R	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	698					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		AGGCTGACCGACCAAGGCCGC	0.552													18	55					0	0	1	0	0		C	121786636	C	C	121786636	2	2	82	1	0	0	0	0	0	0	0	1	14866	262	10	5		5	SNCAIP	5	121786636	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	373405	121786636	59128624	415	50871											
ZNF608	57507	broad.mit.edu	37	chr5	124080350	124080350	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatttattagcatccttagaAgttttactccttttcacttt	9	20	4	8	0	1	1	1	0	0	1	3	2	3	1	2	0	2	2	2	0	5	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:124080350A>C	uc003ktq.1	-	1	456	c.333T>G	c.(331-333)ACT>ACG	p.T111T	ZNF608_uc003ktr.1_RNA|ZNF608_uc003kts.1_Silent_p.T111T|ZNF608_uc003ktt.1_Silent_p.T111T	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	111						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		CATCCTTAGAAGTTTTACTCC	0.493													14	39					0	0	1	0	0		C	124080350	C	C	124080350	2	2	82	1	0	0	0	0	0	0	0	1	18059	59	3	5		5	ZNF608	5	124080350	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2293714	124080350	56834910	416	50872											
GRAMD3	65983	broad.mit.edu	37	chr5	125819177	125819177	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaatgatgaattctcagAtctggatggagtggttcaac	11	14	10	6	0	4	3	3	2	2	1	5	5	4	5	0	3	1	1	0	3	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:125819177A>T	uc003ktu.2	+	9	1188	c.758A>T	c.(757-759)GAT>GTT	p.D253V	GRAMD3_uc011cwt.1_Missense_Mutation_p.D268V|GRAMD3_uc011cwv.1_Missense_Mutation_p.D261V|GRAMD3_uc011cww.1_Missense_Mutation_p.D149V|GRAMD3_uc011cwx.1_RNA|GRAMD3_uc011cwy.1_Missense_Mutation_p.D144V|GRAMD3_uc011cwz.1_Missense_Mutation_p.D237V|GRAMD3_uc011cwu.1_Missense_Mutation_p.D237V	NM_023927	NP_076416	Q96HH9	GRAM3_HUMAN	GRAM domain containing 3 isoform 2	253										central_nervous_system(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0401)|OV - Ovarian serous cystadenocarcinoma(64;0.0604)|all cancers(49;0.108)		GAATTCTCAGATCTGGATGGA	0.428													9	42					0	0	1	0	0		T	125819177	T	T	125819177	3	4	82	1	0	0	0	0	1	0	0	0	6767	333	12	5	1006	5	GRAMD3	5	125819177	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1738827	125819177	55096083	417	50873											
SLC12A2	6558	broad.mit.edu	37	chr5	127483312	127483312	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttttgtcacttttatttaAggtaatgagtatggtgtcag	10	19	9	3	0	2	1	2	1	0	0	2	1	2	1	0	2	0	2	0	2	4	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:127483312A>G	uc003kus.2	+	11	1938	c.1774_splice	c.e11-2	p.V592_splice	SLC12A2_uc010jdf.2_Splice_Site|SLC12A2_uc010jdg.2_Splice_Site_p.V592_splice	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12						potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	CTTTTATTTAAGGTAATGAGT	0.353													8	58					0	0	1	0	0		G	127483312	G	G	127483312	5	3	82	1	0	0	0	0	0	0	1	0	14408	86	3	3	1814	3	SLC12A2	5	127483312	Splice_Site	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1664135	127483312	53431948	418	50874											
ADAMTS19	171019	broad.mit.edu	37	chr5	128862008	128862008	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaggtctagaaaaatagcAgaaagtggaagagggaaacg	18	5	13	5	1	1	3	0	0	1	3	1	5	1	5	1	3	2	1	1	3	8	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:128862008A>C	uc003kvb.1	+	4	927	c.927A>C	c.(925-927)GCA>GCC	p.A309A	ADAMTS19_uc003kvc.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	309					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		GAAAAATAGCAGAAAGTGGAA	0.353													9	45					0	0	1	0	0		C	128862008	C	C	128862008	2	2	82	1	0	0	0	0	0	0	0	1	264	175	7	5		5	ADAMTS19	5	128862008	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1378696	128862008	52053252	419	50875											
HSPA4	3308	broad.mit.edu	37	chr5	132431895	132431895	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccaatcgagaatcagctaTtatggcagatagacagagag	15	8	11	7	1	1	4	1	0	0	4	2	6	1	4	1	1	2	2	1	1	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:132431895T>G	uc003kyj.2	+	14	2037	c.1756T>G	c.(1756-1758)TTA>GTA	p.L586V		NM_002154	NP_002145	P34932	HSP74_HUMAN	heat shock 70kDa protein 4	586				NQLL -> ESAI (in Ref. 4; AAA02807).	cellular chaperone-mediated protein complex assembly|protein import into mitochondrial outer membrane|response to unfolded protein	cytoplasm|nucleus	ATP binding			lung(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GAATCAGCTATTATGGCAGAT	0.398													12	55					0	0	1	0	0		G	132431895	G	G	132431895	3	3	82	1	0	0	0	0	1	0	0	0	7428	1490	52	5	1810	5	HSPA4	5	132431895	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3569887	132431895	48483365	420	50876											
CDKL3	51265	broad.mit.edu	37	chr5	133657596	133657596	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccagatatccacaggtcTgaaacagatcagggaaaaaa	18	5	9	9	0	2	3	1	1	1	2	3	4	3	4	2	2	2	0	2	2	5	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:133657596T>C	uc003kzf.3	-	5	659	c.540_splice	c.e5-1	p.K180_splice	CDKL3_uc011cxm.1_Splice_Site|CDKL3_uc011cxn.1_Splice_Site|CDKL3_uc010jdw.2_Splice_Site|CDKL3_uc011cxo.1_Splice_Site|CDKL3_uc011cxp.1_Splice_Site|CDKL3_uc011cxq.1_Splice_Site|CDKL3_uc003kzg.3_Splice_Site_p.K180_splice|CDKL3_uc011cxr.1_Splice_Site_p.K180_splice	NM_001113575	NP_001107047	Q8IVW4	CDKL3_HUMAN	cyclin-dependent kinase-like 3 isoform 1							cytoplasm	ATP binding|cyclin-dependent protein kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCCACAGGTCTGAAACAGATC	0.328													13	26					0	0	1	0	0		C	133657596	C	C	133657596	5	2	82	1	0	0	0	0	0	0	1	0	3158	1594	55	3	1280	3	CDKL3	5	133657596	Splice_Site	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1225701	133657596	47257664	421	50877											
TXNDC15	79770	broad.mit.edu	37	chr5	134223395	134223395	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgttttagttgcagaggaAagtggtcgcttatggtcaga	10	13	13	5	1	1	2	1	0	0	2	2	3	1	3	0	3	1	4	0	3	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:134223395A>C	uc003lac.1	+	2	772	c.114A>C	c.(112-114)GAA>GAC	p.E38D	TXNDC15_uc010jdy.1_Intron|TXNDC15_uc011cxv.1_RNA	NM_024715	NP_078991	Q96J42	TXD15_HUMAN	disulfide isomerase precursor	38	Extracellular (Potential).				cell redox homeostasis	integral to membrane				ovary(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TTGCAGAGGAAAGTGGTCGCT	0.507													4	63					0	0	1	0	0		C	134223395	C	C	134223395	3	2	82	1	0	0	0	0	1	0	0	0	16820	11	1	5	120	5	TXNDC15	5	134223395	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	565799	134223395	46691865	422	50878											
TRPC7	57113	broad.mit.edu	37	chr5	135567231	135567231	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaaagttttaaaactttcTtcaaccctgcaaagaaacag	18	10	4	9	0	2	1	1	0	1	1	2	1	2	1	1	0	5	2	1	0	7	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:135567231T>G	uc003lbn.1	-	7	1851	c.1848A>C	c.(1846-1848)GAA>GAC	p.E616D	TRPC7_uc010jef.1_Missense_Mutation_p.E553D|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.E547D|TRPC7_uc010jei.1_Missense_Mutation_p.E492D|TRPC7_uc010jej.1_Missense_Mutation_p.E168D	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	617	Extracellular (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TAAAACTTTCTTCAACCCTGC	0.323													5	16					0	0	1	0	0		G	135567231	G	G	135567231	3	3	82	1	0	0	0	0	1	0	0	0	16610	1606	56	5	757	5	TRPC7	5	135567231	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1343836	135567231	45348029	423	50879											
FAM13B	51306	broad.mit.edu	37	chr5	137275969	137275969	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacttcaagaagcctaagcTtggctttaattttcttgtac	11	15	7	8	0	2	1	1	0	1	1	2	2	2	1	1	1	4	3	1	1	6	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:137275969T>G	uc003lbz.2	-	23	3227	c.2693A>C	c.(2692-2694)AAG>ACG	p.K898T	FAM13B_uc003lcb.2_Missense_Mutation_p.K774T|FAM13B_uc003lca.2_Missense_Mutation_p.K870T|PKD2L2_uc003lbw.1_3'UTR|PKD2L2_uc003lbx.2_3'UTR|PKD2L2_uc003lby.2_Intron|PKD2L2_uc011cyi.1_3'UTR	NM_016603	NP_057687	Q9NYF5	FA13B_HUMAN	hypothetical protein LOC51306 isoform 1	898					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						AAGCCTAAGCTTGGCTTTAAT	0.348													14	59					0	0	1	0	0		G	137275969	G	G	137275969	3	3	82	1	0	0	0	0	1	0	0	0	5464	1609	56	5	58	5	FAM13B	5	137275969	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1708738	137275969	43639291	424	50880											
PCDHA2	56146	broad.mit.edu	37	chr5	140175798	140175798	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcgccctggaccgcgagAgcgtgtcagcctatgagctg	8	6	14	13	4	1	2	1	1	0	1	1	4	1	3	3	1	4	1	3	1	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140175798A>G	uc003lhd.2	+	1	1355	c.1249A>G	c.(1249-1251)AGC>GGC	p.S417G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.S417G|PCDHA2_uc011czy.1_Missense_Mutation_p.S417G	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	417	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACCGCGAGAGCGTGTCAGC	0.627													43	131					0	0	1	0	0		G	140175798	G	G	140175798	3	3	82	1	0	0	0	0	1	0	0	0	11543	304	11	3	1251	3	PCDHA2	5	140175798	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2899829	140175798	40739462	425	50881											
PCDHA4	56144	broad.mit.edu	37	chr5	140188288	140188288	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggggagcgcgcgctgtcgAgctacgtttcggtgcatgcg	5	9	17	10	7	0	0	0	0	0	0	2	2	0	1	0	3	5	4	0	3	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140188288A>T	uc003lhi.2	+	1	1617	c.1516A>T	c.(1516-1518)AGC>TGC	p.S506C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.S506C|PCDHA4_uc011daa.1_Missense_Mutation_p.S506C	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	506	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGCTGTCGAGCTACGTTTC	0.657													15	101					0	0	1	0	0		T	140188288	T	T	140188288	3	4	82	1	0	0	0	0	1	0	0	0	11545	304	11	5	1518	5	PCDHA4	5	140188288	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	12490	140188288	40726972	426	50882											
PCDHA7	56141	broad.mit.edu	37	chr5	140214018	140214018	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggccgacatctactgctgtTtattataattctagcagctt	9	15	8	9	1	2	0	0	0	2	0	2	1	2	0	1	1	4	4	1	1	5	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140214018T>G	uc003lhq.2	+	1	50	c.50T>G	c.(49-51)TTT>TGT	p.F17C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.F17C	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	17					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTACTGCTGTTTATTATAATT	0.512													32	77					0	0	1	0	0		G	140214018	G	G	140214018	3	3	82	1	0	0	0	0	1	0	0	0	11548	1841	64	5	52	5	PCDHA7	5	140214018	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	25730	140214018	40701242	427	50883											
PCDHA12	56137	broad.mit.edu	37	chr5	140256514	140256514	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgggacgcggacgcgcagaAgaacgcgctggtgtcctact	9	6	15	11	6	0	2	0	0	0	2	1	4	1	4	1	3	2	2	1	3	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140256514A>C	uc003lic.2	+	1	1584	c.1457A>C	c.(1456-1458)AAG>ACG	p.K486T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.K486T	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	486	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGCGCAGAAGAACGCGCTG	0.667													15	107					0	0	1	0	0		C	140256514	C	C	140256514	3	2	82	1	0	0	0	0	1	0	0	0	11541	72	3	5	1459	5	PCDHA12	5	140256514	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	42496	140256514	40658746	428	50884											
PCDHB1	29930	broad.mit.edu	37	chr5	140431782	140431782	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaccacgtgccccagttcTcgcgactggtgtacagagcc	8	7	11	15	4	1	1	0	0	1	1	2	3	1	1	4	1	3	2	4	1	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140431782T>A	uc003lik.1	+	1	804	c.727T>A	c.(727-729)TCG>ACG	p.S243T		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	243	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCCCAGTTCTCGCGACTGGT	0.602													9	24					0	0	1	0	0		A	140431782	A	A	140431782	3	1	82	1	0	0	0	0	1	0	0	0	11553	1551	54	5	729	5	PCDHB1	5	140431782	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	175268	140431782	40483478	429	50885											
PCDHB1	29930	broad.mit.edu	37	chr5	140431955	140431955	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgaccctcaaaatggagaAgttcgactaagaggacccct	14	8	9	10	1	1	3	1	1	0	2	2	6	1	4	3	2	0	1	3	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140431955A>C	uc003lik.1	+	1	977	c.900A>C	c.(898-900)GAA>GAC	p.E300D		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	300	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAAATGGAGAAGTTCGACTAA	0.463													12	79					0	0	1	0	0		C	140431955	C	C	140431955	3	2	82	1	0	0	0	0	1	0	0	0	11553	69	3	5	902	5	PCDHB1	5	140431955	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	173	140431955	40483305	430	50886											
PCDHB9	56127	broad.mit.edu	37	chr5	140567302	140567302	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtgtttcggcacaaagAgatggtcttaaaaatatcag	14	10	10	7	1	2	1	1	0	1	1	3	2	2	1	1	2	0	2	1	2	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140567302A>C	uc003liw.1	+	1	410	c.410A>C	c.(409-411)GAG>GCG	p.E137A		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	137	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGGCACAAAGAGATGGTCTTA	0.403													36	71					0	0	1	0	0		C	140567302	C	C	140567302	3	2	82	1	0	0	0	0	1	0	0	0	11568	304	11	5	412	5	PCDHB9	5	140567302	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	135347	140567302	40347958	431	50887											
PCDHB12	56124	broad.mit.edu	37	chr5	140590099	140590099	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagaccacggctccccggcTttgagcagcgaggcgctggt	7	6	14	14	4	0	2	0	1	0	1	1	3	1	2	3	4	2	4	3	4	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140590099T>A	uc003liz.2	+	1	1809	c.1620T>A	c.(1618-1620)GCT>GCA	p.A540A	PCDHB12_uc011dak.1_Silent_p.A203A	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	540	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTCCCCGGCTTTGAGCAGCG	0.692													33	85					0	0	1	0	0		A	140590099	A	A	140590099	2	1	82	1	0	0	0	0	0	0	0	1	11556	1596	56	5		5	PCDHB12	5	140590099	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	22797	140590099	40325161	432	50888											
TAF7	6879	broad.mit.edu	37	chr5	140699524	140699524	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaccagactgtactgcccTtctcacagtagaggcatatt	11	11	8	11	0	1	3	1	1	1	2	2	3	1	3	2	1	2	3	2	1	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140699524T>G	uc003ljg.2	-	1	828	c.88A>C	c.(88-90)AGG>CGG	p.R30R		NM_005642	NP_005633	Q15545	TAF7_HUMAN	TATA box-binding protein-associated factor 2F	30					negative regulation of histone acetylation|negative regulation of protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|spermine transport|transcription initiation from RNA polymerase II promoter	Golgi apparatus|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	histone acetyltransferase binding|thyroid hormone receptor binding|transcription coactivator activity|transcription regulatory region DNA binding|vitamin D receptor binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTACTGCCCTTCTCACAGTA	0.463													19	61					0	0	1	0	0		G	140699524	G	G	140699524	2	3	82	1	0	0	0	0	0	0	0	1	15557	1608	56	5		5	TAF7	5	140699524	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	109425	140699524	40215736	433	50889											
PCDHGA3	56112	broad.mit.edu	37	chr5	140725704	140725704	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggtggccgcggtctccTgcgtcttcctggccttcgtc	0	12	14	15	5	2	0	0	0	2	0	6	0	3	0	4	5	1	0	4	5	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140725704T>A	uc003ljm.1	+	1	2104	c.2104T>A	c.(2104-2106)TGC>AGC	p.C702S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Missense_Mutation_p.C462S|PCDHGA3_uc011dap.1_Missense_Mutation_p.C702S	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	702	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGGTCTCCTGCGTCTTCCT	0.682													15	137					0	0	1	0	0		A	140725704	A	A	140725704	3	1	82	1	0	0	0	0	1	0	0	0	11574	1580	55	5	2106	5	PCDHGA3	5	140725704	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	26180	140725704	40189556	434	50890											
PCDHGB4	8641	broad.mit.edu	37	chr5	140768320	140768320	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctagccagatcacccaatTtgacctgaactctaacaccg	13	8	6	14	1	2	3	1	2	1	1	2	3	2	3	4	0	4	1	4	0	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140768320T>G	uc003lkc.1	+	1	869	c.869T>G	c.(868-870)TTT>TGT	p.F290C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.F290C	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	290	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCACCCAATTTGACCTGAAC	0.458													13	65					0	0	1	0	0		G	140768320	G	G	140768320	3	3	82	1	0	0	0	0	1	0	0	0	11584	1841	64	5	871	5	PCDHGB4	5	140768320	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	42616	140768320	40146940	435	50891											
PCDHGA8	9708	broad.mit.edu	37	chr5	140773688	140773688	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctctgtccactgaaacTcaaatcgctctgcacgtggc	9	9	7	16	2	3	1	1	1	2	0	5	1	4	1	3	1	2	2	3	1	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140773688T>C	uc003lkd.1	+	1	2206	c.1308T>C	c.(1306-1308)ACT>ACC	p.T436T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Silent_p.T436T	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	436	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCACTGAAACTCAAATCGCTC	0.463													5	17					0	0	1	0	0		C	140773688	C	C	140773688	2	2	82	1	0	0	0	0	0	0	0	1	11579	1538	54	3		3	PCDHGA8	5	140773688	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5368	140773688	40141572	436	50892											
PCDHGB5	56101	broad.mit.edu	37	chr5	140778113	140778113	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgcaaaattcctttgagcTgcaaataagtgagtctgcac	13	10	8	10	1	1	2	0	2	1	0	2	2	2	2	1	0	3	4	1	0	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140778113T>C	uc003lkf.1	+	1	419	c.419T>C	c.(418-420)CTG>CCG	p.L140P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.L140P	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	140	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCTTTGAGCTGCAAATAAGT	0.413													8	53					0	0	1	0	0		C	140778113	C	C	140778113	3	2	82	1	0	0	0	0	1	0	0	0	11585	1580	55	3	421	3	PCDHGB5	5	140778113	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4425	140778113	40137147	437	50893											
PCDHGB6	56100	broad.mit.edu	37	chr5	140788105	140788105	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaagctgtggtggaaaaTcctttaaatatttttcatgt	11	17	9	4	0	1	0	1	0	0	0	2	2	2	2	1	3	1	1	1	3	6	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140788105T>C	uc003lkj.1	+	1	336	c.336T>C	c.(334-336)AAT>AAC	p.N112N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Silent_p.N112N	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	112	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTGGAAAATCCTTTAAATA	0.388													17	125					0	0	1	0	0		C	140788105	C	C	140788105	2	2	82	1	0	0	0	0	0	0	0	1	11586	1432	50	3		3	PCDHGB6	5	140788105	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	9992	140788105	40127155	438	50894											
PCDHGB6	56100	broad.mit.edu	37	chr5	140788397	140788397	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaacagagatctcatagcTtgatattgactgccttggac	13	11	9	8	0	1	4	1	2	1	2	2	6	1	5	1	1	3	1	1	1	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140788397T>G	uc003lkj.1	+	1	628	c.628T>G	c.(628-630)TTG>GTG	p.L210V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.L210V	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	210	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCTCATAGCTTGATATTGAC	0.448													5	28					0	0	1	0	0		G	140788397	G	G	140788397	3	3	82	1	0	0	0	0	1	0	0	0	11586	1606	56	5	630	5	PCDHGB6	5	140788397	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	292	140788397	40126863	439	50895											
PCDHGB6	56100	broad.mit.edu	37	chr5	140789877	140789877	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttaatctcagtgctctTcctcctcgccgtgattctgg	4	14	9	14	2	3	1	1	1	3	0	7	1	5	1	4	2	1	1	4	2	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140789877T>A	uc003lkj.1	+	1	2108	c.2108T>A	c.(2107-2109)TTC>TAC	p.F703Y	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.F703Y|PCDHGA10_uc011day.1_5'Flank|PCDHGA10_uc003lkl.1_5'Flank	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	703	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAGTGCTCTTCCTCCTCGCC	0.582													15	139					0	0	1	0	0		A	140789877	A	A	140789877	3	1	82	1	0	0	0	0	1	0	0	0	11586	1783	62	5	2110	5	PCDHGB6	5	140789877	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1480	140789877	40125383	440	50896											
PCDHGA10	56106	broad.mit.edu	37	chr5	140794709	140794709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtccaggaccacggccagcCccctctctccgccactgtca	6	6	8	21	3	2	0	1	0	1	0	5	1	4	1	7	2	1	0	7	2	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140794709C>T	uc003lkl.1	+	1	1967	c.1967C>T	c.(1966-1968)CCC>CTC	p.P656L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.P656L|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	656	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACGGCCAGCCCCCTCTCTCC	0.682													21	98					0	0	1	0	0		T	140794709	T	T	140794709	3	4	82	1	0	0	0	0	1	0	0	0	11570	623	22	4	1969	4	PCDHGA10	5	140794709	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	4832	140794709	40120551	441	50897											
PCDHGA12	26025	broad.mit.edu	37	chr5	140811196	140811196	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggacgacaaggcggcccaAgttttcaaactagattgtaa	13	9	11	8	2	1	1	1	0	0	1	1	3	1	2	1	3	1	2	1	3	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:140811196A>G	uc003lkt.1	+	1	1039	c.870A>G	c.(868-870)CAA>CAG	p.Q290Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.Q290Q	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	290	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGCGGCCCAAGTTTTCAAAC	0.498													40	92					0	0	1	0	0		G	140811196	G	G	140811196	2	3	82	1	0	0	0	0	0	0	0	1	11572	69	3	3		3	PCDHGA12	5	140811196	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	16487	140811196	40104064	442	50898											
SPRY4	81848	broad.mit.edu	37	chr5	141694376	141694376	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtgctgctgctgctgcTcacagagctggggcgcccgc	4	8	16	13	2	1	1	1	0	0	1	1	2	1	2	1	3	6	6	1	3	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:141694376T>C	uc003lml.2	-	2	557	c.298A>G	c.(298-300)AGC>GGC	p.S100G	SPRY4_uc010jgi.1_Missense_Mutation_p.S123G	NM_001127496	NP_001120968	Q9C004	SPY4_HUMAN	sprouty homolog 4 isoform 2	100	Poly-Ser.				multicellular organismal development	cytoplasm|ruffle membrane	protein binding			ovary(1)|lung(1)	2		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCTGCTGCTCACAGAGCTG	0.682									Testicular_Cancer_Familial_Clustering_of				9	62					0	0	1	0	0		C	141694376	C	C	141694376	3	2	82	1	0	0	0	0	1	0	0	0	15133	1551	54	3	605	3	SPRY4	5	141694376	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	883180	141694376	39220884	443	50899											
RBM27	54439	broad.mit.edu	37	chr5	145616914	145616914	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgtgaccagcctgggacaAgtgcagtgcccaatcttgca	9	7	12	13	1	1	1	0	1	1	0	1	2	1	2	4	1	4	2	4	1	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:145616914A>C	uc003lnz.3	+	8	1364	c.1198A>C	c.(1198-1200)AGT>CGT	p.S400R	RBM27_uc003lny.2_Missense_Mutation_p.S400R	NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	400	Pro-rich.				mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCCTGGGACAAGTGCAGTGCC	0.428													7	93					0	0	1	0	0		C	145616914	C	C	145616914	3	2	82	1	0	0	0	0	1	0	0	0	13152	72	3	5	1228	5	RBM27	5	145616914	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3922538	145616914	35298346	444	50900											
RBM27	54439	broad.mit.edu	37	chr5	145648801	145648801	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttacaacaagatatgaggaAaaaaagacaggaagtgttag	20	7	11	3	0	0	3	0	1	0	2	0	5	0	5	0	2	2	2	0	2	9	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:145648801A>C	uc003lnz.3	+	16	2649	c.2483A>C	c.(2482-2484)AAA>ACA	p.K828T	RBM27_uc003lny.2_Missense_Mutation_p.K773T	NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	828	Potential.				mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GATATGAGGAAAAAAAGACAG	0.299													10	68					0	0	1	0	0		C	145648801	C	C	145648801	3	2	82	1	0	0	0	0	1	0	0	0	13152	14	1	5	2545	5	RBM27	5	145648801	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	31887	145648801	35266459	445	50901											
DPYSL3	1809	broad.mit.edu	37	chr5	146798174	146798174	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcactcctccaggaacaAtcagattgtctccaatttgt	10	14	5	12	0	4	1	2	0	2	1	7	2	6	2	3	1	1	0	3	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:146798174A>C	uc003lon.1	-	3	259	c.149T>G	c.(148-150)ATT>AGT	p.I50S	DPYSL3_uc003loo.2_Missense_Mutation_p.I164S	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	50					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCAGGAACAATCAGATTGTC	0.398													14	117					0	0	1	0	0		C	146798174	C	C	146798174	3	2	82	1	0	0	0	0	1	0	0	0	4754	101	4	5	1611	5	DPYSL3	5	146798174	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1149373	146798174	34117086	446	50902											
ARHGEF37	389337	broad.mit.edu	37	chr5	149003664	149003664	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccagcttcgctcctttcaAgagacctttgagaaagtgca	12	10	8	11	1	1	2	1	1	0	2	3	4	2	2	3	0	3	3	3	0	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:149003664A>G	uc003lra.1	+	10	1489	c.1425A>G	c.(1423-1425)CAA>CAG	p.Q475Q		NM_001001669	NP_001001669	A1IGU5	ARH37_HUMAN	hypothetical protein LOC389337	475					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0						GCTCCTTTCAAGAGACCTTTG	0.587													6	73					0	0	1	0	0		G	149003664	G	G	149003664	2	3	82	1	0	0	0	0	0	0	0	1	906	69	3	3		3	ARHGEF37	5	149003664	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2205490	149003664	31911596	447	50903											
GRIA1	2890	broad.mit.edu	37	chr5	153149895	153149895	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtacattgagcagcggaaAccctgtgacaccatgaaggt	13	7	12	9	1	0	3	0	3	0	0	0	5	0	4	2	2	4	2	2	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:153149895A>G	uc003lva.3	+	13	2555	c.2190A>G	c.(2188-2190)AAA>AAG	p.K730K	GRIA1_uc003luy.3_Silent_p.K730K|GRIA1_uc003luz.3_Silent_p.K635K|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Silent_p.K650K|GRIA1_uc011dcx.1_Silent_p.K661K|GRIA1_uc011dcy.1_Silent_p.K740K|GRIA1_uc011dcz.1_Silent_p.K740K	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	730	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AGCAGCGGAAACCCTGTGACA	0.512													16	64					0	0	1	0	0		G	153149895	G	G	153149895	2	3	82	1	0	0	0	0	0	0	0	1	6783	40	2	3		3	GRIA1	5	153149895	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4146231	153149895	27765365	448	50904											
RARS	5917	broad.mit.edu	37	chr5	167921609	167921609	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagaacaattgaccagtcTtctagtgaatggagttcaac	14	11	8	8	0	4	3	2	2	2	1	4	4	4	4	1	1	2	1	1	1	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:167921609T>G	uc003lzx.2	+	5	574	c.533T>G	c.(532-534)CTT>CGT	p.L178R	RARS_uc011deo.1_5'UTR	NM_002887	NP_002878	P54136	SYRC_HUMAN	arginyl-tRNA synthetase	178					arginyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|skin(1)	3	Renal(175;0.000159)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0208)|all_neural(177;0.0227)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0693)|Epithelial(171;0.131)|OV - Ovarian serous cystadenocarcinoma(192;0.156)		TTGACCAGTCTTCTAGTGAAT	0.318													23	72					0	0	1	0	0		G	167921609	G	G	167921609	3	3	82	1	0	0	0	0	1	0	0	0	13083	1609	56	5	551	5	RARS	5	167921609	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	14771714	167921609	12993651	449	50905											
SLIT3	6586	broad.mit.edu	37	chr5	168180908	168180908	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacggaacacgcgcccgTgcacggtctccagctggttc	6	6	13	16	5	1	0	0	0	1	0	3	1	1	1	3	4	3	3	3	4	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:168180908T>C	uc003mab.2	-	17	2210	c.1790A>G	c.(1789-1791)CAC>CGC	p.H597R	SLIT3_uc010jjg.2_Missense_Mutation_p.H597R	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	597	LRR 14.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CACGCGCCCGTGCACGGTCTC	0.617													9	38					0	0	1	0	0		C	168180908	C	C	168180908	3	2	82	1	0	0	0	0	1	0	0	0	14766	1696	59	3	2861	3	SLIT3	5	168180908	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	259299	168180908	12734352	450	50906											
RANBP17	64901	broad.mit.edu	37	chr5	170669756	170669756	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggaccatatgagcttcaTcatcaacttagagcctcctg	11	11	7	12	0	4	2	4	1	0	1	5	3	5	3	3	1	3	1	3	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:170669756T>G	uc003mba.2	+	24	2724	c.2708T>G	c.(2707-2709)ATC>AGC	p.I903S	RANBP17_uc003mbb.2_Missense_Mutation_p.I228S|RANBP17_uc003mbd.2_Missense_Mutation_p.I266S|RANBP17_uc010jjs.2_RNA	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	903					mRNA transport|protein import into nucleus|transmembrane transport	cytoplasm|nuclear pore	GTP binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00751)|all_lung(126;0.0123)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			ATGAGCTTCATCATCAACTTA	0.423			T	TRD@	ALL								42	116					0	0	1	0	0		G	170669756	G	G	170669756	3	3	82	1	0	0	0	0	1	0	0	0	13052	1435	50	5	2802	5	RANBP17	5	170669756	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2488848	170669756	10245504	451	50907											
C5orf41	153222	broad.mit.edu	37	chr5	172517706	172517706	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accctcttcattccctggtaAaaagatcacaagcagagcag	14	8	7	12	0	3	2	2	0	1	2	4	2	4	2	2	1	2	3	2	1	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:172517706A>C	uc003mch.2	+	4	828	c.524A>C	c.(523-525)AAA>ACA	p.K175T	C5orf41_uc003mcg.2_Missense_Mutation_p.K175T|C5orf41_uc003mcf.2_Missense_Mutation_p.K175T|C5orf41_uc011dfd.1_Missense_Mutation_p.K175T	NM_153607	NP_705835	Q8IUR6	CE041_HUMAN	luman-recruiting factor	175							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TTCCCTGGTAAAAAGATCACA	0.443													12	50					0	0	1	0	0		C	172517706	C	C	172517706	3	2	82	1	0	0	0	0	1	0	0	0	2303	14	1	5	534	5	C5orf41	5	172517706	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1847950	172517706	8397554	452	50908											
C5orf25	375484	broad.mit.edu	37	chr5	175722138	175722138	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgcagtttttgatggacTttgtgtcaccccagcattac	7	15	9	10	0	1	1	1	1	0	0	1	2	1	2	2	1	3	3	2	1	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:175722138T>G	uc003mds.3	+	5	1887	c.1480T>G	c.(1480-1482)TTT>GTT	p.F494V	C5orf25_uc003mdt.3_Missense_Mutation_p.F79V|C5orf25_uc003mdr.3_RNA|C5orf25_uc011dfk.1_Missense_Mutation_p.F513V			Q8NDZ2	CE025_HUMAN	RecName: Full=Uncharacterized protein C5orf25;	494											0	all_cancers(89;0.00381)|Renal(175;0.000269)|Lung NSC(126;0.0122)|all_lung(126;0.0193)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.119)		TTTGATGGACTTTGTGTCACC	0.453													10	60					0	0	1	0	0		G	175722138	G	G	175722138	3	3	82	1	0	0	0	0	1	0	0	0	2291	1609	56	5	241	5	C5orf25	5	175722138	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3204432	175722138	5193122	453	50909											
CDHR2	54825	broad.mit.edu	37	chr5	176011249	176011249	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaactttacggtgaaggAggaggatccaggtatgtgct	11	10	13	7	1	0	1	0	1	0	0	1	4	1	4	1	5	4	2	1	5	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:176011249A>G	uc003mem.1	+	18	2183	c.2117A>G	c.(2116-2118)GAG>GGG	p.E706G	CDHR2_uc003men.1_Missense_Mutation_p.E706G	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	706	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						ACGGTGAAGGAGGAGGATCCA	0.557													4	51					0	0	1	0	0		G	176011249	G	G	176011249	3	3	82	1	0	0	0	0	1	0	0	0	3122	304	11	3	2183	3	CDHR2	5	176011249	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	289111	176011249	4904011	454	50910											
GPRIN1	114787	broad.mit.edu	37	chr5	176024901	176024901	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggtgctgcagcgccctcTtgcccagggagctttgtttc	3	12	12	14	1	1	0	0	0	1	0	2	1	1	1	3	2	5	4	3	2	0	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr5:176024901T>C	uc003meo.1	-	2	2110	c.1935A>G	c.(1933-1935)CAA>CAG	p.Q645Q		NM_052899	NP_443131	Q7Z2K8	GRIN1_HUMAN	G protein-regulated inducer of neurite outgrowth	645						growth cone|plasma membrane				ovary(2)	2	all_cancers(89;0.00263)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAGCGCCCTCTTGCCCAGGGA	0.587													4	31					0	0	1	0	0		C	176024901	C	C	176024901	2	2	82	1	0	0	0	0	0	0	0	1	6745	1606	56	3		3	GPRIN1	5	176024901	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	13652	176024901	4890359	455	50911											
HUS1B	135458	broad.mit.edu	37	chr6	656331	656331	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggagggtttccaagatttTtaaaataactttgaatggac	13	13	11	4	0	0	2	0	1	0	1	1	4	1	4	1	4	1	1	1	4	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:656331T>G	uc003mtg.2	-	1	634	c.614A>C	c.(613-615)AAA>ACA	p.K205T	EXOC2_uc003mtd.2_Intron|EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_148959	NP_683762	Q8NHY5	HUS1B_HUMAN	HUS1 checkpoint protein B	205											0	Ovarian(93;0.0733)	Breast(5;0.00139)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.041)|BRCA - Breast invasive adenocarcinoma(62;0.0965)		TCCAAGATTTTTAAAATAACT	0.532													27	136					0	0	1	0	0		G	656331	G	G	656331	3	3	82	1	0	0	0	0	1	0	0	0	7476	1841	64	5	226	5	HUS1B	6	656331	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08		656331	170458736	456	50912											
RIOK1	83732	broad.mit.edu	37	chr6	7414622	7414622	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaccctgacattgataaaaAagtaagcaatgaaatacctt	18	9	7	7	0	0	3	0	3	0	0	0	4	0	4	2	1	2	2	2	1	7	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:7414622A>C	uc003mxn.2	+	16	1769	c.1595A>C	c.(1594-1596)AAA>ACA	p.K532T	RIOK1_uc003mxo.2_Missense_Mutation_p.K291T	NM_031480	NP_113668	Q9BRS2	RIOK1_HUMAN	RIO kinase 1 isoform 1	532							ATP binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|skin(1)	4	Ovarian(93;0.0418)					ATTGATAAAAAAGTAAGCAAT	0.458													9	82					0	0	1	0	0		C	7414622	C	C	7414622	3	2	82	1	0	0	0	0	1	0	0	0	13402	28	1	5	1657	5	RIOK1	6	7414622	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6758291	7414622	163700445	457	50913											
MAK	4117	broad.mit.edu	37	chr6	10803970	10803970	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacttttttgggagtccctaAaacttggcaaattttaaaga	13	15	7	6	0	0	1	0	0	0	1	1	2	1	2	1	2	2	1	1	2	6	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:10803970A>C	uc003mzl.2	-	6	875	c.646T>G	c.(646-648)TTA>GTA	p.L216V	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Missense_Mutation_p.L216V|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	216	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				GGAGTCCCTAAAACTTGGCAA	0.348													5	102					0	0	1	0	0		C	10803970	C	C	10803970	3	2	82	1	0	0	0	0	1	0	0	0	9215	11	1	5	1257	5	MAK	6	10803970	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3389348	10803970	160311097	458	50914											
ATXN1	6310	broad.mit.edu	37	chr6	16327457	16327457	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggggctcgggtggaccAccacgtgcctggactcgtac	6	7	15	13	3	0	1	0	1	0	0	2	3	0	3	3	5	2	2	3	5	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:16327457A>T	uc003nbt.2	-	8	2056	c.1085T>A	c.(1084-1086)GTG>GAG	p.V362E	ATXN1_uc010jpi.2_Missense_Mutation_p.V362E|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	362					cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				CGGGTGGACCACCACGTGCCT	0.682													23	116					0	0	1	0	0		T	16327457	T	T	16327457	3	4	82	1	0	0	0	0	1	0	0	0	1210	159	6	5	1370	5	ATXN1	6	16327457	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5523487	16327457	154787610	459	50915											
KIF13A	63971	broad.mit.edu	37	chr6	17764753	17764753	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaggcactgttttccttgAgtggcaccacaattatcttg	9	14	8	10	0	1	1	0	1	1	0	2	1	2	1	2	2	0	3	2	2	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:17764753A>G	uc003ncg.3	-	39	5111	c.5006T>C	c.(5005-5007)CTC>CCC	p.L1669P	KIF13A_uc003ncf.2_Missense_Mutation_p.L1621P|KIF13A_uc003nch.3_Missense_Mutation_p.L1634P|KIF13A_uc003nci.3_Missense_Mutation_p.L1621P|KIF13A_uc003nce.1_Missense_Mutation_p.L220P	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	1669					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			GTTTTCCTTGAGTGGCACCAC	0.473													21	57					0	0	1	0	0		G	17764753	G	G	17764753	3	3	82	1	0	0	0	0	1	0	0	0	8290	304	11	3	440	3	KIF13A	6	17764753	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1437296	17764753	153350314	460	50916											
KDM1B	221656	broad.mit.edu	37	chr6	18213945	18213945	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtacaaggggctgacttttTtggtcacgttcctcccagtg	7	13	11	10	1	1	1	1	1	0	0	3	1	3	1	2	3	1	3	2	3	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:18213945T>C	uc003nco.1	+	12	1508	c.1433T>C	c.(1432-1434)TTT>TCT	p.F478S	KDM1B_uc003ncn.1_Missense_Mutation_p.F449S|KDM1B_uc003ncp.1_Missense_Mutation_p.F34S|KDM1B_uc003ncq.1_Missense_Mutation_p.F34S	NM_153042	NP_694587	Q8NB78	KDM1B_HUMAN	amine oxidase (flavin containing) domain 1	681					multicellular organismal development|regulation of DNA methylation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-monomethyl-K4 specific)|oxidoreductase activity|zinc ion binding			skin(1)	1						GCTGACTTTTTTGGTCACGTT	0.463													62	145					0	0	1	0	0		C	18213945	C	C	18213945	3	2	82	1	0	0	0	0	1	0	0	0	8139	1841	64	3	1396	3	KDM1B	6	18213945	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	449192	18213945	152901122	461	50917											
KIAA0319	9856	broad.mit.edu	37	chr6	24576688	24576688	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgctctggtttccattcaAagtgatggagttttggggca	8	14	12	7	0	2	1	1	1	1	0	3	2	3	2	1	4	1	4	1	4	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:24576688A>C	uc011djo.1	-	10	1879	c.1642T>G	c.(1642-1644)TTG>GTG	p.L548V	KIAA0319_uc011djp.1_Missense_Mutation_p.L503V|KIAA0319_uc003neh.1_Missense_Mutation_p.L548V|KIAA0319_uc011djq.1_Missense_Mutation_p.L539V|KIAA0319_uc011djr.1_Missense_Mutation_p.L548V|KIAA0319_uc010jpt.1_5'UTR	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	548	PKD 3.|Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						TTTCCATTCAAAGTGATGGAG	0.493													51	376					0	0	1	0	0		C	24576688	C	C	24576688	3	2	82	1	0	0	0	0	1	0	0	0	8184	11	1	5	1624	5	KIAA0319	6	24576688	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6362743	24576688	146538379	462	50918											
KIAA0319	9856	broad.mit.edu	37	chr6	24581195	24581195	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatccttctccaaaggcgTtttcactagaaacagtgact	13	11	6	11	1	2	2	1	1	1	1	4	2	3	2	2	1	1	1	2	1	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:24581195T>G	uc011djo.1	-	7	1475	c.1238A>C	c.(1237-1239)AAC>ACC	p.N413T	KIAA0319_uc011djp.1_Missense_Mutation_p.N368T|KIAA0319_uc003neh.1_Missense_Mutation_p.N413T|KIAA0319_uc011djq.1_Missense_Mutation_p.N404T|KIAA0319_uc011djr.1_Missense_Mutation_p.N413T|KIAA0319_uc010jpt.1_5'UTR	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	413	PKD 1.|Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						TCCAAAGGCGTTTTCACTAGA	0.413											OREG0017229	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	81					0	0	1	0	0		G	24581195	G	G	24581195	3	3	82	1	0	0	0	0	1	0	0	0	8184	1725	60	5	2040	5	KIAA0319	6	24581195	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4507	24581195	146533872	463	50919											
SLC17A4	10050	broad.mit.edu	37	chr6	25773785	25773785	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccattagggctatgatcaaAtccttaccactctgggccat	10	11	7	13	0	2	1	1	1	1	0	3	1	3	1	4	2	1	1	4	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:25773785A>C	uc003nfe.2	+	8	989	c.870A>C	c.(868-870)AAA>AAC	p.K290N	SLC17A4_uc011djx.1_Intron|SLC17A4_uc003nff.1_Missense_Mutation_p.K51N|SLC17A4_uc003nfg.2_Missense_Mutation_p.K227N|SLC17A4_uc010jqa.2_Missense_Mutation_p.K3N	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),	290					phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						CTATGATCAAATCCTTACCAC	0.463													23	44					0	0	1	0	0		C	25773785	C	C	25773785	3	2	82	1	0	0	0	0	1	0	0	0	14444	98	4	5	896	5	SLC17A4	6	25773785	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1192590	25773785	145341282	464	50920											
HIST1H1A	3024	broad.mit.edu	37	chr6	26017925	26017925	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggtttctcaggagcagcAgaagcggcgggggcgggagg	10	4	20	7	3	1	1	1	0	1	1	2	3	1	3	0	7	3	3	0	7	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:26017925A>G	uc003nfo.2	-	1	116	c.36T>C	c.(34-36)TCT>TCC	p.S12S	HIST1H3A_uc003nfp.1_5'Flank	NM_005325	NP_005316	Q02539	H11_HUMAN	histone cluster 1, H1a	12					nucleosome assembly|spermatogenesis	nucleosome|nucleus	DNA binding			ovary(2)	2						CAGGAGCAGCAGAAGCGGCGG	0.527											OREG0017237	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	37					0	0	1	0	0		G	26017925	G	G	26017925	2	3	82	1	0	0	0	0	0	0	0	1	7138	175	7	3		3	HIST1H1A	6	26017925	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	244140	26017925	145097142	465	50921											
HIST1H4B	8366	broad.mit.edu	37	chr6	26027235	26027235	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaaccacatccatggcagtGacagtcttgcgcttggcgtg	9	10	11	11	2	1	1	0	1	1	0	2	1	2	1	2	2	2	2	2	2	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:26027235G>A	uc003nfr.2	-	1	246	c.246C>T	c.(244-246)GTC>GTT	p.V82V		NM_003544	NP_003535	P62805	H4_HUMAN	histone cluster 1, H4b	82					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						CCATGGCAGTGACAGTCTTGC	0.532											OREG0017238	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	52					0	0	1	0	0		A	26027235	A	A	26027235	2	1	82	1	0	0	0	0	0	0	0	1	7182	1277	45	4		4	HIST1H4B	6	26027235	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	9310	26027235	145087832	466	50922											
BTN3A1	11119	broad.mit.edu	37	chr6	26405873	26405873	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagctgctcatgcctcacTcaggtagggaacaattccac	10	10	8	13	0	4	0	4	0	0	0	5	1	5	1	2	2	4	3	2	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:26405873T>C	uc003nhv.2	+	2	450	c.82T>C	c.(82-84)TCA>CCA	p.S28P	BTN3A1_uc011dkj.1_Missense_Mutation_p.S28P|BTN3A1_uc011dkk.1_Missense_Mutation_p.S28P|BTN3A1_uc010jqj.2_Missense_Mutation_p.S28P	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a	28					lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						CATGCCTCACTCAGGTAGGGA	0.468													9	62					0	0	1	0	0		C	26405873	C	C	26405873	3	2	82	1	0	0	0	0	1	0	0	0	1565	1551	54	3	84	3	BTN3A1	6	26405873	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	378638	26405873	144709194	467	50923											
OR14J1	442191	broad.mit.edu	37	chr6	29275414	29275414	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagaaaaatgtgcttaaaAgccatgtttaaactctgaag	17	10	8	6	0	1	2	0	1	1	1	1	3	1	2	1	0	3	2	1	0	7	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:29275414A>G	uc011dln.1	+	1	948	c.948A>G	c.(946-948)AAA>AAG	p.K316K		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	316	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						tgtgcttaaaagccatgttta	0.289													16	67					0	0	1	0	0		G	29275414	G	G	29275414	2	3	82	1	0	0	0	0	0	0	0	1	10967	69	3	3		3	OR14J1	6	29275414	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2869541	29275414	141839653	468	50924											
MOG	4340	broad.mit.edu	37	chr6	29627367	29627367	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccggaatgtaaggttctcAgatgaaggaggtttcacctg	11	11	12	7	1	2	2	2	1	1	1	4	4	3	4	2	4	0	3	2	4	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:29627367A>C	uc003nnf.2	+	2	538	c.360A>C	c.(358-360)TCA>TCC	p.S120S	MOG_uc003qzk.1_Silent_p.S120S|MOG_uc010kle.1_Intron|MOG_uc010klf.1_Intron|MOG_uc003nmy.1_Silent_p.S120S|MOG_uc003nmz.2_Silent_p.S120S|MOG_uc011dlt.1_Silent_p.S50S|MOG_uc003nna.2_Intron|MOG_uc011dlu.1_Intron|MOG_uc011dlv.1_Intron|MOG_uc003nnd.2_Silent_p.S120S|MOG_uc003nne.2_Silent_p.S120S|MOG_uc003nng.2_Silent_p.S120S|MOG_uc003nnh.2_Silent_p.S120S|MOG_uc003nni.2_Silent_p.S120S|MOG_uc003nnj.2_Silent_p.S120S|MOG_uc003nnk.2_Silent_p.S120S	NM_206809	NP_996532	Q16653	MOG_HUMAN	myelin oligodendrocyte glycoprotein isoform	120	Ig-like V-type.|Extracellular (Potential).				cell adhesion|central nervous system development|positive regulation of MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)	1						TAAGGTTCTCAGATGAAGGAG	0.473													11	48					0	0	1	0	0		C	29627367	C	C	29627367	2	2	82	1	0	0	0	0	0	0	0	1	9711	175	7	5		5	MOG	6	29627367	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	351953	29627367	141487700	469	50925											
TRIM39	56658	broad.mit.edu	37	chr6	30297161	30297161	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctgcggctttggagaacTtacaggtggaggcgagctgc	8	8	16	9	2	0	1	0	0	0	1	0	4	0	2	0	5	6	3	0	5	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:30297161T>G	uc010jrz.2	+	3	379	c.67T>G	c.(67-69)TTA>GTA	p.L23V	HCG18_uc003npx.2_5'Flank|HCG18_uc003npy.2_5'Flank|TRIM39_uc003npz.2_Missense_Mutation_p.L23V|TRIM39_uc003nqb.2_Missense_Mutation_p.L23V|TRIM39_uc003nqc.2_Missense_Mutation_p.L23V|TRIM39_uc010jsa.1_Missense_Mutation_p.L23V	NM_021253	NP_067076	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 1	23					apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						TTTGGAGAACTTACAGGTGGA	0.532													21	179					0	0	1	0	0		G	30297161	G	G	30297161	3	3	82	1	0	0	0	0	1	0	0	0	16539	1606	56	5	69	5	TRIM39	6	30297161	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	669794	30297161	140817906	470	50926											
TRIM39	56658	broad.mit.edu	37	chr6	30297387	30297387	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagcagctccaggccgtcaAgcggaagatccgggatgaga	12	4	14	11	3	1	2	1	1	0	2	3	5	3	4	3	3	3	2	3	3	3	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:30297387A>G	uc010jrz.2	+	3	605	c.293A>G	c.(292-294)AAG>AGG	p.K98R	HCG18_uc003npx.2_5'Flank|HCG18_uc003npy.2_5'Flank|TRIM39_uc003npz.2_Missense_Mutation_p.K98R|TRIM39_uc003nqb.2_Missense_Mutation_p.K98R|TRIM39_uc003nqc.2_Missense_Mutation_p.K98R|TRIM39_uc010jsa.1_Missense_Mutation_p.K98R	NM_021253	NP_067076	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 1	98					apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						CAGGCCGTCAAGCGGAAGATC	0.547													10	60					0	0	1	0	0		G	30297387	G	G	30297387	3	3	82	1	0	0	0	0	1	0	0	0	16539	72	3	3	295	3	TRIM39	6	30297387	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	226	30297387	140817680	471	50927											
GTF2H4	2968	broad.mit.edu	37	chr6	30879519	30879519	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctgcaacatctgcgtgAgtttgggcttgttttccaga	6	15	10	10	1	1	2	0	1	1	1	3	2	3	2	2	1	3	4	2	1	1	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:30879519A>C	uc003nsa.1	+	9	1007	c.800A>C	c.(799-801)GAG>GCG	p.E267A	GTF2H4_uc010jsf.2_Missense_Mutation_p.E267A|GTF2H4_uc011dmv.1_Missense_Mutation_p.E211A|GTF2H4_uc003nsb.1_Missense_Mutation_p.E105A|GTF2H4_uc011dmw.1_Missense_Mutation_p.E273A|VARS2_uc003nsc.1_5'Flank|VARS2_uc003nsd.2_5'Flank|VARS2_uc011dmx.1_5'Flank|VARS2_uc011dmy.1_5'Flank|VARS2_uc011dmz.1_5'Flank	NM_001517	NP_001508	Q92759	TF2H4_HUMAN	general transcription factor IIH, polypeptide 4,	267					mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3						CATCTGCGTGAGTTTGGGCTT	0.488								NER					9	63					0	0	1	0	0		C	30879519	C	C	30879519	3	2	82	1	0	0	0	0	1	0	0	0	6881	304	11	5	830	5	GTF2H4	6	30879519	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	582132	30879519	140235548	472	50928											
HLA-B	3106	broad.mit.edu	37	chr6	31323279	31323279	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctgccaggtcagtgtgAtctccgcagggtagaaaccc	8	7	12	14	2	2	2	1	1	1	1	3	2	2	2	4	2	2	3	4	2	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:31323279A>C	uc003nth.2	-	4	764	c.710T>G	c.(709-711)ATC>AGC	p.I237S	HLA-C_uc003ntb.2_RNA|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_RNA|HLA-B_uc011dnk.1_RNA|HLA-B_uc003ntf.2_Intron|HLA-B_uc003ntg.1_Missense_Mutation_p.I116S|HLA-B_uc003nti.1_RNA|HLA-B_uc010jsn.1_RNA	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B	237	Alpha-3.|Ig-like C1-type.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						GGTCAGTGTGATCTCCGCAGG	0.597									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				8	96					0	0	1	0	0		C	31323279	C	C	31323279	3	2	82	1	0	0	0	0	1	0	0	0	7212	333	12	5	394	5	HLA-B	6	31323279	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	443760	31323279	139791788	473	50929											
LTA	4049	broad.mit.edu	37	chr6	31541078	31541078	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccccagcaagcagaacTcactgctctggagagcaaac	14	4	10	13	0	2	3	1	0	1	3	2	5	2	3	2	1	6	4	2	1	3	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:31541078T>C	uc011dnu.1	+	4	439	c.226T>C	c.(226-228)TCA>CCA	p.S76P	LTA_uc003nue.1_Missense_Mutation_p.S76P|LTA_uc003nuf.2_Intron|LTA_uc003nuh.2_Missense_Mutation_p.S23P|LTA_uc003nug.2_Missense_Mutation_p.S23P|LTA_uc010jsr.2_Intron|TNF_uc003nui.2_5'Flank	NM_001159740	NP_001153212	P01374	TNFB_HUMAN	lymphotoxin alpha precursor	76					cell-cell signaling|induction of apoptosis|signal transduction	extracellular space|membrane	cytokine activity|tumor necrosis factor receptor binding				0					Etanercept(DB00005)	CAAGCAGAACTCACTGCTCTG	0.567													19	62					0	0	1	0	0		C	31541078	C	C	31541078	3	2	82	1	0	0	0	0	1	0	0	0	9086	1551	54	3	236	3	LTA	6	31541078	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	217799	31541078	139573989	474	50930											
MDGA1	266727	broad.mit.edu	37	chr6	37606368	37606368	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgctgccacacattgcccTtattgccactgagagaccag	9	9	8	15	0	0	2	0	1	0	1	0	3	0	2	5	0	4	1	5	0	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:37606368T>A	uc003onu.1	-	15	3791	c.2612A>T	c.(2611-2613)AAG>ATG	p.K871M	MDGA1_uc003onv.1_Missense_Mutation_p.K140M	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	871	MAM.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						CACATTGCCCTTATTGCCACT	0.652													15	21					0	0	1	0	0		A	37606368	A	A	37606368	3	1	82	1	0	0	0	0	1	0	0	0	9424	1609	56	5	267	5	MDGA1	6	37606368	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	6065290	37606368	133508699	475	50931											
DNAH8	1769	broad.mit.edu	37	chr6	38825338	38825338	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtggacacacgattcagaAgaggctttacgtaatgcaaa	14	10	10	7	2	1	2	1	0	0	2	1	4	1	3	0	2	2	3	0	2	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:38825338A>C	uc003ooe.1	+	40	5727	c.5127A>C	c.(5125-5127)GAA>GAC	p.E1709D		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ACGATTCAGAAGAGGCTTTAC	0.358													7	62					0	0	1	0	0		C	38825338	C	C	38825338	3	2	82	1	0	0	0	0	1	0	0	0	4613	69	3	5	5277	5	DNAH8	6	38825338	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1218970	38825338	132289729	476	50932											
MOCS1	4337	broad.mit.edu	37	chr6	39874134	39874134	+	Nonstop_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggtgagaagggcaggtgcTaagcccgatggaagtccccc	9	6	16	10	1	0	1	0	1	0	1	1	4	1	2	3	4	2	2	3	4	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:39874134T>G	uc003opb.2	-	10	2048	c.1910A>C	c.(1909-1911)TAG>TCG	p.*637S	MOCS1_uc003opa.2_3'UTR|MOCS1_uc003opc.2_Nonstop_Mutation_p.*621S|MOCS1_uc003opd.2_3'UTR|MOCS1_uc003ope.2_Nonstop_Mutation_p.*534S	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	637					Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding			ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GGGCAGGTGCTAAGCCCGATG	0.552													12	179					0	0	1	0	0		G	39874134	G	G	39874134	4	3	82	1	0	0	0	0	0	0	0	0	9708	1537	53	5		5	MOCS1	6	39874134	Nonstop_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1048796	39874134	131240933	477	50933											
APOBEC2	10930	broad.mit.edu	37	chr6	41029181	41029181	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacagggcaaggggggccaAgtgcaggcatctcggggata	10	4	18	9	1	1	0	0	0	1	0	2	1	1	1	1	7	1	4	1	7	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:41029181A>T	uc003opl.2	+	2	393	c.246A>T	c.(244-246)CAA>CAT	p.Q82H	UNC5CL_uc010jxe.1_Intron|APOBEC2_uc010jxf.2_Intron	NM_006789	NP_006780	Q9Y235	ABEC2_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	82					DNA demethylation|mRNA processing		cytidine deaminase activity|RNA binding|zinc ion binding				0	Ovarian(28;0.0418)|Colorectal(47;0.196)					AGGGGGGCCAAGTGCAGGCAT	0.557													25	80					0	0	1	0	0		T	41029181	T	T	41029181	3	4	82	1	0	0	0	0	1	0	0	0	788	69	3	5	252	5	APOBEC2	6	41029181	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1155047	41029181	130085886	478	50934											
C6orf130	221443	broad.mit.edu	37	chr6	41037846	41037846	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatcgcccatctctcttcAgaacagccacttctccagat	10	12	4	15	1	4	2	1	0	3	2	7	2	4	2	3	0	2	0	3	0	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:41037846A>G	uc003opm.2	-	4	384	c.212T>C	c.(211-213)CTG>CCG	p.L71P	UNC5CL_uc010jxe.1_5'UTR|C6orf130_uc010jxg.2_Missense_Mutation_p.L71P|C6orf130_uc003opn.2_Missense_Mutation_p.L71P|C6orf130_uc010jxh.1_Missense_Mutation_p.L71P|NFYA_uc003opo.2_5'Flank|NFYA_uc003opp.2_5'Flank	NM_145063	NP_659500	Q9Y530	CF130_HUMAN	hypothetical protein LOC221443	71	Macro.										0	Ovarian(28;0.0418)|Colorectal(47;0.196)					ATCTCTCTTCAGAACAGCCAC	0.313													21	105					0	0	1	0	0		G	41037846	G	G	41037846	3	3	82	1	0	0	0	0	1	0	0	0	2332	188	7	3	258	3	C6orf130	6	41037846	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	8665	41037846	130077221	479	50935											
PEX6	5190	broad.mit.edu	37	chr6	42934394	42934394	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcagtcaagccacctgccaAactgcaaagaggaacacagg	15	4	9	13	0	2	1	2	0	0	1	2	2	2	2	3	2	5	1	3	2	4	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:42934394A>C	uc003otf.2	-	10	2056	c.1963T>G	c.(1963-1965)TTG>GTG	p.L655V	PEX6_uc010jya.2_RNA	NM_000287	NP_000278	Q13608	PEX6_HUMAN	peroxisomal biogenesis factor 6	655					protein import into peroxisome matrix, translocation|protein stabilization	cytosol|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)	1			all cancers(41;0.00235)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0562)			CCACCTGCCAAACTGCAAAGA	0.582													21	170					0	0	1	0	0		C	42934394	C	C	42934394	3	2	82	1	0	0	0	0	1	0	0	0	11769	28	1	5	1011	5	PEX6	6	42934394	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1896548	42934394	128180673	480	50936											
SLC22A7	10864	broad.mit.edu	37	chr6	43267175	43267175	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaacagagctgcgtccacTttcttcttcgccggtgtgct	5	13	10	13	3	2	2	0	1	2	1	4	2	3	2	2	1	4	2	2	1	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:43267175T>G	uc003out.2	+	3	546	c.447T>G	c.(445-447)ACT>ACG	p.T149T	SLC22A7_uc010jyl.1_Silent_p.T147T|SLC22A7_uc003ous.2_Silent_p.T147T	NM_153320	NP_696961	Q9Y694	S22A7_HUMAN	solute carrier family 22 member 7 isoform b	149	Helical; (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	anion:anion antiporter activity|sodium-independent organic anion transmembrane transporter activity				0			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00998)|OV - Ovarian serous cystadenocarcinoma(102;0.0305)			CTGCGTCCACTTTCTTCTTCG	0.572													28	56					0	0	1	0	0		G	43267175	G	G	43267175	2	3	82	1	0	0	0	0	0	0	0	1	14484	1596	56	5		5	SLC22A7	6	43267175	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	332781	43267175	127847892	481	50937											
AARS2	57505	broad.mit.edu	37	chr6	44269806	44269806	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcctctcacctgtcccatTtgcagcttacggatggcagt	6	12	8	15	1	1	0	1	0	1	0	4	1	3	1	4	2	3	3	4	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:44269806T>G	uc010jza.1	-	19	2592	c.2589A>C	c.(2587-2589)CAA>CAC	p.Q863H	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	863					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	CCTGTCCCATTTGCAGCTTAC	0.602													5	27					0	0	1	0	0		G	44269806	G	G	44269806	3	3	82	1	0	0	0	0	1	0	0	0	20	1838	64	5	384	5	AARS2	6	44269806	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1002631	44269806	126845261	482	50938											
CYP39A1	51302	broad.mit.edu	37	chr6	46620249	46620249	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgggggtctacgcaaattcTtccgctgaaggagtaagaac	12	8	12	9	3	2	2	0	1	2	1	3	3	3	3	1	3	2	3	1	3	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:46620249T>C	uc003oyf.1	-	1	275	c.71A>G	c.(70-72)AAG>AGG	p.K24R	CYP39A1_uc011dwa.1_Missense_Mutation_p.K24R|CYP39A1_uc010jzd.1_5'UTR|SLC25A27_uc011dwb.1_5'Flank|SLC25A27_uc003oyg.2_5'Flank|SLC25A27_uc003oyh.2_5'Flank|SLC25A27_uc011dwc.1_5'Flank	NM_016593	NP_057677	Q9NYL5	CP39A_HUMAN	cytochrome P450, family 39, subfamily A,	24					bile acid biosynthetic process|bile acid catabolic process|digestion|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	24-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(1)	1						ACGCAAATTCTTCCGCTGAAG	0.453													37	304					0	0	1	0	0		C	46620249	C	C	46620249	3	2	82	1	0	0	0	0	1	0	0	0	4180	1609	56	3	1386	3	CYP39A1	6	46620249	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2350443	46620249	124494818	483	50939											
TDRD6	221400	broad.mit.edu	37	chr6	46657408	46657408	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacacaatgtcaccttcagtAagctgatgaggagaatgtgt	14	10	10	7	0	2	3	2	2	0	1	2	4	2	3	1	1	2	2	1	1	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:46657408A>G	uc003oyj.2	+	1	1543	c.1543A>G	c.(1543-1545)AAG>GAG	p.K515E	TDRD6_uc010jze.2_Missense_Mutation_p.K509E	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	515					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			CACCTTCAGTAAGCTGATGAG	0.423													14	123					0	0	1	0	0		G	46657408	G	G	46657408	3	3	82	1	0	0	0	0	1	0	0	0	15759	363	13	3	1545	3	TDRD6	6	46657408	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	37159	46657408	124457659	484	50940											
GPR111	222611	broad.mit.edu	37	chr6	47649717	47649717	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggtcctagtctggagccaAgtgacaaagacagagatcac	14	6	12	9	0	2	3	1	1	1	2	3	6	3	4	2	2	1	0	2	2	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:47649717A>G	uc010jzj.1	+	6	1423	c.1422A>G	c.(1420-1422)CAA>CAG	p.Q474Q	GPR111_uc010jzk.1_Silent_p.Q406Q|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	474	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						TCTGGAGCCAAGTGACAAAGA	0.453													25	90					0	0	1	0	0		G	47649717	G	G	47649717	2	3	82	1	0	0	0	0	0	0	0	1	6643	69	3	3		3	GPR111	6	47649717	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	992309	47649717	123465350	485	50941											
OPN5	221391	broad.mit.edu	37	chr6	47763080	47763080	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactacgtacctgagcccttCggaacctcgtgcaccctgga	8	8	10	15	3	0	1	0	1	0	0	2	4	0	3	4	2	5	2	4	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:47763080C>T	uc003ozc.2	+	4	542	c.537C>T	c.(535-537)TTC>TTT	p.F179F	OPN5_uc003ozd.2_Silent_p.F14F	NM_181744	NP_859528	Q6U736	OPN5_HUMAN	opsin 5 isoform 1	179	Extracellular (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1						CTGAGCCCTTCGGAACCTCGT	0.607													23	43					0	0	1	0	0		T	47763080	T	T	47763080	2	4	82	1	0	0	0	0	0	0	0	1	10902	883	31	1		1	OPN5	6	47763080	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	113363	47763080	123351987	486	50942											
PKHD1	5314	broad.mit.edu	37	chr6	51524683	51524683	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcatcagcgctatcaagaAttaggaccacttggtcagtc	11	10	10	10	1	3	1	3	0	0	1	4	2	3	2	1	3	1	2	1	3	4	3	rs145268428		TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:51524683A>C	uc003pah.1	-	61	10517	c.10241T>G	c.(10240-10242)ATT>AGT	p.I3414S		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3414	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GCTATCAAGAATTAGGACCAC	0.368													8	71					0	0	1	0	0		C	51524683	C	C	51524683	3	2	82	1	0	0	0	0	1	0	0	0	11990	101	4	5	2011	5	PKHD1	6	51524683	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3761603	51524683	119590384	487	50943											
DST	667	broad.mit.edu	37	chr6	56328444	56328444	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagtggatctgttgggtgaAgcgcctcgtgatgatggccg	7	10	17	7	3	1	3	0	3	1	0	2	5	1	4	2	3	1	1	2	3	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:56328444A>G	uc003pdf.2	-	94	16477	c.16449T>C	c.(16447-16449)GCT>GCC	p.A5483A	DST_uc003pcz.3_Silent_p.A5305A|DST_uc011dxj.1_Silent_p.A5334A|DST_uc011dxk.1_Silent_p.A5345A|DST_uc003pcy.3_Silent_p.A4979A|DST_uc003pcv.3_Silent_p.A101A|DST_uc003pcw.3_Silent_p.A62A|DST_uc003pcx.3_Silent_p.A62A	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	7415					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TGTTGGGTGAAGCGCCTCGTG	0.592													16	93					0	0	1	0	0		G	56328444	G	G	56328444	2	3	82	1	0	0	0	0	0	0	0	1	4789	59	3	3		3	DST	6	56328444	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4803761	56328444	114786623	488	50944											
PRIM2	5558	broad.mit.edu	37	chr6	57372352	57372352	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcctctgctcaatcaccTcaggtaatctaaaggcacag	12	9	7	13	0	6	0	4	0	2	0	6	0	6	0	2	2	2	3	2	2	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:57372352T>G	uc003pdx.2	+	8	845	c.758T>G	c.(757-759)CTC>CGC	p.L253R		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	253					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		CTCAATCACCTCAGGTAATCT	0.383													4	44					0	0	1	0	0		G	57372352	G	G	57372352	3	3	82	1	0	0	0	0	1	0	0	0	12513	1551	54	5	784	5	PRIM2	6	57372352	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1043908	57372352	113742715	489	50945											
PHF3	23469	broad.mit.edu	37	chr6	64422746	64422746	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaaactgtgcacccattTcgaagaggatcagcagtagc	13	9	10	9	1	1	2	1	1	0	1	2	4	1	3	1	1	4	3	1	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:64422746T>A	uc003pep.1	+	15	5288	c.5262T>A	c.(5260-5262)TTT>TTA	p.F1754L	PHF3_uc003pen.2_Missense_Mutation_p.F1666L|PHF3_uc011dxs.1_Missense_Mutation_p.F1023L	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	1754					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			TGCACCCATTTCGAAGAGGAT	0.393													15	97					0	0	1	0	0		A	64422746	A	A	64422746	3	1	82	1	0	0	0	0	1	0	0	0	11855	1780	62	5	5320	5	PHF3	6	64422746	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7050394	64422746	106692321	490	50946											
RIMS1	22999	broad.mit.edu	37	chr6	73108029	73108029	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcacgaagcctcacacaaaAgcctggttccaaatctacac	15	6	6	14	1	2	0	1	0	1	0	3	1	3	0	3	1	4	2	3	1	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:73108029A>C	uc003pga.2	+	32	4774	c.4697A>C	c.(4696-4698)AAG>ACG	p.K1566T	RIMS1_uc011dyb.1_Missense_Mutation_p.K963T|RIMS1_uc003pgc.2_Intron|RIMS1_uc010kaq.2_Missense_Mutation_p.K886T|RIMS1_uc011dyc.1_Missense_Mutation_p.K691T|RIMS1_uc010kar.2_Missense_Mutation_p.K634T|RIMS1_uc011dyd.1_Missense_Mutation_p.K700T|RIMS1_uc003pgf.2_Missense_Mutation_p.K566T|RIMS1_uc003pgg.2_Missense_Mutation_p.K462T|RIMS1_uc003pgi.2_Missense_Mutation_p.K382T|RIMS1_uc003pgh.2_Missense_Mutation_p.K433T|RIMS1_uc003pgd.2_Missense_Mutation_p.K632T|RIMS1_uc003pge.2_Missense_Mutation_p.K606T|RIMS1_uc011dye.1_Missense_Mutation_p.K372T|RIMS1_uc011dyf.1_Missense_Mutation_p.K190T|RIMS1_uc011dyg.1_Missense_Mutation_p.K93T	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1566	C2 2.				calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				CTCACACAAAAGCCTGGTTCC	0.393													5	10					0	0	1	0	0		C	73108029	C	C	73108029	3	2	82	1	0	0	0	0	1	0	0	0	13392	72	3	5	4986	5	RIMS1	6	73108029	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	8685283	73108029	98007038	491	50947											
KCNQ5	56479	broad.mit.edu	37	chr6	73904333	73904333	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctgtggatagcaaagaTctttcgggttccgcacaaaa	12	9	10	10	2	1	1	0	0	1	1	3	2	2	2	2	2	2	3	2	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:73904333T>G	uc003pgk.2	+	14	2342	c.1995T>G	c.(1993-1995)GAT>GAG	p.D665E	KCNQ5_uc011dyh.1_Missense_Mutation_p.D684E|KCNQ5_uc011dyi.1_Missense_Mutation_p.D675E|KCNQ5_uc010kat.2_Missense_Mutation_p.D656E|KCNQ5_uc011dyj.1_Missense_Mutation_p.D555E|KCNQ5_uc011dyk.1_Missense_Mutation_p.D415E	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	665					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		ATAGCAAAGATCTTTCGGGTT	0.493													26	84					0	0	1	0	0		G	73904333	G	G	73904333	3	3	82	1	0	0	0	0	1	0	0	0	8102	1432	50	5	2110	5	KCNQ5	6	73904333	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	796304	73904333	97210734	492	50948											
KCNQ5	56479	broad.mit.edu	37	chr6	73904995	73904995	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagacagagacagacacttTtgatgccgcaccgcagcctg	12	6	11	12	2	0	4	0	1	0	3	0	6	0	4	3	0	2	2	3	0	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:73904995T>C	uc003pgk.2	+	14	3004	c.2657T>C	c.(2656-2658)TTT>TCT	p.F886S	KCNQ5_uc011dyh.1_Missense_Mutation_p.F905S|KCNQ5_uc011dyi.1_Missense_Mutation_p.F896S|KCNQ5_uc010kat.2_Missense_Mutation_p.F877S|KCNQ5_uc011dyj.1_Missense_Mutation_p.F776S|KCNQ5_uc011dyk.1_Missense_Mutation_p.F636S	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	886					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		ACAGACACTTTTGATGCCGCA	0.502													8	110					0	0	1	0	0		C	73904995	C	C	73904995	3	2	82	1	0	0	0	0	1	0	0	0	8102	1841	64	3	2772	3	KCNQ5	6	73904995	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	662	73904995	97210072	493	50949											
CD109	135228	broad.mit.edu	37	chr6	74493439	74493439	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgacttcagttacaggatTtaccaagaatttgaagtaac	14	13	7	7	0	1	3	1	2	0	1	1	4	1	4	1	1	3	2	1	1	6	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:74493439T>G	uc003php.2	+	19	2540	c.2115T>G	c.(2113-2115)ATT>ATG	p.I705M	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Missense_Mutation_p.I705M|CD109_uc010kba.2_Missense_Mutation_p.I628M	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	705						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						GTTACAGGATTTACCAAGAAT	0.343													11	31					0	0	1	0	0		G	74493439	G	G	74493439	3	3	82	1	0	0	0	0	1	0	0	0	2966	1829	64	5	2189	5	CD109	6	74493439	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	588444	74493439	96621628	494	50950											
TPBG	7162	broad.mit.edu	37	chr6	83075691	83075691	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgggtcctcttggaactcaAcagtgctgacctggactgtg	7	11	12	11	1	2	1	1	1	1	0	4	3	3	3	2	3	3	1	2	3	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:83075691A>C	uc003pjn.3	+	3	1949	c.1013A>C	c.(1012-1014)AAC>ACC	p.N338T	TPBG_uc010kbj.2_Missense_Mutation_p.N338T|TPBG_uc003pjo.2_Missense_Mutation_p.N338T	NM_006670	NP_006661	Q13641	TPBG_HUMAN	trophoblast glycoprotein precursor	338	Extracellular (Potential).|LRRCT.				cell adhesion	integral to plasma membrane				central_nervous_system(1)	1		all_cancers(76;0.000805)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0897)		BRCA - Breast invasive adenocarcinoma(397;0.107)		TTGGAACTCAACAGTGCTGAC	0.512													27	71					0	0	1	0	0		C	83075691	C	C	83075691	3	2	82	1	0	0	0	0	1	0	0	0	16420	43	2	5	1015	5	TPBG	6	83075691	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	8582252	83075691	88039376	495	50951											
RARS2	57038	broad.mit.edu	37	chr6	88231202	88231202	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacatatatcattgtatcaaAattatacttgtccattcgat	14	16	3	8	1	2	0	2	0	0	0	4	1	3	0	1	0	1	1	1	0	7	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:88231202A>C	uc003pme.2	-	12	1075	c.1015T>G	c.(1015-1017)TTT>GTT	p.F339V	RARS2_uc003pmb.2_Missense_Mutation_p.F164V|RARS2_uc003pmc.2_Missense_Mutation_p.F164V|RARS2_uc003pmd.2_Translation_Start_Site|RARS2_uc003pmf.2_RNA	NM_020320	NP_064716	Q5T160	SYRM_HUMAN	arginyl-tRNA synthetase 2, mitochondrial	339					arginyl-tRNA aminoacylation	mitochondrial matrix	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|central_nervous_system(1)	3		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0456)		ATTGTATCAAAATTATACTTG	0.343													12	33					0	0	1	0	0		C	88231202	C	C	88231202	3	2	82	1	0	0	0	0	1	0	0	0	13084	14	1	5	757	5	RARS2	6	88231202	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5155511	88231202	82883865	496	50952											
MDN1	23195	broad.mit.edu	37	chr6	90368543	90368543	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaggctcctgtggactcTgactttcgttctggtcggtc	3	14	11	13	2	3	1	1	1	2	0	7	2	4	2	2	4	0	2	2	4	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:90368543T>A	uc003pnn.1	-	89	14923	c.14807A>T	c.(14806-14808)CAG>CTG	p.Q4936L		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4936					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CTGTGGACTCTGACTTTCGTT	0.493													30	127					0	0	1	0	0		A	90368543	A	A	90368543	3	1	82	1	0	0	0	0	1	0	0	0	9433	1580	55	5	2039	5	MDN1	6	90368543	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2137341	90368543	80746524	497	50953											
PRDM13	59336	broad.mit.edu	37	chr6	100062409	100062409	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatacgccctaccgctgcgAgttctgcggcaaggtacttg	8	9	11	13	4	1	0	0	0	1	0	1	1	1	0	2	2	5	4	2	2	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:100062409A>C	uc003pqg.1	+	4	2159	c.1898A>C	c.(1897-1899)GAG>GCG	p.E633A		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	633	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		TACCGCTGCGAGTTCTGCGGC	0.657													9	26					0	0	1	0	0		C	100062409	C	C	100062409	3	2	82	1	0	0	0	0	1	0	0	0	12476	304	11	5	1912	5	PRDM13	6	100062409	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	9693866	100062409	71052658	498	50954											
MICAL1	64780	broad.mit.edu	37	chr6	109770629	109770629	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggcatccctgtatctgtcTtgtcgttgttcctctgcaca	4	16	8	13	1	3	0	0	0	3	0	6	0	5	0	2	1	1	5	2	1	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:109770629T>C	uc003ptj.2	-	10	1744	c.1490A>G	c.(1489-1491)AAG>AGG	p.K497R	MICAL1_uc003ptk.2_Missense_Mutation_p.K497R|MICAL1_uc010kdr.2_Missense_Mutation_p.K411R|MICAL1_uc011eaq.1_Missense_Mutation_p.K516R	NM_022765	NP_073602	Q8TDZ2	MICA1_HUMAN	microtubule associated monoxygenase, calponin	497					cytoskeleton organization|signal transduction	cytoplasm|intermediate filament	SH3 domain binding|zinc ion binding			breast(2)|ovary(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		TGTATCTGTCTTGTCGTTGTT	0.592													10	94					0	0	1	0	0		C	109770629	C	C	109770629	3	2	82	1	0	0	0	0	1	0	0	0	9587	1609	56	3	1773	3	MICAL1	6	109770629	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	9708220	109770629	61344438	499	50955											
CDK19	23097	broad.mit.edu	37	chr6	110988698	110988698	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccatcaagaatctggtaaAgtaaggatttaaccatagat	17	11	7	6	0	2	2	1	0	1	2	2	3	2	3	2	2	2	2	2	2	8	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:110988698A>C	uc003puh.1	-	4	468	c.395T>G	c.(394-396)CTT>CGT	p.L132R	CDK19_uc003pui.1_Missense_Mutation_p.L72R	NM_015076	NP_055891	Q9BWU1	CDK19_HUMAN	cell division cycle 2-like 6 (CDK8-like)	132	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						AATCTGGTAAAGTAAGGATTT	0.313													5	63					0	0	1	0	0		C	110988698	C	C	110988698	3	2	82	1	0	0	0	0	1	0	0	0	3138	72	3	5	1153	5	CDK19	6	110988698	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1218069	110988698	60126369	500	50956											
KIAA1919	91749	broad.mit.edu	37	chr6	111588294	111588294	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtgaagcacttgccagAaaccaggacaaaagggacta	16	5	10	10	0	0	2	0	1	0	1	0	4	0	4	3	2	3	1	3	2	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:111588294A>G	uc003puv.3	+	4	1951	c.1529A>G	c.(1528-1530)GAA>GGA	p.E510G		NM_153369	NP_699200	Q5TF39	NAGT1_HUMAN	sodium-dependent glucose transporter 1	510	Cytoplasmic (Potential).				carbohydrate transport|sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(3)	3		all_cancers(87;2.35e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.055)|all cancers(137;0.0871)|Epithelial(106;0.0884)		CACTTGCCAGAAACCAGGACA	0.438													7	75					0	0	1	0	0		G	111588294	G	G	111588294	3	3	82	1	0	0	0	0	1	0	0	0	8278	246	9	3	1543	3	KIAA1919	6	111588294	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	599596	111588294	59526773	501	50957											
RFPL4B	442247	broad.mit.edu	37	chr6	112671189	112671189	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaggagctccggcatttTcgggaggatgtgaccctgga	8	8	17	8	2	0	1	0	1	0	0	2	6	1	6	2	6	1	2	2	6	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:112671189T>C	uc003pvx.1	+	3	591	c.279T>C	c.(277-279)TTT>TTC	p.F93F		NM_001013734	NP_001013756	Q6ZWI9	RFPLB_HUMAN	ret finger protein-like 4B	93	B30.2/SPRY.						zinc ion binding				0		all_cancers(87;9.44e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00265)|Colorectal(196;0.0209)		all cancers(137;0.0202)|OV - Ovarian serous cystadenocarcinoma(136;0.0477)|Epithelial(106;0.0646)|GBM - Glioblastoma multiforme(226;0.0866)|BRCA - Breast invasive adenocarcinoma(108;0.244)		TCCGGCATTTTCGGGAGGATG	0.522													14	35					0	0	1	0	0		C	112671189	C	C	112671189	2	2	82	1	0	0	0	0	0	0	0	1	13281	1780	62	3		3	RFPL4B	6	112671189	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1082895	112671189	58443878	502	50958											
HS3ST5	222537	broad.mit.edu	37	chr6	114379073	114379073	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgcccttaccataattcTcatcattatcaaaaaagtgg	15	12	4	10	0	3	0	3	0	1	0	4	0	3	0	2	1	2	0	2	1	7	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:114379073T>G	uc003pwg.3	-	2	421	c.389A>C	c.(388-390)GAG>GCG	p.E130A	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.E130A	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	130	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		ACCATAATTCTCATCATTATC	0.433													36	95					0	0	1	0	0		G	114379073	G	G	114379073	3	3	82	1	0	0	0	0	1	0	0	0	7384	1551	54	5	655	5	HS3ST5	6	114379073	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1707884	114379073	56735994	503	50959											
GPRC6A	222545	broad.mit.edu	37	chr6	117113360	117113360	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatacacttgtggcatttTccctgcatatgtgtgcaaat	10	15	8	8	0	0	1	0	0	0	1	1	1	1	1	1	1	3	3	1	1	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:117113360T>A	uc003pxj.1	-	6	2748	c.2726A>T	c.(2725-2727)GAA>GTA	p.E909V	GPRC6A_uc003pxk.1_Missense_Mutation_p.E734V|GPRC6A_uc003pxl.1_Missense_Mutation_p.E838V	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	909	Cytoplasmic (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		TGTGGCATTTTCCCTGCATAT	0.423													8	161					0	0	1	0	0		A	117113360	A	A	117113360	3	1	82	1	0	0	0	0	1	0	0	0	6744	1783	62	5	58	5	GPRC6A	6	117113360	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2734287	117113360	54001707	504	50960											
GPRC6A	222545	broad.mit.edu	37	chr6	117128056	117128056	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaataccacaatgacattaAcctgggcttctaaaatgatt	16	11	6	8	0	1	2	0	2	1	0	1	3	1	2	2	1	2	1	2	1	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:117128056A>C	uc003pxj.1	-	3	834	c.812T>G	c.(811-813)GTT>GGT	p.V271G	GPRC6A_uc003pxk.1_Splice_Site_p.Q270_splice|GPRC6A_uc003pxl.1_Missense_Mutation_p.V271G	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	271	Extracellular (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		AATGACATTAACCTGGGCTTC	0.348													16	92					0	0	1	0	0		C	117128056	C	C	117128056	3	2	82	1	0	0	0	0	1	0	0	0	6744	43	2	5	1984	5	GPRC6A	6	117128056	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	14696	117128056	53987011	505	50961											
TRMT11	60487	broad.mit.edu	37	chr6	126333946	126333946	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatcagagaatctacaagaAgaacaggttcacagaaggag	18	6	11	6	0	3	4	2	0	1	4	3	6	3	5	0	2	2	2	0	2	7	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:126333946A>C	uc003qam.2	+	10	1076	c.955A>C	c.(955-957)AGA>CGA	p.R319R	TRMT11_uc003qan.2_RNA|TRMT11_uc010kev.2_Silent_p.R319R	NM_001031712	NP_001026882	Q7Z4G4	TRM11_HUMAN	tRNA methyltransferase 11	319					tRNA processing		methyltransferase activity|nucleic acid binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0356)		ATCTACAAGAAGAACAGGTTC	0.383													13	50					0	0	1	0	0		C	126333946	C	C	126333946	2	2	82	1	0	0	0	0	0	0	0	1	16588	64	3	5		5	TRMT11	6	126333946	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	9205890	126333946	44781121	506	50962											
ENPP3	5169	broad.mit.edu	37	chr6	132014759	132014759	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggatcaacagtggctggcTgttaggttcgtgtatctgtt	6	15	14	6	1	2	0	1	0	1	0	3	1	2	1	0	4	1	6	0	4	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:132014759T>C	uc003qcu.3	+	16	1754	c.1407T>C	c.(1405-1407)GCT>GCC	p.A469A	ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Silent_p.A469A	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	469	Extracellular (Potential).|Phosphodiesterase.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		AGTGGCTGGCTGTTAGGTTCG	0.398													30	120					0	0	1	0	0		C	132014759	C	C	132014759	2	2	82	1	0	0	0	0	0	0	0	1	5139	1567	55	3		3	ENPP3	6	132014759	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5680813	132014759	39100308	507	50963											
ALDH8A1	64577	broad.mit.edu	37	chr6	135239997	135239997	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaagagctctcttgacgtaActtctgacctgcgtgggtaa	9	11	11	10	2	2	3	0	2	2	1	3	3	2	3	1	1	3	4	1	1	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:135239997A>C	uc003qew.2	-	7	1073	c.1020T>G	c.(1018-1020)AGT>AGG	p.S340R	ALDH8A1_uc003qex.2_Missense_Mutation_p.S286R|ALDH8A1_uc010kgh.2_Missense_Mutation_p.S118R|ALDH8A1_uc011ecx.1_Missense_Mutation_p.S290R	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	340					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		TCTTGACGTAACTTCTGACCT	0.458													12	108					0	0	1	0	0		C	135239997	C	C	135239997	3	2	82	1	0	0	0	0	1	0	0	0	505	40	2	5	447	5	ALDH8A1	6	135239997	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3225238	135239997	35875070	508	50964											
GRM1	2911	broad.mit.edu	37	chr6	146351241	146351241	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcgacctgagtgacaaaacTttgtacaaatacttcctgag	14	11	7	9	1	0	3	0	3	0	0	2	4	1	3	2	0	3	1	2	0	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:146351241T>G	uc010khw.1	+	2	1058	c.588T>G	c.(586-588)ACT>ACG	p.T196T	GRM1_uc010khu.1_Silent_p.T196T|GRM1_uc010khv.1_Silent_p.T196T|GRM1_uc003qll.2_Silent_p.T196T|GRM1_uc011edz.1_Silent_p.T196T|GRM1_uc011eea.1_Silent_p.T196T	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	196	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GTGACAAAACTTTGTACAAAT	0.493													28	94					0	0	1	0	0		G	146351241	G	G	146351241	2	3	82	1	0	0	0	0	0	0	0	1	6812	1596	56	5		5	GRM1	6	146351241	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	11111244	146351241	24763826	509	50965											
GRM1	2911	broad.mit.edu	37	chr6	146755850	146755850	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagctcccccgtgtccgAgtcggtgctctgcacccctc	3	8	10	20	3	1	0	0	0	1	0	5	1	3	0	6	1	3	3	6	1	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:146755850A>C	uc010khw.1	+	9	3973	c.3503A>C	c.(3502-3504)GAG>GCG	p.E1168A	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	1168	Ser-rich.|Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CCCGTGTCCGAGTCGGTGCTC	0.632													17	60					0	0	1	0	0		C	146755850	C	C	146755850	3	2	82	1	0	0	0	0	1	0	0	0	6812	304	11	5	3598	5	GRM1	6	146755850	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	404609	146755850	24359217	510	50966											
TAB2	23118	broad.mit.edu	37	chr6	149699164	149699164	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttcatagaataataataAcctggatgcctgctgtgctg	11	14	9	7	0	1	1	1	0	0	1	1	2	1	2	2	1	4	3	2	1	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:149699164A>T	uc003qmj.2	+	3	291	c.113A>T	c.(112-114)AAC>ATC	p.N38I	TAB2_uc011eec.1_Missense_Mutation_p.N6I|TAB2_uc010kia.1_Missense_Mutation_p.N38I|TAB2_uc010kib.1_Missense_Mutation_p.N38I|TAB2_uc003qmk.3_RNA	NM_015093	NP_055908	Q9NYJ8	TAB2_HUMAN	mitogen-activated protein kinase kinase kinase 7	38	CUE.				activation of MAPK activity|heart development|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	K63-linked polyubiquitin binding|zinc ion binding				0						AATAATAATAACCTGGATGCC	0.338													15	27					0	0	1	0	0		T	149699164	T	T	149699164	3	4	82	1	0	0	0	0	1	0	0	0	15521	43	2	5	119	5	TAB2	6	149699164	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2943314	149699164	21415903	511	50967											
RAET1E	135250	broad.mit.edu	37	chr6	150209679	150209679	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagcctgccactcaccattTtgccaccagacacagatgag	11	7	7	16	0	1	3	1	1	0	2	1	3	1	3	6	0	3	0	6	0	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:150209679T>G	uc003qnl.1	-	4	807	c.747A>C	c.(745-747)CAA>CAC	p.Q249H	uc003qni.1_Intron|RAET1E_uc003qnj.2_Intron|RAET1E_uc003qnk.1_Missense_Mutation_p.Q213H|RAET1E_uc010kih.1_RNA	NM_139165	NP_631904	Q8TD07	N2DL4_HUMAN	retinoic acid early transcript 1E precursor	249	Cytoplasmic (Potential).				antigen processing and presentation|immune response|regulation of immune response	integral to membrane|MHC class I protein complex	protein binding				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.58e-12)		ACTCACCATTTTGCCACCAGA	0.507													13	100					0	0	1	0	0		G	150209679	G	G	150209679	3	3	82	1	0	0	0	0	1	0	0	0	13024	1838	64	5	48	5	RAET1E	6	150209679	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	510515	150209679	20905388	512	50968											
PLEKHG1	57480	broad.mit.edu	37	chr6	151152705	151152705	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgactctcccagtggtaacTtgtctatgcctcataagcct	9	13	7	12	0	3	1	1	1	2	0	4	1	3	1	3	1	3	1	3	1	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:151152705T>G	uc003qny.1	+	16	2770	c.2458T>G	c.(2458-2460)TTG>GTG	p.L820V	PLEKHG1_uc011eel.1_Missense_Mutation_p.L860V|PLEKHG1_uc011eem.1_Missense_Mutation_p.L879V|PLEKHG1_uc003qnz.2_Missense_Mutation_p.L820V	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	820					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		CAGTGGTAACTTGTCTATGCC	0.458													27	93					0	0	1	0	0		G	151152705	G	G	151152705	3	3	82	1	0	0	0	0	1	0	0	0	12087	1606	56	5	2512	5	PLEKHG1	6	151152705	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	943026	151152705	19962362	513	50969											
SERAC1	84947	broad.mit.edu	37	chr6	158537312	158537312	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttctgaatgcaatggacTttctgaacaaaacaaaaaca	17	10	6	8	0	2	2	0	2	2	0	2	3	2	3	0	1	5	2	0	1	7	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:158537312T>C	uc003qrc.2	-	14	1548	c.1406A>G	c.(1405-1407)AAG>AGG	p.K469R	SERAC1_uc003qrb.2_Missense_Mutation_p.K197R	NM_032861	NP_116250	Q96JX3	SRAC1_HUMAN	serine active site containing 1	469					GPI anchor metabolic process|intracellular protein transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	binding|hydrolase activity, acting on ester bonds				0		Breast(66;0.00519)|Ovarian(120;0.123)|Prostate(117;0.178)		OV - Ovarian serous cystadenocarcinoma(65;1.37e-18)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)		TGCAATGGACTTTCTGAACAA	0.433													23	45					0	0	1	0	0		C	158537312	C	C	158537312	3	2	82	1	0	0	0	0	1	0	0	0	14099	1609	56	3	574	3	SERAC1	6	158537312	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7384607	158537312	12577755	514	50970											
FNDC1	84624	broad.mit.edu	37	chr6	159653494	159653494	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtggactcagacgaagaTgagcgcgctgtgggctccct	7	9	15	10	3	1	3	1	1	0	2	2	5	2	4	1	3	1	2	1	3	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:159653494T>G	uc010kjv.2	+	11	2150	c.1950T>G	c.(1948-1950)GAT>GAG	p.D650E	FNDC1_uc010kjw.1_Missense_Mutation_p.D535E	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	650						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		CAGACGAAGATGAGCGCGCTG	0.687													11	58					0	0	1	0	0		G	159653494	G	G	159653494	3	3	82	1	0	0	0	0	1	0	0	0	5982	1461	51	5	1992	5	FNDC1	6	159653494	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1116182	159653494	11461573	515	50971											
LPA	4018	broad.mit.edu	37	chr6	160953592	160953592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagtgcctctggccaaatGctcagcacaaatatacttat	12	11	7	11	0	3	0	2	0	1	0	3	0	3	0	2	1	4	2	2	1	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:160953592G>A	uc003qtl.2	-	39	6052	c.5932C>T	c.(5932-5934)CAT>TAT	p.H1978Y		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4486	Peptidase S1.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	CTGGCCAAATGCTCAGCACAA	0.458													8	49					0	0	1	0	0		A	160953592	A	A	160953592	3	1	82	1	0	0	0	0	1	0	0	0	8921	1319	46	2	198	2	LPA	6	160953592	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1300098	160953592	10161475	516	50972											
LPA	4018	broad.mit.edu	37	chr6	161022106	161022106	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccacaggatctggattTcggcagtagttcttgatcaa	9	12	11	9	1	3	1	1	1	2	0	4	3	3	3	1	3	1	4	1	3	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:161022106T>C	uc003qtl.2	-	20	3090	c.2970A>G	c.(2968-2970)CGA>CGG	p.R990R		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3498	Kringle 31.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	GATCTGGATTTCGGCAGTAGT	0.448													19	59					0	0	1	0	0		C	161022106	C	C	161022106	2	2	82	1	0	0	0	0	0	0	0	1	8921	1770	62	3		3	LPA	6	161022106	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	68514	161022106	10092961	517	50973											
UNC93A	54346	broad.mit.edu	37	chr6	167717594	167717594	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtacagtggattgcagcaAggattcctctccagcgaata	11	10	10	10	1	1	0	0	0	1	0	3	3	2	2	2	2	4	3	2	2	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr6:167717594A>C	uc003qvq.2	+	5	988	c.813A>C	c.(811-813)CAA>CAC	p.Q271H	UNC93A_uc003qvr.2_Missense_Mutation_p.Q229H	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	271	Helical; (Potential).					integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GATTGCAGCAAGGATTCCTCT	0.358													40	118					0	0	1	0	0		C	167717594	C	C	167717594	3	2	82	1	0	0	0	0	1	0	0	0	17022	69	3	5	831	5	UNC93A	6	167717594	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6695488	167717594	3397473	518	50974											
FOXK1	221937	broad.mit.edu	37	chr7	4800889	4800889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agaacggaaagcatgcggttCccacgaacagtttagccggc	12	6	12	11	4	0	1	0	0	0	1	1	3	1	2	2	3	5	3	2	3	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:4800889C>T	uc003snc.1	+	8	1901	c.1891C>T	c.(1891-1893)CCC>TCC	p.P631S	FOXK1_uc003sna.1_Missense_Mutation_p.P468S	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	forkhead box K1	631					cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		GCATGCGGTTCCCACGAACAG	0.637													12	19					0	0	1	0	0		T	4800889	T	T	4800889	3	4	82	1	0	0	0	0	1	0	0	0	6028	855	30	4	1921	4	FOXK1	7	4800889	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08		4800889	154337774	519	50975											
WIPI2	26100	broad.mit.edu	37	chr7	5254322	5254322	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacacgattctggctgtgaAgctcaacaggcaggtgagcg	11	7	13	10	2	2	2	1	2	1	0	2	3	2	2	0	3	4	3	0	3	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:5254322A>C	uc003snv.2	+	4	584	c.368A>C	c.(367-369)AAG>ACG	p.K123T	WIPI2_uc003snw.2_Missense_Mutation_p.K123T|WIPI2_uc003snx.2_Missense_Mutation_p.K105T|WIPI2_uc003sny.2_Missense_Mutation_p.K105T|WIPI2_uc010ksv.2_5'UTR|WIPI2_uc003snz.2_Missense_Mutation_p.K64T|WIPI2_uc003soa.2_Missense_Mutation_p.K64T	NM_015610	NP_056425	Q9Y4P8	WIPI2_HUMAN	WD repeat domain, phosphoinositide interacting 2	123					autophagic vacuole assembly	cytosol|PAS complex|pre-autophagosomal structure membrane	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding			ovary(2)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0925)|OV - Ovarian serous cystadenocarcinoma(56;2.59e-14)		CTGGCTGTGAAGCTCAACAGG	0.567													8	116					0	0	1	0	0		C	5254322	C	C	5254322	3	2	82	1	0	0	0	0	1	0	0	0	17397	72	3	5	416	5	WIPI2	7	5254322	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	453433	5254322	153884341	520	50976											
PMS2	5395	broad.mit.edu	37	chr7	6026899	6026899	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacccctcagaatccacggaAgtgctgccgtgccccgagtc	9	6	10	16	3	1	1	1	0	0	1	3	3	2	2	6	1	4	1	6	1	3	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:6026899A>C	uc003spl.2	-	11	1584	c.1497T>G	c.(1495-1497)ACT>ACG	p.T499T	PMS2_uc003spj.2_Silent_p.T393T|PMS2_uc003spk.2_Silent_p.T364T|PMS2_uc011jwl.1_Silent_p.T364T|PMS2_uc010ktg.2_Silent_p.T188T|PMS2_uc010kte.2_Intron|PMS2_uc010ktf.1_Silent_p.T499T	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	499					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		AATCCACGGAAGTGCTGCCGT	0.632			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				33	74					0	0	1	0	0		C	6026899	C	C	6026899	2	2	82	1	0	0	0	0	0	0	0	1	12162	59	3	5		5	PMS2	7	6026899	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	772577	6026899	153111764	521	50977											
USP42	84132	broad.mit.edu	37	chr7	6193751	6193751	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaagccccggaagggttgAgtccggctccgcctgcgcgg	5	5	17	14	6	0	1	0	1	0	0	2	3	2	3	5	5	2	2	5	5	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:6193751A>G	uc011jwo.1	+	15	2689	c.2566A>G	c.(2566-2568)AGT>GGT	p.S856G	USP42_uc011jwp.1_Missense_Mutation_p.S856G|USP42_uc011jwq.1_Missense_Mutation_p.S663G|USP42_uc011jwr.1_Missense_Mutation_p.S701G	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	856	Pro-rich.				cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		GGAAGGGTTGAGTCCGGCTCC	0.701													7	32					0	0	1	0	0		G	6193751	G	G	6193751	3	3	82	1	0	0	0	0	1	0	0	0	17099	304	11	3		3	USP42	7	6193751	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	166852	6193751	152944912	522	50978											
FAM126A	84668	broad.mit.edu	37	chr7	22999995	22999995	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttccttattagatttcaTgggaccatgaggcaatgaag	12	12	9	8	0	1	3	1	2	0	1	2	4	2	4	3	2	0	1	3	2	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:22999995T>G	uc003svm.3	-	10	1126	c.871A>C	c.(871-873)ATG>CTG	p.M291L	FAM126A_uc003svn.3_Missense_Mutation_p.M147L	NM_032581	NP_115970	Q9BYI3	HYCCI_HUMAN	family with sequence similarity 126, member A	291						cytoplasm|membrane	signal transducer activity			central_nervous_system(1)	1						TTAGATTTCATGGGACCATGA	0.363													7	119					0	0	1	0	0		G	22999995	G	G	22999995	3	3	82	1	0	0	0	0	1	0	0	0	5440	1464	51	5	702	5	FAM126A	7	22999995	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	16806244	22999995	136138668	523	50979											
HOXA9	3205	broad.mit.edu	37	chr7	27204678	27204678	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggccgacagcggttcaggTttaatgccataaggccggct	8	9	13	11	3	1	0	1	0	0	0	1	1	1	0	3	5	2	3	3	5	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:27204678T>G	uc003syt.2	-	1	472	c.399A>C	c.(397-399)AAA>AAC	p.K133N		NM_152739	NP_689952	P31269	HXA9_HUMAN	homeobox A9	133							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)	2						GCGGTTCAGGTTTAATGCCAT	0.627			T	NUP98|MSI2	AML*								5	21					0	0	1	0	0		G	27204678	G	G	27204678	3	3	82	1	0	0	0	0	1	0	0	0	7314	1722	60	5	427	5	HOXA9	7	27204678	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4204683	27204678	131933985	524	50980											
TAX1BP1	8887	broad.mit.edu	37	chr7	27832746	27832746	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagatctgaaactccgtcTtcagatggctgcagaccatt	11	11	9	10	1	3	5	1	2	2	3	4	5	4	5	2	1	2	2	2	1	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:27832746T>G	uc003szl.2	+	10	1483	c.1325T>G	c.(1324-1326)CTT>CGT	p.L442R	TAX1BP1_uc011jzo.1_Missense_Mutation_p.L442R|TAX1BP1_uc003szk.2_Missense_Mutation_p.L442R|TAX1BP1_uc011jzp.1_Missense_Mutation_p.L285R	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	442	Potential.				anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)			AAACTCCGTCTTCAGATGGCT	0.323													7	41					0	0	1	0	0		G	27832746	G	G	27832746	3	3	82	1	0	0	0	0	1	0	0	0	15619	1609	56	5	1359	5	TAX1BP1	7	27832746	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	628068	27832746	131305917	525	50981											
C7orf16	10842	broad.mit.edu	37	chr7	31735091	31735091	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaaaattagatgatcttTcagaccagttcattaaggac	14	13	7	7	0	4	3	3	1	1	2	4	4	4	4	1	1	0	1	1	1	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:31735091T>G	uc003tcl.2	+	3	249	c.91T>G	c.(91-93)TCA>GCA	p.S31A	C7orf16_uc011kaf.1_Intron	NM_006658	NP_006649	O96001	GSUB_HUMAN	G-substrate isoform 1	31					behavior|central nervous system development|intracellular protein kinase cascade|protein phosphorylation	soluble fraction				ovary(2)|central_nervous_system(1)	3			GBM - Glioblastoma multiforme(11;0.216)			AGATGATCTTTCAGACCAGTT	0.363													19	69					0	0	1	0	0		G	31735091	G	G	31735091	3	3	82	1	0	0	0	0	1	0	0	0	2381	1783	62	5	97	5	C7orf16	7	31735091	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3902345	31735091	127403572	526	50982											
ANLN	54443	broad.mit.edu	37	chr7	36463463	36463463	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttaattatactaaaagcAggagctgaaaatatggtagc	17	11	8	5	0	0	1	0	1	0	0	0	2	0	2	0	2	5	3	0	2	10	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:36463463A>G	uc003tff.2	+	15	2718	c.2514A>G	c.(2512-2514)GCA>GCG	p.A838A	ANLN_uc011kaz.1_Silent_p.A750A|ANLN_uc003tfg.2_Silent_p.A801A|ANLN_uc010kxe.2_Silent_p.A800A	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	838	Localization to the cleavage furrow.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						TACTAAAAGCAGGAGCTGAAA	0.333													9	47					0	0	1	0	0		G	36463463	G	G	36463463	2	3	82	1	0	0	0	0	0	0	0	1	694	175	7	3		3	ANLN	7	36463463	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4728372	36463463	122675200	527	50983											
GLI3	2737	broad.mit.edu	37	chr7	42005617	42005617	+	Silent	SNP	C	A	A																															ctgaagcgcggcacacgaggCagggccaggccctcggagcc																										TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:42005617C>A	uc011kbh.1	-	15	3145	c.3054G>T	c.(3052-3054)CTG>CTT	p.L1018L	GLI3_uc011kbg.1_Silent_p.L959L	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1018					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GCACACGAGGCAGGGCCAGGC	0.726									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				7	13					2.0095e-06	2.02063e-06	1	1	0		A	42005617	A	A	42005617	2	1	82	1	0	0	0	0	0	0	0	1	6454	697	25	5		5	GLI3	7	42005617	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	5542154	42005617	117133046	528	50984	95	2									
GLI3	2737	broad.mit.edu	37	chr7	42005620	42005620	+	Silent	SNP	G	A	A																															aagcgcggcacacgaggcagGgccaggccctcggagcctgt																										TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:42005620G>A	uc011kbh.1	-	15	3142	c.3051C>T	c.(3049-3051)GCC>GCT	p.A1017A	GLI3_uc011kbg.1_Silent_p.A958A	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1017					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CACGAGGCAGGGCCAGGCCCT	0.726									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				7	13					0	0	1	0	0		A	42005620	A	A	42005620	2	1	82	1	0	0	0	0	0	0	0	1	6454	1219	43	4		4	GLI3	7	42005620	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	3	42005620	117133043	529	50985	95	2									
MRPL32	64983	broad.mit.edu	37	chr7	42977040	42977040	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacgacagatagggaagcaAgaagggggcccttttaaggc	14	5	15	7	1	0	3	0	0	0	3	0	5	0	4	1	4	1	1	1	4	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:42977040A>T	uc003tia.2	+	3	479	c.432A>T	c.(430-432)CAA>CAT	p.Q144H	MRPL32_uc003tib.2_RNA|MRPL32_uc003tic.2_Missense_Mutation_p.Q91H	NM_031903	NP_114109	Q9BYC8	RM32_HUMAN	mitochondrial ribosomal protein L32 precursor	144					translation	large ribosomal subunit|mitochondrial ribosome	structural constituent of ribosome				0						TAGGGAAGCAAGAAGGGGGCC	0.498													12	41					0	0	1	0	0		T	42977040	T	T	42977040	3	4	82	1	0	0	0	0	1	0	0	0	9813	69	3	5	442	5	MRPL32	7	42977040	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	971420	42977040	116161623	530	50986											
UBE2D4	51619	broad.mit.edu	37	chr7	43978042	43978042	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttctaggaattaaccgacTtgcagagggatcctcctgcc	9	11	10	11	1	1	1	0	0	1	1	3	4	3	3	4	2	3	2	4	2	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:43978042T>C	uc003tja.1	+	2	122	c.37T>C	c.(37-39)TTG>CTG	p.L13L	UBE2D4_uc003tjb.1_5'UTR	NM_015983	NP_057067	Q9Y2X8	UB2D4_HUMAN	ubiquitin-conjugating enzyme E2D 4 (putative)	13					protein K11-linked ubiquitination|protein K27-linked ubiquitination|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|protein K63-linked ubiquitination		ATP binding|protein binding|ubiquitin-protein ligase activity				0						ATTAACCGACTTGCAGAGGGA	0.488													10	90					0	0	1	0	0		C	43978042	C	C	43978042	2	2	82	1	0	0	0	0	0	0	0	1	16877	1606	56	3		3	UBE2D4	7	43978042	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1001002	43978042	115160621	531	50987											
POLD2	5425	broad.mit.edu	37	chr7	44156474	44156474	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggttgccagcgaggataAcccgggagacgtgggcggcg	8	4	20	9	5	0	1	0	0	0	1	0	5	0	3	2	6	3	1	2	6	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:44156474A>C	uc010kxz.2	-	7	1372	c.722T>G	c.(721-723)GTT>GGT	p.V241G	POLD2_uc003tke.3_Missense_Mutation_p.V241G|POLD2_uc010kya.2_Missense_Mutation_p.V241G|POLD2_uc003tkf.3_Missense_Mutation_p.V241G	NM_006230	NP_006221	P49005	DPOD2_HUMAN	DNA-directed DNA polymerase delta 2	241					base-excision repair|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	DNA binding|DNA-directed DNA polymerase activity|protein binding			ovary(2)	2						AGCGAGGATAACCCGGGAGAC	0.652													9	39					0	0	1	0	0		C	44156474	C	C	44156474	3	2	82	1	0	0	0	0	1	0	0	0	12210	43	2	5	711	5	POLD2	7	44156474	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	178432	44156474	114982189	532	50988											
CAMK2B	816	broad.mit.edu	37	chr7	44260282	44260282	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccagtgcttcaggctcaaaCgaggtcagccctgggtcaca	9	7	11	14	1	4	0	4	0	0	0	4	1	4	0	2	3	3	2	2	3	1	1	rs71743307		TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:44260282C>T	uc003tkq.2	-	22	1911	c.1701G>A	c.(1699-1701)TCG>TCA	p.S567S	CAMK2B_uc003tkp.2_Silent_p.S443S|CAMK2B_uc003tkx.2_Silent_p.S403S|CAMK2B_uc010kyd.2_RNA|CAMK2B_uc003tkr.2_Silent_p.S419S|CAMK2B_uc003tks.2_Silent_p.S418S|CAMK2B_uc003tku.2_Silent_p.S404S|CAMK2B_uc003tkv.2_Silent_p.S380S|CAMK2B_uc003tkt.2_Intron|CAMK2B_uc003tkw.2_Silent_p.S350S|CAMK2B_uc010kyc.2_Silent_p.S443S|CAMK2B_uc003tkn.2_Silent_p.S200S	NM_001220	NP_001211	Q13554	KCC2B_HUMAN	calcium/calmodulin-dependent protein kinase II	567					interferon-gamma-mediated signaling pathway|synaptic transmission	cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)|ovary(1)	2						CAGGCTCAAACGAGGTCAGCC	0.617													4	26					0	0	1	0	0		T	44260282	T	T	44260282	2	4	82	1	0	0	0	0	0	0	0	1	2603	523	19	1		1	CAMK2B	7	44260282	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	103808	44260282	114878381	533	50989											
HUS1	3364	broad.mit.edu	37	chr7	48007476	48007476	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcctaatatctatgtgcacTtcagccatgtgttccacgtt	8	16	6	11	1	2	0	1	0	1	0	4	0	4	0	3	0	2	3	3	0	3	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:48007476T>G	uc003tod.1	-	7	817	c.687A>C	c.(685-687)GAA>GAC	p.E229D	HUS1_uc003toe.1_Missense_Mutation_p.E229D|HUS1_uc011kce.1_RNA	NM_004507	NP_004498	O60921	HUS1_HUMAN	HUS1 checkpoint protein	229					DNA damage checkpoint|DNA replication	Golgi apparatus|nucleolus|nucleoplasm	protein binding			ovary(2)|lung(2)|kidney(1)	5		Breast(660;0.00139)				CTATGTGCACTTCAGCCATGT	0.418								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					12	76					0	0	1	0	0		G	48007476	G	G	48007476	3	3	82	1	0	0	0	0	1	0	0	0	7475	1606	56	5	163	5	HUS1	7	48007476	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3747194	48007476	111131187	534	50990											
SUN3	256979	broad.mit.edu	37	chr7	48056918	48056918	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatataattgtctggattTctgaggaacatctgtttctt	9	17	9	6	0	4	1	0	1	4	0	4	3	4	3	0	3	1	2	0	3	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:48056918T>C	uc003tof.2	-	4	326	c.229A>G	c.(229-231)AAA>GAA	p.K77E	SUN3_uc003tog.2_Missense_Mutation_p.K77E|SUN3_uc011kcf.1_Missense_Mutation_p.K65E	NM_152782	NP_689995	Q8TAQ9	SUN3_HUMAN	Sad1 and UNC84 domain containing 1	77						integral to membrane				central_nervous_system(1)	1						TGTCTGGATTTCTGAGGAACA	0.289													5	28					0	0	1	0	0		C	48056918	C	C	48056918	3	2	82	1	0	0	0	0	1	0	0	0	15418	1792	62	3	876	3	SUN3	7	48056918	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	49442	48056918	111081745	535	50991											
ABCA13	154664	broad.mit.edu	37	chr7	48318068	48318068	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaacagagatggcaagacTtctggatacaattttacact	14	12	7	8	0	2	2	1	0	1	2	2	4	2	3	0	2	3	1	0	2	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:48318068T>G	uc003toq.2	+	18	7302	c.7277T>G	c.(7276-7278)CTT>CGT	p.L2426R	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2426					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ATGGCAAGACTTCTGGATACA	0.378													19	60					0	0	1	0	0		G	48318068	G	G	48318068	3	3	82	1	0	0	0	0	1	0	0	0	31	1609	56	5	7176	5	ABCA13	7	48318068	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	261150	48318068	110820595	536	50992											
ABCA13	154664	broad.mit.edu	37	chr7	48319207	48319207	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacacacctttgagtcagAatataactcatcatcaactt	14	13	4	10	0	4	3	4	2	0	1	4	3	4	3	1	0	2	0	1	0	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:48319207A>C	uc003toq.2	+	18	8441	c.8416A>C	c.(8416-8418)AAT>CAT	p.N2806H	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2806					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TTTGAGTCAGAATATAACTCA	0.333													6	78					0	0	1	0	0		C	48319207	C	C	48319207	3	2	82	1	0	0	0	0	1	0	0	0	31	246	9	5	8315	5	ABCA13	7	48319207	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1139	48319207	110819456	537	50993											
ZPBP	11055	broad.mit.edu	37	chr7	50057857	50057857	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaaaagtcttttgtaaggTtcacagttatggtctgtaca	12	16	8	5	0	3	0	1	0	2	0	3	0	3	0	0	2	1	4	0	2	6	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:50057857T>G	uc003tou.2	-	6	832	c.762A>C	c.(760-762)GAA>GAC	p.E254D	ZPBP_uc011kci.1_Missense_Mutation_p.E180D|ZPBP_uc010kyw.2_Missense_Mutation_p.E253D	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	254					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					TTTTGTAAGGTTCACAGTTAT	0.333													11	53					0	0	1	0	0		G	50057857	G	G	50057857	3	3	82	1	0	0	0	0	1	0	0	0	18244	1722	60	5	305	5	ZPBP	7	50057857	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1738650	50057857	109080806	538	50994											
STAG3L4	64940	broad.mit.edu	37	chr7	66773968	66773968	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaggtctatcctggaagaAgttccagggcagcttctgtg	8	11	12	10	0	2	1	0	0	2	1	5	2	5	2	3	3	1	3	3	3	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:66773968A>C	uc003tvt.3	+	3	401	c.134A>C	c.(133-135)AAG>ACG	p.K45T	STAG3L4_uc010laj.2_RNA	NM_022906	NP_075057	Q8TBR4	STG34_HUMAN	stromal antigen 3-like 4	45											0		Lung NSC(55;0.0839)|all_lung(88;0.181)				TCCTGGAAGAAGTTCCAGGGC	0.498													21	66					0	0	1	0	0		C	66773968	C	C	66773968	3	2	82	1	0	0	0	0	1	0	0	0	15272	72	3	5	140	5	STAG3L4	7	66773968	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	16716111	66773968	92364695	539	50995											
PCLO	27445	broad.mit.edu	37	chr7	82785475	82785475	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaaacagcacttaaagcgTtaacctctgagaggaagcca	16	6	10	9	1	1	1	0	1	1	1	1	4	1	3	2	2	5	2	2	2	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:82785475T>G	uc003uhx.2	-	2	771	c.482A>C	c.(481-483)AAC>ACC	p.N161T	PCLO_uc003uhv.2_Missense_Mutation_p.N161T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	161					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ACTTAAAGCGTTAACCTCTGA	0.398													19	33					0	0	1	0	0		G	82785475	G	G	82785475	3	3	82	1	0	0	0	0	1	0	0	0	11602	1725	60	5	15059	5	PCLO	7	82785475	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	16011507	82785475	76353188	540	50996											
CROT	54677	broad.mit.edu	37	chr7	87022280	87022280	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagcggaggaggtggaaatTttgttctctcaacaagtctg	11	11	12	7	1	3	0	1	0	2	0	4	3	3	3	0	4	2	1	0	4	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:87022280T>G	uc003uit.2	+	17	1860	c.1615T>G	c.(1615-1617)TTT>GTT	p.F539V	CROT_uc003uiu.2_Missense_Mutation_p.F567V	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	539					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	AGGTGGAAATTTTGTTCTCTC	0.383													46	128					0	0	1	0	0		G	87022280	G	G	87022280	3	3	82	1	0	0	0	0	1	0	0	0	3897	1841	64	5	1761	5	CROT	7	87022280	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4236805	87022280	72116383	541	50997											
ABCB4	5244	broad.mit.edu	37	chr7	87072685	87072685	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcagctggaccgttgtgcTcttcccacagccactacttc	7	12	7	15	1	2	0	1	0	1	0	4	1	3	1	3	1	4	3	3	1	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:87072685T>C	uc003uiv.1	-	12	1382	c.1306A>G	c.(1306-1308)AGC>GGC	p.S436G	ABCB4_uc003uiw.1_Missense_Mutation_p.S436G|ABCB4_uc003uix.1_Missense_Mutation_p.S436G	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	436	ABC transporter 1.|Cytoplasmic (By similarity).|ATP 1 (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					ACCGTTGTGCTCTTCCCACAG	0.507													49	145					0	0	1	0	0		C	87072685	C	C	87072685	3	2	82	1	0	0	0	0	1	0	0	0	43	1551	54	3	2622	3	ABCB4	7	87072685	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	50405	87072685	72065978	542	50998											
ZNF804B	219578	broad.mit.edu	37	chr7	88962900	88962900	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgttgtttgtttggaaatCaggtactgcaaacatcttca	10	14	10	7	1	3	0	2	0	1	0	3	1	3	1	0	3	3	5	0	3	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:88962900C>A	uc011khi.1	+	4	1142	c.604C>A	c.(604-606)CAG>AAG	p.Q202K		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	202						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GTTTGGAAATCAGGTACTGCA	0.388										HNSCC(36;0.09)			21	67					4.96729e-08	5.00868e-08	1	1	0		A	88962900	A	A	88962900	3	1	82	1	0	0	0	0	1	0	0	0	18196	827	29	5	618	5	ZNF804B	7	88962900	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	1890215	88962900	70175763	543	50999											
CYP51A1	1595	broad.mit.edu	37	chr7	91753068	91753068	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtatgtagcatctagtaaAgtttggagaatgtcatcaat	13	15	9	4	0	3	1	2	0	1	1	3	2	3	1	0	1	1	5	0	1	7	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:91753068A>C	uc003ulm.3	-	6	1032	c.870T>G	c.(868-870)ACT>ACG	p.T290T	CYP51A1_uc011khn.1_Silent_p.T185T|CYP51A1_uc003uln.3_Silent_p.T227T	NM_000786	NP_000777	Q16850	CP51A_HUMAN	cytochrome P450, family 51, subfamily A,	284					cholesterol biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|sterol 14-demethylase activity				0	all_cancers(62;2.16e-09)|all_epithelial(64;3.86e-08)|Breast(17;0.00206)|all_lung(186;0.169)|all_hematologic(106;0.215)|Lung NSC(181;0.227)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)		Fluconazole(DB00196)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Miconazole(DB01110)|Terconazole(DB00251)	CATCTAGTAAAGTTTGGAGAA	0.353													14	40					0	0	1	0	0		C	91753068	C	C	91753068	2	2	82	1	0	0	0	0	0	0	0	1	4198	59	3	5		5	CYP51A1	7	91753068	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2790168	91753068	67385595	544	51000											
SAMD9	54809	broad.mit.edu	37	chr7	92733452	92733452	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattcattttcacagataatTtccagagcagtcatgatatc	13	14	5	9	0	3	3	3	1	0	2	5	3	4	3	1	0	1	1	1	0	2	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:92733452T>C	uc003umf.2	-	3	2215	c.1959A>G	c.(1957-1959)GAA>GAG	p.E653E	SAMD9_uc003umg.2_Silent_p.E653E	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	653						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			CACAGATAATTTCCAGAGCAG	0.363													6	113					0	0	1	0	0		C	92733452	C	C	92733452	2	2	82	1	0	0	0	0	0	0	0	1	13851	1838	64	3		3	SAMD9	7	92733452	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	980384	92733452	66405211	545	51001											
TAC1	6863	broad.mit.edu	37	chr7	97362037	97362037	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgactggtacgacagcgAccagatcaaggtgaggcccc	10	5	13	13	3	1	2	1	1	0	1	2	5	2	2	4	3	2	1	4	3	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:97362037A>C	uc003uop.3	+	2	359	c.113A>C	c.(112-114)GAC>GCC	p.D38A	TAC1_uc003uoq.3_Missense_Mutation_p.D38A|TAC1_uc003uor.3_Missense_Mutation_p.D38A|TAC1_uc003uos.3_Missense_Mutation_p.D38A	NM_003182	NP_003173	P20366	TKN1_HUMAN	tachykinin 1 isoform beta precursor	38					detection of abiotic stimulus|elevation of cytosolic calcium ion concentration|insemination|neuropeptide signaling pathway|synaptic transmission|tachykinin receptor signaling pathway	extracellular space					0	all_cancers(62;3.95e-09)|all_epithelial(64;1.1e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0358)|all_lung(186;0.0384)				Bacitracin(DB00626)	TACGACAGCGACCAGATCAAG	0.557													11	65					0	0	1	0	0		C	97362037	C	C	97362037	3	2	82	1	0	0	0	0	1	0	0	0	15523	275	10	5	115	5	TAC1	7	97362037	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4628585	97362037	61776626	546	51002											
TAC1	6863	broad.mit.edu	37	chr7	97363046	97363046	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctcccaggaggaactgccGgagccctttgagcatcttct	7	10	11	13	1	3	1	0	1	3	0	4	4	3	4	3	3	4	1	3	3	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:97363046G>A	uc003uop.3	+	3	381	c.135G>A	c.(133-135)CCG>CCA	p.P45P	TAC1_uc003uoq.3_Silent_p.P45P|TAC1_uc003uor.3_Silent_p.P45P|TAC1_uc003uos.3_Silent_p.P45P	NM_003182	NP_003173	P20366	TKN1_HUMAN	tachykinin 1 isoform beta precursor	45					detection of abiotic stimulus|elevation of cytosolic calcium ion concentration|insemination|neuropeptide signaling pathway|synaptic transmission|tachykinin receptor signaling pathway	extracellular space					0	all_cancers(62;3.95e-09)|all_epithelial(64;1.1e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0358)|all_lung(186;0.0384)				Bacitracin(DB00626)	AGGAACTGCCGGAGCCCTTTG	0.597													18	74					0	0	1	0	0		A	97363046	A	A	97363046	2	1	82	1	0	0	0	0	0	0	0	1	15523	1103	39	1		1	TAC1	7	97363046	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1009	97363046	61775617	547	51003											
LMTK2	22853	broad.mit.edu	37	chr7	97820058	97820058	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtctctgggtgtgacactTtgggagctttttgacaatgc	7	14	13	7	0	1	2	0	2	1	0	2	3	1	3	0	3	2	1	0	3	1	3	rs150799700		TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:97820058T>G	uc003upd.1	+	10	1310	c.1017T>G	c.(1015-1017)CTT>CTG	p.L339L		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	339	Protein kinase.				early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					GTGTGACACTTTGGGAGCTTT	0.418													24	206					0	0	1	0	0		G	97820058	G	G	97820058	2	3	82	1	0	0	0	0	0	0	0	1	8876	1828	64	5		5	LMTK2	7	97820058	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	457012	97820058	61318605	548	51004											
LMTK2	22853	broad.mit.edu	37	chr7	97821396	97821396	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctggagtggttcctgtttTtgatgcccacaacctttctg	5	15	9	12	0	1	1	0	1	1	0	2	2	2	2	4	2	2	2	4	2	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:97821396T>G	uc003upd.1	+	11	1912	c.1619T>G	c.(1618-1620)TTT>TGT	p.F540C		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	540					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					GTTCCTGTTTTTGATGCCCAC	0.493													10	76					0	0	1	0	0		G	97821396	G	G	97821396	3	3	82	1	0	0	0	0	1	0	0	0	8876	1841	64	5	1661	5	LMTK2	7	97821396	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1338	97821396	61317267	549	51005											
LMTK2	22853	broad.mit.edu	37	chr7	97821440	97821440	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagcgactattatatccagTtagaagaaaaaagtggtagt	17	10	10	4	1	0	2	0	0	0	2	1	4	1	2	1	1	1	2	1	1	10	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:97821440T>G	uc003upd.1	+	11	1956	c.1663T>G	c.(1663-1665)TTA>GTA	p.L555V		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	555					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					TTATATCCAGTTAGAAGAAAA	0.502													9	68					0	0	1	0	0		G	97821440	G	G	97821440	3	3	82	1	0	0	0	0	1	0	0	0	8876	1722	60	5	1705	5	LMTK2	7	97821440	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	44	97821440	61317223	550	51006											
C7orf51	222950	broad.mit.edu	37	chr7	100084688	100084688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcggggccagtgggggcCtcacagaggacagcagcacc	8	3	17	13	1	1	1	1	0	0	1	1	2	1	2	3	6	2	2	3	6	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:100084688C>T	uc003uvd.1	+	3	472	c.313C>T	c.(313-315)CTC>TTC	p.L105F	C7orf51_uc003uve.1_5'Flank	NM_173564	NP_775835	Q6ZVC0	CG051_HUMAN	hypothetical protein FLJ37538	105										skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CAGTGGGGGCCTCACAGAGGA	0.721													8	25					0	0	1	0	0		T	100084688	T	T	100084688	3	4	82	1	0	0	0	0	1	0	0	0	2403	681	24	4	319	4	C7orf51	7	100084688	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	2263248	100084688	59053975	551	51007											
FBXO24	26261	broad.mit.edu	37	chr7	100190480	100190480	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccactcgggagccgcaggaAgtggtgggtaccaccagcag	9	4	16	12	2	0	0	0	0	0	0	1	2	0	2	4	4	3	3	4	4	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:100190480A>C	uc003uvm.1	+	5	926	c.633A>C	c.(631-633)GAA>GAC	p.E211D	FBXO24_uc010lha.1_RNA|FBXO24_uc003uvl.1_Missense_Mutation_p.E197D|FBXO24_uc003uvn.1_5'UTR|uc011kjy.1_RNA|FBXO24_uc011kjz.1_Missense_Mutation_p.E249D|FBXO24_uc011kka.1_Missense_Mutation_p.E199D	NM_033506	NP_277041	O75426	FBX24_HUMAN	F-box only protein 24 isoform 1	211						ubiquitin ligase complex	ubiquitin-protein ligase activity			ovary(3)|skin(1)	4	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					AGCCGCAGGAAGTGGTGGGTA	0.562													4	27					0	0	1	0	0		C	100190480	C	C	100190480	3	2	82	1	0	0	0	0	1	0	0	0	5749	69	3	5	808	5	FBXO24	7	100190480	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	105792	100190480	58948183	552	51008											
MUC17	140453	broad.mit.edu	37	chr7	100680229	100680229	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggtcacttctacagcAgtcagttcatctcctacacc	8	12	6	15	0	5	0	3	0	2	0	6	0	5	0	3	1	3	2	3	1	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:100680229A>T	uc003uxp.1	+	3	5585	c.5532A>T	c.(5530-5532)GCA>GCT	p.A1844A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1844	Extracellular (Potential).|Ser-rich.|29.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CTTCTACAGCAGTCAGTTCAT	0.502													73	264					0	0	1	0	0		T	100680229	T	T	100680229	2	4	82	1	0	0	0	0	0	0	0	1	9992	175	7	5		5	MUC17	7	100680229	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	489749	100680229	58458434	553	51009											
MUC17	140453	broad.mit.edu	37	chr7	100680882	100680882	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtggtcagttctgagggtaAcaccctttcaacaactcctg	9	12	9	11	0	3	1	2	1	1	0	4	1	4	1	2	2	3	2	2	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:100680882A>C	uc003uxp.1	+	3	6238	c.6185A>C	c.(6184-6186)AAC>ACC	p.N2062T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2062	Extracellular (Potential).|32.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TCTGAGGGTAACACCCTTTCA	0.493													20	213					0	0	1	0	0		C	100680882	C	C	100680882	3	2	82	1	0	0	0	0	1	0	0	0	9992	43	2	5	6195	5	MUC17	7	100680882	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	653	100680882	58457781	554	51010											
MOGAT3	346606	broad.mit.edu	37	chr7	100841487	100841487	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacccgtgcctcagcgccAggcgcacgaagcctttgcgc	6	6	11	18	5	2	0	2	0	0	0	2	1	2	0	4	1	4	1	4	1	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:100841487A>C	uc003uyc.2	-	5	820	c.653T>G	c.(652-654)CTG>CGG	p.L218R	MOGAT3_uc010lhr.2_Missense_Mutation_p.L218R	NM_178176	NP_835470	Q86VF5	MOGT3_HUMAN	monoacylglycerol O-acyltransferase 3	218					glycerol metabolic process|lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity|diacylglycerol O-acyltransferase activity			ovary(2)	2	Lung NSC(181;0.168)|all_lung(186;0.215)					CCTCAGCGCCAGGCGCACGAA	0.637													4	43					0	0	1	0	0		C	100841487	C	C	100841487	3	2	82	1	0	0	0	0	1	0	0	0	9714	188	7	5	384	5	MOGAT3	7	100841487	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	160605	100841487	58297176	555	51011											
LRWD1	222229	broad.mit.edu	37	chr7	102109080	102109080	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacgggcatcgtgctccaCaagtacaaggcacccggcga	11	4	12	14	4	0	1	0	0	0	1	2	2	1	1	2	3	2	4	2	3	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:102109080C>T	uc003uzn.2	+	8	1137	c.999C>T	c.(997-999)CAC>CAT	p.H333H	LRWD1_uc003uzo.2_Silent_p.H181H	NM_152892	NP_690852	Q9UFC0	LRWD1_HUMAN	leucine-rich repeats and WD repeat domain	333					chromatin modification|DNA-dependent DNA replication initiation|establishment of protein localization to chromatin|G1 phase of mitotic cell cycle	centromeric heterochromatin|nuclear origin of replication recognition complex|telomeric heterochromatin	chromatin binding|methyl-CpG binding|methylated histone residue binding			skin(1)	1						TCGTGCTCCACAAGTACAAGG	0.637													3	4					0	0	1	0	0		T	102109080	T	T	102109080	2	4	82	1	0	0	0	0	0	0	0	1	9065	477	17	4		4	LRWD1	7	102109080	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	1267593	102109080	57029583	556	51012											
FBXL13	222235	broad.mit.edu	37	chr7	102608482	102608482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacttacagcattccacagtGagtttagttgtgtcatcaac	11	14	7	9	0	2	1	2	1	0	0	3	1	3	1	1	0	4	3	1	0	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:102608482G>A	uc003vaq.2	-	7	1005	c.578C>T	c.(577-579)TCA>TTA	p.S193L	FBXL13_uc010liq.1_Missense_Mutation_p.S8L|FBXL13_uc010lir.1_Missense_Mutation_p.S193L|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Missense_Mutation_p.S193L|FBXL13_uc003vav.2_RNA	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	193	F-box.										0						ATTCCACAGTGAGTTTAGTTG	0.373													4	51					0	0	1	0	0		A	102608482	A	A	102608482	3	1	82	1	0	0	0	0	1	0	0	0	5723	1294	45	4	1685	4	FBXL13	7	102608482	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	499402	102608482	56530181	557	51013											
RELN	5649	broad.mit.edu	37	chr7	103185604	103185604	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgagaaaatcaggattttTggtgcttattttacaggttg	10	18	10	3	0	1	1	1	1	0	1	1	3	1	2	0	3	2	2	0	3	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:103185604T>C	uc003vca.2	-	42	6650	c.6490A>G	c.(6490-6492)AAA>GAA	p.K2164E	RELN_uc010liz.2_Missense_Mutation_p.K2164E	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2164					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TCAGGATTTTTGGTGCTTATT	0.373													8	65					0	0	1	0	0		C	103185604	C	C	103185604	3	2	82	1	0	0	0	0	1	0	0	0	13245	1821	63	3	3988	3	RELN	7	103185604	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	577122	103185604	55953059	558	51014											
COG5	10466	broad.mit.edu	37	chr7	107198467	107198467	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactgattccttgggcaagtTttgctagttgttcagcaatt	8	16	10	7	0	1	1	1	1	0	0	2	2	2	1	1	1	2	6	1	1	3	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:107198467T>G	uc003ved.2	-	2	806	c.281A>C	c.(280-282)AAA>ACA	p.K94T	COG5_uc003vec.2_Missense_Mutation_p.K94T|COG5_uc003vee.2_Missense_Mutation_p.K94T	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	94					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						TTGGGCAAGTTTTGCTAGTTG	0.363													5	45					0	0	1	0	0		G	107198467	G	G	107198467	3	3	82	1	0	0	0	0	1	0	0	0	3664	1841	64	5	2389	5	COG5	7	107198467	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4012863	107198467	51940196	559	51015											
LAMB1	3912	broad.mit.edu	37	chr7	107564421	107564421	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcatgtgctatacacagcaActttctggcttatatccttt	10	15	6	10	0	1	0	0	0	1	0	2	0	2	0	1	1	5	4	1	1	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:107564421A>C	uc003vew.2	-	34	5671	c.5336T>G	c.(5335-5337)GTT>GGT	p.V1779G	LAMB1_uc003vev.2_Missense_Mutation_p.V1803G|LAMB1_uc003veu.2_Missense_Mutation_p.V262G	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1779	Potential.|Domain I.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATACACAGCAACTTTCTGGCT	0.353													8	90					0	0	1	0	0		C	107564421	C	C	107564421	3	2	82	1	0	0	0	0	1	0	0	0	8626	43	2	5	28	5	LAMB1	7	107564421	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	365954	107564421	51574242	560	51016											
LAMB4	22798	broad.mit.edu	37	chr7	107720140	107720140	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccagggagaaccctggcaAatccaggtccagtccatgta	11	6	10	14	0	0	1	0	0	0	1	3	2	3	1	6	3	1	2	6	3	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:107720140A>G	uc010ljo.1	-	15	1877	c.1793T>C	c.(1792-1794)TTT>TCT	p.F598S	LAMB4_uc003vey.2_Missense_Mutation_p.F598S	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	598	Laminin IV type B.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						AACCCTGGCAAATCCAGGTCC	0.517													7	38					0	0	1	0	0		G	107720140	G	G	107720140	3	3	82	1	0	0	0	0	1	0	0	0	8629	14	1	3	3572	3	LAMB4	7	107720140	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	155719	107720140	51418523	561	51017											
DOCK4	9732	broad.mit.edu	37	chr7	111509658	111509658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctggatatgctcttgcCgctctgcttctgtgatccgg	3	14	10	14	2	3	1	0	1	3	0	5	2	5	2	4	2	3	3	4	2	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:111509658C>T	uc003vfx.2	-	21	2350	c.2081G>A	c.(2080-2082)CGG>CAG	p.R694Q	DOCK4_uc003vfw.2_Missense_Mutation_p.R135Q|DOCK4_uc003vfy.2_Missense_Mutation_p.R694Q|DOCK4_uc003vga.1_Missense_Mutation_p.R299Q	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	694					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				ATGCTCTTGCCGCTCTGCTTC	0.423													3	28					0	0	1	0	0		T	111509658	T	T	111509658	3	4	82	1	0	0	0	0	1	0	0	0	4695	652	23	1	3947	1	DOCK4	7	111509658	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	3789518	111509658	47629005	562	51018											
TFEC	22797	broad.mit.edu	37	chr7	115581990	115581990	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttagcctgctctaatttcTtctgtctgtgttccaattct	5	20	6	10	0	5	0	0	0	5	0	6	0	6	0	2	0	2	3	2	0	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:115581990T>G	uc003vhj.1	-	7	804	c.620A>C	c.(619-621)AAG>ACG	p.K207T	TFEC_uc003vhk.1_Missense_Mutation_p.K178T|TFEC_uc003vhl.3_Missense_Mutation_p.K178T|TFEC_uc011kmw.1_Missense_Mutation_p.K297T	NM_012252	NP_036384	O14948	TFEC_HUMAN	transcription factor EC isoform a	207						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			large_intestine(1)	1			STAD - Stomach adenocarcinoma(10;0.00878)			CTCTAATTTCTTCTGTCTGTG	0.428													51	120					0	0	1	0	0		G	115581990	G	G	115581990	3	3	82	1	0	0	0	0	1	0	0	0	15827	1609	56	5	431	5	TFEC	7	115581990	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4072332	115581990	43556673	563	51019											
CFTR	1080	broad.mit.edu	37	chr7	117235071	117235071	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttactgtccacaagagcttaAtttttgtgctaatttggtgc	9	17	8	7	0	0	1	0	0	0	1	1	1	1	1	1	1	4	2	1	1	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:117235071A>C	uc003vjd.2	+	15	2710	c.2578A>C	c.(2578-2580)ATT>CTT	p.I860L	CFTR_uc011knq.1_Missense_Mutation_p.I266L	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	860	Helical; Name=7; (Potential).|ABC transmembrane type-1 2.				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	CAAGAGCTTAATTTTTGTGCT	0.333									Cystic_Fibrosis				16	39					0	0	1	0	0		C	117235071	C	C	117235071	3	2	82	1	0	0	0	0	1	0	0	0	3297	101	4	5	2636	5	CFTR	7	117235071	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1653081	117235071	41903592	564	51020											
CTTNBP2	83992	broad.mit.edu	37	chr7	117431987	117431987	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaactgtgcataggtggagcTtgcgagttctgaggagctat	10	11	14	6	1	1	1	0	1	1	0	1	4	1	3	0	3	5	4	0	3	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:117431987T>C	uc003vjf.2	-	4	1355	c.1263A>G	c.(1261-1263)CAA>CAG	p.Q421Q		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	421	Pro-rich.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		TAGGTGGAGCTTGCGAGTTCT	0.527													22	152					0	0	1	0	0		C	117431987	C	C	117431987	2	2	82	1	0	0	0	0	0	0	0	1	4048	1606	56	3		3	CTTNBP2	7	117431987	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	196916	117431987	41706676	565	51021											
C7orf58	79974	broad.mit.edu	37	chr7	120704342	120704342	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgcagaaaggaaggattAtgtcaaatagttagaagatt	16	12	10	3	0	1	3	1	0	0	3	1	5	1	5	0	2	1	2	0	2	7	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:120704342A>T	uc003vjq.3	+	5	1038	c.591A>T	c.(589-591)TTA>TTT	p.L197F	C7orf58_uc003vjr.1_Missense_Mutation_p.L197F|C7orf58_uc003vjs.3_Missense_Mutation_p.L197F|C7orf58_uc003vjt.3_5'UTR	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	197						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					AGGAAGGATTATGTCAAATAG	0.408													5	50					0	0	1	0	0		T	120704342	T	T	120704342	3	4	82	1	0	0	0	0	1	0	0	0	2408	446	16	5	605	5	C7orf58	7	120704342	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3272355	120704342	38434321	566	51022											
SLC13A1	6561	broad.mit.edu	37	chr7	122787232	122787232	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtattgaaatactctgcaaAgatcaagttggtggaggtac	13	11	11	6	1	2	2	1	1	1	1	2	3	2	3	0	3	3	4	0	3	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:122787232A>C	uc003vkm.2	-	7	818	c.793T>G	c.(793-795)TTT>GTT	p.F265V	SLC13A1_uc010lks.2_Missense_Mutation_p.F141V	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	265						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	TACTCTGCAAAGATCAAGTTG	0.388													8	30					0	0	1	0	0		C	122787232	C	C	122787232	3	2	82	1	0	0	0	0	1	0	0	0	14416	72	3	5	1030	5	SLC13A1	7	122787232	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2082890	122787232	36351431	567	51023											
ASB15	142685	broad.mit.edu	37	chr7	123270123	123270123	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctctgtgtgctaaactgaAgtctgcactagaagtacaga	12	11	9	9	0	2	3	0	1	2	2	3	3	3	3	1	0	4	3	1	0	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:123270123A>C	uc003vku.1	+	11	1836	c.1544A>C	c.(1543-1545)AAG>ACG	p.K515T	ASB15_uc003vkw.1_Missense_Mutation_p.K515T	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	515					intracellular signal transduction					skin(2)|lung(1)	3						GCTAAACTGAAGTCTGCACTA	0.368													7	90					0	0	1	0	0		C	123270123	C	C	123270123	3	2	82	1	0	0	0	0	1	0	0	0	1020	72	3	5	1574	5	ASB15	7	123270123	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	482891	123270123	35868540	568	51024											
CCDC136	64753	broad.mit.edu	37	chr7	128454771	128454771	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagcaggggcggcttctggTagtgcaggagcagctggagg	7	7	20	7	1	1	1	0	1	1	0	1	3	1	3	0	7	4	6	0	7	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:128454771T>C	uc003vnv.1	+	15	3210	c.2843T>C	c.(2842-2844)GTA>GCA	p.V948A	CCDC136_uc003vnu.1_Intron|CCDC136_uc003vnw.1_Intron|CCDC136_uc003vnx.1_Missense_Mutation_p.V764A|CCDC136_uc010llq.1_Missense_Mutation_p.V317A|CCDC136_uc003vny.1_Intron	NM_022742	NP_073579	Q96JN2	CC136_HUMAN	coiled-coil domain containing 136	948	Potential.					integral to membrane	protein binding			ovary(2)	2						CGGCTTCTGGTAGTGCAGGAG	0.612													6	21					0	0	1	0	0		C	128454771	C	C	128454771	3	2	82	1	0	0	0	0	1	0	0	0	2773	1638	57	3	2901	3	CCDC136	7	128454771	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5184648	128454771	30683892	569	51025											
TNPO3	23534	broad.mit.edu	37	chr7	128619046	128619046	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gataactttacctgtgtgacTagtggctgcagcagtgctgc	8	12	12	9	0	0	1	0	1	0	0	0	2	0	1	1	1	6	4	1	1	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:128619046T>A	uc003vol.1	-	16	2426	c.2052A>T	c.(2050-2052)CTA>CTT	p.L684L	TNPO3_uc010llx.1_Silent_p.L95L|TNPO3_uc003vom.1_Silent_p.L618L|TNPO3_uc010lly.1_Silent_p.L718L|TNPO3_uc010llz.1_Silent_p.L620L	NM_012470	NP_036602	Q9Y5L0	TNPO3_HUMAN	transportin 3	684					splicing factor protein import into nucleus	cytoplasm|nucleus	protein binding|receptor activity			ovary(2)|skin(2)|lung(1)	5						CCTGTGTGACTAGTGGCTGCA	0.403													43	234					0	0	1	0	0		A	128619046	A	A	128619046	2	1	82	1	0	0	0	0	0	0	0	1	16362	1509	53	5		5	TNPO3	7	128619046	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	164275	128619046	30519617	570	51026											
TNPO3	23534	broad.mit.edu	37	chr7	128645196	128645196	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attttctcatctgttcctgcTttttctacacaggtcatctg	6	19	5	11	0	5	0	2	0	4	0	7	0	6	0	1	1	2	2	1	1	1	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:128645196T>C	uc003vol.1	-	5	944	c.570A>G	c.(568-570)AAA>AAG	p.K190K	TNPO3_uc003vom.1_Silent_p.K124K|TNPO3_uc010lly.1_Silent_p.K190K|TNPO3_uc010llz.1_Silent_p.K190K	NM_012470	NP_036602	Q9Y5L0	TNPO3_HUMAN	transportin 3	190					splicing factor protein import into nucleus	cytoplasm|nucleus	protein binding|receptor activity			ovary(2)|skin(2)|lung(1)	5						CTGTTCCTGCTTTTTCTACAC	0.299													8	82					0	0	1	0	0		C	128645196	C	C	128645196	2	2	82	1	0	0	0	0	0	0	0	1	16362	1606	56	3		3	TNPO3	7	128645196	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	26150	128645196	30493467	571	51027											
TSGA14	95681	broad.mit.edu	37	chr7	130039931	130039931	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagataatattctatcttttTtaagtcttctggggtaaatc	11	18	6	6	0	4	1	0	0	4	1	5	1	4	1	0	2	0	1	0	2	6	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:130039931T>G	uc003vpz.2	-	10	969	c.922A>C	c.(922-924)AAA>CAA	p.K308Q	TSGA14_uc003vpy.2_Missense_Mutation_p.K70Q|TSGA14_uc010lmf.2_Missense_Mutation_p.K105Q|TSGA14_uc003vqa.2_Intron|TSGA14_uc011kpg.1_Intron	NM_018718	NP_061188	Q9BYV8	CEP41_HUMAN	testis specific, 14	308					G2/M transition of mitotic cell cycle	centrosome|cytosol					0	Melanoma(18;0.0435)					TCTATCTTTTTTAAGTCTTCT	0.463													21	75					0	0	1	0	0		G	130039931	G	G	130039931	3	3	82	1	0	0	0	0	1	0	0	0	16646	1850	64	5	207	5	TSGA14	7	130039931	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1394735	130039931	29098732	572	51028											
AKR1B15	441282	broad.mit.edu	37	chr7	134253009	134253009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgagaatcaacatgaggtgGgagaagccatccaagagaag	17	5	13	6	0	1	4	1	2	0	3	2	7	2	4	2	2	2	0	2	2	5	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:134253009G>A	uc011kpr.1	+	4	549	c.250G>A	c.(250-252)GGA>AGA	p.G84R	AKR1B15_uc003vrt.2_Missense_Mutation_p.G56R|AKR1B15_uc011kps.1_Missense_Mutation_p.G56R	NM_001080538	NP_001074007	C9JRZ8	AK1BF_HUMAN	aldo-keto reductase family 1, member B15	84							oxidoreductase activity			ovary(1)	1						ACATGAGGTGGGAGAAGCCAT	0.507													31	97					0	0	1	0	0		A	134253009	A	A	134253009	3	1	82	1	0	0	0	0	1	0	0	0	468	1233	43	4	256	4	AKR1B15	7	134253009	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	4213078	134253009	24885654	573	51029											
DGKI	9162	broad.mit.edu	37	chr7	137270054	137270054	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaactgtcccatcttccacTtgacacaggatcttagaaac	13	10	5	13	0	2	2	0	1	2	1	4	3	4	3	2	1	2	0	2	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:137270054T>C	uc003vtt.2	-	14	1465	c.1464A>G	c.(1462-1464)CAA>CAG	p.Q488Q	DGKI_uc003vtu.2_Silent_p.Q188Q	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	488	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						CATCTTCCACTTGACACAGGA	0.473													24	67					0	0	1	0	0		C	137270054	C	C	137270054	2	2	82	1	0	0	0	0	0	0	0	1	4477	1606	56	3		3	DGKI	7	137270054	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3017045	137270054	21868609	574	51030											
TBXAS1	6916	broad.mit.edu	37	chr7	139572126	139572126	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttgacatttttccgccAggtaagggctgtcttccatt	9	14	8	10	1	1	1	0	1	1	0	3	1	3	1	3	2	1	2	3	2	2	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:139572126A>C	uc011kqv.1	+	2	349	c.185A>C	c.(184-186)CAG>CCG	p.Q62P	TBXAS1_uc003vvh.2_Missense_Mutation_p.Q62P|TBXAS1_uc010lne.2_5'UTR|TBXAS1_uc011kqu.1_Intron|TBXAS1_uc003vvi.2_Missense_Mutation_p.Q62P|TBXAS1_uc003vvj.2_Missense_Mutation_p.Q62P|TBXAS1_uc011kqw.1_Silent_p.P32P|TBXAS1_uc011kqx.1_Missense_Mutation_p.Q62P	NM_001130966	NP_001124438	P24557	THAS_HUMAN	thromboxane A synthase 1, platelet isoform	61	Lumenal (Potential).				hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|thromboxane-A synthase activity			ovary(2)|breast(1)	3	Melanoma(164;0.0142)					TTTTTCCGCCAGGTAAGGGCT	0.343													21	64					0	0	1	0	0		C	139572126	C	C	139572126	3	2	82	1	0	0	0	0	1	0	0	0	15689	202	7	5	191	5	TBXAS1	7	139572126	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2302072	139572126	19566537	575	51031											
SSPO	23145	broad.mit.edu	37	chr7	149475868	149475868	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgacctctttctgtgcccAgggctgagcctgcaatggct	6	11	12	12	0	2	2	0	2	2	0	2	2	2	2	3	2	3	3	3	2	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:149475868A>C	uc010lpk.2	+	7	836	c.836_splice	c.e7-2	p.G279_splice	SSPO_uc010lpl.1_Splice_Site	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor						cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TTCTGTGCCCAGGGCTGAGCC	0.622													6	22					0	0	1	0	0		C	149475868	C	C	149475868	5	2	82	1	0	0	0	0	0	0	1	0	15214	202	7	5	860	5	SSPO	7	149475868	Splice_Site	SNP	A	TCGA-BR-8589-01A-11D-2394-08	9903742	149475868	9662795	576	51032											
GIMAP6	474344	broad.mit.edu	37	chr7	150325584	150325584	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctccttggggtcttctgTtctttctcccttagacctag	4	17	8	12	0	5	1	0	0	5	1	7	1	5	1	3	2	0	1	3	2	2	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:150325584T>G	uc003whn.2	-	3	526	c.102A>C	c.(100-102)GAA>GAC	p.E34D	GIMAP6_uc003whm.2_Intron	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	34							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGGTCTTCTGTTCTTTCTCCC	0.522													31	204					0	0	1	0	0		G	150325584	G	G	150325584	3	3	82	1	0	0	0	0	1	0	0	0	6398	1722	60	5	780	5	GIMAP6	7	150325584	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	849716	150325584	8813079	577	51033											
ACCN3	9311	broad.mit.edu	37	chr7	150749547	150749547	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgaacccaagttccccacctCagcctgggccccaggtaaca	10	5	8	18	1	1	0	1	0	0	0	2	1	2	0	7	2	3	2	7	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr7:150749547C>T	uc003win.2	+	10	1871	c.1503C>T	c.(1501-1503)CTC>CTT	p.L501L	ACCN3_uc003wio.2_Silent_p.L501L|ACCN3_uc003wip.2_Intron|ACCN3_uc003wiq.2_RNA	NM_004769	NP_004760	Q9UHC3	ACCN3_HUMAN	amiloride-sensitive cation channel 3 isoform a	501	Cytoplasmic (Potential).				sensory perception|signal transduction	cytoplasm|integral to plasma membrane	ligand-gated sodium channel activity			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TTCCCCACCTCAGCCTGGGCC	0.632													6	56					0	0	1	0	0		T	150749547	T	T	150749547	2	4	82	1	0	0	0	0	0	0	0	1	130	813	29	4		4	ACCN3	7	150749547	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	423963	150749547	8389116	578	51034											
AGPAT5	55326	broad.mit.edu	37	chr8	6614805	6614805	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatgttgatcttaagtggtTtgactgcaggcatgcttatg	9	15	11	6	0	1	2	0	2	1	0	1	2	1	2	0	2	2	5	0	2	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:6614805T>G	uc003wqo.2	+	8	1303	c.991T>G	c.(991-993)TTG>GTG	p.L331V	AGPAT5_uc011kwm.1_3'UTR	NM_018361	NP_060831	Q9NUQ2	PLCE_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 5	331					phospholipid biosynthetic process	integral to membrane|mitochondrion	1-acylglycerol-3-phosphate O-acyltransferase activity				0			STAD - Stomach adenocarcinoma(24;0.0578)	READ - Rectum adenocarcinoma(644;0.156)|COAD - Colon adenocarcinoma(149;0.191)		CTTAAGTGGTTTGACTGCAGG	0.408													6	82					0	0	1	0	0		G	6614805	G	G	6614805	3	3	82	1	0	0	0	0	1	0	0	0	390	1838	64	5	1021	5	AGPAT5	8	6614805	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08		6614805	139749217	579	51035											
MSR1	4481	broad.mit.edu	37	chr8	16025998	16025998	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaggtattctcttggattTtgccattcagattttctatg	8	19	8	6	0	3	2	1	1	2	1	4	3	3	3	1	2	1	1	1	2	3	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:16025998T>G	uc003wwz.2	-	4	797	c.599A>C	c.(598-600)AAA>ACA	p.K200T	MSR1_uc010lsu.2_Missense_Mutation_p.K218T|MSR1_uc003wxa.2_Missense_Mutation_p.K200T|MSR1_uc003wxb.2_Missense_Mutation_p.K200T|MSR1_uc011kxz.1_Intron	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	200	Potential.|Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		CTCTTGGATTTTGCCATTCAG	0.413													12	45					0	0	1	0	0		G	16025998	G	G	16025998	3	3	82	1	0	0	0	0	1	0	0	0	9904	1841	64	5	832	5	MSR1	8	16025998	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	9411193	16025998	130338024	580	51036											
PCM1	5108	broad.mit.edu	37	chr8	17851033	17851033	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagttcacaacaacctgtaAgtgaagtttctaccatccca	13	11	6	11	0	2	1	1	1	1	0	3	1	3	1	3	0	3	4	3	0	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:17851033A>G	uc003wyi.3	+	29	5154	c.4732A>G	c.(4732-4734)AGT>GGT	p.S1578G	PCM1_uc011kyh.1_Missense_Mutation_p.S1570G|PCM1_uc003wyj.3_Missense_Mutation_p.S1524G|PCM1_uc011kyi.1_Missense_Mutation_p.S377G|PCM1_uc011kyj.1_Missense_Mutation_p.S334G|PCM1_uc003wyk.3_Missense_Mutation_p.S260G|PCM1_uc011kyk.1_Missense_Mutation_p.S194G	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	1578	Interaction with HAP1.				centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		ACAACCTGTAAGTGAAGTTTC	0.333			T	RET|JAK2	papillary thyroid|CML|MPD								5	14					0	0	1	0	0		G	17851033	G	G	17851033	3	3	82	1	0	0	0	0	1	0	0	0	11603	72	3	3	4838	3	PCM1	8	17851033	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1825035	17851033	128512989	581	51037											
REEP4	80346	broad.mit.edu	37	chr8	21997518	21997518	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtggacaaacttgcggtaAagcaggctggcgcccttggt	8	8	16	9	2	0	0	0	0	0	0	0	1	0	1	1	6	3	3	1	6	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:21997518A>C	uc003xau.1	-	4	714	c.261T>G	c.(259-261)CTT>CTG	p.L87L	REEP4_uc010ltt.1_Silent_p.L87L|REEP4_uc011kyz.1_Silent_p.L87L	NM_025232	NP_079508	Q9H6H4	REEP4_HUMAN	receptor accessory protein 4	87						integral to membrane				skin(1)	1				Colorectal(74;0.00187)|COAD - Colon adenocarcinoma(73;0.061)|READ - Rectum adenocarcinoma(644;0.0993)		ACTTGCGGTAAAGCAGGCTGG	0.552													4	13					0	0	1	0	0		C	21997518	C	C	21997518	2	2	82	1	0	0	0	0	0	0	0	1	13232	1	1	5		5	REEP4	8	21997518	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4146485	21997518	124366504	582	51038											
PPP3CC	5533	broad.mit.edu	37	chr8	22380024	22380024	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaccctgcagtttgtgaatTtttgcagaacaataatttac	12	16	6	7	0	0	2	0	1	0	1	0	2	0	2	1	0	5	3	1	0	6	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:22380024T>G	uc003xbs.2	+	7	1118	c.791T>G	c.(790-792)TTT>TGT	p.F264C	PPP3CC_uc003xbr.1_Missense_Mutation_p.F264C|PPP3CC_uc011kzi.1_Missense_Mutation_p.F264C|PPP3CC_uc003xbt.2_Missense_Mutation_p.F264C|PPP3CC_uc011kzj.1_Translation_Start_Site	NM_005605	NP_005596	P48454	PP2BC_HUMAN	protein phosphatase 3, catalytic subunit, gamma	264					activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals	cytosol	calmodulin binding|metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		Prostate(55;0.104)		BRCA - Breast invasive adenocarcinoma(99;0.00756)|Colorectal(74;0.0238)|COAD - Colon adenocarcinoma(73;0.0835)		GTTTGTGAATTTTTGCAGAAC	0.328													6	39					0	0	1	0	0		G	22380024	G	G	22380024	3	3	82	1	0	0	0	0	1	0	0	0	12421	1841	64	5	817	5	PPP3CC	8	22380024	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	382506	22380024	123983998	583	51039											
EBF2	64641	broad.mit.edu	37	chr8	25766067	25766067	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgaggaaaaattttaaaaAgaatctgtgaagagaaagcg	19	9	10	3	1	1	4	0	2	1	2	1	6	1	5	0	1	1	0	0	1	8	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:25766067A>C	uc003xes.1	-	7	573	c.556T>G	c.(556-558)TTT>GTT	p.F186V	PPP2R2A_uc003xek.2_Intron	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	186					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		AATTTTAAAAAGAATCTGTGA	0.373													4	36					0	0	1	0	0		C	25766067	C	C	25766067	3	2	82	1	0	0	0	0	1	0	0	0	4887	72	3	5	1211	5	EBF2	8	25766067	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3386043	25766067	120597955	584	51040											
C8orf80	389643	broad.mit.edu	37	chr8	27888776	27888776	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacctcctggatcaggaaaTtttttttgcagctatcatat	10	16	7	8	0	2	0	2	0	0	0	3	2	3	2	2	2	3	3	2	2	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:27888776T>G	uc003xgm.3	-	15	2035	c.1892A>C	c.(1891-1893)AAT>ACT	p.N631T		NM_001010906	NP_001010906	Q68CJ6	SLIP_HUMAN	speckled-like pattern in the germinal center	631						nucleus	GTP binding|GTPase activity			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.126)|Kidney(114;0.15)|Colorectal(74;0.181)		GATCAGGAAATTTTTTTTGCA	0.453													40	111					0	0	1	0	0		G	27888776	G	G	27888776	3	3	82	1	0	0	0	0	1	0	0	0	2442	1493	52	5	518	5	C8orf80	8	27888776	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2122709	27888776	118475246	585	51041											
RBPMS	11030	broad.mit.edu	37	chr8	30336863	30336863	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagttttgacagtcgctcAgaagcagaggctgcaaagaa	13	8	12	8	1	2	4	2	1	0	3	3	4	2	4	0	1	2	5	0	1	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:30336863A>G	uc003xic.1	+	4	881	c.216A>G	c.(214-216)TCA>TCG	p.S72S	RBPMS_uc003xid.1_Silent_p.S72S|RBPMS_uc003xie.1_Silent_p.S72S|RBPMS_uc003xif.1_RNA|RBPMS_uc011lba.1_Silent_p.S72S|RBPMS_uc003xib.2_Silent_p.S72S|RBPMS_uc010lvh.1_5'UTR	NM_006867	NP_006858	Q93062	RBPMS_HUMAN	RNA-binding protein with multiple splicing	72	RRM.				positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|nucleus	nucleotide binding|poly(A) RNA binding|protein binding|transcription coactivator activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.144)|Kidney(114;0.172)		ACAGTCGCTCAGAAGCAGAGG	0.383													13	64					0	0	1	0	0		G	30336863	G	G	30336863	2	3	82	1	0	0	0	0	0	0	0	1	13188	175	7	3		3	RBPMS	8	30336863	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2448087	30336863	116027159	586	51042											
RNF122	79845	broad.mit.edu	37	chr8	33408905	33408905	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtgcctggttccgcagtTtgctgggagaaagagaaaaa	11	10	13	7	1	1	2	0	0	1	2	2	4	2	2	2	2	2	4	2	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:33408905T>G	uc003xjo.1	-	3	587	c.185A>C	c.(184-186)AAA>ACA	p.K62T		NM_024787	NP_079063	Q9H9V4	RN122_HUMAN	ring finger protein 122	62						endoplasmic reticulum|Golgi apparatus|integral to membrane	zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(67;0.0966)|Kidney(114;0.116)		GTTCCGCAGTTTGCTGGGAGA	0.498													6	62					0	0	1	0	0		G	33408905	G	G	33408905	3	3	82	1	0	0	0	0	1	0	0	0	13457	1841	64	5	298	5	RNF122	8	33408905	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3072042	33408905	112955117	587	51043											
KCNU1	157855	broad.mit.edu	37	chr8	36763254	36763254	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatgatgtagaacaagatTctgaccagcttgatagcagt	15	10	9	7	0	1	5	0	3	1	2	1	5	1	5	1	0	4	3	1	0	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:36763254T>C	uc010lvw.2	+	20	2125	c.2038T>C	c.(2038-2040)TCT>CCT	p.S680P	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	680	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		AGAACAAGATTCTGACCAGCT	0.413													5	72					0	0	1	0	0		C	36763254	C	C	36763254	3	2	82	1	0	0	0	0	1	0	0	0	8109	1783	62	3	2116	3	KCNU1	8	36763254	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3354349	36763254	109600768	588	51044											
AP3M2	10947	broad.mit.edu	37	chr8	42019931	42019931	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattgatgcaattattgataAatcaggtaggtgcttttaat	13	16	9	3	0	1	2	1	2	0	0	1	3	1	2	0	2	2	3	0	2	6	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:42019931A>C	uc003xop.2	+	5	869	c.578A>C	c.(577-579)AAA>ACA	p.K193T	AP3M2_uc003xoo.2_Missense_Mutation_p.K193T|AP3M2_uc010lxe.2_RNA|AP3M2_uc003xoq.1_Missense_Mutation_p.K78T|AP3M2_uc003xor.1_Missense_Mutation_p.K193T	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	193	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			ATTATTGATAAATCAGGTAGG	0.373													73	175					0	0	1	0	0		C	42019931	C	C	42019931	3	2	82	1	0	0	0	0	1	0	0	0	748	14	1	5	588	5	AP3M2	8	42019931	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5256677	42019931	104344091	589	51045											
PLAT	5327	broad.mit.edu	37	chr8	42050649	42050649	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacctggctgggcgaaacgaAgactgctccacacagcagca	13	4	11	13	2	0	1	0	0	0	1	1	3	1	1	2	2	5	4	2	2	3	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:42050649A>G	uc003xos.2	-	2	264	c.55T>C	c.(55-57)TTC>CTC	p.F19L	PLAT_uc010lxf.1_Missense_Mutation_p.F19L|PLAT_uc010lxg.1_Missense_Mutation_p.F19L|PLAT_uc003xot.2_Missense_Mutation_p.F19L|PLAT_uc011lcm.1_Missense_Mutation_p.F19L|PLAT_uc011lcn.1_Missense_Mutation_p.F19L	NM_000930	NP_000921	P00750	TPA_HUMAN	plasminogen activator, tissue isoform 1	19					blood coagulation|fibrinolysis|negative regulation of proteolysis|protein modification process|proteolysis	cell surface|cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			breast(1)|skin(1)	2	all_cancers(6;3.84e-26)|all_epithelial(6;9.61e-28)|all_lung(13;7.2e-13)|Lung NSC(13;1.18e-11)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000378)|Lung NSC(58;0.00145)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00135)|Colorectal(10;0.00165)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)		Alteplase(DB00009)|Aminocaproic Acid(DB00513)|Anistreplase(DB00029)|Iloprost(DB01088)|Reteplase(DB00015)|Tenecteplase(DB00031)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	GGCGAAACGAAGACTGCTCCA	0.562													4	63					0	0	1	0	0		G	42050649	G	G	42050649	3	3	82	1	0	0	0	0	1	0	0	0	12040	72	3	3	1685	3	PLAT	8	42050649	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	30718	42050649	104313373	590	51046											
THAP1	55145	broad.mit.edu	37	chr8	42693377	42693377	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgagagattaacaggggtctGaagaggcggcattagtaatc	13	9	14	5	1	1	4	0	2	1	2	2	5	1	4	0	4	1	2	0	4	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:42693377G>A	uc003xpk.2	-	3	607	c.370C>T	c.(370-372)CAG>TAG	p.Q124*	THAP1_uc003xpl.2_3'UTR	NM_018105	NP_060575	Q9NVV9	THAP1_HUMAN	THAP domain containing, apoptosis associated	124					cell cycle|endothelial cell proliferation|regulation of mitotic cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	sequence-specific DNA binding|zinc ion binding				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Acute lymphoblastic leukemia(644;0.000299)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0377)|LUSC - Lung squamous cell carcinoma(45;0.0869)			ACAGGGGTCTGAAGAGGCGGC	0.483													14	240					0	0	1	0	0		A	42693377	A	A	42693377	4	1	82	1	0	0	0	0	0	1	0	0	15866	1299	45	4	275	4	THAP1	8	42693377	Nonsense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	642728	42693377	103670645	591	51047											
PRKDC	5591	broad.mit.edu	37	chr8	48762039	48762039	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaattgtttcgcaaccAgttcacacagagactcctcc	10	11	6	14	1	2	1	2	0	0	1	5	2	4	1	3	0	1	4	3	0	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:48762039A>G	uc003xqi.2	-	54	7088	c.7031T>C	c.(7030-7032)CTG>CCG	p.L2344P	PRKDC_uc003xqj.2_Missense_Mutation_p.L2344P|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2344					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TTTCGCAACCAGTTCACACAG	0.378								NHEJ					17	54					0	0	1	0	0		G	48762039	G	G	48762039	3	3	82	1	0	0	0	0	1	0	0	0	12543	188	7	3	5491	3	PRKDC	8	48762039	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6068662	48762039	97601983	592	51048											
PRKDC	5591	broad.mit.edu	37	chr8	48809800	48809800	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggcctcccacaatgagcTaaaagccacttgaccagatc	12	7	9	13	0	0	3	0	2	0	1	2	3	1	3	4	2	2	1	4	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:48809800T>C	uc003xqi.2	-	30	3576	c.3519A>G	c.(3517-3519)TTA>TTG	p.L1173L	PRKDC_uc003xqj.2_Silent_p.L1173L|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1173					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CACAATGAGCTAAAAGCCACT	0.423								NHEJ					23	158					0	0	1	0	0		C	48809800	C	C	48809800	2	2	82	1	0	0	0	0	0	0	0	1	12543	1519	53	3		3	PRKDC	8	48809800	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	47761	48809800	97554222	593	51049											
RP1	6101	broad.mit.edu	37	chr8	55542190	55542190	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtatgctctttgtggtcaAcattgcccaatactaactgt	9	15	7	10	0	2	0	1	0	1	0	2	0	2	0	1	1	5	2	1	1	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:55542190A>C	uc003xsd.1	+	4	5896	c.5748A>C	c.(5746-5748)CAA>CAC	p.Q1916H	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1916					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TTTGTGGTCAACATTGCCCAA	0.373													24	92					0	0	1	0	0		C	55542190	C	C	55542190	3	2	82	1	0	0	0	0	1	0	0	0	13557	40	2	5	5758	5	RP1	8	55542190	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6732390	55542190	90821832	594	51050											
LYN	4067	broad.mit.edu	37	chr8	56879353	56879353	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcaagccttcctggaagaAgccaacctcatgaagaccct	12	7	9	13	0	1	3	1	1	0	2	2	4	2	4	5	1	4	1	5	1	5	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:56879353A>C	uc003xsk.3	+	9	1152	c.870A>C	c.(868-870)GAA>GAC	p.E290D	LYN_uc003xsl.3_Missense_Mutation_p.E269D	NM_002350	NP_002341	P07948	LYN_HUMAN	Yamaguchi sarcoma viral (v-yes-1) oncogene	290	Protein kinase.				erythrocyte differentiation|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of cellular component movement|positive regulation of stress-activated protein kinase signaling cascade|positive regulation of tyrosine phosphorylation of STAT protein|response to DNA damage stimulus|T cell costimulation	cytosol|Golgi apparatus|membrane raft|nucleus|perinuclear region of cytoplasm	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|receptor signaling protein tyrosine kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_lung(136;0.0555)|Lung NSC(129;0.0726)|all_epithelial(80;0.0772)	Epithelial(17;0.000834)|all cancers(17;0.00598)			TCCTGGAAGAAGCCAACCTCA	0.507													14	48					0	0	1	0	0		C	56879353	C	C	56879353	3	2	82	1	0	0	0	0	1	0	0	0	9125	69	3	5	900	5	LYN	8	56879353	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1337163	56879353	89484669	595	51051											
ASPH	444	broad.mit.edu	37	chr8	62550538	62550538	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgtgaatcttctacaggaTtatcctcagggggagcagtt	9	12	11	9	0	3	1	1	1	2	0	4	3	4	3	2	3	2	2	2	3	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:62550538T>C	uc003xuj.2	-	12	1126	c.857A>G	c.(856-858)AAT>AGT	p.N286S	ASPH_uc011leg.1_Missense_Mutation_p.N257S|ASPH_uc003xuo.2_Missense_Mutation_p.N267S|ASPH_uc011leh.1_Missense_Mutation_p.N252S|ASPH_uc003xul.2_Missense_Mutation_p.N272S|ASPH_uc011lei.1_Missense_Mutation_p.N271S|ASPH_uc011lej.1_Missense_Mutation_p.N229S|ASPH_uc003xun.2_Missense_Mutation_p.N243S|ASPH_uc011lek.1_Missense_Mutation_p.N267S|ASPH_uc003xum.2_Missense_Mutation_p.N286S	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	286	Glu-rich.|Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	TTCTACAGGATTATCCTCAGG	0.323													4	26					0	0	1	0	0		C	62550538	C	C	62550538	3	2	82	1	0	0	0	0	1	0	0	0	1054	1493	52	3	1487	3	ASPH	8	62550538	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5671185	62550538	83813484	596	51052											
ARFGEF1	10565	broad.mit.edu	37	chr8	68139716	68139716	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatatgttcaaaaggtcttaAgaaatccttctggaatctga	14	14	7	6	0	4	2	1	1	3	1	5	3	5	3	1	2	0	1	1	2	7	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:68139716A>T	uc003xxo.1	-	26	4099	c.3709T>A	c.(3709-3711)TTA>ATA	p.L1237I	ARFGEF1_uc003xxl.1_Missense_Mutation_p.L691I|ARFGEF1_uc003xxn.1_Missense_Mutation_p.L220I	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	1237					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			AAAGGTCTTAAGAAATCCTTC	0.363													8	85					0	0	1	0	0		T	68139716	T	T	68139716	3	4	82	1	0	0	0	0	1	0	0	0	852	69	3	5	1896	5	ARFGEF1	8	68139716	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5589178	68139716	78224306	597	51053											
NCOA2	10499	broad.mit.edu	37	chr8	71082536	71082536	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctcttcttggttataccTtagatactgtgtcacattct	8	17	6	10	0	4	1	1	0	3	1	4	1	4	1	1	1	3	2	1	1	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:71082536T>G	uc003xyn.1	-	6	604	c.442A>C	c.(442-444)AGG>CGG	p.R148R		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	148	PAS.				cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TGGTTATACCTTAGATACTGT	0.423			T	RUNXBP2	AML								5	16					0	0	1	0	0		G	71082536	G	G	71082536	2	3	82	1	0	0	0	0	0	0	0	1	10248	1608	56	5		5	NCOA2	8	71082536	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2942820	71082536	75281486	598	51054											
EYA1	2138	broad.mit.edu	37	chr8	72267124	72267124	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacggctatgcgggctggttAgatcctgcatttccatagac	8	11	12	10	2	0	2	0	0	0	2	2	3	2	2	2	3	2	4	2	3	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:72267124A>G	uc003xys.3	-	2	304	c.17T>C	c.(16-18)CTA>CCA	p.L6P	EYA1_uc003xyr.3_Missense_Mutation_p.L6P|EYA1_uc003xyt.3_Intron|EYA1_uc010lzf.2_5'UTR|EYA1_uc003xyu.2_Missense_Mutation_p.L6P|EYA1_uc011lfe.1_Missense_Mutation_p.L6P|EYA1_uc003xyv.2_5'UTR	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	6					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			CGGGCTGGTTAGATCCTGCAT	0.448													11	155					0	0	1	0	0		G	72267124	G	G	72267124	3	3	82	1	0	0	0	0	1	0	0	0	5336	420	15	3	1825	3	EYA1	8	72267124	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1184588	72267124	74096898	599	51055											
UBE2W	55284	broad.mit.edu	37	chr8	74742629	74742629	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacttactgtgtaattgaatTttgaacactcttctcattta	11	19	4	7	0	2	2	1	2	2	0	3	2	2	2	0	0	3	1	0	0	6	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:74742629T>G	uc003xzv.2	-	2	147	c.94A>C	c.(94-96)AAT>CAT	p.N32H	UBE2W_uc003xzt.2_Missense_Mutation_p.N32H|UBE2W_uc003xzu.2_Missense_Mutation_p.N43H|UBE2W_uc003xzw.2_RNA	NM_018299	NP_060769	Q96B02	UBE2W_HUMAN	ubiquitin-conjugating enzyme E2W (putative)	32					protein K11-linked ubiquitination|protein monoubiquitination		ATP binding|protein binding|ubiquitin-protein ligase activity				0	Breast(64;0.0311)		Epithelial(68;0.0235)|all cancers(69;0.0687)|BRCA - Breast invasive adenocarcinoma(89;0.069)			GTAATTGAATTTTGAACACTC	0.303													24	63					0	0	1	0	0		G	74742629	G	G	74742629	3	3	82	1	0	0	0	0	1	0	0	0	16903	1841	64	5	381	5	UBE2W	8	74742629	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2475505	74742629	71621393	600	51056											
ZFHX4	79776	broad.mit.edu	37	chr8	77617339	77617339	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tataagctttctggaaccaaAaaaatccacttctgtttatc	14	14	4	9	0	2	0	0	0	2	0	4	1	3	1	2	1	2	2	2	1	7	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:77617339A>C	uc003yav.2	+	2	1403	c.1016A>C	c.(1015-1017)AAA>ACA	p.K339T	ZFHX4_uc003yat.1_Missense_Mutation_p.K339T|ZFHX4_uc003yau.1_Missense_Mutation_p.K339T|ZFHX4_uc003yaw.1_Missense_Mutation_p.K339T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	339						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTGGAACCAAAAAAATCCACT	0.428										HNSCC(33;0.089)			22	69					0	0	1	0	0		C	77617339	C	C	77617339	3	2	82	1	0	0	0	0	1	0	0	0	17660	14	1	5	1018	5	ZFHX4	8	77617339	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2874710	77617339	68746683	601	51057											
CNGB3	54714	broad.mit.edu	37	chr8	87656904	87656904	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgatgattaaattcaaaaAatgaagtgtactatatagaa	19	12	8	2	0	1	4	1	3	0	1	1	4	1	4	0	1	1	1	0	1	11	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:87656904A>C	uc003ydx.2	-	9	1047	c.1001T>G	c.(1000-1002)TTT>TGT	p.F334C	CNGB3_uc010maj.2_Missense_Mutation_p.F196C	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	334	Extracellular (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						AAATTCAAAAAATGAAGTGTA	0.259													9	39					0	0	1	0	0		C	87656904	C	C	87656904	3	2	82	1	0	0	0	0	1	0	0	0	3604	14	1	5	1468	5	CNGB3	8	87656904	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	10039565	87656904	58707118	602	51058											
GDF6	392255	broad.mit.edu	37	chr8	97172781	97172781	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccgctgcatcttgccttccTtgcggcttcgcatgcccttg	2	13	9	17	3	1	0	0	0	1	0	3	0	2	0	4	1	4	4	4	1	0	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:97172781T>G	uc003yhp.2	-	1	240	c.140A>C	c.(139-141)AAG>ACG	p.K47T		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	47					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					CTTGCCTTCCTTGCGGCTTCG	0.667													19	67					0	0	1	0	0		G	97172781	G	G	97172781	3	3	82	1	0	0	0	0	1	0	0	0	6332	1609	56	5	1235	5	GDF6	8	97172781	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	9515877	97172781	49191241	603	51059											
ATP6V1C1	528	broad.mit.edu	37	chr8	104065044	104065044	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcagaatttggaacgaaAgaatgcgtaagcagatcaag	16	9	10	6	2	3	3	2	0	1	3	3	5	3	4	0	1	3	2	0	1	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:104065044A>G	uc003ykz.3	+	6	712	c.467A>G	c.(466-468)AAG>AGG	p.K156R	ATP6V1C1_uc010mbz.2_Missense_Mutation_p.K81R|ATP6V1C1_uc003yla.2_Missense_Mutation_p.K156R|ATP6V1C1_uc011lhl.1_Missense_Mutation_p.K81R	NM_001695	NP_001686	P21283	VATC1_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit	156					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|plasma membrane|proton-transporting V-type ATPase, V1 domain	protein binding|proton-transporting ATPase activity, rotational mechanism				0	Lung NSC(17;0.000427)|all_lung(17;0.000533)		OV - Ovarian serous cystadenocarcinoma(57;3.57e-05)|STAD - Stomach adenocarcinoma(118;0.133)			TTGGAACGAAAGAATGCGTAA	0.368													14	48					0	0	1	0	0		G	104065044	G	G	104065044	3	3	82	1	0	0	0	0	1	0	0	0	1181	72	3	3	485	3	ATP6V1C1	8	104065044	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6892263	104065044	42298978	604	51060											
KCNV1	27012	broad.mit.edu	37	chr8	110980514	110980514	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccttgagtttcaaggtgaAgtagcaagcagagaagcgat	13	10	12	6	1	1	3	1	2	0	1	2	5	2	3	1	1	3	4	1	1	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:110980514A>C	uc003ynr.3	-	3	1648	c.1306T>G	c.(1306-1308)TTC>GTC	p.F436V	KCNV1_uc010mcw.2_Missense_Mutation_p.F436V	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	436	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			TTCAAGGTGAAGTAGCAAGCA	0.428													12	89					0	0	1	0	0		C	110980514	C	C	110980514	3	2	82	1	0	0	0	0	1	0	0	0	8110	72	3	5	200	5	KCNV1	8	110980514	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6915470	110980514	35383508	605	51061											
ATAD2	29028	broad.mit.edu	37	chr8	124357232	124357232	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtggctttaagtgtcggTccaactatttcccaccacac	10	12	7	12	1	0	0	0	0	0	0	3	0	2	0	3	2	1	1	3	2	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:124357232T>C	uc003yqh.3	-	19	2718	c.2610A>G	c.(2608-2610)GGA>GGG	p.G870G	ATAD2_uc011lii.1_Silent_p.G661G|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Silent_p.G870G	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	870					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TAAGTGTCGGTCCAACTATTT	0.408													12	147					0	0	1	0	0		C	124357232	C	C	124357232	2	2	82	1	0	0	0	0	0	0	0	1	1072	1654	58	3		3	ATAD2	8	124357232	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	13376718	124357232	22006790	606	51062											
ADCY8	114	broad.mit.edu	37	chr8	131795960	131795960	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggagttcaaaattgttgAatgaatgcttgttgatctcc	10	15	9	7	1	2	3	1	3	1	0	4	4	3	4	2	1	1	4	2	1	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:131795960A>G	uc003ytd.3	-	17	3501	c.3245T>C	c.(3244-3246)TTC>TCC	p.F1082S	ADCY8_uc010mds.2_Missense_Mutation_p.F951S	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1082	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			AAAATTGTTGAATGAATGCTT	0.517										HNSCC(32;0.087)			5	42					0	0	1	0	0		G	131795960	G	G	131795960	3	3	82	1	0	0	0	0	1	0	0	0	300	246	9	3	518	3	ADCY8	8	131795960	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	7438728	131795960	14568062	607	51063											
ADCY8	114	broad.mit.edu	37	chr8	131796002	131796002	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgctttctgtcagggcgAgtgagaagtcagccagagca	10	9	14	8	1	3	2	2	1	1	2	3	4	3	2	1	1	3	3	1	1	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:131796002A>C	uc003ytd.3	-	17	3459	c.3203T>G	c.(3202-3204)CTC>CGC	p.L1068R	ADCY8_uc010mds.2_Missense_Mutation_p.L937R	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1068	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TGTCAGGGCGAGTGAGAAGTC	0.478										HNSCC(32;0.087)			11	45					0	0	1	0	0		C	131796002	C	C	131796002	3	2	82	1	0	0	0	0	1	0	0	0	300	304	11	5	560	5	ADCY8	8	131796002	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	42	131796002	14568020	608	51064											
EFR3A	23167	broad.mit.edu	37	chr8	132991146	132991146	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgcactgccagggtcttTcctggatcctttgttatcac	6	15	8	12	0	2	0	1	0	1	0	4	1	4	1	3	2	3	2	3	2	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:132991146T>C	uc003yte.2	+	13	1580	c.1379T>C	c.(1378-1380)TTC>TCC	p.F460S		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	460						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			CCAGGGTCTTTCCTGGATCCT	0.423													28	60					0	0	1	0	0		C	132991146	C	C	132991146	3	2	82	1	0	0	0	0	1	0	0	0	4964	1783	62	3	1429	3	EFR3A	8	132991146	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1195144	132991146	13372876	609	51065											
KCNK9	51305	broad.mit.edu	37	chr8	140631316	140631316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagaaggccttgcccgcatCggtgccaggtgcagcgtgcc	6	6	15	14	3	0	1	0	0	0	1	1	1	0	1	4	3	5	3	4	3	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:140631316C>T	uc003yvf.1	-	2	374	c.310G>A	c.(310-312)GAT>AAT	p.D104N	KCNK9_uc003yvg.1_Missense_Mutation_p.D104N|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	104	Extracellular (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			TTGCCCGCATCGGTGCCAGGT	0.612													15	21					0	0	1	0	0		T	140631316	T	T	140631316	3	4	82	1	0	0	0	0	1	0	0	0	8088	884	31	1	818	1	KCNK9	8	140631316	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	7640170	140631316	5732706	610	51066											
ZNF251	90987	broad.mit.edu	37	chr8	145947158	145947158	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgaactctggctgaaggcTttcccatacacactgcaatg	10	11	9	11	0	1	2	0	2	1	0	2	2	2	2	1	2	3	3	1	2	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr8:145947158T>G	uc003zdv.3	-	5	2143	c.1887A>C	c.(1885-1887)AAA>AAC	p.K629N		NM_138367	NP_612376	Q9BRH9	ZN251_HUMAN	zinc finger protein 251	629	C2H2-type 14; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;7.54e-38)|all cancers(56;6.19e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.198)		GGCTGAAGGCTTTCCCATACA	0.438													6	37					0	0	1	0	0		G	145947158	G	G	145947158	3	3	82	1	0	0	0	0	1	0	0	0	17821	1606	56	5	132	5	ZNF251	8	145947158	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5315842	145947158	416864	611	51067											
DOCK8	81704	broad.mit.edu	37	chr9	463649	463649	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcgagcggaaaattccagaActgtacaagccaatattcag	16	8	8	9	2	1	1	1	0	0	1	3	3	2	2	2	1	4	1	2	1	7	4	rs145573166	byFrequency	TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:463649A>C	uc003zgf.2	+	47	6313	c.6201A>C	c.(6199-6201)GAA>GAC	p.E2067D	DOCK8_uc010mgu.2_Missense_Mutation_p.E1369D|DOCK8_uc010mgv.2_Missense_Mutation_p.E1967D|DOCK8_uc003zgk.2_Missense_Mutation_p.E1525D	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	2067					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		AAATTCCAGAACTGTACAAGC	0.473													4	38					0	0	1	0	0		C	463649	C	C	463649	3	2	82	1	0	0	0	0	1	0	0	0	4699	40	2	5	6387	5	DOCK8	9	463649	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08		463649	140749782	612	51068											
KIAA0020	9933	broad.mit.edu	37	chr9	2811528	2811528	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttgcaggtagcttaacaAagctggagaaatggattcta	13	12	10	6	0	2	1	0	0	2	1	2	3	2	2	0	3	4	4	0	3	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:2811528A>G	uc003zhp.1	-	15	1564	c.1468T>C	c.(1468-1470)TTG>CTG	p.L490L	KIAA0020_uc010mhc.1_Silent_p.L489L|KIAA0020_uc003zhq.1_Silent_p.L489L	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	490	PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		TAGCTTAACAAAGCTGGAGAA	0.468													24	123					0	0	1	0	0		G	2811528	G	G	2811528	2	3	82	1	0	0	0	0	0	0	0	1	8168	11	1	3		3	KIAA0020	9	2811528	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2347879	2811528	138401903	613	51069											
SLC1A1	6505	broad.mit.edu	37	chr9	4490700	4490700	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggggaaaccggcgaggaaAggatgcgagtggaagcgctt	12	5	18	6	4	0	0	0	0	0	0	0	6	0	4	1	6	3	1	1	6	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:4490700A>C	uc003zij.1	+	1	257	c.21A>C	c.(19-21)AAA>AAC	p.K7N		NM_004170	NP_004161	P43005	EAA3_HUMAN	solute carrier family 1, member 1	7	Cytoplasmic (Potential).				D-aspartate import|L-glutamate import|synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0		Acute lymphoblastic leukemia(2;0.0359)|Breast(48;0.0457)		GBM - Glioblastoma multiforme(50;0.0124)|Lung(218;0.183)	L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)	CGGCGAGGAAAGGATGCGAGT	0.701													8	19					0	0	1	0	0		C	4490700	C	C	4490700	3	2	82	1	0	0	0	0	1	0	0	0	14456	69	3	5	23	5	SLC1A1	9	4490700	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1679172	4490700	136722731	614	51070											
CDC37L1	55664	broad.mit.edu	37	chr9	4685004	4685004	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttagcactgcataattctgAgtccttggatcaggagcatg	10	12	10	9	0	2	1	1	1	1	0	3	3	3	3	1	2	3	3	1	2	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:4685004A>G	uc003zio.2	+	2	470	c.260A>G	c.(259-261)GAG>GGG	p.E87G		NM_017913	NP_060383	Q7L3B6	CD37L_HUMAN	cell division cycle 37 homolog (S.	87	Potential.|Self-association.					cytoplasm					0	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0318)		CATAATTCTGAGTCCTTGGAT	0.458													8	73					0	0	1	0	0		G	4685004	G	G	4685004	3	3	82	1	0	0	0	0	1	0	0	0	3072	304	11	3	266	3	CDC37L1	9	4685004	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	194304	4685004	136528427	615	51071											
RLN1	6013	broad.mit.edu	37	chr9	5335303	5335303	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaattaggcaacatttcTcaaacagtgccacgtagggt	14	9	8	10	1	1	0	1	0	1	0	2	0	1	0	2	2	4	2	2	2	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:5335303T>G	uc003zjb.1	-	2	633	c.506A>C	c.(505-507)GAG>GCG	p.E169A		NM_006911	NP_008842	P04808	REL1_HUMAN	relaxin 1 preproprotein	169					female pregnancy|signal transduction	extracellular region	hormone activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.02)|Lung(218;0.0984)		GCAACATTTCTCAAACAGTGC	0.393													15	50					0	0	1	0	0		G	5335303	G	G	5335303	3	3	82	1	0	0	0	0	1	0	0	0	13416	1551	54	5	55	5	RLN1	9	5335303	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	650299	5335303	135878128	616	51072											
KIAA1432	57589	broad.mit.edu	37	chr9	5747306	5747306	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttccctcatttagagtaAccaagagcaggtgttgcttc	9	14	8	10	0	2	2	1	0	1	2	4	2	3	2	2	1	3	4	2	1	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:5747306A>C	uc003zji.2	+	11	1109	c.1016A>C	c.(1015-1017)AAC>ACC	p.N339T	KIAA1432_uc003zjh.2_Missense_Mutation_p.N339T|KIAA1432_uc003zjl.3_Missense_Mutation_p.N339T|KIAA1432_uc003zjj.1_5'UTR	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	418						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		ATTTAGAGTAACCAAGAGCAG	0.418													5	74					0	0	1	0	0		C	5747306	C	C	5747306	3	2	82	1	0	0	0	0	1	0	0	0	8249	43	2	5	1058	5	KIAA1432	9	5747306	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	412003	5747306	135466125	617	51073											
KIAA1432	57589	broad.mit.edu	37	chr9	5763220	5763220	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcaaataaacagaaacgTcaccttctggaggccctctg	13	7	9	12	2	3	1	1	0	2	1	3	3	3	2	2	2	3	1	2	2	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:5763220T>G	uc003zji.2	+	18	2049	c.1956T>G	c.(1954-1956)CGT>CGG	p.R652R	KIAA1432_uc003zjh.2_Silent_p.R652R|KIAA1432_uc003zjl.3_Silent_p.R615R|KIAA1432_uc003zjj.1_Silent_p.R194R	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	731						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		AACAGAAACGTCACCTTCTGG	0.522													28	105					0	0	1	0	0		G	5763220	G	G	5763220	2	3	82	1	0	0	0	0	0	0	0	1	8249	1654	58	5		5	KIAA1432	9	5763220	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	15914	5763220	135450211	618	51074											
PTPRD	5789	broad.mit.edu	37	chr9	8338943	8338943	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggcatctgtgaccttgaaTtcccttaggatatactgtgg	8	14	10	9	0	1	2	0	2	1	0	2	3	2	3	2	3	1	1	2	3	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:8338943T>G	uc003zkk.2	-	42	6069	c.5358A>C	c.(5356-5358)GAA>GAC	p.E1786D	PTPRD_uc003zkp.2_Missense_Mutation_p.E1380D|PTPRD_uc003zkq.2_Missense_Mutation_p.E1379D|PTPRD_uc003zkr.2_Missense_Mutation_p.E1370D|PTPRD_uc003zks.2_Missense_Mutation_p.E1379D|PTPRD_uc003zkl.2_Missense_Mutation_p.E1777D|PTPRD_uc003zkm.2_Missense_Mutation_p.E1773D|PTPRD_uc003zkn.2_Missense_Mutation_p.E1375D|PTPRD_uc003zko.2_Missense_Mutation_p.E1376D	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1786	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TGACCTTGAATTCCCTTAGGA	0.453										TSP Lung(15;0.13)			6	94					0	0	1	0	0		G	8338943	G	G	8338943	3	3	82	1	0	0	0	0	1	0	0	0	12824	1490	52	5	396	5	PTPRD	9	8338943	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2575723	8338943	132874488	619	51075											
PTPRD	5789	broad.mit.edu	37	chr9	8636748	8636748	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttttgttccagacaattTtaggtcttgggtctcccgta	6	18	8	9	1	2	1	0	0	2	1	4	1	3	1	2	2	0	2	2	2	3	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:8636748T>G	uc003zkk.2	-	12	872	c.161A>C	c.(160-162)AAA>ACA	p.K54T	PTPRD_uc003zkp.2_Missense_Mutation_p.K54T|PTPRD_uc003zkq.2_Missense_Mutation_p.K54T|PTPRD_uc003zkr.2_Missense_Mutation_p.K54T|PTPRD_uc003zks.2_Missense_Mutation_p.K54T|PTPRD_uc003zkl.2_Missense_Mutation_p.K54T|PTPRD_uc003zkm.2_Missense_Mutation_p.K54T|PTPRD_uc003zkn.2_Missense_Mutation_p.K54T|PTPRD_uc003zko.2_Missense_Mutation_p.K54T|PTPRD_uc003zkt.1_Missense_Mutation_p.K54T	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	54	Ig-like C2-type 1.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CCAGACAATTTTAGGTCTTGG	0.468										TSP Lung(15;0.13)			31	86					0	0	1	0	0		G	8636748	G	G	8636748	3	3	82	1	0	0	0	0	1	0	0	0	12824	1841	64	5	5781	5	PTPRD	9	8636748	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	297805	8636748	132576683	620	51076											
BNC2	54796	broad.mit.edu	37	chr9	16436973	16436973	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcactgactggggcagaatTctgaatgggagagacacagg	13	7	14	7	0	2	4	1	2	1	2	2	6	2	5	0	4	0	1	0	4	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:16436973T>C	uc003zml.2	-	6	1359	c.1219A>G	c.(1219-1221)AAT>GAT	p.N407D	BNC2_uc011lmw.1_Missense_Mutation_p.N312D|BNC2_uc003zmm.2_Missense_Mutation_p.N365D|BNC2_uc003zmq.1_Missense_Mutation_p.N421D|BNC2_uc003zmr.1_Missense_Mutation_p.N444D|BNC2_uc003zmp.1_Missense_Mutation_p.N435D|BNC2_uc010mij.1_Missense_Mutation_p.N329D|BNC2_uc011lmv.1_Missense_Mutation_p.N233D|BNC2_uc003zmo.1_Missense_Mutation_p.N329D|BNC2_uc003zmj.2_Missense_Mutation_p.N172D|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.N172D|BNC2_uc003zmn.1_Missense_Mutation_p.N172D	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	407					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		GGGGCAGAATTCTGAATGGGA	0.473													7	53					0	0	1	0	0		C	16436973	C	C	16436973	3	2	82	1	0	0	0	0	1	0	0	0	1476	1783	62	3	2088	3	BNC2	9	16436973	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7800225	16436973	124776458	621	51077											
BNC2	54796	broad.mit.edu	37	chr9	16738377	16738377	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcaatttgagatgtatcaAccccacaacatgggaccttg	12	10	7	12	0	2	1	2	1	0	1	2	3	2	2	4	1	2	1	4	1	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:16738377A>C	uc003zml.2	-	2	250	c.110T>G	c.(109-111)GTT>GGT	p.V37G	BNC2_uc011lmw.1_Intron|BNC2_uc003zmm.2_Intron|BNC2_uc003zmq.1_Missense_Mutation_p.V51G|BNC2_uc003zmr.1_Missense_Mutation_p.V37G|BNC2_uc003zmp.1_Missense_Mutation_p.V37G|BNC2_uc010mij.1_Intron|BNC2_uc003zmu.1_RNA|BNC2_uc010mim.1_Intron|BNC2_uc010min.1_Intron	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	37					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		AGATGTATCAACCCCACAACA	0.423													4	35					0	0	1	0	0		C	16738377	C	C	16738377	3	2	82	1	0	0	0	0	1	0	0	0	1476	43	2	5	3213	5	BNC2	9	16738377	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	301404	16738377	124475054	622	51078											
PLIN2	123	broad.mit.edu	37	chr9	19120914	19120914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagagggaggtactgttctaCcaacagctctgatttggtga	10	11	13	7	0	2	3	0	2	2	1	2	5	2	4	1	3	4	3	1	3	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:19120914C>T	uc003zno.2	-	5	738	c.559G>A	c.(559-561)GTA>ATA	p.V187I	PLIN2_uc011lna.1_Missense_Mutation_p.V159I|PLIN2_uc011lnb.1_Intron	NM_001122	NP_001113	Q99541	PLIN2_HUMAN	adipose differentiation-related protein	187					cellular lipid metabolic process	endoplasmic reticulum|extracellular region|lipid particle				ovary(2)	2						TACTGTTCTACCAACAGCTCT	0.428													14	119					0	0	1	0	0		T	19120914	T	T	19120914	3	4	82	1	0	0	0	0	1	0	0	0	12109	507	18	4	770	4	PLIN2	9	19120914	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	2382537	19120914	122092517	623	51079											
KIAA1797	54914	broad.mit.edu	37	chr9	20995574	20995574	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccctgctgtccttgagAgttctcccagagtttaagaa	9	11	9	12	0	1	3	0	1	1	3	3	4	2	3	4	0	1	3	4	0	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:20995574A>G	uc003zog.1	+	46	5715	c.5352A>G	c.(5350-5352)AGA>AGG	p.R1784R	KIAA1797_uc003zoh.1_Silent_p.R1220R	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	1784						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		TGTCCTTGAGAGTTCTCCCAG	0.423													13	71					0	0	1	0	0		G	20995574	G	G	20995574	2	3	82	1	0	0	0	0	0	0	0	1	8274	301	11	3		3	KIAA1797	9	20995574	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1874660	20995574	120217857	624	51080											
KIAA1797	54914	broad.mit.edu	37	chr9	20995592	20995592	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttctcccagagtttaaGaagaaagctgtatggaccag	14	9	11	7	0	1	4	0	0	1	4	2	5	1	5	2	1	1	4	2	1	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:20995592G>T	uc003zog.1	+	46	5733	c.5370G>T	c.(5368-5370)AAG>AAT	p.K1790N	KIAA1797_uc003zoh.1_Missense_Mutation_p.K1226N	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	1790						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		CAGAGTTTAAGAAGAAAGCTG	0.428													12	59					7.03913e-09	7.10272e-09	1	1	0		T	20995592	T	T	20995592	3	4	82	1	0	0	0	0	1	0	0	0	8274	933	33	5	5540	5	KIAA1797	9	20995592	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	18	20995592	120217839	625	51081											
IFNW1	3467	broad.mit.edu	37	chr9	21141068	21141068	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatttcatgatttccattcTgacaacttcccaggcacagt	10	13	7	11	0	2	2	1	2	1	0	4	3	4	3	2	2	1	1	2	2	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:21141068T>C	uc003zol.1	-	1	1077	c.502A>G	c.(502-504)AGA>GGA	p.R168G		NM_002177	NP_002168	P05000	IFNW1_HUMAN	interferon, omega 1 precursor	168					cell cycle arrest|defense response|response to virus	extracellular space	cytokine activity|cytokine receptor binding				0				GBM - Glioblastoma multiforme(5;2.35e-185)|Lung(24;2.24e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		ATTTCCATTCTGACAACTTCC	0.438													7	110					0	0	1	0	0		C	21141068	C	C	21141068	3	2	82	1	0	0	0	0	1	0	0	0	7568	1588	55	3	89	3	IFNW1	9	21141068	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	145476	21141068	120072363	626	51082											
NDUFB6	4712	broad.mit.edu	37	chr9	32558948	32558948	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcaactatgccatatggtTtttcctgtaataaaagttaa	13	17	5	6	0	1	0	1	0	0	0	2	0	2	0	2	1	2	3	2	1	7	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:32558948T>G	uc003zre.1	-	3	402	c.278A>C	c.(277-279)AAA>ACA	p.K93T	NDUFB6_uc003zrf.1_Intron	NM_002493	NP_002484	O95139	NDUB6_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	93					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00199)	NADH(DB00157)	GCCATATGGTTTTTCCTGTAA	0.214													7	85					0	0	1	0	0		G	32558948	G	G	32558948	3	3	82	1	0	0	0	0	1	0	0	0	10304	1841	64	5	116	5	NDUFB6	9	32558948	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	11417880	32558948	108654483	627	51083											
AQP3	360	broad.mit.edu	37	chr9	33443820	33443820	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcaaagccaaaggccaggTtgatggtgaggaaaccaccg	14	4	13	10	1	0	2	0	2	0	0	0	3	0	3	4	4	3	2	4	4	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:33443820T>G	uc003zsx.2	-	2	241	c.179A>C	c.(178-180)AAC>ACC	p.N60T	SUGT1P1_uc010mjq.1_Intron|AQP3_uc003zsv.1_Missense_Mutation_p.N60T|AQP3_uc003zsw.2_5'Flank|AQP3_uc010mju.2_Missense_Mutation_p.N60T	NM_004925	NP_004916	Q92482	AQP3_HUMAN	aquaporin 3	60	Helical; (Potential).				excretion|odontogenesis|positive regulation of immune system process|regulation of keratinocyte differentiation|response to calcium ion|response to retinoic acid|response to vitamin D	basolateral plasma membrane|cell-cell junction|cytoplasm	glycerol channel activity|water channel activity				0			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.0899)		AAAGGCCAGGTTGATGGTGAG	0.602													6	24					0	0	1	0	0		G	33443820	G	G	33443820	3	3	82	1	0	0	0	0	1	0	0	0	827	1725	60	5	719	5	AQP3	9	33443820	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	884872	33443820	107769611	628	51084											
UBAP2	55833	broad.mit.edu	37	chr9	33953371	33953371	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgcgaatttgtgaagacaAgggcttggccaaagccctgc	10	9	13	9	1	0	2	0	1	0	1	0	3	0	2	2	2	3	2	2	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:33953371A>G	uc003ztq.1	-	12	1081	c.968T>C	c.(967-969)CTT>CCT	p.L323P	UBAP2_uc011loc.1_Missense_Mutation_p.L232P|UBAP2_uc011lod.1_Missense_Mutation_p.L56P|UBAP2_uc011loe.1_Missense_Mutation_p.L78P|UBAP2_uc011lof.1_Missense_Mutation_p.L248P|UBAP2_uc011log.1_Missense_Mutation_p.L269P|UBAP2_uc003ztr.2_Missense_Mutation_p.L195P|SNORD121A_uc010mjz.2_5'Flank	NM_018449	NP_060919	Q5T6F2	UBAP2_HUMAN	ubiquitin associated protein 2	323										ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)		TGTGAAGACAAGGGCTTGGCC	0.517													6	40					0	0	1	0	0		G	33953371	G	G	33953371	3	3	82	1	0	0	0	0	1	0	0	0	16863	72	3	3	2463	3	UBAP2	9	33953371	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	509551	33953371	107260060	629	51085											
DNAI1	27019	broad.mit.edu	37	chr9	34491532	34491532	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcctcctcccaggacaaacTtttcagccacagccaatcag	12	7	6	16	0	2	0	2	0	0	0	4	1	4	1	5	1	4	0	5	1	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:34491532T>G	uc003zum.2	+	8	854	c.661T>G	c.(661-663)TTT>GTT	p.F221V		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	221					cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)		CAGGACAAACTTTTCAGCCAC	0.493									Kartagener_syndrome				10	54					0	0	1	0	0		G	34491532	G	G	34491532	3	3	82	1	0	0	0	0	1	0	0	0	4615	1609	56	5	691	5	DNAI1	9	34491532	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	538161	34491532	106721899	630	51086											
FBXO10	26267	broad.mit.edu	37	chr9	37518122	37518122	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacatgcagacatactcacTttagtgtcggacctgggcag	11	9	10	11	1	1	1	1	0	0	1	2	2	1	2	1	2	2	2	1	2	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:37518122T>C	uc004aab.2	-	9	2563	c.2514A>G	c.(2512-2514)AAA>AAG	p.K838K	FBXO10_uc004aac.2_Silent_p.K854K|FBXO10_uc004aad.2_Silent_p.K388K	NM_012166	NP_036298	Q9UK96	FBX10_HUMAN	F-box protein 10	838	PbH1 17.					ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(5)	5				GBM - Glioblastoma multiforme(29;0.0107)		ACATACTCACTTTAGTGTCGG	0.557													10	41					0	0	1	0	0		C	37518122	C	C	37518122	2	2	82	1	0	0	0	0	0	0	0	1	5740	1623	56	3		3	FBXO10	9	37518122	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3026590	37518122	103695309	631	51087											
MCART1	92014	broad.mit.edu	37	chr9	37888453	37888453	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagccacacaagtaatgcTtcatctcaccaacatttgta	14	10	5	12	0	2	0	2	0	1	0	3	0	2	0	2	0	4	4	2	0	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:37888453T>G	uc004aau.2	-	3	839	c.95A>C	c.(94-96)AAG>ACG	p.K32T	MCART1_uc004aar.1_Intron|MCART1_uc004aaq.1_Intron|uc004aat.1_5'Flank|MCART1_uc004aav.2_Missense_Mutation_p.K32T	NM_033412	NP_219480	Q9H1U9	MCAR1_HUMAN	mitochondrial carrier triple repeat 1	32	Solcar 1.				transport	integral to membrane|mitochondrial inner membrane				ovary(2)|breast(1)	3				GBM - Glioblastoma multiforme(29;0.00559)|Lung(182;0.0422)		CAAGTAATGCTTCATCTCACC	0.418													10	134					0	0	1	0	0		G	37888453	G	G	37888453	3	3	82	1	0	0	0	0	1	0	0	0	9387	1609	56	5	802	5	MCART1	9	37888453	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	370331	37888453	103324978	632	51088											
FAM75A6	389730	broad.mit.edu	37	chr9	43628663	43628663	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtgaaagaaggtccgaagtCtcctccaggcctctcgggca	9	8	12	12	2	2	2	0	1	2	1	6	3	4	2	4	3	0	1	4	3	3	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:43628663C>T	uc011lrb.1	-	3	308	c.279G>A	c.(277-279)GAG>GAA	p.E93E		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	93						integral to membrane					0						GGTCCGAAGTCTCCTCCAGGC	0.607													17	127					0	0	1	0	0		T	43628663	T	T	43628663	2	4	82	1	0	0	0	0	0	0	0	1	5636	912	32	4		4	FAM75A6	9	43628663	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	5740210	43628663	97584768	633	51089											
FAM189A2	9413	broad.mit.edu	37	chr9	71992295	71992295	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgccccagaaagtcctcTttgccctgtgtgccttgaat	6	13	8	14	0	1	2	0	1	1	1	2	2	2	2	6	0	3	0	6	0	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:71992295T>A	uc010mon.1	+	5	366	c.262T>A	c.(262-264)TTT>ATT	p.F88I	FAM189A2_uc004ahg.2_Missense_Mutation_p.F88I|FAM189A2_uc010moo.1_5'UTR	NM_001127608	NP_001121080	Q15884	F1892_HUMAN	chromosome 9 open reading frame 61 precursor	88	Helical; (Potential).					integral to membrane					0						GAAAGTCCTCTTTGCCCTGTG	0.453													11	58					0	0	1	0	0		A	71992295	A	A	71992295	3	1	82	1	0	0	0	0	1	0	0	0	5527	1609	56	5	276	5	FAM189A2	9	71992295	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	28363632	71992295	69221136	634	51090											
APBA1	320	broad.mit.edu	37	chr9	72132044	72132044	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctcggggtgctccaggTcggcctccaccgactcgttc	4	8	11	18	4	0	0	0	0	0	0	6	1	2	0	6	4	1	2	6	4	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:72132044T>C	uc004ahh.2	-	2	359	c.83A>G	c.(82-84)GAC>GGC	p.D28G		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	28					axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						GTGCTCCAGGTCGGCCTCCAC	0.697													3	8					0	0	1	0	0		C	72132044	C	C	72132044	3	2	82	1	0	0	0	0	1	0	0	0	756	1667	58	3	2478	3	APBA1	9	72132044	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	139749	72132044	69081387	635	51091											
PCSK5	5125	broad.mit.edu	37	chr9	78772059	78772059	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcacgtgtgtgtggagAgcacagaccgacaaatcaag	13	5	14	9	2	1	2	1	0	0	2	1	4	1	2	1	2	2	3	1	2	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:78772059A>G	uc004ajz.2	+	11	1949	c.1411A>G	c.(1411-1413)AGC>GGC	p.S471G	PCSK5_uc004ajy.2_Missense_Mutation_p.S471G|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	471	Homo B/P.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						GTGTGTGGAGAGCACAGACCG	0.517													22	85					0	0	1	0	0		G	78772059	G	G	78772059	3	3	82	1	0	0	0	0	1	0	0	0	11622	304	11	3	1453	3	PCSK5	9	78772059	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6640015	78772059	62441372	636	51092											
VPS13A	23230	broad.mit.edu	37	chr9	79936645	79936645	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagcctaagcagcaaacTcttcttcattcttcttagta	11	13	5	12	0	5	0	1	0	4	0	5	1	5	0	2	0	4	3	2	0	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:79936645T>C	uc004akr.2	+	44	6073	c.5813T>C	c.(5812-5814)CTC>CCC	p.L1938P	VPS13A_uc004akp.3_Missense_Mutation_p.L1938P|VPS13A_uc004akq.3_Missense_Mutation_p.L1938P|VPS13A_uc004aks.2_Missense_Mutation_p.L1899P|VPS13A_uc004akt.2_Missense_Mutation_p.L278P	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1938					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						AGCAGCAAACTCTTCTTCATT	0.303													19	42					0	0	1	0	0		C	79936645	C	C	79936645	3	2	82	1	0	0	0	0	1	0	0	0	17215	1551	54	3	5987	3	VPS13A	9	79936645	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1164586	79936645	61276786	637	51093											
VPS13A	23230	broad.mit.edu	37	chr9	79954519	79954519	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaagccaggctacatttaAaattacttgactatctcaat	15	13	5	8	0	1	1	1	1	1	0	2	1	1	1	1	1	3	2	1	1	8	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:79954519A>C	uc004akr.2	+	48	6726	c.6466A>C	c.(6466-6468)AAA>CAA	p.K2156Q	VPS13A_uc004akp.3_Missense_Mutation_p.K2156Q|VPS13A_uc004akq.3_Missense_Mutation_p.K2156Q|VPS13A_uc004aks.2_Missense_Mutation_p.K2117Q	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2156					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GCTACATTTAAAATTACTTGA	0.338													5	18					0	0	1	0	0		C	79954519	C	C	79954519	3	2	82	1	0	0	0	0	1	0	0	0	17215	15	1	5	6656	5	VPS13A	9	79954519	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	17874	79954519	61258912	638	51094											
TLE4	7091	broad.mit.edu	37	chr9	82336771	82336771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggacctgcgcgaggggCggcagctgcagcagcacgac	7	3	17	14	4	0	0	0	0	0	0	0	3	0	1	2	4	5	5	2	4	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:82336771C>T	uc004ald.2	+	18	2878	c.2029C>T	c.(2029-2031)CGG>TGG	p.R677W	TLE4_uc004alc.2_Missense_Mutation_p.R652W|TLE4_uc010mpr.2_Missense_Mutation_p.R531W|TLE4_uc004ale.2_Missense_Mutation_p.R289W|TLE4_uc011lsq.1_Missense_Mutation_p.R620W|TLE4_uc010mps.2_Missense_Mutation_p.R576W|TLE4_uc004alf.2_Missense_Mutation_p.R591W	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						GCGCGAGGGGCGGCAGCTGCA	0.468													8	49					0	0	1	0	0		T	82336771	T	T	82336771	3	4	82	1	0	0	0	0	1	0	0	0	15966	759	27	1	2020	1	TLE4	9	82336771	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	2382252	82336771	58876660	639	51095											
TLE1	7088	broad.mit.edu	37	chr9	84230907	84230907	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttacctaccaagctcattTctttggatttcaaagaagtg	11	15	6	9	0	3	1	2	0	1	1	3	2	3	2	2	1	3	1	2	1	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:84230907T>C	uc004aly.2	-	11	1349	c.908A>G	c.(907-909)GAA>GGA	p.E303G	TLE1_uc004alz.2_Missense_Mutation_p.E313G|TLE1_uc011lsr.1_Missense_Mutation_p.E303G|TLE1_uc004ama.1_Missense_Mutation_p.E303G|TLE1_uc011lss.1_Missense_Mutation_p.E229G	NM_005077	NP_005068	Q04724	TLE1_HUMAN	transducin-like enhancer protein 1	303	Pro/Ser-rich.				negative regulation of Wnt receptor signaling pathway|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway		transcription factor binding			ovary(1)|skin(1)	2						CAAGCTCATTTCTTTGGATTT	0.443													6	74					0	0	1	0	0		C	84230907	C	C	84230907	3	2	82	1	0	0	0	0	1	0	0	0	15963	1783	62	3	1444	3	TLE1	9	84230907	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1894136	84230907	56982524	640	51096											
FAM75C1	441452	broad.mit.edu	37	chr9	90536940	90536940	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatctggggctggctcaaaAgttgaggtggccacgctcct	8	9	14	10	1	2	1	1	1	1	0	3	2	3	1	2	5	0	4	2	5	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:90536940A>G	uc010mqi.2	+	4	2147	c.2118A>G	c.(2116-2118)AAA>AAG	p.K706K	FAM75C1_uc004apq.3_Silent_p.K689K	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						CTGGCTCAAAAGTTGAGGTGG	0.527													28	90					0	0	1	0	0		G	90536940	G	G	90536940	2	3	82	1	0	0	0	0	0	0	0	1	5637	69	3	3		3	FAM75C1	9	90536940	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6306033	90536940	50676491	641	51097											
NFIL3	4783	broad.mit.edu	37	chr9	94172426	94172426	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagagctctcctgcgtgtgTtctactgaggacacttctga	8	12	10	11	1	3	3	0	2	3	1	4	4	3	4	1	1	3	2	1	1	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:94172426T>G	uc004arh.2	-	2	986	c.591A>C	c.(589-591)GAA>GAC	p.E197D		NM_005384	NP_005375	Q16649	NFIL3_HUMAN	nuclear factor, interleukin 3 regulated	197	Ser-rich.				circadian rhythm|immune response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						CCTGCGTGTGTTCTACTGAGG	0.478													11	62					0	0	1	0	0		G	94172426	G	G	94172426	3	3	82	1	0	0	0	0	1	0	0	0	10392	1722	60	5	801	5	NFIL3	9	94172426	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3635486	94172426	47041005	642	51098											
PTCH1	5727	broad.mit.edu	37	chr9	98231052	98231052	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggcttttggtttcaagAggaaaggagcatagtgcttc	9	13	12	7	0	1	1	1	0	0	1	2	3	1	3	1	4	2	4	1	4	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:98231052A>G	uc004avk.3	-	14	2419	c.2231T>C	c.(2230-2232)CTC>CCC	p.L744P	PTCH1_uc010mro.2_Missense_Mutation_p.L593P|PTCH1_uc010mrp.2_Missense_Mutation_p.L593P|PTCH1_uc010mrq.2_Missense_Mutation_p.L593P|PTCH1_uc004avl.3_Missense_Mutation_p.L593P|PTCH1_uc010mrr.2_Missense_Mutation_p.L678P|PTCH1_uc004avm.3_Missense_Mutation_p.L743P|PTCH1_uc010mrs.1_Missense_Mutation_p.L412P	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	744	Cytoplasmic (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				TGGTTTCAAGAGGAAAGGAGC	0.473									Basal_Cell_Nevus_syndrome				18	171					0	0	1	0	0		G	98231052	G	G	98231052	3	3	82	1	0	0	0	0	1	0	0	0	12752	304	11	3	2152	3	PTCH1	9	98231052	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4058626	98231052	42982379	643	51099											
PTCH1	5727	broad.mit.edu	37	chr9	98244295	98244295	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtccaaaggtgtaataaTcaaacaagggtaaagatatt	18	9	9	5	0	1	1	1	0	0	1	2	1	2	1	1	2	1	3	1	2	8	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:98244295T>G	uc004avk.3	-	5	870	c.682A>C	c.(682-684)ATT>CTT	p.I228L	PTCH1_uc010mro.2_Missense_Mutation_p.I77L|PTCH1_uc010mrp.2_Missense_Mutation_p.I77L|PTCH1_uc010mrq.2_Missense_Mutation_p.I77L|PTCH1_uc004avl.3_Missense_Mutation_p.I77L|PTCH1_uc010mrr.2_Missense_Mutation_p.I162L|PTCH1_uc004avm.3_Missense_Mutation_p.I227L|PTCH1_uc010mrs.1_5'Flank|PTCH1_uc010mrt.1_RNA|PTCH1_uc010mru.1_Intron|PTCH1_uc004avo.2_Missense_Mutation_p.I162L|PTCH1_uc010mrv.1_RNA	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	228	Extracellular (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				GGTGTAATAATCAAACAAGGG	0.418									Basal_Cell_Nevus_syndrome				10	49					0	0	1	0	0		G	98244295	G	G	98244295	3	3	82	1	0	0	0	0	1	0	0	0	12752	1435	50	5	3737	5	PTCH1	9	98244295	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	13243	98244295	42969136	644	51100											
CTSL2	1515	broad.mit.edu	37	chr9	99797109	99797109	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtttttgctgctgcagtcTggttcaaaataaatgcctgg	9	14	11	7	0	2	0	1	0	1	0	2	0	2	0	1	3	4	5	1	3	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:99797109T>C	uc004awt.2	-	7	1001	c.804A>G	c.(802-804)CCA>CCG	p.P268P	CTSL2_uc010msi.2_Silent_p.P268P|CTSL2_uc004awu.2_Silent_p.P213P|CTSL2_uc010msj.1_Silent_p.P213P	NM_001333	NP_001324	O60911	CATL2_HUMAN	cathepsin L2 preproprotein	268						lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(62;0.0559)				TGCTGCAGTCTGGTTCAAAAT	0.473													14	58					0	0	1	0	0		C	99797109	C	C	99797109	2	2	82	1	0	0	0	0	0	0	0	1	4042	1567	55	3		3	CTSL2	9	99797109	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1552814	99797109	41416322	645	51101											
FOXE1	2304	broad.mit.edu	37	chr9	100617166	100617166	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgtggagaccacggtggacTtctacgggcgcacgtcgccc	6	6	15	14	6	1	1	0	0	1	1	2	3	1	2	2	4	1	1	2	4	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:100617166T>G	uc004axu.2	+	1	1630	c.970T>G	c.(970-972)TTC>GTC	p.F324V		NM_004473	NP_004464	O00358	FOXE1_HUMAN	forkhead box E1	324					cell migration|embryonic organ morphogenesis|hair follicle morphogenesis|hard palate development|lens morphogenesis in camera-type eye|negative regulation of transcription from RNA polymerase II promoter|pattern specification process|peripheral nervous system development|pharynx development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|soft palate development|thymus development|thyroid gland development|thyroid hormone generation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		Acute lymphoblastic leukemia(62;0.158)				CACGGTGGACTTCTACGGGCG	0.741													3	5					0	0	1	0	0		G	100617166	G	G	100617166	3	3	82	1	0	0	0	0	1	0	0	0	6017	1609	56	5	972	5	FOXE1	9	100617166	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	820057	100617166	40596265	646	51102											
COL15A1	1306	broad.mit.edu	37	chr9	101810103	101810103	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggacataaaggagaattTggccttcccgggcgacctgt	10	8	12	11	2	0	1	0	0	0	1	1	4	1	2	4	4	0	0	4	4	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:101810103T>C	uc004azb.1	+	27	2921	c.2715T>C	c.(2713-2715)TTT>TTC	p.F905F		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	905	Triple-helical region 5 (COL5).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				AAGGAGAATTTGGCCTTCCCG	0.537													28	188					0	0	1	0	0		C	101810103	C	C	101810103	2	2	82	1	0	0	0	0	0	0	0	1	3675	1809	63	3		3	COL15A1	9	101810103	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1192937	101810103	39403328	647	51103											
OR13C3	138803	broad.mit.edu	37	chr9	107298596	107298596	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatacatacgccaccttgcTcaggatgatggggtatctca	11	10	9	11	1	2	1	2	1	1	0	3	2	2	2	2	3	3	2	2	3	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:107298596T>C	uc004bcb.1	-	1	499	c.499A>G	c.(499-501)AGC>GGC	p.S167G		NM_001001961	NP_001001961	Q8NGS6	O13C3_HUMAN	olfactory receptor, family 13, subfamily C,	167	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1						GCCACCTTGCTCAGGATGATG	0.488													9	219					0	0	1	0	0		C	107298596	C	C	107298596	3	2	82	1	0	0	0	0	1	0	0	0	10954	1551	54	3	548	3	OR13C3	9	107298596	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5488493	107298596	33914835	648	51104											
SVEP1	79987	broad.mit.edu	37	chr9	113220835	113220835	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgccgctgagaaagttgaActaaaacctaatcaattaat	16	11	6	8	1	2	2	1	2	1	1	2	3	2	2	2	0	3	2	2	0	7	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:113220835A>C	uc010mtz.2	-	20	3829	c.3492T>G	c.(3490-3492)AGT>AGG	p.S1164R	SVEP1_uc010mua.1_Missense_Mutation_p.S1164R	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1164					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						AGAAAGTTGAACTAAAACCTA	0.408													5	11					0	0	1	0	0		C	113220835	C	C	113220835	3	2	82	1	0	0	0	0	1	0	0	0	15445	40	2	5	7339	5	SVEP1	9	113220835	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5922239	113220835	27992596	649	51105											
ZNF883	169834	broad.mit.edu	37	chr9	115759766	115759766	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggcttctctccagtatgAgttctctggtgttcagtaag	7	15	11	8	0	3	1	1	1	2	0	6	1	4	1	1	2	0	5	1	2	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:115759766A>C	uc011lwy.1	-	5	2013	c.774T>G	c.(772-774)ACT>ACG	p.T258T		NM_001101338	NP_001094808	P0CG24	ZN883_HUMAN	hypothetical protein LOC169834	258	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTCCAGTATGAGTTCTCTGGT	0.388													7	106					0	0	1	0	0		C	115759766	C	C	115759766	2	2	82	1	0	0	0	0	0	0	0	1	18223	291	11	5		5	ZNF883	9	115759766	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2538931	115759766	25453665	650	51106											
ZFP37	7539	broad.mit.edu	37	chr9	115806455	115806455	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagtcactgccattcttcTtagcttgagttttcttcttg	6	18	6	11	0	5	1	1	1	4	0	5	1	5	1	1	0	2	2	1	0	1	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:115806455T>G	uc004bgm.1	-	4	471	c.443A>C	c.(442-444)AAG>ACG	p.K148T	ZFP37_uc011lwz.1_Missense_Mutation_p.K163T|ZFP37_uc011lxa.1_Missense_Mutation_p.K149T	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	148						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GCCATTCTTCTTAGCTTGAGT	0.358													31	76					0	0	1	0	0		G	115806455	G	G	115806455	3	3	82	1	0	0	0	0	1	0	0	0	17673	1609	56	5	1453	5	ZFP37	9	115806455	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	46689	115806455	25406976	651	51107											
PAPPA	5069	broad.mit.edu	37	chr9	119115949	119115949	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcagctggcaggagggAgcttgtgttcctgtgacctg	6	10	17	8	0	0	1	0	1	0	0	1	4	1	3	2	4	2	5	2	4	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:119115949A>C	uc004bjn.2	+	17	4605	c.4224A>C	c.(4222-4224)GGA>GGC	p.G1408G	PAPPA_uc011lxq.1_Silent_p.G783G	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1408	Sushi 3.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GGCAGGAGGGAGCTTGTGTTC	0.507													16	114					0	0	1	0	0		C	119115949	C	C	119115949	2	2	82	1	0	0	0	0	0	0	0	1	11451	291	11	5		5	PAPPA	9	119115949	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3309494	119115949	22097482	652	51108											
GSN	2934	broad.mit.edu	37	chr9	124079367	124079367	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttcgtcccctcaggtcTccaatggtgcagggaccatg	6	10	11	14	1	2	0	1	0	1	0	5	1	3	1	4	3	2	2	4	3	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:124079367T>C	uc004blf.1	+	7	971	c.910T>C	c.(910-912)TCC>CCC	p.S304P	GSN_uc004bld.1_Missense_Mutation_p.S253P|GSN_uc010mvq.1_Missense_Mutation_p.S264P|GSN_uc010mvr.1_Missense_Mutation_p.S264P|GSN_uc010mvu.1_Missense_Mutation_p.S253P|GSN_uc010mvt.1_Missense_Mutation_p.S253P|GSN_uc010mvs.1_Missense_Mutation_p.S253P|GSN_uc004ble.1_Missense_Mutation_p.S253P|GSN_uc010mvv.1_Missense_Mutation_p.S253P|GSN_uc011lyh.1_Missense_Mutation_p.S270P|GSN_uc011lyi.1_Missense_Mutation_p.S253P|GSN_uc011lyj.1_Missense_Mutation_p.S277P|GSN_uc004blg.1_Missense_Mutation_p.S35P	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	304					actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						CCCTCAGGTCTCCAATGGTGC	0.622													28	81					0	0	1	0	0		C	124079367	C	C	124079367	3	2	82	1	0	0	0	0	1	0	0	0	6841	1551	54	3	964	3	GSN	9	124079367	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4963418	124079367	17134064	653	51109											
NUP214	8021	broad.mit.edu	37	chr9	134016018	134016018	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccattttatatgattaaTcaaaatcctggggttaagtc	12	16	7	6	0	1	1	1	1	0	0	4	1	3	1	2	2	0	1	2	2	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:134016018T>G	uc004cag.2	+	11	1326	c.1215T>G	c.(1213-1215)AAT>AAG	p.N405K	NUP214_uc004cah.2_Missense_Mutation_p.N405K|NUP214_uc004caf.1_Missense_Mutation_p.N405K	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	405					carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		ATATGATTAATCAAAATCCTG	0.418			T	DEK|SET|ABL1	AML|T-ALL								13	73					0	0	1	0	0		G	134016018	G	G	134016018	3	3	82	1	0	0	0	0	1	0	0	0	10781	1432	50	5	1257	5	NUP214	9	134016018	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	9936651	134016018	7197413	654	51110											
NUP214	8021	broad.mit.edu	37	chr9	134038401	134038401	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcttgtgccagagcgagAgacactgtttaacaccctag	10	9	10	12	1	0	2	0	0	0	2	0	4	0	2	3	0	4	2	3	0	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:134038401A>G	uc004cag.2	+	19	2675	c.2564A>G	c.(2563-2565)GAG>GGG	p.E855G	NUP214_uc004cah.2_Missense_Mutation_p.E845G|NUP214_uc004cai.2_Missense_Mutation_p.E285G|NUP214_uc004caf.1_Missense_Mutation_p.E844G|NUP214_uc010mzf.2_Missense_Mutation_p.E153G	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	855	11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		CCAGAGCGAGAGACACTGTTT	0.438			T	DEK|SET|ABL1	AML|T-ALL								13	57					0	0	1	0	0		G	134038401	G	G	134038401	3	3	82	1	0	0	0	0	1	0	0	0	10781	304	11	3	2638	3	NUP214	9	134038401	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	22383	134038401	7175030	655	51111											
TTF1	7270	broad.mit.edu	37	chr9	135266034	135266034	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttgcactttagcttctacTtctacccaagatatgccctt	8	16	5	12	0	2	1	0	0	2	1	2	1	2	1	2	0	5	3	2	0	5	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:135266034T>G	uc004cbl.2	-	7	2224	c.2172A>C	c.(2170-2172)GAA>GAC	p.E724D	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Missense_Mutation_p.E209D	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	724	Myb-like 2.				negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		TAGCTTCTACTTCTACCCAAG	0.428													51	112					0	0	1	0	0		G	135266034	G	G	135266034	3	3	82	1	0	0	0	0	1	0	0	0	16744	1606	56	5	565	5	TTF1	9	135266034	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1227633	135266034	5947397	656	51112											
GFI1B	8328	broad.mit.edu	37	chr9	135865169	135865169	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgtgcggcaaggccttcaAgcgctcgtccacgctgtcca	7	8	11	15	4	1	0	1	0	0	0	4	0	3	0	3	2	2	3	3	2	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:135865169A>G	uc004ccg.2	+	6	840	c.689A>G	c.(688-690)AAG>AGG	p.K230R	GFI1B_uc010mzy.2_Missense_Mutation_p.K184R	NM_004188	NP_004179	Q5VTD9	GFI1B_HUMAN	growth factor independent 1B transcription	230	Mediates interaction with GATA1.|C2H2-type 3.|Interaction with ARIH2.				cell proliferation|chromatin modification|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;9.04e-07)|Epithelial(140;1.17e-05)		AAGGCCTTCAAGCGCTCGTCC	0.667													4	41					0	0	1	0	0		G	135865169	G	G	135865169	3	3	82	1	0	0	0	0	1	0	0	0	6355	72	3	3	707	3	GFI1B	9	135865169	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	599135	135865169	5348262	657	51113											
BRD3	8019	broad.mit.edu	37	chr9	136906979	136906979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgctacggctgctctcaGcgcccttgctcaccatgggg	5	9	11	16	2	2	0	2	0	1	0	3	0	2	0	2	3	5	4	2	3	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:136906979G>A	uc004cew.2	-	8	1498	c.1310C>T	c.(1309-1311)GCT>GTT	p.A437V	BRD3_uc004cex.2_Missense_Mutation_p.A437V	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	437						nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		GCTGCTCTCAGCGCCCTTGCT	0.677			T	NUT|C15orf55	lethal midline carcinoma of young people								10	13					0	0	1	0	0		A	136906979	A	A	136906979	3	1	82	1	0	0	0	0	1	0	0	0	1506	971	34	2	890	2	BRD3	9	136906979	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1041810	136906979	4306452	658	51114											
PNPLA7	375775	broad.mit.edu	37	chr9	140441763	140441763	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggaaccaagatactcacgaAattgtctaagccttctgaac	14	9	7	11	2	3	2	1	1	2	1	3	4	3	3	2	1	4	0	2	1	6	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr9:140441763A>C	uc004cnf.2	-	2	453	c.116T>G	c.(115-117)TTT>TGT	p.F39C	PNPLA7_uc010ncj.1_Missense_Mutation_p.F64C	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	39					lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		ATACTCACGAAATTGTCTAAG	0.587													29	95					0	0	1	0	0		C	140441763	C	C	140441763	3	2	82	1	0	0	0	0	1	0	0	0	12189	14	1	5	3969	5	PNPLA7	9	140441763	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3534784	140441763	771668	659	51115											
FBXO18	84893	broad.mit.edu	37	chr10	5957404	5957404	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctggtcaagtatgcagagAagtggtctcagagcaggttt	10	10	14	7	1	2	2	2	0	1	2	3	3	2	2	0	3	2	5	0	3	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:5957404A>C	uc001iis.2	+	9	1530	c.1435A>C	c.(1435-1437)AAG>CAG	p.K479Q	FBXO18_uc001iir.2_Missense_Mutation_p.K405Q|FBXO18_uc009xig.2_Missense_Mutation_p.K405Q|FBXO18_uc001iit.2_Missense_Mutation_p.K530Q	NM_178150	NP_835363	Q8NFZ0	FBX18_HUMAN	F-box only protein, helicase, 18 isoform 2	479					DNA repair	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(2)|skin(1)	3						GTATGCAGAGAAGTGGTCTCA	0.547													15	37					0	0	1	0	0		C	5957404	C	C	5957404	3	2	82	1	0	0	0	0	1	0	0	0	5745	247	9	5	1631	5	FBXO18	10	5957404	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08		5957404	129577343	660	51116											
PRKCQ	5588	broad.mit.edu	37	chr10	6540451	6540451	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtggtggacctttgcctgcTtgatggcaccccggcgctga	4	10	14	13	3	0	2	0	2	0	0	0	3	0	3	4	4	2	3	4	4	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:6540451T>C	uc001ijj.1	-	5	524	c.449A>G	c.(448-450)AAG>AGG	p.K150R	PRKCQ_uc009xim.1_Missense_Mutation_p.K150R|PRKCQ_uc001iji.1_Missense_Mutation_p.K183R|PRKCQ_uc009xin.1_Missense_Mutation_p.K114R|PRKCQ_uc010qax.1_Missense_Mutation_p.K25R	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	150					axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						CTTTGCCTGCTTGATGGCACC	0.517													26	50					0	0	1	0	0		C	6540451	C	C	6540451	3	2	82	1	0	0	0	0	1	0	0	0	12537	1609	56	3	1727	3	PRKCQ	10	6540451	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	583047	6540451	128994296	661	51117											
UPF2	26019	broad.mit.edu	37	chr10	12046600	12046600	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaaacaagatggctgggAcaaaagccttcaaatcaatg	16	9	8	8	0	2	1	2	0	0	1	2	2	2	2	1	2	2	1	1	2	7	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:12046600A>T	uc001ila.2	-	4	1907	c.1433T>A	c.(1432-1434)GTC>GAC	p.V478D	UPF2_uc001ilb.2_Missense_Mutation_p.V478D|UPF2_uc001ilc.2_Missense_Mutation_p.V478D|UPF2_uc009xiz.1_Missense_Mutation_p.V478D	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	478					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				GATGGCTGGGACAAAAGCCTT	0.348													7	46					0	0	1	0	0		T	12046600	T	T	12046600	3	4	82	1	0	0	0	0	1	0	0	0	17030	275	10	5	2457	5	UPF2	10	12046600	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5506149	12046600	123488147	662	51118											
RSU1	6251	broad.mit.edu	37	chr10	16635430	16635430	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggggtttccggctgatcTttttcgatttgtcattattc	5	18	9	9	2	2	1	1	1	1	0	5	2	3	1	2	3	0	2	2	3	1	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:16635430T>G	uc001iok.2	-	8	1099	c.797A>C	c.(796-798)AAG>ACG	p.K266T	RSU1_uc001iol.2_Missense_Mutation_p.K266T|RSU1_uc001iom.2_Missense_Mutation_p.K213T	NM_152724	NP_689937	Q15404	RSU1_HUMAN	ras suppressor protein 1 isoform 2	266					cell junction assembly|signal transduction	cytosol	protein binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(1;7.54e-08)		CCGGCTGATCTTTTTCGATTT	0.493													15	39					0	0	1	0	0		G	16635430	G	G	16635430	3	3	82	1	0	0	0	0	1	0	0	0	13741	1609	56	5	40	5	RSU1	10	16635430	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4588830	16635430	118899317	663	51119											
CUBN	8029	broad.mit.edu	37	chr10	17113591	17113591	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccccttctccagttaatTcatccccgcaagctgtaagc	9	11	6	15	1	2	1	1	1	1	0	4	1	3	1	5	0	2	4	5	0	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:17113591T>G	uc001ioo.2	-	19	2511	c.2459A>C	c.(2458-2460)GAA>GCA	p.E820A		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	820	CUB 4.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TCCAGTTAATTCATCCCCGCA	0.413													7	60					0	0	1	0	0		G	17113591	G	G	17113591	3	3	82	1	0	0	0	0	1	0	0	0	4054	1783	62	5	8608	5	CUBN	10	17113591	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	478161	17113591	118421156	664	51120											
GPR158	57512	broad.mit.edu	37	chr10	25887698	25887698	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttccttaaaggagaaatCtcaccacaagcctaaggcag	14	10	7	10	0	1	1	1	0	1	1	3	2	2	1	3	2	1	1	3	2	5	4	rs149957388	byFrequency	TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:25887698C>A	uc001isj.2	+	11	3203	c.3143C>A	c.(3142-3144)TCT>TAT	p.S1048Y	GPR158_uc001isk.2_Missense_Mutation_p.S423Y	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1048	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						AAGGAGAAATCTCACCACAAG	0.458													15	77					1.15088e-07	1.15886e-07	1	1	0		A	25887698	A	A	25887698	3	1	82	1	0	0	0	0	1	0	0	0	6678	913	32	5	3185	5	GPR158	10	25887698	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	8774107	25887698	109647049	665	51121											
GAD2	2572	broad.mit.edu	37	chr10	26559570	26559570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggctttctcgttcgcacaggGgtttgttcctttcctcgtga	3	16	11	11	3	1	1	0	1	1	0	6	1	3	1	2	3	0	5	2	3	0	5	rs2839678		TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:26559570G>A	uc001isp.2	+	10	1480	c.977G>A	c.(976-978)GGG>GAG	p.G326E	GAD2_uc001isq.2_Missense_Mutation_p.G326E	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	326					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	TTCGCACAGGGGTTTGTTCCT	0.463													23	109					0	0	1	0	0		A	26559570	A	A	26559570	3	1	82	1	0	0	0	0	1	0	0	0	6194	1246	43	4	1015	4	GAD2	10	26559570	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	671872	26559570	108975177	666	51122											
WAC	51322	broad.mit.edu	37	chr10	28899749	28899749	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgctcagctctctacacaAggtattcttactcatcttag	9	14	6	12	0	5	0	2	0	3	0	6	0	5	0	0	1	4	4	0	1	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:28899749A>C	uc001iuf.2	+	9	1372	c.1287A>C	c.(1285-1287)CAA>CAC	p.Q429H	WAC_uc001iud.2_Missense_Mutation_p.Q384H|WAC_uc001iue.2_Missense_Mutation_p.Q119H|WAC_uc001iug.2_Missense_Mutation_p.Q326H|WAC_uc001iuh.2_Missense_Mutation_p.Q381H	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	429					cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						TCTCTACACAAGGTATTCTTA	0.338													12	109					0	0	1	0	0		C	28899749	C	C	28899749	3	2	82	1	0	0	0	0	1	0	0	0	17273	86	3	5	1321	5	WAC	10	28899749	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2340179	28899749	106634998	667	51123											
KIF5B	3799	broad.mit.edu	37	chr10	32317437	32317437	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcatctcagctgctcgtttTttctggtggttggtcatttc	4	19	9	9	1	4	0	3	0	2	0	7	0	4	0	0	3	2	4	0	3	0	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:32317437T>C	uc001iwe.3	-	15	2114	c.1644A>G	c.(1642-1644)AAA>AAG	p.K548K		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	548					stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				CTGCTCGTTTTTTCTGGTGGT	0.353													12	67					0	0	1	0	0		C	32317437	C	C	32317437	2	2	82	1	0	0	0	0	0	0	0	1	8322	1838	64	3		3	KIF5B	10	32317437	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3417688	32317437	103217310	668	51124											
FZD8	8325	broad.mit.edu	37	chr10	35930201	35930201	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggttgaactgattgggcaTgtaggtgtagttgtagccga	8	13	16	4	1	0	2	0	2	0	0	0	3	0	2	1	3	2	6	1	3	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:35930201T>C	uc001iyz.1	-	1	162	c.157A>G	c.(157-159)ATG>GTG	p.M53V		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	53	FZ.|Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						TGATTGGGCATGTAGGTGTAG	0.627													10	37					0	0	1	0	0		C	35930201	C	C	35930201	3	2	82	1	0	0	0	0	1	0	0	0	6150	1464	51	3	1931	3	FZD8	10	35930201	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3612764	35930201	99604546	669	51125											
BMS1	9790	broad.mit.edu	37	chr10	43312891	43312891	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcagaatatgatgaaggAgaaagcacatattttgatga	17	10	11	3	0	0	6	0	4	0	2	0	8	0	6	0	1	2	2	0	1	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:43312891A>G	uc001jaj.2	+	15	2887	c.2529A>G	c.(2527-2529)GGA>GGG	p.G843G		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	843					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						ATGATGAAGGAGAAAGCACAT	0.393													18	55					0	0	1	0	0		G	43312891	G	G	43312891	2	3	82	1	0	0	0	0	0	0	0	1	1473	291	11	3		3	BMS1	10	43312891	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	7382690	43312891	92221856	670	51126											
OR13A1	79290	broad.mit.edu	37	chr10	45799853	45799853	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgggactatcaggtgactCtccatccacagcttcatgtg	8	12	9	12	0	4	1	2	1	2	0	6	2	5	2	2	2	1	1	2	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:45799853C>T	uc001jcc.1	-	4	327	c.18G>A	c.(16-18)GAG>GAA	p.E6E	OR13A1_uc001jcd.1_Silent_p.E2E	NM_001004297	NP_001004297	Q8NGR1	O13A1_HUMAN	olfactory receptor, family 13, subfamily A,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCAGGTGACTCTCCATCCACA	0.522													22	72					0	0	1	0	0		T	45799853	T	T	45799853	2	4	82	1	0	0	0	0	0	0	0	1	10952	912	32	4		4	OR13A1	10	45799853	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	2486962	45799853	89734894	671	51127											
RBP3	5949	broad.mit.edu	37	chr10	48385883	48385883	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcatccgtgtgcatgatcTtcttccagatgtgctccacc	6	13	9	13	1	2	2	0	1	2	1	5	2	5	2	4	1	2	3	4	1	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:48385883T>G	uc001jez.2	-	2	3323	c.3209A>C	c.(3208-3210)AAG>ACG	p.K1070T		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	1070	4 X approximate tandem repeats.|4.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	GTGCATGATCTTCTTCCAGAT	0.567													36	70					0	0	1	0	0		G	48385883	G	G	48385883	3	3	82	1	0	0	0	0	1	0	0	0	13182	1609	56	5	546	5	RBP3	10	48385883	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2586030	48385883	87148864	672	51128											
ERCC6	2074	broad.mit.edu	37	chr10	50678232	50678232	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtatcaaatggattacctgaTtttttgaaaagcttttccaa	13	16	6	6	0	1	2	1	2	0	0	2	3	2	3	2	1	2	2	2	1	6	7	rs35756610	byFrequency	TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:50678232T>G	uc001jhs.3	-	18	3928	c.3774A>C	c.(3772-3774)AAA>AAC	p.K1258N	ERCC6_uc009xod.2_Missense_Mutation_p.K418N|ERCC6_uc010qgr.1_Missense_Mutation_p.K628N|ERCC6_uc001jhr.3_Missense_Mutation_p.K626N	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	1258					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						GATTACCTGATTTTTTGAAAA	0.408								Direct_reversal_of_damage|NER					23	201					0	0	1	0	0		G	50678232	G	G	50678232	3	3	82	1	0	0	0	0	1	0	0	0	5225	1490	52	5	723	5	ERCC6	10	50678232	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2292349	50678232	84856515	673	51129											
RHOBTB1	9886	broad.mit.edu	37	chr10	62648482	62648482	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggaaatctctgctctgcTtctctttctcacaggctcct	5	15	6	15	0	4	0	1	0	4	0	8	1	5	1	2	2	2	3	2	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:62648482T>A	uc001jli.2	-	7	1382	c.944A>T	c.(943-945)AAG>ATG	p.K315M	RHOBTB1_uc001jlh.2_Missense_Mutation_p.K315M|RHOBTB1_uc001jlj.2_Missense_Mutation_p.K315M|RHOBTB1_uc001jlk.2_Missense_Mutation_p.K315M|RHOBTB1_uc009xpe.1_Missense_Mutation_p.K253M|RHOBTB1_uc001jll.2_Missense_Mutation_p.K65M	NM_014836	NP_055651	O94844	RHBT1_HUMAN	Rho-related BTB domain containing 1	315	BTB 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)					TCTGCTCTGCTTCTCTTTCTC	0.493													14	87					0	0	1	0	0		A	62648482	A	A	62648482	3	1	82	1	0	0	0	0	1	0	0	0	13358	1609	56	5	1170	5	RHOBTB1	10	62648482	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	11970250	62648482	72886265	674	51130											
LRRTM3	347731	broad.mit.edu	37	chr10	68687062	68687062	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcttaacaataccttcAgacctgtgacaaatttacgg	13	14	5	9	1	2	2	1	1	1	1	2	2	2	2	2	1	3	0	2	1	5	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:68687062A>T	uc001jmz.1	+	2	938	c.388A>T	c.(388-390)AGA>TGA	p.R130*	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Nonsense_Mutation_p.R130*	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	130	LRR 3.|Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CAATACCTTCAGACCTGTGAC	0.398													7	166					0	0	1	0	0		T	68687062	T	T	68687062	4	4	82	1	0	0	0	0	0	1	0	0	9059	180	7	5	394	5	LRRTM3	10	68687062	Nonsense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6038580	68687062	66847685	675	51131											
HERC4	26091	broad.mit.edu	37	chr10	69748461	69748461	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttaatgcagtatgaagaaAactgttgaaaattcttcttt	14	16	6	5	0	2	3	0	2	2	1	2	3	2	3	0	0	2	3	0	0	7	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:69748461A>C	uc001jng.3	-	15	2076	c.1765T>G	c.(1765-1767)TTT>GTT	p.F589V	HERC4_uc009xpq.2_Missense_Mutation_p.F130V|HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Missense_Mutation_p.F589V|HERC4_uc009xpr.2_Missense_Mutation_p.F589V|HERC4_uc001jni.3_Missense_Mutation_p.F333V|HERC4_uc001jnj.2_Missense_Mutation_p.F589V	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	589					cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						GTATGAAGAAAACTGTTGAAA	0.333													11	122					0	0	1	0	0		C	69748461	C	C	69748461	3	2	82	1	0	0	0	0	1	0	0	0	7076	14	1	5	1456	5	HERC4	10	69748461	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1061399	69748461	65786286	676	51132											
RUFY2	55680	broad.mit.edu	37	chr10	70139223	70139223	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcagtaattttattggttTtttcttctagtcgggcaatt	7	20	8	6	1	2	0	0	0	2	0	3	0	2	0	0	2	1	4	0	2	4	10			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:70139223T>G	uc001job.2	-	12	1595	c.1268A>C	c.(1267-1269)AAA>ACA	p.K423T	RUFY2_uc001jnz.1_RNA|RUFY2_uc001joa.2_5'Flank|RUFY2_uc001joc.2_Missense_Mutation_p.K354T|RUFY2_uc010qiw.1_Missense_Mutation_p.K330T|RUFY2_uc001jod.1_Missense_Mutation_p.K388T	NM_017987	NP_060457	Q8WXA3	RUFY2_HUMAN	RUN and FYVE domain-containing 2 isoform a	437	Potential.					nucleus	metal ion binding			ovary(1)	1						TTTATTGGTTTTTTCTTCTAG	0.264													10	49					0	0	1	0	0		G	70139223	G	G	70139223	3	3	82	1	0	0	0	0	1	0	0	0	13764	1841	64	5	798	5	RUFY2	10	70139223	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	390762	70139223	65395524	677	51133											
CDH23	64072	broad.mit.edu	37	chr10	73548718	73548718	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attatgacttgcttctgatcTtcctttctgatgagaatgac	9	17	7	8	0	3	5	0	5	3	1	4	6	4	5	1	0	1	1	1	0	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:73548718T>G	uc001jrx.3	+	43	6219	c.5842T>G	c.(5842-5844)TTC>GTC	p.F1948V		NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1948	Cadherin 18.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GCTTCTGATCTTCCTTTCTGA	0.562													9	31					0	0	1	0	0		G	73548718	G	G	73548718	3	3	82	1	0	0	0	0	1	0	0	0	3111	1609	56	5	6361	5	CDH23	10	73548718	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3409495	73548718	61986029	678	51134											
AP3M1	26985	broad.mit.edu	37	chr10	75884219	75884219	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggggctccagactgtaaatTtaccagtcctttaagacttg	10	12	10	9	0	0	2	0	0	0	2	2	2	2	2	3	2	1	2	3	2	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:75884219T>G	uc001jwf.2	-	8	1505	c.1075A>C	c.(1075-1077)AAT>CAT	p.N359H	AP3M1_uc001jwg.2_Missense_Mutation_p.N359H|AP3M1_uc001jwh.2_Missense_Mutation_p.N359H|AP3M1_uc010qla.1_Missense_Mutation_p.N305H	NM_207012	NP_996895	Q9Y2T2	AP3M1_HUMAN	adaptor-related protein complex 3, mu 1 subunit	359	MHD.				protein targeting to lysosome|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus|lysosome	protein binding				0	Prostate(51;0.0112)					GACTGTAAATTTACCAGTCCT	0.388													9	63					0	0	1	0	0		G	75884219	G	G	75884219	3	3	82	1	0	0	0	0	1	0	0	0	747	1841	64	5	189	5	AP3M1	10	75884219	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2335501	75884219	59650528	679	51135											
KCNMA1	3778	broad.mit.edu	37	chr10	78943197	78943197	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaagccaacttctgtttaAgtacacagacacaaacacgg	16	7	6	12	1	1	1	0	0	1	1	1	1	1	1	2	1	4	2	2	1	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:78943197A>C	uc001jxn.2	-	5	967	c.790T>G	c.(790-792)TTA>GTA	p.L264V	KCNMA1_uc001jxj.2_Missense_Mutation_p.L264V|KCNMA1_uc001jxk.1_5'UTR|KCNMA1_uc009xrt.1_Missense_Mutation_p.L84V|KCNMA1_uc001jxo.2_Missense_Mutation_p.L264V|KCNMA1_uc001jxm.2_Missense_Mutation_p.L264V|KCNMA1_uc001jxq.2_Missense_Mutation_p.L264V	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	264	Extracellular (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	CTTCTGTTTAAGTACACAGAC	0.498													11	38					0	0	1	0	0		C	78943197	C	C	78943197	3	2	82	1	0	0	0	0	1	0	0	0	8089	69	3	5	3188	5	KCNMA1	10	78943197	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3058978	78943197	56591550	680	51136											
MINPP1	9562	broad.mit.edu	37	chr10	89272956	89272956	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaatctccttggtgtgatgTttttgacatagatgatgcaa	11	16	9	5	0	1	4	0	3	1	1	2	4	1	4	1	1	1	2	1	1	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:89272956T>A	uc001keu.2	+	3	1361	c.911T>A	c.(910-912)GTT>GAT	p.V304D	MINPP1_uc009xtf.1_Intron|MINPP1_uc001kev.2_Intron	NM_004897	NP_004888	Q9UNW1	MINP1_HUMAN	multiple inositol polyphosphate histidine	304					bone mineralization|polyphosphate metabolic process	endoplasmic reticulum lumen	acid phosphatase activity|bisphosphoglycerate 3-phosphatase activity|multiple inositol-polyphosphate phosphatase activity|phosphohistidine phosphatase activity			urinary_tract(1)	1		Colorectal(252;0.122)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00123)		TGGTGTGATGTTTTTGACATA	0.313													6	74					0	0	1	0	0		A	89272956	A	A	89272956	3	1	82	1	0	0	0	0	1	0	0	0	9606	1725	60	5	959	5	MINPP1	10	89272956	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	10329759	89272956	46261791	681	51137											
LIPJ	142910	broad.mit.edu	37	chr10	90356123	90356123	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttttttccacaaagtacTtaaaaagtcctttaattaga	15	15	4	7	0	0	1	0	0	0	1	2	1	2	1	2	0	1	2	2	0	7	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:90356123T>G	uc001kff.2	+	7	840	c.526T>G	c.(526-528)TTA>GTA	p.L176V		NM_001010939	NP_001010939	Q5W064	LIPJ_HUMAN	lipase, family member J	176					lipid catabolic process		hydrolase activity			ovary(1)	1		all_cancers(4;2.79e-10)|Prostate(4;1.68e-15)|all_epithelial(4;1.43e-09)|Colorectal(252;0.0381)|Breast(4;0.141)|Melanoma(5;0.2)|all_hematologic(4;0.222)		Colorectal(12;1.02e-05)|COAD - Colon adenocarcinoma(12;1.54e-05)		CACAAAGTACTTAAAAAGTCC	0.259													8	30					0	0	1	0	0		G	90356123	G	G	90356123	3	3	82	1	0	0	0	0	1	0	0	0	8843	1606	56	5	544	5	LIPJ	10	90356123	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1083167	90356123	45178624	682	51138											
LIPF	8513	broad.mit.edu	37	chr10	90428495	90428495	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtactattcaccagattcagTtgaattctgggctttcaggt	9	15	9	8	0	4	2	3	1	1	1	4	2	4	2	1	2	1	3	1	2	3	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:90428495T>A	uc001kfg.1	+	4	570	c.404T>A	c.(403-405)GTT>GAT	p.V135D	LIPF_uc009xtk.2_Missense_Mutation_p.V135D|LIPF_uc001kfh.1_Missense_Mutation_p.V112D|LIPF_uc010qmt.1_Missense_Mutation_p.V145D|LIPF_uc010qmu.1_Missense_Mutation_p.V102D	NM_004190	NP_004181	P07098	LIPG_HUMAN	lipase, gastric precursor	135					lipid catabolic process|triglyceride metabolic process	extracellular region	lipid binding|triglyceride lipase activity				0		Colorectal(252;0.0161)		Colorectal(12;3.91e-05)|COAD - Colon adenocarcinoma(12;5.43e-05)		CCAGATTCAGTTGAATTCTGG	0.428													4	30					0	0	1	0	0		A	90428495	A	A	90428495	3	1	82	1	0	0	0	0	1	0	0	0	8839	1725	60	5	414	5	LIPF	10	90428495	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	72372	90428495	45106252	683	51139											
HTR7	3363	broad.mit.edu	37	chr10	92508893	92508893	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacacggtaaaggccccgAcgatgatccccagggtggtg	10	5	14	12	3	0	1	0	1	0	0	1	3	1	1	4	4	1	2	4	4	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:92508893A>G	uc001kha.2	-	2	1241	c.998T>C	c.(997-999)GTC>GCC	p.V333A	HTR7_uc001kgz.2_Missense_Mutation_p.V333A|HTR7_uc001khb.2_Missense_Mutation_p.V333A	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	333	Helical; Name=6; (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	AAAGGCCCCGACGATGATCCC	0.537													14	52					0	0	1	0	0		G	92508893	G	G	92508893	3	3	82	1	0	0	0	0	1	0	0	0	7468	275	10	3	457	3	HTR7	10	92508893	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2080398	92508893	43025854	684	51140											
BTAF1	9044	broad.mit.edu	37	chr10	93741866	93741866	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggtggtaaggtgcgccaAggccaaagccagaataaaga	16	4	13	8	1	0	2	0	0	0	2	0	2	0	2	3	4	2	1	3	4	6	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:93741866A>T	uc001khr.2	+	17	2030	c.1932A>T	c.(1930-1932)CAA>CAT	p.Q644H	BTAF1_uc001khs.1_Missense_Mutation_p.Q314H|BTAF1_uc001kht.1_Missense_Mutation_p.Q82H	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	644					negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				AGGTGCGCCAAGGCCAAAGCC	0.423													10	59					0	0	1	0	0		T	93741866	T	T	93741866	3	4	82	1	0	0	0	0	1	0	0	0	1539	69	3	5	1998	5	BTAF1	10	93741866	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1232973	93741866	41792881	685	51141											
GPR120	338557	broad.mit.edu	37	chr10	95326534	95326534	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccttgcgcagcctggagcaAgccaaccgcacccgctttcc	7	6	9	19	3	0	0	0	0	0	0	1	1	1	1	6	1	5	4	6	1	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:95326534A>C	uc010qnt.1	+	1	113	c.57A>C	c.(55-57)CAA>CAC	p.Q19H	GPR120_uc010qnu.1_Missense_Mutation_p.Q19H	NM_181745	NP_859529	Q5NUL3	O3FA1_HUMAN	G protein-coupled receptor 120	19	Extracellular (Potential).				negative regulation of cytokine secretion|negative regulation of inflammatory response|regulation of glucose transport	integral to membrane|plasma membrane	fatty acid binding				0		Colorectal(252;0.122)				GCCTGGAGCAAGCCAACCGCA	0.687													4	16					0	0	1	0	0		C	95326534	C	C	95326534	3	2	82	1	0	0	0	0	1	0	0	0	6651	69	3	5	59	5	GPR120	10	95326534	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1584668	95326534	40208213	686	51142											
C10orf129	142827	broad.mit.edu	37	chr10	96971666	96971666	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctccagccaacagatgtcTtgtggagtctgggtgatgcc	8	11	12	10	0	3	2	0	1	3	1	4	3	3	3	3	2	3	0	3	2	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:96971666T>G	uc001kke.2	+	6	912	c.787T>G	c.(787-789)TTG>GTG	p.L263V	C10orf129_uc009xuu.1_Missense_Mutation_p.L173V	NM_207321	NP_997204	Q6P461	ACSM6_HUMAN	acyl-coenzyme A synthetase ACSM6, mitochondrial	263					fatty acid metabolic process	mitochondrion	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding				0		Colorectal(252;0.083)		Epithelial(162;1.64e-06)|all cancers(201;3.71e-05)		AACAGATGTCTTGTGGAGTCT	0.473													4	52					0	0	1	0	0		G	96971666	G	G	96971666	3	3	82	1	0	0	0	0	1	0	0	0	1596	1606	56	5	805	5	C10orf129	10	96971666	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1645132	96971666	38563081	687	51143											
TM9SF3	56889	broad.mit.edu	37	chr10	98303924	98303924	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacacaccatagctgggataAggaatgccccaataaacatc	16	6	7	12	0	0	0	0	0	0	0	1	2	0	2	3	2	3	1	3	2	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:98303924A>C	uc001kmm.3	-	9	1311	c.1094T>G	c.(1093-1095)CTT>CGT	p.L365R	TM9SF3_uc010qot.1_Missense_Mutation_p.L365R|TM9SF3_uc001kmn.1_Missense_Mutation_p.L134R	NM_020123	NP_064508	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3 precursor	365	Helical; (Potential).					integral to membrane	binding				0		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		AGCTGGGATAAGGAATGCCCC	0.363													15	54					0	0	1	0	0		C	98303924	C	C	98303924	3	2	82	1	0	0	0	0	1	0	0	0	16004	72	3	5	703	5	TM9SF3	10	98303924	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1332258	98303924	37230823	688	51144											
SLIT1	6585	broad.mit.edu	37	chr10	98806540	98806540	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcaatttctgacaccttgTtgttgctcagattgctggga	7	16	9	9	0	3	2	2	1	1	1	3	3	3	3	1	1	2	4	1	1	1	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:98806540T>C	uc001kmw.2	-	18	1976	c.1724A>G	c.(1723-1725)AAC>AGC	p.N575S	SLIT1_uc009xvh.1_Missense_Mutation_p.N585S	NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	575	LRR 13.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		TGACACCTTGTTGTTGCTCAG	0.607													7	44					0	0	1	0	0		C	98806540	C	C	98806540	3	2	82	1	0	0	0	0	1	0	0	0	14764	1725	60	3	2960	3	SLIT1	10	98806540	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	502616	98806540	36728207	689	51145											
DNMBP	23268	broad.mit.edu	37	chr10	101715673	101715673	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggcttcatctccaatcTctctgagatggagtaaacac	12	10	7	12	0	4	1	1	1	3	1	6	3	4	2	2	2	1	2	2	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:101715673T>C	uc001kqj.2	-	4	1650	c.1558A>G	c.(1558-1560)AGA>GGA	p.R520G	NCRNA00093_uc001kqk.1_Intron	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	520					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		ATCTCCAATCTCTCTGAGATG	0.502													43	80					0	0	1	0	0		C	101715673	C	C	101715673	3	2	82	1	0	0	0	0	1	0	0	0	4680	1559	54	3	3231	3	DNMBP	10	101715673	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2909133	101715673	33819074	690	51146											
SEC31B	25956	broad.mit.edu	37	chr10	102267705	102267705	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttgatgataggttcattcTtcctgagatcccacacaact	10	14	6	11	0	2	3	1	3	1	1	4	4	4	3	2	1	1	1	2	1	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:102267705T>A	uc001krc.1	-	6	701	c.599A>T	c.(598-600)AAG>ATG	p.K200M	SEC31B_uc010qpo.1_Missense_Mutation_p.K199M|SEC31B_uc001krd.1_Translation_Start_Site|SEC31B_uc001krf.1_Translation_Start_Site|SEC31B_uc001kre.1_Translation_Start_Site|SEC31B_uc001krg.1_Translation_Start_Site|SEC31B_uc010qpp.1_Missense_Mutation_p.K203M|SEC31B_uc009xwn.1_Missense_Mutation_p.K200M|SEC31B_uc009xwo.1_Missense_Mutation_p.K200M|SEC31B_uc010qpq.1_Missense_Mutation_p.K43M|SEC31B_uc010qpr.1_RNA	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B	200	WD 3.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		AGGTTCATTCTTCCTGAGATC	0.532													12	117					0	0	1	0	0		A	102267705	A	A	102267705	3	1	82	1	0	0	0	0	1	0	0	0	14024	1609	56	5	3024	5	SEC31B	10	102267705	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	552032	102267705	33267042	691	51147											
LZTS2	84445	broad.mit.edu	37	chr10	102762461	102762461	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccctcctgggcccaccttcTtccgccagcaggatggcctg	4	8	11	18	1	1	0	0	0	1	0	3	1	3	1	7	3	1	1	7	3	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:102762461T>G	uc001ksj.2	+	2	235	c.166T>G	c.(166-168)TTC>GTC	p.F56V	LZTS2_uc010qpw.1_Missense_Mutation_p.F56V|LZTS2_uc001ksk.2_Missense_Mutation_p.F56V|LZTS2_uc001ksl.2_Missense_Mutation_p.F56V|LZTS2_uc001ksm.2_RNA	NM_032429	NP_115805	Q9BRK4	LZTS2_HUMAN	leucine zipper, putative tumor suppressor 2	56	Required for centrosomal localization (By similarity).				cell division|mitosis|Wnt receptor signaling pathway	membrane|microtubule|microtubule organizing center				ovary(2)|large_intestine(1)|breast(1)	4				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		GCCCACCTTCTTCCGCCAGCA	0.677													12	35					0	0	1	0	0		G	102762461	G	G	102762461	3	3	82	1	0	0	0	0	1	0	0	0	9157	1609	56	5	168	5	LZTS2	10	102762461	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	494756	102762461	32772286	692	51148											
KCNIP2	30819	broad.mit.edu	37	chr10	103588422	103588422	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggagtaaatctgcttgaagTtctcctcattgacaattccg	10	13	9	9	1	3	2	1	2	2	0	5	3	4	3	2	1	1	3	2	1	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:103588422T>G	uc001kub.2	-	5	732	c.380A>C	c.(379-381)AAC>ACC	p.N127T	KCNIP2_uc010qqg.1_Missense_Mutation_p.N71T|KCNIP2_uc001ktx.2_RNA|KCNIP2_uc001kty.2_Missense_Mutation_p.T49P|KCNIP2_uc001ktz.2_Missense_Mutation_p.N82T|KCNIP2_uc009xwu.2_Missense_Mutation_p.N77T|KCNIP2_uc009xwv.2_Missense_Mutation_p.N77T|KCNIP2_uc001kuc.2_Missense_Mutation_p.N142T|KCNIP2_uc001kue.2_Missense_Mutation_p.N109T|KCNIP2_uc001kud.2_Missense_Mutation_p.N84T|KCNIP2_uc001kuf.2_Missense_Mutation_p.N77T|KCNIP2_uc001kua.2_Missense_Mutation_p.N58T|KCNIP2_uc009xww.2_RNA|KCNIP2_uc010qqh.1_Missense_Mutation_p.N82T|KCNIP2_uc010qqi.1_Missense_Mutation_p.N77T	NM_173191	NP_775283	Q9NS61	KCIP2_HUMAN	Kv channel interacting protein 2 isoform 2	127	EF-hand 1; degenerate.				clustering of voltage-gated potassium channels|detection of calcium ion|muscle contraction|regulation of heart contraction|signal transduction|synaptic transmission	cytoplasm|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|calcium ion binding|ER retention sequence binding|identical protein binding|protein N-terminus binding				0		Colorectal(252;0.122)		Epithelial(162;4.93e-09)|all cancers(201;2.63e-07)		CTGCTTGAAGTTCTCCTCATT	0.562													19	39					0	0	1	0	0		G	103588422	G	G	103588422	3	3	82	1	0	0	0	0	1	0	0	0	8056	1725	60	5	503	5	KCNIP2	10	103588422	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	825961	103588422	31946325	693	51149											
PSD	5662	broad.mit.edu	37	chr10	104164360	104164360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggagaggcgggtggcagCgctgggcaggagagggcggc	6	3	24	8	3	0	2	0	0	0	2	0	4	0	2	0	8	1	3	0	8	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:104164360C>T	uc001kvg.1	-	15	3207	c.2680G>A	c.(2680-2682)GCT>ACT	p.A894T	PSD_uc001kve.1_Missense_Mutation_p.A102T|PSD_uc001kvf.1_Missense_Mutation_p.A263T|PSD_uc001kvh.1_Missense_Mutation_p.A515T|PSD_uc009xxd.1_Missense_Mutation_p.A894T	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	894					regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		CGGGTGGCAGCGCTGGGCAGG	0.567													23	55					0	0	1	0	0		T	104164360	T	T	104164360	3	4	82	1	0	0	0	0	1	0	0	0	12668	768	27	1	406	1	PSD	10	104164360	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	575938	104164360	31370387	694	51150											
SFXN2	118980	broad.mit.edu	37	chr10	104492639	104492639	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgccagtcatcatggaaAggcttgagaaattgcacttc	11	11	10	9	0	2	1	2	1	0	1	3	3	2	2	1	2	3	3	1	2	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:104492639A>C	uc001kwb.2	+	9	911	c.745A>C	c.(745-747)AGG>CGG	p.R249R	SFXN2_uc001kwc.2_RNA|SFXN2_uc001kwd.2_RNA	NM_178858	NP_849189	Q96NB2	SFXN2_HUMAN	sideroflexin 2	249	Helical; (Potential).				iron ion homeostasis	integral to membrane	cation transmembrane transporter activity				0		Colorectal(252;0.207)		Epithelial(162;4.53e-09)|all cancers(201;1.2e-07)|BRCA - Breast invasive adenocarcinoma(275;0.218)		CATCATGGAAAGGCTTGAGAA	0.547													10	59					0	0	1	0	0		C	104492639	C	C	104492639	2	2	82	1	0	0	0	0	0	0	0	1	14220	63	3	5		5	SFXN2	10	104492639	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	328279	104492639	31042108	695	51151											
CYP17A1	1586	broad.mit.edu	37	chr10	104597033	104597033	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggcagggacaggaggctcTtggggtacttggcaccaggg	7	6	20	8	0	1	0	0	0	1	0	1	2	1	2	1	9	1	4	1	9	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:104597033T>A	uc001kwg.2	-	1	258	c.86A>T	c.(85-87)AAG>ATG	p.K29M		NM_000102	NP_000093	P05093	CP17A_HUMAN	cytochrome P450, family 17	29					androgen biosynthetic process|glucocorticoid biosynthetic process|sex differentiation|xenobiotic metabolic process	endoplasmic reticulum membrane	electron carrier activity|heme binding|oxygen binding|steroid 17-alpha-monooxygenase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)	NADH(DB00157)|Progesterone(DB00396)	CAGGAGGCTCTTGGGGTACTT	0.572													16	83					0	0	1	0	0		A	104597033	A	A	104597033	3	1	82	1	0	0	0	0	1	0	0	0	4150	1609	56	5	1472	5	CYP17A1	10	104597033	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	104394	104597033	30937714	696	51152											
PDCD11	22984	broad.mit.edu	37	chr10	105202143	105202143	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtggctgcagtacatggcTttccacctgcaggccacgga	7	9	12	13	1	0	0	0	0	0	0	1	1	1	1	3	4	3	5	3	4	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:105202143T>C	uc001kwy.1	+	32	4968	c.4881T>C	c.(4879-4881)GCT>GCC	p.A1627A		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1627	HAT 1.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		AGTACATGGCTTTCCACCTGC	0.612													17	76					0	0	1	0	0		C	105202143	C	C	105202143	2	2	82	1	0	0	0	0	0	0	0	1	11636	1596	56	3		3	PDCD11	10	105202143	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	605110	105202143	30332604	697	51153											
GSTO2	119391	broad.mit.edu	37	chr10	106058929	106058929	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggctctggatatcagccAtgaagtgggaccccacagtc	9	8	12	12	1	2	1	1	1	1	0	3	3	2	3	3	3	2	1	3	3	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:106058929A>T	uc001kyb.2	+	7	1247	c.619A>T	c.(619-621)ATG>TTG	p.M207L	GSTO2_uc010qqx.1_Missense_Mutation_p.M173L|GSTO2_uc001kyc.2_Missense_Mutation_p.M179L|GSTO2_uc010qqy.1_Missense_Mutation_p.H109L	NM_183239	NP_899062	Q9H4Y5	GSTO2_HUMAN	glutathione S-transferase omega 2	207	GST C-terminal.				water-soluble vitamin metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.178)		Epithelial(162;1.14e-09)|all cancers(201;3.89e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0155)	Glutathione(DB00143)	GATATCAGCCATGAAGTGGGA	0.517													21	49					0	0	1	0	0		T	106058929	T	T	106058929	3	4	82	1	0	0	0	0	1	0	0	0	6859	217	8	5	641	5	GSTO2	10	106058929	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	856786	106058929	29475818	698	51154											
SORCS3	22986	broad.mit.edu	37	chr10	106970996	106970996	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagccttggtcaaagctaccTtaacagcactgggtaagtaa	13	9	9	10	0	1	0	1	0	0	0	1	0	1	0	2	2	5	4	2	2	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:106970996T>G	uc001kyi.1	+	17	2590	c.2363T>G	c.(2362-2364)CTT>CGT	p.L788R	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	788	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		CAAAGCTACCTTAACAGCACT	0.463													9	48					0	0	1	0	0		G	106970996	G	G	106970996	3	3	82	1	0	0	0	0	1	0	0	0	14957	1609	56	5	2429	5	SORCS3	10	106970996	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	912067	106970996	28563751	699	51155											
DUSP5	1847	broad.mit.edu	37	chr10	112257917	112257917	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgacgggcgccagctgcgcaAgatgctccgcaaggaggcgg	8	3	17	13	6	0	1	0	0	0	1	1	3	1	2	2	4	3	4	2	4	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:112257917A>G	uc001kzd.2	+	1	293	c.38A>G	c.(37-39)AAG>AGG	p.K13R		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	13					endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		CAGCTGCGCAAGATGCTCCGC	0.532													6	20					0	0	1	0	0		G	112257917	G	G	112257917	3	3	82	1	0	0	0	0	1	0	0	0	4834	72	3	3	40	3	DUSP5	10	112257917	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5286921	112257917	23276830	700	51156											
DUSP5	1847	broad.mit.edu	37	chr10	112257929	112257929	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcgcaagatgctccgcaAggaggcggcggcgcgctgcg	6	4	18	13	7	0	1	0	0	0	1	1	2	1	2	1	4	3	5	1	4	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:112257929A>G	uc001kzd.2	+	1	305	c.50A>G	c.(49-51)AAG>AGG	p.K17R		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	17					endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		ATGCTCCGCAAGGAGGCGGCG	0.522													6	22					0	0	1	0	0		G	112257929	G	G	112257929	3	3	82	1	0	0	0	0	1	0	0	0	4834	72	3	3	52	3	DUSP5	10	112257929	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	12	112257929	23276818	701	51157											
ADRA2A	150	broad.mit.edu	37	chr10	112838854	112838854	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcagggccgggggaggAgcgcgtcggggctgccaagg	5	3	23	10	4	0	0	0	0	0	0	1	2	0	2	2	8	3	3	2	8	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:112838854A>G	uc001kzo.2	+	1	2065	c.1100A>G	c.(1099-1101)GAG>GGG	p.E367G		NM_000681	NP_000672	P08913	ADA2A_HUMAN	alpha-2A-adrenergic receptor	352	Cytoplasmic (By similarity).			PRRGPGATGIGTPAAGPGEERVGAAKASRWRGR -> RGAG RGRRGSGRRLQGRGRSASGLPRRRAGAGG (in Ref. 1; AAA51664 and 2; AAA51665).	actin cytoskeleton organization|activation of MAPK activity by adrenergic receptor signaling pathway|activation of phospholipase C activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cellular component movement|cellular response to hormone stimulus|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|glucose homeostasis|inhibition of adenylate cyclase activity by adrenergic receptor signaling pathway|intestinal absorption|negative regulation of adrenergic receptor signaling pathway|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cAMP biosynthetic process|negative regulation of epinephrine secretion|negative regulation of insulin secretion involved in cellular response to glucose stimulus|negative regulation of lipid catabolic process|negative regulation of norepinephrine secretion|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cytokine production|positive regulation of membrane protein ectodomain proteolysis|positive regulation of potassium ion transport|positive regulation of wound healing|Rho protein signal transduction	basolateral plasma membrane|cytoplasm|integral to plasma membrane|receptor complex	alpha-1B adrenergic receptor binding|alpha-2C adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|heterotrimeric G-protein binding|norepinephrine binding|protein heterodimerization activity|protein homodimerization activity|protein kinase binding|thioesterase binding				0		Breast(234;0.0735)|Lung NSC(174;0.238)		Epithelial(162;0.000316)|all cancers(201;0.00501)|BRCA - Breast invasive adenocarcinoma(275;0.118)	Amitriptyline(DB00321)|Amphetamine(DB00182)|Apraclonidine(DB00964)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Brimonidine(DB00484)|Clonidine(DB00575)|Debrisoquin(DB04840)|Dexmedetomidine(DB00633)|Dipivefrin(DB00449)|Epinastine(DB00751)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanabenz(DB00629)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Lofexidine(DB04948)|Methyldopa(DB00968)|Mianserin(DB06148)|Mirtazapine(DB00370)|Norepinephrine(DB00368)|Oxymetazoline(DB00935)|Phentolamine(DB00692)|Phenylpropanolamine(DB00397)|Pseudoephedrine(DB00852)|Tizanidine(DB00697)|Trazodone(DB00656)|Yohimbine(DB01392)	CCGGGGGAGGAGCGCGTCGGG	0.652													4	10					0	0	1	0	0		G	112838854	G	G	112838854	3	3	82	1	0	0	0	0	1	0	0	0	337	304	11	3	1102	3	ADRA2A	10	112838854	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	580925	112838854	22695893	702	51158											
TDRD1	56165	broad.mit.edu	37	chr10	115959054	115959054	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcctcttcggtccacaacTtgccatcgctgtggcctatt	5	13	7	16	2	1	0	0	0	1	0	5	0	3	0	5	2	2	1	5	2	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:115959054T>G	uc001lbg.1	+	4	660	c.507T>G	c.(505-507)ACT>ACG	p.T169T	TDRD1_uc001lbf.2_Silent_p.T160T|TDRD1_uc001lbh.1_Silent_p.T160T|TDRD1_uc001lbi.1_Silent_p.T160T	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	169					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		GGTCCACAACTTGCCATCGCT	0.403													26	59					0	0	1	0	0		G	115959054	G	G	115959054	2	3	82	1	0	0	0	0	0	0	0	1	15755	1596	56	5		5	TDRD1	10	115959054	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3120200	115959054	19575693	703	51159											
AFAP1L2	84632	broad.mit.edu	37	chr10	116055820	116055820	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaacttgctcctttcttcTcccattcctagggtaccatt	6	17	4	14	0	3	0	0	0	3	0	6	0	5	0	4	1	3	2	4	1	3	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:116055820T>A	uc001lbn.2	-	19	2739	c.2438A>T	c.(2437-2439)GAG>GTG	p.E813V	AFAP1L2_uc001lbo.2_Missense_Mutation_p.E809V|AFAP1L2_uc010qse.1_Missense_Mutation_p.E866V|AFAP1L2_uc001lbp.2_Missense_Mutation_p.E837V|AFAP1L2_uc001lbm.2_Missense_Mutation_p.E252V|AFAP1L2_uc010qsd.1_Missense_Mutation_p.E375V|AFAP1L2_uc001lbq.1_3'UTR	NM_001001936	NP_001001936	Q8N4X5	AF1L2_HUMAN	KIAA1914 protein isoform 1	813					inflammatory response|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of transcription, DNA-dependent|regulation of interleukin-6 production|regulation of mitotic cell cycle	cytoplasm	protein tyrosine kinase activator activity|SH2 domain binding|SH3 domain binding			ovary(1)|breast(1)	2		Colorectal(252;0.175)|Breast(234;0.231)		Epithelial(162;0.0219)|all cancers(201;0.0561)		TCCTTTCTTCTCCCATTCCTA	0.403													37	99					0	0	1	0	0		A	116055820	A	A	116055820	3	1	82	1	0	0	0	0	1	0	0	0	355	1551	54	5	22	5	AFAP1L2	10	116055820	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	96766	116055820	19478927	704	51160											
PNLIP	5406	broad.mit.edu	37	chr10	118320982	118320982	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttaacttcttaaatccttAggggcactctcaaaccagat	12	13	6	10	0	2	1	1	0	2	1	4	1	3	1	2	2	2	2	2	2	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:118320982A>G	uc001lcm.2	+	12	1213	c.1170_splice	c.e12-2	p.K390_splice		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor						lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	TTAAATCCTTAGGGGCACTCT	0.244													16	43					0	0	1	0	0		G	118320982	G	G	118320982	5	3	82	1	0	0	0	0	0	0	1	0	12168	434	15	3	1210	3	PNLIP	10	118320982	Splice_Site	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2265162	118320982	17213765	705	51161											
ZRANB1	54764	broad.mit.edu	37	chr10	126631424	126631424	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcctacagaatctcctcAgtcctcaggatctggctcaa	10	10	8	13	0	5	1	3	0	2	1	8	3	7	2	3	2	1	1	3	2	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:126631424A>G	uc001lic.2	+	1	733	c.362A>G	c.(361-363)CAG>CGG	p.Q121R	ZRANB1_uc010qug.1_Missense_Mutation_p.Q147R	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	121					positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)		GAATCTCCTCAGTCCTCAGGA	0.453													8	87					0	0	1	0	0		G	126631424	G	G	126631424	3	3	82	1	0	0	0	0	1	0	0	0	18247	188	7	3	364	3	ZRANB1	10	126631424	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	8310442	126631424	8903323	706	51162											
C10orf137	26098	broad.mit.edu	37	chr10	127412388	127412388	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taattttttaagaacataaaAaaactcctgaaaattcccta	19	13	2	7	0	0	2	0	1	0	1	2	2	2	2	2	0	2	0	2	0	10	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:127412388A>C	uc001liq.1	+	4	686	c.393A>C	c.(391-393)AAA>AAC	p.K131N	C10orf137_uc001lin.2_Missense_Mutation_p.K131N|C10orf137_uc001lio.1_Missense_Mutation_p.K131N|C10orf137_uc001lip.1_5'UTR	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	131					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				AGAACATAAAAAAACTCCTGA	0.328													40	82					0	0	1	0	0		C	127412388	C	C	127412388	3	2	82	1	0	0	0	0	1	0	0	0	1597	11	1	5	407	5	C10orf137	10	127412388	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	780964	127412388	8122359	707	51163											
C10orf90	118611	broad.mit.edu	37	chr10	128202463	128202463	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacatcagactggagatttTtaagggcaatttgatctctt	11	15	9	6	0	2	4	1	2	1	2	3	5	2	4	0	2	0	1	0	2	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:128202463T>G	uc001ljq.2	-	2	189	c.68A>C	c.(67-69)AAA>ACA	p.K23T	C10orf90_uc010qum.1_Missense_Mutation_p.K120T|C10orf90_uc009yao.2_Missense_Mutation_p.K120T|C10orf90_uc001ljs.1_5'UTR	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	23										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		CTGGAGATTTTTAAGGGCAAT	0.353													32	83					0	0	1	0	0		G	128202463	G	G	128202463	3	3	82	1	0	0	0	0	1	0	0	0	1626	1841	64	5	2063	5	C10orf90	10	128202463	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	790075	128202463	7332284	708	51164											
BNIP3	664	broad.mit.edu	37	chr10	133787304	133787304	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcgcgcctacctgtcacAgtgagagctcttggagctac	8	9	12	12	2	2	1	1	1	1	1	2	4	2	2	2	1	5	2	2	1	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:133787304A>C	uc001lkv.1	-	2	316	c.190T>G	c.(190-192)TGT>GGT	p.C64G	BNIP3_uc010qut.1_Missense_Mutation_p.C64G	NM_004052	NP_004043	Q12983	BNIP3_HUMAN	BCL2/adenovirus E1B 19kD-interacting protein 3	64					cellular response to cobalt ion|cellular response to hypoxia|cellular response to mechanical stimulus|chromatin remodeling|defense response to virus|DNA fragmentation involved in apoptotic nuclear change|induction of apoptosis|interspecies interaction between organisms|mitochondrial fragmentation involved in apoptosis|negative regulation of membrane potential|negative regulation of mitochondrial fusion|negative regulation of survival gene product expression|neuron apoptosis|positive regulation of mitochondrial fission|positive regulation of protein complex disassembly|positive regulation of release of cytochrome c from mitochondria|reactive oxygen species metabolic process|regulation of mitochondrial membrane permeability	dendrite|integral to mitochondrial outer membrane|nuclear envelope|nucleoplasm	GTPase binding|protein heterodimerization activity|protein homodimerization activity			lung(1)|skin(1)	2		all_cancers(35;4e-11)|all_epithelial(44;5.07e-08)|Ovarian(717;2.61e-05)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Breast(234;0.023)|all_neural(114;0.0299)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)		Epithelial(32;1.59e-12)|all cancers(32;3.75e-11)|OV - Ovarian serous cystadenocarcinoma(35;2.57e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		TACCTGTCACAGTGAGAGCTC	0.512													19	93					0	0	1	0	0		C	133787304	C	C	133787304	3	2	82	1	0	0	0	0	1	0	0	0	1479	188	7	5	414	5	BNIP3	10	133787304	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5584841	133787304	1747443	709	51165											
NKX6-2	84504	broad.mit.edu	37	chr10	134598505	134598505	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttgagcagccgcgtgatcTtctcgtcgtccgagttgggg	4	12	14	11	5	3	2	0	2	3	0	6	3	4	2	2	2	2	2	2	2	0	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr10:134598505T>G	uc001llr.2	-	3	834	c.749A>C	c.(748-750)AAG>ACG	p.K250T		NM_177400	NP_796374	Q9C056	NKX62_HUMAN	NK6 transcription factor related, locus 2	250						nucleus	sequence-specific DNA binding transcription factor activity				0		all_cancers(35;2.79e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0584)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;4.06e-05)|Epithelial(32;5.53e-05)|all cancers(32;5.99e-05)		CCGCGTGATCTTCTCGTCGTC	0.682													4	26					0	0	1	0	0		G	134598505	G	G	134598505	3	3	82	1	0	0	0	0	1	0	0	0	10477	1609	56	5	88	5	NKX6-2	10	134598505	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	811201	134598505	936242	710	51166											
NUP98	4928	broad.mit.edu	37	chr11	3712682	3712682	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccctccagatacgaaggaAgtggggagcaggcatatctg	13	6	13	9	1	1	1	0	0	1	1	2	4	2	3	2	4	3	2	2	4	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:3712682A>C	uc001lyh.2	-	28	4640	c.4349T>G	c.(4348-4350)CTT>CGT	p.L1450R	NUP98_uc001lyi.2_Missense_Mutation_p.L1450R|NUP98_uc001lyg.2_Missense_Mutation_p.L415R	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1467					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		ATACGAAGGAAGTGGGGAGCA	0.423			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								17	51					0	0	1	0	0		C	3712682	C	C	3712682	3	2	82	1	0	0	0	0	1	0	0	0	10792	72	3	5	1077	5	NUP98	11	3712682	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08		3712682	131293834	711	51167											
OR51A4	401666	broad.mit.edu	37	chr11	4967444	4967444	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactctaatctgtttagttTttacacaataaacaattggg	13	16	5	7	0	3	0	1	0	2	0	3	0	3	0	0	1	2	2	0	1	7	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:4967444T>C	uc010qys.1	-	1	887	c.887A>G	c.(886-888)AAA>AGA	p.K296R		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	296	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTGTTTAGTTTTTACACAATA	0.398													27	100					0	0	1	0	0		C	4967444	C	C	4967444	3	2	82	1	0	0	0	0	1	0	0	0	11106	1841	64	3	56	3	OR51A4	11	4967444	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1254762	4967444	130039072	712	51168											
OR51L1	119682	broad.mit.edu	37	chr11	5020534	5020534	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagctgttcttcatccacAcattcacattcctggagtcc	8	13	5	15	0	4	0	3	0	1	0	7	1	7	1	3	1	1	2	3	1	0	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:5020534A>G	uc010qyu.1	+	1	322	c.322A>G	c.(322-324)ACA>GCA	p.T108A		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTTCATCCACACATTCACATT	0.517													44	115					0	0	1	0	0		G	5020534	G	G	5020534	3	3	82	1	0	0	0	0	1	0	0	0	11121	159	6	3	324	3	OR51L1	11	5020534	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	53090	5020534	129985982	713	51169											
OR51L1	119682	broad.mit.edu	37	chr11	5021063	5021063	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggcagacatctaccttcTtcttcccccagtccttaacc	8	12	4	17	0	3	1	0	0	3	1	5	1	5	1	5	1	2	1	5	1	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:5021063T>C	uc010qyu.1	+	1	851	c.851T>C	c.(850-852)CTT>CCT	p.L284P		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATCTACCTTCTTCTTCCCCCA	0.448													22	71					0	0	1	0	0		C	5021063	C	C	5021063	3	2	82	1	0	0	0	0	1	0	0	0	11121	1609	56	3	853	3	OR51L1	11	5021063	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	529	5021063	129985453	714	51170											
OR51V1	283111	broad.mit.edu	37	chr11	5220987	5220987	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatcttttcagagaaaagAgtctaagcattctggtatga	15	13	8	5	0	4	3	1	1	3	2	4	4	4	3	0	1	1	2	0	1	6	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:5220987A>G	uc010qyz.1	-	1	944	c.944T>C	c.(943-945)CTC>CCC	p.L315P		NM_001004760	NP_001004760	Q9H2C8	O51V1_HUMAN	olfactory receptor, family 51, subfamily V,	315	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.83e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAGAGAAAAGAGTCTAAGCAT	0.343													12	33					0	0	1	0	0		G	5220987	G	G	5220987	3	3	82	1	0	0	0	0	1	0	0	0	11126	304	11	3	24	3	OR51V1	11	5220987	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	199924	5220987	129785529	715	51171											
OR51Q1	390061	broad.mit.edu	37	chr11	5444107	5444107	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatacacttattctgaaaaAtatcttgggcacagccacct	13	12	5	11	0	2	1	0	1	2	0	2	1	2	1	2	1	2	1	2	1	6	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:5444107A>C	uc010qzd.1	+	1	677	c.677A>C	c.(676-678)AAT>ACT	p.N226T	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	226	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATTCTGAAAAATATCTTGGGC	0.488													34	89					0	0	1	0	0		C	5444107	C	C	5444107	3	2	82	1	0	0	0	0	1	0	0	0	11123	101	4	5	679	5	OR51Q1	11	5444107	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	223120	5444107	129562409	716	51172											
OR51I2	390064	broad.mit.edu	37	chr11	5475026	5475026	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtctaattcagatgtttcTtattcacttcttctccatga	8	19	4	10	0	6	2	2	1	4	1	7	2	6	2	1	0	0	1	1	0	2	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:5475026T>G	uc010qzf.1	+	1	308	c.308T>G	c.(307-309)CTT>CGT	p.L103R	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004754	NP_001004754	Q9H344	O51I2_HUMAN	olfactory receptor, family 51, subfamily I,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.09e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAGATGTTTCTTATTCACTTC	0.488													28	86					0	0	1	0	0		G	5475026	G	G	5475026	3	3	82	1	0	0	0	0	1	0	0	0	11120	1609	56	5	310	5	OR51I2	11	5475026	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	30919	5475026	129531490	717	51173											
OR52E6	390078	broad.mit.edu	37	chr11	5862229	5862229	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctcagcactgtctccctaAtatgtttggttctgacccca	7	14	6	14	0	3	1	1	1	2	0	5	1	4	1	4	1	1	3	4	1	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:5862229A>C	uc010qzq.1	-	1	899	c.899T>G	c.(898-900)ATT>AGT	p.I300S	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGTCTCCCTAATATGTTTGGT	0.433													31	50					0	0	1	0	0		C	5862229	C	C	5862229	3	2	82	1	0	0	0	0	1	0	0	0	11136	101	4	5	44	5	OR52E6	11	5862229	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	387203	5862229	129144287	718	51174											
OR56A4	120793	broad.mit.edu	37	chr11	6024227	6024227	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgggagatgccatgtaaAgtttcctgatcaatctggag	10	12	12	7	0	2	2	1	1	1	1	3	4	3	3	2	2	2	3	2	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:6024227A>T	uc010qzv.1	-	1	152	c.152T>A	c.(151-153)CTT>CAT	p.L51H		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	200	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGCCATGTAAAGTTTCCTGAT	0.468													21	46					0	0	1	0	0		T	6024227	T	T	6024227	3	4	82	1	0	0	0	0	1	0	0	0	11154	72	3	5	947	5	OR56A4	11	6024227	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	161998	6024227	128982289	719	51175											
OR10A4	283297	broad.mit.edu	37	chr11	6898191	6898191	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgccactcagatgtatttcTtcttcttttttggggctgct	4	19	9	9	0	4	1	1	0	3	1	4	1	4	1	1	2	2	3	1	2	1	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:6898191T>A	uc010rat.1	+	1	313	c.313T>A	c.(313-315)TTC>ATC	p.F105I		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GATGTATTTCTTCTTCTTTTT	0.517													30	91					0	0	1	0	0		A	6898191	A	A	6898191	3	1	82	1	0	0	0	0	1	0	0	0	10911	1609	56	5	315	5	OR10A4	11	6898191	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	873964	6898191	128108325	720	51176											
NLRP14	338323	broad.mit.edu	37	chr11	7060994	7060994	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaaggctggagagacacaAgaagatcaggaggcagtgct	14	4	15	8	0	1	3	1	0	0	3	1	6	1	5	1	4	1	3	1	4	3	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:7060994A>C	uc001mfb.1	+	3	662	c.339A>C	c.(337-339)CAA>CAC	p.Q113H		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	113					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		GAGAGACACAAGAAGATCAGG	0.473													38	95					0	0	1	0	0		C	7060994	C	C	7060994	3	2	82	1	0	0	0	0	1	0	0	0	10495	69	3	5	345	5	NLRP14	11	7060994	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	162803	7060994	127945522	721	51177											
SYT9	143425	broad.mit.edu	37	chr11	7439233	7439233	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtgatggcagacgactgaAgaagaggaaaacatccacca	16	5	12	8	1	0	5	0	2	0	3	1	7	1	6	2	2	1	1	2	2	4	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:7439233A>G	uc001mfe.2	+	5	1448	c.1211A>G	c.(1210-1212)AAG>AGG	p.K404R	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_RNA	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	404	Cytoplasmic (Potential).|C2 2.					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		AGACGACTGAAGAAGAGGAAA	0.463													21	58					0	0	1	0	0		G	7439233	G	G	7439233	3	3	82	1	0	0	0	0	1	0	0	0	15506	72	3	3	1229	3	SYT9	11	7439233	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	378239	7439233	127567283	722	51178											
OLFML1	283298	broad.mit.edu	37	chr11	7509423	7509423	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattccaagagttctcaaaAaatatatctgtcatgctggg	14	12	8	7	0	3	1	2	0	2	1	5	2	4	1	1	1	1	2	1	1	7	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:7509423A>T	uc001mfi.2	+	2	547	c.195A>T	c.(193-195)AAA>AAT	p.K65N	uc001mff.1_Intron|OLFML1_uc001mfh.1_Missense_Mutation_p.K65N|OLFML1_uc010raz.1_Intron|OLFML1_uc010rba.1_Missense_Mutation_p.K65N	NM_198474	NP_940876	Q6UWY5	OLFL1_HUMAN	olfactomedin-like 1 precursor	65						extracellular region				ovary(2)	2				Epithelial(150;6.96e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		AGTTCTCAAAAAATATATCTG	0.423													9	61					0	0	1	0	0		T	7509423	T	T	7509423	3	4	82	1	0	0	0	0	1	0	0	0	10875	11	1	5	201	5	OLFML1	11	7509423	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	70190	7509423	127497093	723	51179											
DENND5A	23258	broad.mit.edu	37	chr11	9225542	9225542	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtgatgaggcagatgcacTtagagacgtagagagtgtcc	11	9	15	6	1	0	5	0	2	0	3	1	7	1	5	1	1	1	3	1	1	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:9225542T>C	uc001mhl.2	-	4	869	c.614A>G	c.(613-615)AAG>AGG	p.K205R	DENND5A_uc010rbw.1_Missense_Mutation_p.K205R|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	205	DENN.									liver(1)	1						GCAGATGCACTTAGAGACGTA	0.547													11	56					0	0	1	0	0		C	9225542	C	C	9225542	3	2	82	1	0	0	0	0	1	0	0	0	4442	1609	56	3	3329	3	DENND5A	11	9225542	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1716119	9225542	125780974	724	51180											
IPO7	10527	broad.mit.edu	37	chr11	9446534	9446534	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagcctgtagtaagaggaaAgaggtaggcttatttaatgt	14	11	12	4	0	0	2	0	0	0	2	0	3	0	3	1	3	1	4	1	3	6	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:9446534A>T	uc001mho.2	+	11	1357	c.1215A>T	c.(1213-1215)AAA>AAT	p.K405N		NM_006391	NP_006382	O95373	IPO7_HUMAN	importin 7	405					interspecies interaction between organisms|signal transduction	Golgi apparatus|nuclear pore|soluble fraction	protein transporter activity|Ran GTPase binding|small GTPase regulator activity			lung(1)|breast(1)	2				all cancers(16;8.29e-09)|Epithelial(150;4.76e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0217)		GTAAGAGGAAAGAGGTAGGCT	0.303													16	53					0	0	1	0	0		T	9446534	T	T	9446534	3	4	82	1	0	0	0	0	1	0	0	0	7813	69	3	5	1257	5	IPO7	11	9446534	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	220992	9446534	125559982	725	51181											
ZNF143	7702	broad.mit.edu	37	chr11	9522759	9522759	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattactgcacagagccaggAtgtgggagggcatttgccag	10	9	14	8	0	0	1	0	0	0	1	0	3	0	3	2	3	4	2	2	3	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:9522759A>C	uc001mhr.2	+	11	1207	c.1089A>C	c.(1087-1089)GGA>GGC	p.G363G	ZNF143_uc009yfu.2_Silent_p.G362G|ZNF143_uc010rby.1_Silent_p.G332G	NM_003442	NP_003433	P52747	ZN143_HUMAN	zinc finger protein 143	363	C2H2-type 5.				regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding|zinc ion binding				0				all cancers(16;4.12e-09)|Epithelial(150;2.29e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0212)		CAGAGCCAGGATGTGGGAGGG	0.438													8	123					0	0	1	0	0		C	9522759	C	C	9522759	2	2	82	1	0	0	0	0	0	0	0	1	17757	320	12	5		5	ZNF143	11	9522759	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	76225	9522759	125483757	726	51182											
MRVI1	10335	broad.mit.edu	37	chr11	10622466	10622466	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagcctaggtccttaccAgaggggccacagctgcggct	8	6	14	13	1	0	1	0	0	0	1	1	2	1	2	4	5	4	2	4	5	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:10622466A>T	uc010rcc.1	-	15	2402	c.2016T>A	c.(2014-2016)TCT>TCA	p.S672S	MRVI1_uc001miw.2_Silent_p.S663S|MRVI1_uc010rcb.1_Silent_p.S664S|MRVI1_uc009ygb.1_Silent_p.S357S|MRVI1_uc001mix.2_Silent_p.S357S|MRVI1_uc001miz.2_Silent_p.S581S|MRVI1_uc009ygc.1_Silent_p.S581S|MRVI1_uc010rcd.1_Silent_p.S466S|MRVI1_uc009ygd.1_Silent_p.S357S|MRVI1_uc010rce.1_RNA	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	645					platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum				ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		GGTCCTTACCAGAGGGGCCAC	0.507													7	52					0	0	1	0	0		T	10622466	T	T	10622466	2	4	82	1	0	0	0	0	0	0	0	1	9871	202	7	5		5	MRVI1	11	10622466	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1099707	10622466	124384050	727	51183											
ARNTL	406	broad.mit.edu	37	chr11	13388329	13388329	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcggctcatagatgcaaaaAgtgagtaccagagaggcctc	14	6	12	9	1	1	3	1	1	0	2	2	4	1	3	2	2	3	3	2	2	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:13388329A>T	uc001mkr.2	+	11	1078	c.670A>T	c.(670-672)ACT>TCT	p.T224S	ARNTL_uc001mko.2_Missense_Mutation_p.T181S|ARNTL_uc001mkp.2_Missense_Mutation_p.T224S|ARNTL_uc001mkq.2_Missense_Mutation_p.T224S|ARNTL_uc001mks.2_Missense_Mutation_p.T181S|ARNTL_uc001mkt.2_Missense_Mutation_p.T224S|ARNTL_uc001mku.2_RNA|ARNTL_uc009ygm.1_Missense_Mutation_p.T181S|ARNTL_uc001mkv.1_Missense_Mutation_p.T181S|ARNTL_uc001mkw.2_Missense_Mutation_p.T181S|ARNTL_uc001mkx.2_Missense_Mutation_p.T222S	NM_001178	NP_001169	O00327	BMAL1_HUMAN	aryl hydrocarbon receptor nuclear	224					circadian rhythm|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	aryl hydrocarbon receptor binding|DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0				Epithelial(150;0.0243)		AGATGCAAAAAGTGAGTACCA	0.557													8	45					0	0	1	0	0		T	13388329	T	T	13388329	3	4	82	1	0	0	0	0	1	0	0	0	968	86	3	5	711	5	ARNTL	11	13388329	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2765863	13388329	121618187	728	51184											
NAV2	89797	broad.mit.edu	37	chr11	19955499	19955499	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataccaaaaccaggaatgaAaagcatgcccgggaaatccc	18	4	8	11	1	0	1	0	1	0	0	1	3	1	3	4	2	4	1	4	2	8	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:19955499A>T	uc010rdm.1	+	8	2139	c.1778A>T	c.(1777-1779)AAA>ATA	p.K593I	NAV2_uc001mpp.2_Missense_Mutation_p.K506I|NAV2_uc001mpr.3_Missense_Mutation_p.K570I	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	593						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						CCAGGAATGAAAAGCATGCCC	0.597													15	82					0	0	1	0	0		T	19955499	T	T	19955499	3	4	82	1	0	0	0	0	1	0	0	0	10202	14	1	5	1814	5	NAV2	11	19955499	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6567170	19955499	115051017	729	51185											
SLC17A6	57084	broad.mit.edu	37	chr11	22396414	22396414	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcaactacgacagtgagAaagatcatgaattgtggtgg	13	11	11	6	1	2	3	2	2	0	2	2	5	2	3	0	2	2	0	0	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:22396414A>T	uc001mqk.2	+	9	1568	c.1155A>T	c.(1153-1155)AGA>AGT	p.R385S		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	385	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						CGACAGTGAGAAAGATCATGA	0.368													35	218					0	0	1	0	0		T	22396414	T	T	22396414	3	4	82	1	0	0	0	0	1	0	0	0	14446	243	9	5	1189	5	SLC17A6	11	22396414	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2440915	22396414	112610102	730	51186											
SLC5A12	159963	broad.mit.edu	37	chr11	26725161	26725161	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagattccgagccaagtaaaAgttcctcccactgtgatagt	12	11	8	10	1	0	2	0	1	0	1	3	3	3	2	4	0	1	2	4	0	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:26725161A>C	uc001mra.2	-	6	1051	c.738T>G	c.(736-738)ACT>ACG	p.T246T	SLC5A12_uc001mrb.2_RNA|SLC5A12_uc001mrc.3_Silent_p.T246T	NM_178498	NP_848593	Q1EHB4	SC5AC_HUMAN	solute carrier family 5 (sodium/glucose	246	Helical; (Potential).				sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(1)|skin(1)	2						GCCAAGTAAAAGTTCCTCCCA	0.413													7	124					0	0	1	0	0		C	26725161	C	C	26725161	2	2	82	1	0	0	0	0	0	0	0	1	14689	59	3	5		5	SLC5A12	11	26725161	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4328747	26725161	108281355	731	51187											
BDNF	627	broad.mit.edu	37	chr11	27679542	27679542	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcagccttcttttgtgtaAcccatgggattgcacttggt	6	15	10	10	0	1	0	0	0	1	0	1	1	1	1	2	2	4	3	2	2	1	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:27679542A>C	uc010rdu.1	-	2	1421	c.570T>G	c.(568-570)GGT>GGG	p.G190G	BDNFOS_uc001mrm.2_Intron|BDNFOS_uc009yij.2_Intron|BDNFOS_uc009yik.2_Intron|BDNFOS_uc009yil.2_Intron|BDNFOS_uc001mrp.2_Intron|BDNFOS_uc009yim.2_Intron|BDNFOS_uc009yin.2_Intron|BDNFOS_uc009yio.2_Intron|BDNFOS_uc009yip.2_Intron|BDNFOS_uc001mrn.2_Intron|BDNFOS_uc009yiq.2_Intron|BDNFOS_uc001mro.2_Intron|BDNFOS_uc009yir.2_Intron|BDNFOS_uc009yis.2_Intron|BDNFOS_uc009yit.2_Intron|BDNFOS_uc009yiu.2_Intron|BDNFOS_uc009yiv.2_Intron|BDNFOS_uc009yiw.2_Intron|BDNFOS_uc009yix.2_Intron|BDNFOS_uc009yiy.2_Intron|BDNFOS_uc009yiz.2_Intron|BDNFOS_uc001mrq.3_Intron|BDNFOS_uc001mrr.3_Intron|BDNFOS_uc009yja.2_Intron|BDNFOS_uc009yjb.2_Intron|BDNF_uc010rdv.1_Silent_p.G190G|BDNF_uc001mrt.2_Silent_p.G205G|BDNF_uc010rdw.1_Silent_p.G190G|BDNF_uc009yjd.2_Silent_p.G190G|BDNF_uc001mru.2_Silent_p.G190G|BDNF_uc010rdx.1_Silent_p.G190G|BDNF_uc010rdy.1_Silent_p.G190G|BDNF_uc009yjg.2_Silent_p.G190G|BDNF_uc009yje.2_Silent_p.G272G|BDNF_uc009yjf.2_Silent_p.G219G|BDNF_uc001mrv.2_Silent_p.G190G|BDNF_uc001mrw.3_Silent_p.G190G|BDNF_uc001mrx.2_Silent_p.G190G|BDNF_uc001mry.3_Silent_p.G190G|BDNF_uc001mrz.3_Silent_p.G190G|BDNF_uc001msa.2_Silent_p.G198G	NM_001143816	NP_001137288	P23560	BDNF_HUMAN	brain-derived neurotrophic factor isoform a	190						extracellular region	growth factor activity				0						CTTTTGTGTAACCCATGGGAT	0.517													52	138					0	0	1	0	0		C	27679542	C	C	27679542	2	2	82	1	0	0	0	0	0	0	0	1	1395	30	2	5		5	BDNF	11	27679542	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	954381	27679542	107326974	732	51188											
BDNF	627	broad.mit.edu	37	chr11	27679792	27679792	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtattcctccagcagaaagAgaagaggaggctccaaaggc	14	6	12	9	0	0	3	0	0	0	3	3	5	3	4	3	3	1	3	3	3	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:27679792A>G	uc010rdu.1	-	2	1171	c.320T>C	c.(319-321)CTC>CCC	p.L107P	BDNFOS_uc001mrm.2_RNA|BDNFOS_uc009yij.2_RNA|BDNFOS_uc009yik.2_RNA|BDNFOS_uc009yil.2_RNA|BDNFOS_uc001mrp.2_RNA|BDNFOS_uc009yim.2_RNA|BDNFOS_uc009yin.2_RNA|BDNFOS_uc009yio.2_RNA|BDNFOS_uc009yip.2_RNA|BDNFOS_uc001mrn.2_RNA|BDNFOS_uc009yiq.2_RNA|BDNFOS_uc001mro.2_RNA|BDNFOS_uc009yir.2_RNA|BDNFOS_uc009yis.2_Intron|BDNFOS_uc009yit.2_RNA|BDNFOS_uc009yiu.2_RNA|BDNFOS_uc009yiv.2_RNA|BDNFOS_uc009yiw.2_RNA|BDNFOS_uc009yix.2_RNA|BDNFOS_uc009yiy.2_RNA|BDNFOS_uc009yiz.2_RNA|BDNFOS_uc001mrq.3_RNA|BDNFOS_uc001mrr.3_RNA|BDNFOS_uc009yja.2_RNA|BDNFOS_uc009yjb.2_RNA|BDNF_uc010rdv.1_Missense_Mutation_p.L107P|BDNF_uc001mrt.2_Missense_Mutation_p.L122P|BDNF_uc010rdw.1_Missense_Mutation_p.L107P|BDNF_uc009yjd.2_Missense_Mutation_p.L107P|BDNF_uc001mru.2_Missense_Mutation_p.L107P|BDNF_uc010rdx.1_Missense_Mutation_p.L107P|BDNF_uc010rdy.1_Missense_Mutation_p.L107P|BDNF_uc009yjg.2_Missense_Mutation_p.L107P|BDNF_uc009yje.2_Missense_Mutation_p.L189P|BDNF_uc009yjf.2_Missense_Mutation_p.L136P|BDNF_uc001mrv.2_Missense_Mutation_p.L107P|BDNF_uc001mrw.3_Missense_Mutation_p.L107P|BDNF_uc001mrx.2_Missense_Mutation_p.L107P|BDNF_uc001mry.3_Missense_Mutation_p.L107P|BDNF_uc001mrz.3_Missense_Mutation_p.L107P|BDNF_uc001msa.2_Missense_Mutation_p.L115P	NM_001143816	NP_001137288	P23560	BDNF_HUMAN	brain-derived neurotrophic factor isoform a	107						extracellular region	growth factor activity				0						CAGCAGAAAGAGAAGAGGAGG	0.532													28	63					0	0	1	0	0		G	27679792	G	G	27679792	3	3	82	1	0	0	0	0	1	0	0	0	1395	304	11	3	427	3	BDNF	11	27679792	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	250	27679792	107326724	733	51189											
PAMR1	25891	broad.mit.edu	37	chr11	35547122	35547122	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccccaactgcgtccagcaAcccagctccatccttgccgc	8	6	7	20	2	0	0	0	0	0	0	3	0	3	0	7	0	7	2	7	0	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:35547122A>G	uc001mwg.2	-	1	55	c.12T>C	c.(10-12)GGT>GGC	p.G4G	PAMR1_uc001mwf.2_Silent_p.G4G|PAMR1_uc010rew.1_Silent_p.G4G|PAMR1_uc010rex.1_Intron	NM_001001991	NP_001001991	Q6UXH9	PAMR1_HUMAN	regeneration associated muscle protease isoform	4					proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						GCGTCCAGCAACCCAGCTCCA	0.637													5	17					0	0	1	0	0		G	35547122	G	G	35547122	2	3	82	1	0	0	0	0	0	0	0	1	11432	30	2	3		3	PAMR1	11	35547122	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	7867330	35547122	99459394	734	51190											
SYT13	57586	broad.mit.edu	37	chr11	45265838	45265838	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacggggttgatcttgtgcTtagctcgtttagtctgcttc	5	16	11	9	2	2	1	0	1	2	0	4	1	2	1	0	2	3	5	0	2	2	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:45265838T>G	uc001myq.2	-	6	1172	c.1046A>C	c.(1045-1047)AAG>ACG	p.K349T	SYT13_uc009yku.1_Missense_Mutation_p.K205T	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	349	C2 2.|Cytoplasmic (Potential).					transport vesicle				ovary(1)	1						GATCTTGTGCTTAGCTCGTTT	0.557													9	45					0	0	1	0	0		G	45265838	G	G	45265838	3	3	82	1	0	0	0	0	1	0	0	0	15494	1609	56	5	238	5	SYT13	11	45265838	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	9718716	45265838	89740678	735	51191											
AGBL2	79841	broad.mit.edu	37	chr11	47689161	47689161	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttaacttctgcatcaaatTttttttctgatactgctcat	9	20	3	9	0	4	1	2	1	2	0	4	1	4	1	0	0	4	2	0	0	3	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:47689161T>G	uc001ngg.2	-	15	2402	c.2302A>C	c.(2302-2304)AAT>CAT	p.N768H	AGBL2_uc001ngf.2_RNA|AGBL2_uc010rhq.1_Missense_Mutation_p.N730H	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	768					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						TGCATCAAATTTTTTTTCTGA	0.353													8	60					0	0	1	0	0		G	47689161	G	G	47689161	3	3	82	1	0	0	0	0	1	0	0	0	376	1841	64	5	422	5	AGBL2	11	47689161	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2423323	47689161	87317355	736	51192											
OR5D13	390142	broad.mit.edu	37	chr11	55541717	55541717	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgttcctaatcctaaaacTtctagcctcatagttacagt	11	15	5	10	0	2	0	1	0	1	0	4	0	4	0	3	0	3	2	3	0	6	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:55541717T>G	uc010ril.1	+	1	804	c.804T>G	c.(802-804)ACT>ACG	p.T268T		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				ATCCTAAAACTTCTAGCCTCA	0.438													8	49					0	0	1	0	0		G	55541717	G	G	55541717	2	3	82	1	0	0	0	0	0	0	0	1	11173	1596	56	5		5	OR5D13	11	55541717	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7852556	55541717	79464799	737	51193											
OR5D16	390144	broad.mit.edu	37	chr11	55606614	55606614	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaccactttgtggccatttgCaatcctctgctctacacagt	8	13	7	13	0	2	0	0	0	2	0	3	1	3	0	3	1	3	2	3	1	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:55606614C>T	uc010rio.1	+	1	387	c.387C>T	c.(385-387)TGC>TGT	p.C129C		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	129	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				TGGCCATTTGCAATCCTCTGC	0.463													28	92					0	0	1	0	0		T	55606614	T	T	55606614	2	4	82	1	0	0	0	0	0	0	0	1	11175	718	25	2		2	OR5D16	11	55606614	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	64897	55606614	79399902	738	51194											
SPRYD5	84767	broad.mit.edu	37	chr11	55658772	55658772	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctttcacatctggcaaataTtattgggaggttcatatggg	10	14	11	6	0	3	0	2	0	1	0	3	1	3	1	0	4	0	3	0	4	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:55658772T>C	uc010rip.1	+	7	1115	c.1023T>C	c.(1021-1023)TAT>TAC	p.Y341Y	SPRYD5_uc010riq.1_Silent_p.Y198Y	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	341	B30.2/SPRY.					intracellular	zinc ion binding				0		all_epithelial(135;0.226)				CTGGCAAATATTATTGGGAGG	0.428													30	108					0	0	1	0	0		C	55658772	C	C	55658772	2	2	82	1	0	0	0	0	0	0	0	1	15136	1500	52	3		3	SPRYD5	11	55658772	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	52158	55658772	79347744	739	51195											
OR5M11	219487	broad.mit.edu	37	chr11	56309940	56309940	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttagattcctcaacagtcTtatctgttggtggtcttata	8	19	7	7	0	4	1	1	0	3	1	5	1	5	1	1	2	1	1	1	2	5	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:56309940T>G	uc010rjl.1	-	1	794	c.794A>C	c.(793-795)AAG>ACG	p.K265T		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTCAACAGTCTTATCTGTTGG	0.418													30	50					0	0	1	0	0		G	56309940	G	G	56309940	3	3	82	1	0	0	0	0	1	0	0	0	11193	1609	56	5	126	5	OR5M11	11	56309940	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	651168	56309940	78696576	740	51196											
OR1S2	219958	broad.mit.edu	37	chr11	57971212	57971212	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgaacctggcccgcatgaAagttgtatagttcagagggt	10	9	13	9	2	1	2	1	1	0	1	1	3	1	2	3	2	1	4	3	2	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:57971212A>C	uc010rkb.1	-	1	442	c.442T>G	c.(442-444)TTC>GTC	p.F148V		NM_001004459	NP_001004459	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S,	148	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				GCCCGCATGAAAGTTGTATAG	0.463													27	160					0	0	1	0	0		C	57971212	C	C	57971212	3	2	82	1	0	0	0	0	1	0	0	0	10992	14	1	5	538	5	OR1S2	11	57971212	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1661272	57971212	77035304	741	51197											
OR4D10	390197	broad.mit.edu	37	chr11	59244981	59244981	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcgggaagtgagcttagtcTtatttcttttcctactcttg	7	18	8	8	1	3	1	0	1	3	0	5	2	4	2	1	1	2	1	1	1	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:59244981T>G	uc001nnz.1	+	1	79	c.79T>G	c.(79-81)TTA>GTA	p.L27V		NM_001004705	NP_001004705	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D,	27	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GAGCTTAGTCTTATTTCTTTT	0.433													9	129					0	0	1	0	0		G	59244981	G	G	59244981	3	3	82	1	0	0	0	0	1	0	0	0	11073	1606	56	5	81	5	OR4D10	11	59244981	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1273769	59244981	75761535	742	51198											
PATL1	219988	broad.mit.edu	37	chr11	59410351	59410351	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagttaaaagggcaagatcAccttgttctggagcacagca	13	8	12	8	0	2	1	1	0	1	1	2	3	2	3	1	3	2	5	1	3	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:59410351A>G	uc001noe.3	-	16	2192	c.2049_splice	c.e16+1	p.K683_splice		NM_152716	NP_689929	Q86TB9	PATL1_HUMAN	protein associated with topoisomerase II homolog						cytoplasmic mRNA processing body assembly|deadenylation-dependent decapping of nuclear-transcribed mRNA	cytoplasmic mRNA processing body	protein binding|RNA binding			ovary(1)	1						GGGCAAGATCACCTTGTTCTG	0.433													22	156					0	0	1	0	0		G	59410351	G	G	59410351	5	3	82	1	0	0	0	0	0	0	1	0	11494	173	6	3	277	3	PATL1	11	59410351	Splice_Site	SNP	A	TCGA-BR-8589-01A-11D-2394-08	165370	59410351	75596165	743	51199											
MS4A7	58475	broad.mit.edu	37	chr11	60152695	60152695	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttttaggagctctgtgTgtgagtagaatggggactct	8	14	13	6	0	2	2	0	1	2	1	2	4	2	4	1	3	1	2	1	3	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:60152695T>C	uc001npe.2	+	3	427	c.282T>C	c.(280-282)TGT>TGC	p.C94C	MS4A7_uc001npf.2_Silent_p.C94C|MS4A7_uc001npg.2_Intron|MS4A7_uc001nph.2_Intron|MS4A14_uc001npi.2_Intron|MS4A7_uc009ymx.1_Intron	NM_206939	NP_996822	Q9GZW8	MS4A7_HUMAN	membrane-spanning 4-domains, subfamily A, member	94	Helical; (Potential).					integral to membrane	receptor activity			ovary(1)|central_nervous_system(1)	2						GAGCTCTGTGTGTGAGTAGAA	0.498													18	123					0	0	1	0	0		C	60152695	C	C	60152695	2	2	82	1	0	0	0	0	0	0	0	1	9884	1710	59	3		3	MS4A7	11	60152695	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	742344	60152695	74853821	744	51200											
AHNAK	79026	broad.mit.edu	37	chr11	62286461	62286461	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccacatctggcatcttgAccttgggagccttcgccttg	5	13	10	13	1	2	1	0	1	2	0	4	2	3	2	4	2	1	1	4	2	0	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:62286461A>C	uc001ntl.2	-	5	15728	c.15428T>G	c.(15427-15429)GTC>GGC	p.V5143G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	5143					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TGGCATCTTGACCTTGGGAGC	0.522													8	49					0	0	1	0	0		C	62286461	C	C	62286461	3	2	82	1	0	0	0	0	1	0	0	0	414	275	10	5	2364	5	AHNAK	11	62286461	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2133766	62286461	72720055	745	51201											
SLC22A9	114571	broad.mit.edu	37	chr11	63175638	63175638	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcttaggagcgtctgctcTtgccaatacccttgcttttg	5	14	11	11	1	2	0	0	0	2	0	2	1	2	1	2	2	5	3	2	2	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:63175638T>C	uc001nww.2	+	8	1611	c.1343T>C	c.(1342-1344)CTT>CCT	p.L448P	SLC22A9_uc001nwx.2_Intron	NM_080866	NP_543142	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion/cation	448	Helical; (Potential).				transmembrane transport	integral to membrane				breast(2)|large_intestine(1)	3						GCGTCTGCTCTTGCCAATACC	0.478													10	44					0	0	1	0	0		C	63175638	C	C	63175638	3	2	82	1	0	0	0	0	1	0	0	0	14486	1609	56	3	1373	3	SLC22A9	11	63175638	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	889177	63175638	71830878	746	51202											
SLC22A9	114571	broad.mit.edu	37	chr11	63177296	63177296	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaagaccccagagaaccaAagcaagaggatccgagagtg	18	2	12	9	1	0	4	0	0	0	4	1	8	1	5	4	1	2	1	4	1	5	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:63177296A>C	uc001nww.2	+	10	1892	c.1624A>C	c.(1624-1626)AAG>CAG	p.K542Q	SLC22A9_uc001nwx.2_RNA	NM_080866	NP_543142	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion/cation	542	Cytoplasmic (Potential).				transmembrane transport	integral to membrane				breast(2)|large_intestine(1)	3						CAGAGAACCAAAGCAAGAGGA	0.423													6	45					0	0	1	0	0		C	63177296	C	C	63177296	3	2	82	1	0	0	0	0	1	0	0	0	14486	15	1	5	1662	5	SLC22A9	11	63177296	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1658	63177296	71829220	747	51203											
RTN3	10313	broad.mit.edu	37	chr11	63487765	63487765	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttagaagatgtgagtgaAgttgctcctgaaaagcctat	12	12	10	7	0	0	5	0	3	0	2	2	5	2	5	3	0	2	2	3	0	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:63487765A>C	uc001nxq.2	+	3	1978	c.1791A>C	c.(1789-1791)GAA>GAC	p.E597D	RTN3_uc001nxo.2_Intron|RTN3_uc001nxm.2_Intron|RTN3_uc001nxn.2_Missense_Mutation_p.E578D|RTN3_uc001nxp.2_Intron|RTN3_uc009yov.2_Missense_Mutation_p.E485D|RTN3_uc010rmt.1_Intron|RTN3_uc010rmu.1_Intron	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	597					apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						ATGTGAGTGAAGTTGCTCCTG	0.408													33	101					0	0	1	0	0		C	63487765	C	C	63487765	3	2	82	1	0	0	0	0	1	0	0	0	13752	69	3	5	1801	5	RTN3	11	63487765	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	310469	63487765	71518751	748	51204											
CATSPER1	117144	broad.mit.edu	37	chr11	65792743	65792743	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgggtgacacgtgagcggaTtgtgctggaggaccgagtca	8	8	17	8	3	1	2	1	2	0	0	1	6	1	5	1	4	2	1	1	4	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:65792743T>C	uc001ogt.2	-	1	1246	c.1108A>G	c.(1108-1110)ATC>GTC	p.I370V		NM_053054	NP_444282	Q8NEC5	CTSR1_HUMAN	sperm-associated cation channel 1	370	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	protein binding			ovary(2)	2						CGTGAGCGGATTGTGCTGGAG	0.552													16	47					0	0	1	0	0		C	65792743	C	C	65792743	3	2	82	1	0	0	0	0	1	0	0	0	2690	1493	52	3	1282	3	CATSPER1	11	65792743	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2304978	65792743	69213773	749	51205											
B3GNT1	11041	broad.mit.edu	37	chr11	66113626	66113626	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccttttggggatggaacTtcaacgcttctttgaagccc	7	13	9	12	1	2	1	1	1	1	0	3	3	3	3	3	3	3	1	3	3	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:66113626T>G	uc001ohr.2	-	2	1287	c.1142A>C	c.(1141-1143)AAG>ACG	p.K381T	BRMS1_uc001ohp.1_5'Flank|BRMS1_uc001oho.1_5'Flank	NM_006876	NP_006867	O43505	B3GN1_HUMAN	UDP-GlcNAc:betaGal	381	Lumenal (Potential).				poly-N-acetyllactosamine biosynthetic process	integral to Golgi membrane	N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase activity				0						GGGATGGAACTTCAACGCTTC	0.502													35	105					0	0	1	0	0		G	66113626	G	G	66113626	3	3	82	1	0	0	0	0	1	0	0	0	1257	1609	56	5	109	5	B3GNT1	11	66113626	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	320883	66113626	68892890	750	51206											
CTSF	8722	broad.mit.edu	37	chr11	66333365	66333365	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccctccacattgcctgTgactgagaaggcccagcagg	8	7	12	14	0	0	2	0	2	0	1	1	3	1	2	4	3	2	1	4	3	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:66333365T>A	uc001oip.2	-	7	991	c.901A>T	c.(901-903)ACA>TCA	p.T301S		NM_003793	NP_003784	Q9UBX1	CATF_HUMAN	cathepsin F precursor	301					proteolysis	lysosome	cysteine-type endopeptidase activity				0						ACATTGCCTGTGACTGAGAAG	0.612													7	61					0	0	1	0	0		A	66333365	A	A	66333365	3	1	82	1	0	0	0	0	1	0	0	0	4037	1696	59	5	581	5	CTSF	11	66333365	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	219739	66333365	68673151	751	51207											
ALDH3B1	221	broad.mit.edu	37	chr11	67789236	67789236	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccagagctccccaaaccTgggccgcatcatcaaccaga	11	4	7	19	1	2	2	2	0	0	2	3	2	3	2	7	1	3	2	7	1	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:67789236T>G	uc010rpy.1	+	8	961	c.845T>G	c.(844-846)CTG>CGG	p.L282R	ALDH3B1_uc001omz.2_Missense_Mutation_p.L282R|ALDH3B1_uc001ona.2_Missense_Mutation_p.L245R|ALDH3B1_uc001onb.2_RNA	NM_001161473	NP_001154945	P43353	AL3B1_HUMAN	aldehyde dehydrogenase 3B1 isoform a	282					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase				0					NADH(DB00157)	TCCCCAAACCTGGGCCGCATC	0.627											OREG0021141	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	178					0	0	1	0	0		G	67789236	G	G	67789236	3	3	82	1	0	0	0	0	1	0	0	0	499	1580	55	5	866	5	ALDH3B1	11	67789236	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1455871	67789236	67217280	752	51208											
CTTN	2017	broad.mit.edu	37	chr11	70279801	70279801	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatctggggatcacagccgTcgccctgtacgactaccagg	8	7	12	14	4	2	0	1	0	1	0	3	3	2	1	3	3	3	1	3	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:70279801T>C	uc001opv.3	+	17	1699	c.1493T>C	c.(1492-1494)GTC>GCC	p.V498A	CTTN_uc001opu.2_Missense_Mutation_p.V461A|CTTN_uc001opw.3_Missense_Mutation_p.V461A|CTTN_uc010rqm.1_Missense_Mutation_p.V182A|CTTN_uc001opx.2_Missense_Mutation_p.V182A	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	498	SH3.					cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		ATCACAGCCGTCGCCCTGTAC	0.547													12	96					0	0	1	0	0		C	70279801	C	C	70279801	3	2	82	1	0	0	0	0	1	0	0	0	4047	1667	58	3	1551	3	CTTN	11	70279801	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2490565	70279801	64726715	753	51209											
KRTAP5-9	3846	broad.mit.edu	37	chr11	71260091	71260091	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctgctgccaatccagcTgctgcaagccctgctgctca	7	9	8	17	0	1	0	1	0	0	0	3	0	3	0	4	0	8	6	4	0	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:71260091T>G	uc001oqs.1	+	1	626	c.388T>G	c.(388-390)TGC>GGC	p.C130G		NM_005553	NP_005544	P26371	KRA59_HUMAN	keratin associated protein 5-9	130	8 X 4 AA repeats of C-C-X-P.|6.				epidermis development	keratin filament					0						CCAATCCAGCTGCTGCAAGCC	0.627													60	215					0	0	1	0	0		G	71260091	G	G	71260091	3	3	82	1	0	0	0	0	1	0	0	0	8584	1580	55	5	390	5	KRTAP5-9	11	71260091	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	980290	71260091	63746425	754	51210											
FOLR3	2352	broad.mit.edu	37	chr11	71850819	71850819	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaatgaggaggtggccaagTtctatgctgcggccatgaat	10	9	13	9	1	1	2	0	2	1	0	1	3	1	3	3	4	2	2	3	4	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:71850819T>G	uc001ory.1	+	5	858	c.808T>G	c.(808-810)TTC>GTC	p.F270V	FOLR3_uc001orx.1_Missense_Mutation_p.F228V			P41439	FOLR3_HUMAN	SubName: Full=FOLR3 protein; Flags: Fragment;	226					folic acid transport	extracellular region|extrinsic to membrane|membrane fraction	folic acid binding|receptor activity				0					Folic Acid(DB00158)	GGTGGCCAAGTTCTATGCTGC	0.547													10	48					0	0	1	0	0		G	71850819	G	G	71850819	3	3	82	1	0	0	0	0	1	0	0	0	5997	1725	60	5	694	5	FOLR3	11	71850819	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	590728	71850819	63155697	755	51211											
C2CD3	26005	broad.mit.edu	37	chr11	73785595	73785595	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaaccacatgaactcgcaAggcagctcctgagaggttgg	13	6	12	10	1	0	3	0	2	0	2	2	4	1	3	2	3	3	4	2	3	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:73785595A>C	uc001ouu.2	-	24	4881	c.4654T>G	c.(4654-4656)TTG>GTG	p.L1552V	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1552						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					TGAACTCGCAAGGCAGCTCCT	0.502													4	44					0	0	1	0	0		C	73785595	C	C	73785595	3	2	82	1	0	0	0	0	1	0	0	0	2157	69	3	5	1269	5	C2CD3	11	73785595	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1934776	73785595	61220921	756	51212											
P4HA3	283208	broad.mit.edu	37	chr11	73996867	73996867	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactcacccatggttctgcaAgttctctaattttctgagcc	8	14	6	13	0	4	1	1	1	3	0	5	1	4	1	2	1	2	3	2	1	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:73996867A>G	uc001ouz.2	-	7	1140	c.1097T>C	c.(1096-1098)CTT>CCT	p.L366P	P4HA3_uc001ouy.3_RNA|P4HA3_uc010rrj.1_Missense_Mutation_p.L366P	NM_182904	NP_878907	Q7Z4N8	P4HA3_HUMAN	prolyl 4-hydroxylase, alpha III subunit	366						endoplasmic reticulum lumen	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			skin(1)	1	Breast(11;2.31e-05)					TGGTTCTGCAAGTTCTCTAAT	0.498													38	152					0	0	1	0	0		G	73996867	G	G	73996867	3	3	82	1	0	0	0	0	1	0	0	0	11377	72	3	3	565	3	P4HA3	11	73996867	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	211272	73996867	61009649	757	51213											
PGM2L1	283209	broad.mit.edu	37	chr11	74058298	74058298	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggcttaaaaccaaacacTttaaaagccaactgcacata	18	7	6	10	0	0	0	0	0	0	0	0	1	0	1	2	2	5	2	2	2	7	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:74058298T>C	uc001ovb.1	-	7	1130	c.834A>G	c.(832-834)AAA>AAG	p.K278K		NM_173582	NP_775853	Q6PCE3	PGM2L_HUMAN	phosphoglucomutase 2-like 1	278					glucose 1-phosphate metabolic process	cytosol	glucose-1,6-bisphosphate synthase activity|phosphoglucomutase activity			ovary(1)	1	Breast(11;3.32e-06)					AACCAAACACTTTAAAAGCCA	0.403													13	69					0	0	1	0	0		C	74058298	C	C	74058298	2	2	82	1	0	0	0	0	0	0	0	1	11818	1606	56	3		3	PGM2L1	11	74058298	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	61431	74058298	60948218	758	51214											
NEU3	10825	broad.mit.edu	37	chr11	74717517	74717517	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagccctggtaggaacccaAgccaattcaaaagcaattaa	16	6	7	12	0	1	0	1	0	0	0	1	1	1	1	4	2	4	2	4	2	8	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:74717517A>G	uc001ovw.2	+	3	1522	c.1366A>G	c.(1366-1368)AGC>GGC	p.S456G	NEU3_uc001ovv.2_Missense_Mutation_p.S446G|NEU3_uc010rrl.1_Missense_Mutation_p.S347G|uc010rrm.1_5'Flank|uc001ovx.1_5'Flank	NM_006656	NP_006647	A8K327	A8K327_HUMAN	sialidase 3	456										ovary(2)	2						TAGGAACCCAAGCCAATTCAA	0.483													10	114					0	0	1	0	0		G	74717517	G	G	74717517	3	3	82	1	0	0	0	0	1	0	0	0	10362	72	3	3	1376	3	NEU3	11	74717517	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	659219	74717517	60288999	759	51215											
MYO7A	4647	broad.mit.edu	37	chr11	76917198	76917198	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtggaggccatccagcacaAgaccacccagattttccaca	12	6	9	14	0	0	2	0	0	0	2	2	3	2	3	5	3	1	1	5	3	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:76917198A>T	uc001oyb.2	+	41	5965	c.5693A>T	c.(5692-5694)AAG>ATG	p.K1898M	MYO7A_uc001oyc.2_Missense_Mutation_p.K1860M|MYO7A_uc001oye.2_RNA	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	1898					actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						ATCCAGCACAAGACCACCCAG	0.542													3	17					0	0	1	0	0		T	76917198	T	T	76917198	3	4	82	1	0	0	0	0	1	0	0	0	10100	72	3	5	5885	5	MYO7A	11	76917198	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2199681	76917198	58089318	760	51216											
CLNS1A	1207	broad.mit.edu	37	chr11	77336835	77336835	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcactgtcttcctcttcTtcatcagcaacaggttcttt	7	17	4	13	0	8	0	4	0	4	0	9	0	9	0	1	1	2	2	1	1	1	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:77336835T>G	uc001oyk.2	-	3	383	c.291A>C	c.(289-291)GAA>GAC	p.E97D	CLNS1A_uc001oyl.2_Intron	NM_001293	NP_001284	P54105	ICLN_HUMAN	chloride channel, nucleotide-sensitive, 1A	97					blood circulation|cell volume homeostasis|chloride transport|ncRNA metabolic process|spliceosomal snRNP assembly	cytoskeleton|cytosol|nucleus|plasma membrane	protein binding			ovary(1)	1	all_cancers(14;5.43e-17)|all_epithelial(13;1.78e-19)		Epithelial(5;1.02e-48)|BRCA - Breast invasive adenocarcinoma(5;1.4e-30)			CTTCCTCTTCTTCATCAGCAA	0.308													3	29					0	0	1	0	0		G	77336835	G	G	77336835	3	3	82	1	0	0	0	0	1	0	0	0	3551	1606	56	5	438	5	CLNS1A	11	77336835	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	419637	77336835	57669681	761	51217											
ODZ4	26011	broad.mit.edu	37	chr11	78380755	78380755	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgtagctgtagcgccagAgtggcttgtcattgatggag	7	11	16	7	2	1	2	1	1	0	1	2	3	1	3	1	3	2	4	1	3	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:78380755A>G	uc001ozl.3	-	32	7098	c.6635T>C	c.(6634-6636)CTC>CCC	p.L2212P	ODZ4_uc001ozk.3_Missense_Mutation_p.L437P|ODZ4_uc009yvb.1_Missense_Mutation_p.L796P	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2212	Extracellular (Potential).|YD 18.				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						GTAGCGCCAGAGTGGCTTGTC	0.557													27	89					0	0	1	0	0		G	78380755	G	G	78380755	3	3	82	1	0	0	0	0	1	0	0	0	10856	304	11	3	1686	3	ODZ4	11	78380755	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1043920	78380755	56625761	762	51218											
ODZ4	26011	broad.mit.edu	37	chr11	78381295	78381295	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccgtctcgtcataggtgAaactgaccttggtggtgtca	7	12	12	10	2	3	2	2	2	1	0	4	2	3	2	2	3	2	0	2	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:78381295A>C	uc001ozl.3	-	32	6558	c.6095T>G	c.(6094-6096)TTC>TGC	p.F2032C	ODZ4_uc001ozk.3_Missense_Mutation_p.F257C|ODZ4_uc009yvb.1_Missense_Mutation_p.F616C	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2032	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						GTCATAGGTGAAACTGACCTT	0.537													8	26					0	0	1	0	0		C	78381295	C	C	78381295	3	2	82	1	0	0	0	0	1	0	0	0	10856	246	9	5	2226	5	ODZ4	11	78381295	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	540	78381295	56625221	763	51219											
ODZ4	26011	broad.mit.edu	37	chr11	78413446	78413446	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgggccactccaggtgAacctgacaatgaagacaccg	11	7	11	12	1	1	4	0	3	1	1	2	4	2	4	4	2	1	0	4	2	3	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:78413446A>C	uc001ozl.3	-	28	4675	c.4212T>G	c.(4210-4212)GTT>GTG	p.V1404V	ODZ4_uc009yvb.1_5'UTR	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1404	Extracellular (Potential).|NHL 4.				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						ACTCCAGGTGAACCTGACAAT	0.418													14	107					0	0	1	0	0		C	78413446	C	C	78413446	2	2	82	1	0	0	0	0	0	0	0	1	10856	233	9	5		5	ODZ4	11	78413446	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	32151	78413446	56593070	764	51220											
CCDC81	60494	broad.mit.edu	37	chr11	86111788	86111788	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaagtgacaaatgtcagcTtgctggaaaagtttgaacga	15	9	10	7	1	1	2	1	2	0	0	1	4	1	3	1	1	3	3	1	1	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:86111788T>A	uc001pbx.1	+	7	1254	c.826T>A	c.(826-828)TTG>ATG	p.L276M	CCDC81_uc001pbw.1_Missense_Mutation_p.L186M|CCDC81_uc010rtq.1_Missense_Mutation_p.L59M|CCDC81_uc001pby.1_Missense_Mutation_p.L59M	NM_001156474	NP_001149946	Q6ZN84	CCD81_HUMAN	coiled-coil domain containing 81 isoform 1	276										skin(1)	1		Acute lymphoblastic leukemia(157;5.51e-06)|all_hematologic(158;0.00535)				AAATGTCAGCTTGCTGGAAAA	0.368													13	160					0	0	1	0	0		A	86111788	A	A	86111788	3	1	82	1	0	0	0	0	1	0	0	0	2858	1606	56	5	852	5	CCDC81	11	86111788	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7698342	86111788	48894728	765	51221											
FAT3	120114	broad.mit.edu	37	chr11	92088050	92088050	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagttgtcactcttaaagtTtttttagatgatgtcaatga	11	18	7	5	0	4	3	3	2	1	1	4	3	4	3	0	0	0	2	0	0	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:92088050T>G	uc001pdj.3	+	1	2789	c.2772T>G	c.(2770-2772)GTT>GTG	p.V924V		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	924	Cadherin 8.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CTCTTAAAGTTTTTTTAGATG	0.443										TCGA Ovarian(4;0.039)			35	125					0	0	1	0	0		G	92088050	G	G	92088050	2	3	82	1	0	0	0	0	0	0	0	1	5705	1828	64	5		5	FAT3	11	92088050	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5976262	92088050	42918466	766	51222											
PIWIL4	143689	broad.mit.edu	37	chr11	94308224	94308224	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatggaaagaggtgtgaaaAacaaacaggactttatggat	17	9	11	4	0	1	2	1	1	0	1	1	5	1	5	0	4	2	0	0	4	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:94308224A>C	uc001pfa.2	+	3	437	c.226A>C	c.(226-228)AAC>CAC	p.N76H	PIWIL4_uc010rue.1_RNA|PIWIL4_uc009ywk.1_RNA	NM_152431	NP_689644	Q7Z3Z4	PIWL4_HUMAN	piwi-like 4	76					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|meiosis|multicellular organismal development|piRNA metabolic process|regulation of translation|spermatogenesis	nucleus|piP-body	piRNA binding			skin(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				AGGTGTGAAAAACAAACAGGA	0.343													9	88					0	0	1	0	0		C	94308224	C	C	94308224	3	2	82	1	0	0	0	0	1	0	0	0	11979	14	1	5	236	5	PIWIL4	11	94308224	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2220174	94308224	40698292	767	51223											
SESN3	143686	broad.mit.edu	37	chr11	94918633	94918633	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttcaggcagagaccaattAttttctccagttttgacaag	12	13	8	8	0	2	2	1	1	1	1	3	3	2	2	2	1	0	3	2	1	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:94918633A>C	uc001pfk.1	-	5	771	c.549T>G	c.(547-549)AAT>AAG	p.N183K	SESN3_uc010rug.1_Missense_Mutation_p.N44K|SESN3_uc001pfl.2_Missense_Mutation_p.N183K	NM_144665	NP_653266	P58005	SESN3_HUMAN	sestrin 3	183					cell cycle arrest	nucleus					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.234)		GAGACCAATTATTTTCTCCAG	0.363													6	121					0	0	1	0	0		C	94918633	C	C	94918633	3	2	82	1	0	0	0	0	1	0	0	0	14151	446	16	5	953	5	SESN3	11	94918633	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	610409	94918633	40087883	768	51224											
TRPC6	7225	broad.mit.edu	37	chr11	101375353	101375353	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtggcattcttctaacatcTtccgcaccactgggatgtta	9	13	8	11	1	3	0	0	0	3	0	4	1	4	1	2	2	1	3	2	2	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:101375353T>G	uc001pgk.3	-	2	772	c.347A>C	c.(346-348)AAG>ACG	p.K116T	TRPC6_uc009ywy.2_Missense_Mutation_p.K116T|TRPC6_uc009ywz.1_Missense_Mutation_p.K116T	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	116	Cytoplasmic (Potential).|ANK 1.				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		TTCTAACATCTTCCGCACCAC	0.468													38	129					0	0	1	0	0		G	101375353	G	G	101375353	3	3	82	1	0	0	0	0	1	0	0	0	16609	1609	56	5	2496	5	TRPC6	11	101375353	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	6456720	101375353	33631163	769	51225											
C11orf70	85016	broad.mit.edu	37	chr11	101953825	101953825	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgctggtatgtgctatccTtcagcaaagaatcatgaaca	12	12	8	9	0	3	2	2	1	1	1	4	2	4	2	1	1	4	4	1	1	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:101953825T>G	uc001pgp.2	+	7	727	c.699T>G	c.(697-699)CCT>CCG	p.P233P	C11orf70_uc001pgq.2_Silent_p.P195P	NM_032930	NP_116319	Q9BRQ4	CK070_HUMAN	hypothetical protein LOC85016	233										skin(1)	1	all_epithelial(12;0.0137)	Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.0137)	Lung(13;0.245)	BRCA - Breast invasive adenocarcinoma(274;0.0335)		TGTGCTATCCTTCAGCAAAGA	0.279													19	111					0	0	1	0	0		G	101953825	G	G	101953825	2	3	82	1	0	0	0	0	0	0	0	1	1662	1596	56	5		5	C11orf70	11	101953825	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	578472	101953825	33052691	770	51226											
MMP27	64066	broad.mit.edu	37	chr11	102573756	102573756	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctttgaaatcttggtgaaTtttagtggagtgactttgct	8	17	10	6	0	1	3	0	3	1	0	1	4	1	4	1	2	1	1	1	2	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:102573756T>G	uc001phd.1	-	3	458	c.435A>C	c.(433-435)AAA>AAC	p.K145N		NM_022122	NP_071405	Q9H306	MMP27_HUMAN	matrix metalloproteinase 27 precursor	145					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3	all_cancers(8;0.000843)|all_epithelial(12;0.00362)|Lung NSC(15;0.21)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0509)|Lung(13;0.0696)|LUSC - Lung squamous cell carcinoma(19;0.13)|all cancers(10;0.176)	BRCA - Breast invasive adenocarcinoma(274;0.0151)		TCTTGGTGAATTTTAGTGGAG	0.403													34	154					0	0	1	0	0		G	102573756	G	G	102573756	3	3	82	1	0	0	0	0	1	0	0	0	9682	1490	52	5	1138	5	MMP27	11	102573756	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	619931	102573756	32432760	771	51227											
MMP12	4321	broad.mit.edu	37	chr11	102742578	102742578	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcagccatgcctgtgttaAtcttgctgaatttcaagggg	8	14	11	8	0	3	1	2	1	1	0	3	1	3	1	2	2	3	2	2	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:102742578A>T	uc001phk.2	-	3	500	c.455T>A	c.(454-456)ATT>AAT	p.I152N		NM_002426	NP_002417	P39900	MMP12_HUMAN	matrix metalloproteinase 12 preproprotein	152					positive regulation of epithelial cell proliferation involved in wound healing|proteolysis|wound healing, spreading of epidermal cells	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)	GCCTGTGTTAATCTTGCTGAA	0.413													4	24					0	0	1	0	0		T	102742578	T	T	102742578	3	4	82	1	0	0	0	0	1	0	0	0	9669	101	4	5	988	5	MMP12	11	102742578	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	168822	102742578	32263938	772	51228											
DYNC2H1	79659	broad.mit.edu	37	chr11	103058252	103058252	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacttgttctgtacttaaaAgatatcaacctacctaaact	15	13	4	9	0	2	2	1	0	1	2	2	2	2	2	2	0	4	2	2	0	8	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:103058252A>C	uc001pho.2	+	43	7221	c.7077A>C	c.(7075-7077)AAA>AAC	p.K2359N	DYNC2H1_uc001phn.1_Missense_Mutation_p.K2359N|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2359	AAA 3 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TGTACTTAAAAGATATCAACC	0.383													20	99					0	0	1	0	0		C	103058252	C	C	103058252	3	2	82	1	0	0	0	0	1	0	0	0	4852	69	3	5	7247	5	DYNC2H1	11	103058252	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	315674	103058252	31948264	773	51229											
CARD17	440068	broad.mit.edu	37	chr11	104971470	104971470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtaccttcgcccactgaaCggataaactgctttctcttc	8	14	6	13	2	1	1	0	1	1	0	4	2	1	2	2	1	4	2	2	1	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:104971470C>T	uc001pir.1	-	2	61	c.44G>A	c.(43-45)CGT>CAT	p.R15H	CASP1_uc010rve.1_Intron|CASP1_uc010rvf.1_Intron|CASP1_uc010rvg.1_Intron|CASP1_uc010rvh.1_Intron|CASP1_uc010rvi.1_Intron	NM_001007232	NP_001007233	Q5XLA6	CAR17_HUMAN	caspase recruitment domain family, member 17	15	CARD.				proteolysis|regulation of apoptosis	cytoplasm	cysteine-type endopeptidase activity|cysteine-type endopeptidase inhibitor activity			ovary(1)	1						GCCCACTGAACGGATAAACTG	0.428													26	254					0	0	1	0	0		T	104971470	T	T	104971470	3	4	82	1	0	0	0	0	1	0	0	0	2651	536	19	1	296	1	CARD17	11	104971470	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	1913218	104971470	30035046	774	51230											
EXPH5	23086	broad.mit.edu	37	chr11	108380425	108380425	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actactgggagaatttgagcTtaatgactctgaggggttgg	10	12	14	5	0	1	4	0	3	1	1	1	5	1	4	0	4	2	2	0	4	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:108380425T>C	uc001pkk.2	-	6	5920	c.5809A>G	c.(5809-5811)AGC>GGC	p.S1937G	EXPH5_uc010rvy.1_Missense_Mutation_p.S1749G|EXPH5_uc010rvz.1_Missense_Mutation_p.S1781G|EXPH5_uc010rwa.1_Missense_Mutation_p.S1861G	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1937					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		GAATTTGAGCTTAATGACTCT	0.438													25	101					0	0	1	0	0		C	108380425	C	C	108380425	3	2	82	1	0	0	0	0	1	0	0	0	5330	1609	56	3	164	3	EXPH5	11	108380425	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3408955	108380425	26626091	775	51231											
DDX10	1662	broad.mit.edu	37	chr11	108559688	108559688	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgccactttggaacagaacTacatagtctgtgagctgcag	11	10	10	10	0	1	2	0	1	1	1	1	3	1	3	1	1	6	2	1	1	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:108559688T>G	uc001pkm.2	+	7	939	c.874T>G	c.(874-876)TAC>GAC	p.Y292D	DDX10_uc001pkl.1_Missense_Mutation_p.Y292D	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	292	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		GGAACAGAACTACATAGTCTG	0.373			T	NUP98	AML*								17	187					0	0	1	0	0		G	108559688	G	G	108559688	3	3	82	1	0	0	0	0	1	0	0	0	4345	1522	53	5	900	5	DDX10	11	108559688	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	179263	108559688	26446828	776	51232											
LAYN	143903	broad.mit.edu	37	chr11	111431129	111431129	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgagttctccccagaccaAatggggaggagtaaggagtc	12	8	13	8	0	1	2	0	1	1	1	3	5	1	5	3	4	0	2	3	4	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:111431129A>C	uc001plr.1	+	8	1431	c.1095A>C	c.(1093-1095)CAA>CAC	p.Q365H	LAYN_uc001plp.1_Missense_Mutation_p.Q357H|LAYN_uc001plq.1_3'UTR|LAYN_uc001pls.1_3'UTR|LAYN_uc010rwg.1_Missense_Mutation_p.Q212H|LAYN_uc010rwh.1_Missense_Mutation_p.Q213H	NM_178834	NP_849156	Q6UX15	LAYN_HUMAN	layilin	365	Cytoplasmic (Potential).|3 X 5 AA repeats of E-S-G-X-V.|Interaction with NF2 (By similarity).|2 X 4 AA repeats of N-X-I-Y.|Interaction with TLN1 (By similarity).					cell surface|integral to membrane|ruffle	hyaluronic acid binding|sugar binding				0		all_cancers(61;9.06e-10)|all_epithelial(67;1.34e-05)|Melanoma(852;1.74e-05)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.086)		Epithelial(105;1.5e-06)|BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|all cancers(92;2.45e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0476)		CCCCAGACCAAATGGGGAGGA	0.408													10	86					0	0	1	0	0		C	111431129	C	C	111431129	3	2	82	1	0	0	0	0	1	0	0	0	8665	11	1	5	1097	5	LAYN	11	111431129	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2871441	111431129	23575387	777	51233											
DIXDC1	85458	broad.mit.edu	37	chr11	111856042	111856042	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgtcaatcccgaggaacaActggtgagctccatcttttg	9	11	11	10	1	2	1	1	1	1	0	4	3	4	2	2	3	3	1	2	3	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:111856042A>C	uc001pml.2	+	9	1302	c.1005A>C	c.(1003-1005)CAA>CAC	p.Q335H	DIXDC1_uc001pmm.2_Missense_Mutation_p.Q124H|DIXDC1_uc001pmn.2_Missense_Mutation_p.Q41H	NM_001037954	NP_001033043	Q155Q3	DIXC1_HUMAN	DIX domain containing 1 isoform a	335	Potential.				multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytosol|focal adhesion	actin binding|gamma-tubulin binding|signal transducer activity			ovary(1)	1		all_cancers(61;7.58e-15)|all_epithelial(67;5.42e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;2.99e-07)|BRCA - Breast invasive adenocarcinoma(274;6.72e-07)|all cancers(92;6.25e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0548)		CCGAGGAACAACTGGTGAGCT	0.343													4	33					0	0	1	0	0		C	111856042	C	C	111856042	3	2	82	1	0	0	0	0	1	0	0	0	4547	40	2	5	1061	5	DIXDC1	11	111856042	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	424913	111856042	23150474	778	51234											
FAM55A	120400	broad.mit.edu	37	chr11	114392898	114392898	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatgtgcatctccctgatgTtttctgtcttaataatcact	8	18	5	10	0	4	1	1	1	3	0	5	1	4	1	1	0	1	2	1	0	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:114392898T>G	uc001ppa.2	-	6	1427	c.1010A>C	c.(1009-1011)AAC>ACC	p.N337T	FAM55A_uc010rxd.1_Missense_Mutation_p.N186T	NM_152315	NP_689528	Q8N323	FA55A_HUMAN	hypothetical protein LOC120400	479						extracellular region					0		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;3.02e-06)|Epithelial(105;0.000144)|all cancers(92;0.00106)		CTCCCTGATGTTTTCTGTCTT	0.413													66	74					0	0	1	0	0		G	114392898	G	G	114392898	3	3	82	1	0	0	0	0	1	0	0	0	5598	1725	60	5	211	5	FAM55A	11	114392898	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2536856	114392898	20613618	779	51235											
APOA1	335	broad.mit.edu	37	chr11	116706799	116706799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcgtccacatgggcgcGcgcgcggtcgcgcatctcct	4	6	14	17	9	1	0	0	0	1	0	4	0	2	0	2	2	1	1	2	2	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:116706799G>A	uc001ppu.1	-	4	608	c.529C>T	c.(529-531)CGC>TGC	p.R177C	APOA1_uc001ppv.1_Missense_Mutation_p.R177C	NM_000039	NP_000030	P02647	APOA1_HUMAN	apolipoprotein A-I preproprotein	177	6.|10 X approximate tandem repeats.				Cdc42 protein signal transduction|cholesterol efflux|cholesterol homeostasis|cholesterol import|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|negative regulation of cytokine secretion involved in immune response|negative regulation of interleukin-1 beta secretion|negative regulation of very-low-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|phospholipid efflux|platelet activation|platelet degranulation|positive regulation of cholesterol esterification|positive regulation of hydrolase activity|protein stabilization|reverse cholesterol transport	endocytic vesicle|endoplasmic reticulum lumen|plasma membrane|spherical high-density lipoprotein particle|stored secretory granule|very-low-density lipoprotein particle	apolipoprotein A-I receptor binding|beta-amyloid binding|cholesterol binding|cholesterol transporter activity|enzyme binding|high-density lipoprotein particle receptor binding|identical protein binding|phosphatidylcholine-sterol O-acyltransferase activator activity|phospholipid binding				0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.59e-05)|all cancers(92;0.000162)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		ACATGGGCGCGCGCGCGGTCG	0.716													21	15					0	0	1	0	0		A	116706799	A	A	116706799	3	1	82	1	0	0	0	0	1	0	0	0	780	1087	38	1	278	1	APOA1	11	116706799	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	2313901	116706799	18299717	780	51236											
SIDT2	51092	broad.mit.edu	37	chr11	117060709	117060709	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggacatctgctactacaaCttcctctgcgcccacccact	9	9	5	18	1	2	0	0	0	2	0	3	1	3	1	3	1	5	1	3	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:117060709C>T	uc001pqh.1	+	16	1502	c.1461C>T	c.(1459-1461)AAC>AAT	p.N487N	SIDT2_uc010rxe.1_Silent_p.N487N|SIDT2_uc001pqg.2_Silent_p.N508N|SIDT2_uc001pqi.1_Silent_p.N484N|SIDT2_uc001pqj.1_5'Flank	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	487	Extracellular (Potential).					integral to membrane|lysosomal membrane					0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		GCTACTACAACTTCCTCTGCG	0.622													5	79					0	0	1	0	0		T	117060709	T	T	117060709	2	4	82	1	0	0	0	0	0	0	0	1	14328	564	20	4		4	SIDT2	11	117060709	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	353910	117060709	17945807	781	51237											
DSCAML1	57453	broad.mit.edu	37	chr11	117389449	117389449	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggttgaccaccttctcgctGaaggacgagacgatgcgggg	8	7	16	10	4	1	3	0	2	1	1	2	6	1	4	2	4	1	2	2	4	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:117389449G>A	uc001prh.1	-	7	1424	c.1422C>T	c.(1420-1422)TTC>TTT	p.F474F	DSCAML1_uc001pri.1_Silent_p.F278F	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	414	Extracellular (Potential).|Ig-like C2-type 5.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CCTTCTCGCTGAAGGACGAGA	0.682													3	29					0	0	1	0	0		A	117389449	A	A	117389449	2	1	82	1	0	0	0	0	0	0	0	1	4775	1281	45	4		4	DSCAML1	11	117389449	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	328740	117389449	17617067	782	51238											
DSCAML1	57453	broad.mit.edu	37	chr11	117391952	117391952	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaggtgatgagcagcgtcTcgttgctgagcccgcggatg	6	8	16	11	5	1	3	0	3	1	0	2	5	1	4	2	2	4	3	2	2	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:117391952T>A	uc001prh.1	-	6	1288	c.1286A>T	c.(1285-1287)GAG>GTG	p.E429V	DSCAML1_uc001pri.1_Missense_Mutation_p.E233V	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	369	Extracellular (Potential).|Ig-like C2-type 4.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GAGCAGCGTCTCGTTGCTGAG	0.637													34	117					0	0	1	0	0		A	117391952	A	A	117391952	3	1	82	1	0	0	0	0	1	0	0	0	4775	1551	54	5	5167	5	DSCAML1	11	117391952	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2503	117391952	17614564	783	51239											
TBCEL	219899	broad.mit.edu	37	chr11	120957516	120957516	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgatcactaaatatgggaAgttggagcctttggcagaag	13	10	12	6	0	1	2	1	1	0	1	1	4	1	4	1	3	1	2	1	3	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:120957516A>C	uc009zay.2	+	8	1064	c.986A>C	c.(985-987)AAG>ACG	p.K329T	TBCEL_uc001pxo.2_Missense_Mutation_p.K329T|TBCEL_uc001pxp.2_Missense_Mutation_p.K185T|TBCEL_uc001pxq.2_RNA	NM_001130047	NP_001123519	Q5QJ74	TBCEL_HUMAN	tubulin folding cofactor E-like	329						cytoplasm|cytoskeleton				skin(1)	1		Breast(109;0.00526)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.89e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.121)		AAATATGGGAAGTTGGAGCCT	0.433													12	34					0	0	1	0	0		C	120957516	C	C	120957516	3	2	82	1	0	0	0	0	1	0	0	0	15660	72	3	5	1012	5	TBCEL	11	120957516	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3565564	120957516	14049000	784	51240											
TECTA	7007	broad.mit.edu	37	chr11	121039448	121039448	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccaagatggctctctacaAaaacgcctcctacaaacatc	15	7	4	15	1	1	1	0	0	1	1	4	1	2	1	3	1	4	1	3	1	6	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:121039448A>G	uc010rzo.1	+	19	5813	c.5813A>G	c.(5812-5814)AAA>AGA	p.K1938R		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1938	ZP.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GCTCTCTACAAAAACGCCTCC	0.458													40	112					0	0	1	0	0		G	121039448	G	G	121039448	3	3	82	1	0	0	0	0	1	0	0	0	15772	14	1	3	5887	3	TECTA	11	121039448	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	81932	121039448	13967068	785	51241											
OR6T1	219874	broad.mit.edu	37	chr11	123814347	123814347	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaacagctccaggaaggAgaaattccgcaggaagaagt	16	4	12	9	1	0	2	0	0	0	2	2	5	2	4	2	3	3	3	2	3	5	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:123814347A>G	uc010sab.1	-	1	199	c.199T>C	c.(199-201)TCC>CCC	p.S67P		NM_001005187	NP_001005187	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		TCCAGGAAGGAGAAATTCCGC	0.493													34	142					0	0	1	0	0		G	123814347	G	G	123814347	3	3	82	1	0	0	0	0	1	0	0	0	11229	304	11	3	775	3	OR6T1	11	123814347	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2774899	123814347	11192169	786	51242											
SLC37A2	219855	broad.mit.edu	37	chr11	124952150	124952150	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactccccagggcgtggtcgAgttctctctgtgtctgctgt	3	13	12	13	2	3	0	0	0	3	0	6	1	4	0	2	2	1	2	2	2	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:124952150A>G	uc001qbn.2	+	10	1147	c.896A>G	c.(895-897)GAG>GGG	p.E299G	SLC37A2_uc010sau.1_Missense_Mutation_p.E299G|SLC37A2_uc010sav.1_5'Flank|SLC37A2_uc001qbp.2_5'Flank	NM_001145290	NP_001138762	Q8TED4	SPX2_HUMAN	solute carrier family 37 (glycerol-3-phosphate	299					carbohydrate transport|transmembrane transport	integral to membrane				ovary(2)	2	all_hematologic(175;0.215)	Breast(109;0.012)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.152)|all_lung(97;0.159)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0384)		GGCGTGGTCGAGTTCTCTCTG	0.468													8	151					0	0	1	0	0		G	124952150	G	G	124952150	3	3	82	1	0	0	0	0	1	0	0	0	14623	304	11	3	934	3	SLC37A2	11	124952150	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1137803	124952150	10054366	787	51243											
HYLS1	219844	broad.mit.edu	37	chr11	125769999	125769999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggtgtccgagagcagatgCtttgtcgagcagaaccccaa	10	7	14	10	2	0	3	0	0	0	3	2	5	1	3	3	2	4	3	3	2	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:125769999C>T	uc009zbv.2	+	4	1270	c.736C>T	c.(736-738)CTT>TTT	p.L246F	HYLS1_uc001qcx.3_Missense_Mutation_p.L246F|PUS3_uc001qcy.2_Intron	NM_145014	NP_659451	Q96M11	HYLS1_HUMAN	hydrolethalus syndrome 1	246						centrosome|nucleus				upper_aerodigestive_tract(1)	1	all_hematologic(175;0.177)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.131)|all_lung(97;0.139)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)		AGAGCAGATGCTTTGTCGAGC	0.468													16	67					0	0	1	0	0		T	125769999	T	T	125769999	3	4	82	1	0	0	0	0	1	0	0	0	7485	797	28	2	738	2	HYLS1	11	125769999	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	817849	125769999	9236517	788	51244											
ARHGAP32	9743	broad.mit.edu	37	chr11	128842931	128842931	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctgttaagtctacttggTgatgttgctccccagattca	7	15	8	11	0	2	2	1	1	1	1	4	2	4	2	3	1	2	3	3	1	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:128842931T>C	uc009zcp.2	-	21	3428	c.3428A>G	c.(3427-3429)CAC>CGC	p.H1143R	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.H102R|ARHGAP32_uc001qez.2_Missense_Mutation_p.H794R	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1143					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						GTCTACTTGGTGATGTTGCTC	0.463													22	271					0	0	1	0	0		C	128842931	C	C	128842931	3	2	82	1	0	0	0	0	1	0	0	0	881	1696	59	3	2843	3	ARHGAP32	11	128842931	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3072932	128842931	6163585	789	51245											
BARX2	8538	broad.mit.edu	37	chr11	129321257	129321257	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccagacccgccccaggAgttgccaataccctcttcgg	8	6	9	18	2	1	1	0	0	1	1	2	2	1	2	7	2	2	1	7	2	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:129321257A>C	uc001qfc.3	+	4	850	c.800A>C	c.(799-801)GAG>GCG	p.E267A		NM_003658	NP_003649	Q9UMQ3	BARX2_HUMAN	BarH-like homeobox 2	267											0	all_hematologic(175;0.0749)	Lung NSC(97;0.000383)|all_lung(97;0.000824)|Breast(109;0.000962)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.00929)|Lung(977;0.0245)|LUSC - Lung squamous cell carcinoma(976;0.0253)		CCGCCCCAGGAGTTGCCAATA	0.567													20	84					0	0	1	0	0		C	129321257	C	C	129321257	3	2	82	1	0	0	0	0	1	0	0	0	1317	304	11	5	814	5	BARX2	11	129321257	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	478326	129321257	5685259	790	51246											
TMEM45B	120224	broad.mit.edu	37	chr11	129727278	129727278	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgatgccaacctcatgtTcatcaccatgtgcttctgct	8	13	8	12	0	4	1	3	1	1	0	4	2	4	2	3	1	4	3	3	1	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:129727278T>G	uc001qfe.1	+	5	702	c.641T>G	c.(640-642)TTC>TGC	p.F214C	TMEM45B_uc001qff.1_Missense_Mutation_p.F214C	NM_138788	NP_620143	Q96B21	TM45B_HUMAN	transmembrane protein 45B	214	Helical; (Potential).					integral to membrane					0	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.012)|Lung(977;0.179)|LUSC - Lung squamous cell carcinoma(976;0.189)		AACCTCATGTTCATCACCATG	0.493													17	145					0	0	1	0	0		G	129727278	G	G	129727278	3	3	82	1	0	0	0	0	1	0	0	0	16195	1783	62	5	655	5	TMEM45B	11	129727278	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	406021	129727278	5279238	791	51247											
ZBTB44	29068	broad.mit.edu	37	chr11	130131610	130131610	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttggtgcgaaagaaatcActgcaagctgctagtaccac	13	9	10	9	1	1	1	1	0	0	1	1	2	1	1	1	1	5	5	1	1	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:130131610A>C	uc001qga.2	-	2	553	c.159T>G	c.(157-159)AGT>AGG	p.S53R	ZBTB44_uc001qgb.3_Missense_Mutation_p.S53R|ZBTB44_uc001qfx.2_RNA|ZBTB44_uc001qgc.1_Missense_Mutation_p.S53R|ZBTB44_uc001qfz.2_Missense_Mutation_p.S53R	NM_014155	NP_054874	Q8NCP5	ZBT44_HUMAN	zinc finger and BTB domain containing 44	53	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0192)|Lung(977;0.235)		GAAAGAAATCACTGCAAGCTG	0.428													18	129					0	0	1	0	0		C	130131610	C	C	130131610	3	2	82	1	0	0	0	0	1	0	0	0	17570	156	6	5	1222	5	ZBTB44	11	130131610	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	404332	130131610	4874906	792	51248											
NCAPD3	23310	broad.mit.edu	37	chr11	134026966	134026966	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaatctcgccattcgacTcttgctccaaactgtatgaa	10	12	6	13	2	3	1	1	1	2	0	6	2	4	1	2	0	2	3	2	0	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr11:134026966T>C	uc001qhd.1	-	32	4805	c.4199A>G	c.(4198-4200)GAG>GGG	p.E1400G	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA|NCAPD3_uc001qhc.1_Missense_Mutation_p.E350G	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	1400					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		GCCATTCGACTCTTGCTCCAA	0.498													9	152					0	0	1	0	0		C	134026966	C	C	134026966	3	2	82	1	0	0	0	0	1	0	0	0	10225	1551	54	3	313	3	NCAPD3	11	134026966	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3895356	134026966	979550	793	51249											
KDM5A	5927	broad.mit.edu	37	chr12	461399	461399	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatattaaaataatcagacTtaaaattatctgccatctct	16	14	3	8	0	3	1	1	0	2	1	4	1	3	1	1	0	1	1	1	0	7	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:461399T>C	uc001qif.1	-	9	1484	c.1121A>G	c.(1120-1122)AAG>AGG	p.K374R	KDM5A_uc001qie.1_Missense_Mutation_p.K374R|KDM5A_uc010sdn.1_Missense_Mutation_p.K333R|KDM5A_uc010sdo.1_Intron	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	374					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						ATAATCAGACTTAAAATTATC	0.413			T 	NUP98	AML								13	69					0	0	1	0	0		C	461399	C	C	461399	3	2	82	1	0	0	0	0	1	0	0	0	8149	1609	56	3	4031	3	KDM5A	12	461399	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08		461399	133390496	794	51250											
WNK1	65125	broad.mit.edu	37	chr12	1005569	1005569	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagatcactgacacaaagaaAgaaggaccagtggcatctcc	17	5	9	10	0	2	4	1	1	1	3	3	5	2	5	2	2	0	1	2	2	4	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:1005569A>T	uc001qio.3	+	24	6423	c.5916A>T	c.(5914-5916)AAA>AAT	p.K1972N	WNK1_uc001qip.3_Missense_Mutation_p.K1724N|WNK1_uc001qir.3_Missense_Mutation_p.K1145N	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1972					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			ACACAAAGAAAGAAGGACCAG	0.448													28	113					0	0	1	0	0		T	1005569	T	T	1005569	3	4	82	1	0	0	0	0	1	0	0	0	17403	69	3	5	7512	5	WNK1	12	1005569	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	544170	1005569	132846326	795	51251											
ADIPOR2	79602	broad.mit.edu	37	chr12	1893087	1893087	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagtggaatcattcctaccTtgcactatgtcatctcggag	9	13	9	10	1	3	1	2	1	1	0	5	3	4	3	2	2	2	1	2	2	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:1893087T>G	uc001qjm.2	+	7	1077	c.880T>G	c.(880-882)TTG>GTG	p.L294V	ADIPOR2_uc001qjn.2_Missense_Mutation_p.L294V	NM_024551	NP_078827	Q86V24	ADR2_HUMAN	adiponectin receptor 2	294	Helical; Name=5; (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane	hormone binding|receptor activity				0	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000382)			CATTCCTACCTTGCACTATGT	0.507													11	48					0	0	1	0	0		G	1893087	G	G	1893087	3	3	82	1	0	0	0	0	1	0	0	0	319	1606	56	5	902	5	ADIPOR2	12	1893087	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	887518	1893087	131958808	796	51252											
ITFG2	55846	broad.mit.edu	37	chr12	2930009	2930009	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacactgggtcccctccTgcctctgaagggcccacgga	8	6	12	15	1	1	1	0	1	1	0	3	3	3	3	5	4	1	0	5	4	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:2930009T>A	uc001qlb.1	+	6	730	c.666T>A	c.(664-666)CCT>CCA	p.P222P	ITFG2_uc010seb.1_Silent_p.P45P|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	222											0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GGTCCCCTCCTGCCTCTGAAG	0.582													9	26					0	0	1	0	0		A	2930009	A	A	2930009	2	1	82	1	0	0	0	0	0	0	0	1	7886	1567	55	5		5	ITFG2	12	2930009	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1036922	2930009	130921886	797	51253											
GALNT8	26290	broad.mit.edu	37	chr12	4874640	4874640	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgacagaccctggcaaggcGgagaagcccaccttagaacc	12	4	11	14	1	0	4	0	1	0	3	0	5	0	4	4	3	2	1	4	3	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:4874640G>C	uc001qne.1	+	10	1781	c.1689G>C	c.(1687-1689)GCG>GCC	p.A563A		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	563	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						CTGGCAAGGCGGAGAAGCCCA	0.463													5	53					0	0	1	0	0		C	4874640	C	C	4874640	2	2	82	1	0	0	0	0	0	0	0	1	6234	1103	39	5		5	GALNT8	12	4874640	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1944631	4874640	128977255	798	51254											
VWF	7450	broad.mit.edu	37	chr12	6103171	6103171	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtggctggagccaggaccTtgtggcattcagcaaacagt	10	9	13	9	0	1	0	1	0	0	0	1	2	1	2	2	4	3	3	2	4	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:6103171T>A	uc001qnn.1	-	37	6705	c.6455A>T	c.(6454-6456)AAG>ATG	p.K2152M	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2152	VWFD 4.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	AGCCAGGACCTTGTGGCATTC	0.597													14	41					0	0	1	0	0		A	6103171	A	A	6103171	3	1	82	1	0	0	0	0	1	0	0	0	17272	1609	56	5	2050	5	VWF	12	6103171	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1228531	6103171	127748724	799	51255											
VWF	7450	broad.mit.edu	37	chr12	6125799	6125799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcttccatactgcagcaCtgacacctgagtgagacgag	11	8	11	11	1	0	3	0	3	0	1	1	6	1	3	2	0	4	3	2	0	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:6125799C>T	uc001qnn.1	-	30	5444	c.5194G>A	c.(5194-5196)GTG>ATG	p.V1732M	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1732	VWFA 3; main binding site for collagens type I and III.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	TACTGCAGCACTGACACCTGA	0.527													22	52					0	0	1	0	0		T	6125799	T	T	6125799	3	4	82	1	0	0	0	0	1	0	0	0	17272	565	20	4	3339	4	VWF	12	6125799	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	22628	6125799	127726096	800	51256											
VWF	7450	broad.mit.edu	37	chr12	6128379	6128379	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcttcttcttcaggcccTggacgtagcggacaaagttc	7	12	9	13	2	4	0	1	0	3	0	5	2	4	2	2	3	1	2	2	3	2	6	rs63749069		TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:6128379T>C	uc001qnn.1	-	28	4455	c.4205A>G	c.(4204-4206)CAG>CGG	p.Q1402R	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1402	VWFA 1; binding site for platelet glycoprotein Ib.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CTTCAGGCCCTGGACGTAGCG	0.607													23	76					0	0	1	0	0		C	6128379	C	C	6128379	3	2	82	1	0	0	0	0	1	0	0	0	17272	1580	55	3	4336	3	VWF	12	6128379	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2580	6128379	127723516	801	51257											
CD163L1	283316	broad.mit.edu	37	chr12	7531781	7531781	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaacaacttcagcaatgtTcattccccagccattagcac	13	9	5	14	0	2	0	2	0	0	0	3	0	3	0	3	0	5	4	3	0	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:7531781T>G	uc001qsy.2	-	9	2190	c.2164A>C	c.(2164-2166)AAC>CAC	p.N722H	CD163L1_uc010sge.1_Missense_Mutation_p.N732H	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	722	SRCR 7.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						TCAGCAATGTTCATTCCCCAG	0.493													12	96					0	0	1	0	0		G	7531781	G	G	7531781	3	3	82	1	0	0	0	0	1	0	0	0	2971	1783	62	5	2241	5	CD163L1	12	7531781	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1403402	7531781	126320114	802	51258											
CLEC4C	170482	broad.mit.edu	37	chr12	7894101	7894101	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttggacagcctcttgacagTtttgctatacataaaattgt	11	15	7	8	0	1	1	0	1	1	0	1	2	1	2	1	1	3	2	1	1	4	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:7894101T>G	uc001qtg.1	-	3	325	c.151A>C	c.(151-153)ACT>CCT	p.T51P	CLEC4C_uc001qth.1_Missense_Mutation_p.T51P|CLEC4C_uc001qti.1_Missense_Mutation_p.T20P	NM_130441	NP_569708	Q8WTT0	CLC4C_HUMAN	C-type lectin domain family 4, member C isoform	51	Extracellular (Potential).				innate immune response	integral to membrane	sugar binding			ovary(2)|skin(1)	3				Kidney(36;0.0915)		CTCTTGACAGTTTTGCTATAC	0.403													18	59					0	0	1	0	0		G	7894101	G	G	7894101	3	3	82	1	0	0	0	0	1	0	0	0	3516	1725	60	5	506	5	CLEC4C	12	7894101	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	362320	7894101	125957794	803	51259											
PZP	5858	broad.mit.edu	37	chr12	9318719	9318719	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttcagggactggccctgaActttgttcattatttaaggg	8	15	11	7	0	2	1	2	1	0	0	2	2	2	2	1	3	1	2	1	3	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:9318719A>C	uc001qvl.2	-	18	2216	c.2187T>G	c.(2185-2187)AGT>AGG	p.S729R	PZP_uc009zgl.2_Missense_Mutation_p.S598R|PZP_uc010sgo.1_RNA|PZP_uc009zgm.1_Missense_Mutation_p.S61R	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						CTGGCCCTGAACTTTGTTCAT	0.413													34	61					0	0	1	0	0		C	9318719	C	C	9318719	3	2	82	1	0	0	0	0	1	0	0	0	12894	40	2	5	2337	5	PZP	12	9318719	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1424618	9318719	124533176	804	51260											
TAS2R50	259296	broad.mit.edu	37	chr12	11139032	11139032	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtttgccacaagaagaTgacaaaccaaaaatatcaaa	20	7	5	9	0	1	3	1	1	0	2	1	3	1	3	3	0	2	1	3	0	7	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:11139032T>C	uc001qzl.2	-	1	480	c.428A>G	c.(427-429)CAT>CGT	p.H143R	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176890	NP_795371	P59544	T2R50_HUMAN	taste receptor, type 2, member 50	143	Helical; Name=4; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			ovary(2)	2						CACAAGAAGATGACAAACCAA	0.373													59	98					0	0	1	0	0		C	11139032	C	C	11139032	3	2	82	1	0	0	0	0	1	0	0	0	15609	1464	51	3	475	3	TAS2R50	12	11139032	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1820313	11139032	122712863	805	51261											
PRB1	5542	broad.mit.edu	37	chr12	11506347	11506347	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaggaggtgggggaccttgGggctggttgcctccttgtgg	3	10	21	7	0	0	0	0	0	0	0	1	3	1	3	3	9	1	2	3	9	0	3	rs150076567	by1000genomes	TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:11506347G>A	uc001qzw.1	-	4	727	c.690C>T	c.(688-690)CCC>CCT	p.P230P	PRB1_uc001qzu.1_Intron|PRB1_uc001qzv.1_Intron	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	291	12.|15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].		Missing (in clone CP-4).|Missing (in clone CP-5).			extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGGGACCTTGGGGCTGGTTGC	0.602													6	87					0	0	1	0	0		A	11506347	A	A	11506347	2	1	82	1	0	0	0	0	0	0	0	1	12464	1219	43	4		4	PRB1	12	11506347	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	367315	11506347	122345548	806	51262											
DUSP16	80824	broad.mit.edu	37	chr12	12640054	12640054	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaatgagactcggggataAagtcaggctttggacaggta	13	8	15	5	1	1	1	1	1	0	1	2	5	1	4	0	6	0	2	0	6	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:12640054A>C	uc001rao.1	-	5	1231	c.599T>G	c.(598-600)TTT>TGT	p.F200C	DUSP16_uc001ran.1_Missense_Mutation_p.F52C	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	200					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		CTCGGGGATAAAGTCAGGCTT	0.433													5	86					0	0	1	0	0		C	12640054	C	C	12640054	3	2	82	1	0	0	0	0	1	0	0	0	4822	14	1	5	1410	5	DUSP16	12	12640054	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1133707	12640054	121211841	807	51263											
GPR19	2842	broad.mit.edu	37	chr12	12814254	12814254	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttttggccatggaagggaTttctgaaatgccaacgtagt	11	12	12	6	1	1	1	0	1	1	0	1	3	1	3	2	3	2	2	2	3	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:12814254T>G	uc001rar.3	-	2	1322	c.1129A>C	c.(1129-1131)ATC>CTC	p.I377L	GPR19_uc001raq.2_Missense_Mutation_p.I377L	NM_006143	NP_006134	Q15760	GPR19_HUMAN	G protein-coupled receptor 19	377	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.048)		ATGGAAGGGATTTCTGAAATG	0.398													9	81					0	0	1	0	0		G	12814254	G	G	12814254	3	3	82	1	0	0	0	0	1	0	0	0	6694	1493	52	5	122	5	GPR19	12	12814254	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	174200	12814254	121037641	808	51264											
GPR19	2842	broad.mit.edu	37	chr12	12814276	12814276	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgaaatgccaacgtagttTtttttggccatccttgaact	9	16	7	9	1	1	2	0	2	1	0	2	2	2	2	3	1	3	2	3	1	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:12814276T>G	uc001rar.3	-	2	1300	c.1107A>C	c.(1105-1107)AAA>AAC	p.K369N	GPR19_uc001raq.2_Missense_Mutation_p.K369N	NM_006143	NP_006134	Q15760	GPR19_HUMAN	G protein-coupled receptor 19	369	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.048)		CAACGTAGTTTTTTTTGGCCA	0.393													7	89					0	0	1	0	0		G	12814276	G	G	12814276	3	3	82	1	0	0	0	0	1	0	0	0	6694	1838	64	5	144	5	GPR19	12	12814276	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	22	12814276	121037619	809	51265											
ATF7IP	55729	broad.mit.edu	37	chr12	14649259	14649259	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcacagtgcatcaccgAccaccacaagtgcatactgt	12	7	7	15	1	2	0	2	0	0	0	2	1	2	0	3	0	4	3	3	0	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:14649259A>C	uc001rbw.2	+	14	3533	c.3375A>C	c.(3373-3375)CGA>CGC	p.R1125R	ATF7IP_uc001rbx.2_Silent_p.R1124R|ATF7IP_uc001rby.3_Silent_p.R1125R|ATF7IP_uc001rca.2_Silent_p.R1125R	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1125					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						TGCATCACCGACCACCACAAG	0.388													5	47					0	0	1	0	0		C	14649259	C	C	14649259	2	2	82	1	0	0	0	0	0	0	0	1	1088	262	10	5		5	ATF7IP	12	14649259	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1834983	14649259	119202636	810	51266											
PLBD1	79887	broad.mit.edu	37	chr12	14706297	14706297	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtccattacatttttgacTtgtactgtcttttcagcagg	7	19	7	8	0	2	1	1	1	1	0	3	1	3	1	1	1	3	2	1	1	2	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:14706297T>G	uc001rcc.1	-	2	326	c.165A>C	c.(163-165)CAA>CAC	p.Q55H		NM_024829	NP_079105	Q6P4A8	PLBL1_HUMAN	phospholipase B domain containing 1	55					lipid catabolic process	extracellular region	hydrolase activity				0						CATTTTTGACTTGTACTGTCT	0.433													28	80					0	0	1	0	0		G	14706297	G	G	14706297	3	3	82	1	0	0	0	0	1	0	0	0	12044	1606	56	5	1536	5	PLBD1	12	14706297	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	57038	14706297	119145598	811	51267											
STRAP	11171	broad.mit.edu	37	chr12	16055855	16055855	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttttacttatagaagaAattgcttcagagaattcaga	14	17	6	4	0	2	4	2	0	0	4	2	5	2	4	0	0	2	1	0	0	6	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:16055855A>C	uc001rdc.3	+	10	1350	c.996A>C	c.(994-996)GAA>GAC	p.E332D	STRAP_uc010shw.1_Missense_Mutation_p.E345D|STRAP_uc001rdd.3_Missense_Mutation_p.E238D	NM_007178	NP_009109	Q9Y3F4	STRAP_HUMAN	serine/threonine kinase receptor associated	332				E -> A (in Ref. 6; AAV38848).	mRNA processing|RNA splicing	cell junction|mitochondrion|spliceosomal complex	identical protein binding			skin(1)	1		Hepatocellular(102;0.121)				TTATAGAAGAAATTGCTTCAG	0.308													7	44					0	0	1	0	0		C	16055855	C	C	16055855	3	2	82	1	0	0	0	0	1	0	0	0	15351	11	1	5	1034	5	STRAP	12	16055855	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1349558	16055855	117796040	812	51268											
PLEKHA5	54477	broad.mit.edu	37	chr12	19501386	19501386	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagttaacaacagtggcagaAgttgatgaatctaatggaga	16	9	12	4	0	1	4	0	2	1	2	1	6	1	4	0	2	2	3	0	2	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:19501386A>C	uc001reb.2	+	19	2540	c.2454A>C	c.(2452-2454)GAA>GAC	p.E818D	PLEKHA5_uc010sie.1_Missense_Mutation_p.E979D|PLEKHA5_uc001rea.2_Missense_Mutation_p.E876D|PLEKHA5_uc009zin.2_Missense_Mutation_p.E576D|PLEKHA5_uc010sif.1_Missense_Mutation_p.E807D|PLEKHA5_uc010sig.1_Missense_Mutation_p.E800D|PLEKHA5_uc010sih.1_Missense_Mutation_p.E773D|PLEKHA5_uc001rec.1_Missense_Mutation_p.E627D|PLEKHA5_uc009zio.2_Intron	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	818							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					CAGTGGCAGAAGTTGATGAAT	0.353													21	80					0	0	1	0	0		C	19501386	C	C	19501386	3	2	82	1	0	0	0	0	1	0	0	0	12078	69	3	5	2846	5	PLEKHA5	12	19501386	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3445531	19501386	114350509	813	51269											
RECQL	5965	broad.mit.edu	37	chr12	21628511	21628511	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccaaatgcaacagttgcCactactacctgaaatatttt	15	12	4	10	0	0	1	0	1	0	0	0	1	0	1	3	0	6	2	3	0	7	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:21628511C>T	uc001rex.2	-	11	1455	c.1107G>A	c.(1105-1107)GTG>GTA	p.V369V	RECQL_uc001rey.2_Silent_p.V369V	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	369	Helicase C-terminal.				DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						CAACAGTTGCCACTACTACCT	0.308								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					8	70					0	0	1	0	0		T	21628511	T	T	21628511	2	4	82	1	0	0	0	0	0	0	0	1	13226	581	21	4		4	RECQL	12	21628511	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	2127125	21628511	112223384	814	51270											
ITPR2	3709	broad.mit.edu	37	chr12	26640027	26640027	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtggaccagatgtcatcAattcattgtcatcgtccctt	8	15	7	11	2	4	1	4	0	0	1	7	2	5	2	2	1	0	0	2	1	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:26640027A>G	uc001rhg.2	-	40	5945	c.5528T>C	c.(5527-5529)TTG>TCG	p.L1843S	ITPR2_uc009zjg.1_5'UTR	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1843	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					AGATGTCATCAATTCATTGTC	0.368													27	109					0	0	1	0	0		G	26640027	G	G	26640027	3	3	82	1	0	0	0	0	1	0	0	0	7937	131	5	3	2649	3	ITPR2	12	26640027	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5011516	26640027	107211868	815	51271											
FGD4	121512	broad.mit.edu	37	chr12	32778593	32778593	+	Silent	SNP	T	C	C																															ttcttccctttttagactgcTgagctagggaaaagagcccc																										TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:32778593T>C	uc001rkz.2	+	14	2118	c.1641T>C	c.(1639-1641)GCT>GCC	p.A547A	FGD4_uc001rlc.2_Silent_p.A632A|FGD4_uc001rky.2_Silent_p.A299A|FGD4_uc001rla.2_Silent_p.A203A|FGD4_uc010ske.1_Silent_p.A659A|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	547					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					TTTAGACTGCTGAGCTAGGGA	0.338													12	71					0	0	1	0	0		C	32778593	C	C	32778593	2	2	82	1	0	0	0	0	0	0	0	1	5849	1567	55	3		3	FGD4	12	32778593	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	6138566	32778593	101073302	816	51272	96	2									
FGD4	121512	broad.mit.edu	37	chr12	32778598	32778598	+	Missense_Mutation	SNP	T	C	C																															ccctttttagactgctgagcTagggaaaagagccccaagat																										TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:32778598T>C	uc001rkz.2	+	14	2123	c.1646T>C	c.(1645-1647)CTA>CCA	p.L549P	FGD4_uc001rlc.2_Missense_Mutation_p.L634P|FGD4_uc001rky.2_Missense_Mutation_p.L301P|FGD4_uc001rla.2_Missense_Mutation_p.L205P|FGD4_uc010ske.1_Missense_Mutation_p.L661P|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	549					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					ACTGCTGAGCTAGGGAAAAGA	0.333													13	82					0	0	1	0	0		C	32778598	C	C	32778598	3	2	82	1	0	0	0	0	1	0	0	0	5849	1522	53	3	1692	3	FGD4	12	32778598	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5	32778598	101073297	817	51273	96	2									
CNTN1	1272	broad.mit.edu	37	chr12	41327555	41327555	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaatgccaagcactgctgAgattagcacctctggggctg	10	8	11	12	0	1	1	0	1	1	1	1	2	1	1	3	2	4	4	3	2	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:41327555A>C	uc001rmm.1	+	9	973	c.860A>C	c.(859-861)GAG>GCG	p.E287A	CNTN1_uc009zjy.1_Missense_Mutation_p.E287A|CNTN1_uc001rmn.1_Missense_Mutation_p.E276A|CNTN1_uc001rmo.2_Missense_Mutation_p.E287A	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	287	Ig-like C2-type 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				AGCACTGCTGAGATTAGCACC	0.408													10	91					0	0	1	0	0		C	41327555	C	C	41327555	3	2	82	1	0	0	0	0	1	0	0	0	3643	304	11	5	890	5	CNTN1	12	41327555	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	8548957	41327555	92524340	818	51274											
CNTN1	1272	broad.mit.edu	37	chr12	41421690	41421690	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaaggatcatcagttcAgtaaggtctggttcacgcta	10	11	9	11	1	5	0	4	0	1	0	6	1	6	1	2	3	0	4	2	3	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:41421690A>C	uc001rmm.1	+	22	2855	c.2742A>C	c.(2740-2742)TCA>TCC	p.S914S	CNTN1_uc001rmn.1_Silent_p.S903S	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	914	Fibronectin type-III 4.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				TCATCAGTTCAGTAAGGTCTG	0.398													28	56					0	0	1	0	0		C	41421690	C	C	41421690	2	2	82	1	0	0	0	0	0	0	0	1	3643	175	7	5		5	CNTN1	12	41421690	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	94135	41421690	92430205	819	51275											
TWF1	5756	broad.mit.edu	37	chr12	44191514	44191514	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattatacatctcttaccaaCtgcacatagttgagctgtct	11	14	5	11	0	2	1	0	1	2	0	3	1	2	1	1	0	5	3	1	0	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:44191514C>T	uc001rob.2	-	7	757	c.729G>A	c.(727-729)CAG>CAA	p.Q243Q	TWF1_uc001rnz.2_Silent_p.Q104Q|TWF1_uc001roa.2_Silent_p.Q236Q|TWF1_uc001roc.2_Silent_p.Q104Q	NM_002822	NP_002813	Q12792	TWF1_HUMAN	twinfilin 1	202	ADF-H 2.					actin cytoskeleton|cytoplasm	actin binding|protein tyrosine kinase activity			stomach(1)	1	all_cancers(12;0.00125)	Lung NSC(34;0.0804)|all_lung(34;0.181)		GBM - Glioblastoma multiforme(48;0.0474)		CTCTTACCAACTGCACATAGT	0.333													10	111					0	0	1	0	0		T	44191514	T	T	44191514	2	4	82	1	0	0	0	0	0	0	0	1	16807	564	20	4		4	TWF1	12	44191514	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	2769824	44191514	89660381	820	51276											
HDAC7	51564	broad.mit.edu	37	chr12	48183070	48183070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacaatgaggatcttgctggCcttgctctgctgttgcagct	6	14	11	10	0	2	1	0	1	2	0	2	2	2	2	1	2	6	6	1	2	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:48183070C>T	uc010slo.1	-	19	2404	c.2209G>A	c.(2209-2211)GCC>ACC	p.A737T	HDAC7_uc009zku.2_RNA|HDAC7_uc001rqe.2_Missense_Mutation_p.A171T|HDAC7_uc001rqj.3_Missense_Mutation_p.A700T|HDAC7_uc001rqk.3_Missense_Mutation_p.A720T|HDAC7_uc010slp.1_5'Flank	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	698	Histone deacetylase.				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		ATCTTGCTGGCCTTGCTCTGC	0.582													15	157					0	0	1	0	0		T	48183070	T	T	48183070	3	4	82	1	0	0	0	0	1	0	0	0	7028	739	26	2	798	2	HDAC7	12	48183070	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	3991556	48183070	85668825	821	51277											
OR10AD1	121275	broad.mit.edu	37	chr12	48596600	48596600	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaatgaaatatactcgagaAagatgccattgatcagccca	16	8	9	8	1	1	4	1	2	0	2	2	6	1	5	2	1	3	0	2	1	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:48596600A>C	uc001rrl.1	-	1	476	c.476T>G	c.(475-477)TTT>TGT	p.F159C		NM_001004134	NP_001004134	Q8NGE0	O10AD_HUMAN	olfactory receptor, family 10, subfamily AD,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ATACTCGAGAAAGATGCCATT	0.502													3	31					0	0	1	0	0		C	48596600	C	C	48596600	3	2	82	1	0	0	0	0	1	0	0	0	10915	14	1	5	481	5	OR10AD1	12	48596600	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	413530	48596600	85255295	822	51278											
OR10AD1	121275	broad.mit.edu	37	chr12	48597066	48597066	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgtcactatgctgccatTccttagcatctggggcctgt	5	14	9	13	1	2	0	1	0	1	0	4	0	4	0	4	2	3	2	4	2	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:48597066T>C	uc001rrl.1	-	1	10	c.10A>G	c.(10-12)AAT>GAT	p.N4D		NM_001004134	NP_001004134	Q8NGE0	O10AD_HUMAN	olfactory receptor, family 10, subfamily AD,	4	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ATGCTGCCATTCCTTAGCATC	0.522													5	74					0	0	1	0	0		C	48597066	C	C	48597066	3	2	82	1	0	0	0	0	1	0	0	0	10915	1783	62	3	947	3	OR10AD1	12	48597066	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	466	48597066	85254829	823	51279											
MLL2	8085	broad.mit.edu	37	chr12	49444192	49444192	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catctgagacccccactaccTtccctatgggactcaacggg	9	8	8	16	1	2	1	1	1	1	1	3	3	3	2	4	2	2	0	4	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:49444192T>G	uc001rta.3	-	11	3179	c.3179A>C	c.(3178-3180)AAG>ACG	p.K1060T		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1060	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CCCCACTACCTTCCCTATGGG	0.577			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			4	28					0	0	1	0	0		G	49444192	G	G	49444192	3	3	82	1	0	0	0	0	1	0	0	0	9639	1609	56	5	13610	5	MLL2	12	49444192	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	847126	49444192	84407703	824	51280											
FMNL3	91010	broad.mit.edu	37	chr12	50050607	50050607	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggagggaaggaactcaccTtggattcttgttattgaggc	9	11	15	6	0	2	1	1	1	1	0	2	5	2	5	1	6	1	1	1	6	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:50050607T>G	uc001ruv.1	-	8	1024	c.790A>C	c.(790-792)AGG>CGG	p.R264R	FMNL3_uc001ruw.1_Silent_p.R213R|FMNL3_uc001ruu.1_Silent_p.R114R	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1	264	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						GGAACTCACCTTGGATTCTTG	0.522													8	84					0	0	1	0	0		G	50050607	G	G	50050607	2	3	82	1	0	0	0	0	0	0	0	1	5967	1623	56	5		5	FMNL3	12	50050607	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	606415	50050607	83801288	825	51281											
RACGAP1	29127	broad.mit.edu	37	chr12	50388012	50388012	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctacagatagcatggataTcatccactttgctgaggagg	11	10	12	8	0	1	2	1	1	0	1	2	4	2	4	1	4	3	3	1	4	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:50388012T>C	uc001rvt.2	-	14	1551	c.1241A>G	c.(1240-1242)GAT>GGT	p.D414G	RACGAP1_uc009zlm.1_Missense_Mutation_p.D414G|RACGAP1_uc001rvs.2_Missense_Mutation_p.D414G|RACGAP1_uc001rvu.2_Missense_Mutation_p.D414G	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1	414	Rho-GAP.				blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						AGCATGGATATCATCCACTTT	0.453													14	181					0	0	1	0	0		C	50388012	C	C	50388012	3	2	82	1	0	0	0	0	1	0	0	0	13002	1435	50	3	681	3	RACGAP1	12	50388012	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	337405	50388012	83463883	826	51282											
KRT6A	3853	broad.mit.edu	37	chr12	52884661	52884661	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatcatacaaggctctcAggaagttgatctcgtctgtg	9	12	10	10	1	4	1	2	1	3	0	6	2	4	2	0	2	2	3	0	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:52884661A>G	uc001sam.2	-	4	1102	c.893T>C	c.(892-894)CTG>CCG	p.L298P		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	298	Coil 1B.|Rod.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		CAAGGCTCTCAGGAAGTTGAT	0.493													9	98					0	0	1	0	0		G	52884661	G	G	52884661	3	3	82	1	0	0	0	0	1	0	0	0	8496	188	7	3	825	3	KRT6A	12	52884661	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2496649	52884661	80967234	827	51283											
AAAS	8086	broad.mit.edu	37	chr12	53702131	53702131	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggagtgagcctctcccccaAgcctgtgggtaaggacaggt	8	8	14	11	0	1	1	0	1	1	0	2	3	1	3	4	4	2	1	4	4	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:53702131A>G	uc001scr.3	-	13	1347	c.1184T>C	c.(1183-1185)CTT>CCT	p.L395P	AAAS_uc001scs.3_Missense_Mutation_p.L362P	NM_015665	NP_056480	Q9NRG9	AAAS_HUMAN	achalasia, adrenocortical insufficiency,	395					carbohydrate metabolic process|glucose transport|nucleocytoplasmic transport|regulation of glucose transport|regulation of nucleocytoplasmic transport|transmembrane transport|viral reproduction	nuclear pore				ovary(1)	1						CTCTCCCCCAAGCCTGTGGGT	0.582													37	65					0	0	1	0	0		G	53702131	G	G	53702131	3	3	82	1	0	0	0	0	1	0	0	0	8	72	3	3	472	3	AAAS	12	53702131	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	817470	53702131	80149764	828	51284											
HOXC11	3227	broad.mit.edu	37	chr12	54369034	54369034	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgggaactggagcgagagtTtttcttcaacgtgtatatca	10	12	11	8	3	3	1	2	0	1	1	3	4	3	3	1	2	3	2	1	2	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:54369034T>C	uc001sem.2	+	2	868	c.752T>C	c.(751-753)TTT>TCT	p.F251S		NM_014212	NP_055027	O43248	HXC11_HUMAN	homeobox C11	251	Homeobox.				endoderm development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GAGCGAGAGTTTTTCTTCAAC	0.552			T	NUP98	AML								11	84					0	0	1	0	0		C	54369034	C	C	54369034	3	2	82	1	0	0	0	0	1	0	0	0	7326	1841	64	3	758	3	HOXC11	12	54369034	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	666903	54369034	79482861	829	51285											
NCKAP1L	3071	broad.mit.edu	37	chr12	54902229	54902229	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgattgtaacttacacctcAgtcattttacttctgtcacg	9	17	5	10	1	4	1	3	1	1	0	4	1	4	1	1	0	3	1	1	0	3	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:54902229A>C	uc001sgc.3	+	5	499	c.420A>C	c.(418-420)TCA>TCC	p.S140S	NCKAP1L_uc010sox.1_5'UTR|NCKAP1L_uc010soy.1_Silent_p.S90S	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	140					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						CTTACACCTCAGTCATTTTAC	0.443													29	262					0	0	1	0	0		C	54902229	C	C	54902229	2	2	82	1	0	0	0	0	0	0	0	1	10241	175	7	5		5	NCKAP1L	12	54902229	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	533195	54902229	78949666	830	51286											
PDE1B	5153	broad.mit.edu	37	chr12	54970356	54970356	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggggttctgcttctagcTttcagtggcgccagccctct	3	14	12	12	1	4	0	1	0	3	0	4	0	4	0	2	3	3	3	2	3	1	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:54970356T>G	uc001sgd.1	+	14	1544	c.1378T>G	c.(1378-1380)TTT>GTT	p.F460V	PDE1B_uc010soz.1_Missense_Mutation_p.F323V|PDE1B_uc010spa.1_Missense_Mutation_p.F419V|PDE1B_uc001sgf.2_Missense_Mutation_p.F323V|PDE1B_uc001sge.2_Missense_Mutation_p.F440V|PDE1B_uc009znq.2_Missense_Mutation_p.F256V	NM_000924	NP_000915	Q01064	PDE1B_HUMAN	phosphodiesterase 1B isoform 1	460	Catalytic (By similarity).				activation of phospholipase C activity|apoptosis|nerve growth factor receptor signaling pathway|platelet activation	cytosol|nucleus	3',5'-cyclic-AMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						TGCTTCTAGCTTTCAGTGGCG	0.572													29	25					0	0	1	0	0		G	54970356	G	G	54970356	3	3	82	1	0	0	0	0	1	0	0	0	11653	1623	56	5	1485	5	PDE1B	12	54970356	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	68127	54970356	78881539	831	51287											
OR9K2	441639	broad.mit.edu	37	chr12	55524397	55524397	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtatggtgctgtcttttTtatgtatctcactcctgaca	6	18	8	9	0	2	1	1	1	2	0	4	1	3	1	1	1	1	4	1	1	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:55524397T>G	uc010spe.1	+	1	845	c.845T>G	c.(844-846)TTT>TGT	p.F282C		NM_001005243	NP_001005243	Q8NGE7	OR9K2_HUMAN	olfactory receptor, family 9, subfamily K,	282	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						GCTGTCTTTTTTATGTATCTC	0.443													51	140					0	0	1	0	0		G	55524397	G	G	55524397	3	3	82	1	0	0	0	0	1	0	0	0	11273	1841	64	5	847	5	OR9K2	12	55524397	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	554041	55524397	78327498	832	51288											
OR10A7	121364	broad.mit.edu	37	chr12	55615481	55615481	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacccgcattatcataacaAttctgaggatgtcctctgcc	11	11	6	13	1	3	1	1	1	2	0	4	2	4	2	3	1	2	1	3	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:55615481A>C	uc010spf.1	+	1	673	c.673A>C	c.(673-675)ATT>CTT	p.I225L		NM_001005280	NP_001005280	Q8NGE5	O10A7_HUMAN	olfactory receptor, family 10, subfamily A,	225	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)	4						TATCATAACAATTCTGAGGAT	0.463													16	65					0	0	1	0	0		C	55615481	C	C	55615481	3	2	82	1	0	0	0	0	1	0	0	0	10914	101	4	5	675	5	OR10A7	12	55615481	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	91084	55615481	78236414	833	51289											
OR6C68	403284	broad.mit.edu	37	chr12	55886425	55886425	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtatctcaactgggaacaaAataataacgtataatgcatg	18	10	7	6	1	1	0	1	0	1	0	2	1	1	1	0	1	4	3	0	1	9	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:55886425A>C	uc010spo.1	+	1	279	c.279A>C	c.(277-279)AAA>AAC	p.K93N		NM_001005519	NP_001005519	A6NDL8	O6C68_HUMAN	olfactory receptor, family 6, subfamily C,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CTGGGAACAAAATAATAACGT	0.338													32	101					0	0	1	0	0		C	55886425	C	C	55886425	3	2	82	1	0	0	0	0	1	0	0	0	11215	11	1	5	281	5	OR6C68	12	55886425	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	270944	55886425	77965470	834	51290											
PPM1H	57460	broad.mit.edu	37	chr12	63113967	63113967	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaccagcctgtcatattaaAgtccctgtagagcatcttct	10	14	6	11	0	3	1	1	0	2	1	4	1	4	1	3	0	3	2	3	0	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:63113967A>G	uc001srk.3	-	6	1206	c.1057T>C	c.(1057-1059)TTT>CTT	p.F353L		NM_020700	NP_065751	Q9ULR3	PPM1H_HUMAN	protein phosphatase 1H (PP2C domain containing)	353	PP2C-like.						phosphoprotein phosphatase activity			lung(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;0.000443)|BRCA - Breast invasive adenocarcinoma(9;0.209)	GBM - Glioblastoma multiforme(28;0.0126)		GTCATATTAAAGTCCCTGTAG	0.463													17	117					0	0	1	0	0		G	63113967	G	G	63113967	3	3	82	1	0	0	0	0	1	0	0	0	12363	72	3	3	507	3	PPM1H	12	63113967	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	7227542	63113967	70737928	835	51291											
RAB21	23011	broad.mit.edu	37	chr12	72167766	72167766	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggtcaaagaattacggAaaatgttgggaaatgaaatc	17	9	11	4	1	1	2	1	1	0	1	2	4	1	4	0	3	1	1	0	3	7	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:72167766A>G	uc001swt.2	+	4	607	c.355A>G	c.(355-357)AAA>GAA	p.K119E		NM_014999	NP_055814	Q9UL25	RAB21_HUMAN	RAB21, member RAS oncogene family	119					protein transport|small GTPase mediated signal transduction	cleavage furrow|cytoplasmic vesicle membrane|early endosome membrane|endoplasmic reticulum membrane|Golgi membrane	GDP binding|GTP binding|GTPase activity|protein binding				0						AGAATTACGGAAAATGTTGGG	0.299													4	65					0	0	1	0	0		G	72167766	G	G	72167766	3	3	82	1	0	0	0	0	1	0	0	0	12933	247	9	3	369	3	RAB21	12	72167766	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	9053799	72167766	61684129	836	51292											
KCNC2	3747	broad.mit.edu	37	chr12	75601557	75601557	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgcctggcccgggggacagCgggggcgctctcggcggcgg	2	3	21	15	7	1	0	0	0	1	0	2	1	1	1	3	8	1	1	3	8	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:75601557C>T	uc001sxg.1	-	2	751	c.207G>A	c.(205-207)CCG>CCA	p.P69P	KCNC2_uc009zry.2_Silent_p.P69P|KCNC2_uc001sxe.2_Silent_p.P69P|KCNC2_uc001sxf.2_Silent_p.P69P|KCNC2_uc010stw.1_Silent_p.P69P	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	69	Gly/Pro-rich (insert).|Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						CGggggacagcgggggcgctc	0.527													7	11					0	0	1	0	0		T	75601557	T	T	75601557	2	4	82	1	0	0	0	0	0	0	0	1	8031	755	27	1		1	KCNC2	12	75601557	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	3433791	75601557	58250338	837	51293											
LIN7A	8825	broad.mit.edu	37	chr12	81283052	81283052	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgaatagctgtacaaaacTcactctgaagcacttttttg	12	13	6	10	1	2	1	1	1	1	0	3	2	2	1	0	0	4	3	0	0	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:81283052T>G	uc001szj.1	-	2	372	c.179A>C	c.(178-180)GAG>GCG	p.E60A	LIN7A_uc001szk.1_RNA	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	60	L27.				exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						TGTACAAAACTCACTCTGAAG	0.368													17	49					0	0	1	0	0		G	81283052	G	G	81283052	3	3	82	1	0	0	0	0	1	0	0	0	8827	1551	54	5	538	5	LIN7A	12	81283052	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5681495	81283052	52568843	838	51294											
EEA1	8411	broad.mit.edu	37	chr12	93226309	93226309	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgattaatttcactttggagTtgtaacccatgctgctcctt	8	17	7	9	0	1	1	1	1	0	0	2	2	2	2	2	1	3	4	2	1	2	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:93226309T>G	uc001tck.2	-	11	1498	c.1233A>C	c.(1231-1233)CAA>CAC	p.Q411H		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	411	Gln/Glu/Lys-rich.|Potential.				early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						CACTTTGGAGTTGTAACCCAT	0.363													71	98					0	0	1	0	0		G	93226309	G	G	93226309	3	3	82	1	0	0	0	0	1	0	0	0	4927	1722	60	5	3078	5	EEA1	12	93226309	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	11943257	93226309	40625586	839	51295											
PLXNC1	10154	broad.mit.edu	37	chr12	94692436	94692436	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattctgtgcttgaaaaacTttttagaagcatttggagtt	11	17	8	5	0	2	2	1	1	1	1	2	3	2	3	0	1	3	3	0	1	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:94692436T>G	uc001tdc.2	+	27	4352	c.4103T>G	c.(4102-4104)CTT>CGT	p.L1368R	PLXNC1_uc010sut.1_Missense_Mutation_p.L415R|PLXNC1_uc009zsv.2_Missense_Mutation_p.L107R	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1368	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						CTTGAAAAACTTTTTAGAAGC	0.348													15	37					0	0	1	0	0		G	94692436	G	G	94692436	3	3	82	1	0	0	0	0	1	0	0	0	12145	1609	56	5	4209	5	PLXNC1	12	94692436	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1466127	94692436	39159459	840	51296											
APAF1	317	broad.mit.edu	37	chr12	99042569	99042569	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttccagtggtaaagatTcagttagtggaataacttcg	11	14	9	7	1	2	1	1	0	1	1	4	2	3	2	1	2	1	2	1	2	5	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:99042569T>G	uc001tfz.2	+	3	881	c.304T>G	c.(304-306)TCA>GCA	p.S102A	APAF1_uc001tfy.2_Intron|APAF1_uc001tga.2_Intron|APAF1_uc001tgb.2_Missense_Mutation_p.S102A|APAF1_uc001tgc.2_Missense_Mutation_p.S102A	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	102					activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	TGGTAAAGATTCAGTTAGTGG	0.363													38	174					0	0	1	0	0		G	99042569	G	G	99042569	3	3	82	1	0	0	0	0	1	0	0	0	755	1783	62	5	310	5	APAF1	12	99042569	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4350133	99042569	34809326	841	51297											
ARL1	400	broad.mit.edu	37	chr12	101790343	101790343	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccactaaaatggcttttcTcagctcttcttcctaaatga	11	14	4	12	0	3	1	1	1	3	0	5	1	4	1	2	1	1	2	2	1	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:101790343T>C	uc001tib.2	-	5	498	c.349A>G	c.(349-351)AGA>GGA	p.R117G	ARL1_uc010svn.1_Missense_Mutation_p.R71G|ARL1_uc010svo.1_Intron|ARL1_uc001tic.2_Missense_Mutation_p.R117G	NM_001177	NP_001168	P40616	ARL1_HUMAN	ADP-ribosylation factor-like 1	117					small GTPase mediated signal transduction	Golgi membrane	enzyme activator activity|GTP binding|GTPase activity|metal ion binding|protein binding			central_nervous_system(1)	1		Lung NSC(355;2.1e-05)|Breast(359;0.00015)|Myeloproliferative disorder(1001;0.163)		GBM - Glioblastoma multiforme(134;1.67e-09)|BRCA - Breast invasive adenocarcinoma(302;0.0125)		ATGGCTTTTCTCAGCTCTTCT	0.353													16	132					0	0	1	0	0		C	101790343	C	C	101790343	3	2	82	1	0	0	0	0	1	0	0	0	925	1559	54	3	204	3	ARL1	12	101790343	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2747774	101790343	32061552	842	51298											
GNPTAB	79158	broad.mit.edu	37	chr12	102174027	102174027	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcaggaaagccaaatctTgcattagcactaatccaggg	14	8	8	11	0	2	0	1	0	1	0	3	1	3	1	2	2	3	2	2	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:102174027T>C	uc001tit.2	-	7	853	c.674A>G	c.(673-675)CAA>CGA	p.Q225R	GNPTAB_uc001tiu.1_Missense_Mutation_p.Q225R|GNPTAB_uc001tiv.3_Missense_Mutation_p.Q88R	NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	225					cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						AGCCAAATCTTGCATTAGCAC	0.368													10	87					0	0	1	0	0		C	102174027	C	C	102174027	3	2	82	1	0	0	0	0	1	0	0	0	6560	1812	63	3	3156	3	GNPTAB	12	102174027	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	383684	102174027	31677868	843	51299											
C12orf48	55010	broad.mit.edu	37	chr12	102572378	102572378	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgtctcagccaaaatcTcatgccataaaccatggtac	12	13	5	11	0	2	0	2	0	2	0	4	0	2	0	3	1	4	1	3	1	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:102572378T>C	uc001tjf.2	+	8	1126	c.1014T>C	c.(1012-1014)TCT>TCC	p.S338S	C12orf48_uc001tjg.2_Silent_p.S257S|C12orf48_uc010swa.1_Silent_p.S415S|C12orf48_uc001tjh.2_Silent_p.S257S|C12orf48_uc010swb.1_Intron|C12orf48_uc009zuc.2_Intron|C12orf48_uc001tjj.2_Silent_p.S53S|C12orf48_uc001tjk.2_Intron|C12orf48_uc009zud.2_Intron	NM_017915	NP_060385	Q9NWS1	PR1BP_HUMAN	hypothetical protein LOC55010	338					response to DNA damage stimulus	cytoplasm|nucleus	DNA binding				0						AGCCAAAATCTCATGCCATAA	0.403													9	38					0	0	1	0	0		C	102572378	C	C	102572378	2	2	82	1	0	0	0	0	0	0	0	1	1695	1538	54	3		3	C12orf48	12	102572378	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	398351	102572378	31279517	844	51300											
ASCL1	429	broad.mit.edu	37	chr12	103352261	103352261	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccctcagggggcggtcacaAgtcagcgcccaagcaagtca	10	4	13	14	2	4	0	4	0	0	0	4	0	4	0	2	3	2	1	2	3	3	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:103352261A>G	uc001tjr.3	+	1	810	c.239A>G	c.(238-240)AAG>AGG	p.K80R		NM_004316	NP_004307	P50553	ASCL1_HUMAN	achaete-scute complex homolog 1	80					cerebral cortex GABAergic interneuron differentiation|negative regulation of apoptosis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|noradrenergic neuron fate commitment|Notch signaling pathway|positive regulation of neuron differentiation|positive regulation of transcription from RNA polymerase II promoter|response to retinoic acid|sympathetic nervous system development	nucleus	bHLH transcription factor binding|E-box binding|sequence-specific DNA binding transcription factor activity|transcription factor binding transcription factor activity				0						GGCGGTCACAAGTCAGCGCCC	0.517													3	11					0	0	1	0	0		G	103352261	G	G	103352261	3	3	82	1	0	0	0	0	1	0	0	0	1035	72	3	3	241	3	ASCL1	12	103352261	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	779883	103352261	30499634	845	51301											
ACACB	32	broad.mit.edu	37	chr12	109577503	109577503	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctaccaccctcccaccagaAgcccccaagaaacccccttt	11	5	3	22	0	0	2	0	0	0	2	1	2	1	2	9	0	3	0	9	0	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:109577503A>G	uc001tob.2	+	2	412	c.293A>G	c.(292-294)AAG>AGG	p.K98R	ACACB_uc001toc.2_Missense_Mutation_p.K98R	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	98					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	TCCCACCAGAAGCCCCCAAGA	0.617													54	160					0	0	1	0	0		G	109577503	G	G	109577503	3	3	82	1	0	0	0	0	1	0	0	0	107	72	3	3	295	3	ACACB	12	109577503	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6225242	109577503	24274392	846	51302											
ACACB	32	broad.mit.edu	37	chr12	109644623	109644623	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacctcaccaacgtcatgAgtggcttttgtctgccagag	11	10	9	11	1	3	2	2	1	1	1	3	2	3	2	3	1	3	1	3	1	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:109644623A>T	uc001tob.2	+	20	3141	c.3022A>T	c.(3022-3024)AGT>TGT	p.S1008C	ACACB_uc001toc.2_Missense_Mutation_p.S1008C	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1008					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CAACGTCATGAGTGGCTTTTG	0.547													31	113					0	0	1	0	0		T	109644623	T	T	109644623	3	4	82	1	0	0	0	0	1	0	0	0	107	304	11	5	3096	5	ACACB	12	109644623	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	67120	109644623	24207272	847	51303											
UBE3B	89910	broad.mit.edu	37	chr12	109959331	109959331	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcttcgagtttgtggggaAgatgctggggaaggctgtgt	6	12	18	5	1	1	1	0	0	1	1	2	4	1	3	0	5	1	4	0	5	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:109959331A>C	uc001top.2	+	21	2942	c.2339A>C	c.(2338-2340)AAG>ACG	p.K780T	UBE3B_uc001toq.2_Missense_Mutation_p.K780T|UBE3B_uc001tos.2_Missense_Mutation_p.K207T|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.K780T	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	780	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						TTTGTGGGGAAGATGCTGGGG	0.458													11	65					0	0	1	0	0		C	109959331	C	C	109959331	3	2	82	1	0	0	0	0	1	0	0	0	16906	72	3	5	2413	5	UBE3B	12	109959331	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	314708	109959331	23892564	848	51304											
MVK	4598	broad.mit.edu	37	chr12	110028611	110028611	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcctgctgaccaacaccaAagtccctcgcaataccaggg	12	6	8	15	1	0	1	0	1	0	0	3	2	2	1	5	1	3	2	5	1	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:110028611A>C	uc001toy.3	+	8	897	c.713A>C	c.(712-714)AAA>ACA	p.K238T	MVK_uc009zvk.2_Missense_Mutation_p.K238T|MVK_uc010sxr.1_Missense_Mutation_p.K186T|MVK_uc001toz.3_Missense_Mutation_p.K44T|MVK_uc001tpc.3_Intron	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase	238					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0						ACCAACACCAAAGTCCCTCGC	0.587													4	62					0	0	1	0	0		C	110028611	C	C	110028611	3	2	82	1	0	0	0	0	1	0	0	0	10013	14	1	5	739	5	MVK	12	110028611	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	69280	110028611	23823284	849	51305											
C12orf49	79794	broad.mit.edu	37	chr12	117160952	117160952	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactgctattgcccaagttaAactgcactttccacgggatg	10	11	9	11	1	0	0	0	0	0	0	1	2	1	1	2	1	4	3	2	1	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:117160952A>C	uc001tvz.1	-	2	326	c.188T>G	c.(187-189)TTT>TGT	p.F63C	C12orf49_uc009zwm.1_Intron	NM_024738	NP_079014	Q9H741	CL049_HUMAN	hypothetical protein LOC79794 precursor	63						extracellular region				ovary(1)	1	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0281)		GCCCAAGTTAAACTGCACTTT	0.517													8	79					0	0	1	0	0		C	117160952	C	C	117160952	3	2	82	1	0	0	0	0	1	0	0	0	1696	14	1	5	445	5	C12orf49	12	117160952	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	7132341	117160952	16690943	850	51306											
NOS1	4842	broad.mit.edu	37	chr12	117696841	117696841	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatctcacctccccattcTcagggggatctccattgcca	7	11	6	17	0	4	0	3	0	3	0	8	1	5	1	5	2	1	0	5	2	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:117696841T>C	uc001twm.1	-	15	3148	c.2462A>G	c.(2461-2463)GAG>GGG	p.E821G	NOS1_uc001twn.1_5'Flank	NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	821	Flavodoxin-like.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CTCCCCATTCTCAGGGGGATC	0.488													5	59					0	0	1	0	0		C	117696841	C	C	117696841	3	2	82	1	0	0	0	0	1	0	0	0	10560	1551	54	3	1902	3	NOS1	12	117696841	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	535889	117696841	16155054	851	51307											
WSB2	55884	broad.mit.edu	37	chr12	118476183	118476183	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggcccgataacacttgAatctgtttacctggcaggaa	11	10	11	9	1	1	1	0	1	1	0	1	3	1	2	2	4	2	2	2	4	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:118476183A>C	uc001twr.2	-	5	668	c.570T>G	c.(568-570)ATT>ATG	p.I190M	WSB2_uc010sza.1_Intron|WSB2_uc010szb.1_Translation_Start_Site|WSB2_uc009zws.1_Missense_Mutation_p.I190M	NM_018639	NP_061109	Q9NYS7	WSB2_HUMAN	WD SOCS-box protein 2	190	WD 2.				intracellular signal transduction					ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ATAACACTTGAATCTGTTTAC	0.537													7	59					0	0	1	0	0		C	118476183	C	C	118476183	3	2	82	1	0	0	0	0	1	0	0	0	17431	242	9	5	664	5	WSB2	12	118476183	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	779342	118476183	15375712	852	51308											
CIT	11113	broad.mit.edu	37	chr12	120214531	120214531	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttgaattcttcagcagcaAgccgagactctctcagctca	10	10	8	13	1	5	2	3	1	2	1	6	3	5	2	1	0	4	4	1	0	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:120214531A>C	uc001txi.1	-	14	1834	c.1781T>G	c.(1780-1782)CTT>CGT	p.L594R	CIT_uc001txh.1_Missense_Mutation_p.L128R|CIT_uc001txj.1_Missense_Mutation_p.L594R	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	594	Potential.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		TTCAGCAGCAAGCCGAGACTC	0.463													7	104					0	0	1	0	0		C	120214531	C	C	120214531	3	2	82	1	0	0	0	0	1	0	0	0	3441	72	3	5	4438	5	CIT	12	120214531	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1738348	120214531	13637364	853	51309											
GCN1L1	10985	broad.mit.edu	37	chr12	120602204	120602204	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgccagcttaaagcccccaAgagaggacagcagcttccga	12	4	11	14	2	0	1	0	0	0	1	1	4	1	2	4	1	4	3	4	1	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:120602204A>C	uc001txo.2	-	18	1797	c.1784T>G	c.(1783-1785)CTT>CGT	p.L595R		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	595					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AAAGCCCCCAAGAGAGGACAG	0.622													47	140					0	0	1	0	0		C	120602204	C	C	120602204	3	2	82	1	0	0	0	0	1	0	0	0	6314	72	3	5	6395	5	GCN1L1	12	120602204	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	387673	120602204	13249691	854	51310											
RSRC2	65117	broad.mit.edu	37	chr12	122990116	122990116	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgaagatgtgaaacccaaAcccattcctctttgtgtgtg	11	13	8	9	0	1	3	0	2	1	1	2	3	2	3	3	0	2	0	3	0	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:122990116A>G	uc001ucr.2	-	10	1409	c.1263T>C	c.(1261-1263)GGT>GGC	p.G421G	RSRC2_uc001uco.2_Silent_p.G190G|RSRC2_uc001ucp.2_Silent_p.G362G|RSRC2_uc001ucq.2_Silent_p.G189G|RSRC2_uc001ucs.2_Silent_p.G190G|RSRC2_uc001uct.2_Silent_p.G373G|RSRC2_uc001ucu.2_Silent_p.G422G	NM_023012	NP_075388	Q7L4I2	RSRC2_HUMAN	arginine/serine-rich coiled-coil 2 isoform a	421										ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.14e-05)|Epithelial(86;0.000183)|BRCA - Breast invasive adenocarcinoma(302;0.201)		TGAAACCCAAACCCATTCCTC	0.398													16	101					0	0	1	0	0		G	122990116	G	G	122990116	2	3	82	1	0	0	0	0	0	0	0	1	13740	30	2	3		3	RSRC2	12	122990116	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2387912	122990116	10861779	855	51311											
DNAH10	196385	broad.mit.edu	37	chr12	124359938	124359938	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggccgcaatgaagttgAcccaagatttatttcgctat	12	11	10	8	2	0	3	0	2	0	1	1	4	0	4	2	2	0	3	2	2	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr12:124359938A>G	uc001uft.3	+	46	7770	c.7745A>G	c.(7744-7746)GAC>GGC	p.D2582G		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2582	AAA 3 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		AATGAAGTTGACCCAAGATTT	0.453													13	45					0	0	1	0	0		G	124359938	G	G	124359938	3	3	82	1	0	0	0	0	1	0	0	0	4604	275	10	3	7927	3	DNAH10	12	124359938	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1369822	124359938	9491957	856	51312											
CRYL1	51084	broad.mit.edu	37	chr13	20978777	20978777	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcagagaagttacatacctgGttaaccttctcagcagtggc	11	10	10	10	0	1	1	1	0	1	1	2	2	1	1	2	2	4	4	2	2	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:20978777G>A	uc001une.2	-	7	922	c.843C>T	c.(841-843)AAC>AAT	p.N281N	CRYL1_uc001unf.2_Silent_p.N259N|CRYL1_uc001ung.2_Silent_p.N259N	NM_015974	NP_057058	Q9Y2S2	CRYL1_HUMAN	lambda-crystallin	281					fatty acid metabolic process	cytosol	3-hydroxyacyl-CoA dehydrogenase activity|L-gulonate 3-dehydrogenase activity|NAD+ binding|protein homodimerization activity				0		all_cancers(29;2.27e-23)|all_epithelial(30;1.69e-19)|all_lung(29;8.29e-18)|Lung SC(185;0.0262)|Ovarian(182;0.0827)|Hepatocellular(188;0.244)		all cancers(112;6.6e-05)|Epithelial(112;0.00178)|OV - Ovarian serous cystadenocarcinoma(117;0.0169)|Lung(94;0.0215)|GBM - Glioblastoma multiforme(144;0.0402)|LUSC - Lung squamous cell carcinoma(192;0.061)		TACATACCTGGTTAACCTTCT	0.522													22	77					0	0	1	0	0		A	20978777	A	A	20978777	2	1	82	1	0	0	0	0	0	0	0	1	3923	1252	44	4		4	CRYL1	13	20978777	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08		20978777	94191101	857	51313											
XPO4	64328	broad.mit.edu	37	chr13	21383284	21383284	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcattcctacactggccagTtgatcagaaaactggtctcg	11	10	9	11	1	2	2	1	1	1	1	4	2	3	2	2	2	3	2	2	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:21383284T>G	uc001unq.3	-	11	1467	c.1431A>C	c.(1429-1431)CAA>CAC	p.Q477H		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	477					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		CACTGGCCAGTTGATCAGAAA	0.433													15	105					0	0	1	0	0		G	21383284	G	G	21383284	3	3	82	1	0	0	0	0	1	0	0	0	17472	1722	60	5	2076	5	XPO4	13	21383284	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	404507	21383284	93786594	858	51314											
SACS	26278	broad.mit.edu	37	chr13	23907309	23907309	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgatttttgggttttataAgttgttccaatttcttaaag	10	20	7	4	0	1	1	0	1	1	0	2	1	2	1	1	1	0	3	1	1	5	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:23907309A>C	uc001uon.2	-	10	11295	c.10706T>G	c.(10705-10707)CTT>CGT	p.L3569R	SACS_uc001uoo.2_Missense_Mutation_p.L3422R|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3569					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GGGTTTTATAAGTTGTTCCAA	0.308													4	27					0	0	1	0	0		C	23907309	C	C	23907309	3	2	82	1	0	0	0	0	1	0	0	0	13829	72	3	5	3037	5	SACS	13	23907309	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2524025	23907309	91262569	859	51315											
SACS	26278	broad.mit.edu	37	chr13	23909096	23909096	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctttcactagacaatataaAtctggctgtagatcaagacg	14	11	8	8	1	3	3	2	0	1	3	3	3	3	3	0	1	0	3	0	1	7	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:23909096A>C	uc001uon.2	-	10	9508	c.8919T>G	c.(8917-8919)GAT>GAG	p.D2973E	SACS_uc001uoo.2_Missense_Mutation_p.D2826E|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2973					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GACAATATAAATCTGGCTGTA	0.383													27	105					0	0	1	0	0		C	23909096	C	C	23909096	3	2	82	1	0	0	0	0	1	0	0	0	13829	98	4	5	4824	5	SACS	13	23909096	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1787	23909096	91260782	860	51316											
SACS	26278	broad.mit.edu	37	chr13	23910752	23910752	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attattcgtcggcaaagctgAaaattctcttctgttatttg	10	17	7	7	2	2	1	0	1	2	0	5	1	2	1	0	1	1	3	0	1	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:23910752A>C	uc001uon.2	-	10	7852	c.7263T>G	c.(7261-7263)TTT>TTG	p.F2421L	SACS_uc001uoo.2_Missense_Mutation_p.F2274L|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2421					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GGCAAAGCTGAAAATTCTCTT	0.368													9	30					0	0	1	0	0		C	23910752	C	C	23910752	3	2	82	1	0	0	0	0	1	0	0	0	13829	243	9	5	6480	5	SACS	13	23910752	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1656	23910752	91259126	861	51317											
MTUS2	23281	broad.mit.edu	37	chr13	29600662	29600662	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacattccaaggacacaccTtcctcgcaggagggaatgga	13	6	10	12	1	0	0	0	0	0	0	3	4	2	4	3	4	0	1	3	4	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:29600662T>C	uc001usl.3	+	1	1915	c.1857T>C	c.(1855-1857)CCT>CCC	p.P619P		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	609						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						AGGACACACCTTCCTCGCAGG	0.517													10	32					0	0	1	0	0		C	29600662	C	C	29600662	2	2	82	1	0	0	0	0	0	0	0	1	9984	1596	56	3		3	MTUS2	13	29600662	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5689910	29600662	85569216	862	51318											
FAM48A	55578	broad.mit.edu	37	chr13	37607715	37607715	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagctggctctcaagcaaaAgtttgtcttcctgaaatgtg	10	13	10	8	0	2	2	1	2	2	0	4	2	3	2	1	1	2	4	1	1	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:37607715A>C	uc001uwg.2	-	10	826	c.578T>G	c.(577-579)CTT>CGT	p.L193R	FAM48A_uc010abt.2_Missense_Mutation_p.L194R|FAM48A_uc001uwh.2_Missense_Mutation_p.L194R|FAM48A_uc001uwi.2_Missense_Mutation_p.L193R|FAM48A_uc001uwj.2_Missense_Mutation_p.L194R|FAM48A_uc001uwk.2_Missense_Mutation_p.L193R|FAM48A_uc010tes.1_Missense_Mutation_p.L181R|FAM48A_uc001uwl.1_Missense_Mutation_p.L193R	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A	193					autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		CTCAAGCAAAAGTTTGTCTTC	0.383													10	115					0	0	1	0	0		C	37607715	C	C	37607715	3	2	82	1	0	0	0	0	1	0	0	0	5586	72	3	5	1829	5	FAM48A	13	37607715	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	8007053	37607715	77562163	863	51319											
FREM2	341640	broad.mit.edu	37	chr13	39265757	39265757	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtcttccctgatgtgataAgtaagggagtgtccttgaaa	10	14	11	6	0	1	3	0	3	1	0	3	4	3	4	2	1	0	1	2	1	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:39265757A>C	uc001uwv.2	+	1	4585	c.4276A>C	c.(4276-4278)AGT>CGT	p.S1426R		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1426	Extracellular (Potential).|CSPG 10.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TGATGTGATAAGTAAGGGAGT	0.398													50	95					0	0	1	0	0		C	39265757	C	C	39265757	3	2	82	1	0	0	0	0	1	0	0	0	6059	72	3	5	4278	5	FREM2	13	39265757	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1658042	39265757	75904121	864	51320											
KIAA0564	23078	broad.mit.edu	37	chr13	42144716	42144716	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattccatatcgtgacagatTtgcatcactcaagactatga	13	13	6	9	1	2	4	2	2	0	2	4	4	3	4	1	0	1	1	1	0	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:42144716T>G	uc001uyj.2	-	44	5567	c.5497A>C	c.(5497-5499)AAT>CAT	p.N1833H		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1833	VWFA.					extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		CGTGACAGATTTGCATCACTC	0.413													25	143					0	0	1	0	0		G	42144716	G	G	42144716	3	3	82	1	0	0	0	0	1	0	0	0	8201	1841	64	5	228	5	KIAA0564	13	42144716	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2878959	42144716	73025162	865	51321											
KIAA0564	23078	broad.mit.edu	37	chr13	42144783	42144783	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaatttccttgatggcatgTtctgtcccttctaacgtgtg	7	16	8	10	1	2	1	0	1	2	0	4	1	4	1	2	1	1	2	2	1	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:42144783T>G	uc001uyj.2	-	44	5500	c.5430A>C	c.(5428-5430)GAA>GAC	p.E1810D		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1810	VWFA.					extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		TGATGGCATGTTCTGTCCCTT	0.438													15	86					0	0	1	0	0		G	42144783	G	G	42144783	3	3	82	1	0	0	0	0	1	0	0	0	8201	1722	60	5	295	5	KIAA0564	13	42144783	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	67	42144783	73025095	866	51322											
FNDC3A	22862	broad.mit.edu	37	chr13	49748662	49748662	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcaatgggctgtaaatTcagactatcggccagaaatg	14	8	10	9	1	1	2	1	0	0	2	2	2	1	2	2	2	1	3	2	2	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:49748662T>G	uc001vcm.2	+	12	1627	c.1322T>G	c.(1321-1323)TTC>TGC	p.F441C	FNDC3A_uc001vcn.2_Missense_Mutation_p.F441C|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcp.1_Missense_Mutation_p.F367C|FNDC3A_uc001vcq.2_Missense_Mutation_p.F385C	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	441	Fibronectin type-III 2.					Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		GGCTGTAAATTCAGACTATCG	0.323													6	47					0	0	1	0	0		G	49748662	G	G	49748662	3	3	82	1	0	0	0	0	1	0	0	0	5983	1783	62	5	1375	5	FNDC3A	13	49748662	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7603879	49748662	65421216	867	51323											
PCDH8	5100	broad.mit.edu	37	chr13	53421176	53421176	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgatcctcggccaccagcgTcaagttgtactcggcgatgc	7	8	12	14	5	1	0	1	0	0	0	4	2	2	0	3	2	3	2	3	2	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:53421176T>C	uc001vhi.2	-	1	1599	c.1396A>G	c.(1396-1398)ACG>GCG	p.T466A	PCDH8_uc001vhj.2_Missense_Mutation_p.T466A	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	466	Extracellular (Potential).|Cadherin 4.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GCCACCAGCGTCAAGTTGTAC	0.711													3	15					0	0	1	0	0		C	53421176	C	C	53421176	3	2	82	1	0	0	0	0	1	0	0	0	11536	1667	58	3	1828	3	PCDH8	13	53421176	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3672514	53421176	61748702	868	51324											
DIAPH3	81624	broad.mit.edu	37	chr13	60544997	60544997	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttttacctttaaccaatTcaatcttctcatgctgattt	9	20	2	10	0	4	1	2	1	3	0	5	1	4	1	2	0	3	1	2	0	4	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:60544997T>G	uc001vht.2	-	16	2167	c.1948A>C	c.(1948-1950)AAT>CAT	p.N650H	DIAPH3_uc001vhu.2_Missense_Mutation_p.N387H|DIAPH3_uc001vhv.2_Missense_Mutation_p.N228H	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	650	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		TTTAACCAATTCAATCTTCTC	0.299													5	51					0	0	1	0	0		G	60544997	G	G	60544997	3	3	82	1	0	0	0	0	1	0	0	0	4526	1783	62	5	1705	5	DIAPH3	13	60544997	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7123821	60544997	54624881	869	51325											
PCDH9	5101	broad.mit.edu	37	chr13	67801672	67801672	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attatttaaagcaaagagtcTtttggttgcaggggcgacct	11	13	11	6	1	1	1	0	0	1	1	1	2	1	1	1	3	2	3	1	3	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:67801672T>C	uc001vik.2	-	2	1593	c.901A>G	c.(901-903)AGA>GGA	p.R301G	PCDH9_uc001vil.2_Missense_Mutation_p.R301G|PCDH9_uc010thl.1_Missense_Mutation_p.R301G|PCDH9_uc001vin.3_Missense_Mutation_p.R301G	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	301	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GCAAAGAGTCTTTTGGTTGCA	0.458													35	85					0	0	1	0	0		C	67801672	C	C	67801672	3	2	82	1	0	0	0	0	1	0	0	0	11537	1617	56	3	2828	3	PCDH9	13	67801672	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7256675	67801672	47368206	870	51326											
PIBF1	10464	broad.mit.edu	37	chr13	73372083	73372083	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaatccattaagaaaggaAatctgtgaactacaagtgaa	18	9	9	5	0	1	4	0	3	1	1	2	5	2	5	1	1	2	0	1	1	8	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:73372083A>C	uc001vjc.2	+	5	896	c.591A>C	c.(589-591)GAA>GAC	p.E197D	PIBF1_uc001vja.1_Missense_Mutation_p.E197D|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Missense_Mutation_p.E197D|PIBF1_uc010aep.2_Intron	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	197						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		TAAGAAAGGAAATCTGTGAAC	0.299													16	116					0	0	1	0	0		C	73372083	C	C	73372083	3	2	82	1	0	0	0	0	1	0	0	0	11898	11	1	5	605	5	PIBF1	13	73372083	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5570411	73372083	41797795	871	51327											
PIBF1	10464	broad.mit.edu	37	chr13	73396078	73396078	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacacaaaacagttaattcAgcaaggtgactaccgtcaag	17	7	8	9	1	2	2	2	1	0	1	2	2	2	2	1	1	3	2	1	1	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:73396078A>G	uc001vjc.2	+	6	1069	c.764A>G	c.(763-765)CAG>CGG	p.Q255R	PIBF1_uc001vja.1_Missense_Mutation_p.Q255R|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Missense_Mutation_p.Q255R|PIBF1_uc010aep.2_Intron	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	255						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		CAGTTAATTCAGCAAGGTGAC	0.303													21	63					0	0	1	0	0		G	73396078	G	G	73396078	3	3	82	1	0	0	0	0	1	0	0	0	11898	188	7	3	782	3	PIBF1	13	73396078	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	23995	73396078	41773800	872	51328											
MYCBP2	23077	broad.mit.edu	37	chr13	77635873	77635873	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacataaatttccacagacaTtgcataaaatgattgctgca	16	12	5	8	0	0	2	0	1	0	1	1	2	1	2	1	0	4	3	1	0	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:77635873T>G	uc001vkf.2	-	76	12804	c.12713A>C	c.(12712-12714)AAT>ACT	p.N4238T	MYCBP2_uc010aev.2_Missense_Mutation_p.N3642T|MYCBP2_uc001vke.2_Missense_Mutation_p.N855T	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	4238					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TCCACAGACATTGCATAAAAT	0.378													9	36					0	0	1	0	0		G	77635873	G	G	77635873	3	3	82	1	0	0	0	0	1	0	0	0	10036	1493	52	5	1245	5	MYCBP2	13	77635873	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4239795	77635873	37534005	873	51329											
MYCBP2	23077	broad.mit.edu	37	chr13	77759309	77759309	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttgggtagaaagaatgaaAgcaggcagtgaaagtattat	17	9	13	2	0	0	4	0	2	0	2	0	4	0	4	0	2	1	5	0	2	7	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:77759309A>G	uc001vkf.2	-	33	4625	c.4534T>C	c.(4534-4536)TTT>CTT	p.F1512L	MYCBP2_uc010aev.2_Missense_Mutation_p.F916L	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1512					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AAAGAATGAAAGCAGGCAGTG	0.398													6	54					0	0	1	0	0		G	77759309	G	G	77759309	3	3	82	1	0	0	0	0	1	0	0	0	10036	72	3	3	9596	3	MYCBP2	13	77759309	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	123436	77759309	37410569	874	51330											
DOCK9	23348	broad.mit.edu	37	chr13	99452705	99452705	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtacatgacagggatgcgcTtcttcacataagggaagcag	12	8	13	8	1	2	1	1	1	1	0	2	3	2	3	0	3	3	3	0	3	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:99452705T>G	uc001vnt.2	-	52	5853	c.5798A>C	c.(5797-5799)AAG>ACG	p.K1933T	DOCK9_uc001vnw.2_Missense_Mutation_p.K1932T|DOCK9_uc001vnq.2_Missense_Mutation_p.K480T|DOCK9_uc001vnr.2_Missense_Mutation_p.K562T|DOCK9_uc010tin.1_Missense_Mutation_p.K551T|DOCK9_uc001vns.2_Missense_Mutation_p.K468T|DOCK9_uc010tio.1_Missense_Mutation_p.K588T|DOCK9_uc010tip.1_Missense_Mutation_p.K629T	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1933	DHR-2.				blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					AGGGATGCGCTTCTTCACATA	0.517													4	33					0	0	1	0	0		G	99452705	G	G	99452705	3	3	82	1	0	0	0	0	1	0	0	0	4700	1609	56	5	431	5	DOCK9	13	99452705	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	21693396	99452705	15717173	875	51331											
MYO16	23026	broad.mit.edu	37	chr13	109704747	109704747	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttaaattccgaggacataAgtctgccctgctcagtaaga	12	11	8	10	1	2	1	1	0	1	1	3	3	3	2	2	1	2	2	2	1	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:109704747A>C	uc001vqt.1	+	25	3032	c.2906A>C	c.(2905-2907)AAG>ACG	p.K969T	MYO16_uc010agk.1_Missense_Mutation_p.K991T|MYO16_uc001vqu.1_Missense_Mutation_p.K769T|MYO16_uc010tjh.1_Missense_Mutation_p.K481T	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	969	Myosin head-like 2.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			CGAGGACATAAGTCTGCCCTG	0.368													27	59					0	0	1	0	0		C	109704747	C	C	109704747	3	2	82	1	0	0	0	0	1	0	0	0	10082	72	3	5	3000	5	MYO16	13	109704747	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	10252042	109704747	5465131	876	51332											
MYO16	23026	broad.mit.edu	37	chr13	109704765	109704765	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagtctgccctgctcagtaAgaaaatgacagcttcttcaa	13	11	7	10	0	4	2	2	1	2	1	4	2	4	2	1	0	3	3	1	0	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:109704765A>C	uc001vqt.1	+	25	3050	c.2924A>C	c.(2923-2925)AAG>ACG	p.K975T	MYO16_uc010agk.1_Missense_Mutation_p.K997T|MYO16_uc001vqu.1_Missense_Mutation_p.K775T|MYO16_uc010tjh.1_Missense_Mutation_p.K487T	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	975	Myosin head-like 2.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			CTGCTCAGTAAGAAAATGACA	0.343													17	69					0	0	1	0	0		C	109704765	C	C	109704765	3	2	82	1	0	0	0	0	1	0	0	0	10082	72	3	5	3018	5	MYO16	13	109704765	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	18	109704765	5465113	877	51333											
ATP11A	23250	broad.mit.edu	37	chr13	113487306	113487306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtacatctcatcctcgcccGacgaggtggcgctggtcgaa	7	9	12	13	5	1	0	1	0	1	0	5	3	2	0	2	3	1	2	2	3	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr13:113487306G>A	uc001vsi.3	+	14	1616	c.1528G>A	c.(1528-1530)GAC>AAC	p.D510N	ATP11A_uc001vsj.3_Missense_Mutation_p.D510N|ATP11A_uc001vsm.1_Missense_Mutation_p.D386N	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	510	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				ATCCTCGCCCGACGAGGTGGC	0.632													44	144					0	0	1	0	0		A	113487306	A	A	113487306	3	1	82	1	0	0	0	0	1	0	0	0	1120	1058	37	1	1582	1	ATP11A	13	113487306	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	3782541	113487306	1682572	878	51334											
OR4K5	79317	broad.mit.edu	37	chr14	20389223	20389223	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctcctgggctgtgagctTggtgcacacattaagccagt	8	11	12	10	0	1	1	0	1	1	0	2	2	1	1	2	2	3	3	2	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:20389223T>C	uc010tkw.1	+	1	458	c.458T>C	c.(457-459)TTG>TCG	p.L153S		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	153	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GCTGTGAGCTTGGTGCACACA	0.433													71	213					0	0	1	0	0		C	20389223	C	C	20389223	3	2	82	1	0	0	0	0	1	0	0	0	11092	1821	63	3	460	3	OR4K5	14	20389223	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08		20389223	86960317	879	51335											
RNASE10	338879	broad.mit.edu	37	chr14	20979222	20979222	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attacctaacttctgttataAaaaagcacattattataacc	17	14	2	8	0	1	0	0	0	1	0	1	0	1	0	2	0	4	2	2	0	9	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:20979222A>C	uc010tlj.1	+	1	592	c.592A>C	c.(592-594)AAA>CAA	p.K198Q	RNASE10_uc001vxp.2_Missense_Mutation_p.K226Q	NM_001012975	NP_001012993	Q5GAN6	RNS10_HUMAN	ribonuclease, RNase A family, 10 (non-active)	198						extracellular region	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00123)		Epithelial(56;1.81e-07)|all cancers(55;1.86e-06)	GBM - Glioblastoma multiforme(265;0.022)|READ - Rectum adenocarcinoma(17;0.191)		TTCTGTTATAAAAAAGCACAT	0.338													7	52					0	0	1	0	0		C	20979222	C	C	20979222	3	2	82	1	0	0	0	0	1	0	0	0	13425	15	1	5	594	5	RNASE10	14	20979222	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	589999	20979222	86370318	880	51336											
MYH6	4624	broad.mit.edu	37	chr14	23853762	23853762	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagctcccgcacccgcgcTtccagcttctgcagctgctt	4	10	8	19	3	1	0	0	0	1	0	4	0	4	0	4	0	5	7	4	0	0	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:23853762T>G	uc001wjv.2	-	36	5521	c.5454A>C	c.(5452-5454)GAA>GAC	p.E1818D		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1818	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GCACCCGCGCTTCCAGCTTCT	0.632													47	88					0	0	1	0	0		G	23853762	G	G	23853762	3	3	82	1	0	0	0	0	1	0	0	0	10056	1606	56	5	381	5	MYH6	14	23853762	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2874540	23853762	83495778	881	51337											
RNF31	55072	broad.mit.edu	37	chr14	24627108	24627108	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatctgggtttctgccagaAatgtccagagcctaactgca	10	10	9	12	0	2	2	0	0	2	2	3	2	3	2	4	1	4	2	4	1	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:24627108A>T	uc001wmn.1	+	17	2978	c.2729A>T	c.(2728-2730)AAA>ATA	p.K910I	RNF31_uc001wml.1_Missense_Mutation_p.K759I|RNF31_uc010alg.1_Missense_Mutation_p.K669I|RNF31_uc001wmo.1_Missense_Mutation_p.K377I|RNF31_uc001wmp.2_RNA|RNF31_uc010alh.1_Missense_Mutation_p.K94I	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	910	IBR-type 2.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		TTCTGCCAGAAATGTCCAGAG	0.597													13	43					0	0	1	0	0		T	24627108	T	T	24627108	3	4	82	1	0	0	0	0	1	0	0	0	13512	28	1	5	2795	5	RNF31	14	24627108	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	773346	24627108	82722432	882	51338											
TSSK4	283629	broad.mit.edu	37	chr14	24675723	24675723	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctggggtcaggtaatgaaAgtcttgcggcacaagtacct	10	11	12	8	1	3	1	1	1	2	0	3	1	3	1	1	4	2	3	1	4	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:24675723A>C	uc001wng.2	+	2	402	c.234A>C	c.(232-234)AAA>AAC	p.K78N	TM9SF1_uc010tob.1_Intron|TSSK4_uc001wne.2_Missense_Mutation_p.K2N|TSSK4_uc001wnf.2_5'UTR|TSSK4_uc001wnh.2_Missense_Mutation_p.K78N	NM_174944	NP_777604	Q6SA08	TSSK4_HUMAN	testis-specific serine kinase 4	78	Protein kinase.				cell differentiation|multicellular organismal development|positive regulation of CREB transcription factor activity|spermatogenesis		ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity				0				GBM - Glioblastoma multiforme(265;0.018)		AGGTAATGAAAGTCTTGCGGC	0.522													14	76					0	0	1	0	0		C	24675723	C	C	24675723	3	2	82	1	0	0	0	0	1	0	0	0	16697	69	3	5	240	5	TSSK4	14	24675723	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	48615	24675723	82673817	883	51339											
HECTD1	25831	broad.mit.edu	37	chr14	31575893	31575893	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcccagaacctgatggAttcttcagcactagttcctg	9	10	11	11	0	2	2	1	1	1	1	3	4	3	4	3	3	2	2	3	3	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:31575893A>G	uc001wrc.1	-	38	7674	c.7185T>C	c.(7183-7185)AAT>AAC	p.N2395N	HECTD1_uc001wra.1_Silent_p.N521N|HECTD1_uc001wrb.1_Silent_p.N521N	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	2395	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		AACCTGATGGATTCTTCAGCA	0.363													6	62					0	0	1	0	0		G	31575893	G	G	31575893	2	3	82	1	0	0	0	0	0	0	0	1	7055	330	12	3		3	HECTD1	14	31575893	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6900170	31575893	75773647	884	51340											
HEATR5A	25938	broad.mit.edu	37	chr14	31771644	31771644	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaactgtcgaagataacTggcccccaggtaacttcaca	12	8	8	13	1	1	1	1	0	0	1	2	2	1	1	2	2	4	2	2	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:31771644T>A	uc001wrf.3	-	27	4519	c.4442A>T	c.(4441-4443)CAG>CTG	p.Q1481L	HEATR5A_uc010ami.2_Intron	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	1768							binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		CGAAGATAACTGGCCCCCAGG	0.468													4	17					0	0	1	0	0		A	31771644	A	A	31771644	3	1	82	1	0	0	0	0	1	0	0	0	7047	1580	55	5	835	5	HEATR5A	14	31771644	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	195751	31771644	75577896	885	51341											
ARHGAP5	394	broad.mit.edu	37	chr14	32560921	32560921	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaagagcttttaacactcTtttgccaaatctagaagaga	15	11	6	9	0	2	3	0	0	2	3	2	4	2	3	2	0	3	1	2	0	5	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:32560921T>C	uc001wrl.2	+	2	1285	c.1046T>C	c.(1045-1047)CTT>CCT	p.L349P	ARHGAP5_uc001wrm.2_Missense_Mutation_p.L349P|ARHGAP5_uc001wrn.2_Missense_Mutation_p.L349P|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	349					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		TTTAACACTCTTTTGCCAAAT	0.313													20	103					0	0	1	0	0		C	32560921	C	C	32560921	3	2	82	1	0	0	0	0	1	0	0	0	886	1609	56	3	1048	3	ARHGAP5	14	32560921	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	789277	32560921	74788619	886	51342											
NPAS3	64067	broad.mit.edu	37	chr14	34269204	34269204	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcgctacgtggagagcgAgtcggacctgcggctgcaga	8	5	18	10	5	0	2	0	0	0	2	1	6	0	4	1	4	5	3	1	4	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:34269204A>G	uc001wru.2	+	12	1755	c.1691A>G	c.(1690-1692)GAG>GGG	p.E564G	NPAS3_uc001wrs.2_Missense_Mutation_p.E551G|NPAS3_uc001wrt.2_Missense_Mutation_p.E532G|NPAS3_uc001wrv.2_Missense_Mutation_p.E534G	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	564					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		GTGGAGAGCGAGTCGGACCTG	0.667													11	21					0	0	1	0	0		G	34269204	G	G	34269204	3	3	82	1	0	0	0	0	1	0	0	0	10583	304	11	3	1792	3	NPAS3	14	34269204	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1708283	34269204	73080336	887	51343											
MDGA2	161357	broad.mit.edu	37	chr14	47426820	47426820	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtccttgccggatttccaAgaatgctggttccactgcag	7	12	10	12	1	0	1	0	0	0	1	3	2	3	2	4	2	3	3	4	2	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:47426820A>C	uc001wwj.3	-	9	1835	c.1639T>G	c.(1639-1641)TTG>GTG	p.L547V	MDGA2_uc001wwi.3_Missense_Mutation_p.L318V|MDGA2_uc010ani.2_Missense_Mutation_p.L107V	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	547	Ig-like 6.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CGGATTTCCAAGAATGCTGGT	0.448													30	62					0	0	1	0	0		C	47426820	C	C	47426820	3	2	82	1	0	0	0	0	1	0	0	0	9425	69	3	5	1267	5	MDGA2	14	47426820	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	13157616	47426820	59922720	888	51344											
ATP5S	27109	broad.mit.edu	37	chr14	50790684	50790684	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcctagagcatgttgaaaAaataaggctgtgcaagtgtc	13	9	13	6	0	0	2	0	1	0	1	1	2	0	2	1	2	2	4	1	2	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:50790684A>C	uc001wxw.1	+	4	1075	c.383A>C	c.(382-384)AAA>ACA	p.K128T	ATP5S_uc001wxx.1_Intron|ATP5S_uc010ant.1_Missense_Mutation_p.K100T	NM_001003803	NP_001003803	Q99766	ATP5S_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	128					ATP biosynthetic process	mitochondrial inner membrane|proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity			ovary(1)|skin(1)	2	all_epithelial(31;0.000636)|Breast(41;0.0102)			OV - Ovarian serous cystadenocarcinoma(311;0.0685)		CATGTTGAAAAAATAAGGCTG	0.289													22	62					0	0	1	0	0		C	50790684	C	C	50790684	3	2	82	1	0	0	0	0	1	0	0	0	1164	14	1	5	447	5	ATP5S	14	50790684	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3363864	50790684	56558856	889	51345											
TXNDC16	57544	broad.mit.edu	37	chr14	52981657	52981657	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattggtatgtagtcccataCacaaaagcggcttccatgac	13	10	8	10	1	0	1	0	1	0	0	2	1	2	1	2	2	2	3	2	2	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:52981657C>T	uc001wzs.2	-	8	995	c.546G>A	c.(544-546)GTG>GTA	p.V182V	TXNDC16_uc010tqu.1_Silent_p.V177V|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	182					cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					TAGTCCCATACACAAAAGCGG	0.358													40	100					0	0	1	0	0		T	52981657	T	T	52981657	2	4	82	1	0	0	0	0	0	0	0	1	16821	465	17	4		4	TXNDC16	14	52981657	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	2190973	52981657	54367883	890	51346											
JKAMP	51528	broad.mit.edu	37	chr14	59965516	59965516	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctccgacctcttctggtgaAgaagattgcatgtgggttag	8	12	13	8	1	2	3	0	1	2	2	3	4	3	3	2	2	1	3	2	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:59965516A>C	uc001xei.3	+	5	1074	c.572A>C	c.(571-573)AAG>ACG	p.K191T	JKAMP_uc001xef.3_Missense_Mutation_p.K177T|JKAMP_uc001xeh.3_Missense_Mutation_p.K171T|JKAMP_uc001xeg.3_Missense_Mutation_p.K185T|JKAMP_uc010try.1_Missense_Mutation_p.K114T|JKAMP_uc001xej.3_Missense_Mutation_p.K114T	NM_001098625	NP_001092095	Q9P055	JKAMP_HUMAN	JNK1-associated membrane protein isoform 2	192	Cytoplasmic (Potential).				ER-associated protein catabolic process|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ubiquitin protein ligase binding			breast(1)	1						CTTCTGGTGAAGAAGATTGCA	0.358													8	10					0	0	1	0	0		C	59965516	C	C	59965516	3	2	82	1	0	0	0	0	1	0	0	0	7965	72	3	5	548	5	JKAMP	14	59965516	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6983859	59965516	47384024	891	51347											
ESR2	2100	broad.mit.edu	37	chr14	64716368	64716368	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcatgtcaaagatttccAgaattccttctacgcatttc	11	13	7	10	1	2	2	1	0	1	2	5	3	4	3	2	1	2	2	2	1	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:64716368A>G	uc001xha.1	-	7	1589	c.1121T>C	c.(1120-1122)CTG>CCG	p.L374P	ESR2_uc001xgu.2_Missense_Mutation_p.L374P|ESR2_uc001xgv.2_Missense_Mutation_p.L374P|ESR2_uc001xgw.2_RNA|ESR2_uc001xgx.2_Missense_Mutation_p.L374P|ESR2_uc001xgy.1_Missense_Mutation_p.L374P|ESR2_uc001xgz.1_Missense_Mutation_p.L374P|ESR2_uc010aqb.1_RNA|ESR2_uc010aqc.1_Intron|ESR2_uc010aqd.1_Intron	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1	374	Steroid-binding.				cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	AAAGATTTCCAGAATTCCTTC	0.388													4	61					0	0	1	0	0		G	64716368	G	G	64716368	3	3	82	1	0	0	0	0	1	0	0	0	5265	188	7	3	569	3	ESR2	14	64716368	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4750852	64716368	42633172	892	51348											
SPTB	6710	broad.mit.edu	37	chr14	65252275	65252275	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctggcagttctggaggaAgttctgtagctccaggttgt	6	13	13	9	0	2	0	0	0	2	0	4	2	4	2	2	4	1	6	2	4	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:65252275A>C	uc001xht.2	-	17	3889	c.3835T>G	c.(3835-3837)TTC>GTC	p.F1279V	SPTB_uc001xhr.2_Missense_Mutation_p.F1279V|SPTB_uc001xhs.2_Missense_Mutation_p.F1279V|SPTB_uc001xhu.2_Missense_Mutation_p.F1279V	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1279	Spectrin 10.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TTCTGGAGGAAGTTCTGTAGC	0.537													8	8					0	0	1	0	0		C	65252275	C	C	65252275	3	2	82	1	0	0	0	0	1	0	0	0	15143	72	3	5	3296	5	SPTB	14	65252275	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	535907	65252275	42097265	893	51349											
SLC8A3	6547	broad.mit.edu	37	chr14	70515511	70515511	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggtgccaaatgccacgaAaacaacagctgtgactgaat	16	6	10	9	1	0	3	0	2	0	1	0	4	0	3	2	1	5	1	2	1	5	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:70515511A>C	uc001xly.2	-	7	3134	c.2380T>G	c.(2380-2382)TTC>GTC	p.F794V	SLC8A3_uc001xlu.2_Missense_Mutation_p.F151V|SLC8A3_uc001xlv.2_Missense_Mutation_p.F165V|SLC8A3_uc001xlw.2_Missense_Mutation_p.F791V|SLC8A3_uc001xlx.2_Missense_Mutation_p.F792V|SLC8A3_uc001xlz.2_Missense_Mutation_p.F788V|SLC8A3_uc010ara.2_RNA|SLC8A3_uc001xma.2_Missense_Mutation_p.F151V	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	794	Helical; (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		AATGCCACGAAAACAACAGCT	0.512													6	17					0	0	1	0	0		C	70515511	C	C	70515511	3	2	82	1	0	0	0	0	1	0	0	0	14733	14	1	5	411	5	SLC8A3	14	70515511	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5263236	70515511	36834029	894	51350											
SIPA1L1	26037	broad.mit.edu	37	chr14	72117215	72117215	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagaagtatcgagcacagcTtgataccaaaagtaagaaat	18	8	9	6	1	0	3	0	2	0	2	1	5	0	3	1	0	3	4	1	0	7	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:72117215T>G	uc001xms.2	+	5	2330	c.1982T>G	c.(1981-1983)CTT>CGT	p.L661R	SIPA1L1_uc001xmt.2_Missense_Mutation_p.L661R|SIPA1L1_uc001xmu.2_Missense_Mutation_p.L661R|SIPA1L1_uc001xmv.2_Missense_Mutation_p.L661R|SIPA1L1_uc010ttm.1_Missense_Mutation_p.L136R	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	661	Rap-GAP.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		CGAGCACAGCTTGATACCAAA	0.428													9	56					0	0	1	0	0		G	72117215	G	G	72117215	3	3	82	1	0	0	0	0	1	0	0	0	14354	1609	56	5	1996	5	SIPA1L1	14	72117215	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1601704	72117215	35232325	895	51351											
SIPA1L1	26037	broad.mit.edu	37	chr14	72139141	72139141	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagcttggcttccatgtcaActatgagggcattgtggcgg	8	11	13	9	1	1	1	1	1	0	0	2	1	2	1	1	4	2	3	1	4	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:72139141A>C	uc001xms.2	+	9	3254	c.2906A>C	c.(2905-2907)AAC>ACC	p.N969T	SIPA1L1_uc001xmt.2_Missense_Mutation_p.N969T|SIPA1L1_uc001xmu.2_Missense_Mutation_p.N969T|SIPA1L1_uc001xmv.2_Missense_Mutation_p.N969T|SIPA1L1_uc010ttm.1_Missense_Mutation_p.N444T	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	969	PDZ.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TTCCATGTCAACTATGAGGGC	0.527													11	49					0	0	1	0	0		C	72139141	C	C	72139141	3	2	82	1	0	0	0	0	1	0	0	0	14354	43	2	5	2936	5	SIPA1L1	14	72139141	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	21926	72139141	35210399	896	51352											
YLPM1	56252	broad.mit.edu	37	chr14	75283360	75283360	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagtggaaaaagaagaaaaAgatccagattctggaaagaa	22	5	11	3	0	1	5	0	0	1	5	2	8	2	7	1	2	0	0	1	2	8	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:75283360A>G	uc001xqj.3	+	13	5776	c.5652A>G	c.(5650-5652)AAA>AAG	p.K1884K	YLPM1_uc001xql.3_RNA|YLPM1_uc001xqm.1_Silent_p.K367K	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1689					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		AAGAAGAAAAAGATCCAGATT	0.363													3	25					0	0	1	0	0		G	75283360	G	G	75283360	2	3	82	1	0	0	0	0	0	0	0	1	17512	69	3	3		3	YLPM1	14	75283360	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3144219	75283360	32066180	897	51353											
C14orf156	81892	broad.mit.edu	37	chr14	78183895	78183895	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatctgatgatgaaaagaaAgatttttgagactgcagcct	15	11	9	6	0	1	6	0	4	1	3	1	7	1	6	1	0	2	1	1	0	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:78183895A>G	uc001xue.3	+	4	351	c.321A>G	c.(319-321)AAA>AAG	p.K107K		NM_031210	NP_112487	Q9GZT3	SLIRP_HUMAN	SRA stem-loop-interacting RNA-binding protein	107					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	nucleotide binding|RNA binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0276)		ATGAAAAGAAAGATTTTTGAG	0.353													11	37					0	0	1	0	0		G	78183895	G	G	78183895	2	3	82	1	0	0	0	0	0	0	0	1	1757	69	3	3		3	C14orf156	14	78183895	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2900535	78183895	29165645	898	51354											
ATG2B	55102	broad.mit.edu	37	chr14	96783531	96783531	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgattaatattcagaagaActgagagaaaactctgagag	18	9	9	5	0	2	6	1	3	1	4	2	8	2	6	0	0	2	0	0	0	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:96783531A>C	uc001yfi.2	-	20	3526	c.3161T>G	c.(3160-3162)GTT>GGT	p.V1054G		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1054										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		ATTCAGAAGAACTGAGAGAAA	0.343													21	53					0	0	1	0	0		C	96783531	C	C	96783531	3	2	82	1	0	0	0	0	1	0	0	0	1095	43	2	5	3167	5	ATG2B	14	96783531	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	18599636	96783531	10566009	899	51355											
AHNAK2	113146	broad.mit.edu	37	chr14	105415198	105415198	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatgctgaggtcagtggtcTtgaggtccccctgcatggag	7	10	15	9	0	2	2	1	2	1	0	3	4	3	3	2	4	2	2	2	4	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr14:105415198T>A	uc010axc.1	-	7	6710	c.6590A>T	c.(6589-6591)AAG>ATG	p.K2197M	AHNAK2_uc001ypx.2_Missense_Mutation_p.K2097M	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2197						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GTCAGTGGTCTTGAGGTCCCC	0.642													28	137					0	0	1	0	0		A	105415198	A	A	105415198	3	1	82	1	0	0	0	0	1	0	0	0	415	1609	56	5	10801	5	AHNAK2	14	105415198	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	8631667	105415198	1934342	900	51356											
HERC2	8924	broad.mit.edu	37	chr15	28478297	28478297	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttacattcttacctctcTttttccttcgttctcgaatt	5	22	2	12	2	3	0	0	0	3	0	7	1	4	0	2	0	2	1	2	0	3	9			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:28478297T>C	uc001zbj.2	-	30	4776	c.4670A>G	c.(4669-4671)AAG>AGG	p.K1557R		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1557					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CTTACCTCTCTTTTTCCTTCG	0.378													8	38					0	0	1	0	0		C	28478297	C	C	28478297	3	2	82	1	0	0	0	0	1	0	0	0	7074	1609	56	3	10090	3	HERC2	15	28478297	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08		28478297	74053095	901	51357											
TRPM1	4308	broad.mit.edu	37	chr15	31330353	31330353	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaagatggtggggggtagaAgaatccccatgataacctac	14	7	12	8	0	0	4	0	1	0	3	1	4	1	4	3	4	2	1	3	4	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:31330353A>C	uc001zfm.2	-	18	2395	c.2267T>G	c.(2266-2268)CTT>CGT	p.L756R	TRPM1_uc010azy.2_Missense_Mutation_p.L663R|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	756	Helical; (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		GGGGGGTAGAAGAATCCCCAT	0.348													4	26					0	0	1	0	0		C	31330353	C	C	31330353	3	2	82	1	0	0	0	0	1	0	0	0	16611	72	3	5	2584	5	TRPM1	15	31330353	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2852056	31330353	71201039	902	51358											
BUB1B	701	broad.mit.edu	37	chr15	40498573	40498573	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgagagactgttaccggaAgaagatctagatgtaaagac	15	8	11	7	1	1	6	0	1	1	5	1	8	1	7	2	1	1	2	2	1	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:40498573A>C	uc001zkx.3	+	15	2135	c.1923A>C	c.(1921-1923)GAA>GAC	p.E641D	BUB1B_uc010ucl.1_Missense_Mutation_p.E509D	NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	641					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		TGTTACCGGAAGAAGATCTAG	0.463			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				14	52					0	0	1	0	0		C	40498573	C	C	40498573	3	2	82	1	0	0	0	0	1	0	0	0	1574	69	3	5	1981	5	BUB1B	15	40498573	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	9168220	40498573	62032819	903	51359											
RPUSD2	27079	broad.mit.edu	37	chr15	40866189	40866189	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaaggacgacctggaagAgttggctgcagctgcccaga	10	5	16	10	1	0	2	0	0	0	2	0	5	0	4	2	4	3	5	2	4	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:40866189A>G	uc001zmd.1	+	3	1367	c.1367A>G	c.(1366-1368)GAG>GGG	p.E456G		NM_152260	NP_689473	Q8IZ73	RUSD2_HUMAN	RNA pseudouridylate synthase domain containing	456					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			skin(1)	1		all_cancers(109;2.74e-14)|all_epithelial(112;1.64e-11)|Lung NSC(122;6.69e-09)|all_lung(180;1.22e-07)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.1e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0786)		GACCTGGAAGAGTTGGCTGCA	0.567													17	101					0	0	1	0	0		G	40866189	G	G	40866189	3	3	82	1	0	0	0	0	1	0	0	0	13692	304	11	3	1377	3	RPUSD2	15	40866189	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	367616	40866189	61665203	904	51360											
DNAJC17	55192	broad.mit.edu	37	chr15	41066632	41066632	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggttgagaacctcaccAtactgtggggacaaaggggt	12	7	13	9	0	1	1	1	1	0	1	1	3	1	2	3	5	2	1	3	5	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:41066632A>G	uc001zms.1	-	9	614	c.603T>C	c.(601-603)TAT>TAC	p.Y201Y	DNAJC17_uc010bbz.1_RNA|DNAJC17_uc010bca.1_RNA|DNAJC17_uc010bcb.1_RNA	NM_018163	NP_060633	Q9NVM6	DJC17_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 17	201	RRM.				protein folding		heat shock protein binding|nucleotide binding|RNA binding|unfolded protein binding				0		all_cancers(109;4.16e-14)|all_epithelial(112;9.68e-12)|Lung NSC(122;3.19e-09)|all_lung(180;6.45e-08)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;2.91e-05)|COAD - Colon adenocarcinoma(120;0.153)|BRCA - Breast invasive adenocarcinoma(123;0.166)		GAACCTCACCATACTGTGGGG	0.572													12	120					0	0	1	0	0		G	41066632	G	G	41066632	2	3	82	1	0	0	0	0	0	0	0	1	4642	224	8	3		3	DNAJC17	15	41066632	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	200443	41066632	61464760	905	51361											
MGA	23269	broad.mit.edu	37	chr15	42053967	42053967	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaattcagggactaacagatCaggcagacaaattgatagga	18	7	10	6	0	2	3	2	1	0	2	2	5	2	5	0	3	1	1	0	3	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:42053967C>T	uc010ucy.1	+	21	7610	c.7429C>T	c.(7429-7431)CAG>TAG	p.Q2477*	MGA_uc010ucz.1_Nonsense_Mutation_p.Q2268*|MGA_uc010uda.1_Nonsense_Mutation_p.Q1093*	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	2438						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		ACTAACAGATCAGGCAGACAA	0.363													3	7					0	0	1	0	0		T	42053967	T	T	42053967	4	4	82	1	0	0	0	0	0	1	0	0	9558	827	29	4	7507	4	MGA	15	42053967	Nonsense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	987335	42053967	60477425	906	51362											
PLA2G4E	123745	broad.mit.edu	37	chr15	42281732	42281732	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgcaggcccacctcgtagGgggagaactcgaaccactct	9	7	11	14	2	2	1	0	0	2	1	4	3	2	1	3	3	3	2	3	3	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:42281732G>T	uc001zow.1	-	14	1517	c.1517C>A	c.(1516-1518)CCC>CAC	p.P506H	PLA2G4E_uc010udc.1_5'UTR|PLA2G4E_uc001zov.1_Missense_Mutation_p.P159H	NM_001080490	NP_001073959	Q3MJ16	PA24E_HUMAN	phospholipase A2, group 4E	523	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity				0		all_cancers(109;8.09e-13)|all_epithelial(112;2.03e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.0273)		OV - Ovarian serous cystadenocarcinoma(18;7.61e-18)|GBM - Glioblastoma multiforme(94;3.07e-06)		CACCTCGTAGGGGGAGAACTC	0.652											OREG0023079	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	18					0.000602214	0.000604295	1	1	0		T	42281732	T	T	42281732	3	4	82	1	0	0	0	0	1	0	0	0	12024	1232	43	5	1026	5	PLA2G4E	15	42281732	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	227765	42281732	60249660	907	51363											
TP53BP1	7158	broad.mit.edu	37	chr15	43748755	43748755	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccatattttcttctttgAgttcctctccttgactttca	5	21	3	12	0	5	2	1	2	4	0	8	2	6	2	3	0	0	1	3	0	1	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:43748755A>T	uc001zrs.2	-	12	2184	c.2036T>A	c.(2035-2037)CTC>CAC	p.L679H	TP53BP1_uc010udp.1_Missense_Mutation_p.L679H|TP53BP1_uc001zrq.3_Missense_Mutation_p.L684H|TP53BP1_uc001zrr.3_Missense_Mutation_p.L684H|TP53BP1_uc010udq.1_Missense_Mutation_p.L684H	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	679					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		TTCTTCTTTGAGTTCCTCTCC	0.443								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					10	135					0	0	1	0	0		T	43748755	T	T	43748755	3	4	82	1	0	0	0	0	1	0	0	0	16409	304	11	5	3950	5	TP53BP1	15	43748755	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1467023	43748755	58782637	908	51364											
DUOX1	53905	broad.mit.edu	37	chr15	45448048	45448048	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggccatcatgtatgtctTtgcctcccaccacttccgcc	5	12	6	18	1	2	0	1	0	1	0	4	0	4	0	7	1	1	1	7	1	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:45448048T>G	uc001zus.1	+	29	3969	c.3623T>G	c.(3622-3624)TTT>TGT	p.F1208C	DUOX1_uc001zut.1_Missense_Mutation_p.F1208C|DUOX1_uc010bee.1_Missense_Mutation_p.F588C	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	1208	Helical; (Potential).|Interaction with TXNDC11 (By similarity).|Ferric oxidoreductase.				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		ATGTATGTCTTTGCCTCCCAC	0.562													41	93					0	0	1	0	0		G	45448048	G	G	45448048	3	3	82	1	0	0	0	0	1	0	0	0	4806	1841	64	5	3729	5	DUOX1	15	45448048	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1699293	45448048	57083344	909	51365											
SQRDL	58472	broad.mit.edu	37	chr15	45954208	45954208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgctggtgccaaacaattgtCctcatctggtcgtcccacgg	7	11	10	13	2	2	0	1	0	1	0	5	0	4	0	3	3	3	1	3	3	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:45954208C>T	uc001zvt.2	+	4	479	c.290C>T	c.(289-291)TCC>TTC	p.S97F	SQRDL_uc001zvu.2_Missense_Mutation_p.S97F|SQRDL_uc001zvv.2_Missense_Mutation_p.S97F	NM_021199	NP_067022	Q9Y6N5	SQRD_HUMAN	sulfide dehydrogenase like precursor	97							oxidoreductase activity			ovary(1)	1		Lung NSC(122;0.000117)|all_lung(180;0.000737)|Melanoma(134;0.0417)		all cancers(107;5.89e-18)|GBM - Glioblastoma multiforme(94;1.21e-06)|COAD - Colon adenocarcinoma(120;0.17)|Colorectal(133;0.188)		AAACAATTGTCCTCATCTGGT	0.443													8	31					0	0	1	0	0		T	45954208	T	T	45954208	3	4	82	1	0	0	0	0	1	0	0	0	15154	855	30	4	296	4	SQRDL	15	45954208	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	506160	45954208	56577184	910	51366											
SEMA6D	80031	broad.mit.edu	37	chr15	48056380	48056380	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccttttcagcatccctggTtctgctgtctgtgcatttag	4	18	8	11	0	3	0	1	0	2	0	5	0	5	0	2	1	3	4	2	1	1	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:48056380T>G	uc010bek.2	+	11	1335	c.975T>G	c.(973-975)GGT>GGG	p.G325G	SEMA6D_uc001zvw.2_Silent_p.G325G|SEMA6D_uc001zvx.1_Silent_p.G325G|SEMA6D_uc001zvy.2_Silent_p.G325G|SEMA6D_uc001zvz.2_Silent_p.G325G|SEMA6D_uc001zwa.2_Silent_p.G325G|SEMA6D_uc001zwb.2_Silent_p.G325G|SEMA6D_uc001zwc.2_Silent_p.G325G	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	325	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		GCATCCCTGGTTCTGCTGTCT	0.458													26	93					0	0	1	0	0		G	48056380	G	G	48056380	2	3	82	1	0	0	0	0	0	0	0	1	14067	1712	60	5		5	SEMA6D	15	48056380	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2102172	48056380	54475012	911	51367											
SLC27A2	11001	broad.mit.edu	37	chr15	50519317	50519317	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttcaacagtggagatctcTtaatggttgaccatgaaaat	14	13	8	6	0	2	3	1	2	1	1	3	4	2	3	1	2	1	1	1	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:50519317T>A	uc001zxw.2	+	7	1631	c.1399T>A	c.(1399-1401)TTA>ATA	p.L467I	SLC27A2_uc010bes.2_Missense_Mutation_p.L414I|SLC27A2_uc001zxx.2_Missense_Mutation_p.L232I	NM_003645	NP_003636	O14975	S27A2_HUMAN	solute carrier family 27 (fatty acid	467	Cytoplasmic (Potential).				bile acid biosynthetic process|fatty acid alpha-oxidation	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity|phytanate-CoA ligase activity|pristanate-CoA ligase activity			ovary(1)|skin(1)	2		all_lung(180;0.00177)		all cancers(107;1.16e-06)|GBM - Glioblastoma multiforme(94;0.000113)		TGGAGATCTCTTAATGGTTGA	0.393													13	41					0	0	1	0	0		A	50519317	A	A	50519317	3	1	82	1	0	0	0	0	1	0	0	0	14551	1606	56	5	1425	5	SLC27A2	15	50519317	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2462937	50519317	52012075	912	51368											
HDC	3067	broad.mit.edu	37	chr15	50546770	50546770	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgggcatttaggcaggacTcatcagcatcgggctcagac	9	8	13	11	2	3	1	3	0	0	1	5	2	3	2	0	4	1	4	0	4	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:50546770T>C	uc001zxz.2	-	5	639	c.533A>G	c.(532-534)GAG>GGG	p.E178G	HDC_uc001zxy.2_5'Flank|HDC_uc010uff.1_Missense_Mutation_p.E178G|HDC_uc010bet.1_Missense_Mutation_p.E99G|HDC_uc010beu.1_Missense_Mutation_p.E178G	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	178					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	TAGGCAGGACTCATCAGCATC	0.557													14	47					0	0	1	0	0		C	50546770	C	C	50546770	3	2	82	1	0	0	0	0	1	0	0	0	7031	1551	54	3	1487	3	HDC	15	50546770	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	27453	50546770	51984622	913	51369											
CYP19A1	1588	broad.mit.edu	37	chr15	51507411	51507411	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcactggttcacattctctcTtgtcaggtcaccacgtttct	6	15	7	13	1	6	0	3	0	3	0	7	0	6	0	1	2	0	3	1	2	0	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:51507411T>C	uc001zyz.3	-	9	1128	c.877A>G	c.(877-879)AGA>GGA	p.R293G	CYP19A1_uc001zza.3_Missense_Mutation_p.R293G|CYP19A1_uc001zzb.2_Missense_Mutation_p.R293G	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	293					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	ACATTCTCTCTTGTCAGGTCA	0.418													9	67					0	0	1	0	0		C	51507411	C	C	51507411	3	2	82	1	0	0	0	0	1	0	0	0	4151	1617	56	3	646	3	CYP19A1	15	51507411	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	960641	51507411	51023981	914	51370											
DMXL2	23312	broad.mit.edu	37	chr15	51772992	51772992	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagcagatcactctctactTtggaatatgtcttactggaa	11	13	7	10	0	3	1	1	0	2	1	4	3	3	3	1	2	3	1	1	2	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:51772992T>C	uc002abf.2	-	24	6536	c.6311A>G	c.(6310-6312)AAA>AGA	p.K2104R	DMXL2_uc002abd.2_Missense_Mutation_p.K174R|DMXL2_uc010ufy.1_Missense_Mutation_p.K2104R|DMXL2_uc010bfa.2_Missense_Mutation_p.K1468R	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	2104						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		ACTCTCTACTTTGGAATATGT	0.373													14	115					0	0	1	0	0		C	51772992	C	C	51772992	3	2	82	1	0	0	0	0	1	0	0	0	4601	1841	64	3	2882	3	DMXL2	15	51772992	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	265581	51772992	50758400	915	51371											
DMXL2	23312	broad.mit.edu	37	chr15	51783905	51783905	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatcagttcttcttcagccTcagaatgaaaagcccaggca	13	10	7	11	0	5	2	3	1	2	1	5	2	5	2	2	1	2	2	2	1	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:51783905T>G	uc002abf.2	-	20	5048	c.4823A>C	c.(4822-4824)GAG>GCG	p.E1608A	DMXL2_uc010ufy.1_Missense_Mutation_p.E1608A|DMXL2_uc010bfa.2_Missense_Mutation_p.E972A	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	1608						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		TTCTTCAGCCTCAGAATGAAA	0.393													9	87					0	0	1	0	0		G	51783905	G	G	51783905	3	3	82	1	0	0	0	0	1	0	0	0	4601	1551	54	5	4386	5	DMXL2	15	51783905	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	10913	51783905	50747487	916	51372											
MYO5A	4644	broad.mit.edu	37	chr15	52725446	52725446	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagctctgctgacttccAgacttcctctggatcaggta	8	11	10	12	0	3	2	1	1	2	1	5	4	5	3	2	2	3	4	2	2	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:52725446A>G	uc002aby.2	-	2	308	c.64T>C	c.(64-66)TGG>CGG	p.W22R	MYO5A_uc002abx.3_Missense_Mutation_p.W22R|MYO5A_uc010uge.1_5'UTR	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	22	Myosin head-like.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		GCTGACTTCCAGACTTCCTCT	0.378													11	67					0	0	1	0	0		G	52725446	G	G	52725446	3	3	82	1	0	0	0	0	1	0	0	0	10096	188	7	3	5663	3	MYO5A	15	52725446	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	941541	52725446	49805946	917	51373											
UNC13C	440279	broad.mit.edu	37	chr15	54305506	54305506	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcattaaatgaactaaggAgtagcacagaaaaccaggca	20	6	8	7	0	1	2	1	1	0	1	1	3	1	3	1	2	3	3	1	2	8	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:54305506A>C	uc002ack.2	+	1	406	c.406A>C	c.(406-408)AGT>CGT	p.S136R		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	136					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TGAACTAAGGAGTAGCACAGA	0.443													14	39					0	0	1	0	0		C	54305506	C	C	54305506	3	2	82	1	0	0	0	0	1	0	0	0	17012	304	11	5	408	5	UNC13C	15	54305506	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1580060	54305506	48225886	918	51374											
PIGB	9488	broad.mit.edu	37	chr15	55612587	55612587	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atactggcagtctcttgaagTttcacatcacatggttttca	10	15	7	9	0	4	1	3	1	1	0	5	1	4	1	0	2	1	3	0	2	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:55612587T>G	uc002act.2	+	2	594	c.278T>G	c.(277-279)GTT>GGT	p.V93G	uc002acs.2_5'Flank|PIGB_uc010ugg.1_Intron	NM_004855	NP_004846	Q92521	PIGB_HUMAN	phosphatidylinositol glycan, class B	93					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	integral to membrane|intrinsic to endoplasmic reticulum membrane	glycolipid mannosyltransferase activity				0				all cancers(107;0.0255)		TCTCTTGAAGTTTCACATCAC	0.328													16	34					0	0	1	0	0		G	55612587	G	G	55612587	3	3	82	1	0	0	0	0	1	0	0	0	11904	1725	60	5	284	5	PIGB	15	55612587	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1307081	55612587	46918805	919	51375											
TEX9	374618	broad.mit.edu	37	chr15	56686444	56686444	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtatgtgaatgcaataaaaAggtaagttttaaaaacctct	17	13	7	4	0	1	1	0	1	1	0	1	1	1	1	1	1	2	4	1	1	10	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:56686444A>C	uc002adp.2	+	8	658	c.653A>C	c.(652-654)AAG>ACG	p.K218T	TEX9_uc002ado.1_Missense_Mutation_p.K218T|TEX9_uc010ugl.1_Missense_Mutation_p.K143T|TEX9_uc002adq.1_Missense_Mutation_p.K143T	NM_198524	NP_940926	Q8N6V9	TEX9_HUMAN	testis expressed 9	218	Potential.										0				all cancers(107;0.0394)|GBM - Glioblastoma multiforme(80;0.056)		TGCAATAAAAAGGTAAGTTTT	0.269													6	101					0	0	1	0	0		C	56686444	C	C	56686444	3	2	82	1	0	0	0	0	1	0	0	0	15809	86	3	5	683	5	TEX9	15	56686444	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1073857	56686444	45844948	920	51376											
ZNF280D	54816	broad.mit.edu	37	chr15	56981564	56981564	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggtaatacagctgaggAatttgctccagaaacacttt	14	11	9	7	0	0	3	0	2	0	1	1	4	1	4	1	2	4	3	1	2	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:56981564A>C	uc002adu.2	-	8	821	c.604T>G	c.(604-606)TCC>GCC	p.S202A	ZNF280D_uc002adv.2_Missense_Mutation_p.S189A|ZNF280D_uc010bfq.2_Missense_Mutation_p.S202A|ZNF280D_uc002adw.1_Missense_Mutation_p.S230A|ZNF280D_uc010bfr.1_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	202					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		ACAGCTGAGGAATTTGCTCCA	0.358													12	38					0	0	1	0	0		C	56981564	C	C	56981564	3	2	82	1	0	0	0	0	1	0	0	0	17842	246	9	5	2395	5	ZNF280D	15	56981564	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	295120	56981564	45549828	921	51377											
RNF111	54778	broad.mit.edu	37	chr15	59373169	59373169	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccacttcatcatcaagcTtctgcctgcccgcattctca	8	11	6	16	1	5	0	4	0	2	0	6	0	5	0	3	1	3	2	3	1	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:59373169T>C	uc002afv.2	+	8	2262	c.1983T>C	c.(1981-1983)GCT>GCC	p.A661A	RNF111_uc002afs.2_Silent_p.A661A|RNF111_uc002aft.2_Silent_p.A661A|RNF111_uc002afu.2_Silent_p.A660A|RNF111_uc002afw.2_Silent_p.A661A|RNF111_uc002afx.2_Silent_p.A187A	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	661	Pro-rich.				multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		ATCATCAAGCTTCTGCCTGCC	0.438													33	94					0	0	1	0	0		C	59373169	C	C	59373169	2	2	82	1	0	0	0	0	0	0	0	1	13450	1596	56	3		3	RNF111	15	59373169	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2391605	59373169	43158223	922	51378											
MYO1E	4643	broad.mit.edu	37	chr15	59500962	59500962	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatctgcatctgaagtttcTggagcagcgtctgatctgcc	8	12	10	11	1	5	2	0	2	5	0	5	3	5	3	1	1	4	3	1	1	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:59500962T>C	uc002aga.2	-	14	1820	c.1448A>G	c.(1447-1449)CAG>CGG	p.Q483R		NM_004998	NP_004989	Q12965	MYO1E_HUMAN	myosin IE	483	Myosin head-like.				actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)		CTGAAGTTTCTGGAGCAGCGT	0.517													7	105					0	0	1	0	0		C	59500962	C	C	59500962	3	2	82	1	0	0	0	0	1	0	0	0	10090	1580	55	3	1938	3	MYO1E	15	59500962	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	127793	59500962	43030430	923	51379											
MYO1E	4643	broad.mit.edu	37	chr15	59553637	59553637	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgctccttggtacatttcAatttccttttccccaaaata	10	15	3	13	1	1	0	1	0	0	0	4	0	4	0	5	1	1	2	5	1	5	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:59553637A>C	uc002aga.2	-	3	591	c.219T>G	c.(217-219)ATT>ATG	p.I73M		NM_004998	NP_004989	Q12965	MYO1E_HUMAN	myosin IE	73	Myosin head-like.				actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)		GGTACATTTCAATTTCCTTTT	0.363													26	85					0	0	1	0	0		C	59553637	C	C	59553637	3	2	82	1	0	0	0	0	1	0	0	0	10090	126	5	5	3211	5	MYO1E	15	59553637	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	52675	59553637	42977755	924	51380											
USP3	9960	broad.mit.edu	37	chr15	63882994	63882994	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccttttctacgtggaacAccaggccaaagctggatcgg	10	9	10	12	2	1	0	0	0	1	0	3	2	2	2	3	4	3	1	3	4	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:63882994A>G	uc002amf.2	+	15	1661	c.1532A>G	c.(1531-1533)CAC>CGC	p.H511R	USP3_uc002amg.2_Missense_Mutation_p.H426R|USP3_uc002amh.2_Missense_Mutation_p.H489R|USP3_uc010uij.1_Missense_Mutation_p.H467R|USP3_uc010uik.1_Missense_Mutation_p.H262R|USP3_uc010bgs.2_Missense_Mutation_p.H494R|USP3_uc002ami.2_Missense_Mutation_p.H342R|uc002amj.2_Intron|uc002amk.2_Intron|uc002aml.2_Intron	NM_006537	NP_006528	Q9Y6I4	UBP3_HUMAN	ubiquitin thiolesterase 3	511					DNA repair|histone deubiquitination|mitotic cell cycle|regulation of protein stability|ubiquitin-dependent protein catabolic process	nuclear chromatin	histone binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(80;0.0187)		TACGTGGAACACCAGGCCAAA	0.458													31	105					0	0	1	0	0		G	63882994	G	G	63882994	3	3	82	1	0	0	0	0	1	0	0	0	17086	159	6	3	1590	3	USP3	15	63882994	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4329357	63882994	38648398	925	51381											
LARP6	55323	broad.mit.edu	37	chr15	71124941	71124941	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggatgctcgcagtgggcTcctcgtcatgatttttgtct	4	15	13	9	2	2	1	1	1	1	0	5	2	3	2	1	3	1	3	1	3	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:71124941T>C	uc002ass.2	-	3	997	c.926A>G	c.(925-927)GAG>GGG	p.E309G		NM_018357	NP_060827	Q9BRS8	LARP6_HUMAN	La ribonucleoprotein domain family, member 6	309					RNA processing	Golgi apparatus|nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0						CGCAGTGGGCTCCTCGTCATG	0.493													33	104					0	0	1	0	0		C	71124941	C	C	71124941	3	2	82	1	0	0	0	0	1	0	0	0	8648	1551	54	3	553	3	LARP6	15	71124941	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7241947	71124941	31406451	926	51382											
SEMA7A	8482	broad.mit.edu	37	chr15	74704005	74704005	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagacctcacacaggtccAggggcacctggctcacctcc	9	6	9	17	0	2	1	2	0	0	1	4	1	4	1	5	4	0	2	5	4	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:74704005A>G	uc002axv.2	-	12	1509	c.1469T>C	c.(1468-1470)CTG>CCG	p.L490P	SEMA7A_uc010ulk.1_Missense_Mutation_p.L325P|SEMA7A_uc010ull.1_Missense_Mutation_p.L476P	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	490	Sema.				axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						ACACAGGTCCAGGGGCACCTG	0.647													6	46					0	0	1	0	0		G	74704005	G	G	74704005	3	3	82	1	0	0	0	0	1	0	0	0	14068	188	7	3	543	3	SEMA7A	15	74704005	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3579064	74704005	27827387	927	51383											
PTPN9	5780	broad.mit.edu	37	chr15	75798030	75798030	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttacatggaacagtggaaAgtgccaacagggttctcacg	13	8	11	9	1	1	0	1	0	1	0	2	2	1	2	1	3	4	1	1	3	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:75798030A>T	uc002bal.2	-	7	1462	c.954T>A	c.(952-954)ACT>ACA	p.T318T		NM_002833	NP_002824	P43378	PTN9_HUMAN	protein tyrosine phosphatase, non-receptor type	318	Tyrosine-protein phosphatase.					cytoplasmic part	non-membrane spanning protein tyrosine phosphatase activity|protein binding			lung(1)|skin(1)	2						AACAGTGGAAAGTGCCAACAG	0.483													21	73					0	0	1	0	0		T	75798030	T	T	75798030	2	4	82	1	0	0	0	0	0	0	0	1	12819	59	3	5		5	PTPN9	15	75798030	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1094025	75798030	26733362	928	51384											
C15orf27	123591	broad.mit.edu	37	chr15	76449088	76449088	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaacttctaatagatataaAgcttctccagtgtgagtagc	13	12	9	7	0	2	2	0	1	2	1	3	3	2	3	1	1	3	2	1	1	7	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:76449088A>C	uc002bbq.2	+	4	526	c.371A>C	c.(370-372)AAG>ACG	p.K124T	C15orf27_uc010bkp.2_Intron|C15orf27_uc002bbr.2_Intron	NM_152335	NP_689548	Q2M3C6	CO027_HUMAN	hypothetical protein LOC123591	124						integral to membrane					0						ATAGATATAAAGCTTCTCCAG	0.428													9	81					0	0	1	0	0		C	76449088	C	C	76449088	3	2	82	1	0	0	0	0	1	0	0	0	1791	72	3	5	381	5	C15orf27	15	76449088	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	651058	76449088	26082304	929	51385											
SCAPER	49855	broad.mit.edu	37	chr15	76673782	76673782	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtaaactctgaatggccacTtggatggtattttgagtgta	10	14	11	6	1	1	2	0	2	1	0	1	3	1	3	1	3	1	3	1	3	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:76673782T>C	uc002bby.2	-	27	3701	c.3642A>G	c.(3640-3642)CAA>CAG	p.Q1214Q	SCAPER_uc010bkr.2_Silent_p.Q522Q|SCAPER_uc002bbx.2_Silent_p.Q968Q|SCAPER_uc002bbz.1_Silent_p.Q1085Q	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	1213						endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						GAATGGCCACTTGGATGGTAT	0.448													4	19					0	0	1	0	0		C	76673782	C	C	76673782	2	2	82	1	0	0	0	0	0	0	0	1	13903	1606	56	3		3	SCAPER	15	76673782	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	224694	76673782	25857610	930	51386											
ACSBG1	23205	broad.mit.edu	37	chr15	78486286	78486286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactcaccctgcaaatactGtgcccactgccgagaagaac	12	6	7	16	1	1	2	1	0	0	2	1	3	1	2	4	0	5	1	4	0	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:78486286G>A	uc002bdh.2	-	4	586	c.530C>T	c.(529-531)ACA>ATA	p.T177I	ACSBG1_uc010umw.1_Missense_Mutation_p.T173I|ACSBG1_uc010umx.1_Intron|ACSBG1_uc010umy.1_Missense_Mutation_p.T70I	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	177					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						TGCAAATACTGTGCCCACTGC	0.637													6	28					0	0	1	0	0		A	78486286	A	A	78486286	3	1	82	1	0	0	0	0	1	0	0	0	173	1377	48	4	1688	4	ACSBG1	15	78486286	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1812504	78486286	24045106	931	51387											
RASGRF1	5923	broad.mit.edu	37	chr15	79350698	79350698	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccttcagccgctcgatcTcgatctccccatcctcgatc	5	11	6	19	4	3	0	1	0	2	0	9	3	4	0	5	0	2	1	5	0	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:79350698T>G	uc002beq.2	-	3	884	c.509A>C	c.(508-510)GAG>GCG	p.E170A	RASGRF1_uc002bep.2_Missense_Mutation_p.E170A|RASGRF1_uc010blm.1_Missense_Mutation_p.E92A|RASGRF1_uc002ber.3_Missense_Mutation_p.E170A	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	170					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						CCGCTCGATCTCGATCTCCCC	0.612													7	83					0	0	1	0	0		G	79350698	G	G	79350698	3	3	82	1	0	0	0	0	1	0	0	0	13097	1551	54	5	3416	5	RASGRF1	15	79350698	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	864412	79350698	23180694	932	51388											
IL16	3603	broad.mit.edu	37	chr15	81592241	81592241	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaactgcctgacaaaggAgcccagagactgagcctcca	12	6	9	14	0	1	3	1	2	1	1	3	5	2	4	4	1	4	0	4	1	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:81592241A>C	uc002bgh.3	+	14	2950	c.2574A>C	c.(2572-2574)GGA>GGC	p.G858G	IL16_uc010blq.1_Silent_p.G812G|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Silent_p.G900G|IL16_uc002bgg.2_Silent_p.G858G|IL16_uc002bgi.1_Silent_p.G248G|IL16_uc002bgj.2_Silent_p.G352G|IL16_uc002bgk.2_Silent_p.G157G|IL16_uc002bgl.1_Silent_p.G157G|IL16_uc010unq.1_Silent_p.G157G	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	858					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						CTGACAAAGGAGCCCAGAGAC	0.512													11	45					0	0	1	0	0		C	81592241	C	C	81592241	2	2	82	1	0	0	0	0	0	0	0	1	7649	291	11	5		5	IL16	15	81592241	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2241543	81592241	20939151	933	51389											
FSD2	123722	broad.mit.edu	37	chr15	83447586	83447586	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggtctggtcttcaaacTcaggctgtgcagagatttcc	9	11	10	11	0	4	1	2	0	2	1	5	2	5	1	2	3	2	2	2	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:83447586T>G	uc002bjd.2	-	6	1210	c.1043A>C	c.(1042-1044)GAG>GCG	p.E348A	FSD2_uc010uol.1_Missense_Mutation_p.E348A|FSD2_uc010uom.1_Missense_Mutation_p.E348A	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	348										central_nervous_system(1)	1						GTCTTCAAACTCAGGCTGTGC	0.483													14	29					0	0	1	0	0		G	83447586	G	G	83447586	3	3	82	1	0	0	0	0	1	0	0	0	6085	1551	54	5	1238	5	FSD2	15	83447586	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1855345	83447586	19083806	934	51390											
ZNF592	9640	broad.mit.edu	37	chr15	85326908	85326908	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaccaaagagtccccggagCcctctggaggccactagaaa	12	5	10	14	1	2	2	1	0	1	2	3	4	3	4	5	3	1	0	5	3	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:85326908C>T	uc002bld.2	+	4	1338	c.1002C>T	c.(1000-1002)AGC>AGT	p.S334S	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	334					cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GTCCCCGGAGCCCTCTGGAGG	0.557													24	93					0	0	1	0	0		T	85326908	T	T	85326908	2	4	82	1	0	0	0	0	0	0	0	1	18047	738	26	2		2	ZNF592	15	85326908	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	1879322	85326908	17204484	935	51391											
ALPK3	57538	broad.mit.edu	37	chr15	85383097	85383097	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggcaaagctgcgcgagaTcgagcagagctggaagcacg	11	4	16	10	5	0	2	0	0	0	2	1	5	0	3	0	2	6	5	0	2	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:85383097T>G	uc002ble.2	+	5	1360	c.1193T>G	c.(1192-1194)ATC>AGC	p.I398S		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	398					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CTGCGCGAGATCGAGCAGAGC	0.637													15	46					0	0	1	0	0		G	85383097	G	G	85383097	3	3	82	1	0	0	0	0	1	0	0	0	546	1435	50	5	1211	5	ALPK3	15	85383097	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	56189	85383097	17148295	936	51392											
ALPK3	57538	broad.mit.edu	37	chr15	85411511	85411511	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtccatctgctggcaggAaaggctcccagctgagtcct	9	8	12	12	0	1	2	0	1	1	1	4	3	4	3	3	3	2	4	3	3	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:85411511A>G	uc002ble.2	+	14	5715	c.5548A>G	c.(5548-5550)AAA>GAA	p.K1850E	ALPK3_uc010upc.1_Missense_Mutation_p.K151E	NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1850					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			TGCTGGCAGGAAAGGCTCCCA	0.632													20	50					0	0	1	0	0		G	85411511	G	G	85411511	3	3	82	1	0	0	0	0	1	0	0	0	546	247	9	3	5602	3	ALPK3	15	85411511	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	28414	85411511	17119881	937	51393											
PDE8A	5151	broad.mit.edu	37	chr15	85656658	85656658	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccggatacattccatgacaAttgaggcgcccatcaccaag	12	7	8	14	2	1	2	1	2	0	0	2	3	2	3	4	2	1	0	4	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:85656658A>T	uc002blh.2	+	13	1354	c.1165A>T	c.(1165-1167)ATT>TTT	p.I389F	PDE8A_uc002bli.2_Missense_Mutation_p.I343F|PDE8A_uc010bnc.2_Missense_Mutation_p.I142F|PDE8A_uc010bnd.2_Missense_Mutation_p.I142F|PDE8A_uc002blj.2_Missense_Mutation_p.I9F|PDE8A_uc002blk.2_Missense_Mutation_p.I9F	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	389					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			TTCCATGACAATTGAGGCGCC	0.502													18	93					0	0	1	0	0		T	85656658	T	T	85656658	3	4	82	1	0	0	0	0	1	0	0	0	11672	101	4	5	1215	5	PDE8A	15	85656658	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	245147	85656658	16874734	938	51394											
DET1	55070	broad.mit.edu	37	chr15	89074106	89074106	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccatgcctgtctgactgtcCcgctgtacctcagggaaaac	8	9	10	14	1	2	1	1	1	1	0	3	2	3	2	4	1	3	2	4	1	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:89074106C>G	uc002bmr.2	-	2	983	c.831G>C	c.(829-831)CGG>CGC	p.R277R	DET1_uc002bmp.3_RNA|DET1_uc010bnk.2_RNA|DET1_uc002bmq.2_Silent_p.R288R	NM_001144074	NP_001137546	Q7L5Y6	DET1_HUMAN	de-etiolated 1 isoform 2	277						nucleus				lung(1)|pancreas(1)	2	Lung NSC(78;0.105)|all_lung(78;0.182)		BRCA - Breast invasive adenocarcinoma(143;0.188)			TCTGACTGTCCCGCTGTACCT	0.522													20	37					0	0	1	0	0		G	89074106	G	G	89074106	2	3	82	1	0	0	0	0	0	0	0	1	4456	610	22	5		5	DET1	15	89074106	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	3417448	89074106	13457286	939	51395											
IQGAP1	8826	broad.mit.edu	37	chr15	91009655	91009655	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgctgaagccaagaagaaAaaactggcagtaggtgagtt	15	8	12	6	0	0	4	0	2	0	2	0	4	0	4	1	2	3	4	1	2	7	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:91009655A>C	uc002bpl.1	+	17	2123	c.2022A>C	c.(2020-2022)AAA>AAC	p.K674N		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	674					energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			CCAAGAAGAAAAAACTGGCAG	0.463													6	51					0	0	1	0	0		C	91009655	C	C	91009655	3	2	82	1	0	0	0	0	1	0	0	0	7830	11	1	5	2088	5	IQGAP1	15	91009655	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1935549	91009655	11521737	940	51396											
BLM	641	broad.mit.edu	37	chr15	91358410	91358410	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagttcagcctcacatacTtctcaagcgacatcaggagc	11	9	7	14	1	4	0	4	0	1	0	6	2	5	1	2	1	4	1	2	1	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:91358410T>C	uc002bpr.2	+	22	4252	c.4155T>C	c.(4153-4155)ACT>ACC	p.T1385T	BLM_uc010uqh.1_Silent_p.T1385T|BLM_uc010uqi.1_Silent_p.T1010T|BLM_uc010bnx.2_Silent_p.T1254T|BLM_uc002bpt.2_Silent_p.T360T	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	1385					double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			CCTCACATACTTCTCAAGCGA	0.423			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				32	68					0	0	1	0	0		C	91358410	C	C	91358410	2	2	82	1	0	0	0	0	0	0	0	1	1446	1596	56	3		3	BLM	15	91358410	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	348755	91358410	11172982	941	51397											
C15orf32	145858	broad.mit.edu	37	chr15	93015408	93015408	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacaagtgtggatgcttcAaaggaagacttgcacccggc	13	7	12	9	1	1	2	1	0	0	2	1	4	1	4	1	3	3	2	1	3	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:93015408A>G	uc002brc.1	+	1	502	c.30A>G	c.(28-30)TCA>TCG	p.S10S	C15orf32_uc010bod.1_RNA	NM_153040	NP_694585	Q32M92	CO032_HUMAN	hypothetical protein LOC145858	10										ovary(1)	1	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0493)|OV - Ovarian serous cystadenocarcinoma(32;0.125)			TGGATGCTTCAAAGGAAGACT	0.338													16	32					0	0	1	0	0		G	93015408	G	G	93015408	2	3	82	1	0	0	0	0	0	0	0	1	1793	117	5	3		3	C15orf32	15	93015408	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1656998	93015408	9515984	942	51398											
SPATA8	145946	broad.mit.edu	37	chr15	97326897	97326897	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgaggaatggccccggcTgggatgtcaggggcccagga	8	5	18	10	1	1	1	1	1	0	0	1	4	1	4	3	7	0	2	3	7	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:97326897T>C	uc002bue.2	+	1	222	c.12T>C	c.(10-12)GCT>GCC	p.A4A	uc010uro.1_5'Flank|uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8	4										ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			TGGCCCCGGCTGGGATGTCAG	0.577													13	45					0	0	1	0	0		C	97326897	C	C	97326897	2	2	82	1	0	0	0	0	0	0	0	1	15040	1567	55	3		3	SPATA8	15	97326897	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4311489	97326897	5204495	943	51399											
IGF1R	3480	broad.mit.edu	37	chr15	99192862	99192862	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcgctgtgggggctcctgTttctctccgccgcgctctcg	0	12	12	17	5	2	0	0	0	2	0	7	0	4	0	4	2	0	4	4	2	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:99192862T>A	uc002bul.2	+	1	102	c.52T>A	c.(52-54)TTT>ATT	p.F18I	IGF1R_uc010urq.1_Missense_Mutation_p.F18I|IGF1R_uc010bon.2_Missense_Mutation_p.F18I	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	18					anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	GGGGCTCCTGTTTCTCTCCGC	0.572													16	43					0	0	1	0	0		A	99192862	A	A	99192862	3	1	82	1	0	0	0	0	1	0	0	0	7587	1725	60	5	54	5	IGF1R	15	99192862	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1865965	99192862	3338530	944	51400											
TTC23	64927	broad.mit.edu	37	chr15	99696485	99696485	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggcttccagggactctctCaggatcgaggttgctctctg	5	13	12	11	1	3	0	1	0	2	0	7	3	4	2	1	4	1	3	1	4	0	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:99696485C>T	uc002bur.2	-	11	1542	c.1011G>A	c.(1009-1011)CTG>CTA	p.L337L	TTC23_uc002bus.2_Silent_p.L337L|TTC23_uc002but.2_Silent_p.L337L|TTC23_uc002buu.2_Silent_p.L337L|TTC23_uc002buv.2_Silent_p.L337L|TTC23_uc002bux.2_Silent_p.L337L|TTC23_uc002buw.2_Silent_p.L337L|TTC23_uc010boq.2_RNA|TTC23_uc002buy.2_Silent_p.L337L|TTC23_uc010bor.2_Silent_p.L337L|TTC23_uc002buz.2_Silent_p.L337L	NM_022905	NP_075056	Q5W5X9	TTC23_HUMAN	tetratricopeptide repeat domain 23	337							binding				0	all_cancers(4;1.49e-13)|Lung NSC(78;0.000545)|all_lung(78;0.00121)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		all cancers(5;8.11e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00215)			GGGACTCTCTCAGGATCGAGG	0.502													13	61					0	0	1	0	0		T	99696485	T	T	99696485	2	4	82	1	0	0	0	0	0	0	0	1	16716	813	29	4		4	TTC23	15	99696485	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	503623	99696485	2834907	945	51401											
LRRK1	79705	broad.mit.edu	37	chr15	101609038	101609038	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggctggaggcttgcacTcgcaagagaaggtaattcct	9	8	14	10	2	0	1	0	0	0	1	2	3	1	2	2	5	1	5	2	5	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr15:101609038T>A	uc002bwr.2	+	34	6352	c.6033T>A	c.(6031-6033)ACT>ACA	p.T2011T	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bws.2_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	2011					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			AGGCTTGCACTCGCAAGAGAA	0.617													15	34					0	0	1	0	0		A	101609038	A	A	101609038	2	1	82	1	0	0	0	0	0	0	0	1	9050	1538	54	5		5	LRRK1	15	101609038	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1912553	101609038	922354	946	51402											
NUBP2	10101	broad.mit.edu	37	chr16	1836884	1836884	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccgggagcagagcatcTcgctcatgtctgtgggcttc	6	10	14	11	2	3	1	1	0	2	1	5	3	3	3	1	3	2	4	1	3	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:1836884T>C	uc002cmw.3	+	3	351	c.262T>C	c.(262-264)TCG>CCG	p.S88P	NUBP2_uc002cmx.3_Intron|NUBP2_uc010brx.2_Missense_Mutation_p.S28P	NM_012225	NP_036357	Q9Y5Y2	NUBP2_HUMAN	nucleotide binding protein 2 (MinD homolog, E.	88						microtubule organizing center|nucleus	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding|protein binding				0						GCAGAGCATCTCGCTCATGTC	0.697													5	21					0	0	1	0	0		C	1836884	C	C	1836884	3	2	82	1	0	0	0	0	1	0	0	0	10735	1551	54	3	272	3	NUBP2	16	1836884	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08		1836884	88517869	947	51403											
RPL3L	6123	broad.mit.edu	37	chr16	1995925	1995925	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacttccccgtagtgggggaAgccaccctgcagaggacaca	10	5	12	14	1	0	1	0	0	0	1	1	3	1	3	4	3	2	2	4	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:1995925A>C	uc002cnh.2	-	8	1005	c.958T>G	c.(958-960)TTC>GTC	p.F320V	SEPX1_uc010uvs.1_5'Flank	NM_005061	NP_005052	Q92901	RL3L_HUMAN	ribosomal protein L3-like	320					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	RNA binding|structural constituent of ribosome				0						TAGTGGGGGAAGCCACCCTGC	0.597													18	68					0	0	1	0	0		C	1995925	C	C	1995925	3	2	82	1	0	0	0	0	1	0	0	0	13619	72	3	5	277	5	RPL3L	16	1995925	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	159041	1995925	88358828	948	51404											
ZSCAN10	84891	broad.mit.edu	37	chr16	3140576	3140576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgggactctgctaagatggGagtgggccaggcagcccctt	7	8	15	11	0	1	1	0	0	1	1	1	3	1	3	3	4	2	2	3	4	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:3140576G>A	uc002ctv.1	-	5	782	c.694C>T	c.(694-696)CCC>TCC	p.P232S	ZSCAN10_uc002cty.1_5'UTR|ZSCAN10_uc002ctw.1_Missense_Mutation_p.P150S|ZSCAN10_uc002ctx.1_Missense_Mutation_p.P160S	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	232					negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GCTAAGATGGGAGTGGGCCAG	0.607													8	63					0	0	1	0	0		A	3140576	A	A	3140576	3	1	82	1	0	0	0	0	1	0	0	0	18252	1174	41	4	1487	4	ZSCAN10	16	3140576	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1144651	3140576	87214177	949	51405											
C16orf71	146562	broad.mit.edu	37	chr16	4787904	4787904	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatcctgccgatggcgacaAgtccagggcctgggtcgctg	7	7	15	12	3	0	1	0	0	0	1	3	3	2	1	4	3	1	1	4	3	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:4787904A>C	uc002cxn.2	+	3	695	c.233A>C	c.(232-234)AAG>ACG	p.K78T		NM_139170	NP_631909	Q8IYS4	CP071_HUMAN	hypothetical protein LOC146562	78										central_nervous_system(1)	1						GATGGCGACAAGTCCAGGGCC	0.557													15	49					0	0	1	0	0		C	4787904	C	C	4787904	3	2	82	1	0	0	0	0	1	0	0	0	1833	72	3	5	239	5	C16orf71	16	4787904	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1647328	4787904	85566849	950	51406											
PPL	5493	broad.mit.edu	37	chr16	4951037	4951037	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagatgttatgctcctccacTtggtggtccaccagcggcag	8	10	11	12	1	0	1	0	0	0	1	3	1	3	1	4	3	2	3	4	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:4951037T>G	uc002cyd.1	-	5	582	c.492A>C	c.(490-492)CAA>CAC	p.Q164H		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	164					keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						GCTCCTCCACTTGGTGGTCCA	0.617													10	59					0	0	1	0	0		G	4951037	G	G	4951037	3	3	82	1	0	0	0	0	1	0	0	0	12356	1606	56	5	4850	5	PPL	16	4951037	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	163133	4951037	85403716	951	51407											
GRIN2A	2903	broad.mit.edu	37	chr16	10274067	10274067	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagcagagctaccacgtTcacgtccaggggcagccccg	9	5	11	16	3	2	1	2	0	0	1	3	1	3	1	4	2	4	4	4	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:10274067T>G	uc002czo.3	-	2	750	c.202A>C	c.(202-204)AAC>CAC	p.N68H	GRIN2A_uc010uym.1_Missense_Mutation_p.N68H|GRIN2A_uc002czr.3_Missense_Mutation_p.N68H|GRIN2A_uc010buk.2_Missense_Mutation_p.N68H	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	68	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GCTACCACGTTCACGTCCAGG	0.637													6	105					0	0	1	0	0		G	10274067	G	G	10274067	3	3	82	1	0	0	0	0	1	0	0	0	6795	1783	62	5	4240	5	GRIN2A	16	10274067	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5323030	10274067	80080686	952	51408											
CLEC16A	23274	broad.mit.edu	37	chr16	11217681	11217681	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcgtccagcccccattccaAgcccttccccatcctccagg	6	8	6	21	1	0	0	0	0	0	0	5	0	5	0	9	1	3	0	9	1	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:11217681A>C	uc002dao.2	+	21	2581	c.2351A>C	c.(2350-2352)AAG>ACG	p.K784T	CLEC16A_uc002dan.3_Missense_Mutation_p.K766T|CLEC16A_uc002dap.2_5'Flank	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	784										ovary(1)|central_nervous_system(1)	2						CCCCATTCCAAGCCCTTCCCC	0.617													12	64					0	0	1	0	0		C	11217681	C	C	11217681	3	2	82	1	0	0	0	0	1	0	0	0	3503	72	3	5	2429	5	CLEC16A	16	11217681	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	943614	11217681	79137072	953	51409											
GPR139	124274	broad.mit.edu	37	chr16	20043272	20043272	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgatgaagcagtagaggaAgaagttgatggctgtgttca	12	10	15	4	0	1	5	1	3	0	2	1	6	1	6	0	2	1	6	0	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:20043272A>C	uc002dgu.1	-	2	1009	c.847T>G	c.(847-849)TTC>GTC	p.F283V	GPR139_uc010vaw.1_Missense_Mutation_p.F190V	NM_001002911	NP_001002911	Q6DWJ6	GP139_HUMAN	G protein-coupled receptor 139	283	Helical; Name=7; (Potential).					integral to membrane|plasma membrane				ovary(2)	2						CAGTAGAGGAAGAAGTTGATG	0.537													8	112					0	0	1	0	0		C	20043272	C	C	20043272	3	2	82	1	0	0	0	0	1	0	0	0	6663	72	3	5	218	5	GPR139	16	20043272	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	8825591	20043272	70311481	954	51410											
NDUFAB1	4706	broad.mit.edu	37	chr16	23593647	23593647	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgcaatgtaatctacaatTtcttgtggacacattaactt	12	16	5	8	0	3	0	0	0	3	0	3	1	3	1	0	1	3	2	0	1	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:23593647T>G	uc002dlw.2	-	4	457	c.429A>C	c.(427-429)GAA>GAC	p.E143D		NM_005003	NP_004994	O14561	ACPM_HUMAN	NADH dehydrogenase (ubiquinone) 1, alpha/beta	143					fatty acid biosynthetic process|mitochondrial electron transport, NADH to ubiquinone	mitochondrial matrix|mitochondrial respiratory chain complex I	acyl carrier activity|calcium ion binding|cofactor binding|fatty acid binding|NADH dehydrogenase (ubiquinone) activity|phosphopantetheine binding				0				GBM - Glioblastoma multiforme(48;0.0339)	NADH(DB00157)	AATCTACAATTTCTTGTGGAC	0.289													3	11					0	0	1	0	0		G	23593647	G	G	23593647	3	3	82	1	0	0	0	0	1	0	0	0	10292	1838	64	5	45	5	NDUFAB1	16	23593647	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3550375	23593647	66761106	955	51411											
C16orf82	162083	broad.mit.edu	37	chr16	27078600	27078600	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcgggtacgcaggggacaAggagggcagcgacatcagct	11	3	17	10	3	1	0	1	0	0	0	1	3	1	2	0	5	4	4	0	5	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:27078600A>C	uc010vcm.1	+	1	382	c.284A>C	c.(283-285)AAG>ACG	p.K95T		NM_001145545	NP_001139017	Q7Z2V1	TNT_HUMAN	hypothetical protein LOC162083	158											0						GCAGGGGACAAGGAGGGCAGC	0.647													3	9					0	0	1	0	0		C	27078600	C	C	27078600	3	2	82	1	0	0	0	0	1	0	0	0	1841	72	3	5	286	5	C16orf82	16	27078600	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3484953	27078600	63276153	956	51412											
ITGAL	3683	broad.mit.edu	37	chr16	30495458	30495458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaaagcattttcagaccaagGagagtcaggagaccctccac	14	6	10	11	0	2	3	2	0	0	3	3	6	3	3	3	2	1	1	3	2	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:30495458G>A	uc002dyi.3	+	9	1056	c.880G>A	c.(880-882)GAG>AAG	p.E294K	ITGAL_uc010veu.1_RNA|ITGAL_uc002dyj.3_Missense_Mutation_p.E211K|ITGAL_uc010vev.1_Intron	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	294	VWFA.|Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	TCAGACCAAGGAGAGTCAGGA	0.443													50	113					0	0	1	0	0		A	30495458	A	A	30495458	3	1	82	1	0	0	0	0	1	0	0	0	7902	1175	41	4	914	4	ITGAL	16	30495458	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	3416858	30495458	59859295	957	51413											
PRR14	78994	broad.mit.edu	37	chr16	30667596	30667596	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgccttgctcctggaggaAgaaacagtagatcgggagca	12	7	14	8	1	0	2	0	0	0	2	2	6	1	5	2	3	4	3	2	3	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:30667596A>C	uc002dyy.2	+	12	1980	c.1722A>C	c.(1720-1722)GAA>GAC	p.E574D	PRR14_uc002dyz.2_Missense_Mutation_p.E419D|PRR14_uc002dza.2_Missense_Mutation_p.E574D	NM_024031	NP_076936	Q9BWN1	PRR14_HUMAN	proline rich 14	574											0			Colorectal(24;0.103)			TCCTGGAGGAAGAAACAGTAG	0.592													19	50					0	0	1	0	0		C	30667596	C	C	30667596	3	2	82	1	0	0	0	0	1	0	0	0	12608	69	3	5	1764	5	PRR14	16	30667596	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	172138	30667596	59687157	958	51414											
SRCAP	10847	broad.mit.edu	37	chr16	30733499	30733499	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcacaacgtccagtggctAatgcagggggaagcaaacct	12	6	13	10	1	0	0	0	0	0	0	1	1	1	1	2	4	4	4	2	4	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:30733499A>T	uc002dze.1	+	22	3983	c.3598A>T	c.(3598-3600)AAT>TAT	p.N1200Y	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.N1057Y|SRCAP_uc010bzz.1_Missense_Mutation_p.N770Y	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1200	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			TCCAGTGGCTAATGCAGGGGG	0.572													29	86					0	0	1	0	0		T	30733499	T	T	30733499	3	4	82	1	0	0	0	0	1	0	0	0	15160	362	13	5	3676	5	SRCAP	16	30733499	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	65903	30733499	59621254	959	51415											
ORAI3	93129	broad.mit.edu	37	chr16	30964606	30964606	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctggtggctgtgcaccTctttgcactcatggtctcca	4	13	11	13	1	3	0	1	0	2	0	4	0	3	0	2	3	3	4	2	3	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:30964606T>G	uc002eac.2	+	2	535	c.329T>G	c.(328-330)CTC>CGC	p.L110R		NM_152288	NP_689501	Q9BRQ5	ORAI3_HUMAN	ORAI calcium release-activated calcium modulator	110	Helical; (Potential).					integral to membrane	protein binding				0						GCTGTGCACCTCTTTGCACTC	0.602											OREG0023742	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	56					0	0	1	0	0		G	30964606	G	G	30964606	3	3	82	1	0	0	0	0	1	0	0	0	11278	1551	54	5	335	5	ORAI3	16	30964606	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	231107	30964606	59390147	960	51416											
ITGAD	3681	broad.mit.edu	37	chr16	31405555	31405555	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccaccaaatattcctcAgtcctggcttcttatcatgg	8	12	6	15	1	3	0	2	0	1	0	5	0	5	0	5	2	0	1	5	2	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:31405555A>G	uc002ebv.1	+	2	81	c.32_splice	c.e2-2	p.V11_splice	ITGAD_uc010vfl.1_Splice_Site_p.V11_splice|ITGAD_uc010cap.1_Splice_Site_p.V11_splice	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor						cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						AATATTCCTCAGTCCTGGCTT	0.483													9	35					0	0	1	0	0		G	31405555	G	G	31405555	5	3	82	1	0	0	0	0	0	0	1	0	7900	202	7	3	36	3	ITGAD	16	31405555	Splice_Site	SNP	A	TCGA-BR-8589-01A-11D-2394-08	440949	31405555	58949198	961	51417											
CYLD	1540	broad.mit.edu	37	chr16	50830253	50830253	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtggtcagaatggcttcaAcattcctcaagtcaccccat	11	10	8	12	0	4	1	4	0	0	1	5	1	5	1	3	3	1	1	3	3	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:50830253A>T	uc002egp.1	+	19	3120	c.2705A>T	c.(2704-2706)AAC>ATC	p.N902I	CYLD_uc002egq.1_Missense_Mutation_p.N899I|CYLD_uc002egr.1_Missense_Mutation_p.N899I	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	902					cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				AATGGCTTCAACATTCCTCAA	0.458			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				24	58					0	0	1	0	0		T	50830253	T	T	50830253	3	4	82	1	0	0	0	0	1	0	0	0	4146	43	2	5	2771	5	CYLD	16	50830253	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	19424698	50830253	39524500	962	51418											
CCDC135	84229	broad.mit.edu	37	chr16	57760158	57760158	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtggacagcaaaggcaacaAgatcatcatgacgcccgaca	15	4	11	11	2	2	2	2	1	0	1	2	4	2	3	1	3	2	2	1	3	3	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:57760158A>C	uc002emi.2	+	13	2026	c.1937A>C	c.(1936-1938)AAG>ACG	p.K646T	CCDC135_uc002emj.2_Missense_Mutation_p.K646T|CCDC135_uc002emk.2_Missense_Mutation_p.K581T	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	646						cytoplasm				central_nervous_system(1)	1						AAAGGCAACAAGATCATCATG	0.652													15	36					0	0	1	0	0		C	57760158	C	C	57760158	3	2	82	1	0	0	0	0	1	0	0	0	2772	72	3	5	1983	5	CCDC135	16	57760158	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6929905	57760158	32594595	963	51419											
C16orf57	79650	broad.mit.edu	37	chr16	58048232	58048232	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatcaagagaaaaccaggTgggtcctcccaacccccaat	14	5	7	15	0	1	1	1	0	0	1	3	2	3	1	6	2	2	0	6	2	6	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:58048232T>A	uc002emz.2	+	4	586	c.503_splice	c.e4+2	p.R168_splice	C16orf57_uc010vib.1_Intron	NM_024598	NP_078874	Q9BQ65	CP057_HUMAN	hypothetical protein LOC79650												0						GAAAACCAGGTGGGTCCTCCC	0.378													6	25					0	0	1	0	0		A	58048232	A	A	58048232	5	1	82	1	0	0	0	0	0	0	1	0	1824	1710	59	5	519	5	C16orf57	16	58048232	Splice_Site	SNP	T	TCGA-BR-8589-01A-11D-2394-08	288074	58048232	32306521	964	51420											
CSNK2A2	1459	broad.mit.edu	37	chr16	58201605	58201605	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctgatagtccacgaggAgctctggtcccttgaagtac	9	11	10	11	1	1	2	0	2	1	0	3	4	3	3	3	2	3	2	3	2	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:58201605A>G	uc002enc.2	-	7	750	c.608T>C	c.(607-609)CTC>CCC	p.L203P		NM_001896	NP_001887	P19784	CSK22_HUMAN	casein kinase 2, alpha prime polypeptide	203	Protein kinase.				axon guidance|Wnt receptor signaling pathway	cytosol|nucleus	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						GTCCACGAGGAGCTCTGGTCC	0.443													24	53					0	0	1	0	0		G	58201605	G	G	58201605	3	3	82	1	0	0	0	0	1	0	0	0	3961	304	11	3	464	3	CSNK2A2	16	58201605	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	153373	58201605	32153148	965	51421											
NFATC3	4775	broad.mit.edu	37	chr16	68156367	68156367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatttatgatgatgtggactCagagttgaatgaagctgcag	12	13	12	4	0	1	5	1	4	0	1	1	6	1	6	0	1	2	3	0	1	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:68156367C>T	uc002evo.1	+	2	791	c.581C>T	c.(580-582)TCA>TTA	p.S194L	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Missense_Mutation_p.S194L|NFATC3_uc002evm.1_Missense_Mutation_p.S194L|NFATC3_uc002evn.1_Missense_Mutation_p.S194L|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	194					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		GATGTGGACTCAGAGTTGAAT	0.493													17	49					0	0	1	0	0		T	68156367	T	T	68156367	3	4	82	1	0	0	0	0	1	0	0	0	10383	838	29	4	587	4	NFATC3	16	68156367	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	9954762	68156367	22198386	966	51422											
NFATC3	4775	broad.mit.edu	37	chr16	68225203	68225203	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctgtgcataccctgccTcatctgcaatcaatgggata	10	12	7	12	0	4	0	2	0	2	0	4	1	4	1	2	1	4	2	2	1	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:68225203T>G	uc002evo.1	+	9	2841	c.2631T>G	c.(2629-2631)CCT>CCG	p.P877P	NFATC3_uc010vkl.1_Silent_p.P398P|NFATC3_uc010vkm.1_Silent_p.P398P|NFATC3_uc010vkn.1_Silent_p.P398P|NFATC3_uc010vko.1_Silent_p.P398P|NFATC3_uc010vkp.1_Silent_p.P398P|NFATC3_uc010vkq.1_Silent_p.P398P|NFATC3_uc002evl.2_Silent_p.P398P|NFATC3_uc002evk.2_Silent_p.P877P|NFATC3_uc002evm.1_Silent_p.P877P|NFATC3_uc002evn.1_Silent_p.P877P|NFATC3_uc010vkr.1_Silent_p.P398P|NFATC3_uc010vks.1_Silent_p.P398P|NFATC3_uc010vkt.1_Silent_p.P398P|NFATC3_uc010vku.1_Silent_p.P398P|NFATC3_uc010vkv.1_Silent_p.P398P|NFATC3_uc010vkw.1_Silent_p.P398P|NFATC3_uc010vkx.1_Silent_p.P398P|NFATC3_uc010vky.1_Silent_p.P398P|NFATC3_uc010vkz.1_Silent_p.P398P|NFATC3_uc010vla.1_Silent_p.P398P|NFATC3_uc010vlb.1_Silent_p.P398P|NFATC3_uc010vlc.1_Silent_p.P398P	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	877					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		ATACCCTGCCTCATCTGCAAT	0.443													9	194					0	0	1	0	0		G	68225203	G	G	68225203	2	3	82	1	0	0	0	0	0	0	0	1	10383	1538	54	5		5	NFATC3	16	68225203	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	68836	68225203	22129550	967	51423											
HYDIN	54768	broad.mit.edu	37	chr16	71008176	71008176	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcacaatgaggtagattcTttacacgatctagctcagta	12	14	7	8	1	4	2	2	1	2	1	4	3	4	2	0	1	2	3	0	1	5	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:71008176T>G	uc002ezr.2	-	33	5062	c.4934A>C	c.(4933-4935)AAG>ACG	p.K1645T		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	1646										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				AGGTAGATTCTTTACACGATC	0.418													10	17					0	0	1	0	0		G	71008176	G	G	71008176	3	3	82	1	0	0	0	0	1	0	0	0	7483	1609	56	5	10644	5	HYDIN	16	71008176	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2782973	71008176	19346577	968	51424											
FTSJD1	55783	broad.mit.edu	37	chr16	71317997	71317997	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagcaatgaacagctaaaAgttgtgagttcagctgattc	14	11	10	6	0	1	4	1	4	0	0	2	4	1	4	0	0	4	5	0	0	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:71317997A>G	uc010cga.2	-	3	2233	c.1827T>C	c.(1825-1827)ACT>ACC	p.T609T	FTSJD1_uc002ezy.3_Silent_p.T609T|FTSJD1_uc002ezz.3_Silent_p.T609T	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	609						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						AACAGCTAAAAGTTGTGAGTT	0.418													15	63					0	0	1	0	0		G	71317997	G	G	71317997	2	3	82	1	0	0	0	0	0	0	0	1	6104	59	3	3		3	FTSJD1	16	71317997	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	309821	71317997	19036756	969	51425											
TAT	6898	broad.mit.edu	37	chr16	71610309	71610309	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgctcatctgaatcatgtAtgggtccatcactagcgaag	10	11	10	10	1	4	1	3	1	1	0	5	2	5	1	1	1	2	3	1	1	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:71610309A>G	uc002fap.2	-	2	109	c.10T>C	c.(10-12)TAC>CAC	p.Y4H	TAT_uc002faq.2_Missense_Mutation_p.Y4H|TAT_uc002far.2_Missense_Mutation_p.Y4H	NM_000353	NP_000344	P17735	ATTY_HUMAN	tyrosine aminotransferase	4					2-oxoglutarate metabolic process|glutamate metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	1-aminocyclopropane-1-carboxylate synthase activity|L-tyrosine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(2)	2		Ovarian(137;0.125)		Kidney(780;0.0157)	L-Glutamic Acid(DB00142)|L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Pyridoxal Phosphate(DB00114)	TGAATCATGTATGGGTCCATC	0.507													14	44					0	0	1	0	0		G	71610309	G	G	71610309	3	3	82	1	0	0	0	0	1	0	0	0	15615	449	16	3	1398	3	TAT	16	71610309	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	292312	71610309	18744444	970	51426											
HP	3240	broad.mit.edu	37	chr16	72094025	72094025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagtatgtgggaagcccAagaatccggcaaacccagtg	13	6	12	10	1	0	2	0	1	0	1	1	3	1	3	3	2	2	2	3	2	5	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:72094025A>G	uc002fbr.3	+	7	501	c.457A>G	c.(457-459)AAG>GAG	p.K153E	TXNL4B_uc010cgl.2_Intron|HP_uc010cgm.2_Missense_Mutation_p.K94E|HP_uc002fbt.3_Missense_Mutation_p.K94E|HP_uc002fbu.1_Intron|HP_uc002fbv.3_Missense_Mutation_p.K64E|HP_uc002fbw.3_5'UTR|HP_uc002fbx.3_5'UTR	NM_005143	NP_005134	P00738	HPT_HUMAN	haptoglobin isoform 1 preproprotein	153					cellular iron ion homeostasis|defense response|negative regulation of hydrogen peroxide catabolic process|negative regulation of oxidoreductase activity|positive regulation of cell death|proteolysis|response to hydrogen peroxide	extracellular region|haptoglobin-hemoglobin complex	hemoglobin binding|serine-type endopeptidase activity				0		Renal(780;9.67e-05)|Ovarian(137;0.00327)|Hepatocellular(780;0.114)		BRCA - Breast invasive adenocarcinoma(221;0.00015)|Kidney(780;0.000529)		TGGGAAGCCCAAGAATCCGGC	0.542													9	23					0	0	1	0	0		G	72094025	G	G	72094025	3	3	82	1	0	0	0	0	1	0	0	0	7343	131	5	3	483	3	HP	16	72094025	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	483716	72094025	18260728	971	51427											
LDHD	197257	broad.mit.edu	37	chr16	75147704	75147704	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactccaggaagagtgtgggCgccactaagcaattcagctt	12	8	11	10	1	1	1	1	0	0	1	2	2	2	2	2	2	3	2	2	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:75147704C>T	uc002fdm.2	-	7	1010	c.963G>A	c.(961-963)GCG>GCA	p.A321A	LDHD_uc002fdn.2_Silent_p.A298A	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	321							D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						AGAGTGTGGGCGCCACTAAGC	0.607													19	66					0	0	1	0	0		T	75147704	T	T	75147704	2	4	82	1	0	0	0	0	0	0	0	1	8719	755	27	1		1	LDHD	16	75147704	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	3053679	75147704	15207049	972	51428											
KARS	3735	broad.mit.edu	37	chr16	75664405	75664405	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttccaggaactccccaacaAgcttaatgagaaagcaaagc	16	6	7	12	0	0	1	0	1	0	1	2	3	2	2	3	1	5	2	3	1	6	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:75664405A>C	uc002feq.2	-	11	1388	c.1340T>G	c.(1339-1341)CTT>CGT	p.L447R	KARS_uc002fer.2_Missense_Mutation_p.L475R|KARS_uc002fes.2_Missense_Mutation_p.L291R	NM_005548	NP_005539	Q15046	SYK_HUMAN	lysyl-tRNA synthetase isoform 2	447					interspecies interaction between organisms|lysyl-tRNA aminoacylation|tRNA processing	cytosol|extracellular region|mitochondrial matrix|nucleus|plasma membrane|soluble fraction	ATP binding|lysine-tRNA ligase activity|metal ion binding|tRNA binding			ovary(2)	2					L-Lysine(DB00123)	CTCCCCAACAAGCTTAATGAG	0.423													5	41					0	0	1	0	0		C	75664405	C	C	75664405	3	2	82	1	0	0	0	0	1	0	0	0	7996	86	3	5	469	5	KARS	16	75664405	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	516701	75664405	14690348	973	51429											
CNTNAP4	85445	broad.mit.edu	37	chr16	76486611	76486611	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctctttctgagtgatggAaaacttaagtcgaatctcta	11	14	7	9	1	3	2	0	2	3	0	6	4	4	3	1	1	1	0	1	1	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:76486611A>T	uc002feu.1	+	10	1663	c.1278A>T	c.(1276-1278)GGA>GGT	p.G426G	CNTNAP4_uc002fev.1_Silent_p.G290G|CNTNAP4_uc010chb.1_Silent_p.G353G|CNTNAP4_uc002fex.1_Silent_p.G429G|CNTNAP4_uc002few.2_Silent_p.G401G	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	426	Extracellular (Potential).|Laminin G-like 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TGAGTGATGGAAAACTTAAGT	0.433													14	36					0	0	1	0	0		T	76486611	T	T	76486611	2	4	82	1	0	0	0	0	0	0	0	1	3652	233	9	5		5	CNTNAP4	16	76486611	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	822206	76486611	13868142	974	51430											
PLCG2	5336	broad.mit.edu	37	chr16	81953163	81953163	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggggacctccgcctattTtgagagtctggtggagctcg	5	11	15	10	2	1	1	0	1	1	1	3	4	2	3	3	4	1	2	3	4	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:81953163T>C	uc002fgt.2	+	20	2281	c.2129T>C	c.(2128-2130)TTT>TCT	p.F710S	PLCG2_uc010chg.1_Missense_Mutation_p.F710S	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	710	SH2 2.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						TCCGCCTATTTTGAGAGTCTG	0.577													19	73					0	0	1	0	0		C	81953163	C	C	81953163	3	2	82	1	0	0	0	0	1	0	0	0	12055	1841	64	3	2203	3	PLCG2	16	81953163	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5466552	81953163	8401590	975	51431											
SDR42E1	93517	broad.mit.edu	37	chr16	82033269	82033269	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggtccccgtagacaaacTtgaacagacccttctcgatg	10	9	10	12	2	1	3	0	1	1	2	3	4	2	3	3	2	2	1	3	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:82033269T>G	uc002fgu.2	-	3	757	c.629A>C	c.(628-630)AAG>ACG	p.K210T		NM_145168	NP_660151	Q8WUS8	D42E1_HUMAN	short chain dehydrogenase/reductase family 42E,	210					steroid biosynthetic process	integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding				0						GTAGACAAACTTGAACAGACC	0.542													23	156					0	0	1	0	0		G	82033269	G	G	82033269	3	3	82	1	0	0	0	0	1	0	0	0	13998	1609	56	5	556	5	SDR42E1	16	82033269	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	80106	82033269	8321484	976	51432											
ZCCHC14	23174	broad.mit.edu	37	chr16	87446364	87446364	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcatgtccgcgctccctcTttccggcttgtgcacggaat	4	13	9	15	4	2	0	1	0	1	0	5	1	5	1	3	2	1	3	3	2	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:87446364T>C	uc002fjz.1	-	12	1579	c.1552A>G	c.(1552-1554)AGA>GGA	p.R518G	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Missense_Mutation_p.R294G	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	518					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		GCGCTCCCTCTTTCCGGCTTG	0.547													23	69					0	0	1	0	0		C	87446364	C	C	87446364	3	2	82	1	0	0	0	0	1	0	0	0	17608	1617	56	3	1305	3	ZCCHC14	16	87446364	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5413095	87446364	2908389	977	51433											
PRDM7	11105	broad.mit.edu	37	chr16	90128557	90128557	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaatgtagggggcccatgAgcagcacagctgtcaatgaa	14	6	12	9	0	1	2	1	2	0	0	1	2	1	2	1	2	3	4	1	2	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr16:90128557A>G	uc010cje.2	-	7	674	c.654T>C	c.(652-654)GCT>GCC	p.A218A	PRDM7_uc002fqo.2_Silent_p.A12A|PRDM7_uc010cjf.2_Silent_p.A101A|PRDM7_uc010cjg.1_Silent_p.A12A|PRDM7_uc010cjh.1_RNA	NM_001098173	NP_001091643	Q9NQW5	PRDM7_HUMAN	PR domain containing 7 isoform 1	218						chromosome|nucleus	nucleic acid binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0278)		GGGGCCCATGAGCAGCACAGC	0.512													13	58					0	0	1	0	0		G	90128557	G	G	90128557	2	3	82	1	0	0	0	0	0	0	0	1	12483	291	11	3		3	PRDM7	16	90128557	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2682193	90128557	226196	978	51434											
SMYD4	114826	broad.mit.edu	37	chr17	1704257	1704257	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctttacgtaacataatcTtgggttgcaacctttctgga	9	15	8	9	1	2	0	0	0	2	0	2	1	2	1	1	2	5	4	1	2	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:1704257T>A	uc002ftm.3	-	5	599	c.431A>T	c.(430-432)AAG>ATG	p.K144M	SMYD4_uc002ftn.1_Translation_Start_Site	NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	144							zinc ion binding			skin(3)|kidney(2)	5						TAACATAATCTTGGGTTGCAA	0.473													28	161					0	0	1	0	0		A	1704257	A	A	1704257	3	1	82	1	0	0	0	0	1	0	0	0	14849	1609	56	5	2011	5	SMYD4	17	1704257	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08		1704257	79490953	979	51435											
SPATA22	84690	broad.mit.edu	37	chr17	3352328	3352328	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgttgagctcccgaacTcactggacaagaattttttc	9	15	8	9	1	1	2	1	1	0	1	3	4	2	3	1	1	2	3	1	1	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:3352328T>A	uc002fvm.2	-	6	682	c.445A>T	c.(445-447)AGT>TGT	p.S149C	SPATA22_uc010vrg.1_Missense_Mutation_p.S133C|SPATA22_uc010vrf.1_Missense_Mutation_p.S149C|SPATA22_uc002fvn.2_Missense_Mutation_p.S149C|SPATA22_uc002fvo.2_Missense_Mutation_p.S149C|SPATA22_uc002fvp.2_Missense_Mutation_p.S149C|SPATA22_uc010ckf.2_Missense_Mutation_p.S106C	NM_032598	NP_115987	Q8NHS9	SPT22_HUMAN	spermatogenesis associated 22	149											0						GCTCCCGAACTCACTGGACAA	0.353													57	117					0	0	1	0	0		A	3352328	A	A	3352328	3	1	82	1	0	0	0	0	1	0	0	0	15033	1551	54	5	662	5	SPATA22	17	3352328	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1648071	3352328	77842882	980	51436											
P2RX5	5026	broad.mit.edu	37	chr17	3593927	3593927	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtaaccgcttccccagcGtggcagtcgctgtccttgga	5	10	12	14	3	0	0	0	0	0	0	3	1	2	1	4	2	2	5	4	2	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:3593927G>A	uc002fwi.2	-	4	692	c.408C>T	c.(406-408)CAC>CAT	p.H136H	P2RX5_uc002fwd.2_RNA|P2RX5_uc002fwh.1_Silent_p.H136H|P2RX5_uc010vrx.1_Silent_p.H76H|P2RX5_uc002fwj.2_Silent_p.H112H|P2RX5_uc002fwk.2_Silent_p.H136H|P2RX5_uc002fwl.2_Silent_p.H112H|P2RX5_uc002fwm.1_Silent_p.H136H	NM_002561	NP_002552	Q93086	P2RX5_HUMAN	purinergic receptor P2X5 isoform A	136	Extracellular (Potential).				nervous system development|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						CTTCCCCAGCGTGGCAGTCGC	0.647													12	52					0	0	1	0	0		A	3593927	A	A	3593927	2	1	82	1	0	0	0	0	0	0	0	1	11362	1136	40	1		1	P2RX5	17	3593927	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	241599	3593927	77601283	981	51437											
ANKFY1	51479	broad.mit.edu	37	chr17	4074022	4074022	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactcacccagcagtcggaaCaggagctgcttggtggcgac	9	6	13	13	2	1	0	1	0	0	0	2	3	1	2	1	4	4	3	1	4	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:4074022C>T	uc002fxq.1	-	23	3311	c.3273G>A	c.(3271-3273)CTG>CTA	p.L1091L	ANKFY1_uc002fxn.2_Silent_p.L1133L|ANKFY1_uc002fxo.2_Silent_p.L1092L|ANKFY1_uc002fxp.2_Silent_p.L1090L|ANKFY1_uc010ckp.2_Silent_p.L1033L	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	1091						endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						GCAGTCGGAACAGGAGCTGCT	0.567													8	41					0	0	1	0	0		T	4074022	T	T	4074022	2	4	82	1	0	0	0	0	0	0	0	1	626	465	17	4		4	ANKFY1	17	4074022	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	480095	4074022	77121188	982	51438											
KIF1C	10749	broad.mit.edu	37	chr17	4925494	4925494	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccaccacggtccagacCattgtcaaacgctgtggtct	8	8	9	16	3	2	1	1	0	1	1	3	1	3	1	5	2	1	1	5	2	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:4925494C>T	uc002gan.1	+	22	2444	c.2118C>T	c.(2116-2118)ACC>ACT	p.T706T		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	706					microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						CGGTCCAGACCATTGTCAAAC	0.637													12	45					0	0	1	0	0		T	4925494	T	T	4925494	2	4	82	1	0	0	0	0	0	0	0	1	8301	581	21	4		4	KIF1C	17	4925494	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	851472	4925494	76269716	983	51439											
USP6	9098	broad.mit.edu	37	chr17	5044777	5044777	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttacagcaaatagtagtaAaatagatagacaaaagggta	20	10	8	3	0	0	2	0	0	0	2	0	2	0	2	0	1	2	4	0	1	11	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:5044777A>C	uc002gau.1	+	23	3786	c.1556A>C	c.(1555-1557)AAA>ACA	p.K519T	USP6_uc002gav.1_Missense_Mutation_p.K519T|USP6_uc010ckz.1_Missense_Mutation_p.K202T	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	519					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						AATAGTAGTAAAATAGATAGA	0.294			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								4	45					0	0	1	0	0		C	5044777	C	C	5044777	3	2	82	1	0	0	0	0	1	0	0	0	17112	14	1	5	1610	5	USP6	17	5044777	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	119283	5044777	76150433	984	51440											
KIAA0753	9851	broad.mit.edu	37	chr17	6531699	6531699	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctacactgacaggctgcTtgactctttgattccttcct	6	15	8	12	0	1	3	0	3	1	0	3	3	3	3	2	2	2	3	2	2	1	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:6531699T>G	uc002gde.3	-	3	815	c.456A>C	c.(454-456)CAA>CAC	p.Q152H	KIAA0753_uc010clo.2_5'UTR|KIAA0753_uc010vte.1_5'UTR	NM_014804	NP_055619	Q2KHM9	K0753_HUMAN	hypothetical protein LOC9851	152						centrosome					0				COAD - Colon adenocarcinoma(228;0.157)		GACAGGCTGCTTGACTCTTTG	0.458													7	64					0	0	1	0	0		G	6531699	G	G	6531699	3	3	82	1	0	0	0	0	1	0	0	0	8207	1606	56	5	2515	5	KIAA0753	17	6531699	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1486922	6531699	74663511	985	51441											
TEKT1	83659	broad.mit.edu	37	chr17	6716238	6716238	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccaccacatcacactgcTtgcgcagatcattggctgtc	8	11	8	14	1	2	1	2	0	0	1	4	1	3	1	2	1	2	3	2	1	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:6716238T>C	uc002gdt.2	-	6	874	c.764A>G	c.(763-765)AAG>AGG	p.K255R	TEKT1_uc010vth.1_Missense_Mutation_p.K109R	NM_053285	NP_444515	Q969V4	TEKT1_HUMAN	tektin 1	255					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|skin(1)	2		Myeloproliferative disorder(207;0.0255)				ATCACACTGCTTGCGCAGATC	0.542													8	129					0	0	1	0	0		C	6716238	C	C	6716238	3	2	82	1	0	0	0	0	1	0	0	0	15777	1609	56	3	504	3	TEKT1	17	6716238	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	184539	6716238	74478972	986	51442											
TNK1	8711	broad.mit.edu	37	chr17	7291747	7291747	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttccaggagtctggagtcAgttctgtccctcggtcctcg	5	13	11	12	2	3	0	1	0	2	0	8	2	6	2	3	3	0	1	3	3	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:7291747A>G	uc002ggi.3	+	11	1675	c.1515A>G	c.(1513-1515)TCA>TCG	p.S505S	TNK1_uc002ggj.3_Silent_p.S500S|TNK1_uc010cmf.2_RNA|TNK1_uc002ggk.3_Intron	NM_003985	NP_003976	Q13470	TNK1_HUMAN	tyrosine kinase, non-receptor, 1	505					protein autophosphorylation	membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(122;0.157)				GTCTGGAGTCAGTTCTGTCCC	0.448													6	36					0	0	1	0	0		G	7291747	G	G	7291747	2	3	82	1	0	0	0	0	0	0	0	1	16342	175	7	3		3	TNK1	17	7291747	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	575509	7291747	73903463	987	51443											
DNAH2	146754	broad.mit.edu	37	chr17	7696052	7696052	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgagcagcttggtggccaAccagaatcccattctgctgg	8	9	13	11	0	1	2	0	1	1	1	2	2	2	2	3	4	4	3	3	4	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:7696052A>C	uc002giu.1	+	46	7237	c.7223A>C	c.(7222-7224)AAC>ACC	p.N2408T		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2408	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TTGGTGGCCAACCAGAATCCC	0.622													4	40					0	0	1	0	0		C	7696052	C	C	7696052	3	2	82	1	0	0	0	0	1	0	0	0	4608	43	2	5	7405	5	DNAH2	17	7696052	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	404305	7696052	73499158	988	51444											
NTN1	9423	broad.mit.edu	37	chr17	8926112	8926112	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacactgtccctcggcaagaAgttcgaagtgacctacgtga	11	8	10	12	3	0	3	0	2	0	1	3	4	1	3	2	1	1	2	2	1	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:8926112A>C	uc002glw.3	+	2	529	c.422A>C	c.(421-423)AAG>ACG	p.K141T		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	141	Laminin N-terminal.				apoptosis|axon guidance		protein binding				0						CTCGGCAAGAAGTTCGAAGTG	0.612													6	19					0	0	1	0	0		C	8926112	C	C	8926112	3	2	82	1	0	0	0	0	1	0	0	0	10719	72	3	5	424	5	NTN1	17	8926112	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1230060	8926112	72269098	989	51445											
WDR16	146845	broad.mit.edu	37	chr17	9542013	9542013	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagttccagatcatcaccagCggaacagacagaaaggtgag	15	5	12	9	1	2	4	2	1	0	3	3	6	3	5	2	2	2	1	2	2	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:9542013C>T	uc002gly.2	+	12	1629	c.1560C>T	c.(1558-1560)AGC>AGT	p.S520S	WDR16_uc002glz.2_Silent_p.S452S|WDR16_uc010coc.2_Silent_p.S530S	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	520	WD 9.					cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						TCATCACCAGCGGAACAGACA	0.398													14	42					0	0	1	0	0		T	9542013	T	T	9542013	2	4	82	1	0	0	0	0	0	0	0	1	17302	767	27	1		1	WDR16	17	9542013	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	615901	9542013	71653197	990	51446											
MYH8	4626	broad.mit.edu	37	chr17	10300237	10300237	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttcgtcttctcaagggaAgcacatttggcgttcacagc	8	12	10	11	2	3	0	2	0	2	0	5	1	3	1	0	2	3	3	0	2	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:10300237A>C	uc002gmm.2	-	31	4340	c.4245T>G	c.(4243-4245)GCT>GCG	p.A1415A	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1415	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TCTCAAGGGAAGCACATTTGG	0.507									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				17	70					0	0	1	0	0		C	10300237	C	C	10300237	2	2	82	1	0	0	0	0	0	0	0	1	10059	59	3	5		5	MYH8	17	10300237	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	758224	10300237	70894973	991	51447											
MYH1	4619	broad.mit.edu	37	chr17	10415458	10415458	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctagggtagcagagggctTtgagcagatctgcagagttc	9	9	14	9	0	1	4	0	1	1	3	2	4	1	4	1	2	3	6	1	2	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:10415458T>G	uc002gmo.2	-	13	1293	c.1199A>C	c.(1198-1200)AAA>ACA	p.K400T	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	400	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						GCAGAGGGCTTTGAGCAGATC	0.468													34	194					0	0	1	0	0		G	10415458	G	G	10415458	3	3	82	1	0	0	0	0	1	0	0	0	10047	1841	64	5	4732	5	MYH1	17	10415458	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	115221	10415458	70779752	992	51448											
MYH2	4620	broad.mit.edu	37	chr17	10428180	10428180	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggtctccctccatcttcTtcttgagcctaatggcatca	7	14	7	13	0	5	2	1	2	4	0	7	2	6	2	3	2	1	1	3	2	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:10428180T>G	uc010coi.2	-	34	4993	c.4865A>C	c.(4864-4866)AAG>ACG	p.K1622T	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.K1622T|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1622	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTCCATCTTCTTCTTGAGCCT	0.507													34	120					0	0	1	0	0		G	10428180	G	G	10428180	3	3	82	1	0	0	0	0	1	0	0	0	10053	1609	56	5	988	5	MYH2	17	10428180	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	12722	10428180	70767030	993	51449											
MYH2	4620	broad.mit.edu	37	chr17	10428375	10428375	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttccctcttcatgttcaAgagatgccttaatgacagca	10	14	6	11	0	4	2	2	1	2	1	5	3	5	2	2	0	2	2	2	0	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:10428375A>C	uc010coi.2	-	34	4798	c.4670T>G	c.(4669-4671)CTT>CGT	p.L1557R	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.L1557R|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1557	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TTCATGTTCAAGAGATGCCTT	0.388													10	110					0	0	1	0	0		C	10428375	C	C	10428375	3	2	82	1	0	0	0	0	1	0	0	0	10053	72	3	5	1183	5	MYH2	17	10428375	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	195	10428375	70766835	994	51450											
DNAH9	1770	broad.mit.edu	37	chr17	11572875	11572875	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacatcctcactccggaagaAattgaagaccatgtggaaga	15	7	9	10	1	1	4	1	1	0	3	3	6	3	6	3	2	0	0	3	2	4	1	rs149721373		TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:11572875A>C	uc002gne.2	+	17	3185	c.3117A>C	c.(3115-3117)GAA>GAC	p.E1039D	DNAH9_uc010coo.2_Missense_Mutation_p.E333D	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1039	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CTCCGGAAGAAATTGAAGACC	0.498													28	103					0	0	1	0	0		C	11572875	C	C	11572875	3	2	82	1	0	0	0	0	1	0	0	0	4614	11	1	5	3183	5	DNAH9	17	11572875	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1144500	11572875	69622335	995	51451											
NCOR1	9611	broad.mit.edu	37	chr17	15965203	15965203	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagggcccccagcaggcAgtggcctgtaaataaaacca	13	6	11	11	0	0	1	0	1	0	0	0	1	0	1	4	3	2	3	4	3	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:15965203A>T	uc002gpo.2	-	37	5633	c.5393T>A	c.(5392-5394)CTG>CAG	p.L1798Q	NCOR1_uc002gpn.2_Missense_Mutation_p.L1814Q|NCOR1_uc002gpm.2_Missense_Mutation_p.L318Q|NCOR1_uc010vwb.1_Missense_Mutation_p.L382Q|NCOR1_uc010coy.2_Missense_Mutation_p.L706Q|NCOR1_uc010vwc.1_Missense_Mutation_p.L608Q	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1798	Interaction with ETO.|Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CCCAGCAGGCAGTGGCCTGTA	0.532													7	54					0	0	1	0	0		T	15965203	T	T	15965203	3	4	82	1	0	0	0	0	1	0	0	0	10254	188	7	5	1969	5	NCOR1	17	15965203	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4392328	15965203	65230007	996	51452											
CCDC144A	9720	broad.mit.edu	37	chr17	16610808	16610808	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagactcggagctgacatcAgaggaagagcaagaaagact	17	4	12	8	1	1	6	1	1	0	5	2	8	1	8	0	2	2	2	0	2	4	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:16610808A>T	uc002gqk.1	+	4	766	c.690A>T	c.(688-690)TCA>TCT	p.S230S	CCDC144A_uc002gql.1_5'UTR	NM_014695	NP_055510	A2RUR9	C144A_HUMAN	coiled-coil domain containing 144A	230											0						AGCTGACATCAGAGGAAGAGC	0.328													5	13					0	0	1	0	0		T	16610808	T	T	16610808	2	4	82	1	0	0	0	0	0	0	0	1	2780	175	7	5		5	CCDC144A	17	16610808	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	645605	16610808	64584402	997	51453											
CCDC144A	9720	broad.mit.edu	37	chr17	16612142	16612142	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaccagaaatggctaaggaTtgcgatagagaggatatacc	16	7	12	6	1	0	2	0	0	0	2	0	7	0	4	2	3	3	1	2	3	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:16612142T>G	uc002gqk.1	+	5	847	c.771T>G	c.(769-771)GAT>GAG	p.D257E	CCDC144A_uc002gql.1_Intron|LOC162632_uc010cpj.1_5'Flank	NM_014695	NP_055510	A2RUR9	C144A_HUMAN	coiled-coil domain containing 144A	257											0						TGGCTAAGGATTGCGATAGAG	0.383													25	53					0	0	1	0	0		G	16612142	G	G	16612142	3	3	82	1	0	0	0	0	1	0	0	0	2780	1490	52	5	789	5	CCDC144A	17	16612142	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1334	16612142	64583068	998	51454											
MYO15A	51168	broad.mit.edu	37	chr17	18044990	18044990	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctgtctagtggccctcaAgcatgacctgccggctaatg	7	10	11	13	1	2	1	1	1	1	0	2	1	2	1	3	2	3	3	3	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:18044990A>G	uc010vxh.1	+	22	5893	c.5555A>G	c.(5554-5556)AAG>AGG	p.K1852R		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1852	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GTGGCCCTCAAGCATGACCTG	0.567											OREG0024223	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	59					0	0	1	0	0		G	18044990	G	G	18044990	3	3	82	1	0	0	0	0	1	0	0	0	10081	72	3	3	5637	3	MYO15A	17	18044990	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1432848	18044990	63150220	999	51455											
MYO15A	51168	broad.mit.edu	37	chr17	18054711	18054711	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgccccttgcccacagctTcaccctccccagagctggtc	5	7	8	21	2	1	1	1	0	0	1	3	1	2	1	6	1	3	2	6	1	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:18054711T>G	uc010vxh.1	+	39	7995	c.7657T>G	c.(7657-7659)TCA>GCA	p.S2553A	MYO15A_uc010vxi.1_5'Flank|MYO15A_uc010vxj.1_5'Flank|MYO15A_uc010vxk.1_5'Flank	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	2553	Tail.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GCCCACAGCTTCACCCTCCCC	0.622													12	34					0	0	1	0	0		G	18054711	G	G	18054711	3	3	82	1	0	0	0	0	1	0	0	0	10081	1783	62	5	7807	5	MYO15A	17	18054711	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	9721	18054711	63140499	1000	51456											
MFAP4	4239	broad.mit.edu	37	chr17	19288525	19288525	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcataggccgtgttgttcTcaaagtcctccaagtccact	8	12	9	12	1	1	0	1	0	1	0	5	0	4	0	4	2	0	3	4	2	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:19288525T>A	uc002gvt.2	-	5	432	c.407A>T	c.(406-408)GAG>GTG	p.E136V	MFAP4_uc002gvr.2_RNA|MFAP4_uc002gvs.2_Missense_Mutation_p.E160V	NM_002404	NP_002395	P55083	MFAP4_HUMAN	microfibrillar-associated protein 4 precursor	136	Fibrinogen C-terminal.				cell adhesion|signal transduction	microfibril	receptor binding				0	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					CGTGTTGTTCTCAAAGTCCTC	0.572													6	72					0	0	1	0	0		A	19288525	A	A	19288525	3	1	82	1	0	0	0	0	1	0	0	0	9535	1551	54	5	368	5	MFAP4	17	19288525	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1233814	19288525	61906685	1001	51457											
ATAD5	79915	broad.mit.edu	37	chr17	29185224	29185224	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaagaagtaagaaatcttTtgcttgaggaaattaggtgg	14	12	12	3	0	1	4	0	2	1	2	1	5	1	5	0	3	1	2	0	3	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:29185224T>A	uc002hfs.1	+	9	3185	c.2839T>A	c.(2839-2841)TTG>ATG	p.L947M	ATAD5_uc002hft.1_Missense_Mutation_p.L844M	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	947					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				AAGAAATCTTTTGCTTGAGGA	0.318													11	54					0	0	1	0	0		A	29185224	A	A	29185224	3	1	82	1	0	0	0	0	1	0	0	0	1077	1838	64	5	2873	5	ATAD5	17	29185224	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	9896699	29185224	52009986	1002	51458											
CCL1	6346	broad.mit.edu	37	chr17	32690125	32690125	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcttgctgtccacatctTccggccacatcccagctagc	6	11	7	17	1	2	0	0	0	2	0	5	0	5	0	4	1	4	3	4	1	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:32690125T>G	uc002hid.1	-	1	128	c.56A>C	c.(55-57)GAA>GCA	p.E19A		NM_002981	NP_002972	P22362	CCL1_HUMAN	small inducible cytokine A1 precursor	19					cellular calcium ion homeostasis|chemotaxis|immune response|signal transduction|viral reproduction	extracellular space	chemokine activity				0		Ovarian(249;0.0443)|Breast(31;0.133)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)|BRCA - Breast invasive adenocarcinoma(366;0.155)		GTCCACATCTTCCGGCCACAT	0.572													5	43					0	0	1	0	0		G	32690125	G	G	32690125	3	3	82	1	0	0	0	0	1	0	0	0	2885	1783	62	5	246	5	CCL1	17	32690125	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3504901	32690125	48505085	1003	51459											
LIG3	3980	broad.mit.edu	37	chr17	33310344	33310344	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcacagctggctgcaaaaAatgcaaggaaaagattgtga	16	7	12	6	0	0	2	0	1	0	1	0	3	0	3	0	3	3	5	0	3	6	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:33310344A>C	uc002hik.1	+	2	428	c.320A>C	c.(319-321)AAA>ACA	p.K107T	LIG3_uc002hii.2_Missense_Mutation_p.K107T|LIG3_uc002hij.2_Missense_Mutation_p.K107T|LIG3_uc010cth.1_Missense_Mutation_p.K116T	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	107	PARP-type.				base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	GGCTGCAAAAAATGCAAGGAA	0.527								Other_BER_factors					12	67					0	0	1	0	0		C	33310344	C	C	33310344	3	2	82	1	0	0	0	0	1	0	0	0	8798	14	1	5	322	5	LIG3	17	33310344	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	620219	33310344	47884866	1004	51460											
LYZL6	57151	broad.mit.edu	37	chr17	34264911	34264911	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgctttccacaaaagccAggcacagcccttagagtagg	12	8	9	12	0	0	1	0	0	0	1	1	1	1	1	3	2	3	3	3	2	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:34264911A>G	uc002hkj.1	-	2	299	c.149T>C	c.(148-150)CTG>CCG	p.L50P	LYZL6_uc002hkk.1_Missense_Mutation_p.L50P	NM_020426	NP_065159	O75951	LYZL6_HUMAN	lysozyme-like 6 precursor	50					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CACAAAAGCCAGGCACAGCCC	0.473													6	51					0	0	1	0	0		G	34264911	G	G	34264911	3	3	82	1	0	0	0	0	1	0	0	0	9152	188	7	3	309	3	LYZL6	17	34264911	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	954567	34264911	46930299	1005	51461											
ACACA	31	broad.mit.edu	37	chr17	35536243	35536243	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatgtggaccagctgaccTtgatcatccagtaccagttc	9	12	8	12	0	2	2	2	2	0	0	4	3	3	3	4	1	2	3	4	1	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:35536243T>A	uc002hnm.2	-	41	5117	c.4926A>T	c.(4924-4926)CAA>CAT	p.Q1642H	ACACA_uc002hnk.2_Missense_Mutation_p.Q1564H|ACACA_uc002hnl.2_Missense_Mutation_p.Q1584H|ACACA_uc002hnn.2_Missense_Mutation_p.Q1642H|ACACA_uc002hno.2_Missense_Mutation_p.Q1679H|ACACA_uc010cuy.2_Intron	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1642					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	CCAGCTGACCTTGATCATCCA	0.488													23	52					0	0	1	0	0		A	35536243	A	A	35536243	3	1	82	1	0	0	0	0	1	0	0	0	106	1606	56	5	2178	5	ACACA	17	35536243	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1271332	35536243	45658967	1006	51462											
GPR179	440435	broad.mit.edu	37	chr17	36486628	36486628	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggcccccagacagggccaAgatgggggtagaaacctggt	11	4	15	11	0	0	3	0	0	0	3	0	3	0	3	4	5	1	1	4	5	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:36486628A>C	uc002hpz.2	-	11	2845	c.2824T>G	c.(2824-2826)TTG>GTG	p.L942V		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	942	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				GACAGGGCCAAGATGGGGGTA	0.527													4	11					0	0	1	0	0		C	36486628	C	C	36486628	3	2	82	1	0	0	0	0	1	0	0	0	6689	69	3	5	4283	5	GPR179	17	36486628	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	950385	36486628	44708582	1007	51463											
PLXDC1	57125	broad.mit.edu	37	chr17	37226157	37226157	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggggtggccattgatgtaAattccagccaggatgatggc	9	10	15	7	0	0	2	0	2	0	0	1	3	1	3	3	5	1	1	3	5	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:37226157A>C	uc002hrg.2	-	13	1547	c.1335T>G	c.(1333-1335)ATT>ATG	p.I445M	uc002hre.1_Intron|uc002hrf.1_Intron|PLXDC1_uc010cvr.1_Missense_Mutation_p.I141M|PLXDC1_uc002hrh.2_RNA|PLXDC1_uc002hri.2_RNA|PLXDC1_uc002hrj.1_RNA|PLXDC1_uc002hrk.1_RNA	NM_020405	NP_065138	Q8IUK5	PXDC1_HUMAN	plexin domain containing 1 precursor	445	Helical; (Potential).				angiogenesis	cytoplasm|extracellular region|integral to membrane|tight junction				ovary(1)|kidney(1)|skin(1)	3						CATTGATGTAAATTCCAGCCA	0.602											OREG0024368	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	33					0	0	1	0	0		C	37226157	C	C	37226157	3	2	82	1	0	0	0	0	1	0	0	0	12136	10	1	5	175	5	PLXDC1	17	37226157	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	739529	37226157	43969053	1008	51464											
KRT25	147183	broad.mit.edu	37	chr17	38911503	38911503	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaggacctcctggatgcActggaaagtcgaagagacat	13	6	13	9	1	0	1	0	0	0	1	2	7	1	5	2	4	1	1	2	4	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:38911503A>G	uc002hve.2	-	1	82	c.21T>C	c.(19-21)AGT>AGC	p.S7S		NM_181534	NP_853512	Q7Z3Z0	K1C25_HUMAN	keratin 25	7	Head.					cytoplasm|intermediate filament	structural molecule activity			ovary(2)	2		Breast(137;0.00526)				TCCTGGATGCACTGGAAAGTC	0.498													5	43					0	0	1	0	0		G	38911503	G	G	38911503	2	3	82	1	0	0	0	0	0	0	0	1	8478	156	6	3		3	KRT25	17	38911503	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1685346	38911503	42283707	1009	51465											
KRT38	8687	broad.mit.edu	37	chr17	39593675	39593675	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaggaattcagaatcggcTtccggtggtgctggctccac	8	9	12	12	2	1	1	1	0	0	1	4	2	3	2	2	5	1	3	2	5	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:39593675T>G	uc002hwq.1	-	7	1783	c.1360A>C	c.(1360-1362)AGC>CGC	p.S454R		NM_006771	NP_006762	O76015	KRT38_HUMAN	keratin 38	454	Tail.					intermediate filament	structural molecule activity			skin(2)	2		Breast(137;0.000496)				CAGAATCGGCTTCCGGTGGTG	0.587													3	14					0	0	1	0	0		G	39593675	G	G	39593675	3	3	82	1	0	0	0	0	1	0	0	0	8491	1609	56	5	14	5	KRT38	17	39593675	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	682172	39593675	41601535	1010	51466											
BECN1	8678	broad.mit.edu	37	chr17	40963766	40963766	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaccattgcatggtcaaacTtgttgtcccagaaaaaccgc	12	9	7	13	1	1	1	1	0	0	1	2	1	2	1	4	1	3	2	4	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:40963766T>C	uc002ibo.3	-	11	1226	c.1091A>G	c.(1090-1092)AAG>AGG	p.K364R	BECN1_uc010whb.1_Missense_Mutation_p.K277R|BECN1_uc010whc.1_Intron|BECN1_uc002ibn.2_Missense_Mutation_p.K364R	NM_003766	NP_003757	Q14457	BECN1_HUMAN	beclin 1	364					anti-apoptosis|cell cycle|cellular defense response|cytokinesis|response to virus	membrane	protein binding			ovary(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0745)		ATGGTCAAACTTGTTGTCCCA	0.498													45	94					0	0	1	0	0		C	40963766	C	C	40963766	3	2	82	1	0	0	0	0	1	0	0	0	1397	1609	56	3	269	3	BECN1	17	40963766	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1370091	40963766	40231444	1011	51467											
BRCA1	672	broad.mit.edu	37	chr17	41228549	41228549	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactggtagaactatctgcAgacacctcaaacttgtcagc	12	11	7	11	0	3	2	2	0	1	2	3	2	3	2	1	1	5	2	1	1	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:41228549A>G	uc002icq.2	-	13	4672	c.4440T>C	c.(4438-4440)TCT>TCC	p.S1480S	BRCA1_uc010whp.1_Silent_p.S329S|BRCA1_uc010whl.1_Silent_p.S376S|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Silent_p.S1409S|BRCA1_uc002icu.2_Silent_p.S376S|BRCA1_uc010cyx.2_Silent_p.S1433S|BRCA1_uc002ict.2_Silent_p.S1501S|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Silent_p.S209S|BRCA1_uc002idc.1_Silent_p.S376S|BRCA1_uc010whr.1_Silent_p.S330S	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	1480					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		AACTATCTGCAGACACCTCAA	0.358			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			12	68					0	0	1	0	0		G	41228549	G	G	41228549	2	3	82	1	0	0	0	0	0	0	0	1	1501	175	7	3		3	BRCA1	17	41228549	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	264783	41228549	39966661	1012	51468											
BRCA1	672	broad.mit.edu	37	chr17	41243775	41243775	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaatgataataaattcTcctctgtgttcttagacaga	12	16	5	8	0	5	3	1	1	4	2	6	3	5	3	1	0	0	1	1	0	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:41243775T>C	uc002icq.2	-	10	4005	c.3773A>G	c.(3772-3774)GAG>GGG	p.E1258G	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.E1187G|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.E1211G|BRCA1_uc002ict.2_Missense_Mutation_p.E1258G|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.E1258G|BRCA1_uc002ide.1_Missense_Mutation_p.E1089G|BRCA1_uc010cyy.1_Missense_Mutation_p.E1258G|BRCA1_uc010whs.1_Missense_Mutation_p.E1258G|BRCA1_uc010cyz.2_Missense_Mutation_p.E1211G|BRCA1_uc010cza.2_Missense_Mutation_p.E1232G|BRCA1_uc010wht.1_Missense_Mutation_p.E962G	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	1258					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TAATAAATTCTCCTCTGTGTT	0.383			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			13	159					0	0	1	0	0		C	41243775	C	C	41243775	3	2	82	1	0	0	0	0	1	0	0	0	1501	1551	54	3	1944	3	BRCA1	17	41243775	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	15226	41243775	39951435	1013	51469											
GPATCH8	23131	broad.mit.edu	37	chr17	42477192	42477192	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatctccgctgggagtcatcTtgagctctccgccttcttct	4	14	9	14	2	6	1	1	1	5	0	8	3	6	2	3	1	1	2	3	1	0	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:42477192T>C	uc002igw.1	-	8	2317	c.2253A>G	c.(2251-2253)CAA>CAG	p.Q751Q	GPATCH8_uc002igv.1_Silent_p.Q673Q|GPATCH8_uc010wiz.1_Silent_p.Q673Q	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	751						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		GGGAGTCATCTTGAGCTCTCC	0.582													4	59					0	0	1	0	0		C	42477192	C	C	42477192	2	2	82	1	0	0	0	0	0	0	0	1	6609	1606	56	3		3	GPATCH8	17	42477192	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1233417	42477192	38718018	1014	51470											
FZD2	2535	broad.mit.edu	37	chr17	42636483	42636483	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtgcccgccaccatcgTcatcgcttgctacttctacg	7	10	7	17	4	2	0	1	0	1	0	4	0	2	0	3	0	4	2	3	0	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:42636483T>A	uc002igx.1	+	1	1559	c.1427T>A	c.(1426-1428)GTC>GAC	p.V476D		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	476	Helical; Name=6; (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		GCCACCATCGTCATCGCTTGC	0.637													19	34					0	0	1	0	0		A	42636483	A	A	42636483	3	1	82	1	0	0	0	0	1	0	0	0	6144	1667	58	5	1429	5	FZD2	17	42636483	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	159291	42636483	38558727	1015	51471											
MAPT	4137	broad.mit.edu	37	chr17	44067437	44067437	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagcaaaggagatgaaacTcaaggtaaggaaaccacctt	17	6	11	7	0	1	2	1	1	0	1	1	5	1	4	2	4	3	2	2	4	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:44067437T>G	uc002ijr.3	+	8	1696	c.1376T>G	c.(1375-1377)CTC>CGC	p.L459R	MAPT_uc010dau.2_Missense_Mutation_p.L459R|MAPT_uc002ijs.3_Intron|MAPT_uc002ijx.3_Intron|MAPT_uc002ijt.3_Intron|MAPT_uc002iju.3_Intron|MAPT_uc002ijv.3_Intron	NM_016835	NP_058519	P10636	TAU_HUMAN	microtubule-associated protein tau isoform 1	459					cellular component disassembly involved in apoptosis|microtubule cytoskeleton organization|negative regulation of microtubule depolymerization|positive regulation of axon extension|positive regulation of microtubule polymerization|regulation of autophagy	axon|cytosol|growth cone|microtubule|microtubule associated complex|nuclear periphery|plasma membrane|tubulin complex	apolipoprotein E binding|enzyme binding|identical protein binding|lipoprotein particle binding|microtubule binding|protein binding|SH3 domain binding|structural constituent of cytoskeleton			pancreas(1)	1		Melanoma(429;0.216)				GAGATGAAACTCAAGGTAAGG	0.433													7	95					0	0	1	0	0		G	44067437	G	G	44067437	3	3	82	1	0	0	0	0	1	0	0	0	9315	1551	54	5	1402	5	MAPT	17	44067437	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1430954	44067437	37127773	1016	51472											
WNT9B	7484	broad.mit.edu	37	chr17	44952679	44952679	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctggggtccaagagaggaAacaaggacctgcgggcacgg	11	4	16	10	2	0	1	0	0	0	1	2	4	2	3	3	6	2	1	3	6	3	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:44952679A>T	uc002ikw.1	+	3	584	c.547A>T	c.(547-549)AAC>TAC	p.N183Y	WNT9B_uc002ikx.1_Missense_Mutation_p.N183Y	NM_003396	NP_003387	O14905	WNT9B_HUMAN	wingless-type MMTV integration site family,	183					anterior/posterior pattern formation|axis specification|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|collecting duct development|cornea development in camera-type eye|endoderm development|establishment of planar polarity involved in nephron morphogenesis|kidney rudiment formation|male genitalia development|mesonephric duct formation|metanephric tubule development|neuron differentiation|palate development|regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|uterus morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway|Wnt receptor signaling pathway, planar cell polarity pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			CAAGAGAGGAAACAAGGACCT	0.632													18	25					0	0	1	0	0		T	44952679	T	T	44952679	3	4	82	1	0	0	0	0	1	0	0	0	17425	14	1	5	557	5	WNT9B	17	44952679	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	885242	44952679	36242531	1017	51473											
KIF2B	84643	broad.mit.edu	37	chr17	51901856	51901856	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattctggctttgggtcagAacaagcctcacaccccattc	9	11	8	13	0	3	1	2	0	1	1	4	1	3	1	3	2	2	2	3	2	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:51901856A>C	uc002iua.2	+	1	1618	c.1462A>C	c.(1462-1464)AAC>CAC	p.N488H	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	488					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TTTGGGTCAGAACAAGCCTCA	0.512													6	45					0	0	1	0	0		C	51901856	C	C	51901856	3	2	82	1	0	0	0	0	1	0	0	0	8314	246	9	5	1464	5	KIF2B	17	51901856	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	6949177	51901856	29293354	1018	51474											
EPX	8288	broad.mit.edu	37	chr17	56280628	56280628	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggggctcgagtggggcctcTtctggcttgtctgttcgaga	3	12	17	9	2	3	1	0	0	3	1	5	3	3	1	1	5	0	3	1	5	0	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:56280628T>G	uc002ivq.2	+	11	1981	c.1895T>G	c.(1894-1896)CTT>CGT	p.L632R		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	632					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						GTGGGGCCTCTTCTGGCTTGT	0.522													8	69					0	0	1	0	0		G	56280628	G	G	56280628	3	3	82	1	0	0	0	0	1	0	0	0	5208	1609	56	5	1937	5	EPX	17	56280628	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4378772	56280628	24914582	1019	51475											
LPO	4025	broad.mit.edu	37	chr17	56345352	56345352	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctgggcctcagtgaagaaTtaggggcccgcgctgcacag	8	6	14	13	2	1	2	1	1	0	1	1	2	1	2	3	3	1	2	3	3	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:56345352T>G	uc002ivt.2	+	13	2452	c.2136T>G	c.(2134-2136)AAT>AAG	p.N712K	LPO_uc010wns.1_Missense_Mutation_p.N653K|LPO_uc010dcp.2_Missense_Mutation_p.N629K|LPO_uc010dcq.2_Missense_Mutation_p.N383K|LPO_uc010dcr.2_Missense_Mutation_p.N275K	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	712					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						CAGTGAAGAATTAGGGGCCCG	0.567													21	52					0	0	1	0	0		G	56345352	G	G	56345352	3	3	82	1	0	0	0	0	1	0	0	0	8940	1490	52	5	2182	5	LPO	17	56345352	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	64724	56345352	24849858	1020	51476											
PRR11	55771	broad.mit.edu	37	chr17	57274918	57274918	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatcagcactcctggaaaaAgtcagatggatctgcggaaa	14	9	10	8	1	3	1	2	0	1	1	4	4	4	4	1	3	2	1	1	3	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:57274918A>T	uc002ixf.1	+	8	950	c.871A>T	c.(871-873)AGT>TGT	p.S291C	PRR11_uc002ixg.1_RNA	NM_018304	NP_060774	Q96HE9	PRR11_HUMAN	proline rich 11	291										ovary(2)	2	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TCCTGGAAAAAGTCAGATGGA	0.244													12	41					0	0	1	0	0		T	57274918	T	T	57274918	3	4	82	1	0	0	0	0	1	0	0	0	12605	72	3	5	897	5	PRR11	17	57274918	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	929566	57274918	23920292	1021	51477											
C17orf71	55181	broad.mit.edu	37	chr17	57288500	57288500	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcattgtactgtgaaggAcccggaatctttgctggtgc	8	12	13	8	1	2	1	1	1	1	0	2	4	2	3	1	3	3	2	1	3	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:57288500A>T	uc002ixi.2	+	1	1130	c.1088A>T	c.(1087-1089)GAC>GTC	p.D363V		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	363					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					ACTGTGAAGGACCCGGAATCT	0.537													9	81					0	0	1	0	0		T	57288500	T	T	57288500	3	4	82	1	0	0	0	0	1	0	0	0	1881	275	10	5	1090	5	C17orf71	17	57288500	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	13582	57288500	23906710	1022	51478											
TANC2	26115	broad.mit.edu	37	chr17	61345122	61345122	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgtcagccaccagctctgcCcacttggaagaccttgctta	8	11	8	14	0	2	1	1	0	1	1	2	2	2	2	4	1	4	2	4	1	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:61345122C>T	uc002jal.3	+	7	848	c.825C>T	c.(823-825)GCC>GCT	p.A275A	TANC2_uc010wpe.1_Silent_p.A185A	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	275							binding			ovary(2)	2						CCAGCTCTGCCCACTTGGAAG	0.453													5	56					0	0	1	0	0		T	61345122	T	T	61345122	2	4	82	1	0	0	0	0	0	0	0	1	15570	610	22	4		4	TANC2	17	61345122	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	4056622	61345122	19850088	1023	51479											
ACE	1636	broad.mit.edu	37	chr17	61571295	61571295	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttgcagagcatgacatcaActttctgatgaagatggccc	11	10	9	11	0	2	5	1	3	1	2	2	5	2	5	2	1	3	2	2	1	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:61571295A>C	uc002jau.1	+	21	3171	c.3149A>C	c.(3148-3150)AAC>ACC	p.N1050T	ACE_uc002jav.1_Missense_Mutation_p.N476T|ACE_uc010ddv.1_Missense_Mutation_p.N277T|ACE_uc010wpj.1_Missense_Mutation_p.N476T|ACE_uc002jaw.1_RNA|ACE_uc010wpk.1_Missense_Mutation_p.N296T	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	1050	Extracellular (Potential).|Peptidase M2 2.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	CATGACATCAACTTTCTGATG	0.572													8	57					0	0	1	0	0		C	61571295	C	C	61571295	3	2	82	1	0	0	0	0	1	0	0	0	136	43	2	5	3434	5	ACE	17	61571295	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	226173	61571295	19623915	1024	51480											
KCNH6	81033	broad.mit.edu	37	chr17	61607903	61607903	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcactgagaaggtcacccaGgtgcgggcctgcagagcagg	9	5	16	11	1	2	2	2	1	0	2	2	3	2	2	2	4	3	2	2	4	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:61607903G>A	uc002jay.2	+	4	755	c.675G>A	c.(673-675)CAG>CAA	p.Q225Q	KCNH6_uc002jax.1_Silent_p.Q225Q|KCNH6_uc010wpl.1_Silent_p.Q102Q|KCNH6_uc010wpm.1_Silent_p.Q225Q|KCNH6_uc002jaz.1_Silent_p.Q225Q	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	225	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	AGGTCACCCAGGTGCGGGCCT	0.642													17	38					0	0	1	0	0		A	61607903	A	A	61607903	2	1	82	1	0	0	0	0	0	0	0	1	8052	1014	35	4		4	KCNH6	17	61607903	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	36608	61607903	19587307	1025	51481											
KCNH6	81033	broad.mit.edu	37	chr17	61613064	61613064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggctattgaagacagcgcGgctgctgcggctggtgcgcg	5	8	18	10	5	0	2	0	1	0	1	0	2	0	2	0	4	4	4	0	4	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:61613064G>A	uc002jay.2	+	6	1216	c.1136G>A	c.(1135-1137)CGG>CAG	p.R379Q	KCNH6_uc002jax.1_Missense_Mutation_p.R379Q|KCNH6_uc010wpl.1_Missense_Mutation_p.R256Q|KCNH6_uc010wpm.1_Missense_Mutation_p.R379Q|KCNH6_uc002jaz.1_Missense_Mutation_p.R379Q	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	379	Helical; Voltage-sensor; Name=Segment S4; (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	AAGACAGCGCGGCTGCTGCGG	0.617													18	41					0	0	1	0	0		A	61613064	A	A	61613064	3	1	82	1	0	0	0	0	1	0	0	0	8052	1116	39	1	1158	1	KCNH6	17	61613064	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	5161	61613064	19582146	1026	51482											
FTSJ3	117246	broad.mit.edu	37	chr17	61897227	61897227	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttggtccttcttcatccTtgagtccaccaccttgaaat	7	16	5	13	0	3	2	1	2	2	0	6	2	6	2	5	1	0	0	5	1	1	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:61897227T>G	uc002jbz.2	-	20	2557	c.2479A>C	c.(2479-2481)AGG>CGG	p.R827R	FTSJ3_uc002jca.2_Silent_p.R827R	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	827					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						TTCTTCATCCTTGAGTCCACC	0.527													9	153					0	0	1	0	0		G	61897227	G	G	61897227	2	3	82	1	0	0	0	0	0	0	0	1	6103	1608	56	5		5	FTSJ3	17	61897227	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	284163	61897227	19297983	1027	51483											
LRRC37A3	374819	broad.mit.edu	37	chr17	62893362	62893362	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacgctagtgccgggcacTgagcggaagtcattctggca	9	7	13	12	3	2	1	1	1	1	0	2	2	2	2	1	3	2	3	1	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:62893362T>C	uc002jey.2	-	3	545	c.14A>G	c.(13-15)CAG>CGG	p.Q5R	LRRC37A3_uc010wqg.1_Intron|LRRC37A3_uc010wqf.1_Intron	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	5						integral to membrane					0						TGCCGGGCACTGAGCGGAAGT	0.562													11	187					0	0	1	0	0		C	62893362	C	C	62893362	3	2	82	1	0	0	0	0	1	0	0	0	9011	1580	55	3	4938	3	LRRC37A3	17	62893362	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	996135	62893362	18301848	1028	51484											
CCDC46	201134	broad.mit.edu	37	chr17	63957711	63957711	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacgagttagctgctcctctTtttccctagaaaggttcaga	9	13	8	11	1	2	2	1	0	1	2	4	3	4	2	2	1	2	4	2	1	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:63957711T>A	uc002jfl.2	-	18	1961	c.1742A>T	c.(1741-1743)AAA>ATA	p.K581I	CCDC46_uc010deo.2_Missense_Mutation_p.K323I|CCDC46_uc002jfm.2_Missense_Mutation_p.K581I|CCDC46_uc010dep.2_Missense_Mutation_p.K539I	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	581	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			CTGCTCCTCTTTTTCCCTAGA	0.443													11	72					0	0	1	0	0		A	63957711	A	A	63957711	3	1	82	1	0	0	0	0	1	0	0	0	2820	1841	64	5	1331	5	CCDC46	17	63957711	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1064349	63957711	17237499	1029	51485											
COG1	9382	broad.mit.edu	37	chr17	71197502	71197502	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagcacaagccatcagcccTtgtgtacagaacttctgttc	12	10	7	12	0	2	1	1	0	1	1	3	1	2	1	2	0	5	3	2	0	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:71197502T>G	uc002jjg.2	+	7	1572	c.1536T>G	c.(1534-1536)CCT>CCG	p.P512P	COG1_uc002jjh.2_Silent_p.P512P|COG1_uc002jjf.1_Silent_p.P512P	NM_018714	NP_061184	Q8WTW3	COG1_HUMAN	component of oligomeric golgi complex 1	512					Golgi organization|intra-Golgi vesicle-mediated transport|protein transport	Golgi membrane|Golgi transport complex	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			CCATCAGCCCTTGTGTACAGA	0.547													48	121					0	0	1	0	0		G	71197502	G	G	71197502	2	3	82	1	0	0	0	0	0	0	0	1	3660	1596	56	5		5	COG1	17	71197502	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7239791	71197502	9997708	1030	51486											
SDK2	54549	broad.mit.edu	37	chr17	71398177	71398177	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgaagtactcggtgaacTtcttcaggccagacacgaag	12	8	12	9	2	2	3	1	2	1	1	3	4	2	3	1	3	2	1	1	3	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:71398177T>G	uc010dfm.2	-	19	2588	c.2588A>C	c.(2587-2589)AAG>ACG	p.K863T	SDK2_uc002jjt.3_Missense_Mutation_p.K22T|SDK2_uc010dfn.2_Missense_Mutation_p.K542T	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	863	Fibronectin type-III 3.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						CTCGGTGAACTTCTTCAGGCC	0.617													10	25					0	0	1	0	0		G	71398177	G	G	71398177	3	3	82	1	0	0	0	0	1	0	0	0	13994	1609	56	5	4038	5	SDK2	17	71398177	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	200675	71398177	9797033	1031	51487											
CD300E	342510	broad.mit.edu	37	chr17	72613331	72613331	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacccacactgtctgaattTtgcaccagtaagatccagca	12	9	8	12	0	1	2	0	1	1	1	2	3	2	3	3	1	2	3	3	1	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:72613331T>G	uc002jlb.1	-	2	355	c.314A>C	c.(313-315)AAA>ACA	p.K105T		NM_181449	NP_852114	Q496F6	CLM2_HUMAN	CD300e molecule precursor	105	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TGTCTGAATTTTGCACCAGTA	0.547													28	87					0	0	1	0	0		G	72613331	G	G	72613331	3	3	82	1	0	0	0	0	1	0	0	0	3001	1841	64	5	315	5	CD300E	17	72613331	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1215154	72613331	8581879	1032	51488											
CYTH1	9267	broad.mit.edu	37	chr17	76698666	76698666	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgcccatggctacctgtTtgttcctctgcatgtttttc	3	18	7	13	0	1	0	0	0	1	0	4	0	3	0	4	1	3	5	4	1	1	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:76698666T>G	uc002jvw.2	-	4	262	c.191A>C	c.(190-192)AAA>ACA	p.K64T	CYTH1_uc010wtw.1_Missense_Mutation_p.K5T|CYTH1_uc010wtx.1_Missense_Mutation_p.K5T	NM_017456	NP_059430	Q15438	CYH1_HUMAN	cytohesin 1 isoform 2	64	Potential.				regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						GGCTACCTGTTTGTTCCTCTG	0.388													37	78					0	0	1	0	0		G	76698666	G	G	76698666	3	3	82	1	0	0	0	0	1	0	0	0	4206	1841	64	5	1045	5	CYTH1	17	76698666	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4085335	76698666	4496544	1033	51489											
BAIAP2	10458	broad.mit.edu	37	chr17	79073837	79073837	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctgcttcctggtggagaAgcagtgcgccgtggccaaga	7	9	14	11	2	1	2	0	0	1	2	2	3	2	2	3	3	3	2	3	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:79073837A>G	uc002jzg.2	+	7	707	c.599A>G	c.(598-600)AAG>AGG	p.K200R	BAIAP2_uc002jyz.3_Missense_Mutation_p.K200R|BAIAP2_uc002jza.2_Missense_Mutation_p.K200R|BAIAP2_uc002jzc.2_Missense_Mutation_p.K200R|BAIAP2_uc002jzb.2_5'UTR|BAIAP2_uc002jzd.2_Missense_Mutation_p.K200R|BAIAP2_uc002jzf.2_Missense_Mutation_p.K200R|BAIAP2_uc002jze.2_Missense_Mutation_p.K233R|BAIAP2_uc010wuh.1_Missense_Mutation_p.K122R|BAIAP2_uc002jzh.2_Missense_Mutation_p.K201R|BAIAP2_uc010wui.1_Missense_Mutation_p.K63R	NM_017451	NP_059345	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2 isoform 2	200	IMD.				axonogenesis|filopodium assembly|insulin receptor signaling pathway|regulation of actin cytoskeleton organization|response to bacterium	cell junction|cytoskeleton|cytosol|filopodium|nucleus|ruffle	cytoskeletal adaptor activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding				0	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CTGGTGGAGAAGCAGTGCGCC	0.647													20	45					0	0	1	0	0		G	79073837	G	G	79073837	3	3	82	1	0	0	0	0	1	0	0	0	1302	72	3	3	625	3	BAIAP2	17	79073837	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2375171	79073837	2121373	1034	51490											
ZNF750	79755	broad.mit.edu	37	chr17	80788538	80788538	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccttcaccgagagattgAgtggaaggtcctgcagctct	8	10	13	10	1	2	2	1	1	1	1	4	5	4	3	3	3	2	2	3	3	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr17:80788538A>C	uc002kga.2	-	3	1963	c.1652T>G	c.(1651-1653)CTC>CGC	p.L551R	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	551						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			CGAGAGATTGAGTGGAAGGTC	0.602													9	86					0	0	1	0	0		C	80788538	C	C	80788538	3	2	82	1	0	0	0	0	1	0	0	0	18157	304	11	5	523	5	ZNF750	17	80788538	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1714701	80788538	406672	1035	51491											
NDC80	10403	broad.mit.edu	37	chr18	2577822	2577822	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcaaggacccgagaccacTtaatgacaaagcattcattc	16	8	6	11	1	2	2	2	1	0	1	3	4	2	3	2	1	1	1	2	1	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:2577822T>G	uc002kli.2	+	4	439	c.257T>G	c.(256-258)CTT>CGT	p.L86R		NM_006101	NP_006092	O14777	NDC80_HUMAN	kinetochore associated 2	86	Interaction with the N-terminus of CDCA1.|Nuclear localization.				attachment of spindle microtubules to kinetochore|cell division|establishment of mitotic spindle orientation|mitotic prometaphase|mitotic sister chromatid segregation|mitotic spindle organization|phosphatidylinositol-mediated signaling	condensed nuclear chromosome outer kinetochore|cytosol|Ndc80 complex	protein binding			ovary(1)	1						CCGAGACCACTTAATGACAAA	0.363													15	68					0	0	1	0	0		G	2577822	G	G	2577822	3	3	82	1	0	0	0	0	1	0	0	0	10261	1609	56	5	267	5	NDC80	18	2577822	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08		2577822	75499426	1036	51492											
LAMA1	284217	broad.mit.edu	37	chr18	6978368	6978368	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttggttttggctcccttgTctcttatacctaaaataaat	9	18	5	9	0	1	0	0	0	1	0	3	0	2	0	2	2	1	2	2	2	6	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:6978368T>C	uc002knm.2	-	43	6111	c.6017A>G	c.(6016-6018)GAC>GGC	p.D2006G	LAMA1_uc010wzj.1_Missense_Mutation_p.D1482G	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2006	Domain II and I.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGCTCCCTTGTCTCTTATACC	0.473													14	40					0	0	1	0	0		C	6978368	C	C	6978368	3	2	82	1	0	0	0	0	1	0	0	0	8621	1667	58	3	3294	3	LAMA1	18	6978368	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4400546	6978368	71098880	1037	51493											
LRRC30	339291	broad.mit.edu	37	chr18	7231432	7231432	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgacccggatcgtggtccTgaacttgtgcgggaaccgcc	7	8	13	13	4	0	2	0	2	0	0	2	4	1	4	4	3	3	0	4	3	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:7231432T>G	uc010wzk.1	+	1	296	c.296T>G	c.(295-297)CTG>CGG	p.L99R		NM_001105581	NP_001099051	A6NM36	LRC30_HUMAN	leucine rich repeat containing 30	99	LRR 2.									ovary(1)|liver(1)	2						ATCGTGGTCCTGAACTTGTGC	0.572													17	24					0	0	1	0	0		G	7231432	G	G	7231432	3	3	82	1	0	0	0	0	1	0	0	0	9003	1580	55	5	298	5	LRRC30	18	7231432	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	253064	7231432	70845816	1038	51494											
KIAA0802	23255	broad.mit.edu	37	chr18	8825346	8825346	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctggagatgtccaagaacTtgagtgatgacatgaaggag	13	8	14	6	0	0	6	0	4	0	2	1	8	1	7	2	2	1	0	2	2	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:8825346T>A	uc002knr.2	+	15	3980	c.3838T>A	c.(3838-3840)TTG>ATG	p.L1280M	KIAA0802_uc002knq.2_Missense_Mutation_p.L1239M|KIAA0802_uc002kns.2_Missense_Mutation_p.L620M	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1590											0						GTCCAAGAACTTGAGTGATGA	0.607													8	31					0	0	1	0	0		A	8825346	A	A	8825346	3	1	82	1	0	0	0	0	1	0	0	0	8210	1606	56	5	3888	5	KIAA0802	18	8825346	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1593914	8825346	69251902	1039	51495											
RALBP1	10928	broad.mit.edu	37	chr18	9535697	9535697	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatcatttgaatcaagcaaTtcatgaggagcgcgaggcca	14	8	10	9	2	3	2	3	2	0	0	3	4	3	3	1	2	2	1	1	2	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:9535697T>G	uc002kob.2	+	10	1953	c.1730T>G	c.(1729-1731)ATT>AGT	p.I577S	RALBP1_uc002koc.2_Missense_Mutation_p.I577S	NM_006788	NP_006779	Q15311	RBP1_HUMAN	ralA binding protein 1	577					chemotaxis|positive regulation of Cdc42 GTPase activity|small GTPase mediated signal transduction|transport	cytosol|membrane	ATPase activity, coupled to movement of substances|Rac GTPase activator activity|Rac GTPase binding|Ral GTPase binding			central_nervous_system(1)	1						AATCAAGCAATTCATGAGGAG	0.557													4	15					0	0	1	0	0		G	9535697	G	G	9535697	3	3	82	1	0	0	0	0	1	0	0	0	13037	1493	52	5	1764	5	RALBP1	18	9535697	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	710351	9535697	68541551	1040	51496											
PTPN2	5771	broad.mit.edu	37	chr18	12817314	12817314	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgattcagggactccaaaAtctggccaggtagtataatg	12	10	12	7	0	2	1	1	1	1	0	3	2	3	2	2	4	0	2	2	4	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:12817314A>C	uc002krp.2	-	6	740	c.546T>G	c.(544-546)GAT>GAG	p.D182E	PTPN2_uc002krl.2_Missense_Mutation_p.D182E|PTPN2_uc002krn.2_Missense_Mutation_p.D205E|PTPN2_uc002kro.2_Missense_Mutation_p.D182E|PTPN2_uc002krm.2_Missense_Mutation_p.D182E	NM_002828	NP_002819	P17706	PTN2_HUMAN	protein tyrosine phosphatase, non-receptor type	182	Tyrosine-protein phosphatase.	Substrate (By similarity).			interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway	endoplasmic reticulum|nucleoplasm	protein binding			skin(2)	2		Lung NSC(161;8.94e-06)				GGACTCCAAAATCTGGCCAGG	0.398													19	32					0	0	1	0	0		C	12817314	C	C	12817314	3	2	82	1	0	0	0	0	1	0	0	0	12808	98	4	5	743	5	PTPN2	18	12817314	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3281617	12817314	65259934	1041	51497											
RBBP8	5932	broad.mit.edu	37	chr18	20573460	20573460	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggagccctgttcacaggAatgcatcatccttcagccct	9	9	10	13	0	3	0	3	0	0	0	4	2	4	2	3	3	3	2	3	3	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:20573460A>T	uc002ktw.2	+	11	2001	c.1670A>T	c.(1669-1671)GAA>GTA	p.E557V	RBBP8_uc002kty.2_Missense_Mutation_p.E557V|RBBP8_uc002ktz.2_Missense_Mutation_p.E557V|RBBP8_uc002kua.2_Missense_Mutation_p.E557V|RBBP8_uc010xap.1_5'Flank|RBBP8_uc002ktx.1_Missense_Mutation_p.E557V	NM_002894	NP_002885	Q99708	COM1_HUMAN	retinoblastoma binding protein 8 isoform a	557					cell cycle checkpoint|DNA double-strand break processing involved in repair via single-strand annealing|meiosis|regulation of transcription from RNA polymerase II promoter	nucleus	damaged DNA binding|protein binding|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)|lung(1)|skin(1)	3	all_cancers(21;4.34e-05)|all_epithelial(16;8.3e-07)|Lung NSC(20;0.0107)|Colorectal(14;0.0202)|all_lung(20;0.0291)|Ovarian(20;0.19)		OV - Ovarian serous cystadenocarcinoma(1;0.00196)			TGTTCACAGGAATGCATCATC	0.448								Direct_reversal_of_damage|Homologous_recombination					13	43					0	0	1	0	0		T	20573460	T	T	20573460	3	4	82	1	0	0	0	0	1	0	0	0	13130	246	9	5	1708	5	RBBP8	18	20573460	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	7756146	20573460	57503788	1042	51498											
MAPRE2	10982	broad.mit.edu	37	chr18	32706943	32706943	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagtccagcagctaaaccAggatccacaccttctcgacc	12	7	6	16	1	2	0	1	0	1	0	5	2	4	1	5	1	3	2	5	1	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:32706943A>T	uc002kyg.2	+	5	822	c.642A>T	c.(640-642)CCA>CCT	p.P214P	MAPRE2_uc010xcb.1_Silent_p.P171P|MAPRE2_uc010xcc.1_Silent_p.P202P|MAPRE2_uc002kyf.2_Silent_p.P214P|MAPRE2_uc002kyh.2_Silent_p.P161P|MAPRE2_uc010xcd.1_Silent_p.P171P	NM_014268	NP_055083	Q15555	MARE2_HUMAN	microtubule-associated protein, RP/EB family,	214	DCTN1-binding.				cell division|cell proliferation|mitosis|signal transduction	cytoplasm|microtubule	microtubule binding			ovary(1)	1						CAGCTAAACCAGGATCCACAC	0.403													8	49					0	0	1	0	0		T	32706943	T	T	32706943	2	4	82	1	0	0	0	0	0	0	0	1	9313	175	7	5		5	MAPRE2	18	32706943	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	12133483	32706943	45370305	1043	51499											
KIAA1328	57536	broad.mit.edu	37	chr18	34740221	34740221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcatcatctattaaaaagCaccaagaccccccaaacagt	17	7	3	14	0	3	1	2	0	1	1	3	1	3	1	4	0	2	1	4	0	6	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:34740221C>T	uc002kzz.2	+	8	1313	c.1291C>T	c.(1291-1293)CAC>TAC	p.H431Y	KIAA1328_uc002lab.2_Missense_Mutation_p.H183Y|KIAA1328_uc002lac.1_Missense_Mutation_p.H290Y|KIAA1328_uc010dnc.1_RNA	NM_020776	NP_065827	Q86T90	K1328_HUMAN	hypothetical protein LOC57536	431										central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)		TATTAAAAAGCACCAAGACCC	0.428													5	21					0	0	1	0	0		T	34740221	T	T	34740221	3	4	82	1	0	0	0	0	1	0	0	0	8241	710	25	2	1321	2	KIAA1328	18	34740221	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	2033278	34740221	43337027	1044	51500											
WDR7	23335	broad.mit.edu	37	chr18	54363663	54363663	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcatggtggtgagattacTcaacttctagttccacctga	9	14	9	9	0	3	2	2	2	1	1	4	3	4	2	2	2	2	2	2	2	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:54363663T>A	uc002lgk.1	+	12	1759	c.1548T>A	c.(1546-1548)ACT>ACA	p.T516T	WDR7_uc010dpk.1_Intron|WDR7_uc002lgl.1_Silent_p.T516T	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	516										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		GTGAGATTACTCAACTTCTAG	0.333													7	43					0	0	1	0	0		A	54363663	A	A	54363663	2	1	82	1	0	0	0	0	0	0	0	1	17346	1538	54	5		5	WDR7	18	54363663	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	19623442	54363663	23713585	1045	51501											
SEC11C	90701	broad.mit.edu	37	chr18	56825903	56825903	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggtgcatatgtgttactaAaacgtgaatcctaaaatgag	14	12	10	5	1	0	2	0	2	0	0	1	2	1	2	1	1	3	2	1	1	7	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:56825903A>C	uc002lht.2	+	6	621	c.565A>C	c.(565-567)AAA>CAA	p.K189Q		NM_033280	NP_150596	Q9BY50	SC11C_HUMAN	SEC11-like 3	189	Lumenal (Potential).				energy reserve metabolic process|regulation of insulin secretion|signal peptide processing	endoplasmic reticulum membrane|integral to membrane|microsome	serine-type peptidase activity				0		Colorectal(73;0.175)				TGTGTTACTAAAACGTGAATC	0.343													8	39					0	0	1	0	0		C	56825903	C	C	56825903	3	2	82	1	0	0	0	0	1	0	0	0	14004	15	1	5	587	5	SEC11C	18	56825903	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2462240	56825903	21251345	1046	51502											
SERPINB4	6318	broad.mit.edu	37	chr18	61309092	61309092	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagtcagaagcttttgaaActggtgatgaacatttcctg	11	14	9	7	0	2	4	2	3	0	1	3	4	3	4	1	1	3	1	1	1	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:61309092A>T	uc002ljf.2	-	4	339	c.253T>A	c.(253-255)TTT>ATT	p.F85I	SERPINB4_uc002lje.2_Missense_Mutation_p.F85I|SERPINB4_uc002ljg.2_Intron	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	85					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						AGCTTTTGAAACTGGTGATGA	0.378													23	47					0	0	1	0	0		T	61309092	T	T	61309092	3	4	82	1	0	0	0	0	1	0	0	0	14128	43	2	5	939	5	SERPINB4	18	61309092	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4483189	61309092	16768156	1047	51503											
SERPINB4	6318	broad.mit.edu	37	chr18	61326731	61326731	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagtcagaagcttttgaaActggtgatgaacatttcctg	11	14	9	7	0	2	4	2	3	0	1	3	4	3	4	1	1	3	1	1	1	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:61326731A>T	uc002ljg.2	-	3	279	c.253T>A	c.(253-255)TTT>ATT	p.F85I	SERPINB3_uc002lji.2_Missense_Mutation_p.F85I|SERPINB3_uc010dqa.2_Missense_Mutation_p.F85I|SERPINB3_uc010dqb.2_Missense_Mutation_p.F85I			P48594	SPB4_HUMAN	SubName: Full=Squamous cell carcinoma antigen 2;	85					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						AGCTTTTGAAACTGGTGATGA	0.368													12	88					0	0	1	0	0		T	61326731	T	T	61326731	3	4	82	1	0	0	0	0	1	0	0	0	14128	43	2	5		5	SERPINB4	18	61326731	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	17639	61326731	16750517	1048	51504											
SERPINB11	89778	broad.mit.edu	37	chr18	61377558	61377558	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctctaagcatggtcctccTtggtgccaggggagagactg	7	10	14	10	0	1	1	0	0	1	1	3	3	3	2	3	4	3	2	3	4	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:61377558T>G	uc002ljk.3	+	2	193	c.131T>G	c.(130-132)CTT>CGT	p.L44R	SERPINB11_uc010xes.1_5'UTR|SERPINB11_uc010dqd.2_5'UTR|SERPINB11_uc002ljj.3_5'UTR|SERPINB11_uc010dqe.2_5'UTR|SERPINB11_uc010dqf.2_Missense_Mutation_p.L44R	NM_080475	NP_536723	Q96P15	SPB11_HUMAN	serpin peptidase inhibitor, clade B, member 11	44					regulation of proteolysis	cytoplasm	serine-type endopeptidase inhibitor activity			breast(1)	1		Esophageal squamous(42;0.129)				ATGGTCCTCCTTGGTGCCAGG	0.458													15	11					0	0	1	0	0		G	61377558	G	G	61377558	3	3	82	1	0	0	0	0	1	0	0	0	14123	1609	56	5	133	5	SERPINB11	18	61377558	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	50827	61377558	16699690	1049	51505											
SERPINB2	5055	broad.mit.edu	37	chr18	61564434	61564434	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caataagctgtttggtgagaAgtctgcgagcttccgggaag	10	10	14	7	2	1	1	0	1	1	1	2	4	2	2	1	2	3	3	1	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:61564434A>C	uc010xeu.1	+	5	731	c.398A>C	c.(397-399)AAG>ACG	p.K133T	SERPINB2_uc002ljo.2_Missense_Mutation_p.K133T|SERPINB2_uc010dqh.2_Missense_Mutation_p.K63T|SERPINB2_uc002ljp.1_5'UTR|SERPINB2_uc002ljq.1_5'UTR	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	133					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	TTTGGTGAGAAGTCTGCGAGC	0.418													21	40					0	0	1	0	0		C	61564434	C	C	61564434	3	2	82	1	0	0	0	0	1	0	0	0	14126	72	3	5	408	5	SERPINB2	18	61564434	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	186876	61564434	16512814	1050	51506											
SALL3	27164	broad.mit.edu	37	chr18	76754796	76754796	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaaatcccgctcaagacCgagaggccggacagcccagc	12	2	12	15	3	1	2	1	0	0	2	2	5	2	4	4	3	2	1	4	3	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr18:76754796C>T	uc002lmt.2	+	2	2805	c.2805C>T	c.(2803-2805)ACC>ACT	p.T935T	SALL3_uc010dra.2_Silent_p.T542T	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	935					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CGCTCAAGACCGAGAGGCCGG	0.547													3	6					0	0	1	0	0		T	76754796	T	T	76754796	2	4	82	1	0	0	0	0	0	0	0	1	13837	639	23	1		1	SALL3	18	76754796	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	15190362	76754796	1322452	1051	51507											
LMNB2	84823	broad.mit.edu	37	chr19	2433832	2433832	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttccggtcaccttgtccgAgttgttcttgagctgcacaa	6	14	9	12	2	2	1	1	1	1	0	4	2	4	1	3	1	2	4	3	1	1	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:2433832A>G	uc002lvy.2	-	8	1501	c.1414T>C	c.(1414-1416)TCG>CCG	p.S472P	LMNB2_uc002lwa.1_Missense_Mutation_p.S492P	NM_032737	NP_116126	Q03252	LMNB2_HUMAN	lamin B2	472	Tail.					nuclear inner membrane	structural molecule activity			large_intestine(1)|ovary(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACCTTGTCCGAGTTGTTCTTG	0.652													22	63					0	0	1	0	0		G	2433832	G	G	2433832	3	3	82	1	0	0	0	0	1	0	0	0	8867	304	11	3	408	3	LMNB2	19	2433832	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08		2433832	56695151	1052	51508											
SGTA	6449	broad.mit.edu	37	chr19	2767593	2767593	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccttgcccgtggcagcCgcttcaaatatctccggcag	7	9	9	16	3	3	0	2	0	1	0	4	0	3	0	4	2	2	3	4	2	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:2767593C>T	uc002lwi.1	-	3	339	c.192G>A	c.(190-192)GCG>GCA	p.A64A		NM_003021	NP_003012	O43765	SGTA_HUMAN	small glutamine-rich tetratricopeptide	64					interspecies interaction between organisms	cytoplasm	protein binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGTGGCAGCCGCTTCAAATA	0.622													6	35					0	0	1	0	0		T	2767593	T	T	2767593	2	4	82	1	0	0	0	0	0	0	0	1	14250	639	23	1		1	SGTA	19	2767593	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	333761	2767593	56361390	1053	51509											
ZNF556	80032	broad.mit.edu	37	chr19	2877903	2877903	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacggggagaaaccctataAgtgtggaaaatgcgggaaag	16	5	14	6	2	0	1	0	0	0	1	0	4	0	3	1	4	3	0	1	4	7	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:2877903A>C	uc002lwp.1	+	4	1034	c.947A>C	c.(946-948)AAG>ACG	p.K316T	ZNF556_uc002lwq.2_Missense_Mutation_p.K315T	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	316	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAACCCTATAAGTGTGGAAAA	0.522													7	45					0	0	1	0	0		C	2877903	C	C	2877903	3	2	82	1	0	0	0	0	1	0	0	0	18012	72	3	5	961	5	ZNF556	19	2877903	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	110310	2877903	56251080	1054	51510											
PIP5K1C	23396	broad.mit.edu	37	chr19	3653457	3653457	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagcccttgaggtcgaacTtgaggtgcatcttgaccacg	8	10	13	10	2	1	3	0	3	1	0	2	5	1	4	2	3	3	1	2	3	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:3653457T>C	uc002lyj.1	-	7	809	c.752A>G	c.(751-753)AAG>AGG	p.K251R	PIP5K1C_uc010xhq.1_Missense_Mutation_p.K251R|PIP5K1C_uc010xhr.1_Missense_Mutation_p.K251R	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	251	PIPK.				axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		GAGGTCGAACTTGAGGTGCAT	0.582													5	55					0	0	1	0	0		C	3653457	C	C	3653457	3	2	82	1	0	0	0	0	1	0	0	0	11960	1609	56	3	1302	3	PIP5K1C	19	3653457	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	775554	3653457	55475526	1055	51511											
MPND	84954	broad.mit.edu	37	chr19	4345893	4345893	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtggctgggcctctgtcaAgtacaaaggccagaaactgg	10	8	13	10	0	2	1	1	0	1	1	2	1	2	1	2	4	2	2	2	4	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:4345893A>C	uc002mae.2	+	3	513	c.446A>C	c.(445-447)AAG>ACG	p.K149T	MPND_uc010dtx.2_RNA|MPND_uc002mag.2_Missense_Mutation_p.K149T|MPND_uc002maf.2_Missense_Mutation_p.K149T|MPND_uc002mah.2_Missense_Mutation_p.K37T|MPND_uc002mai.2_Missense_Mutation_p.K37T	NM_032868	NP_116257	Q8N594	MPND_HUMAN	MPN domain containing isoform 1	149							peptidase activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCTCTGTCAAGTACAAAGGC	0.627													18	35					0	0	1	0	0		C	4345893	C	C	4345893	3	2	82	1	0	0	0	0	1	0	0	0	9749	72	3	5	456	5	MPND	19	4345893	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	692436	4345893	54783090	1056	51512											
CHAF1A	10036	broad.mit.edu	37	chr19	4409730	4409730	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcacagcagtaccagtcccTtccccacctccacgcccctc	8	6	5	22	1	0	0	0	0	0	0	4	0	3	0	8	0	3	3	8	0	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:4409730T>G	uc002mal.2	+	3	1034	c.934T>G	c.(934-936)TTC>GTC	p.F312V		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	312	Binds to CBX1 chromo shadow domain.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		TACCAGTCCCTTCCCCACCTC	0.622								Chromatin_Structure					14	75					0	0	1	0	0		G	4409730	G	G	4409730	3	3	82	1	0	0	0	0	1	0	0	0	3314	1609	56	5	944	5	CHAF1A	19	4409730	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	63837	4409730	54719253	1057	51513											
VAV1	7409	broad.mit.edu	37	chr19	6772985	6772985	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgctaccccatgccatcaAcctgcgtgaggtcaacctgc	8	8	8	17	1	2	1	2	1	0	0	2	1	2	1	6	1	7	1	6	1	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:6772985A>C	uc002mfu.1	+	1	264	c.167A>C	c.(166-168)AAC>ACC	p.N56T	VAV1_uc010xjh.1_Missense_Mutation_p.N56T|VAV1_uc010dva.1_Missense_Mutation_p.N56T	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	56	Leu-rich.|CH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						CATGCCATCAACCTGCGTGAG	0.652													25	73					0	0	1	0	0		C	6772985	C	C	6772985	3	2	82	1	0	0	0	0	1	0	0	0	17157	43	2	5	169	5	VAV1	19	6772985	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2363255	6772985	52355998	1058	51514											
ARHGEF18	23370	broad.mit.edu	37	chr19	7509198	7509198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcaaggccattggccGcctcttcccatgcgctgacg	7	7	11	16	3	1	1	0	1	1	0	2	1	2	1	4	2	3	3	4	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:7509198G>A	uc002mgi.2	+	4	1158	c.905G>A	c.(904-906)CGC>CAC	p.R302H	ARHGEF18_uc010xjm.1_Missense_Mutation_p.R144H|ARHGEF18_uc002mgh.2_Missense_Mutation_p.R144H|ARHGEF18_uc002mgj.1_5'Flank	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	302	DH.				actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				GCCATTGGCCGCCTCTTCCCA	0.647													19	35					0	0	1	0	0		A	7509198	A	A	7509198	3	1	82	1	0	0	0	0	1	0	0	0	901	1087	38	1	919	1	ARHGEF18	19	7509198	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	736213	7509198	51619785	1059	51515											
C19orf59	199675	broad.mit.edu	37	chr19	7742562	7742562	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaatatcaccttggcctTcaaaaatcaggaccatgcaa	15	9	7	10	0	3	1	3	1	0	1	3	3	3	2	3	2	1	1	3	2	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:7742562T>G	uc002mhh.1	+	2	159	c.134T>G	c.(133-135)TTC>TGC	p.F45C		NM_174918	NP_777578	Q8IX19	MCEM1_HUMAN	mast cell-expressed membrane protein 1	45	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						ACCTTGGCCTTCAAAAATCAG	0.562											OREG0025208	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	58					0	0	1	0	0		G	7742562	G	G	7742562	3	3	82	1	0	0	0	0	1	0	0	0	1943	1783	62	5	140	5	C19orf59	19	7742562	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	233364	7742562	51386421	1060	51516											
MUC16	94025	broad.mit.edu	37	chr19	9063622	9063622	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgctcatctgtgagtgtgAaaatccttgagatatagttg	11	14	11	5	0	2	3	1	3	1	1	3	4	3	3	1	0	1	2	1	0	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:9063622A>C	uc002mkp.2	-	3	24028	c.23824T>G	c.(23824-23826)TCA>GCA	p.S7942A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7944	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTGAGTGTGAAAATCCTTGA	0.458													27	74					0	0	1	0	0		C	9063622	C	C	9063622	3	2	82	1	0	0	0	0	1	0	0	0	9991	246	9	5	20027	5	MUC16	19	9063622	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1321060	9063622	50065361	1061	51517											
MUC16	94025	broad.mit.edu	37	chr19	9073199	9073199	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggttgtgacaaggacaggTgcttgagaagagggagagct	13	7	17	4	0	0	4	0	2	0	3	0	7	0	5	0	4	2	3	0	4	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:9073199T>C	uc002mkp.2	-	3	14451	c.14247A>G	c.(14245-14247)GCA>GCG	p.A4749A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4751	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAAGGACAGGTGCTTGAGAAG	0.473													13	114					0	0	1	0	0		C	9073199	C	C	9073199	2	2	82	1	0	0	0	0	0	0	0	1	9991	1683	59	3		3	MUC16	19	9073199	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	9577	9073199	50055784	1062	51518											
MUC16	94025	broad.mit.edu	37	chr19	9076652	9076652	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgcaactttcaagtttgaAgtcatgtctgtgacagtcca	10	14	8	9	0	3	2	2	2	1	0	4	2	4	2	1	0	2	2	1	0	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:9076652A>G	uc002mkp.2	-	3	10998	c.10794T>C	c.(10792-10794)ACT>ACC	p.T3598T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3599	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCAAGTTTGAAGTCATGTCTG	0.483													33	65					0	0	1	0	0		G	9076652	G	G	9076652	2	3	82	1	0	0	0	0	0	0	0	1	9991	59	3	3		3	MUC16	19	9076652	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3453	9076652	50052331	1063	51519											
OR7D2	162998	broad.mit.edu	37	chr19	9296924	9296924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gctcattggtgtcatgacatCcctcctccatatttctctga	7	15	6	13	0	3	2	2	2	1	0	7	2	6	2	3	1	0	1	3	1	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:9296924C>T	uc002mkz.1	+	1	655	c.467C>T	c.(466-468)TCC>TTC	p.S156F		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	156	Helical; Name=4; (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						GTCATGACATCCCTCCTCCAT	0.468													10	190					0	0	1	0	0		T	9296924	T	T	9296924	3	4	82	1	0	0	0	0	1	0	0	0	11238	855	30	4	469	4	OR7D2	19	9296924	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	220272	9296924	49832059	1064	51520											
ZNF699	374879	broad.mit.edu	37	chr19	9406765	9406765	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctcgactttgattttTcacatgtgtattaagggaag	9	18	8	6	1	2	1	1	1	1	0	4	3	2	2	0	1	0	1	0	1	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:9406765T>G	uc002mlc.1	-	5	1315	c.1315A>C	c.(1315-1317)AAA>CAA	p.K439Q		NM_198535	NP_940937	Q32M78	ZN699_HUMAN	zinc finger protein 699	439	C2H2-type 9; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTTGATTTTTCACATGTGTA	0.418													4	65					0	0	1	0	0		G	9406765	G	G	9406765	3	3	82	1	0	0	0	0	1	0	0	0	18126	1792	62	5	617	5	ZNF699	19	9406765	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	109841	9406765	49722218	1065	51521											
ZNF560	147741	broad.mit.edu	37	chr19	9578937	9578937	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtactcatgttggtcttaAggcatggatgtttacagaag	11	13	12	5	0	2	1	1	0	1	1	2	3	2	2	0	3	2	4	0	3	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:9578937A>G	uc002mlp.1	-	10	896	c.686T>C	c.(685-687)CTT>CCT	p.L229P	ZNF560_uc010dwr.1_Missense_Mutation_p.L123P	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	229					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						GTTGGTCTTAAGGCATGGATG	0.378													14	80					0	0	1	0	0		G	9578937	G	G	9578937	3	3	82	1	0	0	0	0	1	0	0	0	18016	72	3	3	1690	3	ZNF560	19	9578937	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	172172	9578937	49550046	1066	51522											
RGL3	57139	broad.mit.edu	37	chr19	11515881	11515881	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcggagaaaatctgcgaaAgtttcctgaaagtagatagc	15	9	10	7	2	1	3	0	1	1	2	3	5	2	3	1	1	2	2	1	1	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:11515881A>G	uc002mrp.2	-	9	1191	c.1127T>C	c.(1126-1128)CTT>CCT	p.L376P	RGL3_uc002mrn.2_Missense_Mutation_p.L140P|RGL3_uc002mrm.2_Missense_Mutation_p.L140P|RGL3_uc002mro.2_Missense_Mutation_p.L376P	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	376	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular		p.S376S(1)		ovary(1)	1						AATCTGCGAAAGTTTCCTGAA	0.542													18	102					0	0	1	0	0		G	11515881	G	G	11515881	3	3	82	1	0	0	0	0	1	0	0	0	13303	72	3	3	1067	3	RGL3	19	11515881	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1936944	11515881	47613102	1067	51523											
ZNF653	115950	broad.mit.edu	37	chr19	11597811	11597811	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcacccacttctcaggcTccttggggatttcatagatg	7	11	10	13	1	2	1	2	0	1	1	4	2	3	2	3	4	0	2	3	4	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:11597811T>C	uc002mrz.1	-	5	1387	c.1334A>G	c.(1333-1335)GAG>GGG	p.E445G		NM_138783	NP_620138	Q96CK0	ZN653_HUMAN	zinc finger protein 653	445	Nuclear localization signal (Potential).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTCTCAGGCTCCTTGGGGAT	0.677													7	52					0	0	1	0	0		C	11597811	C	C	11597811	3	2	82	1	0	0	0	0	1	0	0	0	18091	1551	54	3	533	3	ZNF653	19	11597811	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	81930	11597811	47531172	1068	51524											
ZNF441	126068	broad.mit.edu	37	chr19	11891643	11891643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcacactggagagaaacCgtatgaatgtaagtattgtg	15	10	10	6	1	1	2	1	1	0	1	1	4	1	3	1	1	2	3	1	1	6	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:11891643C>T	uc010dyj.2	+	4	1198	c.1004C>T	c.(1003-1005)CCG>CTG	p.P335L	ZNF441_uc002msn.3_Missense_Mutation_p.P291L	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	335					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGAGAGAAACCGTATGAATGT	0.418													25	105					0	0	1	0	0		T	11891643	T	T	11891643	3	4	82	1	0	0	0	0	1	0	0	0	17939	652	23	1	1018	1	ZNF441	19	11891643	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	293832	11891643	47237340	1069	51525											
ZNF563	147837	broad.mit.edu	37	chr19	12429443	12429443	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagtgagtcttttcatgtcTttgacatacactgggataaa	11	14	8	8	0	3	2	1	2	2	0	3	3	3	3	1	1	1	0	1	1	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:12429443T>G	uc002mtp.2	-	4	1634	c.1396A>C	c.(1396-1398)AGA>CGA	p.R466R		NM_145276	NP_660319	Q8TA94	ZN563_HUMAN	zinc finger protein 563	466	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTTCATGTCTTTGACATACA	0.368													11	101					0	0	1	0	0		G	12429443	G	G	12429443	2	3	82	1	0	0	0	0	0	0	0	1	18019	1617	56	5		5	ZNF563	19	12429443	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	537800	12429443	46699540	1070	51526											
ZNF442	79973	broad.mit.edu	37	chr19	12461443	12461443	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgcttgcattcatagggtTtctctccagtgtgagttctt	6	18	9	8	0	3	1	1	1	2	0	5	1	4	1	1	1	2	4	1	1	1	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:12461443T>G	uc002mtr.1	-	6	1567	c.956A>C	c.(955-957)AAA>ACA	p.K319T	ZNF442_uc010xmk.1_Missense_Mutation_p.K250T	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	319					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						TTCATAGGGTTTCTCTCCAGT	0.423													31	230					0	0	1	0	0		G	12461443	G	G	12461443	3	3	82	1	0	0	0	0	1	0	0	0	17940	1841	64	5	931	5	ZNF442	19	12461443	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	32000	12461443	46667540	1071	51527											
ZNF799	90576	broad.mit.edu	37	chr19	12502375	12502375	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattgtttacatgtatagggTttctttccagtgtgagttct	7	19	9	6	0	2	1	0	1	2	0	3	1	3	1	1	1	1	4	1	1	3	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:12502375T>C	uc010dyt.2	-	4	987	c.837A>G	c.(835-837)AAA>AAG	p.K279K	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	279					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						ATGTATAGGGTTTCTTTCCAG	0.423													40	117					0	0	1	0	0		C	12502375	C	C	12502375	2	2	82	1	0	0	0	0	0	0	0	1	18191	1722	60	3		3	ZNF799	19	12502375	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	40932	12502375	46626608	1072	51528											
PRKACA	5566	broad.mit.edu	37	chr19	14208394	14208394	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggggaggctcctactttGctcaggataatctcaggggc	7	10	14	10	0	2	0	2	0	1	0	4	2	3	2	1	6	2	3	1	6	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:14208394G>C	uc002myc.2	-	7	839	c.639C>G	c.(637-639)AGC>AGG	p.S213R	PRKACA_uc002myb.2_Missense_Mutation_p.S205R|PRKACA_uc010xnm.1_Missense_Mutation_p.S155R|PRKACA_uc002myd.2_Missense_Mutation_p.S155R	NM_002730	NP_002721	P17612	KAPCA_HUMAN	cAMP-dependent protein kinase catalytic subunit	213	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|regulation of insulin secretion|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|cAMP-dependent protein kinase inhibitor activity|protein kinase binding			lung(1)	1						CTCCTACTTTGCTCAGGATAA	0.652													15	52					0	0	1	0	0		C	14208394	C	C	14208394	3	2	82	1	0	0	0	0	1	0	0	0	12519	1310	46	5	432	5	PRKACA	19	14208394	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1706019	14208394	44920589	1073	51529											
LPHN1	22859	broad.mit.edu	37	chr19	14271421	14271421	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaccttctgggccacctggTtgacccagggggaggtgcag	6	8	16	11	0	1	1	0	1	1	0	1	2	1	2	4	5	2	3	4	5	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:14271421T>G	uc010xnn.1	-	8	1909	c.1613A>C	c.(1612-1614)AAC>ACC	p.N538T	LPHN1_uc010xno.1_Missense_Mutation_p.N533T|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	538	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						GGCCACCTGGTTGACCCAGGG	0.662													3	15					0	0	1	0	0		G	14271421	G	G	14271421	3	3	82	1	0	0	0	0	1	0	0	0	8933	1725	60	5	2879	5	LPHN1	19	14271421	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	63027	14271421	44857562	1074	51530											
EMR2	30817	broad.mit.edu	37	chr19	14857053	14857053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatcttaccttgtgttcCggagggtggacacttcacta	7	13	9	12	1	2	0	1	0	1	0	4	2	4	2	3	3	1	1	3	3	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:14857053C>T	uc002mzp.1	-	18	2630	c.2174G>A	c.(2173-2175)CGG>CAG	p.R725Q	EMR2_uc010dzs.1_Missense_Mutation_p.R184Q|EMR2_uc010xnw.1_Missense_Mutation_p.R667Q|EMR2_uc002mzo.1_Missense_Mutation_p.R714Q|EMR2_uc002mzq.1_Missense_Mutation_p.R665Q|EMR2_uc002mzr.1_Missense_Mutation_p.R676Q|EMR2_uc002mzs.1_Missense_Mutation_p.R583Q|EMR2_uc002mzt.1_Missense_Mutation_p.R621Q|EMR2_uc002mzu.1_Missense_Mutation_p.R632Q|EMR2_uc010xnx.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	725	Cytoplasmic (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						CCTTGTGTTCCGGAGGGTGGA	0.483													39	156					0	0	1	0	0		T	14857053	T	T	14857053	3	4	82	1	0	0	0	0	1	0	0	0	5113	652	23	1	313	1	EMR2	19	14857053	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	585632	14857053	44271930	1075	51531											
SLC1A6	6511	broad.mit.edu	37	chr19	15061178	15061178	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaattgagtcccccagtacGttggtcattgtgcgaagccg	8	10	11	12	3	1	1	1	1	0	0	2	2	2	1	4	1	3	2	4	1	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:15061178G>T	uc002naa.1	-	9	1532	c.1524C>A	c.(1522-1524)AAC>AAA	p.N508K	SLC1A6_uc010dzu.1_Missense_Mutation_p.N430K|SLC1A6_uc010xod.1_Missense_Mutation_p.N444K	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	508					synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	CCCCCAGTACGTTGGTCATTG	0.577													16	47					8.28177e-16	8.37988e-16	1	1	0		T	15061178	T	T	15061178	3	4	82	1	0	0	0	0	1	0	0	0	14461	1136	40	5	174	5	SLC1A6	19	15061178	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	204125	15061178	44067805	1076	51532											
OR10H2	26538	broad.mit.edu	37	chr19	15839343	15839343	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtggtgacctcggccattTtccaactgactttctgtgga	6	14	11	10	1	1	2	0	2	1	0	3	3	2	3	3	4	1	0	3	4	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:15839343T>G	uc002nbm.2	+	1	510	c.490T>G	c.(490-492)TTC>GTC	p.F164V		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	164	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					CTCGGCCATTTTCCAACTGAC	0.567													13	66					0	0	1	0	0		G	15839343	G	G	15839343	3	3	82	1	0	0	0	0	1	0	0	0	10925	1841	64	5	492	5	OR10H2	19	15839343	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	778165	15839343	43289640	1077	51533											
CPAMD8	27151	broad.mit.edu	37	chr19	17088246	17088246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttctccattctccctgaCgtagaagaccagcaggcgac	9	8	8	16	2	2	3	0	1	2	2	4	4	2	3	4	1	1	2	4	1	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:17088246C>T	uc002nfb.2	-	15	1863	c.1831G>A	c.(1831-1833)GTC>ATC	p.V611I		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	564						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						TTCTCCCTGACGTAGAAGACC	0.592													21	54					0	0	1	0	0		T	17088246	T	T	17088246	3	4	82	1	0	0	0	0	1	0	0	0	3798	536	19	1	4079	1	CPAMD8	19	17088246	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	1248903	17088246	42040737	1078	51534											
UNC13A	23025	broad.mit.edu	37	chr19	17728589	17728589	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcgacagggcatagcgcaAggattgcaggtccgggctct	9	6	16	10	3	1	0	0	0	1	0	2	3	2	1	1	4	3	4	1	4	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:17728589A>C	uc002nhd.2	-	40	4744	c.4744T>G	c.(4744-4746)TTG>GTG	p.L1582V		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1494	MHD2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						GCATAGCGCAAGGATTGCAGG	0.602													29	65					0	0	1	0	0		C	17728589	C	C	17728589	3	2	82	1	0	0	0	0	1	0	0	0	17010	69	3	5	647	5	UNC13A	19	17728589	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	640343	17728589	41400394	1079	51535											
GDF15	9518	broad.mit.edu	37	chr19	18499616	18499616	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgcaccgcctgaagccCgacacggtgccagcgccctg	7	4	12	18	4	0	1	0	1	0	0	0	2	0	1	6	1	5	1	6	1	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:18499616C>T	uc002niv.2	+	2	830	c.798C>T	c.(796-798)CCC>CCT	p.P266P		NM_004864	NP_004855	Q99988	GDF15_HUMAN	growth differentiation factor 15	266					cell-cell signaling|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			central_nervous_system(1)	1						GCCTGAAGCCCGACACGGTGC	0.637											OREG0025363	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	17					0	0	1	0	0		T	18499616	T	T	18499616	2	4	82	1	0	0	0	0	0	0	0	1	6328	639	23	1		1	GDF15	19	18499616	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	771027	18499616	40629367	1080	51536											
ZNF93	81931	broad.mit.edu	37	chr19	20044675	20044675	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaacacttactaaacataAgaaaattcatactggagaga	19	9	5	8	0	2	2	2	0	0	2	2	4	2	3	0	1	4	0	0	1	8	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:20044675A>C	uc002non.2	+	4	1022	c.911A>C	c.(910-912)AAG>ACG	p.K304T		NM_031218	NP_112495	P35789	ZNF93_HUMAN	zinc finger protein 93	304	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1						ACTAAACATAAGAAAATTCAT	0.363													11	37					0	0	1	0	0		C	20044675	C	C	20044675	3	2	82	1	0	0	0	0	1	0	0	0	18227	72	3	5	925	5	ZNF93	19	20044675	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1545059	20044675	39084308	1081	51537											
ZNF493	284443	broad.mit.edu	37	chr19	21606364	21606364	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgaacaatatggcaaaacTtttaaccaatcttcaaccct	15	12	4	10	0	2	1	1	1	1	0	2	1	2	1	2	1	4	1	2	1	8	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:21606364T>G	uc002npx.2	+	2	799	c.519T>G	c.(517-519)ACT>ACG	p.T173T	ZNF493_uc002npw.2_Silent_p.T301T|ZNF493_uc002npy.2_Silent_p.T173T	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	173	C2H2-type 6; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATGGCAAAACTTTTAACCAAT	0.333													20	63					0	0	1	0	0		G	21606364	G	G	21606364	2	3	82	1	0	0	0	0	0	0	0	1	17969	1596	56	5		5	ZNF493	19	21606364	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1561689	21606364	37522619	1082	51538											
ZNF43	7594	broad.mit.edu	37	chr19	21990896	21990896	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcttcacatttgtagggtTtctcctcagtgtgaattatc	8	18	7	8	0	4	1	2	1	2	0	6	1	4	1	1	1	0	2	1	1	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:21990896T>G	uc002nqj.2	-	4	2073	c.1943A>C	c.(1942-1944)AAA>ACA	p.K648T	ZNF43_uc010ecv.2_Missense_Mutation_p.K642T|ZNF43_uc002nql.2_Missense_Mutation_p.K642T|ZNF43_uc002nqm.2_Missense_Mutation_p.K642T|ZNF43_uc002nqk.2_Missense_Mutation_p.K578T	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	648					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		TTTGTAGGGTTTCTCCTCAGT	0.368													10	43					0	0	1	0	0		G	21990896	G	G	21990896	3	3	82	1	0	0	0	0	1	0	0	0	17928	1841	64	5	490	5	ZNF43	19	21990896	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	384532	21990896	37138087	1083	51539											
ZNF681	148213	broad.mit.edu	37	chr19	23927176	23927176	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattcttcacatttgtagggTttctctccagtatgaattat	9	18	6	8	0	3	1	1	1	2	0	5	1	4	1	1	1	0	3	1	1	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:23927176T>G	uc002nrk.3	-	4	1318	c.1176A>C	c.(1174-1176)AAA>AAC	p.K392N	ZNF681_uc002nrl.3_Missense_Mutation_p.K323N|ZNF681_uc002nrj.3_Missense_Mutation_p.K323N	NM_138286	NP_612143	Q96N22	ZN681_HUMAN	zinc finger protein 681	392					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				ATTTGTAGGGTTTCTCTCCAG	0.408													15	40					0	0	1	0	0		G	23927176	G	G	23927176	3	3	82	1	0	0	0	0	1	0	0	0	18113	1722	60	5	765	5	ZNF681	19	23927176	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1936280	23927176	35201807	1084	51540											
ARHGAP33	115703	broad.mit.edu	37	chr19	36275211	36275211	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacctccgccggcctcgAccctgcaggtatgccctccc	4	8	8	21	3	1	0	1	0	0	0	4	1	3	0	7	2	2	2	7	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:36275211A>G	uc002obr.1	+	16	1644	c.1559A>G	c.(1558-1560)GAC>GGC	p.D520G	ARHGAP33_uc002obs.1_Missense_Mutation_p.D520G|ARHGAP33_uc002obt.1_Missense_Mutation_p.D384G|ARHGAP33_uc010eel.2_Missense_Mutation_p.D108G|ARHGAP33_uc002obv.1_Missense_Mutation_p.D108G	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	520					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						GCCGGCCTCGACCCTGCAGGT	0.677													34	102					0	0	1	0	0		G	36275211	G	G	36275211	3	3	82	1	0	0	0	0	1	0	0	0	882	275	10	3	1621	3	ARHGAP33	19	36275211	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	12348035	36275211	22853772	1085	51541											
APLP1	333	broad.mit.edu	37	chr19	36362645	36362645	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccatctgggacagcagtTgggtgagtgggagggaaccc	9	6	17	9	0	1	1	0	1	1	0	1	5	1	4	2	4	2	2	2	4	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:36362645T>G	uc002oce.2	+	5	807	c.669T>G	c.(667-669)GTT>GTG	p.V223V	APLP1_uc010xsz.1_Silent_p.V184V|APLP1_uc002ocf.2_Silent_p.V223V|APLP1_uc002ocg.2_Silent_p.V126V|APLP1_uc010xta.1_Silent_p.V217V	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	223	Extracellular (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGACAGCAGTTGGGTGAGTGG	0.637													6	39					0	0	1	0	0		G	36362645	G	G	36362645	2	3	82	1	0	0	0	0	0	0	0	1	778	1799	63	5		5	APLP1	19	36362645	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	87434	36362645	22766338	1086	51542											
NFKBID	84807	broad.mit.edu	37	chr19	36387301	36387301	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctggccataccaagagaActcctgggagcccgtaggta	11	6	12	12	1	0	1	0	0	0	1	1	3	1	2	4	3	4	3	4	3	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:36387301A>C	uc002oci.1	-	7	972	c.398T>G	c.(397-399)GTT>GGT	p.V133G	NFKBID_uc002och.1_5'UTR|NFKBID_uc002ocj.1_Missense_Mutation_p.V148G	NM_139239	NP_640332	Q8NI38	IKBD_HUMAN	nuclear factor of kappa light polypeptide gene	133	ANK 3.				inflammatory response	nucleus					0						TACCAAGAGAACTCCTGGGAG	0.602													38	87					0	0	1	0	0		C	36387301	C	C	36387301	3	2	82	1	0	0	0	0	1	0	0	0	10398	43	2	5	567	5	NFKBID	19	36387301	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	24656	36387301	22741682	1087	51543											
ZFP82	284406	broad.mit.edu	37	chr19	36884189	36884189	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgatggagtgttagttgTtgtcgcactctaaaggcctt	7	15	11	8	1	2	1	0	1	2	0	3	2	2	2	1	2	0	4	1	2	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:36884189T>G	uc002ody.1	-	5	1288	c.1053A>C	c.(1051-1053)CAA>CAC	p.Q351H		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	351	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						GTGTTAGTTGTTGTCGCACTC	0.423													8	99					0	0	1	0	0		G	36884189	G	G	36884189	3	3	82	1	0	0	0	0	1	0	0	0	17678	1722	60	5	549	5	ZFP82	19	36884189	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	496888	36884189	22244794	1088	51544											
ZFP82	284406	broad.mit.edu	37	chr19	36898797	36898797	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agataaccttacccagtgagAccaagttgctgtagttctcc	11	11	8	11	0	1	2	0	1	1	2	2	3	1	2	4	0	3	4	4	0	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:36898797A>C	uc002ody.1	-	3	363	c.128T>G	c.(127-129)GTC>GGC	p.V43G		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	43	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						ACCCAGTGAGACCAAGTTGCT	0.403													7	79					0	0	1	0	0		C	36898797	C	C	36898797	3	2	82	1	0	0	0	0	1	0	0	0	17678	275	10	5	1482	5	ZFP82	19	36898797	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	14608	36898797	22230186	1089	51545											
ZNF382	84911	broad.mit.edu	37	chr19	37117974	37117974	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaagtgcctttaggaagaAgtcatacctcattgatcacc	12	11	9	9	0	3	2	3	1	0	1	3	4	3	4	3	2	2	0	3	2	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:37117974A>C	uc002oek.2	+	5	1288	c.1175A>C	c.(1174-1176)AAG>ACG	p.K392T	ZNF382_uc010efa.2_Missense_Mutation_p.K343T|ZNF382_uc010efb.2_Missense_Mutation_p.K391T|ZNF382_uc002oel.2_Missense_Mutation_p.K391T	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	392	C2H2-type 5.|Required for transcriptional repression activity; probably mediates sequence- specific DNA-binding (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TTTAGGAAGAAGTCATACCTC	0.473													22	78					0	0	1	0	0		C	37117974	C	C	37117974	3	2	82	1	0	0	0	0	1	0	0	0	17898	72	3	5	1185	5	ZNF382	19	37117974	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	219177	37117974	22011009	1090	51546											
ZNF585A	199704	broad.mit.edu	37	chr19	37642494	37642494	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctcacactgtttctctcaAgcgtggctgctctgatggac	6	14	9	12	1	4	1	2	1	3	0	6	2	4	2	0	2	2	3	0	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:37642494A>C	uc002ofo.1	-	5	2538	c.2307T>G	c.(2305-2307)GCT>GCG	p.A769A	ZNF585A_uc002ofm.1_Silent_p.A714A|ZNF585A_uc002ofn.1_Silent_p.A714A	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	769					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTTTCTCTCAAGCGTGGCTGC	0.453													17	56					0	0	1	0	0		C	37642494	C	C	37642494	2	2	82	1	0	0	0	0	0	0	0	1	18042	59	3	5		5	ZNF585A	19	37642494	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	524520	37642494	21486489	1091	51547											
ZNF793	390927	broad.mit.edu	37	chr19	38028502	38028502	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaccctttgtctgcagTgaatgcgggaaatcgtttgg	9	11	14	7	2	1	2	0	1	1	1	2	5	1	3	1	2	2	2	1	2	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:38028502T>G	uc010efm.2	+	8	1384	c.942T>G	c.(940-942)AGT>AGG	p.S314R	ZNF793_uc010xts.1_Missense_Mutation_p.S314R|ZNF793_uc010efo.2_Intron	NM_001013659	NP_001013681	Q6ZN11	ZN793_HUMAN	zinc finger protein 793	314	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTGTCTGCAGTGAATGCGGGA	0.448													14	28					0	0	1	0	0		G	38028502	G	G	38028502	3	3	82	1	0	0	0	0	1	0	0	0	18190	1693	59	5	956	5	ZNF793	19	38028502	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	386008	38028502	21100481	1092	51548											
ZNF573	126231	broad.mit.edu	37	chr19	38230164	38230164	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcatagggtttctcgccAgtatgagttttctgatgttg	7	17	10	7	1	3	2	1	2	2	0	4	2	3	2	1	1	0	4	1	1	2	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:38230164A>T	uc002ohe.2	-	4	1249	c.1227T>A	c.(1225-1227)ACT>ACA	p.T409T	ZNF573_uc010efs.2_Silent_p.T322T|ZNF573_uc002ohd.2_Silent_p.T407T|ZNF573_uc002ohf.2_Silent_p.T351T|ZNF573_uc002ohg.2_Silent_p.T321T	NM_152360	NP_689573	Q86YE8	ZN573_HUMAN	zinc finger protein 573	389					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)|Lung(45;0.0813)|LUSC - Lung squamous cell carcinoma(53;0.146)			GTTTCTCGCCAGTATGAGTTT	0.383													37	103					0	0	1	0	0		T	38230164	T	T	38230164	2	4	82	1	0	0	0	0	0	0	0	1	18030	175	7	5		5	ZNF573	19	38230164	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	201662	38230164	20898819	1093	51549											
ZNF573	126231	broad.mit.edu	37	chr19	38230495	38230495	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacatatgtatggcttcTcatcagtatgaaactgccca	11	13	6	11	0	3	1	3	1	2	0	5	1	3	1	1	1	2	3	1	1	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:38230495T>A	uc002ohe.2	-	4	918	c.896A>T	c.(895-897)GAG>GTG	p.E299V	ZNF573_uc010efs.2_Missense_Mutation_p.E212V|ZNF573_uc002ohd.2_Missense_Mutation_p.E297V|ZNF573_uc002ohf.2_Missense_Mutation_p.E241V|ZNF573_uc002ohg.2_Missense_Mutation_p.E211V	NM_152360	NP_689573	Q86YE8	ZN573_HUMAN	zinc finger protein 573	279					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)|Lung(45;0.0813)|LUSC - Lung squamous cell carcinoma(53;0.146)			GTATGGCTTCTCATCAGTATG	0.403													11	98					0	0	1	0	0		A	38230495	A	A	38230495	3	1	82	1	0	0	0	0	1	0	0	0	18030	1551	54	5	1105	5	ZNF573	19	38230495	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	331	38230495	20898488	1094	51550											
RYR1	6261	broad.mit.edu	37	chr19	38995497	38995497	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatctaaggcagagaaaaAggccacagtggatgctgaag	15	6	12	8	0	2	2	1	1	1	1	2	4	2	3	1	3	1	2	1	3	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:38995497A>C	uc002oit.2	+	51	8307	c.8177A>C	c.(8176-8178)AAG>ACG	p.K2726T	RYR1_uc002oiu.2_Missense_Mutation_p.K2726T|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2726	5.|Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GCAGAGAAAAAGGCCACAGTG	0.597													12	48					0	0	1	0	0		C	38995497	C	C	38995497	3	2	82	1	0	0	0	0	1	0	0	0	13793	72	3	5	8379	5	RYR1	19	38995497	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	765002	38995497	20133486	1095	51551											
EIF3K	27335	broad.mit.edu	37	chr19	39123298	39123298	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccgctggctgctggccgAgatgctcggggatctgtcgg	4	9	17	11	4	1	2	0	1	1	1	3	4	1	3	2	5	2	4	2	5	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:39123298A>G	uc002oiz.1	+	6	666	c.479A>G	c.(478-480)GAG>GGG	p.E160G	EIF3K_uc010xuh.1_Missense_Mutation_p.E160G|EIF3K_uc010xui.1_Missense_Mutation_p.E73G	NM_013234	NP_037366	Q9UBQ5	EIF3K_HUMAN	eukaryotic translation initiation factor 3,	160					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex|nucleus	protein binding|ribosome binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CTGCTGGCCGAGATGCTCGGG	0.602													12	20					0	0	1	0	0		G	39123298	G	G	39123298	3	3	82	1	0	0	0	0	1	0	0	0	5029	304	11	3	501	3	EIF3K	19	39123298	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	127801	39123298	20005685	1096	51552											
LRFN1	57622	broad.mit.edu	37	chr19	39805078	39805078	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccgcctgccgtgtgatcAgcgggggctcacacaggaac	7	5	13	16	3	2	1	2	1	0	0	2	2	2	2	4	3	3	1	4	3	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:39805078A>C	uc002okw.2	-	1	899	c.899T>G	c.(898-900)CTG>CGG	p.L300R		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	300	Ig-like.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane				ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			CCGTGTGATCAGCGGGGGCTC	0.706													8	14					0	0	1	0	0		C	39805078	C	C	39805078	3	2	82	1	0	0	0	0	1	0	0	0	8955	188	7	5	1424	5	LRFN1	19	39805078	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	681780	39805078	19323905	1097	51553											
ATP1A3	478	broad.mit.edu	37	chr19	42479813	42479813	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgacgatggaggcaaagTtgtcgtccagcaggatcatg	10	9	14	8	2	1	1	1	1	0	0	3	4	2	3	1	3	1	3	1	3	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:42479813T>G	uc002osg.2	-	16	2385	c.2231A>C	c.(2230-2232)AAC>ACC	p.N744T	ATP1A3_uc010xwf.1_Missense_Mutation_p.N755T|ATP1A3_uc010xwg.1_Missense_Mutation_p.N714T|ATP1A3_uc010xwh.1_Missense_Mutation_p.N757T|ATP1A3_uc002osh.2_Missense_Mutation_p.N744T	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	744	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						GGAGGCAAAGTTGTCGTCCAG	0.632													23	76					0	0	1	0	0		G	42479813	G	G	42479813	3	3	82	1	0	0	0	0	1	0	0	0	1131	1725	60	5	842	5	ATP1A3	19	42479813	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2674735	42479813	16649170	1098	51554											
ATP1A3	478	broad.mit.edu	37	chr19	42480634	42480634	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgggcgaagacgatctcGgtgtgattctgcaggatctc	7	10	15	9	4	3	2	0	1	3	1	5	5	3	3	0	3	2	1	0	3	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:42480634G>A	uc002osg.2	-	15	2182	c.2028C>T	c.(2026-2028)ACC>ACT	p.T676T	ATP1A3_uc010xwf.1_Silent_p.T687T|ATP1A3_uc010xwg.1_Silent_p.T646T|ATP1A3_uc010xwh.1_Silent_p.T689T|ATP1A3_uc002osh.2_Silent_p.T676T	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	676	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						AGACGATCTCGGTGTGATTCT	0.557													22	45					0	0	1	0	0		A	42480634	A	A	42480634	2	1	82	1	0	0	0	0	0	0	0	1	1131	1103	39	1		1	ATP1A3	19	42480634	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	821	42480634	16648349	1099	51555											
CEACAM8	1088	broad.mit.edu	37	chr19	43098046	43098046	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgggttccagaaggtgaaaAgtgaggctaggagggggaga	12	5	20	4	1	0	4	0	2	0	2	1	6	1	5	1	6	0	2	1	6	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:43098046A>C	uc002oud.2	-	2	173	c.71T>G	c.(70-72)CTT>CGT	p.L24R	uc010eif.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron	NM_001816	NP_001807	P31997	CEAM8_HUMAN	carcinoembryonic antigen-related cell adhesion	24					immune response	anchored to membrane|extracellular space|integral to plasma membrane				ovary(1)	1		Prostate(69;0.00899)				GAAGGTGAAAAGTGAGGCTAG	0.448													33	108					0	0	1	0	0		C	43098046	C	C	43098046	3	2	82	1	0	0	0	0	1	0	0	0	3201	72	3	5	994	5	CEACAM8	19	43098046	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	617412	43098046	16030937	1100	51556											
PSG8	440533	broad.mit.edu	37	chr19	43268119	43268119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctctattctcatcacctcCcattatgatgtgtaaggtgt	8	16	6	11	0	3	1	2	1	2	0	6	1	5	1	3	1	0	1	3	1	3	4	rs148091598	byFrequency	TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:43268119C>T	uc002ouo.2	-	2	477	c.379G>A	c.(379-381)GGA>AGA	p.G127R	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc002oui.2_Intron|PSG8_uc002ouh.2_Missense_Mutation_p.G127R|PSG8_uc010ein.2_Intron|PSG8_uc002ouj.3_Missense_Mutation_p.G2R|PSG8_uc002ouk.3_Intron|PSG8_uc002oul.3_Missense_Mutation_p.G127R|PSG8_uc002oum.3_Missense_Mutation_p.G127R|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Missense_Mutation_p.G127R	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	127	Ig-like V-type.					extracellular region					0		Prostate(69;0.00899)				TCATCACCTCCCATTATGATG	0.473													48	339					0	0	1	0	0		T	43268119	T	T	43268119	3	4	82	1	0	0	0	0	1	0	0	0	12683	632	22	4	938	4	PSG8	19	43268119	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	170073	43268119	15860864	1101	51557											
PSG6	5675	broad.mit.edu	37	chr19	43411807	43411807	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgatagggtcctgtttcAtttctcgtgacactgggtag	7	15	11	8	1	2	2	1	2	1	0	4	2	3	2	1	2	0	2	1	2	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:43411807A>C	uc002ovj.1	-	4	958	c.906T>G	c.(904-906)AAT>AAG	p.N302K	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Missense_Mutation_p.N309K|PSG6_uc002ovi.2_Missense_Mutation_p.N303K|PSG6_uc010xwk.1_Missense_Mutation_p.N142K|PSG11_uc002ovk.1_Intron|PSG6_uc002ove.1_Missense_Mutation_p.N92K|PSG6_uc002ovf.1_Intron|PSG6_uc002ovg.1_Missense_Mutation_p.N302K	NM_002782	NP_002773	Q00889	PSG6_HUMAN	pregnancy specific beta-1-glycoprotein 6 isoform	302	Ig-like C2-type 2.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				GTCCTGTTTCATTTCTCGTGA	0.493													10	269					0	0	1	0	0		C	43411807	C	C	43411807	3	2	82	1	0	0	0	0	1	0	0	0	12681	214	8	5	452	5	PSG6	19	43411807	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	143688	43411807	15717176	1102	51558											
XRCC1	7515	broad.mit.edu	37	chr19	44050801	44050801	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcactggtgaggctgcttTggtctcttcaggggttgggg	4	12	18	7	0	2	1	1	1	1	0	3	2	2	1	0	7	2	4	0	7	0	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:44050801T>C	uc002owt.2	-	12	1492	c.1372A>G	c.(1372-1374)AAA>GAA	p.K458E	XRCC1_uc010xwp.1_Missense_Mutation_p.K427E	NM_006297	NP_006288	P18887	XRCC1_HUMAN	X-ray repair cross complementing protein 1	458					base-excision repair|single strand break repair	nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(2)|large_intestine(1)|prostate(1)|breast(1)	7		Prostate(69;0.0153)				GAGGCTGCTTTGGTCTCTTCA	0.473								Other_BER_factors					16	175					0	0	1	0	0		C	44050801	C	C	44050801	3	2	82	1	0	0	0	0	1	0	0	0	17478	1821	63	3	553	3	XRCC1	19	44050801	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	638994	44050801	15078182	1103	51559											
ZNF224	7767	broad.mit.edu	37	chr19	44611504	44611504	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcgagtccacagtggagaAaaaccattcaaatgtgaaga	17	6	10	8	1	1	3	1	1	0	2	2	5	2	3	2	1	2	0	2	1	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:44611504A>C	uc002oyh.1	+	6	1493	c.1191A>C	c.(1189-1191)GAA>GAC	p.E397D	uc002oyi.2_RNA	NM_013398	NP_037530	Q9NZL3	ZN224_HUMAN	zinc finger protein 224	397					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				ACAGTGGAGAAAAACCATTCA	0.423													33	65					0	0	1	0	0		C	44611504	C	C	44611504	3	2	82	1	0	0	0	0	1	0	0	0	17803	11	1	5	1205	5	ZNF224	19	44611504	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	560703	44611504	14517479	1104	51560											
SLC8A2	6543	broad.mit.edu	37	chr19	47951490	47951490	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaccagcgtgccctcgcTgcggcggggtggggaggggg	5	4	21	11	4	0	0	0	0	0	0	1	2	0	1	2	7	4	1	2	7	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:47951490T>A	uc002pgx.2	-	4	1619	c.1341_splice	c.e4-1	p.S447_splice	SLC8A2_uc010xyq.1_Splice_Site_p.S203_splice|SLC8A2_uc010xyr.1_Intron|SLC8A2_uc010ele.2_Splice_Site_p.S447_splice	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor						cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		GTGCCCTCGCTGCGGCGGGGT	0.632													5	23					0	0	1	0	0		A	47951490	A	A	47951490	5	1	82	1	0	0	0	0	0	0	1	0	14732	1594	55	5	1454	5	SLC8A2	19	47951490	Splice_Site	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3339986	47951490	11177493	1105	51561											
SLC8A2	6543	broad.mit.edu	37	chr19	47960262	47960262	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtagaaggtgctgttgcccTcgccgccctggcacgtgacg	5	8	14	14	5	0	2	0	1	0	1	1	2	0	2	3	2	2	4	3	2	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:47960262T>A	uc002pgx.2	-	3	1543	c.1265A>T	c.(1264-1266)GAG>GTG	p.E422V	SLC8A2_uc010xyq.1_Missense_Mutation_p.E178V|SLC8A2_uc010xyr.1_Intron|SLC8A2_uc010ele.2_Missense_Mutation_p.E422V	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	422	Calx-beta 1.|Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		GCTGTTGCCCTCGCCGCCCTG	0.667													5	17					0	0	1	0	0		A	47960262	A	A	47960262	3	1	82	1	0	0	0	0	1	0	0	0	14732	1551	54	5	1532	5	SLC8A2	19	47960262	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	8772	47960262	11168721	1106	51562											
PLA2G4C	8605	broad.mit.edu	37	chr19	48608695	48608695	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcccaggaattatggaaacTtcagagcttcccaggagaaa	15	7	10	9	0	1	2	1	0	0	2	2	5	2	4	2	3	3	1	2	3	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:48608695T>G	uc002phx.2	-	3	413	c.15A>C	c.(13-15)GAA>GAC	p.E5D	PLA2G4C_uc002phw.2_5'UTR|PLA2G4C_uc010elr.2_Missense_Mutation_p.E5D|PLA2G4C_uc010xzd.1_Intron|PLA2G4C_uc002phy.3_Missense_Mutation_p.E5D	NM_003706	NP_003697	Q9UP65	PA24C_HUMAN	phospholipase A2, group IVC isoform 1 precursor	5	PLA2c.				arachidonic acid metabolic process|glycerophospholipid catabolic process|inflammatory response|intracellular signal transduction|parturition	cytosol|membrane	calcium-independent phospholipase A2 activity|phospholipid binding			ovary(1)|skin(1)	2		all_cancers(25;2.84e-05)|all_lung(116;4.62e-05)|Lung NSC(112;7.61e-05)|all_epithelial(76;0.000192)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;8.09e-05)|all cancers(93;0.000517)|Epithelial(262;0.0135)|GBM - Glioblastoma multiforme(486;0.0717)		TTATGGAAACTTCAGAGCTTC	0.463													22	64					0	0	1	0	0		G	48608695	G	G	48608695	3	3	82	1	0	0	0	0	1	0	0	0	12022	1606	56	5	1674	5	PLA2G4C	19	48608695	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	648433	48608695	10520288	1107	51563											
MYBPC2	4606	broad.mit.edu	37	chr19	50951573	50951573	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcgaggtgtctgatgagaaAgtgacgggcaagtggtataa	12	9	16	4	2	1	3	0	3	1	1	1	5	1	3	0	3	1	2	0	3	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:50951573A>C	uc002psf.2	+	13	1449	c.1398A>C	c.(1396-1398)AAA>AAC	p.K466N		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	466	Ig-like C2-type 4.				cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		CTGATGAGAAAGTGACGGGCA	0.562													36	82					0	0	1	0	0		C	50951573	C	C	50951573	3	2	82	1	0	0	0	0	1	0	0	0	10030	69	3	5	1448	5	MYBPC2	19	50951573	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2342878	50951573	8177410	1108	51564											
SYT3	84258	broad.mit.edu	37	chr19	51129247	51129247	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggaggtagcagagtgagaAgttgagctccccaagatctg	11	7	16	7	0	1	4	0	2	1	3	2	6	2	5	2	3	2	4	2	3	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:51129247A>C	uc002pst.2	-	5	1943	c.1309T>G	c.(1309-1311)TTC>GTC	p.F437V	SYT3_uc002psv.2_Missense_Mutation_p.F437V|SYT3_uc010ycd.1_Missense_Mutation_p.F437V	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	437	C2 2.|Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		CAGAGTGAGAAGTTGAGCTCC	0.557													3	24					0	0	1	0	0		C	51129247	C	C	51129247	3	2	82	1	0	0	0	0	1	0	0	0	15500	72	3	5	479	5	SYT3	19	51129247	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	177674	51129247	7999736	1109	51565											
SYT3	84258	broad.mit.edu	37	chr19	51140563	51140563	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctcggattcggtcattgaActcctggcacctgtcgttgg	5	12	12	12	3	1	1	1	1	0	0	5	2	2	2	3	4	1	2	3	4	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:51140563A>C	uc002pst.2	-	1	740	c.106T>G	c.(106-108)TTC>GTC	p.F36V	SYT3_uc002psv.2_Missense_Mutation_p.F36V|SYT3_uc010ycd.1_Missense_Mutation_p.F36V	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	36	Vesicular (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		CGGTCATTGAACTCCTGGCAC	0.632													11	41					0	0	1	0	0		C	51140563	C	C	51140563	3	2	82	1	0	0	0	0	1	0	0	0	15500	43	2	5	1698	5	SYT3	19	51140563	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	11316	51140563	7988420	1110	51566											
KLK3	354	broad.mit.edu	37	chr19	51361465	51361465	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctccgcctgtcagagccTgccgagctcacggatgctgt	5	9	12	15	3	2	1	2	0	0	1	3	3	3	2	4	1	5	3	4	1	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:51361465T>C	uc002pts.1	+	3	428	c.387T>C	c.(385-387)CCT>CCC	p.P129P	KLK3_uc010ycj.1_Intron|KLK3_uc002ptr.1_Silent_p.P86P|KLK3_uc010eof.1_RNA	NM_001030047	NP_001025218	P07288	KLK3_HUMAN	prostate specific antigen isoform 3	129	Peptidase S1.				negative regulation of angiogenesis|proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00763)|GBM - Glioblastoma multiforme(134;0.0144)		TGTCAGAGCCTGCCGAGCTCA	0.617													10	32					0	0	1	0	0		C	51361465	C	C	51361465	2	2	82	1	0	0	0	0	0	0	0	1	8421	1567	55	3		3	KLK3	19	51361465	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	220902	51361465	7767518	1111	51567											
KLK10	5655	broad.mit.edu	37	chr19	51520422	51520422	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtccaccaggacacccgcGcagtggaacgagaggccgtt	9	5	14	13	4	0	1	0	0	0	1	1	4	1	3	4	4	1	2	4	4	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:51520422G>A	uc002puy.2	-	3	294	c.213C>T	c.(211-213)TGC>TGT	p.C71C	KLK10_uc002puz.2_Silent_p.C71C|KLK10_uc002pva.2_Silent_p.C71C	NM_145888	NP_665895	O43240	KLK10_HUMAN	kallikrein-related peptidase 10 preproprotein	71	Peptidase S1.				cell cycle|proteolysis	extracellular region	serine-type endopeptidase activity			lung(2)	2		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00885)		GGACACCCGCGCAGTGGAACG	0.672											OREG0025646	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	12					0	0	1	0	0		A	51520422	A	A	51520422	2	1	82	1	0	0	0	0	0	0	0	1	8414	1079	38	1		1	KLK10	19	51520422	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	158957	51520422	7608561	1112	51568											
CD33	945	broad.mit.edu	37	chr19	51742771	51742771	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccttctttcctctccataAgaaacaccagaagaagtcca	13	9	4	15	0	2	3	0	0	2	3	5	3	4	3	6	0	1	0	6	0	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:51742771A>G	uc002pwa.2	+	7	965	c.925_splice	c.e7-2	p.K309_splice	CD33_uc010eos.1_3'UTR|CD33_uc010eot.1_Splice_Site_p.K182_splice|CD33_uc010eou.1_RNA	NM_001772	NP_001763	P20138	CD33_HUMAN	CD33 antigen isoform 1 precursor						cell adhesion|cell-cell signaling|negative regulation of cell proliferation	external side of plasma membrane|integral to plasma membrane	receptor activity|sugar binding				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	CCTCTCCATAAGAAACACCAG	0.502													21	46					0	0	1	0	0		G	51742771	G	G	51742771	5	3	82	1	0	0	0	0	0	0	1	0	3008	86	3	3	962	3	CD33	19	51742771	Splice_Site	SNP	A	TCGA-BR-8589-01A-11D-2394-08	222349	51742771	7386212	1113	51569											
ZNF480	147657	broad.mit.edu	37	chr19	52825169	52825169	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccagccttactaaacatcaAgtaatccatactgtagagaa	16	10	5	10	0	1	1	1	0	0	1	3	2	3	1	3	0	4	2	3	0	8	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:52825169A>T	uc010ydl.1	+	5	736	c.666A>T	c.(664-666)CAA>CAT	p.Q222H	ZNF480_uc002pyv.2_Missense_Mutation_p.Q145H|ZNF480_uc010ydm.1_Missense_Mutation_p.Q179H|ZNF480_uc010epn.2_Missense_Mutation_p.Q53H|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	222	C2H2-type 1; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		CTAAACATCAAGTAATCCATA	0.373													5	71					0	0	1	0	0		T	52825169	T	T	52825169	3	4	82	1	0	0	0	0	1	0	0	0	17960	69	3	5	680	5	ZNF480	19	52825169	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1082398	52825169	6303814	1114	51570											
ZNF816A	125893	broad.mit.edu	37	chr19	53454176	53454176	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacactcattacacttgtaAgttttctcaccagtgtgaca	11	13	5	12	0	2	1	2	1	1	0	3	1	2	1	2	0	1	2	2	0	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:53454176A>C	uc002qal.1	-	5	1153	c.852T>G	c.(850-852)ACT>ACG	p.T284T	ZNF321_uc010eqj.2_Intron|ZNF321_uc002qak.1_Intron|ZNF816A_uc002qam.1_Silent_p.T268T	NM_001031665	NP_001026835	Q0VGE8	ZN816_HUMAN	zinc finger protein 816A	284					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0313)		TACACTTGTAAGTTTTCTCAC	0.373													23	154					0	0	1	0	0		C	53454176	C	C	53454176	2	2	82	1	0	0	0	0	0	0	0	1	18202	59	3	5		5	ZNF816A	19	53454176	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	629007	53454176	5674807	1115	51571											
BIRC8	112401	broad.mit.edu	37	chr19	53793027	53793027	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatgtccacaaggaataaAaacaacagcgatatgtctgt	17	8	8	8	1	1	1	0	0	1	1	2	3	2	2	1	1	3	0	1	1	7	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:53793027A>C	uc002qbk.2	-	1	1849	c.601T>G	c.(601-603)TTT>GTT	p.F201V		NM_033341	NP_203127	Q96P09	BIRC8_HUMAN	baculoviral IAP repeat-containing 8	201	RING-type.				apoptosis		zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(134;0.00304)		CAAGGAATAAAAACAACAGCG	0.443													32	74					0	0	1	0	0		C	53793027	C	C	53793027	3	2	82	1	0	0	0	0	1	0	0	0	1441	14	1	5	113	5	BIRC8	19	53793027	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	338851	53793027	5335956	1116	51572											
ZNF331	55422	broad.mit.edu	37	chr19	54079977	54079977	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagcatatgaaaataagAgtttacctacagaaaaaaac	21	8	6	6	0	1	3	1	1	0	2	1	3	1	3	1	0	4	2	1	0	9	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:54079977A>C	uc002qbx.1	+	7	1597	c.163A>C	c.(163-165)AGT>CGT	p.S55R	ZNF331_uc002qby.1_Missense_Mutation_p.S55R|ZNF331_uc002qbz.1_Missense_Mutation_p.S55R|ZNF331_uc002qca.1_Missense_Mutation_p.S55R|ZNF331_uc010eqr.1_Missense_Mutation_p.S55R|ZNF331_uc002qcb.1_Missense_Mutation_p.S55R|ZNF331_uc002qcc.1_Missense_Mutation_p.S55R|ZNF331_uc002qcd.1_Missense_Mutation_p.S55R	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	55	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		TGAAAATAAGAGTTTACCTAC	0.358			T	?	follicular thyroid adenoma								13	47					0	0	1	0	0		C	54079977	C	C	54079977	3	2	82	1	0	0	0	0	1	0	0	0	17874	304	11	5	173	5	ZNF331	19	54079977	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	286950	54079977	5049006	1117	51573											
LILRA5	353514	broad.mit.edu	37	chr19	54823827	54823827	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggcagagcagaaccatgAgggcagggctcacggcgtct	10	4	16	11	3	2	3	1	1	1	2	2	4	2	3	1	4	2	4	1	4	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:54823827A>G	uc002qfe.2	-	2	188	c.68T>C	c.(67-69)CTC>CCC	p.L23P	LILRA5_uc002qff.2_Missense_Mutation_p.L23P|LILRA5_uc010yev.1_Missense_Mutation_p.L23P|LILRA5_uc010yew.1_Missense_Mutation_p.L23P|LILRA5_uc002qfh.1_Missense_Mutation_p.L23P|LILRA5_uc002qfg.1_Missense_Mutation_p.L23P	NM_021250	NP_067073	A6NI73	LIRA5_HUMAN	leukocyte immunoglobulin-like receptor subfamily	23					innate immune response	extracellular region|integral to membrane	receptor activity			upper_aerodigestive_tract(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CAGAACCATGAGGGCAGGGCT	0.617													6	31					0	0	1	0	0		G	54823827	G	G	54823827	3	3	82	1	0	0	0	0	1	0	0	0	8804	304	11	3	941	3	LILRA5	19	54823827	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	743850	54823827	4305156	1118	51574											
LENG8	114823	broad.mit.edu	37	chr19	54969734	54969734	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctcccttctgcctttgctCttcccatccttccgcctcgc	2	14	5	20	2	2	0	0	0	2	0	7	0	6	0	6	0	3	2	6	0	0	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:54969734C>T	uc002qfv.1	+	14	2307	c.2163C>T	c.(2161-2163)CTC>CTT	p.L721L	LENG8_uc002qfw.2_Intron			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	721							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		TGCCTTTGCTCTTCCCATCCT	0.617													3	32					0	0	1	0	0		T	54969734	T	T	54969734	2	4	82	1	0	0	0	0	0	0	0	1	8740	928	32	4		4	LENG8	19	54969734	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	145907	54969734	4159249	1119	51575											
NCR1	9437	broad.mit.edu	37	chr19	55421419	55421419	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcacctgaagaccccaccTttcctggtgagtaactggtc	8	11	9	13	0	0	3	0	2	0	1	2	3	1	3	5	2	2	2	5	2	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:55421419T>G	uc002qib.2	+	5	714	c.676T>G	c.(676-678)TTT>GTT	p.F226V	NCR1_uc002qic.2_Missense_Mutation_p.F226V|NCR1_uc002qie.2_Missense_Mutation_p.F226V|NCR1_uc002qid.2_Missense_Mutation_p.F131V|NCR1_uc002qif.2_Missense_Mutation_p.F131V|NCR1_uc010esj.2_Missense_Mutation_p.F119V	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1	226	Extracellular (Potential).				cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		AGACCCCACCTTTCCTGGTGA	0.448													16	182					0	0	1	0	0		G	55421419	G	G	55421419	3	3	82	1	0	0	0	0	1	0	0	0	10256	1609	56	5	694	5	NCR1	19	55421419	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	451685	55421419	3707564	1120	51576											
NLRP7	199713	broad.mit.edu	37	chr19	55451541	55451541	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcaggggcccatgcggcTgagctccttgcagctgaggt	6	8	15	12	1	0	2	0	2	0	0	1	2	1	2	2	4	5	5	2	4	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:55451541T>C	uc002qih.3	-	4	722	c.646A>G	c.(646-648)AGC>GGC	p.S216G	NLRP7_uc002qig.3_Missense_Mutation_p.S216G|NLRP7_uc002qii.3_Missense_Mutation_p.S216G|NLRP7_uc010esk.2_Missense_Mutation_p.S216G|NLRP7_uc010esl.2_Missense_Mutation_p.S244G	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	216	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CCCATGCGGCTGAGCTCCTTG	0.552													25	50					0	0	1	0	0		C	55451541	C	C	55451541	3	2	82	1	0	0	0	0	1	0	0	0	10501	1580	55	3	2499	3	NLRP7	19	55451541	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	30122	55451541	3677442	1121	51577											
SYT5	6861	broad.mit.edu	37	chr19	55686273	55686273	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagtcctcctacgtccatcTtcttcaggtttttagcctcc	6	15	5	15	1	3	0	1	0	2	0	7	0	7	0	5	1	2	1	5	1	2	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:55686273T>G	uc002qjm.1	-	6	1863	c.803A>C	c.(802-804)AAG>ACG	p.K268T	SYT5_uc002qjp.2_Missense_Mutation_p.K264T|SYT5_uc002qjn.1_Missense_Mutation_p.K268T|SYT5_uc002qjo.1_Missense_Mutation_p.K267T	NM_003180	NP_003171	O00445	SYT5_HUMAN	synaptotagmin V	268	Cytoplasmic (Potential).|C2 2.				energy reserve metabolic process|regulation of insulin secretion|synaptic transmission	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane	metal ion binding|transporter activity				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		TACGTCCATCTTCTTCAGGTT	0.582													11	51					0	0	1	0	0		G	55686273	G	G	55686273	3	3	82	1	0	0	0	0	1	0	0	0	15502	1609	56	5	369	5	SYT5	19	55686273	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	234732	55686273	3442710	1122	51578											
BRSK1	84446	broad.mit.edu	37	chr19	55800909	55800909	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacctggtaaagaaggggAgactgacgcccaaggaggcc	13	4	14	10	1	0	3	0	1	0	2	0	5	0	4	3	5	1	1	3	5	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:55800909A>T	uc002qkg.2	+	4	656	c.379A>T	c.(379-381)AGA>TGA	p.R127*	BRSK1_uc002qkf.2_Nonsense_Mutation_p.R143*	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	127	Protein kinase.				establishment of cell polarity|G2/M transition DNA damage checkpoint|neuron differentiation|response to UV	cell junction|cytoplasm|nucleus	magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|lung(1)|breast(1)|skin(1)	6		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0474)		AAAGAAGGGGAGACTGACGCC	0.582													8	57					0	0	1	0	0		T	55800909	T	T	55800909	4	4	82	1	0	0	0	0	0	1	0	0	1526	296	11	5	393	5	BRSK1	19	55800909	Nonsense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	114636	55800909	3328074	1123	51579											
ZNF628	89887	broad.mit.edu	37	chr19	55993985	55993985	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcgctaccacctgcgggaCcacacgggcgagcggcccta	7	4	13	17	5	0	0	0	0	0	0	0	2	0	1	4	3	4	1	4	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:55993985C>G	uc002qld.2	+	3	1978	c.1413C>G	c.(1411-1413)GAC>GAG	p.D471E	NAT14_uc002qle.1_5'Flank	NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	471	C2H2-type 10.					nucleus	DNA binding|zinc ion binding				0	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0531)		ACCTGCGGGACCACACGGGCG	0.711													5	28					0	0	1	0	0		G	55993985	G	G	55993985	3	3	82	1	0	0	0	0	1	0	0	0	18077	506	18	5	1415	5	ZNF628	19	55993985	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	193076	55993985	3134998	1124	51580											
NLRP9	338321	broad.mit.edu	37	chr19	56249468	56249468	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atccagcacttacttctcatCtcttcctgagcctttgtcca	7	15	4	15	0	2	1	1	1	2	0	7	1	5	1	4	0	3	1	4	0	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:56249468C>G	uc002qly.2	-	1	301	c.273G>C	c.(271-273)GAG>GAC	p.E91D		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	91	DAPIN.					cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		TACTTCTCATCTCTTCCTGAG	0.498													78	599					0	0	1	0	0		G	56249468	G	G	56249468	3	3	82	1	0	0	0	0	1	0	0	0	10503	912	32	5	2738	5	NLRP9	19	56249468	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	255483	56249468	2879515	1125	51581											
NLRP9	338321	broad.mit.edu	37	chr19	56249481	56249481	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcatctcttcctgagccTttgtccagagatctttccta	6	17	5	13	0	3	2	1	1	3	1	8	3	6	2	4	0	1	0	4	0	1	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:56249481T>G	uc002qly.2	-	1	288	c.260A>C	c.(259-261)AAG>ACG	p.K87T		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	87	DAPIN.					cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		TTCCTGAGCCTTTGTCCAGAG	0.493													76	571					0	0	1	0	0		G	56249481	G	G	56249481	3	3	82	1	0	0	0	0	1	0	0	0	10503	1609	56	5	2751	5	NLRP9	19	56249481	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	13	56249481	2879502	1126	51582											
ZNF471	57573	broad.mit.edu	37	chr19	57036399	57036399	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaaaccctatgaatgtaaAgaatgtggcaaagccttcag	16	8	10	7	0	1	3	1	1	0	2	1	4	1	3	2	1	2	2	2	1	7	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:57036399A>G	uc002qnh.2	+	5	1096	c.963A>G	c.(961-963)AAA>AAG	p.K321K		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	321	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		ATGAATGTAAAGAATGTGGCA	0.438													13	99					0	0	1	0	0		G	57036399	G	G	57036399	2	3	82	1	0	0	0	0	0	0	0	1	17955	69	3	3		3	ZNF471	19	57036399	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	786918	57036399	2092584	1127	51583											
ZNF264	9422	broad.mit.edu	37	chr19	57723710	57723710	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaccaccgatcctacctcaaGaggcaccagcggattcacac	13	5	7	16	2	2	1	2	0	0	1	3	3	3	2	5	2	3	1	5	2	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:57723710G>A	uc002qob.2	+	4	1658	c.1245G>A	c.(1243-1245)AAG>AAA	p.K415K		NM_003417	NP_003408	O43296	ZN264_HUMAN	zinc finger protein 264	415	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0135)		CCTACCTCAAGAGGCACCAGC	0.532													13	53					0	0	1	0	0		A	57723710	A	A	57723710	2	1	82	1	0	0	0	0	0	0	0	1	17829	933	33	4		4	ZNF264	19	57723710	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	687311	57723710	1405273	1128	51584											
ZNF548	147694	broad.mit.edu	37	chr19	57909914	57909914	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagaaggtccaccctagtGagacatgtggcccacccttg	9	7	11	14	0	0	2	0	1	0	2	1	3	1	2	5	2	0	0	5	2	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:57909914G>T	uc002qom.2	+	3	509	c.259G>T	c.(259-261)GAG>TAG	p.E87*	ZNF547_uc002qpm.3_Intron|ZNF548_uc002qon.2_Nonsense_Mutation_p.E90*	NM_152909	NP_690873	Q8NEK5	ZN548_HUMAN	zinc finger protein 548	87					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CCACCCTAGTGAGACATGTGG	0.483													17	75					2.35188e-11	2.37643e-11	1	1	0		T	57909914	T	T	57909914	4	4	82	1	0	0	0	0	0	1	0	0	18005	1291	45	5	309	5	ZNF548	19	57909914	Nonsense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	186204	57909914	1219069	1129	51585											
ZNF772	400720	broad.mit.edu	37	chr19	57985254	57985254	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctttctccagtgtggacTctctggtgttgaacaagtga	7	13	12	9	0	2	2	0	2	2	0	4	3	2	3	2	3	1	1	2	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:57985254T>C	uc002qot.2	-	5	1119	c.858A>G	c.(856-858)AGA>AGG	p.R286R	ZNF547_uc002qpm.3_Intron|ZNF772_uc010ygy.1_Silent_p.R245R|ZNF772_uc010ygz.1_Silent_p.R174R|ZNF772_uc010yha.1_Silent_p.R232R|ZNF772_uc002qou.2_Silent_p.R174R	NM_001024596	NP_001019767	Q68DY9	ZN772_HUMAN	zinc finger protein 772 isoform 1	286	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)|Lung(386;0.174)		CAGTGTGGACTCTCTGGTGTT	0.488													34	89					0	0	1	0	0		C	57985254	C	C	57985254	2	2	82	1	0	0	0	0	0	0	0	1	18170	1548	54	3		3	ZNF772	19	57985254	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	75340	57985254	1143729	1130	51586											
ZNF550	162972	broad.mit.edu	37	chr19	58059222	58059222	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgcatttccaaaagcccTtcctcatccctagctctccc	7	13	3	18	0	3	0	1	0	2	0	7	0	6	0	5	0	3	2	5	0	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:58059222T>G	uc002qpe.1	-	2	267	c.267A>C	c.(265-267)GAA>GAC	p.E89D	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF550_uc002qpc.2_RNA|ZNF550_uc010eue.1_RNA|ZNF550_uc002qpd.2_RNA	NM_001039654	NP_001034743	Q7Z398	ZN550_HUMAN	zinc finger protein 550	130					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CCAAAAGCCCTTCCTCATCCC	0.532													87	245					0	0	1	0	0		G	58059222	G	G	58059222	3	3	82	1	0	0	0	0	1	0	0	0	18007	1606	56	5	882	5	ZNF550	19	58059222	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	73968	58059222	1069761	1131	51587											
ZNF550	162972	broad.mit.edu	37	chr19	58067709	58067709	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaggtcacagccacatccTtgaaggtcaccaacatctgg	13	8	8	12	0	3	1	2	1	1	0	4	1	4	1	3	3	2	0	3	3	4	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:58067709T>G	uc002qpe.1	-	1	17	c.17A>C	c.(16-18)AAG>ACG	p.K6T	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_3'UTR|ZNF550_uc002qpc.2_RNA|ZNF550_uc010eue.1_RNA|ZNF550_uc002qpd.2_RNA	NM_001039654	NP_001034743	Q7Z398	ZN550_HUMAN	zinc finger protein 550	15	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AGCCACATCCTTGAAGGTCAC	0.527													21	65					0	0	1	0	0		G	58067709	G	G	58067709	3	3	82	1	0	0	0	0	1	0	0	0	18007	1609	56	5	1136	5	ZNF550	19	58067709	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	8487	58067709	1061274	1132	51588											
ZNF530	348327	broad.mit.edu	37	chr19	58117644	58117644	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgggaaatcctttagtcaaAgttctggctttcttcgacac	9	14	9	9	1	3	0	1	0	2	0	5	2	4	1	1	2	0	2	1	2	3	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:58117644A>G	uc002qpk.2	+	3	971	c.751A>G	c.(751-753)AGT>GGT	p.S251G	ZNF547_uc002qpm.3_Intron|ZNF530_uc002qpl.2_RNA	NM_020880	NP_065931	Q6P9A1	ZN530_HUMAN	zinc finger protein 530	251	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0443)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		CTTTAGTCAAAGTTCTGGCTT	0.408													8	80					0	0	1	0	0		G	58117644	G	G	58117644	3	3	82	1	0	0	0	0	1	0	0	0	17996	72	3	3	761	3	ZNF530	19	58117644	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	49935	58117644	1011339	1133	51589											
ZNF154	7710	broad.mit.edu	37	chr19	58213775	58213775	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttctccagtgtgaagtCtccaatggtcattgagactg	8	14	10	9	0	3	2	1	2	2	1	5	3	3	2	2	1	0	1	2	1	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:58213775C>A	uc010euf.2	-	3	782	c.542G>T	c.(541-543)AGA>ATA	p.R181I	ZNF776_uc002qpx.2_Intron|ZNF154_uc002qpy.2_RNA	NM_001085384	NP_001078853	Q13106	ZN154_HUMAN	zinc finger protein 154	181	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		AGTGTGAAGTCTCCAATGGTC	0.448													64	118					5.5144e-22	5.58752e-22	1	1	0		A	58213775	A	A	58213775	3	1	82	1	0	0	0	0	1	0	0	0	17760	913	32	5	775	5	ZNF154	19	58213775	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	96131	58213775	915208	1134	51590											
ZSCAN18	65982	broad.mit.edu	37	chr19	58597553	58597553	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacctcacctgggaggctgcTtccttgtggatctctttcca	6	13	9	13	0	2	0	1	0	1	0	5	2	4	2	4	3	2	2	4	3	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:58597553T>C	uc002qri.2	-	6	1135	c.826A>G	c.(826-828)AGC>GGC	p.S276G	ZSCAN18_uc002qrj.3_Missense_Mutation_p.S276G|ZSCAN18_uc010yhs.1_Missense_Mutation_p.S141G|ZSCAN18_uc002qrh.2_Missense_Mutation_p.S276G|ZSCAN18_uc010yht.1_Missense_Mutation_p.S332G|ZSCAN18_uc002qrk.1_3'UTR|ZSCAN18_uc002qrl.2_3'UTR	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	276					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		GGGAGGCTGCTTCCTTGTGGA	0.587													4	54					0	0	1	0	0		C	58597553	C	C	58597553	3	2	82	1	0	0	0	0	1	0	0	0	18255	1609	56	3	714	3	ZSCAN18	19	58597553	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	383778	58597553	531430	1135	51591											
TRIM28	10155	broad.mit.edu	37	chr19	59057202	59057202	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctcggagcctctgtgtgaGacctgtgtagaggcgcacca	7	9	14	11	2	1	2	0	1	1	2	2	4	1	3	3	2	2	3	3	2	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr19:59057202G>A	uc002qtg.1	+	3	814	c.525G>A	c.(523-525)GAG>GAA	p.E175E	TRIM28_uc010eut.1_Intron|TRIM28_uc002qth.1_5'Flank	NM_005762	NP_005753	Q13263	TIF1B_HUMAN	tripartite motif-containing 28 protein	175	RBCC domain.|B box-type 1; atypical.				epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	nucleoplasm	chromo shadow domain binding|ligase activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0434)|all cancers(4;1.39e-13)|Epithelial(4;1.01e-10)|OV - Ovarian serous cystadenocarcinoma(4;2.34e-09)|GBM - Glioblastoma multiforme(193;0.0102)|Lung(386;0.179)		CTCTGTGTGAGACCTGTGTAG	0.582													9	68					0	0	1	0	0		A	59057202	A	A	59057202	2	1	82	1	0	0	0	0	0	0	0	1	16528	933	33	4		4	TRIM28	19	59057202	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	459649	59057202	71781	1136	51592											
ZNF343	79175	broad.mit.edu	37	chr20	2463832	2463832	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcctctggtgtctgatgAgatttgacttatgactaaag	9	15	11	6	0	2	4	0	4	2	1	3	5	3	4	1	1	0	0	1	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:2463832A>G	uc002wge.1	-	6	2263	c.1775T>C	c.(1774-1776)CTC>CCC	p.L592P	ZNF343_uc010gao.1_Missense_Mutation_p.L592P|ZNF343_uc002wgd.1_Missense_Mutation_p.L502P	NM_024325	NP_077301	Q6P1L6	ZN343_HUMAN	zinc finger protein 343	592	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						GTGTCTGATGAGATTTGACTT	0.512													9	69					0	0	1	0	0		G	2463832	G	G	2463832	3	3	82	1	0	0	0	0	1	0	0	0	17883	304	11	3	28	3	ZNF343	20	2463832	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08		2463832	60561688	1137	51593											
C20orf194	25943	broad.mit.edu	37	chr20	3278685	3278685	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgatattacctctgagtaAaatgcttggtatatcttcga	12	15	7	7	1	2	2	0	2	2	0	3	3	2	2	1	1	2	3	1	1	6	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:3278685A>C	uc002wii.2	-	22	1971	c.1920T>G	c.(1918-1920)TTT>TTG	p.F640L	C20orf194_uc002wij.3_Missense_Mutation_p.F379L|C20orf194_uc002wik.2_Missense_Mutation_p.F314L	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	640											0						CCTCTGAGTAAAATGCTTGGT	0.383													13	116					0	0	1	0	0		C	3278685	C	C	3278685	3	2	82	1	0	0	0	0	1	0	0	0	2102	11	1	5	1677	5	C20orf194	20	3278685	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	814853	3278685	59746835	1138	51594											
SIGLEC1	6614	broad.mit.edu	37	chr20	3678698	3678698	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcgctgtccacacggcaCaaaaggaggcctcgccgtcc	8	5	13	15	4	0	0	0	0	0	0	4	1	2	1	4	4	0	2	4	4	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:3678698C>T	uc002wja.2	-	8	1869	c.1869G>A	c.(1867-1869)TTG>TTA	p.L623L	SIGLEC1_uc002wiz.3_Silent_p.L623L	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	623	Ig-like C2-type 6.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						CCACACGGCACAAAAGGAGGC	0.662													3	16					0	0	1	0	0		T	3678698	T	T	3678698	2	4	82	1	0	0	0	0	0	0	0	1	14330	477	17	4		4	SIGLEC1	20	3678698	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	400013	3678698	59346822	1139	51595											
PRND	23627	broad.mit.edu	37	chr20	4705711	4705711	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccttctggctttgatcTggctcacggtgaaataagct	7	14	10	10	1	4	2	1	2	3	0	4	2	4	2	1	3	2	3	1	3	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:4705711T>C	uc002wkz.2	+	2	585	c.514T>C	c.(514-516)TGG>CGG	p.W172R		NM_012409	NP_036541	Q9UKY0	PRND_HUMAN	prion-like protein doppel preproprotein	172					protein homooligomerization	anchored to membrane|plasma membrane					0						GGCTTTGATCTGGCTCACGGT	0.587													6	24					0	0	1	0	0		C	4705711	C	C	4705711	3	2	82	1	0	0	0	0	1	0	0	0	12565	1580	55	3	516	3	PRND	20	4705711	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1027013	4705711	58319809	1140	51596											
TRMT6	51605	broad.mit.edu	37	chr20	5924813	5924813	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataaaaactacttactttttTttcttctttttaatatattt	12	24	0	5	0	2	0	0	0	2	0	2	0	2	0	0	0	3	0	0	0	8	14			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:5924813T>G	uc002wmh.1	-	4	575	c.453A>C	c.(451-453)AAA>AAC	p.K151N	TRMT6_uc010zra.1_5'UTR|TRMT6_uc010gbn.1_5'UTR|TRMT6_uc010gbo.1_RNA	NM_015939	NP_057023	Q9UJA5	TRM6_HUMAN	tRNA methyltransferase 6	151					regulation of translational initiation|tRNA processing	nucleus	protein binding|translation initiation factor activity			pancreas(1)	1						CTTACTTTTTTTTCTTCTTTT	0.204													6	27					0	0	1	0	0		G	5924813	G	G	5924813	3	3	82	1	0	0	0	0	1	0	0	0	16594	1838	64	5	1072	5	TRMT6	20	5924813	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1219102	5924813	57100707	1141	51597											
SPTLC3	55304	broad.mit.edu	37	chr20	13140768	13140768	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggcacatacccgggagAtgttagacacggtgagtaca	12	6	13	10	3	0	3	0	1	0	2	0	4	0	3	1	3	3	3	1	3	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:13140768A>G	uc002wod.1	+	11	1823	c.1534A>G	c.(1534-1536)ATG>GTG	p.M512V		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	512					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	TACCCGGGAGATGTTAGACAC	0.527													29	56					0	0	1	0	0		G	13140768	G	G	13140768	3	3	82	1	0	0	0	0	1	0	0	0	15150	333	12	3	1576	3	SPTLC3	20	13140768	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	7215955	13140768	49884752	1142	51598											
PCSK2	5126	broad.mit.edu	37	chr20	17410104	17410104	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggacccgatgtgcaggagaAgtttctgctgccgccaacaa	10	7	13	11	2	1	1	0	0	1	1	1	4	1	2	3	2	4	3	3	2	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:17410104A>C	uc002wpm.2	+	7	965	c.645A>C	c.(643-645)GAA>GAC	p.E215D	PCSK2_uc002wpl.2_Missense_Mutation_p.E196D|PCSK2_uc010zrm.1_Missense_Mutation_p.E180D	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	215	Catalytic.				enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GTGCAGGAGAAGTTTCTGCTG	0.473													16	208					0	0	1	0	0		C	17410104	C	C	17410104	3	2	82	1	0	0	0	0	1	0	0	0	11620	69	3	5	671	5	PCSK2	20	17410104	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4269336	17410104	45615416	1143	51599											
RRBP1	6238	broad.mit.edu	37	chr20	17607995	17607995	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcttccccagcttaccgAgtctgctgctggtcagcctc	4	11	10	16	1	2	0	1	0	1	0	4	1	3	0	4	1	6	5	4	1	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:17607995A>G	uc002wpv.1	-	12	2016	c.1662T>C	c.(1660-1662)ACT>ACC	p.T554T	RRBP1_uc002wpu.2_Silent_p.T328T|RRBP1_uc002wpw.1_Silent_p.T554T|RRBP1_uc010gcl.1_Silent_p.T328T|RRBP1_uc010gcm.1_Intron	NM_001042576	NP_001036041	Q9P2E9	RRBP1_HUMAN	ribosome binding protein 1	987	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						CAGCTTACCGAGTCTGCTGCT	0.632													5	33					0	0	1	0	0		G	17607995	G	G	17607995	2	3	82	1	0	0	0	0	0	0	0	1	13703	291	11	3		3	RRBP1	20	17607995	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	197891	17607995	45417525	1144	51600											
SEC23B	10483	broad.mit.edu	37	chr20	18492909	18492909	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactttgggcctgtaatttcTgttttcaaagaaatcaggta	12	15	8	6	0	3	1	2	0	1	1	3	1	3	1	1	2	1	3	1	2	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:18492909T>C	uc002wqz.1	+	3	705	c.262T>C	c.(262-264)TGT>CGT	p.C88R	SEC23B_uc002wra.1_Missense_Mutation_p.C88R|SEC23B_uc002wrb.1_Missense_Mutation_p.C88R|SEC23B_uc010zsb.1_Missense_Mutation_p.C88R|SEC23B_uc002wrc.1_Missense_Mutation_p.C88R	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	88					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						CTGTAATTTCTGTTTTCAAAG	0.204													6	45					0	0	1	0	0		C	18492909	C	C	18492909	3	2	82	1	0	0	0	0	1	0	0	0	14017	1580	55	3	268	3	SEC23B	20	18492909	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	884914	18492909	44532611	1145	51601											
C20orf79	140856	broad.mit.edu	37	chr20	18794785	18794785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccagcagacactgtctttaCaatcccggagtctgtcttta	9	12	7	13	1	3	1	0	0	3	1	4	2	4	2	2	1	2	1	2	1	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:18794785C>T	uc002wrk.2	+	1	416	c.326C>T	c.(325-327)ACA>ATA	p.T109I	uc002wrj.1_Intron	NM_178483	NP_848578	Q9UJQ7	CT079_HUMAN	hypothetical protein LOC140856	109	SCP2.						sterol binding			skin(3)	3						ACTGTCTTTACAATCCCGGAG	0.498													15	74					0	0	1	0	0		T	18794785	T	T	18794785	3	4	82	1	0	0	0	0	1	0	0	0	2122	478	17	4	328	4	C20orf79	20	18794785	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	301876	18794785	44230735	1146	51602											
CRNKL1	51340	broad.mit.edu	37	chr20	20028462	20028462	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttgtatctcagctcaaagTtgatgtaggagtgccaggct	9	13	11	8	0	2	1	2	1	1	0	3	2	2	2	1	2	2	5	1	2	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:20028462T>G	uc002wrs.2	-	6	1084	c.1052A>C	c.(1051-1053)AAC>ACC	p.N351T	CRNKL1_uc002wrt.1_Missense_Mutation_p.N339T	NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	351	HAT 4.				spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						CAGCTCAAAGTTGATGTAGGA	0.532													14	62					0	0	1	0	0		G	20028462	G	G	20028462	3	3	82	1	0	0	0	0	1	0	0	0	3894	1725	60	5	1534	5	CRNKL1	20	20028462	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1233677	20028462	42997058	1147	51603											
RALGAPA2	57186	broad.mit.edu	37	chr20	20527423	20527423	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcattgagaagccaggaaaAcccagggagaaaaagcgggg	17	2	15	7	1	0	2	0	1	0	2	0	5	0	3	2	4	4	1	2	4	5	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:20527423A>C	uc002wrz.2	-	24	3353	c.3210T>G	c.(3208-3210)GGT>GGG	p.G1070G	RALGAPA2_uc010gcx.2_Silent_p.G774G|RALGAPA2_uc010zsg.1_Silent_p.G518G	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1070					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						AGCCAGGAAAACCCAGGGAGA	0.463													5	47					0	0	1	0	0		C	20527423	C	C	20527423	2	2	82	1	0	0	0	0	0	0	0	1	13039	30	2	5		5	RALGAPA2	20	20527423	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	498961	20527423	42498097	1148	51604											
XRN2	22803	broad.mit.edu	37	chr20	21314715	21314715	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catatattttatcacttacaGggttaccttacagaaagtgg	13	14	7	7	0	1	1	1	0	0	1	1	1	1	1	1	2	3	1	1	2	7	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:21314715G>A	uc002wsf.1	+	13	1221	c.1126_splice	c.e13-1	p.G376_splice	XRN2_uc002wsg.1_Splice_Site_p.G300_splice|XRN2_uc010zsk.1_Splice_Site_p.G322_splice	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2						cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						ATCACTTACAGGGTTACCTTA	0.328													6	80					0	0	1	0	0		A	21314715	A	A	21314715	5	1	82	1	0	0	0	0	0	0	1	0	17486	1014	35	4	1175	4	XRN2	20	21314715	Splice_Site	SNP	G	TCGA-BR-8589-01A-11D-2394-08	787292	21314715	41710805	1149	51605											
ACSS1	84532	broad.mit.edu	37	chr20	24989958	24989958	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttggtggccaccatggacTtgagctcctgcaccaccaca	8	9	9	15	0	1	1	0	1	1	0	2	2	2	2	5	3	2	2	5	3	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:24989958T>A	uc002wub.2	-	13	2716	c.1838A>T	c.(1837-1839)AAG>ATG	p.K613M	ACSS1_uc002wuc.2_Missense_Mutation_p.K611M|ACSS1_uc010gdc.2_Missense_Mutation_p.K408M|ACSS1_uc002wud.1_RNA|ACSS1_uc002wua.2_Missense_Mutation_p.K530M	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	613					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CACCATGGACTTGAGCTCCTG	0.512													24	168					0	0	1	0	0		A	24989958	A	A	24989958	3	1	82	1	0	0	0	0	1	0	0	0	188	1609	56	5	239	5	ACSS1	20	24989958	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3675243	24989958	38035562	1150	51606											
NINL	22981	broad.mit.edu	37	chr20	25478915	25478915	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcactgtccactgtcatgAgctcgttgtcaagggcccag	7	9	12	13	2	2	1	2	1	0	0	4	1	3	1	2	2	1	3	2	2	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:25478915A>G	uc002wux.1	-	9	1174	c.1100T>C	c.(1099-1101)CTC>CCC	p.L367P	NINL_uc010gdn.1_Missense_Mutation_p.L367P|NINL_uc010gdo.1_Missense_Mutation_p.L150P|NINL_uc010ztf.1_Missense_Mutation_p.L383P	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	367					G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CACTGTCATGAGCTCGTTGTC	0.617													8	39					0	0	1	0	0		G	25478915	G	G	25478915	3	3	82	1	0	0	0	0	1	0	0	0	10439	304	11	3	3112	3	NINL	20	25478915	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	488957	25478915	37546605	1151	51607											
NINL	22981	broad.mit.edu	37	chr20	25478973	25478973	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccttctcgtccacgctgaAgtccaggctctggaagcagc	8	8	10	15	2	2	1	0	1	2	0	5	2	4	2	3	2	2	3	3	2	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:25478973A>T	uc002wux.1	-	9	1116	c.1042T>A	c.(1042-1044)TTC>ATC	p.F348I	NINL_uc010gdn.1_Missense_Mutation_p.F348I|NINL_uc010gdo.1_Missense_Mutation_p.F131I|NINL_uc010ztf.1_Missense_Mutation_p.F364I	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	348					G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						TCCACGCTGAAGTCCAGGCTC	0.617													8	36					0	0	1	0	0		T	25478973	T	T	25478973	3	4	82	1	0	0	0	0	1	0	0	0	10439	72	3	5	3170	5	NINL	20	25478973	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	58	25478973	37546547	1152	51608											
DEFB124	245937	broad.mit.edu	37	chr20	30053417	30053417	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttcttgccttgtgcagtaAgtttggcaggccccttgacc	5	14	11	11	0	1	1	0	1	1	0	1	1	1	1	4	2	2	5	4	2	1	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:30053417A>C	uc002wvz.1	-	2	108	c.108T>G	c.(106-108)ACT>ACG	p.T36T		NM_001037500	NP_001032589	Q8NES8	DB124_HUMAN	beta-defensin 124 precursor	36					defense response to bacterium	extracellular region					0	Lung NSC(7;0.000139)|all_lung(7;0.000197)|all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			TTGTGCAGTAAGTTTGGCAGG	0.527													16	115					0	0	1	0	0		C	30053417	C	C	30053417	2	2	82	1	0	0	0	0	0	0	0	1	4415	59	3	5		5	DEFB124	20	30053417	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4574444	30053417	32972103	1153	51609											
ASXL1	171023	broad.mit.edu	37	chr20	31022897	31022897	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatgtgagtctggcaccacTtcctgggaaagtgatgatga	11	10	13	7	0	1	4	0	4	1	0	2	6	2	5	2	2	0	1	2	2	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:31022897T>G	uc002wxs.2	+	12	2808	c.2382T>G	c.(2380-2382)ACT>ACG	p.T794T	ASXL1_uc010geb.2_Silent_p.T685T	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	794					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						CTGGCACCACTTCCTGGGAAA	0.507			F|N|Mis		MDS|CMML								19	97					0	0	1	0	0		G	31022897	G	G	31022897	2	3	82	1	0	0	0	0	0	0	0	1	1067	1596	56	5		5	ASXL1	20	31022897	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	969480	31022897	32002623	1154	51610											
BPIL3	128859	broad.mit.edu	37	chr20	31627238	31627238	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcactatgaagacaggcaAgagcctgctgcacctccaca	12	6	10	13	0	1	3	1	1	0	2	2	3	2	3	3	2	3	3	3	2	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:31627238A>G	uc010zuc.1	+	10	986	c.986A>G	c.(985-987)AAG>AGG	p.K329R	BPIL3_uc010zud.1_Missense_Mutation_p.K268R	NM_174897	NP_777557	Q8NFQ5	BPIL3_HUMAN	bactericidal/permeability-increasing	329						extracellular region	lipid binding			ovary(1)|pancreas(1)	2						AAGACAGGCAAGAGCCTGCTG	0.532													39	216					0	0	1	0	0		G	31627238	G	G	31627238	3	3	82	1	0	0	0	0	1	0	0	0	1496	72	3	3	1024	3	BPIL3	20	31627238	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	604341	31627238	31398282	1155	51611											
C20orf186	149954	broad.mit.edu	37	chr20	31671658	31671658	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcgagggtggcatcctcAgcactgtgcaaggcatcacg	8	7	14	12	3	2	0	2	0	0	0	4	1	3	0	1	4	2	4	1	4	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:31671658A>C	uc010zue.1	+	3	670	c.655A>C	c.(655-657)AGC>CGC	p.S219R		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	219	Gly-rich.					cytoplasm|extracellular region	lipid binding				0						TGGCATCCTCAGCACTGTGCA	0.632													7	62					0	0	1	0	0		C	31671658	C	C	31671658	3	2	82	1	0	0	0	0	1	0	0	0	2101	188	7	5	665	5	C20orf186	20	31671658	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	44420	31671658	31353862	1156	51612											
PLUNC	51297	broad.mit.edu	37	chr20	31825526	31825526	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaagagcaaagatgtttcaAactgggggcctcattgtctt	11	12	10	8	0	3	2	2	0	1	2	3	2	3	2	1	2	2	2	1	2	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:31825526A>C	uc002wyv.2	+	2	79	c.9A>C	c.(7-9)CAA>CAC	p.Q3H	PLUNC_uc002wyt.3_Missense_Mutation_p.Q3H|PLUNC_uc002wyu.3_Missense_Mutation_p.Q3H	NM_130852	NP_570913	Q9NP55	PLUNC_HUMAN	palate, lung and nasal epithelium associated	3					innate immune response	extracellular region	lipid binding				0						AGATGTTTCAAACTGGGGGCC	0.547													7	86					0	0	1	0	0		C	31825526	C	C	31825526	3	2	82	1	0	0	0	0	1	0	0	0	12134	11	1	5	11	5	PLUNC	20	31825526	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	153868	31825526	31199994	1157	51613											
PLUNC	51297	broad.mit.edu	37	chr20	31829261	31829261	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaataaagtcctgcctgagTtggttcagggcaacgtaagt	11	11	12	7	1	1	2	1	2	0	0	2	2	2	2	2	2	2	4	2	2	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:31829261T>G	uc002wyv.2	+	6	722	c.652T>G	c.(652-654)TTG>GTG	p.L218V	PLUNC_uc002wyt.3_Missense_Mutation_p.L218V|PLUNC_uc002wyu.3_Missense_Mutation_p.L218V	NM_130852	NP_570913	Q9NP55	PLUNC_HUMAN	palate, lung and nasal epithelium associated	218					innate immune response	extracellular region	lipid binding				0						CCTGCCTGAGTTGGTTCAGGG	0.517													50	258					0	0	1	0	0		G	31829261	G	G	31829261	3	3	82	1	0	0	0	0	1	0	0	0	12134	1722	60	5	670	5	PLUNC	20	31829261	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3735	31829261	31196259	1158	51614											
MMP24	10893	broad.mit.edu	37	chr20	33859460	33859460	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcagctgtttgccccgtgaAggcattgacacagctctgcg	7	9	13	12	2	1	2	0	2	1	0	1	2	1	2	2	2	4	5	2	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:33859460A>C	uc002xbu.2	+	8	1425	c.1422A>C	c.(1420-1422)GAA>GAC	p.E474D	EDEM2_uc010zuv.1_Intron	NM_006690	NP_006681	Q9Y5R2	MMP24_HUMAN	matrix metalloproteinase 24 preproprotein	474	Extracellular (Potential).				proteolysis	integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TGCCCCGTGAAGGCATTGACA	0.617													7	14					0	0	1	0	0		C	33859460	C	C	33859460	3	2	82	1	0	0	0	0	1	0	0	0	9679	69	3	5	1202	5	MMP24	20	33859460	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2030199	33859460	29166060	1159	51615											
KIAA0406	9675	broad.mit.edu	37	chr20	36625208	36625208	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagacagccagctgcaactTgaaggccagcgtgtgcgagt	11	7	13	10	2	0	2	0	1	0	1	0	3	0	2	2	1	6	2	2	1	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:36625208T>C	uc002xhl.2	-	7	3150	c.2941A>G	c.(2941-2943)AAG>GAG	p.K981E	KIAA0406_uc002xhm.2_Missense_Mutation_p.K981E	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	981							binding				0		Myeloproliferative disorder(115;0.00874)				AGCTGCAACTTGAAGGCCAGC	0.592													48	234					0	0	1	0	0		C	36625208	C	C	36625208	3	2	82	1	0	0	0	0	1	0	0	0	8189	1821	63	3	340	3	KIAA0406	20	36625208	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2765748	36625208	26400312	1160	51616											
KIAA1755	85449	broad.mit.edu	37	chr20	36848101	36848101	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccccaggaggctgttggaAgcggtgaccagaacatgaag	11	7	14	9	1	0	3	0	2	0	1	1	5	1	5	3	4	2	2	3	4	3	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:36848101A>C	uc002xhy.1	-	11	2759	c.2487T>G	c.(2485-2487)GCT>GCG	p.A829A	KIAA1755_uc002xhv.1_5'Flank|KIAA1755_uc002xhw.1_5'Flank|KIAA1755_uc002xhx.1_Silent_p.A107A	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	829										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				GGCTGTTGGAAGCGGTGACCA	0.632													25	161					0	0	1	0	0		C	36848101	C	C	36848101	2	2	82	1	0	0	0	0	0	0	0	1	8273	59	3	5		5	KIAA1755	20	36848101	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	222893	36848101	26177419	1161	51617											
BPI	671	broad.mit.edu	37	chr20	36936031	36936031	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcaagattcctgactacTcagacagctttaagatcaag	14	10	8	9	0	3	4	3	1	0	3	4	5	4	5	1	1	2	1	1	1	4	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:36936031T>A	uc002xib.2	+	2	267	c.205T>A	c.(205-207)TCA>ACA	p.S69T		NM_001725	NP_001716	P17213	BPI_HUMAN	bactericidal/permeability-increasing protein	69					defense response to bacterium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of macrophage activation|negative regulation of tumor necrosis factor production	extracellular region|integral to plasma membrane	lipid binding|lipopolysaccharide binding			ovary(4)	4		Myeloproliferative disorder(115;0.00878)				TCCTGACTACTCAGACAGCTT	0.527													26	130					0	0	1	0	0		A	36936031	A	A	36936031	3	1	82	1	0	0	0	0	1	0	0	0	1493	1551	54	5	211	5	BPI	20	36936031	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	87930	36936031	26089489	1162	51618											
PPP1R16B	26051	broad.mit.edu	37	chr20	37464672	37464672	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgccgggcccagcagctgaAgaaatgggcacagtacgagc	11	3	15	12	3	0	2	0	1	0	1	0	3	0	2	2	2	4	4	2	2	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:37464672A>C	uc002xje.2	+	2	293	c.104A>C	c.(103-105)AAG>ACG	p.K35T	PPP1R16B_uc010ggc.2_Missense_Mutation_p.K35T	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	35	Potential.				regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CAGCAGCTGAAGAAATGGGCA	0.667													6	12					0	0	1	0	0		C	37464672	C	C	37464672	3	2	82	1	0	0	0	0	1	0	0	0	12388	72	3	5	106	5	PPP1R16B	20	37464672	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	528641	37464672	25560848	1163	51619											
MAFB	9935	broad.mit.edu	37	chr20	39316595	39316595	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccggagttggcgagtttcTcgcacttgaccttgtaggcg	6	11	14	10	4	1	1	0	1	1	0	2	3	1	2	2	3	1	4	2	3	1	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:39316595T>C	uc002xji.2	-	1	1282	c.896A>G	c.(895-897)GAG>GGG	p.E299G		NM_005461	NP_005452	Q9Y5Q3	MAFB_HUMAN	transcription factor MAFB	299					negative regulation of erythrocyte differentiation		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		Myeloproliferative disorder(115;0.00878)				GGCGAGTTTCTCGCACTTGAC	0.562			T	IGH@	MM								23	94					0	0	1	0	0		C	39316595	C	C	39316595	3	2	82	1	0	0	0	0	1	0	0	0	9176	1551	54	3	79	3	MAFB	20	39316595	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1851923	39316595	23708925	1164	51620											
L3MBTL	26013	broad.mit.edu	37	chr20	42161533	42161533	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagccgcttcctggtgcacTttgacaactgggatgatact	9	11	10	11	1	0	2	0	2	0	0	1	3	1	3	2	2	4	2	2	2	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:42161533T>G	uc010zwh.1	+	12	1385	c.1339T>G	c.(1339-1341)TTT>GTT	p.F447V	L3MBTL_uc002xkl.2_Missense_Mutation_p.F379V|L3MBTL_uc002xkm.2_Missense_Mutation_p.F379V|L3MBTL_uc010ggl.2_Missense_Mutation_p.F379V|L3MBTL_uc002xkn.1_Missense_Mutation_p.F138V|L3MBTL_uc002xko.2_Missense_Mutation_p.F31V	NM_015478	NP_056293	Q9Y468	LMBL1_HUMAN	l(3)mbt-like isoform I	379	MBT 2.|Interaction with monomethylated and dimethylated peptides.			F->A: Abolishes binding to monomethylated and dimethylated peptides. Abolishes binding to p53/TP53 monomethylated at 'Lys-382'.	chromatin modification|hemopoiesis|negative regulation of transcription, DNA-dependent|regulation of megakaryocyte differentiation|regulation of mitosis	chromatin|condensed chromosome|nucleoplasm	identical protein binding|methylated histone residue binding|nucleosomal histone binding|SAM domain binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			CCTGGTGCACTTTGACAACTG	0.582													19	120					0	0	1	0	0		G	42161533	G	G	42161533	3	3	82	1	0	0	0	0	1	0	0	0	8607	1609	56	5	1169	5	L3MBTL	20	42161533	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2844938	42161533	20863987	1165	51621											
KCNS1	3787	broad.mit.edu	37	chr20	43726484	43726484	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagggcagcacagacacaAtgtcgatgaggttgagcggg	13	5	16	7	2	0	4	0	2	0	2	1	5	0	4	0	3	2	3	0	3	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:43726484A>C	uc002xnc.2	-	4	1326	c.929T>G	c.(928-930)ATT>AGT	p.I310S	KCNS1_uc002xnd.2_Missense_Mutation_p.I310S	NM_002251	NP_002242	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel	310	Helical; Name=Segment S3; (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity|protein binding				0		Myeloproliferative disorder(115;0.0122)				CACAGACACAATGTCGATGAG	0.627													7	35					0	0	1	0	0		C	43726484	C	C	43726484	3	2	82	1	0	0	0	0	1	0	0	0	8104	101	4	5	659	5	KCNS1	20	43726484	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1564951	43726484	19299036	1166	51622											
SEMG2	6407	broad.mit.edu	37	chr20	43851860	43851860	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaaaggaaagtctggtcaAtctgcagatagcaaacaaga	18	6	10	7	0	3	2	1	0	2	2	3	3	3	3	0	2	3	3	0	2	7	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:43851860A>C	uc010ggz.2	+	2	1644	c.1587A>C	c.(1585-1587)CAA>CAC	p.Q529H	SEMG2_uc002xnk.2_Missense_Mutation_p.Q529H|SEMG2_uc002xnl.2_Missense_Mutation_p.Q409H	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	529	Repeat-rich region.|3-2.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				AGTCTGGTCAATCTGCAGATA	0.393													17	95					0	0	1	0	0		C	43851860	C	C	43851860	3	2	82	1	0	0	0	0	1	0	0	0	14070	98	4	5	1593	5	SEMG2	20	43851860	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	125376	43851860	19173660	1167	51623											
NEURL2	140825	broad.mit.edu	37	chr20	44519175	44519175	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcggtcccggggaatgcgAaactgctcaatgcgcagata	11	6	14	10	4	1	1	1	0	0	1	2	3	2	2	1	4	4	2	1	4	4	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:44519175A>C	uc002xqg.1	-	1	727	c.456T>G	c.(454-456)TTT>TTG	p.F152L	C20orf165_uc002xqf.2_5'Flank|CTSA_uc002xqh.2_5'Flank|CTSA_uc002xqj.3_5'Flank|CTSA_uc002xqi.2_5'Flank|CTSA_uc010zxi.1_5'Flank|CTSA_uc002xqk.3_5'Flank	NM_080749	NP_542787	Q9BR09	NEUL2_HUMAN	neuralized-like protein 2	152	NHR.				intracellular signal transduction						0		Myeloproliferative disorder(115;0.0122)				GGGGAATGCGAAACTGCTCAA	0.692													11	91					0	0	1	0	0		C	44519175	C	C	44519175	3	2	82	1	0	0	0	0	1	0	0	0	10365	243	9	5	409	5	NEURL2	20	44519175	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	667315	44519175	18506345	1168	51624											
PLTP	5360	broad.mit.edu	37	chr20	44527644	44527644	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagcaggccggttcttcTcaatcacctctcgcagccct	7	10	7	17	2	5	0	3	0	3	0	7	0	5	0	3	2	2	3	3	2	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:44527644T>C	uc002xqn.1	-	16	1498	c.1418A>G	c.(1417-1419)GAG>GGG	p.E473G	PLTP_uc002xql.1_Missense_Mutation_p.E385G|PLTP_uc002xqm.1_Missense_Mutation_p.E493G|PLTP_uc002xqo.1_Missense_Mutation_p.E421G|PLTP_uc002xqp.1_Missense_Mutation_p.E468G|PLTP_uc002xqq.1_Missense_Mutation_p.E442G|PLTP_uc010zxj.1_Missense_Mutation_p.E378G|PLTP_uc010ghj.1_Missense_Mutation_p.E426G	NM_006227	NP_006218	P55058	PLTP_HUMAN	phospholipid transfer protein isoform a	473					cellular lipid metabolic process|lipid transport	extracellular region	lipid binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CCGGTTCTTCTCAATCACCTC	0.567													10	83					0	0	1	0	0		C	44527644	C	C	44527644	3	2	82	1	0	0	0	0	1	0	0	0	12133	1551	54	3	67	3	PLTP	20	44527644	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	8469	44527644	18497876	1169	51625											
CDH22	64405	broad.mit.edu	37	chr20	44815501	44815501	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcgcatacagctgcctcGtagggtgtggccagttctgg	5	11	13	12	2	1	0	0	0	1	0	4	0	2	0	3	3	3	4	3	3	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:44815501G>A	uc002xrm.2	-	8	1910	c.1509C>T	c.(1507-1509)TAC>TAT	p.Y503Y	CDH22_uc010ghk.1_Silent_p.Y503Y	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	503	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				CAGCTGCCTCGTAGGGTGTGG	0.592													42	199					0	0	1	0	0		A	44815501	A	A	44815501	2	1	82	1	0	0	0	0	0	0	0	1	3110	1140	40	1		1	CDH22	20	44815501	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	287857	44815501	18210019	1170	51626											
PARD6B	84612	broad.mit.edu	37	chr20	49366531	49366531	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctcaaagtacaggactaTtagctgttaatgatgaagtt	13	13	10	5	0	1	2	1	2	0	0	1	3	1	3	0	2	2	5	0	2	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:49366531T>G	uc002xvo.2	+	3	868	c.625T>G	c.(625-627)TTA>GTA	p.L209V		NM_032521	NP_115910	Q9BYG5	PAR6B_HUMAN	PAR-6 beta	209	PDZ.|Interaction with PARD3 and CDC42 (By similarity).				axonogenesis|cell cycle|cell division|establishment or maintenance of cell polarity|protein complex assembly|regulation of cell migration|tight junction assembly	cytosol|tight junction	protein binding			kidney(1)	1						TACAGGACTATTAGCTGTTAA	0.433													13	152					0	0	1	0	0		G	49366531	G	G	49366531	3	3	82	1	0	0	0	0	1	0	0	0	11465	1490	52	5	635	5	PARD6B	20	49366531	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4551030	49366531	13658989	1171	51627											
KCNG1	3755	broad.mit.edu	37	chr20	49621273	49621273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgagccgcaggaggaacTccagggagaaccagcccacg	13	2	14	12	2	0	2	0	1	0	1	1	6	1	4	4	3	4	1	4	3	3	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:49621273T>C	uc002xwa.3	-	3	1140	c.845A>G	c.(844-846)GAG>GGG	p.E282G		NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	282	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						CAGGAGGAACTCCAGGGAGAA	0.642													3	11					0	0	1	0	0		C	49621273	C	C	49621273	3	2	82	1	0	0	0	0	1	0	0	0	8043	1551	54	3	700	3	KCNG1	20	49621273	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	254742	49621273	13404247	1172	51628											
SALL4	57167	broad.mit.edu	37	chr20	50407880	50407880	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacagtacttacacttgtgcTtgtagagggccgcctcgtct	7	13	10	11	2	1	1	0	0	1	1	2	1	1	1	2	1	4	3	2	1	4	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:50407880T>G	uc002xwh.3	-	2	1243	c.1142A>C	c.(1141-1143)AAG>ACG	p.K381T	SALL4_uc010gii.2_Missense_Mutation_p.K381T|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	381					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ACACTTGTGCTTGTAGAGGGC	0.547													17	101					0	0	1	0	0		G	50407880	G	G	50407880	3	3	82	1	0	0	0	0	1	0	0	0	13838	1609	56	5	2031	5	SALL4	20	50407880	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	786607	50407880	12617640	1173	51629											
ZNF217	7764	broad.mit.edu	37	chr20	52193563	52193563	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaacattctgaaaaacagaAggcatctccttaagctgctt	15	10	7	9	0	2	3	0	1	2	2	3	3	2	3	1	1	4	3	1	1	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:52193563A>C	uc002xwq.3	-	3	2011	c.1740T>G	c.(1738-1740)CCT>CCG	p.P580P	ZNF217_uc010gij.1_Silent_p.P572P	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	580					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			GAAAAACAGAAGGCATCTCCT	0.438													43	168					0	0	1	0	0		C	52193563	C	C	52193563	2	2	82	1	0	0	0	0	0	0	0	1	17797	59	3	5		5	ZNF217	20	52193563	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1785683	52193563	10831957	1174	51630											
ZNF217	7764	broad.mit.edu	37	chr20	52199470	52199470	+	Translation_Start_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggttccaaaaaccagagcaAatatttattataaaagttca	18	11	6	6	0	1	1	1	0	0	1	2	1	2	1	2	1	2	3	2	1	8	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:52199470A>C	uc002xwq.3	-	1	167	c.-104T>G	c.(-106--102)ATTTG>ATGTG		ZNF217_uc010gij.1_Translation_Start_Site	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217						negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			AACCAGAGCAAATATTTATTA	0.403													5	38					0	0	1	0	0		C	52199470	C	C	52199470	1	2	82	1	0	0	0	0	0	0	0	0	17797	29	1	5		5	ZNF217	20	52199470	Translation_Start_Site	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5907	52199470	10826050	1175	51631											
C20orf43	51507	broad.mit.edu	37	chr20	55093316	55093316	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacccacacgtcctactgcTtctgaagcccgcactgccac	8	8	6	19	2	2	1	1	1	1	0	3	1	3	1	4	0	4	2	4	0	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:55093316T>G	uc002xxt.2	+	9	1023	c.916T>G	c.(916-918)TTC>GTC	p.F306V	C20orf43_uc010zzf.1_Missense_Mutation_p.F336V|C20orf43_uc002xxu.2_Missense_Mutation_p.F305V|C20orf43_uc002xxv.2_3'UTR|GCNT7_uc010zzg.1_Intron	NM_016407	NP_057491	Q9BY42	CT043_HUMAN	hypothetical protein LOC51507	306										ovary(1)	1			Colorectal(105;0.202)			GTCCTACTGCTTCTGAAGCCC	0.582													9	114					0	0	1	0	0		G	55093316	G	G	55093316	3	3	82	1	0	0	0	0	1	0	0	0	2115	1609	56	5	950	5	C20orf43	20	55093316	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2893846	55093316	7932204	1176	51632											
BMP7	655	broad.mit.edu	37	chr20	55758840	55758840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttggagcggttctggctgCgctgtttgctccccgtggac	2	13	14	12	3	2	0	0	0	2	0	3	2	3	2	2	4	3	5	2	4	0	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:55758840C>T	uc010gip.1	-	4	1425	c.896G>A	c.(895-897)CGC>CAC	p.R299H	BMP7_uc010giq.1_Intron|BMP7_uc002xyc.2_Missense_Mutation_p.R299H	NM_001719	NP_001710	P18075	BMP7_HUMAN	bone morphogenetic protein 7 precursor	299					BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)			GTTCTGGCTGCGCTGTTTGCT	0.637													23	88					0	0	1	0	0		T	55758840	T	T	55758840	3	4	82	1	0	0	0	0	1	0	0	0	1466	768	27	1	415	1	BMP7	20	55758840	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	665524	55758840	7266680	1177	51633											
RAE1	8480	broad.mit.edu	37	chr20	55948568	55948568	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttaaagacaaacagaacaAgcctactggttttgccctgg	13	11	8	9	0	0	2	0	0	0	2	0	2	0	2	2	2	5	1	2	2	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:55948568A>C	uc002xyg.2	+	9	1021	c.680A>C	c.(679-681)AAG>ACG	p.K227T	RAE1_uc010gis.1_Missense_Mutation_p.K180T|RAE1_uc010git.1_Missense_Mutation_p.K227T|RAE1_uc002xyh.2_Missense_Mutation_p.K227T|RAE1_uc002xyi.2_Missense_Mutation_p.K227T	NM_003610	NP_003601	P78406	RAE1L_HUMAN	RAE1 (RNA export 1, S.pombe) homolog	227					carbohydrate metabolic process|glucose transport|mRNA export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|cytoskeleton|nuclear outer membrane|nuclear pore	microtubule binding|RNA binding				0	Lung NSC(12;0.00263)|all_lung(29;0.00828)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;3.7e-14)|Epithelial(14;1.07e-09)|all cancers(14;1.11e-08)			AAACAGAACAAGCCTACTGGT	0.408													14	77					0	0	1	0	0		C	55948568	C	C	55948568	3	2	82	1	0	0	0	0	1	0	0	0	13023	72	3	5	710	5	RAE1	20	55948568	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	189728	55948568	7076952	1178	51634											
APCDD1L	164284	broad.mit.edu	37	chr20	57036043	57036043	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctctggggtatcgggacTtgagccatcggtgggccttt	4	14	14	9	2	1	1	0	1	1	0	4	2	1	2	2	5	1	1	2	5	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:57036043T>C	uc002xze.1	-	4	1495	c.1309A>G	c.(1309-1311)AGT>GGT	p.S437G	APCDD1L_uc010zzp.1_Missense_Mutation_p.S448G	NM_153360	NP_699191	Q8NCL9	APCDL_HUMAN	adenomatosis polyposis coli down-regulated	437						integral to membrane				ovary(1)	1	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)			GTATCGGGACTTGAGCCATCG	0.617													8	99					0	0	1	0	0		C	57036043	C	C	57036043	3	2	82	1	0	0	0	0	1	0	0	0	766	1609	56	3	200	3	APCDD1L	20	57036043	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1087475	57036043	5989477	1179	51635											
TAF4	6874	broad.mit.edu	37	chr20	60575731	60575731	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttgcactttcttctgacaAgtttactccagccatcgatg	8	15	6	12	1	3	1	0	1	3	0	5	2	4	1	2	0	3	2	2	0	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:60575731A>C	uc002ybs.2	-	10	2533	c.2533T>G	c.(2533-2535)TTG>GTG	p.L845V		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	845					interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			TCTTCTGACAAGTTTACTCCA	0.453													9	127					0	0	1	0	0		C	60575731	C	C	60575731	3	2	82	1	0	0	0	0	1	0	0	0	15551	69	3	5	748	5	TAF4	20	60575731	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3539688	60575731	2449789	1180	51636											
LAMA5	3911	broad.mit.edu	37	chr20	60913663	60913663	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgccgcgctgcagtcacaAtctggagggtggggacaggc	7	6	16	12	2	2	0	1	0	1	0	2	2	2	2	2	5	2	2	2	5	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:60913663A>C	uc002ycq.2	-	12	1546	c.1479T>G	c.(1477-1479)AAT>AAG	p.N493K		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	493					angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGCAGTCACAATCTGGAGGGT	0.607													3	15					0	0	1	0	0		C	60913663	C	C	60913663	3	2	82	1	0	0	0	0	1	0	0	0	8625	115	4	5	9884	5	LAMA5	20	60913663	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	337932	60913663	2111857	1181	51637											
C20orf11	54994	broad.mit.edu	37	chr20	61576119	61576119	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagttaaccaagctgtgcTagattatgaaaatcgcgagt	14	11	10	6	2	0	3	0	2	0	1	1	4	0	3	1	0	3	3	1	0	7	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:61576119T>G	uc002ydy.2	+	5	719	c.542T>G	c.(541-543)CTA>CGA	p.L181R		NM_017896	NP_060366	Q9NWU2	CT011_HUMAN	chromosome 20 open reading frame 11	181						nucleus	protein binding				0	Breast(26;5.68e-08)					CAAGCTGTGCTAGATTATGAA	0.408													8	76					0	0	1	0	0		G	61576119	G	G	61576119	3	3	82	1	0	0	0	0	1	0	0	0	2082	1522	53	5	556	5	C20orf11	20	61576119	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	662456	61576119	1449401	1182	51638											
COL20A1	57642	broad.mit.edu	37	chr20	61938879	61938879	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgccccccgtgcctgcTgacatggtcttcctggtgga	3	11	12	15	1	1	1	0	1	1	0	2	2	2	2	6	3	4	1	6	3	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr20:61938879T>C	uc011aau.1	+	6	634	c.534T>C	c.(532-534)GCT>GCC	p.A178A	COL20A1_uc011aav.1_5'UTR	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	178					cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CCGTGCCTGCTGACATGGTCT	0.652													5	43					0	0	1	0	0		C	61938879	C	C	61938879	2	2	82	1	0	0	0	0	0	0	0	1	3682	1567	55	3		3	COL20A1	20	61938879	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	362760	61938879	1086641	1183	51639											
TPTE	7179	broad.mit.edu	37	chr21	10944689	10944689	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggaatattcctaagcaacTtaatgtcaaaaaaaatgtaa	19	11	6	5	0	1	0	1	0	0	0	2	1	2	1	1	1	2	2	1	1	10	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr21:10944689T>G	uc002yip.1	-	11	913	c.545A>C	c.(544-546)AAG>ACG	p.K182T	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.K164T|TPTE_uc002yir.1_Missense_Mutation_p.K144T|TPTE_uc010gkv.1_Missense_Mutation_p.K44T	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	182	Helical; (Potential).				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CCTAAGCAACTTAATGTCAAA	0.299													28	205					0	0	1	0	0		G	10944689	G	G	10944689	3	3	82	1	0	0	0	0	1	0	0	0	16456	1609	56	5	1166	5	TPTE	21	10944689	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08		10944689	37185206	1184	51640											
NRIP1	8204	broad.mit.edu	37	chr21	16337791	16337791	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagcaggatatttaaatTcaagatcatttctgctaaat	15	13	6	7	0	3	1	2	0	1	1	3	3	3	2	1	1	2	2	1	1	6	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr21:16337791T>C	uc002yjx.2	-	4	3321	c.2723A>G	c.(2722-2724)GAA>GGA	p.E908G		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	908					androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		ATATTTAAATTCAAGATCATT	0.438													24	111					0	0	1	0	0		C	16337791	C	C	16337791	3	2	82	1	0	0	0	0	1	0	0	0	10671	1783	62	3	757	3	NRIP1	21	16337791	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	5393102	16337791	31792104	1185	51641											
GRIK1	2897	broad.mit.edu	37	chr21	31023581	31023581	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgtttacgccactgtaccTatagagttccagatccaaag	12	11	7	11	1	0	2	0	0	0	2	2	2	2	2	4	0	2	3	4	0	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr21:31023581T>C	uc002yno.1	-	6	1275	c.811A>G	c.(811-813)AGG>GGG	p.R271G	GRIK1_uc002ynn.2_Missense_Mutation_p.R271G|GRIK1_uc011acs.1_Missense_Mutation_p.R271G|GRIK1_uc011act.1_Missense_Mutation_p.R215G|GRIK1_uc010glq.1_Missense_Mutation_p.R129G|GRIK1_uc002ynr.2_Missense_Mutation_p.R271G	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	271	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	CCACTGTACCTATAGAGTTCC	0.388													11	56					0	0	1	0	0		C	31023581	C	C	31023581	3	2	82	1	0	0	0	0	1	0	0	0	6789	1521	53	3	2153	3	GRIK1	21	31023581	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	14685790	31023581	17106314	1186	51642											
KRTAP19-8	728299	broad.mit.edu	37	chr21	32410734	32410734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccatagccatagcccaggCctccataatagcttctgtag	10	10	7	14	0	1	0	0	0	1	0	3	0	3	0	5	1	3	2	5	1	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr21:32410734C>T	uc010glt.2	-	1	62	c.29G>A	c.(28-30)GGC>GAC	p.G10D		NM_001099219	NP_001092689	Q3LI54	KR198_HUMAN	keratin associated protein 19-8	10						intermediate filament				upper_aerodigestive_tract(1)	1						ATAGCCCAGGCCTCCATAATA	0.547													45	150					0	0	1	0	0		T	32410734	T	T	32410734	3	4	82	1	0	0	0	0	1	0	0	0	8551	739	26	2	166	2	KRTAP19-8	21	32410734	Missense_Mutation	SNP	C	TCGA-BR-8589-01A-11D-2394-08	1387153	32410734	15719161	1187	51643											
LCA5L	150082	broad.mit.edu	37	chr21	40777883	40777883	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacagttactttagagtcTccgaaagcatggctggtgga	11	10	11	9	1	1	1	0	0	1	1	2	3	1	2	2	3	2	3	2	3	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr21:40777883T>C	uc002yxu.2	-	10	2251	c.1938A>G	c.(1936-1938)GGA>GGG	p.G646G	LCA5L_uc002yxv.2_Silent_p.G646G	NM_152505	NP_689718	O95447	LCA5L_HUMAN	Leber congenital amaurosis 5-like	646											0		Prostate(19;1.2e-06)				CTTTAGAGTCTCCGAAAGCAT	0.418													16	92					0	0	1	0	0		C	40777883	C	C	40777883	2	2	82	1	0	0	0	0	0	0	0	1	8673	1538	54	3		3	LCA5L	21	40777883	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	8367149	40777883	7352012	1188	51644											
LCA5L	150082	broad.mit.edu	37	chr21	40778399	40778399	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctttcaggatgaataacTtcaattatttttggtggtag	10	18	8	5	0	3	1	2	1	1	0	4	2	3	2	0	3	1	1	0	3	5	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr21:40778399T>G	uc002yxu.2	-	10	1735	c.1422A>C	c.(1420-1422)GAA>GAC	p.E474D	LCA5L_uc002yxv.2_Missense_Mutation_p.E474D	NM_152505	NP_689718	O95447	LCA5L_HUMAN	Leber congenital amaurosis 5-like	474											0		Prostate(19;1.2e-06)				GATGAATAACTTCAATTATTT	0.343													6	71					0	0	1	0	0		G	40778399	G	G	40778399	3	3	82	1	0	0	0	0	1	0	0	0	8673	1606	56	5	594	5	LCA5L	21	40778399	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	516	40778399	7351496	1189	51645											
PDE9A	5152	broad.mit.edu	37	chr21	44151886	44151886	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctttttatagctggtgTcgaggacaagagaaccacaa	12	10	10	9	1	0	1	0	0	0	1	1	4	0	2	2	2	3	2	2	2	5	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr21:44151886T>G	uc002zbm.2	+	5	332	c.269T>G	c.(268-270)GTC>GGC	p.V90G	PDE9A_uc002zbn.2_Intron|PDE9A_uc002zbo.2_Intron|PDE9A_uc002zbp.2_5'UTR|PDE9A_uc002zbq.2_Intron|PDE9A_uc002zbs.2_Intron|PDE9A_uc002zbr.2_Intron|PDE9A_uc002zbt.2_Intron|PDE9A_uc002zbu.2_Intron|PDE9A_uc002zbv.2_Intron|PDE9A_uc002zbw.2_Intron|PDE9A_uc002zbx.2_Intron|PDE9A_uc002zby.2_Intron|PDE9A_uc002zbz.2_Intron|PDE9A_uc002zca.2_Missense_Mutation_p.V49G|PDE9A_uc002zcb.2_Missense_Mutation_p.V64G|PDE9A_uc002zcc.2_Intron|PDE9A_uc002zcd.2_Intron|PDE9A_uc002zce.2_Missense_Mutation_p.V23G|PDE9A_uc002zcf.2_5'UTR|PDE9A_uc002zcg.2_Intron|PDE9A_uc002zch.2_5'UTR	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a	90					platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						ATAGCTGGTGTCGAGGACAAG	0.532													9	77					0	0	1	0	0		G	44151886	G	G	44151886	3	3	82	1	0	0	0	0	1	0	0	0	11674	1667	58	5	367	5	PDE9A	21	44151886	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3373487	44151886	3978009	1190	51646											
TRAPPC10	7109	broad.mit.edu	37	chr21	45499968	45499968	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcgcaagcacttctgccaGgagatacttgactttgccag	10	9	11	11	1	1	2	0	1	1	1	1	4	1	2	2	1	5	2	2	1	2	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr21:45499968G>A	uc002zea.2	+	13	1852	c.1683G>A	c.(1681-1683)CAG>CAA	p.Q561Q	TRAPPC10_uc010gpo.2_Silent_p.Q272Q|TRAPPC10_uc011afa.1_5'Flank	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	561					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						ACTTCTGCCAGGAGATACTTG	0.502													11	34					0	0	1	0	0		A	45499968	A	A	45499968	2	1	82	1	0	0	0	0	0	0	0	1	16483	991	35	4		4	TRAPPC10	21	45499968	Silent	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1348082	45499968	2629927	1191	51647											
TRPM2	7226	broad.mit.edu	37	chr21	45837923	45837923	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccccccttcatcctccTcagccacctgcagctcttca	5	9	5	22	1	4	0	3	0	1	0	6	0	6	0	8	0	3	2	8	0	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr21:45837923T>G	uc002zet.1	+	22	3473	c.3260T>G	c.(3259-3261)CTC>CGC	p.L1087R	TRPM2_uc002zeu.1_Missense_Mutation_p.L1087R|TRPM2_uc002zew.1_Missense_Mutation_p.L1087R|TRPM2_uc010gpt.1_Missense_Mutation_p.L1087R|TRPM2_uc002zex.1_Missense_Mutation_p.L873R|TRPM2_uc002zey.1_Missense_Mutation_p.L600R|uc011afe.1_Intron	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	1087	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TTCATCCTCCTCAGCCACCTG	0.502													9	61					0	0	1	0	0		G	45837923	G	G	45837923	3	3	82	1	0	0	0	0	1	0	0	0	16612	1551	54	5	3342	5	TRPM2	21	45837923	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	337955	45837923	2291972	1192	51648											
PCNT	5116	broad.mit.edu	37	chr21	47810619	47810619	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaattcattctcgttttgAaaaagaatttagttttaaga	15	16	5	5	1	2	3	1	1	1	2	3	3	2	3	1	0	0	2	1	0	6	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr21:47810619A>C	uc002zji.3	+	20	3982	c.3875A>C	c.(3874-3876)GAA>GCA	p.E1292A	PCNT_uc002zjj.2_Missense_Mutation_p.E1174A	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	1292					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TCTCGTTTTGAAAAAGAATTT	0.418													15	35					0	0	1	0	0		C	47810619	C	C	47810619	3	2	82	1	0	0	0	0	1	0	0	0	11609	246	9	5	3953	5	PCNT	21	47810619	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1972696	47810619	319276	1193	51649											
POTEH	23784	broad.mit.edu	37	chr22	16287707	16287707	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcagcaccacttgcccatcTtgctcctgagtgtcttcata	7	12	8	14	0	3	1	1	1	2	0	4	1	4	1	3	1	3	3	3	1	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:16287707T>G	uc010gqp.2	-	1	231	c.179A>C	c.(178-180)AAG>ACG	p.K60T	POTEH_uc002zlg.1_5'Flank|POTEH_uc002zlh.1_5'Flank|POTEH_uc002zlj.1_5'UTR	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	60										skin(1)	1						CTTGCCCATCTTGCTCCTGAG	0.602													73	356					0	0	1	0	0		G	16287707	G	G	16287707	3	3	82	1	0	0	0	0	1	0	0	0	12286	1609	56	5	1498	5	POTEH	22	16287707	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08		16287707	35016859	1194	51650											
CECR2	27443	broad.mit.edu	37	chr22	18028887	18028887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagacctggacaaccataacGcagctaccaagcggcagagc	14	4	10	13	2	0	2	0	0	0	2	0	3	0	3	3	2	6	3	3	2	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:18028887G>A	uc010gqw.1	+	16	3970	c.3844G>A	c.(3844-3846)GCA>ACA	p.A1282T	CECR2_uc010gqv.1_Missense_Mutation_p.A1140T|CECR2_uc002zml.2_Missense_Mutation_p.A1141T|CECR2_uc002zmo.2_RNA	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	1324					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		CAACCATAACGCAGCTACCAA	0.502													31	72					0	0	1	0	0		A	18028887	A	A	18028887	3	1	82	1	0	0	0	0	1	0	0	0	3209	1087	38	1	3908	1	CECR2	22	18028887	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	1741180	18028887	33275679	1195	51651											
HIRA	7290	broad.mit.edu	37	chr22	19363240	19363240	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaaccgggagtcaaacgcTttcatgggttcgatcttgga	9	11	13	8	3	3	1	2	1	1	0	4	4	3	3	1	3	2	2	1	3	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:19363240T>C	uc002zpf.1	-	15	1909	c.1689A>G	c.(1687-1689)AAA>AAG	p.K563K	HIRA_uc011agx.1_Silent_p.K429K|HIRA_uc010grn.1_Silent_p.K563K|HIRA_uc010gro.1_Silent_p.K519K|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	563	Interaction with CCNA1.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					AGTCAAACGCTTTCATGGGTT	0.552													10	65					0	0	1	0	0		C	19363240	C	C	19363240	2	2	82	1	0	0	0	0	0	0	0	1	7136	1606	56	3		3	HIRA	22	19363240	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1334353	19363240	31941326	1196	51652											
MED15	51586	broad.mit.edu	37	chr22	20920938	20920938	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccccagcagctgcagcAgatgcatcacacacagcacc	11	5	8	17	0	2	1	1	0	1	1	2	1	2	1	3	0	7	6	3	0	0	0	rs149450332		TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:20920938A>G	uc002zsp.2	+	7	955	c.875A>G	c.(874-876)CAG>CGG	p.Q292R	MED15_uc002zso.2_Missense_Mutation_p.Q221R|MED15_uc002zsq.2_Missense_Mutation_p.Q292R|MED15_uc010gso.2_Missense_Mutation_p.Q292R|MED15_uc002zsr.2_Missense_Mutation_p.Q266R|MED15_uc011ahs.1_Missense_Mutation_p.Q266R|MED15_uc002zss.2_Missense_Mutation_p.Q211R|MED15_uc011ahu.1_Missense_Mutation_p.Q18R	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	292	Pro-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			CAGCTGCAGCAGATGCATCAC	0.607													16	111					0	0	1	0	0		G	20920938	G	G	20920938	3	3	82	1	0	0	0	0	1	0	0	0	9451	188	7	3	901	3	MED15	22	20920938	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1557698	20920938	30383628	1197	51653											
SLC7A4	6545	broad.mit.edu	37	chr22	21384460	21384460	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggaactgaaccagcgacTccaggtccagcagcagtgcc	12	4	11	14	1	0	1	0	1	0	0	2	3	2	2	4	2	6	2	4	2	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:21384460T>G	uc002zud.2	-	3	1231	c.1163A>C	c.(1162-1164)GAG>GCG	p.E388A	SLC7A4_uc002zue.2_Missense_Mutation_p.E388A	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	388					cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AACCAGCGACTCCAGGTCCAG	0.637													3	27					0	0	1	0	0		G	21384460	G	G	21384460	3	3	82	1	0	0	0	0	1	0	0	0	14724	1551	54	5	756	5	SLC7A4	22	21384460	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	463522	21384460	29920106	1198	51654											
BCR	613	broad.mit.edu	37	chr22	23615951	23615951	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acggcagtccatgacggtgaAgaagggagaggtgagtgtgg	11	6	19	5	2	0	5	0	3	0	2	1	6	1	5	1	5	0	1	1	5	2	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:23615951A>C	uc002zww.2	+	8	2701	c.2105A>C	c.(2104-2106)AAG>ACG	p.K702T	BCR_uc002zwx.2_Missense_Mutation_p.K702T|BCR_uc011aiy.1_Missense_Mutation_p.K291T|BCR_uc010gtx.1_Missense_Mutation_p.K169T	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	702					regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						ATGACGGTGAAGAAGGGAGAG	0.622			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								11	63					0	0	1	0	0		C	23615951	C	C	23615951	3	2	82	1	0	0	0	0	1	0	0	0	1389	72	3	5	2135	5	BCR	22	23615951	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2231491	23615951	27688615	1199	51655											
RFPL1	5988	broad.mit.edu	37	chr22	29838005	29838005	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagccactgcacttgttttTtgctcctccaagtccaccta	7	13	7	14	0	0	0	0	0	0	0	3	1	3	1	5	1	3	3	5	1	2	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:29838005T>C	uc003afn.2	+	2	1057	c.848T>C	c.(847-849)TTT>TCT	p.F283S	RFPL1S_uc003afm.1_RNA	NM_021026	NP_066306	O75677	RFPL1_HUMAN	ret finger protein-like 1	283	B30.2/SPRY.						zinc ion binding				0						CACTTGTTTTTTGCTCCTCCA	0.493													5	94					0	0	1	0	0		C	29838005	C	C	29838005	3	2	82	1	0	0	0	0	1	0	0	0	13278	1841	64	3	854	3	RFPL1	22	29838005	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	6222054	29838005	21466561	1200	51656											
NEFH	4744	broad.mit.edu	37	chr22	29886668	29886668	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctccagagaaggccacagaAgacaaggccgccaaggggaa	15	1	13	12	1	0	3	0	0	0	3	1	5	1	4	5	4	0	0	5	4	5	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:29886668A>G	uc003afo.2	+	4	3110	c.3039A>G	c.(3037-3039)GAA>GAG	p.E1013E	NEFH_uc003afp.2_Missense_Mutation_p.K79R	NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	1019	Tail.				cell death|nervous system development	neurofilament					0						AGGCCACAGAAGACAAGGCCG	0.512													7	38					0	0	1	0	0		G	29886668	G	G	29886668	2	3	82	1	0	0	0	0	0	0	0	1	10333	69	3	3		3	NEFH	22	29886668	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	48663	29886668	21417898	1201	51657											
CCDC157	550631	broad.mit.edu	37	chr22	30772518	30772518	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcagccctgcacatccccAcctcggcagccctgcacatc	7	5	8	21	2	0	0	0	0	0	0	3	0	1	0	5	2	4	4	5	2	0	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:30772518A>T	uc011aku.1	+	12	2703	c.2043A>T	c.(2041-2043)CCA>CCT	p.P681P	CCDC157_uc011akv.1_Silent_p.P681P|uc003aho.1_5'Flank	NM_001017437	NP_001017437	Q569K6	CC157_HUMAN	coiled-coil domain containing 157	681										central_nervous_system(1)	1						GCACATCCCCACCTCGGCAGC	0.682													88	83					0	0	1	0	0		T	30772518	T	T	30772518	2	4	82	1	0	0	0	0	0	0	0	1	2792	146	6	5		5	CCDC157	22	30772518	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	885850	30772518	20532048	1202	51658											
SH3BP1	23616	broad.mit.edu	37	chr22	38061576	38061576	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctacaggcaccgggagcctgGccgctgcagtggagacagcc	8	4	15	14	2	0	1	0	0	0	1	0	3	0	2	4	4	4	3	4	4	1	1	rs150938915	byFrequency	TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:38061576G>T	uc003atj.1	+	17	2403	c.1516G>T	c.(1516-1518)GCC>TCC	p.A506S	PDXP_uc003atm.1_Missense_Mutation_p.A197S			Q9Y3L3	3BP1_HUMAN	SubName: Full=cDNA FLJ44925 fis, clone BRAMY3014613, highly similar to Homo sapiens SH3-domain binding protein 1 (SH3BP1);	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					signal transduction	cytoplasm	GTPase activator activity|SH3 domain binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CGGGAGCCTGGCCGCTGCAGT	0.647													4	41					0.150653	0.150757	1	1	0		T	38061576	T	T	38061576	3	4	82	1	0	0	0	0	1	0	0	0	14269	1203	42	5		5	SH3BP1	22	38061576	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	7289058	38061576	13242990	1203	51659											
SMCR7L	54471	broad.mit.edu	37	chr22	39908397	39908397	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgggccaagcaagctgcTgtggacatatgtgccgagct	8	8	14	11	2	0	0	0	0	0	0	1	2	0	1	2	2	5	5	2	2	3	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:39908397T>C	uc003axx.2	+	5	981	c.483T>C	c.(481-483)GCT>GCC	p.A161A	SMCR7L_uc003axw.2_Silent_p.A161A|SMCR7L_uc010gxz.1_5'UTR|SMCR7L_uc003axy.2_5'UTR	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	161						integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					AGCAAGCTGCTGTGGACATAT	0.597													7	71					0	0	1	0	0		C	39908397	C	C	39908397	2	2	82	1	0	0	0	0	0	0	0	1	14816	1567	55	3		3	SMCR7L	22	39908397	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1846821	39908397	11396169	1204	51660											
TCF20	6942	broad.mit.edu	37	chr22	42609755	42609755	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctggagcagcctccatcTaatgactctgccatagggga	9	9	11	12	0	2	1	0	1	2	0	3	3	3	3	3	3	4	2	3	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:42609755T>C	uc003bcj.1	-	1	1691	c.1557A>G	c.(1555-1557)TTA>TTG	p.L519L	TCF20_uc003bck.1_Silent_p.L519L|TCF20_uc003bnt.2_Silent_p.L519L	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	519					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						AGCCTCCATCTAATGACTCTG	0.537													34	206					0	0	1	0	0		C	42609755	C	C	42609755	2	2	82	1	0	0	0	0	0	0	0	1	15715	1519	53	3		3	TCF20	22	42609755	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2701358	42609755	8694811	1205	51661											
CELSR1	9620	broad.mit.edu	37	chr22	46860029	46860029	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttcaggatgttggagctgAcgtcggtgtcgttctggacg	5	12	16	8	5	2	1	1	1	1	0	4	4	2	4	0	4	1	4	0	4	0	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:46860029A>C	uc003bhw.1	-	2	3758	c.3758T>G	c.(3757-3759)GTC>GGC	p.V1253G		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1253	Extracellular (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GTTGGAGCTGACGTCGGTGTC	0.652													31	26					0	0	1	0	0		C	46860029	C	C	46860029	3	2	82	1	0	0	0	0	1	0	0	0	3224	275	10	5	5422	5	CELSR1	22	46860029	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	4250274	46860029	4444537	1206	51662											
SAPS2	9701	broad.mit.edu	37	chr22	50857310	50857310	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcagaggcagtcaaatgcTtctcagactctctgtgacat	10	13	8	10	0	4	3	3	1	2	2	6	3	4	3	0	1	1	2	0	1	1	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chr22:50857310T>A	uc003blb.1	+	8	1055	c.633T>A	c.(631-633)GCT>GCA	p.A211A	SAPS2_uc003bky.1_Silent_p.A211A|SAPS2_uc003bkz.1_Silent_p.A211A|SAPS2_uc003blc.2_Silent_p.A211A|SAPS2_uc003bla.1_Silent_p.A211A	NM_014678	NP_055493	O75170	PP6R2_HUMAN	SAPS domain family, member 2	211						cytoplasm|intracellular membrane-bounded organelle	protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.222)		AGTCAAATGCTTCTCAGACTC	0.572													35	94					0	0	1	0	0		A	50857310	A	A	50857310	2	1	82	1	0	0	0	0	0	0	0	1	13862	1596	56	5		5	SAPS2	22	50857310	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3997281	50857310	447256	1207	51663											
PLCXD1	55344	broad.mit.edu	37	chrX	205517	205517	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcacgcgccctgtcgtgcTgaaatggtccgtcacccagg	7	8	11	15	4	2	1	2	1	0	0	4	1	3	1	3	2	1	1	3	2	1	0			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:205517T>C	uc004cpc.2	+	3	557	c.245T>C	c.(244-246)CTG>CCG	p.L82P	PLCXD1_uc011mgx.1_RNA	NM_018390	NP_060860	Q9NUJ7	PLCX1_HUMAN	phosphatidylinositol-specific phospholipase C, X	82	PI-PLC X-box.				intracellular signal transduction|lipid metabolic process		phospholipase C activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCTGTCGTGCTGAAATGGTCC	0.637													5	57					0	0	1	0	0		C	205517	C	C	205517	3	2	82	1	0	0	0	0	1	0	0	0	12060	1580	55	3	251	3	PLCXD1	23	205517	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08		205517	155065043	1208	51664											
SHOX	6473	broad.mit.edu	37	chrX	595445	595445	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggcgcagccgcaccaacTtcacgctggagcagctgaac	11	4	12	14	3	1	2	1	1	0	1	1	3	1	3	2	2	5	5	2	2	2	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:595445T>G	uc004cph.1	+	3	1061	c.370T>G	c.(370-372)TTC>GTC	p.F124V	SHOX_uc004cpi.2_Missense_Mutation_p.F124V	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	124	Homeobox.				skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCGCACCAACTTCACGCTGGA	0.617													10	13					0	0	1	0	0		G	595445	G	G	595445	3	3	82	1	0	0	0	0	1	0	0	0	14313	1609	56	5	376	5	SHOX	23	595445	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	389928	595445	154675115	1209	51665											
CSF2RA	1438	broad.mit.edu	37	chrX	1419418	1419418	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatttggaaaatagatacaActttccaagctctgagccca	14	11	7	9	0	1	3	0	2	1	1	2	4	2	4	2	1	4	1	2	1	6	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:1419418A>G	uc010nct.2	+	11	1167	c.845A>G	c.(844-846)AAC>AGC	p.N282S	CSF2RA_uc011mhb.1_Missense_Mutation_p.N282S|CSF2RA_uc004cpq.2_Intron|CSF2RA_uc004cpn.2_Missense_Mutation_p.N282S|CSF2RA_uc004cpo.2_Missense_Mutation_p.N282S|CSF2RA_uc010ncu.2_Intron|CSF2RA_uc011mhc.1_Missense_Mutation_p.N149S|CSF2RA_uc004cpp.2_Missense_Mutation_p.N282S|CSF2RA_uc010ncv.2_Missense_Mutation_p.N282S|CSF2RA_uc004cpr.2_Missense_Mutation_p.N282S	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	282	Extracellular (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	AATAGATACAACTTTCCAAGC	0.423													16	97					0	0	1	0	0		G	1419418	G	G	1419418	3	3	82	1	0	0	0	0	1	0	0	0	3937	43	2	3	875	3	CSF2RA	23	1419418	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	823973	1419418	153851142	1210	51666											
ASB9	140462	broad.mit.edu	37	chrX	15268632	15268632	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtgcccaggtggctgatcTtatggtcaatgttgccccca	7	11	12	11	0	2	1	1	1	1	0	2	2	2	1	3	3	2	2	3	3	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:15268632T>G	uc004cwl.2	-	5	735	c.488A>C	c.(487-489)AAG>ACG	p.K163T	ASB9_uc004cwk.2_Missense_Mutation_p.K163T|ASB9_uc004cwm.2_Missense_Mutation_p.K153T|ASB9_uc010ner.2_Missense_Mutation_p.K163T|ASB9_uc004cwn.2_Missense_Mutation_p.K134T	NM_001031739	NP_001026909	Q96DX5	ASB9_HUMAN	ankyrin repeat and SOCS box-containing 9 isoform	163					intracellular signal transduction						0	Hepatocellular(33;0.183)					GTGGCTGATCTTATGGTCAAT	0.468													32	23					0	0	1	0	0		G	15268632	G	G	15268632	3	3	82	1	0	0	0	0	1	0	0	0	1031	1609	56	5	437	5	ASB9	23	15268632	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	13849214	15268632	140001928	1211	51667											
SCML1	6322	broad.mit.edu	37	chrX	17771450	17771450	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttgggggtgaagctgggaAcggctgtgaagctatgctac	9	9	16	7	1	0	2	0	2	0	0	0	3	0	3	0	4	5	4	0	4	5	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:17771450A>G	uc004cyb.2	+	8	1253	c.928A>G	c.(928-930)ACG>GCG	p.T310A	SCML1_uc004cyc.2_Missense_Mutation_p.T283A|SCML1_uc004cyd.2_Missense_Mutation_p.T189A|SCML1_uc004cye.2_Missense_Mutation_p.T189A	NM_001037540	NP_001032629	Q9UN30	SCML1_HUMAN	sex comb on midleg-like 1 isoform a	310	SAM.				anatomical structure morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)	3	Hepatocellular(33;0.183)					GAAGCTGGGAACGGCTGTGAA	0.428													6	59					0	0	1	0	0		G	17771450	G	G	17771450	3	3	82	1	0	0	0	0	1	0	0	0	13934	43	2	3	957	3	SCML1	23	17771450	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2502818	17771450	137499110	1212	51668											
PHKA2	5256	broad.mit.edu	37	chrX	18924619	18924619	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggcatctcacctgagcAgttcaggctccgtgccagct	6	9	12	14	2	2	1	2	1	1	0	4	1	3	1	3	2	4	5	3	2	0	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:18924619A>G	uc004cyv.3	-	25	3230	c.2800T>C	c.(2800-2802)TGC>CGC	p.C934R	PHKA2_uc004cyu.3_Missense_Mutation_p.C232R|PHKA2_uc010nfe.1_5'Flank|PHKA2_uc010nff.1_5'Flank	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	934					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					TCACCTGAGCAGTTCAGGCTC	0.622													6	49					0	0	1	0	0		G	18924619	G	G	18924619	3	3	82	1	0	0	0	0	1	0	0	0	11863	188	7	3	943	3	PHKA2	23	18924619	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1153169	18924619	136345941	1213	51669											
PTCHD1	139411	broad.mit.edu	37	chrX	23398122	23398122	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacccttacacgtcctccTcactgagggaagatttccag	9	11	8	13	1	1	2	1	1	0	1	4	3	4	3	4	1	2	1	4	1	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:23398122T>G	uc004dal.3	+	2	774	c.766T>G	c.(766-768)TCA>GCA	p.S256A	PTCHD1_uc010nfu.1_Missense_Mutation_p.S256A	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	256					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						CACGTCCTCCTCACTGAGGGA	0.507													59	87					0	0	1	0	0		G	23398122	G	G	23398122	3	3	82	1	0	0	0	0	1	0	0	0	12754	1551	54	5	772	5	PTCHD1	23	23398122	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	4473503	23398122	131872438	1214	51670											
FAM48B1	100130302	broad.mit.edu	37	chrX	24380992	24380992	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgggaaaaactctgcaggaaAaactttatgacatttatgtt	15	12	8	6	1	1	1	0	1	1	0	1	3	1	3	0	2	3	2	0	2	6	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:24380992A>C	uc011mjx.1	+	1	115	c.115A>C	c.(115-117)AAA>CAA	p.K39Q		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						TCTGCAGGAAAAACTTTATGA	0.423													11	30					0	0	1	0	0		C	24380992	C	C	24380992	3	2	82	1	0	0	0	0	1	0	0	0	5587	15	1	5	117	5	FAM48B1	23	24380992	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	982870	24380992	130889568	1215	51671											
MAGEB2	4113	broad.mit.edu	37	chrX	30237447	30237447	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctggaagctcatcaccaaAgatctggtgcaggaaaaata	15	7	9	10	0	3	1	2	0	1	1	3	3	3	3	2	3	2	2	2	3	5	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:30237447A>T	uc004dbz.2	+	2	853	c.750A>T	c.(748-750)AAA>AAT	p.K250N		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	250	MAGE.						protein binding			ovary(1)	1						TCATCACCAAAGATCTGGTGC	0.507													20	10					0	0	1	0	0		T	30237447	T	T	30237447	3	4	82	1	0	0	0	0	1	0	0	0	9194	69	3	5	752	5	MAGEB2	23	30237447	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	5856455	30237447	125033113	1216	51672											
GK	2710	broad.mit.edu	37	chrX	30737592	30737592	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacttcgtcccagcatttTcggggttatatgcaccttat	7	15	8	11	2	0	0	0	0	0	0	3	0	1	0	2	2	3	4	2	2	4	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:30737592T>G	uc004dch.3	+	15	1290	c.1111T>G	c.(1111-1113)TCG>GCG	p.S371A	GK_uc010ngj.2_Missense_Mutation_p.S365A|GK_uc004dci.3_Missense_Mutation_p.S365A|GK_uc011mjz.1_Missense_Mutation_p.S166A|GK_uc011mka.1_Missense_Mutation_p.S208A|GK_uc010ngk.2_Missense_Mutation_p.S160A	NM_203391	NP_976325	P32189	GLPK_HUMAN	glycerol kinase isoform a	371					glycerol-3-phosphate metabolic process|triglyceride biosynthetic process	cytosol|mitochondrial outer membrane	ATP binding|glycerol kinase activity			central_nervous_system(1)	1						CCCAGCATTTTCGGGGTTATA	0.363													10	25					0	0	1	0	0		G	30737592	G	G	30737592	3	3	82	1	0	0	0	0	1	0	0	0	6435	1783	62	5	1169	5	GK	23	30737592	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	500145	30737592	124532968	1217	51673											
SYTL5	94122	broad.mit.edu	37	chrX	37984761	37984761	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttgaattctggaagtggTgagggatttggggacccaca	9	11	15	6	1	1	2	0	2	1	0	1	5	1	5	1	5	0	1	1	5	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:37984761T>G	uc004ddu.2	+	17	2584	c.2050_splice	c.e17+2	p.G684_splice	SYTL5_uc004ddv.2_Splice_Site_p.G684_splice|SYTL5_uc004ddx.2_Splice_Site_p.G706_splice	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1						intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						CTGGAAGTGGTGAGGGATTTG	0.468													29	12					0	0	1	0	0		G	37984761	G	G	37984761	5	3	82	1	0	0	0	0	0	0	1	0	15511	1710	59	5	2180	5	SYTL5	23	37984761	Splice_Site	SNP	T	TCGA-BR-8589-01A-11D-2394-08	7247169	37984761	117285799	1218	51674											
RPGR	6103	broad.mit.edu	37	chrX	38169936	38169936	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccggaatttcagacaccAgctggggtgttctgtgattg	7	13	12	9	1	3	2	1	1	2	1	4	3	3	3	2	3	1	2	2	3	1	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:38169936A>G	uc004ded.1	-	7	878	c.710T>C	c.(709-711)CTG>CCG	p.L237P	RPGR_uc004deb.2_Missense_Mutation_p.L237P|RPGR_uc004dea.2_RNA|RPGR_uc004dec.2_RNA	NM_001034853	NP_001030025	Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator isoform C	237	RCC1 4.				intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						TTCAGACACCAGCTGGGGTGT	0.507													15	23					0	0	1	0	0		G	38169936	G	G	38169936	3	3	82	1	0	0	0	0	1	0	0	0	13573	188	7	3	3343	3	RPGR	23	38169936	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	185175	38169936	117100624	1219	51675											
EFHC2	80258	broad.mit.edu	37	chrX	44109672	44109672	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggattcgtagggacgtaagGgctctacgtgttctacaacc	9	10	13	9	3	2	0	0	0	2	0	3	2	2	2	1	3	3	4	1	3	5	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:44109672G>T	uc004dgb.3	-	6	716	c.626C>A	c.(625-627)CCC>CAC	p.P209H		NM_025184	NP_079460	Q5JST6	EFHC2_HUMAN	EF-hand domain (C-terminal) containing 2	209							calcium ion binding			breast(3)|ovary(2)|central_nervous_system(1)	6						GGGACGTAAGGGCTCTACGTG	0.418													11	8					0.0809354	0.081047	1	1	0		T	44109672	T	T	44109672	3	4	82	1	0	0	0	0	1	0	0	0	4953	1232	43	5	1667	5	EFHC2	23	44109672	Missense_Mutation	SNP	G	TCGA-BR-8589-01A-11D-2394-08	5939736	44109672	111160888	1220	51676											
RGN	9104	broad.mit.edu	37	chrX	46951102	46951102	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcagaagtgtttacaagctAgaaaaggaagaacaaatccc	18	6	9	8	1	0	3	0	0	0	3	1	4	1	4	1	1	3	3	1	1	9	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:46951102A>G	uc004dgz.1	+	6	1557	c.588A>G	c.(586-588)CTA>CTG	p.L196L	RGN_uc004dha.1_Silent_p.L196L|RGN_uc010nho.1_Silent_p.L143L|RGN_uc010nhp.1_Silent_p.L124L	NM_152869	NP_690608	Q15493	RGN_HUMAN	regucalcin	196					cellular calcium ion homeostasis|positive regulation of ATPase activity|regulation of calcium-mediated signaling	cytoplasm|nucleus	calcium ion binding|enzyme regulator activity|gluconolactonase activity|zinc ion binding				0						TTTACAAGCTAGAAAAGGAAG	0.423													25	18					0	0	1	0	0		G	46951102	G	G	46951102	2	3	82	1	0	0	0	0	0	0	0	1	13307	407	15	3		3	RGN	23	46951102	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	2841430	46951102	108319458	1221	51677											
CCNB3	85417	broad.mit.edu	37	chrX	50051989	50051989	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttaagaagaagcctaaaActgaggagtcaatccccacc	15	8	8	10	0	1	3	1	1	0	2	2	4	2	4	4	1	2	1	4	1	6	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:50051989A>T	uc004dox.3	+	6	1118	c.820A>T	c.(820-822)ACT>TCT	p.T274S	CCNB3_uc004doy.2_Missense_Mutation_p.T274S|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	274					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					GAAGCCTAAAACTGAGGAGTC	0.423													7	61					0	0	1	0	0		T	50051989	T	T	50051989	3	4	82	1	0	0	0	0	1	0	0	0	2917	43	2	5	834	5	CCNB3	23	50051989	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	3100887	50051989	105218571	1222	51678											
MAGEE1	57692	broad.mit.edu	37	chrX	75648336	75648336	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaggaccatgtctctggtaAgccagaattcgcgccgccgc	8	7	12	14	4	1	1	0	0	1	1	3	2	1	2	4	2	1	2	4	2	2	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:75648336A>C	uc004ecm.1	+	1	220	c.13A>C	c.(13-15)AGC>CGC	p.S5R		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	5						dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						GTCTCTGGTAAGCCAGAATTc	0.567													5	15					0	0	1	0	0		C	75648336	C	C	75648336	3	2	82	1	0	0	0	0	1	0	0	0	9203	72	3	5	15	5	MAGEE1	23	75648336	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	25596347	75648336	79622224	1223	51679											
ZNF711	7552	broad.mit.edu	37	chrX	84510394	84510394	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatggccttgcagctgaagTtgtccatggacctgatatca	9	12	10	10	0	2	2	2	2	0	0	3	3	3	3	3	2	2	3	3	2	2	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:84510394T>G	uc004eeo.2	+	4	556	c.209T>G	c.(208-210)GTT>GGT	p.V70G	ZNF711_uc004eep.2_Missense_Mutation_p.V70G|ZNF711_uc004eeq.2_Missense_Mutation_p.V70G	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	70					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						GCAGCTGAAGTTGTCCATGGA	0.428													70	55					0	0	1	0	0		G	84510394	G	G	84510394	3	3	82	1	0	0	0	0	1	0	0	0	18141	1725	60	5	215	5	ZNF711	23	84510394	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	8862058	84510394	70760166	1224	51680											
TAF7L	54457	broad.mit.edu	37	chrX	100536734	100536734	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgttttccggaacctttTctttctgacattcttaagtg	6	20	7	8	1	3	1	0	1	3	0	4	2	4	2	2	1	1	1	2	1	2	8			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:100536734T>A	uc004ehb.2	-	6	706	c.694A>T	c.(694-696)AAA>TAA	p.K232*	TAF7L_uc004eha.2_Nonsense_Mutation_p.K146*|TAF7L_uc004ehc.1_Nonsense_Mutation_p.K146*	NM_024885	NP_079161	Q5H9L4	TAF7L_HUMAN	TATA box binding protein-associated factor, RNA	232					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription initiation from RNA polymerase II promoter	cytoplasm|transcription factor TFIID complex	binding			breast(1)	1						CGGAACCTTTTCTTTCTGACA	0.378													14	65					0	0	1	0	0		A	100536734	A	A	100536734	4	1	82	1	0	0	0	0	0	1	0	0	15558	1792	62	5	726	5	TAF7L	23	100536734	Nonsense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	16026340	100536734	54733826	1225	51681											
GPRASP2	114928	broad.mit.edu	37	chrX	101970070	101970070	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacccaaaacggaggctcaAggaatcacaggggccaggcc	14	2	13	12	1	2	1	2	0	0	1	2	3	2	3	3	6	1	1	3	6	4	0	rs139738191	byFrequency	TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:101970070A>G	uc004ejk.2	+	4	1607	c.273A>G	c.(271-273)CAA>CAG	p.Q91Q	GPRASP2_uc004ejl.2_Silent_p.Q91Q|GPRASP2_uc004ejm.2_Silent_p.Q91Q|GPRASP2_uc011mrp.1_5'Flank	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	91						cytoplasm	protein binding			ovary(1)	1						CGGAGGCTCAAGGAATCACAG	0.577													60	51					0	0	1	0	0		G	101970070	G	G	101970070	2	3	82	1	0	0	0	0	0	0	0	1	6739	69	3	3		3	GPRASP2	23	101970070	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1433336	101970070	53300490	1226	51682											
GLRA4	441509	broad.mit.edu	37	chrX	102979114	102979114	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcaaagaagaggtctggcTtccagatagagtccagcatg	13	8	12	8	0	1	4	0	0	1	4	3	4	3	4	2	2	2	3	2	2	4	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:102979114T>G	uc011mse.1	-	4	807	c.386A>C	c.(385-387)AAG>ACG	p.K129T	GLRA4_uc010nou.2_Missense_Mutation_p.K129T	NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	129	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						GAGGTCTGGCTTCCAGATAGA	0.512													53	56					0	0	1	0	0		G	102979114	G	G	102979114	3	3	82	1	0	0	0	0	1	0	0	0	6472	1609	56	5	986	5	GLRA4	23	102979114	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1009044	102979114	52291446	1227	51683											
NRK	203447	broad.mit.edu	37	chrX	105178289	105178289	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcctcaaatgccattgacTcaggtgctgcaccgtcagca	10	8	10	13	1	3	1	3	1	0	0	3	1	3	1	3	2	4	3	3	2	1	1			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:105178289T>C	uc004emd.2	+	20	3655	c.3352T>C	c.(3352-3354)TCA>CCA	p.S1118P	NRK_uc010npc.1_Missense_Mutation_p.S786P	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1118							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						TGCCATTGACTCAGGTGCTGC	0.413										HNSCC(51;0.14)			21	23					0	0	1	0	0		C	105178289	C	C	105178289	3	2	82	1	0	0	0	0	1	0	0	0	10674	1551	54	3	3430	3	NRK	23	105178289	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2199175	105178289	50092271	1228	51684											
MUM1L1	139221	broad.mit.edu	37	chrX	105450021	105450021	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcgagactttcccttcacTttcggaagataatgatgaaa	12	12	9	8	2	1	4	1	2	0	2	3	6	2	5	1	1	1	0	1	1	3	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:105450021T>A	uc004emf.1	+	4	1245	c.596T>A	c.(595-597)CTT>CAT	p.L199H	MUM1L1_uc004emg.1_Missense_Mutation_p.L199H	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	199										ovary(2)|pancreas(1)|skin(1)	4						TTCCCTTCACTTTCGGAAGAT	0.383													4	13					0	0	1	0	0		A	105450021	A	A	105450021	3	1	82	1	0	0	0	0	1	0	0	0	10004	1609	56	5	598	5	MUM1L1	23	105450021	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	271732	105450021	49820539	1229	51685											
MID2	11043	broad.mit.edu	37	chrX	107167580	107167580	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccatgttacaggcctgtaTaattcagtagacagctggat	11	11	9	10	0	1	1	1	0	0	1	1	2	1	2	3	2	2	4	3	2	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:107167580T>A	uc004enl.2	+	8	2016	c.1443T>A	c.(1441-1443)TAT>TAA	p.Y481*	MID2_uc004enk.2_Nonsense_Mutation_p.Y451*	NM_012216	NP_036348	Q9UJV3	TRIM1_HUMAN	midline 2 isoform 1	481	Fibronectin type-III.					centrosome|microtubule	ligase activity|zinc ion binding			ovary(1)	1						CAGGCCTGTATAATTCAGTAG	0.433													29	14					0	0	1	0	0		A	107167580	A	A	107167580	4	1	82	1	0	0	0	0	0	1	0	0	9596	1413	49	5	1473	5	MID2	23	107167580	Nonsense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	1717559	107167580	48102980	1230	51686											
TEX13B	56156	broad.mit.edu	37	chrX	107225022	107225022	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctgttccttgagttcCgtcaggtttgaggccaagac	6	13	11	11	1	1	3	1	2	0	1	4	3	4	3	4	2	1	4	4	2	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:107225022C>T	uc004enn.1	-	2	429	c.336G>A	c.(334-336)ACG>ACA	p.T112T		NM_031273	NP_112563	Q9BXU2	TX13B_HUMAN	testis expressed 13B	112										ovary(1)	1						CCTTGAGTTCCGTCAGGTTTG	0.582													57	57					0	0	1	0	0		T	107225022	T	T	107225022	2	4	82	1	0	0	0	0	0	0	0	1	15802	639	23	1		1	TEX13B	23	107225022	Silent	SNP	C	TCGA-BR-8589-01A-11D-2394-08	57442	107225022	48045538	1231	51687											
COL4A5	1287	broad.mit.edu	37	chrX	107863537	107863537	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatccaggacctcctggacTtgatgttccaggacccccag	8	8	11	14	0	0	1	0	1	0	0	3	5	3	5	6	4	0	1	6	4	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:107863537T>A	uc004enz.1	+	31	2760	c.2558T>A	c.(2557-2559)CTT>CAT	p.L853H	COL4A5_uc011mso.1_Missense_Mutation_p.L853H|COL4A5_uc004eob.1_Missense_Mutation_p.L461H	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	853	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						CCTCCTGGACTTGATGTTCCA	0.483									Alport_syndrome_with_Diffuse_Leiomyomatosis				5	48					0	0	1	0	0		A	107863537	A	A	107863537	3	1	82	1	0	0	0	0	1	0	0	0	3697	1609	56	5	2680	5	COL4A5	23	107863537	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	638515	107863537	47407023	1232	51688											
CAPN6	827	broad.mit.edu	37	chrX	110489860	110489860	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagctgatgtggccttgcTtgactttggcagttggacca	7	13	13	8	0	0	3	0	3	0	0	0	4	0	4	2	3	2	4	2	3	1	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:110489860T>C	uc004epc.1	-	13	2039	c.1871A>G	c.(1870-1872)AAG>AGG	p.K624R	CAPN6_uc011msu.1_Missense_Mutation_p.K369R	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	624					microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						GTGGCCTTGCTTGACTTTGGC	0.507													36	26					0	0	1	0	0		C	110489860	C	C	110489860	3	2	82	1	0	0	0	0	1	0	0	0	2633	1609	56	3	58	3	CAPN6	23	110489860	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2626323	110489860	44780700	1233	51689											
ATP1B4	23439	broad.mit.edu	37	chrX	119509228	119509228	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccactcacacatgctttaggTtataatgacagtcttcaaga	13	12	6	10	0	3	2	2	1	1	1	3	2	3	2	1	1	1	2	1	1	4	5			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:119509228T>G	uc004esr.2	+	5	648	c.564T>G	c.(562-564)GGT>GGG	p.G188G	ATP1B4_uc004esq.2_Silent_p.G184G|ATP1B4_uc011mtx.1_Silent_p.G153G|ATP1B4_uc011mty.1_Silent_p.G145G	NM_001142447	NP_001135919	Q9UN42	AT1B4_HUMAN	ATPase, (Na+)/K+ transporting, beta 4	188	Perinuclear space (Potential).				ATP biosynthetic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to plasma membrane|nuclear inner membrane	sodium:potassium-exchanging ATPase activity			ovary(1)|skin(1)	2						ATGCTTTAGGTTATAATGACA	0.493													25	40					0	0	1	0	0		G	119509228	G	G	119509228	2	3	82	1	0	0	0	0	0	0	0	1	1136	1739	60	5		5	ATP1B4	23	119509228	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	9019368	119509228	35761332	1234	51690											
GLUD2	2747	broad.mit.edu	37	chrX	120182312	120182312	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgcctgtgttactggtaaAcccatcagccaagggggaat	11	8	11	11	1	1	0	1	0	0	0	1	1	1	1	3	3	3	2	3	3	5	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:120182312A>T	uc004eto.2	+	1	851	c.774A>T	c.(772-774)AAA>AAT	p.K258N		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	258					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	TTACTGGTAAACCCATCAGCC	0.488													35	24					0	0	1	0	0		T	120182312	T	T	120182312	3	4	82	1	0	0	0	0	1	0	0	0	6492	40	2	5	776	5	GLUD2	23	120182312	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	673084	120182312	35088248	1235	51691											
GRIA3	2892	broad.mit.edu	37	chrX	122616702	122616702	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaggcgttttctatatacTtgtcggaggtctggggctgg	5	13	16	7	2	2	0	0	0	2	0	3	1	2	1	0	7	1	3	0	7	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:122616702T>C	uc004etq.3	+	16	2785	c.2492T>C	c.(2491-2493)CTT>CCT	p.L831P	GRIA3_uc004etr.3_Missense_Mutation_p.L831P|GRIA3_uc004ets.3_RNA	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	831	Helical; (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	TTCTATATACTTGTCGGAGGT	0.468													35	37					0	0	1	0	0		C	122616702	C	C	122616702	3	2	82	1	0	0	0	0	1	0	0	0	6785	1609	56	3	2669	3	GRIA3	23	122616702	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2434390	122616702	32653858	1236	51692											
ODZ1	10178	broad.mit.edu	37	chrX	123680875	123680875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatctggtgagccctggcAgagaggacttatataacagt	12	9	13	7	0	1	2	0	1	1	1	1	5	1	4	1	4	2	1	1	4	3	3			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:123680875A>G	uc004euj.2	-	15	2564	c.2500T>C	c.(2500-2502)TGC>CGC	p.C834R	ODZ1_uc011muj.1_Missense_Mutation_p.C833R|ODZ1_uc010nqy.2_Missense_Mutation_p.C834R	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	834	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GAGCCCTGGCAGAGAGGACTT	0.398													5	47					0	0	1	0	0		G	123680875	G	G	123680875	3	3	82	1	0	0	0	0	1	0	0	0	10853	188	7	3	5770	3	ODZ1	23	123680875	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1064173	123680875	31589685	1237	51693											
USP26	83844	broad.mit.edu	37	chrX	132160803	132160803	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctccaaaaaaaagatcaaaAgtagactgaatagatgaagg	21	6	9	5	0	1	5	1	2	0	3	2	5	2	5	1	1	0	2	1	1	10	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:132160803A>G	uc010nrm.1	-	6	1916	c.1446T>C	c.(1444-1446)ACT>ACC	p.T482T	USP26_uc011mvf.1_Silent_p.T482T	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	482					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					AAAGATCAAAAGTAGACTGAA	0.393													78	58					0	0	1	0	0		G	132160803	G	G	132160803	2	3	82	1	0	0	0	0	0	0	0	1	17083	59	3	3		3	USP26	23	132160803	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	8479928	132160803	23109757	1238	51694											
GPR112	139378	broad.mit.edu	37	chrX	135430503	135430503	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaaaacaatgcatccaggTtgtttgaaaagtccctgtac	13	12	7	9	0	1	1	0	1	1	0	3	1	3	1	2	1	3	4	2	1	6	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:135430503T>G	uc004ezu.1	+	6	4929	c.4638T>G	c.(4636-4638)GGT>GGG	p.G1546G	GPR112_uc010nsb.1_Silent_p.G1341G|GPR112_uc010nsc.1_Silent_p.G1313G	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1546	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TGCATCCAGGTTGTTTGAAAA	0.423													46	47					0	0	1	0	0		G	135430503	G	G	135430503	2	3	82	1	0	0	0	0	0	0	0	1	6644	1712	60	5		5	GPR112	23	135430503	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	3269700	135430503	19840057	1239	51695											
GPR112	139378	broad.mit.edu	37	chrX	135488095	135488095	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggacccatgaggaactttTtcttgtatttgtttgccatt	7	17	10	7	0	1	1	0	1	1	0	1	3	1	3	2	3	2	2	2	3	2	7			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:135488095T>G	uc004ezu.1	+	23	9190	c.8899T>G	c.(8899-8901)TTC>GTC	p.F2967V	GPR112_uc010nsb.1_Missense_Mutation_p.F2762V	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	2967	Helical; Name=7; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					GAGGAACTTTTTCTTGTATTT	0.438													70	65					0	0	1	0	0		G	135488095	G	G	135488095	3	3	82	1	0	0	0	0	1	0	0	0	6644	1841	64	5	8977	5	GPR112	23	135488095	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	57592	135488095	19782465	1240	51696											
AFF2	2334	broad.mit.edu	37	chrX	148037396	148037396	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcagaaaattccagaaacAaaggctttgaagcataagtt	18	9	7	7	0	1	3	1	1	0	2	2	3	2	3	1	1	2	3	1	1	6	4			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:148037396A>G	uc004fcp.2	+	11	2300	c.1821A>G	c.(1819-1821)ACA>ACG	p.T607T	AFF2_uc004fcq.2_Silent_p.T597T|AFF2_uc004fcr.2_Silent_p.T568T|AFF2_uc011mxb.1_Silent_p.T572T|AFF2_uc004fcs.2_Silent_p.T574T|AFF2_uc011mxc.1_Silent_p.T248T	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	607					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					TTCCAGAAACAAAGGCTTTGA	0.473													29	71					0	0	1	0	0		G	148037396	G	G	148037396	2	3	82	1	0	0	0	0	0	0	0	1	357	117	5	3		3	AFF2	23	148037396	Silent	SNP	A	TCGA-BR-8589-01A-11D-2394-08	12549301	148037396	7233164	1241	51697											
MAMLD1	10046	broad.mit.edu	37	chrX	149671655	149671655	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagtccttcctgcccggcAgctcctttgctcatgagctg	4	12	11	14	1	1	2	1	2	0	0	4	2	4	2	4	1	4	4	4	1	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:149671655A>G	uc004fee.1	+	5	2228	c.2152A>G	c.(2152-2154)AGC>GGC	p.S718G	MAMLD1_uc011mxu.1_Intron|MAMLD1_uc011mxv.1_Missense_Mutation_p.S693G|MAMLD1_uc011mxw.1_Missense_Mutation_p.S604G	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	718					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					CCTGCCCGGCAGCTCCTTTGC	0.612													4	66					0	0	1	0	0		G	149671655	G	G	149671655	3	3	82	1	0	0	0	0	1	0	0	0	9226	188	7	3	2170	3	MAMLD1	23	149671655	Missense_Mutation	SNP	A	TCGA-BR-8589-01A-11D-2394-08	1634259	149671655	5598905	1242	51698											
ZNF185	7739	broad.mit.edu	37	chrX	152100279	152100279	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctccagagggacttggcTggtgaggaggctttcagggc	7	8	18	8	0	1	2	1	1	0	1	2	5	2	4	1	6	1	3	1	6	0	2			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:152100279T>A	uc010ntv.1	+	13	1015	c.978T>A	c.(976-978)GCT>GCA	p.A326A	ZNF185_uc011myg.1_Silent_p.A326A|ZNF185_uc011myh.1_Silent_p.A297A|ZNF185_uc011myi.1_Silent_p.A297A|ZNF185_uc011myj.1_Silent_p.A267A|ZNF185_uc011myk.1_Silent_p.A327A|ZNF185_uc004fgw.3_Silent_p.A105A|ZNF185_uc004fgu.2_Intron|ZNF185_uc004fgv.2_Silent_p.A23A	NM_007150	NP_009081	O15231	ZN185_HUMAN	zinc finger protein 185	326						cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGGACTTGGCTGGTGAGGAGG	0.552													10	9					0	0	1	0	0		A	152100279	A	A	152100279	2	1	82	1	0	0	0	0	0	0	0	1	17777	1567	55	5		5	ZNF185	23	152100279	Silent	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2428624	152100279	3170281	1243	51699											
TMLHE	55217	broad.mit.edu	37	chrX	154736703	154736703	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcaaattcctcaggtgccTtttgaagtacctgttctgct	7	16	8	10	0	3	1	2	1	1	0	4	1	4	1	3	1	3	4	3	1	3	6			TCGA-BR-8589-01A-11D-2394-08	TCGA-BR-8589-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bac4806-1772-4b40-b2d1-b55ed1674019	d5ee4fdc-25db-4fe2-b078-0406e217ee5a	g.chrX:154736703T>G	uc004fnn.2	-	6	1017	c.851A>C	c.(850-852)AAG>ACG	p.K284T	TMLHE_uc004fno.2_Missense_Mutation_p.K284T|TMLHE_uc004fnp.3_Missense_Mutation_p.K284T	NM_018196	NP_060666	Q9NVH6	TMLH_HUMAN	trimethyllysine hydroxylase, epsilon	284					carnitine biosynthetic process	mitochondrial matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|trimethyllysine dioxygenase activity			ovary(1)	1	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Succinic acid(DB00139)|Vitamin C(DB00126)	CTCAGGTGCCTTTTGAAGTAC	0.418													11	77					0	0	1	0	0		G	154736703	G	G	154736703	3	3	82	1	0	0	0	0	1	0	0	0	16257	1609	56	5	566	5	TMLHE	23	154736703	Missense_Mutation	SNP	T	TCGA-BR-8589-01A-11D-2394-08	2636424	154736703	533857	1244	51700											
CCDC27	148870	broad.mit.edu	37	chr1	3679856	3679856	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaggaggaaggggacaGggatgaggactcagaggaaa	16	2	20	3	0	1	3	1	1	0	2	1	10	1	10	0	8	0	0	0	8	3	0			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:3679856G>T	uc001akv.2	+	7	1220	c.1139G>T	c.(1138-1140)AGG>ATG	p.R380M		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	380	Glu-rich.			R -> K (in Ref. 1; BAB71462).						skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		gaaggggacagggatgaggac	0.388													4	14					0.00024832	0.000257295	0.009096	1	0		T	3679856	T	T	3679856	3	4	83	1	0	0	0	0	1	0	0	0	2804	1000	35	5	1165	5	CCDC27	1	3679856	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08		3679856	245570765	1	51701											
CELA3A	10136	broad.mit.edu	37	chr1	22336254	22336254	+	Silent	SNP	C	T	T																															gatggtggctggcaggtccaCggtgtgaccagctttgtttc																								rs113856986	byFrequency	TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:22336254C>T	uc001bfl.2	+	7	718	c.699C>T	c.(697-699)CAC>CAT	p.H233H		NM_005747	NP_005738	P09093	CEL3A_HUMAN	elastase 3A, pancreatic preproprotein	233	Peptidase S1.				cholesterol metabolic process|digestion|proteolysis		serine-type endopeptidase activity			haematopoietic_and_lymphoid_tissue(1)	1						GGCAGGTCCACGGTGTGACCA	0.587													4	53					0	0	0.009096	0	0		T	22336254	T	T	22336254	2	4	83	1	0	0	0	0	0	0	0	1	3216	535	19	1		1	CELA3A	1	22336254	Silent	SNP	C	TCGA-BR-8590-01A-11D-2394-08	18656398	22336254	226914367	2	51702	97	2									
CELA3A	10136	broad.mit.edu	37	chr1	22336257	22336257	+	Silent	SNP	T	C	C																															ggtggctggcaggtccacggTgtgaccagctttgtttctgc																								rs111718190	byFrequency	TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:22336257T>C	uc001bfl.2	+	7	721	c.702T>C	c.(700-702)GGT>GGC	p.G234G		NM_005747	NP_005738	P09093	CEL3A_HUMAN	elastase 3A, pancreatic preproprotein	234	Peptidase S1.				cholesterol metabolic process|digestion|proteolysis		serine-type endopeptidase activity			haematopoietic_and_lymphoid_tissue(1)	1						AGGTCCACGGTGTGACCAGCT	0.587													5	52					0	0	0.000602	0	0		C	22336257	C	C	22336257	2	2	83	1	0	0	0	0	0	0	0	1	3216	1683	59	3		3	CELA3A	1	22336257	Silent	SNP	T	TCGA-BR-8590-01A-11D-2394-08	3	22336257	226914364	3	51703	97	2									
ANKRD13C	81573	broad.mit.edu	37	chr1	70790597	70790597	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccatccctgagcatttttCaccttgactggagcattgtg	7	14	8	12	0	1	2	1	2	0	0	3	3	3	3	3	1	2	2	3	1	0	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:70790597C>T	uc001dex.3	-	3	842	c.516G>A	c.(514-516)GTG>GTA	p.V172V	ANKRD13C_uc009wbk.2_Intron	NM_030816	NP_110443	Q8N6S4	AN13C_HUMAN	ankyrin repeat domain 13C	172	ANK 2.				protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0						GAGCATTTTTCACCTTGACTG	0.373													4	62					0	0	0.001168	0	0		T	70790597	T	T	70790597	2	4	83	1	0	0	0	0	0	0	0	1	643	813	29	4		4	ANKRD13C	1	70790597	Silent	SNP	C	TCGA-BR-8590-01A-11D-2394-08	48454340	70790597	178460024	4	51704											
AMPD1	270	broad.mit.edu	37	chr1	115218607	115218607	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaatgtggaaggaaattcTtggaacggaacacatcacta	17	8	9	7	1	2	0	1	0	1	0	2	4	2	4	0	4	2	0	0	4	7	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:115218607T>G	uc001efe.1	-	11	1490	c.1406A>C	c.(1405-1407)AAG>ACG	p.K469T	AMPD1_uc001eff.1_Missense_Mutation_p.K465T	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	469					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	AAGGAAATTCTTGGAACGGAA	0.433													10	92					0	0	0.008291	0	0		G	115218607	G	G	115218607	3	3	83	1	0	0	0	0	1	0	0	0	585	1609	56	5	861	5	AMPD1	1	115218607	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	44428010	115218607	134032014	5	51705											
PPIAL4G	644591	broad.mit.edu	37	chr1	143767596	143767596	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcggatgaggttctcatCatcaaatttctccccataga	10	14	6	11	1	4	2	3	1	2	1	7	3	4	3	2	2	0	1	2	2	2	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:143767596C>A	uc001ejt.2	-	1	286	c.253G>T	c.(253-255)GAT>TAT	p.D85Y		NM_001123068	NP_001116540	A2BFH1	PAL4G_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	85	PPIase cyclophilin-type.				protein folding	cytoplasm	peptidyl-prolyl cis-trans isomerase activity				0						AGGTTCTCATCATCAAATTTC	0.468													10	202					2.27111e-07	2.4113e-07	0.013537	1	0		A	143767596	A	A	143767596	3	1	83	1	0	0	0	0	1	0	0	0	12340	826	29	5	245	5	PPIAL4G	1	143767596	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	28548989	143767596	105483025	6	51706											
ETV3L	440695	broad.mit.edu	37	chr1	157069034	157069034	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccttgatgacaaattccccGtactctccctgctgccaggc	7	11	7	16	1	1	2	0	2	1	0	4	2	3	2	5	1	3	2	5	1	2	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:157069034G>A	uc001fqq.1	-	2	480	c.195C>T	c.(193-195)TAC>TAT	p.Y65Y		NM_001004341	NP_001004341	Q6ZN32	ETV3L_HUMAN	ets variant 3-like	65	ETS.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Hepatocellular(266;0.158)	Prostate(1639;0.184)				CAAATTCCCCGTACTCTCCCT	0.592													6	62					0	0	0.001168	0	0		A	157069034	A	A	157069034	2	1	83	1	0	0	0	0	0	0	0	1	5288	1140	40	1		1	ETV3L	1	157069034	Silent	SNP	G	TCGA-BR-8590-01A-11D-2394-08	13301438	157069034	92181587	7	51707											
OR6K3	391114	broad.mit.edu	37	chr1	158687659	158687659	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcactgatgaggttggAgagcatcttgggaatggtgg	8	13	15	5	0	2	3	1	2	1	1	2	5	2	4	0	5	1	2	0	5	1	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:158687659A>G	uc010pip.1	-	1	295	c.295T>C	c.(295-297)TCC>CCC	p.S99P		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	99	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					ATGAGGTTGGAGAGCATCTTG	0.453													9	181					0	0	0.006214	0	0		G	158687659	G	G	158687659	3	3	83	1	0	0	0	0	1	0	0	0	11222	304	11	3	702	3	OR6K3	1	158687659	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	1618625	158687659	90562962	8	51708											
CRP	1401	broad.mit.edu	37	chr1	159683371	159683371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgcacttcatacttcagtgCccgccagttcaggacattag	9	12	8	12	1	3	0	3	0	0	0	3	1	3	1	2	1	3	2	2	1	2	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:159683371C>T	uc001ftw.2	-	2	723	c.619G>A	c.(619-621)GCA>ACA	p.A207T	CRP_uc001ftx.1_Missense_Mutation_p.A74T|CRP_uc001fty.1_RNA	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	207	Pentaxin.				acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	TACTTCAGTGCCCGCCAGTTC	0.527													13	111					0	0	0.013537	0	0		T	159683371	T	T	159683371	3	4	83	1	0	0	0	0	1	0	0	0	3898	739	26	2	59	2	CRP	1	159683371	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	995712	159683371	89567250	9	51709											
CRP	1401	broad.mit.edu	37	chr1	159683427	159683427	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagatagatggtgttaatcTcatctggtgacagcacaaag	14	10	10	7	0	2	3	1	1	2	2	3	3	2	3	0	2	1	2	0	2	4	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:159683427T>C	uc001ftw.2	-	2	667	c.563A>G	c.(562-564)GAG>GGG	p.E188G	CRP_uc001ftx.1_Intron|CRP_uc001fty.1_RNA	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	188	Pentaxin.				acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	GGTGTTAATCTCATCTGGTGA	0.517													15	181					0	0	0.003163	0	0		C	159683427	C	C	159683427	3	2	83	1	0	0	0	0	1	0	0	0	3898	1551	54	3	115	3	CRP	1	159683427	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	56	159683427	89567194	10	51710											
VANGL2	57216	broad.mit.edu	37	chr1	160385857	160385857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcctgccgcagggaccGccgggaccgacaccgctcta	6	5	13	17	5	1	0	0	0	1	0	2	3	2	2	6	3	1	3	6	3	1	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:160385857G>A	uc001fwb.1	+	4	376	c.77G>A	c.(76-78)CGC>CAC	p.R26H	VANGL2_uc001fwc.1_Missense_Mutation_p.R26H	NM_020335	NP_065068	Q9ULK5	VANG2_HUMAN	vang-like 2	26	Cytoplasmic (Potential).				apical protein localization|heart looping|nonmotile primary cilium assembly	apical plasma membrane|integral to membrane				ovary(1)	1	all_cancers(52;1.08e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CGCAGGGACCGCCGGGACCGA	0.637													5	44					0	0	0.000602	0	0		A	160385857	A	A	160385857	3	1	83	1	0	0	0	0	1	0	0	0	17146	1087	38	1	83	1	VANGL2	1	160385857	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	702430	160385857	88864764	11	51711											
TNNI1	7135	broad.mit.edu	37	chr1	201380567	201380567	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggagcccagcagggccCggagcatggcgtcagccgag	7	4	17	13	3	1	0	1	0	0	0	1	3	1	2	3	4	4	3	3	4	0	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:201380567C>G	uc010ppq.1	-	7	467	c.374G>C	c.(373-375)CGG>CCG	p.R125P	TNNI1_uc001gwo.1_RNA|TNNI1_uc001gwp.2_Missense_Mutation_p.R104P	NM_003281	NP_003272	P19237	TNNI1_HUMAN	troponin I, skeletal, slow	125					muscle filament sliding|regulation of striated muscle contraction	cytosol|troponin complex	actin binding|tropomyosin binding				0						CAGCAGGGCCCGGAGCATGGC	0.592													6	33					0	0	0.001168	0	0		G	201380567	G	G	201380567	3	3	83	1	0	0	0	0	1	0	0	0	16351	652	23	5	197	5	TNNI1	1	201380567	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	40994710	201380567	47870054	12	51712											
GREM2	64388	broad.mit.edu	37	chr1	240656388	240656388	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgagctccacgaggacggAggtgacgcgctggggcttgc	6	6	17	12	5	0	1	0	1	0	0	2	5	1	3	1	5	2	3	1	5	0	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:240656388A>C	uc001hys.2	-	2	668	c.388T>G	c.(388-390)TCC>GCC	p.S130A		NM_022469	NP_071914	Q9H772	GREM2_HUMAN	gremlin 2 precursor	130	CTCK.				BMP signaling pathway	extracellular space	cytokine activity				0		all_cancers(173;0.0196)	OV - Ovarian serous cystadenocarcinoma(106;0.0123)			ACGAGGACGGAGGTGACGCGC	0.622													6	105					0	0	0.001984	0	0		C	240656388	C	C	240656388	3	2	83	1	0	0	0	0	1	0	0	0	6778	304	11	5	122	5	GREM2	1	240656388	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	39275821	240656388	8594233	13	51713											
OR2M2	391194	broad.mit.edu	37	chr1	248344005	248344005	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgttgcaaagctttcacgAcctgttcctctcacctcatg	7	13	7	14	2	3	0	3	0	1	0	6	1	4	0	3	0	2	4	3	0	1	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:248344005A>T	uc010pzf.1	+	1	718	c.718A>T	c.(718-720)ACC>TCC	p.T240S		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	240	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AGCTTTCACGACCTGTTCCTC	0.488													22	253					0	0	0.012319	0	0		T	248344005	T	T	248344005	3	4	83	1	0	0	0	0	1	0	0	0	11029	275	10	5	720	5	OR2M2	1	248344005	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	7687617	248344005	906616	14	51714											
OR2M4	26245	broad.mit.edu	37	chr1	248402877	248402877	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagtttcagttatcatacTttcctattcccatgtccttc	7	18	3	13	0	2	0	2	0	0	0	7	0	6	0	4	0	1	2	4	0	3	7			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr1:248402877T>G	uc010pzh.1	+	1	647	c.647T>G	c.(646-648)CTT>CGT	p.L216R		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	216	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GTTATCATACTTTCCTATTCC	0.478													8	77					0	0	0.00308	0	0		G	248402877	G	G	248402877	3	3	83	1	0	0	0	0	1	0	0	0	11031	1609	56	5	649	5	OR2M4	1	248402877	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	58872	248402877	847744	15	51715											
KCNF1	3754	broad.mit.edu	37	chr2	11053508	11053508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcacctatgccctcaagcGcagcttcaaggaactggggc	9	7	10	15	1	3	0	3	0	0	0	3	1	3	1	3	3	4	2	3	3	4	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr2:11053508G>A	uc002rax.2	+	1	1446	c.956G>A	c.(955-957)CGC>CAC	p.R319H		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	319	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		GCCCTCAAGCGCAGCTTCAAG	0.632													5	54					0	0	0.001168	0	0		A	11053508	A	A	11053508	3	1	83	1	0	0	0	0	1	0	0	0	8042	1087	38	1	958	1	KCNF1	2	11053508	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08		11053508	232145865	16	51716											
VRK2	7444	broad.mit.edu	37	chr2	58386561	58386561	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacagtttcccacaaaaaatCagctatacacaattcccaaa	19	8	2	12	0	1	0	1	0	0	0	3	0	3	0	2	0	3	2	2	0	8	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr2:58386561C>T	uc002rzo.2	+	16	2005	c.1260C>T	c.(1258-1260)ATC>ATT	p.I420I	VRK2_uc010fcb.2_3'UTR|VRK2_uc002rzs.2_3'UTR|VRK2_uc002rzr.2_3'UTR|VRK2_uc010fcc.2_Silent_p.I302I|VRK2_uc002rzv.2_Silent_p.I420I|VRK2_uc010fcd.2_Silent_p.I397I|VRK2_uc002rzp.2_Silent_p.I420I|VRK2_uc010ypg.1_Silent_p.I420I|VRK2_uc002rzq.2_3'UTR|VRK2_uc002rzu.2_3'UTR|VRK2_uc002rzt.2_Silent_p.I302I|FANCL_uc002rzw.3_3'UTR|FANCL_uc002rzx.3_3'UTR|FANCL_uc010fce.2_3'UTR	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	420						integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						CACAAAAAATCAGCTATACAC	0.333													4	70					0	0	0.009096	0	0		T	58386561	T	T	58386561	2	4	83	1	0	0	0	0	0	0	0	1	17246	816	29	4		4	VRK2	2	58386561	Silent	SNP	C	TCGA-BR-8590-01A-11D-2394-08	47333053	58386561	184812812	17	51717											
LRP1B	53353	broad.mit.edu	37	chr2	141115573	141115573	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcatccttgctcatctgaAccatctccgcagtcatcaag	9	11	6	15	1	5	1	3	1	2	0	7	1	6	1	3	0	3	3	3	0	2	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr2:141115573A>C	uc002tvj.1	-	74	12342	c.11370T>G	c.(11368-11370)GGT>GGG	p.G3790G		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3790	Extracellular (Potential).|LDL-receptor class A 32.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GCTCATCTGAACCATCTCCGC	0.408										TSP Lung(27;0.18)			6	92					0	0	0.001168	0	0		C	141115573	C	C	141115573	2	2	83	1	0	0	0	0	0	0	0	1	8973	30	2	5		5	LRP1B	2	141115573	Silent	SNP	A	TCGA-BR-8590-01A-11D-2394-08	82729012	141115573	102083800	18	51718											
LRP1B	53353	broad.mit.edu	37	chr2	141946115	141946115	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatggtccacaaaatagagAtttcgagtgagccagtcaat	15	9	9	8	1	1	2	1	1	0	1	3	4	2	2	2	1	1	0	2	1	4	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr2:141946115A>G	uc002tvj.1	-	7	1860	c.888T>C	c.(886-888)AAT>AAC	p.N296N	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	296	Extracellular (Potential).|LDL-receptor class B 2.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CAAAATAGAGATTTCGAGTGA	0.408										TSP Lung(27;0.18)			4	50					0	0	0.009096	0	0		G	141946115	G	G	141946115	2	3	83	1	0	0	0	0	0	0	0	1	8973	330	12	3		3	LRP1B	2	141946115	Silent	SNP	A	TCGA-BR-8590-01A-11D-2394-08	830542	141946115	101253258	19	51719											
OSBPL6	114880	broad.mit.edu	37	chr2	179260240	179260240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgacacctactgggagcttcGaaaggaccctgggtttagca	10	8	12	11	2	0	0	0	0	0	0	1	4	0	2	2	3	3	3	2	3	3	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr2:179260240G>A	uc002ulx.2	+	25	3137	c.2759G>A	c.(2758-2760)CGA>CAA	p.R920Q	OSBPL6_uc002uly.2_Missense_Mutation_p.R945Q|OSBPL6_uc010zfe.1_Missense_Mutation_p.R889Q|OSBPL6_uc002ulz.2_Missense_Mutation_p.R884Q|OSBPL6_uc002uma.2_Missense_Mutation_p.R924Q	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	920					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			TGGGAGCTTCGAAAGGACCCT	0.393													10	70					0	0	0.010729	0	0		A	179260240	A	A	179260240	3	1	83	1	0	0	0	0	1	0	0	0	11300	1058	37	1	2971	1	OSBPL6	2	179260240	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	37314125	179260240	63939133	20	51720											
TTN	7273	broad.mit.edu	37	chr2	179423358	179423359	+	Missense_Mutation	DNP	GG	TT	TT																															caagtttttcaggtgggcttGgtttttctaagaaaacaaag																										TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr2:179423358_179423359GG>TT	uc010zfg.1	-	276	79347_79348	c.79123_79124CC>AA	c.(79123-79125)CCA>AAA	p.P26375K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P20070K|TTN_uc010zfi.1_Missense_Mutation_p.P20003K|TTN_uc010zfj.1_Missense_Mutation_p.P19878K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27302							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGGTGGGCTTGGTTTTTCTAAG	0.361													3	24					0	0	0.004672	0	0		TT	179423359	TT	TT	179423358	3	4	83	1	0	0	0	0	1	0	0	0	16761	1348	47	5	21295	5	TTN	2	179423358	Missense_Mutation	DNP	GG	TCGA-BR-8590-01A-11D-2394-08	163118	179423358	63776015	21	51721											
ERBB4	2066	broad.mit.edu	37	chr2	212251754	212251754	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattacagcaggagtcatcaAaaatctcagcagtagcaccc	15	7	7	12	0	3	0	3	0	1	0	4	1	3	1	1	1	4	4	1	1	4	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr2:212251754A>C	uc002veg.1	-	27	3403	c.3305T>G	c.(3304-3306)TTT>TGT	p.F1102C	ERBB4_uc002veh.1_Missense_Mutation_p.F1086C|ERBB4_uc010zji.1_Missense_Mutation_p.F1092C|ERBB4_uc010zjj.1_Missense_Mutation_p.F1076C	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1102	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		GGAGTCATCAAAAATCTCAGC	0.547										TSP Lung(8;0.080)			10	106					0	0	0.008291	0	0		C	212251754	C	C	212251754	3	2	83	1	0	0	0	0	1	0	0	0	5217	14	1	5	629	5	ERBB4	2	212251754	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	32828396	212251754	30947619	22	51722											
CNTN6	27255	broad.mit.edu	37	chr3	1337371	1337371	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatctcaagagacgggaaacTtgtacattgccaaagtggaa	15	9	10	7	1	1	1	1	0	1	1	2	4	1	3	1	2	3	1	1	2	6	4	rs150338565	byFrequency	TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr3:1337371T>G	uc003boz.2	+	6	808	c.541T>G	c.(541-543)TTG>GTG	p.L181V	CNTN6_uc010hbo.2_Missense_Mutation_p.L176V|CNTN6_uc011asj.1_Missense_Mutation_p.L109V|CNTN6_uc003bpa.2_Missense_Mutation_p.L181V	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	181	Ig-like C2-type 2.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		GACGGGAAACTTGTACATTGC	0.418													6	51					0	0	0.001984	0	0		G	1337371	G	G	1337371	3	3	83	1	0	0	0	0	1	0	0	0	3648	1606	56	5	559	5	CNTN6	3	1337371	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08		1337371	196685059	23	51723											
ZNF385D	79750	broad.mit.edu	37	chr3	21552487	21552487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcttcttggcatgtttcGtgcctttgtagtgggccgca	4	15	13	9	2	1	1	0	1	1	0	2	1	1	1	2	2	2	5	2	2	1	5			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr3:21552487G>A	uc003cce.2	-	4	713	c.305C>T	c.(304-306)ACG>ATG	p.T102M	ZNF385D_uc010hfb.1_RNA	NM_024697	NP_078973	Q9H6B1	Z385D_HUMAN	zinc finger protein 385D	102	Matrin-type 1.					nucleus	nucleic acid binding|zinc ion binding	p.T102T(1)		large_intestine(2)|skin(2)|ovary(1)	5						GGCATGTTTCGTGCCTTTGTA	0.453													6	63					0	0	0.001168	0	0		A	21552487	A	A	21552487	3	1	83	1	0	0	0	0	1	0	0	0	17903	1145	40	1	902	1	ZNF385D	3	21552487	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	20215116	21552487	176469943	24	51724											
SCN10A	6336	broad.mit.edu	37	chr3	38768457	38768457	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtgccagggccacctgcagGttgttcacctccccatcgtc	5	9	10	17	2	1	0	1	0	0	0	4	0	2	0	6	2	2	3	6	2	0	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr3:38768457G>C	uc003ciq.2	-	16	2727	c.2727C>G	c.(2725-2727)AAC>AAG	p.N909K		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	909					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CCACCTGCAGGTTGTTCACCT	0.567													12	147					0	0	0.013537	0	0		C	38768457	C	C	38768457	3	2	83	1	0	0	0	0	1	0	0	0	13937	1252	44	5	3191	5	SCN10A	3	38768457	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	17215970	38768457	159253973	25	51725											
ANO10	55129	broad.mit.edu	37	chr3	43642035	43642035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attttctagtgtttcttgttCatatttatttaacaatggtc	9	22	5	5	0	3	0	1	0	2	0	4	0	3	0	0	1	1	2	0	1	5	11			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr3:43642035C>T	uc003cmv.2	-	3	349	c.178G>A	c.(178-180)GAA>AAA	p.E60K	ANO10_uc011azs.1_Missense_Mutation_p.E60K|ANO10_uc003cmw.2_Intron|ANO10_uc010hil.2_Missense_Mutation_p.E60K|ANO10_uc011azt.1_Intron	NM_018075	NP_060545	Q9NW15	ANO10_HUMAN	transmembrane protein 16K	60	Cytoplasmic (Potential).				cell death	chloride channel complex	chloride channel activity			ovary(2)	2						GTTTCTTGTTCATATTTATTT	0.333													5	87					0	0	0.000602	0	0		T	43642035	T	T	43642035	3	4	83	1	0	0	0	0	1	0	0	0	696	835	29	4	1848	4	ANO10	3	43642035	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	4873578	43642035	154380395	26	51726											
SACM1L	22908	broad.mit.edu	37	chr3	45744976	45744976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaagcttgtgatgatggaGcagatgacgtacttaccatt	11	12	12	6	1	0	4	0	3	0	1	0	6	0	6	1	2	4	3	1	2	3	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr3:45744976G>A	uc003cos.2	+	2	283	c.79G>A	c.(79-81)GCA>ACA	p.A27T	SACM1L_uc011bag.1_5'UTR|SACM1L_uc011bah.1_Silent_p.E3E	NM_014016	NP_054735	Q9NTJ5	SAC1_HUMAN	suppressor of actin 1	27						Golgi apparatus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0102)|KIRC - Kidney renal clear cell carcinoma(197;0.0234)|Kidney(197;0.0277)		TGATGATGGAGCAGATGACGT	0.353													6	74					0	0	0.001984	0	0		A	45744976	A	A	45744976	3	1	83	1	0	0	0	0	1	0	0	0	13828	971	34	2	85	2	SACM1L	3	45744976	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	2102941	45744976	152277454	27	51727											
STAB1	23166	broad.mit.edu	37	chr3	52556627	52556627	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggcccttatggtctgaacTtttcggaggctgaggcggca	6	10	15	10	3	1	2	0	2	1	0	2	3	1	3	1	6	1	2	1	6	2	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr3:52556627T>G	uc003dej.2	+	61	6741	c.6667T>G	c.(6667-6669)TTT>GTT	p.F2223V	STAB1_uc003dek.1_Missense_Mutation_p.F238V|STAB1_uc003del.2_Missense_Mutation_p.F110V	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2223	Extracellular (Potential).|Link.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		TGGTCTGAACTTTTCGGAGGC	0.622													16	99					0	0	0.003163	0	0		G	52556627	G	G	52556627	3	3	83	1	0	0	0	0	1	0	0	0	15262	1609	56	5	6909	5	STAB1	3	52556627	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	6811651	52556627	145465803	28	51728											
HESX1	8820	broad.mit.edu	37	chr3	57232457	57232457	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagattcaatttttgagctaAgtcttctctaatatcgatac	12	17	5	7	1	3	2	1	1	2	1	5	3	3	2	0	0	2	1	0	0	6	9			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr3:57232457A>T	uc003din.3	-	3	755	c.421T>A	c.(421-423)TTA>ATA	p.L141I		NM_003865	NP_003856	Q9UBX0	HESX1_HUMAN	HESX homeobox 1	141	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0109)|Kidney(284;0.0126)		TTTTGAGCTAAGTCTTCTCTA	0.279													5	39					0	0	0.001984	0	0		T	57232457	T	T	57232457	3	4	83	1	0	0	0	0	1	0	0	0	7088	69	3	5	144	5	HESX1	3	57232457	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	4675830	57232457	140789973	29	51729											
SLCO2A1	6578	broad.mit.edu	37	chr3	133661595	133661595	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggatcccccggtcacacaGctgcagttcaaatagatctt	10	9	9	13	2	3	1	2	0	1	1	4	2	4	2	2	2	2	3	2	2	2	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr3:133661595G>A	uc003eqa.3	-	11	1753	c.1479C>T	c.(1477-1479)AGC>AGT	p.S493S	SLCO2A1_uc003eqb.3_Silent_p.S417S|SLCO2A1_uc011blv.1_Silent_p.S312S	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	493	Extracellular (Potential).|Kazal-like.				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						CGGTCACACAGCTGCAGTTCA	0.527													6	67					0	0	0.00308	0	0		A	133661595	A	A	133661595	2	1	83	1	0	0	0	0	0	0	0	1	14751	962	34	2		2	SLCO2A1	3	133661595	Silent	SNP	G	TCGA-BR-8590-01A-11D-2394-08	76429138	133661595	64360835	30	51730											
HRG	3273	broad.mit.edu	37	chr3	186383975	186383975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaccttttccaattgctgcGgattgctgatgcccacttgg	6	14	9	12	1	0	1	0	1	0	0	1	2	1	2	3	2	5	2	3	2	2	6	rs115116898	byFrequency	TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr3:186383975G>A	uc003fqq.2	+	1	178	c.155G>A	c.(154-156)CGG>CAG	p.R52Q		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	52	Cystatin 1.|Interaction with ATP5A1.				fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		CAATTGCTGCGGATTGCTGAT	0.537													5	102					0	0	0.000602	0	0		A	186383975	A	A	186383975	3	1	83	1	0	0	0	0	1	0	0	0	7370	1116	39	1	157	1	HRG	3	186383975	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	52722380	186383975	11638455	31	51731											
ATP13A5	344905	broad.mit.edu	37	chr3	193002808	193002808	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgtggtggtctcaaaacTtaaaattgaaccaggaatca	15	10	9	7	0	2	1	2	1	1	0	3	2	2	2	1	3	2	0	1	3	6	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr3:193002808T>C	uc011bsq.1	-	27	3121	c.3121A>G	c.(3121-3123)AGT>GGT	p.S1041G		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	1041					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		GTCTCAAAACTTAAAATTGAA	0.393													7	57					0	0	0.001984	0	0		C	193002808	C	C	193002808	3	2	83	1	0	0	0	0	1	0	0	0	1128	1609	56	3	549	3	ATP13A5	3	193002808	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	6618833	193002808	5019622	32	51732											
SH3TC1	54436	broad.mit.edu	37	chr4	8218729	8218729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccatgtgagagtgatgaCgggtccccgggatgcaggaa	10	6	15	10	2	0	3	0	3	0	1	1	6	1	5	4	3	1	1	4	3	1	0			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr4:8218729C>T	uc003gkv.3	+	7	775	c.674C>T	c.(673-675)ACG>ATG	p.T225M	SH3TC1_uc003gkw.3_Missense_Mutation_p.T149M|SH3TC1_uc003gkx.3_Intron	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	225							binding			large_intestine(2)|pancreas(1)	3						AGAGTGATGACGGGTCCCCGG	0.657													9	64					0	0	0.006214	0	0		T	8218729	T	T	8218729	3	4	83	1	0	0	0	0	1	0	0	0	14286	536	19	1	696	1	SH3TC1	4	8218729	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08		8218729	182935547	33	51733											
WDR19	57728	broad.mit.edu	37	chr4	39216265	39216265	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttaaaagacatgtatgttaTactcaacctggatgaggaaa	16	11	8	6	0	1	2	1	1	0	1	1	4	1	4	1	2	2	2	1	2	7	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr4:39216265T>C	uc003gtv.2	+	10	1089	c.935T>C	c.(934-936)ATA>ACA	p.I312T	WDR19_uc010ifl.1_Missense_Mutation_p.I129T|WDR19_uc003gtu.1_Missense_Mutation_p.I312T|WDR19_uc011byi.1_Missense_Mutation_p.I152T|WDR19_uc003gtw.1_5'Flank	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19	312					cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1						ATGTATGTTATACTCAACCTG	0.284													3	23					0	0	0.009096	0	0		C	39216265	C	C	39216265	3	2	83	1	0	0	0	0	1	0	0	0	17305	1406	49	3	973	3	WDR19	4	39216265	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	30997536	39216265	151938011	34	51734											
GRXCR1	389207	broad.mit.edu	37	chr4	42895515	42895515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgagaatgagaatgaccagGatagcttgctggtgttagca	13	10	13	5	0	0	3	0	3	0	2	0	6	0	4	1	2	3	4	1	2	4	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr4:42895515G>A	uc003gwt.2	+	1	232	c.232G>A	c.(232-234)GAT>AAT	p.D78N		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	78					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						GAATGACCAGGATAGCTTGCT	0.458													20	142					0	0	0.008871	0	0		A	42895515	A	A	42895515	3	1	83	1	0	0	0	0	1	0	0	0	6828	1174	41	4	234	4	GRXCR1	4	42895515	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	3679250	42895515	148258761	35	51735											
NDST3	9348	broad.mit.edu	37	chr4	118975769	118975769	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcctatcaaccagtaatatTtgccaaagtaaagaccccag	16	8	6	11	0	1	1	1	0	0	1	1	1	1	1	5	0	3	2	5	0	7	5			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr4:118975769T>G	uc003ibx.2	+	2	1107	c.704T>G	c.(703-705)TTT>TGT	p.F235C	NDST3_uc011cgf.1_Missense_Mutation_p.F235C|NDST3_uc003ibw.2_Missense_Mutation_p.F235C	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	235	Lumenal (Potential).|Heparan sulfate N-deacetylase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						CCAGTAATATTTGCCAAAGTA	0.388													11	106					0	0	0.013537	0	0		G	118975769	G	G	118975769	3	3	83	1	0	0	0	0	1	0	0	0	10276	1841	64	5	706	5	NDST3	4	118975769	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	76080254	118975769	72178507	36	51736											
FAT4	79633	broad.mit.edu	37	chr4	126411185	126411185	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctgccgtggcccgaacaTttgtgccagcaacccctgct	6	9	11	15	2	0	0	0	0	0	0	0	1	0	0	5	2	6	3	5	2	2	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr4:126411185T>C	uc003ifj.3	+	17	13208	c.13208T>C	c.(13207-13209)ATT>ACT	p.I4403T	FAT4_uc011cgp.1_Missense_Mutation_p.I2644T|FAT4_uc003ifi.1_Missense_Mutation_p.I1880T	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4403	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GGCCCGAACATTTGTGCCAGC	0.552													26	235					0	0	0.004656	0	0		C	126411185	C	C	126411185	3	2	83	1	0	0	0	0	1	0	0	0	5706	1493	52	3	13274	3	FAT4	4	126411185	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	7435416	126411185	64743091	37	51737											
DCHS2	54798	broad.mit.edu	37	chr4	155253742	155253742	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attttgcctattaccccttgGggaacagggctctcttcgac	7	13	9	12	1	1	0	0	0	1	0	3	2	1	1	3	3	3	1	3	3	3	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr4:155253742G>A	uc003inw.2	-	9	2121	c.2121C>T	c.(2119-2121)CCC>CCT	p.P707P	DCHS2_uc003inx.2_Silent_p.P1206P	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	707	Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TTACCCCTTGGGGAACAGGGC	0.413													10	127					0	0	0.010729	0	0		A	155253742	A	A	155253742	2	1	83	1	0	0	0	0	0	0	0	1	4291	1219	43	4		4	DCHS2	4	155253742	Silent	SNP	G	TCGA-BR-8590-01A-11D-2394-08	28842557	155253742	35900534	38	51738											
C4orf43	55319	broad.mit.edu	37	chr4	164440523	164440523	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagaaattaccaaacattAaaatgagaaaaatttgcgct	20	10	6	5	1	0	3	0	2	0	2	0	4	0	3	1	0	3	1	1	0	8	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr4:164440523A>C	uc003iqq.3	+	7	750	c.469A>C	c.(469-471)AAA>CAA	p.K157Q		NM_018352	NP_060822	Q96EY4	CD043_HUMAN	hypothetical protein LOC55319	157											0						ACCAAACATTAAAATGAGAAA	0.353													4	18					0	0	0.009096	0	0		C	164440523	C	C	164440523	3	2	83	1	0	0	0	0	1	0	0	0	2274	363	13	5	495	5	C4orf43	4	164440523	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	9186781	164440523	26713753	39	51739											
AGXT2	64902	broad.mit.edu	37	chr5	35010216	35010216	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaacatgtaggtcccaacTtcttgactgttttcctgtag	9	15	8	9	0	1	1	0	1	1	0	3	1	3	1	2	1	2	4	2	1	4	7			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:35010216T>C	uc003jjf.2	-	12	1306	c.1227A>G	c.(1225-1227)GAA>GAG	p.E409E	AGXT2_uc003jje.1_Silent_p.E62E|AGXT2_uc011com.1_Silent_p.E334E	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	409					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	AGGTCCCAACTTCTTGACTGT	0.403													7	103					0	0	0.001984	0	0		C	35010216	C	C	35010216	2	2	83	1	0	0	0	0	0	0	0	1	405	1606	56	3		3	AGXT2	5	35010216	Silent	SNP	T	TCGA-BR-8590-01A-11D-2394-08		35010216	145905044	40	51740											
NIPBL	25836	broad.mit.edu	37	chr5	36955688	36955688	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggcttgtagggatgacaAtttggtttcacagcttgtcc	7	16	11	7	0	1	1	1	1	0	0	2	2	2	2	1	3	1	4	1	3	2	6	rs142703446	byFrequency	TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:36955688A>G	uc003jkl.3	+	3	678	c.179A>G	c.(178-180)AAT>AGT	p.N60S	NIPBL_uc003jkk.3_Missense_Mutation_p.N60S	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	60					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			AGGGATGACAATTTGGTTTCA	0.398													18	71					0	0	0.006122	0	0		G	36955688	G	G	36955688	3	3	83	1	0	0	0	0	1	0	0	0	10447	101	4	3	185	3	NIPBL	5	36955688	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	1945472	36955688	143959572	41	51741											
LIFR	3977	broad.mit.edu	37	chr5	38527391	38527391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctccaactgataacaagaaCgggacctgtaataagaaatt	17	9	7	8	1	1	3	0	1	1	2	2	4	1	4	2	1	3	1	2	1	7	4	rs61751711	byFrequency	TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:38527391C>T	uc010ive.1	-	4	595	c.263G>A	c.(262-264)CGT>CAT	p.R88H	LIFR_uc003jli.2_Missense_Mutation_p.R88H	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	88	Extracellular (Potential).|Fibronectin type-III 1.				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					ATAACAAGAACGGGACCTGTA	0.244			T	PLAG1	salivary adenoma								7	32					0	0	0.001984	0	0		T	38527391	T	T	38527391	3	4	83	1	0	0	0	0	1	0	0	0	8796	536	19	1	3098	1	LIFR	5	38527391	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	1571703	38527391	142387869	42	51742											
BDP1	55814	broad.mit.edu	37	chr5	70818194	70818194	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctaagccaaatttgggAagagcacacagtaagaaaga	19	5	11	6	0	0	3	0	0	0	3	0	4	0	4	1	2	2	3	1	2	6	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:70818194A>C	uc003kbp.1	+	23	5333	c.5070A>C	c.(5068-5070)GGA>GGC	p.G1690G	BDP1_uc003kbo.2_Silent_p.G1690G|BDP1_uc003kbq.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1690					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		CAAATTTGGGAAGAGCACACA	0.393													12	140					0	0	0.010729	0	0		C	70818194	C	C	70818194	2	2	83	1	0	0	0	0	0	0	0	1	1396	233	9	5		5	BDP1	5	70818194	Silent	SNP	A	TCGA-BR-8590-01A-11D-2394-08	32290803	70818194	110097066	43	51743											
FOXD1	2297	broad.mit.edu	37	chr5	72743802	72743802	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tagtgatgagcgcgatatacGagtagggcggcttcaccagc	10	8	14	9	4	1	2	1	2	0	0	1	4	1	2	1	2	3	2	1	2	4	5			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:72743802G>C	uc003kcp.2	-	1	551	c.386C>G	c.(385-387)TCG>TGG	p.S129W		NM_004472	NP_004463	Q16676	FOXD1_HUMAN	forkhead box D1	129	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|metanephric capsule specification|negative regulation of transcription, DNA-dependent|neural crest cell migration|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		Lung NSC(167;0.00327)|Ovarian(174;0.0175)|Prostate(461;0.151)		OV - Ovarian serous cystadenocarcinoma(47;1.07e-54)		CGCGATATACGAGTAGGGCGG	0.458													3	28					0	0	0.004672	0	0		C	72743802	C	C	72743802	3	2	83	1	0	0	0	0	1	0	0	0	6010	1059	37	5	1013	5	FOXD1	5	72743802	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	1925608	72743802	108171458	44	51744											
TIFAB	497189	broad.mit.edu	37	chr5	134785284	134785284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggatgtgccttcttctaCgcgaaccagcatctggatgc	8	10	11	12	2	3	0	0	0	3	0	3	3	3	2	2	2	5	1	2	2	2	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:134785284C>T	uc003law.3	-	2	547	c.346G>A	c.(346-348)GTA>ATA	p.V116I	C5orf20_uc003lav.2_5'Flank	NM_001099221	NP_001092691	Q6ZNK6	TIFAB_HUMAN	TIFA-related protein TIFAB	116											0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CCTTCTTCTACGCGAACCAGC	0.557													9	122					0	0	0.004482	0	0		T	134785284	T	T	134785284	3	4	83	1	0	0	0	0	1	0	0	0	15920	536	19	1	143	1	TIFAB	5	134785284	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	62041482	134785284	46129976	45	51745											
PCDHA8	56140	broad.mit.edu	37	chr5	140221669	140221669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtaagaatattcgaaaacGcagacaacggaacaacagtt	20	6	8	7	3	0	2	0	0	0	2	1	4	0	3	0	1	4	3	0	1	9	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:140221669G>A	uc003lhs.2	+	1	763	c.763G>A	c.(763-765)GCA>ACA	p.A255T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.A255T	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	255	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTCGAAAACGCAGACAACGG	0.423													6	71					0	0	0.001168	0	0		A	140221669	A	A	140221669	3	1	83	1	0	0	0	0	1	0	0	0	11549	1087	38	1	765	1	PCDHA8	5	140221669	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	5436385	140221669	40693591	46	51746											
PCDHA10	56139	broad.mit.edu	37	chr5	140236731	140236731	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgctcaagtgggcacCgtcattgccctaatcagcgt	10	9	11	11	2	3	1	3	0	0	1	3	2	3	1	2	1	3	2	2	1	3	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:140236731C>T	uc003lhx.2	+	1	1098	c.1098C>T	c.(1096-1098)ACC>ACT	p.T366T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Silent_p.T366T|PCDHA10_uc011dad.1_Silent_p.T366T	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	366	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGTGGGCACCGTCATTGCCC	0.512													13	138					0	0	0.00245	0	0		T	140236731	T	T	140236731	2	4	83	1	0	0	0	0	0	0	0	1	11539	639	23	1		1	PCDHA10	5	140236731	Silent	SNP	C	TCGA-BR-8590-01A-11D-2394-08	15062	140236731	40678529	47	51747											
PCDHB1	29930	broad.mit.edu	37	chr5	140431954	140431954	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgaccctcaaaatggagAagttcgactaagaggacccc	14	7	10	10	1	1	3	1	1	0	2	2	7	1	4	3	2	0	1	3	2	4	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:140431954A>T	uc003lik.1	+	1	976	c.899A>T	c.(898-900)GAA>GTA	p.E300V		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	300	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAAAATGGAGAAGTTCGACTA	0.463													6	83					0	0	0.001168	0	0		T	140431954	T	T	140431954	3	4	83	1	0	0	0	0	1	0	0	0	11553	246	9	5	901	5	PCDHB1	5	140431954	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	195223	140431954	40483306	48	51748											
PCDHGA12	26025	broad.mit.edu	37	chr5	140811824	140811824	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaacaccatccaaggggcaAgcctatcgtcctacgtgtcc	11	7	9	14	2	0	1	0	0	0	1	4	1	3	1	5	2	3	1	5	2	5	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:140811824A>G	uc003lkt.1	+	1	1667	c.1498A>G	c.(1498-1500)AGC>GGC	p.S500G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.S500G	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	500	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAAGGGGCAAGCCTATCGTC	0.552													7	87					0	0	0.001984	0	0		G	140811824	G	G	140811824	3	3	83	1	0	0	0	0	1	0	0	0	11572	72	3	3	1500	3	PCDHGA12	5	140811824	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	379870	140811824	40103436	49	51749											
HTR4	3360	broad.mit.edu	37	chr5	147889386	147889386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccgactgaggcctgctctCggaggaggctcctgcccgtt	4	9	14	14	3	1	1	0	1	1	0	3	4	2	3	4	4	3	3	4	4	0	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:147889386C>T	uc003lpn.2	-	6	873	c.709G>A	c.(709-711)GAG>AAG	p.E237K	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Missense_Mutation_p.E237K|HTR4_uc003lpj.1_Missense_Mutation_p.E237K|HTR4_uc003lpk.2_Missense_Mutation_p.E237K|HTR4_uc011dby.1_Missense_Mutation_p.E237K|HTR4_uc003lpl.2_Missense_Mutation_p.E251K|HTR4_uc003lpm.2_Missense_Mutation_p.E237K|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Missense_Mutation_p.E237K	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	237	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	GGCCTGCTCTCGGAGGAGGCT	0.552													5	60					0	0	0.000602	0	0		T	147889386	T	T	147889386	3	4	83	1	0	0	0	0	1	0	0	0	7465	893	31	1	761	1	HTR4	5	147889386	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	7077562	147889386	33025874	50	51750											
ODZ2	57451	broad.mit.edu	37	chr5	167489111	167489111	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagacagtggtgaagcagaAgttggtcggcgggtaacaca	13	7	15	6	2	0	3	0	1	0	2	1	3	0	3	0	4	2	3	0	4	4	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:167489111A>C	uc010jjd.2	+	7	1356	c.1356A>C	c.(1354-1356)GAA>GAC	p.E452D	ODZ2_uc003lzq.2_Missense_Mutation_p.E331D|ODZ2_uc003lzr.3_Missense_Mutation_p.E220D	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		GTGAAGCAGAAGTTGGTCGGC	0.453													6	36					0	0	0.001168	0	0		C	167489111	C	C	167489111	3	2	83	1	0	0	0	0	1	0	0	0	10854	69	3	5	1382	5	ODZ2	5	167489111	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	19599725	167489111	13426149	51	51751											
CDHR2	54825	broad.mit.edu	37	chr5	176005434	176005434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacggtgagctgctggaccGggagagccaggccgtgtact	8	6	17	10	3	0	2	0	1	0	1	0	5	0	3	3	4	5	3	3	4	2	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr5:176005434G>A	uc003mem.1	+	16	1709	c.1643G>A	c.(1642-1644)CGG>CAG	p.R548Q	CDHR2_uc003men.1_Missense_Mutation_p.R548Q	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	548	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						CTGCTGGACCGGGAGAGCCAG	0.572													4	31					0	0	0.009096	0	0		A	176005434	A	A	176005434	3	1	83	1	0	0	0	0	1	0	0	0	3122	1116	39	1	1701	1	CDHR2	5	176005434	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	8516323	176005434	4909826	52	51752											
SLC17A3	10786	broad.mit.edu	37	chr6	25861882	25861882	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgctgcagagtctgcttcGttcttgtggagggccccact	6	12	12	11	1	2	1	0	0	2	1	3	2	2	2	2	2	3	4	2	2	1	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr6:25861882G>A	uc003nfi.3	-	4	471	c.361C>T	c.(361-363)CGA>TGA	p.R121*	SLC17A3_uc003nfk.3_Nonsense_Mutation_p.R199*|SLC17A3_uc011djz.1_Nonsense_Mutation_p.R199*|SLC17A3_uc011dka.1_Nonsense_Mutation_p.R121*	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	121					glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						AGTCTGCTTCGTTCTTGTGGA	0.423													6	77					0	0	0.001984	0	0		A	25861882	A	A	25861882	4	1	83	1	0	0	0	0	0	1	0	0	14443	1153	40	1	933	1	SLC17A3	6	25861882	Nonsense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08		25861882	145253185	53	51753											
ABCF1	23	broad.mit.edu	37	chr6	30551425	30551425	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcatggcaaggagctgtTcgtcaatgcagacctgtaca	10	9	11	11	2	2	1	2	0	0	1	3	2	2	2	1	2	3	6	1	2	3	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr6:30551425T>C	uc003nql.2	+	11	1051	c.956T>C	c.(955-957)TTC>TCC	p.F319S	ABCF1_uc003nqk.2_Missense_Mutation_p.F320S|ABCF1_uc003nqm.2_Missense_Mutation_p.F281S|ABCF1_uc010jsb.2_Intron|MIR877_hsa-mir-877|MI0005561_5'Flank	NM_001025091	NP_001020262	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F, member 1	319	ABC transporter 1.				inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2						AAGGAGCTGTTCGTCAATGCA	0.557													26	126					0	0	0.007291	0	0		C	30551425	C	C	30551425	3	2	83	1	0	0	0	0	1	0	0	0	65	1783	62	3	998	3	ABCF1	6	30551425	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	4689543	30551425	140563642	54	51754											
TAF8	129685	broad.mit.edu	37	chr6	42044976	42044976	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccaagatccgcaggaagAagtgagttggaggctggggt	11	6	17	7	1	0	3	0	1	0	2	1	5	1	5	2	5	1	3	2	5	3	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr6:42044976A>T	uc003ors.2	+	8	948	c.919A>T	c.(919-921)AAG>TAG	p.K307*	TAF8_uc003ort.2_3'UTR|TAF8_uc003oru.1_3'UTR|TAF8_uc003orv.1_Nonsense_Mutation_p.K307*|TAF8_uc011dun.1_Nonsense_Mutation_p.K231*	NM_138572	NP_612639	Q7Z7C8	TAF8_HUMAN	TBP-associated factor 8	307	Nuclear localization signal (Potential).				cell differentiation|maintenance of protein location in nucleus|positive regulation of transcription, DNA-dependent|regulation of fat cell differentiation|transcription, DNA-dependent	perinuclear region of cytoplasm|transcription factor TFIID complex	DNA binding|protein binding			ovary(1)	1	Colorectal(47;0.196)		STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|Epithelial(12;0.00179)			CCGCAGGAAGAAGTGAGTTGG	0.592													4	28					0	0	0.009096	0	0		T	42044976	T	T	42044976	4	4	83	1	0	0	0	0	0	1	0	0	15559	260	9	5	949	5	TAF8	6	42044976	Nonsense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	11493551	42044976	129070091	55	51755											
HTR1B	3351	broad.mit.edu	37	chr6	78172330	78172330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatagaggtgaccgaggacGtggacccgggggagtcggtt	9	7	18	7	4	0	2	0	1	0	1	1	6	0	5	2	6	0	1	2	6	2	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr6:78172330G>A	uc003pil.1	-	1	791	c.791C>T	c.(790-792)ACG>ATG	p.T264M		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	264	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	GACCGAGGACGTGGACCCGGG	0.597													11	120					0	0	0.008291	0	0		A	78172330	A	A	78172330	3	1	83	1	0	0	0	0	1	0	0	0	7453	1145	40	1	385	1	HTR1B	6	78172330	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	36127354	78172330	92942737	56	51756											
NDUFAF4	29078	broad.mit.edu	37	chr6	97344625	97344625	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaacacacatttacctgcaAggaagacacaggatctttgg	15	9	8	9	0	1	1	0	0	1	1	1	3	1	3	1	3	3	1	1	3	5	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr6:97344625A>G	uc003pow.2	-	2	325	c.235T>C	c.(235-237)TTG>CTG	p.L79L	NDUFAF4_uc003pov.2_RNA	NM_014165	NP_054884	Q9P032	NDUF4_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	79					mitochondrial respiratory chain complex I assembly	mitochondrial membrane	calmodulin binding			ovary(1)	1						TTTACCTGCAAGGAAGACACA	0.363													12	80					0	0	0.013537	0	0		G	97344625	G	G	97344625	2	3	83	1	0	0	0	0	0	0	0	1	10296	69	3	3		3	NDUFAF4	6	97344625	Silent	SNP	A	TCGA-BR-8590-01A-11D-2394-08	19172295	97344625	73770442	57	51757											
ROS1	6098	broad.mit.edu	37	chr6	117631255	117631255	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaacttaccatacatcagaTtgagtagtgaagattccatc	15	12	6	8	0	1	4	1	2	0	2	3	4	2	4	2	0	3	1	2	0	6	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr6:117631255T>G	uc003pxp.1	-	40	6622	c.6423A>C	c.(6421-6423)CAA>CAC	p.Q2141H	ROS1_uc011ebi.1_RNA	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	2141	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		ATACATCAGATTGAGTAGTGA	0.299			T	GOPC|ROS1	glioblastoma|NSCLC								8	111					0	0	0.00308	0	0		G	117631255	G	G	117631255	3	3	83	1	0	0	0	0	1	0	0	0	13556	1490	52	5	636	5	ROS1	6	117631255	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	20286630	117631255	53483812	58	51758											
TIAM2	26230	broad.mit.edu	37	chr6	155458563	155458563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaaacatctacagaaaccGccgagtccagcagcgagtca	15	5	9	12	3	2	2	1	0	1	2	3	4	3	2	3	0	5	1	3	0	4	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr6:155458563G>A	uc003qqb.2	+	7	2720	c.1447G>A	c.(1447-1449)GCC>ACC	p.A483T	TIAM2_uc003qqe.2_Missense_Mutation_p.A483T|TIAM2_uc010kjj.2_Missense_Mutation_p.A16T	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	483					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		TACAGAAACCGCCGAGTCCAG	0.527													12	138					0	0	0.001855	0	0		A	155458563	A	A	155458563	3	1	83	1	0	0	0	0	1	0	0	0	15916	1087	38	1	1453	1	TIAM2	6	155458563	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	37827308	155458563	15656504	59	51759											
SUN1	23353	broad.mit.edu	37	chr7	905675	905675	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggatcccgctgtggtacTtctcgcagtccccgcgcgtg	3	11	13	14	5	1	0	0	0	1	0	4	1	3	1	3	2	1	3	3	2	1	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr7:905675T>C	uc011jvp.1	+	17	2030	c.1951T>C	c.(1951-1953)TTC>CTC	p.F651L	GET4_uc003sjj.1_RNA|SUN1_uc003sjf.2_Missense_Mutation_p.F568L|SUN1_uc011jvq.1_Missense_Mutation_p.F548L|SUN1_uc003sjg.2_Missense_Mutation_p.F556L|SUN1_uc011jvr.1_Missense_Mutation_p.F449L|SUN1_uc003sji.2_Missense_Mutation_p.F489L|SUN1_uc003sjk.2_Missense_Mutation_p.F290L	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	678	Perinuclear space.|SUN.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						GCTGTGGTACTTCTCGCAGTC	0.562													8	41					0	0	0.004482	0	0		C	905675	C	C	905675	3	2	83	1	0	0	0	0	1	0	0	0	15416	1609	56	3	2196	3	SUN1	7	905675	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08		905675	158232988	60	51760											
RELN	5649	broad.mit.edu	37	chr7	103338436	103338436	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcaggcttcatacacttcaCctacacgaagattttcctgc	11	11	6	13	1	2	1	2	0	0	1	3	2	3	1	2	1	4	2	2	1	3	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr7:103338436C>G	uc003vca.2	-	10	1167	c.1007G>C	c.(1006-1008)GGT>GCT	p.G336A	RELN_uc010liz.2_Missense_Mutation_p.G336A	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	336					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		ATACACTTCACCTACACGAAG	0.458													11	143					0	0	0.013537	0	0		G	103338436	G	G	103338436	3	3	83	1	0	0	0	0	1	0	0	0	13245	507	18	5	9599	5	RELN	7	103338436	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	102432761	103338436	55800227	61	51761											
FOXP2	93986	broad.mit.edu	37	chr7	114298186	114298186	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatccccacagagcttaccTcaaacccctaccacaccaac	14	5	2	20	0	1	1	1	0	0	1	2	1	2	1	7	0	5	1	7	0	4	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr7:114298186T>G	uc003vhb.2	+	11	1706	c.1332T>G	c.(1330-1332)CCT>CCG	p.P444P	FOXP2_uc003vgu.2_Intron|FOXP2_uc003vgz.2_Silent_p.P469P|FOXP2_uc003vha.2_Silent_p.P352P|FOXP2_uc011kmu.1_Silent_p.P461P|FOXP2_uc011kmv.1_Silent_p.P443P|FOXP2_uc010ljz.1_Intron|FOXP2_uc003vhe.1_Silent_p.P14P	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	444					camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						AGAGCTTACCTCAAACCCCTA	0.542													10	121					0	0	0.008291	0	0		G	114298186	G	G	114298186	2	3	83	1	0	0	0	0	0	0	0	1	6041	1538	54	5		5	FOXP2	7	114298186	Silent	SNP	T	TCGA-BR-8590-01A-11D-2394-08	10959750	114298186	44840477	62	51762											
ESYT2	57488	broad.mit.edu	37	chr7	158531733	158531733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaggcatgcacgaccaCgataagcttgtttctctgcg	8	10	10	13	3	1	0	0	0	1	0	2	2	1	0	2	1	4	5	2	1	1	3	rs145877575		TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr7:158531733C>T	uc003wob.1	-	18	2395	c.2329G>A	c.(2329-2331)GTG>ATG	p.V777M	ESYT2_uc003wny.1_RNA|ESYT2_uc003wnz.1_Missense_Mutation_p.V216M|ESYT2_uc003woa.1_Missense_Mutation_p.V354M	NM_020728	NP_065779	A0FGR8	ESYT2_HUMAN	family with sequence similarity 62 (C2 domain	805	C2 3.					integral to membrane|plasma membrane				central_nervous_system(2)|kidney(1)	3						TGCACGACCACGATAAGCTTG	0.607													5	75					0	0	0.000602	0	0		T	158531733	T	T	158531733	3	4	83	1	0	0	0	0	1	0	0	0	5273	536	19	1	372	1	ESYT2	7	158531733	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	44233547	158531733	606930	63	51763											
KIAA1967	57805	broad.mit.edu	37	chr8	22473260	22473260	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagacacttctagacggaaCgcagaaactccagaggccac	14	4	10	13	2	1	4	0	0	1	4	2	5	2	5	2	2	2	2	2	2	3	2	rs151294361	byFrequency	TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr8:22473260C>T	uc003xch.2	+	13	1580	c.1443C>T	c.(1441-1443)AAC>AAT	p.N481N	KIAA1967_uc003xci.2_Silent_p.N481N|KIAA1967_uc003xcj.1_Silent_p.N150N	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	481					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		CTAGACGGAACGCAGAAACTC	0.587													7	90					0	0	0.001984	0	0		T	22473260	T	T	22473260	2	4	83	1	0	0	0	0	0	0	0	1	8281	535	19	1		1	KIAA1967	8	22473260	Silent	SNP	C	TCGA-BR-8590-01A-11D-2394-08		22473260	123890762	64	51764											
CSMD3	114788	broad.mit.edu	37	chr8	114290851	114290851	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccttaaatccatgagcacTaactgcaaaatcactggtca	15	10	5	11	0	2	1	2	1	0	0	3	1	3	1	2	1	4	2	2	1	6	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr8:114290851T>C	uc003ynu.2	-	3	643	c.484A>G	c.(484-486)AGT>GGT	p.S162G	CSMD3_uc003ynt.2_Missense_Mutation_p.S122G|CSMD3_uc011lhx.1_Missense_Mutation_p.S162G|CSMD3_uc010mcx.1_Missense_Mutation_p.S162G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	162	Extracellular (Potential).|CUB 1.					integral to membrane|plasma membrane		p.S162N(1)		ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCATGAGCACTAACTGCAAAA	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			11	61					0	0	0.008291	0	0		C	114290851	C	C	114290851	3	2	83	1	0	0	0	0	1	0	0	0	3949	1522	53	3	10915	3	CSMD3	8	114290851	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	91817591	114290851	32073171	65	51765											
PLEC	5339	broad.mit.edu	37	chr8	144997872	144997873	+	Frame_Shift_Del	DEL	CA	-	-																															tcgccgcgcagctggtccagCacgctctgctcctgctgcag																										TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr8:144997872_144997873delCA	uc003zaf.1	-	31	6805_6806	c.6635_6636delTG	c.(6634-6636)GTGfs	p.V2212fs	PLEC_uc003zab.1_Frame_Shift_Del_p.V2075fs|PLEC_uc003zac.1_Frame_Shift_Del_p.V2079fs|PLEC_uc003zad.2_Frame_Shift_Del_p.V2075fs|PLEC_uc003zae.1_Frame_Shift_Del_p.V2043fs|PLEC_uc003zag.1_Frame_Shift_Del_p.V2053fs|PLEC_uc003zah.2_Frame_Shift_Del_p.V2061fs|PLEC_uc003zaj.2_Frame_Shift_Del_p.V2102fs	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2212	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GCTGGTCCAGCACGCTctgctc	0.599													2	4	---	---	---	---						.	-	144997873	-	-	144997872	7	5	83	1	0	1	0	1	0	0	0	0	12071	697	25	0	7426	0	PLEC	8	144997872	Frame_Shift_Del	DEL	CA	TCGA-BR-8590-01A-11D-2394-08	30707021	144997872	1366150	66	51766											
GPAA1	8733	broad.mit.edu	37	chr8	145139460	145139460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtggaggccctaaccctgCgtggcatcaatagcttccgc	7	9	12	13	2	1	0	1	0	0	0	2	1	2	1	3	3	3	2	3	3	3	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr8:145139460C>T	uc003zax.2	+	7	1068	c.958C>T	c.(958-960)CGT>TGT	p.R320C	GPAA1_uc003zav.1_Missense_Mutation_p.R198C|GPAA1_uc003zaw.1_Missense_Mutation_p.R260C	NM_003801	NP_003792	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment	320	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein complex assembly|protein retention in ER lumen	GPI-anchor transamidase complex	tubulin binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCTAACCCTGCGTGGCATCAA	0.627													19	76					0	0	0.008871	0	0		T	145139460	T	T	145139460	3	4	83	1	0	0	0	0	1	0	0	0	6602	768	27	1	984	1	GPAA1	8	145139460	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	141588	145139460	1224562	67	51767											
TEK	7010	broad.mit.edu	37	chr9	27172728	27172728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgccctcctgggtttatggGaaggacgtgtgagaagggta	8	11	16	6	1	0	1	0	1	0	1	1	4	1	3	2	4	1	2	2	4	4	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr9:27172728G>A	uc003zqi.3	+	5	1185	c.743G>A	c.(742-744)GGA>GAA	p.G248E	TEK_uc010mjc.1_Missense_Mutation_p.G101E|TEK_uc011lnn.1_Missense_Mutation_p.G248E|TEK_uc011lno.1_Missense_Mutation_p.G248E|TEK_uc011lnp.1_Missense_Mutation_p.G144E|TEK_uc003zqj.1_Missense_Mutation_p.G225E	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	248	Extracellular (Potential).|EGF-like 1.				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		GGGTTTATGGGAAGGACGTGT	0.433													4	42					0	0	0.009096	0	0		A	27172728	A	A	27172728	3	1	83	1	0	0	0	0	1	0	0	0	15776	1174	41	4	761	4	TEK	9	27172728	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08		27172728	114040703	68	51768											
ZMYND19	116225	broad.mit.edu	37	chr9	140477600	140477600	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgctgaattgcaagccaAtacaagctttgctcccttaa	12	11	7	11	0	0	1	0	1	0	0	1	1	1	1	2	0	7	5	2	0	6	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr9:140477600A>C	uc004cno.1	-	5	597	c.375T>G	c.(373-375)TAT>TAG	p.Y125*		NM_138462	NP_612471	Q96E35	ZMY19_HUMAN	zinc finger, MYND domain containing 19	125						Golgi apparatus|plasma membrane	zinc ion binding			skin(1)	1	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000275)|Epithelial(140;0.00047)		TTGCAAGCCAATACAAGCTTT	0.488													14	187					0	0	0.004007	0	0		C	140477600	C	C	140477600	4	2	83	1	0	0	0	0	0	1	0	0	17735	108	4	5	316	5	ZMYND19	9	140477600	Nonsense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	113304872	140477600	735831	69	51769											
C10orf18	54906	broad.mit.edu	37	chr10	5769036	5769036	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcatagattttggaggcaAgcagatgggtctgcatgggt	9	11	15	6	0	1	2	0	0	1	2	1	3	1	3	0	4	3	4	0	4	2	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr10:5769036A>G	uc001iij.2	+	10	1062	c.437A>G	c.(436-438)AAG>AGG	p.K146R		NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	146										ovary(1)|central_nervous_system(1)	2						TTTGGAGGCAAGCAGATGGGT	0.284													7	118					0	0	0.001984	0	0		G	5769036	G	G	5769036	3	3	83	1	0	0	0	0	1	0	0	0	1599	72	3	3	463	3	C10orf18	10	5769036	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08		5769036	129765711	70	51770											
CACNB2	783	broad.mit.edu	37	chr10	18828261	18828261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcaagaaatcccagcacCgctcttcctcctcagcccca	10	7	5	19	1	3	1	2	0	1	1	6	1	6	1	6	0	2	2	6	0	2	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr10:18828261C>T	uc001ipr.2	+	14	1651	c.1591C>T	c.(1591-1593)CGC>TGC	p.R531C	CACNB2_uc009xjz.1_Missense_Mutation_p.R281C|CACNB2_uc001ips.2_Missense_Mutation_p.R507C|CACNB2_uc001ipt.2_Missense_Mutation_p.R493C|CACNB2_uc001ipu.2_Missense_Mutation_p.R503C|CACNB2_uc001ipv.2_Missense_Mutation_p.R479C|CACNB2_uc009xka.1_Missense_Mutation_p.R465C|CACNB2_uc001ipw.2_Missense_Mutation_p.R438C|CACNB2_uc001ipx.2_Missense_Mutation_p.R476C|CACNB2_uc001ipz.2_Missense_Mutation_p.R453C|CACNB2_uc001ipy.2_Missense_Mutation_p.R477C|CACNB2_uc010qco.1_Missense_Mutation_p.R445C|CACNB2_uc001iqa.2_Missense_Mutation_p.R483C|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	531					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	ATCCCAGCACCGCTCTTCCTC	0.552													11	77					0	0	0.010729	0	0		T	18828261	T	T	18828261	3	4	83	1	0	0	0	0	1	0	0	0	2556	652	23	1	1955	1	CACNB2	10	18828261	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	13059225	18828261	116706486	71	51771											
MYO3A	53904	broad.mit.edu	37	chr10	26243904	26243904	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatactttaagaaggataaAgtaaatggagacaagctgtg	18	10	10	3	0	0	2	0	0	0	2	0	4	0	3	0	2	2	2	0	2	9	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr10:26243904A>C	uc001isn.2	+	4	630	c.270A>C	c.(268-270)AAA>AAC	p.K90N	MYO3A_uc009xko.1_Missense_Mutation_p.K90N|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Missense_Mutation_p.K90N|MYO3A_uc001ism.2_Missense_Mutation_p.K90N	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	90	Protein kinase.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						AGAAGGATAAAGTAAATGGAG	0.373													20	133					0	0	0.007413	0	0		C	26243904	C	C	26243904	3	2	83	1	0	0	0	0	1	0	0	0	10094	69	3	5	276	5	MYO3A	10	26243904	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	7415643	26243904	109290843	72	51772											
PCDH15	65217	broad.mit.edu	37	chr10	55996686	55996686	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaacaataatggggttcagTtcttcctgaaaaaaaaatta	17	12	7	5	0	2	1	1	1	1	0	3	1	3	1	1	2	1	3	1	2	8	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr10:55996686T>G	uc001jju.1	-	9	1277	c.882A>C	c.(880-882)GAA>GAC	p.E294D	PCDH15_uc010qhq.1_Missense_Mutation_p.E299D|PCDH15_uc010qhr.1_Missense_Mutation_p.E294D|PCDH15_uc010qhs.1_Missense_Mutation_p.E299D|PCDH15_uc010qht.1_Missense_Mutation_p.E294D|PCDH15_uc010qhu.1_Missense_Mutation_p.E294D|PCDH15_uc001jjv.1_Missense_Mutation_p.E272D|PCDH15_uc010qhv.1_Missense_Mutation_p.E294D|PCDH15_uc010qhw.1_Missense_Mutation_p.E257D|PCDH15_uc010qhx.1_Missense_Mutation_p.E294D|PCDH15_uc010qhy.1_Missense_Mutation_p.E299D|PCDH15_uc010qhz.1_Missense_Mutation_p.E294D|PCDH15_uc010qia.1_Missense_Mutation_p.E272D|PCDH15_uc010qib.1_Missense_Mutation_p.E272D|PCDH15_uc001jjw.2_Missense_Mutation_p.E294D	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	294	Cadherin 3.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TGGGGTTCAGTTCTTCCTGAA	0.398										HNSCC(58;0.16)			8	100					0	0	0.006214	0	0		G	55996686	G	G	55996686	3	3	83	1	0	0	0	0	1	0	0	0	11530	1722	60	5	6729	5	PCDH15	10	55996686	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	29752782	55996686	79538061	73	51773											
KIAA1279	26128	broad.mit.edu	37	chr10	70765585	70765585	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactattgccatagtacaCtaaaacgccagcttgagcac	13	9	6	13	1	1	1	1	1	0	0	1	1	1	1	2	0	5	3	2	0	5	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr10:70765585C>A	uc001joy.2	+	4	799	c.703C>A	c.(703-705)CTA>ATA	p.L235I		NM_015634	NP_056449	Q96EK5	KBP_HUMAN	KIF1 binding protein	235					cell differentiation|mitochondrial transport|nervous system development	mitochondrion	kinesin binding			ovary(1)	1						CCATAGTACACTAAAACGCCA	0.403													9	37					0.000442599	0.000455851	0.006214	1	0		A	70765585	A	A	70765585	3	1	83	1	0	0	0	0	1	0	0	0	8237	564	20	5	717	5	KIAA1279	10	70765585	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	14768899	70765585	64769162	74	51774											
IFIT1B	439996	broad.mit.edu	37	chr10	91143418	91143418	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agattggcagaagcccagacTtacctggacaaggtggagaa	14	6	13	8	0	0	4	0	0	0	4	0	6	0	5	2	4	2	1	2	4	4	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr10:91143418T>G	uc001kgh.2	+	2	428	c.348T>G	c.(346-348)ACT>ACG	p.T116T	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron	NM_001010987	NP_001010987	Q5T764	IFT1B_HUMAN	interferon-induced protein with	116	TPR 2.						binding				0						AAGCCCAGACTTACCTGGACA	0.502													7	75					0	0	0.001984	0	0		G	91143418	G	G	91143418	2	3	83	1	0	0	0	0	0	0	0	1	7538	1596	56	5		5	IFIT1B	10	91143418	Silent	SNP	T	TCGA-BR-8590-01A-11D-2394-08	20377833	91143418	44391329	75	51775											
OR52K1	390036	broad.mit.edu	37	chr11	4510347	4510347	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatgttggcaaccattgacTtggttctttcttctacaacg	8	15	7	11	1	3	1	0	1	3	0	3	1	3	1	2	2	3	3	2	2	3	7			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr11:4510347T>A	uc001lza.1	+	1	217	c.217T>A	c.(217-219)TTG>ATG	p.L73M		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	73	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		AACCATTGACTTGGTTCTTTC	0.493													9	76					0	0	0.008291	0	0		A	4510347	A	A	4510347	3	1	83	1	0	0	0	0	1	0	0	0	11142	1606	56	5	219	5	OR52K1	11	4510347	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08		4510347	130496169	76	51776											
OR51A7	119687	broad.mit.edu	37	chr11	4928970	4928970	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgtctttggaccgctttcTtgccattcacaatcccttaa	8	16	5	12	1	3	0	1	0	2	0	4	1	4	1	3	1	1	1	3	1	3	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr11:4928970T>G	uc010qyq.1	+	1	371	c.371T>G	c.(370-372)CTT>CGT	p.L124R		NM_001004749	NP_001004749	Q8NH64	O51A7_HUMAN	olfactory receptor, family 51, subfamily A,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		GACCGCTTTCTTGCCATTCAC	0.393													10	105					0	0	0.008291	0	0		G	4928970	G	G	4928970	3	3	83	1	0	0	0	0	1	0	0	0	11107	1609	56	5	373	5	OR51A7	11	4928970	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	418623	4928970	130077546	77	51777											
OR5P3	120066	broad.mit.edu	37	chr11	7847027	7847027	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcccacagaaggacagtcTtaataagcagccaatgaatg	15	7	10	9	0	1	2	0	1	1	1	1	3	1	3	2	2	2	1	2	2	5	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr11:7847027T>C	uc010rbg.1	-	1	493	c.493A>G	c.(493-495)AGA>GGA	p.R165G		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AAGGACAGTCTTAATAAGCAG	0.423													12	66					0	0	0.010729	0	0		C	7847027	C	C	7847027	3	2	83	1	0	0	0	0	1	0	0	0	11198	1617	56	3	445	3	OR5P3	11	7847027	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	2918057	7847027	127159489	78	51778											
OR4C11	219429	broad.mit.edu	37	chr11	55371158	55371158	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcggagagagcctttttcTtccctttggcactgtggttt	6	15	11	9	1	1	1	0	0	1	1	2	3	2	2	2	3	2	2	2	3	1	5			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr11:55371158T>G	uc010rii.1	-	1	692	c.692A>C	c.(691-693)AAG>ACG	p.K231T		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AGCCTTTTTCTTCCCTTTGGC	0.418													6	44					0	0	0.001984	0	0		G	55371158	G	G	55371158	3	3	83	1	0	0	0	0	1	0	0	0	11064	1609	56	5	242	5	OR4C11	11	55371158	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	47524131	55371158	79635358	79	51779											
OR4C11	219429	broad.mit.edu	37	chr11	55371231	55371231	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcaaaatcatgaaactacTtgagcaaattgccccactgt	15	11	5	10	0	2	2	2	2	0	0	2	2	2	2	2	0	4	1	2	0	6	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr11:55371231T>G	uc010rii.1	-	1	619	c.619A>C	c.(619-621)AGT>CGT	p.S207R		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	207	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ATGAAACTACTTGAGCAAATT	0.423													9	37					0	0	0.008291	0	0		G	55371231	G	G	55371231	3	3	83	1	0	0	0	0	1	0	0	0	11064	1609	56	5	315	5	OR4C11	11	55371231	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	73	55371231	79635285	80	51780											
OR5M10	390167	broad.mit.edu	37	chr11	56344522	56344522	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagcagaacggatcctgaAgatcgctgcaaaaatgaaaa	17	7	9	8	2	1	4	1	2	0	2	3	5	2	5	1	1	3	3	1	1	6	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr11:56344522A>C	uc001niz.1	-	1	676	c.676T>G	c.(676-678)TTC>GTC	p.F226V		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	226	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CGGATCCTGAAGATCGCTGCA	0.438													7	103					0	0	0.00308	0	0		C	56344522	C	C	56344522	3	2	83	1	0	0	0	0	1	0	0	0	11192	72	3	5	275	5	OR5M10	11	56344522	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	973291	56344522	78661994	81	51781											
SLC22A10	387775	broad.mit.edu	37	chr11	63129941	63129941	+	RNA	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaagctgcatgctggaataGaatgaagaatgctggagaca	17	7	12	5	0	0	4	0	1	0	3	0	6	0	5	0	2	4	4	0	2	7	1	rs148177936	by1000genomes	TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr11:63129941G>C	uc010rmo.1	+	9		c.1063G>C						Q63ZE4	S22AA_HUMAN	Homo sapiens mRNA for putative protein product of HMFN2567, complete cds.							integral to membrane	transmembrane transporter activity			ovary(2)	2						TGCTGGAATAGAATGAAGAAT	0.448													4	38					0	0	0.009096	0	0		C	63129941	C	C	63129941	1	2	83	0	1	0	0	0	0	0	0	0	14466	957	33	5		5	SLC22A10	11	63129941	RNA	SNP	G	TCGA-BR-8590-01A-11D-2394-08	6785419	63129941	71876575	82	51782											
LRP5	4041	broad.mit.edu	37	chr11	68115710	68115710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgccttggaccccgctcacGggtaaaccctgctgcgactc	6	8	10	17	4	1	0	1	0	0	0	3	2	1	1	4	2	3	3	4	2	2	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr11:68115710G>A	uc001ont.2	+	2	562	c.487G>A	c.(487-489)GGG>AGG	p.G163R	LRP5_uc009ysg.2_5'UTR	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	163	Beta-propeller 1.|LDL-receptor class B 3.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CCCCGCTCACGGGTAAACCCT	0.597													14	82					0	0	0.003163	0	0		A	68115710	A	A	68115710	3	1	83	1	0	0	0	0	1	0	0	0	8978	1130	39	1	493	1	LRP5	11	68115710	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	4985769	68115710	66890806	83	51783											
YAP1	10413	broad.mit.edu	37	chr11	101985013	101985013	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtctctggcccagcagctAcacccacagctcagcatctt	9	9	7	16	0	3	0	1	0	2	0	4	0	3	0	2	1	5	4	2	1	2	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr11:101985013A>G	uc001pgt.2	+	2	830	c.460A>G	c.(460-462)ACA>GCA	p.T154A	YAP1_uc001pgs.2_Missense_Mutation_p.T154A|YAP1_uc001pgu.2_Missense_Mutation_p.T154A|YAP1_uc001pgv.2_Missense_Mutation_p.T154A|YAP1_uc010ruo.1_5'UTR|YAP1_uc001pgw.2_5'UTR	NM_001130145	NP_001123617	P46937	YAP1_HUMAN	Yes-associated protein 1, 65kDa isoform 1	154					cell proliferation|cellular response to gamma radiation|contact inhibition|hippo signaling cascade|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription coactivator activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_cancers(8;0.000575)|all_epithelial(12;0.00564)	Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.00936)	Lung(13;0.245)	BRCA - Breast invasive adenocarcinoma(274;0.0189)		CCCAGCAGCTACACCCACAGC	0.532													13	89					0	0	0.00245	0	0		G	101985013	G	G	101985013	3	3	83	1	0	0	0	0	1	0	0	0	17492	391	14	3	466	3	YAP1	11	101985013	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	33869303	101985013	33021503	84	51784											
MLL	4297	broad.mit.edu	37	chr11	118375060	118375060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagagtccacacaagtacccCctccgacaaaaatttactgg	14	7	6	14	1	0	1	0	0	0	1	2	2	2	1	4	1	2	1	4	1	5	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr11:118375060C>T	uc001pta.2	+	27	8467	c.8444C>T	c.(8443-8445)CCC>CTC	p.P2815L	MLL_uc001ptb.2_Missense_Mutation_p.P2818L	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2815					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		ACAAGTACCCCCTCCGACAAA	0.453			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								49	132					0	0	0.01441	0	0		T	118375060	T	T	118375060	3	4	83	1	0	0	0	0	1	0	0	0	9638	623	22	4	8550	4	MLL	11	118375060	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	16390047	118375060	16631456	85	51785											
STYK1	55359	broad.mit.edu	37	chr12	10775239	10775239	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggggctcatccttacctAgagtcaccatctcatagagc	9	12	8	12	0	3	2	3	0	1	2	5	2	4	2	3	2	2	1	3	2	3	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:10775239A>G	uc001qys.2	-	9	1486	c.965T>C	c.(964-966)CTA>CCA	p.L322P		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	322	Protein kinase.					integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						ATCCTTACCTAGAGTCACCAT	0.383										HNSCC(73;0.22)			8	53					0	0	0.010729	0	0		G	10775239	G	G	10775239	3	3	83	1	0	0	0	0	1	0	0	0	15384	420	15	3	315	3	STYK1	12	10775239	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08		10775239	123076656	86	51786											
PRB2	653247	broad.mit.edu	37	chr12	11546376	11546376	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaggtgggggaccttgAggtttgttgcctccttgtgg	3	13	17	8	0	0	1	0	1	0	0	1	3	1	3	4	6	1	2	4	6	0	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:11546376A>C	uc010shk.1	-	3	671	c.636T>G	c.(634-636)CCT>CCG	p.P212P		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGGGACCTTGAGGTTTGTTGC	0.607													37	222					0	0	0.01441	0	0		C	11546376	C	C	11546376	2	2	83	1	0	0	0	0	0	0	0	1	12465	291	11	5		5	PRB2	12	11546376	Silent	SNP	A	TCGA-BR-8590-01A-11D-2394-08	771137	11546376	122305519	87	51787											
ABCC9	10060	broad.mit.edu	37	chr12	22025613	22025613	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaccgaggatggcaaggAgaagagaggacttcccacat	13	6	12	10	1	1	2	1	0	1	2	3	7	2	4	2	4	0	1	2	4	2	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:22025613A>G	uc001rfi.1	-	16	2164	c.2144T>C	c.(2143-2145)CTC>CCC	p.L715P	ABCC9_uc001rfh.2_Missense_Mutation_p.L715P|ABCC9_uc001rfj.1_Missense_Mutation_p.L679P	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	715	Cytoplasmic (Potential).|ABC transporter 1.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GATGGCAAGGAGAAGAGAGGA	0.423													29	170					0	0	0.008361	0	0		G	22025613	G	G	22025613	3	3	83	1	0	0	0	0	1	0	0	0	59	304	11	3	2739	3	ABCC9	12	22025613	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	10479237	22025613	111826282	88	51788											
LRRK2	120892	broad.mit.edu	37	chr12	40699659	40699659	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaacttggaactaagatccTttcccaatgaaatggggaaa	16	9	8	8	0	0	2	0	1	0	1	2	4	2	4	2	3	2	0	2	3	6	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:40699659T>G	uc001rmg.3	+	28	3971	c.3850T>G	c.(3850-3852)TTT>GTT	p.F1284V	LRRK2_uc009zjw.2_Missense_Mutation_p.F122V|LRRK2_uc001rmi.2_Missense_Mutation_p.F117V	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1284	LRR 12.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				ACTAAGATCCTTTCCCAATGA	0.363													8	46					0	0	0.004482	0	0		G	40699659	G	G	40699659	3	3	83	1	0	0	0	0	1	0	0	0	9051	1609	56	5	3960	5	LRRK2	12	40699659	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	18674046	40699659	93152236	89	51789											
MLL2	8085	broad.mit.edu	37	chr12	49445717	49445717	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggtgactcttcaggtggAggggacatgggtgactcctc	7	10	16	8	0	2	2	1	2	1	0	4	4	3	4	1	6	0	0	1	6	0	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:49445717A>C	uc001rta.3	-	10	1749	c.1749T>G	c.(1747-1749)CCT>CCG	p.P583P		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	583	15 X 5 AA repeats of S/P-P-P-E/P-E/A.|Pro-rich.|10.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTTCAGGTGGAGGGGACATGG	0.592			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			7	91					0	0	0.00308	0	0		C	49445717	C	C	49445717	2	2	83	1	0	0	0	0	0	0	0	1	9639	291	11	5		5	MLL2	12	49445717	Silent	SNP	A	TCGA-BR-8590-01A-11D-2394-08	8746058	49445717	84406178	90	51790											
KRT6A	3853	broad.mit.edu	37	chr12	52886595	52886595	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggggggcacacagggaaGccagggcccccaaagccacc	11	0	14	16	0	0	0	0	0	0	0	0	1	0	1	6	5	2	1	6	5	2	0			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:52886595G>T	uc001sam.2	-	1	587	c.378C>A	c.(376-378)GGC>GGA	p.G126G		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	126	Head.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		ACACAGGGAAGCCAGGGCCCC	0.637													7	31					9.70103e-10	1.04286e-09	0.008291	1	0		T	52886595	T	T	52886595	2	4	83	1	0	0	0	0	0	0	0	1	8496	958	34	5		5	KRT6A	12	52886595	Silent	SNP	G	TCGA-BR-8590-01A-11D-2394-08	3440878	52886595	80965300	91	51791											
KRT73	319101	broad.mit.edu	37	chr12	53010025	53010025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccctgtccccagacagcGtctccagctgcttccgcagg	6	8	9	18	2	2	1	1	0	1	1	5	1	4	1	5	1	3	3	5	1	0	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:53010025G>A	uc001sas.2	-	2	622	c.587C>T	c.(586-588)ACG>ATG	p.T196M		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	196	Coil 1B.|Rod.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CCCAGACAGCGTCTCCAGCTG	0.597													39	126					0	0	0.00874	0	0		A	53010025	A	A	53010025	3	1	83	1	0	0	0	0	1	0	0	0	8502	1145	40	1	1067	1	KRT73	12	53010025	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	123430	53010025	80841870	92	51792											
KRT1	3848	broad.mit.edu	37	chr12	53072332	53072332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagggtcccttacttgttcCggtaatcctccaccatgtcc	7	12	7	15	1	0	0	0	0	0	0	5	0	5	0	6	2	1	2	6	2	2	4	rs60359468		TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:53072332C>T	uc001sau.1	-	2	859	c.800G>A	c.(799-801)CGG>CAG	p.R267Q	KRT1_uc001sav.1_Missense_Mutation_p.R267Q	NM_006121	NP_006112	P04264	K2C1_HUMAN	keratin 1	267	Coil 1B.|Rod.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding			ovary(1)|skin(1)	2						TTACTTGTTCCGGTAATCCTC	0.443													15	87					0	0	0.006122	0	0		T	53072332	T	T	53072332	3	4	83	1	0	0	0	0	1	0	0	0	8463	652	23	1	1166	1	KRT1	12	53072332	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	62307	53072332	80779563	93	51793											
LRP1	4035	broad.mit.edu	37	chr12	57560825	57560825	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctctgatgagtctgcttcGtgtggtaagagggatgggca	7	11	16	7	2	2	3	0	2	2	1	3	4	2	4	0	3	1	4	0	3	1	2	rs78054559	byFrequency	TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:57560825G>A	uc001snd.2	+	18	3376	c.2910G>A	c.(2908-2910)TCG>TCA	p.S970S	LRP1_uc009zph.1_5'Flank|LRP1_uc009zpi.1_5'Flank	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	970	LDL-receptor class A 5.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity	p.S970L(1)		ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	AGTCTGCTTCGTGTGGTAAGA	0.637													16	60					0	0	0.004007	0	0		A	57560825	A	A	57560825	2	1	83	1	0	0	0	0	0	0	0	1	8969	1132	40	1		1	LRP1	12	57560825	Silent	SNP	G	TCGA-BR-8590-01A-11D-2394-08	4488493	57560825	76291070	94	51794											
SLC26A10	65012	broad.mit.edu	37	chr12	58019453	58019453	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgtgcaggatgcagctgcTtatgccctggggagcctgtt	6	11	15	9	0	0	0	0	0	0	0	0	2	0	2	2	3	6	5	2	3	1	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:58019453T>G	uc001spe.2	+	14	1928	c.1617T>G	c.(1615-1617)GCT>GCG	p.A539A	SLC26A10_uc001spf.2_RNA|SLC26A10_uc009zpz.1_Intron	NM_133489	NP_597996	Q8NG04	S2610_HUMAN	solute carrier family 26, member 10	539	STAS.					integral to membrane	antiporter activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(17;0.122)					ATGCAGCTGCTTATGCCCTGG	0.627													13	61					0	0	0.013537	0	0		G	58019453	G	G	58019453	2	3	83	1	0	0	0	0	0	0	0	1	14540	1596	56	5		5	SLC26A10	12	58019453	Silent	SNP	T	TCGA-BR-8590-01A-11D-2394-08	458628	58019453	75832442	95	51795											
OAS2	4939	broad.mit.edu	37	chr12	113442842	113442842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctcccaaaaaaacgagcGgcacaaaatcgtcaaggaaa	19	3	7	12	3	1	0	1	0	0	0	3	2	2	1	2	2	2	1	2	2	7	0			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:113442842G>A	uc001tuj.2	+	7	1423	c.1283G>A	c.(1282-1284)CGG>CAG	p.R428Q	OAS2_uc001tui.1_Missense_Mutation_p.R428Q	NM_016817	NP_058197	P29728	OAS2_HUMAN	2'-5'-oligoadenylate synthetase 2 isoform 1	428	OAS domain 2.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|membrane|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(1)	1						AAAAACGAGCGGCACAAAATC	0.502													9	43					0	0	0.008291	0	0		A	113442842	A	A	113442842	3	1	83	1	0	0	0	0	1	0	0	0	10819	1116	39	1	1380	1	OAS2	12	113442842	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	55423389	113442842	20409053	96	51796											
DDX54	79039	broad.mit.edu	37	chr12	113603716	113603716	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgctgctgggcgttatcAgcaacgcgggccaggccccg	6	7	14	14	4	1	0	1	0	0	0	1	0	1	0	3	3	5	4	3	3	3	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:113603716A>G	uc001tup.2	-	13	1564	c.1536T>C	c.(1534-1536)GCT>GCC	p.A512A	DDX54_uc001tuq.3_Silent_p.A512A	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	512					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						GGGCGTTATCAGCAACGCGGG	0.667													10	72					0	0	0.010729	0	0		G	113603716	G	G	113603716	2	3	83	1	0	0	0	0	0	0	0	1	4375	175	7	3		3	DDX54	12	113603716	Silent	SNP	A	TCGA-BR-8590-01A-11D-2394-08	160874	113603716	20248179	97	51797											
KDM2B	84678	broad.mit.edu	37	chr12	122016842	122016842	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtcgtatcgctggcggtCaatcgggcgctgcgaggacc	5	8	15	13	7	1	0	1	0	0	0	5	2	1	1	1	4	1	3	1	4	2	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr12:122016842C>A	uc001uat.2	-	2	240	c.136G>T	c.(136-138)GAC>TAC	p.D46Y	KDM2B_uc001uas.2_Missense_Mutation_p.D15Y|KDM2B_uc001uau.2_5'UTR|KDM2B_uc001uav.3_Missense_Mutation_p.D46Y	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	46					embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						CGCTGGCGGTCAATCGGGCGC	0.627													5	99					3.59834e-05	3.75099e-05	0.001168	1	0		A	122016842	A	A	122016842	3	1	83	1	0	0	0	0	1	0	0	0	8141	826	29	5	4014	5	KDM2B	12	122016842	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	8413126	122016842	11835053	98	51798											
MBNL2	10150	broad.mit.edu	37	chr13	97999166	97999166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtgacaacaccgtaaccGtttgtatggattacataaag	15	10	8	8	2	0	1	0	1	0	0	0	2	0	2	2	1	3	3	2	1	7	5			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr13:97999166G>A	uc010aft.2	+	5	1465	c.649G>A	c.(649-651)GTT>ATT	p.V217I	MBNL2_uc001vmz.2_Missense_Mutation_p.V217I|MBNL2_uc001vna.2_Missense_Mutation_p.V217I|MBNL2_uc001vnb.2_RNA|MBNL2_uc010tij.1_Intron|MBNL2_uc001vnc.2_5'Flank	NM_144778	NP_659002	Q5VZF2	MBNL2_HUMAN	muscleblind-like 2 isoform 1	217	C3H1-type 4.				mRNA processing|regulation of RNA splicing|RNA splicing	cytoplasm|nucleus	RNA binding|zinc ion binding				0	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.218)			CACCGTAACCGTTTGTATGGA	0.532													8	58					0	0	0.006214	0	0		A	97999166	A	A	97999166	3	1	83	1	0	0	0	0	1	0	0	0	9372	1145	40	1	663	1	MBNL2	13	97999166	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08		97999166	17170712	99	51799											
NALCN	259232	broad.mit.edu	37	chr13	101742293	101742293	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atagcgtttcccacattgtcGaaattaaagttccgaggatt	12	13	8	8	3	0	0	0	0	0	0	3	3	2	1	2	1	1	2	2	1	4	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr13:101742293G>A	uc001vox.1	-	29	3483	c.3294C>T	c.(3292-3294)TTC>TTT	p.F1098F		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1098	Extracellular (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CCACATTGTCGAAATTAAAGT	0.463													12	289					0	0	0.010729	0	0		A	101742293	A	A	101742293	2	1	83	1	0	0	0	0	0	0	0	1	10166	1049	37	1		1	NALCN	13	101742293	Silent	SNP	G	TCGA-BR-8590-01A-11D-2394-08	3743127	101742293	13427585	100	51800											
FLRT2	23768	broad.mit.edu	37	chr14	86087927	86087927	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagtcttggcttatcatttcCctggggctctactcacaggt	7	14	9	11	0	4	0	2	0	2	0	5	0	5	0	1	4	1	2	1	4	3	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr14:86087927C>A	uc001xvr.2	+	2	836	c.69C>A	c.(67-69)TCC>TCA	p.S23S	FLRT2_uc010atd.2_Silent_p.S23S	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	23					cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		TTATCATTTCCCTGGGGCTCT	0.502													15	96					1.3612e-06	1.43636e-06	0.003163	1	0		A	86087927	A	A	86087927	2	1	83	1	0	0	0	0	0	0	0	1	5953	610	22	5		5	FLRT2	14	86087927	Silent	SNP	C	TCGA-BR-8590-01A-11D-2394-08		86087927	21261613	101	51801											
KCNK13	56659	broad.mit.edu	37	chr14	90651134	90651134	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcagagagtgacacggaCgggcgccggctctcagggga	8	4	19	10	4	1	2	1	1	1	1	2	5	1	4	1	6	0	2	1	6	0	0	rs139412063	byFrequency	TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr14:90651134C>T	uc001xye.1	+	2	1456	c.1014C>T	c.(1012-1014)GAC>GAT	p.D338D		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	338	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				GTGACACGGACGGGCGCCGGC	0.602													15	102					0	0	0.003163	0	0		T	90651134	T	T	90651134	2	4	83	1	0	0	0	0	0	0	0	1	8077	535	19	1		1	KCNK13	14	90651134	Silent	SNP	C	TCGA-BR-8590-01A-11D-2394-08	4563207	90651134	16698406	102	51802											
UBE3A	7337	broad.mit.edu	37	chr15	25616755	25616755	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatgcagctttttcctttTcatcttcatctttgtcttca	7	20	3	11	0	6	0	3	0	3	0	7	0	7	0	1	0	3	2	1	0	1	7			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr15:25616755T>G	uc001zaq.2	-	4	575	c.575A>C	c.(574-576)GAA>GCA	p.E192A	uc001zae.2_Intron|UBE3A_uc001zar.2_Missense_Mutation_p.E169A|UBE3A_uc001zas.2_Missense_Mutation_p.E189A|UBE3A_uc001zat.2_Missense_Mutation_p.E169A	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	192					brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		TTTTTCCTTTTCATCTTCATC	0.423													14	159					0	0	0.001855	0	0		G	25616755	G	G	25616755	3	3	83	1	0	0	0	0	1	0	0	0	16905	1783	62	5	2084	5	UBE3A	15	25616755	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08		25616755	76914637	103	51803											
SPTBN5	51332	broad.mit.edu	37	chr15	42178399	42178399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtggcttctcctgggtgcGgaagatggtgaatgctgcca	6	10	17	8	1	1	2	0	1	1	1	2	3	1	3	2	5	3	2	2	5	2	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr15:42178399G>A	uc001zos.2	-	7	1282	c.949C>T	c.(949-951)CGC>TGC	p.R317C		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	352	Spectrin 1.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		TCCTGGGTGCGGAAGATGGTG	0.637													6	28					0	0	0.001168	0	0		A	42178399	A	A	42178399	3	1	83	1	0	0	0	0	1	0	0	0	15147	1116	39	1	10218	1	SPTBN5	15	42178399	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	16561644	42178399	60352993	104	51804											
RUNDC2A	84127	broad.mit.edu	37	chr16	12096857	12096857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgtgcagtgccagatcCgctttggagggagaaaggag	9	10	15	7	1	1	2	0	0	1	2	2	5	2	4	2	3	2	2	2	3	1	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr16:12096857C>T	uc002dbw.1	+	3	141	c.79C>T	c.(79-81)CGC>TGC	p.R27C		NM_032167	NP_115543	Q9HA26	RUN2A_HUMAN	RUN domain containing 2A	27										ovary(1)	1						GTGCCAGATCCGCTTTGGAGG	0.502			T	CIITA	PMBL|Hodgkin Lymphona|								7	57					0	0	0.001984	0	0		T	12096857	T	T	12096857	3	4	83	1	0	0	0	0	1	0	0	0	13768	652	23	1	89	1	RUNDC2A	16	12096857	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08		12096857	78257896	105	51805											
CMIP	80790	broad.mit.edu	37	chr16	81739133	81739133	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggccttcggctcctgtcGgaacacctcaccatgctcca	6	9	9	17	2	1	0	1	0	0	0	5	1	3	1	5	3	2	3	5	3	1	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr16:81739133G>A	uc002fgp.2	+	19	2193	c.2121G>A	c.(2119-2121)TCG>TCA	p.S707S	CMIP_uc002fgq.1_Silent_p.S613S|CMIP_uc010vnq.1_Silent_p.S520S|CMIP_uc002fgr.1_Silent_p.S554S	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	673	LRR 2.					cytoplasm|nucleus					0						GGCTCCTGTCGGAACACCTCA	0.647													4	12					0	0	0.009096	0	0		A	81739133	A	A	81739133	2	1	83	1	0	0	0	0	0	0	0	1	3581	1103	39	1		1	CMIP	16	81739133	Silent	SNP	G	TCGA-BR-8590-01A-11D-2394-08	69642276	81739133	8615620	106	51806											
GLOD4	51031	broad.mit.edu	37	chr17	680125	680125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccataaagtcattgccaaGcttgtagtctccgacgccat	11	11	7	12	2	2	0	1	0	1	0	3	1	2	0	4	0	3	2	4	0	5	5			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:680125G>A	uc002frv.2	-	4	365	c.289C>T	c.(289-291)CTT>TTT	p.L97F	GLOD4_uc002frt.2_Missense_Mutation_p.L26F|GLOD4_uc002fru.2_Missense_Mutation_p.L82F|GLOD4_uc010vqc.1_Missense_Mutation_p.L73F	NM_016080	NP_057164	Q9HC38	GLOD4_HUMAN	glyoxalase domain containing 4	97						mitochondrion					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		TCATTGCCAAGCTTGTAGTCT	0.299													10	110					0	0	0.008291	0	0		A	680125	A	A	680125	3	1	83	1	0	0	0	0	1	0	0	0	6465	971	34	2	680	2	GLOD4	17	680125	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08		680125	80515085	107	51807											
TP53	7157	broad.mit.edu	37	chr17	7577084	7577084	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgcggagattctcttccTctgtgcgccggtctctccca	3	14	9	15	3	4	1	0	0	4	1	8	2	6	1	3	2	2	0	3	2	0	3	rs121912667		TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:7577084T>A	uc002gim.2	-	8	1048	c.854A>T	c.(853-855)GAG>GTG	p.E285V	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.E285V|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.E153V|TP53_uc010cng.1_Missense_Mutation_p.E153V|TP53_uc002gii.1_Missense_Mutation_p.E153V|TP53_uc010cnh.1_Missense_Mutation_p.E285V|TP53_uc010cni.1_Missense_Mutation_p.E285V|TP53_uc002gij.2_Missense_Mutation_p.E285V	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	285	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> K (in sporadic cancers; somatic mutation).|E -> V (in sporadic cancers; somatic mutation).|E -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|E -> A (in a sporadic cancer; somatic mutation).|E -> G (in sporadic cancers; somatic mutation).|E -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.E285K(95)|p.E285*(16)|p.E285V(13)|p.0?(7)|p.E285Q(4)|p.E285E(3)|p.E285G(3)|p.E285A(2)|p.?(2)|p.R283fs*16(2)|p.E285_N288delEEEN(1)|p.R282_E287delRRTEEE(1)|p.T284_G293del10(1)|p.G279fs*59(1)|p.E285fs*13(1)|p.L265_K305del41(1)|p.T284fs*57(1)|p.R283fs*56(1)|p.V272_K292del21(1)|p.R283fs*59(1)|p.E285_L289delEEENL(1)|p.E285fs*60(1)|p.E285fs*20(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ATTCTCTTCCTCTGTGCGCCG	0.562		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			13	39					0	0	0.001855	0	0		A	7577084	A	A	7577084	3	1	83	1	0	0	0	0	1	0	0	0	16407	1551	54	5	432	5	TP53	17	7577084	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	6896959	7577084	73618126	108	51808											
DNAH2	146754	broad.mit.edu	37	chr17	7724572	7724572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctcccaggtacacctgccGtacccttttcgaacgccaca	8	10	6	17	3	1	0	0	0	1	0	3	1	1	0	5	1	4	2	5	1	3	5	rs142766785		TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:7724572G>A	uc002giu.1	+	72	11041	c.11027G>A	c.(11026-11028)CGT>CAT	p.R3676H	DNAH2_uc010cnm.1_Missense_Mutation_p.R614H	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3676					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TACACCTGCCGTACCCTTTTC	0.483													8	107					0	0	0.004482	0	0		A	7724572	A	A	7724572	3	1	83	1	0	0	0	0	1	0	0	0	4608	1145	40	1	11313	1	DNAH2	17	7724572	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	147488	7724572	73470638	109	51809											
DNAH9	1770	broad.mit.edu	37	chr17	11795238	11795238	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgagtgtgataagctgAcctaccttgcccagctcacc	8	12	8	13	0	2	3	1	3	1	0	2	3	2	3	4	0	4	2	4	0	2	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:11795238A>C	uc002gne.2	+	58	11325	c.11257A>C	c.(11257-11259)ACC>CCC	p.T3753P	DNAH9_uc010coo.2_Missense_Mutation_p.T3047P|DNAH9_uc002gnf.2_Missense_Mutation_p.T65P|DNAH9_uc010vvh.1_Missense_Mutation_p.T106P	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3753					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TGATAAGCTGACCTACCTTGC	0.473													15	144					0	0	0.00245	0	0		C	11795238	C	C	11795238	3	2	83	1	0	0	0	0	1	0	0	0	4614	275	10	5	11487	5	DNAH9	17	11795238	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	4070666	11795238	69399972	110	51810											
MPRIP	23164	broad.mit.edu	37	chr17	17077343	17077343	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccgagcggcaggcccTgcggcagtgccagcgtgaga	7	3	19	12	4	0	1	0	1	0	1	0	4	0	2	3	5	4	2	3	5	0	0			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:17077343T>G	uc002gqu.1	+	18	2599	c.2543T>G	c.(2542-2544)CTG>CGG	p.L848R	MPRIP_uc002gqv.1_Missense_Mutation_p.L848R|MPRIP_uc002gqw.1_Missense_Mutation_p.L603R|MPRIP_uc002gqx.1_Missense_Mutation_p.L1077R|MPRIP_uc002gqy.1_Missense_Mutation_p.L1077R|MPRIP_uc010cpl.1_Missense_Mutation_p.L74R|MPRIP_uc010cpm.1_Missense_Mutation_p.L74R	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	848	Interaction with PPP1R12A.|Potential.					cytoplasm|cytoskeleton	actin binding				0						CGGCAGGCCCTGCGGCAGTGC	0.647													5	40					0	0	0.000602	0	0		G	17077343	G	G	17077343	3	3	83	1	0	0	0	0	1	0	0	0	9761	1580	55	5	2613	5	MPRIP	17	17077343	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	5282105	17077343	64117867	111	51811											
NLK	51701	broad.mit.edu	37	chr17	26518100	26518100	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacccctacctagatgaaggGcgactacgatatcacacatg	13	7	8	13	2	1	2	1	1	0	1	1	4	1	2	3	1	2	0	3	1	5	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:26518100G>A	uc010crj.2	+	9	1502	c.1290G>A	c.(1288-1290)GGG>GGA	p.G430G	NLK_uc010cri.1_RNA	NM_016231	NP_057315	Q9UBE8	NLK_HUMAN	nemo like kinase	430					intracellular protein kinase cascade|negative regulation of Wnt receptor signaling pathway|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|serine phosphorylation of STAT3 protein|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|MAP kinase activity|SH2 domain binding|transcription factor binding|ubiquitin protein ligase binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_lung(13;0.000343)|Lung NSC(42;0.00184)			UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		TAGATGAAGGGCGACTACGAT	0.423													12	82					0	0	0.010729	0	0		A	26518100	A	A	26518100	2	1	83	1	0	0	0	0	0	0	0	1	10485	1190	42	2		2	NLK	17	26518100	Silent	SNP	G	TCGA-BR-8590-01A-11D-2394-08	9440757	26518100	54677110	112	51812											
FOXN1	8456	broad.mit.edu	37	chr17	26851592	26851592	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacaccctcactgcccccAcacagcccccgcattgcgtc	8	5	7	21	2	1	0	1	0	0	0	2	1	1	1	5	1	3	1	5	1	0	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:26851592A>C	uc010crm.2	+	3	393	c.195A>C	c.(193-195)CCA>CCC	p.P65P	FOXN1_uc002hbj.2_Silent_p.P65P	NM_003593	NP_003584	O15353	FOXN1_HUMAN	forkhead box N1	65					defense response|embryo development|epithelial cell proliferation|keratinocyte differentiation|organ morphogenesis|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|thymus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	Lung NSC(42;0.00431)					CACTGCCCCCACACAGCCCCC	0.662													12	115					0	0	0.001855	0	0		C	26851592	C	C	26851592	2	2	83	1	0	0	0	0	0	0	0	1	6033	146	6	5		5	FOXN1	17	26851592	Silent	SNP	A	TCGA-BR-8590-01A-11D-2394-08	333492	26851592	54343618	113	51813											
GIT1	28964	broad.mit.edu	37	chr17	27903385	27903385	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgccatgggtgtgtgttcCgcccgttcactggggagtgg	3	10	18	10	3	1	0	1	0	0	0	2	1	2	1	3	5	0	2	3	5	0	2	rs144848199		TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:27903385C>T	uc002hef.2	-	14	1678	c.1464G>A	c.(1462-1464)GCG>GCA	p.A488A	GIT1_uc002heg.2_Silent_p.A497A|GIT1_uc010wbg.1_Silent_p.A497A|GIT1_uc010csb.1_Silent_p.A488A	NM_014030	NP_054749	Q9Y2X7	GIT1_HUMAN	G protein-coupled receptor kinase interactor 1	488					regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|focal adhesion	ARF GTPase activator activity|protein binding|zinc ion binding				0				READ - Rectum adenocarcinoma(3;0.0419)|Colorectal(3;0.069)		GTGTGTGTTCCGCCCGTTCAC	0.652													8	97					0	0	0.006214	0	0		T	27903385	T	T	27903385	2	4	83	1	0	0	0	0	0	0	0	1	6411	639	23	1		1	GIT1	17	27903385	Silent	SNP	C	TCGA-BR-8590-01A-11D-2394-08	1051793	27903385	53291825	114	51814											
NLE1	54475	broad.mit.edu	37	chr17	33464035	33464035	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttacgtcatgagctctccaGactttgatggtgcggtcctg	6	13	11	11	2	2	3	1	2	1	1	4	3	3	3	2	2	3	1	2	2	1	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:33464035G>A	uc002hiy.1	-	7	841	c.813C>T	c.(811-813)GTC>GTT	p.V271V	NLE1_uc010ctn.1_5'UTR|NLE1_uc002hiz.1_5'UTR	NM_018096	NP_060566	Q9NVX2	NLE1_HUMAN	Notchless gene homolog isoform a	271	WD 4.					nucleolus				breast(3)|ovary(1)	4		Ovarian(249;0.17)				GAGCTCTCCAGACTTTGATGG	0.577													11	112					0	0	0.010729	0	0		A	33464035	A	A	33464035	2	1	83	1	0	0	0	0	0	0	0	1	10479	929	33	4		4	NLE1	17	33464035	Silent	SNP	G	TCGA-BR-8590-01A-11D-2394-08	5560650	33464035	47731175	115	51815											
MYL4	4635	broad.mit.edu	37	chr17	45299205	45299205	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggtgctgagcttcggcaCgtccttgccaccctgggtat	5	11	13	12	2	0	1	0	1	0	0	2	1	1	1	3	3	3	4	3	3	1	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:45299205C>T	uc002ilg.2	+	5	599	c.471C>T	c.(469-471)CAC>CAT	p.H157H	MYL4_uc002ilh.2_Silent_p.H157H	NM_001002841	NP_001002841	P12829	MYL4_HUMAN	atrial/embryonic alkali myosin light chain	157	EF-hand 2.				cardiac muscle contraction|muscle filament sliding|muscle organ development|positive regulation of ATPase activity|regulation of the force of heart contraction	A band|cytosol|muscle myosin complex	actin filament binding|actin monomer binding|calcium ion binding|myosin II heavy chain binding|structural constituent of muscle			ovary(2)	2						AGCTTCGGCACGTCCTTGCCA	0.602													5	47					0	0	0.000602	0	0		T	45299205	T	T	45299205	2	4	83	1	0	0	0	0	0	0	0	1	10067	535	19	1		1	MYL4	17	45299205	Silent	SNP	C	TCGA-BR-8590-01A-11D-2394-08	11835170	45299205	35896005	116	51816											
VEZF1	7716	broad.mit.edu	37	chr17	56059243	56059243	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaactcttacttggcatttGaagggtctttctgttgaatg	8	18	9	6	0	3	2	0	2	3	0	3	2	3	2	0	2	2	2	0	2	4	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:56059243G>A	uc002ivf.1	-	3	926	c.783C>T	c.(781-783)TTC>TTT	p.F261F	VEZF1_uc010dcn.1_Silent_p.F105F	NM_007146	NP_009077	Q14119	VEZF1_HUMAN	zinc finger protein 161	261	C2H2-type 5.				cellular defense response|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						CTTGGCATTTGAAGGGTCTTT	0.378													4	59					0	0	0.009096	0	0		A	56059243	A	A	56059243	2	1	83	1	0	0	0	0	0	0	0	1	17181	1281	45	4		4	VEZF1	17	56059243	Silent	SNP	G	TCGA-BR-8590-01A-11D-2394-08	10760038	56059243	25135967	117	51817											
VEZF1	7716	broad.mit.edu	37	chr17	56059278	56059278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaatggacatgttttacatGacagcttaagtggtcaggcc	11	12	11	7	0	1	2	1	2	0	0	1	3	1	3	1	3	2	2	1	3	3	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:56059278G>A	uc002ivf.1	-	3	891	c.748C>T	c.(748-750)CAT>TAT	p.H250Y	VEZF1_uc010dcn.1_Missense_Mutation_p.H94Y	NM_007146	NP_009077	Q14119	VEZF1_HUMAN	zinc finger protein 161	250	C2H2-type 4.				cellular defense response|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						TGTTTTACATGACAGCTTAAG	0.378													6	68					0	0	0.001984	0	0		A	56059278	A	A	56059278	3	1	83	1	0	0	0	0	1	0	0	0	17181	1290	45	4	833	4	VEZF1	17	56059278	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	35	56059278	25135932	118	51818											
RPS6KB1	6198	broad.mit.edu	37	chr17	58024086	58024086	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacagccgaactctgggccAtacaaaaaacaagcttttcc	14	7	7	13	2	1	0	0	0	1	0	2	2	2	0	3	1	5	1	3	1	6	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:58024086A>T	uc002ixy.2	+	15	1618	c.1515A>T	c.(1513-1515)CCA>CCT	p.P505P	RPS6KB1_uc010ddj.1_Intron|RPS6KB1_uc010wom.1_Silent_p.P452P|RPS6KB1_uc010won.1_Silent_p.P482P|RPS6KB1_uc010woo.1_Silent_p.P440P|RPS6KB1_uc002ixz.2_RNA	NM_003161	NP_003152	P23443	KS6B1_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	505	Autoinhibitory domain.				apoptosis|G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|negative regulation of apoptosis|phosphatidylinositol-mediated signaling|positive regulation of mitotic cell cycle|positive regulation of translational initiation|TOR signaling cascade	cell junction|cytoplasm|cytosol|mitochondrial outer membrane|nucleus|nucleus|synapse|synaptosome	ATP binding|protein binding|protein kinase activity			large_intestine(1)	1	all_cancers(5;1.63e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.57e-12)|all cancers(12;6.41e-11)			ACTCTGGGCCATACAAAAAAC	0.453													7	102					0	0	0.001984	0	0		T	58024086	T	T	58024086	2	4	83	1	0	0	0	0	0	0	0	1	13681	204	8	5		5	RPS6KB1	17	58024086	Silent	SNP	A	TCGA-BR-8590-01A-11D-2394-08	1964808	58024086	23171124	119	51819											
PRKAR1A	5573	broad.mit.edu	37	chr17	66524021	66524021	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagatgtatgaggaattccTtagtaaagtctctattttag	13	15	9	4	0	1	2	0	1	1	1	3	4	2	3	1	1	0	2	1	1	8	7			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr17:66524021T>G	uc002jhg.2	+	8	929	c.749T>G	c.(748-750)CTT>CGT	p.L250R	PRKAR1A_uc002jhh.2_Missense_Mutation_p.L250R|PRKAR1A_uc002jhi.2_Missense_Mutation_p.L250R|PRKAR1A_uc002jhj.2_Missense_Mutation_p.L250R|PRKAR1A_uc002jhk.2_Missense_Mutation_p.L126R|PRKAR1A_uc002jhl.2_Missense_Mutation_p.L250R|PRKAR1A_uc002jhm.2_Missense_Mutation_p.L250R	NM_212471	NP_997636	P10644	KAP0_HUMAN	cAMP-dependent protein kinase, regulatory	250	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity|protein binding			adrenal_gland(4)|lung(3)|thyroid(2)|soft_tissue(2)|breast(1)	12	Breast(10;1.64e-13)					GAGGAATTCCTTAGTAAAGTC	0.368			T|Mis|N|F|S	RET	papillary thyroid	myxoma|endocrine|papillary thyroid			Carney_Complex|Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial|Cardiac_Myxomas_Familial_Clustering_of				8	58					0	0	0.006214	0	0		G	66524021	G	G	66524021	3	3	83	1	0	0	0	0	1	0	0	0	12525	1609	56	5	775	5	PRKAR1A	17	66524021	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	8499935	66524021	14671189	120	51820											
DCC	1630	broad.mit.edu	37	chr18	50278619	50278619	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcagcaactttcaaatgggtCtctgctgatacaaaacatac	14	10	7	10	0	2	1	1	1	1	0	3	1	2	1	0	1	6	3	0	1	6	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr18:50278619C>G	uc002lfe.1	+	2	874	c.287C>G	c.(286-288)TCT>TGT	p.S96C	DCC_uc010xdr.1_5'UTR	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	96	Extracellular (Potential).|Ig-like C2-type 1.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TCAAATGGGTCTCTGCTGATA	0.458													7	77					0	0	0.00308	0	0		G	50278619	G	G	50278619	3	3	83	1	0	0	0	0	1	0	0	0	4285	913	32	5	293	5	DCC	18	50278619	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08		50278619	27798629	121	51821											
CYB5A	1528	broad.mit.edu	37	chr18	71920857	71920857	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcgatacatcaaggcgaCggccactgcagagatggcag	12	5	14	10	3	1	1	1	0	0	1	1	4	1	1	1	4	2	2	1	4	3	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr18:71920857C>G	uc002lli.2	-	5	478	c.367G>C	c.(367-369)GTC>CTC	p.V123L	CYB5A_uc002llh.2_3'UTR	NM_148923	NP_683725	P00167	CYB5_HUMAN	cytochrome b-5 isoform 1	123	Helical; (Potential).				electron transport chain|water-soluble vitamin metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane	aldo-keto reductase (NADP) activity|cytochrome-c oxidase activity|enzyme binding|heme binding				0		Esophageal squamous(42;0.0749)|Prostate(75;0.157)|Melanoma(33;0.211)			Methoxyflurane(DB01028)	ATCAAGGCGACGGCCACTGCA	0.512													3	33					0	0	0.004672	0	0		G	71920857	G	G	71920857	3	3	83	1	0	0	0	0	1	0	0	0	4125	536	19	5	41	5	CYB5A	18	71920857	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	21642238	71920857	6156391	122	51822											
SALL3	27164	broad.mit.edu	37	chr18	76754852	76754852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaggcgcccctggccgcgCgggcatcaaggaggaggcgc	6	2	19	14	6	1	0	1	0	0	0	1	3	1	3	3	7	0	1	3	7	1	0	rs142929767	by1000genomes	TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr18:76754852C>T	uc002lmt.2	+	2	2861	c.2861C>T	c.(2860-2862)GCG>GTG	p.A954V	SALL3_uc010dra.2_Missense_Mutation_p.A561V	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	954					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		cctggccgcgcgggcATCAAG	0.512													3	18					0	0	0.004672	0	0		T	76754852	T	T	76754852	3	4	83	1	0	0	0	0	1	0	0	0	13837	768	27	1	2867	1	SALL3	18	76754852	Missense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	4833995	76754852	1322396	123	51823											
MUC16	94025	broad.mit.edu	37	chr19	9017470	9017470	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcttttggggtcaagacgGtgggtgcagatggcatccac	7	9	17	8	1	1	2	1	0	0	2	2	2	2	2	1	6	1	3	1	6	1	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr19:9017470G>A	uc002mkp.2	-	26	38058	c.37854C>T	c.(37852-37854)CAC>CAT	p.H12618H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12620	SEA 4.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTCAAGACGGTGGGTGCAGA	0.572													11	87					0	0	0.003163	0	0		A	9017470	A	A	9017470	2	1	83	1	0	0	0	0	0	0	0	1	9991	1252	44	4		4	MUC16	19	9017470	Silent	SNP	G	TCGA-BR-8590-01A-11D-2394-08		9017470	50111513	124	51824											
HAPLN4	404037	broad.mit.edu	37	chr19	19371983	19371983	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actaccgagcccgactcaccCtctgaggacaaccaagcagg	12	4	9	16	2	2	1	1	1	1	0	2	4	2	2	4	2	4	1	4	2	3	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr19:19371983C>T	uc002nmb.2	-	3	178	c.123G>A	c.(121-123)GAG>GAA	p.E41E	HAPLN4_uc002nmc.2_Silent_p.E41E	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	41					cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			CCGACTCACCCTCTGAGGACA	0.642													3	27					0	0	0.004672	0	0		T	19371983	T	T	19371983	2	4	83	1	0	0	0	0	0	0	0	1	6973	695	24	4		4	HAPLN4	19	19371983	Silent	SNP	C	TCGA-BR-8590-01A-11D-2394-08	10354513	19371983	39757000	125	51825											
ZNF99	7652	broad.mit.edu	37	chr19	22939535	22939535	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccccagtatgaattatcTtatgtttcataagggttgag	10	16	8	7	0	3	2	1	2	2	0	4	2	3	2	2	1	0	3	2	1	5	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr19:22939535T>G	uc010xrh.1	-	7	2636	c.2636A>C	c.(2635-2637)AAG>ACG	p.K879T		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				ATGAATTATCTTATGTTTCAT	0.348													8	38					0	0	0.006214	0	0		G	22939535	G	G	22939535	3	3	83	1	0	0	0	0	1	0	0	0	18229	1609	56	5	480	5	ZNF99	19	22939535	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	3567552	22939535	36189448	126	51826											
ZNF829	374899	broad.mit.edu	37	chr19	37383033	37383033	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatatgaactacaactaaaAgccttgccacattccttaca	17	10	3	11	0	0	1	0	1	0	0	1	1	1	1	3	0	6	0	3	0	8	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr19:37383033A>G	uc002ofa.1	-	6	1022	c.660T>C	c.(658-660)GCT>GCC	p.A220A	ZNF345_uc002oez.2_Intron	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	220	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TACAACTAAAAGCCTTGCCAC	0.403													7	53					0	0	0.00308	0	0		G	37383033	G	G	37383033	2	3	83	1	0	0	0	0	0	0	0	1	18207	59	3	3		3	ZNF829	19	37383033	Silent	SNP	A	TCGA-BR-8590-01A-11D-2394-08	14443498	37383033	21745950	127	51827											
ZNF585A	199704	broad.mit.edu	37	chr19	37644040	37644040	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgcatcttgagtgtggacTtttgtgtgaatgctttgcca	7	16	12	6	0	1	2	0	2	1	0	1	4	1	3	1	1	3	2	1	1	1	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr19:37644040T>C	uc002ofo.1	-	5	992	c.761A>G	c.(760-762)AAG>AGG	p.K254R	ZNF585A_uc002ofm.1_Missense_Mutation_p.K199R|ZNF585A_uc002ofn.1_Missense_Mutation_p.K199R	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	254	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAGTGTGGACTTTTGTGTGAA	0.423													14	122					0	0	0.001855	0	0		C	37644040	C	C	37644040	3	2	83	1	0	0	0	0	1	0	0	0	18042	1609	56	3	1552	3	ZNF585A	19	37644040	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	261007	37644040	21484943	128	51828											
SIGLEC12	89858	broad.mit.edu	37	chr19	52002437	52002437	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttacctgtgccatctccTtggaagacagtcatggtcaa	10	12	8	11	0	4	1	2	0	2	1	5	2	4	2	3	2	2	0	3	2	3	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr19:52002437T>A	uc002pwx.1	-	4	1178	c.1122A>T	c.(1120-1122)CAA>CAT	p.Q374H	SIGLEC12_uc002pww.1_Missense_Mutation_p.Q256H|SIGLEC12_uc010eoy.1_Missense_Mutation_p.Q101H	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	374	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		TGCCATCTCCTTGGAAGACAG	0.572													10	73					0	0	0.010729	0	0		A	52002437	A	A	52002437	3	1	83	1	0	0	0	0	1	0	0	0	14333	1606	56	5	685	5	SIGLEC12	19	52002437	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	14358397	52002437	7126546	129	51829											
ZNF578	147660	broad.mit.edu	37	chr19	53014994	53014994	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttcatactggagagaaaTcttacaaatgtgaagaatgt	16	11	9	5	0	2	3	1	1	1	2	2	6	2	4	0	1	2	0	0	1	6	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr19:53014994T>C	uc002pzp.3	+	6	1604	c.1360T>C	c.(1360-1362)TCT>CCT	p.S454P		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	229					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		TGGAGAGAAATCTTACAAATG	0.373													11	40					0	0	0.008291	0	0		C	53014994	C	C	53014994	3	2	83	1	0	0	0	0	1	0	0	0	18035	1435	50	3	1370	3	ZNF578	19	53014994	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	1012557	53014994	6113989	130	51830											
KIR2DL4	3805	broad.mit.edu	37	chr19	55320312	55320312	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccttctagtagttggccttCacccactgaaccaagcttca	9	11	6	15	0	3	1	2	1	1	0	3	1	3	1	4	1	2	3	4	1	4	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr19:55320312C>G	uc010yfm.1	+	5	720	c.680C>G	c.(679-681)TCA>TGA	p.S227*	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL4_uc010yfl.1_Nonsense_Mutation_p.S222*|KIR2DL4_uc002qhg.2_Nonsense_Mutation_p.S227*|KIR2DL4_uc002qhi.2_Intron|KIR2DL4_uc002qhh.2_Nonsense_Mutation_p.S132*|KIR2DL4_uc002qhj.2_Intron|KIR2DL4_uc002qhf.2_Intron|KIR2DL4_uc010esd.2_Intron|KIR2DL4_uc010ese.2_Intron	NM_002255	NP_002246	Q99706	KI2L4_HUMAN	killer cell immunoglobulin-like receptor, two	227	Extracellular (Potential).				cellular defense response|regulation of immune response	integral to plasma membrane	protein binding|transmembrane receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0192)		AGTTGGCCTTCACCCACTGAA	0.403													6	133					0	0	0.001984	0	0		G	55320312	G	G	55320312	4	3	83	1	0	0	0	0	0	1	0	0	8334	838	29	5	698	5	KIR2DL4	19	55320312	Nonsense_Mutation	SNP	C	TCGA-BR-8590-01A-11D-2394-08	2305318	55320312	3808671	131	51831											
PDYN	5173	broad.mit.edu	37	chr20	1961114	1961114	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcgccgcaagaagcccccaTagcgtttgtacaggtcctca	9	8	10	14	3	1	1	1	0	0	1	2	1	2	1	4	1	4	3	4	1	4	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr20:1961114T>A	uc010gaj.2	-	3	862	c.620A>T	c.(619-621)TAT>TTT	p.Y207F	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.Y207F|PDYN_uc010zpt.1_Missense_Mutation_p.Y52F	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	207					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						GAAGCCCCCATAGCGTTTGTA	0.597													8	161					0	0	0.004482	0	0		A	1961114	A	A	1961114	3	1	83	1	0	0	0	0	1	0	0	0	11718	1406	49	5	148	5	PDYN	20	1961114	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08		1961114	61064406	132	51832											
CSTL1	128817	broad.mit.edu	37	chr20	23421043	23421043	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgaattcaacactcaacTtcttcattcaatcctacaac	15	12	1	13	0	5	1	4	1	1	0	6	1	6	1	1	0	4	0	1	0	6	5			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr20:23421043T>G	uc002wte.2	+	2	385	c.139T>G	c.(139-141)TTC>GTC	p.F47V	CSTL1_uc010zsu.1_RNA|CSTL1_uc010zsv.1_RNA	NM_138283	NP_612140	Q9H114	CST1L_HUMAN	cystatin-like 1 precursor	47						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0993)|Lung NSC(19;0.235)					AACACTCAACTTCTTCATTCA	0.483													11	149					0	0	0.001855	0	0		G	23421043	G	G	23421043	3	3	83	1	0	0	0	0	1	0	0	0	3990	1609	56	5	141	5	CSTL1	20	23421043	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	21459929	23421043	39604477	133	51833											
CST5	1473	broad.mit.edu	37	chr20	23860165	23860165	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttgtactcgctgatggcaAagtccagggcacactgcaca	10	9	11	11	1	0	1	0	1	0	0	2	1	1	1	1	2	2	6	1	2	2	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr20:23860165A>T	uc002wtr.1	-	1	216	c.149T>A	c.(148-150)TTT>TAT	p.F50Y		NM_001900	NP_001891	P28325	CYTD_HUMAN	cystatin D precursor	50						extracellular region	cysteine-type endopeptidase inhibitor activity|protein binding				0						GCTGATGGCAAAGTCCAGGGC	0.582													15	223					0	0	0.00245	0	0		T	23860165	T	T	23860165	3	4	83	1	0	0	0	0	1	0	0	0	3978	14	1	5	291	5	CST5	20	23860165	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	439122	23860165	39165355	134	51834											
CPNE1	8904	broad.mit.edu	37	chr20	34220233	34220233	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccttgctgggttccttacCgtgatggtcccccgcccagc	4	10	10	17	2	0	1	0	1	0	0	2	1	2	1	6	2	3	2	6	2	1	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr20:34220233C>T	uc002xdf.2	-	6	747	c.384G>A	c.(382-384)ACG>ACA	p.T128T	CPNE1_uc002xdc.2_5'Flank|CPNE1_uc010zvj.1_Silent_p.T133T|CPNE1_uc002xde.2_Silent_p.T128T|CPNE1_uc002xdg.2_Silent_p.T128T|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Silent_p.T128T|CPNE1_uc002xdi.2_Silent_p.T128T|CPNE1_uc002xdj.2_Silent_p.T128T|CPNE1_uc002xdk.2_Silent_p.T128T|CPNE1_uc002xdl.2_Silent_p.T128T|CPNE1_uc002xdm.2_Silent_p.T128T|CPNE1_uc010gfk.1_Silent_p.T128T|CPNE1_uc002xdn.1_RNA|CPNE1_uc002xdo.1_RNA|CPNE1_uc002xdp.1_RNA	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	128					lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			GGTTCCTTACCGTGATGGTCC	0.522													4	35					0	0	0.000602	0	0		T	34220233	T	T	34220233	2	4	83	1	0	0	0	0	0	0	0	1	3814	666	23	1		1	CPNE1	20	34220233	Silent	SNP	C	TCGA-BR-8590-01A-11D-2394-08	10360068	34220233	28805287	135	51835											
PES1	23481	broad.mit.edu	37	chr22	30984024	30984024	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccttgtattcacggaacTtgttgacaatgggttcgtgg	8	14	11	8	2	2	1	2	1	0	0	3	2	2	2	1	3	1	3	1	3	3	6			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr22:30984024T>G	uc003aij.1	-	3	316	c.242A>C	c.(241-243)AAG>ACG	p.K81T	PES1_uc003aik.1_Missense_Mutation_p.K81T|PES1_uc003ail.1_Missense_Mutation_p.K81T|PES1_uc003aim.1_Missense_Mutation_p.K81T|PES1_uc003ain.1_5'UTR|PES1_uc003aio.1_5'UTR	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain	81	Sufficient for nucleolar localization.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						TTCACGGAACTTGTTGACAAT	0.284													5	68					0	0	0.001984	0	0		G	30984024	G	G	30984024	3	3	83	1	0	0	0	0	1	0	0	0	11752	1609	56	5	1576	5	PES1	22	30984024	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08		30984024	20320542	136	51836											
SBF1	6305	broad.mit.edu	37	chr22	50895067	50895067	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatcggtgccaaggccacTgctgcgtccactggtccgga	7	7	12	15	3	0	0	0	0	0	0	3	1	2	1	4	4	3	1	4	4	1	0			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chr22:50895067T>C	uc003blh.2	-	30	4135	c.3940A>G	c.(3940-3942)AGT>GGT	p.S1314G	SBF1_uc003ble.2_5'Flank|SBF1_uc003blf.2_5'Flank|SBF1_uc011arx.1_Missense_Mutation_p.S952G	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1288	Myotubularin phosphatase.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		CCAAGGCCACTGCTGCGTCCA	0.692													9	1					0	0	0.004482	0	0		C	50895067	C	C	50895067	3	2	83	1	0	0	0	0	1	0	0	0	13883	1580	55	3	1789	3	SBF1	22	50895067	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	19911043	50895067	409499	137	51837											
GLRA2	2742	broad.mit.edu	37	chrX	14625361	14625361	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgaaagaagagaaggaacTtggctactgtacaaagcact	16	9	10	6	0	0	3	0	1	0	2	0	5	0	4	0	2	4	3	0	2	7	4			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chrX:14625361T>G	uc010nep.2	+	7	1018	c.686T>G	c.(685-687)CTT>CGT	p.L229R	GLRA2_uc010neq.2_Missense_Mutation_p.L229R|GLRA2_uc004cwe.3_Missense_Mutation_p.L229R|GLRA2_uc011mio.1_Missense_Mutation_p.L140R|GLRA2_uc011mip.1_Missense_Mutation_p.L207R	NM_001118885	NP_001112357	P23416	GLRA2_HUMAN	glycine receptor, alpha 2 isoform A	229	Extracellular (Probable).				neuropeptide signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(1)|lung(1)	2	Hepatocellular(33;0.128)				Ethanol(DB00898)|Glycine(DB00145)	GAGAAGGAACTTGGCTACTGT	0.393													19	57					0	0	0.008871	0	0		G	14625361	G	G	14625361	3	3	83	1	0	0	0	0	1	0	0	0	6470	1609	56	5	780	5	GLRA2	23	14625361	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08		14625361	140645199	138	51838											
CNKSR2	22866	broad.mit.edu	37	chrX	21627334	21627334	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcgcaagacagccagtcAgcgccgctcctggcaggatt	9	7	11	14	3	1	1	1	0	0	1	3	2	2	2	3	2	2	3	3	2	1	2			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chrX:21627334A>G	uc004czx.1	+	20	2327	c.2291A>G	c.(2290-2292)CAG>CGG	p.Q764R	CNKSR2_uc004czw.2_Missense_Mutation_p.Q764R|CNKSR2_uc011mjn.1_Missense_Mutation_p.Q715R|CNKSR2_uc011mjo.1_Missense_Mutation_p.Q734R|CNKSR2_uc004czy.2_Missense_Mutation_p.Q356R	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	764					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						ACAGCCAGTCAGCGCCGCTCC	0.532													6	55					0	0	0.001168	0	0		G	21627334	G	G	21627334	3	3	83	1	0	0	0	0	1	0	0	0	3610	188	7	3	2369	3	CNKSR2	23	21627334	Missense_Mutation	SNP	A	TCGA-BR-8590-01A-11D-2394-08	7001973	21627334	133643226	139	51839											
PABPC5	140886	broad.mit.edu	37	chrX	90691563	90691563	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctttgggtcaattagTcgggccaaagtgatgatgga	9	13	12	7	1	2	2	1	2	1	0	4	3	3	3	2	3	0	0	2	3	3	3			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chrX:90691563T>A	uc004efg.2	+	2	1427	c.987T>A	c.(985-987)AGT>AGA	p.S329R	PABPC5_uc004eff.1_Missense_Mutation_p.S165R	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	329	RRM 4.					cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						GGTCAATTAGTCGGGCCAAAG	0.448													8	42					0	0	0.00308	0	0		A	90691563	A	A	90691563	3	1	83	1	0	0	0	0	1	0	0	0	11386	1664	58	5	989	5	PABPC5	23	90691563	Missense_Mutation	SNP	T	TCGA-BR-8590-01A-11D-2394-08	69064229	90691563	64578997	140	51840											
PABPC5	140886	broad.mit.edu	37	chrX	90691626	90691626	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgtggtctgcttttcctcTtttgaagaggctaccaaagc	7	14	11	9	0	2	2	0	1	2	1	3	2	3	2	2	3	3	2	2	3	3	5			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chrX:90691626T>C	uc004efg.2	+	2	1490	c.1050T>C	c.(1048-1050)TCT>TCC	p.S350S	PABPC5_uc004eff.1_Silent_p.S186S	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	350	RRM 4.					cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						GCTTTTCCTCTTTTGAAGAGG	0.532													9	31					0	0	0.004482	0	0		C	90691626	C	C	90691626	2	2	83	1	0	0	0	0	0	0	0	1	11386	1596	56	3		3	PABPC5	23	90691626	Silent	SNP	T	TCGA-BR-8590-01A-11D-2394-08	63	90691626	64578934	141	51841											
ACTRT1	139741	broad.mit.edu	37	chrX	127185687	127185687	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggagtaaccctcaaagatggGgacagtgcaagtgaccccat	13	6	12	10	0	1	2	1	1	0	1	1	4	1	4	3	3	2	2	3	3	3	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chrX:127185687G>T	uc004eum.2	-	1	696	c.499C>A	c.(499-501)CCC>ACC	p.P167T		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	167						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						TCAAAGATGGGGACAGTGCAA	0.577													14	54					1.5842e-08	1.69244e-08	0.001855	1	0		T	127185687	T	T	127185687	3	4	83	1	0	0	0	0	1	0	0	0	218	1232	43	5	635	5	ACTRT1	23	127185687	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	36494061	127185687	28084873	142	51842											
ABCD1	215	broad.mit.edu	37	chrX	152991318	152991318	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgaccagtctctgacggaGgacgtggtggcctttgcggc	5	9	15	12	3	1	2	0	2	1	0	2	4	1	4	3	5	1	0	3	5	0	1			TCGA-BR-8590-01A-11D-2394-08	TCGA-BR-8590-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2040e830-a590-4b3b-a1e1-2addef74d2a3	974b3d0e-a371-4ac2-bf63-94ad2f7e6d44	g.chrX:152991318G>T	uc004fif.2	+	1	996	c.597G>T	c.(595-597)GAG>GAT	p.E199D	BCAP31_uc004fid.2_5'Flank|BCAP31_uc011myz.1_5'Flank|BCAP31_uc011mza.1_5'Flank|BCAP31_uc004fie.2_5'Flank	NM_000033	NP_000024	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member	199	ABC transmembrane type-1.				fatty acid beta-oxidation using acyl-CoA oxidase|peroxisomal membrane transport|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|identical protein binding|peroxisomal fatty-acyl-CoA transporter activity				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTCTGACGGAGGACGTGGTGG	0.637													8	34					5.18039e-06	5.43309e-06	0.00308	1	0		T	152991318	T	T	152991318	3	4	83	1	0	0	0	0	1	0	0	0	60	991	35	5	599	5	ABCD1	23	152991318	Missense_Mutation	SNP	G	TCGA-BR-8590-01A-11D-2394-08	25805631	152991318	2279242	143	51843											
KLHL17	339451	broad.mit.edu	37	chr1	899383	899383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctatgtgcgagtggccaCgcttggtgggtgatggggcc	4	9	19	9	3	0	1	0	1	0	0	0	2	0	1	2	5	1	2	2	5	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:899383C>T	uc001aca.1	+	9	1546	c.1439C>T	c.(1438-1440)ACG>ATG	p.T480M	KLHL17_uc001acc.1_RNA|PLEKHN1_uc001acd.2_5'Flank|PLEKHN1_uc001acf.2_5'Flank|PLEKHN1_uc001ace.2_5'Flank	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	480	Interaction with F-actin (By similarity).|Kelch 3.				actin cytoskeleton organization	actin cytoskeleton|cell junction|postsynaptic density|postsynaptic membrane	protein complex scaffold				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.52e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.59e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000469)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CGAGTGGCCACGCTTGGTGGG	0.682													59	115					0	0	1	0	0		T	899383	T	T	899383	3	4	84	1	0	0	0	0	1	0	0	0	8388	536	19	1	1473	1	KLHL17	1	899383	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08		899383	248351238	1	51844											
PLEKHN1	84069	broad.mit.edu	37	chr1	907764	907764	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcacccacagggagggggCcccgccgctgcctggtgccg	4	5	16	16	3	1	0	1	0	0	0	1	1	1	1	6	4	2	1	6	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:907764C>G	uc001ace.2	+	9	1153	c.1118C>G	c.(1117-1119)GCC>GGC	p.A373G	PLEKHN1_uc001acd.2_Missense_Mutation_p.A321G|PLEKHN1_uc001acf.2_Missense_Mutation_p.A333G	NM_032129	NP_115505	Q494U1	PKHN1_HUMAN	pleckstrin homology domain containing, family N	373											0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.93e-23)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.00095)|Kidney(185;0.0023)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.199)		AGGGAGGGGGCCCCGCCGCTG	0.672													4	6					0	0	1	0	0		G	907764	G	G	907764	3	3	84	1	0	0	0	0	1	0	0	0	12102	739	26	5	1036	5	PLEKHN1	1	907764	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	8381	907764	248342857	2	51845											
SDF4	51150	broad.mit.edu	37	chr1	1154278	1154278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtccgcctggtaccagcGgtccttcaggttctccagga	5	10	12	14	2	2	0	1	0	1	0	5	1	4	1	5	4	2	3	5	4	1	3	rs151114509	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:1154278G>A	uc001adh.3	-	5	936	c.607C>T	c.(607-609)CGC>TGC	p.R203C	SDF4_uc001adg.2_RNA|SDF4_uc001adi.3_Missense_Mutation_p.R203C|SDF4_uc009vjv.2_Missense_Mutation_p.R81C|SDF4_uc009vjw.2_RNA	NM_016176	NP_057260	Q9BRK5	CAB45_HUMAN	stromal cell derived factor 4 isoform 2	203	EF-hand 3.				cerebellum development|fat cell differentiation|response to ethanol|UV protection|zymogen granule exocytosis	bleb|Golgi lumen|late endosome|soluble fraction	calcium ion binding|calcium ion binding|identical protein binding|protein binding			upper_aerodigestive_tract(1)|large_intestine(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;7.85e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.42e-21)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;4.83e-05)|Kidney(185;0.00252)|BRCA - Breast invasive adenocarcinoma(365;0.00263)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0368)|Lung(427;0.204)		TGGTACCAGCGGTCCTTCAGG	0.632													40	132					0	0	1	0	0		A	1154278	A	A	1154278	3	1	84	1	0	0	0	0	1	0	0	0	13987	1116	39	1	609	1	SDF4	1	1154278	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	246514	1154278	248096343	3	51846											
B3GALT6	126792	broad.mit.edu	37	chr1	1168284	1168284	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggcaactctgcgactactAcctgccctacgcgctgggcg	6	8	11	16	4	1	0	0	0	1	0	1	1	1	0	2	2	6	2	2	2	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:1168284A>G	uc001adk.2	+	1	656	c.626A>G	c.(625-627)TAC>TGC	p.Y209C	SDF4_uc001adh.3_5'Flank|SDF4_uc001adi.3_5'Flank|SDF4_uc009vjv.2_5'Flank|SDF4_uc009vjw.2_5'Flank	NM_080605	NP_542172	Q96L58	B3GT6_HUMAN	beta-1,3-galactosyltransferase 6	209	Lumenal (Potential).				glycosaminoglycan biosynthetic process|protein glycosylation	Golgi cisterna membrane|Golgi medial cisterna|integral to membrane	galactosylxylosylprotein 3-beta-galactosyltransferase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;2.22e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		TGCGACTACTACCTGCCCTAC	0.667													3	4					0	0	1	0	0		G	1168284	G	G	1168284	3	3	84	1	0	0	0	0	1	0	0	0	1252	391	14	3	628	3	B3GALT6	1	1168284	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	14006	1168284	248082337	4	51847											
DVL1	1855	broad.mit.edu	37	chr1	1277817	1277817	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggtctgtgtggctgtcCgtgccctgggaccccgcatc	3	9	15	14	2	1	0	0	0	1	0	3	1	2	1	4	4	1	3	4	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:1277817C>T	uc001aer.3	-	3	335	c.288G>A	c.(286-288)ACG>ACA	p.T96T	DVL1_uc002quu.2_5'Flank|DVL1_uc009vka.2_5'Flank|DVL1_uc001aeu.1_5'Flank	NM_004421	NP_004412	O14640	DVL1_HUMAN	dishevelled 1	96					canonical Wnt receptor signaling pathway|dendrite morphogenesis|intracellular signal transduction|negative regulation of protein binding|negative regulation of protein kinase activity|neural tube development|neuromuscular junction development|neurotransmitter secretion|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein localization to nucleus|receptor clustering|transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, planar cell polarity pathway	cytoplasmic membrane-bounded vesicle|cytosol|plasma membrane|synapse|synaptosome	frizzled binding|identical protein binding|protein kinase binding|signal transducer activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		TGTGGCTGTCCGTGCCCTGGG	0.711													5	11					0	0	1	0	0		T	1277817	T	T	1277817	2	4	84	1	0	0	0	0	0	0	0	1	4841	639	23	1		1	DVL1	1	1277817	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	109533	1277817	247972804	5	51848											
NADK	65220	broad.mit.edu	37	chr1	1685059	1685059	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcaaaggacacccatgcTgtgttccttgcttcaggtga	9	11	9	12	0	2	1	2	1	0	0	3	2	3	2	3	2	2	3	3	2	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:1685059T>C	uc009vkw.2	-	11	1252	c.1131A>G	c.(1129-1131)ACA>ACG	p.T377T	NADK_uc001aic.2_Silent_p.T377T|NADK_uc001aid.3_Silent_p.T377T|NADK_uc001aie.2_Silent_p.T522T|NADK_uc010nyv.1_Silent_p.T345T	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	377					ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)		ACACCCATGCTGTGTTCCTTG	0.627													7	24					0	0	1	0	0		C	1685059	C	C	1685059	2	2	84	1	0	0	0	0	0	0	0	1	10155	1567	55	3		3	NADK	1	1685059	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	407242	1685059	247565562	6	51849											
PLCH2	9651	broad.mit.edu	37	chr1	2415891	2415891	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccttgcattgcaggaagCggacacggatgaccaccaag	12	5	13	11	2	0	1	0	1	0	0	0	4	0	4	3	4	3	2	3	4	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:2415891C>T	uc001aji.1	+	5	924	c.650C>T	c.(649-651)GCG>GTG	p.A217V	PLCH2_uc010nyz.1_Missense_Mutation_p.A5V|PLCH2_uc009vle.1_Missense_Mutation_p.A5V|PLCH2_uc001ajj.1_Missense_Mutation_p.A5V|PLCH2_uc001ajk.1_Missense_Mutation_p.A5V	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	217	EF-hand 2.				intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		TTGCAGGAAGCGGACACGGAT	0.597													9	38					0	0	1	0	0		T	2415891	T	T	2415891	3	4	84	1	0	0	0	0	1	0	0	0	12057	768	27	1	668	1	PLCH2	1	2415891	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	730832	2415891	246834730	7	51850											
PLCH2	9651	broad.mit.edu	37	chr1	2426323	2426323	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaagaggacgtggagtctgGggaggatgccggggccagca	9	5	20	7	2	1	2	0	1	1	1	1	6	1	6	2	7	2	1	2	7	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:2426323G>T	uc001aji.1	+	12	1962	c.1688G>T	c.(1687-1689)GGG>GTG	p.G563V	PLCH2_uc010nyz.1_Missense_Mutation_p.G351V|PLCH2_uc009vle.1_Missense_Mutation_p.G351V|PLCH2_uc001ajj.1_Missense_Mutation_p.G351V|PLCH2_uc001ajk.1_Missense_Mutation_p.G351V	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	563					intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		GTGGAGTCTGGGGAGGATGCC	0.672													5	13					5.9392e-07	6.26656e-07	1	1	0		T	2426323	T	T	2426323	3	4	84	1	0	0	0	0	1	0	0	0	12057	1232	43	5	1734	5	PLCH2	1	2426323	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	10432	2426323	246824298	8	51851											
C1orf174	339448	broad.mit.edu	37	chr1	3809521	3809521	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggctgccgaacaacttcGtgctttcaagcgcgctgaag	8	9	11	13	4	1	1	1	1	0	0	2	2	1	1	2	1	5	3	2	1	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:3809521G>A	uc001alf.2	-	2	162	c.55C>T	c.(55-57)CGA>TGA	p.R19*	C1orf174_uc009vls.2_RNA	NM_207356	NP_997239	Q8IYL3	CA174_HUMAN	hypothetical protein LOC339448	19											0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;5.09e-25)|all_epithelial(116;9.35e-17)|all_lung(118;1.09e-06)|Lung NSC(185;0.000139)|all_neural(13;0.00287)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0219)|all_hematologic(16;0.027)|Colorectal(325;0.0276)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;1.55e-39)|OV - Ovarian serous cystadenocarcinoma(86;5.99e-23)|GBM - Glioblastoma multiforme(42;2.22e-17)|Colorectal(212;1.08e-05)|COAD - Colon adenocarcinoma(227;5.49e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000365)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.19)		GAACAACTTCGTGCTTTCAAG	0.567													10	43					0	0	1	0	0		A	3809521	A	A	3809521	4	1	84	1	0	0	0	0	0	1	0	0	2018	1153	40	1	688	1	C1orf174	1	3809521	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1383198	3809521	245441100	9	51852											
RNF207	388591	broad.mit.edu	37	chr1	6272055	6272055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaccaaggtgctgctggCggagggcgagaacacgccct	9	4	15	13	3	0	1	0	0	0	1	0	3	0	2	2	4	4	3	2	4	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:6272055C>T	uc001amg.2	+	13	1412	c.1238C>T	c.(1237-1239)GCG>GTG	p.A413V	RNF207_uc010nzp.1_RNA	NM_207396	NP_997279	Q6ZRF8	RN207_HUMAN	ring finger protein 207	413						intracellular	zinc ion binding				0	Ovarian(185;0.0634)	all_cancers(23;1.22e-38)|all_epithelial(116;4.25e-22)|all_lung(118;7.95e-08)|Lung NSC(185;1.6e-06)|all_neural(13;3.18e-06)|all_hematologic(16;8.99e-06)|Acute lymphoblastic leukemia(12;0.000365)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00104)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)|Medulloblastoma(700;0.211)		Epithelial(90;4.84e-38)|GBM - Glioblastoma multiforme(13;5.77e-32)|OV - Ovarian serous cystadenocarcinoma(86;2.88e-19)|Colorectal(212;6.9e-08)|COAD - Colon adenocarcinoma(227;8.13e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.00311)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.182)		GTGCTGCTGGCGGAGGGCGAG	0.662													4	11					0	0	1	0	0		T	6272055	T	T	6272055	3	4	84	1	0	0	0	0	1	0	0	0	13499	768	27	1	1284	1	RNF207	1	6272055	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2462534	6272055	242978566	10	51853											
RNF207	388591	broad.mit.edu	37	chr1	6272090	6272090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccttcgcagagcactgcCgccactatgaggactcctac	8	7	9	17	3	0	2	0	1	0	1	2	3	1	3	4	1	3	2	4	1	2	3	rs138727802	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:6272090C>T	uc001amg.2	+	13	1447	c.1273C>T	c.(1273-1275)CGC>TGC	p.R425C	RNF207_uc010nzp.1_RNA	NM_207396	NP_997279	Q6ZRF8	RN207_HUMAN	ring finger protein 207	425	Potential.					intracellular	zinc ion binding				0	Ovarian(185;0.0634)	all_cancers(23;1.22e-38)|all_epithelial(116;4.25e-22)|all_lung(118;7.95e-08)|Lung NSC(185;1.6e-06)|all_neural(13;3.18e-06)|all_hematologic(16;8.99e-06)|Acute lymphoblastic leukemia(12;0.000365)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00104)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)|Medulloblastoma(700;0.211)		Epithelial(90;4.84e-38)|GBM - Glioblastoma multiforme(13;5.77e-32)|OV - Ovarian serous cystadenocarcinoma(86;2.88e-19)|Colorectal(212;6.9e-08)|COAD - Colon adenocarcinoma(227;8.13e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.00311)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.182)		AGAGCACTGCCGCCACTATGA	0.642													7	16					0	0	1	0	0		T	6272090	T	T	6272090	3	4	84	1	0	0	0	0	1	0	0	0	13499	652	23	1	1319	1	RNF207	1	6272090	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	35	6272090	242978531	11	51854											
RERE	473	broad.mit.edu	37	chr1	8420317	8420318	+	Frame_Shift_Ins	INS	-	C	C																															gtggggagtgggcaggacgaINScccccccgctatgctgcctc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:8420317_8420318insC	uc001ape.2	-	19	4059_4060	c.3249_3250insG	c.(3247-3252)GGGTCGfs	p.G1083fs	RERE_uc001apf.2_Frame_Shift_Ins_p.G1083fs|RERE_uc010nzx.1_Frame_Shift_Ins_p.G815fs|RERE_uc001apd.2_Frame_Shift_Ins_p.G529fs	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1083_1084	Pro-rich.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		GGGCAGGACGACCCCCCCGCTA	0.718													5	9	---	---	---	---						.	C	8420318	C	C	8420317	7	5	84	1	0	1	1	0	0	0	0	0	13256	275	10	0	1474	0	RERE	1	8420317	Frame_Shift_Ins	INS	-	TCGA-BR-8591-01A-11D-2394-08	2148227	8420317	240830304	12	51855											
RERE	473	broad.mit.edu	37	chr1	8421496	8421496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accctcatcgttgacgctgcGactgtctgaactctctccct	6	12	7	16	3	3	2	1	2	2	0	6	3	4	2	2	0	2	2	2	0	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:8421496G>A	uc001ape.2	-	19	2881	c.2071C>T	c.(2071-2073)CGC>TGC	p.R691C	RERE_uc001apf.2_Missense_Mutation_p.R691C|RERE_uc010nzx.1_Missense_Mutation_p.R423C|RERE_uc001apd.2_Missense_Mutation_p.R137C	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	691					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		TTGACGCTGCGACTGTCTGAA	0.592													28	63					0	0	1	0	0		A	8421496	A	A	8421496	3	1	84	1	0	0	0	0	1	0	0	0	13256	1058	37	1	2653	1	RERE	1	8421496	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1179	8421496	240829125	13	51856											
CA6	765	broad.mit.edu	37	chr1	9027746	9027746	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaccctgactggccttgaCgttcaggacatgctgcccag	9	8	10	14	1	1	2	1	2	0	0	1	3	1	3	3	2	3	2	3	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:9027746C>T	uc001apm.2	+	6	624	c.600C>T	c.(598-600)GAC>GAT	p.D200D	CA6_uc009vmn.2_Silent_p.D140D	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	200					one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)		CTGGCCTTGACGTTCAGGACA	0.577													27	86					0	0	1	0	0		T	9027746	T	T	9027746	2	4	84	1	0	0	0	0	0	0	0	1	2524	535	19	1		1	CA6	1	9027746	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	606250	9027746	240222875	14	51857											
KIF1B	23095	broad.mit.edu	37	chr1	10420986	10420986	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgtctttctgaccttaGgaccttctaccgctttgagg	5	16	8	12	1	4	2	0	2	4	0	4	3	4	3	3	2	1	1	3	2	2	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:10420986G>T	uc001aqx.3	+	39	4258	c.4056_splice	c.e39-1	p.R1352_splice	KIF1B_uc001aqw.3_Splice_Site_p.R1306_splice|KIF1B_uc001aqy.2_Splice_Site_p.R1326_splice|KIF1B_uc001aqz.2_Splice_Site_p.R1352_splice|KIF1B_uc001ara.2_Splice_Site_p.R1312_splice|KIF1B_uc001arb.2_Splice_Site_p.R1338_splice	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b						anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		TCTGACCTTAGGACCTTCTAC	0.468													4	61					0.00909568	0.00921738	1	1	0		T	10420986	T	T	10420986	5	4	84	1	0	0	0	0	0	0	1	0	8300	1014	35	5	5548	5	KIF1B	1	10420986	Splice_Site	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1393240	10420986	238829635	15	51858											
DFFA	1676	broad.mit.edu	37	chr1	10521701	10521701	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcctgaacagtctccgtcTtctttatgtcccagttcaag	7	14	6	14	1	4	1	1	1	3	0	7	1	6	1	4	0	1	1	4	0	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:10521701T>A	uc001arj.2	-	6	940	c.842A>T	c.(841-843)AAG>ATG	p.K281M	DFFA_uc001ark.2_3'UTR	NM_004401	NP_004392	O00273	DFFA_HUMAN	DNA fragmentation factor, 45kDa, alpha	281					DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction|negative regulation of apoptosis	cytosol|mitochondrion|nucleoplasm|plasma membrane	deoxyribonuclease activity|identical protein binding				0	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.25e-07)|COAD - Colon adenocarcinoma(227;7.25e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000296)|Kidney(185;0.00074)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0487)		AGTCTCCGTCTTCTTTATGTC	0.562													24	83					0	0	1	0	0		A	10521701	A	A	10521701	3	1	84	1	0	0	0	0	1	0	0	0	4458	1609	56	5	157	5	DFFA	1	10521701	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	100715	10521701	238728920	16	51859											
CASZ1	54897	broad.mit.edu	37	chr1	10705023	10705023	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtatttgaagccattggcTgcccgccgctccgccttctc	6	11	9	15	3	1	1	0	1	1	0	3	1	2	1	5	1	2	3	5	1	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:10705023T>C	uc001aro.2	-	18	4139	c.3819A>G	c.(3817-3819)GCA>GCG	p.A1273A		NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	1273					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		AGCCATTGGCTGCCCGCCGCT	0.607													33	100					0	0	1	0	0		C	10705023	C	C	10705023	2	2	84	1	0	0	0	0	0	0	0	1	2688	1567	55	3		3	CASZ1	1	10705023	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	183322	10705023	238545598	17	51860											
PTCHD2	57540	broad.mit.edu	37	chr1	11561152	11561152	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttaggggcccagaagccaGggccccaacctggggcaggg	8	5	16	12	0	0	1	0	0	0	1	0	1	0	1	5	6	2	1	5	6	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:11561152G>T	uc001ash.3	+	2	241	c.103G>T	c.(103-105)GGG>TGG	p.G35W	PTCHD2_uc001asi.1_Missense_Mutation_p.G35W	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	35	Cytoplasmic (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CCAGAAGCCAGGGCCCCAACC	0.647													27	60					2.65835e-16	2.95523e-16	1	1	0		T	11561152	T	T	11561152	3	4	84	1	0	0	0	0	1	0	0	0	12755	1000	35	5	105	5	PTCHD2	1	11561152	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	856129	11561152	237689469	18	51861											
PTCHD2	57540	broad.mit.edu	37	chr1	11561770	11561770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagcatcccgccccacgcgGcagtcgcggccaatcagagc	8	3	11	19	5	1	1	1	0	0	1	3	1	2	1	5	2	2	2	5	2	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:11561770G>A	uc001ash.3	+	2	859	c.721G>A	c.(721-723)GCA>ACA	p.A241T	PTCHD2_uc001asi.1_Missense_Mutation_p.A241T	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	241	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GCCCCACGCGGCAGTCGCGGC	0.692													4	14					0	0	1	0	0		A	11561770	A	A	11561770	3	1	84	1	0	0	0	0	1	0	0	0	12755	1203	42	2	723	2	PTCHD2	1	11561770	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	618	11561770	237688851	19	51862											
FBXO6	26270	broad.mit.edu	37	chr1	11733437	11733437	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagcccccacctgtgaccAtccaacagtggaacaatgcc	11	6	8	16	1	0	1	0	1	0	0	2	3	1	2	6	1	4	0	6	1	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:11733437A>G	uc001aso.2	+	5	779	c.613A>G	c.(613-615)ATC>GTC	p.I205V		NM_018438	NP_060908	Q9NRD1	FBX6_HUMAN	F-box only protein 6	205	FBA.				DNA damage checkpoint|DNA repair|ER-associated protein catabolic process|response to unfolded protein|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	glycoprotein binding			lung(1)	1	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.25e-06)|COAD - Colon adenocarcinoma(227;0.000251)|BRCA - Breast invasive adenocarcinoma(304;0.000297)|Kidney(185;0.000747)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		ACCTGTGACCATCCAACAGTG	0.602													12	91					0	0	1	0	0		G	11733437	G	G	11733437	3	3	84	1	0	0	0	0	1	0	0	0	5773	217	8	3	627	3	FBXO6	1	11733437	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	171667	11733437	237517184	20	51863											
VPS13D	55187	broad.mit.edu	37	chr1	12337865	12337865	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacttgggacagatattcaTccagaattttgtggcgggag	11	11	12	7	1	1	2	1	0	0	2	2	4	2	4	1	3	0	0	1	3	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:12337865T>C	uc001atv.2	+	19	4361	c.4220T>C	c.(4219-4221)ATC>ACC	p.I1407T	VPS13D_uc001atw.2_Missense_Mutation_p.I1407T|VPS13D_uc001atx.2_Missense_Mutation_p.I595T	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	1407					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		CAGATATTCATCCAGAATTTT	0.448													21	67					0	0	1	0	0		C	12337865	C	C	12337865	3	2	84	1	0	0	0	0	1	0	0	0	17218	1435	50	3	4290	3	VPS13D	1	12337865	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	604428	12337865	236912756	21	51864											
VPS13D	55187	broad.mit.edu	37	chr1	12557635	12557635	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatattctgagagccaggcGgaaggacaggagcagctctt	11	7	14	9	2	2	1	0	1	2	1	2	6	2	4	1	4	3	2	1	4	2	3	rs150143640	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:12557635G>A	uc001atv.2	+	68	12885	c.12744G>A	c.(12742-12744)GCG>GCA	p.A4248A	VPS13D_uc001atw.2_Silent_p.A4223A|VPS13D_uc001atx.2_Silent_p.A3435A|VPS13D_uc009vnl.2_RNA|VPS13D_uc010obd.1_Silent_p.A246A	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	4247					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AGAGCCAGGCGGAAGGACAGG	0.547													21	54					0	0	1	0	0		A	12557635	A	A	12557635	2	1	84	1	0	0	0	0	0	0	0	1	17218	1103	39	1		1	VPS13D	1	12557635	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	219770	12557635	236692986	22	51865											
DHRS3	9249	broad.mit.edu	37	chr1	12628448	12628448	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcgagtgcagcctgtggaAgtatgctggagtaggaggaa	10	8	16	7	1	0	0	0	0	0	0	1	5	0	4	2	4	3	4	2	4	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:12628448A>T	uc001auc.2	-	6	1297	c.830T>A	c.(829-831)CTT>CAT	p.L277H	DHRS3_uc001aub.2_Missense_Mutation_p.L192H	NM_004753	NP_004744	O75911	DHRS3_HUMAN	dehydrogenase/reductase (SDR family) member 3	277					retinol metabolic process|visual perception	integral to membrane	electron carrier activity|NADP-retinol dehydrogenase activity|nucleotide binding			skin(1)	1	Ovarian(185;0.249)	Lung NSC(185;4.11e-05)|all_lung(284;4.58e-05)|Renal(390;0.000147)|Colorectal(325;0.000585)|Breast(348;0.000596)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|Colorectal(212;9.25e-07)|COAD - Colon adenocarcinoma(227;0.000326)|BRCA - Breast invasive adenocarcinoma(304;0.000344)|Kidney(185;0.00235)|KIRC - Kidney renal clear cell carcinoma(229;0.00656)|STAD - Stomach adenocarcinoma(313;0.00798)|READ - Rectum adenocarcinoma(331;0.0419)	Vitamin A(DB00162)	AGCCTGTGGAAGTATGCTGGA	0.537													47	117					0	0	1	0	0		T	12628448	T	T	12628448	3	4	84	1	0	0	0	0	1	0	0	0	4497	72	3	5	82	5	DHRS3	1	12628448	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	70813	12628448	236622173	23	51866											
SPEN	23013	broad.mit.edu	37	chr1	16255775	16255775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagatggaggatgctcgcGtgctttcaaaaaagcagcct	12	8	12	9	2	1	1	1	0	0	1	2	4	1	3	1	2	4	3	1	2	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:16255775G>A	uc001axk.1	+	11	3244	c.3040G>A	c.(3040-3042)GTG>ATG	p.V1014M	SPEN_uc010obp.1_Missense_Mutation_p.V973M	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1014					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GGATGCTCGCGTGCTTTCAAA	0.463													8	62					0	0	1	0	0		A	16255775	A	A	16255775	3	1	84	1	0	0	0	0	1	0	0	0	15063	1145	40	1	3082	1	SPEN	1	16255775	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3627327	16255775	232994846	24	51867											
EPHA2	1969	broad.mit.edu	37	chr1	16460035	16460035	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctcggtagtgaacttcAacacagcctggttggggtcc	8	10	13	10	1	2	1	1	1	1	0	4	2	3	2	2	5	3	2	2	5	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:16460035A>G	uc001aya.1	-	10	1942	c.1805T>C	c.(1804-1806)TTG>TCG	p.L602S		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	602	Cytoplasmic (Potential).				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	AGTGAACTTCAACACAGCCTG	0.597													6	65					0	0	1	0	0		G	16460035	G	G	16460035	3	3	84	1	0	0	0	0	1	0	0	0	5175	131	5	3	1157	3	EPHA2	1	16460035	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	204260	16460035	232790586	25	51868											
ARHGEF10L	55160	broad.mit.edu	37	chr1	17945850	17945850	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtgactcggaggaggaGgacatggggctcctggaggt	8	6	19	8	1	0	1	0	1	0	0	2	6	1	6	2	9	0	1	2	9	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:17945850G>C	uc001ban.2	+	10	1011	c.852G>C	c.(850-852)GAG>GAC	p.E284D	ARHGEF10L_uc009vpe.1_Missense_Mutation_p.E245D|ARHGEF10L_uc001bao.2_Missense_Mutation_p.E245D|ARHGEF10L_uc001bap.2_Missense_Mutation_p.E245D|ARHGEF10L_uc010ocr.1_Missense_Mutation_p.E42D|ARHGEF10L_uc001baq.2_Missense_Mutation_p.E50D|ARHGEF10L_uc010ocs.1_Missense_Mutation_p.E62D|ARHGEF10L_uc001bar.2_Missense_Mutation_p.E62D	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	284					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		CGGAGGAGGAGGACATGGGGC	0.652													9	28					0	0	1	0	0		C	17945850	C	C	17945850	3	2	84	1	0	0	0	0	1	0	0	0	895	991	35	5	886	5	ARHGEF10L	1	17945850	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1485815	17945850	231304771	26	51869											
UBR4	23352	broad.mit.edu	37	chr1	19404515	19404515	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgagggcccaaaagagaagGgaagaacggtaagcggaata	18	2	15	6	3	0	2	0	0	0	2	0	6	0	4	1	4	2	1	1	4	8	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:19404515G>A	uc001bbi.2	-	104	15283	c.15279C>T	c.(15277-15279)TCC>TCT	p.S5093S	UBR4_uc001bbe.1_5'Flank|UBR4_uc001bbf.2_5'UTR|UBR4_uc010ocv.1_Silent_p.S616S|UBR4_uc009vph.2_Silent_p.S727S|UBR4_uc010ocw.1_Silent_p.S757S|UBR4_uc001bbg.2_Silent_p.S804S|UBR4_uc001bbh.2_Silent_p.S802S	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	5093					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		AAAAGAGAAGGGAAGAACGGT	0.468													9	44					0	0	1	0	0		A	19404515	A	A	19404515	2	1	84	1	0	0	0	0	0	0	0	1	16930	1219	43	4		4	UBR4	1	19404515	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1458665	19404515	229846106	27	51870											
UBR4	23352	broad.mit.edu	37	chr1	19433462	19433462	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctcaacggggacatccTggaggaggcaagtggagcaa	11	4	17	9	1	1	0	1	0	0	0	2	4	2	4	2	7	2	2	2	7	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:19433462T>C	uc001bbi.2	-	82	12110	c.12106_splice	c.e82-1	p.D4036_splice	UBR4_uc001bbg.2_5'Flank|UBR4_uc001bbh.2_5'Flank	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600						interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GGGGACATCCTGGAGGAGGCA	0.602													13	25					0	0	1	0	0		C	19433462	C	C	19433462	5	2	84	1	0	0	0	0	0	0	1	0	16930	1594	55	3	3547	3	UBR4	1	19433462	Splice_Site	SNP	T	TCGA-BR-8591-01A-11D-2394-08	28947	19433462	229817159	28	51871											
HTR6	3362	broad.mit.edu	37	chr1	19992556	19992556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctgcctgctctggaccGccttcgacgtgatgtgctgc	3	11	12	15	3	2	1	0	1	2	0	3	3	2	2	4	1	4	2	4	1	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:19992556G>A	uc001bcl.2	+	1	777	c.310G>A	c.(310-312)GCC>ACC	p.A104T		NM_000871	NP_000862	P50406	5HT6R_HUMAN	5-hydroxytryptamine (serotonin) receptor 6	104	Helical; Name=3; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	histamine receptor activity|protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;5.81e-05)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00117)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)	Granisetron(DB00889)|Ondansetron(DB00904)|Sertindole(DB06144)	GCTCTGGACCGCCTTCGACGT	0.672													34	103					0	0	1	0	0		A	19992556	A	A	19992556	3	1	84	1	0	0	0	0	1	0	0	0	7467	1087	38	1	312	1	HTR6	1	19992556	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	559094	19992556	229258065	29	51872											
OTUD3	23252	broad.mit.edu	37	chr1	20234193	20234193	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaagcgaagcagaggcgaAcacgcaggtcaccttggtga	13	4	14	10	3	1	3	1	1	0	2	1	5	1	3	1	3	3	2	1	3	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:20234193A>G	uc001bcs.3	+	8	1270	c.1151A>G	c.(1150-1152)AAC>AGC	p.N384S		NM_015207	NP_056022	Q5T2D3	OTUD3_HUMAN	OTU domain containing 3	384											0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000276)|Lung NSC(340;0.000338)|Breast(348;0.000812)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(152;1.12e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000142)|Kidney(64;0.000177)|GBM - Glioblastoma multiforme(114;0.000408)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GCAGAGGCGAACACGCAGGTC	0.557													15	49					0	0	1	0	0		G	20234193	G	G	20234193	3	3	84	1	0	0	0	0	1	0	0	0	11332	43	2	3	1181	3	OTUD3	1	20234193	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	241637	20234193	229016428	30	51873											
ECE1	1889	broad.mit.edu	37	chr1	21599373	21599373	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagctggtcactgagacAcaagcttcgctcaggcacac	11	7	11	12	1	2	1	2	1	0	1	3	3	2	2	0	3	2	4	0	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:21599373A>G	uc001bek.2	-	4	387	c.312T>C	c.(310-312)TGT>TGC	p.C104C	ECE1_uc001bem.2_Silent_p.C88C|ECE1_uc001bej.2_Silent_p.C92C|ECE1_uc001bei.2_Silent_p.C101C|ECE1_uc010odl.1_Silent_p.C104C|ECE1_uc009vqa.1_Silent_p.C104C	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	104	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		Lung NSC(340;1.14e-05)|all_lung(284;1.23e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00147)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0183)|OV - Ovarian serous cystadenocarcinoma(117;4.83e-27)|COAD - Colon adenocarcinoma(152;1.36e-06)|GBM - Glioblastoma multiforme(114;1.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000162)|STAD - Stomach adenocarcinoma(196;0.00326)|KIRC - Kidney renal clear cell carcinoma(1967;0.00755)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.206)		TCACTGAGACACAAGCTTCGC	0.602													21	85					0	0	1	0	0		G	21599373	G	G	21599373	2	3	84	1	0	0	0	0	0	0	0	1	4895	157	6	3		3	ECE1	1	21599373	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1365180	21599373	227651248	31	51874											
EPHB2	2048	broad.mit.edu	37	chr1	23191443	23191443	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgctggagtggacccctccCcgcgactccggaggccgaga	7	5	14	15	4	0	1	0	0	0	1	2	6	2	4	6	4	1	1	6	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:23191443C>T	uc009vqj.1	+	5	1186	c.1041C>T	c.(1039-1041)CCC>CCT	p.P347P	EPHB2_uc001bge.2_Silent_p.P347P|EPHB2_uc001bgf.2_Silent_p.P347P|EPHB2_uc010odu.1_Silent_p.P347P|hsa-mir-4253|MI0015860_5'Flank	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	347	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		GGACCCCTCCCCGCGACTCCG	0.652									Hereditary_Prostate_Cancer				29	166					0	0	1	0	0		T	23191443	T	T	23191443	2	4	84	1	0	0	0	0	0	0	0	1	5183	610	22	4		4	EPHB2	1	23191443	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1592070	23191443	226059178	32	51875											
EPHB2	2048	broad.mit.edu	37	chr1	23235636	23235636	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatgtcctatggggagcGgccctactgggacatgacca	8	8	15	10	1	0	2	0	2	0	0	1	4	1	4	3	5	2	0	3	5	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:23235636G>A	uc009vqj.1	+	13	2619	c.2474G>A	c.(2473-2475)CGG>CAG	p.R825Q	EPHB2_uc001bge.2_Missense_Mutation_p.R826Q|EPHB2_uc001bgf.2_Missense_Mutation_p.R825Q|EPHB2_uc010odu.1_Missense_Mutation_p.R767Q	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	825	Cytoplasmic (Potential).|Protein kinase.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		TATGGGGAGCGGCCCTACTGG	0.602									Hereditary_Prostate_Cancer				25	67					0	0	1	0	0		A	23235636	A	A	23235636	3	1	84	1	0	0	0	0	1	0	0	0	5183	1116	39	1	2527	1	EPHB2	1	23235636	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	44193	23235636	226014985	33	51876											
KDM1A	23028	broad.mit.edu	37	chr1	23398631	23398631	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatcaggaatatgatgaattAgctgaaacacaaggaaagct	18	9	9	5	0	1	3	1	3	0	0	1	5	1	5	0	2	3	2	0	2	8	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:23398631A>G	uc001bgi.2	+	12	1640	c.1491A>G	c.(1489-1491)TTA>TTG	p.L497L	KDM1A_uc001bgj.2_Silent_p.L521L	NM_015013	NP_055828	O60341	KDM1A_HUMAN	lysine-specific histone demethylase 1 isoform b	497	Potential.|Demethylase activity.				blood coagulation|muscle cell development|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of protein binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin	androgen receptor binding|chromatin binding|enzyme binding|flavin adenine dinucleotide binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-K9 specific)|ligand-dependent nuclear receptor transcription coactivator activity|MyoD binding|oxidoreductase activity|p53 binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2						ATGATGAATTAGCTGAAACAC	0.388													7	17					0	0	1	0	0		G	23398631	G	G	23398631	2	3	84	1	0	0	0	0	0	0	0	1	8138	417	15	3		3	KDM1A	1	23398631	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	162995	23398631	225851990	34	51877											
ASAP3	55616	broad.mit.edu	37	chr1	23762466	23762466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggctcaggtgtgcaccGgcgtgcaaacctatgctcca	8	8	12	13	2	1	1	1	1	0	0	2	1	2	1	3	3	4	4	3	3	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:23762466G>A	uc001bha.2	-	17	1751	c.1627C>T	c.(1627-1629)CGG>TGG	p.R543W	ASAP3_uc001bgy.1_Missense_Mutation_p.R47W|ASAP3_uc001bgz.1_RNA|ASAP3_uc010odz.1_Missense_Mutation_p.R412W|ASAP3_uc010oea.1_Missense_Mutation_p.R534W|ASAP3_uc001bhb.2_Missense_Mutation_p.R66W	NM_017707	NP_060177	Q8TDY4	ASAP3_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	543	Arf-GAP.				regulation of ARF GTPase activity	cytoplasm	ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						GGTGTGCACCGGCGTGCAAAC	0.572													55	160					0	0	1	0	0		A	23762466	A	A	23762466	3	1	84	1	0	0	0	0	1	0	0	0	1013	1115	39	1	1120	1	ASAP3	1	23762466	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	363835	23762466	225488155	35	51878											
WDTC1	23038	broad.mit.edu	37	chr1	27624461	27624461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaccaccatacctggagcGtgtgaaacagcaagccaatg	13	6	10	12	1	0	1	0	1	0	0	0	2	0	2	4	1	6	2	4	1	5	2	rs149286456		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:27624461G>A	uc009vst.2	+	12	1626	c.1091G>A	c.(1090-1092)CGT>CAT	p.R364H	WDTC1_uc001bno.2_Missense_Mutation_p.R363H|WDTC1_uc001bnp.1_RNA|WDTC1_uc001bnq.2_Missense_Mutation_p.R42H	NM_015023	NP_055838	Q8N5D0	WDTC1_HUMAN	WD and tetratricopeptide repeats 1	364	TPR 1.						protein binding			ovary(1)|central_nervous_system(1)	2		all_cancers(24;3.12e-19)|all_epithelial(13;4.18e-18)|Colorectal(325;0.000147)|all_lung(284;0.000366)|Lung NSC(340;0.000548)|Renal(390;0.00211)|Breast(348;0.00257)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0443)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;1.02e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00201)|STAD - Stomach adenocarcinoma(196;0.00321)|READ - Rectum adenocarcinoma(331;0.0476)		TACCTGGAGCGTGTGAAACAG	0.552													24	89					0	0	1	0	0		A	27624461	A	A	27624461	3	1	84	1	0	0	0	0	1	0	0	0	17368	1145	40	1	1130	1	WDTC1	1	27624461	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3861995	27624461	221626160	36	51879											
PTAFR	5724	broad.mit.edu	37	chr1	28476598	28476598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagcatttccggctactgCgcatgctgtagaacttttcg	7	12	12	10	3	0	1	0	0	0	1	2	2	1	2	1	2	5	5	1	2	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:28476598C>T	uc001bpl.2	-	2	1062	c.935G>A	c.(934-936)CGC>CAC	p.R312H	PTAFR_uc001bpm.3_Missense_Mutation_p.R312H|PTAFR_uc009vte.2_Missense_Mutation_p.R312H	NM_000952	NP_000943	P25105	PTAFR_HUMAN	platelet-activating factor receptor	312	Cytoplasmic (Potential).				chemotaxis|inflammatory response|interferon-gamma-mediated signaling pathway|phosphatidylinositol-mediated signaling	integral to plasma membrane|nucleus	phospholipid binding|platelet activating factor receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00715)|all_lung(284;0.00732)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.215)|OV - Ovarian serous cystadenocarcinoma(117;6e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|STAD - Stomach adenocarcinoma(196;0.00678)|READ - Rectum adenocarcinoma(331;0.0649)		CCGGCTACTGCGCATGCTGTA	0.517													30	96					0	0	1	0	0		T	28476598	T	T	28476598	3	4	84	1	0	0	0	0	1	0	0	0	12745	768	27	1	97	1	PTAFR	1	28476598	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	852137	28476598	220774023	37	51880											
DNAJC8	22826	broad.mit.edu	37	chr1	28541456	28541456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaatagtactgtacctgccGaaacctcttttttatttctt	10	17	5	9	1	2	0	0	0	2	0	2	2	2	0	3	0	4	2	3	0	6	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:28541456G>A	uc001bpn.2	-	3	265	c.232C>T	c.(232-234)CGG>TGG	p.R78W	DNAJC8_uc001bpo.2_RNA	NM_014280	NP_055095	O75937	DNJC8_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 8	78	J.				nuclear mRNA splicing, via spliceosome|protein folding	nucleoplasm	heat shock protein binding|unfolded protein binding				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.08e-05)|all_lung(284;4.29e-05)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.0105)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		OV - Ovarian serous cystadenocarcinoma(117;2.81e-22)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00275)|BRCA - Breast invasive adenocarcinoma(304;0.0059)|STAD - Stomach adenocarcinoma(196;0.00671)|READ - Rectum adenocarcinoma(331;0.0649)		TGTACCTGCCGAAACCTCTTT	0.318													3	13					0	0	1	0	0		A	28541456	A	A	28541456	3	1	84	1	0	0	0	0	1	0	0	0	4661	1057	37	1	557	1	DNAJC8	1	28541456	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	64858	28541456	220709165	38	51881											
BAI2	576	broad.mit.edu	37	chr1	32207532	32207532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacgtcttagagcacaggCtccacgcattccatggcccc	9	7	8	17	2	1	1	0	0	1	1	3	1	3	1	4	2	1	3	4	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:32207532C>T	uc001btn.2	-	9	1808	c.1454G>A	c.(1453-1455)AGC>AAC	p.S485N	BAI2_uc010ogo.1_Missense_Mutation_p.S127N|BAI2_uc010ogp.1_Missense_Mutation_p.S418N|BAI2_uc010ogq.1_Missense_Mutation_p.S485N|BAI2_uc001bto.2_Missense_Mutation_p.S485N|BAI2_uc001btq.1_Missense_Mutation_p.S418N|BAI2_uc010ogr.1_Missense_Mutation_p.S418N	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	485	TSP type-1 4.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		AGAGCACAGGCTCCACGCATT	0.647													30	103					0	0	1	0	0		T	32207532	T	T	32207532	3	4	84	1	0	0	0	0	1	0	0	0	1300	797	28	2	3403	2	BAI2	1	32207532	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3666076	32207532	217043089	39	51882											
RNF19B	127544	broad.mit.edu	37	chr1	33413904	33413904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcacaggtcatgtgattaCagcttccatcattcatcttg	9	14	7	11	0	4	1	3	1	1	0	5	1	5	1	1	1	3	2	1	1	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:33413904C>T	uc010oho.1	-	3	905	c.905G>A	c.(904-906)TGT>TAT	p.C302Y	RNF19B_uc001bwm.3_Missense_Mutation_p.C301Y|RNF19B_uc010ohp.1_Missense_Mutation_p.C301Y	NM_153341	NP_699172	Q6ZMZ0	RN19B_HUMAN	ring finger protein 19B isoform a	302	RING-type 2.					integral to membrane	ligase activity|protein binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CATGTGATTACAGCTTCCATC	0.443													23	58					0	0	1	0	0		T	33413904	T	T	33413904	3	4	84	1	0	0	0	0	1	0	0	0	13496	478	17	4	1347	4	RNF19B	1	33413904	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1206372	33413904	215836717	40	51883											
GJB4	127534	broad.mit.edu	37	chr1	35227066	35227066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatgacgagttcttccccGtgtcccacgtgcgcctctgg	4	11	11	15	4	2	1	0	1	2	0	4	2	4	1	4	1	1	2	4	1	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:35227066G>A	uc001bxv.1	+	2	581	c.211G>A	c.(211-213)GTG>ATG	p.V71M	GJB4_uc001bxw.3_Missense_Mutation_p.V71M	NM_153212	NP_694944	Q9NTQ9	CXB4_HUMAN	gap junction protein, beta 4	71	Extracellular (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity			ovary(2)|central_nervous_system(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				GTTCTTCCCCGTGTCCCACGT	0.637													9	31					0	0	1	0	0		A	35227066	A	A	35227066	3	1	84	1	0	0	0	0	1	0	0	0	6425	1145	40	1	213	1	GJB4	1	35227066	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1813162	35227066	214023555	41	51884											
GJB4	127534	broad.mit.edu	37	chr1	35227334	35227334	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggattatgacatgccccGcgtggtggcctgctccgtgg	6	9	14	12	3	0	1	0	1	0	0	1	2	1	2	4	4	2	1	4	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:35227334G>T	uc001bxv.1	+	2	849	c.479G>T	c.(478-480)CGC>CTC	p.R160L	GJB4_uc001bxw.3_Missense_Mutation_p.R160L	NM_153212	NP_694944	Q9NTQ9	CXB4_HUMAN	gap junction protein, beta 4	160	Extracellular (Potential).		R -> C (may be associated with deafness).		cell communication	connexon complex|integral to membrane	gap junction channel activity			ovary(2)|central_nervous_system(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				GACATGCCCCGCGTGGTGGCC	0.577													20	63					8.00594e-06	8.37116e-06	1	1	0		T	35227334	T	T	35227334	3	4	84	1	0	0	0	0	1	0	0	0	6425	1087	38	5	481	5	GJB4	1	35227334	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	268	35227334	214023287	42	51885											
ZMYM4	9202	broad.mit.edu	37	chr1	35870723	35870723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacactgaaatacatgtatGgggtaaatgcttggaagaac	15	10	11	5	0	0	3	0	2	0	1	0	4	0	4	0	3	3	3	0	3	7	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:35870723G>A	uc001byt.2	+	24	3708	c.3628G>A	c.(3628-3630)GGG>AGG	p.G1210R	ZMYM4_uc009vuu.2_Missense_Mutation_p.G1178R|ZMYM4_uc001byu.2_Missense_Mutation_p.G886R|ZMYM4_uc009vuv.2_Missense_Mutation_p.G949R	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	1210					multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				ATACATGTATGGGGTAAATGC	0.478													8	94					0	0	1	0	0		A	35870723	A	A	35870723	3	1	84	1	0	0	0	0	1	0	0	0	17727	1348	47	4	3722	4	ZMYM4	1	35870723	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	643389	35870723	213379898	43	51886											
EIF2C4	192670	broad.mit.edu	37	chr1	36291026	36291026	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagaagctttggctgggcActtgaatgaagtcccagatg	10	12	12	7	0	0	4	0	2	0	2	1	4	1	4	1	2	1	3	1	2	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:36291026A>G	uc001bzj.1	+	4	609	c.419A>G	c.(418-420)CAC>CGC	p.H140R		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4	140					mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TTGGCTGGGCACTTGAATGAA	0.448													14	113					0	0	1	0	0		G	36291026	G	G	36291026	3	3	84	1	0	0	0	0	1	0	0	0	5014	159	6	3	433	3	EIF2C4	1	36291026	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	420303	36291026	212959595	44	51887											
ZC3H12A	80149	broad.mit.edu	37	chr1	37948726	37948726	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggattgcctggactcGggcattggctccctggagag	6	9	14	12	1	0	1	0	0	0	1	3	4	2	3	3	5	1	2	3	5	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:37948726G>T	uc001cbb.3	+	6	1464	c.1314G>T	c.(1312-1314)TCG>TCT	p.S438S	ZC3H12A_uc001cbc.1_Silent_p.S233S	NM_025079	NP_079355	Q5D1E8	ZC12A_HUMAN	zinc finger CCCH-type containing 12A	438					angiogenesis|apoptosis|cell differentiation	cytoplasm|nucleus|plasma membrane	endonuclease activity|metal ion binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GCCTGGACTCGGGCATTGGCT	0.662													16	45					1.15088e-07	1.22246e-07	1	1	0		T	37948726	T	T	37948726	2	4	84	1	0	0	0	0	0	0	0	1	17586	1103	39	5		5	ZC3H12A	1	37948726	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1657700	37948726	211301895	45	51888											
RSPO1	284654	broad.mit.edu	37	chr1	38095330	38095330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccacacacagcccaagccGcatagtcacgcgccagctcc	11	3	7	20	3	1	0	1	0	0	0	2	0	2	0	5	0	3	2	5	0	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:38095330G>A	uc001cbl.1	-	4	792	c.4C>T	c.(4-6)CGG>TGG	p.R2W	RSPO1_uc001cbm.1_Missense_Mutation_p.R2W|RSPO1_uc009vvf.1_Intron|RSPO1_uc009vvg.1_Missense_Mutation_p.R2W	NM_001038633	NP_001033722	Q2MKA7	RSPO1_HUMAN	R-spondin1 precursor	2					positive regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization		heparin binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				AGCCCAAGCCGCATAGTCACG	0.642													27	42					0	0	1	0	0		A	38095330	A	A	38095330	3	1	84	1	0	0	0	0	1	0	0	0	13734	1086	38	1	807	1	RSPO1	1	38095330	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	146604	38095330	211155291	46	51889											
EPHA10	284656	broad.mit.edu	37	chr1	38197190	38197190	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtagcgggtagccggcttcAggttggtgacggtgactgtg	5	10	18	8	4	1	2	1	2	0	0	1	2	1	2	1	5	2	4	1	5	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:38197190A>G	uc009vvi.2	-	7	1642	c.1556T>C	c.(1555-1557)CTG>CCG	p.L519P	EPHA10_uc009vvh.1_RNA|EPHA10_uc001cbu.2_RNA|EPHA10_uc001cbv.1_RNA	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	519	Fibronectin type-III 2.|Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				AGCCGGCTTCAGGTTGGTGAC	0.602													67	154					0	0	1	0	0		G	38197190	G	G	38197190	3	3	84	1	0	0	0	0	1	0	0	0	5174	188	7	3	1514	3	EPHA10	1	38197190	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	101860	38197190	211053431	47	51890											
SF3A3	10946	broad.mit.edu	37	chr1	38449889	38449889	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtaacagtcatggagatcGagataacgaccatatccctc	14	8	9	10	2	1	2	1	0	0	2	4	5	2	2	2	2	2	1	2	2	3	3	rs139312538	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:38449889G>A	uc001cci.2	-	6	544	c.420C>T	c.(418-420)CTC>CTT	p.L140L	SF3A3_uc010oik.1_Silent_p.L87L	NM_006802	NP_006793	Q12874	SF3A3_HUMAN	splicing factor 3a, subunit 3	140					nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nuclear speck	nucleic acid binding|protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CATGGAGATCGAGATAACGAC	0.458													10	13					0	0	1	0	0		A	38449889	A	A	38449889	2	1	84	1	0	0	0	0	0	0	0	1	14173	1045	37	1		1	SF3A3	1	38449889	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	252699	38449889	210800732	48	51891											
MACF1	23499	broad.mit.edu	37	chr1	39775307	39775307	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatgttaacaccaaaagccTtatctcttggaactatctgc	12	12	6	11	0	2	0	0	0	2	0	3	1	2	1	2	1	4	2	2	1	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:39775307T>G	uc010ois.1	+	25	3075	c.2870T>G	c.(2869-2871)CTT>CGT	p.L957R	MACF1_uc001cda.1_Missense_Mutation_p.L865R|MACF1_uc001cdc.1_Missense_Mutation_p.L44R|MACF1_uc009vvq.1_Missense_Mutation_p.L14R|MACF1_uc001cdb.1_Missense_Mutation_p.L44R	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	957					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			ACCAAAAGCCTTATCTCTTGG	0.413													22	52					0	0	1	0	0		G	39775307	G	G	39775307	3	3	84	1	0	0	0	0	1	0	0	0	9162	1609	56	5	2960	5	MACF1	1	39775307	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1325418	39775307	209475314	49	51892											
MACF1	23499	broad.mit.edu	37	chr1	39818828	39818828	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctagcttggagaaaggagcCttggacaccactgatggtta	11	9	13	8	0	0	2	0	1	0	1	0	5	0	4	2	4	2	3	2	4	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:39818828C>A	uc010oiu.1	+	8	6800	c.6669C>A	c.(6667-6669)GCC>GCA	p.A2223A	MACF1_uc010ois.1_Silent_p.A1721A|MACF1_uc001cda.1_Silent_p.A1629A|MACF1_uc001cdc.1_Silent_p.A808A|MACF1_uc001cdb.1_Silent_p.A808A	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3788					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AGAAAGGAGCCTTGGACACCA	0.488													16	42					6.72482e-11	7.30339e-11	1	1	0		A	39818828	A	A	39818828	2	1	84	1	0	0	0	0	0	0	0	1	9162	668	24	5		5	MACF1	1	39818828	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	43521	39818828	209431793	50	51893											
RLF	6018	broad.mit.edu	37	chr1	40701518	40701518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgtgtcagagctcttcaaCtcagatcaagtgaagatgag	12	11	11	7	0	5	5	4	2	1	3	5	5	5	5	0	0	2	1	0	0	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:40701518C>T	uc001cfc.3	+	8	1175	c.1144C>T	c.(1144-1146)CTC>TTC	p.L382F	RLF_uc001cfd.3_Missense_Mutation_p.L73F	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	382					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			AGCTCTTCAACTCAGATCAAG	0.373													14	56					0	0	1	0	0		T	40701518	T	T	40701518	3	4	84	1	0	0	0	0	1	0	0	0	13414	565	20	4	1174	4	RLF	1	40701518	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	882690	40701518	208549103	51	51894											
DEM1	64789	broad.mit.edu	37	chr1	40981196	40981196	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattatatggcctactggaTgggccaccgagagccccagg	9	7	13	12	1	0	1	0	0	0	1	0	3	0	2	5	4	2	1	5	4	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:40981196T>C	uc001cfp.2	+	3	1185	c.980T>C	c.(979-981)ATG>ACG	p.M327T	DEM1_uc001cfq.2_Missense_Mutation_p.M327T|DEM1_uc001cfr.2_Missense_Mutation_p.M327T|DEM1_uc001cfs.2_Missense_Mutation_p.M327T	NM_022774	NP_073611	Q9H790	EXO5_HUMAN	defects in morphology 1 homolog	327							DNA binding|exonuclease activity				0						GCCTACTGGATGGGCCACCGA	0.542													19	48					0	0	1	0	0		C	40981196	C	C	40981196	3	2	84	1	0	0	0	0	1	0	0	0	4431	1464	51	3	982	3	DEM1	1	40981196	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	279678	40981196	208269425	52	51895											
NFYC	4802	broad.mit.edu	37	chr1	41236429	41236429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgcgggccaggacctcGcccagcccatgttcatccag	6	7	11	17	2	1	0	1	0	0	0	3	1	2	1	6	2	3	1	6	2	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:41236429G>A	uc001cge.2	+	10	1314	c.1306G>A	c.(1306-1308)GCC>ACC	p.A436T	NFYC_uc001cfx.3_Missense_Mutation_p.A332T|NFYC_uc009vwd.2_Missense_Mutation_p.A313T|NFYC_uc001cfz.2_Missense_Mutation_p.A312T|NFYC_uc010ojn.1_Missense_Mutation_p.A275T|NFYC_uc001cfy.3_Missense_Mutation_p.A313T|NFYC_uc001cgc.2_Missense_Mutation_p.A279T|NFYC_uc001cgb.2_Missense_Mutation_p.A417T|NFYC_uc001cgd.3_Missense_Mutation_p.A313T	NM_001142588	NP_001136060	Q13952	NFYC_HUMAN	nuclear transcription factor Y, gamma isoform 1	436					protein folding|regulation of transcription from RNA polymerase II promoter	CCAAT-binding factor complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			breast(2)|kidney(1)	3	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.72e-17)			CCAGGACCTCGCCCAGCCCAT	0.667													36	88					0	0	1	0	0		A	41236429	A	A	41236429	3	1	84	1	0	0	0	0	1	0	0	0	10410	1087	38	1	1032	1	NFYC	1	41236429	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	255233	41236429	208014192	53	51896											
RIMKLA	284716	broad.mit.edu	37	chr1	42880422	42880422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctgtcctcccaggactgtCgagtccaagggagaagaacg	10	6	14	11	2	0	2	0	0	0	2	4	5	3	3	3	3	1	1	3	3	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:42880422C>T	uc001chi.2	+	5	1091	c.953C>T	c.(952-954)TCG>TTG	p.S318L		NM_173642	NP_775913	Q8IXN7	RIMKA_HUMAN	ribosomal modification protein rimK-like family	318					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						CCAGGACTGTCGAGTCCAAGG	0.522													37	93					0	0	1	0	0		T	42880422	T	T	42880422	3	4	84	1	0	0	0	0	1	0	0	0	13390	893	31	1	971	1	RIMKLA	1	42880422	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1643993	42880422	206370199	54	51897											
PPCS	79717	broad.mit.edu	37	chr1	42922972	42922972	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagatttctatgttcctgTctctgaaatgcctgaacaca	10	14	7	10	0	3	3	1	2	2	1	5	3	4	3	2	0	2	1	2	0	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:42922972T>C	uc001chl.2	+	2	627	c.563T>C	c.(562-564)GTC>GCC	p.V188A	ZMYND12_uc001chj.2_5'Flank|ZMYND12_uc010ojt.1_5'Flank|PPCS_uc001chk.2_Missense_Mutation_p.V15A	NM_024664	NP_078940	Q9HAB8	PPCS_HUMAN	phosphopantothenoylcysteine synthetase isoform	188					coenzyme biosynthetic process|pantothenate metabolic process	cytosol	phosphopantothenate--cysteine ligase activity				0	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				TATGTTCCTGTCTCTGAAATG	0.493													58	159					0	0	1	0	0		C	42922972	C	C	42922972	3	2	84	1	0	0	0	0	1	0	0	0	12324	1667	58	3	569	3	PPCS	1	42922972	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	42550	42922972	206327649	55	51898											
SLC2A1	6513	broad.mit.edu	37	chr1	43393339	43393339	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagttggagaagcctgcaacGgcaatggcagctggacgtgg	10	6	16	9	2	0	1	0	0	0	1	0	3	0	2	1	5	4	5	1	5	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:43393339G>A	uc001cik.2	-	9	1740	c.1215C>T	c.(1213-1215)GCC>GCT	p.A405A		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	405	Helical; Name=11; (Potential).		A -> D (in GLUT1DS1).		carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	AGCCTGCAACGGCAATGGCAG	0.552													16	35					0	0	1	0	0		A	43393339	A	A	43393339	2	1	84	1	0	0	0	0	0	0	0	1	14563	1103	39	1		1	SLC2A1	1	43393339	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	470367	43393339	205857282	56	51899											
DMAP1	55929	broad.mit.edu	37	chr1	44685707	44685707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagctgagcccgacacctaCggaggagctggtgcacatgt	10	6	14	11	2	0	2	0	1	0	1	0	5	0	4	2	3	5	3	2	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:44685707C>T	uc001clq.1	+	10	1150	c.1070C>T	c.(1069-1071)ACG>ATG	p.T357M	DMAP1_uc001clr.1_Missense_Mutation_p.T357M|DMAP1_uc001cls.1_Missense_Mutation_p.T357M|DMAP1_uc010oku.1_Missense_Mutation_p.T347M	NM_001034024	NP_001029196	Q9NPF5	DMAP1_HUMAN	DNA methyltransferase 1 associated protein 1	357					DNA methylation|histone H2A acetylation|histone H4 acetylation|negative regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex	DNA binding|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					CCGACACCTACGGAGGAGCTG	0.627													8	29					0	0	1	0	0		T	44685707	T	T	44685707	3	4	84	1	0	0	0	0	1	0	0	0	4582	536	19	1	1104	1	DMAP1	1	44685707	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1292368	44685707	204564914	57	51900											
BEST4	266675	broad.mit.edu	37	chr1	45251767	45251767	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaaaagtagacagagagcGatatcgtcacgtattcgccc	13	8	9	11	4	1	2	1	0	0	2	4	4	2	2	2	0	1	2	2	0	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:45251767G>A	uc001cmm.2	-	4	664	c.615C>T	c.(613-615)ATC>ATT	p.I205I		NM_153274	NP_695006	Q8NFU0	BEST4_HUMAN	bestrophin 4	205	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GACAGAGAGCGATATCGTCAC	0.493											OREG0013447	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	49	145					0	0	1	0	0		A	45251767	A	A	45251767	2	1	84	1	0	0	0	0	0	0	0	1	1408	1048	37	1		1	BEST4	1	45251767	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	566060	45251767	203998854	58	51901											
MUTYH	4595	broad.mit.edu	37	chr1	45798819	45798819	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtggcaacctgggtctgctGcagcatgacctctgagaccc	8	8	12	13	0	2	2	0	2	2	1	2	3	2	2	3	2	4	4	3	2	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:45798819G>T	uc001cnm.2	-	5	619	c.403C>A	c.(403-405)CAG>AAG	p.Q135K	MUTYH_uc009vxn.2_Intron|MUTYH_uc001cnf.2_Missense_Mutation_p.Q110K|MUTYH_uc009vxo.2_Missense_Mutation_p.Q110K|MUTYH_uc001cng.2_Missense_Mutation_p.Q121K|MUTYH_uc001cnj.2_Missense_Mutation_p.Q18K|MUTYH_uc001cni.2_Missense_Mutation_p.Q110K|MUTYH_uc001cnh.2_Missense_Mutation_p.Q111K|MUTYH_uc001cno.2_Missense_Mutation_p.Q18K|MUTYH_uc001cnk.2_Intron|MUTYH_uc010oll.1_Intron|MUTYH_uc001cnl.2_Missense_Mutation_p.Q124K|MUTYH_uc009vxp.2_Missense_Mutation_p.Q138K|MUTYH_uc001cnn.2_Missense_Mutation_p.Q125K	NM_012222	NP_036354	Q9UIF7	MUTYH_HUMAN	mutY homolog isoform 1	135					depurination|mismatch repair	nucleoplasm	4 iron, 4 sulfur cluster binding|DNA N-glycosylase activity|endonuclease activity|metal ion binding|MutSalpha complex binding				0	Acute lymphoblastic leukemia(166;0.155)					TGGGTCTGCTGCAGCATGACC	0.607			Mis			colorectal		BER_DNA_glycosylases	MUTYH-associated_polyposis				46	145					1.61004e-24	1.82478e-24	1	1	0		T	45798819	T	T	45798819	3	4	84	1	0	0	0	0	1	0	0	0	10011	1328	46	5	1285	5	MUTYH	1	45798819	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	547052	45798819	203451802	59	51902											
PIK3R3	8503	broad.mit.edu	37	chr1	46521525	46521525	+	Frame_Shift_Del	DEL	T	-	-																															gtcaggtttgatgctattcaTttttttatctatttctcggt																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:46521525delT	uc001cpb.3	-	7	1639	c.883delA	c.(883-885)ATGfs	p.M295fs	PIK3R3_uc009vyb.2_Intron|PIK3R3_uc009vyc.2_Frame_Shift_Del_p.M312fs|PIK3R3_uc001cpc.3_Frame_Shift_Del_p.M295fs|PIK3R3_uc010olw.1_Frame_Shift_Del_p.M341fs|PIK3R3_uc010olv.1_Frame_Shift_Del_p.M85fs	NM_003629	NP_003620	Q92569	P55G_HUMAN	phosphoinositide-3-kinase, regulatory subunit 3	295					insulin receptor signaling pathway|platelet activation|T cell costimulation		1-phosphatidylinositol-3-kinase activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					ATGCTATTCATTTTTTTATCT	0.428													34	78	---	---	---	---						.	-	46521525	-	-	46521525	7	5	84	1	0	1	0	1	0	0	0	0	11939	1493	52	0	518	0	PIK3R3	1	46521525	Frame_Shift_Del	DEL	T	TCGA-BR-8591-01A-11D-2394-08	722706	46521525	202729096	60	51903											
EPS15	2060	broad.mit.edu	37	chr1	51938555	51938555	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaagtatcaagtctggaagCcctgattttttcaggaaagc	12	11	9	9	0	3	1	2	1	1	0	3	3	3	3	2	2	2	1	2	2	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:51938555C>T	uc001csq.1	-	3	233	c.141G>A	c.(139-141)GGG>GGA	p.G47G	EPS15_uc009vyz.1_Silent_p.G47G	NM_001981	NP_001972	P42566	EPS15_HUMAN	epidermal growth factor receptor pathway	47	EH 1.				cell proliferation|clathrin coat assembly|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|protein transport	cytosol|early endosome membrane	calcium ion binding|SH3 domain binding			lung(1)|kidney(1)	2						AGTCTGGAAGCCCTGATTTTT	0.368			T	MLL	ALL								29	103					0	0	1	0	0		T	51938555	T	T	51938555	2	4	84	1	0	0	0	0	0	0	0	1	5200	726	26	2		2	EPS15	1	51938555	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5417030	51938555	197312066	61	51904											
OSBPL9	114883	broad.mit.edu	37	chr1	52238325	52238325	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgatgcggaggcagggtCtgtggaggagcacaagagcg	10	6	19	6	2	1	3	0	2	1	1	1	6	1	6	0	5	3	2	0	5	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:52238325C>A	uc001cst.2	+	14	1119	c.1100C>A	c.(1099-1101)TCT>TAT	p.S367Y	OSBPL9_uc001css.2_Missense_Mutation_p.S372Y|OSBPL9_uc001csx.2_RNA|OSBPL9_uc009vza.2_Missense_Mutation_p.S368Y|OSBPL9_uc001csu.2_Missense_Mutation_p.S377Y|OSBPL9_uc001csv.2_Missense_Mutation_p.S202Y|OSBPL9_uc001csw.2_Missense_Mutation_p.S354Y|OSBPL9_uc001csy.2_Missense_Mutation_p.S189Y|OSBPL9_uc001csz.2_Missense_Mutation_p.S189Y|OSBPL9_uc001cta.2_Missense_Mutation_p.S257Y|OSBPL9_uc001ctb.2_Missense_Mutation_p.S152Y	NM_024586	NP_078862	Q96SU4	OSBL9_HUMAN	oxysterol binding protein-like 9 isoform e	367					lipid transport		lipid binding			central_nervous_system(1)	1						GAGGCAGGGTCTGTGGAGGAG	0.433													40	105					1.22674e-20	1.38227e-20	1	1	0		A	52238325	A	A	52238325	3	1	84	1	0	0	0	0	1	0	0	0	11303	913	32	5	1258	5	OSBPL9	1	52238325	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	299770	52238325	197012296	62	51905											
ORC1L	4998	broad.mit.edu	37	chr1	52847336	52847336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcctggctaccagctggatgGcatcatcttcaaaggccttt	8	12	9	12	0	3	0	2	0	1	0	4	1	4	1	3	4	2	3	3	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:52847336G>A	uc001ctt.2	-	14	2330	c.2111C>T	c.(2110-2112)GCC>GTC	p.A704V	ORC1L_uc010oni.1_Missense_Mutation_p.A699V|ORC1L_uc001ctu.2_Missense_Mutation_p.A704V|ORC1L_uc009vzd.2_Missense_Mutation_p.A458V	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	704	Necessary and sufficient for ORC complex assembly.				cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						CAGCTGGATGGCATCATCTTC	0.383													17	56					0	0	1	0	0		A	52847336	A	A	52847336	3	1	84	1	0	0	0	0	1	0	0	0	11280	1203	42	2	490	2	ORC1L	1	52847336	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	609011	52847336	196403285	63	51906											
PODN	127435	broad.mit.edu	37	chr1	53544147	53544147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttggagaagaacgccatccGgagcgtggacgcgaatgtgc	10	6	15	10	5	0	2	0	0	0	2	1	6	1	4	2	3	3	0	2	3	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:53544147G>A	uc001cuv.2	+	8	1116	c.1109G>A	c.(1108-1110)CGG>CAG	p.R370Q	PODN_uc001cuw.2_Missense_Mutation_p.R351Q|PODN_uc010onr.1_Missense_Mutation_p.R351Q|PODN_uc010ons.1_Missense_Mutation_p.R228Q	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	322	LRR 10.				negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding			ovary(1)|pancreas(1)	2						AACGCCATCCGGAGCGTGGAC	0.567													30	91					0	0	1	0	0		A	53544147	A	A	53544147	3	1	84	1	0	0	0	0	1	0	0	0	12197	1116	39	1	1139	1	PODN	1	53544147	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	696811	53544147	195706474	64	51907											
DMRTB1	63948	broad.mit.edu	37	chr1	53925145	53925145	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatggccgacaaaatggtgCgcacccccaagtgctcgaga	12	5	11	13	3	0	1	0	0	0	1	1	3	0	1	3	2	2	2	3	2	4	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:53925145C>A	uc001cvq.1	+	1	74	c.19C>A	c.(19-21)CGC>AGC	p.R7S		NM_033067	NP_149056	Q96MA1	DMRTB_HUMAN	DMRT-like family B with proline-rich C-terminal,	7					sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						CAAAATGGTGCGCACCCCCAA	0.622													19	56					1.00905e-13	1.1111e-13	1	1	0		A	53925145	A	A	53925145	3	1	84	1	0	0	0	0	1	0	0	0	4596	768	27	5	21	5	DMRTB1	1	53925145	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	380998	53925145	195325476	65	51908											
YIPF1	54432	broad.mit.edu	37	chr1	54331937	54331937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattgtggccaatgcaacgCgtcggttatcctcacgaaca	11	9	9	12	4	1	0	1	0	0	0	3	1	2	0	2	2	3	2	2	2	5	2	rs139670932		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:54331937C>T	uc001cvu.2	-	9	1104	c.767G>A	c.(766-768)CGC>CAC	p.R256H	YIPF1_uc001cvv.2_RNA|YIPF1_uc001cvw.2_RNA|YIPF1_uc001cvx.2_RNA|YIPF1_uc001cvy.2_RNA	NM_018982	NP_061855	Q9Y548	YIPF1_HUMAN	Yip1 domain family, member 1	256	Cytoplasmic (Potential).					integral to membrane|transport vesicle				large_intestine(1)|ovary(1)	2						CAATGCAACGCGTCGGTTATC	0.468													24	60					0	0	1	0	0		T	54331937	T	T	54331937	3	4	84	1	0	0	0	0	1	0	0	0	17503	768	27	1	161	1	YIPF1	1	54331937	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	406792	54331937	194918684	66	51909											
FGGY	55277	broad.mit.edu	37	chr1	60125950	60125950	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccattctctacctggccacAgttcaagccattgctgtaag	9	11	8	13	0	2	0	1	0	1	0	3	0	2	0	4	1	3	3	4	1	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:60125950A>G	uc001czi.3	+	12	1493	c.1281A>G	c.(1279-1281)ACA>ACG	p.T427T	FGGY_uc001czh.2_RNA|FGGY_uc009wac.2_Silent_p.T451T|FGGY_uc001czj.3_Silent_p.T426T|FGGY_uc001czk.3_Silent_p.T315T|FGGY_uc001czl.3_Silent_p.T339T|FGGY_uc001czm.3_Silent_p.T128T	NM_018291	NP_060761	Q96C11	FGGY_HUMAN	FGGY carbohydrate kinase domain containing	427					carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)					ACCTGGCCACAGTTCAAGCCA	0.458													12	63					0	0	1	0	0		G	60125950	G	G	60125950	2	3	84	1	0	0	0	0	0	0	0	1	5885	175	7	3		3	FGGY	1	60125950	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	5794013	60125950	189124671	67	51910											
KANK4	163782	broad.mit.edu	37	chr1	62732402	62732402	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacaatgaaaaattagagtAccaagagctggtctgtggtg	14	10	12	5	0	1	4	0	2	1	2	1	4	1	4	1	2	2	2	1	2	6	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:62732402A>G	uc001dah.3	-	6	2696	c.2319_splice	c.e6+1	p.L773_splice	KANK4_uc001dai.3_Splice_Site_p.L145_splice|KANK4_uc001dag.3_Splice_Site_p.L129_splice	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38											ovary(3)|skin(2)|lung(1)	6						AAATTAGAGTACCAAGAGCTG	0.448													19	70					0	0	1	0	0		G	62732402	G	G	62732402	5	3	84	1	0	0	0	0	0	0	1	0	7995	405	14	3	686	3	KANK4	1	62732402	Splice_Site	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2606452	62732402	186518219	68	51911											
LRRC40	55631	broad.mit.edu	37	chr1	70654896	70654896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctttcagtagcaccaaacGaaagattctgattagcttcc	13	12	6	10	1	3	2	1	1	2	1	4	3	4	2	2	0	3	3	2	0	4	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:70654896G>A	uc001der.1	-	2	264	c.212C>T	c.(211-213)TCG>TTG	p.S71L		NM_017768	NP_060238	Q9H9A6	LRC40_HUMAN	leucine rich repeat containing 40	71										ovary(1)	1						AGCACCAAACGAAAGATTCTG	0.403													26	86					0	0	1	0	0		A	70654896	A	A	70654896	3	1	84	1	0	0	0	0	1	0	0	0	9016	1059	37	1	1652	1	LRRC40	1	70654896	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7922494	70654896	178595725	69	51912											
ZRANB2	9406	broad.mit.edu	37	chr1	71536538	71536538	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccttgaacttgagggggAggatgagcgtgatgaagatc	12	8	16	5	1	0	7	0	5	0	2	1	9	0	9	1	3	2	0	1	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:71536538A>G	uc001dft.2	-	7	722	c.655T>C	c.(655-657)TCC>CCC	p.S219P	ZRANB2_uc001dfs.2_Missense_Mutation_p.S219P	NM_203350	NP_976225	O95218	ZRAB2_HUMAN	zinc finger protein 265 isoform 1	219	Arg/Ser-rich.|Required for nuclear targeting.				mRNA processing|RNA splicing	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						CTTGAGGGGGAGGATGAGCGT	0.388													17	112					0	0	1	0	0		G	71536538	G	G	71536538	3	3	84	1	0	0	0	0	1	0	0	0	18248	304	11	3	391	3	ZRANB2	1	71536538	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	881642	71536538	177714083	70	51913											
ASB17	127247	broad.mit.edu	37	chr1	76397950	76397950	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcttggacaagaagtcttAccacataatttagtagattt	13	15	6	7	0	2	2	0	0	2	2	2	3	2	3	1	1	1	1	1	1	6	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:76397950A>G	uc001dhe.1	-	1	167	c.27T>C	c.(25-27)GGT>GGC	p.G9G	ASB17_uc001dhf.1_RNA	NM_080868	NP_543144	Q8WXJ9	ASB17_HUMAN	ankyrin repeat and SOCS box-containing 17	9					intracellular signal transduction					ovary(1)	1						AAGAAGTCTTACCACATAATT	0.353													19	35					0	0	1	0	0		G	76397950	G	G	76397950	2	3	84	1	0	0	0	0	0	0	0	1	1022	378	14	3		3	ASB17	1	76397950	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	4861412	76397950	172852671	71	51914											
PIGK	10026	broad.mit.edu	37	chr1	77587958	77587958	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaataaaatgaaatgcaaAcctggtgtattatctgagct	17	11	8	5	0	1	3	0	2	1	1	1	3	1	3	1	1	3	3	1	1	8	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:77587958A>C	uc001dhk.2	-	10	1116	c.1071_splice	c.e10+1	p.Q357_splice	PIGK_uc010orj.1_Splice_Site_p.Q281_splice|PIGK_uc009wbx.2_Splice_Site_p.Q263_splice	NM_005482	NP_005473	Q92643	GPI8_HUMAN	phosphatidylinositol glycan anchor biosynthesis,						attachment of GPI anchor to protein|C-terminal protein lipidation|protein thiol-disulfide exchange|proteolysis	GPI-anchor transamidase complex	cysteine-type endopeptidase activity|GPI-anchor transamidase activity|protein binding			ovary(2)|pancreas(1)	3						TGAAATGCAAACCTGGTGTAT	0.333													11	30					0	0	1	0	0		C	77587958	C	C	77587958	5	2	84	1	0	0	0	0	0	0	1	0	11909	57	2	5	122	5	PIGK	1	77587958	Splice_Site	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1190008	77587958	171662663	72	51915											
AK5	26289	broad.mit.edu	37	chr1	77987583	77987583	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggggcttcctgattgaCggctatcctcgggaggtgaa	8	9	14	10	2	0	3	0	3	0	0	3	4	2	4	3	5	0	2	3	5	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:77987583C>T	uc001dhn.2	+	12	1640	c.1383C>T	c.(1381-1383)GAC>GAT	p.D461D	AK5_uc001dho.2_Silent_p.D435D	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	461	AMP (By similarity).				ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						TCCTGATTGACGGCTATCCTC	0.582													15	47					0	0	1	0	0		T	77987583	T	T	77987583	2	4	84	1	0	0	0	0	0	0	0	1	443	535	19	1		1	AK5	1	77987583	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	399625	77987583	171263038	73	51916											
FNBP1L	54874	broad.mit.edu	37	chr1	94012462	94012462	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatgggggatccagggagTttgcagcctaaattagcaga	13	8	13	7	0	0	1	0	0	0	1	1	3	1	3	2	3	3	3	2	3	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:94012462T>C	uc001dpw.2	+	11	1164	c.1164T>C	c.(1162-1164)AGT>AGC	p.S388S	FNBP1L_uc001dpv.2_Silent_p.S388S|FNBP1L_uc010otk.1_Silent_p.S266S|FNBP1L_uc010otl.1_Silent_p.S16S	NM_001024948	NP_001020119	Q5T0N5	FBP1L_HUMAN	formin binding protein 1-like isoform 1	446	REM.|Interaction with CDC42.				endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	lipid binding				0		all_lung(203;0.00206)|Lung NSC(277;0.00902)|Melanoma(281;0.155)		all cancers(265;0.00666)|GBM - Glioblastoma multiforme(16;0.0378)|Epithelial(280;0.111)		ATCCAGGGAGTTTGCAGCCTA	0.373													3	22					0	0	1	0	0		C	94012462	C	C	94012462	2	2	84	1	0	0	0	0	0	0	0	1	5980	1722	60	3		3	FNBP1L	1	94012462	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	16024879	94012462	155238159	74	51917											
AMY1A	276	broad.mit.edu	37	chr1	104297211	104297211	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgaggacatggcgctggAggagcctctatacttacctt	10	9	11	11	2	1	0	0	0	1	0	1	4	1	3	2	4	4	1	2	4	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:104297211A>G	uc001duy.2	+	7	1183	c.969A>G	c.(967-969)GGA>GGG	p.G323G	AMY1A_uc001duz.2_Silent_p.G323G	NM_001008221	NP_001008222	P04745	AMY1_HUMAN	salivary amylase alpha 1A precursor	323					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding|protein binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0654)|all cancers(265;0.0808)|Epithelial(280;0.0921)|Lung(183;0.111)		ATGGCGCTGGAGGAGCCTCTA	0.413													30	332					0	0	1	0	0		G	104297211	G	G	104297211	2	3	84	1	0	0	0	0	0	0	0	1	591	291	11	3		3	AMY1A	1	104297211	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	10284749	104297211	144953410	75	51918											
VAV3	10451	broad.mit.edu	37	chr1	108115957	108115957	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacgggatttgaatttatTcatcctcttccacatatgtg	11	15	6	9	1	2	1	1	1	1	0	4	2	4	2	2	1	1	0	2	1	4	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:108115957T>C	uc001dvk.1	-	27	2594	c.2540A>G	c.(2539-2541)GAA>GGA	p.E847G	VAV3_uc010ouu.1_Missense_Mutation_p.E279G|VAV3_uc001dvj.1_Missense_Mutation_p.E287G|VAV3_uc010ouv.1_Missense_Mutation_p.E251G|VAV3_uc010ouw.1_Missense_Mutation_p.E875G	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	847	SH3 2.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		TTGAATTTATTCATCCTCTTC	0.393													13	32					0	0	1	0	0		C	108115957	C	C	108115957	3	2	84	1	0	0	0	0	1	0	0	0	17159	1783	62	3	7	3	VAV3	1	108115957	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3818746	108115957	141134664	76	51919											
CELSR2	1952	broad.mit.edu	37	chr1	109812696	109812696	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatccgacgtaacctgacaGctgccctgggcctggctcag	7	7	12	15	2	1	1	1	1	0	0	2	2	2	1	4	2	3	4	4	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:109812696G>A	uc001dxa.3	+	23	7310	c.7249G>A	c.(7249-7251)GCT>ACT	p.A2417T		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2417	Helical; Name=2; (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		TAACCTGACAGCTGCCCTGGG	0.577													32	114					0	0	1	0	0		A	109812696	A	A	109812696	3	1	84	1	0	0	0	0	1	0	0	0	3225	971	34	2	7339	2	CELSR2	1	109812696	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1696739	109812696	139437925	77	51920											
CELSR2	1952	broad.mit.edu	37	chr1	109813580	109813580	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcctggaccccgagggctaCgggaaccctgacttctgctg	6	7	14	14	2	1	1	0	1	1	0	1	4	1	3	4	4	3	2	4	4	2	2	rs139210404		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:109813580C>T	uc001dxa.3	+	25	7576	c.7515C>T	c.(7513-7515)TAC>TAT	p.Y2505Y		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2505	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		CCGAGGGCTACGGGAACCCTG	0.647													76	187					0	0	1	0	0		T	109813580	T	T	109813580	2	4	84	1	0	0	0	0	0	0	0	1	3225	547	19	1		1	CELSR2	1	109813580	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	884	109813580	139437041	78	51921											
GNAI3	2773	broad.mit.edu	37	chr1	110091425	110091425	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacttacgggaggacggggAaaaagcggccaaagaagtga	16	3	15	7	3	0	2	0	1	0	1	0	5	0	5	1	5	3	0	1	5	6	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:110091425A>G	uc001dxz.2	+	1	240	c.83A>G	c.(82-84)GAA>GGA	p.E28G		NM_006496	NP_006487	P08754	GNAI3_HUMAN	guanine nucleotide binding protein (G protein),	28					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|metabotropic serotonin receptor binding|signal transducer activity			ovary(1)	1		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.046)|Colorectal(144;0.119)|Epithelial(280;0.139)|all cancers(265;0.147)|LUSC - Lung squamous cell carcinoma(189;0.237)		GAGGACGGGGAAAAAGCGGCC	0.642													5	17					0	0	1	0	0		G	110091425	G	G	110091425	3	3	84	1	0	0	0	0	1	0	0	0	6521	246	9	3	85	3	GNAI3	1	110091425	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	277845	110091425	139159196	79	51922											
PTPN22	26191	broad.mit.edu	37	chr1	114357544	114357544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttattaaatattccaagttgGtggtggattccttggtcctt	8	18	9	6	0	0	0	0	0	0	0	3	1	3	1	3	4	0	1	3	4	5	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:114357544G>A	uc001eds.2	-	21	2537	c.2407C>T	c.(2407-2409)CCA>TCA	p.P803S	RSBN1_uc001edq.2_5'Flank|RSBN1_uc001edr.2_5'Flank|PTPN22_uc009wgq.2_Missense_Mutation_p.P748S|PTPN22_uc010owo.1_Missense_Mutation_p.P559S|PTPN22_uc001edt.2_3'UTR	NM_015967	NP_057051	Q9Y2R2	PTN22_HUMAN	protein tyrosine phosphatase, non-receptor type	803					negative regulation of T cell activation|negative regulation of T cell receptor signaling pathway|phosphoanandamide dephosphorylation|regulation of B cell receptor signaling pathway|regulation of natural killer cell proliferation|T cell differentiation	internal side of plasma membrane|nucleus|perinuclear region of cytoplasm	kinase binding|protein tyrosine phosphatase activity|SH3 domain binding			kidney(2)|lung(1)|skin(1)	4	Lung SC(450;0.184)	all_cancers(81;1.93e-08)|all_epithelial(167;4.37e-08)|all_lung(203;5.22e-06)|Lung NSC(69;8.94e-06)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTCCAAGTTGGTGGTGGATTC	0.318													7	34					0	0	1	0	0		A	114357544	A	A	114357544	3	1	84	1	0	0	0	0	1	0	0	0	12812	1261	44	4	20	4	PTPN22	1	114357544	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4266119	114357544	134893077	80	51923											
CSDE1	7812	broad.mit.edu	37	chr1	115276643	115276643	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtgaattccacatcatcGccaggctgtaaggtttctaa	11	13	8	9	1	2	1	1	1	1	0	4	1	3	1	2	2	0	3	2	2	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:115276643G>A	uc001efk.2	-	8	1144	c.678C>T	c.(676-678)GGC>GGT	p.G226G	CSDE1_uc001efi.2_Silent_p.G272G|CSDE1_uc001efj.2_RNA|CSDE1_uc001efl.2_Silent_p.G195G|CSDE1_uc001efm.2_Silent_p.G241G|CSDE1_uc009wgv.2_Silent_p.G226G|CSDE1_uc001efn.2_Silent_p.G195G	NM_001007553	NP_001007554	O75534	CSDE1_HUMAN	upstream of NRAS isoform 1	226	CSD 3.				male gonad development|regulation of transcription, DNA-dependent	cytoplasm	DNA binding|protein binding|RNA binding			ovary(1)	1	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;2.21e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCACATCATCGCCAGGCTGTA	0.358													4	53					0	0	1	0	0		A	115276643	A	A	115276643	2	1	84	1	0	0	0	0	0	0	0	1	3932	1074	38	1		1	CSDE1	1	115276643	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	919099	115276643	133973978	81	51924											
ZNF697	90874	broad.mit.edu	37	chr1	120165750	120165750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagcacatgtagggcttctCgcccgtgtgcacgcgctggt	5	9	15	12	4	1	0	0	0	1	0	2	1	1	1	1	3	2	5	1	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:120165750C>T	uc001ehy.1	-	3	1330	c.1216G>A	c.(1216-1218)GAG>AAG	p.E406K		NM_001080470	NP_001073939	Q5TEC3	ZN697_HUMAN	zinc finger protein 697	406					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_neural(166;0.219)	all_lung(203;3.66e-05)|Lung NSC(69;0.000202)|all_epithelial(167;0.0266)		Lung(183;0.011)|LUSC - Lung squamous cell carcinoma(189;0.0577)		TAGGGCTTCTCGCCCGTGTGC	0.672													6	16					0	0	1	0	0		T	120165750	T	T	120165750	3	4	84	1	0	0	0	0	1	0	0	0	18125	893	31	1	425	1	ZNF697	1	120165750	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4889107	120165750	129084871	82	51925											
ZNF697	90874	broad.mit.edu	37	chr1	120165980	120165980	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggctcaacagatgcgagCtgaggctgaaggcctcgccg	8	6	16	11	3	1	3	1	2	0	1	2	4	1	3	2	4	3	3	2	4	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:120165980C>G	uc001ehy.1	-	3	1100	c.986G>C	c.(985-987)AGC>ACC	p.S329T		NM_001080470	NP_001073939	Q5TEC3	ZN697_HUMAN	zinc finger protein 697	329	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_neural(166;0.219)	all_lung(203;3.66e-05)|Lung NSC(69;0.000202)|all_epithelial(167;0.0266)		Lung(183;0.011)|LUSC - Lung squamous cell carcinoma(189;0.0577)		CAGATGCGAGCTGAGGCTGAA	0.507													3	5					0	0	1	0	0		G	120165980	G	G	120165980	3	3	84	1	0	0	0	0	1	0	0	0	18125	797	28	5	655	5	ZNF697	1	120165980	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	230	120165980	129084641	83	51926											
PHGDH	26227	broad.mit.edu	37	chr1	120279828	120279828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaggctcagagccgctGtggggaggaaattgctgttc	9	8	16	8	1	1	1	1	0	0	1	2	4	1	4	1	5	2	4	1	5	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:120279828G>A	uc001ehz.2	+	8	1111	c.884G>A	c.(883-885)TGT>TAT	p.C295Y	PHGDH_uc009whm.2_Missense_Mutation_p.C193Y|PHGDH_uc001eia.2_Missense_Mutation_p.C295Y|PHGDH_uc009whn.2_Missense_Mutation_p.C295Y|PHGDH_uc001eib.2_Missense_Mutation_p.C261Y	NM_006623	NP_006614	O43175	SERA_HUMAN	phosphoglycerate dehydrogenase	295					brain development|L-serine biosynthetic process		electron carrier activity|NAD binding|phosphoglycerate dehydrogenase activity			ovary(1)	1	all_cancers(5;1.18e-09)|all_epithelial(5;2.16e-10)|Melanoma(3;1.93e-05)|all_neural(166;0.219)	all_lung(203;3.66e-05)|Lung NSC(69;0.000202)|all_epithelial(167;0.0347)		Lung(183;0.0111)|LUSC - Lung squamous cell carcinoma(189;0.0593)	NADH(DB00157)	CAGAGCCGCTGTGGGGAGGAA	0.612													14	32					0	0	1	0	0		A	120279828	A	A	120279828	3	1	84	1	0	0	0	0	1	0	0	0	11860	1377	48	4	914	4	PHGDH	1	120279828	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	113848	120279828	128970793	84	51927											
PDE4DIP	9659	broad.mit.edu	37	chr1	144873923	144873923	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtattctggggagttggCaagctgatggggttgctgtt	5	13	19	4	0	1	1	0	1	1	0	1	2	1	2	0	7	2	7	0	7	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:144873923C>A	uc001elw.3	-	31	5325	c.5034G>T	c.(5032-5034)TTG>TTT	p.L1678F	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.L1634F|PDE4DIP_uc001elv.3_Missense_Mutation_p.L685F	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1678					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GGGGAGTTGGCAAGCTGATGG	0.527			T	PDGFRB	MPD								61	405					8.77104e-35	9.99291e-35	1	1	0		A	144873923	A	A	144873923	3	1	84	1	0	0	0	0	1	0	0	0	11662	709	25	5	2062	5	PDE4DIP	1	144873923	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	24594095	144873923	104376698	85	51928											
BCL9	607	broad.mit.edu	37	chr1	147090821	147090821	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagaaaacaaactgattcCttctgtaggaagtcctgcca	13	10	9	9	0	1	2	0	1	1	1	3	3	3	3	3	2	3	2	3	2	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:147090821C>A	uc001epq.2	+	8	1600	c.860C>A	c.(859-861)CCT>CAT	p.P287H	BCL9_uc010ozr.1_Missense_Mutation_p.P213H	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	287	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					AAACTGATTCCTTCTGTAGGA	0.617			T	IGH@|IGL@	B-ALL								26	93					7.88262e-20	8.86477e-20	1	1	0		A	147090821	A	A	147090821	3	1	84	1	0	0	0	0	1	0	0	0	1382	681	24	5	878	5	BCL9	1	147090821	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2216898	147090821	102159800	86	51929											
BCL9	607	broad.mit.edu	37	chr1	147096167	147096167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatccgacctggagccaccGgaatacctgagtttgatcta	10	10	9	12	2	2	2	1	2	1	0	3	5	3	4	5	2	2	1	5	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:147096167G>A	uc001epq.2	+	10	4428	c.3688G>A	c.(3688-3690)GGA>AGA	p.G1230R	BCL9_uc010ozr.1_Missense_Mutation_p.G1144R	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	1230	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					TGGAGCCACCGGAATACCTGA	0.567			T	IGH@|IGL@	B-ALL								24	96					0	0	1	0	0		A	147096167	A	A	147096167	3	1	84	1	0	0	0	0	1	0	0	0	1382	1117	39	1	3714	1	BCL9	1	147096167	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	5346	147096167	102154454	87	51930											
TARS2	80222	broad.mit.edu	37	chr1	150463946	150463946	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgctcgacccttccggAggctagaggcttcacgggat	6	9	13	13	3	1	1	1	0	0	1	3	4	2	3	2	4	2	4	2	4	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:150463946A>G	uc001euq.2	+	5	596	c.589A>G	c.(589-591)AGG>GGG	p.R197G	TARS2_uc010pcd.1_RNA|TARS2_uc001eur.2_Missense_Mutation_p.R197G|TARS2_uc009wlt.2_Intron|TARS2_uc009wls.2_Missense_Mutation_p.R197G	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	197					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	ACCCTTCCGGAGGCTAGAGGC	0.547													33	108					0	0	1	0	0		G	150463946	G	G	150463946	3	3	84	1	0	0	0	0	1	0	0	0	15585	295	11	3	607	3	TARS2	1	150463946	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	3367779	150463946	98786675	88	51931											
SEMA6C	10500	broad.mit.edu	37	chr1	151112138	151112138	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggcaccagcccctccccTtcttcttcggcttgaagatc	5	12	8	16	1	2	2	0	1	2	1	5	2	3	2	5	2	1	2	5	2	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:151112138T>C	uc001ewu.2	-	5	573	c.273A>G	c.(271-273)GAA>GAG	p.E91E	SEMA6C_uc001ewv.2_Silent_p.E91E|SEMA6C_uc001eww.2_Silent_p.E91E|SEMA6C_uc010pcq.1_Silent_p.E91E|SEMA6C_uc009wml.1_RNA	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	91	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GCCCCTCCCCTTCTTCTTCGG	0.582													15	40					0	0	1	0	0		C	151112138	C	C	151112138	2	2	84	1	0	0	0	0	0	0	0	1	14066	1606	56	3		3	SEMA6C	1	151112138	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	648192	151112138	98138483	89	51932											
ZNF687	57592	broad.mit.edu	37	chr1	151261038	151261038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccatgatgctccccaatcGctgcagcttcagcgcccacc	7	7	7	20	2	1	1	1	1	0	0	3	1	2	1	6	0	4	4	6	0	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:151261038G>A	uc001exq.2	+	3	2248	c.2150G>A	c.(2149-2151)CGC>CAC	p.R717H	ZNF687_uc009wmo.2_Missense_Mutation_p.R717H|ZNF687_uc009wmp.2_Missense_Mutation_p.R717H	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	717	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CTCCCCAATCGCTGCAGCTTC	0.552													36	75					0	0	1	0	0		A	151261038	A	A	151261038	3	1	84	1	0	0	0	0	1	0	0	0	18117	1087	38	1	2156	1	ZNF687	1	151261038	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	148900	151261038	97989583	90	51933											
PSMB4	5692	broad.mit.edu	37	chr1	151373007	151373007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccatgtacagccggcgctCgaagatgaaccctttgtgga	9	8	13	11	3	0	2	0	1	0	1	1	4	0	3	3	3	3	2	3	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:151373007C>T	uc001eyc.1	+	3	460	c.437C>T	c.(436-438)TCG>TTG	p.S146L	PSMB4_uc010pda.1_Missense_Mutation_p.S146L|PSMB4_uc001eyb.1_3'UTR	NM_002796	NP_002787	P28070	PSB4_HUMAN	proteasome beta 4 subunit	146					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity			ovary(2)	2	Lung SC(34;0.00471)|Ovarian(49;0.00871)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			AGCCGGCGCTCGAAGATGAAC	0.468													66	166					0	0	1	0	0		T	151373007	T	T	151373007	3	4	84	1	0	0	0	0	1	0	0	0	12701	893	31	1	447	1	PSMB4	1	151373007	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	111969	151373007	97877614	91	51934											
SNX27	81609	broad.mit.edu	37	chr1	151611552	151611552	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagcagtgcccatatcggTccccagatacaaacatgtgg	12	7	10	12	1	0	1	0	0	0	1	2	1	1	1	3	2	4	2	3	2	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:151611552T>C	uc001eyn.1	+	2	516	c.500T>C	c.(499-501)GTC>GCC	p.V167A	SNX27_uc001eyo.2_Missense_Mutation_p.V74A|SNX27_uc001eyp.2_5'UTR	NM_030918	NP_112180	Q96L92	SNX27_HUMAN	sorting nexin family member 27	167	PX.				cell communication|protein transport|signal transduction	cytosol|early endosome	phosphatidylinositol binding|protein binding			ovary(2)|central_nervous_system(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			CCCATATCGGTCCCCAGATAC	0.463													22	45					0	0	1	0	0		C	151611552	C	C	151611552	3	2	84	1	0	0	0	0	1	0	0	0	14922	1667	58	3	506	3	SNX27	1	151611552	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	238545	151611552	97639069	92	51935											
FLG2	388698	broad.mit.edu	37	chr1	152326237	152326237	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cactgtggctaaatctctgtCttccagatgttctggaacct	8	14	8	11	0	3	1	0	0	3	1	5	2	4	2	2	2	1	2	2	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:152326237C>G	uc001ezw.3	-	3	4098	c.4025G>C	c.(4024-4026)AGA>ACA	p.R1342T	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1342							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AAATCTCTGTCTTCCAGATGT	0.483													62	166					0	0	1	0	0		G	152326237	G	G	152326237	3	3	84	1	0	0	0	0	1	0	0	0	5937	913	32	5	3154	5	FLG2	1	152326237	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	714685	152326237	96924384	93	51936											
SPRR1A	6698	broad.mit.edu	37	chr1	152957933	152957933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgagccctgcccttcaaCggtcactccagcaccagccc	7	6	8	20	1	2	1	2	1	0	0	3	1	3	1	6	1	5	1	6	1	1	1	rs151244576		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:152957933C>T	uc009wnu.1	+	2	305	c.227C>T	c.(226-228)ACG>ATG	p.T76M	SPRR1A_uc001faw.2_Missense_Mutation_p.T76M	NM_005987	NP_005978	P35321	SPR1A_HUMAN	small proline-rich protein 1A	76	6.|6 X 8 AA approximate tandem repeats.				keratinization|peptide cross-linking	cornified envelope|cytoplasm	protein binding, bridging|structural molecule activity				0	Lung NSC(65;1.46e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGCCCTTCAACGGTCACTCCA	0.622													38	138					0	0	1	0	0		T	152957933	T	T	152957933	3	4	84	1	0	0	0	0	1	0	0	0	15120	536	19	1	229	1	SPRR1A	1	152957933	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	631696	152957933	96292688	94	51937											
PGLYRP4	57115	broad.mit.edu	37	chr1	153317826	153317826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctgccccccatgccttgcGagagaccgtggtggagacat	7	9	12	13	2	1	2	0	0	1	2	1	5	1	2	5	2	3	0	5	2	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:153317826G>A	uc001fbo.2	-	4	237	c.172C>T	c.(172-174)CGC>TGC	p.R58C	PGLYRP4_uc001fbp.2_Missense_Mutation_p.R54C	NM_020393	NP_065126	Q96LB8	PGRP4_HUMAN	peptidoglycan recognition protein-I-beta	58					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(3)|skin(1)	4	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			CATGCCTTGCGAGAGACCGTG	0.582													32	136					0	0	1	0	0		A	153317826	A	A	153317826	3	1	84	1	0	0	0	0	1	0	0	0	11815	1058	37	1	973	1	PGLYRP4	1	153317826	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	359893	153317826	95932795	95	51938											
INTS3	65123	broad.mit.edu	37	chr1	153735839	153735839	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccagctacagaaggggagGtgggtacagaccttgttctc	9	9	13	10	0	1	2	0	0	1	2	3	3	2	3	2	4	3	3	2	4	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:153735839G>A	uc009wom.2	+	17	1987	c.1766_splice	c.e17+1	p.S589_splice	INTS3_uc001fct.2_Splice_Site_p.S589_splice|INTS3_uc001fcu.2_Splice_Site_p.S281_splice|INTS3_uc001fcv.2_Splice_Site_p.S383_splice|INTS3_uc010peb.1_Splice_Site_p.S383_splice|INTS3_uc001fcw.2_Splice_Site_p.S102_splice|INTS3_uc010pec.1_Splice_Site_p.S102_splice	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3						DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			AGAAGGGGAGGTGGGTACAGA	0.527													16	97					0	0	1	0	0		A	153735839	A	A	153735839	5	1	84	1	0	0	0	0	0	0	1	0	7795	1275	44	4	1829	4	INTS3	1	153735839	Splice_Site	SNP	G	TCGA-BR-8591-01A-11D-2394-08	418013	153735839	95514782	96	51939											
DENND4B	9909	broad.mit.edu	37	chr1	153902880	153902880	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgcccatgctgctggccaGcttgttaaaggcagacttgt	7	12	11	11	0	0	1	0	0	0	1	0	1	0	1	2	2	4	5	2	2	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:153902880G>T	uc001fdd.1	-	28	4785	c.4384C>A	c.(4384-4386)CTG>ATG	p.L1462M	uc001fdc.1_Intron	NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	1462										ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			CTGCTGGCCAGCTTGTTAAAG	0.572													7	101					0.0477658	0.0481527	1	1	0		T	153902880	T	T	153902880	3	4	84	1	0	0	0	0	1	0	0	0	4440	962	34	5	110	5	DENND4B	1	153902880	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	167041	153902880	95347741	97	51940											
NUP210L	91181	broad.mit.edu	37	chr1	154026855	154026855	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaagtgaacgatggatTggggctgggggccaccttca	9	8	17	7	1	1	2	1	1	0	1	1	5	1	3	2	6	1	1	2	6	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:154026855T>C	uc001fdw.2	-	25	3404	c.3332A>G	c.(3331-3333)CAA>CGA	p.Q1111R	NUP210L_uc009woq.2_Missense_Mutation_p.Q20R|NUP210L_uc010peh.1_Missense_Mutation_p.Q1111R	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	1111						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			AACGATGGATTGGGGCTGGGG	0.458													17	65					0	0	1	0	0		C	154026855	C	C	154026855	3	2	84	1	0	0	0	0	1	0	0	0	10780	1812	63	3	2398	3	NUP210L	1	154026855	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	123975	154026855	95223766	98	51941											
CD1C	911	broad.mit.edu	37	chr1	158263068	158263068	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttggtgattctaatagtccTtgtgttatggtttaagaagc	9	17	10	5	0	1	2	0	1	1	1	2	2	2	2	1	2	1	2	1	2	5	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:158263068T>A	uc001fru.2	+	5	1248	c.956T>A	c.(955-957)CTT>CAT	p.L319H	CD1C_uc001frv.2_Intron	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	319	Helical; (Potential).				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					CTAATAGTCCTTGTGTTATGG	0.393													19	168					0	0	1	0	0		A	158263068	A	A	158263068	3	1	84	1	0	0	0	0	1	0	0	0	2979	1609	56	5	974	5	CD1C	1	158263068	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	4236213	158263068	90987553	99	51942											
OR6K6	128371	broad.mit.edu	37	chr1	158725149	158725149	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcctgcttttgtggcttcCtccttgtgcttcctgagatt	3	18	9	11	0	0	1	0	1	0	1	4	3	4	1	4	1	2	3	4	1	0	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:158725149C>A	uc001fsw.1	+	1	544	c.544C>A	c.(544-546)CTC>ATC	p.L182I		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	182	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					TTGTGGCTTCCTCCTTGTGCT	0.473													21	77					9.95505e-16	1.10106e-15	1	1	0		A	158725149	A	A	158725149	3	1	84	1	0	0	0	0	1	0	0	0	11223	681	24	5	546	5	OR6K6	1	158725149	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	462081	158725149	90525472	100	51943											
COPA	1314	broad.mit.edu	37	chr1	160293315	160293315	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagtttactccacgatcGtgaccctgtagaaaagagtg	11	9	10	11	2	0	3	0	1	0	2	2	4	1	3	3	0	1	2	3	0	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:160293315G>A	uc009wti.2	-	8	1006	c.612C>T	c.(610-612)CAC>CAT	p.H204H	COPA_uc001fvv.3_Silent_p.H204H|COPA_uc009wtj.1_Silent_p.H150H	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	204	WD 5.				COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CTCCACGATCGTGACCCTGTA	0.433													10	28					0	0	1	0	0		A	160293315	A	A	160293315	2	1	84	1	0	0	0	0	0	0	0	1	3730	1136	40	1		1	COPA	1	160293315	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1568166	160293315	88957306	101	51944											
OLFML2B	25903	broad.mit.edu	37	chr1	161953870	161953870	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaaagtccacgtctgagtgGccctgccatcgccagggggt	7	7	14	13	2	1	1	0	1	1	0	3	1	2	1	4	3	1	1	4	3	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:161953870G>C	uc001gbu.2	-	8	2272	c.1848C>G	c.(1846-1848)GGC>GGG	p.G616G	OLFML2B_uc001gbt.2_Silent_p.G99G|OLFML2B_uc010pkq.1_Silent_p.G617G	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	616	Olfactomedin-like.									skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			CGTCTGAGTGGCCCTGCCATC	0.612													31	72					0	0	1	0	0		C	161953870	C	C	161953870	2	2	84	1	0	0	0	0	0	0	0	1	10877	1190	42	5		5	OLFML2B	1	161953870	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1660555	161953870	87296751	102	51945											
C1orf226	400793	broad.mit.edu	37	chr1	162351994	162351994	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacgcggctccagaggcttgGctagaggatgaaaggtgagc	10	6	17	8	2	0	4	0	2	0	2	1	6	1	5	1	5	1	3	1	5	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:162351994G>A	uc001gby.2	+	1	475	c.303G>A	c.(301-303)TGG>TGA	p.W101*	C1orf226_uc010pkt.1_Nonsense_Mutation_p.W144*	NM_001085375	NP_001078844	A1L170	CA226_HUMAN	hypothetical protein LOC400793 isoform 2	101										ovary(1)	1						CAGAGGCTTGGCTAGAGGATG	0.592													5	5					0	0	1	0	0		A	162351994	A	A	162351994	4	1	84	1	0	0	0	0	0	1	0	0	2035	1212	42	2	438	2	C1orf226	1	162351994	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	398124	162351994	86898627	103	51946											
DDR2	4921	broad.mit.edu	37	chr1	162722911	162722911	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctatcctctgggcatgTcaggaggccagattccagat	8	9	12	12	1	2	2	1	0	1	2	4	3	4	3	4	3	0	2	4	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:162722911T>G	uc001gcf.2	+	5	574	c.109T>G	c.(109-111)TCA>GCA	p.S37A	DDR2_uc001gcg.2_Missense_Mutation_p.S37A	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	37	Extracellular (Potential).|F5/8 type C.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			TCTGGGCATGTCAGGAGGCCA	0.458													13	89					0	0	1	0	0		G	162722911	G	G	162722911	3	3	84	1	0	0	0	0	1	0	0	0	4340	1667	58	5	115	5	DDR2	1	162722911	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	370917	162722911	86527710	104	51947											
LRRC52	440699	broad.mit.edu	37	chr1	165514113	165514113	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agtgcaactgctctttcctgGacttcgccatcttcttaata	8	15	6	12	1	3	0	0	0	3	0	5	1	4	1	2	1	3	2	2	1	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:165514113G>A	uc001gde.2	+	1	636	c.580G>A	c.(580-582)GAC>AAC	p.D194N	LOC400794_uc001gdc.2_Intron|LOC400794_uc001gdd.2_Intron|LOC400794_uc009wvd.2_Intron	NM_001005214	NP_001005214	Q8N7C0	LRC52_HUMAN	leucine rich repeat containing 52 precursor	194	Extracellular (Potential).|LRRCT.					integral to membrane				ovary(1)	1	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)					CTCTTTCCTGGACTTCGCCAT	0.522													38	139					0	0	1	0	0		A	165514113	A	A	165514113	3	1	84	1	0	0	0	0	1	0	0	0	9028	1174	41	4	582	4	LRRC52	1	165514113	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2791202	165514113	83736508	105	51948											
C1orf9	51430	broad.mit.edu	37	chr1	172579025	172579025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaccattgcaccccataGccaatggcgacataaaagga	17	5	8	11	1	0	1	0	0	0	1	0	3	0	2	4	2	3	1	4	2	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:172579025G>A	uc001giq.3	+	24	3707	c.3391G>A	c.(3391-3393)GCC>ACC	p.A1131T	C1orf9_uc009wwd.2_Missense_Mutation_p.A1087T|C1orf9_uc010pmn.1_Missense_Mutation_p.A760T|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	1131					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		GCACCCCATAGCCAATGGCGA	0.373													24	78					0	0	1	0	0		A	172579025	A	A	172579025	3	1	84	1	0	0	0	0	1	0	0	0	2070	971	34	2	3485	2	C1orf9	1	172579025	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7064912	172579025	76671596	106	51949											
SERPINC1	462	broad.mit.edu	37	chr1	173886373	173886373	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttacctttttccagaggttaCagttcctatcacattggaat	10	16	6	9	0	1	1	1	0	0	1	3	2	3	2	3	2	2	2	3	2	4	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:173886373C>A	uc001gjt.2	-	1	144	c.25G>T	c.(25-27)GTA>TTA	p.V9L		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	9					blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	CCAGAGGTTACAGTTCCTATC	0.502													14	30					2.61681e-11	2.85084e-11	1	1	0		A	173886373	A	A	173886373	3	1	84	1	0	0	0	0	1	0	0	0	14134	478	17	5	1397	5	SERPINC1	1	173886373	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1307348	173886373	75364248	107	51950											
TNN	63923	broad.mit.edu	37	chr1	175097225	175097225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaggccttgagcaaggcGccacctaccctgtctccctt	7	9	9	16	1	1	1	0	1	1	0	2	1	1	1	5	2	3	2	5	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:175097225G>A	uc001gkl.1	+	14	3216	c.3103G>A	c.(3103-3105)GCC>ACC	p.A1035T		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	1035	Fibronectin type-III 9.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		TGAGCAAGGCGCCACCTACCC	0.527													22	70					0	0	1	0	0		A	175097225	A	A	175097225	3	1	84	1	0	0	0	0	1	0	0	0	16348	1087	38	1	3153	1	TNN	1	175097225	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1210852	175097225	74153396	108	51951											
TNR	7143	broad.mit.edu	37	chr1	175372558	175372558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctgttgggcaccggagttCggaacagtcatccccgctgt	6	10	13	12	3	2	0	1	0	1	0	4	2	3	2	3	3	1	4	3	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:175372558C>T	uc001gkp.1	-	2	775	c.694G>A	c.(694-696)GAA>AAA	p.E232K	TNR_uc009wwu.1_Missense_Mutation_p.E232K|TNR_uc010pmz.1_Missense_Mutation_p.E232K	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	232	Cys-rich.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CACCGGAGTTCGGAACAGTCA	0.642													53	149					0	0	1	0	0		T	175372558	T	T	175372558	3	4	84	1	0	0	0	0	1	0	0	0	16363	893	31	1	3462	1	TNR	1	175372558	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	275333	175372558	73878063	109	51952											
RFWD2	64326	broad.mit.edu	37	chr1	176175737	176175737	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgttgcttttgtcctcgtaGgagttgatgagcccgttgca	5	15	12	9	3	0	2	0	2	0	0	3	3	1	3	2	1	3	6	2	1	1	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:176175737G>T	uc001gku.1	-	1	634	c.378C>A	c.(376-378)TCC>TCA	p.S126S	RFWD2_uc001gkv.1_Silent_p.S126S|RFWD2_uc001gkw.1_5'UTR	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	126					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						TGTCCTCGTAGGAGTTGATGA	0.617													16	59					1.37285e-15	1.51746e-15	1	1	0		T	176175737	T	T	176175737	2	4	84	1	0	0	0	0	0	0	0	1	13285	987	35	5		5	RFWD2	1	176175737	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	803179	176175737	73074884	110	51953											
PAPPA2	60676	broad.mit.edu	37	chr1	176564578	176564578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgatgggggtgactgccGcctgcagggccgctgctact	5	9	15	12	2	0	2	0	2	0	0	0	2	0	2	3	3	4	3	3	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:176564578G>A	uc001gkz.2	+	3	3002	c.1838G>A	c.(1837-1839)CGC>CAC	p.R613H	PAPPA2_uc001gky.1_Missense_Mutation_p.R613H|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	613	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GGTGACTGCCGCCTGCAGGGC	0.587													21	78					0	0	1	0	0		A	176564578	A	A	176564578	3	1	84	1	0	0	0	0	1	0	0	0	11452	1087	38	1	1844	1	PAPPA2	1	176564578	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	388841	176564578	72686043	111	51954											
FAM5B	57795	broad.mit.edu	37	chr1	177250123	177250123	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgagagctggttcatgcCtgtgaatgagggcagctttc	7	12	13	9	0	2	3	1	3	1	1	3	4	2	3	1	2	3	4	1	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:177250123C>A	uc001glf.2	+	8	2123	c.1811C>A	c.(1810-1812)CCT>CAT	p.P604H	FAM5B_uc001glg.2_Missense_Mutation_p.P499H	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	604						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TGGTTCATGCCTGTGAATGAG	0.547													12	33					3.07112e-06	3.21701e-06	1	1	0		A	177250123	A	A	177250123	3	1	84	1	0	0	0	0	1	0	0	0	5607	681	24	5	1837	5	FAM5B	1	177250123	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	685545	177250123	72000498	112	51955											
TDRD5	163589	broad.mit.edu	37	chr1	179632554	179632554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaggccttgtaaatggaacGaaagtagaagttcataagcc	15	9	10	7	1	2	1	2	0	0	1	2	3	2	2	2	2	2	3	2	2	7	5	rs149892600		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:179632554G>A	uc001gnf.1	+	15	2665	c.2415G>A	c.(2413-2415)ACG>ACA	p.T805T	TDRD5_uc010pnp.1_Silent_p.T859T|TDRD5_uc001gnh.1_Silent_p.T360T	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	805					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						TAAATGGAACGAAAGTAGAAG	0.408													16	36					0	0	1	0	0		A	179632554	A	A	179632554	2	1	84	1	0	0	0	0	0	0	0	1	15758	1045	37	1		1	TDRD5	1	179632554	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2382431	179632554	69618067	113	51956											
TOR1AIP1	26092	broad.mit.edu	37	chr1	179886945	179886945	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttcgtagtgtccgtgcCatccggattgatgggacaga	7	13	12	9	3	1	2	0	1	1	1	4	4	3	4	3	2	1	1	3	2	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:179886945C>T	uc001gnq.2	+	10	1541	c.1323C>T	c.(1321-1323)GCC>GCT	p.A441A		NM_015602	NP_056417	Q5JTV8	TOIP1_HUMAN	lamina-associated polypeptide 1B	441	Lumenal (Potential).					integral to membrane|nuclear inner membrane				breast(1)|central_nervous_system(1)	2						GTGTCCGTGCCATCCGGATTG	0.448													25	69					0	0	1	0	0		T	179886945	T	T	179886945	2	4	84	1	0	0	0	0	0	0	0	1	16398	581	21	4		4	TOR1AIP1	1	179886945	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	254391	179886945	69363676	114	51957											
QSOX1	5768	broad.mit.edu	37	chr1	180166065	180166065	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctggacatcagcctcTgtgtggggctctattccctg	5	13	10	13	0	3	0	1	0	2	0	4	1	4	1	3	3	2	1	3	3	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:180166065T>G	uc001gnz.2	+	12	2212	c.2137T>G	c.(2137-2139)TGT>GGT	p.C713G	QSOX1_uc001gny.2_Intron|QSOX1_uc001goa.2_Intron|QSOX1_uc001goc.2_Intron|FLJ23867_uc001god.3_5'Flank	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	713	Helical; (Potential).				cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						CATCAGCCTCTGTGTGGGGCT	0.647													21	58					0	0	1	0	0		G	180166065	G	G	180166065	3	3	84	1	0	0	0	0	1	0	0	0	12908	1580	55	5	2183	5	QSOX1	1	180166065	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	279120	180166065	69084556	115	51958											
KIAA1614	57710	broad.mit.edu	37	chr1	180905132	180905132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagagggcagaggacacaCgcctgaaggaactctatttt	14	7	12	8	1	1	3	0	1	1	2	1	6	1	5	1	3	1	1	1	3	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:180905132C>T	uc001gok.2	+	5	2154	c.2087C>T	c.(2086-2088)ACG>ATG	p.T696M	KIAA1614_uc001gol.1_Missense_Mutation_p.T317M|KIAA1614_uc001gom.1_Intron	NM_020950	NP_066001	Q5VZ46	K1614_HUMAN	hypothetical protein LOC57710	696										ovary(3)|skin(1)	4						AGAGGACACACGCCTGAAGGA	0.597													39	144					0	0	1	0	0		T	180905132	T	T	180905132	3	4	84	1	0	0	0	0	1	0	0	0	8264	536	19	1	2105	1	KIAA1614	1	180905132	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	739067	180905132	68345489	116	51959											
CACNA1E	777	broad.mit.edu	37	chr1	181741239	181741239	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcaggagattatgctgTcatgccttggggagaagggc	8	9	16	8	0	1	2	1	0	0	2	1	4	1	2	2	5	2	2	2	5	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:181741239T>C	uc001gow.2	+	37	5176	c.5011T>C	c.(5011-5013)TCA>CCA	p.S1671P	CACNA1E_uc009wxs.2_Missense_Mutation_p.S1559P|CACNA1E_uc001gox.1_Missense_Mutation_p.S897P|CACNA1E_uc009wxt.2_Missense_Mutation_p.S897P	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1671	Extracellular (Potential).|IV.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GATTATGCTGTCATGCCTTGG	0.557													26	90					0	0	1	0	0		C	181741239	C	C	181741239	3	2	84	1	0	0	0	0	1	0	0	0	2545	1667	58	3	5157	3	CACNA1E	1	181741239	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	836107	181741239	67509382	117	51960											
RGL1	23179	broad.mit.edu	37	chr1	183881389	183881389	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatggacacccctgatgAgcctcaaaaaaaggtatata	15	8	7	11	0	1	2	1	2	0	0	2	3	2	3	4	2	1	1	4	2	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:183881389A>G	uc001gqo.2	+	15	1893	c.1736A>G	c.(1735-1737)GAG>GGG	p.E579G	RGL1_uc010pof.1_Missense_Mutation_p.E384G|RGL1_uc001gqm.2_Missense_Mutation_p.E614G|RGL1_uc010pog.1_Missense_Mutation_p.E577G|RGL1_uc010poh.1_Missense_Mutation_p.E577G|RGL1_uc010poi.1_Missense_Mutation_p.E550G	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	579	Ser-rich.				cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						ACCCCTGATGAGCCTCAAAAA	0.488													18	40					0	0	1	0	0		G	183881389	G	G	183881389	3	3	84	1	0	0	0	0	1	0	0	0	13301	304	11	3	1899	3	RGL1	1	183881389	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2140150	183881389	65369232	118	51961											
C1orf25	81627	broad.mit.edu	37	chr1	185108537	185108537	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaattctggctgctagttcCttgtaatattcagttcggac	9	15	8	9	1	2	0	1	0	1	0	4	1	3	1	1	2	1	5	1	2	4	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:185108537C>A	uc001grf.3	-	9	1556	c.1284G>T	c.(1282-1284)AAG>AAT	p.K428N	C1orf25_uc010pon.1_Missense_Mutation_p.K272N	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	428						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						CTGCTAGTTCCTTGTAATATT	0.403													6	20					3.59834e-05	3.73781e-05	1	1	0		A	185108537	A	A	185108537	3	1	84	1	0	0	0	0	1	0	0	0	2037	680	24	5	945	5	C1orf25	1	185108537	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1227148	185108537	64142084	119	51962											
ZBTB41	360023	broad.mit.edu	37	chr1	197169466	197169466	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggtaacagtgaagagcTtcaggagttggtcttcctgc	8	12	12	9	0	2	2	1	1	1	1	4	3	4	3	2	3	3	3	2	3	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:197169466T>G	uc001gtx.1	-	1	207	c.138A>C	c.(136-138)GAA>GAC	p.E46D	ZBTB41_uc009wyz.1_RNA|CRB1_uc010poz.1_5'Flank	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	46					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						AGTGAAGAGCTTCAGGAGTTG	0.388													27	70					0	0	1	0	0		G	197169466	G	G	197169466	3	3	84	1	0	0	0	0	1	0	0	0	17568	1606	56	5	2631	5	ZBTB41	1	197169466	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	12060929	197169466	52081155	120	51963											
KIF14	9928	broad.mit.edu	37	chr1	200522536	200522536	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacacccactgaatcctacTgggtgtgcattcctctgagc	8	11	8	14	0	2	2	1	2	1	0	4	2	4	2	3	1	3	1	3	1	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:200522536T>C	uc010ppk.1	-	30	5366	c.4927A>G	c.(4927-4929)AGT>GGT	p.S1643G	KIF14_uc010ppj.1_Missense_Mutation_p.S1152G	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	1643	Required for CIT-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						TGAATCCTACTGGGTGTGCAT	0.463													37	107					0	0	1	0	0		C	200522536	C	C	200522536	3	2	84	1	0	0	0	0	1	0	0	0	8292	1580	55	3	23	3	KIF14	1	200522536	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3353070	200522536	48728085	121	51964											
KIF14	9928	broad.mit.edu	37	chr1	200574463	200574463	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgagatcgggaacttttaTcattcataccagtagcagca	14	11	8	8	1	2	1	2	1	0	1	3	3	2	2	1	1	4	3	1	1	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:200574463T>A	uc010ppk.1	-	8	2133	c.1694A>T	c.(1693-1695)GAT>GTT	p.D565V	KIF14_uc010ppj.1_Missense_Mutation_p.D74V	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	565	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						GGAACTTTTATCATTCATACC	0.393													15	54					0	0	1	0	0		A	200574463	A	A	200574463	3	1	84	1	0	0	0	0	1	0	0	0	8292	1435	50	5	3344	5	KIF14	1	200574463	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	51927	200574463	48676158	122	51965											
C1orf106	55765	broad.mit.edu	37	chr1	200880605	200880605	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattccttccgggcgggtccTgagggccgaggtcgcagcgc	4	7	17	13	5	0	1	0	1	0	0	4	3	3	1	4	4	1	1	4	4	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:200880605T>C	uc001gvo.2	+	9	1269	c.1239T>C	c.(1237-1239)CCT>CCC	p.P413P	C1orf106_uc010ppm.1_Silent_p.P328P	NM_018265	NP_060735	Q3KP66	CA106_HUMAN	hypothetical protein LOC55765 isoform 1	413										skin(2)|ovary(1)	3						GGGCGGGTCCTGAGGGCCGAG	0.662													82	232					0	0	1	0	0		C	200880605	C	C	200880605	2	2	84	1	0	0	0	0	0	0	0	1	1983	1567	55	3		3	C1orf106	1	200880605	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	306142	200880605	48370016	123	51966											
TNNI1	7135	broad.mit.edu	37	chr1	201380608	201380608	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacggactcgacgcaggggCgggcgcttgaacttcccacg	8	5	14	14	6	0	1	0	1	0	0	2	3	1	2	1	4	1	2	1	4	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:201380608C>T	uc010ppq.1	-	7	426	c.333G>A	c.(331-333)CCG>CCA	p.P111P	TNNI1_uc001gwo.1_RNA|TNNI1_uc001gwp.2_Silent_p.P90P	NM_003281	NP_003272	P19237	TNNI1_HUMAN	troponin I, skeletal, slow	111	Involved in binding TNC and actin.				muscle filament sliding|regulation of striated muscle contraction	cytosol|troponin complex	actin binding|tropomyosin binding				0						GACGCAGGGGCGGGCGCTTGA	0.632													15	39					0	0	1	0	0		T	201380608	T	T	201380608	2	4	84	1	0	0	0	0	0	0	0	1	16351	755	27	1		1	TNNI1	1	201380608	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	500003	201380608	47870013	124	51967											
LGR6	59352	broad.mit.edu	37	chr1	202249955	202249955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctggggacccacagcttcGaggggctgcacaatctggag	9	7	14	11	1	2	0	0	0	2	0	3	3	2	2	1	5	2	3	1	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:202249955G>A	uc001gxu.2	+	6	691	c.691G>A	c.(691-693)GAG>AAG	p.E231K	LGR6_uc001gxv.2_Missense_Mutation_p.E179K|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Intron|LGR6_uc009xac.1_RNA	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	231	LRR 6.|Extracellular (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						CCACAGCTTCGAGGGGCTGCA	0.572													28	71					0	0	1	0	0		A	202249955	A	A	202249955	3	1	84	1	0	0	0	0	1	0	0	0	8774	1059	37	1	860	1	LGR6	1	202249955	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	869347	202249955	47000666	125	51968											
LRRN2	10446	broad.mit.edu	37	chr1	204588977	204588977	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtccacagtggtagcctcGcggtaggacgagcggggcgt	7	6	17	11	5	0	0	0	0	0	0	2	2	1	1	2	5	2	2	2	5	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:204588977G>A	uc001hbe.1	-	3	532	c.144C>T	c.(142-144)CGC>CGT	p.R48R	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Silent_p.R48R|LRRN2_uc009xbf.1_Silent_p.R48R|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	48	Extracellular (Potential).|LRRNT.				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			TGGTAGCCTCGCGGTAGGACG	0.657													27	37					0	0	1	0	0		A	204588977	A	A	204588977	2	1	84	1	0	0	0	0	0	0	0	1	9053	1074	38	1		1	LRRN2	1	204588977	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2339022	204588977	44661644	126	51969											
CR2	1380	broad.mit.edu	37	chr1	207649616	207649616	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccgcctaagacccctaaCgggaaccatactggtggaaa	12	6	9	14	2	0	1	0	0	0	1	1	3	1	3	6	3	3	0	6	3	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:207649616C>T	uc001hfw.2	+	14	2671	c.2577C>T	c.(2575-2577)AAC>AAT	p.N859N	CR2_uc001hfv.2_Silent_p.N918N|CR2_uc009xch.2_Intron	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	859	Sushi 14.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						AGACCCCTAACGGGAACCATA	0.502													32	56					0	0	1	0	0		T	207649616	T	T	207649616	2	4	84	1	0	0	0	0	0	0	0	1	3845	535	19	1		1	CR2	1	207649616	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3060639	207649616	41601005	127	51970											
PLXNA2	5362	broad.mit.edu	37	chr1	208390884	208390884	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctggtagaggctcccacaGgccagcaggcggttctcaga	8	6	13	14	1	1	2	1	0	1	2	3	2	2	2	3	5	1	4	3	5	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:208390884G>T	uc001hgz.2	-	2	1142	c.384C>A	c.(382-384)GCC>GCA	p.A128A	PLXNA2_uc001hha.3_Silent_p.A182A	NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	128	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GGCTCCCACAGGCCAGCAGGC	0.592													36	134					1.03484e-13	1.13878e-13	1	1	0		T	208390884	T	T	208390884	2	4	84	1	0	0	0	0	0	0	0	1	12139	987	35	5		5	PLXNA2	1	208390884	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	741268	208390884	40859737	128	51971											
KCNH1	3756	broad.mit.edu	37	chr1	211256135	211256135	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccttacctctgccaggcggGagtgcttgtggacattctcg	5	11	12	13	2	2	0	0	0	2	0	3	2	2	2	3	3	3	1	3	3	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:211256135G>T	uc001hib.2	-	5	715	c.545C>A	c.(544-546)TCC>TAC	p.S182Y	KCNH1_uc001hic.2_Missense_Mutation_p.S182Y	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	182	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		TGCCAGGCGGGAGTGCTTGTG	0.527													34	97					9.80977e-26	1.11327e-25	1	1	0		T	211256135	T	T	211256135	3	4	84	1	0	0	0	0	1	0	0	0	8047	1174	41	5	2452	5	KCNH1	1	211256135	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2865251	211256135	37994486	129	51972											
PPP2R5A	5525	broad.mit.edu	37	chr1	212506874	212506874	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgtacacttcctccaagTgataatccagattttgatcc	10	14	5	12	1	0	3	0	2	0	1	5	3	5	3	5	0	1	1	5	0	3	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:212506874T>C	uc001hjb.2	+	3	988	c.414T>C	c.(412-414)AGT>AGC	p.S138S	PPP2R5A_uc010ptd.1_Silent_p.S79S	NM_006243	NP_006234	Q15172	2A5A_HUMAN	protein phosphatase 2, regulatory subunit B	138					negative regulation of establishment of protein localization in plasma membrane|negative regulation of lipid kinase activity|positive regulation of protein dephosphorylation|signal transduction	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex	kinase binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0125)|all cancers(67;0.029)|Epithelial(68;0.154)|GBM - Glioblastoma multiforme(131;0.155)		TTCCTCCAAGTGATAATCCAG	0.378													17	36					0	0	1	0	0		C	212506874	C	C	212506874	2	2	84	1	0	0	0	0	0	0	0	1	12414	1693	59	3		3	PPP2R5A	1	212506874	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1250739	212506874	36743747	130	51973											
PROX1	5629	broad.mit.edu	37	chr1	214170404	214170404	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagaatataattcggggtAtgagccattcccccagtgtg	10	12	11	8	1	0	2	0	2	0	1	2	3	1	2	3	2	1	1	3	2	4	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:214170404A>G	uc001hkh.2	+	2	798	c.526A>G	c.(526-528)ATG>GTG	p.M176V	PROX1_uc001hkg.1_Missense_Mutation_p.M176V	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	176					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		AATTCGGGGTATGAGCCATTC	0.502													21	86					0	0	1	0	0		G	214170404	G	G	214170404	3	3	84	1	0	0	0	0	1	0	0	0	12582	449	16	3	528	3	PROX1	1	214170404	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1663530	214170404	35080217	131	51974											
PROX1	5629	broad.mit.edu	37	chr1	214170994	214170994	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgtggtcaaagtcttttcGgccaagccctcccgccaggt	7	10	10	14	2	2	0	1	0	1	0	4	0	3	0	4	3	1	0	4	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:214170994G>T	uc001hkh.2	+	2	1388	c.1116G>T	c.(1114-1116)TCG>TCT	p.S372S	PROX1_uc001hkg.1_Silent_p.S372S	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	372					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		AAGTCTTTTCGGCCAAGCCCT	0.532													47	105					4.18559e-23	4.72847e-23	1	1	0		T	214170994	T	T	214170994	2	4	84	1	0	0	0	0	0	0	0	1	12582	1103	39	5		5	PROX1	1	214170994	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	590	214170994	35079627	132	51975											
USH2A	7399	broad.mit.edu	37	chr1	216062234	216062234	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggtgtaaatgcatcactGtgcaattagtgacatttcca	12	13	9	7	0	1	1	1	1	0	0	2	1	2	1	1	1	2	3	1	1	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:216062234G>C	uc001hku.1	-	41	8144	c.7757C>G	c.(7756-7758)ACA>AGA	p.T2586R		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2586	Fibronectin type-III 12.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATGCATCACTGTGCAATTAGT	0.423										HNSCC(13;0.011)			22	85					0	0	1	0	0		C	216062234	C	C	216062234	3	2	84	1	0	0	0	0	1	0	0	0	17062	1377	48	5	7979	5	USH2A	1	216062234	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1891240	216062234	33188387	133	51976											
GPATCH2	55105	broad.mit.edu	37	chr1	217793649	217793649	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcacttaagcagtgaccagtCtcccacgggtgatgcacatt	10	10	9	12	1	2	2	1	2	1	0	3	2	2	2	2	1	2	2	2	1	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:217793649C>T	uc001hlf.1	-	2	345	c.249G>A	c.(247-249)GAG>GAA	p.E83E	GPATCH2_uc001hlg.3_Silent_p.E83E	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	83						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		AGTGACCAGTCTCCCACGGGT	0.438													28	65					0	0	1	0	0		T	217793649	T	T	217793649	2	4	84	1	0	0	0	0	0	0	0	1	6606	912	32	4		4	GPATCH2	1	217793649	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1731415	217793649	31456972	134	51977											
LYPLAL1	127018	broad.mit.edu	37	chr1	219352518	219352518	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaggattaagaatgtggAtcaagcaggttttaaatcaa	17	10	10	4	0	2	1	2	0	0	1	2	4	2	3	0	3	1	2	0	3	7	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:219352518A>G	uc001hlq.3	+	2	162	c.121A>G	c.(121-123)ATC>GTC	p.I41V	LYPLAL1_uc001hlr.3_Missense_Mutation_p.I41V|LYPLAL1_uc001hls.3_5'UTR|LYPLAL1_uc001hlt.3_5'UTR|LYPLAL1_uc009xds.2_Missense_Mutation_p.I41V	NM_138794	NP_620149	Q5VWZ2	LYPL1_HUMAN	lysophospholipase-like 1	41						cytoplasm	lysophospholipase activity				0				GBM - Glioblastoma multiforme(131;0.055)|all cancers(67;0.105)|OV - Ovarian serous cystadenocarcinoma(81;0.116)		AAGAATGTGGATCAAGCAGGT	0.299													9	35					0	0	1	0	0		G	219352518	G	G	219352518	3	3	84	1	0	0	0	0	1	0	0	0	9136	333	12	3	127	3	LYPLAL1	1	219352518	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1558869	219352518	29898103	135	51978											
SLC30A10	55532	broad.mit.edu	37	chr1	220101753	220101753	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcaccagcatgaagagcagCcggcacgtcttgccagagta	12	5	12	12	2	1	3	0	1	1	2	1	3	1	3	3	1	5	5	3	1	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:220101753C>T	uc001hlw.2	-	1	241	c.30G>A	c.(28-30)CGG>CGA	p.R10R	SLC30A10_uc001hlu.1_Intron|SLC30A10_uc001hlx.2_5'UTR	NM_018713	NP_061183	Q6XR72	ZNT10_HUMAN	solute carrier family 30 (zinc transporter),	10	Cytoplasmic (Potential).				zinc ion transport	integral to membrane|plasma membrane	cation transmembrane transporter activity				0				GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.209)		TGAAGAGCAGCCGGCACGTCT	0.592													8	23					0	0	1	0	0		T	220101753	T	T	220101753	2	4	84	1	0	0	0	0	0	0	0	1	14579	726	26	2		2	SLC30A10	1	220101753	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	749235	220101753	29148868	136	51979											
MIA3	375056	broad.mit.edu	37	chr1	222803217	222803217	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccatgagaacacagagaaGtacatgggcacagaaagcca	18	3	11	9	0	0	3	0	1	0	3	0	6	0	3	2	1	3	2	2	1	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:222803217G>A	uc001hnl.2	+	4	2664	c.2655G>A	c.(2653-2655)AAG>AAA	p.K885K	MIA3_uc009xea.1_Silent_p.K721K	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	885	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		ACACAGAGAAGTACATGGGCA	0.522													9	32					0	0	1	0	0		A	222803217	A	A	222803217	2	1	84	1	0	0	0	0	0	0	0	1	9583	1020	36	4		4	MIA3	1	222803217	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2701464	222803217	26447404	137	51980											
C1orf58	148362	broad.mit.edu	37	chr1	222889064	222889064	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacccattggtttcataggaAcccattaaaagccacagctc	13	9	7	12	0	1	0	1	0	0	0	2	2	1	1	3	2	3	2	3	2	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:222889064A>G	uc001hnq.1	+	2	418	c.23A>G	c.(22-24)AAC>AGC	p.N8S	AIDA_uc001hno.2_5'Flank|AIDA_uc010pus.1_5'Flank|C1orf58_uc010put.1_Missense_Mutation_p.N8S|C1orf58_uc010puu.1_Missense_Mutation_p.N8S|C1orf58_uc010puv.1_Missense_Mutation_p.N8S	NM_144695	NP_653296	Q5VW32	BROX_HUMAN	Bro1-domain-containing protein	8						membrane					0				GBM - Glioblastoma multiforme(131;0.0667)		TTTCATAGGAACCCATTAAAA	0.299													18	52					0	0	1	0	0		G	222889064	G	G	222889064	3	3	84	1	0	0	0	0	1	0	0	0	2053	43	2	3	25	3	C1orf58	1	222889064	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	85847	222889064	26361557	138	51981											
DISP1	84976	broad.mit.edu	37	chr1	223177683	223177683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctccaggatagcctctccGatggcaccctcattgccatg	8	9	8	16	1	2	0	1	0	1	0	4	2	3	1	6	2	2	1	6	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:223177683G>A	uc001hnu.1	+	8	3091	c.2944G>A	c.(2944-2946)GAT>AAT	p.D982N		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	982					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TAGCCTCTCCGATGGCACCCT	0.507													4	56					0	0	1	0	0		A	223177683	A	A	223177683	3	1	84	1	0	0	0	0	1	0	0	0	4545	1058	37	1	2970	1	DISP1	1	223177683	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	288619	223177683	26072938	139	51982											
TLR5	7100	broad.mit.edu	37	chr1	223284384	223284384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagataaaacagaagccccGgaactttgtgactgtgagga	15	7	11	8	1	0	4	0	2	0	2	0	6	0	6	2	2	3	0	2	2	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:223284384G>A	uc001hnv.1	-	4	2436	c.1990C>T	c.(1990-1992)CGG>TGG	p.R664W	TLR5_uc001hnw.1_Missense_Mutation_p.R664W	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	664	Cytoplasmic (Potential).		Missing (in 10% of the population; abolishes flagellin signaling; associated with resistance to SLEB1).		cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		CAGAAGCCCCGGAACTTTGTG	0.443													30	60					0	0	1	0	0		A	223284384	A	A	223284384	3	1	84	1	0	0	0	0	1	0	0	0	15979	1115	39	1	590	1	TLR5	1	223284384	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	106701	223284384	25966237	140	51983											
NVL	4931	broad.mit.edu	37	chr1	224491429	224491429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcagcaagcctcaccccaGcaattgcatgtgcaagtaat	12	9	8	12	0	2	0	2	0	0	0	2	0	2	0	3	0	5	5	3	0	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:224491429G>A	uc001hok.2	-	9	999	c.956C>T	c.(955-957)GCT>GTT	p.A319V	NVL_uc001hol.2_Missense_Mutation_p.A213V|NVL_uc010pvd.1_Missense_Mutation_p.A228V|NVL_uc010pve.1_Missense_Mutation_p.A103V|NVL_uc010pvf.1_RNA	NM_002533	NP_002524	O15381	NVL_HUMAN	nuclear VCP-like isoform 1	319						aggresome|cytoplasm|nucleolus	ATP binding|nucleoside-triphosphatase activity			skin(2)	2				GBM - Glioblastoma multiforme(131;0.00501)		CCTCACCCCAGCAATTGCATG	0.448													5	51					0	0	1	0	0		A	224491429	A	A	224491429	3	1	84	1	0	0	0	0	1	0	0	0	10799	971	34	2	1674	2	NVL	1	224491429	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1207045	224491429	24759192	141	51984											
TMEM63A	9725	broad.mit.edu	37	chr1	226044664	226044664	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagacaatggaggggagcagGgccgagaaggaccagagcag	14	2	18	7	1	0	3	0	0	0	3	0	7	0	6	2	5	2	2	2	5	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:226044664G>A	uc001hpm.1	-	16	1681	c.1431C>T	c.(1429-1431)GCC>GCT	p.A477A		NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	477	Helical; (Potential).					integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					AGGGGAGCAGGGCCGAGAAGG	0.602													9	26					0	0	1	0	0		A	226044664	A	A	226044664	2	1	84	1	0	0	0	0	0	0	0	1	16215	1219	43	4		4	TMEM63A	1	226044664	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1553235	226044664	23205957	142	51985											
LEFTY1	10637	broad.mit.edu	37	chr1	226109261	226109261	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatactgaccagcaaagcCtgggccccgagttggattgc	11	7	12	11	1	0	2	0	1	0	1	0	4	0	3	4	2	4	2	4	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:226109261C>A	uc010pvj.1	-	4	557	c.402G>T	c.(400-402)CAG>CAT	p.Q134H	PYCR2_uc001hpp.2_Intron|PYCR2_uc001hpq.2_Missense_Mutation_p.Q208H|PYCR2_uc001hpr.2_Missense_Mutation_p.Q161H			O75610	LFTY1_HUMAN	SubName: Full=cDNA FLJ54750, moderately similar to Pyrroline-5-carboxylate reductase 2 (EC 1.5.1.2);	Error:Variant_position_missing_in_O75610_after_alignment					cell growth|multicellular organismal development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)					CCAGCAAAGCCTGGGCCCCGA	0.572													28	72					2.48779e-11	2.71538e-11	1	1	0		A	226109261	A	A	226109261	3	1	84	1	0	0	0	0	1	0	0	0	8731	680	24	5		5	LEFTY1	1	226109261	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	64597	226109261	23141360	143	51986											
ITPKB	3707	broad.mit.edu	37	chr1	226923840	226923840	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccctccctccactctgtcGgagagctgccaacgcccccc	6	6	8	21	2	1	1	0	0	1	1	4	3	3	1	7	1	3	1	7	1	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:226923840G>A	uc010pvo.1	-	2	1660	c.1320C>T	c.(1318-1320)TCC>TCT	p.S440S	ITPKB_uc001hqh.2_Silent_p.S440S	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	440							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				CCACTCTGTCGGAGAGCTGCC	0.706													16	55					0	0	1	0	0		A	226923840	A	A	226923840	2	1	84	1	0	0	0	0	0	0	0	1	7934	1103	39	1		1	ITPKB	1	226923840	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	814579	226923840	22326781	144	51987											
CABC1	56997	broad.mit.edu	37	chr1	227153002	227153002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctgccatgggctttcagcGaaggttcttccaccaggacc	7	10	10	14	1	3	0	1	0	2	0	4	2	4	1	4	3	2	2	4	3	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:227153002G>A	uc001hqm.1	+	8	3898	c.479G>A	c.(478-480)CGA>CAA	p.R160Q	CABC1_uc010pvp.1_Missense_Mutation_p.R123Q|CABC1_uc001hqn.1_Missense_Mutation_p.R160Q|CABC1_uc009xeq.1_Missense_Mutation_p.R108Q|CABC1_uc010pvq.1_Intron|CABC1_uc010pvr.1_5'Flank	NM_020247	NP_064632	Q8NI60	ADCK3_HUMAN	chaperone, ABC1 activity of bc1 complex like	160					cell death	mitochondrion	ATP binding|protein serine/threonine kinase activity				0		Prostate(94;0.0771)				GGCTTTCAGCGAAGGTTCTTC	0.637													8	35					0	0	1	0	0		A	227153002	A	A	227153002	3	1	84	1	0	0	0	0	1	0	0	0	2530	1058	37	1	485	1	CABC1	1	227153002	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	229162	227153002	22097619	145	51988											
ZNF678	339500	broad.mit.edu	37	chr1	227842415	227842415	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagagaaaccctacaaatGtgacgaatgtggcaaagttt	15	9	11	6	1	0	2	0	1	0	1	0	5	0	3	1	2	2	2	1	2	5	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:227842415G>A	uc001hqw.1	+	4	809	c.464G>A	c.(463-465)TGT>TAT	p.C155Y	ZNF678_uc009xet.1_Intron|ZNF678_uc009xeu.1_Intron	NM_178549	NP_848644	F5GXA7	F5GXA7_HUMAN	zinc finger protein 678	210					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			pancreas(1)	1		Prostate(94;0.0885)				CCCTACAAATGTGACGAATGT	0.348													5	87					0	0	1	0	0		A	227842415	A	A	227842415	3	1	84	1	0	0	0	0	1	0	0	0	18110	1377	48	4	643	4	ZNF678	1	227842415	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	689413	227842415	21408206	146	51989											
PGBD5	79605	broad.mit.edu	37	chr1	230492738	230492738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgtggtctggctggagcGgaaggccacgacgtggaagt	7	7	19	8	4	1	0	0	0	1	0	1	4	1	3	1	6	2	1	1	6	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:230492738G>A	uc010pwb.1	-	2	454	c.454C>T	c.(454-456)CGC>TGC	p.R152C	PGBD5_uc001htv.2_Missense_Mutation_p.R251C	NM_024554	NP_078830	Q8N414	PGBD5_HUMAN	piggyBac transposable element derived 5	152						integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(184;0.0397)	Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;0.201)		TGGCTGGAGCGGAAGGCCACG	0.617													25	68					0	0	1	0	0		A	230492738	A	A	230492738	3	1	84	1	0	0	0	0	1	0	0	0	11803	1116	39	1	937	1	PGBD5	1	230492738	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2650323	230492738	18757883	147	51990											
SIPA1L2	57568	broad.mit.edu	37	chr1	232581284	232581284	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcattacctcgtgccaTcgggcagcttccggtcgaag	8	8	11	14	4	0	0	0	0	0	0	4	1	1	0	4	2	4	3	4	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:232581284T>C	uc001hvg.2	-	9	3502	c.3344A>G	c.(3343-3345)GAT>GGT	p.D1115G	SIPA1L2_uc001hvf.2_Missense_Mutation_p.D189G	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1115					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				CCTCGTGCCATCGGGCAGCTT	0.602													29	61					0	0	1	0	0		C	232581284	C	C	232581284	3	2	84	1	0	0	0	0	1	0	0	0	14355	1435	50	3	1876	3	SIPA1L2	1	232581284	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2088546	232581284	16669337	148	51991											
KIAA1383	54627	broad.mit.edu	37	chr1	232941435	232941435	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccggcgctcccgccgcCgaaccgtggcccggtgtcat	3	5	14	19	7	1	0	1	0	0	0	2	1	2	0	7	4	1	1	7	4	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:232941435C>T	uc001hvh.2	+	1	798	c.666C>T	c.(664-666)GCC>GCT	p.A222A		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	80										ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				CTCCCGCCGCCGAACCGTGGC	0.726													6	21					0	0	1	0	0		T	232941435	T	T	232941435	2	4	84	1	0	0	0	0	0	0	0	1	8244	639	23	1		1	KIAA1383	1	232941435	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	360151	232941435	16309186	149	51992											
TARBP1	6894	broad.mit.edu	37	chr1	234606951	234606951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccattttcctctgacaccGcatattcaaacagattgttt	11	15	4	11	1	2	2	1	1	1	1	3	2	3	2	3	0	2	2	3	0	3	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:234606951G>A	uc001hwd.2	-	3	1082	c.1082C>T	c.(1081-1083)GCG>GTG	p.A361V		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	361					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			CTCTGACACCGCATATTCAAA	0.209													9	31					0	0	1	0	0		A	234606951	A	A	234606951	3	1	84	1	0	0	0	0	1	0	0	0	15580	1087	38	1	3895	1	TARBP1	1	234606951	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1665516	234606951	14643670	150	51993											
LYST	1130	broad.mit.edu	37	chr1	235929422	235929422	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcgtgggattgtgacaaacGtaagtattagtaggagggtg	11	12	15	3	2	0	1	0	1	0	0	1	3	0	3	0	3	1	3	0	3	5	6	rs80338660		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:235929422G>A	uc001hxj.2	-	21	6253	c.6078C>T	c.(6076-6078)TAC>TAT	p.Y2026Y	LYST_uc009xgb.1_Intron|LYST_uc010pxs.1_RNA	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2026					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TGTGACAAACGTAAGTATTAG	0.343									Chediak-Higashi_syndrome				29	119					0	0	1	0	0		A	235929422	A	A	235929422	2	1	84	1	0	0	0	0	0	0	0	1	9146	1140	40	1		1	LYST	1	235929422	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1322471	235929422	13321199	151	51994											
SDCCAG8	10806	broad.mit.edu	37	chr1	243437869	243437869	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattagaacatgaggaaaccAatatgcctactatgcacgac	16	8	7	10	1	0	2	0	1	0	1	0	4	0	3	2	1	5	1	2	1	7	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:243437869A>G	uc001hzw.2	+	4	487	c.331A>G	c.(331-333)AAT>GAT	p.N111D	SDCCAG8_uc010pyk.1_Intron|SDCCAG8_uc010pyl.1_Intron	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	111					establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		TGAGGAAACCAATATGCCTAC	0.289													19	34					0	0	1	0	0		G	243437869	G	G	243437869	3	3	84	1	0	0	0	0	1	0	0	0	13984	130	5	3	345	3	SDCCAG8	1	243437869	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	7508447	243437869	5812752	152	51995											
C1orf100	200159	broad.mit.edu	37	chr1	244538703	244538703	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctcaccaaggaagagacgTtcaaggctattaccctgggc	11	7	11	12	2	2	1	2	0	0	1	2	3	2	2	2	3	1	3	2	3	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:244538703T>C	uc001iah.2	+	3	199	c.86T>C	c.(85-87)GTT>GCT	p.V29A	C1orf100_uc001iai.2_Missense_Mutation_p.V29A	NM_001012970	NP_001012988	Q5SVJ3	CA100_HUMAN	hypothetical protein LOC200159	29											0	all_cancers(71;3.94e-05)|all_epithelial(71;0.000138)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|all_lung(81;0.0736)|Ovarian(71;0.0761)|Lung NSC(105;0.103)		all cancers(7;8.19e-08)|GBM - Glioblastoma multiforme(7;2.05e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.000984)			GGAAGAGACGTTCAAGGCTAT	0.458													14	50					0	0	1	0	0		C	244538703	C	C	244538703	3	2	84	1	0	0	0	0	1	0	0	0	1978	1725	60	3	92	3	C1orf100	1	244538703	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1100834	244538703	4711918	153	51996											
TFB2M	64216	broad.mit.edu	37	chr1	246729200	246729200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatttgcgccagggtctcagCcaatctccgatcggttacgt	7	11	11	12	4	2	0	1	0	2	0	5	2	2	0	3	2	3	1	3	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:246729200C>T	uc001ibn.2	-	1	366	c.241G>A	c.(241-243)GCT>ACT	p.A81T	CNST_uc001ibo.3_5'Flank|CNST_uc001ibp.2_5'Flank|TFB2M_uc010pys.1_RNA	NM_022366	NP_071761	Q9H5Q4	TFB2M_HUMAN	transcription factor B2, mitochondrial	81					positive regulation of transcription, DNA-dependent|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity|transcription cofactor activity			ovary(1)	1	all_cancers(71;4.25e-05)|all_epithelial(71;4.92e-06)|Ovarian(71;0.0254)|all_lung(81;0.0272)|Breast(184;0.0318)|Lung NSC(105;0.0376)		OV - Ovarian serous cystadenocarcinoma(106;0.00358)			AGGGTCTCAGCCAATCTCCGA	0.522													35	97					0	0	1	0	0		T	246729200	T	T	246729200	3	4	84	1	0	0	0	0	1	0	0	0	15819	739	26	2	981	2	TFB2M	1	246729200	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2190497	246729200	2521421	154	51997											
AHCTF1	25909	broad.mit.edu	37	chr1	247014591	247014591	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaatgtcacattcagcagTgtctttgttatcagctaagt	11	14	8	8	0	4	0	3	0	1	0	4	0	4	0	0	0	3	4	0	0	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:247014591T>C	uc001ibu.1	-	32	4724	c.4717A>G	c.(4717-4719)ACT>GCT	p.T1573A	AHCTF1_uc001ibv.1_Missense_Mutation_p.T1582A|AHCTF1_uc009xgs.1_Missense_Mutation_p.T434A|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	1573	Mediates transcriptional activity (By similarity).|Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			CATTCAGCAGTGTCTTTGTTA	0.383													29	74					0	0	1	0	0		C	247014591	C	C	247014591	3	2	84	1	0	0	0	0	1	0	0	0	408	1696	59	3	2099	3	AHCTF1	1	247014591	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	285391	247014591	2236030	155	51998											
ZNF124	7678	broad.mit.edu	37	chr1	247320277	247320277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgaaggcaattggagtaaCggaaggctttcccacagtgc	13	8	12	8	1	0	1	0	1	0	0	1	3	1	3	1	4	2	3	1	4	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr1:247320277C>T	uc001ick.2	-	4	786	c.647G>A	c.(646-648)CGT>CAT	p.R216H	ZNF124_uc001ici.2_Intron|ZNF124_uc001icj.1_Missense_Mutation_p.R154H	NM_003431	NP_003422	Q15973	ZN124_HUMAN	zinc finger protein 124	216	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	all_cancers(71;5.07e-05)|all_epithelial(71;8.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00739)			ATTGGAGTAACGGAAGGCTTT	0.453													26	77					0	0	1	0	0		T	247320277	T	T	247320277	3	4	84	1	0	0	0	0	1	0	0	0	17745	536	19	1	412	1	ZNF124	1	247320277	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	305686	247320277	1930344	156	51999											
TMEM18	129787	broad.mit.edu	37	chr2	675525	675525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacctagacacagaaagtGcccgatctgtagtctgtagc	11	9	9	12	1	3	2	1	0	2	2	3	3	3	2	2	0	2	2	2	0	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:675525G>A	uc002qwl.2	-	2	257	c.163C>T	c.(163-165)CAC>TAC	p.H55Y	TMEM18_uc002qwk.2_RNA|uc002qwm.1_5'Flank	NM_152834	NP_690047	Q96B42	TMM18_HUMAN	transmembrane protein 18	55	Helical; (Potential).				cell migration	integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;5.27e-05)|all_epithelial(98;2.11e-06)|Ovarian(717;0.0253)		all cancers(51;1.95e-21)|Epithelial(75;9.47e-21)|OV - Ovarian serous cystadenocarcinoma(76;8.15e-18)|GBM - Glioblastoma multiforme(21;0.0285)		CACAGAAAGTGCCCGATCTGT	0.507													31	88					0	0	1	0	0		A	675525	A	A	675525	3	1	84	1	0	0	0	0	1	0	0	0	16123	1319	46	2	275	2	TMEM18	2	675525	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08		675525	242523848	157	52000											
SOX11	6664	broad.mit.edu	37	chr2	5833531	5833531	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtttctggatgaggacgaCgacgacgacgacgacgacga	11	6	15	9	8	1	1	0	1	1	0	1	11	1	3	0	2	0	1	0	2	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:5833531C>T	uc002qyj.2	+	1	733	c.678C>T	c.(676-678)GAC>GAT	p.D226D		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	226	Poly-Asp.				cardiac ventricle formation|closure of optic fissure|cornea development in camera-type eye|embryonic digestive tract morphogenesis|embryonic skeletal system morphogenesis|eyelid development in camera-type eye|glial cell proliferation|hard palate development|lens morphogenesis in camera-type eye|limb bud formation|lung morphogenesis|negative regulation of cell death|negative regulation of glial cell proliferation|negative regulation of lymphocyte proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|neural crest cell development|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|outflow tract morphogenesis|positive regulation of BMP signaling pathway|positive regulation of hippo signaling cascade|positive regulation of hormone secretion|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of ossification|positive regulation of osteoblast differentiation|positive regulation of stem cell proliferation|regulation of transforming growth factor beta receptor signaling pathway|signal transduction involved in G1/S transition checkpoint|soft palate development|somite development|spinal cord development|sympathetic nervous system development|ventricular septum morphogenesis	cytoplasm|nucleolus	enhancer sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			OV - Ovarian serous cystadenocarcinoma(76;0.132)		ATGAGgacgacgacgacgacg	0.602													10	11					0	0	1	0	0		T	5833531	T	T	5833531	2	4	84	1	0	0	0	0	0	0	0	1	14967	535	19	1		1	SOX11	2	5833531	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5158006	5833531	237365842	158	52001											
ROCK2	9475	broad.mit.edu	37	chr2	11351805	11351805	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accctctttaaaaaatgcatAcctttcatggcttctgattt	11	16	4	10	0	3	1	1	1	2	0	3	1	3	1	2	1	2	2	2	1	4	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:11351805A>G	uc002rbd.1	-	18	2652	c.2203_splice	c.e18+1	p.E735_splice		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein						axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		AAAAATGCATACCTTTCATGG	0.353													22	78					0	0	1	0	0		G	11351805	G	G	11351805	5	3	84	1	0	0	0	0	0	0	1	0	13543	405	14	3	2025	3	ROCK2	2	11351805	Splice_Site	SNP	A	TCGA-BR-8591-01A-11D-2394-08	5518274	11351805	231847568	159	52002											
TRIB2	28951	broad.mit.edu	37	chr2	12863670	12863670	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaaattcatctttaaggaCgaagagaggtaggtctcatc	13	10	11	7	2	3	1	2	0	2	1	5	5	3	3	0	4	0	1	0	4	4	4	rs144779580	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:12863670C>T	uc002rbv.3	+	2	1991	c.555C>T	c.(553-555)GAC>GAT	p.D185D	TRIB2_uc010yjp.1_Silent_p.D49D	NM_021643	NP_067675	Q92519	TRIB2_HUMAN	tribbles homolog 2	185	Protein kinase.				negative regulation of fat cell differentiation|negative regulation of interleukin-10 biosynthetic process|negative regulation of protein kinase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|regulation of MAP kinase activity	cytoplasm|cytoskeleton|nucleus	ATP binding|protein kinase activity|protein kinase inhibitor activity|transcription factor binding|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			stomach(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TCTTTAAGGACGAAGAGAGGT	0.537													23	67					0	0	1	0	0		T	12863670	T	T	12863670	2	4	84	1	0	0	0	0	0	0	0	1	16509	535	19	1		1	TRIB2	2	12863670	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1511865	12863670	230335703	160	52003											
ITSN2	50618	broad.mit.edu	37	chr2	24509160	24509160	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcatctaactgttctttaAgtctttggcataattcttcc	9	17	6	9	0	4	0	0	0	4	0	5	1	5	0	1	1	2	3	1	1	3	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:24509160A>C	uc002rfe.2	-	16	2042	c.1784T>G	c.(1783-1785)CTT>CGT	p.L595R	ITSN2_uc002rff.2_Missense_Mutation_p.L595R|ITSN2_uc002rfg.2_Missense_Mutation_p.L595R|ITSN2_uc010eyd.2_Missense_Mutation_p.L620R	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	595	Potential.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGTTCTTTAAGTCTTTGGCA	0.299													5	25					0	0	1	0	0		C	24509160	C	C	24509160	3	2	84	1	0	0	0	0	1	0	0	0	7943	72	3	5	3460	5	ITSN2	2	24509160	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	11645490	24509160	218690213	161	52004											
NCOA1	8648	broad.mit.edu	37	chr2	24927990	24927990	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcctccagcccctcctatAgattcatattgaatgatggg	9	12	8	12	0	1	3	1	2	0	1	3	3	3	3	5	1	2	0	5	1	4	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:24927990A>G	uc002rfk.2	+	10	1243	c.985A>G	c.(985-987)AGA>GGA	p.R329G	NCOA1_uc010eye.2_Missense_Mutation_p.R329G|NCOA1_uc002rfi.2_Missense_Mutation_p.R178G|NCOA1_uc002rfj.2_Missense_Mutation_p.R329G|NCOA1_uc002rfl.2_Missense_Mutation_p.R329G	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	329									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCCTCCTATAGATTCATATT	0.433			T	PAX3	alveolar rhadomyosarcoma								20	77					0	0	1	0	0		G	24927990	G	G	24927990	3	3	84	1	0	0	0	0	1	0	0	0	10247	412	15	3	1015	3	NCOA1	2	24927990	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	418830	24927990	218271383	162	52005											
SNX17	9784	broad.mit.edu	37	chr2	27598992	27598992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctatcatgatgagcatctGcttgcagtccatggttgatg	8	13	12	8	0	2	3	1	3	1	0	3	3	3	3	1	2	3	5	1	2	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:27598992G>A	uc002rkg.1	+	12	1346	c.1124G>A	c.(1123-1125)TGC>TAC	p.C375Y	SNX17_uc010ylj.1_Missense_Mutation_p.C355Y|SNX17_uc010ylk.1_Missense_Mutation_p.C161Y|SNX17_uc010eza.1_Missense_Mutation_p.C161Y|SNX17_uc002rki.1_RNA|SNX17_uc002rkh.1_Missense_Mutation_p.C161Y|SNX17_uc010yll.1_Missense_Mutation_p.C161Y|SNX17_uc010ylm.1_Missense_Mutation_p.C161Y|SNX17_uc010yln.1_Missense_Mutation_p.C363Y|SNX17_uc010ylo.1_Missense_Mutation_p.C293Y|SNX17_uc010ylp.1_Missense_Mutation_p.C350Y|SNX17_uc010ylq.1_Missense_Mutation_p.C161Y	NM_014748	NP_055563	Q15036	SNX17_HUMAN	sorting nexin 17	375					cell communication|endosome transport|intracellular protein transport|regulation of endocytosis|signal transduction	cytoplasmic vesicle membrane|cytosol|early endosome|Golgi apparatus	low-density lipoprotein particle receptor binding|phosphatidylinositol binding|protein C-terminus binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATGAGCATCTGCTTGCAGTCC	0.517													36	115					0	0	1	0	0		A	27598992	A	A	27598992	3	1	84	1	0	0	0	0	1	0	0	0	14913	1319	46	2	1170	2	SNX17	2	27598992	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2671002	27598992	215600381	163	52006											
ZNF513	130557	broad.mit.edu	37	chr2	27600656	27600656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtgccgcagcatgtgaCgtttgaggttcatgctctgg	5	13	14	9	2	2	2	1	2	1	0	2	2	2	2	1	2	3	5	1	2	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:27600656C>T	uc002rkk.2	-	4	1582	c.1382G>A	c.(1381-1383)CGT>CAT	p.R461H	ZNF513_uc002rkj.2_Missense_Mutation_p.R399H	NM_144631	NP_653232	Q8N8E2	ZN513_HUMAN	zinc finger protein 513	461	C2H2-type 7.				regulation of transcription, DNA-dependent|response to stimulus|retina development in camera-type eye|transcription, DNA-dependent|visual perception	nucleus	transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGCATGTGACGTTTGAGGTT	0.572													74	199					0	0	1	0	0		T	27600656	T	T	27600656	3	4	84	1	0	0	0	0	1	0	0	0	17983	536	19	1	247	1	ZNF513	2	27600656	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1664	27600656	215598717	164	52007											
SLC4A1AP	22950	broad.mit.edu	37	chr2	27898476	27898476	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacacatttcttgataggActggcctgattgagaagaag	13	11	11	6	0	1	5	0	4	1	2	1	7	1	6	1	2	0	0	1	2	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:27898476A>G	uc002rlk.3	+	6	1705	c.1423A>G	c.(1423-1425)ACT>GCT	p.T475A		NM_018158	NP_060628	Q9BWU0	NADAP_HUMAN	solute carrier family 4 (anion exchanger),	475						cytoplasm|nucleus	double-stranded RNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)					TCTTGATAGGACTGGCCTGAT	0.393													24	48					0	0	1	0	0		G	27898476	G	G	27898476	3	3	84	1	0	0	0	0	1	0	0	0	14678	275	10	3	1445	3	SLC4A1AP	2	27898476	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	297820	27898476	215300897	165	52008											
LCLAT1	253558	broad.mit.edu	37	chr2	30748598	30748598	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggatcaacaaccgccttgtgGcaacatggctcaccctacct	10	8	8	15	1	2	0	2	0	0	0	2	1	2	1	4	3	4	2	4	3	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:30748598G>T	uc002rnj.2	+	3	465	c.256G>T	c.(256-258)GCA>TCA	p.A86S	LCLAT1_uc010ymp.1_Intron|LCLAT1_uc002rnk.1_Missense_Mutation_p.A86S|LCLAT1_uc002rnl.2_Missense_Mutation_p.A48S|LCLAT1_uc010ymq.1_Missense_Mutation_p.A48S	NM_182551	NP_872357	Q6UWP7	LCLT1_HUMAN	lysocardiolipin acyltransferase 1 isoform 1	86	Helical; (Potential).				multicellular organismal development|phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			ovary(2)	2						CCGCCTTGTGGCAACATGGCT	0.408													29	75					1.7881e-09	1.92871e-09	1	1	0		T	30748598	T	T	30748598	3	4	84	1	0	0	0	0	1	0	0	0	8693	1203	42	5	262	5	LCLAT1	2	30748598	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2850122	30748598	212450775	166	52009											
HEATR5B	54497	broad.mit.edu	37	chr2	37287865	37287865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgggcagatggtaacgaaCgacagatggtcctagccaag	12	7	13	9	2	0	2	0	0	0	2	1	4	1	2	2	3	3	2	2	3	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:37287865C>T	uc002rpp.1	-	12	1804	c.1708G>A	c.(1708-1710)GTT>ATT	p.V570I		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	570							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				TGGTAACGAACGACAGATGGT	0.408													23	64					0	0	1	0	0		T	37287865	T	T	37287865	3	4	84	1	0	0	0	0	1	0	0	0	7048	536	19	1	4607	1	HEATR5B	2	37287865	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	6539267	37287865	205911508	167	52010											
SLC3A1	6519	broad.mit.edu	37	chr2	44539759	44539759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagttcacggctgacttcgcGtttggggaatcagtatgtca	8	12	12	9	3	3	1	3	1	0	0	4	2	3	2	0	3	0	4	0	3	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:44539759G>A	uc002ruc.3	+	8	1445	c.1367G>A	c.(1366-1368)CGT>CAT	p.R456H	SLC3A1_uc002rtz.2_Missense_Mutation_p.R456H|SLC3A1_uc002rua.2_Missense_Mutation_p.R456H|SLC3A1_uc002rub.2_Missense_Mutation_p.R456H|SLC3A1_uc002rud.3_Missense_Mutation_p.R178H|SLC3A1_uc002rue.3_Missense_Mutation_p.R76H	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	456	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	CTGACTTCGCGTTTGGGGAAT	0.398													21	83					0	0	1	0	0		A	44539759	A	A	44539759	3	1	84	1	0	0	0	0	1	0	0	0	14651	1145	40	1	1397	1	SLC3A1	2	44539759	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7251894	44539759	198659614	168	52011											
MSH6	2956	broad.mit.edu	37	chr2	48026311	48026311	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attttgatgcatctacactcTatgtgcctgaggatttcctc	8	16	7	10	0	2	2	0	2	2	0	4	3	3	3	2	1	3	1	2	1	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:48026311T>C	uc002rwd.3	+	4	1341	c.1189T>C	c.(1189-1191)TAT>CAT	p.Y397H	MSH6_uc002rwc.2_Missense_Mutation_p.Y397H|MSH6_uc010fbj.2_Missense_Mutation_p.Y95H|MSH6_uc010yoi.1_Missense_Mutation_p.Y267H|MSH6_uc010yoj.1_Missense_Mutation_p.Y95H	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	397					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding	p.Y397C(1)		large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ATCTACACTCTATGTGCCTGA	0.443			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				26	63					0	0	1	0	0		C	48026311	C	C	48026311	3	2	84	1	0	0	0	0	1	0	0	0	9892	1522	53	3	1203	3	MSH6	2	48026311	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3486552	48026311	195173062	169	52012											
FOXN2	3344	broad.mit.edu	37	chr2	48602513	48602513	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgctccaccttgctggAattcgtacatgtttaggttc	6	16	8	11	1	1	0	0	0	1	0	5	1	2	1	2	2	3	5	2	2	3	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:48602513A>G	uc002rwh.1	+	7	1542	c.1227A>G	c.(1225-1227)GGA>GGG	p.G409G		NM_002158	NP_002149	P32314	FOXN2_HUMAN	T-cell leukemia virus enhancer factor	409					embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0272)|LUSC - Lung squamous cell carcinoma(58;0.036)			ACCTTGCTGGAATTCGTACAT	0.403													9	12					0	0	1	0	0		G	48602513	G	G	48602513	2	3	84	1	0	0	0	0	0	0	0	1	6034	233	9	3		3	FOXN2	2	48602513	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	576202	48602513	194596860	170	52013											
TSPYL6	388951	broad.mit.edu	37	chr2	54483007	54483007	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgcttctaggccctccgcGggtggtggagtcacttcctg	3	10	14	14	3	2	0	1	0	1	0	4	1	4	1	4	4	0	1	4	4	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:54483007G>A	uc002rxr.2	-	1	403	c.282C>T	c.(280-282)CCC>CCT	p.P94P	ACYP2_uc002rxq.3_Intron	NM_001003937	NP_001003937	Q8N831	TSYL6_HUMAN	TSPY-like 6	94					nucleosome assembly	nucleus					0						GGCCCTCCGCGGGTGGTGGAG	0.617													22	59					0	0	1	0	0		A	54483007	A	A	54483007	2	1	84	1	0	0	0	0	0	0	0	1	16689	1103	39	1		1	TSPYL6	2	54483007	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	5880494	54483007	188716366	171	52014											
PUS10	150962	broad.mit.edu	37	chr2	61175320	61175320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttctggtcgatttttaagtCctaggggagaatatgacaca	11	14	10	6	1	1	2	0	1	1	1	3	4	2	2	1	3	0	0	1	3	4	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:61175320C>T	uc010fci.2	-	16	1369	c.1309G>A	c.(1309-1311)GAC>AAC	p.D437N	PUS10_uc002sao.2_Missense_Mutation_p.D437N|PUS10_uc010ypk.1_Missense_Mutation_p.D214N	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	437					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)			ATTTTTAAGTCCTAGGGGAGA	0.532													33	102					0	0	1	0	0		T	61175320	T	T	61175320	3	4	84	1	0	0	0	0	1	0	0	0	12856	869	30	4	292	4	PUS10	2	61175320	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	6692313	61175320	182024053	172	52015											
UGP2	7360	broad.mit.edu	37	chr2	64113007	64113007	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagtcacaaataaaacacGtgcagatgtaaaggtaaata	20	7	9	5	1	1	1	1	0	0	1	1	2	1	2	0	2	2	3	0	2	9	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:64113007G>C	uc002scm.2	+	6	1166	c.860G>C	c.(859-861)CGT>CCT	p.R287P	UGP2_uc002scl.2_Missense_Mutation_p.R276P|UGP2_uc010ypx.1_Missense_Mutation_p.R296P	NM_006759	NP_006750	Q16851	UGPA_HUMAN	UDP-glucose pyrophosphorylase 2 isoform a	287					glycogen biosynthetic process|phosphorylation|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	metal ion binding|protein binding|UTP:glucose-1-phosphate uridylyltransferase activity				0						AATAAAACACGTGCAGATGTA	0.363													14	43					0	0	1	0	0		C	64113007	C	C	64113007	3	2	84	1	0	0	0	0	1	0	0	0	16969	1145	40	5	882	5	UGP2	2	64113007	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2937687	64113007	179086366	173	52016											
ADD2	119	broad.mit.edu	37	chr2	70923378	70923378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagggcgttctgctcaccGtgacataggtgtcactcagc	7	10	11	13	2	4	1	3	1	1	0	5	1	5	1	2	2	2	2	2	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:70923378G>A	uc002sgz.2	-	5	938	c.473C>T	c.(472-474)ACG>ATG	p.T158M	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Missense_Mutation_p.T158M|ADD2_uc002sha.2_Missense_Mutation_p.T158M|ADD2_uc002sgx.2_Missense_Mutation_p.T158M|ADD2_uc010fdt.1_Missense_Mutation_p.T158M|ADD2_uc002shc.1_Missense_Mutation_p.T158M|ADD2_uc002shd.1_Missense_Mutation_p.T158M|ADD2_uc010fdu.1_Missense_Mutation_p.T174M	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	158					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						TCTGCTCACCGTGACATAGGT	0.597													13	16					0	0	1	0	0		A	70923378	A	A	70923378	3	1	84	1	0	0	0	0	1	0	0	0	305	1159	40	1	1936	1	ADD2	2	70923378	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	6810371	70923378	172275995	174	52017											
TEX261	113419	broad.mit.edu	37	chr2	71219073	71219073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatcatgctggtggggaagCgctcaaagacgtagaggcca	12	6	14	9	2	2	2	2	0	0	2	2	3	2	3	1	4	2	3	1	4	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:71219073C>T	uc002shn.2	-	3	305	c.191G>A	c.(190-192)CGC>CAC	p.R64H	TEX261_uc010fdy.2_Missense_Mutation_p.R17H	NM_144582	NP_653183	Q6UWH6	TX261_HUMAN	testis expressed sequence 261	64						integral to membrane					0						GGTGGGGAAGCGCTCAAAGAC	0.552													9	40					0	0	1	0	0		T	71219073	T	T	71219073	3	4	84	1	0	0	0	0	1	0	0	0	15807	768	27	1	415	1	TEX261	2	71219073	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	295695	71219073	171980300	175	52018											
TET3	200424	broad.mit.edu	37	chr2	74273650	74273650	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcccacgatctggtggcCttttcggctgtggccgaagc	5	10	14	12	3	1	0	0	0	1	0	2	3	1	0	3	4	2	1	3	4	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:74273650C>A	uc002skb.3	+	1	201	c.201C>A	c.(199-201)GCC>GCA	p.A67A	TET3_uc010fez.1_Silent_p.A67A	NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	67							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						ATCTGGTGGCCTTTTCGGCTG	0.607													12	43					0.00010058	0.000104044	1	1	0		A	74273650	A	A	74273650	2	1	84	1	0	0	0	0	0	0	0	1	15796	668	24	5		5	TET3	2	74273650	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3054577	74273650	168925723	176	52019											
TET3	200424	broad.mit.edu	37	chr2	74274036	74274037	+	Frame_Shift_Del	DEL	TC	-	-																															cagctcagaggtgccccagaTctctccccaagagggcctgc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:74274036_74274037delTC	uc002skb.3	+	1	587_588	c.587_588delTC	c.(586-588)ATCfs	p.I196fs	TET3_uc010fez.1_Frame_Shift_Del_p.I196fs	NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	196							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GTGCCCCAGATCTCTCCCCAAG	0.649													23	53	---	---	---	---						.	-	74274037	-	-	74274036	7	5	84	1	0	1	0	1	0	0	0	0	15796	1435	50	0	589	0	TET3	2	74274036	Frame_Shift_Del	DEL	TC	TCGA-BR-8591-01A-11D-2394-08	386	74274036	168925337	177	52020											
CCDC142	84865	broad.mit.edu	37	chr2	74702447	74702447	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcctgggcttgaggtggCaacccttgcaatccttgcaa	7	9	14	11	0	0	1	0	1	0	0	1	1	1	1	3	5	3	4	3	5	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:74702447C>T	uc002slr.2	-	7	2094	c.1701G>A	c.(1699-1701)TTG>TTA	p.L567L	MRPL53_uc002sln.2_5'Flank|CCDC142_uc002slo.2_RNA|CCDC142_uc002slq.2_Silent_p.L560L|CCDC142_uc002slp.2_Silent_p.L567L	NM_032779	NP_116168	Q17RM4	CC142_HUMAN	coiled-coil domain containing 142	567										central_nervous_system(1)	1						CTTGAGGTGGCAACCCTTGCA	0.572													22	108					0	0	1	0	0		T	74702447	T	T	74702447	2	4	84	1	0	0	0	0	0	0	0	1	2779	709	25	2		2	CCDC142	2	74702447	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	428411	74702447	168496926	178	52021											
LRRTM4	80059	broad.mit.edu	37	chr2	77745529	77745529	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtctcagagtttgtaggcTtgtagtccacataatactcc	9	14	9	9	0	1	1	1	0	1	1	4	1	3	1	2	2	1	4	2	2	4	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:77745529T>C	uc002snr.2	-	3	1881	c.1466A>G	c.(1465-1467)AAG>AGG	p.K489R	LRRTM4_uc002snq.2_Missense_Mutation_p.K489R|LRRTM4_uc002sns.2_Missense_Mutation_p.K489R|LRRTM4_uc002snt.2_Missense_Mutation_p.K490R	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	489	Cytoplasmic (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GTTTGTAGGCTTGTAGTCCAC	0.463													5	30					0	0	1	0	0		C	77745529	C	C	77745529	3	2	84	1	0	0	0	0	1	0	0	0	9060	1609	56	3	320	3	LRRTM4	2	77745529	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3043082	77745529	165453844	179	52022											
CTNNA2	1496	broad.mit.edu	37	chr2	80646606	80646606	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatggatcacatatctgaCtctttcctggaaaccaatgt	11	13	8	9	0	3	2	1	2	2	0	4	4	4	4	2	2	1	0	2	2	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:80646606C>T	uc010ysh.1	+	8	1175	c.1170C>T	c.(1168-1170)GAC>GAT	p.D390D	CTNNA2_uc010yse.1_Silent_p.D390D|CTNNA2_uc010ysf.1_Silent_p.D390D|CTNNA2_uc010ysg.1_Silent_p.D390D|CTNNA2_uc010ysi.1_Silent_p.D22D	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	390					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						ACATATCTGACTCTTTCCTGG	0.368													16	58					0	0	1	0	0		T	80646606	T	T	80646606	2	4	84	1	0	0	0	0	0	0	0	1	4016	564	20	4		4	CTNNA2	2	80646606	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2901077	80646606	162552767	180	52023											
ELMOD3	84173	broad.mit.edu	37	chr2	85617385	85617385	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactcgggctttgtcctcAaaggtgtgctctttcttctg	5	15	10	11	1	4	1	1	0	3	1	6	1	5	1	1	2	1	2	1	2	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:85617385A>G	uc002spf.3	+	14	1605	c.940A>G	c.(940-942)AAA>GAA	p.K314E	ELMOD3_uc002spg.3_Missense_Mutation_p.K314E|ELMOD3_uc002sph.3_Missense_Mutation_p.K314E|ELMOD3_uc010ysn.1_Missense_Mutation_p.K314E|ELMOD3_uc010yso.1_RNA|ELMOD3_uc010ysp.1_RNA	NM_001135021	NP_001128493	Q96FG2	ELMD3_HUMAN	ELMO/CED-12 domain containing 3 isoform b	314	ELMO.				phagocytosis	cytoskeleton				ovary(2)	2						CTTTGTCCTCAAAGGTGTGCT	0.562													26	64					0	0	1	0	0		G	85617385	G	G	85617385	3	3	84	1	0	0	0	0	1	0	0	0	5078	131	5	3	978	3	ELMOD3	2	85617385	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	4970779	85617385	157581988	181	52024											
ST3GAL5	8869	broad.mit.edu	37	chr2	86073608	86073608	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggtcagacagtggtgcGccctctggataagtcatcct	9	10	11	11	1	4	1	3	0	1	1	5	2	5	2	2	3	1	0	2	3	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:86073608G>A	uc002sqq.1	-	5	870	c.741C>T	c.(739-741)GGC>GGT	p.G247G	ST3GAL5_uc010fgq.1_Silent_p.G119G|ST3GAL5_uc002sqp.1_Silent_p.G224G	NM_003896	NP_003887	Q9UNP4	SIAT9_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	247	Lumenal (Potential).				ganglioside biosynthetic process|protein glycosylation	integral to Golgi membrane|integral to plasma membrane	lactosylceramide alpha-2,3-sialyltransferase activity|neolactotetraosylceramide alpha-2,3-sialyltransferase activity				0						ACAGTGGTGCGCCCTCTGGAT	0.348													6	47					0	0	1	0	0		A	86073608	A	A	86073608	2	1	84	1	0	0	0	0	0	0	0	1	15243	1074	38	1		1	ST3GAL5	2	86073608	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	456223	86073608	157125765	182	52025											
ADRA2B	151	broad.mit.edu	37	chr2	96781615	96781615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgaggtgcagaagagcacgtCgagcgccaggtacacctcgc	10	4	14	13	5	0	2	0	0	0	2	2	4	0	2	2	2	4	3	2	2	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:96781615C>T	uc002svi.2	-	1	274	c.274G>A	c.(274-276)GAC>AAC	p.D92N		NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor	92	Helical; Name=3; (By similarity).	Implicated in ligand binding (By similarity).			activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	AAGAGCACGTCGAGCGCCAGG	0.647													6	24					0	0	1	0	0		T	96781615	T	T	96781615	3	4	84	1	0	0	0	0	1	0	0	0	338	884	31	1	1073	1	ADRA2B	2	96781615	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	10708007	96781615	146417758	183	52026											
C2orf55	343990	broad.mit.edu	37	chr2	99439540	99439540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggtgggaaacgggctcGcgacgtcttcgggagcacag	7	6	18	10	6	1	0	0	0	1	0	3	3	1	2	0	5	2	2	0	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:99439540G>A	uc002szf.1	-	7	1490	c.1196C>T	c.(1195-1197)GCG>GTG	p.A399V		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	399	Pro-rich.										0						AAACGGGCTCGCGACGTCTTC	0.731													5	13					0	0	1	0	0		A	99439540	A	A	99439540	3	1	84	1	0	0	0	0	1	0	0	0	2179	1087	38	1	1708	1	C2orf55	2	99439540	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2657925	99439540	143759833	184	52027											
C2orf55	343990	broad.mit.edu	37	chr2	99448877	99448877	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggctcctgggcagcccGtcgtcctcagagctcatgcc	4	7	15	15	2	2	1	2	0	0	1	5	1	4	1	4	4	3	3	4	4	0	0	rs34718472	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:99448877G>A	uc002szf.1	-	5	768	c.474C>T	c.(472-474)GAC>GAT	p.D158D		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	158											0						TGGGCAGCCCGTCGTCCTCAG	0.587													31	89					0	0	1	0	0		A	99448877	A	A	99448877	2	1	84	1	0	0	0	0	0	0	0	1	2179	1136	40	1		1	C2orf55	2	99448877	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	9337	99448877	143750496	185	52028											
LYG2	254773	broad.mit.edu	37	chr2	99860495	99860495	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaacactccacgtggggaAttttttctggattgccttaa	10	13	9	9	1	1	0	0	0	1	0	2	2	2	2	2	3	3	1	2	3	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:99860495A>T	uc002szw.1	-	5	600	c.487T>A	c.(487-489)TTC>ATC	p.F163I	MRPL30_uc002szl.1_Intron|LYG2_uc010fip.1_Missense_Mutation_p.F163I|LYG2_uc002szx.1_Missense_Mutation_p.F163I	NM_175735	NP_783862	Q86SG7	LYG2_HUMAN	lysozyme G-like 2 precursor	163					cell wall macromolecule catabolic process|peptidoglycan catabolic process	extracellular region	lysozyme activity			ovary(1)	1						CACGTGGGGAATTTTTTCTGG	0.463													17	68					0	0	1	0	0		T	99860495	T	T	99860495	3	4	84	1	0	0	0	0	1	0	0	0	9123	101	4	5	159	5	LYG2	2	99860495	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	411618	99860495	143338878	186	52029											
AFF3	3899	broad.mit.edu	37	chr2	100289047	100289047	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagcttaaggtcatcttccaGcattctgaaagaaggaacaa	15	10	8	8	0	3	2	1	1	2	1	4	3	4	3	1	2	3	2	1	2	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:100289047G>A	uc002tag.2	-	11	1332	c.1096C>T	c.(1096-1098)CTG>TTG	p.L366L	AFF3_uc002taf.2_Silent_p.L391L|AFF3_uc010fiq.1_Silent_p.L366L|AFF3_uc010yvr.1_Silent_p.L520L|AFF3_uc002tah.1_Silent_p.L391L	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	366					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						TCATCTTCCAGCATTCTGAAA	0.373													21	80					0	0	1	0	0		A	100289047	A	A	100289047	2	1	84	1	0	0	0	0	0	0	0	1	358	962	34	2		2	AFF3	2	100289047	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	428552	100289047	142910326	187	52030											
POU3F3	5455	broad.mit.edu	37	chr2	105473462	105473462	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccacgggctgcagacgagCgttcagtgaagccagggcgc	9	4	15	13	4	1	2	1	1	0	1	1	3	1	2	2	2	3	3	2	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:105473462C>T	uc010ywg.1	+	1	1494	c.1494C>T	c.(1492-1494)AGC>AGT	p.S498S		NM_006236	NP_006227	P20264	PO3F3_HUMAN	POU class 3 homeobox 3	498					metanephric ascending thin limb development|metanephric DCT cell differentiation|metanephric macula densa development|metanephric thick ascending limb development|negative regulation of apoptosis|positive regulation of cell proliferation	nucleus	sequence-specific DNA binding			ovary(1)	1						TGCAGACGAGCGTTCAGTGAA	0.468													7	16					0	0	1	0	0		T	105473462	T	T	105473462	2	4	84	1	0	0	0	0	0	0	0	1	12295	767	27	1		1	POU3F3	2	105473462	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5184415	105473462	137725911	188	52031											
SULT1C2	6819	broad.mit.edu	37	chr2	108921046	108921046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagttcctttatgtagctcGaaatgccaaagactgtatgg	13	12	9	7	1	0	1	0	0	0	1	2	2	1	1	2	1	2	4	2	1	6	5	rs139416622	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:108921046G>A	uc002tdy.2	+	5	845	c.392G>A	c.(391-393)CGA>CAA	p.R131Q	SULT1C2_uc010ywp.1_Missense_Mutation_p.R46Q|SULT1C2_uc002tdx.2_Missense_Mutation_p.R142Q|SULT1C2_uc010ywq.1_Missense_Mutation_p.R145Q	NM_001056	NP_001047	O00338	ST1C2_HUMAN	sulfotransferase family, cytosolic, 1C, member 1	131	PAPS (By similarity).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine metabolic process|sulfation|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	sulfotransferase activity			ovary(1)	1						TATGTAGCTCGAAATGCCAAA	0.438													46	128					0	0	1	0	0		A	108921046	A	A	108921046	3	1	84	1	0	0	0	0	1	0	0	0	15402	1058	37	1	505	1	SULT1C2	2	108921046	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3447584	108921046	134278327	189	52032											
RANBP2	5903	broad.mit.edu	37	chr2	109347799	109347799	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcagtggaattaaacccaAcacaaaaagatcttgtgttg	15	11	8	7	0	2	1	1	0	1	1	2	2	2	2	1	1	2	2	1	1	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:109347799A>G	uc002tem.3	+	4	400	c.274A>G	c.(274-276)ACA>GCA	p.T92A		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	92	TPR.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						ATTAAACCCAACACAAAAAGA	0.294													19	36					0	0	1	0	0		G	109347799	G	G	109347799	3	3	84	1	0	0	0	0	1	0	0	0	13053	43	2	3	288	3	RANBP2	2	109347799	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	426753	109347799	133851574	190	52033											
CCDC138	165055	broad.mit.edu	37	chr2	109411014	109411014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttgccttgccaactaataCgacctcatcgagacctcgga	11	9	8	13	3	1	1	1	0	0	1	3	4	1	2	4	1	4	1	4	1	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:109411014C>T	uc002ten.1	+	5	473	c.413C>T	c.(412-414)ACG>ATG	p.T138M	CCDC138_uc002teo.1_Missense_Mutation_p.T138M|CCDC138_uc002tep.1_Translation_Start_Site|CCDC138_uc010fjm.1_Translation_Start_Site	NM_144978	NP_659415	Q96M89	CC138_HUMAN	coiled-coil domain containing 138	138											0						CCAACTAATACGACCTCATCG	0.388													19	58					0	0	1	0	0		T	109411014	T	T	109411014	3	4	84	1	0	0	0	0	1	0	0	0	2775	536	19	1	431	1	CCDC138	2	109411014	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	63215	109411014	133788359	191	52034											
CCDC138	165055	broad.mit.edu	37	chr2	109463340	109463340	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaagagctccaatttgccAttgagatttttatcaacctt	11	17	5	8	0	1	2	1	1	0	2	2	3	2	2	3	0	3	1	3	0	4	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:109463340A>G	uc002ten.1	+	12	1530	c.1470A>G	c.(1468-1470)CCA>CCG	p.P490P	CCDC138_uc002teo.1_Silent_p.P490P|CCDC138_uc002tep.1_Silent_p.P174P|CCDC138_uc010fjm.1_Silent_p.P174P	NM_144978	NP_659415	Q96M89	CC138_HUMAN	coiled-coil domain containing 138	490											0						CCAATTTGCCATTGAGATTTT	0.333													17	49					0	0	1	0	0		G	109463340	G	G	109463340	2	3	84	1	0	0	0	0	0	0	0	1	2775	204	8	3		3	CCDC138	2	109463340	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	52326	109463340	133736033	192	52035											
NPHP1	4867	broad.mit.edu	37	chr2	110927445	110927445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagcgatgtattcttcacCggttgaccatttgtgagatt	10	14	9	8	2	2	2	1	2	1	1	2	4	2	2	2	1	2	2	2	1	2	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:110927445C>T	uc002tfn.3	-	5	554	c.460G>A	c.(460-462)GGT>AGT	p.G154S	NPHP1_uc002tfm.3_Missense_Mutation_p.G154S|NPHP1_uc002tfl.3_Missense_Mutation_p.G154S|NPHP1_uc002tfo.3_Missense_Mutation_p.G92S|NPHP1_uc010ywx.1_Missense_Mutation_p.G154S|NPHP1_uc010fjv.1_Missense_Mutation_p.G154S	NM_207181	NP_997064	O15259	NPHP1_HUMAN	nephrocystin 1 isoform 2	154	SH3.				actin cytoskeleton organization|cell projection organization|cell-cell adhesion|excretion|retina development in camera-type eye|signal transduction|spermatid differentiation|visual behavior	adherens junction|cell-cell junction|cilium axoneme|cytoplasm|cytoskeleton|motile cilium|photoreceptor connecting cilium	protein binding|structural molecule activity			ovary(2)	2						TATTCTTCACCGGTTGACCAT	0.244													14	38					0	0	1	0	0		T	110927445	T	T	110927445	3	4	84	1	0	0	0	0	1	0	0	0	10598	652	23	1	1805	1	NPHP1	2	110927445	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1464105	110927445	132271928	193	52036											
POLR1B	84172	broad.mit.edu	37	chr2	113315657	113315657	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaatctgcgttctaaaacAggtaaaattaaatcgatcgt	15	11	9	6	3	2	0	0	0	2	0	4	2	2	1	0	2	2	2	0	2	7	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:113315657A>G	uc002thw.2	+	8	1909	c.1329A>G	c.(1327-1329)ACA>ACG	p.T443T	POLR1B_uc010fkn.2_Silent_p.T387T|POLR1B_uc002thx.2_Silent_p.T304T|POLR1B_uc010fko.2_Intron|POLR1B_uc010fkp.2_Intron|POLR1B_uc010yxn.1_Silent_p.T481T|POLR1B_uc002thy.2_Silent_p.T304T|POLR1B_uc010yxo.1_Silent_p.T220T	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	443					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1						GTTCTAAAACAGGTAAAATTA	0.353													7	18					0	0	1	0	0		G	113315657	G	G	113315657	2	3	84	1	0	0	0	0	0	0	0	1	12229	202	7	3		3	POLR1B	2	113315657	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2388212	113315657	129883716	194	52037											
FOXD4L1	200350	broad.mit.edu	37	chr2	114256886	114256886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaccgcagcgcagcctccGggactccgatggggaagacg	9	3	14	15	5	0	1	0	0	0	1	2	4	2	3	4	3	2	2	4	3	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:114256886G>A	uc002tjw.3	+	1	226	c.53G>A	c.(52-54)CGG>CAG	p.R18Q		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	18					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CGCAGCCTCCGGGACTCCGAT	0.498													43	81					0	0	1	0	0		A	114256886	A	A	114256886	3	1	84	1	0	0	0	0	1	0	0	0	6014	1116	39	1	55	1	FOXD4L1	2	114256886	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	941229	114256886	128942487	195	52038											
EPB41L5	57669	broad.mit.edu	37	chr2	120844814	120844814	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggttgtagaagatgatgatCaggtaggaataaaattatat	16	13	11	1	0	1	4	1	2	0	2	1	5	1	5	0	3	0	3	0	3	8	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:120844814C>T	uc002tmg.2	+	11	997	c.871C>T	c.(871-873)CAG>TAG	p.Q291*	EPB41L5_uc010flk.2_Nonsense_Mutation_p.Q291*|EPB41L5_uc010fll.2_Nonsense_Mutation_p.Q291*|EPB41L5_uc002tmh.3_Nonsense_Mutation_p.Q291*|EPB41L5_uc010flm.2_Nonsense_Mutation_p.Q95*	NM_020909	NP_065960	Q9HCM4	E41L5_HUMAN	erythrocyte membrane protein band 4.1 like 5	291	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1						AGATGATGATCAGGTAGGAAT	0.294													14	37					0	0	1	0	0		T	120844814	T	T	120844814	4	4	84	1	0	0	0	0	0	1	0	0	5165	827	29	4	909	4	EPB41L5	2	120844814	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	6587928	120844814	122354559	196	52039											
WDR33	55339	broad.mit.edu	37	chr2	128477600	128477600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatgcatgtcctgaggccGtggcaacccctggggcgggc	5	6	15	15	2	0	1	0	1	0	0	1	1	1	1	5	5	2	2	5	5	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:128477600G>A	uc002tpg.1	-	16	2182	c.1999C>T	c.(1999-2001)CGG>TGG	p.R667W		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	667	Collagen-like.				postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		TCCTGAGGCCGTGGCAACCCC	0.637													13	71					0	0	1	0	0		A	128477600	A	A	128477600	3	1	84	1	0	0	0	0	1	0	0	0	17313	1144	40	1	2039	1	WDR33	2	128477600	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7632786	128477600	114721773	197	52040											
HS6ST1	9394	broad.mit.edu	37	chr2	129025780	129025780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtagtcctcggtgggcaCgcggcccggctcgtcggcat	4	8	15	14	6	0	0	0	0	0	0	4	0	1	0	2	5	0	4	2	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:129025780C>T	uc002tpt.3	-	2	1226	c.1192G>A	c.(1192-1194)GTG>ATG	p.V398M		NM_004807	NP_004798	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	398	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	integral to plasma membrane	sulfotransferase activity			pancreas(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		TCGGTGGGCACGCGGCCCGGC	0.682													6	30					0	0	1	0	0		T	129025780	T	T	129025780	3	4	84	1	0	0	0	0	1	0	0	0	7386	536	19	1	47	1	HS6ST1	2	129025780	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	548180	129025780	114173593	198	52041											
POTEE	445582	broad.mit.edu	37	chr2	132021259	132021260	+	Frame_Shift_Ins	INS	-	G	G																															cccaggcagcagggcatgatINSggggggcatgcatcagaaag																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:132021259_132021260insG	uc002tsn.2	+	15	2283_2284	c.2231_2232insG	c.(2230-2232)ATGfs	p.M744fs	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Frame_Shift_Ins_p.M344fs|POTEE_uc002tsl.2_Frame_Shift_Ins_p.M326fs|POTEE_uc010fmy.1_Frame_Shift_Ins_p.M208fs	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	744	Actin-like.						ATP binding				0						CAGGGCATGATGGGGGGCATGC	0.629													15	32	---	---	---	---						.	G	132021260	G	G	132021259	7	5	84	1	0	1	1	0	0	0	0	0	12283	1464	51	0	2289	0	POTEE	2	132021259	Frame_Shift_Ins	INS	-	TCGA-BR-8591-01A-11D-2394-08	2995479	132021259	111178114	199	52042											
ZRANB3	84083	broad.mit.edu	37	chr2	136033260	136033260	+	Frame_Shift_Del	DEL	A	-	-																															agcatgcttaaatggtgagcAaaaaccagaaatttaagcga																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:136033260delA	uc002tum.2	-	9	1149	c.1032delT	c.(1030-1032)TTTfs	p.F344fs	ZRANB3_uc002tuk.2_5'UTR|ZRANB3_uc002tul.2_Frame_Shift_Del_p.F344fs|ZRANB3_uc002tun.1_Frame_Shift_Del_p.F284fs	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	344	Helicase C-terminal.					intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		AATGGTGAGCAAAAACCAGAA	0.318													12	25	---	---	---	---						.	-	136033260	-	-	136033260	7	5	84	1	0	1	0	1	0	0	0	0	18249	127	5	0	2259	0	ZRANB3	2	136033260	Frame_Shift_Del	DEL	A	TCGA-BR-8591-01A-11D-2394-08	4012001	136033260	107166113	200	52043											
LRP1B	53353	broad.mit.edu	37	chr2	141143557	141143557	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttttacactggaattcaTgaggtccacaagtcttttta	10	17	7	7	0	2	1	1	1	1	0	3	2	3	2	1	2	1	1	1	2	4	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:141143557T>C	uc002tvj.1	-	67	11408	c.10436A>G	c.(10435-10437)CAT>CGT	p.H3479R		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3479	Extracellular (Potential).|LDL-receptor class A 25.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CTGGAATTCATGAGGTCCACA	0.408										TSP Lung(27;0.18)			28	73					0	0	1	0	0		C	141143557	C	C	141143557	3	2	84	1	0	0	0	0	1	0	0	0	8973	1464	51	3	3463	3	LRP1B	2	141143557	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	5110297	141143557	102055816	201	52044											
LRP1B	53353	broad.mit.edu	37	chr2	141641551	141641551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcaggccttctggagtaGccaggccatgctccacaacc	8	8	10	15	0	2	0	1	0	1	0	3	1	3	1	5	3	3	2	5	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:141641551G>A	uc002tvj.1	-	25	4976	c.4004C>T	c.(4003-4005)GCT>GTT	p.A1335V	LRP1B_uc010fnl.1_Missense_Mutation_p.A517V	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1335	Extracellular (Potential).|LDL-receptor class B 9.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTCTGGAGTAGCCAGGCCATG	0.473										TSP Lung(27;0.18)			24	82					0	0	1	0	0		A	141641551	A	A	141641551	3	1	84	1	0	0	0	0	1	0	0	0	8973	971	34	2	10063	2	LRP1B	2	141641551	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	497994	141641551	101557822	202	52045											
GTDC1	79712	broad.mit.edu	37	chr2	144765060	144765060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgccatttcctttaaggccGagcatcttctttaaatgggt	8	14	8	11	2	2	0	0	0	2	0	3	1	3	0	4	2	1	1	4	2	3	6	rs116416428	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:144765060G>A	uc002tvp.2	-	7	843	c.564C>T	c.(562-564)CTC>CTT	p.L188L	GTDC1_uc002tvo.2_Silent_p.L188L|GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Silent_p.L188L|GTDC1_uc010fnn.2_Silent_p.L188L|GTDC1_uc002tvs.2_Silent_p.L156L|GTDC1_uc010fno.2_Silent_p.L59L|GTDC1_uc002tvt.1_Silent_p.L188L	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	188					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		CTTTAAGGCCGAGCATCTTCT	0.373													12	50					0	0	1	0	0		A	144765060	A	A	144765060	2	1	84	1	0	0	0	0	0	0	0	1	6867	1045	37	1		1	GTDC1	2	144765060	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3123509	144765060	98434313	203	52046											
MBD5	55777	broad.mit.edu	37	chr2	149247283	149247283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgccatgagtgccttcactgCctcaattggtgacccattaa	9	12	8	12	0	2	2	2	2	0	0	2	2	2	2	4	1	3	0	4	1	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:149247283C>T	uc002twm.3	+	12	4371	c.3383C>T	c.(3382-3384)GCC>GTC	p.A1128V	MBD5_uc010zbs.1_Intron|MBD5_uc010fns.2_Missense_Mutation_p.A1128V|MBD5_uc002two.2_Missense_Mutation_p.A386V|MBD5_uc002twp.2_Missense_Mutation_p.A178V	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1128						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		GCCTTCACTGCCTCAATTGGT	0.507													22	76					0	0	1	0	0		T	149247283	T	T	149247283	3	4	84	1	0	0	0	0	1	0	0	0	9365	739	26	2	3409	2	MBD5	2	149247283	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4482223	149247283	93952090	204	52047											
NEB	4703	broad.mit.edu	37	chr2	152411514	152411514	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtcaacacttcttggtaaCgtataaagagctttgaactt	12	14	7	8	2	2	2	1	1	1	1	3	2	2	2	0	1	4	3	0	1	6	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:152411514C>T	uc010fnx.2	-	97	14447	c.14256G>A	c.(14254-14256)ACG>ACA	p.T4752T	NEB_uc002txr.2_Silent_p.T1175T	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	4752					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TTCTTGGTAACGTATAAAGAG	0.323													17	59					0	0	1	0	0		T	152411514	T	T	152411514	2	4	84	1	0	0	0	0	0	0	0	1	10321	523	19	1		1	NEB	2	152411514	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3164231	152411514	90787859	205	52048											
NEB	4703	broad.mit.edu	37	chr2	152580788	152580788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttaccttgctgaacatggCggtgttcttaacggcctgga	7	12	11	11	2	1	1	0	1	1	0	1	2	1	2	3	4	4	2	3	4	3	4	rs116678485	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:152580788C>T	uc010fnx.2	-	8	789	c.598G>A	c.(598-600)GCC>ACC	p.A200T		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	200	Nebulin 4.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CTGAACATGGCGGTGTTCTTA	0.453													6	17					0	0	1	0	0		T	152580788	T	T	152580788	3	4	84	1	0	0	0	0	1	0	0	0	10321	768	27	1	25788	1	NEB	2	152580788	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	169274	152580788	90618585	206	52049											
TANC1	85461	broad.mit.edu	37	chr2	160053147	160053147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggataagaagggccagtGtgcgcttgtccacagtgccc	8	9	13	11	1	0	1	0	0	0	1	1	2	1	2	3	2	2	1	3	2	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:160053147G>A	uc002uag.2	+	18	3282	c.3008G>A	c.(3007-3009)TGT>TAT	p.C1003Y	TANC1_uc010zcm.1_Missense_Mutation_p.C995Y|TANC1_uc010fom.1_Missense_Mutation_p.C809Y|TANC1_uc010fon.2_5'Flank	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1003	ANK 4.					cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						AAGGGCCAGTGTGCGCTTGTC	0.602													21	81					0	0	1	0	0		A	160053147	A	A	160053147	3	1	84	1	0	0	0	0	1	0	0	0	15569	1377	48	4	3070	4	TANC1	2	160053147	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7472359	160053147	83146226	207	52050											
SLC4A10	57282	broad.mit.edu	37	chr2	162719484	162719485	+	Frame_Shift_Ins	INS	-	A	A																															agcatcatcatcagaatcagINSaaaaaactcaccaacaggat																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:162719484_162719485insA	uc002ubx.3	+	6	862_863	c.678_679insA	c.(676-681)CAGAAAfs	p.Q226fs	SLC4A10_uc010fpa.1_Frame_Shift_Ins_p.Q238fs|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Frame_Shift_Ins_p.Q226fs|SLC4A10_uc010zcs.1_Frame_Shift_Ins_p.Q237fs	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	226_227	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						ATCAGAATCAGAAAAAACTCAC	0.401													8	17	---	---	---	---						.	A	162719485	A	A	162719484	7	5	84	1	0	1	1	0	0	0	0	0	14676	933	33	0	785	0	SLC4A10	2	162719484	Frame_Shift_Ins	INS	-	TCGA-BR-8591-01A-11D-2394-08	2666337	162719484	80479889	208	52051											
FIGN	55137	broad.mit.edu	37	chr2	164466372	164466372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtactattatctggtgcctcGctgtgctgtcaggaagtggg	6	13	14	8	1	2	0	1	0	1	0	3	1	2	1	1	3	3	3	1	3	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:164466372G>A	uc002uck.1	-	3	2281	c.1970C>T	c.(1969-1971)GCG>GTG	p.A657V		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	657						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						CTGGTGCCTCGCTGTGCTGTC	0.453													21	60					0	0	1	0	0		A	164466372	A	A	164466372	3	1	84	1	0	0	0	0	1	0	0	0	5905	1087	38	1	313	1	FIGN	2	164466372	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1746888	164466372	78733001	209	52052											
ABCB11	8647	broad.mit.edu	37	chr2	169851961	169851961	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttctcattttctgtatcTgacgagctgcggcaatgacc	8	15	8	10	2	3	2	1	2	3	0	4	3	3	2	1	1	2	3	1	1	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:169851961T>C	uc002ueo.1	-	7	635	c.509A>G	c.(508-510)CAG>CGG	p.Q170R		NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	170	ABC transmembrane type-1 1.|Cytoplasmic (Potential).				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	TTTCTGTATCTGACGAGCTGC	0.358													6	31					0	0	1	0	0		C	169851961	C	C	169851961	3	2	84	1	0	0	0	0	1	0	0	0	42	1580	55	3	3544	3	ABCB11	2	169851961	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	5385589	169851961	73347412	210	52053											
LRP2	4036	broad.mit.edu	37	chr2	170031820	170031820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtcccagtcggcagaagcGctgcgggcaaagggccagtt	8	6	15	12	3	0	1	0	0	0	1	2	1	1	1	2	3	2	4	2	3	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:170031820G>A	uc002ues.2	-	55	10864	c.10651C>T	c.(10651-10653)CGC>TGC	p.R3551C		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3551	LDL-receptor class A 27.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CGGCAGAAGCGCTGCGGGCAA	0.532													26	63					0	0	1	0	0		A	170031820	A	A	170031820	3	1	84	1	0	0	0	0	1	0	0	0	8974	1087	38	1	3416	1	LRP2	2	170031820	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	179859	170031820	73167553	211	52054											
LRP2	4036	broad.mit.edu	37	chr2	170088299	170088299	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtaaaaatgaggcccctGtgaggaaagcaggcagagat	15	5	15	6	0	0	3	0	2	0	1	0	6	0	5	2	4	1	3	2	4	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:170088299G>A	uc002ues.2	-	31	5365	c.5152C>T	c.(5152-5154)CAG>TAG	p.Q1718*		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1718	EGF-like 7.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TGAGGCCCCTGTGAGGAAAGC	0.488													20	50					0	0	1	0	0		A	170088299	A	A	170088299	4	1	84	1	0	0	0	0	0	1	0	0	8974	1386	48	4	9011	4	LRP2	2	170088299	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	56479	170088299	73111074	212	52055											
KBTBD10	10324	broad.mit.edu	37	chr2	170356084	170356084	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caattcacttcacaaagtctAttctgccagtcccatatttg	11	14	4	12	0	4	0	2	0	2	0	5	0	5	0	2	0	1	0	2	0	4	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:170356084A>G	uc010zdh.1	+	9	828	c.770A>G	c.(769-771)TAT>TGT	p.Y257C	BBS5_uc002uet.2_Missense_Mutation_p.Y257C|BBS5_uc010fpw.2_Missense_Mutation_p.Y236C	NM_152384	NP_689597	O60662	KBTBA_HUMAN	Bardet-Biedl syndrome 5	Error:Variant_position_missing_in_O60662_after_alignment					striated muscle contraction	centrosome|nucleolus|plasma membrane|pseudopodium|ruffle					0						CACAAAGTCTATTCTGCCAGT	0.333													20	54					0	0	1	0	0		G	170356084	G	G	170356084	3	3	84	1	0	0	0	0	1	0	0	0	8006	449	16	3		3	KBTBD10	2	170356084	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	267785	170356084	72843289	213	52056											
HOXD3	3232	broad.mit.edu	37	chr2	177036706	177036706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctacgcagcgccggagttcGagccccatcccatggcgagc	7	5	13	16	5	0	0	0	0	0	0	2	3	1	1	4	2	4	3	4	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:177036706G>A	uc002ukt.1	+	3	1179	c.1003G>A	c.(1003-1005)GAG>AAG	p.E335K		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	335					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		GCCGGAGTTCGAGCCCCATCC	0.662													6	28					0	0	1	0	0		A	177036706	A	A	177036706	3	1	84	1	0	0	0	0	1	0	0	0	7339	1059	37	1	1009	1	HOXD3	2	177036706	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	6680622	177036706	66162667	214	52057											
MTX2	10651	broad.mit.edu	37	chr2	177194090	177194090	+	Frame_Shift_Del	DEL	A	-	-																															gaatcatattttggcctatcAaaaacagtgggaagtcaaac																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:177194090delA	uc002ukx.2	+	8	714	c.479delA	c.(478-480)CAAfs	p.Q160fs	MTX2_uc002ukw.2_Frame_Shift_Del_p.Q150fs	NM_006554	NP_006545	O75431	MTX2_HUMAN	metaxin 2	160					protein targeting to mitochondrion	mitochondrial outer membrane				ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00365)|Epithelial(96;0.0654)|all cancers(119;0.181)			TTGGCCTATCAAAAACAGTGG	0.403													20	46	---	---	---	---						.	-	177194090	-	-	177194090	7	5	84	1	0	1	0	1	0	0	0	0	9986	130	5	0	509	0	MTX2	2	177194090	Frame_Shift_Del	DEL	A	TCGA-BR-8591-01A-11D-2394-08	157384	177194090	66005283	215	52058											
TTC30A	92104	broad.mit.edu	37	chr2	178482854	178482854	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taataggccaaagccaggttGtaggaaaggtcaggctggta	13	8	14	6	0	1	0	1	0	0	0	1	1	1	1	2	6	1	4	2	6	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:178482854G>A	uc002ulo.2	-	1	841	c.576C>T	c.(574-576)TAC>TAT	p.Y192Y		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	192	TPR 4.				cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			AAGCCAGGTTGTAGGAAAGGT	0.537													18	100					0	0	1	0	0		A	178482854	A	A	178482854	2	1	84	1	0	0	0	0	0	0	0	1	16724	1372	48	4		4	TTC30A	2	178482854	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1288764	178482854	64716519	216	52059											
TTC30A	92104	broad.mit.edu	37	chr2	178483410	178483410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccccgtcggggatctgcGcgccgctcagaccagccata	7	6	11	17	5	2	1	1	0	1	1	4	2	3	2	5	2	2	1	5	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:178483410G>A	uc002ulo.2	-	1	285	c.20C>T	c.(19-21)GCG>GTG	p.A7V		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	7					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			GGGGATCTGCGCGCCGCTCAG	0.652													10	18					0	0	1	0	0		A	178483410	A	A	178483410	3	1	84	1	0	0	0	0	1	0	0	0	16724	1087	38	1	1981	1	TTC30A	2	178483410	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	556	178483410	64715963	217	52060											
TTN	7273	broad.mit.edu	37	chr2	179403387	179403387	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaacctcctattgtgaattGcttgtccttaatacgttcct	9	16	5	11	1	0	1	0	1	0	0	3	1	3	1	4	0	3	2	4	0	5	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:179403387G>T	uc010zfg.1	-	303	91689	c.91465C>A	c.(91465-91467)CAA>AAA	p.Q30489K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q24184K|TTN_uc010zfi.1_Missense_Mutation_p.Q24117K|TTN_uc010zfj.1_Missense_Mutation_p.Q23992K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31416							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATTGTGAATTGCTTGTCCTTA	0.438													20	156					5.26018e-13	5.76666e-13	1	1	0		T	179403387	T	T	179403387	3	4	84	1	0	0	0	0	1	0	0	0	16761	1328	46	5	8846	5	TTN	2	179403387	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	919977	179403387	63795986	218	52061											
TTN	7273	broad.mit.edu	37	chr2	179421666	179421666	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaagacacggaattcataCtgggaattctgagtcaagcc	14	8	10	9	1	3	2	2	1	1	1	3	4	3	4	1	2	2	1	1	2	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:179421666C>T	uc010zfg.1	-	279	80735	c.80511G>A	c.(80509-80511)CAG>CAA	p.Q26837Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.Q20532Q|TTN_uc010zfi.1_Silent_p.Q20465Q|TTN_uc010zfj.1_Silent_p.Q20340Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27764							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGAATTCATACTGGGAATTCT	0.453													11	36					0	0	1	0	0		T	179421666	T	T	179421666	2	4	84	1	0	0	0	0	0	0	0	1	16761	564	20	4		4	TTN	2	179421666	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	18279	179421666	63777707	219	52062											
TTN	7273	broad.mit.edu	37	chr2	179444798	179444798	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgttttggagcactcagTtgtcactgtagaccaggatt	8	14	11	8	0	2	1	2	0	0	1	2	3	2	3	1	2	1	5	1	2	1	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:179444798T>C	uc010zfg.1	-	267	59736	c.59512A>G	c.(59512-59514)ACT>GCT	p.T19838A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T13533A|TTN_uc010zfi.1_Missense_Mutation_p.T13466A|TTN_uc010zfj.1_Missense_Mutation_p.T13341A|uc002umv.1_3'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20765							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAGCACTCAGTTGTCACTGTA	0.453													36	90					0	0	1	0	0		C	179444798	C	C	179444798	3	2	84	1	0	0	0	0	1	0	0	0	16761	1725	60	3	40943	3	TTN	2	179444798	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	23132	179444798	63754575	220	52063											
TTN	7273	broad.mit.edu	37	chr2	179457718	179457718	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatataacccagaatcttgcTcccaccatcatgacgtggtg	12	10	7	12	1	2	2	1	1	1	1	3	2	3	2	3	1	2	1	3	1	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:179457718T>A	uc010zfg.1	-	249	51648	c.51424A>T	c.(51424-51426)AGC>TGC	p.S17142C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S10837C|TTN_uc010zfi.1_Missense_Mutation_p.S10770C|TTN_uc010zfj.1_Missense_Mutation_p.S10645C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	18069							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGAATCTTGCTCCCACCATCA	0.418													42	160					0	0	1	0	0		A	179457718	A	A	179457718	3	1	84	1	0	0	0	0	1	0	0	0	16761	1551	54	5	49103	5	TTN	2	179457718	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	12920	179457718	63741655	221	52064											
TTN	7273	broad.mit.edu	37	chr2	179466856	179466856	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagtcctgtgctccaatgTcaatgaaaacttctggttcc	10	12	8	11	0	2	1	1	1	1	0	5	2	5	1	3	1	2	2	3	1	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:179466856T>G	uc010zfg.1	-	233	47662	c.47438A>C	c.(47437-47439)GAC>GCC	p.D15813A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D9508A|TTN_uc010zfi.1_Missense_Mutation_p.D9441A|TTN_uc010zfj.1_Missense_Mutation_p.D9316A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16740							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGCTCCAATGTCAATGAAAAC	0.373													24	47					0	0	1	0	0		G	179466856	G	G	179466856	3	3	84	1	0	0	0	0	1	0	0	0	16761	1667	58	5	52867	5	TTN	2	179466856	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	9138	179466856	63732517	222	52065											
TTN	7273	broad.mit.edu	37	chr2	179474470	179474470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggttcactaatacccgcgGcgttctctgctcgcacacgg	8	9	10	14	5	2	0	1	0	1	0	4	0	2	0	1	3	2	4	1	3	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:179474470G>A	uc010zfg.1	-	221	44200	c.43976C>T	c.(43975-43977)GCC>GTC	p.A14659V	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A8354V|TTN_uc010zfi.1_Missense_Mutation_p.A8287V|TTN_uc010zfj.1_Missense_Mutation_p.A8162V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15586							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATACCCGCGGCGTTCTCTGC	0.473													70	196					0	0	1	0	0		A	179474470	A	A	179474470	3	1	84	1	0	0	0	0	1	0	0	0	16761	1203	42	2	56377	2	TTN	2	179474470	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7614	179474470	63724903	223	52066											
TTN	7273	broad.mit.edu	37	chr2	179584925	179584925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagccctccactatggccCgtaactcaacagcatcccca	11	6	7	17	1	1	0	1	0	0	0	3	1	3	1	5	2	4	2	5	2	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:179584925C>T	uc010zfg.1	-	78	19936	c.19712G>A	c.(19711-19713)CGG>CAG	p.R6571Q	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.R3232Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7498							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CACTATGGCCCGTAACTCAAC	0.423													15	50					0	0	1	0	0		T	179584925	T	T	179584925	3	4	84	1	0	0	0	0	1	0	0	0	16761	652	23	1	81213	1	TTN	2	179584925	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	110455	179584925	63614448	224	52067											
SESTD1	91404	broad.mit.edu	37	chr2	179989141	179989141	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttgtaagagattttgccTaaattccagctgactggcct	9	14	9	9	0	0	2	0	1	0	1	1	3	1	2	3	1	3	3	3	1	3	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:179989141T>C	uc002uni.3	-	11	1267	c.1117A>G	c.(1117-1119)AGG>GGG	p.R373G	SESTD1_uc002unh.3_5'UTR	NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	373	Spectrin 1.				regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			AGATTTTGCCTAAATTCCAGC	0.393													16	56					0	0	1	0	0		C	179989141	C	C	179989141	3	2	84	1	0	0	0	0	1	0	0	0	14152	1521	53	3	1005	3	SESTD1	2	179989141	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	404216	179989141	63210232	225	52068											
ZNF385B	151126	broad.mit.edu	37	chr2	180308114	180308114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgacagcgctgaggacaCggctgccgccgctgcgagag	8	4	17	12	5	0	3	0	2	0	1	0	6	0	4	2	2	3	3	2	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:180308114C>T	uc002unn.3	-	10	1883	c.1279G>A	c.(1279-1281)GTG>ATG	p.V427M	ZNF385B_uc002unj.2_Missense_Mutation_p.V325M|ZNF385B_uc002unk.2_RNA|ZNF385B_uc002unl.2_Missense_Mutation_p.V324M|ZNF385B_uc002unm.2_Missense_Mutation_p.V351M	NM_152520	NP_689733	Q569K4	Z385B_HUMAN	zinc finger protein 385B isoform 1	427						nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			GCTGAGGACACGGCTGCCGCC	0.617													6	9					0	0	1	0	0		T	180308114	T	T	180308114	3	4	84	1	0	0	0	0	1	0	0	0	17902	536	19	1	140	1	ZNF385B	2	180308114	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	318973	180308114	62891259	226	52069											
FRZB	2487	broad.mit.edu	37	chr2	183730895	183730895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggccaggttctccggccacGagtggcggtacttgatgagt	7	9	15	10	3	1	2	0	2	1	0	2	3	1	2	3	5	1	2	3	5	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:183730895G>A	uc002upa.1	-	1	604	c.386C>T	c.(385-387)TCG>TTG	p.S129L		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein precursor	129	FZ.				brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)			CTCCGGCCACGAGTGGCGGTA	0.622													12	38					0	0	1	0	0		A	183730895	A	A	183730895	3	1	84	1	0	0	0	0	1	0	0	0	6079	1059	37	1	615	1	FRZB	2	183730895	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3422781	183730895	59468478	227	52070											
COL5A2	1290	broad.mit.edu	37	chr2	189917735	189917735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accttttactccaggctgtcCgtcaggaccctataaaaaat	12	11	6	12	1	1	0	1	0	0	0	3	1	3	1	4	2	1	1	4	2	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:189917735C>T	uc002uqk.2	-	39	2838	c.2563G>A	c.(2563-2565)GGA>AGA	p.G855R	COL5A2_uc010frx.2_Missense_Mutation_p.G431R	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	855					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			CCAGGCTGTCCGTCAGGACCC	0.398													9	48					0	0	1	0	0		T	189917735	T	T	189917735	3	4	84	1	0	0	0	0	1	0	0	0	3700	661	23	1	2000	1	COL5A2	2	189917735	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	6186840	189917735	53281638	228	52071											
AOX1	316	broad.mit.edu	37	chr2	201460064	201460064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtacagtgatgatatcacGatacaaccccatcaccaaga	15	9	6	11	1	2	3	2	2	0	1	2	4	2	3	3	0	3	1	3	0	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:201460064G>A	uc002uvx.2	+	3	274	c.173G>A	c.(172-174)CGA>CAA	p.R58Q		NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	58	2Fe-2S ferredoxin-type.				inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	ATGATATCACGATACAACCCC	0.378													8	32					0	0	1	0	0		A	201460064	A	A	201460064	3	1	84	1	0	0	0	0	1	0	0	0	729	1058	37	1	183	1	AOX1	2	201460064	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	11542329	201460064	41739309	229	52072											
AOX1	316	broad.mit.edu	37	chr2	201485877	201485877	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaagctctcagcatgcccGgtgtggtggacatcatgaca	10	8	12	11	1	2	2	2	1	1	1	3	3	2	3	1	3	3	2	1	3	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:201485877G>T	uc002uvx.2	+	18	2010	c.1909G>T	c.(1909-1911)GGT>TGT	p.G637C	AOX1_uc010zhf.1_Missense_Mutation_p.G193C|AOX1_uc010fsu.2_Missense_Mutation_p.G3C	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	637					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	CAGCATGCCCGGTGTGGTGGA	0.453													35	79					1.836e-18	2.05415e-18	1	1	0		T	201485877	T	T	201485877	3	4	84	1	0	0	0	0	1	0	0	0	729	1116	39	5	1979	5	AOX1	2	201485877	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	25813	201485877	41713496	230	52073											
FZD7	8324	broad.mit.edu	37	chr2	202900038	202900038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccccgtacctgggctaccGcttcctgggtgagcgcgatt	4	9	13	15	4	0	1	0	1	0	0	1	2	1	1	5	2	3	3	5	2	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:202900038G>A	uc002uyw.1	+	1	729	c.668G>A	c.(667-669)CGC>CAC	p.R223H		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	223	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(2)|ovary(1)|breast(1)	4						CTGGGCTACCGCTTCCTGGGT	0.697											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	43					0	0	1	0	0		A	202900038	A	A	202900038	3	1	84	1	0	0	0	0	1	0	0	0	6149	1087	38	1	670	1	FZD7	2	202900038	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1414161	202900038	40299335	231	52074											
RPE	6120	broad.mit.edu	37	chr2	210874443	210874443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagccttcgaaagcagctagGccaggaccctttctttggta	10	10	10	11	1	1	0	0	0	1	0	2	2	1	1	3	3	3	3	3	3	4	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:210874443G>A	uc002vdn.2	+	2	190	c.185G>A	c.(184-186)GGC>GAC	p.G62D	RPE_uc002vdm.2_Missense_Mutation_p.G62D|RPE_uc002vdo.2_Intron|RPE_uc010zjf.1_Missense_Mutation_p.G62D|RPE_uc002vdp.2_Intron|RPE_uc010fup.2_Intron|RPE_uc002vdq.2_5'UTR|RPE_uc002vdr.2_5'UTR	NM_199229	NP_954699	Q96AT9	RPE_HUMAN	ribulose-5-phosphate-3-epimerase isoform 1	62					pentose-phosphate shunt	cytosol	metal ion binding|protein homodimerization activity|ribulose-phosphate 3-epimerase activity				0				Epithelial(149;0.00241)|Lung(261;0.041)|all cancers(144;0.0429)|LUSC - Lung squamous cell carcinoma(261;0.0431)		AAGCAGCTAGGCCAGGACCCT	0.423													64	170					0	0	1	0	0		A	210874443	A	A	210874443	3	1	84	1	0	0	0	0	1	0	0	0	13569	1203	42	2	191	2	RPE	2	210874443	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7974405	210874443	32324930	232	52075											
ABCA12	26154	broad.mit.edu	37	chr2	215862460	215862460	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcatagacaagcttttttaCaaaggcagctataaatacaa	17	11	5	8	0	1	1	1	0	0	1	1	1	1	1	0	1	4	3	0	1	9	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:215862460C>A	uc002vew.2	-	23	3473	c.3253G>T	c.(3253-3255)GTA>TTA	p.V1085L	ABCA12_uc002vev.2_Missense_Mutation_p.V767L|ABCA12_uc010zjn.1_Missense_Mutation_p.V12L	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1085	Helical; (Potential).				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		AGCTTTTTTACAAAGGCAGCT	0.348													11	38					0.0167234	0.0169078	1	1	0		A	215862460	A	A	215862460	3	1	84	1	0	0	0	0	1	0	0	0	30	478	17	5	4658	5	ABCA12	2	215862460	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4988017	215862460	27336913	233	52076											
IGFBP2	3485	broad.mit.edu	37	chr2	217528750	217528750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagggagcccccaccatcCggggggaccccgagtgtcat	7	5	13	16	2	1	0	1	0	0	0	3	3	3	2	7	4	1	0	7	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:217528750C>T	uc010zjt.1	+	6	1030	c.880C>T	c.(880-882)CGG>TGG	p.R294W	IGFBP2_uc010zju.1_3'UTR	NM_000597	NP_000588	P18065	IBP2_HUMAN	insulin-like growth factor binding protein 2,	301	Cell attachment site.|Thyroglobulin type-1.				positive regulation of activated T cell proliferation|regulation of cell growth|regulation of insulin-like growth factor receptor signaling pathway	extracellular space	insulin-like growth factor I binding|insulin-like growth factor II binding				0		Renal(323;0.0458)		Epithelial(149;2.9e-06)|all cancers(144;0.000223)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00968)		CCCCACCATCCGGGGGGACCC	0.652													17	30					0	0	1	0	0		T	217528750	T	T	217528750	3	4	84	1	0	0	0	0	1	0	0	0	7595	643	23	1	915	1	IGFBP2	2	217528750	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1666290	217528750	25670623	234	52077											
ZNF142	7701	broad.mit.edu	37	chr2	219508810	219508810	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgcttgttctttgtccTgtctccttagggccttgagt	2	18	9	12	0	3	1	0	1	3	0	5	1	4	1	4	1	1	2	4	1	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:219508810T>C	uc002vin.2	-	8	2865	c.2429A>G	c.(2428-2430)CAG>CGG	p.Q810R	ZNF142_uc002vil.2_Missense_Mutation_p.Q771R|ZNF142_uc010fvt.2_Missense_Mutation_p.Q647R|ZNF142_uc002vim.2_Missense_Mutation_p.Q647R	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	810					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		TTCTTTGTCCTGTCTCCTTAG	0.557													43	261					0	0	1	0	0		C	219508810	C	C	219508810	3	2	84	1	0	0	0	0	1	0	0	0	17756	1580	55	3	2646	3	ZNF142	2	219508810	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1980060	219508810	23690563	235	52078											
SPEG	10290	broad.mit.edu	37	chr2	220334065	220334065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggttccacaatggccacCgcatccagagcagcgacgac	10	5	11	15	3	0	1	0	0	0	1	2	3	2	1	4	2	2	4	4	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:220334065C>T	uc010fwg.2	+	13	3679	c.3679C>T	c.(3679-3681)CGC>TGC	p.R1227C		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1227	Ig-like 6.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CAATGGCCACCGCATCCAGAG	0.637													11	35					0	0	1	0	0		T	220334065	T	T	220334065	3	4	84	1	0	0	0	0	1	0	0	0	15061	652	23	1	3741	1	SPEG	2	220334065	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	825255	220334065	22865308	236	52079											
SPEG	10290	broad.mit.edu	37	chr2	220349122	220349122	+	Frame_Shift_Del	DEL	C	-	-																															aagcccgagttcccacggtgCcccccaggccaggcagcagt																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:220349122delC	uc010fwg.2	+	30	6937	c.6937delC	c.(6937-6939)CCCfs	p.P2313fs		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2313	Pro-rich.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		TCCCACGGTGCCCCCCAGGCC	0.692													20	45	---	---	---	---						.	-	220349122	-	-	220349122	7	5	84	1	0	1	0	1	0	0	0	0	15061	739	26	0	7067	0	SPEG	2	220349122	Frame_Shift_Del	DEL	C	TCGA-BR-8591-01A-11D-2394-08	15057	220349122	22850251	237	52080											
GMPPA	29926	broad.mit.edu	37	chr2	220366242	220366242	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcattggcttctaccaaccTgatgagcccctcacccagtt	8	11	6	16	0	3	2	2	2	1	0	3	2	3	2	5	1	3	2	5	1	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:220366242T>C	uc002vlr.2	+	4	251	c.183T>C	c.(181-183)CCT>CCC	p.P61P	GMPPA_uc002vls.2_Silent_p.P61P|GMPPA_uc002vlt.2_Silent_p.P61P|GMPPA_uc002vlu.2_Silent_p.P61P|GMPPA_uc002vlv.2_Silent_p.P61P|GMPPA_uc002vlw.2_RNA|GMPPA_uc002vlx.2_Silent_p.P61P	NM_013335	NP_037467	Q96IJ6	GMPPA_HUMAN	GDP-mannose pyrophosphorylase A	61					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0		Renal(207;0.0183)		Epithelial(149;3.82e-10)|all cancers(144;6.25e-08)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00807)|READ - Rectum adenocarcinoma(5;0.148)		TCTACCAACCTGATGAGCCCC	0.542													69	143					0	0	1	0	0		C	220366242	C	C	220366242	2	2	84	1	0	0	0	0	0	0	0	1	6509	1567	55	3		3	GMPPA	2	220366242	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	17120	220366242	22833131	238	52081											
DOCK10	55619	broad.mit.edu	37	chr2	225727389	225727389	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtcaacataccttactgcCcaagcaaaaggcatacggta	14	8	7	12	1	1	0	1	0	0	0	1	0	1	0	2	2	6	3	2	2	8	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:225727389C>A	uc010fwz.1	-	14	1916	c.1677G>T	c.(1675-1677)TGG>TGT	p.W559C	DOCK10_uc002vob.2_Missense_Mutation_p.W553C|DOCK10_uc002vod.1_Missense_Mutation_p.W559C	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	559							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		ACCTTACTGCCCAAGCAAAAG	0.343													5	21					0.014758	0.0149294	1	1	0		A	225727389	A	A	225727389	3	1	84	1	0	0	0	0	1	0	0	0	4691	624	22	5	5055	5	DOCK10	2	225727389	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5361147	225727389	17471984	239	52082											
ALPI	248	broad.mit.edu	37	chr2	233323702	233323702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggagcagagcttcgtagCgcatgtcatggccttcgctg	7	9	14	11	3	1	1	1	0	0	1	3	2	1	2	1	2	3	6	1	2	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:233323702C>T	uc002vst.3	+	11	1510	c.1433C>T	c.(1432-1434)GCG>GTG	p.A478V	ALPI_uc002vsu.3_Missense_Mutation_p.A389V	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	478					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		AGCTTCGTAGCGCATGTCATG	0.706													4	8					0	0	1	0	0		T	233323702	T	T	233323702	3	4	84	1	0	0	0	0	1	0	0	0	543	768	27	1	1475	1	ALPI	2	233323702	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	7596313	233323702	9875671	240	52083											
NEU2	4759	broad.mit.edu	37	chr2	233899563	233899563	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtgcctacctcaacccGcgacctccagcccctgaggc	6	6	10	19	2	1	1	1	1	0	0	2	2	2	1	7	2	4	0	7	2	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:233899563G>A	uc010zmn.1	+	2	939	c.939G>A	c.(937-939)CCG>CCA	p.P313P		NM_005383	NP_005374	Q9Y3R4	NEUR2_HUMAN	neuraminidase 2	313							exo-alpha-sialidase activity				0		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0271)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0839)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0488)		ACCTCAACCCGCGACCTCCAG	0.692													38	127					0	0	1	0	0		A	233899563	A	A	233899563	2	1	84	1	0	0	0	0	0	0	0	1	10361	1074	38	1		1	NEU2	2	233899563	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	575861	233899563	9299810	241	52084											
AGAP1	116987	broad.mit.edu	37	chr2	236708164	236708164	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgccggtccaacctgttcAccgtgagtgtcaaccctggg	7	8	12	14	3	2	1	2	1	0	0	3	1	3	1	5	2	3	1	5	2	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:236708164A>G	uc002vvs.2	+	8	1550	c.955A>G	c.(955-957)ACC>GCC	p.T319A	AGAP1_uc002vvt.2_Missense_Mutation_p.T319A	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	319					protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						CAACCTGTTCACCGTGAGTGT	0.542													21	65					0	0	1	0	0		G	236708164	G	G	236708164	3	3	84	1	0	0	0	0	1	0	0	0	366	159	6	3	985	3	AGAP1	2	236708164	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2808601	236708164	6491209	242	52085											
COL6A3	1293	broad.mit.edu	37	chr2	238277261	238277261	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcaggagtggctgcggaGggtccaaacgagttcatgat	9	8	17	7	2	1	1	1	1	0	0	2	4	2	3	1	5	3	3	1	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:238277261G>A	uc002vwl.2	-	10	5130	c.4845C>T	c.(4843-4845)CCC>CCT	p.P1615P	COL6A3_uc002vwo.2_Silent_p.P1409P|COL6A3_uc010znj.1_Silent_p.P1008P	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1615	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TGGCTGCGGAGGGTCCAAACG	0.542													30	74					0	0	1	0	0		A	238277261	A	A	238277261	2	1	84	1	0	0	0	0	0	0	0	1	3704	987	35	4		4	COL6A3	2	238277261	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1569097	238277261	4922112	243	52086											
ESPNL	339768	broad.mit.edu	37	chr2	239039978	239039978	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgacctgccggcggaggagCggaagctgcgccacctgctg	6	4	17	14	5	0	0	0	0	0	0	0	4	0	3	4	4	5	2	4	4	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:239039978C>A	uc002vxq.3	+	9	2733	c.2623C>A	c.(2623-2625)CGG>AGG	p.R875R	ESPNL_uc010fyw.2_Silent_p.R571R	NM_194312	NP_919288	Q6ZVH7	ESPNL_HUMAN	espin-like	875										pancreas(1)	1		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;4.71e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.02e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.63e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000109)|Lung(119;0.0108)|LUSC - Lung squamous cell carcinoma(224;0.0253)		GGCGGAGGAGCGGAAGCTGCG	0.667													7	12					0.00198382	0.00202687	1	1	0		A	239039978	A	A	239039978	2	1	84	1	0	0	0	0	0	0	0	1	5263	759	27	5		5	ESPNL	2	239039978	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	762717	239039978	4159395	244	52087											
KLHL30	377007	broad.mit.edu	37	chr2	239050088	239050088	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgccgtgcccaggccctgCgtgcagcaactgctggcctc	5	6	13	17	3	0	0	0	0	0	0	1	1	0	0	4	2	6	3	4	2	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:239050088C>T	uc002vxr.1	+	1	672	c.639C>T	c.(637-639)TGC>TGT	p.C213C		NM_198582	NP_940984	Q0D2K2	KLH30_HUMAN	kelch-like 30	231	BACK.										0		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;4.71e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.02e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.63e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000109)|Lung(119;0.0108)|LUSC - Lung squamous cell carcinoma(224;0.0253)		CCAGGCCCTGCGTGCAGCAAC	0.711													5	13					0	0	1	0	0		T	239050088	T	T	239050088	2	4	84	1	0	0	0	0	0	0	0	1	8400	776	27	1		1	KLHL30	2	239050088	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	10110	239050088	4149285	245	52088											
HDAC4	9759	broad.mit.edu	37	chr2	239975238	239975238	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcgttctcgcaagtctgagCctcgatcagagaacgccccg	8	9	10	14	5	3	2	1	1	2	1	6	4	3	2	3	0	2	2	3	0	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:239975238C>T	uc002vyk.3	-	26	3925	c.3133G>A	c.(3133-3135)GCT>ACT	p.A1045T	HDAC4_uc010fyy.2_Missense_Mutation_p.A1002T	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	1045	Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		CAAGTCTGAGCCTCGATCAGA	0.637													4	59					0	0	1	0	0		T	239975238	T	T	239975238	3	4	84	1	0	0	0	0	1	0	0	0	7025	739	26	2	129	2	HDAC4	2	239975238	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	925150	239975238	3224135	246	52089											
GAL3ST2	64090	broad.mit.edu	37	chr2	242741294	242741294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgctcaacatcctctaccGcttcgccgagacccacaacc	9	7	7	18	3	2	1	1	0	1	1	4	2	3	1	5	1	4	2	5	1	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr2:242741294G>A	uc002wcj.1	+	3	349	c.218G>A	c.(217-219)CGC>CAC	p.R73H		NM_022134	NP_071417	Q9H3Q3	G3ST2_HUMAN	galactose-3-O-sulfotransferase 2	73	Lumenal (Potential).				biosynthetic process	Golgi cisterna membrane|integral to membrane	galactosylceramide sulfotransferase activity				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		ATCCTCTACCGCTTCGCCGAG	0.667													21	73					0	0	1	0	0		A	242741294	A	A	242741294	3	1	84	1	0	0	0	0	1	0	0	0	6213	1087	38	1	228	1	GAL3ST2	2	242741294	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2766056	242741294	458079	247	52090											
ITPR1	3708	broad.mit.edu	37	chr3	4718358	4718358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgacccaggtggtgctccGgggaggaggctttttgccca	6	9	16	10	1	0	1	0	1	0	0	1	4	1	3	3	6	2	2	3	6	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:4718358G>A	uc003bqa.2	+	24	3161	c.2813G>A	c.(2812-2814)CGG>CAG	p.R938Q	ITPR1_uc010hca.1_Missense_Mutation_p.R923Q|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Missense_Mutation_p.R932Q	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	947	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GTGGTGCTCCGGGGAGGAGGC	0.562													9	23					0	0	1	0	0		A	4718358	A	A	4718358	3	1	84	1	0	0	0	0	1	0	0	0	7936	1116	39	1	2926	1	ITPR1	3	4718358	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08		4718358	193304072	248	52091											
RAD18	56852	broad.mit.edu	37	chr3	8944129	8944129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttattgttactgttttttgtGacattccagcaattttcttg	7	22	6	6	0	1	1	0	1	1	0	2	1	2	1	1	0	2	3	1	0	3	10			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:8944129G>A	uc003brd.2	-	10	1180	c.1103C>T	c.(1102-1104)TCA>TTA	p.S368L	RAD18_uc003bre.2_RNA	NM_020165	NP_064550	Q9NS91	RAD18_HUMAN	postreplication repair protein hRAD18p	368					DNA repair	nucleus|replication fork	damaged DNA binding|ligase activity|ubiquitin protein ligase binding|Y-form DNA binding|zinc ion binding			skin(3)|ovary(2)	5				OV - Ovarian serous cystadenocarcinoma(96;0.0552)		TGTTTTTTGTGACATTCCAGC	0.328								Rad6_pathway					8	32					0	0	1	0	0		A	8944129	A	A	8944129	3	1	84	1	0	0	0	0	1	0	0	0	13005	1294	45	4	400	4	RAD18	3	8944129	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4225771	8944129	189078301	249	52092											
BRPF1	7862	broad.mit.edu	37	chr3	9781016	9781016	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacggtgtcccctatatcccTgagggccagtggctgtgccg	5	10	13	13	2	0	1	0	1	0	0	2	1	2	1	5	3	2	1	5	3	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:9781016T>C	uc003bse.2	+	3	1332	c.933T>C	c.(931-933)CCT>CCC	p.P311P	BRPF1_uc003bsf.2_Silent_p.P311P|BRPF1_uc003bsg.2_Silent_p.P311P|BRPF1_uc011ati.1_Silent_p.P311P	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	311	PHD-type.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					CCTATATCCCTGAGGGCCAGT	0.587													33	99					0	0	1	0	0		C	9781016	C	C	9781016	2	2	84	1	0	0	0	0	0	0	0	1	1523	1567	55	3		3	BRPF1	3	9781016	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	836887	9781016	188241414	250	52093											
MKRN2	23609	broad.mit.edu	37	chr3	12610389	12610389	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggtattttatgcatggTgtgtgtcgggaaggaagtca	9	13	15	4	1	1	0	1	0	0	0	2	2	1	2	0	4	2	3	0	4	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:12610389T>C	uc003bxd.2	+	2	98	c.42T>C	c.(40-42)GGT>GGC	p.G14G	MKRN2_uc003bxe.2_Silent_p.G14G|MKRN2_uc011aus.1_Intron	NM_014160	NP_054879	Q9H000	MKRN2_HUMAN	makorin ring finger protein 2	14	C3H1-type 1.					intracellular	ligase activity|nucleic acid binding|zinc ion binding				0						TTATGCATGGTGTGTGTCGGG	0.418													20	73					0	0	1	0	0		C	12610389	C	C	12610389	2	2	84	1	0	0	0	0	0	0	0	1	9625	1683	59	3		3	MKRN2	3	12610389	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2829373	12610389	185412041	251	52094											
NUP210	23225	broad.mit.edu	37	chr3	13427823	13427823	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccttgtagtgaatggaggTtcccaccatcaggtagacgt	10	10	11	10	1	1	2	1	1	0	1	2	3	2	3	3	3	0	3	3	3	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:13427823T>C	uc003bxv.1	-	6	852	c.769A>G	c.(769-771)ACC>GCC	p.T257A		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	257	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					TGAATGGAGGTTCCCACCATC	0.463													26	97					0	0	1	0	0		C	13427823	C	C	13427823	3	2	84	1	0	0	0	0	1	0	0	0	10779	1725	60	3	5034	3	NUP210	3	13427823	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	817434	13427823	184594607	252	52095											
SLC6A6	6533	broad.mit.edu	37	chr3	14485232	14485232	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagcccaggcacgcggccTgaggacgaggctgagggaaa	12	2	17	10	3	0	3	0	2	0	1	0	6	0	5	2	5	1	2	2	5	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:14485232T>C	uc010heg.2	+	10	381	c.90T>C	c.(88-90)CCT>CCC	p.P30P	SLC6A6_uc010hee.1_Silent_p.P30P|SLC6A6_uc003byp.2_Silent_p.P30P|SLC6A6_uc010hef.1_RNA|SLC6A6_uc003byq.2_Silent_p.P30P|SLC6A6_uc003byr.2_RNA	NM_001134367	NP_001127839	P31641	SC6A6_HUMAN	solute carrier family 6 (neurotransmitter	30	Cytoplasmic (Potential).				cellular amino acid metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity|taurine:sodium symporter activity			ovary(1)	1						GCACGCGGCCTGAGGACGAGG	0.582													27	120					0	0	1	0	0		C	14485232	C	C	14485232	2	2	84	1	0	0	0	0	0	0	0	1	14713	1567	55	3		3	SLC6A6	3	14485232	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1057409	14485232	183537198	253	52096											
C3orf19	51244	broad.mit.edu	37	chr3	14693376	14693376	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagcctttggacgtcacGgcctcctcggtgagtgaggg	9	8	14	10	3	1	2	1	2	0	0	3	3	2	3	3	4	1	0	3	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:14693376G>T	uc003byw.2	+	1	124	c.33G>T	c.(31-33)ACG>ACT	p.T11T	C3orf19_uc010hei.1_Silent_p.T11T	NM_016474	NP_057558	Q6PII3	CC019_HUMAN	hypothetical protein LOC51244	11											0						TGGACGTCACGGCCTCCTCGG	0.577													13	35					1.49906e-05	1.56089e-05	1	1	0		T	14693376	T	T	14693376	2	4	84	1	0	0	0	0	0	0	0	1	2215	1103	39	5		5	C3orf19	3	14693376	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	208144	14693376	183329054	254	52097											
KCNH8	131096	broad.mit.edu	37	chr3	19491653	19491653	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaatcatacagaggatgtaCtccagatggtccctctatca	12	10	8	11	0	3	2	2	0	1	2	5	3	5	3	2	2	2	2	2	2	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:19491653C>T	uc003cbk.1	+	9	1626	c.1431C>T	c.(1429-1431)TAC>TAT	p.Y477Y	KCNH8_uc011awe.1_Silent_p.Y477Y|KCNH8_uc010hex.1_5'UTR|KCNH8_uc011awf.1_Silent_p.Y136Y	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	477	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						AGAGGATGTACTCCAGATGGT	0.433													18	56					0	0	1	0	0		T	19491653	T	T	19491653	2	4	84	1	0	0	0	0	0	0	0	1	8054	576	20	4		4	KCNH8	3	19491653	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4798277	19491653	178530777	255	52098											
TRIM71	131405	broad.mit.edu	37	chr3	32859727	32859727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgggggccctggggcggCggcgcgccgcctacacgtcc	2	3	19	17	8	0	0	0	0	0	0	1	0	1	0	4	7	1	0	4	7	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:32859727C>T	uc003cff.2	+	1	218	c.155C>T	c.(154-156)GCG>GTG	p.A52V		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	52	RING-type.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						cctggggcggcggcgcgccgc	0.468													4	14					0	0	1	0	0		T	32859727	T	T	32859727	3	4	84	1	0	0	0	0	1	0	0	0	16570	768	27	1	157	1	TRIM71	3	32859727	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	13368074	32859727	165162703	256	52099											
SLC22A14	9389	broad.mit.edu	37	chr3	38357186	38357186	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctacaccgctgagctcCtccccactgtgctcaggtat	6	11	7	17	1	2	1	1	1	1	0	5	1	5	1	5	1	3	4	5	1	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:38357186C>A	uc010hhc.1	+	9	1558	c.1516C>A	c.(1516-1518)CTC>ATC	p.L506I	SLC22A14_uc003cib.2_Missense_Mutation_p.L506I|SLC22A14_uc011ayo.1_RNA	NM_004803	NP_004794	Q9Y267	S22AE_HUMAN	organic cation transporter like 4	506	Helical; (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0554)|Kidney(284;0.0696)		CGCTGAGCTCCTCCCCACTGT	0.557													48	139					4.44712e-29	5.05672e-29	1	1	0		A	38357186	A	A	38357186	3	1	84	1	0	0	0	0	1	0	0	0	14470	681	24	5	1546	5	SLC22A14	3	38357186	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5497459	38357186	159665244	257	52100											
SCN10A	6336	broad.mit.edu	37	chr3	38765017	38765017	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	taggcagtccaccgtgctgcCctcagaggagcttgtgtcgt	6	10	13	12	2	1	1	1	0	0	1	3	2	2	2	3	2	3	3	3	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:38765017C>A	uc003ciq.2	-	18	3256	c.3256G>T	c.(3256-3258)GGC>TGC	p.G1086C		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1086					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	ACCGTGCTGCCCTCAGAGGAG	0.512													6	12					0.217242	0.217742	1	1	0		A	38765017	A	A	38765017	3	1	84	1	0	0	0	0	1	0	0	0	13937	623	22	5	2654	5	SCN10A	3	38765017	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	407831	38765017	159257413	258	52101											
SCN10A	6336	broad.mit.edu	37	chr3	38768219	38768219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacccacacagtcggattagCgatgaagtcactgtgctcat	11	9	10	11	2	2	1	2	1	0	0	3	4	2	2	1	1	2	1	1	1	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:38768219C>T	uc003ciq.2	-	16	2965	c.2965G>A	c.(2965-2967)GCT>ACT	p.A989T		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	989					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GTCGGATTAGCGATGAAGTCA	0.567													17	85					0	0	1	0	0		T	38768219	T	T	38768219	3	4	84	1	0	0	0	0	1	0	0	0	13937	768	27	1	2953	1	SCN10A	3	38768219	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3202	38768219	159254211	259	52102											
KBTBD5	131377	broad.mit.edu	37	chr3	42727236	42727236	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgcgggcgggcgagcgCgagttcccgtgccatcgcct	3	7	18	13	7	0	0	0	0	0	0	2	2	1	0	3	3	3	1	3	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:42727236C>T	uc003clv.1	+	1	226	c.126C>T	c.(124-126)CGC>CGT	p.R42R		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	42	BTB.									ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		CGGGCGAGCGCGAGTTCCCGT	0.682													18	42					0	0	1	0	0		T	42727236	T	T	42727236	2	4	84	1	0	0	0	0	0	0	0	1	8012	755	27	1		1	KBTBD5	3	42727236	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3959017	42727236	155295194	260	52103											
CCDC13	152206	broad.mit.edu	37	chr3	42793519	42793519	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcagggctgtctgcagcTgaaaaagcaaacctcgtgct	10	9	12	10	1	2	1	1	1	1	0	3	1	2	1	1	2	5	5	1	2	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:42793519T>C	uc003cly.3	-	5	598	c.514_splice	c.e5-1	p.L172_splice	CCDC13_uc003clz.2_Splice_Site_p.L172_splice|CCDC13_uc011azq.1_Splice_Site_p.L172_splice	NM_144719	NP_653320	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13											ovary(1)	1						TGTCTGCAGCTGAAAAAGCAA	0.557													19	74					0	0	1	0	0		C	42793519	C	C	42793519	5	2	84	1	0	0	0	0	0	0	1	0	2768	1594	55	3	1683	3	CCDC13	3	42793519	Splice_Site	SNP	T	TCGA-BR-8591-01A-11D-2394-08	66283	42793519	155228911	261	52104											
FYCO1	79443	broad.mit.edu	37	chr3	46008259	46008259	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatcggccctctcctccTgcagtgccccttcacgctcc	3	10	6	22	2	3	0	2	0	1	0	7	0	5	0	7	1	2	2	7	1	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:46008259T>C	uc003cpb.3	-	8	2773	c.2567A>G	c.(2566-2568)CAG>CGG	p.Q856R	FYCO1_uc011bal.1_Missense_Mutation_p.Q856R	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	856	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		CCTCTCCTCCTGCAGTGCCCC	0.622													17	46					0	0	1	0	0		C	46008259	C	C	46008259	3	2	84	1	0	0	0	0	1	0	0	0	6139	1580	55	3	1913	3	FYCO1	3	46008259	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3214740	46008259	152014171	262	52105											
PTPN23	25930	broad.mit.edu	37	chr3	47447502	47447502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagcgtcgacatgagccGccagatccttacgctcaacg	10	7	9	15	5	1	2	1	1	0	1	3	3	2	2	3	0	5	1	3	0	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:47447502G>A	uc003crf.1	+	6	608	c.512G>A	c.(511-513)CGC>CAC	p.R171H	PTPN23_uc011baw.1_Missense_Mutation_p.R136H|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.R41H	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	171	BRO1.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GACATGAGCCGCCAGATCCTT	0.617													9	21					0	0	1	0	0		A	47447502	A	A	47447502	3	1	84	1	0	0	0	0	1	0	0	0	12813	1087	38	1	534	1	PTPN23	3	47447502	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1439243	47447502	150574928	263	52106											
COL7A1	1294	broad.mit.edu	37	chr3	48626315	48626315	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agccataccttcactccggcCccaggccagtctgtaagctg	8	8	9	16	1	2	0	1	0	1	0	3	0	3	0	6	2	3	2	6	2	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:48626315C>A	uc003ctz.2	-	18	2429	c.2428G>T	c.(2428-2430)GGC>TGC	p.G810C		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	810	Nonhelical region (NC1).|Fibronectin type-III 7.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TCACTCCGGCCCCAGGCCAGT	0.632													26	57					3.08376e-08	3.2997e-08	1	1	0		A	48626315	A	A	48626315	3	1	84	1	0	0	0	0	1	0	0	0	3707	623	22	5	6810	5	COL7A1	3	48626315	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1178813	48626315	149396115	264	52107											
WDR6	11180	broad.mit.edu	37	chr3	49050488	49050488	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaggtgacttcctggtGtgtggtgaccgccggggctc	3	9	15	14	2	0	2	0	2	0	0	2	2	1	2	5	5	0	1	5	5	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:49050488G>A	uc003cvj.2	+	2	1749	c.1611G>A	c.(1609-1611)GTG>GTA	p.V537V	WDR6_uc011bbx.1_Missense_Mutation_p.C366Y|WDR6_uc011bby.1_Intron|WDR6_uc010hkn.2_Silent_p.V481V|WDR6_uc011bbz.1_Silent_p.V456V	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	507	WD 8.				cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		ACTTCCTGGTGTGTGGTGACC	0.627													23	58					0	0	1	0	0		A	49050488	A	A	49050488	2	1	84	1	0	0	0	0	0	0	0	1	17336	1364	48	4		4	WDR6	3	49050488	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	424173	49050488	148971942	265	52108											
NDUFAF3	25915	broad.mit.edu	37	chr3	49060598	49060598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacatctttgggccaagctgCtcaatgaaccgccaggaact	11	9	9	12	1	2	1	1	1	1	0	2	2	2	2	3	2	5	2	3	2	5	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:49060598C>T	uc003cvq.2	+	5	1052	c.548C>T	c.(547-549)GCT>GTT	p.A183V	DALRD3_uc003cvm.1_5'Flank|DALRD3_uc010hko.1_5'Flank|uc011bcb.1_5'Flank|MIR425_hsa-mir-425|MI0001448_5'Flank|NDUFAF3_uc003cvn.2_Missense_Mutation_p.A126V|uc003cvo.1_5'Flank|MIR191_hsa-mir-191|MI0000465_5'Flank|NDUFAF3_uc003cvp.2_Missense_Mutation_p.A126V|NDUFAF3_uc003cvr.2_Missense_Mutation_p.A126V|NDUFAF3_uc003cvs.2_Missense_Mutation_p.A126V	NM_199069	NP_951032	Q9BU61	NDUF3_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	183					mitochondrial respiratory chain complex I assembly	mitochondrial inner membrane|nucleus	protein binding				0						GGCCAAGCTGCTCAATGAACC	0.512													13	71					0	0	1	0	0		T	49060598	T	T	49060598	3	4	84	1	0	0	0	0	1	0	0	0	10295	797	28	2	566	2	NDUFAF3	3	49060598	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	10110	49060598	148961832	266	52109											
UBA7	7318	broad.mit.edu	37	chr3	49848752	49848752	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacccagcatggccaccataGggctcaagacacctgcactg	11	5	9	16	0	1	1	1	0	0	1	1	1	1	1	4	2	2	3	4	2	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:49848752G>T	uc003cxr.2	-	9	1247	c.1076C>A	c.(1075-1077)CCT>CAT	p.P359H		NM_003335	NP_003326	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7	359	2 approximate repeats.			GVLSPMVAMLGAVAAQEVLKAISR -> RCLEPMVACWVSS CPGSAEGNLQ (in Ref. 1; AAA75388 and 2; AAG49557).	ISG15-protein conjugation|negative regulation of type I interferon production	cytosol	ATP binding|ISG15 activating enzyme activity|ligase activity			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GGCCACCATAGGGCTCAAGAC	0.512													30	60					3.11337e-16	3.45886e-16	1	1	0		T	49848752	T	T	49848752	3	4	84	1	0	0	0	0	1	0	0	0	16859	1000	35	5	2026	5	UBA7	3	49848752	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	788154	49848752	148173678	267	52110											
RBM6	10180	broad.mit.edu	37	chr3	50103805	50103805	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccccagaagcgagaggAgcaaaccaagaaggagaatg	18	1	13	9	1	0	4	0	0	0	4	0	7	0	5	3	2	4	1	3	2	5	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:50103805A>C	uc003cyc.2	+	17	2946	c.2813A>C	c.(2812-2814)GAG>GCG	p.E938A	RBM6_uc010hlc.1_3'UTR|RBM6_uc003cyd.2_Missense_Mutation_p.E416A|RBM6_uc003cye.2_Missense_Mutation_p.E416A|RBM6_uc011bdi.1_Missense_Mutation_p.E280A|RBM6_uc010hld.1_RNA|RBM6_uc010hle.1_RNA|RBM6_uc010hlf.1_RNA	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	938					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		AAGCGAGAGGAGCAAACCAAG	0.502													26	89					0	0	1	0	0		C	50103805	C	C	50103805	3	2	84	1	0	0	0	0	1	0	0	0	13169	304	11	5	2875	5	RBM6	3	50103805	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	255053	50103805	147918625	268	52111											
RBM5	10181	broad.mit.edu	37	chr3	50129540	50129540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagggatgaccgtgatgagCgtgaatcccgaagcaggcgg	11	5	16	9	4	0	4	0	4	0	0	1	6	1	5	2	3	2	1	2	3	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:50129540C>T	uc003cyg.2	+	3	230	c.82C>T	c.(82-84)CGT>TGT	p.R28C	RBM6_uc010hld.1_RNA|RBM6_uc010hle.1_RNA|RBM6_uc010hlf.1_RNA|RBM5_uc003cyf.2_Missense_Mutation_p.R28C|RBM5_uc011bdj.1_Silent_p.S5S|RBM5_uc011bdk.1_5'UTR	NM_005778	NP_005769	P52756	RBM5_HUMAN	RNA binding motif protein 5	28					apoptosis|negative regulation of cell proliferation|positive regulation of apoptosis|regulation of alternative nuclear mRNA splicing, via spliceosome|spliceosome assembly	nucleoplasm|spliceosomal complex	DNA binding|mRNA binding|nucleotide binding|protein binding|zinc ion binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000121)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CCGTGATGAGCGTGAATCCCG	0.463													13	58					0	0	1	0	0		T	50129540	T	T	50129540	3	4	84	1	0	0	0	0	1	0	0	0	13168	768	27	1	88	1	RBM5	3	50129540	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	25735	50129540	147892890	269	52112											
SEMA3F	6405	broad.mit.edu	37	chr3	50211386	50211386	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaccgcgagcccctcatTgtaagggctggccctgatgt	8	9	11	13	2	2	1	2	1	0	0	2	2	2	1	4	2	2	2	4	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:50211386T>C	uc003cyj.2	+	3	471	c.273T>C	c.(271-273)ATT>ATC	p.I91I	SEMA3F_uc003cyk.2_Silent_p.I91I	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	91	Sema.				axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		AGCCCCTCATTGTAAGGGCTG	0.627													20	54					0	0	1	0	0		C	50211386	C	C	50211386	2	2	84	1	0	0	0	0	0	0	0	1	14054	1826	63	3		3	SEMA3F	3	50211386	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	81846	50211386	147811044	270	52113											
SEMA3F	6405	broad.mit.edu	37	chr3	50220116	50220116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagctcattcctgacagtgCggagcgcaatgatgataagc	11	9	12	9	2	1	4	1	4	0	0	2	5	2	5	1	1	4	2	1	1	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:50220116C>T	uc003cyj.2	+	9	1001	c.803C>T	c.(802-804)GCG>GTG	p.A268V	SEMA3F_uc003cyk.2_Missense_Mutation_p.A237V	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	268	Sema.				axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		CCTGACAGTGCGGAGCGCAAT	0.617													38	76					0	0	1	0	0		T	50220116	T	T	50220116	3	4	84	1	0	0	0	0	1	0	0	0	14054	768	27	1	833	1	SEMA3F	3	50220116	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	8730	50220116	147802314	271	52114											
IFRD2	7866	broad.mit.edu	37	chr3	50328082	50328082	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcatcgtcactggaaccCgagtcagcttgggcactgct	7	9	11	14	2	3	0	3	0	0	0	4	2	3	1	2	2	3	3	2	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:50328082C>T	uc011bdp.1	-	2	408	c.279G>A	c.(277-279)TCG>TCA	p.S93S	IFRD2_uc003czb.2_Silent_p.S195S	NM_006764	NP_006755	Q12894	IFRD2_HUMAN	interferon-related developmental regulator 2	93							binding			lung(2)|ovary(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CACTGGAACCCGAGTCAGCTT	0.617													10	33					0	0	1	0	0		T	50328082	T	T	50328082	2	4	84	1	0	0	0	0	0	0	0	1	7570	639	23	1		1	IFRD2	3	50328082	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	107966	50328082	147694348	272	52115											
CACNA2D2	9254	broad.mit.edu	37	chr3	50418437	50418437	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtacctacccgggtagtagCgagtgactcctgtggcgctg	6	9	15	11	3	0	1	0	1	0	0	1	2	1	1	3	3	3	4	3	3	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:50418437C>A	uc003daq.2	-	7	811	c.773G>T	c.(772-774)CGC>CTC	p.R258L	CACNA2D2_uc003dap.2_Missense_Mutation_p.R258L	NM_006030	NP_006021	Q9NY47	CA2D2_HUMAN	calcium channel, voltage-dependent, alpha	258	Extracellular (Potential).				energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000365)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)	Gabapentin(DB00996)	CGGGTAGTAGCGAGTGACTCC	0.622													41	88					1.30998e-17	1.46281e-17	1	1	0		A	50418437	A	A	50418437	3	1	84	1	0	0	0	0	1	0	0	0	2552	768	27	5	2817	5	CACNA2D2	3	50418437	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	90355	50418437	147603993	273	52116											
VPRBP	9730	broad.mit.edu	37	chr3	51464895	51464895	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcacacaagaaagtttgAggaaaacttcagctggttcc	13	10	10	8	0	1	2	1	1	0	1	2	3	2	3	1	2	3	5	1	2	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:51464895A>G	uc003dbe.1	-	12	1943	c.1775T>C	c.(1774-1776)CTC>CCC	p.L592P		NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	592					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		AGAAAGTTTGAGGAAAACTTC	0.403													4	27					0	0	1	0	0		G	51464895	G	G	51464895	3	3	84	1	0	0	0	0	1	0	0	0	17211	304	11	3	2800	3	VPRBP	3	51464895	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1046458	51464895	146557535	274	52117											
RAD54L2	23132	broad.mit.edu	37	chr3	51696671	51696671	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaacttatggacagcagTgctgttcccgggacagctct	8	9	11	13	1	1	0	0	0	1	0	2	2	2	2	2	2	4	4	2	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:51696671T>C	uc011bdt.1	+	22	3764	c.3639T>C	c.(3637-3639)AGT>AGC	p.S1213S	RAD54L2_uc003dbh.2_Silent_p.S802S|RAD54L2_uc011bdu.1_Silent_p.S907S|RAD54L2_uc003dbj.2_Silent_p.S539S	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	1213						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		TGGACAGCAGTGCTGTTCCCG	0.627													22	58					0	0	1	0	0		C	51696671	C	C	51696671	2	2	84	1	0	0	0	0	0	0	0	1	13019	1693	59	3		3	RAD54L2	3	51696671	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	231776	51696671	146325759	275	52118											
DNAH1	25981	broad.mit.edu	37	chr3	52391683	52391683	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacagcctgcgggactgcaaCaagattctggacctggtgca	10	7	13	11	1	1	1	0	0	1	1	1	4	1	3	2	3	5	2	2	3	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:52391683C>A	uc011bef.1	+	23	4173	c.3912C>A	c.(3910-3912)AAC>AAA	p.N1304K		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1304	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GGGACTGCAACAAGATTCTGG	0.617													3	14					0.115264	0.115796	1	1	0		A	52391683	A	A	52391683	3	1	84	1	0	0	0	0	1	0	0	0	4603	477	17	5	3998	5	DNAH1	3	52391683	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	695012	52391683	145630747	276	52119											
RFT1	91869	broad.mit.edu	37	chr3	53126558	53126558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggccaagatgaagcccaCgctgccacaccaacgggtca	11	5	11	14	2	1	2	1	1	0	1	1	2	1	2	4	2	3	2	4	2	3	1	rs145175244		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:53126558C>T	uc003dgj.2	-	12	1339	c.1285G>A	c.(1285-1287)GTG>ATG	p.V429M	RFT1_uc003dgk.2_Missense_Mutation_p.V390M	NM_052859	NP_443091	Q96AA3	RFT1_HUMAN	RFT1 homolog	429	Helical; (Potential).				carbohydrate transport|dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane	lipid transporter activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(193;6.98e-05)|Kidney(197;0.0017)|KIRC - Kidney renal clear cell carcinoma(197;0.00192)|OV - Ovarian serous cystadenocarcinoma(275;0.104)		ATGAAGCCCACGCTGCCACAC	0.552													9	15					0	0	1	0	0		T	53126558	T	T	53126558	3	4	84	1	0	0	0	0	1	0	0	0	13282	536	19	1	348	1	RFT1	3	53126558	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	734875	53126558	144895872	277	52120											
CHDH	55349	broad.mit.edu	37	chr3	53854583	53854583	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagggtgatagggcgggtGcatgcctgctgaatgtagat	8	10	18	5	1	0	3	0	2	0	1	0	4	0	4	1	4	3	3	1	4	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:53854583G>A	uc003dgz.2	-	6	1478	c.1038C>T	c.(1036-1038)TGC>TGT	p.C346C		NM_018397	NP_060867	Q8NE62	CHDH_HUMAN	choline dehydrogenase precursor	346					alcohol metabolic process		choline dehydrogenase activity|flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		Hepatocellular(537;0.152)		BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)	Choline(DB00122)	TAGGGCGGGTGCATGCCTGCT	0.557													8	115					0	0	1	0	0		A	53854583	A	A	53854583	2	1	84	1	0	0	0	0	0	0	0	1	3336	1311	46	2		2	CHDH	3	53854583	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	728025	53854583	144167847	278	52121											
SLMAP	7871	broad.mit.edu	37	chr3	57847813	57847813	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatttatctgataaattaaaGgtatgtatttactctgcctg	12	17	7	5	0	2	1	0	1	2	0	2	2	2	1	1	1	2	2	1	1	8	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:57847813G>T	uc003dje.1	+	9	1171	c.966G>T	c.(964-966)AAG>AAT	p.K322N	SLMAP_uc003djc.1_Missense_Mutation_p.K322N|SLMAP_uc003djd.1_Missense_Mutation_p.K322N|SLMAP_uc003djf.1_Missense_Mutation_p.K322N|SLMAP_uc003djg.1_5'Flank	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	322	Potential.|Cytoplasmic (Potential).				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)		ATAAATTAAAGGTATGTATTT	0.269													25	94					3.08376e-08	3.2997e-08	1	1	0		T	57847813	T	T	57847813	3	4	84	1	0	0	0	0	1	0	0	0	14774	1014	35	5	1000	5	SLMAP	3	57847813	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3993230	57847813	140174617	279	52122											
FEZF2	55079	broad.mit.edu	37	chr3	62357003	62357003	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgaacgctttgccgcactGgttgcatttatgtggctttt	5	17	11	8	2	0	1	0	1	0	0	0	1	0	1	1	2	3	6	1	2	2	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:62357003G>C	uc003dlh.2	-	3	1216	c.1009C>G	c.(1009-1011)CAG>GAG	p.Q337E	FEZF2_uc003dli.2_Missense_Mutation_p.Q337E	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	337	C2H2-type 3.				transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		TTGCCGCACTGGTTGCATTTA	0.587													30	79					0	0	1	0	0		C	62357003	C	C	62357003	3	2	84	1	0	0	0	0	1	0	0	0	5840	1357	47	5	378	5	FEZF2	3	62357003	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4509190	62357003	135665427	280	52123											
FEZF2	55079	broad.mit.edu	37	chr3	62358211	62358211	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccccgccgccgccgccGccaccgccgccgccgcctcc	1	1	10	29	9	0	0	0	0	0	0	1	0	1	0	14	0	0	0	14	0	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:62358211G>A	uc003dlh.2	-	1	540	c.333C>T	c.(331-333)GGC>GGT	p.G111G	FEZF2_uc003dli.2_Silent_p.G111G	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	111	Gly-rich.				transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		cgccgccgccgccaccgccgc	0.522													4	6					0	0	1	0	0		A	62358211	A	A	62358211	2	1	84	1	0	0	0	0	0	0	0	1	5840	1074	38	1		1	FEZF2	3	62358211	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1208	62358211	135664219	281	52124											
PRICKLE2	166336	broad.mit.edu	37	chr3	64142957	64142957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcattgcagacagtgcataCgaagcacggcgggtgccagc	10	6	13	12	3	1	1	1	0	0	1	1	2	1	1	1	2	6	3	1	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:64142957C>T	uc003dmf.2	-	5	1067	c.481G>A	c.(481-483)GTA>ATA	p.V161I		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	161	LIM zinc-binding 1.					cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		ACAGTGCATACGAAGCACGGC	0.567													19	43					0	0	1	0	0		T	64142957	T	T	64142957	3	4	84	1	0	0	0	0	1	0	0	0	12509	536	19	1	2069	1	PRICKLE2	3	64142957	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1784746	64142957	133879473	282	52125											
ADAMTS9	56999	broad.mit.edu	37	chr3	64532624	64532624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agccttttccacaggtcactGagcactgcaaagacagggat	12	8	10	11	0	1	2	1	1	0	1	2	3	2	3	2	2	3	2	2	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:64532624G>A	uc003dmg.2	-	32	4906	c.4874C>T	c.(4873-4875)TCA>TTA	p.S1625L	ADAMTS9_uc011bfo.1_Missense_Mutation_p.S1597L|ADAMTS9_uc011bfp.1_Missense_Mutation_p.S536L	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1625	TSP type-1 14.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		ACAGGTCACTGAGCACTGCAA	0.532													11	57					0	0	1	0	0		A	64532624	A	A	64532624	3	1	84	1	0	0	0	0	1	0	0	0	273	1294	45	4	965	4	ADAMTS9	3	64532624	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	389667	64532624	133489806	283	52126											
CNTN3	5067	broad.mit.edu	37	chr3	74315771	74315771	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtgttcagtacttgtacGttattttgactgctagtcct	6	20	8	7	1	1	1	1	1	0	0	2	1	2	1	1	0	3	5	1	0	4	9			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:74315771G>A	uc003dpm.1	-	21	2927	c.2847C>T	c.(2845-2847)AAC>AAT	p.N949N		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	949	Fibronectin type-III 4.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		GTACTTGTACGTTATTTTGAC	0.358													35	81					0	0	1	0	0		A	74315771	A	A	74315771	2	1	84	1	0	0	0	0	0	0	0	1	3645	1136	40	1		1	CNTN3	3	74315771	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	9783147	74315771	123706659	284	52127											
ROBO2	6092	broad.mit.edu	37	chr3	77607297	77607297	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acactgcagattaagaatttAcgggtaagtaatattggact	15	12	9	5	1	0	2	0	0	0	2	0	3	0	3	0	2	2	3	0	2	6	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:77607297A>G	uc003dpy.3	+	9	2077	c.1434A>G	c.(1432-1434)TTA>TTG	p.L478L	ROBO2_uc003dpz.2_Silent_p.L482L|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Silent_p.L482L	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	478	Ig-like C2-type 5.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		TTAAGAATTTACGGGTAAGTA	0.363													20	63					0	0	1	0	0		G	77607297	G	G	77607297	2	3	84	1	0	0	0	0	0	0	0	1	13539	388	14	3		3	ROBO2	3	77607297	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	3291526	77607297	120415133	285	52128											
CADM2	253559	broad.mit.edu	37	chr3	85961603	85961603	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacttccgagtggaccggAgtgatgatggagtggcggtc	7	9	18	7	3	0	2	0	2	0	0	2	7	1	6	2	6	0	0	2	6	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:85961603A>T	uc003dqj.2	+	5	1209	c.583A>T	c.(583-585)AGT>TGT	p.S195C	CADM2_uc003dqk.2_Missense_Mutation_p.S204C|CADM2_uc003dql.2_Missense_Mutation_p.S197C	NM_153184	NP_694854	Q8N3J6	CADM2_HUMAN	immunoglobulin superfamily, member 4D	195	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly	integral to membrane|plasma membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4		Lung NSC(201;0.0148)		LUSC - Lung squamous cell carcinoma(29;0.000815)|Lung(72;0.00304)|BRCA - Breast invasive adenocarcinoma(55;0.156)|Epithelial(33;0.157)		AGTGGACCGGAGTGATGATGG	0.438													21	58					0	0	1	0	0		T	85961603	T	T	85961603	3	4	84	1	0	0	0	0	1	0	0	0	2570	304	11	5	672	5	CADM2	3	85961603	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	8354306	85961603	112060827	286	52129											
ZNF654	55279	broad.mit.edu	37	chr3	88189154	88189154	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccgatttaaatgtgcgaCaaacagtaatgaagtggagc	16	8	10	7	2	0	1	0	1	0	0	0	4	0	2	1	1	4	1	1	1	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:88189154C>T	uc003dqv.2	+	1	893	c.694C>T	c.(694-696)CAA>TAA	p.Q232*	CGGBP1_uc003dqu.2_Intron	NM_018293	NP_060763	Q8IZM8	ZN654_HUMAN	zinc finger protein 654	232					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(201;0.0283)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		AAATGTGCGACAAACAGTAAT	0.358													15	27					0	0	1	0	0		T	88189154	T	T	88189154	4	4	84	1	0	0	0	0	0	1	0	0	18092	479	17	4	696	4	ZNF654	3	88189154	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2227551	88189154	109833276	287	52130											
GPR15	2838	broad.mit.edu	37	chr3	98251363	98251363	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcatctggtttatctcctgCctgctggggttgcctactct	4	15	10	12	0	3	0	0	0	3	0	4	0	3	0	3	3	5	4	3	3	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:98251363C>T	uc011bgy.1	+	1	486	c.486C>T	c.(484-486)TGC>TGT	p.C162C		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	162	Helical; Name=4; (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		TTATCTCCTGCCTGCTGGGGT	0.488													17	48					0	0	1	0	0		T	98251363	T	T	98251363	2	4	84	1	0	0	0	0	0	0	0	1	6670	747	26	2		2	GPR15	3	98251363	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	10062209	98251363	99771067	288	52131											
FILIP1L	11259	broad.mit.edu	37	chr3	99567357	99567357	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttattatcctcagtagttaTcacacttgagctattgctgt	9	18	6	8	0	2	1	2	1	0	0	3	1	3	1	1	0	2	4	1	0	5	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:99567357T>C	uc003dtm.2	-	5	3626	c.3163A>G	c.(3163-3165)ATA>GTA	p.I1055V	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.I1055V|FILIP1L_uc010hpf.2_Missense_Mutation_p.I631V|FILIP1L_uc010hpg.2_Missense_Mutation_p.I815V|FILIP1L_uc003dtn.2_Missense_Mutation_p.I815V|FILIP1L_uc003dtp.1_Missense_Mutation_p.I815V	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	1055						cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						TCAGTAGTTATCACACTTGAG	0.483													52	182					0	0	1	0	0		C	99567357	C	C	99567357	3	2	84	1	0	0	0	0	1	0	0	0	5909	1435	50	3	273	3	FILIP1L	3	99567357	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1315994	99567357	98455073	289	52132											
ABI3BP	25890	broad.mit.edu	37	chr3	100617729	100617729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcagaggtttgcgagaaCgagttttacctgtggaggtg	8	11	16	6	2	0	2	0	0	0	2	0	5	0	3	1	3	4	4	1	3	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:100617729C>T	uc003dun.2	-	4	444	c.359G>A	c.(358-360)CGT>CAT	p.R120H	ABI3BP_uc003duo.2_Missense_Mutation_p.R113H|ABI3BP_uc003dup.3_Missense_Mutation_p.R113H	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	120	Fibronectin type-III 1.					extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						TTTGCGAGAACGAGTTTTACC	0.478													37	122					0	0	1	0	0		T	100617729	T	T	100617729	3	4	84	1	0	0	0	0	1	0	0	0	91	536	19	1	2996	1	ABI3BP	3	100617729	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1050372	100617729	97404701	290	52133											
DZIP3	9666	broad.mit.edu	37	chr3	108380774	108380774	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggagaaactgaaaaggaaagGcttgctcgtcaaaggcagct	15	6	13	7	1	1	2	1	1	0	1	2	4	1	3	0	4	3	4	0	4	5	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:108380774G>A	uc003dxd.2	+	20	2672	c.2250G>A	c.(2248-2250)AGG>AGA	p.R750R	DZIP3_uc003dxf.1_Silent_p.R750R|DZIP3_uc011bhm.1_Silent_p.R201R	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	750					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						AAAAGGAAAGGCTTGCTCGTC	0.343													11	28					0	0	1	0	0		A	108380774	A	A	108380774	2	1	84	1	0	0	0	0	0	0	0	1	4871	1194	42	2		2	DZIP3	3	108380774	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7763045	108380774	89641656	291	52134											
BTLA	151888	broad.mit.edu	37	chr3	112198429	112198429	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgaaaaatgaaatgttcttCtcttccttccaacttgtttg	11	17	5	8	0	2	2	0	2	2	0	5	2	4	2	2	0	1	2	2	0	4	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:112198429C>T	uc003dza.3	-	2	479	c.276G>A	c.(274-276)GAG>GAA	p.E92E	BTLA_uc003dzb.3_Silent_p.E92E	NM_181780	NP_861445	Q7Z6A9	BTLA_HUMAN	B and T lymphocyte associated isoform 1	92	Ig-like V-type.|Extracellular (Potential).				T cell costimulation		receptor activity				0		Acute lymphoblastic leukemia(4;1.34e-07)|all_hematologic(4;0.000361)				AAATGTTCTTCTCTTCCTTCC	0.378													25	80					0	0	1	0	0		T	112198429	T	T	112198429	2	4	84	1	0	0	0	0	0	0	0	1	1561	912	32	4		4	BTLA	3	112198429	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3817655	112198429	85824001	292	52135											
SIDT1	54847	broad.mit.edu	37	chr3	113286534	113286534	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtacaaactgctagttacCaagctgaagcacttccagct	13	9	7	12	0	0	1	0	1	0	0	1	1	1	1	2	0	7	6	2	0	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:113286534C>A	uc003eak.2	+	3	1143	c.492C>A	c.(490-492)ACC>ACA	p.T164T	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Silent_p.T164T|SIDT1_uc011big.1_5'UTR	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	164	Extracellular (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						TGCTAGTTACCAAGCTGAAGC	0.498													37	137					3.03874e-20	3.42177e-20	1	1	0		A	113286534	A	A	113286534	2	1	84	1	0	0	0	0	0	0	0	1	14327	581	21	5		5	SIDT1	3	113286534	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1088105	113286534	84735896	293	52136											
ZBTB20	26137	broad.mit.edu	37	chr3	114057923	114057923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaactttgctgggcagaCggagcagacgtaagtggtcc	10	8	14	9	2	1	2	1	0	0	2	2	3	2	3	1	3	3	4	1	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:114057923C>T	uc003ebi.2	-	5	2335	c.2155G>A	c.(2155-2157)GTC>ATC	p.V719I	ZBTB20_uc003ebj.2_Missense_Mutation_p.V646I|ZBTB20_uc010hqp.2_Missense_Mutation_p.V646I|ZBTB20_uc003ebk.2_Missense_Mutation_p.V646I|ZBTB20_uc003ebl.2_Missense_Mutation_p.V646I|ZBTB20_uc003ebm.2_Missense_Mutation_p.V646I|ZBTB20_uc003ebn.2_Missense_Mutation_p.V646I	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	719	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GCTGGGCAGACGGAGCAGACG	0.582													21	86					0	0	1	0	0		T	114057923	T	T	114057923	3	4	84	1	0	0	0	0	1	0	0	0	17554	536	19	1	74	1	ZBTB20	3	114057923	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	771389	114057923	83964507	294	52137											
ZBTB20	26137	broad.mit.edu	37	chr3	114069414	114069414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggctggcaggtaggtgttgCcagctgtgccaatgacctgc	6	9	16	10	0	0	1	0	1	0	0	0	1	0	1	3	4	4	5	3	4	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:114069414C>T	uc003ebi.2	-	4	1691	c.1511G>A	c.(1510-1512)GGC>GAC	p.G504D	ZBTB20_uc003ebj.2_Missense_Mutation_p.G431D|ZBTB20_uc010hqp.2_Missense_Mutation_p.G431D|ZBTB20_uc003ebk.2_Missense_Mutation_p.G431D|ZBTB20_uc003ebl.2_Missense_Mutation_p.G431D|ZBTB20_uc003ebm.2_Missense_Mutation_p.G431D|ZBTB20_uc003ebn.2_Missense_Mutation_p.G431D|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	504					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GTAGGTGTTGCCAGCTGTGCC	0.617													22	59					0	0	1	0	0		T	114069414	T	T	114069414	3	4	84	1	0	0	0	0	1	0	0	0	17554	739	26	2	722	2	ZBTB20	3	114069414	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	11491	114069414	83953016	295	52138											
ZBTB20	26137	broad.mit.edu	37	chr3	114070435	114070435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcttccgactgcgagacccGtagcacgccgctgtacatga	9	7	11	14	5	0	2	0	1	0	1	1	4	1	2	3	0	4	5	3	0	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:114070435G>A	uc003ebi.2	-	4	670	c.490C>T	c.(490-492)CGG>TGG	p.R164W	ZBTB20_uc003ebj.2_Missense_Mutation_p.R91W|ZBTB20_uc010hqp.2_Missense_Mutation_p.R91W|ZBTB20_uc003ebk.2_Missense_Mutation_p.R91W|ZBTB20_uc003ebl.2_Missense_Mutation_p.R91W|ZBTB20_uc003ebm.2_Missense_Mutation_p.R91W|ZBTB20_uc003ebn.2_Missense_Mutation_p.R91W|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	164	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TGCGAGACCCGTAGCACGCCG	0.567													26	65					0	0	1	0	0		A	114070435	A	A	114070435	3	1	84	1	0	0	0	0	1	0	0	0	17554	1144	40	1	1743	1	ZBTB20	3	114070435	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1021	114070435	83951995	296	52139											
ARHGAP31	57514	broad.mit.edu	37	chr3	119121032	119121032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagatggagccctcgccgcGtaaccagcgcaaggcgctga	9	4	13	15	5	0	2	0	1	0	1	1	3	0	3	4	2	3	3	4	2	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:119121032G>A	uc003ecj.3	+	10	1965	c.1433G>A	c.(1432-1434)CGT>CAT	p.R478H		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	478					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						CCCTCGCCGCGTAACCAGCGC	0.582													41	127					0	0	1	0	0		A	119121032	A	A	119121032	3	1	84	1	0	0	0	0	1	0	0	0	880	1145	40	1	1471	1	ARHGAP31	3	119121032	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	5050597	119121032	78901398	297	52140											
GPR156	165829	broad.mit.edu	37	chr3	119887227	119887227	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggctttcaatcacagcaTttttctgtaaaataaaagca	15	12	6	8	0	3	0	2	0	1	0	3	0	3	0	0	1	2	5	0	1	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:119887227T>C	uc011bjf.1	-	9	1097	c.1097A>G	c.(1096-1098)AAT>AGT	p.N366S	GPR156_uc011bjg.1_Missense_Mutation_p.N362S	NM_153002	NP_694547	Q8NFN8	GP156_HUMAN	G protein-coupled receptor 156	366	Cytoplasmic (Potential).|Potential.					integral to membrane|plasma membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.19)		AATCACAGCATTTTTCTGTAA	0.478													22	68					0	0	1	0	0		C	119887227	C	C	119887227	3	2	84	1	0	0	0	0	1	0	0	0	6676	1493	52	3	1351	3	GPR156	3	119887227	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	766195	119887227	78135203	298	52141											
NDUFB4	4710	broad.mit.edu	37	chr3	120320066	120320066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagctctgtgtggatttgggCccctcatcttcatttattat	6	17	9	9	0	4	0	2	0	2	0	4	2	4	1	2	2	1	1	2	2	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:120320066C>T	uc003edu.2	+	2	368	c.289C>T	c.(289-291)CCC>TCC	p.P97S	NDUFB4_uc003edt.2_Missense_Mutation_p.P97S	NM_004547	NP_004538	O95168	NDUB4_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	97	Helical; (Potential).				mitochondrial electron transport, NADH to ubiquinone|response to oxidative stress|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0				GBM - Glioblastoma multiforme(114;0.14)	NADH(DB00157)	TGGATTTGGGCCCCTCATCTT	0.413													14	175					0	0	1	0	0		T	120320066	T	T	120320066	3	4	84	1	0	0	0	0	1	0	0	0	10302	739	26	2	295	2	NDUFB4	3	120320066	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	432839	120320066	77702364	299	52142											
HCLS1	3059	broad.mit.edu	37	chr3	121356016	121356016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggactcgtgtttctccGtctctcccttgtagtcatat	4	17	8	12	2	4	0	1	0	3	0	8	1	5	1	2	1	0	2	2	1	2	4	rs144275149	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:121356016G>A	uc003eeh.3	-	7	667	c.542C>T	c.(541-543)ACG>ATG	p.T181M	HCLS1_uc011bjj.1_Intron|HCLS1_uc011bjk.1_RNA	NM_005335	NP_005326	P14317	HCLS1_HUMAN	hematopoietic cell-specific Lyn substrate 1	181	Cortactin 3.				erythrocyte differentiation|intracellular signal transduction|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of STAT protein|response to hormone stimulus	mitochondrion|nucleus|plasma membrane	DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(114;0.0912)		GTGTTTCTCCGTCTCTCCCTT	0.552													32	79					0	0	1	0	0		A	121356016	A	A	121356016	3	1	84	1	0	0	0	0	1	0	0	0	7011	1145	40	1	950	1	HCLS1	3	121356016	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1035950	121356016	76666414	300	52143											
ADCY5	111	broad.mit.edu	37	chr3	123046525	123046525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgctccttgaggtaggcGttgcgctcgcccccacagcc	4	9	12	16	3	0	1	0	1	0	0	2	1	1	1	4	2	3	4	4	2	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:123046525G>A	uc003egh.1	-	7	1887	c.1887C>T	c.(1885-1887)AAC>AAT	p.N629N	ADCY5_uc003egg.1_Silent_p.N262N|ADCY5_uc003egi.1_Silent_p.N188N	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	629	Cytoplasmic (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		TGAGGTAGGCGTTGCGCTCGC	0.642													19	50					0	0	1	0	0		A	123046525	A	A	123046525	2	1	84	1	0	0	0	0	0	0	0	1	297	1136	40	1		1	ADCY5	3	123046525	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1690509	123046525	74975905	301	52144											
ADCY5	111	broad.mit.edu	37	chr3	123049848	123049848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccccaaggatcttaatacGtaaacagtgattctcctgga	13	11	7	10	1	2	1	0	1	2	0	4	3	3	3	3	2	2	1	3	2	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:123049848G>A	uc003egh.1	-	5	1534	c.1534C>T	c.(1534-1536)CGT>TGT	p.R512C	ADCY5_uc003egg.1_Missense_Mutation_p.R145C|ADCY5_uc003egi.1_Missense_Mutation_p.R71C	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	512	Guanylate cyclase 1.|Cytoplasmic (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		ATCTTAATACGTAAACAGTGA	0.443													15	35					0	0	1	0	0		A	123049848	A	A	123049848	3	1	84	1	0	0	0	0	1	0	0	0	297	1145	40	1	2319	1	ADCY5	3	123049848	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3323	123049848	74972582	302	52145											
KALRN	8997	broad.mit.edu	37	chr3	124351480	124351480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaaagttcgcgatggtcGgaagagctttgacctgggat	11	9	15	6	3	0	3	0	1	0	2	2	7	0	5	1	3	1	2	1	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:124351480G>A	uc003ehg.2	+	35	5517	c.5390G>A	c.(5389-5391)CGG>CAG	p.R1797Q	KALRN_uc003ehi.2_Missense_Mutation_p.R170Q|KALRN_uc003ehk.2_Missense_Mutation_p.R100Q|KALRN_uc003ehj.2_Missense_Mutation_p.R100Q	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1797					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						CGCGATGGTCGGAAGAGCTTT	0.537													32	121					0	0	1	0	0		A	124351480	A	A	124351480	3	1	84	1	0	0	0	0	1	0	0	0	7991	1116	39	1	5684	1	KALRN	3	124351480	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1301632	124351480	73670950	303	52146											
KALRN	8997	broad.mit.edu	37	chr3	124436192	124436192	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacatcatggaggctctgcAgtaccttcacaactgcaggg	11	8	11	11	0	3	1	2	0	1	1	3	2	3	2	1	3	4	4	1	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:124436192A>G	uc003ehg.2	+	59	8502	c.8375A>G	c.(8374-8376)CAG>CGG	p.Q2792R	KALRN_uc003ehk.2_Missense_Mutation_p.Q1095R	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2791	Protein kinase.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GAGGCTCTGCAGTACCTTCAC	0.353													19	73					0	0	1	0	0		G	124436192	G	G	124436192	3	3	84	1	0	0	0	0	1	0	0	0	7991	188	7	3	8765	3	KALRN	3	124436192	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	84712	124436192	73586238	304	52147											
ALG1L	200810	broad.mit.edu	37	chr3	125648342	125648342	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcccatcggagctgctgCgactcccgcaggttcttcca	6	10	9	16	3	2	0	1	0	1	0	6	2	5	1	3	2	3	4	3	2	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:125648342C>T	uc003eig.1	-	6	581	c.417G>A	c.(415-417)TCG>TCA	p.S139S	LOC100125556_uc003eif.3_RNA|LOC100125556_uc003eid.3_RNA|LOC100125556_uc003eie.3_RNA	NM_001015050	NP_001015050	Q6GMV1	ALG1L_HUMAN	asparagine-linked glycosylation 1-like	139							transferase activity, transferring glycosyl groups				0						GGAGCTGCTGCGACTCCCGCA	0.517													18	43					0	0	1	0	0		T	125648342	T	T	125648342	2	4	84	1	0	0	0	0	0	0	0	1	517	755	27	1		1	ALG1L	3	125648342	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1212150	125648342	72374088	305	52148											
ZXDC	79364	broad.mit.edu	37	chr3	126194497	126194497	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccaagaaagagtcgccgTcgctgtcgtcctcggcgggc	7	6	14	14	6	0	2	0	0	0	2	5	2	1	2	3	2	0	2	3	2	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:126194497T>A	uc003eiv.2	-	1	266	c.212A>T	c.(211-213)GAC>GTC	p.D71V	ZXDC_uc010hsh.2_RNA|ZXDC_uc003eix.2_Missense_Mutation_p.D71V	NM_025112	NP_079388	Q2QGD7	ZXDC_HUMAN	ZXD family zinc finger C isoform 1	71					positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|LRR domain binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.155)		AGAGTCGCCGTCGCTGTCGTC	0.468													10	12					0	0	1	0	0		A	126194497	A	A	126194497	3	1	84	1	0	0	0	0	1	0	0	0	18277	1667	58	5	2410	5	ZXDC	3	126194497	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	546155	126194497	71827933	306	52149											
CHST13	166012	broad.mit.edu	37	chr3	126261102	126261102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctacctgctggacccgcGcacgcggcgtgaggagccct	5	5	15	16	5	0	1	0	1	0	0	0	3	0	3	4	4	3	2	4	4	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:126261102G>A	uc003eja.2	+	3	707	c.707G>A	c.(706-708)CGC>CAC	p.R236H		NM_152889	NP_690849	Q8NET6	CHSTD_HUMAN	carbohydrate sulfotransferase 13	236	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 4-sulfotransferase activity|N-acetylgalactosamine 4-O-sulfotransferase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.151)		CTGGACCCGCGCACGCGGCGT	0.562													3	16					0	0	1	0	0		A	126261102	A	A	126261102	3	1	84	1	0	0	0	0	1	0	0	0	3404	1087	38	1	717	1	CHST13	3	126261102	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	66605	126261102	71761328	307	52150											
PLXNA1	5361	broad.mit.edu	37	chr3	126724067	126724067	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctccgcccgggaggtggcGcccatcacgcggggccaggg	4	3	17	17	5	1	0	1	0	0	0	2	1	2	1	5	6	0	0	5	6	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:126724067G>A	uc003ejg.2	+	6	1813	c.1809G>A	c.(1807-1809)GCG>GCA	p.A603A		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	626	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GGGAGGTGGCGCCCATCACGC	0.672													5	17					0	0	1	0	0		A	126724067	A	A	126724067	2	1	84	1	0	0	0	0	0	0	0	1	12138	1074	38	1		1	PLXNA1	3	126724067	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	462965	126724067	71298363	308	52151											
PLXNA1	5361	broad.mit.edu	37	chr3	126735391	126735391	+	Frame_Shift_Del	DEL	C	-	-																															gtgagatccggtgcctgacaCcccccgggcagagccctggc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:126735391delC	uc003ejg.2	+	15	2981	c.2977delC	c.(2977-2979)CCCfs	p.P993fs		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1016	IPT/TIG 2.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GTGCCTGACACCCCCCGGGCA	0.627													64	58	---	---	---	---						.	-	126735391	-	-	126735391	7	5	84	1	0	1	0	1	0	0	0	0	12138	507	18	0	3104	0	PLXNA1	3	126735391	Frame_Shift_Del	DEL	C	TCGA-BR-8591-01A-11D-2394-08	11324	126735391	71287039	309	52152											
PODXL2	50512	broad.mit.edu	37	chr3	127379825	127379825	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacagctcccagtggggcCgagcacccagatgaagatcc	11	4	11	15	1	0	3	0	1	0	2	2	4	2	3	5	2	2	2	5	2	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:127379825C>T	uc003ejq.2	+	3	978	c.954C>T	c.(952-954)GCC>GCT	p.A318A		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	318	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						CCAGTGGGGCCGAGCACCCAG	0.607													19	98					0	0	1	0	0		T	127379825	T	T	127379825	2	4	84	1	0	0	0	0	0	0	0	1	12200	639	23	1		1	PODXL2	3	127379825	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	644434	127379825	70642605	310	52153											
PLXND1	23129	broad.mit.edu	37	chr3	129284805	129284805	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagtgcttgttgttgagtAgtgaggagaacaagctaatt	12	12	14	3	0	0	3	0	2	0	1	0	5	0	4	0	2	3	5	0	2	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:129284805A>G	uc003emx.2	-	24	4347	c.4247T>C	c.(4246-4248)CTA>CCA	p.L1416P	PLXND1_uc011blb.1_Missense_Mutation_p.L84P	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1416	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						GTTGTTGAGTAGTGAGGAGAA	0.572													18	39					0	0	1	0	0		G	129284805	G	G	129284805	3	3	84	1	0	0	0	0	1	0	0	0	12146	420	15	3	1582	3	PLXND1	3	129284805	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1904980	129284805	68737625	311	52154											
COL6A6	131873	broad.mit.edu	37	chr3	130284257	130284257	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccgacgggagggtgtgAccatcttcaccctgggcata	8	8	12	13	2	2	1	1	1	1	0	3	3	3	2	4	3	0	1	4	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:130284257A>G	uc010htl.2	+	3	1112	c.1081A>G	c.(1081-1083)ACC>GCC	p.T361A		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	361	Nonhelical region.|VWFA 2.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GGAGGGTGTGACCATCTTCAC	0.562													43	152					0	0	1	0	0		G	130284257	G	G	130284257	3	3	84	1	0	0	0	0	1	0	0	0	3706	275	10	3	1091	3	COL6A6	3	130284257	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	999452	130284257	67738173	312	52155											
C3orf36	80111	broad.mit.edu	37	chr3	133647277	133647277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagggaggggatagagcagCggccaccacctctccctgag	10	4	15	12	1	1	3	0	1	1	2	2	5	1	5	4	4	2	1	4	4	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:133647277C>T	uc003epz.1	-	1	1380	c.371G>A	c.(370-372)CGC>CAC	p.R124H		NM_025041	NP_079317	Q3SXR2	CC036_HUMAN	hypothetical protein LOC80111	124										ovary(1)	1						GATAGAGCAGCGGCCACCACC	0.612													7	43					0	0	1	0	0		T	133647277	T	T	133647277	3	4	84	1	0	0	0	0	1	0	0	0	2229	768	27	1	130	1	C3orf36	3	133647277	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3363020	133647277	64375153	313	52156											
MSL2	55167	broad.mit.edu	37	chr3	135870724	135870724	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctattcaattttgctatcttCggagttgctgctgtacatga	8	17	8	8	1	2	1	1	1	1	0	3	2	2	2	0	1	4	5	0	1	4	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:135870724C>T	uc003eqx.1	-	2	1732	c.999G>A	c.(997-999)CCG>CCA	p.P333P	MSL2_uc011bmb.1_Silent_p.P259P	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	333					histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						TTGCTATCTTCGGAGTTGCTG	0.438													23	70					0	0	1	0	0		T	135870724	T	T	135870724	2	4	84	1	0	0	0	0	0	0	0	1	9896	871	31	1		1	MSL2	3	135870724	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2223447	135870724	62151706	314	52157											
PRR23B	389151	broad.mit.edu	37	chr3	138739311	138739311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacgcagggcacagcccgCggccaggaccactatggagg	10	2	14	15	3	0	0	0	0	0	0	0	2	0	2	3	5	1	2	3	5	1	1	rs149871263		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:138739311C>T	uc003esy.1	-	1	458	c.193G>A	c.(193-195)GCG>ACG	p.A65T		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	65										breast(1)	1						GCACAGCCCGCGGCCAGGACC	0.726													7	29					0	0	1	0	0		T	138739311	T	T	138739311	3	4	84	1	0	0	0	0	1	0	0	0	12617	768	27	1	608	1	PRR23B	3	138739311	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2868587	138739311	59283119	315	52158											
CLSTN2	64084	broad.mit.edu	37	chr3	140282845	140282845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcatcatcatctccgtgtGcatgcttgtgtttgtcgtgg	4	16	12	9	2	4	0	3	0	1	0	6	0	4	0	1	2	2	3	1	2	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:140282845G>A	uc003etn.2	+	16	2715	c.2525G>A	c.(2524-2526)TGC>TAC	p.C842Y		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	842	Helical; (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						ATCTCCGTGTGCATGCTTGTG	0.532										HNSCC(16;0.037)			64	149					0	0	1	0	0		A	140282845	A	A	140282845	3	1	84	1	0	0	0	0	1	0	0	0	3565	1319	46	2	2587	2	CLSTN2	3	140282845	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1543534	140282845	57739585	316	52159											
XRN1	54464	broad.mit.edu	37	chr3	142075828	142075828	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaaactgatgaacttgAgctatgttgatgtacagctg	13	11	12	5	0	0	5	0	4	0	1	0	6	0	6	0	1	5	4	0	1	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:142075828A>G	uc003eus.2	-	31	3665	c.3598T>C	c.(3598-3600)TCA>CCA	p.S1200P	XRN1_uc010huu.2_Missense_Mutation_p.S666P|XRN1_uc003eut.2_Missense_Mutation_p.S1200P|XRN1_uc003euu.2_Missense_Mutation_p.S1200P	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	1200					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						GATGAACTTGAGCTATGTTGA	0.448													11	33					0	0	1	0	0		G	142075828	G	G	142075828	3	3	84	1	0	0	0	0	1	0	0	0	17485	304	11	3	1570	3	XRN1	3	142075828	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1792983	142075828	55946602	317	52160											
TRPC1	7220	broad.mit.edu	37	chr3	142443499	142443499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgccgaacgaggtgatggCgctgaaggatgtgcgggagg	8	6	19	8	5	0	2	0	2	0	0	1	6	0	4	1	5	2	1	1	5	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:142443499C>T	uc003evc.2	+	1	234	c.98C>T	c.(97-99)GCG>GTG	p.A33V	TRPC1_uc003evb.2_Missense_Mutation_p.A33V	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	33	Cytoplasmic (Potential).				axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						GAGGTGATGGCGCTGAAGGAT	0.483													10	32					0	0	1	0	0		T	142443499	T	T	142443499	3	4	84	1	0	0	0	0	1	0	0	0	16604	768	27	1	100	1	TRPC1	3	142443499	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	367671	142443499	55578931	318	52161											
ZIC4	84107	broad.mit.edu	37	chr3	147113965	147113965	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctgtttgatgggctggCgcatgtagcggaagaaagcg	8	9	16	8	3	0	2	0	1	0	1	1	3	1	3	1	3	2	5	1	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:147113965C>T	uc003ewd.1	-	3	635	c.362G>A	c.(361-363)CGC>CAC	p.R121H	ZIC4_uc003ewc.1_Missense_Mutation_p.R51H|ZIC4_uc011bno.1_Missense_Mutation_p.R171H	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	121						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						GATGGGCTGGCGCATGTAGCG	0.657													27	41					0	0	1	0	0		T	147113965	T	T	147113965	3	4	84	1	0	0	0	0	1	0	0	0	17706	768	27	1	654	1	ZIC4	3	147113965	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4670466	147113965	50908465	319	52162											
C3orf33	285315	broad.mit.edu	37	chr3	155485443	155485443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccaacttaaccagcaaaGcaccacgtggctcttctaaa	14	7	6	14	1	2	0	0	0	2	0	2	0	2	0	3	1	5	3	3	1	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:155485443G>A	uc003fal.1	-	5	479	c.209C>T	c.(208-210)GCT>GTT	p.A70V	C3orf33_uc003fam.1_Missense_Mutation_p.A113V	NM_173657	NP_775928	Q96NB5	Q96NB5_HUMAN	hypothetical protein LOC285315	70							hydrolase activity, acting on ester bonds|nucleic acid binding				0			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			AACCAGCAAAGCACCACGTGG	0.418													3	12					0	0	1	0	0		A	155485443	A	A	155485443	3	1	84	1	0	0	0	0	1	0	0	0	2226	971	34	2	554	2	C3orf33	3	155485443	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	8371478	155485443	42536987	320	52163											
GFM1	85476	broad.mit.edu	37	chr3	158363985	158363985	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatggagttggtgctgtcaTggattccatggaactagaga	11	11	14	5	0	1	2	1	0	0	2	2	6	2	5	1	4	2	2	1	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:158363985T>C	uc003fce.2	+	3	373	c.266T>C	c.(265-267)ATG>ACG	p.M89T	GFM1_uc003fcd.2_Missense_Mutation_p.M89T|GFM1_uc003fcf.2_RNA|GFM1_uc003fcg.2_Missense_Mutation_p.M1T	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor	89					mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			GGTGCTGTCATGGATTCCATG	0.403													26	72					0	0	1	0	0		C	158363985	C	C	158363985	3	2	84	1	0	0	0	0	1	0	0	0	6356	1464	51	3	276	3	GFM1	3	158363985	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2878542	158363985	39658445	321	52164											
LRRC31	79782	broad.mit.edu	37	chr3	169579523	169579523	+	Frame_Shift_Del	DEL	T	-	-																															ctagacacttgttgacagccTttttgcccagcttctgcagg																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:169579523delT	uc003fgc.1	-	2	331	c.254delA	c.(253-255)AAGfs	p.K85fs	LRRC31_uc010hwp.1_Frame_Shift_Del_p.K85fs	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	85										ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			GTTGACAGCCTTTTTGCCCAG	0.408													54	122	---	---	---	---						.	-	169579523	-	-	169579523	7	5	84	1	0	1	0	1	0	0	0	0	9004	1609	56	0	1436	0	LRRC31	3	169579523	Frame_Shift_Del	DEL	T	TCGA-BR-8591-01A-11D-2394-08	11215538	169579523	28442907	322	52165											
NAALADL2	254827	broad.mit.edu	37	chr3	174974311	174974311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattaggaaaattgccactgCtttataaggttggtccagtg	12	13	10	6	0	0	0	0	0	0	0	1	1	1	1	2	3	2	2	2	3	6	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:174974311C>T	uc003fit.2	+	4	1018	c.931C>T	c.(931-933)CTT>TTT	p.L311F	NAALADL2_uc003fiu.1_Missense_Mutation_p.L304F|NAALADL2_uc010hwy.1_Missense_Mutation_p.L133F|NAALADL2_uc010hwz.1_5'UTR	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	311	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		ATTGCCACTGCTTTATAAGGT	0.358													12	26					0	0	1	0	0		T	174974311	T	T	174974311	3	4	84	1	0	0	0	0	1	0	0	0	10148	797	28	2	945	2	NAALADL2	3	174974311	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5394788	174974311	23048119	323	52166											
PIK3CA	5290	broad.mit.edu	37	chr3	178916876	178916876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attttttgatgaaacaagacGactttgtgaccttcggcttt	10	16	8	7	2	0	4	0	3	0	1	1	5	0	4	1	1	1	1	1	1	2	6	rs121913287		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:178916876G>A	uc003fjk.2	+	2	420	c.263G>A	c.(262-264)CGA>CAA	p.R88Q		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	88	PI3K-ABD.		R -> Q (in cancer; may disrupt the interaction between the PI3K-ABD domain and the N-terminal lobe of PI3K/PI4K kinase domain possibly affecting the conformation of the kinase domain).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.R88Q(26)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GAAACAAGACGACTTTGTGAC	0.363	R88Q(SKUT1_SOFT_TISSUE)|R88Q(JHUEM1_ENDOMETRIUM)|R88Q(SNGM_ENDOMETRIUM)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			28	82					0	0	1	0	0		A	178916876	A	A	178916876	3	1	84	1	0	0	0	0	1	0	0	0	11932	1058	37	1	265	1	PIK3CA	3	178916876	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3942565	178916876	19105554	324	52167											
PIK3CA	5290	broad.mit.edu	37	chr3	178922363	178922363	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacactcaaagagtacctTgttccaatcccaggtaagga	14	9	8	10	0	1	2	1	1	0	1	3	3	3	3	3	2	2	3	3	2	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:178922363T>C	uc003fjk.2	+	6	1289	c.1132T>C	c.(1132-1134)TGT>CGT	p.C378R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	378	C2 PI3K-type.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.C378R(3)|p.C378F(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AAGAGTACCTTGTTCCAATCC	0.308		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			23	58					0	0	1	0	0		C	178922363	C	C	178922363	3	2	84	1	0	0	0	0	1	0	0	0	11932	1812	63	3	1150	3	PIK3CA	3	178922363	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	5487	178922363	19100067	325	52168											
USP13	8975	broad.mit.edu	37	chr3	179408081	179408081	+	Frame_Shift_Del	DEL	T	-	-																															aaaaaggaggaattccaagaTttttttaggtaaatagttat																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:179408081delT	uc003fkh.2	+	3	428	c.347delT	c.(346-348)ATTfs	p.I116fs	USP13_uc003fkf.2_Frame_Shift_Del_p.I116fs	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	116					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			AATTCCAAGATTTTTTTAGGT	0.353													15	29	---	---	---	---						.	-	179408081	-	-	179408081	7	5	84	1	0	1	0	1	0	0	0	0	17070	1493	52	0	357	0	USP13	3	179408081	Frame_Shift_Del	DEL	T	TCGA-BR-8591-01A-11D-2394-08	485718	179408081	18614349	326	52169											
PSMD2	5708	broad.mit.edu	37	chr3	184026652	184026652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaaggttttgttatccttCggaagaaccccaattatgat	11	14	9	7	1	0	2	0	1	0	1	2	4	1	4	3	3	1	2	3	3	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:184026652C>T	uc003fnn.1	+	21	2734	c.2701C>T	c.(2701-2703)CGG>TGG	p.R901W	PSMD2_uc011brj.1_Missense_Mutation_p.R742W|PSMD2_uc011brk.1_Missense_Mutation_p.R771W	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	901				LRKNPNYDL -> FGRTPIMISK (in Ref. 3 and 4).	anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	TGTTATCCTTCGGAAGAACCC	0.532											OREG0015948	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	118					0	0	1	0	0		T	184026652	T	T	184026652	3	4	84	1	0	0	0	0	1	0	0	0	12720	875	31	1	2783	1	PSMD2	3	184026652	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4618571	184026652	13995778	327	52170											
EIF4G1	1981	broad.mit.edu	37	chr3	184043072	184043072	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctagccccgaatggatcagTatttcaaccagatggaaaaa	15	8	8	10	1	2	1	2	0	0	1	2	4	2	3	4	2	2	1	4	2	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:184043072T>C	uc003fnp.2	+	19	3070	c.2872T>C	c.(2872-2874)TAT>CAT	p.Y958H	EIF4G1_uc003fno.1_Missense_Mutation_p.Y899H|EIF4G1_uc010hxw.1_Missense_Mutation_p.Y794H|EIF4G1_uc003fnt.2_Missense_Mutation_p.Y669H|EIF4G1_uc003fnq.2_Missense_Mutation_p.Y871H|EIF4G1_uc003fnr.2_Missense_Mutation_p.Y794H|EIF4G1_uc010hxx.2_Missense_Mutation_p.Y965H|EIF4G1_uc003fns.2_Missense_Mutation_p.Y918H|EIF4G1_uc010hxy.2_Missense_Mutation_p.Y965H|EIF4G1_uc003fnv.3_Missense_Mutation_p.Y959H|EIF4G1_uc003fnu.3_Missense_Mutation_p.Y958H|EIF4G1_uc003fnw.2_Missense_Mutation_p.Y965H|EIF4G1_uc003fnx.2_Missense_Mutation_p.Y763H|EIF4G1_uc003fny.3_Missense_Mutation_p.Y762H|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	958	eIF3/EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AATGGATCAGTATTTCAACCA	0.532													27	86					0	0	1	0	0		C	184043072	C	C	184043072	3	2	84	1	0	0	0	0	1	0	0	0	5044	1638	57	3	2938	3	EIF4G1	3	184043072	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	16420	184043072	13979358	328	52171											
MUC4	4585	broad.mit.edu	37	chr3	195488973	195488973	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacccaggagcccctccgTgcggttctggtactcgggcg	4	8	13	16	4	2	0	1	0	1	0	4	1	3	1	4	4	3	2	4	4	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:195488973T>C	uc011bto.1	-	15	14573	c.14113A>G	c.(14113-14115)ACG>GCG	p.T4705A	MUC4_uc003fuz.2_Missense_Mutation_p.T431A|MUC4_uc003fva.2_Missense_Mutation_p.T313A|MUC4_uc003fvb.2_Missense_Mutation_p.T349A|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.T349A|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.T313A|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.T397A|MUC4_uc011bti.1_Missense_Mutation_p.T397A|MUC4_uc011btj.1_Missense_Mutation_p.T574A|MUC4_uc011btk.1_Missense_Mutation_p.T313A|MUC4_uc011btl.1_Missense_Mutation_p.T342A|MUC4_uc011btm.1_Missense_Mutation_p.T522A|MUC4_uc011btn.1_Missense_Mutation_p.T313A|MUC4_uc003fvo.2_Missense_Mutation_p.T597A|MUC4_uc003fvp.2_Missense_Mutation_p.T546A	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1590	VWFD.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGCCCCTCCGTGCGGTTCTGG	0.746													7	8					0	0	1	0	0		C	195488973	C	C	195488973	3	2	84	1	0	0	0	0	1	0	0	0	9996	1696	59	3	1789	3	MUC4	3	195488973	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	11445901	195488973	2533457	329	52172											
WDR53	348793	broad.mit.edu	37	chr3	196287913	196287913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctgaggcctctgaggcCgaaaagccactgaggagcag	10	5	15	11	1	2	3	0	3	2	0	2	5	2	4	3	4	2	2	3	4	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:196287913C>T	uc003fwt.2	-	3	905	c.434G>A	c.(433-435)CGG>CAG	p.R145Q		NM_182627	NP_872433	Q7Z5U6	WDR53_HUMAN	WD repeat domain 53	145	WD 3.									breast(1)|skin(1)	2	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.6e-23)|all cancers(36;1.54e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.29e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		CCTCTGAGGCCGAAAAGCCAC	0.468													27	58					0	0	1	0	0		T	196287913	T	T	196287913	3	4	84	1	0	0	0	0	1	0	0	0	17331	652	23	1	650	1	WDR53	3	196287913	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	798940	196287913	1734517	330	52173											
LRRC33	375387	broad.mit.edu	37	chr3	196386986	196386986	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgctccagaacctctccTcgctgcggtccgtgtccctg	4	11	9	17	3	2	1	1	0	1	1	7	1	5	1	5	1	3	2	5	1	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr3:196386986T>C	uc003fwv.2	+	3	576	c.472T>C	c.(472-474)TCG>CCG	p.S158P		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	158	Extracellular (Potential).|LRR 5.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		GAACCTCTCCTCGCTGCGGTC	0.677													17	49					0	0	1	0	0		C	196386986	C	C	196386986	3	2	84	1	0	0	0	0	1	0	0	0	9006	1551	54	3	478	3	LRRC33	3	196386986	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	99073	196386986	1635444	331	52174											
MFSD7	84179	broad.mit.edu	37	chr4	676598	676598	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaagtggatcctccccctgCtggcaggtggacaaggacgg	8	7	14	12	1	1	0	1	0	0	0	3	3	3	3	3	6	1	2	3	6	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:676598C>T	uc003gay.2	-	9	1293	c.1236G>A	c.(1234-1236)CAG>CAA	p.Q412Q	MFSD7_uc003gaw.2_Silent_p.Q154Q|MFSD7_uc003gax.2_Silent_p.Q411Q|MFSD7_uc003gaz.2_Silent_p.Q293Q|MFSD7_uc003gba.2_Silent_p.Q315Q|MFSD7_uc003gbb.1_Silent_p.Q347Q	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	412					transmembrane transport	integral to membrane					0						CCTCCCCCTGCTGGCAGGTGG	0.627													6	16					0	0	1	0	0		T	676598	T	T	676598	2	4	84	1	0	0	0	0	0	0	0	1	9555	796	28	2		2	MFSD7	4	676598	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08		676598	190477678	332	52175											
GAK	2580	broad.mit.edu	37	chr4	875753	875753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctgaacatgtacacggCggcctccgcggtgctgaaga	9	7	13	12	4	0	3	0	2	0	1	1	3	1	3	2	3	4	3	2	3	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:875753C>T	uc003gbm.3	-	15	1802	c.1603G>A	c.(1603-1605)GCC>ACC	p.A535T	GAK_uc003gbn.3_Missense_Mutation_p.A456T|GAK_uc010ibk.1_Missense_Mutation_p.A429T|GAK_uc003gbl.3_Missense_Mutation_p.A399T	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	535	Phosphatase tensin-type.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		ATGTACACGGCGGCCTCCGCG	0.647													7	15					0	0	1	0	0		T	875753	T	T	875753	3	4	84	1	0	0	0	0	1	0	0	0	6210	768	27	1	2388	1	GAK	4	875753	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	199155	875753	190278523	333	52176											
DGKQ	1609	broad.mit.edu	37	chr4	954870	954870	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagatgatcatgtgcccCggggcctggacccagggctc	6	7	15	13	1	1	2	1	2	0	1	2	4	1	3	4	4	1	2	4	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:954870C>T	uc003gbw.2	-	22	2768	c.2694G>A	c.(2692-2694)CCG>CCA	p.P898P	DGKQ_uc010ibn.2_Silent_p.P885P	NM_001347	NP_001338	P52824	DGKQ_HUMAN	diacylglycerol kinase, theta	898					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|platelet activation|protein kinase C signaling cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to ATP|thrombin receptor signaling pathway	cytoskeleton|cytosol|nuclear speck|plasma membrane	activating transcription factor binding|ATP binding|diacylglycerol kinase activity|kinase binding|metal ion binding|phospholipase binding			kidney(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			TCATGTGCCCCGGGGCCTGGA	0.687													20	48					0	0	1	0	0		T	954870	T	T	954870	2	4	84	1	0	0	0	0	0	0	0	1	4479	639	23	1		1	DGKQ	4	954870	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	79117	954870	190199406	334	52177											
IDUA	3425	broad.mit.edu	37	chr4	995599	995599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggcctcctgcgccactGccacgacggtaccaacttct	6	8	10	17	3	1	0	0	0	1	0	2	1	2	0	5	3	4	1	5	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:995599G>A	uc003gby.2	+	6	810	c.722G>A	c.(721-723)TGC>TAC	p.C241Y	IDUA_uc003gbz.2_RNA|IDUA_uc003gca.2_Missense_Mutation_p.C194Y	NM_000203	NP_000194	P35475	IDUA_HUMAN	alpha-L-iduronidase precursor	241					disaccharide metabolic process	lysosome	cation binding|L-iduronidase activity				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)		Laronidase(DB00090)	CTGCGCCACTGCCACGACGGT	0.736													3	18					0	0	1	0	0		A	995599	A	A	995599	3	1	84	1	0	0	0	0	1	0	0	0	7520	1319	46	2	744	2	IDUA	4	995599	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	40729	995599	190158677	335	52178											
RNF212	285498	broad.mit.edu	37	chr4	1075367	1075368	+	Frame_Shift_Del	DEL	TT	-	-																															ttacttacttgaaactgaacTttttattgtgctgaaagctg																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:1075367_1075368delTT	uc003gcj.2	-	6	732_733	c.402_403delAA	c.(400-405)AAAAGTfs	p.K134fs	RNF212_uc003gch.2_5'UTR|RNF212_uc003gci.2_Frame_Shift_Del_p.K134fs|RNF212_uc010ibp.2_Intron|RNF212_uc010ibq.2_Intron	NM_001131034	NP_001124506	Q495C1	RN212_HUMAN	ring finger protein 212 isoform a	134_135							zinc ion binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0179)	UCEC - Uterine corpus endometrioid carcinoma (64;0.151)		GAAACTGAACTTTTTATTGTGC	0.371													20	44	---	---	---	---						.	-	1075368	-	-	1075367	7	5	84	1	0	1	0	1	0	0	0	0	13501	1609	56	0	510	0	RNF212	4	1075367	Frame_Shift_Del	DEL	TT	TCGA-BR-8591-01A-11D-2394-08	79768	1075367	190078909	336	52179											
CTBP1	1487	broad.mit.edu	37	chr4	1207322	1207322	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcatctcgatggatgccTgctcgctgtaccatgcagca	7	10	10	14	3	1	0	0	0	1	0	4	2	1	1	2	1	5	6	2	1	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:1207322T>C	uc003gcv.1	-	7	1130	c.965A>G	c.(964-966)CAG>CGG	p.Q322R	uc003gcs.1_Intron|CTBP1_uc003gct.1_Missense_Mutation_p.Q303R|CTBP1_uc003gcu.1_Missense_Mutation_p.Q311R|CTBP1_uc003gcw.2_5'UTR	NM_001328	NP_001319	Q13363	CTBP1_HUMAN	C-terminal binding protein 1 isoform 1	322	Interaction with GLIS2 2 (By similarity).				interspecies interaction between organisms|negative regulation of cell proliferation|negative regulation of histone H4 acetylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone deacetylation|protein phosphorylation|regulation of cell cycle|regulation of transcription by chromatin organization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|viral genome replication|white fat cell differentiation	cytoplasm|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein C-terminus binding|protein domain specific binding|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00818)	Colorectal(103;0.2)		GATGGATGCCTGCTCGCTGTA	0.647													20	67					0	0	1	0	0		C	1207322	C	C	1207322	3	2	84	1	0	0	0	0	1	0	0	0	4000	1580	55	3	369	3	CTBP1	4	1207322	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	131955	1207322	189946954	337	52180											
MAEA	10296	broad.mit.edu	37	chr4	1326598	1326598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccagctggacgaggtgcGccaggccatgggcatgctgg	7	5	18	11	2	0	0	0	0	0	0	0	3	0	1	3	5	4	3	3	5	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:1326598G>A	uc003gda.2	+	6	740	c.710G>A	c.(709-711)CGC>CAC	p.R237H	MAEA_uc003gdb.2_Missense_Mutation_p.R196H|MAEA_uc011bvb.1_Missense_Mutation_p.R169H|MAEA_uc003gdc.2_Silent_p.A170A|MAEA_uc003gdd.2_RNA|MAEA_uc011bvc.1_Missense_Mutation_p.R236H|MAEA_uc011bvd.1_Missense_Mutation_p.R189H|MAEA_uc010ibt.2_Intron|MAEA_uc010ibu.2_RNA	NM_001017405	NP_001017405	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher isoform 1	237					cell adhesion|cell cycle|cell division|erythrocyte maturation|negative regulation of myeloid cell apoptosis|regulation of mitotic cell cycle	actomyosin contractile ring|integral to plasma membrane|membrane fraction|nuclear matrix|spindle	actin binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0201)			GACGAGGTGCGCCAGGCCATG	0.547													11	35					0	0	1	0	0		A	1326598	A	A	1326598	3	1	84	1	0	0	0	0	1	0	0	0	9171	1087	38	1	732	1	MAEA	4	1326598	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	119276	1326598	189827678	338	52181											
CRIPAK	285464	broad.mit.edu	37	chr4	1388615	1388615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgcccatgtggagtgccCgcctgctcacgtgcccatgt	5	9	12	15	3	1	0	1	0	0	0	1	1	1	1	4	1	4	1	4	1	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:1388615C>T	uc003gdf.2	+	1	3276	c.316C>T	c.(316-318)CGC>TGC	p.R106C		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	106	2.				ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			GTGGAGTGCCCGCCTGCTCAC	0.667													156	206					0	0	1	0	0		T	1388615	T	T	1388615	3	4	84	1	0	0	0	0	1	0	0	0	3880	652	23	1	318	1	CRIPAK	4	1388615	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	62017	1388615	189765661	339	52182											
LETM1	3954	broad.mit.edu	37	chr4	1843251	1843251	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcgggggggctgtacacCgggccgccttcctccagctt	3	9	14	15	3	1	0	0	0	1	0	3	0	3	0	5	4	3	3	5	4	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:1843251C>T	uc003gdv.2	-	3	714	c.417G>A	c.(415-417)CCG>CCA	p.P139P	LETM1_uc010icc.2_5'Flank|LETM1_uc011bvg.1_Silent_p.P139P	NM_012318	NP_036450	O95202	LETM1_HUMAN	leucine zipper-EF-hand containing transmembrane	139	Mitochondrial intermembrane (Potential).				cristae formation	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			central_nervous_system(1)	1			all cancers(2;0.00756)|OV - Ovarian serous cystadenocarcinoma(23;0.00989)|Epithelial(3;0.0141)			GGCTGTACACCGGGCCGCCTT	0.607													18	54					0	0	1	0	0		T	1843251	T	T	1843251	2	4	84	1	0	0	0	0	0	0	0	1	8750	639	23	1		1	LETM1	4	1843251	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	454636	1843251	189311025	340	52183											
WHSC1	7468	broad.mit.edu	37	chr4	1980533	1980533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatgacttaggggcggcatCggtcagaagcaccaagactg	11	6	14	10	2	1	3	1	1	0	2	2	3	1	3	1	4	1	3	1	4	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:1980533C>T	uc003gdz.3	+	22	4171	c.3995C>T	c.(3994-3996)TCG>TTG	p.S1332L	WHSC1_uc003geb.3_Missense_Mutation_p.S1332L|WHSC1_uc003gec.3_Missense_Mutation_p.S1332L|WHSC1_uc003ged.3_Missense_Mutation_p.S1332L|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gei.3_Missense_Mutation_p.S551L|WHSC1_uc011bvh.1_Missense_Mutation_p.S393L|WHSC1_uc010icf.2_Missense_Mutation_p.S680L	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	1332					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		GGGGCGGCATCGGTCAGAAGC	0.647			T	IGH@	MM								21	39					0	0	1	0	0		T	1980533	T	T	1980533	3	4	84	1	0	0	0	0	1	0	0	0	17388	893	31	1	4153	1	WHSC1	4	1980533	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	137282	1980533	189173743	341	52184											
NOP14	8602	broad.mit.edu	37	chr4	2943337	2943337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgggtggctgcagtccGccaggtgatccgtgaggagg	5	7	18	11	3	0	2	0	2	0	0	2	3	2	3	4	5	2	2	4	5	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:2943337G>A	uc003ggj.1	-	15	2243	c.2171C>T	c.(2170-2172)GCG>GTG	p.A724V	C4orf10_uc003ggd.1_RNA|C4orf10_uc003gge.1_Intron|C4orf10_uc003ggg.1_RNA|C4orf10_uc003ggh.2_Intron|C4orf10_uc003ggi.1_Intron|NOP14_uc010icp.2_Intron|NOP14_uc003ggk.3_Missense_Mutation_p.A724V|NOP14_uc003ggl.2_Missense_Mutation_p.A724V	NM_003703	NP_003694	P78316	NOP14_HUMAN	probable nucleolar complex protein 14	724					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	mitochondrion|Noc4p-Nop14p complex|small-subunit processome	snoRNA binding			pancreas(1)	1						GCTGCAGTCCGCCAGGTGATC	0.672													7	24					0	0	1	0	0		A	2943337	A	A	2943337	3	1	84	1	0	0	0	0	1	0	0	0	10555	1087	38	1	418	1	NOP14	4	2943337	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	962804	2943337	188210939	342	52185											
HTT	3064	broad.mit.edu	37	chr4	3219644	3219644	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcatcagcctggcccgcctgCcccttgtcaacagctacaca	8	8	7	18	1	3	0	3	0	0	0	3	0	3	0	5	1	5	1	5	1	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:3219644C>G	uc011bvq.1	+	53	7358	c.7213C>G	c.(7213-7215)CCC>GCC	p.P2405A		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2403	Nuclear export signal (By similarity).				establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GGCCCGCCTGCCCCTTGTCAA	0.587													18	106					0	0	1	0	0		G	3219644	G	G	3219644	3	3	84	1	0	0	0	0	1	0	0	0	7473	739	26	5	7413	5	HTT	4	3219644	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	276307	3219644	187934632	343	52186											
HGFAC	3083	broad.mit.edu	37	chr4	3449296	3449296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggacgtgacgcagaccttcgGcatcgagaagtacatcccgt	10	7	12	12	5	0	3	0	1	0	2	3	5	1	4	2	2	1	3	2	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:3449296G>A	uc003ghc.2	+	11	1436	c.1433G>A	c.(1432-1434)GGC>GAC	p.G478D	HGFAC_uc010icw.2_Missense_Mutation_p.G485D	NM_001528	NP_001519	Q04756	HGFA_HUMAN	HGF activator preproprotein	478	Peptidase S1.				proteolysis	extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(2)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		CAGACCTTCGGCATCGAGAAG	0.652													115	308					0	0	1	0	0		A	3449296	A	A	3449296	3	1	84	1	0	0	0	0	1	0	0	0	7102	1203	42	2	1475	2	HGFAC	4	3449296	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	229652	3449296	187704980	344	52187											
EVC	2121	broad.mit.edu	37	chr4	5733332	5733332	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgatgacaggtttctcAgccgcaccttcctccgggtg	6	9	11	15	3	1	1	1	1	1	0	4	2	3	1	5	2	2	2	5	2	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:5733332A>G	uc003gil.1	+	4	749	c.565A>G	c.(565-567)AGC>GGC	p.S189G	EVC_uc003gim.1_RNA	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	189					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				CAGGTTTCTCAGCCGCACCTT	0.617													25	68					0	0	1	0	0		G	5733332	G	G	5733332	3	3	84	1	0	0	0	0	1	0	0	0	5293	188	7	3	579	3	EVC	4	5733332	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2284036	5733332	185420944	345	52188											
MAN2B2	23324	broad.mit.edu	37	chr4	6599929	6599929	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggttgctgcaggtccAgcaccatgatgccatcactg	7	9	13	12	0	1	1	1	1	0	0	2	1	2	1	3	3	4	4	3	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:6599929A>G	uc003gjf.1	+	9	1289	c.1253A>G	c.(1252-1254)CAG>CGG	p.Q418R	MAN2B2_uc003gje.1_Missense_Mutation_p.Q418R|MAN2B2_uc011bwf.1_Missense_Mutation_p.Q367R	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	418					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						CTGCAGGTCCAGCACCATGAT	0.602													32	85					0	0	1	0	0		G	6599929	G	G	6599929	3	3	84	1	0	0	0	0	1	0	0	0	9235	188	7	3	1287	3	MAN2B2	4	6599929	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	866597	6599929	184554347	346	52189											
ACOX3	8310	broad.mit.edu	37	chr4	8401375	8401375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaccttgtggaacatggCgaaactgtggggaagcagca	11	8	14	8	1	1	1	0	1	1	0	1	4	1	3	1	4	4	2	1	4	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:8401375C>T	uc010idk.2	-	8	926	c.781G>A	c.(781-783)GCC>ACC	p.A261T	ACOX3_uc003glc.3_Missense_Mutation_p.A261T|ACOX3_uc003gld.3_Missense_Mutation_p.A261T|ACOX3_uc003gle.1_Missense_Mutation_p.A166T	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	261					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						TGGAACATGGCGAAACTGTGG	0.577													15	64					0	0	1	0	0		T	8401375	T	T	8401375	3	4	84	1	0	0	0	0	1	0	0	0	160	768	27	1	1365	1	ACOX3	4	8401375	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1801446	8401375	182752901	347	52190											
NKX3-2	579	broad.mit.edu	37	chr4	13545772	13545772	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggagtccgagtcccagccTtccgggctctccgcagtccg	4	7	13	17	5	1	0	0	0	1	0	6	2	5	1	6	2	1	2	6	2	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:13545772T>C	uc003gmx.2	-	1	343	c.267A>G	c.(265-267)GAA>GAG	p.E89E		NM_001189	NP_001180	P78367	NKX32_HUMAN	NK3 homeobox 2	89					negative regulation of chondrocyte differentiation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGTCCCAGCCTTCCGGGCTCT	0.562													9	11					0	0	1	0	0		C	13545772	C	C	13545772	2	2	84	1	0	0	0	0	0	0	0	1	10475	1606	56	3		3	NKX3-2	4	13545772	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	5144397	13545772	177608504	348	52191											
BOD1L	259282	broad.mit.edu	37	chr4	13602317	13602317	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtggaaataatcaaaacTttgccttgatttttaccccc	11	14	6	10	0	1	1	1	1	0	0	1	2	1	2	3	2	3	0	3	2	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:13602317T>G	uc003gmz.1	-	10	6324	c.6207A>C	c.(6205-6207)AAA>AAC	p.K2069N	BOD1L_uc010idr.1_Missense_Mutation_p.K1406N	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2069							DNA binding			ovary(5)|breast(1)	6						TAATCAAAACTTTGCCTTGAT	0.438													6	35					0	0	1	0	0		G	13602317	G	G	13602317	3	3	84	1	0	0	0	0	1	0	0	0	1484	1606	56	5	3016	5	BOD1L	4	13602317	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	56545	13602317	177551959	349	52192											
CCKAR	886	broad.mit.edu	37	chr4	26483341	26483341	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtcccgccttcctcctcCtcccccacctctcccctcgc	1	10	5	25	2	1	0	0	0	1	0	8	0	6	0	10	1	0	0	10	1	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:26483341C>A	uc003gse.1	-	5	1359	c.1206G>T	c.(1204-1206)GAG>GAT	p.E402D		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	402	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	CTTCCTCCTCCTCCCCCACCT	0.632													36	98					1.90571e-15	2.1051e-15	1	1	0		A	26483341	A	A	26483341	3	1	84	1	0	0	0	0	1	0	0	0	2883	680	24	5	84	5	CCKAR	4	26483341	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	12881024	26483341	164670935	350	52193											
PCDH7	5099	broad.mit.edu	37	chr4	30724208	30724208	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttcacggtcatggcccgCgaccgcgggcagccccccaa	6	4	12	19	6	2	0	2	0	0	0	2	1	2	0	5	3	1	2	5	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:30724208C>T	uc003gsk.1	+	1	2172	c.1164C>T	c.(1162-1164)CGC>CGT	p.R388R	PCDH7_uc011bxw.1_Silent_p.R341R|PCDH7_uc011bxx.1_Silent_p.R388R	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	388	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						TCATGGCCCGCGACCGCGGGC	0.647													13	52					0	0	1	0	0		T	30724208	T	T	30724208	2	4	84	1	0	0	0	0	0	0	0	1	11535	755	27	1		1	PCDH7	4	30724208	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4240867	30724208	160430068	351	52194											
WDR19	57728	broad.mit.edu	37	chr4	39246134	39246134	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgaaaaaggtctctactaCgataaagcagcatctgttta	15	12	7	7	1	2	1	0	1	2	0	3	2	2	1	0	1	4	3	0	1	8	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:39246134C>T	uc003gtv.2	+	23	2761	c.2607C>T	c.(2605-2607)TAC>TAT	p.Y869Y	WDR19_uc011byi.1_Silent_p.Y709Y|WDR19_uc003gtw.1_Silent_p.Y466Y	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19	869	TPR 3.				cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1						GTCTCTACTACGATAAAGCAG	0.388													21	69					0	0	1	0	0		T	39246134	T	T	39246134	2	4	84	1	0	0	0	0	0	0	0	1	17305	547	19	1		1	WDR19	4	39246134	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	8521926	39246134	151908142	352	52195											
UGDH	7358	broad.mit.edu	37	chr4	39511480	39511480	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgcttcacacagagcactTatggagttaatgctgcttat	10	14	9	8	0	1	1	1	0	0	1	1	2	1	2	0	1	4	6	0	1	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:39511480T>C	uc003guk.1	-	6	1027	c.711A>G	c.(709-711)ATA>ATG	p.I237M	UGDH_uc011byp.1_Missense_Mutation_p.I140M|UGDH_uc003gul.1_Missense_Mutation_p.I170M	NM_003359	NP_003350	O60701	UGDH_HUMAN	UDP-glucose dehydrogenase	237					glycosaminoglycan biosynthetic process|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	electron carrier activity|NAD binding|UDP-glucose 6-dehydrogenase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4					NADH(DB00157)	ACAGAGCACTTATGGAGTTAA	0.383													18	45					0	0	1	0	0		C	39511480	C	C	39511480	3	2	84	1	0	0	0	0	1	0	0	0	16966	1744	61	3	801	3	UGDH	4	39511480	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	265346	39511480	151642796	353	52196											
C4orf34	201895	broad.mit.edu	37	chr4	39606701	39606701	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatctcaccagattgatcAgtcttctcattgcatgttca	9	15	6	11	0	5	2	4	1	3	1	7	2	5	2	1	0	2	3	1	0	0	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:39606701A>G	uc003guo.2	-	2	223	c.65T>C	c.(64-66)CTG>CCG	p.L22P		NM_174921	NP_777581	Q96QK8	CD034_HUMAN	hypothetical protein LOC201895	22						integral to membrane	protein binding				0						CAGATTGATCAGTCTTCTCAT	0.393													11	51					0	0	1	0	0		G	39606701	G	G	39606701	3	3	84	1	0	0	0	0	1	0	0	0	2267	188	7	3	250	3	C4orf34	4	39606701	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	95221	39606701	151547575	354	52197											
ATP10D	57205	broad.mit.edu	37	chr4	47538508	47538508	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattttttcaatgttcccgAgcctgatggacatatcatat	10	15	7	9	1	2	1	2	1	0	0	3	3	3	2	2	1	1	2	2	1	3	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:47538508A>G	uc003gxk.1	+	8	1234	c.1070A>G	c.(1069-1071)GAG>GGG	p.E357G	ATP10D_uc003gxl.1_5'UTR|ATP10D_uc003gxj.3_Missense_Mutation_p.E357G	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	357	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						AATGTTCCCGAGCCTGATGGA	0.358													50	131					0	0	1	0	0		G	47538508	G	G	47538508	3	3	84	1	0	0	0	0	1	0	0	0	1119	304	11	3	1096	3	ATP10D	4	47538508	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	7931807	47538508	143615768	355	52198											
PDGFRA	5156	broad.mit.edu	37	chr4	55140717	55140717	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctgcgttctgaactcacGgtggctgctgcagtcctggt	4	11	13	13	2	2	1	1	1	1	0	3	1	3	1	2	3	4	4	2	3	1	1	rs142562038	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:55140717G>A	uc003han.3	+	11	1909	c.1578G>A	c.(1576-1578)ACG>ACA	p.T526T	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Silent_p.T420T|PDGFRA_uc003ham.2_RNA|PDGFRA_uc003hao.1_5'Flank	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	526	Helical; (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	CTGAACTCACGGTGGCTGCTG	0.473			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			26	78					0	0	1	0	0		A	55140717	A	A	55140717	2	1	84	1	0	0	0	0	0	0	0	1	11680	1103	39	1		1	PDGFRA	4	55140717	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7602209	55140717	136013559	356	52199											
KDR	3791	broad.mit.edu	37	chr4	55956190	55956190	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccaaagtcacagattttaAccacgttcttctccgataag	13	11	6	11	2	3	1	1	0	2	1	4	2	3	1	3	0	2	1	3	0	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:55956190A>G	uc003has.2	-	23	3427	c.3125T>C	c.(3124-3126)GTT>GCT	p.V1042A	KDR_uc003hat.1_Missense_Mutation_p.V1042A	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	1042	Protein kinase.|Cytoplasmic (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	ACAGATTTTAACCACGTTCTT	0.438			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			20	64					0	0	1	0	0		G	55956190	G	G	55956190	3	3	84	1	0	0	0	0	1	0	0	0	8155	43	2	3	977	3	KDR	4	55956190	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	815473	55956190	135198086	357	52200											
CEP135	9662	broad.mit.edu	37	chr4	56823491	56823491	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagttcctcaaccagatgAcccttacattgcagacctcc	10	10	5	16	0	1	3	1	1	0	2	4	3	4	3	6	0	3	2	6	0	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:56823491A>G	uc003hbi.2	+	5	809	c.575A>G	c.(574-576)GAC>GGC	p.D192G	CEP135_uc003hbh.1_Missense_Mutation_p.D192G|CEP135_uc010igz.1_Missense_Mutation_p.D22G	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	192					centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					CAACCAGATGACCCTTACATT	0.408													24	64					0	0	1	0	0		G	56823491	G	G	56823491	3	3	84	1	0	0	0	0	1	0	0	0	3250	275	10	3	589	3	CEP135	4	56823491	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	867301	56823491	134330785	358	52201											
KIAA1211	57482	broad.mit.edu	37	chr4	57182056	57182056	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatttgccaaagacctcccGtctttccttgtcccaagcct	9	12	5	15	1	1	1	0	0	1	1	4	1	4	1	6	0	2	0	6	0	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:57182056G>A	uc003hbk.2	+	8	2779	c.2388G>A	c.(2386-2388)CCG>CCA	p.P796P	KIAA1211_uc010iha.2_Silent_p.P789P|KIAA1211_uc011bzz.1_Silent_p.P706P|KIAA1211_uc003hbm.1_Silent_p.P682P	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	796										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					AAGACCTCCCGTCTTTCCTTG	0.597													28	82					0	0	1	0	0		A	57182056	A	A	57182056	2	1	84	1	0	0	0	0	0	0	0	1	8231	1132	40	1		1	KIAA1211	4	57182056	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	358565	57182056	133972220	359	52202											
REST	5978	broad.mit.edu	37	chr4	57798281	57798281	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcgccatttggttaatgTgtactatcttgaagaagcag	12	13	9	7	1	1	2	0	1	1	1	2	2	1	2	1	1	2	3	1	1	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:57798281T>C	uc003hch.2	+	4	3604	c.3257T>C	c.(3256-3258)GTG>GCG	p.V1086A	REST_uc003hci.2_Missense_Mutation_p.V1086A|REST_uc010ihf.2_Missense_Mutation_p.V760A	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	1086	Interaction with RCOR1.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					TTGGTTAATGTGTACTATCTT	0.358													36	68					0	0	1	0	0		C	57798281	C	C	57798281	3	2	84	1	0	0	0	0	1	0	0	0	13259	1696	59	3	3267	3	REST	4	57798281	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	616225	57798281	133355995	360	52203											
EPHA5	2044	broad.mit.edu	37	chr4	66201823	66201823	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcttggcagacgatagccTtcctctaccgctttaatcac	8	11	9	13	2	2	1	1	0	1	1	3	2	3	1	3	2	2	3	3	2	3	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:66201823T>G	uc003hcy.2	-	16	2872	c.2679A>C	c.(2677-2679)GAA>GAC	p.E893D	EPHA5_uc003hcx.2_Missense_Mutation_p.E825D|EPHA5_uc003hcz.2_Missense_Mutation_p.E871D|EPHA5_uc011cah.1_Missense_Mutation_p.E894D|EPHA5_uc011cai.1_Missense_Mutation_p.E872D|EPHA5_uc003hda.2_Missense_Mutation_p.E894D	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	893	Cytoplasmic (Potential).|Protein kinase.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						GACGATAGCCTTCCTCTACCG	0.448										TSP Lung(17;0.13)			19	47					0	0	1	0	0		G	66201823	G	G	66201823	3	3	84	1	0	0	0	0	1	0	0	0	5178	1606	56	5	446	5	EPHA5	4	66201823	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	8403542	66201823	124952453	361	52204											
CDS1	1040	broad.mit.edu	37	chr4	85525514	85525514	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaaaagctctatctggttTatcttcaaggtatgattgga	13	14	8	6	0	4	1	1	1	3	0	4	2	4	2	0	3	1	3	0	3	7	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:85525514T>C	uc011ccv.1	+	2	734	c.236T>C	c.(235-237)TTA>TCA	p.L79S		NM_001263	NP_001254	Q92903	CDS1_HUMAN	CDP-diacylglycerol synthase 1	79					signal transduction|visual perception	endoplasmic reticulum membrane|integral to membrane	diacylglycerol cholinephosphotransferase activity|phosphatidate cytidylyltransferase activity			large_intestine(2)|ovary(1)|breast(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.00101)		CTATCTGGTTTATCTTCAAGG	0.368													20	53					0	0	1	0	0		C	85525514	C	C	85525514	3	2	84	1	0	0	0	0	1	0	0	0	3180	1764	61	3	242	3	CDS1	4	85525514	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	19323691	85525514	105628762	362	52205											
WDFY3	23001	broad.mit.edu	37	chr4	85598426	85598426	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaacctcaccgagcagccTgagcagctgtcaccaccttc	11	6	8	16	1	2	1	2	1	0	0	3	3	2	1	5	0	5	3	5	0	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:85598426T>C	uc003hpd.2	-	67	10791	c.10383A>G	c.(10381-10383)TCA>TCG	p.S3461S	WDFY3_uc003hpc.2_Silent_p.S216S	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	3461	FYVE-type.					cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CCGAGCAGCCTGAGCAGCTGT	0.517													13	56					0	0	1	0	0		C	85598426	C	C	85598426	2	2	84	1	0	0	0	0	0	0	0	1	17296	1567	55	3		3	WDFY3	4	85598426	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	72912	85598426	105555850	363	52206											
HERC3	8916	broad.mit.edu	37	chr4	89571095	89571095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgttttcttggggtgcaGggagtgatggtcagctagga	7	12	17	5	0	2	1	1	1	1	0	2	3	2	3	0	5	3	4	0	5	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:89571095G>A	uc003hrw.1	+	4	497	c.331G>A	c.(331-333)GGG>AGG	p.G111R	HERC3_uc003hrv.2_Missense_Mutation_p.G111R|HERC3_uc011cdn.1_5'UTR	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	111	RCC1 3.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		TTGGGGTGCAGGGAGTGATGG	0.502													26	89					0	0	1	0	0		A	89571095	A	A	89571095	3	1	84	1	0	0	0	0	1	0	0	0	7075	1000	35	4	337	4	HERC3	4	89571095	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3972669	89571095	101583181	364	52207											
PDLIM5	10611	broad.mit.edu	37	chr4	95561601	95561601	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccattgtaaccaggtcatcaGgttggttgttttttgaaatt	9	17	9	6	0	2	1	2	1	0	0	2	1	2	1	2	3	1	4	2	3	2	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:95561601G>T	uc003hti.2	+	9	1434	c.1283G>T	c.(1282-1284)AGA>ATA	p.R428I	PDLIM5_uc011cdx.1_Missense_Mutation_p.R325I|PDLIM5_uc003hth.2_Missense_Mutation_p.R319I|PDLIM5_uc003htj.2_Missense_Mutation_p.R103I|PDLIM5_uc003htk.2_Missense_Mutation_p.R457I|PDLIM5_uc011cdy.1_Missense_Mutation_p.R306I|PDLIM5_uc003htl.2_Missense_Mutation_p.R103I	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	428	LIM zinc-binding 1.				regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		CAGGTCATCAGGTTGGTTGTT	0.383													22	85					2.32416e-17	2.59365e-17	1	1	0		T	95561601	T	T	95561601	3	4	84	1	0	0	0	0	1	0	0	0	11702	1014	35	5	1473	5	PDLIM5	4	95561601	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	5990506	95561601	95592675	365	52208											
CYP2U1	113612	broad.mit.edu	37	chr4	108871514	108871514	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggattctaagaagcccctcCtgactggaagatttggtcta	11	11	10	9	0	2	3	0	1	2	2	3	5	3	5	3	3	1	0	3	3	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:108871514C>A	uc003hyp.2	+	5	1653	c.1570C>A	c.(1570-1572)CTG>ATG	p.L524M	CYP2U1_uc011cfi.1_Missense_Mutation_p.L315M	NM_183075	NP_898898	Q7Z449	CP2U1_HUMAN	cytochrome P450, family 2, subfamily U,	524					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000128)		GAAGCCCCTCCTGACTGGAAG	0.388													6	50					0.00116845	0.00119591	1	1	0		A	108871514	A	A	108871514	3	1	84	1	0	0	0	0	1	0	0	0	4178	680	24	5	1588	5	CYP2U1	4	108871514	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	13309913	108871514	82282762	366	52209											
ALPK1	80216	broad.mit.edu	37	chr4	113352014	113352014	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttatgttcccgagagtttCgagtgcaggttggataaact	9	14	11	7	2	1	1	0	0	1	1	3	4	2	2	1	2	2	4	1	2	3	5	rs145906942		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:113352014C>T	uc003iap.3	+	11	1590	c.1311C>T	c.(1309-1311)TTC>TTT	p.F437F	ALPK1_uc003ian.3_Silent_p.F437F|ALPK1_uc011cfx.1_Silent_p.F359F|ALPK1_uc003iao.3_Intron|ALPK1_uc010imo.2_Silent_p.F265F	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	437							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		CCGAGAGTTTCGAGTGCAGGT	0.413													21	59					0	0	1	0	0		T	113352014	T	T	113352014	2	4	84	1	0	0	0	0	0	0	0	1	544	883	31	1		1	ALPK1	4	113352014	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4480500	113352014	77802262	367	52210											
ANK2	287	broad.mit.edu	37	chr4	114275552	114275552	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggacagaaaaacacccGccagtatcgcctgggagaac	14	3	13	11	2	0	2	0	0	0	2	1	5	0	4	3	3	2	1	3	3	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:114275552G>A	uc003ibe.3	+	38	5878	c.5778G>A	c.(5776-5778)CCG>CCA	p.P1926P	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_5'Flank|ANK2_uc011cgb.1_Silent_p.P1941P	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1893	Repeat-rich region.|Repeat A; approximate.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AAAAACACCCGCCAGTATCGC	0.512													27	64					0	0	1	0	0		A	114275552	A	A	114275552	2	1	84	1	0	0	0	0	0	0	0	1	621	1074	38	1		1	ANK2	4	114275552	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	923538	114275552	76878724	368	52211											
ADAD1	132612	broad.mit.edu	37	chr4	123350870	123350870	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggattgtgaaatctccCtgcatagagcaatttaacat	12	13	7	9	0	1	2	0	1	1	1	3	3	2	3	2	1	3	2	2	1	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:123350870C>A	uc003ieo.2	+	13	1939	c.1707C>A	c.(1705-1707)CCC>CCA	p.P569P	ADAD1_uc003iep.2_Silent_p.P558P|ADAD1_uc003ieq.2_Silent_p.P551P	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	569	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						TGAAATCTCCCTGCATAGAGC	0.328													21	56					1.10923e-09	1.19794e-09	1	1	0		A	123350870	A	A	123350870	2	1	84	1	0	0	0	0	0	0	0	1	231	668	24	5		5	ADAD1	4	123350870	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	9075318	123350870	67803406	369	52212											
ANKRD50	57182	broad.mit.edu	37	chr4	125590622	125590622	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagaattttctgatttcccCcctttacttgctttagttga	7	18	6	10	0	1	3	0	2	1	1	2	3	2	3	3	0	2	3	3	0	3	9			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:125590622C>T	uc003ifg.3	-	3	4076	c.3810G>A	c.(3808-3810)GGG>GGA	p.G1270G	ANKRD50_uc011cgo.1_Silent_p.G1091G|ANKRD50_uc010inw.2_Silent_p.G1270G	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	1270	Ser-rich.									central_nervous_system(1)	1						CTGATTTCCCCCCTTTACTTG	0.398													12	215					0	0	1	0	0		T	125590622	T	T	125590622	2	4	84	1	0	0	0	0	0	0	0	1	677	610	22	4		4	ANKRD50	4	125590622	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2239752	125590622	65563654	370	52213											
FAT4	79633	broad.mit.edu	37	chr4	126411264	126411264	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtgtccctcctggggaCtgtgcctcccacccgtgcca	4	9	12	16	1	0	0	0	0	0	0	3	1	3	1	6	3	2	0	6	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:126411264C>A	uc003ifj.3	+	17	13287	c.13287C>A	c.(13285-13287)GAC>GAA	p.D4429E	FAT4_uc011cgp.1_Missense_Mutation_p.D2670E|FAT4_uc003ifi.1_Missense_Mutation_p.D1906E	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4429	EGF-like 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTCCTGGGGACTGTGCCTCCC	0.612													44	153					2.19962e-31	2.50277e-31	1	1	0		A	126411264	A	A	126411264	3	1	84	1	0	0	0	0	1	0	0	0	5706	564	20	5	13353	5	FAT4	4	126411264	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	820642	126411264	64743012	371	52214											
SLC25A31	83447	broad.mit.edu	37	chr4	128688241	128688241	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgaggagcgacaattcAagggtttaggtgactgtatt	10	12	13	6	1	1	2	1	2	0	0	2	4	2	3	1	3	1	2	1	3	4	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:128688241A>G	uc003ifl.2	+	4	645	c.499A>G	c.(499-501)AAG>GAG	p.K167E		NM_031291	NP_112581	Q9H0C2	ADT4_HUMAN	solute carrier family 25 (mitochondrial carrier;	167	Solcar 2.				transmembrane transport	cilium|flagellum|integral to membrane|mitochondrial inner membrane	binding|transporter activity				0						GCGACAATTCAAGGGTTTAGG	0.343													19	61					0	0	1	0	0		G	128688241	G	G	128688241	3	3	84	1	0	0	0	0	1	0	0	0	14520	131	5	3	513	3	SLC25A31	4	128688241	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2276977	128688241	62466035	372	52215											
PCDH10	57575	broad.mit.edu	37	chr4	134073056	134073056	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaacgggactccagcgcgTgaggtgctgccccgctcggc	5	5	15	16	6	0	1	0	1	0	0	2	2	1	2	3	3	4	3	3	3	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:134073056T>C	uc003iha.2	+	1	2587	c.1761T>C	c.(1759-1761)CGT>CGC	p.R587R	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.R587R	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	587	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CTCCAGCGCGTGAGGTGCTGC	0.662													24	53					0	0	1	0	0		C	134073056	C	C	134073056	2	2	84	1	0	0	0	0	0	0	0	1	11526	1683	59	3		3	PCDH10	4	134073056	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	5384815	134073056	57081220	373	52216											
ELF2	1998	broad.mit.edu	37	chr4	139993141	139993141	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaatgacatctggcctcatAgcagcatggatgaattctgg	11	11	11	8	0	3	2	1	2	2	0	3	3	3	3	1	3	2	3	1	3	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:139993141A>G	uc003ihp.1	-	5	575	c.369T>C	c.(367-369)GCT>GCC	p.A123A	ELF2_uc003ihm.1_Silent_p.A75A|ELF2_uc003ihn.1_Silent_p.A63A|ELF2_uc003iho.1_Silent_p.A75A|ELF2_uc010ioh.2_Silent_p.A63A	NM_201999	NP_973728	Q15723	ELF2_HUMAN	E74-like factor 2 (ets domain transcription	135					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2	all_hematologic(180;0.162)					CTGGCCTCATAGCAGCATGGA	0.408													18	48					0	0	1	0	0		G	139993141	G	G	139993141	2	3	84	1	0	0	0	0	0	0	0	1	5062	407	15	3		3	ELF2	4	139993141	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	5920085	139993141	51161135	374	52217											
TBC1D9	23158	broad.mit.edu	37	chr4	141555219	141555219	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgcccaaggaaagagaaGagcaaacattcccttgaact	17	6	8	10	0	0	3	0	1	0	2	1	5	1	4	2	1	4	1	2	1	5	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:141555219G>T	uc010ioj.2	-	16	2901	c.2629C>A	c.(2629-2631)CTT>ATT	p.L877I		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	877						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				GGAAAGAGAAGAGCAAACATT	0.532													11	51					6.42651e-13	7.04087e-13	1	1	0		T	141555219	T	T	141555219	3	4	84	1	0	0	0	0	1	0	0	0	15652	942	33	5	1195	5	TBC1D9	4	141555219	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1562078	141555219	49599057	375	52218											
ZNF827	152485	broad.mit.edu	37	chr4	146824094	146824094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtcatcgtcacacaaagaaGacactcccggggaaaggtga	14	5	12	10	2	2	3	2	1	0	2	4	4	3	4	1	4	0	0	1	4	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:146824094G>A	uc003ikn.2	-	2	365	c.317C>T	c.(316-318)TCT>TTT	p.S106F	ZNF827_uc003ikm.2_Missense_Mutation_p.S106F|ZNF827_uc010iox.2_Intron	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	106					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					ACACAAAGAAGACACTCCCGG	0.592													21	66					0	0	1	0	0		A	146824094	A	A	146824094	3	1	84	1	0	0	0	0	1	0	0	0	18205	942	33	4	2964	4	ZNF827	4	146824094	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	5268875	146824094	44330182	376	52219											
POU4F2	5458	broad.mit.edu	37	chr4	147560460	147560460	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagcaacgctggtggtggCggcggcggcggcggcggcgg	3	4	23	11	9	0	0	0	0	0	0	1	1	0	0	0	10	2	2	0	10	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:147560460C>T	uc003ikv.2	+	1	416	c.168C>T	c.(166-168)GGC>GGT	p.G56G		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	56	Poly-Gly.				estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					CTggtggtggcggcggcggcg	0.383													4	13					0	0	1	0	0		T	147560460	T	T	147560460	2	4	84	1	0	0	0	0	0	0	0	1	12298	755	27	1		1	POU4F2	4	147560460	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	736366	147560460	43593816	377	52220											
LRBA	987	broad.mit.edu	37	chr4	151749739	151749739	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagattcttccactgatgcCgtagttaaagtgctgaatgc	10	13	9	9	1	2	3	1	2	1	1	3	3	3	3	2	0	3	3	2	0	4	4	rs144797074		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:151749739C>T	uc010ipj.2	-	30	5238	c.4764G>A	c.(4762-4764)ACG>ACA	p.T1588T	LRBA_uc003ilt.3_Silent_p.T247T|LRBA_uc003ilu.3_Silent_p.T1588T	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1588						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					CCACTGATGCCGTAGTTAAAG	0.398													80	223					0	0	1	0	0		T	151749739	T	T	151749739	2	4	84	1	0	0	0	0	0	0	0	1	8949	639	23	1		1	LRBA	4	151749739	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4189279	151749739	39404537	378	52221											
LRBA	987	broad.mit.edu	37	chr4	151814245	151814245	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagcaggaatcatagagttAgggtgttctgacattaatgc	14	11	11	5	0	2	2	1	1	1	1	2	3	2	3	0	2	2	3	0	2	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:151814245A>G	uc010ipj.2	-	17	2598	c.2124T>C	c.(2122-2124)CCT>CCC	p.P708P	LRBA_uc003ilu.3_Silent_p.P708P|LRBA_uc010ipk.1_3'UTR	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	708						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TCATAGAGTTAGGGTGTTCTG	0.313													6	25					0	0	1	0	0		G	151814245	G	G	151814245	2	3	84	1	0	0	0	0	0	0	0	1	8949	407	15	3		3	LRBA	4	151814245	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	64506	151814245	39340031	379	52222											
PRSS48	345062	broad.mit.edu	37	chr4	152203538	152203538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacccttttgttgggtgaccGgatggggaaaagttaaggaa	11	10	14	6	1	0	1	0	1	0	0	0	4	0	4	2	5	0	2	2	5	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:152203538G>A	uc011cif.1	+	3	454	c.454G>A	c.(454-456)GGA>AGA	p.G152R	PRSS48_uc011cig.1_Intron	NM_183375	NP_899231	Q7RTY5	PRS48_HUMAN	epidermis-specific serine protease-like protein	152	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			large_intestine(1)	1						TTGGGTGACCGGATGGGGAAA	0.463													18	66					0	0	1	0	0		A	152203538	A	A	152203538	3	1	84	1	0	0	0	0	1	0	0	0	12652	1117	39	1	464	1	PRSS48	4	152203538	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	389293	152203538	38950738	380	52223											
FHDC1	85462	broad.mit.edu	37	chr4	153897805	153897805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccagaggggctggggaaaGggcctccctccgtcggaagg	7	4	19	11	2	0	1	0	0	0	1	3	3	2	3	4	8	0	1	4	8	2	0	rs143246099		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:153897805G>A	uc003inf.2	+	11	3437	c.3362G>A	c.(3361-3363)AGG>AAG	p.R1121K		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	1121					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					GCTGGGGAAAGGGCCTCCCTC	0.667													9	10					0	0	1	0	0		A	153897805	A	A	153897805	3	1	84	1	0	0	0	0	1	0	0	0	5890	1000	35	4	3404	4	FHDC1	4	153897805	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1694267	153897805	37256471	381	52224											
DCHS2	54798	broad.mit.edu	37	chr4	155253876	155253876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgtcctcggggatccaagCaaacactctaaaattatatg	13	10	7	11	2	1	0	0	0	1	0	5	1	4	1	3	2	2	1	3	2	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:155253876C>T	uc003inw.2	-	9	1987	c.1987G>A	c.(1987-1989)GCT>ACT	p.A663T	DCHS2_uc003inx.2_Missense_Mutation_p.A1162T	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	663	Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GGGATCCAAGCAAACACTCTA	0.453													20	89					0	0	1	0	0		T	155253876	T	T	155253876	3	4	84	1	0	0	0	0	1	0	0	0	4291	710	25	2	6927	2	DCHS2	4	155253876	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1356071	155253876	35900400	382	52225											
TDO2	6999	broad.mit.edu	37	chr4	156841067	156841067	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cactggataccgaagatgaaCccaaccattcacaaatttct	15	9	5	12	1	2	2	1	1	1	1	2	4	2	3	3	1	3	0	3	1	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:156841067C>A	uc003ipf.1	+	12	1210	c.1146C>A	c.(1144-1146)AAC>AAA	p.N382K		NM_005651	NP_005642	P48775	T23O_HUMAN	tryptophan 2,3-dioxygenase	382					tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)	CGAAGATGAACCCAACCATTC	0.353													12	30					0.000978159	0.00100292	1	1	0		A	156841067	A	A	156841067	3	1	84	1	0	0	0	0	1	0	0	0	15752	506	18	5	1192	5	TDO2	4	156841067	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1587191	156841067	34313209	383	52226											
GLRB	2743	broad.mit.edu	37	chr4	158065087	158065087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctggatcaacccggacGcgagtgctgccagagtgccc	7	7	12	15	3	2	1	1	0	1	1	2	4	2	3	4	2	4	1	4	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:158065087G>A	uc003ipj.2	+	8	1082	c.880G>A	c.(880-882)GCG>ACG	p.A294T		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	294					nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	CAACCCGGACGCGAGTGCTGC	0.488													23	72					0	0	1	0	0		A	158065087	A	A	158065087	3	1	84	1	0	0	0	0	1	0	0	0	6473	1087	38	1	906	1	GLRB	4	158065087	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1224020	158065087	33089189	384	52227											
TMEM144	55314	broad.mit.edu	37	chr4	159165463	159165463	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaagggtccaggatttataGctgcaatgtggggtatcttc	9	14	12	6	0	1	0	0	0	1	0	3	1	2	1	1	4	2	3	1	4	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:159165463G>T	uc003ipx.2	+	12	1436	c.916G>T	c.(916-918)GCT>TCT	p.A306S	TMEM144_uc010iqi.2_RNA	NM_018342	NP_060812	Q7Z5S9	TM144_HUMAN	transmembrane protein 144	306	Helical; (Potential).					integral to membrane					0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0539)		AGGATTTATAGCTGCAATGTG	0.269													23	71					3.6726e-16	4.07755e-16	1	1	0		T	159165463	T	T	159165463	3	4	84	1	0	0	0	0	1	0	0	0	16083	971	34	5	954	5	TMEM144	4	159165463	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1100376	159165463	31988813	385	52228											
FSTL5	56884	broad.mit.edu	37	chr4	162577520	162577520	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattatttagaataatattgTtccttttccagataatggga	14	17	6	4	0	0	2	0	0	0	2	2	3	2	3	2	1	0	1	2	1	7	10			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:162577520T>C	uc003iqh.2	-	7	1290	c.854A>G	c.(853-855)AAC>AGC	p.N285S	FSTL5_uc003iqi.2_Missense_Mutation_p.N284S|FSTL5_uc010iqv.2_Missense_Mutation_p.N284S	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	285	Ig-like 1.					extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		AATAATATTGTTCCTTTTCCA	0.353													8	27					0	0	1	0	0		C	162577520	C	C	162577520	3	2	84	1	0	0	0	0	1	0	0	0	6094	1725	60	3	1729	3	FSTL5	4	162577520	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3412057	162577520	28576756	386	52229											
NEK1	4750	broad.mit.edu	37	chr4	170400581	170400581	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttctttcaaagctgaagtTacagaaataacagatctcat	16	12	5	8	0	3	3	2	1	2	2	4	3	3	3	0	0	3	2	0	0	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:170400581T>C	uc003isb.1	-	22	2520	c.2028A>G	c.(2026-2028)GTA>GTG	p.V676V	NEK1_uc003isc.1_Silent_p.V632V|NEK1_uc003isd.1_Silent_p.V704V|NEK1_uc003ise.1_Silent_p.V660V|NEK1_uc003isf.1_Silent_p.V607V	NM_012224	NP_036356	Q96PY6	NEK1_HUMAN	NIMA-related kinase 1	676					cell division|cilium assembly|mitosis	nucleus|pericentriolar material	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(3)|ovary(2)|large_intestine(1)	6		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)|KIRC - Kidney renal clear cell carcinoma(143;0.0325)|Kidney(143;0.0385)|LUSC - Lung squamous cell carcinoma(193;0.14)		AAGCTGAAGTTACAGAAATAA	0.363													14	34					0	0	1	0	0		C	170400581	C	C	170400581	2	2	84	1	0	0	0	0	0	0	0	1	10340	1741	61	3		3	NEK1	4	170400581	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	7823061	170400581	20753695	387	52230											
FAT1	2195	broad.mit.edu	37	chr4	187509968	187509968	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctggcgggtaaggggcatgGggttctctacaagtactatt	8	11	14	8	1	1	0	0	0	1	0	2	0	1	0	1	6	2	4	1	6	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:187509968G>T	uc003izf.2	-	27	13733	c.13545C>A	c.(13543-13545)CCC>CCA	p.P4515P	FAT1_uc010isn.2_Silent_p.P162P|FAT1_uc003ize.2_Silent_p.P406P	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4515	Cytoplasmic (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AAGGGGCATGGGGTTCTCTAC	0.517										HNSCC(5;0.00058)			20	63					5.26018e-13	5.76666e-13	1	1	0		T	187509968	T	T	187509968	2	4	84	1	0	0	0	0	0	0	0	1	5703	1219	43	5		5	FAT1	4	187509968	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	17109387	187509968	3644308	388	52231											
TRIML2	205860	broad.mit.edu	37	chr4	189020263	189020263	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttaggaggctgcggacctGttcagaagccctggcttcac	7	10	12	12	1	2	1	2	0	0	1	2	3	2	3	2	4	2	3	2	4	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:189020263G>T	uc003izl.2	-	4	433	c.397C>A	c.(397-399)CAG>AAG	p.Q133K	TRIML2_uc003izj.1_5'UTR|TRIML2_uc003izk.1_5'UTR|TRIML2_uc011cle.1_Missense_Mutation_p.Q183K|TRIML2_uc011clf.1_Missense_Mutation_p.Q183K	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	133	Potential.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		CTGCGGACCTGTTCAGAAGCC	0.488													27	74					9.90768e-06	1.03472e-05	1	1	0		T	189020263	T	T	189020263	3	4	84	1	0	0	0	0	1	0	0	0	16577	1386	48	5	782	5	TRIML2	4	189020263	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1510295	189020263	2134013	389	52232											
TRIML1	339976	broad.mit.edu	37	chr4	189061099	189061099	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagagtgcatctctccagCgaggctgaggagcatcacag	12	6	12	11	1	2	2	1	1	1	1	4	4	3	3	1	2	4	3	1	2	1	0	rs138508820		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr4:189061099C>T	uc003izm.1	+	1	502	c.387C>T	c.(385-387)AGC>AGT	p.S129S		NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	129					multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		ATCTCTCCAGCGAGGCTGAGG	0.577													19	50					0	0	1	0	0		T	189061099	T	T	189061099	2	4	84	1	0	0	0	0	0	0	0	1	16576	767	27	1		1	TRIML1	4	189061099	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	40836	189061099	2093177	390	52233											
SLC9A3	6550	broad.mit.edu	37	chr5	477515	477515	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccacgttgaccacgttgtcGgtgctgggggagcggatgaa	7	9	16	9	4	0	2	0	2	0	0	2	4	1	4	2	4	2	3	2	4	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:477515G>A	uc003jbe.2	-	11	1804	c.1692C>T	c.(1690-1692)ACC>ACT	p.T564T	SLC9A3_uc011clx.1_Silent_p.T555T|uc011cly.1_5'Flank	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	564	Cytoplasmic (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CCACGTTGTCGGTGCTGGGGG	0.652													10	53					0	0	1	0	0		A	477515	A	A	477515	2	1	84	1	0	0	0	0	0	0	0	1	14738	1103	39	1		1	SLC9A3	5	477515	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08		477515	180437745	391	52234											
ZDHHC11	79844	broad.mit.edu	37	chr5	843740	843740	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctggggtccgtgcggagCaccccggggttcacgaggta	6	7	16	12	4	1	0	1	0	0	0	2	2	2	1	4	6	3	3	4	6	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:843740C>T	uc011cma.1	-	4	987	c.603G>A	c.(601-603)GTG>GTA	p.V201V	ZDHHC11_uc003jbj.2_RNA|ZDHHC11_uc010itd.1_5'Flank|ZDHHC11_uc003jbk.2_5'UTR	NM_024786	NP_079062	Q9H8X9	ZDH11_HUMAN	zinc finger, DHHC-type containing 11	201						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)|pancreas(1)	2			Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)			CCGTGCGGAGCACCCCGGGGT	0.637													13	71					0	0	1	0	0		T	843740	T	T	843740	2	4	84	1	0	0	0	0	0	0	0	1	17626	697	25	2		2	ZDHHC11	5	843740	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	366225	843740	180071520	392	52235											
SLC6A19	340024	broad.mit.edu	37	chr5	1216926	1216926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatcctgaccctcatcaacGggttcgacctgcctgaaggc	9	8	9	15	2	2	2	2	2	0	0	4	3	3	2	4	2	2	1	4	2	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:1216926G>A	uc003jbw.3	+	8	1095	c.1039G>A	c.(1039-1041)GGG>AGG	p.G347R		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	347	Extracellular (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			CCTCATCAACGGGTTCGACCT	0.652													55	129					0	0	1	0	0		A	1216926	A	A	1216926	3	1	84	1	0	0	0	0	1	0	0	0	14707	1116	39	1	1069	1	SLC6A19	5	1216926	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	373186	1216926	179698334	393	52236											
MARCH6	10299	broad.mit.edu	37	chr5	10391770	10391770	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggatgaccaggcagaagaGgaggaggaggacaatgagga	16	2	18	5	0	0	4	0	2	0	2	0	10	0	10	1	7	0	1	1	7	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:10391770G>A	uc003jet.1	+	7	876	c.693G>A	c.(691-693)GAG>GAA	p.E231E	MARCH6_uc011cmu.1_Silent_p.E183E|MARCH6_uc003jeu.1_5'UTR|MARCH6_uc011cmv.1_Silent_p.E126E	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	231	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						aggcagaagaggaggaggagg	0.428													13	44					0	0	1	0	0		A	10391770	A	A	10391770	2	1	84	1	0	0	0	0	0	0	0	1	9323	991	35	4		4	MARCH6	5	10391770	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	9174844	10391770	170523490	394	52237											
FBXL7	23194	broad.mit.edu	37	chr5	15928451	15928451	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggaaaccgtaactgtcAgtggctgcaggcggctcaca	9	8	13	11	2	2	0	2	0	0	0	2	1	2	1	1	4	4	5	1	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:15928451A>G	uc003jfn.1	+	3	1061	c.580A>G	c.(580-582)AGT>GGT	p.S194G		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	194	LRR 1.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						CGTAACTGTCAGTGGCTGCAG	0.607													12	32					0	0	1	0	0		G	15928451	G	G	15928451	3	3	84	1	0	0	0	0	1	0	0	0	5738	188	7	3	590	3	FBXL7	5	15928451	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	5536681	15928451	164986809	395	52238											
CDH12	1010	broad.mit.edu	37	chr5	21783501	21783501	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attatggagaaattatactgCgcagtgctttctctgtctag	10	15	9	7	1	2	1	0	0	2	1	3	2	2	1	0	1	3	2	0	1	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:21783501C>T	uc010iuc.2	-	8	1817	c.1359G>A	c.(1357-1359)GCG>GCA	p.A453A	CDH12_uc011cno.1_Silent_p.A413A|CDH12_uc003jgk.2_Silent_p.A453A	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	453	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						AATTATACTGCGCAGTGCTTT	0.373										HNSCC(59;0.17)			27	63					0	0	1	0	0		T	21783501	T	T	21783501	2	4	84	1	0	0	0	0	0	0	0	1	3101	755	27	1		1	CDH12	5	21783501	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5855050	21783501	159131759	396	52239											
CDH10	1008	broad.mit.edu	37	chr5	24487827	24487827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgctagcttattaaacCgagggccccattctcggagg	8	12	10	11	2	2	0	0	0	2	0	3	2	2	1	3	3	3	2	3	3	4	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:24487827C>T	uc003jgr.1	-	12	2644	c.2312G>A	c.(2311-2313)CGG>CAG	p.R771Q	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	771	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CTTATTAAACCGAGGGCCCCA	0.408										HNSCC(23;0.051)			46	128					0	0	1	0	0		T	24487827	T	T	24487827	3	4	84	1	0	0	0	0	1	0	0	0	3099	652	23	1	58	1	CDH10	5	24487827	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2704326	24487827	156427433	397	52240											
TARS	6897	broad.mit.edu	37	chr5	33461072	33461072	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggctagctgattttggggTacttcataggaacgagctgt	8	12	14	7	2	1	1	1	1	0	0	1	3	1	2	0	4	4	4	0	4	4	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:33461072T>C	uc003jhy.2	+	12	1611	c.1316T>C	c.(1315-1317)GTA>GCA	p.V439A	TARS_uc011cob.1_Missense_Mutation_p.V427A|TARS_uc010iup.1_Missense_Mutation_p.V380A|TARS_uc011coc.1_Missense_Mutation_p.V460A|TARS_uc003jhz.2_Missense_Mutation_p.V335A|TARS_uc011cod.1_Missense_Mutation_p.V318A	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	439				V -> G (in Ref. 1; AAB04939).	threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)	GATTTTGGGGTACTTCATAGG	0.502													12	67					0	0	1	0	0		C	33461072	C	C	33461072	3	2	84	1	0	0	0	0	1	0	0	0	15584	1638	57	3	1362	3	TARS	5	33461072	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	8973245	33461072	147454188	398	52241											
SPEF2	79925	broad.mit.edu	37	chr5	35659271	35659271	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaacaacatgaggaaagaCgacttaaagatttccaggat	20	7	8	6	1	0	3	0	1	0	2	1	6	1	5	1	2	2	0	1	2	6	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:35659271C>T	uc003jjo.2	+	8	1240	c.1129C>T	c.(1129-1131)CGA>TGA	p.R377*	SPEF2_uc003jjn.1_Nonsense_Mutation_p.R377*|SPEF2_uc003jjq.3_Nonsense_Mutation_p.R377*	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	377	Potential.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGAGGAAAGACGACTTAAAGA	0.408													10	36					0	0	1	0	0		T	35659271	T	T	35659271	4	4	84	1	0	0	0	0	0	1	0	0	15060	528	19	1	1159	1	SPEF2	5	35659271	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2198199	35659271	145255989	399	52242											
ITGA2	3673	broad.mit.edu	37	chr5	52379218	52379218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacctgctggttgaaagacGttcacatgaaaggagaatac	14	10	10	7	1	1	4	1	2	0	2	1	5	1	4	1	2	3	3	1	2	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:52379218G>A	uc003joy.2	+	27	3336	c.3193G>A	c.(3193-3195)GTT>ATT	p.V1065I	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Missense_Mutation_p.V989I|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	1065	Extracellular (Potential).				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				GTTGAAAGACGTTCACATGAA	0.348													12	32					0	0	1	0	0		A	52379218	A	A	52379218	3	1	84	1	0	0	0	0	1	0	0	0	7891	1145	40	1	3299	1	ITGA2	5	52379218	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	16719947	52379218	128536042	400	52243											
SKIV2L2	23517	broad.mit.edu	37	chr5	54711853	54711853	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaaattggaaattgatgAggaaacttatctaagctcat	16	11	8	6	0	2	2	1	2	1	0	2	4	2	4	1	2	3	1	1	2	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:54711853A>G	uc003jpy.3	+	25	3130	c.2864A>G	c.(2863-2865)GAG>GGG	p.E955G	SKIV2L2_uc011cqi.1_Missense_Mutation_p.E854G	NM_015360	NP_056175	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2	955					maturation of 5.8S rRNA	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(1)|skin(1)	2		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				GAAATTGATGAGGAAACTTAT	0.348													7	20					0	0	1	0	0		G	54711853	G	G	54711853	3	3	84	1	0	0	0	0	1	0	0	0	14385	304	11	3	2962	3	SKIV2L2	5	54711853	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2332635	54711853	126203407	401	52244											
PPWD1	23398	broad.mit.edu	37	chr5	64865507	64865507	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gatggacatgtcaagttctgGaaaaaaatagaagagggaat	18	8	12	3	0	2	2	1	0	1	2	2	6	2	5	0	3	0	1	0	3	7	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:64865507G>A	uc003jtv.3	+	3	355	c.348G>A	c.(346-348)TGG>TGA	p.W116*	PPWD1_uc011cqv.1_Nonsense_Mutation_p.W86*|PPWD1_uc011cqw.1_5'UTR	NM_015342	NP_056157	Q96BP3	PPWD1_HUMAN	peptidylprolyl isomerase domain and WD repeat	116	WD 1.				protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00451)		TCAAGTTCTGGAAAAAAATAG	0.318													10	32					0	0	1	0	0		A	64865507	A	A	64865507	4	1	84	1	0	0	0	0	0	1	0	0	12436	1183	41	4	358	4	PPWD1	5	64865507	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	10153654	64865507	116049753	402	52245											
OCLN	4950	broad.mit.edu	37	chr5	68800096	68800096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catccaggcctcttgaaagtCcacctccttacaggcctgat	9	10	7	15	0	1	2	0	2	1	0	4	2	4	2	6	2	1	0	6	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:68800096C>T	uc003jwu.2	+	2	461	c.25C>T	c.(25-27)CCA>TCA	p.P9S	OCLN_uc003jwv.3_Missense_Mutation_p.P9S	NM_002538	NP_002529			occludin												0		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		TCTTGAAAGTCCACCTCCTTA	0.368													6	21					0	0	1	0	0		T	68800096	T	T	68800096	3	4	84	1	0	0	0	0	1	0	0	0	10839	855	30	4	27	4	OCLN	5	68800096	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3934589	68800096	112115164	403	52246											
BDP1	55814	broad.mit.edu	37	chr5	70785231	70785231	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaatttctcttgttttcagTgaaaaaagttgcctgtgaag	11	16	9	5	0	2	2	1	2	1	0	3	2	2	2	1	0	1	3	1	0	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:70785231T>C	uc003kbp.1	+	10	1477	c.1214T>C	c.(1213-1215)GTG>GCG	p.V405A	BDP1_uc003kbn.1_Missense_Mutation_p.V405A|BDP1_uc003kbo.2_Missense_Mutation_p.V405A	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	405	Required for phosphorylation by CSNK2A1.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		TTGTTTTCAGTGAAAAAAGTT	0.333													10	35					0	0	1	0	0		C	70785231	C	C	70785231	3	2	84	1	0	0	0	0	1	0	0	0	1396	1710	59	3	1252	3	BDP1	5	70785231	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1985135	70785231	110130029	404	52247											
BDP1	55814	broad.mit.edu	37	chr5	70811960	70811960	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgctcgacaagtaaggggCcgacttcagagaccgagacc	12	5	12	12	3	1	2	1	0	0	2	2	6	1	2	3	2	1	2	3	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:70811960C>G	uc003kbp.1	+	21	4985	c.4722C>G	c.(4720-4722)GGC>GGG	p.G1574G	BDP1_uc003kbo.2_Silent_p.G1574G	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1574					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AAGTAAGGGGCCGACTTCAGA	0.423													12	22					0	0	1	0	0		G	70811960	G	G	70811960	2	3	84	1	0	0	0	0	0	0	0	1	1396	726	26	5		5	BDP1	5	70811960	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	26729	70811960	110103300	405	52248											
MCCC2	64087	broad.mit.edu	37	chr5	70944923	70944923	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttctgatctttctctcaGgatttatggttggtagagag	7	18	10	6	0	5	2	1	1	4	1	6	4	5	3	0	3	0	2	0	3	2	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:70944923G>T	uc003kbs.3	+	14	1355	c.1217_splice	c.e14-1	p.G406_splice	MCCC2_uc003kbt.3_Splice_Site	NM_022132	NP_071415	Q9HCC0	MCCB_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 2 (beta)						leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)	1		Lung NSC(167;0.000697)|Prostate(74;0.0107)|Ovarian(174;0.0175)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.04e-54)	Biotin(DB00121)	CTTTCTCTCAGGATTTATGGT	0.458													19	78					5.35267e-07	5.65112e-07	1	1	0		T	70944923	T	T	70944923	5	4	84	1	0	0	0	0	0	0	1	0	9393	1014	35	5	1270	5	MCCC2	5	70944923	Splice_Site	SNP	G	TCGA-BR-8591-01A-11D-2394-08	132963	70944923	109970337	406	52249											
ENC1	8507	broad.mit.edu	37	chr5	73931829	73931829	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atagttcgtacagcttggtgCactggtgtgcatcagacagc	9	11	12	9	1	1	1	1	0	0	1	2	1	1	1	0	2	5	5	0	2	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:73931829C>T	uc003kdc.3	-	2	1613	c.482G>A	c.(481-483)TGC>TAC	p.C161Y	ENC1_uc011css.1_Missense_Mutation_p.C88Y	NM_003633	NP_003624	O14682	ENC1_HUMAN	ectodermal-neural cortex (with BTB-like domain)	161					nervous system development	cytoplasm|cytoskeleton|nuclear matrix	actin binding			ovary(1)|pancreas(1)|skin(1)	3		all_lung(232;0.0154)|Lung NSC(167;0.0331)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.45e-59)		CAGCTTGGTGCACTGGTGTGC	0.512													26	111					0	0	1	0	0		T	73931829	T	T	73931829	3	4	84	1	0	0	0	0	1	0	0	0	5121	710	25	2	1291	2	ENC1	5	73931829	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2986906	73931829	106983431	407	52250											
THBS4	7060	broad.mit.edu	37	chr5	79375873	79375873	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctaccgctggttcctacAgcacaggccccaggtgggct	6	8	12	15	1	0	0	0	0	0	0	2	0	2	0	5	4	3	4	5	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:79375873A>G	uc003kgh.2	+	21	2980	c.2657A>G	c.(2656-2658)CAG>CGG	p.Q886R	uc003kgi.3_Intron	NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	886	TSP C-terminal.				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		TGGTTCCTACAGCACAGGCCC	0.582													11	28					0	0	1	0	0		G	79375873	G	G	79375873	3	3	84	1	0	0	0	0	1	0	0	0	15881	188	7	3	2735	3	THBS4	5	79375873	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	5444044	79375873	101539387	408	52251											
VCAN	1462	broad.mit.edu	37	chr5	82837118	82837118	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttttcagccagaattcTcttcaggagctgaggaggca	9	12	10	10	0	4	2	2	1	2	1	5	4	4	4	1	3	2	2	1	3	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:82837118T>C	uc003kii.3	+	8	8652	c.8296T>C	c.(8296-8298)TCT>CCT	p.S2766P	VCAN_uc003kij.3_Missense_Mutation_p.S1779P|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.S1430P	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2766	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GCCAGAATTCTCTTCAGGAGC	0.428													20	49					0	0	1	0	0		C	82837118	C	C	82837118	3	2	84	1	0	0	0	0	1	0	0	0	17164	1551	54	3	8322	3	VCAN	5	82837118	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3461245	82837118	98078142	409	52252											
HAPLN1	1404	broad.mit.edu	37	chr5	82948392	82948392	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaagcatcactatcacTgcctcccttcagaaacactc	13	8	5	15	0	3	2	3	0	0	2	5	3	4	2	2	0	3	1	2	0	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:82948392T>G	uc003kim.2	-	2	423	c.352A>C	c.(352-354)AGT>CGT	p.S118R	HAPLN1_uc003kin.2_Missense_Mutation_p.S118R	NM_001884	NP_001875	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	118	Ig-like V-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)		TCACTATCACTGCCTCCCTTC	0.428													27	80					0	0	1	0	0		G	82948392	G	G	82948392	3	3	84	1	0	0	0	0	1	0	0	0	6970	1580	55	5	724	5	HAPLN1	5	82948392	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	111274	82948392	97966868	410	52253											
RGMB	285704	broad.mit.edu	37	chr5	98128867	98128867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagatgacctgccggccGcctttgtggatggcaccacc	7	8	12	14	2	0	3	0	2	0	1	0	4	0	4	6	3	1	1	6	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:98128867G>A	uc003knc.2	+	5	1249	c.847G>A	c.(847-849)GCC>ACC	p.A283T		NM_001012761	NP_001012779	Q6NW40	RGMB_HUMAN	RGM domain family, member B	242					axon guidance|BMP signaling pathway|cell adhesion|positive regulation of transcription, DNA-dependent	anchored to plasma membrane|ER-Golgi intermediate compartment|membrane raft	identical protein binding				0		all_cancers(142;2.76e-08)|all_epithelial(76;2.98e-11)|all_lung(232;0.000485)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0587)		CCTGCCGGCCGCCTTTGTGGA	0.542													5	47					0	0	1	0	0		A	98128867	A	A	98128867	3	1	84	1	0	0	0	0	1	0	0	0	13306	1087	38	1	861	1	RGMB	5	98128867	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	15180475	98128867	82786393	411	52254											
EPB41L4A	64097	broad.mit.edu	37	chr5	111540160	111540160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaactttggcgacttagtgcGatcactgggagaattgtaga	11	11	13	6	2	1	2	1	0	0	2	1	6	1	2	0	2	2	1	0	2	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:111540160G>A	uc003kpv.1	-	15	1562	c.1288C>T	c.(1288-1290)CGC>TGC	p.R430C	EPB41L4A_uc003kpp.1_Missense_Mutation_p.R57C	NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	430						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		GACTTAGTGCGATCACTGGGA	0.512													35	90					0	0	1	0	0		A	111540160	A	A	111540160	3	1	84	1	0	0	0	0	1	0	0	0	5163	1058	37	1	808	1	EPB41L4A	5	111540160	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	13411293	111540160	69375100	412	52255											
ALDH7A1	501	broad.mit.edu	37	chr5	125903997	125903997	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgttttcccacctgagtGctcccagtgaaggacagcag	9	9	10	13	0	0	2	0	2	0	0	2	3	2	3	4	1	2	3	4	1	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:125903997G>A	uc003ktx.2	-	9	1017	c.825C>T	c.(823-825)AGC>AGT	p.S275S	ALDH7A1_uc003kty.2_RNA|ALDH7A1_uc011cxa.1_Silent_p.S302S|ALDH7A1_uc003ktz.2_Silent_p.S302S	NM_001182	NP_001173	P49419	AL7A1_HUMAN	aldehyde dehydrogenase 7 family, member A1	275	NAD (By similarity).				cellular aldehyde metabolic process|lysine catabolic process|sensory perception of sound	cytosol|mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity|betaine-aldehyde dehydrogenase activity|L-aminoadipate-semialdehyde dehydrogenase activity			kidney(2)|ovary(1)	3		all_cancers(142;0.24)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0417)|OV - Ovarian serous cystadenocarcinoma(64;0.068)|all cancers(49;0.109)	NADH(DB00157)|Pyridoxine(DB00165)	CCACCTGAGTGCTCCCAGTGA	0.502													40	105					0	0	1	0	0		A	125903997	A	A	125903997	2	1	84	1	0	0	0	0	0	0	0	1	504	1310	46	2		2	ALDH7A1	5	125903997	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	14363837	125903997	55011263	413	52256											
FBN2	2201	broad.mit.edu	37	chr5	127595417	127595417	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgaggggctggatggcGggccttagttccaggatgtg	5	12	18	6	1	0	1	0	1	0	0	1	3	1	3	2	6	0	3	2	6	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:127595417G>A	uc003kuu.2	-	65	8908	c.8469C>T	c.(8467-8469)CCC>CCT	p.P2823P		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	2823					bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GCTGGATGGCGGGCCTTAGTT	0.542													36	100					0	0	1	0	0		A	127595417	A	A	127595417	2	1	84	1	0	0	0	0	0	0	0	1	5717	1103	39	1		1	FBN2	5	127595417	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1691420	127595417	53319843	414	52257											
FBN2	2201	broad.mit.edu	37	chr5	127714547	127714547	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggtgtgttaacacaatctCcattagtgcagggatttgat	11	13	10	7	0	1	1	0	1	1	0	2	2	1	2	1	2	2	2	1	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:127714547C>A	uc003kuu.2	-	12	2079	c.1640G>T	c.(1639-1641)GGA>GTA	p.G547V	FBN2_uc003kuv.2_Missense_Mutation_p.G514V	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	547	EGF-like 7; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		AACACAATCTCCATTAGTGCA	0.388													30	76					5.09552e-08	5.4423e-08	1	1	0		A	127714547	A	A	127714547	3	1	84	1	0	0	0	0	1	0	0	0	5717	855	30	5	7314	5	FBN2	5	127714547	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	119130	127714547	53200713	415	52258											
RAPGEF6	51735	broad.mit.edu	37	chr5	130825260	130825260	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaatgttggtcttcacagTaagtgcaagatgagtattat	15	13	9	4	0	2	2	1	1	1	1	2	2	2	2	0	1	1	4	0	1	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:130825260T>C	uc003kvn.1	-	15	2025	c.1819A>G	c.(1819-1821)ACT>GCT	p.T607A	RAPGEF6_uc003kvp.1_Missense_Mutation_p.T657A|RAPGEF6_uc003kvo.1_Missense_Mutation_p.T607A|RAPGEF6_uc010jdi.1_Missense_Mutation_p.T607A|RAPGEF6_uc010jdj.1_Missense_Mutation_p.T607A|RAPGEF6_uc003kvq.2_Missense_Mutation_p.T324A|RAPGEF6_uc003kvr.2_Missense_Mutation_p.T607A|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Missense_Mutation_p.T607A	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	607	PDZ.				Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		GTCTTCACAGTAAGTGCAAGA	0.294													8	18					0	0	1	0	0		C	130825260	C	C	130825260	3	2	84	1	0	0	0	0	1	0	0	0	13073	1638	57	3	3528	3	RAPGEF6	5	130825260	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3110713	130825260	50090000	416	52259											
CDKL3	51265	broad.mit.edu	37	chr5	133541779	133541779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacagacagtaactggacatCgaacctcttgcacgttggat	12	9	9	11	2	1	1	0	0	1	1	2	4	1	3	1	2	3	3	1	2	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:133541779C>T	uc011cxm.1	-	10	1271	c.1184G>A	c.(1183-1185)CGA>CAA	p.R395Q	CDKL3_uc011cxn.1_RNA|PPP2CA_uc003kze.2_Missense_Mutation_p.R49Q	NM_001113575	NP_001107047	Q8IVW4	CDKL3_HUMAN	cyclin-dependent kinase-like 3 isoform 1	588						cytoplasm	ATP binding|cyclin-dependent protein kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AACTGGACATCGAACCTCTTG	0.373													20	59					0	0	1	0	0		T	133541779	T	T	133541779	3	4	84	1	0	0	0	0	1	0	0	0	3158	884	31	1		1	CDKL3	5	133541779	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2716519	133541779	47373481	417	52260											
SEC24A	10802	broad.mit.edu	37	chr5	133997147	133997147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatataactatccatccacaGcctcacaaacaaaccattgt	17	9	2	13	0	1	0	1	0	0	0	3	0	3	0	4	0	4	0	4	0	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:133997147G>A	uc003kzs.2	+	2	724	c.436G>A	c.(436-438)GCC>ACC	p.A146T	SEC24A_uc011cxu.1_5'UTR	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A	146	Pro-rich.				COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCCATCCACAGCCTCACAAAC	0.423													29	82					0	0	1	0	0		A	133997147	A	A	133997147	3	1	84	1	0	0	0	0	1	0	0	0	14019	971	34	2	442	2	SEC24A	5	133997147	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	455368	133997147	46918113	418	52261											
LOC153328	153328	broad.mit.edu	37	chr5	135188361	135188361	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggttcctcagccagcaccGctgcggggagccagaggcca	7	4	15	15	3	1	1	1	0	0	1	2	2	2	2	5	4	4	3	5	4	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:135188361G>A	uc003laz.1	+	4	444	c.272G>A	c.(271-273)CGC>CAC	p.R91H	LOC153328_uc003lba.2_Missense_Mutation_p.R91H			Q6ZT89	S2548_HUMAN	RecName: Full=Putative mitochondrial carrier protein FLJ44862;	91					transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AGCCAGCACCGCTGCGGGGAG	0.657													36	107					0	0	1	0	0		A	135188361	A	A	135188361	3	1	84	1	0	0	0	0	1	0	0	0	8888	1087	38	1	286	1	LOC153328	5	135188361	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1191214	135188361	45726899	419	52262											
BRD8	10902	broad.mit.edu	37	chr5	137507779	137507779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaaccagtctggagggCggccaggttctgcaaagggc	10	5	17	9	1	2	1	0	0	2	1	2	4	2	2	2	5	2	2	2	5	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:137507779C>T	uc003lcf.1	-	3	216	c.161G>A	c.(160-162)CGC>CAC	p.R54H	BRD8_uc003lcc.1_RNA|BRD8_uc003lcg.2_Missense_Mutation_p.R54H|BRD8_uc003lci.2_Missense_Mutation_p.R54H|BRD8_uc003lch.2_5'UTR|BRD8_uc011cym.1_Missense_Mutation_p.R38H|BRD8_uc010jer.1_Missense_Mutation_p.R23H|BRD8_uc011cyn.1_Intron|BRD8_uc010jes.1_Intron	NM_139199	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 2	54					cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GTCTGGAGGGCGGCCAGGTTC	0.453													26	99					0	0	1	0	0		T	137507779	T	T	137507779	3	4	84	1	0	0	0	0	1	0	0	0	1509	768	27	1	3933	1	BRD8	5	137507779	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2319418	137507779	43407481	420	52263											
PSD2	84249	broad.mit.edu	37	chr5	139217239	139217239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcctgacaaagctctatcGgagggtgacctgaagaacgc	12	6	13	10	2	1	4	0	3	1	1	2	5	1	5	2	3	2	1	2	3	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:139217239G>A	uc003leu.1	+	12	1900	c.1695G>A	c.(1693-1695)TCG>TCA	p.S565S		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	565	PH.				regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGCTCTATCGGAGGGTGACC	0.597													27	70					0	0	1	0	0		A	139217239	A	A	139217239	2	1	84	1	0	0	0	0	0	0	0	1	12669	1103	39	1		1	PSD2	5	139217239	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1709460	139217239	41698021	421	52264											
NRG2	9542	broad.mit.edu	37	chr5	139260469	139260469	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgtaaagccggccccggacGgtgtccttccccaggatgtt	7	8	12	14	4	0	0	0	0	0	0	2	2	2	2	6	4	1	2	6	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:139260469G>A	uc003lex.1	-	3	1188	c.963C>T	c.(961-963)ACC>ACT	p.T321T	NRG2_uc003lev.1_Silent_p.T321T|NRG2_uc003lew.1_Silent_p.T321T|NRG2_uc003ley.1_Silent_p.T321T	NM_004883	NP_004874	O14511	NRG2_HUMAN	neuregulin 2 isoform 1	321	Ig-like C2-type.|Extracellular (Potential).				embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCCCCGGACGGTGTCCTTCC	0.622													19	89					0	0	1	0	0		A	139260469	A	A	139260469	2	1	84	1	0	0	0	0	0	0	0	1	10667	1103	39	1		1	NRG2	5	139260469	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	43230	139260469	41654791	422	52265											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139905605	139905605	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagaagttcccatagaacCtcctagtgcaaccaccacca	14	6	6	15	0	0	2	0	0	0	2	2	2	2	2	6	0	3	3	6	0	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:139905605C>G	uc003lfs.1	+	26	4641	c.4517C>G	c.(4516-4518)CCT>CGT	p.P1506R	ANKHD1_uc003lfr.2_Missense_Mutation_p.P1506R|ANKHD1_uc003lfu.1_Missense_Mutation_p.P986R|ANKHD1-EIF4EBP3_uc011czh.1_Missense_Mutation_p.P245R|ANKHD1_uc003lfw.2_Missense_Mutation_p.P144R|ANKHD1_uc010jfl.2_5'UTR|ANKHD1-EIF4EBP3_uc003lfx.1_5'Flank	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1506						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCATAGAACCTCCTAGTGCA	0.383													26	75					0	0	1	0	0		G	139905605	G	G	139905605	3	3	84	1	0	0	0	0	1	0	0	0	629	681	24	5	4619	5	ANKHD1-EIF4EBP3	5	139905605	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	645136	139905605	41009655	423	52266											
HARS	3035	broad.mit.edu	37	chr5	140056939	140056939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggacatagtccccaatgcGgtcagccacctcaggtgcaa	10	7	10	14	1	2	0	2	0	0	0	3	1	3	1	4	3	3	1	4	3	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140056939G>A	uc003lgv.2	-	8	878	c.796C>T	c.(796-798)CGC>TGC	p.R266C	HARS_uc003lgu.2_Missense_Mutation_p.R197C|HARS_uc011czm.1_Missense_Mutation_p.R226C|HARS_uc003lgw.2_Missense_Mutation_p.R246C|HARS_uc011czn.1_Missense_Mutation_p.R206C|HARS_uc010jfu.2_Missense_Mutation_p.R266C|HARS_uc011czo.1_Missense_Mutation_p.R192C|HARS_uc011czp.1_Missense_Mutation_p.R152C|HARS_uc011czq.1_Missense_Mutation_p.R156C	NM_002109	NP_002100	P12081	SYHC_HUMAN	histidyl-tRNA synthetase	266					histidyl-tRNA aminoacylation	cytosol	ATP binding|histidine-tRNA ligase activity			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		L-Histidine(DB00117)	TCCCCAATGCGGTCAGCCACC	0.572													38	110					0	0	1	0	0		A	140056939	A	A	140056939	3	1	84	1	0	0	0	0	1	0	0	0	6975	1116	39	1	757	1	HARS	5	140056939	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	151334	140056939	40858321	424	52267											
PCDHA1	56147	broad.mit.edu	37	chr5	140167397	140167397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcgcgctgtcgaactacGtgtcagtgcacgcggagagc	8	6	15	12	7	1	1	1	0	0	1	2	3	1	1	0	1	5	2	0	1	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140167397G>A	uc003lhb.2	+	1	1522	c.1522G>A	c.(1522-1524)GTG>ATG	p.V508M	PCDHA1_uc003lha.2_Missense_Mutation_p.V508M|PCDHA1_uc003lgz.2_Missense_Mutation_p.V508M	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	508	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTCGAACTACGTGTCAGTGCA	0.687													31	127					0	0	1	0	0		A	140167397	A	A	140167397	3	1	84	1	0	0	0	0	1	0	0	0	11538	1145	40	1	1524	1	PCDHA1	5	140167397	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	110458	140167397	40747863	425	52268											
PCDHA2	56146	broad.mit.edu	37	chr5	140176708	140176708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacggtgctgctgtacactgCgctgcggtgctcggtgccac	4	9	14	14	4	0	0	0	0	0	0	1	0	0	0	1	3	7	5	1	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140176708C>T	uc003lhd.2	+	1	2265	c.2159C>T	c.(2158-2160)GCG>GTG	p.A720V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.A720V|PCDHA2_uc011czy.1_Missense_Mutation_p.A720V	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	720	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGTACACTGCGCTGCGGTGC	0.662													55	129					0	0	1	0	0		T	140176708	T	T	140176708	3	4	84	1	0	0	0	0	1	0	0	0	11543	768	27	1	2161	1	PCDHA2	5	140176708	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	9311	140176708	40738552	426	52269											
PCDHA3	56145	broad.mit.edu	37	chr5	140182372	140182372	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccacgaggagctagagctGctgcagttccaggtgagtgc	9	7	15	10	1	0	2	0	1	0	1	1	5	1	3	2	2	5	5	2	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140182372G>A	uc003lhf.2	+	1	1590	c.1590G>A	c.(1588-1590)CTG>CTA	p.L530L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.L530L	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	530	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCTAGAGCTGCTGCAGTTCC	0.692													74	246					0	0	1	0	0		A	140182372	A	A	140182372	2	1	84	1	0	0	0	0	0	0	0	1	11544	1306	46	2		2	PCDHA3	5	140182372	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	5664	140182372	40732888	427	52270											
PCDHA7	56141	broad.mit.edu	37	chr5	140215088	140215088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcatcacattgattagcGtgtttgaccgagattttgga	9	14	10	8	3	2	3	2	2	0	1	2	5	2	4	2	1	1	1	2	1	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140215088G>A	uc003lhq.2	+	1	1120	c.1120G>A	c.(1120-1122)GTG>ATG	p.V374M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.V374M	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	374	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTGATTAGCGTGTTTGACCG	0.493													47	177					0	0	1	0	0		A	140215088	A	A	140215088	3	1	84	1	0	0	0	0	1	0	0	0	11548	1145	40	1	1122	1	PCDHA7	5	140215088	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	32716	140215088	40700172	428	52271											
PCDHA13	56136	broad.mit.edu	37	chr5	140262306	140262306	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctagacctccggaaactcgAtttccactagatggcgcatc	10	10	8	13	3	1	2	0	0	1	2	5	4	3	3	3	2	1	1	3	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140262306A>G	uc003lif.2	+	1	453	c.453A>G	c.(451-453)CGA>CGG	p.R151R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.R151R|PCDHA13_uc003lid.2_Silent_p.R151R	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	151	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGAAACTCGATTTCCACTAG	0.463													5	100					0	0	1	0	0		G	140262306	G	G	140262306	2	3	84	1	0	0	0	0	0	0	0	1	11542	320	12	3		3	PCDHA13	5	140262306	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	47218	140262306	40652954	429	52272											
PCDHA13	56136	broad.mit.edu	37	chr5	140263716	140263716	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggtcggcgcgcgcatcccGttccgcgtggggctgtacac	3	7	16	15	8	0	0	0	0	0	0	3	0	2	0	2	4	1	4	2	4	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140263716G>A	uc003lif.2	+	1	1863	c.1863G>A	c.(1861-1863)CCG>CCA	p.P621P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.P621P|PCDHA13_uc003lid.2_Silent_p.P621P	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	621	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGCATCCCGTTCCGCGTGG	0.682													50	128					0	0	1	0	0		A	140263716	A	A	140263716	2	1	84	1	0	0	0	0	0	0	0	1	11542	1132	40	1		1	PCDHA13	5	140263716	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1410	140263716	40651544	430	52273											
PCDHB3	56132	broad.mit.edu	37	chr5	140482221	140482221	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgctgcatgtgctcctggTggacggcttctcccagccct	4	10	11	16	2	1	0	0	0	1	0	3	1	2	1	3	3	3	4	3	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140482221T>C	uc003lio.2	+	1	1988	c.1988T>C	c.(1987-1989)GTG>GCG	p.V663A	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	663	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTGCTCCTGGTGGACGGCTTC	0.701													41	177					0	0	1	0	0		C	140482221	C	C	140482221	3	2	84	1	0	0	0	0	1	0	0	0	11562	1696	59	3	1990	3	PCDHB3	5	140482221	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	218505	140482221	40433039	431	52274											
PCDHB5	26167	broad.mit.edu	37	chr5	140516339	140516339	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacataacggtcctggtctcCgacgtcaatgacaacgcccc	11	7	8	15	4	2	1	1	1	1	0	4	2	3	1	4	2	3	0	4	2	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140516339C>T	uc003liq.2	+	1	1540	c.1323C>T	c.(1321-1323)TCC>TCT	p.S441S		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	441	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCTGGTCTCCGACGTCAATG	0.587													76	208					0	0	1	0	0		T	140516339	T	T	140516339	2	4	84	1	0	0	0	0	0	0	0	1	11564	639	23	1		1	PCDHB5	5	140516339	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	34118	140516339	40398921	432	52275											
PCDHB5	26167	broad.mit.edu	37	chr5	140516436	140516436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacatcggcagtgtcagcGccacagacagagactcaggc	11	5	12	13	2	2	2	2	0	0	2	3	3	2	2	1	2	2	2	1	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140516436G>A	uc003liq.2	+	1	1637	c.1420G>A	c.(1420-1422)GCC>ACC	p.A474T		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	474	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGTGTCAGCGCCACAGACAG	0.642													90	234					0	0	1	0	0		A	140516436	A	A	140516436	3	1	84	1	0	0	0	0	1	0	0	0	11564	1087	38	1	1422	1	PCDHB5	5	140516436	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	97	140516436	40398824	433	52276											
PCDHB6	56130	broad.mit.edu	37	chr5	140530736	140530736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcaatcacaggagaaattCggctgagaaaggctttggat	14	8	12	7	2	1	2	1	1	0	2	2	5	1	3	0	4	0	3	0	4	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140530736C>T	uc003lir.2	+	1	898	c.898C>T	c.(898-900)CGG>TGG	p.R300W	PCDHB6_uc011dah.1_Missense_Mutation_p.R164W	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	300	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGAGAAATTCGGCTGAGAAA	0.443													28	56					0	0	1	0	0		T	140530736	T	T	140530736	3	4	84	1	0	0	0	0	1	0	0	0	11565	875	31	1	900	1	PCDHB6	5	140530736	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	14300	140530736	40384524	434	52277											
PCDHB6	56130	broad.mit.edu	37	chr5	140531711	140531711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatggcgaggtgcgcaccGccaggctgctgagcgagcga	9	4	16	12	5	0	1	0	1	0	0	0	4	0	1	2	3	4	3	2	3	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140531711G>A	uc003lir.2	+	1	1873	c.1873G>A	c.(1873-1875)GCC>ACC	p.A625T	PCDHB6_uc011dah.1_Missense_Mutation_p.A489T	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	625	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGTGCGCACCGCCAGGCTGCT	0.687													36	94					0	0	1	0	0		A	140531711	A	A	140531711	3	1	84	1	0	0	0	0	1	0	0	0	11565	1087	38	1	1875	1	PCDHB6	5	140531711	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	975	140531711	40383549	435	52278											
PCDHB12	56124	broad.mit.edu	37	chr5	140590139	140590139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcgtgctggtgctggacGccaacgacaactcgcccttc	6	8	12	15	5	0	0	0	0	0	0	2	2	0	1	2	2	5	2	2	2	2	1	rs145232861	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140590139G>A	uc003liz.2	+	1	1849	c.1660G>A	c.(1660-1662)GCC>ACC	p.A554T	PCDHB12_uc011dak.1_Missense_Mutation_p.A217T	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	554	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGTGCTGGACGCCAACGACAA	0.711													31	115					0	0	1	0	0		A	140590139	A	A	140590139	3	1	84	1	0	0	0	0	1	0	0	0	11556	1087	38	1	1662	1	PCDHB12	5	140590139	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	58428	140590139	40325121	436	52279											
PCDHB13	56123	broad.mit.edu	37	chr5	140594674	140594675	+	Missense_Mutation	DNP	AC	GG	GG																															ttgaggcaagagatgctggaAccttttctggaaaatgcacc																								rs114453992	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140594674_140594675AC>GG	uc003lja.1	+	1	1166_1167	c.979_980AC>GG	c.(979-981)ACC>GGC	p.T327G		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	327	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGATGCTGGAACCTTTTCTGGA	0.406													42	118					0	0	1	0	0		GG	140594675	GG	GG	140594674	3	3	84	1	0	0	0	0	1	0	0	0	11557	43	2	3	981	3	PCDHB13	5	140594674	Missense_Mutation	DNP	AC	TCGA-BR-8591-01A-11D-2394-08	4535	140594674	40320586	437	52280											
PCDHGA2	56113	broad.mit.edu	37	chr5	140720214	140720214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggaccagaacgacaacgCgcccgagatcctgtaccctg	10	5	11	15	4	0	2	0	0	0	2	1	5	1	3	4	1	3	2	4	1	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140720214C>T	uc003ljk.1	+	1	1861	c.1676C>T	c.(1675-1677)GCG>GTG	p.A559V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.A559V	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	559	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACGACAACGCGCCCGAGATC	0.622													82	252					0	0	1	0	0		T	140720214	T	T	140720214	3	4	84	1	0	0	0	0	1	0	0	0	11573	768	27	1	1678	1	PCDHGA2	5	140720214	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	125540	140720214	40195046	438	52281											
PCDHGA6	56109	broad.mit.edu	37	chr5	140755320	140755320	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgtgctggaccagaatgAcaatgcgcccgagatcctgt	9	10	12	10	2	0	3	0	1	0	2	1	5	1	4	3	1	2	2	3	1	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140755320A>G	uc003ljy.1	+	1	1670	c.1670A>G	c.(1669-1671)GAC>GGC	p.D557G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.D557G	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	557	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACCAGAATGACAATGCGCCC	0.642													70	231					0	0	1	0	0		G	140755320	G	G	140755320	3	3	84	1	0	0	0	0	1	0	0	0	11577	275	10	3	1672	3	PCDHGA6	5	140755320	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	35106	140755320	40159940	439	52282											
PCDHGB4	8641	broad.mit.edu	37	chr5	140768971	140768971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctacgtgtccataagcgCggagagcggggtggtgttcg	7	9	16	9	5	0	1	0	0	0	1	3	2	2	1	2	4	3	1	2	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140768971C>T	uc003lkc.1	+	1	1520	c.1520C>T	c.(1519-1521)GCG>GTG	p.A507V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.A507V	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	507	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCATAAGCGCGGAGAGCGGG	0.657													30	95					0	0	1	0	0		T	140768971	T	T	140768971	3	4	84	1	0	0	0	0	1	0	0	0	11584	768	27	1	1522	1	PCDHGB4	5	140768971	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	13651	140768971	40146289	440	52283											
PCDHGB5	56101	broad.mit.edu	37	chr5	140779318	140779318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctgcgctcagcgcaaacGtgagcctgcgcgtgttggtg	5	8	15	13	6	1	1	1	1	0	0	1	1	1	1	2	1	5	3	2	1	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140779318G>A	uc003lkf.1	+	1	1624	c.1624G>A	c.(1624-1626)GTG>ATG	p.V542M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.V542M	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	542	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCGCAAACGTGAGCCTGCG	0.672													23	43					0	0	1	0	0		A	140779318	A	A	140779318	3	1	84	1	0	0	0	0	1	0	0	0	11585	1145	40	1	1626	1	PCDHGB5	5	140779318	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	10347	140779318	40135942	441	52284											
PCDHGA11	56105	broad.mit.edu	37	chr5	140802536	140802536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcgtggagctggcgccccGctctgcggaacctggctacc	4	7	15	15	4	1	0	0	0	1	0	1	2	1	2	4	5	4	3	4	5	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140802536G>A	uc003lkq.1	+	1	2000	c.1742G>A	c.(1741-1743)CGC>CAC	p.R581H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.R581H|PCDHGA11_uc003lkp.1_Missense_Mutation_p.R581H	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	581	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGCGCCCCGCTCTGCGGAA	0.637													13	267					0	0	1	0	0		A	140802536	A	A	140802536	3	1	84	1	0	0	0	0	1	0	0	0	11571	1087	38	1	1744	1	PCDHGA11	5	140802536	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	23218	140802536	40112724	442	52285											
PCDHGA11	56105	broad.mit.edu	37	chr5	140802793	140802793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctcaccgtggctgtggccGacagcatccccgaagtcctg	6	7	12	16	4	1	0	1	0	0	0	3	2	3	0	5	2	1	3	5	2	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140802793G>A	uc003lkq.1	+	1	2257	c.1999G>A	c.(1999-2001)GAC>AAC	p.D667N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.D667N|PCDHGA11_uc003lkp.1_Intron	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	667	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCTGTGGCCGACAGCATCCC	0.672													7	114					0	0	1	0	0		A	140802793	A	A	140802793	3	1	84	1	0	0	0	0	1	0	0	0	11571	1058	37	1	2001	1	PCDHGA11	5	140802793	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	257	140802793	40112467	443	52286											
PCDHGC3	5098	broad.mit.edu	37	chr5	140856568	140856568	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccggcgtgcggcaactattCgccttagaccttgtaaccgg	7	9	12	13	5	0	1	0	0	0	1	1	1	0	1	4	3	3	2	4	3	4	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140856568C>T	uc003lkv.1	+	1	1000	c.885C>T	c.(883-885)TTC>TTT	p.F295F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Silent_p.F295F|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	295	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCAACTATTCGCCTTAGACC	0.547													33	106					0	0	1	0	0		T	140856568	T	T	140856568	2	4	84	1	0	0	0	0	0	0	0	1	11588	883	31	1		1	PCDHGC3	5	140856568	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	53775	140856568	40058692	444	52287											
PCDHGC4	56098	broad.mit.edu	37	chr5	140866151	140866151	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgagaacaatcgcccaGgggacctgctttgctccctt	7	11	9	14	1	0	1	0	1	0	1	3	3	2	2	4	2	3	2	4	2	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:140866151G>T	uc003lky.1	+	1	1411	c.1411G>T	c.(1411-1413)GGG>TGG	p.G471W	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Missense_Mutation_p.G471W|PCDHGC5_uc011dbc.1_5'Flank|PCDHGC5_uc003lla.1_5'Flank	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	471	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAATCGCCCAGGGGACCTGCT	0.488													43	130					2.24893e-16	2.50328e-16	1	1	0		T	140866151	T	T	140866151	3	4	84	1	0	0	0	0	1	0	0	0	11589	1000	35	5	1413	5	PCDHGC4	5	140866151	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	9583	140866151	40049109	445	52288											
SPINK5	11005	broad.mit.edu	37	chr5	147494018	147494018	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcccagatggcaagaccCatggcaacaagtgtgccatg	11	6	13	11	0	0	2	0	0	0	2	0	2	0	2	3	3	2	2	3	3	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:147494018C>A	uc003lox.2	+	21	2054	c.1981C>A	c.(1981-1983)CAT>AAT	p.H661N	SPINK5_uc010jgs.1_Missense_Mutation_p.H633N|SPINK5_uc010jgr.2_Missense_Mutation_p.H642N|SPINK5_uc003low.2_Missense_Mutation_p.H661N|SPINK5_uc003loy.2_Missense_Mutation_p.H661N	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	661	Kazal-like 10.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGCAAGACCCATGGCAACAA	0.463													16	53					6.31663e-08	6.73825e-08	1	1	0		A	147494018	A	A	147494018	3	1	84	1	0	0	0	0	1	0	0	0	15087	594	21	5	2063	5	SPINK5	5	147494018	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	6627867	147494018	33421242	446	52289											
NDST1	3340	broad.mit.edu	37	chr5	149900963	149900963	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaggcctggagccctcggcGgatgcccccgagcctgactg	5	5	15	16	4	0	1	0	1	0	0	1	5	0	3	5	4	3	0	5	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:149900963G>A	uc003lsk.3	+	2	649	c.147G>A	c.(145-147)GCG>GCA	p.A49A	NDST1_uc011dcj.1_Silent_p.A49A|NDST1_uc003lsl.2_Silent_p.A49A	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	49	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGCCCTCGGCGGATGCCCCCG	0.652													38	106					0	0	1	0	0		A	149900963	A	A	149900963	2	1	84	1	0	0	0	0	0	0	0	1	10274	1103	39	1		1	NDST1	5	149900963	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2406945	149900963	31014297	447	52290											
FAT2	2196	broad.mit.edu	37	chr5	150885514	150885514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggggaagcccccatagaggCcattaggctctggcatcacg	10	6	13	12	1	2	1	1	0	1	1	2	2	2	2	3	5	1	2	3	5	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:150885514C>T	uc003lue.3	-	23	12675	c.12662G>A	c.(12661-12663)GGC>GAC	p.G4221D	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.G828D	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	4221	Cytoplasmic (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCCATAGAGGCCATTAGGCTC	0.612													78	207					0	0	1	0	0		T	150885514	T	T	150885514	3	4	84	1	0	0	0	0	1	0	0	0	5704	739	26	2	391	2	FAT2	5	150885514	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	984551	150885514	30029746	448	52291											
MRPL22	29093	broad.mit.edu	37	chr5	154346297	154346297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaaacgcatccgctaccatgGcagaggtcgctttgggatca	10	8	12	11	3	1	1	1	0	0	1	3	3	2	2	2	3	2	4	2	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:154346297G>A	uc003lvy.3	+	7	499	c.461G>A	c.(460-462)GGC>GAC	p.G154D	MRPL22_uc003lvz.3_Missense_Mutation_p.G74D	NM_014180	NP_054899	Q9NWU5	RM22_HUMAN	mitochondrial ribosomal protein L22 isoform a	154					translation	large ribosomal subunit|mitochondrion	structural constituent of ribosome				0	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CGCTACCATGGCAGAGGTCGC	0.502													29	107					0	0	1	0	0		A	154346297	A	A	154346297	3	1	84	1	0	0	0	0	1	0	0	0	9806	1203	42	2	487	2	MRPL22	5	154346297	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3460783	154346297	26568963	449	52292											
LCP2	3937	broad.mit.edu	37	chr5	169693822	169693822	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatacccacctagtgtgaaGggttctctatcaaacggagc	11	10	9	11	1	3	1	2	1	1	0	4	2	3	2	2	2	3	1	2	2	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:169693822G>T	uc003man.1	-	10	969	c.762C>A	c.(760-762)CCC>CCA	p.P254P	LCP2_uc011des.1_Silent_p.P49P|LCP2_uc011det.1_Silent_p.P83P|LCP2_uc010jjo.1_Silent_p.P61P	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	254					immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		CTAGTGTGAAGGGTTCTCTAT	0.368													40	161					8.69298e-16	9.62082e-16	1	1	0		T	169693822	T	T	169693822	2	4	84	1	0	0	0	0	0	0	0	1	8708	987	35	5		5	LCP2	5	169693822	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	15347525	169693822	11221438	450	52293											
RANBP17	64901	broad.mit.edu	37	chr5	170346619	170346619	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgttgccatagttgtgaggTattcaaaaactaaatgtttt	12	16	8	5	0	1	1	1	1	0	0	1	1	1	1	1	1	2	4	1	1	6	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:170346619T>C	uc003mba.2	+	11	1290	c.1274_splice	c.e11+2	p.R425_splice	RANBP17_uc003max.1_Splice_Site|RANBP17_uc003may.1_Splice_Site|RANBP17_uc003maz.1_Splice_Site|RANBP17_uc010jjr.1_Splice_Site	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17						mRNA transport|protein import into nucleus|transmembrane transport	cytoplasm|nuclear pore	GTP binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00751)|all_lung(126;0.0123)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AGTTGTGAGGTATTCAAAAAC	0.294			T	TRD@	ALL								16	84					0	0	1	0	0		C	170346619	C	C	170346619	5	2	84	1	0	0	0	0	0	0	1	0	13052	1652	57	3	1318	3	RANBP17	5	170346619	Splice_Site	SNP	T	TCGA-BR-8591-01A-11D-2394-08	652797	170346619	10568641	451	52294											
CPEB4	80315	broad.mit.edu	37	chr5	173376544	173376544	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagttttcgtcgctttggccCtctgattgtggattggcctc	3	17	11	10	2	1	1	0	1	1	0	4	2	1	2	2	3	0	2	2	3	1	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:173376544C>A	uc003mcs.3	+	6	2896	c.1490C>A	c.(1489-1491)CCT>CAT	p.P497H	CPEB4_uc010jju.1_Missense_Mutation_p.P472H|CPEB4_uc010jjv.2_Missense_Mutation_p.P480H|CPEB4_uc011dfg.1_Missense_Mutation_p.P472H|CPEB4_uc003mct.3_Missense_Mutation_p.P107H|CPEB4_uc003mcu.3_Missense_Mutation_p.P90H	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	497	RRM 1.						nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CGCTTTGGCCCTCTGATTGTG	0.303													6	31					5.18039e-06	5.41997e-06	1	1	0		A	173376544	A	A	173376544	3	1	84	1	0	0	0	0	1	0	0	0	3806	681	24	5	1512	5	CPEB4	5	173376544	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3029925	173376544	7538716	452	52295											
FGFR4	2264	broad.mit.edu	37	chr5	176518804	176518804	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctataactacctgctagatgTgctgggtgagcgcggggctg	7	10	15	9	2	0	2	0	1	0	1	0	2	0	2	1	3	5	3	1	3	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:176518804T>C	uc003mfl.2	+	6	889	c.722T>C	c.(721-723)GTG>GCG	p.V241A	FGFR4_uc003mfm.2_Missense_Mutation_p.V241A|FGFR4_uc011dfu.1_Missense_Mutation_p.V241A|FGFR4_uc011dfw.1_Missense_Mutation_p.V241A|FGFR4_uc003mfo.2_Missense_Mutation_p.V241A	NM_002011	NP_002002	P22455	FGFR4_HUMAN	fibroblast growth factor receptor 4 isoform 1	241	Extracellular (Potential).				insulin receptor signaling pathway|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity			lung(11)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|prostate(1)	16	all_cancers(89;5.93e-05)|Renal(175;0.000269)|Lung NSC(126;0.0088)|all_lung(126;0.0142)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Palifermin(DB00039)	CTGCTAGATGTGCTGGGTGAG	0.612										TSP Lung(9;0.080)			17	97					0	0	1	0	0		C	176518804	C	C	176518804	3	2	84	1	0	0	0	0	1	0	0	0	5882	1696	59	3	740	3	FGFR4	5	176518804	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3142260	176518804	4396456	453	52296											
ADAMTS2	9509	broad.mit.edu	37	chr5	178541286	178541286	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagcgggacaagacttccAtcctacagaatattgacttg	14	10	8	9	1	0	3	0	1	0	2	2	4	2	4	2	1	2	0	2	1	6	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:178541286A>G	uc003mjw.2	-	22	3218	c.3218T>C	c.(3217-3219)ATG>ACG	p.M1073T	uc003mjv.3_5'Flank	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1073	PLAC.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CAAGACTTCCATCCTACAGAA	0.493													5	42					0	0	1	0	0		G	178541286	G	G	178541286	3	3	84	1	0	0	0	0	1	0	0	0	265	217	8	3	421	3	ADAMTS2	5	178541286	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2022482	178541286	2373974	454	52297											
TBC1D9B	23061	broad.mit.edu	37	chr5	179290791	179290791	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acagcagctgggagggtgagCcctgtccctcgccgctgccc	5	6	14	16	2	0	1	0	1	0	0	2	2	1	2	4	2	4	3	4	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr5:179290791C>G	uc003mlh.2	-	22	3447	c.3410G>C	c.(3409-3411)GGC>GCC	p.G1137A	TBC1D9B_uc003mli.2_Missense_Mutation_p.G1120A|TBC1D9B_uc003mlj.2_Missense_Mutation_p.G1119A|TBC1D9B_uc003mlf.2_Missense_Mutation_p.G211A|TBC1D9B_uc003mlg.2_Missense_Mutation_p.G296A|TBC1D9B_uc011dgv.1_Missense_Mutation_p.G296A	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	1137						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGAGGGTGAGCCCTGTCCCTC	0.622													45	132					0	0	1	0	0		G	179290791	G	G	179290791	3	3	84	1	0	0	0	0	1	0	0	0	15653	739	26	5	346	5	TBC1D9B	5	179290791	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	749505	179290791	1624469	455	52298											
FOXF2	2295	broad.mit.edu	37	chr6	1390484	1390484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcggcggcccgagaagcCgccctactcgtacatcgcgc	6	5	13	17	7	0	1	0	0	0	1	2	2	0	1	3	2	4	2	3	2	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:1390484C>T	uc003mtm.2	+	1	416	c.302C>T	c.(301-303)CCG>CTG	p.P101L	FOXF2_uc003mtn.2_Missense_Mutation_p.P101L	NM_001452	NP_001443	Q12947	FOXF2_HUMAN	forkhead box F2	101	Fork-head.				epithelial to mesenchymal transition|genitalia development|palate development|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0	Ovarian(93;0.0733)	all_lung(73;0.0713)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.095)		CCCGAGAAGCCGCCCTACTCG	0.532													14	21					0	0	1	0	0		T	1390484	T	T	1390484	3	4	84	1	0	0	0	0	1	0	0	0	6020	652	23	1	304	1	FOXF2	6	1390484	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08		1390484	169724583	456	52299											
BMP6	654	broad.mit.edu	37	chr6	7727443	7727443	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcagaaggagatcttgtcGgtgctggggctcccgcaccg	7	8	15	11	3	1	2	0	0	1	2	3	3	2	2	2	4	2	4	2	4	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:7727443G>A	uc003mxu.3	+	1	433	c.255G>A	c.(253-255)TCG>TCA	p.S85S		NM_001718	NP_001709	P22004	BMP6_HUMAN	bone morphogenetic protein 6 preproprotein	85					BMP signaling pathway|cartilage development|growth|immune response|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	BMP receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity			large_intestine(2)|ovary(1)	3	Ovarian(93;0.0721)					AGATCTTGTCGGTGCTGGGGC	0.617													3	14					0	0	1	0	0		A	7727443	A	A	7727443	2	1	84	1	0	0	0	0	0	0	0	1	1465	1103	39	1		1	BMP6	6	7727443	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	6336959	7727443	163387624	457	52300											
HIVEP1	3096	broad.mit.edu	37	chr6	12121648	12121648	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccaagcagtccagaaaaTgtgataggtgactttttgct	12	12	9	8	0	0	3	0	2	0	1	2	3	2	3	2	1	2	2	2	1	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:12121648T>A	uc003nac.2	+	4	1799	c.1620T>A	c.(1618-1620)AAT>AAA	p.N540K	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	540					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				GTCCAGAAAATGTGATAGGTG	0.458													15	49					0	0	1	0	0		A	12121648	A	A	12121648	3	1	84	1	0	0	0	0	1	0	0	0	7202	1461	51	5	1630	5	HIVEP1	6	12121648	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	4394205	12121648	158993419	458	52301											
JARID2	3720	broad.mit.edu	37	chr6	15513182	15513182	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatagctaagccattctccAtggagaagttactctaccag	13	11	7	10	0	2	1	0	0	2	1	3	2	2	1	3	1	4	2	3	1	6	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:15513182A>G	uc003nbj.2	+	15	3416	c.3172A>G	c.(3172-3174)ATG>GTG	p.M1058V	JARID2_uc011div.1_Missense_Mutation_p.M886V	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	1058					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				GCCATTCTCCATGGAGAAGTT	0.463													59	171					0	0	1	0	0		G	15513182	G	G	15513182	3	3	84	1	0	0	0	0	1	0	0	0	7961	217	8	3	3230	3	JARID2	6	15513182	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	3391534	15513182	155601885	459	52302											
RBM24	221662	broad.mit.edu	37	chr6	17292179	17292179	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagtacccctatgcagcCtctccagctgctgcaggata	9	8	9	15	0	1	0	0	0	1	0	2	2	1	1	5	1	6	5	5	1	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:17292179C>A	uc003nbz.3	+	4	544	c.540C>A	c.(538-540)GCC>GCA	p.A180A	RBM24_uc003nby.3_3'UTR|RBM24_uc011dix.1_Silent_p.A122A|RBM24_uc003nca.2_Silent_p.A135A|RBM24_uc011diy.1_Missense_Mutation_p.P94H|RBM24_uc011diz.1_Missense_Mutation_p.P79H	NM_001143942	NP_001137414	Q9BX46	RBM24_HUMAN	RNA binding motif protein 24 isoform 1	180	Ala-rich.				cell differentiation|regulation of mRNA stability|regulation of myotube differentiation	cytoplasm|nucleus	mRNA 3'-UTR binding|nucleotide binding			ovary(1)|skin(1)	2	Breast(50;0.0615)|Ovarian(93;0.0733)	all_hematologic(90;0.062)	all cancers(50;0.131)|Epithelial(50;0.15)			CCTATGCAGCCTCTCCAGCTG	0.433													21	39					4.96729e-08	5.3086e-08	1	1	0		A	17292179	A	A	17292179	2	1	84	1	0	0	0	0	0	0	0	1	13149	668	24	5		5	RBM24	6	17292179	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1778997	17292179	153822888	460	52303											
GPLD1	2822	broad.mit.edu	37	chr6	24436912	24436912	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggccgtcttctcccccaatCagtccagaggttacatctgc	7	10	8	16	2	4	1	1	0	3	1	6	1	5	1	4	2	2	1	4	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:24436912C>T	uc003ned.1	-	22	2361	c.2250G>A	c.(2248-2250)CTG>CTA	p.L750L		NM_001503	NP_001494	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific	750	FG-GAP 6.					extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3						CTCCCCCAATCAGTCCAGAGG	0.453													21	57					0	0	1	0	0		T	24436912	T	T	24436912	2	4	84	1	0	0	0	0	0	0	0	1	6629	813	29	4		4	GPLD1	6	24436912	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	7144733	24436912	146678155	461	52304											
HIST1H2AA	221613	broad.mit.edu	37	chr6	25726456	25726456	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccctgggcaatggtcacGccgcccaaaagcttattgag	9	7	11	14	3	1	1	1	1	0	0	1	1	1	1	4	2	1	2	4	2	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:25726456G>A	uc003nfc.2	-	1	335	c.300C>T	c.(298-300)GGC>GGT	p.G100G	HIST1H2BA_uc003nfd.2_5'Flank	NM_170745	NP_734466	Q96QV6	H2A1A_HUMAN	histone cluster 1, H2aa	100					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CAATGGTCACGCCGCCCAAAA	0.522													56	157					0	0	1	0	0		A	25726456	A	A	25726456	2	1	84	1	0	0	0	0	0	0	0	1	7144	1074	38	1		1	HIST1H2AA	6	25726456	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1289544	25726456	145388611	462	52305											
BTN2A2	10385	broad.mit.edu	37	chr6	26385502	26385502	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggccctggtcatacataaCgtcacagcccaggagaatgg	11	7	12	11	1	2	1	2	0	0	1	2	2	2	1	2	4	3	0	2	4	3	2	rs143017993		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:26385502C>T	uc003nhq.2	+	3	440	c.354C>T	c.(352-354)AAC>AAT	p.N118N	BTN2A2_uc011dkf.1_Intron|BTN2A2_uc011dkg.1_Silent_p.N118N|BTN2A2_uc003nhr.2_Intron|BTN2A2_uc011dkh.1_Intron|BTN2A2_uc003nhs.2_Silent_p.N118N|BTN2A2_uc003nht.2_Silent_p.N118N	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	118	Extracellular (Potential).|Ig-like V-type.				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						TCATACATAACGTCACAGCCC	0.552													27	55					0	0	1	0	0		T	26385502	T	T	26385502	2	4	84	1	0	0	0	0	0	0	0	1	1564	535	19	1		1	BTN2A2	6	26385502	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	659046	26385502	144729565	463	52306											
BTN2A1	11120	broad.mit.edu	37	chr6	26463679	26463679	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgatcatcagagacaagtCtgtgaggaacatgtcctgct	11	11	11	8	0	3	3	2	2	1	1	4	5	4	4	1	1	2	1	1	1	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:26463679C>A	uc003nib.1	+	4	850	c.638C>A	c.(637-639)TCT>TAT	p.S213Y	BTN2A1_uc003nic.1_Missense_Mutation_p.S213Y|BTN2A1_uc003nid.1_Missense_Mutation_p.S61Y|BTN2A1_uc011dko.1_Missense_Mutation_p.S152Y|BTN2A1_uc010jqk.1_5'Flank	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1	213	Extracellular (Potential).				lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						AGAGACAAGTCTGTGAGGAAC	0.532													58	149					7.47603e-22	8.42928e-22	1	1	0		A	26463679	A	A	26463679	3	1	84	1	0	0	0	0	1	0	0	0	1563	913	32	5	648	5	BTN2A1	6	26463679	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	78177	26463679	144651388	464	52307											
TRIM39	56658	broad.mit.edu	37	chr6	30297398	30297398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccgtcaagcggaagatcCgggatgagagcctctgcccc	9	5	14	13	3	2	2	1	1	1	2	3	5	3	4	5	3	3	0	5	3	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:30297398C>T	uc010jrz.2	+	3	616	c.304C>T	c.(304-306)CGG>TGG	p.R102W	HCG18_uc003npx.2_5'Flank|HCG18_uc003npy.2_5'Flank|TRIM39_uc003npz.2_Missense_Mutation_p.R102W|TRIM39_uc003nqb.2_Missense_Mutation_p.R102W|TRIM39_uc003nqc.2_Missense_Mutation_p.R102W|TRIM39_uc010jsa.1_Missense_Mutation_p.R102W	NM_021253	NP_067076	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 1	102	B box-type.				apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						GCGGAAGATCCGGGATGAGAG	0.552													23	46					0	0	1	0	0		T	30297398	T	T	30297398	3	4	84	1	0	0	0	0	1	0	0	0	16539	643	23	1	306	1	TRIM39	6	30297398	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3833719	30297398	140817669	465	52308											
DDR1	780	broad.mit.edu	37	chr6	30858775	30858775	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggcaatgaggaccctgAgggagtggtgctgaaggacc	10	6	16	9	0	1	3	1	3	0	0	1	6	1	6	2	5	1	2	2	5	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:30858775A>G	uc003nrr.2	+	6	702	c.443A>G	c.(442-444)GAG>GGG	p.E148G	DDR1_uc010jse.2_Missense_Mutation_p.E148G|DDR1_uc003nrq.2_Missense_Mutation_p.E148G|DDR1_uc003nrs.2_Missense_Mutation_p.E148G|DDR1_uc003nrt.2_Missense_Mutation_p.E148G|DDR1_uc011dms.1_Missense_Mutation_p.E166G|DDR1_uc011dmt.1_Missense_Mutation_p.E174G|DDR1_uc003nru.2_Missense_Mutation_p.E148G|DDR1_uc011dmu.1_Missense_Mutation_p.E148G|DDR1_uc003nrv.2_Missense_Mutation_p.E148G|DDR1_uc003nrw.1_5'Flank|DDR1_uc003nry.1_5'Flank|DDR1_uc003nrx.1_5'Flank	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	148	Extracellular (Potential).|F5/8 type C.				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	GAGGACCCTGAGGGAGTGGTG	0.632													23	67					0	0	1	0	0		G	30858775	G	G	30858775	3	3	84	1	0	0	0	0	1	0	0	0	4339	304	11	3	457	3	DDR1	6	30858775	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	561377	30858775	140256292	466	52309											
APOM	55937	broad.mit.edu	37	chr6	31625431	31625431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatcctcccgaaaagtgtGtggaggaattcaagtccctg	11	9	10	11	1	1	0	1	0	0	0	4	3	4	2	3	2	0	0	3	2	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:31625431G>A	uc003nvl.2	+	5	545	c.472G>A	c.(472-474)GTG>ATG	p.V158M	APOM_uc003nvk.2_Missense_Mutation_p.V86M	NM_019101	NP_061974	O95445	APOM_HUMAN	apolipoprotein M	158					cholesterol efflux|high-density lipoprotein particle assembly|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|negative regulation of plasma lipoprotein particle oxidation|reverse cholesterol transport	discoidal high-density lipoprotein particle|integral to plasma membrane|low-density lipoprotein particle|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	binding|lipid transporter activity				0						CGAAAAGTGTGTGGAGGAATT	0.507													56	152					0	0	1	0	0		A	31625431	A	A	31625431	3	1	84	1	0	0	0	0	1	0	0	0	812	1377	48	4	490	4	APOM	6	31625431	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	766656	31625431	139489636	467	52310											
EHMT2	10919	broad.mit.edu	37	chr6	31848498	31848498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaactgaagaaggcgatgCgtggaaatcgcaggtcttgg	11	7	17	6	3	1	2	0	1	1	1	2	5	1	4	0	5	2	1	0	5	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:31848498C>T	uc003nxz.1	-	27	3414	c.3404G>A	c.(3403-3405)CGC>CAC	p.R1135H	EHMT2_uc003nxv.1_Missense_Mutation_p.R174H|EHMT2_uc003nxw.1_Missense_Mutation_p.R174H|EHMT2_uc003nxx.1_Missense_Mutation_p.R333H|EHMT2_uc003nxy.1_Missense_Mutation_p.R933H|EHMT2_uc011don.1_Missense_Mutation_p.R1158H|EHMT2_uc003nya.1_Missense_Mutation_p.R1101H|SLC44A4_uc010jti.2_5'Flank|SLC44A4_uc011dom.1_5'Flank	NM_006709	NP_006700	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	1135	SET.				DNA methylation|peptidyl-lysine dimethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			ovary(1)	1						GAAGGCGATGCGTGGAAATCG	0.582													22	75					0	0	1	0	0		T	31848498	T	T	31848498	3	4	84	1	0	0	0	0	1	0	0	0	4990	768	27	1	236	1	EHMT2	6	31848498	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	223067	31848498	139266569	468	52311											
SKIV2L	6499	broad.mit.edu	37	chr6	31933701	31933701	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagatggcaggccgggcaGggcggaggggcctggacccc	6	3	20	12	2	0	1	0	0	0	1	0	3	0	3	4	8	1	3	4	8	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:31933701G>T	uc003nyn.1	+	18	2502	c.2113G>T	c.(2113-2115)GGG>TGG	p.G705W	SKIV2L_uc011dou.1_Missense_Mutation_p.G547W|SKIV2L_uc011dov.1_Missense_Mutation_p.G512W	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	705	Helicase C-terminal.					nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						AGGCCGGGCAGGGCGGAGGGG	0.647													14	26					1.5842e-08	1.7014e-08	1	1	0		T	31933701	T	T	31933701	3	4	84	1	0	0	0	0	1	0	0	0	14384	1000	35	5	2183	5	SKIV2L	6	31933701	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	85203	31933701	139181366	469	52312											
TNXB	7148	broad.mit.edu	37	chr6	32024393	32024393	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgacagagatggggcccaCgcgctggccaccgtggaagc	10	4	15	12	3	0	2	0	1	0	1	0	4	0	3	3	4	1	1	3	4	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:32024393C>T	uc003nzl.2	-	23	8315	c.8113G>A	c.(8113-8115)GTG>ATG	p.V2705M		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2765	Fibronectin type-III 19.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						ATGGGGCCCACGCGCTGGCCA	0.632													18	56					0	0	1	0	0		T	32024393	T	T	32024393	3	4	84	1	0	0	0	0	1	0	0	0	16371	536	19	1	6688	1	TNXB	6	32024393	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	90692	32024393	139090674	470	52313											
TNXB	7148	broad.mit.edu	37	chr6	32035489	32035489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgcccctcgtggaggcCgtacaggtgcatcttgtact	5	9	13	14	4	1	0	0	0	1	0	2	1	1	1	4	3	3	3	4	3	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:32035489C>T	uc003nzl.2	-	18	6695	c.6493G>A	c.(6493-6495)GGC>AGC	p.G2165S		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2237	Fibronectin type-III 14.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TCGTGGAGGCCGTACAGGTGC	0.672													7	86					0	0	1	0	0		T	32035489	T	T	32035489	3	4	84	1	0	0	0	0	1	0	0	0	16371	652	23	1	8328	1	TNXB	6	32035489	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	11096	32035489	139079578	471	52314											
TAP2	6891	broad.mit.edu	37	chr6	32797230	32797230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcctcatccaggatgaggaCccgcgggtctcgtacaaggg	9	6	14	12	3	2	1	1	1	1	0	4	3	3	3	3	4	2	1	3	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:32797230C>T	uc003occ.2	-	10	1910	c.1879G>A	c.(1879-1881)GTC>ATC	p.V627I	TAP2_uc011dqf.1_Missense_Mutation_p.V627I|TAP2_uc003ocb.1_Missense_Mutation_p.V627I|TAP2_uc003ocd.2_Missense_Mutation_p.V627I	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	627	ABC transporter.|Cytoplasmic (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						AGGATGAGGACCCGCGGGTCT	0.617													8	28					0	0	1	0	0		T	32797230	T	T	32797230	3	4	84	1	0	0	0	0	1	0	0	0	15576	507	18	4	274	4	TAP2	6	32797230	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	761741	32797230	138317837	472	52315											
RGL2	5863	broad.mit.edu	37	chr6	33264534	33264534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcggagccgtcgggaggaaCgtgggggaggcatagggacc	8	4	20	9	4	0	0	0	0	0	0	2	5	0	5	2	7	2	1	2	7	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:33264534C>T	uc003odv.2	-	4	393	c.260G>A	c.(259-261)CGT>CAT	p.R87H	RGL2_uc003odu.2_5'Flank|RGL2_uc010jur.2_5'UTR|RGL2_uc003odw.2_Missense_Mutation_p.R5H|RGL2_uc011drb.1_Missense_Mutation_p.R5H	NM_004761	NP_004752	O15211	RGL2_HUMAN	ral guanine nucleotide dissociation	87					Ras protein signal transduction|regulation of small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity			skin(3)|lung(1)|breast(1)|pancreas(1)	6						TCGGGAGGAACGTGGGGGAGG	0.577													14	56					0	0	1	0	0		T	33264534	T	T	33264534	3	4	84	1	0	0	0	0	1	0	0	0	13302	536	19	1	2133	1	RGL2	6	33264534	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	467304	33264534	137850533	473	52316											
TAPBP	6892	broad.mit.edu	37	chr6	33281536	33281536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggttcccccggtccctggCgcaacagcagtgcaccgggt	5	6	14	16	4	0	0	0	0	0	0	2	0	2	0	4	4	3	4	4	4	1	1	rs145263363		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:33281536C>T	uc003odx.1	-	2	314	c.143G>A	c.(142-144)CGC>CAC	p.R48H	TAPBP_uc010jus.1_Missense_Mutation_p.R48H|TAPBP_uc003ody.2_Missense_Mutation_p.R48H|TAPBP_uc003odz.2_Missense_Mutation_p.R48H|TAPBP_uc010jut.1_Missense_Mutation_p.R48H|TAPBP_uc011drc.1_Missense_Mutation_p.R48H	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	48	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1						CGGTCCCTGGCGCAACAGCAG	0.677													32	57					0	0	1	0	0		T	33281536	T	T	33281536	3	4	84	1	0	0	0	0	1	0	0	0	15577	768	27	1	1411	1	TAPBP	6	33281536	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	17002	33281536	137833531	474	52317											
ANKS1A	23294	broad.mit.edu	37	chr6	34953019	34953019	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactccacgaacaaggaggcTgaggcagcaggagtgaaacc	14	3	14	10	1	0	2	0	2	0	0	1	6	1	4	2	4	3	3	2	4	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:34953019T>C	uc003ojx.3	+	8	1315	c.1173T>C	c.(1171-1173)GCT>GCC	p.A391A	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	391						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						ACAAGGAGGCTGAGGCAGCAG	0.597													28	76					0	0	1	0	0		C	34953019	C	C	34953019	2	2	84	1	0	0	0	0	0	0	0	1	688	1567	55	3		3	ANKS1A	6	34953019	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1671483	34953019	136162048	475	52318											
PI16	221476	broad.mit.edu	37	chr6	36927008	36927008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagcgcgggcgccgcggcGagaatctgttcgccatcaca	8	5	15	13	7	2	1	1	0	1	1	3	3	2	2	2	3	1	1	2	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:36927008G>A	uc003ona.2	+	2	587	c.259G>A	c.(259-261)GAG>AAG	p.E87K	PI16_uc003omz.1_Missense_Mutation_p.E87K|PI16_uc003onb.2_Missense_Mutation_p.E87K|PI16_uc011dts.1_5'Flank	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	87	Extracellular (Potential).					extracellular region|integral to membrane	peptidase inhibitor activity				0						GCGCCGCGGCGAGAATCTGTT	0.677													6	13					0	0	1	0	0		A	36927008	A	A	36927008	3	1	84	1	0	0	0	0	1	0	0	0	11888	1059	37	1	265	1	PI16	6	36927008	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1973989	36927008	134188059	476	52319											
DNAH8	1769	broad.mit.edu	37	chr6	38843448	38843448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatcttcataaattatttGtgtttggcctaatgtggagt	11	17	8	5	0	2	0	1	0	1	0	2	1	2	1	1	2	1	1	1	2	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:38843448G>A	uc003ooe.1	+	51	7651	c.7051G>A	c.(7051-7053)GTG>ATG	p.V2351M		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TAAATTATTTGTGTTTGGCCT	0.408													21	57					0	0	1	0	0		A	38843448	A	A	38843448	3	1	84	1	0	0	0	0	1	0	0	0	4613	1377	48	4	7245	4	DNAH8	6	38843448	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1916440	38843448	132271619	477	52320											
CUL9	23113	broad.mit.edu	37	chr6	43191022	43191023	+	Frame_Shift_Del	DEL	AG	-	-																															aggaaaccctgctgcggtgcAgagacctggcctcctccctg																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:43191022_43191023delAG	uc003ouk.2	+	39	7246_7247	c.7171_7172delAG	c.(7171-7173)AGAfs	p.R2391fs	CUL9_uc003oul.2_Frame_Shift_Del_p.R2363fs|CUL9_uc010jyk.2_Frame_Shift_Del_p.R1543fs|CUL9_uc003oun.2_Frame_Shift_Del_p.R186fs	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	2391					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GCTGCGGTGCAGAGACCTGGCC	0.564													8	12	---	---	---	---						.	-	43191023	-	-	43191022	7	5	84	1	0	1	0	1	0	0	0	0	4064	180	7	0	7321	0	CUL9	6	43191022	Frame_Shift_Del	DEL	AG	TCGA-BR-8591-01A-11D-2394-08	4347574	43191022	127924045	478	52321											
GPR116	221395	broad.mit.edu	37	chr6	46874435	46874435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcgtaattccagttcagtGcagctttggaagaataaatc	13	12	8	8	1	1	1	1	0	0	1	4	2	2	2	1	1	2	4	1	1	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:46874435G>A	uc003oyo.3	-	2	354	c.65C>T	c.(64-66)GCA>GTA	p.A22V	GPR116_uc003oyp.3_Missense_Mutation_p.A22V|GPR116_uc003oyq.3_Missense_Mutation_p.A22V|GPR116_uc003oyr.2_Missense_Mutation_p.A22V|uc003oys.2_Intron	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	22	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			CCAGTTCAGTGCAGCTTTGGA	0.373													22	73					0	0	1	0	0		A	46874435	A	A	46874435	3	1	84	1	0	0	0	0	1	0	0	0	6648	1319	46	2	4055	2	GPR116	6	46874435	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3683413	46874435	124240632	479	52322											
TNFRSF21	27242	broad.mit.edu	37	chr6	47221045	47221045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccacaacatcgtttctccGgtgctggcgcagggcgctaa	7	9	11	14	4	1	0	0	0	1	0	4	0	2	0	2	3	2	4	2	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:47221045G>A	uc003oyv.2	-	4	1889	c.1456C>T	c.(1456-1458)CGG>TGG	p.R486W		NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,	486	Cytoplasmic (Potential).|Death.				cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)			TCGTTTCTCCGGTGCTGGCGC	0.617													9	35					0	0	1	0	0		A	47221045	A	A	47221045	3	1	84	1	0	0	0	0	1	0	0	0	16320	1115	39	1	523	1	TNFRSF21	6	47221045	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	346610	47221045	123894022	480	52323											
TINAG	27283	broad.mit.edu	37	chr6	54208055	54208055	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaacaactgatcttccagAgttttttgttgcttcttata	9	18	6	8	0	2	2	0	1	2	1	3	2	3	2	1	0	4	4	1	0	4	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:54208055A>C	uc003pcj.2	+	5	802	c.656A>C	c.(655-657)GAG>GCG	p.E219A	TINAG_uc010jzt.2_Intron	NM_014464	NP_055279	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	219					cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			GATCTTCCAGAGTTTTTTGTT	0.393													13	27					0	0	1	0	0		C	54208055	C	C	54208055	3	2	84	1	0	0	0	0	1	0	0	0	15946	304	11	5	674	5	TINAG	6	54208055	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	6987010	54208055	116907012	481	52324											
COL12A1	1303	broad.mit.edu	37	chr6	75798830	75798830	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagcaaacctacctggggggCcaggcagcccccgaggtcct	8	5	13	15	1	0	0	0	0	0	0	1	1	1	0	6	5	4	2	6	5	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:75798830C>G	uc003phs.2	-	64	9168	c.9002G>C	c.(9001-9003)GGC>GCC	p.G3001A	COL12A1_uc003pht.2_Missense_Mutation_p.G1837A	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	3001	Triple-helical region (COL1) with 2 imperfections.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						ACCTGGGGGGCCAGGCAGCCC	0.473													8	35					0	0	1	0	0		G	75798830	G	G	75798830	3	3	84	1	0	0	0	0	1	0	0	0	3672	739	26	5	201	5	COL12A1	6	75798830	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	21590775	75798830	95316237	482	52325											
TBX18	9096	broad.mit.edu	37	chr6	85472390	85472390	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggccgggccagggagcgCgccggagaccccttggggga	5	2	20	14	5	0	1	0	0	0	1	0	4	0	3	6	6	1	0	6	6	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:85472390C>T	uc003pkl.1	-	2	369	c.369G>A	c.(367-369)GCG>GCA	p.A123A	TBX18_uc010kbq.1_5'UTR	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	123					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		CCAGGGAGCGCGCCGGAGACC	0.697													13	49					0	0	1	0	0		T	85472390	T	T	85472390	2	4	84	1	0	0	0	0	0	0	0	1	15678	755	27	1		1	TBX18	6	85472390	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	9673560	85472390	85642677	483	52326											
ZNF292	23036	broad.mit.edu	37	chr6	87970632	87970632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttcttattgtattcaaaCggtgttgcaactcacaagta	12	15	6	8	1	4	0	2	0	2	0	4	0	4	0	0	1	3	4	0	1	6	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:87970632C>T	uc003plm.3	+	8	7326	c.7285C>T	c.(7285-7287)CGG>TGG	p.R2429W		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	2429					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		TGTATTCAAACGGTGTTGCAA	0.348													3	11					0	0	1	0	0		T	87970632	T	T	87970632	3	4	84	1	0	0	0	0	1	0	0	0	17851	527	19	1	7315	1	ZNF292	6	87970632	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2498242	87970632	83144435	484	52327											
CNR1	1268	broad.mit.edu	37	chr6	88854674	88854674	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggggttcaggaccatgaaaCactctatgtccatgaagttc	11	11	10	9	0	2	2	1	2	1	0	4	3	3	3	2	3	1	2	2	3	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:88854674C>A	uc011dzq.1	-	2	3883	c.320G>T	c.(319-321)TGT>TTT	p.C107F	CNR1_uc010kbz.2_Missense_Mutation_p.C107F|CNR1_uc011dzr.1_Missense_Mutation_p.C107F|CNR1_uc011dzs.1_Missense_Mutation_p.C107F|CNR1_uc003pmq.3_Missense_Mutation_p.C107F|CNR1_uc011dzt.1_Missense_Mutation_p.C107F|CNR1_uc010kca.2_Missense_Mutation_p.C74F	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	107	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	GACCATGAAACACTCTATGTC	0.532													20	65					7.21436e-19	8.09235e-19	1	1	0		A	88854674	A	A	88854674	3	1	84	1	0	0	0	0	1	0	0	0	3634	478	17	5	1102	5	CNR1	6	88854674	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	884042	88854674	82260393	485	52328											
GABRR2	2570	broad.mit.edu	37	chr6	90024932	90024932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttccagtagcctgtggCagagcaaatcccccctggct	7	10	10	14	0	0	1	0	0	0	1	2	1	2	1	5	2	3	5	5	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:90024932C>T	uc003pnb.2	-	1	36	c.28G>A	c.(28-30)GCC>ACC	p.A10T		NM_002043	NP_002034	P28476	GBRR2_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 2	10					synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0		all_cancers(76;1.67e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.77e-07)|all_epithelial(107;2.51e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0158)		TAGCCTGTGGCAGAGCAAATC	0.517													30	268					0	0	1	0	0		T	90024932	T	T	90024932	3	4	84	1	0	0	0	0	1	0	0	0	6191	710	25	2	1480	2	GABRR2	6	90024932	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1170258	90024932	81090135	486	52329											
ANKRD6	22881	broad.mit.edu	37	chr6	90312801	90312801	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggggaacacggagatcatCgcggcgctcatccacgaagg	10	5	15	11	5	2	1	2	0	0	1	4	4	3	2	1	5	1	1	1	5	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:90312801C>T	uc003pni.3	+	4	614	c.273C>T	c.(271-273)ATC>ATT	p.I91I	ANKRD6_uc003pne.3_Silent_p.I91I|ANKRD6_uc003pnf.3_Silent_p.I91I|ANKRD6_uc011dzy.1_Silent_p.I91I|ANKRD6_uc010kcd.2_Silent_p.I91I|LYRM2_uc010kce.1_Intron|LYRM2_uc003png.2_RNA|ANKRD6_uc003pnh.3_5'UTR	NM_014942	NP_055757	Q9Y2G4	ANKR6_HUMAN	ankyrin repeat domain 6	91	ANK 3.						protein binding			ovary(2)|pancreas(1)	3		all_cancers(76;1.22e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;1.83e-05)|Lung NSC(302;0.239)		BRCA - Breast invasive adenocarcinoma(108;0.0209)		CGGAGATCATCGCGGCGCTCA	0.612													5	17					0	0	1	0	0		T	90312801	T	T	90312801	2	4	84	1	0	0	0	0	0	0	0	1	685	874	31	1		1	ANKRD6	6	90312801	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	287869	90312801	80802266	487	52330											
MDN1	23195	broad.mit.edu	37	chr6	90396626	90396626	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctaggcattaccttccTgttcttctgtttgttcctgc	4	18	7	12	0	2	0	0	0	2	0	4	0	4	0	3	1	3	5	3	1	2	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:90396626T>C	uc003pnn.1	-	69	11683	c.11567A>G	c.(11566-11568)CAG>CGG	p.Q3856R		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	3856					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		ATTACCTTCCTGTTCTTCTGT	0.488													37	92					0	0	1	0	0		C	90396626	C	C	90396626	3	2	84	1	0	0	0	0	1	0	0	0	9433	1580	55	3	5359	3	MDN1	6	90396626	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	83825	90396626	80718441	488	52331											
MDN1	23195	broad.mit.edu	37	chr6	90449993	90449993	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccagggttcatggttgctAgaatacgaaattttttccca	10	13	8	10	1	1	1	1	0	0	1	2	2	2	1	3	2	2	3	3	2	4	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:90449993A>G	uc003pnn.1	-	32	4669	c.4553T>C	c.(4552-4554)CTA>CCA	p.L1518P		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1518					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CATGGTTGCTAGAATACGAAA	0.413													15	47					0	0	1	0	0		G	90449993	G	G	90449993	3	3	84	1	0	0	0	0	1	0	0	0	9433	420	15	3	12521	3	MDN1	6	90449993	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	53367	90449993	80665074	489	52332											
ZUFSP	221302	broad.mit.edu	37	chr6	116988046	116988046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctttagtcaggttttgagCtgaattttttggatgattag	9	19	10	3	0	2	3	1	3	1	0	2	4	2	4	0	2	1	2	0	2	3	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:116988046C>T	uc003pxf.1	-	2	556	c.310G>A	c.(310-312)GCT>ACT	p.A104T	ZUFSP_uc010kef.1_Intron	NM_145062	NP_659499	Q96AP4	ZUFSP_HUMAN	zinc finger with UFM1-specific peptidase domain	104						intracellular	zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(226;0.0258)|all cancers(137;0.0368)|OV - Ovarian serous cystadenocarcinoma(136;0.0464)|Epithelial(106;0.186)		AGGTTTTGAGCTGAATTTTTT	0.343													14	45					0	0	1	0	0		T	116988046	T	T	116988046	3	4	84	1	0	0	0	0	1	0	0	0	18271	797	28	2	1462	2	ZUFSP	6	116988046	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	26538053	116988046	54127021	490	52333											
C6orf170	221322	broad.mit.edu	37	chr6	121642917	121642917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgttgcctatatgctgcCtgaggtatttcacaaattca	11	14	8	8	0	2	1	2	1	0	0	2	1	2	1	2	1	3	3	2	1	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:121642917C>T	uc003pyo.1	-	2	247	c.179G>A	c.(178-180)AGG>AAG	p.R60K	C6orf170_uc003pyq.1_RNA	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	60					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		TATATGCTGCCTGAGGTATTT	0.338													21	71					0	0	1	0	0		T	121642917	T	T	121642917	3	4	84	1	0	0	0	0	1	0	0	0	2347	681	24	4	3718	4	C6orf170	6	121642917	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4654871	121642917	49472150	491	52334											
MOXD1	26002	broad.mit.edu	37	chr6	132695778	132695778	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatgccttaccgttatacTcttgtcatttatgtcacatg	9	17	6	9	1	3	1	2	0	1	1	3	1	3	1	2	0	3	1	2	0	5	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:132695778T>G	uc003qdf.2	-	2	502	c.403A>C	c.(403-405)AGT>CGT	p.S135R	MOXD1_uc003qde.2_Missense_Mutation_p.S67R	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	135	Lumenal (Potential).|DOMON.				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		ACCGTTATACTCTTGTCATTT	0.343													25	41					0	0	1	0	0		G	132695778	G	G	132695778	3	3	84	1	0	0	0	0	1	0	0	0	9738	1551	54	5	1482	5	MOXD1	6	132695778	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	11052861	132695778	38419289	492	52335											
NMBR	4829	broad.mit.edu	37	chr6	142399736	142399736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctccaggaagattgtgtgCgcttttaattaaggtctttg	8	17	10	6	1	2	1	0	0	2	1	3	2	2	2	1	2	1	1	1	2	3	6	rs147317413	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:142399736C>T	uc003qiu.2	-	2	868	c.727G>A	c.(727-729)GCA>ACA	p.A243T		NM_002511	NP_002502	P28336	NMBR_HUMAN	neuromedin B receptor	243	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			central_nervous_system(3)|breast(1)	4	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		AGATTGTGTGCGCTTTTAATT	0.358													12	44					0	0	1	0	0		T	142399736	T	T	142399736	3	4	84	1	0	0	0	0	1	0	0	0	10506	768	27	1	453	1	NMBR	6	142399736	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	9703958	142399736	28715331	493	52336											
HIVEP2	3097	broad.mit.edu	37	chr6	143091558	143091558	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actggctggagaaagcattcGcttgctacctcccagggtgg	8	9	13	11	1	0	1	0	0	0	1	2	2	1	1	2	4	3	4	2	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:143091558G>A	uc003qjd.2	-	5	5061	c.4318C>T	c.(4318-4320)CGA>TGA	p.R1440*		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1440					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GAAAGCATTCGCTTGCTACCT	0.517													30	66					0	0	1	0	0		A	143091558	A	A	143091558	4	1	84	1	0	0	0	0	0	1	0	0	7203	1095	38	1	3046	1	HIVEP2	6	143091558	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	691822	143091558	28023509	494	52337											
PHACTR2	9749	broad.mit.edu	37	chr6	144128231	144128231	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaaatgaatttaaaagcaCagaaatggaagttcatgaag	20	9	8	4	0	1	3	1	2	0	1	1	4	1	4	0	1	1	2	0	1	8	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:144128231C>A	uc003qjq.3	+	12	1980	c.1850C>A	c.(1849-1851)ACA>AAA	p.T617K	PHACTR2_uc010khh.2_Missense_Mutation_p.T537K|PHACTR2_uc010khi.2_Missense_Mutation_p.T628K|PHACTR2_uc003qjr.3_Missense_Mutation_p.T548K	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3	617							actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		TTTAAAAGCACAGAAATGGAA	0.333													12	28					3.07112e-06	3.21701e-06	1	1	0		A	144128231	A	A	144128231	3	1	84	1	0	0	0	0	1	0	0	0	11829	478	17	5	1946	5	PHACTR2	6	144128231	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1036673	144128231	26986836	495	52338											
PHACTR2	9749	broad.mit.edu	37	chr6	144144816	144144816	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttcttactccaggtttcAtcgtccataacgaagagtga	11	14	7	9	2	2	2	1	1	1	1	5	3	4	2	2	1	2	1	2	1	4	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:144144816A>G	uc003qjq.3	+	13	2025	c.1895A>G	c.(1894-1896)CAT>CGT	p.H632R	PHACTR2_uc010khh.2_Missense_Mutation_p.H552R|PHACTR2_uc010khi.2_Missense_Mutation_p.H643R|PHACTR2_uc003qjr.3_Missense_Mutation_p.H563R	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3	632							actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		TCCAGGTTTCATCGTCCATAA	0.433													16	39					0	0	1	0	0		G	144144816	G	G	144144816	3	3	84	1	0	0	0	0	1	0	0	0	11829	217	8	3	1995	3	PHACTR2	6	144144816	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	16585	144144816	26970251	496	52339											
LATS1	9113	broad.mit.edu	37	chr6	150001447	150001447	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctacttttcttgctagacaGacttcaccaaatgctcctat	10	15	4	12	0	3	2	1	0	2	2	4	2	4	2	2	0	3	2	2	0	4	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:150001447G>A	uc003qmu.1	-	5	2705	c.2157C>T	c.(2155-2157)GTC>GTT	p.V719V	LATS1_uc010kif.1_Silent_p.V614V|LATS1_uc003qmv.1_Silent_p.V719V	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	719	ATP (By similarity).|Protein kinase.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity	p.V719I(1)		lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		TTGCTAGACAGACTTCACCAA	0.368													13	102					0	0	1	0	0		A	150001447	A	A	150001447	2	1	84	1	0	0	0	0	0	0	0	1	8662	929	33	4		4	LATS1	6	150001447	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	5856631	150001447	21113620	497	52340											
NUP43	348995	broad.mit.edu	37	chr6	150067127	150067127	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atatcacacaataactgatgGtctccttcaaaccctccatc	13	11	3	14	0	3	1	2	1	1	0	6	1	4	1	3	1	2	0	3	1	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:150067127G>A	uc003qmz.2	-	2	249	c.192C>T	c.(190-192)GAC>GAT	p.D64D	NUP43_uc011eee.1_RNA|NUP43_uc011eef.1_Silent_p.D64D	NM_198887	NP_942590	Q8NFH3	NUP43_HUMAN	nucleoporin 43kDa	64					carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			upper_aerodigestive_tract(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;4.71e-13)|GBM - Glioblastoma multiforme(68;0.101)		ATAACTGATGGTCTCCTTCAA	0.363													31	95					0	0	1	0	0		A	150067127	A	A	150067127	2	1	84	1	0	0	0	0	0	0	0	1	10784	1252	44	4		4	NUP43	6	150067127	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	65680	150067127	21047940	498	52341											
SYNE1	23345	broad.mit.edu	37	chr6	152652598	152652598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctgccatgaccctgtctgCgtcctttataagcgatttca	8	14	7	12	2	3	1	1	1	2	0	4	2	4	1	3	0	3	0	3	0	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:152652598C>T	uc010kiw.2	-	78	13824	c.13222G>A	c.(13222-13224)GCA>ACA	p.A4408T	SYNE1_uc003qot.3_Missense_Mutation_p.A4337T|SYNE1_uc003qou.3_Missense_Mutation_p.A4408T|SYNE1_uc010kiz.2_Missense_Mutation_p.A163T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4408	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		ACCCTGTCTGCGTCCTTTATA	0.512										HNSCC(10;0.0054)			14	60					0	0	1	0	0		T	152652598	T	T	152652598	3	4	84	1	0	0	0	0	1	0	0	0	15470	768	27	1	13520	1	SYNE1	6	152652598	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2585471	152652598	18462469	499	52342											
SLC22A1	6580	broad.mit.edu	37	chr6	160543354	160543354	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggctgggtgtatgacacGcccggctcttccatcgtcac	6	10	12	13	3	2	1	1	1	1	0	4	2	3	1	2	3	0	3	2	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:160543354G>A	uc003qtc.2	+	1	492	c.387G>A	c.(385-387)ACG>ACA	p.T129T	SLC22A1_uc003qtd.2_Silent_p.T129T	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	129	Extracellular (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		TGTATGACACGCCCGGCTCTT	0.562													17	53					0	0	1	0	0		A	160543354	A	A	160543354	2	1	84	1	0	0	0	0	0	0	0	1	14465	1074	38	1		1	SLC22A1	6	160543354	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7890756	160543354	10571713	500	52343											
MAP3K4	4216	broad.mit.edu	37	chr6	161470396	161470396	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggagctgctagagtacatAgaagcactttatccatcatt	13	12	8	8	0	1	2	1	0	0	2	2	3	2	3	1	1	4	4	1	1	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:161470396A>G	uc003qtn.2	+	3	1234	c.1092A>G	c.(1090-1092)ATA>ATG	p.I364M	MAP3K4_uc010kkc.1_Missense_Mutation_p.I364M|MAP3K4_uc003qto.2_Missense_Mutation_p.I364M|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Translation_Start_Site	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	364					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		TAGAGTACATAGAAGCACTTT	0.438													19	56					0	0	1	0	0		G	161470396	G	G	161470396	3	3	84	1	0	0	0	0	1	0	0	0	9270	410	15	3	1102	3	MAP3K4	6	161470396	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	927042	161470396	9644671	501	52344											
QKI	9444	broad.mit.edu	37	chr6	163984517	163984517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggatcattactgggcctgcgCcggttctcccaccagctgcc	5	9	11	16	2	2	0	1	0	1	0	3	1	2	1	5	3	4	2	5	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:163984517C>T	uc003qui.2	+	6	1251	c.700C>T	c.(700-702)CCG>TCG	p.P234S	QKI_uc003que.2_Missense_Mutation_p.P234S|QKI_uc003quf.2_Missense_Mutation_p.P234S|QKI_uc003qug.2_Missense_Mutation_p.P234S|QKI_uc003quh.2_Missense_Mutation_p.P226S|QKI_uc003quj.2_Missense_Mutation_p.P226S	NM_006775	NP_006766	Q96PU8	QKI_HUMAN	quaking homolog, KH domain RNA binding isoform	234					mRNA processing|mRNA transport|regulation of translation|RNA splicing	cytoplasm|nucleus|plasma membrane	RNA binding|SH3 domain binding			large_intestine(1)|ovary(1)	2		Breast(66;5e-05)|Prostate(117;0.0235)|all_neural(5;0.0416)|Ovarian(120;0.0448)|Glioma(2;0.203)		all cancers(1;4.4e-46)|OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|GBM - Glioblastoma multiforme(1;2.94e-19)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|Kidney(3;0.000199)|KIRC - Kidney renal clear cell carcinoma(3;0.000234)		TGGGCCTGCGCCGGTTCTCCC	0.522													16	38					0	0	1	0	0		T	163984517	T	T	163984517	3	4	84	1	0	0	0	0	1	0	0	0	12898	739	26	2	722	2	QKI	6	163984517	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2514121	163984517	7130550	502	52345											
C6orf118	168090	broad.mit.edu	37	chr6	165715680	165715680	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttctgaagccgattcagaAgtttcttcagattacacagg	11	13	8	9	1	4	3	2	1	2	2	4	4	4	3	1	1	2	1	1	1	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:165715680A>G	uc003qum.3	-	2	167	c.131T>C	c.(130-132)CTT>CCT	p.L44P	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	44											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		CCGATTCAGAAGTTTCTTCAG	0.537													5	98					0	0	1	0	0		G	165715680	G	G	165715680	3	3	84	1	0	0	0	0	1	0	0	0	2326	72	3	3	1310	3	C6orf118	6	165715680	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1731163	165715680	5399387	503	52346											
FRMD1	79981	broad.mit.edu	37	chr6	168467457	168467457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgacccttccgttttccaCgtagtgctgcactcggagga	7	12	10	12	3	0	1	0	1	0	0	3	3	2	3	3	2	2	4	3	2	2	5	rs151107075		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:168467457C>T	uc003qwo.3	-	4	504	c.439G>A	c.(439-441)GTG>ATG	p.V147M	FRMD1_uc003qwm.3_5'Flank|FRMD1_uc011egs.1_Translation_Start_Site|FRMD1_uc011egt.1_Missense_Mutation_p.V59M|FRMD1_uc003qwn.3_Missense_Mutation_p.V79M	NM_024919	NP_079195	Q8N878	FRMD1_HUMAN	FERM domain containing 1 isoform 1	147	FERM.					cytoskeleton	binding			ovary(1)	1		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		CCGTTTTCCACGTAGTGCTGC	0.547													18	53					0	0	1	0	0		T	168467457	T	T	168467457	3	4	84	1	0	0	0	0	1	0	0	0	6063	536	19	1	1242	1	FRMD1	6	168467457	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2751777	168467457	2647610	504	52347											
WDR27	253769	broad.mit.edu	37	chr6	170036601	170036601	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagaaaacatgtctttgccCtgtaatgcaaatcagtaatt	14	14	6	7	0	2	1	1	0	1	1	2	1	2	1	1	0	3	3	1	0	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:170036601C>G	uc003qwx.2	-	19	2390	c.1870_splice	c.e19-1	p.G624_splice	WDR27_uc003qwv.1_Intron|WDR27_uc010kkw.1_Splice_Site_p.G624_splice|WDR27_uc003qwy.2_Splice_Site_p.G497_splice			A2RRH5	WDR27_HUMAN	RecName: Full=WD repeat-containing protein 27;											pancreas(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.216)		OV - Ovarian serous cystadenocarcinoma(33;6.48e-20)|BRCA - Breast invasive adenocarcinoma(81;3.56e-07)|GBM - Glioblastoma multiforme(31;0.00168)		TGTCTTTGCCCTGTAATGCAA	0.303													8	30					0	0	1	0	0		G	170036601	G	G	170036601	5	3	84	1	0	0	0	0	0	0	1	0	17310	695	24	5	732	5	WDR27	6	170036601	Splice_Site	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1569144	170036601	1078466	505	52348											
FAM120B	84498	broad.mit.edu	37	chr6	170627688	170627688	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcgagaagttcccatgTgttcagaccctgaacccagg	10	7	11	13	1	1	3	1	1	0	2	2	4	2	3	4	2	1	2	4	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr6:170627688T>C	uc003qxp.2	+	2	1318	c.1210T>C	c.(1210-1212)TGT>CGT	p.C404R	FAM120B_uc003qxo.1_Missense_Mutation_p.C404R|FAM120B_uc011ehd.1_Intron	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	404					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		AGTTCCCATGTGTTCAGACCC	0.527													89	296					0	0	1	0	0		C	170627688	C	C	170627688	3	2	84	1	0	0	0	0	1	0	0	0	5428	1696	59	3	1212	3	FAM120B	6	170627688	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	591087	170627688	487379	506	52349											
CARD11	84433	broad.mit.edu	37	chr7	2949685	2949685	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggtctgggagccctaccTgaacctcttgatgttcttct	6	13	11	11	0	4	2	0	2	4	0	4	3	4	3	3	3	3	1	3	3	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:2949685T>C	uc003smv.2	-	24	3663	c.3259A>G	c.(3259-3261)AGA>GGA	p.R1087G		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	1087	Guanylate kinase-like.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GAGCCCTACCTGAACCTCTTG	0.592			Mis		DLBCL								71	52					0	0	1	0	0		C	2949685	C	C	2949685	3	2	84	1	0	0	0	0	1	0	0	0	2648	1594	55	3	213	3	CARD11	7	2949685	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08		2949685	156188978	507	52350											
DAGLB	221955	broad.mit.edu	37	chr7	6474614	6474614	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagagggtcaaagacaaTgataatggaaaccactgtgg	16	6	11	8	0	1	3	1	1	0	2	1	4	1	4	2	3	1	0	2	3	5	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:6474614T>C	uc003sqa.2	-	4	627	c.457A>G	c.(457-459)ATT>GTT	p.I153V	DAGLB_uc011jwt.1_5'Flank|DAGLB_uc011jwu.1_Intron|DAGLB_uc003sqb.2_Intron|DAGLB_uc003sqc.2_Intron|DAGLB_uc011jwv.1_RNA|DAGLB_uc003sqd.3_Missense_Mutation_p.I112V|DAGLB_uc011jww.1_Intron	NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1	153	Helical; (Potential).				lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		TCAAAGACAATGATAATGGAA	0.537													30	98					0	0	1	0	0		C	6474614	C	C	6474614	3	2	84	1	0	0	0	0	1	0	0	0	4230	1464	51	3	1609	3	DAGLB	7	6474614	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3524929	6474614	152664049	508	52351											
THSD7A	221981	broad.mit.edu	37	chr7	11676525	11676525	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccctccacatgagcacacCacacagccctcgtttggatg	10	8	7	16	1	0	1	0	1	0	0	3	2	2	2	4	1	2	2	4	1	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:11676525C>T	uc003ssf.3	-	2	506	c.254G>A	c.(253-255)TGG>TAG	p.W85*		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	85	TSP type-1 1.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		ATGAGCACACCACACAGCCCT	0.478										HNSCC(18;0.044)			24	91					0	0	1	0	0		T	11676525	T	T	11676525	4	4	84	1	0	0	0	0	0	1	0	0	15904	595	21	4	4823	4	THSD7A	7	11676525	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5201911	11676525	147462138	509	52352											
SCIN	85477	broad.mit.edu	37	chr7	12680083	12680083	+	Frame_Shift_Del	DEL	C	-	-																															aaggaggtcaggcacctgctCcccctacacgcctctttcaa																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:12680083delC	uc003ssn.3	+	11	1732	c.1522delC	c.(1522-1524)CCCfs	p.P508fs	SCIN_uc010ktt.2_RNA|SCIN_uc003sso.3_Frame_Shift_Del_p.P261fs	NM_001112706	NP_001106177	Q9Y6U3	ADSV_HUMAN	scinderin isoform 1	508	Ca(2+)-dependent actin binding.				actin filament capping|actin filament severing|actin nucleation|calcium ion-dependent exocytosis|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of megakaryocyte differentiation|positive regulation of secretion|regulation of chondrocyte differentiation	cell cortex|cytoskeleton	1-phosphatidylinositol binding|actin filament binding|calcium ion binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		GGCACCTGCTCCCCCTACACG	0.458													27	15	---	---	---	---						.	-	12680083	-	-	12680083	7	5	84	1	0	1	0	1	0	0	0	0	13930	855	30	0	1564	0	SCIN	7	12680083	Frame_Shift_Del	DEL	C	TCGA-BR-8591-01A-11D-2394-08	1003558	12680083	146458580	510	52353											
NUPL2	11097	broad.mit.edu	37	chr7	23235487	23235487	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttcaccagaggaattgAggcttgaataccataacttc	14	11	7	9	0	1	3	1	2	0	1	2	4	1	4	2	2	2	1	2	2	4	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:23235487A>G	uc003svu.2	+	4	734	c.475A>G	c.(475-477)AGG>GGG	p.R159G	NUPL2_uc003svv.2_RNA|NUPL2_uc003svw.2_Missense_Mutation_p.R36G|NUPL2_uc011jyw.1_Intron|NUPL2_uc003svx.2_Missense_Mutation_p.R36G|NUPL2_uc011jyx.1_5'UTR	NM_007342	NP_031368	O15504	NUPL2_HUMAN	nucleoporin like 2	159	Interaction with HIV-1 Vpr.				carbohydrate metabolic process|glucose transport|mRNA transport|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nuclear pore	nuclear export signal receptor activity|nucleic acid binding|zinc ion binding			skin(2)|ovary(1)	3						AGAGGAATTGAGGCTTGAATA	0.328													5	28					0	0	1	0	0		G	23235487	G	G	23235487	3	3	84	1	0	0	0	0	1	0	0	0	10794	295	11	3	489	3	NUPL2	7	23235487	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	10555404	23235487	135903176	511	52354											
HOXA9	3205	broad.mit.edu	37	chr7	27204803	27204803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgggcgcctgggggtgcaCgtaggggtggtggtgatggt	4	8	22	7	3	0	1	0	1	0	0	0	1	0	1	1	8	1	2	1	8	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:27204803C>T	uc003syt.2	-	1	347	c.274G>A	c.(274-276)GTG>ATG	p.V92M		NM_152739	NP_689952	P31269	HXA9_HUMAN	homeobox A9	92							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)	2						TGGGGGTGCACGTAGGGGTGG	0.731			T	NUP98|MSI2	AML*								11	12					0	0	1	0	0		T	27204803	T	T	27204803	3	4	84	1	0	0	0	0	1	0	0	0	7314	536	19	1	552	1	HOXA9	7	27204803	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3969316	27204803	131933860	512	52355											
EPDR1	54749	broad.mit.edu	37	chr7	37960482	37960482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgggagccactctgatcccGgacgcctcagcgcccccttg	5	6	12	18	4	2	1	1	1	1	0	3	3	3	3	5	2	2	0	5	2	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:37960482G>A	uc003tfp.2	+	1	320	c.301G>A	c.(301-303)GGA>AGA	p.G101R	EPDR1_uc003tfq.2_Missense_Mutation_p.G101R|EPDR1_uc010kxh.2_5'Flank	NM_017549	NP_060019	Q9UM22	EPDR1_HUMAN	ependymin related protein 1 precursor	Error:Variant_position_missing_in_Q9UM22_after_alignment					cell-matrix adhesion	extracellular region	calcium ion binding			upper_aerodigestive_tract(1)	1						CTCTGATCCCGGACGCCTCAG	0.701													11	22					0	0	1	0	0		A	37960482	A	A	37960482	3	1	84	1	0	0	0	0	1	0	0	0	5171	1117	39	1	303	1	EPDR1	7	37960482	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	10755679	37960482	121178181	513	52356											
ZMIZ2	83637	broad.mit.edu	37	chr7	44804020	44804020	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcccatctctctacagtgCtttgacctggagtcgtacct	6	14	7	14	1	2	1	0	1	2	0	5	2	3	2	3	1	3	2	3	1	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:44804020C>T	uc003tlr.2	+	14	1986	c.1863C>T	c.(1861-1863)TGC>TGT	p.C621C	ZMIZ2_uc003tlq.2_Silent_p.C563C|ZMIZ2_uc003tls.2_Silent_p.C595C|ZMIZ2_uc003tlt.2_Silent_p.C244C|ZMIZ2_uc010kyj.2_Silent_p.C143C|ZMIZ2_uc003tlu.2_5'Flank	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	621	SP-RING-type.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						CTCTACAGTGCTTTGACCTGG	0.438													15	46					0	0	1	0	0		T	44804020	T	T	44804020	2	4	84	1	0	0	0	0	0	0	0	1	17722	805	28	2		2	ZMIZ2	7	44804020	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	6843538	44804020	114334643	514	52357											
MYO1G	64005	broad.mit.edu	37	chr7	45006354	45006354	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccagcagccccaggtatgcGacctggtggcgacagtggtt	7	8	14	12	2	0	0	0	0	0	0	1	2	1	0	4	4	3	3	4	4	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:45006354G>A	uc003tmh.2	-	15	2010	c.1866C>T	c.(1864-1866)GTC>GTT	p.V622V	MYO1G_uc003tmf.2_Silent_p.V65V|MYO1G_uc003tmg.2_Silent_p.V384V|MYO1G_uc010kym.2_Silent_p.V507V|MYO1G_uc003tmi.1_Silent_p.V534V	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	622	Myosin head-like.					myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						CCAGGTATGCGACCTGGTGGC	0.617													54	183					0	0	1	0	0		A	45006354	A	A	45006354	2	1	84	1	0	0	0	0	0	0	0	1	10092	1045	37	1		1	MYO1G	7	45006354	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	202334	45006354	114132309	515	52358											
POM121L12	285877	broad.mit.edu	37	chr7	53103741	53103741	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaaaggggggctgtgtcGtgcctggaacccaggacgga	9	6	17	9	2	0	1	0	1	0	0	1	4	0	4	2	6	2	1	2	6	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:53103741G>T	uc003tpz.2	+	1	393	c.377G>T	c.(376-378)CGT>CTT	p.R126L		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	126											0						GGGCTGTGTCGTGCCTGGAAC	0.672													20	59					3.62473e-10	3.93168e-10	1	1	0		T	53103741	T	T	53103741	3	4	84	1	0	0	0	0	1	0	0	0	12260	1145	40	5	379	5	POM121L12	7	53103741	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	8097387	53103741	106034922	516	52359											
POM121L12	285877	broad.mit.edu	37	chr7	53103870	53103870	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccccgccgcccaggagcTcctggacccctgcacccggg	4	3	12	22	4	0	0	0	0	0	0	1	2	1	2	9	3	2	2	9	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:53103870T>C	uc003tpz.2	+	1	522	c.506T>C	c.(505-507)CTC>CCC	p.L169P		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	169											0						gcccAGGAGCTCCTGGACCCC	0.582													12	34					0	0	1	0	0		C	53103870	C	C	53103870	3	2	84	1	0	0	0	0	1	0	0	0	12260	1551	54	3	508	3	POM121L12	7	53103870	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	129	53103870	106034793	517	52360											
SEPT14	346288	broad.mit.edu	37	chr7	55914312	55914312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaatcgtagttaaacaacGaatattattttctttttgct	12	18	4	7	2	1	0	0	0	1	0	3	1	2	0	1	0	3	3	1	0	8	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:55914312G>A	uc003tqz.2	-	3	190	c.73C>T	c.(73-75)CGT>TGT	p.R25C		NM_207366	NP_997249	Q6ZU15	SEP14_HUMAN	septin 14	25					cell cycle|cell division	septin complex	GTP binding|protein binding				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			GTTAAACAACGAATATTATTT	0.284													11	44					0	0	1	0	0		A	55914312	A	A	55914312	3	1	84	1	0	0	0	0	1	0	0	0	14088	1058	37	1	1257	1	SEPT14	7	55914312	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2810442	55914312	103224351	518	52361											
ZNF735	730291	broad.mit.edu	37	chr7	63680398	63680398	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaattcatactggagagaaAccctacacatgtgaagaatg	17	8	9	7	0	1	4	1	1	0	3	1	6	1	5	1	1	3	0	1	1	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:63680398A>G	uc011kdn.1	+	4	969	c.969A>G	c.(967-969)AAA>AAG	p.K323K		NM_001159524	NP_001152996	P0CB33	ZN735_HUMAN	zinc finger protein 735	323					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTGGAGAGAAACCCTACACAT	0.423													8	36					0	0	1	0	0		G	63680398	G	G	63680398	2	3	84	1	0	0	0	0	0	0	0	1	18149	40	2	3		3	ZNF735	7	63680398	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	7766086	63680398	95458265	519	52362											
ASL	435	broad.mit.edu	37	chr7	65557610	65557610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgagaccaagggggtcGccctcaaccagctgtcactg	8	6	13	14	2	2	1	2	0	0	1	3	2	2	1	4	3	2	1	4	3	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:65557610G>A	uc003tuo.2	+	16	1321	c.1210G>A	c.(1210-1212)GCC>ACC	p.A404T	ASL_uc003tup.2_Missense_Mutation_p.A404T|ASL_uc003tur.2_Missense_Mutation_p.A378T|ASL_uc003tuq.2_Missense_Mutation_p.A384T	NM_000048	NP_000039	P04424	ARLY_HUMAN	argininosuccinate lyase isoform 1	404					arginine biosynthetic process via ornithine|arginine catabolic process|urea cycle	cytosol	argininosuccinate lyase activity			breast(2)	2					L-Arginine(DB00125)	CAAGGGGGTCGCCCTCAACCA	0.652													50	120					0	0	1	0	0		A	65557610	A	A	65557610	3	1	84	1	0	0	0	0	1	0	0	0	1045	1087	38	1	1268	1	ASL	7	65557610	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1877212	65557610	93581053	520	52363											
PTPN12	5782	broad.mit.edu	37	chr7	77236553	77236553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaactttatatccttagtGcaggctgtggaagaacaggt	12	12	10	7	0	1	1	1	0	0	1	2	2	2	2	1	3	3	2	1	3	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:77236553G>A	uc003ugh.2	+	9	788	c.697G>A	c.(697-699)GCA>ACA	p.A233T	PTPN12_uc011kgp.1_Missense_Mutation_p.A114T|PTPN12_uc011kgq.1_Missense_Mutation_p.A103T|PTPN12_uc010lds.2_5'UTR	NM_002835	NP_002826	Q05209	PTN12_HUMAN	protein tyrosine phosphatase, non-receptor type	233	Substrate binding (By similarity).|Tyrosine-protein phosphatase.					soluble fraction	non-membrane spanning protein tyrosine phosphatase activity|SH3 domain binding			ovary(1)|breast(1)|pancreas(1)	3						TATCCTTAGTGCAGGCTGTGG	0.294													16	49					0	0	1	0	0		A	77236553	A	A	77236553	3	1	84	1	0	0	0	0	1	0	0	0	12804	1333	46	2	731	2	PTPN12	7	77236553	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	11678943	77236553	81902110	521	52364											
PHTF2	57157	broad.mit.edu	37	chr7	77569913	77569913	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgaaaatctgaggttccTcatttccggttgaagaaagt	11	12	10	8	2	2	3	1	2	1	1	5	4	4	3	2	2	0	3	2	2	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:77569913T>A	uc003ugs.3	+	14	1935	c.1809T>A	c.(1807-1809)CCT>CCA	p.P603P	PHTF2_uc003ugq.3_Silent_p.P565P|PHTF2_uc010ldv.2_Silent_p.P565P|PHTF2_uc003ugt.3_Silent_p.P569P|PHTF2_uc003ugu.3_Silent_p.P565P	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	603					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						CTGAGGTTCCTCATTTCCGGT	0.358													18	61					0	0	1	0	0		A	77569913	A	A	77569913	2	1	84	1	0	0	0	0	0	0	0	1	11882	1538	54	5		5	PHTF2	7	77569913	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	333360	77569913	81568750	522	52365											
PCLO	27445	broad.mit.edu	37	chr7	82583831	82583831	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttctcttgtataatcggtTacatattcatcctcaatttc	10	19	3	9	1	3	0	2	0	1	0	7	0	4	0	1	1	1	2	1	1	5	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:82583831T>C	uc003uhx.2	-	5	6727	c.6438A>G	c.(6436-6438)GTA>GTG	p.V2146V	PCLO_uc003uhv.2_Silent_p.V2146V	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2077					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TATAATCGGTTACATATTCAT	0.413													6	50					0	0	1	0	0		C	82583831	C	C	82583831	2	2	84	1	0	0	0	0	0	0	0	1	11602	1741	61	3		3	PCLO	7	82583831	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	5013918	82583831	76554832	523	52366											
PCLO	27445	broad.mit.edu	37	chr7	82784516	82784516	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgctgggccaggctgttgagGtgggggctttgctgggccag	3	10	20	8	0	0	1	0	1	0	0	0	1	0	1	2	6	2	5	2	6	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:82784516G>T	uc003uhx.2	-	2	1730	c.1441C>A	c.(1441-1443)CCT>ACT	p.P481T	PCLO_uc003uhv.2_Missense_Mutation_p.P481T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GGCTGTTGAGGTGGGGGCTTT	0.597													41	112					9.84934e-19	1.10409e-18	1	1	0		T	82784516	T	T	82784516	3	4	84	1	0	0	0	0	1	0	0	0	11602	1261	44	5	14100	5	PCLO	7	82784516	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	200685	82784516	76354147	524	52367											
GRM3	2913	broad.mit.edu	37	chr7	86416293	86416293	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagatcatgtttgtggtgaaCgcggtgtatgccatggccca	9	11	13	8	2	1	2	1	1	0	1	1	2	1	2	2	3	2	2	2	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:86416293C>T	uc003uid.2	+	3	2284	c.1185C>T	c.(1183-1185)AAC>AAT	p.N395N	GRM3_uc010lef.2_Silent_p.N393N|GRM3_uc010leg.2_Silent_p.N267N|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	395	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TTGTGGTGAACGCGGTGTATG	0.542													37	124					0	0	1	0	0		T	86416293	T	T	86416293	2	4	84	1	0	0	0	0	0	0	0	1	6814	535	19	1		1	GRM3	7	86416293	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3631777	86416293	72722370	525	52368											
RUNDC3B	154661	broad.mit.edu	37	chr7	87329769	87329769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtttggttatgaaagtcctCgtagcttctgggactatatc	8	15	11	7	1	1	1	0	1	1	0	4	2	2	2	1	3	1	4	1	3	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:87329769C>T	uc003ujb.2	+	4	733	c.322C>T	c.(322-324)CGT>TGT	p.R108C	ABCB1_uc003uiz.1_Intron|ABCB1_uc003uja.1_Intron|ABCB1_uc010lei.1_Intron|RUNDC3B_uc011khd.1_Missense_Mutation_p.R91C|RUNDC3B_uc011khe.1_Missense_Mutation_p.R91C|RUNDC3B_uc003ujc.2_Missense_Mutation_p.R91C|RUNDC3B_uc003ujd.2_Missense_Mutation_p.R13C	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	108	RUN.									skin(1)	1	Esophageal squamous(14;0.00164)					TGAAAGTCCTCGTAGCTTCTG	0.348													3	22					0	0	1	0	0		T	87329769	T	T	87329769	3	4	84	1	0	0	0	0	1	0	0	0	13770	884	31	1	336	1	RUNDC3B	7	87329769	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	913476	87329769	71808894	526	52369											
DLX5	1749	broad.mit.edu	37	chr7	96653787	96653787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcggggctccccccgtaGggctgtagtagtcagaatcg	6	8	15	12	4	1	1	1	0	0	1	3	1	2	1	3	3	1	5	3	3	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:96653787G>A	uc003uon.2	-	1	357	c.149C>T	c.(148-150)CCT>CTT	p.P50L	DLX5_uc011kim.1_Missense_Mutation_p.P50L	NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	50					cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					TCCCCCCGTAGGGCTGTAGTA	0.582													12	103					0	0	1	0	0		A	96653787	A	A	96653787	3	1	84	1	0	0	0	0	1	0	0	0	4580	1000	35	4	732	4	DLX5	7	96653787	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	9324018	96653787	62484876	527	52370											
TECPR1	25851	broad.mit.edu	37	chr7	97860431	97860431	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacaggctgagcagggcgagCtggtgtggcacaatgccggt	8	6	18	9	2	0	1	0	1	0	0	0	3	0	1	1	5	3	4	1	5	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:97860431C>T	uc003upg.2	-	15	2330	c.2125_splice	c.e15-1	p.L709_splice	TECPR1_uc003uph.1_Splice_Site_p.L639_splice	NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1							integral to membrane	protein binding			pancreas(1)	1						GCAGGGCGAGCTGGTGTGGCA	0.612													3	17					0	0	1	0	0		T	97860431	T	T	97860431	5	4	84	1	0	0	0	0	0	0	1	0	15768	811	28	2	1421	2	TECPR1	7	97860431	Splice_Site	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1206644	97860431	61278232	528	52371											
TRRAP	8295	broad.mit.edu	37	chr7	98531020	98531020	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagcataaggtgttctacAcagaggtaggggggtggtgg	9	9	19	4	0	1	1	0	0	1	1	1	2	1	2	0	8	2	3	0	8	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:98531020A>G	uc003upp.2	+	27	4218	c.4009A>G	c.(4009-4011)ACA>GCA	p.T1337A	TRRAP_uc011kis.1_Missense_Mutation_p.T1337A|TRRAP_uc003upr.2_Missense_Mutation_p.T1029A	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1337					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GGTGTTCTACACAGAGGTAGG	0.557													24	87					0	0	1	0	0		G	98531020	G	G	98531020	3	3	84	1	0	0	0	0	1	0	0	0	16627	159	6	3	4111	3	TRRAP	7	98531020	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	670589	98531020	60607643	529	52372											
BUD31	8896	broad.mit.edu	37	chr7	99015149	99015149	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacttgtgctgcctgcggtgCattcagacacgggacaccaa	10	8	11	12	2	1	1	1	0	0	1	1	2	1	2	2	2	5	2	2	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:99015149C>T	uc003uqf.2	+	5	516	c.315C>T	c.(313-315)TGC>TGT	p.C105C	BUD31_uc011kiu.1_Silent_p.C105C|BUD31_uc011kiv.1_Silent_p.C105C|BUD31_uc003uqg.3_Silent_p.C105C	NM_003910	NP_003901	P41223	BUD31_HUMAN	G10 protein	105					regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_cancers(62;1.76e-08)|all_epithelial(64;1.63e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			GCCTGCGGTGCATTCAGACAC	0.458													21	41					0	0	1	0	0		T	99015149	T	T	99015149	2	4	84	1	0	0	0	0	0	0	0	1	1577	718	25	2		2	BUD31	7	99015149	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	484129	99015149	60123514	530	52373											
ZAN	7455	broad.mit.edu	37	chr7	100377177	100377177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggcgcgggaaaagtgcgagGcagcgctccgggctcctgtg	6	5	19	11	5	0	0	0	0	0	0	2	2	2	1	2	4	2	3	2	4	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:100377177G>A	uc003uwj.2	+	36	6592	c.6427G>A	c.(6427-6429)GCA>ACA	p.A2143T	ZAN_uc003uwk.2_Missense_Mutation_p.A2143T|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.A230T	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2143	Extracellular (Potential).|VWFD 3.				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AAAGTGCGAGGCAGCGCTCCG	0.642													7	15					0	0	1	0	0		A	100377177	A	A	100377177	3	1	84	1	0	0	0	0	1	0	0	0	17539	1203	42	2	6560	2	ZAN	7	100377177	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1362028	100377177	58761486	531	52374											
MUC17	140453	broad.mit.edu	37	chr7	100684572	100684572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgcctgtcagcaccacaaCggtggccagttctgaaacga	11	8	10	12	2	2	1	1	1	1	0	2	2	2	1	3	2	4	2	3	2	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:100684572C>T	uc003uxp.1	+	3	9928	c.9875C>T	c.(9874-9876)ACG>ATG	p.T3292M	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3292	Extracellular (Potential).|Ser-rich.|53.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AGCACCACAACGGTGGCCAGT	0.512													150	472					0	0	1	0	0		T	100684572	T	T	100684572	3	4	84	1	0	0	0	0	1	0	0	0	9992	536	19	1	9885	1	MUC17	7	100684572	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	307395	100684572	58454091	532	52375											
TRIM56	81844	broad.mit.edu	37	chr7	100732838	100732838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgggaccatccacatctttCgggtccgttctccggacagt	7	10	10	14	4	2	0	0	0	2	0	6	2	4	2	4	3	0	1	4	3	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:100732838C>T	uc003uxq.2	+	3	2476	c.2245C>T	c.(2245-2247)CGG>TGG	p.R749W	TRIM56_uc003uxr.2_Intron	NM_030961	NP_112223	Q9BRZ2	TRI56_HUMAN	tripartite motif-containing 56	749					defense response to virus|interferon-beta production|protein K63-linked ubiquitination|response to type I interferon	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			kidney(1)|central_nervous_system(1)|skin(1)	3	Lung NSC(181;0.136)|all_lung(186;0.182)					CCACATCTTTCGGGTCCGTTC	0.617													12	40					0	0	1	0	0		T	100732838	T	T	100732838	3	4	84	1	0	0	0	0	1	0	0	0	16556	875	31	1	2247	1	TRIM56	7	100732838	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	48266	100732838	58405825	533	52376											
RELN	5649	broad.mit.edu	37	chr7	103243938	103243938	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtacccctggtcacacCtatgagagagcagggctgag	9	8	13	11	0	1	3	1	2	0	1	1	4	1	3	3	3	2	3	3	3	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:103243938C>A	uc003vca.2	-	24	3307	c.3147_splice	c.e24-1	p.R1049_splice	RELN_uc010liz.2_Splice_Site_p.R1049_splice	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a						axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CTGGTCACACCTATGAGAGAG	0.532													14	59					4.3838e-07	4.63385e-07	1	1	0		A	103243938	A	A	103243938	5	1	84	1	0	0	0	0	0	0	1	0	13245	695	24	5	7404	5	RELN	7	103243938	Splice_Site	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2511100	103243938	55894725	534	52377											
LAMB1	3912	broad.mit.edu	37	chr7	107566694	107566694	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaatatattctgcctccccGgagttttgggcagctttccg	6	14	9	12	2	2	0	1	0	1	0	4	1	4	1	4	2	2	3	4	2	3	6	rs147490680	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:107566694G>T	uc003vew.2	-	32	5333	c.4998C>A	c.(4996-4998)TCC>TCA	p.S1666S	LAMB1_uc003vev.2_Silent_p.S1690S|LAMB1_uc003veu.2_Silent_p.S149S	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1666	Potential.|Domain I.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTGCCTCCCCGGAGTTTTGGG	0.428													17	61					1.99824e-07	2.11993e-07	1	1	0		T	107566694	T	T	107566694	2	4	84	1	0	0	0	0	0	0	0	1	8626	1103	39	5		5	LAMB1	7	107566694	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4322756	107566694	51571969	535	52378											
LRRN3	54674	broad.mit.edu	37	chr7	110763653	110763653	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaatcctattaatagaatAcgaaggggtgattttagcaa	18	11	8	4	1	0	2	0	1	0	1	1	3	1	2	1	2	2	1	1	2	10	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:110763653A>G	uc003vft.3	+	4	1871	c.825A>G	c.(823-825)ATA>ATG	p.I275M	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.I275M|LRRN3_uc003vfs.3_Missense_Mutation_p.I275M	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	275	Extracellular (Potential).|LRR 9.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		TTAATAGAATACGAAGGGGTG	0.338													14	45					0	0	1	0	0		G	110763653	G	G	110763653	3	3	84	1	0	0	0	0	1	0	0	0	9054	381	14	3	827	3	LRRN3	7	110763653	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	3196959	110763653	48375010	536	52379											
DOCK4	9732	broad.mit.edu	37	chr7	111368395	111368395	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtcagtcctccgggcccCattctccaggtggctggatc	4	9	14	14	1	2	0	1	0	1	0	6	1	4	1	5	6	0	1	5	6	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:111368395C>A	uc003vfx.2	-	52	6105	c.5836G>T	c.(5836-5838)GGG>TGG	p.G1946W	DOCK4_uc011kml.1_Missense_Mutation_p.G827W|DOCK4_uc011kmm.1_Missense_Mutation_p.G815W|DOCK4_uc003vfw.2_Missense_Mutation_p.G1358W|DOCK4_uc003vfy.2_Missense_Mutation_p.G1991W|DOCK4_uc003vfv.2_Missense_Mutation_p.G259W	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1946	Pro-rich.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				CTCCGGGCCCCATTCTCCAGG	0.667													4	33					1	1	1	1	0		A	111368395	A	A	111368395	3	1	84	1	0	0	0	0	1	0	0	0	4695	594	21	5	68	5	DOCK4	7	111368395	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	604742	111368395	47770268	537	52380											
ZNF277	11179	broad.mit.edu	37	chr7	111958267	111958267	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaacaacagcagcaagaaCgaaatgataccaattttcat	18	8	7	8	1	1	2	1	1	0	1	1	4	1	3	1	1	6	2	1	1	7	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:111958267C>T	uc003vge.2	+	5	625	c.496C>T	c.(496-498)CGA>TGA	p.R166*	ZNF277_uc003vgd.2_Nonsense_Mutation_p.R166*|ZNF277_uc003vgf.2_Nonsense_Mutation_p.R88*|ZNF277_uc003vgg.2_Translation_Start_Site	NM_021994	NP_068834	Q9NRM2	ZN277_HUMAN	zinc finger protein (C2H2 type) 277	166						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(2)	4						GCAGCAAGAACGAAATGATAC	0.323													8	46					0	0	1	0	0		T	111958267	T	T	111958267	4	4	84	1	0	0	0	0	0	1	0	0	17837	528	19	1	514	1	ZNF277	7	111958267	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	589872	111958267	47180396	538	52381											
C7orf58	79974	broad.mit.edu	37	chr7	120884391	120884391	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagtgcctgggaggaaggaAggtaggttctggatctagtg	9	9	18	5	0	2	0	0	0	2	0	2	4	2	4	1	6	1	3	1	6	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:120884391A>G	uc003vjq.3	+	18	2756	c.2309A>G	c.(2308-2310)AAG>AGG	p.K770R	C7orf58_uc003vjs.3_Missense_Mutation_p.K770R|C7orf58_uc003vjt.3_Missense_Mutation_p.K550R	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	770						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					GGAGGAAGGAAGGTAGGTTCT	0.478													5	50					0	0	1	0	0		G	120884391	G	G	120884391	3	3	84	1	0	0	0	0	1	0	0	0	2408	86	3	3	2375	3	C7orf58	7	120884391	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	8926124	120884391	38254272	539	52382											
WNT16	51384	broad.mit.edu	37	chr7	120979305	120979305	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttacaacacccatgtggtcaGgcacgtggagaggtgtgagt	10	9	14	8	1	1	2	1	1	0	1	1	3	1	2	1	4	2	1	1	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:120979305G>T	uc003vjw.2	+	4	1261	c.1004G>T	c.(1003-1005)AGG>ATG	p.R335M	WNT16_uc003vjv.2_Missense_Mutation_p.R325M|WNT16_uc010lkl.2_Missense_Mutation_p.R119M	NM_057168	NP_476509	Q9UBV4	WNT16_HUMAN	wingless-type MMTV integration site family,	335					anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|keratinocyte differentiation|keratinocyte proliferation|negative regulation of cell death|optic cup formation involved in camera-type eye development|oxidative stress-induced premature senescence|positive regulation of gene expression|positive regulation of JNK cascade|positive regulation of phosphatidylinositol 3-kinase cascade|replicative senescence|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			lung(2)|ovary(2)|large_intestine(1)	5	all_neural(327;0.117)					CATGTGGTCAGGCACGTGGAG	0.537													22	81					6.44725e-10	6.98452e-10	1	1	0		T	120979305	T	T	120979305	3	4	84	1	0	0	0	0	1	0	0	0	17411	1000	35	5	1087	5	WNT16	7	120979305	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	94914	120979305	38159358	540	52383											
PTPRZ1	5803	broad.mit.edu	37	chr7	121652619	121652619	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttattttatgagacctcAgcttcttttagtactgaagt	9	18	6	8	0	3	2	1	2	2	1	3	3	3	2	1	0	2	2	1	0	5	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:121652619A>C	uc003vjy.2	+	12	3914	c.3519A>C	c.(3517-3519)TCA>TCC	p.S1173S	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1173	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						ATGAGACCTCAGCTTCTTTTA	0.428													52	158					0	0	1	0	0		C	121652619	C	C	121652619	2	2	84	1	0	0	0	0	0	0	0	1	12839	175	7	5		5	PTPRZ1	7	121652619	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	673314	121652619	37486044	541	52384											
IQUB	154865	broad.mit.edu	37	chr7	123101557	123101557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttacgacaccggtatatgcGgcgtgaggtggatgatacag	10	9	15	7	4	0	2	0	2	0	0	0	4	0	3	1	4	3	2	1	4	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:123101557G>A	uc003vkn.2	-	11	2438	c.1861C>T	c.(1861-1863)CGC>TGC	p.R621C	IQUB_uc011kny.1_5'UTR|IQUB_uc003vko.2_Missense_Mutation_p.R621C|IQUB_uc010lkt.2_RNA	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	621										ovary(3)|large_intestine(1)	4						CGGTATATGCGGCGTGAGGTG	0.383													8	41					0	0	1	0	0		A	123101557	A	A	123101557	3	1	84	1	0	0	0	0	1	0	0	0	7836	1116	39	1	526	1	IQUB	7	123101557	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1448938	123101557	36037106	542	52385											
SND1	27044	broad.mit.edu	37	chr7	127724828	127724828	+	Frame_Shift_Del	DEL	C	-	-																															cgcaatgacattgccagtcaCccccctgtagagggctccta																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:127724828delC	uc003vmi.2	+	19	2389	c.2163delC	c.(2161-2163)CACfs	p.H721fs	SND1_uc010lle.2_Frame_Shift_Del_p.H374fs	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	721					gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						TTGCCAGTCACCCCCCTGTAG	0.557													20	46	---	---	---	---						.	-	127724828	-	-	127724828	7	5	84	1	0	1	0	1	0	0	0	0	14869	506	18	0	2237	0	SND1	7	127724828	Frame_Shift_Del	DEL	C	TCGA-BR-8591-01A-11D-2394-08	4623271	127724828	31413835	543	52386											
FLNC	2318	broad.mit.edu	37	chr7	128488744	128488744	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgacgcacgggacgcgggCgaggggttgctcactgtcca	7	6	16	12	6	1	0	1	0	0	0	3	3	2	1	1	4	1	3	1	4	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:128488744C>T	uc003vnz.3	+	27	4919	c.4710C>T	c.(4708-4710)GGC>GGT	p.G1570G	FLNC_uc003voa.3_Silent_p.G1570G	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1570	Filamin 14.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GGGACGCGGGCGAGGGGTTGC	0.657													60	141					0	0	1	0	0		T	128488744	T	T	128488744	2	4	84	1	0	0	0	0	0	0	0	1	5949	755	27	1		1	FLNC	7	128488744	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	763916	128488744	30649919	544	52387											
PLXNA4	91584	broad.mit.edu	37	chr7	132193357	132193357	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaccgctgcttctgggacagCggggctggctgccgggtgag	4	7	19	11	3	1	1	0	1	1	0	1	3	1	2	2	5	3	4	2	5	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:132193357C>T	uc003vra.3	-	2	325	c.96G>A	c.(94-96)CCG>CCA	p.P32P	PLXNA4_uc003vrc.2_Silent_p.P32P|PLXNA4_uc003vrb.2_Silent_p.P32P	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	32	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TCTGGGACAGCGGGGCTGGCT	0.597													12	26					0	0	1	0	0		T	132193357	T	T	132193357	2	4	84	1	0	0	0	0	0	0	0	1	12141	755	27	1		1	PLXNA4	7	132193357	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3704613	132193357	26945306	545	52388											
SLC13A4	26266	broad.mit.edu	37	chr7	135376308	135376308	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcaccatcattcttttTcccaaagcagggcttcttcg	7	15	5	14	1	5	0	2	0	3	0	8	0	6	0	2	1	1	2	2	1	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:135376308T>C	uc003vta.2	-	12	1995	c.1306A>G	c.(1306-1308)AAA>GAA	p.K436E	SLC13A4_uc003vtb.2_Missense_Mutation_p.K437E|PL-5283_uc003vsz.3_Intron	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	436						integral to plasma membrane	sodium:sulfate symporter activity				0						TCATTCTTTTTCCCAAAGCAG	0.458													11	43					0	0	1	0	0		C	135376308	C	C	135376308	3	2	84	1	0	0	0	0	1	0	0	0	14419	1792	62	3	594	3	SLC13A4	7	135376308	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3182951	135376308	23762355	546	52389											
CHRM2	1129	broad.mit.edu	37	chr7	136700051	136700051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtatgatgattgcagctGcctgggtcctctctttcatc	6	14	10	11	0	2	2	1	2	1	0	5	2	3	2	2	2	3	3	2	2	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:136700051G>A	uc003vtf.1	+	4	1062	c.439G>A	c.(439-441)GCC>ACC	p.A147T	CHRM2_uc003vtg.1_Missense_Mutation_p.A147T|CHRM2_uc003vtj.1_Missense_Mutation_p.A147T|CHRM2_uc003vtk.1_Missense_Mutation_p.A147T|CHRM2_uc003vtl.1_Missense_Mutation_p.A147T|CHRM2_uc003vtm.1_Missense_Mutation_p.A147T|CHRM2_uc003vti.1_Missense_Mutation_p.A147T|CHRM2_uc003vto.1_Missense_Mutation_p.A147T|CHRM2_uc003vtn.1_Missense_Mutation_p.A147T|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	147	Helical; Name=4; (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	GATTGCAGCTGCCTGGGTCCT	0.502													29	61					0	0	1	0	0		A	136700051	A	A	136700051	3	1	84	1	0	0	0	0	1	0	0	0	3380	1319	46	2	441	2	CHRM2	7	136700051	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1323743	136700051	22438612	547	52390											
KIAA1549	57670	broad.mit.edu	37	chr7	138601643	138601643	+	Frame_Shift_Del	DEL	G	-	-																															gaggagcagcactactctctGgggggctctgacttgcggcg																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:138601643delG	uc011kql.1	-	2	2778	c.2729delC	c.(2728-2730)CCAfs	p.P910fs	KIAA1549_uc003vuk.3_Frame_Shift_Del_p.P860fs|KIAA1549_uc011kqj.1_Frame_Shift_Del_p.P910fs	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	910						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						ACTACTCTCTGGGGGGCTCTG	0.627			O	BRAF	pilocytic astrocytoma								13	27	---	---	---	---						.	-	138601643	-	-	138601643	7	5	84	1	0	1	0	1	0	0	0	0	8260	1348	47	0	3199	0	KIAA1549	7	138601643	Frame_Shift_Del	DEL	G	TCGA-BR-8591-01A-11D-2394-08	1901592	138601643	20537020	548	52391											
PARP12	64761	broad.mit.edu	37	chr7	139746769	139746769	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctatccaagaattgccAtcgatacggcaaatggaaat	14	9	8	10	2	1	1	0	0	1	1	3	3	2	2	3	2	2	1	3	2	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:139746769A>G	uc003vvl.1	-	5	1775	c.901T>C	c.(901-903)TGG>CGG	p.W301R	PARP12_uc003vvk.1_Missense_Mutation_p.W87R|PARP12_uc010lnf.1_RNA	NM_022750	NP_073587	Q9H0J9	PAR12_HUMAN	poly ADP-ribose polymerase 12	301	WWE 1.					nucleus	NAD+ ADP-ribosyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)	3	Melanoma(164;0.0142)					AAGAATTGCCATCGATACGGC	0.403													21	51					0	0	1	0	0		G	139746769	G	G	139746769	3	3	84	1	0	0	0	0	1	0	0	0	11476	217	8	3	1236	3	PARP12	7	139746769	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1145126	139746769	19391894	549	52392											
DENND2A	27147	broad.mit.edu	37	chr7	140267037	140267037	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaccgaggcgcctgcttcAgccgggacttcacgttgacc	6	8	13	14	4	2	1	2	1	0	0	2	3	2	2	4	3	3	3	4	3	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:140267037A>G	uc010lnj.2	-	7	1773	c.1628T>C	c.(1627-1629)CTG>CCG	p.L543P	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.L543P|DENND2A_uc003vvw.2_Missense_Mutation_p.L543P|DENND2A_uc003vvx.2_Missense_Mutation_p.L543P	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	543										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					CGCCTGCTTCAGCCGGGACTT	0.413													12	21					0	0	1	0	0		G	140267037	G	G	140267037	3	3	84	1	0	0	0	0	1	0	0	0	4435	188	7	3	1449	3	DENND2A	7	140267037	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	520268	140267037	18871626	550	52393											
BRAF	673	broad.mit.edu	37	chr7	140434475	140434475	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcatatagactaaaatcCtctgtttggaaaccagcccg	14	9	7	11	1	1	1	0	0	1	1	2	2	2	2	3	1	3	2	3	1	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:140434475C>A	uc003vwc.3	-	18	2284	c.2223G>T	c.(2221-2223)GAG>GAT	p.E741D		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	741					activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	GACTAAAATCCTCTGTTTGGA	0.483		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				58	120					1.17673e-23	1.33194e-23	1	1	0		A	140434475	A	A	140434475	3	1	84	1	0	0	0	0	1	0	0	0	1499	680	24	5	81	5	BRAF	7	140434475	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	167438	140434475	18704188	551	52394											
MGAM	8972	broad.mit.edu	37	chr7	141708379	141708379	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcctggaacaactggtacCacacatgctaggacaacggg	13	6	11	11	1	0	0	0	0	0	0	1	3	1	2	2	4	5	2	2	4	5	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:141708379C>T	uc003vwy.2	+	3	255	c.201C>T	c.(199-201)ACC>ACT	p.T67T		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	67	Ser/Thr-rich.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	CAACTGGTACCACACATGCTA	0.483													19	29					0	0	1	0	0		T	141708379	T	T	141708379	2	4	84	1	0	0	0	0	0	0	0	1	9559	581	21	4		4	MGAM	7	141708379	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1273904	141708379	17430284	552	52395											
EPHB6	2051	broad.mit.edu	37	chr7	142561892	142561892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgactccacttctctgtgCgggcatgctccagcctgggt	4	12	11	14	2	1	0	0	0	1	0	5	1	3	0	3	2	3	2	3	2	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:142561892C>T	uc011kst.1	+	7	1121	c.334C>T	c.(334-336)CGG>TGG	p.R112W	EPHB6_uc011ksu.1_Missense_Mutation_p.R112W|EPHB6_uc003wbs.2_5'UTR|EPHB6_uc003wbt.2_5'UTR|EPHB6_uc003wbu.2_5'UTR	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	112	Extracellular (Potential).					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					CTTCTCTGTGCGGGCATGCTC	0.657													45	157					0	0	1	0	0		T	142561892	T	T	142561892	3	4	84	1	0	0	0	0	1	0	0	0	5186	759	27	1	344	1	EPHB6	7	142561892	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	853513	142561892	16576771	553	52396											
EPHB6	2051	broad.mit.edu	37	chr7	142562206	142562206	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacgtggccttccaggacacGggggcctgcctggccctggt	4	8	15	14	2	0	0	0	0	0	0	1	1	1	1	5	6	2	0	5	6	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:142562206G>A	uc011kst.1	+	7	1435	c.648G>A	c.(646-648)ACG>ACA	p.T216T	EPHB6_uc011ksu.1_Silent_p.T216T|EPHB6_uc003wbs.2_5'UTR|EPHB6_uc003wbt.2_Intron|EPHB6_uc003wbu.2_5'UTR|EPHB6_uc003wbv.2_5'Flank	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	216	Extracellular (Potential).					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					TCCAGGACACGGGGGCCTGCC	0.657													54	190					0	0	1	0	0		A	142562206	A	A	142562206	2	1	84	1	0	0	0	0	0	0	0	1	5186	1103	39	1		1	EPHB6	7	142562206	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	314	142562206	16576457	554	52397											
GSTK1	373156	broad.mit.edu	37	chr7	142962174	142962174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggagctgtggatgcgcGtctggtcaagggtgagtgtg	5	9	19	8	3	2	1	1	1	1	0	2	3	2	3	1	4	2	1	1	4	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:142962174G>A	uc003wci.2	+	4	458	c.373G>A	c.(373-375)GTC>ATC	p.V125I	GSTK1_uc011ksy.1_Missense_Mutation_p.V82I|GSTK1_uc003wcj.2_Missense_Mutation_p.V125I|GSTK1_uc011ksz.1_Missense_Mutation_p.V125I	NM_015917	NP_057001	Q9Y2Q3	GSTK1_HUMAN	glutathione S-transferase kappa 1 isoform a	125						outer membrane-bounded periplasmic space|peroxisome	glutathione transferase activity|identical protein binding|protein disulfide oxidoreductase activity				0	Melanoma(164;0.059)				Glutathione(DB00143)	GTGGATGCGCGTCTGGTCAAG	0.587													7	62					0	0	1	0	0		A	142962174	A	A	142962174	3	1	84	1	0	0	0	0	1	0	0	0	6852	1145	40	1	387	1	GSTK1	7	142962174	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	399968	142962174	16176489	555	52398											
TAS2R41	259287	broad.mit.edu	37	chr7	143175662	143175662	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggctcacaccagagctCtgaagtccctcatctccttc	8	9	6	18	0	4	2	2	1	2	1	7	2	5	2	4	1	1	2	4	1	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:143175662C>A	uc003wdc.1	+	1	697	c.697C>A	c.(697-699)CTG>ATG	p.L233M	uc003wda.2_Intron	NM_176883	NP_795364	P59536	T2R41_HUMAN	taste receptor, type 2, member 41	233	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			pancreas(1)|skin(1)	2	Melanoma(164;0.15)					CACCAGAGCTCTGAAGTCCCT	0.478													20	73					2.94398e-08	3.15595e-08	1	1	0		A	143175662	A	A	143175662	3	1	84	1	0	0	0	0	1	0	0	0	15604	912	32	5	699	5	TAS2R41	7	143175662	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	213488	143175662	15963001	556	52399											
CNTNAP2	26047	broad.mit.edu	37	chr7	147092722	147092722	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttctgaaccagatgaataActcaagtcactctgtccttc	11	14	5	11	0	4	3	2	2	2	1	6	3	5	3	2	0	2	0	2	0	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:147092722A>T	uc003weu.1	+	10	2036	c.1520A>T	c.(1519-1521)AAC>ATC	p.N507I		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	507	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CAGATGAATAACTCAAGTCAC	0.398										HNSCC(39;0.1)			42	114					0	0	1	0	0		T	147092722	T	T	147092722	3	4	84	1	0	0	0	0	1	0	0	0	3650	43	2	5	1558	5	CNTNAP2	7	147092722	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	3917060	147092722	12045941	557	52400											
SLC4A2	6522	broad.mit.edu	37	chr7	150765012	150765012	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaaaccaggagccccagTggcgggagacagctcgctgg	12	3	14	12	2	0	1	0	0	0	1	1	3	0	2	3	4	3	2	3	4	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:150765012T>A	uc003wit.3	+	8	1274	c.1018T>A	c.(1018-1020)TGG>AGG	p.W340R	SLC4A2_uc011kve.1_Missense_Mutation_p.W331R|SLC4A2_uc003wiu.3_Missense_Mutation_p.W326R	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	340	Cytoplasmic (Potential).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGAGCCCCAGTGGCGGGAGAC	0.592													12	34					0	0	1	0	0		A	150765012	A	A	150765012	3	1	84	1	0	0	0	0	1	0	0	0	14679	1696	59	5	1044	5	SLC4A2	7	150765012	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3672290	150765012	8373651	558	52401											
WDR86	349136	broad.mit.edu	37	chr7	151093229	151093229	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtccacactccagaccCgagctgtccggtcataggag	8	8	10	15	2	1	1	1	0	0	1	4	3	4	2	5	2	1	1	5	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:151093229C>T	uc003wkb.2	-	3	808	c.359G>A	c.(358-360)CGG>CAG	p.R120Q	WDR86_uc003wka.2_Missense_Mutation_p.R78Q|WDR86_uc011kvk.1_Missense_Mutation_p.R120Q|WDR86_uc003wkc.2_5'UTR	NM_198285	NP_938026	Q86TI4	WDR86_HUMAN	WD repeat domain 86	120	WD 3.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00419)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ACTCCAGACCCGAGCTGTCCG	0.642													27	58					0	0	1	0	0		T	151093229	T	T	151093229	3	4	84	1	0	0	0	0	1	0	0	0	17360	652	23	1	787	1	WDR86	7	151093229	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	328217	151093229	8045434	559	52402											
GALNT11	63917	broad.mit.edu	37	chr7	151805283	151805283	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcgtcccctgtcgtccgCggagggttcaactggggact	5	9	14	13	4	1	0	1	0	0	0	5	2	3	2	3	4	2	2	3	4	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:151805283C>T	uc010lqg.1	+	6	1103	c.873C>T	c.(871-873)CGC>CGT	p.R291R	GALNT11_uc011kvm.1_Silent_p.R210R|GALNT11_uc003wku.2_Silent_p.R291R|GALNT11_uc011kvn.1_RNA|GALNT11_uc003wkw.1_Silent_p.R39R	NM_022087	NP_071370	Q8NCW6	GLT11_HUMAN	N-acetylgalactosaminyltransferase 11	291	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.214)	OV - Ovarian serous cystadenocarcinoma(82;0.00168)	UCEC - Uterine corpus endometrioid carcinoma (81;0.177)|BRCA - Breast invasive adenocarcinoma(188;0.0932)		CTGTCGTCCGCGGAGGGTTCA	0.602													34	83					0	0	1	0	0		T	151805283	T	T	151805283	2	4	84	1	0	0	0	0	0	0	0	1	6224	755	27	1		1	GALNT11	7	151805283	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	712054	151805283	7333380	560	52403											
MNX1	3110	broad.mit.edu	37	chr7	156802962	156802962	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcgacgtgaccaaggccAgcggcgcgctctgcgcagag	8	3	16	14	7	1	2	0	1	1	1	1	4	1	2	2	2	3	2	2	2	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr7:156802962A>G	uc003wnd.1	-	1	386	c.83T>C	c.(82-84)CTG>CCG	p.L28P	MNX1_uc003wmz.2_5'Flank|MNX1_uc003wna.2_Missense_Mutation_p.L28P|MNX1_uc010lqq.1_5'Flank|MNX1_uc003wnc.1_5'Flank|MNX1_uc010lqr.1_5'Flank|uc003wne.1_5'Flank	NM_005515	NP_005506	P50219	MNX1_HUMAN	motor neuron and pancreas homeobox 1 isoform 1	28				DALLAVDPPRAASAQSAPLALVTSLAAA -> EPCWRWTPH EPPLAERALAKVTSPPVP (in Ref. 1; AAB60647).	humoral immune response|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GACCAAGGCCAGCGGCGCGCT	0.567									Currarino_syndrome				3	9					0	0	1	0	0		G	156802962	G	G	156802962	3	3	84	1	0	0	0	0	1	0	0	0	9697	188	7	3	1193	3	MNX1	7	156802962	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	4997679	156802962	2335701	561	52404											
ERICH1	157697	broad.mit.edu	37	chr8	623572	623572	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaacgtcttcctccccggcCggtgtcggatcttcctcact	4	13	8	16	4	3	0	1	0	2	0	7	1	6	1	5	3	1	0	5	3	1	3	rs115887455	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:623572C>T	uc003wph.2	-	4	845	c.780G>A	c.(778-780)CCG>CCA	p.P260P	ERICH1_uc011kwh.1_Silent_p.P260P|ERICH1_uc003wpe.1_Silent_p.P166P|ERICH1_uc003wpi.2_Silent_p.P72P	NM_207332	NP_997215	Q86X53	ERIC1_HUMAN	glutamate-rich 1	260	Glu-rich.									large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		CCTCCCCGGCCGGTGTCGGAT	0.617													77	212					0	0	1	0	0		T	623572	T	T	623572	2	4	84	1	0	0	0	0	0	0	0	1	5238	639	23	1		1	ERICH1	8	623572	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08		623572	145740450	562	52405											
CLN8	2055	broad.mit.edu	37	chr8	1719304	1719304	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggatccgctccacgctgatGgtcgctggctttgtcttcta	4	13	12	12	3	2	1	0	1	2	0	5	2	4	2	2	3	0	4	2	3	1	3	rs148763945		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:1719304G>T	uc003wpo.3	+	2	389	c.84G>T	c.(82-84)ATG>ATT	p.M28I		NM_018941	NP_061764	Q9UBY8	CLN8_HUMAN	ceroid-lipofuscinosis, neuronal 8	28	Helical; (Potential).				cell death|ceramide biosynthetic process|cholesterol metabolic process|lipid transport|negative regulation of proteolysis|phospholipid metabolic process	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to membrane		p.M28I(2)		ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(12;0.0563)|Colorectal(14;0.0815)|Hepatocellular(245;0.0831)		BRCA - Breast invasive adenocarcinoma(11;7.67e-05)|READ - Rectum adenocarcinoma(644;0.0913)		CCACGCTGATGGTCGCTGGCT	0.542													33	120					4.4194e-11	4.81163e-11	1	1	0		T	1719304	T	T	1719304	3	4	84	1	0	0	0	0	1	0	0	0	3549	1348	47	5	86	5	CLN8	8	1719304	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1095732	1719304	144644718	563	52406											
MYOM2	9172	broad.mit.edu	37	chr8	2046748	2046748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgccgccgtcaacctggccgGcatcggggagccctcagatc	6	5	13	17	5	2	1	2	0	0	1	4	2	2	2	5	4	2	1	5	4	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:2046748G>A	uc003wpx.3	+	19	2513	c.2375G>A	c.(2374-2376)GGC>GAC	p.G792D	MYOM2_uc011kwi.1_Missense_Mutation_p.G217D	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	792	Fibronectin type-III 4.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		AACCTGGCCGGCATCGGGGAG	0.567													7	36					0	0	1	0	0		A	2046748	A	A	2046748	3	1	84	1	0	0	0	0	1	0	0	0	10110	1203	42	2	2445	2	MYOM2	8	2046748	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	327444	2046748	144317274	564	52407											
CSMD1	64478	broad.mit.edu	37	chr8	2886956	2886956	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcagcaatacttgagcaccGtactcattcaaggatcctga	12	10	7	12	1	3	2	3	2	0	0	4	3	4	3	2	1	4	3	2	1	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:2886956G>A	uc011kwk.1	-	51	8133	c.7743C>T	c.(7741-7743)TAC>TAT	p.Y2581Y	CSMD1_uc011kwj.1_Silent_p.Y1910Y|CSMD1_uc010lrg.2_Silent_p.Y649Y	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2581	Extracellular (Potential).|Sushi 16.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CTTGAGCACCGTACTCATTCA	0.532													10	29					0	0	1	0	0		A	2886956	A	A	2886956	2	1	84	1	0	0	0	0	0	0	0	1	3947	1140	40	1		1	CSMD1	8	2886956	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	840208	2886956	143477066	565	52408											
SGK223	157285	broad.mit.edu	37	chr8	8176630	8176630	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcgggtgatgaccaccacGcagtcctgctcctgggcagg	6	8	13	14	2	1	2	0	2	1	0	4	2	3	2	4	3	1	3	4	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:8176630G>A	uc003wsh.3	-	5	3255	c.3255C>T	c.(3253-3255)TGC>TGT	p.C1085C		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	1085	Protein kinase.						ATP binding|non-membrane spanning protein tyrosine kinase activity				0						TGACCACCACGCAGTCCTGCT	0.716													29	121					0	0	1	0	0		A	8176630	A	A	8176630	2	1	84	1	0	0	0	0	0	0	0	1	14235	1079	38	1		1	SGK223	8	8176630	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	5289674	8176630	138187392	566	52409											
PPP1R3B	79660	broad.mit.edu	37	chr8	8998651	8998651	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggaaagtctgtgtagcTcttccaggtgtcgaacgtca	11	10	11	9	2	3	0	1	0	2	0	5	2	4	1	1	2	2	2	1	2	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:8998651T>G	uc003wsn.3	-	2	676	c.511A>C	c.(511-513)AGC>CGC	p.S171R	PPP1R3B_uc003wso.3_Missense_Mutation_p.S170R	NM_024607	NP_078883	Q86XI6	PPR3B_HUMAN	protein phosphatase 1, regulatory (inhibitor)	171	CBM21.				glycogen metabolic process					ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(149;0.0717)|READ - Rectum adenocarcinoma(644;0.241)		TCTGTGTAGCTCTTCCAGGTG	0.502													44	181					0	0	1	0	0		G	8998651	G	G	8998651	3	3	84	1	0	0	0	0	1	0	0	0	12394	1551	54	5	350	5	PPP1R3B	8	8998651	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	822021	8998651	137365371	567	52410											
TNKS	8658	broad.mit.edu	37	chr8	9622250	9622250	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtactattcgagaacacAgagatggtggtaatgctggc	14	9	12	6	1	0	2	0	0	0	2	1	4	0	2	0	3	3	3	0	3	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:9622250A>G	uc003wss.2	+	23	3402	c.3397A>G	c.(3397-3399)AGA>GGA	p.R1133G	TNKS_uc011kww.1_Missense_Mutation_p.R896G	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1133	PARP catalytic.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		TCGAGAACACAGAGATGGTGG	0.353													8	60					0	0	1	0	0		G	9622250	G	G	9622250	3	3	84	1	0	0	0	0	1	0	0	0	16344	180	7	3	3487	3	TNKS	8	9622250	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	623599	9622250	136741772	568	52411											
BLK	640	broad.mit.edu	37	chr8	11420558	11420558	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcaccatcaaagcagaCgtgtggtcgtttggagtcct	8	12	11	10	2	3	1	2	0	1	1	5	2	4	2	2	2	1	2	2	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:11420558C>T	uc003wty.2	+	12	1832	c.1251C>T	c.(1249-1251)GAC>GAT	p.D417D	BLK_uc003wtz.2_Silent_p.D346D|BLK_uc003wua.2_Silent_p.D253D	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	417	Protein kinase.				intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		TCAAAGCAGACGTGTGGTCGT	0.592													27	184					0	0	1	0	0		T	11420558	T	T	11420558	2	4	84	1	0	0	0	0	0	0	0	1	1445	535	19	1		1	BLK	8	11420558	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1798308	11420558	134943464	569	52412											
USP17L2	377630	broad.mit.edu	37	chr8	11995172	11995172	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtaaaagaggacataggcCtgttgactcaggacagaagt	15	8	12	6	0	1	3	1	1	0	2	1	5	1	5	1	3	0	2	1	3	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:11995172C>A	uc003wvc.1	-	1	1098	c.1098G>T	c.(1096-1098)CAG>CAT	p.Q366H	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	366					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3						GGACATAGGCCTGTTGACTCA	0.483													15	84					0.000132079	0.000136547	1	1	0		A	11995172	A	A	11995172	3	1	84	1	0	0	0	0	1	0	0	0	17074	680	24	5	498	5	USP17L2	8	11995172	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	574614	11995172	134368850	570	52413											
DLC1	10395	broad.mit.edu	37	chr8	12943849	12943849	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggattttcctggcccacaGggttcaatcaaatacctgga	10	12	9	10	0	2	0	2	0	0	0	3	2	3	2	3	4	1	1	3	4	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:12943849G>T	uc003wwm.2	-	17	4860	c.4416C>A	c.(4414-4416)CCC>CCA	p.P1472P	DLC1_uc003wwk.1_Silent_p.P1035P|DLC1_uc003wwl.1_Silent_p.P1069P|DLC1_uc011kxx.1_Silent_p.P961P	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1472	START.				actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CTGGCCCACAGGGTTCAATCA	0.453													28	115					3.1745e-13	3.48454e-13	1	1	0		T	12943849	T	T	12943849	2	4	84	1	0	0	0	0	0	0	0	1	4556	987	35	5		5	DLC1	8	12943849	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	948677	12943849	133420173	571	52414											
DLC1	10395	broad.mit.edu	37	chr8	12957883	12957883	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggcagttttttcgtggcCtttcatgctgaagctgaagc	6	15	11	9	1	1	2	1	2	0	0	2	2	1	2	1	2	3	4	1	2	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:12957883C>A	uc003wwm.2	-	9	2407	c.1963G>T	c.(1963-1965)GGC>TGC	p.G655C	DLC1_uc003wwk.1_Missense_Mutation_p.G218C|DLC1_uc003wwl.1_Missense_Mutation_p.G252C|DLC1_uc011kxx.1_Missense_Mutation_p.G144C	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	655					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TTTTCGTGGCCTTTCATGCTG	0.557													25	161					1.10923e-09	1.19794e-09	1	1	0		A	12957883	A	A	12957883	3	1	84	1	0	0	0	0	1	0	0	0	4556	681	24	5	2663	5	DLC1	8	12957883	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	14034	12957883	133406139	572	52415											
EFHA2	286097	broad.mit.edu	37	chr8	16971623	16971623	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcacatttgatgaattcAggtcatttttccagttttta	10	18	6	7	0	3	2	3	2	0	0	4	2	4	2	1	1	0	2	1	1	2	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:16971623A>G	uc003wxd.2	+	12	1321	c.1279A>G	c.(1279-1281)AGG>GGG	p.R427G		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	427	EF-hand 2.					integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		TGATGAATTCAGGTCATTTTT	0.318													8	55					0	0	1	0	0		G	16971623	G	G	16971623	3	3	84	1	0	0	0	0	1	0	0	0	4950	179	7	3	1325	3	EFHA2	8	16971623	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	4013740	16971623	129392399	573	52416											
PSD3	23362	broad.mit.edu	37	chr8	18432748	18432748	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtggtgcacactcacagcGtttttcaagtcctcttcaga	8	12	9	12	2	4	1	3	0	1	1	5	1	5	1	1	1	2	2	1	1	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:18432748G>A	uc003wza.2	-	13	2632	c.2529C>T	c.(2527-2529)AAC>AAT	p.N843N	PSD3_uc003wyx.3_Silent_p.N172N|PSD3_uc003wyy.2_Silent_p.N309N|PSD3_uc003wyz.2_Silent_p.N144N	NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	844	PH.				regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		CACTCACAGCGTTTTTCAAGT	0.428													16	77					0	0	1	0	0		A	18432748	A	A	18432748	2	1	84	1	0	0	0	0	0	0	0	1	12670	1136	40	1		1	PSD3	8	18432748	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1461125	18432748	127931274	574	52417											
XPO7	23039	broad.mit.edu	37	chr8	21840178	21840178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttgctccaaatagtgtgCactatcttctgagcctgtgg	9	14	9	9	0	2	1	0	1	2	0	3	1	3	1	2	1	3	2	2	1	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:21840178C>T	uc003xaa.3	+	11	1234	c.1132C>T	c.(1132-1134)CAC>TAC	p.H378Y	XPO7_uc010lti.2_Missense_Mutation_p.H387Y|XPO7_uc010ltk.2_Missense_Mutation_p.H379Y	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	378				Missing (in Ref. 3; BAA34465).	mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		AAATAGTGTGCACTATCTTCT	0.483													27	95					0	0	1	0	0		T	21840178	T	T	21840178	3	4	84	1	0	0	0	0	1	0	0	0	17475	710	25	2	1226	2	XPO7	8	21840178	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3407430	21840178	124523844	575	52418											
FGF17	8822	broad.mit.edu	37	chr8	21903771	21903771	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcaccgggcgtcgcatCtccgccaccgccgaggacgg	6	4	14	17	7	2	0	1	0	1	0	4	2	2	1	5	4	0	1	5	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:21903771C>A	uc003xag.2	+	3	231	c.219C>A	c.(217-219)ATC>ATA	p.I73I	FGF17_uc003xah.2_Silent_p.I62I|FGF17_uc003xai.2_Silent_p.I96I	NM_003867	NP_003858	O60258	FGF17_HUMAN	fibroblast growth factor 17 precursor	73					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|nervous system development	extracellular space	growth factor activity|type 1 fibroblast growth factor receptor binding|type 2 fibroblast growth factor receptor binding				0				Colorectal(74;8.48e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0618)		GGCGTCGCATCTCCGCCACCG	0.657													24	93					4.72057e-08	5.04803e-08	1	1	0		A	21903771	A	A	21903771	2	1	84	1	0	0	0	0	0	0	0	1	5859	903	32	5		5	FGF17	8	21903771	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	63593	21903771	124460251	576	52419											
FGF17	8822	broad.mit.edu	37	chr8	21905606	21905606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccaggcttcccgcagccGccagaaccagcgcgaggccc	7	2	12	20	5	0	1	0	0	0	1	1	2	1	1	7	2	3	2	7	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:21905606G>A	uc003xag.2	+	5	509	c.497G>A	c.(496-498)CGC>CAC	p.R166H	FGF17_uc003xah.2_Missense_Mutation_p.R155H|FGF17_uc003xai.2_Missense_Mutation_p.R189H	NM_003867	NP_003858	O60258	FGF17_HUMAN	fibroblast growth factor 17 precursor	166					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|nervous system development	extracellular space	growth factor activity|type 1 fibroblast growth factor receptor binding|type 2 fibroblast growth factor receptor binding				0				Colorectal(74;8.48e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0618)		TCCCGCAGCCGCCAGAACCAG	0.657													8	34					0	0	1	0	0		A	21905606	A	A	21905606	3	1	84	1	0	0	0	0	1	0	0	0	5859	1087	38	1	515	1	FGF17	8	21905606	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1835	21905606	124458416	577	52420											
SLC39A14	23516	broad.mit.edu	37	chr8	22265945	22265945	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggattcccgggcctgcacCtcggagaaccaggaaaacga	11	5	12	13	3	0	1	0	0	0	1	2	5	1	3	4	4	3	1	4	4	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:22265945C>A	uc003xbq.3	+	3	568	c.393C>A	c.(391-393)ACC>ACA	p.T131T	SLC39A14_uc011kzg.1_Silent_p.T131T|SLC39A14_uc003xbp.3_Silent_p.T131T|SLC39A14_uc011kzh.1_Silent_p.T131T	NM_001128431	NP_001121903	Q15043	S39AE_HUMAN	solute carrier family 39 (zinc transporter),	131	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|lamellipodium|plasma membrane	zinc ion transmembrane transporter activity				0				Colorectal(74;0.019)|COAD - Colon adenocarcinoma(73;0.0731)		GGGCCTGCACCTCGGAGAACC	0.627													30	116					2.65835e-16	2.95523e-16	1	1	0		A	22265945	A	A	22265945	2	1	84	1	0	0	0	0	0	0	0	1	14642	668	24	5		5	SLC39A14	8	22265945	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	360339	22265945	124098077	578	52421											
EGR3	1960	broad.mit.edu	37	chr8	22548215	22548215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgctgcggctgaagctcCgcatgcagatccggcactgg	6	7	15	13	4	0	2	0	1	0	1	3	2	2	2	2	4	3	6	2	4	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:22548215C>T	uc003xcm.1	-	2	1293	c.935G>A	c.(934-936)CGG>CAG	p.R312Q	EGR3_uc011kzn.1_Missense_Mutation_p.R274Q|EGR3_uc011kzo.1_Missense_Mutation_p.R258Q	NM_004430	NP_004421	Q06889	EGR3_HUMAN	early growth response 3	312	C2H2-type 2.				circadian rhythm|muscle organ development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Prostate(55;0.0421)|Breast(100;0.102)		Colorectal(74;0.0145)|BRCA - Breast invasive adenocarcinoma(99;0.053)|COAD - Colon adenocarcinoma(73;0.0608)		GCTGAAGCTCCGCATGCAGAT	0.667													34	156					0	0	1	0	0		T	22548215	T	T	22548215	3	4	84	1	0	0	0	0	1	0	0	0	4979	652	23	1	232	1	EGR3	8	22548215	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	282270	22548215	123815807	579	52422											
RHOBTB2	23221	broad.mit.edu	37	chr8	22864426	22864426	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggaagtcccacctccgcaAtgtgcagcggcctctgctgc	6	8	11	16	2	1	0	0	0	1	0	3	1	3	1	4	2	4	3	4	2	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:22864426A>G	uc003xcq.2	+	5	1205	c.668A>G	c.(667-669)AAT>AGT	p.N223S	RHOBTB2_uc003xcp.2_Missense_Mutation_p.N245S|RHOBTB2_uc011kzp.1_Missense_Mutation_p.N230S|uc003xcr.2_RNA	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	223					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		CACCTCCGCAATGTGCAGCGG	0.662													56	205					0	0	1	0	0		G	22864426	G	G	22864426	3	3	84	1	0	0	0	0	1	0	0	0	13359	101	4	3	767	3	RHOBTB2	8	22864426	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	316211	22864426	123499596	580	52423											
NKX3-1	4824	broad.mit.edu	37	chr8	23539062	23539062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagaaggcagctcgggagCgcttctgcggctgcttaggg	6	7	19	9	3	1	1	0	0	1	1	2	3	1	2	0	5	4	5	0	5	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:23539062C>T	uc011kzx.1	-	2	425	c.377G>A	c.(376-378)CGC>CAC	p.R126H	NKX3-1_uc003xdv.1_Intron	NM_006167	NP_006158	Q99801	NKX31_HUMAN	NK3 homeobox 1	126	Homeobox.				negative regulation of estrogen receptor binding|negative regulation of transcription, DNA-dependent|positive regulation of cell division|positive regulation of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter	nucleus	estrogen receptor activity|estrogen receptor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region sequence-specific DNA binding				0		Prostate(55;0.114)		Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)|BRCA - Breast invasive adenocarcinoma(99;0.0708)		AGCTCGGGAGCGCTTCTGCGG	0.577													62	197					0	0	1	0	0		T	23539062	T	T	23539062	3	4	84	1	0	0	0	0	1	0	0	0	10474	768	27	1	331	1	NKX3-1	8	23539062	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	674636	23539062	122824960	581	52424											
NEFL	4747	broad.mit.edu	37	chr8	24811209	24811209	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggtctgtaaaccgccgtAggcagatcggccaaagacct	10	7	12	12	3	1	2	0	0	1	2	2	2	1	2	4	3	1	4	4	3	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:24811209A>G	uc003xee.2	-	3	1372	c.1270T>C	c.(1270-1272)TAC>CAC	p.Y424H		NM_006158	NP_006149	P07196	NFL_HUMAN	neurofilament, light polypeptide 68kDa	424	Tail.|Tail, subdomain A.				anterograde axon cargo transport|axon transport of mitochondrion|neurofilament bundle assembly|retrograde axon cargo transport|synaptic transmission	cytosol|neurofilament	identical protein binding|protein C-terminus binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.00965)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		AAACCGCCGTAGGCAGATCGG	0.567													32	93					0	0	1	0	0		G	24811209	G	G	24811209	3	3	84	1	0	0	0	0	1	0	0	0	10334	420	15	3	370	3	NEFL	8	24811209	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1272147	24811209	121552813	582	52425											
NEFL	4747	broad.mit.edu	37	chr8	24813312	24813312	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccacggagatctgcgcgtActggatctgcgcctgcagtt	6	10	12	13	4	2	1	0	0	2	1	3	3	3	2	2	2	4	3	2	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:24813312A>G	uc003xee.2	-	1	820	c.718T>C	c.(718-720)TAC>CAC	p.Y240H		NM_006158	NP_006149	P07196	NFL_HUMAN	neurofilament, light polypeptide 68kDa	240	Rod.|Linker 12.				anterograde axon cargo transport|axon transport of mitochondrion|neurofilament bundle assembly|retrograde axon cargo transport|synaptic transmission	cytosol|neurofilament	identical protein binding|protein C-terminus binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.00965)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		ATCTGCGCGTACTGGATCTGC	0.587													9	48					0	0	1	0	0		G	24813312	G	G	24813312	3	3	84	1	0	0	0	0	1	0	0	0	10334	391	14	3	930	3	NEFL	8	24813312	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2103	24813312	121550710	583	52426											
DOCK5	80005	broad.mit.edu	37	chr8	25240190	25240190	+	Frame_Shift_Del	DEL	A	-	-																															tgtcttgttttgttttccagAaaaaaagggcctcattttat																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:25240190delA	uc003xeg.2	+	40	4164	c.4027delA	c.(4027-4029)AAAfs	p.K1343fs	PPP2R2A_uc003xek.2_Frame_Shift_Del_p.K132fs|DOCK5_uc003xei.2_Frame_Shift_Del_p.K913fs|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1343	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		TGTTTTCCAGAAAAAAAGGGC	0.408													4	8	---	---	---	---						.	-	25240190	-	-	25240190	7	5	84	1	0	1	0	1	0	0	0	0	4696	260	9	0	4185	0	DOCK5	8	25240190	Frame_Shift_Del	DEL	A	TCGA-BR-8591-01A-11D-2394-08	426878	25240190	121123832	584	52427											
CDCA2	157313	broad.mit.edu	37	chr8	25323706	25323706	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagggcagccctgcactgTatcgaaatgttaacacttta	12	10	8	11	1	0	0	0	0	0	0	1	1	0	0	1	1	3	4	1	1	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:25323706T>C	uc003xep.1	+	5	882	c.403T>C	c.(403-405)TAT>CAT	p.Y135H	PPP2R2A_uc003xek.2_Intron|CDCA2_uc011lae.1_Missense_Mutation_p.Y135H|CDCA2_uc003xeq.1_Missense_Mutation_p.Y120H|CDCA2_uc003xer.1_5'Flank	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	135					cell division|mitosis	cytoplasm|nucleus					0		all_cancers(63;0.0378)|Ovarian(32;0.000878)|all_epithelial(46;0.0162)|Breast(100;0.0164)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.022)|Epithelial(17;1.37e-11)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0443)		CCCTGCACTGTATCGAAATGT	0.378													10	53					0	0	1	0	0		C	25323706	C	C	25323706	3	2	84	1	0	0	0	0	1	0	0	0	3089	1638	57	3	417	3	CDCA2	8	25323706	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	83516	25323706	121040316	585	52428											
PPP2R2A	5520	broad.mit.edu	37	chr8	26227792	26227792	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtctgtgcaagtggcaagCgaaagaaagatgaaataagt	18	7	12	4	1	1	3	0	1	1	2	1	4	1	3	0	1	2	2	0	1	7	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:26227792C>T	uc003xeu.2	+	10	1509	c.1207C>T	c.(1207-1209)CGA>TGA	p.R403*	PPP2R2A_uc003xek.2_Nonsense_Mutation_p.R404*|PPP2R2A_uc011laf.1_Nonsense_Mutation_p.R413*	NM_002717	NP_002708	P63151	2ABA_HUMAN	alpha isoform of regulatory subunit B55, protein	403					protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)		AAGTGGCAAGCGAAAGAAAGA	0.453													8	45					0	0	1	0	0		T	26227792	T	T	26227792	4	4	84	1	0	0	0	0	0	1	0	0	12406	760	27	1	1286	1	PPP2R2A	8	26227792	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	904086	26227792	120136230	586	52429											
EXTL3	2137	broad.mit.edu	37	chr8	28575242	28575242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcagctgagatcccccacCgttcaggcaaggcggctgga	8	5	14	14	3	1	1	1	1	0	1	2	3	2	2	3	5	1	5	3	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:28575242C>T	uc003xgz.1	+	3	2259	c.1666C>T	c.(1666-1668)CGT>TGT	p.R556C		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	556	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		GATCCCCCACCGTTCAGGCAA	0.607													24	96					0	0	1	0	0		T	28575242	T	T	28575242	3	4	84	1	0	0	0	0	1	0	0	0	5335	652	23	1	1668	1	EXTL3	8	28575242	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2347450	28575242	117788780	587	52430											
FUT10	84750	broad.mit.edu	37	chr8	33247281	33247281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagtcatgatgggctttccGaggcagaggtaagctatcta	10	10	12	9	1	2	2	1	1	1	1	3	3	3	2	2	3	1	4	2	3	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:33247281G>A	uc003xje.2	-	4	768	c.412C>T	c.(412-414)CGG>TGG	p.R138W	FUT10_uc003xjc.2_Missense_Mutation_p.R145W|FUT10_uc003xjd.2_Missense_Mutation_p.R110W|FUT10_uc011lbi.1_Missense_Mutation_p.R188W|FUT10_uc003xjf.2_Missense_Mutation_p.R76W|FUT10_uc003xjg.2_Missense_Mutation_p.R110W|FUT10_uc003xjh.2_Missense_Mutation_p.R138W	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	138	Lumenal (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		TGGGCTTTCCGAGGCAGAGGT	0.388													19	85					0	0	1	0	0		A	33247281	A	A	33247281	3	1	84	1	0	0	0	0	1	0	0	0	6116	1057	37	1	1035	1	FUT10	8	33247281	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4672039	33247281	113116741	588	52431											
KCNU1	157855	broad.mit.edu	37	chr8	36780117	36780117	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacgggcactgttttttcCggcagcttcttggattctct	4	17	9	11	2	3	0	0	0	3	0	5	1	4	1	1	3	2	4	1	3	1	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:36780117C>T	uc010lvw.2	+	24	2793	c.2706C>T	c.(2704-2706)TCC>TCT	p.S902S	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	902	Segment S10.|Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		CTGTTTTTTCCGGCAGCTTCT	0.493													12	49					0	0	1	0	0		T	36780117	T	T	36780117	2	4	84	1	0	0	0	0	0	0	0	1	8109	639	23	1		1	KCNU1	8	36780117	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3532836	36780117	109583905	589	52432											
ASH2L	9070	broad.mit.edu	37	chr8	37974227	37974227	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagcagtgctgtgtctacTagtgggaatttaaatggtaa	12	12	12	5	0	1	1	0	0	1	1	1	2	1	2	0	2	3	3	0	2	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:37974227T>C	uc003xkt.3	+	8	895	c.837T>C	c.(835-837)ACT>ACC	p.T279T	ASH2L_uc011lbk.1_Silent_p.T140T|ASH2L_uc003xku.3_Silent_p.T185T|ASH2L_uc010lwa.2_Silent_p.T185T	NM_004674	NP_004665	Q9UBL3	ASH2L_HUMAN	ash2-like isoform a	279					hemopoiesis|histone H3-K4 methylation|positive regulation of cell proliferation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription from RNA polymerase II promoter	Set1C/COMPASS complex	metal ion binding|protein binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2	Colorectal(12;0.000501)	Lung NSC(58;0.0295)|all_lung(54;0.0413)				CTGTGTCTACTAGTGGGAATT	0.378													5	50					0	0	1	0	0		C	37974227	C	C	37974227	2	2	84	1	0	0	0	0	0	0	0	1	1043	1509	53	3		3	ASH2L	8	37974227	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1194110	37974227	108389795	590	52433											
PLEKHA2	59339	broad.mit.edu	37	chr8	38809830	38809830	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtgaagcaagggaatgtGgtgagtgtcagcacaggggc	10	7	18	6	1	1	2	1	2	0	0	1	3	1	3	0	4	3	2	0	4	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:38809830G>T	uc003xmi.3	+	7	867	c.633G>T	c.(631-633)GTG>GTT	p.V211V	PLEKHA2_uc011lce.1_Silent_p.V161V	NM_021623	NP_067636	Q9HB19	PKHA2_HUMAN	pleckstrin homology domain containing, family A	211	PH 2.				positive regulation of cell-matrix adhesion	cytoplasm|nucleus|plasma membrane|protein complex	fibronectin binding|laminin binding				0		all_lung(54;0.0413)|Lung NSC(58;0.115)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;4.68e-08)|COAD - Colon adenocarcinoma(9;0.235)			AAGGGAATGTGGTGAGTGTCA	0.562													6	26					8.12818e-05	8.42815e-05	1	1	0		T	38809830	T	T	38809830	2	4	84	1	0	0	0	0	0	0	0	1	12075	1362	47	5		5	PLEKHA2	8	38809830	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	835603	38809830	107554192	591	52434											
ADAM2	2515	broad.mit.edu	37	chr8	39644523	39644523	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgcatagtttgcatcAcacatcttcccttgaaaggt	9	13	6	13	0	2	1	1	1	1	0	4	1	4	1	3	1	2	3	3	1	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:39644523A>G	uc003xnj.2	-	10	936	c.861T>C	c.(859-861)TGT>TGC	p.C287C	ADAM2_uc003xnk.2_Silent_p.C268C|ADAM2_uc011lck.1_Silent_p.C287C|ADAM2_uc003xnl.2_Intron	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	287	Extracellular (Potential).|Peptidase M12B.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		AGTTTGCATCACACATCTTCC	0.284													11	56					0	0	1	0	0		G	39644523	G	G	39644523	2	3	84	1	0	0	0	0	0	0	0	1	241	157	6	3		3	ADAM2	8	39644523	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	834693	39644523	106719499	592	52435											
SFRP1	6422	broad.mit.edu	37	chr8	41166419	41166419	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgcttcacctccgccAtggtctcgtgctccagcagg	4	10	10	17	2	2	0	1	0	1	0	5	0	4	0	5	2	4	4	5	2	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:41166419A>G	uc003xnt.2	-	1	562	c.260T>C	c.(259-261)ATG>ACG	p.M87T		NM_003012	NP_003003	Q8N474	SFRP1_HUMAN	secreted frizzled-related protein 1 precursor	87	FZ.				brain development|canonical Wnt receptor signaling pathway|cellular response to BMP stimulus|cellular response to estradiol stimulus|cellular response to fibroblast growth factor stimulus|cellular response to heparin|cellular response to hypoxia|cellular response to interleukin-1|cellular response to prostaglandin E stimulus|cellular response to starvation|cellular response to transforming growth factor beta stimulus|cellular response to tumor necrosis factor|cellular response to vitamin D|DNA fragmentation involved in apoptotic nuclear change|dorsal/ventral axis specification|hemopoietic progenitor cell differentiation|hemopoietic stem cell differentiation|menstrual cycle phase|negative regulation of androgen receptor signaling pathway|negative regulation of B cell differentiation|negative regulation of bone remodeling|negative regulation of canonical Wnt receptor signaling pathway involved in controlling type B pancreatic cell proliferation|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cysteine-type endopeptidase activity|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast apoptosis|negative regulation of fibroblast proliferation|negative regulation of insulin secretion|negative regulation of ossification|negative regulation of osteoblast proliferation|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|osteoblast differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell growth|positive regulation of epithelial cell proliferation|positive regulation of fat cell differentiation|positive regulation of fibroblast apoptosis|positive regulation of focal adhesion assembly|positive regulation of non-canonical Wnt receptor signaling pathway|positive regulation of Rac GTPase activity|positive regulation of smoothened signaling pathway|positive regulation of stress fiber assembly|positive regulation of transcription, DNA-dependent|regulation of angiogenesis|regulation of cell cycle process|response to drug|response to organic cyclic compound|vasculature development	cell surface|cytosol|extracellular space|plasma membrane|proteinaceous extracellular matrix	cysteine-type endopeptidase activity|drug binding|frizzled binding|heparin binding|identical protein binding|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1	Breast(1;9.19e-13)|Ovarian(28;0.00769)|Colorectal(14;0.0305)|Lung SC(25;0.211)	all_lung(54;0.0034)|Lung NSC(58;0.0134)|Hepatocellular(245;0.023)|Esophageal squamous(32;0.0559)	BRCA - Breast invasive adenocarcinoma(1;1.11e-10)|LUSC - Lung squamous cell carcinoma(45;0.00894)|COAD - Colon adenocarcinoma(11;0.0174)			CACCTCCGCCATGGTCTCGTG	0.652													11	34					0	0	1	0	0		G	41166419	G	G	41166419	3	3	84	1	0	0	0	0	1	0	0	0	14186	217	8	3	696	3	SFRP1	8	41166419	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1521896	41166419	105197603	593	52436											
ANK1	286	broad.mit.edu	37	chr8	41551449	41551449	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaggcgcaggctggtggTgtctccctccccgctgtccc	4	8	13	16	2	1	0	0	0	1	0	4	0	3	0	4	4	1	4	4	4	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:41551449T>C	uc003xok.2	-	29	3583	c.3499A>G	c.(3499-3501)ACC>GCC	p.T1167A	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Missense_Mutation_p.T483A|ANK1_uc003xoi.2_Missense_Mutation_p.T1167A|ANK1_uc003xoj.2_Missense_Mutation_p.T1167A|ANK1_uc003xol.2_Missense_Mutation_p.T1167A|ANK1_uc003xom.2_Missense_Mutation_p.T1208A	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1167					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			AGGCTGGTGGTGTCTCCCTCC	0.667													7	32					0	0	1	0	0		C	41551449	C	C	41551449	3	2	84	1	0	0	0	0	1	0	0	0	620	1696	59	3	2528	3	ANK1	8	41551449	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	385030	41551449	104812573	594	52437											
IKBKB	3551	broad.mit.edu	37	chr8	42151029	42151029	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccttgctgagtgacatTggtaaatcccagtcccggaa	10	10	9	12	1	1	2	1	2	0	0	3	3	3	3	3	2	1	2	3	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:42151029T>C	uc003xow.1	+	5	564	c.387T>C	c.(385-387)ATT>ATC	p.I129I	IKBKB_uc003xov.2_Silent_p.I129I|IKBKB_uc010lxh.1_Intron|IKBKB_uc011lco.1_RNA|IKBKB_uc010lxj.1_Intron|IKBKB_uc003xox.1_5'UTR|IKBKB_uc011lcp.1_RNA|IKBKB_uc011lcq.1_Silent_p.I127I|IKBKB_uc010lxi.1_RNA|IKBKB_uc011lcr.1_Silent_p.I70I	NM_001556	NP_001547	O14920	IKKB_HUMAN	inhibitor of nuclear factor kappa B kinase beta	129	Protein kinase.				anti-apoptosis|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|membrane raft	ATP binding|identical protein binding|IkappaB kinase activity			breast(3)|ovary(2)|lung(1)|skin(1)	7	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;6.21e-12)|Lung NSC(13;1.04e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;1.37e-10)|Colorectal(10;0.00102)|OV - Ovarian serous cystadenocarcinoma(14;0.00168)|Lung(22;0.00467)|LUSC - Lung squamous cell carcinoma(45;0.024)|COAD - Colon adenocarcinoma(11;0.0264)		Arsenic trioxide(DB01169)|Auranofin(DB00995)	TGAGTGACATTGGTAAATCCC	0.542													18	78					0	0	1	0	0		C	42151029	C	C	42151029	2	2	84	1	0	0	0	0	0	0	0	1	7627	1826	63	3		3	IKBKB	8	42151029	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	599580	42151029	104212993	595	52438											
HOOK3	84376	broad.mit.edu	37	chr8	42819545	42819545	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgattctatagaagaccCtaacagtccagcaggaagaa	16	8	8	9	0	2	4	0	1	2	3	3	5	3	5	2	1	2	1	2	1	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:42819545C>A	uc003xpr.2	+	9	949	c.707C>A	c.(706-708)CCT>CAT	p.P236H	HOOK3_uc010lxq.1_Missense_Mutation_p.P236H	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	236	Potential.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			ATAGAAGACCCTAACAGTCCA	0.393			T	RET	papillary thyroid								13	71					0.00010058	0.000104044	1	1	0		A	42819545	A	A	42819545	3	1	84	1	0	0	0	0	1	0	0	0	7300	681	24	5	741	5	HOOK3	8	42819545	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	668516	42819545	103544477	596	52439											
HGSNAT	138050	broad.mit.edu	37	chr8	43037356	43037356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacatactttgtggttgctGtgttggagctcctctttgct	4	18	11	8	0	1	1	0	1	1	0	2	2	2	2	1	2	4	5	1	2	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:43037356G>A	uc003xpx.3	+	11	1129	c.1081G>A	c.(1081-1083)GTG>ATG	p.V361M		NM_152419	NP_689632	Q68CP4	HGNAT_HUMAN	heparan-alpha-glucosaminide N-acetyltransferase	389	Helical; (Potential).				lysosomal transport|protein oligomerization	integral to membrane|lysosomal membrane	heparan-alpha-glucosaminide N-acetyltransferase activity				0	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			TGTGGTTGCTGTGTTGGAGCT	0.403													91	393					0	0	1	0	0		A	43037356	A	A	43037356	3	1	84	1	0	0	0	0	1	0	0	0	7104	1377	48	4	1123	4	HGSNAT	8	43037356	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	217811	43037356	103326666	597	52440											
SNAI2	6591	broad.mit.edu	37	chr8	49832848	49832848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaaagatgaggagtatcCggaaagaggagagaggccat	15	4	14	8	1	0	4	0	1	0	3	1	8	1	7	4	4	0	1	4	4	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:49832848C>T	uc003xqp.2	-	2	396	c.232G>A	c.(232-234)GGA>AGA	p.G78R		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	78					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				GAGGAGTATCCGGAAAGAGGA	0.567													31	159					0	0	1	0	0		T	49832848	T	T	49832848	3	4	84	1	0	0	0	0	1	0	0	0	14852	661	23	1	582	1	SNAI2	8	49832848	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	6795492	49832848	96531174	598	52441											
TCEA1	6917	broad.mit.edu	37	chr8	54900776	54900776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaacataagtatctcgagCatttgtctcatcctttctgt	10	16	6	9	1	3	1	1	1	3	0	6	2	4	1	1	0	2	2	1	0	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:54900776C>T	uc003xru.2	-	5	687	c.364G>A	c.(364-366)GCT>ACT	p.A122T	TCEA1_uc003xrv.2_Missense_Mutation_p.A101T|TCEA1_uc011ldw.1_Intron|TCEA1_uc003xrw.1_RNA	NM_006756	NP_006747	P23193	TCEA1_HUMAN	transcription elongation factor A 1 isoform 1	122					positive regulation of viral transcription|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	nucleoplasm	DNA binding|translation elongation factor activity|zinc ion binding				0		Lung NSC(129;0.109)|all_epithelial(80;0.11)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;9.1e-07)|Epithelial(17;9.44e-05)|all cancers(17;0.000699)			GTATCTCGAGCATTTGTCTCA	0.443			T	PLAG1	salivary adenoma								9	28					0	0	1	0	0		T	54900776	T	T	54900776	3	4	84	1	0	0	0	0	1	0	0	0	15692	710	25	2	565	2	TCEA1	8	54900776	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5067928	54900776	91463246	599	52442											
XKR4	114786	broad.mit.edu	37	chr8	56436612	56436612	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccacggattgaagaatcAgtcattaaaattgacttgtt	14	12	7	8	1	2	3	2	2	0	1	2	4	2	4	2	1	0	1	2	1	4	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:56436612A>G	uc003xsf.2	+	3	1811	c.1779A>G	c.(1777-1779)TCA>TCG	p.S593S		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	593						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			TTGAAGAATCAGTCATTAAAA	0.488													40	123					0	0	1	0	0		G	56436612	G	G	56436612	2	3	84	1	0	0	0	0	0	0	0	1	17459	175	7	3		3	XKR4	8	56436612	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1535836	56436612	89927410	600	52443											
CHD7	55636	broad.mit.edu	37	chr8	61757811	61757811	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatgatggtgattctaggtTtgtcagctcctgtgccaagg	7	15	12	7	0	2	2	1	2	1	0	3	2	3	2	2	3	2	2	2	3	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:61757811T>C	uc003xue.2	+	23	5530	c.5053T>C	c.(5053-5055)TTG>CTG	p.L1685L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1685					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GATTCTAGGTTTGTCAGCTCC	0.498													25	71					0	0	1	0	0		C	61757811	C	C	61757811	2	2	84	1	0	0	0	0	0	0	0	1	3333	1838	64	3		3	CHD7	8	61757811	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	5321199	61757811	84606211	601	52444											
LRRC67	286187	broad.mit.edu	37	chr8	67900734	67900734	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagcttcatcaacttgtTcagtaaaaactccaaatcct	14	11	3	13	0	3	0	3	0	0	0	5	0	5	0	3	0	3	3	3	0	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:67900734T>G	uc003xxc.2	-	6	716	c.571A>C	c.(571-573)AAC>CAC	p.N191H		NM_001013626	NP_001013648	Q7Z4L9	LRC67_HUMAN	leucine rich repeat containing 67	191											0						ATCAACTTGTTCAGTAAAAAC	0.343													4	26					0	0	1	0	0		G	67900734	G	G	67900734	3	3	84	1	0	0	0	0	1	0	0	0	9037	1783	62	5	119	5	LRRC67	8	67900734	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	6142923	67900734	78463288	602	52445											
CSPP1	79848	broad.mit.edu	37	chr8	68007920	68007920	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggatgagaggtttagataTgaaagtgattttgatagaag	15	13	13	0	0	0	6	0	4	0	3	0	8	0	7	0	2	0	1	0	2	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:68007920T>C	uc003xxi.2	+	8	1039	c.1008T>C	c.(1006-1008)TAT>TAC	p.Y336Y	CSPP1_uc003xxg.1_Silent_p.Y328Y|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Silent_p.Y301Y|CSPP1_uc003xxk.2_Silent_p.Y7Y	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	336						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			GGTTTAGATATGAAAGTGATT	0.308													13	47					0	0	1	0	0		C	68007920	C	C	68007920	2	2	84	1	0	0	0	0	0	0	0	1	3965	1471	51	3		3	CSPP1	8	68007920	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	107186	68007920	78356102	603	52446											
C8orf34	116328	broad.mit.edu	37	chr8	69358682	69358682	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatatttctccaccatcaccGgactccaaatcatgtaagga	14	10	5	12	1	3	0	2	0	1	0	5	2	4	2	4	2	0	1	4	2	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:69358682G>A	uc010lyz.2	+	3	385	c.336G>A	c.(334-336)CCG>CCA	p.P112P	C8orf34_uc010lyx.1_Silent_p.P112P|C8orf34_uc010lyy.1_Silent_p.P112P|C8orf34_uc003xyb.2_Silent_p.P87P	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	112					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			CACCATCACCGGACTCCAAAT	0.343													5	37					0	0	1	0	0		A	69358682	A	A	69358682	2	1	84	1	0	0	0	0	0	0	0	1	2425	1103	39	1		1	C8orf34	8	69358682	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1350762	69358682	77005340	604	52447											
SULF1	23213	broad.mit.edu	37	chr8	70515459	70515459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgttctcaacattgacttggCccccacgatcctggatattg	8	12	8	13	2	1	1	1	1	1	0	3	3	2	2	3	2	1	1	3	2	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:70515459C>T	uc010lza.1	+	11	1811	c.1094C>T	c.(1093-1095)GCC>GTC	p.A365V	SULF1_uc003xyd.2_Missense_Mutation_p.A365V|SULF1_uc003xye.2_Missense_Mutation_p.A365V|SULF1_uc003xyf.2_Missense_Mutation_p.A365V|SULF1_uc003xyg.2_Missense_Mutation_p.A365V|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	365					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			ATTGACTTGGCCCCCACGATC	0.542													59	233					0	0	1	0	0		T	70515459	T	T	70515459	3	4	84	1	0	0	0	0	1	0	0	0	15395	739	26	2	1120	2	SULF1	8	70515459	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1156777	70515459	75848563	605	52448											
EYA1	2138	broad.mit.edu	37	chr8	72127929	72127929	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaatttcggccctcaactgCagccaggcttccctcttagc	7	11	7	16	1	3	0	2	0	1	0	5	0	4	0	3	2	4	2	3	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:72127929C>A	uc003xys.3	-	14	1682	c.1395G>T	c.(1393-1395)CTG>CTT	p.L465L	EYA1_uc003xyr.3_Silent_p.L430L|EYA1_uc003xyt.3_Silent_p.L432L|EYA1_uc010lzf.2_Silent_p.L392L|EYA1_uc003xyu.2_Silent_p.L465L|EYA1_uc011lfe.1_Silent_p.L459L|EYA1_uc003xyv.2_Silent_p.L343L	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	465					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			CCCTCAACTGCAGCCAGGCTT	0.527													15	73					2.61681e-11	2.85084e-11	1	1	0		A	72127929	A	A	72127929	2	1	84	1	0	0	0	0	0	0	0	1	5336	697	25	5		5	EYA1	8	72127929	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1612470	72127929	74236093	606	52449											
JPH1	56704	broad.mit.edu	37	chr8	75233296	75233296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacatccacttgcccttcGtctccacccccagcccgtgc	5	9	7	20	2	1	0	0	0	1	0	4	0	2	0	6	1	4	1	6	1	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:75233296G>A	uc003yae.2	-	1	267	c.227C>T	c.(226-228)ACG>ATG	p.T76M	JPH1_uc003yaf.2_Missense_Mutation_p.T76M|JPH1_uc003yag.1_Intron	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	76	Gly-rich.|MORN 3.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			CTTGCCCTTCGTCTCCACCCC	0.682													25	64					0	0	1	0	0		A	75233296	A	A	75233296	3	1	84	1	0	0	0	0	1	0	0	0	7976	1145	40	1	1778	1	JPH1	8	75233296	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3105367	75233296	71130726	607	52450											
ZFHX4	79776	broad.mit.edu	37	chr8	77765070	77765070	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagaacatgtacatgggcaAttttttccatatgcagcgct	12	12	8	9	1	0	1	0	0	0	1	1	1	1	1	1	1	4	4	1	1	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:77765070A>T	uc003yav.2	+	10	6165	c.5778A>T	c.(5776-5778)CAA>CAT	p.Q1926H	ZFHX4_uc003yau.1_Missense_Mutation_p.Q1971H|ZFHX4_uc003yaw.1_Missense_Mutation_p.Q1926H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1926						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TACATGGGCAATTTTTTCCAT	0.373										HNSCC(33;0.089)			18	51					0	0	1	0	0		T	77765070	T	T	77765070	3	4	84	1	0	0	0	0	1	0	0	0	17660	98	4	5	5947	5	ZFHX4	8	77765070	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2531774	77765070	68598952	608	52451											
ZFHX4	79776	broad.mit.edu	37	chr8	77767659	77767659	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagttccggagatgtgaaAccggctttgtctcccaaaga	11	9	12	9	2	1	3	0	1	1	2	3	5	2	4	3	3	1	2	3	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:77767659A>G	uc003yav.2	+	10	8754	c.8367A>G	c.(8365-8367)AAA>AAG	p.K2789K	ZFHX4_uc003yau.1_Silent_p.K2834K|ZFHX4_uc003yaw.1_Silent_p.K2789K	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2789						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GAGATGTGAAACCGGCTTTGT	0.488										HNSCC(33;0.089)			15	44					0	0	1	0	0		G	77767659	G	G	77767659	2	3	84	1	0	0	0	0	0	0	0	1	17660	40	2	3		3	ZFHX4	8	77767659	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2589	77767659	68596363	609	52452											
LRRCC1	85444	broad.mit.edu	37	chr8	86049698	86049698	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgatttttgtttcttaGgatcttctctagcccaaaat	9	19	6	7	0	3	2	0	2	3	0	4	3	3	3	1	1	1	1	1	1	4	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:86049698G>T	uc003ycw.2	+	15	2484	c.2330_splice	c.e15-1	p.G777_splice	LRRCC1_uc010maa.1_Splice_Site_p.G478_splice|LRRCC1_uc003ycx.2_Splice_Site_p.G684_splice|LRRCC1_uc003ycy.2_Splice_Site_p.G757_splice	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a						cell division|mitosis	centriole|nucleus					0						TTGTTTCTTAGGATCTTCTCT	0.303													9	52					0.000274275	0.000282047	1	1	0		T	86049698	T	T	86049698	5	4	84	1	0	0	0	0	0	0	1	0	9044	1014	35	5	2387	5	LRRCC1	8	86049698	Splice_Site	SNP	G	TCGA-BR-8591-01A-11D-2394-08	8282039	86049698	60314324	610	52453											
FAM82B	51115	broad.mit.edu	37	chr8	87487047	87487047	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactttatgggagatgttttAcctgtttatcctcctctgtg	6	19	8	8	0	1	1	0	0	1	1	3	2	3	1	3	1	2	2	3	1	4	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:87487047A>G	uc003ydu.2	-	9	1054	c.894_splice	c.e9+1	p.Q298_splice	FAM82B_uc011lfz.1_Splice_Site_p.Q255_splice|FAM82B_uc011lga.1_Splice_Site_p.Q268_splice	NM_016033	NP_057117	Q96DB5	RMD1_HUMAN	regulator of microtubule dynamics 1							microtubule|spindle pole	binding			ovary(1)	1						GAGATGTTTTACCTGTTTATC	0.348													5	90					0	0	1	0	0		G	87487047	G	G	87487047	5	3	84	1	0	0	0	0	0	0	1	0	5646	405	14	3	56	3	FAM82B	8	87487047	Splice_Site	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1437349	87487047	58876975	611	52454											
RIPK2	8767	broad.mit.edu	37	chr8	90770378	90770378	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagccgcggcgcctctggCactgtgtcgtccgcccgcca	3	7	13	18	6	1	1	0	1	1	0	3	1	2	1	5	2	1	1	5	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:90770378C>T	uc003yee.2	+	1	404	c.90C>T	c.(88-90)GGC>GGT	p.G30G	uc003yed.2_5'Flank|RIPK2_uc003yef.2_5'UTR	NM_003821	NP_003812	O43353	RIPK2_HUMAN	receptor-interacting serine-threonine kinase 2	30	ATP (By similarity).|Protein kinase.				activation of MAPK activity|anti-apoptosis|apoptosis|inflammatory response|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|CARD domain binding|LIM domain binding|protein homodimerization activity|protein serine/threonine kinase activity|signal transducer activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.0474)			GCGCCTCTGGCACTGTGTCGT	0.687													3	16					0	0	1	0	0		T	90770378	T	T	90770378	2	4	84	1	0	0	0	0	0	0	0	1	13406	697	25	2		2	RIPK2	8	90770378	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3283331	90770378	55593644	612	52455											
SLC26A7	115111	broad.mit.edu	37	chr8	92365208	92365208	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaaaaaaatattggaatgTggataaaatcgattgggtaa	18	13	9	1	1	0	0	0	0	0	0	1	3	0	2	0	3	0	1	0	3	9	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:92365208T>C	uc003yex.2	+	12	1576	c.1298T>C	c.(1297-1299)GTG>GCG	p.V433A	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Missense_Mutation_p.V433A|SLC26A7_uc003yfa.2_Missense_Mutation_p.V433A	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	433	Extracellular (Potential).					basolateral plasma membrane|integral to membrane|recycling endosome membrane	anion:anion antiporter activity|bicarbonate transmembrane transporter activity|chloride channel activity|oxalate transmembrane transporter activity|sulfate transmembrane transporter activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.00802)			TATTGGAATGTGGATAAAATC	0.323													9	63					0	0	1	0	0		C	92365208	C	C	92365208	3	2	84	1	0	0	0	0	1	0	0	0	14547	1696	59	3	1336	3	SLC26A7	8	92365208	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1594830	92365208	53998814	613	52456											
RUNX1T1	862	broad.mit.edu	37	chr8	92983012	92983012	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcgtgggctttccgctcCgcctcagacacggccttctg	4	11	11	15	4	2	1	1	0	1	1	5	1	4	1	4	2	0	2	4	2	0	2	rs142225049	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:92983012C>T	uc003yfd.2	-	10	1497	c.1413G>A	c.(1411-1413)GCG>GCA	p.A471A	RUNX1T1_uc003yfc.1_Silent_p.A444A|RUNX1T1_uc003yfe.1_Silent_p.A434A|RUNX1T1_uc010mao.2_Silent_p.A444A|RUNX1T1_uc011lgi.1_Silent_p.A482A|RUNX1T1_uc010man.1_Silent_p.A96A|RUNX1T1_uc003yfb.1_Silent_p.A434A	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	471			A -> V (in a colorectal cancer sample; somatic mutation).		generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			CTTTCCGCTCCGCCTCAGACA	0.617													25	67					0	0	1	0	0		T	92983012	T	T	92983012	2	4	84	1	0	0	0	0	0	0	0	1	13772	639	23	1		1	RUNX1T1	8	92983012	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	617804	92983012	53381010	614	52457											
RBM12B	389677	broad.mit.edu	37	chr8	94746566	94746566	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcatcctcgggtggtcgcctCcattctccctgaagaggccg	5	10	11	15	3	2	2	1	1	1	1	7	2	4	2	5	3	0	0	5	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:94746566C>T	uc003yfz.2	-	3	2266	c.2073G>A	c.(2071-2073)TGG>TGA	p.W691*		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	691							nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			GTGGTCGCCTCCATTCTCCCT	0.612													77	346					0	0	1	0	0		T	94746566	T	T	94746566	4	4	84	1	0	0	0	0	0	1	0	0	13139	856	30	4	936	4	RBM12B	8	94746566	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1763554	94746566	51617456	615	52458											
TSPYL5	85453	broad.mit.edu	37	chr8	98290066	98290066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcgaccccgacttcggcCgctcatggtggcggcggagg	4	8	15	14	6	1	0	1	0	0	0	3	3	1	1	3	6	0	1	3	6	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:98290066C>T	uc003yhy.2	-	1	111	c.7G>A	c.(7-9)GGC>AGC	p.G3S		NM_033512	NP_277047	Q86VY4	TSYL5_HUMAN	TSPY-like 5	3					cellular response to gamma radiation|nucleosome assembly|positive regulation of cell proliferation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|regulation of growth	nucleus	protein binding			large_intestine(1)|ovary(1)	2	Breast(36;2.56e-06)					CGACTTCGGCCGCTCATGGTG	0.706													5	15					0	0	1	0	0		T	98290066	T	T	98290066	3	4	84	1	0	0	0	0	1	0	0	0	16688	652	23	1	1250	1	TSPYL5	8	98290066	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3543500	98290066	48073956	616	52459											
POP1	10940	broad.mit.edu	37	chr8	99170031	99170031	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcagcaagggcagcccCgagcctcacaccatgatctg	9	6	10	16	1	3	1	2	1	1	0	3	2	3	1	4	1	4	3	4	1	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:99170031C>T	uc003yij.3	+	16	2707	c.2607C>T	c.(2605-2607)CCC>CCT	p.P869P	POP1_uc011lgv.1_Silent_p.P869P|POP1_uc003yik.2_Silent_p.P869P	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	869					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			AGGGCAGCCCCGAGCCTCACA	0.607													18	108					0	0	1	0	0		T	99170031	T	T	99170031	2	4	84	1	0	0	0	0	0	0	0	1	12270	639	23	1		1	POP1	8	99170031	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	879965	99170031	47193991	617	52460											
VPS13B	157680	broad.mit.edu	37	chr8	100654346	100654346	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagaacagaagaataatgAaaaaacagacaagagttcat	24	5	7	5	0	1	6	1	1	0	5	1	6	1	6	0	0	2	1	0	0	9	2	rs141211386	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:100654346A>T	uc003yiv.2	+	34	5714	c.5603A>T	c.(5602-5604)GAA>GTA	p.E1868V	VPS13B_uc003yiw.2_Missense_Mutation_p.E1843V	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1868					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AAGAATAATGAAAAAACAGAC	0.373													20	74					0	0	1	0	0		T	100654346	T	T	100654346	3	4	84	1	0	0	0	0	1	0	0	0	17216	246	9	5	5927	5	VPS13B	8	100654346	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1484315	100654346	45709676	618	52461											
UBR5	51366	broad.mit.edu	37	chr8	103340002	103340002	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgttttccagctgagcgcaGgtgtaaagggcacagcaatg	10	9	13	9	1	0	1	0	1	0	0	1	1	1	1	1	2	3	6	1	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:103340002G>T	uc003ykr.1	-	12	1482	c.1449C>A	c.(1447-1449)ACC>ACA	p.T483T	UBR5_uc003yks.1_Silent_p.T483T	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	483					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			GCTGAGCGCAGGTGTAAAGGG	0.418													24	82					2.27525e-19	2.55544e-19	1	1	0		T	103340002	T	T	103340002	2	4	84	1	0	0	0	0	0	0	0	1	16931	987	35	5		5	UBR5	8	103340002	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2685656	103340002	43024020	619	52462											
ABRA	137735	broad.mit.edu	37	chr8	107782296	107782296	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctcctgggcctgcctgatGctgttctcattcgcccactg	3	12	11	15	1	1	1	1	1	1	0	4	1	2	1	4	2	2	3	4	2	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:107782296G>A	uc003ymm.3	-	1	177	c.123C>T	c.(121-123)AGC>AGT	p.S41S		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	41					positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			CCTGCCTGATGCTGTTCTCAT	0.632													42	133					0	0	1	0	0		A	107782296	A	A	107782296	2	1	84	1	0	0	0	0	0	0	0	1	100	1310	46	2		2	ABRA	8	107782296	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4442294	107782296	38581726	620	52463											
EBAG9	9166	broad.mit.edu	37	chr8	110563098	110563098	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaaattttgtacctgcctAgcaacagtattctcattcct	10	17	4	10	0	1	0	1	0	1	0	3	0	2	0	3	0	4	3	3	0	6	9	rs149468671		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:110563098A>G	uc003ynf.2	+	2	280	c.45A>G	c.(43-45)CTA>CTG	p.L15L	EBAG9_uc010mcn.1_RNA|EBAG9_uc003yng.2_Silent_p.L15L	NM_198120	NP_936056	O00559	RCAS1_HUMAN	estrogen receptor binding site associated	15	Helical; Signal-anchor for type III membrane protein; (Potential).				apoptosis|regulation of cell growth	focal adhesion|Golgi membrane|integral to membrane|soluble fraction	apoptotic protease activator activity				0			OV - Ovarian serous cystadenocarcinoma(57;1.39e-14)			GTACCTGCCTAGCAACAGTAT	0.358													4	10					0	0	1	0	0		G	110563098	G	G	110563098	2	3	84	1	0	0	0	0	0	0	0	1	4885	407	15	3		3	EBAG9	8	110563098	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2780802	110563098	35800924	621	52464											
EBAG9	9166	broad.mit.edu	37	chr8	110576774	110576774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaacaaaacaaaattggtGtgaaactttcataacacatg	19	9	7	6	0	1	1	1	1	0	0	1	2	1	2	0	2	4	0	0	2	7	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:110576774G>A	uc003ynf.2	+	7	863	c.628G>A	c.(628-630)GTG>ATG	p.V210M	EBAG9_uc003yng.2_Missense_Mutation_p.V210M	NM_198120	NP_936056	O00559	RCAS1_HUMAN	estrogen receptor binding site associated	210	Cytoplasmic (Potential).|Potential.				apoptosis|regulation of cell growth	focal adhesion|Golgi membrane|integral to membrane|soluble fraction	apoptotic protease activator activity				0			OV - Ovarian serous cystadenocarcinoma(57;1.39e-14)			CAAAATTGGTGTGAAACTTTC	0.368													17	84					0	0	1	0	0		A	110576774	A	A	110576774	3	1	84	1	0	0	0	0	1	0	0	0	4885	1377	48	4	650	4	EBAG9	8	110576774	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	13676	110576774	35787248	622	52465											
CSMD3	114788	broad.mit.edu	37	chr8	113267603	113267603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgactggtatataaagcTtttgccttctctttttcctt	6	20	5	10	0	2	1	0	1	2	0	4	1	3	1	2	1	2	2	2	1	4	9			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:113267603T>C	uc003ynu.2	-	62	10075	c.9916A>G	c.(9916-9918)AGC>GGC	p.S3306G	CSMD3_uc003yns.2_Missense_Mutation_p.S2508G|CSMD3_uc003ynt.2_Missense_Mutation_p.S3266G|CSMD3_uc011lhx.1_Missense_Mutation_p.S3137G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3306	Extracellular (Potential).|Sushi 26.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TATATAAAGCTTTTGCCTTCT	0.403										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			12	46					0	0	1	0	0		C	113267603	C	C	113267603	3	2	84	1	0	0	0	0	1	0	0	0	3949	1609	56	3	1247	3	CSMD3	8	113267603	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2690829	113267603	33096419	623	52466											
CSMD3	114788	broad.mit.edu	37	chr8	113988083	113988083	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctctatgagtaacaactGcaagctctttagttctttct	10	16	5	10	0	4	1	0	1	4	0	4	1	4	1	1	0	5	4	1	0	6	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:113988083G>T	uc003ynu.2	-	7	1484	c.1325C>A	c.(1324-1326)GCA>GAA	p.A442E	CSMD3_uc003ynt.2_Missense_Mutation_p.A402E|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	442	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGTAACAACTGCAAGCTCTTT	0.403										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			22	141					1.85244e-09	1.99688e-09	1	1	0		T	113988083	T	T	113988083	3	4	84	1	0	0	0	0	1	0	0	0	3949	1319	46	5	10058	5	CSMD3	8	113988083	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	720480	113988083	32375939	624	52467											
TRPS1	7227	broad.mit.edu	37	chr8	116426634	116426634	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcattgtctgatccaacagCtgaaaaatgaggaggcagat	14	9	11	7	0	2	4	1	3	1	1	3	5	3	5	1	2	2	2	1	2	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:116426634C>A	uc003ynz.2	-	6	3922	c.3463G>T	c.(3463-3465)GCT>TCT	p.A1155S	TRPS1_uc011lhy.1_Missense_Mutation_p.A1159S|TRPS1_uc003yny.2_Missense_Mutation_p.A1168S|TRPS1_uc010mcy.2_Missense_Mutation_p.A1155S	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1155	Mediates interaction with RNF4 (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GATCCAACAGCTGAAAAATGA	0.502									Langer-Giedion_syndrome				13	45					0.000151284	0.000156124	1	1	0		A	116426634	A	A	116426634	3	1	84	1	0	0	0	0	1	0	0	0	16619	797	28	5	386	5	TRPS1	8	116426634	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2438551	116426634	29937388	625	52468											
TAF2	6873	broad.mit.edu	37	chr8	120844797	120844797	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgggctctacaccagtcAgcggcatgaagcggtcccgc	7	6	14	14	4	2	1	1	1	1	0	3	1	3	1	2	4	3	2	2	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:120844797A>G	uc003you.2	-	1	278	c.8T>C	c.(7-9)CTG>CCG	p.L3P		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	3					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TACACCAGTCAGCGGCATGAA	0.532													27	85					0	0	1	0	0		G	120844797	G	G	120844797	3	3	84	1	0	0	0	0	1	0	0	0	15549	188	7	3	3695	3	TAF2	8	120844797	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	4418163	120844797	25519225	626	52469											
ATAD2	29028	broad.mit.edu	37	chr8	124413003	124413003	+	RNA	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaagatcacgctgaagaCgccgctgatctcctcctcca	9	8	9	15	3	2	4	1	2	1	2	5	5	4	5	4	1	0	2	4	1	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:124413003C>T	uc003yqi.3	-	2		c.516G>A			uc003yqk.2_5'Flank			Q6PL18	ATAD2_HUMAN	Homo sapiens PRO2000 mRNA, complete cds.						regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			ACGCTGAAGACGCCGCTGATC	0.537													8	51					0	0	1	0	0		T	124413003	T	T	124413003	1	4	84	0	1	0	0	0	0	0	0	0	1072	551	19	1		1	ATAD2	8	124413003	RNA	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3568206	124413003	21951019	627	52470											
TATDN1	83940	broad.mit.edu	37	chr8	125506109	125506109	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatttctgtcttttaagcaGtgcccactttcccacttctt	6	18	4	13	0	4	0	1	0	3	0	5	0	5	0	2	0	2	1	2	0	1	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:125506109G>A	uc003yrd.2	-	11	798	c.756C>T	c.(754-756)CAC>CAT	p.H252H	TATDN1_uc003yre.2_RNA|TATDN1_uc010mdm.2_Silent_p.H205H|TATDN1_uc003yrf.2_Silent_p.H288H	NM_032026	NP_114415	Q6P1N9	TATD1_HUMAN	TatD DNase domain containing 1 isoform a	252						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding				0	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			CTTTTAAGCAGTGCCCACTTT	0.368													19	111					0	0	1	0	0		A	125506109	A	A	125506109	2	1	84	1	0	0	0	0	0	0	0	1	15616	1020	36	4		4	TATDN1	8	125506109	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1093106	125506109	20857913	628	52471											
KIAA0196	9897	broad.mit.edu	37	chr8	126091168	126091168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaatcagcagaagatcgagCagcactgagtcatattcaca	15	8	9	9	1	3	4	3	2	0	2	4	5	3	4	0	0	3	3	0	0	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:126091168C>T	uc003yrt.2	-	6	852	c.523G>A	c.(523-525)GCT>ACT	p.A175T	KIAA0196_uc011lir.1_Missense_Mutation_p.A27T	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	175					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			GAAGATCGAGCAGCACTGAGT	0.388													25	72					0	0	1	0	0		T	126091168	T	T	126091168	3	4	84	1	0	0	0	0	1	0	0	0	8177	710	25	2	3052	2	KIAA0196	8	126091168	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	585059	126091168	20272854	629	52472											
ADCY8	114	broad.mit.edu	37	chr8	132051792	132051792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgtcgcccaggagcccgtagCcgaggcctgctgccaggatc	6	5	14	16	4	0	0	0	0	0	0	2	3	0	2	5	3	4	2	5	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:132051792C>T	uc003ytd.3	-	1	1044	c.788G>A	c.(787-789)GGC>GAC	p.G263D	ADCY8_uc010mds.2_Missense_Mutation_p.G263D	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	263	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GAGCCCGTAGCCGAGGCCTGC	0.662										HNSCC(32;0.087)			15	63					0	0	1	0	0		T	132051792	T	T	132051792	3	4	84	1	0	0	0	0	1	0	0	0	300	739	26	2	3039	2	ADCY8	8	132051792	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5960624	132051792	14312230	630	52473											
WISP1	8840	broad.mit.edu	37	chr8	134225301	134225301	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcttggggacaactgcacGgaggctgccatctgtgaccc	8	7	13	13	1	1	1	0	1	1	0	1	3	1	3	2	4	4	3	2	4	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:134225301G>A	uc003yub.2	+	2	340	c.264G>A	c.(262-264)ACG>ACA	p.T88T	WISP1_uc003yuc.2_Silent_p.T88T|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Silent_p.T88T|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_RNA	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	88	IGFBP N-terminal.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			ACAACTGCACGGAGGCTGCCA	0.642													24	116					0	0	1	0	0		A	134225301	A	A	134225301	2	1	84	1	0	0	0	0	0	0	0	1	17398	1103	39	1		1	WISP1	8	134225301	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2173509	134225301	12138721	631	52474											
TRAPPC9	83696	broad.mit.edu	37	chr8	141461251	141461251	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgaggcccacgactttgcgGtgggtctggaagtcacccca	8	8	13	12	2	2	1	1	1	1	0	2	3	2	2	3	4	1	0	3	4	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:141461251G>A	uc003yvj.2	-	2	356	c.222C>T	c.(220-222)CAC>CAT	p.H74H	TRAPPC9_uc003yvh.2_Silent_p.H172H|TRAPPC9_uc003yvi.1_Silent_p.H74H	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	74					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						CGACTTTGCGGTGGGTCTGGA	0.582													24	91					0	0	1	0	0		A	141461251	A	A	141461251	2	1	84	1	0	0	0	0	0	0	0	1	16491	1252	44	4		4	TRAPPC9	8	141461251	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7235950	141461251	4902771	632	52475											
EIF2C2	27161	broad.mit.edu	37	chr8	141561443	141561443	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgctggggggcgaagcaCgcaatggcccacaccttgat	8	6	15	12	3	0	1	0	1	0	0	0	2	0	1	2	5	1	3	2	5	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:141561443C>T	uc003yvn.2	-	11	1402	c.1362G>A	c.(1360-1362)GCG>GCA	p.A454A	EIF2C2_uc010men.2_Silent_p.A377A|EIF2C2_uc010meo.2_Silent_p.A454A	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	454					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			GGGCGAAGCACGCAATGGCCC	0.617													41	179					0	0	1	0	0		T	141561443	T	T	141561443	2	4	84	1	0	0	0	0	0	0	0	1	5012	523	19	1		1	EIF2C2	8	141561443	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	100192	141561443	4802579	633	52476											
BAI1	575	broad.mit.edu	37	chr8	143603466	143603466	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atccgcaagcgcttcctctgCctgggctggggtgagccgcg	4	8	15	14	4	1	1	0	1	1	0	3	1	3	1	4	3	3	3	4	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:143603466C>T	uc003ywm.2	+	20	3348	c.3165C>T	c.(3163-3165)TGC>TGT	p.C1055C		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1055	Helical; Name=4; (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GCTTCCTCTGCCTGGGCTGGG	0.672													16	70					0	0	1	0	0		T	143603466	T	T	143603466	2	4	84	1	0	0	0	0	0	0	0	1	1299	747	26	2		2	BAI1	8	143603466	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2042023	143603466	2760556	634	52477											
C8orf31	286122	broad.mit.edu	37	chr8	144126111	144126111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggactcactgccaaagacGctcactttctgggagacaca	12	7	10	12	1	3	2	2	0	1	2	3	4	3	3	1	2	1	1	1	2	1	1	rs137944456		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:144126111G>A	uc003yxp.1	+	4	584	c.232G>A	c.(232-234)GCT>ACT	p.A78T	C8orf31_uc003yxq.1_RNA|C8orf31_uc003yxr.1_RNA	NM_173687	NP_775958	Q8N9H6	CH031_HUMAN	hypothetical protein LOC286122	78										ovary(1)	1	all_cancers(97;1.89e-10)|all_epithelial(106;8.73e-09)|Lung NSC(106;0.000161)|all_lung(105;0.000447)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					TGCCAAAGACGCTCACTTTCT	0.617													16	60					0	0	1	0	0		A	144126111	A	A	144126111	3	1	84	1	0	0	0	0	1	0	0	0	2423	1087	38	1	242	1	C8orf31	8	144126111	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	522645	144126111	2237911	635	52478											
FAM83H	286077	broad.mit.edu	37	chr8	144811445	144811445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccgcggcctccagcacttCgctgagcaggtccacatcag	7	6	12	16	3	1	1	1	1	0	0	4	1	3	1	4	3	2	3	4	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:144811445C>T	uc003yzk.2	-	3	565	c.496G>A	c.(496-498)GAA>AAA	p.E166K	FAM83H_uc010mfk.1_5'Flank	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	166					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			TCCAGCACTTCGCTGAGCAGG	0.637													35	117					0	0	1	0	0		T	144811445	T	T	144811445	3	4	84	1	0	0	0	0	1	0	0	0	5654	893	31	1	3055	1	FAM83H	8	144811445	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	685334	144811445	1552577	636	52479											
SCRIB	23513	broad.mit.edu	37	chr8	144892734	144892734	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgatgctcctcttcatcaccTtgagctcgctggggtgaggt	5	12	12	12	2	3	2	2	2	1	0	5	3	4	2	2	3	2	3	2	3	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:144892734T>C	uc003yzp.1	-	13	1452	c.1445A>G	c.(1444-1446)AAG>AGG	p.K482R	SCRIB_uc003yzo.1_Missense_Mutation_p.K482R	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	482	Sufficient for targeting to adherens junction and to inhibit cell proliferation.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			CTTCATCACCTTGAGCTCGCT	0.672													64	284					0	0	1	0	0		C	144892734	C	C	144892734	3	2	84	1	0	0	0	0	1	0	0	0	13962	1609	56	3	3622	3	SCRIB	8	144892734	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	81289	144892734	1471288	637	52480											
EPPK1	83481	broad.mit.edu	37	chr8	144944631	144944631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccgcacaccgcccacagCtcccaggccgcacaggtacc	9	2	9	21	3	0	0	0	0	0	0	1	0	1	0	6	2	3	4	6	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:144944631C>T	uc003zaa.1	-	1	2804	c.2791G>A	c.(2791-2793)GCT>ACT	p.A931T		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	931	Plectin 17.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCGCCCACAGCTCCCAGGCCG	0.687													8	35					0	0	1	0	0		T	144944631	T	T	144944631	3	4	84	1	0	0	0	0	1	0	0	0	5198	797	28	2	4475	2	EPPK1	8	144944631	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	51897	144944631	1419391	638	52481											
PLEC	5339	broad.mit.edu	37	chr8	144992277	144992277	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcagcgccgtggcctcGtccatgacctgcgagcgcac	6	6	13	16	5	0	1	0	1	0	0	2	2	1	1	4	1	5	3	4	1	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:144992277G>A	uc003zaf.1	-	32	12293	c.12123C>T	c.(12121-12123)GAC>GAT	p.D4041D	PLEC_uc003zab.1_Silent_p.D3904D|PLEC_uc003zac.1_Silent_p.D3908D|PLEC_uc003zad.2_Silent_p.D3904D|PLEC_uc003zae.1_Silent_p.D3872D|PLEC_uc003zag.1_Silent_p.D3882D|PLEC_uc003zah.2_Silent_p.D3890D|PLEC_uc003zaj.2_Silent_p.D3931D	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4041	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CCGTGGCCTCGTCCATGACCT	0.652													7	22					0	0	1	0	0		A	144992277	A	A	144992277	2	1	84	1	0	0	0	0	0	0	0	1	12071	1136	40	1		1	PLEC	8	144992277	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	47646	144992277	1371745	639	52482											
OPLAH	26873	broad.mit.edu	37	chr8	145112396	145112396	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatggcctcgttggccacGcgcacgaaccccatggccac	8	5	10	18	4	0	0	0	0	0	0	1	1	0	0	5	3	1	2	5	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:145112396G>A	uc003zar.3	-	10	1459	c.1377C>T	c.(1375-1377)CGC>CGT	p.R459R	OPLAH_uc003zas.1_5'Flank|OPLAH_uc003zat.1_3'UTR	NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	459							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	CGTTGGCCACGCGCACGAACC	0.706													4	18					0	0	1	0	0		A	145112396	A	A	145112396	2	1	84	1	0	0	0	0	0	0	0	1	10895	1074	38	1		1	OPLAH	8	145112396	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	120119	145112396	1251626	640	52483											
SCRT1	83482	broad.mit.edu	37	chr8	145556953	145556953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgagataggacttgagcGcgaagctcttcttgcagcgc	8	11	13	9	3	2	2	0	2	2	1	2	5	2	3	0	1	4	3	0	1	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:145556953G>A	uc003zbw.1	-	2	1053	c.941C>T	c.(940-942)GCG>GTG	p.A314V		NM_031309	NP_112599	Q9BWW7	SCRT1_HUMAN	scratch	314	C2H2-type 5; atypical.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.35e-39)|all cancers(56;1.37e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			GGACTTGAGCGCGAAGCTCTT	0.657													12	29					0	0	1	0	0		A	145556953	A	A	145556953	3	1	84	1	0	0	0	0	1	0	0	0	13966	1087	38	1	109	1	SCRT1	8	145556953	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	444557	145556953	807069	641	52484											
SCRT1	83482	broad.mit.edu	37	chr8	145557181	145557181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtgcgtgagcaggtgcatgGccatggccggcatggacacg	7	6	17	11	4	0	1	0	1	0	0	0	2	0	2	2	5	3	3	2	5	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:145557181G>A	uc003zbw.1	-	2	825	c.713C>T	c.(712-714)GCC>GTC	p.A238V		NM_031309	NP_112599	Q9BWW7	SCRT1_HUMAN	scratch	238	C2H2-type 2.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.35e-39)|all cancers(56;1.37e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			CAGGTGCATGGCCATGGCCGG	0.697													14	22					0	0	1	0	0		A	145557181	A	A	145557181	3	1	84	1	0	0	0	0	1	0	0	0	13966	1203	42	2	337	2	SCRT1	8	145557181	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	228	145557181	806841	642	52485											
GPR172A	79581	broad.mit.edu	37	chr8	145583308	145583308	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctcccctcttacgtctcTgtgcttgtggctctggggaa	4	13	11	13	1	3	0	0	0	3	0	5	1	4	1	3	3	3	2	3	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:145583308T>C	uc003zcc.1	+	3	313	c.156T>C	c.(154-156)TCT>TCC	p.S52S	FBXL6_uc003zbz.2_5'Flank|FBXL6_uc003zca.2_5'Flank|FBXL6_uc003zcb.2_5'Flank|FBXL6_uc010mfx.2_5'Flank|GPR172A_uc003zcd.1_Silent_p.S52S|GPR172A_uc003zce.1_Silent_p.S52S|GPR172A_uc010mfy.1_Silent_p.S52S|GPR172A_uc003zcf.1_Silent_p.S52S|GPR172A_uc011llc.1_5'UTR	NM_024531	NP_078807	Q9HAB3	RFT3_HUMAN	G protein-coupled receptor 172A precursor	52	Helical; (Potential).					integral to plasma membrane	receptor activity|riboflavin transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			CTTACGTCTCTGTGCTTGTGG	0.637													54	233					0	0	1	0	0		C	145583308	C	C	145583308	2	2	84	1	0	0	0	0	0	0	0	1	6684	1567	55	3		3	GPR172A	8	145583308	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	26127	145583308	780714	643	52486											
ZNF7	7553	broad.mit.edu	37	chr8	146067086	146067086	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagggatgtcccagagatgCgaggagtgtggcaaaggcat	12	6	17	6	1	0	1	0	0	0	1	1	6	1	3	1	4	1	2	1	4	2	0	rs146614064		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:146067086C>T	uc003zeg.3	+	5	731	c.594C>T	c.(592-594)TGC>TGT	p.C198C	ZNF7_uc010mge.2_Silent_p.C209C|ZNF7_uc011lln.1_Silent_p.C102C|ZNF7_uc003zeh.2_Intron|ZNF7_uc003zek.3_Silent_p.C102C|COMMD5_uc003zel.1_RNA	NM_003416	NP_003407	P17097	ZNF7_HUMAN	zinc finger protein 7	198					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.0812)|Ovarian(118;0.0822)|Acute lymphoblastic leukemia(644;0.143)	Epithelial(56;8.75e-39)|OV - Ovarian serous cystadenocarcinoma(54;1.13e-38)|all cancers(56;8.48e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;2.11e-07)		CCCAGAGATGCGAGGAGTGTG	0.502													21	106					0	0	1	0	0		T	146067086	T	T	146067086	2	4	84	1	0	0	0	0	0	0	0	1	18127	776	27	1		1	ZNF7	8	146067086	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	483778	146067086	296936	644	52487											
ZNF16	7564	broad.mit.edu	37	chr8	146156297	146156297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgcatttgtaggggcgctCgcccgtgtggattatctgat	6	13	13	9	3	1	1	0	1	1	0	2	2	1	2	1	3	1	3	1	3	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr8:146156297C>T	uc003zet.2	-	4	2063	c.1876G>A	c.(1876-1878)GAG>AAG	p.E626K	ZNF16_uc003zeu.2_Missense_Mutation_p.E626K	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	626					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		TAGGGGCGCTCGCCCGTGTGG	0.527													26	103					0	0	1	0	0		T	146156297	T	T	146156297	3	4	84	1	0	0	0	0	1	0	0	0	17763	893	31	1	176	1	ZNF16	8	146156297	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	89211	146156297	207725	645	52488											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													9	112					0	0	1	0	0		G	164038	G	G	164038	5	3	84	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-8591-01A-11D-2394-08		164038	141049393	646	52489											
DOCK8	81704	broad.mit.edu	37	chr9	429834	429834	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctttacctcctcatgaggTtcagttttggagccaccagt	7	13	8	13	0	2	1	2	1	0	0	3	2	3	2	5	2	2	2	5	2	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:429834T>C	uc003zgf.2	+	36	4718	c.4606T>C	c.(4606-4608)TTC>CTC	p.F1536L	DOCK8_uc010mgu.2_Missense_Mutation_p.F838L|DOCK8_uc010mgv.2_Missense_Mutation_p.F1436L|DOCK8_uc003zgk.2_Missense_Mutation_p.F994L	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	1536	DHR-2.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		CCTCATGAGGTTCAGTTTTGG	0.483													20	44					0	0	1	0	0		C	429834	C	C	429834	3	2	84	1	0	0	0	0	1	0	0	0	4699	1725	60	3	4748	3	DOCK8	9	429834	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	265796	429834	140783597	647	52490											
GLIS3	169792	broad.mit.edu	37	chr9	4117878	4117878	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accggcccagaagcaagtgaAgtcctcccctttgcgctggt	8	8	11	14	2	0	2	0	1	0	1	2	2	2	2	5	2	2	2	5	2	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:4117878A>G	uc003zhw.1	-	3	1329	c.1135T>C	c.(1135-1137)TTC>CTC	p.F379L	GLIS3_uc003zhx.1_Missense_Mutation_p.F534L|GLIS3_uc003zic.1_Missense_Mutation_p.F534L|GLIS3_uc003zie.1_Missense_Mutation_p.F534L|GLIS3_uc010mhh.1_Missense_Mutation_p.F409L|GLIS3_uc003zid.1_Missense_Mutation_p.F312L|GLIS3_uc010mhi.1_Missense_Mutation_p.F341L|GLIS3_uc003zif.1_Missense_Mutation_p.F312L|GLIS3_uc003zig.1_Missense_Mutation_p.F378L|GLIS3_uc003zih.1_Missense_Mutation_p.F312L|GLIS3_uc003zhy.1_Missense_Mutation_p.F312L|GLIS3_uc003zhz.1_Missense_Mutation_p.F312L|GLIS3_uc003zib.1_Missense_Mutation_p.F378L|GLIS3_uc010mhg.1_Missense_Mutation_p.F312L	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	379	C2H2-type 2; atypical.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		AAGCAAGTGAAGTCCTCCCCT	0.592													11	131					0	0	1	0	0		G	4117878	G	G	4117878	3	3	84	1	0	0	0	0	1	0	0	0	6462	72	3	3	1224	3	GLIS3	9	4117878	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	3688044	4117878	137095553	648	52491											
PPAPDC2	403313	broad.mit.edu	37	chr9	4663138	4663138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatccagggtcatgctggggCggcacaatgtcaccgacgta	9	8	13	11	3	2	0	2	0	0	0	3	1	3	0	2	4	1	3	2	4	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:4663138C>T	uc003zin.2	+	1	841	c.763C>T	c.(763-765)CGG>TGG	p.R255W	C9orf68_uc003zik.2_Intron|C9orf68_uc003zil.2_Intron|C9orf68_uc010mhj.2_Intron|C9orf68_uc011lly.1_Intron|C9orf68_uc011llz.1_Intron|C9orf68_uc003zim.2_Intron	NM_203453	NP_982278	Q8IY26	PPAC2_HUMAN	phosphatidic acid phosphatase type 2 domain	255						integral to membrane	hydrolase activity				0	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.026)		CATGCTGGGGCGGCACAATGT	0.567													22	62					0	0	1	0	0		T	4663138	T	T	4663138	3	4	84	1	0	0	0	0	1	0	0	0	12314	759	27	1	765	1	PPAPDC2	9	4663138	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	545260	4663138	136550293	649	52492											
INSL4	3641	broad.mit.edu	37	chr9	5233697	5233697	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagatggacaagccttaggTacgacatcagaattcattcc	15	9	8	9	1	2	2	2	0	0	2	3	4	3	3	2	2	2	1	2	2	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:5233697T>C	uc003ziy.2	+	2	345	c.240T>C	c.(238-240)GGT>GGC	p.G80G		NM_002195	NP_002186	Q14641	INSL4_HUMAN	insulin-like 4 precursor	80					cell proliferation|cell-cell signaling|female pregnancy|multicellular organismal development|signal transduction	extracellular space|soluble fraction	hormone activity|insulin-like growth factor receptor binding				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0201)|Lung(218;0.14)		AAGCCTTAGGTACGACATCAG	0.398													18	29					0	0	1	0	0		C	5233697	C	C	5233697	2	2	84	1	0	0	0	0	0	0	0	1	7784	1625	57	3		3	INSL4	9	5233697	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	570559	5233697	135979734	650	52493											
PTPRD	5789	broad.mit.edu	37	chr9	8341229	8341229	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attacatggaagattggcacTgataaaccttgaggtgtgag	13	11	12	5	0	0	4	0	3	0	1	0	5	0	5	1	3	2	1	1	3	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:8341229T>C	uc003zkk.2	-	40	5698	c.4987A>G	c.(4987-4989)AGT>GGT	p.S1663G	PTPRD_uc003zkp.2_Missense_Mutation_p.S1257G|PTPRD_uc003zkq.2_Missense_Mutation_p.S1256G|PTPRD_uc003zkr.2_Missense_Mutation_p.S1247G|PTPRD_uc003zks.2_Missense_Mutation_p.S1256G|PTPRD_uc003zkl.2_Missense_Mutation_p.S1654G|PTPRD_uc003zkm.2_Missense_Mutation_p.S1650G|PTPRD_uc003zkn.2_Missense_Mutation_p.S1252G|PTPRD_uc003zko.2_Missense_Mutation_p.S1253G	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1663	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		AGATTGGCACTGATAAACCTT	0.388										TSP Lung(15;0.13)			32	102					0	0	1	0	0		C	8341229	C	C	8341229	3	2	84	1	0	0	0	0	1	0	0	0	12824	1580	55	3	775	3	PTPRD	9	8341229	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3107532	8341229	132872202	651	52494											
BNC2	54796	broad.mit.edu	37	chr9	16435650	16435650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctgtagtgaagtttcaCactgtaggagcttttgaaac	10	14	10	7	0	1	2	1	2	0	0	2	3	2	3	1	1	2	5	1	1	4	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:16435650C>T	uc003zml.2	-	6	2682	c.2542G>A	c.(2542-2544)GTG>ATG	p.V848M	BNC2_uc011lmw.1_Missense_Mutation_p.V753M|BNC2_uc003zmm.2_Missense_Mutation_p.V806M|BNC2_uc003zmq.1_Missense_Mutation_p.V862M|BNC2_uc003zmr.1_Missense_Mutation_p.V885M|BNC2_uc003zmp.1_Missense_Mutation_p.V876M|BNC2_uc010mij.1_Missense_Mutation_p.V770M|BNC2_uc011lmv.1_Missense_Mutation_p.V674M|BNC2_uc003zmo.1_Missense_Mutation_p.V770M|BNC2_uc003zmj.2_Missense_Mutation_p.V613M|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.V613M|BNC2_uc003zmn.1_Missense_Mutation_p.V613M	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	848	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		TGAAGTTTCACACTGTAGGAG	0.502													22	55					0	0	1	0	0		T	16435650	T	T	16435650	3	4	84	1	0	0	0	0	1	0	0	0	1476	478	17	4	765	4	BNC2	9	16435650	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	8094421	16435650	124777781	652	52495											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18504860	18504860	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cacgctccgaggaggaccggGacggcctatgggatgcctgg	7	5	17	12	4	0	0	0	0	0	0	1	5	1	4	4	6	1	1	4	6	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:18504860G>A	uc003zne.3	+	2	224	c.97G>A	c.(97-99)GAC>AAC	p.D33N	ADAMTSL1_uc003znb.2_Missense_Mutation_p.D33N|ADAMTSL1_uc003znc.3_Missense_Mutation_p.D33N	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	33	TSP type-1 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		GGAGGACCGGGACGGCCTATG	0.572													25	86					0	0	1	0	0		A	18504860	A	A	18504860	3	1	84	1	0	0	0	0	1	0	0	0	274	1174	41	4	103	4	ADAMTSL1	9	18504860	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2069210	18504860	122708571	653	52496											
KIAA1161	57462	broad.mit.edu	37	chr9	34372511	34372511	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagtctggatgaagaagTgcagcggcagcccgtcggcc	9	5	15	12	3	1	2	0	1	1	1	2	3	1	3	2	3	3	3	2	3	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:34372511T>C	uc003zue.3	-	3	598	c.431A>G	c.(430-432)CAC>CGC	p.H144R		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	144	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		GATGAAGAAGTGCAGCGGCAG	0.711													8	13					0	0	1	0	0		C	34372511	C	C	34372511	3	2	84	1	0	0	0	0	1	0	0	0	8227	1696	59	3	1717	3	KIAA1161	9	34372511	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	15867651	34372511	106840920	654	52497											
KIAA1539	80256	broad.mit.edu	37	chr9	35108148	35108148	+	Frame_Shift_Del	DEL	C	-	-																															gtagaccccgggggatgtcgCcccccctgctgggctgtagc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:35108148delC	uc003zwl.2	-	3	449	c.124delG	c.(124-126)GCGfs	p.A42fs	KIAA1539_uc003zwm.2_Frame_Shift_Del_p.A42fs|KIAA1539_uc003zwn.2_5'UTR|KIAA1539_uc003zwo.2_Frame_Shift_Del_p.A42fs|KIAA1539_uc003zwp.1_Frame_Shift_Del_p.A42fs|KIAA1539_uc010mkk.1_RNA	NM_025182	NP_079458	Q7L5A3	K1539_HUMAN	hypothetical protein LOC80256	42						nucleus				ovary(2)	2	all_epithelial(49;0.217)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GGGGATGTCGCCCCCCCTGCT	0.657													16	32	---	---	---	---						.	-	35108148	-	-	35108148	7	5	84	1	0	1	0	1	0	0	0	0	8258	739	26	0	1520	0	KIAA1539	9	35108148	Frame_Shift_Del	DEL	C	TCGA-BR-8591-01A-11D-2394-08	735637	35108148	106105283	655	52498											
MELK	9833	broad.mit.edu	37	chr9	36657290	36657290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgataaaaattatgtggCgggattaatagactatgatt	16	13	10	2	1	0	3	0	2	0	1	0	4	0	4	0	2	0	0	0	2	8	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:36657290C>T	uc003zzn.2	+	13	1244	c.1106C>T	c.(1105-1107)GCG>GTG	p.A369V	MELK_uc011lpm.1_Missense_Mutation_p.A238V|MELK_uc011lpn.1_Intron|MELK_uc011lpo.1_Missense_Mutation_p.A175V|MELK_uc010mll.2_Missense_Mutation_p.A337V|MELK_uc011lpp.1_Missense_Mutation_p.A321V|MELK_uc010mlm.2_Missense_Mutation_p.A298V|MELK_uc011lpq.1_Missense_Mutation_p.A175V|MELK_uc011lpr.1_Missense_Mutation_p.A298V|MELK_uc011lps.1_Missense_Mutation_p.A289V	NM_014791	NP_055606	Q14680	MELK_HUMAN	maternal embryonic leucine zipper kinase	369						cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		Acute lymphoblastic leukemia(2;1.09e-08)|all_hematologic(2;8.15e-06)	STAD - Stomach adenocarcinoma(86;0.228)			AATTATGTGGCGGGATTAATA	0.378													12	23					0	0	1	0	0		T	36657290	T	T	36657290	3	4	84	1	0	0	0	0	1	0	0	0	9488	768	27	1	1152	1	MELK	9	36657290	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1549142	36657290	104556141	656	52499											
FRMPD1	22844	broad.mit.edu	37	chr9	37745147	37745147	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaataatgtctctcaaggaGacacactagagctccagttg	14	10	8	9	0	2	2	1	0	1	2	4	3	3	2	1	1	1	2	1	1	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:37745147G>T	uc004aag.1	+	16	3162	c.3118G>T	c.(3118-3120)GAC>TAC	p.D1040Y	FRMPD1_uc004aah.1_Missense_Mutation_p.D1040Y	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1040						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		CTCTCAAGGAGACACACTAGA	0.493													53	153					1.30409e-13	1.43417e-13	1	1	0		T	37745147	T	T	37745147	3	4	84	1	0	0	0	0	1	0	0	0	6071	942	33	5	3176	5	FRMPD1	9	37745147	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1087857	37745147	103468284	657	52500											
RG9MTD3	158234	broad.mit.edu	37	chr9	37763751	37763751	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccactacatgtcaaagaagGtagaacatccactaagcctg	15	7	7	12	0	1	2	1	0	0	2	2	2	2	2	3	1	3	1	3	1	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:37763751G>A	uc004aai.2	+	4	497	c.420_splice	c.e4+1	p.K140_splice	RG9MTD3_uc011lqo.1_Splice_Site_p.K140_splice|RG9MTD3_uc011lqp.1_Intron|RG9MTD3_uc011lqq.1_Intron|RG9MTD3_uc004aaj.2_RNA|RG9MTD3_uc004aak.2_Splice_Site_p.K45_splice	NM_144964	NP_659401	Q6PF06	RG9D3_HUMAN	RNA (guanine-9-) methyltransferase domain								methyltransferase activity				0				GBM - Glioblastoma multiforme(29;0.00817)|Lung(182;0.226)		GTCAAAGAAGGTAGAACATCC	0.468													18	44					0	0	1	0	0		A	37763751	A	A	37763751	5	1	84	1	0	0	0	0	0	0	1	0	13298	1275	44	4	431	4	RG9MTD3	9	37763751	Splice_Site	SNP	G	TCGA-BR-8591-01A-11D-2394-08	18604	37763751	103449680	658	52501											
APBA1	320	broad.mit.edu	37	chr9	72067157	72067157	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggttaatcccattggcccTgaggaattcctggtatgcca	8	11	12	10	0	0	1	0	1	0	0	2	2	2	2	4	5	1	2	4	5	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:72067157T>C	uc004ahh.2	-	9	2125	c.1849A>G	c.(1849-1851)AGG>GGG	p.R617G		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	617	PID.				axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						CCATTGGCCCTGAGGAATTCC	0.522													27	82					0	0	1	0	0		C	72067157	C	C	72067157	3	2	84	1	0	0	0	0	1	0	0	0	756	1579	55	3	684	3	APBA1	9	72067157	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	34303406	72067157	69146274	659	52502											
APBA1	320	broad.mit.edu	37	chr9	72082837	72082837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagccaaggtaattggcggCaaaaatgattccatcgatca	14	8	11	8	2	1	1	1	1	0	0	3	3	2	2	2	4	1	2	2	4	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:72082837C>T	uc004ahh.2	-	5	1660	c.1384G>A	c.(1384-1386)GCC>ACC	p.A462T		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	462	PID.				axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						TAATTGGCGGCAAAAATGATT	0.547													68	198					0	0	1	0	0		T	72082837	T	T	72082837	3	4	84	1	0	0	0	0	1	0	0	0	756	710	25	2	1165	2	APBA1	9	72082837	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	15680	72082837	69130594	660	52503											
SMC5	23137	broad.mit.edu	37	chr9	72901115	72901115	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccccggtttaattttacaGgcaacagatattaaggaggc	12	11	9	9	1	0	1	0	0	0	1	1	2	1	2	2	4	2	2	2	4	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:72901115G>T	uc004ahr.2	+	8	1099	c.982_splice	c.e8-1	p.A328_splice		NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein						DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						TAATTTTACAGGCAACAGATA	0.363													15	47					2.23348e-06	2.34381e-06	1	1	0		T	72901115	T	T	72901115	5	4	84	1	0	0	0	0	0	0	1	0	14811	1014	35	5	1011	5	SMC5	9	72901115	Splice_Site	SNP	G	TCGA-BR-8591-01A-11D-2394-08	818278	72901115	68312316	661	52504											
GDA	9615	broad.mit.edu	37	chr9	74817603	74817603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaccaagtacacatttcctgCagaacacagattccagaaca	16	7	6	12	0	0	3	0	0	0	3	2	4	2	3	3	0	4	2	3	0	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:74817603C>T	uc004aiq.2	+	3	512	c.329C>T	c.(328-330)GCA>GTA	p.A110V	GDA_uc011lse.1_Missense_Mutation_p.A36V|GDA_uc011lsf.1_Missense_Mutation_p.A36V|GDA_uc004air.2_Missense_Mutation_p.A110V|GDA_uc010mow.1_RNA|GDA_uc004ais.2_Missense_Mutation_p.A68V|GDA_uc004ait.1_Missense_Mutation_p.A36V	NM_004293	NP_004284	Q9Y2T3	GUAD_HUMAN	guanine deaminase	110					nervous system development|purine base metabolic process|purine nucleotide catabolic process	cytosol	guanine deaminase activity|zinc ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		ACATTTCCTGCAGAACACAGA	0.448													44	129					0	0	1	0	0		T	74817603	T	T	74817603	3	4	84	1	0	0	0	0	1	0	0	0	6321	710	25	2	339	2	GDA	9	74817603	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1916488	74817603	66395828	662	52505											
PRUNE2	158471	broad.mit.edu	37	chr9	79323686	79323686	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggttccagctgtctcacTgtaaatcgggtttccggctc	6	12	11	12	2	1	0	1	0	1	0	6	0	3	0	2	3	1	5	2	3	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:79323686T>G	uc010mpk.2	-	8	3628	c.3504A>C	c.(3502-3504)ACA>ACC	p.T1168T		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1168					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						GCTGTCTCACTGTAAATCGGG	0.542													41	82					0	0	1	0	0		G	79323686	G	G	79323686	2	3	84	1	0	0	0	0	0	0	0	1	12663	1567	55	5		5	PRUNE2	9	79323686	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	4506083	79323686	61889745	663	52506											
PSAT1	29968	broad.mit.edu	37	chr9	80943978	80943978	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggccgccttcatgaaaaaAtttttggagatgcatcagct	11	12	9	9	1	2	2	2	1	0	1	2	3	2	2	2	2	2	2	2	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:80943978A>T	uc004ala.2	+	9	1157	c.1089A>T	c.(1087-1089)AAA>AAT	p.K363N	PSAT1_uc004alb.2_Missense_Mutation_p.K317N	NM_058179	NP_478059	Q9Y617	SERC_HUMAN	phosphoserine aminotransferase 1 isoform 1	363					L-serine biosynthetic process|pyridoxine biosynthetic process		O-phospho-L-serine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)	TCATGAAAAAATTTTTGGAGA	0.423													20	53					0	0	1	0	0		T	80943978	T	T	80943978	3	4	84	1	0	0	0	0	1	0	0	0	12666	98	4	5	1123	5	PSAT1	9	80943978	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1620292	80943978	60269453	664	52507											
GAS1	2619	broad.mit.edu	37	chr9	89560829	89560829	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcgcggtgggtgcgggacgCcgtcgtcgtcgtccagcggc	2	6	20	13	9	0	0	0	0	0	0	4	1	1	1	2	5	2	0	2	5	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:89560829C>T	uc004aox.3	-	1	1276	c.866G>A	c.(865-867)GGC>GAC	p.G289D	uc004aoy.2_5'Flank	NM_002048	NP_002039	P54826	GAS1_HUMAN	growth arrest-specific 1 precursor	289					cell cycle arrest|negative regulation of S phase of mitotic cell cycle	anchored to plasma membrane					0						GTGCGGGACGCCGTCGTCGTC	0.697													3	5					0	0	1	0	0		T	89560829	T	T	89560829	3	4	84	1	0	0	0	0	1	0	0	0	6259	739	26	2	175	2	GAS1	9	89560829	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	8616851	89560829	51652602	665	52508											
DAPK1	1612	broad.mit.edu	37	chr9	90317955	90317955	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctctaggtctgtcctccCatgactcacctgtgtgagaa	7	11	8	15	0	3	2	1	2	2	1	5	3	5	2	5	1	0	0	5	1	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:90317955C>T	uc004apc.2	+	25	3021	c.2883C>T	c.(2881-2883)CCC>CCT	p.P961P	DAPK1_uc004apd.2_Silent_p.P961P|DAPK1_uc011ltg.1_Silent_p.P895P|DAPK1_uc011lth.1_Silent_p.P698P	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	961					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						TCTGTCCTCCCATGACTCACC	0.562									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				22	72					0	0	1	0	0		T	90317955	T	T	90317955	2	4	84	1	0	0	0	0	0	0	0	1	4238	581	21	4		4	DAPK1	9	90317955	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	757126	90317955	50895476	666	52509											
CDK20	23552	broad.mit.edu	37	chr9	90582462	90582463	+	Frame_Shift_Ins	INS	-	G	G																															cacgtggaagtcatggatgtINSgggggggccctggatgggcc																								rs151084868		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:90582462_90582463insG	uc004apr.2	-	8	1261_1262	c.955_956insC	c.(955-957)CACfs	p.H319fs	CDK20_uc004aps.2_Frame_Shift_Ins_p.H298fs|CDK20_uc004apt.2_Frame_Shift_Ins_p.H311fs|CDK20_uc004apu.2_3'UTR	NM_001039803	NP_001034892	Q8IZL9	CDK20_HUMAN	cell cycle related kinase isoform 3	319					cell division|multicellular organismal development	cilium|mitochondrion|nucleus	ATP binding|cyclin-dependent protein kinase activity			skin(1)	1						GTCATGGATGTGGGGGGGCCCT	0.619													3	3	---	---	---	---						.	G	90582463	G	G	90582462	7	5	84	1	0	1	1	0	0	0	0	0	3140	1696	59	0	88	0	CDK20	9	90582462	Frame_Shift_Ins	INS	-	TCGA-BR-8591-01A-11D-2394-08	264507	90582462	50630969	667	52510											
SEMA4D	10507	broad.mit.edu	37	chr9	92006233	92006233	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacacaaactcatactcCacagacacctccgtgaagaa	16	6	5	14	1	1	4	1	2	0	2	3	4	3	4	3	0	3	0	3	0	5	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:92006233C>A	uc004aqo.1	-	11	1292	c.720G>T	c.(718-720)GTG>GTT	p.V240V	SEMA4D_uc011ltm.1_Silent_p.V240V|SEMA4D_uc011ltn.1_RNA|SEMA4D_uc011lto.1_RNA|SEMA4D_uc004aqp.1_Silent_p.V238V	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	240	Sema.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						ACTCATACTCCACAGACACCT	0.557													32	85					1.30897e-18	1.46638e-18	1	1	0		A	92006233	A	A	92006233	2	1	84	1	0	0	0	0	0	0	0	1	14059	581	21	5		5	SEMA4D	9	92006233	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1423771	92006233	49207198	668	52511											
IARS	3376	broad.mit.edu	37	chr9	95033316	95033316	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtggcaaccagaagtcGgccttgttccttcaaagtcc	8	10	12	11	1	1	1	1	0	0	1	4	1	3	1	4	4	1	2	4	4	3	3	rs140292751		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:95033316G>A	uc004art.1	-	12	1413	c.1156C>T	c.(1156-1158)CGA>TGA	p.R386*	IARS_uc004ars.1_Nonsense_Mutation_p.R231*|IARS_uc004aru.3_Nonsense_Mutation_p.R386*|IARS_uc010mqr.2_Nonsense_Mutation_p.R276*|IARS_uc010mqt.2_Intron	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	386					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	ACCAGAAGTCGGCCTTGTTCC	0.383													26	77					0	0	1	0	0		A	95033316	A	A	95033316	4	1	84	1	0	0	0	0	0	1	0	0	7489	1124	39	1	2724	1	IARS	9	95033316	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3027083	95033316	46180115	669	52512											
HABP4	22927	broad.mit.edu	37	chr9	99220764	99220764	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggagatcctacagggaataCcgaccctatgagacagagag	14	5	12	10	2	0	3	0	1	0	3	1	8	1	4	3	2	2	0	3	2	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:99220764C>A	uc010msg.2	+	2	601	c.453C>A	c.(451-453)TAC>TAA	p.Y151*	HABP4_uc010msh.2_Nonsense_Mutation_p.Y151*	NM_014282	NP_055097	Q5JVS0	HABP4_HUMAN	hyaluronan binding protein 4	151					platelet activation|platelet degranulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|extracellular region|nucleus	protein binding			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0169)|all_hematologic(171;0.214)				ACAGGGAATACCGACCCTATG	0.567													30	88					2.08457e-15	2.30122e-15	1	1	0		A	99220764	A	A	99220764	4	1	84	1	0	0	0	0	0	1	0	0	6955	518	18	5	459	5	HABP4	9	99220764	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4187448	99220764	41992667	670	52513											
ABCA1	19	broad.mit.edu	37	chr9	107571802	107571802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggtctttggtgagggCgtttaagagttccagggttc	6	12	16	7	1	1	2	0	1	1	1	3	2	2	2	2	4	0	3	2	4	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:107571802C>T	uc004bcl.2	-	30	4532	c.4219G>A	c.(4219-4221)GCC>ACC	p.A1407T		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1407	Extracellular.		A -> T (in a colorectal cancer sample; somatic mutation).		Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding	p.A1407T(1)		large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TTGGTGAGGGCGTTTAAGAGT	0.517													15	52					0	0	1	0	0		T	107571802	T	T	107571802	3	4	84	1	0	0	0	0	1	0	0	0	28	768	27	1	2650	1	ABCA1	9	107571802	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	8351038	107571802	33641629	671	52514											
ZNF462	58499	broad.mit.edu	37	chr9	109690810	109690810	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactaccagaagcgacacccGtccatcaaggtgaccgctga	12	5	9	15	3	1	3	1	2	0	1	2	4	2	3	4	1	2	1	4	1	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:109690810G>A	uc004bcz.2	+	3	4906	c.4617G>A	c.(4615-4617)CCG>CCA	p.P1539P	ZNF462_uc010mto.2_Silent_p.P1387P|ZNF462_uc004bda.2_Silent_p.P1387P	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1539					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						AGCGACACCCGTCCATCAAGG	0.542													16	49					0	0	1	0	0		A	109690810	A	A	109690810	2	1	84	1	0	0	0	0	0	0	0	1	17951	1132	40	1		1	ZNF462	9	109690810	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2119008	109690810	31522621	672	52515											
KLF4	9314	broad.mit.edu	37	chr9	110250473	110250473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggtctgtggccacggtcgCcgccgccaggtcataggggc	5	6	16	14	4	2	0	1	0	1	0	3	0	2	0	4	6	0	0	4	6	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:110250473C>T	uc004bdh.2	-	3	796	c.175G>A	c.(175-177)GCG>ACG	p.A59T	KLF4_uc004bdf.1_Missense_Mutation_p.A18T|KLF4_uc004bdg.2_Missense_Mutation_p.A68T	NM_004235	NP_004226	O43474	KLF4_HUMAN	Kruppel-like factor 4 (gut)	68					fat cell differentiation|mesodermal cell fate determination|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|stem cell maintenance|transcription from RNA polymerase II promoter	nucleus	RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor recruiting transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(2)|lung(1)	3						GCCACGGTCGCCGCCGCCAGG	0.706													6	33					0	0	1	0	0		T	110250473	T	T	110250473	3	4	84	1	0	0	0	0	1	0	0	0	8364	739	26	2	1249	2	KLF4	9	110250473	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	559663	110250473	30962958	673	52516											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112705624	112705624	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagagccctcatccccagaAgggaaggaagagagcctagc	14	3	12	12	0	1	3	1	0	0	3	2	6	2	5	4	2	3	0	4	2	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:112705624A>C	uc004bei.2	+	7	1347	c.1155A>C	c.(1153-1155)GAA>GAC	p.E385D	PALM2_uc004bef.2_Missense_Mutation_p.E387D|PALM2_uc004beg.2_Missense_Mutation_p.E353D|PALM2_uc004beh.3_Missense_Mutation_p.E385D|PALM2-AKAP2_uc004bek.3_Intron|PALM2-AKAP2_uc004bej.3_Intron|PALM2-AKAP2_uc004bel.1_Intron	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	Error:Variant_position_missing_in_Q9Y2D5_after_alignment							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						CATCCCCAGAAGGGAAGGAAG	0.557													11	113					0	0	1	0	0		C	112705624	C	C	112705624	3	2	84	1	0	0	0	0	1	0	0	0	11429	69	3	5		5	PALM2-AKAP2	9	112705624	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2455151	112705624	28507807	674	52517											
TXN	7295	broad.mit.edu	37	chr9	113013693	113013693	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accacgtggctgagaagtcaActactacaagtttatcacct	13	10	7	11	1	2	1	2	1	0	1	2	2	2	1	2	1	3	2	2	1	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:113013693A>G	uc004bep.1	-	2	137	c.74T>C	c.(73-75)GTT>GCT	p.V25A	TXN_uc004beq.1_Missense_Mutation_p.V25A	NM_003329	NP_003320	P10599	THIO_HUMAN	thioredoxin	25	Thioredoxin.				cell proliferation|cell-cell signaling|cellular component movement|electron transport chain|glycerol ether metabolic process|nucleobase, nucleoside and nucleotide interconversion|positive regulation of DNA binding|regulation of protein import into nucleus, translocation|response to radiation|signal transduction|transcription, DNA-dependent|transport	cytosol|extracellular region|nucleoplasm	electron carrier activity|protein binding|protein disulfide oxidoreductase activity				0				OV - Ovarian serous cystadenocarcinoma(323;7.36e-07)		TGAGAAGTCAACTACTACAAG	0.353													17	37					0	0	1	0	0		G	113013693	G	G	113013693	3	3	84	1	0	0	0	0	1	0	0	0	16816	43	2	3	259	3	TXN	9	113013693	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	308069	113013693	28199738	675	52518											
SVEP1	79987	broad.mit.edu	37	chr9	113141745	113141745	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtctccatattgataatgTacgcctcgagcaattgcatt	11	14	7	9	2	1	1	0	1	1	0	3	2	1	1	2	0	3	3	2	0	4	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:113141745T>C	uc010mtz.2	-	44	10627	c.10290A>G	c.(10288-10290)GTA>GTG	p.V3430V	SVEP1_uc010mty.2_Silent_p.V1356V	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	3430	Sushi 34.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						ATTGATAATGTACGCCTCGAG	0.398													8	25					0	0	1	0	0		C	113141745	C	C	113141745	2	2	84	1	0	0	0	0	0	0	0	1	15445	1625	57	3		3	SVEP1	9	113141745	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	128052	113141745	28071686	676	52519											
ZNF483	158399	broad.mit.edu	37	chr9	114293219	114293222	+	Frame_Shift_Del	DEL	TGTT	-	-																															aaagaggataaaatggtcacTgtttgtcccaatactgagtc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:114293219_114293222delTGTT	uc004bff.2	+	3	701_704	c.477_480delTGTT	c.(475-480)ACTGTTfs	p.T159fs	ZNF483_uc011lwq.1_Frame_Shift_Del_p.T159fs|ZNF483_uc004bfg.2_Frame_Shift_Del_p.T159fs	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	159_160					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						AAATGGTCACTGTTTGTCCCAATA	0.377													22	45	---	---	---	---						.	-	114293222	-	-	114293219	7	5	84	1	0	1	0	1	0	0	0	0	17961	1567	55	0	483	0	ZNF483	9	114293219	Frame_Shift_Del	DEL	TGTT	TCGA-BR-8591-01A-11D-2394-08	1151474	114293219	26920212	677	52520											
ZNF483	158399	broad.mit.edu	37	chr9	114304767	114304767	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaacatcagagaattcatActggagaaaaaccttataaa	20	10	5	6	0	2	2	2	0	0	2	2	4	2	2	1	1	3	0	1	1	9	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:114304767A>G	uc004bff.2	+	6	1776	c.1552A>G	c.(1552-1554)ACT>GCT	p.T518A	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	518					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						GAGAATTCATACTGGAGAAAA	0.388													12	39					0	0	1	0	0		G	114304767	G	G	114304767	3	3	84	1	0	0	0	0	1	0	0	0	17961	391	14	3	1570	3	ZNF483	9	114304767	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	11548	114304767	26908664	678	52521											
C9orf84	158401	broad.mit.edu	37	chr9	114453907	114453907	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctaaactttttccagctctTtggtagaaataaaggctgtt	11	15	7	8	0	1	1	0	0	1	1	2	1	2	1	2	2	2	4	2	2	6	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:114453907T>C	uc004bfr.2	-	25	4293	c.4158A>G	c.(4156-4158)CAA>CAG	p.Q1386Q	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Silent_p.Q1347Q|C9orf84_uc010mug.2_Silent_p.Q1297Q	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	1386										ovary(2)	2						TTCCAGCTCTTTGGTAGAAAT	0.358													11	27					0	0	1	0	0		C	114453907	C	C	114453907	2	2	84	1	0	0	0	0	0	0	0	1	2503	1838	64	3		3	C9orf84	9	114453907	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	149140	114453907	26759524	679	52522											
ZFP37	7539	broad.mit.edu	37	chr9	115805377	115805377	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacctgtatgagttctcatAtggtaagtaagagatgagct	12	13	10	6	0	2	3	2	2	1	1	3	4	2	3	1	1	1	5	1	1	4	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:115805377A>G	uc004bgm.1	-	4	1549	c.1521T>C	c.(1519-1521)CAT>CAC	p.H507H	ZFP37_uc011lwz.1_Silent_p.H522H|ZFP37_uc011lxa.1_Silent_p.H508H	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	507	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GAGTTCTCATATGGTAAGTAA	0.368													15	46					0	0	1	0	0		G	115805377	G	G	115805377	2	3	84	1	0	0	0	0	0	0	0	1	17673	446	16	3		3	ZFP37	9	115805377	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1351470	115805377	25408054	680	52523											
DBC1	1620	broad.mit.edu	37	chr9	121929807	121929807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtaggtagatgtggaccGtctcgaaaaatgttttccac	11	12	10	8	3	1	1	0	0	1	1	3	3	2	2	2	2	1	3	2	2	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:121929807G>A	uc004bkc.2	-	8	2297	c.1841C>T	c.(1840-1842)ACG>ATG	p.T614M		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	614					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GATGTGGACCGTCTCGAAAAA	0.552													42	138					0	0	1	0	0		A	121929807	A	A	121929807	3	1	84	1	0	0	0	0	1	0	0	0	4250	1145	40	1	448	1	DBC1	9	121929807	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	6124430	121929807	19283624	681	52524											
CRB2	286204	broad.mit.edu	37	chr9	126133621	126133621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctggtgatgctcagcttcGggcctgaccagctgcaggac	7	8	13	13	1	1	2	1	2	0	0	2	3	1	3	3	3	4	4	3	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:126133621G>A	uc004bnx.1	+	8	2292	c.2200G>A	c.(2200-2202)GGG>AGG	p.G734R	CRB2_uc004bnw.1_Missense_Mutation_p.G734R	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	734	Extracellular (Potential).|Laminin G-like 2.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						GCTCAGCTTCGGGCCTGACCA	0.692													43	112					0	0	1	0	0		A	126133621	A	A	126133621	3	1	84	1	0	0	0	0	1	0	0	0	3852	1116	39	1	2230	1	CRB2	9	126133621	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4203814	126133621	15079810	682	52525											
CRB2	286204	broad.mit.edu	37	chr9	126134595	126134595	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctcccacctgccacgtGtgaggaggtccctgatggct	5	10	12	14	1	1	2	0	2	1	0	3	3	2	3	4	3	1	1	4	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:126134595G>A	uc004bnx.1	+	9	2668	c.2576G>A	c.(2575-2577)TGT>TAT	p.C859Y	CRB2_uc004bnw.1_Missense_Mutation_p.C859Y	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	859	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						CCTGCCACGTGTGAGGAGGTC	0.408													32	81					0	0	1	0	0		A	126134595	A	A	126134595	3	1	84	1	0	0	0	0	1	0	0	0	3852	1377	48	4	2610	4	CRB2	9	126134595	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	974	126134595	15078836	683	52526											
PPP6C	5537	broad.mit.edu	37	chr9	127911967	127911967	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcctcaaaggaaatatggCgttgtcgttctgggaggaat	11	10	14	6	2	2	0	1	0	1	0	3	3	2	3	1	5	0	2	1	5	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:127911967C>T	uc004bpg.3	-	7	1124	c.903G>A	c.(901-903)ACG>ACA	p.T301T	PPP6C_uc010mwv.2_Silent_p.T338T|PPP6C_uc010mww.2_Silent_p.T279T|PPP6C_uc011lzr.1_Silent_p.T154T	NM_002721	NP_002712	O00743	PPP6_HUMAN	protein phosphatase 6, catalytic subunit isoform	301					G1/S transition of mitotic cell cycle|protein dephosphorylation	cytosol	metal ion binding|protein binding|protein serine/threonine phosphatase activity			ovary(1)|skin(1)	2						GGAAATATGGCGTTGTCGTTC	0.418													13	40					0	0	1	0	0		T	127911967	T	T	127911967	2	4	84	1	0	0	0	0	0	0	0	1	12429	755	27	1		1	PPP6C	9	127911967	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1777372	127911967	13301464	684	52527											
ZBTB43	23099	broad.mit.edu	37	chr9	129596068	129596068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcacacaggcataaagcCgtatgagtgtaatatctgtg	14	11	9	7	1	2	1	1	1	1	0	2	1	2	1	1	1	1	3	1	1	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:129596068C>T	uc004bql.2	+	3	1553	c.1280C>T	c.(1279-1281)CCG>CTG	p.P427L	ZBTB43_uc010mxf.2_Missense_Mutation_p.P427L	NM_014007	NP_054726	O43298	ZBT43_HUMAN	zinc finger and BTB domain containing 43	427					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGCATAAAGCCGTATGAGTGT	0.488													42	127					0	0	1	0	0		T	129596068	T	T	129596068	3	4	84	1	0	0	0	0	1	0	0	0	17569	652	23	1	1282	1	ZBTB43	9	129596068	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1684101	129596068	11617363	685	52528											
FPGS	2356	broad.mit.edu	37	chr9	130571113	130571113	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaggcatccaggccagggctCctgtggcagctgcccctggc	6	6	14	15	0	0	0	0	0	0	0	2	0	2	0	5	5	2	4	5	5	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:130571113C>T	uc004bsg.1	+	11	1055	c.1005C>T	c.(1003-1005)CTC>CTT	p.L335L	FPGS_uc004bsh.1_Silent_p.L152L|FPGS_uc011mal.1_Silent_p.L309L|FPGS_uc004bsi.1_Silent_p.L285L	NM_004957	NP_004948	Q05932	FOLC_HUMAN	folylpolyglutamate synthase isoform a precursor	335					folic acid metabolic process|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|one-carbon metabolic process	cytosol|mitochondrial matrix	ATP binding|tetrahydrofolylpolyglutamate synthase activity				0					L-Glutamic Acid(DB00142)	GGCCAGGGCTCCTGTGGCAGC	0.657													3	3					0	0	1	0	0		T	130571113	T	T	130571113	2	4	84	1	0	0	0	0	0	0	0	1	6050	842	30	4		4	FPGS	9	130571113	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	975045	130571113	10642318	686	52529											
NAIF1	203245	broad.mit.edu	37	chr9	130829050	130829050	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccgccaccactgccacCgcctgtcccaggccccccag	6	3	8	24	2	0	0	0	0	0	0	1	0	1	0	11	1	1	0	11	1	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:130829050C>T	uc004bta.2	-	1	550	c.331G>A	c.(331-333)GGT>AGT	p.G111S	NAIF1_uc004bsz.2_Intron|SLC25A25_uc004btb.2_5'Flank	NM_197956	NP_931045	Q69YI7	NAIF1_HUMAN	nuclear apoptosis inducing factor 1	111	Gly-rich.				apoptosis|induction of apoptosis	nucleus					0						CCACTGCCACCGCCTGTCCCA	0.701													18	66					0	0	1	0	0		T	130829050	T	T	130829050	3	4	84	1	0	0	0	0	1	0	0	0	10164	652	23	1	660	1	NAIF1	9	130829050	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	257937	130829050	10384381	687	52530											
SLC25A25	114789	broad.mit.edu	37	chr9	130868770	130868770	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgctgggcatcatccccTatgccggcatcgaccttgca	8	9	9	15	2	1	0	1	0	0	0	3	1	2	0	4	2	3	4	4	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:130868770T>C	uc004bte.2	+	8	1074	c.1045T>C	c.(1045-1047)TAT>CAT	p.Y349H	SLC25A25_uc004btb.2_Missense_Mutation_p.Y383H|SLC25A25_uc004btc.2_Missense_Mutation_p.Y369H|SLC25A25_uc004btd.2_Missense_Mutation_p.Y381H|SLC25A25_uc004btf.2_Missense_Mutation_p.Y246H	NM_052901	NP_443133	Q6KCM7	SCMC2_HUMAN	solute carrier family 25, member 25 isoform a	349	Solcar 2.|Helical; Name=4; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding				0						CATCATCCCCTATGCCGGCAT	0.592													43	108					0	0	1	0	0		C	130868770	C	C	130868770	3	2	84	1	0	0	0	0	1	0	0	0	14513	1522	53	3	1563	3	SLC25A25	9	130868770	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	39720	130868770	10344661	688	52531											
CIZ1	25792	broad.mit.edu	37	chr9	130941148	130941148	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcgctggaggatgctcCtgtggctggacgcttggctg	4	10	16	11	2	0	0	0	0	0	0	1	3	1	3	2	5	2	5	2	5	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:130941148C>A	uc004btt.2	-	8	1501	c.1338G>T	c.(1336-1338)CAG>CAT	p.Q446H	CIZ1_uc004btr.2_Missense_Mutation_p.Q418H|CIZ1_uc004bts.2_Missense_Mutation_p.Q417H|CIZ1_uc011maq.1_Missense_Mutation_p.Q385H|CIZ1_uc004btu.2_Missense_Mutation_p.Q366H|CIZ1_uc011mar.1_Missense_Mutation_p.Q345H|CIZ1_uc011mas.1_Missense_Mutation_p.Q476H|CIZ1_uc004btw.2_Missense_Mutation_p.Q390H|CIZ1_uc004btv.2_Missense_Mutation_p.Q446H|CIZ1_uc004btx.2_Missense_Mutation_p.Q422H	NM_001131016	NP_001124488	Q9ULV3	CIZ1_HUMAN	CDKN1A interacting zinc finger protein 1 isoform	446	Gln-rich.					nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4						GAGGATGCTCCTGTGGCTGGA	0.617													61	170					1.08241e-25	1.22757e-25	1	1	0		A	130941148	A	A	130941148	3	1	84	1	0	0	0	0	1	0	0	0	3444	680	24	5	1398	5	CIZ1	9	130941148	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	72378	130941148	10272283	689	52532											
DNM1	1759	broad.mit.edu	37	chr9	130984785	130984785	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgagaagcgcattgagggCtcaggagatcagatcgacac	12	8	13	8	2	2	4	2	2	0	3	3	7	2	4	0	2	1	2	0	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:130984785C>T	uc011mau.1	+	8	1125	c.1038C>T	c.(1036-1038)GGC>GGT	p.G346G	DNM1_uc010mxr.2_Silent_p.G346G|DNM1_uc011mat.1_Silent_p.G346G	NM_004408	NP_004399	Q05193	DYN1_HUMAN	dynamin 1 isoform 1	346					receptor-mediated endocytosis	microtubule	GTP binding|GTPase activity			ovary(2)	2						GCATTGAGGGCTCAGGAGATC	0.592													35	91					0	0	1	0	0		T	130984785	T	T	130984785	2	4	84	1	0	0	0	0	0	0	0	1	4676	784	28	2		2	DNM1	9	130984785	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	43637	130984785	10228646	690	52533											
PPP2R4	5524	broad.mit.edu	37	chr9	131885369	131885369	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggattcatccttaccctcaaCgaaggtgtgaaggggaagaa	13	8	12	8	1	2	2	2	1	0	1	3	5	3	4	2	4	2	0	2	4	6	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:131885369C>T	uc004bxm.1	+	3	435	c.168C>T	c.(166-168)AAC>AAT	p.N56N	PPP2R4_uc004bxl.1_Silent_p.N56N|PPP2R4_uc011mbo.1_Silent_p.N56N|PPP2R4_uc010myr.1_Intron|PPP2R4_uc004bxn.1_Silent_p.N56N|PPP2R4_uc004bxo.1_Silent_p.N56N|PPP2R4_uc011mbp.1_Intron|PPP2R4_uc011mbq.1_Silent_p.N56N|PPP2R4_uc010mys.1_Silent_p.N21N	NM_178001	NP_821068	Q15257	PTPA_HUMAN	protein phosphatase 2A, regulatory subunit B'	56					ATP catabolic process|negative regulation of phosphoprotein phosphatase activity|negative regulation of protein dephosphorylation|positive regulation of apoptosis|positive regulation of phosphoprotein phosphatase activity|positive regulation of protein dephosphorylation	calcium channel complex|cytoplasm|nucleus|protein phosphatase type 2A complex|soluble fraction	ATP binding|peptidyl-prolyl cis-trans isomerase activity|protein heterodimerization activity|protein homodimerization activity|protein phosphatase 2A binding|protein phosphatase type 2A regulator activity|protein tyrosine phosphatase activator activity|receptor binding			ovary(1)|lung(1)|pancreas(1)	3		Medulloblastoma(224;0.235)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)		TTACCCTCAACGAAGGTGTGA	0.572													51	169					0	0	1	0	0		T	131885369	T	T	131885369	2	4	84	1	0	0	0	0	0	0	0	1	12413	535	19	1		1	PPP2R4	9	131885369	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	900584	131885369	9328062	691	52534											
LAMC3	10319	broad.mit.edu	37	chr9	133901811	133901811	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcctgccagaagacctaCggccggcccgagggccagta	8	4	13	16	3	0	2	0	0	0	2	1	3	1	2	7	3	2	1	7	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:133901811C>T	uc004caa.1	+	2	611	c.513C>T	c.(511-513)TAC>TAT	p.Y171Y		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	171	Laminin N-terminal.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		AGAAGACCTACGGCCGGCCCG	0.677													22	72					0	0	1	0	0		T	133901811	T	T	133901811	2	4	84	1	0	0	0	0	0	0	0	1	8632	547	19	1		1	LAMC3	9	133901811	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2016442	133901811	7311620	692	52535											
BAT2L1	84726	broad.mit.edu	37	chr9	134360159	134360159	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaatgtccttccccacCgccgaccttactctgaaggt	7	10	6	18	2	1	1	0	1	1	0	4	2	4	1	8	1	1	0	8	1	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:134360159C>T	uc004can.3	+	23	5602	c.5547C>T	c.(5545-5547)ACC>ACT	p.T1849T	BAT2L1_uc004cao.3_Silent_p.T1206T|BAT2L1_uc004cap.3_5'Flank|SNORD62A_uc004caq.2_5'Flank	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1849							protein binding				0						CCTTCCCCACCGCCGACCTTA	0.602													60	139					0	0	1	0	0		T	134360159	T	T	134360159	2	4	84	1	0	0	0	0	0	0	0	1	1321	639	23	1		1	BAT2L1	9	134360159	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	458348	134360159	6853272	693	52536											
GTF3C4	9329	broad.mit.edu	37	chr9	135553584	135553584	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggacaatcgcctgaccaTccaggcaaatctcaacagac	14	6	7	14	1	1	2	1	1	1	1	4	3	2	3	3	2	1	1	3	2	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:135553584T>C	uc010mzv.2	+	2	836	c.578T>C	c.(577-579)ATC>ACC	p.I193T	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	193					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		CGCCTGACCATCCAGGCAAAT	0.507													31	68					0	0	1	0	0		C	135553584	C	C	135553584	3	2	84	1	0	0	0	0	1	0	0	0	6891	1435	50	3	584	3	GTF3C4	9	135553584	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1193425	135553584	5659847	694	52537											
C9orf98	158067	broad.mit.edu	37	chr9	135739050	135739050	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtccccggggccagtcctAccttcctttgcagataaagc	7	10	9	15	1	0	1	0	0	0	1	3	1	3	1	6	2	3	1	6	2	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:135739050A>G	uc004cbu.1	-	4	889	c.333_splice	c.e4+1	p.K111_splice	C9orf98_uc010mzx.1_Splice_Site|C9orf98_uc004cbv.1_Splice_Site	NM_152572	NP_689785	Q96MA6	KAD8_HUMAN	putative adenylate kinase-like protein C9orf98							cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;4.89e-06)|Epithelial(140;0.00016)		GGCCAGTCCTACCTTCCTTTG	0.522													5	27					0	0	1	0	0		G	135739050	G	G	135739050	5	3	84	1	0	0	0	0	0	0	1	0	2512	405	14	3	1144	3	C9orf98	9	135739050	Splice_Site	SNP	A	TCGA-BR-8591-01A-11D-2394-08	185466	135739050	5474381	695	52538											
ADAMTSL2	9719	broad.mit.edu	37	chr9	136406014	136406014	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcccatcggctgtgaCggggtgcttttctccaccca	5	10	11	15	2	1	1	0	1	1	0	3	1	1	1	3	3	3	3	3	3	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:136406014C>T	uc011mdl.1	+	7	1130	c.573C>T	c.(571-573)GAC>GAT	p.D191D	ADAMTSL2_uc004cei.2_Silent_p.D191D	NM_001145320	NP_001138792	Q86TH1	ATL2_HUMAN	ADAMTS-like 2 precursor	191					negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;9.31e-08)|Epithelial(140;6.62e-07)|all cancers(34;7.74e-06)		TCGGCTGTGACGGGGTGCTTT	0.687													12	40					0	0	1	0	0		T	136406014	T	T	136406014	2	4	84	1	0	0	0	0	0	0	0	1	275	535	19	1		1	ADAMTSL2	9	136406014	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	666964	136406014	4807417	696	52539											
SARDH	1757	broad.mit.edu	37	chr9	136594912	136594912	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctcgatgcgctcggtgAcgacataggcatggtgcatg	7	9	13	12	4	0	1	0	1	0	0	3	3	1	1	2	3	2	3	2	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:136594912A>G	uc004cep.3	-	6	1024	c.890T>C	c.(889-891)GTC>GCC	p.V297A	SARDH_uc004ceo.2_Missense_Mutation_p.V297A|SARDH_uc011mdn.1_Missense_Mutation_p.V297A|SARDH_uc011mdo.1_Missense_Mutation_p.V129A	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	297					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		GCGCTCGGTGACGACATAGGC	0.507													23	76					0	0	1	0	0		G	136594912	G	G	136594912	3	3	84	1	0	0	0	0	1	0	0	0	13866	275	10	3	1930	3	SARDH	9	136594912	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	188898	136594912	4618519	697	52540											
KIAA0649	9858	broad.mit.edu	37	chr9	138377333	138377333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagccggcaaccccctgccGcccttcagaagcagcacaga	11	3	10	17	2	1	2	1	0	0	2	1	3	1	2	5	1	5	3	5	1	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:138377333G>A	uc004cfr.1	+	4	1526	c.977G>A	c.(976-978)CGC>CAC	p.R326H		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	326						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		ACCCCCTGCCGCCCTTCAGAA	0.622													25	91					0	0	1	0	0		A	138377333	A	A	138377333	3	1	84	1	0	0	0	0	1	0	0	0	8203	1087	38	1	979	1	KIAA0649	9	138377333	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1782421	138377333	2836098	698	52541											
C9orf116	138162	broad.mit.edu	37	chr9	138387292	138387292	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaatcgcagatggatggcCtgttgatgttgtaactgggg	8	12	14	7	1	1	2	1	1	0	1	2	3	1	3	1	4	1	4	1	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:138387292C>A	uc004cft.1	-	3	456	c.392G>T	c.(391-393)AGG>ATG	p.R131M	C9orf116_uc004cfs.1_3'UTR|C9orf116_uc004cfu.1_RNA	NM_001048265	NP_001041730	Q5BN46	CI116_HUMAN	hypothetical protein LOC138162 isoform 1	131											0				OV - Ovarian serous cystadenocarcinoma(145;7.39e-08)|Epithelial(140;5.19e-07)|all cancers(34;1.04e-05)		GATGGATGGCCTGTTGATGTT	0.547													29	68					3.80469e-20	4.28151e-20	1	1	0		A	138387292	A	A	138387292	3	1	84	1	0	0	0	0	1	0	0	0	2453	681	24	5	22	5	C9orf116	9	138387292	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	9959	138387292	2826139	699	52542											
NOTCH1	4851	broad.mit.edu	37	chr9	139400304	139400304	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgccgcaggtacgagcGtcattctcacacgtggcgcc	7	7	13	14	5	2	0	2	0	1	0	3	1	2	0	2	3	3	3	2	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:139400304G>A	uc004chz.2	-	25	4044	c.4044C>T	c.(4042-4044)GAC>GAT	p.D1348D	NOTCH1_uc004cia.1_Silent_p.D578D	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1348	Extracellular (Potential).|EGF-like 35.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		AGGTACGAGCGTCATTCTCAC	0.736			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			6	20					0	0	1	0	0		A	139400304	A	A	139400304	2	1	84	1	0	0	0	0	0	0	0	1	10566	1136	40	1		1	NOTCH1	9	139400304	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1013012	139400304	1813127	700	52543											
AGPAT2	10555	broad.mit.edu	37	chr9	139571443	139571443	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accatgcgctcgcccaggtcGgccatcactgtcatggcagt	7	8	11	15	3	2	0	2	0	0	0	4	0	2	0	3	3	1	2	3	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:139571443G>A	uc004cii.1	-	3	564	c.462C>T	c.(460-462)GCC>GCT	p.A154A	AGPAT2_uc004cij.1_Silent_p.A154A	NM_006412	NP_006403	O15120	PLCB_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 2	154					phosphatidic acid biosynthetic process|positive regulation of cytokine production|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0	all_cancers(76;0.0893)|all_epithelial(76;0.231)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.87e-06)|Epithelial(140;0.000123)		CGCCCAGGTCGGCCATCACTG	0.687													37	100					0	0	1	0	0		A	139571443	A	A	139571443	2	1	84	1	0	0	0	0	0	0	0	1	387	1103	39	1		1	AGPAT2	9	139571443	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	171139	139571443	1641988	701	52544											
FAM69B	138311	broad.mit.edu	37	chr9	139617494	139617494	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gacttcaacaaggacaaccgGgtgtccctggcggaagccaa	12	5	12	12	2	1	0	1	0	0	0	2	3	2	2	3	4	3	0	3	4	5	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:139617494G>A	uc004cik.2	+	5	658	c.564G>A	c.(562-564)CGG>CGA	p.R188R	FAM69B_uc004cil.2_Silent_p.R101R|SNHG7_uc004cim.2_RNA	NM_152421	NP_689634	Q5VUD6	FA69B_HUMAN	hypothetical protein LOC138311	188	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.03e-05)|Epithelial(140;0.00013)		AGGACAACCGGGTGTCCCTGG	0.637													19	50					0	0	1	0	0		A	139617494	A	A	139617494	2	1	84	1	0	0	0	0	0	0	0	1	5617	1219	43	4		4	FAM69B	9	139617494	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	46051	139617494	1595937	702	52545											
C9orf86	55684	broad.mit.edu	37	chr9	139726255	139726255	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgggaaactaccgggacatgGgcgagcaccgagtcatcctg	10	6	14	11	3	1	0	1	0	0	0	2	4	2	2	3	3	3	1	3	3	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:139726255G>A	uc004cji.1	+	6	809	c.541G>A	c.(541-543)GGC>AGC	p.G181S	C9orf86_uc004cjm.2_Missense_Mutation_p.G181S|C9orf86_uc004cjh.2_Missense_Mutation_p.G181S|C9orf86_uc004cjj.1_Missense_Mutation_p.G181S|C9orf86_uc004cjk.1_RNA|C9orf86_uc010nbr.1_Missense_Mutation_p.G181S|C9orf86_uc004cjl.1_RNA|C9orf86_uc010nbs.1_Missense_Mutation_p.G66S	NM_024718	NP_078994	Q3YEC7	PARF_HUMAN	Rab-like GTP-binding protein 1 isoform 1	181	Small GTPase-like.				small GTPase mediated signal transduction	cytoplasm|nucleus	GTP binding|protein binding				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.61e-05)|Epithelial(140;0.000183)		CCGGGACATGGGCGAGCACCG	0.632													21	52					0	0	1	0	0		A	139726255	A	A	139726255	3	1	84	1	0	0	0	0	1	0	0	0	2505	1232	43	4	563	4	C9orf86	9	139726255	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	108761	139726255	1487176	703	52546											
ABCA2	20	broad.mit.edu	37	chr9	139910762	139910762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catggtggtggtcttgcccgCcccgttgtggcccaagaagg	5	9	15	12	2	1	1	0	0	1	1	1	1	1	1	4	5	1	1	4	5	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:139910762C>T	uc011mem.1	-	20	3230	c.3082G>A	c.(3082-3084)GCG>ACG	p.A1028T	ABCA2_uc011mel.1_Missense_Mutation_p.A1029T|ABCA2_uc004ckl.1_Missense_Mutation_p.A959T|ABCA2_uc004ckm.1_Missense_Mutation_p.A1059T|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1028	ABC transporter 1.|ATP 1 (Potential).				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GTCTTGCCCGCCCCGTTGTGG	0.622													17	34					0	0	1	0	0		T	139910762	T	T	139910762	3	4	84	1	0	0	0	0	1	0	0	0	32	739	26	2	4341	2	ABCA2	9	139910762	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	184507	139910762	1302669	704	52547											
GRIN1	2902	broad.mit.edu	37	chr9	140055866	140055866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaagttcggcacacaggagCgggtaggctggacggcgggg	8	4	20	9	4	0	0	0	0	0	0	1	2	0	2	0	8	1	5	0	8	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:140055866C>T	uc004clk.2	+	10	1795	c.1465C>T	c.(1465-1467)CGG>TGG	p.R489W	GRIN1_uc004cli.1_Missense_Mutation_p.R164W|GRIN1_uc004clj.1_Missense_Mutation_p.R486W|GRIN1_uc004cll.2_Missense_Mutation_p.R489W|GRIN1_uc004clm.2_Missense_Mutation_p.R489W|GRIN1_uc004cln.2_Missense_Mutation_p.R507W|GRIN1_uc004clo.2_Missense_Mutation_p.R507W	NM_007327	NP_015566	Q05586	NMDZ1_HUMAN	NMDA receptor 1 isoform NR1-3 precursor	489	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|regulation of excitatory postsynaptic membrane potential|response to ethanol|visual learning	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane|synaptic vesicle|synaptosome	calcium ion binding|calmodulin binding|extracellular-glutamate-gated ion channel activity|glutamate binding|glycine binding			skin(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;6.87e-05)|Epithelial(140;0.00095)	L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	CACACAGGAGCGGGTAGGCTG	0.652													4	21					0	0	1	0	0		T	140055866	T	T	140055866	3	4	84	1	0	0	0	0	1	0	0	0	6794	759	27	1	1570	1	GRIN1	9	140055866	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	145104	140055866	1157565	705	52548											
SLC34A3	142680	broad.mit.edu	37	chr9	140127764	140127764	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctggagaggctaagtgagCtagccctgggtgccgccagc	7	7	16	11	1	0	2	0	1	0	1	0	3	0	2	3	3	5	3	3	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:140127764C>T	uc004cmf.1	+	7	850	c.664C>T	c.(664-666)CTA>TTA	p.L222L	SLC34A3_uc004cmc.1_Silent_p.L79L|SLC34A3_uc004cmd.1_Silent_p.L222L|SLC34A3_uc011met.1_Silent_p.L222L	NM_080877	NP_543153	Q8N130	NPT2C_HUMAN	solute carrier family 34 (sodium phosphate),	222	Extracellular (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|integral to membrane	sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GCTAAGTGAGCTAGCCCTGGG	0.657													7	10					0	0	1	0	0		T	140127764	T	T	140127764	2	4	84	1	0	0	0	0	0	0	0	1	14594	796	28	2		2	SLC34A3	9	140127764	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	71898	140127764	1085667	706	52549											
FAM166A	401565	broad.mit.edu	37	chr9	140140252	140140252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagcagctgccccgtggtaCgcccataggtgttccccacc	6	8	11	16	2	0	1	0	1	0	0	1	1	1	1	6	2	4	4	6	2	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:140140252C>T	uc004cmi.1	-	2	165	c.110G>A	c.(109-111)CGT>CAT	p.R37H		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	37										ovary(1)	1						CCCCGTGGTACGCCCATAGGT	0.612													13	50					0	0	1	0	0		T	140140252	T	T	140140252	3	4	84	1	0	0	0	0	1	0	0	0	5492	536	19	1	867	1	FAM166A	9	140140252	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	12488	140140252	1073179	707	52550											
PNPLA7	375775	broad.mit.edu	37	chr9	140400150	140400150	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccagggtctcatccgtGtgactctctgagtgctggga	5	11	14	11	1	2	2	1	2	2	0	5	3	3	3	2	3	1	1	2	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:140400150G>A	uc004cnf.2	-	13	1651	c.1314C>T	c.(1312-1314)CAC>CAT	p.H438H	C9orf167_uc011mew.1_Intron|PNPLA7_uc011mfa.1_Intron|PNPLA7_uc010ncj.1_Silent_p.H463H	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	438				FLHSDEHPGSSVASKSRKSVMVAEIPSTVSQHSESHTDETL ASRKSDAIFRAAKKDLLTLMKLEDSSLLDG -> LCLLPQC LGGLPPTDTSVYSSASSDCCGCSMPVLCIMGHKPHVTVDT (in Ref. 1; BAC86509).	lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		TCTCATCCGTGTGACTCTCTG	0.577													50	115					0	0	1	0	0		A	140400150	A	A	140400150	2	1	84	1	0	0	0	0	0	0	0	1	12189	1368	48	4		4	PNPLA7	9	140400150	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	259898	140400150	813281	708	52551											
PNPLA7	375775	broad.mit.edu	37	chr9	140416106	140416106	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcgttgaagagctctgtGgtcaggccgaggtagttgtg	8	10	16	7	2	2	2	1	1	1	1	2	3	2	2	1	3	2	4	1	3	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:140416106G>T	uc004cnf.2	-	9	1201	c.864C>A	c.(862-864)ACC>ACA	p.T288T	PNPLA7_uc011mfa.1_Silent_p.T19T|PNPLA7_uc010ncj.1_Silent_p.T313T	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	288					lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		AGAGCTCTGTGGTCAGGCCGA	0.597													15	80					6.31663e-08	6.73825e-08	1	1	0		T	140416106	T	T	140416106	2	4	84	1	0	0	0	0	0	0	0	1	12189	1335	47	5		5	PNPLA7	9	140416106	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	15956	140416106	797325	709	52552											
EHMT1	79813	broad.mit.edu	37	chr9	140611266	140611266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacacactaactcggataGcggaaaatggggtttcagaa	15	7	10	9	2	1	1	1	0	0	1	2	3	1	3	1	4	3	1	1	4	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:140611266G>A	uc011mfc.1	+	3	311	c.274G>A	c.(274-276)GCG>ACG	p.A92T	EHMT1_uc004coa.2_Missense_Mutation_p.A92T|EHMT1_uc004cob.1_Missense_Mutation_p.A61T	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	92					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		AACTCGGATAGCGGAAAATGG	0.527													36	94					0	0	1	0	0		A	140611266	A	A	140611266	3	1	84	1	0	0	0	0	1	0	0	0	4989	971	34	2	284	2	EHMT1	9	140611266	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	195160	140611266	602165	710	52553											
CACNA1B	774	broad.mit.edu	37	chr9	141016165	141016165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagagagaccccctcaGccagcccctggcccctggct	6	5	11	19	0	1	2	1	0	0	2	1	3	1	2	7	2	3	3	7	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr9:141016165G>A	uc004cog.2	+	46	6879	c.6734G>A	c.(6733-6735)AGC>AAC	p.S2245N	CACNA1B_uc004coi.2_Missense_Mutation_p.S1457N	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	2245	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	GACCCCCTCAGCCAGCCCCTG	0.672													25	60					0	0	1	0	0		A	141016165	A	A	141016165	3	1	84	1	0	0	0	0	1	0	0	0	2542	971	34	2	6916	2	CACNA1B	9	141016165	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	404899	141016165	197266	711	52554											
LARP4B	23185	broad.mit.edu	37	chr10	860914	860914	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgagctggggagggggatcGctcgtacgttgctgatacag	8	9	17	7	3	0	2	0	2	0	0	2	4	0	4	0	4	4	5	0	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:860914G>A	uc001ifs.1	-	15	1833	c.1792C>T	c.(1792-1794)CGA>TGA	p.R598*		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	598							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						GAGGGGGATCGCTCGTACGTT	0.547													17	60					0	0	1	0	0		A	860914	A	A	860914	4	1	84	1	0	0	0	0	0	1	0	0	8647	1095	38	1	436	1	LARP4B	10	860914	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08		860914	134673833	712	52555											
SFMBT2	57713	broad.mit.edu	37	chr10	7213935	7213935	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggcgccccgcggcccctTcgtgtcctctctgggggtgg	0	8	16	17	5	1	0	0	0	1	0	4	0	2	0	6	5	0	0	6	5	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:7213935T>C	uc009xio.1	-	19	2428	c.2337A>G	c.(2335-2337)CGA>CGG	p.R779R	SFMBT2_uc001ijn.1_Silent_p.R779R|SFMBT2_uc010qay.1_Silent_p.R614R	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	779					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						CGCGGCCCCTTCGTGTCCTCT	0.756													5	14					0	0	1	0	0		C	7213935	C	C	7213935	2	2	84	1	0	0	0	0	0	0	0	1	14183	1770	62	3		3	SFMBT2	10	7213935	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	6353021	7213935	128320812	713	52556											
ITIH2	3698	broad.mit.edu	37	chr10	7774331	7774331	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agttagtcttggagaccctgGcccagatggacgacttgcag	9	9	13	10	1	1	2	0	0	1	2	1	5	1	3	2	3	1	2	2	3	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:7774331G>T	uc001ijs.2	+	14	1840	c.1678G>T	c.(1678-1680)GCC>TCC	p.A560S		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	560					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						GGAGACCCTGGCCCAGATGGA	0.448													13	45					0.000151284	0.000156124	1	1	0		T	7774331	T	T	7774331	3	4	84	1	0	0	0	0	1	0	0	0	7920	1203	42	5	1732	5	ITIH2	10	7774331	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	560396	7774331	127760416	714	52557											
CCDC3	83643	broad.mit.edu	37	chr10	13040383	13040383	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcactggagaaagtcgccagCtgctgcccttgcgaacagtt	9	9	11	12	2	1	1	1	0	0	1	2	3	1	1	2	1	5	3	2	1	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:13040383C>A	uc001ilq.1	-	2	638	c.504G>T	c.(502-504)CAG>CAT	p.Q168H	CCDC3_uc009xjb.1_Intron|CCDC3_uc001ilr.2_RNA|CCDC3_uc009xjc.1_Intron	NM_031455	NP_113643	Q9BQI4	CCDC3_HUMAN	coiled-coil domain containing 3 precursor	168						endoplasmic reticulum|extracellular region				ovary(1)	1		Ovarian(717;0.0822)	BRCA - Breast invasive adenocarcinoma(52;0.163)			AAGTCGCCAGCTGCTGCCCTT	0.458													22	60					1.50039e-11	1.6397e-11	1	1	0		A	13040383	A	A	13040383	3	1	84	1	0	0	0	0	1	0	0	0	2807	796	28	5	316	5	CCDC3	10	13040383	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5266052	13040383	122494364	715	52558											
NMT2	9397	broad.mit.edu	37	chr10	15161388	15161388	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcccgggggaggaaccagTgggctacttcctcttcatcc	6	9	12	14	1	2	0	1	0	1	0	5	2	5	2	4	4	2	2	4	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:15161388T>G	uc001inz.1	-	9	1208	c.1124A>C	c.(1123-1125)CAC>CCC	p.H375P	NMT2_uc001ioa.1_Missense_Mutation_p.H362P|NMT2_uc009xjo.1_Missense_Mutation_p.H375P|NMT2_uc010qbz.1_Missense_Mutation_p.H187P	NM_004808	NP_004799	O60551	NMT2_HUMAN	N-myristoyltransferase 2	375					N-terminal protein myristoylation|protein lipoylation	Golgi apparatus|plasma membrane	glycylpeptide N-tetradecanoyltransferase activity			ovary(1)	1						GAGGAACCAGTGGGCTACTTC	0.368													26	110					0	0	1	0	0		G	15161388	G	G	15161388	3	3	84	1	0	0	0	0	1	0	0	0	10523	1696	59	5	388	5	NMT2	10	15161388	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2121005	15161388	120373359	716	52559											
ITGA8	8516	broad.mit.edu	37	chr10	15760807	15760807	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgcactgcgcagacccctCcgcgggccaaggacagtaat	9	5	11	16	3	0	1	0	0	0	1	1	2	1	2	5	2	2	3	5	2	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:15760807C>A	uc001ioc.1	-	2	301	c.301G>T	c.(301-303)GAG>TAG	p.E101*	ITGA8_uc010qcb.1_Nonsense_Mutation_p.E101*	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	101	Extracellular (Potential).|FG-GAP 1.				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						GCAGACCCCTCCGCGGGCCAA	0.587													41	146					4.67007e-22	5.26895e-22	1	1	0		A	15760807	A	A	15760807	4	1	84	1	0	0	0	0	0	1	0	0	7898	864	30	5	3006	5	ITGA8	10	15760807	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	599419	15760807	119773940	717	52560											
CACNB2	783	broad.mit.edu	37	chr10	18803225	18803225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatattccagcaaaccaccGctcccctaaacccagtgcaa	13	7	5	16	1	0	1	0	1	0	0	2	1	2	1	6	0	4	3	6	0	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:18803225G>A	uc001ipr.2	+	7	791	c.731G>A	c.(730-732)CGC>CAC	p.R244H	CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Intron|CACNB2_uc001ipt.2_Intron|CACNB2_uc010qcl.1_Intron|CACNB2_uc001ipu.2_Missense_Mutation_p.R216H|CACNB2_uc001ipv.2_Intron|CACNB2_uc009xka.1_Intron|CACNB2_uc001ipw.2_Intron|CACNB2_uc001ipx.2_Missense_Mutation_p.R189H|CACNB2_uc009xkb.1_Intron|CACNB2_uc010qcm.1_Missense_Mutation_p.R190H|CACNB2_uc001ipz.2_Intron|CACNB2_uc001ipy.2_Missense_Mutation_p.R190H|CACNB2_uc010qcn.1_Intron|CACNB2_uc010qco.1_Intron|CACNB2_uc001iqa.2_Missense_Mutation_p.R196H|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	244					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GCAAACCACCGCTCCCCTAAA	0.428													25	47					0	0	1	0	0		A	18803225	A	A	18803225	3	1	84	1	0	0	0	0	1	0	0	0	2556	1087	38	1	977	1	CACNB2	10	18803225	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3042418	18803225	116731522	718	52561											
KIAA1217	56243	broad.mit.edu	37	chr10	24508698	24508698	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagacacaccctaggggggCcccgaagttccaaggaaata	13	4	13	11	1	0	1	0	0	0	1	1	4	1	2	4	5	0	1	4	5	5	3	rs145488505		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:24508698C>G	uc001iru.3	+	2	617	c.214C>G	c.(214-216)CCC>GCC	p.P72A	KIAA1217_uc001irs.2_5'UTR|KIAA1217_uc001irt.3_Missense_Mutation_p.P72A|KIAA1217_uc010qcy.1_Missense_Mutation_p.P72A|KIAA1217_uc010qcz.1_Missense_Mutation_p.P72A	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	72					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						CCTAGGGGGGCCCCGAAGTTC	0.512													22	60					0	0	1	0	0		G	24508698	G	G	24508698	3	3	84	1	0	0	0	0	1	0	0	0	8232	739	26	5	220	5	KIAA1217	10	24508698	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5705473	24508698	111026049	719	52562											
YME1L1	10730	broad.mit.edu	37	chr10	27411773	27411773	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaagactcaattacccaTccatttcagcaagaagttga	17	9	6	9	0	2	4	2	1	0	3	3	4	3	4	2	0	2	2	2	0	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:27411773T>C	uc001iti.2	-	12	1585	c.1403A>G	c.(1402-1404)GAT>GGT	p.D468G	YME1L1_uc001itj.2_Missense_Mutation_p.D411G|YME1L1_uc010qdl.1_Missense_Mutation_p.D378G|YME1L1_uc009xkv.2_Intron	NM_139312	NP_647473	Q96TA2	YMEL1_HUMAN	YME1-like 1 isoform 1	468					protein catabolic process|proteolysis	membrane|mitochondrion	ATP binding|metal ion binding|metalloendopeptidase activity|nucleoside-triphosphatase activity			ovary(1)	1						CAATTACCCATCCATTTCAGC	0.338													19	55					0	0	1	0	0		C	27411773	C	C	27411773	3	2	84	1	0	0	0	0	1	0	0	0	17513	1435	50	3	954	3	YME1L1	10	27411773	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2903075	27411773	108122974	720	52563											
FZD8	8325	broad.mit.edu	37	chr10	35929556	35929556	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgctcgtcctggctgaaaaAggggttgtggcagggcagcg	7	7	18	9	3	0	1	0	1	0	0	2	1	1	1	1	5	1	5	1	5	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:35929556A>G	uc001iyz.1	-	1	807	c.802T>C	c.(802-804)TTT>CTT	p.F268L		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	268	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						TGGCTGAAAAAGGGGTTGTGG	0.637													21	62					0	0	1	0	0		G	35929556	G	G	35929556	3	3	84	1	0	0	0	0	1	0	0	0	6150	72	3	3	1286	3	FZD8	10	35929556	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	8517783	35929556	99605191	721	52564											
FRMPD2	143162	broad.mit.edu	37	chr10	49420083	49420083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaacctggacccgtagagCggtcatcctctcgatcagac	9	9	9	14	3	4	2	3	0	1	2	6	4	5	3	3	2	2	1	3	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:49420083C>T	uc001jgi.2	-	13	1632	c.1525G>A	c.(1525-1527)GCT>ACT	p.A509T	FRMPD2_uc001jgh.2_Missense_Mutation_p.A477T|FRMPD2_uc001jgj.2_Missense_Mutation_p.A487T	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	509	FERM.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		ACCCGTAGAGCGGTCATCCTC	0.532													16	38					0	0	1	0	0		T	49420083	T	T	49420083	3	4	84	1	0	0	0	0	1	0	0	0	6072	768	27	1	2472	1	FRMPD2	10	49420083	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	13490527	49420083	86114664	722	52565											
PRKG1	5592	broad.mit.edu	37	chr10	52751304	52751304	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccctcgacccacatcggcCcccggaccacccgggcgcag	6	3	11	21	5	0	0	0	0	0	0	2	2	0	1	6	3	1	1	6	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:52751304C>A	uc001jjm.2	+	1	360	c.166C>A	c.(166-168)CCC>ACC	p.P56T	PRKG1_uc010qhp.1_Missense_Mutation_p.P56T	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	56	Dimerization.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		CCACATCGGCCCCCGGACCAC	0.617													9	12					0.00829132	0.00842185	1	1	0		A	52751304	A	A	52751304	3	1	84	1	0	0	0	0	1	0	0	0	12544	623	22	5	168	5	PRKG1	10	52751304	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3331221	52751304	82783443	723	52566											
PHYHIPL	84457	broad.mit.edu	37	chr10	60996388	60996388	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgattatgttgtgtctgaatGgagtgaaattatagaattct	12	17	10	2	0	2	4	0	3	2	1	2	5	2	5	0	1	0	1	0	1	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:60996388G>A	uc001jkk.3	+	3	715	c.449G>A	c.(448-450)TGG>TAG	p.W150*	PHYHIPL_uc001jkl.3_Nonsense_Mutation_p.W104*|PHYHIPL_uc001jkm.3_Nonsense_Mutation_p.W124*	NM_032439	NP_115815	Q96FC7	PHIPL_HUMAN	phytanoyl-CoA 2-hydroxylase interacting	150	Fibronectin type-III.										0						GTGTCTGAATGGAGTGAAATT	0.373													19	54					0	0	1	0	0		A	60996388	A	A	60996388	4	1	84	1	0	0	0	0	0	1	0	0	11886	1357	47	4	491	4	PHYHIPL	10	60996388	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	8245084	60996388	74538359	724	52567											
ANK3	288	broad.mit.edu	37	chr10	61868786	61868786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcatggagccccctctcGcgtccaccataaagctaacc	9	8	6	18	2	2	0	1	0	2	0	5	1	3	1	5	1	3	1	5	1	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:61868786G>A	uc001jky.2	-	27	3167	c.2975C>T	c.(2974-2976)GCG>GTG	p.A992V	ANK3_uc001jkw.2_Missense_Mutation_p.A126V|ANK3_uc009xpa.2_Missense_Mutation_p.A126V|ANK3_uc001jkx.2_Missense_Mutation_p.A170V|ANK3_uc010qih.1_Missense_Mutation_p.A993V|ANK3_uc001jkz.3_Missense_Mutation_p.A986V|ANK3_uc001jla.1_Missense_Mutation_p.A58V|ANK3_uc001jlb.1_Missense_Mutation_p.A510V	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	992	ZU5.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GCCCCCTCTCGCGTCCACCAT	0.507													13	51					0	0	1	0	0		A	61868786	A	A	61868786	3	1	84	1	0	0	0	0	1	0	0	0	622	1087	38	1	10539	1	ANK3	10	61868786	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	872398	61868786	73665961	725	52568											
LRRTM3	347731	broad.mit.edu	37	chr10	68687080	68687080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagacctgtgacaaatttaCggaacttggatctgtcctat	11	13	8	9	1	2	2	1	1	1	1	3	4	3	4	2	2	2	0	2	2	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:68687080C>T	uc001jmz.1	+	2	956	c.406C>T	c.(406-408)CGG>TGG	p.R136W	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.R136W	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	136	Extracellular (Potential).|LRR 4.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GACAAATTTACGGAACTTGGA	0.408													45	104					0	0	1	0	0		T	68687080	T	T	68687080	3	4	84	1	0	0	0	0	1	0	0	0	9059	527	19	1	412	1	LRRTM3	10	68687080	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	6818294	68687080	66847667	726	52569											
ADAMTS14	140766	broad.mit.edu	37	chr10	72462141	72462141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggccagcaggagaaggaggCcagcgggaggacacatgtgg	11	2	20	8	1	0	1	0	0	0	1	0	5	0	4	2	7	2	1	2	7	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:72462141C>T	uc001jrh.2	+	3	596	c.596C>T	c.(595-597)GCC>GTC	p.A199V	ADAMTS14_uc001jrg.2_Missense_Mutation_p.A199V	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	199					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						GAGAAGGAGGCCAGCGGGAGG	0.647													30	76					0	0	1	0	0		T	72462141	T	T	72462141	3	4	84	1	0	0	0	0	1	0	0	0	259	739	26	2	606	2	ADAMTS14	10	72462141	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3775061	72462141	63072606	727	52570											
CDH23	64072	broad.mit.edu	37	chr10	73270887	73270887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgccaggtgatcacacGgaaggtgaacatccaggttg	10	9	12	10	1	2	2	1	2	1	0	3	3	3	3	2	4	2	1	2	4	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:73270887G>A	uc001jrx.3	+	6	724	c.347G>A	c.(346-348)CGG>CAG	p.R116Q	CDH23_uc001jrw.3_Missense_Mutation_p.R116Q|CDH23_uc001jrv.2_Missense_Mutation_p.R111Q|CDH23_uc009xql.2_Missense_Mutation_p.R161Q	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	116	Cadherin 1.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GTGATCACACGGAAGGTGAAC	0.577													38	131					0	0	1	0	0		A	73270887	A	A	73270887	3	1	84	1	0	0	0	0	1	0	0	0	3111	1116	39	1	365	1	CDH23	10	73270887	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	808746	73270887	62263860	728	52571											
CDH23	64072	broad.mit.edu	37	chr10	73501453	73501453	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctgctctcctcccagaaCgtgggtggaggtactgctgt	5	11	12	13	1	1	1	0	0	1	1	4	2	3	2	3	3	4	3	3	3	2	1	rs111033490		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:73501453C>T	uc001jrx.3	+	36	4997	c.4620C>T	c.(4618-4620)AAC>AAT	p.N1540N	CDH23_uc001jsc.1_Silent_p.N347N	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1540	Cadherin 15.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CCTCCCAGAACGTGGGTGGAG	0.587													3	13					0	0	1	0	0		T	73501453	T	T	73501453	2	4	84	1	0	0	0	0	0	0	0	1	3111	535	19	1		1	CDH23	10	73501453	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	230566	73501453	62033294	729	52572											
PPP3CB	5532	broad.mit.edu	37	chr10	75255610	75255615	+	In_Frame_Del	DEL	GGGGGC	-	-																															ggggcggcgggggcgggggtGggggcggtgcagcccgggcc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:75255610_75255615delGGGGGC	uc001jue.2	-	1	168_173	c.33_38delGCCCCC	c.(31-39)CCGCCCCCA>CCA	p.11_13PPP>P	PPP3CB_uc001juf.2_In_Frame_Del_p.11_13PPP>P|PPP3CB_uc001jug.2_In_Frame_Del_p.11_13PPP>P|PPP3CB_uc001jui.2_In_Frame_Del_p.11_13PPP>P|PPP3CB_uc001juh.2_5'UTR|uc001juj.2_Intron	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	11_13	Catalytic.|Poly-Pro.									skin(1)	1	Prostate(51;0.0119)					gggcgggggtgggggcggTGCAGCCC	0.67													9	1	---	---	---	---						.	-	75255615	-	-	75255610	7	5	84	1	0	1	0	1	0	0	0	0	12420	1348	47	0	1595	0	PPP3CB	10	75255610	In_Frame_Del	DEL	GGGGGC	TCGA-BR-8591-01A-11D-2394-08	1754157	75255610	60279137	730	52573											
SYNPO2L	79933	broad.mit.edu	37	chr10	75407024	75407024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgaatatttccaggaaggggGcagagacggggtaggagaag	13	6	18	4	1	0	3	0	1	0	2	1	6	1	4	1	6	0	2	1	6	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:75407024G>A	uc001jut.3	-	4	2538	c.2386C>T	c.(2386-2388)CCC>TCC	p.P796S	SYNPO2L_uc001jus.3_Missense_Mutation_p.P572S	NM_001114133	NP_001107605	Q9H987	SYP2L_HUMAN	synaptopodin 2-like isoform a	796	Pro-rich.					cytoplasm|cytoskeleton	actin binding			ovary(1)	1	Prostate(51;0.0112)					CAGGAAGGGGGCAGAGACGGG	0.602													55	178					0	0	1	0	0		A	75407024	A	A	75407024	3	1	84	1	0	0	0	0	1	0	0	0	15483	1203	42	2	551	2	SYNPO2L	10	75407024	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	151414	75407024	60127723	731	52574											
ZNF503	84858	broad.mit.edu	37	chr10	77158837	77158837	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccgtatgggtccgcaagtgGctcagcagctcttcggacgt	6	9	14	12	4	2	0	1	0	1	0	4	1	3	1	2	3	2	5	2	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:77158837G>A	uc001jxg.2	-	2	1947	c.1611C>T	c.(1609-1611)AGC>AGT	p.S537S	C10orf41_uc010qlf.1_5'Flank	NM_032772	NP_116161	Q96F45	ZN503_HUMAN	zinc finger protein 503	537	C2H2-type.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1	all_cancers(46;0.105)|all_epithelial(25;0.00449)|Prostate(51;0.0112)|Ovarian(15;0.088)					TCCGCAAGTGGCTCAGCAGCT	0.647													13	39					0	0	1	0	0		A	77158837	A	A	77158837	2	1	84	1	0	0	0	0	0	0	0	1	17976	1194	42	2		2	ZNF503	10	77158837	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1751813	77158837	58375910	732	52575											
KCNMA1	3778	broad.mit.edu	37	chr10	78647039	78647039	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatatcaaagccgctcttcCtgcacgtacttctgtttgtc	8	14	6	13	2	3	0	1	0	2	0	5	0	4	0	2	0	3	4	2	0	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:78647039C>A	uc001jxn.2	-	28	3873	c.3696G>T	c.(3694-3696)CAG>CAT	p.Q1232H	KCNMA1_uc001jxj.2_Intron|KCNMA1_uc001jxk.1_Intron|KCNMA1_uc009xrt.1_Intron|KCNMA1_uc001jxl.1_Missense_Mutation_p.Q857H|KCNMA1_uc001jxo.2_Missense_Mutation_p.Q1215H|KCNMA1_uc001jxm.2_Missense_Mutation_p.Q1174H|KCNMA1_uc001jxq.2_Missense_Mutation_p.Q1204H|uc001jxp.2_5'Flank	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1232	Cytoplasmic (Potential).			YVQEERL -> KEMVYR (in Ref. 3; CAI39730/ CAI40870/CAI14074/CAI16162).	cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	GCCGCTCTTCCTGCACGTACT	0.517													22	278					5.35356e-11	5.81778e-11	1	1	0		A	78647039	A	A	78647039	3	1	84	1	0	0	0	0	1	0	0	0	8089	680	24	5	47	5	KCNMA1	10	78647039	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1488202	78647039	56887708	733	52576											
MAT1A	4143	broad.mit.edu	37	chr10	82049113	82049113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgtccctctcccacagactCcgatgtgaacatgaagactc	10	9	8	14	1	1	4	0	2	1	2	5	5	3	4	3	0	1	0	3	0	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:82049113C>T	uc001kbw.2	-	1	322	c.67G>A	c.(67-69)GAG>AAG	p.E23K		NM_000429	NP_000420	Q00266	METK1_HUMAN	methionine adenosyltransferase I, alpha	23					methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0			Colorectal(32;0.229)		L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	CCCACAGACTCCGATGTGAAC	0.488													24	71					0	0	1	0	0		T	82049113	T	T	82049113	3	4	84	1	0	0	0	0	1	0	0	0	9347	864	30	4	1156	4	MAT1A	10	82049113	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3402074	82049113	53485634	734	52577											
PLCE1	51196	broad.mit.edu	37	chr10	95891942	95891942	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcacagatctacaatgcAgtgagaagagaagaaacaga	19	7	9	6	0	2	5	1	1	1	5	2	7	2	5	0	0	3	1	0	0	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:95891942A>G	uc001kjk.2	+	3	1852	c.1218A>G	c.(1216-1218)GCA>GCG	p.A406A	PLCE1_uc010qnx.1_Silent_p.A406A|PLCE1_uc001kjm.2_Silent_p.A98A	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	406					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				TCTACAATGCAGTGAGAAGAG	0.403													14	37					0	0	1	0	0		G	95891942	G	G	95891942	2	3	84	1	0	0	0	0	0	0	0	1	12053	175	7	3		3	PLCE1	10	95891942	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	13842829	95891942	39642805	735	52578											
PLCE1	51196	broad.mit.edu	37	chr10	96006283	96006283	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctaaaatgctcttcagcGgattattggaactcactaga	13	11	8	9	1	3	1	2	0	1	1	3	3	3	3	0	2	4	2	0	2	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:96006283G>A	uc001kjk.2	+	8	3635	c.3001G>A	c.(3001-3003)GGA>AGA	p.G1001R	PLCE1_uc010qnx.1_Missense_Mutation_p.G1001R|PLCE1_uc001kjm.2_Missense_Mutation_p.G693R	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1001					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GCTCTTCAGCGGATTATTGGA	0.473													13	87					0	0	1	0	0		A	96006283	A	A	96006283	3	1	84	1	0	0	0	0	1	0	0	0	12053	1117	39	1	3313	1	PLCE1	10	96006283	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	114341	96006283	39528464	736	52579											
PLCE1	51196	broad.mit.edu	37	chr10	96039636	96039636	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaagatgaggaggacgAatatgattatgactatgaat	17	9	13	2	1	0	6	0	4	0	2	0	10	0	9	0	3	0	0	0	3	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:96039636A>G	uc001kjk.2	+	20	5397	c.4763A>G	c.(4762-4764)GAA>GGA	p.E1588G	PLCE1_uc010qnx.1_Missense_Mutation_p.E1572G|PLCE1_uc001kjm.2_Missense_Mutation_p.E1280G|uc001kjo.1_RNA	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1588					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GAGGAGGACGAATATGATTAT	0.433											OREG0020383	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	52					0	0	1	0	0		G	96039636	G	G	96039636	3	3	84	1	0	0	0	0	1	0	0	0	12053	246	9	3	5123	3	PLCE1	10	96039636	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	33353	96039636	39495111	737	52580											
PIK3AP1	118788	broad.mit.edu	37	chr10	98412547	98412547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaaactctgcttctgtcGccaccctgtcatccagctta	9	11	7	14	1	3	1	1	0	2	1	5	2	4	1	3	0	3	2	3	0	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:98412547G>A	uc001kmq.2	-	4	748	c.620C>T	c.(619-621)GCG>GTG	p.A207V	PIK3AP1_uc001kmp.2_Missense_Mutation_p.A29V	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	207	DBB.					cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		TGCTTCTGTCGCCACCCTGTC	0.507													46	148					0	0	1	0	0		A	98412547	A	A	98412547	3	1	84	1	0	0	0	0	1	0	0	0	11927	1087	38	1	1853	1	PIK3AP1	10	98412547	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2372911	98412547	37122200	738	52581											
LZTS2	84445	broad.mit.edu	37	chr10	102763509	102763509	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccatcagggacgctatcCgactctggccgaaactcact	9	8	9	15	3	3	0	2	0	1	0	4	3	4	1	3	2	2	1	3	2	2	1	rs78785945	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:102763509C>T	uc001ksj.2	+	3	723	c.654C>T	c.(652-654)TCC>TCT	p.S218S	LZTS2_uc010qpw.1_Silent_p.S218S|LZTS2_uc001ksk.2_Silent_p.S218S|LZTS2_uc001ksl.2_Silent_p.S218S|LZTS2_uc001ksm.2_RNA	NM_032429	NP_115805	Q9BRK4	LZTS2_HUMAN	leucine zipper, putative tumor suppressor 2	218	Ser-rich.|Required for centrosomal localization (By similarity).				cell division|mitosis|Wnt receptor signaling pathway	membrane|microtubule|microtubule organizing center				ovary(2)|large_intestine(1)|breast(1)	4				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		GGACGCTATCCGACTCTGGCC	0.552													72	243					0	0	1	0	0		T	102763509	T	T	102763509	2	4	84	1	0	0	0	0	0	0	0	1	9157	639	23	1		1	LZTS2	10	102763509	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4350962	102763509	32771238	739	52582											
NEURL	9148	broad.mit.edu	37	chr10	105344877	105344877	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacggcgagctgcacctcAgccacaatggcgcggccgcc	7	3	13	18	6	1	0	1	0	0	0	1	2	1	0	5	3	3	2	5	3	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:105344877A>G	uc001kxh.2	+	4	1644	c.1234A>G	c.(1234-1236)AGC>GGC	p.S412G		NM_004210	NP_004201	O76050	NEU1A_HUMAN	neuralized-like	412	NHR 2.				nervous system development	perinuclear region of cytoplasm	zinc ion binding				0				Epithelial(162;2.12e-09)|all cancers(201;6.99e-08)|BRCA - Breast invasive adenocarcinoma(275;0.125)		GCTGCACCTCAGCCACAATGG	0.697													3	13					0	0	1	0	0		G	105344877	G	G	105344877	3	3	84	1	0	0	0	0	1	0	0	0	10364	188	7	3	1248	3	NEURL	10	105344877	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2581368	105344877	30189870	740	52583											
ADRB1	153	broad.mit.edu	37	chr10	115804702	115804702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcctcggcggcccagcgCggccgccctcgccctcgccc	1	6	12	22	7	0	0	0	0	0	0	4	0	1	0	6	3	1	1	6	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:115804702C>T	uc001lba.2	+	1	897	c.811C>T	c.(811-813)CGG>TGG	p.R271W		NM_000684	NP_000675	P08588	ADRB1_HUMAN	beta-1-adrenergic receptor	271	Cytoplasmic (By similarity).				positive regulation of cAMP biosynthetic process	integral to plasma membrane	alpha-2A adrenergic receptor binding|beta1-adrenergic receptor activity|protein heterodimerization activity				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0124)|all cancers(201;0.0298)	Acebutolol(DB01193)|Alprenolol(DB00866)|Amiodarone(DB01118)|Arbutamine(DB01102)|Atenolol(DB00335)|Betaxolol(DB00195)|Bevantolol(DB01295)|Bisoprolol(DB00612)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Desipramine(DB01151)|Dobutamine(DB00841)|Dopamine(DB00988)|Epinephrine(DB00668)|Esmolol(DB00187)|Isoetharine(DB00221)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Metoprolol(DB00264)|Nadolol(DB01203)|Norepinephrine(DB00368)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Practolol(DB01297)|Propranolol(DB00571)|Risperidone(DB00734)|Timolol(DB00373)|Ziprasidone(DB00246)	CGGCCCAGCGCGGccgccctc	0.408													5	25					0	0	1	0	0		T	115804702	T	T	115804702	3	4	84	1	0	0	0	0	1	0	0	0	340	759	27	1	813	1	ADRB1	10	115804702	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	10459825	115804702	19730045	741	52584											
TRUB1	142940	broad.mit.edu	37	chr10	116730145	116730145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agataaaataacacaagaagAtattgaaggcattctacaga	21	8	7	5	0	1	5	0	1	1	4	1	5	1	5	0	1	2	1	0	1	8	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:116730145A>G	uc001lcd.2	+	5	603	c.542A>G	c.(541-543)GAT>GGT	p.D181G	TRUB1_uc010qsl.1_Missense_Mutation_p.D83G	NM_139169	NP_631908	Q8WWH5	TRUB1_HUMAN	TruB pseudouridine (psi) synthase homolog 1	181					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding				0		Colorectal(252;0.09)|Breast(234;0.174)|Lung NSC(174;0.245)		Epithelial(162;0.00879)|all cancers(201;0.0243)		ACACAAGAAGATATTGAAGGC	0.328													38	103					0	0	1	0	0		G	116730145	G	G	116730145	3	3	84	1	0	0	0	0	1	0	0	0	16628	333	12	3	560	3	TRUB1	10	116730145	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	925443	116730145	18804602	742	52585											
VAX1	11023	broad.mit.edu	37	chr10	118896101	118896101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctccgcggtgaaggacgtgCgcgtcctcttaggccggtcc	4	8	15	14	6	1	1	0	1	1	0	4	2	4	2	4	4	1	1	4	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:118896101C>T	uc009xyx.2	-	2	556	c.311G>A	c.(310-312)CGC>CAC	p.R104H	VAX1_uc001ldb.1_Missense_Mutation_p.R104H	NM_001112704	NP_001106175	Q5SQQ9	VAX1_HUMAN	ventral anterior homeobox 1 isoform a	104	Homeobox.					nucleus	sequence-specific DNA binding			ovary(2)	2				all cancers(201;0.0108)		GAAGGACGTGCGCGTCCTCTT	0.652													19	50					0	0	1	0	0		T	118896101	T	T	118896101	3	4	84	1	0	0	0	0	1	0	0	0	17160	768	27	1	841	1	VAX1	10	118896101	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2165956	118896101	16638646	743	52586											
EIF3A	8661	broad.mit.edu	37	chr10	120801864	120801864	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattacgccaggatgatcgCtcatcatcagcgcctcctcg	8	9	9	15	4	3	1	3	1	0	0	6	2	4	2	3	1	2	2	3	1	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:120801864C>T	uc001ldu.2	-	19	3314	c.3168G>A	c.(3166-3168)GAG>GAA	p.E1056E	EIF3A_uc010qsu.1_Silent_p.E1022E|EIF3A_uc009xzg.1_Silent_p.E95E	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	1056	14.|Asp-rich.|25 X 10 AA approximate tandem repeats of [DE]-[DE]-[DE]-R-[SEVGFPILV]-[HPSN]- [RSW]-[RL]-[DRGTIHN]-[EPMANLGDT].				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		AGGATGATCGCTCATCATCAG	0.612													92	286					0	0	1	0	0		T	120801864	T	T	120801864	2	4	84	1	0	0	0	0	0	0	0	1	5018	796	28	2		2	EIF3A	10	120801864	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1905763	120801864	14732883	744	52587											
INPP5F	22876	broad.mit.edu	37	chr10	121556338	121556339	+	Frame_Shift_Ins	INS	-	C	C																															tgagaaaagcagcccagagaINSccccccctcaggagtccacc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:121556338_121556339insC	uc001leo.2	+	7	947_948	c.781_782insC	c.(781-783)ACCfs	p.T261fs		NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	261	SAC.						phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		CAGCCCAGAGACCCCCCCTCAG	0.48													21	36	---	---	---	---						.	C	121556339	C	C	121556338	7	5	84	1	0	1	1	0	0	0	0	0	7774	275	10	0	807	0	INPP5F	10	121556338	Frame_Shift_Ins	INS	-	TCGA-BR-8591-01A-11D-2394-08	754474	121556338	13978409	745	52588											
ATE1	11101	broad.mit.edu	37	chr10	123683794	123683794	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctttaccttcgccatcctcGgtctatgagatcctgataat	8	14	7	12	2	1	2	0	2	1	1	5	3	3	2	4	1	1	1	4	1	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:123683794G>T	uc001lfp.2	-	2	239	c.157C>A	c.(157-159)CGA>AGA	p.R53R	ATE1_uc001lfq.2_Silent_p.R53R|ATE1_uc010qtr.1_5'UTR|ATE1_uc010qts.1_Intron|ATE1_uc010qtt.1_Silent_p.R46R|ATE1_uc001lfr.2_5'UTR|ATE1_uc009xzu.2_Intron	NM_007041	NP_008972	O95260	ATE1_HUMAN	arginyltransferase 1 isoform 2	53					protein arginylation	cytoplasm|nucleus	acyltransferase activity|arginyltransferase activity				0		all_neural(114;0.061)|Lung NSC(174;0.095)|all_lung(145;0.124)|Breast(234;0.212)				CGCCATCCTCGGTCTATGAGA	0.408													26	67					1.5548e-18	1.74066e-18	1	1	0		T	123683794	T	T	123683794	2	4	84	1	0	0	0	0	0	0	0	1	1079	1124	39	5		5	ATE1	10	123683794	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2127456	123683794	11850953	746	52589											
CPXM2	119587	broad.mit.edu	37	chr10	125521573	125521573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgtcttccagggggacCgcaccaggtcgtaggggtac	6	7	15	13	3	1	0	0	0	1	0	3	1	2	1	4	5	2	3	4	5	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:125521573C>T	uc001lhk.1	-	11	1917	c.1592G>A	c.(1591-1593)CGG>CAG	p.R531Q	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	531					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		CCAGGGGGACCGCACCAGGTC	0.632													31	128					0	0	1	0	0		T	125521573	T	T	125521573	3	4	84	1	0	0	0	0	1	0	0	0	3841	652	23	1	694	1	CPXM2	10	125521573	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1837779	125521573	10013174	747	52590											
FAM175B	23172	broad.mit.edu	37	chr10	126495401	126495401	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctttaattacttttaggAaggatttttactgggagagg	10	18	10	3	0	1	1	0	0	1	1	1	4	1	3	0	4	2	0	0	4	5	9			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:126495401A>G	uc001lib.3	+	2	119	c.74A>G	c.(73-75)GAA>GGA	p.E25G		NM_032182	NP_115558	Q15018	F175B_HUMAN	hypothetical protein LOC23172	25	MPN-like.					BRISC complex	polyubiquitin binding				0						TACTTTTAGGAAGGATTTTTA	0.289													7	64					0	0	1	0	0		G	126495401	G	G	126495401	3	3	84	1	0	0	0	0	1	0	0	0	5509	260	9	3	80	3	FAM175B	10	126495401	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	973828	126495401	9039346	748	52591											
MKI67	4288	broad.mit.edu	37	chr10	129905447	129905447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactggagttcccataaatgCgtagatgtttttctcaccac	10	13	7	11	1	1	1	1	0	1	1	3	2	2	2	2	1	1	3	2	1	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:129905447C>T	uc001lke.2	-	13	4852	c.4657G>A	c.(4657-4659)GCA>ACA	p.A1553T	MKI67_uc001lkf.2_Missense_Mutation_p.A1193T|MKI67_uc009yav.1_Missense_Mutation_p.A1128T|MKI67_uc009yaw.1_Missense_Mutation_p.A703T	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1553	5.|16 X 122 AA approximate repeats.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				CCCATAAATGCGTAGATGTTT	0.483													80	209					0	0	1	0	0		T	129905447	T	T	129905447	3	4	84	1	0	0	0	0	1	0	0	0	9616	768	27	1	5125	1	MKI67	10	129905447	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3410046	129905447	5629300	749	52592											
EBF3	253738	broad.mit.edu	37	chr10	131761786	131761786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccgcgccagccccacgcCgctgcgggaggaaagagaca	9	1	14	17	6	0	1	0	0	0	1	0	4	0	3	5	2	2	1	5	2	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:131761786C>T	uc001lki.1	-	2	195	c.136G>A	c.(136-138)GGC>AGC	p.G46S	EBF3_uc010qur.1_Missense_Mutation_p.G32S	NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	46					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		AGCCCCACGCCGCTGCGGGAG	0.438													14	41					0	0	1	0	0		T	131761786	T	T	131761786	3	4	84	1	0	0	0	0	1	0	0	0	4888	666	23	1	1579	1	EBF3	10	131761786	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1856339	131761786	3772961	750	52593											
PWWP2B	170394	broad.mit.edu	37	chr10	134218325	134218325	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccccgcccctcgtgccGccgctgcccgccggaagcct	3	4	10	24	6	0	0	0	0	0	0	1	1	0	1	10	1	3	1	10	1	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr10:134218325G>A	uc001lll.3	+	2	350	c.321G>A	c.(319-321)CCG>CCA	p.P107P	PWWP2B_uc009ybe.2_Silent_p.P107P	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	107	Pro-rich.										0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		CCCTCGTGCCGCCGCTGCCCG	0.736													3	11					0	0	1	0	0		A	134218325	A	A	134218325	2	1	84	1	0	0	0	0	0	0	0	1	12871	1074	38	1		1	PWWP2B	10	134218325	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2456539	134218325	1316422	751	52594											
ATHL1	80162	broad.mit.edu	37	chr11	294564	294564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctctccctgcaggacacaagGtctcctttccccgctcggct	5	10	8	18	2	2	0	0	0	2	0	6	1	3	1	4	3	1	3	4	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:294564G>A	uc010qvu.1	+	14	2144	c.2029G>A	c.(2029-2031)GTC>ATC	p.V677I	ATHL1_uc001lor.3_Missense_Mutation_p.V429I|ATHL1_uc001lou.3_Missense_Mutation_p.V252I|ATHL1_uc001lov.3_Missense_Mutation_p.V138I	NM_025092	NP_079368	Q32M88	ATHL1_HUMAN	ATH1, acid trehalase-like 1	677					carbohydrate metabolic process		hydrolase activity, acting on glycosyl bonds			liver(1)|central_nervous_system(1)|skin(1)	3		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.38e-28)|Epithelial(43;3.25e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0327)|LUSC - Lung squamous cell carcinoma(625;0.122)		AGGACACAAGGTCTCCTTTCC	0.622													56	130					0	0	1	0	0		A	294564	A	A	294564	3	1	84	1	0	0	0	0	1	0	0	0	1105	1261	44	4	2079	4	ATHL1	11	294564	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08		294564	134711952	752	52595											
B4GALNT4	338707	broad.mit.edu	37	chr11	377213	377213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtggacttcgagctgctgcGctcggactggaacgacctgc	6	8	14	13	5	0	0	0	0	0	0	2	5	0	3	1	3	5	3	1	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:377213G>A	uc001lpb.2	+	14	2099	c.2090G>A	c.(2089-2091)CGC>CAC	p.R697H		NM_178537	NP_848632	Q76KP1	B4GN4_HUMAN	beta	697	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			pancreas(1)	1		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GAGCTGCTGCGCTCGGACTGG	0.697													3	9					0	0	1	0	0		A	377213	A	A	377213	3	1	84	1	0	0	0	0	1	0	0	0	1270	1087	38	1	2144	1	B4GALNT4	11	377213	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	82649	377213	134629303	753	52596											
RNH1	6050	broad.mit.edu	37	chr11	498027	498027	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggcacagctcccgcacGcccgcatcctccagcctgtt	5	7	8	21	3	0	0	0	0	0	0	3	0	3	0	6	1	2	5	6	1	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:498027G>A	uc001lpk.1	-	7	2479	c.1071C>T	c.(1069-1071)GGC>GGT	p.G357G	RNH1_uc001lpl.1_Silent_p.G357G|RNH1_uc001lpm.1_Silent_p.G357G|RNH1_uc001lpn.1_Silent_p.G357G|RNH1_uc001lpo.1_Silent_p.G357G|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Silent_p.G357G|RNH1_uc001lpt.1_Silent_p.G114G|RNH1_uc001lpq.1_Silent_p.G357G|RNH1_uc001lpr.1_Silent_p.G357G|RNH1_uc001lps.1_Silent_p.G357G	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	357	LRR 12.				mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GCTCCCGCACGCCCGCATCCT	0.607													45	82					0	0	1	0	0		A	498027	A	A	498027	2	1	84	1	0	0	0	0	0	0	0	1	13529	1074	38	1		1	RNH1	11	498027	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	120814	498027	134508489	754	52597											
MUC6	4588	broad.mit.edu	37	chr11	1016412	1016414	+	In_Frame_Del	DEL	GAG	-	-																															cagaaggactgggagaaaatGaggaggacagctgattagtt																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:1016412_1016414delGAG	uc001lsw.2	-	31	6438_6440	c.6387_6389delCTC	c.(6385-6390)TCCTCA>TCA	p.2129_2130SS>S		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2129_2130	Ser-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGGAGAAAATGAGGAGGACAGCT	0.522													16	30	---	---	---	---						.	-	1016414	-	-	1016412	7	5	84	1	0	1	0	1	0	0	0	0	9998	1294	45	0	942	0	MUC6	11	1016412	In_Frame_Del	DEL	GAG	TCGA-BR-8591-01A-11D-2394-08	518385	1016412	133990104	755	52598											
MUC6	4588	broad.mit.edu	37	chr11	1025844	1025844	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccgtgagcatgtgaccccGgagttcccacagatgacgtt	8	8	12	13	3	0	4	0	3	0	1	1	5	1	5	4	1	1	3	4	1	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:1025844G>A	uc001lsw.2	-	22	2811	c.2760C>T	c.(2758-2760)TCC>TCT	p.S920S		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	920	VWFD 3.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		ATGTGACCCCGGAGTTCCCAC	0.642													12	17					0	0	1	0	0		A	1025844	A	A	1025844	2	1	84	1	0	0	0	0	0	0	0	1	9998	1103	39	1		1	MUC6	11	1025844	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	9432	1025844	133980672	756	52599											
MUC2	4583	broad.mit.edu	37	chr11	1094755	1094755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccagtgcctggaccccaaCgccgaccccactctccacac	9	4	6	22	2	1	0	0	0	1	0	2	2	1	1	8	1	2	0	8	1	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:1094755C>T	uc001lsx.1	+	34	12956	c.12929C>T	c.(12928-12930)ACG>ATG	p.T4310M		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4310						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	TGGACCCCAACGCCGACCCCA	0.632													50	163					0	0	1	0	0		T	1094755	T	T	1094755	3	4	84	1	0	0	0	0	1	0	0	0	9993	536	19	1	5957	1	MUC2	11	1094755	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	68911	1094755	133911761	757	52600											
SYT8	90019	broad.mit.edu	37	chr11	1858494	1858494	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccgtaggcaaggtgcacCtgggtgcccgggcctcgggg	5	5	18	13	3	0	0	0	0	0	0	1	0	0	0	4	6	3	3	4	6	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:1858494C>A	uc001lue.1	+	9	1167	c.1039C>A	c.(1039-1041)CTG>ATG	p.L347M	SYT8_uc001lud.2_Missense_Mutation_p.L347M|SYT8_uc001luf.1_Missense_Mutation_p.L333M|TNNI2_uc010qxc.1_5'Flank|TNNI2_uc010qxd.1_5'Flank|TNNI2_uc010qxe.1_5'Flank	NM_138567	NP_612634	Q8NBV8	SYT8_HUMAN	synaptotagmin VIII	347	Cytoplasmic (Potential).					acrosomal vesicle|integral to membrane|plasma membrane|synaptic vesicle	transporter activity			ovary(1)	1		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		CAAGGTGCACCTGGGTGCCCG	0.711													10	33					0.000673444	0.000690895	1	1	0		A	1858494	A	A	1858494	3	1	84	1	0	0	0	0	1	0	0	0	15505	680	24	5	1073	5	SYT8	11	1858494	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	763739	1858494	133148022	758	52601											
NUP98	4928	broad.mit.edu	37	chr11	3697576	3697576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcagactcagcaccacgCgcagcaggttggctacacgt	10	6	12	13	3	1	1	1	0	0	1	1	2	1	1	1	2	4	6	1	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:3697576C>T	uc001lyh.2	-	33	5507	c.5216G>A	c.(5215-5217)CGC>CAC	p.R1739H	NUP98_uc001lyi.2_Missense_Mutation_p.R1665H|NUP98_uc001lyg.2_Missense_Mutation_p.R704H	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1756					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		CAGCACCACGCGCAGCAGGTT	0.577			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								26	75					0	0	1	0	0		T	3697576	T	T	3697576	3	4	84	1	0	0	0	0	1	0	0	0	10792	768	27	1	190	1	NUP98	11	3697576	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1839082	3697576	131308940	759	52602											
STIM1	6786	broad.mit.edu	37	chr11	3877513	3877513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagagtcatggatgtatgcGtccgtcttgccctgtggctc	5	13	12	11	2	2	1	1	0	1	1	4	2	3	2	2	2	2	2	2	2	2	3	rs150529970		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:3877513G>A	uc001lyv.2	+	1	581	c.13G>A	c.(13-15)GTC>ATC	p.V5I	STIM1_uc009yef.2_Missense_Mutation_p.V5I	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	5					activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		GGATGTATGCGTCCGTCTTGC	0.622													35	86					0	0	1	0	0		A	3877513	A	A	3877513	3	1	84	1	0	0	0	0	1	0	0	0	15308	1145	40	1	15	1	STIM1	11	3877513	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	179937	3877513	131129003	760	52603											
OR51L1	119682	broad.mit.edu	37	chr11	5020589	5020589	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggcctttgaccgttttgTtgctatctgccatccactgc	5	15	8	13	1	1	1	0	1	1	0	2	1	2	1	4	1	3	3	4	1	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:5020589T>C	uc010qyu.1	+	1	377	c.377T>C	c.(376-378)GTT>GCT	p.V126A		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		GACCGTTTTGTTGCTATCTGC	0.493													62	146					0	0	1	0	0		C	5020589	C	C	5020589	3	2	84	1	0	0	0	0	1	0	0	0	11121	1725	60	3	379	3	OR51L1	11	5020589	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1143076	5020589	129985927	761	52604											
OR51B6	390058	broad.mit.edu	37	chr11	5373560	5373560	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcgttcacatcacaatgAgctacatccacttccttttc	10	14	4	13	1	2	1	2	1	0	0	6	1	4	1	2	0	2	2	2	0	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:5373560A>T	uc010qzb.1	+	1	823	c.823A>T	c.(823-825)AGC>TGC	p.S275C	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	275	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CATCACAATGAGCTACATCCA	0.393													34	84					0	0	1	0	0		T	5373560	T	T	5373560	3	4	84	1	0	0	0	0	1	0	0	0	11111	304	11	5	825	5	OR51B6	11	5373560	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	352971	5373560	129632956	762	52605											
OR52N2	390077	broad.mit.edu	37	chr11	5841795	5841795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cactgatgtcaccttgtgcaCcaccatggtacctaatatgc	10	11	7	13	0	1	1	1	1	0	0	1	1	1	1	4	1	3	2	4	1	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:5841795C>T	uc010qzp.1	+	1	230	c.230C>T	c.(229-231)ACC>ATC	p.T77I	TRIM5_uc001mbq.1_Intron	NM_001005174	NP_001005174	Q8NGI0	O52N2_HUMAN	olfactory receptor, family 52, subfamily N,	77	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.49e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACCTTGTGCACCACCATGGTA	0.517													42	119					0	0	1	0	0		T	5841795	T	T	5841795	3	4	84	1	0	0	0	0	1	0	0	0	11147	507	18	4	232	4	OR52N2	11	5841795	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	468235	5841795	129164721	763	52606											
OR52N2	390077	broad.mit.edu	37	chr11	5841886	5841886	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccagatgttttttgtccaTatgctgacagggatggagtc	8	13	12	8	0	0	2	0	1	0	1	2	4	1	4	2	2	1	2	2	2	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:5841886T>C	uc010qzp.1	+	1	321	c.321T>C	c.(319-321)CAT>CAC	p.H107H	TRIM5_uc001mbq.1_Intron	NM_001005174	NP_001005174	Q8NGI0	O52N2_HUMAN	olfactory receptor, family 52, subfamily N,	107	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.49e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTTTTGTCCATATGCTGACAG	0.522													27	92					0	0	1	0	0		C	5841886	C	C	5841886	2	2	84	1	0	0	0	0	0	0	0	1	11147	1403	49	3		3	OR52N2	11	5841886	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	91	5841886	129164630	764	52607											
OR52E8	390079	broad.mit.edu	37	chr11	5878878	5878878	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgggatacccagcagtaGgaatgaagaaggatggaact	14	6	13	8	0	0	2	0	1	0	1	0	6	0	6	2	4	3	2	2	4	6	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:5878878G>T	uc010qzr.1	-	1	55	c.55C>A	c.(55-57)CTA>ATA	p.L19I	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	19	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCCAGCAGTAGGAATGAAGAA	0.448													24	116					7.92952e-12	8.6712e-12	1	1	0		T	5878878	T	T	5878878	3	4	84	1	0	0	0	0	1	0	0	0	11137	991	35	5	900	5	OR52E8	11	5878878	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	36992	5878878	129127638	765	52608											
CCKBR	887	broad.mit.edu	37	chr11	6291484	6291484	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactcatggtgccctacccCgtgtacactgtcgtgcaacc	7	10	8	16	2	1	0	1	0	0	0	2	0	1	0	4	1	6	2	4	1	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:6291484C>T	uc001mcp.2	+	3	763	c.570C>T	c.(568-570)CCC>CCT	p.P190P	CCKBR_uc001mcq.2_Silent_p.P118P|CCKBR_uc001mcr.2_Silent_p.P190P|CCKBR_uc001mcs.2_Silent_p.P190P|CCKBR_uc001mct.1_5'Flank	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	190	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	TGCCCTACCCCGTGTACACTG	0.657													37	88					0	0	1	0	0		T	6291484	T	T	6291484	2	4	84	1	0	0	0	0	0	0	0	1	2884	639	23	1		1	CCKBR	11	6291484	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	412606	6291484	128715032	766	52609											
DNHD1	144132	broad.mit.edu	37	chr11	6592577	6592577	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcccagctcgaatttccCtggtagccgaggctcggtct	5	11	12	13	3	1	0	0	0	1	0	4	2	2	0	3	3	3	3	3	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:6592577C>A	uc001mdw.3	+	42	14399	c.13835C>A	c.(13834-13836)CCT>CAT	p.P4612H	DNHD1_uc001mea.3_Missense_Mutation_p.P881H|DNHD1_uc001meb.2_3'UTR|DNHD1_uc001mec.2_Missense_Mutation_p.P880H|DNHD1_uc010rao.1_Missense_Mutation_p.P870H|DNHD1_uc009yfg.2_Missense_Mutation_p.P237H	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	4612					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		TCGAATTTCCCTGGTAGCCGA	0.617													4	12					0.00116845	0.00119591	1	1	0		A	6592577	A	A	6592577	3	1	84	1	0	0	0	0	1	0	0	0	4674	681	24	5	14002	5	DNHD1	11	6592577	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	301093	6592577	128413939	767	52610											
WEE1	7465	broad.mit.edu	37	chr11	9598763	9598763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtagttcgatatttctctgCgtgggcagaagatgatcata	10	14	11	6	2	2	3	1	1	1	2	4	4	2	3	0	1	1	3	0	1	4	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:9598763C>T	uc001mhs.2	+	5	1347	c.1094C>T	c.(1093-1095)GCG>GTG	p.A365V	WEE1_uc001mht.2_Missense_Mutation_p.A151V|WEE1_uc001mhu.2_Missense_Mutation_p.A151V	NM_003390	NP_003381	P30291	WEE1_HUMAN	WEE1 tyrosine kinase isoform 1	365	Protein kinase.				blood coagulation|cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|S phase of mitotic cell cycle	nucleoplasm	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	5				all cancers(16;4.59e-09)|Epithelial(150;3.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0484)		TATTTCTCTGCGTGGGCAGAA	0.373													25	57					0	0	1	0	0		T	9598763	T	T	9598763	3	4	84	1	0	0	0	0	1	0	0	0	17370	768	27	1	1112	1	WEE1	11	9598763	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3006186	9598763	125407753	768	52611											
CTR9	9646	broad.mit.edu	37	chr11	10794800	10794800	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcaacaaaagagaagaaaAgaggtggtggtggtggacgg	17	4	17	3	1	0	3	0	0	0	3	0	5	0	4	0	6	2	1	0	6	7	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:10794800A>G	uc001mja.2	+	21	2856	c.2707A>G	c.(2707-2709)AGA>GGA	p.R903G		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	903	Lys-rich.				histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		AGAGAAGAAAAGAGGTGGTGG	0.403													22	49					0	0	1	0	0		G	10794800	G	G	10794800	3	3	84	1	0	0	0	0	1	0	0	0	4027	64	3	3	2789	3	CTR9	11	10794800	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1196037	10794800	124211716	769	52612											
DKK3	27122	broad.mit.edu	37	chr11	12029928	12029928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacccacctcttccaccgCgctgcgcaatttgtgctgcg	5	9	9	18	5	1	0	0	0	1	0	2	0	2	0	4	0	3	4	4	0	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:12029928C>T	uc001mju.2	-	1	259	c.202G>A	c.(202-204)GCG>ACG	p.A68T	DKK3_uc010rcf.1_Missense_Mutation_p.A68T|DKK3_uc001mjv.2_Missense_Mutation_p.A68T|DKK3_uc001mjw.2_Missense_Mutation_p.A68T|DKK3_uc010rcg.1_Missense_Mutation_p.A68T|DKK3_uc001mjx.2_Missense_Mutation_p.A68T	NM_001018057	NP_001018067	Q9UBP4	DKK3_HUMAN	dickkopf homolog 3 precursor	68	Potential.				adrenal gland development|anatomical structure morphogenesis|negative regulation of aldosterone biosynthetic process|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cortisol biosynthetic process|negative regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	extracellular space				breast(1)	1				Epithelial(150;0.000502)		TCTTCCACCGCGCTGCGCAAT	0.667													14	18					0	0	1	0	0		T	12029928	T	T	12029928	3	4	84	1	0	0	0	0	1	0	0	0	4552	768	27	1	878	1	DKK3	11	12029928	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1235128	12029928	122976588	770	52613											
SPON1	10418	broad.mit.edu	37	chr11	14284280	14284280	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgactgtgagctcaccgaGtggtcccagtggtcggaatg	8	10	14	9	2	1	2	1	2	0	0	3	4	2	3	2	3	1	1	2	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:14284280G>T	uc001mle.2	+	16	2557	c.2019G>T	c.(2017-2019)GAG>GAT	p.E673D		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	673	TSP type-1 5.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		AGCTCACCGAGTGGTCCCAGT	0.478													8	44					1.58986e-06	1.67142e-06	1	1	0		T	14284280	T	T	14284280	3	4	84	1	0	0	0	0	1	0	0	0	15107	1020	36	5	2076	5	SPON1	11	14284280	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2254352	14284280	120722236	771	52614											
SOX6	55553	broad.mit.edu	37	chr11	15994374	15994374	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagttggcactgacagccTccggggcttcattttcactg	6	12	10	13	1	3	1	3	1	0	0	4	1	4	1	2	3	1	3	2	3	0	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:15994374T>G	uc001mme.2	-	16	2540	c.2507A>C	c.(2506-2508)GAG>GCG	p.E836A	SOX6_uc001mmd.2_Missense_Mutation_p.E799A|SOX6_uc001mmf.2_Missense_Mutation_p.E796A|SOX6_uc001mmg.2_Missense_Mutation_p.E803A	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	823					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						ACTGACAGCCTCCGGGGCTTC	0.433													26	75					0	0	1	0	0		G	15994374	G	G	15994374	3	3	84	1	0	0	0	0	1	0	0	0	14980	1551	54	5	22	5	SOX6	11	15994374	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1710094	15994374	119012142	772	52615											
PIK3C2A	5286	broad.mit.edu	37	chr11	17170280	17170280	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatctacttgattcaagTcatcatgtacccagcaaagg	14	10	6	11	0	4	1	3	1	1	0	4	1	4	1	1	1	4	2	1	1	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:17170280T>C	uc001mmq.3	-	4	1448	c.1382A>G	c.(1381-1383)GAC>GGC	p.D461G	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Missense_Mutation_p.D81G|PIK3C2A_uc001mmr.3_RNA|PIK3C2A_uc010rcx.1_Missense_Mutation_p.D461G|PIK3C2A_uc009ygv.1_Missense_Mutation_p.D461G	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	461					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	TTGATTCAAGTCATCATGTAC	0.353													10	27					0	0	1	0	0		C	17170280	C	C	17170280	3	2	84	1	0	0	0	0	1	0	0	0	11928	1667	58	3	3794	3	PIK3C2A	11	17170280	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1175906	17170280	117836236	773	52616											
NAV2	89797	broad.mit.edu	37	chr11	20129269	20129269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcgagagtgtggttcaccGacttgtggaactattccatt	8	13	11	9	2	1	1	1	0	0	1	3	4	2	2	2	2	1	2	2	2	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:20129269G>A	uc001mpr.3	+	36	7271	c.6910G>A	c.(6910-6912)GAC>AAC	p.D2304N	NAV2_uc001mpp.2_Missense_Mutation_p.D2237N|NAV2_uc009yhx.2_Missense_Mutation_p.D1365N|NAV2_uc009yhz.2_Missense_Mutation_p.D946N|NAV2_uc001mpu.2_Missense_Mutation_p.D739N|NAV2_uc001mpv.2_Missense_Mutation_p.D63N	NM_182964	NP_892009	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 1	2360						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						GTGGTTCACCGACTTGTGGAA	0.552													110	284					0	0	1	0	0		A	20129269	A	A	20129269	3	1	84	1	0	0	0	0	1	0	0	0	10202	1058	37	1	7161	1	NAV2	11	20129269	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2958989	20129269	114877247	774	52617											
ANO5	203859	broad.mit.edu	37	chr11	22257743	22257743	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaagatgtccttttggcaTagaagatgggaagaaaaggt	14	10	12	5	0	1	4	1	0	0	4	2	5	2	5	1	3	0	1	1	3	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:22257743T>C	uc001mqi.2	+	8	1000	c.683T>C	c.(682-684)ATA>ACA	p.I228T	ANO5_uc001mqj.2_Missense_Mutation_p.I227T	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	228	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						CCTTTTGGCATAGAAGATGGG	0.378													19	41					0	0	1	0	0		C	22257743	C	C	22257743	3	2	84	1	0	0	0	0	1	0	0	0	700	1406	49	3	713	3	ANO5	11	22257743	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2128474	22257743	112748773	775	52618											
LUZP2	338645	broad.mit.edu	37	chr11	24927591	24927591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaagctctgtggcattcacGcagaagaggtgagtaaattt	13	10	11	7	1	2	3	1	1	1	2	2	3	2	3	0	2	1	4	0	2	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:24927591G>A	uc001mqs.2	+	6	685	c.451G>A	c.(451-453)GCA>ACA	p.A151T	LUZP2_uc009yif.2_Missense_Mutation_p.A65T|LUZP2_uc009yig.2_Intron	NM_001009909	NP_001009909	Q86TE4	LUZP2_HUMAN	leucine zipper protein 2 precursor	151	Potential.					extracellular region				ovary(1)|skin(1)	2						TGGCATTCACGCAGAAGAGGT	0.328													5	27					0	0	1	0	0		A	24927591	A	A	24927591	3	1	84	1	0	0	0	0	1	0	0	0	9105	1087	38	1	473	1	LUZP2	11	24927591	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2669848	24927591	110078925	776	52619											
METT5D1	196074	broad.mit.edu	37	chr11	28135070	28135070	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacacagatctcaagatagAgattttgaaactatggctaa	16	12	7	6	0	1	4	1	1	1	3	2	5	1	4	0	1	2	1	0	1	6	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:28135070A>T	uc001msh.2	+	3	644	c.189A>T	c.(187-189)AGA>AGT	p.R63S	METT5D1_uc001msg.2_Missense_Mutation_p.R63S|METT5D1_uc001mse.2_Missense_Mutation_p.R63S|METT5D1_uc001msf.1_RNA	NM_001113528	NP_001107000	A6NJ78	MET15_HUMAN	methyltransferase 5 domain containing 1 isoform	63							methyltransferase activity				0						CTCAAGATAGAGATTTTGAAA	0.358													14	39					0	0	1	0	0		T	28135070	T	T	28135070	3	4	84	1	0	0	0	0	1	0	0	0	9510	301	11	5	191	5	METT5D1	11	28135070	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	3207479	28135070	106871446	777	52620											
SLC1A2	6506	broad.mit.edu	37	chr11	35287272	35287272	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccagccccaaaagagtcAcccacaacattgactgaagt	15	6	6	14	0	1	3	1	2	0	1	2	3	2	3	4	0	2	0	4	0	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:35287272A>G	uc001mwd.2	-	10	2047	c.1455T>C	c.(1453-1455)GGT>GGC	p.G485G	SLC1A2_uc001mwe.2_Silent_p.G476G|SLC1A2_uc010rev.1_Silent_p.G485G	NM_004171	NP_004162	P43004	EAA2_HUMAN	excitatory amino acid transporter 2	485					D-aspartate import|L-glutamate import|synaptic transmission	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|central_nervous_system(1)	3	all_lung(20;0.211)|all_epithelial(35;0.234)	all_hematologic(20;0.109)	STAD - Stomach adenocarcinoma(6;0.00731)		L-Glutamic Acid(DB00142)	CAAAAGAGTCACCCACAACAT	0.398													21	56					0	0	1	0	0		G	35287272	G	G	35287272	2	3	84	1	0	0	0	0	0	0	0	1	14457	146	6	3		3	SLC1A2	11	35287272	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	7152202	35287272	99719244	778	52621											
FJX1	24147	broad.mit.edu	37	chr11	35640853	35640853	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcggggcgcgcagtgggcGcaggtgcaggaggagctgcg	5	4	22	10	5	0	0	0	0	0	0	1	2	0	2	0	6	3	5	0	6	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:35640853G>A	uc001mwh.2	+	1	1119	c.669G>A	c.(667-669)GCG>GCA	p.A223A		NM_014344	NP_055159	Q86VR8	FJX1_HUMAN	four jointed box 1 precursor	223						extracellular space					0	all_cancers(35;0.177)|all_lung(20;0.0238)|Lung NSC(22;0.0494)|all_epithelial(35;0.0739)	all_hematologic(20;0.107)				CGCAGTGGGCGCAGGTGCAGG	0.736													4	13					0	0	1	0	0		A	35640853	A	A	35640853	2	1	84	1	0	0	0	0	0	0	0	1	5915	1074	38	1		1	FJX1	11	35640853	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	353581	35640853	99365663	779	52622											
ALKBH3	221120	broad.mit.edu	37	chr11	43923081	43923081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagtggcaccctgtgctgCgcacactaaagaaccgcatt	10	8	10	13	2	0	1	0	0	0	1	0	1	0	1	2	1	4	5	2	1	3	2	rs137865466		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:43923081C>T	uc001mxs.2	+	8	918	c.475C>T	c.(475-477)CGC>TGC	p.R159C	ALKBH3_uc009ykp.2_RNA|ALKBH3_uc001mxt.2_RNA|ALKBH3_uc009ykq.2_Missense_Mutation_p.R12C	NM_139178	NP_631917	Q96Q83	ALKB3_HUMAN	AlkB homolog 3	159					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation	mitochondrion|nucleoplasm	damaged DNA binding|DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0					Vitamin C(DB00126)	CCCTGTGCTGCGCACACTAAA	0.493								Direct_reversal_of_damage					21	70					0	0	1	0	0		T	43923081	T	T	43923081	3	4	84	1	0	0	0	0	1	0	0	0	528	768	27	1	501	1	ALKBH3	11	43923081	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	8282228	43923081	91083435	780	52623											
CD82	3732	broad.mit.edu	37	chr11	44640247	44640247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgggcatcatcctcggcGtgggcgtgggtgtggccatc	4	9	16	12	3	1	0	1	0	0	0	4	0	2	0	3	5	0	1	3	5	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:44640247G>A	uc001myc.2	+	9	948	c.700G>A	c.(700-702)GTG>ATG	p.V234M	CD82_uc001myd.2_Missense_Mutation_p.V209M	NM_002231	NP_002222	P27701	CD82_HUMAN	CD82 antigen isoform 1	234	Helical; (Potential).					integral to plasma membrane	protein binding			ovary(1)	1						CATCCTCGGCGTGGGCGTGGG	0.627													22	63					0	0	1	0	0		A	44640247	A	A	44640247	3	1	84	1	0	0	0	0	1	0	0	0	3043	1145	40	1	726	1	CD82	11	44640247	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	717166	44640247	90366269	781	52624											
PHF21A	51317	broad.mit.edu	37	chr11	45991420	45991420	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggggggataaactgtggTactttgatgggctgaggagg	9	9	20	3	0	0	2	0	2	0	0	0	5	0	5	0	8	2	2	0	8	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:45991420T>C	uc001ncc.3	-	8	1269	c.645A>G	c.(643-645)GTA>GTG	p.V215V	PHF21A_uc001ncb.3_Silent_p.V216V|PHF21A_uc009ykx.2_Silent_p.V216V|PHF21A_uc001nce.2_Silent_p.V216V|PHF21A_uc001nca.1_5'UTR	NM_001101802	NP_001095272	Q96BD5	PF21A_HUMAN	BRAF35/HDAC2 complex isoform a	215					blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						TAAACTGTGGTACTTTGATGG	0.418													13	16					0	0	1	0	0		C	45991420	C	C	45991420	2	2	84	1	0	0	0	0	0	0	0	1	11852	1625	57	3		3	PHF21A	11	45991420	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1351173	45991420	89015096	782	52625											
CHRM4	1132	broad.mit.edu	37	chr11	46407532	46407532	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgccaaaggtcactgctggGttggacaggaactggatgaa	11	8	15	7	0	1	1	1	1	0	0	1	4	1	4	1	5	3	2	1	5	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:46407532G>A	uc001nct.1	-	1	576	c.576C>T	c.(574-576)AAC>AAT	p.N192N		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	192	Extracellular (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	TCACTGCTGGGTTGGACAGGA	0.587													9	24					0	0	1	0	0		A	46407532	A	A	46407532	2	1	84	1	0	0	0	0	0	0	0	1	3382	1252	44	4		4	CHRM4	11	46407532	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	416112	46407532	88598984	783	52626											
NUP160	23279	broad.mit.edu	37	chr11	47827774	47827774	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaatccagtttggctcagaGgtgcctttggctgagagaag	9	11	13	8	0	2	3	2	1	0	2	3	4	3	3	2	3	1	3	2	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:47827774G>T	uc001ngm.2	-	20	2622	c.2537C>A	c.(2536-2538)CCT>CAT	p.P846H	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	846					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						TTGGCTCAGAGGTGCCTTTGG	0.373													15	54					1.05317e-09	1.13881e-09	1	1	0		T	47827774	T	T	47827774	3	4	84	1	0	0	0	0	1	0	0	0	10776	1000	35	5	1841	5	NUP160	11	47827774	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1420242	47827774	87178742	784	52627											
OR4C15	81309	broad.mit.edu	37	chr11	55322291	55322291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaggtgattgtcctcacagCcatggcctatgatcgttatg	8	12	12	9	1	1	2	1	2	0	0	3	3	2	3	3	3	1	1	3	3	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:55322291C>T	uc010rig.1	+	1	509	c.509C>T	c.(508-510)GCC>GTC	p.A170V		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GTCCTCACAGCCATGGCCTAT	0.493										HNSCC(20;0.049)			36	100					0	0	1	0	0		T	55322291	T	T	55322291	3	4	84	1	0	0	0	0	1	0	0	0	11067	739	26	2	511	2	OR4C15	11	55322291	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	7494517	55322291	79684225	785	52628											
OR5W2	390148	broad.mit.edu	37	chr11	55681359	55681359	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagagagagctttgaaccTcccctcagcagagtgtatct	10	11	10	10	0	2	4	1	1	1	3	3	5	3	4	3	0	3	4	3	0	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:55681359T>C	uc010rir.1	-	1	700	c.700A>G	c.(700-702)AGG>GGG	p.R234G		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCTTTGAACCTCCCCTCAGCA	0.418													13	53					0	0	1	0	0		C	55681359	C	C	55681359	3	2	84	1	0	0	0	0	1	0	0	0	11204	1550	54	3	234	3	OR5W2	11	55681359	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	359068	55681359	79325157	786	52629											
OR10AG1	282770	broad.mit.edu	37	chr11	55735082	55735082	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaatgccaccatgatatcTttgttcctcagggtatatat	10	15	6	10	0	3	1	2	1	1	0	4	1	4	1	3	1	1	2	3	1	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:55735082T>A	uc010rit.1	-	1	858	c.858A>T	c.(856-858)AAA>AAT	p.K286N		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	286	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					CCATGATATCTTTGTTCCTCA	0.338													15	26					0	0	1	0	0		A	55735082	A	A	55735082	3	1	84	1	0	0	0	0	1	0	0	0	10916	1606	56	5	50	5	OR10AG1	11	55735082	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	53723	55735082	79271434	787	52630											
OR8I2	120586	broad.mit.edu	37	chr11	55861422	55861422	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttagctctctccttatcatCacagtcacttatatcatcat	10	16	2	13	0	6	0	5	0	1	0	8	0	7	0	1	0	1	1	1	0	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:55861422C>T	uc010rix.1	+	1	639	c.639C>T	c.(637-639)ATC>ATT	p.I213I		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	213	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					TCCTTATCATCACAGTCACTT	0.498													27	81					0	0	1	0	0		T	55861422	T	T	55861422	2	4	84	1	0	0	0	0	0	0	0	1	11259	816	29	4		4	OR8I2	11	55861422	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	126340	55861422	79145094	788	52631											
SMTNL1	219537	broad.mit.edu	37	chr11	57310769	57310769	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctgaacccaaggagccCgatgggaaagaggaggccaa	15	2	15	9	1	0	2	0	1	0	1	0	6	0	5	3	5	2	1	3	5	5	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:57310769C>T	uc009ymh.1	+	2	708	c.708C>T	c.(706-708)CCC>CCT	p.P236P		NM_001105565	NP_001099035	E9PPJ3	E9PPJ3_HUMAN	smoothelin-like 1	218										ovary(1)	1						CCAAGGAGCCCGATGGGAAAG	0.562													12	39					0	0	1	0	0		T	57310769	T	T	57310769	2	4	84	1	0	0	0	0	0	0	0	1	14840	639	23	1		1	SMTNL1	11	57310769	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1449347	57310769	77695747	789	52632											
TMEM109	79073	broad.mit.edu	37	chr11	60687353	60687353	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gataggtcgatctgtgcgagGgacactggatgcctggattg	8	10	16	7	2	1	0	0	0	1	0	2	6	1	3	1	4	2	0	1	4	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:60687353G>T	uc001nqg.2	+	2	566	c.188G>T	c.(187-189)GGG>GTG	p.G63V	TMEM109_uc001nqh.2_Missense_Mutation_p.G63V	NM_024092	NP_076997	Q9BVC6	TM109_HUMAN	transmembrane protein 109 precursor	63						integral to membrane|nuclear outer membrane|sarcoplasmic reticulum membrane					0						TCTGTGCGAGGGACACTGGAT	0.522													28	77					1.39806e-14	1.54238e-14	1	1	0		T	60687353	T	T	60687353	3	4	84	1	0	0	0	0	1	0	0	0	16050	1232	43	5	190	5	TMEM109	11	60687353	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3376584	60687353	74319163	790	52633											
SYT7	9066	broad.mit.edu	37	chr11	61323632	61323632	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgacagtgacgctaaggcTgacggtgatgatggcagaga	12	6	16	7	3	0	5	0	4	0	1	0	8	0	5	0	3	0	3	0	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:61323632T>G	uc001nrv.2	-	2	85	c.79A>C	c.(79-81)AGC>CGC	p.S27R	SYT7_uc009ynr.2_Missense_Mutation_p.S27R|SYT7_uc001nrx.1_RNA	NM_004200	NP_004191	O43581	SYT7_HUMAN	synaptotagmin VII	27	Helical; (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|pancreas(1)	4						ACGCTAAGGCTGACGGTGATG	0.667													15	29					0	0	1	0	0		G	61323632	G	G	61323632	3	3	84	1	0	0	0	0	1	0	0	0	15504	1580	55	5	1164	5	SYT7	11	61323632	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	636279	61323632	73682884	791	52634											
RAB3IL1	5866	broad.mit.edu	37	chr11	61675532	61675532	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcaggcacccaccttctgCgctctgtgcagctcctcctt	4	11	8	18	1	2	0	0	0	2	0	4	0	4	0	4	1	4	5	4	1	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:61675532C>T	uc001nso.2	-	2	416	c.258G>A	c.(256-258)GCG>GCA	p.A86A	RAB3IL1_uc001nsp.2_Silent_p.A133A	NM_013401	NP_037533	Q8TBN0	R3GEF_HUMAN	RAB3A interacting protein (rabin3)-like 1	86	Potential.						protein binding			skin(2)|central_nervous_system(1)	3						CCACCTTCTGCGCTCTGTGCA	0.642													25	84					0	0	1	0	0		T	61675532	T	T	61675532	2	4	84	1	0	0	0	0	0	0	0	1	12962	755	27	1		1	RAB3IL1	11	61675532	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	351900	61675532	73330984	792	52635											
INCENP	3619	broad.mit.edu	37	chr11	61897762	61897762	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggacggggcggtctgcgTctaagctcaggattgcgcag	6	8	17	10	5	3	0	1	0	2	0	4	2	3	2	0	5	3	2	0	5	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:61897762T>C	uc001nsw.1	+	4	965	c.763T>C	c.(763-765)TCT>CCT	p.S255P	INCENP_uc009ynv.2_Missense_Mutation_p.S255P|INCENP_uc009ynw.1_Missense_Mutation_p.S255P|INCENP_uc001nsx.1_Missense_Mutation_p.S255P	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	255					chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						GCGGTCTGCGTCTAAGCTCAG	0.647													43	106					0	0	1	0	0		C	61897762	C	C	61897762	3	2	84	1	0	0	0	0	1	0	0	0	7749	1667	58	3	773	3	INCENP	11	61897762	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	222230	61897762	73108754	793	52636											
AHNAK	79026	broad.mit.edu	37	chr11	62290261	62290261	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggttaagatcaatgtcAggcatggagatcttgggggc	10	11	14	6	0	4	2	3	0	1	2	4	3	4	2	0	5	0	2	0	5	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:62290261A>G	uc001ntl.2	-	5	11928	c.11628T>C	c.(11626-11628)CCT>CCC	p.P3876P	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3876					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GATCAATGTCAGGCATGGAGA	0.448													88	288					0	0	1	0	0		G	62290261	G	G	62290261	2	3	84	1	0	0	0	0	0	0	0	1	414	175	7	3		3	AHNAK	11	62290261	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	392499	62290261	72716255	794	52637											
TRPT1	83707	broad.mit.edu	37	chr11	63992129	63992129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttccagaatgtaccatGgactagcatcgggggcaggg	9	8	15	9	1	0	1	0	0	0	1	2	2	1	2	2	4	3	4	2	4	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:63992129G>A	uc001nyo.2	-	5	602	c.388C>T	c.(388-390)CAT>TAT	p.H130Y	TRPT1_uc010rnc.1_Missense_Mutation_p.H130Y|TRPT1_uc010rnd.1_Missense_Mutation_p.H132Y|TRPT1_uc001nyn.2_Missense_Mutation_p.H81Y|TRPT1_uc010rne.1_Missense_Mutation_p.H130Y|TRPT1_uc010rnf.1_Missense_Mutation_p.H130Y|NUDT22_uc009ypd.2_5'Flank|NUDT22_uc001nyp.3_5'Flank|NUDT22_uc009ype.2_5'Flank|NUDT22_uc001nyq.3_5'Flank|NUDT22_uc010rng.1_5'Flank	NM_001033678	NP_001028850	Q86TN4	TRPT1_HUMAN	tRNA phosphotransferase 1 isoform 1	130							tRNA 2'-phosphotransferase activity				0						AATGTACCATGGACTAGCATC	0.612													21	61					0	0	1	0	0		A	63992129	A	A	63992129	3	1	84	1	0	0	0	0	1	0	0	0	16620	1348	47	4	392	4	TRPT1	11	63992129	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1701868	63992129	71014387	795	52638											
GPR137	56834	broad.mit.edu	37	chr11	64054482	64054482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcggccggagatgagccgaGgcttgtaagtactcgggaca	9	7	16	9	4	0	2	0	1	0	1	2	5	0	3	2	4	2	3	2	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:64054482G>A	uc001nzg.1	+	3	711	c.403G>A	c.(403-405)GGC>AGC	p.G135S	BAD_uc001nzd.2_5'Flank|BAD_uc001nzc.2_5'Flank|GPR137_uc009ypj.1_Missense_Mutation_p.G141S|BAD_uc009ypk.2_5'Flank|GPR137_uc010rni.1_Missense_Mutation_p.G193S|GPR137_uc001nze.1_Missense_Mutation_p.G135S|GPR137_uc001nzf.2_Missense_Mutation_p.G135S|GPR137_uc001nzh.1_Missense_Mutation_p.G135S|GPR137_uc001nzi.2_Missense_Mutation_p.G135S|GPR137_uc010rnj.1_Missense_Mutation_p.G135S	NM_020155	NP_064540	Q96N19	G137A_HUMAN	G protein-coupled receptor 137	135	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(1)	1						GATGAGCCGAGGCTTGTAAGT	0.517													8	38					0	0	1	0	0		A	64054482	A	A	64054482	3	1	84	1	0	0	0	0	1	0	0	0	6660	1000	35	4	591	4	GPR137	11	64054482	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	62353	64054482	70952034	796	52639											
NRXN2	9379	broad.mit.edu	37	chr11	64418771	64418771	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtcattgccgttgcccgaGttgaacagaagaagcccatc	12	8	10	11	2	1	3	1	1	0	2	2	4	1	3	3	0	4	2	3	0	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:64418771G>T	uc001oar.2	-	15	3313	c.2874C>A	c.(2872-2874)AAC>AAA	p.N958K	NRXN2_uc001oas.2_Missense_Mutation_p.N918K|NRXN2_uc001oaq.2_Missense_Mutation_p.N625K	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CGTTGCCCGAGTTGAACAGAA	0.592											OREG0004037|OREG0021057	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)|type=REGULATORY REGION|Gene=AL137356|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	5	84					1.024e-07	1.09101e-07	1	1	0		T	64418771	T	T	64418771	3	4	84	1	0	0	0	0	1	0	0	0	10685	1020	36	5	2573	5	NRXN2	11	64418771	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	364289	64418771	70587745	797	52640											
NRXN2	9379	broad.mit.edu	37	chr11	64453315	64453315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgttgcgttgcagggtgcGgaaggccagtgtgatctcat	6	10	16	9	3	1	1	1	1	1	0	2	2	1	2	2	3	3	3	2	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:64453315G>A	uc001oar.2	-	7	1394	c.955C>T	c.(955-957)CGC>TGC	p.R319C	NRXN2_uc001oas.2_Missense_Mutation_p.R295C|NRXN2_uc001oaq.2_5'UTR	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						TGCAGGGTGCGGAAGGCCAGT	0.567													39	117					0	0	1	0	0		A	64453315	A	A	64453315	3	1	84	1	0	0	0	0	1	0	0	0	10685	1116	39	1	4524	1	NRXN2	11	64453315	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	34544	64453315	70553201	798	52641											
DKFZp761E198	91056	broad.mit.edu	37	chr11	65546326	65546326	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcatctccatctgccacCtttgccagcatttgcaggtg	6	12	10	13	0	2	0	0	0	2	0	3	0	2	0	4	2	4	3	4	2	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:65546326C>T	uc001ofo.3	-	1	1497	c.1467G>A	c.(1465-1467)AAG>AAA	p.K489K		NM_138368	NP_612377	Q2VPB7	YK046_HUMAN	hypothetical protein LOC91056	489							protein binding				0				READ - Rectum adenocarcinoma(159;0.167)		CATCTGCCACCTTTGCCAGCA	0.627													11	29					0	0	1	0	0		T	65546326	T	T	65546326	2	4	84	1	0	0	0	0	0	0	0	1	4549	680	24	4		4	DKFZp761E198	11	65546326	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1093011	65546326	69460190	799	52642											
YIF1A	10897	broad.mit.edu	37	chr11	66052202	66052202	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggagacgctgccgggggAcggggccccccatgctgtcg	4	5	18	14	4	0	1	0	0	0	1	1	3	0	2	4	5	2	3	4	5	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:66052202A>G	uc001ohk.3	-	8	970	c.788T>C	c.(787-789)GTC>GCC	p.V263A	YIF1A_uc001ohj.2_Missense_Mutation_p.V120A	NM_020470	NP_065203	O95070	YIF1A_HUMAN	Yip1 interacting factor homolog	263	Cytoplasmic (Potential).				protein transport|vesicle-mediated transport	centrosome|endoplasmic reticulum membrane|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane					0						CTGCCGGGGGACGGGGCCCCC	0.652													14	29					0	0	1	0	0		G	66052202	G	G	66052202	3	3	84	1	0	0	0	0	1	0	0	0	17501	275	10	3	97	3	YIF1A	11	66052202	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	505876	66052202	68954314	800	52643											
CD248	57124	broad.mit.edu	37	chr11	66083578	66083578	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgtgtccacacagcggtgCggatcatcctccgctggccg	5	9	12	15	4	2	0	1	0	1	0	5	1	5	1	4	3	2	1	4	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:66083578C>T	uc001ohm.1	-	1	938	c.921G>A	c.(919-921)CCG>CCA	p.P307P		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	307	Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	CACAGCGGTGCGGATCATCCT	0.617													10	47					0	0	1	0	0		T	66083578	T	T	66083578	2	4	84	1	0	0	0	0	0	0	0	1	2992	755	27	1		1	CD248	11	66083578	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	31376	66083578	68922938	801	52644											
SLC29A2	3177	broad.mit.edu	37	chr11	66131805	66131805	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggatgggcagccgggAcctctggggcacgtggcaca	9	4	18	10	2	1	1	0	0	1	1	1	4	1	3	2	6	1	3	2	6	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:66131805A>G	uc001oht.2	-	11	1379	c.1150T>C	c.(1150-1152)TCC>CCC	p.S384P	SLC29A2_uc001ohs.2_Missense_Mutation_p.S264P|SLC29A2_uc010rpb.1_RNA|SLC29A2_uc009yrf.2_Missense_Mutation_p.S264P|SLC29A2_uc001ohu.2_Missense_Mutation_p.S384P|SLC29A2_uc001ohv.2_Missense_Mutation_p.V339A	NM_001532	NP_001523	Q14542	S29A2_HUMAN	solute carrier family 29 (nucleoside	384					cell proliferation|nucleobase, nucleoside and nucleotide metabolic process	basolateral plasma membrane|integral to plasma membrane|nuclear membrane|nucleolus	nucleoside transmembrane transporter activity			ovary(1)	1						GGCAGCCGGGACCTCTGGGGC	0.607											OREG0021103	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	38					0	0	1	0	0		G	66131805	G	G	66131805	3	3	84	1	0	0	0	0	1	0	0	0	14560	275	10	3	228	3	SLC29A2	11	66131805	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	48227	66131805	68874711	802	52645											
NPAS4	266743	broad.mit.edu	37	chr11	66191809	66191809	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccagatccactaactaGcccactgcaaggccagttga	11	8	7	15	0	0	2	0	1	0	1	2	2	2	2	4	1	3	2	4	1	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:66191809G>T	uc001ohx.1	+	7	1624	c.1448G>T	c.(1447-1449)AGC>ATC	p.S483I	NPAS4_uc010rpc.1_Missense_Mutation_p.S273I	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	483					transcription, DNA-dependent		DNA binding|signal transducer activity				0						CCACTAACTAGCCCACTGCAA	0.552													103	303					2.76703e-59	3.16077e-59	1	1	0		T	66191809	T	T	66191809	3	4	84	1	0	0	0	0	1	0	0	0	10584	971	34	5	1474	5	NPAS4	11	66191809	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	60004	66191809	68814707	803	52646											
KDM2A	22992	broad.mit.edu	37	chr11	67018168	67018168	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgggctcaggatggagaCgaaagctggatgcagcggga	11	6	18	6	2	1	1	1	0	0	1	1	6	1	4	0	5	3	4	0	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:67018168C>T	uc001ojw.2	+	17	3531	c.2667C>T	c.(2665-2667)GAC>GAT	p.D889D	KDM2A_uc001ojx.2_Intron|KDM2A_uc001ojy.2_Silent_p.D583D|KDM2A_uc010rpn.1_Silent_p.D450D|KDM2A_uc001ojz.1_Silent_p.D347D|KDM2A_uc001oka.2_5'Flank	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	889	F-box.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						AGGATGGAGACGAAAGCTGGA	0.473													33	72					0	0	1	0	0		T	67018168	T	T	67018168	2	4	84	1	0	0	0	0	0	0	0	1	8140	535	19	1		1	KDM2A	11	67018168	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	826359	67018168	67988348	804	52647											
SSH3	54961	broad.mit.edu	37	chr11	67075058	67075058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaccaagcatgtgaggcagCtctaggcagcggccttgtac	9	7	13	12	1	1	1	0	1	1	0	1	1	1	1	2	3	4	6	2	3	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:67075058C>T	uc001okj.2	+	7	819	c.641C>T	c.(640-642)GCT>GTT	p.A214V	SSH3_uc001okk.2_RNA|SSH3_uc001okl.2_Missense_Mutation_p.A68V	NM_017857	NP_060327	Q8TE77	SSH3_HUMAN	slingshot homolog 3	214					regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton|nucleus	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			TGTGAGGCAGCTCTAGGCAGC	0.622													20	60					0	0	1	0	0		T	67075058	T	T	67075058	3	4	84	1	0	0	0	0	1	0	0	0	15211	797	28	2	667	2	SSH3	11	67075058	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	56890	67075058	67931458	805	52648											
CORO1B	57175	broad.mit.edu	37	chr11	67208817	67208817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacgtactgccaccagggtgCcccgacgggggtcgatgatg	7	6	15	13	4	0	1	0	1	0	0	1	3	0	1	4	3	3	1	4	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:67208817C>T	uc001olj.1	-	4	659	c.623G>A	c.(622-624)GGC>GAC	p.G208D	CORO1B_uc009yrs.1_RNA|CORO1B_uc001olk.1_Missense_Mutation_p.G208D|CORO1B_uc009yrt.1_RNA|CORO1B_uc009yru.1_RNA|CORO1B_uc001oll.1_Missense_Mutation_p.G208D|CORO1B_uc010rps.1_Missense_Mutation_p.G208D|CORO1B_uc009yrv.1_3'UTR	NM_020441	NP_065174	Q9BR76	COR1B_HUMAN	coronin, actin binding protein, 1B	208	WD 3.				actin cytoskeleton organization	actin cytoskeleton|cytoplasm	actin filament binding			large_intestine(1)|ovary(1)	2			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			CACCAGGGTGCCCCGACGGGG	0.617													48	122					0	0	1	0	0		T	67208817	T	T	67208817	3	4	84	1	0	0	0	0	1	0	0	0	3757	739	26	2	874	2	CORO1B	11	67208817	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	133759	67208817	67797699	806	52649											
MYEOV	26579	broad.mit.edu	37	chr11	69063839	69063839	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcctcctcctcctcctcAtcatcatcctcacttgttga	6	14	2	19	0	4	1	4	1	0	0	10	1	10	1	7	0	0	1	7	0	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:69063839A>C	uc001oov.2	+	3	1372	c.922A>C	c.(922-924)ATC>CTC	p.I308L	MYEOV_uc001oox.2_Intron|MYEOV_uc009ysl.2_Missense_Mutation_p.I308L|MYEOV_uc001oow.2_Missense_Mutation_p.I250L	NM_138768	NP_620123	Q96EZ4	MYEOV_HUMAN	myeloma overexpressed	308											0	all_lung(4;2.21e-19)|Lung NSC(4;6.13e-19)|Melanoma(5;0.00128)		LUSC - Lung squamous cell carcinoma(11;3.33e-11)|STAD - Stomach adenocarcinoma(18;0.00654)|LUAD - Lung adenocarcinoma(13;0.0713)	Kidney(183;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.00361)|LUSC - Lung squamous cell carcinoma(976;0.0153)		cctcctcctcatcatcatcct	0.194													3	7					0	0	1	0	0		C	69063839	C	C	69063839	3	2	84	1	0	0	0	0	1	0	0	0	10043	217	8	5	928	5	MYEOV	11	69063839	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1855022	69063839	65942677	807	52650											
KRTAP5-7	440050	broad.mit.edu	37	chr11	71238828	71238828	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgtgtccccgtgtgctGccagtgtaagatctgaggct	5	12	13	11	1	1	2	0	1	1	1	2	2	2	2	3	1	3	4	3	1	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:71238828G>C	uc001oqq.1	+	1	516	c.482G>C	c.(481-483)TGC>TCC	p.C161S		NM_001012503	NP_001012521	Q6L8G8	KRA57_HUMAN	keratin associated protein 5-7	161						keratin filament					0						CCCGTGTGCTGCCAGTGTAAG	0.363													84	196					0	0	1	0	0		C	71238828	C	C	71238828	3	2	84	1	0	0	0	0	1	0	0	0	8582	1319	46	5	484	5	KRTAP5-7	11	71238828	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2174989	71238828	63767688	808	52651											
CLPB	81570	broad.mit.edu	37	chr11	72004429	72004429	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctagatggtgttgcacacCttctcagggtgcagtggtgc	6	12	14	9	0	1	1	1	0	1	1	2	1	1	1	1	3	4	4	1	3	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:72004429C>A	uc001osj.2	-	17	2156	c.2106G>T	c.(2104-2106)AAG>AAT	p.K702N	CLPB_uc010rqx.1_Missense_Mutation_p.K657N|CLPB_uc010rqy.1_Missense_Mutation_p.K643N|CLPB_uc001osk.2_Missense_Mutation_p.K672N|CLPB_uc009ytg.2_RNA|CLPB_uc010rqz.1_Missense_Mutation_p.K501N|CLPB_uc001osi.2_Missense_Mutation_p.K310N	NM_030813	NP_110440	Q9H078	CLPB_HUMAN	caseinolytic peptidase B	702					cellular response to heat		ATP binding|nucleoside-triphosphatase activity|protein binding			pancreas(1)	1						TGTTGCACACCTTCTCAGGGT	0.592													32	57					1.61788e-16	1.80201e-16	1	1	0		A	72004429	A	A	72004429	3	1	84	1	0	0	0	0	1	0	0	0	3554	680	24	5	21	5	CLPB	11	72004429	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	765601	72004429	63002087	809	52652											
ARHGEF17	9828	broad.mit.edu	37	chr11	73021308	73021308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacttgacagccactctgcGgagagcaaagtcattcacct	11	8	10	12	1	3	2	2	1	1	1	3	4	3	3	2	2	3	1	2	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:73021308G>A	uc001otu.2	+	1	1646	c.1625G>A	c.(1624-1626)CGG>CAG	p.R542Q		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	542					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						GCCACTCTGCGGAGAGCAAAG	0.642													24	56					0	0	1	0	0		A	73021308	A	A	73021308	3	1	84	1	0	0	0	0	1	0	0	0	900	1116	39	1	1627	1	ARHGEF17	11	73021308	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1016879	73021308	61985208	810	52653											
DGAT2	84649	broad.mit.edu	37	chr11	75511517	75511517	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacaagcacaagaccaagttCggcctcccggagactgaggt	12	5	12	12	2	0	3	0	1	0	2	2	5	1	3	3	3	1	2	3	3	3	1	rs148751558	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:75511517C>T	uc001oxa.2	+	8	1390	c.1131C>T	c.(1129-1131)TTC>TTT	p.F377F	DGAT2_uc001oxb.2_Silent_p.F334F	NM_032564	NP_115953	Q96PD7	DGAT2_HUMAN	diacylglycerol O-acyltransferase 2	377	Cytoplasmic (Potential).				glycerol metabolic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	diacylglycerol O-acyltransferase activity				0	Ovarian(111;0.103)					AGACCAAGTTCGGCCTCCCGG	0.552													12	24					0	0	1	0	0		T	75511517	T	T	75511517	2	4	84	1	0	0	0	0	0	0	0	1	4464	883	31	1		1	DGAT2	11	75511517	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2490209	75511517	59494999	811	52654											
UVRAG	7405	broad.mit.edu	37	chr11	75852185	75852185	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagcaggccgggtccgccAgtgtccagcttccaggcgag	6	5	16	14	4	0	0	0	0	0	0	3	2	3	0	5	3	2	2	5	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:75852185A>G	uc001oxc.2	+	15	2069	c.1828A>G	c.(1828-1830)AGT>GGT	p.S610G	UVRAG_uc010rrw.1_Missense_Mutation_p.S509G|UVRAG_uc001oxd.2_Missense_Mutation_p.S238G|UVRAG_uc010rrx.1_Missense_Mutation_p.S238G|UVRAG_uc010rry.1_Missense_Mutation_p.S166G	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	610					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						CGGGTCCGCCAGTGTCCAGCT	0.602													21	76					0	0	1	0	0		G	75852185	G	G	75852185	3	3	84	1	0	0	0	0	1	0	0	0	17134	188	7	3	1886	3	UVRAG	11	75852185	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	340668	75852185	59154331	812	52655											
B3GNT6	192134	broad.mit.edu	37	chr11	76751336	76751336	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggccgccacctgttctcCggccagctcatggagggctc	4	7	12	18	3	2	0	1	0	1	0	4	1	2	1	6	4	1	3	6	4	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:76751336C>T	uc001oxw.2	+	2	829	c.741C>T	c.(739-741)TCC>TCT	p.S247S		NM_138706	NP_619651	Q6ZMB0	B3GN6_HUMAN	UDP-GlcNAc:betaGal	247	Lumenal (Potential).				O-glycan processing, core 3	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity|galactosyltransferase activity				0						ACCTGTTCTCCGGCCAGCTCA	0.677													8	16					0	0	1	0	0		T	76751336	T	T	76751336	2	4	84	1	0	0	0	0	0	0	0	1	1262	639	23	1		1	B3GNT6	11	76751336	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	899151	76751336	58255180	813	52656											
FAT3	120114	broad.mit.edu	37	chr11	92087572	92087572	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaaaagtgctatttacaaTatcagatggaaatacggata	17	11	9	4	1	1	1	1	0	0	1	1	4	1	4	0	3	3	1	0	3	9	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:92087572T>C	uc001pdj.3	+	1	2311	c.2294T>C	c.(2293-2295)ATA>ACA	p.I765T		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	765	Extracellular (Potential).|Cadherin 7.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CTATTTACAATATCAGATGGA	0.423										TCGA Ovarian(4;0.039)			41	85					0	0	1	0	0		C	92087572	C	C	92087572	3	2	84	1	0	0	0	0	1	0	0	0	5705	1406	49	3	2296	3	FAT3	11	92087572	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	15336236	92087572	42918944	814	52657											
SLC36A4	120103	broad.mit.edu	37	chr11	92930964	92930964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagctcctcgcgcctcgccGccccggcagccgccggcgtc	2	5	12	22	8	0	0	0	0	0	0	4	0	1	0	7	2	2	2	7	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:92930964G>A	uc001pdn.2	-	1	132	c.35C>T	c.(34-36)GCG>GTG	p.A12V		NM_152313	NP_689526	Q6YBV0	S36A4_HUMAN	solute carrier family 36 (proton/amino acid	12					L-alanine transport|proline transport|tryptophan transport	integral to membrane	symporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				GCGCCTCGCCGCCCCGGCAGC	0.766													6	20					0	0	1	0	0		A	92930964	A	A	92930964	3	1	84	1	0	0	0	0	1	0	0	0	14621	1087	38	1	1523	1	SLC36A4	11	92930964	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	843392	92930964	42075552	815	52658											
MAML2	84441	broad.mit.edu	37	chr11	95724831	95724831	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttccagtgtttggatttgaGcaggggttaggacttggact	7	14	14	6	0	0	1	0	1	0	0	1	4	1	4	1	5	1	3	1	5	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:95724831G>A	uc001pfw.1	-	3	3481	c.2196C>T	c.(2194-2196)TGC>TGT	p.C732C		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	732					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				TTGGATTTGAGCAGGGGTTAG	0.463			T	MECT1|CRTC3	salivary gland mucoepidermoid								19	79					0	0	1	0	0		A	95724831	A	A	95724831	2	1	84	1	0	0	0	0	0	0	0	1	9224	963	34	2		2	MAML2	11	95724831	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2793867	95724831	39281685	816	52659											
PGR	5241	broad.mit.edu	37	chr11	100998971	100998971	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccagggcgaccctgggCgctgagaagcgggaatcttc	8	6	14	13	3	1	1	0	1	1	1	3	4	2	2	3	3	1	1	3	3	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:100998971C>T	uc001pgh.2	-	1	1574	c.831G>A	c.(829-831)GCG>GCA	p.A277A	PGR_uc001pgi.2_Silent_p.A277A|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	277	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	CGACCCTGGGCGCTGAGAAGC	0.731													5	20					0	0	1	0	0		T	100998971	T	T	100998971	2	4	84	1	0	0	0	0	0	0	0	1	11824	755	27	1		1	PGR	11	100998971	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5274140	100998971	34007545	817	52660											
MMP8	4317	broad.mit.edu	37	chr11	102593290	102593290	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggcttccccgtcacatTcaacccaaaaaatcgctgca	12	10	5	14	2	2	0	2	0	0	0	4	0	3	0	3	1	2	3	3	1	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:102593290T>G	uc001phe.2	-	2	316	c.217A>C	c.(217-219)AAT>CAT	p.N73H	MMP8_uc010rut.1_Missense_Mutation_p.N8H|MMP8_uc010ruu.1_Missense_Mutation_p.N50H	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	73					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		CCCGTCACATTCAACCCAAAA	0.443													31	111					0	0	1	0	0		G	102593290	G	G	102593290	3	3	84	1	0	0	0	0	1	0	0	0	9686	1783	62	5	1222	5	MMP8	11	102593290	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1594319	102593290	32413226	818	52661											
DDI1	414301	broad.mit.edu	37	chr11	103908681	103908681	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatggtaagtgggcaagaTgagtcttcggacaaggaaat	14	8	15	4	1	1	2	0	1	1	1	2	5	1	5	0	5	0	2	0	5	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:103908681T>C	uc001phr.2	+	1	1374	c.1131T>C	c.(1129-1131)GAT>GAC	p.D377D	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	377					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		GTGGGCAAGATGAGTCTTCGG	0.453													13	46					0	0	1	0	0		C	103908681	C	C	103908681	2	2	84	1	0	0	0	0	0	0	0	1	4331	1461	51	3		3	DDI1	11	103908681	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1315391	103908681	31097835	819	52662											
NPAT	4863	broad.mit.edu	37	chr11	108043984	108043984	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatttctattttactcttgTgaacttcactagaatctgat	11	19	4	7	0	4	3	1	2	3	1	4	3	4	3	0	0	2	0	0	0	6	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:108043984T>C	uc001pjz.3	-	13	1829	c.1727A>G	c.(1726-1728)CAC>CGC	p.H576R	NPAT_uc001pka.2_Missense_Mutation_p.H371R	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	576					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		TTTACTCTTGTGAACTTCACT	0.294													24	42					0	0	1	0	0		C	108043984	C	C	108043984	3	2	84	1	0	0	0	0	1	0	0	0	10585	1696	59	3	2580	3	NPAT	11	108043984	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	4135303	108043984	26962532	820	52663											
ATM	472	broad.mit.edu	37	chr11	108143578	108143578	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctgcagagtcaatcaatAggtaatgggtcaaatattca	14	11	10	6	0	4	1	4	0	0	1	4	1	4	1	0	3	1	3	0	3	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:108143578A>G	uc001pkb.1	+	22	3668	c.3283A>G	c.(3283-3285)AGA>GGA	p.R1095G	ATM_uc009yxr.1_Missense_Mutation_p.R1095G	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1095					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		GTCAATCAATAGGTAATGGGT	0.343			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			13	49					0	0	1	0	0		G	108143578	G	G	108143578	3	3	84	1	0	0	0	0	1	0	0	0	1110	434	15	3	3365	3	ATM	11	108143578	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	99594	108143578	26862938	821	52664											
SIK2	23235	broad.mit.edu	37	chr11	111593411	111593411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccagccttctgtcaaaggCccagaacacctgtcagcttt	9	9	8	15	0	3	1	2	0	1	1	3	1	3	1	4	1	3	1	4	1	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:111593411C>T	uc001plt.2	+	14	2196	c.2078C>T	c.(2077-2079)GCC>GTC	p.A693V		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	693					intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						CTGTCAAAGGCCCAGAACACC	0.517													23	107					0	0	1	0	0		T	111593411	T	T	111593411	3	4	84	1	0	0	0	0	1	0	0	0	14343	739	26	2	2132	2	SIK2	11	111593411	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3449833	111593411	23413105	822	52665											
ZW10	9183	broad.mit.edu	37	chr11	113618308	113618308	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggctgccacaatcacaTcctggcactttttgtttgca	7	15	7	12	0	2	0	1	0	1	0	3	0	3	0	2	2	2	4	2	2	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:113618308T>C	uc001poe.2	-	9	1254	c.1217A>G	c.(1216-1218)GAT>GGT	p.D406G	ZW10_uc009yyv.2_RNA	NM_004724	NP_004715	O43264	ZW10_HUMAN	centromere/kinetochore protein zw10	406					cell division|ER to Golgi vesicle-mediated transport|establishment of mitotic spindle orientation|meiosis|mitotic cell cycle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|protein complex assembly|protein localization to kinetochore|protein transport|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|endoplasmic reticulum membrane|kinetochore microtubule|nucleus|spindle pole	centromeric DNA binding|protein binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.84e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000237)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.94e-06)|Epithelial(105;0.000103)|all cancers(92;0.000786)		CACAATCACATCCTGGCACTT	0.348													46	117					0	0	1	0	0		C	113618308	C	C	113618308	3	2	84	1	0	0	0	0	1	0	0	0	18272	1435	50	3	1154	3	ZW10	11	113618308	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2024897	113618308	21388208	823	52666											
MLL	4297	broad.mit.edu	37	chr11	118391558	118391558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaatgcccatgcgcttccGgcacttaaaaaagacttcta	12	9	7	13	2	1	1	0	0	1	1	2	1	2	1	3	1	2	2	3	1	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:118391558G>A	uc001pta.2	+	34	11485	c.11462G>A	c.(11461-11463)CGG>CAG	p.R3821Q	MLL_uc001ptb.2_Missense_Mutation_p.R3824Q	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3821					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		ATGCGCTTCCGGCACTTAAAA	0.368			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								10	42					0	0	1	0	0		A	118391558	A	A	118391558	3	1	84	1	0	0	0	0	1	0	0	0	9638	1116	39	1	11596	1	MLL	11	118391558	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4773250	118391558	16614958	824	52667											
BCL9L	283149	broad.mit.edu	37	chr11	118769762	118769762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtatgcgtcgcccatgcGcccagccatggctttgccca	5	9	12	15	3	0	0	0	0	0	0	1	0	0	0	4	2	4	2	4	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:118769762G>A	uc001pug.2	-	8	4827	c.3862C>T	c.(3862-3864)CGC>TGC	p.R1288C	BCL9L_uc009zal.2_Missense_Mutation_p.R1283C	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	1288	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		TCGCCCATGCGCCCAGCCATG	0.692													9	39					0	0	1	0	0		A	118769762	A	A	118769762	3	1	84	1	0	0	0	0	1	0	0	0	1383	1087	38	1	641	1	BCL9L	11	118769762	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	378204	118769762	16236754	825	52668											
HINFP	25988	broad.mit.edu	37	chr11	119004838	119004838	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgcggctgcagctggttcGctacgagagtgtagagctga	8	10	15	8	3	0	3	0	1	0	2	1	4	0	3	0	2	5	7	0	2	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:119004838G>A	uc001pvp.2	+	11	1373	c.1184G>A	c.(1183-1185)CGC>CAC	p.R395H	HINFP_uc001pvq.2_Missense_Mutation_p.R395H|HINFP_uc001pvr.2_Missense_Mutation_p.R148H	NM_015517	NP_056332	Q9BQA5	HINFP_HUMAN	MBD2 (methyl-CpG-binding protein)-interacting	395	Interaction with NPAT.|Required for activation of histone H4 transcription and contributes to DNA- binding.				DNA damage checkpoint|DNA repair|establishment of protein localization|in utero embryonic development|myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	enzyme binding|histone binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						CAGCTGGTTCGCTACGAGAGT	0.557											OREG0021397	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	73					0	0	1	0	0		A	119004838	A	A	119004838	3	1	84	1	0	0	0	0	1	0	0	0	7126	1087	38	1	1218	1	HINFP	11	119004838	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	235076	119004838	16001678	826	52669											
USP2	9099	broad.mit.edu	37	chr11	119228271	119228271	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtgagcttgctggttcGgatcctggattctgagaacc	6	14	13	8	1	1	2	0	2	1	1	3	5	2	4	2	3	3	4	2	3	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:119228271G>A	uc001pwm.3	-	11	1826	c.1531C>T	c.(1531-1533)CGA>TGA	p.R511*	USP2_uc001pwl.3_Nonsense_Mutation_p.R302*|USP2_uc001pwn.3_Nonsense_Mutation_p.R268*	NM_004205	NP_004196	O75604	UBP2_HUMAN	ubiquitin specific peptidase 2 isoform a	511					cell cycle|muscle organ development|negative regulation of transcription from RNA polymerase II promoter|positive regulation of mitotic cell cycle|protein deubiquitination|protein stabilization|ubiquitin-dependent protein catabolic process	nucleus|perinuclear region of cytoplasm	cyclin binding|cysteine-type endopeptidase activity|metal ion binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity			ovary(2)|urinary_tract(1)|skin(1)	4		all_hematologic(192;4.65e-05)|Breast(348;0.0101)|all_neural(223;0.0218)|Medulloblastoma(222;0.0425)|Renal(330;0.157)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.000513)|Colorectal(284;0.0116)|Lung(307;0.0853)|LUSC - Lung squamous cell carcinoma(976;0.0889)		ttgctggttcggatcctggat	0.333													28	81					0	0	1	0	0		A	119228271	A	A	119228271	4	1	84	1	0	0	0	0	0	1	0	0	17077	1124	39	1	298	1	USP2	11	119228271	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	223433	119228271	15778245	827	52670											
SORL1	6653	broad.mit.edu	37	chr11	121475017	121475017	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgctcggacgagagcgaTgaaaaggcctgcagtggtga	11	6	16	8	3	0	3	0	2	0	1	1	7	0	4	1	3	3	2	1	3	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:121475017T>C	uc001pxx.2	+	33	4715	c.4635T>C	c.(4633-4635)GAT>GAC	p.D1545D	SORL1_uc010rzp.1_Silent_p.D391D|SORL1_uc010rzq.1_Silent_p.D160D	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1545	Extracellular (Potential).|LDL-receptor class A 11.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		ACGAGAGCGATGAAAAGGCCT	0.542													18	73					0	0	1	0	0		C	121475017	C	C	121475017	2	2	84	1	0	0	0	0	0	0	0	1	14959	1461	51	3		3	SORL1	11	121475017	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2246746	121475017	13531499	828	52671											
OR4D5	219875	broad.mit.edu	37	chr11	123810952	123810952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcctggtgaccctgatgtGttttctggtgcttctgggat	3	16	14	8	0	2	2	0	2	2	0	2	3	2	3	2	4	1	2	2	4	0	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:123810952G>A	uc001pzk.1	+	1	629	c.629G>A	c.(628-630)TGT>TAT	p.C210Y		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		ACCCTGATGTGTTTTCTGGTG	0.512													74	223					0	0	1	0	0		A	123810952	A	A	123810952	3	1	84	1	0	0	0	0	1	0	0	0	11076	1377	48	4	631	4	OR4D5	11	123810952	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2335935	123810952	11195564	829	52672											
OR10G7	390265	broad.mit.edu	37	chr11	123909354	123909354	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatggccaggtagcgatcatAggacatgactgtgtagagga	12	8	15	6	1	1	2	1	1	0	1	1	6	1	4	1	4	1	2	1	4	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:123909354A>G	uc001pzq.1	-	1	355	c.355T>C	c.(355-357)TAT>CAT	p.Y119H		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		TAGCGATCATAGGACATGACT	0.577													35	156					0	0	1	0	0		G	123909354	G	G	123909354	3	3	84	1	0	0	0	0	1	0	0	0	10921	420	15	3	584	3	OR10G7	11	123909354	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	98402	123909354	11097162	830	52673											
CHEK1	1111	broad.mit.edu	37	chr11	125523731	125523731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaaatattggttgacttcCggctttctaaggtattttta	11	18	7	5	1	1	1	0	1	1	0	2	1	2	1	1	3	0	3	1	3	6	11			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:125523731C>T	uc009zbo.2	+	12	2216	c.1324C>T	c.(1324-1326)CGG>TGG	p.R442W	CHEK1_uc010sbh.1_Missense_Mutation_p.R458W|CHEK1_uc010sbi.1_Intron|CHEK1_uc001qcf.3_Missense_Mutation_p.R442W|CHEK1_uc009zbp.2_Missense_Mutation_p.R442W|CHEK1_uc001qcg.3_Missense_Mutation_p.R442W|CHEK1_uc009zbq.2_Missense_Mutation_p.R398W|CHEK1_uc001qci.1_RNA|CHEK1_uc001qcj.2_Missense_Mutation_p.R90W	NM_001114122	NP_001107594	O14757	CHK1_HUMAN	checkpoint kinase 1	442	Autoinhibitory region.				cellular response to mechanical stimulus|DNA repair|DNA replication|gamete generation|negative regulation of cell proliferation|reciprocal meiotic recombination|regulation of cyclin-dependent protein kinase activity|replicative senescence	condensed nuclear chromosome|microtubule organizing center|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|skin(1)	6	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0748)		GGTTGACTTCCGGCTTTCTAA	0.269								Other_conserved_DNA_damage_response_genes					14	41					0	0	1	0	0		T	125523731	T	T	125523731	3	4	84	1	0	0	0	0	1	0	0	0	3337	643	23	1	1366	1	CHEK1	11	125523731	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1614377	125523731	9482785	831	52674											
ARHGAP32	9743	broad.mit.edu	37	chr11	128840993	128840993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcactgatgaaggcagacGcagggtcatccatggctcga	10	8	13	10	2	2	3	2	2	0	1	4	4	3	3	1	3	0	3	1	3	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:128840993G>A	uc009zcp.2	-	22	4073	c.4073C>T	c.(4072-4074)GCG>GTG	p.A1358V	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.A317V|ARHGAP32_uc001qez.2_Missense_Mutation_p.A1009V	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1358					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						GAAGGCAGACGCAGGGTCATC	0.537													12	65					0	0	1	0	0		A	128840993	A	A	128840993	3	1	84	1	0	0	0	0	1	0	0	0	881	1087	38	1	2194	1	ARHGAP32	11	128840993	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3317262	128840993	6165523	832	52675											
ADAMTS15	170689	broad.mit.edu	37	chr11	130332143	130332143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaccgacttcctggacagcGggcacggtaagccaggacgg	9	5	14	13	4	1	0	1	0	0	0	2	3	2	2	3	5	2	2	3	5	1	2	rs144157651	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:130332143G>A	uc010scd.1	+	3	1252	c.1252G>A	c.(1252-1254)GGG>AGG	p.G418R		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	418	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		CCTGGACAGCGGGCACGGTAA	0.647													13	36					0	0	1	0	0		A	130332143	A	A	130332143	3	1	84	1	0	0	0	0	1	0	0	0	260	1116	39	1	1262	1	ADAMTS15	11	130332143	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1491150	130332143	4674373	833	52676											
SNX19	399979	broad.mit.edu	37	chr11	130785480	130785480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggctcctggctcacggaacGgtaccaagataacacaaaat	14	7	9	11	2	1	1	1	0	0	1	2	2	2	2	2	4	3	3	2	4	6	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:130785480G>A	uc001qgk.3	-	1	903	c.355C>T	c.(355-357)CGT>TGT	p.R119C	SNX19_uc010sce.1_Intron|SNX19_uc010scf.1_Intron|SNX19_uc010scg.1_Intron|SNX19_uc001qgl.3_Missense_Mutation_p.R119C|SNX19_uc009zcx.1_Intron	NM_014758	NP_055573	Q92543	SNX19_HUMAN	sorting nexin 19	119	PXA.				cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|lung(2)	4	all_hematologic(175;0.0597)	Lung NSC(97;0.000272)|all_lung(97;0.000608)|Breast(109;0.000962)|all_neural(223;0.0298)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;0.0195)|Lung(977;0.233)		CTCACGGAACGGTACCAAGAT	0.542													24	53					0	0	1	0	0		A	130785480	A	A	130785480	3	1	84	1	0	0	0	0	1	0	0	0	14915	1116	39	1	2667	1	SNX19	11	130785480	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	453337	130785480	4221036	834	52677											
NTM	50863	broad.mit.edu	37	chr11	132205024	132205024	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcttctggtcttgcaccTgcttctcaaattttgatgtg	5	17	8	11	0	4	1	1	1	4	0	5	1	4	1	2	1	2	2	2	1	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:132205024T>C	uc001qgp.2	+	7	1683	c.1019T>C	c.(1018-1020)CTG>CCG	p.L340P	NTM_uc001qgm.2_Missense_Mutation_p.L340P|NTM_uc010sch.1_Missense_Mutation_p.L342P|NTM_uc010sci.1_Missense_Mutation_p.L351P|NTM_uc010scj.1_Missense_Mutation_p.L299P|NTM_uc001qgq.2_Missense_Mutation_p.L351P|NTM_uc001qgr.2_Missense_Mutation_p.L122P	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	340					cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						GTCTTGCACCTGCTTCTCAAA	0.602													24	80					0	0	1	0	0		C	132205024	C	C	132205024	3	2	84	1	0	0	0	0	1	0	0	0	10718	1580	55	3	1185	3	NTM	11	132205024	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1419544	132205024	2801492	835	52678											
GLB1L3	112937	broad.mit.edu	37	chr11	134179567	134179567	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatatgagatctccttcAatgtatatatgttccatggt	12	16	6	7	0	3	1	2	1	1	1	5	2	4	1	2	1	0	2	2	1	6	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr11:134179567A>G	uc009zdf.2	+	11	1369	c.1009A>G	c.(1009-1011)AAT>GAT	p.N337D	GLB1L3_uc010scu.1_Missense_Mutation_p.N38D|GLB1L3_uc001qho.3_RNA	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3	337					carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		GATCTCCTTCAATGTATATAT	0.438													9	16					0	0	1	0	0		G	134179567	G	G	134179567	3	3	84	1	0	0	0	0	1	0	0	0	6445	130	5	3	1051	3	GLB1L3	11	134179567	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1974543	134179567	826949	836	52679											
SLC6A12	6539	broad.mit.edu	37	chr12	310931	310931	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggcccagcacctactccCagaattccatgacaggtgag	11	7	10	13	0	0	3	0	2	0	1	2	3	2	3	4	2	2	1	4	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:310931C>A	uc001qhz.2	-	7	1118	c.575G>T	c.(574-576)TGG>TTG	p.W192L	SLC6A12_uc001qhx.2_5'Flank|SLC6A12_uc001qhy.2_5'Flank|SLC6A12_uc001qia.2_Missense_Mutation_p.W192L|SLC6A12_uc001qib.2_Missense_Mutation_p.W192L|SLC6A12_uc009zdh.1_Missense_Mutation_p.W192L|SLC6A12_uc009zdi.1_RNA	NM_003044	NP_003035	P48065	S6A12_HUMAN	solute carrier family 6 (neurotransmitter	192	Extracellular (Potential).				cellular nitrogen compound metabolic process|neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(10;0.0172)|all_epithelial(11;0.0283)|all_lung(10;0.0392)|Lung NSC(10;0.0567)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00227)			CACCTACTCCCAGAATTCCAT	0.488													13	54					0.000151284	0.000156124	1	1	0		A	310931	A	A	310931	3	1	84	1	0	0	0	0	1	0	0	0	14700	595	21	5	1313	5	SLC6A12	12	310931	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08		310931	133540964	837	52680											
CACNA2D4	93589	broad.mit.edu	37	chr12	1904923	1904923	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaggaggaggttactgttgGgaatctgctgcaccacaaat	11	9	14	7	0	1	0	0	0	1	0	1	4	1	4	1	5	3	4	1	5	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:1904923G>A	uc001qjp.2	-	36	3368	c.3137C>T	c.(3136-3138)CCC>CTC	p.P1046L	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc001qjo.2_Missense_Mutation_p.P189L|CACNA2D4_uc001qjs.1_Missense_Mutation_p.P113L|CACNA2D4_uc010sdw.1_Missense_Mutation_p.P176L|CACNA2D4_uc009zdr.1_RNA	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	1046	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		GTTACTGTTGGGAATCTGCTG	0.547													31	108					0	0	1	0	0		A	1904923	A	A	1904923	3	1	84	1	0	0	0	0	1	0	0	0	2554	1232	43	4	288	4	CACNA2D4	12	1904923	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1593992	1904923	131946972	838	52681											
ITFG2	55846	broad.mit.edu	37	chr12	2929298	2929298	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgggctacacagaccgtgtGgtgcgagctttccgctggga	6	9	16	10	3	0	1	0	0	0	1	1	3	1	2	2	3	3	3	2	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:2929298G>T	uc001qlb.1	+	5	517	c.453G>T	c.(451-453)GTG>GTT	p.V151V	ITFG2_uc010seb.1_5'UTR|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	151	FG-GAP 2; atypical.										0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			CAGACCGTGTGGTGCGAGCTT	0.592													13	44					3.45872e-05	3.59921e-05	1	1	0		T	2929298	T	T	2929298	2	4	84	1	0	0	0	0	0	0	0	1	7886	1335	47	5		5	ITFG2	12	2929298	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1024375	2929298	130922597	839	52682											
FOXM1	2305	broad.mit.edu	37	chr12	2983629	2983629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgagaatcagtggccgacGggggctagttttcattatga	9	13	13	6	2	2	2	2	2	0	1	2	4	2	2	1	3	0	2	1	3	3	5	rs141301985	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:2983629G>A	uc001qlf.2	-	2	281	c.16C>T	c.(16-18)CGT>TGT	p.R6C	TULP3_uc010sef.1_5'Flank|FOXM1_uc001qle.2_Missense_Mutation_p.R6C|FOXM1_uc001qlg.2_Missense_Mutation_p.R6C|FOXM1_uc009zea.2_Missense_Mutation_p.R6C|FOXM1_uc009zeb.2_Missense_Mutation_p.R6C|C12orf32_uc001qlh.2_5'Flank|C12orf32_uc010see.1_5'Flank|C12orf32_uc001qli.2_5'Flank	NM_021953	NP_068772	Q08050	FOXM1_HUMAN	forkhead box M1 isoform 2	6					cell cycle|embryo development|liver development|negative regulation of cell aging|negative regulation of stress-activated MAPK cascade|negative regulation of transcription from RNA polymerase II promoter|pattern specification process|positive regulation of cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of cell growth|regulation of cell proliferation|regulation of oxygen and reactive oxygen species metabolic process|regulation of Ras protein signal transduction|regulation of reactive oxygen species metabolic process|regulation of sequence-specific DNA binding transcription factor activity|tissue development|transcription from RNA polymerase II promoter|vasculogenesis	cytoplasm|transcription factor complex	DNA bending activity|DNA binding|DNA binding|double-stranded DNA binding|promoter binding|protein binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|transcription factor binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.000622)			AGTGGCCGACGGGGGCTAGTT	0.473													56	119					0	0	1	0	0		A	2983629	A	A	2983629	3	1	84	1	0	0	0	0	1	0	0	0	6032	1116	39	1	2425	1	FOXM1	12	2983629	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	54331	2983629	130868266	840	52683											
C12orf5	57103	broad.mit.edu	37	chr12	4460518	4460518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtgccctgtgtttacacCgcccggaggagagacgctgg	8	7	15	11	3	0	2	0	0	0	2	0	5	0	4	3	3	2	2	3	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:4460518C>T	uc001qmp.2	+	5	435	c.356C>T	c.(355-357)CCG>CTG	p.P119L		NM_020375	NP_065108	Q9NQ88	TIGAR_HUMAN	TP53-induced glycolysis and apoptosis regulator	119						intracellular	fructose-2,6-bisphosphate 2-phosphatase activity			skin(1)	1			all cancers(3;1.15e-07)|Colorectal(7;0.00165)|OV - Ovarian serous cystadenocarcinoma(31;0.00596)|COAD - Colon adenocarcinoma(12;0.0229)|GBM - Glioblastoma multiforme(3;0.0266)|STAD - Stomach adenocarcinoma(119;0.206)			GTGTTTACACCGCCCGGAGGA	0.498													19	52					0	0	1	0	0		T	4460518	T	T	4460518	3	4	84	1	0	0	0	0	1	0	0	0	1697	652	23	1	374	1	C12orf5	12	4460518	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1476889	4460518	129391377	841	52684											
AKAP3	10566	broad.mit.edu	37	chr12	4737317	4737317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctctctggcataatctcCattacgagattcaaacactt	12	12	4	13	1	3	1	1	0	2	1	5	2	3	1	2	1	2	1	2	1	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:4737317C>T	uc001qnb.3	-	4	980	c.751G>A	c.(751-753)GGA>AGA	p.G251R		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	251					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						GCATAATCTCCATTACGAGAT	0.458													23	84					0	0	1	0	0		T	4737317	T	T	4737317	3	4	84	1	0	0	0	0	1	0	0	0	452	603	21	4	1818	4	AKAP3	12	4737317	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	276799	4737317	129114578	842	52685											
CD4	920	broad.mit.edu	37	chr12	6923959	6923959	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacacccacctgcttcagggGcagagcctgaccctgacctt	8	7	10	16	0	1	3	1	2	0	1	1	4	1	3	5	2	2	2	5	2	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:6923959G>A	uc001qqv.1	+	5	653	c.408G>A	c.(406-408)GGG>GGA	p.G136G	CD4_uc009zez.1_Silent_p.G81G|CD4_uc009zfa.1_RNA|CD4_uc009zfb.1_RNA|CD4_uc010sfj.1_5'UTR|CD4_uc009zfc.1_5'UTR|CD4_uc010sfk.1_5'UTR|CD4_uc010sfl.1_5'UTR|CD4_uc010sfm.1_5'UTR	NM_000616	NP_000607	P01730	CD4_HUMAN	CD4 antigen precursor	136	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|entry into host cell|immune response|induction by virus of host cell-cell fusion|initiation of viral infection|maintenance of protein location in cell|positive regulation of interleukin-2 biosynthetic process|positive regulation of protein kinase activity|protein palmitoleylation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|T cell selection|transmembrane receptor protein tyrosine kinase signaling pathway	early endosome|endoplasmic reticulum membrane|integral to membrane|T cell receptor complex	coreceptor activity|extracellular matrix structural constituent|glycoprotein binding|MHC class II protein binding|protein homodimerization activity|protein kinase binding|transmembrane receptor activity|zinc ion binding				0		Myeloproliferative disorder(1001;0.0122)				TGCTTCAGGGGCAGAGCCTGA	0.577													46	120					0	0	1	0	0		A	6923959	A	A	6923959	2	1	84	1	0	0	0	0	0	0	0	1	3017	1190	42	2		2	CD4	12	6923959	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2186642	6923959	126927936	843	52686											
CLSTN3	9746	broad.mit.edu	37	chr12	7295853	7295853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtggcttacatgaacaCtctgcgctttgccacgcccg	7	10	10	14	3	1	1	0	1	1	0	1	1	1	1	2	1	4	3	2	1	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:7295853C>T	uc001qsr.2	+	12	2071	c.1793C>T	c.(1792-1794)ACT>ATT	p.T598I	CLSTN3_uc001qss.2_Missense_Mutation_p.T610I	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	598	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						TACATGAACACTCTGCGCTTT	0.587													52	148					0	0	1	0	0		T	7295853	T	T	7295853	3	4	84	1	0	0	0	0	1	0	0	0	3566	565	20	4	1839	4	CLSTN3	12	7295853	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	371894	7295853	126556042	844	52687											
PRB4	5545	broad.mit.edu	37	chr12	11461619	11461619	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgtgggggtggtctttCtggctttcctggatgaggtg	2	16	16	7	0	2	1	0	1	2	0	4	2	4	2	2	6	0	1	2	6	0	3	rs1063752		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:11461619C>A	uc001qzf.1	-	3	332	c.298G>T	c.(298-300)GAA>TAA	p.E100*	PRB4_uc001qzt.2_Nonsense_Mutation_p.E100*	NM_002723	NP_002714	P10163	PRB4_HUMAN	proline-rich protein BstNI subfamily 4	121	9.5 X 21 AA tandem repeats of K-P-[EQ]- [GR]-[PR]-[PR]-P-Q-G-G-N-Q-[PS]-[QH]- [RG]-[PT]-P-P-[PH]-P-G.|5.		Missing (in allele M and allele S).			extracellular region				ovary(1)	1						GGTGGTCTTTCTGGCTTTCCT	0.617										HNSCC(22;0.051)			52	544					2.72615e-36	3.10796e-36	1	1	0		A	11461619	A	A	11461619	4	1	84	1	0	0	0	0	0	1	0	0	12467	922	32	5	449	5	PRB4	12	11461619	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4165766	11461619	122390276	845	52688											
SLCO1C1	53919	broad.mit.edu	37	chr12	20886040	20886040	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taactgtctcctaccaagggTatgttccctcattaaatagt	11	14	6	10	0	2	0	1	0	1	0	4	0	3	0	3	1	2	2	3	1	7	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:20886040T>C	uc001rej.3	+	11	1737	c.1382_splice	c.e11+2	p.G461_splice	SLCO1C1_uc010sii.1_Splice_Site_p.G461_splice|SLCO1C1_uc010sij.1_Splice_Site_p.G412_splice|SLCO1C1_uc009zip.2_Splice_Site_p.G295_splice|SLCO1C1_uc001rei.2_Splice_Site_p.G461_splice|SLCO1C1_uc010sik.1_Splice_Site_p.G343_splice	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,						sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					CTACCAAGGGTATGTTCCCTC	0.363													34	68					0	0	1	0	0		C	20886040	C	C	20886040	5	2	84	1	0	0	0	0	0	0	1	0	14750	1652	57	3	1418	3	SLCO1C1	12	20886040	Splice_Site	SNP	T	TCGA-BR-8591-01A-11D-2394-08	9424421	20886040	112965855	846	52689											
BCAT1	586	broad.mit.edu	37	chr12	25054761	25054761	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttaccttaaaagtccccAccacctcttttgatcctcct	10	13	2	16	0	1	1	0	1	1	0	4	1	4	1	7	0	2	0	7	0	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:25054761A>G	uc001rgd.3	-	2	507	c.65T>C	c.(64-66)GTG>GCG	p.V22A	BCAT1_uc001rgc.2_Missense_Mutation_p.V21A|BCAT1_uc010six.1_Missense_Mutation_p.V34A|BCAT1_uc010siy.1_Missense_Mutation_p.V22A|BCAT1_uc001rge.3_Intron	NM_005504	NP_005495	P54687	BCAT1_HUMAN	branched chain aminotransferase 1, cytosolic	22					branched chain family amino acid biosynthetic process|branched chain family amino acid catabolic process|cell proliferation|G1/S transition of mitotic cell cycle	cytosol	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			lung(1)|breast(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Ovarian(17;0.107)|Colorectal(261;0.196)				Gabapentin(DB00996)|L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|L-Valine(DB00161)|Pyridoxal Phosphate(DB00114)	AAAAGTCCCCACCACCTCTTT	0.428													10	35					0	0	1	0	0		G	25054761	G	G	25054761	3	3	84	1	0	0	0	0	1	0	0	0	1355	159	6	3	1135	3	BCAT1	12	25054761	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	4168721	25054761	108797134	847	52690											
PPFIBP1	8496	broad.mit.edu	37	chr12	27840346	27840346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtctctgaaggttgtaaGtgtgctacaccatctcagta	10	13	9	9	0	2	1	1	1	2	0	4	1	2	1	1	1	2	4	1	1	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:27840346G>A	uc001ric.1	+	24	2671	c.2294G>A	c.(2293-2295)AGT>AAT	p.S765N	PPFIBP1_uc010sjr.1_Missense_Mutation_p.S596N|PPFIBP1_uc001rib.1_Missense_Mutation_p.S759N|PPFIBP1_uc001ria.2_Missense_Mutation_p.S734N|PPFIBP1_uc001rid.1_Missense_Mutation_p.S612N|PPFIBP1_uc001rif.1_Missense_Mutation_p.S272N	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	765	SAM 2.				cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					AAGGTTGTAAGTGTGCTACAC	0.478													26	82					0	0	1	0	0		A	27840346	A	A	27840346	3	1	84	1	0	0	0	0	1	0	0	0	12332	1029	36	4	2408	4	PPFIBP1	12	27840346	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2785585	27840346	106011549	848	52691											
DBX2	440097	broad.mit.edu	37	chr12	45429851	45429851	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacaggacccaccgcagcaCgccgagtagaatggcggggt	10	3	15	13	5	0	1	0	0	0	1	0	4	0	2	3	4	1	3	3	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:45429851C>T	uc001rok.1	-	2	622	c.450G>A	c.(448-450)GCG>GCA	p.A150A		NM_001004329	NP_001004329	Q6ZNG2	DBX2_HUMAN	developing brain homeobox 2	150						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Lung SC(27;0.192)	Lung NSC(34;0.142)		GBM - Glioblastoma multiforme(48;0.0515)		caccgcagcacgccgagtaga	0.065													10	19					0	0	1	0	0		T	45429851	T	T	45429851	2	4	84	1	0	0	0	0	0	0	0	1	4263	523	19	1		1	DBX2	12	45429851	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	17589505	45429851	88422044	849	52692											
SFRS2IP	9169	broad.mit.edu	37	chr12	46320453	46320453	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctatgtttgtcagcagaatTtggatcatcagcatctagat	11	15	8	7	0	5	2	3	0	2	2	5	3	5	3	0	1	2	3	0	1	3	4	rs150900606	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:46320453T>C	uc001rox.2	-	11	3318	c.3031A>G	c.(3031-3033)AAT>GAT	p.N1011D	SFRS2IP_uc001row.2_Missense_Mutation_p.N696D|SFRS2IP_uc001roy.1_Missense_Mutation_p.N1085D	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	1011					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		TCAGCAGAATTTGGATCATCA	0.368													8	185					0	0	1	0	0		C	46320453	C	C	46320453	3	2	84	1	0	0	0	0	1	0	0	0	14202	1841	64	3	1380	3	SFRS2IP	12	46320453	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	890602	46320453	87531442	850	52693											
RAPGEF3	10411	broad.mit.edu	37	chr12	48134734	48134734	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggctccagtcgtggtcCgtcagctggcctgccaggtc	6	8	14	13	2	1	1	1	0	0	1	5	1	3	1	4	4	2	2	4	4	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:48134734C>T	uc009zkp.2	-	19	2327	c.1887G>A	c.(1885-1887)ACG>ACA	p.T629T	uc001rpv.2_RNA|RAPGEF3_uc001rpw.2_5'UTR|RAPGEF3_uc001rpx.2_Silent_p.T86T|RAPGEF3_uc010sln.1_Silent_p.T144T|RAPGEF3_uc001rpy.2_RNA|RAPGEF3_uc009zkq.2_Silent_p.T629T|RAPGEF3_uc001rpz.3_Silent_p.T671T	NM_001098532	NP_001092002	A8K2G5	A8K2G5_HUMAN	Rap guanine nucleotide exchange factor 3 isoform	629					regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex	cAMP-dependent protein kinase regulator activity|guanyl-nucleotide exchange factor activity			lung(2)|skin(1)|pancreas(1)	4	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.0375)		AGTCGTGGTCCGTCAGCTGGC	0.687													11	33					0	0	1	0	0		T	48134734	T	T	48134734	2	4	84	1	0	0	0	0	0	0	0	1	13070	639	23	1		1	RAPGEF3	12	48134734	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1814281	48134734	85717161	851	52694											
TMEM106C	79022	broad.mit.edu	37	chr12	48359632	48359632	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttgcagtaagcaatatgTcctcctgtccatcctgcttt	8	15	6	12	0	0	0	0	0	0	0	4	0	4	0	4	0	3	4	4	0	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:48359632T>C	uc001rqp.2	+	4	378	c.263T>C	c.(262-264)GTC>GCC	p.V88A	TMEM106C_uc001rqo.2_Missense_Mutation_p.V88A|TMEM106C_uc001rqr.2_Missense_Mutation_p.V88A|TMEM106C_uc001rqq.2_Missense_Mutation_p.V88A	NM_024056	NP_076961	Q9BVX2	T106C_HUMAN	transmembrane protein 106C isoform a	88	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane					0		Acute lymphoblastic leukemia(13;0.11)		GBM - Glioblastoma multiforme(48;0.241)		AAGCAATATGTCCTCCTGTCC	0.463													183	395					0	0	1	0	0		C	48359632	C	C	48359632	3	2	84	1	0	0	0	0	1	0	0	0	16047	1667	58	3	273	3	TMEM106C	12	48359632	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	224898	48359632	85492263	852	52695											
ZNF641	121274	broad.mit.edu	37	chr12	48736761	48736761	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtggaaacagatttcaaaAgacagatgttcctctgtccc	13	11	8	9	0	2	3	1	0	1	3	4	4	4	4	2	1	1	1	2	1	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:48736761A>G	uc001rrn.1	-	6	1477	c.1312T>C	c.(1312-1314)TTC>CTC	p.F438L	ZNF641_uc001rro.1_Missense_Mutation_p.F424L|ZNF641_uc010sls.1_Missense_Mutation_p.F415L	NM_152320	NP_689533	Q96N77	ZN641_HUMAN	zinc finger protein 641	438					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						AGATTTCAAAAGACAGATGTT	0.552													18	65					0	0	1	0	0		G	48736761	G	G	48736761	3	3	84	1	0	0	0	0	1	0	0	0	18082	72	3	3	8	3	ZNF641	12	48736761	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	377129	48736761	85115134	853	52696											
MLL2	8085	broad.mit.edu	37	chr12	49434333	49434333	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcaggcactcgggagaaaGggtcggagggcagtgagcga	10	4	20	7	3	0	2	0	1	0	1	2	5	0	3	0	6	1	3	0	6	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:49434333G>T	uc001rta.3	-	31	7220	c.7220C>A	c.(7219-7221)CCT>CAT	p.P2407H		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2407	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TCGGGAGAAAGGGTCGGAGGG	0.632			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			17	26					1.99824e-07	2.11993e-07	1	1	0		T	49434333	T	T	49434333	3	4	84	1	0	0	0	0	1	0	0	0	9639	1000	35	5	9489	5	MLL2	12	49434333	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	697572	49434333	84417562	854	52697											
MLL2	8085	broad.mit.edu	37	chr12	49441849	49441849	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccacataccacacacaTgtcctggggaaacacagaga	14	5	9	13	0	0	1	0	0	0	1	1	3	1	2	3	2	3	1	3	2	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:49441849T>C	uc001rta.3	-	14	4135	c.4135A>G	c.(4135-4137)ATG>GTG	p.M1379V		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1379	PHD-type 3.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						ACCACACACATGTCCTGGGGA	0.532			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			5	68					0	0	1	0	0		C	49441849	C	C	49441849	3	2	84	1	0	0	0	0	1	0	0	0	9639	1464	51	3	12642	3	MLL2	12	49441849	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	7516	49441849	84410046	855	52698											
LASS5	91012	broad.mit.edu	37	chr12	50524461	50524461	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgctctccacatcactgCgatcatccttcgatacctgg	8	11	7	15	2	3	0	2	0	1	0	6	2	4	0	3	1	4	2	3	1	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:50524461C>T	uc001rwd.3	-	10	1063	c.1046G>A	c.(1045-1047)CGC>CAC	p.R349H	LASS5_uc001rwc.2_Missense_Mutation_p.A317T|LASS5_uc001rwe.3_Missense_Mutation_p.R290H|LASS5_uc001rwf.3_RNA	NM_147190	NP_671723	Q8N5B7	CERS5_HUMAN	LAG1 homolog, ceramide synthase 5	349	Lumenal (Potential).				ceramide biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity				0						CACATCACTGCGATCATCCTT	0.512													26	83					0	0	1	0	0		T	50524461	T	T	50524461	3	4	84	1	0	0	0	0	1	0	0	0	8658	768	27	1	136	1	LASS5	12	50524461	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1082612	50524461	83327434	856	52699											
LARP4	113251	broad.mit.edu	37	chr12	50867242	50867242	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcccagtgcctgcagatgaGcagacagaatgcacttctgc	10	8	11	12	0	1	4	0	1	1	3	1	4	1	4	2	0	6	3	2	0	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:50867242G>A	uc001rwp.1	+	14	1734	c.1590G>A	c.(1588-1590)GAG>GAA	p.E530E	LARP4_uc001rwo.1_Silent_p.E536E|LARP4_uc001rwq.1_Silent_p.E459E|LARP4_uc001rwr.1_Silent_p.E459E|LARP4_uc001rws.1_Silent_p.E529E|LARP4_uc009zlr.1_Silent_p.E349E|LARP4_uc001rwt.1_Silent_p.E121E	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a	530							nucleotide binding|RNA binding			ovary(1)	1						CTGCAGATGAGCAGACAGAAT	0.338													13	37					0	0	1	0	0		A	50867242	A	A	50867242	2	1	84	1	0	0	0	0	0	0	0	1	8646	962	34	2		2	LARP4	12	50867242	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	342781	50867242	82984653	857	52700											
NR4A1	3164	broad.mit.edu	37	chr12	52448164	52448164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaccgagtccgggacccCgtgaccacctggcaagcgac	9	3	12	17	4	0	1	0	1	0	0	1	4	1	2	6	2	2	2	6	2	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:52448164C>T	uc001rzs.2	+	3	366	c.52C>T	c.(52-54)CGT>TGT	p.R18C	NR4A1_uc010sno.1_Missense_Mutation_p.R31C|NR4A1_uc001rzr.2_Missense_Mutation_p.R18C|NR4A1_uc009zmb.1_Missense_Mutation_p.R18C|NR4A1_uc001rzt.2_Missense_Mutation_p.R18C|NR4A1_uc009zmc.2_5'Flank	NM_002135	NP_002126	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	18					nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0967)		TCCGGGACCCCGTGACCACCT	0.662													19	84					0	0	1	0	0		T	52448164	T	T	52448164	3	4	84	1	0	0	0	0	1	0	0	0	10651	652	23	1	54	1	NR4A1	12	52448164	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1580922	52448164	81403731	858	52701											
KRT82	3888	broad.mit.edu	37	chr12	52799986	52799986	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcatagtgggtgaccatccGgggcatgacagccgagtatg	9	8	15	9	2	0	2	0	2	0	0	1	3	1	2	3	3	2	3	3	3	2	2	rs72351593		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:52799986G>T	uc001sai.1	-	1	191	c.76C>A	c.(76-78)CGG>AGG	p.R26R		NM_033033	NP_149022	Q9NSB4	KRT82_HUMAN	keratin 82	26	Head.					keratin filament	protein binding|structural constituent of epidermis			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.193)		GTGACCATCCGGGGCATGACA	0.622													9	32					2.80697e-09	3.02209e-09	1	1	0		T	52799986	T	T	52799986	2	4	84	1	0	0	0	0	0	0	0	1	8512	1115	39	5		5	KRT82	12	52799986	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	351822	52799986	81051909	859	52702											
KRT1	3848	broad.mit.edu	37	chr12	53071182	53071182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgacctcagcaatgatgCtgtccaggtcgagactgcgg	8	9	12	12	2	1	3	1	2	0	1	3	4	2	3	3	2	3	2	3	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:53071182C>T	uc001sau.1	-	5	1105	c.1046G>A	c.(1045-1047)AGC>AAC	p.S349N	KRT1_uc001sav.1_Missense_Mutation_p.S349N	NM_006121	NP_006112	P04264	K2C1_HUMAN	keratin 1	349	Rod.|Linker 12.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding			ovary(1)|skin(1)	2						AGCAATGATGCTGTCCAGGTC	0.502													30	76					0	0	1	0	0		T	53071182	T	T	53071182	3	4	84	1	0	0	0	0	1	0	0	0	8463	797	28	2	908	2	KRT1	12	53071182	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	271196	53071182	80780713	860	52703											
KRT77	374454	broad.mit.edu	37	chr12	53086240	53086240	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagcagctggcggtaggtGgcgatctccacatccaggga	8	7	14	12	2	1	0	0	0	1	0	4	2	3	1	3	5	2	3	3	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:53086240G>A	uc001saw.2	-	7	1421	c.1392C>T	c.(1390-1392)GCC>GCT	p.A464A	KRT77_uc009zmi.2_Silent_p.A222A	NM_175078	NP_778253	Q7Z794	K2C1B_HUMAN	keratin 77	464	Rod.|Coil 2.					keratin filament	structural molecule activity			ovary(1)	1						GGCGGTAGGTGGCGATCTCCA	0.642													29	92					0	0	1	0	0		A	53086240	A	A	53086240	2	1	84	1	0	0	0	0	0	0	0	1	8506	1335	47	4		4	KRT77	12	53086240	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	15058	53086240	80765655	861	52704											
KRT3	3850	broad.mit.edu	37	chr12	53189360	53189360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccaaagccaccaggactgCccaagctgccaggcccacca	11	2	10	18	0	0	0	0	0	0	0	0	1	0	1	7	3	4	1	7	3	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:53189360C>T	uc001say.2	-	1	533	c.467G>A	c.(466-468)GGC>GAC	p.G156D		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	156	Gly-rich.|Head.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						ACCAGGACTGCCCAAGCTGCC	0.348													5	25					0	0	1	0	0		T	53189360	T	T	53189360	3	4	84	1	0	0	0	0	1	0	0	0	8482	739	26	2	1455	2	KRT3	12	53189360	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	103120	53189360	80662535	862	52705											
ZNF740	283337	broad.mit.edu	37	chr12	53578783	53578783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaagcaggccgagaatggcGagcgggcaggtagccctgat	10	4	17	10	3	0	2	0	1	0	1	0	4	0	2	2	4	3	4	2	4	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:53578783G>A	uc001scb.3	+	3	512	c.118G>A	c.(118-120)GAG>AAG	p.E40K		NM_001004304	NP_001004304	Q8NDX6	ZN740_HUMAN	zinc finger protein 740	40					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|protein binding|zinc ion binding				0						CGAGAATGGCGAGCGGGCAGG	0.602													12	51					0	0	1	0	0		A	53578783	A	A	53578783	3	1	84	1	0	0	0	0	1	0	0	0	18153	1059	37	1	124	1	ZNF740	12	53578783	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	389423	53578783	80273112	863	52706											
NFE2	4778	broad.mit.edu	37	chr12	54686726	54686726	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgggccaaggagttgggcAtgagtgagtaggggtactcc	9	8	18	6	0	0	2	0	2	0	0	1	3	1	3	2	5	1	4	2	5	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:54686726A>G	uc009znk.2	-	2	1064	c.554T>C	c.(553-555)ATG>ACG	p.M185T	NFE2_uc001sfq.2_Missense_Mutation_p.M185T|NFE2_uc001sfr.3_Missense_Mutation_p.M185T|NFE2_uc009znl.2_Missense_Mutation_p.M185T	NM_006163	NP_006154	Q16621	NFE2_HUMAN	nuclear factor, erythroid derived 2 isoform 1	185	Transactivation domain.				blood circulation|blood coagulation|multicellular organismal development|nucleosome disassembly|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	actin cytoskeleton|cytoplasm|PML body	protein dimerization activity|protein N-terminus binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|WW domain binding				0						GGAGTTGGGCATGAGTGAGTA	0.587													36	97					0	0	1	0	0		G	54686726	G	G	54686726	3	3	84	1	0	0	0	0	1	0	0	0	10385	217	8	3	571	3	NFE2	12	54686726	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1107943	54686726	79165169	864	52707											
OR10P1	121130	broad.mit.edu	37	chr12	56031396	56031396	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccgcaaggtcttctccAcctgctcctcccatctgctc	4	10	7	20	2	3	0	0	0	3	0	7	0	5	0	6	1	2	3	6	1	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:56031396A>G	uc010spq.1	+	1	721	c.721A>G	c.(721-723)ACC>GCC	p.T241A		NM_206899	NP_996782	Q8NGE3	O10P1_HUMAN	olfactory receptor, family 10, subfamily P,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						GGTCTTCTCCACCTGCTCCTC	0.577													17	159					0	0	1	0	0		G	56031396	G	G	56031396	3	3	84	1	0	0	0	0	1	0	0	0	10934	159	6	3	723	3	OR10P1	12	56031396	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1344670	56031396	77820499	865	52708											
METTL7B	196410	broad.mit.edu	37	chr12	56075886	56075886	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcatggctgagaacaggcaCctccaatatgagcggtttgt	11	9	12	9	1	0	2	0	2	0	1	1	3	1	2	2	3	3	4	2	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:56075886C>T	uc010spr.1	+	1	557	c.348C>T	c.(346-348)CAC>CAT	p.H116H		NM_152637	NP_689850	Q6UX53	MET7B_HUMAN	methyltransferase like 7B precursor	116							methyltransferase activity				0						AGAACAGGCACCTCCAATATG	0.557													11	46					0	0	1	0	0		T	56075886	T	T	56075886	2	4	84	1	0	0	0	0	0	0	0	1	9524	506	18	4		4	METTL7B	12	56075886	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	44490	56075886	77776009	866	52709											
SLC39A5	283375	broad.mit.edu	37	chr12	56630230	56630230	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaacacgcaacttggatccGgagaatggcagtgggatggc	12	6	15	8	2	0	1	0	0	0	1	1	5	1	3	1	5	2	2	1	5	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:56630230G>A	uc010sqj.1	+	9	1253	c.996G>A	c.(994-996)CCG>CCA	p.P332P	SLC39A5_uc010sqk.1_Silent_p.P332P	NM_173596	NP_775867	Q6ZMH5	S39A5_HUMAN	solute carrier family 39 (metal ion	332	Cytoplasmic (Potential).				zinc ion transport	basolateral plasma membrane|integral to membrane	metal ion transmembrane transporter activity			ovary(1)|skin(1)	2						ACTTGGATCCGGAGAATGGCA	0.542													28	92					0	0	1	0	0		A	56630230	A	A	56630230	2	1	84	1	0	0	0	0	0	0	0	1	14646	1103	39	1		1	SLC39A5	12	56630230	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	554344	56630230	77221665	867	52710											
MARS	4141	broad.mit.edu	37	chr12	57906610	57906610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggacatggcccaggacacGgggatccctgctgacatctg	8	6	15	12	1	1	1	0	1	1	0	2	4	2	4	2	6	1	1	2	6	0	0	rs149742633		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:57906610G>A	uc001sog.2	+	15	1853	c.1830G>A	c.(1828-1830)ACG>ACA	p.T610T	MARS_uc001sof.1_RNA|MARS_uc010srq.1_Silent_p.T376T|MARS_uc001soh.1_Silent_p.T5T	NM_004990	NP_004981	P56192	SYMC_HUMAN	methionyl-tRNA synthetase	610					methionyl-tRNA aminoacylation	cytosol	ATP binding|methionine-tRNA ligase activity|protein binding|tRNA binding			ovary(3)|central_nervous_system(1)|pancreas(1)	5			GBM - Glioblastoma multiforme(3;4.27e-41)		L-Methionine(DB00134)	CCCAGGACACGGGGATCCCTG	0.542													49	158					0	0	1	0	0		A	57906610	A	A	57906610	2	1	84	1	0	0	0	0	0	0	0	1	9334	1103	39	1		1	MARS	12	57906610	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1276380	57906610	75945285	868	52711											
WIF1	11197	broad.mit.edu	37	chr12	65456301	65456301	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctagtcctggagggcaaatAcattttccagggtagaaaca	13	10	10	8	0	1	1	0	0	1	1	3	2	3	2	2	3	2	2	2	3	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:65456301A>G	uc001ssk.2	-	7	931	c.786T>C	c.(784-786)TGT>TGC	p.C262C		NM_007191	NP_009122	Q9Y5W5	WIF1_HUMAN	WNT inhibitory factor 1 precursor	262	EGF-like 3.				multicellular organismal development|Wnt receptor signaling pathway	extracellular region	protein tyrosine kinase activity			ovary(2)|lung(1)|skin(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0231)		GAGGGCAAATACATTTTCCAG	0.373			T	HMGA2	pleomorphic salivary gland adenoma								6	17					0	0	1	0	0		G	65456301	G	G	65456301	2	3	84	1	0	0	0	0	0	0	0	1	17392	389	14	3		3	WIF1	12	65456301	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	7549691	65456301	68395594	869	52712											
IRAK3	11213	broad.mit.edu	37	chr12	66641621	66641621	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgatgaaagccagaataaCaatttactaccttctgatga	16	11	7	7	0	1	5	0	4	1	1	1	6	1	5	2	0	4	0	2	0	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:66641621C>A	uc001sth.2	+	12	1563	c.1461C>A	c.(1459-1461)AAC>AAA	p.N487K	IRAK3_uc010ssy.1_Missense_Mutation_p.N426K	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	487					interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		GCCAGAATAACAATTTACTAC	0.428													13	51					0.00244969	0.00250139	1	1	0		A	66641621	A	A	66641621	3	1	84	1	0	0	0	0	1	0	0	0	7840	477	17	5	1507	5	IRAK3	12	66641621	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1185320	66641621	67210274	870	52713											
HELB	92797	broad.mit.edu	37	chr12	66709022	66709022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtatctttttttcttttagGtgacattagacagttaccca	9	19	6	7	0	2	2	0	1	2	1	2	2	2	2	1	1	1	2	1	1	4	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:66709022G>A	uc001sti.2	+	6	1887	c.1859G>A	c.(1858-1860)GGT>GAT	p.G620D	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	620					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		TTTCTTTTAGGTGACATTAGA	0.313													5	30					0	0	1	0	0		A	66709022	A	A	66709022	3	1	84	1	0	0	0	0	1	0	0	0	7061	1275	44	4	1881	4	HELB	12	66709022	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	67401	66709022	67142873	871	52714											
RAP1B	5908	broad.mit.edu	37	chr12	69044187	69044187	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttttttcagactgtacAatttgttcaaggaatttttg	10	21	6	4	0	2	1	2	0	0	1	2	2	2	2	0	1	1	2	0	1	4	9			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:69044187A>G	uc001sub.2	+	3	228	c.65A>G	c.(64-66)CAA>CGA	p.Q22R	RAP1B_uc010ste.1_Intron|RAP1B_uc001suc.2_Missense_Mutation_p.Q22R|RAP1B_uc010stf.1_Missense_Mutation_p.Q22R|RAP1B_uc010stg.1_Intron|RAP1B_uc010sth.1_Intron|RAP1B_uc010sti.1_Missense_Mutation_p.Q22R	NM_001089704	NP_001083173	P61224	RAP1B_HUMAN	SubName: Full=Ras-related protein Rap-1A; SubName: Full=cDNA FLJ75985, highly similar to Homo sapiens RAP1A, member of RAS oncogene family (RAP1A), transcript variant 2, mRNA; SubName: Full=RAP1A, member of RAS oncogene family;	22					blood coagulation|energy reserve metabolic process|regulation of establishment of cell polarity|regulation of insulin secretion	cell-cell junction|cytosol	GDP binding|GTP binding|GTPase activity|protein binding				0	Breast(13;1.24e-05)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)	GBM - Glioblastoma multiforme(7;0.000306)		CAGACTGTACAATTTGTTCAA	0.279													5	13					0	0	1	0	0		G	69044187	G	G	69044187	3	3	84	1	0	0	0	0	1	0	0	0	13061	130	5	3	71	3	RAP1B	12	69044187	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2335165	69044187	64807708	872	52715											
PTPRB	5787	broad.mit.edu	37	chr12	70928615	70928615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagcaagctaacatacacCgcatatcttaaactcccgga	15	8	5	13	2	2	0	1	0	1	0	3	1	3	1	2	1	5	3	2	1	7	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:70928615C>T	uc001swb.3	-	28	5578	c.5548G>A	c.(5548-5550)GGT>AGT	p.G1850S	uc001svz.2_Intron|PTPRB_uc010sto.1_Missense_Mutation_p.G1760S|PTPRB_uc010stp.1_Missense_Mutation_p.G1760S|PTPRB_uc001swc.3_Missense_Mutation_p.G2068S|PTPRB_uc001swa.3_Missense_Mutation_p.G1980S	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1850	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			TAACATACACCGCATATCTTA	0.522													11	33					0	0	1	0	0		T	70928615	T	T	70928615	3	4	84	1	0	0	0	0	1	0	0	0	12821	652	23	1	465	1	PTPRB	12	70928615	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1884428	70928615	62923280	873	52716											
PTPRR	5801	broad.mit.edu	37	chr12	71078009	71078009	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgttgatcatggggccctgCgtggcaatgaaggctttctc	6	12	14	9	1	2	2	1	2	1	0	3	2	2	2	1	4	1	3	1	4	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:71078009C>A	uc001swi.1	-	10	1811	c.1395G>T	c.(1393-1395)ACG>ACT	p.T465T	PTPRR_uc001swh.1_Silent_p.T220T|PTPRR_uc009zrs.2_Silent_p.T314T|PTPRR_uc010stq.1_Silent_p.T353T|PTPRR_uc010str.1_Silent_p.T314T	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	465	Tyrosine-protein phosphatase.|Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		TGGGGCCCTGCGTGGCAATGA	0.433													18	38					4.63292e-17	5.16681e-17	1	1	0		A	71078009	A	A	71078009	2	1	84	1	0	0	0	0	0	0	0	1	12835	755	27	5		5	PTPRR	12	71078009	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	149394	71078009	62773886	874	52717											
LGR5	8549	broad.mit.edu	37	chr12	71977666	71977666	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacttttggcagctttgcaCgacatggtgcctggtgggag	6	12	14	9	1	1	0	1	0	0	0	1	2	1	1	1	4	3	3	1	4	0	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:71977666C>T	uc001swl.2	+	18	1924	c.1876C>T	c.(1876-1878)CGA>TGA	p.R626*	LGR5_uc001swm.2_Nonsense_Mutation_p.R602*|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	626	Extracellular (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						CAGCTTTGCACGACATGGTGC	0.502													29	69					0	0	1	0	0		T	71977666	T	T	71977666	4	4	84	1	0	0	0	0	0	1	0	0	8773	528	19	1	1946	1	LGR5	12	71977666	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	899657	71977666	61874229	875	52718											
TRHDE	29953	broad.mit.edu	37	chr12	72863586	72863586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgctgctatggagaactgggGactaagtatttttgtggaac	10	13	13	5	0	0	1	0	0	0	1	0	4	0	3	0	4	4	3	0	4	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:72863586G>A	uc001sxa.2	+	4	1259	c.1229G>A	c.(1228-1230)GGA>GAA	p.G410E		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	410	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						GAGAACTGGGGACTAAGTATT	0.378													5	62					0	0	1	0	0		A	72863586	A	A	72863586	3	1	84	1	0	0	0	0	1	0	0	0	16505	1174	41	4	1243	4	TRHDE	12	72863586	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	885920	72863586	60988309	876	52719											
NAV3	89795	broad.mit.edu	37	chr12	78511860	78511860	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgagacctgggatagtccTgaggaactgaaaaaaccaga	16	5	12	8	1	0	4	0	2	0	2	1	8	1	6	3	2	2	0	3	2	5	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:78511860T>C	uc001syp.2	+	14	2996	c.2823T>C	c.(2821-2823)CCT>CCC	p.P941P	NAV3_uc001syo.2_Silent_p.P941P|NAV3_uc010sub.1_Silent_p.P441P|NAV3_uc009zsf.2_5'UTR	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	941						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GGGATAGTCCTGAGGAACTGA	0.438										HNSCC(70;0.22)			49	134					0	0	1	0	0		C	78511860	C	C	78511860	2	2	84	1	0	0	0	0	0	0	0	1	10203	1567	55	3		3	NAV3	12	78511860	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	5648274	78511860	55340035	877	52720											
PPFIA2	8499	broad.mit.edu	37	chr12	81768483	81768483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtttcagcctttctcatgGtctgctgcaacttttgttca	6	17	8	10	0	4	0	3	0	2	0	5	0	4	0	1	2	4	4	1	2	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:81768483G>A	uc001szo.1	-	11	1357	c.1196C>T	c.(1195-1197)ACC>ATC	p.T399I	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	325										ovary(3)|lung(2)|pancreas(1)	6						CTTTCTCATGGTCTGCTGCAA	0.458													19	52					0	0	1	0	0		A	81768483	A	A	81768483	3	1	84	1	0	0	0	0	1	0	0	0	12329	1261	44	4	2665	4	PPFIA2	12	81768483	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3256623	81768483	52083412	878	52721											
C12orf12	196477	broad.mit.edu	37	chr12	91348379	91348379	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcggtgcggtctattgtaCgctggagcacccgggcgcct	5	10	14	12	5	1	0	0	0	1	0	2	1	1	1	2	4	3	3	2	4	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:91348379C>T	uc001tbj.2	-	1	575	c.141G>A	c.(139-141)GCG>GCA	p.A47A		NM_152638	NP_689851	Q8TC90	CL012_HUMAN	hypothetical protein LOC196477	47										central_nervous_system(1)|pancreas(1)	2						GTCTATTGTACGCTGGAGCAC	0.532													6	32					0	0	1	0	0		T	91348379	T	T	91348379	2	4	84	1	0	0	0	0	0	0	0	1	1679	523	19	1		1	C12orf12	12	91348379	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	9579896	91348379	42503516	879	52722											
PLXNC1	10154	broad.mit.edu	37	chr12	94648658	94648658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgagctccggaaagagataCgtgacggtaggctccaaaat	13	6	13	9	4	0	2	0	1	0	1	2	5	2	3	2	3	2	3	2	3	5	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:94648658C>T	uc001tdc.2	+	16	3226	c.2977C>T	c.(2977-2979)CGT>TGT	p.R993C	PLXNC1_uc010sut.1_Missense_Mutation_p.R40C	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	993	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						GAAAGAGATACGTGACGGTAG	0.433													4	11					0	0	1	0	0		T	94648658	T	T	94648658	3	4	84	1	0	0	0	0	1	0	0	0	12145	536	19	1	3039	1	PLXNC1	12	94648658	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3300279	94648658	39203237	880	52723											
NDUFA12	55967	broad.mit.edu	37	chr12	95396585	95396585	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccactaatgtaccaaccttCgcatcatttgtcctgtgaat	10	13	5	13	1	1	1	1	1	0	0	3	1	2	1	4	0	2	2	4	0	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:95396585C>T	uc001tdl.2	-	2	154	c.99G>A	c.(97-99)GCG>GCA	p.A33A		NM_018838	NP_061326	Q9UI09	NDUAC_HUMAN	13kDa differentiation-associated protein	33					respiratory electron transport chain|respiratory gaseous exchange|response to oxidative stress|transport	mitochondrial respiratory chain complex I	electron carrier activity|NADH dehydrogenase (ubiquinone) activity				0					NADH(DB00157)	TACCAACCTTCGCATCATTTG	0.323													16	51					0	0	1	0	0		T	95396585	T	T	95396585	2	4	84	1	0	0	0	0	0	0	0	1	10281	871	31	1		1	NDUFA12	12	95396585	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	747927	95396585	38455310	881	52724											
NTN4	59277	broad.mit.edu	37	chr12	96181193	96181193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagccaaatttcccatccGagggttgcaggctttttcac	10	11	8	12	1	1	0	1	0	0	0	3	1	3	0	3	2	2	3	3	2	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:96181193G>A	uc001tei.2	-	2	558	c.109C>T	c.(109-111)CGG>TGG	p.R37W	NTN4_uc009ztf.2_Missense_Mutation_p.R37W|NTN4_uc009ztg.2_5'UTR	NM_021229	NP_067052	Q9HB63	NET4_HUMAN	netrin 4 precursor	37	Laminin N-terminal.				axon guidance	basement membrane|plasma membrane				upper_aerodigestive_tract(1)|ovary(1)	2						TTTCCCATCCGAGGGTTGCAG	0.507													26	69					0	0	1	0	0		A	96181193	A	A	96181193	3	1	84	1	0	0	0	0	1	0	0	0	10721	1057	37	1	1813	1	NTN4	12	96181193	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	784608	96181193	37670702	882	52725											
ASCL1	429	broad.mit.edu	37	chr12	103352643	103352643	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaactccatggccggctcGccggtctcatcctactcgtc	5	11	9	16	4	1	1	1	1	1	0	7	1	3	1	4	3	2	1	4	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:103352643G>A	uc001tjr.3	+	1	1192	c.621G>A	c.(619-621)TCG>TCA	p.S207S		NM_004316	NP_004307	P50553	ASCL1_HUMAN	achaete-scute complex homolog 1	207					cerebral cortex GABAergic interneuron differentiation|negative regulation of apoptosis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|noradrenergic neuron fate commitment|Notch signaling pathway|positive regulation of neuron differentiation|positive regulation of transcription from RNA polymerase II promoter|response to retinoic acid|sympathetic nervous system development	nucleus	bHLH transcription factor binding|E-box binding|sequence-specific DNA binding transcription factor activity|transcription factor binding transcription factor activity				0						TGGCCGGCTCGCCGGTCTCAT	0.647													16	73					0	0	1	0	0		A	103352643	A	A	103352643	2	1	84	1	0	0	0	0	0	0	0	1	1035	1074	38	1		1	ASCL1	12	103352643	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7171450	103352643	30499252	883	52726											
EID3	493861	broad.mit.edu	37	chr12	104697811	104697811	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggagctcaccgctgaCgaggagaagtgccgcagcat	9	6	13	13	3	1	2	1	1	0	1	2	5	2	3	3	2	3	4	3	2	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:104697811C>T	uc001tkw.2	+	1	263	c.99C>T	c.(97-99)GAC>GAT	p.D33D	TXNRD1_uc010swk.1_Intron|TXNRD1_uc010swl.1_Intron|TXNRD1_uc010swm.1_Intron|TXNRD1_uc010swn.1_Intron|TXNRD1_uc010swo.1_Intron|TXNRD1_uc010swp.1_Intron|TXNRD1_uc010swq.1_Intron|TXNRD1_uc001tku.2_Intron|TXNRD1_uc001tko.1_Intron|TXNRD1_uc001tkp.1_Intron|TXNRD1_uc001tkv.1_Intron	NM_001008394	NP_001008395	Q8N140	EID3_HUMAN	EP300 interacting inhibitor of differentiation	33					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus					0						TCACCGCTGACGAGGAGAAGT	0.622													11	45					0	0	1	0	0		T	104697811	T	T	104697811	2	4	84	1	0	0	0	0	0	0	0	1	4995	535	19	1		1	EID3	12	104697811	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1345168	104697811	29154084	884	52727											
TCP11L2	255394	broad.mit.edu	37	chr12	106729528	106729528	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatacctccaagccaagccTgagccctactttggtgctaa	12	9	7	13	0	0	1	0	1	0	0	1	1	1	1	5	1	6	1	5	1	6	4	rs139428803	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:106729528T>C	uc001tln.2	+	7	1058	c.884T>C	c.(883-885)CTG>CCG	p.L295P		NM_152772	NP_689985	Q8N4U5	T11L2_HUMAN	t-complex 11 (mouse) like 2	295										ovary(3)	3						AAGCCAAGCCTGAGCCCTACT	0.388													21	48					0	0	1	0	0		C	106729528	C	C	106729528	3	2	84	1	0	0	0	0	1	0	0	0	15740	1580	55	3	906	3	TCP11L2	12	106729528	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2031717	106729528	27122367	885	52728											
FICD	11153	broad.mit.edu	37	chr12	108912982	108912982	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccctttcattgatggcaaCgggaggacctcccgtctgct	7	10	10	14	2	2	1	1	1	1	0	3	3	3	3	3	3	2	2	3	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:108912982C>T	uc001tmx.1	+	3	1253	c.1107C>T	c.(1105-1107)AAC>AAT	p.N369N		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	369	Fido.				negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0						TTGATGGCAACGGGAGGACCT	0.562													29	119					0	0	1	0	0		T	108912982	T	T	108912982	2	4	84	1	0	0	0	0	0	0	0	1	5901	535	19	1		1	FICD	12	108912982	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2183454	108912982	24938913	886	52729											
SART3	9733	broad.mit.edu	37	chr12	108919341	108919341	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggagaaaggcaggcctgAgatgaacagcttgtgtttct	12	9	13	7	0	1	3	0	2	1	2	1	5	1	3	1	3	2	3	1	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:108919341A>G	uc001tmz.1	-	17	2651	c.2416T>C	c.(2416-2418)TCA>CCA	p.S806P	SART3_uc001tmy.1_Missense_Mutation_p.S332P|SART3_uc009zux.1_Missense_Mutation_p.S418P|SART3_uc010swx.1_Missense_Mutation_p.S770P	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	806	RRM 2.				RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						GGCAGGCCTGAGATGAACAGC	0.498									Porokeratosis				29	59					0	0	1	0	0		G	108919341	G	G	108919341	3	3	84	1	0	0	0	0	1	0	0	0	13872	304	11	3	487	3	SART3	12	108919341	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	6359	108919341	24932554	887	52730											
SART3	9733	broad.mit.edu	37	chr12	108932768	108932768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagttctcgaccagggcgCgctcaaagatcaactgaatg	11	7	12	11	3	3	2	2	1	1	1	4	3	3	2	1	2	1	3	1	2	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:108932768C>T	uc001tmz.1	-	7	1239	c.1004G>A	c.(1003-1005)CGC>CAC	p.R335H	SART3_uc001tmy.1_5'UTR|SART3_uc009zux.1_5'UTR|SART3_uc010swx.1_Missense_Mutation_p.R335H|SART3_uc010swy.1_Missense_Mutation_p.R221H|SART3_uc010swz.1_Missense_Mutation_p.R335H|SART3_uc001tna.1_RNA	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	335	HAT 5.				RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						GACCAGGGCGCGCTCAAAGAT	0.438									Porokeratosis				16	66					0	0	1	0	0		T	108932768	T	T	108932768	3	4	84	1	0	0	0	0	1	0	0	0	13872	768	27	1	1939	1	SART3	12	108932768	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	13427	108932768	24919127	888	52731											
USP30	84749	broad.mit.edu	37	chr12	109523603	109523603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaactagcaatcagtggcTgtgggtctccgatgacactg	9	10	11	11	1	3	1	2	1	1	0	4	2	3	1	1	2	2	2	1	2	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:109523603T>C	uc010sxi.1	+	13	1525	c.1421T>C	c.(1420-1422)CTG>CCG	p.L474P	USP30_uc001tnu.3_Missense_Mutation_p.L443P|USP30_uc001tnw.3_Missense_Mutation_p.L191P	NM_032663	NP_116052	Q70CQ3	UBP30_HUMAN	ubiquitin specific peptidase 30	474	Cytoplasmic (Potential).				ubiquitin-dependent protein catabolic process	integral to membrane|mitochondrial outer membrane	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(1)	1						AATCAGTGGCTGTGGGTCTCC	0.587													17	83					0	0	1	0	0		C	109523603	C	C	109523603	3	2	84	1	0	0	0	0	1	0	0	0	17087	1580	55	3	1471	3	USP30	12	109523603	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	590835	109523603	24328292	889	52732											
PPTC7	160760	broad.mit.edu	37	chr12	110983821	110983821	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggaagcctgaatcgcccaGgtttgctgtgtgtaagcggt	8	10	14	9	2	0	1	0	1	0	0	1	2	0	2	2	3	3	3	2	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:110983821G>T	uc001trh.1	-	3	694	c.466C>A	c.(466-468)CTG>ATG	p.L156M		NM_139283	NP_644812	Q8NI37	PPTC7_HUMAN	T-cell activation protein phosphatase 2C	156	PP2C-like.						metal ion binding|phosphoprotein phosphatase activity				0						GAATCGCCCAGGTTTGCTGTG	0.502													19	60					8.28177e-16	9.17155e-16	1	1	0		T	110983821	T	T	110983821	3	4	84	1	0	0	0	0	1	0	0	0	12435	991	35	5	464	5	PPTC7	12	110983821	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1460218	110983821	22868074	890	52733											
ALDH2	217	broad.mit.edu	37	chr12	112219773	112219773	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcaggaaaacattccccAccgtcaatccgtccactgga	12	7	7	15	2	2	0	2	0	0	0	5	2	5	2	5	2	2	1	5	2	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:112219773A>G	uc001tst.2	+	2	607	c.166A>G	c.(166-168)ACC>GCC	p.T56A	ALDH2_uc010syi.1_Missense_Mutation_p.T56A|ALDH2_uc009zvy.2_Missense_Mutation_p.T56A	NM_000690	NP_000681	P05091	ALDH2_HUMAN	mitochondrial aldehyde dehydrogenase 2	56					carbohydrate metabolic process|ethanol oxidation|neurotransmitter biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase|electron carrier activity			skin(2)|ovary(1)|central_nervous_system(1)	4					Disulfiram(DB00822)|Guanidine(DB00536)|NADH(DB00157)|Nitroglycerin(DB00727)	AACATTCCCCACCGTCAATCC	0.483			T	HMGA2	leiomyoma								12	53					0	0	1	0	0		G	112219773	G	G	112219773	3	3	84	1	0	0	0	0	1	0	0	0	496	159	6	3	172	3	ALDH2	12	112219773	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1235952	112219773	21632122	891	52734											
C12orf51	283450	broad.mit.edu	37	chr12	112638474	112638474	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggttggtattgtccagtgtGaccagcccattggtggcagt	7	12	14	8	0	0	1	0	1	0	0	1	1	1	1	3	4	1	3	3	4	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:112638474G>A	uc009zwc.2	-	48	7287	c.7269C>T	c.(7267-7269)GTC>GTT	p.V2423V		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TGTCCAGTGTGACCAGCCCAT	0.512													13	34					0	0	1	0	0		A	112638474	A	A	112638474	2	1	84	1	0	0	0	0	0	0	0	1	1699	1277	45	4		4	C12orf51	12	112638474	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	418701	112638474	21213421	892	52735											
OAS3	4940	broad.mit.edu	37	chr12	113403603	113403603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctcagatgccgacctcGtggtgttcctcagctgcttc	4	11	11	15	3	2	1	2	0	0	1	5	2	3	1	4	1	3	4	4	1	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:113403603G>A	uc001tug.2	+	12	2545	c.2458G>A	c.(2458-2460)GTG>ATG	p.V820M		NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	820	OAS domain 3.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						TGCCGACCTCGTGGTGTTCCT	0.602													7	40					0	0	1	0	0		A	113403603	A	A	113403603	3	1	84	1	0	0	0	0	1	0	0	0	10820	1145	40	1	2504	1	OAS3	12	113403603	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	765129	113403603	20448292	893	52736											
DTX1	1840	broad.mit.edu	37	chr12	113533182	113533182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgcaagaggattccctcGccactgctatctacccaaca	11	7	6	17	2	1	1	0	0	1	1	3	2	2	2	4	1	3	2	4	1	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:113533182G>A	uc001tuk.1	+	8	1937	c.1601G>A	c.(1600-1602)CGC>CAC	p.R534H		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	534					negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						GGATTCCCTCGCCACTGCTAT	0.612													39	87					0	0	1	0	0		A	113533182	A	A	113533182	3	1	84	1	0	0	0	0	1	0	0	0	4799	1087	38	1	1631	1	DTX1	12	113533182	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	129579	113533182	20318713	894	52737											
DDX54	79039	broad.mit.edu	37	chr12	113600936	113600936	+	Splice_Site	DEL	C	-	-																															aggacccagccagccactcaCccccgctcgctgtcaaagtc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:113600936delC	uc001tup.2	-	16	2109	c.2081_splice	c.e16+1	p.G694_splice	DDX54_uc001tuq.3_Splice_Site_p.G694_splice	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54						estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						CAGCCACTCACCCCCGCTCGC	0.647													26	57	---	---	---	---						.	-	113600936	-	-	113600936	8	5	84	1	0	1	0	1	0	0	1	0	4375	521	18	0	586	0	DDX54	12	113600936	Splice_Site	DEL	C	TCGA-BR-8591-01A-11D-2394-08	67754	113600936	20250959	895	52738											
DDX54	79039	broad.mit.edu	37	chr12	113617008	113617008	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggcgagaggatgagggcGcgggccccggtctgggcact	5	5	20	11	5	1	2	0	1	1	1	2	4	1	3	2	6	0	1	2	6	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:113617008G>A	uc001tup.2	-	4	532	c.504C>T	c.(502-504)CGC>CGT	p.R168R	DDX54_uc001tuq.3_Silent_p.R168R	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	168	Helicase ATP-binding.				estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						GGATGAGGGCGCGGGCCCCGG	0.652													12	37					0	0	1	0	0		A	113617008	A	A	113617008	2	1	84	1	0	0	0	0	0	0	0	1	4375	1074	38	1		1	DDX54	12	113617008	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	16072	113617008	20234887	896	52739											
NOS1	4842	broad.mit.edu	37	chr12	117768386	117768386	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagcctcctgcccatcatcGtaggcatgctgaggcccatt	7	9	9	16	1	1	1	1	1	0	0	3	1	2	1	5	2	3	3	5	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:117768386G>A	uc001twm.1	-	2	1175	c.489C>T	c.(487-489)TAC>TAT	p.Y163Y		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	163	Interaction with NOSIP (By similarity).|PIN (nNOS-inhibiting protein) binding.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GCCCATCATCGTAGGCATGCT	0.682													37	119					0	0	1	0	0		A	117768386	A	A	117768386	2	1	84	1	0	0	0	0	0	0	0	1	10560	1140	40	1		1	NOS1	12	117768386	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4151378	117768386	16083509	897	52740											
KSR2	283455	broad.mit.edu	37	chr12	117962957	117962957	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggaagctccgggccgagAggagggacaggttcatctcc	8	6	17	10	2	2	1	1	0	1	1	4	5	3	4	3	5	1	2	3	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:117962957A>G	uc001two.2	-	14	1887	c.1832T>C	c.(1831-1833)CTC>CCC	p.L611P		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	640					intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CCGGGCCGAGAGGAGGGACAG	0.577													19	54					0	0	1	0	0		G	117962957	G	G	117962957	3	3	84	1	0	0	0	0	1	0	0	0	8598	304	11	3	961	3	KSR2	12	117962957	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	194571	117962957	15888938	898	52741											
P2RX4	5025	broad.mit.edu	37	chr12	121655008	121655008	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccgttacgaccaaggtcaAgggcgtggctgtgaccaaca	10	7	12	12	3	1	1	1	1	0	0	2	2	2	1	3	3	2	2	3	3	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:121655008A>G	uc001tzr.2	+	2	510	c.206A>G	c.(205-207)AAG>AGG	p.K69R	P2RX4_uc010szr.1_RNA|P2RX4_uc010szs.1_RNA|P2RX4_uc009zxc.2_Missense_Mutation_p.K69R|P2RX4_uc001tzs.2_Missense_Mutation_p.K85R|P2RX4_uc009zxb.2_RNA|P2RX4_uc010szt.1_Intron	NM_002560	NP_002551	Q99571	P2RX4_HUMAN	purinergic receptor P2X4	69	Extracellular (Potential).				endothelial cell activation|negative regulation of cardiac muscle hypertrophy|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|regulation of apoptosis|regulation of blood pressure|regulation of sodium ion transport|relaxation of cardiac muscle|response to ATP|response to fluid shear stress|sensory perception of pain|tissue homeostasis	cell junction|perinuclear region of cytoplasm	cadherin binding|copper ion binding|extracellular ATP-gated cation channel activity|protein homodimerization activity|purinergic nucleotide receptor activity|receptor binding|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ACCAAGGTCAAGGGCGTGGCT	0.498													49	166					0	0	1	0	0		G	121655008	G	G	121655008	3	3	84	1	0	0	0	0	1	0	0	0	11361	72	3	3	212	3	P2RX4	12	121655008	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	3692051	121655008	12196887	899	52742											
KNTC1	9735	broad.mit.edu	37	chr12	123087723	123087723	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaccatcgaatcctgcttActctctatagtcaacccaga	12	10	5	14	1	2	2	1	0	1	2	5	3	3	2	3	0	3	1	3	0	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:123087723A>G	uc001ucv.2	+	48	5197	c.5034A>G	c.(5032-5034)TTA>TTG	p.L1678L	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	1678					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		AATCCTGCTTACTCTCTATAG	0.408													8	21					0	0	1	0	0		G	123087723	G	G	123087723	2	3	84	1	0	0	0	0	0	0	0	1	8444	388	14	3		3	KNTC1	12	123087723	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1432715	123087723	10764172	900	52743											
HIP1R	9026	broad.mit.edu	37	chr12	123333368	123333368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatgactgccagcggtaccGcagcaacatccgggagattg	10	6	13	12	3	0	2	0	1	0	1	1	3	1	2	3	2	5	4	3	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:123333368G>A	uc001udj.1	+	4	385	c.326G>A	c.(325-327)CGC>CAC	p.R109H	HIP1R_uc001udg.1_Missense_Mutation_p.R97H|HIP1R_uc001udi.1_Missense_Mutation_p.R109H|HIP1R_uc001udh.2_Missense_Mutation_p.R109H	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	109	ENTH.				receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		CAGCGGTACCGCAGCAACATC	0.642													24	63					0	0	1	0	0		A	123333368	A	A	123333368	3	1	84	1	0	0	0	0	1	0	0	0	7131	1087	38	1	340	1	HIP1R	12	123333368	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	245645	123333368	10518527	901	52744											
PITPNM2	57605	broad.mit.edu	37	chr12	123472815	123472815	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtccgcttgcgctgccacTtctcccttggctttgagggg	2	12	14	13	2	1	1	0	1	1	0	3	1	2	1	3	4	2	3	3	4	0	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:123472815T>A	uc001uej.1	-	19	3102	c.2963A>T	c.(2962-2964)AAG>ATG	p.K988M	PITPNM2_uc001uek.1_Missense_Mutation_p.K982M	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	988					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)		GCGCTGCCACTTCTCCCTTGG	0.552													55	176					0	0	1	0	0		A	123472815	A	A	123472815	3	1	84	1	0	0	0	0	1	0	0	0	11970	1609	56	5	1114	5	PITPNM2	12	123472815	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	139447	123472815	10379080	902	52745											
DNAH10	196385	broad.mit.edu	37	chr12	124325995	124325995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgcgggctgaagggcgcGtggaggactggatgacggca	7	7	19	8	4	1	2	0	2	1	0	1	5	1	5	0	6	1	2	0	6	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:124325995G>A	uc001uft.3	+	29	4934	c.4909G>A	c.(4909-4911)GTG>ATG	p.V1637M		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1637	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TGAAGGGCGCGTGGAGGACTG	0.453													40	104					0	0	1	0	0		A	124325995	A	A	124325995	3	1	84	1	0	0	0	0	1	0	0	0	4604	1145	40	1	5023	1	DNAH10	12	124325995	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	853180	124325995	9525900	903	52746											
DNAH10	196385	broad.mit.edu	37	chr12	124419227	124419227	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatatagaaaaaggatgtCttatcaagagcaaacccaag	18	7	10	6	0	2	2	1	0	1	2	2	4	2	4	1	2	2	1	1	2	8	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:124419227C>A	uc001uft.3	+	77	13208	c.13183C>A	c.(13183-13185)CTT>ATT	p.L4395I	DNAH10_uc001ufu.3_Missense_Mutation_p.L308I	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	4395					microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		AAAAGGATGTCTTATCAAGAG	0.522													14	27					2.61681e-11	2.85084e-11	1	1	0		A	124419227	A	A	124419227	3	1	84	1	0	0	0	0	1	0	0	0	4604	913	32	5	13489	5	DNAH10	12	124419227	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	93232	124419227	9432668	904	52747											
NCOR2	9612	broad.mit.edu	37	chr12	124824632	124824632	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagcacactgggtctctgCtggagggcatcctgggtccg	6	9	15	11	1	1	1	0	1	1	0	4	2	3	2	2	4	2	3	2	4	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:124824632C>T	uc010tay.1	-	39	5793	c.5637G>A	c.(5635-5637)CAG>CAA	p.Q1879Q	NCOR2_uc010taz.1_Silent_p.Q1863Q|NCOR2_uc010tax.1_5'UTR	NM_006312	NP_006303	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 1	1880					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		TGGGTCTCTGCTGGAGGGCAT	0.527													26	77					0	0	1	0	0		T	124824632	T	T	124824632	2	4	84	1	0	0	0	0	0	0	0	1	10255	796	28	2		2	NCOR2	12	124824632	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	405405	124824632	9027263	905	52748											
DHX37	57647	broad.mit.edu	37	chr12	125436953	125436953	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggccgcaccttgtaggcGttcctccacttgtcctccag	4	10	12	15	2	0	0	0	0	0	0	4	0	4	0	6	3	0	3	6	3	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:125436953G>A	uc001ugy.2	-	21	2958	c.2859C>T	c.(2857-2859)AAC>AAT	p.N953N	DHX37_uc001ugz.1_Silent_p.N40N	NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	953							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		CCTTGTAGGCGTTCCTCCACT	0.692													3	31					0	0	1	0	0		A	125436953	A	A	125436953	2	1	84	1	0	0	0	0	0	0	0	1	4516	1136	40	1		1	DHX37	12	125436953	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	612321	125436953	8414942	906	52749											
TMEM132D	121256	broad.mit.edu	37	chr12	130184667	130184667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccacgggggtcccctccGgctggtccacggacttcctc	3	8	12	18	3	0	0	0	0	0	0	6	1	5	1	6	5	0	2	6	5	0	1	rs146143180		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:130184667G>A	uc009zyl.1	-	2	984	c.656C>T	c.(655-657)CCG>CTG	p.P219L		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	219	Extracellular (Potential).					integral to membrane		p.P219L(1)		ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GGTCCCCTCCGGCTGGTCCAC	0.682													25	62					0	0	1	0	0		A	130184667	A	A	130184667	3	1	84	1	0	0	0	0	1	0	0	0	16072	1116	39	1	2675	1	TMEM132D	12	130184667	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4747714	130184667	3667228	907	52750											
MMP17	4326	broad.mit.edu	37	chr12	132325159	132325159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccactggggcacgacaCggtgcgtgcactcatgtact	8	8	11	14	3	2	0	2	0	0	0	2	1	2	0	1	3	3	3	1	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:132325159C>T	uc001ujc.1	+	4	563	c.464C>T	c.(463-465)ACG>ATG	p.T155M	MMP17_uc001ujd.1_Missense_Mutation_p.T71M	NM_016155	NP_057239	Q9ULZ9	MMP17_HUMAN	matrix metalloproteinase 17 preproprotein	155					proteolysis	anchored to membrane|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.82e-07)|Epithelial(86;1.51e-06)|all cancers(50;2.35e-05)		GGGCACGACACGGTGCGTGCA	0.667													31	141					0	0	1	0	0		T	132325159	T	T	132325159	3	4	84	1	0	0	0	0	1	0	0	0	9674	536	19	1	478	1	MMP17	12	132325159	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2140492	132325159	1526736	908	52751											
EP400	57634	broad.mit.edu	37	chr12	132508377	132508377	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacaggaccacagagccgCgtggctcagccagagacgcc	11	3	12	15	3	2	2	2	0	0	2	2	4	2	3	4	2	2	1	4	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:132508377C>T	uc001ujn.2	+	23	4781	c.4746C>T	c.(4744-4746)CGC>CGT	p.R1582R	EP400_uc001ujl.2_Silent_p.R1581R|EP400_uc001ujm.2_Silent_p.R1501R	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1618					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CACAGAGCCGCGTGGCTCAGC	0.567													10	51					0	0	1	0	0		T	132508377	T	T	132508377	2	4	84	1	0	0	0	0	0	0	0	1	5157	755	27	1		1	EP400	12	132508377	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	183218	132508377	1343518	909	52752											
ANKLE2	23141	broad.mit.edu	37	chr12	133312082	133312082	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggtggagttttccagagcTtgcgaaaatcttctgcctat	9	13	11	8	1	2	1	0	0	2	1	3	4	3	2	2	2	3	2	2	2	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr12:133312082T>G	uc001ukx.2	-	9	1677	c.1610A>C	c.(1609-1611)AAG>ACG	p.K537T	ANKLE2_uc009zyw.1_5'Flank|ANKLE2_uc001uky.3_Missense_Mutation_p.K475T	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	537						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		TTTCCAGAGCTTGCGAAAATC	0.517													30	90					0	0	1	0	0		G	133312082	G	G	133312082	3	3	84	1	0	0	0	0	1	0	0	0	633	1609	56	5	1226	5	ANKLE2	12	133312082	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	803705	133312082	539813	910	52753											
ZMYM2	7750	broad.mit.edu	37	chr13	20635264	20635264	+	Frame_Shift_Del	DEL	A	-	-																															cctgcagcaattgaggagctAaaaagcaaggtttcttcaga																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:20635264delA	uc001umr.2	+	18	3109	c.2811delA	c.(2809-2811)CTAfs	p.L937fs	ZMYM2_uc001ums.2_Frame_Shift_Del_p.L937fs|ZMYM2_uc001umt.2_Frame_Shift_Del_p.L937fs|ZMYM2_uc010tco.1_RNA|ZMYM2_uc001umv.2_Frame_Shift_Del_p.L317fs|ZMYM2_uc001umw.2_Frame_Shift_Del_p.L390fs	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	937					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		TTGAGGAGCTAAAAAGCAAGG	0.423													6	12	---	---	---	---						.	-	20635264	-	-	20635264	7	5	84	1	0	1	0	1	0	0	0	0	17725	349	13	0	2869	0	ZMYM2	13	20635264	Frame_Shift_Del	DEL	A	TCGA-BR-8591-01A-11D-2394-08		20635264	94534614	911	52754											
GJA3	2700	broad.mit.edu	37	chr13	20716880	20716880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtgttggggcagggccagCggtcgcagcggtagagcggc	5	5	20	11	5	0	1	0	0	0	1	1	1	0	1	2	6	3	4	2	6	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:20716880C>T	uc001umx.1	-	2	720	c.548G>A	c.(547-549)CGC>CAC	p.R183H		NM_021954	NP_068773	Q9Y6H8	CXA3_HUMAN	connexin 46	183	Extracellular (Potential).				cell-cell signaling|visual perception	connexon complex|integral to membrane				pancreas(1)	1		all_cancers(29;1.4e-21)|all_epithelial(30;8.75e-19)|all_lung(29;1.28e-17)|Lung SC(185;0.0257)|Ovarian(182;0.0822)		all cancers(112;0.000554)|Epithelial(112;0.000872)|OV - Ovarian serous cystadenocarcinoma(117;0.0105)|Lung(94;0.0251)|LUSC - Lung squamous cell carcinoma(192;0.0784)		GCAGGGCCAGCGGTCGCAGCG	0.602													29	88					0	0	1	0	0		T	20716880	T	T	20716880	3	4	84	1	0	0	0	0	1	0	0	0	6417	768	27	1	763	1	GJA3	13	20716880	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	81616	20716880	94452998	912	52755											
GJB6	10804	broad.mit.edu	37	chr13	20797122	20797122	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtcaatcccacatttcaaCacccagggcaggtggtaccc	10	7	10	14	0	2	0	2	0	0	0	3	0	3	0	3	4	2	2	3	4	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:20797122C>G	uc001umz.3	-	3	1051	c.498G>C	c.(496-498)GTG>GTC	p.V166V	GJB6_uc001unc.3_Silent_p.V166V|GJB6_uc001una.3_Silent_p.V166V|GJB6_uc001und.3_Silent_p.V166V|GJB6_uc001unb.3_Silent_p.V166V	NM_006783	NP_006774	O95452	CXB6_HUMAN	gap junction protein, beta 6	166	Extracellular (Potential).				cell communication|sensory perception of sound	connexon complex|integral to membrane|intracellular membrane-bounded organelle				ovary(1)	1		all_cancers(29;2.04e-22)|all_epithelial(30;1.19e-19)|all_lung(29;2.27e-18)|Lung SC(185;0.0257)|Ovarian(182;0.0822)		all cancers(112;2.17e-05)|Epithelial(112;0.00075)|OV - Ovarian serous cystadenocarcinoma(117;0.00978)|Lung(94;0.0238)|GBM - Glioblastoma multiforme(144;0.0323)|LUSC - Lung squamous cell carcinoma(192;0.0744)		CACATTTCAACACCCAGGGCA	0.453													9	50					0	0	1	0	0		G	20797122	G	G	20797122	2	3	84	1	0	0	0	0	0	0	0	1	6427	465	17	5		5	GJB6	13	20797122	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	80242	20797122	94372756	913	52756											
IFT88	8100	broad.mit.edu	37	chr13	21157114	21157114	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaattggagaatgatgcaGcttttcagcaagctgtgagg	12	10	14	5	0	1	3	1	2	0	1	1	5	1	4	0	3	4	4	0	3	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:21157114G>T	uc001unh.2	+	5	532	c.136G>T	c.(136-138)GCT>TCT	p.A46S	IFT88_uc001uni.2_Missense_Mutation_p.A37S|IFT88_uc001unj.2_Missense_Mutation_p.A36S|IFT88_uc010tcq.1_Missense_Mutation_p.A36S	NM_175605	NP_783195	Q13099	IFT88_HUMAN	intraflagellar transport 88 homolog isoform 1	46					cilium morphogenesis	centriole|intraflagellar transport particle B|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(29;5.79e-25)|all_epithelial(30;2.57e-20)|all_lung(29;3.13e-16)|Lung SC(185;0.0262)|Ovarian(182;0.0825)|Hepatocellular(188;0.244)		all cancers(112;0.000667)|Epithelial(112;0.00119)|OV - Ovarian serous cystadenocarcinoma(117;0.0141)|Lung(94;0.0183)|LUSC - Lung squamous cell carcinoma(192;0.0528)		GAATGATGCAGCTTTTCAGCA	0.294													14	43					6.94344e-10	7.51739e-10	1	1	0		T	21157114	T	T	21157114	3	4	84	1	0	0	0	0	1	0	0	0	7582	971	34	5	146	5	IFT88	13	21157114	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	359992	21157114	94012764	914	52757											
FAM123A	219287	broad.mit.edu	37	chr13	25745638	25745638	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgcaagtccatgtctgcCgcgagggtcccggtcccggc	6	7	13	15	4	1	0	0	0	1	0	4	1	4	0	4	3	2	1	4	3	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:25745638C>T	uc001uqb.2	-	1	220	c.120G>A	c.(118-120)GCG>GCA	p.A40A	FAM123A_uc001uqa.2_Silent_p.A40A|FAM123A_uc001uqc.2_Silent_p.A40A	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	40	Gly-rich.									ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		CCATGTCTGCCGCGAGGGTCC	0.682													3	26					0	0	1	0	0		T	25745638	T	T	25745638	2	4	84	1	0	0	0	0	0	0	0	1	5433	639	23	1		1	FAM123A	13	25745638	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4588524	25745638	89424240	915	52758											
C13orf33	84935	broad.mit.edu	37	chr13	31480852	31480852	+	Frame_Shift_Del	DEL	G	-	-																															cggggagccggcggcggcgcGggggggcttcaacgtcttcg																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:31480852delG	uc001uth.3	+	1	541	c.200delG	c.(199-201)CGGfs	p.R67fs	uc001utg.1_Intron	NM_032849	NP_116238	Q5VYS4	CM033_HUMAN	hypothetical protein LOC84935	67											0		Lung SC(185;0.0281)		all cancers(112;0.00914)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.0559)|GBM - Glioblastoma multiforme(144;0.244)		gcggcggcgcgggggggcTTC	0.582													11	11	---	---	---	---						.	-	31480852	-	-	31480852	7	5	84	1	0	1	0	1	0	0	0	0	1730	1116	39	0	202	0	C13orf33	13	31480852	Frame_Shift_Del	DEL	G	TCGA-BR-8591-01A-11D-2394-08	5735214	31480852	83689026	916	52759											
FRY	10129	broad.mit.edu	37	chr13	32691585	32691585	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgaatcacatgaatacagaCcaagaacaagcaataaatca	22	6	5	8	0	2	4	2	2	0	2	2	4	2	4	1	0	3	1	1	0	9	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:32691585C>A	uc001utx.2	+	4	935	c.439C>A	c.(439-441)CCA>ACA	p.P147T	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	147					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		TGAATACAGACCAAGAACAAG	0.338													7	71					2.0095e-06	2.11003e-06	1	1	0		A	32691585	A	A	32691585	3	1	84	1	0	0	0	0	1	0	0	0	6077	507	18	5	453	5	FRY	13	32691585	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1210733	32691585	82478293	917	52760											
KL	9365	broad.mit.edu	37	chr13	33635847	33635847	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatccaatggaatcgatgaCgggctgcatgctgaggacga	12	8	13	8	3	0	2	0	2	0	0	2	6	1	4	1	3	2	3	1	3	3	1	rs138004650	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:33635847C>T	uc001uus.2	+	4	2639	c.2631C>T	c.(2629-2631)GAC>GAT	p.D877D	KL_uc001uur.1_3'UTR	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	877	Glycosyl hydrolase-1 2.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		GAATCGATGACGGGCTGCATG	0.517													37	104					0	0	1	0	0		T	33635847	T	T	33635847	2	4	84	1	0	0	0	0	0	0	0	1	8347	535	19	1		1	KL	13	33635847	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	944262	33635847	81534031	918	52761											
MAB21L1	4081	broad.mit.edu	37	chr13	36049602	36049602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacccaggcgtcgctctccGccgagctctgcttgccggcc	3	7	12	19	5	2	0	0	0	2	0	4	1	2	0	5	2	3	4	5	2	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:36049602G>A	uc001uvc.2	-	1	1231	c.674C>T	c.(673-675)GCG>GTG	p.A225V	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	225					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		GTCGCTCTCCGCCGAGCTCTG	0.617													42	89					0	0	1	0	0		A	36049602	A	A	36049602	3	1	84	1	0	0	0	0	1	0	0	0	9159	1087	38	1	409	1	MAB21L1	13	36049602	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2413755	36049602	79120276	919	52762											
DCLK1	9201	broad.mit.edu	37	chr13	36385083	36385083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacccagcttcagtgatttgCtgccatcttggtgctcatac	7	13	8	13	0	3	1	2	1	1	0	3	1	3	1	2	1	5	3	2	1	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:36385083C>T	uc001uvf.2	-	12	1810	c.1577G>A	c.(1576-1578)AGC>AAC	p.S526N	DCLK1_uc001uve.3_Missense_Mutation_p.S219N|DCLK1_uc010teh.1_Missense_Mutation_p.S219N|DCLK1_uc010abk.2_Missense_Mutation_p.S46N	NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	526	Protein kinase.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		CAGTGATTTGCTGCCATCTTG	0.463													35	106					0	0	1	0	0		T	36385083	T	T	36385083	3	4	84	1	0	0	0	0	1	0	0	0	4294	797	28	2	640	2	DCLK1	13	36385083	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	335481	36385083	78784795	920	52763											
SPG20	23111	broad.mit.edu	37	chr13	36878539	36878539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctcctttacttccttcGtctgctcatccttctcccct	2	18	3	18	1	3	0	1	0	2	0	8	0	6	0	6	0	3	1	6	0	1	6	rs140800614		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:36878539G>A	uc001uvn.2	-	10	2234	c.1964C>T	c.(1963-1965)ACG>ATG	p.T655M	SPG20_uc010ten.1_Missense_Mutation_p.T645M|SPG20_uc001uvm.2_Missense_Mutation_p.T655M|SPG20_uc001uvo.2_Missense_Mutation_p.T655M|SPG20_uc001uvq.2_Missense_Mutation_p.T655M	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	655					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		TACTTCCTTCGTCTGCTCATC	0.403													43	104					0	0	1	0	0		A	36878539	A	A	36878539	3	1	84	1	0	0	0	0	1	0	0	0	15067	1145	40	1	40	1	SPG20	13	36878539	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	493456	36878539	78291339	921	52764											
SMAD9	4093	broad.mit.edu	37	chr13	37453416	37453416	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtaaagacgacccaccTggagtctccacccggcggta	9	6	11	15	5	1	1	0	0	1	1	3	3	1	2	4	3	0	2	4	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:37453416T>C	uc001uvw.2	-	2	754	c.411A>G	c.(409-411)CCA>CCG	p.P137P	SMAD9_uc001uvx.2_Silent_p.P137P|SMAD9_uc010tep.1_5'UTR	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	137	MH1.				BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		ACGACCCACCTGGAGTCTCCA	0.547													8	43					0	0	1	0	0		C	37453416	C	C	37453416	2	2	84	1	0	0	0	0	0	0	0	1	14789	1594	55	3		3	SMAD9	13	37453416	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	574877	37453416	77716462	922	52765											
STOML3	161003	broad.mit.edu	37	chr13	39541029	39541029	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgccctctagtatattcAtgggcagaggaaacacaatc	14	9	8	10	0	2	1	1	0	1	1	3	2	2	2	1	2	2	2	1	2	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:39541029A>G	uc001uwx.2	-	7	947	c.809T>C	c.(808-810)ATG>ACG	p.M270T	STOML3_uc010tez.1_Missense_Mutation_p.M261T	NM_145286	NP_660329	Q8TAV4	STML3_HUMAN	stomatin-like 3 isoform 1	270	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Lung NSC(96;1.42e-05)|Prostate(109;0.00851)|Breast(139;0.0199)|Lung SC(185;0.0743)		all cancers(112;2.93e-08)|Epithelial(112;3.64e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00107)|BRCA - Breast invasive adenocarcinoma(63;0.00349)|GBM - Glioblastoma multiforme(144;0.0137)		TAGTATATTCATGGGCAGAGG	0.507													33	79					0	0	1	0	0		G	39541029	G	G	39541029	3	3	84	1	0	0	0	0	1	0	0	0	15340	217	8	3	70	3	STOML3	13	39541029	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2087613	39541029	75628849	923	52766											
TSC22D1	8848	broad.mit.edu	37	chr13	45149330	45149330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgtagtacttggagcaCgcatattagtcattacagat	12	12	8	9	1	1	1	1	0	0	1	1	2	1	2	1	1	3	4	1	1	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:45149330C>T	uc001uzn.3	-	1	1372	c.881G>A	c.(880-882)CGT>CAT	p.R294H	TSC22D1_uc001uzo.1_Missense_Mutation_p.R294H	NM_183422	NP_904358	Q15714	T22D1_HUMAN	TSC22 domain family, member 1 isoform 1	294					transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(4;8.74e-08)|Acute lymphoblastic leukemia(4;1.78e-07)|Lung NSC(96;2.21e-05)|Breast(139;0.000625)|Prostate(109;0.000947)|Hepatocellular(98;0.0202)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000522)|BRCA - Breast invasive adenocarcinoma(63;0.118)		ACTTGGAGCACGCATATTAGT	0.398													18	102					0	0	1	0	0		T	45149330	T	T	45149330	3	4	84	1	0	0	0	0	1	0	0	0	16633	536	19	1	2481	1	TSC22D1	13	45149330	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5608301	45149330	70020548	924	52767											
CPB2	1361	broad.mit.edu	37	chr13	46638789	46638789	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaacaacctaccacaccAgtgtttggaagcaaagttcc	14	7	7	13	0	0	0	0	0	0	0	1	1	1	1	5	1	5	3	5	1	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:46638789A>G	uc001vaw.2	-	8	857	c.790T>C	c.(790-792)TGG>CGG	p.W264R	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Missense_Mutation_p.W227R	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	264					blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		CTACCACACCAGTGTTTGGAA	0.403													11	47					0	0	1	0	0		G	46638789	G	G	46638789	3	3	84	1	0	0	0	0	1	0	0	0	3800	188	7	3	497	3	CPB2	13	46638789	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1489459	46638789	68531089	925	52768											
KCNRG	283518	broad.mit.edu	37	chr13	50589904	50589904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctcttttctatgaacttcGttctctagttgatctcttaa	7	19	6	9	1	4	2	0	2	4	0	7	2	4	2	0	1	1	3	0	1	4	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:50589904G>A	uc001vdu.2	+	1	515	c.275G>A	c.(274-276)CGT>CAT	p.R92H	DLEU2_uc001vdn.1_Intron|DLEU2_uc001vdo.1_Intron|KCNRG_uc001vdt.2_Missense_Mutation_p.R92H|TRIM13_uc001vdp.1_3'UTR|TRIM13_uc001vdq.1_3'UTR|TRIM13_uc001vdr.1_3'UTR|TRIM13_uc001vds.1_3'UTR	NM_173605	NP_775876	Q8N5I3	KCNRG_HUMAN	potassium channel regulator isoform 1	92	BTB.					voltage-gated potassium channel complex	identical protein binding|voltage-gated potassium channel activity				0		Acute lymphoblastic leukemia(7;3.41e-06)|Lung NSC(96;3.08e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.48e-10)|COAD - Colon adenocarcinoma(199;0.204)		TATGAACTTCGTTCTCTAGTT	0.413													25	90					0	0	1	0	0		A	50589904	A	A	50589904	3	1	84	1	0	0	0	0	1	0	0	0	8103	1145	40	1	277	1	KCNRG	13	50589904	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3951115	50589904	64579974	926	52769											
ATP7B	540	broad.mit.edu	37	chr13	52509016	52509016	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacagcgacacctggctgAcatagctgacctggtcccat	10	7	11	13	1	0	2	0	2	0	0	1	4	1	3	3	3	2	2	3	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:52509016A>G	uc001vfw.2	-	21	4431	c.4274T>C	c.(4273-4275)GTC>GCC	p.V1425A	ATP7B_uc010adv.2_Missense_Mutation_p.V995A|ATP7B_uc001vfx.2_Missense_Mutation_p.V1218A|ATP7B_uc001vfy.2_Missense_Mutation_p.V1314A|ATP7B_uc010tgt.1_Missense_Mutation_p.V1360A|ATP7B_uc010tgu.1_Missense_Mutation_p.V1377A|ATP7B_uc010tgv.1_Missense_Mutation_p.V1347A|ATP7B_uc001vfv.2_Missense_Mutation_p.V697A|ATP7B_uc010tgs.1_Missense_Mutation_p.V636A	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	1425	Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		CACCTGGCTGACATAGCTGAC	0.617									Wilson_disease				26	96					0	0	1	0	0		G	52509016	G	G	52509016	3	3	84	1	0	0	0	0	1	0	0	0	1192	275	10	3	127	3	ATP7B	13	52509016	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1919112	52509016	62660862	927	52770											
CKAP2	26586	broad.mit.edu	37	chr13	53049197	53049197	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggaacagctaacggagtTgggaagagaaactgatgctt	14	9	13	5	1	0	2	0	1	0	1	0	6	0	5	0	3	5	3	0	3	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:53049197T>C	uc001vgv.2	+	9	2170	c.1973T>C	c.(1972-1974)TTG>TCG	p.L658S	CKAP2_uc001vgu.2_Missense_Mutation_p.L657S|CKAP2_uc010tha.1_Missense_Mutation_p.L609S	NM_001098525	NP_001091995	Q8WWK9	CKAP2_HUMAN	cytoskeleton associated protein 2 isoform 2	658					apoptosis|cell cycle	centrosome|microtubule|spindle pole				ovary(1)|skin(1)	2		Breast(56;0.000207)|Lung NSC(96;0.00212)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.6e-08)		CTAACGGAGTTGGGAAGAGAA	0.423													28	84					0	0	1	0	0		C	53049197	C	C	53049197	3	2	84	1	0	0	0	0	1	0	0	0	3445	1821	63	3	2007	3	CKAP2	13	53049197	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	540181	53049197	62120681	928	52771											
PCDH8	5100	broad.mit.edu	37	chr13	53420095	53420095	+	Frame_Shift_Del	DEL	C	-	-																															caaagggcgctttgccggtgCcagggaaggtgagcacgtcg																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:53420095delC	uc001vhi.2	-	1	2680	c.2477delG	c.(2476-2478)GGCfs	p.G826fs	PCDH8_uc001vhj.2_Intron	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	826	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		TTTGCCGGTGCCAGGGAAGGT	0.706													3	4	---	---	---	---						.	-	53420095	-	-	53420095	7	5	84	1	0	1	0	1	0	0	0	0	11536	739	26	0	747	0	PCDH8	13	53420095	Frame_Shift_Del	DEL	C	TCGA-BR-8591-01A-11D-2394-08	370898	53420095	61749783	929	52772											
LMO7	4008	broad.mit.edu	37	chr13	76382045	76382045	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatagataccacccagtcccTtttcccgaaccctggactct	9	10	6	16	1	1	1	0	0	1	1	3	4	3	2	5	1	2	0	5	1	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:76382045T>C	uc001vjv.2	+	7	1687	c.927T>C	c.(925-927)CCT>CCC	p.P309P	LMO7_uc010thv.1_Intron|LMO7_uc001vjt.1_Intron|LMO7_uc010thw.1_Intron|LMO7_uc001vjw.1_Silent_p.P215P	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	594						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		ACCCAGTCCCTTTTCCCGAAC	0.448													49	99					0	0	1	0	0		C	76382045	C	C	76382045	2	2	84	1	0	0	0	0	0	0	0	1	8872	1596	56	3		3	LMO7	13	76382045	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	22961950	76382045	38787833	930	52773											
MYCBP2	23077	broad.mit.edu	37	chr13	77763121	77763121	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaaagacctctttaaaaTgtgtacaggttcactggttt	12	14	8	7	0	2	1	1	0	1	1	2	1	2	1	1	2	2	4	1	2	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:77763121T>C	uc001vkf.2	-	31	4193	c.4102A>G	c.(4102-4104)ATT>GTT	p.I1368V	MYCBP2_uc010aev.2_Missense_Mutation_p.I772V	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1368					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CTCTTTAAAATGTGTACAGGT	0.363													6	48					0	0	1	0	0		C	77763121	C	C	77763121	3	2	84	1	0	0	0	0	1	0	0	0	10036	1464	51	3	10036	3	MYCBP2	13	77763121	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1381076	77763121	37406757	931	52774											
MYCBP2	23077	broad.mit.edu	37	chr13	77779459	77779459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaagtaaaatatcagtgtCggcactgaaacgtatagctt	15	10	8	8	2	1	1	1	1	0	0	2	1	1	1	1	1	2	4	1	1	7	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:77779459C>T	uc001vkf.2	-	27	3752	c.3661G>A	c.(3661-3663)GAC>AAC	p.D1221N	MYCBP2_uc010aev.2_Missense_Mutation_p.D625N	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1221					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		ATATCAGTGTCGGCACTGAAA	0.368													17	35					0	0	1	0	0		T	77779459	T	T	77779459	3	4	84	1	0	0	0	0	1	0	0	0	10036	884	31	1	10493	1	MYCBP2	13	77779459	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	16338	77779459	37390419	932	52775											
GPC6	10082	broad.mit.edu	37	chr13	94482724	94482724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgaagattcaggttaccCgcgccttcattgctgccagg	9	10	10	12	2	2	2	2	1	0	1	2	2	2	2	3	2	4	2	3	2	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:94482724C>T	uc001vlt.2	+	3	1269	c.637C>T	c.(637-639)CGC>TGC	p.R213C	GPC6_uc010tig.1_Missense_Mutation_p.R213C|GPC6_uc001vlu.1_Missense_Mutation_p.R143C	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	213						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				TCAGGTTACCCGCGCCTTCAT	0.498													15	54					0	0	1	0	0		T	94482724	T	T	94482724	3	4	84	1	0	0	0	0	1	0	0	0	6617	652	23	1	647	1	GPC6	13	94482724	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	16703265	94482724	20687154	933	52776											
RNF113B	140432	broad.mit.edu	37	chr13	98829522	98829522	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctcccaacggccgtggcGtgcgtcacccttgcgtcgcc	4	7	13	17	6	1	0	1	0	0	0	3	0	2	0	4	3	3	1	4	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:98829522G>A	uc001vnk.2	-	1	1	c.-30_splice	c.e1-1		FARP1_uc001vnh.2_Intron|FARP1_uc001vni.2_Intron|FARP1_uc001vnj.2_Intron	NM_178861	NP_849192	Q8IZP6	R113B_HUMAN	ring finger protein 113B								nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.13)			CGGCCGTGGCGtgcgtcaccc	0.468													7	18					0	0	1	0	0		A	98829522	A	A	98829522	5	1	84	1	0	0	0	0	0	0	1	0	13453	1160	40	1		1	RNF113B	13	98829522	Splice_Site	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4346798	98829522	16340356	934	52777											
TMTC4	84899	broad.mit.edu	37	chr13	101289878	101289878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccatgatcctccagcgcaCgtagagcatcccagcccctc	8	6	8	19	2	0	2	0	1	0	1	4	2	3	2	6	0	3	3	6	0	1	1	rs3809371	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:101289878C>T	uc001vou.2	-	8	1016	c.856G>A	c.(856-858)GTG>ATG	p.V286M	TMTC4_uc001vot.2_Missense_Mutation_p.V305M|TMTC4_uc010tja.1_Missense_Mutation_p.V175M|TMTC4_uc001vov.1_Missense_Mutation_p.V31M|TMTC4_uc001vow.1_Missense_Mutation_p.V69M	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	286	Helical; (Potential).					integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CTCCAGCGCACGTAGAGCATC	0.632													40	130					0	0	1	0	0		T	101289878	T	T	101289878	3	4	84	1	0	0	0	0	1	0	0	0	16288	536	19	1	1413	1	TMTC4	13	101289878	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2460356	101289878	13880000	935	52778											
TMTC4	84899	broad.mit.edu	37	chr13	101294559	101294559	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaagaatgcgctccctccTtgttacctgccaattaagag	10	11	9	11	1	0	2	0	0	0	2	2	3	2	3	4	1	3	2	4	1	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:101294559T>C	uc001vou.2	-	6	750	c.590A>G	c.(589-591)AAG>AGG	p.K197R	TMTC4_uc001vot.2_Missense_Mutation_p.K216R|TMTC4_uc010tja.1_Missense_Mutation_p.K86R|TMTC4_uc001vow.1_5'UTR	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	197						integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CGCTCCCTCCTTGTTACCTGC	0.453													38	102					0	0	1	0	0		C	101294559	C	C	101294559	3	2	84	1	0	0	0	0	1	0	0	0	16288	1609	56	3	1687	3	TMTC4	13	101294559	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	4681	101294559	13875319	936	52779											
IRS2	8660	broad.mit.edu	37	chr13	110434506	110434506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccgccggtgctgccgaCgcccacagcgctgatgagac	6	4	13	18	6	0	2	0	2	0	1	0	4	0	2	5	1	3	2	5	1	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:110434506C>T	uc001vqv.2	-	1	4409	c.3895G>A	c.(3895-3897)GTC>ATC	p.V1299I		NM_003749	NP_003740	Q9Y4H2	IRS2_HUMAN	insulin receptor substrate 2	1299					fibroblast growth factor receptor signaling pathway|glucose metabolic process|insulin receptor signaling pathway|lipid homeostasis|negative regulation of B cell apoptosis|negative regulation of kinase activity|negative regulation of plasma membrane long-chain fatty acid transport|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of B cell proliferation|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|response to glucose stimulus	cytosol|plasma membrane	insulin receptor binding|signal transducer activity			large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)|skin(1)|ovary(1)|kidney(1)	8	all_cancers(4;7.57e-15)|all_epithelial(4;5.91e-09)|all_lung(23;7.64e-07)|Lung NSC(43;0.000183)|Colorectal(4;0.00159)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0155)	Breast(118;0.159)	all cancers(43;0.00815)|BRCA - Breast invasive adenocarcinoma(86;0.11)|Epithelial(84;0.127)|GBM - Glioblastoma multiforme(44;0.147)			GTGCTGCCGACGCCCACAGCG	0.562													4	14					0	0	1	0	0		T	110434506	T	T	110434506	3	4	84	1	0	0	0	0	1	0	0	0	7857	536	19	1	129	1	IRS2	13	110434506	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	9139947	110434506	4735372	937	52780											
COL4A1	1282	broad.mit.edu	37	chr13	110850974	110850974	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccagcctgcccaggtacaggGaggcctgcaaccagacagaa	12	3	12	14	0	0	2	0	0	0	2	0	3	0	3	5	3	5	2	5	3	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:110850974G>A	uc001vqw.3	-	21	1247	c.1125C>T	c.(1123-1125)CTC>CTT	p.L375L	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	375	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CAGGTACAGGGAGGCCTGCAA	0.512													25	62					0	0	1	0	0		A	110850974	A	A	110850974	2	1	84	1	0	0	0	0	0	0	0	1	3692	1161	41	4		4	COL4A1	13	110850974	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	416468	110850974	4318904	938	52781											
ANKRD10	55608	broad.mit.edu	37	chr13	111545452	111545452	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttgttcccacactaataTgattaggaaatacattctga	14	14	6	7	0	1	2	0	2	1	0	2	4	2	3	1	1	1	1	1	1	5	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:111545452T>C	uc001vrn.2	-	4	749	c.614A>G	c.(613-615)CAT>CGT	p.H205R	ANKRD10_uc001vrm.2_5'UTR|ANKRD10_uc001vro.1_3'UTR|ANKRD10_uc001vrp.1_3'UTR	NM_017664	NP_060134	Q9NXR5	ANR10_HUMAN	ankyrin repeat domain 10	205										central_nervous_system(1)	1	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		all cancers(43;0.0882)|BRCA - Breast invasive adenocarcinoma(86;0.188)|Lung(89;0.208)			CACACTAATATGATTAGGAAA	0.423													25	86					0	0	1	0	0		C	111545452	C	C	111545452	3	2	84	1	0	0	0	0	1	0	0	0	638	1464	51	3	660	3	ANKRD10	13	111545452	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	694478	111545452	3624426	939	52782											
ATP11A	23250	broad.mit.edu	37	chr13	113481079	113481079	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcatccctgtgtccatgtaCgtcacggtcgagatgcagaa	10	10	10	11	3	2	2	2	0	0	2	5	3	4	2	2	1	2	2	2	1	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:113481079C>T	uc001vsi.3	+	12	1183	c.1095C>T	c.(1093-1095)TAC>TAT	p.Y365Y	ATP11A_uc001vsj.3_Silent_p.Y365Y|ATP11A_uc001vsm.1_Silent_p.Y241Y	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	365	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				TGTCCATGTACGTCACGGTCG	0.542													27	93					0	0	1	0	0		T	113481079	T	T	113481079	2	4	84	1	0	0	0	0	0	0	0	1	1120	547	19	1		1	ATP11A	13	113481079	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1935627	113481079	1688799	940	52783											
FAM70B	348013	broad.mit.edu	37	chr13	114514861	114514861	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccccgggggagaagccaccCccctacgcaccctgatagag	9	3	11	18	2	0	3	0	1	0	2	0	4	0	3	7	2	2	1	7	2	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr13:114514861C>T	uc001vuh.2	+	9	993	c.966C>T	c.(964-966)CCC>CCT	p.P322P		NM_182614	NP_872420	Q8WV15	FA70B_HUMAN	family with sequence similarity 70, member B	322	Pro-rich.					integral to membrane					0	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.123)|all_epithelial(44;0.133)	all cancers(43;0.181)			AGAAGCCACCCCCCTACGCAC	0.557													32	121					0	0	1	0	0		T	114514861	T	T	114514861	2	4	84	1	0	0	0	0	0	0	0	1	5620	610	22	4		4	FAM70B	13	114514861	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1033782	114514861	655017	941	52784											
OR11H12	440153	broad.mit.edu	37	chr14	19378054	19378054	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctaatatcatgactgggcAtctctgtgccaaactggtca	10	12	8	11	0	3	1	2	1	1	0	5	1	4	1	2	2	2	1	2	2	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:19378054A>G	uc010tkp.1	+	1	461	c.461A>G	c.(460-462)CAT>CGT	p.H154R		NM_001013354	NP_001013372	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H,	154	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATGACTGGGCATCTCTGTGCC	0.478													18	424					0	0	1	0	0		G	19378054	G	G	19378054	3	3	84	1	0	0	0	0	1	0	0	0	10946	217	8	3	463	3	OR11H12	14	19378054	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08		19378054	87971486	942	52785											
OR4K13	390433	broad.mit.edu	37	chr14	20502155	20502155	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccagacgtagataaagaCacacggagcaaagaacagag	18	2	13	8	2	0	5	0	0	0	5	0	6	0	6	1	2	2	2	1	2	5	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:20502155C>A	uc010tkz.1	-	1	763	c.763G>T	c.(763-765)GTC>TTC	p.V255F		NM_001004714	NP_001004714	Q8NH42	OR4KD_HUMAN	olfactory receptor, family 4, subfamily K,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		TAGATAAAGACACACGGAGCA	0.408													9	41					3.09899e-07	3.27774e-07	1	1	0		A	20502155	A	A	20502155	3	1	84	1	0	0	0	0	1	0	0	0	11087	478	17	5	153	5	OR4K13	14	20502155	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1124101	20502155	86847385	943	52786											
OR4L1	122742	broad.mit.edu	37	chr14	20528376	20528376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	taggtcaacccttcattctcCcttgtactttctccttggaa	7	16	5	13	0	4	0	2	0	2	0	6	1	4	1	3	2	2	1	3	2	4	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:20528376C>T	uc001vwn.1	+	1	173	c.173C>T	c.(172-174)CCC>CTC	p.P58L		NM_001004717	NP_001004717	Q8NH43	OR4L1_HUMAN	olfactory receptor, family 4, subfamily L,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		CTTCATTCTCCCTTGTACTTT	0.428													32	121					0	0	1	0	0		T	20528376	T	T	20528376	3	4	84	1	0	0	0	0	1	0	0	0	11093	623	22	4	175	4	OR4L1	14	20528376	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	26221	20528376	86821164	944	52787											
TEP1	7011	broad.mit.edu	37	chr14	20854232	20854232	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctccaaacctgtctgccttAcccagtggaagtgtggatgg	8	10	11	12	0	1	0	0	0	1	0	2	2	2	2	5	3	3	0	5	3	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:20854232A>G	uc001vxe.2	-	20	3022	c.2982_splice	c.e20+1	p.W994_splice	TEP1_uc010ahk.2_Splice_Site_p.W344_splice|TEP1_uc010tlf.1_Splice_Site|TEP1_uc010tlg.1_Splice_Site_p.W886_splice	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1						telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		TGTCTGCCTTACCCAGTGGAA	0.557													55	175					0	0	1	0	0		G	20854232	G	G	20854232	5	3	84	1	0	0	0	0	0	0	1	0	15784	405	14	3	5043	3	TEP1	14	20854232	Splice_Site	SNP	A	TCGA-BR-8591-01A-11D-2394-08	325856	20854232	86495308	945	52788											
RNASE9	390443	broad.mit.edu	37	chr14	21025061	21025061	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttggtaggtggtctggcGggccctgtactaaaaaattt	8	14	12	7	1	2	0	0	0	2	0	2	0	2	0	1	5	1	2	1	5	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:21025061G>A	uc010aho.2	-	4	327	c.168C>T	c.(166-168)CCC>CCT	p.P56P	RNASE9_uc001vxq.3_Silent_p.P61P|RNASE9_uc010ahp.2_Silent_p.P61P|RNASE9_uc010ahq.2_Silent_p.P61P|RNASE9_uc010ahr.2_Silent_p.P61P|RNASE9_uc010ahs.2_Silent_p.P56P|RNASE9_uc010aht.2_Silent_p.P56P|RNASE9_uc010ahu.2_Silent_p.P56P	NM_001110357	NP_001103827	P60153	RNAS9_HUMAN	ribonuclease, RNase A family, 9 (non-active)	56						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			ovary(2)	2	all_cancers(95;0.00238)		Epithelial(56;3.32e-06)|all cancers(55;2.46e-05)	GBM - Glioblastoma multiforme(265;0.0141)		GTGGTCTGGCGGGCCCTGTAC	0.378													30	77					0	0	1	0	0		A	21025061	A	A	21025061	2	1	84	1	0	0	0	0	0	0	0	1	13435	1103	39	1		1	RNASE9	14	21025061	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	170829	21025061	86324479	946	52789											
SUPT16H	11198	broad.mit.edu	37	chr14	21831283	21831283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttctttctgatgtgctcttCgcttctcttctgcagtcatt	3	20	7	11	1	6	1	1	1	5	0	8	1	6	1	0	0	2	4	0	0	0	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:21831283C>T	uc001wao.2	-	13	1760	c.1421G>A	c.(1420-1422)CGA>CAA	p.R474Q		NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	474	Potential.				DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		ATGTGCTCTTCGCTTCTCTTC	0.398													21	57					0	0	1	0	0		T	21831283	T	T	21831283	3	4	84	1	0	0	0	0	1	0	0	0	15421	884	31	1	1778	1	SUPT16H	14	21831283	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	806222	21831283	85518257	947	52790											
MMP14	4323	broad.mit.edu	37	chr14	23313028	23313028	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgggcccaacatctgtgaCgggaactttgacaccgtggc	9	9	12	11	2	1	2	0	2	1	0	1	3	1	3	2	3	2	0	2	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:23313028C>T	uc001whc.2	+	6	1194	c.960C>T	c.(958-960)GAC>GAT	p.D320D		NM_004995	NP_004986	P50281	MMP14_HUMAN	matrix metalloproteinase 14 preproprotein	320	Extracellular (Potential).					extracellular matrix|integral to plasma membrane|melanosome	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0	all_cancers(95;9.47e-05)			GBM - Glioblastoma multiforme(265;0.00551)		ACATCTGTGACGGGAACTTTG	0.532													40	129					0	0	1	0	0		T	23313028	T	T	23313028	2	4	84	1	0	0	0	0	0	0	0	1	9671	535	19	1		1	MMP14	14	23313028	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1481745	23313028	84036512	948	52791											
MYH6	4624	broad.mit.edu	37	chr14	23858108	23858108	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccgctgaatggcgtccgTctcatacttggtcctccact	6	12	9	14	3	1	1	1	1	1	0	6	1	5	1	4	2	1	1	4	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:23858108T>C	uc001wjv.2	-	29	4202	c.4135A>G	c.(4135-4137)ACG>GCG	p.T1379A	uc010tnn.1_5'Flank|MIR208A_hsa-mir-208a|MI0000251_5'Flank	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1379	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		ATGGCGTCCGTCTCATACTTG	0.627													37	101					0	0	1	0	0		C	23858108	C	C	23858108	3	2	84	1	0	0	0	0	1	0	0	0	10056	1667	58	3	1728	3	MYH6	14	23858108	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	545080	23858108	83491432	949	52792											
MYH7	4625	broad.mit.edu	37	chr14	23885003	23885003	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgttctccttcaggtcgtcGttggcacggactgcatcgtc	5	13	11	12	4	2	0	1	0	1	0	7	1	2	1	1	3	1	4	1	3	0	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:23885003G>A	uc001wjx.2	-	35	5098	c.4992C>T	c.(4990-4992)AAC>AAT	p.N1664N		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1664	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TCAGGTCGTCGTTGGCACGGA	0.612													15	68					0	0	1	0	0		A	23885003	A	A	23885003	2	1	84	1	0	0	0	0	0	0	0	1	10057	1136	40	1		1	MYH7	14	23885003	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	26895	23885003	83464537	950	52793											
DHRS2	10202	broad.mit.edu	37	chr14	24113765	24113765	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagtggtgaggattgggTgtgtcttccatctcccagtc	7	12	13	9	0	2	1	0	1	2	0	5	2	3	2	2	3	0	1	2	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:24113765T>G	uc001wkt.3	+	7	1133	c.686_splice	c.e7+2	p.G229_splice	DHRS2_uc001wku.3_Intron|DHRS2_uc010akv.2_Intron|DHRS2_uc001wkv.3_Intron	NM_182908	NP_878912	Q13268	DHRS2_HUMAN	dehydrogenase/reductase member 2 isoform 1						C21-steroid hormone metabolic process|cellular response to oxidative stress|myeloid dendritic cell differentiation|negative regulation of apoptosis|negative regulation of cell proliferation|response to toxin	mitochondrion|nuclear envelope	binding|carbonyl reductase (NADPH) activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00659)		GAGGATTGGGTGTGTCTTCCA	0.517													19	61					0	0	1	0	0		G	24113765	G	G	24113765	5	3	84	1	0	0	0	0	0	0	1	0	4496	1710	59	5	710	5	DHRS2	14	24113765	Splice_Site	SNP	T	TCGA-BR-8591-01A-11D-2394-08	228762	24113765	83235775	951	52794											
IPO4	79711	broad.mit.edu	37	chr14	24656883	24656883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgatggtacctctctctctGggctgtgggggctgtgggta	3	13	17	8	0	2	1	0	1	2	0	4	1	2	1	1	5	1	4	1	5	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:24656883G>A	uc001wmv.1	-	5	529	c.398C>T	c.(397-399)CCA>CTA	p.P133L	IPO4_uc001wmt.1_5'Flank|IPO4_uc001wmu.2_5'UTR|IPO4_uc001wmx.1_5'UTR|IPO4_uc001wmy.1_5'UTR|IPO4_uc010tnz.1_RNA|IPO4_uc001wmw.1_RNA|IPO4_uc001wmz.1_Missense_Mutation_p.P133L	NM_024658	NP_078934	Q8TEX9	IPO4_HUMAN	importin 4	133					intracellular protein transport	cytoplasm|nucleus	protein binding|protein transporter activity			kidney(1)	1				GBM - Glioblastoma multiforme(265;0.0087)		CTCTCTCTCTGGGCTGTGGGG	0.567													35	98					0	0	1	0	0		A	24656883	A	A	24656883	3	1	84	1	0	0	0	0	1	0	0	0	7811	1348	47	4	2951	4	IPO4	14	24656883	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	543118	24656883	82692657	952	52795											
NFATC4	4776	broad.mit.edu	37	chr14	24841792	24841792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcaaagctgcccctggcGgtcaccccgtagtcaaggta	8	8	11	14	2	3	0	3	0	0	0	3	0	3	0	4	3	2	3	4	3	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:24841792G>A	uc001wpc.2	+	3	1663	c.1342G>A	c.(1342-1344)GGT>AGT	p.G448S	NFATC4_uc010tok.1_Missense_Mutation_p.G511S|NFATC4_uc010tol.1_Missense_Mutation_p.G511S|NFATC4_uc010alr.2_Missense_Mutation_p.G511S|NFATC4_uc010als.2_Missense_Mutation_p.G461S|NFATC4_uc010tom.1_Missense_Mutation_p.G461S|NFATC4_uc010ton.1_Missense_Mutation_p.G461S|NFATC4_uc010too.1_Missense_Mutation_p.G461S|NFATC4_uc010alt.2_Missense_Mutation_p.G480S|NFATC4_uc010top.1_Missense_Mutation_p.G480S|NFATC4_uc010toq.1_Missense_Mutation_p.G480S|NFATC4_uc010alu.2_Missense_Mutation_p.G140S|NFATC4_uc010tor.1_Missense_Mutation_p.G448S|NFATC4_uc010tos.1_Missense_Mutation_p.G378S|NFATC4_uc010tot.1_Missense_Mutation_p.G436S|NFATC4_uc010tou.1_Missense_Mutation_p.G378S|NFATC4_uc010tov.1_Missense_Mutation_p.G436S|NFATC4_uc010tow.1_Missense_Mutation_p.G378S|NFATC4_uc010alv.2_Missense_Mutation_p.G436S|NFATC4_uc010tox.1_Missense_Mutation_p.G378S|NFATC4_uc001wpd.2_5'Flank|NFATC4_uc010toy.1_5'Flank|NFATC4_uc010toz.1_5'Flank|NFATC4_uc010tpa.1_5'Flank|NFATC4_uc010tpb.1_5'Flank	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	448	RHD.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		TGCCCCTGGCGGTCACCCCGT	0.587													22	51					0	0	1	0	0		A	24841792	A	A	24841792	3	1	84	1	0	0	0	0	1	0	0	0	10384	1116	39	1	1545	1	NFATC4	14	24841792	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	184909	24841792	82507748	953	52796											
KIAA0391	9692	broad.mit.edu	37	chr14	35739687	35739687	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatcacaagagacctgatgcGggaccacaaggcctgtctgc	11	7	11	12	1	2	2	1	1	1	1	2	4	2	3	3	2	2	0	3	2	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:35739687G>A	uc001wsy.1	+	7	1865	c.1505G>A	c.(1504-1506)CGG>CAG	p.R502Q	KIAA0391_uc010tps.1_Missense_Mutation_p.R407Q|KIAA0391_uc001wsz.1_Missense_Mutation_p.R486Q|KIAA0391_uc001wta.2_RNA|KIAA0391_uc001wtb.1_Missense_Mutation_p.R486Q|KIAA0391_uc001wtc.1_Missense_Mutation_p.R130Q	NM_014672	NP_055487	O15091	MRRP3_HUMAN	mitochondrial RNase P protein 3 precursor	502					tRNA processing	mitochondrion					0	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;2.93e-05)|LUAD - Lung adenocarcinoma(48;3.86e-05)|Epithelial(34;0.0114)|all cancers(34;0.0277)	GBM - Glioblastoma multiforme(112;0.0593)		GACCTGATGCGGGACCACAAG	0.507													25	94					0	0	1	0	0		A	35739687	A	A	35739687	3	1	84	1	0	0	0	0	1	0	0	0	8188	1116	39	1	1527	1	KIAA0391	14	35739687	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	10897895	35739687	71609853	954	52797											
INSM2	84684	broad.mit.edu	37	chr14	36004595	36004595	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccggggcggatcagcacccGgacagcgccccgaggcaggg	7	2	17	15	5	1	0	1	0	0	0	2	3	2	2	4	6	2	2	4	6	0	0	rs149249302		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:36004595G>A	uc001wth.1	+	1	1348	c.1137G>A	c.(1135-1137)CCG>CCA	p.P379P		NM_032594	NP_115983	Q96T92	INSM2_HUMAN	insulinoma-associated protein IA-6	379					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)|skin(1)	2	Breast(36;0.122)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(9;2.16e-07)|Lung(238;2.63e-07)|Epithelial(34;0.00145)|all cancers(34;0.00452)	GBM - Glioblastoma multiforme(112;0.0223)		ATCAGCACCCGGACAGCGCCC	0.682											OREG0005660	type=TRANSCRIPTION FACTOR BINDING SITE|Gene=INSM2|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	16	57					0	0	1	0	0		A	36004595	A	A	36004595	2	1	84	1	0	0	0	0	0	0	0	1	7788	1103	39	1		1	INSM2	14	36004595	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	264908	36004595	71344945	955	52798											
NKX2-1	7080	broad.mit.edu	37	chr14	36987001	36987001	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgacctgcgtgggcgtcaGgtggatcatgctggccaggt	5	10	16	10	2	2	1	2	1	0	0	2	2	2	2	2	5	2	1	2	5	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:36987001G>T	uc001wtt.2	-	2	939	c.598C>A	c.(598-600)CTG>ATG	p.L200M	SFTA3_uc001wts.2_Intron|NKX2-1_uc001wtu.2_Missense_Mutation_p.L230M|NKX2-1_uc001wtv.2_Missense_Mutation_p.L200M|uc001wtw.1_5'Flank	NM_003317	NP_003308	P43699	NKX21_HUMAN	thyroid transcription factor 1 isoform 2	200	Homeobox.				epithelial tube branching involved in lung morphogenesis|globus pallidus development|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|thyroid gland development		protein binding|transcription regulatory region DNA binding			skin(1)	1	all_cancers(3;4.47e-51)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.165)		Lung(8;1.8e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.014)|all cancers(34;0.0366)|LUSC - Lung squamous cell carcinoma(13;0.132)	GBM - Glioblastoma multiforme(112;0.0171)		GTGGGCGTCAGGTGGATCATG	0.517			A		NSCLC								7	22					0.00448238	0.00456893	1	1	0		T	36987001	T	T	36987001	3	4	84	1	0	0	0	0	1	0	0	0	10468	991	35	5	521	5	NKX2-1	14	36987001	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	982406	36987001	70362539	956	52799											
CTAGE5	4253	broad.mit.edu	37	chr14	39790151	39790151	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcattccccatatggtccCtcaccattgggttggccttc	6	12	9	14	0	1	0	1	0	0	0	4	1	3	0	5	3	1	2	5	3	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:39790151C>A	uc001wvg.3	+	19	1899	c.1563C>A	c.(1561-1563)CCC>CCA	p.P521P	CTAGE5_uc010tqe.1_Silent_p.P483P|CTAGE5_uc001wuz.3_Silent_p.P509P|CTAGE5_uc001wuy.3_Silent_p.P441P|CTAGE5_uc001wvb.3_Intron|CTAGE5_uc001wvc.3_Intron|CTAGE5_uc001wva.3_Silent_p.P492P|CTAGE5_uc001wvh.3_Intron|CTAGE5_uc001wvf.3_Silent_p.P446P|CTAGE5_uc001wvi.3_Silent_p.P526P|CTAGE5_uc010amz.2_Silent_p.P137P|CTAGE5_uc001wvj.3_Silent_p.P492P	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	521	Pro-rich.						enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		CATATGGTCCCTCACCATTGG	0.428													5	102					2.7689e-08	2.97008e-08	1	1	0		A	39790151	A	A	39790151	2	1	84	1	0	0	0	0	0	0	0	1	3997	668	24	5		5	CTAGE5	14	39790151	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2803150	39790151	67559389	957	52800											
LRFN5	145581	broad.mit.edu	37	chr14	42356100	42356100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatacaataagttttattaCacctcatgctttcgctgacc	12	14	5	10	1	1	1	1	1	0	0	2	2	1	1	2	0	3	3	2	0	6	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:42356100C>T	uc001wvm.2	+	3	1470	c.272C>T	c.(271-273)ACA>ATA	p.T91I	LRFN5_uc010ana.2_Missense_Mutation_p.T91I	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	91	Extracellular (Potential).|LRR 2.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AGTTTTATTACACCTCATGCT	0.353										HNSCC(30;0.082)			18	35					0	0	1	0	0		T	42356100	T	T	42356100	3	4	84	1	0	0	0	0	1	0	0	0	8959	478	17	4	274	4	LRFN5	14	42356100	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2565949	42356100	64993440	958	52801											
FAM179B	23116	broad.mit.edu	37	chr14	45537805	45537805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagaatccaggcatctatgCggctgctacaaatgttgttc	11	11	9	10	1	1	1	0	0	1	1	3	1	2	1	1	2	3	5	1	2	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:45537805C>T	uc001wvv.2	+	17	4978	c.4769C>T	c.(4768-4770)GCG>GTG	p.A1590V	FAM179B_uc001wvw.2_Missense_Mutation_p.A1643V|FAM179B_uc010anc.2_RNA	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	1590	HEAT 6.						binding			skin(2)|upper_aerodigestive_tract(1)	3						GGCATCTATGCGGCTGCTACA	0.373													14	61					0	0	1	0	0		T	45537805	T	T	45537805	3	4	84	1	0	0	0	0	1	0	0	0	5517	768	27	1	4835	1	FAM179B	14	45537805	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3181705	45537805	61811735	959	52802											
C14orf106	55320	broad.mit.edu	37	chr14	45711564	45711564	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttcatcagcagaatcaacGctttctaaaacaaacgtgtc	14	11	6	10	2	4	1	3	0	1	1	5	1	4	1	0	0	4	3	0	0	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:45711564G>A	uc001wwf.2	-	4	1275	c.816C>T	c.(814-816)AGC>AGT	p.S272S	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	272					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						CAGAATCAACGCTTTCTAAAA	0.343													14	65					0	0	1	0	0		A	45711564	A	A	45711564	2	1	84	1	0	0	0	0	0	0	0	1	1741	1078	38	1		1	C14orf106	14	45711564	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	173759	45711564	61637976	960	52803											
MDGA2	161357	broad.mit.edu	37	chr14	47530528	47530528	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagatgctacacatgtgtaCgtcccaaaatccgtgaattt	13	11	8	9	2	0	2	0	1	0	1	2	3	2	2	2	0	3	2	2	0	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:47530528C>T	uc001wwj.3	-	7	1438	c.1242G>A	c.(1240-1242)ACG>ACA	p.T414T	MDGA2_uc001wwi.3_Silent_p.T185T|MDGA2_uc010ani.2_5'UTR	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	414	Ig-like 4.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CACATGTGTACGTCCCAAAAT	0.408													35	109					0	0	1	0	0		T	47530528	T	T	47530528	2	4	84	1	0	0	0	0	0	0	0	1	9425	523	19	1		1	MDGA2	14	47530528	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1818964	47530528	59819012	961	52804											
SOS2	6655	broad.mit.edu	37	chr14	50667726	50667726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagaggatttcttcgttttCgtttttctatagcagattgt	9	19	8	5	2	2	2	0	0	2	2	4	3	2	3	0	1	1	3	0	1	3	9			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:50667726C>T	uc001wxs.3	-	3	388	c.290G>A	c.(289-291)CGA>CAA	p.R97Q	SOS2_uc010tql.1_Missense_Mutation_p.R97Q	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	97					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TCTTCGTTTTCGTTTTTCTAT	0.403													34	93					0	0	1	0	0		T	50667726	T	T	50667726	3	4	84	1	0	0	0	0	1	0	0	0	14962	884	31	1	3792	1	SOS2	14	50667726	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3137198	50667726	56681814	962	52805											
TXNDC16	57544	broad.mit.edu	37	chr14	53003450	53003450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttacaagagaacatgggCgacaatggcattcacatcaa	16	8	8	9	1	2	1	2	0	0	1	2	3	2	1	0	2	3	1	0	2	6	3	rs147390631	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:53003450C>T	uc001wzs.2	-	6	828	c.379G>A	c.(379-381)GCC>ACC	p.A127T	TXNDC16_uc010tqu.1_Missense_Mutation_p.A127T|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	127					cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					AGAACATGGGCGACAATGGCA	0.289													6	22					0	0	1	0	0		T	53003450	T	T	53003450	3	4	84	1	0	0	0	0	1	0	0	0	16821	768	27	1	2162	1	TXNDC16	14	53003450	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2335724	53003450	54346090	963	52806											
KIAA0831	22863	broad.mit.edu	37	chr14	55848903	55848903	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctctgaagacacatctgcGgggtctctacaagtaggaag	11	9	11	10	1	3	2	0	1	3	1	5	3	3	3	0	3	2	1	0	3	5	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:55848903G>A	uc001xbx.1	-	6	690	c.654C>T	c.(652-654)CCC>CCT	p.P218P	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbw.1_Silent_p.P105P	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	218					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0						ACACATCTGCGGGGTCTCTAC	0.493													24	68					0	0	1	0	0		A	55848903	A	A	55848903	2	1	84	1	0	0	0	0	0	0	0	1	8211	1103	39	1		1	KIAA0831	14	55848903	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2845453	55848903	51500637	964	52807											
TBPL2	387332	broad.mit.edu	37	chr14	55903468	55903468	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagcccagcccaacgtccTgttcgctgggtgatggcaac	8	9	11	13	2	0	1	0	1	0	0	2	1	1	1	3	2	4	3	3	2	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:55903468T>C	uc001xby.2	-	2	419	c.419A>G	c.(418-420)CAG>CGG	p.Q140R		NM_199047	NP_950248	Q6SJ96	TBPL2_HUMAN	TATA box binding protein like 2	140					multicellular organismal development|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding				0						CCCAACGTCCTGTTCGCTGGG	0.483													21	76					0	0	1	0	0		C	55903468	C	C	55903468	3	2	84	1	0	0	0	0	1	0	0	0	15671	1580	55	3	732	3	TBPL2	14	55903468	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	54565	55903468	51446072	965	52808											
JKAMP	51528	broad.mit.edu	37	chr14	59954414	59954414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcccaagaggacagagaaCgaatgcacagaaatattgtc	17	6	10	8	1	0	3	0	0	0	3	1	6	0	4	1	1	3	1	1	1	5	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:59954414C>T	uc001xei.3	+	3	663	c.161C>T	c.(160-162)ACG>ATG	p.T54M	JKAMP_uc001xef.3_Missense_Mutation_p.T40M|JKAMP_uc001xeh.3_Missense_Mutation_p.T34M|JKAMP_uc001xeg.3_Missense_Mutation_p.T48M|JKAMP_uc010try.1_Translation_Start_Site|JKAMP_uc001xej.3_Translation_Start_Site	NM_001098625	NP_001092095	Q9P055	JKAMP_HUMAN	JNK1-associated membrane protein isoform 2	55	Lumenal (Potential).				ER-associated protein catabolic process|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ubiquitin protein ligase binding			breast(1)	1						GGACAGAGAACGAATGCACAG	0.358													8	114					0	0	1	0	0		T	59954414	T	T	59954414	3	4	84	1	0	0	0	0	1	0	0	0	7965	536	19	1	129	1	JKAMP	14	59954414	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4050946	59954414	47395126	966	52809											
TMEM30B	161291	broad.mit.edu	37	chr14	61747063	61747063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtagttgccctggcggatgCgcgcgtacagtttgcggaac	7	9	15	10	5	0	0	0	0	0	0	0	2	0	2	1	3	5	4	1	3	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:61747063C>T	uc001xfl.2	-	1	1468	c.803G>A	c.(802-804)CGC>CAC	p.R268H	PRKCH_uc010tsa.1_Intron|TMEM30B_uc010apr.1_RNA	NM_001017970	NP_001017970	Q3MIR4	CC50B_HUMAN	transmembrane protein 30B	268						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(108;0.107)|BRCA - Breast invasive adenocarcinoma(234;0.181)		CTGGCGGATGCGCGCGTACAG	0.672													25	43					0	0	1	0	0		T	61747063	T	T	61747063	3	4	84	1	0	0	0	0	1	0	0	0	16179	768	27	1	256	1	TMEM30B	14	61747063	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1792649	61747063	45602477	967	52810											
PLEKHG3	26030	broad.mit.edu	37	chr14	65197879	65197879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcatgagcacgcggtcCggctccaggtgctctggggc	5	6	18	12	3	1	1	0	1	1	0	3	2	3	2	2	7	2	4	2	7	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:65197879C>T	uc001xho.1	+	7	1110	c.841C>T	c.(841-843)CGG>TGG	p.R281W	PLEKHG3_uc001xhn.1_Missense_Mutation_p.R225W|PLEKHG3_uc001xhp.2_Missense_Mutation_p.R281W|PLEKHG3_uc010aqh.1_5'UTR	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	281					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GCACGCGGTCCGGCTCCAGGT	0.637													17	50					0	0	1	0	0		T	65197879	T	T	65197879	3	4	84	1	0	0	0	0	1	0	0	0	12089	643	23	1	687	1	PLEKHG3	14	65197879	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3450816	65197879	42151661	968	52811											
SPTB	6710	broad.mit.edu	37	chr14	65237609	65237609	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacactcccctcacctgggcCtctcctgggtctcgatctgc	4	10	9	18	1	4	0	1	0	3	0	7	2	5	0	5	2	1	0	5	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:65237609C>A	uc001xht.2	-	26	5846	c.5792G>T	c.(5791-5793)AGG>ATG	p.R1931M	SPTB_uc001xhr.2_Missense_Mutation_p.R1931M|SPTB_uc001xhs.2_Missense_Mutation_p.R1931M|SPTB_uc001xhu.2_Missense_Mutation_p.R1931M|SPTB_uc010aqi.2_Missense_Mutation_p.R592M	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1931	Spectrin 16.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TCACCTGGGCCTCTCCTGGGT	0.632													29	90					6.00712e-18	6.71226e-18	1	1	0		A	65237609	A	A	65237609	3	1	84	1	0	0	0	0	1	0	0	0	15143	681	24	5	1303	5	SPTB	14	65237609	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	39730	65237609	42111931	969	52812											
ZFYVE26	23503	broad.mit.edu	37	chr14	68244276	68244276	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcacggtgtatccttacCttggatcccacatacagcgc	9	12	7	13	2	1	0	1	0	0	0	3	1	3	1	3	2	3	1	3	2	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:68244276C>A	uc001xka.2	-	25	5113	c.4974G>T	c.(4972-4974)AAG>AAT	p.K1658N	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.K1658N	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1658					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		GTATCCTTACCTTGGATCCCA	0.537													34	65					4.65686e-17	5.19018e-17	1	1	0		A	68244276	A	A	68244276	3	1	84	1	0	0	0	0	1	0	0	0	17693	695	24	5	2717	5	ZFYVE26	14	68244276	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3006667	68244276	39105264	970	52813											
ACTN1	87	broad.mit.edu	37	chr14	69341603	69341603	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactctcgccgtacagcgcCgtggagaaggacatgtagtc	9	8	12	12	4	2	1	1	0	1	1	4	3	2	2	2	2	2	2	2	2	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:69341603C>T	uc001xkl.2	-	21	2962	c.2652G>A	c.(2650-2652)ACG>ACA	p.T884T	ACTN1_uc001xkk.2_Silent_p.T480T|ACTN1_uc010ttb.1_Silent_p.T814T|ACTN1_uc001xkm.2_Silent_p.T906T|ACTN1_uc001xkn.2_Silent_p.T879T	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	884					focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		CGTACAGCGCCGTGGAGAAGG	0.687													23	45					0	0	1	0	0		T	69341603	T	T	69341603	2	4	84	1	0	0	0	0	0	0	0	1	204	639	23	1		1	ACTN1	14	69341603	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1097327	69341603	38007937	971	52814											
ACTN1	87	broad.mit.edu	37	chr14	69341673	69341673	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagggggccatccgcgcgAtgcagtactcagcctggtcg	6	8	15	12	4	1	0	1	0	0	0	3	1	2	0	3	3	3	3	3	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:69341673A>G	uc001xkl.2	-	21	2892	c.2582T>C	c.(2581-2583)ATC>ACC	p.I861T	ACTN1_uc001xkk.2_Missense_Mutation_p.I457T|ACTN1_uc010ttb.1_Missense_Mutation_p.I791T|ACTN1_uc001xkm.2_Missense_Mutation_p.I883T|ACTN1_uc001xkn.2_Missense_Mutation_p.I856T	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	861					focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		CATCCGCGCGATGCAGTACTC	0.632													23	48					0	0	1	0	0		G	69341673	G	G	69341673	3	3	84	1	0	0	0	0	1	0	0	0	204	333	12	3	100	3	ACTN1	14	69341673	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	70	69341673	38007867	972	52815											
ACTN1	87	broad.mit.edu	37	chr14	69392358	69392358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatctgtgtccccgccttcCggaggtgggagttacaccat	6	10	12	13	3	1	0	0	0	1	0	3	3	3	2	5	3	1	1	5	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:69392358C>T	uc001xkl.2	-	2	447	c.137G>A	c.(136-138)CGG>CAG	p.R46Q	ACTN1_uc010ttb.1_5'UTR|ACTN1_uc001xkm.2_Missense_Mutation_p.R46Q|ACTN1_uc001xkn.2_Missense_Mutation_p.R46Q|ACTN1_uc001xko.1_5'UTR|ACTN1_uc010ttd.1_Missense_Mutation_p.R25Q	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	46	CH 1.|Actin-binding.				focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		CCCCGCCTTCCGGAGGTGGGA	0.577													25	69					0	0	1	0	0		T	69392358	T	T	69392358	3	4	84	1	0	0	0	0	1	0	0	0	204	652	23	1	2691	1	ACTN1	14	69392358	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	50685	69392358	37957182	973	52816											
ADAM21	8747	broad.mit.edu	37	chr14	70924556	70924556	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgactgttactatcatggtTacgtggaggcagcccctgag	9	11	12	9	1	1	2	1	2	0	0	1	3	1	3	2	3	3	3	2	3	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:70924556T>C	uc001xmd.2	+	1	340	c.340T>C	c.(340-342)TAC>CAC	p.Y114H		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	114					proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		CTATCATGGTTACGTGGAGGC	0.478													31	154					0	0	1	0	0		C	70924556	C	C	70924556	3	2	84	1	0	0	0	0	1	0	0	0	243	1754	61	3	342	3	ADAM21	14	70924556	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1532198	70924556	36424984	974	52817											
PCNX	22990	broad.mit.edu	37	chr14	71445168	71445168	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcatgtttgaatgactcaaAcaggttaatggcacctgaaa	15	10	9	7	0	1	3	1	3	0	0	1	3	1	3	1	2	2	4	1	2	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:71445168A>G	uc001xmo.2	+	6	2560	c.2114A>G	c.(2113-2115)AAC>AGC	p.N705S	PCNX_uc001xmn.3_Missense_Mutation_p.N705S|PCNX_uc010are.1_Missense_Mutation_p.N705S	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	705						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		AATGACTCAAACAGGTTAATG	0.463													35	80					0	0	1	0	0		G	71445168	G	G	71445168	3	3	84	1	0	0	0	0	1	0	0	0	11610	43	2	3	2136	3	PCNX	14	71445168	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	520612	71445168	35904372	975	52818											
PCNX	22990	broad.mit.edu	37	chr14	71570248	71570248	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgataaactcatcttgtgAtcaacctattggctacccaa	13	12	5	11	0	3	2	2	2	1	0	3	2	3	2	2	1	3	1	2	1	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:71570248A>G	uc001xmo.2	+	32	6403	c.5957A>G	c.(5956-5958)GAT>GGT	p.D1986G	PCNX_uc010are.1_Missense_Mutation_p.D1875G|PCNX_uc010arf.1_Missense_Mutation_p.D774G|PCNX_uc001xmp.2_Missense_Mutation_p.D70G	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1986						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		TCATCTTGTGATCAACCTATT	0.453													8	93					0	0	1	0	0		G	71570248	G	G	71570248	3	3	84	1	0	0	0	0	1	0	0	0	11610	333	12	3	6083	3	PCNX	14	71570248	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	125080	71570248	35779292	976	52819											
PAPLN	89932	broad.mit.edu	37	chr14	73718750	73718750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagccaggagcccaaccccGgtgtgcactatgagtaccac	10	6	10	15	1	1	1	1	1	0	0	1	2	1	2	5	2	5	2	5	2	3	2	rs141937638		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:73718750G>A	uc010ttx.1	+	9	1031	c.868G>A	c.(868-870)GGT>AGT	p.G290S	PAPLN_uc001xnw.3_Missense_Mutation_p.G263S|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.G290S	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	290						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GCCCAACCCCGGTGTGCACTA	0.682													15	31					0	0	1	0	0		A	73718750	A	A	73718750	3	1	84	1	0	0	0	0	1	0	0	0	11447	1116	39	1	817	1	PAPLN	14	73718750	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2148502	73718750	33630790	977	52820											
ACOT2	10965	broad.mit.edu	37	chr14	74036200	74036200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccggtgcgaatcgccgtgCgcggcctagccccggagcag	7	4	15	15	7	0	0	0	0	0	0	1	2	0	1	5	3	5	1	5	3	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:74036200C>T	uc001xon.3	+	1	429	c.256C>T	c.(256-258)CGC>TGC	p.R86C	ACOT1_uc010tuc.1_Intron|ACOT2_uc001xom.2_Intron	NM_006821	NP_006812	P49753	ACOT2_HUMAN	acyl-CoA thioesterase 2	86					acyl-CoA metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process	mitochondrion	carboxylesterase activity|palmitoyl-CoA hydrolase activity|protein binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0033)|OV - Ovarian serous cystadenocarcinoma(108;0.0639)		AATCGCCGTGCGCGGCCTAGC	0.706													16	49					0	0	1	0	0		T	74036200	T	T	74036200	3	4	84	1	0	0	0	0	1	0	0	0	152	768	27	1	258	1	ACOT2	14	74036200	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	317450	74036200	33313340	978	52821											
ALDH6A1	4329	broad.mit.edu	37	chr14	74538180	74538180	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcatgagggatgtcacacTacaggcatgctcaaccacct	12	8	8	13	0	3	1	3	1	0	0	3	2	3	2	2	2	3	2	2	2	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:74538180T>C	uc001xpo.2	-	6	547	c.448A>G	c.(448-450)AGT>GGT	p.S150G	C14orf45_uc001xpm.1_Intron|ALDH6A1_uc010asa.2_5'UTR|ALDH6A1_uc010tuq.1_Missense_Mutation_p.S137G	NM_005589	NP_005580	Q02252	MMSA_HUMAN	aldehyde dehydrogenase 6A1 precursor	150						mitochondrial matrix|nucleus	fatty-acyl-CoA binding|malonate-semialdehyde dehydrogenase (acetylating) activity|methylmalonate-semialdehyde dehydrogenase (acylating) activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00354)	NADH(DB00157)	GATGTCACACTACAGGCATGC	0.522													28	58					0	0	1	0	0		C	74538180	C	C	74538180	3	2	84	1	0	0	0	0	1	0	0	0	503	1522	53	3	1187	3	ALDH6A1	14	74538180	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	501980	74538180	32811360	979	52822											
PROX2	283571	broad.mit.edu	37	chr14	75329594	75329594	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtcattcttggagggataGggtacctaggagaatctaga	11	10	15	5	0	3	2	1	0	2	2	3	5	3	4	1	5	1	1	1	5	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:75329594G>T	uc001xqr.1	-	1	944	c.944C>A	c.(943-945)CCT>CAT	p.P315H	PROX2_uc001xqq.1_Intron	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2	315					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		TGGAGGGATAGGGTACCTAGG	0.532													32	105					1.13719e-10	1.23426e-10	1	1	0		T	75329594	T	T	75329594	3	4	84	1	0	0	0	0	1	0	0	0	12583	1000	35	5	850	5	PROX2	14	75329594	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	791414	75329594	32019946	980	52823											
RPS6KL1	83694	broad.mit.edu	37	chr14	75388058	75388058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagtcctcactaacatcgcGctccagggccagccggatct	9	8	9	15	3	2	0	1	0	1	0	5	1	4	1	4	2	2	1	4	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:75388058G>A	uc010tux.1	-	2	715	c.187C>T	c.(187-189)CGC>TGC	p.R63C	RPS6KL1_uc001xqw.2_Missense_Mutation_p.R63C|RPS6KL1_uc010asd.1_RNA|RPS6KL1_uc001xqy.1_Missense_Mutation_p.R63C	NM_031464	NP_113652	Q9Y6S9	RPKL1_HUMAN	ribosomal protein S6 kinase-like 1	63						ribosome	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00658)		CTAACATCGCGCTCCAGGGCC	0.612													35	94					0	0	1	0	0		A	75388058	A	A	75388058	3	1	84	1	0	0	0	0	1	0	0	0	13684	1087	38	1	1478	1	RPS6KL1	14	75388058	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	58464	75388058	31961482	981	52824											
ANGEL1	23357	broad.mit.edu	37	chr14	77269819	77269819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtctcggccatacttgcGtctctctgtaaaccaggaaa	11	10	9	11	2	3	0	0	0	3	0	5	2	3	1	2	2	3	1	2	2	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:77269819G>A	uc001xsv.2	-	7	1626	c.1513C>T	c.(1513-1515)CGC>TGC	p.R505C	ANGEL1_uc010tvf.1_Intron	NM_015305	NP_056120	Q9UNK9	ANGE1_HUMAN	angel homolog 1	505										ovary(2)|central_nervous_system(1)|skin(1)	4			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0285)		CCATACTTGCGTCTCTCTGTA	0.478													12	73					0	0	1	0	0		A	77269819	A	A	77269819	3	1	84	1	0	0	0	0	1	0	0	0	608	1145	40	1	515	1	ANGEL1	14	77269819	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1881761	77269819	30079721	982	52825											
C14orf4	64207	broad.mit.edu	37	chr14	77492633	77492633	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcatgggacagctggcGtccaggtagggctggggcag	7	5	20	9	1	0	0	0	0	0	0	1	1	1	1	1	7	2	6	1	7	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:77492633G>A	uc001xsy.2	-	1	2402	c.1503C>T	c.(1501-1503)GAC>GAT	p.D501D		NM_024496	NP_078772	Q9H1B7	I2BPL_HUMAN	chromosome 14 open reading frame 4	501						nucleus					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.00347)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)		GACAGCTGGCGTCCAGGTAGG	0.483													5	6					0	0	1	0	0		A	77492633	A	A	77492633	2	1	84	1	0	0	0	0	0	0	0	1	1776	1136	40	1		1	C14orf4	14	77492633	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	222814	77492633	29856907	983	52826											
POMT2	29954	broad.mit.edu	37	chr14	77767578	77767578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggctgagccagaaccaccagGgggcagagaagggcctgaaa	13	2	16	10	0	0	4	0	2	0	2	0	5	0	4	4	4	2	2	4	4	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:77767578G>A	uc001xti.2	-	6	872	c.671C>T	c.(670-672)CCC>CTC	p.P224L	POMT2_uc001xth.1_5'Flank|POMT2_uc010asr.2_Missense_Mutation_p.P113L	NM_013382	NP_037514	Q9UKY4	POMT2_HUMAN	protein-O-mannosyltransferase 2	224					protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)		GAACCACCAGGGGGCAGAGAA	0.542											OREG0022837	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	67					0	0	1	0	0		A	77767578	A	A	77767578	3	1	84	1	0	0	0	0	1	0	0	0	12265	1232	43	4	1645	4	POMT2	14	77767578	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	274945	77767578	29581962	984	52827											
C14orf174	161394	broad.mit.edu	37	chr14	77857510	77857510	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttatctgaatttgtcaaaGcagcaggattacaggattat	13	14	8	6	0	2	1	1	1	1	0	2	3	2	3	0	2	3	2	0	2	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:77857510G>T	uc001xtq.1	+	3	1948	c.1948G>T	c.(1948-1950)GCA>TCA	p.A650S		NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	650											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		ATTTGTCAAAGCAGCAGGATT	0.403													19	38					5.35267e-07	5.65112e-07	1	1	0		T	77857510	T	T	77857510	3	4	84	1	0	0	0	0	1	0	0	0	1762	971	34	5	1958	5	C14orf174	14	77857510	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	89932	77857510	29492030	985	52828											
C14orf148	122945	broad.mit.edu	37	chr14	77889208	77889208	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatactcaaactgcagggActcaaggtcctggagcatgt	11	8	10	12	0	2	0	2	0	0	0	3	2	3	2	2	3	4	2	2	3	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:77889208A>G	uc001xtr.2	-	1	172	c.25T>C	c.(25-27)TCC>CCC	p.S9P	C14orf148_uc010tvi.1_Missense_Mutation_p.S9P	NM_001113475	NP_001106946	Q6NXP6	CN148_HUMAN	hypothetical protein LOC122945 isoform 1	9					proline biosynthetic process		binding|pyrroline-5-carboxylate reductase activity				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0277)		AACTGCAGGGACTCAAGGTCC	0.517													43	149					0	0	1	0	0		G	77889208	G	G	77889208	3	3	84	1	0	0	0	0	1	0	0	0	1754	275	10	3	1147	3	C14orf148	14	77889208	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	31698	77889208	29460332	986	52829											
NRXN3	9369	broad.mit.edu	37	chr14	78709651	78709651	+	RNA	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctggatgatggcggcgTctgcgacttcctatgcctct	5	12	11	13	3	2	1	0	1	2	0	3	3	3	2	3	3	3	0	3	3	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:78709651T>G	uc001xum.1	+	2		c.1008T>G						Q9Y4C0	NRX3A_HUMAN	Homo sapiens mRNA for KIAA0743 protein, partial cds.						axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GATGGCGGCGTCTGCGACTTC	0.602													4	8					0	0	1	0	0		G	78709651	G	G	78709651	1	3	84	0	1	0	0	0	0	0	0	0	10686	1682	58	5		5	NRXN3	14	78709651	RNA	SNP	T	TCGA-BR-8591-01A-11D-2394-08	820443	78709651	28639889	987	52830											
NRXN3	9369	broad.mit.edu	37	chr14	79175609	79175609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgtctcgcctggcccGgattgcggacaccaagatga	8	7	14	12	3	1	2	0	1	1	1	2	5	1	5	3	4	2	1	3	4	1	1	rs148738050		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:79175609G>A	uc001xun.2	+	4	643	c.152G>A	c.(151-153)CGG>CAG	p.R51Q	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.R185Q	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	424	Laminin G-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CGCCTGGCCCGGATTGCGGAC	0.458													20	67					0	0	1	0	0		A	79175609	A	A	79175609	3	1	84	1	0	0	0	0	1	0	0	0	10686	1116	39	1	158	1	NRXN3	14	79175609	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	465958	79175609	28173931	988	52831											
NRXN3	9369	broad.mit.edu	37	chr14	79433724	79433724	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggttatcaatggtgccaAaaatctggatttgaaaggta	14	12	10	5	0	3	1	2	1	1	0	3	2	3	2	1	4	1	2	1	4	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:79433724A>C	uc001xun.2	+	10	2323	c.1832A>C	c.(1831-1833)AAA>ACA	p.K611T	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.K736T	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	984	Extracellular (Potential).|Laminin G-like 5.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		AATGGTGCCAAAAATCTGGAT	0.393													14	25					0	0	1	0	0		C	79433724	C	C	79433724	3	2	84	1	0	0	0	0	1	0	0	0	10686	14	1	5	1862	5	NRXN3	14	79433724	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	258115	79433724	27915816	989	52832											
FLRT2	23768	broad.mit.edu	37	chr14	86088243	86088243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaccatttcacgggctgctCttgcccagctcttgaagctt	7	12	9	13	1	3	2	1	1	2	1	3	2	3	2	2	1	4	4	2	1	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:86088243C>T	uc001xvr.2	+	2	1152	c.385C>T	c.(385-387)CTT>TTT	p.L129F	FLRT2_uc010atd.2_Missense_Mutation_p.L129F	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	129	LRR 3.|Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		ACGGGCTGCTCTTGCCCAGCT	0.512													5	78					0	0	1	0	0		T	86088243	T	T	86088243	3	4	84	1	0	0	0	0	1	0	0	0	5953	913	32	4	387	4	FLRT2	14	86088243	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	6654519	86088243	21261297	990	52833											
FLRT2	23768	broad.mit.edu	37	chr14	86088495	86088495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagcgtcttattgtggacGggaacctcctgaccaacaag	10	9	12	10	2	1	1	0	1	1	0	2	4	2	4	3	3	3	0	3	3	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:86088495G>A	uc001xvr.2	+	2	1404	c.637G>A	c.(637-639)GGG>AGG	p.G213R	FLRT2_uc010atd.2_Missense_Mutation_p.G213R	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	213	Extracellular (Potential).|LRR 7.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		TATTGTGGACGGGAACCTCCT	0.507													28	98					0	0	1	0	0		A	86088495	A	A	86088495	3	1	84	1	0	0	0	0	1	0	0	0	5953	1116	39	1	639	1	FLRT2	14	86088495	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	252	86088495	21261045	991	52834											
TTC8	123016	broad.mit.edu	37	chr14	89337945	89337945	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctttttaacaatctggggCtgtgttgcttctatgcccag	7	15	10	9	0	2	0	0	0	2	0	2	0	2	0	1	2	4	4	1	2	3	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:89337945C>T	uc010ath.2	+	12	1284	c.1150C>T	c.(1150-1152)CTG>TTG	p.L384L	TTC8_uc001xxl.2_Silent_p.L129L|TTC8_uc010ati.2_Silent_p.L170L|TTC8_uc001xxm.2_Silent_p.L328L|TTC8_uc010atj.2_Silent_p.L103L|TTC8_uc001xxi.2_Silent_p.L368L|TTC8_uc001xxj.2_Silent_p.L358L|TTC8_uc001xxk.2_Silent_p.L328L	NM_198309	NP_938051	Q8TAM2	TTC8_HUMAN	tetratricopeptide repeat domain 8 isoform B	394	TPR 6.				cilium assembly|establishment of anatomical structure orientation|sensory processing	BBSome|centrosome|cilium membrane|microtubule basal body	protein binding				0						CAATCTGGGGCTGTGTTGCTT	0.438									Bardet-Biedl_syndrome				15	44					0	0	1	0	0		T	89337945	T	T	89337945	2	4	84	1	0	0	0	0	0	0	0	1	16740	796	28	2		2	TTC8	14	89337945	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3249450	89337945	18011595	992	52835											
RPS6KA5	9252	broad.mit.edu	37	chr14	91526723	91526723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagctgctctcctccgtcgCcgccgtccgcgctggtcccc	1	8	12	20	6	1	0	0	0	1	0	6	1	4	1	7	2	2	3	7	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:91526723C>T	uc001xys.2	-	1	271	c.56G>A	c.(55-57)GGC>GAC	p.G19D	RPS6KA5_uc010twi.1_5'Flank|RPS6KA5_uc001xyt.2_Missense_Mutation_p.G19D|RPS6KA5_uc010att.1_RNA	NM_004755	NP_004746	O75582	KS6A5_HUMAN	ribosomal protein S6 kinase, polypeptide 5	19					axon guidance|epidermal growth factor receptor signaling pathway|histone phosphorylation|innate immune response|interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|nucleoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1		all_cancers(154;0.0148)|Melanoma(154;0.099)|all_epithelial(191;0.146)		Epithelial(152;0.182)|BRCA - Breast invasive adenocarcinoma(234;0.201)		TCCTCCGTCGCCGCCGTCCGC	0.592													9	13					0	0	1	0	0		T	91526723	T	T	91526723	3	4	84	1	0	0	0	0	1	0	0	0	13679	739	26	2	2426	2	RPS6KA5	14	91526723	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2188778	91526723	15822817	993	52836											
CCDC88C	440193	broad.mit.edu	37	chr14	91805636	91805636	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacagctcctgcctgacGcgccgcagcctggccttggt	5	8	11	17	3	1	1	1	1	0	0	2	1	2	1	5	2	3	2	5	2	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:91805636G>T	uc010aty.2	-	8	894	c.795C>A	c.(793-795)CGC>CGA	p.R265R	CCDC88C_uc010twk.1_Silent_p.R229R	NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	265	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				CCTGCCTGACGCGCCGCAGCC	0.627													3	26					0.00909568	0.00921738	1	1	0		T	91805636	T	T	91805636	2	4	84	1	0	0	0	0	0	0	0	1	2868	1074	38	5		5	CCDC88C	14	91805636	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	278913	91805636	15543904	994	52837											
CATSPERB	79820	broad.mit.edu	37	chr14	92140520	92140520	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaatattcaatatcatacCtcacttagggttctgtttct	12	17	4	8	0	5	0	3	0	2	0	5	0	5	0	1	1	1	2	1	1	7	8			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:92140520C>A	uc001xzs.1	-	12	1118	c.978G>T	c.(976-978)GAG>GAT	p.E326D		NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	326					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				AATATCATACCTCACTTAGGG	0.313													7	38					0.00198382	0.00202687	1	1	0		A	92140520	A	A	92140520	3	1	84	1	0	0	0	0	1	0	0	0	2694	695	24	5	2436	5	CATSPERB	14	92140520	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	334884	92140520	15209020	995	52838											
SLC24A4	123041	broad.mit.edu	37	chr14	92922911	92922911	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccaccgccagagccagAgccggtggaggctgacttcc	8	4	13	16	2	0	3	0	1	0	2	1	4	1	4	7	3	2	1	7	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:92922911A>T	uc001yak.2	+	12	1187	c.1163A>T	c.(1162-1164)GAG>GTG	p.E388V	SLC24A4_uc001yai.2_Missense_Mutation_p.E341V|SLC24A4_uc010twm.1_Missense_Mutation_p.E386V|SLC24A4_uc001yaj.2_Missense_Mutation_p.E369V|SLC24A4_uc010auj.2_Missense_Mutation_p.E277V|SLC24A4_uc010twn.1_Missense_Mutation_p.E161V|SLC24A4_uc001yan.2_Missense_Mutation_p.E99V	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	405	Extracellular (Potential).|Poly-Pro.					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		CCAGAGCCAGAGCCGGTGGAG	0.602											OREG0022876	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	52					0	0	1	0	0		T	92922911	T	T	92922911	3	4	84	1	0	0	0	0	1	0	0	0	14493	304	11	5	1209	5	SLC24A4	14	92922911	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	782391	92922911	14426629	996	52839											
C14orf49	161176	broad.mit.edu	37	chr14	95899742	95899742	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctggcacccgagcctccAgctcctgggggaaacagcag	8	6	12	15	1	1	0	0	0	1	0	3	2	3	1	4	3	4	3	4	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:95899742A>G	uc001yei.3	-	15	2558	c.2543T>C	c.(2542-2544)CTG>CCG	p.L848P	C14orf49_uc010avi.2_Missense_Mutation_p.L843P	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	848	Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		CCGAGCCTCCAGCTCCTGGGG	0.577													29	70					0	0	1	0	0		G	95899742	G	G	95899742	3	3	84	1	0	0	0	0	1	0	0	0	1779	188	7	3	396	3	C14orf49	14	95899742	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2976831	95899742	11449798	997	52840											
BDKRB1	623	broad.mit.edu	37	chr14	96730667	96730667	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttcctcctaccactggcTgcgatcgtcttcttcaacta	6	14	7	14	2	3	0	1	0	2	0	6	1	5	0	3	2	3	2	3	2	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:96730667T>C	uc001yfh.2	+	3	856	c.648T>C	c.(646-648)GCT>GCC	p.A216A	BDKRB1_uc010avn.2_Silent_p.A216A	NM_000710	NP_000701	P46663	BKRB1_HUMAN	bradykinin receptor B1	216	Helical; Name=5; (Potential).				elevation of cytosolic calcium ion concentration	endoplasmic reticulum|integral to plasma membrane	bradykinin receptor activity			ovary(3)	3		all_cancers(154;0.0677)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.208)|Epithelial(152;0.226)		TACCACTGGCTGCGATCGTCT	0.572													23	84					0	0	1	0	0		C	96730667	C	C	96730667	2	2	84	1	0	0	0	0	0	0	0	1	1393	1567	55	3		3	BDKRB1	14	96730667	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	830925	96730667	10618873	998	52841											
AK7	122481	broad.mit.edu	37	chr14	96949517	96949517	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgcgagcaccaggaggcCgtggagatggcagagaagat	13	3	17	8	3	0	3	0	0	0	3	0	8	0	4	2	4	2	2	2	4	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:96949517C>T	uc001yfn.2	+	16	1979	c.1935C>T	c.(1933-1935)GCC>GCT	p.A645A		NM_152327	NP_689540	Q96M32	KAD7_HUMAN	adenylate kinase 7	645	Potential.|Glu-rich.				cell projection organization	cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity			ovary(1)	1		all_cancers(154;0.0482)|all_epithelial(191;0.128)|Melanoma(154;0.155)		Epithelial(152;0.134)|COAD - Colon adenocarcinoma(157;0.228)		ACCAGGAGGCCGTGGAGATGG	0.597													7	12					0	0	1	0	0		T	96949517	T	T	96949517	2	4	84	1	0	0	0	0	0	0	0	1	444	639	23	1		1	AK7	14	96949517	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	218850	96949517	10400023	999	52842											
YY1	7528	broad.mit.edu	37	chr14	100728701	100728701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagatcattggagagaactCacctcctgattattcagaat	14	11	7	9	0	3	4	3	1	0	3	4	6	4	5	2	1	1	0	2	1	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:100728701C>T	uc001ygy.1	+	2	1220	c.740C>T	c.(739-741)TCA>TTA	p.S247L		NM_003403	NP_003394	P25490	TYY1_HUMAN	YY1 transcription factor	247					cell differentiation|cellular response to UV|double-strand break repair via homologous recombination|negative regulation of transcription from RNA polymerase II promoter|response to UV-C|spermatogenesis	Ino80 complex|nuclear matrix|plasma membrane	four-way junction DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding				0		Melanoma(154;0.152)				GGAGAGAACTCACCTCCTGAT	0.388													21	56					0	0	1	0	0		T	100728701	T	T	100728701	3	4	84	1	0	0	0	0	1	0	0	0	17533	838	29	4	746	4	YY1	14	100728701	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3779184	100728701	6620839	1000	52843											
DYNC1H1	1778	broad.mit.edu	37	chr14	102506738	102506738	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacttgattgcaaaggttcaGgcagacgaggtgattgttct	10	12	13	6	1	2	3	1	2	1	1	2	5	2	3	0	3	1	4	0	3	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:102506738G>T	uc001yks.2	+	63	12020	c.11856G>T	c.(11854-11856)CAG>CAT	p.Q3952H		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3952					cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CAAAGGTTCAGGCAGACGAGG	0.522													21	46					3.51602e-12	3.84972e-12	1	1	0		T	102506738	T	T	102506738	3	4	84	1	0	0	0	0	1	0	0	0	4847	991	35	5	12106	5	DYNC1H1	14	102506738	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1778037	102506738	4842802	1001	52844											
RAGE	5891	broad.mit.edu	37	chr14	102698915	102698915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagggcctggtgggcggCgattctctcatcgggatcat	5	10	15	11	3	3	0	2	0	1	0	5	2	3	1	1	5	1	1	1	5	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:102698915C>T	uc001ylm.2	-	9	1049	c.823G>A	c.(823-825)GCC>ACC	p.A275T	RAGE_uc010txv.1_Missense_Mutation_p.A245T|RAGE_uc001yln.2_Missense_Mutation_p.A93T|RAGE_uc001ylh.2_RNA|RAGE_uc001yli.2_RNA|RAGE_uc001yll.2_RNA|RAGE_uc001ylj.2_RNA|RAGE_uc001ylk.2_RNA	NM_014226	NP_055041	Q9UQ07	MOK_HUMAN	MAPK/MAK/MRK overlapping kinase	275	Protein kinase.				signal transduction	Golgi apparatus	ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TGGTGGGCGGCGATTCTCTCA	0.552													9	133					0	0	1	0	0		T	102698915	T	T	102698915	3	4	84	1	0	0	0	0	1	0	0	0	13031	768	27	1	452	1	RAGE	14	102698915	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	192177	102698915	4650625	1002	52845											
TECPR2	9895	broad.mit.edu	37	chr14	102901155	102901155	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagtggctgcctgggacCagagctgatgaaggcagccc	10	5	15	11	0	0	3	0	2	0	1	0	5	0	4	3	3	4	3	3	3	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:102901155C>T	uc001ylw.1	+	9	2149	c.2001C>T	c.(1999-2001)ACC>ACT	p.T667T	TECPR2_uc010awl.2_Silent_p.T667T|TECPR2_uc010txx.1_Intron	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	667							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						TGCCTGGGACCAGAGCTGATG	0.602													15	55					0	0	1	0	0		T	102901155	T	T	102901155	2	4	84	1	0	0	0	0	0	0	0	1	15769	581	21	4		4	TECPR2	14	102901155	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	202240	102901155	4448385	1003	52846											
KIAA0284	283638	broad.mit.edu	37	chr14	105356064	105356064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacccttatggtttcatcGtgcagacggcagagattgcg	8	11	12	10	3	1	3	1	1	0	2	2	4	1	3	1	2	2	3	1	2	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:105356064G>A	uc010axb.2	+	13	4071	c.3847G>A	c.(3847-3849)GTG>ATG	p.V1283M	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Missense_Mutation_p.V1213M|KIAA0284_uc001yps.2_Missense_Mutation_p.V1224M|KIAA0284_uc001ypt.2_Translation_Start_Site	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	1318						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		TGGTTTCATCGTGCAGACGGC	0.527													21	60					0	0	1	0	0		A	105356064	A	A	105356064	3	1	84	1	0	0	0	0	1	0	0	0	8182	1145	40	1	3893	1	KIAA0284	14	105356064	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2454909	105356064	1993476	1004	52847											
PACS2	23241	broad.mit.edu	37	chr14	105843116	105843116	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgcaggtcctggactcGgagcaggaccctgcggagca	7	5	15	14	3	0	0	0	0	0	0	2	4	1	4	3	5	4	3	3	5	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr14:105843116G>A	uc001yqt.2	+	9	988	c.813G>A	c.(811-813)TCG>TCA	p.S271S	PACS2_uc001yqs.2_Silent_p.S196S|PACS2_uc001yqv.2_Silent_p.S271S|PACS2_uc001yqu.2_Silent_p.S271S	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	271					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		TCCTGGACTCGGAGCAGGACC	0.682													13	49					0	0	1	0	0		A	105843116	A	A	105843116	2	1	84	1	0	0	0	0	0	0	0	1	11392	1103	39	1		1	PACS2	14	105843116	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	487052	105843116	1506424	1005	52848											
NDN	4692	broad.mit.edu	37	chr15	23931878	23931878	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaccagcgcaaactccaTggtgtgcaggctggttagcc	8	10	12	11	1	0	1	0	1	0	0	1	1	1	1	3	3	4	4	3	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:23931878T>C	uc001ywk.2	-	1	573	c.487A>G	c.(487-489)ATG>GTG	p.M163V		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	163	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		GCAAACTCCATGGTGTGCAGG	0.642									Prader-Willi_syndrome				22	43					0	0	1	0	0		C	23931878	C	C	23931878	3	2	84	1	0	0	0	0	1	0	0	0	10266	1464	51	3	482	3	NDN	15	23931878	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08		23931878	78599514	1006	52849											
ATP10A	57194	broad.mit.edu	37	chr15	25940151	25940151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgatcacgaggctgggtctgCggccagaggcagtggacgtg	7	6	18	10	4	2	1	1	0	1	1	2	4	2	2	1	5	1	2	1	5	0	0	rs150976669		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:25940151C>T	uc010ayu.2	-	14	3009	c.2903G>A	c.(2902-2904)CGC>CAC	p.R968H		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	968	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GCTGGGTCTGCGGCCAGAGGC	0.602													37	87					0	0	1	0	0		T	25940151	T	T	25940151	3	4	84	1	0	0	0	0	1	0	0	0	1117	768	27	1	1628	1	ATP10A	15	25940151	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2008273	25940151	76591241	1007	52850											
HERC2	8924	broad.mit.edu	37	chr15	28361831	28361831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggaagcggaacatgctgCtgtgcacgggtgctctggcg	7	7	16	11	3	1	0	0	0	1	0	1	2	1	2	1	4	6	4	1	4	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:28361831C>T	uc001zbj.2	-	88	13695	c.13589G>A	c.(13588-13590)AGC>AAC	p.S4530N	HERC2_uc001zbi.2_Missense_Mutation_p.S219N	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4530	HECT.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GAACATGCTGCTGTGCACGGG	0.602													29	98					0	0	1	0	0		T	28361831	T	T	28361831	3	4	84	1	0	0	0	0	1	0	0	0	7074	797	28	2	939	2	HERC2	15	28361831	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2421680	28361831	74169561	1008	52851											
TRPM1	4308	broad.mit.edu	37	chr15	31323186	31323186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actatgaattctactcttacGgtctatctggtctgcaaaca	11	14	6	10	1	5	1	0	1	5	0	5	1	5	1	0	2	4	1	0	2	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:31323186G>A	uc001zfm.2	-	22	3189	c.3061C>T	c.(3061-3063)CTC>TTC	p.L1021F	TRPM1_uc010azy.2_Missense_Mutation_p.L928F|TRPM1_uc001zfl.2_Intron	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1021	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		CTACTCTTACGGTCTATCTGG	0.413													29	79					0	0	1	0	0		A	31323186	A	A	31323186	3	1	84	1	0	0	0	0	1	0	0	0	16611	1130	39	1	1774	1	TRPM1	15	31323186	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2961355	31323186	71208206	1009	52852											
TRPM1	4308	broad.mit.edu	37	chr15	31355374	31355374	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggatgtccgaggcacgtccGctgccatcacaaatcaccac	11	6	9	15	3	2	0	2	0	0	0	4	2	4	1	4	2	1	2	4	2	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:31355374G>A	uc001zfm.2	-	7	974	c.846C>T	c.(844-846)AGC>AGT	p.S282S	TRPM1_uc010azy.2_Silent_p.S195S|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	282	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		AGGCACGTCCGCTGCCATCAC	0.582													17	65					0	0	1	0	0		A	31355374	A	A	31355374	2	1	84	1	0	0	0	0	0	0	0	1	16611	1078	38	1		1	TRPM1	15	31355374	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	32188	31355374	71176018	1010	52853											
OTUD7A	161725	broad.mit.edu	37	chr15	31776544	31776544	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgacggcgacgtgctggcCgacgcaccagactcctcctt	6	7	11	17	6	0	1	0	0	0	1	3	4	3	1	5	2	1	2	5	2	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:31776544C>T	uc001zfq.2	-	11	1827	c.1734G>A	c.(1732-1734)TCG>TCA	p.S578S	OTUD7A_uc001zfr.2_Silent_p.S585S	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	578						cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		ACGTGCTGGCCGACGCACCAG	0.711													13	25					0	0	1	0	0		T	31776544	T	T	31776544	2	4	84	1	0	0	0	0	0	0	0	1	11337	639	23	1		1	OTUD7A	15	31776544	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	421170	31776544	70754848	1011	52854											
OTUD7A	161725	broad.mit.edu	37	chr15	31822996	31822996	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcgtgcacacagtggacCaccagttcaggcgacctgga	10	6	12	13	2	1	0	1	0	0	0	2	3	1	2	3	3	2	3	3	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:31822996C>T	uc001zfq.2	-	4	659	c.566G>A	c.(565-567)TGG>TAG	p.W189*	OTUD7A_uc001zfr.2_Nonsense_Mutation_p.W189*	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	189	Catalytic (By similarity).|TRAF-binding (By similarity).					cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		CACAGTGGACCACCAGTTCAG	0.532													20	53					0	0	1	0	0		T	31822996	T	T	31822996	4	4	84	1	0	0	0	0	0	1	0	0	11337	595	21	4	2246	4	OTUD7A	15	31822996	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	46452	31822996	70708396	1012	52855											
CHRNA7	1139	broad.mit.edu	37	chr15	32460210	32460210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccggggaggacaaggtgCgcccggcctgccagcacaag	8	2	17	14	3	0	0	0	0	0	0	0	2	0	2	4	6	3	1	4	6	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:32460210C>T	uc001zft.2	+	10	1132	c.1060C>T	c.(1060-1062)CGC>TGC	p.R354C	uc001zfv.1_Intron|CHRNA7_uc010baf.2_Missense_Mutation_p.R173C|CHRNA7_uc010bak.2_Missense_Mutation_p.R269C	NM_000746	NP_000737	P36544	ACHA7_HUMAN	cholinergic receptor, nicotinic, alpha 7	354	Cytoplasmic (Potential).				activation of MAPK activity|calcium ion transport|cellular calcium ion homeostasis|memory|negative regulation of tumor necrosis factor production|positive regulation of angiogenesis|positive regulation of cell proliferation|response to hypoxia|response to nicotine	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|beta-amyloid binding|chloride channel regulator activity|nicotinic acetylcholine-activated cation-selective channel activity|protein homodimerization activity|toxin binding			ovary(1)	1		all_lung(180;6.35e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)	Nicotine(DB00184)|Varenicline(DB01273)	GGACAAGGTGCGCCCGGCCTG	0.652													11	70					0	0	1	0	0		T	32460210	T	T	32460210	3	4	84	1	0	0	0	0	1	0	0	0	3391	768	27	1	1098	1	CHRNA7	15	32460210	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	637214	32460210	70071182	1013	52856											
FMN1	342184	broad.mit.edu	37	chr15	33192195	33192195	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacccgacttttgacatcCttgagtttgggcagaatttc	10	14	8	9	1	0	3	0	2	0	1	2	4	1	3	2	1	1	2	2	1	3	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:33192195C>A	uc001zhf.3	-	10	2970	c.2970G>T	c.(2968-2970)AAG>AAT	p.K990N		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	1213	FH2.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		TTTTGACATCCTTGAGTTTGG	0.343													18	182					0.000175454	0.000180853	1	1	0		A	33192195	A	A	33192195	3	1	84	1	0	0	0	0	1	0	0	0	5963	680	24	5	652	5	FMN1	15	33192195	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	731985	33192195	69339197	1014	52857											
RYR3	6263	broad.mit.edu	37	chr15	34072425	34072425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccaggcaacgccctgccCttggagaatgtctggcctcg	6	10	11	14	2	1	1	0	0	1	1	3	2	2	1	4	3	2	1	4	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:34072425C>T	uc001zhi.2	+	65	9221	c.9151C>T	c.(9151-9153)CTT>TTT	p.L3051F	RYR3_uc010bar.2_Missense_Mutation_p.L3051F	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3051	Helical; Name=M''; (Potential).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		ACGCCCTGCCCTTGGAGAATG	0.547													13	49					0	0	1	0	0		T	34072425	T	T	34072425	3	4	84	1	0	0	0	0	1	0	0	0	13795	681	24	4	9409	4	RYR3	15	34072425	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	880230	34072425	68458967	1015	52858											
SLC12A6	9990	broad.mit.edu	37	chr15	34532905	34532905	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtagttctctaggaagttcCccacgatgacagagcccaca	11	8	9	13	2	1	2	0	1	1	1	3	4	2	3	3	1	1	3	3	1	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:34532905C>T	uc001zhw.2	-	18	2557	c.2393G>A	c.(2392-2394)GGG>GAG	p.G798E	SLC12A6_uc001zhv.2_Missense_Mutation_p.G747E|SLC12A6_uc001zhx.2_Missense_Mutation_p.G783E|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.G739E|SLC12A6_uc001zib.2_Missense_Mutation_p.G789E|SLC12A6_uc001zic.2_Missense_Mutation_p.G798E|SLC12A6_uc010bau.2_Missense_Mutation_p.G798E|SLC12A6_uc001zid.2_Missense_Mutation_p.G739E|SLC12A6_uc001zht.2_RNA|SLC12A6_uc001zhu.2_Missense_Mutation_p.G610E	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	798					angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	TAGGAAGTTCCCCACGATGAC	0.468													18	69					0	0	1	0	0		T	34532905	T	T	34532905	3	4	84	1	0	0	0	0	1	0	0	0	14412	623	22	4	1091	4	SLC12A6	15	34532905	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	460480	34532905	67998487	1016	52859											
SPRED1	161742	broad.mit.edu	37	chr15	38641697	38641697	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcggcaaatatccaaggaAtgtggaagcctaaagtccca	15	6	10	10	1	0	0	0	0	0	0	2	2	2	2	3	3	2	1	3	3	7	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:38641697A>C	uc001zka.3	+	6	992	c.657A>C	c.(655-657)GAA>GAC	p.E219D		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	219					inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		TATCCAAGGAATGTGGAAGCC	0.343									Legius_syndrome				5	48					0	0	1	0	0		C	38641697	C	C	38641697	3	2	84	1	0	0	0	0	1	0	0	0	15117	98	4	5	679	5	SPRED1	15	38641697	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	4108792	38641697	63889695	1017	52860											
SPRED1	161742	broad.mit.edu	37	chr15	38643475	38643475	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggtatttaagacgcagccTtcctcattaaaaattaagaa	15	12	7	7	1	1	2	1	0	0	2	2	2	2	2	2	1	1	2	2	1	7	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:38643475T>G	uc001zka.3	+	7	1280	c.945T>G	c.(943-945)CCT>CCG	p.P315P		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	315					inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		AGACGCAGCCTTCCTCATTAA	0.378									Legius_syndrome				18	46					0	0	1	0	0		G	38643475	G	G	38643475	2	3	84	1	0	0	0	0	0	0	0	1	15117	1596	56	5		5	SPRED1	15	38643475	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1778	38643475	63887917	1018	52861											
C15orf53	400359	broad.mit.edu	37	chr15	38990598	38990598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctacctaactgtgccccGccgttcaccacttcctgtct	5	12	5	19	2	2	0	1	0	1	0	4	0	4	0	7	0	3	1	7	0	2	4	rs143270407	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:38990598G>A	uc001zkf.1	+	2	402	c.392G>A	c.(391-393)CGC>CAC	p.R131H		NM_207444	NP_997327	Q8NAA6	CO053_HUMAN	hypothetical protein LOC400359	131											0		all_cancers(109;1.75e-13)|all_epithelial(112;1.02e-11)|Lung NSC(122;1.9e-09)|all_lung(180;4.04e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;8.39e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0321)		ACTGTGCCCCGCCGTTCACCA	0.552													11	49					0	0	1	0	0		A	38990598	A	A	38990598	3	1	84	1	0	0	0	0	1	0	0	0	1804	1087	38	1	398	1	C15orf53	15	38990598	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	347123	38990598	63540794	1019	52862											
THBS1	7057	broad.mit.edu	37	chr15	39874832	39874832	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagggcccagctgtacaTcgactgtgaaaagatggaga	14	6	13	8	1	0	4	0	1	0	3	1	6	0	4	1	2	2	2	1	2	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:39874832T>C	uc001zkh.2	+	3	685	c.506T>C	c.(505-507)ATC>ACC	p.I169T		NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	169	TSP N-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	CAGCTGTACATCGACTGTGAA	0.572													23	54					0	0	1	0	0		C	39874832	C	C	39874832	3	2	84	1	0	0	0	0	1	0	0	0	15878	1435	50	3	512	3	THBS1	15	39874832	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	884234	39874832	62656560	1020	52863											
DISP2	85455	broad.mit.edu	37	chr15	40656425	40656425	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttttcttctcttccacAggcaggaacgagccttccag	8	12	7	14	1	3	0	0	0	3	0	6	2	5	1	3	2	2	1	3	2	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:40656425A>G	uc001zlk.1	+	3	539	c.450_splice	c.e3-2	p.R150_splice		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B						smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		TCTCTTCCACAGGCAGGAACG	0.602													34	141					0	0	1	0	0		G	40656425	G	G	40656425	5	3	84	1	0	0	0	0	0	0	1	0	4546	202	7	3	458	3	DISP2	15	40656425	Splice_Site	SNP	A	TCGA-BR-8591-01A-11D-2394-08	781593	40656425	61874967	1021	52864											
CASC5	57082	broad.mit.edu	37	chr15	40916700	40916700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtcaagatctgggggagaTgactaaacttaattcaaagc	15	10	10	6	0	3	3	2	1	1	2	3	4	3	3	0	2	2	0	0	2	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:40916700T>C	uc010bbs.1	+	11	4477	c.4316T>C	c.(4315-4317)ATG>ACG	p.M1439T	CASC5_uc010ucq.1_Missense_Mutation_p.M1263T|CASC5_uc001zme.2_Missense_Mutation_p.M1413T|CASC5_uc010bbt.1_Missense_Mutation_p.M1413T	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	1439					acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		CTGGGGGAGATGACTAAACTT	0.348													29	66					0	0	1	0	0		C	40916700	C	C	40916700	3	2	84	1	0	0	0	0	1	0	0	0	2666	1464	51	3	4354	3	CASC5	15	40916700	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	260275	40916700	61614692	1022	52865											
VPS18	57617	broad.mit.edu	37	chr15	41191917	41191917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggggcattggactgtgggCgccctgactctctgctgagc	5	10	15	11	1	1	2	0	2	1	0	2	3	1	3	1	4	2	2	1	4	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:41191917C>T	uc001zne.2	+	4	1240	c.901C>T	c.(901-903)CGC>TGC	p.R301C		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	301					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		GGACTGTGGGCGCCCTGACTC	0.647													35	88					0	0	1	0	0		T	41191917	T	T	41191917	3	4	84	1	0	0	0	0	1	0	0	0	17220	768	27	1	915	1	VPS18	15	41191917	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	275217	41191917	61339475	1023	52866											
NUSAP1	51203	broad.mit.edu	37	chr15	41650412	41650412	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgatcaatatattgagagaAaaaagaaacattttgaagaa	21	11	7	2	0	1	6	1	3	0	3	1	7	1	6	0	0	1	0	0	0	9	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:41650412A>G	uc001zns.3	+	6	846	c.616A>G	c.(616-618)AAA>GAA	p.K206E	NUSAP1_uc001znq.3_Missense_Mutation_p.K11E|NUSAP1_uc001znr.3_Missense_Mutation_p.K206E|NUSAP1_uc010bce.2_Missense_Mutation_p.K206E|NUSAP1_uc001znt.3_Missense_Mutation_p.K191E|NUSAP1_uc001znv.3_Missense_Mutation_p.K205E|NUSAP1_uc001znu.3_Missense_Mutation_p.K205E|NUSAP1_uc010ucw.1_Missense_Mutation_p.K183E|NUSAP1_uc001znw.3_Missense_Mutation_p.K11E	NM_016359	NP_057443	Q9BXS6	NUSAP_HUMAN	nucleolar and spindle associated protein 1	206					cytokinesis after mitosis|establishment of mitotic spindle localization|mitotic chromosome condensation|positive regulation of mitosis	chromosome|cytoplasm|nucleolus	DNA binding				0		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;9.63e-17)|GBM - Glioblastoma multiforme(113;1.59e-06)|BRCA - Breast invasive adenocarcinoma(123;0.168)		TATTGAGAGAAAAAAGAAACA	0.264													7	21					0	0	1	0	0		G	41650412	G	G	41650412	3	3	84	1	0	0	0	0	1	0	0	0	10797	15	1	3	638	3	NUSAP1	15	41650412	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	458495	41650412	60880980	1024	52867											
MGA	23269	broad.mit.edu	37	chr15	42032174	42032174	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcattgcatccagccaataGgctagctgcttatatcacag	11	10	9	11	0	1	0	1	0	0	0	2	0	2	0	2	2	4	5	2	2	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:42032174G>T	uc010uda.1	+	3	332	c.206G>T	c.(205-207)AGG>ATG	p.R69M	MGA_uc010ucy.1_Intron|MGA_uc010ucz.1_Intron	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		CCAGCCAATAGGCTAGCTGCT	0.498													47	148					7.74415e-07	8.16111e-07	1	1	0		T	42032174	T	T	42032174	3	4	84	1	0	0	0	0	1	0	0	0	9558	1015	35	5		5	MGA	15	42032174	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	381762	42032174	60499218	1025	52868											
MAPKBP1	23005	broad.mit.edu	37	chr15	42109622	42109622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgcatgatcagctgtggagCagacaagagcatctacttcc	11	8	10	12	1	2	3	1	1	1	2	3	4	3	4	2	1	4	4	2	1	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:42109622C>T	uc001zok.3	+	16	2052	c.1766C>T	c.(1765-1767)GCA>GTA	p.A589V	MAPKBP1_uc001zoj.3_Missense_Mutation_p.A583V|MAPKBP1_uc010bcj.2_Missense_Mutation_p.A90V|MAPKBP1_uc010bci.2_Missense_Mutation_p.A583V|MAPKBP1_uc010udb.1_Missense_Mutation_p.A422V|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_Missense_Mutation_p.A90V	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	589	WD 9.									central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		AGCTGTGGAGCAGACAAGAGC	0.612													29	72					0	0	1	0	0		T	42109622	T	T	42109622	3	4	84	1	0	0	0	0	1	0	0	0	9310	710	25	2	1824	2	MAPKBP1	15	42109622	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	77448	42109622	60421770	1026	52869											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42139713	42139713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgactccttccgggagtactCggcccctggtgagctgctgt	4	10	13	14	3	0	1	0	1	0	0	3	3	2	2	4	3	3	3	4	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:42139713C>T	uc010bco.2	+	19	2227	c.2126C>T	c.(2125-2127)TCG>TTG	p.S709L	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.S940L|JMJD7-PLA2G4B_uc010bcn.2_Intron|JMJD7-PLA2G4B_uc001zoq.3_Missense_Mutation_p.S410L	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	709	PLA2c.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						CGGGAGTACTCGGCCCCTGGT	0.667													27	95					0	0	1	0	0		T	42139713	T	T	42139713	3	4	84	1	0	0	0	0	1	0	0	0	7971	893	31	1	2913	1	JMJD7-PLA2G4B	15	42139713	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	30091	42139713	60391679	1027	52870											
SPTBN5	51332	broad.mit.edu	37	chr15	42178461	42178461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagtctggaaaatcccgcGcctccagctgcatctgcttc	7	9	10	15	3	2	0	0	0	2	0	5	2	4	1	3	1	3	3	3	1	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:42178461G>A	uc001zos.2	-	7	1220	c.887C>T	c.(886-888)GCG>GTG	p.A296V		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	331	Spectrin 1.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		AAAATCCCGCGCCTCCAGCTG	0.622													13	43					0	0	1	0	0		A	42178461	A	A	42178461	3	1	84	1	0	0	0	0	1	0	0	0	15147	1087	38	1	10280	1	SPTBN5	15	42178461	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	38748	42178461	60352931	1028	52871											
GANC	2595	broad.mit.edu	37	chr15	42641671	42641671	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacaggaagttttcattcTgttccagtgttctgatcaat	9	16	8	8	0	4	1	2	1	2	0	5	2	5	2	1	1	1	4	1	1	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:42641671T>G	uc001zpi.2	+	22	2823	c.2509T>G	c.(2509-2511)TGT>GGT	p.C837G	CAPN3_uc001zpk.1_5'UTR|CAPN3_uc001zpl.1_5'UTR	NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	837					carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		GTTTTCATTCTGTTCCAGTGT	0.393													34	81					0	0	1	0	0		G	42641671	G	G	42641671	3	3	84	1	0	0	0	0	1	0	0	0	6249	1580	55	5	2595	5	GANC	15	42641671	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	463210	42641671	59889721	1029	52872											
CAPN3	825	broad.mit.edu	37	chr15	42702149	42702149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaggacctgaagacacacGggttcacactggagtcctgc	12	6	11	12	1	1	2	1	1	0	1	2	4	2	4	2	3	1	1	2	3	2	1	rs140425651		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:42702149G>A	uc001zpn.1	+	19	2377	c.2071G>A	c.(2071-2073)GGG>AGG	p.G691R	CAPN3_uc001zpk.1_Missense_Mutation_p.G458R|CAPN3_uc001zpl.1_Missense_Mutation_p.G598R|CAPN3_uc010udf.1_Missense_Mutation_p.G604R|CAPN3_uc010udg.1_Missense_Mutation_p.G556R|CAPN3_uc001zpo.1_Missense_Mutation_p.G685R|CAPN3_uc001zpp.1_Missense_Mutation_p.G599R|CAPN3_uc001zpq.1_Missense_Mutation_p.G179R|CAPN3_uc010bcv.1_Missense_Mutation_p.G26R|CAPN3_uc001zpr.1_Missense_Mutation_p.G26R|CAPN3_uc001zps.1_Missense_Mutation_p.G26R|CAPN3_uc001zpt.1_Missense_Mutation_p.G26R	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	691	Domain IV.				muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)		GAAGACACACGGGTTCACACT	0.602													37	102					0	0	1	0	0		A	42702149	A	A	42702149	3	1	84	1	0	0	0	0	1	0	0	0	2631	1116	39	1	2197	1	CAPN3	15	42702149	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	60478	42702149	59829243	1030	52873											
TMEM62	80021	broad.mit.edu	37	chr15	43470863	43470863	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgtcttgagcaaaataaaCatcttctactattctgtgtt	12	16	5	8	0	4	1	0	1	4	0	4	1	4	1	0	0	3	2	0	0	6	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:43470863C>A	uc001zqr.2	+	12	1719	c.1440C>A	c.(1438-1440)AAC>AAA	p.N480K	TMEM62_uc010bda.2_Intron|TMEM62_uc001zqt.2_Missense_Mutation_p.N49K	NM_024956	NP_079232	Q0P6H9	TMM62_HUMAN	transmembrane protein 62	480						integral to membrane				ovary(1)|breast(1)	2		all_cancers(109;1.16e-10)|all_epithelial(112;2.01e-09)|Lung NSC(122;8.91e-07)|all_lung(180;8.8e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;4.23e-07)		GCAAAATAAACATCTTCTACT	0.328													3	18					0.004672	0.00474832	1	1	0		A	43470863	A	A	43470863	3	1	84	1	0	0	0	0	1	0	0	0	16214	477	17	5	1486	5	TMEM62	15	43470863	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	768714	43470863	59060529	1031	52874											
B2M	567	broad.mit.edu	37	chr15	45007619	45007619	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttttcccgatattcctcAggtactccaaagattcaggt	9	14	7	11	1	3	1	2	0	1	1	6	2	6	1	3	2	1	1	3	2	3	6	rs111482205		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:45007619A>G	uc001zuc.2	+	2	128	c.68_splice	c.e2-2	p.R23_splice	B2M_uc010uek.1_Splice_Site_p.R23_splice|B2M_uc010bdx.1_Splice_Site_p.R23_splice	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor						antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding			ovary(2)|skin(1)	3		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		GATATTCCTCAGGTACTCCAA	0.423													22	91					0	0	1	0	0		G	45007619	G	G	45007619	5	3	84	1	0	0	0	0	0	0	1	0	1245	202	7	3	72	3	B2M	15	45007619	Splice_Site	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1536756	45007619	57523773	1032	52875											
DUOX2	50506	broad.mit.edu	37	chr15	45398489	45398489	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acagcagctggatgatgatgGgactgctcctctccttgggg	7	10	14	10	0	1	2	0	2	1	0	3	4	2	4	2	4	3	3	2	4	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:45398489G>A	uc010bea.2	-	17	2185	c.1982C>T	c.(1981-1983)CCC>CTC	p.P661L	DUOX2_uc001zun.2_Missense_Mutation_p.P661L	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	661	Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		GATGATGATGGGACTGCTCCT	0.607													17	47					0	0	1	0	0		A	45398489	A	A	45398489	3	1	84	1	0	0	0	0	1	0	0	0	4807	1232	43	4	2736	4	DUOX2	15	45398489	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	390870	45398489	57132903	1033	52876											
DUOX2	50506	broad.mit.edu	37	chr15	45399570	45399570	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagacaaagacattgggctGcagggcactggggtcaatgt	11	7	14	9	0	1	2	1	0	0	2	1	2	1	2	1	4	1	3	1	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:45399570G>A	uc010bea.2	-	14	1869	c.1666C>T	c.(1666-1668)CAG>TAG	p.Q556*	DUOX2_uc001zun.2_Nonsense_Mutation_p.Q556*	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	556	Extracellular (Potential).|Peroxidase-like; mediates peroxidase activity (By similarity).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		ACATTGGGCTGCAGGGCACTG	0.532													49	110					0	0	1	0	0		A	45399570	A	A	45399570	4	1	84	1	0	0	0	0	0	1	0	0	4807	1328	46	2	3064	2	DUOX2	15	45399570	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1081	45399570	57131822	1034	52877											
SEMA6D	80031	broad.mit.edu	37	chr15	48057167	48057167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttggctctgaagctggcatGgtacttaaagttctggcaaa	10	12	12	7	0	2	1	0	1	2	0	2	1	2	1	0	4	2	7	0	4	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:48057167G>A	uc010bek.2	+	13	1701	c.1341G>A	c.(1339-1341)ATG>ATA	p.M447I	SEMA6D_uc001zvw.2_Missense_Mutation_p.M447I|SEMA6D_uc001zvx.1_Missense_Mutation_p.M447I|SEMA6D_uc001zvy.2_Missense_Mutation_p.M447I|SEMA6D_uc001zvz.2_Missense_Mutation_p.M447I|SEMA6D_uc001zwa.2_Missense_Mutation_p.M447I|SEMA6D_uc001zwb.2_Missense_Mutation_p.M447I|SEMA6D_uc001zwc.2_Missense_Mutation_p.M447I	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	447	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		AAGCTGGCATGGTACTTAAAG	0.468													23	65					0	0	1	0	0		A	48057167	A	A	48057167	3	1	84	1	0	0	0	0	1	0	0	0	14067	1348	47	4	1387	4	SEMA6D	15	48057167	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2657597	48057167	54474225	1035	52878											
FBN1	2200	broad.mit.edu	37	chr15	48936954	48936954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcgatctccagcagacGccctcgacgcatgatgccga	9	5	12	15	5	1	2	0	1	1	1	3	5	1	2	3	1	2	2	3	1	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:48936954G>A	uc001zwx.1	-	2	341	c.13C>T	c.(13-15)CGT>TGT	p.R5C		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	5					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		TCCAGCAGACGCCCTCGACGC	0.692													24	53					0	0	1	0	0		A	48936954	A	A	48936954	3	1	84	1	0	0	0	0	1	0	0	0	5716	1087	38	1	8862	1	FBN1	15	48936954	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	879787	48936954	53594438	1036	52879											
SECISBP2L	9728	broad.mit.edu	37	chr15	49303986	49303986	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctaagtgcatttctgtTggttcctcggatcccaaaag	11	13	8	9	1	2	0	0	0	2	0	5	1	4	1	2	2	1	3	2	2	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:49303986T>C	uc001zxe.1	-	13	1940	c.1806A>G	c.(1804-1806)CCA>CCG	p.P602P	SECISBP2L_uc001zxd.1_Silent_p.P557P|SECISBP2L_uc010bep.1_Silent_p.P364P	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	602										breast(1)|skin(1)	2						GCATTTCTGTTGGTTCCTCGG	0.418													20	47					0	0	1	0	0		C	49303986	C	C	49303986	2	2	84	1	0	0	0	0	0	0	0	1	14032	1799	63	3		3	SECISBP2L	15	49303986	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	367032	49303986	53227406	1037	52880											
MYO5C	55930	broad.mit.edu	37	chr15	52487639	52487639	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctataggtgtgtatgaatTaaggatctttatgatctgca	12	16	9	4	0	3	2	0	2	3	0	3	3	3	3	0	2	1	2	0	2	6	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:52487639T>C	uc010bff.2	-	40	5148	c.5011A>G	c.(5011-5013)AAT>GAT	p.N1671D	MYO5C_uc010uga.1_RNA|uc002abv.2_Intron	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	1671	Dilute.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		GTGTATGAATTAAGGATCTTT	0.353													3	32					0	0	1	0	0		C	52487639	C	C	52487639	3	2	84	1	0	0	0	0	1	0	0	0	10098	1754	61	3	225	3	MYO5C	15	52487639	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3183653	52487639	50043753	1038	52881											
FAM63B	54629	broad.mit.edu	37	chr15	59144134	59144134	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaggaacaagcagcagcTgctgctgctgctgcttctac	10	8	11	12	0	1	0	0	0	1	0	1	2	1	1	0	1	11	8	0	1	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:59144134T>A	uc002afj.2	+	8	1909	c.1707T>A	c.(1705-1707)GCT>GCA	p.A569A	FAM63B_uc002afi.2_Silent_p.A569A|FAM63B_uc002afk.2_RNA|FAM63B_uc002afl.2_RNA	NM_001040450	NP_001035540	Q8NBR6	FA63B_HUMAN	hypothetical protein LOC54629 isoform a	569	Gln-rich.									central_nervous_system(1)	1						AAGCAGCAGCTGCTGCTGCTG	0.383													26	76					0	0	1	0	0		A	59144134	A	A	59144134	2	1	84	1	0	0	0	0	0	0	0	1	5611	1567	55	5		5	FAM63B	15	59144134	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	6656495	59144134	43387258	1039	52882											
SLTM	79811	broad.mit.edu	37	chr15	59186117	59186117	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaccttctattttcttagtAtccttgctttcttttttttc	4	26	2	9	0	3	0	0	0	3	0	5	0	4	0	2	0	2	2	2	0	4	13			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:59186117A>G	uc002afp.2	-	12	1639	c.1551T>C	c.(1549-1551)GAT>GAC	p.D517D	SLTM_uc002afn.2_Silent_p.D86D|SLTM_uc002afo.2_Silent_p.D499D|SLTM_uc002afq.2_Silent_p.D86D|SLTM_uc010bgd.2_Silent_p.D86D	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	517					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						TTTTCTTAGTATCCTTGCTTT	0.358													16	36					0	0	1	0	0		G	59186117	G	G	59186117	2	3	84	1	0	0	0	0	0	0	0	1	14779	446	16	3		3	SLTM	15	59186117	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	41983	59186117	43345275	1040	52883											
SNX1	6642	broad.mit.edu	37	chr15	64422122	64422122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtcttgtagctgccacGtgccgtgggtacccagacat	6	11	12	12	2	1	1	0	0	1	1	1	1	1	1	3	2	4	3	3	2	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:64422122G>A	uc002amv.2	+	9	851	c.815G>A	c.(814-816)CGT>CAT	p.R272H	SNX1_uc010bgv.2_Translation_Start_Site|SNX1_uc010uio.1_Missense_Mutation_p.R272H|SNX1_uc002amw.2_Missense_Mutation_p.R272H|SNX1_uc002amx.2_Missense_Mutation_p.R207H|SNX1_uc002amy.2_Missense_Mutation_p.R201H|SNX1_uc010bgw.2_Missense_Mutation_p.R174H	NM_003099	NP_003090	Q13596	SNX1_HUMAN	sorting nexin 1 isoform a	272	PX.				cell communication|early endosome to Golgi transport|endocytosis|intracellular protein transport	early endosome membrane|Golgi apparatus	phosphatidylinositol binding|protein binding|protein transporter activity				0						TAGCTGCCACGTGCCGTGGGT	0.473													14	85					0	0	1	0	0		A	64422122	A	A	64422122	3	1	84	1	0	0	0	0	1	0	0	0	14905	1145	40	1	849	1	SNX1	15	64422122	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	5236005	64422122	38109270	1041	52884											
PLEKHO2	80301	broad.mit.edu	37	chr15	65157594	65157594	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaaagcctccatgggtgAgatgcaggcttctgggccac	9	8	13	11	0	1	2	0	2	1	1	2	3	2	2	3	3	2	2	3	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:65157594A>T	uc002anv.2	+	6	1114	c.980A>T	c.(979-981)GAG>GTG	p.E327V	PLEKHO2_uc010bgz.2_Missense_Mutation_p.E3V|PLEKHO2_uc002anw.2_Missense_Mutation_p.E277V	NM_025201	NP_079477	Q8TD55	PKHO2_HUMAN	pleckstrin homology domain containing, family O	327	Pro-rich.									ovary(1)|lung(1)	2						TCCATGGGTGAGATGCAGGCT	0.602													7	100					0	0	1	0	0		T	65157594	T	T	65157594	3	4	84	1	0	0	0	0	1	0	0	0	12104	304	11	5	1002	5	PLEKHO2	15	65157594	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	735472	65157594	37373798	1042	52885											
SPG21	51324	broad.mit.edu	37	chr15	65257735	65257735	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttttcagatgagctcttcGggcattaggatacagcttgt	8	15	11	7	1	2	2	1	1	1	1	3	3	2	3	0	2	3	4	0	2	2	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:65257735G>T	uc002aod.2	-	8	829	c.736C>A	c.(736-738)CGA>AGA	p.R246R	SPG21_uc002aoe.2_Silent_p.R246R|SPG21_uc010bhb.2_Silent_p.R219R|SPG21_uc010bhc.2_Silent_p.R92R	NM_001127889	NP_001121361	Q9NZD8	SPG21_HUMAN	spastic paraplegia 21 isoform a	246					cell death	cytosol|endosome membrane|trans-Golgi network transport vesicle	CD4 receptor binding				0						TGAGCTCTTCGGGCATTAGGA	0.433													4	67					0.150653	0.151174	1	1	0		T	65257735	T	T	65257735	2	4	84	1	0	0	0	0	0	0	0	1	15068	1124	39	5		5	SPG21	15	65257735	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	100141	65257735	37273657	1043	52886											
MEGF11	84465	broad.mit.edu	37	chr15	66191137	66191137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggagaccccatgtgcacaGgcgacttcatttctacatag	11	9	9	12	2	2	1	1	0	1	1	2	3	2	1	2	2	2	1	2	2	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:66191137G>A	uc002apm.2	-	22	3044	c.2903C>T	c.(2902-2904)CCT>CTT	p.P968L	MEGF11_uc002apl.2_Missense_Mutation_p.P893L|MEGF11_uc002apn.1_Missense_Mutation_p.P968L	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	968						basolateral plasma membrane|integral to membrane				pancreas(1)	1						CATGTGCACAGGCGACTTCAT	0.433													22	69					0	0	1	0	0		A	66191137	A	A	66191137	3	1	84	1	0	0	0	0	1	0	0	0	9479	1000	35	4	239	4	MEGF11	15	66191137	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	933402	66191137	36340255	1044	52887											
TLE3	7090	broad.mit.edu	37	chr15	70348691	70348691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcctgtggcccgcatcGgggggtgagggtcaaaacca	8	5	18	10	2	1	1	1	1	0	0	2	2	1	2	3	7	1	1	3	7	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:70348691G>A	uc002asm.2	-	14	2402	c.1283C>T	c.(1282-1284)CCG>CTG	p.P428L	TLE3_uc002ask.2_Missense_Mutation_p.P355L|TLE3_uc002asl.2_Missense_Mutation_p.P428L|TLE3_uc010ukd.1_Missense_Mutation_p.P418L|TLE3_uc010bik.1_Missense_Mutation_p.P9L|TLE3_uc010bil.1_Missense_Mutation_p.P425L|TLE3_uc002asn.2_Missense_Mutation_p.P416L|TLE3_uc002asp.2_Missense_Mutation_p.P420L|TLE3_uc002aso.2_Missense_Mutation_p.P423L	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	428	Pro/Ser-rich.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						GGCCCGCATCGGGGGGTGAGG	0.607													27	77					0	0	1	0	0		A	70348691	A	A	70348691	3	1	84	1	0	0	0	0	1	0	0	0	15965	1116	39	1	1063	1	TLE3	15	70348691	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4157554	70348691	32182701	1045	52888											
NPTN	27020	broad.mit.edu	37	chr15	73866028	73866028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatcccgttctccttcttgCgccatatccagtctgggtgg	4	13	10	14	2	3	0	0	0	3	0	6	0	5	0	4	2	1	2	4	2	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:73866028C>T	uc002avs.2	-	5	1012	c.815G>A	c.(814-816)CGC>CAC	p.R272H	NPTN_uc010bjc.2_Missense_Mutation_p.R272H|NPTN_uc002avt.2_Missense_Mutation_p.R156H|NPTN_uc002avr.2_Missense_Mutation_p.R156H|NPTN_uc010ula.1_Missense_Mutation_p.R67H	NM_012428	NP_036560	Q9Y639	NPTN_HUMAN	neuroplastin isoform b precursor	272	Ig-like 3.|Extracellular (Potential).				elevation of cytosolic calcium ion concentration|homophilic cell adhesion|long-term synaptic potentiation|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of long-term neuronal synaptic plasticity|positive regulation of neuron projection development|positive regulation of protein phosphorylation	integral to membrane|plasma membrane|presynaptic membrane	cell adhesion molecule binding|type 1 fibroblast growth factor receptor binding				0						CTCCTTCTTGCGCCATATCCA	0.552													34	108					0	0	1	0	0		T	73866028	T	T	73866028	3	4	84	1	0	0	0	0	1	0	0	0	10620	768	27	1	397	1	NPTN	15	73866028	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3517337	73866028	28665364	1046	52889											
CD276	80381	broad.mit.edu	37	chr15	74000799	74000801	+	In_Frame_Del	DEL	GAG	-	-																															gaaagatcaaacagagctgtGaggaggagaatgcaggtgag																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:74000799_74000801delGAG	uc002avv.1	+	7	1723_1725	c.1489_1491delGAG	c.(1489-1491)GAGdel	p.E499del	CD276_uc010bjd.1_In_Frame_Del_p.E353del|CD276_uc002avu.1_In_Frame_Del_p.E499del|CD276_uc002avw.1_In_Frame_Del_p.E281del|CD276_uc010ulb.1_In_Frame_Del_p.E445del|CD276_uc002avx.2_RNA	NM_001024736	NP_001019907	Q5ZPR3	CD276_HUMAN	CD276 antigen isoform a	499	Cytoplasmic (Potential).				cell proliferation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of T cell proliferation|regulation of immune response|T cell activation	external side of plasma membrane|integral to membrane	receptor binding			skin(1)	1						ACAGAGCTGTGAGGAGGAGAATG	0.537													12	25	---	---	---	---						.	-	74000801	-	-	74000799	7	5	84	1	0	1	0	1	0	0	0	0	2995	1291	45	0	1511	0	CD276	15	74000799	In_Frame_Del	DEL	GAG	TCGA-BR-8591-01A-11D-2394-08	134771	74000799	28530593	1047	52890											
STRA6	64220	broad.mit.edu	37	chr15	74487706	74487706	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaggtgggcccaggacagCgtgctgccgagcaggtgtgc	7	5	17	12	2	0	0	0	0	0	0	0	2	0	1	3	4	5	2	3	4	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:74487706C>T	uc002axk.2	-	7	716	c.534G>A	c.(532-534)ACG>ACA	p.T178T	STRA6_uc002axi.2_Intron|STRA6_uc010ulh.1_Silent_p.T216T|STRA6_uc002axj.2_Silent_p.T217T|STRA6_uc010bji.2_Silent_p.T178T|STRA6_uc002axl.2_Silent_p.T110T|STRA6_uc002axm.2_Silent_p.T178T|STRA6_uc002axn.2_Silent_p.T169T|STRA6_uc010uli.1_Silent_p.T215T|STRA6_uc010bjj.1_RNA|STRA6_uc010bjk.2_3'UTR	NM_022369	NP_071764	Q9BX79	STRA6_HUMAN	stimulated by retinoic acid gene 6 homolog	178	Extracellular (Potential).				adrenal gland development|alveolar primary septum development|developmental growth|diaphragm development|digestive tract morphogenesis|ear development|embryonic camera-type eye formation|embryonic digestive tract development|eyelid development in camera-type eye|face morphogenesis|feeding behavior|female genitalia development|kidney development|lung vasculature development|neuromuscular process|nose morphogenesis|paramesonephric duct development|positive regulation of behavior|pulmonary artery morphogenesis|pulmonary valve morphogenesis|smooth muscle tissue development|transport|uterus morphogenesis|ventricular septum development|vocal learning	integral to membrane|plasma membrane|protein complex	receptor activity			central_nervous_system(1)	1						CCCAGGACAGCGTGCTGCCGA	0.632													23	30					0	0	1	0	0		T	74487706	T	T	74487706	2	4	84	1	0	0	0	0	0	0	0	1	15347	755	27	1		1	STRA6	15	74487706	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	486907	74487706	28043686	1048	52891											
SEMA7A	8482	broad.mit.edu	37	chr15	74707019	74707019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgggctccaccctctgcGccacctctgggtgacggtca	5	8	11	17	2	3	1	1	1	2	0	4	1	4	1	5	3	1	1	5	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:74707019G>A	uc002axv.2	-	10	1203	c.1163C>T	c.(1162-1164)GCG>GTG	p.A388V	SEMA7A_uc010ulk.1_Missense_Mutation_p.A223V|SEMA7A_uc010ull.1_Missense_Mutation_p.A374V	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	388	Sema.				axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						CACCCTCTGCGCCACCTCTGG	0.632													56	106					0	0	1	0	0		A	74707019	A	A	74707019	3	1	84	1	0	0	0	0	1	0	0	0	14068	1087	38	1	857	1	SEMA7A	15	74707019	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	219313	74707019	27824373	1049	52892											
MAN2C1	4123	broad.mit.edu	37	chr15	75652923	75652923	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacctgggcatgggtggtgtAtgtgccattgtgcagctcca	6	11	15	9	0	0	0	0	0	0	0	1	1	1	0	3	3	3	4	3	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:75652923A>G	uc002baf.2	-	13	1584	c.1567T>C	c.(1567-1569)TAC>CAC	p.Y523H	MAN2C1_uc002bag.2_Missense_Mutation_p.Y523H|MAN2C1_uc002bah.2_Missense_Mutation_p.Y523H|MAN2C1_uc010bkk.2_Missense_Mutation_p.Y424H|MAN2C1_uc010umi.1_Missense_Mutation_p.Y305H	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	523					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						TGGGTGGTGTATGTGCCATTG	0.597													28	66					0	0	1	0	0		G	75652923	G	G	75652923	3	3	84	1	0	0	0	0	1	0	0	0	9236	449	16	3	1611	3	MAN2C1	15	75652923	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	945904	75652923	26878469	1050	52893											
SIN3A	25942	broad.mit.edu	37	chr15	75685046	75685046	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctgtctgcctcttcacatgGtggataatcagagcagcagc	9	10	10	12	0	4	1	2	0	2	1	4	2	4	2	2	2	4	2	2	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:75685046G>A	uc002bai.2	-	15	2647	c.2388C>T	c.(2386-2388)CAC>CAT	p.H796H	SIN3A_uc002baj.2_Silent_p.H796H|SIN3A_uc010uml.1_Silent_p.H796H	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	796	Interactions with HDAC1 and ARID4B.|Interaction with NCOR1 (By similarity).				blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						TCTTCACATGGTGGATAATCA	0.443													8	156					0	0	1	0	0		A	75685046	A	A	75685046	2	1	84	1	0	0	0	0	0	0	0	1	14350	1252	44	4		4	SIN3A	15	75685046	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	32123	75685046	26846346	1051	52894											
SGK269	79834	broad.mit.edu	37	chr15	77473379	77473379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctctgcagagacttgtttCgcagggggatggtattccat	7	14	12	8	1	1	1	0	0	1	1	4	3	2	2	1	3	1	4	1	3	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:77473379C>T	uc002bcm.2	-	3	1198	c.890G>A	c.(889-891)CGA>CAA	p.R297Q	SGK269_uc002bcn.2_Missense_Mutation_p.R297Q	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	297					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		AGACTTGTTTCGCAGGGGGAT	0.438													30	94					0	0	1	0	0		T	77473379	T	T	77473379	3	4	84	1	0	0	0	0	1	0	0	0	14236	884	31	1	4366	1	SGK269	15	77473379	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1788333	77473379	25058013	1052	52895											
LINGO1	84894	broad.mit.edu	37	chr15	77908005	77908005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggttgagcgttttgatgcGgttcttgcctaggtccagca	5	14	13	9	2	1	2	0	2	1	0	2	2	2	2	2	3	4	4	2	3	1	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:77908005G>A	uc002bct.1	-	2	296	c.244C>T	c.(244-246)CGC>TGC	p.R82C	LINGO1_uc002bcu.1_Missense_Mutation_p.R76C	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	82	Extracellular (Potential).|LRR 1.				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						GTTTTGATGCGGTTCTTGCCT	0.662													6	26					0	0	1	0	0		A	77908005	A	A	77908005	3	1	84	1	0	0	0	0	1	0	0	0	8831	1116	39	1	1622	1	LINGO1	15	77908005	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	434626	77908005	24623387	1053	52896											
ACSBG1	23205	broad.mit.edu	37	chr15	78526805	78526805	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcatgctggggtccccGtgtgggcagccgtatccagc	5	8	14	14	2	0	0	0	0	0	0	3	0	3	0	5	3	4	4	5	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:78526805G>A	uc002bdh.2	-	1	95	c.39C>T	c.(37-39)CAC>CAT	p.H13H	ACSBG1_uc010umw.1_Silent_p.H13H|ACSBG1_uc010umx.1_Translation_Start_Site|ACSBG1_uc010umy.1_Translation_Start_Site	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	13					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						TGGGGTCCCCGTGTGGGCAGC	0.567													89	238					0	0	1	0	0		A	78526805	A	A	78526805	2	1	84	1	0	0	0	0	0	0	0	1	173	1136	40	1		1	ACSBG1	15	78526805	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	618800	78526805	24004587	1054	52897											
ADAMTS7	11173	broad.mit.edu	37	chr15	79092633	79092633	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggtgtgggcccggatgtgCgcgcggcccaggccgccgcg	2	4	21	14	7	0	0	0	0	0	0	0	1	0	1	4	6	1	0	4	6	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:79092633C>T	uc002bej.3	-	2	568	c.357G>A	c.(355-357)GCG>GCA	p.A119A	ADAMTS7_uc010und.1_Silent_p.A119A|ADAMTS7_uc002bek.1_Silent_p.A119A	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	119					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						CCCGGATGTgcgcgcggccca	0.607													12	29					0	0	1	0	0		T	79092633	T	T	79092633	2	4	84	1	0	0	0	0	0	0	0	1	271	755	27	1		1	ADAMTS7	15	79092633	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	565828	79092633	23438759	1055	52898											
CTSH	1512	broad.mit.edu	37	chr15	79229754	79229754	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtactcctccgtactgtaGgtcttacggtgctaaaacaa	10	12	9	10	2	1	0	0	0	1	0	3	0	3	0	2	3	5	4	2	3	7	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:79229754G>T	uc002ben.2	-	4	196	c.99C>A	c.(97-99)ACC>ACA	p.T33T	CTSH_uc010unf.1_RNA|CTSH_uc010bll.1_Intron|CTSH_uc010ung.1_Silent_p.T45T	NM_148979	NP_683880	P09668	CATH_HUMAN	cathepsin H isoform b precursor	45					protein destabilization|proteolysis	lysosome	cysteine-type endopeptidase activity			central_nervous_system(2)|large_intestine(1)	3						CCGTACTGTAGGTCTTACGGT	0.478													16	58					1.15088e-07	1.22246e-07	1	1	0		T	79229754	T	T	79229754	2	4	84	1	0	0	0	0	0	0	0	1	4039	987	35	5		5	CTSH	15	79229754	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	137121	79229754	23301638	1056	52899											
ARNT2	9915	broad.mit.edu	37	chr15	80855535	80855535	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcacattccagaatccctAttctgatgagattgagtaca	12	13	6	10	0	2	4	1	3	1	2	4	5	4	4	2	0	1	1	2	0	3	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:80855535A>G	uc002bfr.2	+	12	1437	c.1271A>G	c.(1270-1272)TAT>TGT	p.Y424C	ARNT2_uc010unm.1_Missense_Mutation_p.Y413C|ARNT2_uc002bfs.2_Missense_Mutation_p.Y413C	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	424	PAC.				central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			CAGAATCCCTATTCTGATGAG	0.502													68	189					0	0	1	0	0		G	80855535	G	G	80855535	3	3	84	1	0	0	0	0	1	0	0	0	967	449	16	3	1317	3	ARNT2	15	80855535	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1625781	80855535	21675857	1057	52900											
HOMER2	9455	broad.mit.edu	37	chr15	83520895	83520895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggagcaccattactcactGtctccttttctcggagctct	6	14	7	14	2	4	0	1	0	3	0	7	2	4	2	2	2	3	2	2	2	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:83520895G>A	uc002bjg.2	-	7	980	c.794C>T	c.(793-795)ACA>ATA	p.T265I	HOMER2_uc002bjh.2_Missense_Mutation_p.T254I|HOMER2_uc002bjj.2_Missense_Mutation_p.T199I|HOMER2_uc002bji.2_Missense_Mutation_p.T210I	NM_199330	NP_955362	Q9NSB8	HOME2_HUMAN	homer 2 isoform 2	265	Potential.				metabotropic glutamate receptor signaling pathway	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane					0						ATTACTCACTGTCTCCTTTTC	0.587													5	25					0	0	1	0	0		A	83520895	A	A	83520895	3	1	84	1	0	0	0	0	1	0	0	0	7295	1391	48	4	282	4	HOMER2	15	83520895	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2665360	83520895	19010497	1058	52901											
HOMER2	9455	broad.mit.edu	37	chr15	83523493	83523493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagtgctgtggtcagcCgtgcattgctctcccgaagg	5	10	13	13	2	2	0	1	0	1	0	3	1	2	0	3	2	5	4	3	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:83523493C>T	uc002bjg.2	-	6	773	c.587G>A	c.(586-588)CGG>CAG	p.R196Q	HOMER2_uc002bjh.2_Missense_Mutation_p.R185Q|HOMER2_uc002bjj.2_Intron|HOMER2_uc002bji.2_Intron	NM_199330	NP_955362	Q9NSB8	HOME2_HUMAN	homer 2 isoform 2	196	Potential.				metabotropic glutamate receptor signaling pathway	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane					0						TGTGGTCAGCCGTGCATTGCT	0.627													23	56					0	0	1	0	0		T	83523493	T	T	83523493	3	4	84	1	0	0	0	0	1	0	0	0	7295	652	23	1	493	1	HOMER2	15	83523493	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2598	83523493	19007899	1059	52902											
TM6SF1	53346	broad.mit.edu	37	chr15	83776454	83776454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagtgcctctgcggccaccGgggtcttcgtgctgtccctc	2	11	13	15	3	2	1	0	1	2	0	5	1	3	1	4	3	3	1	4	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:83776454G>A	uc002bjp.2	+	1	131	c.22G>A	c.(22-24)GGG>AGG	p.G8R	TM6SF1_uc010bmq.2_Missense_Mutation_p.G8R|TM6SF1_uc002bjq.2_Missense_Mutation_p.G8R|TM6SF1_uc010bmr.2_RNA	NM_023003	NP_075379	Q9BZW5	TM6S1_HUMAN	transmembrane 6 superfamily member 1 isoform 1	8	Helical; (Potential).					integral to membrane				ovary(1)	1						TGCGGCCACCGGGGTCTTCGT	0.647													6	15					0	0	1	0	0		A	83776454	A	A	83776454	3	1	84	1	0	0	0	0	1	0	0	0	15997	1116	39	1	24	1	TM6SF1	15	83776454	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	252961	83776454	18754938	1060	52903											
DET1	55070	broad.mit.edu	37	chr15	89074194	89074194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccgcacatcaatgaaagtgCcttcaggagtcacctggaag	12	8	10	11	1	3	1	3	1	0	0	4	3	4	3	3	2	1	1	3	2	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:89074194C>T	uc002bmr.2	-	2	895	c.743G>A	c.(742-744)GGC>GAC	p.G248D	DET1_uc002bmp.3_RNA|DET1_uc010bnk.2_RNA|DET1_uc002bmq.2_Missense_Mutation_p.G259D	NM_001144074	NP_001137546	Q7L5Y6	DET1_HUMAN	de-etiolated 1 isoform 2	248						nucleus				lung(1)|pancreas(1)	2	Lung NSC(78;0.105)|all_lung(78;0.182)		BRCA - Breast invasive adenocarcinoma(143;0.188)			AATGAAAGTGCCTTCAGGAGT	0.502													11	46					0	0	1	0	0		T	89074194	T	T	89074194	3	4	84	1	0	0	0	0	1	0	0	0	4456	739	26	2	925	2	DET1	15	89074194	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5297740	89074194	13457198	1061	52904											
ACAN	176	broad.mit.edu	37	chr15	89401038	89401038	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtcagtggacagccatcagGgtttcctgacactagtgggg	8	10	14	9	0	2	1	2	1	0	0	3	2	3	2	2	4	1	1	2	4	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:89401038G>T	uc010upo.1	+	12	5596	c.5222G>T	c.(5221-5223)GGG>GTG	p.G1741V	ACAN_uc010upp.1_Missense_Mutation_p.G1741V|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	1741					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CAGCCATCAGGGTTTCCTGAC	0.517													34	131					2.20474e-14	2.43079e-14	1	1	0		T	89401038	T	T	89401038	3	4	84	1	0	0	0	0	1	0	0	0	117	1232	43	5	5264	5	ACAN	15	89401038	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	326844	89401038	13130354	1062	52905											
POLG	5428	broad.mit.edu	37	chr15	89876827	89876828	+	Missense_Mutation	DNP	TT	AG	AG																															tgcggctgctgaggctgctgTtgctgctgctgctgctgctg																								rs41550117		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:89876827_89876828TT>AG	uc002bns.3	-	2	440_441	c.158_159AA>CT	c.(157-159)CAA>CCT	p.Q53P	POLG_uc002bnr.3_Missense_Mutation_p.Q53P	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	53	Poly-Gln.				base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			gaggctgctgttgctgctgctg	0.46								DNA_polymerases_(catalytic_subunits)					10	24					0	0	1	0	0		AG	89876828	AG	AG	89876827	3	1	84	1	0	0	0	0	1	0	0	0	12219	1722	60	5	3648	5	POLG	15	89876827	Missense_Mutation	DNP	TT	TCGA-BR-8591-01A-11D-2394-08	475789	89876827	12654565	1063	52906	98	2									
POLG	5428	broad.mit.edu	37	chr15	89876836	89876836	+	Silent	SNP	C	T	T																															tgaggctgctgttgctgctgCtgctgctgctgctgctgctg																								rs71879812		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:89876836C>T	uc002bns.3	-	2	432	c.150G>A	c.(148-150)CAG>CAA	p.Q50Q	POLG_uc002bnr.3_Silent_p.Q50Q	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	50	Poly-Gln.				base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			gttgctgctgctgctgctgct	0.473								DNA_polymerases_(catalytic_subunits)					8	20					0	0	1	0	0		T	89876836	T	T	89876836	2	4	84	1	0	0	0	0	0	0	0	1	12219	796	28	2		2	POLG	15	89876836	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	9	89876836	12654556	1064	52907	98	2									
IQGAP1	8826	broad.mit.edu	37	chr15	91017330	91017330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaatccaggcttttattcGggcaaacaaagctcgggatg	13	9	10	9	2	0	0	0	0	0	0	3	1	1	1	1	3	2	3	1	3	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:91017330G>A	uc002bpl.1	+	22	2641	c.2540G>A	c.(2539-2541)CGG>CAG	p.R847Q		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	847	IQ 4.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			GCTTTTATTCGGGCAAACAAA	0.428													10	35					0	0	1	0	0		A	91017330	A	A	91017330	3	1	84	1	0	0	0	0	1	0	0	0	7830	1116	39	1	2626	1	IQGAP1	15	91017330	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1140494	91017330	11514062	1065	52908											
FES	2242	broad.mit.edu	37	chr15	91430551	91430551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaccagctcctgctgcccGgcctgctgcggtcactgcag	5	7	11	18	2	1	0	1	0	0	0	2	0	2	0	5	2	6	4	5	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:91430551G>A	uc002bpv.2	+	5	715	c.619G>A	c.(619-621)GGC>AGC	p.G207S	FES_uc010uqj.1_Missense_Mutation_p.G149S|FES_uc010uqk.1_Missense_Mutation_p.G189S|FES_uc002bpw.2_RNA|FES_uc010bny.2_Missense_Mutation_p.G149S|FES_uc002bpx.2_Missense_Mutation_p.G207S|FES_uc002bpy.2_Missense_Mutation_p.G149S	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	207	Important for interaction with membranes containing phosphoinositides.				axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			CCTGCTGCCCGGCCTGCTGCG	0.672													19	59					0	0	1	0	0		A	91430551	A	A	91430551	3	1	84	1	0	0	0	0	1	0	0	0	5834	1116	39	1	633	1	FES	15	91430551	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	413221	91430551	11100841	1066	52909											
ST8SIA2	8128	broad.mit.edu	37	chr15	93007591	93007591	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggctttgaaactgactgtCggccagtgcgatggggccac	7	8	16	10	2	0	2	0	2	0	0	1	3	0	2	2	5	2	1	2	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:93007591C>T	uc002bra.2	+	6	1259	c.1104C>T	c.(1102-1104)GTC>GTT	p.V368V	ST8SIA2_uc002brb.2_Silent_p.V347V	NM_006011	NP_006002	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide	368	Lumenal (Potential).				axon guidance|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity				0	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			AACTGACTGTCGGCCAGTGCG	0.602													32	129					0	0	1	0	0		T	93007591	T	T	93007591	2	4	84	1	0	0	0	0	0	0	0	1	15257	871	31	1		1	ST8SIA2	15	93007591	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1577040	93007591	9523801	1067	52910											
ASB7	140460	broad.mit.edu	37	chr15	101152540	101152540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctagaacaaggctattcccCgaatggccgagatgcgaatg	12	7	12	10	3	0	2	0	0	0	2	1	5	1	2	3	2	2	2	3	2	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr15:101152540C>T	uc002bwk.2	+	4	888	c.119C>T	c.(118-120)CCG>CTG	p.P40L	ASB7_uc002bwj.2_Missense_Mutation_p.P40L	NM_198243	NP_937886	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box-containing protein 7	40	ANK 1.				intracellular signal transduction					skin(1)	1	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			GGCTATTCCCCGAATGGCCGA	0.527													32	82					0	0	1	0	0		T	101152540	T	T	101152540	3	4	84	1	0	0	0	0	1	0	0	0	1029	652	23	1	121	1	ASB7	15	101152540	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	8144949	101152540	1378852	1068	52911											
RHBDF1	64285	broad.mit.edu	37	chr16	111619	111619	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcgagaagcccacgggCgcgatgccatagatgcacac	10	5	13	13	4	0	2	0	0	0	2	0	4	0	2	2	1	5	2	2	1	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:111619C>T	uc002cfl.3	-	12	1432	c.1284G>A	c.(1282-1284)GCG>GCA	p.A428A	RHBDF1_uc010uty.1_Silent_p.A451A|RHBDF1_uc010utz.1_Silent_p.A428A|RHBDF1_uc010bqo.1_RNA	NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	428	Helical; (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				AGCCCACGGGCGCGATGCCAT	0.667													24	67					0	0	1	0	0		T	111619	T	T	111619	2	4	84	1	0	0	0	0	0	0	0	1	13344	755	27	1		1	RHBDF1	16	111619	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08		111619	90243134	1069	52912											
RHBDF1	64285	broad.mit.edu	37	chr16	113084	113084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaggagcagagggaggCagcacccggcgtgacgggag	11	1	21	8	3	0	3	0	1	0	2	0	7	0	6	1	6	2	3	1	6	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:113084C>T	uc002cfl.3	-	8	707	c.559G>A	c.(559-561)GCC>ACC	p.A187T	RHBDF1_uc010uty.1_Missense_Mutation_p.A210T|RHBDF1_uc010utz.1_Missense_Mutation_p.A187T|RHBDF1_uc010bqo.1_RNA	NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	187	Cytoplasmic (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				CAGAGGGAGGCAGCACCCGGC	0.692													9	14					0	0	1	0	0		T	113084	T	T	113084	3	4	84	1	0	0	0	0	1	0	0	0	13344	710	25	2	2064	2	RHBDF1	16	113084	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1465	113084	90241669	1070	52913											
NPRL3	8131	broad.mit.edu	37	chr16	167353	167353	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtaggtgcttccctcttcgGggaaggatctgttttggaga	7	13	14	7	1	2	1	0	0	2	1	4	4	3	3	1	5	1	3	1	5	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:167353G>T	uc002cfr.2	-	5	439	c.340C>A	c.(340-342)CCG>ACG	p.P114T	NPRL3_uc010uua.1_Intron|NPRL3_uc002cfp.1_RNA|NPRL3_uc002cfq.2_Intron|NPRL3_uc010uub.1_Intron|NPRL3_uc010uuc.1_Missense_Mutation_p.P36T|NPRL3_uc002cfs.1_Intron	NM_001077350	NP_001070818	Q12980	NPRL3_HUMAN	conserved gene telomeric to alpha globin cluster	114							protein binding			ovary(1)	1						TCCCTCTTCGGGGAAGGATCT	0.403													9	17					0.335167	0.335553	1	1	0		T	167353	T	T	167353	3	4	84	1	0	0	0	0	1	0	0	0	10617	1232	43	5	1408	5	NPRL3	16	167353	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	54269	167353	90187400	1071	52914											
DECR2	26063	broad.mit.edu	37	chr16	457533	457533	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaccaggctctgaaggagTttggcagaatcgacattctc	10	10	12	9	1	2	2	0	1	2	1	4	5	2	4	1	4	0	3	1	4	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:457533T>C	uc002chb.2	+	4	416	c.310T>C	c.(310-312)TTT>CTT	p.F104L	DECR2_uc002chc.2_Missense_Mutation_p.F20L|DECR2_uc010bqv.2_Missense_Mutation_p.F20L|DECR2_uc002chd.2_Missense_Mutation_p.F20L|DECR2_uc002che.1_RNA	NM_020664	NP_065715	Q9NUI1	DECR2_HUMAN	2,4-dienoyl CoA reductase 2	104						peroxisome	2,4-dienoyl-CoA reductase (NADPH) activity|binding				0		Hepatocellular(16;0.00015)				TCTGAAGGAGTTTGGCAGAAT	0.607													30	63					0	0	1	0	0		C	457533	C	C	457533	3	2	84	1	0	0	0	0	1	0	0	0	4386	1725	60	3	324	3	DECR2	16	457533	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	290180	457533	89897220	1072	52915											
STUB1	10273	broad.mit.edu	37	chr16	731318	731318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgccagctggagatggagaGctatgatgaggccatcgcca	10	7	15	9	1	0	4	0	2	0	2	1	6	0	4	3	3	3	2	3	3	1	1	rs148553428	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:731318G>A	uc002cit.2	+	2	737	c.326G>A	c.(325-327)AGC>AAC	p.S109N	STUB1_uc002ciu.2_Missense_Mutation_p.S37N|STUB1_uc010bqz.2_RNA|STUB1_uc002civ.2_RNA	NM_005861	NP_005852	Q9UNE7	CHIP_HUMAN	STIP1 homology and U-box containing protein 1	109	TPR 3.				cellular response to misfolded protein|DNA repair|misfolded or incompletely synthesized protein catabolic process|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein K63-linked ubiquitination|protein maturation|regulation of glucocorticoid metabolic process|ubiquitin-dependent SMAD protein catabolic process	cytoplasm|nuclear inclusion body|ubiquitin conjugating enzyme complex|ubiquitin ligase complex	Hsp70 protein binding|Hsp90 protein binding|kinase binding|misfolded protein binding|protein binding, bridging|protein homodimerization activity|SMAD binding|TPR domain binding|ubiquitin-ubiquitin ligase activity				0		Hepatocellular(780;0.00335)				GAGATGGAGAGCTATGATGAG	0.672													14	30					0	0	1	0	0		A	731318	A	A	731318	3	1	84	1	0	0	0	0	1	0	0	0	15360	971	34	2	332	2	STUB1	16	731318	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	273785	731318	89623435	1073	52916											
WDR24	84219	broad.mit.edu	37	chr16	739373	739373	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attggtggctgctgtggccaGcaggttctcatccatctggt	5	13	13	10	0	2	0	1	0	2	0	4	0	3	0	2	5	2	4	2	5	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:739373G>A	uc002ciz.1	-	1	1028	c.268C>T	c.(268-270)CTG>TTG	p.L90L		NM_032259	NP_115635	Q96S15	WDR24_HUMAN	WD repeat domain 24	152	WD 1.									ovary(1)|central_nervous_system(1)	2		Hepatocellular(780;0.0218)				GCTGTGGCCAGCAGGTTCTCA	0.602													10	52					0	0	1	0	0		A	739373	A	A	739373	2	1	84	1	0	0	0	0	0	0	0	1	17307	962	34	2		2	WDR24	16	739373	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	8055	739373	89615380	1074	52917											
CHTF18	63922	broad.mit.edu	37	chr16	847077	847077	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcacatcatgaggcgagcGgcccgggaggaacaggtgtg	10	4	18	9	3	1	1	1	1	0	0	1	5	1	3	1	5	3	1	1	5	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:847077G>A	uc002cke.3	+	20	2781	c.2718G>A	c.(2716-2718)GCG>GCA	p.A906A	CHTF18_uc002ckf.3_Silent_p.A934A|CHTF18_uc010brf.2_Silent_p.A488A|CHTF18_uc002ckg.3_Silent_p.A424A	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	906					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity			kidney(1)	1		Hepatocellular(780;0.00335)				TGAGGCGAGCGGCCCGGGAGG	0.667													25	60					0	0	1	0	0		A	847077	A	A	847077	2	1	84	1	0	0	0	0	0	0	0	1	3417	1103	39	1		1	CHTF18	16	847077	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	107704	847077	89507676	1075	52918											
SSTR5	6755	broad.mit.edu	37	chr16	1129911	1129911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcaggaggccacgcCacccgcgcaccgcgccgcag	8	0	14	19	6	0	0	0	0	0	0	0	1	0	1	5	2	2	5	5	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:1129911C>T	uc002ckq.2	+	1	1131	c.1043C>T	c.(1042-1044)CCA>CTA	p.P348L	LOC146336_uc002cko.2_5'Flank|LOC146336_uc002ckp.1_5'Flank	NM_001053	NP_001044	P35346	SSR5_HUMAN	somatostatin receptor 5	348	Cytoplasmic (Potential).			PPAHR -> RPRT (in Ref. 1; AAA20828).	negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			lung(1)	1		Hepatocellular(780;0.00369)			Octreotide(DB00104)	GAGGCCACGCCACCCGCGCAC	0.701													7	17					0	0	1	0	0		T	1129911	T	T	1129911	3	4	84	1	0	0	0	0	1	0	0	0	15226	594	21	4	1045	4	SSTR5	16	1129911	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	282834	1129911	89224842	1076	52919											
HAGH	3029	broad.mit.edu	37	chr16	1866933	1866933	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccggatggcggcattgccGggctccacgtggcgtgcaaa	6	7	15	13	5	0	0	0	0	0	0	2	1	2	1	3	5	2	3	3	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:1866933G>A	uc002cna.2	-	7	1115	c.708C>T	c.(706-708)CCC>CCT	p.P236P	HAGH_uc002cmz.2_Silent_p.P188P|HAGH_uc010uvp.1_Missense_Mutation_p.P200L|HAGH_uc002cnb.1_Silent_p.P188P	NM_005326	NP_005317	Q16775	GLO2_HUMAN	hydroxyacylglutathione hydrolase isoform 1	236					glutathione biosynthetic process	cytoplasm|mitochondrial matrix|mitochondrial matrix	hydroxyacylglutathione hydrolase activity|zinc ion binding			ovary(1)	1		Hepatocellular(780;0.00335)			Glutathione(DB00143)	CGGCATTGCCGGGCTCCACGT	0.627													13	45					0	0	1	0	0		A	1866933	A	A	1866933	2	1	84	1	0	0	0	0	0	0	0	1	6961	1103	39	1		1	HAGH	16	1866933	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	737022	1866933	88487820	1077	52920											
TBL3	10607	broad.mit.edu	37	chr16	2024963	2024963	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccggaccctacacgcctgCtgctcttctcctcggccacg	5	8	8	20	4	2	0	0	0	2	0	4	1	2	1	5	2	3	2	5	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:2024963C>T	uc002cnu.1	+	7	601	c.499C>T	c.(499-501)CTG>TTG	p.L167L	TBL3_uc002cnv.1_Silent_p.L53L|TBL3_uc010bsb.1_5'UTR|TBL3_uc010bsc.1_Silent_p.L53L|TBL3_uc010uvt.1_5'UTR|TBL3_uc002cnw.1_5'Flank	NM_006453	NP_006444	Q12788	TBL3_HUMAN	transducin beta-like 3	167	WD 3.				G-protein signaling, coupled to cGMP nucleotide second messenger|rRNA processing	nucleolus|small-subunit processome	receptor signaling protein activity				0						TACACGCCTGCTGCTCTTCTC	0.682													34	126					0	0	1	0	0		T	2024963	T	T	2024963	2	4	84	1	0	0	0	0	0	0	0	1	15668	796	28	2		2	TBL3	16	2024963	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	158030	2024963	88329790	1078	52921											
ZSCAN10	84891	broad.mit.edu	37	chr16	3139545	3139545	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcggcagggcttctcGcccgtgtggctgcgctggtg	2	9	17	13	4	1	0	0	0	1	0	2	0	1	0	1	4	3	5	1	4	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:3139545G>A	uc002ctv.1	-	5	1813	c.1725C>T	c.(1723-1725)GGC>GGT	p.G575G	ZSCAN10_uc002cty.1_Silent_p.G236G|ZSCAN10_uc002ctw.1_Silent_p.G493G|ZSCAN10_uc002ctx.1_Silent_p.G503G	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	575					negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						AGGGCTTCTCGCCCGTGTGGC	0.711													4	15					0	0	1	0	0		A	3139545	A	A	3139545	2	1	84	1	0	0	0	0	0	0	0	1	18252	1074	38	1		1	ZSCAN10	16	3139545	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1114582	3139545	87215208	1079	52922											
OR1F1	4992	broad.mit.edu	37	chr16	3254621	3254621	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctatgaccactttgtcgcCgtgtgccaccccttacatta	7	12	7	15	2	0	1	0	1	0	0	1	1	0	1	6	0	2	0	6	0	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:3254621C>T	uc010uwu.1	+	1	375	c.375C>T	c.(373-375)GCC>GCT	p.A125A		NM_012360	NP_036492	O43749	OR1F1_HUMAN	olfactory receptor, family 1, subfamily F,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACTTTGTCGCCGTGTGCCACC	0.502													47	164					0	0	1	0	0		T	3254621	T	T	3254621	2	4	84	1	0	0	0	0	0	0	0	1	10975	639	23	1		1	OR1F1	16	3254621	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	115076	3254621	87100132	1080	52923											
VASN	114990	broad.mit.edu	37	chr16	4431967	4431967	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgcccaccacgaggccCgtggtgcgggagcccacagc	8	3	14	16	3	0	0	0	0	0	0	0	2	0	1	4	3	4	0	4	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:4431967C>T	uc002cwj.1	+	2	1244	c.1089C>T	c.(1087-1089)CCC>CCT	p.P363P	CORO7_uc002cwe.2_Intron|CORO7_uc002cwf.2_Intron|CORO7_uc002cwg.3_Intron|CORO7_uc002cwh.3_Intron|CORO7_uc010uxh.1_Intron|CORO7_uc010uxi.1_Intron|CORO7_uc002cwi.1_Intron|CORO7_uc010uxj.1_Intron|CORO7_uc010btp.1_Intron	NM_138440	NP_612449	Q6EMK4	VASN_HUMAN	slit-like 2 precursor	363	Extracellular (Potential).					extracellular region|integral to membrane					0						CCACGAGGCCCGTGGTGCGGG	0.687													7	28					0	0	1	0	0		T	4431967	T	T	4431967	2	4	84	1	0	0	0	0	0	0	0	1	17153	639	23	1		1	VASN	16	4431967	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1177346	4431967	85922786	1081	52924											
C16orf71	146562	broad.mit.edu	37	chr16	4790616	4790616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagctcccagatccaaaatgCccctcgtggagcctccggag	9	6	10	16	2	0	1	0	0	0	1	4	3	3	3	6	2	3	1	6	2	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:4790616C>T	uc002cxn.2	+	4	1201	c.739C>T	c.(739-741)CCC>TCC	p.P247S		NM_139170	NP_631909	Q8IYS4	CP071_HUMAN	hypothetical protein LOC146562	247										central_nervous_system(1)	1						ATCCAAAATGCCCCTCGTGGA	0.657													15	80					0	0	1	0	0		T	4790616	T	T	4790616	3	4	84	1	0	0	0	0	1	0	0	0	1833	739	26	2	749	2	C16orf71	16	4790616	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	358649	4790616	85564137	1082	52925											
PPL	5493	broad.mit.edu	37	chr16	4944524	4944524	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatcacaaaacacacggcCggagcaatcagcttgttccc	12	6	10	13	2	2	0	2	0	0	0	3	2	3	2	2	3	3	3	2	3	3	2	rs141007351		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:4944524C>T	uc002cyd.1	-	12	1428	c.1338G>A	c.(1336-1338)CCG>CCA	p.P446P		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	446	Spectrin 2.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						AACACACGGCCGGAGCAATCA	0.632													27	67					0	0	1	0	0		T	4944524	T	T	4944524	2	4	84	1	0	0	0	0	0	0	0	1	12356	639	23	1		1	PPL	16	4944524	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	153908	4944524	85410229	1083	52926											
CIITA	4261	broad.mit.edu	37	chr16	11000684	11000684	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggccggcttccccagtaCgactttgtcttctctgtccc	3	14	9	15	2	2	0	0	0	2	0	5	1	4	0	4	2	1	2	4	2	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:11000684C>T	uc002dai.3	+	11	1468	c.1335C>T	c.(1333-1335)TAC>TAT	p.Y445Y	CIITA_uc002daj.3_Silent_p.Y446Y|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Silent_p.Y445Y|CIITA_uc002dah.2_Silent_p.Y397Y|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	445	NACHT.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						TTCCCCAGTACGACTTTGTCT	0.622			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								45	108					0	0	1	0	0		T	11000684	T	T	11000684	2	4	84	1	0	0	0	0	0	0	0	1	3431	547	19	1		1	CIITA	16	11000684	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	6056160	11000684	79354069	1084	52927											
TXNDC11	51061	broad.mit.edu	37	chr16	11785753	11785753	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctggagaaggagtgccaCtggggcagcaccacagtgtt	9	7	15	10	0	0	1	0	0	0	1	1	3	1	2	3	4	2	3	3	4	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:11785753C>T	uc010buu.1	-	9	1436	c.1374G>A	c.(1372-1374)CAG>CAA	p.Q458Q	TXNDC11_uc002dbg.1_Silent_p.Q431Q	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	458					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						AGGAGTGCCACTGGGGCAGCA	0.642													31	62					0	0	1	0	0		T	11785753	T	T	11785753	2	4	84	1	0	0	0	0	0	0	0	1	16818	564	20	4		4	TXNDC11	16	11785753	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	785069	11785753	78569000	1085	52928											
RUNDC2A	84127	broad.mit.edu	37	chr16	12136881	12136881	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcgctgtgccctcaacgaAcactccctggagcgctacct	7	8	9	17	3	1	0	1	0	0	0	2	2	2	1	3	1	6	2	3	1	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:12136881A>T	uc002dbw.1	+	5	437	c.375A>T	c.(373-375)GAA>GAT	p.E125D		NM_032167	NP_115543	Q9HA26	RUN2A_HUMAN	RUN domain containing 2A	125	RUN.									ovary(1)	1						CCCTCAACGAACACTCCCTGG	0.622			T	CIITA	PMBL|Hodgkin Lymphona|								13	42					0	0	1	0	0		T	12136881	T	T	12136881	3	4	84	1	0	0	0	0	1	0	0	0	13768	40	2	5	393	5	RUNDC2A	16	12136881	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	351128	12136881	78217872	1086	52929											
SNX29	92017	broad.mit.edu	37	chr16	12223537	12223537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagcactcagccgcgctccGgcaagaggtggacaccttga	9	5	14	13	3	1	2	1	1	0	1	2	4	2	4	3	4	2	3	3	4	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:12223537G>A	uc002dby.3	+	6	418	c.362G>A	c.(361-363)CGG>CAG	p.R121Q	SNX29_uc010uyx.1_Missense_Mutation_p.R148Q	NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	121	Potential.				cell communication		phosphatidylinositol binding			ovary(1)	1						GCCGCGCTCCGGCAAGAGGTG	0.607													8	18					0	0	1	0	0		A	12223537	A	A	12223537	3	1	84	1	0	0	0	0	1	0	0	0	14923	1116	39	1	380	1	SNX29	16	12223537	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	86656	12223537	78131216	1087	52930											
MYH11	4629	broad.mit.edu	37	chr16	15818575	15818575	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctcgtccagctggtcttGcaggctgttccgctcctcct	2	13	9	17	2	1	0	0	0	1	0	7	0	6	0	5	2	2	5	5	2	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:15818575G>A	uc002ddy.2	-	30	4152	c.4045C>T	c.(4045-4047)CAA>TAA	p.Q1349*	MYH11_uc002ddv.2_Nonsense_Mutation_p.Q1356*|MYH11_uc002ddw.2_Nonsense_Mutation_p.Q1349*|MYH11_uc002ddx.2_Nonsense_Mutation_p.Q1356*|MYH11_uc010bvg.2_Nonsense_Mutation_p.Q1181*|NDE1_uc010uzy.1_3'UTR|NDE1_uc002dds.2_3'UTR|MYH11_uc010bvh.2_Nonsense_Mutation_p.Q55*|NDE1_uc002ddz.1_RNA	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1349	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						AGCTGGTCTTGCAGGCTGTTC	0.582			T	CBFB	AML								54	168					0	0	1	0	0		A	15818575	A	A	15818575	4	1	84	1	0	0	0	0	0	1	0	0	10049	1328	46	2	1956	2	MYH11	16	15818575	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3595038	15818575	74536178	1088	52931											
ABCC6	368	broad.mit.edu	37	chr16	16259624	16259624	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggaatgtccacgtcaacCgtgtctgtctccttggagaa	8	12	10	11	2	4	1	1	0	3	1	6	3	5	2	3	2	1	0	3	2	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:16259624C>T	uc002den.3	-	23	3199	c.3162G>A	c.(3160-3162)ACG>ACA	p.T1054T	ABCC6_uc010bvo.2_RNA	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	1054	Cytoplasmic (By similarity).|ABC transmembrane type-1 2.				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		CCACGTCAACCGTGTCTGTCT	0.582													12	114					0	0	1	0	0		T	16259624	T	T	16259624	2	4	84	1	0	0	0	0	0	0	0	1	57	639	23	1		1	ABCC6	16	16259624	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	441049	16259624	74095129	1089	52932											
SMG1	23049	broad.mit.edu	37	chr16	18937330	18937330	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccgccgccgccgccgcTgctcagccgagaccccgggg	3	2	15	21	8	1	1	1	0	0	1	1	2	1	1	9	2	2	2	9	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:18937330T>C	uc002dfm.2	-	1	397	c.34A>G	c.(34-36)AGC>GGC	p.S12G		NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	12	Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						ccgccgccgctgcTCAGCCGA	0.627													3	17					0	0	1	0	0		C	18937330	C	C	18937330	3	2	84	1	0	0	0	0	1	0	0	0	14820	1580	55	3	11203	3	SMG1	16	18937330	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2677706	18937330	71417423	1090	52933											
GP2	2813	broad.mit.edu	37	chr16	20335392	20335392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctccttcccctacaaagCggtaccagccgctcatgttt	7	11	6	17	2	1	0	1	0	0	0	4	0	4	0	6	1	4	3	6	1	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:20335392C>T	uc002dgv.2	-	3	364	c.281G>A	c.(280-282)CGC>CAC	p.R94H	GP2_uc002dgw.2_Missense_Mutation_p.R94H|GP2_uc002dgx.2_Intron|GP2_uc002dgy.2_Intron	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	94						anchored to membrane|extracellular region|plasma membrane		p.R94S(1)		ovary(3)|skin(1)	4						CCCTACAAAGCGGTACCAGCC	0.582													31	85					0	0	1	0	0		T	20335392	T	T	20335392	3	4	84	1	0	0	0	0	1	0	0	0	6597	768	27	1	1372	1	GP2	16	20335392	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1398062	20335392	70019361	1091	52934											
ACSM2A	123876	broad.mit.edu	37	chr16	20481029	20481029	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgggtggctgaacttcaAgaaactactaaagtgagtat	14	11	11	5	0	1	4	1	3	0	1	1	4	1	4	0	2	3	2	0	2	7	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:20481029A>C	uc010bwe.2	+	5	823	c.584A>C	c.(583-585)AAG>ACG	p.K195T	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Missense_Mutation_p.K116T|ACSM2A_uc002dhf.3_Missense_Mutation_p.K195T|ACSM2A_uc002dhg.3_Missense_Mutation_p.K195T|ACSM2A_uc010vay.1_Missense_Mutation_p.K116T	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	195					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CTGAACTTCAAGAAACTACTA	0.269													11	194					0	0	1	0	0		C	20481029	C	C	20481029	3	2	84	1	0	0	0	0	1	0	0	0	183	72	3	5	594	5	ACSM2A	16	20481029	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	145637	20481029	69873724	1092	52935											
USP31	57478	broad.mit.edu	37	chr16	23091266	23091266	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagcctctcacactgcagaCctgtgtagtgccccccttgc	6	9	9	17	0	1	1	1	0	1	1	2	1	1	1	5	0	4	3	5	0	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:23091266C>T	uc002dll.2	-	13	2176	c.2176_splice	c.e13+1	p.A726_splice	USP31_uc010bxm.2_Intron	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31						ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		ACACTGCAGACCTGTGTAGTG	0.572													27	40					0	0	1	0	0		T	23091266	T	T	23091266	5	4	84	1	0	0	0	0	0	0	1	0	17088	521	18	4	1897	4	USP31	16	23091266	Splice_Site	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2610237	23091266	67263487	1093	52936											
TNRC6A	27327	broad.mit.edu	37	chr16	24828182	24828182	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttatccaaacattgaccCtgaaactgacccttacgtca	13	10	6	12	1	1	3	1	3	0	0	2	3	2	3	3	1	3	1	3	1	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:24828182C>A	uc002dmm.2	+	20	4991	c.4877C>A	c.(4876-4878)CCT>CAT	p.P1626H	TNRC6A_uc010bxs.2_Missense_Mutation_p.P1373H|TNRC6A_uc002dmn.2_Missense_Mutation_p.P1324H|TNRC6A_uc002dmo.2_Missense_Mutation_p.P1265H	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1626					negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		AACATTGACCCTGAAACTGAC	0.408													29	81					1.16021e-09	1.25222e-09	1	1	0		A	24828182	A	A	24828182	3	1	84	1	0	0	0	0	1	0	0	0	16365	681	24	5	4955	5	TNRC6A	16	24828182	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1736916	24828182	65526571	1094	52937											
ARHGAP17	55114	broad.mit.edu	37	chr16	24942149	24942149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgctgtgttggtgaggctgCtgtccccagctgagtggaca	5	11	16	9	0	0	2	0	2	0	0	1	3	1	3	2	3	3	5	2	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:24942149C>T	uc002dnb.2	-	19	2564	c.2471G>A	c.(2470-2472)AGC>AAC	p.S824N	ARHGAP17_uc002dmx.2_Missense_Mutation_p.S86N|ARHGAP17_uc002dmw.2_Missense_Mutation_p.S86N|ARHGAP17_uc002dmy.2_Missense_Mutation_p.S269N|ARHGAP17_uc002dmz.2_Missense_Mutation_p.S348N|ARHGAP17_uc002dna.2_Missense_Mutation_p.S551N|ARHGAP17_uc002dnc.2_Missense_Mutation_p.S746N|ARHGAP17_uc010vcf.1_Missense_Mutation_p.S567N|ARHGAP17_uc002dne.1_Missense_Mutation_p.S86N	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	824					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		GGTGAGGCTGCTGTCCCCAGC	0.557													75	208					0	0	1	0	0		T	24942149	T	T	24942149	3	4	84	1	0	0	0	0	1	0	0	0	867	797	28	2	182	2	ARHGAP17	16	24942149	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	113967	24942149	65412604	1095	52938											
KIAA0556	23247	broad.mit.edu	37	chr16	27710866	27710866	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttccaggatgcagaaggAccaccagcaaaaccatggac	14	5	9	13	0	0	1	0	0	0	1	2	4	2	4	5	3	3	2	5	3	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:27710866A>G	uc002dow.2	+	10	1149	c.1125A>G	c.(1123-1125)GGA>GGG	p.G375G	KIAA0556_uc002dox.1_Silent_p.G283G	NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	375										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						ATGCAGAAGGACCACCAGCAA	0.507													16	39					0	0	1	0	0		G	27710866	G	G	27710866	2	3	84	1	0	0	0	0	0	0	0	1	8199	262	10	3		3	KIAA0556	16	27710866	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2768717	27710866	62643887	1096	52939											
KIAA0556	23247	broad.mit.edu	37	chr16	27777751	27777751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgaaagcatcgcaggcctgCgcttctggaactacaataaa	13	7	9	12	3	1	0	0	0	1	0	2	2	1	1	2	2	4	3	2	2	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:27777751C>T	uc002dow.2	+	20	3955	c.3931C>T	c.(3931-3933)CGC>TGC	p.R1311C		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	1311										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						CGCAGGCCTGCGCTTCTGGAA	0.602													19	55					0	0	1	0	0		T	27777751	T	T	27777751	3	4	84	1	0	0	0	0	1	0	0	0	8199	768	27	1	4009	1	KIAA0556	16	27777751	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	66885	27777751	62577002	1097	52940											
ATP2A1	487	broad.mit.edu	37	chr16	28898955	28898955	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaacattggccacttcaaCgaccccgtccatgggggctc	9	8	9	15	2	2	0	2	0	0	0	4	1	3	0	4	3	2	1	4	3	2	2	rs145160426		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:28898955C>T	uc002dro.1	+	8	1024	c.840C>T	c.(838-840)AAC>AAT	p.N280N	uc010vct.1_Intron|ATP2A1_uc002drn.1_Silent_p.N280N|ATP2A1_uc002drp.1_Silent_p.N155N|ATP2A1_uc010bym.1_5'Flank	NM_173201	NP_775293	O14983	AT2A1_HUMAN	ATPase, Ca++ transporting, fast twitch 1 isoform	280	Lumenal (By similarity).				apoptosis in response to endoplasmic reticulum stress|apoptotic mitochondrial changes|ATP biosynthetic process|calcium ion import|elevation of endoplasmic reticulum calcium ion concentration|elevation of mitochondrial calcium ion concentration|maintenance of mitochondrion location|negative regulation of striated muscle contraction|platelet activation|positive regulation of fast-twitch skeletal muscle fiber contraction|reduction of endoplasmic reticulum calcium ion concentration|relaxation of skeletal muscle|response to endoplasmic reticulum stress	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|H zone|I band|microsome|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum|sarcoplasmic reticulum membrane	ATP binding|ATP binding|calcium ion binding|calcium ion binding|calcium-transporting ATPase activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCCACTTCAACGACCCCGTCC	0.577													38	159					0	0	1	0	0		T	28898955	T	T	28898955	2	4	84	1	0	0	0	0	0	0	0	1	1137	535	19	1		1	ATP2A1	16	28898955	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1121204	28898955	61455798	1098	52941											
LAT	27040	broad.mit.edu	37	chr16	28996808	28996808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccatcctggccatgttgatgGcactgtgtgtgcactgccac	6	11	11	13	0	0	1	0	1	0	0	1	1	1	1	4	2	2	3	4	2	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:28996808G>A	uc002dsd.2	+	1	422	c.70G>A	c.(70-72)GCA>ACA	p.A24T	uc010vct.1_Intron|SPNS1_uc010byq.1_3'UTR|LAT_uc010vdj.1_Missense_Mutation_p.A60T|LAT_uc002dsb.2_Missense_Mutation_p.A24T|LAT_uc002dsc.2_Missense_Mutation_p.A24T|LAT_uc010vdk.1_Missense_Mutation_p.A24T|LAT_uc010vdl.1_Missense_Mutation_p.A24T	NM_014387	NP_055202	O43561	LAT_HUMAN	linker for activation of T cells isoform a	24	Helical; Signal-anchor for type III membrane protein; (Potential).				calcium-mediated signaling|integrin-mediated signaling pathway|mast cell degranulation|platelet activation|Ras protein signal transduction|regulation of T cell activation|T cell receptor signaling pathway	immunological synapse|integral to membrane|intracellular|membrane raft	SH3/SH2 adaptor activity				0		Hepatocellular(780;0.244)				CATGTTGATGGCACTGTGTGT	0.662													24	44					0	0	1	0	0		A	28996808	A	A	28996808	3	1	84	1	0	0	0	0	1	0	0	0	8660	1203	42	2	184	2	LAT	16	28996808	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	97853	28996808	61357945	1099	52942											
SPN	6693	broad.mit.edu	37	chr16	29675057	29675057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgcctggaaatggccaCgcttctccttctccttgggg	4	14	11	12	1	2	0	0	0	2	0	4	1	2	1	4	4	1	2	4	4	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:29675057C>T	uc002dtm.2	+	2	144	c.8C>T	c.(7-9)ACG>ATG	p.T3M	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SPN_uc002dtn.2_Missense_Mutation_p.T3M|SPN_uc010bzd.2_RNA	NM_001030288	NP_001025459	P16150	LEUK_HUMAN	sialophorin precursor	3					blood coagulation|cellular defense response|chemotaxis|defense response to bacterium|establishment or maintenance of cell polarity|immune response|leukocyte migration|negative regulation of cell adhesion|positive regulation of tumor necrosis factor biosynthetic process	extracellular space|integral to plasma membrane	bacterial cell surface binding|transmembrane receptor activity			central_nervous_system(2)	2						GAAATGGCCACGCTTCTCCTT	0.632													76	225					0	0	1	0	0		T	29675057	T	T	29675057	3	4	84	1	0	0	0	0	1	0	0	0	15098	536	19	1	10	1	SPN	16	29675057	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	678249	29675057	60679696	1100	52943											
MAZ	4150	broad.mit.edu	37	chr16	29818097	29818097	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggactcccggggggtgggCggcctcatgaactccttccc	4	8	14	15	2	1	1	1	1	0	0	4	2	4	2	4	6	1	0	4	6	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:29818097C>T	uc002dty.2	+	1	243	c.75C>T	c.(73-75)GGC>GGT	p.G25G	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAZ_uc002dtv.1_Intron|MAZ_uc010vdx.1_Intron|MAZ_uc002dtw.2_Silent_p.G25G|MAZ_uc002dtx.2_Silent_p.G25G|MAZ_uc010bzg.2_Silent_p.G25G|MAZ_uc002dtz.1_5'Flank|MAZ_uc002dua.2_5'Flank|MAZ_uc010vdy.1_5'Flank	NM_002383	NP_002374	P56270	MAZ_HUMAN	MYC-associated zinc finger protein isoform 1	25					regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription|transcription initiation from RNA polymerase II promoter	nucleus	DNA binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1						GGGGGGTGGGCGGCCTCATGA	0.726													16	28					0	0	1	0	0		T	29818097	T	T	29818097	2	4	84	1	0	0	0	0	0	0	0	1	9358	755	27	1		1	MAZ	16	29818097	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	143040	29818097	60536656	1101	52944											
ZNF785	146540	broad.mit.edu	37	chr16	30594461	30594461	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgatgctggagcaggtacCtgcgctgggagaaacgcgcc	9	6	15	11	3	0	2	0	1	0	1	0	4	0	3	2	3	5	4	2	3	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:30594461C>A	uc002dyw.1	-	3	716	c.638G>T	c.(637-639)AGG>ATG	p.R213M	uc002dyu.2_RNA|ZNF785_uc002dyv.1_Missense_Mutation_p.R198M|ZNF785_uc010vez.1_Missense_Mutation_p.R178M	NM_152458	NP_689671	A8K8V0	ZN785_HUMAN	zinc finger protein 785	213	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GAGCAGGTACCTGCGCTGGGA	0.677													23	54					7.92952e-12	8.6712e-12	1	1	0		A	30594461	A	A	30594461	3	1	84	1	0	0	0	0	1	0	0	0	18182	681	24	5	583	5	ZNF785	16	30594461	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	776364	30594461	59760292	1102	52945											
BCL7C	9274	broad.mit.edu	37	chr16	30903991	30903991	+	Frame_Shift_Del	DEL	G	-	-																															tgacacagggcggctgggctGgggggtgcccccaggactgg																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:30903991delG	uc002dzv.2	-	4	492	c.358delC	c.(358-360)CAGfs	p.Q120fs	BCL7C_uc002dzt.1_Frame_Shift_Del_p.Q120fs|uc002dzu.2_Intron|MIR762_hsa-mir-762|MI0003892_5'Flank	NM_004765	NP_004756	Q8WUZ0	BCL7C_HUMAN	B-cell CLL/lymphoma 7C	120	Pro-rich.				apoptosis						0			Colorectal(24;0.198)			CGGCTGGGCTGGGGGGTGCCC	0.647													42	77	---	---	---	---						.	-	30903991	-	-	30903991	7	5	84	1	0	1	0	1	0	0	0	0	1381	1357	47	0	307	0	BCL7C	16	30903991	Frame_Shift_Del	DEL	G	TCGA-BR-8591-01A-11D-2394-08	309530	30903991	59450762	1103	52946											
STX1B	112755	broad.mit.edu	37	chr16	31004789	31004789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcgcctgcttcgtcatcTgtgagtccattttgatctag	6	15	9	11	2	4	2	2	2	2	0	6	2	5	2	2	0	2	1	2	0	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:31004789T>C	uc010cad.2	-	8	666	c.554A>G	c.(553-555)CAG>CGG	p.Q185R	STX1B_uc010vfd.1_Missense_Mutation_p.Q185R	NM_052874	NP_443106	P61266	STX1B_HUMAN	syntaxin 1B	185	Cytoplasmic (Potential).				intracellular protein transport|neurotransmitter transport|synaptic transmission	integral to plasma membrane	extracellular-glutamate-gated ion channel activity|SNAP receptor activity				0						CTTCGTCATCTGTGAGTCCAT	0.483													19	94					0	0	1	0	0		C	31004789	C	C	31004789	3	2	84	1	0	0	0	0	1	0	0	0	15369	1580	55	3	324	3	STX1B	16	31004789	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	100798	31004789	59349964	1104	52947											
PRSS53	339105	broad.mit.edu	37	chr16	31097788	31097788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgactgatgagacgcaggCgcagattgcgtagggtccca	9	6	16	10	4	0	3	0	2	0	2	1	5	1	3	1	3	1	3	1	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:31097788C>T	uc002eaq.2	-	5	533	c.533G>A	c.(532-534)CGC>CAC	p.R178H	PRSS53_uc002ear.2_5'UTR	NM_001039503	NP_001034592	Q2L4Q9	PRS53_HUMAN	polyserase 3 precursor	178	Peptidase S1 1.				proteolysis	extracellular region	serine-type endopeptidase activity				0						GAGACGCAGGCGCAGATTGCG	0.617													12	54					0	0	1	0	0		T	31097788	T	T	31097788	3	4	84	1	0	0	0	0	1	0	0	0	12654	768	27	1	1156	1	PRSS53	16	31097788	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	92999	31097788	59256965	1105	52948											
TRIM72	493829	broad.mit.edu	37	chr16	31235606	31235606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagaaggcgccgccggccGgggaggacccgcgccagttc	7	2	17	15	6	0	1	0	0	0	1	1	3	0	3	5	5	1	2	5	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:31235606G>A	uc002ebn.1	+	7	1193	c.964G>A	c.(964-966)GGG>AGG	p.G322R	uc002ebp.1_5'Flank	NM_001008274	NP_001008275	Q6ZMU5	TRI72_HUMAN	tripartite motif-containing 72	322	B30.2/SPRY.				exocytosis|muscle organ development|muscle system process|plasma membrane repair|protein homooligomerization	cytoplasmic vesicle membrane|sarcolemma	phosphatidylserine binding|zinc ion binding				0						GCCGCCGGCCGGGGAGGACCC	0.701													6	17					0	0	1	0	0		A	31235606	A	A	31235606	3	1	84	1	0	0	0	0	1	0	0	0	16571	1116	39	1	986	1	TRIM72	16	31235606	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	137818	31235606	59119147	1106	52949											
ABCC11	85320	broad.mit.edu	37	chr16	48256660	48256660	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacacattcggagagaaaaAgggcaaagcagagtcccact	16	5	10	10	1	1	2	1	0	0	2	3	4	2	3	1	2	1	2	1	2	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:48256660A>G	uc002eff.1	-	5	976	c.626T>C	c.(625-627)CTT>CCT	p.L209P	ABCC11_uc002efg.1_Missense_Mutation_p.L209P|ABCC11_uc002efh.1_Missense_Mutation_p.L209P|ABCC11_uc010vgl.1_Missense_Mutation_p.L209P	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	209	ABC transmembrane type-1 1.|Helical; (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				GGAGAGAAAAAGGGCAAAGCA	0.468									Cerumen_Type				6	65					0	0	1	0	0		G	48256660	G	G	48256660	3	3	84	1	0	0	0	0	1	0	0	0	51	72	3	3	3622	3	ABCC11	16	48256660	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	17021054	48256660	42098093	1107	52950											
ZNF423	23090	broad.mit.edu	37	chr16	49671222	49671222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agagccgctgccgcttcgggGaagacacctccacatcggac	9	5	12	15	4	0	2	0	0	0	2	3	4	1	4	4	3	2	2	4	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:49671222G>A	uc002efs.2	-	5	2139	c.1841C>T	c.(1840-1842)TCC>TTC	p.S614F	ZNF423_uc010vgn.1_Missense_Mutation_p.S497F	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	614					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				CCGCTTCGGGGAAGACACCTC	0.552													5	97					0	0	1	0	0		A	49671222	A	A	49671222	3	1	84	1	0	0	0	0	1	0	0	0	17923	1174	41	4	2033	4	ZNF423	16	49671222	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1414562	49671222	40683531	1108	52951											
CYLD	1540	broad.mit.edu	37	chr16	50785686	50785686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggggacacaatgcaggtcGaacttcctcctttggaaata	11	10	10	10	1	0	0	0	0	0	0	3	3	2	2	2	4	2	1	2	4	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:50785686G>A	uc002egp.1	+	5	1091	c.676G>A	c.(676-678)GAA>AAA	p.E226K	CYLD_uc002egn.1_Missense_Mutation_p.E226K|CYLD_uc002ego.2_Missense_Mutation_p.E226K|CYLD_uc010cbs.1_Missense_Mutation_p.E226K|CYLD_uc002egq.1_Missense_Mutation_p.E226K|CYLD_uc002egr.1_Missense_Mutation_p.E226K|CYLD_uc002egs.1_Missense_Mutation_p.E226K	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	226	Interaction with TRIP.				cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				AATGCAGGTCGAACTTCCTCC	0.418			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				13	60					0	0	1	0	0		A	50785686	A	A	50785686	3	1	84	1	0	0	0	0	1	0	0	0	4146	1059	37	1	682	1	CYLD	16	50785686	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1114464	50785686	39569067	1109	52952											
IRX6	79190	broad.mit.edu	37	chr16	55359040	55359040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggacacccgtaccgcggcGcttcccaggtaagaggcgcc	7	6	13	15	5	0	1	0	0	0	1	1	2	1	2	4	4	1	3	4	4	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:55359040G>A	uc002ehy.2	+	1	570	c.37G>A	c.(37-39)GCT>ACT	p.A13T	IRX6_uc002ehx.2_Missense_Mutation_p.A13T|IRX6_uc010ccb.1_5'Flank	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	13						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						GTACCGCGGCGCTTCCCAGGT	0.627													19	25					0	0	1	0	0		A	55359040	A	A	55359040	3	1	84	1	0	0	0	0	1	0	0	0	7864	1087	38	1	39	1	IRX6	16	55359040	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4573354	55359040	34995713	1110	52953											
OGFOD1	55239	broad.mit.edu	37	chr16	56501132	56501132	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctataagtggctggtttcAtggtccatcattgactcggc	7	14	11	9	1	3	1	2	1	1	0	5	1	4	1	1	4	0	2	1	4	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:56501132A>G	uc002ejb.2	+	7	814	c.713A>G	c.(712-714)CAT>CGT	p.H238R	OGFOD1_uc002ejc.2_Missense_Mutation_p.H98R	NM_018233	NP_060703	Q8N543	OGFD1_HUMAN	2-oxoglutarate and iron-dependent oxygenase	238	Fe2OG dioxygenase.						iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)	1					Vitamin C(DB00126)	GGCTGGTTTCATGGTCCATCA	0.478													46	122					0	0	1	0	0		G	56501132	G	G	56501132	3	3	84	1	0	0	0	0	1	0	0	0	10860	217	8	3	739	3	OGFOD1	16	56501132	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1142092	56501132	33853621	1111	52954											
CETP	1071	broad.mit.edu	37	chr16	56996925	56996925	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgccctcccctctagtgaAccacgagactgccaaggtga	10	7	9	15	1	1	3	0	2	1	1	2	4	2	3	5	1	3	0	5	1	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:56996925A>G	uc002eki.2	+	2	179	c.122A>G	c.(121-123)AAC>AGC	p.N41S	CETP_uc002ekj.2_Missense_Mutation_p.N41S	NM_000078	NP_000069	P11597	CETP_HUMAN	cholesteryl ester transfer protein, plasma	41					cholesterol homeostasis|cholesterol metabolic process|high-density lipoprotein particle remodeling|lipoprotein metabolic process|low-density lipoprotein particle remodeling|phosphatidylcholine metabolic process|phospholipid homeostasis|receptor-mediated endocytosis|regulation of cholesterol efflux|triglyceride homeostasis|triglyceride metabolic process|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle|vesicle	cholesterol binding|cholesterol transporter activity|phosphatidylcholine binding|phospholipid transporter activity|triglyceride binding			central_nervous_system(1)|skin(1)	2						CCTCTAGTGAACCACGAGACT	0.612													20	45					0	0	1	0	0		G	56996925	G	G	56996925	3	3	84	1	0	0	0	0	1	0	0	0	3280	43	2	3	128	3	CETP	16	56996925	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	495793	56996925	33357828	1112	52955											
NLRC5	84166	broad.mit.edu	37	chr16	57054733	57054733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaagatgaagttcttcctcCccaacacggacctggattcc	10	9	7	15	1	1	2	0	1	1	1	4	4	4	4	6	2	1	1	6	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:57054733C>T	uc002ekk.1	+	3	334	c.109C>T	c.(109-111)CCC>TCC	p.P37S	NLRC5_uc010ccq.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	37					defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				GTTCTTCCTCCCCAACACGGA	0.557													19	73					0	0	1	0	0		T	57054733	T	T	57054733	3	4	84	1	0	0	0	0	1	0	0	0	10489	623	22	4	111	4	NLRC5	16	57054733	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	57808	57054733	33300020	1113	52956											
NLRC5	84166	broad.mit.edu	37	chr16	57095358	57095358	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctggctttctgccctcAggctaagtgagtgcagcttc	5	12	11	13	0	2	1	1	1	1	0	3	1	2	1	2	2	4	4	2	2	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:57095358A>G	uc002ekk.1	+	31	4212	c.3987_splice	c.e31-2	p.R1329_splice	NLRC5_uc002ekn.2_Splice_Site_p.R990_splice|NLRC5_uc002ekl.2_Splice_Site_p.R1133_splice|NLRC5_uc002ekm.2_Splice_Site_p.R1103_splice|NLRC5_uc010ccr.1_Splice_Site|NLRC5_uc010ccs.1_Splice_Site|NLRC5_uc002eko.1_Splice_Site|NLRC5_uc002ekp.1_Splice_Site_p.R244_splice|NLRC5_uc002ekq.1_Splice_Site|NLRC5_uc002ekr.1_Splice_Site_p.R216_splice	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27						defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				TTCTGCCCTCAGGCTAAGTGA	0.647													15	43					0	0	1	0	0		G	57095358	G	G	57095358	5	3	84	1	0	0	0	0	0	0	1	0	10489	202	7	3	4099	3	NLRC5	16	57095358	Splice_Site	SNP	A	TCGA-BR-8591-01A-11D-2394-08	40625	57095358	33259395	1114	52957											
SETD6	79918	broad.mit.edu	37	chr16	58550381	58550381	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgtgggtgtccctgcaGgccagaggaggagcgccggt	5	7	20	9	2	0	1	0	0	0	1	1	3	1	3	3	6	2	1	3	6	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:58550381G>A	uc002ens.2	+	4	536	c.477_splice	c.e4-1	p.W159_splice	SETD6_uc010cdl.2_Splice_Site_p.W159_splice|SETD6_uc002enr.2_Splice_Site_p.W135_splice|SETD6_uc010cdm.2_Splice_Site|SETD6_uc010vij.1_Splice_Site_p.W83_splice	NM_001160305	NP_001153777	Q8TBK2	SETD6_HUMAN	SET domain containing 6 isoform a						negative regulation of NF-kappaB transcription factor activity|peptidyl-lysine monomethylation|regulation of inflammatory response	nucleus	NF-kappaB binding|protein-lysine N-methyltransferase activity			ovary(1)	1						TGTCCCTGCAGGCCAGAGGAG	0.617													44	128					0	0	1	0	0		A	58550381	A	A	58550381	5	1	84	1	0	0	0	0	0	0	1	0	14160	1014	35	4	490	4	SETD6	16	58550381	Splice_Site	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1455023	58550381	31804372	1115	52958											
CNOT1	23019	broad.mit.edu	37	chr16	58566207	58566207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcattgagttccaagagaagCatgataaaaattcgatggta	16	10	10	5	1	0	3	0	2	0	1	2	5	1	3	1	1	1	4	1	1	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:58566207C>T	uc002env.2	-	41	6281	c.5988G>A	c.(5986-5988)ATG>ATA	p.M1996I	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.M1991I|CNOT1_uc002ent.2_5'UTR|CNOT1_uc010vik.1_Missense_Mutation_p.M953I	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1996					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		CCAAGAGAAGCATGATAAAAA	0.408													14	41					0	0	1	0	0		T	58566207	T	T	58566207	3	4	84	1	0	0	0	0	1	0	0	0	3620	710	25	2	1178	2	CNOT1	16	58566207	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	15826	58566207	31788546	1116	52959											
CDH8	1006	broad.mit.edu	37	chr16	61891117	61891117	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgggtcatcagcgtcggtCgcagtgacgttagtgacaga	9	9	14	9	4	2	3	2	2	0	1	4	3	2	3	0	2	1	2	0	2	1	1	rs150771208	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:61891117C>T	uc002eog.1	-	4	825	c.573G>A	c.(571-573)GCG>GCA	p.A191A	CDH8_uc002eoh.2_5'UTR	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	191	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		CAGCGTCGGTCGCAGTGACGT	0.373													14	53					0	0	1	0	0		T	61891117	T	T	61891117	2	4	84	1	0	0	0	0	0	0	0	1	3119	871	31	1		1	CDH8	16	61891117	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3324910	61891117	28463636	1117	52960											
CES3	23491	broad.mit.edu	37	chr16	67006313	67006313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatcgacccagttcttttgCgaagatcaaacctgcctggg	9	10	10	12	2	2	1	1	0	1	1	3	3	2	1	3	1	3	2	3	1	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:67006313C>T	uc002eqt.2	+	11	1419	c.1346C>T	c.(1345-1347)GCG>GTG	p.A449V	CES3_uc010cdz.2_Missense_Mutation_p.A449V|CES3_uc010cea.2_RNA|CES3_uc010viw.1_Missense_Mutation_p.A88V	NM_024922	NP_079198	Q6UWW8	EST3_HUMAN	carboxylesterase 3 precursor	449						endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity			ovary(3)|central_nervous_system(2)	5		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0488)|Epithelial(162;0.127)		AGTTCTTTTGCGAAGATCAAA	0.537													95	257					0	0	1	0	0		T	67006313	T	T	67006313	3	4	84	1	0	0	0	0	1	0	0	0	3274	768	27	1	1388	1	CES3	16	67006313	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5115196	67006313	23348440	1118	52961											
SLC9A5	6553	broad.mit.edu	37	chr16	67298313	67298313	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcgcaggagcggcaggacaAggaggtcttccagcagaaca	12	4	15	10	2	1	1	0	0	1	1	2	4	2	4	1	5	4	3	1	5	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:67298313A>C	uc002esm.2	+	13	1964	c.1901A>C	c.(1900-1902)AAG>ACG	p.K634T	SLC9A5_uc010cee.2_Missense_Mutation_p.K339T|SLC9A5_uc010vji.1_Missense_Mutation_p.K138T	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	634					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		CGGCAGGACAAGGAGGTCTTC	0.572													6	51					0	0	1	0	0		C	67298313	C	C	67298313	3	2	84	1	0	0	0	0	1	0	0	0	14742	72	3	5	1951	5	SLC9A5	16	67298313	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	292000	67298313	23056440	1119	52962											
LRRC36	55282	broad.mit.edu	37	chr16	67418856	67418856	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaaagcgctcctgcctcCtgagaagggtcatcatctgg	8	8	13	12	2	3	1	2	1	1	1	5	3	5	2	3	3	2	1	3	3	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:67418856C>A	uc002esv.2	+	14	2148	c.2129C>A	c.(2128-2130)CCT>CAT	p.P710H	LRRC36_uc002esw.2_RNA|LRRC36_uc002esx.2_Missense_Mutation_p.P589H|LRRC36_uc010vjk.1_Missense_Mutation_p.P485H|LRRC36_uc010vjl.1_Missense_Mutation_p.P182H|LRRC36_uc002esy.2_Missense_Mutation_p.P220H	NM_018296	NP_060766	Q1X8D7	LRC36_HUMAN	leucine rich repeat containing 36 isoform 1	710											0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0669)|Epithelial(162;0.161)		CTCCTGCCTCCTGAGAAGGGT	0.512													16	62					1.15088e-07	1.22246e-07	1	1	0		A	67418856	A	A	67418856	3	1	84	1	0	0	0	0	1	0	0	0	9008	681	24	5	2211	5	LRRC36	16	67418856	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	120543	67418856	22935897	1120	52963											
CTRL	1506	broad.mit.edu	37	chr16	67965049	67965049	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaacactgcattctccccGttgacaatcctctggctgaa	9	10	6	16	1	2	2	0	2	2	0	4	2	3	2	4	1	2	3	4	1	3	2	rs146079104	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:67965049G>A	uc002euw.2	-	2	118	c.108C>T	c.(106-108)AAC>AAT	p.N36N		NM_001907	NP_001898	P40313	CTRL_HUMAN	chymotrypsin-like precursor	36	Peptidase S1.				digestion|proteolysis	extracellular space	serine-type endopeptidase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)		CATTCTCCCCGTTGACAATCC	0.622													26	72					0	0	1	0	0		A	67965049	A	A	67965049	2	1	84	1	0	0	0	0	0	0	0	1	4031	1136	40	1		1	CTRL	16	67965049	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	546193	67965049	22389704	1121	52964											
SMPD3	55512	broad.mit.edu	37	chr16	68405291	68405291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagctccgttcctggcctggCccccaggcacagggtcgtca	5	7	12	17	2	1	0	1	0	0	0	4	0	3	0	5	4	1	3	5	4	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:68405291C>T	uc002ewa.2	-	3	1216	c.794G>A	c.(793-795)GGC>GAC	p.G265D	SMPD3_uc010cfe.2_Missense_Mutation_p.G265D|SMPD3_uc010vlh.1_Missense_Mutation_p.G265D	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	265	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	CCTGGCCTGGCCCCCAGGCAC	0.711													14	32					0	0	1	0	0		T	68405291	T	T	68405291	3	4	84	1	0	0	0	0	1	0	0	0	14831	739	26	2	1201	2	SMPD3	16	68405291	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	440242	68405291	21949462	1122	52965											
ZFP90	146198	broad.mit.edu	37	chr16	68597621	68597621	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ataccggagagaaaccctatCagtgtagtctctgtgggaaa	13	9	11	8	1	2	1	1	0	1	1	3	4	2	3	2	2	2	1	2	2	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:68597621C>T	uc010cff.2	+	5	1223	c.931C>T	c.(931-933)CAG>TAG	p.Q311*	ZFP90_uc002ewb.2_Silent_p.I116I|ZFP90_uc002ewc.2_Silent_p.I116I|ZFP90_uc002ewd.2_Nonsense_Mutation_p.Q311*|ZFP90_uc002ewe.2_Nonsense_Mutation_p.Q311*	NM_133458	NP_597715	Q8TF47	ZFP90_HUMAN	zinc finger protein 90	311	C2H2-type 4.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00233)|Epithelial(162;0.0184)|all cancers(182;0.0946)		GAAACCCTATCAGTGTAGTCT	0.488													18	54					0	0	1	0	0		T	68597621	T	T	68597621	4	4	84	1	0	0	0	0	0	1	0	0	17679	827	29	4	945	4	ZFP90	16	68597621	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	192330	68597621	21757132	1123	52966											
PDPR	55066	broad.mit.edu	37	chr16	70172860	70172860	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacgtttgggaattggacCtgaaacgttttggagccctc	11	11	11	8	2	0	1	0	1	0	0	1	4	0	4	2	3	3	2	2	3	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:70172860C>T	uc002eyf.1	+	11	2206	c.1249C>T	c.(1249-1251)CTG>TTG	p.L417L	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Silent_p.L317L|PDPR_uc002eyg.1_Silent_p.L145L	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	417					glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		GGAATTGGACCTGAAACGTTT	0.517													8	52					0	0	1	0	0		T	70172860	T	T	70172860	2	4	84	1	0	0	0	0	0	0	0	1	11708	680	24	4		4	PDPR	16	70172860	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1575239	70172860	20181893	1124	52967											
DDX19A	55308	broad.mit.edu	37	chr16	70400065	70400065	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggactggtgctccaagctcAagttcattgatcccaagaaa	12	10	9	10	0	2	2	2	1	0	1	4	3	4	3	2	2	2	3	2	2	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:70400065A>G	uc002eyv.2	+	8	753	c.682A>G	c.(682-684)AAG>GAG	p.K228E	DDX19B_uc010vly.1_Intron|DDX19A_uc002eys.2_Missense_Mutation_p.K229E|DDX19A_uc010cfq.1_5'UTR|DDX19A_uc010cfr.2_Missense_Mutation_p.K78E|DDX19A_uc010cfs.2_Missense_Mutation_p.K51E|DDX19A_uc010vlz.1_Missense_Mutation_p.K197E|DDX19A_uc010vma.1_Missense_Mutation_p.K138E	NM_018332	NP_060802	Q9NUU7	DD19A_HUMAN	DDX19-like protein	228	Helicase ATP-binding.				mRNA transport|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|RNA binding				0		Ovarian(137;0.221)				CTCCAAGCTCAAGTTCATTGA	0.517													16	90					0	0	1	0	0		G	70400065	G	G	70400065	3	3	84	1	0	0	0	0	1	0	0	0	4349	131	5	3	712	3	DDX19A	16	70400065	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	227205	70400065	19954688	1125	52968											
MTSS1L	92154	broad.mit.edu	37	chr16	70698348	70698348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggagtagcagtcgtagtcGgagcctgggggcacgggaca	9	5	18	9	4	0	0	0	0	0	0	2	3	0	3	1	5	2	4	1	5	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:70698348G>A	uc002ezj.2	-	15	1736	c.1476C>T	c.(1474-1476)TCC>TCT	p.S492S		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	492					filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						AGTCGTAGTCGGAGCCTGGGG	0.677													5	16					0	0	1	0	0		A	70698348	A	A	70698348	2	1	84	1	0	0	0	0	0	0	0	1	9981	1103	39	1		1	MTSS1L	16	70698348	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	298283	70698348	19656405	1126	52969											
HYDIN	54768	broad.mit.edu	37	chr16	71209609	71209609	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgattactttaaagtaaggCgaactttcttccacaacttt	12	15	5	9	1	1	1	0	1	1	0	2	2	2	1	1	1	3	1	1	1	6	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:71209609C>T	uc002ezr.2	-	5	545	c.417G>A	c.(415-417)TCG>TCA	p.S139S	HYDIN_uc010cfz.1_5'UTR|HYDIN_uc002ezv.2_Silent_p.S139S|HYDIN_uc010vmc.1_Silent_p.S156S|HYDIN_uc010vmd.1_Silent_p.S166S|HYDIN_uc002ezw.3_Silent_p.S156S	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	139										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TAAAGTAAGGCGAACTTTCTT	0.358													13	71					0	0	1	0	0		T	71209609	T	T	71209609	2	4	84	1	0	0	0	0	0	0	0	1	7483	755	27	1		1	HYDIN	16	71209609	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	511261	71209609	19145144	1127	52970											
CHST4	10164	broad.mit.edu	37	chr16	71571012	71571012	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgacatcatcccacaagaTgaaatcatcccccgggctca	12	8	7	14	1	3	3	3	2	0	1	5	3	5	3	3	1	0	1	3	1	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:71571012T>C	uc002fan.2	+	2	613	c.432T>C	c.(430-432)GAT>GAC	p.D144D	CHST4_uc002fao.2_Silent_p.D144D	NM_005769	NP_005760	Q8NCG5	CHST4_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	144	Lumenal (Potential).				cell-cell signaling|immune response|inflammatory response|N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity				0						TCCCACAAGATGAAATCATCC	0.602													26	63					0	0	1	0	0		C	71571012	C	C	71571012	2	2	84	1	0	0	0	0	0	0	0	1	3409	1461	51	3		3	CHST4	16	71571012	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	361403	71571012	18783741	1128	52971											
PHLPP2	23035	broad.mit.edu	37	chr16	71748554	71748554	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaagaggaagaggaggTggtggtggttgtagtggcag	10	7	23	1	0	0	2	0	0	0	2	0	6	0	6	0	9	0	3	0	9	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:71748554T>C	uc002fax.2	-	1	151	c.145A>G	c.(145-147)ACC>GCC	p.T49A	PHLPP2_uc010cgf.2_Missense_Mutation_p.T49A|PHLPP2_uc002fay.1_Missense_Mutation_p.T49A	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	49	Poly-Thr.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						gaagaggaggTGGTGGTGGTT	0.388													10	31					0	0	1	0	0		C	71748554	C	C	71748554	3	2	84	1	0	0	0	0	1	0	0	0	11874	1696	59	3	3898	3	PHLPP2	16	71748554	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	177542	71748554	18606199	1129	52972											
WDR59	79726	broad.mit.edu	37	chr16	74985388	74985388	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggccttgtaaggttgtGccaacttccccactgccgtc	5	12	11	13	1	0	0	0	0	0	0	2	0	1	0	5	2	3	2	5	2	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:74985388G>A	uc002fdh.1	-	4	396	c.294C>T	c.(292-294)GGC>GGT	p.G98G	WDR59_uc002fdi.2_Silent_p.G98G|WDR59_uc002fdj.2_Silent_p.G98G	NM_030581	NP_085058	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	98	WD 1.									ovary(1)|breast(1)	2						GTAAGGTTGTGCCAACTTCCC	0.493													3	8					0	0	1	0	0		A	74985388	A	A	74985388	2	1	84	1	0	0	0	0	0	0	0	1	17334	1306	46	2		2	WDR59	16	74985388	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3236834	74985388	15369365	1130	52973											
MON1B	22879	broad.mit.edu	37	chr16	77228987	77228987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcggggcgccgggcctcCggcacttcctgtataagccg	4	8	14	15	5	0	0	0	0	0	0	3	0	2	0	5	4	1	2	5	4	2	3	rs2232507		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:77228987C>T	uc002fez.2	+	4	1561	c.1231C>T	c.(1231-1233)CGG>TGG	p.R411W	MON1B_uc010vnf.1_Missense_Mutation_p.R302W|MON1B_uc010vng.1_Missense_Mutation_p.R265W|MON1B_uc002ffa.2_Missense_Mutation_p.R291W	NM_014940	NP_055755	Q7L1V2	MON1B_HUMAN	MON1 homolog B	411							protein binding				0						GCCGGGCCTCCGGCACTTCCT	0.642													5	14					0	0	1	0	0		T	77228987	T	T	77228987	3	4	84	1	0	0	0	0	1	0	0	0	9717	643	23	1	1241	1	MON1B	16	77228987	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2243599	77228987	13125766	1131	52974											
ADAMTS18	170692	broad.mit.edu	37	chr16	77393314	77393314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcacattccactgatggggGcaaaccctattgaaagagca	14	7	10	10	0	0	3	0	2	0	1	1	3	1	3	2	2	3	3	2	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:77393314G>A	uc002ffc.3	-	8	1642	c.1223C>T	c.(1222-1224)GCC>GTC	p.A408V	ADAMTS18_uc010chc.1_5'UTR|ADAMTS18_uc002ffe.1_Missense_Mutation_p.A104V|ADAMTS18_uc010vni.1_RNA	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	408	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						ACTGATGGGGGCAAACCCTAT	0.438													5	45					0	0	1	0	0		A	77393314	A	A	77393314	3	1	84	1	0	0	0	0	1	0	0	0	263	1203	42	2	2506	2	ADAMTS18	16	77393314	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	164327	77393314	12961439	1132	52975											
CLEC3A	10143	broad.mit.edu	37	chr16	78064352	78064352	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcttcacagtctgtctcCgaggcactaaagttcacaag	12	10	7	12	1	5	0	2	0	3	0	6	1	5	0	1	1	0	2	1	1	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:78064352C>T	uc002ffh.3	+	3	289	c.208C>T	c.(208-210)CGA>TGA	p.R70*		NM_005752	NP_005743	O75596	CLC3A_HUMAN	C-type lectin domain family 3 member A	70					skeletal system development	extracellular region	sugar binding				0						AGTCTGTCTCCGAGGCACTAA	0.413													20	157					0	0	1	0	0		T	78064352	T	T	78064352	4	4	84	1	0	0	0	0	0	1	0	0	3513	644	23	1	218	1	CLEC3A	16	78064352	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	671038	78064352	12290401	1133	52976											
PKD1L2	114780	broad.mit.edu	37	chr16	81134773	81134773	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtcgagagtggcgagtctgGgacagagacccaggctgctc	8	6	17	10	2	1	2	0	0	1	2	3	6	1	3	1	4	1	2	1	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:81134773G>T	uc002fgh.1	-	45	7335	c.7335C>A	c.(7333-7335)TCC>TCA	p.S2445S	PKD1L2_uc002fgf.1_Silent_p.S245S|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	2445	Extracellular (Potential).|Interaction with GNAS and GNAI1.				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GGCGAGTCTGGGACAGAGACC	0.567													19	58					8.34094e-07	8.78471e-07	1	1	0		T	81134773	T	T	81134773	2	4	84	1	0	0	0	0	0	0	0	1	11984	1219	43	5		5	PKD1L2	16	81134773	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3070421	81134773	9219980	1134	52977											
PKD1L2	114780	broad.mit.edu	37	chr16	81194324	81194324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacgaggtgagtttgggcatCgtagctgctcttgttggggt	5	14	16	6	2	1	1	0	1	1	0	2	2	1	1	0	4	3	6	0	4	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:81194324C>T	uc002fgh.1	-	22	3664	c.3664G>A	c.(3664-3666)GAT>AAT	p.D1222N	PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	1222	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GTTTGGGCATCGTAGCTGCTC	0.557													9	20					0	0	1	0	0		T	81194324	T	T	81194324	3	4	84	1	0	0	0	0	1	0	0	0	11984	884	31	1	3802	1	PKD1L2	16	81194324	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	59551	81194324	9160429	1135	52978											
PLCG2	5336	broad.mit.edu	37	chr16	81957092	81957092	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgttttccctgaaagccTcagagaaccgtgaaagctct	10	12	8	11	1	3	3	1	2	2	1	4	4	4	3	3	0	3	2	3	0	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:81957092T>C	uc002fgt.2	+	22	2462	c.2310T>C	c.(2308-2310)CCT>CCC	p.P770P		NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	770	SH3.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						CCTGAAAGCCTCAGAGAACCG	0.557													11	16					0	0	1	0	0		C	81957092	C	C	81957092	2	2	84	1	0	0	0	0	0	0	0	1	12055	1538	54	3		3	PLCG2	16	81957092	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	762768	81957092	8397661	1136	52979											
OSGIN1	29948	broad.mit.edu	37	chr16	83991264	83991264	+	Frame_Shift_Del	DEL	C	-	-																															ggtccgctgccagccccaagCcccccaccagccatgagctc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:83991264delC	uc002fha.2	+	3	620	c.237delC	c.(235-237)AGCfs	p.S79fs	OSGIN1_uc002fhb.2_5'UTR|OSGIN1_uc002fhc.2_5'UTR	NM_013370	NP_037502	Q9UJX0	OSGI1_HUMAN	oxidative stress induced growth inhibitor 1	79					cell differentiation|multicellular organismal development|negative regulation of cell growth		growth factor activity				0						CAGCCCCAAGCCCCCCACCAG	0.657													6	10	---	---	---	---						.	-	83991264	-	-	83991264	7	5	84	1	0	1	0	1	0	0	0	0	11308	738	26	0	247	0	OSGIN1	16	83991264	Frame_Shift_Del	DEL	C	TCGA-BR-8591-01A-11D-2394-08	2034172	83991264	6363489	1137	52980											
OSGIN1	29948	broad.mit.edu	37	chr16	83994314	83994314	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagcaccggaaggagcaCgccatcccccacgtggttct	9	6	12	14	3	1	0	0	0	1	0	2	3	2	3	4	4	2	3	4	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:83994314C>T	uc002fha.2	+	5	977	c.594C>T	c.(592-594)CAC>CAT	p.H198H	OSGIN1_uc002fhb.2_Silent_p.H115H|OSGIN1_uc002fhc.2_Silent_p.H115H	NM_013370	NP_037502	Q9UJX0	OSGI1_HUMAN	oxidative stress induced growth inhibitor 1	198					cell differentiation|multicellular organismal development|negative regulation of cell growth		growth factor activity				0						GGAAGGAGCACGCCATCCCCC	0.647													6	46					0	0	1	0	0		T	83994314	T	T	83994314	2	4	84	1	0	0	0	0	0	0	0	1	11308	535	19	1		1	OSGIN1	16	83994314	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3050	83994314	6360439	1138	52981											
ZCCHC14	23174	broad.mit.edu	37	chr16	87446393	87446393	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgcacggaattcagcatgCggatgggtgtgatgtgtgag	8	11	17	5	2	1	2	1	2	0	0	1	4	1	4	0	3	3	2	0	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:87446393C>T	uc002fjz.1	-	12	1550	c.1523G>A	c.(1522-1524)CGC>CAC	p.R508H	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Missense_Mutation_p.R284H	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	508					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		ATTCAGCATGCGGATGGGTGT	0.562													33	60					0	0	1	0	0		T	87446393	T	T	87446393	3	4	84	1	0	0	0	0	1	0	0	0	17608	768	27	1	1334	1	ZCCHC14	16	87446393	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3452079	87446393	2908360	1139	52982											
SLC7A5	8140	broad.mit.edu	37	chr16	87870112	87870112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccccgggctcaccttgatggGccgctcaagctcaggctttc	5	9	11	16	2	3	1	3	1	0	0	4	1	3	1	4	3	1	4	4	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:87870112G>A	uc002fkm.2	-	8	1354	c.1282C>T	c.(1282-1284)CCC>TCC	p.P428S		NM_003486	NP_003477	Q01650	LAT1_HUMAN	solute carrier family 7 (cationic amino acid	428					blood coagulation|cell differentiation|cellular amino acid metabolic process|ion transport|leukocyte migration|nervous system development	apical plasma membrane|cytosol|integral to membrane	neutral amino acid transmembrane transporter activity|peptide antigen binding				0				BRCA - Breast invasive adenocarcinoma(80;0.049)		ACCTTGATGGGCCGCTCAAGC	0.627													12	26					0	0	1	0	0		A	87870112	A	A	87870112	3	1	84	1	0	0	0	0	1	0	0	0	14725	1203	42	2	253	2	SLC7A5	16	87870112	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	423719	87870112	2484641	1140	52983											
ZC3H18	124245	broad.mit.edu	37	chr16	88697651	88697651	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagctgctgaaacagctgAaggccgtggaggatgctatt	11	8	15	7	1	0	2	0	2	0	0	0	5	0	5	1	4	5	4	1	4	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:88697651A>G	uc002fky.2	+	18	3006	c.2806A>G	c.(2806-2808)AAG>GAG	p.K936E	ZC3H18_uc010voz.1_Missense_Mutation_p.K960E|ZC3H18_uc010chw.2_RNA|ZC3H18_uc002fkz.2_Missense_Mutation_p.K206E	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	936	Potential.					nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		GAAACAGCTGAAGGCCGTGGA	0.627													12	32					0	0	1	0	0		G	88697651	G	G	88697651	3	3	84	1	0	0	0	0	1	0	0	0	17593	247	9	3	2872	3	ZC3H18	16	88697651	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	827539	88697651	1657102	1141	52984											
CTU2	348180	broad.mit.edu	37	chr16	88780094	88780094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggggacgtggtggtggtgCggcccatgcgggaccacacc	6	5	18	12	4	0	0	0	0	0	0	0	2	0	2	3	7	2	0	3	7	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:88780094C>T	uc002flm.2	+	9	961	c.913C>T	c.(913-915)CGG>TGG	p.R305W	CTU2_uc002fln.2_Missense_Mutation_p.R305W|CTU2_uc010chz.2_Missense_Mutation_p.R376W|CTU2_uc010cia.2_Missense_Mutation_p.R218W	NM_001012759	NP_001012777	Q2VPK5	CTU2_HUMAN	cytoplasmic tRNA 2-thiolation protein 2 isoform	305					tRNA thio-modification|tRNA wobble uridine modification	cytoplasm|protein complex|soluble fraction	protein binding			skin(1)	1						GGTGGTGGTGCGGCCCATGCG	0.652													41	111					0	0	1	0	0		T	88780094	T	T	88780094	3	4	84	1	0	0	0	0	1	0	0	0	4051	759	27	1	947	1	CTU2	16	88780094	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	82443	88780094	1574659	1142	52985											
CDH15	1013	broad.mit.edu	37	chr16	89258292	89258292	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccggaactggagcctcagCcaggtcaacggtgcgctccc	7	5	14	15	3	2	0	2	0	0	0	3	2	3	2	4	5	5	1	4	5	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:89258292C>T	uc002fmt.2	+	10	1682	c.1605C>T	c.(1603-1605)AGC>AGT	p.S535S		NM_004933	NP_004924	P55291	CAD15_HUMAN	cadherin 15 preproprotein	535	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	calcium ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0261)		GGAGCCTCAGCCAGGTCAACG	0.552													4	12					0	0	1	0	0		T	89258292	T	T	89258292	2	4	84	1	0	0	0	0	0	0	0	1	3103	738	26	2		2	CDH15	16	89258292	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	478198	89258292	1096461	1143	52986											
CPNE7	27132	broad.mit.edu	37	chr16	89644102	89644102	+	Frame_Shift_Del	DEL	G	-	-																															tgtcaggaggacgatttcctGgggggcatggagtgcaccct																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:89644102delG	uc002fnp.2	+	2	460	c.330delG	c.(328-330)CTGfs	p.L110fs	CPNE7_uc002fnq.2_Frame_Shift_Del_p.L110fs	NM_014427	NP_055242	Q9UBL6	CPNE7_HUMAN	copine 7 isoform b	110	C2 1.				lipid metabolic process		transporter activity				0		all_hematologic(23;0.0748)		all cancers(4;3.63e-08)|OV - Ovarian serous cystadenocarcinoma(4;1.7e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0147)		ACGATTTCCTGGGGGGCATGG	0.647													7	13	---	---	---	---						.	-	89644102	-	-	89644102	7	5	84	1	0	1	0	1	0	0	0	0	3820	1335	47	0	336	0	CPNE7	16	89644102	Frame_Shift_Del	DEL	G	TCGA-BR-8591-01A-11D-2394-08	385810	89644102	710651	1144	52987											
CPNE7	27132	broad.mit.edu	37	chr16	89645292	89645292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagtggcttctgcaagtcGtgatgagagtgtctgttgat	10	13	13	5	1	2	3	0	3	2	1	3	4	2	3	0	1	1	3	0	1	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:89645292G>A	uc002fnp.2	+	3	515	c.385G>A	c.(385-387)GTG>ATG	p.V129M	CPNE7_uc002fnq.2_Intron	NM_014427	NP_055242	Q9UBL6	CPNE7_HUMAN	copine 7 isoform b	129					lipid metabolic process		transporter activity				0		all_hematologic(23;0.0748)		all cancers(4;3.63e-08)|OV - Ovarian serous cystadenocarcinoma(4;1.7e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0147)		TCTGCAAGTCGTGATGAGAGT	0.587													15	39					0	0	1	0	0		A	89645292	A	A	89645292	3	1	84	1	0	0	0	0	1	0	0	0	3820	1145	40	1	395	1	CPNE7	16	89645292	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1190	89645292	709461	1145	52988											
CHMP1A	5119	broad.mit.edu	37	chr16	89713100	89713100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgtggtcagggtggtggccGagctcatggagtcctccatc	5	9	16	11	2	2	0	2	0	0	0	5	2	4	1	3	5	1	1	3	5	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:89713100G>A	uc002fnu.2	-	6	537	c.404C>T	c.(403-405)TCG>TTG	p.S135L	CHMP1A_uc002fnt.2_Silent_p.L23L|CHMP1A_uc002fnv.2_Silent_p.L128L	NM_002768	NP_002759	Q9HD42	CHM1A_HUMAN	chromatin modifying protein 1A isoform 2	135					cell division|gene silencing|mitotic chromosome condensation|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription by glucose|protein transport|transcription, DNA-dependent|vesicle-mediated transport	condensed nuclear chromosome|early endosome|endomembrane system|endosome membrane|microtubule organizing center|nuclear matrix	metallopeptidase activity|protein domain specific binding|zinc ion binding				0		all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.048)		GGTGGTGGCCGAGCTCATGGA	0.652													4	19					0	0	1	0	0		A	89713100	A	A	89713100	3	1	84	1	0	0	0	0	1	0	0	0	3355	1059	37	1	346	1	CHMP1A	16	89713100	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	67808	89713100	641653	1146	52989											
DEF8	54849	broad.mit.edu	37	chr16	90028534	90028534	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagctggtggagattcgcGtgaggctggggccatggaag	8	7	20	6	2	0	2	0	1	0	1	1	5	0	4	1	7	1	2	1	7	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:90028534G>A	uc002fpn.1	+	9	1193	c.1104_splice	c.e9+1	p.R368_splice	DEF8_uc002fpo.1_Splice_Site_p.R307_splice|DEF8_uc002fpp.1_Splice_Site_p.R297_splice|DEF8_uc010vpq.1_Splice_Site_p.R247_splice|DEF8_uc010vpr.1_Splice_Site_p.R307_splice|DEF8_uc002fpq.1_5'Flank	NM_207514	NP_997397	Q6ZN54	DEFI8_HUMAN	differentially expressed in FDCP 8 isoform 1						intracellular signal transduction		zinc ion binding			central_nervous_system(1)	1		all_cancers(9;7.59e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.0019)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0274)		GGAGATTCGCGTGAGGCTGGG	0.667													5	26					0	0	1	0	0		A	90028534	A	A	90028534	5	1	84	1	0	0	0	0	0	0	1	0	4390	1159	40	1	1215	1	DEF8	16	90028534	Splice_Site	SNP	G	TCGA-BR-8591-01A-11D-2394-08	315434	90028534	326219	1147	52990											
GAS8	2622	broad.mit.edu	37	chr16	90097848	90097848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagaagaaggctgagctgCggaacaaagaccgggagatg	15	3	17	6	2	0	5	0	1	0	4	0	8	0	6	1	4	3	2	1	4	4	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr16:90097848C>T	uc002fqi.1	+	3	354	c.232C>T	c.(232-234)CGG>TGG	p.R78W	GAS8_uc010vps.1_Missense_Mutation_p.R53W|GAS8_uc002fqh.2_5'UTR|GAS8_uc010vpt.1_Missense_Mutation_p.R78W|GAS8_uc010vpu.1_5'UTR|GAS8_uc010vpv.1_Missense_Mutation_p.R49W|GAS8_uc010cjc.1_5'UTR|GAS8_uc010vpw.1_5'UTR|GAS8_uc002fqj.1_5'UTR|C16orf3_uc002fqk.1_5'Flank	NM_001481	NP_001472	O95995	GAS8_HUMAN	growth arrest-specific 8	78	Regulates microtubule-binding (By similarity).				negative regulation of cell proliferation|sperm motility	cilium|Golgi apparatus|microtubule|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.029)		GGCTGAGCTGCGGAACAAAGA	0.602													8	11					0	0	1	0	0		T	90097848	T	T	90097848	3	4	84	1	0	0	0	0	1	0	0	0	6266	759	27	1	242	1	GAS8	16	90097848	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	69314	90097848	256905	1148	52991											
TIMM22	29928	broad.mit.edu	37	chr17	900433	900433	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcggcccctgagacagcgggTtccgccgaagctccgctgca	6	6	13	16	5	0	1	0	1	0	1	3	3	2	1	5	2	3	4	5	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:900433T>C	uc002fsc.2	+	1	77	c.51T>C	c.(49-51)GGT>GGC	p.G17G		NM_013337	NP_037469	Q9Y584	TIM22_HUMAN	translocase of inner mitochondrial membrane 22	17					transmembrane transport	integral to membrane|mitochondrial inner membrane	protein transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		AGACAGCGGGTTCCGCCGAAG	0.697													16	26					0	0	1	0	0		C	900433	C	C	900433	2	2	84	1	0	0	0	0	0	0	0	1	15935	1712	60	3		3	TIMM22	17	900433	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08		900433	80294777	1149	52992											
SMYD4	114826	broad.mit.edu	37	chr17	1684630	1684630	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagtccaacaaacaggattTcatcttctggagctcctgga	12	11	8	10	0	3	0	1	0	2	0	5	3	5	3	2	3	3	1	2	3	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:1684630T>C	uc002ftm.3	-	11	2533	c.2365A>G	c.(2365-2367)AAA>GAA	p.K789E		NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	789							zinc ion binding			skin(3)|kidney(2)	5						AAACAGGATTTCATCTTCTGG	0.527													8	75					0	0	1	0	0		C	1684630	C	C	1684630	3	2	84	1	0	0	0	0	1	0	0	0	14849	1792	62	3	53	3	SMYD4	17	1684630	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	784197	1684630	79510580	1150	52993											
HIC1	3090	broad.mit.edu	37	chr17	1961428	1961428	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccggggctccgggtggcctgGgagagctgctgcggccctac	3	6	18	14	3	0	1	0	0	0	1	1	2	1	1	4	6	4	3	4	6	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:1961428G>A	uc010cjy.2	+	2	1501	c.1501G>A	c.(1501-1503)GGA>AGA	p.G501R	HIC1_uc002fty.3_Missense_Mutation_p.G482R|HIC1_uc002ftz.3_Missense_Mutation_p.G482R	NM_001098202	NP_001091672	Q14526	HIC1_HUMAN	hypermethylated in cancer 1 isoform 2	501					multicellular organismal development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)	1				READ - Rectum adenocarcinoma(1115;0.236)		GGGTGGCCTGGGAGAGCTGCT	0.751													9	19					0	0	1	0	0		A	1961428	A	A	1961428	3	1	84	1	0	0	0	0	1	0	0	0	7117	1233	43	4	1507	4	HIC1	17	1961428	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	276798	1961428	79233782	1151	52994											
METT10D	79066	broad.mit.edu	37	chr17	2324130	2324130	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggataattccttcatcacGgacgccagcaccacgaatgt	12	8	9	12	3	2	0	2	0	0	0	3	3	3	2	3	2	1	1	3	2	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:2324130G>A	uc002fut.2	-	9	1105	c.957C>T	c.(955-957)TCC>TCT	p.S319S	METT10D_uc002fuu.3_RNA|METT10D_uc010cka.2_RNA|METT10D_uc002fuv.2_Intron|METT10D_uc010vqx.1_RNA|METT10D_uc010vqy.1_Silent_p.S101S	NM_024086	NP_076991	Q86W50	MET16_HUMAN	methyltransferase 10 domain containing	319							methyltransferase activity				0						CCTTCATCACGGACGCCAGCA	0.453													59	183					0	0	1	0	0		A	2324130	A	A	2324130	2	1	84	1	0	0	0	0	0	0	0	1	9508	1103	39	1		1	METT10D	17	2324130	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	362702	2324130	78871080	1152	52995											
OR1A1	8383	broad.mit.edu	37	chr17	3119024	3119024	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttgttcatttaccccaTcacattgattggaaacctgc	9	15	5	12	0	3	1	2	1	1	0	3	2	3	2	3	1	3	1	3	1	2	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:3119024T>C	uc010vrc.1	+	1	110	c.110T>C	c.(109-111)ATC>ACC	p.I37T		NM_014565	NP_055380	Q9P1Q5	OR1A1_HUMAN	olfactory receptor, family 1, subfamily A,	37	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						ATTTACCCCATCACATTGATT	0.458													47	123					0	0	1	0	0		C	3119024	C	C	3119024	3	2	84	1	0	0	0	0	1	0	0	0	10968	1435	50	3	112	3	OR1A1	17	3119024	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	794894	3119024	78076186	1153	52996											
TRPV1	7442	broad.mit.edu	37	chr17	3475428	3475428	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcattacctgaagcaccacCggtagtcgtccttgccatca	9	9	9	14	2	1	1	1	1	0	0	3	1	2	1	5	2	3	3	5	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:3475428C>G	uc010vrr.1	-	13	2746	c.2219G>C	c.(2218-2220)CGG>CCG	p.R740P	TRPV1_uc010vro.1_Missense_Mutation_p.R751P|TRPV1_uc010vrp.1_Missense_Mutation_p.R680P|TRPV1_uc010vrq.1_Missense_Mutation_p.R738P|TRPV1_uc010vrs.1_Missense_Mutation_p.R740P|TRPV1_uc010vrt.1_Missense_Mutation_p.R740P|TRPV1_uc010vru.1_Missense_Mutation_p.R740P	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	740	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	GAAGCACCACCGGTAGTCGTC	0.602													7	33					0	0	1	0	0		G	3475428	G	G	3475428	3	3	84	1	0	0	0	0	1	0	0	0	16621	652	23	5	312	5	TRPV1	17	3475428	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	356404	3475428	77719782	1154	52997											
GSG2	83903	broad.mit.edu	37	chr17	3628052	3628052	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcctgctgtaaaaggaaaCtggtggtgggaaatggacca	13	8	14	6	0	0	0	0	0	0	0	1	3	1	3	2	5	2	2	2	5	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:3628052C>T	uc002fwp.2	+	1	856	c.823C>T	c.(823-825)CTG>TTG	p.L275L	ITGAE_uc002fwo.3_Intron|ITGAE_uc002fwn.3_5'Flank	NM_031965	NP_114171	Q8TF76	HASP_HUMAN	haspin	275					cell cycle|chromatin modification|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity				0						TAAAAGGAAACTGGTGGTGGG	0.532													25	74					0	0	1	0	0		T	3628052	T	T	3628052	2	4	84	1	0	0	0	0	0	0	0	1	6838	564	20	4		4	GSG2	17	3628052	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	152624	3628052	77567158	1155	52998											
MYBBP1A	10514	broad.mit.edu	37	chr17	4442846	4442846	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatttgcccaagacccccTttttgggaagagccttctga	8	12	10	11	0	1	4	0	2	1	2	1	5	1	5	4	1	2	0	4	1	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:4442846T>C	uc002fyb.3	-	26	3913	c.3851A>G	c.(3850-3852)AAG>AGG	p.K1284R	MYBBP1A_uc002fxz.3_Missense_Mutation_p.K1284R|SPNS2_uc002fxx.2_3'UTR|SPNS2_uc002fxy.2_3'UTR|MYBBP1A_uc002fya.3_Missense_Mutation_p.K229R|MYBBP1A_uc010vsa.1_Missense_Mutation_p.K326R	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	1284	Required for nuclear and nucleolar localization (By similarity).				nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						CAAGACCCCCTTTTTGGGAAG	0.582													93	231					0	0	1	0	0		C	4442846	C	C	4442846	3	2	84	1	0	0	0	0	1	0	0	0	10026	1609	56	3	179	3	MYBBP1A	17	4442846	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	814794	4442846	76752364	1156	52999											
TM4SF5	9032	broad.mit.edu	37	chr17	4685824	4685824	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctcggtcttctcctcggcGttcggggtgcttggtgccat	1	13	14	13	5	2	0	0	0	2	0	6	0	2	0	2	5	2	3	2	5	0	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:4685824G>A	uc002fyw.1	+	3	316	c.285G>A	c.(283-285)GCG>GCA	p.A95A		NM_003963	NP_003954	O14894	T4S5_HUMAN	transmembrane 4 superfamily member 5	95	Helical; (Potential).					integral to plasma membrane				ovary(1)	1						TCTCCTCGGCGTTCGGGGTGC	0.627													40	107					0	0	1	0	0		A	4685824	A	A	4685824	2	1	84	1	0	0	0	0	0	0	0	1	15996	1132	40	1		1	TM4SF5	17	4685824	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	242978	4685824	76509386	1157	53000											
GPR172B	55065	broad.mit.edu	37	chr17	4937492	4937492	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggccacgtggtgccacaGaggggccagcagggctgtgc	6	5	19	11	1	0	1	0	0	0	1	0	1	0	1	3	6	3	2	3	6	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:4937492G>T	uc002gap.3	-	3	1005	c.292C>A	c.(292-294)CTG>ATG	p.L98M	GPR172B_uc002gao.3_Missense_Mutation_p.L98M|GPR172B_uc010ckw.2_Translation_Start_Site|GPR172B_uc010ckx.2_Missense_Mutation_p.L98M	NM_001104577	NP_001098047	Q9NWF4	RFT_HUMAN	G protein-coupled receptor 172B precursor	98	Helical; (Potential).					integral to plasma membrane	receptor activity|riboflavin transporter activity				0						TGGTGCCACAGAGGGGCCAGC	0.642													23	67					3.8784e-16	4.30056e-16	1	1	0		T	4937492	T	T	4937492	3	4	84	1	0	0	0	0	1	0	0	0	6685	933	33	5	1066	5	GPR172B	17	4937492	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	251668	4937492	76257718	1158	53001											
ZNF594	84622	broad.mit.edu	37	chr17	5087385	5087385	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggaagggagatgtctcAttgcatcctttaaagggctt	9	13	12	7	0	1	1	1	0	1	1	3	3	2	2	1	3	1	2	1	3	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:5087385A>G	uc010cla.1	-	2	323	c.167T>C	c.(166-168)ATG>ACG	p.M56T		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	56					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						GAGATGTCTCATTGCATCCTT	0.438													32	80					0	0	1	0	0		G	5087385	G	G	5087385	3	3	84	1	0	0	0	0	1	0	0	0	18049	217	8	3	2260	3	ZNF594	17	5087385	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	149893	5087385	76107825	1159	53002											
DVL2	1856	broad.mit.edu	37	chr17	7130487	7130487	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcttgttgacggtgtgtcGgatcaggcctgctttgagca	6	13	14	8	2	2	2	1	2	1	0	3	4	2	3	1	3	2	3	1	3	0	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:7130487G>T	uc002gez.1	-	13	1747	c.1465C>A	c.(1465-1467)CGA>AGA	p.R489R	DVL2_uc010vtr.1_Silent_p.R483R	NM_004422	NP_004413	O14641	DVL2_HUMAN	dishevelled 2	489	DEP.				canonical Wnt receptor signaling pathway involved in regulation of cell proliferation|intracellular signal transduction|neural tube closure|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|segment specification|transcription from RNA polymerase II promoter	cytosol|nucleus|plasma membrane	frizzled binding|identical protein binding|signal transducer activity			lung(1)|kidney(1)	2						ACGGTGTGTCGGATCAGGCCT	0.592													58	183					6.3091e-27	7.16925e-27	1	1	0		T	7130487	T	T	7130487	2	4	84	1	0	0	0	0	0	0	0	1	4842	1124	39	5		5	DVL2	17	7130487	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2043102	7130487	74064723	1160	53003											
SPEM1	374768	broad.mit.edu	37	chr17	7324902	7324902	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaagcaagaattgggtgtAccgttccctaactgggaggt	11	9	13	8	1	0	1	0	0	0	1	1	3	1	2	2	3	3	3	2	3	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:7324902A>G	uc002ggv.2	+	3	933	c.908A>G	c.(907-909)TAC>TGC	p.Y303C	FGF11_uc010vtw.1_Missense_Mutation_p.Y37C	NM_199339	NP_955371	Q8N4L4	SPEM1_HUMAN	spermatid maturation 1	303					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|integral to membrane					0		Prostate(122;0.173)				AATTGGGTGTACCGTTCCCTA	0.592													7	35					0	0	1	0	0		G	7324902	G	G	7324902	3	3	84	1	0	0	0	0	1	0	0	0	15062	391	14	3	918	3	SPEM1	17	7324902	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	194415	7324902	73870308	1161	53004											
POLR2A	5430	broad.mit.edu	37	chr17	7416391	7416391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcacctgcctacgagccccGctctcctgggggctacacac	6	7	10	18	2	2	0	1	0	1	0	3	1	2	0	5	2	4	2	5	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:7416391G>A	uc002ghf.3	+	29	5042	c.4808G>A	c.(4807-4809)CGC>CAC	p.R1603H		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1603	2; approximate.|52 X 7 AA approximate tandem repeats of Y-[ST]-P-[STQ]-[ST]-P-[SRTEVKGN].				mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				TACGAGCCCCGCTCTCCTGGG	0.582													68	227					0	0	1	0	0		A	7416391	A	A	7416391	3	1	84	1	0	0	0	0	1	0	0	0	12233	1087	38	1	4922	1	POLR2A	17	7416391	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	91489	7416391	73778819	1162	53005											
SENP3	26168	broad.mit.edu	37	chr17	7473797	7473797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgcagcgtaccctaaacCgccgctgccctaaggtttga	9	8	9	15	4	0	1	0	1	0	0	1	1	0	1	4	1	4	4	4	1	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:7473797C>T	uc002ghm.2	+	9	1738	c.1465C>T	c.(1465-1467)CGC>TGC	p.R489C	EIF4A1_uc002gho.1_5'UTR|EIF4A1_uc002ghr.1_5'Flank|EIF4A1_uc002ghq.1_5'Flank|EIF4A1_uc002ghp.1_5'Flank	NM_015670	NP_056485	Q9H4L4	SENP3_HUMAN	SUMO1/sentrin/SMT3 specific protease 3	489	Protease.				proteolysis	MLL1 complex|nucleolus	cysteine-type peptidase activity			ovary(1)|central_nervous_system(1)	2		Prostate(122;0.157)				TACCCTAAACCGCCGCTGCCC	0.562													9	29					0	0	1	0	0		T	7473797	T	T	7473797	3	4	84	1	0	0	0	0	1	0	0	0	14073	652	23	1	1492	1	SENP3	17	7473797	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	57406	7473797	73721413	1163	53006											
C17orf68	80169	broad.mit.edu	37	chr17	8133224	8133224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgacctgatggtggtctcaGggggaaaactcaggacctgc	9	8	14	10	0	2	2	2	2	1	0	3	4	2	4	2	5	2	0	2	5	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:8133224G>A	uc002gkq.3	-	18	3055	c.2996C>T	c.(2995-2997)CCT>CTT	p.P999L	C17orf68_uc010cnv.2_RNA	NM_025099	NP_079375	Q2NKJ3	CTC1_HUMAN	alpha accessory factor 132	999					positive regulation of DNA replication|telomere maintenance	Stn1-Ten1 complex	protein binding|single-stranded DNA binding				0						GGTGGTCTCAGGGGGAAAACT	0.498													11	52					0	0	1	0	0		A	8133224	A	A	8133224	3	1	84	1	0	0	0	0	1	0	0	0	1879	1000	35	4	681	4	C17orf68	17	8133224	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	659427	8133224	73061986	1164	53007											
MYH10	4628	broad.mit.edu	37	chr17	8396272	8396272	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccgcgtccttcagaagcTtcttcttggcttcttccaga	5	14	7	15	2	4	2	1	0	3	2	7	2	7	2	4	1	1	2	4	1	1	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:8396272T>C	uc002gll.2	-	31	4283	c.4187A>G	c.(4186-4188)AAG>AGG	p.K1396R	MYH10_uc002glm.2_Missense_Mutation_p.K1427R|MYH10_uc010cnx.2_Missense_Mutation_p.K1405R	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1396	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						CTTCAGAAGCTTCTTCTTGGC	0.522													26	112					0	0	1	0	0		C	8396272	C	C	8396272	3	2	84	1	0	0	0	0	1	0	0	0	10048	1609	56	3	1787	3	MYH10	17	8396272	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	263048	8396272	72798938	1165	53008											
MFSD6L	162387	broad.mit.edu	37	chr17	8701551	8701551	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgccacacacgcctgcCgacatgcccagcaacctcca	10	5	8	18	2	0	1	0	1	0	0	1	2	1	1	6	0	5	1	6	0	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:8701551C>T	uc002glp.1	-	1	1036	c.888G>A	c.(886-888)TCG>TCA	p.S296S		NM_152599	NP_689812	Q8IWD5	MFS6L_HUMAN	major facilitator superfamily domain containing	296	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						ACACGCCTGCCGACATGCCCA	0.587													16	95					0	0	1	0	0		T	8701551	T	T	8701551	2	4	84	1	0	0	0	0	0	0	0	1	9554	639	23	1		1	MFSD6L	17	8701551	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	305279	8701551	72493659	1166	53009											
USP43	124739	broad.mit.edu	37	chr17	9604465	9604465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcctccaggaggagcgagCgcaggatgccgacagtgtgt	9	5	17	10	3	0	0	0	0	0	0	1	6	1	3	3	3	4	1	3	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:9604465C>T	uc010cod.2	+	11	1565	c.1565C>T	c.(1564-1566)GCG>GTG	p.A522V	USP43_uc002gma.3_Missense_Mutation_p.A211V|USP43_uc010vva.1_Missense_Mutation_p.A522V|USP43_uc010coe.2_Missense_Mutation_p.A319V|USP43_uc002gmc.3_5'UTR	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	ubiquitin specific protease 43	522					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GAGGAGCGAGCGCAGGATGCC	0.582													4	11					0	0	1	0	0		T	9604465	T	T	9604465	3	4	84	1	0	0	0	0	1	0	0	0	17100	768	27	1	1607	1	USP43	17	9604465	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	902914	9604465	71590745	1167	53010											
MYH1	4619	broad.mit.edu	37	chr17	10404029	10404029	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggtcttaatttcactcAgttgatcttctagagcgcgg	7	15	9	10	2	5	2	2	1	3	1	5	2	5	2	1	2	1	1	1	2	2	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:10404029A>C	uc002gmo.2	-	28	3873	c.3779T>G	c.(3778-3780)CTG>CGG	p.L1260R	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1260	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						AATTTCACTCAGTTGATCTTC	0.478													28	76					0	0	1	0	0		C	10404029	C	C	10404029	3	2	84	1	0	0	0	0	1	0	0	0	10047	188	7	5	2092	5	MYH1	17	10404029	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	799564	10404029	70791181	1168	53011											
DNAH9	1770	broad.mit.edu	37	chr17	11656223	11656223	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggattttactggatggCgacatagatccaatgtggat	12	12	12	5	1	0	1	0	0	0	1	1	5	1	4	1	4	1	0	1	4	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:11656223C>T	uc002gne.2	+	33	6752	c.6684C>T	c.(6682-6684)GGC>GGT	p.G2228G	DNAH9_uc010coo.2_Silent_p.G1522G	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2228	AAA 2 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TACTGGATGGCGACATAGATC	0.433													15	61					0	0	1	0	0		T	11656223	T	T	11656223	2	4	84	1	0	0	0	0	0	0	0	1	4614	755	27	1		1	DNAH9	17	11656223	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1252194	11656223	69538987	1169	53012											
MYOCD	93649	broad.mit.edu	37	chr17	12647672	12647672	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaacagcagctgttccTgcagctccaaatcctcagcc	10	7	7	17	0	1	0	1	0	0	0	4	0	4	0	5	0	7	6	5	0	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:12647672T>G	uc002gnn.2	+	8	1189	c.890T>G	c.(889-891)CTG>CGG	p.L297R	MYOCD_uc002gno.2_Missense_Mutation_p.L297R|MYOCD_uc002gnp.1_Missense_Mutation_p.L201R|MYOCD_uc002gnq.2_Missense_Mutation_p.L16R	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	297	Gln-rich.				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CAGCTGTTCCTGCAGCTCCAA	0.493													9	58					0	0	1	0	0		G	12647672	G	G	12647672	3	3	84	1	0	0	0	0	1	0	0	0	10105	1580	55	5	920	5	MYOCD	17	12647672	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	991449	12647672	68547538	1170	53013											
COX10	1352	broad.mit.edu	37	chr17	13977692	13977692	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaagaactatacaggactcCcctcacaagttcttacatct	14	10	5	12	0	3	2	1	0	2	2	4	3	4	3	2	1	3	1	2	1	6	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:13977692C>A	uc002gof.3	+	2	300	c.96C>A	c.(94-96)TCC>TCA	p.S32S	COX10_uc010vvs.1_5'UTR|COX10_uc010vvt.1_5'UTR	NM_001303	NP_001294	Q12887	COX10_HUMAN	heme A:farnesyltransferase precursor	32					heme a biosynthetic process|heme O biosynthetic process|respiratory chain complex IV assembly	integral to membrane|mitochondrial membrane	protoheme IX farnesyltransferase activity				0		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)		TACAGGACTCCCCTCACAAGT	0.398													29	76					7.38237e-10	7.98763e-10	1	1	0		A	13977692	A	A	13977692	2	1	84	1	0	0	0	0	0	0	0	1	3765	610	22	5		5	COX10	17	13977692	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1330020	13977692	67217518	1171	53014											
TEKT3	64518	broad.mit.edu	37	chr17	15207323	15207323	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgcatttttcctggtcgAtgtacagggaattggctttg	7	16	11	7	1	1	0	1	0	0	0	3	2	2	1	1	3	2	3	1	3	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:15207323A>G	uc002gon.2	-	9	1590	c.1403T>C	c.(1402-1404)ATC>ACC	p.I468T		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	468					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		TTCCTGGTCGATGTACAGGGA	0.582													23	78					0	0	1	0	0		G	15207323	G	G	15207323	3	3	84	1	0	0	0	0	1	0	0	0	15779	333	12	3	73	3	TEKT3	17	15207323	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1229631	15207323	65987887	1172	53015											
CDRT1	374286	broad.mit.edu	37	chr17	15522766	15522766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggcatagagggatggaatCggttcccttctcacaacgaa	11	8	11	11	3	1	1	1	0	1	1	4	4	2	3	2	4	1	2	2	4	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:15522766C>T	uc002gov.3	-	1	253	c.61G>A	c.(61-63)GAT>AAT	p.D21N	TRIM16_uc002gor.1_Intron	NM_006382	NP_006373	O95170	CDRT1_HUMAN	CMT1A duplicated region transcript 1	21											0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(2;1.36e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0541)		GGGATGGAATCGGTTCCCTTC	0.473													34	285					0	0	1	0	0		T	15522766	T	T	15522766	3	4	84	1	0	0	0	0	1	0	0	0	3177	884	31	1	2245	1	CDRT1	17	15522766	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	315443	15522766	65672444	1173	53016											
NCOR1	9611	broad.mit.edu	37	chr17	15942757	15942757	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagctgtacctgaatgaggTgatgggtccccttcctctct	8	12	10	11	0	1	3	0	3	1	0	4	3	3	3	4	2	2	2	4	2	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:15942757T>C	uc002gpo.2	-	44	7185	c.6945A>G	c.(6943-6945)TCA>TCG	p.S2315S	NCOR1_uc002gpn.2_Silent_p.S2212S|NCOR1_uc002gpl.2_Silent_p.S330S|NCOR1_uc002gpm.2_Silent_p.S835S|NCOR1_uc010vwb.1_Silent_p.S899S|NCOR1_uc010coy.2_Silent_p.S1223S	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	2315	Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CTGAATGAGGTGATGGGTCCC	0.463													11	36					0	0	1	0	0		C	15942757	C	C	15942757	2	2	84	1	0	0	0	0	0	0	0	1	10254	1683	59	3		3	NCOR1	17	15942757	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	419991	15942757	65252453	1174	53017											
NCOR1	9611	broad.mit.edu	37	chr17	15973538	15973538	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtgttttgataactcacaGgggtcctccgtgcactggtg	6	13	13	9	1	1	1	1	1	0	0	3	1	3	1	2	4	2	2	2	4	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:15973538G>T	uc002gpo.2	-	31	4694	c.4454C>A	c.(4453-4455)CCT>CAT	p.P1485H	NCOR1_uc002gpn.2_Missense_Mutation_p.P1501H|NCOR1_uc002gpp.1_Missense_Mutation_p.P1392H|NCOR1_uc002gpm.2_5'Flank|NCOR1_uc010vwb.1_Missense_Mutation_p.P69H|NCOR1_uc010coy.2_Missense_Mutation_p.P393H|NCOR1_uc010vwc.1_Missense_Mutation_p.P296H	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1485	Interaction with ETO.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		ATAACTCACAGGGGTCCTCCG	0.478													57	203					1.82294e-38	2.07961e-38	1	1	0		T	15973538	T	T	15973538	3	4	84	1	0	0	0	0	1	0	0	0	10254	1000	35	5	2932	5	NCOR1	17	15973538	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	30781	15973538	65221672	1175	53018											
TRPV2	51393	broad.mit.edu	37	chr17	16327046	16327046	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaacctgcaggatctcacgCctctgaagctggccgccaag	9	6	11	15	2	2	1	1	1	2	0	3	2	2	2	4	2	3	3	4	2	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:16327046C>A	uc002gpy.2	+	5	1256	c.889C>A	c.(889-891)CCT>ACT	p.P297T	TRPV2_uc002gpz.2_Intron	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	297	Cytoplasmic (Potential).|Required for interaction with SLC50A1 (By similarity).|ANK 6.				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		GGATCTCACGCCTCTGAAGCT	0.602													18	73					4.35082e-09	4.68136e-09	1	1	0		A	16327046	A	A	16327046	3	1	84	1	0	0	0	0	1	0	0	0	16622	739	26	5	903	5	TRPV2	17	16327046	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	353508	16327046	64868164	1176	53019											
MPRIP	23164	broad.mit.edu	37	chr17	17075078	17075078	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggaagaaacgcaccagaAgaagattgaagatctccaga	19	5	10	7	1	1	7	0	1	1	6	2	8	1	8	2	1	1	1	2	1	6	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:17075078A>C	uc002gqu.1	+	16	2266	c.2210A>C	c.(2209-2211)AAG>ACG	p.K737T	MPRIP_uc002gqv.1_Missense_Mutation_p.K737T|MPRIP_uc002gqw.1_Missense_Mutation_p.K492T|MPRIP_uc002gqx.1_Missense_Mutation_p.K966T|MPRIP_uc002gqy.1_Missense_Mutation_p.K966T|MPRIP_uc010cpl.1_5'Flank|MPRIP_uc010cpm.1_5'Flank	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	737	Interaction with RHOA.|Potential.					cytoplasm|cytoskeleton	actin binding				0						ACGCACCAGAAGAAGATTGAA	0.527													9	150					0	0	1	0	0		C	17075078	C	C	17075078	3	2	84	1	0	0	0	0	1	0	0	0	9761	72	3	5	2272	5	MPRIP	17	17075078	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	748032	17075078	64120132	1177	53020											
RAI1	10743	broad.mit.edu	37	chr17	17697887	17697887	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggcagccctgccagggTcaacagcaactcgaaggcca	10	4	12	15	2	1	0	1	0	0	0	2	1	1	0	4	3	5	2	4	3	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:17697887T>C	uc002grm.2	+	3	2094	c.1625T>C	c.(1624-1626)GTC>GCC	p.V542A	RAI1_uc002grn.1_Missense_Mutation_p.V542A	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	542						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CCTGCCAGGGTCAACAGCAAC	0.627													23	61					0	0	1	0	0		C	17697887	C	C	17697887	3	2	84	1	0	0	0	0	1	0	0	0	13032	1667	58	3	1627	3	RAI1	17	17697887	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	622809	17697887	63497323	1178	53021											
MYO15A	51168	broad.mit.edu	37	chr17	18077133	18077133	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctgaaggagatccagtcGacgcggacccagcggcccac	9	3	12	17	4	0	2	0	1	0	1	2	5	1	3	5	3	1	0	5	3	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:18077133G>A	uc010vxh.1	+	64	10727	c.10389G>A	c.(10387-10389)TCG>TCA	p.S3463S	MYO15A_uc010vxi.1_Silent_p.S727S|MYO15A_uc002gsl.2_Missense_Mutation_p.D496N|MYO15A_uc010vxm.1_Intron|MYO15A_uc010cpv.2_Intron	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	3463	Tail.|FERM.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					AGATCCAGTCGACGCGGACCC	0.637													36	75					0	0	1	0	0		A	18077133	A	A	18077133	2	1	84	1	0	0	0	0	0	0	0	1	10081	1045	37	1		1	MYO15A	17	18077133	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	379246	18077133	63118077	1179	53022											
LLGL1	3996	broad.mit.edu	37	chr17	18140983	18140983	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgcctgccgccagctgcTgtaaccgctgtcacactcca	7	8	9	17	2	1	0	1	0	0	0	2	0	2	0	5	0	5	4	5	0	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:18140983T>A	uc002gsp.2	+	14	1861	c.1800T>A	c.(1798-1800)GCT>GCA	p.A600A		NM_004140	NP_004131	Q15334	L2GL1_HUMAN	lethal giant larvae homolog 1	600					cortical actin cytoskeleton organization|exocytosis|protein complex assembly	cortical actin cytoskeleton	protein kinase binding|structural molecule activity			breast(2)|skin(2)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)	6	all_neural(463;0.228)					CGCCAGCTGCTGTAACCGCTG	0.667													15	39					0	0	1	0	0		A	18140983	A	A	18140983	2	1	84	1	0	0	0	0	0	0	0	1	8850	1567	55	5		5	LLGL1	17	18140983	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	63850	18140983	63054227	1180	53023											
FLII	2314	broad.mit.edu	37	chr17	18151054	18151054	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagctcctgacccagctTgagggcggcagcgcgcacca	8	4	13	16	3	0	2	0	2	0	0	1	2	1	2	3	2	3	5	3	2	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:18151054T>C	uc002gsr.1	-	20	2455	c.2404A>G	c.(2404-2406)AAG>GAG	p.K802E	FLII_uc002gsq.1_Missense_Mutation_p.K673E|FLII_uc010cpy.1_Missense_Mutation_p.K791E|FLII_uc010vxn.1_Missense_Mutation_p.K771E|FLII_uc010vxo.1_Missense_Mutation_p.K747E|FLII_uc002gss.1_Missense_Mutation_p.K801E	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	802	Interaction with ACTL6A.				multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					TGACCCAGCTTGAGGGCGGCA	0.687													12	31					0	0	1	0	0		C	18151054	C	C	18151054	3	2	84	1	0	0	0	0	1	0	0	0	5939	1821	63	3	1449	3	FLII	17	18151054	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	10071	18151054	63044156	1181	53024											
FLII	2314	broad.mit.edu	37	chr17	18157847	18157847	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcccaccggagctgtgcaTgcagcagggggtttccattg	6	8	15	12	2	0	0	0	0	0	0	1	1	1	1	3	3	4	5	3	3	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:18157847T>C	uc002gsr.1	-	6	614	c.563A>G	c.(562-564)CAT>CGT	p.H188R	FLII_uc002gsq.1_Missense_Mutation_p.H60R|FLII_uc010cpy.1_Missense_Mutation_p.H177R|FLII_uc010vxn.1_Missense_Mutation_p.H157R|FLII_uc010vxo.1_Intron|FLII_uc002gss.1_Missense_Mutation_p.H188R|uc010vxp.1_5'Flank	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	188	Interaction with LRRFIP1 and LRRFIP2.|LRR 8.				multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					GAGCTGTGCATGCAGCAGGGG	0.677													5	12					0	0	1	0	0		C	18157847	C	C	18157847	3	2	84	1	0	0	0	0	1	0	0	0	5939	1464	51	3	3346	3	FLII	17	18157847	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	6793	18157847	63037363	1182	53025											
SLC5A10	125206	broad.mit.edu	37	chr17	18874389	18874389	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcccaggccattccctccaGgaccattgccaacaccacct	9	6	6	20	1	0	0	0	0	0	0	2	1	2	1	8	2	2	0	8	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:18874389G>T	uc002guu.1	+	8	745	c.704G>T	c.(703-705)AGG>ATG	p.R235M	SLC5A10_uc002gur.1_Missense_Mutation_p.R152M|SLC5A10_uc002gut.1_Missense_Mutation_p.R235M|SLC5A10_uc002guv.1_Missense_Mutation_p.R208M|SLC5A10_uc010vyl.1_Missense_Mutation_p.R235M|FAM83G_uc002guw.2_3'UTR	NM_001042450	NP_001035915	A0PJK1	SC5AA_HUMAN	solute carrier family 5 (sodium/glucose	235	Extracellular (Potential).				sodium ion transport|transmembrane transport	integral to membrane	transporter activity			ovary(1)	1						ATTCCCTCCAGGACCATTGCC	0.617													29	82					3.1745e-13	3.48454e-13	1	1	0		T	18874389	T	T	18874389	3	4	84	1	0	0	0	0	1	0	0	0	14687	1000	35	5	734	5	SLC5A10	17	18874389	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	716542	18874389	62320821	1183	53026											
TNFAIP1	7126	broad.mit.edu	37	chr17	26669397	26669397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgctggtccttttatGgccagggccgtaagctggca	5	12	13	11	1	1	0	0	0	1	0	2	0	2	0	3	4	3	5	3	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:26669397G>A	uc002hax.1	+	6	662	c.643G>A	c.(643-645)GGC>AGC	p.G215S	TNFAIP1_uc002hay.2_Missense_Mutation_p.G215S|TNFAIP1_uc010waf.1_Missense_Mutation_p.G111S	NM_021137	NP_066960	Q13829	BACD2_HUMAN	tumor necrosis factor, alpha-induced protein 1	215					apoptosis|cell migration|DNA replication|embryo development|immune response|negative regulation of Rho protein signal transduction|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|endosome|nucleus|voltage-gated potassium channel complex	GTP-Rho binding|voltage-gated potassium channel activity				0	all_lung(13;0.000294)|Lung NSC(42;0.000964)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		GTCCTTTTATGGCCAGGGCCG	0.567													14	30					0	0	1	0	0		A	26669397	A	A	26669397	3	1	84	1	0	0	0	0	1	0	0	0	16297	1348	47	4	661	4	TNFAIP1	17	26669397	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7795008	26669397	54525813	1184	53027											
RAB34	83871	broad.mit.edu	37	chr17	27042858	27042858	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccagcacctcaaatcgttCcatctcgaagtccactccaa	11	8	5	17	2	2	0	1	0	1	0	7	1	5	0	5	0	1	2	5	0	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:27042858C>A	uc002hce.2	-	4	898	c.274G>T	c.(274-276)GAA>TAA	p.E92*	RAB34_uc002hcg.2_Nonsense_Mutation_p.E92*|RAB34_uc002hcf.2_Nonsense_Mutation_p.E93*|RAB34_uc010was.1_Nonsense_Mutation_p.E149*|RAB34_uc010wat.1_Nonsense_Mutation_p.E149*|RAB34_uc002hch.2_Nonsense_Mutation_p.E92*|RAB34_uc010wau.1_Nonsense_Mutation_p.E70*|RAB34_uc010wav.1_Nonsense_Mutation_p.E150*	NM_031934	NP_114140	Q9BZG1	RAB34_HUMAN	Ras-related protein RAB34 isoform 1	92					protein transport|small GTPase mediated signal transduction	Golgi apparatus	GTP binding				0	Lung NSC(42;0.00431)					TCAAATCGTTCCATCTCGAAG	0.537													53	160					2.12129e-23	2.39953e-23	1	1	0		A	27042858	A	A	27042858	4	1	84	1	0	0	0	0	0	1	0	0	12949	864	30	5	597	5	RAB34	17	27042858	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	373461	27042858	54152352	1185	53028											
TAOK1	57551	broad.mit.edu	37	chr17	27869900	27869900	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccaatgcaaggggtacctCgaggtagcagtatgggagtc	10	7	16	8	1	0	0	0	0	0	0	2	2	0	1	2	5	3	5	2	5	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:27869900C>T	uc002hdz.1	+	20	3060	c.2866C>T	c.(2866-2868)CGA>TGA	p.R956*	TAOK1_uc010wbe.1_Nonsense_Mutation_p.R808*|TAOK1_uc010wbf.1_Nonsense_Mutation_p.R956*	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	956					mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			AGGGGTACCTCGAGGTAGCAG	0.632													11	33					0	0	1	0	0		T	27869900	T	T	27869900	4	4	84	1	0	0	0	0	0	1	0	0	15572	876	31	1	2940	1	TAOK1	17	27869900	Nonsense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	827042	27869900	53325310	1186	53029											
SLFN11	91607	broad.mit.edu	37	chr17	33689788	33689788	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtcatcatgcctacccAtttctcggttgtcaggctgc	5	14	9	13	1	5	0	3	0	2	0	6	0	5	0	2	2	3	2	2	2	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:33689788A>G	uc010ctp.2	-	4	1481	c.1039T>C	c.(1039-1041)TGG>CGG	p.W347R	SLFN11_uc010ctq.2_Missense_Mutation_p.W347R|SLFN11_uc002hjh.3_Missense_Mutation_p.W347R|SLFN11_uc002hjg.3_Missense_Mutation_p.W347R|SLFN11_uc010ctr.2_Missense_Mutation_p.W347R	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	347						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		ATGCCTACCCATTTCTCGGTT	0.483													24	63					0	0	1	0	0		G	33689788	G	G	33689788	3	3	84	1	0	0	0	0	1	0	0	0	14758	217	8	3	1682	3	SLFN11	17	33689788	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	5819888	33689788	47505422	1187	53030											
GAS2L2	246176	broad.mit.edu	37	chr17	34074093	34074093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgctccccgttccctgcgggGtctgggggaggatggggtgg	2	9	20	10	2	1	0	0	0	1	0	3	2	3	2	3	8	2	2	3	8	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:34074093G>A	uc002hjv.1	-	5	1055	c.1027C>T	c.(1027-1029)CCC>TCC	p.P343S		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	343					cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TCCCTGCGGGGTCTGGGGGAG	0.627													37	67					0	0	1	0	0		A	34074093	A	A	34074093	3	1	84	1	0	0	0	0	1	0	0	0	6262	1261	44	4	1623	4	GAS2L2	17	34074093	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	384305	34074093	47121117	1188	53031											
RDM1	201299	broad.mit.edu	37	chr17	34251627	34251627	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttcctccaccttatccatAggctcctccaccaagccaat	9	10	3	19	0	0	0	0	0	0	0	5	0	5	0	9	1	1	1	9	1	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:34251627A>G	uc002hkh.2	-	4	598	c.549T>C	c.(547-549)CCT>CCC	p.P183P	RDM1_uc010cty.2_Intron|RDM1_uc010ctz.2_Intron|RDM1_uc010cua.2_Silent_p.P160P|RDM1_uc002hkg.3_Silent_p.P160P|RDM1_uc010cub.2_Intron|RDM1_uc010cud.2_Silent_p.P183P|RDM1_uc010cuf.2_Intron|RDM1_uc010cue.2_Intron|RDM1_uc010cug.2_Intron|RDM1_uc010cuc.2_Intron|RDM1_uc010wco.1_Intron|RDM1_uc010wcp.1_Silent_p.P160P|RDM1_uc002hki.2_Silent_p.P183P	NM_145654	NP_663629	Q8NG50	RDM1_HUMAN	RAD52 motif 1 isoform 1	183					DNA recombination|DNA repair	Cajal body|cytoplasm|nucleolus|PML body	DNA binding|nucleotide binding|RNA binding			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		CCTTATCCATAGGCTCCTCCA	0.478								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					65	154					0	0	1	0	0		G	34251627	G	G	34251627	2	3	84	1	0	0	0	0	0	0	0	1	13222	407	15	3		3	RDM1	17	34251627	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	177534	34251627	46943583	1189	53032											
GSDMB	55876	broad.mit.edu	37	chr17	38066132	38066132	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accagatacaggttttctctCgtattaattgatcggaatga	12	14	8	7	2	1	3	0	2	1	1	4	4	1	4	1	2	1	2	1	2	4	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:38066132C>T	uc010cwj.2	-	3	458	c.453G>A	c.(451-453)ACG>ACA	p.T151T	GSDMB_uc010cwi.2_5'Flank|GSDMB_uc010cwk.2_RNA|GSDMB_uc010cwl.2_RNA|GSDMB_uc010cwm.2_Intron|GSDMB_uc002htg.2_Silent_p.T151T|GSDMB_uc002hth.2_Silent_p.T151T|GSDMB_uc010wem.1_Silent_p.T151T	NM_001042471	NP_001035936	Q8TAX9	GSDMB_HUMAN	gasdermin B isoform 1	151						cytoplasm				breast(1)|pancreas(1)	2						GGTTTTCTCTCGTATTAATTG	0.468													16	77					0	0	1	0	0		T	38066132	T	T	38066132	2	4	84	1	0	0	0	0	0	0	0	1	6833	871	31	1		1	GSDMB	17	38066132	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3814505	38066132	43129078	1190	53033											
PSMD3	5709	broad.mit.edu	37	chr17	38146397	38146397	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggcccggagaacgatgAccaacgcccttcgcaaggcc	11	3	12	15	4	0	3	0	1	0	2	1	5	0	3	4	3	2	1	4	3	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:38146397A>G	uc002htn.1	+	6	1092	c.928A>G	c.(928-930)ACC>GCC	p.T310A	PSMD3_uc010wen.1_RNA|PSMD3_uc010weo.1_Missense_Mutation_p.T211A	NM_002809	NP_002800	O43242	PSMD3_HUMAN	proteasome 26S non-ATPase subunit 3	310					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	enzyme regulator activity|protein binding			ovary(1)|pancreas(1)	2	Colorectal(19;0.000442)					GAGAACGATGACCAACGCCCT	0.527													9	68					0	0	1	0	0		G	38146397	G	G	38146397	3	3	84	1	0	0	0	0	1	0	0	0	12721	275	10	3	950	3	PSMD3	17	38146397	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	80265	38146397	43048813	1191	53034											
CASC3	22794	broad.mit.edu	37	chr17	38324130	38324130	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggaccaatctatacccAtggtgacagccctgccccgc	9	6	9	17	1	1	1	0	1	1	0	1	2	1	2	6	2	3	0	6	2	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:38324130A>G	uc010cwt.1	+	10	1974	c.1679A>G	c.(1678-1680)CAT>CGT	p.H560R	CASC3_uc002hue.2_Missense_Mutation_p.H560R	NM_007359	NP_031385	O15234	CASC3_HUMAN	metastatic lymph node 51	560	Necessary for localization in cytoplasmic stress granules.				mRNA processing|mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|response to stress|RNA splicing	exon-exon junction complex|nuclear speck|perinuclear region of cytoplasm	identical protein binding|RNA binding|ubiquitin protein ligase binding			ovary(1)	1						ATCTATACCCATGGTGACAGC	0.517													49	165					0	0	1	0	0		G	38324130	G	G	38324130	3	3	84	1	0	0	0	0	1	0	0	0	2664	217	8	3	1717	3	CASC3	17	38324130	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	177733	38324130	42871080	1192	53035											
KRT10	3858	broad.mit.edu	37	chr17	38978389	38978389	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggtcattcagattctgcAtggttactttttcatttcca	7	17	8	9	1	4	1	3	0	1	1	5	1	5	1	1	3	2	2	1	3	1	6	rs58901407		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:38978389A>G	uc002hvi.2	-	1	475	c.449T>C	c.(448-450)ATG>ACG	p.M150T	KRT10_uc010cxd.2_5'Flank|TMEM99_uc002hvj.1_Intron	NM_000421	NP_000412	P13645	K1C10_HUMAN	keratin 10	150	Coil 1A.|Rod.|Gly-rich.		M -> T (in a patient with epidermal nevi hyperkeratotic type due to genetic mosaicism).		epidermis development		protein binding|structural constituent of epidermis				0		Breast(137;0.000301)				CAGATTCTGCATGGTTACTTT	0.368													14	64					0	0	1	0	0		G	38978389	G	G	38978389	3	3	84	1	0	0	0	0	1	0	0	0	8464	217	8	3	1337	3	KRT10	17	38978389	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	654259	38978389	42216821	1193	53036											
KRT33B	3884	broad.mit.edu	37	chr17	39520151	39520151	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacaaggattggtgacacaGgatccaatgggcttttcaca	12	9	10	10	0	1	1	1	1	0	0	2	3	2	3	2	4	0	1	2	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:39520151G>T	uc002hwl.2	-	7	1197	c.1152C>A	c.(1150-1152)TCC>TCA	p.S384S		NM_002279	NP_002270	Q14525	KT33B_HUMAN	type I hair keratin 3B	384	Tail.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				TGGTGACACAGGATCCAATGG	0.542													26	86					3.7963e-18	4.24465e-18	1	1	0		T	39520151	T	T	39520151	2	4	84	1	0	0	0	0	0	0	0	1	8486	987	35	5		5	KRT33B	17	39520151	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	541762	39520151	41675059	1194	53037											
KRT16	3868	broad.mit.edu	37	chr17	39767417	39767417	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgcggctcaggtccacGccaggtgcagcatccatctc	8	7	12	14	2	2	0	1	0	1	0	5	1	4	1	3	4	3	3	3	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:39767417G>A	uc002hxg.3	-	4	976	c.837C>T	c.(835-837)GGC>GGT	p.G279G	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	279	Linker 12.|Rod.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				TCAGGTCCACGCCAGGTGCAG	0.587													39	107					0	0	1	0	0		A	39767417	A	A	39767417	2	1	84	1	0	0	0	0	0	0	0	1	8469	1074	38	1		1	KRT16	17	39767417	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	247266	39767417	41427793	1195	53038											
TTC25	83538	broad.mit.edu	37	chr17	40093140	40093140	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcttctgggggagctctaCgtggacaaagagtatttgga	10	10	14	7	1	2	1	0	0	2	1	2	4	2	4	0	4	3	3	0	4	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:40093140C>T	uc002hyj.3	+	5	674	c.585C>T	c.(583-585)TAC>TAT	p.Y195Y	TTC25_uc010cxt.2_RNA|TTC25_uc010cxs.1_Silent_p.Y195Y	NM_031421	NP_113609	Q96NG3	TTC25_HUMAN	tetratricopeptide repeat domain 25	195						cytoplasm	protein binding			ovary(1)	1		all_cancers(22;8.16e-06)|Breast(137;0.000143)|all_epithelial(22;0.000236)				GGGAGCTCTACGTGGACAAAG	0.542													35	117					0	0	1	0	0		T	40093140	T	T	40093140	2	4	84	1	0	0	0	0	0	0	0	1	16719	547	19	1		1	TTC25	17	40093140	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	325723	40093140	41102070	1196	53039											
PLEKHH3	79990	broad.mit.edu	37	chr17	40828492	40828492	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtcctcgtccccgtccccGctaagctcgccgtccccgta	3	9	8	21	7	0	0	0	0	0	0	7	0	4	0	8	0	1	3	8	0	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:40828492G>A	uc002iau.2	-	1	557	c.90C>T	c.(88-90)AGC>AGT	p.S30S	PLEKHH3_uc002iat.1_5'Flank|PLEKHH3_uc002iav.2_RNA|PLEKHH3_uc010cym.1_5'UTR|PLEKHH3_uc002iaw.2_Silent_p.S30S	NM_024927	NP_079203	Q7Z736	PKHH3_HUMAN	pleckstrin homology domain containing, family H	30					signal transduction	cytoskeleton				large_intestine(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.14)		CCCCGTCCCCGCTAAGCTCGC	0.687													12	27					0	0	1	0	0		A	40828492	A	A	40828492	2	1	84	1	0	0	0	0	0	0	0	1	12097	1078	38	1		1	PLEKHH3	17	40828492	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	735352	40828492	40366718	1197	53040											
CNTNAP1	8506	broad.mit.edu	37	chr17	40839807	40839807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggaggccctcacaacttcGttcaagtgcccggtttccca	7	10	9	15	3	2	0	2	0	0	0	5	1	3	1	3	3	2	2	3	3	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:40839807G>A	uc002iay.2	+	8	1330	c.1114G>A	c.(1114-1116)GTT>ATT	p.V372I	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	372	Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		TCACAACTTCGTTCAAGTGCC	0.602													54	128					0	0	1	0	0		A	40839807	A	A	40839807	3	1	84	1	0	0	0	0	1	0	0	0	3649	1145	40	1	1144	1	CNTNAP1	17	40839807	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	11315	40839807	40355403	1198	53041											
BRCA1	672	broad.mit.edu	37	chr17	41226527	41226527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catctaatgatgggcatttaGaaggggatgacctagaaaga	15	9	12	5	0	1	5	0	2	1	3	1	6	1	6	1	3	0	1	1	3	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:41226527G>A	uc002icq.2	-	14	4728	c.4496C>T	c.(4495-4497)TCT>TTT	p.S1499F	BRCA1_uc010whp.1_Missense_Mutation_p.S348F|BRCA1_uc010whl.1_Missense_Mutation_p.S395F|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.S1428F|BRCA1_uc002icu.2_Missense_Mutation_p.S395F|BRCA1_uc010cyx.2_Missense_Mutation_p.S1452F|BRCA1_uc002ict.2_Missense_Mutation_p.S1520F|BRCA1_uc010whn.1_5'UTR|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Missense_Mutation_p.S228F|BRCA1_uc002idc.1_Missense_Mutation_p.S395F|BRCA1_uc010whr.1_Missense_Mutation_p.S349F	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	1499					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TGGGCATTTAGAAGGGGATGA	0.423			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			13	22					0	0	1	0	0		A	41226527	A	A	41226527	3	1	84	1	0	0	0	0	1	0	0	0	1501	942	33	4	1135	4	BRCA1	17	41226527	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	386720	41226527	39968683	1199	53042											
NBR1	4077	broad.mit.edu	37	chr17	41345126	41345126	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggctccctttgcagccCtgtacctccgttatgccaat	6	13	7	15	1	1	0	1	0	0	0	3	0	3	0	5	1	4	4	5	1	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:41345126C>A	uc010czd.2	+	11	1229	c.1089C>A	c.(1087-1089)CCC>CCA	p.P363P	NBR1_uc010diz.2_Silent_p.P363P|NBR1_uc010whu.1_Silent_p.P363P|NBR1_uc010whv.1_Silent_p.P363P|NBR1_uc010whw.1_Silent_p.P342P|NBR1_uc010whx.1_Silent_p.P172P	NM_031862	NP_114068	Q14596	NBR1_HUMAN	neighbor of BRCA1 gene 1	363					macroautophagy|protein oligomerization	autophagic vacuole|cytoplasmic vesicle|cytosol|late endosome|lysosome|sarcomere	ubiquitin binding|zinc ion binding			skin(1)	1		Breast(137;0.00086)		BRCA - Breast invasive adenocarcinoma(366;0.0934)		CTTTGCAGCCCTGTACCTCCG	0.478													9	39					7.48243e-07	7.89007e-07	1	1	0		A	41345126	A	A	41345126	2	1	84	1	0	0	0	0	0	0	0	1	10219	668	24	5		5	NBR1	17	41345126	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	118599	41345126	39850084	1200	53043											
HDAC5	10014	broad.mit.edu	37	chr17	42160038	42160038	+	Frame_Shift_Del	DEL	C	-	-																															cagagttgaagaagcagaatCccctgaggaggggagaaaag																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:42160038delC	uc002ifd.1	-	20	2733	c.2522delG	c.(2521-2523)GGAfs	p.G841fs	HDAC5_uc002ife.1_Frame_Shift_Del_p.G841fs|HDAC5_uc002iff.1_Frame_Shift_Del_p.G842fs|HDAC5_uc010czp.1_Frame_Shift_Del_p.G756fs|HDAC5_uc002ifg.1_Frame_Shift_Del_p.G151fs|HDAC5_uc002ifh.2_Frame_Shift_Del_p.G841fs	NM_005474	NP_005465	Q9UQL6	HDAC5_HUMAN	histone deacetylase 5 isoform 1	841	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|chromatin remodeling|chromatin silencing|inflammatory response|negative regulation of cell migration involved in sprouting angiogenesis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			ovary(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.118)		GAAGCAGAATCCCCTGAGGAG	0.557													15	33	---	---	---	---						.	-	42160038	-	-	42160038	7	5	84	1	0	1	0	1	0	0	0	0	7026	855	30	0	878	0	HDAC5	17	42160038	Frame_Shift_Del	DEL	C	TCGA-BR-8591-01A-11D-2394-08	814912	42160038	39035172	1201	53044											
DBF4B	80174	broad.mit.edu	37	chr17	42811492	42811492	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaacagctgtctcttgcGtctttatgtgtgaaaaaaca	11	13	9	8	1	2	1	0	1	2	0	3	1	2	1	0	0	5	2	0	0	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:42811492G>A	uc002ihf.2	+	7	804	c.591G>A	c.(589-591)GCG>GCA	p.A197A	DBF4B_uc010wjb.1_RNA|DBF4B_uc002ihe.2_Silent_p.A11A|DBF4B_uc010wjc.1_Silent_p.A181A	NM_145663	NP_663696	Q8NFT6	DBF4B_HUMAN	DBF4 homolog B isoform 1	197					cell cycle	nucleus	nucleic acid binding|zinc ion binding				0		Prostate(33;0.0322)				TGTCTCTTGCGTCTTTATGTG	0.458													28	55					0	0	1	0	0		A	42811492	A	A	42811492	2	1	84	1	0	0	0	0	0	0	0	1	4252	1132	40	1		1	DBF4B	17	42811492	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	651454	42811492	38383718	1202	53045											
CRHR1	1394	broad.mit.edu	37	chr17	43907871	43907871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagggctgctacctgcacaCagccatcgtgctcacctact	8	8	9	16	2	1	0	1	0	0	0	2	1	1	0	3	1	6	4	3	1	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:43907871C>T	uc010dap.2	+	8	996	c.731C>T	c.(730-732)ACA>ATA	p.T244I	CRHR1_uc010wjx.1_Missense_Mutation_p.T40I|CRHR1_uc002ijp.2_Missense_Mutation_p.T114I|CRHR1_uc002ijm.2_Missense_Mutation_p.T215I|CRHR1_uc002ijn.2_Missense_Mutation_p.T175I|CRHR1_uc010dar.2_Missense_Mutation_p.T215I|CRHR1_uc010dao.2_Missense_Mutation_p.T114I|CRHR1_uc010daq.2_Missense_Mutation_p.T40I	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	244	Cytoplasmic (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		TACCTGCACACAGCCATCGTG	0.607													11	203					0	0	1	0	0		T	43907871	T	T	43907871	3	4	84	1	0	0	0	0	1	0	0	0	3874	478	17	4	761	4	CRHR1	17	43907871	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1096379	43907871	37287339	1203	53046											
KIAA1267	284058	broad.mit.edu	37	chr17	44249250	44249250	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttgagggaacagatgttAcatcagagcagagataagat	15	9	11	6	0	1	5	1	1	0	4	1	7	1	6	1	1	3	2	1	1	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:44249250A>G	uc002ikb.2	-	1	345	c.260T>C	c.(259-261)GTA>GCA	p.V87A	KIAA1267_uc002ikc.2_Missense_Mutation_p.V87A|KIAA1267_uc002ikd.2_Missense_Mutation_p.V87A|KIAA1267_uc010dav.2_Missense_Mutation_p.V87A	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	87						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				AACAGATGTTACATCAGAGCA	0.458													35	81					0	0	1	0	0		G	44249250	G	G	44249250	3	3	84	1	0	0	0	0	1	0	0	0	8235	391	14	3	3113	3	KIAA1267	17	44249250	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	341379	44249250	36945960	1204	53047											
IGF2BP1	10642	broad.mit.edu	37	chr17	47123659	47123659	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgacggcagctgaggtggTagtaccaagagaccagaccc	11	7	13	10	1	0	4	0	2	0	2	0	5	0	4	3	3	2	4	3	3	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:47123659T>C	uc002iom.2	+	14	1899	c.1565T>C	c.(1564-1566)GTA>GCA	p.V522A	IGF2BP1_uc010dbj.2_Missense_Mutation_p.V383A	NM_006546	NP_006537	Q9NZI8	IF2B1_HUMAN	insulin-like growth factor 2 mRNA binding	522	Necessary for interaction with ELAVL4 and binding to TAU mRNA (By similarity).|KH 4.				CRD-mediated mRNA stabilization|negative regulation of translation|regulation of mRNA stability involved in response to stress	CRD-mediated mRNA stability complex|cytosol|dendritic spine|lamellipodium|nucleus|plasma membrane|stress granule	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			kidney(1)	1						GCTGAGGTGGTAGTACCAAGA	0.542													6	117					0	0	1	0	0		C	47123659	C	C	47123659	3	2	84	1	0	0	0	0	1	0	0	0	7589	1638	57	3	1619	3	IGF2BP1	17	47123659	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2874409	47123659	34071551	1205	53048											
ABCC3	8714	broad.mit.edu	37	chr17	48750362	48750362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctgggggccagcggcagCgggtcagtctggctcgagct	4	8	18	11	3	3	0	1	0	2	0	4	1	3	0	1	5	3	3	1	5	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:48750362C>T	uc002isl.2	+	18	2352	c.2272C>T	c.(2272-2274)CGG>TGG	p.R758W		NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	758	ABC transporter 1.|Cytoplasmic (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	CCAGCGGCAGCGGGTCAGTCT	0.587													25	65					0	0	1	0	0		T	48750362	T	T	48750362	3	4	84	1	0	0	0	0	1	0	0	0	54	759	27	1	2426	1	ABCC3	17	48750362	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1626703	48750362	32444848	1206	53049											
AKAP1	8165	broad.mit.edu	37	chr17	55189188	55189188	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcggctaattggcaagcaGgggcgctatgtgagttttct	7	12	15	7	2	1	1	0	1	1	0	2	1	1	1	0	5	1	5	0	5	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:55189188G>A	uc002iux.2	+	4	2109	c.1878G>A	c.(1876-1878)CAG>CAA	p.Q626Q	AKAP1_uc010wnl.1_Silent_p.Q626Q|AKAP1_uc002iuy.2_RNA|AKAP1_uc010dcm.2_Silent_p.Q626Q	NM_003488	NP_003479	Q92667	AKAP1_HUMAN	A-kinase anchor protein 1 precursor	626	KH.				blood coagulation	cytosol|integral to membrane|mitochondrial outer membrane	protein binding|RNA binding			ovary(1)	1	Breast(9;5.46e-08)					TTGGCAAGCAGGGGCGCTATG	0.483													14	95					0	0	1	0	0		A	55189188	A	A	55189188	2	1	84	1	0	0	0	0	0	0	0	1	445	991	35	4		4	AKAP1	17	55189188	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	6438826	55189188	26006022	1207	53050											
LPO	4025	broad.mit.edu	37	chr17	56344853	56344853	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acatcgacatctggatagggGccattgctgagccgctggtg	8	9	14	10	2	1	1	0	1	1	0	2	3	1	2	2	4	2	2	2	4	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:56344853G>A	uc002ivt.2	+	12	2153	c.1837G>A	c.(1837-1839)GCC>ACC	p.A613T	LPO_uc010wns.1_Missense_Mutation_p.A554T|LPO_uc010dcp.2_Missense_Mutation_p.A530T|LPO_uc010dcq.2_Missense_Mutation_p.A284T|LPO_uc010dcr.2_Missense_Mutation_p.A176T	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	613					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						CTGGATAGGGGCCATTGCTGA	0.577													29	78					0	0	1	0	0		A	56344853	A	A	56344853	3	1	84	1	0	0	0	0	1	0	0	0	8940	1203	42	2	1879	2	LPO	17	56344853	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1155665	56344853	24850357	1208	53051											
C17orf71	55181	broad.mit.edu	37	chr17	57289053	57289053	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtccagcatttcacaaataCgccatgcagttacatgagga	13	9	9	10	1	1	1	1	1	0	0	2	2	2	2	2	2	4	3	2	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:57289053C>T	uc002ixi.2	+	1	1683	c.1641C>T	c.(1639-1641)TAC>TAT	p.Y547Y		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	547					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					TTCACAAATACGCCATGCAGT	0.438													18	60					0	0	1	0	0		T	57289053	T	T	57289053	2	4	84	1	0	0	0	0	0	0	0	1	1881	547	19	1		1	C17orf71	17	57289053	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	944200	57289053	23906157	1209	53052											
RNFT1	51136	broad.mit.edu	37	chr17	58040355	58040355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcactgtgggagtgacccCgtaagcgactgtgtacacat	9	10	11	11	2	1	1	1	1	0	0	1	3	1	2	2	1	2	2	2	1	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:58040355C>T	uc002iya.2	-	2	440	c.347G>A	c.(346-348)CGG>CAG	p.R116Q	uc002iye.1_5'Flank|RNFT1_uc002iyb.2_RNA|RNFT1_uc002iyc.2_5'UTR|RNFT1_uc010wop.1_Missense_Mutation_p.R116Q|RNFT1_uc002iyd.3_Missense_Mutation_p.R116Q	NM_016125	NP_057209	Q5M7Z0	RNFT1_HUMAN	PTD016 protein	116						integral to membrane	zinc ion binding				0	all_cancers(5;1.58e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;7.95e-12)|all cancers(12;1.34e-10)			GGAGTGACCCCGTAAGCGACT	0.468													28	51					0	0	1	0	0		T	58040355	T	T	58040355	3	4	84	1	0	0	0	0	1	0	0	0	13526	652	23	1	992	1	RNFT1	17	58040355	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	751302	58040355	23154855	1210	53053											
USP32	84669	broad.mit.edu	37	chr17	58259002	58259002	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgctgccaatctggggcaGccggagcctccctttgctcc	4	11	11	15	1	1	0	0	0	1	0	3	1	3	1	5	3	5	3	5	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:58259002G>A	uc002iyo.1	-	32	4517	c.4231C>T	c.(4231-4233)CTG>TTG	p.L1411L	USP32_uc002iyn.1_Silent_p.L1081L	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	1411					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			ATCTGGGGCAGCCGGAGCCTC	0.512													14	48					0	0	1	0	0		A	58259002	A	A	58259002	2	1	84	1	0	0	0	0	0	0	0	1	17089	962	34	2		2	USP32	17	58259002	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	218647	58259002	22936208	1211	53054											
CD79B	974	broad.mit.edu	37	chr17	62007589	62007589	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcttccatgcggccctttTccagcttcagctgctgggga	5	12	10	14	1	2	0	1	0	1	0	4	1	4	1	3	3	4	3	3	3	0	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:62007589T>C	uc002jdq.1	-	3	358	c.275A>G	c.(274-276)GAA>GGA	p.E92G	CD79B_uc002jdo.1_Missense_Mutation_p.E66G|CD79B_uc002jdp.1_Missense_Mutation_p.E93G|CD79B_uc002jdr.1_Intron	NM_000626	NP_000617	P40259	CD79B_HUMAN	CD79B antigen isoform 1 precursor	92	Extracellular (Potential).|Ig-like V-type.				cell surface receptor linked signaling pathway|immune response	Golgi apparatus|integral to plasma membrane|nucleus	transmembrane receptor activity				0						GCGGCCCTTTTCCAGCTTCAG	0.547			Mis|O		DLBCL								25	59					0	0	1	0	0		C	62007589	C	C	62007589	3	2	84	1	0	0	0	0	1	0	0	0	3040	1783	62	3	430	3	CD79B	17	62007589	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	3748587	62007589	19187621	1212	53055											
NOL11	25926	broad.mit.edu	37	chr17	65733740	65733740	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacttctggaaaggtgtaaAgcagaaccatcattttatcc	13	11	9	8	0	2	1	1	0	1	1	3	3	3	3	2	3	2	2	2	3	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:65733740A>C	uc002jgd.1	+	12	1338	c.1335A>C	c.(1333-1335)AAA>AAC	p.K445N	NOL11_uc010wql.1_Missense_Mutation_p.K263N|NOL11_uc010deu.1_Missense_Mutation_p.K40N	NM_015462	NP_056277	Q9H8H0	NOL11_HUMAN	nucleolar protein 11	445						nucleolus					0	all_cancers(12;1.54e-10)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0518)|COAD - Colon adenocarcinoma(4;0.0977)|LUSC - Lung squamous cell carcinoma(166;0.24)			AAAGGTGTAAAGCAGAACCAT	0.443													42	112					0	0	1	0	0		C	65733740	C	C	65733740	3	2	84	1	0	0	0	0	1	0	0	0	10540	69	3	5	1381	5	NOL11	17	65733740	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	3726151	65733740	15461470	1213	53056											
SLC16A6	9120	broad.mit.edu	37	chr17	66267454	66267454	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatggagaagtctaataGcggggctttcttttcgcttg	10	13	11	7	2	2	1	0	0	2	1	3	2	2	1	0	3	1	2	0	3	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:66267454G>A	uc002jgz.1	-	5	1035	c.847C>T	c.(847-849)CTA>TTA	p.L283L	ARSG_uc002jhc.2_Intron|SLC16A6_uc002jha.1_Silent_p.L283L	NM_004694	NP_004685	O15403	MOT7_HUMAN	solute carrier family 16, member 6	283	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity				0	all_cancers(12;1.24e-09)		BRCA - Breast invasive adenocarcinoma(8;3.17e-08)|LUSC - Lung squamous cell carcinoma(166;0.24)		Pyruvic acid(DB00119)	AAGTCTAATAGCGGGGCTTTC	0.458													15	57					0	0	1	0	0		A	66267454	A	A	66267454	2	1	84	1	0	0	0	0	0	0	0	1	14437	962	34	2		2	SLC16A6	17	66267454	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	533714	66267454	14927756	1214	53057											
ABCA10	10349	broad.mit.edu	37	chr17	67152020	67152020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacatcttcatcttcttcttCgggctcttccggattgggat	6	16	8	11	2	6	0	1	0	5	0	8	2	7	2	1	3	1	1	1	3	1	6	rs150472849	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:67152020C>T	uc010dfa.1	-	30	4381	c.3502G>A	c.(3502-3504)GAA>AAA	p.E1168K	ABCA10_uc010wqs.1_Missense_Mutation_p.E160K|ABCA10_uc010wqt.1_RNA	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	1168					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TCTTCTTCTTCGGGCTCTTCC	0.423													27	84					0	0	1	0	0		T	67152020	T	T	67152020	3	4	84	1	0	0	0	0	1	0	0	0	29	893	31	1	1173	1	ABCA10	17	67152020	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	884566	67152020	14043190	1215	53058											
ABCA5	23461	broad.mit.edu	37	chr17	67298973	67298973	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaataaatccaaaagccacAgtaacaaaaaattcaactat	22	7	2	10	0	1	0	1	0	0	0	2	0	2	0	3	0	3	1	3	0	11	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:67298973A>C	uc002jif.2	-	7	2223	c.1005T>G	c.(1003-1005)ACT>ACG	p.T335T	ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Silent_p.T335T|ABCA5_uc002jih.2_Silent_p.T335T|ABCA5_uc010dfe.2_Silent_p.T335T	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	335	Helical; (Potential).				cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					CAAAAGCCACAGTAACAAAAA	0.313													7	22					0	0	1	0	0		C	67298973	C	C	67298973	2	2	84	1	0	0	0	0	0	0	0	1	35	175	7	5		5	ABCA5	17	67298973	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	146953	67298973	13896237	1216	53059											
ABCA5	23461	broad.mit.edu	37	chr17	67305446	67305446	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatactggaatcatatcaggAaaaaaacgaagttcatagga	19	8	9	5	1	3	0	3	0	0	0	3	5	3	3	0	3	2	1	0	3	8	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:67305446A>G	uc002jif.2	-	3	1644	c.426T>C	c.(424-426)TTT>TTC	p.F142F	ABCA5_uc002jig.2_Silent_p.F142F|ABCA5_uc002jih.2_Silent_p.F142F|ABCA5_uc010dfe.2_Silent_p.F142F	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	142					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					TCATATCAGGAAAAAAACGAA	0.343													10	39					0	0	1	0	0		G	67305446	G	G	67305446	2	3	84	1	0	0	0	0	0	0	0	1	35	243	9	3		3	ABCA5	17	67305446	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	6473	67305446	13889764	1217	53060											
SDK2	54549	broad.mit.edu	37	chr17	71386498	71386498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgggtctgggccgtgatgcGgaacaggtagacagactctg	8	7	17	9	3	2	3	0	1	2	2	2	4	2	4	1	4	2	1	1	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:71386498G>A	uc010dfm.2	-	29	4120	c.4120C>T	c.(4120-4122)CGC>TGC	p.R1374C	SDK2_uc002jjt.3_Missense_Mutation_p.R533C|SDK2_uc010dfn.2_Missense_Mutation_p.R1053C	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1374	Fibronectin type-III 8.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						GCCGTGATGCGGAACAGGTAG	0.672													6	18					0	0	1	0	0		A	71386498	A	A	71386498	3	1	84	1	0	0	0	0	1	0	0	0	13994	1116	39	1	2466	1	SDK2	17	71386498	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4081052	71386498	9808712	1218	53061											
KIF19	124602	broad.mit.edu	37	chr17	72345358	72345358	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaacgtctcctaccacatCgcccagtacaccagcatcat	11	8	5	17	2	2	1	1	1	1	0	4	1	2	1	4	0	4	2	4	0	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:72345358C>T	uc002jkm.3	+	10	1221	c.1083C>T	c.(1081-1083)ATC>ATT	p.I361I	KIF19_uc002jkj.2_Silent_p.I361I|KIF19_uc002jkk.2_Silent_p.I319I|KIF19_uc002jkl.2_Silent_p.I319I	NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	361	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						CCTACCACATCGCCCAGTACA	0.647													12	49					0	0	1	0	0		T	72345358	T	T	72345358	2	4	84	1	0	0	0	0	0	0	0	1	8298	874	31	1		1	KIF19	17	72345358	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	958860	72345358	8849852	1219	53062											
KIF19	124602	broad.mit.edu	37	chr17	72346664	72346664	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggagctggagaaccgCgccatggaggtccagattga	9	7	15	10	2	0	3	0	1	0	2	1	6	1	5	3	4	3	2	3	4	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:72346664C>T	uc002jkm.3	+	11	1476	c.1338C>T	c.(1336-1338)CGC>CGT	p.R446R	KIF19_uc002jkj.2_Silent_p.R446R|KIF19_uc002jkk.2_Silent_p.R404R|KIF19_uc002jkl.2_Silent_p.R404R	NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	446	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						TGGAGAACCGCGCCATGGAGG	0.672													10	32					0	0	1	0	0		T	72346664	T	T	72346664	2	4	84	1	0	0	0	0	0	0	0	1	8298	755	27	1		1	KIF19	17	72346664	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1306	72346664	8848546	1220	53063											
FDXR	2232	broad.mit.edu	37	chr17	72860170	72860170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctcccgtgggcactgcaCgggtggcctcatcgacaccc	5	8	12	16	3	2	0	1	0	1	0	4	1	2	0	3	3	1	2	3	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:72860170C>T	uc002jly.2	-	10	1109	c.1022G>A	c.(1021-1023)CGT>CAT	p.R341H	FDXR_uc010wri.1_Missense_Mutation_p.R289H|FDXR_uc010wrj.1_Missense_Mutation_p.R339H|FDXR_uc002jlw.2_Missense_Mutation_p.R98H|FDXR_uc002jlx.2_Missense_Mutation_p.R347H|FDXR_uc002jmc.2_Missense_Mutation_p.R313H|FDXR_uc010wrk.1_Missense_Mutation_p.R372H|FDXR_uc010wrl.1_Missense_Mutation_p.R384H|FDXR_uc002jma.2_Missense_Mutation_p.R342H|FDXR_uc010wrm.1_Missense_Mutation_p.R301H|FDXR_uc002jlz.2_Missense_Mutation_p.R333H|FDXR_uc002jmb.2_Intron	NM_024417	NP_077728	P22570	ADRO_HUMAN	ferredoxin reductase isoform 1 precursor	341					cholesterol metabolic process|electron transport chain|steroid biosynthetic process|transport	mitochondrial matrix	ferredoxin-NADP+ reductase activity|protein binding				0	all_lung(278;0.172)|Lung NSC(278;0.207)					GGGCACTGCACGGGTGGCCTC	0.617													24	72					0	0	1	0	0		T	72860170	T	T	72860170	3	4	84	1	0	0	0	0	1	0	0	0	5821	536	19	1	465	1	FDXR	17	72860170	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	513506	72860170	8335040	1221	53064											
NUP85	79902	broad.mit.edu	37	chr17	73208107	73208107	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attggttcgagtgagtaaaaActaccgatcagtcatcagag	14	10	10	7	2	3	2	3	1	0	1	4	4	3	2	1	1	2	2	1	1	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:73208107A>T	uc002jng.1	+	4	571	c.311A>T	c.(310-312)AAC>ATC	p.N104I	NUP85_uc010dgd.1_Missense_Mutation_p.N104I|NUP85_uc010wrv.1_Missense_Mutation_p.N58I	NM_024844	NP_079120	Q9BW27	NUP85_HUMAN	nucleoporin 85	104					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|nuclear membrane|Nup107-160 complex|spindle	protein binding			ovary(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		all cancers(21;3.45e-06)			GTGAGTAAAAACTACCGATCA	0.199													12	21					0	0	1	0	0		T	73208107	T	T	73208107	3	4	84	1	0	0	0	0	1	0	0	0	10789	43	2	5	325	5	NUP85	17	73208107	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	347937	73208107	7987103	1222	53065											
LLGL2	3993	broad.mit.edu	37	chr17	73554653	73554653	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttggagcctgaaggtcaagGgcggggcatcggagctgcag	8	7	18	8	2	1	1	1	1	0	0	2	3	1	3	1	6	3	3	1	6	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:73554653G>T	uc002joh.2	+	5	470	c.316G>T	c.(316-318)GGC>TGC	p.G106C	LLGL2_uc002jog.1_Missense_Mutation_p.G106C|LLGL2_uc010dgf.1_Missense_Mutation_p.G106C|LLGL2_uc002joi.2_Missense_Mutation_p.G106C|LLGL2_uc010dgg.1_Missense_Mutation_p.G106C|LLGL2_uc002joj.2_Missense_Mutation_p.G95C	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	106	WD 2.				cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			GAAGGTCAAGGGCGGGGCATC	0.632													8	22					0.000274275	0.000282047	1	1	0		T	73554653	T	T	73554653	3	4	84	1	0	0	0	0	1	0	0	0	8851	1232	43	5	330	5	LLGL2	17	73554653	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	346546	73554653	7640557	1223	53066											
RECQL5	9400	broad.mit.edu	37	chr17	73625168	73625168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctgcctctggggctgatgCcagcagagctgggctttcca	5	11	13	12	0	2	2	0	1	2	1	3	2	3	2	3	3	4	4	3	3	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:73625168C>T	uc010dgl.2	-	16	2491	c.2335G>A	c.(2335-2337)GCA>ACA	p.A779T	RECQL5_uc010dgk.2_Missense_Mutation_p.A752T|RECQL5_uc002jot.3_5'Flank	NM_004259	NP_004250	O94762	RECQ5_HUMAN	RecQ protein-like 5 isoform 1	779					DNA recombination|DNA repair	cytoplasm|nuclear membrane|nucleolus|nucleoplasm	ATP binding|ATP-dependent helicase activity|DNA helicase activity|nucleic acid binding			kidney(3)	3	all_cancers(13;2.73e-08)|Breast(9;6.04e-09)|all_epithelial(9;6.79e-09)		all cancers(21;1.15e-06)|Epithelial(20;2.19e-06)|Lung(188;0.101)|LUSC - Lung squamous cell carcinoma(166;0.112)			GGGGCTGATGCCAGCAGAGCT	0.632								Other_identified_genes_with_known_or_suspected_DNA_repair_function					23	55					0	0	1	0	0		T	73625168	T	T	73625168	3	4	84	1	0	0	0	0	1	0	0	0	13228	739	26	2	660	2	RECQL5	17	73625168	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	70515	73625168	7570042	1224	53067											
ITGB4	3691	broad.mit.edu	37	chr17	73736497	73736497	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgagaacctgctgaagccTgacactcgggagtgcgccca	10	5	12	14	3	0	3	0	2	0	1	1	5	0	4	4	1	4	1	4	1	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:73736497T>C	uc002jpg.2	+	21	2692	c.2505T>C	c.(2503-2505)CCT>CCC	p.P835P	ITGB4_uc002jph.2_Silent_p.P835P|ITGB4_uc010dgo.2_Silent_p.P835P|ITGB4_uc002jpi.3_Silent_p.P835P|ITGB4_uc010dgp.1_Silent_p.P835P|ITGB4_uc002jpj.2_Silent_p.P835P	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	835	Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			TGCTGAAGCCTGACACTCGGG	0.652													4	57					0	0	1	0	0		C	73736497	C	C	73736497	2	2	84	1	0	0	0	0	0	0	0	1	7913	1567	55	3		3	ITGB4	17	73736497	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	111329	73736497	7458713	1225	53068											
MRPL38	64978	broad.mit.edu	37	chr17	73894995	73894995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtagcgcaggggctgcCggtgggggaagcgcttctgc	5	6	19	11	3	1	0	0	0	1	0	1	1	1	1	2	6	4	4	2	6	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:73894995C>T	uc010wso.1	-	9	1304	c.1079G>A	c.(1078-1080)CGG>CAG	p.R360Q	FBF1_uc002jqa.1_RNA|TRIM65_uc002jpx.2_5'Flank|MRPL38_uc002jpz.1_RNA	NM_032478	NP_115867	Q96DV4	RM38_HUMAN	mitochondrial ribosomal protein L38 precursor	360						actin cytoskeleton|mitochondrion|ribosome				pancreas(1)	1			all cancers(21;0.000154)|Epithelial(20;0.000156)|BRCA - Breast invasive adenocarcinoma(9;0.00936)|LUSC - Lung squamous cell carcinoma(166;0.154)			CAGGGGCTGCCGGTGGGGGAA	0.617													9	19					0	0	1	0	0		T	73894995	T	T	73894995	3	4	84	1	0	0	0	0	1	0	0	0	9819	652	23	1	67	1	MRPL38	17	73894995	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	158498	73894995	7300215	1226	53069											
UBE2O	63893	broad.mit.edu	37	chr17	74388088	74388089	+	Frame_Shift_Ins	INS	-	G	G																															ttgggagaggtagcagaagtINSgggggggcacggctgggtag																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:74388088_74388089insG	uc002jrm.3	-	16	3117_3118	c.3052_3053insC	c.(3052-3054)CACfs	p.H1018fs	UBE2O_uc002jrl.3_Frame_Shift_Ins_p.H622fs	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	1018							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						GTAGCAGAAGTGGGGGGGCACG	0.584													12	24	---	---	---	---						.	G	74388089	G	G	74388088	7	5	84	1	0	1	1	0	0	0	0	0	16894	1696	59	0	837	0	UBE2O	17	74388088	Frame_Shift_Ins	INS	-	TCGA-BR-8591-01A-11D-2394-08	493093	74388088	6807122	1227	53070											
SEC14L1	6397	broad.mit.edu	37	chr17	75209468	75209468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcatgcctgcgtgcgccGccagcagccttccccgggtg	5	6	13	17	4	0	0	0	0	0	0	1	0	1	0	6	1	6	2	6	1	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:75209468G>A	uc002jto.2	+	16	2203	c.1936G>A	c.(1936-1938)GCC>ACC	p.A646T	SEC14L1_uc010dhc.2_Missense_Mutation_p.A646T|SEC14L1_uc010wth.1_Missense_Mutation_p.A646T|SEC14L1_uc002jtm.2_Missense_Mutation_p.A646T|SEC14L1_uc010wti.1_Missense_Mutation_p.A612T|SEC14L1_uc010wtj.1_Missense_Mutation_p.R134H|SEC14L1_uc002jtr.2_Missense_Mutation_p.A40T	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	646	GOLD.				transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						TGCGTGCGCCGCCAGCAGCCT	0.597													25	36					0	0	1	0	0		A	75209468	A	A	75209468	3	1	84	1	0	0	0	0	1	0	0	0	14006	1087	38	1	1990	1	SEC14L1	17	75209468	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	821380	75209468	5985742	1228	53071											
TNRC6C	57690	broad.mit.edu	37	chr17	76047111	76047111	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatccaggtacaaactggggGgagactttaaaacctggccc	13	7	11	10	0	0	1	0	0	0	1	1	2	1	1	3	5	3	1	3	5	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:76047111G>T	uc002jud.2	+	4	2568	c.1968G>T	c.(1966-1968)GGG>GGT	p.G656G	TNRC6C_uc002juf.2_Silent_p.G656G|TNRC6C_uc002jue.2_Silent_p.G656G	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	656	Sufficient for interaction with argonaute family proteins.				gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			CAAACTGGGGGGAGACTTTAA	0.512													10	18					0.0581538	0.058591	1	1	0		T	76047111	T	T	76047111	2	4	84	1	0	0	0	0	0	0	0	1	16367	1219	43	5		5	TNRC6C	17	76047111	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	837643	76047111	5148099	1229	53072											
RPTOR	57521	broad.mit.edu	37	chr17	78857713	78857713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgactcggcgaggtggtgcGgcgtgagggacagcgctcat	6	7	18	10	6	1	1	1	1	0	0	3	4	1	2	0	5	2	1	0	5	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:78857713G>A	uc002jyt.1	+	16	2588	c.1783G>A	c.(1783-1785)GGC>AGC	p.G595S	RPTOR_uc010wug.1_Intron	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	595					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						GAGGTGGTGCGGCGTGAGGGA	0.662													37	66					0	0	1	0	0		A	78857713	A	A	78857713	3	1	84	1	0	0	0	0	1	0	0	0	13690	1116	39	1	1845	1	RPTOR	17	78857713	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2810602	78857713	2337497	1230	53073											
RPTOR	57521	broad.mit.edu	37	chr17	78899222	78899222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaagtttcatctccgccaCggtgcagacggggttctgcg	8	9	12	12	4	3	1	1	0	2	1	4	1	3	1	2	3	2	3	2	3	2	2	rs150835528		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:78899222C>T	uc002jyt.1	+	24	3666	c.2861C>T	c.(2860-2862)ACG>ATG	p.T954M	RPTOR_uc010wug.1_Missense_Mutation_p.T796M	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	954					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						ATCTCCGCCACGGTGCAGACG	0.582													16	42					0	0	1	0	0		T	78899222	T	T	78899222	3	4	84	1	0	0	0	0	1	0	0	0	13690	536	19	1	2955	1	RPTOR	17	78899222	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	41509	78899222	2295988	1231	53074											
FASN	2194	broad.mit.edu	37	chr17	80038668	80038668	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtgcaccaggaacaggggCcgctccgagctctgcacgga	8	4	16	13	3	1	0	0	0	1	0	2	3	2	2	3	5	4	4	3	5	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:80038668C>T	uc002kdu.2	-	39	6843	c.6726G>A	c.(6724-6726)CGG>CGA	p.R2242R	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2242	Thioesterase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	GGAACAGGGGCCGCTCCGAGC	0.677													3	26					0	0	1	0	0		T	80038668	T	T	80038668	2	4	84	1	0	0	0	0	0	0	0	1	5697	726	26	2		2	FASN	17	80038668	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1139446	80038668	1156542	1232	53075											
CCDC57	284001	broad.mit.edu	37	chr17	80146227	80146227	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctcctgcagctgctccAcgtgggctcccttcaccgcc	4	8	10	19	2	1	0	1	0	0	0	4	0	4	0	5	1	4	6	5	1	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr17:80146227A>G	uc002kdz.1	-	8	1275	c.920T>C	c.(919-921)GTG>GCG	p.V307A	CCDC57_uc002kdx.1_Missense_Mutation_p.V307A	NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	307	Potential.									ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			CAGCTGCTCCACGTGGGCTCC	0.652													3	23					0	0	1	0	0		G	80146227	G	G	80146227	3	3	84	1	0	0	0	0	1	0	0	0	2830	159	6	3	1871	3	CCDC57	17	80146227	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	107559	80146227	1048983	1233	53076											
ARHGAP28	79822	broad.mit.edu	37	chr18	6876205	6876205	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatgtactgctaaagtcAaggtaccgaacattttgtct	12	12	9	8	1	2	0	1	0	1	0	2	2	2	1	1	2	4	3	1	2	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:6876205A>T	uc010wzi.1	+	9	995	c.757A>T	c.(757-759)AAG>TAG	p.K253*	ARHGAP28_uc002knc.2_Nonsense_Mutation_p.K378*|ARHGAP28_uc002knd.2_Nonsense_Mutation_p.K271*|ARHGAP28_uc002kne.2_Nonsense_Mutation_p.K271*|ARHGAP28_uc002knf.2_Nonsense_Mutation_p.K262*			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	253					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				TGCTAAAGTCAAGGTACCGAA	0.388													14	23					0	0	1	0	0		T	6876205	T	T	6876205	4	4	84	1	0	0	0	0	0	1	0	0	877	131	5	5	841	5	ARHGAP28	18	6876205	Nonsense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08		6876205	71201043	1234	53077											
KIAA0802	23255	broad.mit.edu	37	chr18	8783624	8783624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctaggaagggagaaggacGagctggagcaggagctccag	13	3	18	7	1	0	1	0	0	0	1	1	7	1	5	1	5	4	4	1	5	3	1	rs116313795	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:8783624G>A	uc002knr.2	+	6	656	c.514G>A	c.(514-516)GAG>AAG	p.E172K	KIAA0802_uc002knq.2_Missense_Mutation_p.E172K|KIAA0802_uc010dkw.1_Missense_Mutation_p.E10K	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	523	Potential.										0						GGAGAAGGACGAGCTGGAGCA	0.612													13	26					0	0	1	0	0		A	8783624	A	A	8783624	3	1	84	1	0	0	0	0	1	0	0	0	8210	1059	37	1	528	1	KIAA0802	18	8783624	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1907419	8783624	69293624	1235	53078											
KIAA0802	23255	broad.mit.edu	37	chr18	8784564	8784564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctccatgatgcggggctgcGgggtggtgcgcccttaccgg	3	8	17	13	4	0	1	0	1	0	0	1	1	1	1	4	6	4	1	4	6	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:8784564G>A	uc002knr.2	+	6	1596	c.1454G>A	c.(1453-1455)CGG>CAG	p.R485Q	KIAA0802_uc002knq.2_Missense_Mutation_p.R485Q|KIAA0802_uc010dkw.1_Missense_Mutation_p.R323Q	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	836											0						GCGGGGCTGCGGGGTGGTGCG	0.672													40	97					0	0	1	0	0		A	8784564	A	A	8784564	3	1	84	1	0	0	0	0	1	0	0	0	8210	1116	39	1	1468	1	KIAA0802	18	8784564	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	940	8784564	69292684	1236	53079											
LAMA3	3909	broad.mit.edu	37	chr18	21396419	21396419	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccctcgggagtgtgccagtgCcgagagcatgtcgtgggaaa	8	7	16	10	3	0	1	0	0	0	1	2	4	0	3	3	2	3	1	3	2	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:21396419C>T	uc002kuq.2	+	18	2201	c.2115C>T	c.(2113-2115)TGC>TGT	p.C705C	LAMA3_uc002kur.2_Silent_p.C705C	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	705	Domain V.|Laminin EGF-like 8.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGTGCCAGTGCCGAGAGCATG	0.557													14	41					0	0	1	0	0		T	21396419	T	T	21396419	2	4	84	1	0	0	0	0	0	0	0	1	8623	747	26	2		2	LAMA3	18	21396419	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	12611855	21396419	56680829	1237	53080											
KLHL14	57565	broad.mit.edu	37	chr18	30350328	30350328	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgggggcccccaggccgTcctggccgccgacccctccc	2	5	12	22	3	0	0	0	0	0	0	2	1	2	0	10	4	0	0	10	4	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:30350328T>C	uc002kxm.1	-	2	615	c.227A>G	c.(226-228)GAC>GGC	p.D76G		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	76	BTB.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						CCCCAGGCCGTCCTGGCCGCC	0.507													9	30					0	0	1	0	0		C	30350328	C	C	30350328	3	2	84	1	0	0	0	0	1	0	0	0	8386	1667	58	3	1691	3	KLHL14	18	30350328	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	8953909	30350328	47726920	1238	53081											
ASXL3	80816	broad.mit.edu	37	chr18	31325872	31325872	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagtacatccgccgccgccAccgcctccccctccccctcc	4	6	5	26	4	0	0	0	0	0	0	4	0	4	0	11	0	1	1	11	0	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:31325872A>G	uc010dmg.1	+	12	6115	c.6060A>G	c.(6058-6060)CCA>CCG	p.P2020P	ASXL3_uc002kxq.2_Silent_p.P1727P	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	2020	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						cgccgccgccaccgcctcccc	0.274													7	14					0	0	1	0	0		G	31325872	G	G	31325872	2	3	84	1	0	0	0	0	0	0	0	1	1069	146	6	3		3	ASXL3	18	31325872	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	975544	31325872	46751376	1239	53082											
FHOD3	80206	broad.mit.edu	37	chr18	34298375	34298375	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccgcccccaccccctccGcccctgttggacagcattcc	4	8	7	22	2	0	0	0	0	0	0	2	1	2	1	9	1	2	2	9	1	0	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:34298375G>A	uc002kzt.1	+	15	2635	c.2538G>A	c.(2536-2538)CCG>CCA	p.P846P	FHOD3_uc002kzs.1_Silent_p.P863P|FHOD3_uc010dmz.1_Silent_p.P578P|FHOD3_uc010dna.1_Silent_p.P166P	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	846	FH1.|Pro-rich.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CACCCCCTCCGCCCCTGTTGG	0.627													9	18					0	0	1	0	0		A	34298375	A	A	34298375	2	1	84	1	0	0	0	0	0	0	0	1	5897	1074	38	1		1	FHOD3	18	34298375	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2972503	34298375	43778873	1240	53083											
CELF4	56853	broad.mit.edu	37	chr18	34833888	34833888	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcgcgctggccgggttgtcGaagctcacgaagcctggcga	6	7	16	12	6	1	0	1	0	0	0	2	3	1	0	2	3	3	3	2	3	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:34833888G>A	uc002lae.2	-	12	1743	c.1347C>T	c.(1345-1347)TTC>TTT	p.F449F	CELF4_uc010dnd.1_Silent_p.F447F|CELF4_uc002lag.2_Silent_p.F411F|CELF4_uc002laf.2_Silent_p.F443F	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	449	RRM 3.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						CCGGGTTGTCGAAGCTCACGA	0.478													24	50					0	0	1	0	0		A	34833888	A	A	34833888	2	1	84	1	0	0	0	0	0	0	0	1	3221	1049	37	1		1	CELF4	18	34833888	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	535513	34833888	43243360	1241	53084											
ST8SIA5	29906	broad.mit.edu	37	chr18	44336400	44336400	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggtcaccaaggcaaaggcGcagatgaagatgaagagcaa	18	3	13	7	1	1	5	1	2	0	3	1	5	1	5	1	3	1	3	1	3	6	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:44336400G>A	uc002lcj.1	-	1	640	c.72C>T	c.(70-72)TGC>TGT	p.C24C	ST8SIA5_uc010xcy.1_Silent_p.C24C|ST8SIA5_uc010xcz.1_Silent_p.C24C|ST8SIA5_uc010dno.1_Silent_p.C24C	NM_013305	NP_037437	O15466	SIA8E_HUMAN	ST8 alpha-N-acetyl-neuraminide	24	Helical; Signal-anchor for type II membrane protein; (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						AGGCAAAGGCGCAGATGAAGA	0.507													39	70					0	0	1	0	0		A	44336400	A	A	44336400	2	1	84	1	0	0	0	0	0	0	0	1	15260	1079	38	1		1	ST8SIA5	18	44336400	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	9502512	44336400	33740848	1242	53085											
MRO	83876	broad.mit.edu	37	chr18	48331614	48331614	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcccagaacgacggtcagAgtcttcatactctcatggat	10	11	9	11	2	4	2	3	0	2	2	5	4	4	3	1	2	3	0	1	2	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:48331614A>C	uc002lew.3	-	5	633	c.339T>G	c.(337-339)ACT>ACG	p.T113T	MRO_uc010xdn.1_Silent_p.T113T|MRO_uc010dpa.2_Silent_p.T127T|MRO_uc010dpb.2_Silent_p.T127T|MRO_uc010dpc.2_Silent_p.T113T|MRO_uc002lex.3_Silent_p.T113T	NM_031939	NP_114145	Q9BYG7	MSTRO_HUMAN	maestro isoform a	113						nucleolus	binding				0		Colorectal(6;0.0596)		Colorectal(21;0.082)		CGACGGTCAGAGTCTTCATAC	0.443													31	79					0	0	1	0	0		C	48331614	C	C	48331614	2	2	84	1	0	0	0	0	0	0	0	1	9790	291	11	5		5	MRO	18	48331614	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	3995214	48331614	29745634	1243	53086											
MBD2	8932	broad.mit.edu	37	chr18	51750910	51750910	+	Frame_Shift_Del	DEL	C	-	-																															gctccgggcagcagcggcctCcccccgggtgcgcgcgcatc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:51750910delC	uc002lfg.1	-	1	249	c.20delG	c.(19-21)GGAfs	p.G7fs	MBD2_uc002lfh.1_Frame_Shift_Del_p.G7fs|SNORA37_uc002lfi.1_5'Flank	NM_003927	NP_003918	Q9UBB5	MBD2_HUMAN	methyl-CpG binding domain protein 2 isoform 1	7	Gly-rich.				transcription, DNA-dependent		C2H2 zinc finger domain binding|methyl-CpG binding|satellite DNA binding				0				Colorectal(16;0.0212)|READ - Rectum adenocarcinoma(32;0.188)	Hexobarbital(DB01355)	GCAGCGGCCTCCCCCCGGGTG	0.692													4	2	---	---	---	---						.	-	51750910	-	-	51750910	7	5	84	1	0	1	0	1	0	0	0	0	9361	855	30	0	1450	0	MBD2	18	51750910	Frame_Shift_Del	DEL	C	TCGA-BR-8591-01A-11D-2394-08	3419296	51750910	26326338	1244	53087											
ALPK2	115701	broad.mit.edu	37	chr18	56203904	56203904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttgcgggtgagtgggccGtgggcaccaagtttctttcc	5	11	15	10	2	1	1	0	1	1	0	2	1	2	1	3	3	2	3	3	3	1	3	rs140868694	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:56203904G>A	uc002lhj.3	-	5	3729	c.3515C>T	c.(3514-3516)ACG>ATG	p.T1172M	ALPK2_uc002lhk.1_Missense_Mutation_p.T503M	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1172							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						TGAGTGGGCCGTGGGCACCAA	0.577													12	103					0	0	1	0	0		A	56203904	A	A	56203904	3	1	84	1	0	0	0	0	1	0	0	0	545	1145	40	1	3033	1	ALPK2	18	56203904	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4452994	56203904	21873344	1245	53088											
ZNF532	55205	broad.mit.edu	37	chr18	56586448	56586448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtaaatgacagtccgagagCcgctgacaagtctcctgaat	13	8	10	10	2	1	4	0	3	1	1	3	5	2	4	3	0	1	2	3	0	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:56586448C>T	uc002lho.2	+	4	1476	c.929C>T	c.(928-930)GCC>GTC	p.A310V	ZNF532_uc002lhp.2_Missense_Mutation_p.A308V|ZNF532_uc010xeg.1_Missense_Mutation_p.A308V|ZNF532_uc002lhr.2_Missense_Mutation_p.A308V|ZNF532_uc002lhs.2_Missense_Mutation_p.A308V	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	310					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						AGTCCGAGAGCCGCTGACAAG	0.512													33	108					0	0	1	0	0		T	56586448	T	T	56586448	3	4	84	1	0	0	0	0	1	0	0	0	17997	739	26	2	931	2	ZNF532	18	56586448	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	382544	56586448	21490800	1246	53089											
SERPINB13	5275	broad.mit.edu	37	chr18	61260183	61260183	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcgaaagaagattaattcCtgggttgaaagcaaaacaaa	19	8	9	5	1	0	3	0	1	0	2	2	4	1	3	1	1	2	2	1	1	7	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:61260183C>A	uc002ljc.2	+	5	618	c.450C>A	c.(448-450)TCC>TCA	p.S150S	SERPINB13_uc002ljd.2_Translation_Start_Site|SERPINB13_uc010xep.1_Silent_p.S159S|SERPINB13_uc010xeq.1_Intron|SERPINB13_uc010xer.1_Intron	NM_012397	NP_036529	Q9UIV8	SPB13_HUMAN	serine (or cysteine) proteinase inhibitor, clade	150					regulation of proteolysis|response to UV	cytoplasm|extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)	1						AGATTAATTCCTGGGTTGAAA	0.284													17	72					8.28177e-16	9.17155e-16	1	1	0		A	61260183	A	A	61260183	2	1	84	1	0	0	0	0	0	0	0	1	14125	668	24	5		5	SERPINB13	18	61260183	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	4673735	61260183	16817065	1247	53090											
DOK6	220164	broad.mit.edu	37	chr18	67425053	67425053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatctcttcctcgcagcgCgtactggcatcacatcactc	9	11	6	15	3	3	0	2	0	1	0	7	0	4	0	1	1	2	3	1	1	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:67425053C>T	uc002lkl.2	+	7	990	c.800C>T	c.(799-801)GCG>GTG	p.A267V		NM_152721	NP_689934	Q6PKX4	DOK6_HUMAN	docking protein 6	267	DKFBH motif.						insulin receptor binding	p.A267V(1)		upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)				CCTCGCAGCGCGTACTGGCAT	0.418													24	52					0	0	1	0	0		T	67425053	T	T	67425053	3	4	84	1	0	0	0	0	1	0	0	0	4707	768	27	1	826	1	DOK6	18	67425053	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	6164870	67425053	10652195	1248	53091											
RTTN	25914	broad.mit.edu	37	chr18	67813014	67813014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagctttaatgctagcgaaCggaccctgagaacacaaagt	16	7	9	9	2	0	1	0	1	0	1	0	4	0	2	1	1	5	2	1	1	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:67813014C>T	uc002lkp.2	-	18	2383	c.2315G>A	c.(2314-2316)CGT>CAT	p.R772H	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	772							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TGCTAGCGAACGGACCCTGAG	0.383													20	65					0	0	1	0	0		T	67813014	T	T	67813014	3	4	84	1	0	0	0	0	1	0	0	0	13762	536	19	1	4493	1	RTTN	18	67813014	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	387961	67813014	10264234	1249	53092											
RTTN	25914	broad.mit.edu	37	chr18	67817853	67817853	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taatgtcatacctcactttcGggctcttgaatgccaaatac	11	13	6	11	1	3	1	2	1	1	0	4	1	3	1	2	1	3	1	2	1	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:67817853G>A	uc002lkp.2	-	15	2114	c.2046C>T	c.(2044-2046)CCC>CCT	p.P682P	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	682							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				CCTCACTTTCGGGCTCTTGAA	0.333													20	64					0	0	1	0	0		A	67817853	A	A	67817853	2	1	84	1	0	0	0	0	0	0	0	1	13762	1103	39	1		1	RTTN	18	67817853	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4839	67817853	10259395	1250	53093											
ZNF236	7776	broad.mit.edu	37	chr18	74607130	74607130	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcgccgtgaagagcacgCtgacagcgcacatcaagacg	11	5	11	14	5	1	4	1	2	0	2	2	4	1	4	2	0	2	3	2	0	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:74607130C>T	uc002lmi.2	+	10	1771	c.1573C>T	c.(1573-1575)CTG>TTG	p.L525L	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	525	C2H2-type 11.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GAAGAGCACGCTGACAGCGCA	0.617													8	155					0	0	1	0	0		T	74607130	T	T	74607130	2	4	84	1	0	0	0	0	0	0	0	1	17814	796	28	2		2	ZNF236	18	74607130	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	6789277	74607130	3470118	1251	53094											
ZNF236	7776	broad.mit.edu	37	chr18	74637264	74637264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgcccgcattgcgagctgCgtttccgtacctcgggtaga	7	10	12	12	5	0	1	0	0	0	1	2	2	1	1	3	1	5	5	3	1	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:74637264C>T	uc002lmi.2	+	22	3973	c.3775C>T	c.(3775-3777)CGT>TGT	p.R1259C	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1259	C2H2-type 25.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TTGCGAGCTGCGTTTCCGTAC	0.537													34	59					0	0	1	0	0		T	74637264	T	T	74637264	3	4	84	1	0	0	0	0	1	0	0	0	17814	768	27	1	3861	1	ZNF236	18	74637264	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	30134	74637264	3439984	1252	53095											
PARD6G	84552	broad.mit.edu	37	chr18	77917844	77917845	+	Frame_Shift_Ins	INS	-	G	G																															tgcgggcgcgcccggggtctINSgggggggacgtgcaggctcc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:77917844_77917845insG	uc002lny.2	-	3	1106_1107	c.940_941insC	c.(940-942)CAGfs	p.Q314fs	LOC100130522_uc002lnx.2_Intron|LOC100130522_uc010xfn.1_Intron|LOC100130522_uc010xfo.1_Intron	NM_032510	NP_115899	Q9BYG4	PAR6G_HUMAN	PAR-6 gamma protein	314					cell cycle|cell division|tight junction assembly	cytosol|tight junction	protein binding				0		all_cancers(4;5.63e-22)|all_epithelial(4;5.86e-15)|all_lung(4;1.32e-05)|Ovarian(4;1.33e-05)|Lung NSC(4;2.77e-05)|Esophageal squamous(42;0.0157)|all_hematologic(56;0.13)|Melanoma(33;0.144)		Epithelial(2;1.48e-13)|all cancers(1;5.77e-13)|OV - Ovarian serous cystadenocarcinoma(15;2.74e-10)|BRCA - Breast invasive adenocarcinoma(31;0.00166)|STAD - Stomach adenocarcinoma(84;0.18)|Lung(128;0.23)		GCCCGGGGTCTGGGGGGGACGT	0.748													5	5	---	---	---	---						.	G	77917845	G	G	77917844	7	5	84	1	0	1	1	0	0	0	0	0	11466	1580	55	0	193	0	PARD6G	18	77917844	Frame_Shift_Ins	INS	-	TCGA-BR-8591-01A-11D-2394-08	3280580	77917844	159404	1253	53096											
PARD6G	84552	broad.mit.edu	37	chr18	77917966	77917966	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggggacccacgaagcccgcGgtgccgtccgagggcggtcc	5	3	18	15	6	0	0	0	0	0	0	2	3	2	1	5	5	2	0	5	5	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr18:77917966G>A	uc002lny.2	-	3	985	c.819C>T	c.(817-819)ACC>ACT	p.T273T	LOC100130522_uc002lnx.2_Intron|LOC100130522_uc010xfn.1_Intron|LOC100130522_uc010xfo.1_Intron	NM_032510	NP_115899	Q9BYG4	PAR6G_HUMAN	PAR-6 gamma protein	273					cell cycle|cell division|tight junction assembly	cytosol|tight junction	protein binding				0		all_cancers(4;5.63e-22)|all_epithelial(4;5.86e-15)|all_lung(4;1.32e-05)|Ovarian(4;1.33e-05)|Lung NSC(4;2.77e-05)|Esophageal squamous(42;0.0157)|all_hematologic(56;0.13)|Melanoma(33;0.144)		Epithelial(2;1.48e-13)|all cancers(1;5.77e-13)|OV - Ovarian serous cystadenocarcinoma(15;2.74e-10)|BRCA - Breast invasive adenocarcinoma(31;0.00166)|STAD - Stomach adenocarcinoma(84;0.18)|Lung(128;0.23)		CGAAGCCCGCGGTGCCGTCCG	0.711													13	26					0	0	1	0	0		A	77917966	A	A	77917966	2	1	84	1	0	0	0	0	0	0	0	1	11466	1103	39	1		1	PARD6G	18	77917966	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	122	77917966	159282	1254	53097											
HCN2	610	broad.mit.edu	37	chr19	613971	613971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaggagtaccccatgatgCggcgcgccttcgagacggtg	7	7	16	11	5	0	2	0	1	0	1	1	5	0	4	3	4	2	1	3	4	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:613971C>T	uc002lpe.2	+	7	1998	c.1945C>T	c.(1945-1947)CGG>TGG	p.R649W		NM_001194	NP_001185	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic	649	cAMP.|Cytoplasmic (Potential).				cell-cell signaling|muscle contraction	voltage-gated potassium channel complex	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCCATGATGCGGCGCGCCTT	0.731													23	34					0	0	1	0	0		T	613971	T	T	613971	3	4	84	1	0	0	0	0	1	0	0	0	7013	759	27	1	1971	1	HCN2	19	613971	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08		613971	58515012	1255	53098											
C19orf21	126353	broad.mit.edu	37	chr19	758640	758640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaagaggtggcagaggagcGgagaaatgctctcttcccag	11	6	15	9	1	1	3	0	0	1	3	3	5	2	4	1	4	2	3	1	4	2	1	rs141415846		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:758640G>A	uc002lpo.2	+	2	1777	c.1694G>A	c.(1693-1695)CGG>CAG	p.R565Q		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	565	Potential.							p.R565W(1)		upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGAGGAGCGGAGAAATGCT	0.612													32	71					0	0	1	0	0		A	758640	A	A	758640	3	1	84	1	0	0	0	0	1	0	0	0	1916	1116	39	1	1696	1	C19orf21	19	758640	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	144669	758640	58370343	1256	53099											
NDUFS7	374291	broad.mit.edu	37	chr19	1395407	1395407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggctgcccacctacggccGaggccctgctctacggcatc	6	6	11	18	3	1	0	0	0	1	0	2	1	1	0	4	4	4	3	4	4	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:1395407G>A	uc002lse.3	+	8	605	c.562G>A	c.(562-564)GAG>AAG	p.E188K	NDUFS7_uc002lsf.2_3'UTR|NDUFS7_uc002lsh.2_3'UTR|NDUFS7_uc002lsg.2_3'UTR|uc002lsi.1_RNA	NM_024407	NP_077718	O75251	NDUS7_HUMAN	NADH-ubiquinone oxidoreductase Fe-S protein 7	188					mitochondrial electron transport, NADH to ubiquinone|mitochondrial respiratory chain complex I assembly|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding|quinone binding				0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)|Breast(49;0.00186)|Lung NSC(49;0.00292)|all_lung(49;0.00419)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	NADH(DB00157)	ACCTACGGCCGAGGCCCTGCT	0.612													7	4					0	0	1	0	0		A	1395407	A	A	1395407	3	1	84	1	0	0	0	0	1	0	0	0	10316	1059	37	1	592	1	NDUFS7	19	1395407	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	636767	1395407	57733576	1257	53100											
ATP8B3	148229	broad.mit.edu	37	chr19	1789491	1789491	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagatgaccgcctggcacTtggacgccaggtccacgaag	10	5	13	13	3	0	2	0	1	0	1	1	4	1	3	4	3	1	2	4	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:1789491T>C	uc002ltw.2	-	23	2948	c.2714A>G	c.(2713-2715)AAG>AGG	p.K905R	ATP8B3_uc002ltv.2_Missense_Mutation_p.K868R|ATP8B3_uc002ltx.2_RNA	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	905	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCCTGGCACTTGGACGCCAG	0.687													7	18					0	0	1	0	0		C	1789491	C	C	1789491	3	2	84	1	0	0	0	0	1	0	0	0	1197	1609	56	3	1216	3	ATP8B3	19	1789491	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	394084	1789491	57339492	1258	53101											
SCAMP4	113178	broad.mit.edu	37	chr19	1918180	1918180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgcctggcctggtggatcgGcggaggctcggggaccaact	5	7	17	12	3	0	0	0	0	0	0	2	3	0	3	3	8	2	1	3	8	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:1918180G>A	uc002luj.2	+	4	298	c.191G>A	c.(190-192)GGC>GAC	p.G64D	SCAMP4_uc002lui.1_Missense_Mutation_p.G64D|SCAMP4_uc002luk.2_Missense_Mutation_p.G64D|SCAMP4_uc010dss.2_Missense_Mutation_p.G20D	NM_079834	NP_524558	Q969E2	SCAM4_HUMAN	secretory carrier membrane protein 4	64	Helical; (Potential).				protein transport	integral to membrane					0		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGTGGATCGGCGGAGGCTCG	0.647													16	44					0	0	1	0	0		A	1918180	A	A	1918180	3	1	84	1	0	0	0	0	1	0	0	0	13898	1203	42	2	201	2	SCAMP4	19	1918180	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	128689	1918180	57210803	1259	53102											
JSRP1	126306	broad.mit.edu	37	chr19	2255261	2255261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggtcctccagggcctggCagctgcccaggccgccatcc	5	6	13	17	1	0	0	0	0	0	0	3	0	3	0	7	4	2	2	7	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:2255261C>T	uc002lvi.1	-	1	88	c.53G>A	c.(52-54)TGC>TAC	p.C18Y	JSRP1_uc002lvj.1_Missense_Mutation_p.C18Y	NM_144616	NP_653217	Q96MG2	JSPR1_HUMAN	junctional sarcoplasmic reticulum protein 1	18	Mediates interaction with CACNA1S (By similarity).					sarcoplasmic reticulum membrane				pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGGGCCTGGCAGCTGCCCAG	0.682													16	34					0	0	1	0	0		T	2255261	T	T	2255261	3	4	84	1	0	0	0	0	1	0	0	0	7982	710	25	2	966	2	JSRP1	19	2255261	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	337081	2255261	56873722	1260	53103											
TMPRSS9	360200	broad.mit.edu	37	chr19	2405448	2405448	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatccccgggggagtttccGtggcaagccagccttcgaga	7	7	14	13	3	0	1	0	0	0	1	3	3	2	2	5	3	2	3	5	3	1	2	rs149559028	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:2405448G>A	uc010xgx.1	+	6	645	c.645G>A	c.(643-645)CCG>CCA	p.P215P	TMPRSS9_uc002lvv.1_Silent_p.P249P	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	215	Extracellular (Potential).|Peptidase S1 1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGAGTTTCCGTGGCAAGCCA	0.617													20	116					0	0	1	0	0		A	2405448	A	A	2405448	2	1	84	1	0	0	0	0	0	0	0	1	16278	1132	40	1		1	TMPRSS9	19	2405448	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	150187	2405448	56723535	1261	53104											
NFIC	4782	broad.mit.edu	37	chr19	3381902	3381902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagcagaagtgggcgtcgCggctgctggccaagctgcgc	7	6	16	12	4	1	1	1	0	0	1	2	1	1	1	1	3	4	4	1	3	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:3381902C>T	uc010xhi.1	+	2	285	c.223C>T	c.(223-225)CGG>TGG	p.R75W	NFIC_uc002lxo.2_Missense_Mutation_p.R66W|NFIC_uc010xhh.1_Missense_Mutation_p.R66W|NFIC_uc002lxp.2_Missense_Mutation_p.R75W|NFIC_uc010xhj.1_Missense_Mutation_p.R75W|NFIC_uc002lxq.1_Missense_Mutation_p.R27W	NM_205843	NP_995315	P08651	NFIC_HUMAN	nuclear factor I/C isoform 2	75	CTF/NF-I.				DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.8e-05)|Epithelial(107;2.94e-108)|BRCA - Breast invasive adenocarcinoma(158;0.00154)|STAD - Stomach adenocarcinoma(1328;0.191)		GTGGGCGTCGCGGCTGCTGGC	0.652													58	102					0	0	1	0	0		T	3381902	T	T	3381902	3	4	84	1	0	0	0	0	1	0	0	0	10391	759	27	1	236	1	NFIC	19	3381902	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	976454	3381902	55747081	1262	53105											
DAPK3	1613	broad.mit.edu	37	chr19	3959164	3959164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcgcacgaggtcctgcaCgaagcgcatctcggaggcta	8	5	15	13	6	1	0	0	0	1	0	3	3	2	1	1	4	2	4	1	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:3959164C>T	uc002lzc.1	-	8	1393	c.1300G>A	c.(1300-1302)GTG>ATG	p.V434M	DAPK3_uc002lzb.1_Missense_Mutation_p.V171M|DAPK3_uc002lzd.1_Missense_Mutation_p.V434M	NM_001348	NP_001339	O43293	DAPK3_HUMAN	death-associated protein kinase 3	434	Interaction with CDC5L (By similarity).				apoptosis|chromatin modification|induction of apoptosis|intracellular protein kinase cascade	cytoplasm|PML body	ATP binding|leucine zipper domain binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|ovary(1)|large_intestine(1)	7		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGTCCTGCACGAAGCGCATC	0.721													7	9					0	0	1	0	0		T	3959164	T	T	3959164	3	4	84	1	0	0	0	0	1	0	0	0	4240	536	19	1	68	1	DAPK3	19	3959164	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	577262	3959164	55169819	1263	53106											
PIAS4	51588	broad.mit.edu	37	chr19	4013167	4013167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgcactccacctacgacCgggccggcgctgtgcccagg	6	5	12	18	4	0	0	0	0	0	0	1	1	1	0	6	3	3	2	6	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:4013167C>T	uc002lzg.2	+	2	284	c.274C>T	c.(274-276)CGG>TGG	p.R92W		NM_015897	NP_056981	Q8N2W9	PIAS4_HUMAN	protein inhibitor of activated STAT, 4	92					positive regulation of protein sumoylation|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|PML body	DNA binding|SUMO ligase activity|ubiquitin protein ligase binding|zinc ion binding			pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CACCTACGACCGGGCCGGCGC	0.647													34	108					0	0	1	0	0		T	4013167	T	T	4013167	3	4	84	1	0	0	0	0	1	0	0	0	11897	643	23	1	280	1	PIAS4	19	4013167	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	54003	4013167	55115816	1264	53107											
HDGFRP2	84717	broad.mit.edu	37	chr19	4498835	4498835	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaggtgcctgaatgccCtagaggagctgggaaccctg	10	7	15	9	0	0	4	0	2	0	2	0	6	0	6	3	3	4	1	3	3	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:4498835C>A	uc002mao.2	+	13	1591	c.1498C>A	c.(1498-1500)CTA>ATA	p.L500I	HDGFRP2_uc002map.2_Missense_Mutation_p.L500I|HDGFRP2_uc010dtz.1_RNA|HDGFRP2_uc010dua.2_5'Flank|HDGFRP2_uc002maq.1_5'Flank	NM_001001520	NP_001001520	Q7Z4V5	HDGR2_HUMAN	hepatoma-derived growth factor-related protein 2	500					transcription, DNA-dependent	nucleus	DNA binding|protein binding				0						CCTGAATGCCCTAGAGGAGCT	0.637													7	16					0.0381472	0.0384786	1	1	0		A	4498835	A	A	4498835	3	1	84	1	0	0	0	0	1	0	0	0	7036	680	24	5	1548	5	HDGFRP2	19	4498835	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	485668	4498835	54630148	1265	53108											
PTPRS	5802	broad.mit.edu	37	chr19	5244257	5244257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgctggggggcccctggcCgatggagttgacggccgaca	5	6	17	13	4	0	1	0	1	0	0	1	4	0	2	4	6	0	2	4	6	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:5244257C>T	uc002mbv.2	-	11	1459	c.1225G>A	c.(1225-1227)GGC>AGC	p.G409S	PTPRS_uc002mbu.1_Missense_Mutation_p.G396S|PTPRS_uc010xin.1_Missense_Mutation_p.G396S|PTPRS_uc002mbw.2_Missense_Mutation_p.G396S|PTPRS_uc002mbx.2_Missense_Mutation_p.G400S|PTPRS_uc002mby.2_Missense_Mutation_p.G396S	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	409	Fibronectin type-III 1.|Extracellular (Potential).				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GGCCCCTGGCCGATGGAGTTG	0.667													30	73					0	0	1	0	0		T	5244257	T	T	5244257	3	4	84	1	0	0	0	0	1	0	0	0	12836	652	23	1	4733	1	PTPRS	19	5244257	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	745422	5244257	53884726	1266	53109											
DUS3L	56931	broad.mit.edu	37	chr19	5785513	5785513	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccgctccagcagccccacGggcacgtacctgcggcgggt	6	4	14	17	5	0	0	0	0	0	0	1	0	1	0	5	3	5	4	5	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:5785513G>A	uc002mdc.2	-	12	1858	c.1761C>T	c.(1759-1761)CCC>CCT	p.P587P	PRR22_uc002mdb.1_5'Flank|PRR22_uc010xiv.1_5'Flank|DUS3L_uc002mdd.2_Silent_p.P345P|DUS3L_uc010duk.2_Silent_p.P252P	NM_020175	NP_064560	Q96G46	DUS3L_HUMAN	dihydrouridine synthase 3-like isoform 1	587					tRNA processing		flavin adenine dinucleotide binding|nucleic acid binding|tRNA dihydrouridine synthase activity|zinc ion binding				0						GCAGCCCCACGGGCACGTACC	0.721													6	9					0	0	1	0	0		A	5785513	A	A	5785513	2	1	84	1	0	0	0	0	0	0	0	1	4813	1103	39	1		1	DUS3L	19	5785513	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	541256	5785513	53343470	1267	53110											
CAPS	828	broad.mit.edu	37	chr19	5915081	5915081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtgcccaccccaaggtgcGcagtggggagtggaccgagg	7	4	17	13	3	0	0	0	0	0	0	0	3	0	2	5	5	2	1	5	5	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:5915081G>A	uc002mdt.2	+	4	542	c.392G>A	c.(391-393)CGC>CAC	p.R131H	CAPS_uc002mdu.2_Intron	NM_004058	NP_004049	Q13938	CAYP1_HUMAN	calcyphosine isoform a	131					intracellular signal transduction	cytoplasm	calcium ion binding				0						CCCAAGGTGCGCAGTGGGGAG	0.692													40	127					0	0	1	0	0		A	5915081	A	A	5915081	3	1	84	1	0	0	0	0	1	0	0	0	2640	1087	38	1	402	1	CAPS	19	5915081	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	129568	5915081	53213902	1268	53111											
ACER1	125981	broad.mit.edu	37	chr19	6312428	6312428	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggacccagacaacgtaaAtgtagcgggagcgcttctgg	12	6	14	9	3	1	2	0	0	1	2	1	4	1	4	1	3	3	3	1	3	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:6312428A>G	uc002mel.2	-	2	254	c.176T>C	c.(175-177)ATT>ACT	p.I59T		NM_133492	NP_597999	Q8TDN7	ACER1_HUMAN	alkaline ceramidase 1	59	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	ceramidase activity				0						GACAACGTAAATGTAGCGGGA	0.562													51	151					0	0	1	0	0		G	6312428	G	G	6312428	3	3	84	1	0	0	0	0	1	0	0	0	138	101	4	3	638	3	ACER1	19	6312428	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	397347	6312428	52816555	1269	53112											
PNPLA6	10908	broad.mit.edu	37	chr19	7623981	7623981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcctactgcgagtacctgCgcccgcccatcgactgcttc	5	9	9	18	4	0	0	0	0	0	0	3	2	1	0	4	0	5	3	4	0	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:7623981C>T	uc010xjq.1	+	30	3868	c.3673C>T	c.(3673-3675)CGC>TGC	p.R1225C	PNPLA6_uc002mgq.1_Missense_Mutation_p.R1177C|PNPLA6_uc010xjp.1_Missense_Mutation_p.R1150C|PNPLA6_uc002mgr.1_Missense_Mutation_p.R1177C|PNPLA6_uc002mgs.2_Missense_Mutation_p.R1215C|PNPLA6_uc002mgt.1_RNA	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	1216	Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						CGAGTACCTGCGCCCGCCCAT	0.582													21	59					0	0	1	0	0		T	7623981	T	T	7623981	3	4	84	1	0	0	0	0	1	0	0	0	12188	768	27	1	3787	1	PNPLA6	19	7623981	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1311553	7623981	51505002	1270	53113											
KIAA1543	57662	broad.mit.edu	37	chr19	7676704	7676704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccccccgcgtcccgcgcCggccaggacccccacccagc	4	1	12	24	5	0	0	0	0	0	0	1	1	1	1	9	3	1	0	9	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:7676704C>T	uc002mgv.3	+	11	1426	c.1325C>T	c.(1324-1326)CCG>CTG	p.P442L	KIAA1543_uc002mgu.3_Missense_Mutation_p.P469L|KIAA1543_uc002mgw.2_5'Flank	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	442	Pro-rich.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						CGTCCCGCGCCGGCCAGGACC	0.701													7	22					0	0	1	0	0		T	7676704	T	T	7676704	3	4	84	1	0	0	0	0	1	0	0	0	8259	652	23	1	1456	1	KIAA1543	19	7676704	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	52723	7676704	51452279	1271	53114											
EVI5L	115704	broad.mit.edu	37	chr19	7927323	7927323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggaggcggagcgcgcggCgctgcaggagaagctgcagt	7	4	20	10	6	0	1	0	0	0	1	0	4	0	3	0	5	4	4	0	5	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:7927323C>T	uc002min.2	+	16	1971	c.1817C>T	c.(1816-1818)GCG>GTG	p.A606V	EVI5L_uc010xjz.1_Missense_Mutation_p.A617V	NM_145245	NP_660288	Q96CN4	EVI5L_HUMAN	ecotropic viral integration site 5-like isoform	606	Potential.					intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						GAGCGCGCGGCGCTGCAGGAG	0.672													3	18					0	0	1	0	0		T	7927323	T	T	7927323	3	4	84	1	0	0	0	0	1	0	0	0	5298	768	27	1	1912	1	EVI5L	19	7927323	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	250619	7927323	51201660	1272	53115											
MYO1F	4542	broad.mit.edu	37	chr19	8620596	8620596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttggcggcaatggcgtcttCggtgatctggggaagaagca	8	9	17	7	3	2	2	0	1	2	1	3	3	2	3	0	6	1	3	0	6	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:8620596C>T	uc002mkg.2	-	2	202	c.88G>A	c.(88-90)GAA>AAA	p.E30K	MYO1F_uc002mkh.2_Missense_Mutation_p.E30K|MYO1F_uc010xkf.1_Missense_Mutation_p.E30K	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	30	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						ATGGCGTCTTCGGTGATCTGG	0.617													22	89					0	0	1	0	0		T	8620596	T	T	8620596	3	4	84	1	0	0	0	0	1	0	0	0	10091	893	31	1	3316	1	MYO1F	19	8620596	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	693273	8620596	50508387	1273	53116											
ADAMTS10	81794	broad.mit.edu	37	chr19	8670086	8670086	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggaagtgggtgctgggCgaggccactttgtagaagag	10	7	18	6	1	0	2	0	0	0	2	0	4	0	3	1	4	2	3	1	4	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:8670086C>T	uc002mkj.1	-	4	520	c.246G>A	c.(244-246)TCG>TCA	p.S82S	ADAMTS10_uc002mkk.1_5'UTR	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	82					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						GGGTGCTGGGCGAGGCCACTT	0.692													8	31					0	0	1	0	0		T	8670086	T	T	8670086	2	4	84	1	0	0	0	0	0	0	0	1	256	755	27	1		1	ADAMTS10	19	8670086	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	49490	8670086	50458897	1274	53117											
MUC16	94025	broad.mit.edu	37	chr19	9068980	9068980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggacctgtttgtgtggCgatggtcttgtgtgtagata	8	14	15	4	1	1	2	0	0	1	2	1	4	1	3	1	3	0	2	1	3	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:9068980C>T	uc002mkp.2	-	3	18670	c.18466G>A	c.(18466-18468)GCC>ACC	p.A6156T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6158	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTTTGTGTGGCGATGGTCTTG	0.507													12	45					0	0	1	0	0		T	9068980	T	T	9068980	3	4	84	1	0	0	0	0	1	0	0	0	9991	768	27	1	25385	1	MUC16	19	9068980	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	398894	9068980	50060003	1275	53118											
MUC16	94025	broad.mit.edu	37	chr19	9069065	9069065	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatgtctggggactttgtTgactgagcagaagctggcat	10	11	14	6	0	1	3	0	2	1	1	1	5	1	4	0	3	2	4	0	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:9069065T>C	uc002mkp.2	-	3	18585	c.18381A>G	c.(18379-18381)TCA>TCG	p.S6127S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6129	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGGACTTTGTTGACTGAGCAG	0.493													5	20					0	0	1	0	0		C	9069065	C	C	9069065	2	2	84	1	0	0	0	0	0	0	0	1	9991	1799	63	3		3	MUC16	19	9069065	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	85	9069065	50059918	1276	53119											
C19orf66	55337	broad.mit.edu	37	chr19	10200691	10200691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcctcctgcgaccacGtctggtggcgccgcgtgccc	2	8	12	19	5	1	0	0	0	1	0	3	1	3	0	6	2	3	1	6	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:10200691G>A	uc002mmu.3	+	5	650	c.352G>A	c.(352-354)GTC>ATC	p.V118I	C19orf66_uc002mmv.3_Missense_Mutation_p.V118I|C19orf66_uc002mmw.3_Missense_Mutation_p.V67I	NM_018381	NP_060851	Q9NUL5	CS066_HUMAN	hypothetical protein LOC55337	118											0						CTGCGACCACGTCTGGTGGCG	0.587													4	20					0	0	1	0	0		A	10200691	A	A	10200691	3	1	84	1	0	0	0	0	1	0	0	0	1949	1145	40	1	370	1	C19orf66	19	10200691	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1131626	10200691	48928292	1277	53120											
TYK2	7297	broad.mit.edu	37	chr19	10461637	10461637	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcagttcttcatgagaTgatagacctagaaggaaaaa	16	8	9	8	0	2	4	1	2	1	3	2	6	2	5	2	1	1	2	2	1	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:10461637T>C	uc002moc.3	-	25	3815	c.3437A>G	c.(3436-3438)CAT>CGT	p.H1146R	TYK2_uc010dxe.2_Missense_Mutation_p.H961R	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	1146	Protein kinase 2.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			CTTCATGAGATGATAGACCTA	0.537													9	93					0	0	1	0	0		C	10461637	C	C	10461637	3	2	84	1	0	0	0	0	1	0	0	0	16836	1464	51	3	130	3	TYK2	19	10461637	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	260946	10461637	48667346	1278	53121											
SMARCA4	6597	broad.mit.edu	37	chr19	11145661	11145661	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgcctcatggaggaggaCgagctcccctcgtggatcat	7	7	13	14	4	2	0	2	0	0	0	4	5	3	4	4	4	1	1	4	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:11145661C>T	uc002mqf.3	+	29	4307	c.4023C>T	c.(4021-4023)GAC>GAT	p.D1341D	SMARCA4_uc010dxp.2_Silent_p.D1341D|SMARCA4_uc010dxo.2_Silent_p.D1341D|SMARCA4_uc010dxq.2_Silent_p.D1308D|SMARCA4_uc010dxr.2_Silent_p.D1308D|SMARCA4_uc002mqj.3_Silent_p.D1308D|SMARCA4_uc010dxs.2_Silent_p.D1308D|SMARCA4_uc010dxt.1_Silent_p.D528D|SMARCA4_uc002mqh.3_Silent_p.D431D|SMARCA4_uc002mqi.1_Silent_p.D511D	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	1341					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity			lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				TGGAGGAGGACGAGCTCCCCT	0.692			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				6	18					0	0	1	0	0		T	11145661	T	T	11145661	2	4	84	1	0	0	0	0	0	0	0	1	14795	535	19	1		1	SMARCA4	19	11145661	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	684024	11145661	47983322	1279	53122											
ZNF700	90592	broad.mit.edu	37	chr19	12061033	12061033	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcatatgggagagaagccaTatgaatgtaaggattgtggg	13	10	14	4	0	1	2	1	1	0	1	1	5	1	4	1	3	1	1	1	3	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:12061033T>C	uc002msu.2	+	4	2320	c.2194T>C	c.(2194-2196)TAT>CAT	p.Y732H	ZNF700_uc010xme.1_Missense_Mutation_p.Y750H|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	732					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGAGAAGCCATATGAATGTAA	0.403													17	20					0	0	1	0	0		C	12061033	C	C	12061033	3	2	84	1	0	0	0	0	1	0	0	0	18129	1406	49	3	2208	3	ZNF700	19	12061033	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	915372	12061033	47067950	1280	53123											
ZNF433	163059	broad.mit.edu	37	chr19	12127030	12127030	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctctccagtgtgagttcGtttgtggataagatacaaac	10	15	9	7	1	1	2	0	1	1	1	4	3	2	3	1	1	2	2	1	1	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:12127030G>A	uc002msy.1	-	4	823	c.652C>T	c.(652-654)CGA>TGA	p.R218*	uc002msx.1_Intron|ZNF433_uc002msz.1_Nonsense_Mutation_p.R183*	NM_001080411	NP_001073880	Q8N7K0	ZN433_HUMAN	zinc finger protein 433	218	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTGTGAGTTCGTTTGTGGATA	0.403													15	37					0	0	1	0	0		A	12127030	A	A	12127030	4	1	84	1	0	0	0	0	0	1	0	0	17932	1153	40	1	1373	1	ZNF433	19	12127030	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	65997	12127030	47001953	1281	53124											
JUNB	3726	broad.mit.edu	37	chr19	12902621	12902621	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagcccttctaccacgaCgactcatacacagctacggg	12	6	8	15	3	2	0	1	0	1	0	2	3	2	0	2	1	6	1	2	1	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:12902621C>T	uc002mvc.2	+	1	312	c.36C>T	c.(34-36)GAC>GAT	p.D12D	JUNB_uc002mvb.2_RNA	NM_002229	NP_002220	P17275	JUNB_HUMAN	jun B proto-oncogene	12						chromatin|nucleus	protein dimerization activity|transcription coactivator activity|transcription corepressor activity			lung(2)|central_nervous_system(1)	3						TCTACCACGACGACTCATACA	0.662													7	27					0	0	1	0	0		T	12902621	T	T	12902621	2	4	84	1	0	0	0	0	0	0	0	1	7986	535	19	1		1	JUNB	19	12902621	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	775591	12902621	46226362	1282	53125											
NACC1	112939	broad.mit.edu	37	chr19	13246114	13246114	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagggcctgtactgtgaCgtgtcagtggtggtcaaggg	6	10	17	8	1	2	1	2	1	0	0	2	1	2	1	1	4	2	2	1	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:13246114C>T	uc002mwm.2	+	2	261	c.93C>T	c.(91-93)GAC>GAT	p.D31D		NM_052876	NP_443108	Q96RE7	NACC1_HUMAN	transcriptional repressor NAC1	31	BTB.				negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|protein homooligomerization|transcription, DNA-dependent	cytoplasm|nuclear body					0						TGTACTGTGACGTGTCAGTGG	0.622													25	65					0	0	1	0	0		T	13246114	T	T	13246114	2	4	84	1	0	0	0	0	0	0	0	1	10153	535	19	1		1	NACC1	19	13246114	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	343493	13246114	45882869	1283	53126											
ZSWIM4	65249	broad.mit.edu	37	chr19	13941323	13941323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacctcttcactgtggcccGctatatggagcaccgcgggc	6	8	11	16	3	2	0	1	0	1	0	2	1	2	1	4	3	1	2	4	3	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:13941323G>A	uc002mxh.1	+	13	2618	c.2429G>A	c.(2428-2430)CGC>CAC	p.R810H	ZSWIM4_uc010xng.1_Missense_Mutation_p.R733H	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	810							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			ACTGTGGCCCGCTATATGGAG	0.701													44	114					0	0	1	0	0		A	13941323	A	A	13941323	3	1	84	1	0	0	0	0	1	0	0	0	18268	1087	38	1	2479	1	ZSWIM4	19	13941323	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	695209	13941323	45187660	1284	53127											
PODNL1	79883	broad.mit.edu	37	chr19	14044132	14044132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcgcagaccacgcgcccCgtgcagccgagccgcctcca	8	3	11	19	6	0	1	0	0	0	1	1	2	1	1	7	0	4	2	7	0	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:14044132C>T	uc002mxr.2	-	8	1199	c.925G>A	c.(925-927)GGG>AGG	p.G309R	PODNL1_uc010xni.1_Missense_Mutation_p.G227R|PODNL1_uc010xnj.1_Missense_Mutation_p.G307R|PODNL1_uc002mxs.2_Missense_Mutation_p.G218R	NM_024825	NP_079101	Q6PEZ8	PONL1_HUMAN	podocan-like 1 isoform 1	309	Leu-rich.|LRR 10.					proteinaceous extracellular matrix				central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(19;5.26e-23)			CCACGCGCCCCGTGCAGCCGA	0.726													5	13					0	0	1	0	0		T	14044132	T	T	14044132	3	4	84	1	0	0	0	0	1	0	0	0	12198	652	23	1	617	1	PODNL1	19	14044132	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	102809	14044132	45084851	1285	53128											
SAMD1	90378	broad.mit.edu	37	chr19	14199317	14199317	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtagattttcagggctggcCcgaggcggatggacaggccg	7	7	17	10	4	1	1	1	0	0	1	1	4	1	3	2	6	0	2	2	6	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:14199317C>A	uc010xnl.1	-	7	1529	c.1529G>T	c.(1528-1530)GGG>GTG	p.G510V		NM_138352	NP_612361	Q6SPF0	SAMD1_HUMAN	sterile alpha motif domain containing 1	510	SAM.					cytoplasm|extracellular region					0		Renal(1328;0.00183)|Hepatocellular(1079;0.00826)		GBM - Glioblastoma multiforme(1328;0.000411)|STAD - Stomach adenocarcinoma(1328;0.00644)|Lung(535;0.199)		CAGGGCTGGCCCGAGGCGGAT	0.582													28	57					2.50493e-22	2.82799e-22	1	1	0		A	14199317	A	A	14199317	3	1	84	1	0	0	0	0	1	0	0	0	13839	623	22	5	90	5	SAMD1	19	14199317	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	155185	14199317	44929666	1286	53129											
EMR2	30817	broad.mit.edu	37	chr19	14865776	14865776	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggtctcacctgcacatcgTagtgggccatgaggacggca	9	7	14	11	2	1	1	1	1	1	0	3	2	1	2	2	4	1	3	2	4	1	1	rs143149076	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:14865776T>C	uc002mzp.1	-	14	2036	c.1580A>G	c.(1579-1581)TAC>TGC	p.Y527C	EMR2_uc010dzs.1_Intron|EMR2_uc010xnw.1_Intron|EMR2_uc002mzo.1_Missense_Mutation_p.Y516C|EMR2_uc002mzq.1_Missense_Mutation_p.Y467C|EMR2_uc002mzr.1_Missense_Mutation_p.Y478C|EMR2_uc002mzs.1_Missense_Mutation_p.Y385C|EMR2_uc002mzt.1_Missense_Mutation_p.Y423C|EMR2_uc002mzu.1_Missense_Mutation_p.Y434C|EMR2_uc010xnx.1_RNA|EMR2_uc010xny.1_Intron	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	527	Extracellular (Potential).|GPS.				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						CTGCACATCGTAGTGGGCCAT	0.428													16	107					0	0	1	0	0		C	14865776	C	C	14865776	3	2	84	1	0	0	0	0	1	0	0	0	5113	1638	57	3	923	3	EMR2	19	14865776	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	666459	14865776	44263207	1287	53130											
EPHX3	79852	broad.mit.edu	37	chr19	15342847	15342847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgggggacgcgctccgaCggcgcccgcagcagccgcgc	5	1	18	17	9	0	0	0	0	0	0	1	2	1	1	3	4	2	3	3	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:15342847C>T	uc002nap.2	-	1	385	c.176G>A	c.(175-177)CGT>CAT	p.R59H	EPHX3_uc002naq.2_Missense_Mutation_p.R59H	NM_024794	NP_079070	Q9H6B9	EPHX3_HUMAN	abhydrolase domain containing 9 precursor	59						extracellular region	hydrolase activity				0						CGCGCTCCGACGGCGCCCGCA	0.736													6	17					0	0	1	0	0		T	15342847	T	T	15342847	3	4	84	1	0	0	0	0	1	0	0	0	5189	536	19	1	934	1	EPHX3	19	15342847	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	477071	15342847	43786136	1288	53131											
PGLYRP2	114770	broad.mit.edu	37	chr19	15580564	15580564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggaggccggcgcgcaccGcacaactcgggagcgtgtcg	7	3	17	14	7	0	0	0	0	0	0	2	2	0	2	2	4	2	3	2	4	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:15580564G>A	uc002nbf.3	-	4	1653	c.1520C>T	c.(1519-1521)GCG>GTG	p.A507V	PGLYRP2_uc002nbg.3_Missense_Mutation_p.A507V	NM_052890	NP_443122	Q96PD5	PGRP2_HUMAN	peptidoglycan recognition protein 2 precursor	507					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptide amidation|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(3)	3						GGCGCGCACCGCACAACTCGG	0.741													3	10					0	0	1	0	0		A	15580564	A	A	15580564	3	1	84	1	0	0	0	0	1	0	0	0	11813	1087	38	1	218	1	PGLYRP2	19	15580564	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	237717	15580564	43548419	1289	53132											
CALR3	125972	broad.mit.edu	37	chr19	16595981	16595981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagagcagttaccttacacCtgatcagtttcttgttttcg	9	15	7	10	1	2	2	1	1	1	1	3	2	2	2	2	0	3	4	2	0	3	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:16595981C>T	uc002ned.2	-	4	548	c.485G>A	c.(484-486)AGG>AAG	p.R162K	MED26_uc002nee.2_Intron	NM_145046	NP_659483	Q96L12	CALR3_HUMAN	calreticulin 3 precursor	162	N-domain.				protein folding	endoplasmic reticulum lumen	calcium ion binding|sugar binding|unfolded protein binding				0						TACCTTACACCTGATCAGTTT	0.303													5	26					0	0	1	0	0		T	16595981	T	T	16595981	3	4	84	1	0	0	0	0	1	0	0	0	2596	681	24	4	693	4	CALR3	19	16595981	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1015417	16595981	42533002	1290	53133											
MED26	9441	broad.mit.edu	37	chr19	16687442	16687442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagttaaccgtatagtctCgaggtcggtacctcttcttc	8	13	8	12	3	3	0	0	0	3	0	6	1	3	0	3	2	2	3	3	2	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:16687442C>T	uc002nen.1	-	3	1460	c.1199G>A	c.(1198-1200)CGA>CAA	p.R400Q	MED26_uc002nee.2_Intron	NM_004831	NP_004822	O95402	MED26_HUMAN	mediator complex subunit 26	400					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|RNA polymerase II transcription cofactor activity|transcription coactivator activity			ovary(2)	2						CGTATAGTCTCGAGGTCGGTA	0.587													16	33					0	0	1	0	0		T	16687442	T	T	16687442	3	4	84	1	0	0	0	0	1	0	0	0	9462	884	31	1	607	1	MED26	19	16687442	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	91461	16687442	42441541	1291	53134											
TMEM38A	79041	broad.mit.edu	37	chr19	16790893	16790893	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggctgatctgctccttgggGagccactgatcgattacttc	6	13	11	11	1	1	2	0	2	1	0	4	4	2	3	2	3	3	2	2	3	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:16790893G>T	uc002nes.2	+	2	314	c.223G>T	c.(223-225)GAG>TAG	p.E75*		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	75	Cytoplasmic (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3						GCTCCTTGGGGAGCCACTGAT	0.617													24	50					6.12954e-19	6.87993e-19	1	1	0		T	16790893	T	T	16790893	4	4	84	1	0	0	0	0	0	1	0	0	16184	1175	41	5	229	5	TMEM38A	19	16790893	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	103451	16790893	42338090	1292	53135											
ANKLE1	126549	broad.mit.edu	37	chr19	17396288	17396288	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcactgaccccagctgaGcgccttcagactttcatccg	7	11	7	16	2	3	3	3	2	1	1	5	3	4	3	4	0	2	1	4	0	0	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:17396288G>A	uc002nga.2	+	7	1701	c.1425G>A	c.(1423-1425)GAG>GAA	p.E475E	ANKLE1_uc010xpm.1_RNA|ANKLE1_uc010eao.1_Silent_p.E471E|ANKLE1_uc010xpn.1_Silent_p.E503E|ANKLE1_uc002nfy.2_Silent_p.E438E|ANKLE1_uc002nfz.2_Silent_p.E181E	NM_152363	NP_689576	Q8NAG6	ANKL1_HUMAN	ankyrin repeat domain 41	475						nuclear envelope					0						CCCCAGCTGAGCGCCTTCAGA	0.607													27	246					0	0	1	0	0		A	17396288	A	A	17396288	2	1	84	1	0	0	0	0	0	0	0	1	632	962	34	2		2	ANKLE1	19	17396288	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	605395	17396288	41732695	1293	53136											
GLT25D1	79709	broad.mit.edu	37	chr19	17679430	17679430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgacctgcggaaggcggCgtccaggaacctggccttct	7	7	14	13	4	1	0	0	0	1	0	3	4	2	2	4	5	2	0	4	5	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:17679430C>T	uc002nhc.1	+	5	749	c.737C>T	c.(736-738)GCG>GTG	p.A246V	GLT25D1_uc010eax.1_Missense_Mutation_p.A14V	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	246					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0						CGGAAGGCGGCGTCCAGGAAC	0.602													38	87					0	0	1	0	0		T	17679430	T	T	17679430	3	4	84	1	0	0	0	0	1	0	0	0	6481	768	27	1	755	1	GLT25D1	19	17679430	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	283142	17679430	41449553	1294	53137											
UNC13A	23025	broad.mit.edu	37	chr19	17756598	17756598	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgcgggatttgatgtcGtcatcctcgtcccagacgcg	6	11	11	13	6	2	2	2	1	0	1	6	3	4	3	2	1	0	0	2	1	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:17756598G>A	uc002nhd.2	-	19	2505	c.2505C>T	c.(2503-2505)GAC>GAT	p.D835D		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	747	C2 2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						ATTTGATGTCGTCATCCTCGT	0.592													8	34					0	0	1	0	0		A	17756598	A	A	17756598	2	1	84	1	0	0	0	0	0	0	0	1	17010	1136	40	1		1	UNC13A	19	17756598	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	77168	17756598	41372385	1295	53138											
MAP1S	55201	broad.mit.edu	37	chr19	17837574	17837574	+	Frame_Shift_Del	DEL	C	-	-																															tgcgagagcccgtggtgacgCcccaggacctggaggggccg																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:17837574delC	uc002nhe.1	+	5	1390	c.1381delC	c.(1381-1383)CCCfs	p.P461fs	MAP1S_uc010eaz.1_RNA|MAP1S_uc010eba.1_Frame_Shift_Del_p.P461fs|MAP1S_uc002nhf.1_Intron|MAP1S_uc010xpv.1_Frame_Shift_Del_p.P435fs	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	461	Necessary for the microtubule-organizing center localization.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						CGTGGTGACGCCCCAGGACCT	0.716													6	9	---	---	---	---						.	-	17837574	-	-	17837574	7	5	84	1	0	1	0	1	0	0	0	0	9252	739	26	0	1399	0	MAP1S	19	17837574	Frame_Shift_Del	DEL	C	TCGA-BR-8591-01A-11D-2394-08	80976	17837574	41291409	1296	53139											
GDF15	9518	broad.mit.edu	37	chr19	18499387	18499387	+	Frame_Shift_Del	DEL	G	-	-																															cttgcggccgcaagccgccaGggggcgccgcagagcgcgtg																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:18499387delG	uc002niv.2	+	2	601	c.569delG	c.(568-570)AGGfs	p.R190fs		NM_004864	NP_004855	Q99988	GDF15_HUMAN	growth differentiation factor 15	190					cell-cell signaling|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			central_nervous_system(1)	1						CAAGCCGCCAGGGGGCGCCGC	0.726											OREG0025363	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	22	---	---	---	---						.	-	18499387	-	-	18499387	7	5	84	1	0	1	0	1	0	0	0	0	6328	1000	35	0	575	0	GDF15	19	18499387	Frame_Shift_Del	DEL	G	TCGA-BR-8591-01A-11D-2394-08	661813	18499387	40629596	1297	53140											
CRTC1	23373	broad.mit.edu	37	chr19	18876267	18876267	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagctggcgtcagccccCtgtccctgagcacagaggca	7	5	12	17	1	1	2	1	1	0	1	2	2	2	2	4	2	3	3	4	2	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:18876267C>G	uc002nkb.3	+	9	1028	c.940C>G	c.(940-942)CTG>GTG	p.L314V	CRTC1_uc010ebv.2_Missense_Mutation_p.L330V|CRTC1_uc010ebw.2_Missense_Mutation_p.L179V|CRTC1_uc002nkc.3_Missense_Mutation_p.L179V	NM_015321	NP_056136	Q6UUV9	CRTC1_HUMAN	mucoepidermoid carcinoma translocated 1 isoform	314	Ser-rich.				interspecies interaction between organisms|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	cAMP response element binding protein binding|protein binding		CRTC1/MAML2(516)	salivary_gland(474)|lung(35)|thyroid(4)|breast(3)|skin(2)|ovary(1)	519						CGTCAGCCCCCTGTCCCTGAG	0.652													73	158					0	0	1	0	0		G	18876267	G	G	18876267	3	3	84	1	0	0	0	0	1	0	0	0	3902	680	24	5	1026	5	CRTC1	19	18876267	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	376880	18876267	40252716	1298	53141											
CRTC1	23373	broad.mit.edu	37	chr19	18888054	18888054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtcggcgacgtcagcttCgactccgacagccagtttcc	6	8	13	14	5	1	0	1	0	0	0	5	3	3	0	3	3	2	2	3	3	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:18888054C>T	uc002nkb.3	+	14	1855	c.1767C>T	c.(1765-1767)TTC>TTT	p.F589F	CRTC1_uc010ebv.2_Silent_p.F605F|CRTC1_uc010ebw.2_Silent_p.F425F|CRTC1_uc002nkc.3_Silent_p.F287F	NM_015321	NP_056136	Q6UUV9	CRTC1_HUMAN	mucoepidermoid carcinoma translocated 1 isoform	589					interspecies interaction between organisms|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	cAMP response element binding protein binding|protein binding		CRTC1/MAML2(516)	salivary_gland(474)|lung(35)|thyroid(4)|breast(3)|skin(2)|ovary(1)	519						ACGTCAGCTTCGACTCCGACA	0.632													114	263					0	0	1	0	0		T	18888054	T	T	18888054	2	4	84	1	0	0	0	0	0	0	0	1	3902	883	31	1		1	CRTC1	19	18888054	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	11787	18888054	40240929	1299	53142											
ARMC6	93436	broad.mit.edu	37	chr19	19162662	19162662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctgactgatggacagccaGacctcctggatgcccagggc	8	7	13	13	0	0	3	0	2	0	1	1	5	1	5	4	3	3	1	4	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:19162662G>A	uc002nld.2	+	5	859	c.511G>A	c.(511-513)GAC>AAC	p.D171N	ARMC6_uc002nlc.2_Missense_Mutation_p.D146N|ARMC6_uc010xql.1_Missense_Mutation_p.D78N|ARMC6_uc002nle.2_Missense_Mutation_p.D146N|ARMC6_uc010xqm.1_Missense_Mutation_p.D171N	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	171							protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)			TGGACAGCCAGACCTCCTGGA	0.622													4	67					0	0	1	0	0		A	19162662	A	A	19162662	3	1	84	1	0	0	0	0	1	0	0	0	956	942	33	4	446	4	ARMC6	19	19162662	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	274608	19162662	39966321	1300	53143											
SLC25A42	284439	broad.mit.edu	37	chr19	19218784	19218784	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccatggatttatgcccacCgtgctgggggtcattcccta	7	12	10	12	1	1	0	1	0	0	0	2	1	2	1	4	3	3	1	4	3	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:19218784C>T	uc002nlf.1	+	7	730	c.579C>T	c.(577-579)ACC>ACT	p.T193T		NM_178526	NP_848621	Q86VD7	S2542_HUMAN	solute carrier family 25, member 42	193	Helical; Name=4; (Potential).|Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.4e-06)|Epithelial(12;0.000497)			TTATGCCCACCGTGCTGGGGG	0.552													39	100					0	0	1	0	0		T	19218784	T	T	19218784	2	4	84	1	0	0	0	0	0	0	0	1	14532	639	23	1		1	SLC25A42	19	19218784	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	56122	19218784	39910199	1301	53144											
CILP2	148113	broad.mit.edu	37	chr19	19655029	19655029	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggccatgcggaagaaagccCcggtcattttacataccagc	12	7	10	12	2	1	1	1	0	0	1	1	2	1	2	4	3	5	0	4	3	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:19655029C>A	uc002nmv.3	+	8	1760	c.1675C>A	c.(1675-1677)CCG>ACG	p.P559T	CILP2_uc002nmw.3_Missense_Mutation_p.P565T	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	559						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						GAAGAAAGCCCCGGTCATTTT	0.627													41	127					3.76604e-16	4.17862e-16	1	1	0		A	19655029	A	A	19655029	3	1	84	1	0	0	0	0	1	0	0	0	3433	623	22	5	1705	5	CILP2	19	19655029	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	436245	19655029	39473954	1302	53145											
ZNF430	80264	broad.mit.edu	37	chr19	21240479	21240479	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataattcatactggagagaaAccctacaaatgtgaagaatg	18	9	8	6	0	1	3	1	1	0	2	1	5	1	4	1	1	3	0	1	1	7	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:21240479A>G	uc002npj.2	+	5	1475	c.1365A>G	c.(1363-1365)AAA>AAG	p.K455K	ZNF430_uc002npk.2_Silent_p.K454K	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	455					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						CTGGAGAGAAACCCTACAAAT	0.393													9	32					0	0	1	0	0		G	21240479	G	G	21240479	2	3	84	1	0	0	0	0	0	0	0	1	17929	40	2	3		3	ZNF430	19	21240479	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1585450	21240479	37888504	1303	53146											
ZNF254	9534	broad.mit.edu	37	chr19	24309953	24309953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctacaaatgcttagaatgtgGcaaagcttttaagcaactct	14	12	7	8	0	1	1	0	0	1	1	1	1	1	1	0	1	5	4	0	1	7	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:24309953G>A	uc002nru.2	+	4	1285	c.1151G>A	c.(1150-1152)GGC>GAC	p.G384D	ZNF254_uc010xrk.1_Missense_Mutation_p.G299D	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	384	C2H2-type 7.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				TTAGAATGTGGCAAAGCTTTT	0.363													12	23					0	0	1	0	0		A	24309953	A	A	24309953	3	1	84	1	0	0	0	0	1	0	0	0	17823	1203	42	2	1165	2	ZNF254	19	24309953	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3069474	24309953	34819030	1304	53147											
C19orf12	83636	broad.mit.edu	37	chr19	30193764	30193764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actccaggtgcctgatgatgGctgcggcttcgttaaagagc	8	10	13	10	2	0	3	0	2	0	1	2	3	1	3	2	3	3	3	2	3	2	2	rs61750862		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:30193764G>A	uc002nsk.2	-	3	712	c.281C>T	c.(280-282)GCC>GTC	p.A94V	C19orf12_uc002nsj.2_Missense_Mutation_p.A105V|C19orf12_uc002nsl.2_3'UTR|C19orf12_uc002nsm.2_RNA	NM_031448	NP_113636	Q9NSK7	CS012_HUMAN	hypothetical protein LOC83636 isoform 2	94						integral to membrane					0	Ovarian(5;0.000567)|Breast(6;0.0203)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0435)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.183)			CCTGATGATGGCTGCGGCTTC	0.612													25	103					0	0	1	0	0		A	30193764	A	A	30193764	3	1	84	1	0	0	0	0	1	0	0	0	1912	1203	42	2	148	2	C19orf12	19	30193764	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	5883811	30193764	28935219	1305	53148											
TSHZ3	57616	broad.mit.edu	37	chr19	31769082	31769082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccccagctaggagtgccGttctgggccttgttgattgc	4	11	12	14	1	1	1	0	1	1	0	1	2	1	2	5	2	3	3	5	2	1	5	rs144514621	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:31769082G>A	uc002nsy.3	-	2	1682	c.1617C>T	c.(1615-1617)AAC>AAT	p.N539N		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	539					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TAGGAGTGCCGTTCTGGGCCT	0.547													47	125					0	0	1	0	0		A	31769082	A	A	31769082	2	1	84	1	0	0	0	0	0	0	0	1	16651	1136	40	1		1	TSHZ3	19	31769082	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1575318	31769082	27359901	1306	53149											
PEPD	5184	broad.mit.edu	37	chr19	33980942	33980942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctccctgcagacactgcCgctgtccgtgttgacgccac	5	8	11	17	3	0	2	0	1	0	1	2	2	2	2	5	1	2	3	5	1	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:33980942C>T	uc002nur.3	-	6	598	c.463G>A	c.(463-465)GGC>AGC	p.G155S	PEPD_uc010xrr.1_Missense_Mutation_p.G155S|PEPD_uc010xrs.1_Missense_Mutation_p.G91S	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	155					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)					CAGACACTGCCGCTGTCCGTG	0.652													7	24					0	0	1	0	0		T	33980942	T	T	33980942	3	4	84	1	0	0	0	0	1	0	0	0	11747	652	23	1	1058	1	PEPD	19	33980942	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2211860	33980942	25148041	1307	53150											
UBA2	10054	broad.mit.edu	37	chr19	34934770	34934770	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttgtttggggaagaagaTgctgatcaagaagtatctcc	12	11	12	6	0	2	4	1	1	1	3	3	5	2	5	1	2	1	4	1	2	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:34934770T>C	uc002nvk.2	+	7	673	c.603T>C	c.(601-603)GAT>GAC	p.D201D	UBA2_uc010xrx.1_Silent_p.D74D|UBA2_uc002nvl.2_Silent_p.D105D	NM_005499	NP_005490	Q9UBT2	SAE2_HUMAN	SUMO-1 activating enzyme subunit 2	201					protein sumoylation	nucleus	ATP binding|enzyme activator activity|ligase activity|metal ion binding|protein heterodimerization activity|SUMO activating enzyme activity			ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			GGGAAGAAGATGCTGATCAAG	0.308													21	55					0	0	1	0	0		C	34934770	C	C	34934770	2	2	84	1	0	0	0	0	0	0	0	1	16854	1461	51	3		3	UBA2	19	34934770	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	953828	34934770	24194213	1308	53151											
GRAMD1A	57655	broad.mit.edu	37	chr19	35517005	35517005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	catcacagtctcagaccctcCctttgacacccagccccggc	8	7	6	20	1	2	2	2	1	1	1	4	2	3	2	5	1	1	0	5	1	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:35517005C>T	uc010xse.1	+	20	2272	c.2135C>T	c.(2134-2136)CCC>CTC	p.P712L	GRAMD1A_uc002nxk.2_Missense_Mutation_p.P701L|GRAMD1A_uc002nxl.2_Missense_Mutation_p.P474L|GRAMD1A_uc010xsf.1_Missense_Mutation_p.P713L|GRAMD1A_uc002nxm.1_RNA|GRAMD1A_uc002nxn.1_Missense_Mutation_p.P323L	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	712						integral to membrane					0	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			TCAGACCCTCCCTTTGACACC	0.642													17	56					0	0	1	0	0		T	35517005	T	T	35517005	3	4	84	1	0	0	0	0	1	0	0	0	6763	623	22	4	2213	4	GRAMD1A	19	35517005	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	582235	35517005	23611978	1309	53152											
FFAR2	2867	broad.mit.edu	37	chr19	35941299	35941299	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggctggctgtggtgacgcTgctcaatttcctggtgtgct	3	13	16	9	1	1	1	1	1	0	0	2	1	2	1	1	5	2	5	1	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:35941299T>G	uc002nzg.2	+	2	763	c.683T>G	c.(682-684)CTG>CGG	p.L228R	FFAR2_uc010eea.2_Missense_Mutation_p.L228R	NM_005306	NP_005297	O15552	FFAR2_HUMAN	free fatty acid receptor 2	228	Helical; Name=6; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GTGGTGACGCTGCTCAATTTC	0.607													33	104					0	0	1	0	0		G	35941299	G	G	35941299	3	3	84	1	0	0	0	0	1	0	0	0	5842	1580	55	5	685	5	FFAR2	19	35941299	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	424294	35941299	23187684	1310	53153											
ATP4A	495	broad.mit.edu	37	chr19	36050092	36050092	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgtcagggacaggcagAcctggggaaggggtgagcac	9	5	19	8	0	1	2	1	1	0	1	1	4	1	4	1	7	1	3	1	7	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:36050092A>C	uc002oal.1	-	8	1087	c.1058T>G	c.(1057-1059)GTC>GGC	p.V353G	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	353	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	GGACAGGCAGACCTGGGGAAG	0.647													33	171					0	0	1	0	0		C	36050092	C	C	36050092	3	2	84	1	0	0	0	0	1	0	0	0	1146	289	10	5	2109	5	ATP4A	19	36050092	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	108793	36050092	23078891	1311	53154											
MLL4	9757	broad.mit.edu	37	chr19	36210764	36210764	+	Frame_Shift_Del	DEL	C	-	-																															cctagcagatgtggctcctaCccccccaaagacccctgccc																								rs60207923	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:36210764delC	uc010eei.2	+	3	515	c.515delC	c.(514-516)ACCfs	p.T172fs		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	172					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GTGGCTCCTACCCCCCCAAAG	0.632													52	114	---	---	---	---						.	-	36210764	-	-	36210764	7	5	84	1	0	1	0	1	0	0	0	0	9641	507	18	0	525	0	MLL4	19	36210764	Frame_Shift_Del	DEL	C	TCGA-BR-8591-01A-11D-2394-08	160672	36210764	22918219	1312	53155											
MLL4	9757	broad.mit.edu	37	chr19	36211209	36211209	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaagatgggacaattgtcCttgggactcgaatcaggtca	12	10	12	7	1	2	1	2	0	0	1	4	4	3	3	1	3	0	1	1	3	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:36211209C>A	uc010eei.2	+	3	960	c.960C>A	c.(958-960)TCC>TCA	p.S320S		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	320					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GACAATTGTCCTTGGGACTCG	0.552													7	14					3.09899e-07	3.27774e-07	1	1	0		A	36211209	A	A	36211209	2	1	84	1	0	0	0	0	0	0	0	1	9641	668	24	5		5	MLL4	19	36211209	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	445	36211209	22917774	1313	53156											
MLL4	9757	broad.mit.edu	37	chr19	36228041	36228041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatgctgtcatcttcctggCcgagcagctccccggagccc	5	9	11	16	2	2	1	1	1	1	0	4	3	4	2	5	2	4	3	5	2	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:36228041C>T	uc010eei.2	+	34	7427	c.7427C>T	c.(7426-7428)GCC>GTC	p.A2476V		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2476	FYR C-terminal.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			ATCTTCCTGGCCGAGCAGCTC	0.622													3	20					0	0	1	0	0		T	36228041	T	T	36228041	3	4	84	1	0	0	0	0	1	0	0	0	9641	739	26	2	7557	2	MLL4	19	36228041	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	16832	36228041	22900942	1314	53157											
PRODH2	58510	broad.mit.edu	37	chr19	36297674	36297674	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagcagcgagagcgcaGggttcagtgaggtgtactcc	9	6	14	12	2	1	2	1	1	0	1	2	3	2	2	3	2	4	4	3	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:36297674G>T	uc002obx.1	-	7	983	c.965C>A	c.(964-966)CCT>CAT	p.P322H		NM_021232	NP_067055	Q9UF12	PROD2_HUMAN	kidney and liver proline oxidase 1	322					glutamate biosynthetic process|proline catabolic process		proline dehydrogenase activity			ovary(2)	2	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CGAGAGCGCAGGGTTCAGTGA	0.672													11	24					3.86212e-05	4.00704e-05	1	1	0		T	36297674	T	T	36297674	3	4	84	1	0	0	0	0	1	0	0	0	12571	1000	35	5	665	5	PRODH2	19	36297674	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	69633	36297674	22831309	1315	53158											
SIPA1L3	23094	broad.mit.edu	37	chr19	38572874	38572874	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcttcttcgacatcctgaaCgagttccgcagcgagcagcc	9	8	10	14	4	1	1	0	1	1	0	4	4	3	1	3	0	5	4	3	0	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:38572874C>T	uc002ohk.2	+	3	1178	c.669C>T	c.(667-669)AAC>AAT	p.N223N		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	223					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			ACATCCTGAACGAGTTCCGCA	0.711													25	94					0	0	1	0	0		T	38572874	T	T	38572874	2	4	84	1	0	0	0	0	0	0	0	1	14356	535	19	1		1	SIPA1L3	19	38572874	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2275200	38572874	20556109	1316	53159											
SIPA1L3	23094	broad.mit.edu	37	chr19	38684402	38684402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacccctgccgccggcagcGgctttcccgagaagaaatgt	8	6	11	16	4	0	2	0	0	0	2	1	3	1	2	6	2	2	2	6	2	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:38684402G>A	uc002ohk.2	+	18	5331	c.4822G>A	c.(4822-4824)GGC>AGC	p.G1608S		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1608					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CGCCGGCAGCGGCTTTCCCGA	0.721													6	11					0	0	1	0	0		A	38684402	A	A	38684402	3	1	84	1	0	0	0	0	1	0	0	0	14356	1116	39	1	4884	1	SIPA1L3	19	38684402	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	111528	38684402	20444581	1317	53160											
SPINT2	10653	broad.mit.edu	37	chr19	38778555	38778555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccaccagcaggaatgcagCggattcctctgtcccaagtg	9	7	12	13	1	1	0	0	0	1	0	3	2	3	2	4	3	3	2	4	3	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:38778555C>T	uc002ohr.1	+	3	648	c.317C>T	c.(316-318)GCG>GTG	p.A106V	SPINT2_uc002ohs.1_Missense_Mutation_p.A49V	NM_021102	NP_066925	O43291	SPIT2_HUMAN	serine protease inhibitor, Kunitz type, 2	106	Extracellular (Potential).				cellular component movement	cytoplasm|extracellular region|integral to membrane|soluble fraction	serine-type endopeptidase inhibitor activity				0	all_cancers(60;6.83e-07)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			AGGAATGCAGCGGATTCCTCT	0.537													42	143					0	0	1	0	0		T	38778555	T	T	38778555	3	4	84	1	0	0	0	0	1	0	0	0	15094	768	27	1	327	1	SPINT2	19	38778555	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	94153	38778555	20350428	1318	53161											
GGN	199720	broad.mit.edu	37	chr19	38876364	38876364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcagccgcgggtgcgggcGcggacacaggcggcgagggc	5	1	22	13	8	0	0	0	0	0	0	0	2	0	1	1	6	2	1	1	6	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:38876364G>A	uc002oij.1	-	3	1673	c.1538C>T	c.(1537-1539)GCG>GTG	p.A513V	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Missense_Mutation_p.A430V	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	513	Interactions with ZNF403/GGNBP2 and OAZ3 (By similarity).|Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			gggtgcgggcgcggacacagg	0.249													4	31					0	0	1	0	0		A	38876364	A	A	38876364	3	1	84	1	0	0	0	0	1	0	0	0	6373	1087	38	1	428	1	GGN	19	38876364	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	97809	38876364	20252619	1319	53162											
FAM98C	147965	broad.mit.edu	37	chr19	38899406	38899406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaggtgcttatgggcaacGttccagaccgggggggccgc	6	7	16	12	3	1	1	1	0	0	1	2	1	2	1	3	5	2	3	3	5	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:38899406G>A	uc002oin.1	+	8	953	c.934G>A	c.(934-936)GTT>ATT	p.V312I	FAM98C_uc002oio.1_Missense_Mutation_p.V230I|FAM98C_uc010xtz.1_Missense_Mutation_p.R178H	NM_174905	NP_777565	Q17RN3	FA98C_HUMAN	hypothetical protein LOC147965	312										skin(1)	1	all_cancers(60;3.95e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TATGGGCAACGTTCCAGACCG	0.572													41	67					0	0	1	0	0		A	38899406	A	A	38899406	3	1	84	1	0	0	0	0	1	0	0	0	5672	1145	40	1	964	1	FAM98C	19	38899406	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	23042	38899406	20229577	1320	53163											
RYR1	6261	broad.mit.edu	37	chr19	38994880	38994880	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcaccaaccactatgaGcgctgttggaagtactactg	10	10	8	13	1	1	1	1	1	0	0	2	2	2	2	3	1	4	3	3	1	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:38994880G>A	uc002oit.2	+	50	8077	c.7947G>A	c.(7945-7947)GAG>GAA	p.E2649E	RYR1_uc002oiu.2_Silent_p.E2649E|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2649	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	ACCACTATGAGCGCTGTTGGA	0.597													10	27					0	0	1	0	0		A	38994880	A	A	38994880	2	1	84	1	0	0	0	0	0	0	0	1	13793	962	34	2		2	RYR1	19	38994880	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	95474	38994880	20134103	1321	53164											
RYR1	6261	broad.mit.edu	37	chr19	39018309	39018309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaaggctccccgtctctgcGctggcagatggctctgtacc	5	9	12	15	3	2	1	0	0	2	1	4	2	3	1	3	3	2	5	3	3	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:39018309G>A	uc002oit.2	+	73	10839	c.10709G>A	c.(10708-10710)CGC>CAC	p.R3570H	RYR1_uc002oiu.2_Missense_Mutation_p.R3565H|RYR1_uc002oiv.1_Missense_Mutation_p.R485H|RYR1_uc010xuf.1_Missense_Mutation_p.R490H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3570					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CCGTCTCTGCGCTGGCAGATG	0.647													14	32					0	0	1	0	0		A	39018309	A	A	39018309	3	1	84	1	0	0	0	0	1	0	0	0	13793	1087	38	1	10999	1	RYR1	19	39018309	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	23429	39018309	20110674	1322	53165											
MAP4K1	11184	broad.mit.edu	37	chr19	39108034	39108034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgatgttggcgtgccGgcaagttttcaatatgagga	9	10	14	8	3	1	1	1	1	0	0	1	3	1	2	2	4	1	3	2	4	3	4	rs35079766		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:39108034G>A	uc002oix.1	-	3	316	c.208C>T	c.(208-210)CGG>TGG	p.R70W	MAP4K1_uc002oiy.1_Missense_Mutation_p.R70W|EIF3K_uc010xuh.1_5'Flank|EIF3K_uc002oiz.1_5'Flank|EIF3K_uc010xui.1_5'Flank	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	70	Protein kinase.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TTGGCGTGCCGGCAAGTTTTC	0.562													4	61					0	0	1	0	0		A	39108034	A	A	39108034	3	1	84	1	0	0	0	0	1	0	0	0	9277	1115	39	1	2475	1	MAP4K1	19	39108034	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	89725	39108034	20020949	1323	53166											
MED29	55588	broad.mit.edu	37	chr19	39882043	39882043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcagtcgtaacgcacttcCggcggtctacgcgaggaaga	10	6	13	12	7	1	1	0	0	1	1	3	3	2	2	1	3	2	3	1	3	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:39882043C>T	uc002olf.2	+	1	81	c.44C>T	c.(43-45)CCG>CTG	p.P15L	PAF1_uc002old.2_5'Flank|PAF1_uc002ole.1_5'Flank|PAF1_uc010xuv.1_5'Flank|MED29_uc010xuw.1_Missense_Mutation_p.P15L|MED29_uc010xux.1_RNA	NM_017592	NP_060062	Q9NX70	MED29_HUMAN	mediator complex subunit 29	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mediator complex	protein binding			ovary(1)|pancreas(1)	2	all_cancers(60;7.82e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.88e-06)|Ovarian(47;0.0512)		Epithelial(26;1.04e-26)|all cancers(26;7.68e-24)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			AACGCACTTCCGGCGGTCTAC	0.587													11	26					0	0	1	0	0		T	39882043	T	T	39882043	3	4	84	1	0	0	0	0	1	0	0	0	9465	652	23	1	46	1	MED29	19	39882043	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	774009	39882043	19246940	1324	53167											
FCGBP	8857	broad.mit.edu	37	chr19	40433949	40433949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcagaatggatcaccaccGcatgctggaagatcttgctg	11	9	11	10	1	3	2	2	0	1	2	3	4	3	4	2	2	2	3	2	2	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:40433949G>A	uc002omp.3	-	2	328	c.320C>T	c.(319-321)GCG>GTG	p.A107V		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	107	IgGFc-binding.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GATCACCACCGCATGCTGGAA	0.567													24	94					0	0	1	0	0		A	40433949	A	A	40433949	3	1	84	1	0	0	0	0	1	0	0	0	5792	1087	38	1	16037	1	FCGBP	19	40433949	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	551906	40433949	18695034	1325	53168											
C19orf47	126526	broad.mit.edu	37	chr19	40828158	40828158	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggactggccttggctgggccCcgtcctagcttcttcaggac	4	10	13	14	1	2	0	1	0	1	0	3	2	3	2	4	5	1	2	4	5	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:40828158C>A	uc002oni.3	-	9	901	c.900G>T	c.(898-900)CGG>CGT	p.R300R	C19orf47_uc002ong.2_Silent_p.R159R|C19orf47_uc002onh.2_Silent_p.R233R	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526	300										ovary(1)|skin(1)	2			Lung(22;0.000636)			TGGCTGGGCCCCGTCCTAGCT	0.647													24	70					5.35356e-11	5.81778e-11	1	1	0		A	40828158	A	A	40828158	2	1	84	1	0	0	0	0	0	0	0	1	1933	610	22	5		5	C19orf47	19	40828158	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	394209	40828158	18300825	1326	53169											
PRX	57716	broad.mit.edu	37	chr19	40901573	40901573	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaacagagggcactcggaAgcccacttccctgacccctg	9	7	9	16	1	1	2	1	1	0	1	3	3	2	3	4	2	2	1	4	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:40901573A>G	uc002onr.2	-	7	2955	c.2686T>C	c.(2686-2688)TTC>CTC	p.F896L	PRX_uc002onq.2_Missense_Mutation_p.F757L|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	896					axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GGCACTCGGAAGCCCACTTCC	0.612													22	115					0	0	1	0	0		G	40901573	G	G	40901573	3	3	84	1	0	0	0	0	1	0	0	0	12664	72	3	3	1703	3	PRX	19	40901573	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	73415	40901573	18227410	1327	53170											
CYP2A7	1549	broad.mit.edu	37	chr19	41383195	41383195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggatctcgtggatcactGcctccatgtagggcatcttg	6	14	11	10	1	3	0	1	0	2	0	5	2	4	2	2	3	1	2	2	3	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:41383195G>A	uc002opm.2	-	7	1603	c.1061C>T	c.(1060-1062)GCA>GTA	p.A354V	CYP2A7_uc002opo.2_Missense_Mutation_p.A354V|CYP2A7_uc002opn.2_Missense_Mutation_p.A303V	NM_000764	NP_000755	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A,	354						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			GTGGATCACTGCCTCCATGTA	0.537													33	105					0	0	1	0	0		A	41383195	A	A	41383195	3	1	84	1	0	0	0	0	1	0	0	0	4166	1319	46	2	435	2	CYP2A7	19	41383195	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	481622	41383195	17745788	1328	53171											
CCDC97	90324	broad.mit.edu	37	chr19	41822577	41822577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgttcctggagcgcttccGcacaggcctccgtgaggagc	5	8	15	13	3	0	1	0	1	0	0	3	3	3	3	4	4	2	3	4	4	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:41822577G>A	uc002oqg.2	+	2	457	c.335G>A	c.(334-336)CGC>CAC	p.R112H	CYP2F1_uc010xvw.1_Intron	NM_052848	NP_443080	Q96F63	CCD97_HUMAN	coiled-coil domain containing 97	112											0						GAGCGCTTCCGCACAGGCCTC	0.637													16	52					0	0	1	0	0		A	41822577	A	A	41822577	3	1	84	1	0	0	0	0	1	0	0	0	2878	1087	38	1	341	1	CCDC97	19	41822577	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	439382	41822577	17306406	1329	53172											
CCDC97	90324	broad.mit.edu	37	chr19	41825583	41825583	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggagctcagtgcccgcaccCcaacccaccagccccccaag	10	2	8	21	1	1	0	1	0	0	0	1	1	1	1	8	1	4	2	8	1	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:41825583C>A	uc002oqg.2	+	3	729	c.607C>A	c.(607-609)CCA>ACA	p.P203T	CYP2F1_uc010xvw.1_Intron	NM_052848	NP_443080	Q96F63	CCD97_HUMAN	coiled-coil domain containing 97	203											0						TGCCCGCACCCCAACCCACCA	0.647													46	110					3.21987e-24	3.64695e-24	1	1	0		A	41825583	A	A	41825583	3	1	84	1	0	0	0	0	1	0	0	0	2878	623	22	5	617	5	CCDC97	19	41825583	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3006	41825583	17303400	1330	53173											
CEACAM3	1084	broad.mit.edu	37	chr19	42301803	42301803	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaatgtcacccagaatgAcataggattctacaccctac	14	8	6	13	0	2	3	1	1	1	2	2	4	2	4	3	1	2	0	3	1	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:42301803A>C	uc002orn.1	+	2	423	c.347A>C	c.(346-348)GAC>GCC	p.D116A	CEACAM3_uc010eia.1_Missense_Mutation_p.D116A|CEACAM3_uc002oro.1_RNA	NM_001815	NP_001806	P40198	CEAM3_HUMAN	carcinoembryonic antigen-related cell adhesion	116	Ig-like V-type.|Extracellular (Potential).					integral to membrane				skin(1)	1						ACCCAGAATGACATAGGATTC	0.458													76	243					0	0	1	0	0		C	42301803	C	C	42301803	3	2	84	1	0	0	0	0	1	0	0	0	3196	275	10	5	353	5	CEACAM3	19	42301803	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	476220	42301803	16827180	1331	53174											
CD79A	973	broad.mit.edu	37	chr19	42383115	42383115	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccagcatcattgatggtgagCctgggggaagacgcccactt	9	8	13	11	1	1	3	1	2	0	1	1	4	1	4	3	3	2	1	3	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:42383115C>T	uc002orv.2	+	2	320	c.135C>T	c.(133-135)AGC>AGT	p.S45S	CD79A_uc002oru.2_Silent_p.S45S	NM_001783	NP_001774	P11912	CD79A_HUMAN	CD79A antigen isoform 1 precursor	45	Ig-like C2-type.|Extracellular (Potential).				B cell differentiation|B cell proliferation|B cell receptor signaling pathway	B cell receptor complex|external side of plasma membrane|integral to membrane|membrane raft|multivesicular body	transmembrane receptor activity			ovary(2)|pancreas(1)	3						TGATGGTGAGCCTGGGGGAAG	0.632			O|S		DLBCL								23	45					0	0	1	0	0		T	42383115	T	T	42383115	2	4	84	1	0	0	0	0	0	0	0	1	3039	738	26	2		2	CD79A	19	42383115	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	81312	42383115	16745868	1332	53175											
ARHGEF1	9138	broad.mit.edu	37	chr19	42406803	42406803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctcggttctgtgccttcGtgcaggtgaggtggggtctg	3	12	16	10	2	2	1	0	1	2	0	4	1	2	1	2	5	2	2	2	5	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:42406803G>A	uc002orx.2	+	17	1727	c.1618G>A	c.(1618-1620)GTG>ATG	p.V540M	ARHGEF1_uc002ory.2_Missense_Mutation_p.V507M|ARHGEF1_uc002orz.2_Missense_Mutation_p.V378M|ARHGEF1_uc002osa.2_Missense_Mutation_p.V555M|ARHGEF1_uc002osb.2_Missense_Mutation_p.V522M|ARHGEF1_uc002osc.2_Missense_Mutation_p.V294M|ARHGEF1_uc002osd.2_Missense_Mutation_p.V199M|ARHGEF1_uc002ose.2_5'Flank	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	540	DH.				cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		CTGTGCCTTCGTGCAGGTGAG	0.433													24	49					0	0	1	0	0		A	42406803	A	A	42406803	3	1	84	1	0	0	0	0	1	0	0	0	893	1145	40	1	1729	1	ARHGEF1	19	42406803	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	23688	42406803	16722180	1333	53176											
ATP1A3	478	broad.mit.edu	37	chr19	42482399	42482399	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacaaagcagaggttgtcCgtggtgaagttcacgtcatc	10	9	11	11	2	2	2	2	1	0	1	4	2	3	2	2	2	1	3	2	2	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:42482399C>T	uc002osg.2	-	13	1864	c.1710G>A	c.(1708-1710)ACG>ACA	p.T570T	ATP1A3_uc010xwf.1_Silent_p.T581T|ATP1A3_uc010xwg.1_Silent_p.T540T|ATP1A3_uc010xwh.1_Silent_p.T583T|ATP1A3_uc002osh.2_Silent_p.T570T	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	570	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						AGAGGTTGTCCGTGGTGAAGT	0.597													5	24					0	0	1	0	0		T	42482399	T	T	42482399	2	4	84	1	0	0	0	0	0	0	0	1	1131	639	23	1		1	ATP1A3	19	42482399	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	75596	42482399	16646584	1334	53177											
PSG6	5675	broad.mit.edu	37	chr19	43420541	43420541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctggggcaaattgtggaCaagtagaagaacatccttcc	13	10	10	8	0	1	2	0	0	1	2	3	3	3	3	2	3	1	2	2	3	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:43420541C>T	uc002ovj.1	-	2	215	c.163G>A	c.(163-165)GTC>ATC	p.V55I	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG6_uc002ovf.1_Missense_Mutation_p.V55I|PSG6_uc002ovg.1_Missense_Mutation_p.V55I	NM_002782	NP_002773	Q00889	PSG6_HUMAN	pregnancy specific beta-1-glycoprotein 6 isoform	55	Ig-like V-type.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				AAATTGTGGACAAGTAGAAGA	0.443													75	241					0	0	1	0	0		T	43420541	T	T	43420541	3	4	84	1	0	0	0	0	1	0	0	0	12681	478	17	4	1203	4	PSG6	19	43420541	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	938142	43420541	15708442	1335	53178											
PSG2	5670	broad.mit.edu	37	chr19	43579535	43579535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagggtgactgggtcactgCggctggcactccctgagttc	5	10	14	12	1	2	2	2	2	0	0	4	2	3	2	1	4	1	3	1	4	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:43579535C>T	uc002ovr.2	-	3	773	c.680G>A	c.(679-681)CGC>CAC	p.R227H	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.R227H|PSG2_uc010eiq.1_Missense_Mutation_p.R227H|PSG2_uc002ovs.3_Missense_Mutation_p.R227H|PSG2_uc002ovt.3_Missense_Mutation_p.R227H	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	227	Ig-like C2-type 1.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				TGGGTCACTGCGGCTGGCACT	0.532													109	389					0	0	1	0	0		T	43579535	T	T	43579535	3	4	84	1	0	0	0	0	1	0	0	0	12677	768	27	1	339	1	PSG2	19	43579535	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	158994	43579535	15549448	1336	53179											
ZNF224	7767	broad.mit.edu	37	chr19	44611445	44611445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catataattgtaaagagtgtGggaagagcttcagatgggcc	13	10	13	5	0	1	3	1	0	0	3	1	4	1	4	1	2	1	2	1	2	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:44611445G>A	uc002oyh.1	+	6	1434	c.1132G>A	c.(1132-1134)GGG>AGG	p.G378R	uc002oyi.2_RNA	NM_013398	NP_037530	Q9NZL3	ZN224_HUMAN	zinc finger protein 224	378	C2H2-type 8.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				TAAAGAGTGTGGGAAGAGCTT	0.423													36	79					0	0	1	0	0		A	44611445	A	A	44611445	3	1	84	1	0	0	0	0	1	0	0	0	17803	1348	47	4	1146	4	ZNF224	19	44611445	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1031910	44611445	14517538	1337	53180											
PPM1N	147699	broad.mit.edu	37	chr19	46002428	46002428	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggccgtgtcgcgagcgtTgggcgactttacctacaagg	6	10	14	11	5	1	0	0	0	1	0	2	2	1	0	2	3	3	1	2	3	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:46002428T>C	uc002pce.2	+	1	698	c.698T>C	c.(697-699)TTG>TCG	p.L233S	RTN2_uc002pcb.2_5'Flank|RTN2_uc002pcc.2_5'Flank|RTN2_uc002pcd.2_5'Flank|PPM1N_uc002pcf.2_5'Flank	NM_001080401	NP_001073870	Q8N819	PPM1N_HUMAN	protein phosphatase 1B-like	233	PP2C-like.						magnesium ion binding|manganese ion binding|phosphoprotein phosphatase activity				0						TCGCGAGCGTTGGGCGACTTT	0.721													14	34					0	0	1	0	0		C	46002428	C	C	46002428	3	2	84	1	0	0	0	0	1	0	0	0	12368	1821	63	3	700	3	PPM1N	19	46002428	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1390983	46002428	13126555	1338	53181											
DMPK	1760	broad.mit.edu	37	chr19	46274895	46274895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgtgtgcctctaggtcccGgttccgagcctctgcctcgc	3	10	12	16	4	2	0	0	0	2	0	5	2	4	0	5	2	3	1	5	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:46274895G>A	uc002pdd.1	-	11	2105	c.1561C>T	c.(1561-1563)CGG>TGG	p.R521W	SIX5_uc002pdb.2_5'Flank|SIX5_uc002pdc.2_5'Flank|DMPK_uc010xxs.1_Missense_Mutation_p.R422W|DMPK_uc002pde.1_Missense_Mutation_p.R516W|DMPK_uc002pdf.1_Missense_Mutation_p.R511W|DMPK_uc002pdg.1_Missense_Mutation_p.R506W|DMPK_uc002pdh.1_Missense_Mutation_p.R506W|DMPK_uc002pdi.1_Missense_Mutation_p.R537W|DMPK_uc010xxt.1_Missense_Mutation_p.R506W	NM_001081563	NP_001075032	Q09013	DMPK_HUMAN	myotonic dystrophy protein kinase isoform 1	521					regulation of heart contraction		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)	3		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00616)|GBM - Glioblastoma multiforme(486;0.0825)|Epithelial(262;0.24)		TCTAGGTCCCGGTTCCGAGCC	0.667													8	45					0	0	1	0	0		A	46274895	A	A	46274895	3	1	84	1	0	0	0	0	1	0	0	0	4590	1115	39	1	381	1	DMPK	19	46274895	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	272467	46274895	12854088	1339	53182											
PTGIR	5739	broad.mit.edu	37	chr19	47127183	47127183	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggacgccaggccgaagaaGgtcatggcgaaggcgaaggc	12	3	17	9	4	1	1	1	0	0	1	1	5	1	2	2	6	0	0	2	6	4	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:47127183G>T	uc002pex.2	-	2	413	c.300C>A	c.(298-300)ACC>ACA	p.T100T		NM_000960	NP_000951	P43119	PI2R_HUMAN	prostaglandin I2 (prostacyclin) receptor (IP)	100	Helical; Name=3; (Potential).				cell-cell signaling|G-protein signaling, coupled to cyclic nucleotide second messenger|platelet activation	integral to plasma membrane	G-protein coupled receptor activity|guanyl-nucleotide exchange factor activity				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000327)|all cancers(93;0.000641)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0331)	Dinoprost Tromethamine(DB01160)|Dinoprostone(DB00917)|Epoprostenol(DB01240)|Iloprost(DB01088)|Misoprostol(DB00929)	GGCCGAAGAAGGTCATGGCGA	0.701													5	12					1.23904e-05	1.29091e-05	1	1	0		T	47127183	T	T	47127183	2	4	84	1	0	0	0	0	0	0	0	1	12774	987	35	5		5	PTGIR	19	47127183	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	852288	47127183	12001800	1340	53183											
PRKD2	25865	broad.mit.edu	37	chr19	47201052	47201052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgtggtgctggatttccGcgtcgtgtgtcgcaccgatt	4	12	14	11	6	0	0	0	0	0	0	3	2	1	1	2	2	2	2	2	2	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:47201052G>A	uc002pfh.2	-	9	1519	c.1177C>T	c.(1177-1179)CGG>TGG	p.R393W	PRKD2_uc002pfe.2_5'Flank|PRKD2_uc002pff.2_5'Flank|PRKD2_uc002pfg.2_Missense_Mutation_p.R236W|PRKD2_uc002pfi.2_Missense_Mutation_p.R393W|PRKD2_uc002pfj.2_Missense_Mutation_p.R393W|PRKD2_uc010xye.1_Missense_Mutation_p.R393W|PRKD2_uc002pfk.2_Missense_Mutation_p.R236W	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	393					cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		CTGGATTTCCGCGTCGTGTGT	0.483													49	131					0	0	1	0	0		A	47201052	A	A	47201052	3	1	84	1	0	0	0	0	1	0	0	0	12541	1086	38	1	1503	1	PRKD2	19	47201052	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	73869	47201052	11927931	1341	53184											
ZC3H4	23211	broad.mit.edu	37	chr19	47570534	47570534	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattgcagggccgcgggcacGgggggcactgcgtcctgctt	4	7	18	12	4	0	0	0	0	0	0	1	1	1	0	2	5	3	4	2	5	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:47570534G>A	uc002pga.3	-	15	3029	c.2991C>T	c.(2989-2991)CCC>CCT	p.P997P	ZC3H4_uc002pgb.1_RNA	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	997							nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		CCGCGGGCACGGGGGGCACTG	0.736													39	81					0	0	1	0	0		A	47570534	A	A	47570534	2	1	84	1	0	0	0	0	0	0	0	1	17595	1103	39	1		1	ZC3H4	19	47570534	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	369482	47570534	11558449	1342	53185											
SLC8A2	6543	broad.mit.edu	37	chr19	47960734	47960734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctatgatgatgccgctgcGtgggtcggtgcggtagcgct	4	10	17	10	5	0	2	0	2	0	0	1	2	0	2	2	3	4	3	2	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:47960734G>A	uc002pgx.2	-	3	1071	c.793C>T	c.(793-795)CGC>TGC	p.R265C	SLC8A2_uc010xyq.1_Missense_Mutation_p.R21C|SLC8A2_uc010xyr.1_Intron|SLC8A2_uc010ele.2_Missense_Mutation_p.R265C	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	265	Calmodulin-binding (By similarity).|Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		ATGCCGCTGCGTGGGTCGGTG	0.622													10	16					0	0	1	0	0		A	47960734	A	A	47960734	3	1	84	1	0	0	0	0	1	0	0	0	14732	1145	40	1	2004	1	SLC8A2	19	47960734	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	390200	47960734	11168249	1343	53186											
ZNF114	163071	broad.mit.edu	37	chr19	48789695	48789695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagatgcagttgtataccGcagagacaaacaagaaggat	16	7	11	7	1	0	3	0	0	0	3	0	5	0	4	1	1	4	5	1	1	5	3	rs147536572		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:48789695G>A	uc002pil.1	+	6	1311	c.814G>A	c.(814-816)GCA>ACA	p.A272T	ZNF114_uc010elv.1_Missense_Mutation_p.A272T|ZNF114_uc002pim.1_Missense_Mutation_p.A272T|ZNF114_uc002pin.2_Missense_Mutation_p.A238T	NM_153608	NP_705836	Q8NC26	ZN114_HUMAN	zinc finger protein 114	272					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_epithelial(76;8.01e-05)|all_lung(116;0.000112)|Lung NSC(112;0.000192)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;7.56e-05)|all cancers(93;0.000113)|Epithelial(262;0.00962)|GBM - Glioblastoma multiforme(486;0.0153)		GTTGTATACCGCAGAGACAAA	0.448													34	79					0	0	1	0	0		A	48789695	A	A	48789695	3	1	84	1	0	0	0	0	1	0	0	0	17741	1087	38	1	824	1	ZNF114	19	48789695	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	828961	48789695	10339288	1344	53187											
KDELR1	10945	broad.mit.edu	37	chr19	48892969	48892969	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaggctatgtagaccacCtgaggagggggatgatgaga	12	6	17	6	0	0	4	0	3	0	2	0	8	0	6	2	4	1	3	2	4	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:48892969C>T	uc002pjb.1	-	3	388	c.193_splice	c.e3-1	p.V65_splice	KDELR1_uc002pja.1_Splice_Site_p.V3_splice	NM_006801	NP_006792	P24390	ERD21_HUMAN	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum						intracellular protein transport|protein retention in ER lumen|vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|integral to membrane|membrane fraction	KDEL sequence binding|protein binding|receptor activity				0		all_epithelial(76;2.48e-06)|all_lung(116;5.76e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Prostate(7;0.122)|Breast(70;0.203)		all cancers(93;0.000114)|OV - Ovarian serous cystadenocarcinoma(262;0.000136)|Epithelial(262;0.01)|GBM - Glioblastoma multiforme(486;0.0145)		TGTAGACCACCTGAGGAGGGG	0.552													16	48					0	0	1	0	0		T	48892969	T	T	48892969	5	4	84	1	0	0	0	0	0	0	1	0	8135	695	24	4	458	4	KDELR1	19	48892969	Splice_Site	SNP	C	TCGA-BR-8591-01A-11D-2394-08	103274	48892969	10236014	1345	53188											
RPL18	6141	broad.mit.edu	37	chr19	49120017	49120017	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgaacccgcacatcaTcagttatggtccccacaacc	10	8	5	18	1	2	1	2	1	0	0	4	1	4	1	6	1	2	2	6	1	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:49120017T>C	uc002pjq.1	-	4	296	c.263A>G	c.(262-264)GAT>GGT	p.D88G	RPL18_uc002pjp.1_Missense_Mutation_p.D36G|RPL18_uc010xzs.1_Missense_Mutation_p.D88G|SPHK2_uc002pjr.2_5'Flank|SPHK2_uc010xzt.1_5'Flank|SPHK2_uc002pjs.2_5'Flank	NM_000979	NP_000970	Q07020	RL18_HUMAN	ribosomal protein L18	88					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	RNA binding|structural constituent of ribosome				0		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;9.89e-05)|all cancers(93;0.00011)|GBM - Glioblastoma multiforme(486;0.0061)|Epithelial(262;0.0154)		CCGCACATCATCAGTTATGGT	0.488													41	100					0	0	1	0	0		C	49120017	C	C	49120017	3	2	84	1	0	0	0	0	1	0	0	0	13589	1435	50	3	319	3	RPL18	19	49120017	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	227048	49120017	10008966	1346	53189											
RASIP1	54922	broad.mit.edu	37	chr19	49232772	49232773	+	Frame_Shift_Ins	INS	-	C	C																															tccacatagggagccggggaINSccccccgcggccagacgagt																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:49232772_49232773insC	uc002pki.2	-	5	1451_1452	c.1254_1255insG	c.(1252-1257)GGGTCCfs	p.G418fs		NM_017805	NP_060275	Q5U651	RAIN_HUMAN	Ras-interacting protein 1	418_419					signal transduction	Golgi stack|perinuclear region of cytoplasm				pancreas(1)	1		all_lung(116;4.89e-06)|all_epithelial(76;7.04e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;9.98e-05)|all cancers(93;0.000272)|Epithelial(262;0.0155)|GBM - Glioblastoma multiforme(486;0.0222)		GGAGCCGGGGACCCCCCGCGGC	0.658													6	12	---	---	---	---						.	C	49232773	C	C	49232772	7	5	84	1	0	1	1	0	0	0	0	0	13103	275	10	0	1668	0	RASIP1	19	49232772	Frame_Shift_Ins	INS	-	TCGA-BR-8591-01A-11D-2394-08	112755	49232772	9896211	1347	53190											
PPFIA3	8541	broad.mit.edu	37	chr19	49631308	49631308	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctacagcgcagctgcggCtgcgcgagctcggccacgag	6	5	16	14	6	0	0	0	0	0	0	1	2	0	0	1	3	6	5	1	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:49631308C>T	uc002pmr.2	+	2	510	c.178C>T	c.(178-180)CTG>TTG	p.L60L	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_5'Flank|PPFIA3_uc010yaj.1_5'Flank|PPFIA3_uc002pms.2_5'Flank	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	60	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		GCAGCTGCGGCTGCGCGAGCT	0.726													8	28					0	0	1	0	0		T	49631308	T	T	49631308	2	4	84	1	0	0	0	0	0	0	0	1	12330	796	28	2		2	PPFIA3	19	49631308	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	398536	49631308	9497675	1348	53191											
PTOV1	53635	broad.mit.edu	37	chr19	50361197	50361197	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtcggtccaagaggtggCtgccatcccacgtctacgtg	8	8	12	13	3	1	1	0	0	1	1	4	1	3	1	3	3	2	1	3	3	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:50361197C>T	uc002pqf.1	+	8	1011	c.841C>T	c.(841-843)CTG>TTG	p.L281L	PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Silent_p.L249L|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	281	Interaction with FLOT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		CAAGAGGTGGCTGCCATCCCA	0.657													25	76					0	0	1	0	0		T	50361197	T	T	50361197	2	4	84	1	0	0	0	0	0	0	0	1	12792	796	28	2		2	PTOV1	19	50361197	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	729889	50361197	8767786	1349	53192											
NUP62	23636	broad.mit.edu	37	chr19	50412227	50412228	+	Missense_Mutation	DNP	TG	CA	CA																															gctgctgctgctggtggtggTggcggtggcggtggcagcgg																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:50412227_50412228TG>CA	uc002pqx.2	-	2	941_942	c.837_838CA>TG	c.(835-840)GCCACC>GCTGCC	p.T280A	IL4I1_uc002pqv.1_Intron|IL4I1_uc010eno.1_Intron|IL4I1_uc002pqw.1_Intron|IL4I1_uc002pqu.1_Intron|NUP62_uc002pqy.2_Missense_Mutation_p.T280A|NUP62_uc002pqz.2_Missense_Mutation_p.T280A|NUP62_uc002pra.2_Missense_Mutation_p.T280A|NUP62_uc002prb.2_Missense_Mutation_p.T280A|NUP62_uc002prc.2_Intron	NM_153719	NP_714941	P37198	NUP62_HUMAN	nucleoporin 62kDa	280	15 X 9 AA approximate repeats.|Ala-rich.|Thr-rich.				carbohydrate metabolic process|cell death|cell surface receptor linked signaling pathway|glucose transport|hormone-mediated signaling pathway|mRNA transport|negative regulation of apoptosis|negative regulation of cell proliferation|nucleocytoplasmic transport|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|protein transport|regulation of glucose transport|transcription, DNA-dependent|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleocytoplasmic shuttling complex|ribonucleoprotein complex|spindle pole	chromatin binding|protein serine/threonine kinase activity|receptor signaling complex scaffold activity|SH2 domain binding|structural constituent of nuclear pore|thyroid hormone receptor binding|ubiquitin binding				0		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00242)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		ctggtggtggtggcggtggcgg	0.46													20	54					0	0	1	0	0		CA	50412228	CA	CA	50412227	3	2	84	1	0	0	0	0	1	0	0	0	10787	1696	59	3	734	3	NUP62	19	50412227	Missense_Mutation	DNP	TG	TCGA-BR-8591-01A-11D-2394-08	51030	50412227	8716756	1350	53193											
VRK3	51231	broad.mit.edu	37	chr19	50512565	50512565	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctgagaagagggataatcGgggagaggtgacggtgctgg	11	7	19	4	2	1	4	0	2	1	3	2	7	1	5	0	6	1	1	0	6	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:50512565G>A	uc002prg.2	-	4	315	c.217C>T	c.(217-219)CGA>TGA	p.R73*	VRK3_uc002prh.1_Nonsense_Mutation_p.R73*|VRK3_uc002pri.1_Intron|VRK3_uc010ens.2_Nonsense_Mutation_p.R73*|VRK3_uc010ybl.1_Intron|VRK3_uc010ybm.1_Intron|VRK3_uc002prj.1_Intron|VRK3_uc002prk.1_Nonsense_Mutation_p.R73*|VRK3_uc010ent.1_5'UTR|VRK3_uc002prl.2_Nonsense_Mutation_p.R73*|VRK3_uc010ybn.1_Nonsense_Mutation_p.R73*	NM_016440	NP_057524	Q8IV63	VRK3_HUMAN	vaccinia related kinase 3 isoform 1	73						nucleus	ATP binding|protein kinase activity			stomach(1)|skin(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00166)|OV - Ovarian serous cystadenocarcinoma(262;0.00652)		AGGGATAATCGGGGAGAGGTG	0.468													47	161					0	0	1	0	0		A	50512565	A	A	50512565	4	1	84	1	0	0	0	0	0	1	0	0	17247	1124	39	1	1251	1	VRK3	19	50512565	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	100338	50512565	8616418	1351	53194											
POLD1	5424	broad.mit.edu	37	chr19	50905959	50905959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagcgcattgcgcccttgCgcgtgctcagcttcgatatc	5	10	12	14	5	1	0	1	0	0	0	3	1	1	0	1	1	5	4	1	1	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:50905959C>T	uc002psb.3	+	8	987	c.931C>T	c.(931-933)CGC>TGC	p.R311C	POLD1_uc002psc.3_Missense_Mutation_p.R311C|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Missense_Mutation_p.R311C	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	311					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		TGCGCCCTTGCGCGTGCTCAG	0.667								DNA_polymerases_(catalytic_subunits)					13	16					0	0	1	0	0		T	50905959	T	T	50905959	3	4	84	1	0	0	0	0	1	0	0	0	12209	768	27	1	957	1	POLD1	19	50905959	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	393394	50905959	8223024	1352	53195											
MYBPC2	4606	broad.mit.edu	37	chr19	50954194	50954194	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaagctcaacttcctgggTgaggatgccccttcctcctt	6	11	9	15	0	1	1	1	1	0	0	4	2	4	2	6	2	3	1	6	2	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:50954194T>C	uc002psf.2	+	14	1630	c.1579_splice	c.e14+2	p.E527_splice		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type						cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		ACTTCCTGGGTGAGGATGCCC	0.632													3	4					0	0	1	0	0		C	50954194	C	C	50954194	5	2	84	1	0	0	0	0	0	0	1	0	10030	1710	59	3	1635	3	MYBPC2	19	50954194	Splice_Site	SNP	T	TCGA-BR-8591-01A-11D-2394-08	48235	50954194	8174789	1353	53196											
SHANK1	50944	broad.mit.edu	37	chr19	51170817	51170817	+	Frame_Shift_Del	DEL	G	-	-																															ttactccggggtgcggggccGggggctccgtccccagctgc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:51170817delG	uc002psx.1	-	22	4419	c.4400delC	c.(4399-4401)CCGfs	p.P1467fs	SHANK1_uc002psw.1_Frame_Shift_Del_p.P851fs	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1467					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GTGCGGGGCCGGGGGCTCCGT	0.761													5	8	---	---	---	---						.	-	51170817	-	-	51170817	7	5	84	1	0	1	0	1	0	0	0	0	14289	1116	39	0	2093	0	SHANK1	19	51170817	Frame_Shift_Del	DEL	G	TCGA-BR-8591-01A-11D-2394-08	216623	51170817	7958166	1354	53197											
KLK4	9622	broad.mit.edu	37	chr19	51412062	51412062	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcggcctcaagactgtgcAggcccagcccgatggtgtag	7	7	15	12	2	1	1	1	0	0	1	2	2	1	1	3	4	2	2	3	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:51412062A>G	uc002pua.1	-	3	248	c.248T>C	c.(247-249)CTG>CCG	p.L83P	KLK4_uc002pty.1_Missense_Mutation_p.L34P|KLK4_uc002ptz.1_RNA|KLK4_uc002pub.1_5'UTR|KLK4_uc002puc.1_RNA|KLK4_uc010eoi.1_5'UTR|KLK4_uc002pud.1_5'UTR	NM_004917	NP_004908	Q9Y5K2	KLK4_HUMAN	kallikrein-related peptidase 4 preproprotein	83	Peptidase S1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00624)|GBM - Glioblastoma multiforme(134;0.00878)		AAGACTGTGCAGGCCCAGCCC	0.502													12	68					0	0	1	0	0		G	51412062	G	G	51412062	3	3	84	1	0	0	0	0	1	0	0	0	8422	188	7	3	528	3	KLK4	19	51412062	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	241245	51412062	7716921	1355	53198											
KLK13	26085	broad.mit.edu	37	chr19	51561889	51561889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgacactcctcatctgagCgaagttggatgttggcacat	10	10	11	10	2	2	1	1	1	1	0	3	5	3	2	1	2	1	3	1	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:51561889C>T	uc002pvn.2	-	4	594	c.551G>A	c.(550-552)CGC>CAC	p.R184H	KLK13_uc002pvl.2_RNA|KLK13_uc002pvm.2_RNA|KLK13_uc002pvo.2_RNA|KLK13_uc002pvp.2_RNA|KLK13_uc010eon.2_Missense_Mutation_p.R111H|KLK13_uc002pvq.2_RNA|KLK13_uc010eoo.2_Missense_Mutation_p.R32H	NM_015596	NP_056411	Q9UKR3	KLK13_HUMAN	kallikrein 13 precursor	184	Peptidase S1.				proteolysis		protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00432)		CTCATCTGAGCGAAGTTGGAT	0.488													53	165					0	0	1	0	0		T	51561889	T	T	51561889	3	4	84	1	0	0	0	0	1	0	0	0	8417	768	27	1	290	1	KLK13	19	51561889	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	149827	51561889	7567094	1356	53199											
HAS1	3036	broad.mit.edu	37	chr19	52216727	52216727	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgccgccggcaaagcctccGcacgcccacccagtacagcg	8	2	10	21	6	0	0	0	0	0	0	1	0	1	0	7	1	3	3	7	1	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:52216727G>A	uc002pxo.1	-	5	1725	c.1690C>T	c.(1690-1692)CGG>TGG	p.R564W	HAS1_uc010epc.1_Missense_Mutation_p.R164W|HAS1_uc010epd.1_3'UTR|HAS1_uc002pxn.1_Missense_Mutation_p.R571W|HAS1_uc002pxp.1_Missense_Mutation_p.R563W	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1	564	Extracellular (Potential).				cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding			ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		CAAAGCCTCCGCACGCCCACC	0.721													5	27					0	0	1	0	0		A	52216727	A	A	52216727	3	1	84	1	0	0	0	0	1	0	0	0	6977	1086	38	1	50	1	HAS1	19	52216727	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	654838	52216727	6912256	1357	53200											
FPR1	2357	broad.mit.edu	37	chr19	52249490	52249490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacctgatatggggaccagCagagaaaaaaggctgctgcg	13	5	13	10	1	0	2	0	1	0	1	0	4	0	3	3	3	3	3	3	3	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:52249490C>T	uc002pxq.2	-	2	853	c.758G>A	c.(757-759)TGC>TAC	p.C253Y		NM_002029	NP_002020	P21462	FPR1_HUMAN	formyl peptide receptor 1	253	Helical; Name=6; (Potential).				activation of MAPK activity|cellular component movement|chemotaxis|G-protein signaling, coupled to cAMP nucleotide second messenger|nitric oxide mediated signal transduction	endosome|integral to membrane|plasma membrane	N-formyl peptide receptor activity			ovary(1)|lung(1)|skin(1)	3		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00106)|OV - Ovarian serous cystadenocarcinoma(262;0.018)	Nedocromil(DB00716)	TGGGGACCAGCAGAGAAAAAA	0.483													16	48					0	0	1	0	0		T	52249490	T	T	52249490	3	4	84	1	0	0	0	0	1	0	0	0	6052	710	25	2	298	2	FPR1	19	52249490	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	32763	52249490	6879493	1358	53201											
ZNF836	162962	broad.mit.edu	37	chr19	52660033	52660033	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacattcattacatttgtaCggtttctctccagtgtgact	8	16	6	11	1	2	1	1	1	1	0	4	1	3	1	2	1	2	2	2	1	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:52660033C>T	uc010ydi.1	-	5	1277	c.903G>A	c.(901-903)CCG>CCA	p.P301P	ZNF836_uc010ydj.1_Silent_p.P301P	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	301					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TACATTTGTACGGTTTCTCTC	0.388													15	37					0	0	1	0	0		T	52660033	T	T	52660033	2	4	84	1	0	0	0	0	0	0	0	1	18212	523	19	1		1	ZNF836	19	52660033	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	410543	52660033	6468950	1359	53202											
ZNF347	84671	broad.mit.edu	37	chr19	53645115	53645115	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcgactaaagaccttaccAcactcattacatttgtaacg	13	13	4	11	2	1	1	1	0	0	1	2	2	1	1	2	0	3	1	2	0	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:53645115A>T	uc002qbb.1	-	5	1035	c.966T>A	c.(964-966)TGT>TGA	p.C322*	ZNF347_uc010eql.1_Nonsense_Mutation_p.C323*|ZNF347_uc002qbc.1_Nonsense_Mutation_p.C323*	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	322	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		AGACCTTACCACACTCATTAC	0.393													6	111					0	0	1	0	0		T	53645115	T	T	53645115	4	4	84	1	0	0	0	0	0	1	0	0	17886	157	6	5	1557	5	ZNF347	19	53645115	Nonsense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	985082	53645115	5483868	1360	53203											
ZNF331	55422	broad.mit.edu	37	chr19	54081131	54081131	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagtggggcgaaatcctaCgaatgtaaggagtgcgggaa	13	6	15	7	3	0	0	0	0	0	0	1	4	1	2	1	4	2	1	1	4	5	2	rs144369706	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:54081131C>T	uc002qbx.1	+	7	2751	c.1317C>T	c.(1315-1317)TAC>TAT	p.Y439Y	ZNF331_uc002qby.1_Silent_p.Y439Y|ZNF331_uc002qbz.1_Silent_p.Y439Y|ZNF331_uc002qca.1_Silent_p.Y439Y|ZNF331_uc010eqr.1_Silent_p.Y439Y|ZNF331_uc002qcb.1_Silent_p.Y439Y|ZNF331_uc002qcc.1_Silent_p.Y439Y|ZNF331_uc002qcd.1_Silent_p.Y439Y	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	439	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		CGAAATCCTACGAATGTAAGG	0.473			T	?	follicular thyroid adenoma								17	49					0	0	1	0	0		T	54081131	T	T	54081131	2	4	84	1	0	0	0	0	0	0	0	1	17874	547	19	1		1	ZNF331	19	54081131	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	436016	54081131	5047852	1361	53204											
CACNG7	59284	broad.mit.edu	37	chr19	54418710	54418710	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacatcggccacatccgcccGcagaggaccattctggcttt	9	8	9	15	3	1	1	0	0	1	1	3	2	2	2	4	3	1	2	4	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:54418710G>A	uc002qcr.1	+	3	390	c.375G>A	c.(373-375)CCG>CCA	p.P125P	CACNG7_uc010era.1_Silent_p.P125P	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	125					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0711)		ACATCCGCCCGCAGAGGACCA	0.572													20	54					0	0	1	0	0		A	54418710	A	A	54418710	2	1	84	1	0	0	0	0	0	0	0	1	2565	1074	38	1		1	CACNG7	19	54418710	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	337579	54418710	4710273	1362	53205											
CACNG7	59284	broad.mit.edu	37	chr19	54444871	54444871	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttcctactcaaagaggTgacgtccgtgggacctagac	9	9	10	13	2	1	3	1	1	0	2	4	4	4	4	4	2	1	0	4	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:54444871T>C	uc002qcr.1	+	4	585	c.570_splice	c.e4+2	p.E190_splice	CACNG7_uc010era.1_Missense_Mutation_p.V191A	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7						regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0711)		CTCAAAGAGGTGACGTCCGTG	0.433													36	107					0	0	1	0	0		C	54444871	C	C	54444871	5	2	84	1	0	0	0	0	0	0	1	0	2565	1710	59	3	586	3	CACNG7	19	54444871	Splice_Site	SNP	T	TCGA-BR-8591-01A-11D-2394-08	26161	54444871	4684112	1363	53206											
LENG1	79165	broad.mit.edu	37	chr19	54660546	54660546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccttttcctttctgctgCgactgccttcatcaccgccg	3	14	6	18	3	3	0	2	0	1	0	5	1	5	0	6	0	3	1	6	0	0	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:54660546C>T	uc002qdm.2	-	3	543	c.530G>A	c.(529-531)CGC>CAC	p.R177H		NM_024316	NP_077292	Q96BZ8	LENG1_HUMAN	leukocyte receptor cluster (LRC) member 1	177										ovary(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CTTTCTGCTGCGACTGCCTTC	0.597													31	105					0	0	1	0	0		T	54660546	T	T	54660546	3	4	84	1	0	0	0	0	1	0	0	0	8739	768	27	1	272	1	LENG1	19	54660546	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	215675	54660546	4468437	1364	53207											
MBOAT7	79143	broad.mit.edu	37	chr19	54677813	54677813	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccggctggggctgcccccAcctaaagccagccccagccc	6	3	11	21	2	0	0	0	0	0	0	0	0	0	0	8	3	4	2	8	3	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:54677813A>G	uc002qdq.2	-	9	1610	c.1344T>C	c.(1342-1344)GGT>GGC	p.G448G	TMC4_uc010erf.2_5'Flank|TMC4_uc002qdo.2_5'Flank|MBOAT7_uc010erg.2_Silent_p.G132G|MBOAT7_uc010yem.1_Silent_p.G430G|MBOAT7_uc002qdr.2_Silent_p.G448G|MBOAT7_uc002qds.2_Silent_p.G375G|MBOAT7_uc010yen.1_Silent_p.G375G	NM_024298	NP_077274	Q96N66	MBOA7_HUMAN	membrane bound O-acyltransferase domain	448	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GGCTGCCCCCACCTAAAGCCA	0.662													12	48					0	0	1	0	0		G	54677813	G	G	54677813	2	3	84	1	0	0	0	0	0	0	0	1	9376	146	6	3		3	MBOAT7	19	54677813	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	17267	54677813	4451170	1365	53208											
LILRA6	79168	broad.mit.edu	37	chr19	54744364	54744364	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggaaagtgtcaaaataaccCcgtgactgacacagcagggt	15	6	11	9	1	1	2	1	2	0	0	1	3	1	3	2	2	2	1	2	2	4	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:54744364C>A	uc002qeu.1	-	6	1168	c.1044G>T	c.(1042-1044)CGG>CGT	p.R348R	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Silent_p.R348R|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Silent_p.R348R|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Intron|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Intron|LILRB3_uc002qer.1_Intron|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Silent_p.R348R|LILRA6_uc010yeq.1_Silent_p.R348R|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Silent_p.R209R	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	348	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CAAAATAACCCCGTGACTGAC	0.552													14	139					7.41877e-09	7.97747e-09	1	1	0		A	54744364	A	A	54744364	2	1	84	1	0	0	0	0	0	0	0	1	8805	610	22	5		5	LILRA6	19	54744364	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	66551	54744364	4384619	1366	53209											
TTYH1	57348	broad.mit.edu	37	chr19	54947281	54947281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctagcaggaatccaagcGctttgtgcagtggcagtcgt	8	10	12	11	2	0	0	0	0	0	0	3	1	2	1	2	2	3	4	2	2	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:54947281G>A	uc002qfq.2	+	13	1417	c.1325G>A	c.(1324-1326)CGC>CAC	p.R442H	TTYH1_uc010yey.1_3'UTR|TTYH1_uc002qfr.2_Missense_Mutation_p.A427T|TTYH1_uc002qft.2_Missense_Mutation_p.R443H	NM_020659	NP_065710	Q9H313	TTYH1_HUMAN	tweety 1 isoform 1	442	Cytoplasmic (Potential).				cell adhesion	chloride channel complex|plasma membrane	chloride channel activity|iron ion transmembrane transporter activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0767)		GAATCCAAGCGCTTTGTGCAG	0.547													53	230					0	0	1	0	0		A	54947281	A	A	54947281	3	1	84	1	0	0	0	0	1	0	0	0	16765	1087	38	1	1375	1	TTYH1	19	54947281	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	202917	54947281	4181702	1367	53210											
NLRP7	199713	broad.mit.edu	37	chr19	55451098	55451098	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacacaatccagcacaccgcGggggccgagcccagctggaa	11	2	12	16	3	0	0	0	0	0	0	1	2	1	1	4	3	3	2	4	3	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:55451098G>A	uc002qih.3	-	4	1165	c.1089C>T	c.(1087-1089)CCC>CCT	p.P363P	NLRP7_uc002qig.3_Silent_p.P363P|NLRP7_uc002qii.3_Silent_p.P363P|NLRP7_uc010esk.2_Silent_p.P363P|NLRP7_uc010esl.2_Silent_p.P391P	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	363	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		AGCACACCGCGGGGGCCGAGC	0.632													6	62					0	0	1	0	0		A	55451098	A	A	55451098	2	1	84	1	0	0	0	0	0	0	0	1	10501	1103	39	1		1	NLRP7	19	55451098	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	503817	55451098	3677885	1368	53211											
RDH13	112724	broad.mit.edu	37	chr19	55568112	55568112	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgattgagggtctccccGcggatgtcctttgctgccgc	3	12	14	12	3	1	2	0	2	1	0	3	3	2	3	4	3	2	1	4	3	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:55568112G>A	uc002qio.3	-	3	434	c.249C>T	c.(247-249)CGC>CGT	p.R83R	RDH13_uc002qip.2_Silent_p.R12R|RDH13_uc010yfq.1_RNA|RDH13_uc010esr.1_5'Flank	NM_001145971	NP_001139443	Q8NBN7	RDH13_HUMAN	retinol dehydrogenase 13 isoform 1	83							binding|oxidoreductase activity			large_intestine(1)|ovary(1)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(297;0.199)	GBM - Glioblastoma multiforme(193;0.0504)	Vitamin A(DB00162)	GGGTCTCCCCGCGGATGTCCT	0.413													16	41					0	0	1	0	0		A	55568112	A	A	55568112	2	1	84	1	0	0	0	0	0	0	0	1	13217	1074	38	1		1	RDH13	19	55568112	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	117014	55568112	3560871	1369	53212											
EPS8L1	54869	broad.mit.edu	37	chr19	55597445	55597445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggtcctggatgacagtcGtaagtggtggaaggttcggg	8	9	17	7	2	0	1	0	1	0	0	3	3	1	3	2	6	0	2	2	6	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:55597445G>A	uc002qis.3	+	16	1639	c.1535G>A	c.(1534-1536)CGT>CAT	p.R512H	EPS8L1_uc010ess.1_Missense_Mutation_p.R526H|EPS8L1_uc010yfr.1_Missense_Mutation_p.R448H|EPS8L1_uc002qiu.2_Missense_Mutation_p.R385H|EPS8L1_uc002qiv.2_Missense_Mutation_p.R190H|EPS8L1_uc002qiw.2_Missense_Mutation_p.R291H	NM_133180	NP_573441	Q8TE68	ES8L1_HUMAN	epidermal growth factor receptor pathway	512	SH3.					cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		GATGACAGTCGTAAGTGGTGG	0.612													28	82					0	0	1	0	0		A	55597445	A	A	55597445	3	1	84	1	0	0	0	0	1	0	0	0	5203	1145	40	1	1645	1	EPS8L1	19	55597445	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	29333	55597445	3531538	1370	53213											
NLRP9	338321	broad.mit.edu	37	chr19	56223313	56223313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtcgtcgcagcaggcaCgggtgatcggacacgtttgc	7	8	15	11	6	0	1	0	1	0	0	3	3	0	2	0	3	2	4	0	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:56223313C>T	uc002qly.2	-	8	2724	c.2696G>A	c.(2695-2697)CGT>CAT	p.R899H		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	899	LRR 6.					cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		GCAGCAGGCACGGGTGATCGG	0.552													18	56					0	0	1	0	0		T	56223313	T	T	56223313	3	4	84	1	0	0	0	0	1	0	0	0	10503	536	19	1	287	1	NLRP9	19	56223313	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	625868	56223313	2905670	1371	53214											
NLRP11	204801	broad.mit.edu	37	chr19	56321601	56321601	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatgtagaacacatctgaCgaaacgtcacgaaaaaattt	18	9	7	7	3	2	2	1	1	1	1	2	4	2	2	0	0	2	2	0	0	7	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:56321601C>T	uc010ygf.1	-	5	1086	c.375G>A	c.(373-375)TCG>TCA	p.S125S	NLRP11_uc002qlz.2_Silent_p.S26S|NLRP11_uc002qmb.2_Silent_p.S26S|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	125							ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		ACACATCTGACGAAACGTCAC	0.383													5	26					0	0	1	0	0		T	56321601	T	T	56321601	2	4	84	1	0	0	0	0	0	0	0	1	10492	523	19	1		1	NLRP11	19	56321601	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	98288	56321601	2807382	1372	53215											
ZSCAN5A	79149	broad.mit.edu	37	chr19	56733224	56733224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctctcgccagtgtgggttCgctggtgaaattggaggcta	6	11	15	9	2	1	1	0	1	1	0	3	2	1	2	2	4	0	3	2	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:56733224C>T	uc002qmq.2	-	5	1377	c.1211G>A	c.(1210-1212)CGA>CAA	p.R404Q	ZSCAN5A_uc010ygi.1_Missense_Mutation_p.R287Q|ZSCAN5A_uc002qmr.2_Missense_Mutation_p.R404Q|ZSCAN5A_uc002qms.1_Missense_Mutation_p.R403Q	NM_024303	NP_077279	Q9BUG6	ZSA5A_HUMAN	zinc finger and SCAN domain containing 5A	404	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						AGTGTGGGTTCGCTGGTGAAA	0.517													8	38					0	0	1	0	0		T	56733224	T	T	56733224	3	4	84	1	0	0	0	0	1	0	0	0	18263	884	31	1	283	1	ZSCAN5A	19	56733224	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	411623	56733224	2395759	1373	53216											
ZNF835	90485	broad.mit.edu	37	chr19	57176222	57176222	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtagctgaaggccttcccGcagtccccgcatttccacgg	7	8	10	16	3	0	1	0	1	0	0	3	1	3	1	5	2	1	4	5	2	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:57176222G>A	uc010ygo.1	-	2	411	c.411C>T	c.(409-411)TGC>TGT	p.C137C	ZNF835_uc010ygn.1_Silent_p.C115C	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						AGGCCTTCCCGCAGTCCCCGC	0.642													25	76					0	0	1	0	0		A	57176222	A	A	57176222	2	1	84	1	0	0	0	0	0	0	0	1	18211	1079	38	1		1	ZNF835	19	57176222	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	442998	57176222	1952761	1374	53217											
ZNF587	84914	broad.mit.edu	37	chr19	58367565	58367565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggtgcttgtaccgtgatGtgatgctagagaacctggct	9	11	14	7	1	0	4	0	2	0	2	0	5	0	4	2	2	4	4	2	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:58367565G>A	uc002qql.2	+	2	265	c.127G>A	c.(127-129)GTG>ATG	p.V43M	ZNF587_uc002qqb.2_Translation_Start_Site|ZNF587_uc010yhh.1_Translation_Start_Site|ZNF587_uc002qqi.1_Translation_Start_Site|ZNF587_uc002qqj.1_RNA|ZNF814_uc002qqk.2_Intron|ZNF587_uc010yhk.1_Missense_Mutation_p.V42M	NM_032828	NP_116217	Q96SQ5	ZN587_HUMAN	zinc finger protein 587	43	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)		GTACCGTGATGTGATGCTAGA	0.493													39	93					0	0	1	0	0		A	58367565	A	A	58367565	3	1	84	1	0	0	0	0	1	0	0	0	18045	1377	48	4	133	4	ZNF587	19	58367565	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1191343	58367565	761418	1375	53218											
ZNF814	730051	broad.mit.edu	37	chr19	58384974	58384974	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccagtatgaacgcgcTgatggctcctaaggtgcccg	7	10	11	13	3	1	2	0	2	1	0	4	2	3	2	3	2	2	3	3	2	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:58384974T>C	uc002qqo.2	-	3	2056	c.1784A>G	c.(1783-1785)CAG>CGG	p.Q595R	ZNF814_uc002qqk.2_Intron|ZNF814_uc010yhl.1_Intron	NM_001144989	NP_001138461	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	595	C2H2-type 14.				regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						ATGAACGCGCTGATGGCTCCT	0.478													4	53					0	0	1	0	0		C	58384974	C	C	58384974	3	2	84	1	0	0	0	0	1	0	0	0	18201	1580	55	3	787	3	ZNF814	19	58384974	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	17409	58384974	744009	1376	53219											
ZNF418	147686	broad.mit.edu	37	chr19	58438212	58438212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctttctccagtgtggcttCgctgatgctgaatgaggttg	5	14	13	9	1	1	3	0	3	1	0	3	3	1	3	2	2	1	4	2	2	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:58438212C>T	uc002qqs.1	-	4	1629	c.1337G>A	c.(1336-1338)CGA>CAA	p.R446Q	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Missense_Mutation_p.R361Q	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	446	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0158)		AGTGTGGCTTCGCTGATGCTG	0.473													56	114					0	0	1	0	0		T	58438212	T	T	58438212	3	4	84	1	0	0	0	0	1	0	0	0	17920	884	31	1	697	1	ZNF418	19	58438212	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	53238	58438212	690771	1377	53220											
ZNF256	10172	broad.mit.edu	37	chr19	58453320	58453320	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactccagtgtgaattcttcGgtgcgtaataaggctagagc	10	12	11	8	2	1	2	0	1	1	1	3	2	2	2	1	2	3	2	1	2	5	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:58453320G>A	uc002qqu.2	-	3	1091	c.856C>T	c.(856-858)CGA>TGA	p.R286*	ZNF256_uc010euj.2_Nonsense_Mutation_p.R133*	NM_005773	NP_005764	Q9Y2P7	ZN256_HUMAN	zinc finger protein 256	286	C2H2-type 3.				multicellular organismal development|negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0155)		TGAATTCTTCGGTGCGTAATA	0.393													32	95					0	0	1	0	0		A	58453320	A	A	58453320	4	1	84	1	0	0	0	0	0	1	0	0	17824	1124	39	1	1031	1	ZNF256	19	58453320	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	15108	58453320	675663	1378	53221											
ZNF274	10782	broad.mit.edu	37	chr19	58718166	58718166	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaacattgaggttgttgaGgtcctcacactgaaccagga	12	10	11	8	0	1	4	1	4	0	0	2	5	2	5	2	3	2	2	2	3	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:58718166G>T	uc002qrq.1	+	5	795	c.336G>T	c.(334-336)GAG>GAT	p.E112D	ZNF274_uc010yhu.1_RNA|ZNF274_uc010yhv.1_RNA|ZNF274_uc002qrr.1_Missense_Mutation_p.E80D|ZNF274_uc002qrs.1_Missense_Mutation_p.E7D|ZNF274_uc010eum.1_Translation_Start_Site	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	112					viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		AGGTTGTTGAGGTCCTCACAC	0.537													8	19					5.18039e-06	5.41997e-06	1	1	0		T	58718166	T	T	58718166	3	4	84	1	0	0	0	0	1	0	0	0	17834	991	35	5	350	5	ZNF274	19	58718166	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	264846	58718166	410817	1379	53222											
ZNF8	7554	broad.mit.edu	37	chr19	58805539	58805539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggagccatcccatgtcaCgggaagggaaggattcccga	12	5	14	10	2	1	1	1	0	0	1	3	6	3	5	3	4	1	0	3	4	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr19:58805539C>T	uc002qry.1	+	4	495	c.365C>T	c.(364-366)ACG>ATG	p.T122M	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	122					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		TCCCATGTCACGGGAAGGGAA	0.542													22	45					0	0	1	0	0		T	58805539	T	T	58805539	3	4	84	1	0	0	0	0	1	0	0	0	18192	536	19	1	379	1	ZNF8	19	58805539	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	87373	58805539	323444	1380	53223											
PANK2	80025	broad.mit.edu	37	chr20	3891416	3891416	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttctggtgaacattggcTcaggggttagcatcttagca	8	13	12	8	0	3	1	1	1	2	0	3	1	3	1	0	4	4	5	0	4	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:3891416T>G	uc002wkc.2	+	3	1180	c.1174T>G	c.(1174-1176)TCA>GCA	p.S392A	PANK2_uc002wkb.2_Missense_Mutation_p.S101A|PANK2_uc010gbd.1_RNA|PANK2_uc002wkd.2_RNA|PANK2_uc002wke.2_Missense_Mutation_p.S101A|PANK2_uc002wkf.2_5'UTR	NM_153638	NP_705902	Q9BZ23	PANK2_HUMAN	pantothenate kinase 2 isoform 1 preproprotein	392					cell death|coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial intermembrane space|nucleus	ATP binding|pantothenate kinase activity|protein binding				0						GAACATTGGCTCAGGGGTTAG	0.368													22	85					0	0	1	0	0		G	3891416	G	G	3891416	3	3	84	1	0	0	0	0	1	0	0	0	11436	1551	54	5	1184	5	PANK2	20	3891416	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08		3891416	59134104	1381	53224											
SLC23A2	9962	broad.mit.edu	37	chr20	4913236	4913236	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacgagtagtttacacagccGttggggagagcagctggaag	12	7	15	7	2	0	1	0	0	0	1	0	4	0	2	1	3	5	5	1	3	4	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:4913236G>A	uc002wlg.1	-	3	348	c.-27C>T	c.(-29--25)AACGG>AATGG		SLC23A2_uc010zqr.1_Translation_Start_Site|SLC23A2_uc002wlh.1_Translation_Start_Site|SLC23A2_uc002wli.2_Translation_Start_Site|SLC23A2_uc002wlj.1_RNA	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase						L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						TTACACAGCCGTTGGGGAGAG	0.488													18	29					0	0	1	0	0		A	4913236	A	A	4913236	1	1	84	1	0	0	0	0	0	0	0	0	14488	1160	40	1		1	SLC23A2	20	4913236	Translation_Start_Site	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1021820	4913236	58112284	1382	53225											
JAG1	182	broad.mit.edu	37	chr20	10620514	10620514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtggctgcccggcttccGccgcttccgcaggcaccagt	3	9	13	16	4	0	0	0	0	0	0	2	0	2	0	5	3	1	5	5	3	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:10620514G>A	uc002wnw.2	-	26	3805	c.3289C>T	c.(3289-3291)CGG>TGG	p.R1097W		NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	1097	Cytoplasmic (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						CCCGGCTTCCGCCGCTTCCGC	0.552									Alagille_Syndrome				10	49					0	0	1	0	0		A	10620514	A	A	10620514	3	1	84	1	0	0	0	0	1	0	0	0	7950	1086	38	1	371	1	JAG1	20	10620514	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	5707278	10620514	52405006	1383	53226											
SPTLC3	55304	broad.mit.edu	37	chr20	13074181	13074181	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacacatcgcttgtgcttggGgcccgactctcaggtgcaac	7	9	11	14	2	1	0	1	0	1	0	3	1	1	0	1	3	3	3	1	3	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:13074181G>A	uc002wod.1	+	6	1072	c.783G>A	c.(781-783)GGG>GGA	p.G261G		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	261					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	TTGTGCTTGGGGCCCGACTCT	0.413													8	58					0	0	1	0	0		A	13074181	A	A	13074181	2	1	84	1	0	0	0	0	0	0	0	1	15150	1219	43	4		4	SPTLC3	20	13074181	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2453667	13074181	49951339	1384	53227											
ISM1	140862	broad.mit.edu	37	chr20	13279946	13279946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagcaccgagttctccgCggagctccactacaaggtgg	9	7	11	14	3	2	0	1	0	1	0	4	2	3	1	3	3	3	3	3	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:13279946C>T	uc010gce.1	+	6	1241	c.1235C>T	c.(1234-1236)GCG>GTG	p.A412V	TASP1_uc010zri.1_Intron	NM_080826	NP_543016	B1AKI9	ISM1_HUMAN	isthmin 1 homolog precursor	412	AMOP.					extracellular region					0						GAGTTCTCCGCGGAGCTCCAC	0.627													18	32					0	0	1	0	0		T	13279946	T	T	13279946	3	4	84	1	0	0	0	0	1	0	0	0	7876	768	27	1	1257	1	ISM1	20	13279946	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	205765	13279946	49745574	1385	53228											
ESF1	51575	broad.mit.edu	37	chr20	13752052	13752052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaattttactagctgtttccGgagaatcacagtctactact	12	14	6	9	1	2	1	1	0	1	1	3	2	3	1	1	1	4	2	1	1	6	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:13752052G>A	uc002woj.2	-	6	1436	c.1328C>T	c.(1327-1329)CCG>CTG	p.P443L	ESF1_uc002wok.1_Missense_Mutation_p.P443L	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	443					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						AGCTGTTTCCGGAGAATCACA	0.338													31	89					0	0	1	0	0		A	13752052	A	A	13752052	3	1	84	1	0	0	0	0	1	0	0	0	5259	1116	39	1	1263	1	ESF1	20	13752052	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	472106	13752052	49273468	1386	53229											
KIF16B	55614	broad.mit.edu	37	chr20	16493497	16493497	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagttcgaaaagaagcttcAtcccatctggtggtttcatt	10	14	8	9	1	4	1	3	0	1	1	6	2	5	1	1	2	1	3	1	2	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:16493497A>G	uc002wpg.1	-	5	578	c.420T>C	c.(418-420)GAT>GAC	p.D140D	KIF16B_uc010gch.1_Silent_p.D140D|KIF16B_uc010gci.1_Silent_p.D140D|KIF16B_uc010gcj.1_Silent_p.D140D	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	140	Kinesin-motor.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						AAGAAGCTTCATCCCATCTGG	0.488													7	43					0	0	1	0	0		G	16493497	G	G	16493497	2	3	84	1	0	0	0	0	0	0	0	1	8294	214	8	3		3	KIF16B	20	16493497	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2741445	16493497	46532023	1387	53230											
BFSP1	631	broad.mit.edu	37	chr20	17479498	17479498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgatgatacgatgatacCggtccagctcattcttcagg	9	12	9	11	3	4	2	2	2	2	0	6	4	5	2	2	2	3	1	2	2	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:17479498C>T	uc002wpo.2	-	6	962	c.923G>A	c.(922-924)CGG>CAG	p.R308Q	BFSP1_uc002wpp.2_Missense_Mutation_p.R183Q|BFSP1_uc010zrn.1_Missense_Mutation_p.R169Q|BFSP1_uc010zro.1_Missense_Mutation_p.R169Q	NM_001195	NP_001186	Q12934	BFSP1_HUMAN	filensin isoform 1	308	Rod.|Coil 2.					cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens			central_nervous_system(1)	1						ACGATGATACCGGTCCAGCTC	0.473													13	35					0	0	1	0	0		T	17479498	T	T	17479498	3	4	84	1	0	0	0	0	1	0	0	0	1416	652	23	1	1086	1	BFSP1	20	17479498	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	986001	17479498	45546022	1388	53231											
NINL	22981	broad.mit.edu	37	chr20	25434176	25434176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcggctttgtttctcggCgcctcgctgcttctcctcgg	1	13	13	14	5	2	0	0	0	2	0	6	1	2	0	2	4	1	4	2	4	0	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:25434176C>T	uc002wux.1	-	24	4134	c.4060G>A	c.(4060-4062)GCC>ACC	p.A1354T	NINL_uc010gdn.1_Missense_Mutation_p.A1005T|NINL_uc002wuw.1_Missense_Mutation_p.A145T	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1354	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						TGTTTCTCGGCGCCTCGCTGC	0.547													7	102					0	0	1	0	0		T	25434176	T	T	25434176	3	4	84	1	0	0	0	0	1	0	0	0	10439	768	27	1	92	1	NINL	20	25434176	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	7954678	25434176	37591344	1389	53232											
PLAGL2	5326	broad.mit.edu	37	chr20	30784819	30784819	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaccagggagtgtggcacGcccgtgctgggcatggtagg	6	7	18	10	2	0	0	0	0	0	0	0	1	0	1	2	5	2	5	2	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:30784819G>A	uc002wxn.2	-	3	1144	c.927C>T	c.(925-927)GGC>GGT	p.G309G		NM_002657	NP_002648	Q9UPG8	PLAL2_HUMAN	pleiomorphic adenoma gene-like 2	309						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			AGTGTGGCACGCCCGTGCTGG	0.597													44	131					0	0	1	0	0		A	30784819	A	A	30784819	2	1	84	1	0	0	0	0	0	0	0	1	12039	1074	38	1		1	PLAGL2	20	30784819	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	5350643	30784819	32240701	1390	53233											
FAM83C	128876	broad.mit.edu	37	chr20	33876762	33876762	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcaccacagccaccacCtgggtggggggaggcacacg	9	4	13	15	1	1	0	1	0	0	0	2	1	2	1	5	5	1	1	5	5	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:33876762C>A	uc010zux.1	-	2	632	c.514_splice	c.e2-1	p.V172_splice	FAM83C_uc002xcb.1_Splice_Site	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876											ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			CAGCCACCACCTGGGTGGGGG	0.612													29	83					9.80776e-20	1.10227e-19	1	1	0		A	33876762	A	A	33876762	5	1	84	1	0	0	0	0	0	0	1	0	5649	695	24	5	1742	5	FAM83C	20	33876762	Splice_Site	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3091943	33876762	29148758	1391	53234											
GDF5	8200	broad.mit.edu	37	chr20	34022054	34022054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgggtcgcttgccctggcGagtggccagtggggcccgcc	2	7	18	14	3	0	0	0	0	0	0	1	1	0	0	4	5	1	2	4	5	0	1	rs139413270		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:34022054G>A	uc002xck.1	-	2	1478	c.1159C>T	c.(1159-1161)CGC>TGC	p.R387C	GDF5_uc010gfc.1_Missense_Mutation_p.R387C|uc002xcj.2_Silent_p.A155A|GDF5_uc010zvc.1_Missense_Mutation_p.R387C	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	387					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			TTGCCCTGGCGAGTGGCCAGT	0.582													62	146					0	0	1	0	0		A	34022054	A	A	34022054	3	1	84	1	0	0	0	0	1	0	0	0	6331	1058	37	1	350	1	GDF5	20	34022054	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	145292	34022054	29003466	1392	53235											
CEP250	11190	broad.mit.edu	37	chr20	34078523	34078524	+	Frame_Shift_Ins	INS	-	A	A																															tctggagagcttagaaagggINSaaaaaatggagctggaaatg																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:34078523_34078524insA	uc002xcm.2	+	22	3318_3319	c.2647_2648insA	c.(2647-2649)GAAfs	p.E883fs	CEP250_uc010zve.1_Frame_Shift_Ins_p.E251fs	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	883	Gln/Glu-rich.|Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			CTTAGAAAGGGAAAAAATGGAG	0.525													23	44	---	---	---	---						.	A	34078524	A	A	34078523	7	5	84	1	0	1	1	0	0	0	0	0	3255	1175	41	0	2717	0	CEP250	20	34078523	Frame_Shift_Ins	INS	-	TCGA-BR-8591-01A-11D-2394-08	56469	34078523	28946997	1393	53236											
CEP250	11190	broad.mit.edu	37	chr20	34091729	34091729	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaggcagacgccctccaGggagctctggagcaagccca	12	3	13	13	1	1	1	0	0	1	1	2	4	2	3	3	3	3	3	3	3	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:34091729G>T	uc002xcm.2	+	31	6203	c.5532G>T	c.(5530-5532)CAG>CAT	p.Q1844H	CEP250_uc010zve.1_Missense_Mutation_p.Q1212H	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	1844	Gln/Glu-rich.|Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			ACGCCCTCCAGGGAGCTCTGG	0.607													5	34					0.014758	0.0149294	1	1	0		T	34091729	T	T	34091729	3	4	84	1	0	0	0	0	1	0	0	0	3255	991	35	5	5638	5	CEP250	20	34091729	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	13206	34091729	28933791	1394	53237											
CPNE1	8904	broad.mit.edu	37	chr20	34218375	34218375	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttacctgcacagtaggggTtactggggttgaaattcaag	11	11	12	7	0	1	1	1	1	0	0	1	1	1	1	1	4	3	4	1	4	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:34218375T>C	uc002xdf.2	-	15	1451	c.1088A>G	c.(1087-1089)AAC>AGC	p.N363S	CPNE1_uc002xdc.2_Missense_Mutation_p.N25S|CPNE1_uc010zvj.1_Missense_Mutation_p.N368S|CPNE1_uc002xde.2_Missense_Mutation_p.N339S|CPNE1_uc002xdg.2_Missense_Mutation_p.N363S|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Missense_Mutation_p.N363S|CPNE1_uc002xdi.2_Missense_Mutation_p.N363S|CPNE1_uc002xdj.2_Missense_Mutation_p.N363S|CPNE1_uc002xdk.2_Missense_Mutation_p.N363S|CPNE1_uc002xdl.2_Missense_Mutation_p.N363S|CPNE1_uc002xdm.2_Missense_Mutation_p.N363S	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	363	VWFA.				lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			ACAGTAGGGGTTACTGGGGTT	0.493													9	143					0	0	1	0	0		C	34218375	C	C	34218375	3	2	84	1	0	0	0	0	1	0	0	0	3814	1725	60	3	541	3	CPNE1	20	34218375	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	126646	34218375	28807145	1395	53238											
DLGAP4	22839	broad.mit.edu	37	chr20	35064647	35064647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatgggcgacgaggacagcGacgagtccggcggcagcccc	8	2	16	15	6	0	0	0	0	0	0	1	5	1	1	4	4	2	1	4	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:35064647G>A	uc002xff.2	+	4	1570	c.1135G>A	c.(1135-1137)GAC>AAC	p.D379N	DLGAP4_uc010zvp.1_Missense_Mutation_p.D379N	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	379					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				CGAGGACAGCGACGAGTCCGG	0.716													7	19					0	0	1	0	0		A	35064647	A	A	35064647	3	1	84	1	0	0	0	0	1	0	0	0	4568	1058	37	1	1141	1	DLGAP4	20	35064647	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	846272	35064647	27960873	1396	53239											
VSTM2L	128434	broad.mit.edu	37	chr20	36560064	36560064	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagagacaccccatgacaTgacagcacggacgggcgagg	13	2	13	13	3	0	3	0	2	0	1	0	6	0	4	2	3	1	1	2	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:36560064T>C	uc002xhk.3	+	2	403	c.149T>C	c.(148-150)ATG>ACG	p.M50T		NM_080607	NP_542174	Q96N03	VTM2L_HUMAN	V-set and transmembrane domain containing 2 like	50	Ig-like.									ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.00878)				CCCCATGACATGACAGCACGG	0.622													71	196					0	0	1	0	0		C	36560064	C	C	36560064	3	2	84	1	0	0	0	0	1	0	0	0	17256	1464	51	3	155	3	VSTM2L	20	36560064	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	1495417	36560064	26465456	1397	53240											
KIAA0406	9675	broad.mit.edu	37	chr20	36631163	36631163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattctcatccactttgggaGggactgactgttcctctgga	7	13	10	11	0	2	1	1	1	2	0	5	4	4	4	2	3	0	1	2	3	0	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:36631163G>A	uc002xhl.2	-	5	2728	c.2519C>T	c.(2518-2520)CCT>CTT	p.P840L	KIAA0406_uc002xhm.2_Missense_Mutation_p.P840L	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	840							binding				0		Myeloproliferative disorder(115;0.00874)				CACTTTGGGAGGGACTGACTG	0.413													25	75					0	0	1	0	0		A	36631163	A	A	36631163	3	1	84	1	0	0	0	0	1	0	0	0	8189	1000	35	4	770	4	KIAA0406	20	36631163	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	71099	36631163	26394357	1398	53241											
SLC32A1	140679	broad.mit.edu	37	chr20	37356449	37356449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctggtccattatcgccacgGccgtgctgctgccttgcgcc	3	10	11	17	4	0	0	0	0	0	0	2	0	1	0	6	2	4	2	6	2	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:37356449G>A	uc002xjc.2	+	2	1008	c.745G>A	c.(745-747)GCC>ACC	p.A249T		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	249	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	TATCGCCACGGCCGTGCTGCT	0.572													14	38					0	0	1	0	0		A	37356449	A	A	37356449	3	1	84	1	0	0	0	0	1	0	0	0	14590	1203	42	2	751	2	SLC32A1	20	37356449	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	725286	37356449	25669071	1399	53242											
PLCG1	5335	broad.mit.edu	37	chr20	39794342	39794342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggaagctaggggcagggCgtgacgggcgtcacatcgct	8	6	18	9	4	1	1	1	1	0	0	2	2	1	2	0	5	1	3	0	5	2	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:39794342C>T	uc002xjp.1	+	16	1796	c.1675C>T	c.(1675-1677)CGT>TGT	p.R559C	PLCG1_uc002xjo.1_Missense_Mutation_p.R559C|PLCG1_uc010zwe.1_Missense_Mutation_p.R185C|PLCG1_uc010ggf.2_5'Flank	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	559	SH2 1.				activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				AGGGGCAGGGCGTGACGGGCG	0.597													15	72					0	0	1	0	0		T	39794342	T	T	39794342	3	4	84	1	0	0	0	0	1	0	0	0	12054	768	27	1	1737	1	PLCG1	20	39794342	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2437893	39794342	23231178	1400	53243											
CHD6	84181	broad.mit.edu	37	chr20	40113207	40113207	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatcatctttcagccgcCgaagcatcattggttttagg	9	12	8	12	2	4	0	3	0	1	0	4	1	4	0	3	2	2	2	3	2	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:40113207C>A	uc002xka.1	-	15	2220	c.2042G>T	c.(2041-2043)CGG>CTG	p.R681L	CHD6_uc002xkd.2_Missense_Mutation_p.R659L	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	681					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TTTCAGCCGCCGAAGCATCAT	0.453													27	96					4.87955e-14	5.37646e-14	1	1	0		A	40113207	A	A	40113207	3	1	84	1	0	0	0	0	1	0	0	0	3332	652	23	5	6197	5	CHD6	20	40113207	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	318865	40113207	22912313	1401	53244											
SLC12A5	57468	broad.mit.edu	37	chr20	44683557	44683557	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctctgtctgcccacagcaTgagagcgacatctcagctta	10	9	8	14	1	3	1	1	1	3	1	4	3	3	1	2	0	4	2	2	0	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:44683557T>C	uc010zxl.1	+	21	2827	c.2751T>C	c.(2749-2751)CAT>CAC	p.H917H	SLC12A5_uc002xrb.2_Silent_p.H894H	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	917	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	GCCCACAGCATGAGAGCGACA	0.547													12	29					0	0	1	0	0		C	44683557	C	C	44683557	2	2	84	1	0	0	0	0	0	0	0	1	14411	1461	51	3		3	SLC12A5	20	44683557	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	4570350	44683557	18341963	1402	53245											
SLC35C2	51006	broad.mit.edu	37	chr20	44985238	44985238	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggtgacatacaggaagcTccagttggacaagcccacgt	12	6	12	11	2	0	1	0	1	0	0	1	4	1	3	2	3	3	2	2	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:44985238T>A	uc002xro.2	-	4	851	c.310A>T	c.(310-312)AGC>TGC	p.S104C	SLC35C2_uc002xrp.2_Missense_Mutation_p.S104C|SLC35C2_uc002xrq.2_Missense_Mutation_p.S104C|SLC35C2_uc002xrr.2_Missense_Mutation_p.S104C|SLC35C2_uc010zxn.1_5'UTR|SLC35C2_uc010zxo.1_5'UTR|SLC35C2_uc010zxp.1_Missense_Mutation_p.S133C	NM_173179	NP_775271	Q9NQQ7	S35C2_HUMAN	solute carrier family 35, member C2 isoform a	104	Helical; (Potential).				transport	integral to membrane				ovary(1)	1		Myeloproliferative disorder(115;0.0122)				TACAGGAAGCTCCAGTTGGAC	0.607													14	29					0	0	1	0	0		A	44985238	A	A	44985238	3	1	84	1	0	0	0	0	1	0	0	0	14605	1551	54	5	815	5	SLC35C2	20	44985238	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	301681	44985238	18040282	1403	53246											
EYA2	2139	broad.mit.edu	37	chr20	45771717	45771717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacaccacgacgtccgtgcGcattggccttatgatggaag	9	8	13	11	4	0	1	0	1	0	0	1	4	1	3	3	3	1	1	3	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:45771717G>A	uc002xsm.2	+	10	1282	c.908G>A	c.(907-909)CGC>CAC	p.R303H	EYA2_uc010ghp.2_Missense_Mutation_p.R303H|EYA2_uc002xsn.2_Missense_Mutation_p.R308H|EYA2_uc002xso.2_Missense_Mutation_p.R303H|EYA2_uc002xsp.2_Missense_Mutation_p.R303H|EYA2_uc002xsq.2_Intron	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a	303					DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)				ACGTCCGTGCGCATTGGCCTT	0.483													14	63					0	0	1	0	0		A	45771717	A	A	45771717	3	1	84	1	0	0	0	0	1	0	0	0	5337	1087	38	1	942	1	EYA2	20	45771717	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	786479	45771717	17253803	1404	53247											
MOCS3	27304	broad.mit.edu	37	chr20	49576097	49576097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagacagtgaccaactgcGcggacggcggggtgctcggt	7	5	18	11	6	0	2	0	1	0	1	1	4	0	3	1	6	3	1	1	6	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:49576097G>A	uc002xvy.1	+	1	735	c.718G>A	c.(718-720)GCG>ACG	p.A240T	DPM1_uc002xvw.1_5'Flank|DPM1_uc002xvx.1_5'Flank	NM_014484	NP_055299	O95396	MOCS3_HUMAN	molybdenum cofactor synthesis 3	240					enzyme active site formation via L-cysteine persulfide|Mo-molybdopterin cofactor biosynthetic process|tRNA thio-modification|tRNA wobble uridine modification|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|nucleotidyltransferase activity|protein binding|thiosulfate sulfurtransferase activity|URM1 activating enzyme activity			skin(2)|ovary(1)	3						GACCAACTGCGCGGACGGCGG	0.627													35	105					0	0	1	0	0		A	49576097	A	A	49576097	3	1	84	1	0	0	0	0	1	0	0	0	9710	1087	38	1	720	1	MOCS3	20	49576097	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3804380	49576097	13449423	1405	53248											
NFATC2	4773	broad.mit.edu	37	chr20	50159027	50159027	+	Frame_Shift_Del	DEL	G	-	-																															tcgggttggggctgccgctcGggggcgttcatggcgcgcag																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:50159027delG	uc002xwd.2	-	1	232	c.12delC	c.(10-12)CCCfs	p.P4fs	NFATC2_uc002xwc.2_Frame_Shift_Del_p.P4fs|NFATC2_uc010zyv.1_5'UTR|NFATC2_uc010zyw.1_5'UTR|NFATC2_uc010zyx.1_Intron|NFATC2_uc010zyy.1_Intron|NFATC2_uc010zyz.1_Intron|NFATC2_uc002xwe.2_Intron	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	4					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					GCTGCCGCTCGGGGGCGTTCA	0.612													10	13	---	---	---	---						.	-	50159027	-	-	50159027	7	5	84	1	0	1	0	1	0	0	0	0	10381	1103	39	0	2853	0	NFATC2	20	50159027	Frame_Shift_Del	DEL	G	TCGA-BR-8591-01A-11D-2394-08	582930	50159027	12866493	1406	53249											
ATP9A	10079	broad.mit.edu	37	chr20	50221453	50221453	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccaggtctggatggtcagCgccaccatgagcagctcggt	7	8	14	12	2	2	1	1	1	1	0	3	2	2	2	3	4	4	2	3	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:50221453C>T	uc002xwg.1	-	27	2910	c.2910G>A	c.(2908-2910)GCG>GCA	p.A970A	ATP9A_uc010gih.1_Silent_p.A834A|ATP9A_uc002xwf.1_Silent_p.A142A	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	970	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						GGATGGTCAGCGCCACCATGA	0.597													9	32					0	0	1	0	0		T	50221453	T	T	50221453	2	4	84	1	0	0	0	0	0	0	0	1	1199	755	27	1		1	ATP9A	20	50221453	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	62426	50221453	12804067	1407	53250											
ATP9A	10079	broad.mit.edu	37	chr20	50235213	50235213	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcctacctactgcacaggTgagcttgcccgtgcgctcct	5	10	10	16	3	0	1	0	1	0	0	2	1	1	1	4	1	6	3	4	1	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:50235213T>C	uc002xwg.1	-	21	2338	c.2338A>G	c.(2338-2340)ACC>GCC	p.T780A	ATP9A_uc010gih.1_Missense_Mutation_p.T644A|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	780	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						ACTGCACAGGTGAGCTTGCCC	0.657													23	61					0	0	1	0	0		C	50235213	C	C	50235213	3	2	84	1	0	0	0	0	1	0	0	0	1199	1696	59	3	837	3	ATP9A	20	50235213	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	13760	50235213	12790307	1408	53251											
ATP9A	10079	broad.mit.edu	37	chr20	50273655	50273655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccggaccttagtggtgagcGttgggcccttctgagccggt	4	10	16	11	3	1	2	0	2	1	0	1	3	1	3	4	4	2	1	4	4	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:50273655G>A	uc002xwg.1	-	14	1328	c.1328C>T	c.(1327-1329)ACG>ATG	p.T443M	ATP9A_uc010gih.1_Missense_Mutation_p.T307M|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	443	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						AGTGGTGAGCGTTGGGCCCTT	0.577													5	62					0	0	1	0	0		A	50273655	A	A	50273655	3	1	84	1	0	0	0	0	1	0	0	0	1199	1145	40	1	1875	1	ATP9A	20	50273655	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	38442	50273655	12751865	1409	53252											
ATP9A	10079	broad.mit.edu	37	chr20	50346470	50346470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgccccagccagacagtgCggggcctggcctcccctcca	5	5	13	18	1	0	1	0	0	0	1	2	1	2	1	8	4	3	0	8	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:50346470C>T	uc002xwg.1	-	2	116	c.116G>A	c.(115-117)CGC>CAC	p.R39H	ATP9A_uc010gih.1_Missense_Mutation_p.R24H	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	39	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						CCAGACAGTGCGGGGCCTGGC	0.587													39	123					0	0	1	0	0		T	50346470	T	T	50346470	3	4	84	1	0	0	0	0	1	0	0	0	1199	768	27	1	3135	1	ATP9A	20	50346470	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	72815	50346470	12679050	1410	53253											
ZFP64	55734	broad.mit.edu	37	chr20	50701513	50701513	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcacgcgcagggcggcCgcgctggagcaggagtagct	6	5	18	12	5	0	0	0	0	0	0	0	2	0	2	1	4	3	6	1	4	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:50701513C>T	uc002xwk.2	-	9	1870	c.1521G>A	c.(1519-1521)GCG>GCA	p.A507A	ZFP64_uc002xwj.2_Silent_p.A288A	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GCAGGGCGGCCGCGCTGGAGC	0.672													30	95					0	0	1	0	0		T	50701513	T	T	50701513	2	4	84	1	0	0	0	0	0	0	0	1	17677	639	23	1		1	ZFP64	20	50701513	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	355043	50701513	12324007	1411	53254											
CYP24A1	1591	broad.mit.edu	37	chr20	52788146	52788146	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttgtccagcttcatcacTtcccctggtttcattagttt	5	19	6	11	0	3	0	3	0	0	0	5	0	5	0	3	1	1	4	3	1	1	7			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:52788146T>C	uc002xwv.2	-	3	911	c.513A>G	c.(511-513)GAA>GAG	p.E171E	CYP24A1_uc002xwu.1_Silent_p.E29E|CYP24A1_uc002xww.2_Silent_p.E171E	NM_000782	NP_000773	Q07973	CP24A_HUMAN	cytochrome P450 family 24 subfamily A	171					hormone biosynthetic process|osteoblast differentiation|vitamin D catabolic process|vitamin D receptor signaling pathway|xenobiotic metabolic process	mitochondrial inner membrane	1-alpha,25-dihydroxyvitamin D3 24-hydroxylase activity|electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		STAD - Stomach adenocarcinoma(23;0.206)		Calcidiol(DB00146)|Calcitriol(DB00136)|Cholecalciferol(DB00169)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	GCTTCATCACTTCCCCTGGTT	0.517													67	195					0	0	1	0	0		C	52788146	C	C	52788146	2	2	84	1	0	0	0	0	0	0	0	1	4157	1606	56	3		3	CYP24A1	20	52788146	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2086633	52788146	10237374	1412	53255											
CASS4	57091	broad.mit.edu	37	chr20	55027023	55027023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgcctctcaccagctttgCggaagaatcaaggccccacg	10	6	9	16	3	2	1	2	0	1	1	3	2	2	2	4	2	2	1	4	2	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:55027023C>T	uc002xxp.2	+	6	1016	c.791C>T	c.(790-792)GCG>GTG	p.A264V	CASS4_uc002xxq.3_Missense_Mutation_p.A264V|CASS4_uc002xxr.2_Missense_Mutation_p.A264V|CASS4_uc010zze.1_Missense_Mutation_p.A210V|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	264					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						ACCAGCTTTGCGGAAGAATCA	0.502													12	50					0	0	1	0	0		T	55027023	T	T	55027023	3	4	84	1	0	0	0	0	1	0	0	0	2686	768	27	1	809	1	CASS4	20	55027023	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2238877	55027023	7998497	1413	53256											
CASS4	57091	broad.mit.edu	37	chr20	55033681	55033681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcagcctgctcaaggacGtagcgctggccactaagaat	10	8	11	12	2	2	1	1	0	1	1	2	2	2	2	2	2	4	4	2	2	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:55033681G>A	uc002xxp.2	+	7	2464	c.2239G>A	c.(2239-2241)GTA>ATA	p.V747I	CASS4_uc002xxr.2_Missense_Mutation_p.V747I|CASS4_uc010zze.1_Missense_Mutation_p.V693I|CASS4_uc010gio.2_Missense_Mutation_p.V310I	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	747					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						GCTCAAGGACGTAGCGCTGGC	0.647													16	47					0	0	1	0	0		A	55033681	A	A	55033681	3	1	84	1	0	0	0	0	1	0	0	0	2686	1145	40	1	2261	1	CASS4	20	55033681	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	6658	55033681	7991839	1414	53257											
APCDD1L	164284	broad.mit.edu	37	chr20	57042216	57042216	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggtagtgccgcctctcCgccgggtcggtgtggatgtc	2	9	17	13	5	1	0	0	0	1	0	4	1	1	1	5	5	1	1	5	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:57042216C>T	uc002xze.1	-	3	873	c.687G>A	c.(685-687)GCG>GCA	p.A229A	APCDD1L_uc010zzp.1_Silent_p.A240A	NM_153360	NP_699191	Q8NCL9	APCDL_HUMAN	adenomatosis polyposis coli down-regulated	229						integral to membrane				ovary(1)	1	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)			GCCGCCTCTCCGCCGGGTCGG	0.731													21	35					0	0	1	0	0		T	57042216	T	T	57042216	2	4	84	1	0	0	0	0	0	0	0	1	766	639	23	1		1	APCDD1L	20	57042216	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2008535	57042216	5983304	1415	53258											
ZNF831	128611	broad.mit.edu	37	chr20	57766274	57766274	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccactgtaccacacggtgcCtcccgggggcctccagcccc	5	5	10	21	2	0	0	0	0	0	0	2	0	2	0	8	3	3	1	8	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:57766274C>A	uc002yan.2	+	1	200	c.200C>A	c.(199-201)CCT>CAT	p.P67H		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	67	Pro-rich.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CACACGGTGCCTCCCGGGGGC	0.697													9	18					0.000274275	0.000282047	1	1	0		A	57766274	A	A	57766274	3	1	84	1	0	0	0	0	1	0	0	0	18210	681	24	5	202	5	ZNF831	20	57766274	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	724058	57766274	5259246	1416	53259											
ZNF831	128611	broad.mit.edu	37	chr20	57766659	57766659	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcacaggcggacgcagacGcacctcaacaactcccggct	12	3	10	16	4	1	1	1	0	0	1	2	2	2	2	2	3	3	4	2	3	3	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:57766659G>A	uc002yan.2	+	1	585	c.585G>A	c.(583-585)ACG>ACA	p.T195T		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	195	C2H2-type 2.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGACGCAGACGCACCTCAACA	0.667													37	107					0	0	1	0	0		A	57766659	A	A	57766659	2	1	84	1	0	0	0	0	0	0	0	1	18210	1074	38	1		1	ZNF831	20	57766659	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	385	57766659	5258861	1417	53260											
LAMA5	3911	broad.mit.edu	37	chr20	60912692	60912692	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgggcacacatgtgtcacaCcgcagccccgtcacacgggg	8	4	12	17	4	2	0	2	0	0	0	2	0	2	0	4	3	1	2	4	3	0	0	rs147111128		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:60912692C>T	uc002ycq.2	-	16	2185	c.2118G>A	c.(2116-2118)CGG>CGA	p.R706R		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	706	Laminin EGF-like 8.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATGTGTCACACCGCAGCCCCG	0.667													8	24					0	0	1	0	0		T	60912692	T	T	60912692	2	4	84	1	0	0	0	0	0	0	0	1	8625	494	18	4		4	LAMA5	20	60912692	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3146033	60912692	2112828	1418	53261											
OGFR	11054	broad.mit.edu	37	chr20	61444596	61444596	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcccatcggagaccccaggCccccgcccagcaggacctgc	8	2	11	20	2	0	1	0	0	0	1	1	3	0	2	7	3	3	1	7	3	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:61444596C>T	uc002ydj.2	+	7	1664	c.1629C>T	c.(1627-1629)GGC>GGT	p.G543G	OGFR_uc002ydk.2_Silent_p.G526G|OGFR_uc002ydl.2_Silent_p.G491G|uc011aam.1_Missense_Mutation_p.G16D	NM_007346	NP_031372	Q9NZT2	OGFR_HUMAN	opioid growth factor receptor	543	2.|7 X 20 AA approximate tandem repeats of [ST]-P-S-E-T-P-G-P-[SR]-P-A-G-P-[AT]- [GR]-D-E-P-A-[EK].				regulation of cell growth	cytoplasm|membrane|nucleus	opioid receptor activity				0	Breast(26;3.65e-08)					AGACCCCAGGCCCCCGCCCAG	0.731													10	32					0	0	1	0	0		T	61444596	T	T	61444596	2	4	84	1	0	0	0	0	0	0	0	1	10862	726	26	2		2	OGFR	20	61444596	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	531904	61444596	1580924	1419	53262											
COL20A1	57642	broad.mit.edu	37	chr20	61943272	61943272	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgctgtgctttgcagccacCctggcccccccgagacacct	5	8	9	19	1	0	1	0	0	0	1	0	2	0	1	6	1	4	3	6	1	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr20:61943272C>A	uc011aau.1	+	14	1768	c.1668C>A	c.(1666-1668)ACC>ACA	p.T556T	COL20A1_uc011aav.1_Silent_p.T377T	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	556	Fibronectin type-III 4.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					TTGCAGCCACCCTGGCCCCCC	0.701													7	11					2.0095e-06	2.11003e-06	1	1	0		A	61943272	A	A	61943272	2	1	84	1	0	0	0	0	0	0	0	1	3682	610	22	5		5	COL20A1	20	61943272	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	498676	61943272	1082248	1420	53263											
BAGE2	85319	broad.mit.edu	37	chr21	11098712	11098712	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccatcttaccactccagcCgccatcttactgctccggcc	6	9	6	20	3	2	0	0	0	2	0	4	0	4	0	7	1	4	1	7	1	2	2	rs77011809		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:11098712C>T	uc002yit.1	-	1	214	c.6G>A	c.(4-6)GCG>GCA	p.A2A	BAGE_uc002yix.2_RNA	NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ccactccagccgccatcttac	0													44	301					0	0	1	0	0		T	11098712	T	T	11098712	2	4	84	1	0	0	0	0	0	0	0	1	1293	639	23	1		1	BAGE2	21	11098712	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08		11098712	37031183	1421	53264											
SAMSN1	64092	broad.mit.edu	37	chr21	15884777	15884777	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccttacttgatgagctctGtccactgtagagactatcca	10	12	8	11	0	1	3	0	2	1	1	3	4	3	3	3	0	3	2	3	0	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:15884777G>T	uc002yju.1	-	4	479	c.397C>A	c.(397-399)CAG>AAG	p.Q133K	SAMSN1_uc010gky.1_Intron|SAMSN1_uc002yjv.1_Missense_Mutation_p.Q201K	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	133					negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		GATGAGCTCTGTCCACTGTAG	0.453													50	128					3.68337e-26	4.18281e-26	1	1	0		T	15884777	T	T	15884777	3	4	84	1	0	0	0	0	1	0	0	0	13855	1386	48	5	744	5	SAMSN1	21	15884777	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4786065	15884777	32245118	1422	53265											
NRIP1	8204	broad.mit.edu	37	chr21	16339835	16339835	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggttcactcatgacctttgTtccactttgtccaacatgat	8	15	6	12	1	2	2	2	2	0	0	4	2	4	2	3	1	1	2	3	1	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:16339835T>C	uc002yjx.2	-	4	1277	c.679A>G	c.(679-681)ACA>GCA	p.T227A		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	227	Repression domain 1.				androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		ATGACCTTTGTTCCACTTTGT	0.443													31	85					0	0	1	0	0		C	16339835	C	C	16339835	3	2	84	1	0	0	0	0	1	0	0	0	10671	1725	60	3	2801	3	NRIP1	21	16339835	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	455058	16339835	31790060	1423	53266											
ADAMTS5	11096	broad.mit.edu	37	chr21	28338429	28338429	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagaggaacctccggccGcccgcgtagacgaggtagcc	9	4	13	15	5	0	2	0	0	0	2	2	4	2	3	6	3	2	2	6	3	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:28338429G>A	uc002ymg.2	-	1	1011	c.282C>T	c.(280-282)GGC>GGT	p.G94G		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	94					proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						ACCTCCGGCCGCCCGCGTAGA	0.701													35	109					0	0	1	0	0		A	28338429	A	A	28338429	2	1	84	1	0	0	0	0	0	0	0	1	269	1074	38	1		1	ADAMTS5	21	28338429	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	11998594	28338429	19791466	1424	53267											
KRTAP11-1	337880	broad.mit.edu	37	chr21	32253467	32253467	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttggcagacagtagagatgCcgcccactggttggcagaca	10	7	14	10	1	0	3	0	0	0	3	0	4	0	3	2	3	1	5	2	3	1	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:32253467C>A	uc002yov.2	-	1	408	c.377G>T	c.(376-378)GGC>GTC	p.G126V		NM_175858	NP_787054	Q8IUC1	KR111_HUMAN	keratin associated protein 11-1	126	4 X 10 AA approximate repeats.|2.					keratin filament	structural molecule activity			pancreas(1)	1						AGTAGAGATGCCGCCCACTGG	0.607													8	116					1.76689e-08	1.89644e-08	1	1	0		A	32253467	A	A	32253467	3	1	84	1	0	0	0	0	1	0	0	0	8533	739	26	5	118	5	KRTAP11-1	21	32253467	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3915038	32253467	15876428	1425	53268											
IFNAR2	3455	broad.mit.edu	37	chr21	34619154	34619154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggattcagcgggaacacaaCgttgttcagttgctcacaca	12	9	10	10	2	3	0	3	0	0	0	3	2	3	2	0	2	4	4	0	2	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:34619154C>T	uc002yrd.2	+	5	681	c.353C>T	c.(352-354)ACG>ATG	p.T118M	IFNAR2_uc002yrb.2_Missense_Mutation_p.T118M|IFNAR2_uc002yrc.2_Missense_Mutation_p.T118M|IFNAR2_uc002yre.2_Missense_Mutation_p.T118M|IFNAR2_uc002yrf.2_Missense_Mutation_p.T118M|IFNAR2_uc002yrg.2_Translation_Start_Site|IL10RB_uc002yrh.1_5'Flank|IL10RB_uc002yri.1_5'Flank	NM_207585	NP_997468	P48551	INAR2_HUMAN	interferon alpha/beta receptor 2 isoform a	118	Extracellular (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to interferon-alpha|response to virus|type I interferon-mediated signaling pathway	extracellular region|extracellular space|integral to plasma membrane	protein kinase binding|type I interferon binding|type I interferon receptor activity				0					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	GGGAACACAACGTTGTTCAGT	0.448													13	29					0	0	1	0	0		T	34619154	T	T	34619154	3	4	84	1	0	0	0	0	1	0	0	0	7561	536	19	1	367	1	IFNAR2	21	34619154	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2365687	34619154	13510741	1426	53269											
SON	6651	broad.mit.edu	37	chr21	34922085	34922085	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgagaccaatgaatcccCtgcagttgtgctagaacctc	11	10	8	12	0	1	3	0	2	1	2	3	4	2	3	4	0	3	3	4	0	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:34922085C>A	uc002yse.1	+	3	597	c.548C>A	c.(547-549)CCT>CAT	p.P183H	SON_uc002ysb.1_Missense_Mutation_p.P183H|SON_uc002ysc.2_Missense_Mutation_p.P183H|SON_uc002ysd.2_Translation_Start_Site|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	183					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						AATGAATCCCCTGCAGTTGTG	0.443													10	121					0.000673444	0.000690895	1	1	0		A	34922085	A	A	34922085	3	1	84	1	0	0	0	0	1	0	0	0	14951	681	24	5	558	5	SON	21	34922085	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	302931	34922085	13207810	1427	53270											
MORC3	23515	broad.mit.edu	37	chr21	37741865	37741865	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacaacagaggatactagaAatgaatgacaagtatgttaa	19	10	8	4	0	0	4	0	2	0	2	0	5	0	5	0	1	3	2	0	1	9	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:37741865A>G	uc002yvi.2	+	15	2275	c.2199A>G	c.(2197-2199)GAA>GAG	p.E733E		NM_015358	NP_056173	Q14149	MORC3_HUMAN	MORC family CW-type zinc finger 3	733	Potential.				cell aging|maintenance of protein location in nucleus|negative regulation of fibroblast proliferation|peptidyl-serine phosphorylation|protein stabilization	aggresome|intermediate filament cytoskeleton|PML body	ATP binding|zinc ion binding			ovary(2)	2						GGATACTAGAAATGAATGACA	0.348													10	74					0	0	1	0	0		G	37741865	G	G	37741865	2	3	84	1	0	0	0	0	0	0	0	1	9721	11	1	3		3	MORC3	21	37741865	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2819780	37741865	10388030	1428	53271											
TTC3	7267	broad.mit.edu	37	chr21	38538593	38538593	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcctttctcctgaataTcagctaccaagatcagtacc	11	10	6	14	0	3	2	2	1	1	1	4	2	3	2	5	0	4	2	5	0	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:38538593T>C	uc002yvz.2	+	33	4182	c.4077T>C	c.(4075-4077)TAT>TAC	p.Y1359Y	TTC3_uc011aee.1_Silent_p.Y1049Y|TTC3_uc002ywa.2_Silent_p.Y1359Y|TTC3_uc002ywb.2_Silent_p.Y1359Y|TTC3_uc010gnf.2_Silent_p.Y1124Y|TTC3_uc002ywc.2_Silent_p.Y1049Y|TTC3_uc002ywd.1_Silent_p.Y423Y	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1359					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				CTCCTGAATATCAGCTACCAA	0.463													33	94					0	0	1	0	0		C	38538593	C	C	38538593	2	2	84	1	0	0	0	0	0	0	0	1	16723	1442	50	3		3	TTC3	21	38538593	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	796728	38538593	9591302	1429	53272											
KCNJ6	3763	broad.mit.edu	37	chr21	39086633	39086633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcatggctaatgatcagcGgtgacaccagaaacagacgg	13	8	11	9	2	2	4	2	2	0	2	2	4	2	4	1	3	2	1	1	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:39086633G>A	uc011aej.1	-	3	880	c.827C>T	c.(826-828)CCG>CTG	p.P276L	KCNJ6_uc002ywo.2_Missense_Mutation_p.P276L	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	276	Cytoplasmic (By similarity).				synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	AATGATCAGCGGTGACACCAG	0.493													28	103					0	0	1	0	0		A	39086633	A	A	39086633	3	1	84	1	0	0	0	0	1	0	0	0	8071	1116	39	1	452	1	KCNJ6	21	39086633	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	548040	39086633	9043262	1430	53273											
DSCAM	1826	broad.mit.edu	37	chr21	41414401	41414401	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcccgattcggaaggggtGctggaggtcagactgtccgt	7	10	15	9	3	1	1	1	0	0	1	4	4	3	3	2	5	1	1	2	5	1	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:41414401G>A	uc002yyq.1	-	32	6035	c.5583C>T	c.(5581-5583)AGC>AGT	p.S1861S	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1861	Cytoplasmic (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CGGAAGGGGTGCTGGAGGTCA	0.542													33	103					0	0	1	0	0		A	41414401	A	A	41414401	2	1	84	1	0	0	0	0	0	0	0	1	4774	1310	46	2		2	DSCAM	21	41414401	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2327768	41414401	6715494	1431	53274											
DSCAM	1826	broad.mit.edu	37	chr21	41710234	41710234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacggatagccaatcacaCgacagtgaatgtatgtgtcc	14	9	9	9	2	1	1	1	1	0	0	2	3	2	2	2	1	2	1	2	1	6	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:41710234C>T	uc002yyq.1	-	8	2029	c.1577G>A	c.(1576-1578)CGT>CAT	p.R526H	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	526	Extracellular (Potential).|Ig-like C2-type 6.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				GCCAATCACACGACAGTGAAT	0.433													21	57					0	0	1	0	0		T	41710234	T	T	41710234	3	4	84	1	0	0	0	0	1	0	0	0	4774	536	19	1	4565	1	DSCAM	21	41710234	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	295833	41710234	6419661	1432	53275											
KRTAP10-4	386672	broad.mit.edu	37	chr21	45994422	45994422	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagccggcttgctgcaccTcctctccctgccagcaggct	4	8	10	19	1	1	0	0	0	1	0	3	0	2	0	6	2	5	5	6	2	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:45994422T>C	uc002zfk.1	+	1	817	c.787T>C	c.(787-789)TCC>CCC	p.S263P	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198687	NP_941960	P60372	KR104_HUMAN	keratin associated protein 10-4	263	36 X 5 AA repeats of C-C-X(3).					keratin filament					0						TTGCTGCACCTCCTCTCCCTG	0.617													73	191					0	0	1	0	0		C	45994422	C	C	45994422	3	2	84	1	0	0	0	0	1	0	0	0	8527	1551	54	3	789	3	KRTAP10-4	21	45994422	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	4284188	45994422	2135473	1433	53276											
ADARB1	104	broad.mit.edu	37	chr21	46604951	46604951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagcatccaaacgtgggacGgggtgctgcaaggggagcgg	9	4	19	9	4	0	0	0	0	0	0	1	3	1	2	1	6	5	3	1	6	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:46604951G>A	uc002zgy.2	+	9	2065	c.1630G>A	c.(1630-1632)GGG>AGG	p.G544R	ADARB1_uc002zgr.2_Missense_Mutation_p.G544R|ADARB1_uc002zgs.2_RNA|ADARB1_uc002zgw.2_Missense_Mutation_p.G504R|ADARB1_uc002zgv.2_RNA|ADARB1_uc002zgt.2_Missense_Mutation_p.G504R|ADARB1_uc010gpx.2_RNA|ADARB1_uc002zgq.2_RNA|ADARB1_uc002zgu.2_RNA	NM_015833	NP_056648	P78563	RED1_HUMAN	RNA-specific adenosine deaminase B1 isoform 2	544	A to I editase.				adenosine to inosine editing|mRNA modification|mRNA processing|RNA processing	nucleoplasm|nucleus	double-stranded RNA adenosine deaminase activity|double-stranded RNA adenosine deaminase activity|double-stranded RNA binding|double-stranded RNA binding|metal ion binding|mRNA binding|RNA binding			skin(1)	1				Colorectal(79;0.115)		AACGTGGGACGGGGTGCTGCA	0.592													47	149					0	0	1	0	0		A	46604951	A	A	46604951	3	1	84	1	0	0	0	0	1	0	0	0	282	1116	39	1	1656	1	ADARB1	21	46604951	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	610529	46604951	1524944	1434	53277											
LSS	4047	broad.mit.edu	37	chr21	47635156	47635156	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgtgttcatacagcttctGcacggcccgctgccgcaggt	7	10	11	13	3	2	0	1	0	1	0	2	0	2	0	2	2	4	5	2	2	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:47635156G>A	uc002zij.2	-	9	1028	c.949C>T	c.(949-951)CAG>TAG	p.Q317*	LSS_uc011afv.1_Nonsense_Mutation_p.Q306*|LSS_uc002zil.2_Nonsense_Mutation_p.Q317*|LSS_uc002zik.2_Nonsense_Mutation_p.Q237*	NM_001001438	NP_001001438	P48449	ERG7_HUMAN	lanosterol synthase isoform 1	317					cholesterol biosynthetic process	endoplasmic reticulum membrane	lanosterol synthase activity				0	Breast(49;0.214)					TACAGCTTCTGCACGGCCCGC	0.632													10	41					0	0	1	0	0		A	47635156	A	A	47635156	4	1	84	1	0	0	0	0	0	1	0	0	9083	1328	46	2	1305	2	LSS	21	47635156	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1030205	47635156	494739	1435	53278											
PCNT	5116	broad.mit.edu	37	chr21	47771404	47771404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcacaagaagagatcaggcGcttgtggtcccagcttgatt	11	10	11	9	1	2	3	2	1	0	2	3	4	3	3	1	2	1	2	1	2	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:47771404G>A	uc002zji.3	+	9	1513	c.1406G>A	c.(1405-1407)CGC>CAC	p.R469H	PCNT_uc002zjj.2_Missense_Mutation_p.R351H	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	469	Glu-rich.|Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					GAGATCAGGCGCTTGTGGTCC	0.448													24	60					0	0	1	0	0		A	47771404	A	A	47771404	3	1	84	1	0	0	0	0	1	0	0	0	11609	1087	38	1	1440	1	PCNT	21	47771404	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	136248	47771404	358491	1436	53279											
DIP2A	23181	broad.mit.edu	37	chr21	47966860	47966860	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatcgtgggcaaactggaCgggctgatggtcactggagt	8	10	15	8	2	2	1	2	1	0	0	3	3	2	3	0	5	1	2	0	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr21:47966860C>T	uc002zjo.2	+	21	2610	c.2427C>T	c.(2425-2427)GAC>GAT	p.D809D	DIP2A_uc011afy.1_Silent_p.D745D|DIP2A_uc011afz.1_Silent_p.D805D|DIP2A_uc002zjm.2_Silent_p.D809D|DIP2A_uc010gql.2_Silent_p.D766D|DIP2A_uc002zjn.2_Silent_p.D809D|DIP2A_uc002zjq.2_Silent_p.D201D	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	809					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		GCAAACTGGACGGGCTGATGG	0.582													11	30					0	0	1	0	0		T	47966860	T	T	47966860	2	4	84	1	0	0	0	0	0	0	0	1	4533	535	19	1		1	DIP2A	21	47966860	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	195456	47966860	163035	1437	53280											
BCL2L13	23786	broad.mit.edu	37	chr22	18171852	18171852	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggcccatcttggagaaaaAgtgtcccaggaactgaaaga	14	8	11	8	0	1	3	0	1	1	2	2	5	2	4	2	3	1	0	2	3	4	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:18171852A>G	uc002zmw.2	+	4	548	c.330A>G	c.(328-330)AAA>AAG	p.K110K	BCL2L13_uc002zmu.2_Silent_p.K110K|BCL2L13_uc002zmv.2_Silent_p.K110K|BCL2L13_uc002zmx.2_Intron|BCL2L13_uc002zmy.2_Silent_p.K110K|BCL2L13_uc010gqy.2_Intron|BCL2L13_uc011agk.1_Intron|BCL2L13_uc010gqz.2_5'UTR|BCL2L13_uc002zmz.2_5'UTR	NM_015367	NP_056182	Q9BXK5	B2L13_HUMAN	BCL2-like 13 (apoptosis facilitator)	110	BH3.				induction of apoptosis	integral to membrane|mitochondrial membrane|nucleus	caspase activator activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4		all_epithelial(15;0.123)		Lung(27;0.199)		TTGGAGAAAAAGTGTCCCAGG	0.498													11	93					0	0	1	0	0		G	18171852	G	G	18171852	2	3	84	1	0	0	0	0	0	0	0	1	1372	69	3	3		3	BCL2L13	22	18171852	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08		18171852	33132714	1438	53281											
CLTCL1	8218	broad.mit.edu	37	chr22	19175559	19175559	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactcttgttgttgtggctCtggactgaccgcaggtaagg	7	12	13	9	1	2	1	0	1	2	0	2	2	2	2	1	4	0	5	1	4	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:19175559C>A	uc002zpb.2	-	29	4443	c.4368G>T	c.(4366-4368)CAG>CAT	p.Q1456H	CLTCL1_uc011agv.1_Missense_Mutation_p.Q1456H|CLTCL1_uc011agw.1_Missense_Mutation_p.Q1435H|CLTCL1_uc011agt.1_Missense_Mutation_p.Q247H|CLTCL1_uc011agu.1_Intron	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	1456	Involved in binding clathrin light chain (By similarity).|Proximal segment.|Heavy chain arm.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					TGTTGTGGCTCTGGACTGACC	0.572			T	?	ALCL								57	185					1.20869e-33	1.37617e-33	1	1	0		A	19175559	A	A	19175559	3	1	84	1	0	0	0	0	1	0	0	0	3570	912	32	5	574	5	CLTCL1	22	19175559	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1003707	19175559	32129007	1439	53282											
ARVCF	421	broad.mit.edu	37	chr22	19969175	19969175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caaaagggcctagtggggggCcgccatccagcagggggagt	9	4	18	10	1	0	0	0	0	0	0	1	1	1	1	4	6	1	1	4	6	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:19969175C>T	uc002zqz.2	-	5	726	c.455G>A	c.(454-456)GGC>GAC	p.G152D	ARVCF_uc002zqy.2_5'Flank|ARVCF_uc002zra.2_Missense_Mutation_p.G152D	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	152					cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					TAGTGGGGGGCCGCCATCCAG	0.637													36	94					0	0	1	0	0		T	19969175	T	T	19969175	3	4	84	1	0	0	0	0	1	0	0	0	1004	739	26	2	2493	2	ARVCF	22	19969175	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	793616	19969175	31335391	1440	53283											
ZDHHC8	29801	broad.mit.edu	37	chr22	20130522	20130522	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgcgctctgagggggggCcccccacgccccaccgtagc	4	4	13	20	3	1	1	0	1	1	0	1	1	1	1	7	3	2	2	7	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:20130522C>G	uc002zrq.2	+	10	1475	c.1369C>G	c.(1369-1371)CCC>GCC	p.P457A	ZDHHC8_uc002zrr.1_Missense_Mutation_p.P457A|ZDHHC8_uc010gsa.2_Missense_Mutation_p.P263A	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	457	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					TGAGGGGGGGCCCCCCACGCC	0.687													19	58					0	0	1	0	0		G	20130522	G	G	20130522	3	3	84	1	0	0	0	0	1	0	0	0	17646	739	26	5	1407	5	ZDHHC8	22	20130522	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	161347	20130522	31174044	1441	53284											
KLHL22	84861	broad.mit.edu	37	chr22	20819312	20819312	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttagatacttggcctggtcGctgaggacagtggacggcgt	7	11	15	8	3	0	2	0	1	0	1	1	4	0	4	1	5	1	1	1	5	2	4	rs140533712	by1000genomes	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:20819312G>A	uc002zsl.1	-	4	1054	c.945C>T	c.(943-945)AGC>AGT	p.S315S	KLHL22_uc011ahr.1_Silent_p.S172S|KLHL22_uc002zsm.1_Silent_p.S315S	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	315	Kelch 1.				cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			TGGCCTGGTCGCTGAGGACAG	0.627													32	124					0	0	1	0	0		A	20819312	A	A	20819312	2	1	84	1	0	0	0	0	0	0	0	1	8393	1078	38	1		1	KLHL22	22	20819312	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	688790	20819312	30485254	1442	53285											
AIFM3	150209	broad.mit.edu	37	chr22	21331366	21331366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaggtcgtgcgggctgacGtctgcgtggtgggcattggt	4	10	19	8	4	1	1	0	1	1	0	2	1	1	1	0	5	2	3	0	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:21331366G>A	uc002ztj.2	+	14	1482	c.1264G>A	c.(1264-1266)GTC>ATC	p.V422I	AIFM3_uc002ztk.2_Missense_Mutation_p.V422I|AIFM3_uc002ztl.2_Missense_Mutation_p.V428I|AIFM3_uc011ahx.1_Missense_Mutation_p.V410I|AIFM3_uc002ztm.1_Missense_Mutation_p.V234I|LZTR1_uc002ztn.2_5'Flank	NM_144704	NP_653305	Q96NN9	AIFM3_HUMAN	apoptosis-inducing factor,	422					activation of caspase activity by cytochrome c|cell redox homeostasis|electron transport chain|induction of apoptosis|mitochondrial depolarization|transport	endoplasmic reticulum|mitochondrial inner membrane	2 iron, 2 sulfur cluster binding|caspase activator activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity|protein binding			ovary(2)|lung(2)	4	all_cancers(11;3.71e-26)|all_epithelial(7;1.59e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0367)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			GCGGGCTGACGTCTGCGTGGT	0.507													12	53					0	0	1	0	0		A	21331366	A	A	21331366	3	1	84	1	0	0	0	0	1	0	0	0	428	1145	40	1	1332	1	AIFM3	22	21331366	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	512054	21331366	29973200	1443	53286											
CABIN1	23523	broad.mit.edu	37	chr22	24487673	24487673	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggctgagaagcagcagcAgccacccaccgtttacttgc	9	7	12	13	1	0	1	0	1	0	1	0	2	0	1	3	2	6	5	3	2	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:24487673A>C	uc002zzi.1	+	24	3789	c.3662A>C	c.(3661-3663)CAG>CCG	p.Q1221P	CABIN1_uc002zzj.1_Missense_Mutation_p.Q1171P|CABIN1_uc002zzl.1_Missense_Mutation_p.Q1221P	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1221					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						AAGCAGCAGCAGCCACCCACC	0.597													46	98					0	0	1	0	0		C	24487673	C	C	24487673	3	2	84	1	0	0	0	0	1	0	0	0	2531	188	7	5	3752	5	CABIN1	22	24487673	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	3156307	24487673	26816893	1444	53287											
UPB1	51733	broad.mit.edu	37	chr22	24916395	24916395	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccagaaacgcagccattGccaatcactgcttcacctgc	11	7	8	15	1	2	1	2	0	0	1	2	1	2	1	4	1	5	2	4	1	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:24916395G>T	uc003aaf.2	+	7	953	c.832G>T	c.(832-834)GCC>TCC	p.A278S	UPB1_uc003aae.2_Missense_Mutation_p.A210S|UPB1_uc011ajt.1_Missense_Mutation_p.A278S	NM_016327	NP_057411	Q9UBR1	BUP1_HUMAN	beta-ureidopropionase	278	CN hydrolase.				pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	beta-ureidopropionase activity|metal ion binding			ovary(2)	2	Colorectal(2;0.0339)					CGCAGCCATTGCCAATCACTG	0.607													8	26					0.000274275	0.000282047	1	1	0		T	24916395	T	T	24916395	3	4	84	1	0	0	0	0	1	0	0	0	17028	1319	46	5	858	5	UPB1	22	24916395	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	428722	24916395	26388171	1445	53288											
TPST2	8459	broad.mit.edu	37	chr22	26937268	26937268	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacttggaccaggcctggCgcatggccagcacgcgcggg	7	4	16	14	4	0	1	0	0	0	1	0	2	0	2	3	5	1	2	3	5	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:26937268C>T	uc003acv.2	-	2	497	c.329G>A	c.(328-330)CGC>CAC	p.R110H	TPST2_uc003acw.2_Missense_Mutation_p.R110H|TPST2_uc003acx.2_Missense_Mutation_p.R110H|TPST2_uc011akf.1_Missense_Mutation_p.R110H	NM_003595	NP_003586	O60704	TPST2_HUMAN	tyrosylprotein sulfotransferase 2	110	Lumenal (Potential).				peptidyl-tyrosine sulfation	endoplasmic reticulum|Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity			central_nervous_system(1)	1						CCAGGCCTGGCGCATGGCCAG	0.697													16	41					0	0	1	0	0		T	26937268	T	T	26937268	3	4	84	1	0	0	0	0	1	0	0	0	16454	768	27	1	820	1	TPST2	22	26937268	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2020873	26937268	24367298	1446	53289											
MN1	4330	broad.mit.edu	37	chr22	28196314	28196314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcaactccgagtggccgCgcgcgtggaagccgtagggc	6	5	17	13	7	0	0	0	0	0	0	1	2	1	1	3	3	3	2	3	3	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:28196314C>T	uc003adj.2	-	1	1173	c.218G>A	c.(217-219)CGC>CAC	p.R73H		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	73							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						CGAGTGGCCGCGCGCGTGGAA	0.682			T	ETV6	AML|meningioma								13	58					0	0	1	0	0		T	28196314	T	T	28196314	3	4	84	1	0	0	0	0	1	0	0	0	9691	768	27	1	3752	1	MN1	22	28196314	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1259046	28196314	23108252	1447	53290											
ASCC2	84164	broad.mit.edu	37	chr22	30221642	30221642	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttatcgtgaggcaaggccAggagccagtcgaggtcattg	10	9	14	8	2	1	1	1	1	0	0	3	3	1	2	2	4	1	1	2	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:30221642A>C	uc003agr.2	-	3	314	c.209T>G	c.(208-210)CTG>CGG	p.L70R	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Missense_Mutation_p.L70R|ASCC2_uc011akr.1_Intron	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	70					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			AGGCAAGGCCAGGAGCCAGTC	0.488													37	96					0	0	1	0	0		C	30221642	C	C	30221642	3	2	84	1	0	0	0	0	1	0	0	0	1033	188	7	5	2136	5	ASCC2	22	30221642	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	2025328	30221642	21082924	1448	53291											
SF3A1	10291	broad.mit.edu	37	chr22	30734814	30734814	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaagtgatgggtggagcCgagctggggatgttggtggc	7	9	20	5	1	0	2	0	2	0	0	0	5	0	4	1	6	2	2	1	6	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:30734814C>T	uc003ahl.2	-	11	1839	c.1707G>A	c.(1705-1707)TCG>TCA	p.S569S		NM_005877	NP_005868	Q15459	SF3A1_HUMAN	splicing factor 3a, subunit 1, 120kDa isoform 1	569					nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|U2-type spliceosomal complex	protein binding|RNA binding			ovary(3)|large_intestine(1)|pancreas(1)	5						TGGGTGGAGCCGAGCTGGGGA	0.537													44	126					0	0	1	0	0		T	30734814	T	T	30734814	2	4	84	1	0	0	0	0	0	0	0	1	14171	639	23	1		1	SF3A1	22	30734814	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	513172	30734814	20569752	1449	53292											
PATZ1	23598	broad.mit.edu	37	chr22	31741335	31741335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcgcgccccctacatcaGccggacccccgtccgcagct	5	5	9	22	6	1	0	1	0	0	0	3	1	2	1	7	1	3	2	7	1	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:31741335G>A	uc003akq.2	-	1	915	c.254C>T	c.(253-255)GCT>GTT	p.A85V	PATZ1_uc003akp.2_Missense_Mutation_p.A85V|PATZ1_uc003akr.2_Missense_Mutation_p.A85V|PATZ1_uc003aks.2_Missense_Mutation_p.A85V|uc003akt.2_5'Flank	NM_014323	NP_055138	Q9HBE1	PATZ1_HUMAN	POZ (BTB) and AT hook containing zinc finger 1	85	BTB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/PATZ1(2)	soft_tissue(2)	2						CCCTACATCAGCCGGACCCCC	0.692													24	48					0	0	1	0	0		A	31741335	A	A	31741335	3	1	84	1	0	0	0	0	1	0	0	0	11495	971	34	2	2112	2	PATZ1	22	31741335	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1006521	31741335	19563231	1450	53293											
MYH9	4627	broad.mit.edu	37	chr22	36684430	36684430	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgagcgctgcttcctctcGtcctccagctctgcctccat	4	12	7	18	3	2	0	0	0	2	0	8	1	6	0	5	0	4	3	5	0	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:36684430G>A	uc003apg.2	-	34	5031	c.4800C>T	c.(4798-4800)GAC>GAT	p.D1600D		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1600	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GCTTCCTCTCGTCCTCCAGCT	0.622			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				34	84					0	0	1	0	0		A	36684430	A	A	36684430	2	1	84	1	0	0	0	0	0	0	0	1	10060	1136	40	1		1	MYH9	22	36684430	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4943095	36684430	14620136	1451	53294											
C22orf33	339669	broad.mit.edu	37	chr22	37395938	37395938	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtagtctgagaagacggAggagatttccacaggattct	13	10	12	6	1	2	3	0	1	2	3	3	7	3	5	1	3	0	1	1	3	3	4	rs112746500		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:37395938A>G	uc003aqf.2	-	4	723	c.577T>C	c.(577-579)TCC>CCC	p.S193P	C22orf33_uc003aqe.2_Missense_Mutation_p.S108P	NM_001163857	NP_001157329	O43247	EAN57_HUMAN	hypothetical protein LOC339669 isoform 1	193											0						GAGAAGACGGAGGAGATTTCC	0.542													24	67					0	0	1	0	0		G	37395938	G	G	37395938	3	3	84	1	0	0	0	0	1	0	0	0	2148	304	11	3	277	3	C22orf33	22	37395938	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	711508	37395938	13908628	1452	53295											
TMPRSS6	164656	broad.mit.edu	37	chr22	37482378	37482378	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggtcgtagtagctgtgcagGcccttcttccagacgaccgc	6	9	13	13	3	1	1	0	0	1	1	3	2	2	1	3	2	2	4	3	2	2	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:37482378G>A	uc003aqs.1	-	8	1059	c.945C>T	c.(943-945)GGC>GGT	p.G315G	TMPRSS6_uc003aqt.1_Silent_p.G306G|TMPRSS6_uc003aqu.2_Silent_p.G306G	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	315	CUB 1.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						AGCTGTGCAGGCCCTTCTTCC	0.662													10	19					0	0	1	0	0		A	37482378	A	A	37482378	2	1	84	1	0	0	0	0	0	0	0	1	16276	1190	42	2		2	TMPRSS6	22	37482378	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	86440	37482378	13822188	1453	53296											
C1QTNF6	114904	broad.mit.edu	37	chr22	37581312	37581312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggcagggcgtgggggcGgccggaggaagaggctgagg	7	3	23	8	3	1	2	1	1	0	1	1	4	1	4	1	9	0	2	1	9	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:37581312G>A	uc003aqw.1	-	1	683	c.178C>T	c.(178-180)CGC>TGC	p.R60C	C1QTNF6_uc003aqx.1_Missense_Mutation_p.R79C|C1QTNF6_uc003aqy.1_Missense_Mutation_p.R79C|C1QTNF6_uc003aqz.1_RNA	NM_182486	NP_872292	Q9BXI9	C1QT6_HUMAN	C1q and tumor necrosis factor related protein 6	60						collagen					0						GCGTGGGGGCGGCCGGAGGAA	0.632													25	45					0	0	1	0	0		A	37581312	A	A	37581312	3	1	84	1	0	0	0	0	1	0	0	0	1970	1116	39	1	609	1	C1QTNF6	22	37581312	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	98934	37581312	13723254	1454	53297											
MICALL1	85377	broad.mit.edu	37	chr22	38318086	38318086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggctgggcccggggacacGgtcggggaccaggcctgggc	5	3	20	13	3	0	0	0	0	0	0	1	2	0	2	3	9	0	1	3	9	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:38318086G>A	uc003aui.2	+	6	761	c.677G>A	c.(676-678)CGG>CAG	p.R226Q		NM_033386	NP_203744	Q8N3F8	MILK1_HUMAN	molecule interacting with Rab13	226						cytoplasm|cytoskeleton	protein binding|zinc ion binding			breast(1)	1	Melanoma(58;0.045)					CCGGGGACACGGTCGGGGACC	0.652													22	57					0	0	1	0	0		A	38318086	A	A	38318086	3	1	84	1	0	0	0	0	1	0	0	0	9591	1116	39	1	699	1	MICALL1	22	38318086	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	736774	38318086	12986480	1455	53298											
KCNJ4	3761	broad.mit.edu	37	chr22	38824079	38824079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccgttcttcttgacgaagCggttgcggcgcttccgccgg	3	10	15	13	7	2	1	0	1	2	0	3	2	3	1	3	4	2	3	3	4	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:38824079C>T	uc003avs.1	-	2	156	c.59G>A	c.(58-60)CGC>CAC	p.R20H	KCNJ4_uc003avt.1_Missense_Mutation_p.R20H	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	20	Cytoplasmic (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					CTTGACGAAGCGGTTGCGGCG	0.642													110	312					0	0	1	0	0		T	38824079	T	T	38824079	3	4	84	1	0	0	0	0	1	0	0	0	8069	768	27	1	1282	1	KCNJ4	22	38824079	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	505993	38824079	12480487	1456	53299											
APOBEC3B	9582	broad.mit.edu	37	chr22	39382072	39382072	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgagtcaggcaggagccCgcgtgacgatcatggactat	9	7	15	10	3	2	2	2	2	0	0	2	5	2	4	1	4	1	2	1	4	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:39382072C>A	uc003awo.1	+	3	484	c.430C>A	c.(430-432)CGC>AGC	p.R144S	APOBEC3A_uc011aoc.1_Intron|APOBEC3B_uc003awp.1_Missense_Mutation_p.R144S|APOBEC3B_uc003awq.1_RNA|APOBEC3D_uc011aod.1_Intron|APOBEC3D_uc011aoe.1_Intron|APOBEC3D_uc011aof.1_Intron	NM_004900	NP_004891	Q9UH17	ABC3B_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	144					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(58;0.04)					GGCAGGAGCCCGCGTGACGAT	0.592													39	105					1.67305e-13	1.83877e-13	1	1	0		A	39382072	A	A	39382072	3	1	84	1	0	0	0	0	1	0	0	0	790	652	23	5	440	5	APOBEC3B	22	39382072	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	557993	39382072	11922494	1457	53300											
APOBEC3D	140564	broad.mit.edu	37	chr22	39418983	39418983	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaggggtctttcgaggcccGgtactacccaaacgtcagtc	9	8	11	13	3	2	0	1	0	1	0	4	1	2	0	2	4	3	1	2	4	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:39418983G>A	uc011aoe.1	+	2	228	c.174G>A	c.(172-174)CCG>CCA	p.P58P	APOBEC3D_uc011aod.1_Silent_p.P58P|APOBEC3D_uc011aof.1_Silent_p.P58P|APOBEC3D_uc003awu.3_Silent_p.P58P|APOBEC3D_uc003awt.3_Silent_p.P58P|APOBEC3D_uc010gxu.2_5'UTR	NM_152426	NP_689639	Q96AK3	ABC3D_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	58					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0	Melanoma(58;0.04)					TTCGAGGCCCGGTACTACCCA	0.517													25	63					0	0	1	0	0		A	39418983	A	A	39418983	2	1	84	1	0	0	0	0	0	0	0	1	792	1103	39	1		1	APOBEC3D	22	39418983	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	36911	39418983	11885583	1458	53301											
TAB1	10454	broad.mit.edu	37	chr22	39826200	39826200	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggagcgtggaccatggCgagcagagcgtggtgacagc	8	6	17	10	3	1	2	0	1	1	1	1	5	1	4	1	4	4	1	1	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:39826200C>T	uc003axt.2	+	11	1537	c.1488C>T	c.(1486-1488)GGC>GGT	p.G496G	TAB1_uc003axr.2_Silent_p.G572G|TAB1_uc011aok.1_Silent_p.G330G|TAB1_uc003axu.1_Intron	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	496					activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1						TGGACCATGGCGAGCAGAGCG	0.647													19	88					0	0	1	0	0		T	39826200	T	T	39826200	2	4	84	1	0	0	0	0	0	0	0	1	15520	755	27	1		1	TAB1	22	39826200	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	407217	39826200	11478366	1459	53302											
EP300	2033	broad.mit.edu	37	chr22	41543950	41543950	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacctggagctctcaacccGgttagtttgacgtctttggt	7	13	10	11	2	2	1	1	1	2	0	3	2	2	2	2	3	3	3	2	3	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:41543950G>A	uc003azl.3	+	12	2636	c.2241G>A	c.(2239-2241)CCG>CCA	p.P747P		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	747					apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CTCTCAACCCGGTTAGTTTGA	0.463			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				22	58					0	0	1	0	0		A	41543950	A	A	41543950	2	1	84	1	0	0	0	0	0	0	0	1	5156	1130	39	1		1	EP300	22	41543950	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1717750	41543950	9760616	1460	53303											
TNFRSF13C	115650	broad.mit.edu	37	chr22	42321471	42321471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggtggggtggttcctGggtcttccccaggaggaggc	4	8	19	10	0	1	0	0	0	1	0	3	2	3	2	4	9	0	1	4	9	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:42321471G>A	uc003bbl.2	-	3	499	c.455C>T	c.(454-456)CCA>CTA	p.P152L	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|TNFRSF13C_uc010gyp.1_Missense_Mutation_p.P153L	NM_052945	NP_443177	Q96RJ3	TR13C_HUMAN	BAFF receptor	152	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						GGTGGTTCCTGGGTCTTCCCC	0.632													20	64					0	0	1	0	0		A	42321471	A	A	42321471	3	1	84	1	0	0	0	0	1	0	0	0	16313	1348	47	4	103	4	TNFRSF13C	22	42321471	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	777521	42321471	8983095	1461	53304											
TTLL12	23170	broad.mit.edu	37	chr22	43570381	43570381	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggggaactggttcagcaGcacgcctggcctctcctggc	6	7	14	14	1	2	0	1	0	1	0	3	1	2	1	3	5	3	4	3	5	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:43570381G>A	uc003bdq.2	-	8	1095	c.1063C>T	c.(1063-1065)CTG>TTG	p.L355L	TTLL12_uc003bdr.1_Silent_p.L355L	NM_015140	NP_055955	Q14166	TTL12_HUMAN	tubulin tyrosine ligase-like family, member 12	355	TTL.				protein modification process		tubulin-tyrosine ligase activity			central_nervous_system(1)	1		Ovarian(80;0.221)|Glioma(61;0.222)				TGGTTCAGCAGCACGCCTGGC	0.701													18	69					0	0	1	0	0		A	43570381	A	A	43570381	2	1	84	1	0	0	0	0	0	0	0	1	16751	962	34	2		2	TTLL12	22	43570381	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1248910	43570381	7734185	1462	53305											
SCUBE1	80274	broad.mit.edu	37	chr22	43623412	43623412	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgttccagtggagccgcCtccccgggggacagacgcac	6	5	13	17	4	0	1	0	0	0	1	3	3	3	3	6	3	1	2	6	3	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:43623412C>A	uc003bdt.1	-	10	1263	c.1175G>T	c.(1174-1176)AGG>ATG	p.R392M		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	392	EGF-like 9; calcium-binding (Potential).				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				GTGGAGCCGCCTCCCCGGGGG	0.657													13	17					0.00010058	0.000104044	1	1	0		A	43623412	A	A	43623412	3	1	84	1	0	0	0	0	1	0	0	0	13969	681	24	5	1843	5	SCUBE1	22	43623412	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	53031	43623412	7681154	1463	53306											
SMC1B	27127	broad.mit.edu	37	chr22	45750990	45750990	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgatttcttgatcagactgTagagcctattatgggcaaag	11	13	10	7	1	2	3	1	1	1	2	3	4	2	3	1	1	1	2	1	1	4	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:45750990T>C	uc003bgc.2	-	20	3019	c.2967A>G	c.(2965-2967)CTA>CTG	p.L989L	SMC1B_uc003bgd.2_Silent_p.L989L	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	989	Potential.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GATCAGACTGTAGAGCCTATT	0.498													31	77					0	0	1	0	0		C	45750990	C	C	45750990	2	2	84	1	0	0	0	0	0	0	0	1	14807	1625	57	3		3	SMC1B	22	45750990	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	2127578	45750990	5553576	1464	53307											
CELSR1	9620	broad.mit.edu	37	chr22	46931895	46931895	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccacgcgccccccaacacGcggtaacgcaagttggcgtt	8	6	10	17	6	0	0	0	0	0	0	1	0	1	0	4	2	2	4	4	2	3	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:46931895G>A	uc003bhw.1	-	1	1173	c.1173C>T	c.(1171-1173)CGC>CGT	p.R391R		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	391	Extracellular (Potential).|Cadherin 2.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CCCCCAACACGCGGTAACGCA	0.692													14	33					0	0	1	0	0		A	46931895	A	A	46931895	2	1	84	1	0	0	0	0	0	0	0	1	3224	1074	38	1		1	CELSR1	22	46931895	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1180905	46931895	4372671	1465	53308											
TBC1D22A	25771	broad.mit.edu	37	chr22	47189608	47189608	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaccacagccagcggcagggGcggcccacgctgcaggaggg	9	1	17	14	3	0	0	0	0	0	0	0	1	0	1	3	6	4	3	3	6	1	0	rs149181794	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:47189608G>A	uc003bib.2	+	3	465	c.330G>A	c.(328-330)GGG>GGA	p.G110G	TBC1D22A_uc010haf.2_Silent_p.G80G|TBC1D22A_uc003bic.2_Silent_p.G110G|TBC1D22A_uc003bie.2_Silent_p.G91G|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Silent_p.G63G	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	110						intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		AGCGGCAGGGGCGGCCCACGC	0.706													14	28					0	0	1	0	0		A	47189608	A	A	47189608	2	1	84	1	0	0	0	0	0	0	0	1	15636	1190	42	2		2	TBC1D22A	22	47189608	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	257713	47189608	4114958	1466	53309											
MAPK11	5600	broad.mit.edu	37	chr22	50705416	50705416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcaggtgcccggtaccagCgcgtggccacatagccggtc	6	7	13	15	4	1	0	1	0	1	0	3	0	1	0	4	4	4	1	4	4	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:50705416C>T	uc003bkr.2	-	7	615	c.557G>A	c.(556-558)CGC>CAC	p.R186H	MAPK11_uc010hax.2_Missense_Mutation_p.R8H|MAPK11_uc011ars.1_RNA|MAPK11_uc010hay.1_RNA|MAPK11_uc011art.1_3'UTR|MAPK11_uc010haz.2_Missense_Mutation_p.R78H	NM_002751	NP_002742	Q15759	MK11_HUMAN	mitogen-activated protein kinase 11	186	Protein kinase.				activation of MAPK activity|innate immune response|mRNA metabolic process|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of muscle cell differentiation|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			lung(1)|breast(1)	2		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CCGGTACCAGCGCGTGGCCAC	0.637													13	62					0	0	1	0	0		T	50705416	T	T	50705416	3	4	84	1	0	0	0	0	1	0	0	0	9291	768	27	1	561	1	MAPK11	22	50705416	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3515808	50705416	599150	1467	53310											
SBF1	6305	broad.mit.edu	37	chr22	50893694	50893694	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcaggaagacgggtgtgaAgccgctgctctgcccggcca	7	6	15	13	3	1	2	0	1	1	1	1	3	1	3	3	3	4	3	3	3	2	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:50893694A>G	uc003blh.2	-	33	4708	c.4513T>C	c.(4513-4515)TTC>CTC	p.F1505L	SBF1_uc003ble.2_5'UTR|SBF1_uc003blf.2_5'UTR|SBF1_uc011arx.1_Missense_Mutation_p.F1143L	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1479	Myotubularin phosphatase.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		ACGGGTGTGAAGCCGCTGCTC	0.677													18	40					0	0	1	0	0		G	50893694	G	G	50893694	3	3	84	1	0	0	0	0	1	0	0	0	13883	72	3	3	1204	3	SBF1	22	50893694	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	188278	50893694	410872	1468	53311											
SHANK3	85358	broad.mit.edu	37	chr22	51117092	51117092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttggacaaggggctggAccccaacttccatgaccctg	8	8	11	14	0	0	1	0	1	0	0	1	3	1	3	5	4	1	2	5	4	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chr22:51117092A>G	uc003bne.1	+	4	419	c.419A>G	c.(418-420)GAC>GGC	p.D140G		NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	140										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		AAGGGGCTGGACCCCAACTTC	0.607													9	33					0	0	1	0	0		G	51117092	G	G	51117092	3	3	84	1	0	0	0	0	1	0	0	0	14291	275	10	3	433	3	SHANK3	22	51117092	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	223398	51117092	187474	1469	53312											
SFRS17A	8227	broad.mit.edu	37	chrX	1712646	1712646	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttctggcctgcctggaCggcaagaccatcaagctcag	8	10	10	13	1	4	1	2	0	2	1	4	2	4	2	3	3	2	2	3	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:1712646C>T	uc004cqa.2	+	2	487	c.291C>T	c.(289-291)GAC>GAT	p.D97D	SFRS17A_uc010ncx.1_Silent_p.D97D|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'Flank	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	97	PKA-RI and PKA-RII subunit binding domain.				B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCTGCCTGGACGGCAAGACCA	0.592													80	248					0	0	1	0	0		T	1712646	T	T	1712646	2	4	84	1	0	0	0	0	0	0	0	1	14198	535	19	1		1	SFRS17A	23	1712646	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08		1712646	153557914	1470	53313											
DDX53	168400	broad.mit.edu	37	chrX	23018779	23018779	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggagaaaggaaaatttcaAcataacgtgtgatgacttga	16	10	10	5	1	1	4	1	3	0	1	1	6	1	5	0	2	2	0	0	2	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:23018779A>G	uc004daj.2	+	1	693	c.605A>G	c.(604-606)AAC>AGC	p.N202S		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	202						nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						GAAAATTTCAACATAACGTGT	0.383													20	32					0	0	1	0	0		G	23018779	G	G	23018779	3	3	84	1	0	0	0	0	1	0	0	0	4374	43	2	3	607	3	DDX53	23	23018779	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	21306133	23018779	132251781	1471	53314											
PRDX4	10549	broad.mit.edu	37	chrX	23685738	23685738	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actccggaccacggccgccaCcgaaggctgcttctgctgcc	6	6	11	18	4	1	0	0	0	1	0	2	2	2	1	6	3	3	3	6	3	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:23685738C>A	uc004dam.2	+	1	94	c.51C>A	c.(49-51)CAC>CAA	p.H17Q		NM_006406	NP_006397	Q13162	PRDX4_HUMAN	peroxiredoxin 4	17					cell redox homeostasis|I-kappaB phosphorylation		thioredoxin peroxidase activity			upper_aerodigestive_tract(1)	1						ACGGCCGCCACCGAAGgctgc	0.577													3	0					1	1	1	1	0		A	23685738	A	A	23685738	3	1	84	1	0	0	0	0	1	0	0	0	12489	506	18	5	53	5	PRDX4	23	23685738	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	666959	23685738	131584822	1472	53315											
DMD	1756	broad.mit.edu	37	chrX	32383293	32383293	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttcaggtgcaccttctgTttctcaatctctttttgagt	5	19	6	11	0	5	1	2	1	4	0	7	1	5	1	1	1	1	2	1	1	1	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:32383293T>C	uc004dda.1	-	35	5113	c.4869A>G	c.(4867-4869)AAA>AAG	p.K1623K	DMD_uc004dcw.2_Silent_p.K279K|DMD_uc004dcx.2_Silent_p.K282K|DMD_uc004dcz.2_Silent_p.K1500K|DMD_uc004dcy.1_Silent_p.K1619K|DMD_uc004ddb.1_Silent_p.K1615K|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1623	Spectrin 11.|Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GCACCTTCTGTTTCTCAATCT	0.413													19	19					0	0	1	0	0		C	32383293	C	C	32383293	2	2	84	1	0	0	0	0	0	0	0	1	4586	1722	60	3		3	DMD	23	32383293	Silent	SNP	T	TCGA-BR-8591-01A-11D-2394-08	8697555	32383293	122887267	1473	53316											
DMD	1756	broad.mit.edu	37	chrX	32481581	32481581	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacatgtgatcccactgaGtgttaagttctttgagttct	8	15	10	8	0	2	3	0	3	2	0	3	3	3	3	1	1	0	4	1	1	1	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:32481581G>T	uc004dda.1	-	25	3651	c.3407C>A	c.(3406-3408)ACT>AAT	p.T1136N	DMD_uc004dcz.2_Missense_Mutation_p.T1013N|DMD_uc004dcy.1_Missense_Mutation_p.T1132N|DMD_uc004ddb.1_Missense_Mutation_p.T1128N|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1136	Spectrin 7.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				ATCCCACTGAGTGTTAAGTTC	0.438													6	5					0.00116845	0.00119591	1	1	0		T	32481581	T	T	32481581	3	4	84	1	0	0	0	0	1	0	0	0	4586	1029	36	5	8113	5	DMD	23	32481581	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	98288	32481581	122788979	1474	53317											
CXorf59	286464	broad.mit.edu	37	chrX	36162895	36162896	+	Frame_Shift_Ins	INS	-	T	T																															tccctttggagcaggatgcaINStttttttctccttctgccct																								rs138216098	byFrequency	TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:36162895_36162896insT	uc004ddk.1	+	11	1664_1665	c.1478_1479insT	c.(1477-1479)CATfs	p.H493fs		NM_173695	NP_775966	Q8N9S7	CX059_HUMAN	hypothetical protein LOC286464	493						integral to membrane				central_nervous_system(1)	1						agcaggatgcatttttttctcc	0													3	6	---	---	---	---						.	T	36162896	T	T	36162895	7	5	84	1	0	1	1	0	0	0	0	0	4118	217	8	0	1516	0	CXorf59	23	36162895	Frame_Shift_Ins	INS	-	TCGA-BR-8591-01A-11D-2394-08	3681314	36162895	119107665	1475	53318											
GAGE1	2543	broad.mit.edu	37	chrX	49369669	49369669	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacaattgcttcttaaatCtttccccacggaaaccttga	12	13	5	11	1	2	2	0	2	2	0	3	3	3	3	3	1	3	1	3	1	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:49369669C>A	uc004dok.1	+	5	516	c.400C>A	c.(400-402)CTT>ATT	p.L134I	GAGE1_uc004doj.2_Missense_Mutation_p.L133I|GAGE1_uc004dol.1_Intron	NM_001468	NP_001459	Q13065	GAGE1_HUMAN	G antigen 1 isoform 1	134					cellular defense response						0	Ovarian(276;0.236)					CTTCTTAAATCTTTCCCCACG	0.284													14	20					1.3612e-06	1.43276e-06	1	1	0		A	49369669	A	A	49369669	3	1	84	1	0	0	0	0	1	0	0	0	6200	913	32	5	414	5	GAGE1	23	49369669	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	13206774	49369669	105900891	1476	53319											
AKAP4	8852	broad.mit.edu	37	chrX	49958701	49958701	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accagagaagatagtcggttGacgtagaaggaaaggtcatc	15	7	13	6	2	1	4	1	1	0	3	3	6	1	5	1	3	0	2	1	3	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:49958701G>A	uc004dow.1	-	5	787	c.663C>T	c.(661-663)GTC>GTT	p.V221V	AKAP4_uc004dov.1_Intron|AKAP4_uc010njp.1_Silent_p.V43V|AKAP4_uc004dou.1_Silent_p.V212V	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	221	PKA-RI and PKA-RII subunit binding domain (By similarity).				cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					ATAGTCGGTTGACGTAGAAGG	0.453													53	48					0	0	1	0	0		A	49958701	A	A	49958701	2	1	84	1	0	0	0	0	0	0	0	1	453	1277	45	4		4	AKAP4	23	49958701	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	589032	49958701	105311859	1477	53320											
AKAP4	8852	broad.mit.edu	37	chrX	49962241	49962241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtggacacatcgacaaagCatatctgcatcaaattagaa	16	8	9	8	1	2	1	1	0	1	1	3	3	2	2	0	2	2	2	0	2	5	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:49962241C>T	uc004dow.1	-	3	252	c.128G>A	c.(127-129)TGC>TAC	p.C43Y	AKAP4_uc004dov.1_Missense_Mutation_p.C34Y|AKAP4_uc010njp.1_5'UTR|AKAP4_uc004dou.1_Missense_Mutation_p.C34Y	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	43					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					ATCGACAAAGCATATCTGCAT	0.343													11	4					0	0	1	0	0		T	49962241	T	T	49962241	3	4	84	1	0	0	0	0	1	0	0	0	453	710	25	2	2452	2	AKAP4	23	49962241	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	3540	49962241	105308319	1478	53321											
DGKK	139189	broad.mit.edu	37	chrX	50213598	50213598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcggcggccaaggcggcGgaggctctggagactcagcg	6	3	20	12	6	2	1	1	0	1	1	2	3	2	2	1	8	1	1	1	8	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:50213598G>A	uc010njr.1	-	1	140	c.80C>T	c.(79-81)CCG>CTG	p.P27L		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	27					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					ccaaggcggcggaggcTCTGG	0.468													6	5					0	0	1	0	0		A	50213598	A	A	50213598	3	1	84	1	0	0	0	0	1	0	0	0	4478	1116	39	1	3846	1	DGKK	23	50213598	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	251357	50213598	105056962	1479	53322											
SHROOM4	57477	broad.mit.edu	37	chrX	50378665	50378665	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaccactgcacacacacGtcactgtaagacacagggca	14	4	9	14	1	1	1	1	0	0	1	1	2	1	2	1	2	1	3	1	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:50378665G>A	uc004dpe.2	-	4	434	c.408C>T	c.(406-408)GAC>GAT	p.D136D	SHROOM4_uc004dpd.3_RNA|SHROOM4_uc004dpf.1_Silent_p.D20D	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	136					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					GCACACACACGTCACTGTAAG	0.572													12	11					0	0	1	0	0		A	50378665	A	A	50378665	2	1	84	1	0	0	0	0	0	0	0	1	14321	1136	40	1		1	SHROOM4	23	50378665	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	165067	50378665	104891895	1480	53323											
MAGED1	9500	broad.mit.edu	37	chrX	51638632	51638632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgacctggccaacagcaggCctaagacccctttcaaggct	11	7	9	14	0	1	2	1	1	0	1	1	2	1	2	5	3	2	2	5	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:51638632C>T	uc004dpm.2	+	3	624	c.529C>T	c.(529-531)CCT>TCT	p.P177S	MAGED1_uc004dpn.2_Missense_Mutation_p.P233S|MAGED1_uc004dpo.2_Missense_Mutation_p.P177S|MAGED1_uc011mnx.1_Missense_Mutation_p.P108S	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	177					apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					CAACAGCAGGCCTAAGACCCC	0.517										Multiple Myeloma(10;0.10)			8	15					0	0	1	0	0		T	51638632	T	T	51638632	3	4	84	1	0	0	0	0	1	0	0	0	9201	739	26	2	707	2	MAGED1	23	51638632	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	1259967	51638632	103631928	1481	53324											
MAGED1	9500	broad.mit.edu	37	chrX	51641391	51641391	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccattgcagctgtcctctgGgaggcactacgcaagatggg	8	8	13	12	1	1	1	0	0	1	1	2	2	2	2	2	3	3	4	2	3	2	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:51641391G>A	uc004dpm.2	+	9	1844	c.1749G>A	c.(1747-1749)TGG>TGA	p.W583*	MAGED1_uc004dpn.2_Nonsense_Mutation_p.W639*|MAGED1_uc004dpo.2_Nonsense_Mutation_p.W583*	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	583	MAGE.				apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					CTGTCCTCTGGGAGGCACTAC	0.567										Multiple Myeloma(10;0.10)			31	22					0	0	1	0	0		A	51641391	A	A	51641391	4	1	84	1	0	0	0	0	0	1	0	0	9201	1241	43	4	1951	4	MAGED1	23	51641391	Nonsense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	2759	51641391	103629169	1482	53325											
SSX7	280658	broad.mit.edu	37	chrX	52677445	52677445	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggcttcttgggcatgAtctttataatgtgaaggtca	8	15	11	7	0	3	2	1	2	2	0	3	2	3	2	0	3	1	3	0	3	3	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:52677445A>C	uc004dqx.1	-	6	491	c.332T>G	c.(331-333)ATC>AGC	p.I111S		NM_173358	NP_775494	Q7RTT5	SSX7_HUMAN	synovial sarcoma, X breakpoint 7	111					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding			skin(1)	1	Ovarian(276;0.236)					CTTGGGCATGATCTTTATAAT	0.328													93	94					0	0	1	0	0		C	52677445	C	C	52677445	3	2	84	1	0	0	0	0	1	0	0	0	15234	347	12	5	242	5	SSX7	23	52677445	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	1036054	52677445	102593115	1483	53326											
KDM5C	8242	broad.mit.edu	37	chrX	53222308	53222309	+	Frame_Shift_Ins	INS	-	G	G																															cagtggtggggatgggtgcaINSggggggccctcacccccagt																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:53222308_53222309insG	uc004drz.2	-	26	5056_5057	c.4523_4524insC	c.(4522-4524)CCTfs	p.P1508fs	KDM5C_uc011moc.1_Intron|KDM5C_uc011mod.1_Intron|KDM5C_uc004dsa.2_Frame_Shift_Ins_p.P1507fs|uc004dsb.1_Intron	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	1508					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						GGATGGGTGCAGGGGGGCCCTC	0.658			N|F|S		clear cell renal carcinoma								17	13	---	---	---	---						.	G	53222309	G	G	53222308	7	5	84	1	0	1	1	0	0	0	0	0	8151	175	7	0	260	0	KDM5C	23	53222308	Frame_Shift_Ins	INS	-	TCGA-BR-8591-01A-11D-2394-08	544863	53222308	102048252	1484	53327											
KLF8	11279	broad.mit.edu	37	chrX	56291858	56291859	+	Frame_Shift_Ins	INS	-	C	C																															tgctacaagctccaatacgtINSccccccaagccacagtcttc																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:56291858_56291859insC	uc004dur.2	+	3	1273_1274	c.327_328insC	c.(325-330)CGTCCCfs	p.R109fs	KLF8_uc010nkg.2_Frame_Shift_Ins_p.R104fs|KLF8_uc011mop.1_Frame_Shift_Ins_p.R109fs|KLF8_uc010nkh.2_RNA	NM_007250	NP_009181	O95600	KLF8_HUMAN	Kruppel-like factor 8 isoform 1	109_110					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTCCAATACGTCCCCCCAAGCC	0.545													16	25	---	---	---	---						.	C	56291859	C	C	56291858	7	5	84	1	0	1	1	0	0	0	0	0	8368	1654	58	0	337	0	KLF8	23	56291858	Frame_Shift_Ins	INS	-	TCGA-BR-8591-01A-11D-2394-08	3069550	56291858	98978702	1485	53328											
FAM123B	139285	broad.mit.edu	37	chrX	63411525	63411525	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgccccaggtggccgggAggacaaaaagggctcaaagt	12	5	14	10	1	1	0	1	0	0	0	1	2	1	2	3	5	1	1	3	5	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:63411525A>G	uc004dvo.2	-	2	1915	c.1642T>C	c.(1642-1644)TCC>CCC	p.S548P		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	548					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						GGTGGCCGGGAGGACAAAAAG	0.532													5	46					0	0	1	0	0		G	63411525	G	G	63411525	3	3	84	1	0	0	0	0	1	0	0	0	5434	304	11	3	1769	3	FAM123B	23	63411525	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	7119667	63411525	91859035	1486	53329											
ZC3H12B	340554	broad.mit.edu	37	chrX	64708739	64708739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaagagtgcctccaaggaaGagaagcagcagcctaagcag	16	3	13	9	0	0	3	0	0	0	3	1	5	1	4	3	1	5	3	3	1	5	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:64708739G>A	uc010nko.2	+	1	34	c.25G>A	c.(25-27)GAG>AAG	p.E9K		NM_001010888	NP_001010888	Q5HYM0	ZC12B_HUMAN	zinc finger CCCH-type containing 12B	9							endonuclease activity|nucleic acid binding|zinc ion binding			lung(1)|kidney(1)|pancreas(1)	3						CTCCAAGGAAGAGAAGCAGCA	0.498													7	4					0	0	1	0	0		A	64708739	A	A	64708739	3	1	84	1	0	0	0	0	1	0	0	0	17587	943	33	4	60	4	ZC3H12B	23	64708739	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	1297214	64708739	90561821	1487	53330											
HEPH	9843	broad.mit.edu	37	chrX	65428058	65428058	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatggagtgctagaatctActactgtctggccactggct	8	12	10	11	0	3	1	1	0	2	1	3	2	3	2	1	3	3	2	1	3	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:65428058A>G	uc011moz.1	+	15	2602	c.2542A>G	c.(2542-2544)ACT>GCT	p.T848A	HEPH_uc004dwn.2_Missense_Mutation_p.T848A|HEPH_uc004dwo.2_Missense_Mutation_p.T578A|HEPH_uc010nkr.2_Missense_Mutation_p.T656A|HEPH_uc011mpa.1_Missense_Mutation_p.T848A|HEPH_uc010nks.2_Missense_Mutation_p.T137A	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	845	Extracellular (Potential).|Plastocyanin-like 5.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						GCTAGAATCTACTACTGTCTG	0.488													19	17					0	0	1	0	0		G	65428058	G	G	65428058	3	3	84	1	0	0	0	0	1	0	0	0	7070	391	14	3	2753	3	HEPH	23	65428058	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	719319	65428058	89842502	1488	53331											
NONO	4841	broad.mit.edu	37	chrX	70518613	70518613	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctcctgtgccagctggtAccccagctcctccaggacct	5	9	9	18	0	0	0	0	0	0	0	3	1	3	1	7	2	5	4	7	2	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:70518613A>C	uc004dzo.2	+	12	1938	c.1228A>C	c.(1228-1230)ACC>CCC	p.T410P	BCYRN1_uc011mpt.1_Intron|NONO_uc004dzn.2_Missense_Mutation_p.T410P|NONO_uc004dzp.2_Missense_Mutation_p.T410P|NONO_uc011mpv.1_Missense_Mutation_p.T321P|NONO_uc004dzq.2_Missense_Mutation_p.T279P	NM_001145408	NP_001138880	Q15233	NONO_HUMAN	non-POU domain containing, octamer-binding	410					DNA recombination|DNA repair|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nuclear matrix|paraspeckles	DNA binding|identical protein binding|nucleotide binding|RNA binding		NONO/TFE3(2)	ovary(2)|kidney(2)	4	Renal(35;0.156)					GCCAGCTGGTACCCCAGCTCC	0.493			T	TFE3	papillary renal cancer								3	7					0	0	1	0	0		C	70518613	C	C	70518613	3	2	84	1	0	0	0	0	1	0	0	0	10553	391	14	5	1262	5	NONO	23	70518613	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	5090555	70518613	84751947	1489	53332											
ATRX	546	broad.mit.edu	37	chrX	76855269	76855269	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggctataaattcatccatActgtcttcatcaaaataacc	15	12	4	10	0	4	0	3	0	1	0	5	1	5	0	2	1	2	1	2	1	7	6			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:76855269A>G	uc004ecp.3	-	24	5950	c.5718T>C	c.(5716-5718)AGT>AGC	p.S1906S	ATRX_uc004ecq.3_Silent_p.S1868S|ATRX_uc004eco.3_Silent_p.S1691S	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1906					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	ATTCATCCATACTGTCTTCAT	0.308			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						6	23					0	0	1	0	0		G	76855269	G	G	76855269	2	3	84	1	0	0	0	0	0	0	0	1	1209	388	14	3		3	ATRX	23	76855269	Silent	SNP	A	TCGA-BR-8591-01A-11D-2394-08	6336656	76855269	78415291	1490	53333											
PGK1	5230	broad.mit.edu	37	chrX	77359863	77359863	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttctaacaagctgacgcTggacaagctggacgttaaag	12	9	11	9	2	1	1	0	1	1	0	1	3	1	3	0	2	3	5	0	2	5	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:77359863T>G	uc004ecz.3	+	1	198	c.26T>G	c.(25-27)CTG>CGG	p.L9R	PGK1_uc010nlz.2_RNA|PGK1_uc011mqq.1_5'Flank	NM_000291	NP_000282	P00558	PGK1_HUMAN	phosphoglycerate kinase 1	9					gluconeogenesis|glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			upper_aerodigestive_tract(1)|ovary(1)	2						AAGCTGACGCTGGACAAGCTG	0.567													13	13					0	0	1	0	0		G	77359863	G	G	77359863	3	3	84	1	0	0	0	0	1	0	0	0	11809	1580	55	5	28	5	PGK1	23	77359863	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	504594	77359863	77910697	1491	53334											
RPS6KA6	27330	broad.mit.edu	37	chrX	83359598	83359598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacatttttgtttgagaataCggtcaagtaactctcctcct	11	15	6	9	1	2	1	1	1	1	1	4	2	3	1	2	1	3	2	2	1	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:83359598C>T	uc004eej.1	-	17	1600	c.1523G>A	c.(1522-1524)CGT>CAT	p.R508H	RPS6KA6_uc011mqt.1_Missense_Mutation_p.R508H|RPS6KA6_uc011mqu.1_Missense_Mutation_p.R405H	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	508	Protein kinase 2.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TTTGAGAATACGGTCAAGTAA	0.333													6	9					0	0	1	0	0		T	83359598	T	T	83359598	3	4	84	1	0	0	0	0	1	0	0	0	13680	536	19	1	738	1	RPS6KA6	23	83359598	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	5999735	83359598	71910962	1492	53335											
KLHL4	56062	broad.mit.edu	37	chrX	86888892	86888892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctagaagcacagttggtGttgttgcattaaacaacaag	13	11	9	8	0	0	1	0	0	0	1	1	1	1	1	1	1	4	5	1	1	6	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:86888892G>A	uc004efb.2	+	8	1875	c.1693G>A	c.(1693-1695)GTT>ATT	p.V565I	KLHL4_uc004efa.2_Missense_Mutation_p.V565I	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	565	Kelch 3.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CACAGTTGGTGTTGTTGCATT	0.418													14	17					0	0	1	0	0		A	86888892	A	A	86888892	3	1	84	1	0	0	0	0	1	0	0	0	8407	1377	48	4	1723	4	KLHL4	23	86888892	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3529294	86888892	68381668	1493	53336											
DIAPH2	1730	broad.mit.edu	37	chrX	96013243	96013243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttgtccagtatatttctGccactgccaaatctgtaagt	9	15	8	9	0	2	0	0	0	2	0	3	0	3	0	3	1	2	3	3	1	4	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:96013243G>A	uc004efu.3	+	4	829	c.433G>A	c.(433-435)GCC>ACC	p.A145T	DIAPH2_uc004eft.3_Missense_Mutation_p.A145T|DIAPH2_uc004efs.2_Missense_Mutation_p.A145T	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	145	GBD/FH3.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						GTATATTTCTGCCACTGCCAA	0.388													11	9					0	0	1	0	0		A	96013243	A	A	96013243	3	1	84	1	0	0	0	0	1	0	0	0	4525	1319	46	2	447	2	DIAPH2	23	96013243	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	9124351	96013243	59257317	1494	53337											
RPA4	29935	broad.mit.edu	37	chrX	96139267	96139267	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtccgtggagccccagaCgagccaaagcccaccttctc	8	5	10	18	3	1	1	0	0	1	1	3	3	2	2	7	1	3	0	7	1	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:96139267C>T	uc004efv.3	+	1	256	c.-42C>T	c.(-44--40)GACGA>GATGA		DIAPH2_uc004eft.3_Intron|DIAPH2_uc004efu.3_Intron|DIAPH2_uc004efs.2_Intron	NM_013347	NP_037479	Q13156	RFA4_HUMAN	replication protein A4, 34kDa						DNA damage checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair	DNA replication factor A complex|nucleoplasm	single-stranded DNA binding				0						GAGCCCCAGACGAGCCAAAGC	0.557								Other_identified_genes_with_known_or_suspected_DNA_repair_function					5	8					0	0	1	0	0		T	96139267	T	T	96139267	1	4	84	1	0	0	0	0	0	0	0	0	13564	551	19	1		1	RPA4	23	96139267	Translation_Start_Site	SNP	C	TCGA-BR-8591-01A-11D-2394-08	126024	96139267	59131293	1495	53338											
PCDH19	57526	broad.mit.edu	37	chrX	99663287	99663287	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgagctggacatgacctcGagcgagatgatgcacttggg	10	9	14	8	2	0	4	0	3	0	1	1	7	0	5	1	2	3	2	1	2	0	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:99663287G>A	uc010nmz.2	-	1	1985	c.309C>T	c.(307-309)CTC>CTT	p.L103L	PCDH19_uc004efw.3_Silent_p.L103L|PCDH19_uc004efx.3_Silent_p.L103L	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	103	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						ACATGACCTCGAGCGAGATGA	0.557													7	84					0	0	1	0	0		A	99663287	A	A	99663287	2	1	84	1	0	0	0	0	0	0	0	1	11533	1045	37	1		1	PCDH19	23	99663287	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	3524020	99663287	55607273	1496	53339											
TIMM8A	1678	broad.mit.edu	37	chrX	100601606	100601606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttcacaaaacaggcctcagCccgactgtccaactttggcc	10	8	8	15	1	2	0	2	0	0	0	3	1	3	0	4	2	3	1	4	2	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:100601606C>T	uc004ehd.2	-	2	480	c.175G>A	c.(175-177)GCT>ACT	p.A59T		NM_004085	NP_004076	O60220	TIM8A_HUMAN	translocase of inner mitochondrial membrane 8	59	Twin CX3C motif.				nervous system development|protein import into mitochondrial inner membrane|transmembrane transport	mitochondrial inner membrane|mitochondrial intermembrane space protein transporter complex	protein binding				0						CAGGCCTCAGCCCGACTGTCC	0.488													9	134					0	0	1	0	0		T	100601606	T	T	100601606	3	4	84	1	0	0	0	0	1	0	0	0	15939	739	26	2	122	2	TIMM8A	23	100601606	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	938319	100601606	54668954	1497	53340											
COL4A5	1287	broad.mit.edu	37	chrX	107867516	107867516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atcagggtttgcctggagacCcagggcaacctggactgagt	9	8	14	10	0	1	2	1	1	0	1	1	4	1	3	3	4	2	2	3	4	1	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:107867516C>T	uc004enz.1	+	34	3170	c.2968C>T	c.(2968-2970)CCA>TCA	p.P990S	COL4A5_uc011mso.1_Missense_Mutation_p.P990S|COL4A5_uc004eob.1_Missense_Mutation_p.P598S	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	990	Triple-helical region.		Missing (in APSX; adult type).		axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						GCCTGGAGACCCAGGGCAACC	0.468									Alport_syndrome_with_Diffuse_Leiomyomatosis				10	8					0	0	1	0	0		T	107867516	T	T	107867516	3	4	84	1	0	0	0	0	1	0	0	0	3697	623	22	4	3102	4	COL4A5	23	107867516	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	7265910	107867516	47403044	1498	53341											
AMOT	154796	broad.mit.edu	37	chrX	112054536	112054536	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccctctagcttgtttctcAtggctttctctagggcctct	3	16	8	14	1	4	0	1	0	4	0	6	0	4	0	2	2	1	3	2	2	2	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:112054536A>G	uc004epr.2	-	3	1478	c.1478T>C	c.(1477-1479)ATG>ACG	p.M493T	AMOT_uc004eps.2_Missense_Mutation_p.M84T|AMOT_uc004ept.1_Missense_Mutation_p.M493T	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	493	Potential.				actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						CTTGTTTCTCATGGCTTTCTC	0.478													55	58					0	0	1	0	0		G	112054536	G	G	112054536	3	3	84	1	0	0	0	0	1	0	0	0	582	217	8	3	1812	3	AMOT	23	112054536	Missense_Mutation	SNP	A	TCGA-BR-8591-01A-11D-2394-08	4187020	112054536	43216024	1499	53342											
ODZ1	10178	broad.mit.edu	37	chrX	123519752	123519752	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtcttggataaaagaagTgctactgtccggtggggtgt	10	12	14	5	1	1	1	0	0	1	1	2	2	2	2	1	4	2	1	1	4	5	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:123519752T>C	uc004euj.2	-	28	5894	c.5830A>G	c.(5830-5832)ACT>GCT	p.T1944A	ODZ1_uc011muj.1_Missense_Mutation_p.T1950A|ODZ1_uc010nqy.2_Missense_Mutation_p.T1951A	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1944	YD 10.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						ATAAAAGAAGTGCTACTGTCC	0.512													49	36					0	0	1	0	0		C	123519752	C	C	123519752	3	2	84	1	0	0	0	0	1	0	0	0	10853	1696	59	3	2363	3	ODZ1	23	123519752	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	11465216	123519752	31750808	1500	53343											
RAP2C	57826	broad.mit.edu	37	chrX	131351324	131351324	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcaccaactcctaccaGagggggggaaagatcacccc	12	5	9	15	0	2	2	2	0	0	2	3	3	3	3	6	3	2	0	6	3	3	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:131351324G>T	uc004ewp.2	-	2	757	c.-27C>A	c.(-29--25)CTCTG>CTATG		uc004ewr.1_5'Flank|RAP2C_uc004ewo.2_Translation_Start_Site|RAP2C_uc010nrk.2_RNA|RAP2C_uc004ewq.3_Translation_Start_Site	NM_021183	NP_067006	Q9Y3L5	RAP2C_HUMAN	RAP2C, member of RAS oncogene family precursor						negative regulation of cell migration|positive regulation of protein autophosphorylation|Rap protein signal transduction|regulation of protein tyrosine kinase activity	recycling endosome membrane	GTP binding|GTPase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					ACTCCTACCAGAGGGGGGGAA	0.488													7	129					0.0293803	0.0296527	1	1	0		T	131351324	T	T	131351324	1	4	84	1	0	0	0	0	0	0	0	0	13067	957	33	5		5	RAP2C	23	131351324	Translation_Start_Site	SNP	G	TCGA-BR-8591-01A-11D-2394-08	7831572	131351324	23919236	1501	53344											
HS6ST2	90161	broad.mit.edu	37	chrX	131762868	131762868	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagagaggttgtagcagcCtaccagggtcaggtcggaga	11	6	16	8	1	1	2	1	0	0	2	2	5	1	2	2	4	3	3	2	4	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:131762868C>A	uc011mve.1	-	4	1617	c.1201G>T	c.(1201-1203)GGC>TGC	p.G401C	HS6ST2_uc011mvb.1_Missense_Mutation_p.G295C|HS6ST2_uc011mvc.1_Missense_Mutation_p.G255C|HS6ST2_uc011mvd.1_Missense_Mutation_p.G441C|HS6ST2_uc011mva.1_Missense_Mutation_p.G127C	NM_147175	NP_671704	Q96MM7	H6ST2_HUMAN	heparan sulfate 6-O-sulfotransferase 2 isoform	401	Lumenal (Potential).					integral to membrane	sulfotransferase activity				0	Acute lymphoblastic leukemia(192;0.000127)					TTGTAGCAGCCTACCAGGGTC	0.532													24	39					3.08376e-08	3.2997e-08	1	1	0		A	131762868	A	A	131762868	3	1	84	1	0	0	0	0	1	0	0	0	7387	681	24	5	620	5	HS6ST2	23	131762868	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	411544	131762868	23507692	1502	53345											
USP26	83844	broad.mit.edu	37	chrX	132161205	132161205	+	Frame_Shift_Del	DEL	A	-	-																															tctatattataggtatctttAaaaaaaagtagccgtgccaa																								rs61758857		TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:132161205delA	uc010nrm.1	-	6	1514	c.1044delT	c.(1042-1044)TTTfs	p.F348fs	USP26_uc011mvf.1_Frame_Shift_Del_p.F348fs	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	348					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					AGGTATCTTTAAAAAAAAGTA	0.388													19	27	---	---	---	---						.	-	132161205	-	-	132161205	7	5	84	1	0	1	0	1	0	0	0	0	17083	359	13	0	1700	0	USP26	23	132161205	Frame_Shift_Del	DEL	A	TCGA-BR-8591-01A-11D-2394-08	398337	132161205	23109355	1503	53346											
GPC3	2719	broad.mit.edu	37	chrX	132888179	132888179	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattggtgtagttcttggcaTggcgaacaacaatttcaaag	12	12	10	7	1	2	0	1	0	1	0	2	1	2	0	0	3	2	3	0	3	5	5			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:132888179T>C	uc004exe.1	-	3	552	c.362A>G	c.(361-363)CAT>CGT	p.H121R	GPC3_uc004exd.1_5'UTR|GPC3_uc010nrn.1_Missense_Mutation_p.H121R|GPC3_uc011mvh.1_Missense_Mutation_p.H105R|GPC3_uc010nro.1_Missense_Mutation_p.H67R|GPC3_uc010nrp.1_5'UTR	NM_004484	NP_004475	P51654	GPC3_HUMAN	glypican 3 isoform 2 precursor	121						extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding|peptidyl-dipeptidase inhibitor activity			lung(2)|prostate(1)|breast(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					GTTCTTGGCATGGCGAACAAC	0.363			T|D|Mis|N|F|S			Wilms tumour			Simpson-Golabi-Behmel_syndrome				30	26					0	0	1	0	0		C	132888179	C	C	132888179	3	2	84	1	0	0	0	0	1	0	0	0	6614	1464	51	3	1477	3	GPC3	23	132888179	Missense_Mutation	SNP	T	TCGA-BR-8591-01A-11D-2394-08	726974	132888179	22382381	1504	53347											
GPR112	139378	broad.mit.edu	37	chrX	135431510	135431510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccaacctctgcttatgacttCctggaacatacccacagctg	10	10	6	15	0	1	1	0	1	1	0	2	2	2	2	4	1	5	2	4	1	4	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:135431510C>T	uc004ezu.1	+	6	5936	c.5645C>T	c.(5644-5646)TCC>TTC	p.S1882F	GPR112_uc010nsb.1_Missense_Mutation_p.S1677F|GPR112_uc010nsc.1_Missense_Mutation_p.S1649F	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1882	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					CTTATGACTTCCTGGAACATA	0.433													6	61					0	0	1	0	0		T	135431510	T	T	135431510	3	4	84	1	0	0	0	0	1	0	0	0	6644	855	30	4	5655	4	GPR112	23	135431510	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	2543331	135431510	19839050	1505	53348											
ARHGEF6	9459	broad.mit.edu	37	chrX	135763009	135763009	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcctggttgttgttacaatGgaccacaattctctccactg	8	14	8	11	0	1	0	0	0	1	0	4	1	3	1	3	2	1	3	3	2	3	4			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:135763009G>T	uc004fab.2	-	15	2047	c.1585C>A	c.(1585-1587)CAT>AAT	p.H529N	ARHGEF6_uc011mwd.1_Missense_Mutation_p.H402N|ARHGEF6_uc011mwe.1_Missense_Mutation_p.H375N	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	529	PH.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					TTGTTACAATGGACCACAATT	0.433													12	75					0.00010058	0.000104044	1	1	0		T	135763009	T	T	135763009	3	4	84	1	0	0	0	0	1	0	0	0	910	1348	47	5	777	5	ARHGEF6	23	135763009	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	331499	135763009	19507551	1506	53349											
IDS	3423	broad.mit.edu	37	chrX	148579680	148579680	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcttatgatacccaacGgccaggaagaaaggactggc	12	7	13	9	1	0	2	0	1	0	1	0	4	0	4	2	5	2	1	2	5	5	2			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:148579680G>A	uc011mxe.1	-	5	864	c.666C>T	c.(664-666)GCC>GCT	p.A222A	IDS_uc011mxf.1_Silent_p.A132A|IDS_uc011mxg.1_Silent_p.A11A|IDS_uc010nsu.1_Intron|IDS_uc004fcw.3_Silent_p.A11A|IDS_uc011mxh.1_Silent_p.A222A|IDS_uc011mxi.1_RNA	NM_000202	NP_000193	P22304	IDS_HUMAN	iduronate-2-sulfatase isoform a precursor	222						lysosome	iduronate-2-sulfatase activity|metal ion binding				0	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					GATACCCAACGGCCAGGAAGA	0.512													32	32					0	0	1	0	0		A	148579680	A	A	148579680	2	1	84	1	0	0	0	0	0	0	0	1	7519	1103	39	1		1	IDS	23	148579680	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	12816671	148579680	6690880	1507	53350											
SRPK3	26576	broad.mit.edu	37	chrX	153050931	153050931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtacatccccgaaaagcggGccagtgccgctgactgcctc	9	6	11	15	3	0	1	0	1	0	0	2	2	1	1	5	1	4	2	5	1	3	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:153050931G>A	uc004fil.2	+	15	1692	c.1660G>A	c.(1660-1662)GCC>ACC	p.A554T	SRPK3_uc004fik.2_Missense_Mutation_p.A620T|SRPK3_uc010nul.2_Missense_Mutation_p.A478T|SRPK3_uc004fin.2_Missense_Mutation_p.A553T|SRPK3_uc004fim.2_Missense_Mutation_p.A520T	NM_014370	NP_055185	Q9UPE1	SRPK3_HUMAN	serine arginine rich protein-specific kinase 3	554	Protein kinase.				cell differentiation|muscle organ development|muscle tissue development		ATP binding|protein serine/threonine kinase activity			pancreas(2)|lung(1)	3	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CGAAAAGCGGGCCAGTGCCGC	0.617													52	59					0	0	1	0	0		A	153050931	A	A	153050931	3	1	84	1	0	0	0	0	1	0	0	0	15186	1203	42	2	1718	2	SRPK3	23	153050931	Missense_Mutation	SNP	G	TCGA-BR-8591-01A-11D-2394-08	4471251	153050931	2219629	1508	53351											
PDZD4	57595	broad.mit.edu	37	chrX	153073928	153073928	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accagctgcaggtcgtgacaGgagctgtccccccggaggcg	7	5	15	14	3	0	1	0	1	0	0	2	3	1	3	4	4	3	3	4	4	0	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:153073928G>A	uc004fiz.1	-	2	433	c.183C>T	c.(181-183)TCC>TCT	p.S61S	PDZD4_uc004fiy.1_5'UTR|PDZD4_uc004fix.2_5'UTR|PDZD4_uc004fja.1_Silent_p.S61S|PDZD4_uc011mze.1_Intron	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	61						cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGTCGTGACAGGAGCTGTCCC	0.662													14	18					0	0	1	0	0		A	153073928	A	A	153073928	2	1	84	1	0	0	0	0	0	0	0	1	11722	987	35	4		4	PDZD4	23	153073928	Silent	SNP	G	TCGA-BR-8591-01A-11D-2394-08	22997	153073928	2196632	1509	53352											
HCFC1	3054	broad.mit.edu	37	chrX	153220508	153220508	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcagtgttggtggtgccCgtctcgtgggtctcgcaggg	2	11	19	9	3	2	0	0	0	2	0	4	0	2	0	1	5	1	3	1	5	0	1			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:153220508C>T	uc004fjp.2	-	17	3870	c.3342G>A	c.(3340-3342)ACG>ACA	p.T1114T		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1114	HCF repeat 3.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TGGTGGTGCCCGTCTCGTGGG	0.567													16	12					0	0	1	0	0		T	153220508	T	T	153220508	2	4	84	1	0	0	0	0	0	0	0	1	7007	639	23	1		1	HCFC1	23	153220508	Silent	SNP	C	TCGA-BR-8591-01A-11D-2394-08	146580	153220508	2050052	1510	53353											
FLNA	2316	broad.mit.edu	37	chrX	153587361	153587361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacactcacctttgggccCttgcactttgacctgcaatg	9	11	7	14	0	1	1	1	1	0	0	1	1	1	1	3	1	3	2	3	1	2	3			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:153587361C>T	uc004fkk.2	-	26	4714	c.4465G>A	c.(4465-4467)GGG>AGG	p.G1489R	FLNA_uc011mzn.1_5'Flank|FLNA_uc010nuu.1_Missense_Mutation_p.G1489R	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1489	Filamin 13.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCTTTGGGCCCTTGCACTTTG	0.617													69	67					0	0	1	0	0		T	153587361	T	T	153587361	3	4	84	1	0	0	0	0	1	0	0	0	5947	681	24	4	3570	4	FLNA	23	153587361	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	366853	153587361	1683199	1511	53354											
RPL10	6134	broad.mit.edu	37	chrX	153631740	153631740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgcaaggcccagggacCgagggctgccatccactcct	8	5	13	15	1	0	0	0	0	0	0	2	3	2	2	5	4	2	2	5	4	1	0			TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrX:153631740C>T	uc004fkr.1	+	3	439	c.404C>T	c.(403-405)CCG>CTG	p.P135L	RPL10_uc004fkq.1_RNA|DNASE1L1_uc004fks.1_Intron|DNASE1L1_uc004fkt.1_Intron|DNASE1L1_uc004fku.1_Intron|DNASE1L1_uc004fkv.1_Intron|DNASE1L1_uc004fkw.1_Intron	NM_006013	NP_006004	P27635	RL10_HUMAN	ribosomal protein L10	Error:Variant_position_missing_in_P27635_after_alignment					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|endoplasmic reticulum	structural constituent of ribosome				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GCCCAGGGACCGAGGGCTGCC	0.627													21	18					0	0	1	0	0		T	153631740	T	T	153631740	3	4	84	1	0	0	0	0	1	0	0	0	13579	667	23	1		1	RPL10	23	153631740	Missense_Mutation	SNP	C	TCGA-BR-8591-01A-11D-2394-08	44379	153631740	1638820	1512	53355											
USP9Y	8287	broad.mit.edu	37	chrY	14847611	14847611	+	Frame_Shift_Del	DEL	T	-	-																															ttccagattttgcatgatcgTttttttaatggatcagcatt																										TCGA-BR-8591-01A-11D-2394-08	TCGA-BR-8591-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d807764-06c1-4711-b3ba-939e11723d45	bd35fe5b-c91a-4e25-b964-9c173673af02	g.chrY:14847611delT	uc004fst.1	+	8	1668	c.723delT	c.(721-723)CGTfs	p.R241fs	USP9Y_uc010nwu.1_RNA	NM_004654	NP_004645	O00507	USP9Y_HUMAN	ubiquitin specific protease 9, Y-linked	241					BMP signaling pathway|protein deubiquitination|spermatogenesis|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						TGCATGATCGTTTTTTTAATG	0.279													10	8	---	---	---	---						.	-	14847611	-	-	14847611	7	5	84	1	0	1	0	1	0	0	0	0	17117	1712	60	0	745	0	USP9Y	24	14847611	Frame_Shift_Del	DEL	T	TCGA-BR-8591-01A-11D-2394-08		14847611	44525955	1513	53356											
C1orf93	127281	broad.mit.edu	37	chr1	2520061	2520061	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggctgctggtggtcagcAaaggtgggtcgagggagggg	7	6	23	5	1	1	0	1	0	0	0	2	3	1	1	0	8	2	3	0	8	1	0			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr1:2520061A>C	uc001aju.1	+	5	533	c.457A>C	c.(457-459)AAA>CAA	p.K153Q	C1orf93_uc001ajw.1_Missense_Mutation_p.K153Q|C1orf93_uc001ajv.1_Missense_Mutation_p.K171Q|C1orf93_uc010nzd.1_Silent_p.A159A|C1orf93_uc010nze.1_Intron|C1orf93_uc010nzf.1_Intron|C1orf93_uc001ajx.1_Missense_Mutation_p.Q36P	NM_152371	NP_689584	Q8TBF2	PGFS_HUMAN	hypothetical protein LOC127281	153					prostaglandin biosynthetic process	cytosol	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor			central_nervous_system(1)	1	all_cancers(77;0.000167)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.97e-16)|all_lung(118;3.05e-07)|Lung NSC(185;2.8e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Lung SC(97;0.109)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)		Epithelial(90;4.76e-38)|OV - Ovarian serous cystadenocarcinoma(86;6.19e-23)|GBM - Glioblastoma multiforme(42;1.13e-08)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.00205)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.199)		GGTGGTCAGCAAAGGTGGGTC	0.637													42	129					0	0	0.006999	0	0		C	2520061	C	C	2520061	3	2	85	1	0	0	0	0	1	0	0	0	2073	131	5	5	475	5	C1orf93	1	2520061	Missense_Mutation	SNP	A	TCGA-BR-8676-01A-11D-2394-08		2520061	246730560	1	53357											
CHD5	26038	broad.mit.edu	37	chr1	6202574	6202574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccctgggcccaagagaagCgcagccagttgaggccctcc	8	5	13	15	1	0	2	0	1	0	1	1	3	1	2	5	2	3	2	5	2	2	1			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr1:6202574C>T	uc001amb.1	-	14	2235	c.2135G>A	c.(2134-2136)CGC>CAC	p.R712H	CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	712	Helicase ATP-binding.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		CCAAGAGAAGCGCAGCCAGTT	0.612													24	70					0	0	0.00278	0	0		T	6202574	T	T	6202574	3	4	85	1	0	0	0	0	1	0	0	0	3331	768	27	1	3841	1	CHD5	1	6202574	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	3682513	6202574	243048047	2	53358											
CROCC	9696	broad.mit.edu	37	chr1	17250856	17250856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagatggcatcgctgctgtCgctgcaggaggagaaccagc	10	6	15	10	2	0	2	0	0	0	2	2	5	0	3	1	3	4	5	1	3	1	0	rs142411267	by1000genomes	TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr1:17250856C>T	uc001azt.2	+	3	302	c.233C>T	c.(232-234)TCG>TTG	p.S78L	CROCC_uc009voy.1_Intron|CROCC_uc009voz.1_Intron	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	78	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		TCGCTGCTGTCGCTGCAGGAG	0.647													13	52					0	0	0.001855	0	0		T	17250856	T	T	17250856	3	4	85	1	0	0	0	0	1	0	0	0	3896	893	31	1	243	1	CROCC	1	17250856	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	11048282	17250856	231999765	3	53359											
ZBTB40	9923	broad.mit.edu	37	chr1	22828817	22828817	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaggagggaaagaccttGtctgttctgttactagaaca	13	10	11	7	0	2	3	0	0	2	3	2	5	2	5	1	2	2	2	1	2	4	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr1:22828817G>T	uc001bft.2	+	6	1561	c.1050G>T	c.(1048-1050)TTG>TTT	p.L350F	ZBTB40_uc001bfu.2_Missense_Mutation_p.L350F|ZBTB40_uc009vqi.1_Intron|ZBTB40_uc001bfv.1_5'UTR	NM_001083621	NP_001077090	Q9NUA8	ZBT40_HUMAN	zinc finger and BTB domain containing 40	350					bone mineralization|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.86e-26)|Colorectal(126;8.55e-08)|COAD - Colon adenocarcinoma(152;4.1e-06)|GBM - Glioblastoma multiforme(114;1.39e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000712)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.216)		GAAAGACCTTGTCTGTTCTGT	0.453													15	31					1.05317e-09	1.18356e-09	0.00245	1	0		T	22828817	T	T	22828817	3	4	85	1	0	0	0	0	1	0	0	0	17567	1368	48	5	1064	5	ZBTB40	1	22828817	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	5577961	22828817	226421804	4	53360											
ZSCAN20	7579	broad.mit.edu	37	chr1	33960894	33960894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accagaggattcatacgggaGagaagccgtataagtgcaga	15	6	13	7	2	1	3	1	0	0	3	1	6	1	5	2	2	3	2	2	2	4	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr1:33960894G>A	uc001bxj.3	+	8	3117	c.2950G>A	c.(2950-2952)GAG>AAG	p.E984K	ZSCAN20_uc009vui.2_Missense_Mutation_p.E983K	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	984					viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				TCATACGGGAGAGAAGCCGTA	0.473													11	58					0	0	0.010729	0	0		A	33960894	A	A	33960894	3	1	85	1	0	0	0	0	1	0	0	0	18257	943	33	4	2976	4	ZSCAN20	1	33960894	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	11132077	33960894	215289727	5	53361											
PDE4B	5142	broad.mit.edu	37	chr1	66821300	66821300	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatacatttcaaatactttcTtaggtaagatattaactggg	15	15	6	5	0	2	1	1	0	1	1	2	1	2	1	0	2	3	1	0	2	8	8			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr1:66821300T>C	uc001dcn.2	+	9	1029	c.838T>C	c.(838-840)TTA>CTA	p.L280L	PDE4B_uc009war.2_Silent_p.L188L|PDE4B_uc001dco.2_Silent_p.L280L|PDE4B_uc001dcp.2_Silent_p.L265L|PDE4B_uc001dcq.2_Silent_p.L108L|PDE4B_uc009was.2_Silent_p.L47L	NM_001037341	NP_001032418	Q07343	PDE4B_HUMAN	phosphodiesterase 4B isoform 1	280					signal transduction	cytosol|insoluble fraction|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Adenosine monophosphate(DB00131)|Amrinone(DB01427)|Caffeine(DB00201)|Cilostazol(DB01166)|Dyphylline(DB00651)|Enprofylline(DB00824)|Papaverine(DB01113)|Pentoxifylline(DB00806)|Theophylline(DB00277)	AAATACTTTCTTAGGTAAGAT	0.388													5	20					0	0	0.000602	0	0		C	66821300	C	C	66821300	2	2	85	1	0	0	0	0	0	0	0	1	11659	1606	56	3		3	PDE4B	1	66821300	Silent	SNP	T	TCGA-BR-8676-01A-11D-2394-08	32860406	66821300	182429321	6	53362											
MCOLN3	55283	broad.mit.edu	37	chr1	85510984	85510984	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgtttgctggttaaaattGcagcgattttcctcttcatg	8	17	9	7	1	2	0	1	0	1	0	3	2	3	0	1	1	3	4	1	1	2	6			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr1:85510984G>A	uc001dkp.2	-	2	153	c.60C>T	c.(58-60)TGC>TGT	p.C20C	MCOLN3_uc001dkq.2_Silent_p.C20C|MCOLN3_uc001dkr.2_Silent_p.C20C|MCOLN3_uc001dks.3_5'UTR	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	20						integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		GGTTAAAATTGCAGCGATTTT	0.403													20	48					0	0	0.014323	0	0		A	85510984	A	A	85510984	2	1	85	1	0	0	0	0	0	0	0	1	9415	1311	46	2		2	MCOLN3	1	85510984	Silent	SNP	G	TCGA-BR-8676-01A-11D-2394-08	18689684	85510984	163739637	7	53363											
TCHH	7062	broad.mit.edu	37	chr1	152084187	152084187	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgccttagttgctgctcgcgCctctcctgctgctcgcgcct	1	12	10	18	5	1	0	0	0	1	0	4	0	1	0	4	0	4	5	4	0	1	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr1:152084187C>T	uc001ezp.2	-	2	1506	c.1506G>A	c.(1504-1506)AGG>AGA	p.R502R	TCHH_uc009wne.1_Silent_p.R502R	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	502	9 X 28 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTGCTCGCGCCTCTCCTGCT	0.522													12	208					0	0	0.010729	0	0		T	152084187	T	T	152084187	2	4	85	1	0	0	0	0	0	0	0	1	15725	738	26	2		2	TCHH	1	152084187	Silent	SNP	C	TCGA-BR-8676-01A-11D-2394-08	66573203	152084187	97166434	8	53364											
CRABP2	1382	broad.mit.edu	37	chr1	156675185	156675185	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacccagcactttgagcaaTtcctcgaagttttccgatcg	9	13	7	12	3	0	1	0	1	0	0	4	3	2	1	3	0	3	3	3	0	3	5			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr1:156675185T>A	uc001fpr.2	-	1	191	c.54A>T	c.(52-54)GAA>GAT	p.E18D		NM_001878	NP_001869	P29373	RABP2_HUMAN	cellular retinoic acid binding protein 2	18					epidermis development|regulation of transcription, DNA-dependent|signal transduction	cytoplasm|nucleus	retinal binding|retinol binding|transporter activity			upper_aerodigestive_tract(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)				Alitretinoin(DB00523)	CTTTGAGCAATTCCTCGAAGT	0.592													42	100					0	0	0.01441	0	0		A	156675185	A	A	156675185	3	1	85	1	0	0	0	0	1	0	0	0	3847	1490	52	5	378	5	CRABP2	1	156675185	Missense_Mutation	SNP	T	TCGA-BR-8676-01A-11D-2394-08	4590998	156675185	92575436	9	53365											
SYT14	255928	broad.mit.edu	37	chr1	210329223	210329223	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtgataaaaggcagccActtcaaaaatttggcagcaa	18	7	9	7	0	1	2	1	1	0	1	1	2	1	2	1	2	2	3	1	2	6	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr1:210329223A>C	uc009xcv.2	+	7	1394	c.1322A>C	c.(1321-1323)CAC>CCC	p.H441P	SYT14_uc001hhs.3_Missense_Mutation_p.H486P|SYT14_uc001hht.3_Missense_Mutation_p.H441P|SYT14_uc001hhu.3_RNA|SYT14_uc010psn.1_Missense_Mutation_p.H486P|SYT14_uc010pso.1_Missense_Mutation_p.H403P	NM_153262	NP_694994	Q8NB59	SYT14_HUMAN	synaptotagmin XIV isoform 4	441	Cytoplasmic (Potential).|C2 2.					integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)		AAAGGCAGCCACTTCAAAAAT	0.388													17	56					0	0	0.00499	0	0		C	210329223	C	C	210329223	3	2	85	1	0	0	0	0	1	0	0	0	15495	159	6	5	1487	5	SYT14	1	210329223	Missense_Mutation	SNP	A	TCGA-BR-8676-01A-11D-2394-08	53654038	210329223	38921398	10	53366											
KCNH1	3756	broad.mit.edu	37	chr1	211192300	211192300	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggtagttcatgcggataAgtttggggtcagaaatcacc	11	11	12	7	1	4	1	4	0	0	1	4	2	4	2	1	4	1	3	1	4	3	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr1:211192300A>T	uc001hib.2	-	6	1027	c.857T>A	c.(856-858)CTT>CAT	p.L286H	KCNH1_uc001hic.2_Missense_Mutation_p.L286H	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	286	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		CATGCGGATAAGTTTGGGGTC	0.443													29	94					0	0	0.007291	0	0		T	211192300	T	T	211192300	3	4	85	1	0	0	0	0	1	0	0	0	8047	72	3	5	2136	5	KCNH1	1	211192300	Missense_Mutation	SNP	A	TCGA-BR-8676-01A-11D-2394-08	863077	211192300	38058321	11	53367											
GJC2	57165	broad.mit.edu	37	chr1	228346653	228346653	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccggacgggcagtgctacCtctgcgggcactgtcgggga	5	7	16	13	4	1	0	0	0	1	0	3	2	2	2	2	5	3	3	2	5	1	1			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr1:228346653C>G	uc001hsk.2	+	2	1369	c.1194C>G	c.(1192-1194)ACC>ACG	p.T398T		NM_020435	NP_065168	Q5T442	CXG2_HUMAN	gap junction protein, gamma 2, 47kDa	398	Cytoplasmic (Potential).				cell death	connexon complex|integral to membrane					0		Prostate(94;0.0405)				GCAGTGCTACCTCTGCGGGCA	0.776													5	22					0	0	0.000602	0	0		G	228346653	G	G	228346653	2	3	85	1	0	0	0	0	0	0	0	1	6430	668	24	5		5	GJC2	1	228346653	Silent	SNP	C	TCGA-BR-8676-01A-11D-2394-08	17154353	228346653	20903968	12	53368											
SLC4A1AP	22950	broad.mit.edu	37	chr2	27887266	27887266	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacgcagtgctgcagcacaGggcgtccggccctgacggag	7	4	15	15	4	0	1	0	1	0	0	1	2	1	2	3	3	3	4	3	3	0	0			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr2:27887266G>C	uc002rlk.3	+	1	929	c.647G>C	c.(646-648)AGG>ACG	p.R216T	SUPT7L_uc002rlh.1_5'Flank|SUPT7L_uc002rli.1_5'Flank|SUPT7L_uc010ymf.1_5'Flank|SUPT7L_uc002rlj.1_5'Flank|SUPT7L_uc010ezh.1_5'Flank	NM_018158	NP_060628	Q9BWU0	NADAP_HUMAN	solute carrier family 4 (anion exchanger),	216	FHA.					cytoplasm|nucleus	double-stranded RNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)					CTGCAGCACAGGGCGTCCGGC	0.597													25	68					0	0	0.005443	0	0		C	27887266	C	C	27887266	3	2	85	1	0	0	0	0	1	0	0	0	14678	1000	35	5	649	5	SLC4A1AP	2	27887266	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08		27887266	215312107	13	53369											
LRP1B	53353	broad.mit.edu	37	chr2	141272252	141272252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcactttcatctaacccatCcccacagtcatcttctccat	9	13	2	17	0	6	0	3	0	3	0	8	0	7	0	4	0	1	0	4	0	1	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr2:141272252C>T	uc002tvj.1	-	51	9211	c.8239G>A	c.(8239-8241)GAT>AAT	p.D2747N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2747	Extracellular (Potential).|LDL-receptor class A 16.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TCTAACCCATCCCCACAGTCA	0.363										TSP Lung(27;0.18)			14	66					0	0	0.00499	0	0		T	141272252	T	T	141272252	3	4	85	1	0	0	0	0	1	0	0	0	8973	855	30	4	5724	4	LRP1B	2	141272252	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	113384986	141272252	101927121	14	53370											
CPS1	1373	broad.mit.edu	37	chr2	211540487	211540487	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccacatcagactggctcaaCgccaacaatgtccctgccac	11	6	7	17	1	2	1	2	0	0	1	3	1	3	1	4	1	3	1	4	1	3	0			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr2:211540487C>T	uc002vee.3	+	36	4329	c.4197C>T	c.(4195-4197)AAC>AAT	p.N1399N	CPS1_uc010fur.2_Silent_p.N1405N|CPS1_uc010fus.2_Silent_p.N948N	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1399					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		ACTGGCTCAACGCCAACAATG	0.438													22	45					0	0	0.00278	0	0		T	211540487	T	T	211540487	2	4	85	1	0	0	0	0	0	0	0	1	3826	535	19	1		1	CPS1	2	211540487	Silent	SNP	C	TCGA-BR-8676-01A-11D-2394-08	70268235	211540487	31658886	15	53371											
TNS1	7145	broad.mit.edu	37	chr2	218712774	218712774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctgggaggctgctcgCgggaactcagggagactggg	6	7	18	10	2	1	1	1	0	0	1	3	4	2	3	1	5	3	3	1	5	1	0	rs138064979	byFrequency	TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr2:218712774C>T	uc002vgt.2	-	17	2489	c.2091G>A	c.(2089-2091)CCG>CCA	p.P697P	TNS1_uc002vgr.2_Silent_p.P697P|TNS1_uc002vgs.2_Silent_p.P697P|TNS1_uc010zjv.1_Silent_p.P697P|TNS1_uc010fvj.1_Silent_p.P765P|TNS1_uc010fvk.1_Silent_p.P822P|TNS1_uc010fvi.1_Silent_p.P384P	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	697						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		AGGCTGCTCGCGGGAACTCAG	0.602													11	51					0	0	0.010729	0	0		T	218712774	T	T	218712774	2	4	85	1	0	0	0	0	0	0	0	1	16368	755	27	1		1	TNS1	2	218712774	Silent	SNP	C	TCGA-BR-8676-01A-11D-2394-08	7172287	218712774	24486599	16	53372											
CDCP1	64866	broad.mit.edu	37	chr3	45152099	45152099	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggctgcttgtcctccAgcttgaacacctcggggttg	5	11	11	14	1	0	1	0	1	0	0	4	1	3	1	4	3	3	4	4	3	1	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr3:45152099A>G	uc003com.2	-	4	1025	c.890T>C	c.(889-891)CTG>CCG	p.L297P	CDCP1_uc003con.2_Missense_Mutation_p.L297P	NM_022842	NP_073753	Q9H5V8	CDCP1_HUMAN	CUB domain-containing protein 1 isoform 1	297	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		CTTGTCCTCCAGCTTGAACAC	0.572													42	117					0	0	0.01441	0	0		G	45152099	G	G	45152099	3	3	85	1	0	0	0	0	1	0	0	0	3096	188	7	3	1652	3	CDCP1	3	45152099	Missense_Mutation	SNP	A	TCGA-BR-8676-01A-11D-2394-08		45152099	152870331	17	53373											
CELSR3	1951	broad.mit.edu	37	chr3	48696662	48696662	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccacaatcacatattcttGgcgagcctcatagtctaggt	11	11	7	12	1	4	0	2	0	2	0	4	1	4	0	2	2	1	0	2	2	4	5			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr3:48696662G>A	uc003cul.2	-	1	3687	c.3406C>T	c.(3406-3408)CAA>TAA	p.Q1136*	CELSR3_uc003cuf.1_Nonsense_Mutation_p.Q1206*	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1136	Extracellular (Potential).|Cadherin 8.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		ACATATTCTTGGCGAGCCTCA	0.537													28	94					0	0	0.00632	0	0		A	48696662	A	A	48696662	4	1	85	1	0	0	0	0	0	1	0	0	3226	1357	47	4	6672	4	CELSR3	3	48696662	Nonsense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	3544563	48696662	149325768	18	53374											
ARHGAP31	57514	broad.mit.edu	37	chr3	119087339	119087339	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcccaaccccctcctgacTtatgagctctatgagaaatt	10	11	6	14	0	1	3	0	3	1	1	2	4	2	3	4	0	3	1	4	0	4	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr3:119087339T>G	uc003ecj.3	+	3	856	c.324T>G	c.(322-324)ACT>ACG	p.T108T		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	108	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						CCCTCCTGACTTATGAGCTCT	0.483													15	46					0	0	0.007413	0	0		G	119087339	G	G	119087339	2	3	85	1	0	0	0	0	0	0	0	1	880	1596	56	5		5	ARHGAP31	3	119087339	Silent	SNP	T	TCGA-BR-8676-01A-11D-2394-08	70390677	119087339	78935091	19	53375											
CP	1356	broad.mit.edu	37	chr3	148897410	148897410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatcctctgttccagctccaGatctttctgggattttccat	7	16	6	12	0	3	1	0	0	3	1	7	2	7	2	4	1	1	2	4	1	1	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr3:148897410G>A	uc003ewy.3	-	15	2847	c.2594C>T	c.(2593-2595)TCT>TTT	p.S865F	CP_uc011bnr.1_RNA|CP_uc003eww.3_Missense_Mutation_p.S17F|CP_uc003ewx.3_Missense_Mutation_p.S646F|CP_uc003ewz.2_Missense_Mutation_p.S865F	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	865	Plastocyanin-like 5.|F5/8 type A 3.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	TCCAGCTCCAGATCTTTCTGG	0.333													19	43					0	0	0.014323	0	0		A	148897410	A	A	148897410	3	1	85	1	0	0	0	0	1	0	0	0	3790	942	33	4	623	4	CP	3	148897410	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	29810071	148897410	49125020	20	53376			1	20		2	2	12	G		3.340091e-05
CP	1356	broad.mit.edu	37	chr3	148897421	148897421	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccagctccagatctttctggGattttccatacgtaagtgag	9	13	9	10	1	2	2	0	1	2	1	4	3	4	3	3	1	2	2	3	1	2	5			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr3:148897421G>C	uc003ewy.3	-	15	2836	c.2583C>G	c.(2581-2583)ATC>ATG	p.I861M	CP_uc011bnr.1_RNA|CP_uc003eww.3_Missense_Mutation_p.I13M|CP_uc003ewx.3_Missense_Mutation_p.I642M|CP_uc003ewz.2_Missense_Mutation_p.I861M	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	861	Plastocyanin-like 5.|F5/8 type A 3.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	ATCTTTCTGGGATTTTCCATA	0.308													17	40					0	0	0.010504	0	0		C	148897421	C	C	148897421	3	2	85	1	0	0	0	0	1	0	0	0	3790	1164	41	5	634	5	CP	3	148897421	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	11	148897421	49125009	21	53377			1	20		2	2	12	G		3.340091e-05
IGSF10	285313	broad.mit.edu	37	chr3	151164364	151164364	+	Frame_Shift_Del	DEL	T	-	-																															actgcaccagttggagtcacTtgggaaatttcagtcctgaa																										TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr3:151164364delT	uc011bod.1	-	4	3405	c.3405delA	c.(3403-3405)CAAfs	p.Q1135fs		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1135					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TTGGAGTCACTTGGGAAATTT	0.418													237	184	---	---	---	---						.	-	151164364	-	-	151164364	7	5	85	1	0	1	0	1	0	0	0	0	7613	1606	56	0	4526	0	IGSF10	3	151164364	Frame_Shift_Del	DEL	T	TCGA-BR-8676-01A-11D-2394-08	2266943	151164364	46858066	22	53378											
GHSR	2693	broad.mit.edu	37	chr3	172165518	172165518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgagactgtagaggaccGtgagacagaagacaggaagg	15	4	16	6	2	0	5	0	2	0	5	0	10	0	7	1	3	0	1	1	3	3	1			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr3:172165518G>A	uc003fib.1	-	1	686	c.686C>T	c.(685-687)ACG>ATG	p.T229M	GHSR_uc011bpv.1_Missense_Mutation_p.T229M	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	229	Helical; Name=5; (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			GTAGAGGACCGTGAGACAGAA	0.612													50	72					0	0	0.01441	0	0		A	172165518	A	A	172165518	3	1	85	1	0	0	0	0	1	0	0	0	6390	1145	40	1	496	1	GHSR	3	172165518	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	21001154	172165518	25856912	23	53379											
PIK3CA	5290	broad.mit.edu	37	chr3	178928079	178928079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggccagtacctcatggattaGaagatttgctgaaccctatt	11	12	9	9	0	1	3	1	1	0	2	1	4	1	4	3	2	3	2	3	2	5	5			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr3:178928079G>A	uc003fjk.2	+	8	1514	c.1357G>A	c.(1357-1359)GAA>AAA	p.E453K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	453	C2 PI3K-type.		E -> Q (in cancer; shows an increase in lipid kinase activity; may disrupt the interaction of the C2 PI3K-type domain with the iSH2 region of the p85 regulatory subunit).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E453K(5)|p.E453Q(1)|p.E453A(1)|p.P449_L455del(1)|p.G451_L456>V(1)|p.E453del(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCATGGATTAGAAGATTTGCT	0.348		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			72	61					0	0	0.01441	0	0		A	178928079	A	A	178928079	3	1	85	1	0	0	0	0	1	0	0	0	11932	943	33	4	1383	4	PIK3CA	3	178928079	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	6762561	178928079	19094351	24	53380											
PIK3CA	5290	broad.mit.edu	37	chr3	178936082	178936082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctacacgagatcctctctctGaaatcactgagcaggagaaa	14	8	8	11	1	3	4	1	2	2	2	5	6	4	4	1	1	2	1	1	1	3	1	rs121913273		TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr3:178936082G>A	uc003fjk.2	+	10	1781	c.1624G>A	c.(1624-1626)GAA>AAA	p.E542K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	542	PI3K helical.		E -> V (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation).|E -> Q (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E542K(481)|p.E542V(8)|p.E542Q(6)|p.E542G(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCCTCTCTCTGAAATCACTGA	0.333	E542K(SW948_LARGE_INTESTINE)|E542K(T84_LARGE_INTESTINE)|E542K(CAL51_BREAST)|E542K(JHUEM1_ENDOMETRIUM)|E542K(NCIH1341_LUNG)|E542K(VMCUB1_URINARY_TRACT)|E542K(BT483_BREAST)|E542K(HGC27_STOMACH)|E542K(IM95_STOMACH)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			39	32					0	0	0.007835	0	0		A	178936082	A	A	178936082	3	1	85	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1658	4	PIK3CA	3	178936082	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	8003	178936082	19086348	25	53381											
EVC	2121	broad.mit.edu	37	chr4	5798905	5798905	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggaacagcgtgcactggaGcaggggtcctcccagtgcct	7	6	15	13	2	0	0	0	0	0	0	2	2	2	2	3	4	5	2	3	4	1	0			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr4:5798905G>T	uc003gil.1	+	14	2227	c.2043G>T	c.(2041-2043)GAG>GAT	p.E681D	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	681					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				GTGCACTGGAGCAGGGGTCCT	0.677													14	36					1.05317e-09	1.18356e-09	0.00245	1	0		T	5798905	T	T	5798905	3	4	85	1	0	0	0	0	1	0	0	0	5293	962	34	5	2097	5	EVC	4	5798905	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08		5798905	185355371	26	53382											
PDGFRA	5156	broad.mit.edu	37	chr4	55161419	55161419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcatagactcttcagacctgGtggaagacagcttcctgtaa	11	10	10	10	0	2	3	1	0	1	3	3	4	3	4	2	2	1	3	2	2	3	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr4:55161419G>A	uc003han.3	+	23	3581	c.3250G>A	c.(3250-3252)GTG>ATG	p.V1084M	PDGFRA_uc003haa.2_Missense_Mutation_p.V844M	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	1084	Ser-rich.|Cytoplasmic (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	TTCAGACCTGGTGGAAGACAG	0.512			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			8	132					0	0	0.004482	0	0		A	55161419	A	A	55161419	3	1	85	1	0	0	0	0	1	0	0	0	11680	1261	44	4	3336	4	PDGFRA	4	55161419	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	49362514	55161419	135992857	27	53383											
PRDM5	11107	broad.mit.edu	37	chr4	121702362	121702362	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacatagctcacacctatacTtcttgtgtctttcatgaacc	10	15	4	12	0	4	1	2	1	2	0	4	1	4	1	2	0	4	1	2	0	5	7			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr4:121702362T>G	uc003idn.2	-	12	1629	c.1379A>C	c.(1378-1380)AAG>ACG	p.K460T	PRDM5_uc003ido.2_Missense_Mutation_p.K429T|PRDM5_uc010ine.2_Missense_Mutation_p.K429T	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	460					histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						ACACCTATACTTCTTGTGTCT	0.393													20	52					0	0	0.010504	0	0		G	121702362	G	G	121702362	3	3	85	1	0	0	0	0	1	0	0	0	12482	1609	56	5	533	5	PRDM5	4	121702362	Missense_Mutation	SNP	T	TCGA-BR-8676-01A-11D-2394-08	66540943	121702362	69451914	28	53384											
FAT4	79633	broad.mit.edu	37	chr4	126389829	126389829	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgacaaccagacaggcgAccgggctgagtttttggccc	9	8	12	12	2	0	3	0	2	0	1	0	4	0	3	3	3	1	2	3	3	2	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr4:126389829A>G	uc003ifj.3	+	11	12062	c.12062A>G	c.(12061-12063)GAC>GGC	p.D4021G	FAT4_uc011cgp.1_Missense_Mutation_p.D2284G|FAT4_uc003ifi.1_Missense_Mutation_p.D1499G	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4021	Laminin G-like 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAGACAGGCGACCGGGCTGAG	0.403													32	62					0	0	0.012213	0	0		G	126389829	G	G	126389829	3	3	85	1	0	0	0	0	1	0	0	0	5706	275	10	3	12104	3	FAT4	4	126389829	Missense_Mutation	SNP	A	TCGA-BR-8676-01A-11D-2394-08	4687467	126389829	64764447	29	53385											
PCDH10	57575	broad.mit.edu	37	chr4	134072673	134072673	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcggatgtgaacgacaacGcgccgcgtttcagccagccg	8	7	13	13	7	1	1	1	1	0	0	2	3	1	2	3	1	4	1	3	1	2	1			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr4:134072673G>A	uc003iha.2	+	1	2204	c.1378G>A	c.(1378-1380)GCG>ACG	p.A460T	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.A460T	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	460	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GAACGACAACGCGCCGCGTTT	0.617													73	174					0	0	0.01441	0	0		A	134072673	A	A	134072673	3	1	85	1	0	0	0	0	1	0	0	0	11526	1087	38	1	1380	1	PCDH10	4	134072673	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	7682844	134072673	57081603	30	53386											
DCHS2	54798	broad.mit.edu	37	chr4	155254497	155254497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcaggctggggcgctgcCgagctgcgcctgcaccgtga	4	6	17	14	4	0	1	0	1	0	0	0	2	0	1	3	3	5	6	3	3	0	0			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr4:155254497C>T	uc003inw.2	-	9	1366	c.1366G>A	c.(1366-1368)GGC>AGC	p.G456S	DCHS2_uc003inx.2_Missense_Mutation_p.G955S	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	456	Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GGGGCGCTGCCGAGCTGCGCC	0.597													32	107					0	0	0.003755	0	0		T	155254497	T	T	155254497	3	4	85	1	0	0	0	0	1	0	0	0	4291	652	23	1	7548	1	DCHS2	4	155254497	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	21181824	155254497	35899779	31	53387											
FGA	2243	broad.mit.edu	37	chr4	155507816	155507816	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctaactccattctcatctgCggcatgtctgttaatgcctt	7	16	6	12	1	4	0	1	0	4	0	6	0	5	0	2	1	3	2	2	1	2	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr4:155507816C>T	uc003iod.1	-	5	823	c.765G>A	c.(763-765)CCG>CCA	p.P255P	FGA_uc003ioe.1_Silent_p.P255P|FGA_uc003iof.1_Intron	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	255	By similarity.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	TTCTCATCTGCGGCATGTCTG	0.493													40	138					0	0	0.006999	0	0		T	155507816	T	T	155507816	2	4	85	1	0	0	0	0	0	0	0	1	5844	755	27	1		1	FGA	4	155507816	Silent	SNP	C	TCGA-BR-8676-01A-11D-2394-08	253319	155507816	35646460	32	53388											
MAP9	79884	broad.mit.edu	37	chr4	156294393	156294393	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agattcagagaaagattttaCaacaatgtcttcacacccat	16	11	5	9	0	3	3	2	0	1	3	3	4	3	3	1	0	2	0	1	0	4	4	rs145558165		TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr4:156294393C>A	uc003ios.2	-	4	640	c.376G>T	c.(376-378)GTA>TTA	p.V126L	MAP9_uc011cin.1_Missense_Mutation_p.V126L|MAP9_uc010iqa.1_RNA|MAP9_uc003iot.1_Missense_Mutation_p.V126L|MAP9_uc010iqb.1_Missense_Mutation_p.V54L	NM_001039580	NP_001034669	Q49MG5	MAP9_HUMAN	aster-associated protein	126					cell division|mitosis	cytoplasm|microtubule|spindle				ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.143)		AAAGATTTTACAACAATGTCT	0.338													25	45					6.21321e-17	7.259e-17	0.00278	1	0		A	156294393	A	A	156294393	3	1	85	1	0	0	0	0	1	0	0	0	9288	478	17	5	1611	5	MAP9	4	156294393	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	786577	156294393	34859883	33	53389											
IRX1	79192	broad.mit.edu	37	chr5	3599908	3599908	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagccccaggactcgcccttGggcctggcaaaggaggcccc	8	4	13	16	1	0	0	0	0	0	0	1	2	0	2	6	5	1	1	6	5	2	1			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr5:3599908G>T	uc003jde.2	+	2	898	c.846G>T	c.(844-846)TTG>TTT	p.L282F		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	282						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						ACTCGCCCTTGGGCCTGGCAA	0.746													7	17					0.00198382	0.0020716	0.001984	1	0		T	3599908	T	T	3599908	3	4	85	1	0	0	0	0	1	0	0	0	7859	1339	47	5	852	5	IRX1	5	3599908	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08		3599908	177315352	34	53390											
SEMA5A	9037	broad.mit.edu	37	chr5	9380056	9380056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctataacacaggttcccttCatggtgggcaaggggcctct	8	10	12	11	0	2	0	1	0	1	0	3	0	3	0	2	5	1	3	2	5	3	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr5:9380056C>T	uc003jek.2	-	3	715	c.3G>A	c.(1-3)ATG>ATA	p.M1I		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	1					cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						AGGTTCCCTTCATGGTGGGCA	0.547													32	83					0	0	0.012213	0	0		T	9380056	T	T	9380056	3	4	85	1	0	0	0	0	1	0	0	0	14062	826	29	4	3305	4	SEMA5A	5	9380056	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	5780148	9380056	171535204	35	53391											
CDH18	1016	broad.mit.edu	37	chr5	19473796	19473796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagggctcttttttgctgcGcctcagggtgataaaaagta	10	12	11	8	1	2	1	1	1	1	0	2	1	2	1	1	2	2	3	1	2	5	5			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr5:19473796G>A	uc003jgc.2	-	12	2289	c.1912C>T	c.(1912-1914)CGC>TGC	p.R638C	CDH18_uc003jgd.2_Missense_Mutation_p.R638C|CDH18_uc011cnm.1_3'UTR	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	638	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TTTTTGCTGCGCCTCAGGGTG	0.433													65	181					0	0	0.01441	0	0		A	19473796	A	A	19473796	3	1	85	1	0	0	0	0	1	0	0	0	3106	1087	38	1	464	1	CDH18	5	19473796	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	10093740	19473796	161441464	36	53392											
RXFP3	51289	broad.mit.edu	37	chr5	33936946	33936946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcccggaccttctggaggCggccaacacgagtggtaacg	8	6	15	12	4	1	0	0	0	1	0	2	3	2	2	3	6	2	1	3	6	2	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr5:33936946C>T	uc003jic.1	+	1	458	c.101C>T	c.(100-102)GCG>GTG	p.A34V		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	34	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CTTCTGGAGGCGGCCAACACG	0.647													56	106					0	0	0.01441	0	0		T	33936946	T	T	33936946	3	4	85	1	0	0	0	0	1	0	0	0	13786	768	27	1	103	1	RXFP3	5	33936946	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	14463150	33936946	146978314	37	53393											
GABRA6	2559	broad.mit.edu	37	chr5	161128646	161128646	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acccccaccactctcgccagCctttggaggcaccagtaaaa	11	6	7	17	1	1	0	0	0	1	0	2	1	1	1	6	2	1	2	6	2	2	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr5:161128646C>A	uc003lyu.2	+	9	1567	c.1229C>A	c.(1228-1230)GCC>GAC	p.A410D	GABRA6_uc003lyv.2_Missense_Mutation_p.A181D	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	410	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CTCTCGCCAGCCTTTGGAGGC	0.468										TCGA Ovarian(5;0.080)			32	68					1.74807e-11	2.00264e-11	0.010818	1	0		A	161128646	A	A	161128646	3	1	85	1	0	0	0	0	1	0	0	0	6179	739	26	5	1263	5	GABRA6	5	161128646	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	127191700	161128646	19786614	38	53394											
NSD1	64324	broad.mit.edu	37	chr5	176719013	176719013	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagaagaagcaacagggaaAgcgcaggacccagggtgaaa	18	1	14	8	1	0	3	0	1	0	2	0	5	0	5	1	3	3	2	1	3	6	0			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr5:176719013A>T	uc003mfr.3	+	22	6455	c.6317A>T	c.(6316-6318)AAG>ATG	p.K2106M	NSD1_uc003mft.3_Missense_Mutation_p.K1837M|NSD1_uc011dfx.1_Missense_Mutation_p.K1754M	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	2106					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		CAACAGGGAAAGCGCAGGACC	0.478			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			3	23					0	0	0.004672	0	0		T	176719013	T	T	176719013	3	4	85	1	0	0	0	0	1	0	0	0	10688	72	3	5	6399	5	NSD1	5	176719013	Missense_Mutation	SNP	A	TCGA-BR-8676-01A-11D-2394-08	15590367	176719013	4196247	39	53395											
HNRNPAB	3182	broad.mit.edu	37	chr5	177637620	177637620	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagaataactacaagccatActgaggcggcagcaggagcg	14	5	12	10	2	1	2	1	1	0	1	1	3	1	3	1	3	6	2	1	3	5	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr5:177637620A>C	uc003miu.2	+	8	1252	c.995A>C	c.(994-996)TAC>TCC	p.Y332S	HNRNPAB_uc003miv.2_Missense_Mutation_p.Y285S|HNRNPAB_uc010jks.2_Missense_Mutation_p.Y283S|HNRNPAB_uc003miw.2_Missense_Mutation_p.Y332S|HNRNPAB_uc003mix.2_Missense_Mutation_p.Y285S|AGXT2L2_uc003miy.2_Intron|AGXT2L2_uc003mjc.2_Intron|AGXT2L2_uc003miz.2_Intron|AGXT2L2_uc003mja.2_Intron|AGXT2L2_uc003mjb.2_Intron	NM_031266	NP_112556	Q99729	ROAA_HUMAN	heterogeneous nuclear ribonucleoprotein A/B	332					epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding				0						TACAAGCCATACTGAGGCGGC	0.428													18	29					0	0	0.007413	0	0		C	177637620	C	C	177637620	3	2	85	1	0	0	0	0	1	0	0	0	7277	391	14	5	1021	5	HNRNPAB	5	177637620	Missense_Mutation	SNP	A	TCGA-BR-8676-01A-11D-2394-08	918607	177637620	3277640	40	53396											
GABBR1	2550	broad.mit.edu	37	chr6	29591798	29591798	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtggcttggcctggatCacactgaaagacaagaggag	11	8	14	8	0	1	3	1	1	0	2	1	5	1	5	1	5	0	1	1	5	2	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr6:29591798C>A	uc003nmt.3	-	7	997	c.661G>T	c.(661-663)GAT>TAT	p.D221Y	GABBR1_uc003nmp.3_Missense_Mutation_p.D104Y|GABBR1_uc003nms.3_Missense_Mutation_p.D104Y|GABBR1_uc003nmu.3_Missense_Mutation_p.D159Y|GABBR1_uc011dlr.1_Missense_Mutation_p.D44Y|GABBR1_uc011dls.1_Missense_Mutation_p.D221Y	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	221	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	TGGCCTGGATCACACTGAAAG	0.517													14	37					2.31682e-05	2.50812e-05	0.003163	1	0		A	29591798	A	A	29591798	3	1	85	1	0	0	0	0	1	0	0	0	6169	826	29	5	2292	5	GABBR1	6	29591798	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08		29591798	141523269	41	53397											
ZNF716	441234	broad.mit.edu	37	chr7	57528997	57528997	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgaagaacgtggcaaagTctttagccgctcaacactta	13	10	9	9	2	2	2	1	1	1	1	2	2	2	2	1	1	3	2	1	1	6	3	rs10272498	by1000genomes	TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr7:57528997T>C	uc011kdi.1	+	4	942	c.830T>C	c.(829-831)GTC>GCC	p.V277A		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						CGTGGCAAAGTCTTTAGCCGC	0.423													4	24					0	0	0.009096	0	0		C	57528997	C	C	57528997	3	2	85	1	0	0	0	0	1	0	0	0	18144	1667	58	3	844	3	ZNF716	7	57528997	Missense_Mutation	SNP	T	TCGA-BR-8676-01A-11D-2394-08		57528997	101609666	42	53398											
COL1A2	1278	broad.mit.edu	37	chr7	94056548	94056548	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagatggtcgcactggaCatcctggtacagttggacct	11	9	12	9	1	0	1	0	0	0	1	2	4	1	3	2	4	1	3	2	4	3	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr7:94056548C>A	uc003ung.1	+	48	3679	c.3208C>A	c.(3208-3210)CAT>AAT	p.H1070N	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1070					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TCGCACTGGACATCCTGGTAC	0.542										HNSCC(75;0.22)			6	33					2.0095e-06	2.19556e-06	0.001984	1	0		A	94056548	A	A	94056548	3	1	85	1	0	0	0	0	1	0	0	0	3681	478	17	5	3398	5	COL1A2	7	94056548	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	36527551	94056548	65082115	43	53399											
SPAM1	6677	broad.mit.edu	37	chr7	123594445	123594445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagcagtctcctgtagctgCtacactctatgtgcgcaatc	8	12	8	13	1	3	0	1	0	2	0	5	0	3	0	1	0	5	5	1	0	4	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr7:123594445C>T	uc003vld.2	+	4	1223	c.821C>T	c.(820-822)GCT>GTT	p.A274V	SPAM1_uc003vle.2_Missense_Mutation_p.A274V|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.A274V|SPAM1_uc010lku.2_Missense_Mutation_p.A274V	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	274					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	CCTGTAGCTGCTACACTCTAT	0.423													25	80					0	0	0.00333	0	0		T	123594445	T	T	123594445	3	4	85	1	0	0	0	0	1	0	0	0	15011	797	28	2	823	2	SPAM1	7	123594445	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	29537897	123594445	35544218	44	53400											
SSPO	23145	broad.mit.edu	37	chr7	149489292	149489292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattggccctgcggcagccCgggtaagggggctctgggcc	4	7	18	12	2	1	1	0	1	1	0	1	1	1	1	3	6	2	3	3	6	1	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr7:149489292C>T	uc010lpk.2	+	37	5537	c.5537C>T	c.(5536-5538)CCG>CTG	p.P1846L		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	1846	EGF-like 1.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TGCGGCAGCCCGGGTAAGGGG	0.667													6	30					0	0	0.00308	0	0		T	149489292	T	T	149489292	3	4	85	1	0	0	0	0	1	0	0	0	15214	652	23	1	5675	1	SSPO	7	149489292	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	25894847	149489292	9649371	45	53401											
MLL3	58508	broad.mit.edu	37	chr7	151878863	151878863	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggtgtcaacaagggtcGtgcatatgagtcaggtatcc	10	10	13	8	1	2	1	2	1	0	0	4	1	3	1	1	3	3	3	1	3	4	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr7:151878863G>A	uc003wla.2	-	36	6301	c.6082C>T	c.(6082-6084)CGA>TGA	p.R2028*	MLL3_uc003wkz.2_Nonsense_Mutation_p.R1089*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2028	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		AACAAGGGTCGTGCATATGAG	0.473			N		medulloblastoma								35	91					0	0	0.013726	0	0		A	151878863	A	A	151878863	4	1	85	1	0	0	0	0	0	1	0	0	9640	1153	40	1	8749	1	MLL3	7	151878863	Nonsense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	2389571	151878863	7259800	46	53402											
MLL3	58508	broad.mit.edu	37	chr7	151970925	151970925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacagcatttgatagtggCtccaaggtgcttacaaaatg	12	12	9	8	0	1	1	1	1	0	0	2	1	2	1	1	2	3	3	1	2	5	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr7:151970925C>T	uc003wla.2	-	7	1096	c.877G>A	c.(877-879)GCC>ACC	p.A293T		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	293					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTGATAGTGGCTCCAAGGTGC	0.418			N		medulloblastoma								10	83					0	0	0.006214	0	0		T	151970925	T	T	151970925	3	4	85	1	0	0	0	0	1	0	0	0	9640	797	28	2	14070	2	MLL3	7	151970925	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	92062	151970925	7167738	47	53403											
PRKDC	5591	broad.mit.edu	37	chr8	48743232	48743232	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatgtcaggaaggtctccGtgccggtagcttctgtacag	8	11	13	9	2	3	1	1	1	2	0	4	2	3	2	2	3	3	3	2	3	4	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr8:48743232G>A	uc003xqi.2	-	62	8388	c.8331C>T	c.(8329-8331)CAC>CAT	p.H2777H	PRKDC_uc003xqj.2_Silent_p.H2777H|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2777	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				GAAGGTCTCCGTGCCGGTAGC	0.502								NHEJ					50	70					0	0	0.01441	0	0		A	48743232	A	A	48743232	2	1	85	1	0	0	0	0	0	0	0	1	12543	1136	40	1		1	PRKDC	8	48743232	Silent	SNP	G	TCGA-BR-8676-01A-11D-2394-08		48743232	97620790	48	53404											
DPYS	1807	broad.mit.edu	37	chr8	105405182	105405182	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgccctcgaaaatgttgaAgttaacagcctgatgatgag	13	10	10	8	1	0	4	0	4	0	0	1	5	0	4	2	0	3	2	2	0	4	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr8:105405182A>C	uc003yly.3	-	8	1402	c.1273T>G	c.(1273-1275)TTC>GTC	p.F425V	DPYS_uc010mcf.1_5'UTR	NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	425					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			AAAATGTTGAAGTTAACAGCC	0.423													28	115					0	0	0.007291	0	0		C	105405182	C	C	105405182	3	2	85	1	0	0	0	0	1	0	0	0	4752	72	3	5	294	5	DPYS	8	105405182	Missense_Mutation	SNP	A	TCGA-BR-8676-01A-11D-2394-08	56661950	105405182	40958840	49	53405											
ZFP41	286128	broad.mit.edu	37	chr8	144332286	144332286	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccctatgagtgcagtgaGtgtgggcggatctttaagca	11	10	13	7	1	1	2	0	2	1	0	1	3	1	3	1	2	3	2	1	2	3	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr8:144332286G>A	uc003yxw.2	+	2	631	c.273G>A	c.(271-273)GAG>GAA	p.E91E	ZFP41_uc003yxv.2_RNA	NM_173832	NP_776193	Q8N8Y5	ZFP41_HUMAN	zinc finger protein 41 homolog	91	C2H2-type 1.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.6e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			AGTGCAGTGAGTGTGGGCGGA	0.517													33	118					0	0	0.013726	0	0		A	144332286	A	A	144332286	2	1	85	1	0	0	0	0	0	0	0	1	17674	1020	36	4		4	ZFP41	8	144332286	Silent	SNP	G	TCGA-BR-8676-01A-11D-2394-08	38927104	144332286	2031736	50	53406											
FRMD3	257019	broad.mit.edu	37	chr9	86004624	86004624	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aactgccctttggtttccctCtgcaaaggaagcacatttaa	11	12	7	11	0	1	0	0	0	1	0	2	1	2	1	2	2	4	3	2	2	4	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr9:86004624C>G	uc004ams.1	-	2	350	c.148_splice	c.e2-1	p.R50_splice	FRMD3_uc004amr.1_Splice_Site_p.R36_splice	NM_174938	NP_777598	A2A2Y4	FRMD3_HUMAN	FERM domain containing 3							cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2						TGGTTTCCCTCTGCAAAGGAA	0.488													15	30					0	0	0.003163	0	0		G	86004624	G	G	86004624	5	3	85	1	0	0	0	0	0	0	1	0	6064	927	32	5	1698	5	FRMD3	9	86004624	Splice_Site	SNP	C	TCGA-BR-8676-01A-11D-2394-08		86004624	55208807	51	53407											
FCN1	2219	broad.mit.edu	37	chr9	137804877	137804877	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacggtccagccccctccGtccgtgtccatgtcacagag	6	8	9	18	3	2	1	2	0	0	1	6	1	6	1	6	1	1	0	6	1	0	0	rs141558545		TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr9:137804877G>A	uc004cfi.2	-	6	545	c.453C>T	c.(451-453)GAC>GAT	p.D151D		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	151	Fibrinogen C-terminal.				opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		AGCCCCCTCCGTCCGTGTCCA	0.647													5	17					0	0	0.004482	0	0		A	137804877	A	A	137804877	2	1	85	1	0	0	0	0	0	0	0	1	5805	1136	40	1		1	FCN1	9	137804877	Silent	SNP	G	TCGA-BR-8676-01A-11D-2394-08	51800253	137804877	3408554	52	53408											
KIAA1984	84960	broad.mit.edu	37	chr9	139699029	139699029	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggctcaaccagcagaagAagctgatcgacaagatccac	15	4	9	13	2	1	4	1	1	0	3	3	5	2	4	3	1	3	3	3	1	4	0			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr9:139699029A>C	uc004cjf.2	+	7	790	c.742A>C	c.(742-744)AAG>CAG	p.K248Q	LOC100131193_uc004cjg.1_RNA	NM_001039374	NP_001034463	Q5T5S1	K1984_HUMAN	hypothetical protein LOC84960	248										ovary(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.33e-06)|Epithelial(140;0.000124)		CCAGCAGAAGAAGCTGATCGA	0.637													27	44					0	0	0.005443	0	0		C	139699029	C	C	139699029	3	2	85	1	0	0	0	0	1	0	0	0	8282	247	9	5	768	5	KIAA1984	9	139699029	Missense_Mutation	SNP	A	TCGA-BR-8676-01A-11D-2394-08	1894152	139699029	1514402	53	53409											
KIAA1217	56243	broad.mit.edu	37	chr10	24832059	24832059	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaaagggtctaaaatctCaggcctgcaatactctatac	16	9	6	10	0	3	0	1	0	3	0	4	0	3	0	1	2	4	1	1	2	8	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr10:24832059C>A	uc001iru.3	+	19	4263	c.3860C>A	c.(3859-3861)TCA>TAA	p.S1287*	KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron|KIAA1217_uc001irw.2_Intron|KIAA1217_uc001irz.2_Intron|KIAA1217_uc001irx.2_Nonsense_Mutation_p.S970*|KIAA1217_uc001iry.2_Intron|KIAA1217_uc001isa.1_Nonsense_Mutation_p.S123*	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	1287					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						TCTAAAATCTCAGGCCTGCAA	0.428													18	40					1.00905e-13	1.16733e-13	0.008871	1	0		A	24832059	A	A	24832059	4	1	85	1	0	0	0	0	0	1	0	0	8232	838	29	5	3934	5	KIAA1217	10	24832059	Nonsense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08		24832059	110702688	54	53410											
ARHGAP21	57584	broad.mit.edu	37	chr10	24880828	24880828	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacttacgtgctggatgagCgtttctacaatcttgtactg	9	14	10	8	2	2	1	0	1	2	0	2	3	2	2	0	1	6	3	0	1	5	5			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr10:24880828C>A	uc001isb.2	-	22	4477	c.3990G>T	c.(3988-3990)ACG>ACT	p.T1330T	ARHGAP21_uc010qdb.1_RNA	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	1329	Rho-GAP.				signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						GCTGGATGAGCGTTTCTACAA	0.458													34	123					2.42023e-17	2.85587e-17	0.003271	1	0		A	24880828	A	A	24880828	2	1	85	1	0	0	0	0	0	0	0	1	871	755	27	5		5	ARHGAP21	10	24880828	Silent	SNP	C	TCGA-BR-8676-01A-11D-2394-08	48769	24880828	110653919	55	53411											
FRMPD2	143162	broad.mit.edu	37	chr10	49482599	49482599	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaatacctgcgtccttcgtTaaaggctgcatccaaaagtc	11	10	9	11	2	0	0	0	0	0	0	4	1	2	1	3	2	3	3	3	2	6	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr10:49482599T>C	uc001jgi.2	-	1	119	c.12A>G	c.(10-12)TTA>TTG	p.L4L	FRMPD2_uc001jgj.2_Silent_p.L4L	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	4					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		CGTCCTTCGTTAAAGGCTGCA	0.493													40	102					0	0	0.00874	0	0		C	49482599	C	C	49482599	2	2	85	1	0	0	0	0	0	0	0	1	6072	1751	61	3		3	FRMPD2	10	49482599	Silent	SNP	T	TCGA-BR-8676-01A-11D-2394-08	24601771	49482599	86052148	56	53412											
COL17A1	1308	broad.mit.edu	37	chr10	105794506	105794506	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggaggtcctggagggcctggGatgaatgacaagccggcagc	9	5	18	9	1	0	2	0	2	0	0	1	5	1	5	3	6	2	1	3	6	2	0			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr10:105794506G>A	uc001kxr.2	-	51	3808	c.3639C>T	c.(3637-3639)ATC>ATT	p.I1213I	COL17A1_uc001kxq.2_5'Flank	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	1213	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GAGGGCCTGGGATGAATGACA	0.637													6	19					0	0	0.001168	0	0		A	105794506	A	A	105794506	2	1	85	1	0	0	0	0	0	0	0	1	3677	1164	41	4		4	COL17A1	10	105794506	Silent	SNP	G	TCGA-BR-8676-01A-11D-2394-08	56311907	105794506	29740241	57	53413											
TUT1	64852	broad.mit.edu	37	chr11	62342958	62342958	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgagaccattcttgggctgCctcatgtcccttgggccccc	4	11	10	16	0	2	1	1	1	1	1	3	2	3	1	5	2	1	1	5	2	0	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr11:62342958C>T	uc001nto.2	-	9	2385	c.2347G>A	c.(2347-2349)GCA>ACA	p.A783T	EEF1G_uc001ntm.1_5'Flank|EEF1G_uc010rlw.1_5'Flank|EEF1G_uc001ntn.1_5'Flank|TUT1_uc001ntp.1_Missense_Mutation_p.A279T	NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	745					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						TCTTGGGCTGCCTCATGTCCC	0.682													48	104					0	0	0.01441	0	0		T	62342958	T	T	62342958	3	4	85	1	0	0	0	0	1	0	0	0	16806	739	26	2	395	2	TUT1	11	62342958	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08		62342958	72663558	58	53414											
FAT3	120114	broad.mit.edu	37	chr11	92088531	92088531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagtactccatcagggatGgcagtggtcttggaaggttc	8	11	13	9	0	2	0	1	0	1	0	5	2	4	2	2	5	1	3	2	5	2	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr11:92088531G>A	uc001pdj.3	+	1	3270	c.3253G>A	c.(3253-3255)GGC>AGC	p.G1085S		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1085	Cadherin 10.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CATCAGGGATGGCAGTGGTCT	0.468										TCGA Ovarian(4;0.039)			6	47					0	0	0.00308	0	0		A	92088531	A	A	92088531	3	1	85	1	0	0	0	0	1	0	0	0	5705	1348	47	4	3255	4	FAT3	11	92088531	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	29745573	92088531	42917985	59	53415											
ADAMTS8	11095	broad.mit.edu	37	chr11	130289118	130289118	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttttaccaccatcaggtTgatggaattcttgatgctgg	9	14	9	9	0	2	2	1	2	1	0	2	3	2	3	2	3	2	2	2	3	2	5			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr11:130289118T>C	uc001qgg.3	-	2	1148	c.790A>G	c.(790-792)AAC>GAC	p.N264D		NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	264	Peptidase M12B.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		ACCATCAGGTTGATGGAATTC	0.512													14	166					0	0	0.00245	0	0		C	130289118	C	C	130289118	3	2	85	1	0	0	0	0	1	0	0	0	272	1812	63	3	1911	3	ADAMTS8	11	130289118	Missense_Mutation	SNP	T	TCGA-BR-8676-01A-11D-2394-08	38200587	130289118	4717398	60	53416											
OVCH1	341350	broad.mit.edu	37	chr12	29614836	29614836	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagccagcacagatcatcTtctctgtgatccctcctgga	10	10	7	14	0	3	2	1	1	2	1	6	3	5	3	3	1	2	1	3	1	1	1			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr12:29614836T>G	uc001rix.1	-	19	2231	c.2231A>C	c.(2230-2232)AAG>ACG	p.K744T		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	744	Peptidase S1 2.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					ACAGATCATCTTCTCTGTGAT	0.473													5	79					0	0	0.001168	0	0		G	29614836	G	G	29614836	3	3	85	1	0	0	0	0	1	0	0	0	11342	1609	56	5	1213	5	OVCH1	12	29614836	Missense_Mutation	SNP	T	TCGA-BR-8676-01A-11D-2394-08		29614836	104237059	61	53417											
MLL2	8085	broad.mit.edu	37	chr12	49431910	49431911	+	Frame_Shift_Ins	INS	-	A	A																															tcccgttcagccttctcattINSagccgattctaccagcctca																										TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr12:49431910_49431911insA	uc001rta.3	-	34	9228_9229	c.9228_9229insT	c.(9226-9231)GCTAATfs	p.A3076fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3076_3077					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GCCTTCTCATTAGCCGATTCTA	0.599			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			21	38	---	---	---	---						.	A	49431911	A	A	49431910	7	5	85	1	0	1	1	0	0	0	0	0	9639	1754	61	0	7468	0	MLL2	12	49431910	Frame_Shift_Ins	INS	-	TCGA-BR-8676-01A-11D-2394-08	19817074	49431910	84419985	62	53418											
OR11H6	122748	broad.mit.edu	37	chr14	20692369	20692369	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attctggtctgtgtatgctgGgtaggcggatttctctgcta	5	16	13	7	1	3	0	0	0	3	0	4	1	3	1	0	4	2	4	0	4	3	5			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr14:20692369G>A	uc010tlc.1	+	1	501	c.501G>A	c.(499-501)TGG>TGA	p.W167*		NM_001004480	NP_001004480	Q8NGC7	O11H6_HUMAN	olfactory receptor, family 11, subfamily H,	167	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(95;0.00108)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0143)		GTGTATGCTGGGTAGGCGGAT	0.498													18	43					0	0	0.00499	0	0		A	20692369	A	A	20692369	4	1	85	1	0	0	0	0	0	1	0	0	10948	1241	43	4	503	4	OR11H6	14	20692369	Nonsense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08		20692369	86657171	63	53419											
TMEM229B	161145	broad.mit.edu	37	chr14	67940343	67940343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtagtcccaggggcaggCgttgaactggcgcaggatga	9	6	18	8	2	0	2	0	2	0	0	1	4	1	4	1	6	1	4	1	6	2	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr14:67940343C>T	uc001xjk.2	-	3	708	c.298G>A	c.(298-300)GCC>ACC	p.A100T	TMEM229B_uc001xjj.1_RNA	NM_182526	NP_872332	Q8NBD8	T229B_HUMAN	transmembrane protein 229B	100	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						CAGGGGCAGGCGTTGAACTGG	0.642													6	10					0	0	0.001168	0	0		T	67940343	T	T	67940343	3	4	85	1	0	0	0	0	1	0	0	0	16173	768	27	1	209	1	TMEM229B	14	67940343	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	47247974	67940343	39409197	64	53420											
DIO2	1734	broad.mit.edu	37	chr14	80677629	80677629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggaagctcttccagaCgcagcgcagtccctctgagg	9	6	14	12	2	2	2	0	1	2	1	4	5	4	4	2	3	2	3	2	3	1	1			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr14:80677629C>T	uc010tvq.1	-	2	589	c.187G>A	c.(187-189)GTC>ATC	p.V63I	uc001xuw.1_5'Flank|DIO2_uc010tvp.1_Missense_Mutation_p.V63I|DIO2_uc001xut.2_RNA|DIO2_uc010asx.2_Missense_Mutation_p.V63I|DIO2_uc010tvr.1_Missense_Mutation_p.V63I|DIO2_uc010asy.2_Missense_Mutation_p.V63I	NM_000793	NP_000784	Q92813	IOD2_HUMAN	deiodinase, iodothyronine, type II isoform a	63					hormone biosynthetic process|selenocysteine incorporation|thyroid hormone generation	integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|ubiquitin protein ligase binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0281)		CTCTTCCAGACGCAGCGCAGT	0.612													18	25					0	0	0.006122	0	0		T	80677629	T	T	80677629	3	4	85	1	0	0	0	0	1	0	0	0	4531	536	19	1	754	1	DIO2	14	80677629	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	12737286	80677629	26671911	65	53421											
STX8	9482	broad.mit.edu	37	chr17	9471725	9471725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttttctttcatattgatttCgttgttgaattttctcagca	7	22	5	7	1	3	2	2	2	2	0	5	2	3	2	0	0	1	3	0	0	2	10	rs140592918		TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr17:9471725C>T	uc002glx.2	-	2	230	c.80G>A	c.(79-81)CGA>CAA	p.R27Q		NM_004853	NP_004844	Q9UNK0	STX8_HUMAN	syntaxin 8	27	Cytoplasmic (Potential).				transport	endoplasmic reticulum|integral to plasma membrane				central_nervous_system(1)	1						ATATTGATTTCGTTGTTGAAT	0.368													13	20					0	0	0.001855	0	0		T	9471725	T	T	9471725	3	4	85	1	0	0	0	0	1	0	0	0	15376	884	31	1	658	1	STX8	17	9471725	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08		9471725	71723485	66	53422											
TRIM16L	147166	broad.mit.edu	37	chr17	18638508	18638508	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaacgggaaggagttcaCggcctggtacagtgacatgg	11	7	16	7	2	1	1	1	1	0	0	1	4	1	4	1	6	2	2	1	6	3	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr17:18638508C>A	uc002gug.1	+	10	1469	c.782C>A	c.(781-783)ACG>AAG	p.T261K	TRIM16L_uc010vyf.1_Missense_Mutation_p.T315K|TRIM16L_uc002guh.1_Missense_Mutation_p.T261K|TRIM16L_uc010cqg.1_Missense_Mutation_p.T363K|TRIM16L_uc002gui.1_Missense_Mutation_p.T261K|TRIM16L_uc010vyg.1_Missense_Mutation_p.T261K|TRIM16L_uc010vyh.1_3'UTR	NM_001037330	NP_001032407	Q309B1	TR16L_HUMAN	tripartite motif-containing 16-like	261	B30.2/SPRY.					cytoplasm					0						AAGGAGTTCACGGCCTGGTAC	0.557													38	110					2.47872e-24	2.98459e-24	0.010771	1	0		A	18638508	A	A	18638508	3	1	85	1	0	0	0	0	1	0	0	0	16518	536	19	5	796	5	TRIM16L	17	18638508	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	9166783	18638508	62556702	67	53423											
ALDH3A1	218	broad.mit.edu	37	chr17	19643782	19643782	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatttcttagcatcttccccGtagaactcctgtggagaaga	10	12	9	10	1	2	3	0	0	2	3	4	5	4	3	3	1	2	2	3	1	4	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr17:19643782G>A	uc010cqu.2	-	6	1146	c.816C>T	c.(814-816)TAC>TAT	p.Y272Y	ALDH3A1_uc010vzd.1_Silent_p.Y272Y|ALDH3A1_uc002gwj.2_Silent_p.Y272Y|ALDH3A1_uc010cqv.2_Silent_p.Y271Y|ALDH3A1_uc002gwk.2_Silent_p.Y389Y|ALDH3A1_uc002gwl.1_Silent_p.Y199Y	NM_001135168	NP_001128640	P30838	AL3A1_HUMAN	aldehyde dehydrogenase 3A1	272					cellular aldehyde metabolic process	cytosol|endoplasmic reticulum	alcohol dehydrogenase (NADP+) activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(1)|pancreas(1)	2	all_cancers(12;4.01e-05)|all_epithelial(12;0.00301)|Breast(13;0.186)			Colorectal(15;0.0829)	NADH(DB00157)	CATCTTCCCCGTAGAACTCCT	0.527													33	100					0	0	0.003755	0	0		A	19643782	A	A	19643782	2	1	85	1	0	0	0	0	0	0	0	1	497	1140	40	1		1	ALDH3A1	17	19643782	Silent	SNP	G	TCGA-BR-8676-01A-11D-2394-08	1005274	19643782	61551428	68	53424											
CORO6	84940	broad.mit.edu	37	chr17	27943176	27943176	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtatccgggtacagatcGtcctggaagaggtctgactg	8	9	15	9	3	1	3	0	1	1	2	4	4	3	4	2	4	1	2	2	4	3	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr17:27943176G>A	uc002hel.2	-	9	1082	c.1080C>T	c.(1078-1080)GAC>GAT	p.D360D	CORO6_uc002hem.2_Silent_p.D126D|CORO6_uc002hen.2_Silent_p.D126D	NM_032854	NP_116243	Q6QEF8	CORO6_HUMAN	coronin 6	360					actin cytoskeleton organization	actin cytoskeleton	actin filament binding				0						GGTACAGATCGTCCTGGAAGA	0.667													5	36					0	0	0.001168	0	0		A	27943176	A	A	27943176	2	1	85	1	0	0	0	0	0	0	0	1	3761	1136	40	1		1	CORO6	17	27943176	Silent	SNP	G	TCGA-BR-8676-01A-11D-2394-08	8299394	27943176	53252034	69	53425											
ATAD5	79915	broad.mit.edu	37	chr17	29219667	29219667	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actagtttgctctgaacatgGccttgataacaaaatttacc	13	13	6	9	0	1	2	0	2	1	0	1	2	1	2	2	1	4	2	2	1	6	6	rs147538471	byFrequency	TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr17:29219667G>C	uc002hfs.1	+	20	4647	c.4301G>C	c.(4300-4302)GGC>GCC	p.G1434A		NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	1434					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				TCTGAACATGGCCTTGATAAC	0.333													31	52					0	0	0.009535	0	0		C	29219667	C	C	29219667	3	2	85	1	0	0	0	0	1	0	0	0	1077	1203	42	5	4379	5	ATAD5	17	29219667	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	1276491	29219667	51975543	70	53426											
KRT28	162605	broad.mit.edu	37	chr17	38954584	38954584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgtcagctcgtccaggactCgccgtaatccgttgatgtcg	6	10	12	13	6	1	1	1	1	0	0	6	2	3	2	3	1	1	3	3	1	1	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr17:38954584C>T	uc002hvh.1	-	3	659	c.593G>A	c.(592-594)CGA>CAA	p.R198Q		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	198	Rod.|Coil 1B.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				GTCCAGGACTCGCCGTAATCC	0.493													34	94					0	0	0.012213	0	0		T	38954584	T	T	38954584	3	4	85	1	0	0	0	0	1	0	0	0	8481	884	31	1	825	1	KRT28	17	38954584	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	9734917	38954584	42240626	71	53427											
EZH1	2145	broad.mit.edu	37	chr17	40870044	40870044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctggttcaatcttgatttCtttattcttgcgtttatata	7	23	5	6	1	5	1	1	1	4	0	5	1	5	1	0	1	1	2	0	1	5	12			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr17:40870044C>T	uc002iaz.2	-	10	1118	c.973G>A	c.(973-975)GAA>AAA	p.E325K	EZH1_uc002iba.2_Missense_Mutation_p.E316K|EZH1_uc010wgt.1_Missense_Mutation_p.E255K|EZH1_uc010wgu.1_Missense_Mutation_p.E331K|EZH1_uc010wgv.1_Missense_Mutation_p.E285K|EZH1_uc010wgw.1_Missense_Mutation_p.E186K|EZH1_uc010cyp.2_Missense_Mutation_p.E226K|EZH1_uc010cyq.2_Missense_Mutation_p.E242K|EZH1_uc010cys.2_Missense_Mutation_p.E276K|EZH1_uc010cyo.1_Intron|EZH1_uc010cyr.1_5'UTR	NM_001991	NP_001982	Q92800	EZH1_HUMAN	enhancer of zeste homolog 1	325					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	chromatin binding|DNA binding			ovary(3)	3		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0784)		ATCTTGATTTCTTTATTCTTG	0.403													9	29					0	0	0.004482	0	0		T	40870044	T	T	40870044	3	4	85	1	0	0	0	0	1	0	0	0	5341	922	32	4	1318	4	EZH1	17	40870044	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	1915460	40870044	40325166	72	53428											
KIF19	124602	broad.mit.edu	37	chr17	72346598	72346598	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcatgggacagcttcgggaGcagctcgccagcgccttcca	7	6	14	14	3	0	0	0	0	0	0	3	2	1	2	3	3	4	4	3	3	0	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr17:72346598G>T	uc002jkm.3	+	11	1410	c.1272G>T	c.(1270-1272)GAG>GAT	p.E424D	KIF19_uc002jkj.2_Missense_Mutation_p.E424D|KIF19_uc002jkk.2_Missense_Mutation_p.E382D|KIF19_uc002jkl.2_Missense_Mutation_p.E382D	NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	424	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						AGCTTCGGGAGCAGCTCGCCA	0.662													3	19					0.004672	0.00483593	0.004672	1	0		T	72346598	T	T	72346598	3	4	85	1	0	0	0	0	1	0	0	0	8298	962	34	5	1314	5	KIF19	17	72346598	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	31476554	72346598	8848612	73	53429											
ENGASE	64772	broad.mit.edu	37	chr17	77082045	77082045	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgccagcctgctggcccctCtgccccaggtgcaggccgtc	3	7	12	19	1	1	0	0	0	1	0	2	0	1	0	7	3	5	2	7	3	0	0			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr17:77082045C>T	uc002jwv.2	+	14	1854	c.1846C>T	c.(1846-1848)CTG>TTG	p.L616L	ENGASE_uc002jww.2_Silent_p.L321L	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	616						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						GCTGGCCCCTCTGCCCCAGGT	0.706													13	57					0	0	0.00245	0	0		T	77082045	T	T	77082045	2	4	85	1	0	0	0	0	0	0	0	1	5126	912	32	4		4	ENGASE	17	77082045	Silent	SNP	C	TCGA-BR-8676-01A-11D-2394-08	4735447	77082045	4113165	74	53430											
KATNAL2	83473	broad.mit.edu	37	chr18	44627365	44627365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagactggcaaagagagttcGagtctgtctgaaaccacatt	13	9	10	9	1	2	3	0	1	2	2	3	5	2	3	1	1	1	2	1	1	2	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr18:44627365G>A	uc002lco.2	+	15	1584	c.1390G>A	c.(1390-1392)GAG>AAG	p.E464K	KATNAL2_uc002lcp.3_Missense_Mutation_p.E391K	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2	536						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						AAGAGAGTTCGAGTCTGTCTG	0.468											OREG0024959	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	27					0	0	0.013537	0	0		A	44627365	A	A	44627365	3	1	85	1	0	0	0	0	1	0	0	0	8002	1059	37	1	1444	1	KATNAL2	18	44627365	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08		44627365	33449883	75	53431											
DSEL	92126	broad.mit.edu	37	chr18	65179255	65179255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gttgtttgagaatttcagctCctgaaccaggaagtgaggta	11	12	12	6	0	1	3	1	3	0	1	2	5	2	4	2	2	2	4	2	2	4	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr18:65179255C>T	uc002lke.1	-	2	3845	c.2621G>A	c.(2620-2622)GGA>GAA	p.G874E		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	864						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				AATTTCAGCTCCTGAACCAGG	0.428													56	170					0	0	0.01441	0	0		T	65179255	T	T	65179255	3	4	85	1	0	0	0	0	1	0	0	0	4781	855	30	4	1051	4	DSEL	18	65179255	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	20551890	65179255	12897993	76	53432											
LDLR	3949	broad.mit.edu	37	chr19	11200076	11200076	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatttgaaaatcaccccaCtgcaaactcctccccctgct	11	9	4	17	0	1	1	1	1	0	0	3	2	3	1	5	0	3	2	5	0	3	1			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr19:11200076C>A	uc002mqk.3	+	1	20	c.-148C>A	c.(-150--146)CACTG>CAATG		LDLR_uc010xlk.1_Translation_Start_Site|LDLR_uc010xll.1_Translation_Start_Site|LDLR_uc010xlm.1_Translation_Start_Site|LDLR_uc010xln.1_Translation_Start_Site|LDLR_uc010xlo.1_Translation_Start_Site	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor						cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		Lung NSC(9;0.000245)|Renal(1328;0.0007)|Hepatocellular(1079;0.0524)		GBM - Glioblastoma multiforme(1328;1.36e-05)|STAD - Stomach adenocarcinoma(1328;0.000766)|Lung(535;0.197)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	AATCACCCCACTGCAAACTCC	0.522													6	8					3.59834e-05	3.86003e-05	0.001168	1	0		A	11200076	A	A	11200076	1	1	85	1	0	0	0	0	0	0	0	0	8720	580	20	5		5	LDLR	19	11200076	Translation_Start_Site	SNP	C	TCGA-BR-8676-01A-11D-2394-08		11200076	47928907	77	53433											
ELL	8178	broad.mit.edu	37	chr19	18561438	18561438	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcgaggggctgccgtgtggCctgctgggctgggcacagtc	3	7	19	12	3	0	0	0	0	0	0	1	1	0	0	2	5	2	4	2	5	0	0			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr19:18561438C>T	uc002njh.2	-	8	1386	c.1314G>A	c.(1312-1314)AGG>AGA	p.R438R	ELL_uc010ebq.2_Silent_p.R381R|ELL_uc002njg.2_Silent_p.R305R	NM_006532	NP_006523	P55199	ELL_HUMAN	elongation factor RNA polymerase II	438					positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	Cajal body|nuclear speck|transcription elongation factor complex	protein binding			lung(1)	1				GBM - Glioblastoma multiforme(1328;7.81e-07)		TGCCGTGTGGCCTGCTGGGCT	0.692			T	MLL	AL								6	12					0	0	0.001168	0	0		T	18561438	T	T	18561438	2	4	85	1	0	0	0	0	0	0	0	1	5070	738	26	2		2	ELL	19	18561438	Silent	SNP	C	TCGA-BR-8676-01A-11D-2394-08	7361362	18561438	40567545	78	53434											
ZNF737	100129842	broad.mit.edu	37	chr19	20735356	20735356	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagacaggtgatgaggtCtggcttagagacaacaatac	13	8	11	9	0	1	4	0	2	1	2	2	5	2	4	1	3	2	1	1	3	4	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr19:20735356C>A	uc002npa.2	-	3	331	c.151G>T	c.(151-153)GAC>TAC	p.D51Y		NM_001159293	NP_001152765	C9JHM3	C9JHM3_HUMAN	zinc finger protein 737	51					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GTGATGAGGTCTGGCTTAGAG	0.378													9	45					0.000442599	0.00046631	0.006214	1	0		A	20735356	A	A	20735356	3	1	85	1	0	0	0	0	1	0	0	0	18151	913	32	5	1467	5	ZNF737	19	20735356	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	2173918	20735356	38393627	79	53435											
ATP4A	495	broad.mit.edu	37	chr19	36050082	36050082	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccaggcgcttggctgtcagGgacaggcagacctggggaag	8	5	18	10	1	1	1	1	0	0	1	1	3	1	3	2	6	0	3	2	6	1	1			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr19:36050082G>A	uc002oal.1	-	8	1097	c.1068C>T	c.(1066-1068)TCC>TCT	p.S356S	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	356	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	TGGCTGTCAGGGACAGGCAGA	0.627													59	115					0	0	0.01441	0	0		A	36050082	A	A	36050082	2	1	85	1	0	0	0	0	0	0	0	1	1146	1219	43	4		4	ATP4A	19	36050082	Silent	SNP	G	TCGA-BR-8676-01A-11D-2394-08	15314726	36050082	23078901	80	53436											
ZNF382	84911	broad.mit.edu	37	chr19	37117675	37117675	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcagagacctcaaacagaAgagaaaccctttcactgtcc	14	7	6	14	0	3	3	3	0	0	3	4	5	4	3	4	0	2	0	4	0	3	1			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr19:37117675A>C	uc002oek.2	+	5	989	c.876A>C	c.(874-876)GAA>GAC	p.E292D	ZNF382_uc010efa.2_Missense_Mutation_p.E243D|ZNF382_uc010efb.2_Missense_Mutation_p.E291D|ZNF382_uc002oel.2_Missense_Mutation_p.E291D	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	292					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			CTCAAACAGAAGAGAAACCCT	0.393													22	123					0	0	0.00333	0	0		C	37117675	C	C	37117675	3	2	85	1	0	0	0	0	1	0	0	0	17898	69	3	5	886	5	ZNF382	19	37117675	Missense_Mutation	SNP	A	TCGA-BR-8676-01A-11D-2394-08	1067593	37117675	22011308	81	53437											
ZNF383	163087	broad.mit.edu	37	chr19	37734283	37734283	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcagagctcacagcttcGtcaacatcagagaattcacg	13	9	7	12	2	5	2	5	0	0	2	6	3	5	2	0	0	4	2	0	0	3	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr19:37734283G>A	uc002oft.1	+	8	1725	c.1145G>A	c.(1144-1146)CGT>CAT	p.R382H	ZNF383_uc002ofs.1_Missense_Mutation_p.R317H|ZNF383_uc002ofu.1_Missense_Mutation_p.R382H	NM_152604	NP_689817	Q8NA42	ZN383_HUMAN	zinc finger protein 383	382	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCACAGCTTCGTCAACATCAG	0.428													18	48					0	0	0.00499	0	0		A	37734283	A	A	37734283	3	1	85	1	0	0	0	0	1	0	0	0	17899	1145	40	1	1159	1	ZNF383	19	37734283	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	616608	37734283	21394700	82	53438											
LIG1	3978	broad.mit.edu	37	chr19	48624487	48624487	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggccagcaggaagcccccGtaccggccggcccgcttccc	6	3	13	19	4	0	0	0	0	0	0	1	2	1	1	7	4	3	3	7	4	2	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr19:48624487G>A	uc002pia.1	-	24	2445	c.2325C>T	c.(2323-2325)TAC>TAT	p.Y775Y	LIG1_uc010xze.1_Silent_p.Y468Y|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Silent_p.Y707Y|LIG1_uc010xzg.1_Silent_p.Y744Y	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	775					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	GGAAGCCCCCGTACCGGCCGG	0.652								NER					44	117					0	0	0.013114	0	0		A	48624487	A	A	48624487	2	1	85	1	0	0	0	0	0	0	0	1	8797	1140	40	1		1	LIG1	19	48624487	Silent	SNP	G	TCGA-BR-8676-01A-11D-2394-08	10890204	48624487	10504496	83	53439											
KLK1	3816	broad.mit.edu	37	chr19	51322476	51322476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttctccgctatggtgtcctCgatccacttcacataagaca	9	12	7	13	2	2	1	1	0	1	1	6	2	4	1	3	1	0	2	3	1	2	4	rs138173062		TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr19:51322476C>T	uc002ptk.1	-	5	802	c.763G>A	c.(763-765)GAG>AAG	p.E255K	KLK1_uc010ycg.1_RNA	NM_002257	NP_002248	P06870	KLK1_HUMAN	kallikrein 1 preproprotein	255	Peptidase S1.				proteolysis	nucleus	serine-type endopeptidase activity				0		all_neural(266;0.0199)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00399)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATGGTGTCCTCGATCCACTTC	0.542													26	78					0	0	0.008361	0	0		T	51322476	T	T	51322476	3	4	85	1	0	0	0	0	1	0	0	0	8413	893	31	1	29	1	KLK1	19	51322476	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	2697989	51322476	7806507	84	53440											
NLRP4	147945	broad.mit.edu	37	chr19	56369527	56369527	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacttgatggagaaacggccGgtgcaggtgcttctgagcag	9	8	16	8	2	1	3	0	2	1	1	1	5	1	3	1	4	4	3	1	4	1	2	rs140962628	by1000genomes	TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr19:56369527G>A	uc002qmd.3	+	3	1190	c.768G>A	c.(766-768)CCG>CCA	p.P256P	NLRP4_uc002qmf.2_Silent_p.P181P|NLRP4_uc010etf.2_Silent_p.P87P	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	256	NACHT.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		AGAAACGGCCGGTGCAGGTGC	0.582													31	104					0	0	0.003271	0	0		A	56369527	A	A	56369527	2	1	85	1	0	0	0	0	0	0	0	1	10498	1103	39	1		1	NLRP4	19	56369527	Silent	SNP	G	TCGA-BR-8676-01A-11D-2394-08	5047051	56369527	2759456	85	53441											
ZNF416	55659	broad.mit.edu	37	chr19	58084322	58084322	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctccagtgtgaactctgTgatgtttaatgagggtggct	7	16	12	6	0	2	3	0	3	2	0	3	3	2	3	1	2	1	2	1	2	2	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr19:58084322T>C	uc002qpf.2	-	4	1121	c.950A>G	c.(949-951)CAC>CGC	p.H317R	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	317	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		GTGAACTCTGTGATGTTTAAT	0.438													20	43					0	0	0.008871	0	0		C	58084322	C	C	58084322	3	2	85	1	0	0	0	0	1	0	0	0	17918	1696	59	3	838	3	ZNF416	19	58084322	Missense_Mutation	SNP	T	TCGA-BR-8676-01A-11D-2394-08	1714795	58084322	1044661	86	53442											
SIRPB1	10326	broad.mit.edu	37	chr20	1552595	1552595	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgatgtctctgggagaGaagccatgggactcgcaggt	9	8	17	7	1	1	2	0	1	1	1	3	5	1	4	1	4	1	1	1	4	1	0			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr20:1552595G>T	uc010gai.2	-	3	621	c.522C>A	c.(520-522)TTC>TTA	p.F174L	SIRPB1_uc002wfk.3_Intron	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	174	Ig-like C1-type 1.|Extracellular (Potential).				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						CTCTGGGAGAGAAGCCATGGG	0.572													43	141					2.00842e-17	2.39387e-17	0.010771	1	0		T	1552595	T	T	1552595	3	4	85	1	0	0	0	0	1	0	0	0	14358	933	33	5	686	5	SIRPB1	20	1552595	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08		1552595	61472925	87	53443											
OVOL2	58495	broad.mit.edu	37	chr20	18005465	18005465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagccgcaatcctcgcagaCgtagagcttgtcccgccgct	7	8	11	15	5	0	2	0	0	0	2	3	2	2	2	4	0	2	6	4	0	3	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr20:18005465C>T	uc002wqi.1	-	4	886	c.643G>A	c.(643-645)GTC>ATC	p.V215I		NM_021220	NP_067043	Q9BRP0	OVOL2_HUMAN	zinc finger protein 339	215	C2H2-type 4.				negative regulation of keratinocyte differentiation|negative regulation of Notch signaling pathway|negative regulation of transcription by competitive promoter binding|regulation of cell cycle|regulation of keratinocyte proliferation|transcription, DNA-dependent	nucleus	DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1						TCCTCGCAGACGTAGAGCTTG	0.572													19	60					0	0	0.010504	0	0		T	18005465	T	T	18005465	3	4	85	1	0	0	0	0	1	0	0	0	11346	536	19	1	188	1	OVOL2	20	18005465	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	16452870	18005465	45020055	88	53444											
E2F1	1869	broad.mit.edu	37	chr20	32265097	32265097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcagggcacaggaaaacatCgatcgggccttgtttgctct	9	10	11	11	2	2	0	1	0	1	0	4	2	2	1	1	3	2	3	1	3	2	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr20:32265097C>T	uc002wzu.3	-	6	1020	c.880G>A	c.(880-882)GAT>AAT	p.D294N	NECAB3_uc002wzm.3_5'Flank|NECAB3_uc002wzn.3_5'Flank|NECAB3_uc002wzo.3_5'Flank|NECAB3_uc002wzp.3_5'Flank|NECAB3_uc002wzq.3_5'Flank|NECAB3_uc002wzr.3_5'Flank|NECAB3_uc010geo.2_5'Flank	NM_005225	NP_005216	Q01094	E2F1_HUMAN	E2F transcription factor 1	294	Required for interaction with TRIM28.				apoptosis|cell proliferation|G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|mRNA stabilization|negative regulation of transcription involved in G1/S phase of mitotic cell cycle|positive regulation of fibroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle	mitochondrion|Rb-E2F complex	sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription factor binding				0						AGGAAAACATCGATCGGGCCT	0.527													15	61					0	0	0.00245	0	0		T	32265097	T	T	32265097	3	4	85	1	0	0	0	0	1	0	0	0	4872	884	31	1	441	1	E2F1	20	32265097	Missense_Mutation	SNP	C	TCGA-BR-8676-01A-11D-2394-08	14259632	32265097	30760423	89	53445											
KCNB1	3745	broad.mit.edu	37	chr20	47991181	47991181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgcaagcttaaggatgcGgagaattcgcatgatgcgga	11	8	15	7	4	0	2	0	1	0	1	1	5	0	4	0	3	4	3	0	3	3	2			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr20:47991181G>A	uc002xur.1	-	2	1080	c.916C>T	c.(916-918)CGC>TGC	p.R306C	KCNB1_uc002xus.1_Missense_Mutation_p.R306C	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	306	Helical; Voltage-sensor; Name=Segment S4; (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TTAAGGATGCGGAGAATTCGC	0.532													23	80					0	0	0.00333	0	0		A	47991181	A	A	47991181	3	1	85	1	0	0	0	0	1	0	0	0	8028	1116	39	1	1664	1	KCNB1	20	47991181	Missense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08	15726084	47991181	15034339	90	53446											
SFRS15	57466	broad.mit.edu	37	chr21	33065757	33065757	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtcgatgccgagaccttcGagatctagaaccagatctag	12	8	10	11	4	2	4	0	0	2	4	4	7	2	4	3	0	2	0	3	0	3	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chr21:33065757G>A	uc002ypd.2	-	12	1789	c.1363C>T	c.(1363-1365)CGA>TGA	p.R455*	SFRS15_uc002ype.2_Nonsense_Mutation_p.R455*|SFRS15_uc010glu.2_Nonsense_Mutation_p.R440*|SFRS15_uc002ypf.1_Nonsense_Mutation_p.R129*	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	455						nucleus	nucleotide binding|RNA binding				0						CGAGACCTTCGAGATCTAGAA	0.458													13	31					0	0	0.001855	0	0		A	33065757	A	A	33065757	4	1	85	1	0	0	0	0	0	1	0	0	14196	1066	37	1	2116	1	SFRS15	21	33065757	Nonsense_Mutation	SNP	G	TCGA-BR-8676-01A-11D-2394-08		33065757	15064138	91	53447											
ATP7A	538	broad.mit.edu	37	chrX	77245091	77245091	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgaagtataatgcaagcTcagtcactccagaatccctg	12	11	8	10	0	2	2	2	1	0	1	4	2	4	2	2	0	2	3	2	0	5	3			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chrX:77245091T>A	uc004ecx.3	+	4	1133	c.973T>A	c.(973-975)TCA>ACA	p.S325T	ATP7A_uc004ecw.2_Missense_Mutation_p.S325T	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	325	HMA 3.|Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						TAATGCAAGCTCAGTCACTCC	0.398													11	123					0	0	0.010729	0	0		A	77245091	A	A	77245091	3	1	85	1	0	0	0	0	1	0	0	0	1191	1551	54	5	983	5	ATP7A	23	77245091	Missense_Mutation	SNP	T	TCGA-BR-8676-01A-11D-2394-08		77245091	78025469	92	53448											
GPR174	84636	broad.mit.edu	37	chrX	78426685	78426685	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgatatttatgataaacTtagccattgctgacttacta	12	16	6	7	0	0	3	0	3	0	0	0	3	0	3	1	0	4	1	1	0	7	8			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chrX:78426685T>A	uc004edg.1	+	1	217	c.181T>A	c.(181-183)TTA>ATA	p.L61I		NM_032553	NP_115942	Q9BXC1	GP174_HUMAN	putative purinergic receptor FKSG79	61	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)|central_nervous_system(1)	2						TATGATAAACTTAGCCATTGC	0.408										HNSCC(63;0.18)			10	5					0	0	0.006214	0	0		A	78426685	A	A	78426685	3	1	85	1	0	0	0	0	1	0	0	0	6687	1606	56	5	183	5	GPR174	23	78426685	Missense_Mutation	SNP	T	TCGA-BR-8676-01A-11D-2394-08	1181594	78426685	76843875	93	53449											
IGSF1	3547	broad.mit.edu	37	chrX	130408109	130408109	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatggctagcactacccccaAggctacaacaaccaccacga	14	5	6	16	1	0	0	0	0	0	0	0	1	0	0	4	2	5	3	4	2	7	4			TCGA-BR-8676-01A-11D-2394-08	TCGA-BR-8676-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	8bb64cc8-686e-4772-a260-9c927470a90a	bd265d39-285a-4bbb-9f49-08e1c80878d2	g.chrX:130408109A>G	uc004ewd.2	-	19	4061	c.3823T>C	c.(3823-3825)TTG>CTG	p.L1275L	IGSF1_uc004ewe.3_Silent_p.L1269L|IGSF1_uc004ewf.2_Silent_p.L1255L	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	1275	Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						ACTACCCCCAAGGCTACAACA	0.527													60	57					0	0	0.01441	0	0		G	130408109	G	G	130408109	2	3	85	1	0	0	0	0	0	0	0	1	7612	69	3	3		3	IGSF1	23	130408109	Silent	SNP	A	TCGA-BR-8676-01A-11D-2394-08	51981424	130408109	24862451	94	53450											
PRDM2	7799	broad.mit.edu	37	chr1	14142940	14142940	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctacagcctccgcttggcGtcccgatgctctccaccagc	6	8	9	18	3	1	0	0	0	1	0	4	1	3	0	5	1	5	3	5	1	1	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr1:14142940G>A	uc001avi.2	+	9	5911	c.5055G>A	c.(5053-5055)GCG>GCA	p.A1685A	PRDM2_uc001avg.2_Missense_Mutation_p.R177H|PRDM2_uc009voe.2_RNA|PRDM2_uc009vof.2_RNA	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1685						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		TCCGCTTGGCGTCCCGATGCT	0.587													10	103					0	0	0.013537	0	0		A	14142940	A	A	14142940	2	1	86	1	0	0	0	0	0	0	0	1	12480	1145	40	1		1	PRDM2	1	14142940	Silent	SNP	G	TCGA-BR-8677-01A-11D-2394-08		14142940	235107681	1	53451											
ARID1A	8289	broad.mit.edu	37	chr1	27023449	27023449	+	Frame_Shift_Del	DEL	G	-	-																															cctggcctggcagcgctgcaGagcggcggcggcgggggcct																										TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr1:27023449delG	uc001bmv.1	+	1	928	c.555delG	c.(553-555)CAGfs	p.Q185fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.Q185fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.Q185fs	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	185					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.Q185*(1)		ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CAGCGCTGCAGAGCGGCGGCG	0.701			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								8	14	---	---	---	---						.	-	27023449	-	-	27023449	7	5	86	1	0	1	0	1	0	0	0	0	913	933	33	0	557	0	ARID1A	1	27023449	Frame_Shift_Del	DEL	G	TCGA-BR-8677-01A-11D-2394-08	12880509	27023449	222227172	2	53452											
HIVEP3	59269	broad.mit.edu	37	chr1	42047175	42047175	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgggcccttgcctcccggGggtccaccatgtgaggtggc	3	8	15	15	1	0	1	0	1	0	0	2	1	2	1	6	5	1	0	6	5	0	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr1:42047175G>A	uc001cgz.3	-	4	4507	c.3294C>T	c.(3292-3294)CCC>CCT	p.P1098P	HIVEP3_uc001cha.3_Silent_p.P1098P|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1098					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				TGCCTCCCGGGGGTCCACCAT	0.612													14	81					0	0	0.003163	0	0		A	42047175	A	A	42047175	2	1	86	1	0	0	0	0	0	0	0	1	7204	1219	43	4		4	HIVEP3	1	42047175	Silent	SNP	G	TCGA-BR-8677-01A-11D-2394-08	15023726	42047175	207203446	3	53453											
INSRR	3645	broad.mit.edu	37	chr1	156816537	156816537	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacccacgtgctctgtggcGttctggaatgggctgaacac	7	9	14	11	2	2	1	0	1	2	0	2	3	2	3	1	4	2	3	1	4	2	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr1:156816537G>A	uc010pht.1	-	8	1838	c.1584C>T	c.(1582-1584)AAC>AAT	p.N528N	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	528	Fibronectin type-III 1.				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GCTCTGTGGCGTTCTGGAATG	0.617													5	48					0	0	0.014758	0	0		A	156816537	A	A	156816537	2	1	86	1	0	0	0	0	0	0	0	1	7790	1136	40	1		1	INSRR	1	156816537	Silent	SNP	G	TCGA-BR-8677-01A-11D-2394-08	114769362	156816537	92434084	4	53454											
LRRN2	10446	broad.mit.edu	37	chr1	204587773	204587773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagatctcgggttcgggttCggccagtgcccggcaatgca	6	9	15	11	4	1	1	0	0	1	1	4	1	1	1	2	4	2	5	2	4	2	3			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr1:204587773C>T	uc001hbe.1	-	3	1736	c.1348G>A	c.(1348-1350)GAA>AAA	p.E450K	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Missense_Mutation_p.E450K|LRRN2_uc009xbf.1_Missense_Mutation_p.E450K|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	450	Ig-like C2-type.|Extracellular (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			GGTTCGGGTTCGGCCAGTGCC	0.642													7	66					0	0	0.00308	0	0		T	204587773	T	T	204587773	3	4	86	1	0	0	0	0	1	0	0	0	9053	893	31	1	797	1	LRRN2	1	204587773	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	47771236	204587773	44662848	5	53455											
NEB	4703	broad.mit.edu	37	chr2	152385745	152385745	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgttgactttgtaggcGtccttggctgctttgatatg	4	18	13	6	1	0	2	0	2	0	0	1	2	1	2	1	3	1	4	1	3	2	7			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr2:152385745G>A	uc010fnx.2	-	118	16802	c.16611C>T	c.(16609-16611)GAC>GAT	p.D5537D	NEB_uc002txr.2_Silent_p.D1960D|NEB_uc002txt.3_Silent_p.D42D	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	5537	Nebulin 151.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CTTTGTAGGCGTCCTTGGCTG	0.438													5	24					0	0	0.014758	0	0		A	152385745	A	A	152385745	2	1	86	1	0	0	0	0	0	0	0	1	10321	1136	40	1		1	NEB	2	152385745	Silent	SNP	G	TCGA-BR-8677-01A-11D-2394-08		152385745	90813628	6	53456											
TTN	7273	broad.mit.edu	37	chr2	179587650	179587650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaggttccagttccgtaaCaaaataaggcggttctaagg	13	9	11	8	2	1	1	0	0	1	1	3	1	3	1	2	4	1	4	2	4	5	6			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr2:179587650C>T	uc010zfg.1	-	73	18468	c.18244G>A	c.(18244-18246)GTT>ATT	p.V6082I	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.V2743I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7009							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGTTCCGTAACAAAATAAGGC	0.403													3	18					0	0	0.004672	0	0		T	179587650	T	T	179587650	3	4	86	1	0	0	0	0	1	0	0	0	16761	478	17	4	82701	4	TTN	2	179587650	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	27201905	179587650	63611723	7	53457											
PLCL1	5334	broad.mit.edu	37	chr2	198949579	198949579	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaagcgttgaactcgatgtAagtgatggttcagataatga	13	11	12	5	3	1	4	1	3	0	1	2	6	1	4	0	1	2	3	0	1	4	4			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr2:198949579A>C	uc010fsp.2	+	2	1629	c.1338A>C	c.(1336-1338)GTA>GTC	p.V446V	PLCL1_uc002uuv.3_Silent_p.V367V	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	446	PI-PLC X-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	AACTCGATGTAAGTGATGGTT	0.393													8	27					0	0	0.00308	0	0		C	198949579	C	C	198949579	2	2	86	1	0	0	0	0	0	0	0	1	12058	349	13	5		5	PLCL1	2	198949579	Silent	SNP	A	TCGA-BR-8677-01A-11D-2394-08	19361929	198949579	44249794	8	53458											
D2HGDH	728294	broad.mit.edu	37	chr2	242683123	242683123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatgccgctggacttaGgagccaagggcagctgccac	9	7	12	13	1	2	0	2	0	0	0	2	2	2	2	3	3	4	3	3	3	2	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr2:242683123G>A	uc002wce.1	+	5	750	c.577G>A	c.(577-579)GGA>AGA	p.G193R	D2HGDH_uc010zpc.1_RNA|D2HGDH_uc010fzq.1_Missense_Mutation_p.G59R|D2HGDH_uc002wcg.1_RNA	NM_152783	NP_689996	Q8N465	D2HDH_HUMAN	D-2-hydroxyglutarate dehydrogenase precursor	193	FAD-binding PCMH-type.				2-oxoglutarate metabolic process|cellular protein metabolic process|response to cobalt ion|response to manganese ion|response to zinc ion	mitochondrial matrix	(R)-2-hydroxyglutarate dehydrogenase activity|flavin adenine dinucleotide binding|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		GCTGGACTTAGGAGCCAAGGG	0.607													4	27					0	0	0.014758	0	0		A	242683123	A	A	242683123	3	1	86	1	0	0	0	0	1	0	0	0	4216	1001	35	4	591	4	D2HGDH	2	242683123	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08	43733544	242683123	516250	9	53459											
TRAK1	22906	broad.mit.edu	37	chr3	42261066	42261066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcatcctgcatccttcagatGagctcactcgggtcacacca	9	9	8	15	1	3	2	3	1	0	1	6	2	5	2	3	1	2	3	3	1	0	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr3:42261066G>A	uc003cky.2	+	15	2260	c.2044G>A	c.(2044-2046)GAG>AAG	p.E682K	TRAK1_uc011azi.1_Missense_Mutation_p.E661K	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	682					endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						TCCTTCAGATGAGCTCACTCG	0.557													11	130					0	0	0.008291	0	0		A	42261066	A	A	42261066	3	1	86	1	0	0	0	0	1	0	0	0	16475	1291	45	4	2490	4	TRAK1	3	42261066	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08		42261066	155761364	10	53460											
NBEAL2	23218	broad.mit.edu	37	chr3	47041809	47041809	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctcctggccgccacagctCcagtctctccaatgtgctgg	5	10	10	16	1	1	0	0	0	1	0	5	0	4	0	5	2	3	3	5	2	1	0			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr3:47041809C>A	uc003cqp.2	+	27	4399	c.4220C>A	c.(4219-4221)TCC>TAC	p.S1407Y	NBEAL2_uc010hjm.1_Missense_Mutation_p.S784Y|NBEAL2_uc010hjn.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1407							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		CGCCACAGCTCCAGTCTCTCC	0.667													7	60					1.6384e-10	1.93629e-10	0.001984	1	0		A	47041809	A	A	47041809	3	1	86	1	0	0	0	0	1	0	0	0	10207	855	30	5	4326	5	NBEAL2	3	47041809	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	4780743	47041809	150980621	11	53461											
PROS1	5627	broad.mit.edu	37	chr3	93615512	93615512	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcatactttgtgtcaaggttCaagggaaggcacactgaaac	13	10	10	8	0	3	1	3	1	0	0	3	2	3	2	0	3	2	2	0	3	5	3			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr3:93615512C>G	uc003drb.3	-	9	1214	c.873G>C	c.(871-873)TTG>TTC	p.L291F	PROS1_uc010hoo.2_Missense_Mutation_p.L160F|PROS1_uc003dqz.3_Missense_Mutation_p.L160F	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	291					leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	TGTCAAGGTTCAAGGGAAGGC	0.368													8	48					0	0	0.004482	0	0		G	93615512	G	G	93615512	3	3	86	1	0	0	0	0	1	0	0	0	12580	825	29	5	1185	5	PROS1	3	93615512	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	46573703	93615512	104406918	12	53462											
KALRN	8997	broad.mit.edu	37	chr3	123987823	123987823	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctcggcggctcattgaCgaacacacacagctcaagaa	12	6	10	13	3	3	2	2	1	1	1	4	3	3	2	0	3	2	3	0	3	3	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr3:123987823C>T	uc003ehg.2	+	5	811	c.684C>T	c.(682-684)GAC>GAT	p.D228D	KALRN_uc010hrv.1_Silent_p.D228D|KALRN_uc003ehf.1_Silent_p.D228D|KALRN_uc011bjy.1_Silent_p.D228D	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	228	Spectrin 1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GGCTCATTGACGAACACACAC	0.642													5	27					0	0	0.001168	0	0		T	123987823	T	T	123987823	2	4	86	1	0	0	0	0	0	0	0	1	7991	535	19	1		1	KALRN	3	123987823	Silent	SNP	C	TCGA-BR-8677-01A-11D-2394-08	30372311	123987823	74034607	13	53463											
PLXND1	23129	broad.mit.edu	37	chr3	129325170	129325170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcggcagctgcggagcgtGacacagcgggctgtcgggca	6	5	18	12	5	0	1	0	1	0	0	1	2	0	2	0	4	5	4	0	4	0	0			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr3:129325170G>A	uc003emx.2	-	1	413	c.313C>T	c.(313-315)CAC>TAC	p.H105Y		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	105	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						TGCGGAGCGTGACACAGCGGG	0.711													6	21					0	0	0.001984	0	0		A	129325170	A	A	129325170	3	1	86	1	0	0	0	0	1	0	0	0	12146	1290	45	4	5608	4	PLXND1	3	129325170	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08	5337347	129325170	68697260	14	53464											
CRIPAK	285464	broad.mit.edu	37	chr4	1388882	1388882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgatcacacgtgcccatGtggagtgctcgcctgctcac	6	9	11	15	2	2	1	2	1	0	0	3	2	2	2	3	1	3	2	3	1	0	0			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr4:1388882G>A	uc003gdf.2	+	1	3543	c.583G>A	c.(583-585)GTG>ATG	p.V195M		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	195					ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			ACGTGCCCATGTGGAGTGCTC	0.657													13	8					0	0	0.020292	0	0		A	1388882	A	A	1388882	3	1	86	1	0	0	0	0	1	0	0	0	3880	1377	48	4	585	4	CRIPAK	4	1388882	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08		1388882	189765394	15	53465											
PRMT10	90826	broad.mit.edu	37	chr4	148575180	148575180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taggaaagtgattggcttcaGatatgaggtccagagcaata	14	10	12	5	0	1	4	1	2	0	2	2	5	2	5	1	3	1	2	1	3	5	5			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr4:148575180G>A	uc003ilc.2	-	9	2010	c.1868C>T	c.(1867-1869)TCT>TTT	p.S623F	PRMT10_uc003ilb.2_Missense_Mutation_p.S267F|PRMT10_uc003ild.2_Missense_Mutation_p.S510F	NM_138364	NP_612373	Q6P2P2	ANM10_HUMAN	protein arginine methyltransferase 10	623						cytoplasm	binding|protein methyltransferase activity			ovary(1)|central_nervous_system(1)	2						ATTGGCTTCAGATATGAGGTC	0.443													11	43					0	0	0.010729	0	0		A	148575180	A	A	148575180	3	1	86	1	0	0	0	0	1	0	0	0	12558	942	33	4	685	4	PRMT10	4	148575180	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08	147186298	148575180	42579096	16	53466											
MRPL36	64979	broad.mit.edu	37	chr5	1798960	1798960	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacctcgaatggatccaaaTagaaatgtggagagggctcg	13	7	13	8	2	0	2	0	0	0	2	3	5	1	3	2	3	0	2	2	3	4	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr5:1798960T>C	uc003jcx.3	-	2	153	c.90A>G	c.(88-90)CTA>CTG	p.L30L	NDUFS6_uc003jcy.2_5'Flank	NM_032479	NP_115868	Q9P0J6	RM36_HUMAN	mitochondrial ribosomal protein L36 precursor	30					translation	mitochondrial large ribosomal subunit	structural constituent of ribosome				0				GBM - Glioblastoma multiforme(108;0.241)		TGGATCCAAATAGAAATGTGG	0.562													14	67					0	0	0.003163	0	0		C	1798960	C	C	1798960	2	2	86	1	0	0	0	0	0	0	0	1	9817	1393	49	3		3	MRPL36	5	1798960	Silent	SNP	T	TCGA-BR-8677-01A-11D-2394-08		1798960	179116300	17	53467											
C5orf38	153571	broad.mit.edu	37	chr5	2752817	2752817	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaagcctcccagtcacgtCgagaacgggcaggagctcag	10	5	13	13	3	2	2	2	1	0	1	4	4	3	3	2	2	3	2	2	2	2	0			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr5:2752817C>T	uc003jdc.2	+	2	399	c.282C>T	c.(280-282)GTC>GTT	p.V94V	C5orf38_uc011cmg.1_Silent_p.V94V|C5orf38_uc011cmh.1_RNA|C5orf38_uc011cmi.1_RNA|C5orf38_uc011cmj.1_Intron	NM_178569	NP_848664	Q86SI9	CEI_HUMAN	hypothetical protein LOC153571 precursor	94						extracellular region					0				GBM - Glioblastoma multiforme(108;0.205)		CCAGTCACGTCGAGAACGGGC	0.597													6	108					0	0	0.00308	0	0		T	2752817	T	T	2752817	2	4	86	1	0	0	0	0	0	0	0	1	2299	871	31	1		1	C5orf38	5	2752817	Silent	SNP	C	TCGA-BR-8677-01A-11D-2394-08	953857	2752817	178162443	18	53468											
HSPB3	8988	broad.mit.edu	37	chr5	53751847	53751847	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttcagatcctgctggaCgtggtccagttcctccctga	6	12	9	14	1	1	2	1	1	0	1	5	3	5	3	4	2	1	2	4	2	0	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr5:53751847C>T	uc003jph.1	+	1	403	c.228C>T	c.(226-228)GAC>GAT	p.D76D		NM_006308	NP_006299	Q12988	HSPB3_HUMAN	heat shock 27kDa protein 3	76					cell death|response to heat|response to unfolded protein	cytoplasm|nucleus					0		Lung NSC(810;0.00104)				TCCTGCTGGACGTGGTCCAGT	0.547													9	81					0	0	0.004482	0	0		T	53751847	T	T	53751847	2	4	86	1	0	0	0	0	0	0	0	1	7437	535	19	1		1	HSPB3	5	53751847	Silent	SNP	C	TCGA-BR-8677-01A-11D-2394-08	50999030	53751847	127163413	19	53469											
SEMA6A	57556	broad.mit.edu	37	chr5	115783361	115783361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcgctgcaccacagccaCgtctttgcgccgatgatcac	7	9	9	16	4	2	1	1	1	1	0	2	2	2	1	3	0	4	2	3	0	0	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr5:115783361C>T	uc010jck.2	-	19	2750	c.2041G>A	c.(2041-2043)GTG>ATG	p.V681M	SEMA6A_uc003krx.3_Missense_Mutation_p.V698M|SEMA6A_uc011cwe.1_Missense_Mutation_p.V60M|SEMA6A_uc003krv.3_Missense_Mutation_p.V108M|SEMA6A_uc003krw.3_Missense_Mutation_p.V158M|SEMA6A_uc010jcj.2_Missense_Mutation_p.V225M	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	681	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		ACCACAGCCACGTCTTTGCGC	0.617													6	84					0	0	0.001168	0	0		T	115783361	T	T	115783361	3	4	86	1	0	0	0	0	1	0	0	0	14064	536	19	1	1055	1	SEMA6A	5	115783361	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	62031514	115783361	65131899	20	53470											
ADAMTS19	171019	broad.mit.edu	37	chr5	128864285	128864285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggcaacatgaagaatttGgcaaaaagaatgatatacat	19	9	9	4	0	0	4	0	2	0	2	0	4	0	4	0	2	2	2	0	2	8	3			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr5:128864285G>A	uc003kvb.1	+	6	1225	c.1225G>A	c.(1225-1227)GGC>AGC	p.G409S	ADAMTS19_uc003kvc.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	409	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		TGAAGAATTTGGCAAAAAGAA	0.373													6	38					0	0	0.001168	0	0		A	128864285	A	A	128864285	3	1	86	1	0	0	0	0	1	0	0	0	264	1348	47	4	1247	4	ADAMTS19	5	128864285	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08	13080924	128864285	52050975	21	53471											
UNC5A	90249	broad.mit.edu	37	chr5	176301546	176301546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaacttcctcgggggcCggctgatgatccctaataca	8	10	9	14	2	1	2	1	2	0	0	4	2	3	2	4	3	2	1	4	3	3	4			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr5:176301546C>T	uc003mey.2	+	8	1549	c.1357C>T	c.(1357-1359)CGG>TGG	p.R453W	UNC5A_uc010jkg.1_Missense_Mutation_p.R413W	NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	453	ZU5.|Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCTCGGGGGCCGGCTGATGAT	0.627													11	129					0	0	0.008291	0	0		T	176301546	T	T	176301546	3	4	86	1	0	0	0	0	1	0	0	0	17017	643	23	1	1387	1	UNC5A	5	176301546	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	47437261	176301546	4613714	22	53472											
HIST1H2AG	8969	broad.mit.edu	37	chr6	27101073	27101073	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacgcggcccgcgacaacAagaagacccgcatcatcccg	12	2	10	17	6	1	2	1	0	0	2	2	3	2	2	3	1	2	2	3	1	4	0			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr6:27101073A>T	uc003niw.2	+	1	257	c.223A>T	c.(223-225)AAG>TAG	p.K75*	HIST1H2BJ_uc003niu.1_5'Flank|HIST1H2BJ_uc003niv.2_5'Flank	NM_021064	NP_066408	P0C0S8	H2A1_HUMAN	histone cluster 1, H2ag	75					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding				0						CCGCGACAACAAGAAGACCCG	0.662													17	142					0	0	0.006122	0	0		T	27101073	T	T	27101073	4	4	86	1	0	0	0	0	0	1	0	0	7149	131	5	5	225	5	HIST1H2AG	6	27101073	Nonsense_Mutation	SNP	A	TCGA-BR-8677-01A-11D-2394-08		27101073	144013994	23	53473											
OR2W1	26692	broad.mit.edu	37	chr6	29012864	29012864	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaagtagaagatggcgacaActcctgacaggatcatctcc	13	9	9	10	1	2	3	1	1	1	2	4	5	3	4	2	2	1	1	2	2	4	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr6:29012864A>C	uc003nlw.2	-	1	89	c.89T>G	c.(88-90)GTT>GGT	p.V30G		NM_030903	NP_112165	Q9Y3N9	OR2W1_HUMAN	olfactory receptor, family 2, subfamily W,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GATGGCGACAACTCCTGACAG	0.408													5	57					0	0	0.014758	0	0		C	29012864	C	C	29012864	3	2	86	1	0	0	0	0	1	0	0	0	11051	43	2	5	877	5	OR2W1	6	29012864	Missense_Mutation	SNP	A	TCGA-BR-8677-01A-11D-2394-08	1911791	29012864	142102203	24	53474											
SLC44A4	80736	broad.mit.edu	37	chr6	31838613	31838613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagccaggtctcctgcaCgctctggtaggcactgaggt	6	8	14	13	1	2	1	0	1	2	0	3	1	2	1	3	5	2	4	3	5	1	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr6:31838613C>T	uc010jti.2	-	10	979	c.913G>A	c.(913-915)GTG>ATG	p.V305M	SLC44A4_uc011dol.1_Missense_Mutation_p.V229M|SLC44A4_uc011dom.1_Missense_Mutation_p.V263M	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	305	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	GTCTCCTGCACGCTCTGGTAG	0.687													13	97					0	0	0.020292	0	0		T	31838613	T	T	31838613	3	4	86	1	0	0	0	0	1	0	0	0	14663	536	19	1	1267	1	SLC44A4	6	31838613	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	2825749	31838613	139276454	25	53475											
TREML2	79865	broad.mit.edu	37	chr6	41160244	41160244	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatcgctgcacatgctgtagCctgcaagaaacagggagagc	12	6	13	10	1	0	2	0	0	0	2	1	4	0	2	1	1	6	5	1	1	3	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr6:41160244C>A	uc010jxm.1	-	5	1066	c.887G>T	c.(886-888)AGC>ATC	p.S296I		NM_024807	NP_079083	Q5T2D2	TRML2_HUMAN	triggering receptor expressed on myeloid	296	Cytoplasmic (Potential).				T cell activation	cell surface|integral to membrane|plasma membrane	protein binding|receptor activity			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					CATGCTGTAGCCTGCAAGAAA	0.592													4	30					1.23904e-05	1.43178e-05	0.014758	1	0		A	41160244	A	A	41160244	3	1	86	1	0	0	0	0	1	0	0	0	16499	753	26	5	82	5	TREML2	6	41160244	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	9321631	41160244	129954823	26	53476											
TMEM195	392636	broad.mit.edu	37	chr7	15425094	15425094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtatctgcaaaggtctcttCataaaatgccaacatcagag	14	11	7	9	0	4	1	2	0	2	1	5	1	4	1	1	1	3	2	1	1	5	3			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr7:15425094C>T	uc003stb.1	-	10	1221	c.1051G>A	c.(1051-1053)GAA>AAA	p.E351K		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	351	Helical; (Potential).				ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						AAGGTCTCTTCATAAAATGCC	0.358													4	30					0	0	0.009096	0	0		T	15425094	T	T	15425094	3	4	86	1	0	0	0	0	1	0	0	0	16142	835	29	4	302	4	TMEM195	7	15425094	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08		15425094	143713569	27	53477											
AGR2	10551	broad.mit.edu	37	chr7	16841334	16841334	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtcctttgtgtcctttttGgctccaggtttgactgtggt	3	18	12	8	0	0	1	0	1	0	0	3	2	3	1	3	3	0	2	3	3	0	4			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr7:16841334G>A	uc003str.2	-	2	274	c.87C>T	c.(85-87)GCC>GCT	p.A29A	AGR2_uc011jxy.1_Silent_p.A29A	NM_006408	NP_006399	O95994	AGR2_HUMAN	anterior gradient 2 homolog precursor	29					mucus secretion	endoplasmic reticulum|extracellular region	protein binding				0	Lung NSC(10;0.0376)|all_lung(11;0.0855)			UCEC - Uterine corpus endometrioid carcinoma (126;0.184)		TGTCCTTTTTGGCTCCAGGTT	0.493													5	75					0	0	0.001984	0	0		A	16841334	A	A	16841334	2	1	86	1	0	0	0	0	0	0	0	1	395	1335	47	4		4	AGR2	7	16841334	Silent	SNP	G	TCGA-BR-8677-01A-11D-2394-08	1416240	16841334	142297329	28	53478											
ZNF273	10793	broad.mit.edu	37	chr7	64388475	64388475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctaaacataagataattcatCctgaagtgaatccctacaaa	18	10	4	9	0	1	3	1	2	0	1	3	3	3	3	2	0	2	0	2	0	8	5			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr7:64388475C>T	uc003tto.2	+	4	845	c.769C>T	c.(769-771)CCT>TCT	p.P257S	ZNF273_uc003ttl.2_Missense_Mutation_p.P192S|ZNF273_uc003ttn.2_Missense_Mutation_p.P192S	NM_021148	NP_066971	Q14593	ZN273_HUMAN	zinc finger protein 273	257					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(55;0.0295)|all_lung(88;0.0691)				GATAATTCATCCTGAAGTGAA	0.328													5	27					0	0	0.001168	0	0		T	64388475	T	T	64388475	3	4	86	1	0	0	0	0	1	0	0	0	17833	855	30	4	783	4	ZNF273	7	64388475	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	47547141	64388475	94750188	29	53479											
STRA8	346673	broad.mit.edu	37	chr7	134931359	134931360	+	Frame_Shift_Ins	INS	-	C	C																															ccctgcgaccctggcggaggINScctgccgagagccggcctgt																										TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr7:134931359_134931360insC	uc011kpx.1	+	6	637_638	c.637_638insC	c.(637-639)GCCfs	p.A213fs		NM_182489	NP_872295	Q7Z7C7	STRA8_HUMAN	STRA8	213					DNA replication|regulation of transcription, DNA-dependent	cytoplasm|nucleus					0						CCTGGCGGAGGCCTGCCGAGAG	0.728													2	4	---	---	---	---						.	C	134931360	C	C	134931359	7	5	86	1	0	1	1	0	0	0	0	0	15348	1203	42	0	659	0	STRA8	7	134931359	Frame_Shift_Ins	INS	-	TCGA-BR-8677-01A-11D-2394-08	70542884	134931359	24207304	30	53480											
CRISPLD1	83690	broad.mit.edu	37	chr8	75932271	75932271	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgacttgtgaaacaactgtgGaacagctctgtccatttcat	11	13	8	9	0	2	2	1	2	1	0	3	3	3	3	1	1	4	1	1	1	3	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr8:75932271G>A	uc003yan.2	+	12	1576	c.1201G>A	c.(1201-1203)GAA>AAA	p.E401K	CRISPLD1_uc011lfk.1_Missense_Mutation_p.E213K|CRISPLD1_uc011lfl.1_Missense_Mutation_p.E213K	NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	401	LCCL 2.					extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			AACAACTGTGGAACAGCTCTG	0.408													4	37					0	0	0.009096	0	0		A	75932271	A	A	75932271	3	1	86	1	0	0	0	0	1	0	0	0	3885	1175	41	4	1243	4	CRISPLD1	8	75932271	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08		75932271	70431751	31	53481											
KCNS2	3788	broad.mit.edu	37	chr8	99441350	99441350	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtggggtacggggatgtggtCccagggaccacggcaggaaa	9	5	19	8	2	0	0	0	0	0	0	1	3	1	3	2	8	1	2	2	8	2	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr8:99441350C>T	uc003yin.2	+	2	1493	c.1143C>T	c.(1141-1143)GTC>GTT	p.V381V		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	381						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			GGGATGTGGTCCCAGGGACCA	0.592													18	124					0	0	0.00499	0	0		T	99441350	T	T	99441350	2	4	86	1	0	0	0	0	0	0	0	1	8105	842	30	4		4	KCNS2	8	99441350	Silent	SNP	C	TCGA-BR-8677-01A-11D-2394-08	23509079	99441350	46922672	32	53482											
SPAG1	6674	broad.mit.edu	37	chr8	101178164	101178164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaacagcagccagttttaCagctgaagaatgggaaaaaa	18	6	10	7	0	0	2	0	1	0	1	0	3	0	3	1	1	6	4	1	1	7	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr8:101178164C>T	uc003yjh.1	+	3	349	c.263C>T	c.(262-264)ACA>ATA	p.T88I	SPAG1_uc003yjg.1_Missense_Mutation_p.T88I|SPAG1_uc003yji.1_Missense_Mutation_p.T88I	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	88					single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		GCCAGTTTTACAGCTGAAGAA	0.363													4	38					0	0	0.009096	0	0		T	101178164	T	T	101178164	3	4	86	1	0	0	0	0	1	0	0	0	15000	478	17	4	269	4	SPAG1	8	101178164	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	1736814	101178164	45185858	33	53483											
CSMD3	114788	broad.mit.edu	37	chr8	114186070	114186070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agctgtagcggatcttgtccCcgacgtcgaatcttgtgcca	7	11	11	12	4	2	0	0	0	2	0	4	3	3	1	3	1	3	2	3	1	2	3			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr8:114186070C>T	uc003ynu.2	-	4	749	c.590G>A	c.(589-591)GGG>GAG	p.G197E	CSMD3_uc003ynt.2_Missense_Mutation_p.G157E|CSMD3_uc011lhx.1_Missense_Mutation_p.G197E|CSMD3_uc010mcx.1_Missense_Mutation_p.G197E	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	197	Extracellular (Potential).|Sushi 1.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GATCTTGTCCCCGACGTCGAA	0.458										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			6	54					0	0	0.001168	0	0		T	114186070	T	T	114186070	3	4	86	1	0	0	0	0	1	0	0	0	3949	623	22	4	10805	4	CSMD3	8	114186070	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	13007906	114186070	32177952	34	53484											
TG	7038	broad.mit.edu	37	chr8	133900456	133900456	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggatctgacgcctgccaagCtgctagtgaagatcatgagc	11	8	12	10	1	2	4	1	3	1	1	2	5	2	5	2	1	4	2	2	1	3	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr8:133900456C>A	uc003ytw.2	+	10	2445	c.2404C>A	c.(2404-2406)CTG>ATG	p.L802M		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	802	Thyroglobulin type-1 7.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GCCTGCCAAGCTGCTAGTGAA	0.522													5	42					0.000602214	0.00066628	0.014758	1	0		A	133900456	A	A	133900456	3	1	86	1	0	0	0	0	1	0	0	0	15838	796	28	5	2442	5	TG	8	133900456	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	19714386	133900456	12463566	35	53485											
FLJ43860	389690	broad.mit.edu	37	chr8	142500353	142500353	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcatgttgctggccgcGtcctggtatatgtcttccag	6	12	11	12	2	1	0	0	0	1	0	3	0	3	0	4	2	2	4	4	2	2	4			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr8:142500353G>A	uc003ywi.2	-	5	642	c.561C>T	c.(559-561)GAC>GAT	p.D187D	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	187							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			TGCTGGCCGCGTCCTGGTATA	0.632													6	69					0	0	0.004482	0	0		A	142500353	A	A	142500353	2	1	86	1	0	0	0	0	0	0	0	1	5944	1136	40	1		1	FLJ43860	8	142500353	Silent	SNP	G	TCGA-BR-8677-01A-11D-2394-08	8599897	142500353	3863669	36	53486											
GABBR2	9568	broad.mit.edu	37	chr9	101148039	101148039	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggttgttcatgtatggactCgacatctttatgagcctgac	9	14	10	8	1	2	2	1	2	1	0	3	4	2	3	1	2	1	3	1	2	2	5			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr9:101148039C>T	uc004ays.2	-	11	1701	c.1545G>A	c.(1543-1545)TCG>TCA	p.S515S		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	515	Cytoplasmic (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	TGTATGGACTCGACATCTTTA	0.388													9	41					0	0	0.006214	0	0		T	101148039	T	T	101148039	2	4	86	1	0	0	0	0	0	0	0	1	6170	871	31	1		1	GABBR2	9	101148039	Silent	SNP	C	TCGA-BR-8677-01A-11D-2394-08		101148039	40065392	37	53487											
TGFBR1	7046	broad.mit.edu	37	chr9	101904872	101904872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agattatcatgagcatggatCcctttttgattacttaaaca	13	15	6	7	0	1	3	1	2	0	1	2	4	2	4	1	1	3	1	1	1	4	5			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr9:101904872C>T	uc004azc.2	+	5	936	c.860C>T	c.(859-861)TCC>TTC	p.S287F	TGFBR1_uc004azd.2_Missense_Mutation_p.S210F|TGFBR1_uc011lvc.1_Missense_Mutation_p.S218F	NM_004612	NP_004603	P36897	TGFR1_HUMAN	transforming growth factor, beta receptor I	287	Protein kinase.|Cytoplasmic (Potential).				activation of MAPKK activity|anterior/posterior pattern formation|artery morphogenesis|collagen fibril organization|embryonic cranial skeleton morphogenesis|germ cell migration|heart development|kidney development|neuron fate commitment|palate development|parathyroid gland development|pathway-restricted SMAD protein phosphorylation|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|pharyngeal system development|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of cellular component movement|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of SMAD protein import into nucleus|positive regulation of survival gene product expression|positive regulation of transcription, DNA-dependent|response to cholesterol|thymus development|transforming growth factor beta receptor signaling pathway		ATP binding|I-SMAD binding|metal ion binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type I|type II transforming growth factor beta receptor binding			lung(2)|ovary(1)	3		Acute lymphoblastic leukemia(62;0.0559)				GAGCATGGATCCCTTTTTGAT	0.428													19	58					0	0	0.008871	0	0		T	101904872	T	T	101904872	3	4	86	1	0	0	0	0	1	0	0	0	15846	855	30	4	878	4	TGFBR1	9	101904872	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	756833	101904872	39308559	38	53488											
UCK1	83549	broad.mit.edu	37	chr9	134404543	134404543	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagcctgacgtcggagtcGgtgtccacgaagaggcgcag	9	5	16	11	5	0	2	0	1	0	1	3	5	1	3	2	3	1	1	2	3	1	0	rs149130090	byFrequency	TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr9:134404543G>A	uc004cay.2	-	4	581	c.480C>T	c.(478-480)ACC>ACT	p.T160T	UCK1_uc010mzk.2_Silent_p.T151T|UCK1_uc004cba.2_Silent_p.T160T|UCK1_uc004caz.2_RNA	NM_031432	NP_113620	Q9HA47	UCK1_HUMAN	uridine-cytidine kinase 1 isoform a	160					pyrimidine base metabolic process|pyrimidine nucleoside salvage	cytosol	ATP binding|phosphotransferase activity, alcohol group as acceptor|uridine kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;2.34e-05)|Epithelial(140;0.000219)		CGTCGGAGTCGGTGTCCACGA	0.647													4	51					0	0	0.014758	0	0		A	134404543	A	A	134404543	2	1	86	1	0	0	0	0	0	0	0	1	16949	1103	39	1		1	UCK1	9	134404543	Silent	SNP	G	TCGA-BR-8677-01A-11D-2394-08	32499671	134404543	6808888	39	53489											
SLK	9748	broad.mit.edu	37	chr10	105777982	105777982	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaaaaagatcatccagcAgcagaaggcagagttagcta	16	7	10	8	0	2	4	1	1	1	3	3	4	3	4	1	1	3	5	1	1	5	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr10:105777982A>C	uc001kxo.1	+	14	2976	c.2942A>C	c.(2941-2943)CAG>CCG	p.Q981P	SLK_uc001kxp.1_Missense_Mutation_p.Q950P	NM_014720	NP_055535	Q9H2G2	SLK_HUMAN	serine/threonine kinase 2	981	Potential.				apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		ATCATCCAGCAGCAGAAGGCA	0.338													5	18					0	0	0.001168	0	0		C	105777982	C	C	105777982	3	2	86	1	0	0	0	0	1	0	0	0	14773	188	7	5	2996	5	SLK	10	105777982	Missense_Mutation	SNP	A	TCGA-BR-8677-01A-11D-2394-08		105777982	29756765	40	53490											
TSSC4	10078	broad.mit.edu	37	chr11	2424220	2424220	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaccagcatgagtgacaaCggaggcttcaagcggcccct	11	5	11	14	2	1	2	1	2	0	0	1	3	1	3	3	3	3	2	3	3	2	1	rs142339475		TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr11:2424220C>T	uc001lwj.2	+	4	718	c.357C>T	c.(355-357)AAC>AAT	p.N119N	TSSC4_uc001lwi.2_Silent_p.N55N|TSSC4_uc001lwk.2_Silent_p.N119N|TSSC4_uc001lwl.2_Silent_p.N119N	NM_005706	NP_005697	Q9Y5U2	TSSC4_HUMAN	tumor suppressing subtransferable candidate 4	119											0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.00145)|LUSC - Lung squamous cell carcinoma(625;0.19)		TGAGTGACAACGGAGGCTTCA	0.682													3	17					0	0	0.004672	0	0		T	2424220	T	T	2424220	2	4	86	1	0	0	0	0	0	0	0	1	16693	535	19	1		1	TSSC4	11	2424220	Silent	SNP	C	TCGA-BR-8677-01A-11D-2394-08		2424220	132582296	41	53491											
UBQLN3	50613	broad.mit.edu	37	chr11	5530122	5530122	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggcagggttacgtaaaaActccagtgtctgccgcataa	12	9	10	10	2	1	0	0	0	1	0	2	0	2	0	2	2	3	4	2	2	5	3			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr11:5530122A>G	uc001may.1	-	2	753	c.667T>C	c.(667-669)TTT>CTT	p.F223L	HBG2_uc001mak.1_Intron	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	223										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTACGTAAAAACTCCAGTGTC	0.507													10	88					0	0	0.008291	0	0		G	5530122	G	G	5530122	3	3	86	1	0	0	0	0	1	0	0	0	16924	43	2	3	1304	3	UBQLN3	11	5530122	Missense_Mutation	SNP	A	TCGA-BR-8677-01A-11D-2394-08	3105902	5530122	129476394	42	53492											
SCUBE2	57758	broad.mit.edu	37	chr11	9069615	9069615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatgtaaggtttacgtagCggaagctctcttttactgag	9	14	11	7	2	1	1	0	1	1	0	2	2	1	2	0	2	5	5	0	2	5	6			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr11:9069615C>T	uc001mhh.1	-	14	1663	c.1583G>A	c.(1582-1584)CGC>CAC	p.R528H	SCUBE2_uc001mhi.1_Missense_Mutation_p.R557H|SCUBE2_uc001mhj.1_Intron	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	528						extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		GTTTACGTAGCGGAAGCTCTC	0.473													44	198					0	0	0.010771	0	0		T	9069615	T	T	9069615	3	4	86	1	0	0	0	0	1	0	0	0	13970	768	27	1	1452	1	SCUBE2	11	9069615	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	3539493	9069615	125936901	43	53493											
OR5R1	219479	broad.mit.edu	37	chr11	56184809	56184809	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatccaaggctttctttgaGgcatctttcacttctttgtt	6	20	6	9	0	4	1	1	1	3	0	5	1	5	1	1	2	0	3	1	2	2	7			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr11:56184809G>C	uc010rji.1	-	1	900	c.900C>G	c.(898-900)GCC>GCG	p.A300A		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CTTTCTTTGAGGCATCTTTCA	0.333													6	56					0	0	0.001984	0	0		C	56184809	C	C	56184809	2	2	86	1	0	0	0	0	0	0	0	1	11199	987	35	5		5	OR5R1	11	56184809	Silent	SNP	G	TCGA-BR-8677-01A-11D-2394-08	47115194	56184809	78821707	44	53494											
SERPING1	710	broad.mit.edu	37	chr11	57373905	57373905	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggaagacaacatttgatcCcaagaaaaccagaatggaac	18	6	9	8	0	0	4	0	1	0	3	1	6	1	6	2	2	3	0	2	2	7	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr11:57373905C>T	uc001nkp.1	+	6	1105	c.914C>T	c.(913-915)CCC>CTC	p.P305L	SERPING1_uc001nkq.1_Missense_Mutation_p.P305L|SERPING1_uc010rju.1_Missense_Mutation_p.P253L|SERPING1_uc010rjv.1_Missense_Mutation_p.P310L|SERPING1_uc001nkr.1_Missense_Mutation_p.P305L|SERPING1_uc009ymi.1_Missense_Mutation_p.P314L|SERPING1_uc009ymj.1_Missense_Mutation_p.P305L|SERPING1_uc001nks.1_5'UTR	NM_000062	NP_000053	P05155	IC1_HUMAN	serpin peptidase inhibitor, clade G, member 1	305					blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1						ACATTTGATCCCAAGAAAACC	0.438									Hereditary_Angioedema				10	59					0	0	0.010729	0	0		T	57373905	T	T	57373905	3	4	86	1	0	0	0	0	1	0	0	0	14141	623	22	4	932	4	SERPING1	11	57373905	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	1189096	57373905	77632611	45	53495											
GRM5	2915	broad.mit.edu	37	chr11	88583181	88583181	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccacccgggccttgggCaagtgacttgtgagcttctt	6	10	12	13	1	1	2	0	2	1	0	1	2	1	2	4	2	1	2	4	2	1	4			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr11:88583181C>A	uc001pcq.2	-	2	1004	c.804G>T	c.(802-804)TTG>TTT	p.L268F	GRM5_uc009yvm.2_Missense_Mutation_p.L268F	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	268	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	GGGCCTTGGGCAAGTGACTTG	0.552													6	59					0.00198382	0.00212698	0.001984	1	0		A	88583181	A	A	88583181	3	1	86	1	0	0	0	0	1	0	0	0	6816	709	25	5	2866	5	GRM5	11	88583181	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	31209276	88583181	46423335	46	53496											
SPA17	53340	broad.mit.edu	37	chr11	124551345	124551345	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccgcttctataacaatcAtgcattcgaggtatggtcct	11	12	8	10	2	2	1	1	0	1	1	4	2	3	1	2	2	2	3	2	2	4	5			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr11:124551345A>G	uc001qap.2	+	3	351	c.215A>G	c.(214-216)CAT>CGT	p.H72R		NM_017425	NP_059121	Q15506	SP17_HUMAN	sperm autoantigenic protein 17	72					binding of sperm to zona pellucida|ciliary or flagellar motility|signal transduction|spermatogenesis	cytoplasm|flagellum|membrane|motile cilium|primary cilium	cAMP-dependent protein kinase regulator activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0223)		TATAACAATCATGCATTCGAG	0.363													4	29					0	0	0.001168	0	0		G	124551345	G	G	124551345	3	3	86	1	0	0	0	0	1	0	0	0	14996	217	8	3	221	3	SPA17	11	124551345	Missense_Mutation	SNP	A	TCGA-BR-8677-01A-11D-2394-08	35968164	124551345	10455171	47	53497											
SLC6A13	6540	broad.mit.edu	37	chr12	333238	333238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccctccggttcttcttgcGgaacacgtgagggtacatgt	6	13	11	11	3	2	1	0	1	2	0	4	2	4	2	2	3	3	2	2	3	2	5			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr12:333238G>A	uc001qic.1	-	11	1284	c.1231C>T	c.(1231-1233)CGC>TGC	p.R411C	SLC6A13_uc009zdj.1_Missense_Mutation_p.R401C|SLC6A13_uc010sdl.1_Missense_Mutation_p.R319C	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	411					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			TTCTTCTTGCGGAACACGTGA	0.572													6	50					0	0	0.001168	0	0		A	333238	A	A	333238	3	1	86	1	0	0	0	0	1	0	0	0	14701	1116	39	1	597	1	SLC6A13	12	333238	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08		333238	133518657	48	53498											
FKBP3	2287	broad.mit.edu	37	chr14	45603647	45603647	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtccacgcccgctgtggaaCggccgccgccatcttccccc	4	6	11	20	5	1	0	0	0	1	0	3	1	3	1	7	3	1	1	7	3	1	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr14:45603647C>G	uc010tqf.1	-	1	86	c.13G>C	c.(13-15)GTT>CTT	p.V5L	FANCM_uc001wwc.2_5'Flank|FANCM_uc001wwd.3_5'Flank|FANCM_uc010anf.2_5'Flank	NM_002013	NP_002004	Q00688	FKBP3_HUMAN	FK506 binding protein 3, 25kDa	5					protein folding	membrane|nucleus	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|receptor activity				0						CGCTGTGGAACGGCCGCCGCC	0.667													10	93					0	0	0.008291	0	0		G	45603647	G	G	45603647	3	3	86	1	0	0	0	0	1	0	0	0	5923	536	19	5	689	5	FKBP3	14	45603647	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08		45603647	61745893	49	53499											
PNMA1	9240	broad.mit.edu	37	chr14	74179980	74179980	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttctgaaacccaaggacAcgggcaacatcttgcacggt	11	7	12	11	2	2	1	0	1	2	0	2	2	2	2	1	4	3	3	1	4	3	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr14:74179980A>G	uc001xor.1	-	1	1149	c.363T>C	c.(361-363)CGT>CGC	p.R121R		NM_006029	NP_006020	Q8ND90	PNMA1_HUMAN	paraneoplastic antigen MA1	121					apoptosis|central nervous system development|inflammatory response to antigenic stimulus|spermatogenesis	cytoplasm|focal adhesion|nucleolus	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00331)|KIRC - Kidney renal clear cell carcinoma(182;0.0797)		acccaaggacacgggcaacat	0													8	116					0	0	0.006214	0	0		G	74179980	G	G	74179980	2	3	86	1	0	0	0	0	0	0	0	1	12172	146	6	3		3	PNMA1	14	74179980	Silent	SNP	A	TCGA-BR-8677-01A-11D-2394-08	28576333	74179980	33169560	50	53500											
RHBDF1	64285	broad.mit.edu	37	chr16	112868	112868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttcgacgctgtgcccggcGaaaggtgccatccctaacgg	7	7	13	14	5	0	0	0	0	0	0	2	2	1	0	3	3	3	2	3	3	2	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr16:112868G>A	uc002cfl.3	-	9	848	c.700C>T	c.(700-702)CGC>TGC	p.R234C	RHBDF1_uc010uty.1_Missense_Mutation_p.R257C|RHBDF1_uc010utz.1_Missense_Mutation_p.R234C|RHBDF1_uc010bqo.1_RNA	NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	234	Cytoplasmic (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				TGTGCCCGGCGAAAGGTGCCA	0.637													15	87					0	0	0.006122	0	0		A	112868	A	A	112868	3	1	86	1	0	0	0	0	1	0	0	0	13344	1058	37	1	1919	1	RHBDF1	16	112868	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08		112868	90241885	51	53501											
ZSCAN10	84891	broad.mit.edu	37	chr16	3140332	3140332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgcccagccgggtgcgagCgcagctggtgcgccttcagg	5	5	17	14	5	1	0	1	0	0	0	1	1	1	0	3	3	6	2	3	3	0	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr16:3140332C>T	uc002ctv.1	-	5	1026	c.938G>A	c.(937-939)CGC>CAC	p.R313H	ZSCAN10_uc002cty.1_5'UTR|ZSCAN10_uc002ctw.1_Missense_Mutation_p.R231H|ZSCAN10_uc002ctx.1_Missense_Mutation_p.R241H	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	313	C2H2-type 1.				negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						CGGGTGCGAGCGCAGCTGGTG	0.667													20	151					0	0	0.008871	0	0		T	3140332	T	T	3140332	3	4	86	1	0	0	0	0	1	0	0	0	18252	768	27	1	1243	1	ZSCAN10	16	3140332	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	3027464	3140332	87214421	52	53502											
SALL1	6299	broad.mit.edu	37	chr16	51174200	51174200	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggggccgcagtctgccgctgGggagctcaggacgctactgc	5	6	17	13	3	2	0	1	0	1	0	2	2	2	2	2	5	4	4	2	5	1	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr16:51174200G>C	uc010vgs.1	-	2	1964	c.1933C>G	c.(1933-1935)CCA>GCA	p.P645A	SALL1_uc010vgr.1_Missense_Mutation_p.P548A|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	645					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TCTGCCGCTGGGGAGCTCAGG	0.627													18	100					0	0	0.012319	0	0		C	51174200	C	C	51174200	3	2	86	1	0	0	0	0	1	0	0	0	13835	1232	43	5	2049	5	SALL1	16	51174200	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08	48033868	51174200	39180553	53	53503											
CDH8	1006	broad.mit.edu	37	chr16	61687818	61687818	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaatctggtttaatatcCttacggggtaaaaatccatt	13	14	7	7	1	1	0	0	0	1	0	3	0	3	0	2	3	2	3	2	3	7	6			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr16:61687818C>A	uc002eog.1	-	12	2346	c.2094G>T	c.(2092-2094)AAG>AAT	p.K698N		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	698	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		GTTTAATATCCTTACGGGGTA	0.423													5	79					0.000602214	0.00066628	0.014758	1	0		A	61687818	A	A	61687818	3	1	86	1	0	0	0	0	1	0	0	0	3119	680	24	5	309	5	CDH8	16	61687818	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	10513618	61687818	28666935	54	53504											
MINK1	50488	broad.mit.edu	37	chr17	4794803	4794803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atatgcagcacctgtaccccGatcccagtccctgcaggacc	9	7	8	17	1	0	0	0	0	0	0	2	2	2	1	6	1	4	4	6	1	2	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr17:4794803G>A	uc010vsl.1	+	16	1989	c.1793G>A	c.(1792-1794)CGA>CAA	p.R598Q	MINK1_uc010vsk.1_Missense_Mutation_p.R598Q|MINK1_uc010vsm.1_Intron|MINK1_uc010vsn.1_Missense_Mutation_p.R598Q|MINK1_uc010vso.1_Missense_Mutation_p.R543Q|MINK1_uc010vsp.1_Missense_Mutation_p.R88Q	NM_153827	NP_722549	Q8N4C8	MINK1_HUMAN	misshapen-like kinase 1 isoform 3	598					JNK cascade	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)|skin(1)	6						CCTGTACCCCGATCCCAGTCC	0.672													8	36					0	0	0.00308	0	0		A	4794803	A	A	4794803	3	1	86	1	0	0	0	0	1	0	0	0	9605	1058	37	1	1594	1	MINK1	17	4794803	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08		4794803	76400407	55	53505											
GLP2R	9340	broad.mit.edu	37	chr17	9792816	9792816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagctctcggaaggagatGgcgctgagaagcttcggaag	12	6	16	7	3	1	3	0	1	1	3	3	7	1	5	0	4	2	3	0	4	4	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr17:9792816G>A	uc002gmd.1	+	13	1456	c.1456G>A	c.(1456-1458)GGC>AGC	p.G486S		NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	486	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	GGAAGGAGATGGCGCTGAGAA	0.607													9	106					0	0	0.008291	0	0		A	9792816	A	A	9792816	3	1	86	1	0	0	0	0	1	0	0	0	6468	1348	47	4	1506	4	GLP2R	17	9792816	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08	4998013	9792816	71402394	56	53506											
PTRF	284119	broad.mit.edu	37	chr17	40556837	40556837	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcgccgccctcgtcgtcGtcggcgcccacctccaccat	3	7	9	22	8	0	0	0	0	0	0	6	0	2	0	7	1	0	0	7	1	0	0			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr17:40556837G>A	uc002hzo.2	-	2	1200	c.1041C>T	c.(1039-1041)GAC>GAT	p.D347D	PTRF_uc010wgi.1_Silent_p.D329D	NM_012232	NP_036364	Q6NZI2	PTRF_HUMAN	polymerase I and transcript release factor	347					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription initiation from RNA polymerase I promoter	caveola|cytosol|endoplasmic reticulum|microsome|mitochondrion|nucleoplasm	protein binding|rRNA primary transcript binding			breast(1)	1		all_cancers(22;0.00146)|Breast(137;0.00116)|all_epithelial(22;0.0134)		BRCA - Breast invasive adenocarcinoma(366;0.193)		CCTCGTCGTCGTCGGCGCCCA	0.706													22	71					0	0	0.012319	0	0		A	40556837	A	A	40556837	2	1	86	1	0	0	0	0	0	0	0	1	12840	1136	40	1		1	PTRF	17	40556837	Silent	SNP	G	TCGA-BR-8677-01A-11D-2394-08	30764021	40556837	40638373	57	53507											
SKAP1	8631	broad.mit.edu	37	chr17	46262101	46262101	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctcatagctgcgcctaTcctgggaggtcagttcaaag	9	10	10	12	1	3	0	3	0	0	0	4	1	4	1	3	2	3	2	3	2	4	4			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr17:46262101T>C	uc002ini.1	-	7	663	c.551A>G	c.(550-552)GAT>GGT	p.D184G	SKAP1_uc002inj.1_Missense_Mutation_p.D184G|SKAP1_uc010dbd.1_Missense_Mutation_p.D90G|SKAP1_uc010dbe.1_Missense_Mutation_p.D184G	NM_003726	NP_003717	Q86WV1	SKAP1_HUMAN	src kinase associated phosphoprotein 1 isoform	184	PH.				positive regulation of transcription from RNA polymerase II promoter|T cell receptor signaling pathway	cytoplasm|nucleus|plasma membrane	antigen binding|protein kinase binding|SH2 domain binding				0						GCTGCGCCTATCCTGGGAGGT	0.522													19	144					0	0	0.007413	0	0		C	46262101	C	C	46262101	3	2	86	1	0	0	0	0	1	0	0	0	14380	1435	50	3	552	3	SKAP1	17	46262101	Missense_Mutation	SNP	T	TCGA-BR-8677-01A-11D-2394-08	5705264	46262101	34933109	58	53508											
PRPSAP1	5635	broad.mit.edu	37	chr17	74309056	74309056	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctctctttcaggatctcCgcggcagcaacaaaactctc	9	10	6	16	2	5	0	1	0	4	0	8	1	5	1	2	2	3	2	2	2	3	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr17:74309056C>T	uc010wta.1	-	9	1340	c.894G>A	c.(892-894)GCG>GCA	p.A298A	PRPSAP1_uc010wtb.1_Silent_p.A195A	NM_002766	NP_002757	Q14558	KPRA_HUMAN	phosphoribosyl pyrophosphate	269					nucleotide biosynthetic process		enzyme inhibitor activity|identical protein binding|magnesium ion binding|ribose phosphate diphosphokinase activity			ovary(1)	1						TCAGGATCTCCGCGGCAGCAA	0.522													8	103					0	0	0.006214	0	0		T	74309056	T	T	74309056	2	4	86	1	0	0	0	0	0	0	0	1	12603	639	23	1		1	PRPSAP1	17	74309056	Silent	SNP	C	TCGA-BR-8677-01A-11D-2394-08	28046955	74309056	6886154	59	53509											
KIAA0802	23255	broad.mit.edu	37	chr18	8784659	8784659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctggggaccatcaacGccaagatgaaggctttcaag	12	7	12	10	1	2	2	2	1	0	1	2	3	2	3	2	3	3	3	2	3	4	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr18:8784659G>A	uc002knr.2	+	6	1691	c.1549G>A	c.(1549-1551)GCC>ACC	p.A517T	KIAA0802_uc002knq.2_Missense_Mutation_p.A517T|KIAA0802_uc010dkw.1_Missense_Mutation_p.A355T	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	868											0						GACCATCAACGCCAAGATGAA	0.652													9	135					0	0	0.004482	0	0		A	8784659	A	A	8784659	3	1	86	1	0	0	0	0	1	0	0	0	8210	1087	38	1	1563	1	KIAA0802	18	8784659	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08		8784659	69292589	60	53510											
ST8SIA5	29906	broad.mit.edu	37	chr18	44260284	44260284	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgagccagtagcgcgacacGttgaccaggtactgcggatg	9	7	14	11	4	0	2	0	2	0	0	0	4	0	3	2	2	4	3	2	2	2	3			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr18:44260284G>A	uc002lcj.1	-	7	1420	c.852C>T	c.(850-852)AAC>AAT	p.N284N	ST8SIA5_uc002lci.1_Silent_p.N131N|ST8SIA5_uc010xcy.1_Silent_p.N320N|ST8SIA5_uc010xcz.1_Silent_p.N253N	NM_013305	NP_037437	O15466	SIA8E_HUMAN	ST8 alpha-N-acetyl-neuraminide	284	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						AGCGCGACACGTTGACCAGGT	0.627													7	73					0	0	0.004482	0	0		A	44260284	A	A	44260284	2	1	86	1	0	0	0	0	0	0	0	1	15260	1136	40	1		1	ST8SIA5	18	44260284	Silent	SNP	G	TCGA-BR-8677-01A-11D-2394-08	35475625	44260284	33816964	61	53511											
NFIC	4782	broad.mit.edu	37	chr19	3452579	3452579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcccccacacggccatccGctacccacctcatctcaacc	8	7	3	23	2	2	0	2	0	1	0	5	0	4	0	7	1	2	1	7	1	2	2	rs140170107		TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr19:3452579G>A	uc010xhi.1	+	8	1246	c.1184G>A	c.(1183-1185)CGC>CAC	p.R395H	NFIC_uc002lxo.2_Missense_Mutation_p.R386H|NFIC_uc010xhh.1_Missense_Mutation_p.R386H|NFIC_uc002lxp.2_Missense_Mutation_p.R395H|NFIC_uc010xhj.1_Missense_Mutation_p.R395H	NM_205843	NP_995315	P08651	NFIC_HUMAN	nuclear factor I/C isoform 2	395					DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.8e-05)|Epithelial(107;2.94e-108)|BRCA - Breast invasive adenocarcinoma(158;0.00154)|STAD - Stomach adenocarcinoma(1328;0.191)		ACGGCCATCCGCTACCCACCT	0.662													20	401					0	0	0.012319	0	0		A	3452579	A	A	3452579	3	1	86	1	0	0	0	0	1	0	0	0	10391	1087	38	1	1221	1	NFIC	19	3452579	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08		3452579	55676404	62	53512											
NPHS1	4868	broad.mit.edu	37	chr19	36322010	36322010	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctgggggctgaagtccctCagggagcggtaatacggctc	8	7	16	10	2	1	1	1	1	0	0	3	2	2	2	1	5	3	4	1	5	3	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr19:36322010C>T	uc002oby.2	-	27	3426	c.3426G>A	c.(3424-3426)CTG>CTA	p.L1142L	NPHS1_uc010eem.1_RNA	NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	1142	Cytoplasmic (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGAAGTCCCTCAGGGAGCGGT	0.587													12	159					0	0	0.003163	0	0		T	36322010	T	T	36322010	2	4	86	1	0	0	0	0	0	0	0	1	10601	813	29	4		4	NPHS1	19	36322010	Silent	SNP	C	TCGA-BR-8677-01A-11D-2394-08	32869431	36322010	22806973	63	53513											
PSG7	5676	broad.mit.edu	37	chr19	43433795	43433795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcatctggagtctcaggatCacaggttaaaatcacagcct	12	10	9	10	0	4	0	3	0	2	0	5	2	4	2	1	3	2	2	1	3	2	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr19:43433795C>T	uc002ovl.3	-	4	610	c.508G>A	c.(508-510)GAT>AAT	p.D170N	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_5'Flank|PSG7_uc002out.1_5'UTR|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Missense_Mutation_p.D48N	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	170	Ig-like C2-type 1.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				GTCTCAGGATCACAGGTTAAA	0.527													22	234					0	0	0.012319	0	0		T	43433795	T	T	43433795	3	4	86	1	0	0	0	0	1	0	0	0	12682	826	29	4	767	4	PSG7	19	43433795	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	7111785	43433795	15695188	64	53514											
IRGQ	126298	broad.mit.edu	37	chr19	44097366	44097366	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgtcagccttgccagccacGgccaggtctagccgtgcgct	6	7	12	16	4	2	0	1	0	1	0	2	0	2	0	5	2	5	1	5	2	1	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr19:44097366G>A	uc002oww.2	-	2	802	c.684C>T	c.(682-684)GCC>GCT	p.A228A	IRGQ_uc010eiv.2_Silent_p.A228A	NM_001007561	NP_001007562	Q8WZA9	IRGQ_HUMAN	immunity-related GTPase family, Q	228							protein binding			ovary(1)|pancreas(1)	2		Prostate(69;0.0199)				TGCCAGCCACGGCCAGGTCTA	0.687													18	160					0	0	0.010504	0	0		A	44097366	A	A	44097366	2	1	86	1	0	0	0	0	0	0	0	1	7855	1103	39	1		1	IRGQ	19	44097366	Silent	SNP	G	TCGA-BR-8677-01A-11D-2394-08	663571	44097366	15031617	65	53515											
ZNF432	9668	broad.mit.edu	37	chr19	52538109	52538109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgatgttcaatcagacGgctcttcatagtgaagactt	10	13	9	9	2	4	4	3	2	1	2	5	4	4	4	0	1	0	3	0	1	3	4			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr19:52538109G>A	uc002pyk.2	-	5	1141	c.823C>T	c.(823-825)CGT>TGT	p.R275C		NM_014650	NP_055465	O94892	ZN432_HUMAN	zinc finger protein 432	275	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|pancreas(1)	3		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.0054)|OV - Ovarian serous cystadenocarcinoma(262;0.0182)		TCAATCAGACGGCTCTTCATA	0.393													6	58					0	0	0.001984	0	0		A	52538109	A	A	52538109	3	1	86	1	0	0	0	0	1	0	0	0	17931	1116	39	1	1139	1	ZNF432	19	52538109	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08	8440743	52538109	6590874	66	53516											
ZNF480	147657	broad.mit.edu	37	chr19	52817468	52817468	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggagtggaaatgcctggaCcctgcacagagggctttata	10	8	14	9	1	0	1	0	0	0	1	0	4	0	4	2	4	2	2	2	4	3	3			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr19:52817468C>G	uc010ydl.1	+	3	205	c.135C>G	c.(133-135)GAC>GAG	p.D45E	ZNF480_uc002pyv.2_Intron|ZNF480_uc010ydm.1_Missense_Mutation_p.D45E|ZNF480_uc010epn.2_Intron|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	45	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		AATGCCTGGACCCTGCACAGA	0.502													9	143					0	0	0.008291	0	0		G	52817468	G	G	52817468	3	3	86	1	0	0	0	0	1	0	0	0	17960	506	18	5	141	5	ZNF480	19	52817468	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	279359	52817468	6311515	67	53517											
ZNF468	90333	broad.mit.edu	37	chr19	53344459	53344459	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggttgatagtcgattaaaaActttgccacattcattacat	13	14	7	7	1	1	1	1	1	0	0	2	2	1	1	1	1	3	1	1	1	5	6			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr19:53344459A>G	uc002qaf.2	-	4	1239	c.1088T>C	c.(1087-1089)GTT>GCT	p.V363A	ZNF468_uc002qae.2_Missense_Mutation_p.V310A	NM_001008801	NP_001008801	Q5VIY5	ZN468_HUMAN	zinc finger protein ZNF468 isoform 2	363	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0358)		TCGATTAAAAACTTTGCCACA	0.378													8	66					0	0	0.00308	0	0		G	53344459	G	G	53344459	3	3	86	1	0	0	0	0	1	0	0	0	17953	43	2	3	484	3	ZNF468	19	53344459	Missense_Mutation	SNP	A	TCGA-BR-8677-01A-11D-2394-08	526991	53344459	5784524	68	53518											
ZNF347	84671	broad.mit.edu	37	chr19	53644778	53644778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaacaccaaaggctttgcCgcactcattacacttgtaag	13	9	7	12	2	1	0	1	0	0	0	1	1	1	0	2	1	3	3	2	1	4	4	rs146644074		TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr19:53644778C>T	uc002qbb.1	-	5	1372	c.1303G>A	c.(1303-1305)GGC>AGC	p.G435S	ZNF347_uc010eql.1_Missense_Mutation_p.G436S|ZNF347_uc002qbc.1_Missense_Mutation_p.G436S	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	435	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		AAGGCTTTGCCGCACTCATTA	0.428													7	107					0	0	0.00308	0	0		T	53644778	T	T	53644778	3	4	86	1	0	0	0	0	1	0	0	0	17886	652	23	1	1220	1	ZNF347	19	53644778	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	300319	53644778	5484205	69	53519											
ZNF470	388566	broad.mit.edu	37	chr19	57088331	57088331	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatcactctaacaaatctggGacagtttttcatctgaatac	13	13	6	9	0	5	1	2	1	3	0	5	3	5	2	0	1	2	1	0	1	4	4			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr19:57088331G>T	uc002qnl.3	+	6	1210	c.534G>T	c.(532-534)GGG>GGT	p.G178G	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	178					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		ACAAATCTGGGACAGTTTTTC	0.313													6	28					0.00116845	0.00126582	0.001168	1	0		T	57088331	T	T	57088331	2	4	86	1	0	0	0	0	0	0	0	1	17954	1161	41	5		5	ZNF470	19	57088331	Silent	SNP	G	TCGA-BR-8677-01A-11D-2394-08	3443553	57088331	2040652	70	53520											
HIRA	7290	broad.mit.edu	37	chr22	19394740	19394740	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccataatcagtttgtcaTctcccccagaagctaaatac	14	10	4	13	0	3	1	2	0	1	1	4	1	3	1	3	0	2	2	3	0	5	4			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr22:19394740T>C	uc002zpf.1	-	4	489	c.269A>G	c.(268-270)GAT>GGT	p.D90G	HIRA_uc011agx.1_5'UTR|HIRA_uc010grn.1_Missense_Mutation_p.D90G|HIRA_uc010gro.1_Missense_Mutation_p.D46G|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	90	WD 2.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					CAGTTTGTCATCTCCCCCAGA	0.403													5	55					0	0	0.001168	0	0		C	19394740	C	C	19394740	3	2	86	1	0	0	0	0	1	0	0	0	7136	1435	50	3	2872	3	HIRA	22	19394740	Missense_Mutation	SNP	T	TCGA-BR-8677-01A-11D-2394-08		19394740	31909826	71	53521											
GTSE1	51512	broad.mit.edu	37	chr22	46725338	46725338	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcattgaccttcctctcatCgacttctgcgataccccaga	8	12	5	16	2	3	2	2	1	2	1	6	4	4	2	4	0	2	0	4	0	1	4			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr22:46725338C>T	uc011aqy.1	+	11	2222	c.2010C>T	c.(2008-2010)ATC>ATT	p.I670I	GTSE1_uc011aqz.1_Silent_p.I517I|GTSE1_uc003bhn.2_RNA|uc011ara.1_5'Flank|uc003bho.3_5'Flank	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	651					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		TTCCTCTCATCGACTTCTGCG	0.502													31	149					0	0	0.010818	0	0		T	46725338	T	T	46725338	2	4	86	1	0	0	0	0	0	0	0	1	6901	874	31	1		1	GTSE1	22	46725338	Silent	SNP	C	TCGA-BR-8677-01A-11D-2394-08	27330598	46725338	4579228	72	53522											
TUBGCP6	85378	broad.mit.edu	37	chr22	50664332	50664332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcaagggagaaaatcaccGagatccgggggacagggacg	13	3	15	10	3	2	2	2	0	0	2	3	6	3	4	3	4	0	0	3	4	3	0			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chr22:50664332G>A	uc003bkb.1	-	10	2386	c.1874C>T	c.(1873-1875)TCG>TTG	p.S625L	TUBGCP6_uc010har.1_Missense_Mutation_p.S625L|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hat.1_5'Flank|TUBGCP6_uc003bkd.1_5'UTR	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	625					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GAAAATCACCGAGATCCGGGG	0.597													10	72					0	0	0.008291	0	0		A	50664332	A	A	50664332	3	1	86	1	0	0	0	0	1	0	0	0	16796	1059	37	1	3649	1	TUBGCP6	22	50664332	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08	3938994	50664332	640234	73	53523											
CXorf21	80231	broad.mit.edu	37	chrX	30578197	30578197	+	Missense_Mutation	SNP	A	C	C																															gcagccaagtttgggctttcAaacacaggattggggtttgt																										TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chrX:30578197A>C	uc004dcg.1	-	3	552	c.276T>G	c.(274-276)TTT>TTG	p.F92L		NM_025159	NP_079435	Q9HAI6	CX021_HUMAN	hypothetical protein LOC80231	92										ovary(1)	1						TTGGGCTTTCAAACACAGGAT	0.423													7	138					0	0	0.00308	0	0		C	30578197	C	C	30578197	3	2	86	1	0	0	0	0	1	0	0	0	4104	127	5	5	633	5	CXorf21	23	30578197	Missense_Mutation	SNP	A	TCGA-BR-8677-01A-11D-2394-08		30578197	124692363	74	53524	99	2									
CXorf21	80231	broad.mit.edu	37	chrX	30578199	30578199	+	Missense_Mutation	SNP	A	G	G																															agccaagtttgggctttcaaAcacaggattggggtttgtct																										TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chrX:30578199A>G	uc004dcg.1	-	3	550	c.274T>C	c.(274-276)TTT>CTT	p.F92L		NM_025159	NP_079435	Q9HAI6	CX021_HUMAN	hypothetical protein LOC80231	92										ovary(1)	1						GGGCTTTCAAACACAGGATTG	0.423													7	137					0	0	0.00308	0	0		G	30578199	G	G	30578199	3	3	86	1	0	0	0	0	1	0	0	0	4104	43	2	3	635	3	CXorf21	23	30578199	Missense_Mutation	SNP	A	TCGA-BR-8677-01A-11D-2394-08	2	30578199	124692361	75	53525	99	2									
RBM3	5935	broad.mit.edu	37	chrX	48433596	48433596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagaaggaaagctcttcGtgggagggctcaactttaac	12	9	12	8	1	2	2	1	1	1	1	3	4	2	4	0	3	3	2	0	3	5	3			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chrX:48433596G>A	uc004dkf.1	+	2	167	c.28G>A	c.(28-30)GTG>ATG	p.V10M	RBM3_uc004dkd.1_RNA|RBM3_uc004dkg.2_Missense_Mutation_p.V10M	NM_006743	NP_006734	P98179	RBM3_HUMAN	RNA binding motif protein 3	10	RRM.				positive regulation of translation	dendrite|nucleus	nucleotide binding|RNA binding			ovary(1)	1						AAAGCTCTTCGTGGGAGGGCT	0.502											OREG0019765	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	16					0	0	0.009096	0	0		A	48433596	A	A	48433596	3	1	86	1	0	0	0	0	1	0	0	0	13154	1145	40	1	30	1	RBM3	23	48433596	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08	17855397	48433596	106836964	76	53526											
CYSLTR1	10800	broad.mit.edu	37	chrX	77528391	77528391	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcaaagcaacaattggatgCagccagagacaaggttatga	16	7	11	7	0	1	2	1	1	0	1	1	4	1	3	1	2	4	3	1	2	5	2			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chrX:77528391C>A	uc004edb.2	-	3	1253	c.853G>T	c.(853-855)GCA>TCA	p.A285S	CYSLTR1_uc010nma.2_Missense_Mutation_p.A285S|CYSLTR1_uc010nmb.2_Missense_Mutation_p.A285S	NM_006639	NP_006630	Q9Y271	CLTR1_HUMAN	cysteinyl leukotriene receptor 1	285	Helical; Name=7; (Potential).				elevation of cytosolic calcium ion concentration|respiratory gaseous exchange	integral to plasma membrane|membrane fraction	leukotriene receptor activity			ovary(1)	1					Amlexanox(DB01025)|Cinalukast(DB00587)|Montelukast(DB00471)|Nedocromil(DB00716)|Pranlukast(DB01411)|Zafirlukast(DB00549)	CAATTGGATGCAGCCAGAGAC	0.418													7	43					8.12818e-05	9.18838e-05	0.001984	1	0		A	77528391	A	A	77528391	3	1	86	1	0	0	0	0	1	0	0	0	4204	710	25	5	164	5	CYSLTR1	23	77528391	Missense_Mutation	SNP	C	TCGA-BR-8677-01A-11D-2394-08	29094795	77528391	77742169	77	53527											
ACTRT1	139741	broad.mit.edu	37	chrX	127185061	127185061	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctcaaggatctttaaaaGcaccttctttgaaccacaga	13	11	6	11	0	3	2	1	1	2	1	3	3	3	3	2	1	3	2	2	1	4	4			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chrX:127185061G>T	uc004eum.2	-	1	1322	c.1125C>A	c.(1123-1125)TGC>TGA	p.C375*		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	375						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						ATCTTTAAAAGCACCTTCTTT	0.463													6	106					3.59834e-05	4.11238e-05	0.001168	1	0		T	127185061	T	T	127185061	4	4	86	1	0	0	0	0	0	1	0	0	218	963	34	5	9	5	ACTRT1	23	127185061	Nonsense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08	49656670	127185061	28085499	78	53528											
RAB39B	116442	broad.mit.edu	37	chrX	154493546	154493546	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atccccgatgacaatgagccGgaactggtacagccagatgg	12	6	12	11	2	0	3	0	2	0	1	1	5	1	4	4	3	4	1	4	3	3	1			TCGA-BR-8677-01A-11D-2394-08	TCGA-BR-8677-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	df4fb014-ac78-45f4-bf7d-6d3fb15af874	193fa960-f89a-404d-b0f4-a6c5743aed4c	g.chrX:154493546G>A	uc004fne.2	-	1	307	c.28C>T	c.(28-30)CGG>TGG	p.R10W		NM_171998	NP_741995	Q96DA2	RB39B_HUMAN	RAB39B, member RAS oncogene family	10					protein transport|small GTPase mediated signal transduction|synapse organization|vesicle-mediated transport	Golgi apparatus|plasma membrane	GTP binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					ACAATGAGCCGGAACTGGTAC	0.687													15	220					0	0	0.003163	0	0		A	154493546	A	A	154493546	3	1	86	1	0	0	0	0	1	0	0	0	12955	1115	39	1	621	1	RAB39B	23	154493546	Missense_Mutation	SNP	G	TCGA-BR-8677-01A-11D-2394-08	27308485	154493546	777014	79	53529											
RHBG	57127	broad.mit.edu	37	chr1	156351656	156351656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggggacctcaagtgaaatGatgctgacaccctttggggc	9	9	14	9	0	1	3	1	3	0	0	1	4	1	4	2	4	1	1	2	4	2	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr1:156351656G>A	uc010pho.1	+	6	938	c.900G>A	c.(898-900)ATG>ATA	p.M300I	RHBG_uc010phm.1_Missense_Mutation_p.M138I|RHBG_uc010phn.1_RNA|RHBG_uc001fos.2_Missense_Mutation_p.M231I|RHBG_uc009wrz.2_Missense_Mutation_p.M268I|RHBG_uc001for.2_Missense_Mutation_p.M270I	NM_020407	NP_065140	Q9H310	RHBG_HUMAN	Rhesus blood group, B glycoprotein	300	Helical; (Potential).				transepithelial ammonium transport	anchored to plasma membrane|basolateral plasma membrane|cytoplasmic vesicle membrane|integral to plasma membrane|spectrin-associated cytoskeleton	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			ovary(2)	2	Hepatocellular(266;0.158)					CAAGTGAAATGATGCTGACAC	0.557													13	65					0	0	0.001368	0	0		A	156351656	A	A	156351656	3	1	87	1	0	0	0	0	1	0	0	0	13349	1290	45	4	922	4	RHBG	1	156351656	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08		156351656	92898965	1	53530											
FCRL6	343413	broad.mit.edu	37	chr1	159779344	159779344	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agattgtggggaaccactcaGctccctgtggtggaaccacc	9	8	12	12	0	1	1	1	0	0	1	2	3	2	3	4	4	3	1	4	4	2	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr1:159779344G>T	uc001fud.3	+	5	799	c.757G>T	c.(757-759)GCT>TCT	p.A253S	FCRL6_uc001fuc.2_Missense_Mutation_p.A260S|FCRL6_uc009wsz.1_Missense_Mutation_p.A158S|FCRL6_uc009wta.2_Missense_Mutation_p.A253S	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	253	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					GAACCACTCAGCTCCCTGTGG	0.567													11	55					1.61879e-10	1.77192e-10	0.001368	1	0		T	159779344	T	T	159779344	3	4	87	1	0	0	0	0	1	0	0	0	5813	971	34	5	775	5	FCRL6	1	159779344	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	3427688	159779344	89471277	2	53531											
FCGR2C	9103	broad.mit.edu	37	chr1	161559466	161559466	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgagagcgactccattcCgtggttccacaatgggaatc	9	9	10	13	2	0	1	0	1	0	1	4	4	3	2	4	2	1	1	4	2	2	2	rs111603147		TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr1:161559466C>A	uc001gav.2	+	4	347	c.248C>A	c.(247-249)CCG>CAG	p.P83Q	FCGR2C_uc009wuj.2_RNA|FCGR2C_uc009wuk.2_RNA	NM_201563	NP_963857			Fc fragment of IgG, low affinity IIc, receptor												0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			GACTCCATTCCGTGGTTCCAC	0.577													28	44					2.20262e-25	2.54875e-25	0.002836	1	0		A	161559466	A	A	161559466	3	1	87	1	0	0	0	0	1	0	0	0	5797	652	23	5	258	5	FCGR2C	1	161559466	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	1780122	161559466	87691155	3	53532											
FAM5C	339479	broad.mit.edu	37	chr1	190067205	190067205	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttggcaatttggcattaaaCgcctgcagagcagattggat	11	12	11	7	1	0	2	0	0	0	2	0	3	0	3	1	3	3	4	1	3	3	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr1:190067205C>T	uc001gse.1	-	8	2476	c.2244G>A	c.(2242-2244)GCG>GCA	p.A748A	FAM5C_uc010pot.1_Silent_p.A646A	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	748						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TGGCATTAAACGCCTGCAGAG	0.423													27	28					0	0	0.005443	0	0		T	190067205	T	T	190067205	2	4	87	1	0	0	0	0	0	0	0	1	5608	523	19	1		1	FAM5C	1	190067205	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	28507739	190067205	59183416	4	53533											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220366601	220366601	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttccacatgcgtattgcAattcctctagctacatccaa	10	13	4	14	1	1	0	0	0	1	0	4	0	4	0	4	0	4	3	4	0	5	6			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr1:220366601A>G	uc010puk.1	-	13	1415	c.1251T>C	c.(1249-1251)ATT>ATC	p.I417I	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_5'UTR	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	417					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		TGCGTATTGCAATTCCTCTAG	0.388													14	45					0	0	0.001855	0	0		G	220366601	G	G	220366601	2	3	87	1	0	0	0	0	0	0	0	1	12961	126	5	3		3	RAB3GAP2	1	220366601	Silent	SNP	A	TCGA-BR-8678-01A-11D-2394-08	30299396	220366601	28884020	5	53534											
PRSS38	339501	broad.mit.edu	37	chr1	228003908	228003908	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtctgcggcggctccaTcctcaatgagtactgggtgc	6	9	12	14	3	2	1	1	1	1	0	4	1	4	1	3	3	3	2	3	3	2	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr1:228003908T>C	uc001hrh.2	+	2	266	c.266T>C	c.(265-267)ATC>ACC	p.I89T		NM_183062	NP_898885	A1L453	PRS38_HUMAN	marapsin 2 precursor	89	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)|pancreas(1)	2						GGCGGCTCCATCCTCAATGAG	0.667													27	109					0	0	0.009535	0	0		C	228003908	C	C	228003908	3	2	87	1	0	0	0	0	1	0	0	0	12649	1435	50	3	272	3	PRSS38	1	228003908	Missense_Mutation	SNP	T	TCGA-BR-8678-01A-11D-2394-08	7637307	228003908	21246713	6	53535											
KIF26B	55083	broad.mit.edu	37	chr1	245849034	245849034	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgcagccggcaagtcaGaaagggactgcctgaagtgc	11	5	15	10	1	1	2	1	1	0	1	1	3	1	3	2	3	4	3	2	3	3	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr1:245849034G>T	uc001ibf.1	+	12	3189	c.2749G>T	c.(2749-2751)GAA>TAA	p.E917*	KIF26B_uc001ibg.1_Nonsense_Mutation_p.E535*|KIF26B_uc001ibh.1_Nonsense_Mutation_p.E159*	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	917					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CGGCAAGTCAGAAAGGGACTG	0.642													22	9					1.50039e-11	1.65349e-11	0.001882	1	0		T	245849034	T	T	245849034	4	4	87	1	0	0	0	0	0	1	0	0	8311	943	33	5	2795	5	KIF26B	1	245849034	Nonsense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	17845126	245849034	3401587	7	53536											
SMC6	79677	broad.mit.edu	37	chr2	17847705	17847705	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcatgctttgaggtgtgAgcaagataaactgtctaaaa	14	11	9	7	0	2	3	1	2	1	1	2	3	2	3	1	1	3	2	1	1	5	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:17847705A>C	uc002rco.2	-	27	3439	c.3143T>G	c.(3142-3144)CTC>CGC	p.L1048R	SMC6_uc010exo.2_Missense_Mutation_p.L1048R|SMC6_uc002rcn.2_Missense_Mutation_p.L1048R	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	1048					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTGAGGTGTGAGCAAGATAAA	0.318													10	16					0	0	0.000978	0	0		C	17847705	C	C	17847705	3	2	87	1	0	0	0	0	1	0	0	0	14812	304	11	5	140	5	SMC6	2	17847705	Missense_Mutation	SNP	A	TCGA-BR-8678-01A-11D-2394-08		17847705	225351668	8	53537											
TTC27	55622	broad.mit.edu	37	chr2	33007732	33007732	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgtcaacttcctatatcCgattaaaacaaaagtaagta	17	13	4	7	1	1	0	1	0	0	0	3	1	3	0	2	0	2	2	2	0	9	7			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:33007732C>T	uc002rom.2	+	15	2050	c.1819C>T	c.(1819-1821)CGA>TGA	p.R607*	TTC27_uc010ymx.1_Nonsense_Mutation_p.R557*|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	607	TPR 5.|HAT 2.						protein binding			central_nervous_system(1)	1						TTCCTATATCCGATTAAAACA	0.289													6	46					0	0	0.001168	0	0		T	33007732	T	T	33007732	4	4	87	1	0	0	0	0	0	1	0	0	16721	644	23	1	1877	1	TTC27	2	33007732	Nonsense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	15160027	33007732	210191641	9	53538											
SLC8A1	6546	broad.mit.edu	37	chr2	40366566	40366566	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgatgttccaagtgcgacGaacacgactgcagtcacaga	13	7	10	11	3	1	2	1	1	0	1	2	5	2	2	1	0	3	2	1	0	2	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:40366566G>A	uc002rrx.2	-	9	2544	c.2520C>T	c.(2518-2520)TTC>TTT	p.F840F	uc002rrw.2_Intron|SLC8A1_uc002rry.2_Silent_p.F835F|SLC8A1_uc002rrz.2_Silent_p.F827F|SLC8A1_uc002rsa.2_Silent_p.F804F|SLC8A1_uc002rsd.3_Silent_p.F804F	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	840	Helical; (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CAAGTGCGACGAACACGACTG	0.463													17	27					0	0	0.008871	0	0		A	40366566	A	A	40366566	2	1	87	1	0	0	0	0	0	0	0	1	14731	1049	37	1		1	SLC8A1	2	40366566	Silent	SNP	G	TCGA-BR-8678-01A-11D-2394-08	7358834	40366566	202832807	10	53539											
ALMS1	7840	broad.mit.edu	37	chr2	73677419	73677419	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccaacaggtcttgccagaTaatcatccaactgaagaggc	14	8	8	11	0	2	3	1	1	1	2	3	3	3	3	3	2	4	0	3	2	5	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:73677419T>A	uc002sje.1	+	10	3879	c.3768T>A	c.(3766-3768)GAT>GAA	p.D1256E	ALMS1_uc002sjf.1_Missense_Mutation_p.D1212E|ALMS1_uc002sjg.2_Missense_Mutation_p.D642E|ALMS1_uc002sjh.1_Missense_Mutation_p.D642E	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1254	16.|34 X 47 AA approximate tandem repeat.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TCTTGCCAGATAATCATCCAA	0.473													19	154					0	0	0.007413	0	0		A	73677419	A	A	73677419	3	1	87	1	0	0	0	0	1	0	0	0	535	1403	49	5	3792	5	ALMS1	2	73677419	Missense_Mutation	SNP	T	TCGA-BR-8678-01A-11D-2394-08	33310853	73677419	169521954	11	53540											
AFF3	3899	broad.mit.edu	37	chr2	100210469	100210469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgccacggccacggccgCgggcggggacttctgcttca	5	5	14	17	6	2	0	1	0	1	0	2	1	2	1	4	5	1	1	4	5	0	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:100210469C>T	uc002tag.2	-	14	1890	c.1654G>A	c.(1654-1656)GCG>ACG	p.A552T	AFF3_uc002taf.2_Missense_Mutation_p.A577T|AFF3_uc010fiq.1_Missense_Mutation_p.A552T|AFF3_uc010yvr.1_Missense_Mutation_p.A705T|AFF3_uc002tah.1_Missense_Mutation_p.A577T	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	552					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						GCCACGGCCGCGGGCGGGGAC	0.701													50	59					0	0	0.00361	0	0		T	100210469	T	T	100210469	3	4	87	1	0	0	0	0	1	0	0	0	358	768	27	1	2070	1	AFF3	2	100210469	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	26533050	100210469	142988904	12	53541											
EDAR	10913	broad.mit.edu	37	chr2	109513576	109513576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcaggccgaagctctcGgcgaggtggcgccacgtttt	5	10	13	13	5	3	0	1	0	2	0	4	2	3	0	2	4	1	2	2	4	1	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:109513576G>A	uc002teq.3	-	12	1565	c.1134C>T	c.(1132-1134)GCC>GCT	p.A378A	EDAR_uc010fjn.2_Silent_p.A410A|EDAR_uc010yws.1_Silent_p.A410A	NM_022336	NP_071731	Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor precursor	378	Death.|Cytoplasmic (Potential).				apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1						CGAAGCTCTCGGCGAGGTGGC	0.572													14	48					0	0	0.00245	0	0		A	109513576	A	A	109513576	2	1	87	1	0	0	0	0	0	0	0	1	4911	1103	39	1		1	EDAR	2	109513576	Silent	SNP	G	TCGA-BR-8678-01A-11D-2394-08	9303107	109513576	133685797	13	53542											
FBLN7	129804	broad.mit.edu	37	chr2	112942907	112942907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtgagctacgtgaagaCgtctccattgtgagtatctc	10	12	10	9	2	2	4	0	3	2	1	4	4	2	4	1	0	2	2	1	0	4	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:112942907C>T	uc002tho.1	+	7	1209	c.938C>T	c.(937-939)ACG>ATG	p.T313M	FBLN7_uc002thn.2_Missense_Mutation_p.T313M|FBLN7_uc010fki.1_Missense_Mutation_p.T267M|FBLN7_uc010fkj.1_Missense_Mutation_p.T179M	NM_153214	NP_694946	Q53RD9	FBLN7_HUMAN	fibulin 7 isoform 1	313	EGF-like 3; calcium-binding (Potential).				cell adhesion	proteinaceous extracellular matrix	calcium ion binding|heparin binding			ovary(1)|central_nervous_system(1)	2						TACGTGAAGACGTCTCCATTG	0.602													25	46					0	0	0.002096	0	0		T	112942907	T	T	112942907	3	4	87	1	0	0	0	0	1	0	0	0	5715	536	19	1	964	1	FBLN7	2	112942907	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	3429331	112942907	130256466	14	53543											
LRP1B	53353	broad.mit.edu	37	chr2	141031994	141031994	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgggtgtccacttactTgcaaaatatatcttcactgt	11	14	7	9	0	2	0	1	0	1	0	3	0	3	0	1	1	3	2	1	1	6	5			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:141031994T>C	uc002tvj.1	-	85	14113	c.13141A>G	c.(13141-13143)AAC>GAC	p.N4381D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4381	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TCCACTTACTTGCAAAATATA	0.368										TSP Lung(27;0.18)			28	36					0	0	0.002096	0	0		C	141031994	C	C	141031994	3	2	87	1	0	0	0	0	1	0	0	0	8973	1826	63	3	686	3	LRP1B	2	141031994	Missense_Mutation	SNP	T	TCGA-BR-8678-01A-11D-2394-08	28089087	141031994	102167379	15	53544											
LRP1B	53353	broad.mit.edu	37	chr2	141072650	141072650	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcttcctccattttcacaaGttaacttacatgaatcatct	12	16	2	11	0	4	1	2	1	2	0	6	1	6	1	2	0	2	1	2	0	4	5			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:141072650G>C	uc002tvj.1	-	83	13631	c.12659C>G	c.(12658-12660)ACT>AGT	p.T4220S		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4220	Extracellular (Potential).|EGF-like 10.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATTTTCACAAGTTAACTTACA	0.313										TSP Lung(27;0.18)			18	36					0	0	0.006122	0	0		C	141072650	C	C	141072650	3	2	87	1	0	0	0	0	1	0	0	0	8973	1029	36	5	1176	5	LRP1B	2	141072650	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	40656	141072650	102126723	16	53545											
LRP1B	53353	broad.mit.edu	37	chr2	141473650	141473650	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaattaagttgaaaccaTgatctgtccaatatatgtta	14	15	5	7	0	2	2	1	2	1	0	3	2	3	2	2	0	1	2	2	0	7	6			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:141473650T>A	uc002tvj.1	-	37	6887	c.5915A>T	c.(5914-5916)CAT>CTT	p.H1972L		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1972	Extracellular (Potential).|LDL-receptor class B 20.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GTTGAAACCATGATCTGTCCA	0.328										TSP Lung(27;0.18)			10	99					0	0	0.008291	0	0		A	141473650	A	A	141473650	3	1	87	1	0	0	0	0	1	0	0	0	8973	1464	51	5	8104	5	LRP1B	2	141473650	Missense_Mutation	SNP	T	TCGA-BR-8678-01A-11D-2394-08	401000	141473650	101725723	17	53546											
LRP1B	53353	broad.mit.edu	37	chr2	141819648	141819648	+	Frame_Shift_Del	DEL	T	-	-																															cttgaatgacagtgtgtctaTtttttccttgatagtccact																										TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:141819648delT	uc002tvj.1	-	8	2180	c.1208delA	c.(1207-1209)AATfs	p.N403fs	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	403	Extracellular (Potential).|LDL-receptor class B 4.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		AGTGTGTCTATTTTTTCCTTG	0.393										TSP Lung(27;0.18)			50	86	---	---	---	---						.	-	141819648	-	-	141819648	7	5	87	1	0	1	0	1	0	0	0	0	8973	1493	52	0	12927	0	LRP1B	2	141819648	Frame_Shift_Del	DEL	T	TCGA-BR-8678-01A-11D-2394-08	345998	141819648	101379725	18	53547											
NEB	4703	broad.mit.edu	37	chr2	152425193	152425193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caactctgtcatccacaggcGtaaagttgagagtttctatt	11	13	8	9	1	3	1	1	1	2	1	4	2	4	1	1	1	1	3	1	1	4	5			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:152425193G>A	uc010fnx.2	-	83	12661	c.12470C>T	c.(12469-12471)ACG>ATG	p.T4157M	NEB_uc002txr.2_Missense_Mutation_p.T580M	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	4157	Nebulin 114.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		ATCCACAGGCGTAAAGTTGAG	0.373													3	18					0	0	0.004672	0	0		A	152425193	A	A	152425193	3	1	87	1	0	0	0	0	1	0	0	0	10321	1145	40	1	8401	1	NEB	2	152425193	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	10605545	152425193	90774180	19	53548											
EVX2	344191	broad.mit.edu	37	chr2	176946938	176946938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgggcaggttgagtgccgCggccagctcgcaccggcggg	4	6	18	13	6	0	1	0	1	0	0	2	1	0	1	3	5	2	4	3	5	0	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:176946938C>T	uc010zeu.1	-	2	853	c.667G>A	c.(667-669)GCG>ACG	p.A223T		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	223	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		TTGAGTGCCGCGGCCAGCTCG	0.627													7	34					0	0	0.00308	0	0		T	176946938	T	T	176946938	3	4	87	1	0	0	0	0	1	0	0	0	5303	768	27	1	769	1	EVX2	2	176946938	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	24521745	176946938	66252435	20	53549											
TTN	7273	broad.mit.edu	37	chr2	179464329	179464329	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgttcccagattatttaCagctgtgatggtatataagc	10	15	9	7	0	0	2	0	1	0	1	1	2	1	2	1	1	4	4	1	1	5	7			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:179464329C>A	uc010zfg.1	-	238	48819	c.48595G>T	c.(48595-48597)GTA>TTA	p.V16199L	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V9894L|TTN_uc010zfi.1_Missense_Mutation_p.V9827L|TTN_uc010zfj.1_Missense_Mutation_p.V9702L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17126							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGATTATTTACAGCTGTGATG	0.398													115	156					2.91419e-48	3.47131e-48	0.00361	1	0		A	179464329	A	A	179464329	3	1	87	1	0	0	0	0	1	0	0	0	16761	478	17	5	51690	5	TTN	2	179464329	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	2517391	179464329	63735044	21	53550											
TTN	7273	broad.mit.edu	37	chr2	179647717	179647717	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccctgtaccatgtcactgtCggggatgggtatccagagat	8	11	12	10	1	1	1	1	0	0	1	4	3	3	2	3	3	1	2	3	3	2	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:179647717C>T	uc010zfg.1	-	18	3140	c.2916G>A	c.(2914-2916)CCG>CCA	p.P972P	TTN_uc010zfh.1_Silent_p.P926P|TTN_uc010zfi.1_Silent_p.P926P|TTN_uc010zfj.1_Silent_p.P926P|TTN_uc002unb.2_Silent_p.P972P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	972							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGTCACTGTCGGGGATGGGT	0.433													37	43					0	0	0.00623	0	0		T	179647717	T	T	179647717	2	4	87	1	0	0	0	0	0	0	0	1	16761	871	31	1		1	TTN	2	179647717	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	183388	179647717	63551656	22	53551											
SF3B1	23451	broad.mit.edu	37	chr2	198257729	198257729	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaacattctacatggtccAatagcaactctcaggccctc	11	10	6	14	0	2	0	1	0	2	0	5	0	3	0	2	2	5	2	2	2	5	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:198257729A>C	uc002uue.2	-	24	3771	c.3723T>G	c.(3721-3723)ATT>ATG	p.I1241M		NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	1241					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			TACATGGTCCAATAGCAACTC	0.313													14	66					0	0	0.004007	0	0		C	198257729	C	C	198257729	3	2	87	1	0	0	0	0	1	0	0	0	14174	126	5	5	199	5	SF3B1	2	198257729	Missense_Mutation	SNP	A	TCGA-BR-8678-01A-11D-2394-08	18610012	198257729	44941644	23	53552											
CYP20A1	57404	broad.mit.edu	37	chr2	204111644	204111644	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcaatcccaataagacaTgtaagtttaattttctttct	14	17	3	7	0	3	1	1	0	2	1	4	1	4	1	1	0	0	2	1	0	6	8			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:204111644T>G	uc002uzv.3	+	3	911	c.289T>G	c.(289-291)TCG>GCG	p.S97A	CYP20A1_uc002uzx.3_Intron|CYP20A1_uc010zif.1_Missense_Mutation_p.S97A|CYP20A1_uc002uzy.3_Intron|CYP20A1_uc002uzw.3_RNA	NM_177538	NP_803882	Q6UW02	CP20A_HUMAN	cytochrome P450, family 20, subfamily A,	97						integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0						CAATAAGACATGTAAGTTTAA	0.318													60	120					0	0	0.00361	0	0		G	204111644	G	G	204111644	3	3	87	1	0	0	0	0	1	0	0	0	4155	1478	51	5	299	5	CYP20A1	2	204111644	Missense_Mutation	SNP	T	TCGA-BR-8678-01A-11D-2394-08	5853915	204111644	39087729	24	53553											
FASTKD2	22868	broad.mit.edu	37	chr2	207655332	207655332	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttccagatctgcttattgTttgggttcaagccaccccag	7	14	9	11	0	2	1	1	0	1	1	3	1	3	1	4	1	2	4	4	1	2	5			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:207655332T>C	uc002vbu.2	+	11	2345	c.1935T>C	c.(1933-1935)TGT>TGC	p.C645C	FASTKD2_uc002vbv.2_Silent_p.C645C|FASTKD2_uc002vbx.2_Silent_p.C645C|FASTKD2_uc002vbw.1_3'UTR	NM_001136193	NP_001129665	Q9NYY8	FAKD2_HUMAN	FAST kinase domains 2	645	RAP.				apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|skin(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0718)|Epithelial(149;0.119)|Lung(261;0.138)		CTGCTTATTGTTTGGGTTCAA	0.363													59	108					0	0	0.00361	0	0		C	207655332	C	C	207655332	2	2	87	1	0	0	0	0	0	0	0	1	5700	1731	60	3		3	FASTKD2	2	207655332	Silent	SNP	T	TCGA-BR-8678-01A-11D-2394-08	3543688	207655332	35544041	25	53554											
SPP2	6694	broad.mit.edu	37	chr2	234959729	234959729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttcgggcattcagaagctCattaaaaagagtaagtgcaa	15	10	10	6	1	2	2	2	0	0	2	3	2	2	2	0	1	2	5	0	1	6	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr2:234959729C>T	uc002vvk.1	+	2	285	c.200C>T	c.(199-201)TCA>TTA	p.S67L	SPP2_uc010fyl.1_Intron	NM_006944	NP_008875	Q13103	SPP24_HUMAN	secreted phosphoprotein 2, 24kDa precursor	67					bone remodeling|skeletal system development	extracellular region	endopeptidase inhibitor activity				0		Breast(86;0.0109)|Renal(207;0.019)|all_lung(227;0.13)|all_hematologic(139;0.182)		Epithelial(121;5.73e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000166)|Lung(119;0.00539)|LUSC - Lung squamous cell carcinoma(224;0.00846)		TTCAGAAGCTCATTAAAAAGA	0.418													28	35					0	0	0.005443	0	0		T	234959729	T	T	234959729	3	4	87	1	0	0	0	0	1	0	0	0	15112	838	29	4	206	4	SPP2	2	234959729	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	27304397	234959729	8239644	26	53555											
RAD18	56852	broad.mit.edu	37	chr3	8932127	8932127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagatctcttatgatgtctGaactggaactaaaaggatat	16	12	8	5	0	2	3	0	2	2	1	3	5	2	5	0	2	2	0	0	2	7	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr3:8932127G>A	uc003brd.2	-	12	1408	c.1331C>T	c.(1330-1332)TCA>TTA	p.S444L	RAD18_uc003bre.2_RNA	NM_020165	NP_064550	Q9NS91	RAD18_HUMAN	postreplication repair protein hRAD18p	444					DNA repair	nucleus|replication fork	damaged DNA binding|ligase activity|ubiquitin protein ligase binding|Y-form DNA binding|zinc ion binding			skin(3)|ovary(2)	5				OV - Ovarian serous cystadenocarcinoma(96;0.0552)		TATGATGTCTGAACTGGAACT	0.249								Rad6_pathway					32	17					0	0	0.003755	0	0		A	8932127	A	A	8932127	3	1	87	1	0	0	0	0	1	0	0	0	13005	1294	45	4	164	4	RAD18	3	8932127	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08		8932127	189090303	27	53556											
SCN5A	6331	broad.mit.edu	37	chr3	38618180	38618180	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagcagtcctctgggtccttGacatcctggccgaggtcagg	7	9	13	12	1	2	1	1	1	1	0	5	2	5	1	4	4	1	1	4	4	1	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr3:38618180G>C	uc003cio.2	-	19	3677	c.3483C>G	c.(3481-3483)GTC>GTG	p.V1161V	SCN5A_uc003cin.2_Silent_p.V1160V|SCN5A_uc003cil.3_Silent_p.V1161V|SCN5A_uc010hhi.2_Silent_p.V1161V|SCN5A_uc010hhk.2_Silent_p.V1160V|SCN5A_uc011ayr.1_Silent_p.V1107V|SCN5A_uc010hhj.1_Silent_p.V771V	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1161					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	CTGGGTCCTTGACATCCTGGC	0.617													5	14					0	0	0.000602	0	0		C	38618180	C	C	38618180	2	2	87	1	0	0	0	0	0	0	0	1	13947	1277	45	5		5	SCN5A	3	38618180	Silent	SNP	G	TCGA-BR-8678-01A-11D-2394-08	29686053	38618180	159404250	28	53557											
SCN10A	6336	broad.mit.edu	37	chr3	38748813	38748813	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggcttcttggagcccaacTtcttcatggcattgtagtat	7	14	11	9	0	3	0	1	0	2	0	3	1	3	1	1	4	2	4	1	4	3	7			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr3:38748813T>G	uc003ciq.2	-	25	4343	c.4343A>C	c.(4342-4344)AAG>ACG	p.K1448T		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1448					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GGAGCCCAACTTCTTCATGGC	0.532													24	58					0	0	0.00632	0	0		G	38748813	G	G	38748813	3	3	87	1	0	0	0	0	1	0	0	0	13937	1609	56	5	1539	5	SCN10A	3	38748813	Missense_Mutation	SNP	T	TCGA-BR-8678-01A-11D-2394-08	130633	38748813	159273617	29	53558											
ULK4	54986	broad.mit.edu	37	chr3	41954327	41954327	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagatcttcgacgcttgattCctgatctgctccagcaaaag	10	11	9	11	2	2	3	0	2	2	1	5	5	4	3	2	0	2	3	2	0	2	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr3:41954327C>A	uc003ckv.3	-	9	1069	c.868G>T	c.(868-870)GAA>TAA	p.E290*	ULK4_uc003ckw.2_Nonsense_Mutation_p.E290*|ULK4_uc003ckx.1_Nonsense_Mutation_p.E290*	NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	290							ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		ACGCTTGATTCCTGATCTGCT	0.373													38	37					3.09479e-21	3.55571e-21	0.006999	1	0		A	41954327	A	A	41954327	4	1	87	1	0	0	0	0	0	1	0	0	17004	864	30	5	3075	5	ULK4	3	41954327	Nonsense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	3205514	41954327	156068103	30	53559											
GOLGB1	2804	broad.mit.edu	37	chr3	121388080	121388080	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgcagctcttgaacctgCttctccaagactgcacagtg	8	10	9	14	0	2	2	0	1	2	1	3	2	2	2	3	0	5	4	3	0	2	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr3:121388080C>A	uc003eei.3	-	18	9411	c.9285G>T	c.(9283-9285)AAG>AAT	p.K3095N	GOLGB1_uc010hrc.2_Missense_Mutation_p.K3100N|GOLGB1_uc003eej.3_Missense_Mutation_p.K3061N	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	3095	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CTTGAACCTGCTTCTCCAAGA	0.473													20	99					1.28384e-07	1.39585e-07	0.001882	1	0		A	121388080	A	A	121388080	3	1	87	1	0	0	0	0	1	0	0	0	6580	796	28	5	514	5	GOLGB1	3	121388080	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	79433753	121388080	76634350	31	53560											
GOLGB1	2804	broad.mit.edu	37	chr3	121413488	121413488	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttaaggttcttcatttcaGattccaatagctcatttttt	9	21	4	7	0	4	1	3	0	1	1	5	1	5	1	1	1	1	2	1	1	3	10			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr3:121413488G>C	uc003eei.3	-	13	5993	c.5867C>G	c.(5866-5868)TCT>TGT	p.S1956C	GOLGB1_uc010hrc.2_Missense_Mutation_p.S1961C|GOLGB1_uc003eej.3_Missense_Mutation_p.S1922C|GOLGB1_uc011bjm.1_Missense_Mutation_p.S1842C|GOLGB1_uc010hrd.1_Missense_Mutation_p.S1920C	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1956	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CTTCATTTCAGATTCCAATAG	0.358													79	132					0	0	0.00361	0	0		C	121413488	C	C	121413488	3	2	87	1	0	0	0	0	1	0	0	0	6580	942	33	5	3952	5	GOLGB1	3	121413488	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	25408	121413488	76608942	32	53561											
DNAJB8	165721	broad.mit.edu	37	chr3	128181963	128181963	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcttgaacttcttctcCgcctcctccttattgtcagg	6	14	6	15	1	3	1	1	1	2	0	6	1	5	1	5	1	2	1	5	1	2	5	rs140270817		TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr3:128181963C>T	uc003ekk.1	-	3	1787	c.126G>A	c.(124-126)GCG>GCA	p.A42A	uc003ekl.1_5'Flank	NM_153330	NP_699161	Q8NHS0	DNJB8_HUMAN	DnaJ homolog, subfamily B, member 8	42	J.				protein folding		heat shock protein binding|unfolded protein binding				0				GBM - Glioblastoma multiforme(114;0.177)		ACTTCTTCTCCGCCTCCTCCT	0.592													72	98					0	0	0.00361	0	0		T	128181963	T	T	128181963	2	4	87	1	0	0	0	0	0	0	0	1	4632	639	23	1		1	DNAJB8	3	128181963	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	6768475	128181963	69840467	33	53562											
NPHP3	27031	broad.mit.edu	37	chr3	132416142	132416142	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtctacagagtggcattCtgcaattataatagattttg	13	15	8	5	0	2	2	0	0	2	2	2	2	2	2	0	1	2	2	0	1	6	7			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr3:132416142C>A	uc003epe.1	-	14	2127	c.2050G>T	c.(2050-2052)GAA>TAA	p.E684*	NPHP3_uc003epd.1_5'UTR	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	684					maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						GAGTGGCATTCTGCAATTATA	0.303													13	116					9.05144e-12	1.00434e-11	0.001855	1	0		A	132416142	A	A	132416142	4	1	87	1	0	0	0	0	0	1	0	0	10599	922	32	5	1998	5	NPHP3	3	132416142	Nonsense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	4234179	132416142	65606288	34	53563											
FBXW7	55294	broad.mit.edu	37	chr4	153250850	153250850	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgactgctgaccaaacttTtaaagtgttgtcatcagaac	12	13	8	8	0	2	3	2	2	0	1	2	3	2	3	1	0	3	2	1	0	4	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr4:153250850T>C	uc003ims.2	-	8	1359	c.1210A>G	c.(1210-1212)AAA>GAA	p.K404E	FBXW7_uc011cii.1_Missense_Mutation_p.K404E|FBXW7_uc003imt.2_Missense_Mutation_p.K404E|FBXW7_uc011cih.1_Missense_Mutation_p.K228E|FBXW7_uc003imq.2_Missense_Mutation_p.K324E|FBXW7_uc003imr.2_Missense_Mutation_p.K286E	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	404	WD 1.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				GACCAAACTTTTAAAGTGTTG	0.363			Mis|N|D|F		colorectal|endometrial|T-ALL								72	16					0	0	0.00361	0	0		C	153250850	C	C	153250850	3	2	87	1	0	0	0	0	1	0	0	0	5783	1850	64	3	933	3	FBXW7	4	153250850	Missense_Mutation	SNP	T	TCGA-BR-8678-01A-11D-2394-08		153250850	37903426	35	53564											
ZNF622	90441	broad.mit.edu	37	chr5	16465699	16465699	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	caggttgtagcggtgccagtCcgtcttatagtgggcccgct	5	11	14	11	3	1	0	0	0	1	0	2	0	2	0	3	3	2	3	3	3	3	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr5:16465699C>G	uc003jfq.2	-	1	196	c.76G>C	c.(76-78)GAC>CAC	p.D26H		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	26	U1-type 1.					cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						CGGTGCCAGTCCGTCTTATAG	0.667													37	67					0	0	0.004878	0	0		G	16465699	G	G	16465699	3	3	87	1	0	0	0	0	1	0	0	0	18071	855	30	5	1381	5	ZNF622	5	16465699	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08		16465699	164449561	36	53565											
CHSY3	337876	broad.mit.edu	37	chr5	129520330	129520330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagcactggatgataccGtcctacaggtgatggagatg	12	8	13	8	1	0	3	0	2	0	1	1	6	1	4	2	3	4	1	2	3	3	2	rs143055952	byFrequency	TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr5:129520330G>A	uc003kvd.2	+	3	1495	c.1495G>A	c.(1495-1497)GTC>ATC	p.V499I		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	499	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		GGATGATACCGTCCTACAGGT	0.493													39	13					0	0	0.006999	0	0		A	129520330	A	A	129520330	3	1	87	1	0	0	0	0	1	0	0	0	3416	1145	40	1	1505	1	CHSY3	5	129520330	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	113054631	129520330	51394930	37	53566											
PCDHB7	56129	broad.mit.edu	37	chr5	140554431	140554431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctcccagccctacctgcGgctcccggaggcggccccgg	3	6	12	20	4	1	0	0	0	1	0	3	1	2	1	6	5	3	1	6	5	1	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr5:140554431G>A	uc003lit.2	+	1	2189	c.2015G>A	c.(2014-2016)CGG>CAG	p.R672Q	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	672	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCCTACCTGCGGCTCCCGGAG	0.692													72	134					0	0	0.00361	0	0		A	140554431	A	A	140554431	3	1	87	1	0	0	0	0	1	0	0	0	11566	1116	39	1	2017	1	PCDHB7	5	140554431	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	11034101	140554431	40360829	38	53567											
NMUR2	56923	broad.mit.edu	37	chr5	151775064	151775064	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagcagccagggattcaCtccactcctccacaaagctg	12	6	7	16	0	1	0	1	0	0	0	4	1	4	1	4	1	3	2	4	1	1	1	rs4958535	byFrequency	TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr5:151775064C>G	uc003luv.2	-	3	1059	c.893G>C	c.(892-894)AGT>ACT	p.S298T		NM_020167	NP_064552	Q9GZQ4	NMUR2_HUMAN	neuromedin U receptor 2	298	Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|arachidonic acid secretion|calcium ion transport|central nervous system development|elevation of cytosolic calcium ion concentration|regulation of smooth muscle contraction	integral to membrane|plasma membrane	GTP binding|intracellular calcium activated chloride channel activity|neuromedin U receptor activity	p.S298I(1)		ovary(3)|skin(2)|lung(1)|breast(1)|pancreas(1)	8		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)	Kidney(363;0.000106)|KIRC - Kidney renal clear cell carcinoma(527;0.000672)			CAGGGATTCACTCCACTCCTC	0.463													4	39					0	0	0.009096	0	0		G	151775064	G	G	151775064	3	3	87	1	0	0	0	0	1	0	0	0	10526	565	20	5	362	5	NMUR2	5	151775064	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	11220633	151775064	29140196	39	53568											
ADRA1B	147	broad.mit.edu	37	chr5	159344848	159344848	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggctacccttcttcatCgctctaccgcttggtaagtt	5	15	8	13	2	3	0	1	0	2	0	4	0	3	0	2	2	3	6	2	2	3	7			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr5:159344848C>A	uc003lxt.1	+	1	1109	c.936C>A	c.(934-936)ATC>ATA	p.I312I		NM_000679	NP_000670	P35368	ADA1B_HUMAN	alpha-1B-adrenergic receptor	312	Helical; Name=6; (By similarity).				cell proliferation|cell-cell signaling|G-protein signaling, coupled to cAMP nucleotide second messenger|intracellular protein kinase cascade	integral to plasma membrane	alpha1-adrenergic receptor activity			lung(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Modafinil(DB00745)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Olanzapine(DB00334)|Phendimetrazine(DB01579)|Phenylephrine(DB00388)|Prazosin(DB00457)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Trazodone(DB00656)	CCTTCTTCATCGCTCTACCGC	0.463													55	19					3.40343e-31	4.02449e-31	0.00361	1	0		A	159344848	A	A	159344848	2	1	87	1	0	0	0	0	0	0	0	1	335	874	31	5		5	ADRA1B	5	159344848	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	7569784	159344848	21570412	40	53569											
PRPF4B	8899	broad.mit.edu	37	chr6	4032190	4032190	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagtctggctctgaagaaGagggggaaattcatgaaaag	15	8	14	4	0	3	5	1	3	2	2	3	6	3	6	0	3	0	1	0	3	5	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr6:4032190G>T	uc003mvv.2	+	2	530	c.439G>T	c.(439-441)GAG>TAG	p.E147*	PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	147	Arg/Lys-rich (basic).					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity	p.F147L(2)		breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				CTCTGAAGAAGAGGGGGAAAT	0.403													91	74					1.31458e-49	1.57749e-49	0.00361	1	0		T	4032190	T	T	4032190	4	4	87	1	0	0	0	0	0	1	0	0	12595	943	33	5	445	5	PRPF4B	6	4032190	Nonsense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08		4032190	167082877	41	53570											
DSP	1832	broad.mit.edu	37	chr6	7565711	7565711	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctgctgtacgactggagCgacaagaacaccaacatcgc	13	5	11	12	3	0	1	0	0	0	1	1	5	0	2	1	1	6	3	1	1	4	1	rs121912992		TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr6:7565711C>T	uc003mxp.1	+	7	1176	c.897C>T	c.(895-897)AGC>AGT	p.S299S	DSP_uc003mxq.1_Silent_p.S299S	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	299	Globular 1.|Interacts with plakophilin 1 and junction plakoglobin.		S -> R (in ARVD8).		cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		ACGACTGGAGCGACAAGAACA	0.547													20	75					0	0	0.010504	0	0		T	7565711	T	T	7565711	2	4	87	1	0	0	0	0	0	0	0	1	4787	767	27	1		1	DSP	6	7565711	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	3533521	7565711	163549356	42	53571											
HIST1H2AB	8335	broad.mit.edu	37	chr6	26033708	26033708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcggagcaggcggtgcactCggcccacaggaaactgcaaa	11	4	14	12	3	0	0	0	0	0	0	1	2	0	2	1	5	5	3	1	5	2	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr6:26033708C>T	uc003nft.1	-	1	89	c.89G>A	c.(88-90)CGA>CAA	p.R30Q	HIST1H3B_uc003nfs.1_5'Flank	NM_003513	NP_003504	P04908	H2A1B_HUMAN	histone cluster 1, H2ab	30					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GCGGTGCACTCGGCCCACAGG	0.617													55	55					0	0	0.00361	0	0		T	26033708	T	T	26033708	3	4	87	1	0	0	0	0	1	0	0	0	7145	884	31	1	307	1	HIST1H2AB	6	26033708	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	18467997	26033708	145081359	43	53572											
RGL2	5863	broad.mit.edu	37	chr6	33260908	33260908	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catatccagtccccccggagGcctcttctgcacccccactc	6	8	6	21	1	2	0	0	0	2	0	5	1	4	1	7	2	1	1	7	2	1	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr6:33260908G>T	uc003odv.2	-	16	2025	c.1892C>A	c.(1891-1893)GCC>GAC	p.A631D	RGL2_uc003odu.2_Missense_Mutation_p.A191D|RGL2_uc010jur.2_Missense_Mutation_p.A191D|RGL2_uc003odw.2_Missense_Mutation_p.A549D	NM_004761	NP_004752	O15211	RGL2_HUMAN	ral guanine nucleotide dissociation	631					Ras protein signal transduction|regulation of small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity			skin(3)|lung(1)|breast(1)|pancreas(1)	6						CCCCCCGGAGGCCTCTTCTGC	0.662													31	250					5.77227e-19	6.58527e-19	0.008361	1	0		T	33260908	T	T	33260908	3	4	87	1	0	0	0	0	1	0	0	0	13302	1203	42	5	453	5	RGL2	6	33260908	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	7227200	33260908	137854159	44	53573											
KCTD20	222658	broad.mit.edu	37	chr6	36454780	36454780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggaagaagggaagagtcGccatgtggatttccagtgtg	13	8	15	5	1	0	2	0	0	0	2	2	5	1	5	2	3	0	0	2	3	4	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr6:36454780G>A	uc003ome.2	+	8	1479	c.1088G>A	c.(1087-1089)CGC>CAC	p.R363H	KCTD20_uc011dtm.1_Missense_Mutation_p.R218H|KCTD20_uc011dtn.1_Missense_Mutation_p.R117H|KCTD20_uc010jwk.2_Missense_Mutation_p.R197H|KCTD20_uc011dto.1_Missense_Mutation_p.R117H	NM_173562	NP_775833	Q7Z5Y7	KCD20_HUMAN	potassium channel tetramerisation domain	363						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)	2						GGGAAGAGTCGCCATGTGGAT	0.473													103	122					0	0	0.00361	0	0		A	36454780	A	A	36454780	3	1	87	1	0	0	0	0	1	0	0	0	8124	1087	38	1	1114	1	KCTD20	6	36454780	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	3193872	36454780	134660287	45	53574											
USP49	25862	broad.mit.edu	37	chr6	41774587	41774587	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcaatatagcggccgcaGgccacgtgggagcacttgag	9	7	13	12	3	1	1	1	1	0	0	2	2	2	2	3	3	2	2	3	3	3	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr6:41774587G>A	uc003ori.2	-	4	357	c.135C>T	c.(133-135)GCC>GCT	p.A45A		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	45	UBP-type.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			AGCGGCCGCAGGCCACGTGGG	0.597													18	139					0	0	0.00499	0	0		A	41774587	A	A	41774587	2	1	87	1	0	0	0	0	0	0	0	1	17106	987	35	4		4	USP49	6	41774587	Silent	SNP	G	TCGA-BR-8678-01A-11D-2394-08	5319807	41774587	129340480	46	53575											
TFAP2D	83741	broad.mit.edu	37	chr6	50740473	50740473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acactactcacaagaacggcGgagcggcggattctggccaa	12	5	12	12	4	2	1	1	0	1	1	2	3	2	3	1	5	3	0	1	5	4	2	rs143299031		TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr6:50740473G>A	uc003paf.2	+	8	1767	c.1255G>A	c.(1255-1257)GGA>AGA	p.G419R	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	419							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					CAAGAACGGCGGAGCGGCGGA	0.502													14	75					0	0	0.003163	0	0		A	50740473	A	A	50740473	3	1	87	1	0	0	0	0	1	0	0	0	15815	1117	39	1	1285	1	TFAP2D	6	50740473	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	8965886	50740473	120374594	47	53576											
GJB7	375519	broad.mit.edu	37	chr6	87994325	87994325	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttctttctgtgccttttCtctctaccctcatgataggc	5	18	6	12	0	5	1	1	1	4	0	6	1	5	1	2	1	2	1	2	1	2	6			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr6:87994325C>A	uc003plo.2	-	3	652	c.306G>T	c.(304-306)GAG>GAT	p.E102D		NM_198568	NP_940970	Q6PEY0	CXB7_HUMAN	gap junction protein, beta 7, 25kDa	102	Cytoplasmic (Potential).				cell communication	connexon complex|integral to membrane					0		all_cancers(76;1.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;7.38e-10)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00323)		BRCA - Breast invasive adenocarcinoma(108;0.0167)		TGTGCCTTTTCTCTCTACCCT	0.443													20	105					2.39187e-15	2.69086e-15	0.008871	1	0		A	87994325	A	A	87994325	3	1	87	1	0	0	0	0	1	0	0	0	6428	912	32	5	369	5	GJB7	6	87994325	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	37253852	87994325	83120742	48	53577											
DNAH11	8701	broad.mit.edu	37	chr7	21621622	21621622	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttctttaactgcaatggcTtagaagctgcatttaaggtt	10	16	8	7	0	1	1	0	0	1	1	1	1	1	1	0	2	4	5	0	2	5	7			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr7:21621622T>C	uc003svc.2	+	9	1724	c.1693T>C	c.(1693-1695)TTA>CTA	p.L565L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	565	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTGCAATGGCTTAGAAGCTGC	0.348									Kartagener_syndrome				29	55					0	0	0.007291	0	0		C	21621622	C	C	21621622	2	2	87	1	0	0	0	0	0	0	0	1	4605	1606	56	3		3	DNAH11	7	21621622	Silent	SNP	T	TCGA-BR-8678-01A-11D-2394-08		21621622	137517041	49	53578											
DNAH11	8701	broad.mit.edu	37	chr7	21654888	21654888	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggatgtcattatttatgttCgagtaagatgtgctttttca	9	18	10	4	1	2	1	2	0	0	1	3	3	2	2	0	1	1	3	0	1	3	7			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr7:21654888C>T	uc003svc.2	+	21	4040	c.4009C>T	c.(4009-4011)CGA>TGA	p.R1337*		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1337	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TATTTATGTTCGAGTAAGATG	0.333									Kartagener_syndrome				7	33					0	0	0.00308	0	0		T	21654888	T	T	21654888	4	4	87	1	0	0	0	0	0	1	0	0	4605	876	31	1	4091	1	DNAH11	7	21654888	Nonsense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	33266	21654888	137483775	50	53579											
NCF1	653361	broad.mit.edu	37	chr7	74193734	74193734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctcgacttcttcaaggtgCgccctgatgacctcaagctc	7	11	8	15	2	3	2	2	2	1	0	6	3	4	2	3	1	2	1	3	1	2	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr7:74193734C>T	uc003ubb.2	+	4	431	c.361C>T	c.(361-363)CGC>TGC	p.R121C	NCF1_uc010lbs.1_Missense_Mutation_p.R121C|NCF1_uc011kfh.1_Intron	NM_000265	NP_000256	P14598	NCF1_HUMAN	neutrophil cytosolic factor 1	121	PX.				cell communication|cellular defense response|innate immune response|protein targeting to membrane|respiratory burst|superoxide anion generation	cytosol|NADPH oxidase complex|soluble fraction	electron carrier activity|GTP binding|GTPase activity|phosphatidylinositol binding|SH3 domain binding|superoxide-generating NADPH oxidase activity			skin(1)	1						CTTCAAGGTGCGCCCTGATGA	0.448													12	31					0	0	0.003163	0	0		T	74193734	T	T	74193734	3	4	87	1	0	0	0	0	1	0	0	0	10235	768	27	1	375	1	NCF1	7	74193734	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	52538846	74193734	84944929	51	53580											
MUC17	140453	broad.mit.edu	37	chr7	100680453	100680453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggtagcagcatgccaacctCaactcctagggaaggaaggc	12	5	12	12	1	1	0	1	0	0	0	2	2	2	2	3	4	5	3	3	4	6	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr7:100680453C>T	uc003uxp.1	+	3	5809	c.5756C>T	c.(5755-5757)TCA>TTA	p.S1919L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1919	Extracellular (Potential).|30.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ATGCCAACCTCAACTCCTAGG	0.498													69	238					0	0	0.00361	0	0		T	100680453	T	T	100680453	3	4	87	1	0	0	0	0	1	0	0	0	9992	838	29	4	5766	4	MUC17	7	100680453	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	26486719	100680453	58458210	52	53581											
PPP1R3A	5506	broad.mit.edu	37	chr7	113519744	113519744	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagctcctccttcatgttttTtattaaggtttcctgccatt	6	20	5	10	0	1	0	1	0	0	0	4	0	4	0	4	1	2	3	4	1	3	8			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr7:113519744T>G	uc010ljy.1	-	4	1434	c.1403A>C	c.(1402-1404)AAA>ACA	p.K468T		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	468					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TTCATGTTTTTTATTAAGGTT	0.393													21	61					0	0	0.008871	0	0		G	113519744	G	G	113519744	3	3	87	1	0	0	0	0	1	0	0	0	12393	1841	64	5	1969	5	PPP1R3A	7	113519744	Missense_Mutation	SNP	T	TCGA-BR-8678-01A-11D-2394-08	12839291	113519744	45618919	53	53582											
NUP205	23165	broad.mit.edu	37	chr7	135291543	135291543	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcaattcgtcatgaaacaAgaatccacatcttgaatctt	14	13	5	9	1	3	3	1	2	2	1	5	3	4	3	1	0	2	1	1	0	5	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr7:135291543A>G	uc003vsw.2	+	21	2981	c.2950A>G	c.(2950-2952)AGA>GGA	p.R984G		NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	984					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						TCATGAAACAAGAATCCACAT	0.363													51	45					0	0	0.00361	0	0		G	135291543	G	G	135291543	3	3	87	1	0	0	0	0	1	0	0	0	10778	64	3	3	3032	3	NUP205	7	135291543	Missense_Mutation	SNP	A	TCGA-BR-8678-01A-11D-2394-08	21771799	135291543	23847120	54	53583											
TTC26	79989	broad.mit.edu	37	chr7	138824648	138824648	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatttcaggaatacgaaaatGctacaaaagaggaaaattgt	19	10	8	4	1	1	1	1	0	0	1	1	4	1	3	0	2	3	1	0	2	10	5			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr7:138824648G>T	uc003vus.2	+	4	361	c.247G>T	c.(247-249)GCT>TCT	p.A83S	TTC26_uc003vuq.2_Missense_Mutation_p.A83S|TTC26_uc011kqm.1_Missense_Mutation_p.A83S|TTC26_uc003vur.3_Missense_Mutation_p.A83S|TTC26_uc011kqn.1_Missense_Mutation_p.A83S|TTC26_uc011kqo.1_Missense_Mutation_p.A52S|TTC26_uc011kqp.1_5'UTR|TTC26_uc003vut.2_5'UTR|TTC26_uc011kqq.1_Missense_Mutation_p.A83S	NM_024926	NP_079202	A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26 isoform 1	83	TPR 1.						binding			ovary(1)	1						ATACGAAAATGCTACAAAAGA	0.378													10	54					3.86212e-05	4.03654e-05	0.008291	1	0		T	138824648	T	T	138824648	3	4	87	1	0	0	0	0	1	0	0	0	16720	1319	46	5	261	5	TTC26	7	138824648	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	3533105	138824648	20314015	55	53584											
KRBA1	84626	broad.mit.edu	37	chr7	149418620	149418620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtccagggaagtcctctcCccatcagtgagtctgacaca	9	8	11	13	0	3	2	1	2	2	0	6	3	5	3	4	2	0	0	4	2	1	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr7:149418620C>T	uc003wfz.2	+	5	859	c.460C>T	c.(460-462)CCC>TCC	p.P154S	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_5'Flank	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	154										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AAGTCCTCTCCCCATCAGTGA	0.612													7	7					0	0	0.00308	0	0		T	149418620	T	T	149418620	3	4	87	1	0	0	0	0	1	0	0	0	8455	623	22	4	474	4	KRBA1	7	149418620	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	10593972	149418620	9720043	56	53585											
CSGALNACT1	55790	broad.mit.edu	37	chr8	19277976	19277976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatcaagtccctttcccCgagaaaattctccattcagc	12	10	4	15	1	3	1	2	0	1	1	6	2	5	1	4	0	2	0	4	0	4	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr8:19277976C>T	uc011kyn.1	-	7	2071	c.1007G>A	c.(1006-1008)CGG>CAG	p.R336Q	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.R336Q|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.R335Q	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	336	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		TCCCTTTCCCCGAGAAAATTC	0.473													27	253					0	0	0.005443	0	0		T	19277976	T	T	19277976	3	4	87	1	0	0	0	0	1	0	0	0	3941	652	23	1	607	1	CSGALNACT1	8	19277976	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08		19277976	127086046	57	53586											
AGPAT6	137964	broad.mit.edu	37	chr8	41467367	41467367	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcagaagaactggagtcctgGaacctgctgagcagaaccaa	14	5	12	10	0	0	4	0	1	0	3	1	6	1	6	3	2	5	3	3	2	5	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr8:41467367G>A	uc003xnz.2	+	4	1368	c.429G>A	c.(427-429)TGG>TGA	p.W143*		NM_178819	NP_848934	Q86UL3	GPAT4_HUMAN	lysophosphatidic acid acyltransferase zeta	143					acyl-CoA metabolic process|lactation|phosphatidylcholine biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|membrane fraction	glycerol-3-phosphate O-acyltransferase activity				0	Ovarian(28;0.00769)|Colorectal(14;0.0202)|Lung SC(25;0.211)	all_lung(54;0.0131)|Lung NSC(58;0.0363)|Hepatocellular(245;0.0462)|Esophageal squamous(32;0.0844)	OV - Ovarian serous cystadenocarcinoma(14;0.00126)|Colorectal(10;0.0014)|Lung(22;0.00177)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0147)			TGGAGTCCTGGAACCTGCTGA	0.488													35	75					0	0	0.004878	0	0		A	41467367	A	A	41467367	4	1	87	1	0	0	0	0	0	1	0	0	391	1183	41	4	439	4	AGPAT6	8	41467367	Nonsense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	22189391	41467367	104896655	58	53587											
LRRC67	286187	broad.mit.edu	37	chr8	67929969	67929969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttctggcaattagatccaagGtcagtcgaaccataatttct	12	13	7	9	1	3	1	1	0	2	1	5	2	4	1	2	2	1	1	2	2	5	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr8:67929969G>A	uc003xxc.2	-	2	159	c.14C>T	c.(13-15)ACC>ATC	p.T5I		NM_001013626	NP_001013648	Q7Z4L9	LRC67_HUMAN	leucine rich repeat containing 67	5											0						TAGATCCAAGGTCAGTCGAAC	0.343													31	23					0	0	0.003755	0	0		A	67929969	A	A	67929969	3	1	87	1	0	0	0	0	1	0	0	0	9037	1261	44	4	692	4	LRRC67	8	67929969	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	26462602	67929969	78434053	59	53588											
CA2	760	broad.mit.edu	37	chr8	86386597	86386597	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatatggggattttgggaaAgctgtgcagcaacctgatgg	12	10	14	5	0	0	1	0	1	0	0	0	3	0	3	1	4	4	3	1	4	4	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr8:86386597A>G	uc003ydk.2	+	4	576	c.396A>G	c.(394-396)AAA>AAG	p.K132K		NM_000067	NP_000058	P00918	CAH2_HUMAN	carbonic anhydrase II	132					one-carbon metabolic process	apical part of cell	carbonate dehydratase activity|zinc ion binding			central_nervous_system(1)	1					Acetazolamide(DB00819)|Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Brinzolamide(DB01194)|Chlorothiazide(DB00880)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Dorzolamide(DB00869)|Ethinamate(DB01031)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Topiramate(DB00273)|Trichlormethiazide(DB01021)	ATTTTGGGAAAGCTGTGCAGC	0.403													76	58					0	0	0.00361	0	0		G	86386597	G	G	86386597	2	3	87	1	0	0	0	0	0	0	0	1	2519	69	3	3		3	CA2	8	86386597	Silent	SNP	A	TCGA-BR-8678-01A-11D-2394-08	18456628	86386597	59977425	60	53589											
KDM4C	23081	broad.mit.edu	37	chr9	7128217	7128217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctcctttagcagagacaCatttcctgaggatatcgtgg	9	12	11	9	1	0	2	0	1	0	1	3	4	2	3	2	3	1	2	2	3	2	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr9:7128217C>T	uc003zkh.2	+	19	3342	c.2762C>T	c.(2761-2763)ACA>ATA	p.T921I	KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Missense_Mutation_p.T921I|KDM4C_uc011lmk.1_Missense_Mutation_p.T666I|KDM4C_uc011lml.1_Missense_Mutation_p.T608I	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	921	Tudor 1.				positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						AGCAGAGACACATTTCCTGAG	0.433													32	46					0	0	0.002836	0	0		T	7128217	T	T	7128217	3	4	87	1	0	0	0	0	1	0	0	0	8146	478	17	4	2924	4	KDM4C	9	7128217	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08		7128217	134085214	61	53590											
NPR2	4882	broad.mit.edu	37	chr9	35805937	35805937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgcaggagatagcacttCgcagtggtcctttctacttg	7	13	10	11	1	1	1	0	0	1	1	4	2	3	1	2	2	3	3	2	2	2	5			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr9:35805937C>T	uc003zyd.2	+	14	2158	c.2158C>T	c.(2158-2160)CGC>TGC	p.R720C	NPR2_uc010mlb.2_Missense_Mutation_p.R696C	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	720	Protein kinase.|Cytoplasmic (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	GATAGCACTTCGCAGTGGTCC	0.552													32	78					0	0	0.002096	0	0		T	35805937	T	T	35805937	3	4	87	1	0	0	0	0	1	0	0	0	10614	884	31	1	2212	1	NPR2	9	35805937	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	28677720	35805937	105407494	62	53591											
FLJ46321	389763	broad.mit.edu	37	chr9	84606105	84606105	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccatagaccattccccaccCcaacagcttccctttcccct	8	9	2	22	0	0	1	0	0	0	1	3	1	3	1	9	0	2	1	9	0	2	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr9:84606105C>A	uc004amn.2	+	4	767	c.720C>A	c.(718-720)CCC>CCA	p.P240P		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	240	Pro-rich.					integral to membrane					0						ATTCCCCACCCCAACAGCTTC	0.522													26	274					5.6714e-07	6.08455e-07	0.002096	1	0		A	84606105	A	A	84606105	2	1	87	1	0	0	0	0	0	0	0	1	5946	610	22	5		5	FLJ46321	9	84606105	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	48800168	84606105	56607326	63	53592											
C9orf102	375748	broad.mit.edu	37	chr9	98691121	98691121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttcaacagtacacaagatGttaacatttgccttgtctct	12	14	6	9	0	2	1	1	0	1	1	3	1	2	1	1	0	4	3	1	0	4	5			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr9:98691121G>A	uc004avt.3	+	11	2147	c.1759G>A	c.(1759-1761)GTT>ATT	p.V587I	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Missense_Mutation_p.V289I|C9orf102_uc010mry.1_Missense_Mutation_p.V289I|C9orf102_uc010mrz.2_Missense_Mutation_p.V398I|C9orf102_uc004avu.2_5'UTR	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	587	Helicase C-terminal.				DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				TACACAAGATGTTAACATTTG	0.308													17	85					0	0	0.004007	0	0		A	98691121	A	A	98691121	3	1	87	1	0	0	0	0	1	0	0	0	2448	1377	48	4	1801	4	C9orf102	9	98691121	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	14085016	98691121	42522310	64	53593											
ZNF462	58499	broad.mit.edu	37	chr9	109689674	109689674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcaatgatgagaggggtcGaagggccccaaggctccccc	9	5	14	13	1	0	2	0	2	0	1	2	4	1	2	4	4	1	2	4	4	3	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr9:109689674G>A	uc004bcz.2	+	3	3770	c.3481G>A	c.(3481-3483)GAA>AAA	p.E1161K	ZNF462_uc010mto.2_Missense_Mutation_p.E1009K|ZNF462_uc004bda.2_Missense_Mutation_p.E1009K	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1161					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						GAGAGGGGTCGAAGGGCCCCA	0.552													31	118					0	0	0.007291	0	0		A	109689674	A	A	109689674	3	1	87	1	0	0	0	0	1	0	0	0	17951	1059	37	1	3487	1	ZNF462	9	109689674	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	10998553	109689674	31523757	65	53594											
NELF	26012	broad.mit.edu	37	chr9	140347581	140347581	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctcagtgtcccagtccAggtcctcgaaggcctcgtcc	5	10	9	17	2	1	0	1	0	1	0	8	1	5	0	6	2	0	0	6	2	1	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr9:140347581A>G	uc004cna.2	-	9	1206	c.974T>C	c.(973-975)CTG>CCG	p.L325P	C9orf167_uc011mew.1_Intron|NELF_uc011mex.1_Missense_Mutation_p.L122P|NELF_uc010nci.2_Missense_Mutation_p.L69P|NELF_uc011mey.1_RNA|NELF_uc011mez.1_Missense_Mutation_p.L302P|NELF_uc004cmz.2_Missense_Mutation_p.L323P|NELF_uc004cnc.2_Missense_Mutation_p.L300P|NELF_uc004cnb.2_Missense_Mutation_p.L295P	NM_001130969	NP_001124441	Q6X4W1	NELF_HUMAN	nasal embryonic LHRH factor isoform a	325						nucleus|plasma membrane					0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000222)|Epithelial(140;0.000888)		GTCCCAGTCCAGGTCCTCGAA	0.657													5	37					0	0	0.001168	0	0		G	140347581	G	G	140347581	3	3	87	1	0	0	0	0	1	0	0	0	10351	188	7	3	650	3	NELF	9	140347581	Missense_Mutation	SNP	A	TCGA-BR-8678-01A-11D-2394-08	30657907	140347581	865850	66	53595											
LGI1	9211	broad.mit.edu	37	chr10	95557278	95557278	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaaatggggaggctcctcGttccaggatattcagaggat	11	10	13	7	1	1	2	1	1	0	1	4	5	3	5	2	5	0	2	2	5	2	3	rs148804268		TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr10:95557278G>A	uc001kjc.3	+	8	1728	c.1392G>A	c.(1390-1392)TCG>TCA	p.S464S	LGI1_uc010qnv.1_Silent_p.S416S|LGI1_uc001kjd.3_Intron|LGI1_uc009xui.2_RNA|LGI1_uc001kje.2_Intron	NM_005097	NP_005088	O95970	LGI1_HUMAN	leucine-rich, glioma inactivated 1 precursor	464	EAR 6.				axon guidance|cell proliferation|positive regulation of cell growth|positive regulation of synaptic transmission	cell junction|extracellular space|synapse	receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4		Colorectal(252;0.124)				GAGGCTCCTCGTTCCAGGATA	0.438													38	57					0	0	0.005524	0	0		A	95557278	A	A	95557278	2	1	87	1	0	0	0	0	0	0	0	1	8767	1132	40	1		1	LGI1	10	95557278	Silent	SNP	G	TCGA-BR-8678-01A-11D-2394-08		95557278	39977469	67	53596											
PKP3	11187	broad.mit.edu	37	chr11	397169	397169	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gcgccaggccagctccagctCcagccgggcaggggggctgg	5	3	18	15	2	0	0	0	0	0	0	2	0	2	0	5	6	3	4	5	6	0	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:397169C>G	uc001lpc.2	+	3	744	c.668C>G	c.(667-669)TCC>TGC	p.S223C		NM_007183	NP_009114	Q9Y446	PKP3_HUMAN	plakophilin 3	223					cell adhesion	desmosome|nucleus	binding			skin(1)	1		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGCTCCAGCTCCAGCCGGGCA	0.711													4	34					0	0	0.009096	0	0		G	397169	G	G	397169	3	3	87	1	0	0	0	0	1	0	0	0	12005	855	30	5	678	5	PKP3	11	397169	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08		397169	134609347	68	53597											
OR52E4	390081	broad.mit.edu	37	chr11	5906083	5906083	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgagcacaggggtctggcCgggttggcctgtgcacccat	5	9	16	11	1	1	1	0	1	1	0	1	1	1	1	3	5	2	3	3	5	0	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:5906083C>T	uc010qzs.1	+	1	561	c.561C>T	c.(559-561)GCC>GCT	p.A187A	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGGGTCTGGCCGGGTTGGCCT	0.443													145	57					0	0	0.00361	0	0		T	5906083	T	T	5906083	2	4	87	1	0	0	0	0	0	0	0	1	11135	639	23	1		1	OR52E4	11	5906083	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	5508914	5906083	129100433	69	53598											
CTR9	9646	broad.mit.edu	37	chr11	10785357	10785357	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagcttatcctaataattaCgaaactatgaaaattctcgg	17	12	5	7	2	1	1	0	1	1	0	3	2	2	1	1	1	3	1	1	1	9	6			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:10785357C>T	uc001mja.2	+	9	1274	c.1125C>T	c.(1123-1125)TAC>TAT	p.Y375Y		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	375					histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		CTAATAATTACGAAACTATGA	0.348													79	27					0	0	0.00361	0	0		T	10785357	T	T	10785357	2	4	87	1	0	0	0	0	0	0	0	1	4027	547	19	1		1	CTR9	11	10785357	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	4879274	10785357	124221159	70	53599											
NAV2	89797	broad.mit.edu	37	chr11	20122686	20122686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgacagacggggttatcGccacctttaacgtggaccat	10	10	11	10	3	0	2	0	1	0	1	1	3	0	3	3	3	1	2	3	3	2	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:20122686G>A	uc001mpr.3	+	32	6755	c.6394G>A	c.(6394-6396)GCC>ACC	p.A2132T	NAV2_uc001mpp.2_Missense_Mutation_p.A2065T|NAV2_uc009yhx.2_Missense_Mutation_p.A1193T|NAV2_uc009yhz.2_Missense_Mutation_p.A774T|NAV2_uc001mpu.2_Missense_Mutation_p.A567T	NM_182964	NP_892009	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 1	2188						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						CGGGGTTATCGCCACCTTTAA	0.522													21	82					0	0	0.001882	0	0		A	20122686	A	A	20122686	3	1	87	1	0	0	0	0	1	0	0	0	10202	1087	38	1	6629	1	NAV2	11	20122686	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	9337329	20122686	114883830	71	53600											
PRR5L	79899	broad.mit.edu	37	chr11	36467865	36467865	+	Frame_Shift_Del	DEL	A	-	-																															tctagggccaggagctgactAtccgccagatctccctgctg																										TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:36467865delA	uc001mwo.3	+	7	849	c.460delA	c.(460-462)ATCfs	p.I154fs	PRR5L_uc001mwp.2_Frame_Shift_Del_p.I154fs|PRR5L_uc009ykk.2_Intron|PRR5L_uc010rfc.1_Frame_Shift_Del_p.I154fs	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	154										ovary(1)	1						GGAGCTGACTATCCGCCAGAT	0.597													43	10	---	---	---	---						.	-	36467865	-	-	36467865	7	5	87	1	0	1	0	1	0	0	0	0	12624	449	16	0	488	0	PRR5L	11	36467865	Frame_Shift_Del	DEL	A	TCGA-BR-8678-01A-11D-2394-08	16345179	36467865	98538651	72	53601											
OR5AS1	219447	broad.mit.edu	37	chr11	55798075	55798075	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccttcaaattcccatgtatTattttcttagcaacttatct	10	18	3	10	0	3	0	1	0	2	0	4	0	4	0	2	0	2	2	2	0	6	8			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:55798075T>G	uc010riw.1	+	1	181	c.181T>G	c.(181-183)TAT>GAT	p.Y61D		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	61	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					TCCCATGTATTATTTTCTTAG	0.343													10	84					0	0	0.008291	0	0		G	55798075	G	G	55798075	3	3	87	1	0	0	0	0	1	0	0	0	11165	1754	61	5	183	5	OR5AS1	11	55798075	Missense_Mutation	SNP	T	TCGA-BR-8678-01A-11D-2394-08	19330210	55798075	79208441	73	53602											
OR8I2	120586	broad.mit.edu	37	chr11	55861192	55861192	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgtattcagtagtcatgTcccaaaaagtgtccaactgg	12	12	8	9	0	2	0	2	0	0	0	4	0	4	0	2	1	2	2	2	1	6	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:55861192T>C	uc010rix.1	+	1	409	c.409T>C	c.(409-411)TCC>CCC	p.S137P		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					AGTAGTCATGTCCCAAAAAGT	0.448													21	170					0	0	0.010504	0	0		C	55861192	C	C	55861192	3	2	87	1	0	0	0	0	1	0	0	0	11259	1667	58	3	411	3	OR8I2	11	55861192	Missense_Mutation	SNP	T	TCGA-BR-8678-01A-11D-2394-08	63117	55861192	79145324	74	53603											
OR5R1	219479	broad.mit.edu	37	chr11	56185107	56185107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcatatcaaagccagcaaagGcaaatatcagaatttccttc	16	10	5	10	0	3	1	3	0	0	1	5	1	4	1	2	1	2	2	2	1	6	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:56185107G>A	uc010rji.1	-	1	602	c.602C>T	c.(601-603)GCC>GTC	p.A201V		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	201	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GCCAGCAAAGGCAAATATCAG	0.438													9	110					0	0	0.006214	0	0		A	56185107	A	A	56185107	3	1	87	1	0	0	0	0	1	0	0	0	11199	1203	42	2	374	2	OR5R1	11	56185107	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	323915	56185107	78821409	75	53604											
CTNND1	1500	broad.mit.edu	37	chr11	57581797	57581797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atacagataagaaacctgatCgggaagaaattcagatgagc	18	7	10	6	1	1	6	1	2	0	4	2	7	1	7	1	1	3	0	1	1	5	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:57581797C>T	uc001nmc.3	+	18	3224	c.2653C>T	c.(2653-2655)CGG>TGG	p.R885W	CTNND1_uc001nlh.1_Missense_Mutation_p.R885W|CTNND1_uc001nlu.3_Missense_Mutation_p.R778W|CTNND1_uc001nlt.3_Missense_Mutation_p.R778W|CTNND1_uc001nls.3_Intron|CTNND1_uc001nlw.3_Missense_Mutation_p.R778W|CTNND1_uc001nmf.3_Missense_Mutation_p.R885W|CTNND1_uc001nmd.3_Missense_Mutation_p.R831W|CTNND1_uc001nlk.3_Missense_Mutation_p.R831W|CTNND1_uc001nme.3_Missense_Mutation_p.R879W|CTNND1_uc001nll.3_Missense_Mutation_p.R825W|CTNND1_uc001nmg.3_Missense_Mutation_p.R825W|CTNND1_uc001nlj.3_Missense_Mutation_p.R825W|CTNND1_uc001nlr.3_Missense_Mutation_p.R825W|CTNND1_uc001nlp.3_Intron|CTNND1_uc001nlx.3_Missense_Mutation_p.R562W|CTNND1_uc001nlz.3_Missense_Mutation_p.R562W|CTNND1_uc009ymn.2_Missense_Mutation_p.R556W|CTNND1_uc001nlm.3_Missense_Mutation_p.R879W|CTNND1_uc001nly.3_Missense_Mutation_p.R556W|CTNND1_uc001nmb.3_Missense_Mutation_p.R556W|CTNND1_uc001nma.3_Intron|CTNND1_uc001nmi.3_Missense_Mutation_p.R784W|CTNND1_uc001nmh.3_Missense_Mutation_p.R879W|CTNND1_uc001nlq.3_Missense_Mutation_p.R784W|CTNND1_uc001nln.3_Missense_Mutation_p.R879W|CTNND1_uc001nli.3_Intron|CTNND1_uc001nlo.3_Missense_Mutation_p.R778W|CTNND1_uc001nlv.3_Missense_Mutation_p.R778W	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	885					adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				GAAACCTGATCGGGAAGAAAT	0.373													3	18					0	0	0.009096	0	0		T	57581797	T	T	57581797	3	4	87	1	0	0	0	0	1	0	0	0	4022	875	31	1	2715	1	CTNND1	11	57581797	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	1396690	57581797	77424719	76	53605											
TMEM132A	54972	broad.mit.edu	37	chr11	60703766	60703768	+	In_Frame_Del	DEL	AGG	-	-																															ggcagaggaggaggccaggaAggaggagaccgaagccaggg																										TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:60703766_60703768delAGG	uc001nqj.2	+	11	2652_2654	c.2459_2461delAGG	c.(2458-2463)AAGGAG>AAG	p.E822del	TMEM132A_uc001nqi.2_In_Frame_Del_p.E823del|TMEM132A_uc001nqm.2_In_Frame_Del_p.E32del	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	822	Glu-rich.|Binds to HSPA5/GRP78 (By similarity).|Confers cellular localization similar to full-length form (By similarity).|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						GAGGCCAGGAAGGAGGAGACCGA	0.537													63	35	---	---	---	---						.	-	60703768	-	-	60703766	7	5	87	1	0	1	0	1	0	0	0	0	16070	72	3	0	2504	0	TMEM132A	11	60703766	In_Frame_Del	DEL	AGG	TCGA-BR-8678-01A-11D-2394-08	3121969	60703766	74302750	77	53606											
ANO1	55107	broad.mit.edu	37	chr11	69934066	69934066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctgccgggcaagggggCgtcgctggatgcaggctcgg	4	5	18	14	4	0	0	0	0	0	0	2	1	0	1	3	6	2	4	3	6	1	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:69934066C>T	uc001opj.2	+	2	622	c.317C>T	c.(316-318)GCG>GTG	p.A106V	ANO1_uc001opk.1_Missense_Mutation_p.A78V|ANO1_uc001opl.1_RNA	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	106	Cytoplasmic (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						GGCAAGGGGGCGTCGCTGGAT	0.706													6	3					0	0	0.001168	0	0		T	69934066	T	T	69934066	3	4	87	1	0	0	0	0	1	0	0	0	695	768	27	1	323	1	ANO1	11	69934066	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	9230300	69934066	65072450	78	53607											
ODZ4	26011	broad.mit.edu	37	chr11	78380911	78380911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatccagtacatgagcgagCggaagatctcatactgcact	12	9	9	11	2	2	2	2	1	1	1	4	4	3	3	1	1	5	2	1	1	3	2	rs144957611	by1000genomes	TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:78380911C>T	uc001ozl.3	-	32	6942	c.6479G>A	c.(6478-6480)CGC>CAC	p.R2160H	ODZ4_uc001ozk.3_Missense_Mutation_p.R385H|ODZ4_uc009yvb.1_Missense_Mutation_p.R744H	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2160	YD 16.|Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CATGAGCGAGCGGAAGATCTC	0.488													21	13					0	0	0.008871	0	0		T	78380911	T	T	78380911	3	4	87	1	0	0	0	0	1	0	0	0	10856	768	27	1	1842	1	ODZ4	11	78380911	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	8446845	78380911	56625605	79	53608											
FZD4	8322	broad.mit.edu	37	chr11	86663299	86663299	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggttttgtgaggtaagggcaCctcttcatcacctggccctt	6	13	11	11	0	3	1	2	1	1	0	3	1	3	1	3	4	0	3	3	4	1	5			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:86663299C>A	uc001pce.2	-	2	805	c.499G>T	c.(499-501)GTG>TTG	p.V167L	PRSS23_uc001pcc.1_RNA	NM_012193	NP_036325	Q9ULV1	FZD4_HUMAN	frizzled 4 precursor	167	Extracellular (Potential).				canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|negative regulation of cell-substrate adhesion|neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|progesterone secretion|regulation of vascular endothelial growth factor receptor signaling pathway|substrate adhesion-dependent cell spreading|vasculogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cell projection|cell surface|cytoplasm	cytokine binding|G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			large_intestine(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GGTAAGGGCACCTCTTCATCA	0.522													24	107					5.35047e-06	5.70248e-06	0.00333	1	0		A	86663299	A	A	86663299	3	1	87	1	0	0	0	0	1	0	0	0	6146	507	18	5	1118	5	FZD4	11	86663299	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	8282388	86663299	48343217	80	53609											
APOA4	337	broad.mit.edu	37	chr11	116691970	116691970	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacgtcctcggccaagggCgccagcctctgccgcagctc	5	5	12	19	5	1	0	0	0	1	0	4	0	2	0	5	2	3	3	5	2	1	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:116691970C>T	uc001pps.1	-	3	908	c.804G>A	c.(802-804)GCG>GCA	p.A268A		NM_000482	NP_000473			apolipoprotein A-IV precursor												0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		CGGCCAAGGGCGCCAGCCTCT	0.662													19	64					0	0	0.007413	0	0		T	116691970	T	T	116691970	2	4	87	1	0	0	0	0	0	0	0	1	783	755	27	1		1	APOA4	11	116691970	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	30028671	116691970	18314546	81	53610											
HINFP	25988	broad.mit.edu	37	chr11	119002253	119002253	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctggcacagaattccttCgacaatcctgagtggtttta	9	12	8	12	1	0	2	0	1	0	1	3	3	2	2	4	2	0	2	4	2	3	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:119002253C>T	uc001pvp.2	+	5	609	c.420C>T	c.(418-420)TTC>TTT	p.F140F	HINFP_uc001pvq.2_Silent_p.F140F|HINFP_uc001pvr.2_5'UTR	NM_015517	NP_056332	Q9BQA5	HINFP_HUMAN	MBD2 (methyl-CpG-binding protein)-interacting	140	C2H2-type 2.				DNA damage checkpoint|DNA repair|establishment of protein localization|in utero embryonic development|myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	enzyme binding|histone binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AGAATTCCTTCGACAATCCTG	0.542													9	73					0	0	0.004482	0	0		T	119002253	T	T	119002253	2	4	87	1	0	0	0	0	0	0	0	1	7126	883	31	1		1	HINFP	11	119002253	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	2310283	119002253	16004263	82	53611											
PANX3	116337	broad.mit.edu	37	chr11	124487353	124487353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatccggcagaagagttccGacccctatgtgttctggaat	10	10	11	10	2	1	3	0	0	1	3	3	5	3	4	4	2	0	3	4	2	3	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr11:124487353G>A	uc001qah.2	+	3	508	c.508G>A	c.(508-510)GAC>AAC	p.D170N		NM_052959	NP_443191	Q96QZ0	PANX3_HUMAN	pannexin 3	170	Cytoplasmic (Potential).				protein hexamerization	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0219)		GAAGAGTTCCGACCCCTATGT	0.458													49	30					0	0	0.00361	0	0		A	124487353	A	A	124487353	3	1	87	1	0	0	0	0	1	0	0	0	11441	1058	37	1	518	1	PANX3	11	124487353	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	5485100	124487353	10519163	83	53612											
CACNA2D4	93589	broad.mit.edu	37	chr12	1992145	1992145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcctgggtgtccgccagcGttgagatctgcgtgtagtag	5	12	14	10	3	2	1	0	1	2	1	4	2	3	1	3	1	2	3	3	1	2	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr12:1992145G>A	uc001qjp.2	-	13	1604	c.1373C>T	c.(1372-1374)ACG>ATG	p.T458M	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Missense_Mutation_p.T346M	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	458	VWFA.|Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		GTCCGCCAGCGTTGAGATCTG	0.642													9	5					0	0	0.006214	0	0		A	1992145	A	A	1992145	3	1	87	1	0	0	0	0	1	0	0	0	2554	1145	40	1	2144	1	CACNA2D4	12	1992145	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08		1992145	131859750	84	53613											
KCNA6	3742	broad.mit.edu	37	chr12	4919260	4919260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgggggaggtccgtgggcCggagggagagcaacaggatg	8	3	22	8	3	0	1	0	0	0	1	1	5	1	4	3	7	2	1	3	7	1	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr12:4919260C>T	uc001qng.2	+	1	919	c.53C>T	c.(52-54)CCG>CTG	p.P18L		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	18						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						GTCCGTGGGCCGGAGGGAGAG	0.706										HNSCC(72;0.22)			10	16					0	0	0.008291	0	0		T	4919260	T	T	4919260	3	4	87	1	0	0	0	0	1	0	0	0	8023	652	23	1	55	1	KCNA6	12	4919260	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	2927115	4919260	128932635	85	53614											
PZP	5858	broad.mit.edu	37	chr12	9333627	9333627	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcatgagcagcacactttgGtccacagcacgaagggcaca	12	7	10	12	1	1	1	1	1	0	0	2	2	2	1	1	2	3	4	1	2	1	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr12:9333627G>T	uc001qvl.2	-	15	1820	c.1791C>A	c.(1789-1791)GAC>GAA	p.D597E	PZP_uc009zgl.2_Missense_Mutation_p.D466E	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						GCACACTTTGGTCCACAGCAC	0.587													9	32					1.12685e-05	1.18539e-05	0.004482	1	0		T	9333627	T	T	9333627	3	4	87	1	0	0	0	0	1	0	0	0	12894	1252	44	5	2745	5	PZP	12	9333627	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	4414367	9333627	124518268	86	53615											
OVCH1	341350	broad.mit.edu	37	chr12	29649590	29649590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttttcatgttgaccatgcGaattccacacttcagtcctg	9	14	6	12	1	2	1	2	1	0	0	4	2	4	1	3	0	1	1	3	0	1	5			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr12:29649590G>A	uc001rix.1	-	2	82	c.82C>T	c.(82-84)CGC>TGC	p.R28C		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	28					proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					TTGACCATGCGAATTCCACAC	0.428													11	156					0	0	0.001368	0	0		A	29649590	A	A	29649590	3	1	87	1	0	0	0	0	1	0	0	0	11342	1058	37	1	3430	1	OVCH1	12	29649590	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	20315963	29649590	104202305	87	53616											
UBE3B	89910	broad.mit.edu	37	chr12	109921443	109921443	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggcttgtgcagaaggaacgGgagcgggcagctgttgtgat	9	8	18	6	2	0	2	0	1	0	1	0	4	0	4	0	4	4	5	0	4	2	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr12:109921443G>A	uc001top.2	+	3	690	c.87G>A	c.(85-87)CGG>CGA	p.R29R	UBE3B_uc001toq.2_Silent_p.R29R|UBE3B_uc001tol.1_Silent_p.R29R|UBE3B_uc001tom.2_Silent_p.R29R|UBE3B_uc001ton.2_Silent_p.R29R|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Silent_p.R29R|UBE3B_uc001tor.2_Silent_p.R29R	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	29	IQ.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						AGAAGGAACGGGAGCGGGCAG	0.542													87	57					0	0	0.00361	0	0		A	109921443	A	A	109921443	2	1	87	1	0	0	0	0	0	0	0	1	16906	1219	43	4		4	UBE3B	12	109921443	Silent	SNP	G	TCGA-BR-8678-01A-11D-2394-08	80271853	109921443	23930452	88	53617											
C12orf51	283450	broad.mit.edu	37	chr12	112667572	112667572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgcggcaacggcctggCgtgcaattctctgaagtttg	8	10	13	10	3	1	1	0	1	1	0	2	1	1	1	1	3	3	3	1	3	3	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr12:112667572C>T	uc009zwc.2	-	34	5201	c.5183G>A	c.(5182-5184)CGC>CAC	p.R1728H	C12orf51_uc001ttr.1_5'Flank	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						AACGGCCTGGCGTGCAATTCT	0.493													32	139					0	0	0.002096	0	0		T	112667572	T	T	112667572	3	4	87	1	0	0	0	0	1	0	0	0	1699	768	27	1	6951	1	C12orf51	12	112667572	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	2746129	112667572	21184323	89	53618											
GOLGA3	2802	broad.mit.edu	37	chr12	133353343	133353343	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcccatttgagattttccatCtaaagaggggaaagtcacat	13	12	8	8	0	2	2	1	1	1	2	4	4	4	3	2	2	0	0	2	2	3	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr12:133353343C>G	uc001ukz.1	-	21	4415	c.3856_splice	c.e21-1	p.M1286_splice	GOLGA3_uc001ula.1_Splice_Site_p.M1286_splice	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3						intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GATTTTCCATCTAAAGAGGGG	0.438													58	40					0	0	0.00361	0	0		G	133353343	G	G	133353343	5	3	87	1	0	0	0	0	0	0	1	0	6569	927	32	5	657	5	GOLGA3	12	133353343	Splice_Site	SNP	C	TCGA-BR-8678-01A-11D-2394-08	20685771	133353343	498552	90	53619											
DCLK1	9201	broad.mit.edu	37	chr13	36686248	36686248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccagtgaagacactgcccGagaagccgaggtggtcttga	10	6	15	10	2	1	4	0	2	1	2	1	6	1	4	3	3	2	0	3	3	2	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr13:36686248G>A	uc001uvf.2	-	3	714	c.481C>T	c.(481-483)CGG>TGG	p.R161W		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	161					cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		GACACTGCCCGAGAAGCCGAG	0.522													24	180					0	0	0.00333	0	0		A	36686248	A	A	36686248	3	1	87	1	0	0	0	0	1	0	0	0	4294	1057	37	1	1772	1	DCLK1	13	36686248	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08		36686248	78483630	91	53620											
DLEU7	220107	broad.mit.edu	37	chr13	51417425	51417425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaccacgcgggccagcgCgctgcgcatcgccatctggg	5	5	14	17	6	1	0	0	0	1	0	3	0	2	0	4	2	2	2	4	2	0	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr13:51417425C>T	uc001vez.2	-	1	461	c.358G>A	c.(358-360)GCG>ACG	p.A120T	DLEU7_uc001vex.2_Missense_Mutation_p.A120T|uc001vey.2_Intron	NM_198989	NP_945340	Q6UYE1	LEU7_HUMAN	deleted in lymphocytic leukemia, 7	120											0		Acute lymphoblastic leukemia(7;1.03e-07)|Lung NSC(96;0.000818)|Breast(56;0.00122)|Prostate(109;0.0047)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.25e-08)		CGGGCCAGCGCGCTGCGCATC	0.706													4	17					0	0	0.000602	0	0		T	51417425	T	T	51417425	3	4	87	1	0	0	0	0	1	0	0	0	4559	768	27	1	132	1	DLEU7	13	51417425	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	14731177	51417425	63752453	92	53621											
PCDH9	5101	broad.mit.edu	37	chr13	67799641	67799641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagcgtttagaaagggtgtCacaacccccaacaaaggtgt	14	7	11	9	1	1	2	1	0	0	2	1	2	1	2	2	2	3	1	2	2	5	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr13:67799641C>T	uc001vik.2	-	2	3624	c.2932G>A	c.(2932-2934)GAC>AAC	p.D978N	PCDH9_uc001vil.2_Missense_Mutation_p.D978N|PCDH9_uc010thl.1_Missense_Mutation_p.D978N|PCDH9_uc001vin.3_Missense_Mutation_p.D978N	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	978	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GAAAGGGTGTCACAACCCCCA	0.498													119	69					0	0	0.00361	0	0		T	67799641	T	T	67799641	3	4	87	1	0	0	0	0	1	0	0	0	11537	826	29	4	797	4	PCDH9	13	67799641	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	16382216	67799641	47370237	93	53622											
RPL10L	140801	broad.mit.edu	37	chr14	47120719	47120719	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaacttttcaccatgtatTtgttggcacaaatacgggcg	11	12	8	10	2	1	0	1	0	0	0	1	0	1	0	1	2	2	3	1	2	4	6			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr14:47120719T>A	uc001wwg.2	-	1	310	c.221A>T	c.(220-222)AAA>ATA	p.K74I		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	74					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						CACCATGTATTTGTTGGCACA	0.522													16	50					0	0	0.00499	0	0		A	47120719	A	A	47120719	3	1	87	1	0	0	0	0	1	0	0	0	13581	1841	64	5	427	5	RPL10L	14	47120719	Missense_Mutation	SNP	T	TCGA-BR-8678-01A-11D-2394-08		47120719	60228821	94	53623											
ADAM21	8747	broad.mit.edu	37	chr14	70925359	70925359	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccaattgcagttacgcTgattttatgaagaccacctt	11	14	6	10	1	1	3	1	2	0	1	1	3	1	3	3	0	2	3	3	0	4	6			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr14:70925359T>A	uc001xmd.2	+	1	1143	c.1143T>A	c.(1141-1143)GCT>GCA	p.A381A		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	381	Peptidase M12B.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		GCAGTTACGCTGATTTTATGA	0.423													4	76					0	0	0.009096	0	0		A	70925359	A	A	70925359	2	1	87	1	0	0	0	0	0	0	0	1	243	1567	55	5		5	ADAM21	14	70925359	Silent	SNP	T	TCGA-BR-8678-01A-11D-2394-08	23804640	70925359	36424181	95	53624											
SPRED1	161742	broad.mit.edu	37	chr15	38632001	38632001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttcagcaagagacagttGttaccagtgagccttataga	12	13	9	7	0	1	3	1	1	0	2	1	4	1	3	2	0	3	3	2	0	4	6			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr15:38632001G>A	uc001zka.3	+	5	822	c.487G>A	c.(487-489)GTT>ATT	p.V163I		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	163					inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		AGAGACAGTTGTTACCAGTGA	0.423									Legius_syndrome				39	29					0	0	0.005524	0	0		A	38632001	A	A	38632001	3	1	87	1	0	0	0	0	1	0	0	0	15117	1377	48	4	505	4	SPRED1	15	38632001	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08		38632001	63899391	96	53625											
SPTBN5	51332	broad.mit.edu	37	chr15	42154034	42154034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccagcacctggcgaatgtCggagctgaaggggtgccccg	8	5	16	12	3	0	1	0	1	0	0	1	3	0	2	4	4	4	2	4	4	2	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr15:42154034C>T	uc001zos.2	-	45	7864	c.7531G>A	c.(7531-7533)GAC>AAC	p.D2511N		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	2546	Spectrin 22.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		TGGCGAATGTCGGAGCTGAAG	0.637													9	9					0	0	0.004482	0	0		T	42154034	T	T	42154034	3	4	87	1	0	0	0	0	1	0	0	0	15147	884	31	1	3484	1	SPTBN5	15	42154034	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	3522033	42154034	60377358	97	53626											
ERCC4	2072	broad.mit.edu	37	chr16	14042001	14042001	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtataatcctggtccccaaGacttcttgttaaaaatgcca	13	12	6	10	0	1	1	0	0	1	1	3	1	3	1	4	1	1	2	4	1	6	5			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr16:14042001G>C	uc002dce.2	+	11	2557	c.2548G>C	c.(2548-2550)GAC>CAC	p.D850H	ERCC4_uc010uyz.1_Missense_Mutation_p.D400H	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	850	Interaction with EME1 and ERCC1.				double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						TGGTCCCCAAGACTTCTTGTT	0.498			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				28	32					0	0	0.008361	0	0		C	14042001	C	C	14042001	3	2	87	1	0	0	0	0	1	0	0	0	5223	942	33	5	2590	5	ERCC4	16	14042001	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08		14042001	76312752	98	53627											
COG7	91949	broad.mit.edu	37	chr16	23415150	23415150	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggttgtggttgcttgacccTttttcctaagacaagaaaat	11	14	9	7	0	0	3	0	1	0	2	1	3	1	3	2	2	1	3	2	2	4	6			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr16:23415150T>C	uc002dlo.2	-	13	1856	c.1668A>G	c.(1666-1668)AAA>AAG	p.K556K		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	556					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		TGCTTGACCCTTTTTCCTAAG	0.507													3	40					0	0	0.004672	0	0		C	23415150	C	C	23415150	2	2	87	1	0	0	0	0	0	0	0	1	3666	1606	56	3		3	COG7	16	23415150	Silent	SNP	T	TCGA-BR-8678-01A-11D-2394-08	9373149	23415150	66939603	99	53628											
TAOK2	9344	broad.mit.edu	37	chr16	29997928	29997928	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacagcagccctgctcacctGgccaggaggcagtcctggac	9	5	12	15	0	1	0	1	0	0	0	2	2	2	2	4	4	4	3	4	4	1	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr16:29997928G>T	uc002dva.1	+	16	3118	c.2335G>T	c.(2335-2337)GGC>TGC	p.G779C	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Missense_Mutation_p.G786C|TAOK2_uc002dvd.1_Missense_Mutation_p.G606C	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	779					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CTGCTCACCTGGCCAGGAGGC	0.627													47	54					1.23103e-26	1.43472e-26	0.003214	1	0		T	29997928	T	T	29997928	3	4	87	1	0	0	0	0	1	0	0	0	15573	1348	47	5	2393	5	TAOK2	16	29997928	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	6582778	29997928	60356825	100	53629											
GLG1	2734	broad.mit.edu	37	chr16	74530507	74530507	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttcaccaggcctttctcCaagcatgataccacctcacc	9	11	4	17	0	4	1	2	1	2	0	5	1	4	1	6	1	2	1	6	1	2	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr16:74530507C>A	uc002fcy.3	-	5	860	c.810G>T	c.(808-810)TTG>TTT	p.L270F	GLG1_uc002fcx.2_Missense_Mutation_p.L270F|GLG1_uc002fcw.3_Missense_Mutation_p.L259F|GLG1_uc002fcz.3_Intron	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	270	Extracellular (Potential).|Cys-rich GLG1 3.					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						GGCCTTTCTCCAAGCATGATA	0.403													17	180					5.35267e-07	5.78088e-07	0.007413	1	0		A	74530507	A	A	74530507	3	1	87	1	0	0	0	0	1	0	0	0	6451	593	21	5	2897	5	GLG1	16	74530507	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	44532579	74530507	15824246	101	53630											
FAM92B	339145	broad.mit.edu	37	chr16	85141652	85141652	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacccgtgtctgcttgatCtgtgccccgtagagcttcag	5	12	10	14	2	4	2	2	1	2	1	4	2	4	2	3	0	3	3	3	0	1	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr16:85141652C>A	uc010vok.1	-	3	465	c.309G>T	c.(307-309)CAG>CAT	p.Q103H		NM_198491	NP_940893	Q6ZTR7	FA92B_HUMAN	hypothetical protein LOC339145	103										central_nervous_system(1)	1						TCTGCTTGATCTGTGCCCCGT	0.647													58	44					4.96213e-28	5.82511e-28	0.00361	1	0		A	85141652	A	A	85141652	3	1	87	1	0	0	0	0	1	0	0	0	5667	912	32	5	629	5	FAM92B	16	85141652	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	10611145	85141652	5213101	102	53631											
NEURL4	84461	broad.mit.edu	37	chr17	7230973	7230973	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caatcccgcccattcacccaGagccgaagctccccagcaac	11	4	6	20	2	1	1	1	0	0	1	3	2	3	1	6	0	4	2	6	0	3	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr17:7230973G>A	uc002gga.1	-	2	520	c.513C>T	c.(511-513)CTC>CTT	p.L171L	NEURL4_uc002ggb.1_Silent_p.L171L|NEURL4_uc002ggc.1_5'Flank	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	171	NHR 1.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						CATTCACCCAGAGCCGAAGCT	0.642													24	77					0	0	0.002299	0	0		A	7230973	A	A	7230973	2	1	87	1	0	0	0	0	0	0	0	1	10366	929	33	4		4	NEURL4	17	7230973	Silent	SNP	G	TCGA-BR-8678-01A-11D-2394-08		7230973	73964237	103	53632											
TP53	7157	broad.mit.edu	37	chr17	7579406	7579406	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctgggaagggacagaagatGacaggggccaggagggggct	11	4	20	6	0	1	3	0	1	1	2	1	6	1	6	1	7	0	1	1	7	2	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr17:7579406G>C	uc002gim.2	-	4	475	c.281C>G	c.(280-282)TCA>TGA	p.S94*	TP53_uc002gig.1_Nonsense_Mutation_p.S94*|TP53_uc002gih.2_Nonsense_Mutation_p.S94*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Nonsense_Mutation_p.S94*|TP53_uc010cni.1_Nonsense_Mutation_p.S94*|TP53_uc002gij.2_Nonsense_Mutation_p.S94*|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Nonsense_Mutation_p.S55*|TP53_uc010cnk.1_Nonsense_Mutation_p.S109*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	94	Interaction with WWOX.		S -> L (in sporadic cancers; somatic mutation).|S -> T (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.S94*(3)|p.G59fs*23(3)|p.S94T(2)|p.V73fs*9(1)|p.S94fs*29(1)|p.S94fs*54(1)|p.A88fs*52(1)|p.W91fs*13(1)|p.P13fs*18(1)|p.S33fs*23(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GACAGAAGATGACAGGGGCCA	0.627		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			46	24					0	0	0.002522	0	0		C	7579406	C	C	7579406	4	2	87	1	0	0	0	0	0	1	0	0	16407	1294	45	5	1021	5	TP53	17	7579406	Nonsense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	348433	7579406	73615804	104	53633											
SMCHD1	23347	broad.mit.edu	37	chr18	2760681	2760681	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcctaataaagtggggacaTattgtatccagtttggtttt	10	17	9	5	0	0	0	0	0	0	0	2	1	2	1	2	3	0	3	2	3	5	9			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr18:2760681T>C	uc002klm.3	+	35	4567	c.4378T>C	c.(4378-4380)TAT>CAT	p.Y1460H	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	1460					chromosome organization		ATP binding				0						AGTGGGGACATATTGTATCCA	0.299													11	29					0	0	0.001368	0	0		C	2760681	C	C	2760681	3	2	87	1	0	0	0	0	1	0	0	0	14813	1406	49	3	4516	3	SMCHD1	18	2760681	Missense_Mutation	SNP	T	TCGA-BR-8678-01A-11D-2394-08		2760681	75316567	105	53634											
POTEC	388468	broad.mit.edu	37	chr18	14542978	14542978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcccatcttgctcctgagCatcttcataaaggagtcgtc	8	13	8	12	1	3	1	1	1	2	0	6	2	4	2	2	1	3	2	2	1	2	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr18:14542978C>T	uc010dln.2	-	1	622	c.168G>A	c.(166-168)ATG>ATA	p.M56I	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	56										skin(3)	3						TGCTCCTGAGCATCTTCATAA	0.587													64	646					0	0	0.00361	0	0		T	14542978	T	T	14542978	3	4	87	1	0	0	0	0	1	0	0	0	12281	710	25	2	1504	2	POTEC	18	14542978	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	11782297	14542978	63534270	106	53635											
NETO1	81832	broad.mit.edu	37	chr18	70526277	70526277	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcaatagagtacttttcatCaaagtaaagttcaatgcact	15	14	5	7	0	4	1	4	0	0	1	4	1	4	1	0	0	2	4	0	0	7	7			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr18:70526277C>G	uc002lkw.2	-	4	537	c.253G>C	c.(253-255)GAT>CAT	p.D85H	NETO1_uc002lkx.1_Missense_Mutation_p.D84H|NETO1_uc002lky.1_Missense_Mutation_p.D85H|NETO1_uc002lkz.2_Missense_Mutation_p.D84H	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	85	CUB 1.|Extracellular (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		TACTTTTCATCAAAGTAAAGT	0.383													39	47					0	0	0.005524	0	0		G	70526277	G	G	70526277	3	3	87	1	0	0	0	0	1	0	0	0	10358	826	29	5	1385	5	NETO1	18	70526277	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	55983299	70526277	7550971	107	53636											
SCAF1	58506	broad.mit.edu	37	chr19	50156862	50156862	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgactcgggggcggaggaCgggccagcttcccgtgtctc	4	7	18	12	4	1	1	0	1	1	0	4	3	2	3	2	6	1	1	2	6	0	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr19:50156862C>T	uc002poq.2	+	7	3340	c.3216C>T	c.(3214-3216)GAC>GAT	p.D1072D		NM_021228	NP_067051	Q9H7N4	SFR19_HUMAN	SR-related CTD-associated factor 1	1072					mRNA processing|RNA splicing	nucleus	RNA binding				0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00113)|GBM - Glioblastoma multiforme(134;0.0204)		GGGCGGAGGACGGGCCAGCTT	0.711													6	1					0	0	0.001984	0	0		T	50156862	T	T	50156862	2	4	87	1	0	0	0	0	0	0	0	1	13893	535	19	1		1	SCAF1	19	50156862	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08		50156862	8972121	108	53637											
BCL2L12	83596	broad.mit.edu	37	chr19	50172124	50172124	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcccagctactccagaCttctatgctttggtggccca	7	10	9	15	0	1	1	0	0	1	1	2	1	2	1	4	3	3	2	4	3	2	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr19:50172124C>T	uc002ppa.2	+	4	1201	c.519C>T	c.(517-519)GAC>GAT	p.D173D	IRF3_uc002pou.2_5'Flank|IRF3_uc002pov.2_5'Flank|IRF3_uc002pow.2_5'Flank|BCL2L12_uc002ppb.2_Silent_p.D172D	NM_138639	NP_619580	Q9HB09	B2L12_HUMAN	BCL2-like 12 isoform 1	173					apoptosis					central_nervous_system(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.000681)|GBM - Glioblastoma multiforme(134;0.0214)		CTACTCCAGACTTCTATGCTT	0.557													14	81					0	0	0.004007	0	0		T	50172124	T	T	50172124	2	4	87	1	0	0	0	0	0	0	0	1	1371	564	20	4		4	BCL2L12	19	50172124	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	15262	50172124	8956859	109	53638											
U2AF2	11338	broad.mit.edu	37	chr19	56172483	56172483	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaccccaacgccggtgccCgtggtcgggagccagatgac	7	5	15	14	4	0	3	0	2	0	1	1	4	0	4	5	3	3	0	5	3	1	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr19:56172483C>T	uc002qlu.2	+	5	1469	c.414C>T	c.(412-414)CCC>CCT	p.P138P	U2AF2_uc002qlt.2_Silent_p.P138P	NM_007279	NP_009210	P26368	U2AF2_HUMAN	U2 (RNU2) small nuclear RNA auxiliary factor 2	138					mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	nucleoplasm|spliceosomal complex	enzyme binding|nucleotide binding|RNA binding			ovary(1)	1		Colorectal(82;0.00244)|Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		CGCCGGTGCCCGTGGTCGGGA	0.537													31	44					0	0	0.002096	0	0		T	56172483	T	T	56172483	2	4	87	1	0	0	0	0	0	0	0	1	16849	639	23	1		1	U2AF2	19	56172483	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	6000359	56172483	2956500	110	53639											
DUXA	503835	broad.mit.edu	37	chr19	57666682	57666682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcttcttgttctaaggacGccacaggttccctttttctc	5	16	7	13	1	4	0	0	0	4	0	6	1	5	1	2	2	0	3	2	2	1	7			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr19:57666682G>A	uc002qoa.1	-	5	542	c.497C>T	c.(496-498)GCG>GTG	p.A166V		NM_001012729	NP_001012747	A6NLW8	DUXA_HUMAN	double homeobox A	166						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0123)		TTCTAAGGACGCCACAGGTTC	0.428													36	56					0	0	0.00623	0	0		A	57666682	A	A	57666682	3	1	87	1	0	0	0	0	1	0	0	0	4840	1087	38	1	125	1	DUXA	19	57666682	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	1494199	57666682	1462301	111	53640											
C20orf26	26074	broad.mit.edu	37	chr20	20243679	20243679	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagtcagcggcggtacaCggggaaagttccttgcaacc	10	6	13	12	3	1	0	1	0	0	0	2	1	2	1	2	4	5	4	2	4	3	3	rs145071038	by1000genomes	TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr20:20243679C>A	uc002wru.2	+	21	2484	c.2408C>A	c.(2407-2409)ACG>AAG	p.T803K	C20orf26_uc010zse.1_Missense_Mutation_p.T783K|C20orf26_uc002wrw.2_RNA|C20orf26_uc002wrv.2_Missense_Mutation_p.T159K	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	803										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		CGGCGGTACACGGGGAAAGTT	0.478													34	140					3.62531e-18	4.10699e-18	0.004289	1	0		A	20243679	A	A	20243679	3	1	87	1	0	0	0	0	1	0	0	0	2109	536	19	5	2518	5	C20orf26	20	20243679	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08		20243679	42781841	112	53641											
CD93	22918	broad.mit.edu	37	chr20	23064978	23064978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgcattctggggcttcttctCcttcttctcctccctcttcg	1	17	6	17	2	6	0	0	0	6	0	10	0	7	0	3	2	0	2	3	2	0	6			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr20:23064978C>T	uc002wsv.2	-	1	2000	c.1852G>A	c.(1852-1854)GAG>AAG	p.E618K		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	618	Cytoplasmic (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GGCTTCTTCTCCTTCTTCTCC	0.597													87	167					0	0	0.00361	0	0		T	23064978	T	T	23064978	3	4	87	1	0	0	0	0	1	0	0	0	3050	864	30	4	114	4	CD93	20	23064978	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	2821299	23064978	39960542	113	53642											
TP53TG5	27296	broad.mit.edu	37	chr20	44003774	44003774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtggaggatctgcacatcaCcctgggcgccgggaggtgga	7	6	18	10	2	2	0	1	0	1	0	2	4	2	4	2	7	1	1	2	7	0	0			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr20:44003774C>T	uc002xny.2	-	4	754	c.673G>A	c.(673-675)GTG>ATG	p.V225M	SYS1_uc002xnw.1_3'UTR|SYS1-DBNDD2_uc002xnx.2_Intron	NM_014477	NP_055292	Q9Y2B4	T53G5_HUMAN	TP53-target gene 5 protein	225					intracellular signal transduction|negative regulation of cell growth	cytoplasm|nucleus				central_nervous_system(1)	1						CTGCACATCACCCTGGGCGCC	0.597													8	109					0	0	0.004482	0	0		T	44003774	T	T	44003774	3	4	87	1	0	0	0	0	1	0	0	0	16417	507	18	4	207	4	TP53TG5	20	44003774	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08	20938796	44003774	19021746	114	53643											
PARD6B	84612	broad.mit.edu	37	chr20	49366625	49366625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgatgattgcaaatagccGtaacctcatcataacagtga	15	10	7	9	1	2	3	2	3	0	0	2	3	2	3	2	0	4	2	2	0	4	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr20:49366625G>A	uc002xvo.2	+	3	962	c.719G>A	c.(718-720)CGT>CAT	p.R240H		NM_032521	NP_115910	Q9BYG5	PAR6B_HUMAN	PAR-6 beta	240	PDZ.|Interaction with PARD3 and CDC42 (By similarity).				axonogenesis|cell cycle|cell division|establishment or maintenance of cell polarity|protein complex assembly|regulation of cell migration|tight junction assembly	cytosol|tight junction	protein binding			kidney(1)	1						GCAAATAGCCGTAACCTCATC	0.423													48	152					0	0	0.002852	0	0		A	49366625	A	A	49366625	3	1	87	1	0	0	0	0	1	0	0	0	11465	1145	40	1	729	1	PARD6B	20	49366625	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	5362851	49366625	13658895	115	53644											
RAE1	8480	broad.mit.edu	37	chr20	55942112	55942112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgatggttttgcaactccctGaaaggtgttactgtgctgac	8	14	11	8	0	0	3	0	3	0	0	1	3	1	3	1	2	4	4	1	2	3	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr20:55942112G>A	uc002xyg.2	+	7	852	c.511G>A	c.(511-513)GAA>AAA	p.E171K	RAE1_uc010gis.1_Missense_Mutation_p.E124K|RAE1_uc010git.1_Missense_Mutation_p.E171K|RAE1_uc002xyh.2_Missense_Mutation_p.E171K|RAE1_uc002xyi.2_Missense_Mutation_p.E171K	NM_003610	NP_003601	P78406	RAE1L_HUMAN	RAE1 (RNA export 1, S.pombe) homolog	171	WD 3.				carbohydrate metabolic process|glucose transport|mRNA export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|cytoskeleton|nuclear outer membrane|nuclear pore	microtubule binding|RNA binding				0	Lung NSC(12;0.00263)|all_lung(29;0.00828)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;3.7e-14)|Epithelial(14;1.07e-09)|all cancers(14;1.11e-08)			GCAACTCCCTGAAAGGTGTTA	0.378													33	156					0	0	0.00623	0	0		A	55942112	A	A	55942112	3	1	87	1	0	0	0	0	1	0	0	0	13023	1291	45	4	533	4	RAE1	20	55942112	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	6575487	55942112	7083408	116	53645											
NCAM2	4685	broad.mit.edu	37	chr21	22881188	22881188	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagacacgctgtttaatggTcttgggcttggagcagtaat	10	13	12	6	1	1	1	0	0	1	1	1	2	1	2	0	3	1	5	0	3	3	6			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr21:22881188T>A	uc002yld.1	+	16	2343	c.2094T>A	c.(2092-2094)GGT>GGA	p.G698G	NCAM2_uc011acb.1_Silent_p.G556G	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	698	Helical; (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TGTTTAATGGTCTTGGGCTTG	0.323													7	15					0	0	0.00308	0	0		A	22881188	A	A	22881188	2	1	87	1	0	0	0	0	0	0	0	1	10222	1654	58	5		5	NCAM2	21	22881188	Silent	SNP	T	TCGA-BR-8678-01A-11D-2394-08		22881188	25248707	117	53646											
RNF160	26046	broad.mit.edu	37	chr21	30357128	30357128	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtaagtatcacactgaGccattagccaatatcccatt	12	12	7	10	0	1	1	1	1	0	0	2	1	2	1	3	0	2	2	3	0	5	5			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr21:30357128G>C	uc002ymr.2	-	4	612	c.599C>G	c.(598-600)GCT>GGT	p.A200G	RNF160_uc010gll.1_RNA	NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	154							ligase activity|zinc ion binding				0						ATCACACTGAGCCATTAGCCA	0.413													25	46					0	0	0.004656	0	0		C	30357128	C	C	30357128	3	2	87	1	0	0	0	0	1	0	0	0	13480	971	34	5	4947	5	RNF160	21	30357128	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	7475940	30357128	17772767	118	53647											
CCT8L2	150160	broad.mit.edu	37	chr22	17073169	17073169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggtttgtcctgcttccCggaggagccatgctgctggg	3	11	15	12	1	0	0	0	0	0	0	2	2	2	2	4	4	4	4	4	4	0	2			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr22:17073169C>T	uc002zlp.1	-	1	532	c.272G>A	c.(271-273)CGG>CAG	p.R91Q		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	91					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				TCCTGCTTCCCGGAGGAGCCA	0.602													14	37					0	0	0.001855	0	0		T	17073169	T	T	17073169	3	4	87	1	0	0	0	0	1	0	0	0	2964	652	23	1	1405	1	CCT8L2	22	17073169	Missense_Mutation	SNP	C	TCGA-BR-8678-01A-11D-2394-08		17073169	34231397	119	53648											
GSTT2	2953	broad.mit.edu	37	chr22	24323151	24323151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttcagggcagcacaagaGcaaggagttcttgcagatca	12	8	11	10	0	4	2	2	0	2	2	4	3	4	3	0	2	3	5	0	2	2	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr22:24323151G>A	uc002zzb.3	+	2	200	c.125G>A	c.(124-126)AGC>AAC	p.S42N	DDT_uc002zza.3_5'Flank|GSTT2_uc002zzc.3_Missense_Mutation_p.S42N	NM_000854	NP_000845	P0CG30	GSTT2_HUMAN	glutathione S-transferase theta 2	42	GST N-terminal.					cytoplasm	glutathione transferase activity				0						CAGCACAAGAGCAAGGAGTTC	0.552													13	103					0	0	0.002299	0	0		A	24323151	A	A	24323151	3	1	87	1	0	0	0	0	1	0	0	0	6862	971	34	2	886	2	GSTT2	22	24323151	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	7249982	24323151	26981415	120	53649											
MEI1	150365	broad.mit.edu	37	chr22	42191783	42191783	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccacagcatggcccagacCctgcaggcctccttggaggg	8	5	13	15	0	0	1	0	0	0	1	1	3	1	2	5	4	2	2	5	4	0	1			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chr22:42191783C>A	uc003baz.1	+	30	3736	c.3711C>A	c.(3709-3711)ACC>ACA	p.T1237T	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc011apd.1_RNA|MEI1_uc003bbb.1_Silent_p.T623T|MEI1_uc003bbc.1_Silent_p.T605T|MEI1_uc010gym.1_Silent_p.T570T|MEI1_uc003bbd.1_Silent_p.T450T|MEI1_uc010gyn.1_RNA|MEI1_uc003bbe.1_RNA|MEI1_uc003bbf.2_Silent_p.T251T|MEI1_uc003bbg.2_Silent_p.T207T	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	1237							binding			central_nervous_system(1)|skin(1)	2						TGGCCCAGACCCTGCAGGCCT	0.607													19	23					1.10513e-12	1.2347e-12	0.002299	1	0		A	42191783	A	A	42191783	2	1	87	1	0	0	0	0	0	0	0	1	9483	610	22	5		5	MEI1	22	42191783	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	17868632	42191783	9112783	121	53650											
ZNF645	158506	broad.mit.edu	37	chrX	22291239	22291239	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggggggacattaagataaAcatcataggtgaaaaggatg	16	9	13	3	0	1	2	1	1	0	1	1	4	1	4	0	5	1	0	0	5	6	4			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chrX:22291239A>C	uc004dai.1	+	1	180	c.131A>C	c.(130-132)AAC>ACC	p.N44T		NM_152577	NP_689790	Q8N7E2	ZN645_HUMAN	zinc finger protein 645	44						intracellular	zinc ion binding			lung(1)|pancreas(1)	2						ATTAAGATAAACATCATAGGT	0.348													8	86					0	0	0.004482	0	0		C	22291239	C	C	22291239	3	2	87	1	0	0	0	0	1	0	0	0	18086	43	2	5	133	5	ZNF645	23	22291239	Missense_Mutation	SNP	A	TCGA-BR-8678-01A-11D-2394-08		22291239	132979321	122	53651											
USP9X	8239	broad.mit.edu	37	chrX	41069826	41069826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tagaattttttaattcattgGtggatagtttagatgaagct	12	18	9	2	0	1	3	1	1	0	2	1	4	1	4	0	2	1	2	0	2	6	9			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chrX:41069826G>A	uc004dfb.2	+	33	5713	c.5080G>A	c.(5080-5082)GTG>ATG	p.V1694M	USP9X_uc004dfc.2_Missense_Mutation_p.V1694M	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1694					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						TAATTCATTGGTGGATAGTTT	0.373													81	5					0	0	0.00361	0	0		A	41069826	A	A	41069826	3	1	87	1	0	0	0	0	1	0	0	0	17116	1261	44	4	5206	4	USP9X	23	41069826	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	18778587	41069826	114200734	123	53652											
TBX22	50945	broad.mit.edu	37	chrX	79286562	79286562	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtttcttttggagaaggCaaatgtaatcatgttcattg	12	15	9	5	0	3	1	2	0	1	1	3	2	3	1	0	2	0	4	0	2	4	6			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chrX:79286562C>A	uc010nmg.1	+	9	1649	c.1515C>A	c.(1513-1515)GGC>GGA	p.G505G	TBX22_uc004edi.1_Silent_p.G385G|TBX22_uc004edj.1_Silent_p.G505G	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	505					multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						TTGGAGAAGGCAAATGTAATC	0.313													11	21					5.50884e-06	5.83289e-06	0.001368	1	0		A	79286562	A	A	79286562	2	1	87	1	0	0	0	0	0	0	0	1	15683	697	25	5		5	TBX22	23	79286562	Silent	SNP	C	TCGA-BR-8678-01A-11D-2394-08	38216736	79286562	75983998	124	53653											
PABPC5	140886	broad.mit.edu	37	chrX	90691445	90691445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgaggcggagatttgaacGgctgaggttaaaagaaaaaa	16	8	14	3	2	0	5	0	3	0	2	0	6	0	5	0	4	1	3	0	4	6	3			TCGA-BR-8678-01A-11D-2394-08	TCGA-BR-8678-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	69ab9742-cef4-48d6-af97-cbab33a0bb8f	69ead55b-d90a-4eff-86b6-b2bcfdb8f9a3	g.chrX:90691445G>A	uc004efg.2	+	2	1309	c.869G>A	c.(868-870)CGG>CAG	p.R290Q	PABPC5_uc004eff.1_Missense_Mutation_p.R126Q	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	290						cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						AGATTTGAACGGCTGAGGTTA	0.443													6	28					0	0	0.001168	0	0		A	90691445	A	A	90691445	3	1	87	1	0	0	0	0	1	0	0	0	11386	1116	39	1	871	1	PABPC5	23	90691445	Missense_Mutation	SNP	G	TCGA-BR-8678-01A-11D-2394-08	11404883	90691445	64579115	125	53654											
ERRFI1	54206	broad.mit.edu	37	chr1	8074343	8074343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaacttgatcctcttcatGtggtcccaagttttcacttg	8	16	6	11	0	3	1	2	1	1	0	5	1	5	1	2	1	2	1	2	1	3	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:8074343G>A	uc001aoz.2	-	4	565	c.316C>T	c.(316-318)CAT>TAT	p.H106Y	ERRFI1_uc001apa.1_Missense_Mutation_p.H31Y	NM_018948	NP_061821	Q9UJM3	ERRFI_HUMAN	mitogen-inducible gene 6 protein	106					lung alveolus development|lung epithelium development|lung vasculature development|negative regulation of epidermal growth factor receptor activity|negative regulation of protein autophosphorylation|regulation of keratinocyte differentiation|response to stress|skin morphogenesis	cytoplasm|extrinsic to internal side of plasma membrane|nucleus	protein kinase binding|Rho GTPase activator activity			ovary(1)	1	Ovarian(185;0.06)|all_lung(157;0.151)	all_epithelial(116;1.76e-16)|all_lung(118;3.66e-05)|Lung NSC(185;0.000163)|Renal(390;0.000469)|Colorectal(325;0.0033)|Breast(348;0.0044)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.33e-70)|GBM - Glioblastoma multiforme(8;8.05e-37)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;6.9e-06)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.000985)|READ - Rectum adenocarcinoma(331;0.0642)		TCCTCTTCATGTGGTCCCAAG	0.473													101	151					0	0	0.00361	0	0		A	8074343	A	A	8074343	3	1	88	1	0	0	0	0	1	0	0	0	5252	1377	48	4	1076	4	ERRFI1	1	8074343	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08		8074343	241176278	1	53655											
EXOSC10	5394	broad.mit.edu	37	chr1	11140947	11140947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaaggtaggactcatccGtgaagataggtttgatgaat	12	12	12	5	1	2	4	2	3	0	1	3	5	3	5	1	3	0	3	1	3	5	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:11140947G>A	uc001asa.2	-	12	1510	c.1460C>T	c.(1459-1461)ACG>ATG	p.T487M	EXOSC10_uc001asb.2_Missense_Mutation_p.T487M|EXOSC10_uc009vmy.1_Missense_Mutation_p.T487M	NM_001001998	NP_001001998	Q01780	EXOSX_HUMAN	exosome component 10 isoform 1	487					CUT catabolic process|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear polyadenylation-dependent rRNA catabolic process|nuclear retention of unspliced pre-mRNA at the site of transcription|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasm|nuclear exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5' exonuclease activity|exoribonuclease activity|identical protein binding|nucleotide binding|protein serine/threonine kinase activity|RNA binding			upper_aerodigestive_tract(1)	1	Ovarian(185;0.249)	Lung NSC(185;1.74e-05)|all_lung(284;2.05e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.18e-07)|COAD - Colon adenocarcinoma(227;8.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000315)|Kidney(185;0.000832)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|READ - Rectum adenocarcinoma(331;0.0526)|STAD - Stomach adenocarcinoma(313;0.202)		GGACTCATCCGTGAAGATAGG	0.418													38	67					0	0	0.005524	0	0		A	11140947	A	A	11140947	3	1	88	1	0	0	0	0	1	0	0	0	5322	1145	40	1	1253	1	EXOSC10	1	11140947	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	3066604	11140947	238109674	2	53656											
AADACL4	343066	broad.mit.edu	37	chr1	12726597	12726597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagcttgctctataagaagCgcttggaggaccagggggtc	10	8	14	9	1	1	1	0	0	1	1	2	3	1	3	1	4	3	3	1	4	3	4	rs149313289		TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:12726597C>T	uc001auf.2	+	4	1075	c.1075C>T	c.(1075-1077)CGC>TGC	p.R359C		NM_001013630	NP_001013652	Q5VUY2	ADCL4_HUMAN	arylacetamide deacetylase-like 4	359	Lumenal (Potential).					integral to membrane	carboxylesterase activity				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000937)|all_lung(284;0.00122)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.81e-07)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0384)		CTATAAGAAGCGCTTGGAGGA	0.498													37	155					0	0	0.003271	0	0		T	12726597	T	T	12726597	3	4	88	1	0	0	0	0	1	0	0	0	13	768	27	1	1089	1	AADACL4	1	12726597	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	1585650	12726597	236524024	3	53657											
CELA2A	63036	broad.mit.edu	37	chr1	15794033	15794033	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacatcgactggatcaattcGgtaagaaccggaccagccct	12	8	9	12	3	1	1	1	0	0	1	3	4	1	3	3	3	3	1	3	3	4	3	rs141124454	byFrequency	TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:15794033G>A	uc001awk.2	+	7	818	c.792G>A	c.(790-792)TCG>TCA	p.S264S		NM_033440	NP_254275	P08217	CEL2A_HUMAN	elastase 2A preproprotein	264	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						GGATCAATTCGGTAAGAACCG	0.602													4	80					0	0	0.000602	0	0		A	15794033	A	A	15794033	2	1	88	1	0	0	0	0	0	0	0	1	3214	1130	39	1		1	CELA2A	1	15794033	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	3067436	15794033	233456588	4	53658											
OTUD3	23252	broad.mit.edu	37	chr1	20234063	20234063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accatggccttctctctcagGtcacaaacaaacagaggcga	13	7	8	13	1	3	1	2	0	2	1	5	2	3	1	2	3	2	0	2	3	2	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:20234063G>A	uc001bcs.3	+	8	1140	c.1021G>A	c.(1021-1023)GTC>ATC	p.V341I		NM_015207	NP_056022	Q5T2D3	OTUD3_HUMAN	OTU domain containing 3	341											0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000276)|Lung NSC(340;0.000338)|Breast(348;0.000812)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(152;1.12e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000142)|Kidney(64;0.000177)|GBM - Glioblastoma multiforme(114;0.000408)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		TCTCTCTCAGGTCACAAACAA	0.567													22	33					0	0	0.00278	0	0		A	20234063	A	A	20234063	3	1	88	1	0	0	0	0	1	0	0	0	11332	1275	44	4	1051	4	OTUD3	1	20234063	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	4440030	20234063	229016558	5	53659											
BAI2	576	broad.mit.edu	37	chr1	32196483	32196483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctggctcgggcacttggCgggcgctgggtgtcggcggt	1	8	19	13	5	0	0	0	0	0	0	2	0	0	0	2	7	0	3	2	7	0	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:32196483C>T	uc001btn.2	-	29	4652	c.4298G>A	c.(4297-4299)CGC>CAC	p.R1433H	BAI2_uc001btm.2_Missense_Mutation_p.R427H|BAI2_uc001btp.1_Missense_Mutation_p.R427H|BAI2_uc010ogn.1_Missense_Mutation_p.R403H|BAI2_uc010ogo.1_Missense_Mutation_p.R1042H|BAI2_uc010ogp.1_Missense_Mutation_p.R1366H|BAI2_uc010ogq.1_Missense_Mutation_p.R1400H|BAI2_uc001bto.2_Missense_Mutation_p.R1433H	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	1433	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		GGGCACTTGGCGGGCGCTGGG	0.672													20	55					0	0	0.001882	0	0		T	32196483	T	T	32196483	3	4	88	1	0	0	0	0	1	0	0	0	1300	768	27	1	479	1	BAI2	1	32196483	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	11962420	32196483	217054138	6	53660											
GBP6	163351	broad.mit.edu	37	chr1	89845996	89845996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccagggagtgcatcaggcGtttctttccaaaacggaagt	10	10	11	10	2	2	0	1	0	1	0	4	2	4	2	2	3	2	2	2	3	3	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:89845996G>A	uc001dnf.2	+	6	951	c.677G>A	c.(676-678)CGT>CAT	p.R226H	GBP6_uc010ost.1_Missense_Mutation_p.R96H	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	226							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		TGCATCAGGCGTTTCTTTCCA	0.413													18	43					0	0	0.007413	0	0		A	89845996	A	A	89845996	3	1	88	1	0	0	0	0	1	0	0	0	6293	1145	40	1	695	1	GBP6	1	89845996	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	57649513	89845996	159404625	7	53661											
TCHHL1	126637	broad.mit.edu	37	chr1	152059398	152059398	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttgccaagtttccttcctGttctccaaactggtctctta	6	16	7	12	0	2	0	0	0	2	0	6	0	4	0	4	2	2	3	4	2	3	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:152059398G>A	uc001ezo.1	-	3	825	c.760C>T	c.(760-762)CAG>TAG	p.Q254*		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	254							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			TTTCCTTCCTGTTCTCCAAAC	0.443													113	96					0	0	0.00361	0	0		A	152059398	A	A	152059398	4	1	88	1	0	0	0	0	0	1	0	0	15726	1386	48	4	1958	4	TCHHL1	1	152059398	Nonsense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	62213402	152059398	97191223	8	53662											
OR6K3	391114	broad.mit.edu	37	chr1	158687131	158687131	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataagtgtcgctgaaacgcaAgtacatgagtgatacactgc	14	9	10	8	2	0	3	0	3	0	0	1	3	0	3	0	0	4	3	0	0	5	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:158687131A>T	uc010pip.1	-	1	823	c.823T>A	c.(823-825)TTG>ATG	p.L275M		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	275	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					CTGAAACGCAAGTACATGAGT	0.463													31	101					0	0	0.008361	0	0		T	158687131	T	T	158687131	3	4	88	1	0	0	0	0	1	0	0	0	11222	69	3	5	174	5	OR6K3	1	158687131	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	6627733	158687131	90563490	9	53663											
OR6N2	81442	broad.mit.edu	37	chr1	158746588	158746588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgaccattggtgttagtaCggagtaaactatagcaagtg	13	12	11	5	1	0	1	0	1	0	0	0	2	0	2	1	2	3	4	1	2	7	7			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:158746588C>T	uc010pir.1	-	1	838	c.838G>A	c.(838-840)GTA>ATA	p.V280I		NM_001005278	NP_001005278	Q8NGY6	OR6N2_HUMAN	olfactory receptor, family 6, subfamily N,	280	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_hematologic(112;0.0378)					GGTGTTAGTACGGAGTAAACT	0.423													10	105					0	0	0.006214	0	0		T	158746588	T	T	158746588	3	4	88	1	0	0	0	0	1	0	0	0	11226	536	19	1	118	1	OR6N2	1	158746588	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	59457	158746588	90504033	10	53664			1	21		3	3	676	N	G_C_A	7.417454e-06
OR6N2	81442	broad.mit.edu	37	chr1	158746952	158746952	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaggcaaggatgacctcAgaaatgggacacaggaagcc	14	4	15	8	0	1	2	1	1	0	1	1	6	1	6	2	5	1	1	2	5	3	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:158746952A>G	uc010pir.1	-	1	474	c.474T>C	c.(472-474)TCT>TCC	p.S158S		NM_001005278	NP_001005278	Q8NGY6	OR6N2_HUMAN	olfactory receptor, family 6, subfamily N,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_hematologic(112;0.0378)					GGATGACCTCAGAAATGGGAC	0.498													13	99					0	0	0.001368	0	0		G	158746952	G	G	158746952	2	3	88	1	0	0	0	0	0	0	0	1	11226	175	7	3		3	OR6N2	1	158746952	Silent	SNP	A	TCGA-BR-8679-01A-11D-2394-08	364	158746952	90503669	11	53665			1	21		3	3	676	N	G_C_A	7.417454e-06
OR6N2	81442	broad.mit.edu	37	chr1	158747263	158747263	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggtacataggtgtgtgcaGagctgcatccagtcggatga	9	10	15	7	1	0	2	0	1	0	1	2	3	1	3	1	3	4	4	1	3	2	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:158747263G>A	uc010pir.1	-	1	163	c.163C>T	c.(163-165)CTG>TTG	p.L55L		NM_001005278	NP_001005278	Q8NGY6	OR6N2_HUMAN	olfactory receptor, family 6, subfamily N,	55	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_hematologic(112;0.0378)					GGTGTGTGCAGAGCTGCATCC	0.458													27	154					0	0	0.007291	0	0		A	158747263	A	A	158747263	2	1	88	1	0	0	0	0	0	0	0	1	11226	933	33	4		4	OR6N2	1	158747263	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	311	158747263	90503358	12	53666			1	21		3	3	676	N	G_C_A	7.417454e-06
B3GALT2	8707	broad.mit.edu	37	chr1	193149667	193149667	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaagacagatccctacataTacatcttccaagtgcaaacg	15	8	6	12	1	1	2	0	0	1	2	3	2	3	2	2	0	4	2	2	0	6	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:193149667T>C	uc001gtc.3	-	2	1741	c.1026A>G	c.(1024-1026)GTA>GTG	p.V342V	CDC73_uc001gtb.2_Intron	NM_003783	NP_003774	O43825	B3GT2_HUMAN	UDP-Gal:betaGlcNAc beta	342	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1						TCCCTACATATACATCTTCCA	0.413													11	82					0	0	0.008291	0	0		C	193149667	C	C	193149667	2	2	88	1	0	0	0	0	0	0	0	1	1249	1393	49	3		3	B3GALT2	1	193149667	Silent	SNP	T	TCGA-BR-8679-01A-11D-2394-08	34402404	193149667	56100954	13	53667											
FMN2	56776	broad.mit.edu	37	chr1	240555839	240555839	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccaagaggcagaggaaaaTtcactgacagagactcataa	18	5	10	8	0	2	4	2	1	0	3	2	7	2	5	1	2	0	1	1	2	4	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr1:240555839T>G	uc010pyd.1	+	15	5112	c.4887T>G	c.(4885-4887)AAT>AAG	p.N1629K	FMN2_uc010pye.1_Missense_Mutation_p.N1633K|FMN2_uc010pyf.1_Missense_Mutation_p.N244K|FMN2_uc010pyg.1_Missense_Mutation_p.N225K	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1629	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CAGAGGAAAATTCACTGACAG	0.338													7	51					0	0	0.006214	0	0		G	240555839	G	G	240555839	3	3	88	1	0	0	0	0	1	0	0	0	5964	1490	52	5	4945	5	FMN2	1	240555839	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	47406172	240555839	8694782	14	53668											
NT5C1B	93034	broad.mit.edu	37	chr2	18766140	18766140	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccggggcagctggggcgaCgcgggtggctggagcgaggg	5	3	24	9	5	0	0	0	0	0	0	0	4	0	1	1	8	2	3	1	8	0	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:18766140C>T	uc002rcz.2	-	5	647	c.543G>A	c.(541-543)GCG>GCA	p.A181A	NT5C1B_uc002rcy.2_Silent_p.A181A|NT5C1B_uc010exr.2_Silent_p.A123A|NT5C1B_uc010yju.1_Silent_p.A121A|NT5C1B_uc002rda.2_Silent_p.A121A|NT5C1B_uc010yjv.1_Silent_p.A198A|NT5C1B_uc010yjw.1_Silent_p.A164A|NT5C1B_uc010exs.2_Silent_p.A183A|NT5C1B_uc002rdb.1_5'UTR	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	181	Pro-rich.				purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				GCTGGGGCGACGCGGGTGGCT	0.716													5	24					0	0	0.000602	0	0		T	18766140	T	T	18766140	2	4	88	1	0	0	0	0	0	0	0	1	10705	523	19	1		1	NT5C1B	2	18766140	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08		18766140	224433233	15	53669											
SLC5A6	8884	broad.mit.edu	37	chr2	27427688	27427688	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccttctccgtgcgggaactGaggtaccgctgcacctgagc	6	8	13	14	3	1	2	0	2	1	0	2	3	1	3	4	2	5	3	4	2	2	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:27427688G>A	uc002rjd.2	-	8	1237	c.846C>T	c.(844-846)CTC>CTT	p.L282L	SLC5A6_uc010eyv.1_Silent_p.L282L	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	282					biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	TGCGGGAACTGAGGTACCGCT	0.597													16	79					0	0	0.003163	0	0		A	27427688	A	A	27427688	2	1	88	1	0	0	0	0	0	0	0	1	14694	1277	45	4		4	SLC5A6	2	27427688	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	8661548	27427688	215771685	16	53670											
BIRC6	57448	broad.mit.edu	37	chr2	32670603	32670603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccaggttctgtctattggTattttgtcttactgaattat	7	21	7	6	0	3	1	0	1	3	0	4	1	4	1	1	2	1	2	1	2	5	9			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:32670603T>C	uc010ezu.2	+	21	4485	c.4351T>C	c.(4351-4353)TAT>CAT	p.Y1451H		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1451					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					TGTCTATTGGTATTTTGTCTT	0.348													28	26					0	0	0.004656	0	0		C	32670603	C	C	32670603	3	2	88	1	0	0	0	0	1	0	0	0	1439	1638	57	3	4433	3	BIRC6	2	32670603	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	5242915	32670603	210528770	17	53671											
FAM98A	25940	broad.mit.edu	37	chr2	33810313	33810313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatggtcatagccaccacGtccacctctcccgcctcctt	7	9	5	20	2	2	0	1	0	1	0	5	0	4	0	8	1	1	0	8	1	1	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:33810313G>A	uc002rpa.1	-	8	1161	c.1087C>T	c.(1087-1089)CGT>TGT	p.R363C	FAM98A_uc010yne.1_Missense_Mutation_p.R168C|FAM98A_uc010ynd.1_Missense_Mutation_p.R194C|FAM98A_uc002roz.1_Missense_Mutation_p.R201C	NM_015475	NP_056290	Q8NCA5	FA98A_HUMAN	hypothetical protein LOC25940	364	Gly-rich.									ovary(1)	1	all_hematologic(175;0.115)					TAGCCACCACGTCCACCTCTC	0.587													66	107					0	0	0.00361	0	0		A	33810313	A	A	33810313	3	1	88	1	0	0	0	0	1	0	0	0	5670	1145	40	1	473	1	FAM98A	2	33810313	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	1139710	33810313	209389060	18	53672											
SLC4A5	57835	broad.mit.edu	37	chr2	74460534	74460534	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagtaccggccttaccttcaGtttgttctccttccggttga	5	16	8	12	2	2	1	1	1	1	0	4	1	3	1	5	2	2	4	5	2	3	8			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:74460534G>T	uc002sko.1	-	18	2592	c.2590C>A	c.(2590-2592)CTG>ATG	p.L864M	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Missense_Mutation_p.L864M|SLC4A5_uc010ffc.1_Missense_Mutation_p.L864M|SLC4A5_uc002skp.1_Missense_Mutation_p.L762M|SLC4A5_uc002sks.1_Missense_Mutation_p.L826M	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	864	Extracellular (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						CTTACCTTCAGTTTGTTCTCC	0.512													13	82					2.31682e-05	2.3803e-05	0.003163	1	0		T	74460534	T	T	74460534	3	4	88	1	0	0	0	0	1	0	0	0	14682	1020	36	5	859	5	SLC4A5	2	74460534	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	40650221	74460534	168738839	19	53673											
SMYD1	150572	broad.mit.edu	37	chr2	88405935	88405935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggatgctgagcattgtttCggaggtcctttcctacctcc	5	13	11	12	2	0	1	0	1	0	0	4	3	3	3	4	3	3	3	4	3	1	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:88405935C>T	uc002ssr.2	+	8	1075	c.1073C>T	c.(1072-1074)TCG>TTG	p.S358L	SMYD1_uc002ssq.1_Intron|SMYD1_uc002sss.2_Missense_Mutation_p.S54L	NM_198274	NP_938015	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	358					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						AGCATTGTTTCGGAGGTCCTT	0.522													13	76					0	0	0.001368	0	0		T	88405935	T	T	88405935	3	4	88	1	0	0	0	0	1	0	0	0	14846	893	31	1	1103	1	SMYD1	2	88405935	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	13945401	88405935	154793438	20	53674											
THSD7B	80731	broad.mit.edu	37	chr2	137928482	137928482	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctgggacatcgtattcTgaaggccgtctgccagaatg	8	10	13	10	2	2	2	0	1	2	1	3	3	2	3	3	3	1	1	3	3	3	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:137928482T>C	uc002tva.1	+	6	1604	c.1604T>C	c.(1603-1605)CTG>CCG	p.L535P	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.L425P	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CATCGTATTCTGAAGGCCGTC	0.493													23	39					0	0	0.00278	0	0		C	137928482	C	C	137928482	3	2	88	1	0	0	0	0	1	0	0	0	15905	1580	55	3	1626	3	THSD7B	2	137928482	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	49522547	137928482	105270891	21	53675											
GALNT13	114805	broad.mit.edu	37	chr2	155295200	155295200	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taatcatgttaaaatgccacCatatgagaggaaatcagtta	17	11	7	6	0	2	1	2	1	0	1	2	3	2	2	2	1	1	2	2	1	6	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:155295200C>A	uc002tyr.3	+	12	2059	c.1492C>A	c.(1492-1494)CAT>AAT	p.H498N	GALNT13_uc002tyt.3_Missense_Mutation_p.H498N|GALNT13_uc010fod.2_Missense_Mutation_p.P230Q|uc002tyu.1_Intron	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	498	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						AAAATGCCACCATATGAGAGG	0.338													4	55					1.23904e-05	1.27883e-05	0.000602	1	0		A	155295200	A	A	155295200	3	1	88	1	0	0	0	0	1	0	0	0	6226	594	21	5	1530	5	GALNT13	2	155295200	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	17366718	155295200	87904173	22	53676											
XIRP2	129446	broad.mit.edu	37	chr2	167760210	167760210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggggaagagatgtggagttCgaagccggaagagaaggatt	14	6	18	3	2	0	2	0	0	0	2	1	9	0	6	1	5	1	1	1	5	4	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:167760210C>T	uc002udx.2	+	1	236	c.218C>T	c.(217-219)TCG>TTG	p.S73L	XIRP2_uc010fpn.2_Missense_Mutation_p.S73L|XIRP2_uc010fpo.2_Missense_Mutation_p.S73L|XIRP2_uc010fpp.2_Missense_Mutation_p.S73L	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	Error:Variant_position_missing_in_A4UGR9_after_alignment					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ATGTGGAGTTCGAAGCCGGAA	0.522													20	78					0	0	0.008871	0	0		T	167760210	T	T	167760210	3	4	88	1	0	0	0	0	1	0	0	0	17456	893	31	1	220	1	XIRP2	2	167760210	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	12465010	167760210	75439163	23	53677											
OSBPL6	114880	broad.mit.edu	37	chr2	179247234	179247234	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagacaatatttctcggcaaAgtatgcatcatttgagcttc	12	13	7	9	1	2	2	1	1	1	1	4	2	2	2	0	1	2	4	0	1	4	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:179247234A>C	uc002ulx.2	+	16	1999	c.1621A>C	c.(1621-1623)ATC>CTC	p.I541L	OSBPL6_uc002ulw.2_Missense_Mutation_p.S474R|OSBPL6_uc002uly.2_Missense_Mutation_p.I566L|OSBPL6_uc010zfe.1_Missense_Mutation_p.I510L|OSBPL6_uc002ulz.2_Missense_Mutation_p.I505L|OSBPL6_uc002uma.2_Missense_Mutation_p.I545L	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	541					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			TTCTCGGCAAAGTATGCATCA	0.448													3	24					0	0	0.004672	0	0		C	179247234	C	C	179247234	3	2	88	1	0	0	0	0	1	0	0	0	11300	86	3	5	1797	5	OSBPL6	2	179247234	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	11487024	179247234	63952139	24	53678											
TTN	7273	broad.mit.edu	37	chr2	179585348	179585348	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatcacatcagaacctttaAgagctcctactggagaaggc	14	8	9	10	0	2	3	2	0	0	3	3	5	3	3	2	2	3	1	2	2	5	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:179585348A>G	uc010zfg.1	-	77	19633	c.19409T>C	c.(19408-19410)CTT>CCT	p.L6470P	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.L3131P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7397							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGAACCTTTAAGAGCTCCTAC	0.393													7	14					0	0	0.001984	0	0		G	179585348	G	G	179585348	3	3	88	1	0	0	0	0	1	0	0	0	16761	72	3	3	81520	3	TTN	2	179585348	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	338114	179585348	63614025	25	53679											
ERBB4	2066	broad.mit.edu	37	chr2	212522548	212522548	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcatgactagtgggaccgTtacacctgcaggcaattaca	12	9	10	10	1	1	1	1	1	0	0	1	2	1	2	2	2	3	3	2	2	4	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:212522548T>G	uc002veg.1	-	16	1975	c.1877A>C	c.(1876-1878)AAC>ACC	p.N626T	ERBB4_uc002veh.1_Missense_Mutation_p.N626T|ERBB4_uc010zji.1_Intron|ERBB4_uc010zjj.1_Intron|ERBB4_uc010fut.1_Missense_Mutation_p.N626T	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	626	Extracellular (Potential).|Cys-rich.				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		AGTGGGACCGTTACACCTGCA	0.473										TSP Lung(8;0.080)			17	85					0	0	0.007413	0	0		G	212522548	G	G	212522548	3	3	88	1	0	0	0	0	1	0	0	0	5217	1725	60	5	2101	5	ERBB4	2	212522548	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	32937200	212522548	30676825	26	53680											
PID1	55022	broad.mit.edu	37	chr2	229890648	229890648	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtgcactgtggcctccccTttgtggtcgagatgatggag	6	12	14	9	1	0	2	0	1	0	1	2	4	1	3	3	3	1	1	3	3	0	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr2:229890648T>A	uc002vpr.3	-	3	491	c.453A>T	c.(451-453)AAA>AAT	p.K151N	PID1_uc002vps.3_Missense_Mutation_p.K149N|PID1_uc002vpt.3_Missense_Mutation_p.K118N|PID1_uc002vpu.3_Missense_Mutation_p.K69N	NM_001100818	NP_001094288	Q7Z2X4	PCLI1_HUMAN	phosphotyrosine interaction domain containing 1	151	PID.					cytoplasm				breast(3)|skin(1)	4		Renal(207;0.0112)|all_lung(227;0.0191)|Lung NSC(271;0.0851)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.171)		Epithelial(121;3.08e-11)|all cancers(144;2.28e-08)|LUSC - Lung squamous cell carcinoma(224;0.0145)|Lung(261;0.0189)		TGGCCTCCCCTTTGTGGTCGA	0.587													20	92					0	0	0.008871	0	0		A	229890648	A	A	229890648	3	1	88	1	0	0	0	0	1	0	0	0	11901	1606	56	5	303	5	PID1	2	229890648	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	17368100	229890648	13308725	27	53681											
TMEM40	55287	broad.mit.edu	37	chr3	12778267	12778267	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcacctcccctcacctgcGtaatagtgataacacaccag	11	7	8	15	1	1	1	1	1	0	0	2	1	2	1	5	1	2	2	5	1	3	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr3:12778267G>A	uc003bxg.1	-	9	667	c.540C>T	c.(538-540)TAC>TAT	p.Y180Y	TMEM40_uc003bxh.1_Silent_p.Y150Y|TMEM40_uc003bxi.1_Silent_p.Y104Y|TMEM40_uc011auv.1_Silent_p.Y196Y	NM_018306	NP_060776	Q8WWA1	TMM40_HUMAN	transmembrane protein 40	180	Helical; (Potential).					integral to membrane					0						CCTCACCTGCGTAATAGTGAT	0.592													30	94					0	0	0.008361	0	0		A	12778267	A	A	12778267	2	1	88	1	0	0	0	0	0	0	0	1	16188	1140	40	1		1	TMEM40	3	12778267	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08		12778267	185244163	28	53682											
C3orf20	84077	broad.mit.edu	37	chr3	14770029	14770029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatccagaactcatcccgagCggctccccaagctaagttta	11	8	8	14	2	1	1	1	0	0	1	4	3	4	1	4	1	3	3	4	1	4	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr3:14770029C>T	uc003byy.2	+	12	2178	c.1774C>T	c.(1774-1776)CGG>TGG	p.R592W	C3orf20_uc003byz.2_Missense_Mutation_p.R470W|C3orf20_uc003bza.2_Missense_Mutation_p.R470W|C3orf20_uc003bzb.1_Missense_Mutation_p.R93W	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	592						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						TCATCCCGAGCGGCTCCCCAA	0.453													21	45					0	0	0.010504	0	0		T	14770029	T	T	14770029	3	4	88	1	0	0	0	0	1	0	0	0	2216	759	27	1	1812	1	C3orf20	3	14770029	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	1991762	14770029	183252401	29	53683											
ANO10	55129	broad.mit.edu	37	chr3	43408442	43408442	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccattggttcctccttcaGgttctcggtcacgagcttca	5	15	8	13	2	4	0	3	0	1	0	8	1	7	0	3	3	1	3	3	3	0	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr3:43408442G>C	uc003cmv.2	-	13	2110	c.1939C>G	c.(1939-1941)CTG>GTG	p.L647V	ANO10_uc011azs.1_3'UTR|ANO10_uc003cmw.2_Missense_Mutation_p.L581V|ANO10_uc010hil.2_Missense_Mutation_p.L457V|ANO10_uc011azt.1_Missense_Mutation_p.L536V	NM_018075	NP_060545	Q9NW15	ANO10_HUMAN	transmembrane protein 16K	647	Cytoplasmic (Potential).				cell death	chloride channel complex	chloride channel activity			ovary(2)	2						TCCTCCTTCAGGTTCTCGGTC	0.572													4	9					0	0	0.009096	0	0		C	43408442	C	C	43408442	3	2	88	1	0	0	0	0	1	0	0	0	696	991	35	5	47	5	ANO10	3	43408442	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	28638413	43408442	154613988	30	53684											
ROBO2	6092	broad.mit.edu	37	chr3	77657047	77657047	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctctacctccccccccaGtccagccccttcctggcacg	4	8	5	24	1	1	0	0	0	1	0	5	0	5	0	10	1	2	1	10	1	1	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr3:77657047G>A	uc003dpy.3	+	21	3878	c.3235G>A	c.(3235-3237)GTC>ATC	p.V1079I	ROBO2_uc003dpz.2_Missense_Mutation_p.V1083I|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.V1083I|ROBO2_uc003dqa.2_Missense_Mutation_p.V206I	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1079	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		TCCCCCCCCAGTCCAGCCCCT	0.458													27	35					0	0	0.004289	0	0		A	77657047	A	A	77657047	3	1	88	1	0	0	0	0	1	0	0	0	13539	1029	36	4	3319	4	ROBO2	3	77657047	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	34248605	77657047	120365383	31	53685											
UROC1	131669	broad.mit.edu	37	chr3	126224579	126224579	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgcaccccacgatgactgCggccttggcctgagccccac	7	6	11	17	2	0	2	0	2	0	0	0	4	0	2	6	2	3	1	6	2	0	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr3:126224579C>T	uc003eiz.1	-	8	810	c.778G>A	c.(778-780)GCA>ACA	p.A260T	UROC1_uc010hsi.1_Missense_Mutation_p.A260T	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	260					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		ACGATGACTGCGGCCTTGGCC	0.458													13	57					0	0	0.003163	0	0		T	126224579	T	T	126224579	3	4	88	1	0	0	0	0	1	0	0	0	17054	768	27	1	1488	1	UROC1	3	126224579	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	48567532	126224579	71797851	32	53686											
DHX36	170506	broad.mit.edu	37	chr3	154013119	154013119	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaatgtaaaggtataattAaaaatttatctgaaaattaa	20	14	6	1	0	1	2	0	2	1	0	1	2	1	2	0	1	0	2	0	1	12	7			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr3:154013119A>T	uc003ezy.3	-	13	1640	c.1559T>A	c.(1558-1560)TTA>TAA	p.L520*	DHX36_uc010hvq.2_Intron|DHX36_uc003ezz.3_Nonsense_Mutation_p.L520*	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	520	Nuclear localization signal.|Helicase C-terminal.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			AGGTATAATTAAAAATTTATC	0.299													3	6					0	0	0.004672	0	0		T	154013119	T	T	154013119	4	4	88	1	0	0	0	0	0	1	0	0	4515	372	13	5	1519	5	DHX36	3	154013119	Nonsense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	27788540	154013119	44009311	33	53687											
KCNMB2	10242	broad.mit.edu	37	chr3	178560469	178560469	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatacctaaatgtggaaaaaAttttgaagaatccatgtccc	16	12	6	7	0	0	2	0	1	0	1	2	3	2	3	3	1	1	0	3	1	9	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr3:178560469A>T	uc003fjd.2	+	5	795	c.452A>T	c.(451-453)AAT>ATT	p.N151I	uc003fjb.1_Intron|uc003fjc.1_Intron|KCNMB2_uc003fje.2_Missense_Mutation_p.N151I|KCNMB2_uc003fjf.2_Missense_Mutation_p.N151I|KCNMB2_uc011bqa.1_Intron|KCNMB2_uc011bqb.1_RNA	NM_181361	NP_852006	Q9Y691	KCMB2_HUMAN	calcium-activated potassium channel beta 2	151	Extracellular (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of vasoconstriction	voltage-gated potassium channel complex	calcium-activated potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(1)	1	all_cancers(143;5.38e-18)|Ovarian(172;0.00769)|Breast(254;0.125)		OV - Ovarian serous cystadenocarcinoma(80;1.32e-27)|GBM - Glioblastoma multiforme(14;0.0321)|BRCA - Breast invasive adenocarcinoma(182;0.0841)			TGTGGAAAAAATTTTGAAGAA	0.398													12	71					0	0	0.001368	0	0		T	178560469	T	T	178560469	3	4	88	1	0	0	0	0	1	0	0	0	8091	101	4	5	466	5	KCNMB2	3	178560469	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	24547350	178560469	19461961	34	53688											
DRD5	1816	broad.mit.edu	37	chr4	9783718	9783718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctctataccagcagctggCgcaggggaacgccgtggggg	7	5	17	12	4	1	0	0	0	1	0	1	1	1	1	2	5	4	4	2	5	3	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr4:9783718C>T	uc003gmb.3	+	1	461	c.65C>T	c.(64-66)GCG>GTG	p.A22V		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	22	Extracellular (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	CAGCAGCTGGCGCAGGGGAAC	0.706													3	11					0	0	0.004672	0	0		T	9783718	T	T	9783718	3	4	88	1	0	0	0	0	1	0	0	0	4766	768	27	1	67	1	DRD5	4	9783718	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08		9783718	181370558	35	53689											
GNPDA2	132789	broad.mit.edu	37	chr4	44720403	44720403	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgatattctattagttttTtatagcatcctaaaggtgta	12	19	6	4	0	1	1	0	1	1	0	2	1	2	1	1	1	1	3	1	1	9	11			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr4:44720403T>C	uc003gwy.2	-	3	306	c.149A>G	c.(148-150)AAA>AGA	p.K50R	GNPDA2_uc010iga.2_Intron|GNPDA2_uc011bzb.1_5'UTR|GNPDA2_uc003gwz.1_Missense_Mutation_p.K50R	NM_138335	NP_612208	Q8TDQ7	GNPI2_HUMAN	glucosamine-6-phosphate deaminase 2	50					N-acetylglucosamine metabolic process	cytoplasm	glucosamine-6-phosphate deaminase activity|hydrolase activity			ovary(1)	1						TATTAGTTTTTTATAGCATCC	0.244													14	13					0	0	0.001855	0	0		C	44720403	C	C	44720403	3	2	88	1	0	0	0	0	1	0	0	0	6558	1841	64	3	701	3	GNPDA2	4	44720403	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	34936685	44720403	146433873	36	53690											
TRAM1L1	133022	broad.mit.edu	37	chr4	118005573	118005573	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggcctgaatattagaaTcttctacccacctctgaagc	12	11	7	11	0	3	4	0	3	3	1	3	4	3	4	3	1	2	0	3	1	6	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr4:118005573T>C	uc003ibv.3	-	1	1164	c.977A>G	c.(976-978)GAT>GGT	p.D326G		NM_152402	NP_689615	Q8N609	TR1L1_HUMAN	translocation associated membrane protein 1-like	326	Cytoplasmic (Potential).|TLC.				protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane				central_nervous_system(1)	1						AATATTAGAATCTTCTACCCA	0.418													23	121					0	0	0.00278	0	0		C	118005573	C	C	118005573	3	2	88	1	0	0	0	0	1	0	0	0	16478	1435	50	3	136	3	TRAM1L1	4	118005573	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	73285170	118005573	73148703	37	53691											
FAT4	79633	broad.mit.edu	37	chr4	126240675	126240675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaattgcatacaccattgctGaaggaaatacaggggatgct	15	9	10	7	0	0	1	0	1	0	0	0	3	0	3	1	3	5	3	1	3	5	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr4:126240675G>A	uc003ifj.3	+	1	3109	c.3109G>A	c.(3109-3111)GAA>AAA	p.E1037K		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1037	Cadherin 10.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CACCATTGCTGAAGGAAATAC	0.388													18	94					0	0	0.006122	0	0		A	126240675	A	A	126240675	3	1	88	1	0	0	0	0	1	0	0	0	5706	1291	45	4	3111	4	FAT4	4	126240675	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	8235102	126240675	64913601	38	53692											
MAP9	79884	broad.mit.edu	37	chr4	156277001	156277001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcgatggagttctccttttaGaactagatttcttcaaaaac	12	15	6	8	1	3	2	1	0	2	2	5	4	3	3	1	1	2	1	1	1	5	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr4:156277001G>A	uc003ios.2	-	9	1421	c.1157C>T	c.(1156-1158)TCT>TTT	p.S386F	MAP9_uc011cin.1_Missense_Mutation_p.S361F|MAP9_uc010iqa.1_Intron|MAP9_uc003iot.1_Missense_Mutation_p.S385F	NM_001039580	NP_001034669	Q49MG5	MAP9_HUMAN	aster-associated protein	386					cell division|mitosis	cytoplasm|microtubule|spindle				ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.143)		TCTCCTTTTAGAACTAGATTT	0.348													19	10					0	0	0.001882	0	0		A	156277001	A	A	156277001	3	1	88	1	0	0	0	0	1	0	0	0	9288	942	33	4	810	4	MAP9	4	156277001	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	30036326	156277001	34877275	39	53693											
IRX2	153572	broad.mit.edu	37	chr5	2748985	2748985	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgaggtcacgggcttgggCggcgccaggccccgctcgcc	4	4	17	16	6	1	0	1	0	0	0	2	2	1	0	4	5	0	2	4	5	0	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:2748985C>T	uc003jda.2	-	3	1079	c.837G>A	c.(835-837)CCG>CCA	p.P279P	IRX2_uc003jdb.2_Silent_p.P279P	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	279						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		CGGGCTTGGGCGGCGCCAGGC	0.607													7	10					0	0	0.001984	0	0		T	2748985	T	T	2748985	2	4	88	1	0	0	0	0	0	0	0	1	7860	755	27	1		1	IRX2	5	2748985	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08		2748985	178166275	40	53694											
ADAMTS16	170690	broad.mit.edu	37	chr5	5237162	5237162	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaataaagtcaaagatgggActccatgctcggaggatagc	15	7	11	8	1	1	1	1	0	0	1	3	4	2	4	1	3	2	1	1	3	5	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:5237162A>C	uc003jdl.2	+	14	2242	c.2104A>C	c.(2104-2106)ACT>CCT	p.T702P	ADAMTS16_uc003jdk.1_Missense_Mutation_p.T702P|ADAMTS16_uc010itk.1_Intron	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	702	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CAAAGATGGGACTCCATGCTC	0.303													10	40					0	0	0.000978	0	0		C	5237162	C	C	5237162	3	2	88	1	0	0	0	0	1	0	0	0	261	275	10	5	2158	5	ADAMTS16	5	5237162	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	2488177	5237162	175678098	41	53695											
NNT	23530	broad.mit.edu	37	chr5	43609403	43609403	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggattttttacgaacaTtttatactcaccaagaactg	15	13	6	7	1	1	2	1	0	0	2	1	4	1	3	1	1	4	0	1	1	7	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:43609403T>G	uc003joe.2	+	2	361	c.106T>G	c.(106-108)TTT>GTT	p.F36V	NNT_uc003jof.2_Missense_Mutation_p.F36V	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	36					tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	TTTACGAACATTTTATACTCA	0.403													4	52					0	0	0.009096	0	0		G	43609403	G	G	43609403	3	3	88	1	0	0	0	0	1	0	0	0	10529	1493	52	5	108	5	NNT	5	43609403	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	38372241	43609403	137305857	42	53696											
ITGA1	3672	broad.mit.edu	37	chr5	52145263	52145263	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgactttcagcggcccGgtggaagacatgtttggata	10	11	12	8	2	2	2	2	1	0	1	2	4	2	4	1	4	1	1	1	4	3	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:52145263G>A	uc003jou.2	+	2	178	c.126G>A	c.(124-126)CCG>CCA	p.P42P	ITGA1_uc003jov.2_RNA	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	42	Extracellular (Potential).|FG-GAP 1.				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				TCAGCGGCCCGGTGGAAGACA	0.358													14	30					0	0	0.001855	0	0		A	52145263	A	A	52145263	2	1	88	1	0	0	0	0	0	0	0	1	7888	1103	39	1		1	ITGA1	5	52145263	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	8535860	52145263	128769997	43	53697											
PDE8B	8622	broad.mit.edu	37	chr5	76717658	76717658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttccagattgaaggcagcGactgtgaatgcaaccctgct	10	11	10	10	1	0	3	0	2	0	1	1	4	1	3	2	1	4	3	2	1	3	3	rs116027371	by1000genomes	TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:76717658G>A	uc003kfa.2	+	20	2308	c.2263G>A	c.(2263-2265)GAC>AAC	p.D755N	PDE8B_uc003kfb.2_Missense_Mutation_p.D735N|PDE8B_uc003kfc.2_Missense_Mutation_p.D700N|PDE8B_uc003kfd.2_Missense_Mutation_p.D708N|PDE8B_uc003kfe.2_Missense_Mutation_p.D658N	NM_003719	NP_003710	O95263	PDE8B_HUMAN	phosphodiesterase 8B isoform 1	755	Catalytic (By similarity).				cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity				0		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)		TGAAGGCAGCGACTGTGAATG	0.507													11	23					0	0	0.001855	0	0		A	76717658	A	A	76717658	3	1	88	1	0	0	0	0	1	0	0	0	11673	1058	37	1	2341	1	PDE8B	5	76717658	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	24572395	76717658	104197602	44	53698											
SLCO4C1	353189	broad.mit.edu	37	chr5	101597686	101597686	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagatccatgatagaagaaaCccaatccaccaagctcccaa	18	5	5	13	0	0	4	0	1	0	3	3	4	3	4	5	0	2	1	5	0	7	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:101597686C>T	uc003knm.2	-	5	1238	c.951G>A	c.(949-951)GGG>GGA	p.G317G		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	317	Helical; Name=6; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		ATAGAAGAAACCCAATCCACC	0.373													7	35					0	0	0.001984	0	0		T	101597686	T	T	101597686	2	4	88	1	0	0	0	0	0	0	0	1	14755	494	18	4		4	SLCO4C1	5	101597686	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	24880028	101597686	79317574	45	53699											
SPOCK1	6695	broad.mit.edu	37	chr5	136324212	136324212	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgatacagggctcgtacTtatccaggtagatggcattg	9	12	12	8	1	0	2	0	1	0	1	2	2	1	2	1	3	2	5	1	3	4	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:136324212T>A	uc003lbo.2	-	7	1018	c.827A>T	c.(826-828)AAG>ATG	p.K276M	SPOCK1_uc003lbp.2_Missense_Mutation_p.K276M	NM_004598	NP_004589	Q08629	TICN1_HUMAN	sparc/osteonectin, cwcv and kazal-like domains	276					cell adhesion|cell proliferation|cellular component movement|nervous system development|signal transduction	proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GGGCTCGTACTTATCCAGGTA	0.493													39	67					0	0	0.007835	0	0		A	136324212	A	A	136324212	3	1	88	1	0	0	0	0	1	0	0	0	15104	1609	56	5	508	5	SPOCK1	5	136324212	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	34726526	136324212	44591048	46	53700											
PCDHB3	56132	broad.mit.edu	37	chr5	140481830	140481830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttcgagttccgcgtgggcGccacagaccgtggctccccg	4	7	14	16	7	0	1	0	0	0	1	3	2	2	1	5	2	0	3	5	2	0	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:140481830G>A	uc003lio.2	+	1	1597	c.1597G>A	c.(1597-1599)GCC>ACC	p.A533T	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	533	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCGCGTGGGCGCCACAGACCG	0.667													28	126					0	0	0.007291	0	0		A	140481830	A	A	140481830	3	1	88	1	0	0	0	0	1	0	0	0	11562	1087	38	1	1599	1	PCDHB3	5	140481830	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	4157618	140481830	40433430	47	53701											
PCDHB8	56128	broad.mit.edu	37	chr5	140558215	140558215	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctggtgctggacaaagcGctggaccgagaggaagaagc	12	4	17	8	2	0	2	0	0	0	2	0	7	0	5	1	4	4	3	1	4	3	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:140558215G>A	uc011dai.1	+	1	786	c.600G>A	c.(598-600)GCG>GCA	p.A200A	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	200	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGACAAAGCGCTGGACCGAG	0.522													12	125					0	0	0.001855	0	0		A	140558215	A	A	140558215	2	1	88	1	0	0	0	0	0	0	0	1	11567	1074	38	1		1	PCDHB8	5	140558215	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	76385	140558215	40357045	48	53702											
PCDHGA8	9708	broad.mit.edu	37	chr5	140774731	140774731	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catgctcatcagtcaggaggGctgtgagaaaaatgattctt	12	11	11	7	0	4	2	3	2	1	1	4	4	4	3	0	2	1	2	0	2	2	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:140774731G>T	uc003lkd.1	+	1	3249	c.2351G>T	c.(2350-2352)GGC>GTC	p.G784V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.G784V|PCDHGB5_uc011daw.1_5'Flank|PCDHGB5_uc003lkf.1_5'Flank	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	784	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTCAGGAGGGCTGTGAGAAA	0.458													18	59					1.56452e-12	1.66833e-12	0.007413	1	0		T	140774731	T	T	140774731	3	4	88	1	0	0	0	0	1	0	0	0	11579	1203	42	5	2353	5	PCDHGA8	5	140774731	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	216516	140774731	40140529	49	53703											
ADRB2	154	broad.mit.edu	37	chr5	148206648	148206648	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctggtcatgggcctggCagtggtgccctttggggccg	3	11	17	10	1	2	1	1	1	1	0	2	1	2	1	3	6	1	1	3	6	0	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:148206648C>A	uc003lpr.1	+	1	493	c.254C>A	c.(253-255)GCA>GAA	p.A85E	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	85	Helical; Name=2.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	ATGGGCCTGGCAGTGGTGCCC	0.532													13	46					5.50884e-06	5.71193e-06	0.001368	1	0		A	148206648	A	A	148206648	3	1	88	1	0	0	0	0	1	0	0	0	341	710	25	5	256	5	ADRB2	5	148206648	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	7431917	148206648	32708612	50	53704											
ARSI	340075	broad.mit.edu	37	chr5	149677830	149677830	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagggctgtggctggccagGatatggctggcgcgctgggc	4	8	20	9	2	0	1	0	1	0	0	0	2	0	2	1	7	0	4	1	7	1	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:149677830G>T	uc003lrv.2	-	2	1246	c.657C>A	c.(655-657)ATC>ATA	p.I219I		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	219						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGCTGGCCAGGATATGGCTGG	0.632													16	19					1.3612e-06	1.41792e-06	0.003163	1	0		T	149677830	T	T	149677830	2	4	88	1	0	0	0	0	0	0	0	1	995	1164	41	5		5	ARSI	5	149677830	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	1471182	149677830	31237430	51	53705											
SOX30	11063	broad.mit.edu	37	chr5	157073789	157073789	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaacacttagagggaatcGttttcgcttccctggacgag	10	10	12	9	3	0	1	0	0	0	1	3	5	1	4	1	3	1	2	1	3	3	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr5:157073789G>A	uc003lxb.1	-	3	1585	c.1243C>T	c.(1243-1245)CGA>TGA	p.R415*	SOX30_uc003lxc.1_Nonsense_Mutation_p.R415*|SOX30_uc011dds.1_Nonsense_Mutation_p.R110*	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	415					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AGAGGGAATCGTTTTCGCTTC	0.368													17	55					0	0	0.010504	0	0		A	157073789	A	A	157073789	4	1	88	1	0	0	0	0	0	1	0	0	14977	1153	40	1	1030	1	SOX30	5	157073789	Nonsense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	7395959	157073789	23841471	52	53706											
HIST1H3A	8350	broad.mit.edu	37	chr6	26021060	26021060	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaacctgtgcgccatccacGccaagcgcgtcactatcatg	9	8	8	16	4	2	0	2	0	0	0	3	0	3	0	4	0	3	0	4	0	3	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:26021060G>T	uc003nfp.1	+	1	343	c.343G>T	c.(343-345)GCC>TCC	p.A115S	HIST1H4A_uc003nfq.2_5'Flank	NM_003529	NP_003520	P68431	H31_HUMAN	histone cluster 1, H3a	115					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)|pancreas(1)	2						CGCCATCCACGCCAAGCGCGT	0.602													38	34					4.65686e-17	4.9895e-17	0.003755	1	0		T	26021060	T	T	26021060	3	4	88	1	0	0	0	0	1	0	0	0	7171	1087	38	5	345	5	HIST1H3A	6	26021060	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08		26021060	145094007	53	53707											
BTN2A2	10385	broad.mit.edu	37	chr6	26388520	26388520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaactgtcatttttattcCaggttagttctctgccctct	7	17	7	10	0	3	0	1	0	2	0	5	1	4	1	2	2	2	2	2	2	3	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:26388520C>T	uc003nhq.2	+	4	808	c.722C>T	c.(721-723)CCA>CTA	p.P241L	BTN2A2_uc011dkf.1_Missense_Mutation_p.P125L|BTN2A2_uc011dkg.1_Intron|BTN2A2_uc003nhr.2_Missense_Mutation_p.P125L|BTN2A2_uc011dkh.1_Intron|BTN2A2_uc003nhs.2_Missense_Mutation_p.P241L|BTN2A2_uc003nht.2_Missense_Mutation_p.P241L|BTN2A2_uc011dki.1_5'Flank	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	241	Extracellular (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						ATTTTTATTCCAGGTTAGTTC	0.522													37	260					0	0	0.00874	0	0		T	26388520	T	T	26388520	3	4	88	1	0	0	0	0	1	0	0	0	1564	594	21	4	732	4	BTN2A2	6	26388520	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	367460	26388520	144726547	54	53708											
BTN3A1	11119	broad.mit.edu	37	chr6	26413839	26413839	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catattcatactttcctggaCgtctccttctctgaggctct	6	16	6	13	1	4	1	1	1	3	0	7	2	5	2	2	2	1	1	2	2	2	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:26413839C>T	uc003nhv.2	+	10	1829	c.1461C>T	c.(1459-1461)GAC>GAT	p.D487D	BTN3A1_uc011dkj.1_3'UTR|BTN3A1_uc011dkk.1_Silent_p.D435D|BTN3A1_uc010jqj.2_3'UTR	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a	487	Cytoplasmic (Potential).|B30.2/SPRY.				lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						CTTTCCTGGACGTCTCCTTCT	0.468													22	171					0	0	0.001882	0	0		T	26413839	T	T	26413839	2	4	88	1	0	0	0	0	0	0	0	1	1565	535	19	1		1	BTN3A1	6	26413839	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	25319	26413839	144701228	55	53709											
HIST1H2BJ	8970	broad.mit.edu	37	chr6	27100278	27100278	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgatggtcgagcgcttgttGtaatgcgccaggcgggaagc	7	9	17	8	4	0	1	0	1	0	0	1	3	0	2	1	3	3	3	1	3	2	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:27100278G>A	uc003niv.2	-	1	298	c.252C>T	c.(250-252)TAC>TAT	p.Y84Y	HIST1H2BJ_uc003niu.1_Intron|HIST1H2AG_uc003niw.2_5'Flank	NM_021058	NP_066402	P06899	H2B1J_HUMAN	histone cluster 1, H2bj	84					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						AGCGCTTGTTGTAATGCGCCA	0.602													41	185					0	0	0.006999	0	0		A	27100278	A	A	27100278	2	1	88	1	0	0	0	0	0	0	0	1	7165	1372	48	4		4	HIST1H2BJ	6	27100278	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	686439	27100278	144014789	56	53710											
HIST1H2AL	8332	broad.mit.edu	37	chr6	27833333	27833333	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgagatcctggagctggcGggcaacgccgcccgcgacaa	8	3	15	15	6	0	1	0	0	0	1	1	4	1	2	4	3	2	2	4	3	2	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:27833333G>T	uc003njw.2	+	1	227	c.201G>T	c.(199-201)GCG>GCT	p.A67A		NM_003511	NP_003502	P0C0S8	H2A1_HUMAN	histone cluster 1, H2al	67					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding				0						TGGAGCTGGCGGGCAACGCCG	0.667													32	216					1.38854e-25	1.50928e-25	0.008361	1	0		T	27833333	T	T	27833333	2	4	88	1	0	0	0	0	0	0	0	1	7154	1103	39	5		5	HIST1H2AL	6	27833333	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	733055	27833333	143281734	57	53711											
HLA-G	3135	broad.mit.edu	37	chr6	29795926	29795926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacgacacgcagttcgtgcGgttcgacagcgactcggcgt	7	7	15	12	8	0	0	0	0	0	0	3	4	0	1	0	3	2	3	0	3	0	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:29795926G>A	uc003nnw.2	+	3	354	c.176G>A	c.(175-177)CGG>CAG	p.R59Q	HLA-G_uc011dmb.1_Missense_Mutation_p.R31Q|HLA-G_uc003raj.3_Missense_Mutation_p.R64Q|HLA-G_uc003nnz.3_Missense_Mutation_p.R59Q|HLA-G_uc010jrn.2_Missense_Mutation_p.R59Q|HLA-G_uc003nny.3_RNA|HLA-G_uc003ran.1_5'Flank	NM_002127	NP_002118	P17693	HLAG_HUMAN	major histocompatibility complex, class I, G	59	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I|cellular defense response|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			ovary(3)|central_nervous_system(1)	4						CAGTTCGTGCGGTTCGACAGC	0.682													15	38					0	0	0.00245	0	0		A	29795926	A	A	29795926	3	1	88	1	0	0	0	0	1	0	0	0	7228	1116	39	1	182	1	HLA-G	6	29795926	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	1962593	29795926	141319141	58	53712											
BAT3	7917	broad.mit.edu	37	chr6	31611880	31611880	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgtcccagagactgggggCcctccaggatgggaaggccg	8	5	17	11	1	0	1	0	0	0	1	2	4	2	3	4	5	0	0	4	5	1	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:31611880C>G	uc003nvg.3	-	12	1871	c.1557G>C	c.(1555-1557)GGG>GGC	p.G519G	BAT3_uc003nvf.3_Silent_p.G513G|BAT3_uc003nvh.3_Silent_p.G513G|BAT3_uc003nvi.3_Silent_p.G513G|BAT3_uc011dnw.1_Silent_p.G513G|BAT3_uc011dnx.1_Silent_p.G513G	NM_004639	NP_004630	P46379	BAG6_HUMAN	HLA-B associated transcript-3 isoform a	519	Pro-rich.|4 X 29 AA approximate repeats.				apoptosis in response to endoplasmic reticulum stress|brain development|cell differentiation|chromatin modification|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|embryo development|internal peptidyl-lysine acetylation|kidney development|lung development|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|protein stabilization|spermatogenesis|synaptonemal complex assembly|tail-anchored membrane protein insertion into ER membrane|transport|ubiquitin-dependent protein catabolic process	BAT3 complex|nucleus	polyubiquitin binding|proteasome binding|ribosome binding				0						AGACTGGGGGCCCTCCAGGAT	0.637													9	75					0	0	0.006214	0	0		G	31611880	G	G	31611880	2	3	88	1	0	0	0	0	0	0	0	1	1323	726	26	5		5	BAT3	6	31611880	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	1815954	31611880	139503187	59	53713											
CFB	629	broad.mit.edu	37	chr6	31914819	31914819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccacacgacttcgagaacGgggaatactggccccggtct	10	6	12	13	4	1	1	0	0	1	1	2	5	1	2	3	4	2	0	3	4	3	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:31914819G>A	uc003nyj.3	+	3	612	c.334G>A	c.(334-336)GGG>AGG	p.G112R	CFB_uc011dor.1_Missense_Mutation_p.G614R|CFB_uc011dos.1_3'UTR|CFB_uc003nyi.2_Missense_Mutation_p.G112R	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	112	Sushi 2.				complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						CTTCGAGAACGGGGAATACTG	0.532													8	112					0	0	0.004482	0	0		A	31914819	A	A	31914819	3	1	88	1	0	0	0	0	1	0	0	0	3281	1116	39	1	344	1	CFB	6	31914819	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	302939	31914819	139200248	60	53714											
TNXB	7148	broad.mit.edu	37	chr6	32065659	32065659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctccaggatctctagaCggaccctcagggcctgtacc	8	8	9	16	1	2	1	1	0	1	1	5	3	4	3	5	3	1	1	5	3	2	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:32065659C>T	uc003nzl.2	-	2	519	c.317G>A	c.(316-318)CGT>CAT	p.R106H	TNXB_uc010jts.1_Missense_Mutation_p.R105H|ATF6B_uc003nzm.1_3'UTR	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	106					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GATCTCTAGACGGACCCTCAG	0.617													7	43					0	0	0.001984	0	0		T	32065659	T	T	32065659	3	4	88	1	0	0	0	0	1	0	0	0	16371	536	19	1	14568	1	TNXB	6	32065659	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	150840	32065659	139049408	61	53715											
DNAH8	1769	broad.mit.edu	37	chr6	38816548	38816548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcttgaagccgtctttgtaGgtggagatattgccaaacag	11	12	11	7	1	2	2	0	1	2	1	2	3	2	2	2	2	3	1	2	2	4	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:38816548G>A	uc003ooe.1	+	35	5119	c.4519G>A	c.(4519-4521)GGT>AGT	p.G1507S		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CGTCTTTGTAGGTGGAGATAT	0.368													40	57					0	0	0.006999	0	0		A	38816548	A	A	38816548	3	1	88	1	0	0	0	0	1	0	0	0	4613	1000	35	4	4649	4	DNAH8	6	38816548	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	6750889	38816548	132298519	62	53716											
FHL5	9457	broad.mit.edu	37	chr6	97052643	97052643	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaggatctttgttacaaagaCcggcactggcatgaaggatg	13	9	12	7	1	1	2	0	1	1	1	1	4	1	4	1	4	1	3	1	4	4	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:97052643C>T	uc003pos.1	+	4	582	c.177C>T	c.(175-177)GAC>GAT	p.D59D	FHL5_uc003pot.1_Silent_p.D59D	NM_020482	NP_065228	Q5TD97	FHL5_HUMAN	activator of cAMP-responsive element modulator	59	LIM zinc-binding 1.					nucleus	zinc ion binding			ovary(2)	2		all_cancers(76;1.57e-07)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00266)|Colorectal(196;0.0341)|Lung NSC(302;0.204)		BRCA - Breast invasive adenocarcinoma(108;0.0948)		GTTACAAAGACCGGCACTGGC	0.433													9	55					0	0	0.004482	0	0		T	97052643	T	T	97052643	2	4	88	1	0	0	0	0	0	0	0	1	5895	506	18	4		4	FHL5	6	97052643	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	58236095	97052643	74062424	63	53717											
ROS1	6098	broad.mit.edu	37	chr6	117632202	117632202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtgaatgaaatgcatccGttccaagtagacacagcctt	12	10	8	11	1	0	3	0	2	0	1	2	3	2	3	4	0	2	3	4	0	4	3	rs139881304		TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:117632202G>A	uc003pxp.1	-	39	6413	c.6214C>T	c.(6214-6216)CGG>TGG	p.R2072W	ROS1_uc011ebi.1_RNA	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	2072	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		AAATGCATCCGTTCCAAGTAG	0.383			T	GOPC|ROS1	glioblastoma|NSCLC								5	34					0	0	0.001984	0	0		A	117632202	A	A	117632202	3	1	88	1	0	0	0	0	1	0	0	0	13556	1144	40	1	849	1	ROS1	6	117632202	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	20579559	117632202	53482865	64	53718											
IFNGR1	3459	broad.mit.edu	37	chr6	137525611	137525611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgatttgcttctcctcctttCtgatatccagtttaggtggt	5	19	8	9	0	2	2	0	2	2	0	5	2	4	2	3	2	1	2	3	2	2	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr6:137525611C>T	uc003qho.2	-	4	507	c.404G>A	c.(403-405)AGA>AAA	p.R135K	IFNGR1_uc011edm.1_Missense_Mutation_p.R107K|IFNGR1_uc011edn.1_Missense_Mutation_p.R125K	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	135	Extracellular (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	CTCCTCCTTTCTGATATCCAG	0.388													8	34					0	0	0.00308	0	0		T	137525611	T	T	137525611	3	4	88	1	0	0	0	0	1	0	0	0	7565	913	32	4	1081	4	IFNGR1	6	137525611	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	19893409	137525611	33589456	65	53719											
CARD11	84433	broad.mit.edu	37	chr7	2962952	2962952	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgccccacagaggtgacCgaaggccggaagggtctgca	10	4	15	12	3	1	2	0	1	1	1	1	4	1	3	4	4	2	1	4	4	2	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:2962952C>T	uc003smv.2	-	16	2360	c.1956G>A	c.(1954-1956)TCG>TCA	p.S652S		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	652					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		CAGAGGTGACCGAAGGCCGGA	0.647			Mis		DLBCL								25	61					0	0	0.005443	0	0		T	2962952	T	T	2962952	2	4	88	1	0	0	0	0	0	0	0	1	2648	639	23	1		1	CARD11	7	2962952	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08		2962952	156175711	66	53720											
DGKB	1607	broad.mit.edu	37	chr7	14378334	14378334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctatctgtactccatcaCactgatcggtaaaaagaaag	16	10	6	9	1	3	2	1	1	2	1	5	2	4	2	1	1	1	2	1	1	7	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:14378334C>T	uc003ssz.2	-	22	2118	c.1931G>A	c.(1930-1932)TGT>TAT	p.C644Y	DGKB_uc011jxt.1_Missense_Mutation_p.C625Y|DGKB_uc003sta.2_Missense_Mutation_p.C644Y|DGKB_uc011jxu.1_Missense_Mutation_p.C643Y	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	644					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	TACTCCATCACACTGATCGGT	0.338													7	31					0	0	0.001984	0	0		T	14378334	T	T	14378334	3	4	88	1	0	0	0	0	1	0	0	0	4472	492	17	4	514	4	DGKB	7	14378334	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	11415382	14378334	144760329	67	53721											
AVL9	23080	broad.mit.edu	37	chr7	32598846	32598846	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctccagattcttcagaaAgtgactgggaaactttggat	12	12	9	8	0	3	3	1	1	2	2	4	5	3	5	1	2	1	0	1	2	2	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:32598846A>C	uc003tcv.1	+	10	1131	c.985A>C	c.(985-987)AGT>CGT	p.S329R	AVL9_uc011kai.1_Missense_Mutation_p.S329R|AVL9_uc010kwj.1_Missense_Mutation_p.S170R	NM_015060	NP_055875	Q8NBF6	AVL9_HUMAN	AVL9 homolog (S. cerevisiase)	329						integral to membrane					0						TTCTTCAGAAAGTGACTGGGA	0.458													38	63					0	0	0.004878	0	0		C	32598846	C	C	32598846	3	2	88	1	0	0	0	0	1	0	0	0	1229	72	3	5	1023	5	AVL9	7	32598846	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	18220512	32598846	126539817	68	53722											
URGCP	55665	broad.mit.edu	37	chr7	43918102	43918102	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtccaagtcctcccttccGctgggaaaaaaccaggaaat	13	8	8	12	1	0	0	0	0	0	0	4	2	4	2	5	2	1	1	5	2	5	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:43918102G>A	uc003tiw.2	-	6	1017	c.960C>T	c.(958-960)AGC>AGT	p.S320S	URGCP_uc003tiu.2_Silent_p.S277S|URGCP_uc003tiv.2_Silent_p.S245S|URGCP_uc003tix.2_Silent_p.S311S|URGCP_uc003tiy.2_Silent_p.S277S|URGCP_uc003tiz.2_Silent_p.S277S|URGCP_uc011kbj.1_Silent_p.S277S	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	320					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						CCTCCCTTCCGCTGGGAAAAA	0.527													41	73					0	0	0.009718	0	0		A	43918102	A	A	43918102	2	1	88	1	0	0	0	0	0	0	0	1	17052	1078	38	1		1	URGCP	7	43918102	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	11319256	43918102	115220561	69	53723											
ELN	2006	broad.mit.edu	37	chr7	73466278	73466278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggactccagctgcagctgCagctgcagcagcagccgcta	8	6	13	14	1	0	0	0	0	0	0	1	1	1	1	2	1	9	9	2	1	1	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:73466278C>T	uc003tzw.2	+	17	1005	c.914C>T	c.(913-915)GCA>GTA	p.A305V	RFC2_uc011kfa.1_Intron|ELN_uc003tzm.1_RNA|ELN_uc011kfe.1_Missense_Mutation_p.A274V|ELN_uc003tzn.2_Missense_Mutation_p.A305V|ELN_uc003tzz.2_Missense_Mutation_p.A269V|ELN_uc003tzo.2_Missense_Mutation_p.A291V|ELN_uc003tzp.2_Missense_Mutation_p.A261V|ELN_uc003tzq.2_Missense_Mutation_p.A188V|ELN_uc003tzr.2_RNA|ELN_uc003tzs.2_Missense_Mutation_p.A305V|ELN_uc003tzt.2_Missense_Mutation_p.A310V|ELN_uc003tzu.2_Missense_Mutation_p.A310V|ELN_uc003tzv.2_Missense_Mutation_p.A295V|ELN_uc003tzx.2_Missense_Mutation_p.A295V|ELN_uc011kff.1_Missense_Mutation_p.A305V|ELN_uc003tzy.2_Missense_Mutation_p.A300V	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	305	Ala-rich.				blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	GCTGCAGCTGCAGCTGCAGCA	0.647			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome				OREG0018112	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	136					0	0	0.001984	0	0		T	73466278	T	T	73466278	3	4	88	1	0	0	0	0	1	0	0	0	5079	710	25	2	995	2	ELN	7	73466278	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	29548176	73466278	85672385	70	53724											
CLIP2	7461	broad.mit.edu	37	chr7	73753054	73753054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcgctacttcgagtgccCggccctccagggtatcttca	5	10	11	15	4	2	0	1	0	1	0	4	1	3	0	3	2	3	2	3	2	2	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:73753054C>T	uc003uam.2	+	3	725	c.398C>T	c.(397-399)CCG>CTG	p.P133L	CLIP2_uc003uan.2_Missense_Mutation_p.P133L	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	133	CAP-Gly 1.					microtubule associated complex				skin(3)	3						TTCGAGTGCCCGGCCCTCCAG	0.706													4	20					0	0	0.009096	0	0		T	73753054	T	T	73753054	3	4	88	1	0	0	0	0	1	0	0	0	3536	652	23	1	404	1	CLIP2	7	73753054	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	286776	73753054	85385609	71	53725											
GNAT3	346562	broad.mit.edu	37	chr7	80108223	80108223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggcctgaattcctggatctCtccacagccgttttattacc	8	13	7	13	1	1	1	0	1	1	0	4	2	3	2	5	2	2	1	5	2	3	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:80108223C>T	uc011kgu.1	-	4	395	c.395G>A	c.(394-396)AGA>AAA	p.R132K	CD36_uc003uhc.2_Intron	NM_001102386	NP_001095856	A8MTJ3	GNAT3_HUMAN	guanine nucleotide binding protein, alpha	132					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction|sensory perception of sweet taste|sensory perception of umami taste	cytoplasm|heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						TCCTGGATCTCTCCACAGCCG	0.453													8	126					0	0	0.00308	0	0		T	80108223	T	T	80108223	3	4	88	1	0	0	0	0	1	0	0	0	6528	913	32	4	687	4	GNAT3	7	80108223	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	6355169	80108223	79030440	72	53726											
HGF	3082	broad.mit.edu	37	chr7	81346652	81346652	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcagtaattctcattcagcTtacttgcatctggttcccag	8	14	8	11	0	3	0	2	0	2	0	5	0	4	0	1	2	3	5	1	2	2	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:81346652T>A	uc003uhl.2	-	11	1466	c.1301A>T	c.(1300-1302)AAG>ATG	p.K434M	HGF_uc003uhm.2_Missense_Mutation_p.K429M	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	434	Kringle 4.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						CTCATTCAGCTTACTTGCATC	0.428													19	89					0	0	0.007413	0	0		A	81346652	A	A	81346652	3	1	88	1	0	0	0	0	1	0	0	0	7101	1609	56	5	917	5	HGF	7	81346652	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	1238429	81346652	77792011	73	53727											
RUNDC3B	154661	broad.mit.edu	37	chr7	87329803	87329803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatatcagagtggcttgccGgaaagtttcacagaattgta	12	12	10	7	1	2	2	2	0	0	2	2	3	2	3	1	2	1	3	1	2	5	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:87329803G>A	uc003ujb.2	+	4	767	c.356G>A	c.(355-357)CGG>CAG	p.R119Q	ABCB1_uc003uiz.1_Intron|ABCB1_uc003uja.1_Intron|ABCB1_uc010lei.1_Intron|RUNDC3B_uc011khd.1_Missense_Mutation_p.R102Q|RUNDC3B_uc011khe.1_Missense_Mutation_p.R102Q|RUNDC3B_uc003ujc.2_Missense_Mutation_p.R102Q|RUNDC3B_uc003ujd.2_Missense_Mutation_p.R24Q	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	119	RUN.									skin(1)	1	Esophageal squamous(14;0.00164)					GTGGCTTGCCGGAAAGTTTCA	0.378													17	30					0	0	0.006122	0	0		A	87329803	A	A	87329803	3	1	88	1	0	0	0	0	1	0	0	0	13770	1116	39	1	370	1	RUNDC3B	7	87329803	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	5983151	87329803	71808860	74	53728											
SAMD9L	219285	broad.mit.edu	37	chr7	92760776	92760776	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgtgccagagggaattTgtattttgtgctttatcaaa	10	15	9	7	0	1	1	1	0	0	1	1	2	1	2	2	1	2	2	2	1	4	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:92760776T>A	uc003umh.1	-	5	5725	c.4509A>T	c.(4507-4509)ACA>ACT	p.T1503T	SAMD9L_uc003umj.1_Silent_p.T1503T|SAMD9L_uc003umi.1_Silent_p.T1503T|SAMD9L_uc010lfb.1_Silent_p.T1503T|SAMD9L_uc003umk.1_Silent_p.T1503T|SAMD9L_uc010lfc.1_Silent_p.T1503T|SAMD9L_uc010lfd.1_Silent_p.T1503T|SAMD9L_uc011khx.1_3'UTR	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1503										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			AGAGGGAATTTGTATTTTGTG	0.438													44	79					0	0	0.00874	0	0		A	92760776	A	A	92760776	2	1	88	1	0	0	0	0	0	0	0	1	13852	1799	63	5		5	SAMD9L	7	92760776	Silent	SNP	T	TCGA-BR-8679-01A-11D-2394-08	5430973	92760776	66377887	75	53729											
PPP1R3A	5506	broad.mit.edu	37	chr7	113522369	113522369	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgatgttactgatgattcTtctttactgttaaatttaaa	11	20	5	5	0	3	3	0	3	3	0	3	3	3	3	0	0	2	2	0	0	6	8			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:113522369T>G	uc010ljy.1	-	2	820	c.789A>C	c.(787-789)GAA>GAC	p.E263D		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	263					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						CTGATGATTCTTCTTTACTGT	0.279													6	13					0	0	0.001984	0	0		G	113522369	G	G	113522369	3	3	88	1	0	0	0	0	1	0	0	0	12393	1606	56	5	2591	5	PPP1R3A	7	113522369	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	20761593	113522369	45616294	76	53730											
PTN	5764	broad.mit.edu	37	chr7	136938369	136938369	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccattctccacagtcagacTtcttcacttttttttctgaa	8	17	4	12	0	5	2	2	1	3	1	6	2	5	2	2	0	0	0	2	0	1	7			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:136938369T>G	uc003vtq.2	-	3	494	c.131A>C	c.(130-132)AAG>ACG	p.K44T	PTN_uc010lmx.2_Missense_Mutation_p.K44T|PTN_uc003vtr.1_Missense_Mutation_p.K44T	NM_002825	NP_002816	P21246	PTN_HUMAN	pleiotrophin	44					nervous system development|positive regulation of cell division|positive regulation of cell proliferation|transmembrane receptor protein tyrosine phosphatase signaling pathway	endoplasmic reticulum|extracellular space	growth factor activity|heparin binding|protein phosphatase inhibitor activity			upper_aerodigestive_tract(1)|pancreas(1)	2						ACAGTCAGACTTCTTCACTTT	0.453													12	40					0	0	0.000978	0	0		G	136938369	G	G	136938369	3	3	88	1	0	0	0	0	1	0	0	0	12791	1609	56	5	387	5	PTN	7	136938369	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	23416000	136938369	22200294	77	53731											
TAS2R4	50832	broad.mit.edu	37	chr7	141478666	141478666	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgctgaagcggaatatctcCccaaagatccccaggctgct	10	8	9	14	1	1	2	0	1	1	1	3	3	2	3	4	2	3	3	4	2	4	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:141478666C>T	uc003vwq.1	+	1	378	c.378C>T	c.(376-378)TCC>TCT	p.S126S		NM_016944	NP_058640	Q9NYW5	TA2R4_HUMAN	taste receptor T2R4	126	Cytoplasmic (Potential).				sensory perception of taste	cilium membrane	taste receptor activity				0	Melanoma(164;0.0171)			BRCA - Breast invasive adenocarcinoma(188;0.196)		GGAATATCTCCCCAAAGATCC	0.488													25	228					0	0	0.00333	0	0		T	141478666	T	T	141478666	2	4	88	1	0	0	0	0	0	0	0	1	15602	610	22	4		4	TAS2R4	7	141478666	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	4540297	141478666	17659997	78	53732											
SSPO	23145	broad.mit.edu	37	chr7	149485454	149485454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgaggcctgtggccccaCgtgtccccccacctgccatg	6	8	10	17	1	0	1	0	1	0	0	1	1	1	1	8	2	1	0	8	2	1	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:149485454C>T	uc010lpk.2	+	27	3860	c.3860C>T	c.(3859-3861)ACG>ATG	p.T1287M		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	1287	TIL 3.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TGTGGCCCCACGTGTCCCCCC	0.642													18	44					0	0	0.00499	0	0		T	149485454	T	T	149485454	3	4	88	1	0	0	0	0	1	0	0	0	15214	536	19	1	3962	1	SSPO	7	149485454	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	8006788	149485454	9653209	79	53733											
DPP6	1804	broad.mit.edu	37	chr7	154585896	154585896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctctgcgacgccaccaCgggggtctgcacgaaggtac	8	5	12	16	4	2	0	0	0	2	0	2	2	2	0	3	3	3	2	3	3	2	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:154585896C>T	uc003wlk.2	+	11	1373	c.1244C>T	c.(1243-1245)ACG>ATG	p.T415M	DPP6_uc003wli.2_Missense_Mutation_p.T351M|DPP6_uc003wlm.2_Missense_Mutation_p.T353M|DPP6_uc011kvq.1_Missense_Mutation_p.T308M	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	415	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			GACGCCACCACGGGGGTCTGC	0.662													11	26					0	0	0.001368	0	0		T	154585896	T	T	154585896	3	4	88	1	0	0	0	0	1	0	0	0	4736	536	19	1	1402	1	DPP6	7	154585896	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	5100442	154585896	4552767	80	53734											
RNF32	140545	broad.mit.edu	37	chr7	156468398	156468398	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcctcctcagttcacagaAatcagccaccgcatcctgtg	9	9	6	17	1	3	1	3	0	0	1	6	1	6	1	6	0	1	2	6	0	1	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr7:156468398A>C	uc003wmo.2	+	8	875	c.693A>C	c.(691-693)GAA>GAC	p.E231D	RNF32_uc010lqm.2_Missense_Mutation_p.E231D|RNF32_uc003wmq.2_Missense_Mutation_p.E231D|RNF32_uc003wmr.2_Missense_Mutation_p.E231D|RNF32_uc003wmu.2_RNA	NM_030936	NP_112198	Q9H0A6	RNF32_HUMAN	ring finger protein 32	231						aggresome|endosome	protein binding|zinc ion binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00291)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		AGTTCACAGAAATCAGCCACC	0.522													29	72					0	0	0.009535	0	0		C	156468398	C	C	156468398	3	2	88	1	0	0	0	0	1	0	0	0	13513	11	1	5	719	5	RNF32	7	156468398	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	1882502	156468398	2670265	81	53735											
TNKS	8658	broad.mit.edu	37	chr8	9622234	9622234	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgttctgtagatgcaaagTactattcgagaacacagaga	14	12	9	6	1	1	3	0	0	1	3	2	5	1	3	0	0	3	4	0	0	5	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:9622234T>C	uc003wss.2	+	23	3386	c.3381T>C	c.(3379-3381)AGT>AGC	p.S1127S	TNKS_uc011kww.1_Silent_p.S890S	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1127	PARP catalytic.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		AGATGCAAAGTACTATTCGAG	0.318													6	49					0	0	0.001984	0	0		C	9622234	C	C	9622234	2	2	88	1	0	0	0	0	0	0	0	1	16344	1635	57	3		3	TNKS	8	9622234	Silent	SNP	T	TCGA-BR-8679-01A-11D-2394-08		9622234	136741788	82	53736											
XPO7	23039	broad.mit.edu	37	chr8	21837641	21837641	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagtcagaagatccctgtTtaacaatgcagagagggcca	13	9	10	9	0	2	3	2	0	0	3	3	4	3	3	2	1	2	2	2	1	3	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:21837641T>G	uc003xaa.3	+	9	986	c.884T>G	c.(883-885)TTT>TGT	p.F295C	XPO7_uc010lti.2_Missense_Mutation_p.F304C|XPO7_uc010ltk.2_Missense_Mutation_p.F296C	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	295				Missing (in Ref. 3; BAA34465).	mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		AGATCCCTGTTTAACAATGCA	0.398													8	9					0	0	0.00308	0	0		G	21837641	G	G	21837641	3	3	88	1	0	0	0	0	1	0	0	0	17475	1841	64	5	970	5	XPO7	8	21837641	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	12215407	21837641	124526381	83	53737											
NUDT18	79873	broad.mit.edu	37	chr8	21965689	21965689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggacccaggaggggccccGctcctccacggacagcagtg	7	3	15	16	3	0	0	0	0	0	0	2	3	2	3	5	5	1	2	5	5	0	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:21965689G>A	uc003xaq.1	-	5	450	c.331C>T	c.(331-333)CGG>TGG	p.R111W	NUDT18_uc003xar.1_3'UTR	NM_024815	NP_079091	Q6ZVK8	NUD18_HUMAN	nudix (nucleoside diphosphate linked moiety	111	Nudix hydrolase.						hydrolase activity|metal ion binding|protein binding				0				Colorectal(74;0.00185)|COAD - Colon adenocarcinoma(73;0.0608)|READ - Rectum adenocarcinoma(5;0.0986)		GAGGGGCCCCGCTCCTCCACG	0.672													9	10					0	0	0.006214	0	0		A	21965689	A	A	21965689	3	1	88	1	0	0	0	0	1	0	0	0	10754	1086	38	1	648	1	NUDT18	8	21965689	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	128048	21965689	124398333	84	53738											
POLR3D	661	broad.mit.edu	37	chr8	22105684	22105684	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggaactgggataagacaGtggatgtgtcagacatggga	13	7	16	5	0	1	2	1	0	0	2	1	6	1	6	0	4	1	0	0	4	2	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:22105684G>A	uc003xbl.2	+	5	462	c.379G>A	c.(379-381)GTG>ATG	p.V127M	POLR3D_uc003xbm.2_Missense_Mutation_p.V127M|POLR3D_uc011kze.1_Intron	NM_001722	NP_001713	P05423	RPC4_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	127					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity				0				Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		GGATAAGACAGTGGATGTGTC	0.453													57	73					0	0	0.00361	0	0		A	22105684	A	A	22105684	3	1	88	1	0	0	0	0	1	0	0	0	12250	1029	36	4	393	4	POLR3D	8	22105684	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	139995	22105684	124258338	85	53739											
NEFM	4741	broad.mit.edu	37	chr8	24772237	24772237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagaacaaggaggccatcCgctccgccaaggaagagatc	14	3	12	12	2	0	2	0	0	0	2	3	5	2	4	4	3	2	2	4	3	4	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:24772237C>T	uc003xed.3	+	1	964	c.931C>T	c.(931-933)CGC>TGC	p.R311C	NEFM_uc011lac.1_Missense_Mutation_p.R311C|NEFM_uc010lue.2_5'Flank|uc010luc.1_5'Flank	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	311	Rod.|Coil 2B.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		GGAGGCCATCCGCTCCGCCAA	0.627													6	49					0	0	0.001168	0	0		T	24772237	T	T	24772237	3	4	88	1	0	0	0	0	1	0	0	0	10335	652	23	1	933	1	NEFM	8	24772237	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	2666553	24772237	121591785	86	53740											
GGH	8836	broad.mit.edu	37	chr8	63942754	63942754	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatttgaaaagtatttcatAgtctttctctgtaagatcca	13	16	6	6	0	3	3	1	1	2	2	5	3	4	3	1	0	0	2	1	0	5	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:63942754A>T	uc003xuw.2	-	3	530	c.247T>A	c.(247-249)TAT>AAT	p.Y83N		NM_003878	NP_003869	Q92820	GGH_HUMAN	gamma-glutamyl hydrolase precursor	83	Gamma-glutamyl hydrolase.				glutamine metabolic process	extracellular space|lysosome|melanosome	gamma-glutamyl-peptidase activity				0	Breast(64;0.0716)	all_cancers(86;0.189)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.131)			Folic Acid(DB00158)|L-Glutamic Acid(DB00142)	AGTATTTCATAGTCTTTCTCT	0.313													8	66					0	0	0.004482	0	0		T	63942754	T	T	63942754	3	4	88	1	0	0	0	0	1	0	0	0	6372	420	15	5	737	5	GGH	8	63942754	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	39170517	63942754	82421268	87	53741											
TTPA	7274	broad.mit.edu	37	chr8	63978606	63978606	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aataagctcggatgtgattaGacttactcgaaatacgtcat	14	12	8	7	3	1	2	1	1	0	1	3	4	1	3	0	1	3	1	0	1	6	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:63978606G>A	uc003xux.1	-	3	441	c.409C>T	c.(409-411)CTA>TTA	p.L137L		NM_000370	NP_000361	P49638	TTPA_HUMAN	tocopherol (alpha) transfer protein	137	CRAL-TRIO.				lipid metabolic process		transporter activity|vitamin E binding				0	Breast(64;0.0716)	all_cancers(86;0.145)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.123)			Vitamin E(DB00163)	GATGTGATTAGACTTACTCGA	0.373													16	51					0	0	0.004007	0	0		A	63978606	A	A	63978606	2	1	88	1	0	0	0	0	0	0	0	1	16762	933	33	4		4	TTPA	8	63978606	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	35852	63978606	82385416	88	53742											
C8orf34	116328	broad.mit.edu	37	chr8	69728144	69728144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgctgatcttcttctttgcGttccatgctcttcttgtcct	2	19	6	14	2	5	1	0	1	5	0	7	1	7	1	3	0	2	3	3	0	0	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:69728144G>A	uc010lyz.2	+	13	1364	c.1315G>A	c.(1315-1317)GTT>ATT	p.V439I	C8orf34_uc003xyb.2_Missense_Mutation_p.V414I	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	439					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			TCTTCTTTGCGTTCCATGCTC	0.448													43	102					0	0	0.00361	0	0		A	69728144	A	A	69728144	3	1	88	1	0	0	0	0	1	0	0	0	2425	1145	40	1	1286	1	C8orf34	8	69728144	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	5749538	69728144	76635878	89	53743											
GDAP1	54332	broad.mit.edu	37	chr8	75263617	75263617	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtttgaactcaactggaGaagtgcctgtccttatccac	9	12	9	11	1	1	2	1	1	0	1	3	3	3	2	3	1	4	1	3	1	4	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:75263617G>T	uc003yah.2	+	2	305	c.226G>T	c.(226-228)GAA>TAA	p.E76*	GDAP1_uc011lfj.1_Intron|GDAP1_uc003yai.2_Nonsense_Mutation_p.E8*	NM_018972	NP_061845	Q8TB36	GDAP1_HUMAN	ganglioside-induced differentiation-associated	76	GST N-terminal.					cytoplasm					0	Breast(64;0.00769)	Myeloproliferative disorder(644;0.0122)	BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.104)|all cancers(69;0.234)			CTCAACTGGAGAAGTGCCTGT	0.438													60	309					4.54978e-40	4.96942e-40	0.00361	1	0		T	75263617	T	T	75263617	4	4	88	1	0	0	0	0	0	1	0	0	6322	943	33	5	232	5	GDAP1	8	75263617	Nonsense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	5535473	75263617	71100405	90	53744											
ZFHX4	79776	broad.mit.edu	37	chr8	77763887	77763887	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaagttttgcaggaagcctCcagtcctgtcccacaagaaa	14	8	8	11	0	0	1	0	0	0	1	3	2	3	2	4	1	2	2	4	1	5	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:77763887C>A	uc003yav.2	+	10	4982	c.4595C>A	c.(4594-4596)TCC>TAC	p.S1532Y	ZFHX4_uc003yau.1_Missense_Mutation_p.S1577Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.S1532Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1532						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CAGGAAGCCTCCAGTCCTGTC	0.418										HNSCC(33;0.089)			5	42					5.9392e-07	6.24449e-07	0.001168	1	0		A	77763887	A	A	77763887	3	1	88	1	0	0	0	0	1	0	0	0	17660	855	30	5	4764	5	ZFHX4	8	77763887	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	2500270	77763887	68600135	91	53745											
GDF6	392255	broad.mit.edu	37	chr8	97156922	97156922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgggcggggtggagcCggggtccatggagttcatca	6	7	19	9	2	2	0	2	0	0	0	3	2	3	2	2	7	2	3	2	7	0	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:97156922C>T	uc003yhp.2	-	2	1337	c.1237G>A	c.(1237-1239)GGC>AGC	p.G413S		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	413					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GGGGTGGAGCCGGGGTCCATG	0.597													14	47					0	0	0.00245	0	0		T	97156922	T	T	97156922	3	4	88	1	0	0	0	0	1	0	0	0	6332	652	23	1	134	1	GDF6	8	97156922	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	19393035	97156922	49207100	92	53746											
SPAG1	6674	broad.mit.edu	37	chr8	101195650	101195650	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaaaactccaagggattaCgcggaatgggataagtatgt	16	8	12	5	2	0	1	0	0	0	1	1	4	1	4	1	3	2	1	1	3	8	3	rs74597335	by1000genomes	TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:101195650C>T	uc003yjh.1	+	5	560	c.474C>T	c.(472-474)TAC>TAT	p.Y158Y	SPAG1_uc003yjg.1_Silent_p.Y158Y|SPAG1_uc003yji.1_Silent_p.Y158Y	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	158					single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		CAAGGGATTACGCGGAATGGG	0.239													6	32					0	0	0.001984	0	0		T	101195650	T	T	101195650	2	4	88	1	0	0	0	0	0	0	0	1	15000	547	19	1		1	SPAG1	8	101195650	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	4038728	101195650	45168372	93	53747											
CSMD3	114788	broad.mit.edu	37	chr8	113353899	113353899	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctgtagaaaaatttacAaactggagatgtacacctga	15	12	8	6	0	1	3	0	1	1	2	1	4	1	3	1	1	3	3	1	1	6	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr8:113353899A>G	uc003ynu.2	-	42	6618	c.6459T>C	c.(6457-6459)TTT>TTC	p.F2153F	CSMD3_uc003yns.2_Silent_p.F1355F|CSMD3_uc003ynt.2_Silent_p.F2113F|CSMD3_uc011lhx.1_Silent_p.F2049F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2153	Extracellular (Potential).|CUB 12.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AAAAATTTACAAACTGGAGAT	0.348										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			8	39					0	0	0.00308	0	0		G	113353899	G	G	113353899	2	3	88	1	0	0	0	0	0	0	0	1	3949	127	5	3		3	CSMD3	8	113353899	Silent	SNP	A	TCGA-BR-8679-01A-11D-2394-08	12158249	113353899	33010123	94	53748											
MPDZ	8777	broad.mit.edu	37	chr9	13119520	13119520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttagcaaagcggcaaccGcttcttgggtggcattacga	9	10	11	11	3	1	0	0	0	1	0	1	1	1	0	2	3	4	4	2	3	4	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr9:13119520G>A	uc010mia.1	-	38	5417	c.5360C>T	c.(5359-5361)GCG>GTG	p.A1787V	MPDZ_uc003zkx.3_Missense_Mutation_p.A52V|MPDZ_uc003zky.3_Missense_Mutation_p.A321V|MPDZ_uc010mib.2_Missense_Mutation_p.A492V|MPDZ_uc010mhx.2_Missense_Mutation_p.A609V|MPDZ_uc011lmm.1_Missense_Mutation_p.A646V|MPDZ_uc003zkz.3_Missense_Mutation_p.A480V|MPDZ_uc010mhy.2_Missense_Mutation_p.A1787V|MPDZ_uc010mhz.2_Missense_Mutation_p.A1754V|MPDZ_uc011lmn.1_Missense_Mutation_p.A1754V|MPDZ_uc003zlb.3_Missense_Mutation_p.A1787V	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1787	PDZ 11.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		AGCGGCAACCGCTTCTTGGGT	0.388													7	112					0	0	0.004482	0	0		A	13119520	A	A	13119520	3	1	88	1	0	0	0	0	1	0	0	0	9740	1087	38	1	797	1	MPDZ	9	13119520	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08		13119520	128093911	95	53749											
FAM75A6	389730	broad.mit.edu	37	chr9	43629308	43629308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctgggcctccgcctccGccctactggacactgggaga	5	7	12	17	2	1	1	0	0	1	1	3	3	3	2	6	3	1	0	6	3	1	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr9:43629308G>A	uc011lrb.1	-	2	231	c.202C>T	c.(202-204)CGG>TGG	p.R68W		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	68	Poly-Arg.					integral to membrane					0						CTCCGCCTCCGCCCTACTGGA	0.542													14	192					0	0	0.004007	0	0		A	43629308	A	A	43629308	3	1	88	1	0	0	0	0	1	0	0	0	5636	1086	38	1	3841	1	FAM75A6	9	43629308	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	30509788	43629308	97584123	96	53750											
CEP78	84131	broad.mit.edu	37	chr9	80851395	80851395	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtctccgggagggcgtgctGgatttcaacgccgaccgcct	5	9	14	13	5	2	0	1	0	1	0	3	3	2	2	4	3	2	1	4	3	1	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr9:80851395G>A	uc004akx.2	+	1	405	c.129G>A	c.(127-129)CTG>CTA	p.L43L	CEP78_uc004aky.3_Silent_p.L43L|CEP78_uc010mpp.2_Silent_p.L43L|CEP78_uc011lsp.1_5'UTR	NM_032171	NP_115547	Q5JTW2	CEP78_HUMAN	centrosomal protein 78kDa isoform b	43					G2/M transition of mitotic cell cycle	centrosome|cytosol				ovary(1)	1						AGGGCGTGCTGGATTTCAACG	0.647													4	11					0	0	0.009096	0	0		A	80851395	A	A	80851395	2	1	88	1	0	0	0	0	0	0	0	1	3265	1335	47	4		4	CEP78	9	80851395	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	37222087	80851395	60362036	97	53751											
FOXE1	2304	broad.mit.edu	37	chr9	100616626	100616626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgagagcggcagcttcctgCgccgccgcaagcgcttcaag	7	6	13	15	6	1	1	1	0	0	1	3	2	2	1	3	1	4	4	3	1	2	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr9:100616626C>T	uc004axu.2	+	1	1090	c.430C>T	c.(430-432)CGC>TGC	p.R144C		NM_004473	NP_004464	O00358	FOXE1_HUMAN	forkhead box E1	144	Fork-head.				cell migration|embryonic organ morphogenesis|hair follicle morphogenesis|hard palate development|lens morphogenesis in camera-type eye|negative regulation of transcription from RNA polymerase II promoter|pattern specification process|peripheral nervous system development|pharynx development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|soft palate development|thymus development|thyroid gland development|thyroid hormone generation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		Acute lymphoblastic leukemia(62;0.158)				CAGCTTCCTGCGCCGCCGCAA	0.562													11	33					0	0	0.001855	0	0		T	100616626	T	T	100616626	3	4	88	1	0	0	0	0	1	0	0	0	6017	768	27	1	432	1	FOXE1	9	100616626	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	19765231	100616626	40596805	98	53752											
TGFBR1	7046	broad.mit.edu	37	chr9	101907101	101907101	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtattgcagacttaggacTggcagtaagacatgattcag	12	11	11	7	0	1	3	1	1	0	2	1	4	1	4	0	2	1	4	0	2	3	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr9:101907101T>C	uc004azc.2	+	6	1137	c.1061T>C	c.(1060-1062)CTG>CCG	p.L354P	TGFBR1_uc004azd.2_Missense_Mutation_p.L277P|TGFBR1_uc011lvc.1_Missense_Mutation_p.L285P	NM_004612	NP_004603	P36897	TGFR1_HUMAN	transforming growth factor, beta receptor I	354	Protein kinase.|Cytoplasmic (Potential).				activation of MAPKK activity|anterior/posterior pattern formation|artery morphogenesis|collagen fibril organization|embryonic cranial skeleton morphogenesis|germ cell migration|heart development|kidney development|neuron fate commitment|palate development|parathyroid gland development|pathway-restricted SMAD protein phosphorylation|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|pharyngeal system development|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of cellular component movement|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of SMAD protein import into nucleus|positive regulation of survival gene product expression|positive regulation of transcription, DNA-dependent|response to cholesterol|thymus development|transforming growth factor beta receptor signaling pathway		ATP binding|I-SMAD binding|metal ion binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type I|type II transforming growth factor beta receptor binding			lung(2)|ovary(1)	3		Acute lymphoblastic leukemia(62;0.0559)				GACTTAGGACTGGCAGTAAGA	0.358													6	37					0	0	0.001168	0	0		C	101907101	C	C	101907101	3	2	88	1	0	0	0	0	1	0	0	0	15846	1580	55	3	1083	3	TGFBR1	9	101907101	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	1290475	101907101	39306330	99	53753											
SVEP1	79987	broad.mit.edu	37	chr9	113194198	113194199	+	Frame_Shift_Del	DEL	CA	-	-																															ctacatatattggttacctgCacagtttttcccatctcctg																										TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr9:113194198_113194199delCA	uc010mtz.2	-	32	5686_5687	c.5349_5350delTG	c.(5347-5352)TGTGCAfs	p.C1783fs	SVEP1_uc010mty.2_5'Flank	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1783_1784	EGF-like 7; calcium-binding (Potential).				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TGGTTACCTGCACAGTTTTTCC	0.361													38	28	---	---	---	---						.	-	113194199	-	-	113194198	7	5	88	1	0	1	0	1	0	0	0	0	15445	710	25	0	5433	0	SVEP1	9	113194198	Frame_Shift_Del	DEL	CA	TCGA-BR-8679-01A-11D-2394-08	11287097	113194198	28019233	100	53754											
TLR4	7099	broad.mit.edu	37	chr9	120475713	120475713	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcattccaatttgaaacAaatgagtgagttttcagtat	14	13	7	7	0	1	3	1	3	0	0	2	3	2	3	2	0	2	3	2	0	4	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr9:120475713A>G	uc004bjz.2	+	3	1598	c.1307A>G	c.(1306-1308)CAA>CGA	p.Q436R	TLR4_uc004bka.2_Missense_Mutation_p.Q396R|TLR4_uc004bkb.2_Missense_Mutation_p.Q236R	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	436	LRR 13.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						AATTTGAAACAAATGAGTGAG	0.373													40	21					0	0	0.006999	0	0		G	120475713	G	G	120475713	3	3	88	1	0	0	0	0	1	0	0	0	15978	130	5	3	1317	3	TLR4	9	120475713	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	7281515	120475713	20737718	101	53755											
ADARB2	105	broad.mit.edu	37	chr10	1405717	1405717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggtgcgcctggcaggCgttggggaactgcacgaagg	7	5	19	10	3	0	0	0	0	0	0	0	2	0	1	2	7	3	3	2	7	2	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr10:1405717C>T	uc009xhq.2	-	3	957	c.583G>A	c.(583-585)GCC>ACC	p.A195T		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	195					mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		GCCTGGCAGGCGTTGGGGAAC	0.577													5	15					0	0	0.000602	0	0		T	1405717	T	T	1405717	3	4	88	1	0	0	0	0	1	0	0	0	283	768	27	1	1668	1	ADARB2	10	1405717	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08		1405717	134129030	102	53756											
GDI2	2665	broad.mit.edu	37	chr10	5808111	5808111	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcatatgtgcgggaaataAagatctgaaaacaaaaatta	20	9	7	5	1	2	2	1	1	1	1	2	3	2	3	0	1	2	0	0	1	9	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr10:5808111A>C	uc001iil.3	-	11	1487	c.1196T>G	c.(1195-1197)TTT>TGT	p.F399C	GDI2_uc001iim.3_Missense_Mutation_p.F354C|GDI2_uc009xid.2_Missense_Mutation_p.F403C	NM_001494	NP_001485	P50395	GDIB_HUMAN	GDP dissociation inhibitor 2 isoform 1	399					protein transport|small GTPase mediated signal transduction	cell surface|cytosol|membrane	protein binding|Rab GDP-dissociation inhibitor activity				0						GCGGGAAATAAAGATCTGAAA	0.403													13	89					0	0	0.001368	0	0		C	5808111	C	C	5808111	3	2	88	1	0	0	0	0	1	0	0	0	6336	14	1	5	145	5	GDI2	10	5808111	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	4402394	5808111	129726636	103	53757											
CUL2	8453	broad.mit.edu	37	chr10	35300856	35300856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcttggagatacattttccGgtcctcatcaactgcacttc	9	13	7	12	1	2	1	2	0	0	1	5	2	4	1	2	2	4	2	2	2	2	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr10:35300856G>A	uc001ixv.2	-	20	2236	c.2026C>T	c.(2026-2028)CGG>TGG	p.R676W	CUL2_uc009xma.2_Missense_Mutation_p.R545W|CUL2_uc010qer.1_Missense_Mutation_p.R695W|CUL2_uc001ixw.2_Missense_Mutation_p.R676W	NM_003591	NP_003582	Q13617	CUL2_HUMAN	cullin 2	676					cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding			ovary(3)	3						TACATTTTCCGGTCCTCATCA	0.413													20	8					0	0	0.007413	0	0		A	35300856	A	A	35300856	3	1	88	1	0	0	0	0	1	0	0	0	4058	1115	39	1	219	1	CUL2	10	35300856	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	29492745	35300856	100233891	104	53758											
RBP3	5949	broad.mit.edu	37	chr10	48390215	48390215	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accacatccttgtcggcaccGtacctttctcccaggacctg	7	10	7	17	2	1	0	0	0	1	0	4	1	2	1	6	2	1	2	6	2	1	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr10:48390215G>A	uc001jez.2	-	1	777	c.663C>T	c.(661-663)TAC>TAT	p.Y221Y		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	221	4 X approximate tandem repeats.|1.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	TGTCGGCACCGTACCTTTCTC	0.622													10	51					0	0	0.006214	0	0		A	48390215	A	A	48390215	2	1	88	1	0	0	0	0	0	0	0	1	13182	1140	40	1		1	RBP3	10	48390215	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	13089359	48390215	87144532	105	53759											
CTNNA3	29119	broad.mit.edu	37	chr10	68138997	68138997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catttcacccgtgacgatgtGagcaactcttgctgcccggc	7	10	10	14	3	2	2	1	2	1	0	2	3	2	2	2	1	4	2	2	1	1	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr10:68138997G>A	uc009xpn.1	-	12	1768	c.1645C>T	c.(1645-1647)CAC>TAC	p.H549Y	CTNNA3_uc001jmw.2_Missense_Mutation_p.H549Y	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	549					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						GTGACGATGTGAGCAACTCTT	0.483													27	112					0	0	0.008361	0	0		A	68138997	A	A	68138997	3	1	88	1	0	0	0	0	1	0	0	0	4017	1290	45	4	1070	4	CTNNA3	10	68138997	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	19748782	68138997	67395750	106	53760											
PDDC1	347862	broad.mit.edu	37	chr11	771346	771346	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcaccactgaagcaggcGcccgaatccttcacgaagtc	10	6	10	15	3	2	1	2	1	0	0	4	3	3	1	3	2	1	2	3	2	3	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr11:771346G>A	uc001lrc.2	-	6	556	c.531C>T	c.(529-531)GGC>GGT	p.G177G	PDDC1_uc010qwm.1_Silent_p.G127G|PDDC1_uc001lrd.2_Silent_p.G177G|PDDC1_uc001lrf.1_3'UTR|PDDC1_uc001lrg.1_RNA|PDDC1_uc009ycg.2_Silent_p.G127G|PDDC1_uc010qwn.1_RNA|PDDC1_uc010qwo.1_RNA|PDDC1_uc010qwp.1_Silent_p.G141G|PDDC1_uc010qwq.1_Silent_p.G91G|PDDC1_uc010qwr.1_Silent_p.G177G|PDDC1_uc010qws.1_Silent_p.G127G	NM_182612	NP_872418	Q8NB37	PDDC1_HUMAN	Parkinson disease 7 domain containing 1	177						extracellular region					0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;3.66e-26)|Epithelial(43;2.43e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-19)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGAAGCAGGCGCCCGAATCCT	0.701													18	16					0	0	0.010504	0	0		A	771346	A	A	771346	2	1	88	1	0	0	0	0	0	0	0	1	11648	1074	38	1		1	PDDC1	11	771346	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08		771346	134235170	107	53761											
EIF3F	8665	broad.mit.edu	37	chr11	8009016	8009016	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggctgcggctccggttccCgctgcggctccagcctcatc	2	8	12	19	5	1	0	1	0	0	0	5	0	4	0	5	4	3	5	5	4	0	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr11:8009016C>T	uc001mfw.2	+	1	150	c.117C>T	c.(115-117)CCC>CCT	p.P39P	EIF3F_uc010rbj.1_5'UTR	NM_003754	NP_003745	O00303	EIF3F_HUMAN	eukaryotic translation initiation factor 3,	39						cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(1)	1				Epithelial(150;1.44e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ctccggttcccgctgcggctc	0.338											OREG0020726	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	66					0	0	0.001855	0	0		T	8009016	T	T	8009016	2	4	88	1	0	0	0	0	0	0	0	1	5024	639	23	1		1	EIF3F	11	8009016	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	7237670	8009016	126997500	108	53762											
SLC22A11	55867	broad.mit.edu	37	chr11	64329769	64329769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccacgaccagcaggagggCggtcaccatgacggtggtgg	9	4	17	11	3	1	1	1	1	0	0	1	4	1	2	3	6	1	1	3	6	0	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr11:64329769C>T	uc001oai.2	+	4	1057	c.683C>T	c.(682-684)GCG>GTG	p.A228V	SLC22A11_uc001oah.1_Silent_p.G193G|SLC22A11_uc001oaj.2_Missense_Mutation_p.A228V|SLC22A11_uc009ypq.2_Missense_Mutation_p.A228V|SLC22A11_uc001oak.1_Missense_Mutation_p.A57V	NM_018484	NP_060954	Q9NSA0	S22AB_HUMAN	solute carrier family 22 member 11	228	Cytoplasmic (Potential).				urate metabolic process	apical plasma membrane|external side of plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium-independent organic anion transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2					Probenecid(DB01032)	AGCAGGAGGGCGGTCACCATG	0.682													108	49					0	0	0.00361	0	0		T	64329769	T	T	64329769	3	4	88	1	0	0	0	0	1	0	0	0	14467	768	27	1	697	1	SLC22A11	11	64329769	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	56320753	64329769	70676747	109	53763											
EFEMP2	30008	broad.mit.edu	37	chr11	65634395	65634395	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccctcctgctcctcagaaGgtgtaggcccctacaaagac	9	8	8	16	0	1	2	1	0	0	2	4	2	4	2	5	2	2	2	5	2	4	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr11:65634395G>A	uc001ofy.3	-	11	1520	c.1326C>T	c.(1324-1326)ACC>ACT	p.T442T	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Intron	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	442					blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		CTCCTCAGAAGGTGTAGGCCC	0.567													11	44					0	0	0.000978	0	0		A	65634395	A	A	65634395	2	1	88	1	0	0	0	0	0	0	0	1	4948	987	35	4		4	EFEMP2	11	65634395	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	1304626	65634395	69372121	110	53764											
FAM181B	220382	broad.mit.edu	37	chr11	82444684	82444684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcccttgtccagggctcCgaaggcgccccctagcccgt	5	6	12	18	3	0	0	0	0	0	0	2	1	2	0	6	2	2	2	6	2	2	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr11:82444684C>T	uc001ozp.2	-	1	223	c.88G>A	c.(88-90)GGA>AGA	p.G30R		NM_175885	NP_787081	A6NEQ2	F181B_HUMAN	hypothetical protein LOC220382	30										large_intestine(1)	1						TCCAGGGCTCCGAAGGCGCCC	0.736													5	15					0	0	0.001168	0	0		T	82444684	T	T	82444684	3	4	88	1	0	0	0	0	1	0	0	0	5520	661	23	1	1196	1	FAM181B	11	82444684	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	16810289	82444684	52561832	111	53765											
OR10G9	219870	broad.mit.edu	37	chr11	123894260	123894260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcactatttgtgtgatgcaCcgcccatcctgaaactggcc	9	10	9	13	1	0	2	0	2	0	0	1	2	1	2	4	1	3	2	4	1	2	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr11:123894260C>T	uc010sad.1	+	1	541	c.541C>T	c.(541-543)CCG>TCG	p.P181S		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GTGTGATGCACCGCCCATCCT	0.532													72	347					0	0	0.00361	0	0		T	123894260	T	T	123894260	3	4	88	1	0	0	0	0	1	0	0	0	10923	507	18	4	543	4	OR10G9	11	123894260	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	41449576	123894260	11112256	112	53766											
PARP11	57097	broad.mit.edu	37	chr12	3931156	3931156	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatattcatgtgtttgattgTgcagaggaataagctggaaa	13	14	11	3	0	1	2	1	1	0	1	1	4	1	4	0	2	2	3	0	2	5	6			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr12:3931156T>C	uc001qmk.1	-	5	465	c.410A>G	c.(409-411)CAC>CGC	p.H137R	PARP11_uc001qml.2_Missense_Mutation_p.H144R|PARP11_uc009zef.2_RNA|PARP11_uc001qmm.2_Missense_Mutation_p.H63R|PARP11_uc001qmn.2_Missense_Mutation_p.H63R	NM_020367	NP_065100	Q9NR21	PAR11_HUMAN	poly (ADP-ribose) polymerase family, member 11	137	PARP catalytic.						NAD+ ADP-ribosyltransferase activity			ovary(1)|central_nervous_system(1)	2			all cancers(3;1.58e-07)|OV - Ovarian serous cystadenocarcinoma(31;0.00287)|GBM - Glioblastoma multiforme(3;0.0141)|COAD - Colon adenocarcinoma(12;0.0264)			TGTTTGATTGTGCAGAGGAAT	0.348													29	44					0	0	0.009535	0	0		C	3931156	C	C	3931156	3	2	88	1	0	0	0	0	1	0	0	0	11475	1696	59	3	597	3	PARP11	12	3931156	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08		3931156	129920739	113	53767											
KRAS	3845	broad.mit.edu	37	chr12	25398285	25398285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactcttgcctacgccacCagctccaactaccacaagtt	10	8	6	17	1	1	0	0	0	1	0	2	0	2	0	5	1	5	3	5	1	4	4	rs121913530		TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr12:25398285C>T	uc001rgp.1	-	2	215	c.34G>A	c.(34-36)GGT>AGT	p.G12S	KRAS_uc001rgq.1_Missense_Mutation_p.G12S|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12G(6)|p.G12N(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CCTACGCCACCAGCTCCAACT	0.348	G12C(UMUC3_URINARY_TRACT)|G12R(CAL62_THYROID)|G12C(CALU1_LUNG)|G12C(NCIH2030_LUNG)|G12C(LU99_LUNG)|G12C(NCIH1792_LUNG)|G12R(KP2_PANCREAS)|G12C(KHM1B_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12C(NCIH2122_LUNG)|G12C(NCIH358_LUNG)|G12R(PSN1_PANCREAS)|G12C(KYSE410_OESOPHAGUS)|G12S(A549_LUNG)|G12R(HUPT3_PANCREAS)|G12R(TCCPAN2_PANCREAS)|G12C(HCC44_LUNG)|G12S(KMS20_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12C(SW1463_LARGE_INTESTINE)|G12C(NCIH23_LUNG)|G12C(LU65_LUNG)|G12C(NCIH1373_LUNG)|G12C(MIAPACA2_PANCREAS)|G12R(HS274T_BREAST)|G12S(LS123_LARGE_INTESTINE)|G12C(SW1573_LUNG)|G12C(SW837_LARGE_INTESTINE)|G12C(OV56_OVARY)|G12C(IALM_LUNG)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			17	278					0	0	0.008871	0	0		T	25398285	T	T	25398285	3	4	88	1	0	0	0	0	1	0	0	0	8454	594	21	4	672	4	KRAS	12	25398285	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	21467129	25398285	108453610	114	53768											
C12orf40	283461	broad.mit.edu	37	chr12	40077228	40077228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttaagaaaaatttgaaAatgattaccaagagaagaca	20	12	6	3	0	0	5	0	2	0	3	0	6	0	5	1	0	1	0	1	0	8	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr12:40077228A>G	uc001rmc.2	+	9	1395	c.1228A>G	c.(1228-1230)AAT>GAT	p.N410D	C12orf40_uc009zjv.1_RNA	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	410										ovary(6)	6						AAAATTTGAAAATGATTACCA	0.289													6	25					0	0	0.001984	0	0		G	40077228	G	G	40077228	3	3	88	1	0	0	0	0	1	0	0	0	1689	14	1	3	1262	3	C12orf40	12	40077228	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	14678943	40077228	93774667	115	53769											
SDR9C7	121214	broad.mit.edu	37	chr12	57324037	57324037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcagagaaggcctcaacgCcaaacttggagacgcagtag	13	6	12	10	2	2	2	2	0	0	2	2	4	2	2	2	2	2	2	2	2	4	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr12:57324037C>T	uc010sqw.1	-	2	533	c.533G>A	c.(532-534)GGC>GAC	p.G178D		NM_148897	NP_683695	Q8NEX9	DR9C7_HUMAN	short chain dehydrogenase/reductase family 9C,	178						cytoplasm	binding|oxidoreductase activity			central_nervous_system(1)	1						GGCCTCAACGCCAAACTTGGA	0.547													25	117					0	0	0.003954	0	0		T	57324037	T	T	57324037	3	4	88	1	0	0	0	0	1	0	0	0	13999	739	26	2	420	2	SDR9C7	12	57324037	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	17246809	57324037	76527858	116	53770											
ZFC3H1	196441	broad.mit.edu	37	chr12	72036243	72036243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	actggtttcactatctgtatCcatagcaacttcttcatagt	10	16	5	10	0	4	0	2	0	2	0	5	0	5	0	1	1	2	3	1	1	5	7			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr12:72036243C>T	uc001swo.2	-	6	1959	c.1600G>A	c.(1600-1602)GAT>AAT	p.D534N		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	534					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						CTATCTGTATCCATAGCAACT	0.368													61	66					0	0	0.00361	0	0		T	72036243	T	T	72036243	3	4	88	1	0	0	0	0	1	0	0	0	17658	855	30	4	4489	4	ZFC3H1	12	72036243	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	14712206	72036243	61815652	117	53771											
FGD6	55785	broad.mit.edu	37	chr12	95502125	95502125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaatgtaaaatgcttaccCgaccaggctgcacaatttca	14	9	7	11	1	1	0	1	0	0	0	1	1	1	0	2	1	4	5	2	1	5	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr12:95502125C>T	uc001tdp.3	-	11	3487	c.3263G>A	c.(3262-3264)CGG>CAG	p.R1088Q	FGD6_uc009zsx.2_Missense_Mutation_p.R221Q|FGD6_uc001tdq.1_Missense_Mutation_p.R124Q	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	1088					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						AATGCTTACCCGACCAGGCTG	0.343													16	27					0	0	0.003163	0	0		T	95502125	T	T	95502125	3	4	88	1	0	0	0	0	1	0	0	0	5851	666	23	1	1073	1	FGD6	12	95502125	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	23465882	95502125	38349770	118	53772											
C12orf49	79794	broad.mit.edu	37	chr12	117157596	117157596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcctgcatttggccaggCacaactcaaagtgatcttcg	10	10	10	11	1	2	1	1	1	1	0	4	1	3	1	2	3	2	2	2	3	2	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr12:117157596C>T	uc001tvz.1	-	4	644	c.506G>A	c.(505-507)TGC>TAC	p.C169Y	C12orf49_uc009zwm.1_Missense_Mutation_p.C139Y	NM_024738	NP_079014	Q9H741	CL049_HUMAN	hypothetical protein LOC79794 precursor	169						extracellular region				ovary(1)	1	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0281)		TTTGGCCAGGCACAACTCAAA	0.507													22	42					0	0	0.001882	0	0		T	117157596	T	T	117157596	3	4	88	1	0	0	0	0	1	0	0	0	1696	710	25	2	119	2	C12orf49	12	117157596	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	21655471	117157596	16694299	119	53773											
TAOK3	51347	broad.mit.edu	37	chr12	118598020	118598020	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaatggcaagttttcttgtCtgctcatctttcagtgtctt	8	18	7	8	0	6	0	2	0	4	0	6	0	6	0	0	1	1	3	0	1	3	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr12:118598020C>T	uc001twx.2	-	19	2578	c.2283G>A	c.(2281-2283)CAG>CAA	p.Q761Q	TAOK3_uc001twv.2_Silent_p.Q301Q|TAOK3_uc001tww.2_Silent_p.Q591Q|TAOK3_uc001twy.3_Silent_p.Q761Q	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	761	Potential.				MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GTTTTCTTGTCTGCTCATCTT	0.413													11	93					0	0	0.008291	0	0		T	118598020	T	T	118598020	2	4	88	1	0	0	0	0	0	0	0	1	15574	912	32	4		4	TAOK3	12	118598020	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	1440424	118598020	15253875	120	53774											
GCN1L1	10985	broad.mit.edu	37	chr12	120613607	120613607	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggccgaagagtcactgcaCtggcgtgccaggttccgcag	8	7	14	12	3	1	1	1	0	0	1	2	2	2	1	3	3	2	3	3	3	1	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr12:120613607C>T	uc001txo.2	-	11	997	c.984G>A	c.(982-984)CAG>CAA	p.Q328Q		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	328	HEAT 2.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AGTCACTGCACTGGCGTGCCA	0.582													8	34					0	0	0.00308	0	0		T	120613607	T	T	120613607	2	4	88	1	0	0	0	0	0	0	0	1	6314	564	20	4		4	GCN1L1	12	120613607	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	2015587	120613607	13238288	121	53775											
LRRC43	254050	broad.mit.edu	37	chr12	122684793	122684793	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggtcatcccctgcagttaCgagatgcagcactctctcag	9	9	10	13	1	3	1	2	0	1	1	5	3	4	1	2	1	4	4	2	1	1	1	rs141017122	by1000genomes	TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr12:122684793C>T	uc009zxm.2	+	8	1432	c.1407C>T	c.(1405-1407)TAC>TAT	p.Y469Y	LRRC43_uc001ubw.3_Silent_p.Y284Y|LRRC43_uc009zxn.2_Silent_p.Y230Y	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	469											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		CCTGCAGTTACGAGATGCAGC	0.652													24	104					0	0	0.00278	0	0		T	122684793	T	T	122684793	2	4	88	1	0	0	0	0	0	0	0	1	9019	547	19	1		1	LRRC43	12	122684793	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	2071186	122684793	11167102	122	53776											
ULK1	8408	broad.mit.edu	37	chr12	132403121	132403121	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaggccccagcccctgagctCcctgctccaggacacggctg	6	5	12	18	1	0	1	0	1	0	0	2	3	2	2	6	3	3	3	6	3	0	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr12:132403121C>T	uc001uje.2	+	23	2674	c.2406C>T	c.(2404-2406)CTC>CTT	p.L802L		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	802					autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		CCCCTGAGCTCCCTGCTCCAG	0.697													4	20					0	0	0.009096	0	0		T	132403121	T	T	132403121	2	4	88	1	0	0	0	0	0	0	0	1	17001	842	30	4		4	ULK1	12	132403121	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	9718328	132403121	1448774	123	53777											
SACS	26278	broad.mit.edu	37	chr13	23905259	23905259	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcactgtccctgctttgAgagctttcctcaggtcttga	6	13	11	11	0	2	2	1	2	1	1	4	4	4	3	2	2	3	3	2	2	0	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr13:23905259A>G	uc001uon.2	-	10	13345	c.12756T>C	c.(12754-12756)TCT>TCC	p.S4252S	SACS_uc001uoo.2_Silent_p.S4105S|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	4252					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding	p.T4252S(1)		ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CCCTGCTTTGAGAGCTTTCCT	0.433													18	48					0	0	0.006122	0	0		G	23905259	G	G	23905259	2	3	88	1	0	0	0	0	0	0	0	1	13829	291	11	3		3	SACS	13	23905259	Silent	SNP	A	TCGA-BR-8679-01A-11D-2394-08		23905259	91264619	124	53778											
MTUS2	23281	broad.mit.edu	37	chr13	29855958	29855958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccagtgtgacagcaccccGcaggagtttacttccagcgc	8	8	10	15	2	0	1	0	1	0	0	2	2	2	2	4	1	3	3	4	1	1	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr13:29855958G>A	uc001usl.3	+	4	2850	c.2792G>A	c.(2791-2793)CGC>CAC	p.R931H		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	921	Localization to the growing distal tip of microtubules.|Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						ACAGCACCCCGCAGGAGTTTA	0.572													14	100					0	0	0.00245	0	0		A	29855958	A	A	29855958	3	1	88	1	0	0	0	0	1	0	0	0	9984	1087	38	1	2806	1	MTUS2	13	29855958	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	5950699	29855958	85313920	125	53779											
TNFSF11	8600	broad.mit.edu	37	chr13	43175104	43175104	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catctcactattaatgccacCgacatcccatctggtaagct	11	11	5	14	1	2	0	1	0	2	0	4	1	3	0	3	1	2	2	3	1	3	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr13:43175104C>T	uc001uyu.2	+	4	668	c.519C>T	c.(517-519)ACC>ACT	p.T173T	TNFSF11_uc001uyt.2_Silent_p.T100T	NM_003701	NP_003692	O14788	TNF11_HUMAN	tumor necrosis factor ligand superfamily, member	173	Extracellular (Potential).				immune response|monocyte chemotaxis|osteoclast differentiation|positive regulation of bone resorption|positive regulation of corticotropin-releasing hormone secretion|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of homotypic cell-cell adhesion|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell activation	cytoplasm|extracellular space|integral to plasma membrane	cytokine activity|receptor activity|tumor necrosis factor receptor binding				0		Lung NSC(96;1.11e-05)|Breast(139;0.00868)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000249)|GBM - Glioblastoma multiforme(144;0.00119)|BRCA - Breast invasive adenocarcinoma(63;0.073)		TTAATGCCACCGACATCCCAT	0.433													67	58					0	0	0.00361	0	0		T	43175104	T	T	43175104	2	4	88	1	0	0	0	0	0	0	0	1	16327	639	23	1		1	TNFSF11	13	43175104	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	13319146	43175104	71994774	126	53780											
AP1G2	8906	broad.mit.edu	37	chr14	24033828	24033828	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtactgtctcaaacaggacCgcatttccggcatttcggct	9	11	9	12	3	1	0	1	0	1	0	4	1	2	1	2	3	2	4	2	3	2	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr14:24033828C>A	uc001wkl.2	-	9	1201	c.864G>T	c.(862-864)GCG>GCT	p.A288A	AP1G2_uc001wkj.2_5'UTR|AP1G2_uc001wkk.3_Silent_p.A216A|AP1G2_uc001wkn.2_5'UTR|uc001wko.1_Intron|AP1G2_uc001wkp.1_RNA|AP1G2_uc010tnp.1_Silent_p.A288A	NM_003917	NP_003908	O75843	AP1G2_HUMAN	adaptor-related protein complex 1, gamma 2	288					interspecies interaction between organisms|intracellular protein transport|vesicle-mediated transport	AP-1 adaptor complex|endosome membrane	protein binding|protein transporter activity			ovary(1)	1	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)		CAAACAGGACCGCATTTCCGG	0.547													12	77					0.00185496	0.00188002	0.001855	1	0		A	24033828	A	A	24033828	2	1	88	1	0	0	0	0	0	0	0	1	733	639	23	5		5	AP1G2	14	24033828	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08		24033828	83315712	127	53781											
ARHGAP5	394	broad.mit.edu	37	chr14	32561145	32561149	+	Frame_Shift_Del	DEL	GAGAA	-	-																															atgtacagcatctgatatccGagaagaggagggtggaaatg																										TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr14:32561145_32561149delGAGAA	uc001wrl.2	+	2	1509_1513	c.1270_1274delGAGAA	c.(1270-1275)GAGAAGfs	p.E424fs	ARHGAP5_uc001wrm.2_Frame_Shift_Del_p.E424fs|ARHGAP5_uc001wrn.2_Frame_Shift_Del_p.E424fs|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	424_425					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		TCTGATATCCGAGAAGAGGAGGGTG	0.39													41	44	---	---	---	---						.	-	32561149	-	-	32561145	7	5	88	1	0	1	0	1	0	0	0	0	886	1059	37	0	1272	0	ARHGAP5	14	32561145	Frame_Shift_Del	DEL	GAGAA	TCGA-BR-8679-01A-11D-2394-08	8527317	32561145	74788395	128	53782											
SPATA7	55812	broad.mit.edu	37	chr14	88904415	88904415	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccaaaggatgagaacgaGatattcccttcaccaactga	15	7	8	11	1	1	3	1	2	0	2	2	6	2	4	3	1	2	1	3	1	4	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr14:88904415G>T	uc001xwq.2	+	12	1600	c.1449G>T	c.(1447-1449)GAG>GAT	p.E483D	SPATA7_uc001xwr.2_Missense_Mutation_p.E451D|SPATA7_uc001xws.2_Missense_Mutation_p.E419D|SPATA7_uc001xwt.2_Missense_Mutation_p.E377D|SPATA7_uc001xwu.2_Intron	NM_018418	NP_060888	Q9P0W8	SPAT7_HUMAN	spermatogenesis-associated protein 7 isoform a	483					response to stimulus|visual perception					ovary(1)	1						ATGAGAACGAGATATTCCCTT	0.338													37	21					2.09667e-21	2.26803e-21	0.003755	1	0		T	88904415	T	T	88904415	3	4	88	1	0	0	0	0	1	0	0	0	15039	933	33	5	1495	5	SPATA7	14	88904415	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	56343270	88904415	18445125	129	53783											
GPR68	8111	broad.mit.edu	37	chr14	91700984	91700984	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacgctgacgccgacggcCgccttcagggtccggaactg	7	5	13	16	6	1	1	1	1	0	0	2	3	2	2	5	3	1	1	5	3	1	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr14:91700984C>T	uc001xzg.2	-	2	752	c.411G>A	c.(409-411)GCG>GCA	p.A137A	GPR68_uc001xzh.2_Silent_p.A147A	NM_003485	NP_003476	Q15743	OGR1_HUMAN	G protein-coupled receptor 68	137	Helical; Name=4; (Potential).				inflammatory response	integral to plasma membrane	G-protein coupled receptor activity			kidney(1)	1		all_cancers(154;0.0555)		COAD - Colon adenocarcinoma(157;0.21)		CGCCGACGGCCGCCTTCAGGG	0.627													24	11					0	0	0.004656	0	0		T	91700984	T	T	91700984	2	4	88	1	0	0	0	0	0	0	0	1	6722	639	23	1		1	GPR68	14	91700984	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	2796569	91700984	15648556	130	53784											
SLC24A4	123041	broad.mit.edu	37	chr14	92949146	92949146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggtcaccttcatcaccGccacgctgtggatcgctgtg	6	11	10	14	3	4	0	4	0	0	0	5	1	4	1	3	2	0	2	3	2	0	1	rs138016047		TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr14:92949146G>A	uc001yak.2	+	13	1351	c.1327G>A	c.(1327-1329)GCC>ACC	p.A443T	SLC24A4_uc001yai.2_Missense_Mutation_p.A396T|SLC24A4_uc010twm.1_Missense_Mutation_p.A441T|SLC24A4_uc001yaj.2_Missense_Mutation_p.A424T|SLC24A4_uc010auj.2_Missense_Mutation_p.A332T|SLC24A4_uc010twn.1_Missense_Mutation_p.A216T|SLC24A4_uc001yan.2_Missense_Mutation_p.A154T	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	460	Helical; (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		CTTCATCACCGCCACGCTGTG	0.522													20	91					0	0	0.008871	0	0		A	92949146	A	A	92949146	3	1	88	1	0	0	0	0	1	0	0	0	14493	1087	38	1	1377	1	SLC24A4	14	92949146	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	1248162	92949146	14400394	131	53785											
PPP2R5C	5527	broad.mit.edu	37	chr14	102349794	102349794	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctctttgacagtgaagAtcctcgggagagagattttc	11	11	12	7	1	1	6	0	2	1	4	4	8	2	6	1	1	1	1	1	1	1	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr14:102349794A>T	uc001yko.2	+	5	664	c.524A>T	c.(523-525)GAT>GTT	p.D175V	PPP2R5C_uc010txr.1_Missense_Mutation_p.D206V|PPP2R5C_uc001ykk.2_Missense_Mutation_p.D230V|PPP2R5C_uc010txt.1_Missense_Mutation_p.D165V|PPP2R5C_uc001ykn.2_Missense_Mutation_p.D175V|PPP2R5C_uc001ykp.2_Missense_Mutation_p.D175V|PPP2R5C_uc001ykq.2_Missense_Mutation_p.D73V|uc001ykr.1_5'Flank	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	175					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						GACAGTGAAGATCCTCGGGAG	0.388													29	85					0	0	0.005443	0	0		T	102349794	T	T	102349794	3	4	88	1	0	0	0	0	1	0	0	0	12416	333	12	5	911	5	PPP2R5C	14	102349794	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	9400648	102349794	4999746	132	53786											
RYR3	6263	broad.mit.edu	37	chr15	34072507	34072507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taatcgctacaatccactctCggtcttcaacaccaaaaccc	13	9	3	16	2	3	0	1	0	2	0	6	0	4	0	3	1	3	1	3	1	6	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr15:34072507C>T	uc001zhi.2	+	65	9303	c.9233C>T	c.(9232-9234)TCG>TTG	p.S3078L	RYR3_uc010bar.2_Missense_Mutation_p.S3078L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3078					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AATCCACTCTCGGTCTTCAAC	0.557													32	11					0	0	0.002445	0	0		T	34072507	T	T	34072507	3	4	88	1	0	0	0	0	1	0	0	0	13795	893	31	1	9491	1	RYR3	15	34072507	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08		34072507	68458885	133	53787											
PML	5371	broad.mit.edu	37	chr15	74315474	74315474	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctggaggctgtggacgCgcggtaccagcgcgactacg	6	6	17	12	6	0	0	0	0	0	0	0	3	0	2	1	4	4	4	1	4	2	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr15:74315474C>T	uc002awv.2	+	3	1048	c.908C>T	c.(907-909)GCG>GTG	p.A303V	PML_uc002awm.2_Missense_Mutation_p.A303V|PML_uc002awl.2_Missense_Mutation_p.A303V|PML_uc002awj.1_Missense_Mutation_p.A303V|PML_uc002awk.2_Missense_Mutation_p.A303V|PML_uc002awn.2_Missense_Mutation_p.A303V|PML_uc002awo.2_Missense_Mutation_p.A303V|PML_uc002awp.2_Missense_Mutation_p.A303V|PML_uc002awq.2_Missense_Mutation_p.A303V|PML_uc002awr.2_Missense_Mutation_p.A303V|PML_uc002aws.2_Missense_Mutation_p.A303V|PML_uc002awt.2_Missense_Mutation_p.A303V|PML_uc002awu.2_Missense_Mutation_p.A303V|PML_uc010ule.1_Intron|PML_uc002aww.1_Missense_Mutation_p.A218V|PML_uc002awx.2_Missense_Mutation_p.A61V|PML_uc002awy.2_5'Flank	NM_033238	NP_150241	P29590	PML_HUMAN	promyelocytic leukemia protein isoform 1	303					cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction resulting in induction of apoptosis|endoplasmic reticulum calcium ion homeostasis|induction of apoptosis|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|maintenance of protein location in nucleus|negative regulation of angiogenesis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of mitotic cell cycle|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of telomerase activity|negative regulation of telomere maintenance via telomerase|negative regulation of transcription, DNA-dependent|negative regulation of translation in response to oxidative stress|PML body organization|PML body organization|positive regulation of defense response to virus by host|positive regulation of histone deacetylation|protein complex assembly|protein stabilization|protein targeting|regulation of calcium ion transport into cytosol|regulation of protein phosphorylation|response to hypoxia|response to virus|transcription, DNA-dependent	cytoplasm|cytosol|early endosome membrane|extrinsic to endoplasmic reticulum membrane|insoluble fraction|nuclear matrix|nuclear membrane|nucleolus|nucleus|PML body	cobalt ion binding|DNA binding|protein binding|protein binding|protein heterodimerization activity|protein homodimerization activity|SUMO binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding|zinc ion binding			central_nervous_system(2)|kidney(2)|breast(1)	5						GCTGTGGACGCGCGGTACCAG	0.716			T	RARA|PAX5	APL|ALL								33	18					0	0	0.002096	0	0		T	74315474	T	T	74315474	3	4	88	1	0	0	0	0	1	0	0	0	12154	768	27	1	918	1	PML	15	74315474	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	40242967	74315474	28215918	134	53788											
ADAMTS17	170691	broad.mit.edu	37	chr15	100657064	100657064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttaccgtcaaccaccaCggctgtcagcaggcctttct	7	10	8	16	2	3	0	2	0	1	0	3	0	3	0	5	2	3	2	5	2	2	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr15:100657064C>T	uc002bvv.1	-	13	1955	c.1876G>A	c.(1876-1878)GTG>ATG	p.V626M	ADAMTS17_uc002bvx.1_Missense_Mutation_p.V383M	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	626	Cys-rich.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		TCAACCACCACGGCTGTCAGC	0.612													12	62					0	0	0.001368	0	0		T	100657064	T	T	100657064	3	4	88	1	0	0	0	0	1	0	0	0	262	536	19	1	1451	1	ADAMTS17	15	100657064	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	26341590	100657064	1874328	135	53789											
ADAMTS17	170691	broad.mit.edu	37	chr15	100695514	100695514	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagtggtcatcgtcgtggTtcatgcccaagctgtccaag	8	11	12	10	2	2	1	2	1	0	0	5	1	3	1	2	2	2	2	2	2	2	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr15:100695514T>G	uc002bvv.1	-	9	1272	c.1193A>C	c.(1192-1194)AAC>ACC	p.N398T	ADAMTS17_uc002bvx.1_Missense_Mutation_p.N155T	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	398	Peptidase M12B.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		ATCGTCGTGGTTCATGCCCAA	0.537													10	19					0	0	0.006214	0	0		G	100695514	G	G	100695514	3	3	88	1	0	0	0	0	1	0	0	0	262	1725	60	5	2150	5	ADAMTS17	15	100695514	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	38450	100695514	1835878	136	53790											
TMEM8A	58986	broad.mit.edu	37	chr16	426761	426761	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaggctcccattggacacGcagtcccgcagctccagcag	8	5	10	18	2	0	0	0	0	0	0	3	1	3	1	4	2	2	5	4	2	0	1	rs146605667	byFrequency	TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr16:426761G>A	uc002cgu.3	-	5	816	c.687C>T	c.(685-687)TGC>TGT	p.C229C	TMEM8A_uc002cgv.3_Silent_p.C36C	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	229	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						CATTGGACACGCAGTCCCGCA	0.662													3	34					0	0	0.009096	0	0		A	426761	A	A	426761	2	1	88	1	0	0	0	0	0	0	0	1	16239	1079	38	1		1	TMEM8A	16	426761	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08		426761	89927992	137	53791											
SMG1	23049	broad.mit.edu	37	chr16	18827647	18827647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccatagctttcaagagatGtttgacatctccaagctgtc	11	12	8	10	0	2	2	1	1	1	1	4	3	2	2	2	0	3	3	2	0	3	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr16:18827647G>A	uc002dfm.2	-	58	10642	c.10279C>T	c.(10279-10281)CAT>TAT	p.H3427Y	SMG1_uc010bwb.2_Missense_Mutation_p.H3287Y|SMG1_uc010bwa.2_Missense_Mutation_p.H2158Y	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	3427					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TTCAAGAGATGTTTGACATCT	0.358													8	25					0	0	0.004482	0	0		A	18827647	A	A	18827647	3	1	88	1	0	0	0	0	1	0	0	0	14820	1377	48	4	730	4	SMG1	16	18827647	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	18400886	18827647	71527106	138	53792											
ACSM2A	123876	broad.mit.edu	37	chr16	20497994	20497994	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtccggaaaagcccgtgcGcagtgagacatctaagagac	13	6	12	10	3	1	2	0	1	1	2	2	5	2	3	2	1	2	1	2	1	3	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr16:20497994G>A	uc010bwe.2	+	15	1967	c.1728G>A	c.(1726-1728)GCG>GCA	p.A576A	ACSM2A_uc002dhf.3_Silent_p.A576A|ACSM2A_uc002dhg.3_Silent_p.A576A|ACSM2A_uc010vay.1_Silent_p.A497A|ACSM2A_uc002dhh.3_Silent_p.A206A|uc002dhi.1_5'Flank	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	576					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						AAGCCCGTGCGCAGTGAGACA	0.453													106	73					0	0	0.00361	0	0		A	20497994	A	A	20497994	2	1	88	1	0	0	0	0	0	0	0	1	183	1074	38	1		1	ACSM2A	16	20497994	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	1670347	20497994	69856759	139	53793											
SLC5A11	115584	broad.mit.edu	37	chr16	24922747	24922747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcccggccagagcagaaGccatcatagtttccctggaa	11	7	10	13	1	1	2	1	0	0	2	3	3	3	3	4	2	3	3	4	2	3	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr16:24922747G>A	uc002dmu.2	+	16	2153	c.1921G>A	c.(1921-1923)GCC>ACC	p.A641T	SLC5A11_uc002dms.2_Missense_Mutation_p.A577T|SLC5A11_uc010vcd.1_Missense_Mutation_p.A606T|SLC5A11_uc002dmt.2_Missense_Mutation_p.A485T|SLC5A11_uc010vce.1_Missense_Mutation_p.A571T|SLC5A11_uc010bxt.2_Missense_Mutation_p.A577T|SLC5A11_uc002dmv.2_Missense_Mutation_p.A264T	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	641	Cytoplasmic (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		CAGAGCAGAAGCCATCATAGT	0.532													150	85					0	0	0.00361	0	0		A	24922747	A	A	24922747	3	1	88	1	0	0	0	0	1	0	0	0	14688	971	34	2	1979	2	SLC5A11	16	24922747	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	4424753	24922747	65432006	140	53794											
NFAT5	10725	broad.mit.edu	37	chr16	69727007	69727007	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccaactttttcatcctcaAaatcctattgccgatgctca	10	13	4	14	1	3	0	3	0	0	0	5	1	5	0	4	0	3	1	4	0	4	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr16:69727007A>C	uc002exm.1	+	12	4433	c.3225A>C	c.(3223-3225)CAA>CAC	p.Q1075H	NFAT5_uc002exi.2_Missense_Mutation_p.Q999H|NFAT5_uc002exj.1_Missense_Mutation_p.Q999H|NFAT5_uc002exk.1_Missense_Mutation_p.Q999H|NFAT5_uc002exl.1_Missense_Mutation_p.Q1093H|NFAT5_uc002exn.1_Missense_Mutation_p.Q1092H|NFAT5_uc002exo.1_RNA	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	1075					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						TTCATCCTCAAAATCCTATTG	0.418													43	99					0	0	0.009718	0	0		C	69727007	C	C	69727007	3	2	88	1	0	0	0	0	1	0	0	0	10379	11	1	5	3329	5	NFAT5	16	69727007	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	44804260	69727007	20627746	141	53795											
TP53	7157	broad.mit.edu	37	chr17	7579381	7579381	+	Frame_Shift_Del	DEL	G	-	-																															aaaccgtagctgccctggtaGgttttctgggaagggacaga																										TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr17:7579381delG	uc002gim.2	-	4	500	c.306delC	c.(304-306)ACCfs	p.T102fs	TP53_uc002gig.1_Frame_Shift_Del_p.T102fs|TP53_uc002gih.2_Frame_Shift_Del_p.T102fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Frame_Shift_Del_p.T102fs|TP53_uc010cni.1_Frame_Shift_Del_p.T102fs|TP53_uc002gij.2_Frame_Shift_Del_p.T102fs|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Frame_Shift_Del_p.T63fs|TP53_uc010cnk.1_Frame_Shift_Del_p.T117fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	102	Interaction with HIPK1 (By similarity).||Interaction with WWOX.		T -> I (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.T102I(7)|p.T102fs*21(3)|p.G59fs*23(3)|p.V73fs*9(1)|p.W91fs*13(1)|p.P13fs*18(1)|p.S33fs*23(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TGCCCTGGTAGGTTTTCTGGG	0.637		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			54	47	---	---	---	---						.	-	7579381	-	-	7579381	7	5	88	1	0	1	0	1	0	0	0	0	16407	987	35	0	996	0	TP53	17	7579381	Frame_Shift_Del	DEL	G	TCGA-BR-8679-01A-11D-2394-08		7579381	73615829	142	53796											
SUPT6H	6830	broad.mit.edu	37	chr17	27024707	27024707	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	catcctttgcccgggaccttCtgaatcacaagtattatcag	10	12	7	12	1	3	1	2	1	1	0	4	2	4	2	3	1	1	1	3	1	4	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr17:27024707C>G	uc002hby.2	+	31	4369	c.4279C>G	c.(4279-4281)CTG>GTG	p.L1427V	SUPT6H_uc010crt.2_Missense_Mutation_p.L1427V	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	1427	SH2.				chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					CCGGGACCTTCTGAATCACAA	0.522													23	39					0	0	0.00278	0	0		G	27024707	G	G	27024707	3	3	88	1	0	0	0	0	1	0	0	0	15425	912	32	5	4397	5	SUPT6H	17	27024707	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	19445326	27024707	54170503	143	53797											
PPM1D	8493	broad.mit.edu	37	chr17	58701061	58701061	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaggtgacacaggaccatAagccagaacttcccaaggaa	15	5	11	10	0	0	2	0	1	0	1	1	5	1	5	3	4	2	0	3	4	4	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr17:58701061A>G	uc002iyt.1	+	2	874	c.652A>G	c.(652-654)AAG>GAG	p.K218E	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	218	PP2C-like.				negative regulation of cell proliferation|protein dephosphorylation|response to radiation	nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein binding|protein serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)			ACAGGACCATAAGCCAGAACT	0.463													19	96					0	0	0.006122	0	0		G	58701061	G	G	58701061	3	3	88	1	0	0	0	0	1	0	0	0	12359	363	13	3	658	3	PPM1D	17	58701061	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	31676354	58701061	22494149	144	53798											
SCN4A	6329	broad.mit.edu	37	chr17	62018998	62018998	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtcacagtctgggggcccGctgttgaggatggggttgag	5	9	20	7	1	2	2	1	2	1	0	2	3	2	3	1	6	0	3	1	6	0	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr17:62018998G>A	uc002jds.1	-	24	4721	c.4644C>T	c.(4642-4644)AGC>AGT	p.S1548S		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1548	IV.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	CTGGGGGCCCGCTGTTGAGGA	0.597													20	30					0	0	0.008871	0	0		A	62018998	A	A	62018998	2	1	88	1	0	0	0	0	0	0	0	1	13945	1078	38	1		1	SCN4A	17	62018998	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	3317937	62018998	19176212	145	53799											
EMILIN2	84034	broad.mit.edu	37	chr18	2891281	2891281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaataaataacctccgagccCggctacaggagccttcagcc	13	6	8	14	2	1	0	1	0	0	0	2	2	2	1	5	2	5	1	5	2	5	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr18:2891281C>T	uc002kln.2	+	4	1315	c.1156C>T	c.(1156-1158)CGG>TGG	p.R386W		NM_032048	NP_114437	Q9BXX0	EMIL2_HUMAN	elastin microfibril interfacer 2 precursor	386	Potential.				cell adhesion	collagen	extracellular matrix constituent conferring elasticity|protein binding			skin(2)|ovary(1)	3				READ - Rectum adenocarcinoma(2;0.1)		CCTCCGAGCCCGGCTACAGGA	0.488													15	63					0	0	0.003163	0	0		T	2891281	T	T	2891281	3	4	88	1	0	0	0	0	1	0	0	0	5102	643	23	1	1170	1	EMILIN2	18	2891281	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08		2891281	75185967	146	53800											
EPB41L3	23136	broad.mit.edu	37	chr18	5397280	5397280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catccccgctgtctcccgccGagtaagaagcatccccactc	8	7	7	19	3	1	1	0	0	1	1	5	2	3	1	6	0	1	3	6	0	2	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr18:5397280G>A	uc002kmt.1	-	18	2704	c.2618C>T	c.(2617-2619)TCG>TTG	p.S873L	EPB41L3_uc010wzh.1_Missense_Mutation_p.S704L|EPB41L3_uc002kmu.1_Missense_Mutation_p.S651L|EPB41L3_uc010dkq.1_Missense_Mutation_p.S542L|EPB41L3_uc002kms.1_Missense_Mutation_p.S108L|EPB41L3_uc010wze.1_Missense_Mutation_p.S178L|EPB41L3_uc010wzf.1_Missense_Mutation_p.S170L|EPB41L3_uc010wzg.1_Missense_Mutation_p.S145L|EPB41L3_uc010dkr.2_Missense_Mutation_p.S265L	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	873	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GTCTCCCGCCGAGTAAGAAGC	0.622													26	84					0	0	0.003954	0	0		A	5397280	A	A	5397280	3	1	88	1	0	0	0	0	1	0	0	0	5162	1059	37	1	665	1	EPB41L3	18	5397280	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	2505999	5397280	72679968	147	53801											
PTPN2	5771	broad.mit.edu	37	chr18	12884110	12884110	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcgacgctgagtatccaactCttcgaactcccgctcgatgg	8	9	10	14	5	1	1	0	1	1	0	5	4	3	1	2	1	2	3	2	1	3	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr18:12884110C>G	uc002krp.2	-	1	225	c.31G>C	c.(31-33)GAG>CAG	p.E11Q	PTPN2_uc002krl.2_Missense_Mutation_p.E11Q|PTPN2_uc002krn.2_Missense_Mutation_p.E11Q|PTPN2_uc002kro.2_Missense_Mutation_p.E11Q|PTPN2_uc002krm.2_Missense_Mutation_p.E11Q	NM_002828	NP_002819	P17706	PTN2_HUMAN	protein tyrosine phosphatase, non-receptor type	11	Tyrosine-protein phosphatase.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway	endoplasmic reticulum|nucleoplasm	protein binding			skin(2)	2		Lung NSC(161;8.94e-06)				GTATCCAACTCTTCGAACTCC	0.701													2	8					0	0	0.004672	0	0		G	12884110	G	G	12884110	3	3	88	1	0	0	0	0	1	0	0	0	12808	922	32	5	1278	5	PTPN2	18	12884110	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	7486830	12884110	65193138	148	53802											
POTEC	388468	broad.mit.edu	37	chr18	14543140	14543140	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcattgaacaaacctcagtCaccatctgcttttaacagcc	12	10	6	13	0	3	1	2	1	1	0	3	1	3	1	3	1	5	2	3	1	3	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr18:14543140C>T	uc010dln.2	-	1	460	c.6G>A	c.(4-6)GTG>GTA	p.V2V	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	2										skin(3)	3						AAACCTCAGTCACCATCTGCT	0.542													7	102					0	0	0.00245	0	0		T	14543140	T	T	14543140	2	4	88	1	0	0	0	0	0	0	0	1	12281	813	29	4		4	POTEC	18	14543140	Silent	SNP	C	TCGA-BR-8679-01A-11D-2394-08	1659030	14543140	63534108	149	53803											
RNF152	220441	broad.mit.edu	37	chr18	59483133	59483133	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagaaatgcaagacatgttGtgaagcacgatgccgaggag	14	8	13	6	2	0	3	0	1	0	2	0	6	0	4	1	1	3	3	1	1	4	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr18:59483133G>A	uc002lih.1	-	2	976	c.564C>T	c.(562-564)CAC>CAT	p.H188H		NM_173557	NP_775828	Q8N8N0	RN152_HUMAN	ring finger protein 152	188					apoptosis|protein K48-linked ubiquitination	integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			breast(1)	1		Colorectal(73;0.186)				AAGACATGTTGTGAAGCACGA	0.562													21	98					0	0	0.008871	0	0		A	59483133	A	A	59483133	2	1	88	1	0	0	0	0	0	0	0	1	13478	1368	48	4		4	RNF152	18	59483133	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	44939993	59483133	18594115	150	53804											
TSHZ1	10194	broad.mit.edu	37	chr18	72997563	72997563	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactccccagtcagctctgcGactaaccaggacgccggcta	10	6	9	16	3	2	0	1	0	1	0	3	2	3	1	4	2	4	2	4	2	3	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr18:72997563G>A	uc002lly.2	+	2	629	c.66G>A	c.(64-66)GCG>GCA	p.A22A		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	67	Ser-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		TCAGCTCTGCGACTAACCAGG	0.557													6	48					0	0	0.001168	0	0		A	72997563	A	A	72997563	2	1	88	1	0	0	0	0	0	0	0	1	16649	1045	37	1		1	TSHZ1	18	72997563	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08	13514430	72997563	5079685	151	53805											
C19orf26	255057	broad.mit.edu	37	chr19	1231232	1231232	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgctccgtgctctcaCtggctgcccgctgccgctgg	1	10	11	19	3	1	0	1	0	1	0	4	0	3	0	5	2	4	5	5	2	0	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr19:1231232C>G	uc002lrm.2	-	9	1279	c.1004G>C	c.(1003-1005)AGT>ACT	p.S335T		NM_152769	NP_689982	Q8N350	DOS_HUMAN	downstream of Stk11	361						integral to membrane					0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGTGCTCTCACTGGCTGCCCG	0.706										HNSCC(14;0.022)			11	86					0	0	0.00245	0	0		G	1231232	G	G	1231232	3	3	88	1	0	0	0	0	1	0	0	0	1919	565	20	5	343	5	C19orf26	19	1231232	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08		1231232	57897751	152	53806											
CPAMD8	27151	broad.mit.edu	37	chr19	17068679	17068679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacctgatgttgagacaatGccaaatccatgtttcgggga	11	11	11	8	1	0	2	0	2	0	1	2	4	1	3	3	2	2	3	3	2	3	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr19:17068679G>A	uc002nfb.2	-	19	2433	c.2401C>T	c.(2401-2403)CAT>TAT	p.H801Y		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	754						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						TTGAGACAATGCCAAATCCAT	0.403													61	194					0	0	0.00361	0	0		A	17068679	A	A	17068679	3	1	88	1	0	0	0	0	1	0	0	0	3798	1319	46	2	3493	2	CPAMD8	19	17068679	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	15837447	17068679	42060304	153	53807											
NCAN	1463	broad.mit.edu	37	chr19	19359647	19359647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtggccaccattcgatgccGgagcaatggcaagtgggaca	10	7	14	10	2	0	0	0	0	0	0	1	3	0	2	3	4	2	2	3	4	2	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr19:19359647G>A	uc002nlz.2	+	14	3875	c.3776G>A	c.(3775-3777)CGG>CAG	p.R1259Q	NCAN_uc002nma.2_Missense_Mutation_p.G15R	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	1259	Sushi.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			ATTCGATGCCGGAGCAATGGC	0.502													10	84					0	0	0.000978	0	0		A	19359647	A	A	19359647	3	1	88	1	0	0	0	0	1	0	0	0	10223	1116	39	1	3826	1	NCAN	19	19359647	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	2290968	19359647	39769336	154	53808											
ATP4A	495	broad.mit.edu	37	chr19	36051409	36051409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctgggccgccaggatgcGgatgtcggcgggcactctgt	4	7	17	13	4	1	0	0	0	1	0	2	2	1	2	3	5	1	1	3	5	0	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr19:36051409G>A	uc002oal.1	-	6	672	c.643C>T	c.(643-645)CGC>TGC	p.R215C	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	215	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	GCCAGGATGCGGATGTCGGCG	0.627													54	38					0	0	0.00361	0	0		A	36051409	A	A	36051409	3	1	88	1	0	0	0	0	1	0	0	0	1146	1116	39	1	2532	1	ATP4A	19	36051409	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	16691762	36051409	23077574	155	53809											
CYP2S1	29785	broad.mit.edu	37	chr19	41712326	41712326	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccgtcagtggccttttcaAcattcccccagccttccagc	7	10	6	18	1	2	0	2	0	0	0	4	0	4	0	6	1	3	0	6	1	1	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr19:41712326A>G	uc002opw.2	+	9	1503	c.1448A>G	c.(1447-1449)AAC>AGC	p.N483S	CYP2F1_uc010xvw.1_Intron|CYP2S1_uc010xvx.1_Missense_Mutation_p.N208S	NM_030622	NP_085125	Q96SQ9	CP2S1_HUMAN	cytochrome P450, family 2, subfamily S,	483					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity			skin(1)	1						GGCCTTTTCAACATTCCCCCA	0.602													119	68					0	0	0.00361	0	0		G	41712326	G	G	41712326	3	3	88	1	0	0	0	0	1	0	0	0	4177	43	2	3	1482	3	CYP2S1	19	41712326	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	5660917	41712326	17416657	156	53810											
PSG3	5671	broad.mit.edu	37	chr19	43233295	43233295	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagagactttgactgtcatgGatttggagctttccatgcca	9	13	10	9	0	1	2	1	1	0	1	2	5	2	4	2	2	2	1	2	2	0	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr19:43233295G>T	uc002oue.2	-	5	1355	c.1223C>A	c.(1222-1224)TCC>TAC	p.S408Y	PSG3_uc002ouf.2_RNA|PSG1_uc002oug.1_Missense_Mutation_p.S408Y|PSG3_uc010eil.2_Missense_Mutation_p.S430Y	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	408	Ig-like C2-type 3.				defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				GACTGTCATGGATTTGGAGCT	0.463													41	260					3.09479e-21	3.33171e-21	0.006999	1	0		T	43233295	T	T	43233295	3	4	88	1	0	0	0	0	1	0	0	0	12678	1174	41	5	71	5	PSG3	19	43233295	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	1520969	43233295	15895688	157	53811											
SLC8A2	6543	broad.mit.edu	37	chr19	47933453	47933453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcttgggtccgcgcgggcCgcccagctcgccgccgatgt	3	6	16	16	7	0	0	0	0	0	0	2	2	1	0	5	2	2	2	5	2	0	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr19:47933453C>T	uc002pgx.2	-	10	2937	c.2659G>A	c.(2659-2661)GGC>AGC	p.G887S	SLC8A2_uc010xyq.1_Missense_Mutation_p.G643S|SLC8A2_uc010xyr.1_Missense_Mutation_p.G350S|SLC8A2_uc010ele.2_Missense_Mutation_p.R913Q	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	887	Extracellular (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		CCGCGCGGGCCGCCCAGCTCG	0.701													3	24					0	0	0.009096	0	0		T	47933453	T	T	47933453	3	4	88	1	0	0	0	0	1	0	0	0	14732	652	23	1	110	1	SLC8A2	19	47933453	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	4700158	47933453	11195530	158	53812											
SNPH	9751	broad.mit.edu	37	chr20	1277819	1277819	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgtgagcgtgcgggaTgcctacggcacctcttcgct	5	9	12	15	4	1	1	0	1	1	0	2	2	1	2	4	2	4	2	4	2	1	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr20:1277819T>A	uc002wes.2	+	4	317	c.81T>A	c.(79-81)GAT>GAA	p.D27E	SNPH_uc002wet.2_Missense_Mutation_p.D71E	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	27					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						GCGTGCGGGATGCCTACGGCA	0.637													22	58					0	0	0.002299	0	0		A	1277819	A	A	1277819	3	1	88	1	0	0	0	0	1	0	0	0	14875	1461	51	5	87	5	SNPH	20	1277819	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08		1277819	61747701	159	53813											
C20orf194	25943	broad.mit.edu	37	chr20	3262288	3262288	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatatcctgtatctaccTgtgctccatgtagcagctca	9	12	6	14	0	2	0	1	0	1	0	4	0	4	0	4	0	4	5	4	0	4	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr20:3262288T>A	uc002wii.2	-	28	2662	c.2611A>T	c.(2611-2613)AGA>TGA	p.R871*	C20orf194_uc002wij.3_Nonsense_Mutation_p.R610*|C20orf194_uc002wik.2_Nonsense_Mutation_p.R545*	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	871											0						TGTATCTACCTGTGCTCCATG	0.488													20	143					0	0	0.007413	0	0		A	3262288	A	A	3262288	4	1	88	1	0	0	0	0	0	1	0	0	2102	1594	55	5	962	5	C20orf194	20	3262288	Nonsense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	1984469	3262288	59763232	160	53814											
MAVS	57506	broad.mit.edu	37	chr20	3846340	3846340	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttcccaggagaccccagCagctccaacacccgccggcg	8	5	9	19	3	1	1	0	0	1	1	3	2	3	1	6	2	3	2	6	2	1	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr20:3846340C>G	uc002wjw.3	+	7	1338	c.1169C>G	c.(1168-1170)GCA>GGA	p.A390G	MAVS_uc002wjx.3_Missense_Mutation_p.A249G|MAVS_uc002wjy.3_Missense_Mutation_p.A88G	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	390	Cytoplasmic (Probable).				activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0						GAGACCCCAGCAGCTCCAACA	0.637													7	37					0	0	0.00308	0	0		G	3846340	G	G	3846340	3	3	88	1	0	0	0	0	1	0	0	0	9356	710	25	5	1191	5	MAVS	20	3846340	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	584052	3846340	59179180	161	53815											
KIF16B	55614	broad.mit.edu	37	chr20	16359862	16359862	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agggcctctgtcaagaatttCaaatgctctctgcttttctt	8	16	7	10	0	5	1	2	0	3	1	6	1	5	1	1	1	2	2	1	1	3	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr20:16359862C>T	uc002wpg.1	-	19	2943	c.2785G>A	c.(2785-2787)GAA>AAA	p.E929K	KIF16B_uc002wpe.1_Missense_Mutation_p.E311K|KIF16B_uc002wpf.1_Missense_Mutation_p.E311K|KIF16B_uc010gch.1_Missense_Mutation_p.E929K|KIF16B_uc010gci.1_Missense_Mutation_p.E929K|KIF16B_uc010gcj.1_Missense_Mutation_p.E940K	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	929	Glu-rich.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						TCAAGAATTTCAAATGCTCTC	0.438													36	182					0	0	0.003755	0	0		T	16359862	T	T	16359862	3	4	88	1	0	0	0	0	1	0	0	0	8294	835	29	4	1200	4	KIF16B	20	16359862	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	12513522	16359862	46665658	162	53816											
CST8	10047	broad.mit.edu	37	chr20	23472384	23472384	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggaaagacccaaaaaagaAtgagacaggggtgctgagga	18	3	14	6	0	0	4	0	2	0	3	0	7	0	6	1	4	1	1	1	4	5	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr20:23472384A>G	uc002wth.1	+	2	437	c.80A>G	c.(79-81)AAT>AGT	p.N27S		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	27						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					CCAAAAAAGAATGAGACAGGG	0.537													11	298					0	0	0.008291	0	0		G	23472384	G	G	23472384	3	3	88	1	0	0	0	0	1	0	0	0	3981	101	4	3	82	3	CST8	20	23472384	Missense_Mutation	SNP	A	TCGA-BR-8679-01A-11D-2394-08	7112522	23472384	39553136	163	53817											
C20orf114	92747	broad.mit.edu	37	chr20	31889103	31889103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactctgcagcttccctgaCaatgcccaccctggacaaca	11	8	6	16	0	1	1	0	1	1	0	2	2	2	2	3	1	5	2	3	1	3	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr20:31889103C>T	uc002wyw.1	+	9	973	c.812C>T	c.(811-813)ACA>ATA	p.T271I	C20orf114_uc002wyx.1_5'Flank	NM_033197	NP_149974	Q8TDL5	LPLC1_HUMAN	LPLUNC1 protein precursor	271						extracellular space	lipid binding			central_nervous_system(2)|skin(2)	4						GCTTCCCTGACAATGCCCACC	0.522													10	225					0	0	0.006214	0	0		T	31889103	T	T	31889103	3	4	88	1	0	0	0	0	1	0	0	0	2085	478	17	4	842	4	C20orf114	20	31889103	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	8416719	31889103	31136417	164	53818											
TGIF2	60436	broad.mit.edu	37	chr20	35207182	35207182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctagcccctaggcaccatgtCggacagtgatctaggtgagg	9	8	13	11	1	1	2	0	2	1	0	2	3	1	3	3	4	1	1	3	4	3	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr20:35207182C>T	uc002xfn.2	+	2	178	c.5C>T	c.(4-6)TCG>TTG	p.S2L	C20orf24_uc002xfo.2_Missense_Mutation_p.S2L	NM_021809	NP_068581	Q9GZN2	TGIF2_HUMAN	TGFB-induced factor homeobox 2	2						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)|skin(1)	2	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				GGCACCATGTCGGACAGTGAT	0.597													42	190					0	0	0.00361	0	0		T	35207182	T	T	35207182	3	4	88	1	0	0	0	0	1	0	0	0	15851	893	31	1	7	1	TGIF2	20	35207182	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	3318079	35207182	27818338	165	53819											
SLC32A1	140679	broad.mit.edu	37	chr20	37357184	37357184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccaagtcttcttcgacGtcgccatcttcgtcatcggc	6	11	9	15	5	4	0	1	0	3	0	8	1	4	0	2	2	0	1	2	2	1	3			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr20:37357184G>A	uc002xjc.2	+	2	1743	c.1480G>A	c.(1480-1482)GTC>ATC	p.V494I		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	494	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CTTCTTCGACGTCGCCATCTT	0.647													12	80					0	0	0.000978	0	0		A	37357184	A	A	37357184	3	1	88	1	0	0	0	0	1	0	0	0	14590	1145	40	1	1486	1	SLC32A1	20	37357184	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	2150002	37357184	25668336	166	53820											
RBM38	55544	broad.mit.edu	37	chr20	55982810	55982810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctacagctaccctgccGccgtgccccaggccctctca	5	7	10	19	2	1	0	1	0	1	0	2	0	1	0	6	2	5	2	6	2	2	2			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr20:55982810G>A	uc010zzj.1	+	4	803	c.628G>A	c.(628-630)GCC>ACC	p.A210T	RBM38_uc010zzk.1_3'UTR	NM_017495	NP_059965	Q9H0Z9	RBM38_HUMAN	RNA-binding region containing protein 1 isoform	210					3'-UTR-mediated mRNA stabilization|cell cycle|cell cycle arrest|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mRNA processing|negative regulation of cell proliferation|regulation of RNA splicing|RNA splicing	cytosol|cytosol|nucleus|nucleus	mRNA 3'-UTR binding|mRNA binding|nucleotide binding|RNA binding				0	Lung NSC(12;0.00242)|all_lung(29;0.00767)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;1.55e-12)|Epithelial(14;9.49e-09)|all cancers(14;5.01e-08)			CTACCCTGCCGCCGTGCCCCA	0.697													7	43					0	0	0.001984	0	0		A	55982810	A	A	55982810	3	1	88	1	0	0	0	0	1	0	0	0	13157	1087	38	1	401	1	RBM38	20	55982810	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	18625626	55982810	7042710	167	53821											
COL9A3	1299	broad.mit.edu	37	chr20	61468510	61468510	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtcggcccggtccagctgGcccccctgggcccccaggac	3	5	14	19	2	0	0	0	0	0	0	2	1	1	1	7	6	1	1	7	6	0	0			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr20:61468510G>C	uc002ydm.2	+	30	1682	c.1679G>C	c.(1678-1680)GGC>GCC	p.G560A	COL9A3_uc002ydn.2_Missense_Mutation_p.G54A	NM_001853	NP_001844	Q14050	CO9A3_HUMAN	alpha 3 type IX collagen precursor	560	Triple-helical region 2 (COL2).				axon guidance	collagen type IX					0	Breast(26;5.68e-08)					GGTCCAGCTGGCCCCCCTGGG	0.672													139	325					0	0	0.00361	0	0		C	61468510	C	C	61468510	3	2	88	1	0	0	0	0	1	0	0	0	3712	1203	42	5	1797	5	COL9A3	20	61468510	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	5485700	61468510	1557010	168	53822											
FBLN1	2192	broad.mit.edu	37	chr22	45937242	45937242	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctcaacgaggagggaacGcgctgtgttggttggtatta	9	11	14	7	3	1	0	1	0	1	0	2	3	1	2	0	4	2	4	0	4	4	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr22:45937242G>A	uc003bgj.1	+	9	1203	c.1056G>A	c.(1054-1056)ACG>ACA	p.T352T	FBLN1_uc003bgg.1_Silent_p.T352T|FBLN1_uc003bgh.2_Silent_p.T352T|FBLN1_uc010gzz.2_Silent_p.T390T|FBLN1_uc003bgi.1_Silent_p.T352T	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	352	EGF-like 4; calcium-binding (Potential).				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		AGGAGGGAACGCGCTGTGTTG	0.527													8	43					0	0	0.00308	0	0		A	45937242	A	A	45937242	2	1	88	1	0	0	0	0	0	0	0	1	5712	1074	38	1		1	FBLN1	22	45937242	Silent	SNP	G	TCGA-BR-8679-01A-11D-2394-08		45937242	5367324	169	53823											
MIOX	55586	broad.mit.edu	37	chr22	50927478	50927478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctctgcagtgggctgtcGtcggcgacaccttccccgtc	3	10	11	17	4	1	0	0	0	1	0	6	1	3	0	4	2	1	2	4	2	0	1	rs146378961		TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chr22:50927478G>A	uc003bll.1	+	6	532	c.418G>A	c.(418-420)GTC>ATC	p.V140I	MIOX_uc003blm.1_Missense_Mutation_p.V140I|MIOX_uc003bln.1_Silent_p.S150S	NM_017584	NP_060054	Q9UGB7	MIOX_HUMAN	myo-inositol oxygenase	140					inositol catabolic process	cytoplasm|inclusion body	aldo-keto reductase (NADP) activity|ferric iron binding|inositol oxygenase activity				0		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GTGGGCTGTCGTCGGCGACAC	0.657													22	15					0	0	0.010504	0	0		A	50927478	A	A	50927478	3	1	88	1	0	0	0	0	1	0	0	0	9608	1145	40	1	440	1	MIOX	22	50927478	Missense_Mutation	SNP	G	TCGA-BR-8679-01A-11D-2394-08	4990236	50927478	377088	170	53824											
MXRA5	25878	broad.mit.edu	37	chrX	3235214	3235214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccaggggtcccccgaggCgctgcagtccagcttgaggg	5	5	17	14	3	0	1	0	1	0	0	2	2	2	1	4	5	2	3	4	5	0	1			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chrX:3235214C>T	uc004crg.3	-	6	6665	c.6508G>A	c.(6508-6510)GCC>ACC	p.A2170T		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2170	Ig-like C2-type 6.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TCCCCCGAGGCGCTGCAGTCC	0.662													6	10					0	0	0.001168	0	0		T	3235214	T	T	3235214	3	4	88	1	0	0	0	0	1	0	0	0	10021	768	27	1	1986	1	MXRA5	23	3235214	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08		3235214	152035346	171	53825											
NLGN4X	57502	broad.mit.edu	37	chrX	5821835	5821835	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgccaatatccgagtgtacTtggccggctggtagttcact	7	12	11	11	2	1	0	1	0	0	0	2	1	2	0	3	3	2	4	3	3	4	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chrX:5821835T>G	uc010ndh.2	-	5	1385	c.884A>C	c.(883-885)AAG>ACG	p.K295T	NLGN4X_uc004crp.2_Missense_Mutation_p.K315T|NLGN4X_uc004crq.2_Missense_Mutation_p.K295T|NLGN4X_uc010ndi.2_Missense_Mutation_p.K332T|NLGN4X_uc004crr.2_Missense_Mutation_p.K295T|NLGN4X_uc010ndj.2_Missense_Mutation_p.K295T	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	295	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						CCGAGTGTACTTGGCCGGCTG	0.552													25	47					0	0	0.003954	0	0		G	5821835	G	G	5821835	3	3	88	1	0	0	0	0	1	0	0	0	10483	1609	56	5	1574	5	NLGN4X	23	5821835	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	2586621	5821835	149448725	172	53826											
WNK3	65267	broad.mit.edu	37	chrX	54328235	54328235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttttgacgaatacatccttCaatgatttctttgacttcag	10	17	6	8	1	3	3	2	3	1	0	4	4	4	3	1	0	1	1	1	0	3	7			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chrX:54328235C>T	uc004dtd.1	-	6	1586	c.1147G>A	c.(1147-1149)GAA>AAA	p.E383K	WNK3_uc004dtc.1_Missense_Mutation_p.E383K	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	383	Protein kinase.				intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						ATACATCCTTCAATGATTTCT	0.358													5	21					0	0	0.001984	0	0		T	54328235	T	T	54328235	3	4	88	1	0	0	0	0	1	0	0	0	17405	835	29	4	4331	4	WNK3	23	54328235	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	48506400	54328235	100942325	173	53827											
PHKA1	5255	broad.mit.edu	37	chrX	71864212	71864212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctagccaatctccttacCtaggctggaataaatgtggc	11	10	10	10	0	1	0	0	0	1	0	2	1	1	1	3	4	2	2	3	4	7	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chrX:71864212C>T	uc004eax.3	-	14	1760	c.1459G>A	c.(1459-1461)GGA>AGA	p.G487R	PHKA1_uc004eay.3_Missense_Mutation_p.G487R|PHKA1_uc011mqi.1_Missense_Mutation_p.G487R	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	487					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					ATCTCCTTACCTAGGCTGGAA	0.408													3	28					0	0	0.000602	0	0		T	71864212	T	T	71864212	3	4	88	1	0	0	0	0	1	0	0	0	11862	695	24	4	2288	4	PHKA1	23	71864212	Missense_Mutation	SNP	C	TCGA-BR-8679-01A-11D-2394-08	17535977	71864212	83406348	174	53828											
GLUD2	2747	broad.mit.edu	37	chrX	120182302	120182302	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattaatgcacacgcctgtgTtactggtaaacccatcagcc	11	11	7	12	1	1	0	1	0	0	0	1	0	1	0	3	1	4	3	3	1	5	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chrX:120182302T>G	uc004eto.2	+	1	841	c.764T>G	c.(763-765)GTT>GGT	p.V255G		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	255					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	CACGCCTGTGTTACTGGTAAA	0.502													5	114					0	0	0.001168	0	0		G	120182302	G	G	120182302	3	3	88	1	0	0	0	0	1	0	0	0	6492	1725	60	5	766	5	GLUD2	23	120182302	Missense_Mutation	SNP	T	TCGA-BR-8679-01A-11D-2394-08	48318090	120182302	35088258	175	53829											
FGF13	2258	broad.mit.edu	37	chrX	137717619	137717619	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccacaatatcaaatgtaccTttcagtggtttaggcagaaa	14	11	7	9	0	2	1	2	0	0	1	2	1	2	1	2	2	1	3	2	2	6	5			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chrX:137717619T>C	uc004fam.2	-	4	1262	c.600A>G	c.(598-600)AAA>AAG	p.K200K	FGF13_uc004fan.2_Silent_p.K147K|FGF13_uc011mwi.1_Silent_p.K181K|FGF13_uc004faq.2_Silent_p.K210K|FGF13_uc004far.2_Silent_p.K181K|FGF13_uc011mwj.1_Silent_p.K210K|FGF13_uc011mwk.1_Silent_p.K154K	NM_004114	NP_004105	Q92913	FGF13_HUMAN	fibroblast growth factor 13 isoform 1	200					cell-cell signaling|MAPKKK cascade|nervous system development	cytoplasm|nucleus	growth factor activity|protein kinase activator activity			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CAAATGTACCTTTCAGTGGTT	0.303													65	52					0	0	0.00361	0	0		C	137717619	C	C	137717619	2	2	88	1	0	0	0	0	0	0	0	1	5856	1623	56	3		3	FGF13	23	137717619	Silent	SNP	T	TCGA-BR-8679-01A-11D-2394-08	17535317	137717619	17552941	176	53830											
FMR1	2332	broad.mit.edu	37	chrX	147011748	147011748	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataatgagaaatgaagaagcTagtaagcagctggaggtatg	17	8	13	3	0	0	3	0	2	0	2	0	5	0	4	0	2	3	5	0	2	7	4			TCGA-BR-8679-01A-11D-2394-08	TCGA-BR-8679-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe1ffdcc-e1d7-4573-a7ac-d6f6923324cc	2505360b-a523-4f55-adc3-50439aec8beb	g.chrX:147011748T>G	uc010nst.2	+	7	804	c.615T>G	c.(613-615)GCT>GCG	p.A205A	FMR1_uc011mwz.1_Silent_p.A205A|FMR1_uc004fcj.2_Silent_p.A205A|FMR1_uc004fck.3_Silent_p.A205A|FMR1_uc004fcl.3_Silent_p.A66A|FMR1_uc011mxa.1_5'UTR	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	205					mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ATGAAGAAGCTAGTAAGCAGC	0.443									Fragile_X_syndrome				22	62					0	0	0.001882	0	0		G	147011748	G	G	147011748	2	3	88	1	0	0	0	0	0	0	0	1	5974	1509	53	5		5	FMR1	23	147011748	Silent	SNP	T	TCGA-BR-8679-01A-11D-2394-08	9294129	147011748	8258812	177	53831											
KLHL17	339451	broad.mit.edu	37	chr1	899373	899373	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacccggaggcgctatgtgCgagtggccacgcttggtggg	5	7	18	11	4	0	0	0	0	0	0	0	2	0	1	2	5	1	3	2	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:899373C>T	uc001aca.1	+	9	1536	c.1429C>T	c.(1429-1431)CGA>TGA	p.R477*	KLHL17_uc001acc.1_RNA|PLEKHN1_uc001acd.2_5'Flank|PLEKHN1_uc001acf.2_5'Flank|PLEKHN1_uc001ace.2_5'Flank	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	477	Interaction with F-actin (By similarity).|Kelch 3.				actin cytoskeleton organization	actin cytoskeleton|cell junction|postsynaptic density|postsynaptic membrane	protein complex scaffold				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.52e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.59e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000469)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GCGCTATGTGCGAGTGGCCAC	0.687													46	84					0	0	1	0	0		T	899373	T	T	899373	4	4	89	1	0	0	0	0	0	1	0	0	8388	760	27	1	1463	1	KLHL17	1	899373	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08		899373	248351248	1	53832											
AGRN	375790	broad.mit.edu	37	chr1	981387	981387	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggagatgcgctgtgagttCggtgcgcggtgcgtggagga	5	8	21	7	6	0	2	0	1	0	1	1	5	0	4	0	5	3	2	0	5	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:981387C>T	uc001ack.1	+	16	2774	c.2724C>T	c.(2722-2724)TTC>TTT	p.F908F		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	908					axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		GCTGTGAGTTCGGTGCGCGGT	0.657													26	44					0	0	1	0	0		T	981387	T	T	981387	2	4	89	1	0	0	0	0	0	0	0	1	397	883	31	1		1	AGRN	1	981387	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	82014	981387	248269234	2	53833											
CCNL2	81669	broad.mit.edu	37	chr1	1326209	1326209	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctctggctggaaccgcacGaagacgtcggtgcgaaggct	8	7	14	12	5	1	1	0	0	1	1	3	4	1	2	1	4	2	3	1	4	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:1326209G>A	uc001afi.2	-	6	728	c.696C>T	c.(694-696)TTC>TTT	p.F232F	CCNL2_uc010nym.1_RNA|CCNL2_uc001aff.1_Silent_p.F10F|CCNL2_uc001afg.1_Silent_p.F10F|CCNL2_uc001afh.2_3'UTR|CCNL2_uc001afj.2_3'UTR|CCNL2_uc001afk.2_3'UTR	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A	232	Cyclin-like 2.				regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		GGAACCGCACGAAGACGTCGG	0.557													36	83					0	0	1	0	0		A	1326209	A	A	1326209	2	1	89	1	0	0	0	0	0	0	0	1	2935	1049	37	1		1	CCNL2	1	1326209	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	344822	1326209	247924412	3	53834											
KIAA1751	85452	broad.mit.edu	37	chr1	1903425	1903425	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcgggggcctacccggttCgcggagatgctgcccttcag	4	8	15	14	4	1	1	1	0	0	1	2	2	1	1	3	4	4	2	3	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:1903425C>T	uc001aim.1	-	9	1038	c.882G>A	c.(880-882)GCG>GCA	p.A294A	KIAA1751_uc009vkz.1_Silent_p.A294A	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	294										pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		CTACCCGGTTCGCGGAGATGC	0.677													18	36					0	0	1	0	0		T	1903425	T	T	1903425	2	4	89	1	0	0	0	0	0	0	0	1	8272	871	31	1		1	KIAA1751	1	1903425	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	577216	1903425	247347196	4	53835											
PRDM16	63976	broad.mit.edu	37	chr1	3319387	3319387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgctgtgacgagtgtgacGaactcttccagtccaagctg	8	10	11	12	3	1	2	0	2	1	0	4	4	4	2	3	0	2	2	3	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:3319387G>A	uc001akf.2	+	6	789	c.709G>A	c.(709-711)GAA>AAA	p.E237K	PRDM16_uc001akc.2_Missense_Mutation_p.E237K|PRDM16_uc001akd.2_Missense_Mutation_p.E237K|PRDM16_uc001ake.2_Missense_Mutation_p.E237K|PRDM16_uc009vlh.2_5'UTR	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	237	C2H2-type 1; atypical.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		CGAGTGTGACGAACTCTTCCA	0.617			T	EVI1	MDS|AML								19	41					0	0	1	0	0		A	3319387	A	A	3319387	3	1	89	1	0	0	0	0	1	0	0	0	12479	1059	37	1	731	1	PRDM16	1	3319387	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1415962	3319387	245931234	5	53836											
PRDM16	63976	broad.mit.edu	37	chr1	3328013	3328013	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcacaagcggatgcacgccGactgccgcacgcagatcaag	11	3	13	14	5	1	1	1	0	0	1	1	3	1	2	2	2	3	4	2	2	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:3328013G>A	uc001akf.2	+	9	1332	c.1252G>A	c.(1252-1254)GAC>AAC	p.D418N	PRDM16_uc001akc.2_Missense_Mutation_p.D418N|PRDM16_uc001akd.2_Missense_Mutation_p.D418N|PRDM16_uc001ake.2_Missense_Mutation_p.D418N|PRDM16_uc009vlh.2_Missense_Mutation_p.D119N	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	418					brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		GATGCACGCCGACTGCCGCAC	0.567			T	EVI1	MDS|AML								26	45					0	0	1	0	0		A	3328013	A	A	3328013	3	1	89	1	0	0	0	0	1	0	0	0	12479	1058	37	1	1286	1	PRDM16	1	3328013	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8626	3328013	245922608	6	53837											
MEGF6	1953	broad.mit.edu	37	chr1	3428235	3428235	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggcctcacagctgttcacGatttccatctcaatccctgc	7	13	6	15	1	3	0	3	0	1	0	6	1	5	0	3	1	2	2	3	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:3428235G>A	uc001akl.2	-	9	1220	c.993C>T	c.(991-993)ATC>ATT	p.I331I	MEGF6_uc001akk.2_Silent_p.I226I	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	331						extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		AGCTGTTCACGATTTCCATCT	0.627													19	43					0	0	1	0	0		A	3428235	A	A	3428235	2	1	89	1	0	0	0	0	0	0	0	1	9480	1048	37	1		1	MEGF6	1	3428235	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	100222	3428235	245822386	7	53838											
NOL9	79707	broad.mit.edu	37	chr1	6586025	6586025	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggaagtttaaaattgtaAtccgttgtgacataaggtac	14	12	9	6	1	0	1	0	1	0	0	1	2	1	2	2	2	1	4	2	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:6586025A>G	uc001ans.2	-	12	2017	c.1998T>C	c.(1996-1998)GAT>GAC	p.D666D	NOL9_uc010nzs.1_RNA	NM_024654	NP_078930	Q5SY16	NOL9_HUMAN	nucleolar protein 9	666					maturation of 5.8S rRNA	nucleolus	ATP binding|polynucleotide 5'-hydroxyl-kinase activity|RNA binding			skin(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;2.46e-35)|all_epithelial(116;1.41e-22)|all_lung(118;7.59e-07)|Lung NSC(185;4.28e-06)|Colorectal(325;4.52e-05)|Breast(487;0.000353)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.47e-07)|COAD - Colon adenocarcinoma(227;1.47e-05)|Kidney(185;5.27e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|BRCA - Breast invasive adenocarcinoma(365;0.00113)|STAD - Stomach adenocarcinoma(132;0.0017)|READ - Rectum adenocarcinoma(331;0.0649)		TAAAATTGTAATCCGTTGTGA	0.463													24	90					0	0	1	0	0		G	6586025	G	G	6586025	2	3	89	1	0	0	0	0	0	0	0	1	10547	98	4	3		3	NOL9	1	6586025	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3157790	6586025	242664596	8	53839											
TAS1R1	80835	broad.mit.edu	37	chr1	6634952	6634952	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgcccaggtgggcgatGagaggatgcagtgcctcatg	7	9	15	10	1	2	1	1	1	1	1	3	4	2	2	2	3	3	1	2	3	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:6634952G>T	uc001ant.2	+	3	760	c.760G>T	c.(760-762)GAG>TAG	p.E254*	TAS1R1_uc001anu.2_Intron|TAS1R1_uc001anv.2_Intron|TAS1R1_uc001anw.2_Nonsense_Mutation_p.E254*	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	254	Extracellular (Potential).				sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;8.73e-34)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		GGTGGGCGATGAGAGGATGCA	0.617													37	36					1.69901e-12	1.88238e-12	1	1	0		T	6634952	T	T	6634952	4	4	89	1	0	0	0	0	0	1	0	0	15587	1291	45	5	770	5	TAS1R1	1	6634952	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	48927	6634952	242615669	9	53840											
ZBTB48	3104	broad.mit.edu	37	chr1	6647651	6647651	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtgtgggcaccgggcctcGagccggaatggcctgcagat	7	6	17	11	3	0	1	0	0	0	1	1	4	0	2	4	4	2	2	4	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:6647651G>A	uc009vmc.1	+	7	1461	c.1338G>A	c.(1336-1338)TCG>TCA	p.S446S	ZBTB48_uc001anx.2_Silent_p.S446S|ZBTB48_uc009vmd.1_Silent_p.S446S|ZBTB48_uc001any.1_Silent_p.S84S	NM_005341	NP_005332	P10074	ZBT48_HUMAN	zinc finger and BTB domain containing 48	446	C2H2-type 6.					cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.35e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00109)|STAD - Stomach adenocarcinoma(132;0.017)|READ - Rectum adenocarcinoma(331;0.0642)		ACCGGGCCTCGAGCCGGAATG	0.617													15	59					0	0	1	0	0		A	6647651	A	A	6647651	2	1	89	1	0	0	0	0	0	0	0	1	17574	1045	37	1		1	ZBTB48	1	6647651	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12699	6647651	242602970	10	53841											
PHF13	148479	broad.mit.edu	37	chr1	6676920	6676920	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcccttatccgaaggaggTaatcttctgagtttctgaga	10	13	9	9	1	3	2	0	2	3	1	5	5	5	3	2	2	0	2	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:6676920T>C	uc001aob.3	+	2	512	c.141_splice	c.e2+2	p.E47_splice		NM_153812	NP_722519	Q86YI8	PHF13_HUMAN	PHD finger protein 13						cell division|chromatin modification|mitotic chromosome condensation	nucleoplasm	chromatin binding|methylated histone residue binding|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;1.46e-33)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.19e-07)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000501)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|STAD - Stomach adenocarcinoma(132;0.0165)|READ - Rectum adenocarcinoma(331;0.0642)		CCGAAGGAGGTAATCTTCTGA	0.507													10	40					0	0	1	0	0		C	6676920	C	C	6676920	5	2	89	1	0	0	0	0	0	0	1	0	11843	1652	57	3	149	3	PHF13	1	6676920	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	29269	6676920	242573701	11	53842											
CAMTA1	23261	broad.mit.edu	37	chr1	7725121	7725121	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgagcagctcggagggCggggccagcaccatggccta	8	4	16	13	2	0	1	0	1	0	0	1	2	0	2	3	5	4	4	3	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:7725121C>T	uc001aoi.2	+	9	2721	c.2514C>T	c.(2512-2514)GGC>GGT	p.G838G		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	838					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		GCTCGGAGGGCGGGGCCAGCA	0.701													35	69					0	0	1	0	0		T	7725121	T	T	7725121	2	4	89	1	0	0	0	0	0	0	0	1	2616	755	27	1		1	CAMTA1	1	7725121	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1048201	7725121	241525500	12	53843											
CAMTA1	23261	broad.mit.edu	37	chr1	7806101	7806101	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgatcatgaacagagaGaactctatgaggctgccagg	12	9	12	8	0	3	5	1	3	2	2	3	6	3	5	1	2	3	1	1	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:7806101G>T	uc001aoi.2	+	18	4774	c.4567G>T	c.(4567-4569)GAA>TAA	p.E1523*	CAMTA1_uc001aok.3_Nonsense_Mutation_p.E566*|CAMTA1_uc001aoj.2_Nonsense_Mutation_p.E479*|CAMTA1_uc009vmf.2_Nonsense_Mutation_p.E113*	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1523					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		TGAACAGAGAGAACTCTATGA	0.473													29	66					1.68575e-08	1.7923e-08	1	1	0		T	7806101	T	T	7806101	4	4	89	1	0	0	0	0	0	1	0	0	2616	943	33	5	4637	5	CAMTA1	1	7806101	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	80980	7806101	241444520	13	53844											
PER3	8863	broad.mit.edu	37	chr1	7863754	7863754	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttattattttatatagttTtgaagtatgcagggcatcct	10	19	7	5	0	1	1	0	1	1	0	2	1	2	1	1	1	1	4	1	1	7	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:7863754T>C	uc001aoo.2	+	9	1154	c.979T>C	c.(979-981)TTG>CTG	p.L327L	PER3_uc009vmg.1_Silent_p.L328L|PER3_uc009vmh.1_Silent_p.L328L|PER3_uc001aop.2_Silent_p.L328L|PER3_uc010nzw.1_Silent_p.L9L|PER3_uc001aon.2_Silent_p.L327L	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	327	PAS 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		TTATATAGTTTTGAAGTATGC	0.333													8	23					0	0	1	0	0		C	7863754	C	C	7863754	2	2	89	1	0	0	0	0	0	0	0	1	11750	1838	64	3		3	PER3	1	7863754	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	57653	7863754	241386867	14	53845											
PER3	8863	broad.mit.edu	37	chr1	7863904	7863904	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcattggtcggcataaagttCgaacgtaagccagtcagttt	11	12	10	8	3	2	0	2	0	0	0	4	1	2	0	1	2	2	4	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:7863904C>T	uc001aoo.2	+	9	1304	c.1129C>T	c.(1129-1131)CGA>TGA	p.R377*	PER3_uc009vmg.1_Nonsense_Mutation_p.R378*|PER3_uc009vmh.1_Nonsense_Mutation_p.R378*|PER3_uc001aop.2_Nonsense_Mutation_p.R378*|PER3_uc010nzw.1_Nonsense_Mutation_p.R59*|PER3_uc001aon.2_Nonsense_Mutation_p.R377*	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	377	PAC.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		GCATAAAGTTCGAACGTAAGC	0.388													20	43					0	0	1	0	0		T	7863904	T	T	7863904	4	4	89	1	0	0	0	0	0	1	0	0	11750	876	31	1	1163	1	PER3	1	7863904	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	150	7863904	241386717	15	53846											
UTS2	10911	broad.mit.edu	37	chr1	7907902	7907902	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattctggccaaaagatgaCtcagtaaaatgttaggatct	15	11	9	6	0	3	3	1	1	2	2	3	4	3	4	1	2	0	2	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:7907902C>A	uc001aor.2	-	4	340	c.299G>T	c.(298-300)AGT>ATT	p.S100I	UTS2_uc001aoq.2_Missense_Mutation_p.S100I|UTS2_uc001aos.2_Missense_Mutation_p.S115I	NM_006786	NP_006777	O95399	UTS2_HUMAN	urotensin 2 isoform b preproprotein	100					muscle contraction|regulation of blood pressure|synaptic transmission	extracellular space	hormone activity				0	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;1.38e-20)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.26e-71)|GBM - Glioblastoma multiforme(8;5.15e-36)|Colorectal(212;1.27e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000386)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|STAD - Stomach adenocarcinoma(132;0.000951)|READ - Rectum adenocarcinoma(331;0.0642)		CAAAAGATGACTCAGTAAAAT	0.368													49	65					1.61004e-24	1.9345e-24	1	1	0		A	7907902	A	A	7907902	3	1	89	1	0	0	0	0	1	0	0	0	17130	565	20	5	79	5	UTS2	1	7907902	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	43998	7907902	241342719	16	53847											
TNFRSF9	3604	broad.mit.edu	37	chr1	7998864	7998864	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacagggactgcaaatctgaTtcctgttattatcacagaat	13	12	8	8	0	2	2	1	1	1	1	3	4	3	3	1	1	1	2	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:7998864T>G	uc001aot.2	-	3	253	c.125A>C	c.(124-126)AAT>ACT	p.N42T		NM_001561	NP_001552	Q07011	TNR9_HUMAN	tumor necrosis factor receptor superfamily,	42	Extracellular (Potential).|TNFR-Cys 1.				induction of apoptosis|negative regulation of cell proliferation	integral to plasma membrane	binding|receptor activity			large_intestine(1)|lung(1)|ovary(1)|skin(1)	4	Ovarian(185;0.0634)|all_lung(157;0.151)	all_epithelial(116;9.63e-21)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.000625)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.93e-71)|GBM - Glioblastoma multiforme(8;3.72e-37)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;7.71e-06)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000419)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00103)|READ - Rectum adenocarcinoma(331;0.0649)		GCAAATCTGATTCCTGTTATT	0.433													31	69					0	0	1	0	0		G	7998864	G	G	7998864	3	3	89	1	0	0	0	0	1	0	0	0	16325	1493	52	5	666	5	TNFRSF9	1	7998864	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	90962	7998864	241251757	17	53848											
SLC2A7	155184	broad.mit.edu	37	chr1	9079302	9079302	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaccactcgggaaaagacGatcagctcaaaagccttggc	14	5	10	12	2	2	1	2	0	0	1	3	3	2	2	2	2	3	2	2	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:9079302G>A	uc009vmo.1	-	4	402	c.402C>T	c.(400-402)ATC>ATT	p.I134I		NM_207420	NP_997303	Q6PXP3	GTR7_HUMAN	intestinal facilitative glucose transporter 7	134	Extracellular (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity				0	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.04e-07)|COAD - Colon adenocarcinoma(227;7.66e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		GGGAAAAGACGATCAGCTCAA	0.582													14	41					0	0	1	0	0		A	9079302	A	A	9079302	2	1	89	1	0	0	0	0	0	0	0	1	14575	1048	37	1		1	SLC2A7	1	9079302	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1080438	9079302	240171319	18	53849											
H6PD	9563	broad.mit.edu	37	chr1	9305498	9305498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggcccgggcgcctggctgCgggttgtccttgagaaaccc	5	7	15	14	3	0	1	0	1	0	1	1	2	1	1	4	4	2	2	4	4	1	2	rs35668164		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:9305498C>T	uc001apt.2	+	2	778	c.505C>T	c.(505-507)CGG>TGG	p.R169W		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	169	Glucose 1-dehydrogenase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	CGCCTGGCTGCGGGTTGTCCT	0.597													26	103					0	0	1	0	0		T	9305498	T	T	9305498	3	4	89	1	0	0	0	0	1	0	0	0	6952	759	27	1	507	1	H6PD	1	9305498	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	226196	9305498	239945123	19	53850											
PIK3CD	5293	broad.mit.edu	37	chr1	9780235	9780235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accccaacacggatagcgccGctgccctgctcatctgcctg	7	7	9	18	3	2	0	1	0	1	0	2	1	2	1	5	1	5	2	5	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:9780235G>A	uc001aqb.3	+	11	1613	c.1405G>A	c.(1405-1407)GCT>ACT	p.A469T	PIK3CD_uc010oaf.1_Missense_Mutation_p.A469T|PIK3CD_uc001aqe.3_Missense_Mutation_p.A434T	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	469					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		GGATAGCGCCGCTGCCCTGCT	0.672													17	53					0	0	1	0	0		A	9780235	A	A	9780235	3	1	89	1	0	0	0	0	1	0	0	0	11934	1087	38	1	1439	1	PIK3CD	1	9780235	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	474737	9780235	239470386	20	53851											
RBP7	116362	broad.mit.edu	37	chr1	10068312	10068312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggctggacccattggatcGaaggagacaaactccacctg	12	6	12	11	1	0	1	0	0	0	1	2	6	1	3	3	4	1	1	3	4	2	1	rs145127190	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:10068312G>A	uc001aqq.2	+	3	396	c.334G>A	c.(334-336)GAA>AAA	p.E112K	RBP7_uc009vms.2_RNA	NM_052960	NP_443192	Q96R05	RET7_HUMAN	retinol binding protein 7, cellular	112						cytoplasm	retinal binding|retinol binding|transporter activity				0		all_lung(284;0.000407)|Renal(390;0.000469)|Lung NSC(185;0.000577)|Colorectal(325;0.0062)|Breast(348;0.00686)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|BRCA - Breast invasive adenocarcinoma(304;0.000302)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00856)|READ - Rectum adenocarcinoma(331;0.0419)	Vitamin A(DB00162)	CCATTGGATCGAAGGAGACAA	0.378													12	32					0	0	1	0	0		A	10068312	A	A	10068312	3	1	89	1	0	0	0	0	1	0	0	0	13185	1059	37	1	344	1	RBP7	1	10068312	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	288077	10068312	239182309	21	53852											
KIF1B	23095	broad.mit.edu	37	chr1	10423363	10423363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcgagtcactggcatttacGaactcagcttatgcaaaatg	13	11	8	9	2	2	0	2	0	0	0	3	2	2	0	0	1	4	3	0	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:10423363G>A	uc001aqx.3	+	41	4529	c.4327G>A	c.(4327-4329)GAA>AAA	p.E1443K	KIF1B_uc001aqw.3_Missense_Mutation_p.E1397K|KIF1B_uc001aqy.2_Missense_Mutation_p.E1417K|KIF1B_uc001aqz.2_Missense_Mutation_p.E1443K|KIF1B_uc001ara.2_Missense_Mutation_p.E1403K|KIF1B_uc001arb.2_Missense_Mutation_p.E1429K	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1443					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		TGGCATTTACGAACTCAGCTT	0.343													39	69					0	0	1	0	0		A	10423363	A	A	10423363	3	1	89	1	0	0	0	0	1	0	0	0	8300	1059	37	1	5828	1	KIF1B	1	10423363	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	355051	10423363	238827258	22	53853											
PGD	5226	broad.mit.edu	37	chr1	10460491	10460491	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccaaagttgatgatttCttggccaatgaggcaaaggg	11	11	12	7	0	2	3	0	3	2	0	3	3	2	3	2	3	0	2	2	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:10460491C>A	uc001arc.2	+	3	216	c.126C>A	c.(124-126)TTC>TTA	p.F42L	PGD_uc001ard.2_5'UTR|PGD_uc010oak.1_Missense_Mutation_p.F42L|PGD_uc010oal.1_Missense_Mutation_p.F29L	NM_002631	NP_002622	P52209	6PGD_HUMAN	phosphogluconate dehydrogenase	42					pentose-phosphate shunt, oxidative branch	cytosol	NADP binding|phosphogluconate dehydrogenase (decarboxylating) activity|protein binding			ovary(1)	1	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.14e-07)|COAD - Colon adenocarcinoma(227;7.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.00832)|READ - Rectum adenocarcinoma(331;0.0487)		TTGATGATTTCTTGGCCAATG	0.502													33	59					4.3181e-19	5.06354e-19	1	1	0		A	10460491	A	A	10460491	3	1	89	1	0	0	0	0	1	0	0	0	11806	912	32	5	136	5	PGD	1	10460491	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	37128	10460491	238790130	23	53854											
PGD	5226	broad.mit.edu	37	chr1	10473290	10473290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccgccctggaatacggcGtacccgtcaccctcattggt	6	10	9	16	4	3	0	2	0	1	0	4	1	3	1	4	3	2	1	4	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:10473290G>A	uc001arc.2	+	8	916	c.826G>A	c.(826-828)GTA>ATA	p.V276I	PGD_uc001ard.2_Missense_Mutation_p.V196I|PGD_uc010oak.1_Missense_Mutation_p.V254I|PGD_uc010oal.1_Missense_Mutation_p.V263I	NM_002631	NP_002622	P52209	6PGD_HUMAN	phosphogluconate dehydrogenase	276					pentose-phosphate shunt, oxidative branch	cytosol	NADP binding|phosphogluconate dehydrogenase (decarboxylating) activity|protein binding			ovary(1)	1	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.14e-07)|COAD - Colon adenocarcinoma(227;7.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.00832)|READ - Rectum adenocarcinoma(331;0.0487)		GGAATACGGCGTACCCGTCAC	0.542													16	38					0	0	1	0	0		A	10473290	A	A	10473290	3	1	89	1	0	0	0	0	1	0	0	0	11806	1145	40	1	856	1	PGD	1	10473290	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12799	10473290	238777331	24	53855											
PEX14	5195	broad.mit.edu	37	chr1	10687419	10687419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaagggcttcttttaaatCggtaggagggaggaatgggg	11	10	17	3	1	1	1	0	1	1	0	2	4	1	4	0	7	0	2	0	7	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:10687419C>T	uc001arn.2	+	8	697	c.676C>T	c.(676-678)CGG>TGG	p.R226W	PEX14_uc009vmv.2_Missense_Mutation_p.R162W|PEX14_uc010oam.1_Missense_Mutation_p.R162W|PEX14_uc010oan.1_Missense_Mutation_p.R183W|PEX14_uc009vmw.2_Missense_Mutation_p.R162W	NM_004565	NP_004556	O75381	PEX14_HUMAN	peroxisomal biogenesis factor 14	226					negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|protein homooligomerization|protein import into peroxisome matrix|transmembrane transport	integral to membrane|nucleus|peroxisomal membrane|protein complex	protein N-terminus binding|transcription corepressor activity			breast(1)	1	Ovarian(185;0.203)	all_lung(284;6.02e-06)|Lung NSC(185;9.62e-06)|Renal(390;0.000147)|Breast(348;0.000932)|Colorectal(325;0.00215)|Hepatocellular(190;0.00913)|Ovarian(437;0.023)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0292)|Colorectal(212;9.13e-08)|COAD - Colon adenocarcinoma(227;2.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000482)|Kidney(185;0.00174)|KIRC - Kidney renal clear cell carcinoma(229;0.00457)|STAD - Stomach adenocarcinoma(132;0.0249)|READ - Rectum adenocarcinoma(331;0.0419)		TCTTTTAAATCGGTAGGAGGG	0.567													16	42					0	0	1	0	0		T	10687419	T	T	10687419	3	4	89	1	0	0	0	0	1	0	0	0	11761	898	31	1	706	1	PEX14	1	10687419	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	214129	10687419	238563202	25	53856											
MTOR	2475	broad.mit.edu	37	chr1	11169375	11169375	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatctcgaaccctgttaatAatctggatagctttcttatt	10	18	5	8	1	3	0	0	0	3	0	4	2	3	1	1	1	2	2	1	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:11169375A>C	uc001asd.2	-	56	7621	c.7500T>G	c.(7498-7500)ATT>ATG	p.I2500M	MTOR_uc001asc.2_Missense_Mutation_p.I705M	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	2500	PI3K/PI4K.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						CCCTGTTAATAATCTGGATAG	0.408													42	90					0	0	1	0	0		C	11169375	C	C	11169375	3	2	89	1	0	0	0	0	1	0	0	0	9972	358	13	5	161	5	MTOR	1	11169375	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	481956	11169375	238081246	26	53857											
MTOR	2475	broad.mit.edu	37	chr1	11298651	11298651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaatgatccgcacagtggcGaacaaattgggtcagagagt	14	7	13	7	2	1	2	1	1	0	1	2	5	2	2	1	2	1	1	1	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:11298651G>A	uc001asd.2	-	12	1931	c.1810C>T	c.(1810-1812)CGC>TGC	p.R604C		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	604					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GCACAGTGGCGAACAAATTGG	0.537													9	19					0	0	1	0	0		A	11298651	A	A	11298651	3	1	89	1	0	0	0	0	1	0	0	0	9972	1058	37	1	6027	1	MTOR	1	11298651	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	129276	11298651	237951970	27	53858											
PTCHD2	57540	broad.mit.edu	37	chr1	11580781	11580781	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcatcttgtccctggtgttCgccagccggctccgccccgc	2	10	10	19	4	2	0	1	0	1	0	5	0	4	0	6	2	1	2	6	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:11580781C>T	uc001ash.3	+	10	2376	c.2238C>T	c.(2236-2238)TTC>TTT	p.F746F	PTCHD2_uc001asi.1_Silent_p.F746F	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	746	Helical; (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CCCTGGTGTTCGCCAGCCGGC	0.662													13	26					0	0	1	0	0		T	11580781	T	T	11580781	2	4	89	1	0	0	0	0	0	0	0	1	12755	883	31	1		1	PTCHD2	1	11580781	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	282130	11580781	237669840	28	53859											
PTCHD2	57540	broad.mit.edu	37	chr1	11586750	11586750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttcaccaagaagctgaccGcttgtatgtctacagtaggg	11	10	10	10	1	2	2	1	1	1	1	2	2	2	2	2	1	2	4	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:11586750G>A	uc001ash.3	+	13	2794	c.2656G>A	c.(2656-2658)GCT>ACT	p.A886T	PTCHD2_uc001asi.1_Missense_Mutation_p.A886T	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	886	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GAAGCTGACCGCTTGTATGTC	0.587													78	133					0	0	1	0	0		A	11586750	A	A	11586750	3	1	89	1	0	0	0	0	1	0	0	0	12755	1087	38	1	2702	1	PTCHD2	1	11586750	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5969	11586750	237663871	29	53860											
C1orf187	374946	broad.mit.edu	37	chr1	11772432	11772432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactctccagtgatggtaacGaaacatcaccagccgaaggg	14	6	10	11	2	2	1	1	1	1	0	3	3	2	1	3	2	4	1	3	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:11772432G>A	uc001asr.1	+	5	933	c.793G>A	c.(793-795)GAA>AAA	p.E265K		NM_198545	NP_940947	Q8NBI3	DRAXI_HUMAN	chromosome 1 open reading frame 187 precursor	265					axon guidance|commissural neuron differentiation in spinal cord|dorsal spinal cord development|forebrain development|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region					0	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.48e-06)|COAD - Colon adenocarcinoma(227;0.000283)|BRCA - Breast invasive adenocarcinoma(304;0.000316)|Kidney(185;0.000841)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|STAD - Stomach adenocarcinoma(313;0.00754)|READ - Rectum adenocarcinoma(331;0.0651)		TGATGGTAACGAAACATCACC	0.567													39	84					0	0	1	0	0		A	11772432	A	A	11772432	3	1	89	1	0	0	0	0	1	0	0	0	2024	1059	37	1	807	1	C1orf187	1	11772432	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	185682	11772432	237478189	30	53861											
MTHFR	4524	broad.mit.edu	37	chr1	11851348	11851348	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgccccaagtgacagcattCggctgcagttcaggggcatt	9	9	12	11	1	1	1	1	1	0	0	2	1	1	1	2	3	3	5	2	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:11851348C>T	uc001atc.1	-	11	1852	c.1668G>A	c.(1666-1668)CCG>CCA	p.P556P	MTHFR_uc001atb.1_Silent_p.P579P	NM_005957	NP_005948	P42898	MTHR_HUMAN	5,10-methylenetetrahydrofolate reductase	556					blood circulation|folic acid metabolic process	cytosol	methylenetetrahydrofolate reductase (NADPH) activity|protein binding				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)	Benazepril(DB00542)|Cyanocobalamin(DB00115)|Folic Acid(DB00158)|L-Methionine(DB00134)|Menadione(DB00170)|Methotrexate(DB00563)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|Raltitrexed(DB00293)|Riboflavin(DB00140)|S-Adenosylmethionine(DB00118)|Tetrahydrofolic acid(DB00116)	TGACAGCATTCGGCTGCAGTT	0.587													13	34					0	0	1	0	0		T	11851348	T	T	11851348	2	4	89	1	0	0	0	0	0	0	0	1	9949	871	31	1		1	MTHFR	1	11851348	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	78916	11851348	237399273	31	53862											
PLOD1	5351	broad.mit.edu	37	chr1	12024810	12024810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accacagcaagctggaccccGacatggccttctgtgccaac	10	6	9	16	1	1	0	0	0	1	0	1	2	1	1	5	2	4	2	5	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:12024810G>A	uc001atm.2	+	13	1529	c.1438G>A	c.(1438-1440)GAC>AAC	p.D480N	PLOD1_uc010obb.1_Missense_Mutation_p.D527N	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	480					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	GCTGGACCCCGACATGGCCTT	0.612													43	83					0	0	1	0	0		A	12024810	A	A	12024810	3	1	89	1	0	0	0	0	1	0	0	0	12120	1058	37	1	1488	1	PLOD1	1	12024810	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	173462	12024810	237225811	32	53863											
VPS13D	55187	broad.mit.edu	37	chr1	12328891	12328891	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaatccgcaggccattaaaAaagtagcagactttttctac	15	10	6	10	1	1	1	0	0	1	1	2	1	2	1	2	1	2	3	2	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:12328891A>C	uc001atv.2	+	16	2071	c.1930A>C	c.(1930-1932)AAA>CAA	p.K644Q	VPS13D_uc001atw.2_Missense_Mutation_p.K644Q	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	644					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		GGCCATTAAAAAAGTAGCAGA	0.398													54	80					0	0	1	0	0		C	12328891	C	C	12328891	3	2	89	1	0	0	0	0	1	0	0	0	17218	15	1	5	1988	5	VPS13D	1	12328891	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	304081	12328891	236921730	33	53864											
VPS13D	55187	broad.mit.edu	37	chr1	12337735	12337735	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgaaatatatgggtttGacctagcttcgtctcatttg	12	15	8	6	1	1	2	1	2	1	0	3	2	1	2	1	1	1	2	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:12337735G>T	uc001atv.2	+	19	4231	c.4090G>T	c.(4090-4092)GAC>TAC	p.D1364Y	VPS13D_uc001atw.2_Missense_Mutation_p.D1364Y|VPS13D_uc001atx.2_Missense_Mutation_p.D552Y	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	1364					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		ATATGGGTTTGACCTAGCTTC	0.433													46	76					5.2432e-18	6.11334e-18	1	1	0		T	12337735	T	T	12337735	3	4	89	1	0	0	0	0	1	0	0	0	17218	1290	45	5	4160	5	VPS13D	1	12337735	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8844	12337735	236912886	34	53865											
VPS13D	55187	broad.mit.edu	37	chr1	12395786	12395786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtatgtaagtaccaaggaatCgtggatggcagattactgta	13	11	12	5	1	0	1	0	0	0	1	1	3	0	3	1	3	2	5	1	3	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:12395786C>T	uc001atv.2	+	39	8594	c.8453C>T	c.(8452-8454)TCG>TTG	p.S2818L	VPS13D_uc001atw.2_Missense_Mutation_p.S2818L|VPS13D_uc001atx.2_Missense_Mutation_p.S2006L|VPS13D_uc001aty.1_Missense_Mutation_p.S556L	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2818					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		ACCAAGGAATCGTGGATGGCA	0.408													35	71					0	0	1	0	0		T	12395786	T	T	12395786	3	4	89	1	0	0	0	0	1	0	0	0	17218	893	31	1	8603	1	VPS13D	1	12395786	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	58051	12395786	236854835	35	53866											
VPS13D	55187	broad.mit.edu	37	chr1	12433865	12433865	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccattacctgtgcggagctCgttttggatgtctcacccaa	7	12	10	12	2	1	0	1	0	1	0	3	2	1	2	3	2	3	2	3	2	2	3	rs145410334		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:12433865C>T	uc001atv.2	+	55	11010	c.10869C>T	c.(10867-10869)CTC>CTT	p.L3623L	VPS13D_uc001atw.2_Silent_p.L3598L|VPS13D_uc001atx.2_Silent_p.L2810L|VPS13D_uc009vnl.2_RNA	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3622					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		GTGCGGAGCTCGTTTTGGATG	0.323													20	31					0	0	1	0	0		T	12433865	T	T	12433865	2	4	89	1	0	0	0	0	0	0	0	1	17218	871	31	1		1	VPS13D	1	12433865	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	38079	12433865	236816756	36	53867											
AADACL4	343066	broad.mit.edu	37	chr1	12711190	12711190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctccatgcccaaatttattCgttttttacatgatagcgtg	9	16	7	9	2	0	1	0	1	0	0	2	1	1	1	2	0	3	2	2	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:12711190C>T	uc001auf.2	+	2	217	c.217C>T	c.(217-219)CGT>TGT	p.R73C		NM_001013630	NP_001013652	Q5VUY2	ADCL4_HUMAN	arylacetamide deacetylase-like 4	73	Lumenal (Potential).					integral to membrane	carboxylesterase activity				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000937)|all_lung(284;0.00122)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.81e-07)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0384)		CAAATTTATTCGTTTTTTACA	0.458													46	59					0	0	1	0	0		T	12711190	T	T	12711190	3	4	89	1	0	0	0	0	1	0	0	0	13	884	31	1	223	1	AADACL4	1	12711190	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	277325	12711190	236539431	37	53868											
PRAMEF12	390999	broad.mit.edu	37	chr1	12837573	12837573	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgctctctgctggggaaGattttctcaacttggggctg	5	13	15	8	0	2	1	1	0	2	1	4	2	2	2	0	5	3	3	0	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:12837573G>T	uc001aui.2	+	3	1310	c.1283G>T	c.(1282-1284)AGA>ATA	p.R428I		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	428										ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TGCTGGGGAAGATTTTCTCAA	0.567													49	96					8.04919e-23	9.61489e-23	1	1	0		T	12837573	T	T	12837573	3	4	89	1	0	0	0	0	1	0	0	0	12450	942	33	5	1293	5	PRAMEF12	1	12837573	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	126383	12837573	236413048	38	53869											
LOC649330	649330	broad.mit.edu	37	chr1	12907513	12907513	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttcacctctacctcttgTttgctctgttccttttcaat	4	22	3	12	0	5	0	2	0	3	0	6	0	6	0	3	0	2	3	3	0	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:12907513T>C	uc009vno.2	-	1	725	c.630A>G	c.(628-630)AAA>AAG	p.K210K	HNRNPCL1_uc010obf.1_Silent_p.K210K	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	210							nucleic acid binding|nucleotide binding				0						CTACCTCTTGTTTGCTCTGTT	0.448													63	170					0	0	1	0	0		C	12907513	C	C	12907513	2	2	89	1	0	0	0	0	0	0	0	1	8903	1722	60	3		3	LOC649330	1	12907513	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	69940	12907513	236343108	39	53870											
LOC649330	649330	broad.mit.edu	37	chr1	12907715	12907715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgatagacgttgacgtttcGagggcactacagccagagca	11	8	12	10	3	0	4	0	2	0	2	1	5	0	4	1	1	3	4	1	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:12907715G>A	uc009vno.2	-	1	523	c.428C>T	c.(427-429)TCG>TTG	p.S143L	HNRNPCL1_uc010obf.1_Missense_Mutation_p.S143L	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	143							nucleic acid binding|nucleotide binding				0						TTGACGTTTCGAGGGCACTAC	0.483													121	145					0	0	1	0	0		A	12907715	A	A	12907715	3	1	89	1	0	0	0	0	1	0	0	0	8903	1059	37	1	457	1	LOC649330	1	12907715	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	202	12907715	236342906	40	53871											
LOC649330	649330	broad.mit.edu	37	chr1	12907963	12907963	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcagcccgggcatttttCtccttatcatattgaacgaa	11	12	7	11	2	2	1	1	1	1	0	3	2	2	1	2	1	3	2	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:12907963C>A	uc009vno.2	-	1	275	c.180G>T	c.(178-180)GAG>GAT	p.E60D	HNRNPCL1_uc010obf.1_Missense_Mutation_p.E60D	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	60							nucleic acid binding|nucleotide binding				0						GGGCATTTTTCTCCTTATCAT	0.473													20	158					1.64293e-13	1.8379e-13	1	1	0		A	12907963	A	A	12907963	3	1	89	1	0	0	0	0	1	0	0	0	8903	912	32	5	705	5	LOC649330	1	12907963	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	248	12907963	236342658	41	53872											
LOC649330	649330	broad.mit.edu	37	chr1	12908038	12908038	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgccatacttggaaaagatCgcctccacatccgatttctt	10	13	6	12	2	1	1	0	0	1	1	4	3	3	2	4	1	2	0	4	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:12908038C>T	uc009vno.2	-	1	200	c.105G>A	c.(103-105)GCG>GCA	p.A35A	HNRNPCL1_uc010obf.1_Silent_p.A35A	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	35							nucleic acid binding|nucleotide binding				0						TGGAAAAGATCGCCTCCACAT	0.473													20	242					0	0	1	0	0		T	12908038	T	T	12908038	2	4	89	1	0	0	0	0	0	0	0	1	8903	871	31	1		1	LOC649330	1	12908038	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	75	12908038	236342583	42	53873											
PRAMEF2	65122	broad.mit.edu	37	chr1	12920008	12920008	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcattacacgtcagataatGaactcgagggatggttagtc	13	11	10	7	2	2	2	2	1	0	1	4	4	2	3	0	2	2	1	0	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:12920008G>T	uc001aum.1	+	3	835	c.748G>T	c.(748-750)GAA>TAA	p.E250*		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	250											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GTCAGATAATGAACTCGAGGG	0.438													64	180					2.2129e-31	2.71135e-31	1	1	0		T	12920008	T	T	12920008	4	4	89	1	0	0	0	0	0	1	0	0	12457	1291	45	5	754	5	PRAMEF2	1	12920008	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11970	12920008	236330613	43	53874											
PRAMEF6	440561	broad.mit.edu	37	chr1	13001306	13001306	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgttcctcttggcattgAggaagcacccacgggccata	8	12	10	11	1	1	1	0	1	1	0	2	2	2	2	3	3	1	3	3	3	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:13001306A>C	uc001auq.2	-	3	463	c.377T>G	c.(376-378)CTC>CGC	p.L126R	PRAMEF5_uc001aur.2_Intron	NM_001010889	NP_001010889	Q5VXH4	PRAM6_HUMAN	PRAME family member 6	126											0	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CTTGGCATTGAGGAAGCACCC	0.498													114	437					0	0	1	0	0		C	13001306	C	C	13001306	3	2	89	1	0	0	0	0	1	0	0	0	12460	304	11	5	1061	5	PRAMEF6	1	13001306	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	81298	13001306	236249315	44	53875											
PDPN	10630	broad.mit.edu	37	chr1	13936969	13936969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccacgcgcaagaacaaagtCcaagcgccacagcctcaaac	15	3	7	16	3	1	1	1	0	0	1	3	1	3	1	4	0	4	1	4	0	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:13936969C>T	uc001avd.2	+	3	566	c.517C>T	c.(517-519)CCA>TCA	p.P173S	PDPN_uc001avc.2_Missense_Mutation_p.P173S|PDPN_uc009vob.2_Missense_Mutation_p.P55S|PDPN_uc009voc.2_Missense_Mutation_p.P55S|PDPN_uc001ave.2_Missense_Mutation_p.P55S|PDPN_uc001avf.2_Missense_Mutation_p.P55S	NM_006474	NP_006465	Q86YL7	PDPN_HUMAN	lung type-I cell membrane-associated	97	Extracellular (Potential).				cell morphogenesis|lymphangiogenesis|regulation of cell shape	filopodium membrane|integral to plasma membrane|lamellipodium membrane|microvillus membrane|ruffle membrane				ovary(2)	2	Ovarian(185;0.249)	all_lung(284;2.29e-05)|Lung NSC(185;4.37e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00969)|Colorectal(212;4.48e-06)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000347)|Kidney(185;0.00087)|KIRC - Kidney renal clear cell carcinoma(229;0.0027)|STAD - Stomach adenocarcinoma(313;0.00802)|READ - Rectum adenocarcinoma(331;0.0678)		AGAACAAAGTCCAAGCGCCAC	0.512													33	91					0	0	1	0	0		T	13936969	T	T	13936969	3	4	89	1	0	0	0	0	1	0	0	0	11707	855	30	4	527	4	PDPN	1	13936969	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	935663	13936969	235313652	45	53876											
PDPN	10630	broad.mit.edu	37	chr1	13940804	13940804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcttgttcagatggtttgtCaacagtgaccctggttggaa	8	14	11	8	0	3	2	2	1	1	1	3	3	3	3	1	3	1	3	1	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:13940804C>T	uc001avd.2	+	5	657	c.608C>T	c.(607-609)TCA>TTA	p.S203L	PDPN_uc001avc.2_Missense_Mutation_p.S203L|PDPN_uc009vob.2_Missense_Mutation_p.S85L|PDPN_uc009voc.2_Missense_Mutation_p.S85L|PDPN_uc001ave.2_Missense_Mutation_p.S85L|PDPN_uc001avf.2_Missense_Mutation_p.S85L	NM_006474	NP_006465	Q86YL7	PDPN_HUMAN	lung type-I cell membrane-associated	127	Extracellular (Potential).				cell morphogenesis|lymphangiogenesis|regulation of cell shape	filopodium membrane|integral to plasma membrane|lamellipodium membrane|microvillus membrane|ruffle membrane				ovary(2)	2	Ovarian(185;0.249)	all_lung(284;2.29e-05)|Lung NSC(185;4.37e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00969)|Colorectal(212;4.48e-06)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000347)|Kidney(185;0.00087)|KIRC - Kidney renal clear cell carcinoma(229;0.0027)|STAD - Stomach adenocarcinoma(313;0.00802)|READ - Rectum adenocarcinoma(331;0.0678)		GATGGTTTGTCAACAGTGACC	0.423													29	55					0	0	1	0	0		T	13940804	T	T	13940804	3	4	89	1	0	0	0	0	1	0	0	0	11707	838	29	4	626	4	PDPN	1	13940804	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3835	13940804	235309817	46	53877											
PRDM2	7799	broad.mit.edu	37	chr1	14106701	14106701	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccatgctttgatgaatataAaatgtctaaagagtggacag	15	12	9	5	0	1	3	0	2	1	1	2	4	2	4	1	1	1	1	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:14106701A>C	uc001avi.2	+	8	3267	c.2411A>C	c.(2410-2412)AAA>ACA	p.K804T	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.K804T|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.K561T|PRDM2_uc001avk.2_Missense_Mutation_p.K603T|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	804						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GATGAATATAAAATGTCTAAA	0.448													25	56					0	0	1	0	0		C	14106701	C	C	14106701	3	2	89	1	0	0	0	0	1	0	0	0	12480	14	1	5	2437	5	PRDM2	1	14106701	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	165897	14106701	235143920	47	53878											
PRDM2	7799	broad.mit.edu	37	chr1	14108921	14108921	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcaggccccacccaagTcccacttccctcctcatcct	7	8	4	22	0	2	0	2	0	0	0	6	0	6	0	7	1	1	1	7	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:14108921T>C	uc001avi.2	+	8	5487	c.4631T>C	c.(4630-4632)GTC>GCC	p.V1544A	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.V1544A|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.V1343A|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1544						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		CCCACCCAAGTCCCACTTCCC	0.547													48	72					0	0	1	0	0		C	14108921	C	C	14108921	3	2	89	1	0	0	0	0	1	0	0	0	12480	1667	58	3	4657	3	PRDM2	1	14108921	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2220	14108921	235141700	48	53879											
KAZ	23254	broad.mit.edu	37	chr1	15441017	15441017	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agcagcaaagatcccgatttCcatgatgactatggctctct	11	11	8	11	1	1	3	0	2	1	1	4	4	3	3	2	1	2	3	2	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:15441017C>T	uc001avm.3	+	15	2495	c.2214C>T	c.(2212-2214)TTC>TTT	p.F738F	C1orf126_uc001avv.3_RNA|C1orf126_uc009voh.2_RNA|KAZ_uc001avs.3_Silent_p.F185F	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	738					keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						ATCCCGATTTCCATGATGACT	0.507													5	16					0	0	1	0	0		T	15441017	T	T	15441017	2	4	89	1	0	0	0	0	0	0	0	1	8004	854	30	4		4	KAZ	1	15441017	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1332096	15441017	233809604	49	53880											
TMEM51	55092	broad.mit.edu	37	chr1	15541819	15541819	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggggtgatgctgctgctgcTttctatctgcctgagtatca	5	14	12	10	1	3	2	1	2	2	0	3	2	3	2	1	2	5	5	1	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:15541819T>G	uc001avw.3	+	3	755	c.236T>G	c.(235-237)CTT>CGT	p.L79R	TMEM51_uc010obk.1_Missense_Mutation_p.L79R|TMEM51_uc001avz.2_Missense_Mutation_p.L79R|TMEM51_uc001avy.2_Missense_Mutation_p.L79R|TMEM51_uc001avx.2_Missense_Mutation_p.L79R	NM_001136216	NP_001129688	Q9NW97	TMM51_HUMAN	transmembrane protein 51	79	Helical; (Potential).					integral to membrane					0		Renal(390;0.00145)|Breast(348;0.00186)|Colorectal(325;0.00215)|all_lung(284;0.00459)|Lung NSC(340;0.0104)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;2.07e-06)|COAD - Colon adenocarcinoma(227;7.14e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000175)|KIRC - Kidney renal clear cell carcinoma(229;0.00141)|STAD - Stomach adenocarcinoma(313;0.00644)|READ - Rectum adenocarcinoma(331;0.0751)		CTGCTGCTGCTTTCTATCTGC	0.642													37	97					0	0	1	0	0		G	15541819	G	G	15541819	3	3	89	1	0	0	0	0	1	0	0	0	16202	1609	56	5	238	5	TMEM51	1	15541819	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	100802	15541819	233708802	50	53881											
CELA2B	51032	broad.mit.edu	37	chr1	15809762	15809762	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccgcactcacccaggaaCgacattgccctgctcaaact	10	7	6	18	2	2	0	2	0	0	0	3	2	3	1	4	1	4	2	4	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:15809762C>T	uc001awl.2	+	5	385	c.360C>T	c.(358-360)AAC>AAT	p.N120N		NM_015849	NP_056933	P08218	CEL2B_HUMAN	elastase 2B preproprotein	120	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1						CACCCAGGAACGACATTGCCC	0.587													23	111					0	0	1	0	0		T	15809762	T	T	15809762	2	4	89	1	0	0	0	0	0	0	0	1	3215	535	19	1		1	CELA2B	1	15809762	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	267943	15809762	233440859	51	53882											
DNAJC16	23341	broad.mit.edu	37	chr1	15874828	15874828	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatgtgggtttgagagggAcggaagagatgacaaggcgg	12	8	18	3	2	0	3	0	2	0	2	0	7	0	5	0	5	0	1	0	5	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:15874828A>G	uc001aws.2	+	7	1048	c.928A>G	c.(928-930)ACG>GCG	p.T310A	DNAJC16_uc001awr.1_Missense_Mutation_p.T310A|DNAJC16_uc001awt.2_5'UTR	NM_015291	NP_056106	Q9Y2G8	DJC16_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 16	310	Cytoplasmic (Potential).				cell redox homeostasis|protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			urinary_tract(1)|lung(1)|kidney(1)	3		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00173)|all_lung(284;0.00459)|Lung NSC(340;0.00499)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		TTTGAGAGGGACGGAAGAGAT	0.403													16	53					0	0	1	0	0		G	15874828	G	G	15874828	3	3	89	1	0	0	0	0	1	0	0	0	4641	275	10	3	950	3	DNAJC16	1	15874828	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	65066	15874828	233375793	52	53883											
DDI2	84301	broad.mit.edu	37	chr1	15964914	15964914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatggacatcctgtgaaaGcctttgttgactcaggtgac	10	12	11	8	0	1	4	1	4	0	0	2	5	2	5	2	2	1	1	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:15964914G>A	uc001awx.1	+	5	841	c.745G>A	c.(745-747)GCC>ACC	p.A249T	DDI2_uc009voj.1_Intron	NM_032341	NP_115717	Q5TDH0	DDI2_HUMAN	DNA-damage inducible protein 2	249					proteolysis		aspartic-type endopeptidase activity				0		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00327)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.03e-07)|COAD - Colon adenocarcinoma(227;4.48e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		TCCTGTGAAAGCCTTTGTTGA	0.453													98	318					0	0	1	0	0		A	15964914	A	A	15964914	3	1	89	1	0	0	0	0	1	0	0	0	4332	971	34	2	763	2	DDI2	1	15964914	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	90086	15964914	233285707	53	53884											
SPEN	23013	broad.mit.edu	37	chr1	16237756	16237756	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcaaaaggaaaacttttCtttggcatgcagattgaagt	14	12	9	6	0	2	2	1	1	1	1	2	3	2	3	0	2	2	3	0	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:16237756C>A	uc001axk.1	+	5	1407	c.1203C>A	c.(1201-1203)TTC>TTA	p.F401L	SPEN_uc010obp.1_Missense_Mutation_p.F360L	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	401	RRM 2.|By similarity.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GAAAACTTTTCTTTGGCATGC	0.433													27	71					6.12954e-19	7.17843e-19	1	1	0		A	16237756	A	A	16237756	3	1	89	1	0	0	0	0	1	0	0	0	15063	912	32	5	1221	5	SPEN	1	16237756	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	272842	16237756	233012865	54	53885											
SPEN	23013	broad.mit.edu	37	chr1	16254624	16254624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacgactataaccaagatcGtacatattatgagagtgttc	14	12	7	8	2	0	2	0	1	0	2	2	4	0	2	1	0	3	2	1	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:16254624G>A	uc001axk.1	+	11	2093	c.1889G>A	c.(1888-1890)CGT>CAT	p.R630H	SPEN_uc010obp.1_Missense_Mutation_p.R589H	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	630	Arg-rich.|Tyr-rich.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AACCAAGATCGTACATATTAT	0.408													70	62					0	0	1	0	0		A	16254624	A	A	16254624	3	1	89	1	0	0	0	0	1	0	0	0	15063	1145	40	1	1931	1	SPEN	1	16254624	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16868	16254624	232995997	55	53886											
SPEN	23013	broad.mit.edu	37	chr1	16255513	16255513	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcagacggagcctgcaaaAtctgacttgtctaaactgga	12	10	9	10	1	3	2	1	1	3	1	4	4	3	4	1	2	3	1	1	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:16255513A>C	uc001axk.1	+	11	2982	c.2778A>C	c.(2776-2778)AAA>AAC	p.K926N	SPEN_uc010obp.1_Missense_Mutation_p.K885N	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	926					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AGCCTGCAAAATCTGACTTGT	0.448													108	276					0	0	1	0	0		C	16255513	C	C	16255513	3	2	89	1	0	0	0	0	1	0	0	0	15063	98	4	5	2820	5	SPEN	1	16255513	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	889	16255513	232995108	56	53887											
SPEN	23013	broad.mit.edu	37	chr1	16260420	16260420	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagccattgcagagcctgTcagtgctgccccttgcctac	7	9	9	16	0	1	1	1	0	0	1	1	1	1	1	5	0	7	2	5	0	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:16260420T>C	uc001axk.1	+	11	7889	c.7685T>C	c.(7684-7686)GTC>GCC	p.V2562A	SPEN_uc010obp.1_Missense_Mutation_p.V2521A	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2562	RID.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GCAGAGCCTGTCAGTGCTGCC	0.532													110	237					0	0	1	0	0		C	16260420	C	C	16260420	3	2	89	1	0	0	0	0	1	0	0	0	15063	1667	58	3	7727	3	SPEN	1	16260420	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4907	16260420	232990201	57	53888											
SPEN	23013	broad.mit.edu	37	chr1	16265254	16265254	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgctggctctgccctgtggCcgtgaccaagaggatgttgt	5	11	14	11	1	1	2	0	1	1	1	1	3	1	3	3	3	2	3	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:16265254C>T	uc001axk.1	+	14	10950	c.10746C>T	c.(10744-10746)GGC>GGT	p.G3582G	SPEN_uc010obp.1_Silent_p.G3541G	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	3582	SPOC.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		TGCCCTGTGGCCGTGACCAAG	0.597													15	48					0	0	1	0	0		T	16265254	T	T	16265254	2	4	89	1	0	0	0	0	0	0	0	1	15063	726	26	2		2	SPEN	1	16265254	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4834	16265254	232985367	58	53889											
CLCNKA	1187	broad.mit.edu	37	chr1	16359671	16359671	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcccccatccaggcacaaAacctctttaagctgttgaac	13	9	5	14	0	1	1	0	1	1	0	3	1	3	1	4	1	3	3	4	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:16359671A>C	uc001axu.2	+	19	2016	c.1936A>C	c.(1936-1938)AAC>CAC	p.N646H	CLCNKA_uc001axt.2_RNA|CLCNKA_uc001axv.2_Missense_Mutation_p.N645H|CLCNKA_uc010obw.1_Missense_Mutation_p.N603H|CLCNKB_uc001axw.3_Intron	NM_004070	NP_004061	P51800	CLCKA_HUMAN	chloride channel Ka isoform 1	646	CBS 2.				excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)	Niflumic Acid(DB04552)	CCAGGCACAAAACCTCTTTAA	0.622											OREG0013132	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	52	159					0	0	1	0	0		C	16359671	C	C	16359671	3	2	89	1	0	0	0	0	1	0	0	0	3472	14	1	5	2006	5	CLCNKA	1	16359671	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	94417	16359671	232890950	59	53890											
ARHGEF19	128272	broad.mit.edu	37	chr1	16528923	16528923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactcactccgtccgggccCgcagcaggaactggtgcttc	6	7	11	17	3	1	0	1	0	0	0	4	1	3	1	4	3	3	3	4	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:16528923C>T	uc001ayc.1	-	13	2191	c.2054G>A	c.(2053-2055)CGG>CAG	p.R685Q	ARHGEF19_uc009voo.1_Missense_Mutation_p.R38Q|ARHGEF19_uc001ayb.1_Missense_Mutation_p.R162Q	NM_153213	NP_694945	Q8IW93	ARHGJ_HUMAN	Rho guanine nucleotide exchange factor (GEF) 19	685	PH.				regulation of actin cytoskeleton organization	intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|Colorectal(212;3.48e-07)|COAD - Colon adenocarcinoma(227;2.19e-05)|BRCA - Breast invasive adenocarcinoma(304;9.46e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.0117)|READ - Rectum adenocarcinoma(331;0.0649)		CGTCCGGGCCCGCAGCAGGAA	0.682													5	20					0	0	1	0	0		T	16528923	T	T	16528923	3	4	89	1	0	0	0	0	1	0	0	0	902	652	23	1	370	1	ARHGEF19	1	16528923	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	169252	16528923	232721698	60	53891											
FBXO42	54455	broad.mit.edu	37	chr1	16632304	16632304	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtaaatacttactgtgcgAgaagcgctgagtgattgggg	11	10	14	6	2	0	3	0	2	0	1	0	4	0	3	0	2	4	2	0	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:16632304A>G	uc001ayg.2	-	3	577	c.361T>C	c.(361-363)TCG>CCG	p.S121P	FBXO42_uc001ayf.2_Missense_Mutation_p.S28P|FBXO42_uc001ayh.2_Missense_Mutation_p.S121P	NM_018994	NP_061867	Q6P3S6	FBX42_HUMAN	F-box protein 42	121										upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00475)|all_lung(284;0.00671)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0193)|Colorectal(212;3.16e-07)|COAD - Colon adenocarcinoma(227;1.46e-05)|BRCA - Breast invasive adenocarcinoma(304;4.37e-05)|Kidney(64;0.000246)|KIRC - Kidney renal clear cell carcinoma(64;0.00336)|STAD - Stomach adenocarcinoma(313;0.0139)|READ - Rectum adenocarcinoma(331;0.0693)		TTACTGTGCGAGAAGCGCTGA	0.418													26	57					0	0	1	0	0		G	16632304	G	G	16632304	3	3	89	1	0	0	0	0	1	0	0	0	5765	304	11	3	1824	3	FBXO42	1	16632304	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	103381	16632304	232618317	61	53892											
CROCC	9696	broad.mit.edu	37	chr1	17265432	17265432	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagactctgagagcggcgTccagctgagcggctctgagc	7	7	15	12	3	3	4	1	3	2	2	4	5	4	4	1	2	4	2	1	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:17265432T>C	uc001azt.2	+	12	1472	c.1403T>C	c.(1402-1404)GTC>GCC	p.V468A	CROCC_uc009voy.1_Missense_Mutation_p.V171A|CROCC_uc009voz.1_Missense_Mutation_p.V231A|CROCC_uc001azu.2_5'Flank	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	468					cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		GAGAGCGGCGTCCAGCTGAGC	0.706													12	25					0	0	1	0	0		C	17265432	C	C	17265432	3	2	89	1	0	0	0	0	1	0	0	0	3896	1667	58	3	1449	3	CROCC	1	17265432	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	633128	17265432	231985189	62	53893											
CROCC	9696	broad.mit.edu	37	chr1	17280759	17280759	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagacggcgctgtcagaGaagttgatgggtacacggca	12	6	16	7	3	1	4	1	1	0	3	1	6	1	4	0	3	1	4	0	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:17280759G>T	uc001azt.2	+	22	3297	c.3228G>T	c.(3226-3228)GAG>GAT	p.E1076D	CROCC_uc009voz.1_Missense_Mutation_p.E675D|CROCC_uc001azu.2_Missense_Mutation_p.E379D	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	1076					cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		CGCTGTCAGAGAAGTTGATGG	0.637													22	169					2.70639e-06	2.81248e-06	1	1	0		T	17280759	T	T	17280759	3	4	89	1	0	0	0	0	1	0	0	0	3896	933	33	5	3314	5	CROCC	1	17280759	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	15327	17280759	231969862	63	53894											
PADI4	23569	broad.mit.edu	37	chr1	17690157	17690157	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaccttcatcaacgacttCttcacctaccacatcaggca	11	10	4	16	1	5	0	4	0	1	0	5	1	5	0	3	1	3	2	3	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:17690157C>A	uc001baj.2	+	16	1927	c.1899C>A	c.(1897-1899)TTC>TTA	p.F633L		NM_012387	NP_036519	Q9UM07	PADI4_HUMAN	peptidyl arginine deiminase, type IV	633					chromatin modification|peptidyl-citrulline biosynthetic process from peptidyl-arginine|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000338)|Lung NSC(340;0.00042)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00537)|BRCA - Breast invasive adenocarcinoma(304;8.54e-06)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(64;0.000223)|KIRC - Kidney renal clear cell carcinoma(64;0.00313)|STAD - Stomach adenocarcinoma(196;0.00707)|READ - Rectum adenocarcinoma(331;0.0689)|Lung(427;0.199)	L-Citrulline(DB00155)	TCAACGACTTCTTCACCTACC	0.612													20	21					1.01871e-10	1.10886e-10	1	1	0		A	17690157	A	A	17690157	3	1	89	1	0	0	0	0	1	0	0	0	11399	912	32	5	1961	5	PADI4	1	17690157	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	409398	17690157	231560464	64	53895											
PADI6	353238	broad.mit.edu	37	chr1	17707627	17707627	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggccagcaacttgaggAcaagaaaaccaagaaagtga	17	5	12	7	0	0	4	0	2	0	2	0	5	0	5	2	2	3	1	2	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:17707627A>G	uc001bak.1	+	5	521	c.521A>G	c.(520-522)GAC>GGC	p.D174G		NM_207421	NP_997304	Q6TGC4	PADI6_HUMAN	peptidylarginine deiminase type 6	166					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;7.59e-06)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.0134)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	CAACTTGAGGACAAGAAAACC	0.502													3	5					0	0	1	0	0		G	17707627	G	G	17707627	3	3	89	1	0	0	0	0	1	0	0	0	11400	275	10	3	539	3	PADI6	1	17707627	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	17470	17707627	231542994	65	53896											
PADI6	353238	broad.mit.edu	37	chr1	17721561	17721561	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggccacgtggatgagttCatgtgcttcatccccacaga	9	10	10	12	1	2	2	2	1	0	1	3	3	3	3	3	2	1	2	3	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:17721561C>A	uc001bak.1	+	13	1452	c.1452C>A	c.(1450-1452)TTC>TTA	p.F484L		NM_207421	NP_997304	Q6TGC4	PADI6_HUMAN	peptidylarginine deiminase type 6	476					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;7.59e-06)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.0134)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	TGGATGAGTTCATGTGCTTCA	0.532													28	67					2.12542e-12	2.35257e-12	1	1	0		A	17721561	A	A	17721561	3	1	89	1	0	0	0	0	1	0	0	0	11400	825	29	5	1499	5	PADI6	1	17721561	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13934	17721561	231529060	66	53897											
RCC2	55920	broad.mit.edu	37	chr1	17735647	17735647	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctttctcagtctcacttTcatctcttgctatcaccaag	7	17	3	14	0	6	0	4	0	4	0	10	0	6	0	1	0	1	1	1	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:17735647T>G	uc001bal.2	-	12	1555	c.1508A>C	c.(1507-1509)GAA>GCA	p.E503A	RCC2_uc001bam.2_Missense_Mutation_p.E503A	NM_001136204	NP_001129676	Q9P258	RCC2_HUMAN	regulator of chromosome condensation 2	503					cell division|mitotic prometaphase	chromosome, centromeric region|cytosol|microtubule|nucleolus|spindle					0		Colorectal(325;0.000147)|Breast(348;0.00122)|Renal(390;0.00145)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;7.69e-06)|COAD - Colon adenocarcinoma(227;1.19e-05)|Kidney(64;0.000189)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.0135)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)		AGTCTCACTTTCATCTCTTGC	0.552													37	73					0	0	1	0	0		G	17735647	G	G	17735647	3	3	89	1	0	0	0	0	1	0	0	0	13199	1783	62	5	64	5	RCC2	1	17735647	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	14086	17735647	231514974	67	53898											
ACTL8	81569	broad.mit.edu	37	chr1	18149556	18149556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtctggctttttgaaggctgGcacggccggctggaatgagc	6	10	16	9	2	1	2	0	2	1	0	1	3	1	3	1	6	1	4	1	6	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:18149556G>A	uc001bat.2	+	2	269	c.53G>A	c.(52-54)GGC>GAC	p.G18D		NM_030812	NP_110439	Q9H568	ACTL8_HUMAN	actin-like 8	18						cytoplasm|cytoskeleton				ovary(4)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00186)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;6.43e-06)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.00652)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)		TTGAAGGCTGGCACGGCCGGC	0.592													26	32					0	0	1	0	0		A	18149556	A	A	18149556	3	1	89	1	0	0	0	0	1	0	0	0	202	1203	42	2	55	2	ACTL8	1	18149556	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	413909	18149556	231101065	68	53899											
ACTL8	81569	broad.mit.edu	37	chr1	18152471	18152471	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccgcctatctcctcaaGagtctctttaaggaagattg	9	13	7	12	1	4	2	1	0	3	2	7	3	4	3	3	1	0	0	3	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:18152471G>T	uc001bat.2	+	3	774	c.558G>T	c.(556-558)AAG>AAT	p.K186N		NM_030812	NP_110439	Q9H568	ACTL8_HUMAN	actin-like 8	186						cytoplasm|cytoskeleton				ovary(4)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00186)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;6.43e-06)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.00652)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)		ATCTCCTCAAGAGTCTCTTTA	0.612											OREG0013157	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	28					0.00307968	0.0031162	1	1	0		T	18152471	T	T	18152471	3	4	89	1	0	0	0	0	1	0	0	0	202	933	33	5	564	5	ACTL8	1	18152471	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2915	18152471	231098150	69	53900											
KLHDC7A	127707	broad.mit.edu	37	chr1	18809805	18809805	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatttgcctcagaccagggTctagcagtccctcaactgag	9	9	10	13	1	3	2	2	1	1	1	4	3	4	2	3	1	3	1	3	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:18809805T>G	uc001bax.2	+	1	2382	c.2330T>G	c.(2329-2331)GTC>GGC	p.V777G	KLHDC7A_uc009vpg.2_Intron	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	777						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CAGACCAGGGTCTAGCAGTCC	0.652													35	59					0	0	1	0	0		G	18809805	G	G	18809805	3	3	89	1	0	0	0	0	1	0	0	0	8376	1667	58	5	2332	5	KLHDC7A	1	18809805	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	657334	18809805	230440816	70	53901											
PAX7	5081	broad.mit.edu	37	chr1	19027166	19027166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctggttcagtaaccgccGcgcccgttggcgtaagcagg	6	8	15	12	5	2	0	1	0	1	0	2	0	2	0	3	4	2	5	3	4	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:19027166G>A	uc001bay.2	+	6	1404	c.806G>A	c.(805-807)CGC>CAC	p.R269H	PAX7_uc001baz.2_Missense_Mutation_p.R267H|PAX7_uc010oct.1_Missense_Mutation_p.R269H	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	269	Homeobox.				anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		AGTAACCGCCGCGCCCGTTGG	0.652			T	FOXO1A	alveolar rhabdomyosarcoma								32	62					0	0	1	0	0		A	19027166	A	A	19027166	3	1	89	1	0	0	0	0	1	0	0	0	11503	1087	38	1	828	1	PAX7	1	19027166	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	217361	19027166	230223455	71	53902											
TAS1R2	80834	broad.mit.edu	37	chr1	19166471	19166471	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacaggagacaattgtgatCttggggtcatcggggtcagt	9	12	14	6	1	3	2	2	1	1	1	4	3	3	2	0	5	1	0	0	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:19166471C>A	uc001bba.1	-	6	2143	c.2142G>T	c.(2140-2142)AAG>AAT	p.K714N		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	714	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	CAATTGTGATCTTGGGGTCAT	0.542													28	49					9.39395e-14	1.05303e-13	1	1	0		A	19166471	A	A	19166471	3	1	89	1	0	0	0	0	1	0	0	0	15588	912	32	5	381	5	TAS1R2	1	19166471	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	139305	19166471	230084150	72	53903											
FAM43B	163933	broad.mit.edu	37	chr1	20879493	20879493	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctggagacgtaacaaattCgtgctggtggaggacgaggc	10	7	15	9	3	0	1	0	0	0	1	1	5	0	3	1	5	2	2	1	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:20879493C>T	uc001bdj.2	+	1	562	c.27C>T	c.(25-27)TTC>TTT	p.F9F		NM_207334	NP_997217	Q6ZT52	FA43B_HUMAN	family with sequence similarity 43, member B	9											0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00979)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000132)|Kidney(64;0.00016)|GBM - Glioblastoma multiforme(114;0.000399)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.195)		GTAACAAATTCGTGCTGGTGG	0.692													8	28					0	0	1	0	0		T	20879493	T	T	20879493	2	4	89	1	0	0	0	0	0	0	0	1	5577	883	31	1		1	FAM43B	1	20879493	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1713022	20879493	228371128	73	53904											
KIF17	57576	broad.mit.edu	37	chr1	20991151	20991151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaagggatgtcgagggactCgaggcggaagggccggggct	9	4	21	7	4	0	0	0	0	0	0	2	6	0	3	1	7	0	1	1	7	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:20991151C>T	uc001bdr.3	-	15	3134	c.3016G>A	c.(3016-3018)GAG>AAG	p.E1006K	KIF17_uc001bdp.3_Missense_Mutation_p.E283K|KIF17_uc001bdq.3_Missense_Mutation_p.E284K|KIF17_uc009vpx.2_Missense_Mutation_p.E376K|KIF17_uc001bds.3_Missense_Mutation_p.E1005K	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	1006					microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		TCGAGGGACTCGAGGCGGAAG	0.602													28	94					0	0	1	0	0		T	20991151	T	T	20991151	3	4	89	1	0	0	0	0	1	0	0	0	8295	893	31	1	77	1	KIF17	1	20991151	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	111658	20991151	228259470	74	53905											
EIF4G3	8672	broad.mit.edu	37	chr1	21220089	21220089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtcctcgaggcaaaattCgaggatccagagttcgcatt	10	10	11	10	3	0	1	0	0	0	1	5	4	2	2	2	3	0	3	2	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:21220089C>T	uc001bec.2	-	13	2262	c.2006G>A	c.(2005-2007)CGA>CAA	p.R669Q	EIF4G3_uc010odi.1_Missense_Mutation_p.R273Q|EIF4G3_uc010odj.1_Missense_Mutation_p.R668Q|EIF4G3_uc009vpz.2_Missense_Mutation_p.R389Q|EIF4G3_uc001bed.2_Missense_Mutation_p.R669Q|EIF4G3_uc001bef.2_Missense_Mutation_p.R668Q|EIF4G3_uc001bee.2_Missense_Mutation_p.R675Q	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	669					interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		AGGCAAAATTCGAGGATCCAG	0.463													31	63					0	0	1	0	0		T	21220089	T	T	21220089	3	4	89	1	0	0	0	0	1	0	0	0	5046	884	31	1	2831	1	EIF4G3	1	21220089	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	228938	21220089	228030532	75	53906											
ECE1	1889	broad.mit.edu	37	chr1	21546588	21546588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggatcggtgatgaggccttCgtgggagctctcaggtgtgc	5	10	18	8	2	1	2	1	2	1	0	4	4	1	4	1	5	2	1	1	5	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:21546588C>T	uc001bek.2	-	19	2248	c.2173G>A	c.(2173-2175)GAA>AAA	p.E725K	ECE1_uc001bem.2_Missense_Mutation_p.E709K|ECE1_uc001bej.2_Missense_Mutation_p.E713K|ECE1_uc001bei.2_Missense_Mutation_p.E722K|ECE1_uc010odl.1_Missense_Mutation_p.E693K	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	725	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		Lung NSC(340;1.14e-05)|all_lung(284;1.23e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00147)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0183)|OV - Ovarian serous cystadenocarcinoma(117;4.83e-27)|COAD - Colon adenocarcinoma(152;1.36e-06)|GBM - Glioblastoma multiforme(114;1.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000162)|STAD - Stomach adenocarcinoma(196;0.00326)|KIRC - Kidney renal clear cell carcinoma(1967;0.00755)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.206)		ATGAGGCCTTCGTGGGAGCTC	0.647													16	26					0	0	1	0	0		T	21546588	T	T	21546588	3	4	89	1	0	0	0	0	1	0	0	0	4895	893	31	1	143	1	ECE1	1	21546588	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	326499	21546588	227704033	76	53907											
ECE1	1889	broad.mit.edu	37	chr1	21551860	21551860	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctctaccatgcactcggtCtgacgcttgaaggcctccac	7	10	9	15	2	2	2	0	2	2	0	4	2	3	2	3	2	3	3	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:21551860C>T	uc001bek.2	-	17	1998	c.1923G>A	c.(1921-1923)CAG>CAA	p.Q641Q	ECE1_uc001bem.2_Silent_p.Q625Q|ECE1_uc001bej.2_Silent_p.Q629Q|ECE1_uc001bei.2_Silent_p.Q638Q|ECE1_uc010odl.1_Silent_p.Q641Q	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	641	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		Lung NSC(340;1.14e-05)|all_lung(284;1.23e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00147)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0183)|OV - Ovarian serous cystadenocarcinoma(117;4.83e-27)|COAD - Colon adenocarcinoma(152;1.36e-06)|GBM - Glioblastoma multiforme(114;1.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000162)|STAD - Stomach adenocarcinoma(196;0.00326)|KIRC - Kidney renal clear cell carcinoma(1967;0.00755)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.206)		TGCACTCGGTCTGACGCTTGA	0.622													13	48					0	0	1	0	0		T	21551860	T	T	21551860	2	4	89	1	0	0	0	0	0	0	0	1	4895	912	32	4		4	ECE1	1	21551860	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5272	21551860	227698761	77	53908											
USP48	84196	broad.mit.edu	37	chr1	22055105	22055105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtacagctccttaacctcttCgtgttttgcttttcctttat	5	20	5	11	1	1	0	0	0	1	0	4	0	3	0	3	0	4	4	3	0	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:22055105C>T	uc001bfb.2	-	11	1646	c.1408G>A	c.(1408-1410)GAA>AAA	p.E470K	USP48_uc010odq.1_Missense_Mutation_p.E469K|USP48_uc009vqc.2_Missense_Mutation_p.E470K|USP48_uc001bfc.2_Missense_Mutation_p.E470K|USP48_uc001bfe.1_Missense_Mutation_p.E469K|USP48_uc001bff.2_Missense_Mutation_p.E470K	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	470	DUSP 1.				ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		TTAACCTCTTCGTGTTTTGCT	0.423													53	84					0	0	1	0	0		T	22055105	T	T	22055105	3	4	89	1	0	0	0	0	1	0	0	0	17105	893	31	1	1775	1	USP48	1	22055105	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	503245	22055105	227195516	78	53909											
USP48	84196	broad.mit.edu	37	chr1	22056301	22056301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgccacacttgggtttaCgtgtctgagacttagaaggt	8	14	11	8	1	1	2	0	1	1	2	1	3	1	2	1	2	2	1	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:22056301C>T	uc001bfb.2	-	10	1434	c.1196G>A	c.(1195-1197)CGT>CAT	p.R399H	USP48_uc010odq.1_Missense_Mutation_p.R398H|USP48_uc009vqc.2_Missense_Mutation_p.R399H|USP48_uc001bfc.2_Missense_Mutation_p.R399H|USP48_uc001bfe.1_Missense_Mutation_p.R398H|USP48_uc001bff.2_Missense_Mutation_p.R399H	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	399					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		CTTGGGTTTACGTGTCTGAGA	0.388													50	106					0	0	1	0	0		T	22056301	T	T	22056301	3	4	89	1	0	0	0	0	1	0	0	0	17105	536	19	1	1991	1	USP48	1	22056301	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1196	22056301	227194320	79	53910											
ZBTB40	9923	broad.mit.edu	37	chr1	22816534	22816534	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattgcaccatctccattggTaccatttacttcagggctca	9	13	7	12	0	3	0	2	0	1	0	4	1	3	0	3	2	3	3	3	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:22816534T>C	uc001bft.2	+	3	604	c.93T>C	c.(91-93)GGT>GGC	p.G31G	ZBTB40_uc001bfu.2_Silent_p.G31G|ZBTB40_uc009vqi.1_Silent_p.G31G	NM_001083621	NP_001077090	Q9NUA8	ZBT40_HUMAN	zinc finger and BTB domain containing 40	31	BTB.				bone mineralization|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.86e-26)|Colorectal(126;8.55e-08)|COAD - Colon adenocarcinoma(152;4.1e-06)|GBM - Glioblastoma multiforme(114;1.39e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000712)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.216)		TCTCCATTGGTACCATTTACT	0.532													24	55					0	0	1	0	0		C	22816534	C	C	22816534	2	2	89	1	0	0	0	0	0	0	0	1	17567	1625	57	3		3	ZBTB40	1	22816534	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	760233	22816534	226434087	80	53911											
EPHB2	2048	broad.mit.edu	37	chr1	23235657	23235657	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccctactgggacatgaccaAccaggatgtaagtctccaag	12	7	10	12	0	1	1	0	1	1	0	2	3	1	3	4	2	2	1	4	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:23235657A>G	uc009vqj.1	+	13	2640	c.2495A>G	c.(2494-2496)AAC>AGC	p.N832S	EPHB2_uc001bge.2_Missense_Mutation_p.N833S|EPHB2_uc001bgf.2_Missense_Mutation_p.N832S|EPHB2_uc010odu.1_Missense_Mutation_p.N774S	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	832	Cytoplasmic (Potential).|Protein kinase.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		GACATGACCAACCAGGATGTA	0.592									Hereditary_Prostate_Cancer				17	53					0	0	1	0	0		G	23235657	G	G	23235657	3	3	89	1	0	0	0	0	1	0	0	0	5183	43	2	3	2548	3	EPHB2	1	23235657	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	419123	23235657	226014964	81	53912											
HNRNPR	10236	broad.mit.edu	37	chr1	23637094	23637094	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggttgttggtctgacgAcgcttggaatcaggctggtt	5	15	15	6	2	2	1	1	1	1	0	2	3	2	2	0	5	0	6	0	5	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:23637094A>G	uc001bgr.3	-	11	1914	c.1755T>C	c.(1753-1755)CGT>CGC	p.R585R	HNRNPR_uc001bgo.2_Silent_p.R195R|HNRNPR_uc001bgp.3_Silent_p.R588R|HNRNPR_uc009vqk.2_Silent_p.R487R|HNRNPR_uc001bgs.3_Silent_p.R484R|HNRNPR_uc010odw.1_Silent_p.R547R|HNRNPR_uc010odx.1_Silent_p.R425R|HNRNPR_uc009vql.2_Silent_p.R446R	NM_005826	NP_005817	O43390	HNRPR_HUMAN	heterogeneous nuclear ribonucleoprotein R	585	Asn/Gln-rich.					catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00394)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;6.83e-27)|Colorectal(126;6.01e-08)|COAD - Colon adenocarcinoma(152;3.32e-06)|GBM - Glioblastoma multiforme(114;6.69e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00357)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0875)|LUSC - Lung squamous cell carcinoma(448;0.19)		TGGTCTGACGACGCTTGGAAT	0.542													68	136					0	0	1	0	0		G	23637094	G	G	23637094	2	3	89	1	0	0	0	0	0	0	0	1	7288	262	10	3		3	HNRNPR	1	23637094	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	401437	23637094	225613527	82	53913											
MYOM3	127294	broad.mit.edu	37	chr1	24413228	24413228	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgaagacatacgacttCtttttctccaggtccagaac	11	12	6	12	1	3	3	0	1	3	2	5	4	4	3	2	1	2	0	2	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:24413228C>A	uc001bin.3	-	15	1867	c.1704G>T	c.(1702-1704)AAG>AAT	p.K568N	MYOM3_uc001bim.3_Missense_Mutation_p.K225N|MYOM3_uc001bio.2_Missense_Mutation_p.K568N|MYOM3_uc001bip.1_Missense_Mutation_p.K225N	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	568	Fibronectin type-III 2.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		CATACGACTTCTTTTTCTCCA	0.582													23	62					1.36565e-18	1.59705e-18	1	1	0		A	24413228	A	A	24413228	3	1	89	1	0	0	0	0	1	0	0	0	10111	912	32	5	2701	5	MYOM3	1	24413228	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	776134	24413228	224837393	83	53914											
MYOM3	127294	broad.mit.edu	37	chr1	24421951	24421951	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttttgaagatctctgaatcGaagccagcatccttccccag	10	11	7	13	1	1	3	0	2	1	1	5	4	3	3	4	0	2	1	4	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:24421951G>A	uc001bin.3	-	8	934	c.771C>T	c.(769-771)TTC>TTT	p.F257F	MYOM3_uc001bim.3_5'Flank|MYOM3_uc001bio.2_Silent_p.F257F|MYOM3_uc001bip.1_5'UTR	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	257										skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		TCTCTGAATCGAAGCCAGCAT	0.463													33	97					0	0	1	0	0		A	24421951	A	A	24421951	2	1	89	1	0	0	0	0	0	0	0	1	10111	1049	37	1		1	MYOM3	1	24421951	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8723	24421951	224828670	84	53915											
NIPAL3	57185	broad.mit.edu	37	chr1	24746100	24746100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcccacaagtagctccagCgccgtaagcgaggcctcctt	8	7	9	17	3	0	0	0	0	0	0	3	1	3	0	6	1	3	3	6	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:24746100C>T	uc001bjh.2	+	2	470	c.63C>T	c.(61-63)AGC>AGT	p.S21S	NIPAL3_uc010oek.1_Silent_p.S21S|NIPAL3_uc001bjg.2_Silent_p.S21S|NIPAL3_uc009vrc.2_5'UTR	NM_020448	NP_065181	Q6P499	NPAL3_HUMAN	NIPA-like domain containing 3	21	Poly-Ser.					integral to membrane					0						GTAGCTCCAGCGCCGTAAGCG	0.572													20	16					0	0	1	0	0		T	24746100	T	T	24746100	2	4	89	1	0	0	0	0	0	0	0	1	10445	767	27	1		1	NIPAL3	1	24746100	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	324149	24746100	224504521	85	53916											
NIPAL3	57185	broad.mit.edu	37	chr1	24790531	24790531	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgcaggtgcctcattgcattCttgggcgtcttcttaatcac	6	14	9	12	2	5	0	2	0	3	0	5	0	5	0	1	2	2	2	1	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:24790531C>T	uc001bjh.2	+	11	1349	c.942C>T	c.(940-942)TTC>TTT	p.F314F	NIPAL3_uc001bjg.2_Silent_p.F314F|NIPAL3_uc009vrc.2_Silent_p.F232F|NIPAL3_uc001bji.2_Missense_Mutation_p.L123F	NM_020448	NP_065181	Q6P499	NPAL3_HUMAN	NIPA-like domain containing 3	314	Helical; (Potential).					integral to membrane					0						TCATTGCATTCTTGGGCGTCT	0.507													9	27					0	0	1	0	0		T	24790531	T	T	24790531	2	4	89	1	0	0	0	0	0	0	0	1	10445	912	32	4		4	NIPAL3	1	24790531	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44431	24790531	224460090	86	53917											
SYF2	25949	broad.mit.edu	37	chr1	25554613	25554613	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaggtcaatctgacctgaAaatcccagatcagggttttt	13	12	8	8	0	3	3	2	2	1	1	4	3	4	3	2	2	0	1	2	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:25554613A>C	uc001bjt.1	-	4	427	c.372T>G	c.(370-372)TTT>TTG	p.F124L	SYF2_uc001bju.1_Missense_Mutation_p.F82L|SYF2_uc010oeo.1_Missense_Mutation_p.F124L	NM_015484	NP_056299	O95926	SYF2_HUMAN	SYF2 homolog, RNA splicing factor isoform 1	124						catalytic step 2 spliceosome					0		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.5e-26)|Colorectal(126;2.54e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000455)|STAD - Stomach adenocarcinoma(196;0.000766)|KIRC - Kidney renal clear cell carcinoma(1967;0.00145)|GBM - Glioblastoma multiforme(114;0.00443)|READ - Rectum adenocarcinoma(331;0.0936)|Lung(427;0.201)		TCTGACCTGAAAATCCCAGAT	0.423													34	65					0	0	1	0	0		C	25554613	C	C	25554613	3	2	89	1	0	0	0	0	1	0	0	0	15462	11	1	5	375	5	SYF2	1	25554613	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	764082	25554613	223696008	87	53918											
MAN1C1	57134	broad.mit.edu	37	chr1	26110217	26110217	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagactgggtgttcaacacCgaggcccacccactcccggt	9	6	11	15	2	1	1	1	0	0	1	2	3	2	1	4	3	1	1	4	3	2	1	rs142054155		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:26110217C>T	uc001bkm.2	+	12	2160	c.1830C>T	c.(1828-1830)ACC>ACT	p.T610T	MAN1C1_uc009vry.1_Silent_p.T430T|MAN1C1_uc001bkn.2_Silent_p.T81T	NM_020379	NP_065112	Q9NR34	MA1C1_HUMAN	mannosidase, alpha, class 1C, member 1	610	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(1)	1		Colorectal(325;3.78e-05)|Lung NSC(340;0.000181)|all_lung(284;0.000245)|Renal(390;0.000714)|Ovarian(437;0.00159)|Breast(348;0.0156)|Myeloproliferative disorder(586;0.0257)|all_neural(195;0.0515)|Esophageal squamous(538;0.232)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0574)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.15e-07)|COAD - Colon adenocarcinoma(152;4.31e-06)|STAD - Stomach adenocarcinoma(196;0.00125)|BRCA - Breast invasive adenocarcinoma(304;0.00141)|KIRC - Kidney renal clear cell carcinoma(1967;0.00146)|GBM - Glioblastoma multiforme(114;0.0149)|READ - Rectum adenocarcinoma(331;0.0803)		TGTTCAACACCGAGGCCCACC	0.632													26	47					0	0	1	0	0		T	26110217	T	T	26110217	2	4	89	1	0	0	0	0	0	0	0	1	9231	639	23	1		1	MAN1C1	1	26110217	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	555604	26110217	223140404	88	53919											
SLC30A2	7780	broad.mit.edu	37	chr1	26371619	26371619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcagtgatggttgctctggGcagccagctcaatggcctgc	6	9	15	11	0	2	1	1	1	1	0	2	1	2	1	2	4	4	5	2	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:26371619G>A	uc001blh.1	-	2	357	c.140C>T	c.(139-141)GCC>GTC	p.A47V	SLC30A2_uc001blg.1_Missense_Mutation_p.A47V	NM_032513	NP_115902	Q9BRI3	ZNT2_HUMAN	solute carrier family 30, member 2 isoform 2	47	Cytoplasmic (Potential).				positive regulation of sequestering of zinc ion|zinc ion transport	integral to membrane|late endosome|lysosomal membrane	cation transmembrane transporter activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;7.09e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000728)|BRCA - Breast invasive adenocarcinoma(304;0.000969)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00614)|READ - Rectum adenocarcinoma(331;0.0649)		GTTGCTCTGGGCAGCCAGCTC	0.617													54	110					0	0	1	0	0		A	26371619	A	A	26371619	3	1	89	1	0	0	0	0	1	0	0	0	14580	1203	42	2	1006	2	SLC30A2	1	26371619	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	261402	26371619	222879002	89	53920											
CD52	1043	broad.mit.edu	37	chr1	26646686	26646686	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactggactctcaggacaaAacgacaccagccaaaccagc	17	3	7	14	1	1	0	1	0	1	0	2	3	1	2	3	2	5	0	3	2	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:26646686A>C	uc001bmc.2	+	2	177	c.79A>C	c.(79-81)AAC>CAC	p.N27H	UBXN11_uc001bma.2_5'Flank	NM_001803	NP_001794	P31358	CD52_HUMAN	CD52 antigen precursor	27					elevation of cytosolic calcium ion concentration|respiratory burst	anchored to membrane|integral to plasma membrane|membrane fraction					0		all_cancers(24;5.02e-24)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;7.56e-28)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000946)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0137)|READ - Rectum adenocarcinoma(331;0.0649)	Alemtuzumab(DB00087)	CTCAGGACAAAACGACACCAG	0.398													25	40					0	0	1	0	0		C	26646686	C	C	26646686	3	2	89	1	0	0	0	0	1	0	0	0	3025	14	1	5	85	5	CD52	1	26646686	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	275067	26646686	222603935	90	53921											
AIM1L	55057	broad.mit.edu	37	chr1	26655305	26655305	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcacctccctgctgagctcGatctccttcccctcgaagca	6	9	7	19	3	1	1	0	1	1	0	6	3	3	1	5	0	3	4	5	0	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:26655305G>A	uc001bmd.3	-	15	1669	c.1239C>T	c.(1237-1239)ATC>ATT	p.I413I		NM_001039775	NP_001034864	Q8N1P7	AIM1L_HUMAN	absent in melanoma 1-like	413	Beta/gamma crystallin 'Greek key' 9.						sugar binding			pancreas(1)	1		all_cancers(24;4.67e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.51e-27)|Colorectal(126;1.61e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000792)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.00858)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.165)|LUSC - Lung squamous cell carcinoma(448;0.239)		TGCTGAGCTCGATCTCCTTCC	0.597													36	78					0	0	1	0	0		A	26655305	A	A	26655305	2	1	89	1	0	0	0	0	0	0	0	1	431	1048	37	1		1	AIM1L	1	26655305	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8619	26655305	222595316	91	53922											
AIM1L	55057	broad.mit.edu	37	chr1	26658088	26658088	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctggtcaccctcgaagttCgtctcatcaaacaggatcca	10	10	8	13	2	3	0	3	0	1	0	7	2	4	1	2	2	2	2	2	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:26658088C>T	uc001bmd.3	-	14	1501	c.1071G>A	c.(1069-1071)ACG>ACA	p.T357T		NM_001039775	NP_001034864	Q8N1P7	AIM1L_HUMAN	absent in melanoma 1-like	357	Beta/gamma crystallin 'Greek key' 8.						sugar binding			pancreas(1)	1		all_cancers(24;4.67e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.51e-27)|Colorectal(126;1.61e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000792)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.00858)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.165)|LUSC - Lung squamous cell carcinoma(448;0.239)		CCTCGAAGTTCGTCTCATCAA	0.582													21	46					0	0	1	0	0		T	26658088	T	T	26658088	2	4	89	1	0	0	0	0	0	0	0	1	431	871	31	1		1	AIM1L	1	26658088	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2783	26658088	222592533	92	53923											
ZNF683	257101	broad.mit.edu	37	chr1	26691442	26691442	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtggggtggaggcaggaGaagtgggtatccagggtaga	10	6	21	4	0	0	2	0	0	0	2	1	4	1	3	1	8	0	3	1	8	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:26691442G>T	uc001bmg.1	-	4	713	c.595C>A	c.(595-597)CTC>ATC	p.L199I	ZNF683_uc001bmh.1_Missense_Mutation_p.L199I|ZNF683_uc009vsj.1_Missense_Mutation_p.L199I	NM_173574	NP_775845	Q8IZ20	ZN683_HUMAN	zinc finger protein 683	199					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(24;2.39e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.76e-26)|Colorectal(126;1.38e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00793)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.159)|LUSC - Lung squamous cell carcinoma(448;0.233)		GGAGGCAGGAGAAGTGGGTAT	0.617													11	15					3.86212e-05	3.96572e-05	1	1	0		T	26691442	T	T	26691442	3	4	89	1	0	0	0	0	1	0	0	0	18115	942	33	5	931	5	ZNF683	1	26691442	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	33354	26691442	222559179	93	53924											
ARID1A	8289	broad.mit.edu	37	chr1	27094302	27094302	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatccagttcttctactacaAccaatgagaagatcaccaag	16	9	5	11	0	3	2	1	1	2	2	4	3	4	2	3	0	3	1	3	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:27094302A>G	uc001bmv.1	+	11	3383	c.3010A>G	c.(3010-3012)ACC>GCC	p.T1004A	ARID1A_uc001bmt.1_Missense_Mutation_p.T1004A|ARID1A_uc001bmu.1_Missense_Mutation_p.T1004A|ARID1A_uc001bmw.1_Missense_Mutation_p.T621A	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1004					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TTCTACTACAACCAATGAGAA	0.483			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								24	35					0	0	1	0	0		G	27094302	G	G	27094302	3	3	89	1	0	0	0	0	1	0	0	0	913	43	2	3	3052	3	ARID1A	1	27094302	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	402860	27094302	222156319	94	53925											
ARID1A	8289	broad.mit.edu	37	chr1	27097788	27097788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agctgctgattccaagaagtCccagcccaagatccagcctc	11	7	8	15	0	0	3	0	1	0	2	4	3	3	3	5	0	4	2	5	0	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:27097788C>T	uc001bmv.1	+	12	3750	c.3377C>T	c.(3376-3378)TCC>TTC	p.S1126F	ARID1A_uc001bmt.1_Missense_Mutation_p.S1126F|ARID1A_uc001bmu.1_Missense_Mutation_p.S1126F|ARID1A_uc001bmw.1_Missense_Mutation_p.S743F|ARID1A_uc001bmx.1_5'UTR|ARID1A_uc009vsm.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1126					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TCCAAGAAGTCCCAGCCCAAG	0.537			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								7	39					0	0	1	0	0		T	27097788	T	T	27097788	3	4	89	1	0	0	0	0	1	0	0	0	913	855	30	4	3423	4	ARID1A	1	27097788	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3486	27097788	222152833	95	53926											
PIGV	55650	broad.mit.edu	37	chr1	27121613	27121613	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggctgcaaaggagcaagaAcaataagaccctagagaagc	17	4	12	8	0	0	3	0	0	0	3	0	5	0	4	1	2	4	3	1	2	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:27121613A>C	uc001bmz.2	+	3	1419	c.1088A>C	c.(1087-1089)AAC>ACC	p.N363T	PIGV_uc001bmy.2_Missense_Mutation_p.N128T|PIGV_uc009vso.2_Missense_Mutation_p.N363T|PIGV_uc010ofg.1_Missense_Mutation_p.N128T|PIGV_uc001bna.2_Missense_Mutation_p.N363T	NM_017837	NP_060307	Q9NUD9	PIGV_HUMAN	phosphatidylinositol glycan class V	363	Cytoplasmic (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	glycolipid mannosyltransferase activity			ovary(1)	1		all_cancers(24;3.93e-26)|all_epithelial(13;3.96e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.26e-54)|Epithelial(14;2.85e-53)|OV - Ovarian serous cystadenocarcinoma(117;1.91e-30)|Colorectal(126;1.31e-09)|COAD - Colon adenocarcinoma(152;3.45e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000504)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.0222)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.153)|LUSC - Lung squamous cell carcinoma(448;0.227)		AGGAGCAAGAACAATAAGACC	0.547													64	93					0	0	1	0	0		C	27121613	C	C	27121613	3	2	89	1	0	0	0	0	1	0	0	0	11920	43	2	5	1094	5	PIGV	1	27121613	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	23825	27121613	222129008	96	53927											
GPATCH3	63906	broad.mit.edu	37	chr1	27217691	27217691	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggcctcttcagttgcccaAatggctgtagcttctctcca	6	12	10	13	0	3	0	1	0	2	0	5	0	4	0	3	3	2	4	3	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:27217691A>C	uc001bne.2	-	7	1417	c.1388T>G	c.(1387-1389)TTT>TGT	p.F463C	GPN2_uc001bnd.1_5'Flank|GPATCH3_uc009vsp.1_Missense_Mutation_p.F274C	NM_022078	NP_071361	Q96I76	GPTC3_HUMAN	G patch domain containing 3	463						intracellular	nucleic acid binding				0		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.97e-51)|OV - Ovarian serous cystadenocarcinoma(117;9.55e-30)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|STAD - Stomach adenocarcinoma(196;0.000595)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|READ - Rectum adenocarcinoma(331;0.0419)		CAGTTGCCCAAATGGCTGTAG	0.552													16	30					0	0	1	0	0		C	27217691	C	C	27217691	3	2	89	1	0	0	0	0	1	0	0	0	6607	14	1	5	193	5	GPATCH3	1	27217691	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	96078	27217691	222032930	97	53928											
MAP3K6	9064	broad.mit.edu	37	chr1	27688646	27688646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgggtggggtcattggCgaggatctgggctcccaggt	5	9	17	10	1	2	0	1	0	1	0	3	2	3	1	2	7	0	1	2	7	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:27688646C>T	uc001bny.1	-	9	1600	c.1351G>A	c.(1351-1353)GCC>ACC	p.A451T	MAP3K6_uc009vsw.1_Missense_Mutation_p.A443T|MAP3K6_uc001bnz.1_5'Flank	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	451					activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		GGGTCATTGGCGAGGATCTGG	0.602													15	26					0	0	1	0	0		T	27688646	T	T	27688646	3	4	89	1	0	0	0	0	1	0	0	0	9272	768	27	1	2599	1	MAP3K6	1	27688646	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	470955	27688646	221561975	98	53929											
FCN3	8547	broad.mit.edu	37	chr1	27697428	27697428	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggaggaccaagagcggaaGaaatccacagaaccatcctg	16	4	11	10	1	0	3	0	0	0	3	2	6	2	6	4	3	2	0	4	3	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:27697428G>T	uc001boa.2	-	6	435	c.429C>A	c.(427-429)TTC>TTA	p.F143L	FCN3_uc001bob.2_Missense_Mutation_p.F132L	NM_003665	NP_003656	O75636	FCN3_HUMAN	ficolin 3 isoform 1 precursor	143	Fibrinogen C-terminal.				complement activation, lectin pathway|signal transduction	collagen|extracellular space	receptor binding|sugar binding				0		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;1.42e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00128)|KIRC - Kidney renal clear cell carcinoma(1967;0.00155)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		AAGAGCGGAAGAAATCCACAG	0.557													25	58					4.7796e-09	5.11423e-09	1	1	0		T	27697428	T	T	27697428	3	4	89	1	0	0	0	0	1	0	0	0	5807	933	33	5	482	5	FCN3	1	27697428	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8782	27697428	221553193	99	53930											
WASF2	10163	broad.mit.edu	37	chr1	27745548	27745548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccgagaggcaaaggtatttgCctgagtaaagagctctccaa	13	8	11	9	1	1	3	0	1	1	2	2	4	1	3	3	2	2	4	3	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:27745548C>T	uc001bof.1	-	3	388	c.172G>A	c.(172-174)GCA>ACA	p.A58T	WASF2_uc010ofl.1_Missense_Mutation_p.A58T	NM_006990	NP_008921	Q9Y6W5	WASF2_HUMAN	WAS protein family, member 2	58					actin cytoskeleton organization|G-protein signaling, coupled to cAMP nucleotide second messenger	actin cytoskeleton|lamellipodium	actin binding			skin(2)|ovary(1)	3		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0446)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.7e-08)|COAD - Colon adenocarcinoma(152;2e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00139)|KIRC - Kidney renal clear cell carcinoma(1967;0.00204)|STAD - Stomach adenocarcinoma(196;0.00325)|READ - Rectum adenocarcinoma(331;0.0481)		AAGGTATTTGCCTGAGTAAAG	0.448													47	63					0	0	1	0	0		T	27745548	T	T	27745548	3	4	89	1	0	0	0	0	1	0	0	0	17279	739	26	2	1352	2	WASF2	1	27745548	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	48120	27745548	221505073	100	53931											
AHDC1	27245	broad.mit.edu	37	chr1	27876445	27876445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagcgtctacctccccccGgccccgtttgcgtgggtgcc	3	8	11	19	4	1	0	0	0	1	0	2	0	2	0	7	2	4	1	7	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:27876445G>A	uc009vsy.2	-	6	3151	c.2182C>T	c.(2182-2184)CGG>TGG	p.R728W	AHDC1_uc009vsz.1_Missense_Mutation_p.R728W	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	728	Gly-rich.						DNA binding			central_nervous_system(1)	1		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		ACCTCCCCCCGGCCCCGTTTG	0.652													19	32					0	0	1	0	0		A	27876445	A	A	27876445	3	1	89	1	0	0	0	0	1	0	0	0	412	1115	39	1	2633	1	AHDC1	1	27876445	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	130897	27876445	221374176	101	53932											
FGR	2268	broad.mit.edu	37	chr1	27939476	27939476	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcggaggtgaagtagtcCtccaggaaggactgcaggta	11	7	15	8	1	1	1	1	1	0	0	3	4	3	4	2	5	2	3	2	5	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:27939476C>A	uc001boj.2	-	11	1685	c.1539G>T	c.(1537-1539)GAG>GAT	p.E513D	FGR_uc001boi.2_Missense_Mutation_p.E216D|FGR_uc001bok.2_Missense_Mutation_p.E513D|FGR_uc001bol.2_Missense_Mutation_p.E513D|FGR_uc001bom.2_Missense_Mutation_p.E513D	NM_005248	NP_005239	P09769	FGR_HUMAN	proto-oncogene tyrosine-protein kinase FGR	513	Protein kinase.				platelet activation|response to virus	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity			skin(2)	2		all_lung(284;2.05e-05)|Colorectal(325;3.46e-05)|Lung NSC(340;3.67e-05)|Renal(390;0.00121)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.25e-24)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00244)|KIRC - Kidney renal clear cell carcinoma(1967;0.0027)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		TGAAGTAGTCCTCCAGGAAGG	0.622													17	29					6.94344e-10	7.49515e-10	1	1	0		A	27939476	A	A	27939476	3	1	89	1	0	0	0	0	1	0	0	0	5888	680	24	5	54	5	FGR	1	27939476	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	63031	27939476	221311145	102	53933											
EYA3	2140	broad.mit.edu	37	chr1	28319925	28319925	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttaccacccacgttgcttTtatgcttatcatagatttct	9	17	4	11	1	2	1	1	0	1	1	2	1	2	1	2	0	3	3	2	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:28319925T>G	uc001bpi.1	-	14	1454	c.1289A>C	c.(1288-1290)AAA>ACA	p.K430T	EYA3_uc010ofs.1_Missense_Mutation_p.K377T|EYA3_uc010oft.1_Missense_Mutation_p.K384T|EYA3_uc001bpj.2_Missense_Mutation_p.K384T|EYA3_uc001bpk.1_RNA|EYA3_uc010ofu.1_RNA	NM_001990	NP_001981	Q99504	EYA3_HUMAN	eyes absent 3	430					anatomical structure morphogenesis|double-strand break repair|histone dephosphorylation|multicellular organismal development|positive regulation of DNA repair|regulation of transcription, DNA-dependent|response to ionizing radiation|transcription, DNA-dependent|visual perception	cytoplasm	metal ion binding|protein binding|protein tyrosine phosphatase activity			ovary(2)|skin(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000414)|Lung NSC(340;0.000432)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0484)|OV - Ovarian serous cystadenocarcinoma(117;1.25e-24)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;2.8e-06)|STAD - Stomach adenocarcinoma(196;0.00364)|KIRC - Kidney renal clear cell carcinoma(1967;0.00378)|BRCA - Breast invasive adenocarcinoma(304;0.00718)|READ - Rectum adenocarcinoma(331;0.0642)		CACGTTGCTTTTATGCTTATC	0.468													42	110					0	0	1	0	0		G	28319925	G	G	28319925	3	3	89	1	0	0	0	0	1	0	0	0	5338	1841	64	5	452	5	EYA3	1	28319925	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	380449	28319925	220930696	103	53934											
PTPRU	10076	broad.mit.edu	37	chr1	29605969	29605969	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaatcctgcccccagaTcagctaccagagcatcgagt	10	7	8	16	1	1	2	1	0	0	2	3	3	2	2	5	0	5	2	5	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:29605969T>C	uc001bru.2	+	10	1675	c.1565T>C	c.(1564-1566)ATC>ACC	p.I522T	PTPRU_uc001brv.2_Missense_Mutation_p.I522T|PTPRU_uc001brw.2_Missense_Mutation_p.I522T|PTPRU_uc009vtq.2_Missense_Mutation_p.I522T|PTPRU_uc009vtr.2_Missense_Mutation_p.I522T	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	522	Extracellular (Potential).|Fibronectin type-III 3.				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		TGCCCCCAGATCAGCTACCAG	0.597													33	46					0	0	1	0	0		C	29605969	C	C	29605969	3	2	89	1	0	0	0	0	1	0	0	0	12838	1449	50	3	1603	3	PTPRU	1	29605969	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1286044	29605969	219644652	104	53935											
MATN1	4146	broad.mit.edu	37	chr1	31191761	31191761	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccgcgcagacacgtccTgcacgctgtcctggggcctc	4	6	14	17	4	0	1	0	0	0	1	3	1	2	1	4	3	1	3	4	3	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:31191761T>C	uc001brz.2	-	3	519	c.485A>G	c.(484-486)CAG>CGG	p.Q162R	uc001bsb.1_RNA|MATN1_uc001bsa.1_Missense_Mutation_p.Q80R	NM_002379	NP_002370	P21941	MATN1_HUMAN	matrilin 1, cartilage matrix protein precursor	162	VWFA 1.				protein complex assembly	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			central_nervous_system(1)	1		Colorectal(325;0.00792)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)|Ovarian(437;0.0563)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-05)|COAD - Colon adenocarcinoma(152;0.000726)|STAD - Stomach adenocarcinoma(196;0.0183)|READ - Rectum adenocarcinoma(331;0.0649)		AGACACGTCCTGCACGCTGTC	0.721													4	5					0	0	1	0	0		C	31191761	C	C	31191761	3	2	89	1	0	0	0	0	1	0	0	0	9351	1580	55	3	1029	3	MATN1	1	31191761	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1585792	31191761	218058860	105	53936											
PUM1	9698	broad.mit.edu	37	chr1	31426818	31426818	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtatcttccactgccattCgtgagtcctcctgttggtta	6	16	8	11	1	1	1	0	1	1	0	5	1	4	1	4	1	1	3	4	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:31426818C>T	uc001bsi.1	-	15	2447	c.2334G>A	c.(2332-2334)ACG>ACA	p.T778T	PUM1_uc001bsf.1_Silent_p.T444T|PUM1_uc001bsg.1_Silent_p.T512T|PUM1_uc001bsh.1_Silent_p.T778T|PUM1_uc001bsj.1_Silent_p.T752T|PUM1_uc010oga.1_Silent_p.T634T|PUM1_uc001bsk.1_Silent_p.T814T|PUM1_uc010ogb.1_Silent_p.T719T	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	778	Ser-rich.				cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		CACTGCCATTCGTGAGTCCTC	0.517													47	66					0	0	1	0	0		T	31426818	T	T	31426818	2	4	89	1	0	0	0	0	0	0	0	1	12850	871	31	1		1	PUM1	1	31426818	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	235057	31426818	217823803	106	53937											
PUM1	9698	broad.mit.edu	37	chr1	31532388	31532388	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccaaagcactgcttttCtcttcaagacacatgcaacg	11	10	6	14	1	2	1	1	0	1	1	3	1	2	1	2	0	5	3	2	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:31532388C>A	uc001bsi.1	-	2	139	c.26G>T	c.(25-27)AGA>ATA	p.R9I	PUM1_uc001bsh.1_Missense_Mutation_p.R9I|PUM1_uc001bsj.1_Missense_Mutation_p.R9I|PUM1_uc010oga.1_Missense_Mutation_p.R9I|PUM1_uc001bsk.1_Missense_Mutation_p.R45I|PUM1_uc010ogb.1_Missense_Mutation_p.R45I	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	9					cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		CACTGCTTTTCTCTTCAAGAC	0.413													38	61					2.24893e-16	2.58354e-16	1	1	0		A	31532388	A	A	31532388	3	1	89	1	0	0	0	0	1	0	0	0	12850	913	32	5	3624	5	PUM1	1	31532388	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	105570	31532388	217718233	107	53938											
COL16A1	1307	broad.mit.edu	37	chr1	32145658	32145658	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaccggcatgccagagaaGatgaggtctccttgagaggg	10	8	14	9	1	1	4	0	2	1	3	2	6	1	4	3	3	2	1	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:32145658G>T	uc001btk.1	-	40	3020	c.2655C>A	c.(2653-2655)ATC>ATA	p.I885I	COL16A1_uc001btj.1_Silent_p.I714I|COL16A1_uc001btl.3_Silent_p.I885I	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	885	Nonhelical region 5 (NC5).				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		TGCCAGAGAAGATGAGGTCTC	0.582													5	29					3.59834e-05	3.69903e-05	1	1	0		T	32145658	T	T	32145658	2	4	89	1	0	0	0	0	0	0	0	1	3676	932	33	5		5	COL16A1	1	32145658	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	613270	32145658	217104963	108	53939											
BAI2	576	broad.mit.edu	37	chr1	32206090	32206090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaggctgcgcaccacctgcGacatgccctcgcctgccagc	6	5	11	19	3	0	0	0	0	0	0	1	1	0	0	5	1	5	3	5	1	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:32206090G>A	uc001btn.2	-	12	2201	c.1847C>T	c.(1846-1848)TCG>TTG	p.S616L	BAI2_uc010ogo.1_Missense_Mutation_p.S258L|BAI2_uc010ogp.1_Missense_Mutation_p.S549L|BAI2_uc010ogq.1_Missense_Mutation_p.S616L|BAI2_uc001bto.2_Missense_Mutation_p.S616L|BAI2_uc001btq.1_Missense_Mutation_p.S549L|BAI2_uc010ogr.1_Intron	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	616	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		CACCACCTGCGACATGCCCTC	0.612													10	15					0	0	1	0	0		A	32206090	A	A	32206090	3	1	89	1	0	0	0	0	1	0	0	0	1300	1059	37	1	2998	1	BAI2	1	32206090	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	60432	32206090	217044531	109	53940											
SPOCD1	90853	broad.mit.edu	37	chr1	32280649	32280649	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtggagcccaggagccaGcatcgagccccggctctgta	8	6	13	14	2	1	0	0	0	1	0	2	3	1	2	4	3	4	3	4	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:32280649G>A	uc001bts.1	-	2	344	c.286C>T	c.(286-288)CTG>TTG	p.L96L	SPOCD1_uc001btu.2_Silent_p.L96L|SPOCD1_uc001btv.2_Intron	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	96					transcription, DNA-dependent					ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)		CCAGGAGCCAGCATCGAGCCC	0.637													22	36					0	0	1	0	0		A	32280649	A	A	32280649	2	1	89	1	0	0	0	0	0	0	0	1	15103	962	34	2		2	SPOCD1	1	32280649	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	74559	32280649	216969972	110	53941											
KPNA6	23633	broad.mit.edu	37	chr1	32636370	32636370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatctaccagaaggccttcGacctcattgagcactacttt	11	11	7	12	1	2	3	1	1	1	2	3	4	2	3	3	1	3	1	3	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:32636370G>A	uc001bug.2	+	14	1574	c.1486G>A	c.(1486-1488)GAC>AAC	p.D496N	KPNA6_uc001buh.2_Missense_Mutation_p.D271N|KPNA6_uc010ogx.1_Missense_Mutation_p.D493N|KPNA6_uc010ogy.1_Missense_Mutation_p.D501N|KPNA6_uc009vtz.2_Missense_Mutation_p.D391N	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6	496	ARM 10; atypical.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GAAGGCCTTCGACCTCATTGA	0.502													37	83					0	0	1	0	0		A	32636370	A	A	32636370	3	1	89	1	0	0	0	0	1	0	0	0	8450	1058	37	1	1540	1	KPNA6	1	32636370	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	355721	32636370	216614251	111	53942											
ZBTB8A	653121	broad.mit.edu	37	chr1	33059046	33059046	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctaagcccagagcaaggaAcaggtataataagtggaaaa	19	5	10	7	0	0	1	0	0	0	1	0	3	0	3	2	3	3	2	2	3	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:33059046A>G	uc001bvn.2	+	3	999	c.514A>G	c.(514-516)ACA>GCA	p.T172A	ZBTB8A_uc001bvk.2_RNA|ZBTB8A_uc001bvm.2_Missense_Mutation_p.T172A	NM_001040441	NP_001035531	Q96BR9	ZBT8A_HUMAN	zinc finger and BTB domain containing 8A	172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGAGCAAGGAACAGGTATAAT	0.428													35	52					0	0	1	0	0		G	33059046	G	G	33059046	3	3	89	1	0	0	0	0	1	0	0	0	17581	43	2	3	516	3	ZBTB8A	1	33059046	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	422676	33059046	216191575	112	53943											
ZBTB8A	653121	broad.mit.edu	37	chr1	33066006	33066006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagaagaaaaagaaattaagCccaacattaggtagctgtaa	21	7	8	5	0	0	3	0	0	0	3	0	3	0	3	1	1	3	3	1	1	10	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:33066006C>T	uc001bvn.2	+	5	1797	c.1312C>T	c.(1312-1314)CCC>TCC	p.P438S	ZBTB8A_uc001bvk.2_RNA|ZBTB8A_uc001bvm.2_3'UTR|ZBTB8OS_uc001bvo.1_Intron	NM_001040441	NP_001035531	Q96BR9	ZBT8A_HUMAN	zinc finger and BTB domain containing 8A	438					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGAAATTAAGCCCAACATTAG	0.403													14	56					0	0	1	0	0		T	33066006	T	T	33066006	3	4	89	1	0	0	0	0	1	0	0	0	17581	739	26	2	1322	2	ZBTB8A	1	33066006	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6960	33066006	216184615	113	53944											
YARS	8565	broad.mit.edu	37	chr1	33248064	33248064	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcagggcaggggtattaAacttttcccggattggatcc	8	14	11	8	1	1	0	1	0	0	0	3	2	3	2	2	5	1	2	2	5	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:33248064A>C	uc001bvy.1	-	9	1771	c.983T>G	c.(982-984)TTT>TGT	p.F328C	YARS_uc001bvw.1_5'Flank|YARS_uc001bvx.1_5'UTR	NM_003680	NP_003671	P54577	SYYC_HUMAN	tyrosyl-tRNA synthetase	328					apoptosis|tyrosyl-tRNA aminoacylation	cytosol|extracellular space|nucleus|soluble fraction	ATP binding|interleukin-8 receptor binding|signal transducer activity|tRNA binding|tyrosine-tRNA ligase activity			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)			L-Tyrosine(DB00135)	AGGGGTATTAAACTTTTCCCG	0.512													36	76					0	0	1	0	0		C	33248064	C	C	33248064	3	2	89	1	0	0	0	0	1	0	0	0	17493	14	1	5	623	5	YARS	1	33248064	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	182058	33248064	216002557	114	53945											
FNDC5	252995	broad.mit.edu	37	chr1	33330326	33330326	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggtttctgatgcactcttgGttttttccttgttgttattg	3	23	9	6	0	2	1	0	1	2	0	3	1	3	1	1	2	1	5	1	2	1	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:33330326G>T	uc001bwg.2	-	5	562	c.347C>A	c.(346-348)ACC>AAC	p.T116N	FNDC5_uc001bwe.2_RNA|FNDC5_uc001bwf.1_Missense_Mutation_p.T116N	NM_153756	NP_715637	Q8NAU1	FNDC5_HUMAN	fibronectin type III domain containing 5	175	Cytoplasmic (Potential).					integral to membrane|peroxisomal membrane				ovary(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				TGCACTCTTGGTTTTTTCCTT	0.572													21	38					7.41877e-09	7.92233e-09	1	1	0		T	33330326	T	T	33330326	3	4	89	1	0	0	0	0	1	0	0	0	5986	1261	44	5	147	5	FNDC5	1	33330326	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	82262	33330326	215920295	115	53946											
ZSCAN20	7579	broad.mit.edu	37	chr1	33960823	33960823	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaggagagaagccctacaAatgccttgagtgtggaaaat	15	7	11	8	0	0	2	0	1	0	1	0	5	0	4	2	2	3	0	2	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:33960823A>C	uc001bxj.3	+	8	3046	c.2879A>C	c.(2878-2880)AAA>ACA	p.K960T	ZSCAN20_uc009vui.2_Missense_Mutation_p.K959T	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	960	C2H2-type 8.				viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AAGCCCTACAAATGCCTTGAG	0.502													23	59					0	0	1	0	0		C	33960823	C	C	33960823	3	2	89	1	0	0	0	0	1	0	0	0	18257	14	1	5	2905	5	ZSCAN20	1	33960823	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	630497	33960823	215289798	116	53947											
CSMD2	114784	broad.mit.edu	37	chr1	34037145	34037145	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttacttcggcaggtgggCgtagagtccccgaggctcca	6	8	15	12	3	0	1	0	0	0	1	3	2	2	1	3	5	1	4	3	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:34037145C>T	uc001bxn.1	-	52	7979	c.7950G>A	c.(7948-7950)ACG>ACA	p.T2650T	CSMD2_uc001bxm.1_Silent_p.T2648T	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2650	Sushi 16.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GGCAGGTGGGCGTAGAGTCCC	0.587													24	49					0	0	1	0	0		T	34037145	T	T	34037145	2	4	89	1	0	0	0	0	0	0	0	1	3948	755	27	1		1	CSMD2	1	34037145	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	76322	34037145	215213476	117	53948											
GJA4	2701	broad.mit.edu	37	chr1	35259868	35259868	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccaggtccaggagcactcGaccgtggtgggtaagatctg	9	7	15	10	2	1	1	0	0	1	1	3	4	2	2	3	4	1	2	3	4	1	1	rs143380983		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:35259868G>A	uc001bya.2	+	2	142	c.54G>A	c.(52-54)TCG>TCA	p.S18S	GJA4_uc009vul.2_Silent_p.S94S|GJA4_uc009vum.1_Silent_p.S18S	NM_002060	NP_002051	P35212	CXA4_HUMAN	connexin 37	18	Cytoplasmic (Potential).				cell-cell junction assembly	integral to plasma membrane				central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				AGGAGCACTCGACCGTGGTGG	0.612													23	34					0	0	1	0	0		A	35259868	A	A	35259868	2	1	89	1	0	0	0	0	0	0	0	1	6418	1045	37	1		1	GJA4	1	35259868	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1222723	35259868	213990753	118	53949											
DLGAP3	58512	broad.mit.edu	37	chr1	35370086	35370086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcccgagcgccccttgaagCtcaagtcccggtaggaccca	8	5	11	17	4	1	1	1	1	0	0	2	3	2	2	5	2	2	2	5	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:35370086C>T	uc001byc.2	-	1	899	c.899G>A	c.(898-900)AGC>AAC	p.S300N		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	300					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				CCCCTTGAAGCTCAAGTCCCG	0.652													34	70					0	0	1	0	0		T	35370086	T	T	35370086	3	4	89	1	0	0	0	0	1	0	0	0	4567	797	28	2	2080	2	DLGAP3	1	35370086	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	110218	35370086	213880535	119	53950											
ZMYM6	9204	broad.mit.edu	37	chr1	35452862	35452862	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttgaaaagggtaataaaAatttcattgccctttcatgg	14	13	8	6	0	2	1	2	1	0	0	2	1	2	1	1	2	1	2	1	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:35452862A>C	uc001byh.2	-	16	4049	c.3821T>G	c.(3820-3822)TTT>TGT	p.F1274C	uc001byd.3_5'Flank|uc001bye.2_5'Flank|ZMYM6_uc001byf.1_Intron|ZMYM6_uc010oht.1_Missense_Mutation_p.F1177C	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258	1274					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				GGGTAATAAAAATTTCATTGC	0.363													31	55					0	0	1	0	0		C	35452862	C	C	35452862	3	2	89	1	0	0	0	0	1	0	0	0	17729	14	1	5	160	5	ZMYM6	1	35452862	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	82776	35452862	213797759	120	53951											
ZMYM6	9204	broad.mit.edu	37	chr1	35480485	35480485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgatatttaacttcaaatCgagtctaggaaataaacaca	17	13	5	6	1	2	1	1	1	1	0	3	3	2	2	0	1	2	0	0	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:35480485C>T	uc001byh.2	-	6	836	c.608G>A	c.(607-609)CGA>CAA	p.R203Q	ZMYM6_uc001byf.1_Missense_Mutation_p.R203Q|ZMYM6_uc010oht.1_Missense_Mutation_p.R106Q|ZMYM6_uc009vup.2_Missense_Mutation_p.R9Q|ZMYM6_uc009vuq.1_Missense_Mutation_p.R203Q|ZMYM6_uc009vur.1_Missense_Mutation_p.R9Q	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258	203	MYM-type 2.				multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				AACTTCAAATCGAGTCTAGGA	0.333													16	47					0	0	1	0	0		T	35480485	T	T	35480485	3	4	89	1	0	0	0	0	1	0	0	0	17729	884	31	1	3413	1	ZMYM6	1	35480485	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27623	35480485	213770136	121	53952											
ZMYM1	79830	broad.mit.edu	37	chr1	35579062	35579062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacgatttatctattcattCgaaacagattgagggaaata	15	13	8	5	2	2	3	1	2	1	1	3	6	2	4	0	1	1	0	0	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:35579062C>T	uc001bym.2	+	11	1779	c.1631C>T	c.(1630-1632)TCG>TTG	p.S544L	ZMYM1_uc001byn.2_Missense_Mutation_p.S544L|ZMYM1_uc010ohu.1_Missense_Mutation_p.S525L|ZMYM1_uc001byo.2_Missense_Mutation_p.S184L|ZMYM1_uc009vut.2_Missense_Mutation_p.S469L	NM_024772	NP_079048	Q5SVZ6	ZMYM1_HUMAN	zinc finger, MYM domain containing 1	544						nucleus	nucleic acid binding|protein dimerization activity|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TCTATTCATTCGAAACAGATT	0.328													43	126					0	0	1	0	0		T	35579062	T	T	35579062	3	4	89	1	0	0	0	0	1	0	0	0	17724	893	31	1	1665	1	ZMYM1	1	35579062	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	98577	35579062	213671559	122	53953											
ZMYM1	79830	broad.mit.edu	37	chr1	35580514	35580514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggacattatcccagaacttaGattttatcgacattatgcaa	14	13	6	8	1	0	2	0	0	0	2	2	4	1	3	1	1	2	1	1	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:35580514G>A	uc001bym.2	+	11	3231	c.3083G>A	c.(3082-3084)AGA>AAA	p.R1028K	ZMYM1_uc001byn.2_Missense_Mutation_p.R1028K|ZMYM1_uc010ohu.1_Missense_Mutation_p.R1009K|ZMYM1_uc001byo.2_Missense_Mutation_p.R668K|ZMYM1_uc009vut.2_Missense_Mutation_p.R953K	NM_024772	NP_079048	Q5SVZ6	ZMYM1_HUMAN	zinc finger, MYM domain containing 1	1028						nucleus	nucleic acid binding|protein dimerization activity|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CCAGAACTTAGATTTTATCGA	0.333													38	81					0	0	1	0	0		A	35580514	A	A	35580514	3	1	89	1	0	0	0	0	1	0	0	0	17724	942	33	4	3117	4	ZMYM1	1	35580514	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1452	35580514	213670107	123	53954											
ZMYM4	9202	broad.mit.edu	37	chr1	35852607	35852607	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttttgtttttccagaatTtattcaacaaaccaactgga	12	17	5	7	0	1	1	1	0	0	1	2	2	2	2	2	1	3	2	2	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:35852607T>G	uc001byt.2	+	12	1920	c.1840T>G	c.(1840-1842)TTA>GTA	p.L614V	ZMYM4_uc009vuu.2_Missense_Mutation_p.L582V|ZMYM4_uc001byu.2_Missense_Mutation_p.L290V|ZMYM4_uc009vuv.2_Missense_Mutation_p.L353V	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	614	MYM-type 6.				multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TTTCCAGAATTTATTCAACAA	0.289													9	25					0	0	1	0	0		G	35852607	G	G	35852607	3	3	89	1	0	0	0	0	1	0	0	0	17727	1838	64	5	1886	5	ZMYM4	1	35852607	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	272093	35852607	213398014	124	53955											
KIAA0319L	79932	broad.mit.edu	37	chr1	35925982	35925982	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agaaatcttctcttctcttaGaggccccttaagttcttccc	8	15	5	13	0	4	2	0	0	4	2	7	2	5	2	3	1	0	1	3	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:35925982G>C	uc001byx.2	-	9	1609	c.1351C>G	c.(1351-1353)CTA>GTA	p.L451V	KIAA0319L_uc010ohv.1_Missense_Mutation_p.L93V|KIAA0319L_uc010ohw.1_RNA	NM_024874	NP_079150	Q8IZA0	K319L_HUMAN	dyslexia susceptibility 2-like	451	PKD 2.|Extracellular (Potential).					cytoplasmic vesicle part|integral to membrane	protein binding			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TCTTCTCTTAGAGGCCCCTTA	0.383													37	81					0	0	1	0	0		C	35925982	C	C	35925982	3	2	89	1	0	0	0	0	1	0	0	0	8185	933	33	5	1850	5	KIAA0319L	1	35925982	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	73375	35925982	213324639	125	53956											
EIF2C4	192670	broad.mit.edu	37	chr1	36301555	36301555	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcctgaagataaatgcaaAacttggaggaattaacaatg	17	10	9	5	0	0	2	0	1	0	1	0	4	0	4	1	2	4	1	1	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:36301555A>G	uc001bzj.1	+	13	1875	c.1685A>G	c.(1684-1686)AAA>AGA	p.K562R		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4	562	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				ATAAATGCAAAACTTGGAGGA	0.348													35	87					0	0	1	0	0		G	36301555	G	G	36301555	3	3	89	1	0	0	0	0	1	0	0	0	5014	14	1	3	1735	3	EIF2C4	1	36301555	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	375573	36301555	212949066	126	53957											
EIF2C3	192669	broad.mit.edu	37	chr1	36499775	36499775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttttgcatctattccatagCggaagtgaaacgtgtaggag	11	12	12	6	2	1	1	0	1	1	0	2	3	2	3	1	2	3	3	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:36499775C>T	uc001bzp.2	+	13	1848	c.1592C>T	c.(1591-1593)GCG>GTG	p.A531V	EIF2C3_uc001bzq.2_Missense_Mutation_p.A297V	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	531	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TATTCCATAGCGGAAGTGAAA	0.353													7	25					0	0	1	0	0		T	36499775	T	T	36499775	3	4	89	1	0	0	0	0	1	0	0	0	5013	782	27	1	1642	1	EIF2C3	1	36499775	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	198220	36499775	212750846	127	53958											
THRAP3	9967	broad.mit.edu	37	chr1	36754728	36754728	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaacaaataccgataaaGaaaaaataaaagagaaaggg	27	3	7	4	1	0	2	0	0	0	2	0	4	0	2	1	1	3	0	1	1	12	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:36754728G>T	uc001cae.3	+	5	1332	c.1108G>T	c.(1108-1110)GAA>TAA	p.E370*	THRAP3_uc001caf.3_Nonsense_Mutation_p.E370*|THRAP3_uc001cag.1_Nonsense_Mutation_p.E370*	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	370					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TACCGATAAAGAAAAAATAAA	0.358			T	USP6	aneurysmal bone cysts								20	47					5.03518e-11	5.49976e-11	1	1	0		T	36754728	T	T	36754728	4	4	89	1	0	0	0	0	0	1	0	0	15899	943	33	5	1118	5	THRAP3	1	36754728	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	254953	36754728	212495893	128	53959											
OSCP1	127700	broad.mit.edu	37	chr1	36886172	36886172	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctcccatcagcctggccaaGaaattcagctcttctttagc	9	11	6	15	0	4	1	2	0	2	1	5	1	5	1	4	1	3	1	4	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:36886172G>A	uc001cap.2	-	9	976	c.894C>T	c.(892-894)TTC>TTT	p.F298F	OSCP1_uc001caq.2_Silent_p.F288F	NM_145047	NP_659484	Q8WVF1	OSCP1_HUMAN	oxidored-nitro domain-containing protein isoform	298					transport	basal plasma membrane				ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCCTGGCCAAGAAATTCAGCT	0.438											OREG0013368	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	104	203					0	0	1	0	0		A	36886172	A	A	36886172	2	1	89	1	0	0	0	0	0	0	0	1	11305	933	33	4		4	OSCP1	1	36886172	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	131444	36886172	212364449	129	53960											
MRPS15	64960	broad.mit.edu	37	chr1	36926331	36926331	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtgtcctctgggtttgcaAcaatcttcttcataaactgt	8	16	8	9	0	4	0	1	0	3	0	5	0	5	0	1	2	3	2	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:36926331A>C	uc001cas.2	-	5	511	c.347T>G	c.(346-348)GTT>GGT	p.V116G		NM_031280	NP_112570	P82914	RT15_HUMAN	mitochondrial ribosomal protein S15 precursor	116					translation	mitochondrial small ribosomal subunit|nuclear membrane	structural constituent of ribosome			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TGGGTTTGCAACAATCTTCTT	0.502													22	43					0	0	1	0	0		C	36926331	C	C	36926331	3	2	89	1	0	0	0	0	1	0	0	0	9843	43	2	5	442	5	MRPS15	1	36926331	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	40159	36926331	212324290	130	53961											
GRIK3	2899	broad.mit.edu	37	chr1	37319226	37319226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccacgcaccttctccaggCcatcctctttcaggctgatg	7	10	8	16	1	3	1	1	1	2	0	5	2	4	1	5	2	0	2	5	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:37319226C>T	uc001caz.2	-	8	1337	c.1202G>A	c.(1201-1203)GGC>GAC	p.G401D	GRIK3_uc001cba.1_Missense_Mutation_p.G401D	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	401	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	CTTCTCCAGGCCATCCTCTTT	0.537													22	34					0	0	1	0	0		T	37319226	T	T	37319226	3	4	89	1	0	0	0	0	1	0	0	0	6791	739	26	2	1593	2	GRIK3	1	37319226	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	392895	37319226	211931395	131	53962											
GRIK3	2899	broad.mit.edu	37	chr1	37337828	37337828	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccatagtgtggctgcagtcGaagataatgcggaattcccg	10	9	13	9	3	0	1	0	0	0	1	2	3	1	2	2	2	2	2	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:37337828G>A	uc001caz.2	-	4	828	c.693C>T	c.(691-693)TTC>TTT	p.F231F	GRIK3_uc001cba.1_Silent_p.F231F	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	231	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GGCTGCAGTCGAAGATAATGC	0.607													13	25					0	0	1	0	0		A	37337828	A	A	37337828	2	1	89	1	0	0	0	0	0	0	0	1	6791	1049	37	1		1	GRIK3	1	37337828	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	18602	37337828	211912793	132	53963											
CDCA8	55143	broad.mit.edu	37	chr1	38172656	38172656	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctttctattcagagcctgCgattattggccagtgacttg	7	14	9	11	1	2	2	1	1	1	1	2	3	2	2	3	1	2	0	3	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:38172656C>T	uc001cbr.2	+	10	825	c.718C>T	c.(718-720)CGA>TGA	p.R240*	CDCA8_uc001cbs.2_Nonsense_Mutation_p.R240*	NM_018101	NP_060571	Q53HL2	BOREA_HUMAN	cell division cycle associated 8	240					cell division|chromosome organization|mitotic metaphase|mitotic prometaphase	chromosome passenger complex|chromosome, centromeric region|cytosol|nucleolus|spindle	protein binding			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TCAGAGCCTGCGATTATTGGC	0.522													31	88					0	0	1	0	0		T	38172656	T	T	38172656	4	4	89	1	0	0	0	0	0	1	0	0	3095	760	27	1	752	1	CDCA8	1	38172656	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	834828	38172656	211077965	133	53964											
RRAGC	64121	broad.mit.edu	37	chr1	39305238	39305238	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcagactagatggcgtttCgtggcgtgccattgtgtgtc	6	14	13	8	3	1	2	1	0	0	2	3	2	1	2	1	2	1	1	1	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39305238C>T	uc001ccq.2	-	7	1209	c.1187G>A	c.(1186-1188)CGA>CAA	p.R396Q	RRAGC_uc010oim.1_Missense_Mutation_p.R362Q|RRAGC_uc001ccr.2_Missense_Mutation_p.R318Q	NM_022157	NP_071440	Q9HB90	RRAGC_HUMAN	Ras-related GTP binding C	396					apoptosis|cell growth|cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade|RNA splicing|small GTPase mediated signal transduction|transcription, DNA-dependent	lysosome|nucleus	GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein heterodimerization activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)				GATGGCGTTTCGTGGCGTGCC	0.562													22	41					0	0	1	0	0		T	39305238	T	T	39305238	3	4	89	1	0	0	0	0	1	0	0	0	13699	884	31	1	16	1	RRAGC	1	39305238	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1132582	39305238	209945383	134	53965											
GJA9	81025	broad.mit.edu	37	chr1	39341360	39341360	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttccttttctccagctgAcaaagctcttgctccaatct	8	15	5	13	0	3	1	0	1	3	0	6	1	5	1	3	0	3	4	3	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39341360A>G	uc001cct.1	-	2	692	c.411T>C	c.(409-411)TGT>TGC	p.C137C	RRAGC_uc001ccr.2_5'Flank|MYCBP_uc001ccs.2_5'Flank	NM_030772	NP_110399	P57773	CXA9_HUMAN	gap junction protein, alpha 9, 59kDa	137	Cytoplasmic (Potential).				cell communication	connexon complex|integral to membrane					0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			TCTCCAGCTGACAAAGCTCTT	0.443													56	114					0	0	1	0	0		G	39341360	G	G	39341360	2	3	89	1	0	0	0	0	0	0	0	1	6421	273	10	3		3	GJA9	1	39341360	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	36122	39341360	209909261	135	53966											
RHBDL2	54933	broad.mit.edu	37	chr1	39358897	39358897	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatcatttcttgaaaattCttaaaaagagataaataata	20	13	5	3	0	3	2	1	1	2	1	3	4	3	3	0	1	0	0	0	1	10	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39358897C>A	uc001ccu.1	-	6	838	c.610_splice	c.e6-1	p.N204_splice	RHBDL2_uc010oin.1_Splice_Site_p.N204_splice|RHBDL2_uc010oio.1_Splice_Site_p.N284_splice	NM_017821	NP_060291	Q9NX52	RHBL2_HUMAN	rhomboid protease 2						proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity				0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			CTTGAAAATTCTTAAAAAGAG	0.299													12	20					0.00010058	0.000102942	1	1	0		A	39358897	A	A	39358897	5	1	89	1	0	0	0	0	0	0	1	0	13347	927	32	5	314	5	RHBDL2	1	39358897	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	17537	39358897	209891724	136	53967											
MACF1	23499	broad.mit.edu	37	chr1	39749819	39749819	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagcatacaatactgatgTcagataaaacttttccccaa	17	10	4	10	0	1	2	1	1	0	1	2	2	2	2	2	0	5	1	2	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39749819T>C	uc010ois.1	+	11	1217	c.1012T>C	c.(1012-1014)TCA>CCA	p.S338P	MACF1_uc001cda.1_Missense_Mutation_p.S246P	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	338					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AATACTGATGTCAGATAAAAC	0.408													20	52					0	0	1	0	0		C	39749819	C	C	39749819	3	2	89	1	0	0	0	0	1	0	0	0	9162	1667	58	3	1046	3	MACF1	1	39749819	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	390922	39749819	209500802	137	53968											
MACF1	23499	broad.mit.edu	37	chr1	39757662	39757662	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacagcagcacatccatacGagtgtagaagagctgggctc	13	6	11	11	1	0	2	0	0	0	2	2	3	1	2	1	1	4	5	1	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39757662G>A	uc010ois.1	+	17	2086	c.1881G>A	c.(1879-1881)ACG>ACA	p.T627T	MACF1_uc001cda.1_Silent_p.T535T	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	627					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			ACATCCATACGAGTGTAGAAG	0.493													20	42					0	0	1	0	0		A	39757662	A	A	39757662	2	1	89	1	0	0	0	0	0	0	0	1	9162	1045	37	1		1	MACF1	1	39757662	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7843	39757662	209492959	138	53969											
MACF1	23499	broad.mit.edu	37	chr1	39775246	39775246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgtgttatttctagggtcGaacaatcttatcagaaggtt	10	16	9	6	1	4	1	1	0	3	1	5	2	4	1	0	2	1	2	0	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39775246G>A	uc010ois.1	+	25	3014	c.2809G>A	c.(2809-2811)GAA>AAA	p.E937K	MACF1_uc001cda.1_Missense_Mutation_p.E845K|MACF1_uc001cdc.1_Missense_Mutation_p.E24K|MACF1_uc009vvq.1_5'UTR|MACF1_uc001cdb.1_Missense_Mutation_p.E24K	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	937					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TTCTAGGGTCGAACAATCTTA	0.408													34	64					0	0	1	0	0		A	39775246	A	A	39775246	3	1	89	1	0	0	0	0	1	0	0	0	9162	1059	37	1	2899	1	MACF1	1	39775246	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17584	39775246	209475375	139	53970											
MACF1	23499	broad.mit.edu	37	chr1	39785358	39785358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctatttgcagaaattgagaGaaatcagacaaaactggatc	17	9	8	7	0	1	4	1	1	0	3	2	6	1	5	1	1	2	1	1	1	5	3	rs139099001		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39785358G>A	uc010ois.1	+	32	4188	c.3983G>A	c.(3982-3984)AGA>AAA	p.R1328K	MACF1_uc001cda.1_Missense_Mutation_p.R1236K|MACF1_uc001cdc.1_Missense_Mutation_p.R415K|MACF1_uc009vvq.1_Missense_Mutation_p.R385K|MACF1_uc001cdb.1_Missense_Mutation_p.R415K	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1328					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GAAATTGAGAGAAATCAGACA	0.353													22	46					0	0	1	0	0		A	39785358	A	A	39785358	3	1	89	1	0	0	0	0	1	0	0	0	9162	942	33	4	4101	4	MACF1	1	39785358	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	10112	39785358	209465263	140	53971											
MACF1	23499	broad.mit.edu	37	chr1	39797149	39797149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggcttactgagagcagagGccctctttctgtggtggaag	8	10	14	9	0	2	2	0	1	2	2	2	4	2	3	1	4	2	2	1	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39797149G>A	uc010oiu.1	+	1	340	c.209G>A	c.(208-210)GGC>GAC	p.G70D	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1635					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GAGAGCAGAGGCCCTCTTTCT	0.488													41	88					0	0	1	0	0		A	39797149	A	A	39797149	3	1	89	1	0	0	0	0	1	0	0	0	9162	1203	42	2	4980	2	MACF1	1	39797149	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11791	39797149	209453472	141	53972											
MACF1	23499	broad.mit.edu	37	chr1	39797279	39797279	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaactgtattaacctggaAgaggcttttcatcaaggcct	12	11	10	8	0	2	2	2	0	0	2	2	4	2	3	2	3	2	2	2	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39797279A>C	uc010oiu.1	+	1	470	c.339A>C	c.(337-339)GAA>GAC	p.E113D	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1678	Plectin 2.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TTAACCTGGAAGAGGCTTTTC	0.413													46	107					0	0	1	0	0		C	39797279	C	C	39797279	3	2	89	1	0	0	0	0	1	0	0	0	9162	69	3	5	5110	5	MACF1	1	39797279	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	130	39797279	209453342	142	53973											
MACF1	23499	broad.mit.edu	37	chr1	39801293	39801293	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	attagagatgagcatgactcCcatataaagagccaacctag	16	8	8	9	0	0	4	0	2	0	2	1	5	1	4	3	0	3	1	3	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39801293C>A	uc010oiu.1	+	1	4484	c.4353C>A	c.(4351-4353)TCC>TCA	p.S1451S	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3016					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AGCATGACTCCCATATAAAGA	0.378													28	58					1.80694e-10	1.96319e-10	1	1	0		A	39801293	A	A	39801293	2	1	89	1	0	0	0	0	0	0	0	1	9162	610	22	5		5	MACF1	1	39801293	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4014	39801293	209449328	143	53974											
MACF1	23499	broad.mit.edu	37	chr1	39802891	39802891	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgtttagaacatgatgAaaagctagtatcctatctgt	13	14	7	7	0	2	3	0	2	2	1	3	3	3	3	1	0	2	3	1	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39802891A>G	uc010oiu.1	+	2	5554	c.5423A>G	c.(5422-5424)GAA>GGA	p.E1808G	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3373					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GAACATGATGAAAAGCTAGTA	0.423													50	119					0	0	1	0	0		G	39802891	G	G	39802891	3	3	89	1	0	0	0	0	1	0	0	0	9162	246	9	3	10198	3	MACF1	1	39802891	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1598	39802891	209447730	144	53975											
MACF1	23499	broad.mit.edu	37	chr1	39851600	39851600	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggtttagaagaccttgcAggtaagttggggtgaagaac	13	9	14	5	0	0	4	0	1	0	3	0	4	0	4	1	4	2	4	1	4	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39851600A>C	uc010oiu.1	+	21	9794	c.9663A>C	c.(9661-9663)GCA>GCC	p.A3221A	MACF1_uc010ois.1_Silent_p.A2719A|MACF1_uc001cda.1_Silent_p.A2606A|MACF1_uc001cdc.1_Silent_p.A1785A	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	4786	LRR 18.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AAGACCTTGCAGGTAAGTTGG	0.463													33	37					0	0	1	0	0		C	39851600	C	C	39851600	2	2	89	1	0	0	0	0	0	0	0	1	9162	202	7	5		5	MACF1	1	39851600	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	48709	39851600	209399021	145	53976											
MACF1	23499	broad.mit.edu	37	chr1	39907927	39907927	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacggacagagacattataCgagaaccactgacagaactc	17	5	9	10	2	0	5	0	1	0	4	1	8	0	6	1	1	3	0	1	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39907927C>T	uc010oiu.1	+	41	14343	c.14212C>T	c.(14212-14214)CGA>TGA	p.R4738*	MACF1_uc010ois.1_Nonsense_Mutation_p.R4236*	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	6303	Spectrin 12.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AGACATTATACGAGAACCACT	0.448													22	44					0	0	1	0	0		T	39907927	T	T	39907927	4	4	89	1	0	0	0	0	0	1	0	0	9162	528	19	1	19143	1	MACF1	1	39907927	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	56327	39907927	209342694	146	53977											
MACF1	23499	broad.mit.edu	37	chr1	39910339	39910339	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgccttttcttgtaggaactCtattcccagctgaaagccaa	10	13	7	11	0	2	1	0	1	2	0	3	2	3	2	3	1	4	2	3	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:39910339C>T	uc010oiu.1	+	45	14897	c.14766C>T	c.(14764-14766)CTC>CTT	p.L4922L	MACF1_uc010ois.1_Silent_p.L4420L	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TGTAGGAACTCTATTCCCAGC	0.448													14	47					0	0	1	0	0		T	39910339	T	T	39910339	2	4	89	1	0	0	0	0	0	0	0	1	9162	900	32	4		4	MACF1	1	39910339	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2412	39910339	209340282	147	53978											
NT5C1A	84618	broad.mit.edu	37	chr1	40124988	40124988	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaaggaacaaggcttcAtctgtctccaggccccagct	10	7	9	15	0	3	0	1	0	2	0	4	1	3	1	4	3	3	3	4	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:40124988A>G	uc001cdq.1	-	6	912	c.912T>C	c.(910-912)GAT>GAC	p.D304D		NM_032526	NP_115915	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	304					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			ACAAGGCTTCATCTGTCTCCA	0.602													33	69					0	0	1	0	0		G	40124988	G	G	40124988	2	3	89	1	0	0	0	0	0	0	0	1	10704	214	8	3		3	NT5C1A	1	40124988	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	214649	40124988	209125633	148	53979											
NT5C1A	84618	broad.mit.edu	37	chr1	40131295	40131295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actatcagggtacagctcccGcagccgcctgttcacggcct	7	8	10	16	3	2	0	2	0	0	0	3	0	3	0	4	2	3	4	4	2	2	3	rs144180251		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:40131295G>A	uc001cdq.1	-	3	331	c.331C>T	c.(331-333)CGG>TGG	p.R111W		NM_032526	NP_115915	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	111					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TACAGCTCCCGCAGCCGCCTG	0.557													29	34					0	0	1	0	0		A	40131295	A	A	40131295	3	1	89	1	0	0	0	0	1	0	0	0	10704	1086	38	1	791	1	NT5C1A	1	40131295	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6307	40131295	209119326	149	53980											
RLF	6018	broad.mit.edu	37	chr1	40701665	40701665	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggatttaatatgttagaaGaactatatttgcaaccagat	16	14	7	4	0	0	3	0	0	0	3	0	4	0	4	1	1	3	2	1	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:40701665G>T	uc001cfc.3	+	8	1322	c.1291G>T	c.(1291-1293)GAA>TAA	p.E431*	RLF_uc001cfd.3_Nonsense_Mutation_p.E122*	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	431					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			TATGTTAGAAGAACTATATTT	0.373													46	83					1.6237e-14	1.8334e-14	1	1	0		T	40701665	T	T	40701665	4	4	89	1	0	0	0	0	0	1	0	0	13414	943	33	5	1321	5	RLF	1	40701665	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	570370	40701665	208548956	150	53981											
RLF	6018	broad.mit.edu	37	chr1	40705137	40705137	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagcaacagatggagaatcTtgttgtttgcgttaagtacg	12	12	12	5	2	1	3	0	0	1	3	1	4	1	3	0	1	4	5	0	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:40705137T>G	uc001cfc.3	+	8	4794	c.4763T>G	c.(4762-4764)CTT>CGT	p.L1588R	RLF_uc001cfd.3_Missense_Mutation_p.L1279R	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	1588					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			ATGGAGAATCTTGTTGTTTGC	0.423													32	56					0	0	1	0	0		G	40705137	G	G	40705137	3	3	89	1	0	0	0	0	1	0	0	0	13414	1609	56	5	4793	5	RLF	1	40705137	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3472	40705137	208545484	151	53982											
ZMPSTE24	10269	broad.mit.edu	37	chr1	40758159	40758159	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctaagccgcagatttgagTttcaagctgatgcatttgcc	9	13	9	10	1	1	3	1	2	0	1	2	3	2	3	3	0	4	4	3	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:40758159T>G	uc001cfg.2	+	10	1457	c.1246T>G	c.(1246-1248)TTT>GTT	p.F416V		NM_005857	NP_005848	O75844	FACE1_HUMAN	zinc metallopeptidase STE24	416						endoplasmic reticulum membrane|Golgi membrane|integral to membrane	metal ion binding|metalloexopeptidase activity				0	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;6.3e-18)			CAGATTTGAGTTTCAAGCTGA	0.383													47	82					0	0	1	0	0		G	40758159	G	G	40758159	3	3	89	1	0	0	0	0	1	0	0	0	17723	1725	60	5	1284	5	ZMPSTE24	1	40758159	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	53022	40758159	208492462	152	53983											
ZNF643	65243	broad.mit.edu	37	chr1	40922718	40922718	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgggaggtgatgctggaGaactatgggaacctggtctc	9	9	15	8	1	1	2	0	1	1	1	2	5	1	4	2	5	4	1	2	5	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:40922718G>T	uc001cfn.1	+	3	612	c.315G>T	c.(313-315)GAG>GAT	p.E105D	ZNF643_uc001cfl.1_Missense_Mutation_p.E3D|ZNF643_uc001cfm.1_5'UTR	NM_023070	NP_075558	Q9UJL9	ZN643_HUMAN	zinc finger protein 643	105	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;5.25e-18)			TGATGCTGGAGAACTATGGGA	0.488													8	42					1.12685e-05	1.16379e-05	1	1	0		T	40922718	T	T	40922718	3	4	89	1	0	0	0	0	1	0	0	0	18084	933	33	5	325	5	ZNF643	1	40922718	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	164559	40922718	208327903	153	53984											
CTPS	1503	broad.mit.edu	37	chr1	41475885	41475885	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctgactctgaaatcaccGaactgaagtttccatcaata	13	10	5	13	1	3	3	2	3	1	0	4	4	4	3	4	0	1	1	4	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:41475885G>A	uc001cgk.3	+	18	2252	c.1744G>A	c.(1744-1746)GAA>AAA	p.E582K	CTPS_uc010ojo.1_Missense_Mutation_p.E351K|CTPS_uc001cgl.3_Missense_Mutation_p.E582K|CTPS_uc010ojq.1_Missense_Mutation_p.E426K|CTPS_uc009vwe.2_Missense_Mutation_p.E251K	NM_001905	NP_001896	P17812	PYRG1_HUMAN	CTP synthase	582					CTP biosynthetic process|glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|response to drug	cytosol	ATP binding|CTP synthase activity|protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)			L-Glutamine(DB00130)	TGAAATCACCGAACTGAAGTT	0.408													23	51					0	0	1	0	0		A	41475885	A	A	41475885	3	1	89	1	0	0	0	0	1	0	0	0	4025	1059	37	1	1810	1	CTPS	1	41475885	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	553167	41475885	207774736	154	53985											
EDN2	1907	broad.mit.edu	37	chr1	41949772	41949772	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtagacgcactccttgTcgagccaggagctgcaggag	11	6	14	10	2	0	2	0	0	0	2	2	5	1	4	2	2	3	4	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:41949772T>C	uc001cgx.2	-	2	239	c.167A>G	c.(166-168)GAC>GGC	p.D56G	EDN2_uc001cgu.2_RNA|EDN2_uc001cgv.2_RNA|EDN2_uc009vwh.2_5'UTR|EDN2_uc001cgw.2_RNA|EDN2_uc009vwi.2_RNA|EDN2_uc009vwj.2_RNA	NM_001956	NP_001947	P20800	EDN2_HUMAN	endothelin 2 preproprotein	56					artery smooth muscle contraction|calcium-mediated signaling|cytokine-mediated signaling pathway|elevation of cytosolic calcium ion concentration|hormonal regulation of the force of heart contraction|inositol phosphate-mediated signaling|macrophage activation|macrophage chemotaxis|neutrophil chemotaxis|positive regulation of cell proliferation|positive regulation of heart rate|positive regulation of leukocyte chemotaxis|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of the force of heart contraction by chemical signal|prostaglandin biosynthetic process|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	extracellular space	endothelin B receptor binding|hormone activity				0	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GCACTCCTTGTCGAGCCAGGA	0.632													9	17					0	0	1	0	0		C	41949772	C	C	41949772	3	2	89	1	0	0	0	0	1	0	0	0	4923	1667	58	3	385	3	EDN2	1	41949772	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	473887	41949772	207300849	155	53986											
HIVEP3	59269	broad.mit.edu	37	chr1	42049380	42049380	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgcttaagcggagggccagCttctgcttaatcgtgtgggt	6	12	14	9	3	1	0	0	0	1	0	3	1	1	1	1	3	3	3	1	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:42049380C>A	uc001cgz.3	-	4	2302	c.1089G>T	c.(1087-1089)AAG>AAT	p.K363N	HIVEP3_uc001cha.3_Missense_Mutation_p.K363N|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	363	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				GGAGGGCCAGCTTCTGCTTAA	0.557													31	58					2.65835e-16	3.05131e-16	1	1	0		A	42049380	A	A	42049380	3	1	89	1	0	0	0	0	1	0	0	0	7204	796	28	5	6155	5	HIVEP3	1	42049380	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	99608	42049380	207201241	156	53987											
RIMKLA	284716	broad.mit.edu	37	chr1	42880351	42880351	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttagatgtgggtgggatCattgcagactataccatgtc	11	12	11	7	0	1	2	1	0	0	2	2	3	1	3	1	2	3	1	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:42880351C>A	uc001chi.2	+	5	1020	c.882C>A	c.(880-882)ATC>ATA	p.I294I		NM_173642	NP_775913	Q8IXN7	RIMKA_HUMAN	ribosomal modification protein rimK-like family	294	ATP-grasp.				protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						TGGGTGGGATCATTGCAGACT	0.512													69	116					3.30712e-30	4.04176e-30	1	1	0		A	42880351	A	A	42880351	2	1	89	1	0	0	0	0	0	0	0	1	13390	816	29	5		5	RIMKLA	1	42880351	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	830971	42880351	206370270	157	53988											
ZMYND12	84217	broad.mit.edu	37	chr1	42914271	42914271	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttcccttcaaagaggtaTttctgggctatggtgtagca	8	15	11	7	0	2	1	1	0	1	1	3	1	3	1	1	3	1	5	1	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:42914271T>G	uc001chj.2	-	3	561	c.291A>C	c.(289-291)AAA>AAC	p.K97N	ZMYND12_uc010ojt.1_Intron	NM_032257	NP_115633	Q9H0C1	ZMY12_HUMAN	zinc finger, MYND-type containing 12 isoform 1	97						intracellular	zinc ion binding			ovary(1)	1	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CAAAGAGGTATTTCTGGGCTA	0.463													22	45					0	0	1	0	0		G	42914271	G	G	42914271	3	3	89	1	0	0	0	0	1	0	0	0	17732	1490	52	5	830	5	ZMYND12	1	42914271	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	33920	42914271	206336350	158	53989											
CCDC30	728621	broad.mit.edu	37	chr1	43011180	43011180	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtgaaaatacctgtaaaGatcctgaatctaatgaacca	18	9	6	8	0	1	4	0	3	1	1	2	4	2	4	3	0	2	1	3	0	9	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:43011180G>T	uc009vwk.1	+	4	465	c.355G>T	c.(355-357)GAT>TAT	p.D119Y	CCDC30_uc001chm.2_5'UTR|CCDC30_uc001chn.2_Intron|CCDC30_uc010oju.1_RNA|CCDC30_uc001chp.2_Intron	NM_001080850	NP_001074319	Q5VVM6	CCD30_HUMAN	coiled-coil domain containing 30	119											0						TACCTGTAAAGATCCTGAATC	0.338													26	56					9.57634e-11	1.04293e-10	1	1	0		T	43011180	T	T	43011180	3	4	89	1	0	0	0	0	1	0	0	0	2808	942	33	5	365	5	CCDC30	1	43011180	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	96909	43011180	206239441	159	53990											
SLC2A1	6513	broad.mit.edu	37	chr1	43396474	43396474	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaaaggacttgcccagtttCgagaagcccatgagcacggc	11	7	11	12	2	1	2	1	1	0	1	2	4	1	3	2	2	3	2	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:43396474C>T	uc001cik.2	-	4	864	c.339G>A	c.(337-339)TCG>TCA	p.S113S		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	113	Helical; Name=3; (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	TGCCCAGTTTCGAGAAGCCCA	0.587													10	22					0	0	1	0	0		T	43396474	T	T	43396474	2	4	89	1	0	0	0	0	0	0	0	1	14563	871	31	1		1	SLC2A1	1	43396474	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	385294	43396474	205854147	160	53991											
WDR65	149465	broad.mit.edu	37	chr1	43647389	43647389	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaaatttattagcatggcTttttctccagactccaaata	13	14	5	9	0	1	2	0	0	1	2	3	2	2	2	2	1	1	2	2	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:43647389T>G	uc001cip.1	+	3	463	c.342T>G	c.(340-342)GCT>GCG	p.A114A	EBNA1BP2_uc001cio.2_Intron|WDR65_uc010ojz.1_Silent_p.A103A|WDR65_uc001ciq.1_Silent_p.A114A	NM_152498	NP_689711	Q96MR6	WDR65_HUMAN	WD repeat domain 65	114	WD 1.									skin(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TTAGCATGGCTTTTTCTCCAG	0.408													35	109					0	0	1	0	0		G	43647389	G	G	43647389	2	3	89	1	0	0	0	0	0	0	0	1	17342	1596	56	5		5	WDR65	1	43647389	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	250915	43647389	205603232	161	53992											
TIE1	7075	broad.mit.edu	37	chr1	43775110	43775110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccacagctgagttcgaggtgCcccgcttggttcttgcggac	5	10	13	13	3	1	1	0	1	1	0	2	3	1	2	3	3	3	4	3	3	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:43775110C>T	uc001ciu.2	+	9	1319	c.1240C>T	c.(1240-1242)CCC>TCC	p.P414S	TIE1_uc010okd.1_Missense_Mutation_p.P414S|TIE1_uc010oke.1_Missense_Mutation_p.P369S|TIE1_uc009vwq.2_Missense_Mutation_p.P370S|TIE1_uc010okf.1_Missense_Mutation_p.P59S|TIE1_uc010okg.1_Missense_Mutation_p.P59S|TIE1_uc010okc.1_3'UTR	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	414	Ig-like C2-type 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GTTCGAGGTGCCCCGCTTGGT	0.592													21	28					0	0	1	0	0		T	43775110	T	T	43775110	3	4	89	1	0	0	0	0	1	0	0	0	15918	739	26	2	1274	2	TIE1	1	43775110	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	127721	43775110	205475511	162	53993											
KIAA0467	23334	broad.mit.edu	37	chr1	43908278	43908278	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagttggacttccccgtgCgagatgaaaaggtgcctgct	8	9	13	11	2	0	2	0	1	0	1	1	4	1	3	4	2	3	2	4	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:43908278C>T	uc001cjk.1	+	43	5905	c.5443C>T	c.(5443-5445)CGA>TGA	p.R1815*		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	2714						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CTTCCCCGTGCGAGATGAAAA	0.517													51	85					0	0	1	0	0		T	43908278	T	T	43908278	4	4	89	1	0	0	0	0	0	1	0	0	8194	760	27	1	5605	1	KIAA0467	1	43908278	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	133168	43908278	205342343	163	53994											
KDM4A	9682	broad.mit.edu	37	chr1	44156616	44156616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccagaaatgtgcttcacttCgactggctgcagcacggaca	10	9	10	12	2	1	1	1	0	0	1	3	3	2	2	1	2	3	4	1	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:44156616C>T	uc001cjx.2	+	14	2304	c.2138C>T	c.(2137-2139)TCG>TTG	p.S713L	KDM4A_uc010oki.1_Intron	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	713	PHD-type 1.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1						TGCTTCACTTCGACTGGCTGC	0.493													102	253					0	0	1	0	0		T	44156616	T	T	44156616	3	4	89	1	0	0	0	0	1	0	0	0	8144	893	31	1	2188	1	KDM4A	1	44156616	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	248338	44156616	205094005	164	53995											
SLC6A9	6536	broad.mit.edu	37	chr1	44463386	44463386	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcagggccccagtctctgCttggctttgtggcatttttc	3	14	13	11	0	1	0	0	0	1	0	3	0	1	0	2	4	1	4	2	4	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:44463386C>A	uc001cll.2	-	14	2144	c.1952G>T	c.(1951-1953)AGC>ATC	p.S651I	SLC6A9_uc009vxe.2_Intron|SLC6A9_uc010okm.1_Intron|SLC6A9_uc001clm.2_Missense_Mutation_p.S597I|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Missense_Mutation_p.S582I|SLC6A9_uc001cln.2_Missense_Mutation_p.S578I|SLC6A9_uc010oko.1_Missense_Mutation_p.S467I	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	651	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	CCAGTCTCTGCTTGGCTTTGT	0.657													51	99					4.86159e-25	5.85421e-25	1	1	0		A	44463386	A	A	44463386	3	1	89	1	0	0	0	0	1	0	0	0	14716	797	28	5	172	5	SLC6A9	1	44463386	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	306770	44463386	204787235	165	53996											
TMEM53	79639	broad.mit.edu	37	chr1	45120404	45120404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctctggccaggactacttCgtcagccctcgagtagaggt	7	10	12	12	2	2	1	1	0	1	1	5	3	2	2	2	3	2	1	2	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:45120404C>T	uc001cmc.2	-	3	697	c.661G>A	c.(661-663)GAA>AAA	p.E221K	TMEM53_uc001cmb.1_Intron|TMEM53_uc001cmd.2_Missense_Mutation_p.E148K|TMEM53_uc009vxh.1_Missense_Mutation_p.E104K|TMEM53_uc010ola.1_Missense_Mutation_p.E104K	NM_024587	NP_078863	Q6P2H8	TMM53_HUMAN	transmembrane protein 53	221						integral to membrane				ovary(2)	2	Acute lymphoblastic leukemia(166;0.155)					AGGACTACTTCGTCAGCCCTC	0.612													43	72					0	0	1	0	0		T	45120404	T	T	45120404	3	4	89	1	0	0	0	0	1	0	0	0	16204	893	31	1	176	1	TMEM53	1	45120404	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	657018	45120404	204130217	166	53997											
PTCH2	8643	broad.mit.edu	37	chr1	45292046	45292046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttccactgtcatcatcGccaggaccagcacctgaggg	10	7	11	13	1	2	2	2	1	0	1	4	3	3	3	4	2	1	2	4	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:45292046G>A	uc010olf.1	-	19	3002	c.2990C>T	c.(2989-2991)GCG>GTG	p.A997V	PTCH2_uc010olg.1_Missense_Mutation_p.A695V	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	997	Helical; (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					TGTCATCATCGCCAGGACCAG	0.602									Basal_Cell_Nevus_syndrome				27	66					0	0	1	0	0		A	45292046	A	A	45292046	3	1	89	1	0	0	0	0	1	0	0	0	12753	1087	38	1	657	1	PTCH2	1	45292046	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	171642	45292046	203958575	167	53998											
PRDX1	5052	broad.mit.edu	37	chr1	45977024	45977024	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgcttggagaaatattCtttgctcttttggacatcag	8	17	8	8	0	4	1	1	0	3	1	4	3	4	2	0	2	2	2	0	2	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:45977024C>A	uc001cnz.2	-	5	609	c.577G>T	c.(577-579)GAA>TAA	p.E193*	PRDX1_uc001coa.2_Nonsense_Mutation_p.E193*|PRDX1_uc001cob.2_Nonsense_Mutation_p.E193*|PRDX1_uc001coc.2_Nonsense_Mutation_p.E193*	NM_181697	NP_859048	Q06830	PRDX1_HUMAN	peroxiredoxin 1	193					cell proliferation|cell redox homeostasis|hydrogen peroxide catabolic process|skeletal system development	melanosome|mitochondrion|nucleus	protein binding|thioredoxin peroxidase activity				0	Acute lymphoblastic leukemia(166;0.155)					GAGAAATATTCTTTGCTCTTT	0.463													91	233					6.42612e-47	7.99071e-47	1	1	0		A	45977024	A	A	45977024	4	1	89	1	0	0	0	0	0	1	0	0	12486	922	32	5	26	5	PRDX1	1	45977024	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	684978	45977024	203273597	168	53999											
NASP	4678	broad.mit.edu	37	chr1	46073549	46073549	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaaggtagttacctctgaAaacgaggcaggaaaggcggt	14	6	15	6	2	1	2	0	1	1	1	1	5	1	3	1	5	2	3	1	5	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:46073549A>C	uc001coi.1	+	6	1068	c.966A>C	c.(964-966)GAA>GAC	p.E322D	NASP_uc010olq.1_Missense_Mutation_p.E285D|NASP_uc001coh.1_Missense_Mutation_p.E324D|NASP_uc001coj.1_Intron|NASP_uc010olr.1_Missense_Mutation_p.E258D|NASP_uc001cok.1_Missense_Mutation_p.E205D	NM_002482	NP_002473	P49321	NASP_HUMAN	nuclear autoantigenic sperm protein isoform 2	322	Glu-rich (acidic).				blastocyst development|cell cycle|cell proliferation|DNA replication|histone exchange|protein transport	cytoplasm|nucleus	Hsp90 protein binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.211)					TTACCTCTGAAAACGAGGCAG	0.547													21	60					0	0	1	0	0		C	46073549	C	C	46073549	3	2	89	1	0	0	0	0	1	0	0	0	10190	11	1	5	1065	5	NASP	1	46073549	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	96525	46073549	203177072	169	54000											
MAST2	23139	broad.mit.edu	37	chr1	46496777	46496777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctcaggcctcctggatgCgcctcggttcccggagggcc	3	8	14	16	3	1	0	1	0	0	0	4	2	3	2	5	5	2	2	5	5	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:46496777C>T	uc001cov.2	+	23	3090	c.2807C>T	c.(2806-2808)GCG>GTG	p.A936V	MAST2_uc001cow.2_Missense_Mutation_p.A936V|MAST2_uc001coy.1_Missense_Mutation_p.A610V|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	936					regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					CTCCTGGATGCGCCTCGGTTC	0.627													13	21					0	0	1	0	0		T	46496777	T	T	46496777	3	4	89	1	0	0	0	0	1	0	0	0	9343	768	27	1	2897	1	MAST2	1	46496777	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	423228	46496777	202753844	170	54001											
PIK3R3	8503	broad.mit.edu	37	chr1	46521530	46521530	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttgatgctattcatttttTtatctatttctcggttgtcc	5	23	6	7	1	3	1	1	1	2	0	5	1	4	1	1	1	1	3	1	1	3	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:46521530T>G	uc001cpb.3	-	7	1634	c.878A>C	c.(877-879)AAA>ACA	p.K293T	PIK3R3_uc009vyb.2_Intron|PIK3R3_uc009vyc.2_Missense_Mutation_p.K310T|PIK3R3_uc001cpc.3_Missense_Mutation_p.K293T|PIK3R3_uc010olw.1_Missense_Mutation_p.K339T|PIK3R3_uc010olv.1_Missense_Mutation_p.K83T	NM_003629	NP_003620	Q92569	P55G_HUMAN	phosphoinositide-3-kinase, regulatory subunit 3	293					insulin receptor signaling pathway|platelet activation|T cell costimulation		1-phosphatidylinositol-3-kinase activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					ATTCATTTTTTTATCTATTTC	0.413													42	69					0	0	1	0	0		G	46521530	G	G	46521530	3	3	89	1	0	0	0	0	1	0	0	0	11939	1841	64	5	523	5	PIK3R3	1	46521530	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	24753	46521530	202729091	171	54002											
PIK3R3	8503	broad.mit.edu	37	chr1	46531771	46531771	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacagcctatcatactctttActcttctcctgatactgaga	10	15	4	12	0	4	2	1	2	3	1	5	3	4	2	2	0	5	0	2	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:46531771A>G	uc001cpb.3	-	5	1332	c.576T>C	c.(574-576)AGT>AGC	p.S192S	PIK3R3_uc009vyb.2_Silent_p.S192S|PIK3R3_uc009vyc.2_Silent_p.S209S|PIK3R3_uc001cpc.3_Silent_p.S192S|PIK3R3_uc010olw.1_Silent_p.S238S	NM_003629	NP_003620	Q92569	P55G_HUMAN	phosphoinositide-3-kinase, regulatory subunit 3	192					insulin receptor signaling pathway|platelet activation|T cell costimulation		1-phosphatidylinositol-3-kinase activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					CATACTCTTTACTCTTCTCCT	0.323													36	80					0	0	1	0	0		G	46531771	G	G	46531771	2	3	89	1	0	0	0	0	0	0	0	1	11939	388	14	3		3	PIK3R3	1	46531771	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	10241	46531771	202718850	172	54003											
MKNK1	8569	broad.mit.edu	37	chr1	47027233	47027233	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagcttggagatgaggtCtttggcttcactggagatgt	8	12	15	6	0	2	3	1	1	1	2	2	6	2	4	0	5	1	2	0	5	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:47027233C>A	uc001cqb.2	-	12	1289	c.1045G>T	c.(1045-1047)GAC>TAC	p.D349Y	MKNK1_uc010omd.1_Missense_Mutation_p.D213Y|MKNK1_uc001cqc.2_Missense_Mutation_p.D308Y|MKNK1_uc009vyi.2_Missense_Mutation_p.D308Y|MKNK1_uc010ome.1_Missense_Mutation_p.D213Y|MKNK1_uc009vyj.2_3'UTR	NM_003684	NP_003675	Q9BUB5	MKNK1_HUMAN	MAP kinase-interacting serine/threonine kinase 1	349	Protein kinase.				intracellular protein kinase cascade|peptidyl-serine phosphorylation|regulation of translation	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2	Acute lymphoblastic leukemia(166;0.155)					GAGATGAGGTCTTTGGCTTCA	0.527													21	45					3.62473e-10	3.92412e-10	1	1	0		A	47027233	A	A	47027233	3	1	89	1	0	0	0	0	1	0	0	0	9622	913	32	5	364	5	MKNK1	1	47027233	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	495462	47027233	202223388	173	54004											
CYP4B1	1580	broad.mit.edu	37	chr1	47283819	47283819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaggtctttgactctctgcGcttttccactgagaatgcat	7	15	8	11	1	3	2	1	2	2	1	5	3	4	2	1	1	2	2	1	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:47283819G>A	uc001cqm.3	+	11	1370	c.1286G>A	c.(1285-1287)CGC>CAC	p.R429H	CYP4B1_uc001cqn.3_Missense_Mutation_p.R430H|CYP4B1_uc009vym.2_Missense_Mutation_p.R415H|CYP4B1_uc010omk.1_Missense_Mutation_p.R266H	NM_000779	NP_000770	P13584	CP4B1_HUMAN	cytochrome P450, family 4, subfamily B,	429					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					GACTCTCTGCGCTTTTCCACT	0.572													30	75					0	0	1	0	0		A	47283819	A	A	47283819	3	1	89	1	0	0	0	0	1	0	0	0	4188	1087	38	1	1331	1	CYP4B1	1	47283819	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	256586	47283819	201966802	174	54005											
CYP4B1	1580	broad.mit.edu	37	chr1	47284422	47284422	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaagatgccccagcttgTcctgcgctccaagaatggct	9	9	9	14	1	1	2	1	0	0	2	3	2	3	2	4	1	3	3	4	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:47284422T>C	uc001cqm.3	+	12	1556	c.1472T>C	c.(1471-1473)GTC>GCC	p.V491A	CYP4B1_uc001cqn.3_Missense_Mutation_p.V492A|CYP4B1_uc009vym.2_Missense_Mutation_p.V477A|CYP4B1_uc010omk.1_Missense_Mutation_p.V328A	NM_000779	NP_000770	P13584	CP4B1_HUMAN	cytochrome P450, family 4, subfamily B,	491					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					CCCCAGCTTGTCCTGCGCTCC	0.577													46	82					0	0	1	0	0		C	47284422	C	C	47284422	3	2	89	1	0	0	0	0	1	0	0	0	4188	1667	58	3	1521	3	CYP4B1	1	47284422	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	603	47284422	201966199	175	54006											
CYP4Z1	199974	broad.mit.edu	37	chr1	47564769	47564769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcactgtattttttagagcGaaaacaccaaagatttctct	14	14	5	8	1	2	2	1	0	1	2	3	3	2	2	1	0	2	1	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:47564769G>A	uc001cqu.1	+	8	883	c.880G>A	c.(880-882)GAA>AAA	p.E294K		NM_178134	NP_835235	Q86W10	CP4Z1_HUMAN	cytochrome P450 4Z1	294	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			skin(1)	1						TTTTTAGAGCGAAAACACCAA	0.368													51	83					0	0	1	0	0		A	47564769	A	A	47564769	3	1	89	1	0	0	0	0	1	0	0	0	4197	1059	37	1	910	1	CYP4Z1	1	47564769	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	280347	47564769	201685852	176	54007											
STIL	6491	broad.mit.edu	37	chr1	47735473	47735473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcactggaaattttggtatCatcttgcttcatttgagagt	9	17	8	7	0	4	1	3	1	1	1	4	3	4	2	0	2	1	2	0	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:47735473C>T	uc001crc.1	-	14	2604	c.2449G>A	c.(2449-2451)GAT>AAT	p.D817N	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Missense_Mutation_p.D770N|STIL_uc010omo.1_Missense_Mutation_p.D817N|STIL_uc001crd.1_Missense_Mutation_p.D817N|STIL_uc001cre.1_Missense_Mutation_p.D817N|STIL_uc001crf.1_Missense_Mutation_p.D430N|STIL_uc001crg.1_Missense_Mutation_p.D770N	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	817					cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				ATTTTGGTATCATCTTGCTTC	0.368													27	87					0	0	1	0	0		T	47735473	T	T	47735473	3	4	89	1	0	0	0	0	1	0	0	0	15307	826	29	4	1433	4	STIL	1	47735473	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	170704	47735473	201515148	177	54008											
STIL	6491	broad.mit.edu	37	chr1	47746069	47746069	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtccatatgtgaaggcggTcttgccacaggcgatggttc	9	10	13	9	2	1	1	0	1	1	0	3	2	2	1	2	4	1	1	2	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:47746069T>C	uc001crc.1	-	12	2216	c.2061A>G	c.(2059-2061)AGA>AGG	p.R687R	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Silent_p.R640R|STIL_uc010omo.1_Silent_p.R687R|STIL_uc001crd.1_Silent_p.R687R|STIL_uc001cre.1_Silent_p.R687R|STIL_uc001crf.1_Silent_p.R300R|STIL_uc001crg.1_Silent_p.R640R	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	687	PIN1-binding (By similarity).				cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				GTGAAGGCGGTCTTGCCACAG	0.483													65	102					0	0	1	0	0		C	47746069	C	C	47746069	2	2	89	1	0	0	0	0	0	0	0	1	15307	1664	58	3		3	STIL	1	47746069	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	10596	47746069	201504552	178	54009											
STIL	6491	broad.mit.edu	37	chr1	47767944	47767944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaccaagtaaaaagcatgacGaattttttttattctgctta	15	15	5	6	1	1	1	0	1	1	0	1	2	1	1	1	0	3	3	1	0	8	7	rs147160336	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:47767944G>A	uc001crc.1	-	4	382	c.227C>T	c.(226-228)TCG>TTG	p.S76L	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Missense_Mutation_p.S76L|STIL_uc010omo.1_Missense_Mutation_p.S76L|STIL_uc001crd.1_Missense_Mutation_p.S76L|STIL_uc001cre.1_Missense_Mutation_p.S76L|STIL_uc001crg.1_Missense_Mutation_p.S76L	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	76					cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				AAAGCATGACGAATTTTTTTT	0.303													29	41					0	0	1	0	0		A	47767944	A	A	47767944	3	1	89	1	0	0	0	0	1	0	0	0	15307	1059	37	1	3695	1	STIL	1	47767944	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21875	47767944	201482677	179	54010											
SPATA6	54558	broad.mit.edu	37	chr1	48821347	48821347	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttagaaactaacatataAatgtctttgatgagcctgat	15	15	6	5	0	1	4	0	3	1	1	1	4	1	4	1	0	3	0	1	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:48821347A>C	uc001crr.1	-	11	1354	c.1189T>G	c.(1189-1191)TTA>GTA	p.L397V	SPATA6_uc001crs.1_Intron|SPATA6_uc010omv.1_Missense_Mutation_p.L383V	NM_019073	NP_061946	Q9NWH7	SPAT6_HUMAN	spermatogenesis associated 6 precursor	397					cell differentiation|multicellular organismal development|spermatogenesis	extracellular region				ovary(1)	1						CTAACATATAAATGTCTTTGA	0.343													20	46					0	0	1	0	0		C	48821347	C	C	48821347	3	2	89	1	0	0	0	0	1	0	0	0	15038	11	1	5	289	5	SPATA6	1	48821347	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1053403	48821347	200429274	180	54011											
AGBL4	84871	broad.mit.edu	37	chr1	49100248	49100248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagggatccagccagtgacGattcagatcaaatcccatca	14	7	9	11	1	3	3	3	1	0	2	5	5	5	4	3	1	1	0	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:49100248G>A	uc001cru.2	-	9	1026	c.868C>T	c.(868-870)CGT>TGT	p.R290C	AGBL4_uc010omw.1_Missense_Mutation_p.R23C|AGBL4_uc010omx.1_Missense_Mutation_p.R302C|AGBL4_uc001crv.1_Missense_Mutation_p.R143C|AGBL4_uc010omy.1_Missense_Mutation_p.R113C	NM_032785	NP_116174	Q5VU57	CBPC6_HUMAN	ATP/GTP binding protein-like 4	290					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2				Colorectal(2;0.00349)|COAD - Colon adenocarcinoma(2;0.0037)		AGCCAGTGACGATTCAGATCA	0.463													6	16					0	0	1	0	0		A	49100248	A	A	49100248	3	1	89	1	0	0	0	0	1	0	0	0	377	1058	37	1	667	1	AGBL4	1	49100248	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	278901	49100248	200150373	181	54012											
EPS15	2060	broad.mit.edu	37	chr1	51826915	51826915	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagcagaagtgaatggatcAcaaaatatttcaggatcttt	15	12	9	5	0	3	2	2	1	1	1	3	4	3	4	0	2	1	2	0	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:51826915A>G	uc001csq.1	-	24	2564	c.2472T>C	c.(2470-2472)TGT>TGC	p.C824C	EPS15_uc009vyz.1_Silent_p.C690C|EPS15_uc001csp.3_Silent_p.C510C	NM_001981	NP_001972	P42566	EPS15_HUMAN	epidermal growth factor receptor pathway	824	15 X 3 AA repeats of D-P-F.|Pro-rich.				cell proliferation|clathrin coat assembly|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|protein transport	cytosol|early endosome membrane	calcium ion binding|SH3 domain binding			lung(1)|kidney(1)	2						TGAATGGATCACAAAATATTT	0.413			T	MLL	ALL								43	72					0	0	1	0	0		G	51826915	G	G	51826915	2	3	89	1	0	0	0	0	0	0	0	1	5200	157	6	3		3	EPS15	1	51826915	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2726667	51826915	197423706	182	54013											
OSBPL9	114883	broad.mit.edu	37	chr1	52253122	52253122	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagacaaagagcagaagccCgagaaaggaaggagaaggaa	22	0	14	5	1	0	5	0	0	0	5	0	9	0	7	1	3	2	1	1	3	7	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:52253122C>T	uc001cst.2	+	23	2117	c.2098C>T	c.(2098-2100)CGA>TGA	p.R700*	OSBPL9_uc001css.2_Nonsense_Mutation_p.R705*|OSBPL9_uc001csx.2_RNA|OSBPL9_uc009vza.2_Nonsense_Mutation_p.R701*|OSBPL9_uc001csu.2_Nonsense_Mutation_p.R710*|OSBPL9_uc001csv.2_Nonsense_Mutation_p.R535*|OSBPL9_uc001csw.2_Nonsense_Mutation_p.R687*|OSBPL9_uc001csy.2_Nonsense_Mutation_p.R522*|OSBPL9_uc001csz.2_Nonsense_Mutation_p.R522*|OSBPL9_uc001cta.2_Nonsense_Mutation_p.R590*|OSBPL9_uc001ctb.2_Nonsense_Mutation_p.R485*	NM_024586	NP_078862	Q96SU4	OSBL9_HUMAN	oxysterol binding protein-like 9 isoform e	700					lipid transport		lipid binding			central_nervous_system(1)	1						AGCAGAAGCCCGAGAAAGGAA	0.448													45	96					0	0	1	0	0		T	52253122	T	T	52253122	4	4	89	1	0	0	0	0	0	1	0	0	11303	644	23	1	2292	1	OSBPL9	1	52253122	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	426207	52253122	196997499	183	54014											
NRD1	4898	broad.mit.edu	37	chr1	52263977	52263977	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagctgggatttgaattCtttgacgaagctcagcagag	13	10	12	6	1	2	4	1	2	1	2	2	6	2	5	0	1	3	3	0	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:52263977C>A	uc001ctc.3	-	24	3074	c.2752G>T	c.(2752-2754)GAA>TAA	p.E918*	NRD1_uc009vzb.2_Nonsense_Mutation_p.E613*|NRD1_uc001ctd.3_Nonsense_Mutation_p.E850*|NRD1_uc001cte.2_Nonsense_Mutation_p.E786*|NRD1_uc001ctf.2_Nonsense_Mutation_p.E850*|NRD1_uc010ong.1_RNA	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	849					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						GATTTGAATTCTTTGACGAAG	0.488													24	56					3.83957e-06	3.98502e-06	1	1	0		A	52263977	A	A	52263977	4	1	89	1	0	0	0	0	0	1	0	0	10664	922	32	5	947	5	NRD1	1	52263977	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10855	52263977	196986644	184	54015											
NRD1	4898	broad.mit.edu	37	chr1	52272492	52272492	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggattttgaatttgttgtctTtcttataccacaggcaacct	9	17	7	8	0	2	1	0	1	2	0	2	2	2	2	2	2	2	2	2	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:52272492T>G	uc001ctc.3	-	20	2610	c.2288A>C	c.(2287-2289)AAA>ACA	p.K763T	NRD1_uc009vzb.2_Missense_Mutation_p.K458T|NRD1_uc001ctd.3_Missense_Mutation_p.K695T|NRD1_uc001cte.2_Missense_Mutation_p.K631T|NRD1_uc001ctf.2_Missense_Mutation_p.K695T|NRD1_uc010ong.1_RNA	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	694					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						TTTGTTGTCTTTCTTATACCA	0.284													55	94					0	0	1	0	0		G	52272492	G	G	52272492	3	3	89	1	0	0	0	0	1	0	0	0	10664	1841	64	5	1427	5	NRD1	1	52272492	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	8515	52272492	196978129	185	54016											
KTI12	112970	broad.mit.edu	37	chr1	52498747	52498747	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaggcccaccaaagtgaaTaaaggccggtcccagcgatt	12	7	10	12	2	1	1	0	1	1	0	2	2	2	1	4	3	1	0	4	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:52498747T>G	uc001ctj.1	-	1	726	c.687A>C	c.(685-687)TTA>TTC	p.L229F	TXNDC12_uc001cti.2_Intron	NM_138417	NP_612426	Q96EK9	KTI12_HUMAN	KTI12 homolog, chromatin associated	229							ATP binding			central_nervous_system(2)	2						CCAAAGTGAATAAAGGCCGGT	0.622													27	84					0	0	1	0	0		G	52498747	G	G	52498747	3	3	89	1	0	0	0	0	1	0	0	0	8600	1403	49	5	381	5	KTI12	1	52498747	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	226255	52498747	196751874	186	54017											
ZFYVE9	9372	broad.mit.edu	37	chr1	52703746	52703746	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggatccattgaatagaccGaaaacagaggggagatctgt	15	8	12	6	1	1	4	0	1	1	3	2	7	2	5	2	3	1	0	2	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:52703746G>A	uc001cto.2	+	4	829	c.657G>A	c.(655-657)CCG>CCA	p.P219P	ZFYVE9_uc001ctn.2_Silent_p.P219P|ZFYVE9_uc001ctp.2_Silent_p.P219P	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	219					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						TGAATAGACCGAAAACAGAGG	0.363													43	86					0	0	1	0	0		A	52703746	A	A	52703746	2	1	89	1	0	0	0	0	0	0	0	1	17696	1045	37	1		1	ZFYVE9	1	52703746	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	204999	52703746	196546875	187	54018											
CC2D1B	200014	broad.mit.edu	37	chr1	52822738	52822738	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccgccttctgggagagtcGcaggtcctcatggtggatga	6	10	14	11	2	2	2	1	1	1	1	5	4	4	3	3	4	0	1	3	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:52822738G>A	uc001ctq.1	-	16	1969	c.1831C>T	c.(1831-1833)CGA>TGA	p.R611*	CC2D1B_uc001ctr.2_Nonsense_Mutation_p.R151*|CC2D1B_uc001cts.2_Nonsense_Mutation_p.R296*	NM_032449	NP_115825	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B	611	Potential.									ovary(2)	2						TGGGAGAGTCGCAGGTCCTCA	0.597													7	12					0	0	1	0	0		A	52822738	A	A	52822738	4	1	89	1	0	0	0	0	0	1	0	0	2730	1095	38	1	781	1	CC2D1B	1	52822738	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	118992	52822738	196427883	188	54019											
ZCCHC11	23318	broad.mit.edu	37	chr1	52981601	52981601	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatctctttctaagcgttCttctgcttgtttcaacccca	6	17	6	12	1	5	1	1	1	4	0	6	1	5	1	2	0	3	3	2	0	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:52981601C>A	uc001ctx.2	-	3	1078	c.844G>T	c.(844-846)GAA>TAA	p.E282*	ZCCHC11_uc001cty.2_Nonsense_Mutation_p.E282*|ZCCHC11_uc001ctz.2_Nonsense_Mutation_p.E282*|ZCCHC11_uc009vze.1_Nonsense_Mutation_p.E282*|ZCCHC11_uc009vzf.1_Nonsense_Mutation_p.E41*|ZCCHC11_uc001cub.2_Nonsense_Mutation_p.E282*|ZCCHC11_uc001cuc.2_RNA|ZCCHC11_uc001cud.2_Nonsense_Mutation_p.E282*	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	282					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						TCTAAGCGTTCTTCTGCTTGT	0.383													41	85					3.76604e-16	4.31307e-16	1	1	0		A	52981601	A	A	52981601	4	1	89	1	0	0	0	0	0	1	0	0	17605	922	32	5	4205	5	ZCCHC11	1	52981601	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	158863	52981601	196269020	189	54020											
SCP2	6342	broad.mit.edu	37	chr1	53443987	53443987	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggaaattttggcacaagAaatgatgactgatttgccaa	14	12	10	5	0	0	4	0	3	0	1	0	5	0	5	1	2	1	1	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:53443987A>C	uc001cur.1	+	9	894	c.773A>C	c.(772-774)GAA>GCA	p.E258A	SCP2_uc001cus.1_RNA|SCP2_uc010ono.1_Missense_Mutation_p.E177A|SCP2_uc010onp.1_Missense_Mutation_p.E234A|SCP2_uc009vzi.1_Missense_Mutation_p.E214A|SCP2_uc001cuq.1_Missense_Mutation_p.E214A	NM_002979	NP_002970	P22307	NLTP_HUMAN	sterol carrier protein 2 isoform 1 proprotein	258					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|lipid transport	mitochondrion|nucleus|peroxisomal matrix	propanoyl-CoA C-acyltransferase activity|propionyl-CoA C2-trimethyltridecanoyltransferase activity|protein binding|sterol binding			breast(1)	1						TTGGCACAAGAAATGATGACT	0.378													21	42					0	0	1	0	0		C	53443987	C	C	53443987	3	2	89	1	0	0	0	0	1	0	0	0	13959	246	9	5	807	5	SCP2	1	53443987	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	462386	53443987	195806634	190	54021											
GLIS1	148979	broad.mit.edu	37	chr1	54060472	54060472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagaaggtagcaggaaggcGcaggggtggcgaggcttcgg	9	4	20	8	3	0	1	0	0	0	1	1	3	0	2	1	8	1	4	1	8	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:54060472G>A	uc001cvr.1	-	3	671	c.104C>T	c.(103-105)GCG>GTG	p.A35V		NM_147193	NP_671726	Q8NBF1	GLIS1_HUMAN	GLIS family zinc finger 1	35					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			skin(1)	1						GCAGGAAGGCGCAGGGGTGGC	0.716													7	13					0	0	1	0	0		A	54060472	A	A	54060472	3	1	89	1	0	0	0	0	1	0	0	0	6460	1087	38	1	1790	1	GLIS1	1	54060472	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	616485	54060472	195190149	191	54022											
C1orf175	374977	broad.mit.edu	37	chr1	55167779	55167779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggcacgagaggtcgtgcGctcctcctgcatcaacctgt	7	8	11	15	3	1	1	1	0	0	1	4	2	3	1	4	2	3	3	4	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:55167779G>A	uc010ooe.1	+	20	3626	c.3302G>A	c.(3301-3303)CGC>CAC	p.R1101H	C1orf175_uc001cxq.2_RNA|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Missense_Mutation_p.R619H|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA|C1orf175_uc009vzr.1_Missense_Mutation_p.R303H	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	1101	HEAT 3.					integral to membrane	binding				0						GAGGTCGTGCGCTCCTCCTGC	0.617													3	18					0	0	1	0	0		A	55167779	A	A	55167779	3	1	89	1	0	0	0	0	1	0	0	0	2019	1087	38	1	3372	1	C1orf175	1	55167779	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1107307	55167779	194082842	192	54023											
USP24	23358	broad.mit.edu	37	chr1	55624658	55624658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccagatccggttggaagcGcatgcaaagtaacttaacgg	13	7	11	10	3	0	1	0	0	0	1	1	2	1	2	2	3	4	4	2	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:55624658G>A	uc001cyg.3	-	9	784	c.784C>T	c.(784-786)CGC>TGC	p.R262C		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	374					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						GGTTGGAAGCGCATGCAAAGT	0.378													9	8					0	0	1	0	0		A	55624658	A	A	55624658	3	1	89	1	0	0	0	0	1	0	0	0	17081	1087	38	1	6978	1	USP24	1	55624658	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	456879	55624658	193625963	193	54024											
PRKAA2	5563	broad.mit.edu	37	chr1	57169927	57169927	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatggatgatagtgccatgCatattcccccaggcctgaaa	11	11	9	10	0	0	2	0	2	0	0	1	3	1	3	4	2	2	1	4	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:57169927C>T	uc001cyk.3	+	7	1143	c.1072C>T	c.(1072-1074)CAT>TAT	p.H358Y		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	358					carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						TAGTGCCATGCATATTCCCCC	0.458													38	56					0	0	1	0	0		T	57169927	T	T	57169927	3	4	89	1	0	0	0	0	1	0	0	0	12516	710	25	2	1098	2	PRKAA2	1	57169927	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1545269	57169927	192080694	194	54025											
C1orf168	199920	broad.mit.edu	37	chr1	57192242	57192242	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgggcttccacattttcAgtttatcttcatctctgagg	7	17	7	10	0	4	1	2	1	2	0	6	1	5	1	1	2	0	2	1	2	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:57192242A>G	uc001cym.3	-	16	2214	c.1808T>C	c.(1807-1809)CTG>CCG	p.L603P	C1orf168_uc009vzu.1_RNA|C1orf168_uc001cyl.2_RNA	NM_001004303	NP_001004303	Q5VWT5	CA168_HUMAN	hypothetical protein LOC199920	603										ovary(3)|skin(2)	5						CCACATTTTCAGTTTATCTTC	0.348													28	64					0	0	1	0	0		G	57192242	G	G	57192242	3	3	89	1	0	0	0	0	1	0	0	0	2015	188	7	3	398	3	C1orf168	1	57192242	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	22315	57192242	192058379	195	54026											
DAB1	1600	broad.mit.edu	37	chr1	57481012	57481012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccccggcatcacctgagCgactggtggctgggcaccca	7	5	13	16	2	1	1	1	1	0	0	1	2	1	1	4	4	2	3	4	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:57481012C>T	uc001cys.1	-	14	1662	c.988G>A	c.(988-990)GCT>ACT	p.A330T	DAB1_uc001cyt.1_Missense_Mutation_p.A328T|DAB1_uc001cyq.1_Missense_Mutation_p.A328T|DAB1_uc001cyr.1_Missense_Mutation_p.A244T|DAB1_uc009vzw.1_Missense_Mutation_p.A312T|DAB1_uc009vzx.1_Missense_Mutation_p.A330T	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	363					cell differentiation|nervous system development					skin(2)|ovary(1)	3						ATCACCTGAGCGACTGGTGGC	0.662													20	53					0	0	1	0	0		T	57481012	T	T	57481012	3	4	89	1	0	0	0	0	1	0	0	0	4220	768	27	1	691	1	DAB1	1	57481012	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	288770	57481012	191769609	196	54027											
MYSM1	114803	broad.mit.edu	37	chr1	59125684	59125684	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aataatcacattaacaattcCtttgtacagttctcttcggt	12	16	4	9	1	2	0	1	0	1	0	5	0	3	0	1	1	2	2	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:59125684C>A	uc009wab.1	-	20	2495	c.2472G>T	c.(2470-2472)AAG>AAT	p.K824N	uc001cza.2_5'Flank|MYSM1_uc009waa.1_Missense_Mutation_p.K230N|MYSM1_uc001czc.2_RNA	NM_001085487	NP_001078956	Q5VVJ2	MYSM1_HUMAN	Myb-like, SWIRM and MPN domains 1	824					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin remodeling complex	DNA binding|histone binding|metal ion binding|metallopeptidase activity|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(1)	1	all_cancers(7;9.36e-06)					TTAACAATTCCTTTGTACAGT	0.294													16	45					1.15088e-07	1.20949e-07	1	1	0		A	59125684	A	A	59125684	3	1	89	1	0	0	0	0	1	0	0	0	10119	680	24	5	18	5	MYSM1	1	59125684	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1644672	59125684	190124937	197	54028											
MYSM1	114803	broad.mit.edu	37	chr1	59154730	59154730	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccttgttcaaacagctCtttttcttctatcgtccact	7	16	4	14	1	4	0	1	0	3	0	6	0	5	0	2	0	3	2	2	0	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:59154730C>A	uc009wab.1	-	6	402	c.379G>T	c.(379-381)GAG>TAG	p.E127*	MYSM1_uc001czc.2_RNA|MYSM1_uc001czd.2_3'UTR	NM_001085487	NP_001078956	Q5VVJ2	MYSM1_HUMAN	Myb-like, SWIRM and MPN domains 1	127	SANT.				histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin remodeling complex	DNA binding|histone binding|metal ion binding|metallopeptidase activity|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(1)	1	all_cancers(7;9.36e-06)					TCAAACAGCTCTTTTTCTTCT	0.308													12	27					0.00185496	0.00188044	1	1	0		A	59154730	A	A	59154730	4	1	89	1	0	0	0	0	0	1	0	0	10119	922	32	5	2167	5	MYSM1	1	59154730	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	29046	59154730	190095891	198	54029											
INADL	10207	broad.mit.edu	37	chr1	62367109	62367109	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggaagacgaacgcacttaAaactggagataaaatacttg	18	7	10	6	2	0	2	0	0	0	2	0	5	0	3	0	2	3	1	0	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:62367109A>C	uc001dab.2	+	24	3473	c.3359A>C	c.(3358-3360)AAA>ACA	p.K1120T	INADL_uc009waf.1_Missense_Mutation_p.K1120T|INADL_uc001daa.2_Missense_Mutation_p.K1120T|INADL_uc001dad.3_Missense_Mutation_p.K817T|INADL_uc001dac.2_RNA	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1120	PDZ 6.				intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						AACGCACTTAAAACTGGAGAT	0.338													27	45					0	0	1	0	0		C	62367109	C	C	62367109	3	2	89	1	0	0	0	0	1	0	0	0	7747	14	1	5	3449	5	INADL	1	62367109	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3212379	62367109	186883512	199	54030											
INADL	10207	broad.mit.edu	37	chr1	62586964	62586964	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatccttcccagaaaaatTcaggtattacacggacacac	15	8	6	12	1	1	2	1	0	0	2	3	3	3	3	2	2	1	1	2	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:62586964T>G	uc001dab.2	+	38	5116	c.5002T>G	c.(5002-5004)TCA>GCA	p.S1668A	INADL_uc001dac.2_RNA|INADL_uc009wag.2_Missense_Mutation_p.S452A	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1668					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						CCAGAAAAATTCAGGTATTAC	0.398													23	50					0	0	1	0	0		G	62586964	G	G	62586964	3	3	89	1	0	0	0	0	1	0	0	0	7747	1783	62	5	5148	5	INADL	1	62586964	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	219855	62586964	186663657	200	54031											
USP1	7398	broad.mit.edu	37	chr1	62910637	62910637	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctgaagactttaaagaGaaactcccaaaaggaaatgg	18	8	8	7	0	1	3	0	1	1	2	2	5	2	4	1	2	1	0	1	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:62910637G>T	uc001daj.1	+	6	1114	c.786G>T	c.(784-786)GAG>GAT	p.E262D	USP1_uc001dak.1_Missense_Mutation_p.E262D|USP1_uc001dal.1_Missense_Mutation_p.E262D	NM_001017415	NP_001017415	O94782	UBP1_HUMAN	ubiquitin specific protease 1	262					DNA repair|monoubiquitinated protein deubiquitination|regulation of DNA repair|response to UV|ubiquitin-dependent protein catabolic process	nucleoplasm	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1		all_neural(321;0.0281)		BRCA - Breast invasive adenocarcinoma(111;8.01e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00245)|OV - Ovarian serous cystadenocarcinoma(397;0.0535)		ACTTTAAAGAGAAACTCCCAA	0.358													24	65					7.33628e-21	8.67351e-21	1	1	0		T	62910637	T	T	62910637	3	4	89	1	0	0	0	0	1	0	0	0	17066	933	33	5	804	5	USP1	1	62910637	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	323673	62910637	186339984	201	54032											
USP1	7398	broad.mit.edu	37	chr1	62910879	62910879	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttaaaataaattggttaaAgtctgcaactaagcaaccca	18	10	6	7	0	1	0	0	0	1	0	1	0	1	0	1	1	4	4	1	1	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:62910879A>C	uc001daj.1	+	6	1356	c.1028A>C	c.(1027-1029)AAG>ACG	p.K343T	USP1_uc001dak.1_Missense_Mutation_p.K343T|USP1_uc001dal.1_Missense_Mutation_p.K343T	NM_001017415	NP_001017415	O94782	UBP1_HUMAN	ubiquitin specific protease 1	343					DNA repair|monoubiquitinated protein deubiquitination|regulation of DNA repair|response to UV|ubiquitin-dependent protein catabolic process	nucleoplasm	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1		all_neural(321;0.0281)		BRCA - Breast invasive adenocarcinoma(111;8.01e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00245)|OV - Ovarian serous cystadenocarcinoma(397;0.0535)		AATTGGTTAAAGTCTGCAACT	0.328													27	42					0	0	1	0	0		C	62910879	C	C	62910879	3	2	89	1	0	0	0	0	1	0	0	0	17066	72	3	5	1046	5	USP1	1	62910879	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	242	62910879	186339742	202	54033											
DOCK7	85440	broad.mit.edu	37	chr1	62979530	62979530	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagacagatcaaaaggcttcGacttgattctgctgaaaagg	14	10	10	7	1	2	4	1	2	1	2	3	5	2	4	0	2	1	2	0	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:62979530G>A	uc001daq.2	-	32	4010	c.3976C>T	c.(3976-3978)CGA>TGA	p.R1326*	DOCK7_uc001dan.2_Nonsense_Mutation_p.R1187*|DOCK7_uc001dao.2_Nonsense_Mutation_p.R1187*|DOCK7_uc001dap.2_Nonsense_Mutation_p.R1295*|DOCK7_uc001dam.2_Nonsense_Mutation_p.R506*|DOCK7_uc010oov.1_Intron	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1326					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						AAAAGGCTTCGACTTGATTCT	0.408													47	109					0	0	1	0	0		A	62979530	A	A	62979530	4	1	89	1	0	0	0	0	0	1	0	0	4698	1066	37	1	2522	1	DOCK7	1	62979530	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	68651	62979530	186271091	203	54034											
DOCK7	85440	broad.mit.edu	37	chr1	63024812	63024812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaagttattttccatgattCgcatgtccccaattcggact	9	15	6	11	2	0	1	0	1	0	0	4	2	2	2	3	1	0	2	3	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:63024812C>T	uc001daq.2	-	20	2313	c.2279G>A	c.(2278-2280)CGA>CAA	p.R760Q	DOCK7_uc001dan.2_Missense_Mutation_p.R652Q|DOCK7_uc001dao.2_Missense_Mutation_p.R652Q|DOCK7_uc001dap.2_Missense_Mutation_p.R760Q	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	760	DHR-1.				activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						TTCCATGATTCGCATGTCCCC	0.393													10	41					0	0	1	0	0		T	63024812	T	T	63024812	3	4	89	1	0	0	0	0	1	0	0	0	4698	884	31	1	4170	1	DOCK7	1	63024812	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	45282	63024812	186225809	204	54035											
ATG4C	84938	broad.mit.edu	37	chr1	63269479	63269479	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggctacaggaacagatGaagttgacaagctaaaaacc	17	6	11	7	0	0	3	0	2	0	1	0	5	0	5	1	3	4	3	1	3	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:63269479G>T	uc001dat.2	+	2	184	c.22G>T	c.(22-24)GAA>TAA	p.E8*	ATG4C_uc001dau.2_Nonsense_Mutation_p.E8*	NM_178221	NP_835739	Q96DT6	ATG4C_HUMAN	APG4 autophagy 4 homolog C isoform 8	8					autophagic vacuole assembly|protein targeting to membrane|proteolysis	cytosol|extracellular region	cysteine-type endopeptidase activity			ovary(1)	1						AGGAACAGATGAAGTTGACAA	0.279													28	39					2.49675e-24	2.99771e-24	1	1	0		T	63269479	T	T	63269479	4	4	89	1	0	0	0	0	0	1	0	0	1099	1291	45	5	24	5	ATG4C	1	63269479	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	244667	63269479	185981142	205	54036											
ATG4C	84938	broad.mit.edu	37	chr1	63282366	63282366	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggctgacctacagggaagAattccctcaaatagaaggct	14	8	10	9	0	1	3	1	1	0	2	2	4	2	4	2	3	1	2	2	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:63282366A>C	uc001dat.2	+	4	443	c.281A>C	c.(280-282)GAA>GCA	p.E94A	ATG4C_uc001dau.2_Missense_Mutation_p.E94A	NM_178221	NP_835739	Q96DT6	ATG4C_HUMAN	APG4 autophagy 4 homolog C isoform 8	94					autophagic vacuole assembly|protein targeting to membrane|proteolysis	cytosol|extracellular region	cysteine-type endopeptidase activity			ovary(1)	1						TACAGGGAAGAATTCCCTCAA	0.448													22	51					0	0	1	0	0		C	63282366	C	C	63282366	3	2	89	1	0	0	0	0	1	0	0	0	1099	246	9	5	291	5	ATG4C	1	63282366	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	12887	63282366	185968255	206	54037											
ALG6	29929	broad.mit.edu	37	chr1	63872011	63872011	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taattgctgatctgctgattTacatacctgcagtggttttg	8	17	9	7	0	1	2	0	2	1	0	1	2	1	2	1	1	5	4	1	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:63872011T>C	uc010oow.1	+	6	675	c.370T>C	c.(370-372)TAC>CAC	p.Y124H	ALG6_uc001daz.2_RNA|ALG6_uc009waj.2_RNA	NM_013339	NP_037471	Q9Y672	ALG6_HUMAN	dolichyl pyrophosphate Man9GlcNAc2	124	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity				0						TCTGCTGATTTACATACCTGC	0.378													27	68					0	0	1	0	0		C	63872011	C	C	63872011	3	2	89	1	0	0	0	0	1	0	0	0	522	1754	61	3	388	3	ALG6	1	63872011	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	589645	63872011	185378610	207	54038											
CACHD1	57685	broad.mit.edu	37	chr1	65016280	65016280	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttttcattgcagcggAtattcaactcctttgtttac	7	20	5	9	1	3	0	2	0	1	0	4	1	4	1	1	1	4	2	1	1	3	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:65016280A>G	uc001dbo.1	+	2	154	c.49A>G	c.(49-51)ATA>GTA	p.I17V	CACHD1_uc001dbp.1_5'UTR	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	68	Extracellular (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						ATTGCAGCGGATATTCAACTC	0.338													17	29					0	0	1	0	0		G	65016280	G	G	65016280	3	3	89	1	0	0	0	0	1	0	0	0	2540	333	12	3	55	3	CACHD1	1	65016280	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1144269	65016280	184234341	208	54039											
AK3L1	205	broad.mit.edu	37	chr1	65691785	65691785	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caattttccggaacggagacGaacaaaatctggccctacgt	13	8	9	11	4	1	1	0	0	1	1	2	4	2	2	2	3	3	0	2	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:65691785G>A	uc001dby.2	+	6	844	c.597G>A	c.(595-597)ACG>ACA	p.T199T	AK3L1_uc009wan.2_Silent_p.T147T|AK3L1_uc001dbz.2_Silent_p.T199T|AK3L1_uc001dca.2_Silent_p.T199T	NM_203464	NP_982289	P27144	KAD4_HUMAN	adenylate kinase 3-like 1 isoform 7	199						mitochondrial matrix	adenylate kinase activity|ATP binding|GTP binding				0						GAACGGAGACGAACAAAATCT	0.443													10	24					0	0	1	0	0		A	65691785	A	A	65691785	2	1	89	1	0	0	0	0	0	0	0	1	442	1045	37	1		1	AK3L1	1	65691785	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	675505	65691785	183558836	209	54040											
DNAJC6	9829	broad.mit.edu	37	chr1	65878696	65878696	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaaaccaaggccaaaaGcccttatattaatttatgag	16	12	6	7	0	0	2	0	2	0	0	0	2	0	2	3	1	2	0	3	1	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:65878696G>A	uc001dcd.1	+	19	2894	c.2730G>A	c.(2728-2730)AAG>AAA	p.K910K	DNAJC6_uc010opc.1_Silent_p.K897K|DNAJC6_uc001dce.1_Silent_p.K967K	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	910	J.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						AAGGCCAAAAGCCCTTATATT	0.413													59	63					0	0	1	0	0		A	65878696	A	A	65878696	2	1	89	1	0	0	0	0	0	0	0	1	4659	962	34	2		2	DNAJC6	1	65878696	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	186911	65878696	183371925	210	54041											
LEPR	3953	broad.mit.edu	37	chr1	66081710	66081710	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgatgaaaaatgactCattgtgcagtgttcagagat	12	11	10	8	0	2	4	2	3	0	1	2	5	2	4	2	0	1	2	2	0	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:66081710C>A	uc001dci.2	+	15	2217	c.2015C>A	c.(2014-2016)TCA>TAA	p.S672*	LEPR_uc001dcg.2_Nonsense_Mutation_p.S672*|LEPR_uc001dch.2_Nonsense_Mutation_p.S672*|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Nonsense_Mutation_p.S672*|LEPR_uc001dck.2_Nonsense_Mutation_p.S672*	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	672	Extracellular (Potential).|Fibronectin type-III 3.				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		AAAAATGACTCATTGTGCAGT	0.383													26	55					1.2476e-16	1.43726e-16	1	1	0		A	66081710	A	A	66081710	4	1	89	1	0	0	0	0	0	1	0	0	8744	838	29	5	2065	5	LEPR	1	66081710	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	203014	66081710	183168911	211	54042											
LEPR	3953	broad.mit.edu	37	chr1	66081833	66081833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagcaagcacatactgttaCggttctggccatcaattcaa	13	10	8	10	1	3	1	2	0	1	1	3	1	3	1	1	2	4	4	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:66081833C>T	uc001dci.2	+	15	2340	c.2138C>T	c.(2137-2139)ACG>ATG	p.T713M	LEPR_uc001dcg.2_Missense_Mutation_p.T713M|LEPR_uc001dch.2_Missense_Mutation_p.T713M|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Missense_Mutation_p.T713M|LEPR_uc001dck.2_Missense_Mutation_p.T713M	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	713	Extracellular (Potential).|Fibronectin type-III 3.				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		CATACTGTTACGGTTCTGGCC	0.408													22	54					0	0	1	0	0		T	66081833	T	T	66081833	3	4	89	1	0	0	0	0	1	0	0	0	8744	536	19	1	2188	1	LEPR	1	66081833	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	123	66081833	183168788	212	54043											
LEPR	3953	broad.mit.edu	37	chr1	66101895	66101895	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaaacgtttgagcatcttTttatcaagcatacagcatca	14	12	6	9	1	3	2	2	1	1	1	3	2	3	2	0	0	5	4	0	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:66101895T>G	uc001dci.2	+	20	2897	c.2695T>G	c.(2695-2697)TTT>GTT	p.F899V	LEPR_uc009waq.2_Missense_Mutation_p.F172L	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	899	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		TGAGCATCTTTTTATCAAGCA	0.338													66	122					0	0	1	0	0		G	66101895	G	G	66101895	3	3	89	1	0	0	0	0	1	0	0	0	8744	1841	64	5	2995	5	LEPR	1	66101895	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	20062	66101895	183148726	213	54044											
TCTEX1D1	200132	broad.mit.edu	37	chr1	67243091	67243091	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttatgttttcagaaattCttctctcttcgctcttgcaa	8	19	4	10	1	6	1	1	0	5	1	8	1	6	1	0	0	1	3	0	0	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:67243091C>A	uc001dcv.2	+	5	625	c.494C>A	c.(493-495)TCT>TAT	p.S165Y	TCTEX1D1_uc009wau.2_RNA|TCTEX1D1_uc009wav.2_RNA	NM_152665	NP_689878	Q8N7M0	TC1D1_HUMAN	Tctex1 domain containing 1	165											0						TTCAGAAATTCTTCTCTCTTC	0.383													35	76					3.33393e-15	3.79275e-15	1	1	0		A	67243091	A	A	67243091	3	1	89	1	0	0	0	0	1	0	0	0	15744	913	32	5	508	5	TCTEX1D1	1	67243091	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1141196	67243091	182007530	214	54045											
WDR78	79819	broad.mit.edu	37	chr1	67292585	67292585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgattttggagaccaggcaaCgtcgtaaacaacagaagtag	15	8	11	7	2	0	3	0	1	0	2	1	4	0	3	1	2	3	3	1	2	6	4	rs139606017	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:67292585C>T	uc001dcx.2	-	15	2313	c.2257G>A	c.(2257-2259)GTT>ATT	p.V753I	WDR78_uc009waw.2_Missense_Mutation_p.V466I|WDR78_uc009wax.2_RNA	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	753	WD 5.									ovary(2)	2						GACCAGGCAACGTCGTAAACA	0.393													58	97					0	0	1	0	0		T	67292585	T	T	67292585	3	4	89	1	0	0	0	0	1	0	0	0	17354	536	19	1	301	1	WDR78	1	67292585	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	49494	67292585	181958036	215	54046											
WDR78	79819	broad.mit.edu	37	chr1	67358960	67358960	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattgtattctgataaaggCtataggaagatataaattct	15	16	7	3	0	2	2	0	1	2	1	2	3	2	3	0	2	0	2	0	2	10	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:67358960C>G	uc001dcx.2	-	3	538	c.482G>C	c.(481-483)AGC>ACC	p.S161T	WDR78_uc001dcy.2_Missense_Mutation_p.S161T|WDR78_uc001dcz.2_Missense_Mutation_p.S161T|WDR78_uc009wax.2_5'Flank	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	161										ovary(2)	2						CTGATAAAGGCTATAGGAAGA	0.343													45	74					0	0	1	0	0		G	67358960	G	G	67358960	3	3	89	1	0	0	0	0	1	0	0	0	17354	797	28	5	2181	5	WDR78	1	67358960	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	66375	67358960	181891661	216	54047											
C1orf141	400757	broad.mit.edu	37	chr1	67558934	67558934	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgttaggctagaaaaattCtgtgagaaattatagagtgt	14	15	10	2	0	1	3	0	1	1	3	1	4	1	3	0	1	0	2	0	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:67558934C>A	uc001ddl.1	-	7	1068	c.957G>T	c.(955-957)CAG>CAT	p.Q319H	C1orf141_uc001ddm.1_Missense_Mutation_p.Q319H|C1orf141_uc001ddn.1_RNA	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	319										ovary(1)	1						TAGAAAAATTCTGTGAGAAAT	0.333													32	83					7.11191e-15	8.05931e-15	1	1	0		A	67558934	A	A	67558934	3	1	89	1	0	0	0	0	1	0	0	0	2004	912	32	5	249	5	C1orf141	1	67558934	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	199974	67558934	181691687	217	54048											
C1orf141	400757	broad.mit.edu	37	chr1	67559156	67559156	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcacaatttctttctaaaatGaaatttgttcttttatgtgg	11	20	5	5	0	4	1	1	1	3	0	4	1	4	1	0	1	0	1	0	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:67559156G>A	uc001ddl.1	-	7	846	c.735C>T	c.(733-735)TTC>TTT	p.F245F	C1orf141_uc001ddm.1_Silent_p.F245F|C1orf141_uc001ddn.1_RNA	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	245										ovary(1)	1						TTTCTAAAATGAAATTTGTTC	0.289													13	24					0	0	1	0	0		A	67559156	A	A	67559156	2	1	89	1	0	0	0	0	0	0	0	1	2004	1281	45	4		4	C1orf141	1	67559156	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	222	67559156	181691465	218	54049											
C1orf141	400757	broad.mit.edu	37	chr1	67561067	67561067	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttctgaccgatttgttttCttttatattaaaatcgttca	10	21	4	6	2	3	1	1	1	2	0	4	2	3	1	1	0	0	2	1	0	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:67561067C>A	uc001ddl.1	-	6	565	c.454G>T	c.(454-456)GAA>TAA	p.E152*	C1orf141_uc001ddm.1_Nonsense_Mutation_p.E152*|C1orf141_uc001ddn.1_Intron	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	152										ovary(1)	1						GATTTGTTTTCTTTTATATTA	0.348													6	8					0.00116845	0.00118508	1	1	0		A	67561067	A	A	67561067	4	1	89	1	0	0	0	0	0	1	0	0	2004	922	32	5	756	5	C1orf141	1	67561067	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1911	67561067	181689554	219	54050											
IL23R	149233	broad.mit.edu	37	chr1	67635287	67635287	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtcccaaacattttcaagaGacactgatatgtggaaaaga	16	10	8	7	0	1	3	1	1	0	2	2	5	2	4	1	1	1	0	1	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:67635287G>A	uc001ddo.2	+	3	418	c.333G>A	c.(331-333)GAG>GAA	p.E111E	IL23R_uc009waz.2_5'UTR|IL23R_uc001ddp.2_RNA|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_5'UTR|IL23R_uc010opk.1_Silent_p.E68E|IL23R_uc010opl.1_5'UTR|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_5'UTR|IL23R_uc010opn.1_5'UTR|IL23R_uc001ddr.2_RNA	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	111	Extracellular (Potential).				inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						ATTTTCAAGAGACACTGATAT	0.373													35	69					0	0	1	0	0		A	67635287	A	A	67635287	2	1	89	1	0	0	0	0	0	0	0	1	7692	933	33	4		4	IL23R	1	67635287	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	74220	67635287	181615334	220	54051											
IL12RB2	3595	broad.mit.edu	37	chr1	67786106	67786106	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgtttataatcacgtggCtgttgattaaagcaaaaata	15	15	7	4	1	1	1	1	1	0	0	1	1	1	1	0	1	1	4	0	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:67786106C>T	uc001ddu.2	+	2	695	c.55C>T	c.(55-57)CTG>TTG	p.L19L	IL12RB2_uc010oqi.1_Silent_p.L19L|IL12RB2_uc010oqj.1_Silent_p.L19L|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Silent_p.L19L|IL12RB2_uc010oqm.1_Silent_p.L19L|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	19					positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						AATCACGTGGCTGTTGATTAA	0.343													36	50					0	0	1	0	0		T	67786106	T	T	67786106	2	4	89	1	0	0	0	0	0	0	0	1	7643	796	28	2		2	IL12RB2	1	67786106	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	150819	67786106	181464515	221	54052											
IL12RB2	3595	broad.mit.edu	37	chr1	67804371	67804371	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactacagtagacaacagatTtctcttttctggaaggtgag	12	12	10	7	0	2	3	0	1	2	2	3	5	2	4	0	2	2	1	0	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:67804371T>G	uc001ddu.2	+	8	1663	c.1023T>G	c.(1021-1023)ATT>ATG	p.I341M	IL12RB2_uc010oqi.1_Missense_Mutation_p.I341M|IL12RB2_uc010oqj.1_Missense_Mutation_p.I341M|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Missense_Mutation_p.I341M|IL12RB2_uc010oqm.1_Missense_Mutation_p.I341M|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	341	Fibronectin type-III 3.|Extracellular (Potential).				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						GACAACAGATTTCTCTTTTCT	0.358													21	50					0	0	1	0	0		G	67804371	G	G	67804371	3	3	89	1	0	0	0	0	1	0	0	0	7643	1829	64	5	1049	5	IL12RB2	1	67804371	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	18265	67804371	181446250	222	54053											
IL12RB2	3595	broad.mit.edu	37	chr1	67816583	67816583	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcagaggcaagaggaaaaAttctccactatcaggtgacc	14	8	9	10	0	3	3	2	1	2	2	5	4	3	4	2	3	0	1	2	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:67816583A>C	uc001ddu.2	+	9	1709	c.1069A>C	c.(1069-1071)ATT>CTT	p.I357L	IL12RB2_uc010oqi.1_Missense_Mutation_p.I357L|IL12RB2_uc010oqj.1_Missense_Mutation_p.I357L|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Missense_Mutation_p.I357L|IL12RB2_uc010oqm.1_Missense_Mutation_p.I357L|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	357	Fibronectin type-III 3.|Extracellular (Potential).				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						AAGAGGAAAAATTCTCCACTA	0.478													26	56					0	0	1	0	0		C	67816583	C	C	67816583	3	2	89	1	0	0	0	0	1	0	0	0	7643	101	4	5	1099	5	IL12RB2	1	67816583	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	12212	67816583	181434038	223	54054											
SERBP1	26135	broad.mit.edu	37	chr1	67880971	67880971	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagctgagacgttatatCatttgctggcttccggaaat	9	13	9	10	2	1	1	1	1	0	1	3	3	3	2	2	2	2	4	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:67880971C>A	uc001ddv.2	-	7	1188	c.1048G>T	c.(1048-1050)GAT>TAT	p.D350Y	SERBP1_uc001ddx.2_Missense_Mutation_p.D344Y|SERBP1_uc001ddy.2_Missense_Mutation_p.D329Y|SERBP1_uc001ddw.2_Missense_Mutation_p.D335Y	NM_001018067	NP_001018077	Q8NC51	PAIRB_HUMAN	SERPINE1 mRNA binding protein 1 isoform 1	350					regulation of mRNA stability	nucleus|perinuclear region of cytoplasm	mRNA 3'-UTR binding|protein binding			skin(1)	1						GACGTTATATCATTTGCTGGC	0.488													47	89					4.86159e-25	5.85421e-25	1	1	0		A	67880971	A	A	67880971	3	1	89	1	0	0	0	0	1	0	0	0	14100	826	29	5	186	5	SERBP1	1	67880971	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	64388	67880971	181369650	224	54055											
WLS	79971	broad.mit.edu	37	chr1	68659690	68659690	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctgcaggataaacagcatGaattggaaccaaggactcat	16	7	10	8	0	1	1	1	1	0	0	1	4	1	4	1	3	5	3	1	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:68659690G>A	uc001def.1	-	2	598	c.327C>T	c.(325-327)TTC>TTT	p.F109F	uc001deb.1_Intron|uc001dec.1_Intron|WLS_uc001dee.2_Silent_p.F107F|WLS_uc001deg.1_Intron|WLS_uc001deh.1_Silent_p.F109F|WLS_uc009wbf.1_Silent_p.F64F	NM_024911	NP_079187	Q5T9L3	WLS_HUMAN	G protein-coupled receptor 177 isoform 1	109	Lumenal (Potential).|Interacts with Wnt proteins (By similarity).				multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0						TAAACAGCATGAATTGGAACC	0.453													19	61					0	0	1	0	0		A	68659690	A	A	68659690	2	1	89	1	0	0	0	0	0	0	0	1	17402	1281	45	4		4	WLS	1	68659690	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	778719	68659690	180590931	225	54056											
LRRC7	57554	broad.mit.edu	37	chr1	70502292	70502292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaagatgcagtacataattCtttgtggggtaacaggtgtg	12	13	12	4	0	1	1	0	0	1	1	1	1	1	1	0	3	3	3	0	3	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:70502292C>T	uc001dep.2	+	18	2189	c.2159C>T	c.(2158-2160)TCT>TTT	p.S720F	LRRC7_uc009wbg.2_Intron|LRRC7_uc001deq.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	720						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GTACATAATTCTTTGTGGGGT	0.403													48	76					0	0	1	0	0		T	70502292	T	T	70502292	3	4	89	1	0	0	0	0	1	0	0	0	9038	913	32	4	2229	4	LRRC7	1	70502292	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1842602	70502292	178748329	226	54057											
LRRC7	57554	broad.mit.edu	37	chr1	70504011	70504011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtaatcctctcttaagttCgaaatctagaagcacatctt	13	13	5	10	1	3	1	0	0	3	1	6	2	4	1	1	0	1	3	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:70504011C>T	uc001dep.2	+	19	2420	c.2390C>T	c.(2389-2391)TCG>TTG	p.S797L	LRRC7_uc009wbg.2_Missense_Mutation_p.S81L|LRRC7_uc001deq.2_Missense_Mutation_p.S38L	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	797						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CTCTTAAGTTCGAAATCTAGA	0.488													57	87					0	0	1	0	0		T	70504011	T	T	70504011	3	4	89	1	0	0	0	0	1	0	0	0	9038	893	31	1	2464	1	LRRC7	1	70504011	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1719	70504011	178746610	227	54058											
ANKRD13C	81573	broad.mit.edu	37	chr1	70742520	70742520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggtgtaagagactgtcttCgaatcggctgccaaaaaaaa	15	8	11	7	2	1	1	0	0	1	1	3	4	1	1	1	2	1	2	1	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:70742520C>T	uc001dex.3	-	10	1549	c.1223G>A	c.(1222-1224)CGA>CAA	p.R408Q	ANKRD13C_uc009wbk.2_Missense_Mutation_p.R373Q	NM_030816	NP_110443	Q8N6S4	AN13C_HUMAN	ankyrin repeat domain 13C	408					protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0						AGACTGTCTTCGAATCGGCTG	0.313													16	25					0	0	1	0	0		T	70742520	T	T	70742520	3	4	89	1	0	0	0	0	1	0	0	0	643	884	31	1	418	1	ANKRD13C	1	70742520	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	238509	70742520	178508101	228	54059											
PTGER3	5733	broad.mit.edu	37	chr1	71513120	71513120	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggccacggacaccgatccGcaatcctcgccagaccctgg	10	4	10	17	4	0	1	0	0	0	1	3	3	2	2	6	3	0	1	6	3	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:71513120G>A	uc001dfg.1	-	1	372	c.141C>T	c.(139-141)TGC>TGT	p.C47C	PTGER3_uc001dfh.1_RNA|PTGER3_uc001dfi.1_RNA|PTGER3_uc001dfj.1_RNA|PTGER3_uc001dfk.1_Silent_p.C47C|PTGER3_uc001dfl.1_Silent_p.C47C|PTGER3_uc009wbm.1_Silent_p.C47C|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Silent_p.C47C|PTGER3_uc009wbn.1_Silent_p.C47C|PTGER3_uc009wbo.2_Silent_p.C47C|PTGER3_uc001dfo.2_Silent_p.C47C|PTGER3_uc001dfp.1_Silent_p.C47C|PTGER3_uc001dfq.2_Silent_p.C47C|uc001dfr.2_RNA	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	47	Extracellular (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	ACACCGATCCGCAATCCTCGC	0.692													4	13					0	0	1	0	0		A	71513120	A	A	71513120	2	1	89	1	0	0	0	0	0	0	0	1	12767	1079	38	1		1	PTGER3	1	71513120	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	770600	71513120	177737501	229	54060											
TNNI3K	51086	broad.mit.edu	37	chr1	74901807	74901807	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggcatgctgtggtggcaGattttggaggtgagataccc	8	11	16	6	0	0	2	0	1	0	2	0	4	0	3	1	5	2	3	1	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:74901807G>T	uc001dgf.1	+	18	1867	c.1816G>T	c.(1816-1818)GAT>TAT	p.D606Y	TNNI3K_uc001dgd.2_Missense_Mutation_p.D707Y|TNNI3K_uc001dge.1_Missense_Mutation_p.D707Y	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	606	Protein kinase.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						TGTGGTGGCAGATTTTGGAGG	0.368													29	77					4.3181e-19	5.06354e-19	1	1	0		T	74901807	T	T	74901807	3	4	89	1	0	0	0	0	1	0	0	0	16354	942	33	5	2241	5	TNNI3K	1	74901807	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3388687	74901807	174348814	230	54061											
C1orf173	127254	broad.mit.edu	37	chr1	75038351	75038351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcctttgcaaggcttccttCctcagggctgccctccgaaa	6	12	8	15	1	1	0	1	0	0	0	5	1	5	0	5	2	2	3	5	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:75038351C>T	uc001dgg.2	-	14	3262	c.3043G>A	c.(3043-3045)GAA>AAA	p.E1015K		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1015	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						AGGCTTCCTTCCTCAGGGCTG	0.512													46	103					0	0	1	0	0		T	75038351	T	T	75038351	3	4	89	1	0	0	0	0	1	0	0	0	2017	864	30	4	1553	4	C1orf173	1	75038351	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	136544	75038351	174212270	231	54062											
C1orf173	127254	broad.mit.edu	37	chr1	75039081	75039081	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctccattgcttctttCttctccagtgtatacgtttt	4	21	4	12	1	4	0	0	0	4	0	7	0	6	0	3	0	2	3	3	0	2	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:75039081C>A	uc001dgg.2	-	14	2532	c.2313G>T	c.(2311-2313)AAG>AAT	p.K771N		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	771	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TTGCTTCTTTCTTCTCCAGTG	0.468													36	81					9.45814e-24	1.13393e-23	1	1	0		A	75039081	A	A	75039081	3	1	89	1	0	0	0	0	1	0	0	0	2017	912	32	5	2283	5	C1orf173	1	75039081	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	730	75039081	174211540	232	54063											
C1orf173	127254	broad.mit.edu	37	chr1	75055504	75055504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaacattctcaaagctttCgtctattggcatcggcttgg	10	13	9	9	2	2	1	1	0	2	1	5	1	2	1	0	3	2	3	0	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:75055504C>T	uc001dgg.2	-	12	2206	c.1987G>A	c.(1987-1989)GAA>AAA	p.E663K	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.E457K	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	663	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TCAAAGCTTTCGTCTATTGGC	0.408													43	89					0	0	1	0	0		T	75055504	T	T	75055504	3	4	89	1	0	0	0	0	1	0	0	0	2017	893	31	1	2617	1	C1orf173	1	75055504	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	16423	75055504	174195117	233	54064											
C1orf173	127254	broad.mit.edu	37	chr1	75097446	75097446	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagtggttggacgaaatCttctccttctccatgtttca	8	14	9	10	1	4	0	1	0	3	0	6	3	4	1	2	2	1	3	2	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:75097446C>A	uc001dgg.2	-	7	989	c.770G>T	c.(769-771)AGA>ATA	p.R257I	C1orf173_uc001dgi.3_Missense_Mutation_p.R51I	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	257	Poly-Arg.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TGGACGAAATCTTCTCCTTCT	0.373													30	58					5.8336e-16	6.67442e-16	1	1	0		A	75097446	A	A	75097446	3	1	89	1	0	0	0	0	1	0	0	0	2017	913	32	5	3854	5	C1orf173	1	75097446	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	41942	75097446	174153175	234	54065											
C1orf173	127254	broad.mit.edu	37	chr1	75097470	75097470	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttctccatgtttcagatCtattttctcttgtgattttc	5	22	4	10	0	4	2	1	1	3	1	8	2	5	2	2	0	0	1	2	0	1	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:75097470C>A	uc001dgg.2	-	7	965	c.746G>T	c.(745-747)AGA>ATA	p.R249I	C1orf173_uc001dgi.3_Missense_Mutation_p.R43I	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	249										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TGTTTCAGATCTATTTTCTCT	0.378													26	55					1.1804e-14	1.33524e-14	1	1	0		A	75097470	A	A	75097470	3	1	89	1	0	0	0	0	1	0	0	0	2017	913	32	5	3878	5	C1orf173	1	75097470	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	24	75097470	174153151	235	54066											
TYW3	127253	broad.mit.edu	37	chr1	75229792	75229792	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaccatcttccctgaagatTactaagctttggttctgatg	9	16	7	9	0	2	3	0	2	2	1	3	3	3	3	2	1	3	2	2	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:75229792T>G	uc001dgn.2	+	6	864	c.775T>G	c.(775-777)TAC>GAC	p.Y259D	TYW3_uc010oqw.1_Missense_Mutation_p.Y226D|TYW3_uc010oqx.1_Missense_Mutation_p.Y175D|TYW3_uc010oqy.1_RNA	NM_138467	NP_612476	Q6IPR3	TYW3_HUMAN	tRNA-yW synthesizing protein 3 homolog isoform	259					tRNA processing		methyltransferase activity			ovary(2)	2						CCCTGAAGATTACTAAGCTTT	0.358													27	54					0	0	1	0	0		G	75229792	G	G	75229792	3	3	89	1	0	0	0	0	1	0	0	0	16846	1754	61	5	797	5	TYW3	1	75229792	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	132322	75229792	174020829	236	54067											
ACADM	34	broad.mit.edu	37	chr1	76199306	76199306	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgctattgaaggaaattCtttgggggtaagtgacttag	11	13	13	4	0	1	2	0	2	1	0	1	4	1	3	0	3	1	2	0	3	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:76199306C>A	uc001dgw.3	+	5	810	c.380C>A	c.(379-381)TCT>TAT	p.S127Y	ACADM_uc010orc.1_Intron|ACADM_uc010ord.1_Missense_Mutation_p.S41Y|ACADM_uc009wbp.2_Missense_Mutation_p.S131Y|ACADM_uc009wbr.2_Missense_Mutation_p.S160Y|ACADM_uc010ore.1_Missense_Mutation_p.S91Y|ACADM_uc010orf.1_Intron|ACADM_uc001dgx.3_Missense_Mutation_p.S41Y|ACADM_uc010org.1_Intron	NM_000016	NP_000007	P11310	ACADM_HUMAN	medium-chain acyl-CoA dehydrogenase isoform a	127					carnitine biosynthetic process|carnitine metabolic process, CoA-linked|fatty acid beta-oxidation using acyl-CoA dehydrogenase|medium-chain fatty acid catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|identical protein binding|medium-chain-acyl-CoA dehydrogenase activity			breast(2)|ovary(1)|skin(1)	4						GAAGGAAATTCTTTGGGGGTA	0.363													36	97					3.62531e-18	4.23176e-18	1	1	0		A	76199306	A	A	76199306	3	1	89	1	0	0	0	0	1	0	0	0	113	913	32	5	410	5	ACADM	1	76199306	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	969514	76199306	173051315	237	54068											
MSH4	4438	broad.mit.edu	37	chr1	76276403	76276403	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatcactaaacttaaaattTtatcacctttggaaataata	17	15	3	6	0	2	1	2	1	0	0	2	2	2	2	1	1	1	0	1	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:76276403T>G	uc001dhd.1	+	4	651	c.610T>G	c.(610-612)TTA>GTA	p.L204V		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	204					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						ACTTAAAATTTTATCACCTTT	0.289								MMR					15	35					0	0	1	0	0		G	76276403	G	G	76276403	3	3	89	1	0	0	0	0	1	0	0	0	9890	1838	64	5	624	5	MSH4	1	76276403	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	77097	76276403	172974218	238	54069											
ST6GALNAC3	256435	broad.mit.edu	37	chr1	76878054	76878054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacgtgaccacagagaagcGcatgagttactgtgatggag	13	8	13	7	2	0	4	0	3	0	1	0	6	0	5	1	1	3	2	1	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:76878054G>A	uc001dhh.2	+	3	738	c.575G>A	c.(574-576)CGC>CAC	p.R192H	ST6GALNAC3_uc001dhg.3_Missense_Mutation_p.R192H|ST6GALNAC3_uc010orh.1_Missense_Mutation_p.R127H	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	192	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						ACAGAGAAGCGCATGAGTTAC	0.403													22	53					0	0	1	0	0		A	76878054	A	A	76878054	3	1	89	1	0	0	0	0	1	0	0	0	15250	1087	38	1	585	1	ST6GALNAC3	1	76878054	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	601651	76878054	172372567	239	54070											
ZZZ3	26009	broad.mit.edu	37	chr1	78041751	78041751	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacttgatgtgtataacttActgatgcatcttcaacagca	13	13	6	9	0	2	2	1	2	1	0	2	2	2	2	0	0	6	3	0	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:78041751A>G	uc001dhq.2	-	12	2807	c.2331_splice	c.e12+1	p.S777_splice	ZZZ3_uc001dhr.2_Splice_Site_p.S283_splice|ZZZ3_uc001dhp.2_Splice_Site_p.S776_splice	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						TGTATAACTTACTGATGCATC	0.353													20	87					0	0	1	0	0		G	78041751	G	G	78041751	5	3	89	1	0	0	0	0	0	0	1	0	18281	405	14	3	394	3	ZZZ3	1	78041751	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1163697	78041751	171208870	240	54071											
ZZZ3	26009	broad.mit.edu	37	chr1	78098028	78098028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaagacttgtgtccagttCgttattggtgttttctttac	6	19	8	8	1	2	1	1	0	1	1	4	1	3	1	1	1	1	3	1	1	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:78098028C>T	uc001dhq.2	-	5	1488	c.1012G>A	c.(1012-1014)GAA>AAA	p.E338K	ZZZ3_uc001dhr.2_Intron|ZZZ3_uc009wbz.1_Missense_Mutation_p.E338K|ZZZ3_uc001dhp.2_Missense_Mutation_p.E338K	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	338					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						GTGTCCAGTTCGTTATTGGTG	0.443													56	107					0	0	1	0	0		T	78098028	T	T	78098028	3	4	89	1	0	0	0	0	1	0	0	0	18281	893	31	1	1743	1	ZZZ3	1	78098028	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	56277	78098028	171152593	241	54072											
USP33	23032	broad.mit.edu	37	chr1	78180466	78180466	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtgcctcttcgctgctcTtcctattaaggacaatgatt	7	17	7	10	1	2	1	0	1	2	0	4	2	3	2	2	1	2	2	2	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:78180466T>G	uc001dht.2	-	20	2488	c.2141A>C	c.(2140-2142)AAG>ACG	p.K714T	USP33_uc001dhs.2_Missense_Mutation_p.K435T|USP33_uc001dhu.2_Missense_Mutation_p.K683T|USP33_uc001dhv.2_Missense_Mutation_p.K519T|USP33_uc001dhw.2_Missense_Mutation_p.K706T	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	714					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						TTCGCTGCTCTTCCTATTAAG	0.328													28	59					0	0	1	0	0		G	78180466	G	G	78180466	3	3	89	1	0	0	0	0	1	0	0	0	17090	1609	56	5	723	5	USP33	1	78180466	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	82438	78180466	171070155	242	54073											
USP33	23032	broad.mit.edu	37	chr1	78195593	78195593	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacagttttaattccttgAaacagagtagtaggcacaac	14	13	7	7	0	0	2	0	1	0	1	1	2	1	2	1	1	3	4	1	1	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:78195593A>G	uc001dht.2	-	10	1109	c.762T>C	c.(760-762)TTT>TTC	p.F254F	USP33_uc001dhs.2_5'Flank|USP33_uc001dhu.2_Silent_p.F223F|USP33_uc001dhv.2_Silent_p.F59F|USP33_uc001dhw.2_Silent_p.F254F	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	254					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						TAATTCCTTGAAACAGAGTAG	0.274													33	73					0	0	1	0	0		G	78195593	G	G	78195593	2	3	89	1	0	0	0	0	0	0	0	1	17090	243	9	3		3	USP33	1	78195593	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	15127	78195593	171055028	243	54074											
FAM73A	374986	broad.mit.edu	37	chr1	78325057	78325057	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgccaaacttcactgtattCgacaggcttttcaggtattt	9	16	7	9	1	2	0	2	0	0	0	3	1	2	0	1	2	2	3	1	2	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:78325057C>T	uc001dhx.2	+	10	1206	c.1174C>T	c.(1174-1176)CGA>TGA	p.R392*	FAM73A_uc010ork.1_Nonsense_Mutation_p.R392*|FAM73A_uc010orl.1_Nonsense_Mutation_p.R354*|FAM73A_uc001dhy.1_3'UTR	NM_198549	NP_940951	Q8NAN2	FA73A_HUMAN	hypothetical protein LOC374986	392						integral to membrane				ovary(1)	1				Colorectal(170;0.226)		TCACTGTATTCGACAGGCTTT	0.408													20	62					0	0	1	0	0		T	78325057	T	T	78325057	4	4	89	1	0	0	0	0	0	1	0	0	5631	876	31	1	1212	1	FAM73A	1	78325057	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	129464	78325057	170925564	244	54075											
NEXN	91624	broad.mit.edu	37	chr1	78408391	78408391	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatatattgaaaggggagaAacttactgcctttacttacc	14	12	7	8	0	0	2	0	1	0	1	0	3	0	2	2	2	5	0	2	2	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:78408391A>C	uc001dic.3	+	13	2202	c.1905A>C	c.(1903-1905)GAA>GAC	p.E635D	NEXN_uc001dib.3_Missense_Mutation_p.E571D|NEXN_uc001did.1_Missense_Mutation_p.E545D|NEXN_uc001dif.1_Missense_Mutation_p.E527D|NEXN_uc001dig.3_Missense_Mutation_p.E276D	NM_144573	NP_653174	Q0ZGT2	NEXN_HUMAN	nexilin (F actin binding protein)	635	Ig-like.				regulation of cell migration|regulation of cytoskeleton organization	cytoskeleton|Z disc	actin filament binding|structural constituent of muscle			ovary(2)	2				Colorectal(170;0.114)		AAAGGGGAGAAACTTACTGCC	0.398													33	68					0	0	1	0	0		C	78408391	C	C	78408391	3	2	89	1	0	0	0	0	1	0	0	0	10374	11	1	5	1951	5	NEXN	1	78408391	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	83334	78408391	170842230	245	54076											
IFI44	10561	broad.mit.edu	37	chr1	79125147	79125147	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagtaaagatcaaaagaattCgaagggagttggtaaacgct	17	9	11	4	2	1	2	1	0	0	2	2	4	1	3	0	2	1	4	0	2	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:79125147C>T	uc001dip.3	+	6	1115	c.991C>T	c.(991-993)CGA>TGA	p.R331*	IFI44_uc010orr.1_Nonsense_Mutation_p.R331*|IFI44_uc010ors.1_Nonsense_Mutation_p.R48*	NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	331				R -> Q (in Ref. 1; BAA06043).	response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2						CAAAAGAATTCGAAGGGAGTT	0.398													17	32					0	0	1	0	0		T	79125147	T	T	79125147	4	4	89	1	0	0	0	0	0	1	0	0	7533	876	31	1	1009	1	IFI44	1	79125147	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	716756	79125147	170125474	246	54077											
ELTD1	64123	broad.mit.edu	37	chr1	79383340	79383340	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgattaggcatgctggTcctataaaactccaaataaa	17	10	7	7	0	0	2	0	1	0	1	2	2	2	2	2	2	2	2	2	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:79383340T>C	uc001diq.3	-	12	1884	c.1728A>G	c.(1726-1728)GGA>GGG	p.G576G		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	576	Helical; Name=5; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		GGCATGCTGGTCCTATAAAAC	0.289													7	24					0	0	1	0	0		C	79383340	C	C	79383340	2	2	89	1	0	0	0	0	0	0	0	1	5092	1654	58	3		3	ELTD1	1	79383340	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	258193	79383340	169867281	247	54078											
ELTD1	64123	broad.mit.edu	37	chr1	79392576	79392576	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaaaacagcttacctttcGatgacttaatgtaaatgtta	16	13	6	6	1	0	2	0	1	0	1	1	3	0	2	1	0	3	3	1	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:79392576G>A	uc001diq.3	-	8	1234	c.1078C>T	c.(1078-1080)CGA>TGA	p.R360*		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	360	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		CTTACCTTTCGATGACTTAAT	0.353													10	38					0	0	1	0	0		A	79392576	A	A	79392576	4	1	89	1	0	0	0	0	0	1	0	0	5092	1066	37	1	1026	1	ELTD1	1	79392576	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9236	79392576	169858045	248	54079											
ELTD1	64123	broad.mit.edu	37	chr1	79392761	79392761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactcttataatatacaaatGcaactgcaacattgcctatc	15	13	3	10	0	1	0	0	0	1	0	2	0	1	0	1	0	7	2	1	0	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:79392761G>A	uc001diq.3	-	8	1049	c.893C>T	c.(892-894)GCA>GTA	p.A298V		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	298	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		ATATACAAATGCAACTGCAAC	0.279													15	41					0	0	1	0	0		A	79392761	A	A	79392761	3	1	89	1	0	0	0	0	1	0	0	0	5092	1319	46	2	1211	2	ELTD1	1	79392761	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	185	79392761	169857860	249	54080											
LPHN2	23266	broad.mit.edu	37	chr1	82302724	82302724	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtttatcattgtaatcagcTtcttaccaaatacagaaggt	13	14	7	7	0	3	1	2	0	1	1	3	1	3	1	1	2	3	3	1	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:82302724T>G	uc001dit.3	+	3	236	c.55T>G	c.(55-57)TTC>GTC	p.F19V	LPHN2_uc001dis.2_Missense_Mutation_p.F19V|LPHN2_uc001diu.2_Missense_Mutation_p.F19V|LPHN2_uc001div.2_Missense_Mutation_p.F19V|LPHN2_uc009wcd.2_Missense_Mutation_p.F19V	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	19					neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		TGTAATCAGCTTCTTACCAAA	0.328													21	36					0	0	1	0	0		G	82302724	G	G	82302724	3	3	89	1	0	0	0	0	1	0	0	0	8934	1609	56	5	57	5	LPHN2	1	82302724	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2909963	82302724	166947897	250	54081											
LPHN2	23266	broad.mit.edu	37	chr1	82409063	82409063	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcgacctagcagttgatGaaaatggtttatgggtcatt	12	14	10	5	1	1	2	1	2	0	0	2	3	1	2	1	2	1	3	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:82409063G>T	uc001dit.3	+	6	989	c.808G>T	c.(808-810)GAA>TAA	p.E270*	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Nonsense_Mutation_p.E270*|LPHN2_uc001div.2_Nonsense_Mutation_p.E270*|LPHN2_uc009wcd.2_Nonsense_Mutation_p.E270*	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	270	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		AGCAGTTGATGAAAATGGTTT	0.418													50	76					2.01807e-28	2.45391e-28	1	1	0		T	82409063	T	T	82409063	4	4	89	1	0	0	0	0	0	1	0	0	8934	1291	45	5	822	5	LPHN2	1	82409063	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	106339	82409063	166841558	251	54082											
TTLL7	79739	broad.mit.edu	37	chr1	84386821	84386821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttctcgtgagatctgctttCgtacttgagcgagtctctct	5	16	9	11	3	4	2	0	2	4	1	7	4	4	2	0	0	3	2	0	0	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:84386821C>T	uc001djc.2	-	12	1709	c.1313G>A	c.(1312-1314)CGA>CAA	p.R438Q	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_RNA|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	438					cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		GATCTGCTTTCGTACTTGAGC	0.318													29	53					0	0	1	0	0		T	84386821	T	T	84386821	3	4	89	1	0	0	0	0	1	0	0	0	16758	884	31	1	1390	1	TTLL7	1	84386821	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1977758	84386821	164863800	252	54083											
TTLL7	79739	broad.mit.edu	37	chr1	84399362	84399362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacttcaaagcagacactttCgcttcctggaggttgaccag	10	10	10	11	1	1	2	1	1	0	1	3	4	2	3	2	2	1	3	2	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:84399362C>T	uc001djc.2	-	9	1372	c.976G>A	c.(976-978)GAA>AAA	p.E326K	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_RNA|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	326	TTL.				cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		CAGACACTTTCGCTTCCTGGA	0.423													29	98					0	0	1	0	0		T	84399362	T	T	84399362	3	4	89	1	0	0	0	0	1	0	0	0	16758	893	31	1	1739	1	TTLL7	1	84399362	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12541	84399362	164851259	253	54084											
SSX2IP	117178	broad.mit.edu	37	chr1	85124050	85124050	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaaattctccactgtttTctgatgctgtttgtaagctg	8	18	7	8	0	3	1	1	1	2	0	4	1	3	1	1	0	2	5	1	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:85124050T>G	uc001dkh.2	-	10	1304	c.1029A>C	c.(1027-1029)AGA>AGC	p.R343S	SSX2IP_uc001dkf.2_Missense_Mutation_p.R316S|SSX2IP_uc001dkg.2_RNA|SSX2IP_uc010orz.1_Missense_Mutation_p.R316S|SSX2IP_uc001dki.2_Missense_Mutation_p.R343S|SSX2IP_uc010osa.1_Missense_Mutation_p.R316S|SSX2IP_uc001dkj.2_Missense_Mutation_p.R343S|SSX2IP_uc009wci.2_Intron|SSX2IP_uc001dkk.1_Missense_Mutation_p.R339S	NM_014021	NP_054740	Q9Y2D8	ADIP_HUMAN	synovial sarcoma, X breakpoint 2 interacting	343					cell adhesion	nucleus|protein complex				ovary(2)	2				all cancers(265;0.0053)|Epithelial(280;0.0214)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		TCCACTGTTTTCTGATGCTGT	0.413													19	57					0	0	1	0	0		G	85124050	G	G	85124050	3	3	89	1	0	0	0	0	1	0	0	0	15229	1780	62	5	839	5	SSX2IP	1	85124050	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	724688	85124050	164126571	254	54085											
LPAR3	23566	broad.mit.edu	37	chr1	85279676	85279676	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagcagcagatcatcttCttcatggtgccatacatgtc	11	11	9	10	0	4	2	2	0	2	2	5	3	4	2	1	1	4	2	1	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:85279676C>A	uc001dkl.2	-	2	954	c.915G>T	c.(913-915)AAG>AAT	p.K305N	LPAR3_uc009wcj.1_Missense_Mutation_p.K305N	NM_012152	NP_036284	Q9UBY5	LPAR3_HUMAN	lysophosphatidic acid receptor 3	305	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane|intracellular membrane-bounded organelle				lung(3)|ovary(2)	5						AGATCATCTTCTTCATGGTGC	0.552													25	69					3.6726e-16	4.20841e-16	1	1	0		A	85279676	A	A	85279676	3	1	89	1	0	0	0	0	1	0	0	0	8924	912	32	5	150	5	LPAR3	1	85279676	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	155626	85279676	163970945	255	54086											
MCOLN2	255231	broad.mit.edu	37	chr1	85403733	85403733	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagcgtagaggttccaagAaaaatgctgcagagatcata	17	7	11	6	1	1	4	1	0	0	4	2	5	2	4	1	1	3	4	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:85403733A>C	uc001dkm.2	-	10	1384	c.1143T>G	c.(1141-1143)TTT>TTG	p.F381L	MCOLN2_uc001dkn.2_RNA	NM_153259	NP_694991	Q8IZK6	MCLN2_HUMAN	mucolipin 2	381	Helical; (Potential).					integral to membrane	ion channel activity			ovary(3)|upper_aerodigestive_tract(1)	4				all cancers(265;0.0111)|Epithelial(280;0.0263)|OV - Ovarian serous cystadenocarcinoma(397;0.217)		AGGTTCCAAGAAAAATGCTGC	0.408													17	59					0	0	1	0	0		C	85403733	C	C	85403733	3	2	89	1	0	0	0	0	1	0	0	0	9414	243	9	5	577	5	MCOLN2	1	85403733	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	124057	85403733	163846888	256	54087											
MCOLN2	255231	broad.mit.edu	37	chr1	85424296	85424296	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcttcatctgtaccagaAtatcctttcaaaaacaagtg	14	13	4	10	0	5	1	3	0	2	1	6	1	6	1	2	0	2	1	2	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:85424296A>C	uc001dkm.2	-	3	568	c.327T>G	c.(325-327)TAT>TAG	p.Y109*	MCOLN2_uc001dkn.2_RNA	NM_153259	NP_694991	Q8IZK6	MCLN2_HUMAN	mucolipin 2	109						integral to membrane	ion channel activity			ovary(3)|upper_aerodigestive_tract(1)	4				all cancers(265;0.0111)|Epithelial(280;0.0263)|OV - Ovarian serous cystadenocarcinoma(397;0.217)		CTGTACCAGAATATCCTTTCA	0.358													23	68					0	0	1	0	0		C	85424296	C	C	85424296	4	2	89	1	0	0	0	0	0	1	0	0	9414	108	4	5	1421	5	MCOLN2	1	85424296	Nonsense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	20563	85424296	163826325	257	54088											
MCOLN3	55283	broad.mit.edu	37	chr1	85499799	85499799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accagtttcaatttctggatCgatgtcaaaggtatcatttc	11	15	7	8	1	4	0	3	0	1	0	6	2	4	1	1	2	0	2	1	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:85499799C>T	uc001dkp.2	-	4	625	c.532G>A	c.(532-534)GAT>AAT	p.D178N	MCOLN3_uc001dkq.2_Missense_Mutation_p.D122N|MCOLN3_uc001dkr.2_Missense_Mutation_p.D178N|MCOLN3_uc001dks.3_Missense_Mutation_p.D23N	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	178						integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		ATTTCTGGATCGATGTCAAAG	0.348													36	64					0	0	1	0	0		T	85499799	T	T	85499799	3	4	89	1	0	0	0	0	1	0	0	0	9415	884	31	1	1169	1	MCOLN3	1	85499799	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	75503	85499799	163750822	258	54089											
MCOLN3	55283	broad.mit.edu	37	chr1	85511015	85511015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcttcatgagagctgcagCtactcacaactacctcagga	11	9	7	14	0	4	1	3	1	1	1	4	3	4	2	2	1	6	3	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:85511015C>T	uc001dkp.2	-	2	122	c.29G>A	c.(28-30)AGC>AAC	p.S10N	MCOLN3_uc001dkq.2_Missense_Mutation_p.S10N|MCOLN3_uc001dkr.2_Missense_Mutation_p.S10N|MCOLN3_uc001dks.3_5'UTR	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	10						integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		AGAGCTGCAGCTACTCACAAC	0.403													16	34					0	0	1	0	0		T	85511015	T	T	85511015	3	4	89	1	0	0	0	0	1	0	0	0	9415	797	28	2	1680	2	MCOLN3	1	85511015	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11216	85511015	163739606	259	54090											
WDR63	126820	broad.mit.edu	37	chr1	85583527	85583527	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgacttctgcacaaagttCtttgtgggaacagaggtaaa	13	11	11	6	0	2	2	0	1	2	1	2	4	2	3	0	2	2	3	0	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:85583527C>A	uc001dkt.2	+	17	2093	c.1902C>A	c.(1900-1902)TTC>TTA	p.F634L	WDR63_uc009wcl.2_Missense_Mutation_p.F595L	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	634										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		GCACAAAGTTCTTTGTGGGAA	0.338													43	95					8.00217e-19	9.36884e-19	1	1	0		A	85583527	A	A	85583527	3	1	89	1	0	0	0	0	1	0	0	0	17340	912	32	5	1964	5	WDR63	1	85583527	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	72512	85583527	163667094	260	54091											
BCL10	8915	broad.mit.edu	37	chr1	85736475	85736475	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctttttctacttgatgttcGacaagaaatttcttcagtgt	9	18	6	8	1	3	2	1	1	2	1	4	3	3	2	1	0	1	1	1	0	3	7	rs121918314		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:85736475G>A	uc001dkz.2	-	3	877	c.172C>T	c.(172-174)CGA>TGA	p.R58*		NM_003921	NP_003912	O95999	BCL10_HUMAN	B-cell CLL/lymphoma 10	58	CARD.		R -> G (in germ cell tumor).|R -> Q (in mesothelioma).		apoptosis|cellular response to mechanical stimulus|innate immune response|interleukin-6 biosynthetic process|lymphotoxin A biosynthetic process|negative regulation of mature B cell apoptosis|neural tube closure|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 biosynthetic process|positive regulation of mast cell cytokine production|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of protein ubiquitination|positive regulation of transcription, DNA-dependent|protein homooligomerization|response to molecule of bacterial origin|T cell receptor signaling pathway	CBM complex|cytosol|lysosome|membrane raft|nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protease binding|protein C-terminus binding|protein kinase B binding|protein self-association|transcription coactivator activity|ubiquitin binding|ubiquitin protein ligase binding			lung(2)	2				all cancers(265;0.0114)|Epithelial(280;0.0311)		CTTGATGTTCGACAAGAAATT	0.378			T	IGH@	MALT 								44	59					0	0	1	0	0		A	85736475	A	A	85736475	4	1	89	1	0	0	0	0	0	1	0	0	1363	1066	37	1	537	1	BCL10	1	85736475	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	152948	85736475	163514146	261	54092											
DDAH1	23576	broad.mit.edu	37	chr1	85817243	85817243	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgatttgtccttttggaaagGcccacaaaaaattctctgcc	11	13	7	10	0	1	1	0	1	1	0	3	2	2	2	3	2	1	0	3	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:85817243G>A	uc001dlb.2	-	3	584	c.423C>T	c.(421-423)GGC>GGT	p.G141G	DDAH1_uc001dlc.2_Silent_p.G38G|uc001dla.1_Intron|DDAH1_uc010osb.1_Silent_p.G41G|DDAH1_uc009wco.2_Silent_p.G38G	NM_012137	NP_036269	O94760	DDAH1_HUMAN	dimethylarginine dimethylaminohydrolase 1	141					arginine catabolic process|citrulline metabolic process|nitric oxide mediated signal transduction		dimethylargininase activity|metal ion binding				0				all cancers(265;0.0318)|Epithelial(280;0.0657)	L-Citrulline(DB00155)	TTTTGGAAAGGCCCACAAAAA	0.378													33	55					0	0	1	0	0		A	85817243	A	A	85817243	2	1	89	1	0	0	0	0	0	0	0	1	4324	1190	42	2		2	DDAH1	1	85817243	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	80768	85817243	163433378	262	54093											
CYR61	3491	broad.mit.edu	37	chr1	86047711	86047711	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgcacatgtattgatggCgccgtgggctgcattcctct	6	12	12	11	2	1	1	0	1	1	0	2	1	2	1	2	2	2	4	2	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:86047711C>T	uc001dle.2	+	3	602	c.378C>T	c.(376-378)GGC>GGT	p.G126G	CYR61_uc001dlg.2_5'UTR|CYR61_uc009wcp.1_5'Flank	NM_001554	NP_001545	O00622	CYR61_HUMAN	cysteine-rich, angiogenic inducer, 61 precursor	126	VWFC.				cell proliferation|chemotaxis|positive regulation of BMP signaling pathway|positive regulation of cell migration|positive regulation of osteoblast differentiation|positive regulation of osteoblast proliferation|positive regulation of protein kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell growth|regulation of ERK1 and ERK2 cascade|wound healing, spreading of cells	extracellular region	heparin binding|insulin-like growth factor binding			central_nervous_system(1)	1				all cancers(265;0.0216)|Epithelial(280;0.0441)		GTATTGATGGCGCCGTGGGCT	0.537											OREG0013583	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	107					0	0	1	0	0		T	86047711	T	T	86047711	2	4	89	1	0	0	0	0	0	0	0	1	4202	755	27	1		1	CYR61	1	86047711	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	230468	86047711	163202910	263	54094											
CLCA1	1179	broad.mit.edu	37	chr1	86947924	86947924	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggtacaaatgtagtaaaGaagtgtcagggaggcagctg	14	8	14	5	0	1	1	1	0	0	1	1	2	1	2	0	3	2	5	0	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:86947924G>T	uc001dlt.2	+	5	723	c.594G>T	c.(592-594)AAG>AAT	p.K198N	CLCA1_uc001dls.1_Missense_Mutation_p.K137N	NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	198					calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		ATGTAGTAAAGAAGTGTCAGG	0.403													14	37					4.93089e-13	5.49801e-13	1	1	0		T	86947924	T	T	86947924	3	4	89	1	0	0	0	0	1	0	0	0	3460	933	33	5	612	5	CLCA1	1	86947924	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	900213	86947924	162302697	264	54095											
CLCA1	1179	broad.mit.edu	37	chr1	86952219	86952219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatttagactggtaaccGcctcaatcgactgaatcaag	12	10	7	12	2	2	2	2	1	0	1	4	3	3	2	3	1	1	1	3	1	5	3	rs146483639		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:86952219G>A	uc001dlt.2	+	7	1094	c.965G>A	c.(964-966)CGC>CAC	p.R322H	CLCA1_uc001dls.1_Missense_Mutation_p.R261H	NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	322	VWFA.				calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		ACTGGTAACCGCCTCAATCGA	0.473													24	50					0	0	1	0	0		A	86952219	A	A	86952219	3	1	89	1	0	0	0	0	1	0	0	0	3460	1087	38	1	991	1	CLCA1	1	86952219	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4295	86952219	162298402	265	54096											
CLCA1	1179	broad.mit.edu	37	chr1	86952423	86952423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccatctgcagcgggcttcGatcggcatttactgtgagat	7	12	12	10	3	1	1	0	1	1	1	4	3	2	1	1	2	3	3	1	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:86952423G>A	uc001dlt.2	+	7	1298	c.1169G>A	c.(1168-1170)CGA>CAA	p.R390Q	CLCA1_uc001dls.1_Missense_Mutation_p.R329Q	NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	390	VWFA.				calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		AGCGGGCTTCGATCGGCATTT	0.438													28	71					0	0	1	0	0		A	86952423	A	A	86952423	3	1	89	1	0	0	0	0	1	0	0	0	3460	1058	37	1	1195	1	CLCA1	1	86952423	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	204	86952423	162298198	266	54097											
CLCA1	1179	broad.mit.edu	37	chr1	86956953	86956953	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaattgcattttaggaggtTtacagacatatgcttcagat	12	15	9	5	0	1	2	1	0	0	2	1	3	1	3	0	2	3	4	0	2	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:86956953T>G	uc001dlt.2	+	9	1492	c.1363T>G	c.(1363-1365)TTA>GTA	p.L455V	CLCA1_uc001dls.1_Missense_Mutation_p.L394V	NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	455	VWFA.				calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		TTTAGGAGGTTTACAGACATA	0.378													21	46					0	0	1	0	0		G	86956953	G	G	86956953	3	3	89	1	0	0	0	0	1	0	0	0	3460	1838	64	5	1397	5	CLCA1	1	86956953	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4530	86956953	162293668	267	54098											
CLCA1	1179	broad.mit.edu	37	chr1	86965337	86965337	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttcttttttctttttagCtcacaagtatatcattcgaa	9	21	3	8	1	5	0	2	0	3	0	6	1	5	0	0	0	1	2	0	0	5	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:86965337C>A	uc001dlt.2	+	14	2483	c.2354C>A	c.(2353-2355)GCT>GAT	p.A785D		NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	785					calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		TTCTTTTTAGCTCACAAGTAT	0.289													21	36					1.00905e-13	1.13002e-13	1	1	0		A	86965337	A	A	86965337	3	1	89	1	0	0	0	0	1	0	0	0	3460	811	28	5	2408	5	CLCA1	1	86965337	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8384	86965337	162285284	268	54099											
HS2ST1	9653	broad.mit.edu	37	chr1	87563550	87563550	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgtgtagcagaaggtggCtcagactgtgctccagagaa	12	8	14	7	0	1	3	1	0	0	3	2	5	2	3	1	2	2	4	1	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:87563550C>T	uc010osk.1	+	5	1003	c.618C>T	c.(616-618)GGC>GGT	p.G206G	HS2ST1_uc001dmc.3_Silent_p.G206G|LOC339524_uc001dme.1_Silent_p.G167G	NM_012262	NP_036394	Q7LGA3	HS2ST_HUMAN	heparan sulfate 2-O-sulfotransferase 1 isoform	206	Lumenal (Potential).					Golgi membrane|integral to membrane				central_nervous_system(1)	1		Lung NSC(277;0.153)		all cancers(265;0.00699)|Epithelial(280;0.0261)		CAGAAGGTGGCTCAGACTGTG	0.453													23	61					0	0	1	0	0		T	87563550	T	T	87563550	2	4	89	1	0	0	0	0	0	0	0	1	7378	784	28	2		2	HS2ST1	1	87563550	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	598213	87563550	161687071	269	54100											
PKN2	5586	broad.mit.edu	37	chr1	89236102	89236102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacaaaaatagaagtcatacGaatgcagattcttcaggcag	17	8	9	7	1	3	2	2	0	1	2	3	4	3	2	0	1	2	2	0	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:89236102G>A	uc001dmn.2	+	4	914	c.572G>A	c.(571-573)CGA>CAA	p.R191Q	PKN2_uc001dmm.1_Missense_Mutation_p.R191Q|PKN2_uc010osp.1_Missense_Mutation_p.R191Q|PKN2_uc010osq.1_Missense_Mutation_p.R34Q|PKN2_uc009wcv.2_Missense_Mutation_p.R191Q	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	191	REM 2.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		GAAGTCATACGAATGCAGATT	0.363													36	50					0	0	1	0	0		A	89236102	A	A	89236102	3	1	89	1	0	0	0	0	1	0	0	0	11999	1058	37	1	586	1	PKN2	1	89236102	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1672552	89236102	160014519	270	54101											
PKN2	5586	broad.mit.edu	37	chr1	89250336	89250336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caacaggtactttggaagttCgtcttatgggctgccaagat	10	12	11	8	1	1	1	0	0	1	1	2	2	1	2	1	3	3	3	1	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:89250336C>T	uc001dmn.2	+	7	1342	c.1000C>T	c.(1000-1002)CGT>TGT	p.R334C	PKN2_uc001dmm.1_Missense_Mutation_p.R334C|PKN2_uc010osp.1_Missense_Mutation_p.R334C|PKN2_uc010osq.1_Missense_Mutation_p.R177C|PKN2_uc009wcv.2_Missense_Mutation_p.R334C|PKN2_uc010osr.1_5'UTR	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	334	C2.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		TTTGGAAGTTCGTCTTATGGG	0.398													27	42					0	0	1	0	0		T	89250336	T	T	89250336	3	4	89	1	0	0	0	0	1	0	0	0	11999	884	31	1	1026	1	PKN2	1	89250336	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14234	89250336	160000285	271	54102											
PKN2	5586	broad.mit.edu	37	chr1	89294214	89294214	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtggcactcctgaatttCttgccccagaagtattaaca	10	14	7	10	0	1	2	0	1	1	1	2	2	2	2	3	1	2	2	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:89294214C>A	uc001dmn.2	+	19	2812	c.2470C>A	c.(2470-2472)CTT>ATT	p.L824I	PKN2_uc010osp.1_Missense_Mutation_p.L808I|PKN2_uc010osq.1_Missense_Mutation_p.L667I|PKN2_uc009wcv.2_Missense_Mutation_p.L776I|PKN2_uc010osr.1_Missense_Mutation_p.L489I	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	824	Protein kinase.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		TCCTGAATTTCTTGCCCCAGA	0.393													23	46					3.08376e-08	3.26638e-08	1	1	0		A	89294214	A	A	89294214	3	1	89	1	0	0	0	0	1	0	0	0	11999	913	32	5	2544	5	PKN2	1	89294214	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	43878	89294214	159956407	272	54103											
GBP5	115362	broad.mit.edu	37	chr1	89733110	89733110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaaggatactgcagtaggtCgatagcaccctgatcaattt	14	10	9	8	1	1	1	1	1	0	0	2	3	1	2	1	2	3	3	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:89733110C>T	uc001dnc.2	-	5	955	c.418G>A	c.(418-420)GAC>AAC	p.D140N	GBP5_uc001dnd.2_Missense_Mutation_p.D140N|GBP5_uc001dne.1_Missense_Mutation_p.D140N	NM_052942	NP_443174	Q96PP8	GBP5_HUMAN	guanylate-binding protein 5	140						plasma membrane	GTP binding|GTPase activity			ovary(1)	1				all cancers(265;0.00784)|Epithelial(280;0.0286)		TGCAGTAGGTCGATAGCACCC	0.448													19	40					0	0	1	0	0		T	89733110	T	T	89733110	3	4	89	1	0	0	0	0	1	0	0	0	6292	884	31	1	1374	1	GBP5	1	89733110	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	438896	89733110	159517511	273	54104											
LRRC8C	84230	broad.mit.edu	37	chr1	90179562	90179562	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctctctgcaccagtgttCtgtcaaaatccacagtgcgg	8	11	9	13	1	4	0	1	0	3	0	6	0	5	0	2	1	2	3	2	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:90179562C>A	uc001dnl.3	+	3	1675	c.1433C>A	c.(1432-1434)TCT>TAT	p.S478Y		NM_032270	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member	478	LRR 4.					endoplasmic reticulum membrane|integral to membrane				ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		CACCAGTGTTCTGTCAAAATC	0.458													38	70					2.05212e-20	2.42303e-20	1	1	0		A	90179562	A	A	90179562	3	1	89	1	0	0	0	0	1	0	0	0	9041	913	32	5	1439	5	LRRC8C	1	90179562	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	446452	90179562	159071059	274	54105											
ZNF326	284695	broad.mit.edu	37	chr1	90478702	90478702	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagcaaaaactgatcctaaaAatgaagaggaagaaaagcgg	21	5	10	5	1	0	4	0	2	0	2	1	5	1	5	1	2	3	1	1	2	10	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:90478702A>C	uc001dnq.2	+	7	971	c.832A>C	c.(832-834)AAT>CAT	p.N278H	ZNF326_uc009wda.1_Missense_Mutation_p.N189H|ZNF326_uc001dnr.2_Missense_Mutation_p.N72H	NM_182976	NP_892021	Q5BKZ1	ZN326_HUMAN	zinc finger protein 326 isoform 1	278					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	DNA binding			ovary(1)	1		all_lung(203;0.0116)|Lung NSC(277;0.0417)		all cancers(265;0.00728)|Epithelial(280;0.0265)		TGATCCTAAAAATGAAGAGGA	0.368													21	24					0	0	1	0	0		C	90478702	C	C	90478702	3	2	89	1	0	0	0	0	1	0	0	0	17871	14	1	5	862	5	ZNF326	1	90478702	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	299140	90478702	158771919	275	54106											
BARHL2	343472	broad.mit.edu	37	chr1	91178030	91178030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgctgctgtacatggcagCggcagccgccgccgccgtag	6	6	14	15	5	0	0	0	0	0	0	0	0	0	0	4	2	5	6	4	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:91178030C>T	uc001dns.2	-	3	1045	c.1003G>A	c.(1003-1005)GCT>ACT	p.A335T		NM_020063	NP_064447	Q9NY43	BARH2_HUMAN	BarH-like homeobox 2	335						nucleus	sequence-specific DNA binding			ovary(1)	1		all_lung(203;0.0263)|Lung SC(238;0.128)		all cancers(265;0.000897)|Epithelial(280;0.00516)|OV - Ovarian serous cystadenocarcinoma(397;0.211)		TACATGGCAGCGGCAGCCGCC	0.647													7	17					0	0	1	0	0		T	91178030	T	T	91178030	3	4	89	1	0	0	0	0	1	0	0	0	1315	768	27	1	164	1	BARHL2	1	91178030	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	699328	91178030	158072591	276	54107											
ZNF644	84146	broad.mit.edu	37	chr1	91404174	91404174	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaaaataaaagccatcgtTttggtcataactaagagtag	16	12	7	6	1	2	1	2	0	0	1	3	1	2	1	1	1	2	2	1	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:91404174T>G	uc001dnw.2	-	3	2879	c.2737A>C	c.(2737-2739)AAC>CAC	p.N913H	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.N913H	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	913					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		AAGCCATCGTTTTGGTCATAA	0.343													23	68					0	0	1	0	0		G	91404174	G	G	91404174	3	3	89	1	0	0	0	0	1	0	0	0	18085	1841	64	5	1262	5	ZNF644	1	91404174	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	226144	91404174	157846447	277	54108											
ZNF644	84146	broad.mit.edu	37	chr1	91404625	91404625	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgaactagcttcttctttTttgaaatgcacaggatatga	13	15	7	6	0	2	3	0	3	2	0	2	4	2	4	0	1	3	2	0	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:91404625T>G	uc001dnw.2	-	3	2428	c.2286A>C	c.(2284-2286)AAA>AAC	p.K762N	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.K762N	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	762					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		CTTCTTCTTTTTTGAAATGCA	0.328													43	91					0	0	1	0	0		G	91404625	G	G	91404625	3	3	89	1	0	0	0	0	1	0	0	0	18085	1838	64	5	1713	5	ZNF644	1	91404625	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	451	91404625	157845996	278	54109											
ZNF644	84146	broad.mit.edu	37	chr1	91405928	91405928	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttgtagctcttcatttTgttctagaaagtctacttct	7	19	6	9	0	5	1	1	0	4	1	5	1	5	1	0	0	3	4	0	0	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:91405928T>A	uc001dnw.2	-	3	1125	c.983A>T	c.(982-984)CAA>CTA	p.Q328L	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.Q328L	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	328					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		CTCTTCATTTTGTTCTAGAAA	0.358													31	76					0	0	1	0	0		A	91405928	A	A	91405928	3	1	89	1	0	0	0	0	1	0	0	0	18085	1812	63	5	3016	5	ZNF644	1	91405928	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1303	91405928	157844693	279	54110											
CDC7	8317	broad.mit.edu	37	chr1	91985809	91985809	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaattaggggatccagaGaaactatccaagctgctaaa	16	8	9	8	0	0	2	0	1	0	1	2	4	2	3	2	2	3	2	2	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:91985809G>T	uc001doe.2	+	11	1468	c.1303G>T	c.(1303-1305)GAA>TAA	p.E435*	CDC7_uc001dof.2_Nonsense_Mutation_p.E435*|CDC7_uc010osw.1_Nonsense_Mutation_p.E407*|CDC7_uc009wdc.2_Nonsense_Mutation_p.E435*|CDC7_uc009wdd.2_Intron	NM_003503	NP_003494	O00311	CDC7_HUMAN	cell division cycle 7	435	Protein kinase.				cell cycle checkpoint|cell division|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|positive regulation of cell proliferation|regulation of S phase	cytoplasm|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	5		all_lung(203;0.0165)|Lung NSC(277;0.0562)		all cancers(265;0.00108)|Epithelial(280;0.0184)|KIRC - Kidney renal clear cell carcinoma(1967;0.124)		GGGATCCAGAGAAACTATCCA	0.318													15	37					1.67942e-08	1.78672e-08	1	1	0		T	91985809	T	T	91985809	4	4	89	1	0	0	0	0	0	1	0	0	3087	943	33	5	1341	5	CDC7	1	91985809	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	579881	91985809	157264812	280	54111											
BRDT	676	broad.mit.edu	37	chr1	92442839	92442839	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaaagaaatgcttgcaaaGaaacatttttcatatgcatg	16	13	6	6	0	1	2	1	0	0	2	1	2	1	2	0	0	4	3	0	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:92442839G>T	uc001dok.3	+	6	1207	c.858G>T	c.(856-858)AAG>AAT	p.K286N	BRDT_uc001dol.3_Missense_Mutation_p.K286N|BRDT_uc010osz.1_Missense_Mutation_p.K290N|BRDT_uc009wdf.2_Missense_Mutation_p.K213N|BRDT_uc010ota.1_Missense_Mutation_p.K240N|BRDT_uc010otb.1_Missense_Mutation_p.K240N|BRDT_uc001dom.3_Missense_Mutation_p.K286N	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	286					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		TGCTTGCAAAGAAACATTTTT	0.353													38	78					3.62531e-18	4.23176e-18	1	1	0		T	92442839	T	T	92442839	3	4	89	1	0	0	0	0	1	0	0	0	1511	933	33	5	876	5	BRDT	1	92442839	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	457030	92442839	156807782	281	54112											
BRDT	676	broad.mit.edu	37	chr1	92469985	92469985	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttaggatataaagattaaGaatgcagattcatggaaaag	18	12	9	2	0	1	3	1	0	0	3	1	5	1	5	0	2	1	1	0	2	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:92469985G>A	uc001dok.3	+	17	2752	c.2403G>A	c.(2401-2403)AAG>AAA	p.K801K	BRDT_uc001dol.3_Silent_p.K801K|BRDT_uc010osz.1_Silent_p.K805K|BRDT_uc009wdf.2_Silent_p.K728K|BRDT_uc010ota.1_Silent_p.K755K|BRDT_uc010otb.1_Silent_p.K755K|BRDT_uc001dom.3_Silent_p.K801K	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	801					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		TAAAGATTAAGAATGCAGATT	0.333													35	74					0	0	1	0	0		A	92469985	A	A	92469985	2	1	89	1	0	0	0	0	0	0	0	1	1511	933	33	4		4	BRDT	1	92469985	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	27146	92469985	156780636	282	54113											
EPHX4	253152	broad.mit.edu	37	chr1	92515886	92515886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatttcagaatatattttacGacaccctgctcagctgttga	12	14	6	9	1	2	2	2	1	0	1	2	3	2	2	1	0	3	3	1	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:92515886G>A	uc001don.2	+	5	721	c.617G>A	c.(616-618)CGA>CAA	p.R206Q		NM_173567	NP_775838	Q8IUS5	EPHX4_HUMAN	abhydrolase domain containing 7	206						integral to membrane	hydrolase activity			central_nervous_system(1)	1						TATATTTTACGACACCCTGCT	0.318													25	63					0	0	1	0	0		A	92515886	A	A	92515886	3	1	89	1	0	0	0	0	1	0	0	0	5190	1058	37	1	635	1	EPHX4	1	92515886	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	45901	92515886	156734735	283	54114											
GLMN	11146	broad.mit.edu	37	chr1	92735291	92735291	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatcttacctttgcaaaaaGacttcaatgtgccccatatt	12	13	5	11	1	2	1	1	0	1	1	2	2	2	1	3	0	3	1	3	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:92735291G>T	uc001dor.2	-	9	1081	c.966C>A	c.(964-966)GTC>GTA	p.V322V	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Silent_p.V322V	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	322					muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		TTTGCAAAAAGACTTCAATGT	0.204									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				19	48					2.39187e-15	2.72483e-15	1	1	0		T	92735291	T	T	92735291	2	4	89	1	0	0	0	0	0	0	0	1	6463	929	33	5		5	GLMN	1	92735291	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	219405	92735291	156515330	284	54115											
RPAP2	79871	broad.mit.edu	37	chr1	92846313	92846313	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggcattcagaaacattCtcaggaaggtatggtgttta	11	14	10	6	0	3	1	2	0	2	1	4	2	3	2	0	4	1	3	0	4	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:92846313C>A	uc001dot.2	+	12	1830	c.1721C>A	c.(1720-1722)TCT>TAT	p.S574Y	RPAP2_uc009wdh.2_RNA	NM_024813	NP_079089	Q8IXW5	RPAP2_HUMAN	RNA polymerase II associated protein 2	574						integral to membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		all_lung(203;0.0565)|Lung NSC(277;0.152)|Glioma(108;0.222)		all cancers(265;0.00647)|GBM - Glioblastoma multiforme(16;0.0234)|Epithelial(280;0.115)		CAGAAACATTCTCAGGAAGGT	0.373													52	94					1.46357e-32	1.79619e-32	1	1	0		A	92846313	A	A	92846313	3	1	89	1	0	0	0	0	1	0	0	0	13567	913	32	5	1767	5	RPAP2	1	92846313	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	111022	92846313	156404308	285	54116											
EVI5	7813	broad.mit.edu	37	chr1	93073271	93073271	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctcttcgaagatggttaCtattgatctggttctaataa	10	16	8	7	1	3	2	0	1	3	1	4	3	3	2	0	2	2	3	0	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:93073271C>A	uc001dox.2	-	15	1803	c.1793G>T	c.(1792-1794)AGT>ATT	p.S598I	EVI5_uc010otf.1_Missense_Mutation_p.S609I|EVI5_uc001doy.1_RNA	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	598	Targeting to the centrosomes.|Potential.|Dimerization.|Interaction with AURKB and INCENP.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		AAGATGGTTACTATTGATCTG	0.323													6	24					3.59834e-05	3.69903e-05	1	1	0		A	93073271	A	A	93073271	3	1	89	1	0	0	0	0	1	0	0	0	5297	565	20	5	655	5	EVI5	1	93073271	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	226958	93073271	156177350	286	54117											
CCDC18	343099	broad.mit.edu	37	chr1	93672695	93672695	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaaataacaacggaaaaGaaaaattaaggatcatggca	24	5	8	4	1	1	2	1	0	0	2	1	4	1	4	0	3	2	1	0	3	10	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:93672695G>T	uc001dpq.2	+	9	1471	c.1303G>T	c.(1303-1305)GAA>TAA	p.E435*	CCDC18_uc009wdl.1_5'UTR	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	317	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		CAACGGAAAAGAAAAATTAAG	0.269													13	30					5.50884e-06	5.70595e-06	1	1	0		T	93672695	T	T	93672695	4	4	89	1	0	0	0	0	0	1	0	0	2797	943	33	5	1337	5	CCDC18	1	93672695	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	599424	93672695	155577926	287	54118											
CCDC18	343099	broad.mit.edu	37	chr1	93712497	93712497	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcagaattggaacttaaaGaatgtaacaaacaggtaaat	21	9	7	4	0	1	2	1	0	0	2	1	3	1	3	0	2	3	2	0	2	10	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:93712497G>T	uc001dpq.2	+	23	3706	c.3538G>T	c.(3538-3540)GAA>TAA	p.E1180*	CCDC18_uc009wdl.1_Nonsense_Mutation_p.E697*	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	1061	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		GGAACTTAAAGAATGTAACAA	0.264													20	42					4.96729e-08	5.24652e-08	1	1	0		T	93712497	T	T	93712497	4	4	89	1	0	0	0	0	0	1	0	0	2797	943	33	5	3628	5	CCDC18	1	93712497	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	39802	93712497	155538124	288	54119											
BCAR3	8412	broad.mit.edu	37	chr1	94107889	94107889	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacagttgggtccagaaGatgtggatccctgaaaagag	12	9	12	8	0	0	4	0	1	0	3	3	5	3	5	3	2	0	1	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:94107889G>T	uc001dpz.2	-	3	603	c.328C>A	c.(328-330)CTT>ATT	p.L110I	BCAR3_uc001dqa.2_Missense_Mutation_p.L110I|BCAR3_uc001dqb.2_Missense_Mutation_p.L110I	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	110					response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		GGGTCCAGAAGATGTGGATCC	0.393													30	74					9.78306e-22	1.16216e-21	1	1	0		T	94107889	T	T	94107889	3	4	89	1	0	0	0	0	1	0	0	0	1350	942	33	5	2189	5	BCAR3	1	94107889	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	395392	94107889	155142732	289	54120											
ABCA4	24	broad.mit.edu	37	chr1	94463453	94463453	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgtgactgagtactcctcGatgagcaggctgtccttgtg	6	13	13	9	1	0	3	0	3	0	0	3	4	2	3	2	1	2	3	2	1	1	2	rs1801626		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:94463453G>A	uc001dqh.2	-	48	6797	c.6693C>T	c.(6691-6693)ATC>ATT	p.I2231I		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	2231	Cytoplasmic.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		AGTACTCCTCGATGAGCAGGC	0.592													14	34					0	0	1	0	0		A	94463453	A	A	94463453	2	1	89	1	0	0	0	0	0	0	0	1	34	1048	37	1		1	ABCA4	1	94463453	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	355564	94463453	154787168	290	54121											
ABCA4	24	broad.mit.edu	37	chr1	94526167	94526167	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaaccaggtacaccaaaTcactgcattggagacaccct	14	6	8	13	0	1	1	1	0	0	1	1	3	1	2	3	3	3	2	3	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:94526167T>C	uc001dqh.2	-	14	2190	c.2086A>G	c.(2086-2088)ATT>GTT	p.I696V	ABCA4_uc010otn.1_Missense_Mutation_p.I696V	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	696					phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		GTACACCAAATCACTGCATTG	0.478													31	60					0	0	1	0	0		C	94526167	C	C	94526167	3	2	89	1	0	0	0	0	1	0	0	0	34	1435	50	3	4883	3	ABCA4	1	94526167	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	62714	94526167	154724454	291	54122											
ABCA4	24	broad.mit.edu	37	chr1	94528764	94528764	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggtccagggatacatgTcagggaataccactccggcc	10	7	12	12	1	1	0	1	0	0	0	3	2	3	2	4	4	3	1	4	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:94528764T>C	uc001dqh.2	-	12	1768	c.1664A>G	c.(1663-1665)GAC>GGC	p.D555G	ABCA4_uc010otn.1_Missense_Mutation_p.D555G	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	555	Extracellular.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		GGGATACATGTCAGGGAATAC	0.473													61	119					0	0	1	0	0		C	94528764	C	C	94528764	3	2	89	1	0	0	0	0	1	0	0	0	34	1667	58	3	5313	3	ABCA4	1	94528764	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2597	94528764	154721857	292	54123											
ARHGAP29	9411	broad.mit.edu	37	chr1	94640272	94640272	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatcttttgggatgctgatTcagcctcttggtctagaagc	7	15	10	9	0	4	2	1	1	3	1	4	3	4	3	1	2	3	1	1	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:94640272T>C	uc001dqj.3	-	23	3308	c.2939A>G	c.(2938-2940)GAA>GGA	p.E980G	ARHGAP29_uc009wdq.1_RNA	NM_004815	NP_004806	Q52LW3	RHG29_HUMAN	PTPL1-associated RhoGAP 1	980					Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|upper_aerodigestive_tract(1)|ovary(1)	11		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		GGATGCTGATTCAGCCTCTTG	0.393													39	110					0	0	1	0	0		C	94640272	C	C	94640272	3	2	89	1	0	0	0	0	1	0	0	0	878	1783	62	3	850	3	ARHGAP29	1	94640272	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	111508	94640272	154610349	293	54124											
ARHGAP29	9411	broad.mit.edu	37	chr1	94650597	94650597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaaattttccaaacactttCgatgacaaacaaggagacac	17	9	5	10	1	0	2	0	1	0	1	2	4	1	2	1	1	2	0	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:94650597C>T	uc001dqj.3	-	18	2309	c.1940G>A	c.(1939-1941)CGA>CAA	p.R647Q	ARHGAP29_uc009wdq.1_RNA|ARHGAP29_uc001dqk.2_Missense_Mutation_p.R213Q	NM_004815	NP_004806	Q52LW3	RHG29_HUMAN	PTPL1-associated RhoGAP 1	647	Phorbol-ester/DAG-type.				Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|upper_aerodigestive_tract(1)|ovary(1)	11		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		CAAACACTTTCGATGACAAAC	0.353													21	22					0	0	1	0	0		T	94650597	T	T	94650597	3	4	89	1	0	0	0	0	1	0	0	0	878	884	31	1	1869	1	ARHGAP29	1	94650597	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10325	94650597	154600024	294	54125											
ARHGAP29	9411	broad.mit.edu	37	chr1	94651015	94651015	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgacatcaatgttttcttAaatgttccaagggaattggg	11	16	9	5	0	2	1	1	1	1	0	3	2	3	2	1	2	0	2	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:94651015A>G	uc001dqj.3	-	17	2172	c.1803T>C	c.(1801-1803)TTT>TTC	p.F601F	ARHGAP29_uc009wdq.1_RNA|ARHGAP29_uc001dqk.2_Silent_p.F167F	NM_004815	NP_004806	Q52LW3	RHG29_HUMAN	PTPL1-associated RhoGAP 1	601					Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|upper_aerodigestive_tract(1)|ovary(1)	11		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		ATGTTTTCTTAAATGTTCCAA	0.343													31	41					0	0	1	0	0		G	94651015	G	G	94651015	2	3	89	1	0	0	0	0	0	0	0	1	878	359	13	3		3	ARHGAP29	1	94651015	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	418	94651015	154599606	295	54126											
DPYD	1806	broad.mit.edu	37	chr1	97548022	97548022	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgcagtgcttttcctattAcatcctaaaaatagccactg	12	13	5	11	0	0	0	0	0	0	0	2	0	2	0	3	0	4	2	3	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:97548022A>G	uc001drv.2	-	22	2908	c.2771T>C	c.(2770-2772)GTA>GCA	p.V924A		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	924					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	TTTTCCTATTACATCCTAAAA	0.333													41	105					0	0	1	0	0		G	97548022	G	G	97548022	3	3	89	1	0	0	0	0	1	0	0	0	4751	391	14	3	314	3	DPYD	1	97548022	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2897007	97548022	151702599	296	54127											
DPYD	1806	broad.mit.edu	37	chr1	97770839	97770839	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactcctccatatgtagttcGctttgcaatccccactgctg	7	13	6	15	1	0	0	0	0	0	0	4	0	3	0	4	0	2	5	4	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:97770839G>A	uc001drv.2	-	18	2412	c.2275C>T	c.(2275-2277)CGA>TGA	p.R759*		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	759					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	TATGTAGTTCGCTTTGCAATC	0.483													34	82					0	0	1	0	0		A	97770839	A	A	97770839	4	1	89	1	0	0	0	0	0	1	0	0	4751	1095	38	1	826	1	DPYD	1	97770839	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	222817	97770839	151479782	297	54128											
DPYD	1806	broad.mit.edu	37	chr1	97839170	97839170	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgccatgtggacatgataAatttaactccagggcatctg	12	11	9	9	0	1	1	0	1	1	0	2	2	2	2	2	2	2	1	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:97839170A>C	uc001drv.2	-	16	2142	c.2005T>G	c.(2005-2007)TTA>GTA	p.L669V		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	669	Uracil binding (Potential).				'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	GGACATGATAAATTTAACTCC	0.433													20	58					0	0	1	0	0		C	97839170	C	C	97839170	3	2	89	1	0	0	0	0	1	0	0	0	4751	11	1	5	1104	5	DPYD	1	97839170	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	68331	97839170	151411451	298	54129											
LPPR4	9890	broad.mit.edu	37	chr1	99772241	99772241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagcccctgaaaagggcaGccttcgccaaacttacgagc	13	5	10	13	2	0	1	0	1	0	0	1	3	0	1	4	1	5	1	4	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:99772241G>A	uc001dse.2	+	7	2073	c.1967G>A	c.(1966-1968)AGC>AAC	p.S656N	LPPR4_uc010oue.1_Missense_Mutation_p.S598N	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	656							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		GAAAAGGGCAGCCTTCGCCAA	0.527													11	41					0	0	1	0	0		A	99772241	A	A	99772241	3	1	89	1	0	0	0	0	1	0	0	0	8945	971	34	2	1993	2	LPPR4	1	99772241	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1933071	99772241	149478380	299	54130											
AGL	178	broad.mit.edu	37	chr1	100380956	100380956	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attcactaggcccctgagctCtttactacagaaaaagcatg	13	10	7	11	0	2	2	1	1	1	1	2	2	2	2	2	1	4	2	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:100380956C>T	uc001dsi.1	+	31	4573	c.4173C>T	c.(4171-4173)CTC>CTT	p.L1391L	AGL_uc001dsj.1_Silent_p.L1391L|AGL_uc001dsk.1_Silent_p.L1391L|AGL_uc001dsl.1_Silent_p.L1391L|AGL_uc001dsm.1_Silent_p.L1375L|AGL_uc001dsn.1_Silent_p.L1374L	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	1391	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		CCCCTGAGCTCTTTACTACAG	0.353													41	71					0	0	1	0	0		T	100380956	T	T	100380956	2	4	89	1	0	0	0	0	0	0	0	1	384	900	32	4		4	AGL	1	100380956	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	608715	100380956	148869665	300	54131											
HIAT1	64645	broad.mit.edu	37	chr1	100533605	100533605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atcttggacgagtatatgggGacagcttggtggtggtctta	8	13	15	5	1	2	0	0	0	2	0	2	3	2	2	0	6	1	2	0	6	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:100533605G>A	uc001dst.2	+	6	559	c.559G>A	c.(559-561)GAC>AAC	p.D187N		NM_033055	NP_149044	Q96MC6	HIAT1_HUMAN	hippocampus abundant transcript 1	187	Cytoplasmic (Potential).				transmembrane transport	integral to membrane|plasma membrane	transporter activity				0		all_epithelial(167;2.96e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0832)|all cancers(265;0.136)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.195)		AGTATATGGGGACAGCTTGGT	0.443													35	72					0	0	1	0	0		A	100533605	A	A	100533605	3	1	89	1	0	0	0	0	1	0	0	0	7113	1174	41	4	581	4	HIAT1	1	100533605	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	152649	100533605	148717016	301	54132											
SASS6	163786	broad.mit.edu	37	chr1	100587965	100587965	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttggcatgttcttgagtAcattgctgaaggagatctat	9	16	10	6	0	3	3	0	2	3	1	3	4	3	3	0	2	2	4	0	2	3	6	rs113803226		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:100587965A>G	uc001dsu.2	-	4	423	c.282T>C	c.(280-282)TGT>TGC	p.C94C	SASS6_uc009wdz.2_5'UTR	NM_194292	NP_919268	Q6UVJ0	SAS6_HUMAN	spindle assembly abnormal protein 6	94					centriole replication	centriole				upper_aerodigestive_tract(1)|ovary(1)	2		all_epithelial(167;4.58e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.085)|all cancers(265;0.139)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.197)		GTTCTTGAGTACATTGCTGAA	0.328													20	41					0	0	1	0	0		G	100587965	G	G	100587965	2	3	89	1	0	0	0	0	0	0	0	1	13875	389	14	3		3	SASS6	1	100587965	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	54360	100587965	148662656	302	54133											
VCAM1	7412	broad.mit.edu	37	chr1	101198116	101198116	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctaacggggagctacaGcctctttctgagaatgcaac	10	9	9	13	1	2	1	0	1	2	1	3	3	3	2	2	2	6	2	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:101198116G>A	uc001dti.2	+	7	1788	c.1668G>A	c.(1666-1668)CAG>CAA	p.Q556Q	VCAM1_uc001dtj.2_Silent_p.Q464Q|VCAM1_uc010ouj.1_Silent_p.Q494Q	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	556	Ig-like C2-type 6.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	GGGAGCTACAGCCTCTTTCTG	0.468													36	40					0	0	1	0	0		A	101198116	A	A	101198116	2	1	89	1	0	0	0	0	0	0	0	1	17163	962	34	2		2	VCAM1	1	101198116	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	610151	101198116	148052505	303	54134											
VCAM1	7412	broad.mit.edu	37	chr1	101203687	101203687	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttattttccaggaagagaaAacaacaaagactatttttct	16	13	6	6	0	1	2	0	0	1	2	2	4	2	3	1	1	2	1	1	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:101203687A>C	uc001dti.2	+	9	2188	c.2068A>C	c.(2068-2070)AAC>CAC	p.N690H	VCAM1_uc001dtj.2_Missense_Mutation_p.N598H|VCAM1_uc010ouj.1_Missense_Mutation_p.N628H	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	690	Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	AGGAAGAGAAAACAACAAAGA	0.313													92	126					0	0	1	0	0		C	101203687	C	C	101203687	3	2	89	1	0	0	0	0	1	0	0	0	17163	14	1	5	2102	5	VCAM1	1	101203687	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	5571	101203687	148046934	304	54135											
SLC30A7	148867	broad.mit.edu	37	chr1	101361884	101361884	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcaatttgttcggcaagatCtcgggctggtttaggtgcgg	6	14	14	7	3	2	1	1	0	1	1	4	1	2	1	0	5	1	4	0	5	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:101361884C>T	uc001dtn.2	+	1	253	c.66C>T	c.(64-66)ATC>ATT	p.I22I	EXTL2_uc001dtk.1_5'Flank|EXTL2_uc001dtl.1_5'Flank|EXTL2_uc010ouk.1_5'Flank|EXTL2_uc001dtm.1_5'Flank|SLC30A7_uc001dto.2_Silent_p.I22I	NM_001144884	NP_001138356	Q8NEW0	ZNT7_HUMAN	zinc transporter like 2	22	Cytoplasmic (Potential).				zinc ion transport	Golgi apparatus|integral to membrane	cation transmembrane transporter activity|protein binding				0		all_epithelial(167;0.000445)|all_lung(203;0.00645)|Lung NSC(277;0.0119)		Epithelial(280;0.0437)|all cancers(265;0.0498)|COAD - Colon adenocarcinoma(174;0.162)|Colorectal(144;0.19)|Lung(183;0.201)		TCGGCAAGATCTCGGGCTGGT	0.597													20	34					0	0	1	0	0		T	101361884	T	T	101361884	2	4	89	1	0	0	0	0	0	0	0	1	14585	903	32	4		4	SLC30A7	1	101361884	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	158197	101361884	147888737	305	54136											
SLC30A7	148867	broad.mit.edu	37	chr1	101362221	101362221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actactctacggcatctggaGcaactggtaaccaaagggga	13	7	11	10	1	2	0	0	0	2	0	2	2	2	2	1	5	5	3	1	5	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:101362221G>A	uc001dtn.2	+	2	363	c.176G>A	c.(175-177)AGC>AAC	p.S59N	EXTL2_uc001dtk.1_5'Flank|EXTL2_uc001dtl.1_5'Flank|EXTL2_uc010ouk.1_5'Flank|EXTL2_uc001dtm.1_5'Flank|SLC30A7_uc001dto.2_Missense_Mutation_p.S59N	NM_001144884	NP_001138356	Q8NEW0	ZNT7_HUMAN	zinc transporter like 2	59	Extracellular (Potential).				zinc ion transport	Golgi apparatus|integral to membrane	cation transmembrane transporter activity|protein binding				0		all_epithelial(167;0.000445)|all_lung(203;0.00645)|Lung NSC(277;0.0119)		Epithelial(280;0.0437)|all cancers(265;0.0498)|COAD - Colon adenocarcinoma(174;0.162)|Colorectal(144;0.19)|Lung(183;0.201)		GGCATCTGGAGCAACTGGTAA	0.512													13	20					0	0	1	0	0		A	101362221	A	A	101362221	3	1	89	1	0	0	0	0	1	0	0	0	14585	971	34	2	182	2	SLC30A7	1	101362221	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	337	101362221	147888400	306	54137											
COL11A1	1301	broad.mit.edu	37	chr1	103345388	103345388	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgacagtggtaggtgaaatTttgccgagcagaggcagtca	12	9	14	6	1	1	3	1	2	0	1	1	4	1	3	1	3	2	3	1	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:103345388T>G	uc001dul.2	-	66	5443	c.5125A>C	c.(5125-5127)AAT>CAT	p.N1709H	COL11A1_uc001duk.2_Missense_Mutation_p.N905H|COL11A1_uc001dum.2_Missense_Mutation_p.N1721H|COL11A1_uc001dun.2_Missense_Mutation_p.N1670H|COL11A1_uc009weh.2_Missense_Mutation_p.N1593H	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1709	Fibrillar collagen NC1.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TAGGTGAAATTTTGCCGAGCA	0.418													26	64					0	0	1	0	0		G	103345388	G	G	103345388	3	3	89	1	0	0	0	0	1	0	0	0	3670	1841	64	5	303	5	COL11A1	1	103345388	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1983167	103345388	145905233	307	54138											
COL11A1	1301	broad.mit.edu	37	chr1	103355106	103355106	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaccaatcaggccaattaAaccaggatgtccctttgaaa	15	8	8	10	0	1	1	1	1	0	0	2	3	2	3	4	3	1	0	4	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:103355106A>C	uc001dul.2	-	59	4687	c.4369T>G	c.(4369-4371)TTA>GTA	p.L1457V	COL11A1_uc001duk.2_Missense_Mutation_p.L653V|COL11A1_uc001dum.2_Missense_Mutation_p.L1469V|COL11A1_uc001dun.2_Missense_Mutation_p.L1418V|COL11A1_uc009weh.2_Missense_Mutation_p.L1341V	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1457	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		AGGCCAATTAAACCAGGATGT	0.398													30	62					0	0	1	0	0		C	103355106	C	C	103355106	3	2	89	1	0	0	0	0	1	0	0	0	3670	11	1	5	1087	5	COL11A1	1	103355106	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	9718	103355106	145895515	308	54139											
COL11A1	1301	broad.mit.edu	37	chr1	103412431	103412431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctttctctccagctggacCaggaggaccctgaggtcccg	7	8	11	15	1	1	1	0	1	1	0	4	4	3	4	5	4	1	1	5	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:103412431C>T	uc001dul.2	-	42	3568	c.3250G>A	c.(3250-3252)GGT>AGT	p.G1084S	COL11A1_uc001duk.2_Missense_Mutation_p.G280S|COL11A1_uc001dum.2_Missense_Mutation_p.G1096S|COL11A1_uc001dun.2_Missense_Mutation_p.G1045S|COL11A1_uc009weh.2_Missense_Mutation_p.G968S	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1084	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCAGCTGGACCAGGAGGACCC	0.468													6	36					0	0	1	0	0		T	103412431	T	T	103412431	3	4	89	1	0	0	0	0	1	0	0	0	3670	594	21	4	2274	4	COL11A1	1	103412431	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	57325	103412431	145838190	309	54140											
NTNG1	22854	broad.mit.edu	37	chr1	107867344	107867344	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgaaatcaaagacaggttCgcgttttttgctggacctcg	9	14	10	8	3	1	2	1	1	0	1	3	3	1	3	1	2	1	3	1	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:107867344C>T	uc001dvh.3	+	3	1405	c.687C>T	c.(685-687)TTC>TTT	p.F229F	NTNG1_uc001dvf.3_Silent_p.F229F|NTNG1_uc010out.1_Silent_p.F229F|NTNG1_uc001dvc.3_Silent_p.F229F|NTNG1_uc001dvd.1_Silent_p.F229F	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	229	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		AAGACAGGTTCGCGTTTTTTG	0.418													21	48					0	0	1	0	0		T	107867344	T	T	107867344	2	4	89	1	0	0	0	0	0	0	0	1	10723	883	31	1		1	NTNG1	1	107867344	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4454913	107867344	141383277	310	54141											
VAV3	10451	broad.mit.edu	37	chr1	108298072	108298072	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attctctatagatagctgaaActgtttaatttcacgaaggg	13	14	8	6	1	2	2	1	1	1	1	3	3	2	2	0	1	2	2	0	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:108298072A>C	uc001dvk.1	-	12	1204	c.1150T>G	c.(1150-1152)TTT>GTT	p.F384V	VAV3_uc010ouw.1_Missense_Mutation_p.F384V|VAV3_uc001dvl.1_Missense_Mutation_p.F208V|VAV3_uc010oux.1_Missense_Mutation_p.F384V	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	384					angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		GATAGCTGAAACTGTTTAATT	0.378													7	16					0	0	1	0	0		C	108298072	C	C	108298072	3	2	89	1	0	0	0	0	1	0	0	0	17159	43	2	5	1482	5	VAV3	1	108298072	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	430728	108298072	140952549	311	54142											
SLC25A24	29957	broad.mit.edu	37	chr1	108728461	108728461	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagacacaccatcattatttTtgtctaaactcttaaatgcc	14	14	3	10	0	3	1	1	0	2	1	3	1	3	1	2	0	2	0	2	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:108728461T>G	uc001dvn.3	-	2	513	c.299A>C	c.(298-300)AAA>ACA	p.K100T	SLC25A24_uc001dvm.2_Missense_Mutation_p.K81T	NM_013386	NP_037518	Q6NUK1	SCMC1_HUMAN	solute carrier family 25 member 24 isoform 1	100	EF-hand 3.|3 (Potential).|Mitochondrial intermembrane (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)	1		all_epithelial(167;3.72e-05)|all_lung(203;0.000567)|Lung NSC(277;0.0011)|Melanoma(281;0.211)		Colorectal(144;0.0345)|Lung(183;0.0971)|COAD - Colon adenocarcinoma(174;0.127)|Epithelial(280;0.134)		ATCATTATTTTTGTCTAAACT	0.323													4	19					0	0	1	0	0		G	108728461	G	G	108728461	3	3	89	1	0	0	0	0	1	0	0	0	14512	1841	64	5	1170	5	SLC25A24	1	108728461	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	430389	108728461	140522160	312	54143											
C1orf59	113802	broad.mit.edu	37	chr1	109191357	109191357	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgcagaggtacgaaaaatTtatctccaacacagaagggt	15	9	9	8	1	2	2	0	0	2	2	3	3	2	2	1	2	3	2	1	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:109191357T>G	uc001dvt.3	-	8	1251	c.1013A>C	c.(1012-1014)AAA>ACA	p.K338T	C1orf59_uc001dvu.3_Missense_Mutation_p.K338T|C1orf59_uc009wer.2_3'UTR	NM_001102592	NP_001096062	Q5T8I9	HENMT_HUMAN	hypothetical protein LOC113802	338					gene silencing by RNA|piRNA metabolic process	P granule	metal ion binding|O-methyltransferase activity|RNA binding|RNA methyltransferase activity				0		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0152)|Lung(183;0.0895)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.163)		TACGAAAAATTTATCTCCAAC	0.478													31	49					0	0	1	0	0		G	109191357	G	G	109191357	3	3	89	1	0	0	0	0	1	0	0	0	2054	1841	64	5	172	5	C1orf59	1	109191357	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	462896	109191357	140059264	313	54144											
FNDC7	163479	broad.mit.edu	37	chr1	109270512	109270512	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctcctgtccgtggtgcCgaactgtatgaaaccaaggc	8	10	12	11	2	1	1	0	1	1	0	3	2	2	1	4	3	3	1	4	3	4	1	rs142260451	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:109270512C>T	uc001dvx.2	+	7	1194	c.1194C>T	c.(1192-1194)GCC>GCT	p.A398A	FNDC7_uc010ova.1_Silent_p.A165A	NM_001144937	NP_001138409	Q5VTL7	FNDC7_HUMAN	fibronectin type III domain containing 7	399	Fibronectin type-III 5.					extracellular region				ovary(1)|skin(1)	2		all_lung(203;0.00439)|Lung NSC(277;0.00683)|all_epithelial(167;0.00728)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.173)|all cancers(265;0.244)		TCCGTGGTGCCGAACTGTATG	0.517													38	85					0	0	1	0	0		T	109270512	T	T	109270512	2	4	89	1	0	0	0	0	0	0	0	1	5987	639	23	1		1	FNDC7	1	109270512	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	79155	109270512	139980109	314	54145											
AKNAD1	254268	broad.mit.edu	37	chr1	109373197	109373197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaccattcaaggagcctgcGacagaaggcacagctcggac	12	5	11	13	2	2	1	2	0	0	1	3	4	2	3	2	3	3	2	2	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:109373197G>A	uc001dwa.2	-	10	2091	c.1822C>T	c.(1822-1824)CGC>TGC	p.R608C	AKNAD1_uc010ovb.1_Missense_Mutation_p.R315C|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	608										ovary(3)	3						AGGAGCCTGCGACAGAAGGCA	0.567													21	53					0	0	1	0	0		A	109373197	A	A	109373197	3	1	89	1	0	0	0	0	1	0	0	0	464	1058	37	1	716	1	AKNAD1	1	109373197	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	102685	109373197	139877424	315	54146											
GPSM2	29899	broad.mit.edu	37	chr1	109440141	109440141	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagaccagctgggggaagcGaaagctagtggtaatctggg	11	6	18	6	1	1	1	0	0	1	1	1	4	1	2	1	5	3	3	1	5	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:109440141G>A	uc010ovc.1	+	4	802	c.306G>A	c.(304-306)GCG>GCA	p.A102A	AKNAD1_uc010ovb.1_Intron|GPSM2_uc010ovd.1_Silent_p.A102A|GPSM2_uc010ove.1_Silent_p.A102A	NM_013296	NP_037428	P81274	GPSM2_HUMAN	LGN protein	102	TPR 3.				G-protein coupled receptor protein signaling pathway	cell cortex|nucleus	GTPase activator activity|identical protein binding			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0353)|Lung(183;0.0984)|COAD - Colon adenocarcinoma(174;0.129)|Epithelial(280;0.175)|all cancers(265;0.209)		TGGGGGAAGCGAAAGCTAGTG	0.333													13	40					0	0	1	0	0		A	109440141	A	A	109440141	2	1	89	1	0	0	0	0	0	0	0	1	6751	1045	37	1		1	GPSM2	1	109440141	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	66944	109440141	139810480	316	54147											
GPSM2	29899	broad.mit.edu	37	chr1	109445747	109445747	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctttgaataacgttttaGaattggtgaaggaagagcat	13	13	11	4	2	0	4	0	2	0	2	1	5	0	5	0	2	2	3	0	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:109445747G>T	uc010ovc.1	+	9	1450	c.954_splice	c.e9-1	p.R318_splice	AKNAD1_uc010ovb.1_Intron|GPSM2_uc010ovd.1_Splice_Site_p.R318_splice|GPSM2_uc010ove.1_Splice_Site_p.R318_splice	NM_013296	NP_037428	P81274	GPSM2_HUMAN	LGN protein						G-protein coupled receptor protein signaling pathway	cell cortex|nucleus	GTPase activator activity|identical protein binding			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0353)|Lung(183;0.0984)|COAD - Colon adenocarcinoma(174;0.129)|Epithelial(280;0.175)|all cancers(265;0.209)		TAACGTTTTAGAATTGGTGAA	0.363													14	32					0.00316338	0.00320049	1	1	0		T	109445747	T	T	109445747	5	4	89	1	0	0	0	0	0	0	1	0	6751	956	33	5	983	5	GPSM2	1	109445747	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5606	109445747	139804874	317	54148											
KIAA1324	57535	broad.mit.edu	37	chr1	109742851	109742851	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctacttttggaaaaaGaatcaaaagtacatgttgcg	15	11	8	7	1	1	1	1	0	0	1	1	2	1	2	1	1	4	3	1	1	7	5	rs141267352		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:109742851G>T	uc001dwq.2	+	21	2935	c.2799G>T	c.(2797-2799)AAG>AAT	p.K933N	KIAA1324_uc009wex.1_Missense_Mutation_p.K883N|KIAA1324_uc009wey.2_Missense_Mutation_p.K846N|KIAA1324_uc010ovg.1_Missense_Mutation_p.K831N|KIAA1324_uc001dwr.2_Missense_Mutation_p.K583N|KIAA1324_uc001dws.1_RNA|KIAA1324_uc009wez.1_RNA	NM_020775	NP_065826	Q6UXG2	K1324_HUMAN	hypothetical protein LOC57535 precursor	933	Cytoplasmic (Potential).				macroautophagy|positive regulation of vacuole organization|regulation of apoptosis	integral to plasma membrane		p.K933K(1)		ovary(2)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	5		all_epithelial(167;0.000102)|all_lung(203;0.000323)|Lung NSC(277;0.00063)		Colorectal(144;0.0188)|Lung(183;0.0527)|COAD - Colon adenocarcinoma(174;0.14)|Epithelial(280;0.21)|all cancers(265;0.249)		TTTGGAAAAAGAATCAAAAGT	0.438													36	96					3.6622e-26	4.42619e-26	1	1	0		T	109742851	T	T	109742851	3	4	89	1	0	0	0	0	1	0	0	0	8239	933	33	5	2877	5	KIAA1324	1	109742851	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	297104	109742851	139507770	318	54149											
CELSR2	1952	broad.mit.edu	37	chr1	109806711	109806711	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtgtcagctacgagagggCcacgtgatgctgagcgtgga	8	8	17	8	3	1	3	1	2	0	1	1	5	1	4	1	3	4	2	1	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:109806711C>T	uc001dxa.3	+	10	5074	c.5013C>T	c.(5011-5013)GGC>GGT	p.G1671G		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	1671	Extracellular (Potential).|Laminin G-like 2.				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		TACGAGAGGGCCACGTGATGC	0.597											OREG0013632	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	37					0	0	1	0	0		T	109806711	T	T	109806711	2	4	89	1	0	0	0	0	0	0	0	1	3225	726	26	2		2	CELSR2	1	109806711	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	63860	109806711	139443910	319	54150											
CELSR2	1952	broad.mit.edu	37	chr1	109808788	109808788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtggccccgtacccgcttCgggctgcctgctgctgctcc	1	10	13	17	3	0	0	0	0	0	0	2	0	1	0	5	3	5	6	5	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:109808788C>T	uc001dxa.3	+	15	6034	c.5973C>T	c.(5971-5973)TTC>TTT	p.F1991F		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	1991	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		GTACCCGCTTCGGGCTGCCTG	0.607													26	49					0	0	1	0	0		T	109808788	T	T	109808788	2	4	89	1	0	0	0	0	0	0	0	1	3225	883	31	1		1	CELSR2	1	109808788	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2077	109808788	139441833	320	54151											
PSMA5	5686	broad.mit.edu	37	chr1	109957887	109957887	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcatcaatctctacaattttCtcaatgctgctgggctccat	9	14	6	12	0	3	0	2	0	2	0	6	0	4	0	1	1	3	4	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:109957887C>T	uc001dxn.2	-	3	280	c.195G>A	c.(193-195)GAG>GAA	p.E65E	PSMA5_uc010ovj.1_Silent_p.E7E	NM_002790	NP_002781	P28066	PSA5_HUMAN	proteasome alpha 5 subunit	65					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	protein binding|threonine-type endopeptidase activity				0		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.045)|Colorectal(144;0.116)|Epithelial(280;0.187)|all cancers(265;0.196)|LUSC - Lung squamous cell carcinoma(189;0.235)		CTACAATTTTCTCAATGCTGC	0.468													26	70					0	0	1	0	0		T	109957887	T	T	109957887	2	4	89	1	0	0	0	0	0	0	0	1	12692	912	32	4		4	PSMA5	1	109957887	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	149099	109957887	139292734	321	54152											
GNAI3	2773	broad.mit.edu	37	chr1	110116549	110116549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggatggctattcagaggatGaatgtaaacaatataaagta	18	10	10	3	0	1	2	1	1	0	1	1	4	1	4	0	3	1	3	0	3	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:110116549G>A	uc001dxz.2	+	3	350	c.193G>A	c.(193-195)GAA>AAA	p.E65K		NM_006496	NP_006487	P08754	GNAI3_HUMAN	guanine nucleotide binding protein (G protein),	65					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|metabotropic serotonin receptor binding|signal transducer activity			ovary(1)	1		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.046)|Colorectal(144;0.119)|Epithelial(280;0.139)|all cancers(265;0.147)|LUSC - Lung squamous cell carcinoma(189;0.237)		TTCAGAGGATGAATGTAAACA	0.353													20	51					0	0	1	0	0		A	110116549	A	A	110116549	3	1	89	1	0	0	0	0	1	0	0	0	6521	1291	45	4	203	4	GNAI3	1	110116549	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	158662	110116549	139134072	322	54153											
EPS8L3	79574	broad.mit.edu	37	chr1	110301280	110301280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggctgaaggcctccaagtCgaggtctgctgaggacatgg	8	8	15	10	1	1	2	0	2	1	0	3	4	2	3	2	5	1	2	2	5	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:110301280C>T	uc001dyr.1	-	7	612	c.467G>A	c.(466-468)CGA>CAA	p.R156Q	EPS8L3_uc001dys.1_Missense_Mutation_p.R156Q|EPS8L3_uc001dyq.1_Missense_Mutation_p.R157Q|EPS8L3_uc009wfm.1_Missense_Mutation_p.R123Q|EPS8L3_uc009wfn.1_Missense_Mutation_p.R123Q|EPS8L3_uc009wfo.1_Missense_Mutation_p.R103Q	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	156						cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		GCCTCCAAGTCGAGGTCTGCT	0.617													11	53					0	0	1	0	0		T	110301280	T	T	110301280	3	4	89	1	0	0	0	0	1	0	0	0	5205	884	31	1	1366	1	EPS8L3	1	110301280	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	184731	110301280	138949341	323	54154											
RBM15	64783	broad.mit.edu	37	chr1	110884015	110884015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgagagtgaccgcccacGaaaacgtcactgcgctcctt	9	8	9	15	4	1	2	1	2	0	1	3	4	3	2	4	0	2	1	4	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:110884015G>A	uc001dzl.1	+	1	2071	c.1988G>A	c.(1987-1989)CGA>CAA	p.R663Q	RBM15_uc001dzm.1_Missense_Mutation_p.R663Q|uc001dzj.2_5'Flank	NM_022768	NP_073605	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	663	Arg-rich.				interspecies interaction between organisms	nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		GACCGCCCACGAAAACGTCAC	0.567			T	MKL1	acute megakaryocytic leukemia								18	23					0	0	1	0	0		A	110884015	A	A	110884015	3	1	89	1	0	0	0	0	1	0	0	0	13141	1058	37	1	1990	1	RBM15	1	110884015	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	582735	110884015	138366606	324	54155											
KCNA10	3744	broad.mit.edu	37	chr1	111060927	111060927	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagatttcatcagcaaaGatatcaatgggaacattggc	16	9	10	6	0	3	2	3	0	0	2	3	4	3	3	0	3	2	1	0	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:111060927G>T	uc001dzt.1	-	1	871	c.483C>A	c.(481-483)ATC>ATA	p.I161I		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	161						voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		CATCAGCAAAGATATCAATGG	0.468													20	57					1.96292e-10	2.12899e-10	1	1	0		T	111060927	T	T	111060927	2	4	89	1	0	0	0	0	0	0	0	1	8018	932	33	5		5	KCNA10	1	111060927	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	176912	111060927	138189694	325	54156											
KCNA3	3738	broad.mit.edu	37	chr1	111216495	111216495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctaggacaagcgaagaaccGcaccagcagttcgaaggaga	15	3	13	10	3	0	2	0	0	0	2	1	6	0	3	2	2	3	4	2	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:111216495G>A	uc001dzv.1	-	1	1161	c.937C>T	c.(937-939)CGG>TGG	p.R313W		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	313	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCGAAGAACCGCACCAGCAGT	0.547													54	66					0	0	1	0	0		A	111216495	A	A	111216495	3	1	89	1	0	0	0	0	1	0	0	0	8020	1086	38	1	794	1	KCNA3	1	111216495	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	155568	111216495	138034126	326	54157											
KCNA3	3738	broad.mit.edu	37	chr1	111217087	111217087	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggtcttcagctgcgtctcGaagcgcagcccggagatgtt	7	9	14	11	4	3	1	1	0	2	1	4	3	3	1	1	2	4	3	1	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:111217087G>A	uc001dzv.1	-	1	569	c.345C>T	c.(343-345)TTC>TTT	p.F115F		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	115						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCTGCGTCTCGAAGCGCAGCC	0.682													26	52					0	0	1	0	0		A	111217087	A	A	111217087	2	1	89	1	0	0	0	0	0	0	0	1	8020	1049	37	1		1	KCNA3	1	111217087	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	592	111217087	138033534	327	54158											
KCNA3	3738	broad.mit.edu	37	chr1	111217183	111217183	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagcggctcgtagcggtcGcagccgccgccgccacagcc	5	3	15	18	7	0	0	0	0	0	0	2	0	0	0	5	3	4	4	5	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:111217183G>A	uc001dzv.1	-	1	473	c.249C>T	c.(247-249)TGC>TGT	p.C83C		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	83						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		CGTAGCGGTCGCAGCCGCCGC	0.746													10	10					0	0	1	0	0		A	111217183	A	A	111217183	2	1	89	1	0	0	0	0	0	0	0	1	8020	1079	38	1		1	KCNA3	1	111217183	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	96	111217183	138033438	328	54159											
CD53	963	broad.mit.edu	37	chr1	111440442	111440442	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcttctagggttgctatgcGaaagcaagactgtggtttca	9	13	12	7	1	3	1	1	0	2	1	3	2	3	1	0	2	3	4	0	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:111440442G>A	uc001dzw.2	+	8	687	c.516G>A	c.(514-516)GCG>GCA	p.A172A	CD53_uc001dzx.2_Silent_p.A172A|CD53_uc010owa.1_Silent_p.A113A|CD53_uc001dzy.2_Intron	NM_001040033	NP_001035122	P19397	CD53_HUMAN	CD53 antigen	172	Extracellular (Potential).				signal transduction	integral to membrane|plasma membrane					0		all_cancers(81;1.06e-05)|all_epithelial(167;1.95e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0264)|Colorectal(144;0.0375)|all cancers(265;0.11)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.141)|LUSC - Lung squamous cell carcinoma(189;0.144)		GTTGCTATGCGAAAGCAAGAC	0.328													29	71					0	0	1	0	0		A	111440442	A	A	111440442	2	1	89	1	0	0	0	0	0	0	0	1	3026	1045	37	1		1	CD53	1	111440442	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	223259	111440442	137810179	329	54160											
C1orf103	55791	broad.mit.edu	37	chr1	111492561	111492561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	taaaggaatcgaaaccttctCcagaggtcaaatggtcagga	15	8	10	8	1	3	1	2	0	1	1	5	4	3	3	2	4	1	0	2	4	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:111492561C>T	uc001eaa.2	-	3	2037	c.1781G>A	c.(1780-1782)GGA>GAA	p.G594E	C1orf103_uc001dzz.2_Missense_Mutation_p.G58E|C1orf103_uc001eab.2_Missense_Mutation_p.G58E|C1orf103_uc001eac.1_Missense_Mutation_p.G58E	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	594					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		GAAACCTTCTCCAGAGGTCAA	0.393													50	93					0	0	1	0	0		T	111492561	T	T	111492561	3	4	89	1	0	0	0	0	1	0	0	0	1980	855	30	4	536	4	C1orf103	1	111492561	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	52119	111492561	137758060	330	54161											
DRAM2	128338	broad.mit.edu	37	chr1	111661436	111661436	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccttcttacctgaaaatcAcgaatgtaagtcaggaaaaa	16	10	7	8	1	3	1	2	1	1	0	3	3	3	2	2	1	2	1	2	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:111661436A>G	uc001ead.3	-	8	941	c.684T>C	c.(682-684)CGT>CGC	p.R228R	DRAM2_uc001eae.3_Silent_p.R228R|DRAM2_uc009wfy.2_RNA|DRAM2_uc001eaf.3_Silent_p.R98R	NM_178454	NP_848549	Q6UX65	DRAM2_HUMAN	transmembrane protein 77	228					apoptosis|induction of apoptosis	Golgi apparatus|integral to membrane|lysosomal membrane					0						CCTGAAAATCACGAATGTAAG	0.393													12	19					0	0	1	0	0		G	111661436	G	G	111661436	2	3	89	1	0	0	0	0	0	0	0	1	4760	146	6	3		3	DRAM2	1	111661436	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	168875	111661436	137589185	331	54162											
C1orf88	128344	broad.mit.edu	37	chr1	111889538	111889538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctttattttagacgctgCggataactacccttttggaa	9	15	7	10	2	1	1	0	0	1	1	1	3	1	3	2	2	3	1	2	2	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:111889538C>T	uc001eaw.2	+	2	106	c.26C>T	c.(25-27)GCG>GTG	p.A9V	C1orf88_uc001eax.2_Missense_Mutation_p.A9V|C1orf88_uc009wge.1_Missense_Mutation_p.A9V|C1orf88_uc001eay.2_5'Flank	NM_181643	NP_857594	Q8TCI5	CA088_HUMAN	hypothetical protein LOC128344	9										ovary(1)|skin(1)	2		all_cancers(81;3.21e-05)|all_epithelial(167;1.19e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0239)|Colorectal(144;0.0301)|all cancers(265;0.0677)|Epithelial(280;0.0897)|COAD - Colon adenocarcinoma(174;0.116)|LUSC - Lung squamous cell carcinoma(189;0.135)		TTAGACGCTGCGGATAACTAC	0.532													18	41					0	0	1	0	0		T	111889538	T	T	111889538	3	4	89	1	0	0	0	0	1	0	0	0	2068	768	27	1	32	1	C1orf88	1	111889538	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	228102	111889538	137361083	332	54163											
LRIG2	9860	broad.mit.edu	37	chr1	113638552	113638552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtggttgtatggcttgcGaatgttacagcagctctatg	7	13	15	6	1	1	0	0	0	1	0	1	1	1	0	0	4	4	6	0	4	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:113638552G>A	uc001edf.1	+	7	1058	c.860G>A	c.(859-861)CGA>CAA	p.R287Q	LRIG2_uc009wgn.1_Missense_Mutation_p.R184Q	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	287	Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		TATGGCTTGCGAATGTTACAG	0.433													23	48					0	0	1	0	0		A	113638552	A	A	113638552	3	1	89	1	0	0	0	0	1	0	0	0	8963	1058	37	1	886	1	LRIG2	1	113638552	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1749014	113638552	135612069	333	54164											
LRIG2	9860	broad.mit.edu	37	chr1	113638635	113638635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttctgccaaagactatccGaactgtaagtgttggatagc	12	11	10	8	1	1	1	0	0	1	1	2	3	2	2	2	1	3	3	2	1	5	5	rs149797505	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:113638635G>A	uc001edf.1	+	7	1141	c.943G>A	c.(943-945)GAA>AAA	p.E315K	LRIG2_uc009wgn.1_Missense_Mutation_p.E212K	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	315	LRR 11.|Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		AAGACTATCCGAACTGTAAGT	0.443													21	41					0	0	1	0	0		A	113638635	A	A	113638635	3	1	89	1	0	0	0	0	1	0	0	0	8963	1059	37	1	969	1	LRIG2	1	113638635	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	83	113638635	135611986	334	54165											
MAGI3	260425	broad.mit.edu	37	chr1	114128214	114128214	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctattaatggcagtggaaaCgcaggtttgtaaatagatga	14	11	12	4	1	0	2	0	1	0	1	0	3	0	3	0	3	1	5	0	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:114128214C>T	uc001edk.2	+	4	940	c.759C>T	c.(757-759)AAC>AAT	p.N253N	MAGI3_uc001edh.3_Silent_p.N253N|MAGI3_uc001edi.3_Silent_p.N253N|MAGI3_uc010owm.1_Silent_p.N253N	NM_001142782	NP_001136254	Q5TCQ9	MAGI3_HUMAN	membrane-associated guanylate kinase-related  3	253	Guanylate kinase-like.				apoptosis|interspecies interaction between organisms|intracellular signal transduction	nucleus|tight junction	ATP binding|guanylate kinase activity|protein binding			lung(3)|ovary(2)|central_nervous_system(1)	6	Lung SC(450;0.184)	all_cancers(81;2.34e-09)|all_epithelial(167;7.41e-09)|all_lung(203;7.13e-06)|Lung NSC(69;1.2e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCAGTGGAAACGCAGGTTTGT	0.358													18	43					0	0	1	0	0		T	114128214	T	T	114128214	2	4	89	1	0	0	0	0	0	0	0	1	9210	535	19	1		1	MAGI3	1	114128214	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	489579	114128214	135122407	335	54166											
PHTF1	10745	broad.mit.edu	37	chr1	114246728	114246728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacaacaaatgaaagcaatcGaaagtgtcagtaggaaaacc	20	5	8	8	1	1	1	1	1	0	0	2	3	1	2	1	1	3	2	1	1	8	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:114246728G>A	uc009wgp.1	-	14	2317	c.1865C>T	c.(1864-1866)TCG>TTG	p.S622L	PHTF1_uc001edn.2_Missense_Mutation_p.S622L|PHTF1_uc001edm.2_Missense_Mutation_p.S379L	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	622						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAAAGCAATCGAAAGTGTCAG	0.388													14	28					0	0	1	0	0		A	114246728	A	A	114246728	3	1	89	1	0	0	0	0	1	0	0	0	11881	1059	37	1	443	1	PHTF1	1	114246728	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	118514	114246728	135003893	336	54167											
AP4B1	10717	broad.mit.edu	37	chr1	114438555	114438555	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaagtccaagagtagggTcagatttagggctacacaga	15	7	11	8	0	1	3	1	0	0	3	2	3	2	3	2	2	1	2	2	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:114438555T>C	uc001eeb.2	-	9	1759	c.1616A>G	c.(1615-1617)GAC>GGC	p.D539G	uc001edv.1_Intron|AP4B1_uc001eec.2_Missense_Mutation_p.D371G|AP4B1_uc001eed.2_Missense_Mutation_p.D539G|AP4B1_uc010owp.1_Missense_Mutation_p.D440G|AP4B1_uc001eea.1_3'UTR|AP4B1_uc001eee.1_Missense_Mutation_p.D66G	NM_006594	NP_006585	Q9Y6B7	AP4B1_HUMAN	adaptor-related protein complex 4, beta 1	539					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|soluble fraction|trans-Golgi network	protein binding|protein transporter activity			ovary(3)|central_nervous_system(1)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.1e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AAGAGTAGGGTCAGATTTAGG	0.493													28	49					0	0	1	0	0		C	114438555	C	C	114438555	3	2	89	1	0	0	0	0	1	0	0	0	751	1667	58	3	611	3	AP4B1	1	114438555	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	191827	114438555	134812066	337	54168											
DCLRE1B	64858	broad.mit.edu	37	chr1	114454281	114454281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccaaggtgttgtgtttgaatCccctgaggaaagtgctgatc	9	12	12	8	0	0	3	0	3	0	0	2	4	1	4	3	2	1	3	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:114454281C>T	uc001eeg.2	+	4	1238	c.1067C>T	c.(1066-1068)TCC>TTC	p.S356F	DCLRE1B_uc001eeh.2_Missense_Mutation_p.S230F|DCLRE1B_uc001eei.2_Missense_Mutation_p.S230F	NM_022836	NP_073747	Q9H816	DCR1B_HUMAN	DNA cross-link repair 1B (PSO2 homolog, S.	356					cell cycle checkpoint|DNA repair|protection from non-homologous end joining at telomere|telomeric 3' overhang formation|telomeric loop formation	centrosome|chromosome, telomeric region|nucleus	5'-3' exonuclease activity|protein binding				0	Lung SC(450;0.184)	all_cancers(81;1.46e-05)|all_epithelial(167;2.42e-05)|all_lung(203;0.000353)|Lung NSC(69;0.000518)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTGTTTGAATCCCCTGAGGAA	0.478								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					29	66					0	0	1	0	0		T	114454281	T	T	114454281	3	4	89	1	0	0	0	0	1	0	0	0	4298	855	30	4	1081	4	DCLRE1B	1	114454281	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	15726	114454281	134796340	338	54169											
SYT6	148281	broad.mit.edu	37	chr1	114682360	114682360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggctgatcttcacggccGcctccaggaagcccagggtg	6	8	14	13	2	2	1	1	1	1	0	3	2	3	2	4	4	1	1	4	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:114682360G>A	uc001eev.2	-	2	384	c.134C>T	c.(133-135)GCG>GTG	p.A45V		NM_205848	NP_995320	Q5T7P8	SYT6_HUMAN	synaptotagmin VI	130	Cytoplasmic (Potential).				acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTTCACGGCCGCCTCCAGGAA	0.612													39	85					0	0	1	0	0		A	114682360	A	A	114682360	3	1	89	1	0	0	0	0	1	0	0	0	15503	1087	38	1	1167	1	SYT6	1	114682360	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	228079	114682360	134568261	339	54170											
TRIM33	51592	broad.mit.edu	37	chr1	114964188	114964188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatagttgctgtagtagggCtcgttgggttgattgtggtg	5	15	16	5	1	0	1	0	1	0	0	1	1	0	1	1	3	1	7	1	3	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:114964188C>T	uc001eew.2	-	11	2015	c.1931G>A	c.(1930-1932)AGC>AAC	p.S644N	TRIM33_uc010owr.1_Missense_Mutation_p.S234N|TRIM33_uc010ows.1_Missense_Mutation_p.S252N|TRIM33_uc001eex.2_Missense_Mutation_p.S644N	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	644					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGTAGTAGGGCTCGTTGGGTT	0.463			T	RET	papillary thyroid								35	56					0	0	1	0	0		T	114964188	T	T	114964188	3	4	89	1	0	0	0	0	1	0	0	0	16533	797	28	2	1492	2	TRIM33	1	114964188	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	281828	114964188	134286433	340	54171											
TRIM33	51592	broad.mit.edu	37	chr1	114976274	114976274	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagctgcaaaatgaacataAttcttcttctcaagaagttt	14	14	6	7	0	3	2	1	1	3	1	4	2	3	2	0	0	3	4	0	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:114976274A>C	uc001eew.2	-	5	1089	c.1005T>G	c.(1003-1005)AAT>AAG	p.N335K	TRIM33_uc010ows.1_5'UTR|TRIM33_uc001eex.2_Missense_Mutation_p.N335K	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	335	Necessary for oligomerization.|Potential.				negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		AATGAACATAATTCTTCTTCT	0.333			T	RET	papillary thyroid								32	52					0	0	1	0	0		C	114976274	C	C	114976274	3	2	89	1	0	0	0	0	1	0	0	0	16533	98	4	5	2442	5	TRIM33	1	114976274	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	12086	114976274	134274347	341	54172											
TRIM33	51592	broad.mit.edu	37	chr1	115006983	115006983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatctgtctgcattcttggCggcatactgggcaccgtatt	6	14	10	11	2	3	0	0	0	3	0	3	0	3	0	1	3	2	4	1	3	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:115006983C>T	uc001eew.2	-	2	638	c.554G>A	c.(553-555)CGC>CAC	p.R185H	TRIM33_uc010ows.1_5'Flank|TRIM33_uc001eex.2_Missense_Mutation_p.R185H	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	185					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCATTCTTGGCGGCATACTGG	0.358			T	RET	papillary thyroid								43	39					0	0	1	0	0		T	115006983	T	T	115006983	3	4	89	1	0	0	0	0	1	0	0	0	16533	768	27	1	2905	1	TRIM33	1	115006983	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30709	115006983	134243638	342	54173											
DENND2C	163259	broad.mit.edu	37	chr1	115078697	115078697	+	RNA	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccacggctgacacattcctgGagcacatgtgccacctggac	9	7	10	15	1	0	1	0	1	0	0	1	3	1	3	4	3	2	2	4	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:115078697G>A	uc001eez.2	-	29		c.4946C>T				NM_198459		Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C											skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CACATTCCTGGAGCACATGTG	0.562													7	28					0	0	1	0	0		A	115078697	A	A	115078697	1	1	89	0	1	0	0	0	0	0	0	0	4436	1189	41	4		4	DENND2C	1	115078697	RNA	SNP	G	TCGA-BR-8680-01A-11D-2394-08	71714	115078697	134171924	343	54174											
DENND2C	163259	broad.mit.edu	37	chr1	115130017	115130017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaactaaccaagactccGcaaaattctattcatcccac	15	8	3	15	1	2	1	1	0	1	1	4	1	4	1	3	0	3	2	3	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:115130017G>A	uc001efd.1	-	20	3448	c.2746C>T	c.(2746-2748)CGG>TGG	p.R916W	DENND2C_uc001eez.2_RNA|DENND2C_uc001efc.1_Missense_Mutation_p.R859W	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	916										skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCAAGACTCCGCAAAATTCTA	0.323													85	149					0	0	1	0	0		A	115130017	A	A	115130017	3	1	89	1	0	0	0	0	1	0	0	0	4436	1086	38	1	48	1	DENND2C	1	115130017	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	51320	115130017	134120604	344	54175											
DENND2C	163259	broad.mit.edu	37	chr1	115168177	115168177	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtatttgtgaggtataGaagtttcctggaggtaatga	12	13	12	4	0	0	3	0	2	0	1	1	4	1	4	1	3	0	4	1	3	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:115168177G>T	uc001efd.1	-	4	1131	c.429C>A	c.(427-429)TTC>TTA	p.F143L	DENND2C_uc001eez.2_RNA|DENND2C_uc001efc.1_Missense_Mutation_p.F143L	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	143										skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTGAGGTATAGAAGTTTCCTG	0.373													38	59					4.46736e-08	4.72581e-08	1	1	0		T	115168177	T	T	115168177	3	4	89	1	0	0	0	0	1	0	0	0	4436	933	33	5	2254	5	DENND2C	1	115168177	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	38160	115168177	134082444	345	54176											
DENND2C	163259	broad.mit.edu	37	chr1	115168398	115168398	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acggctggttacatccaagtTtttgctctttctctcagcta	7	16	7	11	1	3	0	1	0	2	0	5	0	4	0	1	2	3	5	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:115168398T>G	uc001efd.1	-	4	910	c.208A>C	c.(208-210)AAC>CAC	p.N70H	DENND2C_uc001eez.2_RNA|DENND2C_uc001efc.1_Missense_Mutation_p.N70H	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	70										skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACATCCAAGTTTTTGCTCTTT	0.358													63	118					0	0	1	0	0		G	115168398	G	G	115168398	3	3	89	1	0	0	0	0	1	0	0	0	4436	1841	64	5	2475	5	DENND2C	1	115168398	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	221	115168398	134082223	346	54177											
DENND2C	163259	broad.mit.edu	37	chr1	115168534	115168534	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccttcccattgagaaatTttttgtttgatgtttttgca	7	21	6	7	0	0	2	0	2	0	1	2	3	2	2	2	0	1	3	2	0	1	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:115168534T>G	uc001efd.1	-	4	774	c.72A>C	c.(70-72)AAA>AAC	p.K24N	DENND2C_uc001eez.2_RNA|DENND2C_uc001efc.1_Missense_Mutation_p.K24N	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	24										skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATTGAGAAATTTTTTGTTTGA	0.413													54	109					0	0	1	0	0		G	115168534	G	G	115168534	3	3	89	1	0	0	0	0	1	0	0	0	4436	1838	64	5	2611	5	DENND2C	1	115168534	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	136	115168534	134082087	347	54178											
AMPD1	270	broad.mit.edu	37	chr1	115216304	115216304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacactgttccttgccacttCgcacatatcacaggtgctca	9	11	7	14	1	2	0	2	0	0	0	4	1	3	0	2	1	2	3	2	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:115216304C>T	uc001efe.1	-	15	2125	c.2041G>A	c.(2041-2043)GAA>AAA	p.E681K	AMPD1_uc001eff.1_Missense_Mutation_p.E677K	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	681					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	CTTGCCACTTCGCACATATCA	0.433													45	51					0	0	1	0	0		T	115216304	T	T	115216304	3	4	89	1	0	0	0	0	1	0	0	0	585	893	31	1	210	1	AMPD1	1	115216304	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	47770	115216304	134034317	348	54179											
AMPD1	270	broad.mit.edu	37	chr1	115218219	115218219	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtaagtgtaagatggattCttttccaatgtccactcctg	10	15	8	8	0	1	1	0	0	1	1	4	2	4	2	3	1	0	2	3	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:115218219C>A	uc001efe.1	-	12	1695	c.1611G>T	c.(1609-1611)AAG>AAT	p.K537N	AMPD1_uc001eff.1_Missense_Mutation_p.K533N	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	537					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	AAGATGGATTCTTTTCCAATG	0.478													42	82					6.5261e-18	7.59833e-18	1	1	0		A	115218219	A	A	115218219	3	1	89	1	0	0	0	0	1	0	0	0	585	912	32	5	652	5	AMPD1	1	115218219	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1915	115218219	134032402	349	54180											
AMPD1	270	broad.mit.edu	37	chr1	115226903	115226903	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggttttagggaacctctgaAacgacttctgcatgtatttc	9	14	10	8	1	2	1	0	1	2	0	3	3	2	2	1	2	3	3	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:115226903A>C	uc001efe.1	-	5	548	c.464T>G	c.(463-465)TTT>TGT	p.F155C	AMPD1_uc001eff.1_Missense_Mutation_p.F151C	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	155					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	GAACCTCTGAAACGACTTCTG	0.403													8	86					0	0	1	0	0		C	115226903	C	C	115226903	3	2	89	1	0	0	0	0	1	0	0	0	585	14	1	5	1827	5	AMPD1	1	115226903	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	8684	115226903	134023718	350	54181											
SYCP1	6847	broad.mit.edu	37	chr1	115428199	115428199	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcaattgagaaacagcaTcatttgactaaagaactaga	19	9	6	7	0	2	4	2	2	0	3	2	5	2	4	0	0	3	1	0	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:115428199T>C	uc001efr.2	+	13	1163	c.954T>C	c.(952-954)CAT>CAC	p.H318H	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Silent_p.H318H|SYCP1_uc009wgw.2_Silent_p.H318H	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	318	Potential.				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGAAACAGCATCATTTGACTA	0.274													24	51					0	0	1	0	0		C	115428199	C	C	115428199	2	2	89	1	0	0	0	0	0	0	0	1	15456	1432	50	3		3	SYCP1	1	115428199	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	201296	115428199	133822422	351	54182											
TSHB	7252	broad.mit.edu	37	chr1	115576140	115576140	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgctggatattgtatgAcacgggtatgtagttcatgt	8	16	12	5	1	2	1	1	1	1	0	2	2	2	2	0	2	1	5	0	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:115576140A>G	uc001efs.1	+	2	225	c.157A>G	c.(157-159)ACA>GCA	p.T53A		NM_000549	NP_000540	P01222	TSHB_HUMAN	thyroid stimulating hormone, beta precursor	53					anatomical structure morphogenesis|cell-cell signaling|cellular nitrogen compound metabolic process|G-protein coupled receptor protein signaling pathway|hormone biosynthetic process|peptide hormone processing	extracellular region	hormone activity				0	Lung SC(450;0.211)	all_cancers(81;3.22e-07)|all_epithelial(167;1.4e-06)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|all cancers(265;0.159)|Epithelial(280;0.179)		ATATTGTATGACACGGGTATG	0.378													59	123					0	0	1	0	0		G	115576140	G	G	115576140	3	3	89	1	0	0	0	0	1	0	0	0	16647	275	10	3	159	3	TSHB	1	115576140	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	147941	115576140	133674481	352	54183											
ATP1A1	476	broad.mit.edu	37	chr1	116941321	116941321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagacattggggttgctatgGggattgctggctcagatgtg	7	12	16	6	0	1	2	1	0	0	2	1	3	1	3	0	5	2	4	0	5	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:116941321G>A	uc001ege.2	+	16	2542	c.2203G>A	c.(2203-2205)GGG>AGG	p.G735R	ATP1A1_uc010owv.1_Missense_Mutation_p.G704R|ATP1A1_uc010oww.1_Missense_Mutation_p.G735R|ATP1A1_uc010owx.1_Missense_Mutation_p.G704R|C1orf203_uc009whb.2_Intron|ATP1A1_uc001egh.2_5'Flank	NM_000701	NP_000692	P05023	AT1A1_HUMAN	Na+/K+ -ATPase alpha 1 subunit isoform a	735	Cytoplasmic (Potential).				ATP biosynthetic process	melanosome|sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Captopril(DB01197)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Esomeprazole(DB00736)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Ouabain(DB01092)|Pantoprazole(DB00213)|Trichlormethiazide(DB01021)	GGTTGCTATGGGGATTGCTGG	0.498													50	108					0	0	1	0	0		A	116941321	A	A	116941321	3	1	89	1	0	0	0	0	1	0	0	0	1129	1232	43	4	2281	4	ATP1A1	1	116941321	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1365181	116941321	132309300	353	54184											
CD101	9398	broad.mit.edu	37	chr1	117560012	117560012	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagacagtggcacatatgAgtgcagagtatctgagaagt	14	8	12	7	0	1	4	0	2	1	3	1	5	1	4	0	1	1	3	0	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:117560012A>C	uc010oxb.1	+	5	1587	c.1529A>C	c.(1528-1530)GAG>GCG	p.E510A	CD101_uc009whd.2_Missense_Mutation_p.E510A|CD101_uc010oxc.1_Missense_Mutation_p.E510A|CD101_uc010oxd.1_Missense_Mutation_p.E448A	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	510	Extracellular (Potential).|Ig-like C2-type 4.				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GGCACATATGAGTGCAGAGTA	0.498													49	55					0	0	1	0	0		C	117560012	C	C	117560012	3	2	89	1	0	0	0	0	1	0	0	0	2965	304	11	5	1547	5	CD101	1	117560012	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	618691	117560012	131690609	354	54185											
CD101	9398	broad.mit.edu	37	chr1	117568169	117568169	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaagtgtactggaccgaaAatgtgactgagcacagagaa	16	6	11	8	1	0	3	0	2	0	1	0	6	0	4	2	1	2	2	2	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:117568169A>C	uc010oxb.1	+	8	2525	c.2467A>C	c.(2467-2469)AAT>CAT	p.N823H	CD101_uc009whd.2_Missense_Mutation_p.N823H|CD101_uc010oxc.1_Missense_Mutation_p.N823H|CD101_uc010oxd.1_Missense_Mutation_p.N761H	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	823	Ig-like C2-type 7.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CTGGACCGAAAATGTGACTGA	0.463													31	74					0	0	1	0	0		C	117568169	C	C	117568169	3	2	89	1	0	0	0	0	1	0	0	0	2965	14	1	5	2497	5	CD101	1	117568169	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	8157	117568169	131682452	355	54186											
TTF2	8458	broad.mit.edu	37	chr1	117617849	117617849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggaggcacacacaaaagaGacttttctgaaattaaatct	16	10	7	8	0	2	2	0	1	2	1	2	4	2	3	0	2	0	1	0	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:117617849G>A	uc001egy.2	+	5	663	c.643G>A	c.(643-645)GAC>AAC	p.D215N	TTF2_uc001egx.1_Missense_Mutation_p.D215N	NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	215					mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		ACACAAAAGAGACTTTTCTGA	0.423													50	87					0	0	1	0	0		A	117617849	A	A	117617849	3	1	89	1	0	0	0	0	1	0	0	0	16745	942	33	4	661	4	TTF2	1	117617849	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	49680	117617849	131632772	356	54187											
TTF2	8458	broad.mit.edu	37	chr1	117631460	117631460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttcgaatagcctgggctcGaatcatattggatgaagctc	10	11	11	9	2	1	1	1	1	0	0	4	4	1	2	1	2	2	3	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:117631460G>A	uc001egy.2	+	13	2218	c.2198G>A	c.(2197-2199)CGA>CAA	p.R733Q		NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	733	Helicase ATP-binding.				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		GCCTGGGCTCGAATCATATTG	0.478													62	86					0	0	1	0	0		A	117631460	A	A	117631460	3	1	89	1	0	0	0	0	1	0	0	0	16745	1058	37	1	2248	1	TTF2	1	117631460	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13611	117631460	131619161	357	54188											
TTF2	8458	broad.mit.edu	37	chr1	117632771	117632771	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaacggttaagtattttaAccaagagccttttgctgagg	12	12	11	6	1	0	3	0	1	0	2	0	4	0	3	2	2	4	3	2	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:117632771A>G	uc001egy.2	+	14	2457	c.2437A>G	c.(2437-2439)ACC>GCC	p.T813A		NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	813					mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		AAGTATTTTAACCAAGAGCCT	0.468													54	143					0	0	1	0	0		G	117632771	G	G	117632771	3	3	89	1	0	0	0	0	1	0	0	0	16745	43	2	3	2491	3	TTF2	1	117632771	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1311	117632771	131617850	358	54189											
TRIM45	80263	broad.mit.edu	37	chr1	117659354	117659354	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaggccgtctgtttctcccgGgctctgtggaggtctgaaaa	6	11	14	10	2	4	1	0	1	4	0	5	3	4	2	2	4	0	2	2	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:117659354G>A	uc001egz.2	-	3	1824	c.1236C>T	c.(1234-1236)GCC>GCT	p.A412A	TRIM45_uc009whe.2_Silent_p.A394A|TRIM45_uc001eha.2_Silent_p.A308A	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	412	Filamin.					cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		GTTTCTCCCGGGCTCTGTGGA	0.498													19	38					0	0	1	0	0		A	117659354	A	A	117659354	2	1	89	1	0	0	0	0	0	0	0	1	16546	1219	43	4		4	TRIM45	1	117659354	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	26583	117659354	131591267	359	54190											
MAN1A2	10905	broad.mit.edu	37	chr1	117944919	117944919	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaattcgagcagaaattcaGacagagaaaaataaggtagt	20	7	10	4	1	1	3	1	0	0	3	2	6	1	3	0	1	1	2	0	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:117944919G>A	uc001ehd.1	+	2	1135	c.414G>A	c.(412-414)CAG>CAA	p.Q138Q	MAN1A2_uc009whg.1_Intron	NM_006699	NP_006690	O60476	MA1A2_HUMAN	mannosidase, alpha, class 1A, member 2	138	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity				0	Lung SC(450;0.225)	all_cancers(81;7.9e-06)|all_epithelial(167;7.39e-07)|all_lung(203;2.84e-06)|Lung NSC(69;1.99e-05)		Lung(183;0.0688)|Kidney(133;0.114)|LUSC - Lung squamous cell carcinoma(189;0.223)|KIRC - Kidney renal clear cell carcinoma(1967;0.237)|Colorectal(144;0.243)		CAGAAATTCAGACAGAGAAAA	0.403													20	46					0	0	1	0	0		A	117944919	A	A	117944919	2	1	89	1	0	0	0	0	0	0	0	1	9229	933	33	4		4	MAN1A2	1	117944919	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	285565	117944919	131305702	360	54191											
MAN1A2	10905	broad.mit.edu	37	chr1	118065574	118065574	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcaggtaatcctgctgttCgatgaaagcagttccagaag	11	12	10	8	1	1	2	1	1	0	1	4	3	3	2	2	1	2	5	2	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:118065574C>T	uc001ehd.1	+	13	2642	c.1921C>T	c.(1921-1923)CGA>TGA	p.R641*		NM_006699	NP_006690	O60476	MA1A2_HUMAN	mannosidase, alpha, class 1A, member 2	641	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity				0	Lung SC(450;0.225)	all_cancers(81;7.9e-06)|all_epithelial(167;7.39e-07)|all_lung(203;2.84e-06)|Lung NSC(69;1.99e-05)		Lung(183;0.0688)|Kidney(133;0.114)|LUSC - Lung squamous cell carcinoma(189;0.223)|KIRC - Kidney renal clear cell carcinoma(1967;0.237)|Colorectal(144;0.243)		TCCTGCTGTTCGATGAAAGCA	0.448													38	76					0	0	1	0	0		T	118065574	T	T	118065574	4	4	89	1	0	0	0	0	0	1	0	0	9229	876	31	1	1971	1	MAN1A2	1	118065574	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	120655	118065574	131185047	361	54192											
SPAG17	200162	broad.mit.edu	37	chr1	118514668	118514668	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcctccaacagaatcttgCacctttgcattaagaaaaaa	15	12	4	10	0	1	2	0	0	1	2	3	2	3	2	3	0	3	2	3	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:118514668C>A	uc001ehk.2	-	45	6212	c.6144G>T	c.(6142-6144)GTG>GTT	p.V2048V		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	2048						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		CAGAATCTTGCACCTTTGCAT	0.363													11	28					1.58986e-06	1.65575e-06	1	1	0		A	118514668	A	A	118514668	2	1	89	1	0	0	0	0	0	0	0	1	15004	697	25	5		5	SPAG17	1	118514668	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	449094	118514668	130735953	362	54193											
SPAG17	200162	broad.mit.edu	37	chr1	118583459	118583459	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatttcccatattgtatccGtgaaactagaagagaaaata	17	12	6	6	1	0	3	0	1	0	2	2	4	2	3	2	0	1	1	2	0	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:118583459G>A	uc001ehk.2	-	22	3128	c.3060C>T	c.(3058-3060)CAC>CAT	p.H1020H		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1020						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TATTGTATCCGTGAAACTAGA	0.373													6	46					0	0	1	0	0		A	118583459	A	A	118583459	2	1	89	1	0	0	0	0	0	0	0	1	15004	1136	40	1		1	SPAG17	1	118583459	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	68791	118583459	130667162	363	54194											
SPAG17	200162	broad.mit.edu	37	chr1	118616546	118616546	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactgcgctgctgtgttttCtttatgtcctctaaatctgc	6	17	8	10	1	3	1	0	0	3	1	4	1	4	1	1	0	3	3	1	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:118616546C>A	uc001ehk.2	-	17	2384	c.2316G>T	c.(2314-2316)AAG>AAT	p.K772N		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	772						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GCTGTGTTTTCTTTATGTCCT	0.348													71	118					1.59627e-33	1.96257e-33	1	1	0		A	118616546	A	A	118616546	3	1	89	1	0	0	0	0	1	0	0	0	15004	912	32	5	4483	5	SPAG17	1	118616546	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	33087	118616546	130634075	364	54195											
WARS2	10352	broad.mit.edu	37	chr1	119575586	119575586	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacacagtgtatgctaatTctttggcttttgctgatcca	8	15	9	9	0	1	1	0	1	1	0	2	1	2	1	1	2	2	5	1	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:119575586T>G	uc001ehn.2	-	6	1059	c.1031A>C	c.(1030-1032)GAA>GCA	p.E344A	WARS2_uc010oxf.1_Missense_Mutation_p.E250A|WARS2_uc001ehm.2_3'UTR|WARS2_uc010oxg.1_Missense_Mutation_p.E287A|WARS2_uc010oxh.1_3'UTR	NM_015836	NP_056651	Q9UGM6	SYWM_HUMAN	mitochondrial tryptophanyl tRNA synthetase 2	344					tryptophanyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|tryptophan-tRNA ligase activity				0	all_neural(166;0.187)	all_lung(203;2.48e-06)|Lung NSC(69;1.74e-05)|all_epithelial(167;0.000564)		Lung(183;0.0629)	L-Tryptophan(DB00150)	GTATGCTAATTCTTTGGCTTT	0.413													28	88					0	0	1	0	0		G	119575586	G	G	119575586	3	3	89	1	0	0	0	0	1	0	0	0	17276	1783	62	5	55	5	WARS2	1	119575586	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	959040	119575586	129675035	365	54196											
HAO2	51179	broad.mit.edu	37	chr1	119927408	119927408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgctttacagctgcccaagCggctggtatctgctacatca	8	12	9	12	1	2	0	1	0	1	0	2	0	2	0	1	2	7	5	1	2	4	5	rs142375074	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:119927408C>T	uc001ehq.1	+	5	645	c.293C>T	c.(292-294)GCG>GTG	p.A98V	HAO2_uc001ehr.1_Missense_Mutation_p.A98V	NM_001005783	NP_001005783	Q9NYQ3	HAOX2_HUMAN	hydroxyacid oxidase 2	98	FMN hydroxy acid dehydrogenase.				fatty acid alpha-oxidation	peroxisome	(S)-2-hydroxy-acid oxidase activity			ovary(2)|skin(2)	4	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.0155)|LUSC - Lung squamous cell carcinoma(189;0.0856)		GCTGCCCAAGCGGCTGGTATC	0.547													27	46					0	0	1	0	0		T	119927408	T	T	119927408	3	4	89	1	0	0	0	0	1	0	0	0	6968	768	27	1	303	1	HAO2	1	119927408	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	351822	119927408	129323213	366	54197											
HSD3B1	3283	broad.mit.edu	37	chr1	120056677	120056677	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggaatctgaaaaacggCggcaccctgtacacttgtgc	10	8	13	10	2	1	1	0	1	1	0	1	2	1	2	1	4	3	2	1	4	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:120056677C>T	uc001ehv.1	+	4	676	c.531C>T	c.(529-531)GGC>GGT	p.G177G	HSD3B1_uc001ehw.2_Silent_p.G179G	NM_000862	NP_000853	P14060	3BHS1_HUMAN	3 beta-hydroxysteroid dehydrogenase 1	177					androgen biosynthetic process|estrogen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.219)	all_lung(203;3.16e-06)|Lung NSC(69;2.19e-05)|all_epithelial(167;0.000624)		Lung(183;0.0106)|LUSC - Lung squamous cell carcinoma(189;0.0554)	NADH(DB00157)|Trilostane(DB01108)	TGAAAAACGGCGGCACCCTGT	0.512													63	89					0	0	1	0	0		T	120056677	T	T	120056677	2	4	89	1	0	0	0	0	0	0	0	1	7406	755	27	1		1	HSD3B1	1	120056677	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	129269	120056677	129193944	367	54198											
HMGCS2	3158	broad.mit.edu	37	chr1	120298174	120298174	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagaggcctttagaagtgCtttatccaggtccttgttgg	7	14	12	8	0	0	2	0	1	0	2	2	3	2	2	3	3	1	2	3	3	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:120298174C>A	uc001eid.2	-	6	1114	c.1063G>T	c.(1063-1065)GCA>TCA	p.A355S	HMGCS2_uc010oxj.1_Missense_Mutation_p.A313S|HMGCS2_uc001eie.2_Missense_Mutation_p.A263S	NM_005518	NP_005509	P54868	HMCS2_HUMAN	hydroxymethylglutaryl-CoA synthase 2 isoform 1	355					acetoacetic acid biosynthetic process|cholesterol biosynthetic process|isoprenoid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA synthase activity			ovary(2)	2	all_cancers(5;6.38e-10)|all_epithelial(5;1.1e-10)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;1.29e-06)|Lung NSC(69;9.35e-06)|all_epithelial(167;0.00124)		Lung(183;0.0112)|LUSC - Lung squamous cell carcinoma(189;0.0595)		TTTAGAAGTGCTTTATCCAGG	0.537													159	428					5.60145e-70	6.99178e-70	1	1	0		A	120298174	A	A	120298174	3	1	89	1	0	0	0	0	1	0	0	0	7249	797	28	5	479	5	HMGCS2	1	120298174	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	241497	120298174	128952447	368	54199											
NBPF7	343505	broad.mit.edu	37	chr1	120381959	120381959	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggctatttgaataagtgAtggcacattcctccagtgag	11	12	10	8	0	0	3	0	3	0	0	2	3	2	3	2	2	0	2	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:120381959A>C	uc010oxk.1	-	5	1307	c.686T>G	c.(685-687)ATC>AGC	p.I229S		NM_001047980	NP_001041445	P0C2Y1	NBPF7_HUMAN	hypothetical protein LOC343505	229	NBPF 1.					cytoplasm				ovary(1)|skin(1)	2	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;3.66e-05)|Lung NSC(69;0.000192)|all_epithelial(167;0.0347)		Lung(183;0.0103)|LUSC - Lung squamous cell carcinoma(189;0.0544)		TGAATAAGTGATGGCACATTC	0.458													53	158					0	0	1	0	0		C	120381959	C	C	120381959	3	2	89	1	0	0	0	0	1	0	0	0	10217	333	12	5	594	5	NBPF7	1	120381959	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	83785	120381959	128868662	369	54200											
NBPF7	343505	broad.mit.edu	37	chr1	120386979	120386979	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttgagttacaagaaatttCtgcttcatgtttctgaactg	11	17	7	6	0	3	3	1	2	2	1	3	3	3	3	0	0	3	3	0	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:120386979C>T	uc010oxk.1	-	1	801	c.180G>A	c.(178-180)CAG>CAA	p.Q60Q		NM_001047980	NP_001041445	P0C2Y1	NBPF7_HUMAN	hypothetical protein LOC343505	60						cytoplasm				ovary(1)|skin(1)	2	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;3.66e-05)|Lung NSC(69;0.000192)|all_epithelial(167;0.0347)		Lung(183;0.0103)|LUSC - Lung squamous cell carcinoma(189;0.0544)		CAAGAAATTTCTGCTTCATGT	0.438											OREG0013730	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	108					0	0	1	0	0		T	120386979	T	T	120386979	2	4	89	1	0	0	0	0	0	0	0	1	10217	912	32	4		4	NBPF7	1	120386979	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5020	120386979	128863642	370	54201											
NOTCH2	4853	broad.mit.edu	37	chr1	120480508	120480508	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggctgctatgtcacaagaGacattgggcacgtcacaata	13	8	11	9	1	2	1	2	0	0	1	2	3	2	1	0	2	1	3	0	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:120480508G>A	uc001eik.2	-	20	3565	c.3309C>T	c.(3307-3309)GTC>GTT	p.V1103V	NOTCH2_uc001eil.2_Silent_p.V1103V	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1103	EGF-like 29.|Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGTCACAAGAGACATTGGGCA	0.488			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				17	46					0	0	1	0	0		A	120480508	A	A	120480508	2	1	89	1	0	0	0	0	0	0	0	1	10567	929	33	4		4	NOTCH2	1	120480508	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	93529	120480508	128770113	371	54202											
PPIAL4G	644591	broad.mit.edu	37	chr1	143767602	143767602	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgaggttctcatcatcaaAtttctccccatagatggact	11	13	7	10	0	4	2	3	1	2	1	6	4	4	3	2	2	0	1	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:143767602A>C	uc001ejt.2	-	1	280	c.247T>G	c.(247-249)TTT>GTT	p.F83V		NM_001123068	NP_001116540	A2BFH1	PAL4G_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	83	PPIase cyclophilin-type.				protein folding	cytoplasm	peptidyl-prolyl cis-trans isomerase activity				0						TCATCATCAAATTTCTCCCCA	0.473													16	304					0	0	1	0	0		C	143767602	C	C	143767602	3	2	89	1	0	0	0	0	1	0	0	0	12340	101	4	5	251	5	PPIAL4G	1	143767602	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	23287094	143767602	105483019	372	54203											
NBPF9	400818	broad.mit.edu	37	chr1	144618133	144618133	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagagctgacgcagttaaaGgagaagttacaggaagggag	15	5	16	5	2	0	3	0	1	0	2	0	7	0	5	0	3	2	4	0	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:144618133G>T	uc009wig.1	+	6	406	c.330G>T	c.(328-330)AAG>AAT	p.K110N	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Intron|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Missense_Mutation_p.K41N|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Missense_Mutation_p.K41N|NBPF9_uc010oyg.1_Missense_Mutation_p.K75N|NBPF9_uc009wii.1_Translation_Start_Site	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	110	Potential.					cytoplasm					0						CGCAGTTAAAGGAGAAGTTAC	0.507													38	516					7.77372e-23	9.28856e-23	1	1	0		T	144618133	T	T	144618133	3	4	89	1	0	0	0	0	1	0	0	0	10218	991	35	5	338	5	NBPF9	1	144618133	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	850531	144618133	104632488	373	54204											
PDE4DIP	9659	broad.mit.edu	37	chr1	144854531	144854531	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctacgctggctgacaatGaactgttccatgctctcctt	9	12	7	13	1	1	2	0	2	1	0	3	2	2	2	3	1	4	4	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:144854531G>T	uc001elw.3	-	42	7230	c.6939C>A	c.(6937-6939)TTC>TTA	p.F2313L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.F2207L|PDE4DIP_uc001elv.3_Missense_Mutation_p.F1320L	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	2313					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GGCTGACAATGAACTGTTCCA	0.527			T	PDGFRB	MPD								28	268					8.16721e-17	9.41672e-17	1	1	0		T	144854531	T	T	144854531	3	4	89	1	0	0	0	0	1	0	0	0	11662	1281	45	5	113	5	PDE4DIP	1	144854531	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	236398	144854531	104396090	374	54205											
PDE4DIP	9659	broad.mit.edu	37	chr1	144923689	144923689	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agggcatagtactaatcataCcttgttggtggcctctgttt	8	15	10	8	0	2	0	1	0	1	0	2	0	2	0	2	3	2	4	2	3	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:144923689C>T	uc001elw.3	-	6	1059	c.768_splice	c.e6+1	p.K256_splice	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Splice_Site_p.K322_splice|PDE4DIP_uc001emc.1_Splice_Site_p.K256_splice|PDE4DIP_uc001emd.1_Splice_Site_p.K256_splice|PDE4DIP_uc001emb.1_Splice_Site_p.K419_splice|PDE4DIP_uc001eme.1_5'Flank|PDE4DIP_uc001emf.1_Splice_Site_p.K43_splice	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform						cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		ACTAATCATACCTTGTTGGTG	0.458			T	PDGFRB	MPD								46	286					0	0	1	0	0		T	144923689	T	T	144923689	5	4	89	1	0	0	0	0	0	0	1	0	11662	521	18	4	6437	4	PDE4DIP	1	144923689	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	69158	144923689	104326932	375	54206											
PDE4DIP	9659	broad.mit.edu	37	chr1	144955243	144955243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatccagatgctgtttcttgTcctggagttctcgtttcaag	6	17	9	9	1	3	1	1	0	2	1	6	2	5	2	2	1	1	4	2	1	2	5	rs142987550		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:144955243T>C	uc001elw.3	-	2	482	c.191A>G	c.(190-192)GAC>GGC	p.D64G	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.D130G|PDE4DIP_uc001emc.1_Missense_Mutation_p.D64G|PDE4DIP_uc001emd.1_Missense_Mutation_p.D64G|PDE4DIP_uc001emg.1_Missense_Mutation_p.D64G|PDE4DIP_uc001emh.2_Missense_Mutation_p.D201G	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	64	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CTGTTTCTTGTCCTGGAGTTC	0.403			T	PDGFRB	MPD								28	39					0	0	1	0	0		C	144955243	C	C	144955243	3	2	89	1	0	0	0	0	1	0	0	0	11662	1667	58	3	8164	3	PDE4DIP	1	144955243	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	31554	144955243	104295378	376	54207											
PDE4DIP	9659	broad.mit.edu	37	chr1	145075016	145075016	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggattgattttagaaggaacTtgtcctgcatggcctccatc	9	13	10	9	0	0	2	0	1	0	1	3	4	2	4	3	3	2	1	3	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:145075016T>G	uc001emk.2	-	2	495	c.278A>C	c.(277-279)AAG>ACG	p.K93T	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001emh.2_Intron			Q5VU43	MYOME_HUMAN	SubName: Full=Phosphodiesterase 4D interacting protein;	Error:Variant_position_missing_in_Q5VU43_after_alignment					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TAGAAGGAACTTGTCCTGCAT	0.493			T	PDGFRB	MPD								9	80					0	0	1	0	0		G	145075016	G	G	145075016	3	3	89	1	0	0	0	0	1	0	0	0	11662	1624	56	5		5	PDE4DIP	1	145075016	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	119773	145075016	104175605	377	54208											
SEC22B	9554	broad.mit.edu	37	chr1	145103956	145103956	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcaggctaagtaactctttCgaaagttgaatgaacagtcc	13	11	9	8	1	2	2	1	2	1	0	4	3	3	2	1	1	2	3	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:145103956C>T	uc001eml.1	+	4	264	c.124C>T	c.(124-126)CGA>TGA	p.R42*	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron	NM_004892	NP_004883	O75396	SC22B_HUMAN	SEC22 vesicle trafficking protein homolog B	42	Longin.|Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|melanosome	protein binding				0						GTAACTCTTTCGAAAGTTGAA	0.388													12	40					0	0	1	0	0		T	145103956	T	T	145103956	4	4	89	1	0	0	0	0	0	1	0	0	14014	876	31	1	130	1	SEC22B	1	145103956	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28940	145103956	104146665	378	54209											
NBPF10	100132406	broad.mit.edu	37	chr1	145325967	145325967	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaggctcagcagggagctGctggatgagaaagggcctga	10	6	16	9	0	1	2	1	2	0	1	2	5	2	4	2	4	3	4	2	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:145325967G>C	uc001end.3	+	32	4100	c.4065G>C	c.(4063-4065)CTG>CTC	p.L1355L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF10_uc001emp.3_Intron|NBPF10_uc010oyi.1_Intron|NBPF10_uc010oyk.1_Intron|NBPF10_uc010oyl.1_Intron|NBPF10_uc001enc.2_Intron|NBPF10_uc010oym.1_Intron|NBPF10_uc010oyn.1_Intron|NBPF10_uc010oyo.1_Intron|NBPF10_uc010oyp.1_Intron	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	1280											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		GCAGGGAGCTGCTGGATGAGA	0.478													25	81					0	0	1	0	0		C	145325967	C	C	145325967	2	2	89	1	0	0	0	0	0	0	0	1	10211	1306	46	5		5	NBPF10	1	145325967	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	222011	145325967	103924654	379	54210											
NBPF10	100132406	broad.mit.edu	37	chr1	145368509	145368509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcactggatagatgttattCgactccgtcaatgtactttg	9	15	8	9	2	2	1	2	0	0	1	4	3	3	2	1	1	1	2	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:145368509C>T	uc001end.3	+	86	10747	c.10712C>T	c.(10711-10713)TCG>TTG	p.S3571L	NBPF9_uc010oye.1_Missense_Mutation_p.S855L|NBPF10_uc001emp.3_Intron|NBPF10_uc010oyi.1_Missense_Mutation_p.S424L|NBPF10_uc010oyk.1_Missense_Mutation_p.S212L|NBPF10_uc010oyl.1_Missense_Mutation_p.S212L	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	3496											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		AGATGTTATTCGACTCCGTCA	0.463													142	463					0	0	1	0	0		T	145368509	T	T	145368509	3	4	89	1	0	0	0	0	1	0	0	0	10211	893	31	1	10821	1	NBPF10	1	145368509	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	42542	145368509	103882112	380	54211											
HFE2	148738	broad.mit.edu	37	chr1	145415691	145415691	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcttgcattgcgcttccttCggggacccccatgtgcgcag	4	12	11	14	3	1	0	0	0	1	0	3	1	2	1	3	2	3	3	3	2	0	5	rs139281553	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:145415691C>T	uc001eni.2	+	3	835	c.510C>T	c.(508-510)TTC>TTT	p.F170F	NBPF10_uc001emp.3_Intron|HFE2_uc001enj.2_Intron|HFE2_uc001enk.2_Silent_p.F57F|HFE2_uc001enl.2_Intron	NM_213653	NP_998818	Q6ZVN8	RGMC_HUMAN	hemojuvelin isoform a precursor	170			F -> S (in HFE2A).		axon guidance	anchored to membrane				ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GCGCTTCCTTCGGGGACCCCC	0.612													63	63					0	0	1	0	0		T	145415691	T	T	145415691	2	4	89	1	0	0	0	0	0	0	0	1	7098	883	31	1		1	HFE2	1	145415691	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	47182	145415691	103834930	381	54212											
HFE2	148738	broad.mit.edu	37	chr1	145416773	145416773	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttctggtgatcccaactTtaccgtggcagctcaggcag	9	11	10	11	1	2	1	1	1	1	0	3	1	3	1	2	3	3	3	2	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:145416773T>G	uc001eni.2	+	4	1443	c.1118T>G	c.(1117-1119)TTT>TGT	p.F373C	NBPF10_uc001emp.3_Intron|HFE2_uc001enj.2_Missense_Mutation_p.F147C|HFE2_uc001enk.2_Missense_Mutation_p.F260C|HFE2_uc001enl.2_Missense_Mutation_p.F147C	NM_213653	NP_998818	Q6ZVN8	RGMC_HUMAN	hemojuvelin isoform a precursor	373					axon guidance	anchored to membrane				ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GATCCCAACTTTACCGTGGCA	0.517													31	64					0	0	1	0	0		G	145416773	G	G	145416773	3	3	89	1	0	0	0	0	1	0	0	0	7098	1841	64	5	1128	5	HFE2	1	145416773	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1082	145416773	103833848	382	54213											
FMO5	2330	broad.mit.edu	37	chr1	146672742	146672742	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggtcacttacctttaaatAcctgagtggcccagcgtcct	9	12	8	12	1	1	1	1	1	0	0	2	1	2	1	4	2	3	0	4	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:146672742A>G	uc001epi.2	-	7	1564	c.1175T>C	c.(1174-1176)GTA>GCA	p.V392A	FMO5_uc001eph.3_Missense_Mutation_p.V392A|FMO5_uc001epj.2_Intron	NM_001461	NP_001452	P49326	FMO5_HUMAN	flavin containing monooxygenase 5 isoform 1	392						integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			ovary(3)	3	all_hematologic(923;0.0487)					ACCTTTAAATACCTGAGTGGC	0.393													47	45					0	0	1	0	0		G	146672742	G	G	146672742	3	3	89	1	0	0	0	0	1	0	0	0	5972	391	14	3	581	3	FMO5	1	146672742	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1255969	146672742	102577879	383	54214											
FMO5	2330	broad.mit.edu	37	chr1	146683979	146683979	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctgcttggctgtttggctAatctctacagccagatcccc	7	12	8	14	0	1	1	0	0	1	1	3	1	2	1	4	2	3	4	4	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:146683979A>G	uc001epi.2	-	5	1001	c.612T>C	c.(610-612)ATT>ATC	p.I204I	FMO5_uc001eph.3_Silent_p.I204I|FMO5_uc001epj.2_Silent_p.I204I|FMO5_uc001epk.3_Silent_p.I204I	NM_001461	NP_001452	P49326	FMO5_HUMAN	flavin containing monooxygenase 5 isoform 1	204						integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			ovary(3)	3	all_hematologic(923;0.0487)					CTGTTTGGCTAATCTCTACAG	0.443													84	85					0	0	1	0	0		G	146683979	G	G	146683979	2	3	89	1	0	0	0	0	0	0	0	1	5972	358	13	3		3	FMO5	1	146683979	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	11237	146683979	102566642	384	54215											
BCL9	607	broad.mit.edu	37	chr1	147091096	147091096	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttttcctgatgagaaaGaattcacaggagcacaaagt	14	11	9	7	0	1	3	1	2	0	2	2	5	2	4	1	1	2	2	1	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:147091096G>T	uc001epq.2	+	8	1875	c.1135G>T	c.(1135-1137)GAA>TAA	p.E379*	BCL9_uc010ozr.1_Nonsense_Mutation_p.E305*	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	379	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					TGATGAGAAAGAATTCACAGG	0.527			T	IGH@|IGL@	B-ALL								48	186					1.51926e-22	1.8124e-22	1	1	0		T	147091096	T	T	147091096	4	4	89	1	0	0	0	0	0	1	0	0	1382	943	33	5	1153	5	BCL9	1	147091096	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	407117	147091096	102159525	385	54216											
SV2A	9900	broad.mit.edu	37	chr1	149879607	149879607	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacatacttgtcattgaagtActgcccgcctcggtggatct	8	12	9	12	2	2	1	1	1	1	0	3	2	2	2	2	2	3	1	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:149879607A>G	uc001etg.2	-	9	2022	c.1531T>C	c.(1531-1533)TAC>CAC	p.Y511H	SV2A_uc009wlk.2_5'Flank|SV2A_uc001eth.2_Missense_Mutation_p.Y511H	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	511	Extracellular (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	TCATTGAAGTACTGCCCGCCT	0.478													74	73					0	0	1	0	0		G	149879607	G	G	149879607	3	3	89	1	0	0	0	0	1	0	0	0	15442	391	14	3	717	3	SV2A	1	149879607	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2788511	149879607	99371014	386	54217											
PLEKHO1	51177	broad.mit.edu	37	chr1	150128372	150128372	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatcatagcaagtttactcTtgcccactccaaacagcccg	13	9	5	14	1	2	0	1	0	1	0	3	0	3	0	3	0	5	2	3	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:150128372T>G	uc001ett.2	+	3	568	c.290T>G	c.(289-291)CTT>CGT	p.L97R	PLEKHO1_uc001etr.2_5'UTR|PLEKHO1_uc001ets.2_5'UTR|PLEKHO1_uc001etu.2_5'UTR	NM_016274	NP_057358	Q53GL0	PKHO1_HUMAN	pleckstrin homology domain containing, family O	97	PH.					cytoplasm|nucleus|plasma membrane				lung(1)	1	Lung NSC(24;7.78e-28)|Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			AAGTTTACTCTTGCCCACTCC	0.502													19	101					0	0	1	0	0		G	150128372	G	G	150128372	3	3	89	1	0	0	0	0	1	0	0	0	12103	1609	56	5	300	5	PLEKHO1	1	150128372	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	248765	150128372	99122249	387	54218											
ANP32E	81611	broad.mit.edu	37	chr1	150204192	150204192	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catactcagaaattctagttCtttgaaagtatcattcaggc	13	14	6	8	0	5	2	3	1	2	1	5	2	5	2	0	1	1	2	0	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:150204192C>A	uc001etw.2	-	2	497	c.127G>T	c.(127-129)GAA>TAA	p.E43*	ANP32E_uc010pbu.1_5'UTR|ANP32E_uc010pbv.1_Nonsense_Mutation_p.E43*|ANP32E_uc001etv.3_Nonsense_Mutation_p.E43*|ANP32E_uc010pbw.1_Nonsense_Mutation_p.E43*	NM_030920	NP_112182	Q9BTT0	AN32E_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32	43	LRR 2.					cytoplasmic membrane-bounded vesicle|nucleus	phosphatase inhibitor activity				0	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			AATTCTAGTTCTTTGAAAGTA	0.398													38	99					6.19805e-25	7.45915e-25	1	1	0		A	150204192	A	A	150204192	4	1	89	1	0	0	0	0	0	1	0	0	709	922	32	5	703	5	ANP32E	1	150204192	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	75820	150204192	99046429	388	54219											
ECM1	1893	broad.mit.edu	37	chr1	150485203	150485203	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttcacaccaacatagtaAacatattcctgggctgatcc	12	11	5	13	0	1	1	1	1	0	0	3	1	3	1	4	1	2	2	4	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:150485203A>C	uc001eus.2	+	9	1506	c.1307A>C	c.(1306-1308)AAA>ACA	p.K436T	ECM1_uc001eut.2_Missense_Mutation_p.K311T|ECM1_uc001euu.2_Missense_Mutation_p.K465T|ECM1_uc001euv.2_Missense_Mutation_p.K463T|ECM1_uc009wlu.2_Missense_Mutation_p.K196T	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	436					angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CAACATAGTAAACATATTCCT	0.517													90	309					0	0	1	0	0		C	150485203	C	C	150485203	3	2	89	1	0	0	0	0	1	0	0	0	4903	14	1	5	1341	5	ECM1	1	150485203	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	281011	150485203	98765418	389	54220											
ARNT	405	broad.mit.edu	37	chr1	150784538	150784538	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagttagatcagggaattCttcattgttgtagctgttgc	9	16	10	6	0	3	1	2	0	1	1	3	2	3	2	0	1	2	5	0	1	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:150784538C>A	uc001evr.1	-	22	2472	c.2329G>T	c.(2329-2331)GAA>TAA	p.E777*	ARNT_uc010pck.1_Nonsense_Mutation_p.E265*|ARNT_uc001evs.1_Nonsense_Mutation_p.E762*|ARNT_uc009wmb.1_Nonsense_Mutation_p.E763*|ARNT_uc009wmc.1_Nonsense_Mutation_p.E775*|ARNT_uc009wmd.1_Nonsense_Mutation_p.E761*	NM_001668	NP_001659	P27540	ARNT_HUMAN	aryl hydrocarbon receptor nuclear translocator	777					positive regulation of hormone biosynthetic process|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hypoxia		aryl hydrocarbon receptor binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity			skin(4)|lung(3)|central_nervous_system(1)|kidney(1)	9	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.02)|BRCA - Breast invasive adenocarcinoma(12;0.00606)|LUSC - Lung squamous cell carcinoma(543;0.211)			TCAGGGAATTCTTCATTGTTG	0.403			T	ETV6	AML								15	97					3.51602e-12	3.88498e-12	1	1	0		A	150784538	A	A	150784538	4	1	89	1	0	0	0	0	0	1	0	0	966	922	32	5	44	5	ARNT	1	150784538	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	299335	150784538	98466083	390	54221											
SETDB1	9869	broad.mit.edu	37	chr1	150902487	150902487	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgaaggacttctactccaAgctgggactacaataccggg	11	8	12	10	1	1	1	0	1	1	0	2	3	2	3	2	4	4	1	2	4	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:150902487A>C	uc001evu.2	+	3	495	c.305A>C	c.(304-306)AAG>ACG	p.K102T	SETDB1_uc009wmf.2_Missense_Mutation_p.K102T|SETDB1_uc001evv.2_Missense_Mutation_p.K102T|SETDB1_uc001evw.3_Missense_Mutation_p.K102T|SETDB1_uc009wmg.1_Missense_Mutation_p.K102T	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	102					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			TTCTACTCCAAGCTGGGACTA	0.428													105	74					0	0	1	0	0		C	150902487	C	C	150902487	3	2	89	1	0	0	0	0	1	0	0	0	14163	72	3	5	311	5	SETDB1	1	150902487	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	117949	150902487	98348134	391	54222											
SETDB1	9869	broad.mit.edu	37	chr1	150915523	150915523	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaccaaacgtcaaaaacaAgctcaggtacctggacagag	17	4	9	11	1	2	1	2	0	0	1	2	3	2	2	2	2	4	2	2	2	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:150915523A>C	uc001evu.2	+	7	1059	c.869A>C	c.(868-870)AAG>ACG	p.K290T	SETDB1_uc009wmf.2_Missense_Mutation_p.K290T|SETDB1_uc001evv.2_Missense_Mutation_p.K290T|SETDB1_uc001evw.3_Missense_Mutation_p.K290T|SETDB1_uc009wmg.1_Missense_Mutation_p.K290T	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	290	Tudor 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			GTCAAAAACAAGCTCAGGTAC	0.512													52	115					0	0	1	0	0		C	150915523	C	C	150915523	3	2	89	1	0	0	0	0	1	0	0	0	14163	72	3	5	891	5	SETDB1	1	150915523	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	13036	150915523	98335098	392	54223											
LASS2	29956	broad.mit.edu	37	chr1	150941396	150941396	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaggctggcatgcttacagCtcaaagaagtatcgaacgat	13	9	11	8	2	1	1	1	0	0	1	2	3	1	1	0	2	4	6	0	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:150941396C>T	uc001evy.2	-	2	558	c.171G>A	c.(169-171)GAG>GAA	p.E57E	LASS2_uc001evz.2_Silent_p.E57E|LASS2_uc009wmh.2_Intron	NM_181746	NP_859530	Q96G23	CERS2_HUMAN	LAG1 longevity assurance 2	57	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity				0	all_lung(15;8.07e-35)|Lung NSC(24;7.93e-31)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			ATGCTTACAGCTCAAAGAAGT	0.498													27	118					0	0	1	0	0		T	150941396	T	T	150941396	2	4	89	1	0	0	0	0	0	0	0	1	8655	796	28	2		2	LASS2	1	150941396	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	25873	150941396	98309225	393	54224											
FAM63A	55793	broad.mit.edu	37	chr1	150975200	150975200	+	Translation_Start_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacctgtccaataagaaggaAatcagtgggctggaaagcaa	16	6	12	7	0	1	1	1	0	0	1	2	4	2	3	2	3	1	2	2	3	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:150975200A>C	uc001ewf.2	-	3	1578	c.-106T>G	c.(-108--104)ATTTC>ATGTC		FAM63A_uc001ewc.2_Intron|FAM63A_uc010pcm.1_Intron|FAM63A_uc001ewd.2_Intron|FAM63A_uc001ewe.2_Intron|FAM63A_uc010pcn.1_Intron|FAM63A_uc001ewg.2_Translation_Start_Site	NM_018379	NP_001156731	Q8N5J2	FA63A_HUMAN	hypothetical protein LOC55793 isoform 1								protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			ATAAGAAGGAAATCAGTGGGC	0.488													16	8					0	0	1	0	0		C	150975200	C	C	150975200	1	2	89	1	0	0	0	0	0	0	0	0	5610	29	1	5		5	FAM63A	1	150975200	Translation_Start_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	33804	150975200	98275421	394	54225											
ZNF687	57592	broad.mit.edu	37	chr1	151260153	151260153	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggctggggactgggggAcagaaggtgaatggtgcctc	8	6	20	7	0	0	2	0	1	0	1	1	4	0	4	1	7	1	2	1	7	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:151260153A>C	uc001exq.2	+	2	1484	c.1386A>C	c.(1384-1386)GGA>GGC	p.G462G	ZNF687_uc001exp.1_Silent_p.G471G|ZNF687_uc009wmo.2_Silent_p.G462G|ZNF687_uc009wmp.2_Silent_p.G462G	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	462					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GGACTGGGGGACAGAAGGTGA	0.612													24	72					0	0	1	0	0		C	151260153	C	C	151260153	2	2	89	1	0	0	0	0	0	0	0	1	18117	262	10	5		5	ZNF687	1	151260153	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	284953	151260153	97990468	395	54226											
ZNF687	57592	broad.mit.edu	37	chr1	151260430	151260430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcacggcactatgaccgtCggagcatgcgcatcgaggtc	8	7	14	12	5	0	1	0	1	0	0	3	3	0	2	1	4	2	4	1	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:151260430C>T	uc001exq.2	+	2	1761	c.1663C>T	c.(1663-1665)CGG>TGG	p.R555W	ZNF687_uc001exp.1_Missense_Mutation_p.R564W|ZNF687_uc009wmo.2_Missense_Mutation_p.R555W|ZNF687_uc009wmp.2_Missense_Mutation_p.R555W	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	555					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CTATGACCGTCGGAGCATGCG	0.627													75	57					0	0	1	0	0		T	151260430	T	T	151260430	3	4	89	1	0	0	0	0	1	0	0	0	18117	875	31	1	1665	1	ZNF687	1	151260430	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	277	151260430	97990191	396	54227											
RFX5	5993	broad.mit.edu	37	chr1	151315152	151315152	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttgctgtatcctctataTcctgctttgctgctttagct	5	18	6	12	0	1	0	0	0	1	0	3	0	3	0	2	0	5	6	2	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:151315152T>C	uc001exv.1	-	11	1575	c.1361A>G	c.(1360-1362)GAT>GGT	p.D454G	RFX5_uc001exw.1_Missense_Mutation_p.D454G|RFX5_uc009wmr.1_Missense_Mutation_p.D454G|RFX5_uc010pcx.1_Missense_Mutation_p.D414G	NM_001025603	NP_001020774	P48382	RFX5_HUMAN	regulatory factor X, 5	454						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			ATCCTCTATATCCTGCTTTGC	0.532													171	415					0	0	1	0	0		C	151315152	C	C	151315152	3	2	89	1	0	0	0	0	1	0	0	0	13291	1435	50	3	493	3	RFX5	1	151315152	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	54722	151315152	97935469	397	54228											
SELENBP1	8991	broad.mit.edu	37	chr1	151338253	151338253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taggcactcacctggcatttCgggcagcagccagcccttca	8	8	10	15	1	2	0	2	0	0	0	3	0	2	0	3	3	3	4	3	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:151338253C>T	uc001exx.2	-	8	960	c.913G>A	c.(913-915)GAA>AAA	p.E305K	SELENBP1_uc010pcy.1_Missense_Mutation_p.E347K|SELENBP1_uc001exy.2_Missense_Mutation_p.E202K|SELENBP1_uc001exz.2_Missense_Mutation_p.E202K|SELENBP1_uc010pcz.1_Missense_Mutation_p.E243K|SELENBP1_uc009wms.2_Missense_Mutation_p.E141K|SELENBP1_uc009wmt.2_Missense_Mutation_p.E202K|SELENBP1_uc001eya.2_Missense_Mutation_p.E241K|SELENBP1_uc009wmu.2_Missense_Mutation_p.E202K	NM_003944	NP_003935	Q13228	SBP1_HUMAN	selenium binding protein 1	305				EM -> GV (in Ref. 1; AAB02395).	protein transport	cytosol|membrane|nucleolus	protein binding|selenium binding				0	Lung SC(34;0.00471)|Ovarian(49;0.00871)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CCTGGCATTTCGGGCAGCAGC	0.567													83	261					0	0	1	0	0		T	151338253	T	T	151338253	3	4	89	1	0	0	0	0	1	0	0	0	14039	893	31	1	525	1	SELENBP1	1	151338253	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	23101	151338253	97912368	398	54229											
PSMB4	5692	broad.mit.edu	37	chr1	151372650	151372650	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtatttgaagcaagttCtcggccagatggtgtaagtc	10	12	11	8	1	1	2	0	1	1	1	4	2	2	2	2	2	1	4	2	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:151372650C>A	uc001eyc.1	+	2	357	c.334C>A	c.(334-336)CTC>ATC	p.L112I	PSMB4_uc010pda.1_Missense_Mutation_p.L112I|PSMB4_uc001eyb.1_Missense_Mutation_p.L112I	NM_002796	NP_002787	P28070	PSB4_HUMAN	proteasome beta 4 subunit	112					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity			ovary(2)	2	Lung SC(34;0.00471)|Ovarian(49;0.00871)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GAAGCAAGTTCTCGGCCAGAT	0.517													47	180					8.20599e-20	9.66132e-20	1	1	0		A	151372650	A	A	151372650	3	1	89	1	0	0	0	0	1	0	0	0	12701	913	32	5	340	5	PSMB4	1	151372650	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34397	151372650	97877971	399	54230											
POGZ	23126	broad.mit.edu	37	chr1	151378310	151378310	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacagcccactcataggaGatcttaaaccccccttccaa	12	7	5	17	1	2	1	1	0	1	1	3	2	3	1	5	1	2	1	5	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:151378310G>T	uc001eyd.1	-	19	3507	c.3201C>A	c.(3199-3201)ATC>ATA	p.I1067I	POGZ_uc001eye.1_Silent_p.I1014I|POGZ_uc010pdb.1_Silent_p.I1058I|POGZ_uc001eyf.1_Silent_p.I1023I|POGZ_uc010pdc.1_Silent_p.I1005I|POGZ_uc009wmv.1_Silent_p.I972I|POGZ_uc010pdd.1_Silent_p.I558I	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1067	HTH CENPB-type.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			ACTCATAGGAGATCTTAAACC	0.552													21	89					1.22574e-08	1.30575e-08	1	1	0		T	151378310	T	T	151378310	2	4	89	1	0	0	0	0	0	0	0	1	12205	932	33	5		5	POGZ	1	151378310	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5660	151378310	97872311	400	54231											
CGN	57530	broad.mit.edu	37	chr1	151492667	151492667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcaactccagacctccttcGagaccagcaggaggcagccc	11	5	9	16	1	1	2	1	0	0	2	4	4	3	3	5	2	3	2	5	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:151492667G>A	uc009wmw.2	+	3	1043	c.899G>A	c.(898-900)CGA>CAA	p.R300Q		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	294	Interacts with ZO-2.|Head.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			GACCTCCTTCGAGACCAGCAG	0.453													15	45					0	0	1	0	0		A	151492667	A	A	151492667	3	1	89	1	0	0	0	0	1	0	0	0	3306	1058	37	1	905	1	CGN	1	151492667	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	114357	151492667	97757954	401	54232											
CELF3	11189	broad.mit.edu	37	chr1	151688369	151688369	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacccttgtgcagcccggtgTacttgtccttgatgacagtc	6	12	10	13	1	0	2	0	2	0	0	2	2	1	2	3	1	3	2	3	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:151688369T>C	uc001eys.1	-	1	922	c.128A>G	c.(127-129)TAC>TGC	p.Y43C	CELF3_uc001eyr.2_Missense_Mutation_p.Y43C|CELF3_uc009wmy.2_Missense_Mutation_p.Y43C|CELF3_uc009wmx.1_Missense_Mutation_p.Y43C|CELF3_uc001eyt.2_5'UTR|CELF3_uc010pdi.1_Missense_Mutation_p.Y43C|C1orf230_uc001eyu.2_Intron	NM_007185	NP_009116	Q5SZQ8	CELF3_HUMAN	trinucleotide repeat containing 4	43	RRM 1.				nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	mRNA binding|nucleotide binding			ovary(1)|central_nervous_system(1)	2						CAGCCCGGTGTACTTGTCCTT	0.607													51	73					0	0	1	0	0		C	151688369	C	C	151688369	3	2	89	1	0	0	0	0	1	0	0	0	3220	1638	57	3	1325	3	CELF3	1	151688369	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	195702	151688369	97562252	402	54233											
TCHHL1	126637	broad.mit.edu	37	chr1	152057614	152057614	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggctgtagttgaaaaaGacagaacaatctgagatctc	14	10	10	7	0	2	4	0	2	2	3	3	5	2	4	0	1	1	4	0	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152057614G>T	uc001ezo.1	-	3	2609	c.2544C>A	c.(2542-2544)GTC>GTA	p.V848V		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	848							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			AGTTGAAAAAGACAGAACAAT	0.507													27	110					6.12954e-19	7.17843e-19	1	1	0		T	152057614	T	T	152057614	2	4	89	1	0	0	0	0	0	0	0	1	15726	929	33	5		5	TCHHL1	1	152057614	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	369245	152057614	97193007	403	54234											
TCHHL1	126637	broad.mit.edu	37	chr1	152060019	152060019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacagcatgaaggacacaggGctgcatgaaaacacagtgag	16	4	12	9	0	0	3	0	3	0	0	0	4	0	4	0	2	3	3	0	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152060019G>A	uc001ezo.1	-	3	204	c.139C>T	c.(139-141)CCC>TCC	p.P47S		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	47							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			AGGACACAGGGCTGCATGAAA	0.373													31	84					0	0	1	0	0		A	152060019	A	A	152060019	3	1	89	1	0	0	0	0	1	0	0	0	15726	1217	42	2	2579	2	TCHHL1	1	152060019	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2405	152060019	97190602	404	54235											
TCHH	7062	broad.mit.edu	37	chr1	152081316	152081316	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgcggaattttctgtgAcgctcctggcgcagctgctg	4	13	12	12	4	2	1	0	1	2	0	4	2	3	2	1	2	2	4	1	2	1	3	rs143332338	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152081316A>G	uc001ezp.2	-	2	4377	c.4377T>C	c.(4375-4377)CGT>CGC	p.R1459R	TCHH_uc009wne.1_Silent_p.R1459R	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1459	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATTTTCTGTGACGCTCCTGGC	0.547													128	104					0	0	1	0	0		G	152081316	G	G	152081316	2	3	89	1	0	0	0	0	0	0	0	1	15725	262	10	3		3	TCHH	1	152081316	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	21297	152081316	97169305	405	54236											
HRNR	388697	broad.mit.edu	37	chr1	152185824	152185824	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagatccagccccatgtcGgccatagccagaagactgac	11	5	10	15	1	0	4	0	1	0	3	2	4	1	4	6	1	2	0	6	1	2	1	rs137986007	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152185824G>A	uc001ezt.1	-	3	8357	c.8281C>T	c.(8281-8283)CGA>TGA	p.R2761*		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2761	30.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCCCCATGTCGGCCATAGCCA	0.597													144	118					0	0	1	0	0		A	152185824	A	A	152185824	4	1	89	1	0	0	0	0	0	1	0	0	7375	1124	39	1	275	1	HRNR	1	152185824	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	104508	152185824	97064797	406	54237											
HRNR	388697	broad.mit.edu	37	chr1	152187700	152187700	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcctgatctagagccgtgTtgtccgtagccagaggagtg	7	11	14	9	2	1	3	0	1	1	2	3	4	3	4	4	1	2	2	4	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152187700T>C	uc001ezt.1	-	3	6481	c.6405A>G	c.(6403-6405)CAA>CAG	p.Q2135Q		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2135					keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TAGAGCCGTGTTGTCCGTAGC	0.567													91	544					0	0	1	0	0		C	152187700	C	C	152187700	2	2	89	1	0	0	0	0	0	0	0	1	7375	1722	60	3		3	HRNR	1	152187700	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1876	152187700	97062921	407	54238											
HRNR	388697	broad.mit.edu	37	chr1	152188414	152188414	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacctagagccgtgttgttcGtagctggaggagtgacctga	8	10	15	8	2	0	3	0	2	0	1	1	6	0	5	3	2	2	4	3	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152188414G>A	uc001ezt.1	-	3	5767	c.5691C>T	c.(5689-5691)TAC>TAT	p.Y1897Y		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1897	21.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGTGTTGTTCGTAGCTGGAGG	0.537													160	506					0	0	1	0	0		A	152188414	A	A	152188414	2	1	89	1	0	0	0	0	0	0	0	1	7375	1140	40	1		1	HRNR	1	152188414	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	714	152188414	97062207	408	54239											
FLG	2312	broad.mit.edu	37	chr1	152275925	152275925	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactgttcctcattacgtgTttctctgcttgcacttctgg	4	18	8	11	1	3	1	1	1	2	0	5	1	4	1	1	1	3	4	1	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152275925T>C	uc001ezu.1	-	3	11473	c.11437A>G	c.(11437-11439)ACA>GCA	p.T3813A		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3813	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCATTACGTGTTTCTCTGCTT	0.572									Ichthyosis				160	581					0	0	1	0	0		C	152275925	C	C	152275925	3	2	89	1	0	0	0	0	1	0	0	0	5936	1725	60	3	752	3	FLG	1	152275925	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	87511	152275925	96974696	409	54240											
FLG	2312	broad.mit.edu	37	chr1	152276355	152276355	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtctgagtcttctgaatgTccctcactgtcactggcctg	5	14	10	12	0	5	2	2	2	3	0	6	2	6	2	2	1	0	0	2	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152276355T>C	uc001ezu.1	-	3	11043	c.11007A>G	c.(11005-11007)GGA>GGG	p.G3669G		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3669	Filaggrin 22.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTTCTGAATGTCCCTCACTGT	0.592									Ichthyosis				140	316					0	0	1	0	0		C	152276355	C	C	152276355	2	2	89	1	0	0	0	0	0	0	0	1	5936	1654	58	3		3	FLG	1	152276355	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	430	152276355	96974266	410	54241											
FLG	2312	broad.mit.edu	37	chr1	152279605	152279605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catgatggtttctggaagcaGacccagaccacctctcagag	11	8	10	12	0	2	4	1	1	2	3	3	5	2	5	3	2	1	2	3	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152279605G>A	uc001ezu.1	-	3	7793	c.7757C>T	c.(7756-7758)TCT>TTT	p.S2586F		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2586	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTGGAAGCAGACCCAGACCA	0.552									Ichthyosis				144	139					0	0	1	0	0		A	152279605	A	A	152279605	3	1	89	1	0	0	0	0	1	0	0	0	5936	942	33	4	4432	4	FLG	1	152279605	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3250	152279605	96971016	411	54242											
FLG	2312	broad.mit.edu	37	chr1	152285754	152285754	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgagtgtccagacctattTaccgattgctcgtggtggga	7	12	12	10	2	0	2	0	1	0	1	2	4	1	3	4	2	2	1	4	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152285754T>C	uc001ezu.1	-	3	1644	c.1608A>G	c.(1606-1608)GTA>GTG	p.V536V	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	536	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CAGACCTATTTACCGATTGCT	0.587									Ichthyosis				197	582					0	0	1	0	0		C	152285754	C	C	152285754	2	2	89	1	0	0	0	0	0	0	0	1	5936	1741	61	3		3	FLG	1	152285754	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6149	152285754	96964867	412	54243											
FLG	2312	broad.mit.edu	37	chr1	152286132	152286132	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacccccggtgtccacgatcGctgactgcagatgaagcttg	8	8	12	13	3	0	3	0	2	0	1	2	5	1	3	3	1	2	3	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152286132G>A	uc001ezu.1	-	3	1266	c.1230C>T	c.(1228-1230)AGC>AGT	p.S410S	uc001ezv.2_RNA	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	410	Ser-rich.|Filaggrin 2.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTCCACGATCGCTGACTGCAG	0.577									Ichthyosis				372	299					0	0	1	0	0		A	152286132	A	A	152286132	2	1	89	1	0	0	0	0	0	0	0	1	5936	1078	38	1		1	FLG	1	152286132	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	378	152286132	96964489	413	54244											
FLG	2312	broad.mit.edu	37	chr1	152286754	152286754	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttctttctcttcaagtCtttcacttagcctcttccta	5	20	3	13	0	7	0	2	0	5	0	9	0	8	0	2	0	1	0	2	0	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152286754C>A	uc001ezu.1	-	3	644	c.608G>T	c.(607-609)AGA>ATA	p.R203I	uc001ezv.2_Intron	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	203	Potential.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTCTTCAAGTCTTTCACTTAG	0.323									Ichthyosis				68	50					1.85257e-25	2.23411e-25	1	1	0		A	152286754	A	A	152286754	3	1	89	1	0	0	0	0	1	0	0	0	5936	913	32	5	11581	5	FLG	1	152286754	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	622	152286754	96963867	414	54245											
CRNN	49860	broad.mit.edu	37	chr1	152382288	152382288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccttctgtcacacagcGccttgggtgagtgctgctcc	4	11	11	15	1	2	1	1	1	1	0	3	1	3	1	3	1	4	2	3	1	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152382288G>A	uc001ezx.2	-	3	1344	c.1270C>T	c.(1270-1272)CGC>TGC	p.R424C		NM_016190	NP_057274	Q9UBG3	CRNN_HUMAN	cornulin	424					cell-cell adhesion|response to heat	cytoplasm|membrane	calcium ion binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTCACACAGCGCCTTGGGTGA	0.602													26	90					0	0	1	0	0		A	152382288	A	A	152382288	3	1	89	1	0	0	0	0	1	0	0	0	3895	1087	38	1	221	1	CRNN	1	152382288	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	95534	152382288	96868333	415	54246											
KPRP	448834	broad.mit.edu	37	chr1	152732460	152732460	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caacctgttcagacttgcttCgtagaatgtgctccagtttg	8	14	9	10	1	1	2	1	0	0	2	3	2	2	2	2	0	3	5	2	0	3	5	rs146826460	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152732460C>T	uc001fal.1	+	2	454	c.396C>T	c.(394-396)TTC>TTT	p.F132F		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	132	Gln-rich.					cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGACTTGCTTCGTAGAATGTG	0.478													216	173					0	0	1	0	0		T	152732460	T	T	152732460	2	4	89	1	0	0	0	0	0	0	0	1	8452	883	31	1		1	KPRP	1	152732460	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	350172	152732460	96518161	416	54247											
LCE1B	353132	broad.mit.edu	37	chr1	152784956	152784956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaaccagcagcagtgccagCcccctcccaagtgcatcccc	10	4	8	19	0	0	1	0	0	0	1	2	1	2	1	7	0	6	3	7	0	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152784956C>T	uc001faq.2	+	1	510	c.34C>T	c.(34-36)CCC>TCC	p.P12S		NM_178349	NP_848126	Q5T7P3	LCE1B_HUMAN	late cornified envelope 1B	12	Pro-rich.				keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GCAGTGCCAGCCccctcccaa	0.483													106	98					0	0	1	0	0		T	152784956	T	T	152784956	3	4	89	1	0	0	0	0	1	0	0	0	8676	739	26	2	36	2	LCE1B	1	152784956	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	52496	152784956	96465665	417	54248											
SMCP	4184	broad.mit.edu	37	chr1	152856943	152856943	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgctgcccagcaaaaggCaatcaatgctgcccaccaca	15	5	7	14	0	1	0	1	0	0	0	1	0	1	0	3	1	5	4	3	1	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152856943C>T	uc001fat.2	+	2	190	c.45C>T	c.(43-45)GGC>GGT	p.G15G		NM_030663	NP_109588	P49901	MCSP_HUMAN	sperm mitochondria-associated cysteine-rich	15	2.|7 X 7 (OR 8) AA approximate repeats.				penetration of zona pellucida|sperm motility	mitochondrial membrane					0	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			CAGCAAAAGGCAATCAATGCT	0.458													35	113					0	0	1	0	0		T	152856943	T	T	152856943	2	4	89	1	0	0	0	0	0	0	0	1	14814	697	25	2		2	SMCP	1	152856943	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	71987	152856943	96393678	418	54249											
SPRR3	6707	broad.mit.edu	37	chr1	152975767	152975767	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtccctgagccaggctgtAccaaggtccctgagccaggt	8	7	13	13	0	0	2	0	2	0	0	2	2	2	2	5	4	3	2	5	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:152975767A>G	uc001fax.3	+	3	421	c.271A>G	c.(271-273)ACC>GCC	p.T91A	SPRR3_uc001faz.3_Missense_Mutation_p.T91A|SPRR3_uc001fay.2_Missense_Mutation_p.T83A	NM_005416	NP_005407	Q9UBC9	SPRR3_HUMAN	small proline-rich protein 3	91	7.|14 X 8 AA approximate tandem repeats.				keratinization|peptide cross-linking|wound healing	cytoplasm	protein binding|structural molecule activity			skin(1)	1	Lung NSC(65;1.49e-28)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GCCAGGCTGTACCAAGGTCCC	0.592													19	97					0	0	1	0	0		G	152975767	G	G	152975767	3	3	89	1	0	0	0	0	1	0	0	0	15128	391	14	3	273	3	SPRR3	1	152975767	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	118824	152975767	96274854	419	54250											
SPRR2A	6700	broad.mit.edu	37	chr1	153029005	153029005	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaagctgttacttgctcttCggtggatactttgactggca	7	15	11	8	1	1	2	0	2	1	0	2	3	1	3	0	3	4	4	0	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:153029005C>T	uc001fbd.2	-	2	268	c.207G>A	c.(205-207)CCG>CCA	p.P69P	SPRR2D_uc009wnz.2_Intron|SPRR2A_uc001fbf.2_RNA|SPRR2A_uc009woa.2_RNA	NM_005988	NP_005979	P35326	SPR2A_HUMAN	small proline-rich protein 2A	69					keratinization	cornified envelope|cytoplasm	binding			ovary(1)	1	Lung NSC(65;1.49e-28)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			ACTTGCTCTTCGGTGGATACT	0.517													46	146					0	0	1	0	0		T	153029005	T	T	153029005	2	4	89	1	0	0	0	0	0	0	0	1	15122	871	31	1		1	SPRR2A	1	153029005	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	53238	153029005	96221616	420	54251											
PGLYRP4	57115	broad.mit.edu	37	chr1	153314133	153314133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttgtcttctgccgaggggCcaggcagttctcgcctttcc	3	12	12	14	2	3	0	0	0	3	0	5	1	4	0	4	3	1	3	4	3	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:153314133C>T	uc001fbo.2	-	6	660	c.595G>A	c.(595-597)GCC>ACC	p.A199T	PGLYRP4_uc001fbp.2_Missense_Mutation_p.A195T	NM_020393	NP_065126	Q96LB8	PGRP4_HUMAN	peptidoglycan recognition protein-I-beta	199					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(3)|skin(1)	4	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGCCGAGGGGCCAGGCAGTTC	0.547													44	124					0	0	1	0	0		T	153314133	T	T	153314133	3	4	89	1	0	0	0	0	1	0	0	0	11815	739	26	2	542	2	PGLYRP4	1	153314133	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	285128	153314133	95936488	421	54252											
S100A7A	338324	broad.mit.edu	37	chr1	153391694	153391694	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggataagaagattgattTttctgagtttctgtccttgc	9	17	10	5	0	2	5	0	3	2	2	3	6	3	6	1	1	1	1	1	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:153391694T>G	uc001fbt.1	+	3	272	c.215T>G	c.(214-216)TTT>TGT	p.F72C		NM_176823	NP_789793	Q86SG5	S1A7A_HUMAN	S100 calcium binding protein A7-like 1	72	2; high affinity (Potential).|EF-hand 2.					cytoplasm	calcium ion binding			skin(1)	1	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			AAGATTGATTTTTCTGAGTTT	0.478													61	39					0	0	1	0	0		G	153391694	G	G	153391694	3	3	89	1	0	0	0	0	1	0	0	0	13809	1841	64	5	221	5	S100A7A	1	153391694	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	77561	153391694	95858927	422	54253											
S100A7	6278	broad.mit.edu	37	chr1	153430395	153430395	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaatcttcttatcctcatTcttgtcctttttctcaaaga	9	19	2	11	0	6	1	3	0	4	1	9	1	8	1	2	0	0	0	2	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:153430395T>C	uc001fbv.1	-	3	264	c.193A>G	c.(193-195)AAT>GAT	p.N65D		NM_002963	NP_002954	P31151	S10A7_HUMAN	S100 calcium binding protein A7	65	2; high affinity.|EF-hand 2.				angiogenesis|defense response to Gram-negative bacterium|innate immune response|keratinocyte differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of granulocyte chemotaxis|positive regulation of monocyte chemotaxis|positive regulation of T cell chemotaxis|response to lipopolysaccharide|response to reactive oxygen species|sequestering of metal ion	cytosol|endoplasmic reticulum|extracellular region|focal adhesion|nucleus	calcium ion binding|RAGE receptor binding|zinc ion binding			skin(1)	1	all_lung(78;2.4e-33)|Lung NSC(65;8.13e-32)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			TTATCCTCATTCTTGTCCTTT	0.423													25	89					0	0	1	0	0		C	153430395	C	C	153430395	3	2	89	1	0	0	0	0	1	0	0	0	13808	1783	62	3	116	3	S100A7	1	153430395	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	38701	153430395	95820226	423	54254											
ILF2	3608	broad.mit.edu	37	chr1	153638198	153638198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttccccagggcagcaacaGcttccactaattgacagaaa	13	8	8	12	0	0	2	0	1	0	1	2	2	2	2	3	1	3	4	3	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:153638198G>A	uc001fcr.2	-	7	482	c.401C>T	c.(400-402)GCT>GTT	p.A134V	ILF2_uc010pdy.1_Missense_Mutation_p.A96V|ILF2_uc009wok.2_Intron|ILF2_uc009wol.1_Missense_Mutation_p.A96V	NM_004515	NP_004506	Q12905	ILF2_HUMAN	interleukin enhancer binding factor 2	134	DZF.				immune response|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|ribonucleoprotein complex	ATP binding|DNA binding|double-stranded RNA binding|protein binding|transferase activity				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGCAGCAACAGCTTCCACTAA	0.393													41	137					0	0	1	0	0		A	153638198	A	A	153638198	3	1	89	1	0	0	0	0	1	0	0	0	7727	971	34	2	803	2	ILF2	1	153638198	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	207803	153638198	95612423	424	54255											
NPR1	4881	broad.mit.edu	37	chr1	153662791	153662791	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggagtggtgggactgaaGatgccccgttactgtctctt	6	12	14	9	1	1	2	0	1	1	1	2	4	1	4	2	3	2	2	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:153662791G>T	uc001fcs.3	+	20	3385	c.2964G>T	c.(2962-2964)AAG>AAT	p.K988N	NPR1_uc010pdz.1_Missense_Mutation_p.K734N|NPR1_uc010pea.1_Missense_Mutation_p.K466N	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	988	Guanylate cyclase.|Cytoplasmic (Potential).				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	TGGGACTGAAGATGCCCCGTT	0.577													4	5					0.000602214	0.000612381	1	1	0		T	153662791	T	T	153662791	3	4	89	1	0	0	0	0	1	0	0	0	10613	933	33	5	3042	5	NPR1	1	153662791	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24593	153662791	95587830	425	54256											
INTS3	65123	broad.mit.edu	37	chr1	153719761	153719761	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctttcctttagttggtgTggttggtacgggaactggtg	4	16	14	7	1	1	0	0	0	1	0	2	1	2	1	2	5	2	3	2	5	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:153719761T>C	uc009wom.2	+	6	660	c.439T>C	c.(439-441)TGG>CGG	p.W147R	INTS3_uc001fct.2_Missense_Mutation_p.W147R|INTS3_uc001fcu.2_5'UTR|INTS3_uc001fcv.2_5'UTR	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	147					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TTAGTTGGTGTGGTTGGTACG	0.448													18	55					0	0	1	0	0		C	153719761	C	C	153719761	3	2	89	1	0	0	0	0	1	0	0	0	7795	1696	59	3	457	3	INTS3	1	153719761	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	56970	153719761	95530860	426	54257											
DENND4B	9909	broad.mit.edu	37	chr1	153913426	153913426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagcaggtctggccgcagcGagtggactagcagcttgtgc	7	8	16	10	2	1	1	0	1	1	0	1	3	1	2	1	3	5	4	1	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:153913426G>A	uc001fdd.1	-	9	1681	c.1280C>T	c.(1279-1281)TCG>TTG	p.S427L		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	427	DENN.									ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TGGCCGCAGCGAGTGGACTAG	0.637													9	9					0	0	1	0	0		A	153913426	A	A	153913426	3	1	89	1	0	0	0	0	1	0	0	0	4440	1059	37	1	3290	1	DENND4B	1	153913426	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	193665	153913426	95337195	427	54258											
RPS27	6232	broad.mit.edu	37	chr1	153963678	153963678	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagagccccaattcctacTtcatggatgtgaaatgccca	11	10	8	12	0	1	2	1	1	0	1	2	3	2	3	4	1	4	1	4	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:153963678T>G	uc001fdv.2	+	2	128	c.94T>G	c.(94-96)TTC>GTC	p.F32V		NM_001030	NP_001021	P42677	RS27_HUMAN	ribosomal protein S27	32					cell proliferation|endocrine pancreas development|mitotic prometaphase|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleus	DNA binding|structural constituent of ribosome|zinc ion binding				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			CAATTCCTACTTCATGGATGT	0.502													6	36					0	0	1	0	0		G	153963678	G	G	153963678	3	3	89	1	0	0	0	0	1	0	0	0	13663	1609	56	5	100	5	RPS27	1	153963678	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	50252	153963678	95286943	428	54259											
NUP210L	91181	broad.mit.edu	37	chr1	154026819	154026819	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcctattaacaacagccAcggtctgattactgatggag	11	10	8	12	1	1	2	0	2	1	0	2	3	2	3	3	2	4	0	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:154026819A>G	uc001fdw.2	-	25	3440	c.3368T>C	c.(3367-3369)GTG>GCG	p.V1123A	NUP210L_uc009woq.2_Missense_Mutation_p.V32A|NUP210L_uc010peh.1_Missense_Mutation_p.V1123A	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	1123						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			AACAACAGCCACGGTCTGATT	0.463													9	127					0	0	1	0	0		G	154026819	G	G	154026819	3	3	89	1	0	0	0	0	1	0	0	0	10780	159	6	3	2362	3	NUP210L	1	154026819	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	63141	154026819	95223802	429	54260											
NUP210L	91181	broad.mit.edu	37	chr1	154112362	154112362	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatcacatctccttgtttCtcctctttttccatctcagc	8	17	2	14	0	5	0	2	0	4	0	9	0	6	0	3	0	1	1	3	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:154112362C>A	uc001fdw.2	-	5	705	c.633G>T	c.(631-633)GAG>GAT	p.E211D	NUP210L_uc010peh.1_Missense_Mutation_p.E211D	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	211						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			CTCCTTGTTTCTCCTCTTTTT	0.353													276	246					8.34256e-132	1.04276e-131	1	1	0		A	154112362	A	A	154112362	3	1	89	1	0	0	0	0	1	0	0	0	10780	912	32	5	5177	5	NUP210L	1	154112362	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	85543	154112362	95138259	430	54261											
TPM3	7170	broad.mit.edu	37	chr1	154141803	154141803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggtcatgtcattgagggCgtggtccagctcctcgctaa	8	10	13	10	2	2	2	2	1	0	1	5	2	4	2	2	3	1	2	2	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:154141803C>T	uc001fec.1	-	9	947	c.832G>A	c.(832-834)GCC>ACC	p.A278T	TPM3_uc001fdx.1_Intron|TPM3_uc010pei.1_Intron|TPM3_uc001fdy.1_Intron|TPM3_uc001fdz.1_Intron|TPM3_uc001fea.1_Intron|TPM3_uc001feb.1_Intron|TPM3_uc010pej.1_Intron|TPM3_uc009wor.2_Intron|TPM3_uc001fed.1_Missense_Mutation_p.A241T	NM_152263	NP_689476	P06753	TPM3_HUMAN	tropomyosin 3 isoform 1	277	By similarity.				cellular component movement|muscle filament sliding|regulation of muscle contraction	cytosol|muscle thin filament tropomyosin|stress fiber	actin binding		TPM3/ALK(33)	haematopoietic_and_lymphoid_tissue(22)|soft_tissue(11)|skin(1)	34	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)					TCATTGAGGGCGTGGTCCAGC	0.532			T	NTRK1|ALK	papillary thyroid|ALCL								62	43					0	0	1	0	0		T	154141803	T	T	154141803	3	4	89	1	0	0	0	0	1	0	0	0	16433	768	27	1	204	1	TPM3	1	154141803	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	29441	154141803	95108818	431	54262											
TPM3	7170	broad.mit.edu	37	chr1	154163762	154163762	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccctttcagcttcttcTgcatggctgccagctcatcc	4	14	7	16	0	4	0	2	0	2	0	6	0	6	0	3	1	4	4	3	1	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:154163762T>G	uc001fec.1	-	2	258	c.143A>C	c.(142-144)CAG>CCG	p.Q48P		NM_152263	NP_689476	P06753	TPM3_HUMAN	tropomyosin 3 isoform 1	47	By similarity.				cellular component movement|muscle filament sliding|regulation of muscle contraction	cytosol|muscle thin filament tropomyosin|stress fiber	actin binding		TPM3/ALK(33)	haematopoietic_and_lymphoid_tissue(22)|soft_tissue(11)|skin(1)	34	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)					CAGCTTCTTCTGCATGGCTGC	0.517			T	NTRK1|ALK	papillary thyroid|ALCL								28	122					0	0	1	0	0		G	154163762	G	G	154163762	3	3	89	1	0	0	0	0	1	0	0	0	16433	1580	55	5	1137	5	TPM3	1	154163762	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	21959	154163762	95086859	432	54263											
UBAP2L	9898	broad.mit.edu	37	chr1	154228216	154228216	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatcttctgggcgcacttcGacatccactcttttggtaag	8	13	8	12	2	3	0	0	0	3	0	5	1	4	0	1	2	0	2	1	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:154228216G>A	uc001fep.3	+	18	2309	c.2142G>A	c.(2140-2142)TCG>TCA	p.S714S	UBAP2L_uc009wot.2_Silent_p.S714S|UBAP2L_uc010pek.1_Silent_p.S706S|UBAP2L_uc010pel.1_Silent_p.S724S|UBAP2L_uc010pen.1_Silent_p.S628S|UBAP2L_uc001feq.2_5'UTR|UBAP2L_uc001fer.2_5'Flank	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	714					binding of sperm to zona pellucida		protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GGCGCACTTCGACATCCACTC	0.433													18	210					0	0	1	0	0		A	154228216	A	A	154228216	2	1	89	1	0	0	0	0	0	0	0	1	16864	1045	37	1		1	UBAP2L	1	154228216	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	64454	154228216	95022405	433	54264											
ATP8B2	57198	broad.mit.edu	37	chr1	154315667	154315667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactttggttttgttttccGctctcgcacccccaaaacaa	9	13	6	13	2	1	0	0	0	1	0	3	1	2	0	3	1	2	4	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:154315667G>A	uc001fex.2	+	16	1631	c.1631G>A	c.(1630-1632)CGC>CAC	p.R544H		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	530	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TTTGTTTTCCGCTCTCGCACC	0.562													49	75					0	0	1	0	0		A	154315667	A	A	154315667	3	1	89	1	0	0	0	0	1	0	0	0	1196	1087	38	1	1823	1	ATP8B2	1	154315667	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	87451	154315667	94934954	434	54265											
TDRD10	126668	broad.mit.edu	37	chr1	154493951	154493951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccagcagcctcgggcccCgctggtatgtcttctggcct	4	10	12	15	2	2	0	0	0	2	0	4	1	3	0	5	3	2	3	5	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:154493951C>T	uc009wow.2	+	6	1203	c.365C>T	c.(364-366)CCG>CTG	p.P122L	TDRD10_uc001ffd.2_Missense_Mutation_p.P122L|TDRD10_uc001ffe.2_Missense_Mutation_p.P43L	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	122							nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			CCTCGGGCCCCGCTGGTATGT	0.527													55	231					0	0	1	0	0		T	154493951	T	T	154493951	3	4	89	1	0	0	0	0	1	0	0	0	15756	652	23	1	383	1	TDRD10	1	154493951	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	178284	154493951	94756670	435	54266											
TDRD10	126668	broad.mit.edu	37	chr1	154517377	154517377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcgcagcctagacagcgacGacttctggaccatcccaccc	9	6	9	17	3	1	1	0	0	1	1	2	4	2	2	4	1	3	1	4	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:154517377G>A	uc009wow.2	+	11	1742	c.904G>A	c.(904-906)GAC>AAC	p.D302N	TDRD10_uc001ffd.2_Missense_Mutation_p.D302N|TDRD10_uc001ffe.2_Missense_Mutation_p.D223N	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	302	Tudor.						nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGACAGCGACGACTTCTGGAC	0.552													17	84					0	0	1	0	0		A	154517377	A	A	154517377	3	1	89	1	0	0	0	0	1	0	0	0	15756	1058	37	1	942	1	TDRD10	1	154517377	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23426	154517377	94733244	436	54267											
CHRNB2	1141	broad.mit.edu	37	chr1	154543740	154543740	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcatcttctggctgccGcctgccatctacaagagcgc	7	8	11	15	2	3	1	0	0	3	1	3	1	3	1	3	2	5	3	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:154543740G>A	uc001ffg.2	+	5	705	c.441G>A	c.(439-441)CCG>CCA	p.P147P		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	147	Extracellular (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	TCTGGCTGCCGCCTGCCATCT	0.537													23	76					0	0	1	0	0		A	154543740	A	A	154543740	2	1	89	1	0	0	0	0	0	0	0	1	3394	1074	38	1		1	CHRNB2	1	154543740	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	26363	154543740	94706881	437	54268											
KCNN3	3782	broad.mit.edu	37	chr1	154685971	154685971	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagagtgttggcttggTcactcagcttcctctgttcc	5	13	9	14	0	3	1	2	0	1	1	5	1	5	1	4	2	1	4	4	2	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:154685971T>C	uc001ffp.2	-	7	2182	c.1868A>G	c.(1867-1869)GAC>GGC	p.D623G	KCNN3_uc001ffo.2_Missense_Mutation_p.D318G	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	628	Calmodulin-binding (By similarity).					integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			GTTGGCTTGGTCACTCAGCTT	0.537													23	73					0	0	1	0	0		C	154685971	C	C	154685971	3	2	89	1	0	0	0	0	1	0	0	0	8096	1667	58	3	335	3	KCNN3	1	154685971	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	142231	154685971	94564650	438	54269											
KCNN3	3782	broad.mit.edu	37	chr1	154744733	154744733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtaggagaaggccaggCgtgccgtccagaagaacttg	10	7	16	8	2	0	3	0	0	0	3	1	4	1	3	3	3	2	1	3	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:154744733C>T	uc001ffp.2	-	3	1480	c.1166G>A	c.(1165-1167)CGC>CAC	p.R389H	KCNN3_uc001ffo.2_Missense_Mutation_p.R84H|KCNN3_uc009wox.1_Missense_Mutation_p.R389H	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	394						integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			GAAGGCCAGGCGTGCCGTCCA	0.597													34	31					0	0	1	0	0		T	154744733	T	T	154744733	3	4	89	1	0	0	0	0	1	0	0	0	8096	768	27	1	1053	1	KCNN3	1	154744733	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	58762	154744733	94505888	439	54270											
FLAD1	80308	broad.mit.edu	37	chr1	154960706	154960706	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgaggtcacttctttCtccaaccgcttcacccatgt	7	12	7	15	1	4	1	2	1	2	0	5	1	4	1	3	1	2	3	3	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:154960706C>A	uc001fgf.1	+	2	852	c.498C>A	c.(496-498)TTC>TTA	p.F166L	FLAD1_uc001fgc.2_Missense_Mutation_p.F67L|FLAD1_uc001fgd.1_Missense_Mutation_p.F166L|FLAD1_uc001fge.1_Missense_Mutation_p.F69L|FLAD1_uc001fgg.1_Missense_Mutation_p.F69L|FLAD1_uc001fgh.1_5'UTR	NM_025207	NP_079483	Q8NFF5	FAD1_HUMAN	flavin adenine dinucleotide synthetase isoform	166	Molybdenum cofactor biosynthesis protein- like.				FAD biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|FMN adenylyltransferase activity			ovary(2)|skin(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TCACTTCTTTCTCCAACCGCT	0.567													39	124					1.90571e-15	2.17219e-15	1	1	0		A	154960706	A	A	154960706	3	1	89	1	0	0	0	0	1	0	0	0	5934	912	32	5	579	5	FLAD1	1	154960706	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	215973	154960706	94289915	440	54271											
FAM189B	10712	broad.mit.edu	37	chr1	155223732	155223732	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctggacagggccggaggAggggaacagagggacagcac	12	2	18	9	1	1	1	0	0	1	1	1	6	1	6	1	7	2	1	1	7	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:155223732A>G	uc001fjm.2	-	4	1037	c.431T>C	c.(430-432)CTC>CCC	p.L144P	RAG1AP1_uc010pey.1_Intron|FAM189B_uc009wql.2_5'Flank|FAM189B_uc001fjn.2_Intron|FAM189B_uc001fjo.2_Missense_Mutation_p.L125P|FAM189B_uc001fjp.2_Intron|FAM189B_uc001fjq.1_Missense_Mutation_p.L144P	NM_006589	NP_006580	P81408	F189B_HUMAN	hypothetical protein LOC10712 isoform a	144						integral to membrane	WW domain binding			ovary(1)|breast(1)	2						GGGCCGGAGGAGGGGAACAGA	0.607													26	76					0	0	1	0	0		G	155223732	G	G	155223732	3	3	89	1	0	0	0	0	1	0	0	0	5528	304	11	3	1611	3	FAM189B	1	155223732	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	263026	155223732	94026889	441	54272											
FDPS	2224	broad.mit.edu	37	chr1	155288068	155288068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctattacctgaacctgatcGagctcttcctgcaggtgtat	8	13	8	12	1	1	2	0	2	1	0	3	3	2	2	4	1	4	3	4	1	4	4	rs139546057		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:155288068G>A	uc001fkc.2	+	6	889	c.670G>A	c.(670-672)GAG>AAG	p.E224K	RAG1AP1_uc010pey.1_Intron|FDPS_uc001fkd.2_Missense_Mutation_p.E158K|FDPS_uc001fke.2_Missense_Mutation_p.E224K|FDPS_uc001fkf.2_Missense_Mutation_p.E158K|C1orf104_uc001fkh.1_RNA|RUSC1_uc001fkj.2_5'Flank|RUSC1_uc001fkk.2_5'Flank	NM_002004	NP_001995	P14324	FPPS_HUMAN	farnesyl diphosphate synthase isoform a	224					cholesterol biosynthetic process|interspecies interaction between organisms|isoprenoid biosynthetic process	cytosol|nucleus	dimethylallyltranstransferase activity|geranyltranstransferase activity|metal ion binding				0	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;2.03e-10)|all cancers(21;5.23e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)		Alendronate(DB00630)|Ibandronate(DB00710)|Pamidronate(DB00282)|Risedronate(DB00884)|Zoledronate(DB00399)	GAACCTGATCGAGCTCTTCCT	0.547													22	98					0	0	1	0	0		A	155288068	A	A	155288068	3	1	89	1	0	0	0	0	1	0	0	0	5817	1059	37	1	688	1	FDPS	1	155288068	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	64336	155288068	93962553	442	54273											
ASH1L	55870	broad.mit.edu	37	chr1	155319149	155319149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaagactttgagcatgtcaGcatcaaaagcttccactgtc	13	10	8	10	0	2	2	2	1	0	1	4	3	3	2	1	0	3	3	1	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:155319149G>A	uc009wqq.2	-	19	8018	c.7538C>T	c.(7537-7539)GCT>GTT	p.A2513V	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.A2508V|MIR555_hsa-mir-555|MI0003561_5'Flank	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2513	Bromo.				cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			GAGCATGTCAGCATCAAAAGC	0.368													61	61					0	0	1	0	0		A	155319149	A	A	155319149	3	1	89	1	0	0	0	0	1	0	0	0	1042	971	34	2	1411	2	ASH1L	1	155319149	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	31081	155319149	93931472	443	54274											
ASH1L	55870	broad.mit.edu	37	chr1	155448772	155448772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatccgaatttcacttaggcGacttattagttcctccagct	9	14	7	11	2	1	0	1	0	0	0	4	3	4	0	3	1	1	2	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:155448772G>A	uc009wqq.2	-	3	4369	c.3889C>T	c.(3889-3891)CGC>TGC	p.R1297C	ASH1L_uc001fkt.2_Missense_Mutation_p.R1297C|ASH1L_uc009wqr.1_Missense_Mutation_p.R1297C	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1297					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TCACTTAGGCGACTTATTAGT	0.393													131	106					0	0	1	0	0		A	155448772	A	A	155448772	3	1	89	1	0	0	0	0	1	0	0	0	1042	1058	37	1	5109	1	ASH1L	1	155448772	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	129623	155448772	93801849	444	54275											
MEX3A	92312	broad.mit.edu	37	chr1	156047038	156047038	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcgttttcattgttgtacTcgaggatcttgccagtgcgc	6	15	11	9	3	2	0	1	0	1	0	4	2	2	1	1	1	3	3	1	1	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156047038T>C	uc001fnd.3	-	2	890	c.890A>G	c.(889-891)GAG>GGG	p.E297G		NM_001093725	NP_001087194	A1L020	MEX3A_HUMAN	MEX3A protein	297						cytoplasmic mRNA processing body|nucleus	RNA binding|zinc ion binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					ATTGTTGTACTCGAGGATCTT	0.662													20	70					0	0	1	0	0		C	156047038	C	C	156047038	3	2	89	1	0	0	0	0	1	0	0	0	9527	1551	54	3	676	3	MEX3A	1	156047038	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	598266	156047038	93203583	445	54276											
PAQR6	79957	broad.mit.edu	37	chr1	156214957	156214957	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaaagagtgggaggttgtcGaacaggaatggataggcgaa	15	7	16	3	2	0	1	0	0	0	1	1	6	0	4	0	5	1	1	0	5	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156214957G>A	uc001fnu.1	-	6	655	c.585C>T	c.(583-585)TTC>TTT	p.F195F	PAQR6_uc010phf.1_Missense_Mutation_p.S62L|PAQR6_uc001fny.1_5'UTR|PAQR6_uc001fnv.1_Silent_p.F171F|PAQR6_uc010phg.1_Silent_p.F192F|PAQR6_uc001fnx.1_Silent_p.F89F|PAQR6_uc001fnw.1_Silent_p.F89F|PAQR6_uc001fnz.1_Silent_p.F89F|PAQR6_uc010phh.1_Silent_p.F195F|PAQR6_uc001foa.1_Silent_p.F89F|PAQR6_uc001fob.1_RNA	NM_198406	NP_940798	Q6TCH4	PAQR6_HUMAN	progestin and adipoQ receptor family member VI	195	Cytoplasmic (Potential).					integral to membrane	receptor activity				0	Hepatocellular(266;0.158)					GGAGGTTGTCGAACAGGAATG	0.607													22	96					0	0	1	0	0		A	156214957	A	A	156214957	2	1	89	1	0	0	0	0	0	0	0	1	11458	1049	37	1		1	PAQR6	1	156214957	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	167919	156214957	93035664	446	54277											
C1orf85	112770	broad.mit.edu	37	chr1	156263158	156263158	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagggcctgtggaagccccGaacgtcagattgaaggcaca	11	5	13	12	2	1	2	1	1	0	1	1	4	1	3	4	3	2	1	4	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156263158G>A	uc001foh.2	-	5	1021	c.1008C>T	c.(1006-1008)TTC>TTT	p.F336F	C1orf85_uc001fof.3_5'Flank|C1orf85_uc001fog.1_Intron|C1orf85_uc001foi.2_Silent_p.F287F|C1orf85_uc009wrx.2_Silent_p.F269F|C1orf85_uc001foj.2_Silent_p.F250F	NM_144580	NP_653181	Q8WWB7	NCUG1_HUMAN	kidney predominant protein NCU-G1 precursor	336	Lumenal (Potential).				positive regulation of transcription from RNA polymerase II promoter	cytosol|integral to membrane|lysosomal membrane|nucleus	ligand-dependent nuclear receptor activity|protein binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2	Hepatocellular(266;0.158)					TGGAAGCCCCGAACGTCAGAT	0.562													23	86					0	0	1	0	0		A	156263158	A	A	156263158	2	1	89	1	0	0	0	0	0	0	0	1	2065	1049	37	1		1	C1orf85	1	156263158	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	48201	156263158	92987463	447	54278											
CCT3	7203	broad.mit.edu	37	chr1	156279094	156279094	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcagtagcagaactgccgTctaggagaaaaaccacagat	15	6	10	10	2	1	3	0	0	1	3	2	4	1	3	2	1	4	3	2	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156279094T>C	uc001fol.1	-	14	1754	c.1534A>G	c.(1534-1536)ACG>GCG	p.T512A	CCT3_uc001fom.1_Missense_Mutation_p.T511A|CCT3_uc001fon.1_Missense_Mutation_p.T474A|CCT3_uc010phj.1_Missense_Mutation_p.T466A|CCT3_uc010phk.1_Missense_Mutation_p.T466A|CCT3_uc010phl.1_Missense_Mutation_p.T466A	NM_005998	NP_005989	P49368	TCPG_HUMAN	chaperonin containing TCP1, subunit 3 isoform a	512					'de novo' posttranslational protein folding	cytoskeleton|cytosol|plasma membrane	ATP binding|unfolded protein binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					AGAACTGCCGTCTAGGAGAAA	0.493													62	51					0	0	1	0	0		C	156279094	C	C	156279094	3	2	89	1	0	0	0	0	1	0	0	0	2957	1681	58	3	107	3	CCT3	1	156279094	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15936	156279094	92971527	448	54279											
RHBG	57127	broad.mit.edu	37	chr1	156339125	156339125	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagggcgccactgccgtcCtctttgctgtctttgtccgc	2	13	10	16	3	2	0	0	0	2	0	5	0	5	0	5	1	2	1	5	1	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156339125C>A	uc010pho.1	+	1	123	c.85C>A	c.(85-87)CTC>ATC	p.L29I	RHBG_uc010phm.1_Missense_Mutation_p.L29I|RHBG_uc010phn.1_RNA|RHBG_uc001fos.2_5'UTR|RHBG_uc009wrz.2_5'UTR|RHBG_uc001for.2_5'UTR	NM_020407	NP_065140	Q9H310	RHBG_HUMAN	Rhesus blood group, B glycoprotein	29	Helical; (Potential).				transepithelial ammonium transport	anchored to plasma membrane|basolateral plasma membrane|cytoplasmic vesicle membrane|integral to plasma membrane|spectrin-associated cytoskeleton	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			ovary(2)	2	Hepatocellular(266;0.158)					CACTGCCGTCCTCTTTGCTGT	0.627													15	49					6.72482e-11	7.33162e-11	1	1	0		A	156339125	A	A	156339125	3	1	89	1	0	0	0	0	1	0	0	0	13349	681	24	5	87	5	RHBG	1	156339125	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	60031	156339125	92911496	449	54280											
C1orf61	10485	broad.mit.edu	37	chr1	156376906	156376906	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccaagccaagagccaaaGagctggtgctatagccatat	14	7	10	10	0	0	2	0	0	0	2	0	2	0	2	4	1	6	2	4	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156376906G>T	uc001fou.1	-	6	506	c.389C>A	c.(388-390)TCT>TAT	p.S130Y	C1orf61_uc001fot.1_3'UTR|C1orf61_uc001fov.1_Intron|C1orf61_uc001fow.1_Intron|C1orf61_uc001fox.1_Intron	NM_006365	NP_006356	Q13536	CROC4_HUMAN	transcriptional activator of the c-fos promoter	130						nucleus				skin(1)	1	Hepatocellular(266;0.158)					aagagccaaagagctggtgct	0.129													19	57					1.67942e-08	1.78672e-08	1	1	0		T	156376906	T	T	156376906	3	4	89	1	0	0	0	0	1	0	0	0	2055	942	33	5	89	5	C1orf61	1	156376906	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	37781	156376906	92873715	450	54281											
IQGAP3	128239	broad.mit.edu	37	chr1	156520055	156520055	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaccagtccatttacttCtctgagctgtattagtgtcc	8	14	6	13	0	1	1	0	1	1	0	4	1	3	1	4	0	3	2	4	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156520055C>A	uc001fpf.2	-	16	1898	c.1823G>T	c.(1822-1824)AGA>ATA	p.R608I		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	608					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCATTTACTTCTCTGAGCTGT	0.592													25	23					5.35356e-11	5.83973e-11	1	1	0		A	156520055	A	A	156520055	3	1	89	1	0	0	0	0	1	0	0	0	7832	913	32	5	3164	5	IQGAP3	1	156520055	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	143149	156520055	92730566	451	54282											
IQGAP3	128239	broad.mit.edu	37	chr1	156533432	156533432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggccatatttggccagttCggacgccatgttgctgagtt	7	12	13	9	2	0	1	0	1	0	0	1	3	0	2	3	3	1	4	3	3	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156533432C>T	uc001fpf.2	-	7	607	c.532G>A	c.(532-534)GAA>AAA	p.E178K	IQGAP3_uc009wsb.1_Missense_Mutation_p.E135K	NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	178					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TTGGCCAGTTCGGACGCCATG	0.602													8	33					0	0	1	0	0		T	156533432	T	T	156533432	3	4	89	1	0	0	0	0	1	0	0	0	7832	893	31	1	4491	1	IQGAP3	1	156533432	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13377	156533432	92717189	452	54283											
BCAN	63827	broad.mit.edu	37	chr1	156616856	156616856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtacccagcgtcgctcaccGacgtctccctggcgctgagc	5	7	11	18	6	2	1	1	1	1	0	4	2	2	1	3	1	3	3	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156616856G>A	uc001fpp.2	+	3	691	c.355G>A	c.(355-357)GAC>AAC	p.D119N	BCAN_uc001fpo.2_Missense_Mutation_p.D119N	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	119	Ig-like V-type.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTCGCTCACCGACGTCTCCCT	0.672													16	23					0	0	1	0	0		A	156616856	A	A	156616856	3	1	89	1	0	0	0	0	1	0	0	0	1346	1058	37	1	361	1	BCAN	1	156616856	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	83424	156616856	92633765	453	54284											
BCAN	63827	broad.mit.edu	37	chr1	156616943	156616943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acggcatcgatgacagcagcGacgctgtggaggtcaaggtc	10	6	15	10	4	1	1	1	1	0	0	3	4	1	2	0	4	2	3	0	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156616943G>A	uc001fpp.2	+	3	778	c.442G>A	c.(442-444)GAC>AAC	p.D148N	BCAN_uc001fpo.2_Missense_Mutation_p.D148N	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	148	Ig-like V-type.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGACAGCAGCGACGCTGTGGA	0.532													13	32					0	0	1	0	0		A	156616943	A	A	156616943	3	1	89	1	0	0	0	0	1	0	0	0	1346	1058	37	1	448	1	BCAN	1	156616943	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	87	156616943	92633678	454	54285											
BCAN	63827	broad.mit.edu	37	chr1	156627954	156627954	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccctgggcagcctgacagCtacttcctgtctggagagaa	10	8	11	12	0	1	2	0	1	1	1	2	4	2	3	3	2	4	2	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156627954C>T	uc001fpp.2	+	12	2664	c.2328C>T	c.(2326-2328)AGC>AGT	p.S776S		NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	776	C-type lectin.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGCCTGACAGCTACTTCCTGT	0.587											OREG0013880	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	75					0	0	1	0	0		T	156627954	T	T	156627954	2	4	89	1	0	0	0	0	0	0	0	1	1346	796	28	2		2	BCAN	1	156627954	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11011	156627954	92622667	455	54286											
NES	10763	broad.mit.edu	37	chr1	156641598	156641598	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcaagaggtctagctatCtcctggtcaagagacttcag	10	13	9	9	0	5	2	3	0	2	2	6	3	5	2	1	2	1	1	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156641598C>A	uc001fpq.2	-	4	2515	c.2382G>T	c.(2380-2382)GAG>GAT	p.E794D		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	794	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTCTAGCTATCTCCTGGTCAA	0.428													47	44					1.61863e-15	1.84754e-15	1	1	0		A	156641598	A	A	156641598	3	1	89	1	0	0	0	0	1	0	0	0	10356	912	32	5	2487	5	NES	1	156641598	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13644	156641598	92609023	456	54287											
C1orf66	51093	broad.mit.edu	37	chr1	156705540	156705540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgcagcgggggctacagcGagtggggctagatccccagc	7	6	17	11	2	0	1	0	0	0	1	1	2	1	1	2	4	5	3	2	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:156705540G>A	uc001fpu.2	+	7	1779	c.1145G>A	c.(1144-1146)CGA>CAA	p.R382Q	C1orf66_uc001fpv.2_Silent_p.A220A	NM_015997	NP_057081	Q96FB5	RRNAD_HUMAN	hypothetical protein LOC51093 isoform 1	382						integral to membrane	rRNA (adenine-N6,N6-)-dimethyltransferase activity				0	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GGGCTACAGCGAGTGGGGCTA	0.547													29	88					0	0	1	0	0		A	156705540	A	A	156705540	3	1	89	1	0	0	0	0	1	0	0	0	2059	1058	37	1	1171	1	C1orf66	1	156705540	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	63942	156705540	92545081	457	54288											
FCRL5	83416	broad.mit.edu	37	chr1	157514687	157514687	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccttatatccagtacagcGatatgcaccattgtccttga	10	14	6	11	1	0	1	0	1	0	0	3	2	3	1	4	0	3	2	4	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:157514687G>A	uc001fqu.2	-	4	651	c.493C>T	c.(493-495)CGC>TGC	p.R165C	FCRL5_uc009wsm.2_Missense_Mutation_p.R165C|FCRL5_uc010phv.1_Missense_Mutation_p.R165C|FCRL5_uc010phw.1_Missense_Mutation_p.R80C|FCRL5_uc001fqv.1_Missense_Mutation_p.R165C|FCRL5_uc010phx.1_5'UTR	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	165	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				CCAGTACAGCGATATGCACCA	0.368													128	99					0	0	1	0	0		A	157514687	A	A	157514687	3	1	89	1	0	0	0	0	1	0	0	0	5812	1058	37	1	2496	1	FCRL5	1	157514687	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	809147	157514687	91735934	458	54289											
FCRL2	79368	broad.mit.edu	37	chr1	157719465	157719465	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcattagtggcagaactttCtcctgaaatgcaaataaaac	15	12	6	8	0	2	2	1	1	1	1	3	2	2	2	1	1	3	2	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:157719465C>A	uc001fre.2	-	8	1341	c.1282G>T	c.(1282-1284)GAA>TAA	p.E428*	FCRL2_uc001frd.2_Nonsense_Mutation_p.E175*|FCRL2_uc010phz.1_Nonsense_Mutation_p.E428*|FCRL2_uc009wsp.2_Nonsense_Mutation_p.E144*	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	428	Cytoplasmic (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GCAGAACTTTCTCCTGAAATG	0.328													22	59					5.45024e-15	6.18484e-15	1	1	0		A	157719465	A	A	157719465	4	1	89	1	0	0	0	0	0	1	0	0	5809	922	32	5	264	5	FCRL2	1	157719465	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	204778	157719465	91531156	459	54290											
FCRL2	79368	broad.mit.edu	37	chr1	157740375	157740375	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaagccatcttctgaattTtccagttctgttctccctgg	6	16	8	11	0	4	1	0	1	4	0	6	1	5	1	3	2	1	3	3	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:157740375T>G	uc001fre.2	-	3	193	c.134A>C	c.(133-135)AAA>ACA	p.K45T	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Missense_Mutation_p.K45T|FCRL2_uc009wsp.2_Missense_Mutation_p.K45T|FCRL2_uc010pia.1_Missense_Mutation_p.K45T	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	45	Ig-like C2-type 1.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CTTCTGAATTTTCCAGTTCTG	0.428													7	81					0	0	1	0	0		G	157740375	G	G	157740375	3	3	89	1	0	0	0	0	1	0	0	0	5809	1841	64	5	1432	5	FCRL2	1	157740375	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	20910	157740375	91510246	460	54291											
FCRL1	115350	broad.mit.edu	37	chr1	157767670	157767670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgtctcacctgctactgattCctgctccggctggttatagt	5	15	9	12	1	1	1	1	1	1	0	4	1	3	1	3	2	3	4	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:157767670C>T	uc001frg.2	-	9	1287	c.1174G>A	c.(1174-1176)GAA>AAA	p.E392K	FCRL1_uc001frf.2_Intron|FCRL1_uc001frh.2_Missense_Mutation_p.E392K|FCRL1_uc001fri.2_Intron|FCRL1_uc001frj.2_RNA	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	392	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GCTACTGATTCCTGCTCCGGC	0.483													58	53					0	0	1	0	0		T	157767670	T	T	157767670	3	4	89	1	0	0	0	0	1	0	0	0	5808	864	30	4	193	4	FCRL1	1	157767670	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27295	157767670	91482951	461	54292											
CD1D	912	broad.mit.edu	37	chr1	158151317	158151317	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcagctggacgcgcaccgAcggcttggcgtggctggggg	5	6	19	11	5	0	0	0	0	0	0	0	2	0	1	1	6	2	5	1	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158151317A>G	uc001frr.2	+	3	633	c.134A>G	c.(133-135)GAC>GGC	p.D45G	CD1D_uc009wsr.1_Missense_Mutation_p.D45G|CD1D_uc009wss.2_Missense_Mutation_p.D45G|CD1D_uc009wst.1_5'UTR	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	45	Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					ACGCGCACCGACGGCTTGGCG	0.637													69	236					0	0	1	0	0		G	158151317	G	G	158151317	3	3	89	1	0	0	0	0	1	0	0	0	2980	275	10	3	140	3	CD1D	1	158151317	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	383647	158151317	91099304	462	54293											
CD1B	910	broad.mit.edu	37	chr1	158299693	158299693	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggacgcccaagagatatcGggggcaggtttcatagagga	12	6	16	7	2	1	2	1	0	0	2	2	6	1	4	1	5	0	2	1	5	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158299693G>A	uc001frx.2	-	3	664	c.556C>T	c.(556-558)CGA>TGA	p.R186*	CD1B_uc001frw.2_Nonsense_Mutation_p.R79*	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	186	Extracellular (Potential).|Ig-like.				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					AAGAGATATCGGGGGCAGGTT	0.463													139	112					0	0	1	0	0		A	158299693	A	A	158299693	4	1	89	1	0	0	0	0	0	1	0	0	2978	1124	39	1	461	1	CD1B	1	158299693	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	148376	158299693	90950928	463	54294											
OR6Y1	391112	broad.mit.edu	37	chr1	158517116	158517116	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgggcataggtgaaaagTgtcatggaatagaagagaat	16	7	15	3	1	1	3	1	1	0	2	1	6	1	5	0	4	0	1	0	4	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158517116T>G	uc010pil.1	-	1	780	c.780A>C	c.(778-780)ACA>ACC	p.T260T		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	260	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AGGTGAAAAGTGTCATGGAAT	0.498													38	124					0	0	1	0	0		G	158517116	G	G	158517116	2	3	89	1	0	0	0	0	0	0	0	1	11232	1683	59	5		5	OR6Y1	1	158517116	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	217423	158517116	90733505	464	54295											
SPTA1	6708	broad.mit.edu	37	chr1	158592868	158592868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcagcagagcggcataacGctcttcaatggctttagact	10	11	9	11	2	3	2	2	0	1	2	3	2	3	2	0	2	3	4	0	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158592868G>A	uc001fst.1	-	43	6224	c.6025C>T	c.(6025-6027)CGT>TGT	p.R2009C		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2009	Spectrin 19.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					GCGGCATAACGCTCTTCAATG	0.502													108	489					0	0	1	0	0		A	158592868	A	A	158592868	3	1	89	1	0	0	0	0	1	0	0	0	15141	1087	38	1	1274	1	SPTA1	1	158592868	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	75752	158592868	90657753	465	54296											
SPTA1	6708	broad.mit.edu	37	chr1	158606495	158606495	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcttcttcagcaagttcTgaaccccctgaagatctctc	8	13	7	13	0	4	3	1	2	3	1	6	3	4	3	2	0	3	3	2	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158606495T>G	uc001fst.1	-	37	5445	c.5246A>C	c.(5245-5247)CAG>CCG	p.Q1749P		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1749	Spectrin 17.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CAGCAAGTTCTGAACCCCCTG	0.428													121	116					0	0	1	0	0		G	158606495	G	G	158606495	3	3	89	1	0	0	0	0	1	0	0	0	15141	1580	55	5	2077	5	SPTA1	1	158606495	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	13627	158606495	90644126	466	54297											
SPTA1	6708	broad.mit.edu	37	chr1	158621249	158621249	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttagccgaggctcattggTattcaaatcctgaatgggaa	11	11	10	9	1	2	1	2	1	0	0	3	3	3	2	3	3	1	2	3	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158621249T>C	uc001fst.1	-	24	3584	c.3385A>G	c.(3385-3387)ACC>GCC	p.T1129A		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1129	Spectrin 11.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					GGCTCATTGGTATTCAAATCC	0.413													48	146					0	0	1	0	0		C	158621249	C	C	158621249	3	2	89	1	0	0	0	0	1	0	0	0	15141	1638	57	3	3990	3	SPTA1	1	158621249	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	14754	158621249	90629372	467	54298											
SPTA1	6708	broad.mit.edu	37	chr1	158623098	158623098	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcctggcgctgggtgatgtTtcctggctcttctcgtcgcc	1	14	12	14	3	2	1	0	1	2	0	6	1	4	1	3	3	0	3	3	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158623098T>G	uc001fst.1	-	22	3353	c.3154A>C	c.(3154-3156)AAC>CAC	p.N1052H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1052					actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TGGGTGATGTTTCCTGGCTCT	0.522													83	97					0	0	1	0	0		G	158623098	G	G	158623098	3	3	89	1	0	0	0	0	1	0	0	0	15141	1841	64	5	4229	5	SPTA1	1	158623098	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1849	158623098	90627523	468	54299											
SPTA1	6708	broad.mit.edu	37	chr1	158623119	158623119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctggctcttctcgtcgccGctgtgggagcatcgggaact	4	11	13	13	4	2	0	0	0	2	0	6	2	3	2	2	3	2	3	2	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158623119G>A	uc001fst.1	-	22	3332	c.3133C>T	c.(3133-3135)CGG>TGG	p.R1045W		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1045					actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCTCGTCGCCGCTGTGGGAGC	0.542													44	105					0	0	1	0	0		A	158623119	A	A	158623119	3	1	89	1	0	0	0	0	1	0	0	0	15141	1086	38	1	4250	1	SPTA1	1	158623119	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21	158623119	90627502	469	54300											
SPTA1	6708	broad.mit.edu	37	chr1	158639264	158639264	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttaggtcatctgagtcCtcatacagtttttgcagaag	9	16	8	8	0	4	2	2	1	2	1	5	2	5	2	1	1	2	2	1	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158639264C>A	uc001fst.1	-	14	1966	c.1767G>T	c.(1765-1767)GAG>GAT	p.E589D		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	589	Spectrin 7.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CATCTGAGTCCTCATACAGTT	0.453													67	305					3.13765e-25	3.78106e-25	1	1	0		A	158639264	A	A	158639264	3	1	89	1	0	0	0	0	1	0	0	0	15141	680	24	5	5648	5	SPTA1	1	158639264	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	16145	158639264	90611357	470	54301											
OR6K2	81448	broad.mit.edu	37	chr1	158669933	158669933	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagatatgttcaaggtgattCgaaccacaaaatggcagtgt	15	10	10	6	1	1	2	1	1	0	1	2	3	1	2	1	2	1	2	1	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158669933C>T	uc001fsu.1	-	1	510	c.510G>A	c.(508-510)TCG>TCA	p.S170S		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					CAAGGTGATTCGAACCACAAA	0.483													57	71					0	0	1	0	0		T	158669933	T	T	158669933	2	4	89	1	0	0	0	0	0	0	0	1	11221	871	31	1		1	OR6K2	1	158669933	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30669	158669933	90580688	471	54302											
OR6K3	391114	broad.mit.edu	37	chr1	158687804	158687804	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgataataaaagtataGatgaaaagtaaaggaaagaa	24	8	8	1	0	1	4	1	2	0	2	1	5	1	5	0	1	0	2	0	1	12	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158687804G>T	uc010pip.1	-	1	150	c.150C>A	c.(148-150)ATC>ATA	p.I50I		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	50	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					TAAAAGTATAGATGAAAAGTA	0.373													41	163					1.49673e-21	1.77673e-21	1	1	0		T	158687804	T	T	158687804	2	4	89	1	0	0	0	0	0	0	0	1	11222	932	33	5		5	OR6K3	1	158687804	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17871	158687804	90562817	472	54303											
OR6K6	128371	broad.mit.edu	37	chr1	158725631	158725631	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagagggctggttgggctggGaaatagatacagatcctgga	12	8	16	5	0	0	3	0	0	0	3	1	5	1	5	1	5	1	3	1	5	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158725631G>A	uc001fsw.1	+	1	1026	c.1026G>A	c.(1024-1026)GGG>GGA	p.G342G		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	342	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					GTTGGGCTGGGAAATAGATAC	0.418													16	76					0	0	1	0	0		A	158725631	A	A	158725631	2	1	89	1	0	0	0	0	0	0	0	1	11223	1161	41	4		4	OR6K6	1	158725631	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	37827	158725631	90524990	473	54304											
OR6N2	81442	broad.mit.edu	37	chr1	158746725	158746725	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtagaaaaggccttctttCttcctgatgctgtttttatc	8	17	8	8	0	2	2	0	1	2	1	4	2	3	2	2	2	1	3	2	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158746725C>A	uc010pir.1	-	1	701	c.701G>T	c.(700-702)AGA>ATA	p.R234I		NM_001005278	NP_001005278	Q8NGY6	OR6N2_HUMAN	olfactory receptor, family 6, subfamily N,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_hematologic(112;0.0378)					GGCCTTCTTTCTTCCTGATGC	0.408													25	63					3.08376e-08	3.26638e-08	1	1	0		A	158746725	A	A	158746725	3	1	89	1	0	0	0	0	1	0	0	0	11226	913	32	5	255	5	OR6N2	1	158746725	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	21094	158746725	90503896	474	54305											
OR6N2	81442	broad.mit.edu	37	chr1	158746739	158746739	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctttcttcctgatgctgtTtttatcttcagcacagcccc	5	18	5	13	0	4	1	1	1	3	0	5	1	5	1	3	0	3	3	3	0	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158746739T>G	uc010pir.1	-	1	687	c.687A>C	c.(685-687)AAA>AAC	p.K229N		NM_001005278	NP_001005278	Q8NGY6	OR6N2_HUMAN	olfactory receptor, family 6, subfamily N,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_hematologic(112;0.0378)					CTGATGCTGTTTTTATCTTCA	0.408													14	83					0	0	1	0	0		G	158746739	G	G	158746739	3	3	89	1	0	0	0	0	1	0	0	0	11226	1838	64	5	269	5	OR6N2	1	158746739	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	14	158746739	90503882	475	54306											
MNDA	4332	broad.mit.edu	37	chr1	158815580	158815580	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgacatcaacttgaaagaGaaatttgtaaggaagaaggt	17	10	10	4	1	1	3	1	1	0	2	2	6	1	4	0	2	1	1	0	2	6	4	rs144094005		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158815580G>T	uc001fsz.1	+	5	974	c.774G>T	c.(772-774)GAG>GAT	p.E258D		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	258	HIN-200.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					ACTTGAAAGAGAAATTTGTAA	0.368													47	57					4.14194e-30	5.06051e-30	1	1	0		T	158815580	T	T	158815580	3	4	89	1	0	0	0	0	1	0	0	0	9694	933	33	5	788	5	MNDA	1	158815580	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	68841	158815580	90435041	476	54307											
MNDA	4332	broad.mit.edu	37	chr1	158817600	158817600	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggggagtggaaaatggcAcaatatcaagtgtgagaaag	16	7	15	3	0	1	1	1	1	0	1	1	4	1	3	0	4	0	1	0	4	6	1	rs111691948		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158817600A>G	uc001fsz.1	+	6	1270	c.1070A>G	c.(1069-1071)CAC>CGC	p.H357R		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	357	HIN-200.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					GGAAAATGGCACAATATCAAG	0.413													35	123					0	0	1	0	0		G	158817600	G	G	158817600	3	3	89	1	0	0	0	0	1	0	0	0	9694	159	6	3	1088	3	MNDA	1	158817600	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2020	158817600	90433021	477	54308											
MNDA	4332	broad.mit.edu	37	chr1	158819009	158819009	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaagaaaaacaaggaaggAccaatgaatgttaattgaaa	21	6	9	5	0	0	3	0	2	0	1	0	5	0	5	2	2	1	1	2	2	9	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:158819009A>G	uc001fsz.1	+	7	1406	c.1206A>G	c.(1204-1206)GGA>GGG	p.G402G		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	402					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					ACAAGGAAGGACCAATGAATG	0.318													12	70					0	0	1	0	0		G	158819009	G	G	158819009	2	3	89	1	0	0	0	0	0	0	0	1	9694	262	10	3		3	MNDA	1	158819009	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1409	158819009	90431612	478	54309											
AIM2	9447	broad.mit.edu	37	chr1	159043205	159043205	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatattaaactcgtctgaaaGaaagaacttaaacctatcca	19	10	4	8	1	1	3	0	1	1	2	3	3	2	3	2	0	3	0	2	0	10	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:159043205G>T	uc001ftj.1	-	2	330	c.85C>A	c.(85-87)CTT>ATT	p.L29I		NM_004833	NP_004824	O14862	AIM2_HUMAN	absent in melanoma 2	29	DAPIN.				cellular response to drug|immune response|interleukin-1 beta secretion	mitochondrion|nucleus				ovary(2)|pancreas(1)	3	all_hematologic(112;0.0429)					TCGTCTGAAAGAAAGAACTTA	0.413													78	84					4.59617e-45	5.71001e-45	1	1	0		T	159043205	T	T	159043205	3	4	89	1	0	0	0	0	1	0	0	0	432	942	33	5	966	5	AIM2	1	159043205	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	224196	159043205	90207416	479	54310											
CADM3	57863	broad.mit.edu	37	chr1	159162412	159162412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggttacctctacgccccacGagctcagcatcagcatcagc	9	8	8	16	2	4	0	3	0	1	0	4	1	4	0	3	1	6	4	3	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:159162412G>A	uc001ftl.2	+	3	416	c.274G>A	c.(274-276)GAG>AAG	p.E92K	CADM3_uc009wsx.1_Missense_Mutation_p.E126K|CADM3_uc009wsy.1_Missense_Mutation_p.E92K|CADM3_uc001ftk.2_Missense_Mutation_p.E126K	NM_001127173	NP_001120645	Q8N126	CADM3_HUMAN	cell adhesion molecule 3 isoform 2	92	Ig-like V-type.|Extracellular (Potential).				adherens junction organization|cell junction assembly|heterophilic cell-cell adhesion|homophilic cell adhesion	cell-cell junction|integral to membrane	protein homodimerization activity			ovary(2)	2	all_hematologic(112;0.0429)					TACGCCCCACGAGCTCAGCAT	0.517													22	96					0	0	1	0	0		A	159162412	A	A	159162412	3	1	89	1	0	0	0	0	1	0	0	0	2571	1059	37	1	390	1	CADM3	1	159162412	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	119207	159162412	90088209	480	54311											
DARC	2532	broad.mit.edu	37	chr1	159176026	159176026	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaggactggatttcctggTgaggtccaagctgttgctgt	6	14	13	8	0	1	1	0	1	1	0	3	3	3	3	2	4	2	3	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:159176026T>G	uc001fto.2	+	2	1037	c.797T>G	c.(796-798)GTG>GGG	p.V266G	DARC_uc001ftp.3_Missense_Mutation_p.V268G	NM_002036	NP_002027	Q16570	DUFFY_HUMAN	Duffy blood group antigen isoform b	266	Extracellular (Potential).				defense response	integral to membrane|plasma membrane	C-C chemokine binding|chemokine receptor activity			ovary(1)|lung(1)	2	all_hematologic(112;0.0429)					GATTTCCTGGTGAGGTCCAAG	0.557													50	164					0	0	1	0	0		G	159176026	G	G	159176026	3	3	89	1	0	0	0	0	1	0	0	0	4243	1696	59	5	830	5	DARC	1	159176026	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	13614	159176026	90074595	481	54312											
CRP	1401	broad.mit.edu	37	chr1	159683518	159683518	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagttcccaccgaaggaatCctgctcctgccccaagatga	12	7	8	14	1	0	2	0	1	0	1	3	4	3	3	6	1	2	2	6	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:159683518C>A	uc001ftw.2	-	2	576	c.472G>T	c.(472-474)GAT>TAT	p.D158Y	CRP_uc001ftx.1_Intron|CRP_uc001fty.1_RNA	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	158	Pentaxin.	Calcium 2.|Calcium 1.			acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	CCGAAGGAATCCTGCTCCTGC	0.527													155	407					2.32739e-80	2.90818e-80	1	1	0		A	159683518	A	A	159683518	3	1	89	1	0	0	0	0	1	0	0	0	3898	855	30	5	206	5	CRP	1	159683518	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	507492	159683518	89567103	482	54313											
FCRL6	343413	broad.mit.edu	37	chr1	159778115	159778115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctaaggaaaaccagaCtctgtccatgggagcagcaa	13	9	9	10	0	2	1	0	0	2	1	4	3	3	3	2	2	3	2	2	2	4	2	rs150017462		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:159778115C>T	uc001fud.3	+	3	242	c.200C>T	c.(199-201)ACT>ATT	p.T67I	FCRL6_uc010pix.1_Missense_Mutation_p.T62I|FCRL6_uc001fuc.2_Missense_Mutation_p.T74I|FCRL6_uc009wsz.1_Missense_Mutation_p.T67I|FCRL6_uc009wta.2_Missense_Mutation_p.T67I	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	67	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					GAAAACCAGACTCTGTCCATG	0.488													39	36					0	0	1	0	0		T	159778115	T	T	159778115	3	4	89	1	0	0	0	0	1	0	0	0	5813	565	20	4	210	4	FCRL6	1	159778115	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	94597	159778115	89472506	483	54314											
FCRL6	343413	broad.mit.edu	37	chr1	159778757	159778757	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcatctccccagagctgtTtccacctcctgtgctgagtg	5	12	9	15	0	1	2	0	1	1	1	4	2	3	2	5	0	3	4	5	0	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:159778757T>G	uc001fud.3	+	4	368	c.326T>G	c.(325-327)TTT>TGT	p.F109C	FCRL6_uc010pix.1_3'UTR|FCRL6_uc001fuc.2_Missense_Mutation_p.F116C|FCRL6_uc009wsz.1_Intron|FCRL6_uc009wta.2_Missense_Mutation_p.F109C	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	109	Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					CCAGAGCTGTTTCCACCTCCT	0.617													28	53					0	0	1	0	0		G	159778757	G	G	159778757	3	3	89	1	0	0	0	0	1	0	0	0	5813	1841	64	5	340	5	FCRL6	1	159778757	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	642	159778757	89471864	484	54315											
CCDC19	25790	broad.mit.edu	37	chr1	159846352	159846352	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggcccctcctaccgaagaAtcctctcgaactcatcccgg	9	7	7	18	3	2	1	1	0	1	1	6	3	5	1	6	2	2	0	6	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:159846352A>C	uc001fui.2	-	10	1364	c.1346T>G	c.(1345-1347)ATT>AGT	p.I449S	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.I364S|CCDC19_uc001ful.2_Missense_Mutation_p.I364S|CCDC19_uc009wtc.1_3'UTR	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	449	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			CTACCGAAGAATCCTCTCGAA	0.532													15	36					0	0	1	0	0		C	159846352	C	C	159846352	3	2	89	1	0	0	0	0	1	0	0	0	2798	101	4	5	321	5	CCDC19	1	159846352	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	67595	159846352	89404269	485	54316											
CCDC19	25790	broad.mit.edu	37	chr1	159846428	159846428	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaagccacctgttcgagccGactttttcgcagctcagcct	8	10	9	14	3	1	0	1	0	0	0	3	3	1	0	4	0	4	3	4	0	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:159846428G>A	uc001fui.2	-	10	1288	c.1270C>T	c.(1270-1272)CGG>TGG	p.R424W	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.R339W|CCDC19_uc001ful.2_Missense_Mutation_p.R339W|CCDC19_uc009wtc.1_3'UTR	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	424	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			TGTTCGAGCCGACTTTTTCGC	0.567													19	42					0	0	1	0	0		A	159846428	A	A	159846428	3	1	89	1	0	0	0	0	1	0	0	0	2798	1057	37	1	397	1	CCDC19	1	159846428	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	76	159846428	89404193	486	54317											
SLAMF9	89886	broad.mit.edu	37	chr1	159922090	159922090	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggatggggcaagaactgAcgttgctgatggggttgttg	8	10	18	5	1	0	3	0	2	0	1	0	4	0	4	0	5	2	5	0	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:159922090A>G	uc001fus.2	-	3	743	c.626T>C	c.(625-627)GTC>GCC	p.V209A	SLAMF9_uc009wtd.2_Intron|SLAMF9_uc001fut.2_Intron	NM_033438	NP_254273	Q96A28	SLAF9_HUMAN	SLAM family member 9 isoform 1	209	Ig-like C2-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GCAAGAACTGACGTTGCTGAT	0.567													31	120					0	0	1	0	0		G	159922090	G	G	159922090	3	3	89	1	0	0	0	0	1	0	0	0	14396	275	10	3	251	3	SLAMF9	1	159922090	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	75662	159922090	89328531	487	54318											
ATP1A2	477	broad.mit.edu	37	chr1	160097591	160097591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtggccaacgtgcctgaggGgcttctggccactgtcactg	6	9	14	12	1	2	1	1	1	1	0	2	1	2	1	3	4	2	1	3	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160097591G>A	uc001fvc.2	+	8	1130	c.998G>A	c.(997-999)GGG>GAG	p.G333E	ATP1A2_uc001fvb.2_Missense_Mutation_p.G333E|ATP1A2_uc010piz.1_Missense_Mutation_p.G178E|ATP1A2_uc001fvd.2_Missense_Mutation_p.G69E|ATP1A2_uc009wtg.1_5'Flank	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	333	Helical; (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GTGCCTGAGGGGCTTCTGGCC	0.582													86	49					0	0	1	0	0		A	160097591	A	A	160097591	3	1	89	1	0	0	0	0	1	0	0	0	1130	1232	43	4	1028	4	ATP1A2	1	160097591	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	175501	160097591	89153030	488	54319											
ATP1A2	477	broad.mit.edu	37	chr1	160099926	160099926	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagaagacagcccccagaGccacgtgctggtgatgaagg	11	4	15	11	2	0	5	0	2	0	3	0	6	0	5	3	2	3	1	3	2	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160099926G>T	uc001fvc.2	+	12	1628	c.1496G>T	c.(1495-1497)AGC>ATC	p.S499I	ATP1A2_uc001fvb.2_Missense_Mutation_p.S499I|ATP1A2_uc001fvd.2_Missense_Mutation_p.S235I|ATP1A2_uc009wtg.1_Missense_Mutation_p.S187I	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	499	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			AGCCCCCAGAGCCACGTGCTG	0.592													26	118					6.32553e-13	7.03772e-13	1	1	0		T	160099926	T	T	160099926	3	4	89	1	0	0	0	0	1	0	0	0	1130	971	34	5	1542	5	ATP1A2	1	160099926	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2335	160099926	89150695	489	54320											
ATP1A4	480	broad.mit.edu	37	chr1	160125849	160125849	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcagctctacctgagcatCgtactgtccgtcgtggtcat	6	12	9	14	3	3	1	2	1	1	0	6	1	4	1	3	1	4	3	3	1	2	2	rs141961417		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160125849C>T	uc001fve.3	+	4	905	c.426C>T	c.(424-426)ATC>ATT	p.I142I	ATP1A4_uc001fvf.3_RNA	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	142	Helical; (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			ACCTGAGCATCGTACTGTCCG	0.512													24	68					0	0	1	0	0		T	160125849	T	T	160125849	2	4	89	1	0	0	0	0	0	0	0	1	1132	874	31	1		1	ATP1A4	1	160125849	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	25923	160125849	89124772	490	54321											
CASQ1	844	broad.mit.edu	37	chr1	160160780	160160780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accccccgaggatgacaaggCctcacaaagacaatttgaga	15	5	9	12	1	1	3	1	2	0	2	1	6	1	4	4	2	0	0	4	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160160780C>T	uc010pja.1	+	1	496	c.239C>T	c.(238-240)GCC>GTC	p.A80V		NM_001231	NP_001222	P31415	CASQ1_HUMAN	calsequestrin 1	80						mitochondrial matrix|sarcoplasmic reticulum lumen|smooth endoplasmic reticulum	calcium ion binding			central_nervous_system(1)	1	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GATGACAAGGCCTCACAAAGA	0.522													23	49					0	0	1	0	0		T	160160780	T	T	160160780	3	4	89	1	0	0	0	0	1	0	0	0	2683	739	26	2	241	2	CASQ1	1	160160780	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34931	160160780	89089841	491	54322											
PEX19	5824	broad.mit.edu	37	chr1	160252819	160252819	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactccttcattgccttctcGaactccgcagtggcttggga	7	12	9	13	2	2	0	1	0	1	0	5	2	4	1	3	2	3	2	3	2	2	4	rs146644725	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160252819G>A	uc001fvs.2	-	3	288	c.261C>T	c.(259-261)TTC>TTT	p.F87F	DCAF8_uc010pjc.1_5'UTR|PEX19_uc010pje.1_RNA|PEX19_uc001fvt.2_5'UTR	NM_002857	NP_002848	P40855	PEX19_HUMAN	peroxisomal biogenesis factor 19 isoform a	87	Necessary for PEX19 function on peroxisome biogenesis.				peroxisome membrane biogenesis|peroxisome organization|protein targeting to peroxisome|transmembrane transport	brush border membrane|cytosol|integral to membrane|nucleus|peroxisomal membrane	protein binding|protein N-terminus binding				0	all_cancers(52;1.27e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TTGCCTTCTCGAACTCCGCAG	0.567													23	71					0	0	1	0	0		A	160252819	A	A	160252819	2	1	89	1	0	0	0	0	0	0	0	1	11763	1049	37	1		1	PEX19	1	160252819	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	92039	160252819	88997802	492	54323											
COPA	1314	broad.mit.edu	37	chr1	160268902	160268902	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacttcatacctcatcatatTttctgttgatcagggccagc	9	14	6	12	0	5	1	4	1	1	0	5	1	5	1	2	1	2	1	2	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160268902T>G	uc009wti.2	-	18	2214	c.1820A>C	c.(1819-1821)AAA>ACA	p.K607T	COPA_uc001fvv.3_Missense_Mutation_p.K616T	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	607					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CTCATCATATTTTCTGTTGAT	0.438													52	165					0	0	1	0	0		G	160268902	G	G	160268902	3	3	89	1	0	0	0	0	1	0	0	0	3730	1841	64	5	1918	5	COPA	1	160268902	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	16083	160268902	88981719	493	54324											
CD84	8832	broad.mit.edu	37	chr1	160523839	160523839	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaattgtatgtcacattCttttcttctttctctacaga	8	19	3	11	0	5	1	1	0	4	1	7	1	6	1	1	0	1	1	1	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160523839C>A	uc001fwh.3	-	3	510	c.486G>T	c.(484-486)AAG>AAT	p.K162N	CD84_uc001fwf.3_Missense_Mutation_p.K162N|CD84_uc001fwg.3_Missense_Mutation_p.K162N|CD84_uc009wtn.2_Missense_Mutation_p.K162N|CD84_uc001fwi.3_Missense_Mutation_p.K48N|CD84_uc001fwj.2_Missense_Mutation_p.K162N|CD84_uc001fwk.2_Missense_Mutation_p.K162N	NM_003874	NP_003865	Q9UIB8	SLAF5_HUMAN	CD84 molecule	162	Extracellular (Potential).|Ig-like C2-type.				blood coagulation|defense response|homophilic cell adhesion|leukocyte migration	integral to plasma membrane	receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(52;3.62e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			ATGTCACATTCTTTTCTTCTT	0.458													30	83					2.61193e-14	2.9448e-14	1	1	0		A	160523839	A	A	160523839	3	1	89	1	0	0	0	0	1	0	0	0	3045	912	32	5	575	5	CD84	1	160523839	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	254937	160523839	88726782	494	54325											
SLAMF1	6504	broad.mit.edu	37	chr1	160604606	160604606	+	Missense_Mutation	SNP	A	G	G																															ccacatggtcccccttctccActgtgcagcccagtatcaag																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160604606A>G	uc001fwl.3	-	3	843	c.497T>C	c.(496-498)GTG>GCG	p.V166A	SLAMF1_uc010pjk.1_RNA|SLAMF1_uc010pjl.1_RNA|SLAMF1_uc010pjm.1_RNA	NM_003037	NP_003028	Q13291	SLAF1_HUMAN	signaling lymphocytic activation molecule family	166	Ig-like C2-type.|Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms|lymphocyte activation|positive regulation of cell proliferation	integral to membrane	antigen binding|transmembrane receptor activity			ovary(1)|breast(1)	2	all_cancers(52;4.94e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			CCCCTTCTCCACTGTGCAGCC	0.572													22	105					0	0	1	0	0		G	160604606	G	G	160604606	3	3	89	1	0	0	0	0	1	0	0	0	14392	159	6	3	530	3	SLAMF1	1	160604606	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	80767	160604606	88646015	495	54326	100	2									
SLAMF1	6504	broad.mit.edu	37	chr1	160604614	160604614	+	Silent	SNP	G	A	A																															tcccccttctccactgtgcaGcccagtatcaaggtgcaggt																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160604614G>A	uc001fwl.3	-	3	835	c.489C>T	c.(487-489)GGC>GGT	p.G163G	SLAMF1_uc010pjk.1_RNA|SLAMF1_uc010pjl.1_RNA|SLAMF1_uc010pjm.1_RNA	NM_003037	NP_003028	Q13291	SLAF1_HUMAN	signaling lymphocytic activation molecule family	163	Ig-like C2-type.|Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms|lymphocyte activation|positive regulation of cell proliferation	integral to membrane	antigen binding|transmembrane receptor activity			ovary(1)|breast(1)	2	all_cancers(52;4.94e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			CCACTGTGCAGCCCAGTATCA	0.567													47	82					0	0	1	0	0		A	160604614	A	A	160604614	2	1	89	1	0	0	0	0	0	0	0	1	14392	958	34	2		2	SLAMF1	1	160604614	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8	160604614	88646007	496	54327	100	2									
SLAMF7	57823	broad.mit.edu	37	chr1	160720183	160720183	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgtactggggctatttCtttggtttctgaagagagag	7	17	12	5	0	3	3	0	1	3	2	3	4	3	3	0	3	1	3	0	3	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160720183C>A	uc001fwq.2	+	4	754	c.739C>A	c.(739-741)CTT>ATT	p.L247I	SLAMF7_uc010pjn.1_Missense_Mutation_p.L153I|SLAMF7_uc001fws.2_Missense_Mutation_p.L140I|SLAMF7_uc001fwr.2_Missense_Mutation_p.L247I|SLAMF7_uc010pjo.1_Intron|SLAMF7_uc010pjp.1_Intron|SLAMF7_uc010pjq.1_Intron|SLAMF7_uc010pjr.1_Intron	NM_021181	NP_067004	Q9NQ25	SLAF7_HUMAN	SLAM family member 7	247	Helical; (Potential).				cell adhesion|natural killer cell activation|natural killer cell mediated cytotoxicity	integral to membrane	receptor activity			skin(2)|ovary(1)	3	all_cancers(52;2.63e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			GGGGCTATTTCTTTGGTTTCT	0.428													54	239					1.59911e-31	1.9596e-31	1	1	0		A	160720183	A	A	160720183	3	1	89	1	0	0	0	0	1	0	0	0	14394	913	32	5	753	5	SLAMF7	1	160720183	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	115569	160720183	88530438	497	54328											
LY9	4063	broad.mit.edu	37	chr1	160793289	160793289	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacgctatactctgtgctCtcccaaggatatgagaagct	11	10	8	12	1	2	1	0	1	2	1	3	3	2	2	1	1	3	3	1	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160793289C>A	uc001fwu.2	+	8	1583	c.1533C>A	c.(1531-1533)CTC>CTA	p.L511L	LY9_uc001fwv.2_Intron|LY9_uc001fww.2_Silent_p.L421L|LY9_uc001fwx.2_Silent_p.L421L|LY9_uc001fwy.1_Intron|LY9_uc001fwz.2_Intron	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	511	Cytoplasmic (Potential).				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			ACTCTGTGCTCTCCCAAGGAT	0.547													21	51					5.26018e-13	5.86357e-13	1	1	0		A	160793289	A	A	160793289	2	1	89	1	0	0	0	0	0	0	0	1	9119	900	32	5		5	LY9	1	160793289	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	73106	160793289	88457332	498	54329											
CD244	51744	broad.mit.edu	37	chr1	160811101	160811101	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtgagtgccattaatgTcaacctcctcgtccaggtag	9	12	10	10	1	1	1	1	1	0	0	4	1	3	1	4	1	2	1	4	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160811101T>C	uc009wtq.2	-	3	747	c.569A>G	c.(568-570)GAC>GGC	p.D190G	CD244_uc001fxa.2_Missense_Mutation_p.D185G|CD244_uc009wtp.2_RNA|CD244_uc009wtr.2_Intron|CD244_uc010pjt.1_RNA	NM_016382	NP_057466	Q9BZW8	CD244_HUMAN	CD244 natural killer cell receptor 2B4	190	Extracellular (Potential).|Ig-like 2.				blood coagulation|leukocyte migration	integral to membrane|plasma membrane	protein binding|receptor activity			ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			GCCATTAATGTCAACCTCCTC	0.517													99	105					0	0	1	0	0		C	160811101	C	C	160811101	3	2	89	1	0	0	0	0	1	0	0	0	2990	1667	58	3	571	3	CD244	1	160811101	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	17812	160811101	88439520	499	54330											
F11R	50848	broad.mit.edu	37	chr1	160968840	160968840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggcatactcacttcacttCgggcactaggctggctgtaa	9	10	11	11	1	2	0	2	0	0	0	3	1	2	0	0	4	1	5	0	4	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:160968840C>T	uc009wtt.2	-	9	1127	c.857G>A	c.(856-858)CGA>CAA	p.R286Q	F11R_uc010pjv.1_Missense_Mutation_p.R237Q|F11R_uc001fxe.3_Missense_Mutation_p.R283Q|F11R_uc009wtu.2_Intron|F11R_uc010pjw.1_Missense_Mutation_p.R290Q|F11R_uc001fxf.3_Missense_Mutation_p.R286Q	NM_016946	NP_058642	Q9Y624	JAM1_HUMAN	F11 receptor precursor	286	Cytoplasmic (Potential).				blood coagulation|inflammatory response|interspecies interaction between organisms|leukocyte migration|tight junction assembly	integral to membrane|tight junction				ovary(2)	2	all_cancers(52;6.73e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00207)			CACTTCACTTCGGGCACTAGG	0.527													45	35					0	0	1	0	0		T	160968840	T	T	160968840	3	4	89	1	0	0	0	0	1	0	0	0	5346	884	31	1	50	1	F11R	1	160968840	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	157739	160968840	88281781	500	54331											
ARHGAP30	257106	broad.mit.edu	37	chr1	161017765	161017765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtacaggtctgggttcgccGaactccttgagcctcagtcc	7	10	11	13	2	2	1	1	1	1	0	5	2	4	1	4	2	3	2	4	2	2	3	rs140478074	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:161017765G>A	uc001fxl.2	-	12	3392	c.3046C>T	c.(3046-3048)CGG>TGG	p.R1016W	USF1_uc001fxi.2_5'Flank|USF1_uc001fxj.2_5'Flank|ARHGAP30_uc001fxk.2_Missense_Mutation_p.R805W|ARHGAP30_uc001fxm.2_Missense_Mutation_p.R862W|ARHGAP30_uc009wtx.2_Missense_Mutation_p.R689W	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	1016					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			TGGGTTCGCCGAACTCCTTGA	0.587													33	82					0	0	1	0	0		A	161017765	A	A	161017765	3	1	89	1	0	0	0	0	1	0	0	0	879	1057	37	1	263	1	ARHGAP30	1	161017765	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	48925	161017765	88232856	501	54332											
ARHGAP30	257106	broad.mit.edu	37	chr1	161022287	161022287	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatggccagagcgacctaAattgaagatagacctccact	13	8	8	12	1	1	4	1	1	0	3	2	5	2	4	4	1	1	0	4	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:161022287A>C	uc001fxl.2	-	8	1229	c.883T>G	c.(883-885)TTA>GTA	p.L295V	ARHGAP30_uc001fxk.2_Missense_Mutation_p.L295V|ARHGAP30_uc001fxm.2_Missense_Mutation_p.L141V|ARHGAP30_uc009wtx.2_Translation_Start_Site|ARHGAP30_uc001fxn.1_Missense_Mutation_p.L141V	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	295					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			GAGCGACCTAAATTGAAGATA	0.542													19	319					0	0	1	0	0		C	161022287	C	C	161022287	3	2	89	1	0	0	0	0	1	0	0	0	879	11	1	5	2442	5	ARHGAP30	1	161022287	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4522	161022287	88228334	502	54333											
ARHGAP30	257106	broad.mit.edu	37	chr1	161029440	161029440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggagacccctgagaggCggtagatcccatccaccact	10	6	12	13	1	0	3	0	1	0	3	2	6	2	4	5	4	0	1	5	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:161029440C>T	uc001fxl.2	-	2	510	c.164G>A	c.(163-165)CGC>CAC	p.R55H	ARHGAP30_uc001fxk.2_Missense_Mutation_p.R55H|ARHGAP30_uc001fxm.2_5'UTR|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_5'UTR	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	55	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			CCCTGAGAGGCGGTAGATCCC	0.562													40	41					0	0	1	0	0		T	161029440	T	T	161029440	3	4	89	1	0	0	0	0	1	0	0	0	879	768	27	1	3185	1	ARHGAP30	1	161029440	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7153	161029440	88221181	503	54334											
PVRL4	81607	broad.mit.edu	37	chr1	161044462	161044462	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcattgctgacatggcagacGtagatgccgctgtgctcagt	8	11	12	10	2	2	3	2	1	0	2	2	3	2	3	1	1	3	5	1	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:161044462G>A	uc001fxo.2	-	5	1238	c.939C>T	c.(937-939)TAC>TAT	p.Y313Y	PVRL4_uc010pjy.1_5'Flank|PVRL4_uc010pjz.1_Silent_p.Y47Y	NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	313	Ig-like C2-type 2.|Extracellular (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			CATGGCAGACGTAGATGCCGC	0.572													16	70					0	0	1	0	0		A	161044462	A	A	161044462	2	1	89	1	0	0	0	0	0	0	0	1	12867	1140	40	1		1	PVRL4	1	161044462	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	15022	161044462	88206159	504	54335											
APOA2	336	broad.mit.edu	37	chr1	161193167	161193167	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgcagatggtgaggagtaGcacagttgctgcgagcagct	9	8	16	8	1	0	2	0	1	0	1	0	4	0	3	0	2	6	8	0	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:161193167G>A	uc001fzc.1	-	2	83	c.25C>T	c.(25-27)CTA>TTA	p.L9L	APOA2_uc001fzb.1_RNA|TOMM40L_uc010pkk.1_5'Flank|TOMM40L_uc010pkl.1_5'Flank|TOMM40L_uc001fzd.2_5'Flank|TOMM40L_uc009wue.2_5'Flank|TOMM40L_uc009wuf.1_5'Flank|TOMM40L_uc001fze.2_5'Flank	NM_001643	NP_001634	P02652	APOA2_HUMAN	apolipoprotein A-II preproprotein	9					cholesterol efflux|cholesterol homeostasis|diacylglycerol catabolic process|high-density lipoprotein particle assembly|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|interspecies interaction between organisms|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of cholesterol import|negative regulation of cholesterol transporter activity|negative regulation of cytokine secretion involved in immune response|negative regulation of lipase activity|negative regulation of lipid catabolic process|negative regulation of very-low-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|phospholipid catabolic process|phospholipid efflux|positive regulation of cholesterol esterification|positive regulation of interleukin-8 biosynthetic process|positive regulation of lipid catabolic process|protein folding|regulation of protein stability|response to glucose stimulus|reverse cholesterol transport|triglyceride metabolic process|triglyceride-rich lipoprotein particle remodeling	chylomicron|endoplasmic reticulum lumen|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	apolipoprotein receptor binding|cholesterol binding|high-density lipoprotein particle receptor binding|lipase inhibitor activity|phosphatidylcholine binding|phosphatidylcholine-sterol O-acyltransferase activator activity|protein heterodimerization activity|protein homodimerization activity			skin(1)	1	all_cancers(52;1.86e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			GTGAGGAGTAGCACAGTTGCT	0.562													9	42					0	0	1	0	0		A	161193167	A	A	161193167	2	1	89	1	0	0	0	0	0	0	0	1	782	962	34	2		2	APOA2	1	161193167	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	148705	161193167	88057454	505	54336											
FCGR3A	2214	broad.mit.edu	37	chr1	161512836	161512836	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcctttctccatttaaatTtatggtccttccagtctctt	6	19	5	11	0	2	0	0	0	2	0	7	0	5	0	4	2	0	0	4	2	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:161512836T>G	uc001gat.3	-	6	868	c.731A>C	c.(730-732)AAA>ACA	p.K244T	FCGR3A_uc001gar.2_Missense_Mutation_p.K280T|FCGR3A_uc001gas.2_Missense_Mutation_p.K279T|FCGR3A_uc009wuh.2_Missense_Mutation_p.K243T|FCGR3A_uc009wui.2_Missense_Mutation_p.K244T	NM_001127595	NP_001121067	P08637	FCG3A_HUMAN	Fc fragment of IgG, low affinity IIIa, receptor	244	Cytoplasmic (Potential).				immune response|regulation of immune response	extracellular region|integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCATTTAAATTTATGGTCCTT	0.438													56	132					0	0	1	0	0		G	161512836	G	G	161512836	3	3	89	1	0	0	0	0	1	0	0	0	5798	1841	64	5	37	5	FCGR3A	1	161512836	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	319669	161512836	87737785	506	54337											
FCGR3A	2214	broad.mit.edu	37	chr1	161518349	161518349	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgaggctctcattgtgaaAccactgtgtggaattgtcct	9	13	11	8	0	1	2	1	2	1	0	3	4	2	3	2	2	1	1	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:161518349A>C	uc001gat.3	-	4	318	c.181T>G	c.(181-183)TTT>GTT	p.F61V	FCGR3A_uc001gar.2_Missense_Mutation_p.F97V|FCGR3A_uc001gas.2_Missense_Mutation_p.F96V|FCGR3A_uc009wuh.2_Missense_Mutation_p.F60V|FCGR3A_uc009wui.2_Missense_Mutation_p.F61V	NM_001127595	NP_001121067	P08637	FCG3A_HUMAN	Fc fragment of IgG, low affinity IIIa, receptor	61	Ig-like C2-type 1.|Extracellular (Potential).				immune response|regulation of immune response	extracellular region|integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TCATTGTGAAACCACTGTGTG	0.552													26	462					0	0	1	0	0		C	161518349	C	C	161518349	3	2	89	1	0	0	0	0	1	0	0	0	5798	43	2	5	595	5	FCGR3A	1	161518349	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	5513	161518349	87732272	507	54338											
FCGR2C	9103	broad.mit.edu	37	chr1	161559538	161559538	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaaggccaacaacaatgAcagcggggagtacacgtgcc	13	5	12	11	2	1	1	1	1	0	0	1	2	1	2	2	3	5	2	2	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:161559538A>G	uc001gav.2	+	4	419	c.320A>G	c.(319-321)GAC>GGC	p.D107G	FCGR2C_uc009wuj.2_RNA|FCGR2C_uc009wuk.2_RNA	NM_201563	NP_963857			Fc fragment of IgG, low affinity IIc, receptor												0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			AACAACAATGACAGCGGGGAG	0.592													26	94					0	0	1	0	0		G	161559538	G	G	161559538	3	3	89	1	0	0	0	0	1	0	0	0	5797	275	10	3	330	3	FCGR2C	1	161559538	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	41189	161559538	87691083	508	54339											
NOS1AP	9722	broad.mit.edu	37	chr1	162270424	162270424	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaacttattcatttacagcTtcttttattgcagaaaaagg	13	16	5	7	0	2	1	1	0	1	1	2	1	2	1	0	1	4	2	0	1	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:162270424T>G	uc001gbv.2	+	4	659	c.272T>G	c.(271-273)CTT>CGT	p.L91R	NOS1AP_uc010pkr.1_Intron|NOS1AP_uc010pks.1_Intron|NOS1AP_uc001gbw.2_Intron	NM_014697	NP_055512	O75052	CAPON_HUMAN	nitric oxide synthase 1 (neuronal) adaptor	91	PID.				regulation of apoptosis|regulation of nitric oxide biosynthetic process|regulation of nitric-oxide synthase activity		nitric-oxide synthase binding|PDZ domain binding			lung(2)|upper_aerodigestive_tract(1)	3	all_hematologic(112;0.203)		BRCA - Breast invasive adenocarcinoma(70;0.0537)			CATTTACAGCTTCTTTTATTG	0.468													36	125					0	0	1	0	0		G	162270424	G	G	162270424	3	3	89	1	0	0	0	0	1	0	0	0	10561	1623	56	5	286	5	NOS1AP	1	162270424	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	710886	162270424	86980197	509	54340											
UAP1	6675	broad.mit.edu	37	chr1	162551117	162551117	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgggcacttgcagcccagaaTattgtggaggatatggagca	11	8	14	8	1	0	1	0	0	0	1	0	4	0	4	1	4	3	3	1	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:162551117T>C	uc001gce.3	+	5	1031	c.702T>C	c.(700-702)AAT>AAC	p.N234N		NM_003115	NP_003106	Q16222	UAP1_HUMAN	UDP-N-acetylglucosamine pyrophosphorylase 1	234					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol|nucleus|plasma membrane	UDP-N-acetylglucosamine diphosphorylase activity			ovary(2)|skin(2)|kidney(1)	5	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			CAGCCCAGAATATTGTGGAGG	0.403													64	238					0	0	1	0	0		C	162551117	C	C	162551117	2	2	89	1	0	0	0	0	0	0	0	1	16851	1403	49	3		3	UAP1	1	162551117	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	280693	162551117	86699504	510	54341											
UAP1	6675	broad.mit.edu	37	chr1	162560241	162560241	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccttcatcattgctgggTcctcaatgcagggggccatt	6	12	11	12	0	3	0	3	0	0	0	5	0	5	0	3	3	2	2	3	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:162560241T>C	uc001gce.3	+	8	1627	c.1298T>C	c.(1297-1299)GTC>GCC	p.V433A		NM_003115	NP_003106	Q16222	UAP1_HUMAN	UDP-N-acetylglucosamine pyrophosphorylase 1	433					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol|nucleus|plasma membrane	UDP-N-acetylglucosamine diphosphorylase activity			ovary(2)|skin(2)|kidney(1)	5	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			CATTGCTGGGTCCTCAATGCA	0.443													8	122					0	0	1	0	0		C	162560241	C	C	162560241	3	2	89	1	0	0	0	0	1	0	0	0	16851	1667	58	3	1324	3	UAP1	1	162560241	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	9124	162560241	86690380	511	54342											
NUF2	83540	broad.mit.edu	37	chr1	163317623	163317623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgaagactgaagaaaattCgttcaaaagactgatgattg	17	11	9	4	1	1	7	1	4	0	3	2	7	1	7	0	0	0	1	0	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:163317623C>T	uc001gcq.1	+	12	1319	c.1019C>T	c.(1018-1020)TCG>TTG	p.S340L	NUF2_uc001gcr.1_Missense_Mutation_p.S340L|NUF2_uc009wvc.1_Missense_Mutation_p.S293L	NM_145697	NP_663735	Q9BZD4	NUF2_HUMAN	NUF2, NDC80 kinetochore complex component	340	Interaction with the N-terminus of NDC80.|Potential.				cell division|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding			ovary(3)|skin(1)	4	all_hematologic(923;0.101)					GAAGAAAATTCGTTCAAAAGA	0.338													18	54					0	0	1	0	0		T	163317623	T	T	163317623	3	4	89	1	0	0	0	0	1	0	0	0	10766	893	31	1	1061	1	NUF2	1	163317623	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	757382	163317623	85932998	512	54343											
PBX1	5087	broad.mit.edu	37	chr1	164815832	164815832	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccttctaggctaatggaggTtggcaggatgctactacccc	8	10	11	12	0	1	0	0	0	1	0	1	2	1	2	3	5	3	4	3	5	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:164815832T>G	uc001gct.2	+	9	1470	c.1212T>G	c.(1210-1212)GGT>GGG	p.G404G	PBX1_uc010pku.1_Intron|PBX1_uc010pkv.1_Silent_p.G321G|PBX1_uc001gcs.2_3'UTR|PBX1_uc010pkw.1_Intron	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	404					negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						CTAATGGAGGTTGGCAGGATG	0.463			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								19	117					0	0	1	0	0		G	164815832	G	G	164815832	2	3	89	1	0	0	0	0	0	0	0	1	11511	1712	60	5		5	PBX1	1	164815832	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1498209	164815832	84434789	513	54344											
LMX1A	4009	broad.mit.edu	37	chr1	165182951	165182951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttgagttgtcaagatggttCtcggacgtttggggcgctta	6	14	15	6	3	2	2	1	1	1	1	3	3	2	3	0	4	0	5	0	4	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:165182951C>T	uc001gcy.1	-	4	817	c.596G>A	c.(595-597)AGA>AAA	p.R199K	LMX1A_uc001gcz.1_Missense_Mutation_p.R199K|LMX1A_uc001gcw.1_5'Flank|LMX1A_uc001gcx.1_5'Flank	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	199	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					CAAGATGGTTCTCGGACGTTT	0.522													108	115					0	0	1	0	0		T	165182951	T	T	165182951	3	4	89	1	0	0	0	0	1	0	0	0	8878	913	32	4	572	4	LMX1A	1	165182951	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	367119	165182951	84067670	514	54345											
ALDH9A1	223	broad.mit.edu	37	chr1	165638645	165638645	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctctgtaaatttatcaaGaatttctttctgcacaaata	13	17	3	8	0	4	1	1	0	3	1	5	1	5	1	1	0	1	2	1	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:165638645G>T	uc001gdh.1	-	7	1078	c.973C>A	c.(973-975)CTT>ATT	p.L325I	ALDH9A1_uc010pky.1_Missense_Mutation_p.L231I|ALDH9A1_uc010pkz.1_Missense_Mutation_p.L315I|ALDH9A1_uc010pla.1_Missense_Mutation_p.L231I	NM_000696	NP_000687	P49189	AL9A1_HUMAN	aldehyde dehydrogenase 9A1	301					carnitine biosynthetic process|cellular aldehyde metabolic process|hormone metabolic process|neurotransmitter biosynthetic process	cytosol|plasma membrane	3-chloroallyl aldehyde dehydrogenase activity|4-trimethylammoniobutyraldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aminobutyraldehyde dehydrogenase activity				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				NADH(DB00157)	AATTTATCAAGAATTTCTTTC	0.393													15	76					8.60227e-14	9.65208e-14	1	1	0		T	165638645	T	T	165638645	3	4	89	1	0	0	0	0	1	0	0	0	506	942	33	5	603	5	ALDH9A1	1	165638645	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	455694	165638645	83611976	515	54346											
ALDH9A1	223	broad.mit.edu	37	chr1	165664630	165664630	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtgaaagtagctatcacTcggcctataaagagcggaaa	15	8	10	8	2	1	2	1	1	0	1	2	3	1	3	1	2	2	2	1	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:165664630T>G	uc001gdh.1	-	2	291	c.186A>C	c.(184-186)CGA>CGC	p.R62R	ALDH9A1_uc010pky.1_5'UTR|ALDH9A1_uc010pkz.1_Silent_p.R52R|ALDH9A1_uc010pla.1_5'UTR	NM_000696	NP_000687	P49189	AL9A1_HUMAN	aldehyde dehydrogenase 9A1	38					carnitine biosynthetic process|cellular aldehyde metabolic process|hormone metabolic process|neurotransmitter biosynthetic process	cytosol|plasma membrane	3-chloroallyl aldehyde dehydrogenase activity|4-trimethylammoniobutyraldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aminobutyraldehyde dehydrogenase activity				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				NADH(DB00157)	TAGCTATCACTCGGCCTATAA	0.323													32	102					0	0	1	0	0		G	165664630	G	G	165664630	2	3	89	1	0	0	0	0	0	0	0	1	506	1538	54	5		5	ALDH9A1	1	165664630	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	25985	165664630	83585991	516	54347											
MAEL	84944	broad.mit.edu	37	chr1	166973498	166973498	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttacaaaacctttatagatTtattcatcccaacccaggga	14	12	5	10	0	1	1	1	0	0	1	2	2	2	2	3	1	3	1	3	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:166973498T>G	uc001gdy.1	+	6	676	c.605T>G	c.(604-606)TTT>TGT	p.F202C	MAEL_uc001gdz.1_Missense_Mutation_p.F171C|MAEL_uc009wvf.1_RNA	NM_032858	NP_116247	Q96JY0	MAEL_HUMAN	maelstrom homolog	202					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|multicellular organismal development|piRNA metabolic process|spermatogenesis	piP-body	DNA binding			skin(1)	1						CTTTATAGATTTATTCATCCC	0.363													83	61					0	0	1	0	0		G	166973498	G	G	166973498	3	3	89	1	0	0	0	0	1	0	0	0	9172	1841	64	5	627	5	MAEL	1	166973498	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1308868	166973498	82277123	517	54348											
DUSP27	92235	broad.mit.edu	37	chr1	167097037	167097037	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggggatgaggacactgAcagtgccatagggagcttcc	10	8	15	8	0	0	3	0	3	0	0	1	6	1	6	2	4	2	1	2	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:167097037A>G	uc001geb.1	+	5	2669	c.2669A>G	c.(2668-2670)GAC>GGC	p.D890G		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	890					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						GAGGACACTGACAGTGCCATA	0.502													24	52					0	0	1	0	0		G	167097037	G	G	167097037	3	3	89	1	0	0	0	0	1	0	0	0	4830	275	10	3	2687	3	DUSP27	1	167097037	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	123539	167097037	82153584	518	54349											
CD247	919	broad.mit.edu	37	chr1	167408594	167408594	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacttacgttatagagctggTtctggccctgctggtacgcg	6	12	13	10	3	1	1	0	0	1	1	1	2	1	1	1	3	4	5	1	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:167408594T>C	uc001gei.3	-	3	351	c.206A>G	c.(205-207)AAC>AGC	p.N69S	CD247_uc001gej.3_Missense_Mutation_p.N69S|CD247_uc001gek.2_Missense_Mutation_p.N69S	NM_198053	NP_932170	P20963	CD3Z_HUMAN	T-cell receptor zeta chain isoform 1 precursor	69	Cytoplasmic (Potential).|ITAM 1.				interspecies interaction between organisms|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytoplasm|integral to membrane	protein homodimerization activity|transmembrane receptor activity				0			LUSC - Lung squamous cell carcinoma(543;0.236)			ATAGAGCTGGTTCTGGCCCTG	0.602													43	55					0	0	1	0	0		C	167408594	C	C	167408594	3	2	89	1	0	0	0	0	1	0	0	0	2991	1725	60	3	312	3	CD247	1	167408594	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	311557	167408594	81842027	519	54350											
DCAF6	55827	broad.mit.edu	37	chr1	167921046	167921046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttttaaacaggaagaagaGaatttatccaaagattaaaa	20	11	6	4	0	0	3	0	0	0	3	1	5	1	4	1	1	1	0	1	1	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:167921046G>A	uc001gew.2	+	2	348	c.106G>A	c.(106-108)GAA>AAA	p.E36K	DCAF6_uc001gev.2_Missense_Mutation_p.E36K|DCAF6_uc001gex.2_Missense_Mutation_p.E36K|DCAF6_uc010plk.1_Missense_Mutation_p.E36K	NM_001017977	NP_001017977	Q58WW2	DCAF6_HUMAN	IQ motif and WD repeats 1 isoform b	36					positive regulation of transcription from RNA polymerase II promoter	CUL4 RING ubiquitin ligase complex|nucleus	ligand-dependent nuclear receptor transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						AGGAAGAAGAGAATTTATCCA	0.249													15	62					0	0	1	0	0		A	167921046	A	A	167921046	3	1	89	1	0	0	0	0	1	0	0	0	4277	943	33	4	112	4	DCAF6	1	167921046	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	512452	167921046	81329575	520	54351											
DCAF6	55827	broad.mit.edu	37	chr1	168037606	168037606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccttgtaggttataactcGaaacgaactcatgctggaag	12	11	10	8	2	1	0	1	0	0	0	2	3	1	1	1	2	5	3	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:168037606G>A	uc001gew.2	+	18	2665	c.2423G>A	c.(2422-2424)CGA>CAA	p.R808Q	DCAF6_uc001gev.2_Missense_Mutation_p.R828Q|DCAF6_uc001gex.2_Missense_Mutation_p.R899Q|DCAF6_uc010plk.1_Missense_Mutation_p.R868Q|DCAF6_uc001gey.2_Missense_Mutation_p.R681Q|DCAF6_uc001gez.2_Missense_Mutation_p.R111Q	NM_001017977	NP_001017977	Q58WW2	DCAF6_HUMAN	IQ motif and WD repeats 1 isoform b	808					positive regulation of transcription from RNA polymerase II promoter	CUL4 RING ubiquitin ligase complex|nucleus	ligand-dependent nuclear receptor transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GTTATAACTCGAAACGAACTC	0.388													16	51					0	0	1	0	0		A	168037606	A	A	168037606	3	1	89	1	0	0	0	0	1	0	0	0	4277	1058	37	1	2557	1	DCAF6	1	168037606	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	116560	168037606	81213015	521	54352											
SFT2D2	375035	broad.mit.edu	37	chr1	168208388	168208388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtacagcctttccttcataCcatttgcaaggtaagactgt	10	13	8	10	0	1	1	1	0	0	1	2	1	2	1	3	2	4	3	3	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:168208388C>T	uc001gfi.3	+	7	496	c.433C>T	c.(433-435)CCA>TCA	p.P145S	TBX19_uc001gfj.3_Intron	NM_199344	NP_955376	O95562	SFT2B_HUMAN	SFT2 domain containing 2	145	Cytoplasmic (Potential).				protein transport|vesicle-mediated transport	integral to membrane				skin(1)	1	all_hematologic(923;0.215)					TTCCTTCATACCATTTGCAAG	0.353													80	93					0	0	1	0	0		T	168208388	T	T	168208388	3	4	89	1	0	0	0	0	1	0	0	0	14211	507	18	4	459	4	SFT2D2	1	168208388	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	170782	168208388	81042233	522	54353											
ATP1B1	481	broad.mit.edu	37	chr1	169080737	169080737	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaccgagtggccccgccagGtaaaatccacatgaatagct	12	6	11	12	2	0	1	0	1	0	0	1	3	1	2	5	3	1	2	5	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:169080737G>A	uc001gfs.1	+	2		c.347_splice	c.e2+1					P05026	AT1B1_HUMAN	Synthetic construct DNA, clone: pF1KB8186, Homo sapiens ATP1B1 gene for ATPase, Na+/K+ transporting, beta 1 polypeptide, without stop codon, in Flexi system.						ATP biosynthetic process|blood coagulation|leukocyte migration	sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	all_hematologic(923;0.208)					GCCCCGCCAGGTAAAATCCAC	0.433													18	71					0	0	1	0	0		A	169080737	A	A	169080737	5	1	89	1	0	0	0	0	0	0	1	0	1133	1275	44	4	233	4	ATP1B1	1	169080737	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	872349	169080737	80169884	523	54354											
ATP1B1	481	broad.mit.edu	37	chr1	169101455	169101455	+	RNA	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acactacagaaaaacacaaaAaggtgatgggttgtgttatg	17	9	10	5	0	0	2	0	1	0	1	0	2	0	2	0	2	2	2	0	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:169101455A>C	uc001gfs.1	+	6		c.1699A>C						P05026	AT1B1_HUMAN	Synthetic construct DNA, clone: pF1KB8186, Homo sapiens ATP1B1 gene for ATPase, Na+/K+ transporting, beta 1 polypeptide, without stop codon, in Flexi system.						ATP biosynthetic process|blood coagulation|leukocyte migration	sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	all_hematologic(923;0.208)					AAAACACAAAAAGGTGATGGG	0.428													4	18					0	0	1	0	0		C	169101455	C	C	169101455	1	2	89	0	1	0	0	0	0	0	0	0	1133	29	1	5		5	ATP1B1	1	169101455	RNA	SNP	A	TCGA-BR-8680-01A-11D-2394-08	20718	169101455	80149166	524	54355											
NME7	29922	broad.mit.edu	37	chr1	169292429	169292429	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataccagttgtcgagaaaaGacattcactttgttgcctat	13	13	7	8	1	1	2	1	0	0	2	2	3	1	2	2	0	2	2	2	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:169292429G>T	uc001gfu.2	-	3	442	c.204C>A	c.(202-204)GTC>GTA	p.V68V	NME7_uc010plq.1_RNA|NME7_uc001gft.2_Silent_p.V32V|NME7_uc001gfv.1_Silent_p.V68V	NM_013330	NP_037462	Q9Y5B8	NDK7_HUMAN	nucleoside diphosphate kinase 7 isoform a	68	DM10.				CTP biosynthetic process|GTP biosynthetic process|UTP biosynthetic process	centrosome	ATP binding|metal ion binding|nucleoside diphosphate kinase activity			central_nervous_system(1)	1	all_hematologic(923;0.208)					GTCGAGAAAAGACATTCACTT	0.358													41	158					3.76604e-16	4.31307e-16	1	1	0		T	169292429	T	T	169292429	2	4	89	1	0	0	0	0	0	0	0	1	10515	929	33	5		5	NME7	1	169292429	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	190974	169292429	79958192	525	54356											
F5	2153	broad.mit.edu	37	chr1	169509977	169509977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggaggtgatatctggctgaGatccgggagaagggtggtgt	9	9	19	4	1	1	3	0	2	1	2	2	6	2	4	1	6	0	1	1	6	2	1	rs35866019		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:169509977G>A	uc001ggg.1	-	13	4496	c.4351C>T	c.(4351-4353)CTC>TTC	p.L1451F		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1451	2-30.|35 X 9 AA approximate tandem repeats of [TNP]-L-S-P-D-L-S-Q-T.|B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	ATCTGGCTGAGATCCGGGAGA	0.468													65	69					0	0	1	0	0		A	169509977	A	A	169509977	3	1	89	1	0	0	0	0	1	0	0	0	5356	942	33	4	2375	4	F5	1	169509977	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	217548	169509977	79740644	526	54357											
F5	2153	broad.mit.edu	37	chr1	169521904	169521904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcatcttcgtactgtgtgTacataactttcttataatgt	10	18	5	8	1	3	0	1	0	2	0	4	0	3	0	0	0	3	2	0	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:169521904T>C	uc001ggg.1	-	8	1332	c.1187A>G	c.(1186-1188)TAC>TGC	p.Y396C	F5_uc010plr.1_RNA	NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	396	F5/8 type A 2.|Plastocyanin-like 3.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	GTACTGTGTGTACATAACTTT	0.348													29	152					0	0	1	0	0		C	169521904	C	C	169521904	3	2	89	1	0	0	0	0	1	0	0	0	5356	1638	57	3	5559	3	F5	1	169521904	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	11927	169521904	79728717	527	54358											
C1orf112	55732	broad.mit.edu	37	chr1	169771777	169771777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacagactgtgaaattattcGatgacatgatgtatgaatta	15	14	8	4	1	0	5	0	4	0	1	1	6	0	5	0	0	1	1	0	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:169771777G>A	uc001ggp.2	+	5	392	c.82G>A	c.(82-84)GAT>AAT	p.D28N	C1orf112_uc001ggj.2_RNA|C1orf112_uc001ggo.2_Missense_Mutation_p.D28N|C1orf112_uc001ggq.2_Missense_Mutation_p.D28N|C1orf112_uc009wvt.2_5'UTR|C1orf112_uc010plu.1_5'UTR|C1orf112_uc009wvu.1_5'UTR|C1orf112_uc001ggr.2_5'UTR|C1orf112_uc010plv.1_5'Flank	NM_018186	NP_060656	Q9NSG2	CA112_HUMAN	hypothetical protein LOC55732	28											0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GAAATTATTCGATGACATGAT	0.323													18	53					0	0	1	0	0		A	169771777	A	A	169771777	3	1	89	1	0	0	0	0	1	0	0	0	1988	1058	37	1	88	1	C1orf112	1	169771777	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	249873	169771777	79478844	528	54359											
SCYL3	57147	broad.mit.edu	37	chr1	169823858	169823858	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtatctaagctgctgggCtcgcagtcatcccaagatga	10	11	10	10	1	2	2	1	1	1	1	4	2	3	2	1	1	2	5	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:169823858C>T	uc001ggs.2	-	13	1920	c.1722G>A	c.(1720-1722)GAG>GAA	p.E574E	SCYL3_uc010plw.1_Silent_p.E166E|SCYL3_uc001ggt.2_Silent_p.E520E|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	574	Interaction with EZR.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AGCTGCTGGGCTCGCAGTCAT	0.473													52	198					0	0	1	0	0		T	169823858	T	T	169823858	2	4	89	1	0	0	0	0	0	0	0	1	13974	796	28	2		2	SCYL3	1	169823858	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	52081	169823858	79426763	529	54360											
SCYL3	57147	broad.mit.edu	37	chr1	169828220	169828220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatttttagtaaaacttgggGcagtgcgtttgaagatcttg	10	16	11	4	1	1	2	0	1	1	1	1	2	1	2	0	2	2	3	0	2	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:169828220G>A	uc001ggs.2	-	11	1472	c.1274C>T	c.(1273-1275)GCC>GTC	p.A425V	SCYL3_uc010plw.1_Missense_Mutation_p.A71V|SCYL3_uc001ggt.2_Missense_Mutation_p.A425V|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	425					cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AAAACTTGGGGCAGTGCGTTT	0.383													31	115					0	0	1	0	0		A	169828220	A	A	169828220	3	1	89	1	0	0	0	0	1	0	0	0	13974	1203	42	2	970	2	SCYL3	1	169828220	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4362	169828220	79422401	530	54361											
SCYL3	57147	broad.mit.edu	37	chr1	169836042	169836042	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttctgaacttacttaaaGaattccgttttctcctcttc	9	19	3	10	1	3	2	0	1	3	1	6	2	4	2	2	0	2	1	2	0	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:169836042G>T	uc001ggs.2	-	8	1008	c.810C>A	c.(808-810)TTC>TTA	p.F270L	SCYL3_uc010plw.1_5'UTR|SCYL3_uc001ggt.2_Missense_Mutation_p.F270L|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	270					cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CTTACTTAAAGAATTCCGTTT	0.289													15	38					1.49906e-05	1.54644e-05	1	1	0		T	169836042	T	T	169836042	3	4	89	1	0	0	0	0	1	0	0	0	13974	933	33	5	1446	5	SCYL3	1	169836042	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7822	169836042	79414579	531	54362											
GORAB	92344	broad.mit.edu	37	chr1	170511686	170511686	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaacggctaatggaagaGaaaaataaacgtaaaaaagc	23	4	9	5	2	0	1	0	0	0	1	0	4	0	2	0	2	4	2	0	2	11	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:170511686G>T	uc001gha.2	+	3	576	c.549G>T	c.(547-549)GAG>GAT	p.E183D	GORAB_uc001ggz.3_Missense_Mutation_p.E183D|GORAB_uc009wvx.2_Missense_Mutation_p.E3D|GORAB_uc001ghb.2_Missense_Mutation_p.E3D|GORAB_uc001ghc.2_Missense_Mutation_p.E3D|GORAB_uc001ghd.2_5'Flank	NM_152281	NP_689494	Q5T7V8	GORAB_HUMAN	golgin, RAB6-interacting isoform a	183	Potential.					Golgi apparatus|nucleus					0						TAATGGAAGAGAAAAATAAAC	0.398													47	129					9.90819e-18	1.15148e-17	1	1	0		T	170511686	T	T	170511686	3	4	89	1	0	0	0	0	1	0	0	0	6589	933	33	5	559	5	GORAB	1	170511686	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	675644	170511686	78738935	532	54363											
C1orf129	80133	broad.mit.edu	37	chr1	170952658	170952658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaaggagtttcaacaagacGaaagtaaaatagctcaggta	18	7	9	7	1	2	1	2	0	0	1	2	3	2	2	1	2	2	4	1	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:170952658G>A	uc001ghg.2	+	9	842	c.712G>A	c.(712-714)GAA>AAA	p.E238K	C1orf129_uc009wvy.2_Missense_Mutation_p.E45K|C1orf129_uc010plz.1_Missense_Mutation_p.E238K	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	238							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TCAACAAGACGAAAGTAAAAT	0.358													8	54					0	0	1	0	0		A	170952658	A	A	170952658	3	1	89	1	0	0	0	0	1	0	0	0	1999	1059	37	1	742	1	C1orf129	1	170952658	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	440972	170952658	78297963	533	54364											
C1orf129	80133	broad.mit.edu	37	chr1	170967331	170967331	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactttccacagtttccggaGaccctgagttatctctataa	11	13	6	11	1	1	2	0	1	1	1	4	3	3	2	3	1	1	2	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:170967331G>T	uc001ghg.2	+	15	1642	c.1512G>T	c.(1510-1512)GAG>GAT	p.E504D	C1orf129_uc009wvy.2_Missense_Mutation_p.E311D|C1orf129_uc010plz.1_Missense_Mutation_p.E504D	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	504							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AGTTTCCGGAGACCCTGAGTT	0.393													36	105					6.29468e-14	7.06965e-14	1	1	0		T	170967331	T	T	170967331	3	4	89	1	0	0	0	0	1	0	0	0	1999	933	33	5	1566	5	C1orf129	1	170967331	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14673	170967331	78283290	534	54365											
C1orf129	80133	broad.mit.edu	37	chr1	170967484	170967484	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cccaaatttaaatcaaaattCcagtttctcgtatctctccc	12	14	2	13	1	3	0	1	0	2	0	7	0	5	0	3	0	0	2	3	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:170967484C>T	uc001ghg.2	+	15	1795	c.1665C>T	c.(1663-1665)TTC>TTT	p.F555F	C1orf129_uc009wvy.2_Silent_p.F362F|C1orf129_uc010plz.1_Intron	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	555							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AATCAAAATTCCAGTTTCTCG	0.383													59	58					0	0	1	0	0		T	170967484	T	T	170967484	2	4	89	1	0	0	0	0	0	0	0	1	1999	854	30	4		4	C1orf129	1	170967484	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	153	170967484	78283137	535	54366											
FMO2	2327	broad.mit.edu	37	chr1	171173122	171173122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctccgcaatgtactgccacGaacagctgtaaaatggatga	13	8	10	10	2	0	1	0	1	0	0	1	3	1	2	2	1	4	5	2	1	5	2	rs147029269	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:171173122G>A	uc001ghk.1	+	6	863	c.746G>A	c.(745-747)CGA>CAA	p.R249Q	FMO2_uc010pmd.1_Missense_Mutation_p.R29Q	NM_001460	NP_001451	Q99518	FMO2_HUMAN	flavin containing monooxygenase 2	249					drug metabolic process|NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|host cell microsome|integral to membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GTACTGCCACGAACAGCTGTA	0.453													20	65					0	0	1	0	0		A	171173122	A	A	171173122	3	1	89	1	0	0	0	0	1	0	0	0	5969	1058	37	1	764	1	FMO2	1	171173122	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	205638	171173122	78077499	536	54367											
FMO4	2329	broad.mit.edu	37	chr1	171300852	171300852	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggctttcagggcaaacgCgtcttggtgattggtcttgg	7	12	15	7	2	3	1	1	1	2	0	3	2	3	1	0	5	1	2	0	5	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:171300852C>T	uc001gho.2	+	6	775	c.558C>T	c.(556-558)CGC>CGT	p.R186R		NM_002022	NP_002013	P31512	FMO4_HUMAN	flavin containing monooxygenase 4	186					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			kidney(2)|skin(1)	3	all_cancers(6;3.9e-08)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					AGGGCAAACGCGTCTTGGTGA	0.468													47	195					0	0	1	0	0		T	171300852	T	T	171300852	2	4	89	1	0	0	0	0	0	0	0	1	5971	755	27	1		1	FMO4	1	171300852	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	127730	171300852	77949769	537	54368											
PIGC	5279	broad.mit.edu	37	chr1	172411136	172411136	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacatgggccacagggcaaaAatctgaatggcaaatgtcac	16	6	10	9	0	2	1	1	1	1	0	2	1	2	1	1	3	1	2	1	3	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:172411136A>C	uc001gil.2	-	2	908	c.627T>G	c.(625-627)ATT>ATG	p.I209M	PIGC_uc001gii.1_Intron|PIGC_uc001gij.1_Intron|C1orf105_uc001gik.2_Intron|PIGC_uc001gin.2_Missense_Mutation_p.I209M|PIGC_uc001gio.2_Missense_Mutation_p.I209M	NM_153747	NP_714969	Q92535	PIGC_HUMAN	phosphatidylinositol glycan, class C	209					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity			lung(1)	1						ACAGGGCAAAAATCTGAATGG	0.512													28	115					0	0	1	0	0		C	172411136	C	C	172411136	3	2	89	1	0	0	0	0	1	0	0	0	11905	10	1	5	270	5	PIGC	1	172411136	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1110284	172411136	76839485	538	54369											
C1orf9	51430	broad.mit.edu	37	chr1	172539808	172539808	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttttaaaatagagcacAtctgctattcttatagaaaa	15	15	4	7	0	3	2	0	0	3	2	3	2	3	2	0	0	2	2	0	0	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:172539808A>G	uc001giq.3	+	9	1303	c.987A>G	c.(985-987)ACA>ACG	p.T329T	C1orf9_uc010pmm.1_Silent_p.T329T|C1orf9_uc009wwd.2_Silent_p.T292T|C1orf9_uc010pmn.1_Silent_p.T292T|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	329	SUN.				multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		AATAGAGCACATCTGCTATTC	0.264													10	51					0	0	1	0	0		G	172539808	G	G	172539808	2	3	89	1	0	0	0	0	0	0	0	1	2070	204	8	3		3	C1orf9	1	172539808	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	128672	172539808	76710813	539	54370											
FASLG	356	broad.mit.edu	37	chr1	172634779	172634779	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcaagtccaactcaaggTccatgcctctggaatgggaa	12	7	11	11	0	2	0	1	0	1	0	4	2	4	2	3	4	2	1	3	4	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:172634779T>C	uc001gis.2	+	4	626	c.469T>C	c.(469-471)TCC>CCC	p.S157P	FASLG_uc001git.2_3'UTR	NM_000639	NP_000630	P48023	TNFL6_HUMAN	fas ligand	157	Extracellular (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of necroptosis by extracellular signals|induction of necroptosis of activated-T cells|necrotic cell death|negative regulation of angiogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane	cytokine activity			lung(2)|breast(1)	3						CAACTCAAGGTCCATGCCTCT	0.443													22	84					0	0	1	0	0		C	172634779	C	C	172634779	3	2	89	1	0	0	0	0	1	0	0	0	5696	1667	58	3	483	3	FASLG	1	172634779	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	94971	172634779	76615842	540	54371											
TNFSF4	7292	broad.mit.edu	37	chr1	173176216	173176216	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcacaggagcagccccaGtccctgaattacagaggcca	13	4	11	13	0	0	2	0	1	0	1	1	4	1	3	4	2	4	2	4	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:173176216G>A	uc001giw.2	-	1	256	c.100C>T	c.(100-102)CTG>TTG	p.L34L	TNFSF4_uc001giv.2_5'Flank	NM_003326	NP_003317	P23510	TNFL4_HUMAN	tumor necrosis factor (ligand) superfamily,	34	Helical; Signal-anchor for type II membrane protein; (Potential).				acute inflammatory response|cellular response to lipopolysaccharide|cellular response to prostaglandin E stimulus|chemokine (C-C motif) ligand 11 production|defense response to nematode|interleukin-4-dependent isotype switching to IgE isotypes|memory T cell activation|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of regulatory T cell differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T-helper 1 cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of alpha-beta T cell proliferation|positive regulation of B cell activation|positive regulation of immunoglobulin mediated immune response|positive regulation of immunoglobulin secretion|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-13 production|positive regulation of interleukin-4 production|positive regulation of interleukin-6 production|positive regulation of memory T cell differentiation|positive regulation of T cell cytokine production|positive regulation of T-helper 2 cell differentiation|positive regulation of type 2 immune response|response to virus|signal transduction|T-helper 2 cell activation	cell surface|extracellular space|integral to plasma membrane	cytokine activity			central_nervous_system(1)	1						AGCAGCCCCAGTCCCTGAATT	0.542													20	61					0	0	1	0	0		A	173176216	A	A	173176216	2	1	89	1	0	0	0	0	0	0	0	1	16335	1020	36	4		4	TNFSF4	1	173176216	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	541437	173176216	76074405	541	54372											
SLC9A11	284525	broad.mit.edu	37	chr1	173542456	173542456	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatacagatgaaaaaattCttaagaacctaggatgaatg	19	10	7	5	0	1	4	0	2	1	2	1	5	1	5	1	1	2	0	1	1	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:173542456C>A	uc001giz.2	-	9	1334	c.911G>T	c.(910-912)AGA>ATA	p.R304I	SLC9A11_uc009wwe.2_5'UTR|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	304					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						TGAAAAAATTCTTAAGAACCT	0.274													14	45					1.3612e-06	1.41942e-06	1	1	0		A	173542456	A	A	173542456	3	1	89	1	0	0	0	0	1	0	0	0	14736	913	32	5	2543	5	SLC9A11	1	173542456	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	366240	173542456	75708165	542	54373											
ANKRD45	339416	broad.mit.edu	37	chr1	173616051	173616051	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaacatctcgagccctttCttcccggaagttcaaagctt	10	11	7	13	2	3	0	1	0	2	0	5	2	4	1	2	1	4	3	2	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:173616051C>A	uc001gja.1	-	3	491	c.430G>T	c.(430-432)GAA>TAA	p.E144*		NM_198493	NP_940895	Q5TZF3	ANR45_HUMAN	ankyrin repeat domain 45	160											0						CGAGCCCTTTCTTCCCGGAAG	0.468													28	128					9.39395e-14	1.05303e-13	1	1	0		A	173616051	A	A	173616051	4	1	89	1	0	0	0	0	0	1	0	0	673	922	32	5	386	5	ANKRD45	1	173616051	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	73595	173616051	75634570	543	54374											
DARS2	55157	broad.mit.edu	37	chr1	173795873	173795873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacatgtggagagttgcgttCgtctcacttaggccaagaag	10	10	12	9	2	1	2	1	0	1	2	3	3	1	2	1	2	1	2	1	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:173795873C>T	uc001gjh.1	+	2	586	c.176C>T	c.(175-177)TCG>TTG	p.S59L	CENPL_uc009wwg.2_5'Flank|CENPL_uc001gje.3_5'Flank|CENPL_uc001gjg.3_5'Flank|CENPL_uc001gjf.3_5'Flank	NM_018122	NP_060592	Q6PI48	SYDM_HUMAN	aspartyl-tRNA synthetase 2, mitochondrial	59					tRNA aminoacylation for protein translation	mitochondrial matrix|nucleus	aspartate-tRNA ligase activity|ATP binding|nucleic acid binding			central_nervous_system(2)	2					L-Aspartic Acid(DB00128)	GAGTTGCGTTCGTCTCACTTA	0.383													21	81					0	0	1	0	0		T	173795873	T	T	173795873	3	4	89	1	0	0	0	0	1	0	0	0	4245	893	31	1	182	1	DARS2	1	173795873	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	179822	173795873	75454748	544	54375											
RC3H1	149041	broad.mit.edu	37	chr1	173934066	173934066	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctggggtctgtccctcgCggaataagctgtgttactgt	6	13	13	9	2	1	0	0	0	1	0	3	1	2	1	1	3	3	3	1	3	4	3	rs143588430	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:173934066C>T	uc001gju.3	-	9	1614	c.1527G>A	c.(1525-1527)CCG>CCA	p.P509P	RC3H1_uc010pms.1_Silent_p.P509P|RC3H1_uc001gjv.2_Silent_p.P509P|RC3H1_uc010pmt.1_Silent_p.P509P	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	509					cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CTGTCCCTCGCGGAATAAGCT	0.478													52	123					0	0	1	0	0		T	173934066	T	T	173934066	2	4	89	1	0	0	0	0	0	0	0	1	13191	755	27	1		1	RC3H1	1	173934066	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	138193	173934066	75316555	545	54376											
TNR	7143	broad.mit.edu	37	chr1	175325525	175325525	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatacatggtggcagtataGtgggtgctaggaagcaggtc	10	9	16	6	0	0	0	0	0	0	0	1	1	0	1	0	5	3	5	0	5	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:175325525G>A	uc001gkp.1	-	14	3129	c.3048C>T	c.(3046-3048)CAC>CAT	p.H1016H	TNR_uc009wwu.1_Silent_p.H1016H	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1016	Fibronectin type-III 8.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TGGCAGTATAGTGGGTGCTAG	0.488													32	122					0	0	1	0	0		A	175325525	A	A	175325525	2	1	89	1	0	0	0	0	0	0	0	1	16363	1020	36	4		4	TNR	1	175325525	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1391459	175325525	73925096	546	54377											
TNR	7143	broad.mit.edu	37	chr1	175372721	175372721	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaaagctaaagttgccgtgGccactgcagtgagggatata	12	9	12	8	1	1	1	1	1	0	0	1	2	1	2	2	2	3	3	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:175372721G>A	uc001gkp.1	-	2	612	c.531C>T	c.(529-531)GGC>GGT	p.G177G	TNR_uc009wwu.1_Silent_p.G177G|TNR_uc010pmz.1_Silent_p.G177G	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	177	Cys-rich.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					AGTTGCCGTGGCCACTGCAGT	0.562													33	140					0	0	1	0	0		A	175372721	A	A	175372721	2	1	89	1	0	0	0	0	0	0	0	1	16363	1190	42	2		2	TNR	1	175372721	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	47196	175372721	73877900	547	54378											
TNR	7143	broad.mit.edu	37	chr1	175375428	175375428	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctccctctccagcatctcGatccggctcagcagctcctg	6	9	7	19	2	3	0	1	0	2	0	8	1	6	0	5	1	3	4	5	1	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:175375428G>A	uc001gkp.1	-	1	504	c.423C>T	c.(421-423)ATC>ATT	p.I141I	TNR_uc009wwu.1_Silent_p.I141I|TNR_uc010pmz.1_Silent_p.I141I	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	141	Potential.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CCAGCATCTCGATCCGGCTCA	0.597													65	58					0	0	1	0	0		A	175375428	A	A	175375428	2	1	89	1	0	0	0	0	0	0	0	1	16363	1048	37	1		1	TNR	1	175375428	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2707	175375428	73875193	548	54379											
PAPPA2	60676	broad.mit.edu	37	chr1	176525332	176525332	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatttgaaaaagtttggtCtgtgaacaaaacagtttccc	13	13	8	7	0	1	2	0	2	1	0	2	2	2	2	1	1	2	3	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:176525332C>A	uc001gkz.2	+	2	1038	c.-126C>A	c.(-128--124)GTCTG>GTATG		PAPPA2_uc001gky.1_Translation_Start_Site|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1						cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						AAAGTTTGGTCTGTGAACAAA	0.527													7	26					0.0293803	0.0295462	1	1	0		A	176525332	A	A	176525332	1	1	89	1	0	0	0	0	0	0	0	0	11452	928	32	5		5	PAPPA2	1	176525332	Translation_Start_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1149904	176525332	72725289	549	54380											
PAPPA2	60676	broad.mit.edu	37	chr1	176671862	176671862	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttattgtggagatgggaAggtgtcagagtgagtatttt	9	15	14	3	0	1	3	1	1	0	2	2	5	2	4	1	3	0	1	1	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:176671862A>C	uc001gkz.2	+	9	4520	c.3356A>C	c.(3355-3357)AAG>ACG	p.K1119T	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1119					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GGAGATGGGAAGGTGTCAGAG	0.313													11	68					0	0	1	0	0		C	176671862	C	C	176671862	3	2	89	1	0	0	0	0	1	0	0	0	11452	72	3	5	3439	5	PAPPA2	1	176671862	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	146530	176671862	72578759	550	54381											
ASTN1	460	broad.mit.edu	37	chr1	176857271	176857271	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaagcagtggagtcacatcGacaccagtcctcgatgacat	14	7	9	11	2	1	1	1	1	0	0	4	4	2	2	2	1	1	1	2	1	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:176857271G>A	uc001glc.2	-	18	3222	c.3010C>T	c.(3010-3012)CGA>TGA	p.R1004*	ASTN1_uc001glb.1_Nonsense_Mutation_p.R1004*|ASTN1_uc001gld.1_Nonsense_Mutation_p.R1004*	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	1012					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GAGTCACATCGACACCAGTCC	0.527													51	42					0	0	1	0	0		A	176857271	A	A	176857271	4	1	89	1	0	0	0	0	0	1	0	0	1065	1066	37	1	902	1	ASTN1	1	176857271	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	185409	176857271	72393350	551	54382											
ASTN1	460	broad.mit.edu	37	chr1	176903370	176903370	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagaacaggactcctcaaaGccgtagatagcttcctggat	13	9	9	10	1	1	2	1	0	0	2	3	4	3	4	3	2	3	2	3	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:176903370G>A	uc001glc.2	-	16	2801	c.2589C>T	c.(2587-2589)GGC>GGT	p.G863G	ASTN1_uc001glb.1_Silent_p.G863G|ASTN1_uc001gld.1_Silent_p.G863G	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	871					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						ACTCCTCAAAGCCGTAGATAG	0.522													42	52					0	0	1	0	0		A	176903370	A	A	176903370	2	1	89	1	0	0	0	0	0	0	0	1	1065	958	34	2		2	ASTN1	1	176903370	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	46099	176903370	72347251	552	54383											
ASTN1	460	broad.mit.edu	37	chr1	176983952	176983952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttgtcccccattcgttccGaatgcaaaggtgcttatgta	8	14	9	10	2	0	0	0	0	0	0	3	1	2	0	3	1	2	5	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:176983952G>A	uc001glc.2	-	8	1710	c.1498C>T	c.(1498-1500)CGG>TGG	p.R500W	ASTN1_uc001glb.1_Missense_Mutation_p.R500W|ASTN1_uc001gld.1_Missense_Mutation_p.R500W|ASTN1_uc009wwx.1_Missense_Mutation_p.R500W|ASTN1_uc001gle.3_RNA	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	508					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						CATTCGTTCCGAATGCAAAGG	0.493													316	252					0	0	1	0	0		A	176983952	A	A	176983952	3	1	89	1	0	0	0	0	1	0	0	0	1065	1057	37	1	2454	1	ASTN1	1	176983952	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	80582	176983952	72266669	553	54384											
FAM5B	57795	broad.mit.edu	37	chr1	177245497	177245497	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aactgccctgatgctgacatCcaggccatggaggacagcct	10	7	11	13	0	0	2	0	2	0	0	1	4	1	4	4	3	4	1	4	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:177245497C>T	uc001glf.2	+	6	1251	c.939C>T	c.(937-939)ATC>ATT	p.I313I	FAM5B_uc010pna.1_Silent_p.I63I|FAM5B_uc001glg.2_Silent_p.I208I	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	313						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						ATGCTGACATCCAGGCCATGG	0.577													33	28					0	0	1	0	0		T	177245497	T	T	177245497	2	4	89	1	0	0	0	0	0	0	0	1	5607	845	30	4		4	FAM5B	1	177245497	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	261545	177245497	72005124	554	54385											
RASAL2	9462	broad.mit.edu	37	chr1	178423770	178423770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttactgtgggaagtagtttCccaacttgataaggtaaagt	12	13	10	6	0	0	1	0	1	0	0	1	2	1	2	1	2	2	3	1	2	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:178423770C>T	uc001glr.2	+	10	1879	c.1754C>T	c.(1753-1755)TCC>TTC	p.S585F	RASAL2_uc001glq.2_Missense_Mutation_p.S733F|RASAL2_uc009wxc.2_Missense_Mutation_p.S99F	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	585					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						GAAGTAGTTTCCCAACTTGAT	0.418													22	91					0	0	1	0	0		T	178423770	T	T	178423770	3	4	89	1	0	0	0	0	1	0	0	0	13089	855	30	4	2261	4	RASAL2	1	178423770	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1178273	178423770	70826851	555	54386											
C1orf125	126859	broad.mit.edu	37	chr1	179399642	179399642	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaaatggagaaacttagTgaataaacttaaacaagagg	22	7	8	4	0	0	3	0	1	0	2	0	4	0	3	0	2	3	0	0	2	10	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:179399642T>C	uc001gmo.2	+	14	1515	c.1388T>C	c.(1387-1389)GTG>GCG	p.V463A	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmn.1_Missense_Mutation_p.V251A|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.V463A	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	463	Potential.										0						AGAAACTTAGTGAATAAACTT	0.338													49	52					0	0	1	0	0		C	179399642	C	C	179399642	3	2	89	1	0	0	0	0	1	0	0	0	1996	1696	59	3	1438	3	C1orf125	1	179399642	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	975872	179399642	69850979	556	54387											
C1orf125	126859	broad.mit.edu	37	chr1	179504086	179504086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcagaaaattcctcaaaatCtccaaagaaaggtaaggatt	19	8	7	7	0	2	2	1	0	1	2	4	3	3	3	2	2	1	2	2	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:179504086C>T	uc001gmo.2	+	25	3147	c.3020C>T	c.(3019-3021)TCT>TTT	p.S1007F	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.S933F|C1orf125_uc009wxh.2_RNA	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	1007											0						TCCTCAAAATCTCCAAAGAAA	0.214													34	33					0	0	1	0	0		T	179504086	T	T	179504086	3	4	89	1	0	0	0	0	1	0	0	0	1996	913	32	4	3114	4	C1orf125	1	179504086	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	104444	179504086	69746535	557	54388											
NPHS2	7827	broad.mit.edu	37	chr1	179528894	179528894	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcaaaaaaaagaaaaGacctaaaagagaggaggagg	22	1	14	4	0	0	3	0	0	0	3	0	6	0	5	1	4	0	2	1	4	8	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:179528894G>T	uc001gmq.3	-	4	539	c.454C>A	c.(454-456)CTT>ATT	p.L152I	NPHS2_uc009wxi.2_Missense_Mutation_p.L152I	NM_014625	NP_055440	Q9NP85	PODO_HUMAN	podocin	152	Cytoplasmic (Potential).				excretion	integral to plasma membrane	protein binding				0						AAAAAGAAAAGACCTAAAAGA	0.438													7	8					0.00307968	0.0031162	1	1	0		T	179528894	T	T	179528894	3	4	89	1	0	0	0	0	1	0	0	0	10602	942	33	5	717	5	NPHS2	1	179528894	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24808	179528894	69721727	558	54389											
TDRD5	163589	broad.mit.edu	37	chr1	179564917	179564917	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccaagttaaatgtagtggaGacttcaagactgaatcacac	15	10	8	8	0	2	3	2	1	0	2	3	4	3	3	1	1	0	2	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:179564917G>A	uc001gnf.1	+	4	1045	c.795G>A	c.(793-795)GAG>GAA	p.E265E	TDRD5_uc010pnp.1_Silent_p.E265E	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	265					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						ATGTAGTGGAGACTTCAAGAC	0.363													51	52					0	0	1	0	0		A	179564917	A	A	179564917	2	1	89	1	0	0	0	0	0	0	0	1	15758	933	33	4		4	TDRD5	1	179564917	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	36023	179564917	69685704	559	54390											
KIAA1614	57710	broad.mit.edu	37	chr1	180904388	180904388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggcggggcccctcgccgtCgcacgtgcgctttgaggatg	4	7	17	13	6	0	1	0	1	0	0	2	3	0	2	3	4	1	2	3	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:180904388C>T	uc001gok.2	+	5	1410	c.1343C>T	c.(1342-1344)TCG>TTG	p.S448L	KIAA1614_uc001gol.1_Missense_Mutation_p.S69L|KIAA1614_uc001gom.1_Intron	NM_020950	NP_066001	Q5VZ46	K1614_HUMAN	hypothetical protein LOC57710	448										ovary(3)|skin(1)	4						CCCTCGCCGTCGCACGTGCGC	0.697													10	10					0	0	1	0	0		T	180904388	T	T	180904388	3	4	89	1	0	0	0	0	1	0	0	0	8264	893	31	1	1361	1	KIAA1614	1	180904388	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1339471	180904388	68346233	560	54391											
STX6	10228	broad.mit.edu	37	chr1	180962512	180962512	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcacctgtctattttttCtttcagctaatgcctgcaca	7	18	4	12	0	4	0	2	0	3	0	5	0	4	0	2	0	3	2	2	0	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:180962512C>A	uc010pnq.1	-	4	587	c.350G>T	c.(349-351)AGA>ATA	p.R117I	STX6_uc001goo.2_Missense_Mutation_p.R117I|STX6_uc010pnr.1_Missense_Mutation_p.R16I	NM_005819	NP_005810	O43752	STX6_HUMAN	syntaxin 6	117	Cytoplasmic (Potential).				Golgi vesicle transport|intracellular protein transport|vesicle fusion	clathrin-coated vesicle|early endosome|integral to membrane|perinuclear region of cytoplasm|plasma membrane|trans-Golgi network membrane	SNAP receptor activity			ovary(1)	1						TCTATTTTTTCTTTCAGCTAA	0.313													31	96					1.42033e-22	1.69513e-22	1	1	0		A	180962512	A	A	180962512	3	1	89	1	0	0	0	0	1	0	0	0	15374	913	32	5	437	5	STX6	1	180962512	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	58124	180962512	68288109	561	54392											
CACNA1E	777	broad.mit.edu	37	chr1	181684518	181684518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaaaatgctggaacatccGccttagaaggtaaggaaatg	17	8	10	6	1	0	1	0	0	0	1	1	3	1	3	2	3	2	2	2	3	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:181684518G>A	uc001gow.2	+	9	1381	c.1216G>A	c.(1216-1218)GCC>ACC	p.A406T	CACNA1E_uc009wxs.2_Missense_Mutation_p.A313T	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	406	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TGGAACATCCGCCTTAGAAGG	0.378													3	11					0	0	1	0	0		A	181684518	A	A	181684518	3	1	89	1	0	0	0	0	1	0	0	0	2545	1087	38	1	1250	1	CACNA1E	1	181684518	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	722006	181684518	67566103	562	54393											
RNASEL	6041	broad.mit.edu	37	chr1	182555419	182555419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacgtgtcctttttcagcagCgtccatgagagctgtggccc	6	12	11	12	2	1	1	1	1	0	1	3	2	3	1	3	1	4	2	3	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:182555419C>T	uc001gpj.1	-	1	690	c.523G>A	c.(523-525)GCT>ACT	p.A175T	RNASEL_uc009wxz.1_Missense_Mutation_p.A175T|RNASEL_uc001gpk.2_Missense_Mutation_p.A175T|RNASEL_uc009wya.1_Missense_Mutation_p.A175T	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	175	ANK 5.				mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						TTTTCAGCAGCGTCCATGAGA	0.473									Hereditary_Prostate_Cancer				19	86					0	0	1	0	0		T	182555419	T	T	182555419	3	4	89	1	0	0	0	0	1	0	0	0	13441	768	27	1	1726	1	RNASEL	1	182555419	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	870901	182555419	66695202	563	54394											
NPL	80896	broad.mit.edu	37	chr1	182798041	182798041	+	Nonstop_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaacttggaagctggtagcTagtgcctctctatcaaatca	12	11	9	9	0	3	0	2	0	1	0	4	2	3	1	1	2	4	3	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:182798041T>G	uc009wyb.2	+	13	1101	c.961T>G	c.(961-963)TAG>GAG	p.*321E	NPL_uc010pny.1_RNA|NPL_uc001gpo.1_Nonstop_Mutation_p.*302E|NPL_uc009wyc.2_Intron|NPL_uc001gpp.3_Intron|NPL_uc001gpq.1_Nonstop_Mutation_p.*321E	NM_030769	NP_110396	Q9BXD5	NPL_HUMAN	N-acetylneuraminate pyruvate lyase	321					carbohydrate metabolic process	cytoplasm	N-acetylneuraminate lyase activity			ovary(1)|central_nervous_system(1)|skin(1)	3						AGCTGGTAGCTAGTGCCTCTC	0.393													47	112					0	0	1	0	0		G	182798041	G	G	182798041	4	3	89	1	0	0	0	0	0	0	0	0	10604	1535	53	5	1003	5	NPL	1	182798041	Nonstop_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	242622	182798041	66452580	564	54395											
C1orf14	81626	broad.mit.edu	37	chr1	182908317	182908317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaaattattaccggaggCgtaaatcttcccacattttc	12	12	7	10	2	1	0	0	0	1	0	3	2	2	1	2	2	2	2	2	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:182908317C>T	uc001gpu.2	-	5	1355	c.1070G>A	c.(1069-1071)CGC>CAC	p.R357H	C1orf14_uc001gpv.2_Missense_Mutation_p.R238H|C1orf14_uc010pnz.1_Missense_Mutation_p.R215H|C1orf14_uc001gpw.2_Missense_Mutation_p.R77H	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	429											0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		TTACCGGAGGCGTAAATCTTC	0.333													31	40					0	0	1	0	0		T	182908317	T	T	182908317	3	4	89	1	0	0	0	0	1	0	0	0	2003	768	27	1	915	1	C1orf14	1	182908317	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	110276	182908317	66342304	565	54396											
LAMC1	3915	broad.mit.edu	37	chr1	183085943	183085943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggaatcatctaatcctcGgggttgcacaccctgcttct	7	13	8	13	1	4	0	1	0	3	0	6	1	5	1	2	3	2	3	2	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:183085943G>A	uc001gpy.3	+	8	1726	c.1469G>A	c.(1468-1470)CGG>CAG	p.R490Q		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	490	Laminin EGF-like 4.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCTAATCCTCGGGGTTGCACA	0.373													76	70					0	0	1	0	0		A	183085943	A	A	183085943	3	1	89	1	0	0	0	0	1	0	0	0	8630	1116	39	1	1499	1	LAMC1	1	183085943	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	177626	183085943	66164678	566	54397											
LAMC1	3915	broad.mit.edu	37	chr1	183091010	183091010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagaagagaaactcctaatCttggaccatacagtccatgt	15	9	7	10	0	1	2	0	0	1	2	3	4	3	3	3	1	2	0	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:183091010C>T	uc001gpy.3	+	12	2400	c.2143C>T	c.(2143-2145)CTT>TTT	p.L715F		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	715	Laminin EGF-like 5; second part.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AACTCCTAATCTTGGACCATA	0.512													41	35					0	0	1	0	0		T	183091010	T	T	183091010	3	4	89	1	0	0	0	0	1	0	0	0	8630	913	32	4	2189	4	LAMC1	1	183091010	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5067	183091010	66159611	567	54398											
LAMC1	3915	broad.mit.edu	37	chr1	183111855	183111855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagatcatgaaggacattcGcaatctggaggacatcagga	14	7	13	7	1	3	2	2	1	1	1	4	7	3	6	0	5	0	1	0	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:183111855G>A	uc001gpy.3	+	28	5017	c.4760G>A	c.(4759-4761)CGC>CAC	p.R1587H		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	1587	Potential.|Domain II and I.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAGGACATTCGCAATCTGGAG	0.502													52	45					0	0	1	0	0		A	183111855	A	A	183111855	3	1	89	1	0	0	0	0	1	0	0	0	8630	1087	38	1	4870	1	LAMC1	1	183111855	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	20845	183111855	66138766	568	54399											
NMNAT2	23057	broad.mit.edu	37	chr1	183259293	183259293	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccggtggtgttccaacacGctgcaggtcgtctgccaggt	5	10	13	13	3	1	0	0	0	1	0	4	0	3	0	3	4	3	3	3	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:183259293G>A	uc001gqc.1	-	4	626	c.291C>T	c.(289-291)AGC>AGT	p.S97S	NMNAT2_uc001gqb.1_Silent_p.S92S|NMNAT2_uc001gqd.2_5'UTR	NM_015039	NP_055854	Q9BZQ4	NMNA2_HUMAN	nicotinamide mononucleotide adenylyltransferase	97					water-soluble vitamin metabolic process	Golgi membrane|nucleus	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity			skin(1)	1						GTTCCAACACGCTGCAGGTCG	0.572													4	5					0	0	1	0	0		A	183259293	A	A	183259293	2	1	89	1	0	0	0	0	0	0	0	1	10518	1078	38	1		1	NMNAT2	1	183259293	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	147438	183259293	65991328	569	54400											
NCF2	4688	broad.mit.edu	37	chr1	183538297	183538297	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaagatctctggggttttCggtctgggtggaggctcagc	5	12	16	8	1	3	2	1	1	2	1	5	3	3	3	0	6	1	2	0	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:183538297C>T	uc001gqj.3	-	7	968	c.693G>A	c.(691-693)CCG>CCA	p.P231P	NCF2_uc010pod.1_Silent_p.P186P|NCF2_uc010poe.1_Silent_p.P150P|NCF2_uc001gqk.3_Silent_p.P231P	NM_000433	NP_000424	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	231					cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3						CTGGGGTTTTCGGTCTGGGTG	0.473													39	146					0	0	1	0	0		T	183538297	T	T	183538297	2	4	89	1	0	0	0	0	0	0	0	1	10236	871	31	1		1	NCF2	1	183538297	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	279004	183538297	65712324	570	54401											
RGL1	23179	broad.mit.edu	37	chr1	183816872	183816872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcaacgtacagaggctttgCctccactaaagaagtgctgg	11	10	10	10	1	1	2	1	0	0	2	2	2	2	2	2	2	4	3	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:183816872C>T	uc001gqo.2	+	3	468	c.311C>T	c.(310-312)GCC>GTC	p.A104V	RGL1_uc010pof.1_Intron|RGL1_uc001gqm.2_Missense_Mutation_p.A139V|RGL1_uc010pog.1_Missense_Mutation_p.A102V|RGL1_uc010poh.1_Missense_Mutation_p.A102V|RGL1_uc010poi.1_Missense_Mutation_p.A104V	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	104	N-terminal Ras-GEF.				cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						AGAGGCTTTGCCTCCACTAAA	0.458													45	122					0	0	1	0	0		T	183816872	T	T	183816872	3	4	89	1	0	0	0	0	1	0	0	0	13301	739	26	2	426	2	RGL1	1	183816872	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	278575	183816872	65433749	571	54402											
RGL1	23179	broad.mit.edu	37	chr1	183861216	183861216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatcccttttcatagggaccGaatgctgatgtttgaagaac	12	12	9	8	1	1	3	1	2	0	1	2	5	2	4	2	1	2	2	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:183861216G>A	uc001gqo.2	+	9	1218	c.1061G>A	c.(1060-1062)CGA>CAA	p.R354Q	RGL1_uc010pof.1_Missense_Mutation_p.R159Q|RGL1_uc001gqm.2_Missense_Mutation_p.R389Q|RGL1_uc010pog.1_Missense_Mutation_p.R352Q|RGL1_uc010poh.1_Missense_Mutation_p.R352Q|RGL1_uc010poi.1_Missense_Mutation_p.R354Q	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	354	Ras-GEF.				cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						CATAGGGACCGAATGCTGATG	0.428													18	35					0	0	1	0	0		A	183861216	A	A	183861216	3	1	89	1	0	0	0	0	1	0	0	0	13301	1058	37	1	1200	1	RGL1	1	183861216	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	44344	183861216	65389405	572	54403											
RGL1	23179	broad.mit.edu	37	chr1	183873985	183873985	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtattctgtctgctttaggAatttgaagtgattgcccaga	9	15	11	6	0	2	3	0	2	2	1	2	4	2	4	1	2	2	2	1	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:183873985A>C	uc001gqo.2	+	13	1509	c.1352A>C	c.(1351-1353)GAA>GCA	p.E451A	RGL1_uc010pof.1_Missense_Mutation_p.E256A|RGL1_uc001gqm.2_Missense_Mutation_p.E486A|RGL1_uc010pog.1_Missense_Mutation_p.E449A|RGL1_uc010poh.1_Missense_Mutation_p.E449A|RGL1_uc010poi.1_Missense_Mutation_p.E422A	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	451	Ras-GEF.				cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						CTGCTTTAGGAATTTGAAGTG	0.378													31	89					0	0	1	0	0		C	183873985	C	C	183873985	3	2	89	1	0	0	0	0	1	0	0	0	13301	260	9	5	1507	5	RGL1	1	183873985	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	12769	183873985	65376636	573	54404											
GLT25D2	23127	broad.mit.edu	37	chr1	183909901	183909901	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctggctcctttacttgcAtcctcttcctaccaatataa	8	16	3	14	0	2	0	0	0	2	0	6	0	5	0	4	1	3	2	4	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:183909901A>G	uc001gqr.2	-	11	1790	c.1418T>C	c.(1417-1419)ATG>ACG	p.M473T	GLT25D2_uc010poj.1_Missense_Mutation_p.M473T|GLT25D2_uc001gqp.2_Missense_Mutation_p.M81T|GLT25D2_uc001gqq.2_Missense_Mutation_p.M210T|GLT25D2_uc001gqs.2_Missense_Mutation_p.M353T	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	473					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						CTTTACTTGCATCCTCTTCCT	0.463													69	72					0	0	1	0	0		G	183909901	G	G	183909901	3	3	89	1	0	0	0	0	1	0	0	0	6482	217	8	3	470	3	GLT25D2	1	183909901	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	35916	183909901	65340720	574	54405											
GLT25D2	23127	broad.mit.edu	37	chr1	183913357	183913357	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtccagctgagcctggTcaatgttatccatcagcttc	8	11	8	14	0	2	1	2	1	0	0	5	1	4	1	4	1	3	3	4	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:183913357T>C	uc001gqr.2	-	10	1742	c.1370A>G	c.(1369-1371)GAC>GGC	p.D457G	GLT25D2_uc010poj.1_Missense_Mutation_p.D457G|GLT25D2_uc001gqp.2_Missense_Mutation_p.D65G|GLT25D2_uc001gqq.2_Missense_Mutation_p.D194G|GLT25D2_uc001gqs.2_Missense_Mutation_p.D337G	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	457					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						CTGAGCCTGGTCAATGTTATC	0.473													31	115					0	0	1	0	0		C	183913357	C	C	183913357	3	2	89	1	0	0	0	0	1	0	0	0	6482	1667	58	3	522	3	GLT25D2	1	183913357	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3456	183913357	65337264	575	54406											
EDEM3	80267	broad.mit.edu	37	chr1	184677372	184677372	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgggtgggaaacaattTgtacagctcgtggaggcagc	13	8	14	6	1	0	0	0	0	0	0	1	2	0	2	0	4	4	3	0	4	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:184677372T>G	uc010pok.1	-	17	2213	c.1952A>C	c.(1951-1953)CAA>CCA	p.Q651P	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.Q651P	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	651					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						GGAAACAATTTGTACAGCTCG	0.438													6	53					0	0	1	0	0		G	184677372	G	G	184677372	3	3	89	1	0	0	0	0	1	0	0	0	4919	1812	63	5	862	5	EDEM3	1	184677372	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	764015	184677372	64573249	576	54407											
EDEM3	80267	broad.mit.edu	37	chr1	184688582	184688582	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaattctttatacctgcaAgcctgggaagaaggcaagca	14	8	10	9	0	1	2	0	0	1	2	1	3	1	3	2	2	4	3	2	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:184688582A>G	uc010pok.1	-	10	1333	c.1072T>C	c.(1072-1074)TTG>CTG	p.L358L	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Silent_p.L358L	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	358					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						TATACCTGCAAGCCTGGGAAG	0.383													15	74					0	0	1	0	0		G	184688582	G	G	184688582	2	3	89	1	0	0	0	0	0	0	0	1	4919	69	3	3		3	EDEM3	1	184688582	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	11210	184688582	64562039	577	54408											
RNF2	6045	broad.mit.edu	37	chr1	185056762	185056762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtttatatgagttacaacGaacacctcaggtaatgacta	15	11	7	8	1	1	2	1	2	0	0	1	3	1	2	1	1	3	3	1	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:185056762G>A	uc001grc.1	+	2	310	c.77G>A	c.(76-78)CGA>CAA	p.R26Q	RNF2_uc001grd.1_Missense_Mutation_p.R26Q	NM_007212	NP_009143	Q99496	RING2_HUMAN	ring finger protein 2	26	Interaction with HIP2.				histone H2A monoubiquitination|transcription, DNA-dependent	MLL1 complex|PcG protein complex|ubiquitin ligase complex	RING-like zinc finger domain binding|zinc ion binding			breast(1)	1		Breast(1374;0.000496)		Colorectal(1306;6.9e-08)|KIRC - Kidney renal clear cell carcinoma(1967;8.12e-06)		GAGTTACAACGAACACCTCAG	0.383													25	113					0	0	1	0	0		A	185056762	A	A	185056762	3	1	89	1	0	0	0	0	1	0	0	0	13497	1058	37	1	79	1	RNF2	1	185056762	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	368180	185056762	64193859	578	54409											
C1orf25	81627	broad.mit.edu	37	chr1	185121027	185121027	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagttacaaaagctaaattCtctagatcagcaagctgcct	14	11	6	10	0	3	1	2	0	1	1	4	1	3	1	1	0	5	4	1	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:185121027C>A	uc001grf.3	-	2	548	c.276G>T	c.(274-276)GAG>GAT	p.E92D	C1orf25_uc010pon.1_5'UTR	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	92						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						AAGCTAAATTCTCTAGATCAG	0.323													40	30					5.04308e-16	5.7748e-16	1	1	0		A	185121027	A	A	185121027	3	1	89	1	0	0	0	0	1	0	0	0	2037	912	32	5	1981	5	C1orf25	1	185121027	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	64265	185121027	64129594	579	54410											
C1orf26	54823	broad.mit.edu	37	chr1	185143597	185143597	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaagcatcatattcaaaTgataatcaaattattttgca	19	13	4	5	0	3	2	3	1	0	1	3	2	3	2	0	0	2	2	0	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:185143597T>C	uc001grg.3	+	5	432	c.318T>C	c.(316-318)AAT>AAC	p.N106N	C1orf26_uc001grh.3_Silent_p.N106N	NM_001105518	NP_001098988	Q5T5J6	SWT1_HUMAN	hypothetical protein LOC54823	106											0						CATATTCAAATGATAATCAAA	0.308													25	26					0	0	1	0	0		C	185143597	C	C	185143597	2	2	89	1	0	0	0	0	0	0	0	1	2038	1461	51	3		3	C1orf26	1	185143597	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	22570	185143597	64107024	580	54411											
C1orf26	54823	broad.mit.edu	37	chr1	185175889	185175889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcctatacaaaaatctcCgtaaaggtatgaatctttta	16	12	6	7	1	2	2	0	1	2	1	3	2	2	2	2	1	2	2	2	1	9	6	rs145355483		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:185175889C>T	uc001grg.3	+	13	2080	c.1966C>T	c.(1966-1968)CGT>TGT	p.R656C	C1orf26_uc001grh.3_Missense_Mutation_p.R656C	NM_001105518	NP_001098988	Q5T5J6	SWT1_HUMAN	hypothetical protein LOC54823	656											0						CAAAAATCTCCGTAAAGGTAT	0.303													30	24					0	0	1	0	0		T	185175889	T	T	185175889	3	4	89	1	0	0	0	0	1	0	0	0	2038	652	23	1	2012	1	C1orf26	1	185175889	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	32292	185175889	64074732	581	54412											
C1orf26	54823	broad.mit.edu	37	chr1	185183737	185183737	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaaattatgatggtattCttccacagacctttgctcaa	11	14	7	9	0	3	2	2	1	1	1	4	2	4	2	2	2	1	2	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:185183737C>A	uc001grg.3	+	14	2185	c.2071C>A	c.(2071-2073)CTT>ATT	p.L691I	C1orf26_uc001grh.3_Missense_Mutation_p.L691I	NM_001105518	NP_001098988	Q5T5J6	SWT1_HUMAN	hypothetical protein LOC54823	691											0						TGATGGTATTCTTCCACAGAC	0.378													25	100					7.87624e-14	8.83987e-14	1	1	0		A	185183737	A	A	185183737	3	1	89	1	0	0	0	0	1	0	0	0	2038	913	32	5	2121	5	C1orf26	1	185183737	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7848	185183737	64066884	582	54413											
C1orf26	54823	broad.mit.edu	37	chr1	185191052	185191052	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaaggtacttcattgaaGaattctcataatcaagaaat	17	11	7	6	0	3	3	3	1	1	2	4	4	3	4	0	2	1	1	0	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:185191052G>T	uc001grg.3	+	15	2307	c.2193G>T	c.(2191-2193)AAG>AAT	p.K731N	C1orf26_uc001grh.3_Missense_Mutation_p.K731N	NM_001105518	NP_001098988	Q5T5J6	SWT1_HUMAN	hypothetical protein LOC54823	731											0						CTTCATTGAAGAATTCTCATA	0.373													125	117					9.6388e-71	1.20331e-70	1	1	0		T	185191052	T	T	185191052	3	4	89	1	0	0	0	0	1	0	0	0	2038	933	33	5	2247	5	C1orf26	1	185191052	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7315	185191052	64059569	583	54414											
IVNS1ABP	10625	broad.mit.edu	37	chr1	185267253	185267253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcagaaattcattgccatCgaatcctcccactgcataaa	14	11	4	12	1	2	1	2	0	0	1	5	2	4	1	3	0	2	1	3	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:185267253C>T	uc001grl.2	-	15	2466	c.1843G>A	c.(1843-1845)GAT>AAT	p.D615N	IVNS1ABP_uc001gri.2_Missense_Mutation_p.D275N|IVNS1ABP_uc001grj.2_Missense_Mutation_p.D275N|IVNS1ABP_uc009wyj.2_Missense_Mutation_p.D397N|IVNS1ABP_uc009wyk.2_RNA	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	615	Kelch 6.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						TCATTGCCATCGAATCCTCCC	0.398													152	172					0	0	1	0	0		T	185267253	T	T	185267253	3	4	89	1	0	0	0	0	1	0	0	0	7946	884	31	1	89	1	IVNS1ABP	1	185267253	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	76201	185267253	63983368	584	54415											
HMCN1	83872	broad.mit.edu	37	chr1	185892598	185892598	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcttcttgaacttttgagTatctcaggaagttctcttaa	10	17	7	7	0	4	2	1	2	4	0	6	4	4	3	0	1	1	2	0	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:185892598T>C	uc001grq.1	+	8	1327	c.1098T>C	c.(1096-1098)AGT>AGC	p.S366S		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	366					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AACTTTTGAGTATCTCAGGAA	0.353													45	39					0	0	1	0	0		C	185892598	C	C	185892598	2	2	89	1	0	0	0	0	0	0	0	1	7236	1635	57	3		3	HMCN1	1	185892598	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	625345	185892598	63358023	585	54416											
HMCN1	83872	broad.mit.edu	37	chr1	185892648	185892648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttaaatattacccacatcGaaaaccttatggcatatgga	15	12	6	8	1	0	0	0	0	0	0	1	2	0	1	2	2	2	2	2	2	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:185892648G>A	uc001grq.1	+	8	1377	c.1148G>A	c.(1147-1149)CGA>CAA	p.R383Q		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	383					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TACCCACATCGAAAACCTTAT	0.358													21	95					0	0	1	0	0		A	185892648	A	A	185892648	3	1	89	1	0	0	0	0	1	0	0	0	7236	1058	37	1	1178	1	HMCN1	1	185892648	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	50	185892648	63357973	586	54417											
HMCN1	83872	broad.mit.edu	37	chr1	185950199	185950199	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacaacagtaacagtgaccGgacttggtaagatcaattga	16	8	10	7	1	1	4	1	2	0	2	1	5	1	5	1	2	2	2	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:185950199G>T	uc001grq.1	+	17	2885	c.2656G>T	c.(2656-2658)GGA>TGA	p.G886*	HMCN1_uc001grr.1_Nonsense_Mutation_p.G227*	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	886					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AACAGTGACCGGACTTGGTAA	0.383													35	97					1.26612e-14	1.43161e-14	1	1	0		T	185950199	T	T	185950199	4	4	89	1	0	0	0	0	0	1	0	0	7236	1117	39	5	2722	5	HMCN1	1	185950199	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	57551	185950199	63300422	587	54418											
HMCN1	83872	broad.mit.edu	37	chr1	185953431	185953431	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaataacaaaactacctCtgtggttgtgcatggtaaga	14	10	9	8	0	1	1	0	0	1	1	1	2	1	1	2	2	4	3	2	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:185953431C>A	uc001grq.1	+	19	3150	c.2921C>A	c.(2920-2922)TCT>TAT	p.S974Y	HMCN1_uc001grr.1_Missense_Mutation_p.S315Y	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	974	Ig-like C2-type 6.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AAAACTACCTCTGTGGTTGTG	0.398													42	142					8.86878e-18	1.03113e-17	1	1	0		A	185953431	A	A	185953431	3	1	89	1	0	0	0	0	1	0	0	0	7236	913	32	5	2995	5	HMCN1	1	185953431	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3232	185953431	63297190	588	54419											
HMCN1	83872	broad.mit.edu	37	chr1	186063435	186063435	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagctcaggtgtctgatgtCgctgtgtatacttgtgtggc	6	14	14	7	1	2	2	1	1	1	1	3	2	2	2	0	2	2	3	0	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:186063435C>T	uc001grq.1	+	67	10453	c.10224C>T	c.(10222-10224)GTC>GTT	p.V3408V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3408	Ig-like C2-type 32.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TGTCTGATGTCGCTGTGTATA	0.388													19	92					0	0	1	0	0		T	186063435	T	T	186063435	2	4	89	1	0	0	0	0	0	0	0	1	7236	871	31	1		1	HMCN1	1	186063435	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	110004	186063435	63187186	589	54420											
HMCN1	83872	broad.mit.edu	37	chr1	186084048	186084048	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaatgctgctggaacaGatcgcaggcgaatagattta	13	8	10	10	2	0	2	0	0	0	2	1	4	0	3	2	2	3	3	2	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:186084048G>T	uc001grq.1	+	74	11603	c.11374G>T	c.(11374-11376)GAT>TAT	p.D3792Y		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3792	Ig-like C2-type 36.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TGCTGGAACAGATCGCAGGCG	0.423													129	118					6.21504e-60	7.74823e-60	1	1	0		T	186084048	T	T	186084048	3	4	89	1	0	0	0	0	1	0	0	0	7236	942	33	5	11668	5	HMCN1	1	186084048	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	20613	186084048	63166573	590	54421											
HMCN1	83872	broad.mit.edu	37	chr1	186092119	186092119	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctcatctaaaggaatatgTtattgctgtggacaagccca	12	11	8	10	0	2	0	1	0	1	0	2	2	2	2	2	2	2	2	2	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:186092119T>C	uc001grq.1	+	81	12495	c.12266T>C	c.(12265-12267)GTT>GCT	p.V4089A		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4089	Ig-like C2-type 40.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AAGGAATATGTTATTGCTGTG	0.403													73	54					0	0	1	0	0		C	186092119	C	C	186092119	3	2	89	1	0	0	0	0	1	0	0	0	7236	1725	60	3	12588	3	HMCN1	1	186092119	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	8071	186092119	63158502	591	54422											
HMCN1	83872	broad.mit.edu	37	chr1	186151325	186151325	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaatgtgaaaatacagaTgcctgccagcatgagtgtaa	15	9	11	6	0	0	4	0	3	0	1	0	5	0	4	2	0	4	2	2	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:186151325T>C	uc001grq.1	+	105	16549	c.16320T>C	c.(16318-16320)GAT>GAC	p.D5440D	HMCN1_uc001grs.1_Silent_p.D892D	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5440	EGF-like 7; calcium-binding (Potential).				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AAAATACAGATGCCTGCCAGC	0.428													51	152					0	0	1	0	0		C	186151325	C	C	186151325	2	2	89	1	0	0	0	0	0	0	0	1	7236	1461	51	3		3	HMCN1	1	186151325	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	59206	186151325	63099296	592	54423											
HMCN1	83872	broad.mit.edu	37	chr1	186157020	186157020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtgctgtccctagatatcGatgaatgtctggagcagaat	10	12	11	8	1	1	3	0	1	1	2	3	5	2	4	1	1	2	2	1	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:186157020G>A	uc001grq.1	+	106	16649	c.16420G>A	c.(16420-16422)GAT>AAT	p.D5474N	HMCN1_uc001grs.1_Missense_Mutation_p.D926N	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5474					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CCTAGATATCGATGAATGTCT	0.517													25	120					0	0	1	0	0		A	186157020	A	A	186157020	3	1	89	1	0	0	0	0	1	0	0	0	7236	1058	37	1	16842	1	HMCN1	1	186157020	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5695	186157020	63093601	593	54424											
HMCN1	83872	broad.mit.edu	37	chr1	186158953	186158953	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctacagtgccaatgggacCattgaatatcagaccacatt	13	10	7	11	0	1	2	1	1	0	1	2	3	2	3	4	1	2	0	4	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:186158953C>A	uc001grq.1	+	107	17080	c.16851C>A	c.(16849-16851)ACC>ACA	p.T5617T	HMCN1_uc001grs.1_Silent_p.T1069T	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5617					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CCAATGGGACCATTGAATATC	0.443													20	97					1.00905e-13	1.13002e-13	1	1	0		A	186158953	A	A	186158953	2	1	89	1	0	0	0	0	0	0	0	1	7236	581	21	5		5	HMCN1	1	186158953	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1933	186158953	63091668	594	54425											
PRG4	10216	broad.mit.edu	37	chr1	186274033	186274033	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattcagctgctaatagaGaattacagaagaaactcaaa	21	8	6	6	0	2	3	2	0	0	3	2	4	2	3	0	0	4	2	0	0	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:186274033G>T	uc001gru.3	+	6	628	c.577G>T	c.(577-579)GAA>TAA	p.E193*	PRG4_uc001grt.3_Nonsense_Mutation_p.E152*|PRG4_uc009wyl.2_Intron|PRG4_uc009wym.2_Intron|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	193					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						TGCTAATAGAGAATTACAGAA	0.259													41	54					7.63091e-17	8.80209e-17	1	1	0		T	186274033	T	T	186274033	4	4	89	1	0	0	0	0	0	1	0	0	12503	943	33	5	595	5	PRG4	1	186274033	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	115080	186274033	62976588	595	54426											
PRG4	10216	broad.mit.edu	37	chr1	186277929	186277929	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacctcaaaagccaaccaaAgcacccaaaaaacccacttc	20	3	2	16	0	1	0	1	0	0	0	2	0	1	0	5	0	5	1	5	0	8	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:186277929A>C	uc001gru.3	+	7	3129	c.3078A>C	c.(3076-3078)AAA>AAC	p.K1026N	PRG4_uc001grt.3_Missense_Mutation_p.K985N|PRG4_uc009wyl.2_Missense_Mutation_p.K933N|PRG4_uc009wym.2_Missense_Mutation_p.K892N|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	1026					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						AGCCAACCAAAGCACCCAAAA	0.418													90	78					0	0	1	0	0		C	186277929	C	C	186277929	3	2	89	1	0	0	0	0	1	0	0	0	12503	69	3	5	3100	5	PRG4	1	186277929	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3896	186277929	62972692	596	54427											
TPR	7175	broad.mit.edu	37	chr1	186321231	186321231	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttttccttcttcaaattTtctgctcttacctaaacata	9	19	1	12	0	4	0	1	0	3	0	6	0	6	0	3	0	3	1	3	0	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:186321231T>G	uc001grv.2	-	19	2643	c.2346A>C	c.(2344-2346)GAA>GAC	p.E782D		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	782	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		TCTTCAAATTTTCTGCTCTTA	0.313			T	NTRK1	papillary thyroid								48	39					0	0	1	0	0		G	186321231	G	G	186321231	3	3	89	1	0	0	0	0	1	0	0	0	16442	1838	64	5	4877	5	TPR	1	186321231	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	43302	186321231	62929390	597	54428											
PTGS2	5743	broad.mit.edu	37	chr1	186643844	186643844	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaggatacagctccacagCatcgatgtcaccatagagtg	12	7	11	11	1	1	1	1	0	0	1	3	3	2	2	2	2	3	3	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:186643844C>A	uc001gsb.2	-	10	1593	c.1456G>T	c.(1456-1458)GCT>TCT	p.A486S	PTGS2_uc009wyo.2_Missense_Mutation_p.A333S	NM_000963	NP_000954	P35354	PGH2_HUMAN	prostaglandin-endoperoxide synthase 2 precursor	486					cellular component movement|cyclooxygenase pathway|hormone biosynthetic process|positive regulation of brown fat cell differentiation|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of fever generation|positive regulation of fibroblast growth factor production|positive regulation of nitric oxide biosynthetic process|positive regulation of platelet-derived growth factor production|positive regulation of prostaglandin biosynthetic process|positive regulation of transforming growth factor-beta production|positive regulation vascular endothelial growth factor production|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|microsome|neuron projection|nucleus	enzyme binding|heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|central_nervous_system(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Carprofen(DB00821)|Celecoxib(DB00482)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Epoprostenol(DB01240)|Etodolac(DB00749)|Etoricoxib(DB01628)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ginseng(DB01404)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lenalidomide(DB00480)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mesalazine(DB00244)|Nabumetone(DB00461)|Naproxen(DB00788)|Oxaprozin(DB00991)|Phenylbutazone(DB00812)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Thalidomide(DB01041)|Tiaprofenic acid(DB01600)|Tolmetin(DB00500)|Valdecoxib(DB00580)	AGCTCCACAGCATCGATGTCA	0.468													73	60					2.6465e-34	3.26017e-34	1	1	0		A	186643844	A	A	186643844	3	1	89	1	0	0	0	0	1	0	0	0	12779	710	25	5	362	5	PTGS2	1	186643844	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	322613	186643844	62606777	598	54429											
FAM5C	339479	broad.mit.edu	37	chr1	190067455	190067455	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagccaaacacttgaatgTtattgattttcatatagccc	12	15	6	8	0	1	2	1	2	0	0	1	2	1	2	2	0	3	2	2	0	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:190067455T>C	uc001gse.1	-	8	2226	c.1994A>G	c.(1993-1995)AAC>AGC	p.N665S	FAM5C_uc010pot.1_Missense_Mutation_p.N563S	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	665						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CACTTGAATGTTATTGATTTT	0.458													92	98					0	0	1	0	0		C	190067455	C	C	190067455	3	2	89	1	0	0	0	0	1	0	0	0	5608	1725	60	3	310	3	FAM5C	1	190067455	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3423611	190067455	59183166	599	54430											
FAM5C	339479	broad.mit.edu	37	chr1	190423785	190423785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttccctttgcttcatacCtgtatatcttgtatcttgtg	5	20	6	10	0	3	0	1	0	2	0	4	0	4	0	2	0	2	4	2	0	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:190423785C>T	uc001gse.1	-	2	468	c.236G>A	c.(235-237)AGG>AAG	p.R79K	FAM5C_uc010pot.1_Missense_Mutation_p.G41R	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	79						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TGCTTCATACCTGTATATCTT	0.413													15	25					0	0	1	0	0		T	190423785	T	T	190423785	3	4	89	1	0	0	0	0	1	0	0	0	5608	695	24	4	2092	4	FAM5C	1	190423785	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	356330	190423785	58826836	600	54431											
TROVE2	6738	broad.mit.edu	37	chr1	193051378	193051378	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgatgaaatggtaccatgTccagtgactacagatatgac	13	10	9	9	1	0	4	0	3	0	1	2	5	2	4	3	1	2	1	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:193051378T>C	uc001gss.2	+	7	1441	c.1266T>C	c.(1264-1266)TGT>TGC	p.C422C	TROVE2_uc001gst.1_Silent_p.C147C|TROVE2_uc001gsu.1_Silent_p.C147C|TROVE2_uc001gsv.1_Silent_p.C422C|TROVE2_uc001gsw.2_Silent_p.C422C|TROVE2_uc009wyp.2_Silent_p.C422C|TROVE2_uc009wyq.2_Silent_p.C422C|TROVE2_uc001gsx.1_Silent_p.C422C	NM_004600	NP_004591	P10155	RO60_HUMAN	TROVE domain family, member 2 isoform 2	422					transcription from RNA polymerase III promoter	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0						TGGTACCATGTCCAGTGACTA	0.343													100	78					0	0	1	0	0		C	193051378	C	C	193051378	2	2	89	1	0	0	0	0	0	0	0	1	16602	1673	58	3		3	TROVE2	1	193051378	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2627593	193051378	56199243	601	54432											
CDC73	79577	broad.mit.edu	37	chr1	193099338	193099338	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggttagaagacctgatcGaaaagatctacttggatatc	13	12	10	6	1	1	4	0	1	1	3	3	6	1	5	1	2	1	1	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:193099338G>A	uc001gtb.2	+	3	515	c.272G>A	c.(271-273)CGA>CAA	p.R91Q		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	91			R -> P (found in a patient with isolated hyperparathyroidism and parathyroid adenomas).		cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						AGACCTGATCGAAAAGATCTA	0.249									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				14	50					0	0	1	0	0		A	193099338	A	A	193099338	3	1	89	1	0	0	0	0	1	0	0	0	3088	1058	37	1	282	1	CDC73	1	193099338	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	47960	193099338	56151283	602	54433											
CDC73	79577	broad.mit.edu	37	chr1	193111184	193111184	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacgaacaactatcttacaAagcacaggaaaggtaattaa	20	7	6	8	1	1	0	0	0	1	0	1	2	1	1	0	2	4	2	0	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:193111184A>C	uc001gtb.2	+	7	960	c.717A>C	c.(715-717)CAA>CAC	p.Q239H		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	239					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						CTATCTTACAAAGCACAGGAA	0.398									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				43	42					0	0	1	0	0		C	193111184	C	C	193111184	3	2	89	1	0	0	0	0	1	0	0	0	3088	11	1	5	743	5	CDC73	1	193111184	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	11846	193111184	56139437	603	54434											
B3GALT2	8707	broad.mit.edu	37	chr1	193150455	193150455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtttctttccaaatgttccGaagggagctgtggtttgtct	6	17	11	7	1	2	0	0	0	2	0	4	2	4	1	2	2	1	4	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:193150455G>A	uc001gtc.3	-	2	953	c.238C>T	c.(238-240)CGG>TGG	p.R80W	CDC73_uc001gtb.2_Intron	NM_003783	NP_003774	O43825	B3GT2_HUMAN	UDP-Gal:betaGlcNAc beta	80	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1						CAAATGTTCCGAAGGGAGCTG	0.478													88	83					0	0	1	0	0		A	193150455	A	A	193150455	3	1	89	1	0	0	0	0	1	0	0	0	1249	1057	37	1	1034	1	B3GALT2	1	193150455	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	39271	193150455	56100166	604	54435											
KCNT2	343450	broad.mit.edu	37	chr1	196303054	196303054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaagatcacatgtttgaatCgatgatgtatctgcaacctc	13	12	8	8	1	2	4	1	2	1	2	4	5	2	4	1	0	2	3	1	0	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:196303054C>T	uc001gtd.1	-	17	1980	c.1920G>A	c.(1918-1920)TCG>TCA	p.S640S	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Silent_p.S590S|KCNT2_uc001gtf.1_Silent_p.S640S|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Silent_p.S640S|KCNT2_uc001gth.1_Silent_p.S161S	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	640	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						ATGTTTGAATCGATGATGTAT	0.408													23	27					0	0	1	0	0		T	196303054	T	T	196303054	2	4	89	1	0	0	0	0	0	0	0	1	8108	871	31	1		1	KCNT2	1	196303054	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3152599	196303054	52947567	605	54436											
KCNT2	343450	broad.mit.edu	37	chr1	196438181	196438181	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgaagggtattcgtaaaatCtgttcccagatgtttccctt	10	15	8	8	1	1	2	0	1	1	1	4	2	3	2	2	1	0	4	2	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:196438181C>T	uc001gtd.1	-	6	462	c.402G>A	c.(400-402)CAG>CAA	p.Q134Q	KCNT2_uc009wyt.1_5'Flank|KCNT2_uc001gte.1_Silent_p.Q134Q|KCNT2_uc001gtf.1_Silent_p.Q134Q|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Silent_p.Q134Q|KCNT2_uc009wyv.1_Intron	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	134	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TTCGTAAAATCTGTTCCCAGA	0.328													10	24					0	0	1	0	0		T	196438181	T	T	196438181	2	4	89	1	0	0	0	0	0	0	0	1	8108	912	32	4		4	KCNT2	1	196438181	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	135127	196438181	52812440	606	54437											
CFH	3075	broad.mit.edu	37	chr1	196648758	196648758	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccttttatttagaaattTcatgcaaatccccagatgtt	12	16	4	9	0	1	2	1	0	0	2	3	2	3	2	3	0	1	2	3	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:196648758T>G	uc001gtj.3	+	6	865	c.625T>G	c.(625-627)TCA>GCA	p.S209A	CFH_uc001gti.3_Missense_Mutation_p.S209A|CFH_uc009wyw.2_Missense_Mutation_p.S209A|CFH_uc009wyx.2_Missense_Mutation_p.S145A	NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	209	Sushi 4.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						TTTAGAAATTTCATGCAAATC	0.289													29	26					0	0	1	0	0		G	196648758	G	G	196648758	3	3	89	1	0	0	0	0	1	0	0	0	3286	1783	62	5	647	5	CFH	1	196648758	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	210577	196648758	52601863	607	54438											
CFH	3075	broad.mit.edu	37	chr1	196716243	196716243	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgttttttattttcagatCcgtgtgtaatatcccgagaa	10	17	7	7	2	1	2	1	0	0	2	3	3	3	2	2	0	0	2	2	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:196716243C>A	uc001gtj.3	+	22	3736	c.3496C>A	c.(3496-3498)CCG>ACG	p.P1166T		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	1166					complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						ATTTTCAGATCCGTGTGTAAT	0.318													23	78					1.36565e-18	1.59705e-18	1	1	0		A	196716243	A	A	196716243	3	1	89	1	0	0	0	0	1	0	0	0	3286	855	30	5	3600	5	CFH	1	196716243	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	67485	196716243	52534378	608	54439											
CFH	3075	broad.mit.edu	37	chr1	196716413	196716413	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaacatgttgggatgggaaActggagtatccaacttgtgc	12	10	12	7	0	0	0	0	0	0	0	1	3	1	3	1	3	4	2	1	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:196716413A>G	uc001gtj.3	+	22	3906	c.3666A>G	c.(3664-3666)AAA>AAG	p.K1222K		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	1222	Sushi 20.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						GGGATGGGAAACTGGAGTATC	0.348													20	88					0	0	1	0	0		G	196716413	G	G	196716413	2	3	89	1	0	0	0	0	0	0	0	1	3286	40	2	3		3	CFH	1	196716413	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	170	196716413	52534208	609	54440											
CFHR5	81494	broad.mit.edu	37	chr1	196952070	196952070	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctgtatgatgaagaagaTtataaccctttttcccaagt	12	16	6	7	0	1	4	0	2	1	2	2	4	2	4	2	0	1	1	2	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:196952070T>G	uc001gts.3	+	2	242	c.114T>G	c.(112-114)GAT>GAG	p.D38E		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	38	Sushi 1.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						ATGAAGAAGATTATAACCCTT	0.333													24	107					0	0	1	0	0		G	196952070	G	G	196952070	3	3	89	1	0	0	0	0	1	0	0	0	3291	1490	52	5	120	5	CFHR5	1	196952070	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	235657	196952070	52298551	610	54441											
CFHR5	81494	broad.mit.edu	37	chr1	196964986	196964986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaacgggcctaagaaaatAcaatgtgtggatggagaatg	17	8	12	4	1	0	2	0	0	0	2	0	4	0	3	1	3	2	0	1	3	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:196964986A>G	uc001gts.3	+	5	875	c.747A>G	c.(745-747)ATA>ATG	p.I249M		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	249	Sushi 4.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						CTAAGAAAATACAATGTGTGG	0.313													13	69					0	0	1	0	0		G	196964986	G	G	196964986	3	3	89	1	0	0	0	0	1	0	0	0	3291	381	14	3	765	3	CFHR5	1	196964986	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	12916	196964986	52285635	611	54442											
CFHR5	81494	broad.mit.edu	37	chr1	196977700	196977700	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggaaaactctatgcaaaaAcaggggatgctgttgaattc	15	10	10	6	0	1	1	0	1	1	0	2	3	1	3	0	3	4	3	0	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:196977700A>G	uc001gts.3	+	10	1725	c.1597A>G	c.(1597-1599)ACA>GCA	p.T533A		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	533	Sushi 9.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						CTATGCAAAAACAGGGGATGC	0.368													15	59					0	0	1	0	0		G	196977700	G	G	196977700	3	3	89	1	0	0	0	0	1	0	0	0	3291	43	2	3	1635	3	CFHR5	1	196977700	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	12714	196977700	52272921	612	54443											
F13B	2165	broad.mit.edu	37	chr1	197021915	197021915	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccttcatatttccacttCatttctatgttatttctgtt	6	23	2	10	0	4	0	2	0	2	0	6	0	6	0	2	0	0	2	2	0	3	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:197021915C>A	uc001gtt.1	-	9	1448	c.1404G>T	c.(1402-1404)ATG>ATT	p.M468I		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	468	Sushi 8.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						ATTTCCACTTCATTTCTATGT	0.294													22	102					3.62473e-10	3.92412e-10	1	1	0		A	197021915	A	A	197021915	3	1	89	1	0	0	0	0	1	0	0	0	5349	826	29	5	597	5	F13B	1	197021915	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44215	197021915	52228706	613	54444											
ASPM	259266	broad.mit.edu	37	chr1	197057536	197057536	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatacaattttctacatcAtaaactgctgaagtagtttt	13	17	4	7	0	3	1	1	1	2	0	3	1	3	1	0	0	4	3	0	0	8	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:197057536A>G	uc001gtu.2	-	26	10268	c.10011T>C	c.(10009-10011)TAT>TAC	p.Y3337Y	ASPM_uc001gtv.2_Silent_p.Y1752Y|ASPM_uc001gtw.3_Silent_p.Y1185Y	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	3337					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TTTCTACATCATAAACTGCTG	0.313													70	84					0	0	1	0	0		G	197057536	G	G	197057536	2	3	89	1	0	0	0	0	0	0	0	1	1057	224	8	3		3	ASPM	1	197057536	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	35621	197057536	52193085	614	54445											
ASPM	259266	broad.mit.edu	37	chr1	197069802	197069802	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaaagtgatagcagctcttTtctgctgaacaaatcttctc	11	14	7	9	0	4	2	0	2	4	0	5	2	4	2	0	0	4	4	0	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:197069802T>G	uc001gtu.2	-	18	8836	c.8579A>C	c.(8578-8580)AAA>ACA	p.K2860T	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Missense_Mutation_p.K708T	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2860	IQ 32.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						AGCAGCTCTTTTCTGCTGAAC	0.393													22	73					0	0	1	0	0		G	197069802	G	G	197069802	3	3	89	1	0	0	0	0	1	0	0	0	1057	1841	64	5	1898	5	ASPM	1	197069802	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	12266	197069802	52180819	615	54446											
ASPM	259266	broad.mit.edu	37	chr1	197112287	197112287	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaaagaatctggacttaaAattttctgataaatttcatg	16	15	6	4	0	3	3	1	2	2	1	3	4	3	4	0	1	0	0	0	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:197112287A>C	uc001gtu.2	-	3	1352	c.1095T>G	c.(1093-1095)ATT>ATG	p.I365M	ASPM_uc001gtv.2_Missense_Mutation_p.I365M|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	365					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						CTGGACTTAAAATTTTCTGAT	0.284													33	34					0	0	1	0	0		C	197112287	C	C	197112287	3	2	89	1	0	0	0	0	1	0	0	0	1057	10	1	5	9442	5	ASPM	1	197112287	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	42485	197112287	52138334	616	54447											
ZBTB41	360023	broad.mit.edu	37	chr1	197145707	197145707	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtatacctgaatgtattttTttgtgctttgtaaggtgatc	8	19	10	4	0	0	2	0	2	0	0	1	2	0	2	1	2	2	4	1	2	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:197145707T>A	uc001gtx.1	-	7	1935	c.1866A>T	c.(1864-1866)AAA>AAT	p.K622N	ZBTB41_uc009wyz.1_RNA	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	622	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						AATGTATTTTTTTGTGCTTTG	0.303													56	56					0	0	1	0	0		A	197145707	A	A	197145707	3	1	89	1	0	0	0	0	1	0	0	0	17568	1838	64	5	879	5	ZBTB41	1	197145707	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	33420	197145707	52104914	617	54448											
ZBTB41	360023	broad.mit.edu	37	chr1	197169588	197169588	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaagatttgaagtaacctTtctcctcttcttcattgcag	9	16	5	11	0	5	2	2	1	3	1	6	2	5	2	2	0	2	2	2	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:197169588T>G	uc001gtx.1	-	1	85	c.16A>C	c.(16-18)AAG>CAG	p.K6Q	ZBTB41_uc009wyz.1_RNA|CRB1_uc010poz.1_5'Flank	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	6					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						GAAGTAACCTTTCTCCTCTTC	0.363													32	88					0	0	1	0	0		G	197169588	G	G	197169588	3	3	89	1	0	0	0	0	1	0	0	0	17568	1850	64	5	2753	5	ZBTB41	1	197169588	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	23881	197169588	52081033	618	54449											
CRB1	23418	broad.mit.edu	37	chr1	197316596	197316596	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgttgacaattacacttgTcactgctggcctggtgagtg	8	13	12	8	0	1	2	1	2	0	0	1	2	1	2	1	2	2	2	1	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:197316596T>C	uc001gtz.2	+	4	1110	c.975T>C	c.(973-975)TGT>TGC	p.C325C	CRB1_uc010poz.1_Silent_p.C256C|CRB1_uc001gty.1_Silent_p.C325C|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Intron|CRB1_uc010ppb.1_Silent_p.C325C|CRB1_uc010ppc.1_RNA	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	325	Extracellular (Potential).|EGF-like 8.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						ATTACACTTGTCACTGCTGGC	0.378													22	85					0	0	1	0	0		C	197316596	C	C	197316596	2	2	89	1	0	0	0	0	0	0	0	1	3851	1673	58	3		3	CRB1	1	197316596	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	147008	197316596	51934025	619	54450											
CRB1	23418	broad.mit.edu	37	chr1	197404523	197404523	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggaaacactgtgaactcaAcatcgatgaatgcttttcaa	15	10	8	8	1	2	2	2	2	0	0	3	4	2	3	0	1	4	1	0	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:197404523A>G	uc001gtz.2	+	9	3665	c.3530A>G	c.(3529-3531)AAC>AGC	p.N1177S	CRB1_uc010poz.1_Missense_Mutation_p.N1153S|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.N1065S|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.N658S|CRB1_uc001gub.1_Missense_Mutation_p.N826S	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1177	EGF-like 16; calcium-binding (Potential).|Extracellular (Potential).				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TGTGAACTCAACATCGATGAA	0.483													22	65					0	0	1	0	0		G	197404523	G	G	197404523	3	3	89	1	0	0	0	0	1	0	0	0	3851	43	2	3	3564	3	CRB1	1	197404523	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	87927	197404523	51846098	620	54451											
LHX9	56956	broad.mit.edu	37	chr1	197896799	197896799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagaagaccaagcgcatgcGaacctctttcaagcatcacc	13	6	8	14	2	3	2	2	0	1	2	3	3	3	2	3	0	4	3	3	0	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:197896799G>A	uc001guk.1	+	4	1249	c.812G>A	c.(811-813)CGA>CAA	p.R271Q	LHX9_uc001gui.1_Missense_Mutation_p.R262Q|LHX9_uc001guj.1_Missense_Mutation_p.R277Q	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	271	Homeobox.				motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						AAGCGCATGCGAACCTCTTTC	0.522													88	308					0	0	1	0	0		A	197896799	A	A	197896799	3	1	89	1	0	0	0	0	1	0	0	0	8793	1058	37	1	858	1	LHX9	1	197896799	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	492276	197896799	51353822	621	54452											
PTPRC	5788	broad.mit.edu	37	chr1	198687388	198687388	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgcataagaattgcgattTccgtgtaaaagatcttcaat	13	13	8	7	3	2	2	1	0	1	2	4	3	3	2	1	0	1	2	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:198687388T>C	uc001gur.1	+	14	1790	c.1610T>C	c.(1609-1611)TTC>TCC	p.F537S	PTPRC_uc001gus.1_Missense_Mutation_p.F489S|PTPRC_uc001gut.1_Missense_Mutation_p.F376S|PTPRC_uc009wzf.1_Missense_Mutation_p.F425S|PTPRC_uc010ppg.1_Missense_Mutation_p.F473S	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	537	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						AATTGCGATTTCCGTGTAAAA	0.383													17	57					0	0	1	0	0		C	198687388	C	C	198687388	3	2	89	1	0	0	0	0	1	0	0	0	12822	1783	62	3	1671	3	PTPRC	1	198687388	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	790589	198687388	50563233	622	54453											
FAM58B	339521	broad.mit.edu	37	chr1	200183373	200183373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtggcaggcgtttagtgacGaccttaccaagccaatcatt	10	10	11	10	2	1	1	1	1	0	0	1	2	1	1	3	3	2	2	3	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:200183373G>A	uc009wzi.1	+	1	718	c.682G>A	c.(682-684)GAC>AAC	p.D228N		NM_001105517	NP_001098987	P0C7Q3	FA58B_HUMAN	family with sequence similarity 58 member B	228					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	Prostate(682;0.19)					GTTTAGTGACGACCTTACCAA	0.547													24	108					0	0	1	0	0		A	200183373	A	A	200183373	3	1	89	1	0	0	0	0	1	0	0	0	5605	1058	37	1	684	1	FAM58B	1	200183373	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1495985	200183373	49067248	623	54454											
KIF14	9928	broad.mit.edu	37	chr1	200524575	200524575	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcattagttttcatttctTtggtaacctatagagaatgt	10	18	8	5	0	2	1	1	0	1	1	2	2	2	1	1	2	1	3	1	2	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:200524575T>C	uc010ppk.1	-	28	4800	c.4361A>G	c.(4360-4362)AAA>AGA	p.K1454R	KIF14_uc010ppj.1_Missense_Mutation_p.K963R	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	1454	Required for CIT-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						TTTCATTTCTTTGGTAACCTA	0.259													16	52					0	0	1	0	0		C	200524575	C	C	200524575	3	2	89	1	0	0	0	0	1	0	0	0	8292	1841	64	3	597	3	KIF14	1	200524575	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	341202	200524575	48726046	624	54455											
KIF14	9928	broad.mit.edu	37	chr1	200573037	200573037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagatctattaggttaattCgacttgttattctgtgatcg	9	17	8	7	2	2	2	0	1	2	1	4	3	2	2	1	1	0	2	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:200573037C>T	uc010ppk.1	-	9	2232	c.1793G>A	c.(1792-1794)CGA>CAA	p.R598Q	KIF14_uc010ppj.1_Missense_Mutation_p.R107Q	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	598	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						TAGGTTAATTCGACTTGTTAT	0.368													19	66					0	0	1	0	0		T	200573037	T	T	200573037	3	4	89	1	0	0	0	0	1	0	0	0	8292	884	31	1	3241	1	KIF14	1	200573037	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	48462	200573037	48677584	625	54456											
KIF14	9928	broad.mit.edu	37	chr1	200587451	200587451	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaatctatttcagctgttTtccacttttctgcagaatct	9	17	5	10	0	4	2	1	0	3	2	5	2	5	2	1	0	2	3	1	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:200587451T>C	uc010ppk.1	-	2	840	c.401A>G	c.(400-402)AAA>AGA	p.K134R	KIF14_uc010ppj.1_5'UTR	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	134	Required for PRC1-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						TTCAGCTGTTTTCCACTTTTC	0.363													12	135					0	0	1	0	0		C	200587451	C	C	200587451	3	2	89	1	0	0	0	0	1	0	0	0	8292	1841	64	3	4661	3	KIF14	1	200587451	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	14414	200587451	48663170	626	54457											
DDX59	83479	broad.mit.edu	37	chr1	200613475	200613475	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtctgtttatctttctgTtgttcctttctcttctggtc	1	24	7	9	0	5	0	0	0	5	0	8	0	6	0	1	1	0	3	1	1	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:200613475T>G	uc009wzk.2	-	8	2010	c.1767A>C	c.(1765-1767)CAA>CAC	p.Q589H	DDX59_uc010ppl.1_Intron	NM_001031725	NP_001026895	Q5T1V6	DDX59_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 59	589						intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TATCTTTCTGTTGTTCCTTTC	0.368													41	145					0	0	1	0	0		G	200613475	G	G	200613475	3	3	89	1	0	0	0	0	1	0	0	0	4379	1722	60	5	96	5	DDX59	1	200613475	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	26024	200613475	48637146	627	54458											
DDX59	83479	broad.mit.edu	37	chr1	200619637	200619637	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattggcacaaggtaggttCttttctccagtgataattct	10	15	8	8	0	3	1	0	1	3	0	4	1	3	1	1	3	0	3	1	3	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:200619637C>A	uc009wzk.2	-	5	1473	c.1230G>T	c.(1228-1230)AAG>AAT	p.K410N	DDX59_uc010ppl.1_Missense_Mutation_p.K410N	NM_001031725	NP_001026895	Q5T1V6	DDX59_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 59	410						intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4						AAGGTAGGTTCTTTTCTCCAG	0.378													60	73					3.84483e-29	4.68494e-29	1	1	0		A	200619637	A	A	200619637	3	1	89	1	0	0	0	0	1	0	0	0	4379	912	32	5	645	5	DDX59	1	200619637	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6162	200619637	48630984	628	54459											
KIF21B	23046	broad.mit.edu	37	chr1	200944028	200944028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcacacccagtccttgtgcGcattggggatttgctgtgag	6	11	13	11	2	0	1	0	1	0	0	1	2	1	2	2	2	2	3	2	2	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:200944028G>A	uc001gvs.1	-	34	4945	c.4628C>T	c.(4627-4629)GCG>GTG	p.A1543V	KIF21B_uc001gvr.1_Missense_Mutation_p.A1530V|KIF21B_uc009wzl.1_Missense_Mutation_p.A1543V|KIF21B_uc010ppn.1_Missense_Mutation_p.A1530V	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	1543	WD 6.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						GTCCTTGTGCGCATTGGGGAT	0.642													47	58					0	0	1	0	0		A	200944028	A	A	200944028	3	1	89	1	0	0	0	0	1	0	0	0	8305	1087	38	1	293	1	KIF21B	1	200944028	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	324391	200944028	48306593	629	54460											
CACNA1S	779	broad.mit.edu	37	chr1	201018159	201018159	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctacccgatgtgggcagaacTtcccaaagcccagagggggc	10	5	13	13	1	0	2	0	0	0	2	1	3	1	2	3	3	3	1	3	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:201018159T>G	uc001gvv.2	-	35	4537	c.4310A>C	c.(4309-4311)AAG>ACG	p.K1437T		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1437	Cytoplasmic (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TGGGCAGAACTTCCCAAAGCC	0.592													10	24					0	0	1	0	0		G	201018159	G	G	201018159	3	3	89	1	0	0	0	0	1	0	0	0	2550	1609	56	5	1351	5	CACNA1S	1	201018159	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	74131	201018159	48232462	630	54461											
IGFN1	91156	broad.mit.edu	37	chr1	201195200	201195200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggccaagaatgagctggggGccagcaaaccctcggacacc	11	4	13	13	1	0	2	0	1	0	1	1	3	0	3	4	4	3	2	4	4	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:201195200G>A	uc001gwc.2	+	11	2987	c.2215G>A	c.(2215-2217)GCC>ACC	p.A739T	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						TGAGCTGGGGGCCAGCAAACC	0.677													18	29					0	0	1	0	0		A	201195200	A	A	201195200	3	1	89	1	0	0	0	0	1	0	0	0	7606	1203	42	2	10817	2	IGFN1	1	201195200	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	177041	201195200	48055421	631	54462											
TNNT2	7139	broad.mit.edu	37	chr1	201332436	201332436	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacctaccttctggatgtaAcccccaaaatgcatcatgtt	11	12	5	13	0	2	0	1	0	1	0	2	1	2	1	4	1	4	3	4	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:201332436A>G	uc001gwf.2	-	12	657	c.588T>C	c.(586-588)GGT>GGC	p.G196G	TNNT2_uc009wzn.2_5'Flank|TNNT2_uc009wzo.2_5'Flank|TNNT2_uc009wzp.2_5'Flank|TNNT2_uc001gwg.2_Silent_p.G186G|TNNT2_uc001gwh.2_Silent_p.G181G|TNNT2_uc001gwi.2_Silent_p.G156G|TNNT2_uc009wzr.2_Silent_p.G127G|TNNT2_uc001gwj.1_RNA|TNNT2_uc009wzs.1_Silent_p.G161G|TNNT2_uc001gwk.1_Silent_p.G127G|TNNT2_uc009wzt.1_Silent_p.G186G	NM_000364	NP_000355	P45379	TNNT2_HUMAN	troponin T type 2, cardiac isoform 1	196					ATP catabolic process|muscle filament sliding|negative regulation of ATPase activity|positive regulation of ATPase activity|regulation of heart contraction|response to calcium ion|response to calcium ion|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin binding|tropomyosin binding|troponin C binding|troponin I binding				0						TCTGGATGTAACCCCCAAAAT	0.542													51	202					0	0	1	0	0		G	201332436	G	G	201332436	2	3	89	1	0	0	0	0	0	0	0	1	16356	30	2	3		3	TNNT2	1	201332436	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	137236	201332436	47918185	632	54463											
LMOD1	25802	broad.mit.edu	37	chr1	201869382	201869382	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttcctctttttaccttCtcatcctcctttttcatgtc	4	20	2	15	0	3	0	2	0	2	0	8	0	6	0	5	0	1	1	5	0	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:201869382C>A	uc001gxb.2	-	2	1007	c.759G>T	c.(757-759)GAG>GAT	p.E253D	LMOD1_uc010ppu.1_Missense_Mutation_p.E202D	NM_012134	NP_036266	P29536	LMOD1_HUMAN	leiomodin 1 (smooth muscle)	253	8 X approximate tandem repeats.|6.				muscle contraction	cytoskeleton|cytosol|membrane fraction	tropomyosin binding			ovary(1)|pancreas(1)|skin(1)	3						TTTTTACCTTCTCATCCTCCT	0.393													6	32					3.59834e-05	3.69903e-05	1	1	0		A	201869382	A	A	201869382	3	1	89	1	0	0	0	0	1	0	0	0	8873	912	32	5	1051	5	LMOD1	1	201869382	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	536946	201869382	47381239	633	54464											
UBE2T	29089	broad.mit.edu	37	chr1	202301044	202301044	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgagttgtgtactctggaGtcaccagcctctggtagatt	7	14	12	8	0	3	2	1	1	2	1	3	3	3	3	2	2	2	4	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:202301044G>A	uc001gxx.3	-	7	649	c.513C>T	c.(511-513)GAC>GAT	p.D171D		NM_014176	NP_054895	Q9NPD8	UBE2T_HUMAN	ubiquitin-conjugating enzyme E2T	171					DNA repair|protein K11-linked ubiquitination|protein K27-linked ubiquitination|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|protein K63-linked ubiquitination	nucleoplasm	ATP binding|ubiquitin-protein ligase activity				0						GTACTCTGGAGTCACCAGCCT	0.453													62	174					0	0	1	0	0		A	202301044	A	A	202301044	2	1	89	1	0	0	0	0	0	0	0	1	16899	1020	36	4		4	UBE2T	1	202301044	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	431662	202301044	46949577	634	54465											
PPP1R12B	4660	broad.mit.edu	37	chr1	202418139	202418139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctcacaaatcccaggccGacacaacagcagagaaaaca	17	3	6	15	1	1	1	1	0	0	1	3	3	3	1	3	1	3	1	3	1	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:202418139G>A	uc001gya.1	+	13	1834	c.1690G>A	c.(1690-1692)GAC>AAC	p.D564N	PPP1R12B_uc001gxz.1_Missense_Mutation_p.D564N	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	564					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			ATCCCAGGCCGACACAACAGC	0.478													25	85					0	0	1	0	0		A	202418139	A	A	202418139	3	1	89	1	0	0	0	0	1	0	0	0	12377	1058	37	1	1830	1	PPP1R12B	1	202418139	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	117095	202418139	46832482	635	54466											
KDM5B	10765	broad.mit.edu	37	chr1	202715102	202715102	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtagagatcatccagcgtgTacctatacctggaaataata	14	10	9	8	1	1	1	1	0	0	1	2	3	2	2	3	2	3	2	3	2	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:202715102T>C	uc001gyf.2	-	16	2323	c.2207A>G	c.(2206-2208)TAC>TGC	p.Y736C	KDM5B_uc009xag.2_Missense_Mutation_p.Y772C|KDM5B_uc001gyg.1_Missense_Mutation_p.Y578C	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	736					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						ATCCAGCGTGTACCTATACCT	0.418													48	205					0	0	1	0	0		C	202715102	C	C	202715102	3	2	89	1	0	0	0	0	1	0	0	0	8150	1638	57	3	2475	3	KDM5B	1	202715102	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	296963	202715102	46535519	636	54467											
TMEM183A	92703	broad.mit.edu	37	chr1	202977772	202977772	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttttattttcttctagtAaaatctctttgtggcttgga	7	21	6	7	0	3	0	0	0	3	0	5	1	4	1	1	2	0	2	1	2	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:202977772A>G	uc001gyu.1	+	3	259	c.201A>G	c.(199-201)GTA>GTG	p.V67V	TMEM183A_uc009xai.1_Silent_p.V67V|TMEM183A_uc001gyv.1_RNA|TMEM183A_uc001gyw.1_Silent_p.V67V|TMEM183A_uc001gyx.1_Silent_p.V67V	NM_001079809	NP_001073277	Q8IXX5	T183A_HUMAN	transmembrane protein 183B	67						integral to membrane					0			BRCA - Breast invasive adenocarcinoma(75;0.18)			TTCTTCTAGTAAAATCTCTTT	0.478													51	35					0	0	1	0	0		G	202977772	G	G	202977772	2	3	89	1	0	0	0	0	0	0	0	1	16127	376	13	3		3	TMEM183A	1	202977772	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	262670	202977772	46272849	637	54468											
CHI3L1	1116	broad.mit.edu	37	chr1	203150382	203150382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgccaggctccatgaaaatCgtaggtcatgatgctaatga	13	9	10	9	2	1	3	1	3	0	0	3	3	2	3	2	2	1	3	2	2	4	2	rs141218577		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:203150382C>T	uc001gzi.2	-	7	790	c.619G>A	c.(619-621)GAT>AAT	p.D207N	FMOD_uc010pqi.1_Intron|CHI3L1_uc001gzk.1_Missense_Mutation_p.D4N|CHI3L1_uc001gzj.2_Missense_Mutation_p.D207N|CHI3L1_uc001gzl.3_5'Flank	NM_001276	NP_001267	P36222	CH3L1_HUMAN	chitinase 3-like 1 precursor	207	Chitooligosaccharide.				chitin catabolic process	extracellular space|proteinaceous extracellular matrix	cation binding|chitinase activity|extracellular matrix structural constituent|sugar binding			pancreas(1)	1						CCATGAAAATCGTAGGTCATG	0.463													49	55					0	0	1	0	0		T	203150382	T	T	203150382	3	4	89	1	0	0	0	0	1	0	0	0	3343	884	31	1	548	1	CHI3L1	1	203150382	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	172610	203150382	46100239	638	54469											
ZC3H11A	9877	broad.mit.edu	37	chr1	203802956	203802956	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattgagtcttactgagagActggggaaacgaaaattttc	14	11	11	5	1	1	4	0	2	1	2	2	7	1	5	0	2	2	0	0	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:203802956A>G	uc001hac.2	+	12	1465	c.849A>G	c.(847-849)AGA>AGG	p.R283R	ZC3H11A_uc001had.2_Silent_p.R283R|ZC3H11A_uc001hae.2_Silent_p.R283R|ZC3H11A_uc001haf.2_Silent_p.R283R|ZC3H11A_uc010pqm.1_Silent_p.R229R|ZC3H11A_uc001hag.1_Silent_p.R283R	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	283							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			TTACTGAGAGACTGGGGAAAC	0.343													39	159					0	0	1	0	0		G	203802956	G	G	203802956	2	3	89	1	0	0	0	0	0	0	0	1	17585	272	10	3		3	ZC3H11A	1	203802956	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	652574	203802956	45447665	639	54470											
ZC3H11A	9877	broad.mit.edu	37	chr1	203807179	203807179	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagaaactaacattgacaaAacaccaaagaaaggtacctg	20	5	6	10	0	0	3	0	1	0	2	0	3	0	3	3	1	4	1	3	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:203807179A>C	uc001hac.2	+	13	1576	c.960A>C	c.(958-960)AAA>AAC	p.K320N	ZC3H11A_uc001had.2_Missense_Mutation_p.K320N|ZC3H11A_uc001hae.2_Missense_Mutation_p.K320N|ZC3H11A_uc001haf.2_Missense_Mutation_p.K320N|ZC3H11A_uc010pqm.1_Missense_Mutation_p.K266N|ZC3H11A_uc001hag.1_Missense_Mutation_p.K320N	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	320							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			ACATTGACAAAACACCAAAGA	0.403													21	55					0	0	1	0	0		C	203807179	C	C	203807179	3	2	89	1	0	0	0	0	1	0	0	0	17585	11	1	5	994	5	ZC3H11A	1	203807179	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4223	203807179	45443442	640	54471											
ZC3H11A	9877	broad.mit.edu	37	chr1	203820233	203820233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcagtcactgtgcctgaaGcagaaaatcctagagacagg	15	7	10	9	0	2	3	2	1	0	2	3	4	3	3	2	1	2	1	2	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:203820233G>A	uc001hac.2	+	19	2771	c.2155G>A	c.(2155-2157)GCA>ACA	p.A719T	ZC3H11A_uc001had.2_Missense_Mutation_p.A719T|ZC3H11A_uc001hae.2_Missense_Mutation_p.A719T|ZC3H11A_uc001haf.2_Missense_Mutation_p.A719T|ZC3H11A_uc010pqm.1_Missense_Mutation_p.A665T	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	719							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			TGTGCCTGAAGCAGAAAATCC	0.403													126	109					0	0	1	0	0		A	203820233	A	A	203820233	3	1	89	1	0	0	0	0	1	0	0	0	17585	971	34	2	2213	2	ZC3H11A	1	203820233	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13054	203820233	45430388	641	54472											
MDM4	4194	broad.mit.edu	37	chr1	204512067	204512067	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcaactgatttacagacaAatcaggtaaatttcacattt	15	13	5	8	0	3	2	3	1	0	1	3	2	3	2	0	1	2	2	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:204512067A>G	uc001hba.2	+	8	829	c.667A>G	c.(667-669)AAT>GAT	p.N223D	MDM4_uc001hbd.1_RNA|MDM4_uc010pqw.1_RNA|MDM4_uc010pqx.1_Missense_Mutation_p.N96D|MDM4_uc001hay.1_Missense_Mutation_p.N223D|MDM4_uc001hbb.2_Missense_Mutation_p.N96D|MDM4_uc010pqy.1_Intron|MDM4_uc001hbc.2_RNA|MDM4_uc009xbe.1_RNA	NM_002393	NP_002384	O15151	MDM4_HUMAN	mouse double minute 4 homolog	223					apoptosis|cell proliferation|cellular response to hypoxia|G0 to G1 transition|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of protein catabolic process|negative regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization	nucleus	enzyme binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(21;0.00146)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.112)|all_epithelial(62;0.118)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;3.15e-47)|all cancers(3;3.56e-32)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|Epithelial(59;0.143)|BRCA - Breast invasive adenocarcinoma(75;0.143)			TTTACAGACAAATCAGGTAAA	0.368			A		GBM|bladder|retinoblastoma								82	89					0	0	1	0	0		G	204512067	G	G	204512067	3	3	89	1	0	0	0	0	1	0	0	0	9432	14	1	3	693	3	MDM4	1	204512067	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	691834	204512067	44738554	642	54473											
NFASC	23114	broad.mit.edu	37	chr1	204978776	204978776	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtgctgatcctgctcatCgtctgtttcatcaagaggag	7	13	11	10	1	4	2	3	1	1	1	6	3	5	3	1	2	2	3	1	2	1	1	rs150655555	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:204978776C>T	uc001hbj.2	+	28	3709	c.3381C>T	c.(3379-3381)ATC>ATT	p.I1127I	NFASC_uc010pra.1_Silent_p.I1061I|NFASC_uc001hbi.2_Silent_p.I1056I|NFASC_uc010prb.1_Silent_p.I1076I|NFASC_uc010prc.1_Silent_p.I627I|NFASC_uc001hbl.1_Silent_p.I203I|NFASC_uc001hbm.1_Silent_p.I150I|NFASC_uc009xbh.1_5'UTR	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	1234	Helical; (Potential).				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			TCCTGCTCATCGTCTGTTTCA	0.607													21	74					0	0	1	0	0		T	204978776	T	T	204978776	2	4	89	1	0	0	0	0	0	0	0	1	10378	874	31	1		1	NFASC	1	204978776	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	466709	204978776	44271845	643	54474											
TMEM81	388730	broad.mit.edu	37	chr1	205053000	205053000	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccagagtcatactcctgaGcatatttaaacttcacaaag	14	11	5	11	0	2	2	2	1	0	1	4	2	4	2	2	0	3	1	2	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:205053000G>A	uc001hbt.2	-	1	589	c.449C>T	c.(448-450)GCT>GTT	p.A150V		NM_203376	NP_976310	Q6P7N7	TMM81_HUMAN	transmembrane protein 81 precursor	150	Ig-like.|Extracellular (Potential).					integral to membrane					0	all_cancers(21;0.144)|Breast(84;0.0437)		BRCA - Breast invasive adenocarcinoma(75;0.0923)			ATACTCCTGAGCATATTTAAA	0.478													30	102					0	0	1	0	0		A	205053000	A	A	205053000	3	1	89	1	0	0	0	0	1	0	0	0	16230	971	34	2	322	2	TMEM81	1	205053000	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	74224	205053000	44197621	644	54475											
TMEM81	388730	broad.mit.edu	37	chr1	205053297	205053297	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagccaaggccacaggtgAcagtacaggttgtggcattg	11	9	13	8	0	0	1	0	1	0	0	0	1	0	1	2	4	2	3	2	4	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:205053297A>G	uc001hbt.2	-	1	292	c.152T>C	c.(151-153)GTC>GCC	p.V51A		NM_203376	NP_976310	Q6P7N7	TMM81_HUMAN	transmembrane protein 81 precursor	51	Extracellular (Potential).					integral to membrane					0	all_cancers(21;0.144)|Breast(84;0.0437)		BRCA - Breast invasive adenocarcinoma(75;0.0923)			GCCACAGGTGACAGTACAGGT	0.517													27	93					0	0	1	0	0		G	205053297	G	G	205053297	3	3	89	1	0	0	0	0	1	0	0	0	16230	275	10	3	619	3	TMEM81	1	205053297	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	297	205053297	44197324	645	54476											
PM20D1	148811	broad.mit.edu	37	chr1	205797811	205797811	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattctgaatcaactcaaaGatgaatttcacttgggtctc	12	13	7	9	0	5	3	3	2	2	1	6	3	5	3	0	1	1	1	0	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:205797811G>T	uc001hdj.2	-	13	1491	c.1446C>A	c.(1444-1446)ATC>ATA	p.I482I	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	482						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			TCAACTCAAAGATGAATTTCA	0.517													41	33					6.02501e-08	6.36289e-08	1	1	0		T	205797811	T	T	205797811	2	4	89	1	0	0	0	0	0	0	0	1	12147	932	33	5		5	PM20D1	1	205797811	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	744514	205797811	43452810	646	54477											
SRGAP2	23380	broad.mit.edu	37	chr1	206632198	206632198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccactcatccctgaagaatCggctggatagtccacagatc	11	8	9	13	1	1	3	1	1	0	2	5	4	3	4	3	2	0	1	3	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:206632198C>T	uc001hdy.2	+	19	2809	c.2476C>T	c.(2476-2478)CGG>TGG	p.R826W	SRGAP2_uc010pru.1_Missense_Mutation_p.R749W	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	913					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					CCTGAAGAATCGGCTGGATAG	0.552													10	38					0	0	1	0	0		T	206632198	T	T	206632198	3	4	89	1	0	0	0	0	1	0	0	0	15171	875	31	1	2555	1	SRGAP2	1	206632198	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	834387	206632198	42618423	647	54478											
IKBKE	9641	broad.mit.edu	37	chr1	206665007	206665007	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagtcatttagccaaaaGactcctgcaggtgttccagg	10	12	9	10	0	2	1	2	0	0	1	4	1	4	1	3	2	2	2	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:206665007G>T	uc001hdz.1	+	18	2128	c.1760G>T	c.(1759-1761)AGA>ATA	p.R587I	IKBKE_uc009xbv.1_Missense_Mutation_p.R587I|IKBKE_uc001hea.1_Missense_Mutation_p.R502I	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	587					DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding			ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)					TTAGCCAAAAGACTCCTGCAG	0.532													16	72					9.16793e-09	9.77785e-09	1	1	0		T	206665007	T	T	206665007	3	4	89	1	0	0	0	0	1	0	0	0	7628	942	33	5	1822	5	IKBKE	1	206665007	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	32809	206665007	42585614	648	54479											
DYRK3	8444	broad.mit.edu	37	chr1	206821076	206821076	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtccaaatgccaagaaaaGacatggagttattggtggtc	14	9	12	6	0	0	2	0	0	0	2	2	3	1	3	2	4	1	1	2	4	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:206821076G>T	uc001hej.2	+	3	701	c.533G>T	c.(532-534)AGA>ATA	p.R178I	DYRK3_uc001hek.2_Intron|DYRK3_uc001hei.2_Missense_Mutation_p.R158I	NM_003582	NP_003573	O43781	DYRK3_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	178					erythrocyte differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|central_nervous_system(1)	3	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			GCCAAGAAAAGACATGGAGTT	0.408													50	197					1.22102e-19	1.43653e-19	1	1	0		T	206821076	T	T	206821076	3	4	89	1	0	0	0	0	1	0	0	0	4863	942	33	5	564	5	DYRK3	1	206821076	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	156069	206821076	42429545	649	54480											
MAPKAPK2	9261	broad.mit.edu	37	chr1	206903322	206903322	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctctttctgtagcctgaGaatctcttatacacctccaa	9	15	4	13	0	4	1	0	1	4	1	7	2	5	1	3	0	2	1	3	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:206903322G>T	uc001hem.1	+	5	856	c.570G>T	c.(568-570)GAG>GAT	p.E190D	MAPKAPK2_uc001hel.1_Missense_Mutation_p.E190D	NM_032960	NP_116584	P49137	MAPK2_HUMAN	mitogen-activated protein kinase-activated	190	Protein kinase.				activation of MAPK activity|hormone biosynthetic process|innate immune response|leukotriene biosynthetic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|prostanoid metabolic process|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|signal transducer activity				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.211)			TGTAGCCTGAGAATCTCTTAT	0.493													17	78					2.35188e-11	2.57851e-11	1	1	0		T	206903322	T	T	206903322	3	4	89	1	0	0	0	0	1	0	0	0	9307	933	33	5	588	5	MAPKAPK2	1	206903322	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	82246	206903322	42347299	650	54481											
C4BPB	725	broad.mit.edu	37	chr1	207273175	207273175	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctctgcgaagccatggaGaactttatgcaacaattaaa	16	9	7	9	1	1	1	0	0	1	1	1	3	1	1	2	1	6	1	2	1	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:207273175G>T	uc001hfj.2	+	7	790	c.660G>T	c.(658-660)GAG>GAT	p.E220D	C4BPB_uc001hfi.2_Missense_Mutation_p.E219D|C4BPB_uc001hfk.2_Missense_Mutation_p.E219D|C4BPB_uc001hfl.2_Missense_Mutation_p.E220D|C4BPB_uc009xcd.2_Missense_Mutation_p.E271D|C4BPB_uc001hfm.2_Missense_Mutation_p.E220D	NM_001017365	NP_001017365	P20851	C4BPB_HUMAN	complement component 4 binding protein, beta	220					blood coagulation|complement activation, classical pathway|innate immune response	extracellular region				ovary(1)	1						AAGCCATGGAGAACTTTATGC	0.393													76	58					1.58458e-29	1.93341e-29	1	1	0		T	207273175	T	T	207273175	3	4	89	1	0	0	0	0	1	0	0	0	2253	933	33	5	682	5	C4BPB	1	207273175	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	369853	207273175	41977446	651	54482											
CD55	1604	broad.mit.edu	37	chr1	207495903	207495903	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatggtcagatattgaagagTtctgcaatcgtaagttcttc	12	14	9	6	1	3	3	1	1	2	2	5	3	3	3	0	1	1	4	0	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:207495903T>C	uc001hfq.3	+	2	571	c.277T>C	c.(277-279)TTC>CTC	p.F93L	CD55_uc001hfp.3_Missense_Mutation_p.F93L|CD55_uc001hfr.3_Missense_Mutation_p.F93L|CD55_uc010psf.1_RNA|CD55_uc009xcf.2_Missense_Mutation_p.F93L|CD55_uc009xce.2_Missense_Mutation_p.F93L	NM_000574	NP_000565	P08174	DAF_HUMAN	decay accelerating factor for complement isoform	93	Sushi 1.				complement activation, classical pathway|elevation of cytosolic calcium ion concentration|innate immune response|respiratory burst	anchored to membrane|extracellular region|integral to plasma membrane|membrane raft|soluble fraction	receptor activity			ovary(1)	1					Chloramphenicol(DB00446)	TATTGAAGAGTTCTGCAATCG	0.348													17	62					0	0	1	0	0		C	207495903	C	C	207495903	3	2	89	1	0	0	0	0	1	0	0	0	3027	1725	60	3	283	3	CD55	1	207495903	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	222728	207495903	41754718	652	54483											
CR2	1380	broad.mit.edu	37	chr1	207642169	207642169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgctgtaaatctctaggacGatttcccaatgggaaggtaa	13	10	10	8	2	1	0	0	0	1	0	3	3	2	2	1	3	0	3	1	3	6	4	rs147633291		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:207642169G>A	uc001hfw.2	+	4	753	c.659G>A	c.(658-660)CGA>CAA	p.R220Q	CR2_uc001hfv.2_Missense_Mutation_p.R220Q|CR2_uc009xch.2_Missense_Mutation_p.R220Q|CR2_uc009xci.1_5'Flank	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	220	Sushi 4.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TCTCTAGGACGATTTCCCAAT	0.393													30	102					0	0	1	0	0		A	207642169	A	A	207642169	3	1	89	1	0	0	0	0	1	0	0	0	3845	1058	37	1	673	1	CR2	1	207642169	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	146266	207642169	41608452	653	54484											
CR2	1380	broad.mit.edu	37	chr1	207648237	207648237	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgatggcagaaaactttCtatatggaaatgaagtctct	14	12	9	6	0	2	3	0	2	2	1	3	4	2	4	0	2	1	2	0	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:207648237C>A	uc001hfw.2	+	13	2309	c.2215C>A	c.(2215-2217)CTA>ATA	p.L739I	CR2_uc001hfv.2_Missense_Mutation_p.L798I|CR2_uc009xch.2_Missense_Mutation_p.L739I	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	739	Sushi 12.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						AGAAAACTTTCTATATGGAAA	0.418													49	167					1.51926e-22	1.8124e-22	1	1	0		A	207648237	A	A	207648237	3	1	89	1	0	0	0	0	1	0	0	0	3845	912	32	5	2446	5	CR2	1	207648237	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6068	207648237	41602384	654	54485											
CR2	1380	broad.mit.edu	37	chr1	207648254	207648254	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctatatggaaatgaagtCtcttatgaatgtgaccaagg	13	14	9	5	0	2	3	0	3	2	0	3	4	2	4	1	2	0	0	1	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:207648254C>A	uc001hfw.2	+	13	2326	c.2232C>A	c.(2230-2232)GTC>GTA	p.V744V	CR2_uc001hfv.2_Silent_p.V803V|CR2_uc009xch.2_Silent_p.V744V	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	744	Sushi 12.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						GAAATGAAGTCTCTTATGAAT	0.443													56	169					6.56871e-35	8.10039e-35	1	1	0		A	207648254	A	A	207648254	2	1	89	1	0	0	0	0	0	0	0	1	3845	900	32	5		5	CR2	1	207648254	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	17	207648254	41602367	655	54486											
CR1L	1379	broad.mit.edu	37	chr1	207851610	207851610	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgatcaaagacatccagttCagatcccaaattaaatattc	16	11	5	9	0	2	3	2	1	0	2	5	3	4	3	2	0	0	1	2	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:207851610C>T	uc001hga.3	+	3	466	c.345C>T	c.(343-345)TTC>TTT	p.F115F	CR1L_uc001hfz.2_RNA|CR1L_uc001hgb.1_RNA	NM_175710	NP_783641	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	115	Sushi 2.					cytoplasm|extracellular region|membrane					0						ACATCCAGTTCAGATCCCAAA	0.408													39	51					0	0	1	0	0		T	207851610	T	T	207851610	2	4	89	1	0	0	0	0	0	0	0	1	3844	825	29	4		4	CR1L	1	207851610	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	203356	207851610	41399011	656	54487											
CR1L	1379	broad.mit.edu	37	chr1	207890813	207890813	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttttctttctagaaatCttttgtccaaatcctccagc	8	18	4	11	0	3	1	0	0	3	1	6	1	6	1	3	0	1	1	3	0	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:207890813C>A	uc001hga.3	+	11	1540	c.1419C>A	c.(1417-1419)ATC>ATA	p.I473I	CR1L_uc001hfz.2_RNA|CR1L_uc001hgb.1_RNA	NM_175710	NP_783641	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	473	Sushi 8.					cytoplasm|extracellular region|membrane					0						TTCTAGAAATCTTTTGTCCAA	0.373													75	71					4.79706e-38	5.93708e-38	1	1	0		A	207890813	A	A	207890813	2	1	89	1	0	0	0	0	0	0	0	1	3844	903	32	5		5	CR1L	1	207890813	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	39203	207890813	41359808	657	54488											
PLXNA2	5362	broad.mit.edu	37	chr1	208202319	208202319	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggcaggcgtccgtgatgCtgcccttgtggatgtcaaac	8	9	14	10	2	1	2	1	1	0	1	2	3	2	3	2	3	3	2	2	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:208202319C>A	uc001hgz.2	-	30	6052	c.5294G>T	c.(5293-5295)AGC>ATC	p.S1765I	PLXNA2_uc001hgy.2_Missense_Mutation_p.S35I	NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1765	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GTCCGTGATGCTGCCCTTGTG	0.572													34	86					1.22384e-17	1.42067e-17	1	1	0		A	208202319	A	A	208202319	3	1	89	1	0	0	0	0	1	0	0	0	12139	797	28	5	402	5	PLXNA2	1	208202319	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	311506	208202319	41048302	658	54489											
PLXNA2	5362	broad.mit.edu	37	chr1	208390238	208390238	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgggtggtgatactgctTctgccctttggagaagatgg	6	11	17	7	1	1	3	0	1	1	2	1	4	1	3	1	5	3	1	1	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:208390238T>G	uc001hgz.2	-	2	1788	c.1030A>C	c.(1030-1032)AAG>CAG	p.K344Q	PLXNA2_uc001hha.3_Missense_Mutation_p.K398Q	NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	344	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		TGATACTGCTTCTGCCCTTTG	0.592													41	33					0	0	1	0	0		G	208390238	G	G	208390238	3	3	89	1	0	0	0	0	1	0	0	0	12139	1792	62	5	4778	5	PLXNA2	1	208390238	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	187919	208390238	40860383	659	54490											
TRAF3IP3	80342	broad.mit.edu	37	chr1	209936186	209936186	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaggcagaaggaccaacAattaagaacgatgccagtca	19	4	9	9	1	1	2	1	0	0	2	1	4	1	3	2	2	3	1	2	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:209936186A>C	uc001hho.2	+	5	812	c.522A>C	c.(520-522)ACA>ACC	p.T174T	TRAF3IP3_uc001hhl.2_Silent_p.T154T|TRAF3IP3_uc001hhm.1_Silent_p.T174T|TRAF3IP3_uc001hhn.2_Silent_p.T154T|TRAF3IP3_uc009xcr.2_Silent_p.T174T	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	174	Cytoplasmic (Potential).					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		AAGGACCAACAATTAAGAACG	0.473													62	139					0	0	1	0	0		C	209936186	C	C	209936186	2	2	89	1	0	0	0	0	0	0	0	1	16468	117	5	5		5	TRAF3IP3	1	209936186	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1545948	209936186	39314435	660	54491											
TRAF3IP3	80342	broad.mit.edu	37	chr1	209936841	209936841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgcccgcacccccaggaggCcctacaaagggagctggtcc	8	4	13	16	1	0	0	0	0	0	0	1	2	1	2	5	4	3	2	5	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:209936841C>T	uc001hho.2	+	8	901	c.611C>T	c.(610-612)GCC>GTC	p.A204V	TRAF3IP3_uc001hhl.2_Missense_Mutation_p.A184V|TRAF3IP3_uc001hhm.1_Missense_Mutation_p.A204V|TRAF3IP3_uc001hhn.2_Missense_Mutation_p.A184V|TRAF3IP3_uc009xcr.2_Missense_Mutation_p.A204V	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	204	Cytoplasmic (Potential).					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		CCCCAGGAGGCCCTACAAAGG	0.537													13	57					0	0	1	0	0		T	209936841	T	T	209936841	3	4	89	1	0	0	0	0	1	0	0	0	16468	739	26	2	633	2	TRAF3IP3	1	209936841	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	655	209936841	39313780	661	54492											
C1orf107	27042	broad.mit.edu	37	chr1	210024594	210024594	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgattttctatgaactgccGacatatccacacttttacag	11	14	5	11	1	1	2	0	2	1	0	2	3	2	2	2	0	3	0	2	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:210024594G>A	uc001hhr.1	+	12	2149	c.2073G>A	c.(2071-2073)CCG>CCA	p.P691P	C1orf107_uc009xcu.1_Silent_p.P406P	NM_014388	NP_055203	Q68CQ4	DIEXF_HUMAN	digestive-organ expansion factor homolog	691					multicellular organismal development	nucleus					0				OV - Ovarian serous cystadenocarcinoma(81;0.0367)		ATGAACTGCCGACATATCCAC	0.408													20	68					0	0	1	0	0		A	210024594	A	A	210024594	2	1	89	1	0	0	0	0	0	0	0	1	1984	1045	37	1		1	C1orf107	1	210024594	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	87753	210024594	39226027	662	54493											
SYT14	255928	broad.mit.edu	37	chr1	210334179	210334179	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagtatataaggaaacttTtgtctttcaagtggccctat	11	15	7	8	0	2	0	1	0	1	0	3	1	3	1	2	2	1	1	2	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:210334179T>G	uc009xcv.2	+	8	1532	c.1460T>G	c.(1459-1461)TTT>TGT	p.F487C	SYT14_uc001hhs.3_Missense_Mutation_p.F551C|SYT14_uc001hht.3_Missense_Mutation_p.F506C|SYT14_uc001hhu.3_RNA|SYT14_uc010psn.1_Missense_Mutation_p.F532C|SYT14_uc010pso.1_Missense_Mutation_p.F449C|SYT14_uc010psp.1_Missense_Mutation_p.F25C	NM_153262	NP_694994	Q8NB59	SYT14_HUMAN	synaptotagmin XIV isoform 4	487	Cytoplasmic (Potential).|C2 2.					integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)		AAGGAAACTTTTGTCTTTCAA	0.403													33	121					0	0	1	0	0		G	210334179	G	G	210334179	3	3	89	1	0	0	0	0	1	0	0	0	15495	1841	64	5	1690	5	SYT14	1	210334179	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	309585	210334179	38916442	663	54494											
SYT14	255928	broad.mit.edu	37	chr1	210334372	210334372	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtatgtagatggcatgcGttgctagagtcatgatgaat	12	12	12	5	1	1	4	1	2	0	2	1	4	1	4	0	1	2	5	0	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:210334372G>A	uc009xcv.2	+	8	1725	c.1653G>A	c.(1651-1653)GCG>GCA	p.A551A	SYT14_uc001hhs.3_Silent_p.A615A|SYT14_uc001hht.3_Silent_p.A570A|SYT14_uc001hhu.3_RNA|SYT14_uc010psn.1_Silent_p.A596A|SYT14_uc010pso.1_Silent_p.A513A|SYT14_uc010psp.1_Silent_p.A89A	NM_153262	NP_694994	Q8NB59	SYT14_HUMAN	synaptotagmin XIV isoform 4	551	Cytoplasmic (Potential).					integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)		GATGGCATGCGTTGCTAGAGT	0.403													19	122					0	0	1	0	0		A	210334372	A	A	210334372	2	1	89	1	0	0	0	0	0	0	0	1	15495	1132	40	1		1	SYT14	1	210334372	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	193	210334372	38916249	664	54495											
KCNH1	3756	broad.mit.edu	37	chr1	210856661	210856661	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctctctgattctggggActgtggcctcgatatttcaa	6	15	10	10	1	4	1	1	1	3	0	7	3	4	2	1	3	0	0	1	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:210856661A>G	uc001hib.2	-	11	3102	c.2932T>C	c.(2932-2934)TCC>CCC	p.S978P	KCNH1_uc001hic.2_Missense_Mutation_p.S951P	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	978	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		GATTCTGGGGACTGTGGCCTC	0.458													33	143					0	0	1	0	0		G	210856661	G	G	210856661	3	3	89	1	0	0	0	0	1	0	0	0	8047	275	10	3	41	3	KCNH1	1	210856661	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	522289	210856661	38393960	665	54496											
KCNH1	3756	broad.mit.edu	37	chr1	210977369	210977369	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatataatccattactcgCtcactcaatccttttggcac	12	13	3	13	1	2	0	2	0	0	0	5	0	4	0	2	1	1	2	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:210977369C>T	uc001hib.2	-	8	1772	c.1602G>A	c.(1600-1602)GAG>GAA	p.E534E	KCNH1_uc001hic.2_Silent_p.E507E	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	534	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		CCATTACTCGCTCACTCAATC	0.458													50	60					0	0	1	0	0		T	210977369	T	T	210977369	2	4	89	1	0	0	0	0	0	0	0	1	8047	796	28	2		2	KCNH1	1	210977369	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	120708	210977369	38273252	666	54497											
KCNH1	3756	broad.mit.edu	37	chr1	211093016	211093016	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggccactgcaaagatcttCtcaatgtctgtggatggggc	9	11	12	9	0	3	1	1	0	3	1	4	2	3	2	1	4	1	1	1	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:211093016C>A	uc001hib.2	-	7	1598	c.1428G>T	c.(1426-1428)GAG>GAT	p.E476D	KCNH1_uc001hic.2_Missense_Mutation_p.E449D	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	476	Extracellular (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		CAAAGATCTTCTCAATGTCTG	0.498													47	180					1.08114e-33	1.32944e-33	1	1	0		A	211093016	A	A	211093016	3	1	89	1	0	0	0	0	1	0	0	0	8047	912	32	5	1561	5	KCNH1	1	211093016	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	115647	211093016	38157605	667	54498											
RCOR3	55758	broad.mit.edu	37	chr1	211451540	211451540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaggacaagtttgatggatCgccaggctcgtaaactagct	11	10	11	9	2	0	1	0	1	0	0	2	3	0	3	1	3	2	4	1	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:211451540C>T	uc001hig.2	+	5	593	c.424C>T	c.(424-426)CGC>TGC	p.R142C	RCOR3_uc010psv.1_RNA|RCOR3_uc001hie.2_Missense_Mutation_p.R200C|RCOR3_uc010psw.1_Missense_Mutation_p.R200C|RCOR3_uc001hif.2_Missense_Mutation_p.R200C	NM_018254	NP_060724	Q9P2K3	RCOR3_HUMAN	REST corepressor 3 isoform d	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		TTTGATGGATCGCCAGGCTCG	0.363													47	177					0	0	1	0	0		T	211451540	T	T	211451540	3	4	89	1	0	0	0	0	1	0	0	0	13209	884	31	1	620	1	RCOR3	1	211451540	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	358524	211451540	37799081	668	54499											
RD3	343035	broad.mit.edu	37	chr1	211654646	211654646	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgcctctcagcctctcGcatctgccccgtcagctcca	4	10	7	20	2	4	0	2	0	3	0	7	0	5	0	5	0	5	3	5	0	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:211654646G>A	uc001him.2	-	2	1276	c.112C>T	c.(112-114)CGA>TGA	p.R38*	RD3_uc001hin.2_RNA|RD3_uc009xda.2_Intron	NM_183059	NP_898882	Q7Z3Z2	RD3_HUMAN	retinal degeneration 3	38	Potential.				response to stimulus|visual perception					ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00284)|all cancers(67;0.0279)|Epithelial(68;0.0689)		TCAGCCTCTCGCATCTGCCCC	0.642													69	58					0	0	1	0	0		A	211654646	A	A	211654646	4	1	89	1	0	0	0	0	0	1	0	0	13212	1095	38	1	483	1	RD3	1	211654646	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	203106	211654646	37595975	669	54500											
LPGAT1	9926	broad.mit.edu	37	chr1	211956643	211956643	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtgcattcaaaataatttTtgttgccccagaccttggca	12	13	7	9	0	1	1	1	0	0	1	1	1	1	1	3	1	2	3	3	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:211956643T>G	uc001hiu.2	-	5	1468	c.655A>C	c.(655-657)AAA>CAA	p.K219Q	LPGAT1_uc001hiv.2_Missense_Mutation_p.K219Q	NM_014873	NP_055688	Q92604	LGAT1_HUMAN	lysophosphatidylglycerol acyltransferase 1	219					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.00773)|all cancers(67;0.0765)|Epithelial(68;0.114)		AAAATAATTTTTGTTGCCCCA	0.398													33	67					0	0	1	0	0		G	211956643	G	G	211956643	3	3	89	1	0	0	0	0	1	0	0	0	8932	1850	64	5	473	5	LPGAT1	1	211956643	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	301997	211956643	37293978	670	54501											
PPP2R5A	5525	broad.mit.edu	37	chr1	212515594	212515594	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagcctagcattgcaaaacGatacattgatcagaaattcg	15	9	7	10	2	1	2	1	1	0	1	2	3	1	2	2	0	5	2	2	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:212515594G>A	uc001hjb.2	+	4	1119	c.545G>A	c.(544-546)CGA>CAA	p.R182Q	PPP2R5A_uc010ptd.1_Missense_Mutation_p.R123Q	NM_006243	NP_006234	Q15172	2A5A_HUMAN	protein phosphatase 2, regulatory subunit B	182					negative regulation of establishment of protein localization in plasma membrane|negative regulation of lipid kinase activity|positive regulation of protein dephosphorylation|signal transduction	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex	kinase binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0125)|all cancers(67;0.029)|Epithelial(68;0.154)|GBM - Glioblastoma multiforme(131;0.155)		ATTGCAAAACGATACATTGAT	0.318													26	104					0	0	1	0	0		A	212515594	A	A	212515594	3	1	89	1	0	0	0	0	1	0	0	0	12414	1058	37	1	559	1	PPP2R5A	1	212515594	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	558951	212515594	36735027	671	54502											
RPS6KC1	26750	broad.mit.edu	37	chr1	213341250	213341250	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaagagaagaacagccgaGtacctcatgcgggcagaaag	15	4	14	8	2	1	4	1	1	0	3	1	6	1	4	2	1	4	2	2	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:213341250G>A	uc010ptr.1	+	7	1044	c.885G>A	c.(883-885)GAG>GAA	p.E295E	RPS6KC1_uc001hkd.2_Silent_p.E283E|RPS6KC1_uc010pts.1_Silent_p.E114E|RPS6KC1_uc010ptt.1_Silent_p.E114E|RPS6KC1_uc010ptu.1_Silent_p.E114E|RPS6KC1_uc010ptv.1_5'UTR|RPS6KC1_uc001hke.2_Silent_p.E114E	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	295	MIT.				cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		GAACAGCCGAGTACCTCATGC	0.408													38	42					0	0	1	0	0		A	213341250	A	A	213341250	2	1	89	1	0	0	0	0	0	0	0	1	13683	1020	36	4		4	RPS6KC1	1	213341250	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	825656	213341250	35909371	672	54503											
PROX1	5629	broad.mit.edu	37	chr1	214171593	214171593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctgaaatatcaccttattCgggaagtgcaatatcctttt	11	15	7	8	1	2	1	1	1	1	0	4	2	3	2	2	1	1	1	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:214171593C>T	uc001hkh.2	+	2	1987	c.1715C>T	c.(1714-1716)TCG>TTG	p.S572L	PROX1_uc001hkg.1_Missense_Mutation_p.S572L	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	572					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		TCACCTTATTCGGGAAGTGCA	0.448													32	132					0	0	1	0	0		T	214171593	T	T	214171593	3	4	89	1	0	0	0	0	1	0	0	0	12582	893	31	1	1717	1	PROX1	1	214171593	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	830343	214171593	35079028	673	54504											
SMYD2	56950	broad.mit.edu	37	chr1	214491450	214491451	+	Frame_Shift_Ins	INS	-	C	C																															ccagagagaacaccttcggaINSaaaattgttagctgtgaagg																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:214491450_214491451insC	uc010ptx.1	+	4	410_411	c.377_378insC	c.(376-378)GAAfs	p.E126fs	SMYD2_uc009xdj.2_Frame_Shift_Ins_p.E34fs|SMYD2_uc010ptw.1_RNA|SMYD2_uc009xdl.1_RNA	NM_020197	NP_064582	Q9NRG4	SMYD2_HUMAN	SET and MYND domain containing 2	126					negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|regulation of DNA damage response, signal transduction by p53 class mediator|transcription, DNA-dependent	cytosol|nucleus	histone methyltransferase activity (H3-K36 specific)|p53 binding|RNA polymerase II core binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0122)|all cancers(67;0.0209)|GBM - Glioblastoma multiforme(131;0.106)|Epithelial(68;0.144)		ACACCTTCGGAAAAATTGTTAG	0.431													94	94	---	---	---	---						.	C	214491451	C	C	214491450	7	5	89	1	0	1	1	0	0	0	0	0	14847	246	9	0	391	0	SMYD2	1	214491450	Frame_Shift_Ins	INS	-	TCGA-BR-8680-01A-11D-2394-08	319857	214491450	34759171	674	54505											
SMYD2	56950	broad.mit.edu	37	chr1	214492285	214492285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttttactccaagcatctcGgattccctgacaatgatagc	11	12	6	12	1	1	2	0	2	1	0	4	3	3	3	2	1	3	1	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:214492285G>A	uc010ptx.1	+	5	526	c.493G>A	c.(493-495)GGA>AGA	p.G165R	SMYD2_uc009xdj.2_Missense_Mutation_p.G73R|SMYD2_uc010ptw.1_RNA|SMYD2_uc009xdl.1_RNA	NM_020197	NP_064582	Q9NRG4	SMYD2_HUMAN	SET and MYND domain containing 2	165	SET.				negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|regulation of DNA damage response, signal transduction by p53 class mediator|transcription, DNA-dependent	cytosol|nucleus	histone methyltransferase activity (H3-K36 specific)|p53 binding|RNA polymerase II core binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0122)|all cancers(67;0.0209)|GBM - Glioblastoma multiforme(131;0.106)|Epithelial(68;0.144)		CAAGCATCTCGGATTCCCTGA	0.468													36	100					0	0	1	0	0		A	214492285	A	A	214492285	3	1	89	1	0	0	0	0	1	0	0	0	14847	1117	39	1	511	1	SMYD2	1	214492285	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	835	214492285	34758336	675	54506											
PTPN14	5784	broad.mit.edu	37	chr1	214551407	214551407	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaacatcagcggcctcttCtgtgcctccaggcctgccat	6	9	9	17	1	3	0	1	0	2	0	4	0	4	0	6	2	4	0	6	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:214551407C>A	uc001hkk.1	-	14	2854	c.2583G>T	c.(2581-2583)CAG>CAT	p.Q861H	PTPN14_uc010pty.1_Missense_Mutation_p.Q762H	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	861					lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		GCGGCCTCTTCTGTGCCTCCA	0.517													18	68					3.32936e-07	3.48551e-07	1	1	0		A	214551407	A	A	214551407	3	1	89	1	0	0	0	0	1	0	0	0	12806	912	32	5	1004	5	PTPN14	1	214551407	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	59122	214551407	34699214	676	54507											
CENPF	1063	broad.mit.edu	37	chr1	214794191	214794191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaagaggtgactccaagtcGatcaactttgcaaataggga	15	8	10	8	1	1	2	1	1	0	1	3	4	2	3	1	2	2	1	1	2	5	2	rs147545168	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:214794191G>A	uc001hkm.2	+	6	941	c.767G>A	c.(766-768)CGA>CAA	p.R256Q		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	256	Interaction with SNAP25 and required for localization to the cytoplasm (By similarity).				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		ACTCCAAGTCGATCAACTTTG	0.388													41	149					0	0	1	0	0		A	214794191	A	A	214794191	3	1	89	1	0	0	0	0	1	0	0	0	3234	1058	37	1	785	1	CENPF	1	214794191	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	242784	214794191	34456430	677	54508											
CENPF	1063	broad.mit.edu	37	chr1	214802406	214802406	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtatactgcattggaacaAaaactgaaaaaattgacgga	19	9	8	5	1	0	2	0	2	0	0	0	4	0	4	0	2	4	2	0	2	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:214802406A>C	uc001hkm.2	+	8	1260	c.1086A>C	c.(1084-1086)CAA>CAC	p.Q362H		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	362	Interaction with SNAP25 and required for localization to the cytoplasm (By similarity).|Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		CATTGGAACAAAAACTGAAAA	0.294													20	47					0	0	1	0	0		C	214802406	C	C	214802406	3	2	89	1	0	0	0	0	1	0	0	0	3234	11	1	5	1112	5	CENPF	1	214802406	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	8215	214802406	34448215	678	54509											
CENPF	1063	broad.mit.edu	37	chr1	214813974	214813974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccgaatatgagagcctcaggGatctgctaaaatccaaagat	15	8	9	9	1	2	2	1	1	1	2	3	5	3	3	3	1	2	1	3	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:214813974G>A	uc001hkm.2	+	12	2467	c.2293G>A	c.(2293-2295)GAT>AAT	p.D765N		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	765	Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		GAGCCTCAGGGATCTGCTAAA	0.423													13	55					0	0	1	0	0		A	214813974	A	A	214813974	3	1	89	1	0	0	0	0	1	0	0	0	3234	1174	41	4	2335	4	CENPF	1	214813974	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11568	214813974	34436647	679	54510											
CENPF	1063	broad.mit.edu	37	chr1	214815908	214815908	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttgccgaattgcaagaGaaattcttatctttacaaag	14	13	6	8	1	2	1	0	0	2	1	2	3	2	1	1	0	3	1	1	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:214815908G>T	uc001hkm.2	+	12	4401	c.4227G>T	c.(4225-4227)GAG>GAT	p.E1409D		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		AATTGCAAGAGAAATTCTTAT	0.398													12	69					9.05144e-12	9.95561e-12	1	1	0		T	214815908	T	T	214815908	3	4	89	1	0	0	0	0	1	0	0	0	3234	933	33	5	4269	5	CENPF	1	214815908	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1934	214815908	34434713	680	54511											
CENPF	1063	broad.mit.edu	37	chr1	214816283	214816283	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcagtctgcaggaggaGaatctgaccaggaaagaaac	15	5	13	8	0	2	3	0	1	2	2	2	6	2	5	1	3	4	3	1	3	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:214816283G>T	uc001hkm.2	+	12	4776	c.4602G>T	c.(4600-4602)GAG>GAT	p.E1534D		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	1630					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TGCAGGAGGAGAATCTGACCA	0.498													29	72					6.38683e-12	7.03806e-12	1	1	0		T	214816283	T	T	214816283	3	4	89	1	0	0	0	0	1	0	0	0	3234	933	33	5	4644	5	CENPF	1	214816283	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	375	214816283	34434338	681	54512											
CENPF	1063	broad.mit.edu	37	chr1	214826201	214826201	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatccagacataccgagagAaattgacttctaaagaagaa	20	7	7	7	1	1	5	0	1	1	4	2	7	2	5	2	0	1	0	2	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:214826201A>G	uc001hkm.2	+	16	8365	c.8191A>G	c.(8191-8193)AAA>GAA	p.K2731E		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2827	Potential.|Sufficient for self-association.|Sufficient for centromere localization.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		ATACCGAGAGAAATTGACTTC	0.343													54	43					0	0	1	0	0		G	214826201	G	G	214826201	3	3	89	1	0	0	0	0	1	0	0	0	3234	247	9	3	8249	3	CENPF	1	214826201	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	9918	214826201	34424420	682	54513											
KCNK2	3776	broad.mit.edu	37	chr1	215259996	215259996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaacattcctgtgtcaattCgacggagctggatgaactca	11	10	9	11	2	2	1	2	1	0	0	4	4	3	3	2	2	3	1	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:215259996C>T	uc001hkq.2	+	2	501	c.332C>T	c.(331-333)TCG>TTG	p.S111L	KCNK2_uc001hko.2_Missense_Mutation_p.S107L|KCNK2_uc009xdm.2_RNA|KCNK2_uc001hkp.2_RNA|KCNK2_uc010pua.1_RNA|KCNK2_uc001hkr.3_Missense_Mutation_p.S96L	NM_001017425	NP_001017425	O95069	KCNK2_HUMAN	potassium channel, subfamily K, member 2 isoform	111							outward rectifier potassium channel activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.0399)|all cancers(67;0.0556)|GBM - Glioblastoma multiforme(131;0.068)	Dofetilide(DB00204)	TGTGTCAATTCGACGGAGCTG	0.458													118	111					0	0	1	0	0		T	215259996	T	T	215259996	3	4	89	1	0	0	0	0	1	0	0	0	8082	893	31	1	381	1	KCNK2	1	215259996	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	433795	215259996	33990625	683	54514											
KCTD3	51133	broad.mit.edu	37	chr1	215792499	215792499	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatttgttctcctaagatgtAggtggtccaaccgaagaaga	12	12	10	7	1	1	3	0	0	1	3	3	4	2	3	3	2	1	2	3	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:215792499A>C	uc001hks.2	+	17	2046	c.1752A>C	c.(1750-1752)GTA>GTC	p.V584V	KCTD3_uc001hkt.2_Splice_Site_p.G583_splice|KCTD3_uc010pub.1_Silent_p.V482V|KCTD3_uc009xdn.2_Silent_p.V308V	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	584						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		CCTAAGATGTAGGTGGTCCAA	0.398													35	126					0	0	1	0	0		C	215792499	C	C	215792499	2	2	89	1	0	0	0	0	0	0	0	1	8126	407	15	5		5	KCTD3	1	215792499	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	532503	215792499	33458122	684	54515											
USH2A	7399	broad.mit.edu	37	chr1	215812516	215812516	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagtccagtagaggtatcAtattggatcaacggcgtctt	11	11	10	9	2	3	1	2	0	1	1	4	2	4	2	2	3	1	2	2	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:215812516A>C	uc001hku.1	-	69	15420	c.15033T>G	c.(15031-15033)TAT>TAG	p.Y5011*		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	5011	Fibronectin type-III 35.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TAGAGGTATCATATTGGATCA	0.393										HNSCC(13;0.011)			62	239					0	0	1	0	0		C	215812516	C	C	215812516	4	2	89	1	0	0	0	0	0	1	0	0	17062	224	8	5	591	5	USH2A	1	215812516	Nonsense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	20017	215812516	33438105	685	54516											
USH2A	7399	broad.mit.edu	37	chr1	216108085	216108085	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcacccaaaggtttgtctcTtctccgctgtacatgacttt	8	14	7	12	1	2	1	0	1	2	0	4	1	2	1	2	1	2	4	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:216108085T>A	uc001hku.1	-	38	7560	c.7173A>T	c.(7171-7173)GAA>GAT	p.E2391D		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2391	Extracellular (Potential).|Fibronectin type-III 10.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GGTTTGTCTCTTCTCCGCTGT	0.333										HNSCC(13;0.011)			68	75					0	0	1	0	0		A	216108085	A	A	216108085	3	1	89	1	0	0	0	0	1	0	0	0	17062	1606	56	5	8575	5	USH2A	1	216108085	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	295569	216108085	33142536	686	54517											
USH2A	7399	broad.mit.edu	37	chr1	216270438	216270438	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttacctgaggatcaaaaAgaaaataaagacgtcccttc	17	9	6	9	1	1	3	1	1	0	2	3	4	2	4	2	1	1	0	2	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:216270438A>C	uc001hku.1	-	22	5132	c.4745T>G	c.(4744-4746)CTT>CGT	p.L1582R		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1582	Laminin G-like 1.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AGGATCAAAAAGAAAATAAAG	0.249										HNSCC(13;0.011)			7	53					0	0	1	0	0		C	216270438	C	C	216270438	3	2	89	1	0	0	0	0	1	0	0	0	17062	72	3	5	11067	5	USH2A	1	216270438	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	162353	216270438	32980183	687	54518											
USH2A	7399	broad.mit.edu	37	chr1	216380731	216380731	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagagattgatagcagaaGaactttgaacttgtcctctg	13	11	11	6	0	1	5	0	2	1	3	2	7	2	6	1	1	3	1	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:216380731G>T	uc001hku.1	-	16	3587	c.3200C>A	c.(3199-3201)TCT>TAT	p.S1067Y	USH2A_uc001hkv.2_Missense_Mutation_p.S1067Y	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1067	Extracellular (Potential).|Fibronectin type-III 1.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GATAGCAGAAGAACTTTGAAC	0.413										HNSCC(13;0.011)			28	107					7.38237e-10	7.96475e-10	1	1	0		T	216380731	T	T	216380731	3	4	89	1	0	0	0	0	1	0	0	0	17062	942	33	5	12650	5	USH2A	1	216380731	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	110293	216380731	32869890	688	54519											
USH2A	7399	broad.mit.edu	37	chr1	216420132	216420132	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacccctaatttgcaaggAcattgtcctgttgatttgtt	8	17	8	8	0	0	1	0	1	0	0	1	2	1	2	3	1	2	4	3	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:216420132A>G	uc001hku.1	-	13	2991	c.2604T>C	c.(2602-2604)TGT>TGC	p.C868C	USH2A_uc001hkv.2_Silent_p.C868C	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	868	Laminin EGF-like 7.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATTTGCAAGGACATTGTCCTG	0.428										HNSCC(13;0.011)			78	242					0	0	1	0	0		G	216420132	G	G	216420132	2	3	89	1	0	0	0	0	0	0	0	1	17062	273	10	3		3	USH2A	1	216420132	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	39401	216420132	32830489	689	54520											
SPATA17	128153	broad.mit.edu	37	chr1	217947760	217947760	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaaagcctttaacacacCgaagacctaaagttaagcag	17	6	8	10	1	0	1	0	0	0	1	0	2	0	1	3	1	3	3	3	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:217947760C>T	uc001hlh.1	+	7	630	c.604C>T	c.(604-606)CGA>TGA	p.R202*	SPATA17_uc009xdr.1_RNA|SPATA17_uc001hli.2_Nonsense_Mutation_p.R202*	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	202						cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		TTTAACACACCGAAGACCTAA	0.443													12	100					0	0	1	0	0		T	217947760	T	T	217947760	4	4	89	1	0	0	0	0	0	1	0	0	15027	644	23	1	630	1	SPATA17	1	217947760	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1527628	217947760	31302861	690	54521											
SPATA17	128153	broad.mit.edu	37	chr1	217955597	217955597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcgggtggcagaaccaatcGatgagttaaagttggccaga	12	8	14	7	2	0	3	0	1	0	2	1	4	0	3	2	3	2	3	2	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:217955597G>A	uc001hlh.1	+	8	831	c.805G>A	c.(805-807)GAT>AAT	p.D269N	SPATA17_uc009xdr.1_RNA|SPATA17_uc001hli.2_Missense_Mutation_p.D269N	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	269						cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		AGAACCAATCGATGAGTTAAA	0.468													20	76					0	0	1	0	0		A	217955597	A	A	217955597	3	1	89	1	0	0	0	0	1	0	0	0	15027	1058	37	1	835	1	SPATA17	1	217955597	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7837	217955597	31295024	691	54522											
TGFB2	7042	broad.mit.edu	37	chr1	218578621	218578621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcagagttcagagtctttCgtttgcagaacccaaaagcc	13	9	9	10	1	2	3	1	0	1	3	3	3	2	3	2	0	4	4	2	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:218578621C>T	uc001hlm.2	+	2	1110	c.457C>T	c.(457-459)CGT>TGT	p.R153C	TGFB2_uc001hll.2_Missense_Mutation_p.R181C|TGFB2_uc001hln.2_Missense_Mutation_p.R181C|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	153					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		CAGAGTCTTTCGTTTGCAGAA	0.363													61	258					0	0	1	0	0		T	218578621	T	T	218578621	3	4	89	1	0	0	0	0	1	0	0	0	15843	884	31	1	551	1	TGFB2	1	218578621	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	623024	218578621	30672000	692	54523											
LYPLAL1	127018	broad.mit.edu	37	chr1	219384943	219384943	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaactcaatgttaaaatCtctaggagtgaccacgaagt	16	9	8	8	1	2	1	1	1	1	0	3	4	2	2	1	1	1	1	1	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:219384943C>A	uc001hlq.3	+	5	628	c.587C>A	c.(586-588)TCT>TAT	p.S196Y	LYPLAL1_uc001hlr.3_Missense_Mutation_p.S180Y|LYPLAL1_uc001hls.3_Missense_Mutation_p.S72Y|LYPLAL1_uc001hlt.3_Missense_Mutation_p.S72Y|LYPLAL1_uc009xds.2_Missense_Mutation_p.S145Y	NM_138794	NP_620149	Q5VWZ2	LYPL1_HUMAN	lysophospholipase-like 1	196						cytoplasm	lysophospholipase activity				0				GBM - Glioblastoma multiforme(131;0.055)|all cancers(67;0.105)|OV - Ovarian serous cystadenocarcinoma(81;0.116)		ATGTTAAAATCTCTAGGAGTG	0.363													49	135					2.13384e-23	2.55524e-23	1	1	0		A	219384943	A	A	219384943	3	1	89	1	0	0	0	0	1	0	0	0	9136	913	32	5	605	5	LYPLAL1	1	219384943	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	806322	219384943	29865678	693	54524											
EPRS	2058	broad.mit.edu	37	chr1	220191809	220191809	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctttttgttaaacgcccaGattttgtcccactccatgtt	8	16	5	12	1	0	1	0	0	0	1	2	1	2	1	4	0	1	2	4	0	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:220191809G>A	uc001hly.1	-	12	1746	c.1476C>T	c.(1474-1476)ATC>ATT	p.I492I	EPRS_uc010puf.1_Silent_p.I243I|EPRS_uc001hlz.1_Silent_p.I492I|EPRS_uc009xdt.1_Intron	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	492	Glutamyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	TAAACGCCCAGATTTTGTCCC	0.378													23	93					0	0	1	0	0		A	220191809	A	A	220191809	2	1	89	1	0	0	0	0	0	0	0	1	5199	932	33	4		4	EPRS	1	220191809	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	806866	220191809	29058812	694	54525											
IARS2	55699	broad.mit.edu	37	chr1	220279257	220279257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatttggaaaatggtacttGcagtcatccattaattcctg	12	14	8	7	0	1	1	1	0	0	1	3	2	3	2	2	2	2	2	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:220279257G>A	uc001hmc.2	+	9	1195	c.1091G>A	c.(1090-1092)TGC>TAC	p.C364Y		NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase	364					isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	AATGGTACTTGCAGTCATCCA	0.383													43	124					0	0	1	0	0		A	220279257	A	A	220279257	3	1	89	1	0	0	0	0	1	0	0	0	7490	1319	46	2	1125	2	IARS2	1	220279257	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	87448	220279257	28971364	695	54526											
MIA3	375056	broad.mit.edu	37	chr1	222802768	222802768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactactagaggatgaaaacGctataaatgcaaaacggtct	18	8	8	7	2	1	2	0	1	1	1	1	3	1	3	0	2	5	2	0	2	10	4	rs76866849	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:222802768G>A	uc001hnl.2	+	4	2215	c.2206G>A	c.(2206-2208)GCT>ACT	p.A736T	MIA3_uc009xea.1_Missense_Mutation_p.A572T	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	736	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		GGATGAAAACGCTATAAATGC	0.438													28	93					0	0	1	0	0		A	222802768	A	A	222802768	3	1	89	1	0	0	0	0	1	0	0	0	9583	1087	38	1	2220	1	MIA3	1	222802768	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2523511	222802768	26447853	696	54527											
MIA3	375056	broad.mit.edu	37	chr1	222803139	222803139	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagaacgacaaccctgaGgaacatctgaagacctcagg	15	5	10	11	1	2	5	1	3	1	2	2	7	2	6	2	2	3	0	2	2	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:222803139G>A	uc001hnl.2	+	4	2586	c.2577G>A	c.(2575-2577)GAG>GAA	p.E859E	MIA3_uc009xea.1_Silent_p.E695E	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	859	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		ACAACCCTGAGGAACATCTGA	0.448													17	55					0	0	1	0	0		A	222803139	A	A	222803139	2	1	89	1	0	0	0	0	0	0	0	1	9583	991	35	4		4	MIA3	1	222803139	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	371	222803139	26447482	697	54528											
C1orf58	148362	broad.mit.edu	37	chr1	222906034	222906034	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacatcaaacctcaaaaggAcactgggtgctacatctcct	14	8	7	12	0	3	1	2	0	1	1	4	2	3	2	2	2	3	1	2	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:222906034A>G	uc001hnq.1	+	13	1609	c.1214A>G	c.(1213-1215)GAC>GGC	p.D405G	C1orf58_uc010put.1_Missense_Mutation_p.D373G|C1orf58_uc010puu.1_3'UTR|C1orf58_uc010puv.1_Missense_Mutation_p.D373G|uc001hnr.1_Intron|uc001hns.1_5'Flank	NM_144695	NP_653296	Q5VW32	BROX_HUMAN	Bro1-domain-containing protein	405	BRO1.					membrane					0				GBM - Glioblastoma multiforme(131;0.0667)		CCTCAAAAGGACACTGGGTGC	0.353													17	47					0	0	1	0	0		G	222906034	G	G	222906034	3	3	89	1	0	0	0	0	1	0	0	0	2053	275	10	3	1260	3	C1orf58	1	222906034	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	102895	222906034	26344587	698	54529											
DISP1	84976	broad.mit.edu	37	chr1	223177427	223177427	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcaagagagctatcatggaGctggaaaggagtacagggta	15	7	14	5	0	2	1	2	0	0	1	2	5	2	4	0	4	3	4	0	4	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:223177427G>A	uc001hnu.1	+	8	2835	c.2688G>A	c.(2686-2688)GAG>GAA	p.E896E		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	896					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		CTATCATGGAGCTGGAAAGGA	0.493													22	73					0	0	1	0	0		A	223177427	A	A	223177427	2	1	89	1	0	0	0	0	0	0	0	1	4545	962	34	2		2	DISP1	1	223177427	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	271393	223177427	26073194	699	54530											
C1orf65	164127	broad.mit.edu	37	chr1	223568033	223568033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaggctggtggaagcctgtCgcaagaggcacctacatgcc	9	6	15	11	1	0	1	0	0	0	1	1	3	0	3	3	5	3	3	3	5	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:223568033C>T	uc001hoa.2	+	1	1319	c.1216C>T	c.(1216-1218)CGC>TGC	p.R406C		NM_152610	NP_689823	Q8N715	CA065_HUMAN	hypothetical protein LOC164127	406										central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0704)		GGAAGCCTGTCGCAAGAGGCA	0.627													25	28					0	0	1	0	0		T	223568033	T	T	223568033	3	4	89	1	0	0	0	0	1	0	0	0	2058	884	31	1	1218	1	C1orf65	1	223568033	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	390606	223568033	25682588	700	54531											
TP53BP2	7159	broad.mit.edu	37	chr1	223984003	223984003	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccattaggaccctctggCtctgtaatagaactacgttt	9	12	9	11	1	2	1	0	0	2	1	2	2	2	2	2	3	2	3	2	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:223984003C>T	uc010pvb.1	-	13	2530	c.2238G>A	c.(2236-2238)GAG>GAA	p.E746E	TP53BP2_uc001hod.2_Silent_p.E617E|TP53BP2_uc010puz.1_5'UTR|TP53BP2_uc010pva.1_Silent_p.E385E	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	740					apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		GACCCTCTGGCTCTGTAATAG	0.463													60	169					0	0	1	0	0		T	223984003	T	T	223984003	2	4	89	1	0	0	0	0	0	0	0	1	16410	796	28	2		2	TP53BP2	1	223984003	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	415970	223984003	25266618	701	54532											
TP53BP2	7159	broad.mit.edu	37	chr1	223988509	223988509	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaactggatggattttaGagcctaaaatacagaaaagc	16	8	10	7	0	0	2	0	0	0	2	0	4	0	4	2	3	4	0	2	3	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:223988509G>T	uc010pvb.1	-	10	1521	c.1229C>A	c.(1228-1230)TCT>TAT	p.S410Y	TP53BP2_uc001hod.2_Missense_Mutation_p.S281Y|TP53BP2_uc010puz.1_5'UTR|TP53BP2_uc010pva.1_Missense_Mutation_p.S49Y	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	404					apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		ATGGATTTTAGAGCCTAAAAT	0.383													15	64					1.05317e-09	1.13491e-09	1	1	0		T	223988509	T	T	223988509	3	4	89	1	0	0	0	0	1	0	0	0	16410	942	33	5	2211	5	TP53BP2	1	223988509	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4506	223988509	25262112	702	54533											
FBXO28	23219	broad.mit.edu	37	chr1	224321810	224321810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagaaaccattcattagctCgtcatgcagacattcttgct	11	12	8	10	1	3	2	2	0	1	2	4	3	3	2	1	1	4	3	1	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:224321810C>T	uc001hoh.2	+	3	453	c.412C>T	c.(412-414)CGT>TGT	p.R138C	FBXO28_uc009xef.2_Missense_Mutation_p.R138C|FBXO28_uc010pvc.1_Intron	NM_015176	NP_055991	Q9NVF7	FBX28_HUMAN	F-box protein 28 isoform a	138										ovary(2)|kidney(2)|lung(1)	5	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.0363)		TTCATTAGCTCGTCATGCAGA	0.353													22	13					0	0	1	0	0		T	224321810	T	T	224321810	3	4	89	1	0	0	0	0	1	0	0	0	5752	884	31	1	422	1	FBXO28	1	224321810	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	333301	224321810	24928811	703	54534											
WDR26	80232	broad.mit.edu	37	chr1	224586614	224586614	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcctatctgtaaggtcctcGaagttatagccccgaattcg	9	13	8	11	3	1	0	0	0	1	0	5	2	3	0	4	1	1	2	4	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:224586614G>A	uc001hop.3	-	10	1467	c.1101C>T	c.(1099-1101)TTC>TTT	p.F367F	WDR26_uc001hoq.3_Silent_p.F351F|WDR26_uc010pvh.1_Silent_p.F74F	NM_025160	NP_079436	Q9H7D7	WDR26_HUMAN	WD repeat domain 26 isoform a	514						cytoplasm|nucleus					0				GBM - Glioblastoma multiforme(131;0.0104)		TAAGGTCCTCGAAGTTATAGC	0.408													53	59					0	0	1	0	0		A	224586614	A	A	224586614	2	1	89	1	0	0	0	0	0	0	0	1	17309	1049	37	1		1	WDR26	1	224586614	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	264804	224586614	24664007	704	54535											
LBR	3930	broad.mit.edu	37	chr1	225599097	225599097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagatcaaaagtaccaattCgagggtttaattcacggcca	14	10	9	8	2	2	1	2	1	0	1	3	3	2	1	2	2	1	2	2	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:225599097C>T	uc001hoy.2	-	9	1273	c.1130G>A	c.(1129-1131)CGA>CAA	p.R377Q	LBR_uc001hoz.2_Missense_Mutation_p.R377Q|LBR_uc001hpa.1_Missense_Mutation_p.R377Q	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	377					cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		AGTACCAATTCGAGGGTTTAA	0.388													85	76					0	0	1	0	0		T	225599097	T	T	225599097	3	4	89	1	0	0	0	0	1	0	0	0	8668	884	31	1	741	1	LBR	1	225599097	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1012483	225599097	23651524	705	54536											
LIN9	286826	broad.mit.edu	37	chr1	226421140	226421140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttgaggaatttgcatgccGaacaatttcctgtgcttctt	8	16	9	8	1	1	1	0	1	1	0	2	3	2	2	2	1	4	3	2	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:226421140G>A	uc001hqa.2	-	13	1688	c.1378C>T	c.(1378-1380)CGG>TGG	p.R460W	LIN9_uc001hqb.2_Missense_Mutation_p.R425W|LIN9_uc001hqc.2_Missense_Mutation_p.R392W|LIN9_uc009xel.1_Missense_Mutation_p.R425W	NM_173083	NP_775106	Q5TKA1	LIN9_HUMAN	lin-9 homolog	444					cell cycle|DNA replication	nucleoplasm					0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.131)		TTTGCATGCCGAACAATTTCC	0.443													48	174					0	0	1	0	0		A	226421140	A	A	226421140	3	1	89	1	0	0	0	0	1	0	0	0	8830	1057	37	1	310	1	LIN9	1	226421140	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	822043	226421140	22829481	706	54537											
ITPKB	3707	broad.mit.edu	37	chr1	226825420	226825420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagaaacttctagagtggttCgaatggccttcagccggtcc	9	10	12	10	2	2	2	1	0	1	2	4	4	3	2	3	3	2	1	3	3	3	4	rs142586470		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:226825420C>T	uc010pvo.1	-	7	2925	c.2585G>A	c.(2584-2586)CGA>CAA	p.R862Q		NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	862							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				TAGAGTGGTTCGAATGGCCTT	0.552											OREG0014299	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	32					0	0	1	0	0		T	226825420	T	T	226825420	3	4	89	1	0	0	0	0	1	0	0	0	7934	884	31	1	263	1	ITPKB	1	226825420	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	404280	226825420	22425201	707	54538											
CDC42BPA	8476	broad.mit.edu	37	chr1	227219208	227219208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagatgctgagagctgggaaGctgtgacctagaacaattta	13	10	12	6	0	0	4	0	2	0	3	0	6	0	5	1	1	4	3	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:227219208G>A	uc001hqr.2	-	27	4404	c.3461C>T	c.(3460-3462)GCT>GTT	p.A1154V	CDC42BPA_uc001hqq.2_Missense_Mutation_p.A453V|CDC42BPA_uc001hqs.2_Missense_Mutation_p.A1073V|CDC42BPA_uc009xes.2_Missense_Mutation_p.A1126V|CDC42BPA_uc010pvs.1_Missense_Mutation_p.A1134V|CDC42BPA_uc001hqp.2_Missense_Mutation_p.A310V|CDC42BPA_uc001hqt.2_Missense_Mutation_p.A32V|CDC42BPA_uc001hqu.1_Missense_Mutation_p.A361V	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	1167	PH.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				GAGCTGGGAAGCTGTGACCTA	0.383													37	119					0	0	1	0	0		A	227219208	A	A	227219208	3	1	89	1	0	0	0	0	1	0	0	0	3075	971	34	2	1738	2	CDC42BPA	1	227219208	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	393788	227219208	22031413	708	54539											
CDC42BPA	8476	broad.mit.edu	37	chr1	227333279	227333279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataaggtgcttcacagttccGaatattatcccaatcaattc	13	13	5	10	1	2	0	2	0	0	0	5	1	4	0	2	1	1	2	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:227333279G>A	uc001hqr.2	-	8	1997	c.1054C>T	c.(1054-1056)CGG>TGG	p.R352W	CDC42BPA_uc001hqs.2_Missense_Mutation_p.R352W|CDC42BPA_uc009xes.2_Missense_Mutation_p.R352W|CDC42BPA_uc010pvs.1_Missense_Mutation_p.R352W	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	352	AGC-kinase C-terminal.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TCACAGTTCCGAATATTATCC	0.353													42	149					0	0	1	0	0		A	227333279	A	A	227333279	3	1	89	1	0	0	0	0	1	0	0	0	3075	1057	37	1	4221	1	CDC42BPA	1	227333279	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	114071	227333279	21917342	709	54540											
CDC42BPA	8476	broad.mit.edu	37	chr1	227400862	227400862	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttttcagcatttcccatTtattcaatattttcatggca	9	19	3	10	0	4	0	3	0	1	0	5	0	5	0	1	1	1	2	1	1	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:227400862T>G	uc001hqr.2	-	3	1272	c.329A>C	c.(328-330)AAA>ACA	p.K110T	CDC42BPA_uc001hqs.2_Missense_Mutation_p.K110T|CDC42BPA_uc009xes.2_Missense_Mutation_p.K110T|CDC42BPA_uc010pvs.1_Missense_Mutation_p.K110T	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	110	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				CATTTCCCATTTATTCAATAT	0.239													17	71					0	0	1	0	0		G	227400862	G	G	227400862	3	3	89	1	0	0	0	0	1	0	0	0	3075	1841	64	5	4966	5	CDC42BPA	1	227400862	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	67583	227400862	21849759	710	54541											
ZNF678	339500	broad.mit.edu	37	chr1	227842301	227842301	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccttactgaacataagaGaattcatactggagagaagc	17	9	8	7	0	1	3	1	1	0	2	2	6	2	4	1	1	4	0	1	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:227842301G>T	uc001hqw.1	+	4	695	c.350G>T	c.(349-351)AGA>ATA	p.R117I	ZNF678_uc009xet.1_Intron|ZNF678_uc009xeu.1_Intron	NM_178549	NP_848644	F5GXA7	F5GXA7_HUMAN	zinc finger protein 678	172					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			pancreas(1)	1		Prostate(94;0.0885)				GAACATAAGAGAATTCATACT	0.333													28	88					7.38237e-10	7.96475e-10	1	1	0		T	227842301	T	T	227842301	3	4	89	1	0	0	0	0	1	0	0	0	18110	942	33	5	529	5	ZNF678	1	227842301	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	441439	227842301	21408320	711	54542											
ZNF678	339500	broad.mit.edu	37	chr1	227843225	227843225	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctaactagccataagaGaattcatactggagagaaac	17	8	7	9	0	2	2	2	0	0	2	2	5	2	3	2	1	4	0	2	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:227843225G>T	uc001hqw.1	+	4	1619	c.1274G>T	c.(1273-1275)AGA>ATA	p.R425I	ZNF678_uc009xet.1_Intron|ZNF678_uc009xeu.1_Intron	NM_178549	NP_848644	F5GXA7	F5GXA7_HUMAN	zinc finger protein 678	480					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			pancreas(1)	1		Prostate(94;0.0885)				AGCCATAAGAGAATTCATACT	0.368													14	56					6.72482e-11	7.33162e-11	1	1	0		T	227843225	T	T	227843225	3	4	89	1	0	0	0	0	1	0	0	0	18110	942	33	5	1453	5	ZNF678	1	227843225	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	924	227843225	21407396	712	54543											
ZNF678	339500	broad.mit.edu	37	chr1	227843477	227843477	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccatagtaagtataagaGaatttatactggagaggaac	18	10	9	4	0	0	2	0	0	0	2	1	5	1	3	1	2	2	2	1	2	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:227843477G>T	uc001hqw.1	+	4	1871	c.1526G>T	c.(1525-1527)AGA>ATA	p.R509I	ZNF678_uc009xet.1_Intron|ZNF678_uc009xeu.1_Intron	NM_178549	NP_848644	F5GXA7	F5GXA7_HUMAN	zinc finger protein 678	564					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			pancreas(1)	1		Prostate(94;0.0885)				AAGTATAAGAGAATTTATACT	0.323													39	54					2.45108e-15	2.78995e-15	1	1	0		T	227843477	T	T	227843477	3	4	89	1	0	0	0	0	1	0	0	0	18110	942	33	5	1705	5	ZNF678	1	227843477	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	252	227843477	21407144	713	54544											
WNT3A	89780	broad.mit.edu	37	chr1	228238550	228238550	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggatggtgtctcgggagttCgccgacgcccgggagaaccg	6	6	18	11	6	1	1	0	0	1	1	3	5	1	3	3	4	1	1	3	4	1	1	rs141170201		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:228238550C>T	uc001hrq.1	+	3	585	c.507C>T	c.(505-507)TTC>TTT	p.F169F	WNT3A_uc001hrp.1_Silent_p.F169F	NM_033131	NP_149122	P56704	WNT3A_HUMAN	wingless-type MMTV integration site family,	169					axis specification|cell proliferation in forebrain|cell-cell signaling|cellular response to retinoic acid|convergent extension|dermatome development|dorsal/ventral neural tube patterning|embryonic pattern specification|extracellular matrix organization|hemopoietic stem cell proliferation|hippocampus development|inner ear morphogenesis|mammary gland development|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of neuron projection development|notochord development|palate development|paraxial mesodermal cell fate commitment|positive regulation of catenin import into nucleus|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of receptor internalization|positive regulation of transcription from RNA polymerase II promoter|signalosome assembly|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuroblast division|Wnt receptor signaling pathway, calcium modulating pathway	cell surface|early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled-2 binding|receptor agonist activity|signal transducer activity|transcription coactivator activity			ovary(1)	1		Prostate(94;0.0405)				CTCGGGAGTTCGCCGACGCCC	0.672													15	45					0	0	1	0	0		T	228238550	T	T	228238550	2	4	89	1	0	0	0	0	0	0	0	1	17415	883	31	1		1	WNT3A	1	228238550	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	395073	228238550	21012071	714	54545											
WNT3A	89780	broad.mit.edu	37	chr1	228238597	228238597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccgctcagccatgaaccGccacaacaacgaggctgggc	10	4	11	16	3	1	1	1	1	0	0	1	2	1	1	4	2	5	2	4	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:228238597G>A	uc001hrq.1	+	3	632	c.554G>A	c.(553-555)CGC>CAC	p.R185H	WNT3A_uc001hrp.1_Missense_Mutation_p.R185H	NM_033131	NP_149122	P56704	WNT3A_HUMAN	wingless-type MMTV integration site family,	185					axis specification|cell proliferation in forebrain|cell-cell signaling|cellular response to retinoic acid|convergent extension|dermatome development|dorsal/ventral neural tube patterning|embryonic pattern specification|extracellular matrix organization|hemopoietic stem cell proliferation|hippocampus development|inner ear morphogenesis|mammary gland development|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of neuron projection development|notochord development|palate development|paraxial mesodermal cell fate commitment|positive regulation of catenin import into nucleus|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of receptor internalization|positive regulation of transcription from RNA polymerase II promoter|signalosome assembly|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuroblast division|Wnt receptor signaling pathway, calcium modulating pathway	cell surface|early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled-2 binding|receptor agonist activity|signal transducer activity|transcription coactivator activity			ovary(1)	1		Prostate(94;0.0405)				GCCATGAACCGCCACAACAAC	0.652													17	17					0	0	1	0	0		A	228238597	A	A	228238597	3	1	89	1	0	0	0	0	1	0	0	0	17415	1087	38	1	564	1	WNT3A	1	228238597	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	47	228238597	21012024	715	54546											
OBSCN	84033	broad.mit.edu	37	chr1	228402664	228402664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacctggatcaggtgccacGaggctgaatgggtggctaca	10	7	14	10	1	1	1	1	1	0	0	1	3	1	2	2	5	2	2	2	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:228402664G>A	uc009xez.1	+	5	1737	c.1693G>A	c.(1693-1695)GAG>AAG	p.E565K	OBSCN_uc001hsn.2_Missense_Mutation_p.E565K|uc001hsm.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	565	Fibronectin type-III 1.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CAGGTGCCACGAGGCTGAATG	0.597													11	29					0	0	1	0	0		A	228402664	A	A	228402664	3	1	89	1	0	0	0	0	1	0	0	0	10831	1059	37	1	1707	1	OBSCN	1	228402664	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	164067	228402664	20847957	716	54547											
OBSCN	84033	broad.mit.edu	37	chr1	228434331	228434331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtggcccaggcccagaCagaggtgacgtggtacaagg	10	5	17	9	1	0	4	0	2	0	2	0	4	0	4	2	6	1	1	2	6	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:228434331C>T	uc009xez.1	+	13	3904	c.3860C>T	c.(3859-3861)ACA>ATA	p.T1287I	OBSCN_uc001hsn.2_Missense_Mutation_p.T1287I	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1287	Ig-like 13.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CAGGCCCAGACAGAGGTGACG	0.612													69	69					0	0	1	0	0		T	228434331	T	T	228434331	3	4	89	1	0	0	0	0	1	0	0	0	10831	478	17	4	3906	4	OBSCN	1	228434331	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	31667	228434331	20816290	717	54548											
OBSCN	84033	broad.mit.edu	37	chr1	228451947	228451947	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtggtacaaggacgggaaGaaactgagctccagctcgaa	14	5	13	9	3	0	2	0	1	0	1	2	5	1	4	1	3	4	3	1	3	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:228451947G>T	uc009xez.1	+	16	4760	c.4716G>T	c.(4714-4716)AAG>AAT	p.K1572N	OBSCN_uc001hsn.2_Missense_Mutation_p.K1572N	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1572	Ig-like 16.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGGACGGGAAGAAACTGAGCT	0.672													58	48					8.4772e-36	1.04649e-35	1	1	0		T	228451947	T	T	228451947	3	4	89	1	0	0	0	0	1	0	0	0	10831	933	33	5	4774	5	OBSCN	1	228451947	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17616	228451947	20798674	718	54549											
OBSCN	84033	broad.mit.edu	37	chr1	228511096	228511096	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcctgtgagctttgactgCgtggtgacaggtcagcccat	7	12	12	10	1	1	3	1	3	0	0	2	3	2	3	2	2	3	1	2	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:228511096C>T	uc009xez.1	+	56	15485	c.15441C>T	c.(15439-15441)TGC>TGT	p.C5147C	OBSCN_uc001hsn.2_Silent_p.C5147C	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5147	Ig-like 49.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCTTTGACTGCGTGGTGACAG	0.532													3	18					0	0	1	0	0		T	228511096	T	T	228511096	2	4	89	1	0	0	0	0	0	0	0	1	10831	776	27	1		1	OBSCN	1	228511096	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	59149	228511096	20739525	719	54550											
OBSCN	84033	broad.mit.edu	37	chr1	228527683	228527683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcagtgcgacacggacgacGacgtggccatgtgcttcatc	9	7	13	12	5	1	0	1	0	0	0	2	4	1	1	1	2	3	2	1	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:228527683G>A	uc009xez.1	+	70	17340	c.17296G>A	c.(17296-17298)GAC>AAC	p.D5766N	OBSCN_uc001hsn.2_Missense_Mutation_p.D5766N|OBSCN_uc001hsr.1_Missense_Mutation_p.D395N	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5766	DH.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CACGGACGACGACGTGGCCAT	0.637													53	55					0	0	1	0	0		A	228527683	A	A	228527683	3	1	89	1	0	0	0	0	1	0	0	0	10831	1058	37	1	17570	1	OBSCN	1	228527683	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16587	228527683	20722938	720	54551											
NUP133	55746	broad.mit.edu	37	chr1	229580703	229580703	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttcacaaatatactgtCtttagatacttcaattggat	13	16	5	7	0	4	1	2	0	2	1	4	3	4	2	0	1	2	0	0	1	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:229580703C>A	uc001htn.2	-	25	3384	c.3292G>T	c.(3292-3294)GAC>TAC	p.D1098Y		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	1098					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				AATATACTGTCTTTAGATACT	0.318													81	95					6.14238e-36	7.58607e-36	1	1	0		A	229580703	A	A	229580703	3	1	89	1	0	0	0	0	1	0	0	0	10773	913	32	5	186	5	NUP133	1	229580703	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1053020	229580703	19669918	721	54552											
ABCB10	23456	broad.mit.edu	37	chr1	229653939	229653939	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttccttatgctgaaataAaactttgtttgttcattagt	10	19	6	6	0	1	1	1	1	0	0	2	1	2	1	1	0	3	4	1	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:229653939A>C	uc001htp.3	-	13	2247	c.2204T>G	c.(2203-2205)TTT>TGT	p.F735C		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	735	Mitochondrial intermembrane (Potential).|Mitochondrial matrix (Potential).					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				TGCTGAAATAAAACTTTGTTT	0.318													52	59					0	0	1	0	0		C	229653939	C	C	229653939	3	2	89	1	0	0	0	0	1	0	0	0	41	14	1	5	16	5	ABCB10	1	229653939	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	73236	229653939	19596682	722	54553											
ABCB10	23456	broad.mit.edu	37	chr1	229675310	229675310	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctttgtacaggacagaaAgcacgatcaggtttccggag	11	9	11	10	2	1	1	1	0	0	1	3	4	3	3	2	3	2	3	2	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:229675310A>C	uc001htp.3	-	6	1275	c.1232T>G	c.(1231-1233)CTT>CGT	p.L411R		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	411	Mitochondrial intermembrane (Potential).|Helical; (Potential).|ABC transmembrane type-1.					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				CAGGACAGAAAGCACGATCAG	0.507													69	70					0	0	1	0	0		C	229675310	C	C	229675310	3	2	89	1	0	0	0	0	1	0	0	0	41	72	3	5	1016	5	ABCB10	1	229675310	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	21371	229675310	19575311	723	54554											
ABCB10	23456	broad.mit.edu	37	chr1	229683424	229683424	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggagaataatgaagttCtcagcctattcacaatgcgc	13	10	10	8	1	2	2	2	1	1	1	3	4	2	3	1	2	2	1	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:229683424C>A	uc001htp.3	-	3	786	c.743G>T	c.(742-744)AGA>ATA	p.R248I		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	248	Mitochondrial intermembrane (Potential).|Mitochondrial intermembrane (Potential).|ABC transmembrane type-1.					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				TAATGAAGTTCTCAGCCTATT	0.478													15	72					3.45872e-05	3.55908e-05	1	1	0		A	229683424	A	A	229683424	3	1	89	1	0	0	0	0	1	0	0	0	41	913	32	5	1517	5	ABCB10	1	229683424	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8114	229683424	19567197	724	54555											
PGBD5	79605	broad.mit.edu	37	chr1	230468774	230468774	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccgcgcgcggagcaagccGcagcagtaaatccctgaggg	9	5	14	13	5	0	1	0	1	0	0	2	2	2	2	3	2	3	4	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:230468774G>A	uc010pwb.1	-	5	882	c.882C>T	c.(880-882)TGC>TGT	p.C294C	PGBD5_uc001htv.2_Silent_p.C393C	NM_024554	NP_078830	Q8N414	PGBD5_HUMAN	piggyBac transposable element derived 5	294						integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(184;0.0397)	Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;0.201)		GGAGCAAGCCGCAGCAGTAAA	0.657													7	9					0	0	1	0	0		A	230468774	A	A	230468774	2	1	89	1	0	0	0	0	0	0	0	1	11803	1079	38	1		1	PGBD5	1	230468774	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	785350	230468774	18781847	725	54556											
COG2	22796	broad.mit.edu	37	chr1	230795218	230795218	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttatttttcaggaagatttCgatgtcgatcattttgtgtc	8	20	8	5	2	2	1	2	0	0	1	5	4	2	2	0	1	0	0	0	1	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:230795218C>T	uc001htw.2	+	2	232	c.81C>T	c.(79-81)TTC>TTT	p.F27F	COG2_uc001htx.2_Silent_p.F27F|COG2_uc010pwc.1_5'UTR	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	27					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				AGGAAGATTTCGATGTCGATC	0.378													60	45					0	0	1	0	0		T	230795218	T	T	230795218	2	4	89	1	0	0	0	0	0	0	0	1	3661	883	31	1		1	COG2	1	230795218	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	326444	230795218	18455403	726	54557											
COG2	22796	broad.mit.edu	37	chr1	230805215	230805215	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcttgcggacttacgccacGattgacaagacacgggacgc	10	7	12	12	5	0	2	0	1	0	1	0	5	0	4	1	2	3	1	1	2	2	3	rs34010781	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:230805215G>A	uc001htw.2	+	7	859	c.708G>A	c.(706-708)ACG>ACA	p.T236T	COG2_uc001htx.2_Silent_p.T236T|COG2_uc010pwc.1_Silent_p.T109T	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	236					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				CTTACGCCACGATTGACAAGA	0.448													47	47					0	0	1	0	0		A	230805215	A	A	230805215	2	1	89	1	0	0	0	0	0	0	0	1	3661	1045	37	1		1	COG2	1	230805215	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9997	230805215	18445406	727	54558											
TTC13	79573	broad.mit.edu	37	chr1	231079614	231079614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtaattactcggctcagttCgaacagagcaagctcagcat	12	9	10	10	2	2	1	2	0	0	1	4	2	2	1	0	2	5	6	0	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:231079614C>T	uc001huf.3	-	6	641	c.610G>A	c.(610-612)GAA>AAA	p.E204K	TTC13_uc009xfi.2_Intron|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Intron|TTC13_uc009xfk.1_Intron	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	204							binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		CGGCTCAGTTCGAACAGAGCA	0.418													42	123					0	0	1	0	0		T	231079614	T	T	231079614	3	4	89	1	0	0	0	0	1	0	0	0	16706	893	31	1	2044	1	TTC13	1	231079614	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	274399	231079614	18171007	728	54559											
TRIM67	440730	broad.mit.edu	37	chr1	231349577	231349577	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggacggaaggtggcgtgTgcaagggggccaccgtgggc	7	4	20	10	3	0	0	0	0	0	0	0	2	0	2	3	7	1	1	3	7	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:231349577T>C	uc009xfn.1	+	9	2182	c.2140T>C	c.(2140-2142)TGC>CGC	p.C714R		NM_001004342	NP_001004342	Q6ZTA4	TRI67_HUMAN	tripartite motif-containing 67	714	B30.2/SPRY.					cytoplasm|cytoskeleton	zinc ion binding			ovary(2)|breast(1)|kidney(1)	4	Breast(184;0.0871)	all_cancers(173;0.189)|Prostate(94;0.167)				AGGTGGCGTGTGCAAGGGGGC	0.557													96	78					0	0	1	0	0		C	231349577	C	C	231349577	3	2	89	1	0	0	0	0	1	0	0	0	16566	1696	59	3	2174	3	TRIM67	1	231349577	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	269963	231349577	17901044	729	54560											
C1orf131	128061	broad.mit.edu	37	chr1	231374789	231374789	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaagttccttgaagaagctCgaagcgctcttcctctggcc	8	11	9	13	2	2	2	0	1	2	1	5	3	4	2	3	1	2	3	3	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:231374789C>T	uc001hun.1	-	2	301	c.264G>A	c.(262-264)TCG>TCA	p.S88S	C1orf131_uc001hul.2_Silent_p.S88S|C1orf131_uc001hum.2_Silent_p.S88S|C1orf131_uc010pwd.1_Silent_p.S88S|C1orf131_uc001huo.1_Silent_p.S88S|GNPAT_uc009xfo.1_5'Flank|GNPAT_uc001hup.3_5'Flank|GNPAT_uc009xfp.2_5'Flank	NM_152379	NP_689592	Q8NDD1	CA131_HUMAN	hypothetical protein LOC128061	88										central_nervous_system(1)|skin(1)	2	Breast(184;0.0871)	all_cancers(173;0.2)|Prostate(94;0.183)				TGAAGAAGCTCGAAGCGCTCT	0.547													26	74					0	0	1	0	0		T	231374789	T	T	231374789	2	4	89	1	0	0	0	0	0	0	0	1	2001	871	31	1		1	C1orf131	1	231374789	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	25212	231374789	17875832	730	54561											
EXOC8	149371	broad.mit.edu	37	chr1	231471824	231471824	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatgatttctttgtaactGtgcaaggccccttggatgtc	8	15	10	8	0	1	2	0	2	1	0	2	3	1	3	2	2	2	2	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:231471824G>A	uc001huq.2	-	1	1755	c.1668C>T	c.(1666-1668)CAC>CAT	p.H556H		NM_175876	NP_787072	Q8IYI6	EXOC8_HUMAN	exocyst complex 84-kDa subunit	556					exocytosis|protein transport	growth cone|nucleus	protein binding			skin(1)	1	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				CTTTGTAACTGTGCAAGGCCC	0.488													73	65					0	0	1	0	0		A	231471824	A	A	231471824	2	1	89	1	0	0	0	0	0	0	0	1	5319	1368	48	4		4	EXOC8	1	231471824	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	97035	231471824	17778797	731	54562											
SIPA1L2	57568	broad.mit.edu	37	chr1	232538143	232538143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttccaattgattaccttccGaaggtcggtctggagttgtc	7	14	10	10	2	1	1	0	1	1	0	5	3	3	2	3	3	1	1	3	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:232538143G>A	uc001hvg.2	-	20	5175	c.5017C>T	c.(5017-5019)CGG>TGG	p.R1673W	SIPA1L2_uc001hvf.2_Missense_Mutation_p.R729W	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1673	Potential.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				ATTACCTTCCGAAGGTCGGTC	0.393													26	29					0	0	1	0	0		A	232538143	A	A	232538143	3	1	89	1	0	0	0	0	1	0	0	0	14355	1057	37	1	159	1	SIPA1L2	1	232538143	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1066319	232538143	16712478	732	54563											
SIPA1L2	57568	broad.mit.edu	37	chr1	232596771	232596771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgaggcggctcccttggCgaaggccagccttccaggca	7	5	13	16	3	0	0	0	0	0	0	2	2	2	0	5	5	1	2	5	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:232596771C>T	uc001hvg.2	-	8	3115	c.2957G>A	c.(2956-2958)CGC>CAC	p.R986H	SIPA1L2_uc001hvf.2_Missense_Mutation_p.R60H	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	986	PDZ.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GCTCCCTTGGCGAAGGCCAGC	0.567													41	139					0	0	1	0	0		T	232596771	T	T	232596771	3	4	89	1	0	0	0	0	1	0	0	0	14355	768	27	1	2267	1	SIPA1L2	1	232596771	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	58628	232596771	16653850	733	54564											
SIPA1L2	57568	broad.mit.edu	37	chr1	232615380	232615380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggggaggacatacctgttgtCtgttgttgggcatgtaggga	7	12	17	5	0	1	0	0	0	1	0	1	3	1	3	1	5	1	5	1	5	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:232615380C>T	uc001hvg.2	-	5	2236	c.2078G>A	c.(2077-2079)AGA>AAA	p.R693K		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	693	Rap-GAP.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				TACCTGTTGTCTGTTGTTGGG	0.483													15	89					0	0	1	0	0		T	232615380	T	T	232615380	3	4	89	1	0	0	0	0	1	0	0	0	14355	913	32	4	3158	4	SIPA1L2	1	232615380	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	18609	232615380	16635241	734	54565											
SIPA1L2	57568	broad.mit.edu	37	chr1	232649902	232649902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttttcccatcaccctcatcgGcatccaggttctctttggag	6	14	7	14	1	3	0	2	0	1	0	7	1	5	1	3	3	0	2	3	3	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:232649902G>A	uc001hvg.2	-	1	1342	c.1184C>T	c.(1183-1185)GCC>GTC	p.A395V		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	395					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				ACCCTCATCGGCATCCAGGTT	0.542													131	131					0	0	1	0	0		A	232649902	A	A	232649902	3	1	89	1	0	0	0	0	1	0	0	0	14355	1203	42	2	4068	2	SIPA1L2	1	232649902	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	34522	232649902	16600719	735	54566											
KIAA1804	84451	broad.mit.edu	37	chr1	233482190	233482190	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttgatttttctttagttTtgctacttgagaagatagaa	10	20	7	4	0	1	4	0	2	1	3	1	5	1	4	0	0	2	2	0	0	5	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:233482190T>G	uc001hvt.3	+	2	1069	c.808T>G	c.(808-810)TTG>GTG	p.L270V	KIAA1804_uc001hvs.1_Missense_Mutation_p.L270V	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	270	Protein kinase.				activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				TTCTTTAGTTTTGCTACTTGA	0.353													25	61					0	0	1	0	0		G	233482190	G	G	233482190	3	3	89	1	0	0	0	0	1	0	0	0	8275	1838	64	5	814	5	KIAA1804	1	233482190	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	832288	233482190	15768431	736	54567											
KIAA1804	84451	broad.mit.edu	37	chr1	233490640	233490640	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttaattctcgaacagttGactgctattgaaggggcagt	10	12	11	8	1	1	2	0	2	1	0	2	3	1	2	1	2	2	3	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:233490640G>T	uc001hvt.3	+	4	1455	c.1194G>T	c.(1192-1194)TTG>TTT	p.L398F	KIAA1804_uc001hvs.1_Missense_Mutation_p.L398F	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	398	Protein kinase.				activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				TCGAACAGTTGACTGCTATTG	0.383													83	77					5.52753e-52	6.88169e-52	1	1	0		T	233490640	T	T	233490640	3	4	89	1	0	0	0	0	1	0	0	0	8275	1281	45	5	1208	5	KIAA1804	1	233490640	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8450	233490640	15759981	737	54568											
C1orf31	388753	broad.mit.edu	37	chr1	234509574	234509574	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccccacacacctgtttCtacagcgcttaggttcgaac	8	10	8	15	2	1	0	0	0	1	0	2	1	1	0	3	2	3	3	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:234509574C>A	uc001hwc.2	+	1	146	c.110C>A	c.(109-111)TCT>TAT	p.S37Y	C1orf31_uc001hwb.2_Intron	NM_001012985	NP_001013003	Q5JTJ3	CA031_HUMAN	hypothetical protein LOC388753	37						mitochondrion	cytochrome-c oxidase activity				0	Ovarian(103;0.0339)	all_cancers(173;0.241)|Prostate(94;0.0353)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			ACACCTGTTTCTACAGCGCTT	0.353													15	57					0.00074312	0.000755197	1	1	0		A	234509574	A	A	234509574	3	1	89	1	0	0	0	0	1	0	0	0	2040	913	32	5	112	5	C1orf31	1	234509574	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1018934	234509574	14741047	738	54569											
ARID4B	51742	broad.mit.edu	37	chr1	235377167	235377167	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaatactagcttcatacatTttttgatttttccctcgtcc	8	20	3	10	1	1	1	1	1	0	0	4	1	3	1	2	0	3	1	2	0	4	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:235377167T>G	uc001hwq.2	-	17	2256	c.1758A>C	c.(1756-1758)AAA>AAC	p.K586N	ARID4B_uc001hwr.2_Intron|ARID4B_uc001hws.3_Intron|ARID4B_uc001hwt.3_Missense_Mutation_p.K267N	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	586					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			CTTCATACATTTTTTGATTTT	0.393													131	100					0	0	1	0	0		G	235377167	G	G	235377167	3	3	89	1	0	0	0	0	1	0	0	0	920	1838	64	5	2212	5	ARID4B	1	235377167	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	867593	235377167	13873454	739	54570											
ARID4B	51742	broad.mit.edu	37	chr1	235383751	235383751	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctccttaacttttatttCttttacattttcacactcct	7	22	0	12	0	2	0	1	0	1	0	5	0	5	0	3	0	2	0	3	0	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:235383751C>A	uc001hwq.2	-	15	1771	c.1273G>T	c.(1273-1275)GAA>TAA	p.E425*	ARID4B_uc001hwr.2_Nonsense_Mutation_p.E425*|ARID4B_uc001hws.3_Nonsense_Mutation_p.E425*|ARID4B_uc001hwt.3_Nonsense_Mutation_p.E106*	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	425	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			ACTTTTATTTCTTTTACATTT	0.353													17	65					4.75885e-15	5.40475e-15	1	1	0		A	235383751	A	A	235383751	4	1	89	1	0	0	0	0	0	1	0	0	920	922	32	5	2705	5	ARID4B	1	235383751	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6584	235383751	13866870	740	54571											
LYST	1130	broad.mit.edu	37	chr1	235887376	235887376	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctgccatttgttagaaaGatttctacagcattatctct	10	17	6	8	0	3	2	0	0	3	2	4	2	3	2	1	0	3	3	1	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:235887376G>T	uc001hxj.2	-	39	9442	c.9267C>A	c.(9265-9267)ATC>ATA	p.I3089I	LYST_uc001hxi.2_Silent_p.I313I	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3089					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TTGTTAGAAAGATTTCTACAG	0.378									Chediak-Higashi_syndrome				23	94					1.1804e-14	1.33524e-14	1	1	0		T	235887376	T	T	235887376	2	4	89	1	0	0	0	0	0	0	0	1	9146	932	33	5		5	LYST	1	235887376	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	503625	235887376	13363245	741	54572											
LYST	1130	broad.mit.edu	37	chr1	235897198	235897198	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcttcagtttcatatttCttttgttcctagaagattta	8	21	4	8	0	4	2	2	0	2	2	5	2	5	2	2	0	0	2	2	0	4	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:235897198C>A	uc001hxj.2	-	33	8719	c.8544G>T	c.(8542-8544)AAG>AAT	p.K2848N	LYST_uc001hxi.2_Missense_Mutation_p.K72N	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2848					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TTTCATATTTCTTTTGTTCCT	0.284									Chediak-Higashi_syndrome				25	90					2.50493e-22	2.98478e-22	1	1	0		A	235897198	A	A	235897198	3	1	89	1	0	0	0	0	1	0	0	0	9146	912	32	5	2945	5	LYST	1	235897198	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9822	235897198	13353423	742	54573											
LYST	1130	broad.mit.edu	37	chr1	235944236	235944236	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttcacatcgcaaaatttCtttattaatatatttggagt	12	19	5	5	1	2	0	1	0	1	0	3	1	2	1	0	1	0	2	0	1	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:235944236C>A	uc001hxj.2	-	16	5318	c.5143G>T	c.(5143-5145)GAA>TAA	p.E1715*	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	1715					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			CGCAAAATTTCTTTATTAATA	0.313									Chediak-Higashi_syndrome				30	32					2.46105e-21	2.91722e-21	1	1	0		A	235944236	A	A	235944236	4	1	89	1	0	0	0	0	0	1	0	0	9146	922	32	5	6414	5	LYST	1	235944236	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	47038	235944236	13306385	743	54574											
LYST	1130	broad.mit.edu	37	chr1	235972028	235972028	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcaaaaacaaagttcTgataagcctttaaagcatcc	15	12	4	10	0	3	1	1	1	2	0	4	1	4	1	2	0	3	2	2	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:235972028T>G	uc001hxj.2	-	5	2265	c.2090A>C	c.(2089-2091)CAG>CCG	p.Q697P	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Missense_Mutation_p.Q697P	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	697	WD 1.				defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			AACAAAGTTCTGATAAGCCTT	0.363									Chediak-Higashi_syndrome				12	55					0	0	1	0	0		G	235972028	G	G	235972028	3	3	89	1	0	0	0	0	1	0	0	0	9146	1580	55	5	9511	5	LYST	1	235972028	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	27792	235972028	13278593	744	54575											
LYST	1130	broad.mit.edu	37	chr1	235972915	235972915	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actccttccaaaagctcaggTaaaagaagggctctatgacg	14	8	9	10	1	2	2	1	1	1	1	4	2	4	2	2	2	1	3	2	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:235972915T>C	uc001hxj.2	-	5	1378	c.1203A>G	c.(1201-1203)TTA>TTG	p.L401L	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Silent_p.L401L	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	401					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			AAAGCTCAGGTAAAAGAAGGG	0.418									Chediak-Higashi_syndrome				117	95					0	0	1	0	0		C	235972915	C	C	235972915	2	2	89	1	0	0	0	0	0	0	0	1	9146	1635	57	3		3	LYST	1	235972915	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	887	235972915	13277706	745	54576											
HEATR1	55127	broad.mit.edu	37	chr1	236746034	236746034	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaaaaggaggaggcttgtAcctttatgaaaagtttcatc	13	12	10	6	0	1	2	1	2	0	0	2	4	1	4	1	3	1	3	1	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:236746034A>C	uc001hyd.1	-	19	2687	c.2562_splice	c.e19+1	p.K854_splice	HEATR1_uc009xgh.1_Splice_Site_p.K97_splice	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28						rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			GGAGGCTTGTACCTTTATGAA	0.338													44	131					0	0	1	0	0		C	236746034	C	C	236746034	5	2	89	1	0	0	0	0	0	0	1	0	7043	405	14	5	3978	5	HEATR1	1	236746034	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	773119	236746034	12504587	746	54577											
HEATR1	55127	broad.mit.edu	37	chr1	236749198	236749198	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcttctgatttgctacaccGattagttttcctggctttgt	6	19	7	9	1	2	1	0	1	2	0	3	2	3	1	2	1	2	3	2	1	2	7	rs140333539		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:236749198G>A	uc001hyd.1	-	16	2096	c.1971C>T	c.(1969-1971)ATC>ATT	p.I657I	HEATR1_uc009xgh.1_5'Flank	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	657					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			TTGCTACACCGATTAGTTTTC	0.348													15	60					0	0	1	0	0		A	236749198	A	A	236749198	2	1	89	1	0	0	0	0	0	0	0	1	7043	1048	37	1		1	HEATR1	1	236749198	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3164	236749198	12501423	747	54578											
HEATR1	55127	broad.mit.edu	37	chr1	236754253	236754253	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtatcagaatctgctaaaAactacagggttcaacatagt	17	10	7	7	0	3	1	2	0	1	1	3	1	3	1	0	1	4	3	0	1	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:236754253A>C	uc001hyd.1	-	12	1549	c.1424T>G	c.(1423-1425)TTT>TGT	p.F475C		NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	475					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			ATCTGCTAAAAACTACAGGGT	0.368													24	30					0	0	1	0	0		C	236754253	C	C	236754253	3	2	89	1	0	0	0	0	1	0	0	0	7043	28	1	5	5146	5	HEATR1	1	236754253	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	5055	236754253	12496368	748	54579											
ACTN2	88	broad.mit.edu	37	chr1	236907933	236907933	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accacctttgcaggcaaagaGcagatcttgctgcagaagga	13	7	11	10	0	1	3	0	0	1	3	1	4	1	4	2	2	4	5	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:236907933G>T	uc001hyf.2	+	12	1467	c.1263G>T	c.(1261-1263)GAG>GAT	p.E421D	ACTN2_uc001hyg.2_Missense_Mutation_p.E213D|ACTN2_uc009xgi.1_Missense_Mutation_p.E421D|ACTN2_uc010pxu.1_Missense_Mutation_p.E110D|ACTN2_uc001hyh.2_Missense_Mutation_p.E109D	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	421	Spectrin 2.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			CAGGCAAAGAGCAGATCTTGC	0.577													13	40					7.93312e-07	8.28085e-07	1	1	0		T	236907933	T	T	236907933	3	4	89	1	0	0	0	0	1	0	0	0	205	962	34	5	1309	5	ACTN2	1	236907933	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	153680	236907933	12342688	749	54580											
ACTN2	88	broad.mit.edu	37	chr1	236908053	236908053	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggaccgcgtggagcagatCgcagccatcgcgcaggagct	9	4	15	13	5	0	1	0	0	0	1	2	4	0	4	2	3	3	4	2	3	0	0	rs34827377	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:236908053C>T	uc001hyf.2	+	12	1587	c.1383C>T	c.(1381-1383)ATC>ATT	p.I461I	ACTN2_uc001hyg.2_Silent_p.I253I|ACTN2_uc009xgi.1_Silent_p.I461I|ACTN2_uc010pxu.1_Silent_p.I150I|ACTN2_uc001hyh.2_Silent_p.I149I	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	461	Spectrin 2.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			TGGAGCAGATCGCAGCCATCG	0.652													36	35					0	0	1	0	0		T	236908053	T	T	236908053	2	4	89	1	0	0	0	0	0	0	0	1	205	874	31	1		1	ACTN2	1	236908053	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	120	236908053	12342568	750	54581											
MTR	4548	broad.mit.edu	37	chr1	236992548	236992548	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacctgccactgcttttgAaggacatatgttactgtctg	8	14	8	11	0	1	1	0	1	1	0	2	2	2	2	3	1	3	2	3	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:236992548A>C	uc001hyi.3	+	12	1478	c.1055A>C	c.(1054-1056)GAA>GCA	p.E352A	MTR_uc010pxw.1_5'UTR|MTR_uc010pxx.1_Missense_Mutation_p.E352A|MTR_uc010pxy.1_Missense_Mutation_p.E352A|MTR_uc009xgj.1_3'UTR	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	352					nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	ACTGCTTTTGAAGGACATATG	0.393													36	153					0	0	1	0	0		C	236992548	C	C	236992548	3	2	89	1	0	0	0	0	1	0	0	0	9976	246	9	5	1101	5	MTR	1	236992548	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	84495	236992548	12258073	751	54582											
RYR2	6262	broad.mit.edu	37	chr1	237617847	237617847	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagactacgagccctgaaGaatcggcaaaatctcttcca	15	7	7	12	2	1	3	0	1	1	2	4	4	2	3	2	1	3	1	2	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:237617847G>T	uc001hyl.1	+	15	1569	c.1449G>T	c.(1447-1449)AAG>AAT	p.K483N		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	483	Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GAGCCCTGAAGAATCGGCAAA	0.433													8	40					0.00448238	0.00453273	1	1	0		T	237617847	T	T	237617847	3	4	89	1	0	0	0	0	1	0	0	0	13794	933	33	5	1507	5	RYR2	1	237617847	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	625299	237617847	11632774	752	54583											
RYR2	6262	broad.mit.edu	37	chr1	237880516	237880516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggcagctgtttctgatcagGaaaggaagaaaatgaagcgc	15	7	13	6	1	2	3	1	2	1	1	2	5	2	5	0	3	2	3	0	3	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:237880516G>A	uc001hyl.1	+	72	10462	c.10342G>A	c.(10342-10344)GAA>AAA	p.E3448K	RYR2_uc010pxz.1_Missense_Mutation_p.E403K	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3448					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTCTGATCAGGAAAGGAAGAA	0.463													9	14					0	0	1	0	0		A	237880516	A	A	237880516	3	1	89	1	0	0	0	0	1	0	0	0	13794	1175	41	4	10628	4	RYR2	1	237880516	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	262669	237880516	11370105	753	54584											
RYR2	6262	broad.mit.edu	37	chr1	237935360	237935360	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcaataatacaactgtcaAcataattatctccactgtag	15	12	5	9	0	2	0	1	0	1	0	3	0	2	0	1	1	3	2	1	1	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:237935360A>G	uc001hyl.1	+	86	11726	c.11606A>G	c.(11605-11607)AAC>AGC	p.N3869S	RYR2_uc010pya.1_Missense_Mutation_p.N284S	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3869					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			ACAACTGTCAACATAATTATC	0.338													5	4					0	0	1	0	0		G	237935360	G	G	237935360	3	3	89	1	0	0	0	0	1	0	0	0	13794	43	2	3	11948	3	RYR2	1	237935360	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	54844	237935360	11315261	754	54585											
RYR2	6262	broad.mit.edu	37	chr1	237947276	237947276	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttcgtcaaacgcttccaCgaacctgcgaaggacatcgg	11	7	11	12	5	1	0	1	0	0	0	4	4	2	1	2	2	3	2	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:237947276C>T	uc001hyl.1	+	90	12384	c.12264C>T	c.(12262-12264)CAC>CAT	p.H4088H	RYR2_uc010pya.1_Silent_p.H503H	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4088					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AACGCTTCCACGAACCTGCGA	0.493													21	40					0	0	1	0	0		T	237947276	T	T	237947276	2	4	89	1	0	0	0	0	0	0	0	1	13794	535	19	1		1	RYR2	1	237947276	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11916	237947276	11303345	755	54586											
RYR2	6262	broad.mit.edu	37	chr1	237947421	237947421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccctttctgggccgcatcGaaatcatgggaagcgccaaa	11	7	11	12	3	2	0	1	0	1	0	3	2	2	1	3	2	2	1	3	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:237947421G>A	uc001hyl.1	+	90	12529	c.12409G>A	c.(12409-12411)GAA>AAA	p.E4137K	RYR2_uc010pya.1_Missense_Mutation_p.E552K	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4137					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GGGCCGCATCGAAATCATGGG	0.512													29	88					0	0	1	0	0		A	237947421	A	A	237947421	3	1	89	1	0	0	0	0	1	0	0	0	13794	1059	37	1	12767	1	RYR2	1	237947421	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	145	237947421	11303200	756	54587											
RYR2	6262	broad.mit.edu	37	chr1	237947567	237947567	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcggagagaaagagaaGatggaactctttgtgaactt	15	8	14	4	1	1	4	0	1	1	3	1	9	1	6	0	3	2	0	0	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:237947567G>T	uc001hyl.1	+	90	12675	c.12555G>T	c.(12553-12555)AAG>AAT	p.K4185N	RYR2_uc010pya.1_Missense_Mutation_p.K600N	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4185					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AGAAAGAGAAGATGGAACTCT	0.517													39	125					1.90571e-15	2.17219e-15	1	1	0		T	237947567	T	T	237947567	3	4	89	1	0	0	0	0	1	0	0	0	13794	933	33	5	12913	5	RYR2	1	237947567	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	146	237947567	11303054	757	54588											
CHRM3	1131	broad.mit.edu	37	chr1	240071148	240071148	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgacctacatcatcatgaatCgatgggccttagggaacttg	11	10	10	10	2	2	1	2	1	0	0	3	4	2	2	2	2	2	0	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:240071148C>T	uc001hyp.2	+	5	1176	c.397C>T	c.(397-399)CGA>TGA	p.R133*		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	133	Extracellular (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	CATCATGAATCGATGGGCCTT	0.478													32	78					0	0	1	0	0		T	240071148	T	T	240071148	4	4	89	1	0	0	0	0	0	1	0	0	3381	876	31	1	399	1	CHRM3	1	240071148	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2123581	240071148	9179473	758	54589											
FMN2	56776	broad.mit.edu	37	chr1	240370340	240370340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taggattttagaggcgaaatCgatacagacttcccccacgg	12	9	10	10	3	0	2	0	0	0	2	2	5	1	3	2	3	1	0	2	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:240370340C>T	uc010pyd.1	+	5	2453	c.2228C>T	c.(2227-2229)TCG>TTG	p.S743L	FMN2_uc010pye.1_Missense_Mutation_p.S747L	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	743					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GAGGCGAAATCGATACAGACT	0.572													11	48					0	0	1	0	0		T	240370340	T	T	240370340	3	4	89	1	0	0	0	0	1	0	0	0	5964	893	31	1	2246	1	FMN2	1	240370340	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	299192	240370340	8880281	759	54590											
FMN2	56776	broad.mit.edu	37	chr1	240492436	240492436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gccgatcttccaaagacaagGaaaatgccaagtctctggac	14	7	9	11	1	2	1	0	0	2	1	4	4	3	3	3	2	1	0	3	2	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:240492436G>A	uc010pyd.1	+	9	4501	c.4276G>A	c.(4276-4278)GAA>AAA	p.E1426K	FMN2_uc010pye.1_Missense_Mutation_p.E1430K|FMN2_uc010pyf.1_Missense_Mutation_p.E72K|FMN2_uc010pyg.1_Missense_Mutation_p.E22K	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1426	FH2.			EN -> TR (in Ref. 3; AAF72885).	actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CAAAGACAAGGAAAATGCCAA	0.438													27	94					0	0	1	0	0		A	240492436	A	A	240492436	3	1	89	1	0	0	0	0	1	0	0	0	5964	1175	41	4	4310	4	FMN2	1	240492436	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	122096	240492436	8758185	760	54591											
FMN2	56776	broad.mit.edu	37	chr1	240492457	240492457	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgccaagtctctggacAaacctgaacagtaagcatgt	16	8	8	9	0	1	1	0	1	1	0	2	2	1	2	2	1	4	2	2	1	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:240492457A>C	uc010pyd.1	+	9	4522	c.4297A>C	c.(4297-4299)AAA>CAA	p.K1433Q	FMN2_uc010pye.1_Missense_Mutation_p.K1437Q|FMN2_uc010pyf.1_Missense_Mutation_p.K79Q|FMN2_uc010pyg.1_Missense_Mutation_p.K29Q	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1433	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GTCTCTGGACAAACCTGAACA	0.448													39	87					0	0	1	0	0		C	240492457	C	C	240492457	3	2	89	1	0	0	0	0	1	0	0	0	5964	131	5	5	4331	5	FMN2	1	240492457	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	21	240492457	8758164	761	54592											
FMN2	56776	broad.mit.edu	37	chr1	240497233	240497233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattgtttcgtattatctccGaaattttgatgaggtaagac	11	17	8	5	2	1	3	0	2	1	1	3	4	1	3	1	1	0	3	1	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:240497233G>A	uc010pyd.1	+	12	4856	c.4631G>A	c.(4630-4632)CGA>CAA	p.R1544Q	FMN2_uc010pye.1_Missense_Mutation_p.R1548Q|FMN2_uc010pyf.1_Missense_Mutation_p.R190Q|FMN2_uc010pyg.1_Missense_Mutation_p.R140Q	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1544	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TATTATCTCCGAAATTTTGAT	0.279													5	32					0	0	1	0	0		A	240497233	A	A	240497233	3	1	89	1	0	0	0	0	1	0	0	0	5964	1058	37	1	4677	1	FMN2	1	240497233	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4776	240497233	8753388	762	54593											
WDR64	128025	broad.mit.edu	37	chr1	241946608	241946608	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttcctggcgtgctcattCtttggaaattattcaagtaa	9	16	8	8	1	3	0	2	0	1	0	4	1	4	1	1	2	1	3	1	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:241946608C>A	uc001hzf.1	+	12	1412	c.1259C>A	c.(1258-1260)TCT>TAT	p.S420Y	WDR64_uc001hzg.1_Missense_Mutation_p.S333Y	NM_144625	NP_653226	B1ANS9	WDR64_HUMAN	WD repeat domain 64	867	WD 12.									skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			CGTGCTCATTCTTTGGAAATT	0.383													13	70					0.00136819	0.00138733	1	1	0		A	241946608	A	A	241946608	3	1	89	1	0	0	0	0	1	0	0	0	17341	913	32	5	2686	5	WDR64	1	241946608	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1449375	241946608	7304013	763	54594											
WDR64	128025	broad.mit.edu	37	chr1	241951289	241951289	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaaagaagaaagcaagttCacagagaagcaaaaatatga	24	5	8	4	0	1	4	1	1	0	3	1	5	1	4	0	0	2	3	0	0	9	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:241951289C>A	uc001hzf.1	+	13	1626	c.1473C>A	c.(1471-1473)TTC>TTA	p.F491L	WDR64_uc001hzg.1_Missense_Mutation_p.F404L	NM_144625	NP_653226	B1ANS9	WDR64_HUMAN	WD repeat domain 64	938										skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			AAAGCAAGTTCACAGAGAAGC	0.348													53	52					6.14515e-18	7.15987e-18	1	1	0		A	241951289	A	A	241951289	3	1	89	1	0	0	0	0	1	0	0	0	17341	825	29	5	2904	5	WDR64	1	241951289	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4681	241951289	7299332	764	54595											
PLD5	200150	broad.mit.edu	37	chr1	242271009	242271009	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggctatttcagtgcaaatCgctttaagagatgaaataaa	15	13	8	5	1	1	2	1	1	0	1	2	3	1	2	0	1	1	3	0	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:242271009C>T	uc001hzn.1	-	8	1330	c.1203G>A	c.(1201-1203)GCG>GCA	p.A401A	PLD5_uc001hzl.3_Silent_p.A339A|PLD5_uc001hzm.3_Silent_p.A191A|PLD5_uc001hzo.1_Silent_p.A309A			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	401						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			CAGTGCAAATCGCTTTAAGAG	0.373													60	165					0	0	1	0	0		T	242271009	T	T	242271009	2	4	89	1	0	0	0	0	0	0	0	1	12068	871	31	1		1	PLD5	1	242271009	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	319720	242271009	6979612	765	54596											
PLD5	200150	broad.mit.edu	37	chr1	242271076	242271076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccagaagcttaaaaggagtCgaactctaacgcttcgtaaa	15	9	8	9	3	1	1	0	0	1	1	4	3	2	2	1	1	3	3	1	1	7	4	rs147447408		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:242271076C>T	uc001hzn.1	-	8	1263	c.1136G>A	c.(1135-1137)CGA>CAA	p.R379Q	PLD5_uc001hzl.3_Missense_Mutation_p.R317Q|PLD5_uc001hzm.3_Missense_Mutation_p.R169Q|PLD5_uc001hzo.1_Missense_Mutation_p.R287Q			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	379						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			TAAAAGGAGTCGAACTCTAAC	0.363													77	88					0	0	1	0	0		T	242271076	T	T	242271076	3	4	89	1	0	0	0	0	1	0	0	0	12068	884	31	1	486	1	PLD5	1	242271076	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	67	242271076	6979545	766	54597											
AKT3	10000	broad.mit.edu	37	chr1	243778458	243778458	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagttagagtgtgtgccacTtcatcctacaaaagaaaaaa	16	10	7	8	0	2	2	2	0	0	2	3	2	3	2	2	0	2	1	2	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:243778458T>C	uc001iab.1	-	6	648	c.567A>G	c.(565-567)GAA>GAG	p.E189E	AKT3_uc001hzz.1_Silent_p.E189E	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	189	Protein kinase.				signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)			TGTGTGCCACTTCATCCTACA	0.333													23	22					0	0	1	0	0		C	243778458	C	C	243778458	2	2	89	1	0	0	0	0	0	0	0	1	481	1606	56	3		3	AKT3	1	243778458	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1507382	243778458	5472163	767	54598											
ZNF238	10472	broad.mit.edu	37	chr1	244217801	244217801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcacctccgtgagggattCggcagatgttgactgtgtgc	6	12	14	9	2	1	3	1	2	0	1	3	4	2	4	2	2	1	2	2	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:244217801C>T	uc001iae.2	+	1	1220	c.698C>T	c.(697-699)TCG>TTG	p.S233L	ZNF238_uc001iad.3_Missense_Mutation_p.S242L|ZNF238_uc001iaf.1_Intron	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	233				KLNILPSKRDLAAEPGNMWMRLPSDSAGIPQAGGEAEPHAT AAGKTVASPCSSTESLSQRSVTSVRDSADVDCVLDLSVKSS LSGVENLNSSYFSSQ -> IEHPAQQKGLGGRAWEHVDAIA LRLSRHPPGWRRGRATRHSSWKNSSQPLQLNRVFVPE (in Ref. 1; AAA81368).	negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			GTGAGGGATTCGGCAGATGTT	0.532													46	143					0	0	1	0	0		T	244217801	T	T	244217801	3	4	89	1	0	0	0	0	1	0	0	0	17815	893	31	1	731	1	ZNF238	1	244217801	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	439343	244217801	5032820	768	54599											
C1orf100	200159	broad.mit.edu	37	chr1	244552296	244552296	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttcgctgaatcctcgaccGcttaattcactgccagagct	8	12	8	13	3	1	2	1	1	0	1	4	3	2	2	3	0	2	4	3	0	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:244552296G>A	uc001iah.2	+	5	482	c.369G>A	c.(367-369)CCG>CCA	p.P123P	C1orf100_uc001iai.2_Silent_p.P91P	NM_001012970	NP_001012988	Q5SVJ3	CA100_HUMAN	hypothetical protein LOC200159	123											0	all_cancers(71;3.94e-05)|all_epithelial(71;0.000138)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|all_lung(81;0.0736)|Ovarian(71;0.0761)|Lung NSC(105;0.103)		all cancers(7;8.19e-08)|GBM - Glioblastoma multiforme(7;2.05e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.000984)			ATCCTCGACCGCTTAATTCAC	0.353													43	126					0	0	1	0	0		A	244552296	A	A	244552296	2	1	89	1	0	0	0	0	0	0	0	1	1978	1074	38	1		1	C1orf100	1	244552296	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	334495	244552296	4698325	769	54600											
HNRNPU	3192	broad.mit.edu	37	chr1	245022042	245022042	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaacttacagcaaaacatgTaatcacatcattttcatcaa	17	13	2	9	0	4	0	4	0	0	0	4	0	4	0	0	0	4	2	0	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:245022042T>C	uc001iaz.1	-	6	1437	c.1219A>G	c.(1219-1221)ACA>GCA	p.T407A	HNRNPU_uc001iaw.1_5'Flank|HNRNPU_uc001iax.1_RNA|HNRNPU_uc001iay.1_Missense_Mutation_p.T131A|HNRNPU_uc001iba.1_Missense_Mutation_p.T388A|HNRNPU_uc001ibb.1_Missense_Mutation_p.T95A	NM_031844	NP_114032	Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U	407	B30.2/SPRY.				CRD-mediated mRNA stabilization	catalytic step 2 spliceosome|cell surface|CRD-mediated mRNA stability complex|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	ATP binding|DNA binding|protein binding|RNA binding				0	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			GCAAAACATGTAATCACATCA	0.308													27	22					0	0	1	0	0		C	245022042	C	C	245022042	3	2	89	1	0	0	0	0	1	0	0	0	7289	1638	57	3	1294	3	HNRNPU	1	245022042	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	469746	245022042	4228579	770	54601											
EFCAB2	84288	broad.mit.edu	37	chr1	245245415	245245415	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaacccactggatacattCgattcgaaaaatttcttccg	14	11	6	10	3	1	1	0	0	1	1	4	4	2	2	2	1	2	0	2	1	5	5	rs148124964		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:245245415C>T	uc001ibd.2	+	5	763	c.622C>T	c.(622-624)CGA>TGA	p.R208*	EFCAB2_uc001ibc.2_Nonsense_Mutation_p.R72*|EFCAB2_uc010pyo.1_Nonsense_Mutation_p.R82*|EFCAB2_uc010pyp.1_Nonsense_Mutation_p.R72*|EFCAB2_uc001ibe.2_RNA	NR_026586		Q5VUJ9	EFCB2_HUMAN	RecName: Full=EF-hand calcium-binding domain-containing protein 2;	208							calcium ion binding				0	all_cancers(71;2.93e-06)|all_epithelial(71;2.13e-05)|all_lung(81;0.0337)|Lung NSC(105;0.0472)|Ovarian(71;0.0584)|Breast(184;0.0716)|all_neural(11;0.0982)		OV - Ovarian serous cystadenocarcinoma(106;0.015)			TGGATACATTCGATTCGAAAA	0.259													29	122					0	0	1	0	0		T	245245415	T	T	245245415	4	4	89	1	0	0	0	0	0	1	0	0	4940	876	31	1	228	1	EFCAB2	1	245245415	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	223373	245245415	4005206	771	54602											
KIF26B	55083	broad.mit.edu	37	chr1	245849116	245849116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcagcgaggagcccagcaGctttcctttcgaagaactgc	9	7	12	13	3	0	1	0	0	0	1	2	4	1	2	2	2	6	3	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:245849116G>A	uc001ibf.1	+	12	3271	c.2831G>A	c.(2830-2832)AGC>AAC	p.S944N	KIF26B_uc001ibg.1_Missense_Mutation_p.S562N|KIF26B_uc001ibh.1_Missense_Mutation_p.S186N	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	944					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			GAGCCCAGCAGCTTTCCTTTC	0.617													9	29					0	0	1	0	0		A	245849116	A	A	245849116	3	1	89	1	0	0	0	0	1	0	0	0	8311	971	34	2	2877	2	KIF26B	1	245849116	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	603701	245849116	3401505	772	54603											
TFB2M	64216	broad.mit.edu	37	chr1	246727664	246727664	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacctccaaatgtggaataAaagttttgtcactttcgagc	13	13	7	8	1	1	0	1	0	0	0	3	2	2	1	2	1	2	1	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:246727664A>C	uc001ibn.2	-	2	511	c.386T>G	c.(385-387)TTT>TGT	p.F129C	CNST_uc001ibo.3_5'Flank|CNST_uc001ibp.2_5'Flank|TFB2M_uc010pys.1_RNA	NM_022366	NP_071761	Q9H5Q4	TFB2M_HUMAN	transcription factor B2, mitochondrial	129					positive regulation of transcription, DNA-dependent|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity|transcription cofactor activity			ovary(1)	1	all_cancers(71;4.25e-05)|all_epithelial(71;4.92e-06)|Ovarian(71;0.0254)|all_lung(81;0.0272)|Breast(184;0.0318)|Lung NSC(105;0.0376)		OV - Ovarian serous cystadenocarcinoma(106;0.00358)			ATGTGGAATAAAAGTTTTGTC	0.388													27	51					0	0	1	0	0		C	246727664	C	C	246727664	3	2	89	1	0	0	0	0	1	0	0	0	15819	14	1	5	832	5	TFB2M	1	246727664	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	878548	246727664	2522957	773	54604											
ZNF695	57116	broad.mit.edu	37	chr1	247162690	247162690	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgttcacgttccagggCtctttccttgcctccagaca	5	14	8	14	1	3	1	1	0	2	1	6	1	6	1	4	1	1	3	4	1	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:247162690C>T	uc009xgu.2	-	3	364	c.219G>A	c.(217-219)GAG>GAA	p.E73E	ZNF695_uc001ica.2_RNA|ZNF695_uc001icb.1_RNA|ZNF695_uc009xgt.1_RNA|ZNF695_uc001ibx.2_Silent_p.E73E|ZNF695_uc001iby.2_RNA|ZNF695_uc001icc.2_Silent_p.E61E	NM_020394	NP_065127	Q8IW36	ZN695_HUMAN	zinc finger protein SBZF3	73	KRAB.				regulation of transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			CGTTCCAGGGCTCTTTCCTTG	0.463													41	37					0	0	1	0	0		T	247162690	T	T	247162690	2	4	89	1	0	0	0	0	0	0	0	1	18123	796	28	2		2	ZNF695	1	247162690	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	435026	247162690	2087931	774	54605											
NLRP3	114548	broad.mit.edu	37	chr1	247582372	247582372	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagcaaaaagagatgagccGaagtggggtgagtggaagga	17	4	17	3	1	0	3	0	2	0	1	0	7	0	5	1	4	2	1	1	4	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:247582372G>A	uc001icr.2	+	3	414	c.276G>A	c.(274-276)CCG>CCA	p.P92P	NLRP3_uc001ics.2_Silent_p.P92P|NLRP3_uc001icu.2_Silent_p.P92P|NLRP3_uc001icw.2_Silent_p.P92P|NLRP3_uc001icv.2_Silent_p.P92P|NLRP3_uc010pyw.1_Silent_p.P90P|NLRP3_uc001ict.1_Silent_p.P90P	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	92	DAPIN.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			GAGATGAGCCGAAGTGGGGTG	0.333													7	37					0	0	1	0	0		A	247582372	A	A	247582372	2	1	89	1	0	0	0	0	0	0	0	1	10497	1045	37	1		1	NLRP3	1	247582372	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	419682	247582372	1668249	775	54606											
NLRP3	114548	broad.mit.edu	37	chr1	247588450	247588450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaaaactatggcaaattcGaaaaggggtatttgattttt	14	14	10	3	1	0	1	0	1	0	0	1	3	0	2	0	4	1	2	0	4	7	6	rs104895389		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:247588450G>A	uc001icr.2	+	5	1843	c.1705G>A	c.(1705-1707)GAA>AAA	p.E569K	NLRP3_uc001ics.2_Missense_Mutation_p.E569K|NLRP3_uc001icu.2_Missense_Mutation_p.E569K|NLRP3_uc001icw.2_Missense_Mutation_p.E569K|NLRP3_uc001icv.2_Missense_Mutation_p.E569K|NLRP3_uc010pyw.1_Missense_Mutation_p.E567K|NLRP3_uc001ict.1_Missense_Mutation_p.E567K	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	569					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			TGGCAAATTCGAAAAGGGGTA	0.463													39	35					0	0	1	0	0		A	247588450	A	A	247588450	3	1	89	1	0	0	0	0	1	0	0	0	10497	1059	37	1	1715	1	NLRP3	1	247588450	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6078	247588450	1662171	776	54607											
OR2G3	81469	broad.mit.edu	37	chr1	247769596	247769596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtagaggcaaggcacaaaGccttcagcacctgctcctcc	11	6	9	15	0	1	1	1	0	0	1	3	1	3	1	4	2	3	5	4	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:247769596G>A	uc010pyz.1	+	1	709	c.709G>A	c.(709-711)GCC>ACC	p.A237T		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	237	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			AAGGCACAAAGCCTTCAGCAC	0.478													33	51					0	0	1	0	0		A	247769596	A	A	247769596	3	1	89	1	0	0	0	0	1	0	0	0	11018	971	34	2	711	2	OR2G3	1	247769596	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	181146	247769596	1481025	777	54608											
OR14A16	284532	broad.mit.edu	37	chr1	247978292	247978292	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaatccagtggaaagaaatAacacaaccagcaagtgtgga	18	6	10	7	0	0	2	0	1	0	1	1	4	1	4	2	2	3	1	2	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:247978292A>G	uc001idm.1	-	1	740	c.740T>C	c.(739-741)TTA>TCA	p.L247S		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	247	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGAAAGAAATAACACAACCAG	0.438													22	58					0	0	1	0	0		G	247978292	G	G	247978292	3	3	89	1	0	0	0	0	1	0	0	0	10964	372	13	3	193	3	OR14A16	1	247978292	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	208696	247978292	1272329	778	54609											
TRIM58	25893	broad.mit.edu	37	chr1	248039649	248039649	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacacattcaaccaactctTctctggtcttcttcggcctt	7	15	4	15	1	5	0	1	0	4	0	7	0	5	0	2	2	3	0	2	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248039649T>G	uc001ido.2	+	6	1367	c.1319T>G	c.(1318-1320)TTC>TGC	p.F440C	OR2W3_uc001idp.1_Intron	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	440	B30.2/SPRY.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			AACCAACTCTTCTCTGGTCTT	0.438													122	133					0	0	1	0	0		G	248039649	G	G	248039649	3	3	89	1	0	0	0	0	1	0	0	0	16557	1783	62	5	1341	5	TRIM58	1	248039649	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	61357	248039649	1210972	779	54610											
OR2W3	343171	broad.mit.edu	37	chr1	248059374	248059374	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttggccatgtctcctgtGaccctgcgcttaccccgctg	3	12	9	17	2	1	1	0	1	1	0	3	1	2	1	6	1	2	2	6	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248059374G>T	uc001idp.1	+	3	755	c.486G>T	c.(484-486)GTG>GTT	p.V162V	OR2W3_uc010pzb.1_Silent_p.V162V	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	162	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TGTCTCCTGTGACCCTGCGCT	0.647													26	72					8.24728e-16	9.42941e-16	1	1	0		T	248059374	T	T	248059374	2	4	89	1	0	0	0	0	0	0	0	1	11052	1277	45	5		5	OR2W3	1	248059374	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	19725	248059374	1191247	780	54611											
OR2AK2	391191	broad.mit.edu	37	chr1	248128684	248128684	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttggtttcagccatgaaAacaggaaatcaaagttttgg	14	13	9	5	0	2	1	2	1	0	0	2	2	2	2	1	3	2	2	1	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248128684A>C	uc010pzd.1	+	1	51	c.51A>C	c.(49-51)AAA>AAC	p.K17N	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			CAGCCATGAAAACAGGAAATC	0.244													39	108					0	0	1	0	0		C	248128684	C	C	248128684	3	2	89	1	0	0	0	0	1	0	0	0	11005	11	1	5	53	5	OR2AK2	1	248128684	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	69310	248128684	1121937	781	54612											
OR2L2	26246	broad.mit.edu	37	chr1	248202363	248202363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtacgtccaagatccctgcGatctccaacagaggacaaga	13	7	9	12	2	1	3	0	0	1	3	4	5	3	4	3	1	3	1	3	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248202363G>A	uc001idw.2	+	1	890	c.794G>A	c.(793-795)CGA>CAA	p.R265Q	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			AGATCCCTGCGATCTCCAACA	0.502													45	140					0	0	1	0	0		A	248202363	A	A	248202363	3	1	89	1	0	0	0	0	1	0	0	0	11026	1058	37	1	796	1	OR2L2	1	248202363	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	73679	248202363	1048258	782	54613											
OR2L3	391192	broad.mit.edu	37	chr1	248224049	248224049	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcccaccatcaagaatTggccttttcctcttcatcct	7	16	3	15	0	4	1	2	0	2	1	7	1	7	1	5	1	0	0	5	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248224049T>C	uc001idx.1	+	1	66	c.66T>C	c.(64-66)ATT>ATC	p.I22I	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			CATCAAGAATTGGCCTTTTCC	0.403													268	233					0	0	1	0	0		C	248224049	C	C	248224049	2	2	89	1	0	0	0	0	0	0	0	1	11027	1800	63	3		3	OR2L3	1	248224049	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	21686	248224049	1026572	783	54614											
OR2L3	391192	broad.mit.edu	37	chr1	248224853	248224853	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcaaccccatcatctatagCctgaggaacaaggaggtgat	13	8	9	11	0	3	2	2	2	1	0	3	4	3	4	3	3	3	0	3	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248224853C>T	uc001idx.1	+	1	870	c.870C>T	c.(868-870)AGC>AGT	p.S290S	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	290	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TCATCTATAGCCTGAGGAACA	0.498													85	54					0	0	1	0	0		T	248224853	T	T	248224853	2	4	89	1	0	0	0	0	0	0	0	1	11027	738	26	2		2	OR2L3	1	248224853	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	804	248224853	1025768	784	54615											
OR2M4	26245	broad.mit.edu	37	chr1	248403071	248403071	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcggccttctacactattCtcacccctatgctgaaccct	7	13	5	16	1	2	1	1	1	2	0	4	1	2	1	4	1	3	1	4	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248403071C>A	uc010pzh.1	+	1	841	c.841C>A	c.(841-843)CTC>ATC	p.L281I		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	281	Helical; Name=7; (Potential).			LT -> SH (in Ref. 4).	sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CTACACTATTCTCACCCCTAT	0.458													64	45					1.12612e-26	1.36447e-26	1	1	0		A	248403071	A	A	248403071	3	1	89	1	0	0	0	0	1	0	0	0	11031	913	32	5	843	5	OR2M4	1	248403071	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	178218	248403071	847550	785	54616											
OR2T12	127064	broad.mit.edu	37	chr1	248458301	248458301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagatgtacatggcgttttCgaagactgaagtgtcagcac	11	10	12	8	2	1	3	1	1	0	2	2	4	1	3	0	1	2	4	0	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248458301C>T	uc010pzj.1	-	1	580	c.580G>A	c.(580-582)GAA>AAA	p.E194K		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	194	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			ATGGCGTTTTCGAAGACTGAA	0.537													26	117					0	0	1	0	0		T	248458301	T	T	248458301	3	4	89	1	0	0	0	0	1	0	0	0	11038	893	31	1	385	1	OR2T12	1	248458301	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	55230	248458301	792320	786	54617											
OR2M7	391196	broad.mit.edu	37	chr1	248486997	248486997	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcacttccttgttgcggaGgctataaatgagaggattca	10	12	12	7	1	2	1	2	1	0	1	3	4	3	3	1	4	1	2	1	4	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248486997G>T	uc010pzk.1	-	1	874	c.874C>A	c.(874-876)CTC>ATC	p.L292I		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	292	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTGTTGCGGAGGCTATAAATG	0.433													35	79					4.3181e-19	5.06354e-19	1	1	0		T	248486997	T	T	248486997	3	4	89	1	0	0	0	0	1	0	0	0	11033	1000	35	5	67	5	OR2M7	1	248486997	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	28696	248486997	763624	787	54618											
OR2T1	26696	broad.mit.edu	37	chr1	248569654	248569654	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccacctttccttaattgAcatgatgtatatttccacta	11	15	4	11	0	0	2	0	2	0	0	2	2	2	2	4	0	1	1	4	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248569654A>G	uc010pzm.1	+	1	359	c.359A>G	c.(358-360)GAC>GGC	p.D120G		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	120	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCCTTAATTGACATGATGTAT	0.458													45	204					0	0	1	0	0		G	248569654	G	G	248569654	3	3	89	1	0	0	0	0	1	0	0	0	11035	275	10	3	361	3	OR2T1	1	248569654	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	82657	248569654	680967	788	54619											
OR2T1	26696	broad.mit.edu	37	chr1	248570369	248570369	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagggccttggggaggttCaagggtcctcaaagggtgtc	9	8	17	7	0	2	1	2	0	0	1	4	2	3	2	2	6	0	1	2	6	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248570369C>A	uc010pzm.1	+	1	1074	c.1074C>A	c.(1072-1074)TTC>TTA	p.F358L		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	358	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGGGGAGGTTCAAGGGTCCTC	0.517													57	182					7.91745e-34	9.74309e-34	1	1	0		A	248570369	A	A	248570369	3	1	89	1	0	0	0	0	1	0	0	0	11035	825	29	5	1076	5	OR2T1	1	248570369	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	715	248570369	680252	789	54620											
OR2G6	391211	broad.mit.edu	37	chr1	248684964	248684964	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaatggaggaaaccaacaAcagctctgaaaagggatttc	19	6	9	7	0	1	1	0	1	1	0	2	4	1	4	1	3	4	1	1	3	7	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248684964A>G	uc001ien.1	+	1	17	c.17A>G	c.(16-18)AAC>AGC	p.N6S		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GAAACCAACAACAGCTCTGAA	0.403													34	152					0	0	1	0	0		G	248684964	G	G	248684964	3	3	89	1	0	0	0	0	1	0	0	0	11019	43	2	3	19	3	OR2G6	1	248684964	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	114595	248684964	565657	790	54621											
OR2G6	391211	broad.mit.edu	37	chr1	248685634	248685634	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagctgtgttaaggataaaAtcagctgcgggccgccaaaa	14	7	11	9	2	1	0	1	0	0	0	1	1	1	1	2	2	3	3	2	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248685634A>C	uc001ien.1	+	1	687	c.687A>C	c.(685-687)AAA>AAC	p.K229N		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TAAGGATAAAATCAGCTGCGG	0.468													22	105					0	0	1	0	0		C	248685634	C	C	248685634	3	2	89	1	0	0	0	0	1	0	0	0	11019	98	4	5	689	5	OR2G6	1	248685634	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	670	248685634	564987	791	54622											
OR14I1	401994	broad.mit.edu	37	chr1	248845530	248845530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcagcagaaacagcccggCgtgcagcacctgcagctccc	11	4	10	16	2	1	1	1	0	0	1	2	1	2	1	3	1	7	5	3	1	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr1:248845530C>T	uc001ieu.1	-	1	76	c.76G>A	c.(76-78)GCC>ACC	p.A26T		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	26	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AACAGCCCGGCGTGCAGCACC	0.493													32	50					0	0	1	0	0		T	248845530	T	T	248845530	3	4	89	1	0	0	0	0	1	0	0	0	10966	768	27	1	863	1	OR14I1	1	248845530	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	159896	248845530	405091	792	54623											
SNTG2	54221	broad.mit.edu	37	chr2	1093883	1093883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctaaaatgttttaaagcGcagaactgttacactccgca	13	13	6	9	2	1	1	0	0	1	1	2	1	2	1	1	0	3	4	1	0	6	5	rs138780480	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:1093883G>A	uc002qwq.2	+	3	340	c.212G>A	c.(211-213)CGC>CAC	p.R71H	SNTG2_uc002qwp.2_RNA|SNTG2_uc010ewi.2_Intron	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	71					central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		GTTTTAAAGCGCAGAACTGTT	0.353													56	108					0	0	1	0	0		A	1093883	A	A	1093883	3	1	89	1	0	0	0	0	1	0	0	0	14900	1101	38	1	222	1	SNTG2	2	1093883	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08		1093883	242105490	793	54624											
SNTG2	54221	broad.mit.edu	37	chr2	1243521	1243521	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctccacagatgaagatggcGaacaaatgctgctctccttc	11	10	8	12	1	2	3	0	1	2	2	5	4	2	3	2	1	3	2	2	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:1243521G>A	uc002qwq.2	+	11	989	c.861G>A	c.(859-861)GCG>GCA	p.A287A	SNTG2_uc010ewi.2_Silent_p.A160A	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	287					central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		TGAAGATGGCGAACAAATGCT	0.488													7	13					0	0	1	0	0		A	1243521	A	A	1243521	2	1	89	1	0	0	0	0	0	0	0	1	14900	1045	37	1		1	SNTG2	2	1243521	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	149638	1243521	241955852	794	54625											
PXDN	7837	broad.mit.edu	37	chr2	1647288	1647288	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataggatcctggccagcgaCgtctgcttgatctgagtcag	8	10	12	11	2	3	2	1	2	2	0	4	4	4	3	2	2	2	1	2	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:1647288C>T	uc002qxa.2	-	19	3868	c.3804G>A	c.(3802-3804)ACG>ACA	p.T1268T		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1268					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		TGGCCAGCGACGTCTGCTTGA	0.602													38	53					0	0	1	0	0		T	1647288	T	T	1647288	2	4	89	1	0	0	0	0	0	0	0	1	12872	523	19	1		1	PXDN	2	1647288	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	403767	1647288	241552085	795	54626											
PXDN	7837	broad.mit.edu	37	chr2	1652186	1652186	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcattttccccgccaccccGaacagccccctgagaagcgg	8	5	9	19	4	0	1	0	1	0	1	1	3	1	1	7	1	3	1	7	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:1652186G>A	uc002qxa.2	-	17	3430	c.3366C>T	c.(3364-3366)TTC>TTT	p.F1122F		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1122					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CCGCCACCCCGAACAGCCCCC	0.612													13	19					0	0	1	0	0		A	1652186	A	A	1652186	2	1	89	1	0	0	0	0	0	0	0	1	12872	1049	37	1		1	PXDN	2	1652186	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4898	1652186	241547187	796	54627											
PXDN	7837	broad.mit.edu	37	chr2	1680706	1680706	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccccaactcacttgtttcGcagccagatgatctcaggct	8	10	9	14	1	2	2	2	1	1	1	4	2	2	2	3	2	2	3	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:1680706G>A	uc002qxa.2	-	8	905	c.841C>T	c.(841-843)CGA>TGA	p.R281*	PXDN_uc002qxb.1_Nonsense_Mutation_p.R281*|PXDN_uc002qxc.1_Nonsense_Mutation_p.R98*	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	281	Ig-like C2-type 1.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CACTTGTTTCGCAGCCAGATG	0.582													4	13					0	0	1	0	0		A	1680706	A	A	1680706	4	1	89	1	0	0	0	0	0	1	0	0	12872	1095	38	1	3662	1	PXDN	2	1680706	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	28520	1680706	241518667	797	54628											
ALLC	55821	broad.mit.edu	37	chr2	3729284	3729284	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcagccactcctgaggAgtttgaagccattgctgagg	9	9	13	10	0	0	3	0	3	0	0	1	4	1	4	3	2	5	4	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:3729284A>C	uc010ewt.2	+	6	520	c.359A>C	c.(358-360)GAG>GCG	p.E120A		NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	139							allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)		ACTCCTGAGGAGTTTGAAGCC	0.473										HNSCC(21;0.051)			3	12					0	0	1	0	0		C	3729284	C	C	3729284	3	2	89	1	0	0	0	0	1	0	0	0	534	304	11	5	377	5	ALLC	2	3729284	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2048578	3729284	239470089	798	54629											
ALLC	55821	broad.mit.edu	37	chr2	3743399	3743399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagacctagtggccatcGcttttgggggtgtctgtgta	5	13	14	9	1	1	1	0	0	1	1	2	1	1	1	2	3	1	3	2	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:3743399G>A	uc010ewt.2	+	8	765	c.604G>A	c.(604-606)GCT>ACT	p.A202T	ALLC_uc002qyf.2_5'UTR	NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	221							allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)		AGTGGCCATCGCTTTTGGGGG	0.438										HNSCC(21;0.051)			15	33					0	0	1	0	0		A	3743399	A	A	3743399	3	1	89	1	0	0	0	0	1	0	0	0	534	1087	38	1	630	1	ALLC	2	3743399	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14115	3743399	239455974	799	54630											
RNF144A	9781	broad.mit.edu	37	chr2	7179884	7179884	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtgacgacgacccgttacCcacctagaggaagcgcgatg	11	5	13	12	5	0	2	0	1	0	1	0	6	0	3	3	2	2	1	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:7179884C>A	uc002qys.2	+	9	1314	c.872C>A	c.(871-873)CCC>CAC	p.P291H	RNF144A_uc002qyt.2_Missense_Mutation_p.P140H	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	291						Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		GACCCGTTACCCACCTAGAGG	0.582													17	44					0.000566183	0.000576314	1	1	0		A	7179884	A	A	7179884	3	1	89	1	0	0	0	0	1	0	0	0	13470	623	22	5	898	5	RNF144A	2	7179884	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3436485	7179884	236019489	800	54631											
TAF1B	9014	broad.mit.edu	37	chr2	10045058	10045058	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttttagatttgcctcgttTtccagacataactgaagact	11	16	6	8	1	0	4	0	1	0	3	2	4	1	4	2	0	2	1	2	0	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:10045058T>G	uc002qzz.2	+	9	978	c.878T>G	c.(877-879)TTT>TGT	p.F293C	TAF1B_uc010exc.2_Missense_Mutation_p.F293C|TAF1B_uc002qzy.3_Missense_Mutation_p.F293C|TAF1B_uc010yja.1_Missense_Mutation_p.F38C|TAF1B_uc010exd.2_Missense_Mutation_p.F38C	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	293					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TTGCCTCGTTTTCCAGACATA	0.388													49	72					0	0	1	0	0		G	10045058	G	G	10045058	3	3	89	1	0	0	0	0	1	0	0	0	15545	1841	64	5	912	5	TAF1B	2	10045058	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2865174	10045058	233154315	801	54632											
ROCK2	9475	broad.mit.edu	37	chr2	11347936	11347937	+	Frame_Shift_Ins	INS	-	T	T																															ctttaactgcttttctgacaINStttttagtgtgttaacctgt																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:11347936_11347937insT	uc002rbd.1	-	20	2913_2914	c.2464_2465insA	c.(2464-2466)ATGfs	p.M822fs		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	822	Potential.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		CTTTTCTGACATTTTTAGTGTG	0.342													36	71	---	---	---	---						.	T	11347937	T	T	11347936	7	5	89	1	0	1	1	0	0	0	0	0	13543	217	8	0	1757	0	ROCK2	2	11347936	Frame_Shift_Ins	INS	-	TCGA-BR-8680-01A-11D-2394-08	1302878	11347936	231851437	802	54633											
GREB1	9687	broad.mit.edu	37	chr2	11696778	11696778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggacagctgaagacgacacGctttgaagaggtcttgcaca	12	8	12	9	2	1	4	0	2	1	2	1	6	1	5	0	2	2	3	0	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:11696778G>A	uc002rbk.1	+	2	338	c.38G>A	c.(37-39)CGC>CAC	p.R13H	GREB1_uc002rbl.2_Missense_Mutation_p.R13H|GREB1_uc002rbm.2_Intron|GREB1_uc002rbn.1_Missense_Mutation_p.R13H	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	13						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		AAGACGACACGCTTTGAAGAG	0.517													36	77					0	0	1	0	0		A	11696778	A	A	11696778	3	1	89	1	0	0	0	0	1	0	0	0	6776	1087	38	1	40	1	GREB1	2	11696778	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	348842	11696778	231502595	803	54634											
NTSR2	23620	broad.mit.edu	37	chr2	11800191	11800191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtccacgcgtcatcaggtaCgtagcagtacatgagcctgc	10	8	11	12	3	2	1	2	1	0	0	3	1	3	1	2	1	5	4	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:11800191C>T	uc002rbq.3	-	3	1041	c.967G>A	c.(967-969)GTA>ATA	p.V323I		NM_012344	NP_036476	O95665	NTR2_HUMAN	neurotensin receptor 2	323	Extracellular (Potential).				sensory perception	integral to plasma membrane					0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.129)|OV - Ovarian serous cystadenocarcinoma(76;0.24)	Levocabastine(DB01106)	TCATCAGGTACGTAGCAGTAC	0.602													29	56					0	0	1	0	0		T	11800191	T	T	11800191	3	4	89	1	0	0	0	0	1	0	0	0	10730	536	19	1	273	1	NTSR2	2	11800191	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	103413	11800191	231399182	804	54635											
TRIB2	28951	broad.mit.edu	37	chr2	12863671	12863671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaattcatctttaaggacGaagagaggtaggtctcatcc	13	10	11	7	1	3	1	2	0	2	1	5	5	4	3	1	4	0	1	1	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:12863671G>A	uc002rbv.3	+	2	1992	c.556G>A	c.(556-558)GAA>AAA	p.E186K	TRIB2_uc010yjp.1_Missense_Mutation_p.E50K	NM_021643	NP_067675	Q92519	TRIB2_HUMAN	tribbles homolog 2	186	Protein kinase.				negative regulation of fat cell differentiation|negative regulation of interleukin-10 biosynthetic process|negative regulation of protein kinase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|regulation of MAP kinase activity	cytoplasm|cytoskeleton|nucleus	ATP binding|protein kinase activity|protein kinase inhibitor activity|transcription factor binding|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			stomach(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					CTTTAAGGACGAAGAGAGGTA	0.532													26	44					0	0	1	0	0		A	12863671	A	A	12863671	3	1	89	1	0	0	0	0	1	0	0	0	16509	1059	37	1	562	1	TRIB2	2	12863671	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1063480	12863671	230335702	805	54636											
NBAS	51594	broad.mit.edu	37	chr2	15601451	15601451	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagaatttccagggcttgtAcattactttcctgtacaaaa	13	13	6	9	0	0	1	0	0	0	1	2	1	2	1	2	1	3	3	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:15601451A>G	uc002rcc.1	-	21	2239	c.2213T>C	c.(2212-2214)GTA>GCA	p.V738A	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	738										ovary(2)|liver(1)|skin(1)	4						CAGGGCTTGTACATTACTTTC	0.373													24	51					0	0	1	0	0		G	15601451	G	G	15601451	3	3	89	1	0	0	0	0	1	0	0	0	10204	391	14	3	5030	3	NBAS	2	15601451	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2737780	15601451	227597922	806	54637											
DDX1	1653	broad.mit.edu	37	chr2	15768807	15768807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagcaaaactacgtacatcGaattggcagagtaggaagag	18	6	11	6	2	0	2	0	0	0	2	1	4	0	3	0	2	4	4	0	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:15768807G>A	uc002rce.2	+	22	2093	c.1805G>A	c.(1804-1806)CGA>CAA	p.R602Q	DDX1_uc010yjq.1_Missense_Mutation_p.R510Q	NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	602	Helicase C-terminal.|Necessary for interaction with replicase polyprotein 1ab nsp14 of IBV.|Necessary for interaction with HNRNPK.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		TACGTACATCGAATTGGCAGA	0.323													15	24					0	0	1	0	0		A	15768807	A	A	15768807	3	1	89	1	0	0	0	0	1	0	0	0	4344	1058	37	1	1891	1	DDX1	2	15768807	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	167356	15768807	227430566	807	54638											
FAM49A	81553	broad.mit.edu	37	chr2	16745275	16745275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctagtctaatggaaaactCgtaaaatctctttagcctca	14	12	5	10	1	3	0	1	0	2	0	5	1	3	1	2	1	2	1	2	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:16745275C>T	uc010exm.1	-	4	428	c.280G>A	c.(280-282)GAG>AAG	p.E94K	FAM49A_uc002rck.1_Missense_Mutation_p.E94K	NM_030797	NP_110424	Q9H0Q0	FA49A_HUMAN	family with sequence similarity 49, member A	94						intracellular					0	Acute lymphoblastic leukemia(172;0.0734)|all_hematologic(175;0.088)		GBM - Glioblastoma multiforme(3;0.00969)			ATGGAAAACTCGTAAAATCTC	0.418													17	40					0	0	1	0	0		T	16745275	T	T	16745275	3	4	89	1	0	0	0	0	1	0	0	0	5589	893	31	1	723	1	FAM49A	2	16745275	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	976468	16745275	226454098	808	54639											
SMC6	79677	broad.mit.edu	37	chr2	17927099	17927099	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatttttcgcttaccaaagTagtacctttacattcgtctt	10	18	4	9	2	1	0	0	0	1	0	3	0	1	0	2	0	3	3	2	0	6	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:17927099T>C	uc002rco.2	-	3	411	c.115A>G	c.(115-117)ACT>GCT	p.T39A	SMC6_uc010exo.2_Missense_Mutation_p.T39A|SMC6_uc002rcn.2_Missense_Mutation_p.T39A|SMC6_uc002rcp.1_Missense_Mutation_p.T39A|SMC6_uc002rcq.2_Missense_Mutation_p.T39A|SMC6_uc002rcr.1_Missense_Mutation_p.T39A	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	39					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CTTACCAAAGTAGTACCTTTA	0.308													11	35					0	0	1	0	0		C	17927099	C	C	17927099	3	2	89	1	0	0	0	0	1	0	0	0	14812	1638	57	3	3264	3	SMC6	2	17927099	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1181824	17927099	225272274	809	54640											
NT5C1B	93034	broad.mit.edu	37	chr2	18737024	18737024	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcttcagtcttcatgtaaggGcactggaagatccctgcgtt	8	13	10	10	1	4	1	2	0	2	1	5	2	5	2	1	2	1	3	1	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:18737024G>A	uc010exr.2	-	9	1490	c.1386C>T	c.(1384-1386)TGC>TGT	p.C462C	NT5C1B_uc002rcy.2_3'UTR|RDH14_uc002rcx.3_Silent_p.C148C	NM_033253	NP_150278	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 2	Error:Variant_position_missing_in_Q96P26_after_alignment					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				TCATGTAAGGGCACTGGAAGA	0.443													51	124					0	0	1	0	0		A	18737024	A	A	18737024	2	1	89	1	0	0	0	0	0	0	0	1	10705	1195	42	2		2	NT5C1B	2	18737024	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	809925	18737024	224462349	810	54641											
WDR35	57539	broad.mit.edu	37	chr2	20135296	20135296	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaacccttcataatcctctAacatatagtaacattcagct	14	13	2	12	0	3	0	2	0	1	0	4	0	4	0	2	0	4	2	2	0	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:20135296A>G	uc002rdi.2	-	22	2624	c.2516T>C	c.(2515-2517)TTA>TCA	p.L839S	WDR35_uc002rdj.2_Missense_Mutation_p.L828S|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Missense_Mutation_p.L404S|WDR35_uc002rdk.3_Missense_Mutation_p.L404S	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	839										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATAATCCTCTAACATATAGTA	0.343													28	49					0	0	1	0	0		G	20135296	G	G	20135296	3	3	89	1	0	0	0	0	1	0	0	0	17315	372	13	3	1057	3	WDR35	2	20135296	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1398272	20135296	223064077	811	54642											
APOB	338	broad.mit.edu	37	chr2	21225916	21225916	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctttctggaacctcacgtcGatatcatcaatttgcctaat	10	14	6	11	2	4	0	3	0	1	0	5	2	4	1	2	1	2	1	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:21225916G>A	uc002red.2	-	29	12506	c.12378C>T	c.(12376-12378)ATC>ATT	p.I4126I		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	4126					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ACCTCACGTCGATATCATCAA	0.502													60	127					0	0	1	0	0		A	21225916	A	A	21225916	2	1	89	1	0	0	0	0	0	0	0	1	785	1048	37	1		1	APOB	2	21225916	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1090620	21225916	221973457	812	54643											
APOB	338	broad.mit.edu	37	chr2	21229095	21229095	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggcttctccagcaaaatTttcttttacttcaaggttcc	8	17	6	10	0	3	0	1	0	2	0	5	0	4	0	2	2	2	3	2	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:21229095T>G	uc002red.2	-	26	10773	c.10645A>C	c.(10645-10647)AAT>CAT	p.N3549H		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3549					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CCAGCAAAATTTTCTTTTACT	0.453													40	67					0	0	1	0	0		G	21229095	G	G	21229095	3	3	89	1	0	0	0	0	1	0	0	0	785	1841	64	5	3062	5	APOB	2	21229095	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3179	21229095	221970278	813	54644											
APOB	338	broad.mit.edu	37	chr2	21231795	21231795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtgttaaggatggtaaattCtggtgtggaaaacctggatg	11	12	15	3	0	1	0	0	0	1	0	1	3	1	3	1	6	1	2	1	6	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:21231795C>T	uc002red.2	-	26	8073	c.7945G>A	c.(7945-7947)GAA>AAA	p.E2649K		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2649					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ATGGTAAATTCTGGTGTGGAA	0.353													75	165					0	0	1	0	0		T	21231795	T	T	21231795	3	4	89	1	0	0	0	0	1	0	0	0	785	922	32	4	5762	4	APOB	2	21231795	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2700	21231795	221967578	814	54645											
APOB	338	broad.mit.edu	37	chr2	21233570	21233570	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtttttatcatactttacaAaagcaacaattgtaaattct	15	16	4	6	0	2	0	1	0	1	0	2	0	2	0	0	1	4	3	0	1	9	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:21233570A>C	uc002red.2	-	26	6298	c.6170T>G	c.(6169-6171)TTT>TGT	p.F2057C		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2057	Heparin-binding.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ATACTTTACAAAAGCAACAAT	0.358													41	76					0	0	1	0	0		C	21233570	C	C	21233570	3	2	89	1	0	0	0	0	1	0	0	0	785	14	1	5	7537	5	APOB	2	21233570	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1775	21233570	221965803	815	54646											
APOB	338	broad.mit.edu	37	chr2	21235442	21235442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgactgaatttgatattcGaatctagaaatttgtggcgt	12	15	9	5	2	1	4	0	3	1	1	2	5	1	4	0	1	0	0	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:21235442G>A	uc002red.2	-	26	4426	c.4298C>T	c.(4297-4299)TCG>TTG	p.S1433L		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1433					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTTGATATTCGAATCTAGAAA	0.368													29	52					0	0	1	0	0		A	21235442	A	A	21235442	3	1	89	1	0	0	0	0	1	0	0	0	785	1059	37	1	9409	1	APOB	2	21235442	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1872	21235442	221963931	816	54647											
APOB	338	broad.mit.edu	37	chr2	21238325	21238325	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagaagcagtttggcaggcGaccagtgggcgaggatctca	10	6	17	8	2	1	1	1	0	1	1	2	5	1	2	1	5	1	3	1	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:21238325G>A	uc002red.2	-	22	3553	c.3425C>T	c.(3424-3426)TCG>TTG	p.S1142L		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1142					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTTGGCAGGCGACCAGTGGGC	0.483													32	85					0	0	1	0	0		A	21238325	A	A	21238325	3	1	89	1	0	0	0	0	1	0	0	0	785	1059	37	1	10298	1	APOB	2	21238325	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2883	21238325	221961048	817	54648											
APOB	338	broad.mit.edu	37	chr2	21242777	21242777	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaccaaatgtaatgtgttGctggtgaagaacaaaaatac	17	9	10	5	0	0	3	0	1	0	2	0	4	0	3	1	1	3	3	1	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:21242777G>T	uc002red.2	-	19	2945	c.2817C>A	c.(2815-2817)GGC>GGA	p.G939G		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	939	Heparin-binding.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GTAATGTGTTGCTGGTGAAGA	0.453													24	51					6.21321e-17	7.16882e-17	1	1	0		T	21242777	T	T	21242777	2	4	89	1	0	0	0	0	0	0	0	1	785	1333	46	5		5	APOB	2	21242777	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4452	21242777	221956596	818	54649											
ATAD2B	54454	broad.mit.edu	37	chr2	24033263	24033263	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtctatgcacagagaatcTttctagagtgtgcaaaagtg	13	12	10	6	0	3	2	0	0	3	2	3	3	3	2	0	0	2	2	0	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:24033263T>G	uc002rek.3	-	18	2671	c.2377A>C	c.(2377-2379)AGA>CGA	p.R793R	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rei.3_Silent_p.R38R|ATAD2B_uc002rej.3_5'UTR	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	793							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACAGAGAATCTTTCTAGAGTG	0.478													21	48					0	0	1	0	0		G	24033263	G	G	24033263	2	3	89	1	0	0	0	0	0	0	0	1	1073	1617	56	5		5	ATAD2B	2	24033263	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2790486	24033263	219166110	819	54650											
FKBP1B	2281	broad.mit.edu	37	chr2	24285954	24285954	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgagcttggggcagagggcGaagctgacctgcacccctga	9	6	15	11	1	0	4	0	3	0	1	0	5	0	4	3	3	3	4	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:24285954G>A	uc002rer.2	+	4	355	c.219G>A	c.(217-219)GCG>GCA	p.A73A	FKBP1B_uc002res.2_3'UTR|FKBP1B_uc002ret.2_RNA|FKBP1B_uc002reu.2_RNA	NM_004116	NP_004107	P68106	FKB1B_HUMAN	FK506 binding protein 1B, 12.6 kDa isoform a	73	PPIase FKBP-type.				'de novo' protein folding|negative regulation of heart rate|negative regulation of protein phosphatase type 2B activity|protein maturation by protein folding|protein refolding|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|regulation of ryanodine-sensitive calcium-release channel activity|response to redox state	calcium channel complex|sarcoplasmic reticulum membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|receptor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCAGAGGGCGAAGCTGACCT	0.557													28	38					0	0	1	0	0		A	24285954	A	A	24285954	2	1	89	1	0	0	0	0	0	0	0	1	5921	1045	37	1		1	FKBP1B	2	24285954	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	252691	24285954	218913419	820	54651											
NCOA1	8648	broad.mit.edu	37	chr2	24888773	24888773	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagatacagctaatgaagaGaatggaacaaggtaaaaaag	21	6	10	4	0	1	3	1	1	0	2	1	5	1	4	0	2	3	2	0	2	9	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:24888773G>T	uc002rfk.2	+	4	503	c.245G>T	c.(244-246)AGA>ATA	p.R82I	NCOA1_uc010eye.2_Missense_Mutation_p.R82I|NCOA1_uc002rfi.2_Intron|NCOA1_uc002rfj.2_Missense_Mutation_p.R82I|NCOA1_uc002rfl.2_Missense_Mutation_p.R82I	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	82									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTAATGAAGAGAATGGAACAA	0.303			T	PAX3	alveolar rhadomyosarcoma								26	71					4.72057e-08	4.99044e-08	1	1	0		T	24888773	T	T	24888773	3	4	89	1	0	0	0	0	1	0	0	0	10247	942	33	5	251	5	NCOA1	2	24888773	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	602819	24888773	218310600	821	54652											
ADCY3	109	broad.mit.edu	37	chr2	25050927	25050927	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggcgatgagggacagcAcggccacatagttgtaatac	11	8	14	8	2	0	1	0	1	0	0	0	3	0	2	1	4	2	3	1	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:25050927A>G	uc002rfs.3	-	13	2475	c.2276T>C	c.(2275-2277)GTG>GCG	p.V759A	ADCY3_uc002rfr.3_Intron|ADCY3_uc010ykm.1_Missense_Mutation_p.V759A	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	759	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					GAGGGACAGCACGGCCACATA	0.597											OREG0014498	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	30					0	0	1	0	0		G	25050927	G	G	25050927	3	3	89	1	0	0	0	0	1	0	0	0	295	159	6	3	1194	3	ADCY3	2	25050927	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	162154	25050927	218148446	822	54653											
ASXL2	55252	broad.mit.edu	37	chr2	25965983	25965983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagagaagattctgcctccGaaccctctgaatgagagtct	11	10	10	10	1	3	5	0	3	3	3	4	8	4	5	3	0	2	0	3	0	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:25965983G>A	uc002rgs.2	-	12	3444	c.3223C>T	c.(3223-3225)CGG>TGG	p.R1075W	ASXL2_uc002rgt.1_Intron	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1075					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTCTGCCTCCGAACCCTCTGA	0.502													25	61					0	0	1	0	0		A	25965983	A	A	25965983	3	1	89	1	0	0	0	0	1	0	0	0	1068	1057	37	1	1088	1	ASXL2	2	25965983	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	915056	25965983	217233390	823	54654											
AGBL5	60509	broad.mit.edu	37	chr2	27275836	27275836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagccccaccatggagctgCgctgtgggggattgctgttc	5	9	14	13	1	0	0	0	0	0	0	1	2	0	2	4	3	4	4	4	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27275836C>T	uc002rie.2	+	2	227	c.10C>T	c.(10-12)CGC>TGC	p.R4C	AGBL5_uc002ric.2_Missense_Mutation_p.R4C|AGBL5_uc002rid.2_Missense_Mutation_p.R4C|AGBL5_uc002rif.2_RNA	NM_021831	NP_068603	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5 isoform 1	4					protein branching point deglutamylation|proteolysis	cytosol|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CATGGAGCTGCGCTGTGGGGG	0.562													21	24					0	0	1	0	0		T	27275836	T	T	27275836	3	4	89	1	0	0	0	0	1	0	0	0	378	768	27	1	12	1	AGBL5	2	27275836	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1309853	27275836	215923537	824	54655											
EMILIN1	11117	broad.mit.edu	37	chr2	27307347	27307347	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacccccaggccctgctggAcctccaggatcaccaggcaa	9	4	11	17	0	1	0	1	0	0	0	2	3	2	3	6	5	1	2	6	5	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27307347A>G	uc002rii.3	+	5	2933	c.2505A>G	c.(2503-2505)GGA>GGG	p.G835G	EMILIN1_uc002rik.3_Silent_p.G70G|KHK_uc002ril.2_5'Flank|KHK_uc002rim.2_5'Flank|KHK_uc002rin.2_5'Flank|KHK_uc002rio.2_5'Flank	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	835	Collagen-like.|Potential.				cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCCCTGCTGGACCTCCAGGAT	0.647													20	53					0	0	1	0	0		G	27307347	G	G	27307347	2	3	89	1	0	0	0	0	0	0	0	1	5101	262	10	3		3	EMILIN1	2	27307347	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	31511	27307347	215892026	825	54656											
ABHD1	84696	broad.mit.edu	37	chr2	27346824	27346824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccaacacaagatgctgaGctccttcctgagcccccaga	10	6	7	18	0	0	4	0	2	0	2	2	4	2	4	6	0	4	2	6	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27346824G>A	uc002rit.2	+	1	168	c.8G>A	c.(7-9)AGC>AAC	p.S3N	ABHD1_uc002riu.2_RNA|ABHD1_uc002riv.2_RNA|ABHD1_uc002riw.2_Missense_Mutation_p.S3N	NM_032604	NP_115993	Q96SE0	ABHD1_HUMAN	abhydrolase domain-containing protein 1	3						integral to membrane	carboxylesterase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAGATGCTGAGCTCCTTCCTG	0.647													23	45					0	0	1	0	0		A	27346824	A	A	27346824	3	1	89	1	0	0	0	0	1	0	0	0	73	971	34	2	10	2	ABHD1	2	27346824	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	39477	27346824	215852549	826	54657											
SLC5A6	8884	broad.mit.edu	37	chr2	27429798	27429798	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgcacagttttattgaatcGaagctccaggtactgggtat	10	13	10	8	2	0	1	0	1	0	0	3	2	1	1	1	2	2	5	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27429798G>A	uc002rjd.2	-	4	797	c.406C>T	c.(406-408)CGA>TGA	p.R136*	SLC5A6_uc010eyv.1_Nonsense_Mutation_p.R136*	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	136					biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	TTATTGAATCGAAGCTCCAGG	0.463													100	167					0	0	1	0	0		A	27429798	A	A	27429798	4	1	89	1	0	0	0	0	0	1	0	0	14694	1066	37	1	1557	1	SLC5A6	2	27429798	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	82974	27429798	215769575	827	54658											
CAD	790	broad.mit.edu	37	chr2	27447234	27447234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagagcggctgactgagcGcctctgtccccctgggattc	6	9	13	13	2	1	3	0	2	1	1	3	5	2	4	3	2	2	1	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27447234G>A	uc002rji.2	+	9	1292	c.1130G>A	c.(1129-1131)CGC>CAC	p.R377H	CAD_uc010eyw.2_Missense_Mutation_p.R377H	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	377	Linker.				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	CTGACTGAGCGCCTCTGTCCC	0.423													36	71					0	0	1	0	0		A	27447234	A	A	27447234	3	1	89	1	0	0	0	0	1	0	0	0	2568	1087	38	1	1164	1	CAD	2	27447234	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17436	27447234	215752139	828	54659											
SLC30A3	7781	broad.mit.edu	37	chr2	27480771	27480771	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgctccatactgggacgtAcaacaggttggcacagactg	10	8	11	12	1	0	1	0	0	0	1	1	2	1	2	2	3	4	4	2	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27480771A>G	uc002rjk.2	-	4	764	c.578_splice	c.e4+1	p.L193_splice	SLC30A3_uc002rjj.2_5'UTR|SLC30A3_uc010ylh.1_Splice_Site_p.L188_splice	NM_003459	NP_003450	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter),						regulation of sequestering of zinc ion	cell junction|integral to plasma membrane|late endosome|membrane fraction|synaptic vesicle membrane	zinc transporting ATPase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACTGGGACGTACAACAGGTTG	0.637													6	8					0	0	1	0	0		G	27480771	G	G	27480771	5	3	89	1	0	0	0	0	0	0	1	0	14581	405	14	3	606	3	SLC30A3	2	27480771	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	33537	27480771	215718602	829	54660											
TRIM54	57159	broad.mit.edu	37	chr2	27528963	27528963	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcaggccaaggagctgAtcaataagtgagtaggcata	14	7	13	7	0	1	2	1	2	0	0	1	3	1	3	1	3	3	5	1	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27528963A>G	uc002rjo.2	+	6	859	c.859A>G	c.(859-861)ATC>GTC	p.I287V	TRIM54_uc002rjn.2_Missense_Mutation_p.I329V	NM_187841	NP_912730	Q9BYV2	TRI54_HUMAN	ring finger protein 30 isoform 2	287	COS.				cell differentiation|microtubule-based process|multicellular organismal development|negative regulation of microtubule depolymerization	microtubule|sarcomere	signal transducer activity|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAAGGAGCTGATCAATAAGTG	0.498													21	38					0	0	1	0	0		G	27528963	G	G	27528963	3	3	89	1	0	0	0	0	1	0	0	0	16554	333	12	3	1011	3	TRIM54	2	27528963	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	48192	27528963	215670410	830	54661											
PPM1G	5496	broad.mit.edu	37	chr2	27604548	27604548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagcacctcctctagttttCgcttgccactctctggctgg	5	13	9	14	1	2	1	0	0	2	1	5	1	3	1	3	2	2	4	3	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27604548C>T	uc002rkl.2	-	11	1666	c.1559G>A	c.(1558-1560)CGA>CAA	p.R520Q	ZNF513_uc002rkj.2_5'Flank|ZNF513_uc002rkk.2_5'Flank|PPM1G_uc002rkm.2_Missense_Mutation_p.R301Q	NM_002707	NP_002698	O15355	PPM1G_HUMAN	protein phosphatase 1G	520					cell cycle arrest|protein dephosphorylation	cytoplasm|nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					CTCTAGTTTTCGCTTGCCACT	0.532													54	123					0	0	1	0	0		T	27604548	T	T	27604548	3	4	89	1	0	0	0	0	1	0	0	0	12362	884	31	1	85	1	PPM1G	2	27604548	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	75585	27604548	215594825	831	54662											
PPM1G	5496	broad.mit.edu	37	chr2	27608664	27608664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcttcatcctcagtgggtCgccctgcaatctgtgccagc	6	11	9	15	1	4	0	2	0	2	0	6	0	5	0	3	1	3	1	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27608664C>T	uc002rkl.2	-	5	466	c.359G>A	c.(358-360)CGA>CAA	p.R120Q	PPM1G_uc002rkm.2_5'UTR	NM_002707	NP_002698	O15355	PPM1G_HUMAN	protein phosphatase 1G	120					cell cycle arrest|protein dephosphorylation	cytoplasm|nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					CTCAGTGGGTCGCCCTGCAAT	0.408													16	53					0	0	1	0	0		T	27608664	T	T	27608664	3	4	89	1	0	0	0	0	1	0	0	0	12362	884	31	1	1309	1	PPM1G	2	27608664	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4116	27608664	215590709	832	54663											
NRBP1	29959	broad.mit.edu	37	chr2	27662758	27662758	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcccactgcattgtgggAcaccaacgtgagtcgtcttg	7	9	13	12	3	1	1	0	1	1	0	2	2	1	2	2	2	2	1	2	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27662758A>G	uc002rko.2	+	12	1861	c.1029A>G	c.(1027-1029)GGA>GGG	p.G343G	NRBP1_uc002rkq.2_Silent_p.G342G|NRBP1_uc002rkp.2_Silent_p.G343G|NRBP1_uc002rkr.2_Silent_p.G134G|KRTCAP3_uc002rks.2_5'Flank|KRTCAP3_uc010ylr.1_5'Flank|KRTCAP3_uc002rkt.2_5'Flank	NM_013392	NP_037524	Q9UHY1	NRBP_HUMAN	nuclear receptor binding protein	343					ER to Golgi vesicle-mediated transport|gene expression|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cell cortex|endomembrane system|lamellipodium|membrane|nucleoplasm	ATP binding|protein homodimerization activity|protein kinase activity			ovary(2)|lung(1)	3	Acute lymphoblastic leukemia(172;0.155)					GCATTGTGGGACACCAACGTG	0.522													52	74					0	0	1	0	0		G	27662758	G	G	27662758	2	3	89	1	0	0	0	0	0	0	0	1	10661	262	10	3		3	NRBP1	2	27662758	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	54094	27662758	215536615	833	54664											
IFT172	26160	broad.mit.edu	37	chr2	27682647	27682647	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggtccccccatgcctcCtctagtttcaccacctccac	6	10	6	19	0	2	0	1	0	1	0	5	0	5	0	8	2	1	1	8	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27682647C>A	uc002rku.2	-	24	2622	c.2571G>T	c.(2569-2571)GAG>GAT	p.E857D		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	857	TPR 4.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CCCATGCCTCCTCTAGTTTCA	0.547													84	186					2.05912e-35	2.54041e-35	1	1	0		A	27682647	A	A	27682647	3	1	89	1	0	0	0	0	1	0	0	0	7573	680	24	5	2778	5	IFT172	2	27682647	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19889	27682647	215516726	834	54665											
GCKR	2646	broad.mit.edu	37	chr2	27745360	27745360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtccaaggctcgatgcatcGagagcctcctccgagcgatc	9	7	11	14	4	0	1	0	0	0	1	6	5	3	1	4	1	3	2	4	1	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27745360G>A	uc002rky.2	+	18	1672	c.1606G>A	c.(1606-1608)GAG>AAG	p.E536K	GCKR_uc010ezd.2_Missense_Mutation_p.E534K|GCKR_uc010ylu.1_Missense_Mutation_p.E346K	NM_001486	NP_001477	Q14397	GCKR_HUMAN	glucokinase regulatory protein	536					carbohydrate metabolic process|glucose transport|negative regulation of glucokinase activity|positive regulation of gene expression|protein import into nucleus, translocation|regulation of glucose transport|response to fructose stimulus|transmembrane transport|triglyceride homeostasis|urate metabolic process	cytosol|nucleoplasm	fructose-6-phosphate binding|protein binding			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)					TCGATGCATCGAGAGCCTCCT	0.532													52	68					0	0	1	0	0		A	27745360	A	A	27745360	3	1	89	1	0	0	0	0	1	0	0	0	6309	1059	37	1	1676	1	GCKR	2	27745360	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	62713	27745360	215454013	835	54666											
C2orf16	84226	broad.mit.edu	37	chr2	27802287	27802287	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagaagggtccagttactAtttctcagccttctgtggtc	8	13	10	10	0	2	1	1	0	2	1	5	2	3	1	2	2	2	1	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27802287A>G	uc002rkz.3	+	1	2899	c.2848A>G	c.(2848-2850)ATT>GTT	p.I950V		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	950										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					TCCAGTTACTATTTCTCAGCC	0.428													28	65					0	0	1	0	0		G	27802287	G	G	27802287	3	3	89	1	0	0	0	0	1	0	0	0	2160	449	16	3	2850	3	C2orf16	2	27802287	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	56927	27802287	215397086	836	54667											
C2orf16	84226	broad.mit.edu	37	chr2	27803866	27803866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcagtggggcagcctctgaGaactgttcaaaaggacagta	12	8	12	9	0	3	1	2	1	1	1	3	3	3	2	1	3	2	3	1	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27803866G>A	uc002rkz.3	+	1	4478	c.4427G>A	c.(4426-4428)AGA>AAA	p.R1476K	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1476										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					CAGCCTCTGAGAACTGTTCAA	0.473													58	118					0	0	1	0	0		A	27803866	A	A	27803866	3	1	89	1	0	0	0	0	1	0	0	0	2160	942	33	4	4429	4	C2orf16	2	27803866	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1579	27803866	215395507	837	54668											
GPN1	11321	broad.mit.edu	37	chr2	27873033	27873033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagaattttatgcaagaatCgatggcacaatactggaaga	16	9	9	7	1	0	3	0	0	0	3	1	5	0	4	1	2	2	2	1	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:27873033C>T	uc010ymc.1	+	14	1154	c.1133C>T	c.(1132-1134)TCG>TTG	p.S378L	GPN1_uc010ezf.2_Missense_Mutation_p.S352L|GPN1_uc010yma.1_Missense_Mutation_p.S285L|GPN1_uc010ymb.1_Missense_Mutation_p.S269L|GPN1_uc010ymd.1_Missense_Mutation_p.S259L|GPN1_uc010yme.1_3'UTR	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	364						cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						ATGCAAGAATCGATGGCACAA	0.388													12	45					0	0	1	0	0		T	27873033	T	T	27873033	3	4	89	1	0	0	0	0	1	0	0	0	6632	893	31	1	1270	1	GPN1	2	27873033	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	69167	27873033	215326340	838	54669											
PLB1	151056	broad.mit.edu	37	chr2	28843160	28843160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gggagctcgaccaaacaactCcagtgacctacccacatctt	12	7	7	15	1	1	1	0	1	1	0	3	3	2	2	4	1	4	1	4	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:28843160C>T	uc002rmb.1	+	47	3344	c.3344C>T	c.(3343-3345)TCC>TTC	p.S1115F	PLB1_uc010ezj.1_Missense_Mutation_p.S1104F|PLB1_uc002rme.1_Missense_Mutation_p.S80F|PLB1_uc002rmf.1_RNA	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	1115	4 X 308-326 AA approximate repeats.|Extracellular (Potential).|4.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					CCAAACAACTCCAGTGACCTA	0.517													8	19					0	0	1	0	0		T	28843160	T	T	28843160	3	4	89	1	0	0	0	0	1	0	0	0	12043	855	30	4	3563	4	PLB1	2	28843160	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	970127	28843160	214356213	839	54670											
WDR43	23160	broad.mit.edu	37	chr2	29152516	29152516	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaaggaagacctccagacGaatagctttccagttcttct	12	10	9	10	1	2	2	0	0	2	2	4	5	4	4	3	2	1	2	3	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:29152516G>A	uc002rmo.2	+	11	1409	c.1377G>A	c.(1375-1377)ACG>ACA	p.T459T		NM_015131	NP_055946	Q15061	WDR43_HUMAN	WD repeat domain 43	459						nucleolus				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					ACCTCCAGACGAATAGCTTTC	0.353													12	39					0	0	1	0	0		A	29152516	A	A	29152516	2	1	89	1	0	0	0	0	0	0	0	1	17321	1045	37	1		1	WDR43	2	29152516	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	309356	29152516	214046857	840	54671											
C2orf71	388939	broad.mit.edu	37	chr2	29295831	29295831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcttgtactggagaggcatgGgctccttgcttcgtcctgtg	4	13	14	10	1	0	1	0	0	0	1	3	2	2	1	2	3	2	5	2	3	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:29295831G>A	uc002rmt.1	-	1	1297	c.1297C>T	c.(1297-1299)CCA>TCA	p.P433S		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	433					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						GAGAGGCATGGGCTCCTTGCT	0.562													39	58					0	0	1	0	0		A	29295831	A	A	29295831	3	1	89	1	0	0	0	0	1	0	0	0	2194	1232	43	4	2577	4	C2orf71	2	29295831	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	143315	29295831	213903542	841	54672											
C2orf71	388939	broad.mit.edu	37	chr2	29296217	29296217	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttattttccaagtgggttGcagtggagtggaggtagctg	7	13	16	5	0	0	0	0	0	0	0	1	2	1	2	1	4	2	5	1	4	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:29296217G>T	uc002rmt.1	-	1	911	c.911C>A	c.(910-912)GCA>GAA	p.A304E		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	304					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						CAAGTGGGTTGCAGTGGAGTG	0.582													47	96					1.81118e-26	2.19096e-26	1	1	0		T	29296217	T	T	29296217	3	4	89	1	0	0	0	0	1	0	0	0	2194	1319	46	5	2963	5	C2orf71	2	29296217	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	386	29296217	213903156	842	54673											
CLIP4	79745	broad.mit.edu	37	chr2	29356672	29356672	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagtgattttgaaaacatcGaaaccaaaaggcaagtatta	19	9	8	5	1	0	3	0	2	0	1	1	4	0	3	1	1	2	2	1	1	8	4	rs150045383		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:29356672G>A	uc002rmv.2	+	5	758	c.519G>A	c.(517-519)TCG>TCA	p.S173S	CLIP4_uc002rmu.2_Silent_p.S173S|CLIP4_uc010ezm.1_Silent_p.S173S|CLIP4_uc002rmw.2_RNA|CLIP4_uc010ymn.1_Silent_p.S155S	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	173	ANK 2.									ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TGAAAACATCGAAACCAAAAG	0.328													23	45					0	0	1	0	0		A	29356672	A	A	29356672	2	1	89	1	0	0	0	0	0	0	0	1	3538	1045	37	1		1	CLIP4	2	29356672	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	60455	29356672	213842701	843	54674											
CLIP4	79745	broad.mit.edu	37	chr2	29404458	29404458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcgaaagctgctttgcgtcGcagttggagcagcaccccca	9	8	11	13	3	0	0	0	0	0	0	2	2	0	1	2	1	5	6	2	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:29404458G>A	uc002rmv.2	+	16	2056	c.1817G>A	c.(1816-1818)CGC>CAC	p.R606H	CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	606										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					GCTTTGCGTCGCAGTTGGAGC	0.527													28	45					0	0	1	0	0		A	29404458	A	A	29404458	3	1	89	1	0	0	0	0	1	0	0	0	3538	1087	38	1	1875	1	CLIP4	2	29404458	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	47786	29404458	213794915	844	54675											
CLIP4	79745	broad.mit.edu	37	chr2	29404707	29404707	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcttagttcgaccgagcaGagtgacctatcggggaatta	11	10	12	8	3	1	2	0	1	1	1	3	5	1	3	2	2	1	2	2	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:29404707G>T	uc002rmv.2	+	16	2305	c.2066G>T	c.(2065-2067)AGA>ATA	p.R689I	CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	689										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					CGACCGAGCAGAGTGACCTAT	0.408													46	100					1.81118e-26	2.19096e-26	1	1	0		T	29404707	T	T	29404707	3	4	89	1	0	0	0	0	1	0	0	0	3538	942	33	5	2124	5	CLIP4	2	29404707	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	249	29404707	213794666	845	54676											
ALK	238	broad.mit.edu	37	chr2	29754886	29754886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgcaggtgcctgtgcaccGagacggccagtgtgcagtgc	6	7	16	12	2	0	1	0	0	0	1	0	2	0	1	3	2	5	4	3	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:29754886G>A	uc002rmy.2	-	4	1956	c.1049C>T	c.(1048-1050)TCG>TTG	p.S350L		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	350	MAM 1.|Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	CCTGTGCACCGAGACGGCCAG	0.602			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				27	80					0	0	1	0	0		A	29754886	A	A	29754886	3	1	89	1	0	0	0	0	1	0	0	0	525	1059	37	1	3917	1	ALK	2	29754886	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	350179	29754886	213444487	846	54677											
LBH	81606	broad.mit.edu	37	chr2	30480466	30480466	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gataactgcgaagagacagcGaaagaaaataaagagcagta	21	4	11	5	2	0	3	0	0	0	3	0	7	0	3	0	0	4	2	0	0	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:30480466G>A	uc002rne.2	+	3	505	c.297G>A	c.(295-297)GCG>GCA	p.A99A		NM_030915	NP_112177	Q53QV2	LBH_HUMAN	limb bud and heart development homolog	99					multicellular organismal development|transcription, DNA-dependent	cytoplasm|nucleolus					0	Acute lymphoblastic leukemia(172;0.155)					AAGAGACAGCGAAAGAAAATA	0.542													17	36					0	0	1	0	0		A	30480466	A	A	30480466	2	1	89	1	0	0	0	0	0	0	0	1	8666	1045	37	1		1	LBH	2	30480466	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	725580	30480466	212718907	847	54678											
GALNT14	79623	broad.mit.edu	37	chr2	31168724	31168724	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcgatcacagggcacaccaCccgcgtgtagtcctgtaaga	11	7	10	13	3	1	1	1	0	0	1	3	2	2	1	3	1	0	3	3	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:31168724C>A	uc002rnr.2	-	7	1286	c.667G>T	c.(667-669)GTG>TTG	p.V223L	GALNT14_uc002rnq.2_Missense_Mutation_p.V203L|GALNT14_uc002rns.2_Missense_Mutation_p.V228L|GALNT14_uc010ymr.1_Missense_Mutation_p.V188L|GALNT14_uc010ezo.1_Missense_Mutation_p.V190L|GALNT14_uc010ezp.1_Intron	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	223	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					GGGCACACCACCCGCGTGTAG	0.398													23	43					3.5997e-14	4.05566e-14	1	1	0		A	31168724	A	A	31168724	3	1	89	1	0	0	0	0	1	0	0	0	6227	507	18	5	1027	5	GALNT14	2	31168724	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	688258	31168724	212030649	848	54679											
XDH	7498	broad.mit.edu	37	chr2	31590912	31590912	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccataaaaggagttgttCtttatagcatcctgaggatc	11	13	10	7	0	1	1	0	1	1	0	4	3	3	3	2	3	1	3	2	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:31590912C>A	uc002rnv.1	-	20	2191	c.2112G>T	c.(2110-2112)AAG>AAT	p.K704N		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	704					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	AGGAGTTGTTCTTTATAGCAT	0.428													46	87					2.56175e-15	2.9151e-15	1	1	0		A	31590912	A	A	31590912	3	1	89	1	0	0	0	0	1	0	0	0	17452	912	32	5	1957	5	XDH	2	31590912	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	422188	31590912	211608461	849	54680											
MEMO1	51072	broad.mit.edu	37	chr2	32094943	32094943	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taacaccccaatgggatgtcTtccacatatagtattatggt	12	13	7	9	0	1	0	0	0	1	0	2	1	2	1	3	2	1	1	3	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32094943T>G	uc002rnx.2	-	8	1118	c.736A>C	c.(736-738)AGA>CGA	p.R246R	MEMO1_uc010ymu.1_Silent_p.R223R|MEMO1_uc010ezq.2_Silent_p.R246R|MEMO1_uc002rny.2_RNA|MEMO1_uc002rnz.2_RNA	NM_015955	NP_057039	Q9Y316	MEMO1_HUMAN	mediator of cell motility 1 isoform 1	246					regulation of microtubule-based process	cytosol|nucleus				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)					ATGGGATGTCTTCCACATATA	0.284													28	55					0	0	1	0	0		G	32094943	G	G	32094943	2	3	89	1	0	0	0	0	0	0	0	1	9489	1617	56	5		5	MEMO1	2	32094943	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	504031	32094943	211104430	850	54681											
SPAST	6683	broad.mit.edu	37	chr2	32341202	32341202	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttagtggaacagctgttaAatttgatgatatagctggtc	11	15	10	5	0	1	2	0	2	1	0	2	3	1	3	0	2	3	3	0	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32341202A>C	uc002roc.2	+	7	1240	c.1019A>C	c.(1018-1020)AAA>ACA	p.K340T	SPAST_uc002rod.2_Missense_Mutation_p.K308T	NM_014946	NP_055761	Q9UBP0	SPAST_HUMAN	spastin isoform 1	340	Sufficient for microtubule severing.				cell cycle|cell death|cell differentiation|cytokinesis, completion of separation|ER to Golgi vesicle-mediated transport|microtubule bundle formation|microtubule severing|nervous system development|protein hexamerization|protein homooligomerization	endoplasmic reticulum|endosome|integral to membrane|microtubule|microtubule organizing center|nucleus|perinuclear region of cytoplasm|spindle	alpha-tubulin binding|ATP binding|beta-tubulin binding|microtubule binding|microtubule-severing ATPase activity			breast(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					ACAGCTGTTAAATTTGATGAT	0.373													21	50					0	0	1	0	0		C	32341202	C	C	32341202	3	2	89	1	0	0	0	0	1	0	0	0	15022	14	1	5	1045	5	SPAST	2	32341202	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	246259	32341202	210858171	851	54682											
SLC30A6	55676	broad.mit.edu	37	chr2	32399179	32399179	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaacttgatatgtactggCttcctgcttatgtggtgcag	9	15	10	7	0	0	1	0	1	0	0	1	1	1	1	1	2	4	4	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32399179C>T	uc002roe.1	+	3	175	c.138C>T	c.(136-138)GGC>GGT	p.G46G	SLC30A6_uc002rof.1_Silent_p.G46G|SLC30A6_uc010ymw.1_Silent_p.G17G|SLC30A6_uc010ezr.1_Silent_p.G46G|SLC30A6_uc002rog.1_5'UTR|SLC30A6_uc010ezs.1_Intron|SLC30A6_uc002roh.1_Intron	NM_017964	NP_060434	Q6NXT4	ZNT6_HUMAN	solute carrier family 30 (zinc transporter),	46	Helical; (Potential).					Golgi membrane|integral to membrane	zinc ion transmembrane transporter activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TATGTACTGGCTTCCTGCTTA	0.328													35	80					0	0	1	0	0		T	32399179	T	T	32399179	2	4	89	1	0	0	0	0	0	0	0	1	14584	784	28	2		2	SLC30A6	2	32399179	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	57977	32399179	210800194	852	54683											
NLRC4	58484	broad.mit.edu	37	chr2	32475614	32475614	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaatgacttgtgaaagaatTtatactttggcttgaacctt	12	15	9	5	0	0	4	0	3	0	1	0	5	0	5	1	2	2	1	1	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32475614T>G	uc002roi.2	-	4	1565	c.1319A>C	c.(1318-1320)AAA>ACA	p.K440T	NLRC4_uc002roj.1_Missense_Mutation_p.K440T|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	440	NACHT.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					GTGAAAGAATTTATACTTTGG	0.468													27	53					0	0	1	0	0		G	32475614	G	G	32475614	3	3	89	1	0	0	0	0	1	0	0	0	10488	1841	64	5	1779	5	NLRC4	2	32475614	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	76435	32475614	210723759	853	54684											
NLRC4	58484	broad.mit.edu	37	chr2	32475815	32475815	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttatgtttgtgtttgtttTtctgtatcaacagatcatag	8	21	7	5	0	3	1	2	0	1	1	3	1	3	1	0	0	1	4	0	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32475815T>G	uc002roi.2	-	4	1364	c.1118A>C	c.(1117-1119)AAA>ACA	p.K373T	NLRC4_uc002roj.1_Missense_Mutation_p.K373T|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	373	NACHT.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					GTGTTTGTTTTTCTGTATCAA	0.458													26	47					0	0	1	0	0		G	32475815	G	G	32475815	3	3	89	1	0	0	0	0	1	0	0	0	10488	1841	64	5	1980	5	NLRC4	2	32475815	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	201	32475815	210723558	854	54685											
YIPF4	84272	broad.mit.edu	37	chr2	32515614	32515614	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtggagattttatcaaaGaatctacagctactacattt	13	15	7	6	0	2	2	1	0	1	2	2	3	2	2	0	2	4	1	0	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32515614G>T	uc002rok.2	+	2	409	c.142G>T	c.(142-144)GAA>TAA	p.E48*		NM_032312	NP_115688	Q9BSR8	YIPF4_HUMAN	Yip1 domain family, member 4	48						endoplasmic reticulum|integral to membrane	protein binding				0	Acute lymphoblastic leukemia(172;0.155)					TTTTATCAAAGAATCTACAGC	0.368													37	79					6.97489e-18	8.11623e-18	1	1	0		T	32515614	T	T	32515614	4	4	89	1	0	0	0	0	0	1	0	0	17506	943	33	5	148	5	YIPF4	2	32515614	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	39799	32515614	210683759	855	54686											
BIRC6	57448	broad.mit.edu	37	chr2	32640623	32640623	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcggacatgccctgttgAatccttgagtgcaataaatc	11	11	9	10	1	0	2	0	2	0	0	2	3	1	3	2	1	3	2	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32640623A>C	uc010ezu.2	+	10	2398	c.2264A>C	c.(2263-2265)GAA>GCA	p.E755A		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	755					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					TGCCCTGTTGAATCCTTGAGT	0.393													20	59					0	0	1	0	0		C	32640623	C	C	32640623	3	2	89	1	0	0	0	0	1	0	0	0	1439	246	9	5	2302	5	BIRC6	2	32640623	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	125009	32640623	210558750	856	54687											
BIRC6	57448	broad.mit.edu	37	chr2	32715152	32715152	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttagcttggtatcccaatActttgctccggacatggtgc	7	14	10	10	1	0	0	0	0	0	0	2	1	2	1	2	3	4	4	2	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32715152A>C	uc010ezu.2	+	43	8274	c.8140A>C	c.(8140-8142)ACT>CCT	p.T2714P		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	2714					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					GTATCCCAATACTTTGCTCCG	0.343													60	121					0	0	1	0	0		C	32715152	C	C	32715152	3	2	89	1	0	0	0	0	1	0	0	0	1439	391	14	5	8310	5	BIRC6	2	32715152	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	74529	32715152	210484221	857	54688											
BIRC6	57448	broad.mit.edu	37	chr2	32750029	32750029	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaaccatgaagagaaaGaaaaagttaaagcggaaaat	25	4	9	3	1	0	4	0	1	0	3	0	6	0	5	1	1	2	1	1	1	10	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32750029G>T	uc010ezu.2	+	58	11832	c.11698G>T	c.(11698-11700)GAA>TAA	p.E3900*		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3900					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					TGAAGAGAAAGAAAAAGTTAA	0.294													3	6					0.115264	0.115603	1	1	0		T	32750029	T	T	32750029	4	4	89	1	0	0	0	0	0	1	0	0	1439	943	33	5	11928	5	BIRC6	2	32750029	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	34877	32750029	210449344	858	54689											
BIRC6	57448	broad.mit.edu	37	chr2	32754810	32754810	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaccgctcaatagatctgActgttaaattgggatcaaga	13	12	9	7	1	3	3	2	1	1	2	3	4	3	4	1	1	1	3	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32754810A>C	uc010ezu.2	+	60	12147	c.12013A>C	c.(12013-12015)ACT>CCT	p.T4005P	MIR558_hsa-mir-558|MI0003564_5'Flank	NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4005					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					AATAGATCTGACTGTTAAATT	0.398													21	40					0	0	1	0	0		C	32754810	C	C	32754810	3	2	89	1	0	0	0	0	1	0	0	0	1439	275	10	5	12251	5	BIRC6	2	32754810	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4781	32754810	210444563	859	54690											
BIRC6	57448	broad.mit.edu	37	chr2	32768549	32768549	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagtgctactgaaagagaGaaaacatgcccagtgccttc	14	7	11	9	0	0	3	0	1	0	2	1	5	0	4	2	1	5	1	2	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32768549G>T	uc010ezu.2	+	62	12667	c.12533G>T	c.(12532-12534)AGA>ATA	p.R4178I		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4178					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					CTGAAAGAGAGAAAACATGCC	0.423													72	98					5.80444e-35	7.15898e-35	1	1	0		T	32768549	T	T	32768549	3	4	89	1	0	0	0	0	1	0	0	0	1439	942	33	5	12779	5	BIRC6	2	32768549	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13739	32768549	210430824	860	54691											
BIRC6	57448	broad.mit.edu	37	chr2	32820140	32820140	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaagaaggcggctatgaAacccaaacctttgtcagtat	13	9	8	11	1	1	2	1	1	0	1	2	2	2	2	3	2	2	2	3	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32820140A>C	uc010ezu.2	+	68	13675	c.13541A>C	c.(13540-13542)AAA>ACA	p.K4514T		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4514					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					GCGGCTATGAAACCCAAACCT	0.239													14	37					0	0	1	0	0		C	32820140	C	C	32820140	3	2	89	1	0	0	0	0	1	0	0	0	1439	14	1	5	13811	5	BIRC6	2	32820140	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	51591	32820140	210379233	861	54692											
TTC27	55622	broad.mit.edu	37	chr2	32983575	32983575	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgaacgctcggttaagattAatcccatgcaggttagacaa	13	10	9	9	3	0	2	0	0	0	2	3	3	1	2	1	2	2	4	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:32983575A>C	uc002rom.2	+	13	1900	c.1669A>C	c.(1669-1671)AAT>CAT	p.N557H	TTC27_uc010ymx.1_Missense_Mutation_p.N507H|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	557	TPR 3.|HAT 1.						protein binding			central_nervous_system(1)	1						GGTTAAGATTAATCCCATGCA	0.483													20	31					0	0	1	0	0		C	32983575	C	C	32983575	3	2	89	1	0	0	0	0	1	0	0	0	16721	362	13	5	1719	5	TTC27	2	32983575	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	163435	32983575	210215798	862	54693											
TTC27	55622	broad.mit.edu	37	chr2	33002962	33002962	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgcagctcggggtgtggtTttctctcggttgtgcctatt	2	18	13	8	2	1	0	0	0	1	0	4	0	1	0	1	4	3	4	1	4	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:33002962T>G	uc002rom.2	+	14	1925	c.1694T>G	c.(1693-1695)TTT>TGT	p.F565C	TTC27_uc010ymx.1_Missense_Mutation_p.F515C|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	565	HAT 1.|TPR 4.						protein binding			central_nervous_system(1)	1						GGGGTGTGGTTTTCTCTCGGT	0.398													14	45					0	0	1	0	0		G	33002962	G	G	33002962	3	3	89	1	0	0	0	0	1	0	0	0	16721	1841	64	5	1748	5	TTC27	2	33002962	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	19387	33002962	210196411	863	54694											
RASGRP3	25780	broad.mit.edu	37	chr2	33745024	33745024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttaactggtttacgtatcGaaatgccactggagaaagct	12	12	9	8	2	0	1	0	0	0	1	1	3	0	1	1	2	4	3	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:33745024G>A	uc002rox.2	+	6	806	c.179G>A	c.(178-180)CGA>CAA	p.R60Q	RASGRP3_uc010ync.1_Missense_Mutation_p.R60Q|RASGRP3_uc002roy.2_Missense_Mutation_p.R60Q	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	60	N-terminal Ras-GEF.				MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					TTTACGTATCGAAATGCCACT	0.368													3	9					0	0	1	0	0		A	33745024	A	A	33745024	3	1	89	1	0	0	0	0	1	0	0	0	13101	1058	37	1	189	1	RASGRP3	2	33745024	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	742062	33745024	209454349	864	54695											
STRN	6801	broad.mit.edu	37	chr2	37152306	37152306	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcacaagatccttcttcaAattttcttggcccttccttt	7	17	3	14	0	4	1	2	0	2	1	6	1	6	1	4	1	0	0	4	1	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:37152306A>C	uc002rpn.2	-	2	289	c.280T>G	c.(280-282)TTG>GTG	p.L94V	STRN_uc010ezx.2_Missense_Mutation_p.L94V	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	94	Potential.				dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				TCCTTCTTCAAATTTTCTTGG	0.353													32	85					0	0	1	0	0		C	37152306	C	C	37152306	3	2	89	1	0	0	0	0	1	0	0	0	15354	11	1	5	2130	5	STRN	2	37152306	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3407282	37152306	206047067	865	54696											
SULT6B1	391365	broad.mit.edu	37	chr2	37410583	37410583	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaccttggctttattctcGaagatagacccaggtaattt	10	14	7	10	1	2	2	1	0	1	2	3	3	2	2	2	2	0	2	2	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:37410583G>A	uc002rpu.2	-	3	294	c.273C>T	c.(271-273)TTC>TTT	p.F91F	SULT6B1_uc010yni.1_RNA	NM_001032377	NP_001027549	Q6IMI4	ST6B1_HUMAN	sulfotransferase family, cytosolic, 6B, member	129						cytoplasm	sulfotransferase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(82;0.248)				CTTTATTCTCGAAGATAGACC	0.348													29	66					0	0	1	0	0		A	37410583	A	A	37410583	2	1	89	1	0	0	0	0	0	0	0	1	15409	1049	37	1		1	SULT6B1	2	37410583	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	258277	37410583	205788790	866	54697											
C2orf56	55471	broad.mit.edu	37	chr2	37459390	37459390	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgagtacatgaaggaggTgttgactaatccagccaagg	12	7	14	8	1	0	2	0	2	0	0	1	4	1	3	3	4	2	2	3	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:37459390T>C	uc002rqa.3	+	2	272	c.197T>C	c.(196-198)GTG>GCG	p.V66A	CEBPZ_uc002rpz.2_5'Flank|C2orf56_uc010ynj.1_RNA|C2orf56_uc002rqc.3_Missense_Mutation_p.V66A|C2orf56_uc010ynk.1_Missense_Mutation_p.V66A|C2orf56_uc010ynl.1_Missense_Mutation_p.V66A	NM_144736	NP_653337	Q7L592	MIDA_HUMAN	hypothetical protein LOC55471 isoform 1	66					mitochondrial respiratory chain complex I assembly	mitochondrion	enzyme binding|methyltransferase activity			central_nervous_system(1)	1		all_hematologic(82;0.21)				ATGAAGGAGGTGTTGACTAAT	0.547													35	100					0	0	1	0	0		C	37459390	C	C	37459390	3	2	89	1	0	0	0	0	1	0	0	0	2180	1696	59	3	203	3	C2orf56	2	37459390	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	48807	37459390	205739983	867	54698											
C2orf56	55471	broad.mit.edu	37	chr2	37471104	37471104	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttctgccaccccagcagaAgccttcatacaagtaagaat	13	8	6	14	0	2	2	1	0	1	2	2	2	2	2	5	0	4	2	5	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:37471104A>C	uc002rqa.3	+	7	855	c.780A>C	c.(778-780)GAA>GAC	p.E260D	C2orf56_uc010ynj.1_RNA|C2orf56_uc002rqc.3_Missense_Mutation_p.E162D|C2orf56_uc010ynk.1_Missense_Mutation_p.E189D|C2orf56_uc010ynl.1_Missense_Mutation_p.E233D|C2orf56_uc010fah.2_RNA	NM_144736	NP_653337	Q7L592	MIDA_HUMAN	hypothetical protein LOC55471 isoform 1	260					mitochondrial respiratory chain complex I assembly	mitochondrion	enzyme binding|methyltransferase activity			central_nervous_system(1)	1		all_hematologic(82;0.21)				CCCCAGCAGAAGCCTTCATAC	0.373													17	23					0	0	1	0	0		C	37471104	C	C	37471104	3	2	89	1	0	0	0	0	1	0	0	0	2180	69	3	5	806	5	C2orf56	2	37471104	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	11714	37471104	205728269	868	54699											
PRKD3	23683	broad.mit.edu	37	chr2	37513463	37513463	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttccatccagattgggCgaccactccaagaaggaatt	11	11	8	11	1	1	2	0	0	1	2	4	4	4	3	4	2	0	0	4	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:37513463C>T	uc002rqd.2	-	5	1322	c.767G>A	c.(766-768)CGC>CAC	p.R256H	PRKD3_uc002rqf.1_Missense_Mutation_p.R256H	NM_005813	NP_005804	O94806	KPCD3_HUMAN	protein kinase D3	256					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(2)|ovary(1)|central_nervous_system(1)	4		all_hematologic(82;0.21)				CCAGATTGGGCGACCACTCCA	0.403													21	54					0	0	1	0	0		T	37513463	T	T	37513463	3	4	89	1	0	0	0	0	1	0	0	0	12542	768	27	1	1961	1	PRKD3	2	37513463	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	42359	37513463	205685910	869	54700											
PRKD3	23683	broad.mit.edu	37	chr2	37543449	37543449	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttcctgggcttcaatggtAacactctcccgtgtgaggcc	7	11	11	12	1	2	1	1	1	1	0	4	1	3	1	3	3	1	3	3	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:37543449A>C	uc002rqd.2	-	1	774	c.219T>G	c.(217-219)GTT>GTG	p.V73V	PRKD3_uc002rqf.1_Silent_p.V73V	NM_005813	NP_005804	O94806	KPCD3_HUMAN	protein kinase D3	73					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(2)|ovary(1)|central_nervous_system(1)	4		all_hematologic(82;0.21)				CTTCAATGGTAACACTCTCCC	0.433													74	137					0	0	1	0	0		C	37543449	C	C	37543449	2	2	89	1	0	0	0	0	0	0	0	1	12542	349	13	5		5	PRKD3	2	37543449	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	29986	37543449	205655924	870	54701											
GALM	130589	broad.mit.edu	37	chr2	38956751	38956751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgagaaagccagtggagCttggaaaacacctgcaggac	14	5	12	10	0	0	1	0	1	0	1	0	5	0	4	3	3	4	2	3	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:38956751C>T	uc002rqy.2	+	5	940	c.688C>T	c.(688-690)CTT>TTT	p.L230F		NM_138801	NP_620156	Q96C23	GALM_HUMAN	galactose mutarotase	230					hexose metabolic process	cytoplasm	aldose 1-epimerase activity|carbohydrate binding				0		all_hematologic(82;0.248)				GCCAGTGGAGCTTGGAAAACA	0.453													34	88					0	0	1	0	0		T	38956751	T	T	38956751	3	4	89	1	0	0	0	0	1	0	0	0	6220	797	28	2	706	2	GALM	2	38956751	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1413302	38956751	204242622	871	54702											
GALM	130589	broad.mit.edu	37	chr2	38959022	38959022	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccggtttctgcctggagActcagaactggcctgatgca	8	10	11	12	1	2	3	1	1	1	2	3	4	3	3	3	3	3	2	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:38959022A>G	uc002rqy.2	+	6	1174	c.922A>G	c.(922-924)ACT>GCT	p.T308A		NM_138801	NP_620156	Q96C23	GALM_HUMAN	galactose mutarotase	308					hexose metabolic process	cytoplasm	aldose 1-epimerase activity|carbohydrate binding				0		all_hematologic(82;0.248)				CTGCCTGGAGACTCAGAACTG	0.522													26	45					0	0	1	0	0		G	38959022	G	G	38959022	3	3	89	1	0	0	0	0	1	0	0	0	6220	275	10	3	944	3	GALM	2	38959022	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2271	38959022	204240351	872	54703											
SOS1	6654	broad.mit.edu	37	chr2	39281904	39281904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgaggtggaaggctcttCgtcagttaaagataatatat	12	13	10	6	1	2	2	1	1	1	1	4	3	3	3	1	3	0	2	1	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:39281904C>T	uc002rrk.3	-	5	612	c.571G>A	c.(571-573)GAA>AAA	p.E191K	SOS1_uc010ynr.1_RNA|SOS1_uc002rrl.2_5'Flank	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	191					apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				GAAGGCTCTTCGTCAGTTAAA	0.279									Noonan_syndrome				51	109					0	0	1	0	0		T	39281904	T	T	39281904	3	4	89	1	0	0	0	0	1	0	0	0	14961	893	31	1	3506	1	SOS1	2	39281904	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	322882	39281904	203917469	873	54704											
MAP4K3	8491	broad.mit.edu	37	chr2	39492390	39492390	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcaacccattctaatagaAcaatgctagtctgaagtgct	13	12	7	9	0	3	2	1	1	2	1	3	2	3	2	1	0	4	3	1	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:39492390A>C	uc002rro.2	-	28	2181	c.2090T>G	c.(2089-2091)GTT>GGT	p.V697G	MAP4K3_uc002rrp.2_Missense_Mutation_p.V676G|MAP4K3_uc010yns.1_Missense_Mutation_p.V250G	NM_003618	NP_003609	Q8IVH8	M4K3_HUMAN	mitogen-activated protein kinase kinase kinase	697	CNH.				JNK cascade		ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(3)|lung(3)|stomach(1)|pancreas(1)	8		all_hematologic(82;0.211)				TTCTAATAGAACAATGCTAGT	0.318													56	127					0	0	1	0	0		C	39492390	C	C	39492390	3	2	89	1	0	0	0	0	1	0	0	0	9279	43	2	5	622	5	MAP4K3	2	39492390	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	210486	39492390	203706983	874	54705											
SLC8A1	6546	broad.mit.edu	37	chr2	40405582	40405582	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatctcaaggaagaaggtCttgtttttctcatactcctc	10	14	6	11	0	3	1	2	0	3	1	7	2	4	2	2	2	1	1	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:40405582C>A	uc002rrx.2	-	2	1884	c.1860G>T	c.(1858-1860)AAG>AAT	p.K620N	uc002rrw.2_Intron|SLC8A1_uc002rry.2_Missense_Mutation_p.K620N|SLC8A1_uc002rrz.2_Intron|SLC8A1_uc002rsa.2_Intron|SLC8A1_uc002rsd.3_Intron|SLC8A1_uc002rsb.1_Intron	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	620	Calx-beta 2.|Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	GGAAGAAGGTCTTGTTTTTCT	0.483													71	181					6.20995e-33	7.62698e-33	1	1	0		A	40405582	A	A	40405582	3	1	89	1	0	0	0	0	1	0	0	0	14731	912	32	5	1205	5	SLC8A1	2	40405582	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	913192	40405582	202793791	875	54706											
SLC8A1	6546	broad.mit.edu	37	chr2	40655689	40655689	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccacctctggcagtcccttCgatggttttatatggaacga	8	13	9	11	2	1	0	0	0	1	0	4	3	3	1	3	3	1	2	3	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:40655689C>T	uc002rrx.2	-	1	1756	c.1732G>A	c.(1732-1734)GAA>AAA	p.E578K	SLC8A1_uc002rry.2_Missense_Mutation_p.E578K|SLC8A1_uc002rrz.2_Missense_Mutation_p.E578K|SLC8A1_uc002rsa.2_Missense_Mutation_p.E578K|SLC8A1_uc002rsd.3_Missense_Mutation_p.E578K|SLC8A1_uc002rsb.1_Missense_Mutation_p.E578K|SLC8A1_uc010fan.1_Missense_Mutation_p.E578K|SLC8A1_uc002rsc.1_Missense_Mutation_p.E578K	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	578	Calx-beta 2.|Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	GCAGTCCCTTCGATGGTTTTA	0.418													30	65					0	0	1	0	0		T	40655689	T	T	40655689	3	4	89	1	0	0	0	0	1	0	0	0	14731	893	31	1	1337	1	SLC8A1	2	40655689	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	250107	40655689	202543684	876	54707											
SLC8A1	6546	broad.mit.edu	37	chr2	40656049	40656049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacagttccttcagtaaattCataatcagacccagcatttg	13	12	5	11	0	3	1	3	0	0	1	4	1	4	1	2	0	1	3	2	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:40656049C>T	uc002rrx.2	-	1	1396	c.1372G>A	c.(1372-1374)GAA>AAA	p.E458K	SLC8A1_uc002rry.2_Missense_Mutation_p.E458K|SLC8A1_uc002rrz.2_Missense_Mutation_p.E458K|SLC8A1_uc002rsa.2_Missense_Mutation_p.E458K|SLC8A1_uc002rsd.3_Missense_Mutation_p.E458K|SLC8A1_uc002rsb.1_Missense_Mutation_p.E458K|SLC8A1_uc010fan.1_Missense_Mutation_p.E458K|SLC8A1_uc002rsc.1_Missense_Mutation_p.E458K	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	458	Calx-beta 1.|Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	TCAGTAAATTCATAATCAGAC	0.423													33	56					0	0	1	0	0		T	40656049	T	T	40656049	3	4	89	1	0	0	0	0	1	0	0	0	14731	835	29	4	1697	4	SLC8A1	2	40656049	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	360	40656049	202543324	877	54708											
KCNG3	170850	broad.mit.edu	37	chr2	42720290	42720290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaggtgtcggacatgcggtCgtcgaggcggcgctggcagc	5	7	19	10	6	0	0	0	0	0	0	3	2	0	1	0	6	2	3	0	6	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:42720290C>T	uc002rsn.2	-	1	948	c.352G>A	c.(352-354)GAC>AAC	p.D118N	MTA3_uc002rso.1_5'Flank|KCNG3_uc002rsm.2_Missense_Mutation_p.D118N	NM_133329	NP_579875	Q8TAE7	KCNG3_HUMAN	potassium voltage-gated channel, subfamily G,	118	Cytoplasmic (Potential).					endoplasmic reticulum|voltage-gated potassium channel complex	protein binding			central_nervous_system(1)	1						GACATGCGGTCGTCGAGGCGG	0.711													9	18					0	0	1	0	0		T	42720290	T	T	42720290	3	4	89	1	0	0	0	0	1	0	0	0	8045	884	31	1	966	1	KCNG3	2	42720290	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2064241	42720290	200479083	878	54709											
THADA	63892	broad.mit.edu	37	chr2	43779352	43779352	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaatccttactttagagatAacttctgcaaagctcctgtt	12	14	6	9	0	1	1	0	0	1	1	3	3	3	1	2	0	4	3	2	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:43779352A>C	uc002rsw.3	-	18	3153	c.2801T>G	c.(2800-2802)TTA>TGA	p.L934*	THADA_uc010far.2_Nonsense_Mutation_p.L203*|THADA_uc002rsx.3_Nonsense_Mutation_p.L934*|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Nonsense_Mutation_p.L644*|THADA_uc010fat.1_Nonsense_Mutation_p.L82*|THADA_uc002rta.2_Nonsense_Mutation_p.L644*|THADA_uc002rtb.1_Nonsense_Mutation_p.L934*	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	934							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				CTTTAGAGATAACTTCTGCAA	0.453													14	19					0	0	1	0	0		C	43779352	C	C	43779352	4	2	89	1	0	0	0	0	0	1	0	0	15865	372	13	5	3144	5	THADA	2	43779352	Nonsense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1059062	43779352	199420021	879	54710											
LOC728819	728819	broad.mit.edu	37	chr2	43903013	43903013	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaaggtactttaaatttTcaatgacagcaaacgtagtg	17	11	7	6	1	1	1	1	1	0	0	1	1	1	1	0	1	3	3	0	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:43903013T>G	uc010fav.1	-	1	449	c.449A>C	c.(448-450)GAA>GCA	p.E150A	PLEKHH2_uc002rte.3_Intron|PLEKHH2_uc002rtf.3_Intron|PLEKHH2_uc010yny.1_Intron	NM_001101330	NP_001094800			C1GALT1-specific chaperone 1-like												0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CTTTAAATTTTCAATGACAGC	0.433													109	195					0	0	1	0	0		G	43903013	G	G	43903013	3	3	89	1	0	0	0	0	1	0	0	0	8905	1783	62	5	502	5	LOC728819	2	43903013	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	123661	43903013	199296360	880	54711											
LRPPRC	10128	broad.mit.edu	37	chr2	44153069	44153069	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctgtcacaaaaccactgaAgccttgcagatcgagctcta	13	9	7	12	1	3	2	1	1	2	1	4	3	3	2	2	0	4	2	2	0	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:44153069A>C	uc002rtr.2	-	26	2826	c.2768T>G	c.(2767-2769)CTT>CGT	p.L923R	LRPPRC_uc010yob.1_Missense_Mutation_p.L823R	NM_133259	NP_573566	P42704	LPPRC_HUMAN	leucine-rich PPR motif-containing protein	923					mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				AAACCACTGAAGCCTTGCAGA	0.398													20	42					0	0	1	0	0		C	44153069	C	C	44153069	3	2	89	1	0	0	0	0	1	0	0	0	8983	72	3	5	1468	5	LRPPRC	2	44153069	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	250056	44153069	199046304	881	54712											
SLC3A1	6519	broad.mit.edu	37	chr2	44539839	44539839	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctataacttactatggagaaGaaattggaatgggaaatatt	17	12	9	3	0	0	2	0	0	0	2	0	5	0	4	0	3	2	0	0	3	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:44539839G>T	uc002ruc.3	+	8	1525	c.1447G>T	c.(1447-1449)GAA>TAA	p.E483*	SLC3A1_uc002rtz.2_Nonsense_Mutation_p.E483*|SLC3A1_uc002rua.2_Nonsense_Mutation_p.E483*|SLC3A1_uc002rub.2_Nonsense_Mutation_p.E483*|SLC3A1_uc002rud.3_Nonsense_Mutation_p.E205*|SLC3A1_uc002rue.3_Nonsense_Mutation_p.E103*	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	483	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	CTATGGAGAAGAAATTGGAAT	0.388													22	38					6.33239e-15	7.18091e-15	1	1	0		T	44539839	T	T	44539839	4	4	89	1	0	0	0	0	0	1	0	0	14651	943	33	5	1477	5	SLC3A1	2	44539839	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	386770	44539839	198659534	882	54713											
C2orf34	79823	broad.mit.edu	37	chr2	44999207	44999207	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacccggacatatatgaagaAaaccttcattacccgcttct	14	10	5	12	2	2	2	1	1	1	1	2	3	2	3	3	1	3	1	3	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:44999207A>C	uc002rum.2	+	11	1031	c.927A>C	c.(925-927)GAA>GAC	p.E309D		NM_024766	NP_079042	Q7Z624	CMKMT_HUMAN	hypothetical protein LOC79823	309						cytoplasm	calmodulin-lysine N-methyltransferase activity				0		all_hematologic(82;0.0892)|Acute lymphoblastic leukemia(82;0.17)				TATATGAAGAAAACCTTCATT	0.343													40	56					0	0	1	0	0		C	44999207	C	C	44999207	3	2	89	1	0	0	0	0	1	0	0	0	2166	11	1	5	969	5	C2orf34	2	44999207	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	459368	44999207	198200166	883	54714											
SIX2	10736	broad.mit.edu	37	chr2	45235953	45235953	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcgcccaggggtcggccGcgcagcttctccgcctcgat	4	6	14	17	7	1	0	0	0	1	0	4	1	1	0	4	4	1	2	4	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:45235953G>A	uc002ruo.2	-	1	590	c.297C>T	c.(295-297)CGC>CGT	p.R99R	SIX2_uc002rup.2_Silent_p.R99R	NM_016932	NP_058628	Q9NPC8	SIX2_HUMAN	SIX homeobox 2	99						nucleus	sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				GGGGTCGGCCGCGCAGCTTCT	0.647													17	43					0	0	1	0	0		A	45235953	A	A	45235953	2	1	89	1	0	0	0	0	0	0	0	1	14372	1074	38	1		1	SIX2	2	45235953	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	236746	45235953	197963420	884	54715											
SRBD1	55133	broad.mit.edu	37	chr2	45645648	45645648	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgccattcaataatatttTtggccctgttggcattgagt	8	16	8	9	1	1	1	1	1	0	0	2	1	1	1	2	2	0	2	2	2	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:45645648T>G	uc002rus.2	-	18	2265	c.2189A>C	c.(2188-2190)AAA>ACA	p.K730T	SRBD1_uc010yoc.1_Missense_Mutation_p.K249T	NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	730					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			AATAATATTTTTGGCCCTGTT	0.378													41	54					0	0	1	0	0		G	45645648	G	G	45645648	3	3	89	1	0	0	0	0	1	0	0	0	15158	1841	64	5	814	5	SRBD1	2	45645648	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	409695	45645648	197553725	885	54716											
SRBD1	55133	broad.mit.edu	37	chr2	45812864	45812864	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatcatcattaaagagacgaAtgatgttggcacaaacccaa	17	9	7	8	1	2	2	2	1	0	1	2	4	2	2	1	1	1	2	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:45812864A>G	uc002rus.2	-	5	774	c.698T>C	c.(697-699)ATT>ACT	p.I233T		NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	233					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			AAAGAGACGAATGATGTTGGC	0.318													50	89					0	0	1	0	0		G	45812864	G	G	45812864	3	3	89	1	0	0	0	0	1	0	0	0	15158	101	4	3	2357	3	SRBD1	2	45812864	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	167216	45812864	197386509	886	54717											
MSH2	4436	broad.mit.edu	37	chr2	47710069	47710069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtaaatgaaatcatttcacGaataaaagttactacgtgaa	18	12	6	5	2	2	2	2	2	0	0	2	3	2	2	0	0	2	2	0	0	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:47710069G>A	uc002rvy.1	+	16	2854	c.2786G>A	c.(2785-2787)CGA>CAA	p.R929Q	MSH2_uc010yoh.1_Missense_Mutation_p.R863Q|MSH2_uc002rvz.2_Intron|MSH2_uc010fbg.2_Missense_Mutation_p.R739Q	NM_000251	NP_000242	P43246	MSH2_HUMAN	mutS homolog 2	929					B cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|double-strand break repair|intra-S DNA damage checkpoint|isotype switching|maintenance of DNA repeat elements|male gonad development|meiotic gene conversion|meiotic mismatch repair|negative regulation of neuron apoptosis|negative regulation of reciprocal meiotic recombination|positive regulation of helicase activity|postreplication repair|response to UV-B|response to X-ray|somatic hypermutation of immunoglobulin genes	MutSalpha complex|MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|guanine/thymine mispair binding|loop DNA binding|protein C-terminus binding|protein homodimerization activity|protein kinase binding|Y-form DNA binding	p.?(2)		large_intestine(33)|haematopoietic_and_lymphoid_tissue(6)|endometrium(4)|ovary(3)|cervix(2)|central_nervous_system(2)|stomach(1)|small_intestine(1)|breast(1)|skin(1)|prostate(1)	55		all_hematologic(82;0.0359)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ATCATTTCACGAATAAAAGTT	0.264			D|Mis|N|F|S		colorectal|endometrial|ovarian	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				20	25					0	0	1	0	0		A	47710069	A	A	47710069	3	1	89	1	0	0	0	0	1	0	0	0	9888	1058	37	1	2848	1	MSH2	2	47710069	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1897205	47710069	195489304	887	54718											
MSH6	2956	broad.mit.edu	37	chr2	48026079	48026079	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagctctaggaaggaaacGccctcagccaccaaacaagc	17	3	8	13	1	2	0	1	0	1	0	2	2	2	2	3	2	5	1	3	2	7	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:48026079G>A	uc002rwd.3	+	4	1109	c.957G>A	c.(955-957)ACG>ACA	p.T319T	MSH6_uc002rwc.2_Silent_p.T319T|MSH6_uc010fbj.2_Silent_p.T17T|MSH6_uc010yoi.1_Silent_p.T189T|MSH6_uc010yoj.1_Silent_p.T17T	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	319					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GGAAGGAAACGCCCTCAGCCA	0.463			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				106	211					0	0	1	0	0		A	48026079	A	A	48026079	2	1	89	1	0	0	0	0	0	0	0	1	9892	1074	38	1		1	MSH6	2	48026079	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	316010	48026079	195173294	888	54719											
FOXN2	3344	broad.mit.edu	37	chr2	48573716	48573716	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactcctttagtcttctcatTtatatggccattgagcactc	8	17	5	11	0	2	1	1	1	2	0	5	1	3	1	2	1	2	1	2	1	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:48573716T>G	uc002rwh.1	+	3	678	c.363T>G	c.(361-363)ATT>ATG	p.I121M		NM_002158	NP_002149	P32314	FOXN2_HUMAN	T-cell leukemia virus enhancer factor	121	Fork-head.				embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0272)|LUSC - Lung squamous cell carcinoma(58;0.036)			GTCTTCTCATTTATATGGCCA	0.418													75	162					0	0	1	0	0		G	48573716	G	G	48573716	3	3	89	1	0	0	0	0	1	0	0	0	6034	1829	64	5	365	5	FOXN2	2	48573716	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	547637	48573716	194625657	889	54720											
KLRAQ1	129285	broad.mit.edu	37	chr2	48734422	48734422	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttaggttccagatgtggaAtctcgtgaagacttaattaa	13	14	9	5	1	1	3	0	1	1	2	3	4	2	4	1	2	0	1	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:48734422A>C	uc002rwm.2	+	19	2168	c.1983A>C	c.(1981-1983)GAA>GAC	p.E661D	KLRAQ1_uc002rwl.2_Missense_Mutation_p.E615D|KLRAQ1_uc002rwk.2_Missense_Mutation_p.E650D|KLRAQ1_uc010yok.1_Missense_Mutation_p.E619D	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	661										ovary(1)	1						CAGATGTGGAATCTCGTGAAG	0.348													13	40					0	0	1	0	0		C	48734422	C	C	48734422	3	2	89	1	0	0	0	0	1	0	0	0	8429	98	4	5	2057	5	KLRAQ1	2	48734422	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	160706	48734422	194464951	890	54721											
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48809412	48809412	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggaacttcaggcttttgTcaacatggcctcattggcgc	7	12	11	11	2	3	0	3	0	0	0	3	1	3	1	1	4	2	1	1	4	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:48809412T>C	uc010yol.1	+	1	1687	c.1640T>C	c.(1639-1641)GTC>GCC	p.V547A	STON1_uc002rwo.3_Missense_Mutation_p.V547A|STON1_uc010fbm.2_Missense_Mutation_p.V547A|STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.V547A|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Missense_Mutation_p.V547A	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	547					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CAGGCTTTTGTCAACATGGCC	0.463													34	89					0	0	1	0	0		C	48809412	C	C	48809412	3	2	89	1	0	0	0	0	1	0	0	0	15342	1667	58	3	1642	3	STON1-GTF2A1L	2	48809412	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	74990	48809412	194389961	891	54722											
LHCGR	3973	broad.mit.edu	37	chr2	48915276	48915276	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccattaattctgggtttcGaactgcaaaataaattttaa	15	14	6	6	1	1	0	0	0	1	0	2	1	1	0	1	1	3	2	1	1	7	6	rs121912524		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:48915276G>A	uc002rwu.3	-	11	1730	c.1660C>T	c.(1660-1662)CGA>TGA	p.R554*	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	554	Cytoplasmic (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity	p.R554*(1)		ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	TCTGGGTTTCGAACTGCAAAA	0.368									Familial_Male-Limited_Precocious_Puberty				37	98					0	0	1	0	0		A	48915276	A	A	48915276	4	1	89	1	0	0	0	0	0	1	0	0	8778	1066	37	1	443	1	LHCGR	2	48915276	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	105864	48915276	194284097	892	54723											
FSHR	2492	broad.mit.edu	37	chr2	49216184	49216184	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtggatgtttatgttatcTtgaatgtcactagaagaaag	12	15	11	3	0	2	3	1	1	1	2	2	4	2	4	0	1	0	2	0	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:49216184T>G	uc002rww.2	-	6	530	c.456A>C	c.(454-456)CAA>CAC	p.Q152H	FSHR_uc002rwx.2_Missense_Mutation_p.Q152H|FSHR_uc010fbn.2_Intron|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	152	LRR 5.|Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	TTATGTTATCTTGAATGTCAC	0.363									Gonadal_Dysgenesis_46_XX				14	27					0	0	1	0	0		G	49216184	G	G	49216184	3	3	89	1	0	0	0	0	1	0	0	0	6087	1606	56	5	1651	5	FSHR	2	49216184	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	300908	49216184	193983189	893	54724											
NRXN1	9378	broad.mit.edu	37	chr2	50464092	50464092	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccaccacctttgctaaaGatatatgtcgtcccagctgg	9	12	8	12	1	0	1	0	0	0	1	3	1	2	1	4	1	2	2	4	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:50464092G>T	uc010fbp.2	-	2	1083	c.276C>A	c.(274-276)ATC>ATA	p.I92I	NRXN1_uc002rxb.3_Silent_p.I799I|NRXN1_uc010fbq.2_Silent_p.I1167I|NRXN1_uc002rxe.3_Silent_p.I1127I|NRXN1_uc002rxc.1_RNA	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	92	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CTTTGCTAAAGATATATGTCG	0.413													25	64					3.6726e-16	4.20841e-16	1	1	0		T	50464092	T	T	50464092	2	4	89	1	0	0	0	0	0	0	0	1	10684	932	33	5		5	NRXN1	2	50464092	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1247908	50464092	192735281	894	54725											
NRXN1	9378	broad.mit.edu	37	chr2	50779867	50779867	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatctcaatagcaaagaaGtccacctttatcatctgtgg	13	11	7	10	0	3	1	2	0	2	1	5	1	4	1	2	1	2	2	2	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:50779867G>T	uc010fbq.2	-	9	3214	c.1737C>A	c.(1735-1737)GAC>GAA	p.D579E	NRXN1_uc002rxb.3_Missense_Mutation_p.D211E|NRXN1_uc002rxe.3_Missense_Mutation_p.D539E|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	141	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TAGCAAAGAAGTCCACCTTTA	0.443													49	79					1.19451e-25	1.44158e-25	1	1	0		T	50779867	T	T	50779867	3	4	89	1	0	0	0	0	1	0	0	0	10684	1020	36	5	3229	5	NRXN1	2	50779867	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	315775	50779867	192419506	895	54726											
NRXN1	9378	broad.mit.edu	37	chr2	50850557	50850557	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgatcccaaattaatGaccagagagacagctccatt	13	8	7	13	0	0	4	0	2	0	2	2	5	2	4	5	0	1	1	5	0	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:50850557G>T	uc010fbq.2	-	6	2605	c.1128C>A	c.(1126-1128)GTC>GTA	p.V376V	NRXN1_uc002rxb.3_Silent_p.V23V|NRXN1_uc002rxe.3_Silent_p.V343V|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CCAAATTAATGACCAGAGAGA	0.443													39	100					1.52319e-26	1.84394e-26	1	1	0		T	50850557	T	T	50850557	2	4	89	1	0	0	0	0	0	0	0	1	10684	1277	45	5		5	NRXN1	2	50850557	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	70690	50850557	192348816	896	54727											
ERLEC1	27248	broad.mit.edu	37	chr2	54028678	54028678	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatctaagcatgaaattCtttcagtagctgaagttaca	14	13	7	7	0	3	3	1	3	2	0	3	3	3	3	0	0	3	4	0	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:54028678C>A	uc002rxl.2	+	7	950	c.670C>A	c.(670-672)CTT>ATT	p.L224I	ASB3_uc002rxi.3_Intron|ERLEC1_uc002rxm.2_Missense_Mutation_p.L224I|ERLEC1_uc002rxn.2_Missense_Mutation_p.L224I	NM_015701	NP_056516	Q96DZ1	ERLEC_HUMAN	erlectin isoform 1	224					ER-associated protein catabolic process	endoplasmic reticulum lumen	glycoprotein binding|protein binding			ovary(2)	2						GCATGAAATTCTTTCAGTAGC	0.378													32	41					5.45727e-16	6.24559e-16	1	1	0		A	54028678	A	A	54028678	3	1	89	1	0	0	0	0	1	0	0	0	5239	913	32	5	696	5	ERLEC1	2	54028678	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3178121	54028678	189170695	897	54728											
PSME4	23198	broad.mit.edu	37	chr2	54114544	54114544	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaactcagggacatgaggCgatatggttggtgtggtatt	10	12	15	4	1	1	1	1	1	0	0	1	3	1	2	0	5	1	3	0	5	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:54114544C>T	uc002rxp.2	-	40	4637	c.4581G>A	c.(4579-4581)TCG>TCA	p.S1527S	PSME4_uc010yop.1_Silent_p.S1413S|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Silent_p.S902S|PSME4_uc010fbv.1_Silent_p.S671S|PSME4_uc010fbt.1_Silent_p.S14S	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	1527					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			GGACATGAGGCGATATGGTTG	0.383													27	49					0	0	1	0	0		T	54114544	T	T	54114544	2	4	89	1	0	0	0	0	0	0	0	1	12731	755	27	1		1	PSME4	2	54114544	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	85866	54114544	189084829	898	54729											
PSME4	23198	broad.mit.edu	37	chr2	54117282	54117282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccccagtcattataagtttCtacggtaatattggacagtg	11	14	8	8	1	2	0	1	0	1	0	3	1	3	1	2	2	1	2	2	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:54117282C>T	uc002rxp.2	-	37	4311	c.4255G>A	c.(4255-4257)GAA>AAA	p.E1419K	PSME4_uc010yop.1_Missense_Mutation_p.E1305K|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Missense_Mutation_p.E794K|PSME4_uc010fbv.1_Missense_Mutation_p.E563K|PSME4_uc010fbt.1_5'Flank	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	1419					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TTATAAGTTTCTACGGTAATA	0.393													52	125					0	0	1	0	0		T	54117282	T	T	54117282	3	4	89	1	0	0	0	0	1	0	0	0	12731	922	32	4	1316	4	PSME4	2	54117282	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2738	54117282	189082091	899	54730											
PSME4	23198	broad.mit.edu	37	chr2	54154547	54154547	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacttctgtgaggtcatttCtttcttgtagtacagatgaa	9	18	8	6	0	4	3	1	2	3	1	4	3	4	3	0	1	2	2	0	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:54154547C>A	uc002rxp.2	-	12	1633	c.1577G>T	c.(1576-1578)AGA>ATA	p.R526I	PSME4_uc010yop.1_Missense_Mutation_p.R412I|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_5'UTR|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	526					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			GAGGTCATTTCTTTCTTGTAG	0.333													34	84					1.57351e-24	1.89089e-24	1	1	0		A	54154547	A	A	54154547	3	1	89	1	0	0	0	0	1	0	0	0	12731	913	32	5	4094	5	PSME4	2	54154547	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	37265	54154547	189044826	900	54731											
PSME4	23198	broad.mit.edu	37	chr2	54159188	54159188	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatctttcacgatgcaatCttctaacaacactgtttggc	10	15	6	10	1	4	0	1	0	3	0	4	1	4	0	0	1	3	3	0	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:54159188C>A	uc002rxp.2	-	10	1156	c.1100G>T	c.(1099-1101)AGA>ATA	p.R367I	PSME4_uc010yop.1_Missense_Mutation_p.R253I|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_5'UTR|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	367					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			ACGATGCAATCTTCTAACAAC	0.413													22	72					0.0624174	0.0626775	1	1	0		A	54159188	A	A	54159188	3	1	89	1	0	0	0	0	1	0	0	0	12731	913	32	5	4579	5	PSME4	2	54159188	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4641	54159188	189040185	901	54732											
ACYP2	98	broad.mit.edu	37	chr2	54365782	54365782	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcctgaaacagtatacaGaagatgaagctaggaaaata	18	10	8	5	0	0	4	0	2	0	2	1	5	1	5	1	1	3	2	1	1	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:54365782G>T	uc002rxq.3	+	3	508	c.82G>T	c.(82-84)GAA>TAA	p.E28*		NM_138448	NP_612457	P14621	ACYP2_HUMAN	acylphosphatase 2	28	Acylphosphatase-like.				phosphate metabolic process		acylphosphatase activity				0						ACAGTATACAGAAGATGAAGC	0.403													17	24					0.00074312	0.000755197	1	1	0		T	54365782	T	T	54365782	4	4	89	1	0	0	0	0	0	1	0	0	229	943	33	5	92	5	ACYP2	2	54365782	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	206594	54365782	188833591	902	54733											
SPTBN1	6711	broad.mit.edu	37	chr2	54839399	54839399	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtccatcttgagaacatgggGtcccatgacatcgtggatgg	9	10	13	9	1	1	2	0	2	1	1	4	4	3	3	2	4	1	0	2	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:54839399G>A	uc002rxu.2	+	4	651	c.402G>A	c.(400-402)GGG>GGA	p.G134G	SPTBN1_uc002rxv.1_Silent_p.G134G|SPTBN1_uc002rxx.2_Silent_p.G121G	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	134	CH 1.|Actin-binding.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			AGAACATGGGGTCCCATGACA	0.557													31	68					0	0	1	0	0		A	54839399	A	A	54839399	2	1	89	1	0	0	0	0	0	0	0	1	15144	1248	44	4		4	SPTBN1	2	54839399	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	473617	54839399	188359974	903	54734											
SPTBN1	6711	broad.mit.edu	37	chr2	54858050	54858050	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccctcctgtctgccctgAgcatccagaactaccacctc	8	9	6	18	0	1	2	0	1	1	1	4	2	3	2	6	0	5	1	6	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:54858050A>G	uc002rxu.2	+	16	3115	c.2866A>G	c.(2866-2868)AGC>GGC	p.S956G	SPTBN1_uc002rxx.2_Missense_Mutation_p.S943G	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	956	Spectrin 7.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			GTCTGCCCTGAGCATCCAGAA	0.547													10	20					0	0	1	0	0		G	54858050	G	G	54858050	3	3	89	1	0	0	0	0	1	0	0	0	15144	304	11	3	3037	3	SPTBN1	2	54858050	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	18651	54858050	188341323	904	54735											
SPTBN1	6711	broad.mit.edu	37	chr2	54885016	54885016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcagttctcaagagacGccagtgtggccgaggcctgg	8	8	13	12	2	2	1	2	0	1	1	4	3	3	1	4	3	0	1	4	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:54885016G>A	uc002rxu.2	+	30	6325	c.6076G>A	c.(6076-6078)GCC>ACC	p.A2026T	SPTBN1_uc002rxx.2_Missense_Mutation_p.A2013T|SPTBN1_uc002rxy.2_Missense_Mutation_p.A171T|SPTBN1_uc010you.1_Missense_Mutation_p.A16T	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	2026	Spectrin 17.|Interaction with ANK2.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			CTCAAGAGACGCCAGTGTGGC	0.582											OREG0014619	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	59					0	0	1	0	0		A	54885016	A	A	54885016	3	1	89	1	0	0	0	0	1	0	0	0	15144	1087	38	1	6303	1	SPTBN1	2	54885016	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	26966	54885016	188314357	905	54736											
CCDC88A	55704	broad.mit.edu	37	chr2	55546112	55546112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttcagttgagttttcaacGcttgcttctctgcttgcagt	5	17	9	10	1	3	1	2	1	1	0	4	1	3	1	0	0	4	7	0	0	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:55546112G>A	uc002ryv.2	-	19	4030	c.3188C>T	c.(3187-3189)GCG>GTG	p.A1063V	CCDC88A_uc010yoz.1_Missense_Mutation_p.A1064V|CCDC88A_uc010ypa.1_Missense_Mutation_p.A1063V|CCDC88A_uc002ryu.2_Missense_Mutation_p.A346V|CCDC88A_uc002rys.2_Missense_Mutation_p.A49V|CCDC88A_uc002ryw.2_Missense_Mutation_p.A347V|CCDC88A_uc010fby.1_5'UTR	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	1064	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						AGTTTTCAACGCTTGCTTCTC	0.358													23	52					0	0	1	0	0		A	55546112	A	A	55546112	3	1	89	1	0	0	0	0	1	0	0	0	2866	1087	38	1	2480	1	CCDC88A	2	55546112	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	661096	55546112	187653261	906	54737											
CCDC88A	55704	broad.mit.edu	37	chr2	55561360	55561360	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctttggatagggttttgTtttctttttccaaatttcca	6	23	6	6	0	2	0	0	0	2	0	4	1	4	1	2	2	0	2	2	2	2	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:55561360T>C	uc002ryv.2	-	15	3439	c.2597A>G	c.(2596-2598)AAC>AGC	p.N866S	CCDC88A_uc010yoz.1_Missense_Mutation_p.N866S|CCDC88A_uc010ypa.1_Missense_Mutation_p.N866S|CCDC88A_uc010ypb.1_Missense_Mutation_p.N768S|CCDC88A_uc002ryu.2_Missense_Mutation_p.N149S|CCDC88A_uc002ryw.2_Missense_Mutation_p.N149S	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	866	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding	p.N866K(1)		ovary(2)|skin(2)	4						TAGGGTTTTGTTTTCTTTTTC	0.313													27	50					0	0	1	0	0		C	55561360	C	C	55561360	3	2	89	1	0	0	0	0	1	0	0	0	2866	1725	60	3	3090	3	CCDC88A	2	55561360	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15248	55561360	187638013	907	54738											
CCDC88A	55704	broad.mit.edu	37	chr2	55561901	55561901	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggattctaactgaaaggTcagatttttaaagctatcca	14	13	8	6	0	2	2	1	1	1	1	3	3	3	3	1	2	2	1	1	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:55561901T>C	uc002ryv.2	-	15	2898	c.2056A>G	c.(2056-2058)ACC>GCC	p.T686A	CCDC88A_uc010yoz.1_Missense_Mutation_p.T686A|CCDC88A_uc010ypa.1_Missense_Mutation_p.T686A|CCDC88A_uc010ypb.1_Missense_Mutation_p.T588A|CCDC88A_uc002ryu.2_5'UTR|CCDC88A_uc002ryw.2_5'UTR	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	686	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						AACTGAAAGGTCAGATTTTTA	0.318													12	40					0	0	1	0	0		C	55561901	C	C	55561901	3	2	89	1	0	0	0	0	1	0	0	0	2866	1667	58	3	3631	3	CCDC88A	2	55561901	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	541	55561901	187637472	908	54739											
CCDC104	112942	broad.mit.edu	37	chr2	55772048	55772048	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttttttttcaggaaatGacagagaaaccagaaatgac	15	13	7	6	0	2	4	1	2	1	2	2	6	2	5	1	1	1	0	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:55772048G>T	uc002ryy.2	+	10	1131	c.933G>T	c.(931-933)ATG>ATT	p.M311I	CCDC104_uc002ryx.2_Missense_Mutation_p.M336I	NM_080667	NP_542398	Q96G28	CC104_HUMAN	coiled-coil domain containing 104	311										ovary(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TTCAGGAAATGACAGAGAAAC	0.338													6	15					0.00116845	0.00118508	1	1	0		T	55772048	T	T	55772048	3	4	89	1	0	0	0	0	1	0	0	0	2742	1290	45	5	971	5	CCDC104	2	55772048	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	210147	55772048	187427325	909	54740											
SMEK2	57223	broad.mit.edu	37	chr2	55825627	55825627	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagaaaattctcttcaaaAacagatggtgtgggcaaaat	18	9	9	5	0	2	2	1	0	1	2	3	3	2	2	0	2	1	1	0	2	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:55825627A>C	uc002rzc.2	-	4	1221	c.846T>G	c.(844-846)GTT>GTG	p.V282V	SMEK2_uc002rzb.2_Silent_p.V282V|SMEK2_uc002rzd.2_Silent_p.V282V|SMEK2_uc002rza.2_Silent_p.V158V	NM_001122964	NP_001116436	Q5MIZ7	P4R3B_HUMAN	SMEK homolog 2, suppressor of mek1 isoform 1	282						microtubule organizing center|nucleus	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TCTCTTCAAAAACAGATGGTG	0.353													7	93					0	0	1	0	0		C	55825627	C	C	55825627	2	2	89	1	0	0	0	0	0	0	0	1	14819	1	1	5		5	SMEK2	2	55825627	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	53579	55825627	187373746	910	54741											
EFEMP1	2202	broad.mit.edu	37	chr2	56149545	56149545	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacttgaccagcgccagagTcagcatagttaggaaaaggg	13	7	13	8	1	1	3	1	2	0	1	1	4	1	4	2	2	2	2	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:56149545T>C	uc002rzh.2	-	2	361	c.31A>G	c.(31-33)ACT>GCT	p.T11A	EFEMP1_uc002rzi.2_Missense_Mutation_p.T11A|EFEMP1_uc002rzj.2_Missense_Mutation_p.T11A|EFEMP1_uc010ypc.1_5'UTR	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	11					negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			AGCGCCAGAGTCAGCATAGTT	0.428													44	85					0	0	1	0	0		C	56149545	C	C	56149545	3	2	89	1	0	0	0	0	1	0	0	0	4947	1667	58	3	1490	3	EFEMP1	2	56149545	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	323918	56149545	187049828	911	54742											
VRK2	7444	broad.mit.edu	37	chr2	58386762	58386762	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagagacaaacgcagatgtTtattattatcgcatcatcat	15	12	7	7	2	2	2	2	0	0	2	3	4	2	2	0	0	1	3	0	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:58386762T>G	uc002rzo.2	+	16	2206	c.1461T>G	c.(1459-1461)GTT>GTG	p.V487V	VRK2_uc010fcb.2_3'UTR|VRK2_uc002rzs.2_3'UTR|VRK2_uc002rzr.2_3'UTR|VRK2_uc010fcc.2_Silent_p.V369V|VRK2_uc002rzv.2_Silent_p.V487V|VRK2_uc010fcd.2_Silent_p.V464V|VRK2_uc002rzp.2_Silent_p.V487V|VRK2_uc010ypg.1_Silent_p.V487V|VRK2_uc002rzq.2_3'UTR|VRK2_uc002rzu.2_3'UTR|VRK2_uc002rzt.2_Silent_p.V369V|FANCL_uc002rzw.3_3'UTR|FANCL_uc002rzx.3_3'UTR|FANCL_uc010fce.2_3'UTR	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	487	Helical; Anchor for type IV membrane protein; (Potential).					integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						ACGCAGATGTTTATTATTATC	0.353													28	59					0	0	1	0	0		G	58386762	G	G	58386762	2	3	89	1	0	0	0	0	0	0	0	1	17246	1828	64	5		5	VRK2	2	58386762	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2237217	58386762	184812611	912	54743											
KIAA1841	84542	broad.mit.edu	37	chr2	61343163	61343163	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacaaccaaaaaagcaggtAtcttcaccctgtgcccagag	15	6	8	12	0	2	2	1	0	1	2	2	2	2	2	3	1	3	2	3	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:61343163A>G	uc002saw.3	+	17	2097	c.1794A>G	c.(1792-1794)GTA>GTG	p.V598V	KIAA1841_uc002sax.3_Silent_p.V452V|KIAA1841_uc002say.2_Silent_p.V598V	NM_001129993	NP_001123465	Q6NSI8	K1841_HUMAN	KIAA1841 protein isoform a	598											0			Epithelial(17;0.193)			AAAAGCAGGTATCTTCACCCT	0.378													32	82					0	0	1	0	0		G	61343163	G	G	61343163	2	3	89	1	0	0	0	0	0	0	0	1	8277	436	16	3		3	KIAA1841	2	61343163	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2956401	61343163	181856210	913	54744											
AHSA2	130872	broad.mit.edu	37	chr2	61411875	61411875	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgggaatgattttaccaacGaaagctatggcaacccagga	15	7	10	9	2	0	1	0	1	0	0	0	4	0	3	2	3	4	2	2	3	6	3	rs116428488	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:61411875G>A	uc002sbc.1	+	3	1601	c.15G>A	c.(13-15)ACG>ACA	p.T5T	AHSA2_uc002sbb.1_RNA	NM_152392	NP_689605	Q719I0	AHSA2_HUMAN	AHA1, activator of heat shock 90kDa protein	167					response to stress	cytoplasm	ATPase activator activity|chaperone binding			breast(1)	1			Epithelial(17;0.0994)			TTTTACCAACGAAAGCTATGG	0.403													22	36					0	0	1	0	0		A	61411875	A	A	61411875	2	1	89	1	0	0	0	0	0	0	0	1	419	1045	37	1		1	AHSA2	2	61411875	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	68712	61411875	181787498	914	54745											
USP34	9736	broad.mit.edu	37	chr2	61439030	61439030	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatctggcctctgagctataAacagctgcatcaggttaaac	12	11	8	10	0	3	1	1	1	2	0	3	1	3	1	1	2	5	4	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:61439030A>C	uc002sbe.2	-	69	8739	c.8717T>G	c.(8716-8718)TTT>TGT	p.F2906C		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2906					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			CTGAGCTATAAACAGCTGCAT	0.363													21	34					0	0	1	0	0		C	61439030	C	C	61439030	3	2	89	1	0	0	0	0	1	0	0	0	17091	14	1	5	1971	5	USP34	2	61439030	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	27155	61439030	181760343	915	54746											
XPO1	7514	broad.mit.edu	37	chr2	61710173	61710173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtttgataaaaactctgagCtgcagcttcttcttgtgcaa	11	14	8	8	0	3	2	0	2	3	0	3	2	3	2	0	0	5	5	0	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:61710173C>T	uc002sbj.2	-	22	3459	c.2731G>A	c.(2731-2733)GCT>ACT	p.A911T	XPO1_uc010fcl.2_Missense_Mutation_p.A907T|XPO1_uc010ypn.1_Missense_Mutation_p.A907T|XPO1_uc002sbk.2_Missense_Mutation_p.A472T|XPO1_uc002sbg.2_Missense_Mutation_p.A108T|XPO1_uc002sbh.2_Missense_Mutation_p.A558T	NM_003400	NP_003391	O14980	XPO1_HUMAN	exportin 1	911	HEAT 8.				intracellular protein transport|mitotic prometaphase|mRNA metabolic process|mRNA transport|viral genome transport in host cell|viral infectious cycle	annulate lamellae|Cajal body|cytosol|kinetochore|nuclear envelope|nucleolus|ribonucleoprotein complex	protein binding|protein transporter activity|RNA binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(7;5.71e-05)|Epithelial(17;0.0662)|all cancers(80;0.226)			AAACTCTGAGCTGCAGCTTCT	0.343													34	55					0	0	1	0	0		T	61710173	T	T	61710173	3	4	89	1	0	0	0	0	1	0	0	0	17471	797	28	2	500	2	XPO1	2	61710173	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	271143	61710173	181489200	916	54747											
XPO1	7514	broad.mit.edu	37	chr2	61722723	61722723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccatttgagtacgcaagtCgaatattggtatttaaagga	13	14	9	5	2	0	1	0	1	0	0	2	3	1	2	1	2	1	3	1	2	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:61722723C>T	uc002sbj.2	-	11	1642	c.914G>A	c.(913-915)CGA>CAA	p.R305Q	XPO1_uc010fcl.2_Missense_Mutation_p.R301Q|XPO1_uc010ypn.1_Missense_Mutation_p.R301Q|XPO1_uc002sbk.2_5'UTR|XPO1_uc002sbh.2_5'Flank	NM_003400	NP_003391	O14980	XPO1_HUMAN	exportin 1	305	Necessary for HTLV-1 Rex-mediated mRNA export.				intracellular protein transport|mitotic prometaphase|mRNA metabolic process|mRNA transport|viral genome transport in host cell|viral infectious cycle	annulate lamellae|Cajal body|cytosol|kinetochore|nuclear envelope|nucleolus|ribonucleoprotein complex	protein binding|protein transporter activity|RNA binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(7;5.71e-05)|Epithelial(17;0.0662)|all cancers(80;0.226)			GTACGCAAGTCGAATATTGGT	0.299													16	46					0	0	1	0	0		T	61722723	T	T	61722723	3	4	89	1	0	0	0	0	1	0	0	0	17471	884	31	1	2361	1	XPO1	2	61722723	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12550	61722723	181476650	917	54748											
FAM161A	84140	broad.mit.edu	37	chr2	62067568	62067568	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccttagcataggtcatcaTtctgtttttcctaggatact	8	17	6	10	0	3	0	2	0	1	0	5	1	5	1	2	2	2	2	2	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:62067568T>G	uc010ypo.1	-	3	673	c.571A>C	c.(571-573)ATG>CTG	p.M191L	FAM161A_uc002sbm.3_Missense_Mutation_p.M191L|FAM161A_uc002sbn.3_Missense_Mutation_p.M1L|FAM161A_uc010fcm.1_RNA|FAM161A_uc010fcn.1_Missense_Mutation_p.M82L	NM_032180	NP_115556	Q3B820	F161A_HUMAN	hypothetical protein LOC84140	191					response to stimulus|visual perception	centrosome				large_intestine(2)|ovary(1)	3						TAGGTCATCATTCTGTTTTTC	0.413													40	100					0	0	1	0	0		G	62067568	G	G	62067568	3	3	89	1	0	0	0	0	1	0	0	0	5483	1493	52	5	1427	5	FAM161A	2	62067568	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	344845	62067568	181131805	918	54749											
AFTPH	54812	broad.mit.edu	37	chr2	64778749	64778749	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgtagggtttgttgatttCgatacaccagattatactcg	9	15	11	6	2	0	2	0	1	0	1	2	3	0	2	1	2	2	3	1	2	4	7	rs113401509	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:64778749C>T	uc002sdc.2	+	1	173	c.141C>T	c.(139-141)TTC>TTT	p.F47F	AFTPH_uc002scz.2_Silent_p.F47F|AFTPH_uc002sda.2_Silent_p.F47F|AFTPH_uc002sdb.2_Silent_p.F47F	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	47					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						TTGTTGATTTCGATACACCAG	0.398													32	182					0	0	1	0	0		T	64778749	T	T	64778749	2	4	89	1	0	0	0	0	0	0	0	1	364	883	31	1		1	AFTPH	2	64778749	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2711181	64778749	178420624	919	54750											
AFTPH	54812	broad.mit.edu	37	chr2	64778760	64778760	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgatttcgatacaccagAttatactcgtcccaaggaag	12	12	8	9	2	0	2	0	1	0	1	3	4	1	3	2	1	2	1	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:64778760A>G	uc002sdc.2	+	1	184	c.152A>G	c.(151-153)GAT>GGT	p.D51G	AFTPH_uc002scz.2_Missense_Mutation_p.D51G|AFTPH_uc002sda.2_Missense_Mutation_p.D51G|AFTPH_uc002sdb.2_Missense_Mutation_p.D51G	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	51					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						GATACACCAGATTATACTCGT	0.388													69	131					0	0	1	0	0		G	64778760	G	G	64778760	3	3	89	1	0	0	0	0	1	0	0	0	364	333	12	3	154	3	AFTPH	2	64778760	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	11	64778760	178420613	920	54751											
AFTPH	54812	broad.mit.edu	37	chr2	64778948	64778948	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactttctaccaccagcaaaGaaataatttcatctgaaatg	16	12	4	9	0	3	2	1	1	2	1	3	2	3	2	2	0	3	1	2	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:64778948G>T	uc002sdc.2	+	1	372	c.340G>T	c.(340-342)GAA>TAA	p.E114*	AFTPH_uc002scz.2_Nonsense_Mutation_p.E114*|AFTPH_uc002sda.2_Nonsense_Mutation_p.E114*|AFTPH_uc002sdb.2_Nonsense_Mutation_p.E114*	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	114					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						CACCAGCAAAGAAATAATTTC	0.368													33	60					2.68265e-12	2.96656e-12	1	1	0		T	64778948	T	T	64778948	4	4	89	1	0	0	0	0	0	1	0	0	364	943	33	5	342	5	AFTPH	2	64778948	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	188	64778948	178420425	921	54752											
AFTPH	54812	broad.mit.edu	37	chr2	64779504	64779504	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagaggatcaggtttgtgTttcagaaataagcatagtga	13	12	13	3	0	2	3	2	1	0	2	2	5	2	4	0	3	1	3	0	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:64779504T>C	uc002sdc.2	+	1	928	c.896T>C	c.(895-897)GTT>GCT	p.V299A	AFTPH_uc002scz.2_Missense_Mutation_p.V299A|AFTPH_uc002sda.2_Missense_Mutation_p.V299A|AFTPH_uc002sdb.2_Missense_Mutation_p.V299A	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	299					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						CAGGTTTGTGTTTCAGAAATA	0.383													51	75					0	0	1	0	0		C	64779504	C	C	64779504	3	2	89	1	0	0	0	0	1	0	0	0	364	1725	60	3	898	3	AFTPH	2	64779504	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	556	64779504	178419869	922	54753											
AFTPH	54812	broad.mit.edu	37	chr2	64794728	64794728	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaccgcctggagcgaattttCgaagcatgttttccttccat	9	13	8	11	3	0	0	0	0	0	0	3	3	2	1	4	1	3	2	4	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:64794728C>T	uc002sdc.2	+	2	2000	c.1968C>T	c.(1966-1968)TTC>TTT	p.F656F	AFTPH_uc002scz.2_Silent_p.F656F|AFTPH_uc002sda.2_Silent_p.F656F|AFTPH_uc002sdb.2_Silent_p.F656F	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	656					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						AGCGAATTTTCGAAGCATGTT	0.378													56	103					0	0	1	0	0		T	64794728	T	T	64794728	2	4	89	1	0	0	0	0	0	0	0	1	364	883	31	1		1	AFTPH	2	64794728	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	15224	64794728	178404645	923	54754											
ACTR2	10097	broad.mit.edu	37	chr2	65473846	65473846	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaacctcctatgaacccAaccaaaaacagagagaagat	20	4	6	11	0	0	5	0	1	0	4	1	6	1	5	4	0	4	0	4	0	7	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:65473846A>C	uc002sdq.2	+	3	563	c.348A>C	c.(346-348)CCA>CCC	p.P116P	ACTR2_uc010yqf.1_Silent_p.P61P|ACTR2_uc002sdp.2_Silent_p.P121P|ACTR2_uc010yqg.1_Silent_p.P64P	NM_005722	NP_005713	P61160	ARP2_HUMAN	actin-related protein 2 isoform b	116					cellular component movement	Arp2/3 protein complex|cell projection|cytoplasm	actin binding|ATP binding				0						CTATGAACCCAACCAAAAACA	0.333													45	76					0	0	1	0	0		C	65473846	C	C	65473846	2	2	89	1	0	0	0	0	0	0	0	1	211	117	5	5		5	ACTR2	2	65473846	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	679118	65473846	177725527	924	54755											
MEIS1	4211	broad.mit.edu	37	chr2	66667099	66667099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcattcaatgaagatataGccgtgttcgccaaacaggtc	13	10	9	9	2	2	2	2	1	0	1	4	2	2	2	2	1	2	1	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:66667099G>A	uc002sdu.2	+	3	821	c.364G>A	c.(364-366)GCC>ACC	p.A122T	MEIS1_uc002sdt.2_Missense_Mutation_p.A122T|MEIS1_uc002sdv.2_Missense_Mutation_p.A120T|MEIS1_uc010yqh.1_RNA|MEIS1_uc010yqi.1_Missense_Mutation_p.A57T|MEIS1_uc002sdw.1_5'Flank	NM_002398	NP_002389	O00470	MEIS1_HUMAN	Meis homeobox 1	122							sequence-specific DNA binding transcription factor activity				0						TGAAGATATAGCCGTGTTCGC	0.428													7	13					0	0	1	0	0		A	66667099	A	A	66667099	3	1	89	1	0	0	0	0	1	0	0	0	9485	971	34	2	374	2	MEIS1	2	66667099	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1193253	66667099	176532274	925	54756											
APLF	200558	broad.mit.edu	37	chr2	68765080	68765080	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagactaatgcacagagaaAcaaacttccaatagaggaac	20	6	7	8	0	0	3	0	0	0	3	1	5	1	4	1	1	4	1	1	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:68765080A>G	uc002sep.2	+	7	1054	c.881A>G	c.(880-882)AAC>AGC	p.N294S	APLF_uc002seq.1_RNA|APLF_uc010fdf.2_Missense_Mutation_p.N270S|APLF_uc002ser.1_Missense_Mutation_p.N25S	NM_173545	NP_775816	Q8IW19	APLF_HUMAN	aprataxin and PNKP like factor	294					double-strand break repair|single strand break repair	cytosol|nucleus	3'-5' exonuclease activity|DNA-(apurinic or apyrimidinic site) lyase activity|endodeoxyribonuclease activity|metal ion binding|nucleotide binding|protein binding			ovary(2)	2						GCACAGAGAAACAAACTTCCA	0.313													14	35					0	0	1	0	0		G	68765080	G	G	68765080	3	3	89	1	0	0	0	0	1	0	0	0	776	43	2	3	907	3	APLF	2	68765080	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2097981	68765080	174434293	926	54757											
BMP10	27302	broad.mit.edu	37	chr2	69092776	69092776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttctatctacagccaCattcggagacggccatgcct	8	12	7	14	2	4	1	0	0	4	1	5	2	4	1	3	2	3	0	3	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:69092776C>T	uc002sez.1	-	2	1421	c.1262G>A	c.(1261-1263)TGT>TAT	p.C421Y		NM_014482	NP_055297	O95393	BMP10_HUMAN	bone morphogenetic protein 10 preproprotein	421					activin receptor signaling pathway|adult heart development|atrial cardiac muscle tissue morphogenesis|BMP signaling pathway|cardiac muscle cell proliferation|heart trabecula formation|negative regulation of cardiac muscle hypertrophy|negative regulation of cell growth|negative regulation of endothelial cell migration|Notch signaling pathway|pathway-restricted SMAD protein phosphorylation|positive regulation of cardiac muscle cell proliferation|positive regulation of cardiac muscle hypertrophy|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent|sarcomere organization|ventricular cardiac muscle cell development|ventricular cardiac muscle tissue morphogenesis	cell surface|extracellular space|Z disc	cytokine activity|growth factor activity|receptor serine/threonine kinase binding			ovary(2)	2						TCTACAGCCACATTCGGAGAC	0.403													34	109					0	0	1	0	0		T	69092776	T	T	69092776	3	4	89	1	0	0	0	0	1	0	0	0	1458	478	17	4	16	4	BMP10	2	69092776	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	327696	69092776	174106597	927	54758											
BMP10	27302	broad.mit.edu	37	chr2	69093327	69093327	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtatctatttctagccgTccactgctggcatcctcagc	6	13	8	14	1	3	0	1	0	2	0	5	0	5	0	3	2	3	3	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:69093327T>C	uc002sez.1	-	2	870	c.711A>G	c.(709-711)GGA>GGG	p.G237G		NM_014482	NP_055297	O95393	BMP10_HUMAN	bone morphogenetic protein 10 preproprotein	237					activin receptor signaling pathway|adult heart development|atrial cardiac muscle tissue morphogenesis|BMP signaling pathway|cardiac muscle cell proliferation|heart trabecula formation|negative regulation of cardiac muscle hypertrophy|negative regulation of cell growth|negative regulation of endothelial cell migration|Notch signaling pathway|pathway-restricted SMAD protein phosphorylation|positive regulation of cardiac muscle cell proliferation|positive regulation of cardiac muscle hypertrophy|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent|sarcomere organization|ventricular cardiac muscle cell development|ventricular cardiac muscle tissue morphogenesis	cell surface|extracellular space|Z disc	cytokine activity|growth factor activity|receptor serine/threonine kinase binding			ovary(2)	2						TTTCTAGCCGTCCACTGCTGG	0.502													18	37					0	0	1	0	0		C	69093327	C	C	69093327	2	2	89	1	0	0	0	0	0	0	0	1	1458	1654	58	3		3	BMP10	2	69093327	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	551	69093327	174106046	928	54759											
ANTXR1	84168	broad.mit.edu	37	chr2	69409700	69409700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaatgcaagagtcaagatgCcggagcaggaatatgaattc	16	7	12	6	1	1	4	1	1	0	3	2	6	1	6	1	2	3	2	1	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:69409700C>T	uc002sfg.2	+	16	1617	c.1261C>T	c.(1261-1263)CCG>TCG	p.P421S		NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	421	Cytoplasmic (Potential).				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						AGTCAAGATGCCGGAGCAGGA	0.458									Familial_Infantile_Hemangioma				38	88					0	0	1	0	0		T	69409700	T	T	69409700	3	4	89	1	0	0	0	0	1	0	0	0	711	739	26	2	1400	2	ANTXR1	2	69409700	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	316373	69409700	173789673	929	54760											
GFPT1	2673	broad.mit.edu	37	chr2	69586407	69586407	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccttacttaccaaaaacTttttcaagtctttgtagttg	11	17	4	9	0	3	0	2	0	1	0	3	0	3	0	2	0	3	2	2	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:69586407T>G	uc002sfh.2	-	5	580	c.401A>C	c.(400-402)AAG>ACG	p.K134T	GFPT1_uc002sfi.1_5'UTR	NM_002056	NP_002047	Q06210	GFPT1_HUMAN	glucosamine-fructose-6-phosphate	134	Glutamine amidotransferase type-2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			skin(1)	1						TACCAAAAACTTTTTCAAGTC	0.363													45	52					0	0	1	0	0		G	69586407	G	G	69586407	3	3	89	1	0	0	0	0	1	0	0	0	6360	1609	56	5	1704	5	GFPT1	2	69586407	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	176707	69586407	173612966	930	54761											
AAK1	22848	broad.mit.edu	37	chr2	69741737	69741737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgttgatgcagggctgtggCcagctgttgctgttgctgtt	3	16	15	7	0	0	1	0	1	0	0	0	1	0	1	1	2	4	9	1	2	0	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:69741737C>T	uc002sfp.2	-	13	2147	c.1642G>A	c.(1642-1644)GCC>ACC	p.A548T	AAK1_uc010fdk.2_Missense_Mutation_p.A548T|AAK1_uc010yqm.1_Missense_Mutation_p.A548T	NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	548	Gln-rich.					coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0						AGGGCTGTGGCCAgctgttgc	0.368													3	12					0	0	1	0	0		T	69741737	T	T	69741737	3	4	89	1	0	0	0	0	1	0	0	0	16	739	26	2	1283	2	AAK1	2	69741737	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	155330	69741737	173457636	931	54762											
GMCL1	64395	broad.mit.edu	37	chr2	70096947	70096947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacgcaatacactgaatcagCcatgtagcggatctgtcagt	13	9	9	10	2	3	1	2	1	1	0	3	2	3	2	1	1	4	2	1	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:70096947C>T	uc002sfu.2	+	12	1522	c.1315C>T	c.(1315-1317)CCA>TCA	p.P439S		NM_178439	NP_848526	Q96IK5	GMCL1_HUMAN	germ cell-less	439					cell differentiation|multicellular organismal development|spermatogenesis	nuclear matrix				ovary(3)	3						ACTGAATCAGCCATGTAGCGG	0.443													26	47					0	0	1	0	0		T	70096947	T	T	70096947	3	4	89	1	0	0	0	0	1	0	0	0	6500	739	26	2	1361	2	GMCL1	2	70096947	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	355210	70096947	173102426	932	54763											
MXD1	4084	broad.mit.edu	37	chr2	70162562	70162562	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcaagtcgacacactacgTtgagtttattaacaaaagcc	16	10	6	9	2	1	1	1	1	0	0	2	2	1	1	1	0	3	2	1	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:70162562T>C	uc002sfy.2	+	4	543	c.283T>C	c.(283-285)TTG>CTG	p.L95L	MXD1_uc010yqp.1_Silent_p.L95L|MXD1_uc010yqq.1_Silent_p.L32L|MXD1_uc010yqr.1_RNA|MXD1_uc010yqs.1_Silent_p.L85L	NM_002357	NP_002348	Q05195	MAD1_HUMAN	MAX dimerization protein 1	95	Helix-loop-helix motif.				cell proliferation|multicellular organismal development	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						ACACACTACGTTGAGTTTATT	0.438													27	41					0	0	1	0	0		C	70162562	C	C	70162562	2	2	89	1	0	0	0	0	0	0	0	1	10017	1722	60	3		3	MXD1	2	70162562	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	65615	70162562	173036811	933	54764											
TIA1	7072	broad.mit.edu	37	chr2	70441551	70441551	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgccaaccattaggcatatActggccaatttgttgtgcat	10	14	8	9	0	0	0	0	0	0	0	0	0	0	0	3	2	4	3	3	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:70441551A>G	uc002sgj.3	-	12	1181	c.964T>C	c.(964-966)TAT>CAT	p.Y322H	TIA1_uc002sgk.3_Missense_Mutation_p.Y311H|TIA1_uc002sgl.3_RNA	NM_022173	NP_071505	P31483	TIA1_HUMAN	TIA1 cytotoxic granule-associated RNA binding	322					apoptosis|induction of apoptosis|regulation of nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|poly(A) RNA binding|protein binding				0						TTAGGCATATACTGGCCAATT	0.393													20	58					0	0	1	0	0		G	70441551	G	G	70441551	3	3	89	1	0	0	0	0	1	0	0	0	15912	391	14	3	204	3	TIA1	2	70441551	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	278989	70441551	172757822	934	54765											
TIA1	7072	broad.mit.edu	37	chr2	70454891	70454891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttccaaatggtgcaaaaGcagcttttatatcttcagtt	11	16	6	8	0	3	0	1	0	2	0	4	0	4	0	1	1	3	4	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:70454891G>A	uc002sgj.3	-	6	591	c.374C>T	c.(373-375)GCT>GTT	p.A125V	TIA1_uc002sgk.3_Missense_Mutation_p.A114V|TIA1_uc002sgl.3_RNA|TIA1_uc002sgm.3_Missense_Mutation_p.A125V	NM_022173	NP_071505	P31483	TIA1_HUMAN	TIA1 cytotoxic granule-associated RNA binding	125	RRM 2.				apoptosis|induction of apoptosis|regulation of nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|poly(A) RNA binding|protein binding				0						TGGTGCAAAAGCAGCTTTTAT	0.308													27	85					0	0	1	0	0		A	70454891	A	A	70454891	3	1	89	1	0	0	0	0	1	0	0	0	15912	971	34	2	818	2	TIA1	2	70454891	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13340	70454891	172744482	935	54766											
PCYOX1	51449	broad.mit.edu	37	chr2	70503962	70503962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtggccactccgttgaatcGaaaaatgtcgaatattactt	12	12	9	8	3	0	1	0	1	0	0	3	3	1	1	2	2	1	1	2	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:70503962G>A	uc002sgn.3	+	6	1022	c.956G>A	c.(955-957)CGA>CAA	p.R319Q	PCYOX1_uc010fdo.2_Missense_Mutation_p.R242Q|PCYOX1_uc010yqu.1_Missense_Mutation_p.R301Q	NM_016297	NP_057381	Q9UHG3	PCYOX_HUMAN	prenylcysteine oxidase 1 precursor	319					prenylated protein catabolic process	lysosome|very-low-density lipoprotein particle	prenylcysteine oxidase activity			central_nervous_system(1)	1						CCGTTGAATCGAAAAATGTCG	0.378													14	36					0	0	1	0	0		A	70503962	A	A	70503962	3	1	89	1	0	0	0	0	1	0	0	0	11627	1058	37	1	978	1	PCYOX1	2	70503962	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	49071	70503962	172695411	936	54767											
ATP6V1B1	525	broad.mit.edu	37	chr2	71163176	71163176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacatgcaggcggtcacccGaaactacatcacccaccccc	12	4	6	19	2	2	0	2	0	0	0	2	1	2	0	4	2	3	1	4	2	2	1	rs143516810		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:71163176G>A	uc002shj.2	+	1	179	c.92G>A	c.(91-93)CGA>CAA	p.R31Q	ATP6V1B1_uc002shi.1_Missense_Mutation_p.R31Q|ATP6V1B1_uc010fdv.2_Missense_Mutation_p.R31Q|ATP6V1B1_uc010fdw.2_RNA	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	31					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						GCGGTCACCCGAAACTACATC	0.667													36	47					0	0	1	0	0		A	71163176	A	A	71163176	3	1	89	1	0	0	0	0	1	0	0	0	1179	1058	37	1	94	1	ATP6V1B1	2	71163176	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	659214	71163176	172036197	937	54768											
MPHOSPH10	10199	broad.mit.edu	37	chr2	71360659	71360659	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatttttttgaagatattGattctgatgaagatgaaggg	12	17	11	1	0	1	8	0	6	1	2	1	8	1	8	0	1	0	0	0	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:71360659G>T	uc002sht.1	+	2	1073	c.721G>T	c.(721-723)GAT>TAT	p.D241Y	MPHOSPH10_uc010feb.1_Missense_Mutation_p.D241Y	NM_005791	NP_005782	O00566	MPP10_HUMAN	M-phase phosphoprotein 10	241					RNA splicing, via transesterification reactions|rRNA processing	chromosome|nucleolus|small nucleolar ribonucleoprotein complex	protein binding			skin(2)|ovary(1)	3						TGAAGATATTGATTCTGATGA	0.348													36	78					1.60099e-16	1.84126e-16	1	1	0		T	71360659	T	T	71360659	3	4	89	1	0	0	0	0	1	0	0	0	9743	1290	45	5	727	5	MPHOSPH10	2	71360659	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	197483	71360659	171838714	938	54769											
ZNF638	27332	broad.mit.edu	37	chr2	71653942	71653942	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actttttacattagatgaatTaattgaccaagatgattgca	15	15	6	5	0	0	5	0	3	0	2	0	5	0	5	1	0	2	1	1	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:71653942T>G	uc002shx.2	+	24	5262	c.4943T>G	c.(4942-4944)TTA>TGA	p.L1648*	ZNF638_uc002shy.2_Nonsense_Mutation_p.L1648*|ZNF638_uc002shz.2_Nonsense_Mutation_p.L1648*|ZNF638_uc002sia.2_Nonsense_Mutation_p.L1648*|ZNF638_uc002sib.1_3'UTR|ZNF638_uc010fed.2_Intron|ZNF638_uc002sic.2_Nonsense_Mutation_p.L745*|ZNF638_uc002sid.2_Nonsense_Mutation_p.L17*	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1648					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						TTAGATGAATTAATTGACCAA	0.358													26	56					0	0	1	0	0		G	71653942	G	G	71653942	4	3	89	1	0	0	0	0	0	1	0	0	18080	1764	61	5	5033	5	ZNF638	2	71653942	Nonsense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	293283	71653942	171545431	939	54770											
DYSF	8291	broad.mit.edu	37	chr2	71766360	71766360	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctctgcccctggaggaGaaatagaaggtatgttccct	12	10	10	9	0	1	2	0	0	1	2	3	4	2	3	3	3	1	2	3	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:71766360G>T	uc002sie.2	+	16	1847	c.1471G>T	c.(1471-1473)GAA>TAA	p.E491*	DYSF_uc010feg.2_Nonsense_Mutation_p.E522*|DYSF_uc010feh.2_Nonsense_Mutation_p.E491*|DYSF_uc002sig.3_Nonsense_Mutation_p.E491*|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Nonsense_Mutation_p.E491*|DYSF_uc010fef.2_Nonsense_Mutation_p.E522*|DYSF_uc010fei.2_Nonsense_Mutation_p.E522*|DYSF_uc010fek.2_Nonsense_Mutation_p.E523*|DYSF_uc010fej.2_Nonsense_Mutation_p.E492*|DYSF_uc010fel.2_Nonsense_Mutation_p.E492*|DYSF_uc010feo.2_Nonsense_Mutation_p.E523*|DYSF_uc010fem.2_Nonsense_Mutation_p.E492*|DYSF_uc010fen.2_Nonsense_Mutation_p.E523*|DYSF_uc002sif.2_Nonsense_Mutation_p.E492*	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	491	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CCCTGGAGGAGAAATAGAAGG	0.537													30	61					3.90053e-15	4.43362e-15	1	1	0		T	71766360	T	T	71766360	4	4	89	1	0	0	0	0	0	1	0	0	4865	943	33	5	1725	5	DYSF	2	71766360	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	112418	71766360	171433013	940	54771											
DYSF	8291	broad.mit.edu	37	chr2	71797810	71797810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagatgtactacacacaccGacggcggcgctgggtgcgcc	9	5	14	13	5	0	1	0	0	0	1	0	3	0	1	2	3	3	2	2	3	3	2	rs150877497		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:71797810G>A	uc002sie.2	+	29	3489	c.3113G>A	c.(3112-3114)CGA>CAA	p.R1038Q	DYSF_uc010feg.2_Missense_Mutation_p.R1069Q|DYSF_uc010feh.2_Missense_Mutation_p.R1024Q|DYSF_uc002sig.3_Missense_Mutation_p.R1024Q|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.R1038Q|DYSF_uc010fef.2_Missense_Mutation_p.R1055Q|DYSF_uc010fei.2_Missense_Mutation_p.R1055Q|DYSF_uc010fek.2_Missense_Mutation_p.R1056Q|DYSF_uc010fej.2_Missense_Mutation_p.R1025Q|DYSF_uc010fel.2_Missense_Mutation_p.R1025Q|DYSF_uc010feo.2_Missense_Mutation_p.R1070Q|DYSF_uc010fem.2_Missense_Mutation_p.R1039Q|DYSF_uc010fen.2_Missense_Mutation_p.R1056Q|DYSF_uc002sif.2_Missense_Mutation_p.R1039Q	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1038	Cytoplasmic (Potential).|Arg-rich.		R -> Q (in LGMD2B; uncertain pathogenicity).			cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						TACACACACCGACGGCGGCGC	0.642													12	22					0	0	1	0	0		A	71797810	A	A	71797810	3	1	89	1	0	0	0	0	1	0	0	0	4865	1058	37	1	3419	1	DYSF	2	71797810	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	31450	71797810	171401563	941	54772											
CYP26B1	56603	broad.mit.edu	37	chr2	72359686	72359686	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgtctttgaacacgggCgctgtgtcatgggtgtcccg	5	12	13	11	4	3	1	2	1	1	0	4	1	4	1	1	2	1	1	1	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:72359686C>T	uc002sih.1	-	6	1209	c.1209G>A	c.(1207-1209)GCG>GCA	p.A403A	CYP26B1_uc010yra.1_Silent_p.A386A|CYP26B1_uc010yrb.1_Silent_p.A328A	NM_019885	NP_063938	Q9NR63	CP26B_HUMAN	cytochrome P450, family 26, subfamily b,	403					cell fate determination|embryonic limb morphogenesis|male meiosis|negative regulation of retinoic acid receptor signaling pathway|proximal/distal pattern formation|retinoic acid catabolic process|spermatogenesis|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			skin(2)	2						TGAACACGGGCGCTGTGTCAT	0.612													11	13					0	0	1	0	0		T	72359686	T	T	72359686	2	4	89	1	0	0	0	0	0	0	0	1	4159	755	27	1		1	CYP26B1	2	72359686	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	561876	72359686	170839687	942	54773											
EXOC6B	23233	broad.mit.edu	37	chr2	72742235	72742235	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctgttttcggtagtaattCtcaaatgtttcccgggcacc	7	15	8	11	2	2	0	1	0	2	0	5	0	3	0	2	2	0	5	2	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:72742235C>T	uc010fep.2	-	9	1074	c.936G>A	c.(934-936)GAG>GAA	p.E312E	EXOC6B_uc002sij.2_Silent_p.E312E	NM_015189	NP_056004	Q9Y2D4	EXC6B_HUMAN	SEC15-like 2	312					protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2						GGTAGTAATTCTCAAATGTTT	0.393													9	7					0	0	1	0	0		T	72742235	T	T	72742235	2	4	89	1	0	0	0	0	0	0	0	1	5317	912	32	4		4	EXOC6B	2	72742235	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	382549	72742235	170457138	943	54774											
SMYD5	10322	broad.mit.edu	37	chr2	73449025	73449025	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagccaatgaagaggaggaAattgtccataaacttctggg	15	8	11	7	0	1	2	0	1	1	1	2	4	2	4	2	3	2	0	2	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:73449025A>C	uc002siw.2	+	6	638	c.609A>C	c.(607-609)GAA>GAC	p.E203D	SMYD5_uc010yre.1_Missense_Mutation_p.E87D|SMYD5_uc002six.1_5'Flank	NM_006062	NP_006053	Q6GMV2	SMYD5_HUMAN	SMYD family member 5	203	Poly-Glu.						metal ion binding				0						AAGAGGAGGAAATTGTCCATA	0.458													32	47					0	0	1	0	0		C	73449025	C	C	73449025	3	2	89	1	0	0	0	0	1	0	0	0	14850	11	1	5	631	5	SMYD5	2	73449025	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	706790	73449025	169750348	944	54775											
CCT7	10574	broad.mit.edu	37	chr2	73477500	73477500	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attctccgtggcggcgccgaGcagtttatggaggagacaga	9	8	15	9	4	1	2	0	0	1	2	2	5	1	3	2	4	1	2	2	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:73477500G>A	uc002siz.2	+	10	1239	c.1137G>A	c.(1135-1137)GAG>GAA	p.E379E	CCT7_uc002sja.2_Silent_p.E175E|CCT7_uc010yrf.1_Silent_p.E335E|CCT7_uc010feu.2_Silent_p.E337E|CCT7_uc010yrg.1_Silent_p.E279E|CCT7_uc010yrh.1_Silent_p.E251E|CCT7_uc010yri.1_Silent_p.E292E	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	379					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						GCGGCGCCGAGCAGTTTATGG	0.527													42	96					0	0	1	0	0		A	73477500	A	A	73477500	2	1	89	1	0	0	0	0	0	0	0	1	2962	962	34	2		2	CCT7	2	73477500	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	28475	73477500	169721873	945	54776											
ALMS1	7840	broad.mit.edu	37	chr2	73635812	73635812	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggcaatagtagaacacaAatttctgatactaatgtggt	16	11	8	6	0	1	2	0	1	1	1	1	2	1	2	0	2	2	2	0	2	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:73635812A>C	uc002sje.1	+	3	501	c.390A>C	c.(388-390)CAA>CAC	p.Q130H	ALMS1_uc002sjf.1_Intron	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	129					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GTAGAACACAAATTTCTGATA	0.373													12	80					0	0	1	0	0		C	73635812	C	C	73635812	3	2	89	1	0	0	0	0	1	0	0	0	535	11	1	5	393	5	ALMS1	2	73635812	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	158312	73635812	169563561	946	54777											
ALMS1	7840	broad.mit.edu	37	chr2	73675812	73675812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctactccccactcacatagaGagaagcctggtattttttac	11	12	6	12	0	1	2	1	0	0	2	2	3	2	2	3	1	3	1	3	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:73675812G>A	uc002sje.1	+	10	2272	c.2161G>A	c.(2161-2163)GAG>AAG	p.E721K	ALMS1_uc002sjf.1_Missense_Mutation_p.E677K|ALMS1_uc002sjg.2_Missense_Mutation_p.E107K|ALMS1_uc002sjh.1_Missense_Mutation_p.E107K	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	719	4.|34 X 47 AA approximate tandem repeat.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CTCACATAGAGAGAAGCCTGG	0.473													76	165					0	0	1	0	0		A	73675812	A	A	73675812	3	1	89	1	0	0	0	0	1	0	0	0	535	943	33	4	2185	4	ALMS1	2	73675812	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	40000	73675812	169523561	947	54778											
ALMS1	7840	broad.mit.edu	37	chr2	73679414	73679414	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgaagaagctttaaatgtTtttgttgttcctggacaagg	11	15	10	5	0	0	2	0	1	0	1	1	3	1	3	1	2	1	4	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:73679414T>G	uc002sje.1	+	10	5874	c.5763T>G	c.(5761-5763)GTT>GTG	p.V1921V	ALMS1_uc002sjf.1_Silent_p.V1877V|ALMS1_uc002sjg.2_Silent_p.V1307V|ALMS1_uc002sjh.1_Silent_p.V1307V	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1919	34 X 47 AA approximate tandem repeat.|30.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CTTTAAATGTTTTTGTTGTTC	0.418													27	68					0	0	1	0	0		G	73679414	G	G	73679414	2	3	89	1	0	0	0	0	0	0	0	1	535	1828	64	5		5	ALMS1	2	73679414	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3602	73679414	169519959	948	54779											
ALMS1	7840	broad.mit.edu	37	chr2	73680757	73680757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctctacaggaagcagagaGcaaagtcagtatggcattag	14	8	11	8	0	2	1	1	0	1	1	3	3	3	2	1	2	3	4	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:73680757G>A	uc002sje.1	+	10	7217	c.7106G>A	c.(7105-7107)AGC>AAC	p.S2369N	ALMS1_uc002sjf.1_Missense_Mutation_p.S2325N|ALMS1_uc002sjg.2_Missense_Mutation_p.S1755N|ALMS1_uc002sjh.1_Missense_Mutation_p.S1755N	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2367					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GAAGCAGAGAGCAAAGTCAGT	0.418													26	84					0	0	1	0	0		A	73680757	A	A	73680757	3	1	89	1	0	0	0	0	1	0	0	0	535	971	34	2	7130	2	ALMS1	2	73680757	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1343	73680757	169518616	949	54780											
ALMS1	7840	broad.mit.edu	37	chr2	73717091	73717091	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaaaatcagcaaaggtcttCgaatgccattcgatgaaaag	16	9	8	8	2	3	1	2	1	1	0	5	3	3	1	1	1	2	1	1	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:73717091C>T	uc002sje.1	+	12	8119	c.8008C>T	c.(8008-8010)CGA>TGA	p.R2670*	ALMS1_uc002sjf.1_Nonsense_Mutation_p.R2626*|ALMS1_uc002sjg.2_Nonsense_Mutation_p.R2056*|ALMS1_uc002sjh.1_Nonsense_Mutation_p.R2056*	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2668					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CAAAGGTCTTCGAATGCCATT	0.378													77	141					0	0	1	0	0		T	73717091	T	T	73717091	4	4	89	1	0	0	0	0	0	1	0	0	535	876	31	1	8040	1	ALMS1	2	73717091	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	36334	73717091	169482282	950	54781											
ALMS1	7840	broad.mit.edu	37	chr2	73777441	73777441	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagctcaggtgctaggcAcaagagatgatgacctctca	11	8	10	12	0	2	3	2	2	1	1	4	4	3	3	2	2	2	3	2	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:73777441A>C	uc002sje.1	+	15	10069	c.9958A>C	c.(9958-9960)ACA>CCA	p.T3320P	ALMS1_uc002sjf.1_Missense_Mutation_p.T3276P|ALMS1_uc002sjg.2_Missense_Mutation_p.T2706P|ALMS1_uc002sjh.1_Missense_Mutation_p.T2706P|ALMS1_uc010fev.1_Intron	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3318					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GGTGCTAGGCACAAGAGATGA	0.438													37	67					0	0	1	0	0		C	73777441	C	C	73777441	3	2	89	1	0	0	0	0	1	0	0	0	535	159	6	5	10002	5	ALMS1	2	73777441	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	60350	73777441	169421932	951	54782											
ALMS1	7840	broad.mit.edu	37	chr2	73826650	73826650	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaagggcatacaagcaggTaattacttgaatctaaactt	17	10	7	7	0	1	1	0	1	1	0	1	1	1	1	0	2	5	3	0	2	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:73826650T>G	uc002sje.1	+	19	11782	c.11671_splice	c.e19+2	p.G3891_splice	ALMS1_uc002sjf.1_Splice_Site_p.G3847_splice|ALMS1_uc002sjh.1_Splice_Site_p.G3277_splice	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1						G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TACAAGCAGGTAATTACTTGA	0.229													64	105					0	0	1	0	0		G	73826650	G	G	73826650	5	3	89	1	0	0	0	0	0	0	1	0	535	1652	57	5	11733	5	ALMS1	2	73826650	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	49209	73826650	169372723	952	54783											
NAT8	9027	broad.mit.edu	37	chr2	73868397	73868397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caggcagagctcctaccatgCccaccaccttctcttcagac	9	8	6	18	0	2	2	1	0	1	2	4	2	3	2	5	1	3	2	5	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:73868397C>T	uc002sji.1	-	2	526	c.359G>A	c.(358-360)GGC>GAC	p.G120D		NM_003960	NP_003951	Q9UHE5	NAT8_HUMAN	N-acetyltransferase 8	120	N-acetyltransferase.				gastrulation with mouth forming second|response to drug	integral to membrane	N-acetyltransferase activity			ovary(1)	1						TCCTACCATGCCCACCACCTT	0.532													39	72					0	0	1	0	0		T	73868397	T	T	73868397	3	4	89	1	0	0	0	0	1	0	0	0	10197	739	26	2	328	2	NAT8	2	73868397	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	41747	73868397	169330976	953	54784											
NAT8	9027	broad.mit.edu	37	chr2	73868654	73868654	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgaggcagcttcagcaattgCcggaaggtggctggggcatg	8	7	17	9	2	1	0	1	0	0	0	1	2	1	1	1	6	3	5	1	6	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:73868654C>T	uc002sji.1	-	2	269	c.102G>A	c.(100-102)CGG>CGA	p.R34R		NM_003960	NP_003951	Q9UHE5	NAT8_HUMAN	N-acetyltransferase 8	34					gastrulation with mouth forming second|response to drug	integral to membrane	N-acetyltransferase activity			ovary(1)	1						TCAGCAATTGCCGGAAGGTGG	0.617													62	100					0	0	1	0	0		T	73868654	T	T	73868654	2	4	89	1	0	0	0	0	0	0	0	1	10197	726	26	2		2	NAT8	2	73868654	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	257	73868654	169330719	954	54785											
C2orf78	388960	broad.mit.edu	37	chr2	74043935	74043935	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatggaggaaacccactgTtcctgagccagtaatgtcaa	12	9	9	11	0	1	1	1	1	0	0	3	3	3	3	4	2	2	2	4	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:74043935T>C	uc002sjr.1	+	3	2706	c.2585T>C	c.(2584-2586)GTT>GCT	p.V862A		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	862										ovary(2)	2						AAACCCACTGTTCCTGAGCCA	0.527													28	46					0	0	1	0	0		C	74043935	C	C	74043935	3	2	89	1	0	0	0	0	1	0	0	0	2198	1725	60	3	2595	3	C2orf78	2	74043935	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	175281	74043935	169155438	955	54786											
DCTN1	1639	broad.mit.edu	37	chr2	74594897	74594897	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatccttgtgcagcagttCaatgaggaaatccaaggagc	12	9	11	9	0	1	2	1	2	0	0	3	4	3	4	2	2	3	3	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:74594897C>A	uc002skx.2	-	18	2421	c.2110G>T	c.(2110-2112)GAA>TAA	p.E704*	DCTN1_uc002skt.1_5'Flank|DCTN1_uc002skv.2_Nonsense_Mutation_p.E570*|DCTN1_uc002sku.2_Nonsense_Mutation_p.E570*|DCTN1_uc002skw.1_Nonsense_Mutation_p.E680*|DCTN1_uc010ffd.2_Nonsense_Mutation_p.E684*|DCTN1_uc002sky.2_Nonsense_Mutation_p.E667*	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	704					cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						TGCAGCAGTTCAATGAGGAAA	0.522													27	40					3.6726e-16	4.20841e-16	1	1	0		A	74594897	A	A	74594897	4	1	89	1	0	0	0	0	0	1	0	0	4309	835	29	5	1786	5	DCTN1	2	74594897	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	550962	74594897	168604476	956	54787											
DQX1	165545	broad.mit.edu	37	chr2	74746199	74746199	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atctcagaaacaatggaaagGcagttgtctttggatatggt	13	12	11	5	0	2	1	1	0	2	1	3	3	2	3	0	4	1	2	0	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:74746199G>T	uc010yrw.1	-	11	2130	c.1965C>A	c.(1963-1965)TGC>TGA	p.C655*	DQX1_uc002smc.2_Nonsense_Mutation_p.C216*	NM_133637	NP_598376	Q8TE96	DQX1_HUMAN	DEAQ box polypeptide 1 (RNA-dependent ATPase)	655						nucleus	ATP binding|helicase activity|nucleic acid binding			ovary(2)	2						CAATGGAAAGGCAGTTGTCTT	0.527													27	66					2.61193e-14	2.9448e-14	1	1	0		T	74746199	T	T	74746199	4	4	89	1	0	0	0	0	0	1	0	0	4757	1195	42	5	196	5	DQX1	2	74746199	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	151302	74746199	168453174	957	54788											
AUP1	550	broad.mit.edu	37	chr2	74754076	74754076	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaccccctcaccttcttgcGtattcatatagtgcttgctt	7	16	5	13	1	3	0	2	0	1	0	3	0	3	0	3	0	4	3	3	0	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:74754076G>A	uc010yrx.1	-	10	1485	c.1359C>T	c.(1357-1359)TAC>TAT	p.Y453Y	DQX1_uc010yrw.1_5'Flank|AUP1_uc002sme.2_Silent_p.Y129Y|AUP1_uc002smf.2_Silent_p.Y396Y|AUP1_uc002smg.2_RNA|AUP1_uc002smh.2_Silent_p.Y305Y|HTRA2_uc002smi.1_5'Flank|HTRA2_uc002smj.1_5'Flank|HTRA2_uc002smk.1_5'Flank|HTRA2_uc002sml.1_5'Flank|HTRA2_uc002smm.1_5'Flank|HTRA2_uc002smn.1_5'Flank			Q9Y679	AUP1_HUMAN	SubName: Full=cDNA FLJ57204, highly similar to Homo sapiens ancient ubiquitous protein 1 (AUP1), transcript variant 2, mRNA;	462	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nucleus	protein binding				0						ACCTTCTTGCGTATTCATATA	0.517													6	82					0	0	1	0	0		A	74754076	A	A	74754076	2	1	89	1	0	0	0	0	0	0	0	1	1221	1140	40	1		1	AUP1	2	74754076	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7877	74754076	168445297	958	54789											
SEMA4F	10505	broad.mit.edu	37	chr2	74901669	74901669	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccagcagagatggacgacGtttttgaaagctgacctgct	10	10	11	10	2	0	3	0	2	0	1	1	6	1	4	2	1	3	4	2	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:74901669G>A	uc002sna.1	+	8	978	c.867G>A	c.(865-867)ACG>ACA	p.T289T	SEMA4F_uc010ysb.1_3'UTR|SEMA4F_uc010ffq.1_Silent_p.T256T|SEMA4F_uc010ffr.1_5'UTR|SEMA4F_uc002snb.1_5'UTR|SEMA4F_uc002snc.1_Silent_p.T134T	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	289	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GATGGACGACGTTTTTGAAAG	0.592													47	69					0	0	1	0	0		A	74901669	A	A	74901669	2	1	89	1	0	0	0	0	0	0	0	1	14060	1132	40	1		1	SEMA4F	2	74901669	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	147593	74901669	168297704	959	54790											
HK2	3099	broad.mit.edu	37	chr2	75113653	75113653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctacatggaggagatgcGcaacgtggaactggtggaag	11	7	16	7	2	0	1	0	0	0	1	0	5	0	4	0	5	5	2	0	5	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:75113653G>A	uc002snd.2	+	15	3998	c.2072G>A	c.(2071-2073)CGC>CAC	p.R691H		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	691	Catalytic.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						GAGGAGATGCGCAACGTGGAA	0.582													31	73					0	0	1	0	0		A	75113653	A	A	75113653	3	1	89	1	0	0	0	0	1	0	0	0	7207	1087	38	1	2130	1	HK2	2	75113653	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	211984	75113653	168085720	960	54791											
C2orf3	6936	broad.mit.edu	37	chr2	75897301	75897301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacatctggcccaggtgtgGcattgagaagtgctataata	11	10	11	9	0	1	1	0	1	1	1	1	2	1	1	2	3	1	2	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:75897301G>A	uc002sno.2	-	15	2196	c.2066C>T	c.(2065-2067)GCC>GTC	p.A689V	MRPL19_uc002snm.1_Intron|C2orf3_uc010ffs.2_Missense_Mutation_p.A251V|C2orf3_uc002snn.2_Missense_Mutation_p.A520V|C2orf3_uc010fft.2_Missense_Mutation_p.A364V	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	689					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CCCAGGTGTGGCATTGAGAAG	0.368													26	58					0	0	1	0	0		A	75897301	A	A	75897301	3	1	89	1	0	0	0	0	1	0	0	0	2165	1203	42	2	291	2	C2orf3	2	75897301	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	783648	75897301	167302072	961	54792											
C2orf3	6936	broad.mit.edu	37	chr2	75921549	75921549	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgagtttcctgtagtaatgTtaatctaaataaataaaata	17	15	6	3	0	1	1	0	1	1	0	2	1	2	1	1	0	0	4	1	0	10	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:75921549T>C	uc002sno.2	-	6	968	c.838A>G	c.(838-840)ACA>GCA	p.T280A	C2orf3_uc010ffs.2_5'UTR|C2orf3_uc002snn.2_Missense_Mutation_p.T111A|C2orf3_uc010fft.2_5'UTR	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	280	Potential.				negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						TGTAGTAATGTTAATCtaaat	0.313													41	75					0	0	1	0	0		C	75921549	C	C	75921549	3	2	89	1	0	0	0	0	1	0	0	0	2165	1725	60	3	1555	3	C2orf3	2	75921549	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	24248	75921549	167277824	962	54793											
SUCLG1	8802	broad.mit.edu	37	chr2	84676772	84676772	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taaaaatctagatatacataCctgtttgccagtgaaaccct	15	12	5	9	0	1	2	0	1	1	1	1	2	1	2	3	0	4	1	3	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:84676772C>T	uc002son.2	-	2	394	c.201_splice	c.e2+1	p.Q67_splice	SUCLG1_uc010ysk.1_Splice_Site_p.Q54_splice	NM_003849	NP_003840	P53597	SUCA_HUMAN	succinate-CoA ligase, GDP-forming alpha subunit						tricarboxylic acid cycle		ATP citrate synthase activity|GTP binding|succinate-CoA ligase (GDP-forming) activity				0					Succinic acid(DB00139)	GATATACATACCTGTTTGCCA	0.299													13	42					0	0	1	0	0		T	84676772	T	T	84676772	5	4	89	1	0	0	0	0	0	0	1	0	15389	521	18	4	870	4	SUCLG1	2	84676772	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8755223	84676772	158522601	963	54794											
DNAH6	1768	broad.mit.edu	37	chr2	84785047	84785047	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaattttcacacaattatTtctcaaataaaggtatgttt	16	16	4	5	0	2	1	2	0	1	1	3	1	2	1	0	1	0	2	0	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:84785047T>C	uc010fgb.2	+	11	1928	c.1791T>C	c.(1789-1791)ATT>ATC	p.I597I	DNAH6_uc002soo.2_Silent_p.I176I|DNAH6_uc002sop.2_Silent_p.I176I	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	597	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1						ACACAATTATTTCTCAAATAA	0.274													27	62					0	0	1	0	0		C	84785047	C	C	84785047	2	2	89	1	0	0	0	0	0	0	0	1	4611	1829	64	3		3	DNAH6	2	84785047	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	108275	84785047	158414326	964	54795											
ATOH8	84913	broad.mit.edu	37	chr2	85981435	85981435	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggcgcgcgaacggctataaAactttccgactggacttgga	10	8	12	11	6	0	0	0	0	0	0	1	4	1	2	1	4	2	1	1	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:85981435A>C	uc002sqn.2	+	1	527	c.123A>C	c.(121-123)AAA>AAC	p.K41N	ATOH8_uc002sqm.3_Missense_Mutation_p.K41N	NM_032827	NP_116216	Q96SQ7	ATOH8_HUMAN	atonal homolog 8	41					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0						ACGGCTATAAAACTTTCCGAC	0.667													11	31					0	0	1	0	0		C	85981435	C	C	85981435	3	2	89	1	0	0	0	0	1	0	0	0	1115	11	1	5	125	5	ATOH8	2	85981435	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1196388	85981435	157217938	965	54796											
POLR1A	25885	broad.mit.edu	37	chr2	86270116	86270116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcctgagtcccagggctgCggccattgcggttttcactc	4	11	11	15	2	1	1	1	1	0	0	4	1	3	1	4	3	2	2	4	3	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:86270116C>T	uc002sqs.2	-	23	3717	c.3338G>A	c.(3337-3339)CGC>CAC	p.R1113H	POLR1A_uc010ytb.1_Missense_Mutation_p.R479H|POLR1A_uc002sqt.1_Missense_Mutation_p.R136H	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	1113					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						CCCAGGGCTGCGGCCATTGCG	0.542													30	70					0	0	1	0	0		T	86270116	T	T	86270116	3	4	89	1	0	0	0	0	1	0	0	0	12228	768	27	1	1872	1	POLR1A	2	86270116	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	288681	86270116	156929257	966	54797											
MRPS5	64969	broad.mit.edu	37	chr2	95766633	95766633	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatggtgaactgctctgtTctttgcctgaaaggaaaatg	12	12	10	7	0	2	2	0	2	2	0	2	3	2	3	1	2	3	2	1	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:95766633T>C	uc002sub.2	-	9	1035	c.817A>G	c.(817-819)AAC>GAC	p.N273D	MRPS5_uc002suc.2_RNA	NM_031902	NP_114108	P82675	RT05_HUMAN	mitochondrial ribosomal protein S5	273	S5 DRBM.				translation	mitochondrion|ribosome	protein binding|RNA binding|structural constituent of ribosome			ovary(2)|central_nervous_system(1)	3						ACTGCTCTGTTCTTTGCCTGA	0.269													14	23					0	0	1	0	0		C	95766633	C	C	95766633	3	2	89	1	0	0	0	0	1	0	0	0	9864	1783	62	3	491	3	MRPS5	2	95766633	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	9496517	95766633	147432740	967	54798											
ZNF514	84874	broad.mit.edu	37	chr2	95815627	95815627	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattacatttacaagatttCttttctgggtgggttctctg	7	19	8	7	0	4	1	1	0	3	1	5	1	4	1	0	2	2	1	0	2	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:95815627C>A	uc002sue.1	-	5	977	c.603G>T	c.(601-603)AAG>AAT	p.K201N	ZNF514_uc002sud.1_Missense_Mutation_p.K274N	NM_032788	NP_116177	Q96K75	ZN514_HUMAN	zinc finger protein 514	201					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TACAAGATTTCTTTTCTGGGT	0.438													67	108					1.42676e-28	1.73645e-28	1	1	0		A	95815627	A	A	95815627	3	1	89	1	0	0	0	0	1	0	0	0	17984	912	32	5	603	5	ZNF514	2	95815627	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	48994	95815627	147383746	968	54799											
KCNIP3	30818	broad.mit.edu	37	chr2	96048135	96048135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccctccaggagatgctggCcatcatgaagtccatctatg	9	9	9	14	0	2	2	1	1	1	1	4	3	4	2	5	2	1	1	5	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:96048135C>T	uc002sup.2	+	7	681	c.566C>T	c.(565-567)GCC>GTC	p.A189V	KCNIP3_uc002suq.2_Missense_Mutation_p.A163V	NM_013434	NP_038462	Q9Y2W7	CSEN_HUMAN	Kv channel interacting protein 3 isoform 1	189	EF-hand 3.				apoptosis|signal transduction|transcription, DNA-dependent	endoplasmic reticulum|Golgi apparatus|nucleus|plasma membrane	calcium ion binding|DNA binding|potassium channel activity|transcription corepressor activity|voltage-gated ion channel activity			breast(2)|ovary(1)	3				READ - Rectum adenocarcinoma(193;0.13)		GAGATGCTGGCCATCATGAAG	0.662													11	11					0	0	1	0	0		T	96048135	T	T	96048135	3	4	89	1	0	0	0	0	1	0	0	0	8057	739	26	2	699	2	KCNIP3	2	96048135	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	232508	96048135	147151238	969	54800											
ADRA2B	151	broad.mit.edu	37	chr2	96781139	96781139	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttctccccagtggacttCgagtgtccgttgacctctct	4	14	8	15	2	2	1	0	1	2	0	7	3	4	2	5	1	0	1	5	1	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:96781139C>T	uc002svi.2	-	1	750	c.750G>A	c.(748-750)TCG>TCA	p.S250S		NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor	250	Cytoplasmic (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	CAGTGGACTTCGAGTGTCCGT	0.652													18	26					0	0	1	0	0		T	96781139	T	T	96781139	2	4	89	1	0	0	0	0	0	0	0	1	338	871	31	1		1	ADRA2B	2	96781139	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	733004	96781139	146418234	970	54801											
ITPRIPL1	150771	broad.mit.edu	37	chr2	96992397	96992397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagatgcagaggcctccatgGctgtgataagcctgctgttc	8	10	12	11	0	0	3	0	1	0	2	2	3	1	3	3	2	3	4	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:96992397G>A	uc002svx.2	+	3	363	c.28G>A	c.(28-30)GCT>ACT	p.A10T	ITPRIPL1_uc010yuk.1_Missense_Mutation_p.A2T|ITPRIPL1_uc002svy.2_Missense_Mutation_p.A18T|ITPRIPL1_uc010yul.1_Missense_Mutation_p.A2T	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	10						integral to membrane				central_nervous_system(2)|ovary(1)	3						GGCCTCCATGGCTGTGATAAG	0.527													32	85					0	0	1	0	0		A	96992397	A	A	96992397	3	1	89	1	0	0	0	0	1	0	0	0	7940	1203	42	2	68	2	ITPRIPL1	2	96992397	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	211258	96992397	146206976	971	54802											
FAHD2B	151313	broad.mit.edu	37	chr2	97749770	97749770	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccctgggtaaaaggtaacaAacctggagcaaagcaaaagg	17	4	11	9	0	0	0	0	0	0	0	0	1	0	1	3	4	4	4	3	4	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:97749770A>C	uc002sxm.2	-	7	948	c.797T>G	c.(796-798)TTT>TGT	p.F266C		NM_199336	NP_955368	Q6P2I3	FAH2B_HUMAN	fumarylacetoacetate hydrolase domain containing	266							hydrolase activity|metal ion binding				0						AAAGGTAACAAACCTGGAGCA	0.552													17	30					0	0	1	0	0		C	97749770	C	C	97749770	3	2	89	1	0	0	0	0	1	0	0	0	5385	14	1	5	155	5	FAHD2B	2	97749770	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	757373	97749770	145449603	972	54803											
ANKRD36B	57730	broad.mit.edu	37	chr2	98165944	98165944	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaacagaatcttccttgAcacttgtagcctgaatggaa	14	11	7	9	0	2	3	1	2	1	1	3	4	3	4	2	1	2	1	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:98165944A>G	uc010yvc.1	-	20	1695	c.1415T>C	c.(1414-1416)GTC>GCC	p.V472A	ANKRD36B_uc010yve.1_RNA	NM_025190	NP_079466	Q8N2N9	AN36B_HUMAN	ankyrin repeat domain 36B	472											0						ATCTTCCTTGACACTTGTAGC	0.294													6	7					0	0	1	0	0		G	98165944	G	G	98165944	3	3	89	1	0	0	0	0	1	0	0	0	666	275	10	3	2742	3	ANKRD36B	2	98165944	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	416174	98165944	145033429	973	54804											
ZAP70	7535	broad.mit.edu	37	chr2	98341627	98341627	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcattgctacgacggcccacGagcggatgccctggtaccac	8	7	11	15	4	1	0	1	0	0	0	1	3	1	1	3	3	5	2	3	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:98341627G>A	uc002syd.1	+	4	682	c.475G>A	c.(475-477)GAG>AAG	p.E159K	ZAP70_uc010yvf.1_Missense_Mutation_p.E159K|ZAP70_uc002sye.1_Missense_Mutation_p.E49K	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	159	Interdomain A.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						GACGGCCCACGAGCGGATGCC	0.642													25	34					0	0	1	0	0		A	98341627	A	A	98341627	3	1	89	1	0	0	0	0	1	0	0	0	17540	1059	37	1	481	1	ZAP70	2	98341627	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	175683	98341627	144857746	974	54805											
ZAP70	7535	broad.mit.edu	37	chr2	98354262	98354262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctcaagtggtacgcacccGaatgcatcaacttccgcaag	11	7	9	14	4	2	0	2	0	0	0	3	1	3	0	2	1	3	5	2	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:98354262G>A	uc002syd.1	+	12	1732	c.1525G>A	c.(1525-1527)GAA>AAA	p.E509K	ZAP70_uc002sye.1_Missense_Mutation_p.E399K|ZAP70_uc002syf.1_Missense_Mutation_p.E202K	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	509	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						GTACGCACCCGAATGCATCAA	0.637													56	146					0	0	1	0	0		A	98354262	A	A	98354262	3	1	89	1	0	0	0	0	1	0	0	0	17540	1059	37	1	1563	1	ZAP70	2	98354262	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12635	98354262	144845111	975	54806											
TMEM131	23505	broad.mit.edu	37	chr2	98409193	98409193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccttgagtcactgtgttcGaatctaagacaagggggctt	10	11	12	8	1	2	2	1	1	1	1	3	4	2	2	1	2	0	2	1	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:98409193G>A	uc002syh.3	-	31	4029	c.3800C>T	c.(3799-3801)TCG>TTG	p.S1267L		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1267						integral to membrane				ovary(4)|central_nervous_system(2)	6						CACTGTGTTCGAATCTAAGAC	0.527													21	35					0	0	1	0	0		A	98409193	A	A	98409193	3	1	89	1	0	0	0	0	1	0	0	0	16069	1059	37	1	1895	1	TMEM131	2	98409193	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	54931	98409193	144790180	976	54807											
TMEM131	23505	broad.mit.edu	37	chr2	98431743	98431743	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taactgttattttcccagaaAactgagatggcttttttgcc	10	16	7	8	0	0	2	0	1	0	2	1	3	1	2	2	1	3	2	2	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:98431743A>C	uc002syh.3	-	13	1440	c.1211T>G	c.(1210-1212)TTT>TGT	p.F404C	TMEM131_uc010yvg.1_RNA	NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	404						integral to membrane				ovary(4)|central_nervous_system(2)	6						TTTCCCAGAAAACTGAGATGG	0.303													12	41					0	0	1	0	0		C	98431743	C	C	98431743	3	2	89	1	0	0	0	0	1	0	0	0	16069	14	1	5	4556	5	TMEM131	2	98431743	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	22550	98431743	144767630	977	54808											
LIPT1	51601	broad.mit.edu	37	chr2	99779151	99779151	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatcatcaaattgataatcAcattcacctaataaacccaa	18	12	1	10	0	4	1	4	1	0	0	4	1	4	1	2	0	1	0	2	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:99779151A>G	uc002szm.3	+	4	1071	c.731A>G	c.(730-732)CAC>CGC	p.H244R	MRPL30_uc002szl.1_Intron|LIPT1_uc002szn.3_Missense_Mutation_p.H244R|LIPT1_uc002szo.3_Missense_Mutation_p.H244R|LIPT1_uc002szp.3_Missense_Mutation_p.H244R|LIPT1_uc002szq.3_Missense_Mutation_p.H244R|MRPL30_uc002szr.2_Intron	NM_145198	NP_660199	Q9Y234	LIPT_HUMAN	lipoyltransferase 1 precursor	244					lipid metabolic process|protein lipoylation	mitochondrion	acyltransferase activity				0					Lipoic Acid(DB00166)	ATTGATAATCACATTCACCTA	0.383													23	46					0	0	1	0	0		G	99779151	G	G	99779151	3	3	89	1	0	0	0	0	1	0	0	0	8846	159	6	3	733	3	LIPT1	2	99779151	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1347408	99779151	143420222	978	54809											
LYG2	254773	broad.mit.edu	37	chr2	99858912	99858912	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtccgatggggtggcaatcGcttcaattcctgacttaaaa	10	12	10	9	2	1	1	1	1	0	0	4	2	3	1	2	3	0	2	2	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:99858912G>A	uc002szw.1	-	6	667	c.554C>T	c.(553-555)GCG>GTG	p.A185V	MRPL30_uc002szl.1_Intron|LYG2_uc010fip.1_3'UTR	NM_175735	NP_783862	Q86SG7	LYG2_HUMAN	lysozyme G-like 2 precursor	185					cell wall macromolecule catabolic process|peptidoglycan catabolic process	extracellular region	lysozyme activity			ovary(1)	1						GGTGGCAATCGCTTCAATTCC	0.403													45	113					0	0	1	0	0		A	99858912	A	A	99858912	3	1	89	1	0	0	0	0	1	0	0	0	9123	1087	38	1	88	1	LYG2	2	99858912	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	79761	99858912	143340461	979	54810											
EIF5B	9669	broad.mit.edu	37	chr2	100009490	100009490	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtaaagattcttggaaaaGacctggagaaaacattggct	15	9	12	5	0	1	3	0	0	1	3	1	5	1	4	1	4	1	2	1	4	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:100009490G>T	uc002tab.2	+	18	2993	c.2809G>T	c.(2809-2811)GAC>TAC	p.D937Y	EIF5B_uc010yvq.1_5'Flank	NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	937					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						TCTTGGAAAAGACCTGGAGAA	0.338													18	39					9.95505e-16	1.13788e-15	1	1	0		T	100009490	T	T	100009490	3	4	89	1	0	0	0	0	1	0	0	0	5052	942	33	5	2879	5	EIF5B	2	100009490	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	150578	100009490	143189883	980	54811											
EIF5B	9669	broad.mit.edu	37	chr2	100011005	100011005	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattggcccagtgcataaaAaagatgttatgaaggcttca	15	10	9	7	0	1	2	1	1	0	1	1	2	1	2	1	2	1	3	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:100011005A>C	uc002tab.2	+	20	3230	c.3046A>C	c.(3046-3048)AAA>CAA	p.K1016Q	EIF5B_uc010yvq.1_5'UTR	NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	1016					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						AGTGCATAAAAAAGATGTTAT	0.383													89	186					0	0	1	0	0		C	100011005	C	C	100011005	3	2	89	1	0	0	0	0	1	0	0	0	5052	15	1	5	3124	5	EIF5B	2	100011005	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1515	100011005	143188368	981	54812											
REV1	51455	broad.mit.edu	37	chr2	100037985	100037985	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacagaggcagcacattTcgtctggtctttgatttcca	9	13	8	11	1	2	2	0	1	2	1	5	2	4	2	2	2	2	2	2	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:100037985T>G	uc002tad.2	-	11	2019	c.1807A>C	c.(1807-1809)AAA>CAA	p.K603Q	REV1_uc002tac.2_Missense_Mutation_p.K602Q	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	603	UmuC.				DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						GCAGCACATTTCGTCTGGTCT	0.378								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					41	99					0	0	1	0	0		G	100037985	G	G	100037985	3	3	89	1	0	0	0	0	1	0	0	0	13264	1792	62	5	2000	5	REV1	2	100037985	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	26980	100037985	143161388	982	54813											
AFF3	3899	broad.mit.edu	37	chr2	100181988	100181988	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatacatcgtataaggaGatttggattccatggggcct	11	12	11	7	1	0	2	0	1	0	1	2	4	1	3	2	4	1	1	2	4	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:100181988G>T	uc002tag.2	-	19	3316	c.3080C>A	c.(3079-3081)TCT>TAT	p.S1027Y	AFF3_uc002taf.2_Missense_Mutation_p.S1052Y	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	1027					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						CGTATAAGGAGATTTGGATTC	0.453													13	140					4.93089e-13	5.49801e-13	1	1	0		T	100181988	T	T	100181988	3	4	89	1	0	0	0	0	1	0	0	0	358	942	33	5	624	5	AFF3	2	100181988	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	144003	100181988	143017385	983	54814											
AFF3	3899	broad.mit.edu	37	chr2	100209899	100209899	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggggaccagtgtgtagaActgctcctccagctccttgg	9	9	12	11	0	0	1	0	0	0	1	3	2	3	2	4	3	3	3	4	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:100209899A>C	uc002tag.2	-	14	2460	c.2224T>G	c.(2224-2226)TTC>GTC	p.F742V	AFF3_uc002taf.2_Missense_Mutation_p.F767V|AFF3_uc010fiq.1_Missense_Mutation_p.F742V|AFF3_uc010yvr.1_Missense_Mutation_p.F895V|AFF3_uc002tah.1_Missense_Mutation_p.F767V	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	742					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						AGTGTGTAGAACTGCTCCTCC	0.592													43	86					0	0	1	0	0		C	100209899	C	C	100209899	3	2	89	1	0	0	0	0	1	0	0	0	358	43	2	5	1500	5	AFF3	2	100209899	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	27911	100209899	142989474	984	54815											
NPAS2	4862	broad.mit.edu	37	chr2	101549440	101549440	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcattcctcagtaatgaaGaattcacccagctgatgttg	11	13	7	10	0	3	3	3	2	0	1	4	3	4	3	2	0	1	3	2	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:101549440G>T	uc002tap.1	+	4	536	c.250G>T	c.(250-252)GAA>TAA	p.E84*	NPAS2_uc010yvt.1_Nonsense_Mutation_p.E149*	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	84	PAS 1.				central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						CAGTAATGAAGAATTCACCCA	0.398													24	48					3.7963e-18	4.42695e-18	1	1	0		T	101549440	T	T	101549440	4	4	89	1	0	0	0	0	0	1	0	0	10582	943	33	5	260	5	NPAS2	2	101549440	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1339541	101549440	141649933	985	54816											
MAP4K4	9448	broad.mit.edu	37	chr2	102456429	102456429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcttaaggatcatatagatCgtaccaggaagaagagaggc	16	7	12	6	1	1	3	1	0	0	3	2	6	1	5	1	3	2	2	1	3	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:102456429C>T	uc002tbg.2	+	10	977	c.922C>T	c.(922-924)CGT>TGT	p.R308C	MAP4K4_uc002tbc.2_Missense_Mutation_p.R308C|MAP4K4_uc002tbd.2_Missense_Mutation_p.R308C|MAP4K4_uc002tbe.2_Missense_Mutation_p.R308C|MAP4K4_uc002tbf.2_Missense_Mutation_p.R308C|MAP4K4_uc010yvy.1_Missense_Mutation_p.R308C|MAP4K4_uc002tbh.2_Missense_Mutation_p.R308C|MAP4K4_uc002tbi.2_Intron|MAP4K4_uc010yvz.1_Missense_Mutation_p.R288C|MAP4K4_uc010fiw.1_Missense_Mutation_p.R150C|MAP4K4_uc002tbj.1_Missense_Mutation_p.R204C	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	308					intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TCATATAGATCGTACCAGGAA	0.403													17	61					0	0	1	0	0		T	102456429	T	T	102456429	3	4	89	1	0	0	0	0	1	0	0	0	9280	884	31	1	960	1	MAP4K4	2	102456429	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	906989	102456429	140742944	986	54817											
IL1R2	7850	broad.mit.edu	37	chr2	102636172	102636172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccactcacttactcgtacacGatgtggccctggaagatgct	9	10	9	13	2	1	1	1	0	0	1	2	3	1	2	2	2	3	2	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:102636172G>A	uc002tbm.2	+	5	815	c.586G>A	c.(586-588)GAT>AAT	p.D196N	IL1R2_uc002tbn.2_Missense_Mutation_p.D196N|IL1R2_uc002tbo.1_Missense_Mutation_p.D196N	NM_004633	NP_004624	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II precursor	196	Extracellular (Potential).|Ig-like C2-type 2.				immune response	integral to membrane|plasma membrane	interleukin-1, Type II, blocking receptor activity			ovary(1)|breast(1)	2					Anakinra(DB00026)	ACTCGTACACGATGTGGCCCT	0.428													11	23					0	0	1	0	0		A	102636172	A	A	102636172	3	1	89	1	0	0	0	0	1	0	0	0	7675	1058	37	1	600	1	IL1R2	2	102636172	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	179743	102636172	140563201	987	54818											
IL18R1	8809	broad.mit.edu	37	chr2	103006646	103006646	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttggttctattttatagAcatttaacgagaagagatga	14	14	9	4	1	1	4	0	1	1	3	1	7	1	4	0	1	1	1	0	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:103006646A>G	uc002tbw.3	+	9	1230	c.1080A>G	c.(1078-1080)AGA>AGG	p.R360R	IL18R1_uc010ywc.1_Silent_p.R359R|IL18R1_uc010ywd.1_Silent_p.R204R|IL18R1_uc010fiy.2_Silent_p.R360R	NM_003855	NP_003846	Q13478	IL18R_HUMAN	interleukin 18 receptor 1 precursor	360	Cytoplasmic (Potential).				innate immune response	integral to membrane|plasma membrane	interleukin-1 receptor activity			ovary(2)|pancreas(1)	3						TATTTTATAGACATTTAACGA	0.338													19	40					0	0	1	0	0		G	103006646	G	G	103006646	2	3	89	1	0	0	0	0	0	0	0	1	7663	272	10	3		3	IL18R1	2	103006646	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	370474	103006646	140192727	988	54819											
IL18RAP	8807	broad.mit.edu	37	chr2	103053710	103053710	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggaaaggagcaaccgaatCgtagtggatgaagtttatga	14	9	14	4	2	0	2	0	2	0	0	1	6	0	5	1	3	2	3	1	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:103053710C>T	uc002tbx.2	+	6	1102	c.618C>T	c.(616-618)ATC>ATT	p.I206I	IL18RAP_uc010fiz.2_Silent_p.I64I	NM_003853	NP_003844	O95256	I18RA_HUMAN	interleukin 18 receptor accessory protein	206	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|inflammatory response|innate immune response	integral to membrane	transmembrane receptor activity			skin(3)|ovary(2)	5						GCAACCGAATCGTAGTGGATG	0.388													33	61					0	0	1	0	0		T	103053710	T	T	103053710	2	4	89	1	0	0	0	0	0	0	0	1	7664	874	31	1		1	IL18RAP	2	103053710	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	47064	103053710	140145663	989	54820											
SLC9A4	389015	broad.mit.edu	37	chr2	103142801	103142801	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacaagggctgctgggttCtcaggtaagctgcccacctg	8	8	13	12	0	1	0	1	0	1	0	2	1	1	0	2	3	3	5	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:103142801C>A	uc002tbz.3	+	11	2491	c.2034C>A	c.(2032-2034)TTC>TTA	p.F678L		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	678	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						CTGCTGGGTTCTCAGGTAAGC	0.388													33	54					1.61788e-16	1.85964e-16	1	1	0		A	103142801	A	A	103142801	3	1	89	1	0	0	0	0	1	0	0	0	14741	912	32	5	2076	5	SLC9A4	2	103142801	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	89091	103142801	140056572	990	54821											
SLC9A2	6549	broad.mit.edu	37	chr2	103281693	103281693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcttcttgggctttatagcGgcatttactactcgattcac	8	16	7	10	2	3	0	1	0	2	0	4	1	3	0	0	2	3	2	0	2	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:103281693G>A	uc002tca.2	+	3	1030	c.888G>A	c.(886-888)GCG>GCA	p.A296A		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	296	Helical; Name=H/M6; (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						GCTTTATAGCGGCATTTACTA	0.438													50	91					0	0	1	0	0		A	103281693	A	A	103281693	2	1	89	1	0	0	0	0	0	0	0	1	14737	1103	39	1		1	SLC9A2	2	103281693	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	138892	103281693	139917680	991	54822											
TMEM182	130827	broad.mit.edu	37	chr2	103431205	103431205	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctgtttcatccttctcAggcatcctattttcattggt	5	20	5	11	0	5	0	3	0	3	0	8	0	7	0	2	2	0	2	2	2	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:103431205A>C	uc010fjb.2	+	5	657	c.470_splice	c.e5-2	p.G157_splice	TMEM182_uc002tcc.3_Splice_Site_p.G114_splice|TMEM182_uc002tcd.3_Splice_Site_p.G61_splice|TMEM182_uc010ywe.1_Splice_Site	NM_144632	NP_653233	Q6ZP80	TM182_HUMAN	transmembrane protein 182 precursor							integral to membrane					0						CATCCTTCTCAGGCATCCTAT	0.448													8	24					0	0	1	0	0		C	103431205	C	C	103431205	5	2	89	1	0	0	0	0	0	0	1	0	16126	202	7	5	486	5	TMEM182	2	103431205	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	149512	103431205	139768168	992	54823											
TGFBRAP1	9392	broad.mit.edu	37	chr2	105915107	105915107	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagccgccccaatcacattCtccgaccagtgcacgggggc	9	5	10	17	3	2	0	1	0	1	0	3	1	2	0	5	2	2	1	5	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:105915107C>T	uc002tcq.2	-	3	828	c.744G>A	c.(742-744)GAG>GAA	p.E248E	TGFBRAP1_uc010fjc.2_Silent_p.E18E|TGFBRAP1_uc002tcr.3_Silent_p.E248E	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	248	CNH.				regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						CAATCACATTCTCCGACCAGT	0.522													26	45					0	0	1	0	0		T	105915107	T	T	105915107	2	4	89	1	0	0	0	0	0	0	0	1	15849	912	32	4		4	TGFBRAP1	2	105915107	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2483902	105915107	137284266	993	54824											
ST6GAL2	84620	broad.mit.edu	37	chr2	107450509	107450509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actccatctgtcttacctgcGaattaatgatgcgtatggtg	9	14	9	9	2	2	1	0	1	2	0	3	2	3	1	2	1	3	1	2	1	4	3	rs138821621		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:107450509G>A	uc002tdq.2	-	3	1156	c.1037C>T	c.(1036-1038)TCG>TTG	p.S346L	ST6GAL2_uc002tdr.2_Missense_Mutation_p.S346L|ST6GAL2_uc002tds.3_Missense_Mutation_p.S346L	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	346	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						TCTTACCTGCGAATTAATGAT	0.393													38	87					0	0	1	0	0		A	107450509	A	A	107450509	3	1	89	1	0	0	0	0	1	0	0	0	15247	1059	37	1	655	1	ST6GAL2	2	107450509	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1535402	107450509	135748864	994	54825											
SLC5A7	60482	broad.mit.edu	37	chr2	108626988	108626988	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaccctgatgataatggtAtatataatcagaaatttcca	16	14	5	6	0	1	3	1	2	0	1	2	3	2	3	2	1	1	1	2	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:108626988A>G	uc002tdv.2	+	9	1690	c.1414A>G	c.(1414-1416)ATA>GTA	p.I472V	SLC5A7_uc010ywm.1_Missense_Mutation_p.I225V|SLC5A7_uc010fjj.2_Missense_Mutation_p.I472V|SLC5A7_uc010ywn.1_Missense_Mutation_p.I359V	NM_021815	NP_068587	Q9GZV3	SC5A7_HUMAN	solute carrier family 5 (choline transporter),	472	Cytoplasmic (Potential).				acetylcholine biosynthetic process|neurotransmitter secretion	integral to membrane|plasma membrane	choline:sodium symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4					Choline(DB00122)	TGATAATGGTATATATAATCA	0.383													35	66					0	0	1	0	0		G	108626988	G	G	108626988	3	3	89	1	0	0	0	0	1	0	0	0	14695	449	16	3	1444	3	SLC5A7	2	108626988	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1176479	108626988	134572385	995	54826											
SULT1C3	442038	broad.mit.edu	37	chr2	108875197	108875197	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacttcttccagttgttggCgggtcctggtttgaccatgt	4	16	12	9	1	1	2	0	2	1	0	3	2	3	2	3	3	0	3	3	3	0	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:108875197C>T	uc010ywo.1	+	5	534	c.534C>T	c.(532-534)GGC>GGT	p.G178G		NM_001008743	NP_001008743	Q6IMI6	ST1C3_HUMAN	sulfotransferase family, cytosolic, 1C, member	178						cytoplasm	alcohol sulfotransferase activity			skin(1)	1						CAGTTGTTGGCGGGTCCTGGT	0.448													29	44					0	0	1	0	0		T	108875197	T	T	108875197	2	4	89	1	0	0	0	0	0	0	0	1	15403	755	27	1		1	SULT1C3	2	108875197	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	248209	108875197	134324176	996	54827											
GCC2	9648	broad.mit.edu	37	chr2	109086173	109086173	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatataaactatgtgaaaGaaattgaaaatttgaaaaat	22	11	5	3	0	0	4	0	3	0	1	0	4	0	4	0	0	1	0	0	0	10	5	rs35216570		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:109086173G>T	uc002tec.2	+	6	542	c.388G>T	c.(388-390)GAA>TAA	p.E130*	GCC2_uc002ted.2_Nonsense_Mutation_p.E29*	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	130	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						CTATGTGAAAGAAATTGAAAA	0.323													39	77					6.03168e-27	7.31373e-27	1	1	0		T	109086173	T	T	109086173	4	4	89	1	0	0	0	0	0	1	0	0	6301	943	33	5	410	5	GCC2	2	109086173	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	210976	109086173	134113200	997	54828											
GCC2	9648	broad.mit.edu	37	chr2	109087388	109087388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaaaaagatgcccttctcGaaactgtgaatcgcctccag	12	9	8	12	2	1	3	0	2	1	1	4	4	2	3	3	0	2	0	3	0	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:109087388G>A	uc002tec.2	+	6	1757	c.1603G>A	c.(1603-1605)GAA>AAA	p.E535K	GCC2_uc002ted.2_Missense_Mutation_p.E434K	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	535	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						tgcccttctcgaaactgtgaa	0.149													47	86					0	0	1	0	0		A	109087388	A	A	109087388	3	1	89	1	0	0	0	0	1	0	0	0	6301	1059	37	1	1625	1	GCC2	2	109087388	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1215	109087388	134111985	998	54829											
GCC2	9648	broad.mit.edu	37	chr2	109088540	109088540	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactagaacaaaaagaattaCgagataggagagcagagttg	19	7	11	4	1	0	5	0	0	0	5	0	7	0	5	0	1	4	2	0	1	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:109088540C>T	uc002tec.2	+	6	2909	c.2755C>T	c.(2755-2757)CGA>TGA	p.R919*	GCC2_uc002ted.2_Nonsense_Mutation_p.R818*	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	919	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						AAAAGAATTACGAGATAGGAG	0.279													38	82					0	0	1	0	0		T	109088540	T	T	109088540	4	4	89	1	0	0	0	0	0	1	0	0	6301	528	19	1	2777	1	GCC2	2	109088540	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1152	109088540	134110833	999	54830											
RANBP2	5903	broad.mit.edu	37	chr2	109379884	109379884	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggggtgatgattactttaaTtacaatgttcaacagacaag	15	12	9	5	0	1	3	1	2	0	1	1	3	1	3	0	2	3	1	0	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:109379884T>G	uc002tem.3	+	20	3015	c.2889T>G	c.(2887-2889)AAT>AAG	p.N963K		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	963					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						ATTACTTTAATTACAATGTTC	0.443													37	61					0	0	1	0	0		G	109379884	G	G	109379884	3	3	89	1	0	0	0	0	1	0	0	0	13053	1490	52	5	2967	5	RANBP2	2	109379884	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	291344	109379884	133819489	1000	54831											
RANBP2	5903	broad.mit.edu	37	chr2	109380976	109380976	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattgtaaaagaacccacAagtcatgataacaaggatat	20	8	7	6	0	1	3	1	1	0	2	1	4	1	4	1	1	2	1	1	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:109380976A>G	uc002tem.3	+	20	4107	c.3981A>G	c.(3979-3981)ACA>ACG	p.T1327T		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1327					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						AAGAACCCACAAGTCATGATA	0.398													42	73					0	0	1	0	0		G	109380976	G	G	109380976	2	3	89	1	0	0	0	0	0	0	0	1	13053	117	5	3		3	RANBP2	2	109380976	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1092	109380976	133818397	1001	54832											
RANBP2	5903	broad.mit.edu	37	chr2	109382509	109382509	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctggaagtcaggtgggAacaggatttaaaagtaattt	13	13	11	4	0	3	0	1	0	2	0	3	3	3	3	0	4	1	1	0	4	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:109382509A>G	uc002tem.3	+	20	5640	c.5514A>G	c.(5512-5514)GGA>GGG	p.G1838G		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1838					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GTCAGGTGGGAACAGGATTTA	0.398													36	105					0	0	1	0	0		G	109382509	G	G	109382509	2	3	89	1	0	0	0	0	0	0	0	1	13053	233	9	3		3	RANBP2	2	109382509	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1533	109382509	133816864	1002	54833											
RANBP2	5903	broad.mit.edu	37	chr2	109383881	109383881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcagttggcactgatgaaGaatctgatgttactcaagaa	13	12	9	7	0	3	5	2	3	1	2	3	5	3	5	0	1	1	3	0	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:109383881G>A	uc002tem.3	+	20	7012	c.6886G>A	c.(6886-6888)GAA>AAA	p.E2296K		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2296					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						CACTGATGAAGAATCTGATGT	0.403													80	139					0	0	1	0	0		A	109383881	A	A	109383881	3	1	89	1	0	0	0	0	1	0	0	0	13053	943	33	4	6964	4	RANBP2	2	109383881	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1372	109383881	133815492	1003	54834											
RANBP2	5903	broad.mit.edu	37	chr2	109400188	109400188	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaggccagaataccaataAttctcaatttgttataacac	16	12	4	9	0	2	1	2	0	1	1	3	1	2	1	2	1	2	1	2	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:109400188A>C	uc002tem.3	+	29	9632	c.9506A>C	c.(9505-9507)AAT>ACT	p.N3169T		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	3169	PPIase cyclophilin-type.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						AATACCAATAATTCTCAATTT	0.348													60	79					0	0	1	0	0		C	109400188	C	C	109400188	3	2	89	1	0	0	0	0	1	0	0	0	13053	101	4	5	9620	5	RANBP2	2	109400188	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	16307	109400188	133799185	1004	54835											
CCDC138	165055	broad.mit.edu	37	chr2	109489943	109489943	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaagcctgtagcaactCtttattttttcgtacttgct	7	17	7	10	1	1	0	0	0	1	0	2	1	1	1	2	1	5	4	2	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:109489943C>A	uc002ten.1	+	14	1790	c.1730C>A	c.(1729-1731)TCT>TAT	p.S577Y	CCDC138_uc002teo.1_Intron|CCDC138_uc002tep.1_Missense_Mutation_p.S261Y|CCDC138_uc010fjm.1_Intron	NM_144978	NP_659415	Q96M89	CC138_HUMAN	coiled-coil domain containing 138	577											0						TGTAGCAACTCTTTATTTTTT	0.363													25	63					1.42536e-11	1.56543e-11	1	1	0		A	109489943	A	A	109489943	3	1	89	1	0	0	0	0	1	0	0	0	2775	913	32	5	1784	5	CCDC138	2	109489943	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	89755	109489943	133709430	1005	54836											
NPHP1	4867	broad.mit.edu	37	chr2	110901211	110901211	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatctggtagaaaacactGccgtgtgcttttaagaaaaa	16	11	8	6	1	1	2	0	0	1	2	1	2	1	2	1	1	3	2	1	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:110901211G>A	uc002tfn.3	-	16	1696	c.1602C>T	c.(1600-1602)GGC>GGT	p.G534G	NPHP1_uc002tfm.3_Silent_p.G479G|NPHP1_uc002tfl.3_Silent_p.G535G|NPHP1_uc002tfo.3_Silent_p.G416G|NPHP1_uc010ywx.1_Silent_p.G478G|NPHP1_uc010fjv.1_Silent_p.G478G	NM_207181	NP_997064	O15259	NPHP1_HUMAN	nephrocystin 1 isoform 2	534					actin cytoskeleton organization|cell projection organization|cell-cell adhesion|excretion|retina development in camera-type eye|signal transduction|spermatid differentiation|visual behavior	adherens junction|cell-cell junction|cilium axoneme|cytoplasm|cytoskeleton|motile cilium|photoreceptor connecting cilium	protein binding|structural molecule activity			ovary(2)	2						AGAAAACACTGCCGTGTGCTT	0.358													19	38					0	0	1	0	0		A	110901211	A	A	110901211	2	1	89	1	0	0	0	0	0	0	0	1	10598	1306	46	2		2	NPHP1	2	110901211	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1411268	110901211	132298162	1006	54837											
BUB1	699	broad.mit.edu	37	chr2	111419366	111419366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggttactggaagacatggcGctctcagttcctgctgggag	8	10	14	9	1	1	1	1	0	1	1	3	3	2	3	1	4	2	4	1	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:111419366G>A	uc002tgc.2	-	10	1122	c.1010C>T	c.(1009-1011)GCG>GTG	p.A337V	BUB1_uc010yxh.1_Missense_Mutation_p.A317V|BUB1_uc010fkb.2_Missense_Mutation_p.A337V|BUB1_uc002tgd.2_Missense_Mutation_p.A337V	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	337					apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		AAGACATGGCGCTCTCAGTTC	0.453													9	117					0	0	1	0	0		A	111419366	A	A	111419366	3	1	89	1	0	0	0	0	1	0	0	0	1573	1087	38	1	2311	1	BUB1	2	111419366	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	518155	111419366	131780007	1007	54838											
BUB1	699	broad.mit.edu	37	chr2	111431780	111431780	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttattctcaggaaaattCtcttctacccactgtatgta	10	17	4	10	0	4	0	1	0	4	0	6	1	4	1	1	1	1	2	1	1	6	8	rs1801328		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:111431780C>A	uc002tgc.2	-	3	220	c.108G>T	c.(106-108)GAG>GAT	p.E36D	BUB1_uc010yxh.1_Missense_Mutation_p.E16D|BUB1_uc010fkb.2_Missense_Mutation_p.E36D|BUB1_uc002tgd.2_Missense_Mutation_p.E36D	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	36	BUB1 N-terminal.|Necessary for kinetochore localization.				apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		CAGGAAAATTCTCTTCTACCC	0.294													20	42					2.39187e-15	2.72483e-15	1	1	0		A	111431780	A	A	111431780	3	1	89	1	0	0	0	0	1	0	0	0	1573	912	32	5	3241	5	BUB1	2	111431780	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12414	111431780	131767593	1008	54839											
ANAPC1	64682	broad.mit.edu	37	chr2	112583386	112583386	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttaaatactgtgaggatTcatcagaaaccaagctctca	14	11	8	8	0	3	2	3	1	1	1	4	3	3	3	1	2	3	2	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:112583386T>G	uc002thi.2	-	22	2919	c.2672A>C	c.(2671-2673)GAA>GCA	p.E891A		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	891					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						CTGTGAGGATTCATCAGAAAC	0.289													20	50					0	0	1	0	0		G	112583386	G	G	112583386	3	3	89	1	0	0	0	0	1	0	0	0	598	1783	62	5	3270	5	ANAPC1	2	112583386	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1151606	112583386	130615987	1009	54840											
TTL	150465	broad.mit.edu	37	chr2	113286288	113286288	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagaactgtgccaaggcatCgtggacatagccatttccag	11	8	11	11	1	0	1	0	0	0	1	2	2	1	2	3	2	3	2	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:113286288C>T	uc002thu.2	+	7	1229	c.1050C>T	c.(1048-1050)ATC>ATT	p.I350I	TTL_uc010fkm.1_Intron	NM_153712	NP_714923	Q8NG68	TTL_HUMAN	tubulin tyrosine ligase	350	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)		GCCAAGGCATCGTGGACATAG	0.453			T	ETV6	ALL								35	74					0	0	1	0	0		T	113286288	T	T	113286288	2	4	89	1	0	0	0	0	0	0	0	1	16747	874	31	1		1	TTL	2	113286288	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	702902	113286288	129913085	1010	54841											
POLR1B	84172	broad.mit.edu	37	chr2	113310287	113310287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatgctttgtctcatgacgcGaaagctctttgctttagcca	8	15	8	10	2	2	1	1	1	2	0	3	2	2	1	1	0	4	3	1	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:113310287G>A	uc002thw.2	+	7	1632	c.1052G>A	c.(1051-1053)CGA>CAA	p.R351Q	POLR1B_uc010fkn.2_Missense_Mutation_p.R295Q|POLR1B_uc002thx.2_Missense_Mutation_p.R212Q|POLR1B_uc010fko.2_Missense_Mutation_p.R351Q|POLR1B_uc010fkp.2_Intron|POLR1B_uc010yxn.1_Missense_Mutation_p.R389Q|POLR1B_uc002thy.2_Missense_Mutation_p.R212Q|POLR1B_uc010yxo.1_Missense_Mutation_p.R128Q	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	351					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1						CTCATGACGCGAAAGCTCTTT	0.408													34	51					0	0	1	0	0		A	113310287	A	A	113310287	3	1	89	1	0	0	0	0	1	0	0	0	12229	1058	37	1	1078	1	POLR1B	2	113310287	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23999	113310287	129889086	1011	54842											
POLR1B	84172	broad.mit.edu	37	chr2	113330196	113330196	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccgatcggataacaaacTgtatcgtcttcagactcctc	12	10	7	12	3	2	2	1	0	1	2	6	4	3	3	2	1	2	1	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:113330196T>G	uc002thw.2	+	13	2712	c.2132T>G	c.(2131-2133)CTG>CGG	p.L711R	POLR1B_uc010fkn.2_Missense_Mutation_p.L655R|POLR1B_uc002thx.2_Missense_Mutation_p.L572R|POLR1B_uc010fko.2_Missense_Mutation_p.L528R|POLR1B_uc010fkp.2_Missense_Mutation_p.L150R|POLR1B_uc010yxn.1_Missense_Mutation_p.L749R|POLR1B_uc002thy.2_Missense_Mutation_p.L572R|POLR1B_uc010yxo.1_Missense_Mutation_p.L488R	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	711					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1						GATAACAAACTGTATCGTCTT	0.418													44	91					0	0	1	0	0		G	113330196	G	G	113330196	3	3	89	1	0	0	0	0	1	0	0	0	12229	1580	55	5	2182	5	POLR1B	2	113330196	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	19909	113330196	129869177	1012	54843											
CKAP2L	150468	broad.mit.edu	37	chr2	113513567	113513567	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagtaccttcgatcctctgCtgttgccttctttttaatat	8	18	5	10	1	2	0	0	0	2	0	4	1	3	0	3	0	3	3	3	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:113513567C>T	uc002tie.2	-	4	1460	c.1381G>A	c.(1381-1383)GCA>ACA	p.A461T	CKAP2L_uc002tif.2_Missense_Mutation_p.A50T|CKAP2L_uc010yxp.1_Missense_Mutation_p.A296T|CKAP2L_uc010yxq.1_Missense_Mutation_p.A296T	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	461						centrosome					0						CGATCCTCTGCTGTTGCCTTC	0.398													79	190					0	0	1	0	0		T	113513567	T	T	113513567	3	4	89	1	0	0	0	0	1	0	0	0	3446	797	28	2	880	2	CKAP2L	2	113513567	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	183371	113513567	129685806	1013	54844											
CKAP2L	150468	broad.mit.edu	37	chr2	113514428	113514428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagaaagttatccaaagattCgttttcaacatggatattat	15	15	6	5	1	1	2	1	0	0	2	3	3	2	3	1	1	1	2	1	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:113514428C>T	uc002tie.2	-	4	599	c.520G>A	c.(520-522)GAA>AAA	p.E174K	CKAP2L_uc002tif.2_Intron|CKAP2L_uc010yxp.1_Missense_Mutation_p.E9K|CKAP2L_uc010yxq.1_Missense_Mutation_p.E9K	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	174						centrosome					0						TCCAAAGATTCGTTTTCAACA	0.323													25	32					0	0	1	0	0		T	113514428	T	T	113514428	3	4	89	1	0	0	0	0	1	0	0	0	3446	893	31	1	1741	1	CKAP2L	2	113514428	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	861	113514428	129684945	1014	54845											
IL1A	3552	broad.mit.edu	37	chr2	113532656	113532656	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccagacctacgcctggttTtccagtatctgaaagtcagt	9	12	8	12	1	2	2	1	1	1	1	4	2	4	2	4	1	1	2	4	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:113532656T>G	uc002tig.2	-	7	1764	c.804A>C	c.(802-804)GAA>GAC	p.E268D		NM_000575	NP_000566	P01583	IL1A_HUMAN	interleukin 1, alpha proprotein	268					anti-apoptosis|apoptosis|cell proliferation|cellular response to heat|cytokine-mediated signaling pathway|fever generation|immune response|negative regulation of cell proliferation|positive regulation of angiogenesis|positive regulation of cell division|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of mitosis|positive regulation vascular endothelial growth factor production|response to copper ion	cytosol|extracellular space	copper ion binding|cytokine activity|interleukin-1 receptor binding			lung(1)	1						ACGCCTGGTTTTCCAGTATCT	0.463													26	46					0	0	1	0	0		G	113532656	G	G	113532656	3	3	89	1	0	0	0	0	1	0	0	0	7666	1838	64	5	15	5	IL1A	2	113532656	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	18228	113532656	129666717	1015	54846											
IL1B	3553	broad.mit.edu	37	chr2	113593779	113593779	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtaataagccatcatttCactggcgagctcaggtactt	10	12	8	11	1	3	0	3	0	0	0	3	1	3	0	2	2	3	3	2	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:113593779C>A	uc002tii.1	-	2	115	c.28G>T	c.(28-30)GAA>TAA	p.E10*	IL1B_uc002tih.1_5'Flank	NM_000576	NP_000567	P01584	IL1B_HUMAN	interleukin 1, beta proprotein	10					activation of MAPK activity|anti-apoptosis|apoptosis|cell-cell signaling|cellular response to drug|cellular response to mechanical stimulus|cytokine-mediated signaling pathway|embryo implantation|fever generation|negative regulation of adiponectin secretion|negative regulation of cell proliferation|negative regulation of glucose transport|negative regulation of insulin receptor signaling pathway|negative regulation of lipid catabolic process|negative regulation of MAP kinase activity|positive regulation of angiogenesis|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of cell adhesion molecule production|positive regulation of cell division|positive regulation of fever generation|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of heterotypic cell-cell adhesion|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of interferon-gamma production|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of lipid catabolic process|positive regulation of membrane protein ectodomain proteolysis|positive regulation of mitosis|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myosin light chain kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|positive regulation of protein export from nucleus|positive regulation of T cell proliferation|positive regulation vascular endothelial growth factor production|regulation of insulin secretion|sequestering of triglyceride|smooth muscle adaptation	cytosol|extracellular space	cytokine activity|growth factor activity|interleukin-1 receptor binding|protein domain specific binding			lung(3)|breast(1)	4					Anakinra(DB00026)|Minocycline(DB01017)|Procaterol(DB01366)	GCCATCATTTCACTGGCGAGC	0.478													24	47					6.32553e-13	7.03772e-13	1	1	0		A	113593779	A	A	113593779	4	1	89	1	0	0	0	0	0	1	0	0	7667	835	29	5	805	5	IL1B	2	113593779	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	61123	113593779	129605594	1016	54847											
PAX8	7849	broad.mit.edu	37	chr2	114002048	114002048	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgtcattgtcacagacGccctcagccaggagccggtc	9	7	11	14	2	3	1	3	0	0	1	4	2	3	2	3	2	2	0	3	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:114002048G>A	uc010yxt.1	-	4	511	c.345C>T	c.(343-345)GGC>GGT	p.G115G	PAX8_uc010yxu.1_Silent_p.G115G|PAX8_uc010yxv.1_Silent_p.G115G|PAX8_uc002tjm.2_Silent_p.G115G|PAX8_uc002tjn.2_Silent_p.G115G|PAX8_uc010fku.1_Silent_p.G115G|LOC654433_uc002tjq.3_Intron|LOC654433_uc010fks.2_Intron|LOC654433_uc010fkt.2_Intron|LOC654433_uc002tjr.3_Intron	NM_003466	NP_003457	Q06710	PAX8_HUMAN	paired box 8 isoform PAX8A	115	Paired.				branching involved in ureteric bud morphogenesis|cellular response to gonadotropin stimulus|central nervous system development|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|metanephric collecting duct development|metanephric comma-shaped body morphogenesis|metanephric distal convoluted tubule development|metanephric nephron tubule formation|metanephric S-shaped body morphogenesis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|otic vesicle development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric field specification|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of thyroid-stimulating hormone secretion|thyroid gland development|transcription, DNA-dependent	nucleoplasm	protein binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid-stimulating hormone receptor activity			ovary(1)|lung(1)	2						TGTCACAGACGCCCTCAGCCA	0.577			T	PPARG	follicular thyroid		Thyroid dysgenesis 						98	179					0	0	1	0	0		A	114002048	A	A	114002048	2	1	89	1	0	0	0	0	0	0	0	1	11504	1074	38	1		1	PAX8	2	114002048	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	408269	114002048	129197325	1017	54848											
CBWD2	150472	broad.mit.edu	37	chr2	114220051	114220051	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccagaagaagatgtaaaGaaattaagagcgacaattag	19	8	10	4	1	0	5	0	0	0	5	1	6	1	5	1	0	1	2	1	0	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:114220051G>T	uc002tju.2	+	8	820	c.642G>T	c.(640-642)AAG>AAT	p.K214N	CBWD2_uc010yxw.1_Missense_Mutation_p.K178N|CBWD2_uc002tjv.2_Missense_Mutation_p.K178N|CBWD2_uc010fkv.2_RNA	NM_172003	NP_742000	Q8IUF1	CBWD2_HUMAN	COBW domain-containing protein 2	214							ATP binding|protein binding				0						AAGATGTAAAGAAATTAAGAG	0.348													49	87					1.08114e-33	1.32944e-33	1	1	0		T	114220051	T	T	114220051	3	4	89	1	0	0	0	0	1	0	0	0	2716	933	33	5	672	5	CBWD2	2	114220051	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	218003	114220051	128979322	1018	54849											
SLC35F5	80255	broad.mit.edu	37	chr2	114476740	114476740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actaaacttacctctgaattCgatgttttctgcatataaaa	14	15	4	8	1	2	1	0	1	2	0	3	2	2	1	1	0	3	2	1	0	7	7	rs139024940		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:114476740C>T	uc002tku.1	-	14	1911	c.1487G>A	c.(1486-1488)CGA>CAA	p.R496Q	SLC35F5_uc002tkt.2_RNA	NM_025181	NP_079457	Q8WV83	S35F5_HUMAN	solute carrier family 35, member F5	496					transport	integral to membrane					0						CCTCTGAATTCGATGTTTTCT	0.323													20	49					0	0	1	0	0		T	114476740	T	T	114476740	3	4	89	1	0	0	0	0	1	0	0	0	14617	884	31	1	92	1	SLC35F5	2	114476740	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	256689	114476740	128722633	1019	54850											
ACTR3	10096	broad.mit.edu	37	chr2	114699791	114699791	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagttatgtctgcccagattTagtaaaagaatttaacaagt	15	14	7	5	0	1	2	0	0	1	2	1	2	1	2	1	0	2	2	1	0	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:114699791T>C	uc002tkx.1	+	8	1033	c.713T>C	c.(712-714)TTA>TCA	p.L238S	ACTR3_uc010yyc.1_Missense_Mutation_p.L176S|ACTR3_uc010yyd.1_Missense_Mutation_p.L187S	NM_005721	NP_005712	P61158	ARP3_HUMAN	ARP3 actin-related protein 3 homolog	238					cellular component movement|cilium morphogenesis	Arp2/3 protein complex	actin binding|ATP binding			skin(1)	1						TGCCCAGATTTAGTAAAAGAA	0.313													18	39					0	0	1	0	0		C	114699791	C	C	114699791	3	2	89	1	0	0	0	0	1	0	0	0	212	1764	61	3	743	3	ACTR3	2	114699791	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	223051	114699791	128499582	1020	54851											
DDX18	8886	broad.mit.edu	37	chr2	118582580	118582580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacattccttaagaagaaccGaaagaagaagcttatggtct	16	10	8	7	1	1	4	0	0	1	4	2	5	2	4	2	1	3	1	2	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:118582580G>A	uc002tlh.1	+	9	1370	c.1271G>A	c.(1270-1272)CGA>CAA	p.R424Q		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	424	Helicase C-terminal.						ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4						AAGAAGAACCGAAAGAAGAAG	0.383													54	82					0	0	1	0	0		A	118582580	A	A	118582580	3	1	89	1	0	0	0	0	1	0	0	0	4348	1058	37	1	1305	1	DDX18	2	118582580	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3882789	118582580	124616793	1021	54852											
CCDC93	54520	broad.mit.edu	37	chr2	118766149	118766149	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgataagcctttaattCttgccctgaaatacccagct	11	12	8	10	0	1	2	0	2	1	0	1	2	1	2	3	1	4	1	3	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:118766149C>A	uc002tlj.2	-	2	254	c.128G>T	c.(127-129)AGA>ATA	p.R43I	CCDC93_uc010fld.1_Missense_Mutation_p.R43I	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	43										large_intestine(1)|ovary(1)	2						GCCTTTAATTCTTGCCCTGAA	0.378													59	112					8.33888e-18	9.69929e-18	1	1	0		A	118766149	A	A	118766149	3	1	89	1	0	0	0	0	1	0	0	0	2875	913	32	5	1859	5	CCDC93	2	118766149	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	183569	118766149	124433224	1022	54853											
PTPN4	5775	broad.mit.edu	37	chr2	120643418	120643418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taattacctaaacacagcacGtaccttagaactctatggag	15	10	6	10	1	1	1	0	0	1	1	1	2	1	2	2	1	5	2	2	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:120643418G>A	uc002tmf.1	+	9	1406	c.635G>A	c.(634-636)CGT>CAT	p.R212H	PTPN4_uc010flj.1_5'UTR	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	212	FERM.					cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	AACACAGCACGTACCTTAGAA	0.333													59	114					0	0	1	0	0		A	120643418	A	A	120643418	3	1	89	1	0	0	0	0	1	0	0	0	12815	1145	40	1	665	1	PTPN4	2	120643418	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1877269	120643418	122555955	1023	54854											
EPB41L5	57669	broad.mit.edu	37	chr2	120918482	120918482	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgttaaatgagaataatgtgCccctccccaaagagtctctt	12	12	7	10	0	1	2	0	1	1	2	3	3	2	2	4	0	1	1	4	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:120918482C>T	uc002tmg.2	+	21	1945	c.1819C>T	c.(1819-1821)CCC>TCC	p.P607S	EPB41L5_uc010fll.2_Missense_Mutation_p.P607S|EPB41L5_uc010flm.2_Missense_Mutation_p.P411S	NM_020909	NP_065960	Q9HCM4	E41L5_HUMAN	erythrocyte membrane protein band 4.1 like 5	607						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1						GAATAATGTGCCCCTCCCCAA	0.393													55	118					0	0	1	0	0		T	120918482	T	T	120918482	3	4	89	1	0	0	0	0	1	0	0	0	5165	739	26	2	2082	2	EPB41L5	2	120918482	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	275064	120918482	122280891	1024	54855											
RALB	5899	broad.mit.edu	37	chr2	121043651	121043651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatcctttacagcaactgccGaattcaggtatgtctgaaat	13	12	7	9	1	2	1	1	1	1	0	3	2	3	1	2	1	4	2	2	1	6	4	rs139389446		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:121043651G>A	uc002tmk.2	+	3	506	c.316G>A	c.(316-318)GAA>AAA	p.E106K	RALB_uc010yys.1_Missense_Mutation_p.E128K|RALB_uc002tml.2_Missense_Mutation_p.E127K|RALB_uc002tmm.2_RNA|RALB_uc010yyt.1_Intron	NM_002881	NP_002872	P11234	RALB_HUMAN	v-ral simian leukemia viral oncogene homolog B	106					apoptosis|cell cycle|cytokinesis|nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of exocyst assembly|regulation of exocyst localization	cytosol|midbody|plasma membrane	GTP binding|GTPase activity|protein binding			lung(3)	3		Prostate(154;0.122)				AGCAACTGCCGAATTCAGGTA	0.443													23	34					0	0	1	0	0		A	121043651	A	A	121043651	3	1	89	1	0	0	0	0	1	0	0	0	13036	1059	37	1	322	1	RALB	2	121043651	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	125169	121043651	122155722	1025	54856											
RALB	5899	broad.mit.edu	37	chr2	121047166	121047166	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaccttagggaacagattCtccgtgtgaaggctgaagaa	14	8	11	8	1	1	4	0	2	1	2	2	5	1	5	2	2	2	1	2	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:121047166C>A	uc002tmk.2	+	4	524	c.334C>A	c.(334-336)CTC>ATC	p.L112I	RALB_uc010yys.1_Missense_Mutation_p.L134I|RALB_uc002tml.2_Missense_Mutation_p.L133I|RALB_uc002tmm.2_RNA|RALB_uc010yyt.1_RNA	NM_002881	NP_002872	P11234	RALB_HUMAN	v-ral simian leukemia viral oncogene homolog B	112					apoptosis|cell cycle|cytokinesis|nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of exocyst assembly|regulation of exocyst localization	cytosol|midbody|plasma membrane	GTP binding|GTPase activity|protein binding			lung(3)	3		Prostate(154;0.122)				GGAACAGATTCTCCGTGTGAA	0.463													26	146					1.42536e-11	1.56543e-11	1	1	0		A	121047166	A	A	121047166	3	1	89	1	0	0	0	0	1	0	0	0	13036	913	32	5	344	5	RALB	2	121047166	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3515	121047166	122152207	1026	54857											
GLI2	2736	broad.mit.edu	37	chr2	121740439	121740439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgcgccaagcaccagaatCgcacccactccaacgaggta	13	3	8	17	4	0	1	0	0	0	1	2	2	1	1	5	1	2	3	5	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:121740439C>T	uc010flp.2	+	10	1696	c.1666C>T	c.(1666-1668)CGC>TGC	p.R556C	GLI2_uc002tmq.1_Missense_Mutation_p.R228C|GLI2_uc002tmr.1_Missense_Mutation_p.R211C|GLI2_uc002tmt.3_Missense_Mutation_p.R228C|GLI2_uc002tmu.3_Missense_Mutation_p.R211C|GLI2_uc002tmw.1_Missense_Mutation_p.R539C	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	556	C2H2-type 4.				axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				GCACCAGAATCGCACCCACTC	0.627													22	67					0	0	1	0	0		T	121740439	T	T	121740439	3	4	89	1	0	0	0	0	1	0	0	0	6453	884	31	1	1704	1	GLI2	2	121740439	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	693273	121740439	121458934	1027	54858											
CLASP1	23332	broad.mit.edu	37	chr2	122273287	122273287	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagatctgccctcacacgttCtcctacatgtctgtaaattt	9	14	6	12	1	4	1	1	0	3	1	5	2	4	1	2	0	2	2	2	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:122273287C>T	uc002tnc.2	-	7	988	c.598G>A	c.(598-600)GAA>AAA	p.E200K	CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Missense_Mutation_p.E200K|CLASP1_uc010yza.1_Missense_Mutation_p.E200K|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_Intron|CLASP1_uc002tng.1_Missense_Mutation_p.E200K	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	200	HEAT 2.				axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					CTCACACGTTCTCCTACATGT	0.473													15	29					0	0	1	0	0		T	122273287	T	T	122273287	3	4	89	1	0	0	0	0	1	0	0	0	3457	922	32	4	4206	4	CLASP1	2	122273287	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	532848	122273287	120926086	1028	54859											
CLASP1	23332	broad.mit.edu	37	chr2	122273335	122273335	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgtttattgctgcatctcGaacctagatataaaagaaga	14	12	8	7	1	1	3	0	0	1	3	2	4	1	3	1	0	3	4	1	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:122273335G>A	uc002tnc.2	-	7	940	c.550C>T	c.(550-552)CGA>TGA	p.R184*	CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Nonsense_Mutation_p.R184*|CLASP1_uc010yza.1_Nonsense_Mutation_p.R184*|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_Intron|CLASP1_uc002tng.1_Nonsense_Mutation_p.R184*	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	184	HEAT 2.				axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					GCTGCATCTCGAACCTAGATA	0.463													12	22					0	0	1	0	0		A	122273335	A	A	122273335	4	1	89	1	0	0	0	0	0	1	0	0	3457	1066	37	1	4254	1	CLASP1	2	122273335	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	48	122273335	120926038	1029	54860											
CNTNAP5	129684	broad.mit.edu	37	chr2	125204342	125204342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcacaggtgacagcaaagCgcggctcagcagcagcttgc	10	6	12	13	2	2	1	2	1	0	0	2	1	2	1	0	2	6	5	0	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:125204342C>T	uc002tno.2	+	6	1110	c.746C>T	c.(745-747)GCG>GTG	p.A249V	CNTNAP5_uc010flu.2_Missense_Mutation_p.A249V	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	249	Laminin G-like 1.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GACAGCAAAGCGCGGCTCAGC	0.582													24	35					0	0	1	0	0		T	125204342	T	T	125204342	3	4	89	1	0	0	0	0	1	0	0	0	3653	768	27	1	768	1	CNTNAP5	2	125204342	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2931007	125204342	117995031	1030	54861											
BIN1	274	broad.mit.edu	37	chr2	127826515	127826515	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttaccttggcaattttggcTtcatccttctttttggcagt	5	19	7	10	0	2	0	1	0	1	0	3	0	3	0	2	3	1	3	2	3	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:127826515T>G	uc002tns.1	-	6	849	c.504A>C	c.(502-504)GAA>GAC	p.E168D	BIN1_uc010yzf.1_Missense_Mutation_p.E144D|BIN1_uc010yzg.1_Missense_Mutation_p.E168D|BIN1_uc002tnu.1_Missense_Mutation_p.E168D|BIN1_uc002toa.1_Missense_Mutation_p.E168D|BIN1_uc002tnt.1_Missense_Mutation_p.E168D|BIN1_uc002tnv.1_Missense_Mutation_p.E168D|BIN1_uc002tnw.1_Missense_Mutation_p.E168D|BIN1_uc002tnx.1_Missense_Mutation_p.E168D|BIN1_uc002tny.1_Missense_Mutation_p.E168D|BIN1_uc002tnz.1_Missense_Mutation_p.E168D|BIN1_uc002tob.1_Missense_Mutation_p.E168D|BIN1_uc002toc.1_Missense_Mutation_p.E168D	NM_139343	NP_647593	O00499	BIN1_HUMAN	bridging integrator 1 isoform 1	168	BAR.				cell proliferation|endocytosis|interspecies interaction between organisms|multicellular organismal development	actin cytoskeleton|nucleus				ovary(2)|central_nervous_system(2)|skin(2)|lung(1)	7	Colorectal(110;0.0831)			BRCA - Breast invasive adenocarcinoma(221;0.073)		CAATTTTGGCTTCATCCTTCT	0.627													14	45					0	0	1	0	0		G	127826515	G	G	127826515	3	3	89	1	0	0	0	0	1	0	0	0	1433	1606	56	5	1382	5	BIN1	2	127826515	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2622173	127826515	115372858	1031	54862											
CYP27C1	339761	broad.mit.edu	37	chr2	127953001	127953001	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcccctaaattcttcacaAtctcccggtacaccgtctgc	8	13	4	16	2	4	0	1	0	3	0	6	0	5	0	4	1	2	1	4	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:127953001A>G	uc002tod.2	-	5	760	c.629T>C	c.(628-630)ATT>ACT	p.I210T		NM_001001665	NP_001001665	Q4G0S4	C27C1_HUMAN	cytochrome P450, family 27, subfamily C,	210						membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.071)		ATTCTTCACAATCTCCCGGTA	0.532													18	43					0	0	1	0	0		G	127953001	G	G	127953001	3	3	89	1	0	0	0	0	1	0	0	0	4163	101	4	3	505	3	CYP27C1	2	127953001	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	126486	127953001	115246372	1032	54863											
ERCC3	2071	broad.mit.edu	37	chr2	128028934	128028934	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttttagctcgaagcacccgCcctagcctttgggcttcctg	5	13	9	14	2	0	0	0	0	0	0	2	1	1	0	4	1	3	3	4	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:128028934C>T	uc002toh.1	-	12	2018	c.1923G>A	c.(1921-1923)GGG>GGA	p.G641G	ERCC3_uc002toe.1_Silent_p.G396G|ERCC3_uc002tof.1_Silent_p.G577G|ERCC3_uc002tog.1_Silent_p.G577G	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	641	Helicase C-terminal.				cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		GAAGCACCCGCCCTAGCCTTT	0.502			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				85	161					0	0	1	0	0		T	128028934	T	T	128028934	2	4	89	1	0	0	0	0	0	0	0	1	5222	726	26	2		2	ERCC3	2	128028934	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	75933	128028934	115170439	1033	54864											
ERCC3	2071	broad.mit.edu	37	chr2	128051178	128051178	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatccactttggtgcctgActcatccacctgcttccccg	5	13	6	17	1	2	1	2	1	0	0	5	1	5	1	6	1	2	1	6	1	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:128051178A>G	uc002toh.1	-	2	240	c.145T>C	c.(145-147)TCA>CCA	p.S49P	ERCC3_uc002toe.1_5'Flank|ERCC3_uc002tof.1_5'UTR|ERCC3_uc002tog.1_5'UTR|ERCC3_uc010flx.1_5'UTR|ERCC3_uc010yzh.1_RNA|ERCC3_uc010fly.2_Missense_Mutation_p.S49P	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	49					cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		TTGGTGCCTGACTCATCCACC	0.602			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				20	39					0	0	1	0	0		G	128051178	G	G	128051178	3	3	89	1	0	0	0	0	1	0	0	0	5222	275	10	3	2259	3	ERCC3	2	128051178	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	22244	128051178	115148195	1034	54865											
MAP3K2	10746	broad.mit.edu	37	chr2	128079820	128079820	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttctagctcttggaaaagTtttacgacctaaaaaatgaa	15	12	6	8	1	2	1	0	1	2	0	2	3	2	2	2	1	2	2	2	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:128079820T>G	uc002toj.1	-	11	912	c.847A>C	c.(847-849)ACT>CCT	p.T283P		NM_006609	NP_006600	Q9Y2U5	M3K2_HUMAN	mitogen-activated protein kinase kinase kinase	283					activation of JUN kinase activity|cellular response to mechanical stimulus	nucleus	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein kinase binding			lung(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0706)		CTTGGAAAAGTTTTACGACCT	0.338													21	33					0	0	1	0	0		G	128079820	G	G	128079820	3	3	89	1	0	0	0	0	1	0	0	0	9268	1725	60	5	1036	5	MAP3K2	2	128079820	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	28642	128079820	115119553	1035	54866											
MYO7B	4648	broad.mit.edu	37	chr2	128346073	128346073	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaacttggagttagcagaGaccaagctgggccatgggac	11	8	13	9	0	1	1	1	0	0	1	1	4	1	3	2	3	3	3	2	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:128346073G>T	uc002top.2	+	15	1850	c.1797G>T	c.(1795-1797)GAG>GAT	p.E599D		NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	599	Myosin head-like.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		AGTTAGCAGAGACCAAGCTGG	0.547													22	53					5.45024e-15	6.18484e-15	1	1	0		T	128346073	T	T	128346073	3	4	89	1	0	0	0	0	1	0	0	0	10101	933	33	5	1851	5	MYO7B	2	128346073	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	266253	128346073	114853300	1036	54867											
WDR33	55339	broad.mit.edu	37	chr2	128464123	128464123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcaggtcctgggccccctCggcctgaaacaaagaaaatt	12	6	11	12	1	0	2	0	1	0	1	2	3	1	2	4	3	2	1	4	3	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:128464123C>T	uc002tpg.1	-	22	3968	c.3785G>A	c.(3784-3786)CGA>CAA	p.R1262Q		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	1262					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		TGGGCCCCCTCGGCCTGAAAC	0.488													36	55					0	0	1	0	0		T	128464123	T	T	128464123	3	4	89	1	0	0	0	0	1	0	0	0	17313	884	31	1	229	1	WDR33	2	128464123	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	118050	128464123	114735250	1037	54868											
WDR33	55339	broad.mit.edu	37	chr2	128471562	128471562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccgcctctctgacatcgggCccatgtgatggtttggaggg	5	10	15	11	2	1	2	0	2	1	0	3	3	1	3	3	4	0	1	3	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:128471562C>T	uc002tpg.1	-	18	3086	c.2903G>A	c.(2902-2904)GGC>GAC	p.G968D		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	968					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		TGACATCGGGCCCATGTGATG	0.602													24	35					0	0	1	0	0		T	128471562	T	T	128471562	3	4	89	1	0	0	0	0	1	0	0	0	17313	739	26	2	1127	2	WDR33	2	128471562	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7439	128471562	114727811	1038	54869											
UGGT1	56886	broad.mit.edu	37	chr2	128878797	128878797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtttccagactgctgctcGaatcttggcttctcctgttg	5	15	9	12	1	2	1	0	0	2	1	5	2	3	1	2	1	2	5	2	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:128878797G>A	uc002tps.2	+	10	1176	c.998G>A	c.(997-999)CGA>CAA	p.R333Q	UGGT1_uc010fme.1_Missense_Mutation_p.R208Q|UGGT1_uc002tpr.2_Missense_Mutation_p.R309Q	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	333					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						ACTGCTGCTCGAATCTTGGCT	0.373													29	68					0	0	1	0	0		A	128878797	A	A	128878797	3	1	89	1	0	0	0	0	1	0	0	0	16967	1058	37	1	1036	1	UGGT1	2	128878797	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	407235	128878797	114320576	1039	54870											
UGGT1	56886	broad.mit.edu	37	chr2	128914829	128914829	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgtttttctacagatgAttcttttattaggccagtaa	9	21	6	5	0	2	2	0	1	2	1	2	2	2	2	1	1	1	2	1	1	4	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:128914829A>C	uc002tps.2	+	22	2442	c.2264A>C	c.(2263-2265)GAT>GCT	p.D755A	UGGT1_uc010fme.1_Missense_Mutation_p.D630A|UGGT1_uc002tpr.2_Missense_Mutation_p.D731A	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	755					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						TCTACAGATGATTCTTTTATT	0.363													23	38					0	0	1	0	0		C	128914829	C	C	128914829	3	2	89	1	0	0	0	0	1	0	0	0	16967	333	12	5	2350	5	UGGT1	2	128914829	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	36032	128914829	114284544	1040	54871											
POTEF	728378	broad.mit.edu	37	chr2	130832596	130832596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgatctgggtcatcttctCgcggttggccttagggttca	5	14	12	10	2	5	1	2	1	3	0	6	1	5	1	1	4	0	2	1	4	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:130832596C>T	uc010fmh.2	-	17	2849	c.2449G>A	c.(2449-2451)GAG>AAG	p.E817K		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	817	Actin-like.					cell cortex	ATP binding			skin(3)|ovary(2)	5						GTCATCTTCTCGCGGTTGGCC	0.597													95	137					0	0	1	0	0		T	130832596	T	T	130832596	3	4	89	1	0	0	0	0	1	0	0	0	12284	893	31	1	782	1	POTEF	2	130832596	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1917767	130832596	112366777	1041	54872											
SMPD4	55627	broad.mit.edu	37	chr2	130911999	130911999	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgaatgtgggggccgtgaAgagtcggtgctggcggtggg	6	8	22	5	3	0	3	0	2	0	1	1	3	0	3	1	6	1	1	1	6	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:130911999A>C	uc002tqq.1	-	16	2147	c.1627T>G	c.(1627-1629)TTC>GTC	p.F543V	SMPD4_uc002tqo.1_Missense_Mutation_p.F75V|SMPD4_uc002tqp.1_Missense_Mutation_p.F282V|SMPD4_uc010yzy.1_Missense_Mutation_p.F292V|SMPD4_uc010yzz.1_Missense_Mutation_p.F207V|SMPD4_uc002tqr.1_Missense_Mutation_p.F514V|SMPD4_uc002tqs.1_Missense_Mutation_p.F411V|SMPD4_uc002tqt.1_Missense_Mutation_p.F392V|SMPD4_uc010zaa.1_Missense_Mutation_p.F401V|SMPD4_uc010zab.1_Missense_Mutation_p.F441V|SMPD4_uc010zac.1_Missense_Mutation_p.F284V|SMPD4_uc010zad.1_Missense_Mutation_p.F179V	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	504					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	GGGGCCGTGAAGAGTCGGTGC	0.627													6	5					0	0	1	0	0		C	130911999	C	C	130911999	3	2	89	1	0	0	0	0	1	0	0	0	14832	72	3	5	993	5	SMPD4	2	130911999	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	79403	130911999	112287374	1042	54873											
GPR148	344561	broad.mit.edu	37	chr2	131487111	131487111	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attctcactgatgctgtcttCgccgcctgcaccagcaccat	7	11	7	16	2	2	1	1	1	2	0	4	1	2	1	4	0	3	3	4	0	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:131487111C>T	uc002trv.1	+	1	389	c.387C>T	c.(385-387)TTC>TTT	p.F129F		NM_207364	NP_997247	Q8TDV2	GP148_HUMAN	G protein-coupled receptor 148	129	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1	Colorectal(110;0.1)					ATGCTGTCTTCGCCGCCTGCA	0.602													15	20					0	0	1	0	0		T	131487111	T	T	131487111	2	4	89	1	0	0	0	0	0	0	0	1	6668	883	31	1		1	GPR148	2	131487111	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	575112	131487111	111712262	1043	54874											
FAM123C	205147	broad.mit.edu	37	chr2	131521511	131521511	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggagtctgcagccacttcGacaacagatacttccggtaa	12	9	9	11	2	1	1	0	0	1	1	3	3	2	2	2	2	4	2	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:131521511G>A	uc002trw.2	+	2	2056	c.1866G>A	c.(1864-1866)TCG>TCA	p.S622S	FAM123C_uc010fmv.2_Silent_p.S622S|FAM123C_uc010fms.1_Silent_p.S622S|FAM123C_uc010fmt.1_Silent_p.S622S|FAM123C_uc010fmu.1_Silent_p.S622S	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	622										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		CAGCCACTTCGACAACAGATA	0.572													20	44					0	0	1	0	0		A	131521511	A	A	131521511	2	1	89	1	0	0	0	0	0	0	0	1	5435	1045	37	1		1	FAM123C	2	131521511	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	34400	131521511	111677862	1044	54875											
ARHGEF4	50649	broad.mit.edu	37	chr2	131796522	131796522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaaagctggggacgtcatcGaagtgatggatgccaccaac	12	7	12	10	2	2	1	2	1	0	0	3	4	2	3	2	3	3	1	2	3	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:131796522G>A	uc002tsa.1	+	6	1184	c.664G>A	c.(664-666)GAA>AAA	p.E222K	ARHGEF4_uc010fmw.1_Intron|ARHGEF4_uc002tsb.1_Missense_Mutation_p.E222K|ARHGEF4_uc010fmx.1_Missense_Mutation_p.E222K|ARHGEF4_uc002tsc.1_5'Flank	NM_015320	NP_056135	Q9NR80	ARHG4_HUMAN	Rho guanine nucleotide exchange factor 4 isoform	222	SH3.				apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|lamellipodium assembly|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|ruffle membrane	protein domain specific binding|Rac guanyl-nucleotide exchange factor activity			breast(3)|ovary(2)|skin(1)	6		Prostate(154;0.055)		BRCA - Breast invasive adenocarcinoma(221;0.097)		GGACGTCATCGAAGTGATGGA	0.617													19	28					0	0	1	0	0		A	131796522	A	A	131796522	3	1	89	1	0	0	0	0	1	0	0	0	908	1059	37	1	678	1	ARHGEF4	2	131796522	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	275011	131796522	111402851	1045	54876											
ARHGEF4	50649	broad.mit.edu	37	chr2	131801887	131801887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcaggacctgctccgccgcGacgtgttgtactacaagggc	7	7	14	13	4	0	0	0	0	0	0	1	2	1	1	3	3	3	4	3	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:131801887G>A	uc002tsa.1	+	12	2135	c.1615G>A	c.(1615-1617)GAC>AAC	p.D539N	ARHGEF4_uc010fmw.1_Intron|ARHGEF4_uc002tsb.1_Missense_Mutation_p.D539N|ARHGEF4_uc010fmx.1_Missense_Mutation_p.D479N|ARHGEF4_uc002tsc.1_Missense_Mutation_p.D82N	NM_015320	NP_056135	Q9NR80	ARHG4_HUMAN	Rho guanine nucleotide exchange factor 4 isoform	539	PH.				apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|lamellipodium assembly|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|ruffle membrane	protein domain specific binding|Rac guanyl-nucleotide exchange factor activity			breast(3)|ovary(2)|skin(1)	6		Prostate(154;0.055)		BRCA - Breast invasive adenocarcinoma(221;0.097)		GCTCCGCCGCGACGTGTTGTA	0.637													4	10					0	0	1	0	0		A	131801887	A	A	131801887	3	1	89	1	0	0	0	0	1	0	0	0	908	1058	37	1	1653	1	ARHGEF4	2	131801887	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5365	131801887	111397486	1046	54877											
NCKAP5	344148	broad.mit.edu	37	chr2	133489398	133489398	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgtggaatgaacaatggcGctatctgcagggcgctggcc	9	8	15	9	2	1	1	0	1	1	0	1	3	1	2	1	4	2	3	1	4	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:133489398G>A	uc002ttp.2	-	17	5729	c.5355C>T	c.(5353-5355)AGC>AGT	p.S1785S	NCKAP5_uc002ttq.2_Silent_p.S466S	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1785							protein binding				0						GAACAATGGCGCTATCTGCAG	0.567													22	40					0	0	1	0	0		A	133489398	A	A	133489398	2	1	89	1	0	0	0	0	0	0	0	1	10242	1078	38	1		1	NCKAP5	2	133489398	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1687511	133489398	109709975	1047	54878											
NCKAP5	344148	broad.mit.edu	37	chr2	133539768	133539768	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtttccaaaccccaagActtttgcatctttcttttct	7	18	4	12	0	4	1	0	0	4	1	5	1	5	1	3	0	2	2	3	0	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:133539768A>C	uc002ttp.2	-	14	4990	c.4616T>G	c.(4615-4617)GTC>GGC	p.V1539G	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1539							protein binding				0						AAACCCCAAGACTTTTGCATC	0.398													28	64					0	0	1	0	0		C	133539768	C	C	133539768	3	2	89	1	0	0	0	0	1	0	0	0	10242	275	10	5	1141	5	NCKAP5	2	133539768	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	50370	133539768	109659605	1048	54879											
MGAT5	4249	broad.mit.edu	37	chr2	135107416	135107416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcatttggtactgaacccGaatttaatcatgcaaattat	14	15	5	7	1	2	1	2	1	0	0	2	2	2	1	1	1	3	2	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:135107416G>A	uc002ttv.1	+	9	1298	c.1153G>A	c.(1153-1155)GAA>AAA	p.E385K		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	385	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		TACTGAACCCGAATTTAATCA	0.423													30	84					0	0	1	0	0		A	135107416	A	A	135107416	3	1	89	1	0	0	0	0	1	0	0	0	9566	1059	37	1	1187	1	MGAT5	2	135107416	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1567648	135107416	108091957	1049	54880											
ACMSD	130013	broad.mit.edu	37	chr2	135616864	135616864	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgaaagatgggaaagtcTtcagagtggtgcgagagaat	13	10	15	3	1	2	4	1	1	1	3	2	7	2	5	0	2	1	1	0	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:135616864T>G	uc002ttz.2	+	3	203	c.136T>G	c.(136-138)TTC>GTC	p.F46V	ACMSD_uc002tua.2_Silent_p.S4S	NM_138326	NP_612199	Q8TDX5	ACMSD_HUMAN	aminocarboxymuconate semialdehyde decarboxylase	46					quinolinate metabolic process|tryptophan catabolic process	cytosol	aminocarboxymuconate-semialdehyde decarboxylase activity|metal ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.115)		TGGGAAAGTCTTCAGAGTGGT	0.433													30	50					0	0	1	0	0		G	135616864	G	G	135616864	3	3	89	1	0	0	0	0	1	0	0	0	144	1609	56	5	146	5	ACMSD	2	135616864	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	509448	135616864	107582509	1050	54881											
YSK4	80122	broad.mit.edu	37	chr2	135738478	135738478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccctcggtgtgctccgatgTaaaacatggcggccatcctg	7	9	12	13	3	0	0	0	0	0	0	3	1	2	0	4	3	2	2	4	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:135738478T>C	uc002tue.1	-	9	3864	c.3833A>G	c.(3832-3834)TAC>TGC	p.Y1278C	YSK4_uc002tuf.1_Missense_Mutation_p.Y460C|YSK4_uc010fnc.1_Missense_Mutation_p.Y412C|YSK4_uc010fnd.1_Missense_Mutation_p.Y1165C|YSK4_uc010zbg.1_Missense_Mutation_p.Y410C|YSK4_uc002tuh.3_Missense_Mutation_p.Y1006C|YSK4_uc002tui.3_3'UTR	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	1278	Protein kinase.						ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TGCTCCGATGTAAAACATGGC	0.512													16	35					0	0	1	0	0		C	135738478	C	C	135738478	3	2	89	1	0	0	0	0	1	0	0	0	17521	1638	57	3	161	3	YSK4	2	135738478	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	121614	135738478	107460895	1051	54882											
YSK4	80122	broad.mit.edu	37	chr2	135741299	135741299	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtccataggataggttCttcagactttaaactatttt	10	17	7	7	0	2	1	1	0	1	1	3	2	3	2	1	3	1	1	1	3	5	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:135741299C>A	uc002tue.1	-	8	3200	c.3169G>T	c.(3169-3171)GAA>TAA	p.E1057*	YSK4_uc002tuf.1_Nonsense_Mutation_p.E239*|YSK4_uc010fnc.1_Nonsense_Mutation_p.E239*|YSK4_uc010fnd.1_Nonsense_Mutation_p.E944*|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Nonsense_Mutation_p.E785*|YSK4_uc002tui.3_Nonsense_Mutation_p.E1074*	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	1057							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		AGGATAGGTTCTTCAGACTTT	0.378													35	66					4.3181e-19	5.06354e-19	1	1	0		A	135741299	A	A	135741299	4	1	89	1	0	0	0	0	0	1	0	0	17521	922	32	5	829	5	YSK4	2	135741299	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2821	135741299	107458074	1052	54883											
YSK4	80122	broad.mit.edu	37	chr2	135756376	135756376	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggttacagacttggaaatgTtcagttctaaacaagatctt	13	14	8	6	0	3	2	1	0	2	2	3	3	3	3	0	2	2	3	0	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:135756376T>C	uc002tue.1	-	5	537	c.506A>G	c.(505-507)AAC>AGC	p.N169S	YSK4_uc010fne.1_Missense_Mutation_p.N141S|YSK4_uc002tuf.1_Missense_Mutation_p.N169S|YSK4_uc010fnc.1_Missense_Mutation_p.N169S|YSK4_uc010fnd.1_Intron|YSK4_uc010zbg.1_Missense_Mutation_p.N169S|YSK4_uc002tui.3_Missense_Mutation_p.N186S	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	169							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		CTTGGAAATGTTCAGTTCTAA	0.428													27	51					0	0	1	0	0		C	135756376	C	C	135756376	3	2	89	1	0	0	0	0	1	0	0	0	17521	1725	60	3	3504	3	YSK4	2	135756376	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15077	135756376	107442997	1053	54884											
RAB3GAP1	22930	broad.mit.edu	37	chr2	135815651	135815651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actctttgggaaagccactcGaaaaggtcagatctatttgc	12	11	9	9	1	3	1	1	0	2	1	4	3	3	2	1	2	2	0	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:135815651G>A	uc002tuj.2	+	3	170	c.145G>A	c.(145-147)GAA>AAA	p.E49K	RAB3GAP1_uc010fnf.2_Missense_Mutation_p.E49K|RAB3GAP1_uc010fng.2_5'UTR	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein	49						centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		AAAGCCACTCGAAAAGGTCAG	0.373													14	29					0	0	1	0	0		A	135815651	A	A	135815651	3	1	89	1	0	0	0	0	1	0	0	0	12960	1059	37	1	155	1	RAB3GAP1	2	135815651	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	59275	135815651	107383722	1054	54885											
RAB3GAP1	22930	broad.mit.edu	37	chr2	135878432	135878432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccagttagtattgctattcGatttacctatgtacttcaag	10	17	6	8	1	1	0	1	0	0	0	3	1	2	0	2	0	3	4	2	0	7	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:135878432G>A	uc002tuj.2	+	8	717	c.692G>A	c.(691-693)CGA>CAA	p.R231Q	RAB3GAP1_uc010fnf.2_Missense_Mutation_p.R231Q|RAB3GAP1_uc010fng.2_Missense_Mutation_p.R56Q|RAB3GAP1_uc010fnh.1_RNA	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein	231						centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		ATTGCTATTCGATTTACCTAT	0.368													49	112					0	0	1	0	0		A	135878432	A	A	135878432	3	1	89	1	0	0	0	0	1	0	0	0	12960	1058	37	1	722	1	RAB3GAP1	2	135878432	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	62781	135878432	107320941	1055	54886											
R3HDM1	23518	broad.mit.edu	37	chr2	136362556	136362556	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttggtagagaagaatgaAcattgtattgagaacaatat	17	13	9	2	0	0	4	0	2	0	3	0	6	0	4	0	1	2	2	0	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:136362556A>G	uc002tuo.2	+	3	511	c.141A>G	c.(139-141)GAA>GAG	p.E47E	R3HDM1_uc010fni.2_Silent_p.E45E|R3HDM1_uc002tup.2_Intron	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	47							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		AGAAGAATGAACATTGTATTG	0.299													22	66					0	0	1	0	0		G	136362556	G	G	136362556	2	3	89	1	0	0	0	0	0	0	0	1	12912	40	2	3		3	R3HDM1	2	136362556	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	484124	136362556	106836817	1056	54887											
R3HDM1	23518	broad.mit.edu	37	chr2	136393692	136393692	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagatgacagaagaagcaAatctatagaagaaagagaag	23	4	11	3	0	1	7	0	1	1	6	1	9	1	7	0	0	1	1	0	0	9	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:136393692A>C	uc002tuo.2	+	11	1212	c.842A>C	c.(841-843)AAA>ACA	p.K281T	R3HDM1_uc010fni.2_Missense_Mutation_p.K279T|R3HDM1_uc002tup.2_Missense_Mutation_p.K225T|R3HDM1_uc010zbh.1_Missense_Mutation_p.K113T	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	281							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		AGAAGAAGCAAATCTATAGAA	0.353													44	99					0	0	1	0	0		C	136393692	C	C	136393692	3	2	89	1	0	0	0	0	1	0	0	0	12912	14	1	5	876	5	R3HDM1	2	136393692	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	31136	136393692	106805681	1057	54888											
THSD7B	80731	broad.mit.edu	37	chr2	137814328	137814328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggttgcaaatgaaatatgcGaacactttgcccttcagcct	11	12	8	10	1	1	1	1	1	0	0	1	2	1	1	2	1	5	2	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:137814328G>A	uc002tva.1	+	2	385	c.385G>A	c.(385-387)GAA>AAA	p.E129K	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Missense_Mutation_p.E19K	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TGAAATATGCGAACACTTTGC	0.517													74	111					0	0	1	0	0		A	137814328	A	A	137814328	3	1	89	1	0	0	0	0	1	0	0	0	15905	1059	37	1	391	1	THSD7B	2	137814328	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1420636	137814328	105385045	1058	54889											
THSD7B	80731	broad.mit.edu	37	chr2	137988724	137988724	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagtggacggagtggtcaTcctgttcccagtcctgttca	6	11	13	11	2	2	0	2	0	0	0	5	3	5	2	3	3	0	2	3	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:137988724T>C	uc002tva.1	+	7	1741	c.1741T>C	c.(1741-1743)TCC>CCC	p.S581P	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.S471P	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GGAGTGGTCATCCTGTTCCCA	0.512													10	22					0	0	1	0	0		C	137988724	C	C	137988724	3	2	89	1	0	0	0	0	1	0	0	0	15905	1435	50	3	1767	3	THSD7B	2	137988724	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	174396	137988724	105210649	1059	54890											
THSD7B	80731	broad.mit.edu	37	chr2	138400060	138400060	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcccttatcattttaggtCgaatgagccggactcgattt	8	14	8	11	3	1	1	1	1	0	0	4	4	2	2	3	2	1	0	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:138400060C>T	uc002tva.1	+	20	3715	c.3715C>T	c.(3715-3717)CGA>TGA	p.R1239*	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CATTTTAGGTCGAATGAGCCG	0.473													44	86					0	0	1	0	0		T	138400060	T	T	138400060	4	4	89	1	0	0	0	0	0	1	0	0	15905	876	31	1	3792	1	THSD7B	2	138400060	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	411336	138400060	104799313	1060	54891											
SPOPL	339745	broad.mit.edu	37	chr2	139316695	139316695	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatttaggtaatctctgggAaaacacaagatttacagact	16	11	8	6	0	1	3	0	0	1	3	2	4	1	4	0	2	2	1	0	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:139316695A>G	uc002tvh.2	+	6	984	c.584A>G	c.(583-585)GAA>GGA	p.E195G		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	195						nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		AATCTCTGGGAAAACACAAGA	0.373													51	104					0	0	1	0	0		G	139316695	G	G	139316695	3	3	89	1	0	0	0	0	1	0	0	0	15110	246	9	3	602	3	SPOPL	2	139316695	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	916635	139316695	103882678	1061	54892											
LRP1B	53353	broad.mit.edu	37	chr2	141027830	141027830	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacacacaggtacatttgTctcggggtccagctggcatg	9	9	12	11	1	1	1	0	0	1	1	3	1	2	1	1	4	2	3	1	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141027830T>C	uc002tvj.1	-	86	14200	c.13228A>G	c.(13228-13230)ACA>GCA	p.T4410A		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4410	Extracellular (Potential).|EGF-like 14.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GGTACATTTGTCTCGGGGTCC	0.413										TSP Lung(27;0.18)			30	65					0	0	1	0	0		C	141027830	C	C	141027830	3	2	89	1	0	0	0	0	1	0	0	0	8973	1667	58	3	595	3	LRP1B	2	141027830	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1711135	141027830	102171543	1062	54893											
LRP1B	53353	broad.mit.edu	37	chr2	141108514	141108514	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaattatgttcaatatgaGaaatttgttgatgatcgcca	13	16	8	4	1	1	4	1	4	0	1	2	5	1	4	1	0	0	2	1	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141108514G>T	uc002tvj.1	-	77	12716	c.11744C>A	c.(11743-11745)TCT>TAT	p.S3915Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3915	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTCAATATGAGAAATTTGTTG	0.348										TSP Lung(27;0.18)			48	99					3.86236e-30	4.71964e-30	1	1	0		T	141108514	T	T	141108514	3	4	89	1	0	0	0	0	1	0	0	0	8973	942	33	5	2115	5	LRP1B	2	141108514	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	80684	141108514	102090859	1063	54894											
LRP1B	53353	broad.mit.edu	37	chr2	141128375	141128375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgggctttatttttgcaccGaaactgatcttccttacatt	8	17	7	9	1	1	1	0	1	1	0	2	2	2	1	2	1	3	2	2	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141128375G>A	uc002tvj.1	-	71	11884	c.10912C>T	c.(10912-10914)CGG>TGG	p.R3638W		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3638	Extracellular (Potential).|LDL-receptor class A 29.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTTTTGCACCGAAACTGATCT	0.383										TSP Lung(27;0.18)			56	97					0	0	1	0	0		A	141128375	A	A	141128375	3	1	89	1	0	0	0	0	1	0	0	0	8973	1057	37	1	2971	1	LRP1B	2	141128375	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	19861	141128375	102070998	1064	54895											
LRP1B	53353	broad.mit.edu	37	chr2	141143550	141143550	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagttgttgtttttacactgGaattcatgaggtccacaagt	10	15	9	7	0	1	1	1	1	0	0	2	2	2	2	1	2	1	3	1	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141143550G>A	uc002tvj.1	-	67	11415	c.10443C>T	c.(10441-10443)TTC>TTT	p.F3481F		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3481	Extracellular (Potential).|LDL-receptor class A 25.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTTTACACTGGAATTCATGAG	0.403										TSP Lung(27;0.18)			43	110					0	0	1	0	0		A	141143550	A	A	141143550	2	1	89	1	0	0	0	0	0	0	0	1	8973	1165	41	4		4	LRP1B	2	141143550	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	15175	141143550	102055823	1065	54896											
LRP1B	53353	broad.mit.edu	37	chr2	141201904	141201904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaggtgacttacgacagTctctttcatcttcctcatca	8	16	6	11	1	5	2	3	2	2	0	7	3	6	2	1	1	1	0	1	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141201904T>C	uc002tvj.1	-	65	11261	c.10289A>G	c.(10288-10290)GAC>GGC	p.D3430G		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3430	Extracellular (Potential).|LDL-receptor class A 23.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CTTACGACAGTCTCTTTCATC	0.348										TSP Lung(27;0.18)			45	94					0	0	1	0	0		C	141201904	C	C	141201904	3	2	89	1	0	0	0	0	1	0	0	0	8973	1667	58	3	3618	3	LRP1B	2	141201904	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	58354	141201904	101997469	1066	54897											
LRP1B	53353	broad.mit.edu	37	chr2	141245224	141245224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaacacattctatttatgcGactgccattgggtcggctag	10	13	9	9	2	1	0	0	0	1	0	2	1	1	0	1	2	3	1	1	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141245224G>A	uc002tvj.1	-	58	10177	c.9205C>T	c.(9205-9207)CGC>TGC	p.R3069C		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3069	Extracellular (Potential).|LDL-receptor class B 28.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CTATTTATGCGACTGCCATTG	0.308										TSP Lung(27;0.18)			34	85					0	0	1	0	0		A	141245224	A	A	141245224	3	1	89	1	0	0	0	0	1	0	0	0	8973	1058	37	1	4730	1	LRP1B	2	141245224	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	43320	141245224	101954149	1067	54898											
LRP1B	53353	broad.mit.edu	37	chr2	141291621	141291621	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattcatcagagttgtctccGcagtcattttctccatcaca	10	14	5	12	1	6	1	4	0	2	1	8	1	6	1	2	0	0	2	2	0	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141291621G>A	uc002tvj.1	-	47	8703	c.7731C>T	c.(7729-7731)TGC>TGT	p.C2577C		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2577	Extracellular (Potential).|LDL-receptor class A 12.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		AGTTGTCTCCGCAGTCATTTT	0.388										TSP Lung(27;0.18)			34	55					0	0	1	0	0		A	141291621	A	A	141291621	2	1	89	1	0	0	0	0	0	0	0	1	8973	1079	38	1		1	LRP1B	2	141291621	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	46397	141291621	101907752	1068	54899											
LRP1B	53353	broad.mit.edu	37	chr2	141460006	141460006	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacagacctcatagtcgAtggagatgccattcggccat	11	9	9	12	2	1	2	1	0	0	2	4	4	2	2	4	2	2	0	4	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141460006A>G	uc002tvj.1	-	38	7112	c.6140T>C	c.(6139-6141)ATC>ACC	p.I2047T		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2047	Extracellular (Potential).|LDL-receptor class B 21.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CTCATAGTCGATGGAGATGCC	0.398										TSP Lung(27;0.18)			24	79					0	0	1	0	0		G	141460006	G	G	141460006	3	3	89	1	0	0	0	0	1	0	0	0	8973	333	12	3	7875	3	LRP1B	2	141460006	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	168385	141460006	101739367	1069	54900											
LRP1B	53353	broad.mit.edu	37	chr2	141747168	141747168	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccatcacaaagccatctCttggggatgcagcgattatt	10	11	9	11	1	2	0	1	0	1	0	4	2	3	1	2	2	3	2	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141747168C>A	uc002tvj.1	-	17	3675	c.2703G>T	c.(2701-2703)AAG>AAT	p.K901N	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	901	Extracellular (Potential).|LDL-receptor class A 4.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		AAAGCCATCTCTTGGGGATGC	0.413										TSP Lung(27;0.18)			42	88					1.59361e-14	1.79967e-14	1	1	0		A	141747168	A	A	141747168	3	1	89	1	0	0	0	0	1	0	0	0	8973	912	32	5	11396	5	LRP1B	2	141747168	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	287162	141747168	101452205	1070	54901											
LRP1B	53353	broad.mit.edu	37	chr2	141762987	141762987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggatagccaagcaaagtGtactacagcccccattattt	12	10	8	11	0	0	0	0	0	0	0	0	1	0	1	3	1	5	2	3	1	6	5	rs139524624		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141762987G>A	uc002tvj.1	-	15	3392	c.2420C>T	c.(2419-2421)ACA>ATA	p.T807I	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	807	Extracellular (Potential).|EGF-like 3.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CAAGCAAAGTGTACTACAGCC	0.448										TSP Lung(27;0.18)			31	47					0	0	1	0	0		A	141762987	A	A	141762987	3	1	89	1	0	0	0	0	1	0	0	0	8973	1377	48	4	11687	4	LRP1B	2	141762987	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	15819	141762987	101436386	1071	54902											
LRP1B	53353	broad.mit.edu	37	chr2	141773306	141773306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatactttttcaatatgatCgtaataggcatcacaccagt	15	13	5	8	1	2	1	2	1	0	0	3	1	2	1	1	1	1	2	1	1	6	6	rs143197572	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141773306C>T	uc002tvj.1	-	13	3121	c.2149G>A	c.(2149-2151)GAT>AAT	p.D717N	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	717	Extracellular (Potential).|LDL-receptor class B 8.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TCAATATGATCGTAATAGGCA	0.388										TSP Lung(27;0.18)			22	44					0	0	1	0	0		T	141773306	T	T	141773306	3	4	89	1	0	0	0	0	1	0	0	0	8973	884	31	1	11966	1	LRP1B	2	141773306	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10319	141773306	101426067	1072	54903											
LRP1B	53353	broad.mit.edu	37	chr2	141812693	141812693	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaacaacatacttttgcatGacctgccatcacttcccaag	12	12	4	13	0	1	1	1	1	0	0	2	1	2	1	3	0	5	1	3	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141812693G>T	uc002tvj.1	-	10	2516	c.1544C>A	c.(1543-1545)TCA>TAA	p.S515*	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	515	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACTTTTGCATGACCTGCCATC	0.423										TSP Lung(27;0.18)			20	45					1.96292e-10	2.12899e-10	1	1	0		T	141812693	T	T	141812693	4	4	89	1	0	0	0	0	0	1	0	0	8973	1294	45	5	12583	5	LRP1B	2	141812693	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	39387	141812693	101386680	1073	54904											
LRP1B	53353	broad.mit.edu	37	chr2	141816481	141816481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagttcttttttgataaattCggattccccaagcattctca	10	16	6	9	1	2	1	1	1	2	0	5	3	3	2	2	1	1	2	2	1	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141816481C>T	uc002tvj.1	-	9	2351	c.1379G>A	c.(1378-1380)CGA>CAA	p.R460Q	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	460	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTGATAAATTCGGATTCCCCA	0.343										TSP Lung(27;0.18)			15	50					0	0	1	0	0		T	141816481	T	T	141816481	3	4	89	1	0	0	0	0	1	0	0	0	8973	884	31	1	12752	1	LRP1B	2	141816481	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3788	141816481	101382892	1074	54905											
LRP1B	53353	broad.mit.edu	37	chr2	141819833	141819833	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattcccgtagtcagtaaaGaaaagttttctgttgaaaga	15	12	8	6	1	2	3	1	1	1	2	3	3	3	3	1	0	0	4	1	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141819833G>T	uc002tvj.1	-	8	1995	c.1023C>A	c.(1021-1023)TTC>TTA	p.F341L	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	341	Extracellular (Potential).|LDL-receptor class B 3.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		AGTCAGTAAAGAAAAGTTTTC	0.428										TSP Lung(27;0.18)			18	41					2.4624e-09	2.64481e-09	1	1	0		T	141819833	T	T	141819833	3	4	89	1	0	0	0	0	1	0	0	0	8973	933	33	5	13112	5	LRP1B	2	141819833	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3352	141819833	101379540	1075	54906											
LRP1B	53353	broad.mit.edu	37	chr2	141946119	141946119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtccacaaaatagagatttCgagtgagccagtcaatcgcc	13	8	10	10	2	1	2	1	1	0	1	4	4	2	2	3	1	1	0	3	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:141946119C>T	uc002tvj.1	-	7	1856	c.884G>A	c.(883-885)CGA>CAA	p.R295Q	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	295	Extracellular (Potential).|LDL-receptor class B 2.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATAGAGATTTCGAGTGAGCCA	0.408										TSP Lung(27;0.18)			18	41					0	0	1	0	0		T	141946119	T	T	141946119	3	4	89	1	0	0	0	0	1	0	0	0	8973	884	31	1	13255	1	LRP1B	2	141946119	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	126286	141946119	101253254	1076	54907											
KYNU	8942	broad.mit.edu	37	chr2	143676232	143676232	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctatttcttgggaaattCtcttggccttcaaccaaaaa	12	14	5	10	0	4	0	1	0	3	0	5	1	4	1	2	2	1	0	2	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:143676232C>A	uc002tvl.2	+	3	354	c.224C>A	c.(223-225)TCT>TAT	p.S75Y	KYNU_uc002tvk.2_Missense_Mutation_p.S75Y|KYNU_uc010fnm.2_Missense_Mutation_p.S75Y	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	75					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	TTGGGAAATTCTCTTGGCCTT	0.279													15	42					2.23348e-06	2.32221e-06	1	1	0		A	143676232	A	A	143676232	3	1	89	1	0	0	0	0	1	0	0	0	8603	913	32	5	230	5	KYNU	2	143676232	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1730113	143676232	99523141	1077	54908											
ARHGAP15	55843	broad.mit.edu	37	chr2	143959745	143959745	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcacagcatatcttgaaaGatgtcattcctccattggaa	13	13	6	9	0	3	2	2	1	1	1	5	3	5	3	2	1	1	1	2	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:143959745G>T	uc002tvm.3	+	3	359	c.208G>T	c.(208-210)GAT>TAT	p.D70Y	ARHGAP15_uc010zbl.1_Missense_Mutation_p.D70Y	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	70					regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		TATCTTGAAAGATGTCATTCC	0.229													35	93					1.47244e-24	1.76996e-24	1	1	0		T	143959745	T	T	143959745	3	4	89	1	0	0	0	0	1	0	0	0	866	942	33	5	214	5	ARHGAP15	2	143959745	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	283513	143959745	99239628	1078	54909											
GTDC1	79712	broad.mit.edu	37	chr2	144899590	144899590	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaatgattccatattaaaaActgagttgaatacaaccaca	19	10	5	7	0	0	3	0	3	0	0	1	4	1	3	2	0	3	1	2	0	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:144899590A>G	uc002tvp.2	-	6	659	c.380T>C	c.(379-381)GTT>GCT	p.V127A	GTDC1_uc002tvo.2_Missense_Mutation_p.V127A|GTDC1_uc002tvq.2_Missense_Mutation_p.V127A|GTDC1_uc002tvr.2_Missense_Mutation_p.V127A|GTDC1_uc010fnn.2_Missense_Mutation_p.V127A|GTDC1_uc002tvs.2_Missense_Mutation_p.V95A|GTDC1_uc010fno.2_5'UTR|GTDC1_uc002tvt.1_Missense_Mutation_p.V127A	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	127					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		CATATTAAAAACTGAGTTGAA	0.393													19	53					0	0	1	0	0		G	144899590	G	G	144899590	3	3	89	1	0	0	0	0	1	0	0	0	6867	43	2	3	1024	3	GTDC1	2	144899590	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	939845	144899590	98299783	1079	54910											
ZEB2	9839	broad.mit.edu	37	chr2	145147102	145147102	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactatcgtccatggagtgAtctccagtctcttcttcatc	8	14	7	12	1	4	1	1	1	3	0	9	3	5	2	2	1	1	0	2	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:145147102A>G	uc002tvu.2	-	10	4041	c.3561T>C	c.(3559-3561)GAT>GAC	p.D1187D	ZEB2_uc002tvv.2_Silent_p.D1181D|ZEB2_uc010zbm.1_Silent_p.D1158D|ZEB2_uc010fnp.2_Intron	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	1187	Glu-rich (acidic).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		CCATGGAGTGATCTCCAGTCT	0.438													87	166					0	0	1	0	0		G	145147102	G	G	145147102	2	3	89	1	0	0	0	0	0	0	0	1	17649	330	12	3		3	ZEB2	2	145147102	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	247512	145147102	98052271	1080	54911											
MBD5	55777	broad.mit.edu	37	chr2	149216265	149216265	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgaaggccatcatgctCtgtaatataaggatatcatc	12	14	7	8	0	3	1	2	1	1	0	4	2	3	2	1	2	1	2	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:149216265C>A	uc002twm.3	+	6	926	c.-62C>A	c.(-64--60)CTCTG>CTATG		MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Translation_Start_Site	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5							chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		CCATCATGCTCTGTAATATAA	0.458													15	18					1.52009e-12	1.68689e-12	1	1	0		A	149216265	A	A	149216265	1	1	89	1	0	0	0	0	0	0	0	0	9365	928	32	5		5	MBD5	2	149216265	Translation_Start_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4069163	149216265	93983108	1081	54912											
MBD5	55777	broad.mit.edu	37	chr2	149247655	149247655	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaatactgttaccaccaaGaaactgtccaggggataaaa	16	7	7	11	0	0	1	0	0	0	1	1	2	1	2	4	2	3	1	4	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:149247655G>T	uc002twm.3	+	12	4743	c.3755G>T	c.(3754-3756)AGA>ATA	p.R1252I	MBD5_uc010zbs.1_Intron|MBD5_uc010fns.2_Missense_Mutation_p.R1252I|MBD5_uc002two.2_Missense_Mutation_p.R510I|MBD5_uc002twp.2_Missense_Mutation_p.R302I	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1252						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		TTACCACCAAGAAACTGTCCA	0.423													32	69					1.36615e-20	1.614e-20	1	1	0		T	149247655	T	T	149247655	3	4	89	1	0	0	0	0	1	0	0	0	9365	942	33	5	3781	5	MBD5	2	149247655	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	31390	149247655	93951718	1082	54913											
KIF5C	3800	broad.mit.edu	37	chr2	149840179	149840179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgagccagctacaagagCttagcaaccaccagaagaaa	17	4	9	11	0	0	4	0	1	0	3	0	4	0	4	3	0	7	4	3	0	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:149840179C>T	uc010zbu.1	+	15	1983	c.1615C>T	c.(1615-1617)CTT>TTT	p.L539F	KIF5C_uc002tws.1_RNA|KIF5C_uc002twt.2_Missense_Mutation_p.L91F	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	539					microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		GCTACAAGAGCTTAGCAACCA	0.418													14	39					0	0	1	0	0		T	149840179	T	T	149840179	3	4	89	1	0	0	0	0	1	0	0	0	8323	797	28	2	1595	2	KIF5C	2	149840179	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	592524	149840179	93359194	1083	54914											
LYPD6B	130576	broad.mit.edu	37	chr2	150061822	150061822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatgctgctcctctgtcacGctctcgctatagctgttgtc	4	14	9	14	2	3	0	1	0	2	0	6	0	4	0	1	0	3	7	1	0	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:150061822G>A	uc002twv.1	+	4	534	c.133G>A	c.(133-135)GCT>ACT	p.A45T	LYPD6B_uc002tww.1_Missense_Mutation_p.A7T|LYPD6B_uc002twx.1_Missense_Mutation_p.A7T	NM_177964	NP_808879	Q8NI32	LPD6B_HUMAN	LY6/PLAUR domain containing 6B	21						anchored to membrane|plasma membrane					0						CCTCTGTCACGCTCTCGCTAT	0.453													60	132					0	0	1	0	0		A	150061822	A	A	150061822	3	1	89	1	0	0	0	0	1	0	0	0	9133	1087	38	1	143	1	LYPD6B	2	150061822	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	221643	150061822	93137551	1084	54915											
RND3	390	broad.mit.edu	37	chr2	151331453	151331453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaaatcagcacagcatccGaatcagggtaagagaggggg	15	4	14	8	1	2	1	2	0	0	1	3	3	3	1	1	3	3	4	1	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:151331453G>A	uc002txe.2	-	3	528	c.284C>T	c.(283-285)TCG>TTG	p.S95L	RND3_uc002txf.2_Missense_Mutation_p.S95L|RND3_uc002txg.2_Missense_Mutation_p.S95L|RND3_uc010zbv.1_Missense_Mutation_p.S95L|RND3_uc010zbw.1_5'UTR	NM_005168	NP_005159	P61587	RND3_HUMAN	ras homolog gene family, member E precursor	95					actin cytoskeleton organization|cell adhesion|small GTPase mediated signal transduction	Golgi membrane	GTP binding|GTPase activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.106)		CACAGCATCCGAATCAGGGTA	0.463													18	40					0	0	1	0	0		A	151331453	A	A	151331453	3	1	89	1	0	0	0	0	1	0	0	0	13446	1059	37	1	462	1	RND3	2	151331453	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1269631	151331453	91867920	1085	54916											
RIF1	55183	broad.mit.edu	37	chr2	152293828	152293828	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacacttatcactgctgtTcatgatagctttgttgcagt	10	16	7	8	0	2	1	2	1	0	0	2	1	2	1	0	0	4	5	0	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152293828T>C	uc002txm.2	+	13	1576	c.1446T>C	c.(1444-1446)GTT>GTC	p.V482V	RIF1_uc002txl.2_Silent_p.V482V|RIF1_uc010fnv.1_Silent_p.V446V|RIF1_uc002txn.2_Silent_p.V482V|RIF1_uc002txo.2_Silent_p.V482V|RIF1_uc010zby.1_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	482					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		TCACTGCTGTTCATGATAGCT	0.333													58	106					0	0	1	0	0		C	152293828	C	C	152293828	2	2	89	1	0	0	0	0	0	0	0	1	13384	1770	62	3		3	RIF1	2	152293828	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	962375	152293828	90905545	1086	54917											
RIF1	55183	broad.mit.edu	37	chr2	152296636	152296636	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtatttcctgtatcaaaaAcgctggtaagtataataccc	15	12	6	8	1	1	0	1	0	0	0	2	0	2	0	2	1	2	5	2	1	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152296636A>C	uc002txm.2	+	15	1772	c.1642A>C	c.(1642-1644)ACG>CCG	p.T548P	RIF1_uc002txl.2_Missense_Mutation_p.T548P|RIF1_uc010fnv.1_Missense_Mutation_p.T512P|RIF1_uc002txn.2_Missense_Mutation_p.T548P|RIF1_uc002txo.2_Missense_Mutation_p.T548P|RIF1_uc010zby.1_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	548					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		TGTATCAAAAACGCTGGTAAG	0.313													19	32					0	0	1	0	0		C	152296636	C	C	152296636	3	2	89	1	0	0	0	0	1	0	0	0	13384	43	2	5	1696	5	RIF1	2	152296636	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2808	152296636	90902737	1087	54918											
RIF1	55183	broad.mit.edu	37	chr2	152308139	152308139	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatttgttgttcgtggataGaattatttatattattactg	11	20	8	2	1	0	1	0	0	0	1	1	3	0	2	0	1	1	2	0	1	8	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152308139G>T	uc002txm.2	+	21	2394	c.2264G>T	c.(2263-2265)AGA>ATA	p.R755I	RIF1_uc002txl.2_Missense_Mutation_p.R755I|RIF1_uc010fnv.1_Missense_Mutation_p.R719I|RIF1_uc002txn.2_Missense_Mutation_p.R755I|RIF1_uc002txo.2_Missense_Mutation_p.R755I	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	755					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		TTCGTGGATAGAATTATTTAT	0.284													25	47					4.22769e-11	4.62085e-11	1	1	0		T	152308139	T	T	152308139	3	4	89	1	0	0	0	0	1	0	0	0	13384	942	33	5	2342	5	RIF1	2	152308139	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11503	152308139	90891234	1088	54919											
RIF1	55183	broad.mit.edu	37	chr2	152320412	152320412	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtccattgcatataaaaGatgatgtgttacctaaacaa	17	11	7	6	0	0	3	0	1	0	2	1	3	1	3	2	0	3	2	2	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152320412G>T	uc002txm.2	+	30	4508	c.4378G>T	c.(4378-4380)GAT>TAT	p.D1460Y	RIF1_uc002txl.2_Missense_Mutation_p.D1460Y|RIF1_uc002txn.2_Missense_Mutation_p.D1460Y|RIF1_uc002txo.2_Missense_Mutation_p.D1460Y|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	1460					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		GCATATAAAAGATGATGTGTT	0.353													25	51					4.26978e-12	4.71084e-12	1	1	0		T	152320412	T	T	152320412	3	4	89	1	0	0	0	0	1	0	0	0	13384	942	33	5	4492	5	RIF1	2	152320412	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12273	152320412	90878961	1089	54920											
NEB	4703	broad.mit.edu	37	chr2	152350367	152350367	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggttgctttccccaggttCtctttgtataacacctgtga	6	15	10	10	0	1	1	0	1	1	0	3	1	2	1	3	3	2	4	3	3	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152350367C>A	uc010fnx.2	-	142	19217	c.19026G>T	c.(19024-19026)GAG>GAT	p.E6342D	NEB_uc002txr.2_Intron|RIF1_uc002txp.2_Intron|NEB_uc010zbz.1_Intron|NEB_uc002txq.2_Missense_Mutation_p.E221D|NEB_uc010zca.1_Missense_Mutation_p.E173D|NEB_uc010zcb.1_Intron	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	6342	Nebulin 174.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCCCCAGGTTCTCTTTGTATA	0.388													7	5					0.0381472	0.0383344	1	1	0		A	152350367	A	A	152350367	3	1	89	1	0	0	0	0	1	0	0	0	10321	912	32	5	1015	5	NEB	2	152350367	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	29955	152350367	90849006	1090	54921											
NEB	4703	broad.mit.edu	37	chr2	152352870	152352870	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcccttgcccatgttttCtttgtataacacctgtgcga	7	16	7	11	1	1	0	0	0	1	0	2	1	2	0	3	0	3	3	3	0	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152352870C>A	uc010fnx.2	-	140	19029	c.18838G>T	c.(18838-18840)GAA>TAA	p.E6280*	NEB_uc002txr.2_Nonsense_Mutation_p.E2672*|RIF1_uc002txp.2_Intron|NEB_uc010zbz.1_Nonsense_Mutation_p.E80*|NEB_uc002txq.2_Nonsense_Mutation_p.E159*|NEB_uc010zca.1_Nonsense_Mutation_p.E111*|NEB_uc010zcb.1_Nonsense_Mutation_p.E80*	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	6280	Nebulin 172.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CCCATGTTTTCTTTGTATAAC	0.408													5	13					0.000274275	0.000279565	1	1	0		A	152352870	A	A	152352870	4	1	89	1	0	0	0	0	0	1	0	0	10321	922	32	5	1211	5	NEB	2	152352870	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2503	152352870	90846503	1091	54922											
NEB	4703	broad.mit.edu	37	chr2	152381115	152381115	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaggttctctttggcatCttttctgtaagcgaccttta	7	17	8	9	1	3	0	0	0	3	0	4	1	3	0	1	2	2	4	1	2	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152381115C>A	uc010fnx.2	-	124	17376	c.17185G>T	c.(17185-17187)GAT>TAT	p.D5729Y	NEB_uc002txr.2_Missense_Mutation_p.D2152Y|NEB_uc002txt.3_Missense_Mutation_p.D234Y	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	5729	Nebulin 156.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCTTTGGCATCTTTTCTGTAA	0.373													54	114					2.69953e-25	3.25358e-25	1	1	0		A	152381115	A	A	152381115	3	1	89	1	0	0	0	0	1	0	0	0	10321	913	32	5	3413	5	NEB	2	152381115	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28245	152381115	90818258	1092	54923											
NEB	4703	broad.mit.edu	37	chr2	152382699	152382699	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaggttgctgacagtcttCgccagcaggatctgaggcgt	8	9	13	11	2	2	2	0	2	2	0	3	3	2	3	2	3	2	3	2	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152382699C>T	uc010fnx.2	-	121	17111	c.16920G>A	c.(16918-16920)GCG>GCA	p.A5640A	NEB_uc002txr.2_Silent_p.A2063A|NEB_uc002txt.3_Silent_p.A145A	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	5640	Nebulin 154.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGACAGTCTTCGCCAGCAGGA	0.552													17	47					0	0	1	0	0		T	152382699	T	T	152382699	2	4	89	1	0	0	0	0	0	0	0	1	10321	871	31	1		1	NEB	2	152382699	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1584	152382699	90816674	1093	54924											
NEB	4703	broad.mit.edu	37	chr2	152411448	152411448	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcatgaccgtacttacatcGatgttaagcttgccaactcg	10	11	8	12	4	0	1	0	1	0	0	2	2	0	1	2	0	5	4	2	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152411448G>A	uc010fnx.2	-	97	14513	c.14322C>T	c.(14320-14322)ATC>ATT	p.I4774I	NEB_uc002txr.2_Silent_p.I1197I	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	4774	Nebulin 130.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TACTTACATCGATGTTAAGCT	0.239													34	55					0	0	1	0	0		A	152411448	A	A	152411448	2	1	89	1	0	0	0	0	0	0	0	1	10321	1048	37	1		1	NEB	2	152411448	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	28749	152411448	90787925	1094	54925											
NEB	4703	broad.mit.edu	37	chr2	152432773	152432773	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatagacactgtcacaaaaGatattctgggcgtttttgac	12	12	9	8	2	2	3	1	1	1	2	2	4	2	3	0	1	0	1	0	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152432773G>T	uc010fnx.2	-	78	11888	c.11697C>A	c.(11695-11697)ATC>ATA	p.I3899I	NEB_uc002txr.2_Silent_p.I322I	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3899					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGTCACAAAAGATATTCTGGG	0.478													34	68					4.3181e-19	5.06354e-19	1	1	0		T	152432773	T	T	152432773	2	4	89	1	0	0	0	0	0	0	0	1	10321	932	33	5		5	NEB	2	152432773	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21325	152432773	90766600	1095	54926											
NEB	4703	broad.mit.edu	37	chr2	152466440	152466440	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaccaaagtctgacatttCttggccagcaagatgcttaa	12	11	9	9	0	2	3	0	2	2	1	2	3	2	3	2	1	2	2	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152466440C>A	uc010fnx.2	-	77	11675	c.11484G>T	c.(11482-11484)AAG>AAT	p.K3828N		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3828	Nebulin 105.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCTGACATTTCTTGGCCAGCA	0.418													45	69					2.35958e-20	2.78446e-20	1	1	0		A	152466440	A	A	152466440	3	1	89	1	0	0	0	0	1	0	0	0	10321	912	32	5	13881	5	NEB	2	152466440	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	33667	152466440	90732933	1096	54927											
NEB	4703	broad.mit.edu	37	chr2	152474792	152474792	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggattgaagactcaccttAttcatgtttaaagcattgtt	12	15	8	6	0	2	2	2	1	0	1	2	4	2	3	1	1	1	3	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152474792A>G	uc010fnx.2	-	70	10535	c.10344T>C	c.(10342-10344)AAT>AAC	p.N3448N		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3448	Nebulin 94.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GACTCACCTTATTCATGTTTA	0.358													56	116					0	0	1	0	0		G	152474792	G	G	152474792	2	3	89	1	0	0	0	0	0	0	0	1	10321	446	16	3		3	NEB	2	152474792	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	8352	152474792	90724581	1097	54928											
NEB	4703	broad.mit.edu	37	chr2	152476236	152476236	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactgctcgggcgccaatgTggtgacccaactgtttacga	8	10	12	11	3	0	1	0	1	0	0	1	2	0	1	2	2	4	3	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152476236T>C	uc010fnx.2	-	69	10063	c.9872A>G	c.(9871-9873)CAC>CGC	p.H3291R		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3291					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GGCGCCAATGTGGTGACCCAA	0.438													29	64					0	0	1	0	0		C	152476236	C	C	152476236	3	2	89	1	0	0	0	0	1	0	0	0	10321	1696	59	3	15525	3	NEB	2	152476236	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1444	152476236	90723137	1098	54929											
NEB	4703	broad.mit.edu	37	chr2	152507230	152507230	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtaccactcccaacatgTccactgggctggagaactta	11	8	8	14	0	0	1	0	0	0	1	2	2	2	1	4	2	3	2	4	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152507230T>C	uc010fnx.2	-	53	7276	c.7085A>G	c.(7084-7086)GAC>GGC	p.D2362G		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2362	Nebulin 63.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCCCAACATGTCCACTGGGCT	0.458													121	263					0	0	1	0	0		C	152507230	C	C	152507230	3	2	89	1	0	0	0	0	1	0	0	0	10321	1667	58	3	19121	3	NEB	2	152507230	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	30994	152507230	90692143	1099	54930											
NEB	4703	broad.mit.edu	37	chr2	152512918	152512918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactaatttgggatcatcctCgagactgcggaaaccaacca	13	8	9	11	2	1	1	1	0	0	1	3	5	2	3	3	2	3	0	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152512918C>T	uc010fnx.2	-	49	6435	c.6244G>A	c.(6244-6246)GAG>AAG	p.E2082K		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2082	Nebulin 55.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GGATCATCCTCGAGACTGCGG	0.393													54	95					0	0	1	0	0		T	152512918	T	T	152512918	3	4	89	1	0	0	0	0	1	0	0	0	10321	893	31	1	19978	1	NEB	2	152512918	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5688	152512918	90686455	1100	54931											
NEB	4703	broad.mit.edu	37	chr2	152521935	152521935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcttctcggggtgctggCgatacttcttctcactaaga	7	13	10	11	2	4	1	2	0	3	1	6	2	4	1	0	3	3	2	0	3	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152521935C>T	uc010fnx.2	-	42	5341	c.5150G>A	c.(5149-5151)CGC>CAC	p.R1717H		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1717	Nebulin 44.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GGGGTGCTGGCGATACTTCTT	0.488													15	25					0	0	1	0	0		T	152521935	T	T	152521935	3	4	89	1	0	0	0	0	1	0	0	0	10321	768	27	1	21100	1	NEB	2	152521935	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9017	152521935	90677438	1101	54932											
NEB	4703	broad.mit.edu	37	chr2	152548380	152548380	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggcagctaacttacatCtttacactggtccagcttct	9	13	7	12	0	3	0	1	0	2	0	4	0	4	0	1	2	5	3	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152548380C>A	uc010fnx.2	-	23	2400	c.2209G>T	c.(2209-2211)GAT>TAT	p.D737Y	NEB_uc010fny.1_Missense_Mutation_p.D291Y	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	737					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TAACTTACATCTTTACACTGG	0.353													7	5					0.0293803	0.0295462	1	1	0		A	152548380	A	A	152548380	3	1	89	1	0	0	0	0	1	0	0	0	10321	913	32	5	24117	5	NEB	2	152548380	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	26445	152548380	90650993	1102	54933											
NEB	4703	broad.mit.edu	37	chr2	152563476	152563476	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacattataatctgctttTcctttattcttttcatagtc	9	20	3	9	0	3	0	1	0	2	0	5	0	4	0	1	0	2	2	1	0	4	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152563476T>G	uc010fnx.2	-	13	1262	c.1071A>C	c.(1069-1071)GGA>GGC	p.G357G	NEB_uc010fny.1_5'UTR	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	357					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		AATCTGCTTTTCCTTTATTCT	0.378													5	9					0	0	1	0	0		G	152563476	G	G	152563476	2	3	89	1	0	0	0	0	0	0	0	1	10321	1770	62	5		5	NEB	2	152563476	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15096	152563476	90635897	1103	54934											
CACNB4	785	broad.mit.edu	37	chr2	152709980	152709980	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actggggggcattgtgcaagTttatcagctgccaccagttg	8	11	13	9	0	1	0	1	0	0	0	1	0	1	0	2	3	3	5	2	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:152709980T>C	uc002tya.2	-	12	1166	c.1098A>G	c.(1096-1098)AAA>AAG	p.K366K	CACNB4_uc002txy.2_Silent_p.K332K|CACNB4_uc002txz.2_Silent_p.K348K|CACNB4_uc010fnz.2_Silent_p.K366K	NM_000726	NP_000717	O00305	CACB4_HUMAN	calcium channel, voltage-dependent, beta 4	366					axon guidance|membrane depolarization|synaptic transmission	cytosol|internal side of plasma membrane|plasma membrane|synapse|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.156)	Verapamil(DB00661)	ATTGTGCAAGTTTATCAGCTG	0.368													5	9					0	0	1	0	0		C	152709980	C	C	152709980	2	2	89	1	0	0	0	0	0	0	0	1	2558	1722	60	3		3	CACNB4	2	152709980	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	146504	152709980	90489393	1104	54935											
FMNL2	114793	broad.mit.edu	37	chr2	153475668	153475668	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctcatcagacacacctgaAacaggtaagaagccttggca	14	6	8	13	0	2	3	2	1	0	2	2	3	2	3	3	2	2	2	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:153475668A>C	uc002tye.2	+	14	1990	c.1623A>C	c.(1621-1623)GAA>GAC	p.E541D	FMNL2_uc010fob.2_5'Flank|FMNL2_uc002tyf.2_5'Flank	NM_052905	NP_443137	Q96PY5	FMNL2_HUMAN	formin-like 2	541	Pro-rich.				actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|ovary(1)	3						ACACACCTGAAACAGGTAAGA	0.413													11	39					0	0	1	0	0		C	153475668	C	C	153475668	3	2	89	1	0	0	0	0	1	0	0	0	5966	11	1	5	1677	5	FMNL2	2	153475668	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	765688	153475668	89723705	1105	54936											
FMNL2	114793	broad.mit.edu	37	chr2	153486227	153486227	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcgtcccaaaaactcaagAaaattctggaggcaagtgca	16	7	9	9	1	2	1	1	0	1	1	4	2	3	2	1	2	2	2	1	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:153486227A>G	uc002tye.2	+	19	2825	c.2458A>G	c.(2458-2460)AAA>GAA	p.K820E	FMNL2_uc010fob.2_Missense_Mutation_p.K276E|FMNL2_uc002tyf.2_Missense_Mutation_p.K269E	NM_052905	NP_443137	Q96PY5	FMNL2_HUMAN	formin-like 2	820	FH2.				actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|ovary(1)	3						AAAACTCAAGAAAATTCTGGA	0.413													9	9					0	0	1	0	0		G	153486227	G	G	153486227	3	3	89	1	0	0	0	0	1	0	0	0	5966	247	9	3	2532	3	FMNL2	2	153486227	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	10559	153486227	89713146	1106	54937											
FMNL2	114793	broad.mit.edu	37	chr2	153488588	153488588	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatatccaatgtggtgaaaGaaaaatatcaccaagtgtcc	17	10	7	7	0	1	2	1	1	0	1	3	2	3	2	3	1	0	0	3	1	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:153488588G>T	uc002tye.2	+	21	2984	c.2617G>T	c.(2617-2619)GAA>TAA	p.E873*	FMNL2_uc010fob.2_Nonsense_Mutation_p.E329*|FMNL2_uc002tyf.2_Nonsense_Mutation_p.E322*	NM_052905	NP_443137	Q96PY5	FMNL2_HUMAN	formin-like 2	873	FH2.				actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|ovary(1)	3						TGTGGTGAAAGAAAAATATCA	0.388													34	38					4.34311e-12	4.79046e-12	1	1	0		T	153488588	T	T	153488588	4	4	89	1	0	0	0	0	0	1	0	0	5966	943	33	5	2699	5	FMNL2	2	153488588	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2361	153488588	89710785	1107	54938											
PRPF40A	55660	broad.mit.edu	37	chr2	153519137	153519137	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagcacatgcataaaatCtttaaatattcgttttcttt	13	17	3	8	1	3	0	1	0	2	0	4	0	3	0	0	0	2	3	0	0	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:153519137C>A	uc002tyh.3	-	21	2324	c.2302G>T	c.(2302-2304)GAT>TAT	p.D768Y	PRPF40A_uc002tyg.3_Missense_Mutation_p.D224Y|PRPF40A_uc010zcd.1_Missense_Mutation_p.D719Y	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	795	FF 5.				mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						TGCATAAAATCTTTAAATATT	0.269													6	21					2.7689e-08	2.93819e-08	1	1	0		A	153519137	A	A	153519137	3	1	89	1	0	0	0	0	1	0	0	0	12593	913	32	5	514	5	PRPF40A	2	153519137	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30549	153519137	89680236	1108	54939											
GALNT13	114805	broad.mit.edu	37	chr2	155158056	155158056	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaacaggagactggcagaAgtttggatggatgaatttaa	16	9	12	4	0	0	3	0	1	0	2	0	6	0	5	0	4	2	2	0	4	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:155158056A>C	uc002tyr.3	+	9	1677	c.1110A>C	c.(1108-1110)GAA>GAC	p.E370D	GALNT13_uc002tyt.3_Missense_Mutation_p.E370D|GALNT13_uc010foc.1_Missense_Mutation_p.E189D|GALNT13_uc010fod.2_Missense_Mutation_p.E123D	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	370	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						GACTGGCAGAAGTTTGGATGG	0.393													56	121					0	0	1	0	0		C	155158056	C	C	155158056	3	2	89	1	0	0	0	0	1	0	0	0	6226	69	3	5	1136	5	GALNT13	2	155158056	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1638919	155158056	88041317	1109	54940											
KCNJ3	3760	broad.mit.edu	37	chr2	155555618	155555618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatcgcctacactcggggcGacctgaacaaagcccacgtc	10	6	10	15	4	0	2	0	2	0	0	3	3	0	2	3	2	3	0	3	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:155555618G>A	uc002tyv.1	+	1	526	c.331G>A	c.(331-333)GAC>AAC	p.D111N	KCNJ3_uc010zce.1_Missense_Mutation_p.D111N	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	111	Extracellular (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	CACTCGGGGCGACCTGAACAA	0.557													23	50					0	0	1	0	0		A	155555618	A	A	155555618	3	1	89	1	0	0	0	0	1	0	0	0	8068	1058	37	1	333	1	KCNJ3	2	155555618	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	397562	155555618	87643755	1110	54941											
GPD2	2820	broad.mit.edu	37	chr2	157427707	157427707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgatttcacgtcgtactcGcctggcctttctaaatgtcc	7	15	7	12	3	2	1	1	1	1	0	5	1	3	1	3	1	1	1	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:157427707G>A	uc002tzf.3	+	13	2030	c.1670G>A	c.(1669-1671)CGC>CAC	p.R557H	GPD2_uc010zch.1_Missense_Mutation_p.R330H|GPD2_uc002tzd.3_Missense_Mutation_p.R557H|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	557					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						CGTCGTACTCGCCTGGCCTTT	0.433													53	88					0	0	1	0	0		A	157427707	A	A	157427707	3	1	89	1	0	0	0	0	1	0	0	0	6621	1087	38	1	1716	1	GPD2	2	157427707	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1872089	157427707	85771666	1111	54942											
GALNT5	11227	broad.mit.edu	37	chr2	158115201	158115201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agccccggaagagtcatagtCccagcagtgacacatcaaaa	15	5	9	12	1	2	2	2	1	0	1	3	3	3	3	3	1	2	1	3	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:158115201C>T	uc002tzg.2	+	1	862	c.607C>T	c.(607-609)CCC>TCC	p.P203S	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	203	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						GAGTCATAGTCCCAGCAGTGA	0.448													16	50					0	0	1	0	0		T	158115201	T	T	158115201	3	4	89	1	0	0	0	0	1	0	0	0	6231	855	30	4	609	4	GALNT5	2	158115201	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	687494	158115201	85084172	1112	54943											
GALNT5	11227	broad.mit.edu	37	chr2	158142577	158142577	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcccagtttccaaaagttCggattcttcgcctcaaagag	10	12	8	11	2	2	1	1	0	1	1	6	2	4	2	3	1	0	2	3	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:158142577C>T	uc002tzg.2	+	3	1927	c.1672C>T	c.(1672-1674)CGG>TGG	p.R558W	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	558	Catalytic subdomain A.|Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						TCCAAAAGTTCGGATTCTTCG	0.378													19	32					0	0	1	0	0		T	158142577	T	T	158142577	3	4	89	1	0	0	0	0	1	0	0	0	6231	875	31	1	1682	1	GALNT5	2	158142577	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27376	158142577	85056796	1113	54944											
PKP4	8502	broad.mit.edu	37	chr2	159481805	159481805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggtcgtcgtcccccaaacGctcagggatgaccgccgtac	7	6	13	15	5	1	1	1	1	0	0	4	2	2	2	4	3	2	2	4	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:159481805G>A	uc002tzv.2	+	7	1279	c.1019G>A	c.(1018-1020)CGC>CAC	p.R340H	PKP4_uc002tzt.1_Missense_Mutation_p.R192H|PKP4_uc002tzu.2_Missense_Mutation_p.R340H|PKP4_uc002tzw.2_Missense_Mutation_p.R340H|PKP4_uc002tzx.2_5'UTR|PKP4_uc002tzy.1_5'UTR|PKP4_uc002tzz.1_Missense_Mutation_p.R338H|PKP4_uc002uaa.2_Missense_Mutation_p.R192H	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	340					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						TCCCCCAAACGCTCAGGGATG	0.577										HNSCC(62;0.18)			30	62					0	0	1	0	0		A	159481805	A	A	159481805	3	1	89	1	0	0	0	0	1	0	0	0	12006	1087	38	1	1041	1	PKP4	2	159481805	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1339228	159481805	83717568	1114	54945											
TANC1	85461	broad.mit.edu	37	chr2	160019918	160019918	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaccgcagggcagataactgCtccccagtggcagaagagga	12	4	14	11	1	0	3	0	0	0	3	1	5	1	4	3	3	2	4	3	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:160019918C>T	uc002uag.2	+	8	1081	c.807C>T	c.(805-807)TGC>TGT	p.C269C	TANC1_uc010fol.1_Silent_p.C163C|TANC1_uc010zcm.1_Silent_p.C268C|TANC1_uc010fom.1_Intron	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	269						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CAGATAACTGCTCCCCAGTGG	0.537													27	70					0	0	1	0	0		T	160019918	T	T	160019918	2	4	89	1	0	0	0	0	0	0	0	1	15569	805	28	2		2	TANC1	2	160019918	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	538113	160019918	83179455	1115	54946											
BAZ2B	29994	broad.mit.edu	37	chr2	160193585	160193585	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggagcaatatcctcttcAattctgcattgaaatataga	13	13	6	9	0	3	2	1	1	2	1	4	3	4	3	2	1	2	2	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:160193585A>C	uc002uao.2	-	33	6016	c.5664T>G	c.(5662-5664)ATT>ATG	p.I1888M	BAZ2B_uc002uap.2_Missense_Mutation_p.I1852M	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	1888					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TATCCTCTTCAATTCTGCATT	0.413													43	99					0	0	1	0	0		C	160193585	C	C	160193585	3	2	89	1	0	0	0	0	1	0	0	0	1333	126	5	5	862	5	BAZ2B	2	160193585	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	173667	160193585	83005788	1116	54947											
BAZ2B	29994	broad.mit.edu	37	chr2	160303396	160303396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agcttgtacttttagtttgtCccatggaacttgaagcagta	10	15	9	7	0	0	1	0	1	0	0	1	2	1	2	1	1	4	5	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:160303396C>T	uc002uao.2	-	6	945	c.593G>A	c.(592-594)GGA>GAA	p.G198E	BAZ2B_uc002uap.2_Missense_Mutation_p.G196E|BAZ2B_uc002uas.1_Missense_Mutation_p.G135E|BAZ2B_uc002uau.1_Missense_Mutation_p.G196E|BAZ2B_uc002uaq.1_Missense_Mutation_p.G126E|BAZ2B_uc002uat.3_Missense_Mutation_p.G135E|BAZ2B_uc010fop.1_Missense_Mutation_p.G196E	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	198	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TTTAGTTTGTCCCATGGAACT	0.363													38	91					0	0	1	0	0		T	160303396	T	T	160303396	3	4	89	1	0	0	0	0	1	0	0	0	1333	855	30	4	6041	4	BAZ2B	2	160303396	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	109811	160303396	82895977	1117	54948											
BAZ2B	29994	broad.mit.edu	37	chr2	160304759	160304759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaaatgtggatacctttttCgggaccatttcgattacttt	9	17	8	7	2	0	0	0	0	0	0	2	3	0	2	2	2	2	1	2	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:160304759C>T	uc002uao.2	-	5	848	c.496G>A	c.(496-498)GAA>AAA	p.E166K	BAZ2B_uc002uap.2_Missense_Mutation_p.E164K|BAZ2B_uc002uas.1_Missense_Mutation_p.E103K|BAZ2B_uc002uau.1_Missense_Mutation_p.E164K|BAZ2B_uc002uaq.1_Missense_Mutation_p.E94K|BAZ2B_uc002uat.3_Missense_Mutation_p.E103K|BAZ2B_uc010fop.1_Missense_Mutation_p.E164K	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	166	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						ATACCTTTTTCGGGACCATTT	0.333													29	64					0	0	1	0	0		T	160304759	T	T	160304759	3	4	89	1	0	0	0	0	1	0	0	0	1333	893	31	1	6142	1	BAZ2B	2	160304759	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1363	160304759	82894614	1118	54949											
LY75	4065	broad.mit.edu	37	chr2	160731976	160731976	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttataacaagaaagacttgcGgggaaactctgccagccttc	13	9	9	10	1	1	2	0	0	1	2	2	3	1	3	2	2	5	0	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:160731976G>A	uc002ubc.3	-	12	2022	c.1953C>T	c.(1951-1953)CCC>CCT	p.P651P	LY75_uc002ubb.3_Silent_p.P651P|LY75_uc010fos.2_Silent_p.P651P|LY75_uc010fot.1_Silent_p.P651P	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	651	Extracellular (Potential).				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		AAAGACTTGCGGGGAAACTCT	0.433													32	82					0	0	1	0	0		A	160731976	A	A	160731976	2	1	89	1	0	0	0	0	0	0	0	1	9117	1103	39	1		1	LY75	2	160731976	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	427217	160731976	82467397	1119	54950											
ITGB6	3694	broad.mit.edu	37	chr2	160994243	160994243	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacttctttctgacagtcGcagttgcattctgggctgac	6	14	9	12	1	3	2	0	2	3	0	5	2	4	2	1	1	1	4	1	1	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:160994243G>A	uc002ubh.2	-	10	1378	c.1362C>T	c.(1360-1362)TGC>TGT	p.C454C	ITGB6_uc010fou.2_Silent_p.C454C|ITGB6_uc010zcq.1_Silent_p.C412C|ITGB6_uc010fov.1_Silent_p.C454C	NM_000888	NP_000879	P18564	ITB6_HUMAN	integrin, beta 6 precursor	454	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|multicellular organismal development	integrin complex	receptor activity			ovary(1)|lung(1)|skin(1)	3						TCTGACAGTCGCAGTTGCATT	0.547													27	46					0	0	1	0	0		A	160994243	A	A	160994243	2	1	89	1	0	0	0	0	0	0	0	1	7915	1079	38	1		1	ITGB6	2	160994243	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	262267	160994243	82205130	1120	54951											
ITGB6	3694	broad.mit.edu	37	chr2	161052788	161052788	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatgtcagaactatttttCtgtctgcctacactgagagg	11	13	8	9	0	3	2	1	1	2	2	3	3	3	2	1	1	3	0	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:161052788C>A	uc002ubh.2	-	3	301	c.285G>T	c.(283-285)CAG>CAT	p.Q95H	ITGB6_uc010fow.1_RNA|ITGB6_uc010fou.2_Missense_Mutation_p.Q95H|ITGB6_uc010zcq.1_Missense_Mutation_p.Q53H|ITGB6_uc010fov.1_Missense_Mutation_p.Q95H	NM_000888	NP_000879	P18564	ITB6_HUMAN	integrin, beta 6 precursor	95	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|multicellular organismal development	integrin complex	receptor activity			ovary(1)|lung(1)|skin(1)	3						AACTATTTTTCTGTCTGCCTA	0.378													73	129					6.88731e-43	8.54603e-43	1	1	0		A	161052788	A	A	161052788	3	1	89	1	0	0	0	0	1	0	0	0	7915	912	32	5	2133	5	ITGB6	2	161052788	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	58545	161052788	82146585	1121	54952											
SLC4A10	57282	broad.mit.edu	37	chr2	162762303	162762303	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttccctgatttgcatcAttttcatttatgaggccctg	6	18	7	10	0	2	2	2	2	0	0	3	2	3	2	2	1	2	2	2	1	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:162762303A>G	uc002ubx.3	+	15	2087	c.1903A>G	c.(1903-1905)ATT>GTT	p.I635V	SLC4A10_uc002uby.3_Missense_Mutation_p.I605V|SLC4A10_uc010zcs.1_Missense_Mutation_p.I616V	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	635	Helical; (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						GATTTGCATCATTTTCATTTA	0.413													27	48					0	0	1	0	0		G	162762303	G	G	162762303	3	3	89	1	0	0	0	0	1	0	0	0	14676	217	8	3	2046	3	SLC4A10	2	162762303	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1709515	162762303	80437070	1122	54953											
SLC4A10	57282	broad.mit.edu	37	chr2	162804171	162804171	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggtctgtgatcctgttCttttccacagttactctgtc	4	20	7	10	0	3	1	0	1	3	0	6	1	5	1	2	1	1	2	2	1	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:162804171C>A	uc002ubx.3	+	17	2383	c.2199C>A	c.(2197-2199)TTC>TTA	p.F733L	SLC4A10_uc002uby.3_Missense_Mutation_p.F703L|SLC4A10_uc010zcs.1_Missense_Mutation_p.F714L	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	733	Helical; (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						TGATCCTGTTCTTTTCCACAG	0.423													45	74					6.68952e-21	7.91001e-21	1	1	0		A	162804171	A	A	162804171	3	1	89	1	0	0	0	0	1	0	0	0	14676	912	32	5	2350	5	SLC4A10	2	162804171	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	41868	162804171	80395202	1123	54954											
SLC4A10	57282	broad.mit.edu	37	chr2	162805661	162805661	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttttcattatttttaggttCgatccatagtgagtgacttt	8	20	8	5	1	1	2	1	2	0	0	3	3	2	2	1	1	0	2	1	1	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:162805661C>T	uc002ubx.3	+	18	2453	c.2269C>T	c.(2269-2271)CGA>TGA	p.R757*	SLC4A10_uc002uby.3_Nonsense_Mutation_p.R727*|SLC4A10_uc010zcs.1_Nonsense_Mutation_p.R738*	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	757	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						TTTTTAGGTTCGATCCATAGT	0.338													30	72					0	0	1	0	0		T	162805661	T	T	162805661	4	4	89	1	0	0	0	0	0	1	0	0	14676	876	31	1	2424	1	SLC4A10	2	162805661	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1490	162805661	80393712	1124	54955											
GCG	2641	broad.mit.edu	37	chr2	163003923	163003923	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcacgcctggagtccagaTacttgctgtagtcactggtg	7	10	14	10	1	1	1	1	0	0	1	2	2	2	2	2	3	2	3	2	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:163003923T>C	uc002ucc.2	-	3	293	c.194A>G	c.(193-195)TAT>TGT	p.Y65C		NM_002054	NP_002045	P01275	GLUC_HUMAN	glucagon preproprotein	65					cell proliferation|cellular response to glucagon stimulus|energy reserve metabolic process|feeding behavior|regulation of insulin secretion	plasma membrane|soluble fraction	hormone activity				0					Exenatide(DB01276)|Phentolamine(DB00692)	GGAGTCCAGATACTTGCTGTA	0.483													93	168					0	0	1	0	0		C	163003923	C	C	163003923	3	2	89	1	0	0	0	0	1	0	0	0	6305	1406	49	3	364	3	GCG	2	163003923	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	198262	163003923	80195450	1125	54956											
FAP	2191	broad.mit.edu	37	chr2	163070503	163070503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcacatatagacaggaccGaaacattctggactcttttt	13	12	7	9	1	3	1	1	0	2	1	3	4	3	3	1	2	1	0	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:163070503G>A	uc002ucd.2	-	11	1155	c.947C>T	c.(946-948)TCG>TTG	p.S316L	FAP_uc010zct.1_Missense_Mutation_p.S291L|FAP_uc010fpd.2_Intron|FAP_uc010fpe.1_Missense_Mutation_p.S283L	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	316	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						AGACAGGACCGAAACATTCTG	0.398													30	187					0	0	1	0	0		A	163070503	A	A	163070503	3	1	89	1	0	0	0	0	1	0	0	0	5687	1059	37	1	1399	1	FAP	2	163070503	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	66580	163070503	80128870	1126	54957											
IFIH1	64135	broad.mit.edu	37	chr2	163134117	163134117	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtatacgcatctatcattcGaattgtgtcattaatttgta	12	17	6	6	2	3	0	2	0	1	0	4	1	3	0	0	0	1	3	0	0	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:163134117G>A	uc002uce.2	-	10	2074	c.1852C>T	c.(1852-1854)CGA>TGA	p.R618*		NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	618					detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1						TCTATCATTCGAATTGTGTCA	0.299													31	36					0	0	1	0	0		A	163134117	A	A	163134117	4	1	89	1	0	0	0	0	0	1	0	0	7536	1066	37	1	1253	1	IFIH1	2	163134117	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	63614	163134117	80065256	1127	54958											
IFIH1	64135	broad.mit.edu	37	chr2	163174673	163174673	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcccggaggtggcgactgTcctctgaatctgctccttca	5	12	11	13	2	3	1	1	1	2	0	6	3	6	2	3	3	1	2	3	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:163174673T>C	uc002uce.2	-	1	367	c.145A>G	c.(145-147)ACA>GCA	p.T49A	IFIH1_uc002ucf.2_Missense_Mutation_p.T49A	NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	49	CARD 1.				detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1						GTGGCGACTGTCCTCTGAATC	0.577													39	38					0	0	1	0	0		C	163174673	C	C	163174673	3	2	89	1	0	0	0	0	1	0	0	0	7536	1667	58	3	2996	3	IFIH1	2	163174673	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	40556	163174673	80024700	1128	54959											
KCNH7	90134	broad.mit.edu	37	chr2	163241450	163241450	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggatcatttgtactgttttCtttgccaaaatatatcaaag	13	16	6	6	0	3	0	2	0	1	0	3	1	3	1	1	1	2	2	1	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:163241450C>T	uc002uch.1	-	13	2923	c.2711_splice	c.e13-1	p.E904_splice		NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,						regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	GTACTGTTTTCTTTGCCAAAA	0.318													25	68					0	0	1	0	0		T	163241450	T	T	163241450	5	4	89	1	0	0	0	0	0	0	1	0	8053	927	32	4	896	4	KCNH7	2	163241450	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	66777	163241450	79957923	1129	54960											
GRB14	2888	broad.mit.edu	37	chr2	165378577	165378577	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacttctttccctgttctttCgcatgtaagaaaccatgaat	10	15	6	10	1	2	2	0	1	2	1	4	3	3	2	2	0	1	3	2	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:165378577C>T	uc002ucl.2	-	6	1270	c.729G>A	c.(727-729)GCG>GCA	p.A243A	GRB14_uc010zcv.1_Silent_p.A156A|GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	243	PH.				blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						CCTGTTCTTTCGCATGTAAGA	0.279													30	75					0	0	1	0	0		T	165378577	T	T	165378577	2	4	89	1	0	0	0	0	0	0	0	1	6773	871	31	1		1	GRB14	2	165378577	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2137127	165378577	77820796	1130	54961											
GRB14	2888	broad.mit.edu	37	chr2	165477817	165477817	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcttgcagggaagtggtCattgtcgccggccggggggc	5	8	17	11	3	2	0	1	0	1	0	3	1	2	1	3	6	1	1	3	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:165477817C>A	uc002ucl.2	-	1	544	c.3G>T	c.(1-3)ATG>ATT	p.M1I	GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	1					blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						GGGAAGTGGTCATTGTCGCCG	0.751													6	14					0.248553	0.248856	1	1	0		A	165477817	A	A	165477817	3	1	89	1	0	0	0	0	1	0	0	0	6773	826	29	5	1675	5	GRB14	2	165477817	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	99240	165477817	77721556	1131	54962											
COBLL1	22837	broad.mit.edu	37	chr2	165552047	165552047	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcagataaattatgatCttggtgtttcccatcaaaac	13	13	8	7	0	3	2	2	1	1	1	4	3	4	3	1	2	1	1	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:165552047C>A	uc010zcw.1	-	15	2294	c.2170G>T	c.(2170-2172)GAT>TAT	p.D724Y	COBLL1_uc002ucp.2_Missense_Mutation_p.D657Y|COBLL1_uc002ucq.2_Missense_Mutation_p.D619Y|COBLL1_uc010zcx.1_Missense_Mutation_p.D665Y|COBLL1_uc002ucn.2_Missense_Mutation_p.D85Y|COBLL1_uc002uco.2_Missense_Mutation_p.D388Y	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	695										ovary(2)|pancreas(1)	3						AAATTATGATCTTGGTGTTTC	0.358													32	218					2.85442e-18	3.33381e-18	1	1	0		A	165552047	A	A	165552047	3	1	89	1	0	0	0	0	1	0	0	0	3657	913	32	5	1543	5	COBLL1	2	165552047	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	74230	165552047	77647326	1132	54963											
COBLL1	22837	broad.mit.edu	37	chr2	165552116	165552116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatcttttgtcttttctgCactgggttgattcagttttt	4	22	8	7	0	4	1	1	1	3	0	4	1	4	1	0	1	2	4	0	1	0	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:165552116C>T	uc010zcw.1	-	15	2225	c.2101G>A	c.(2101-2103)GCA>ACA	p.A701T	COBLL1_uc002ucp.2_Missense_Mutation_p.A634T|COBLL1_uc002ucq.2_Missense_Mutation_p.A596T|COBLL1_uc010zcx.1_Missense_Mutation_p.A642T|COBLL1_uc002ucn.2_Missense_Mutation_p.A62T|COBLL1_uc002uco.2_Missense_Mutation_p.A365T	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	672										ovary(2)|pancreas(1)	3						GTCTTTTCTGCACTGGGTTGA	0.383													104	244					0	0	1	0	0		T	165552116	T	T	165552116	3	4	89	1	0	0	0	0	1	0	0	0	3657	710	25	2	1612	2	COBLL1	2	165552116	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	69	165552116	77647257	1133	54964											
COBLL1	22837	broad.mit.edu	37	chr2	165584506	165584506	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatccatcgcatataattCtcttagtcccaggtcattaa	12	13	5	11	1	2	0	1	0	1	0	6	1	4	0	2	1	0	1	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:165584506C>A	uc010zcw.1	-	6	917	c.793G>T	c.(793-795)GAA>TAA	p.E265*	COBLL1_uc002ucp.2_Nonsense_Mutation_p.E212*|COBLL1_uc002ucq.2_Nonsense_Mutation_p.E212*|COBLL1_uc010zcx.1_Nonsense_Mutation_p.E258*|COBLL1_uc002ucs.1_RNA|COBLL1_uc002uco.2_5'Flank	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	250										ovary(2)|pancreas(1)	3						GCATATAATTCTCTTAGTCCC	0.343													33	62					1.30293e-26	1.57754e-26	1	1	0		A	165584506	A	A	165584506	4	1	89	1	0	0	0	0	0	1	0	0	3657	922	32	5	2910	5	COBLL1	2	165584506	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	32390	165584506	77614867	1134	54965											
SLC38A11	151258	broad.mit.edu	37	chr2	165772419	165772419	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaaatactcaccaaaagAcataaccccgaccgcttgaa	18	5	4	14	2	1	2	1	1	0	1	1	3	1	2	5	0	3	1	5	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:165772419A>G	uc002ucv.1	-	9	1051	c.514T>C	c.(514-516)TCT>CCT	p.S172P	SLC38A11_uc002ucu.1_Missense_Mutation_p.S150P|SLC38A11_uc002ucw.1_Missense_Mutation_p.S172P	NM_173512	NP_775783	Q08AI6	S38AB_HUMAN	solute carrier family 38, member 11	172	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane				ovary(1)	1						TCACCAAAAGACATAACCCCG	0.388													107	227					0	0	1	0	0		G	165772419	G	G	165772419	3	3	89	1	0	0	0	0	1	0	0	0	14628	275	10	3	726	3	SLC38A11	2	165772419	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	187913	165772419	77426954	1135	54966											
SCN3A	6328	broad.mit.edu	37	chr2	165947775	165947775	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgatcagacgtaggattcGgccaatcctggcaagacgga	11	9	12	9	3	1	3	1	1	0	2	3	5	2	5	2	4	0	2	2	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:165947775G>A	uc002ucx.2	-	28	5380	c.4888C>T	c.(4888-4890)CGA>TGA	p.R1630*	SCN3A_uc010zcy.1_Nonsense_Mutation_p.R113*|SCN3A_uc002ucy.2_Nonsense_Mutation_p.R1581*|SCN3A_uc002ucz.2_Nonsense_Mutation_p.R1581*	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1630	Helical; Voltage-sensor; Name=S4 of repeat IV; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	CGTAGGATTCGGCCAATCCTG	0.478													50	102					0	0	1	0	0		A	165947775	A	A	165947775	4	1	89	1	0	0	0	0	0	1	0	0	13943	1124	39	1	1118	1	SCN3A	2	165947775	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	175356	165947775	77251598	1136	54967											
SCN3A	6328	broad.mit.edu	37	chr2	165996041	165996041	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggctctttgccttccagaGgaatcctccagcatctccat	8	11	7	15	1	2	1	0	0	2	1	6	2	5	2	5	2	2	2	5	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:165996041G>T	uc002ucx.2	-	14	2589	c.2097C>A	c.(2095-2097)TCC>TCA	p.S699S	SCN3A_uc002ucy.2_Silent_p.S650S|SCN3A_uc002ucz.2_Silent_p.S650S|SCN3A_uc002uda.1_Silent_p.S519S|SCN3A_uc002udb.1_Silent_p.S519S	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	699						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	GCCTTCCAGAGGAATCCTCCA	0.473													30	74					3.57733e-08	3.78477e-08	1	1	0		T	165996041	T	T	165996041	2	4	89	1	0	0	0	0	0	0	0	1	13943	987	35	5		5	SCN3A	2	165996041	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	48266	165996041	77203332	1137	54968											
SCN3A	6328	broad.mit.edu	37	chr2	166021012	166021012	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagtgactcaaaggtataGattccagtgaatgtgtacct	14	12	9	6	0	1	3	1	2	0	1	2	3	2	3	2	1	1	2	2	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:166021012G>T	uc002ucx.2	-	6	984	c.492C>A	c.(490-492)ATC>ATA	p.I164I	SCN3A_uc002ucy.2_Silent_p.I164I|SCN3A_uc002ucz.2_Silent_p.I164I|SCN3A_uc002uda.1_Silent_p.I33I|SCN3A_uc002udb.1_Silent_p.I33I	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	164	Helical; Name=S2 of repeat I; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	CAAAGGTATAGATTCCAGTGA	0.348													14	42					4.7546e-09	5.08881e-09	1	1	0		T	166021012	T	T	166021012	2	4	89	1	0	0	0	0	0	0	0	1	13943	932	33	5		5	SCN3A	2	166021012	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24971	166021012	77178361	1138	54969											
SCN2A	6326	broad.mit.edu	37	chr2	166152574	166152574	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcagtgcccctggaggatCtggacccctactatatcaat	9	11	9	12	0	3	0	2	0	1	0	3	3	3	3	4	3	2	0	4	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:166152574C>A	uc002udc.2	+	2	531	c.241C>A	c.(241-243)CTG>ATG	p.L81M	SCN2A_uc002udd.2_Missense_Mutation_p.L81M|SCN2A_uc002ude.2_Missense_Mutation_p.L81M	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	81					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	CCTGGAGGATCTGGACCCCTA	0.448													16	57					2.35188e-11	2.57851e-11	1	1	0		A	166152574	A	A	166152574	3	1	89	1	0	0	0	0	1	0	0	0	13941	912	32	5	243	5	SCN2A	2	166152574	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	131562	166152574	77046799	1139	54970											
SCN2A	6326	broad.mit.edu	37	chr2	166198827	166198827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttcacagggatcttcacaGcagaaatgtttctcaagata	13	12	7	9	0	5	2	3	0	3	2	6	3	5	3	0	1	1	2	0	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:166198827G>A	uc002udc.2	+	15	2700	c.2410G>A	c.(2410-2412)GCA>ACA	p.A804T	SCN2A_uc002udd.2_Missense_Mutation_p.A804T|SCN2A_uc002ude.2_Missense_Mutation_p.A804T	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	804	II.|Helical; Name=S2 of repeat II; (Potential).				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	GATCTTCACAGCAGAAATGTT	0.333													36	48					0	0	1	0	0		A	166198827	A	A	166198827	3	1	89	1	0	0	0	0	1	0	0	0	13941	971	34	2	2560	2	SCN2A	2	166198827	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	46253	166198827	77000546	1140	54971											
SCN2A	6326	broad.mit.edu	37	chr2	166223836	166223836	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atagtggagcacaattggttCgaaaccttcattgtcttcat	11	14	8	8	1	3	0	2	0	1	0	4	2	3	1	1	2	2	2	1	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:166223836C>T	uc002udc.2	+	19	3920	c.3630C>T	c.(3628-3630)TTC>TTT	p.F1210F	SCN2A_uc002udd.2_Silent_p.F1210F|SCN2A_uc002ude.2_Silent_p.F1210F	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1210	III.|Helical; Name=S1 of repeat III; (Potential).				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ACAATTGGTTCGAAACCTTCA	0.433													20	50					0	0	1	0	0		T	166223836	T	T	166223836	2	4	89	1	0	0	0	0	0	0	0	1	13941	883	31	1		1	SCN2A	2	166223836	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	25009	166223836	76975537	1141	54972											
SCN2A	6326	broad.mit.edu	37	chr2	166245742	166245742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagaagtttgatcccgatgCgacccagtttatagagtttg	10	12	12	7	2	0	3	0	1	0	2	1	6	1	3	2	1	1	3	2	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:166245742C>T	uc002udc.2	+	27	5716	c.5426C>T	c.(5425-5427)GCG>GTG	p.A1809V	SCN2A_uc002udd.2_Missense_Mutation_p.A1809V|SCN2A_uc002ude.2_Missense_Mutation_p.A1809V	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1809	IV.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	GATCCCGATGCGACCCAGTTT	0.458													57	115					0	0	1	0	0		T	166245742	T	T	166245742	3	4	89	1	0	0	0	0	1	0	0	0	13941	768	27	1	5624	1	SCN2A	2	166245742	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	21906	166245742	76953631	1142	54973											
CSRNP3	80034	broad.mit.edu	37	chr2	166535407	166535407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gataagtgctcacagtagttCtatgggccctgtcgctcact	8	12	10	11	1	3	0	2	0	1	0	4	1	3	0	1	1	1	4	1	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:166535407C>T	uc002udf.2	+	7	1278	c.902C>T	c.(901-903)TCT>TTT	p.S301F	CSRNP3_uc002udg.2_Missense_Mutation_p.S301F	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	301					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						CACAGTAGTTCTATGGGCCCT	0.488													8	79					0	0	1	0	0		T	166535407	T	T	166535407	3	4	89	1	0	0	0	0	1	0	0	0	3968	913	32	4	916	4	CSRNP3	2	166535407	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	289665	166535407	76663966	1143	54974											
CSRNP3	80034	broad.mit.edu	37	chr2	166535733	166535733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtccctcttccttcagttCtttgttattctgatggcacc	4	19	6	12	0	4	1	1	1	3	0	6	1	6	1	3	1	0	3	3	1	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:166535733C>T	uc002udf.2	+	7	1604	c.1228C>T	c.(1228-1230)CTT>TTT	p.L410F	CSRNP3_uc002udg.2_Missense_Mutation_p.L410F	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	410					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						TCCTTCAGTTCTTTGTTATTC	0.398													42	89					0	0	1	0	0		T	166535733	T	T	166535733	3	4	89	1	0	0	0	0	1	0	0	0	3968	913	32	4	1242	4	CSRNP3	2	166535733	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	326	166535733	76663640	1144	54975											
TTC21B	79809	broad.mit.edu	37	chr2	166767940	166767940	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaaagataattcttttgTccagttttcagagcagcttc	11	15	7	8	0	2	2	1	0	1	2	4	2	3	2	1	0	3	4	1	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:166767940T>C	uc002udk.2	-	18	2491	c.2358A>G	c.(2356-2358)GGA>GGG	p.G786G		NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	786	TPR 10.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						AATTCTTTTGTCCAGTTTTCA	0.373													28	66					0	0	1	0	0		C	166767940	C	C	166767940	2	2	89	1	0	0	0	0	0	0	0	1	16714	1654	58	3		3	TTC21B	2	166767940	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	232207	166767940	76431433	1145	54976											
SCN1A	6323	broad.mit.edu	37	chr2	166852557	166852557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taggcttttgcggttttttcGatcctaattttttcattgca	6	21	7	7	2	1	0	1	0	0	0	3	1	2	0	1	2	2	3	1	2	2	11	rs139300715		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:166852557G>A	uc010zcz.1	-	24	4532	c.4514C>T	c.(4513-4515)TCG>TTG	p.S1505L		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1516						voltage-gated sodium channel complex	voltage-gated sodium channel activity	p.S1505L(1)		ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CGGTTTTTTCGATCCTAATTT	0.328													16	67					0	0	1	0	0		A	166852557	A	A	166852557	3	1	89	1	0	0	0	0	1	0	0	0	13939	1059	37	1	1494	1	SCN1A	2	166852557	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	84617	166852557	76346816	1146	54977											
SCN1A	6323	broad.mit.edu	37	chr2	166870258	166870258	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttaatctcactcaccagaGcaccactactaaggagaatc	14	9	5	13	0	3	2	2	0	2	2	5	3	3	2	2	1	2	1	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:166870258G>T	uc010zcz.1	-	18	3686	c.3668C>A	c.(3667-3669)GCT>GAT	p.A1223D	SCN1A_uc002udo.3_Missense_Mutation_p.A1103D|SCN1A_uc010fpk.2_Missense_Mutation_p.A1075D	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1234	III.|Helical; Name=S1 of repeat III; (By similarity).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	ACTCACCAGAGCACCACTACT	0.368													17	66					1.15088e-07	1.20949e-07	1	1	0		T	166870258	T	T	166870258	3	4	89	1	0	0	0	0	1	0	0	0	13939	971	34	5	2364	5	SCN1A	2	166870258	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17701	166870258	76329115	1147	54978											
SCN1A	6323	broad.mit.edu	37	chr2	166900452	166900452	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgctgtgctcatcatctgcGaagtcgttctcagatcccac	7	12	9	13	2	4	1	3	0	2	1	7	2	5	1	1	0	3	3	1	0	1	1	rs146520391		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:166900452G>A	uc010zcz.1	-	11	1788	c.1770C>T	c.(1768-1770)TTC>TTT	p.F590F	SCN1A_uc002udo.3_Silent_p.F459F|SCN1A_uc010fpk.2_Silent_p.F459F	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	590						voltage-gated sodium channel complex	voltage-gated sodium channel activity	p.F590F(1)		ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CATCATCTGCGAAGTCGTTCT	0.517													32	89					0	0	1	0	0		A	166900452	A	A	166900452	2	1	89	1	0	0	0	0	0	0	0	1	13939	1049	37	1		1	SCN1A	2	166900452	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	30194	166900452	76298921	1148	54979											
SCN9A	6335	broad.mit.edu	37	chr2	167060699	167060699	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actaatatcaaaggcttgatTtgtcactaggtcaaatatac	15	13	6	7	0	3	1	3	1	0	0	3	1	3	1	0	2	1	1	0	2	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:167060699T>A	uc010fpl.2	-	26	4848	c.4507A>T	c.(4507-4509)AAT>TAT	p.N1503Y	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1514	IV.|Helical; Name=S1 of repeat IV; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	AAGGCTTGATTTGTCACTAGG	0.323													22	53					0	0	1	0	0		A	167060699	A	A	167060699	3	1	89	1	0	0	0	0	1	0	0	0	13950	1841	64	5	1434	5	SCN9A	2	167060699	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	160247	167060699	76138674	1149	54980											
SCN9A	6335	broad.mit.edu	37	chr2	167141144	167141144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggctgatgttactgctgCgtcgctcctggggtctgtgg	2	14	15	10	2	1	1	0	1	1	0	3	1	2	1	1	4	3	4	1	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:167141144C>T	uc010fpl.2	-	12	2134	c.1793G>A	c.(1792-1794)CGC>CAC	p.R598H	uc002udp.2_Intron|SCN9A_uc002udr.1_Missense_Mutation_p.R469H|SCN9A_uc002uds.1_Missense_Mutation_p.R469H|SCN9A_uc002udt.1_Missense_Mutation_p.R469H	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	598						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GTTACTGCTGCGTCGCTCCTG	0.552													25	56					0	0	1	0	0		T	167141144	T	T	167141144	3	4	89	1	0	0	0	0	1	0	0	0	13950	768	27	1	4204	1	SCN9A	2	167141144	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	80445	167141144	76058229	1150	54981											
SCN9A	6335	broad.mit.edu	37	chr2	167141266	167141266	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatctcttcctctgcctttGaaactaaaaagacttgttct	11	16	4	10	0	3	2	0	1	3	1	5	2	4	2	2	0	2	1	2	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:167141266G>T	uc010fpl.2	-	12	2012	c.1671C>A	c.(1669-1671)TTC>TTA	p.F557L	uc002udp.2_Intron|SCN9A_uc002udr.1_Missense_Mutation_p.F428L|SCN9A_uc002uds.1_Missense_Mutation_p.F428L|SCN9A_uc002udt.1_Missense_Mutation_p.F428L	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	557						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	CTCTGCCTTTGAAACTAAAAA	0.443													16	36					3.45872e-05	3.55908e-05	1	1	0		T	167141266	T	T	167141266	3	4	89	1	0	0	0	0	1	0	0	0	13950	1281	45	5	4326	5	SCN9A	2	167141266	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	122	167141266	76058107	1151	54982											
SCN9A	6335	broad.mit.edu	37	chr2	167162341	167162341	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccagccagttccacgggTcacgaagaaaagtgaattct	14	8	9	10	2	2	2	1	1	1	1	4	3	4	2	3	1	1	1	3	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:167162341T>C	uc010fpl.2	-	5	898	c.557A>G	c.(556-558)GAC>GGC	p.D186G	SCN9A_uc002udr.1_Missense_Mutation_p.D57G|SCN9A_uc002uds.1_Missense_Mutation_p.D57G|SCN9A_uc002udt.1_Missense_Mutation_p.D57G	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	186	I.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GTTCCACGGGTCACGAAGAAA	0.383													33	65					0	0	1	0	0		C	167162341	C	C	167162341	3	2	89	1	0	0	0	0	1	0	0	0	13950	1667	58	3	5468	3	SCN9A	2	167162341	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	21075	167162341	76037032	1152	54983											
SCN9A	6335	broad.mit.edu	37	chr2	167163559	167163559	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattgaaacggaagattgttTtccctttgttcaatactatg	11	16	7	7	1	1	2	1	1	0	1	2	3	2	3	1	1	2	2	1	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:167163559T>G	uc010fpl.2	-	3	625	c.284A>C	c.(283-285)AAA>ACA	p.K95T	SCN9A_uc002udr.1_5'Flank|SCN9A_uc002uds.1_5'Flank|SCN9A_uc002udt.1_5'Flank	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	95						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GAAGATTGTTTTCCCTTTGTT	0.333													17	24					0	0	1	0	0		G	167163559	G	G	167163559	3	3	89	1	0	0	0	0	1	0	0	0	13950	1841	64	5	5749	5	SCN9A	2	167163559	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1218	167163559	76035814	1153	54984											
SCN7A	6332	broad.mit.edu	37	chr2	167262951	167262951	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaaattatacattccaaaTacggcatagatgaacatgac	18	9	6	8	1	0	3	0	2	0	1	1	3	1	3	1	1	3	2	1	1	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:167262951T>C	uc002udu.1	-	25	4315	c.4188A>G	c.(4186-4188)GTA>GTG	p.V1396V		NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	1396	Helical; Name=S5 of repeat IV; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						ACATTCCAAATACGGCATAGA	0.363													42	94					0	0	1	0	0		C	167262951	C	C	167262951	2	2	89	1	0	0	0	0	0	0	0	1	13948	1393	49	3		3	SCN7A	2	167262951	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	99392	167262951	75936422	1154	54985											
SCN7A	6332	broad.mit.edu	37	chr2	167304120	167304120	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctacttatttagtactttAccttccttatgtctgagagt	8	19	6	8	0	2	1	0	1	2	1	3	2	3	1	2	0	3	1	2	0	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:167304120A>G	uc002udu.1	-	11	1514	c.1387_splice	c.e11+1	p.E463_splice	SCN7A_uc010fpm.1_Splice_Site	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha						muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TTAGTACTTTACCTTCCTTAT	0.338													16	44					0	0	1	0	0		G	167304120	G	G	167304120	5	3	89	1	0	0	0	0	0	0	1	0	13948	405	14	3	3719	3	SCN7A	2	167304120	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	41169	167304120	75895253	1155	54986											
XIRP2	129446	broad.mit.edu	37	chr2	168098327	168098327	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagagattccaaaggtttcGactaagttgttaaaagagca	16	10	10	5	1	0	2	0	0	0	2	2	5	1	2	1	1	1	4	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:168098327G>A	uc002udx.2	+	7	1101	c.1083G>A	c.(1081-1083)TCG>TCA	p.S361S	XIRP2_uc010fpn.2_Silent_p.S394S|XIRP2_uc010fpo.2_Silent_p.S361S|XIRP2_uc010fpp.2_Silent_p.S361S|XIRP2_uc002udy.2_Silent_p.S186S|XIRP2_uc010fpq.2_Silent_p.S139S|XIRP2_uc010fpr.2_Silent_p.S139S	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	186					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CAAAGGTTTCGACTAAGTTGT	0.363													31	74					0	0	1	0	0		A	168098327	A	A	168098327	2	1	89	1	0	0	0	0	0	0	0	1	17456	1045	37	1		1	XIRP2	2	168098327	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	794207	168098327	75101046	1156	54987											
XIRP2	129446	broad.mit.edu	37	chr2	168100110	168100110	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaagaagtataaaatgtttCgaaactcaaccattatatgt	19	12	5	5	1	1	1	1	0	0	1	2	2	1	1	1	0	2	2	1	0	10	5	rs76149079	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:168100110C>T	uc002udx.2	+	8	2226	c.2208C>T	c.(2206-2208)TTC>TTT	p.F736F	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.F561F|XIRP2_uc010fpq.2_Silent_p.F514F|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	561	Xin 6.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TAAAATGTTTCGAAACTCAAC	0.368													32	58					0	0	1	0	0		T	168100110	T	T	168100110	2	4	89	1	0	0	0	0	0	0	0	1	17456	883	31	1		1	XIRP2	2	168100110	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1783	168100110	75099263	1157	54988											
XIRP2	129446	broad.mit.edu	37	chr2	168100781	168100781	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaaacaatttaattaaatTtgatgcatcacataaaatag	20	13	3	5	0	2	1	2	1	0	0	2	1	2	1	0	0	2	1	0	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:168100781T>G	uc002udx.2	+	8	2897	c.2879T>G	c.(2878-2880)TTT>TGT	p.F960C	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.F785C|XIRP2_uc010fpq.2_Missense_Mutation_p.F738C|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	785					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TTAATTAAATTTGATGCATCA	0.348													26	53					0	0	1	0	0		G	168100781	G	G	168100781	3	3	89	1	0	0	0	0	1	0	0	0	17456	1841	64	5	2909	5	XIRP2	2	168100781	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	671	168100781	75098592	1158	54989											
XIRP2	129446	broad.mit.edu	37	chr2	168101110	168101110	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttgattcaattaaatatTttagtgatgtggaagaaaca	15	15	7	4	0	2	3	1	2	1	1	2	4	2	4	0	1	1	0	0	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:168101110T>G	uc002udx.2	+	8	3226	c.3208T>G	c.(3208-3210)TTT>GTT	p.F1070V	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.F895V|XIRP2_uc010fpq.2_Missense_Mutation_p.F848V|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	895					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AATTAAATATTTTAGTGATGT	0.338													10	26					0	0	1	0	0		G	168101110	G	G	168101110	3	3	89	1	0	0	0	0	1	0	0	0	17456	1841	64	5	3238	5	XIRP2	2	168101110	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	329	168101110	75098263	1159	54990											
XIRP2	129446	broad.mit.edu	37	chr2	168101932	168101932	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaaaagaagaggtaattCatggagatgtgcgaggaaca	18	8	12	3	1	1	3	1	0	0	3	1	6	1	4	0	3	2	1	0	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:168101932C>A	uc002udx.2	+	8	4048	c.4030C>A	c.(4030-4032)CAT>AAT	p.H1344N	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.H1169N|XIRP2_uc010fpq.2_Missense_Mutation_p.H1122N|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1169					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGAGGTAATTCATGGAGATGT	0.383													34	57					6.50621e-10	7.02873e-10	1	1	0		A	168101932	A	A	168101932	3	1	89	1	0	0	0	0	1	0	0	0	17456	826	29	5	4060	5	XIRP2	2	168101932	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	822	168101932	75097441	1160	54991											
XIRP2	129446	broad.mit.edu	37	chr2	168103654	168103654	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaattctgaaaaaggagcttCtcaaagatgacctggaaaca	18	8	8	7	0	2	3	1	2	2	1	3	5	2	5	1	2	2	1	1	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:168103654C>T	uc002udx.2	+	8	5770	c.5752C>T	c.(5752-5754)CTC>TTC	p.L1918F	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.L1743F|XIRP2_uc010fpq.2_Missense_Mutation_p.L1696F|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1743	Potential.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAAGGAGCTTCTCAAAGATGA	0.353													21	45					0	0	1	0	0		T	168103654	T	T	168103654	3	4	89	1	0	0	0	0	1	0	0	0	17456	913	32	4	5782	4	XIRP2	2	168103654	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1722	168103654	75095719	1161	54992											
XIRP2	129446	broad.mit.edu	37	chr2	168103786	168103786	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcctcgggagagcagaaaAcagatattcatcaggttgct	13	9	11	8	1	2	3	2	0	0	3	4	5	3	3	1	2	3	3	1	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:168103786A>G	uc002udx.2	+	8	5902	c.5884A>G	c.(5884-5886)ACA>GCA	p.T1962A	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.T1787A|XIRP2_uc010fpq.2_Missense_Mutation_p.T1740A|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1787					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGAGCAGAAAACAGATATTCA	0.443													32	43					0	0	1	0	0		G	168103786	G	G	168103786	3	3	89	1	0	0	0	0	1	0	0	0	17456	43	2	3	5914	3	XIRP2	2	168103786	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	132	168103786	75095587	1162	54993											
XIRP2	129446	broad.mit.edu	37	chr2	168105219	168105219	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataaaagataataagaacgaTttttcccccaaagttgaact	18	11	5	7	1	0	3	0	1	0	2	1	4	1	3	2	0	2	1	2	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:168105219T>G	uc002udx.2	+	8	7335	c.7317T>G	c.(7315-7317)GAT>GAG	p.D2439E	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.D2264E|XIRP2_uc010fpq.2_Missense_Mutation_p.D2217E|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2264					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ATAAGAACGATTTTTCCCCCA	0.408													35	97					0	0	1	0	0		G	168105219	G	G	168105219	3	3	89	1	0	0	0	0	1	0	0	0	17456	1490	52	5	7347	5	XIRP2	2	168105219	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1433	168105219	75094154	1163	54994											
XIRP2	129446	broad.mit.edu	37	chr2	168105268	168105268	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgtcagatatggaatgtAaaattactacctcaaaggat	15	11	7	8	0	2	1	2	0	0	1	2	3	2	3	2	2	2	1	2	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:168105268A>G	uc002udx.2	+	8	7384	c.7366A>G	c.(7366-7368)AAA>GAA	p.K2456E	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.K2281E|XIRP2_uc010fpq.2_Missense_Mutation_p.K2234E|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2281					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TATGGAATGTAAAATTACTAC	0.393													38	87					0	0	1	0	0		G	168105268	G	G	168105268	3	3	89	1	0	0	0	0	1	0	0	0	17456	363	13	3	7396	3	XIRP2	2	168105268	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	49	168105268	75094105	1164	54995											
SPC25	57405	broad.mit.edu	37	chr2	169732594	169732594	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacttaccataaatttttcGaatttctagtccaagtcgat	14	15	4	8	2	1	0	0	0	1	0	4	2	2	0	2	0	2	0	2	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:169732594G>A	uc002uel.2	-	5	570	c.439C>T	c.(439-441)CGA>TGA	p.R147*		NM_020675	NP_065726	Q9HBM1	SPC25_HUMAN	spindle pole body component 25	147	Interaction with the C-terminus of SPBC24.				cell division|chromosome segregation|mitotic prometaphase|mitotic spindle organization	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding			central_nervous_system(1)	1						TAAATTTTTCGAATTTCTAGT	0.284													6	19					0	0	1	0	0		A	169732594	A	A	169732594	4	1	89	1	0	0	0	0	0	1	0	0	15047	1066	37	1	247	1	SPC25	2	169732594	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1627326	169732594	73466779	1165	54996											
ABCB11	8647	broad.mit.edu	37	chr2	169814479	169814479	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgtgtacttaccccaaGaatctggctgaataaaaagg	14	9	9	9	0	1	2	0	1	1	1	1	2	1	2	2	2	3	3	2	2	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:169814479G>T	uc002ueo.1	-	19	2464	c.2338C>A	c.(2338-2340)CTT>ATT	p.L780I	ABCB11_uc010zda.1_Missense_Mutation_p.L222I|ABCB11_uc010zdb.1_Missense_Mutation_p.L256I	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	780	Extracellular (Potential).|ABC transmembrane type-1 2.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	CTTACCCCAAGAATCTGGCTG	0.423													11	24					6.40141e-05	6.56571e-05	1	1	0		T	169814479	T	T	169814479	3	4	89	1	0	0	0	0	1	0	0	0	42	942	33	5	1667	5	ABCB11	2	169814479	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	81885	169814479	73384894	1166	54997											
ABCB11	8647	broad.mit.edu	37	chr2	169869801	169869801	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacaacgtgttccatttgTcatgttctggttgagggaac	8	13	10	10	1	2	1	1	1	1	0	3	2	3	2	2	2	2	3	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:169869801T>C	uc002ueo.1	-	5	496	c.370A>G	c.(370-372)ACA>GCA	p.T124A		NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	124	ABC transmembrane type-1 1.|Extracellular (Potential).				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	GTTCCATTTGTCATGTTCTGG	0.343													84	149					0	0	1	0	0		C	169869801	C	C	169869801	3	2	89	1	0	0	0	0	1	0	0	0	42	1667	58	3	3691	3	ABCB11	2	169869801	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	55322	169869801	73329572	1167	54998											
LRP2	4036	broad.mit.edu	37	chr2	170011043	170011043	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcttgaagatactctgaGaacctctcagatgagagatt	13	12	8	8	0	4	6	2	3	3	4	5	8	4	6	1	0	2	0	1	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:170011043G>T	uc002ues.2	-	66	12435	c.12222C>A	c.(12220-12222)TTC>TTA	p.F4074L		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4074	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GATACTCTGAGAACCTCTCAG	0.398													33	62					1.99505e-19	2.34416e-19	1	1	0		T	170011043	T	T	170011043	3	4	89	1	0	0	0	0	1	0	0	0	8974	933	33	5	1801	5	LRP2	2	170011043	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	141242	170011043	73188330	1168	54999											
LRP2	4036	broad.mit.edu	37	chr2	170031797	170031797	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagttgccgtcactgcactgGaactgtcccagtcggcagaa	9	8	11	13	2	1	1	1	0	0	1	3	2	2	2	2	2	3	3	2	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:170031797G>T	uc002ues.2	-	55	10887	c.10674C>A	c.(10672-10674)TTC>TTA	p.F3558L		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3558	LDL-receptor class A 27.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CACTGCACTGGAACTGTCCCA	0.532													35	46					6.05902e-23	7.24288e-23	1	1	0		T	170031797	T	T	170031797	3	4	89	1	0	0	0	0	1	0	0	0	8974	1165	41	5	3393	5	LRP2	2	170031797	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	20754	170031797	73167576	1169	55000											
LRP2	4036	broad.mit.edu	37	chr2	170129474	170129474	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgtatccagttggaagccGaatgtgcacttgcaacggaa	11	10	11	9	2	1	0	0	0	1	0	2	3	2	2	2	2	4	4	2	2	5	3	rs145709922	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:170129474G>A	uc002ues.2	-	15	2292	c.2079C>T	c.(2077-2079)TTC>TTT	p.F693F	LRP2_uc010zdf.1_Silent_p.F624F	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	693	EGF-like 3.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GTTGGAAGCCGAATGTGCACT	0.488													88	195					0	0	1	0	0		A	170129474	A	A	170129474	2	1	89	1	0	0	0	0	0	0	0	1	8974	1049	37	1		1	LRP2	2	170129474	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	97677	170129474	73069899	1170	55001											
KLHL23	151230	broad.mit.edu	37	chr2	170591738	170591738	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcacagctgacatgaaaGaaaaatttaaaaataaaata	22	10	5	4	0	1	3	1	2	0	1	1	3	1	3	0	0	1	2	0	0	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:170591738G>T	uc002ufh.1	+	4	552	c.214G>T	c.(214-216)GAA>TAA	p.E72*	KLHL23_uc002ufi.1_Nonsense_Mutation_p.E72*	NM_144711	NP_653312	Q8NBE8	KLH23_HUMAN	kelch-like 23	72	BTB.										0						TGACATGAAAGaaaaatttaa	0.353													29	66					2.12542e-12	2.35257e-12	1	1	0		T	170591738	T	T	170591738	4	4	89	1	0	0	0	0	0	1	0	0	8394	943	33	5	216	5	KLHL23	2	170591738	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	462264	170591738	72607635	1171	55002											
KLHL23	151230	broad.mit.edu	37	chr2	170591939	170591939	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacttggatattgataatTgtattggaatgcactccttt	10	16	9	6	0	0	1	0	1	0	0	1	3	1	3	1	3	1	3	1	3	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:170591939T>C	uc002ufh.1	+	4	753	c.415T>C	c.(415-417)TGT>CGT	p.C139R	KLHL23_uc002ufi.1_Missense_Mutation_p.C139R	NM_144711	NP_653312	Q8NBE8	KLH23_HUMAN	kelch-like 23	139	BACK.										0						TATTGATAATTGTATTGGAAT	0.408													47	111					0	0	1	0	0		C	170591939	C	C	170591939	3	2	89	1	0	0	0	0	1	0	0	0	8394	1812	63	3	417	3	KLHL23	2	170591939	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	201	170591939	72607434	1172	55003											
METTL5	29081	broad.mit.edu	37	chr2	170681160	170681160	+	Translation_Start_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcacaggatctgcggagaAatctattgaactgggatctt	12	10	12	7	1	3	2	0	1	3	1	3	5	3	4	0	4	2	1	0	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:170681160A>C	uc002ufn.2	-	1	194	c.-52T>G	c.(-54--50)ATTTC>ATGTC		UBR3_uc010zdi.1_5'Flank|METTL5_uc002ufo.2_Intron|METTL5_uc002ufp.2_Intron|METTL5_uc002ufq.1_Intron	NM_014168	NP_054887	Q9NRN9	METL5_HUMAN	methyltransferase like 5								methyltransferase activity|nucleic acid binding			central_nervous_system(1)	1						TCTGCGGAGAAATCTATTGAA	0.512											OREG0015052	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	47					0	0	1	0	0		C	170681160	C	C	170681160	1	2	89	1	0	0	0	0	0	0	0	0	9521	29	1	5		5	METTL5	2	170681160	Translation_Start_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	89221	170681160	72518213	1173	55004											
MYO3B	140469	broad.mit.edu	37	chr2	171399458	171399458	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaaaagggtgcgatatcttCgcaggacatgcaaacaaggt	14	7	11	9	2	1	0	0	0	1	0	2	2	1	1	1	3	3	2	1	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:171399458C>T	uc002ufy.2	+	31	3761	c.3618C>T	c.(3616-3618)TTC>TTT	p.F1206F	MYO3B_uc010fqb.1_Missense_Mutation_p.S1234L|MYO3B_uc002ufz.2_Silent_p.F1179F|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	1206					response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						GCGATATCTTCGCAGGACATG	0.363													46	88					0	0	1	0	0		T	171399458	T	T	171399458	2	4	89	1	0	0	0	0	0	0	0	1	10095	893	31	1		1	MYO3B	2	171399458	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	718298	171399458	71799915	1174	55005											
SP5	389058	broad.mit.edu	37	chr2	171573683	171573683	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgcgctggcacacgggCgagcgacccttcgtgtgcaa	7	6	13	15	5	0	0	0	0	0	0	1	2	0	0	2	2	3	3	2	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:171573683C>T	uc002uge.2	+	2	1132	c.966C>T	c.(964-966)GGC>GGT	p.G322G		NM_001003845	NP_001003845	Q6BEB4	SP5_HUMAN	Sp5 transcription factor	322					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGCACACGGGCGAGCGACCCT	0.672													3	13					0	0	1	0	0		T	171573683	T	T	171573683	2	4	89	1	0	0	0	0	0	0	0	1	14992	755	27	1		1	SP5	2	171573683	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	174225	171573683	71625690	1175	55006											
SP5	389058	broad.mit.edu	37	chr2	171573901	171573901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggttaagcgggaggacgCgcgggacctgtgagccctcc	6	5	18	12	5	0	1	0	1	0	0	1	4	1	4	3	5	2	1	3	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:171573901C>T	uc002uge.2	+	2	1350	c.1184C>T	c.(1183-1185)GCG>GTG	p.A395V		NM_001003845	NP_001003845	Q6BEB4	SP5_HUMAN	Sp5 transcription factor	395					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGGGAGGACGCGCGGGACCTG	0.652													9	21					0	0	1	0	0		T	171573901	T	T	171573901	3	4	89	1	0	0	0	0	1	0	0	0	14992	768	27	1	1190	1	SP5	2	171573901	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	218	171573901	71625472	1176	55007											
GAD1	2571	broad.mit.edu	37	chr2	171686016	171686016	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaccaacagcctggaagaGaagagtcgccttgtgagtgc	12	6	14	9	1	0	3	0	1	0	2	1	6	0	5	3	2	3	0	3	2	3	1	rs138838552		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:171686016G>T	uc002ugi.2	+	4	599	c.177G>T	c.(175-177)GAG>GAT	p.E59D	GAD1_uc002ugh.2_Missense_Mutation_p.E59D	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	59					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GCCTGGAAGAGAAGAGTCGCC	0.567													32	78					1.08312e-15	1.23716e-15	1	1	0		T	171686016	T	T	171686016	3	4	89	1	0	0	0	0	1	0	0	0	6193	933	33	5	187	5	GAD1	2	171686016	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	112115	171686016	71513357	1177	55008											
GAD1	2571	broad.mit.edu	37	chr2	171716257	171716257	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccctgatgatggagtcaggTacgaccatggttggctacca	9	9	13	10	1	1	2	1	2	0	0	1	4	1	3	3	4	2	3	3	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:171716257T>C	uc002ugi.2	+	17	2072	c.1650T>C	c.(1648-1650)GGT>GGC	p.G550G	GAD1_uc010fqc.2_Silent_p.G169G	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	550					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	TGGAGTCAGGTACGACCATGG	0.478													13	25					0	0	1	0	0		C	171716257	C	C	171716257	2	2	89	1	0	0	0	0	0	0	0	1	6193	1625	57	3		3	GAD1	2	171716257	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	30241	171716257	71483116	1178	55009											
GORASP2	26003	broad.mit.edu	37	chr2	171811194	171811194	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggatatggttatttgcatCgaatacctacacgcccattt	10	15	7	9	2	0	0	0	0	0	0	1	2	0	1	2	2	3	2	2	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:171811194C>T	uc002ugk.2	+	6	741	c.601C>T	c.(601-603)CGA>TGA	p.R201*	GORASP2_uc002ugj.2_Nonsense_Mutation_p.R133*|GORASP2_uc010zdl.1_Nonsense_Mutation_p.R213*|GORASP2_uc010zdm.1_Nonsense_Mutation_p.R157*|GORASP2_uc002ugl.2_Nonsense_Mutation_p.R133*|GORASP2_uc002ugm.2_5'UTR	NM_015530	NP_056345	Q9H8Y8	GORS2_HUMAN	golgi reassembly stacking protein 2	201						Golgi membrane				breast(1)|central_nervous_system(1)	2						TTATTTGCATCGAATACCTAC	0.368													21	42					0	0	1	0	0		T	171811194	T	T	171811194	4	4	89	1	0	0	0	0	0	1	0	0	6591	876	31	1	623	1	GORASP2	2	171811194	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	94937	171811194	71388179	1179	55010											
TLK1	9874	broad.mit.edu	37	chr2	171863007	171863007	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttaagatcataatgtataAtagggggtttgatctcattg	12	15	10	4	0	2	2	2	1	1	1	3	2	2	2	0	2	0	3	0	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:171863007A>C	uc002ugn.2	-	17	2217	c.1745T>G	c.(1744-1746)ATT>AGT	p.I582S	TLK1_uc002ugo.2_Missense_Mutation_p.I603S|TLK1_uc002ugp.2_Missense_Mutation_p.I534S|TLK1_uc002ugq.2_RNA|TLK1_uc010zdn.1_Missense_Mutation_p.I486S	NM_012290	NP_036422	Q9UKI8	TLK1_HUMAN	tousled-like kinase 1 isoform 1	582	Protein kinase.				cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						ATAATGTATAATAGGGGGTTT	0.294													51	89					0	0	1	0	0		C	171863007	C	C	171863007	3	2	89	1	0	0	0	0	1	0	0	0	15968	101	4	5	575	5	TLK1	2	171863007	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	51813	171863007	71336366	1180	55011											
PDK1	5163	broad.mit.edu	37	chr2	173423516	173423516	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggcaaatataatgaaaGaaataagtctccttccagat	17	10	7	7	0	1	3	0	1	1	2	3	4	2	3	2	1	0	1	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:173423516G>T	uc002uhr.2	+	2	377	c.277G>T	c.(277-279)GAA>TAA	p.E93*	PDK1_uc010zdz.1_5'UTR|PDK1_uc010zea.1_RNA|PDK1_uc002uhq.1_Nonsense_Mutation_p.E93*|PDK1_uc002uhs.2_Nonsense_Mutation_p.E93*|PDK1_uc010zeb.1_Nonsense_Mutation_p.E93*	NM_002610	NP_002601	Q15118	PDK1_HUMAN	pyruvate dehydrogenase kinase 1 precursor	93					glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|small GTPase mediated signal transduction	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(3)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.12)			TATAATGAAAGAAATAAGTCT	0.403									Autosomal_Dominant_Polycystic_Kidney_Disease				40	58					4.32679e-17	4.9986e-17	1	1	0		T	173423516	T	T	173423516	4	4	89	1	0	0	0	0	0	1	0	0	11694	943	33	5	283	5	PDK1	2	173423516	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1560509	173423516	69775857	1181	55012											
ZAK	51776	broad.mit.edu	37	chr2	174034590	174034590	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagttttatggagtaattCttgaacctcccaactatggc	10	14	7	10	0	1	1	0	1	1	0	3	2	3	2	3	2	2	2	3	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:174034590C>A	uc002uhz.2	+	3	417	c.217C>A	c.(217-219)CTT>ATT	p.L73I	ZAK_uc002uhx.2_Missense_Mutation_p.L73I|ZAK_uc002uhy.2_Missense_Mutation_p.L73I|ZAK_uc010zei.1_5'UTR|ZAK_uc002uia.1_Missense_Mutation_p.L73I	NM_016653	NP_057737	Q9NYL2	MLTK_HUMAN	MLK-related kinase isoform 1	73	Protein kinase.				activation of JUN kinase activity|activation of MAPKK activity|cell cycle arrest|cell death|cell differentiation|cell proliferation|DNA damage checkpoint|positive regulation of apoptosis|response to radiation	cytoplasm|nucleus	ATP binding|identical protein binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			lung(3)|stomach(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.176)			TGGAGTAATTCTTGAACCTCC	0.338													43	79					5.37117e-13	5.98648e-13	1	1	0		A	174034590	A	A	174034590	3	1	89	1	0	0	0	0	1	0	0	0	17538	913	32	5	223	5	ZAK	2	174034590	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	611074	174034590	69164783	1182	55013											
CDCA7	83879	broad.mit.edu	37	chr2	174228618	174228618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacatcccctcccaggctccGactcagtaagtaccagttct	9	9	7	16	1	2	0	1	0	1	0	5	2	5	0	5	1	1	4	5	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:174228618G>A	uc002uid.1	+	4	588	c.457G>A	c.(457-459)GAC>AAC	p.D153N	CDCA7_uc002uic.1_Missense_Mutation_p.D232N|CDCA7_uc010zej.1_Missense_Mutation_p.D188N|CDCA7_uc010zek.1_Missense_Mutation_p.D111N	NM_145810	NP_665809	Q9BWT1	CDCA7_HUMAN	cell division cycle associated 7 isoform 2	153					regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.116)			CCCAGGCTCCGACTCAGTAAG	0.398													83	112					0	0	1	0	0		A	174228618	A	A	174228618	3	1	89	1	0	0	0	0	1	0	0	0	3093	1058	37	1	712	1	CDCA7	2	174228618	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	194028	174228618	68970755	1183	55014											
CIR1	9541	broad.mit.edu	37	chr2	175243671	175243671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgagccatcagtgggaaccGaacttgcattgattccagaa	12	9	10	10	1	1	3	1	2	0	1	2	5	2	4	3	1	4	1	3	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:175243671G>A	uc002uim.2	-	7	557	c.464C>T	c.(463-465)TCG>TTG	p.S155L	CIR1_uc002uin.2_Missense_Mutation_p.R20W|CIR1_uc002uio.2_5'UTR|CIR1_uc002uip.2_Missense_Mutation_p.S44L	NM_004882	NP_004873	Q86X95	CIR1_HUMAN	CBF1 interacting corepressor	155					mRNA processing|negative regulation of transcription, DNA-dependent|RNA splicing	nuclear speck	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			large_intestine(1)	1						AGTGGGAACCGAACTTGCATT	0.418													49	94					0	0	1	0	0		A	175243671	A	A	175243671	3	1	89	1	0	0	0	0	1	0	0	0	3435	1059	37	1	904	1	CIR1	2	175243671	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1015053	175243671	67955702	1184	55015											
GPR155	151556	broad.mit.edu	37	chr2	175333750	175333750	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaccaggcagaaacgtacaTgatgggagcagacacaaatg	17	5	11	8	1	0	3	0	1	0	2	0	4	0	4	1	2	4	3	1	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:175333750T>C	uc002uit.2	-	6	1463	c.1072A>G	c.(1072-1074)ATG>GTG	p.M358V	GPR155_uc002uiu.2_Missense_Mutation_p.M358V|GPR155_uc002uiv.2_Missense_Mutation_p.M358V|GPR155_uc010fqs.2_Missense_Mutation_p.M358V	NM_001033045	NP_001028217	Q7Z3F1	GP155_HUMAN	G protein-coupled receptor 155 isoform 9	358	Helical; (Potential).				intracellular signal transduction|transmembrane transport	integral to membrane				ovary(1)	1						GAAACGTACATGATGGGAGCA	0.393													40	86					0	0	1	0	0		C	175333750	C	C	175333750	3	2	89	1	0	0	0	0	1	0	0	0	6675	1464	51	3	1588	3	GPR155	2	175333750	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	90079	175333750	67865623	1185	55016											
WIPF1	7456	broad.mit.edu	37	chr2	175431871	175431871	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatggctctggaggtggcaaAtcggaaatcggatggaagta	12	9	15	5	2	1	0	0	0	1	0	3	4	1	4	0	7	0	3	0	7	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:175431871A>C	uc002uiy.2	-	8	1715	c.1383T>G	c.(1381-1383)GAT>GAG	p.D461E	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Missense_Mutation_p.D461E|WIPF1_uc010fqt.1_Missense_Mutation_p.D461E|WIPF1_uc002uiz.2_Missense_Mutation_p.D461E|WIPF1_uc002ujb.1_Missense_Mutation_p.D461E	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	461					actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						GAGGTGGCAAATCGGAAATCG	0.438													26	55					0	0	1	0	0		C	175431871	C	C	175431871	3	2	89	1	0	0	0	0	1	0	0	0	17393	98	4	5	136	5	WIPF1	2	175431871	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	98121	175431871	67767502	1186	55017											
CHRNA1	1134	broad.mit.edu	37	chr2	175618334	175618334	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggggcaggcgctgcatgacGaagtggtaggtgatgtccag	9	7	18	7	2	0	2	0	2	0	0	1	3	1	2	1	5	1	4	1	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:175618334G>A	uc002ujd.2	-	7	828	c.750C>T	c.(748-750)TTC>TTT	p.F250F	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Silent_p.F225F|CHRNA1_uc002ujf.3_Silent_p.F225F	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	250	Extracellular.				muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GCTGCATGACGAAGTGGTAGG	0.587													55	87					0	0	1	0	0		A	175618334	A	A	175618334	2	1	89	1	0	0	0	0	0	0	0	1	3384	1049	37	1		1	CHRNA1	2	175618334	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	186463	175618334	67581039	1187	55018											
CHN1	1123	broad.mit.edu	37	chr2	175676246	175676246	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaaaaacatacctctgtcGaaagccatcttgacatcttc	13	11	6	11	1	3	2	0	2	3	0	5	3	3	2	2	0	3	0	2	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:175676246G>A	uc002uji.2	-	10	1487	c.957C>T	c.(955-957)TTC>TTT	p.F319F	CHN1_uc010zeq.1_Silent_p.F293F|CHN1_uc002ujj.2_Silent_p.F94F|CHN1_uc002ujg.2_Silent_p.F194F	NM_001822	NP_001813	P15882	CHIN_HUMAN	chimerin (chimaerin) 1 isoform a	319	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.226)			TACCTCTGTCGAAAGCCATCT	0.318			T	TAF15	extraskeletal myxoid chondrosarcoma								8	18					0	0	1	0	0		A	175676246	A	A	175676246	2	1	89	1	0	0	0	0	0	0	0	1	3365	1049	37	1		1	CHN1	2	175676246	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	57912	175676246	67523127	1188	55019											
HOXD13	3239	broad.mit.edu	37	chr2	176959337	176959337	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacaaattcattaacaaggAcaagcggcggcgtatctcgg	14	8	10	9	4	2	0	1	0	1	0	3	1	2	1	0	4	3	1	0	4	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:176959337A>G	uc002ukf.1	+	2	998	c.911A>G	c.(910-912)GAC>GGC	p.D304G		NM_000523	NP_000514	P35453	HXD13_HUMAN	homeobox D13	304	Homeobox.				skeletal system development|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0526)|READ - Rectum adenocarcinoma(9;0.0678)		ATTAACAAGGACAAGCGGCGG	0.463			T	NUP98	AML*								24	42					0	0	1	0	0		G	176959337	G	G	176959337	3	3	89	1	0	0	0	0	1	0	0	0	7338	275	10	3	917	3	HOXD13	2	176959337	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1283091	176959337	66240036	1189	55020											
HOXD11	3237	broad.mit.edu	37	chr2	176973735	176973735	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacgtgtacataaacaaagaGaaaagacttcaactctctcg	18	8	6	9	2	2	2	1	0	1	2	4	3	2	2	0	0	4	1	0	0	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:176973735G>A	uc002uki.2	+	2	882	c.882G>A	c.(880-882)GAG>GAA	p.E294E	HOXD11_uc010fqx.2_RNA	NM_021192	NP_067015	P31277	HXD11_HUMAN	homeobox D11	294	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0521)|READ - Rectum adenocarcinoma(9;0.0678)		TAAACAAAGAGAAAAGACTTC	0.478			T	NUP98	AML								43	93					0	0	1	0	0		A	176973735	A	A	176973735	2	1	89	1	0	0	0	0	0	0	0	1	7336	933	33	4		4	HOXD11	2	176973735	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14398	176973735	66225638	1190	55021											
HNRNPA3	220988	broad.mit.edu	37	chr2	178081278	178081278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ataattgtgaagtgaaaaagGccctttctaaacaagagatg	17	10	9	5	0	1	3	0	2	1	1	1	4	1	3	1	1	1	0	1	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:178081278G>A	uc002ulb.1	+	5	707	c.601G>A	c.(601-603)GCC>ACC	p.A201T	HNRNPA3_uc002ulc.1_Missense_Mutation_p.A201T|HNRNPA3_uc002uld.2_Missense_Mutation_p.A179T|HNRNPA3_uc002ule.2_5'Flank	NM_194247	NP_919223	P51991	ROA3_HUMAN	heterogeneous nuclear ribonucleoprotein A3	201	RRM 2.					catalytic step 2 spliceosome|nucleolus|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(2)	2						AGTGAAAAAGGCCCTTTCTAA	0.343													45	92					0	0	1	0	0		A	178081278	A	A	178081278	3	1	89	1	0	0	0	0	1	0	0	0	7276	1203	42	2	619	2	HNRNPA3	2	178081278	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1107543	178081278	65118095	1191	55022											
TTC30B	150737	broad.mit.edu	37	chr2	178416077	178416077	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttctttgtatttgtttTcctgcatgaacagaacatga	9	17	8	7	0	1	3	0	2	1	1	2	3	2	3	1	1	3	4	1	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:178416077T>G	uc002uln.2	-	1	1448	c.1415A>C	c.(1414-1416)GAA>GCA	p.E472A	TTC30B_uc010zfc.1_Missense_Mutation_p.E244A	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	472	TPR 7.				cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			GTATTTGTTTTCCTGCATGAA	0.388													59	196					0	0	1	0	0		G	178416077	G	G	178416077	3	3	89	1	0	0	0	0	1	0	0	0	16725	1783	62	5	586	5	TTC30B	2	178416077	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	334799	178416077	64783296	1192	55023											
TTC30B	150737	broad.mit.edu	37	chr2	178416157	178416157	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacagatttgcggaagatCttttccaccattggataatt	11	14	7	9	1	1	2	0	0	1	2	3	4	3	4	3	2	1	0	3	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:178416157C>A	uc002uln.2	-	1	1368	c.1335G>T	c.(1333-1335)AAG>AAT	p.K445N	TTC30B_uc010zfc.1_Missense_Mutation_p.K217N	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	445	TPR 6.				cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			TGCGGAAGATCTTTTCCACCA	0.388													97	464					5.48297e-45	6.80965e-45	1	1	0		A	178416157	A	A	178416157	3	1	89	1	0	0	0	0	1	0	0	0	16725	912	32	5	666	5	TTC30B	2	178416157	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	80	178416157	64783216	1193	55024											
TTC30B	150737	broad.mit.edu	37	chr2	178416244	178416244	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttctccatggtttcatcAtattcattcactgccttttt	7	21	3	10	0	5	0	4	0	1	0	6	0	5	0	2	1	1	1	2	1	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:178416244A>G	uc002uln.2	-	1	1281	c.1248T>C	c.(1246-1248)TAT>TAC	p.Y416Y	TTC30B_uc010zfc.1_Silent_p.Y188Y	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	416	TPR 5.				cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			TGGTTTCATCATATTCATTCA	0.403													76	239					0	0	1	0	0		G	178416244	G	G	178416244	2	3	89	1	0	0	0	0	0	0	0	1	16725	224	8	3		3	TTC30B	2	178416244	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	87	178416244	64783129	1194	55025											
PDE11A	50940	broad.mit.edu	37	chr2	178879182	178879182	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgatttcatcattgaatcgTcgatcctaaaaataagacaa	16	12	5	8	3	2	2	2	1	0	1	6	4	3	2	1	0	0	0	1	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:178879182T>C	uc002ulq.2	-	2	1236	c.918A>G	c.(916-918)CGA>CGG	p.R306R	PDE11A_uc002ulr.2_Silent_p.R56R|PDE11A_uc002ult.1_Silent_p.R56R	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	306	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			CATTGAATCGTCGATCCTAAA	0.398									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				17	29					0	0	1	0	0		C	178879182	C	C	178879182	2	2	89	1	0	0	0	0	0	0	0	1	11650	1654	58	3		3	PDE11A	2	178879182	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	462938	178879182	64320191	1195	55026											
PDE11A	50940	broad.mit.edu	37	chr2	178969129	178969129	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagtcttgtgattttcaccTttttccactgtgtggcactg	5	17	8	11	0	2	1	1	1	1	0	3	1	3	1	3	1	0	1	3	1	0	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:178969129T>G	uc002ulr.2	-	2	161	c.62A>C	c.(61-63)AAG>ACG	p.K21T	PDE11A_uc002ult.1_Missense_Mutation_p.K21T	NM_001077197	NP_001070665	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 3	Error:Variant_position_missing_in_Q9HCR9_after_alignment					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			GATTTTCACCTTTTTCCACTG	0.423									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				41	80					0	0	1	0	0		G	178969129	G	G	178969129	3	3	89	1	0	0	0	0	1	0	0	0	11650	1609	56	5	2985	5	PDE11A	2	178969129	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	89947	178969129	64230244	1196	55027											
OSBPL6	114880	broad.mit.edu	37	chr2	179193050	179193050	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgtccagaaaccagacaAacatgagggctttatgctga	15	8	9	9	0	0	4	0	2	0	2	1	4	1	4	2	1	3	2	2	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179193050A>C	uc002ulx.2	+	5	641	c.263A>C	c.(262-264)AAA>ACA	p.K88T	OSBPL6_uc002ulw.2_Missense_Mutation_p.K88T|OSBPL6_uc002uly.2_Missense_Mutation_p.K88T|OSBPL6_uc010zfe.1_Missense_Mutation_p.K88T|OSBPL6_uc002ulz.2_Missense_Mutation_p.K88T|OSBPL6_uc002uma.2_Missense_Mutation_p.K67T	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	88	PH.				lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			AAACCAGACAAACATGAGGGC	0.373													42	79					0	0	1	0	0		C	179193050	C	C	179193050	3	2	89	1	0	0	0	0	1	0	0	0	11300	14	1	5	316	5	OSBPL6	2	179193050	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	223921	179193050	64006323	1197	55028											
OSBPL6	114880	broad.mit.edu	37	chr2	179197688	179197688	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattgtgagatcaccaagaGatgctagttttcacatattt	14	14	7	6	0	2	2	2	1	0	2	2	4	2	2	1	0	1	2	1	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179197688G>T	uc002ulx.2	+	8	955	c.577G>T	c.(577-579)GAT>TAT	p.D193Y	OSBPL6_uc002ulw.2_Missense_Mutation_p.D193Y|OSBPL6_uc002uly.2_Missense_Mutation_p.D193Y|OSBPL6_uc010zfe.1_Missense_Mutation_p.D193Y|OSBPL6_uc002ulz.2_Missense_Mutation_p.D193Y|OSBPL6_uc002uma.2_Missense_Mutation_p.D172Y	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	193					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			ATCACCAAGAGATGCTAGTTT	0.408													55	84					7.77372e-23	9.28856e-23	1	1	0		T	179197688	T	T	179197688	3	4	89	1	0	0	0	0	1	0	0	0	11300	942	33	5	642	5	OSBPL6	2	179197688	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4638	179197688	64001685	1198	55029											
OSBPL6	114880	broad.mit.edu	37	chr2	179236941	179236941	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggttgtcagtgtaaataTtattcctagccctgatgagg	10	14	10	7	0	2	2	2	2	0	0	3	2	3	2	2	2	1	2	2	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179236941T>G	uc002ulx.2	+	14	1754	c.1376T>G	c.(1375-1377)ATT>AGT	p.I459S	OSBPL6_uc002ulw.2_Intron|OSBPL6_uc002uly.2_Missense_Mutation_p.I484S|OSBPL6_uc010zfe.1_Missense_Mutation_p.I428S|OSBPL6_uc002ulz.2_Intron|OSBPL6_uc002uma.2_Missense_Mutation_p.I463S	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	459					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			AGTGTAAATATTATTCCTAGC	0.323													29	45					0	0	1	0	0		G	179236941	G	G	179236941	3	3	89	1	0	0	0	0	1	0	0	0	11300	1493	52	5	1544	5	OSBPL6	2	179236941	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	39253	179236941	63962432	1199	55030											
OSBPL6	114880	broad.mit.edu	37	chr2	179260240	179260240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgacacctactgggagcttcGaaaggaccctgggtttagca	10	8	12	11	2	0	0	0	0	0	0	1	4	0	2	2	3	3	3	2	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179260240G>A	uc002ulx.2	+	25	3137	c.2759G>A	c.(2758-2760)CGA>CAA	p.R920Q	OSBPL6_uc002uly.2_Missense_Mutation_p.R945Q|OSBPL6_uc010zfe.1_Missense_Mutation_p.R889Q|OSBPL6_uc002ulz.2_Missense_Mutation_p.R884Q|OSBPL6_uc002uma.2_Missense_Mutation_p.R924Q	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	920					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			TGGGAGCTTCGAAAGGACCCT	0.393													31	50					0	0	1	0	0		A	179260240	A	A	179260240	3	1	89	1	0	0	0	0	1	0	0	0	11300	1058	37	1	2971	1	OSBPL6	2	179260240	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23299	179260240	63939133	1200	55031											
TTN	7273	broad.mit.edu	37	chr2	179393423	179393423	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatcatactgacacttgacGattccttccttggttttgct	9	16	6	10	1	1	2	1	2	0	0	3	3	3	2	2	1	2	2	2	1	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179393423G>A	uc010zfg.1	-	309	99575	c.99351C>T	c.(99349-99351)ATC>ATT	p.I33117I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.I26812I|TTN_uc010zfi.1_Silent_p.I26745I|TTN_uc010zfj.1_Silent_p.I26620I|TTN_uc002umq.2_Silent_p.I134I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34044							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GACACTTGACGATTCCTTCCT	0.443													11	18					0	0	1	0	0		A	179393423	A	A	179393423	2	1	89	1	0	0	0	0	0	0	0	1	16761	1048	37	1		1	TTN	2	179393423	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	133183	179393423	63805950	1201	55032											
TTN	7273	broad.mit.edu	37	chr2	179398239	179398239	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcattctgcatttgccagtAaccttttgaacatgggtctt	8	15	9	9	0	2	1	0	1	2	0	2	1	2	1	2	2	4	3	2	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179398239A>C	uc010zfg.1	-	307	95623	c.95399T>G	c.(95398-95400)TTA>TGA	p.L31800*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.L25495*|TTN_uc010zfi.1_Nonsense_Mutation_p.L25428*|TTN_uc010zfj.1_Nonsense_Mutation_p.L25303*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32727							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATTTGCCAGTAACCTTTTGAA	0.458													17	40					0	0	1	0	0		C	179398239	C	C	179398239	4	2	89	1	0	0	0	0	0	1	0	0	16761	372	13	5	4896	5	TTN	2	179398239	Nonsense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4816	179398239	63801134	1202	55033											
TTN	7273	broad.mit.edu	37	chr2	179418747	179418747	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtcactgttttctgtgagTcctgttactttttgtctggt	4	21	9	7	0	3	1	1	1	2	0	4	1	4	1	1	1	1	2	1	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179418747T>C	uc010zfg.1	-	282	81611	c.81387A>G	c.(81385-81387)GGA>GGG	p.G27129G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G20824G|TTN_uc010zfi.1_Silent_p.G20757G|TTN_uc010zfj.1_Silent_p.G20632G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28056							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTCTGTGAGTCCTGTTACTT	0.403													31	102					0	0	1	0	0		C	179418747	C	C	179418747	2	2	89	1	0	0	0	0	0	0	0	1	16761	1654	58	3		3	TTN	2	179418747	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	20508	179418747	63780626	1203	55034											
TTN	7273	broad.mit.edu	37	chr2	179427058	179427058	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttaactgcagctaccctgAagacatactcttctcctgca	10	11	6	14	1	2	2	0	1	2	1	3	2	2	2	2	0	6	4	2	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179427058A>G	uc010zfg.1	-	275	76321	c.76097T>C	c.(76096-76098)TTC>TCC	p.F25366S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.F19061S|TTN_uc010zfi.1_Missense_Mutation_p.F18994S|TTN_uc010zfj.1_Missense_Mutation_p.F18869S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26293							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGCTACCCTGAAGACATACTC	0.428													31	58					0	0	1	0	0		G	179427058	G	G	179427058	3	3	89	1	0	0	0	0	1	0	0	0	16761	246	9	3	24326	3	TTN	2	179427058	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	8311	179427058	63772315	1204	55035											
TTN	7273	broad.mit.edu	37	chr2	179431219	179431219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagttttgaaatttcaaatCgagtgactctcaggccagtc	11	13	9	8	1	2	3	2	3	1	0	5	4	2	3	1	1	0	1	1	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179431219C>T	uc010zfg.1	-	275	72160	c.71936G>A	c.(71935-71937)CGA>CAA	p.R23979Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R17674Q|TTN_uc010zfi.1_Missense_Mutation_p.R17607Q|TTN_uc010zfj.1_Missense_Mutation_p.R17482Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24906							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATTTCAAATCGAGTGACTCT	0.423													53	138					0	0	1	0	0		T	179431219	T	T	179431219	3	4	89	1	0	0	0	0	1	0	0	0	16761	884	31	1	28487	1	TTN	2	179431219	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4161	179431219	63768154	1205	55036											
TTN	7273	broad.mit.edu	37	chr2	179433949	179433949	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcttcacgtttctcaacaAtgtaattttttattttggat	9	20	6	6	1	2	0	2	0	1	0	3	1	2	1	0	2	1	3	0	2	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179433949A>C	uc010zfg.1	-	275	69430	c.69206T>G	c.(69205-69207)ATT>AGT	p.I23069S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I16764S|TTN_uc010zfi.1_Missense_Mutation_p.I16697S|TTN_uc010zfj.1_Missense_Mutation_p.I16572S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23996							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTCTCAACAATGTAATTTTT	0.393													92	205					0	0	1	0	0		C	179433949	C	C	179433949	3	2	89	1	0	0	0	0	1	0	0	0	16761	101	4	5	31217	5	TTN	2	179433949	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2730	179433949	63765424	1206	55037											
TTN	7273	broad.mit.edu	37	chr2	179438397	179438397	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtactatgtaatgatcaatTttggcacctccatcatccag	11	14	6	10	0	2	1	2	1	0	0	4	1	4	1	3	1	1	3	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179438397T>G	uc010zfg.1	-	275	64982	c.64758A>C	c.(64756-64758)AAA>AAC	p.K21586N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K15281N|TTN_uc010zfi.1_Missense_Mutation_p.K15214N|TTN_uc010zfj.1_Missense_Mutation_p.K15089N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22513							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATGATCAATTTTGGCACCTC	0.443													86	170					0	0	1	0	0		G	179438397	G	G	179438397	3	3	89	1	0	0	0	0	1	0	0	0	16761	1838	64	5	35665	5	TTN	2	179438397	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4448	179438397	63760976	1207	55038											
TTN	7273	broad.mit.edu	37	chr2	179438979	179438979	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaggtctctcttttcaacGatataactggtaattttaaa	13	15	7	6	1	3	0	1	0	2	0	4	2	3	1	0	3	2	1	0	3	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179438979G>A	uc010zfg.1	-	275	64400	c.64176C>T	c.(64174-64176)ATC>ATT	p.I21392I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.I15087I|TTN_uc010zfi.1_Silent_p.I15020I|TTN_uc010zfj.1_Silent_p.I14895I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22319							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTTTTCAACGATATAACTGG	0.413													19	51					0	0	1	0	0		A	179438979	A	A	179438979	2	1	89	1	0	0	0	0	0	0	0	1	16761	1048	37	1		1	TTN	2	179438979	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	582	179438979	63760394	1208	55039											
TTN	7273	broad.mit.edu	37	chr2	179442082	179442082	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggttgaagttatctgagTgatatctgatggtctaatgt	9	16	13	3	0	3	4	0	4	3	0	3	4	3	4	0	3	0	2	0	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179442082T>C	uc010zfg.1	-	273	61500	c.61276A>G	c.(61276-61278)ACT>GCT	p.T20426A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T14121A|TTN_uc010zfi.1_Missense_Mutation_p.T14054A|TTN_uc010zfj.1_Missense_Mutation_p.T13929A|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21353							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTTATCTGAGTGATATCTGAT	0.418													19	51					0	0	1	0	0		C	179442082	C	C	179442082	3	2	89	1	0	0	0	0	1	0	0	0	16761	1696	59	3	39155	3	TTN	2	179442082	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3103	179442082	63757291	1209	55040											
TTN	7273	broad.mit.edu	37	chr2	179446661	179446661	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccgagcataagcggccttGgatgcgtcactgggtttgcc	6	10	13	12	3	1	0	1	0	0	0	2	2	2	1	3	3	4	2	3	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179446661G>T	uc010zfg.1	-	264	58955	c.58731C>A	c.(58729-58731)TCC>TCA	p.S19577S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.S13272S|TTN_uc010zfi.1_Silent_p.S13205S|TTN_uc010zfj.1_Silent_p.S13080S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20504							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAGCGGCCTTGGATGCGTCAC	0.438													24	55					1.9806e-07	2.07987e-07	1	1	0		T	179446661	T	T	179446661	2	4	89	1	0	0	0	0	0	0	0	1	16761	1335	47	5		5	TTN	2	179446661	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4579	179446661	63752712	1210	55041											
TTN	7273	broad.mit.edu	37	chr2	179449185	179449185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaactgtttctttccttgCgttcaatcagataaccaata	12	14	5	10	1	3	1	2	0	1	1	4	1	4	1	2	0	3	3	2	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179449185C>T	uc010zfg.1	-	260	57613	c.57389G>A	c.(57388-57390)CGC>CAC	p.R19130H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R12825H|TTN_uc010zfi.1_Missense_Mutation_p.R12758H|TTN_uc010zfj.1_Missense_Mutation_p.R12633H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20057							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTTTCCTTGCGTTCAATCAG	0.443													25	61					0	0	1	0	0		T	179449185	T	T	179449185	3	4	89	1	0	0	0	0	1	0	0	0	16761	768	27	1	43094	1	TTN	2	179449185	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2524	179449185	63750188	1211	55042											
TTN	7273	broad.mit.edu	37	chr2	179469823	179469823	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggaatgctaagctcagtTtttgcctcacttcgggatac	8	14	10	9	1	2	0	2	0	0	0	3	2	2	2	1	2	4	3	1	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179469823T>G	uc010zfg.1	-	229	46601	c.46377A>C	c.(46375-46377)AAA>AAC	p.K15459N	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K9154N|TTN_uc010zfi.1_Missense_Mutation_p.K9087N|TTN_uc010zfj.1_Missense_Mutation_p.K8962N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16386							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAAGCTCAGTTTTTGCCTCAC	0.453													43	84					0	0	1	0	0		G	179469823	G	G	179469823	3	3	89	1	0	0	0	0	1	0	0	0	16761	1838	64	5	53944	5	TTN	2	179469823	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	20638	179469823	63729550	1212	55043											
TTN	7273	broad.mit.edu	37	chr2	179485561	179485561	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgagggtgtagactaggTctttttggagaatgatgtat	9	16	13	3	0	2	4	0	2	2	2	2	5	2	4	0	3	0	2	0	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179485561T>C	uc010zfg.1	-	196	38296	c.38072A>G	c.(38071-38073)GAC>GGC	p.D12691G	TTN_uc010zfh.1_Missense_Mutation_p.D6386G|TTN_uc010zfi.1_Missense_Mutation_p.D6319G|TTN_uc010zfj.1_Missense_Mutation_p.D6194G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13618							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTAGACTAGGTCTTTTTGGAG	0.373													59	125					0	0	1	0	0		C	179485561	C	C	179485561	3	2	89	1	0	0	0	0	1	0	0	0	16761	1667	58	3	62381	3	TTN	2	179485561	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15738	179485561	63713812	1213	55044											
TTN	7273	broad.mit.edu	37	chr2	179485594	179485594	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgtattttgaactatcaAatatagcttcttcatttctg	11	19	5	6	0	4	2	2	2	2	0	4	2	4	2	0	0	2	2	0	0	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179485594A>C	uc010zfg.1	-	196	38263	c.38039T>G	c.(38038-38040)TTT>TGT	p.F12680C	TTN_uc010zfh.1_Missense_Mutation_p.F6375C|TTN_uc010zfi.1_Missense_Mutation_p.F6308C|TTN_uc010zfj.1_Missense_Mutation_p.F6183C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13607							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGAACTATCAAATATAGCTTC	0.398													41	109					0	0	1	0	0		C	179485594	C	C	179485594	3	2	89	1	0	0	0	0	1	0	0	0	16761	14	1	5	62414	5	TTN	2	179485594	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	33	179485594	63713779	1214	55045											
TTN	7273	broad.mit.edu	37	chr2	179495649	179495649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccacactgtgcaggggtCgcaccagtttaatttcccga	8	10	9	14	2	0	0	0	0	0	0	3	1	2	0	4	2	1	3	4	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179495649C>T	uc010zfg.1	-	187	36556	c.36332G>A	c.(36331-36333)CGA>CAA	p.R12111Q	TTN_uc010zfh.1_Missense_Mutation_p.R5806Q|TTN_uc010zfi.1_Missense_Mutation_p.R5739Q|TTN_uc010zfj.1_Missense_Mutation_p.R5614Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13038							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTGCAGGGGTCGCACCAGTTT	0.488													20	56					0	0	1	0	0		T	179495649	T	T	179495649	3	4	89	1	0	0	0	0	1	0	0	0	16761	884	31	1	64157	1	TTN	2	179495649	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10055	179495649	63703724	1215	55046											
TTN	7273	broad.mit.edu	37	chr2	179496966	179496966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaggtctttgaatgtgatcGaatgagttttcccttcgtct	8	16	9	8	2	2	3	0	3	2	0	5	4	3	3	1	1	0	1	1	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179496966G>A	uc010zfg.1	-	185	36175	c.35951C>T	c.(35950-35952)TCG>TTG	p.S11984L	TTN_uc010zfh.1_Missense_Mutation_p.S5679L|TTN_uc010zfi.1_Missense_Mutation_p.S5612L|TTN_uc010zfj.1_Missense_Mutation_p.S5487L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12911							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAATGTGATCGAATGAGTTTT	0.443													5	21					0	0	1	0	0		A	179496966	A	A	179496966	3	1	89	1	0	0	0	0	1	0	0	0	16761	1059	37	1	64546	1	TTN	2	179496966	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1317	179496966	63702407	1216	55047											
TTN	7273	broad.mit.edu	37	chr2	179528389	179528389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaggctctttaggaggaGccactggcgctttcttttca	6	14	10	11	1	4	0	2	0	2	0	4	2	4	2	1	4	1	2	1	4	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179528389G>A	uc010zfk.1	-	16	1483	c.935C>T	c.(934-936)GCT>GTT	p.A312V	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	11524							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTAGGAGGAGCCACTGGCGC	0.393													102	218					0	0	1	0	0		A	179528389	A	A	179528389	3	1	89	1	0	0	0	0	1	0	0	0	16761	986	34	2		2	TTN	2	179528389	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	31423	179528389	63670984	1217	55048											
TTN	7273	broad.mit.edu	37	chr2	179537380	179537381	+	Frame_Shift_Ins	INS	-	T	T																															cctttggctgggggtgcctcINSttttttctgaacaggaacag																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179537380_179537381insT	uc010zfg.1	-	148	31157_31158	c.30933_30934insA	c.(30931-30936)AAAGAGfs	p.K10311fs	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Frame_Shift_Ins_p.K6972fs|TTN_uc010fre.1_Intron|TTN_uc010zfk.1_5'Flank|TTN_uc002una.1_RNA|TTN_uc010frf.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11238_11239							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGGGGTGCCTCTTTTTTCTGAA	0.361													12	25	---	---	---	---						.	T	179537381	T	T	179537380	7	5	89	1	0	1	1	0	0	0	0	0	16761	922	32	0	69711	0	TTN	2	179537380	Frame_Shift_Ins	INS	-	TCGA-BR-8680-01A-11D-2394-08	8991	179537380	63661993	1218	55049											
TTN	7273	broad.mit.edu	37	chr2	179547583	179547583	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgttgtactgaaacagcttCttcttctagggtataagccc	9	13	8	11	1	3	1	0	1	3	0	3	1	3	1	2	1	4	4	2	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179547583C>A	uc010zfg.1	-	132	29427	c.29203G>T	c.(29203-29205)GAA>TAA	p.E9735*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.E6396*|TTN_uc010fre.1_Nonsense_Mutation_p.E582*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10662							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAAACAGCTTCTTCTTCTAGG	0.328													12	43					2.80697e-09	3.01096e-09	1	1	0		A	179547583	A	A	179547583	4	1	89	1	0	0	0	0	0	1	0	0	16761	922	32	5	71506	5	TTN	2	179547583	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10203	179547583	63651790	1219	55050											
TTN	7273	broad.mit.edu	37	chr2	179549099	179549099	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttagttacagcaacaaGaactttttcttcctgggtaa	11	17	6	7	0	1	1	0	0	1	1	2	1	2	1	1	1	4	3	1	1	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179549099G>T	uc010zfg.1	-	129	29172	c.28948C>A	c.(28948-28950)CTT>ATT	p.L9650I	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.L6311I|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10577							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACAGCAACAAGAACTTTTTCT	0.373													12	32					3.27435e-08	3.46512e-08	1	1	0		T	179549099	T	T	179549099	3	4	89	1	0	0	0	0	1	0	0	0	16761	942	33	5	71773	5	TTN	2	179549099	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1516	179549099	63650274	1220	55051											
TTN	7273	broad.mit.edu	37	chr2	179567308	179567308	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttacaatggcatcatcaaaGgacacttcacactcaaaggt	15	9	7	10	0	4	0	4	0	0	0	4	1	4	1	0	3	1	2	0	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179567308G>T	uc010zfg.1	-	104	26798	c.26574C>A	c.(26572-26574)TCC>TCA	p.S8858S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.S5519S|TTN_uc010fre.1_5'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9785							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATCATCAAAGGACACTTCAC	0.438													52	99					4.01344e-20	4.73134e-20	1	1	0		T	179567308	T	T	179567308	2	4	89	1	0	0	0	0	0	0	0	1	16761	987	35	5		5	TTN	2	179567308	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	18209	179567308	63632065	1221	55052											
TTN	7273	broad.mit.edu	37	chr2	179569059	179569059	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattttacatttggtacaGaaaattggcatgtcatggtg	12	14	10	5	0	1	2	1	0	0	2	1	2	1	2	0	3	2	2	0	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179569059G>T	uc010zfg.1	-	103	26530	c.26306C>A	c.(26305-26307)TCT>TAT	p.S8769Y	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S5430Y	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9696							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATTTGGTACAGAAAATTGGCA	0.423													62	96					1.22119e-34	1.50504e-34	1	1	0		T	179569059	T	T	179569059	3	4	89	1	0	0	0	0	1	0	0	0	16761	942	33	5	74519	5	TTN	2	179569059	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1751	179569059	63630314	1222	55053											
TTN	7273	broad.mit.edu	37	chr2	179575894	179575894	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttttaaaaatattgagtgTggctgtattgtctaaaaatg	14	16	9	2	0	1	1	0	1	1	0	1	1	1	1	0	1	0	3	0	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179575894T>C	uc010zfg.1	-	94	24561	c.24337A>G	c.(24337-24339)ACA>GCA	p.T8113A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T4774A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9040							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATATTGAGTGTGGCTGTATTG	0.443													52	115					0	0	1	0	0		C	179575894	C	C	179575894	3	2	89	1	0	0	0	0	1	0	0	0	16761	1696	59	3	76524	3	TTN	2	179575894	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6835	179575894	63623479	1223	55054											
TTN	7273	broad.mit.edu	37	chr2	179579257	179579257	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctgaacttctttaccaacGacagtagatatgtcactgag	13	11	8	9	1	2	3	1	2	1	1	2	4	2	3	1	0	4	2	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179579257G>A	uc010zfg.1	-	88	22736	c.22512C>T	c.(22510-22512)GTC>GTT	p.V7504V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.V4165V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8431							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTTACCAACGACAGTAGATA	0.423													17	30					0	0	1	0	0		A	179579257	A	A	179579257	2	1	89	1	0	0	0	0	0	0	0	1	16761	1045	37	1		1	TTN	2	179579257	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3363	179579257	63620116	1224	55055											
TTN	7273	broad.mit.edu	37	chr2	179581897	179581897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaggtgtactgcccggcatCgcctttgcctactttgagaa	7	11	11	12	2	0	1	0	1	0	1	1	2	0	1	3	2	4	3	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179581897C>T	uc010zfg.1	-	85	22056	c.21832G>A	c.(21832-21834)GAT>AAT	p.D7278N	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.D3939N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8205							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGCCCGGCATCGCCTTTGCCT	0.488													18	40					0	0	1	0	0		T	179581897	T	T	179581897	3	4	89	1	0	0	0	0	1	0	0	0	16761	884	31	1	79065	1	TTN	2	179581897	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2640	179581897	63617476	1225	55056											
TTN	7273	broad.mit.edu	37	chr2	179589096	179589096	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaatccttaaggaagaGattttgttgtagaagctaaa	16	11	11	3	0	0	3	0	0	0	3	1	7	1	4	1	1	1	3	1	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179589096G>T	uc010zfg.1	-	69	17498	c.17274C>A	c.(17272-17274)ATC>ATA	p.I5758I	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.I2419I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6685							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTAAGGAAGAGATTTTGTTGT	0.443													7	45					5.18039e-06	5.37459e-06	1	1	0		T	179589096	T	T	179589096	2	4	89	1	0	0	0	0	0	0	0	1	16761	932	33	5		5	TTN	2	179589096	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7199	179589096	63610277	1226	55057											
TTN	7273	broad.mit.edu	37	chr2	179593390	179593390	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaactatttgtttcccGtctttaagccatttcacttt	7	18	6	10	1	2	0	1	0	1	0	3	1	3	1	2	1	2	1	2	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179593390G>T	uc010zfg.1	-	63	15755	c.15531C>A	c.(15529-15531)GAC>GAA	p.D5177E	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.D1838E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6104							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTGTTTCCCGTCTTTAAGCC	0.403													21	30					1.00905e-13	1.13002e-13	1	1	0		T	179593390	T	T	179593390	3	4	89	1	0	0	0	0	1	0	0	0	16761	1136	40	5	85454	5	TTN	2	179593390	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4294	179593390	63605983	1227	55058											
TTN	7273	broad.mit.edu	37	chr2	179596150	179596150	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacaaactggccacattgttCtcaaaggtcattcttatatt	12	15	5	9	0	3	0	2	0	2	0	4	0	3	0	1	2	2	1	1	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179596150C>T	uc010zfg.1	-	56	13835	c.13611G>A	c.(13609-13611)GAG>GAA	p.E4537E	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.E1198E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5464							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCACATTGTTCTCAAAGGTCA	0.438													75	121					0	0	1	0	0		T	179596150	T	T	179596150	2	4	89	1	0	0	0	0	0	0	0	1	16761	912	32	4		4	TTN	2	179596150	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2760	179596150	63603223	1228	55059											
TTN	7273	broad.mit.edu	37	chr2	179605416	179605416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcacttgggaagattttctCggtatctgatagaactgcct	9	13	11	8	1	2	3	0	1	2	2	3	4	2	4	1	3	2	2	1	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179605416C>T	uc010zfh.1	-	46	12255	c.12031G>A	c.(12031-12033)GAG>AAG	p.E4011K	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.E3944K|TTN_uc010zfj.1_Missense_Mutation_p.E3819K|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	3939							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAGATTTTCTCGGTATCTGAT	0.413													38	58					0	0	1	0	0		T	179605416	T	T	179605416	3	4	89	1	0	0	0	0	1	0	0	0	16761	893	31	1	92245	1	TTN	2	179605416	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9266	179605416	63593957	1229	55060											
TTN	7273	broad.mit.edu	37	chr2	179606118	179606118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaagcccttgagcacagcGaattggttttaactccttaa	12	11	9	9	1	0	1	0	1	0	0	1	3	1	2	2	2	4	2	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179606118G>A	uc010zfh.1	-	46	11553	c.11329C>T	c.(11329-11331)CGC>TGC	p.R3777C	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.R3710C|TTN_uc010zfj.1_Missense_Mutation_p.R3585C|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGAGCACAGCGAATTGGTTTT	0.483													81	121					0	0	1	0	0		A	179606118	A	A	179606118	3	1	89	1	0	0	0	0	1	0	0	0	16761	1058	37	1	92947	1	TTN	2	179606118	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	702	179606118	63593255	1230	55061											
TTN	7273	broad.mit.edu	37	chr2	179606407	179606407	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccattaaagaaccactgAattttaggtttggggatgcc	12	12	9	8	0	0	2	0	1	0	1	1	3	1	3	3	3	2	1	3	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179606407A>C	uc010zfh.1	-	46	11264	c.11040T>G	c.(11038-11040)ATT>ATG	p.I3680M	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.I3613M|TTN_uc010zfj.1_Missense_Mutation_p.I3488M|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGAACCACTGAATTTTAGGTT	0.413													38	71					0	0	1	0	0		C	179606407	C	C	179606407	3	2	89	1	0	0	0	0	1	0	0	0	16761	242	9	5	93236	5	TTN	2	179606407	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	289	179606407	63592966	1231	55062											
TTN	7273	broad.mit.edu	37	chr2	179610839	179610839	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgacttcccttctcctcgcTaatcacgtatttaatattat	9	17	4	11	2	2	1	1	1	1	0	5	1	3	1	2	0	0	2	2	0	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179610839T>C	uc002unb.2	-	46	16512	c.16288A>G	c.(16288-16290)AGC>GGC	p.S5430G	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCTCCTCGCTAATCACGTAT	0.393													43	134					0	0	1	0	0		C	179610839	C	C	179610839	3	2	89	1	0	0	0	0	1	0	0	0	16761	1522	53	3	94009	3	TTN	2	179610839	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4432	179610839	63588534	1232	55063											
TTN	7273	broad.mit.edu	37	chr2	179613827	179613827	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacaatggcagatgaatcttTtgtattgtaactgtcagaaa	14	14	8	5	0	2	3	1	1	1	2	2	3	2	3	0	1	2	3	0	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179613827T>G	uc002unb.2	-	46	13524	c.13300A>C	c.(13300-13302)AAA>CAA	p.K4434Q	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GATGAATCTTTTGTATTGTAA	0.343													36	57					0	0	1	0	0		G	179613827	G	G	179613827	3	3	89	1	0	0	0	0	1	0	0	0	16761	1850	64	5	96997	5	TTN	2	179613827	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2988	179613827	63585546	1233	55064											
TTN	7273	broad.mit.edu	37	chr2	179632515	179632515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttttaatacttcggatgcGaacatctctgccttctacaa	10	15	5	11	2	2	0	0	0	2	0	4	2	2	1	1	1	5	0	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179632515G>A	uc010zfg.1	-	40	9666	c.9442C>T	c.(9442-9444)CGC>TGC	p.R3148C	TTN_uc010zfh.1_Missense_Mutation_p.R3102C|TTN_uc010zfi.1_Missense_Mutation_p.R3102C|TTN_uc010zfj.1_Missense_Mutation_p.R3102C|TTN_uc002unb.2_Missense_Mutation_p.R3148C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3148							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTCGGATGCGAACATCTCTG	0.398													51	110					0	0	1	0	0		A	179632515	A	A	179632515	3	1	89	1	0	0	0	0	1	0	0	0	16761	1058	37	1	101838	1	TTN	2	179632515	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	18688	179632515	63566858	1234	55065											
TTN	7273	broad.mit.edu	37	chr2	179638812	179638812	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactttttggtcactaagTccttgtaggatagcaatggg	10	13	11	7	0	1	1	1	0	0	1	2	2	2	2	1	3	1	2	1	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179638812T>C	uc010zfg.1	-	31	7307	c.7083A>G	c.(7081-7083)GGA>GGG	p.G2361G	TTN_uc010zfh.1_Silent_p.G2315G|TTN_uc010zfi.1_Silent_p.G2315G|TTN_uc010zfj.1_Silent_p.G2315G|TTN_uc002unb.2_Silent_p.G2361G|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2361							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGTCACTAAGTCCTTGTAGGA	0.428													31	81					0	0	1	0	0		C	179638812	C	C	179638812	2	2	89	1	0	0	0	0	0	0	0	1	16761	1654	58	3		3	TTN	2	179638812	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6297	179638812	63560561	1235	55066											
TTN	7273	broad.mit.edu	37	chr2	179643841	179643841	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttgccatctttgtaccaaGcaatctgcaaagaataccat	13	11	6	11	0	2	1	0	0	2	1	2	1	2	1	3	0	5	4	3	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179643841G>T	uc010zfg.1	-	24	4192	c.3968C>A	c.(3967-3969)GCT>GAT	p.A1323D	TTN_uc010zfh.1_Missense_Mutation_p.A1277D|TTN_uc010zfi.1_Missense_Mutation_p.A1277D|TTN_uc010zfj.1_Missense_Mutation_p.A1277D|TTN_uc002unb.2_Missense_Mutation_p.A1323D|uc002unc.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1323							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTGTACCAAGCAATCTGCAA	0.358													14	40					0.000151284	0.000154703	1	1	0		T	179643841	T	T	179643841	3	4	89	1	0	0	0	0	1	0	0	0	16761	971	34	5	107376	5	TTN	2	179643841	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5029	179643841	63555532	1236	55067											
TTN	7273	broad.mit.edu	37	chr2	179647545	179647545	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccactaaccctgcacagccaGatagcaggatgtgctgacgg	11	6	11	13	1	0	2	0	1	0	1	0	3	0	3	3	2	5	3	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179647545G>A	uc010zfg.1	-	18	3312	c.3088C>T	c.(3088-3090)CTG>TTG	p.L1030L	TTN_uc010zfh.1_Silent_p.L984L|TTN_uc010zfi.1_Silent_p.L984L|TTN_uc010zfj.1_Silent_p.L984L|TTN_uc002unb.2_Silent_p.L1030L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1030							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGCACAGCCAGATAGCAGGAT	0.498													22	39					0	0	1	0	0		A	179647545	A	A	179647545	2	1	89	1	0	0	0	0	0	0	0	1	16761	933	33	4		4	TTN	2	179647545	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3704	179647545	63551828	1237	55068											
CCDC141	285025	broad.mit.edu	37	chr2	179701651	179701651	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggctctggaaatcctgttActtcaacttccaaagtcact	11	13	6	11	0	3	0	2	0	1	0	5	1	5	1	2	2	2	2	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:179701651A>G	uc002unf.1	-	13	2627	c.2570T>C	c.(2569-2571)GTA>GCA	p.V857A	CCDC141_uc002une.1_Missense_Mutation_p.V307A	NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	857	Ig-like.						protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			AAATCCTGTTACTTCAACTTC	0.448													21	60					0	0	1	0	0		G	179701651	G	G	179701651	3	3	89	1	0	0	0	0	1	0	0	0	2778	391	14	3	61	3	CCDC141	2	179701651	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	54106	179701651	63497722	1238	55069											
ZNF385B	151126	broad.mit.edu	37	chr2	180348096	180348096	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accattttgggtttatttttCgttgcgtctagtgctttgac	5	20	9	7	2	1	1	0	1	1	0	2	1	1	1	1	1	2	3	1	1	2	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:180348096C>T	uc002unn.3	-	6	1177	c.573G>A	c.(571-573)ACG>ACA	p.T191T	ZNF385B_uc002unj.2_Silent_p.T89T|ZNF385B_uc002unk.2_RNA|ZNF385B_uc002unl.2_Silent_p.T88T|ZNF385B_uc002unm.2_Silent_p.T115T	NM_152520	NP_689733	Q569K4	Z385B_HUMAN	zinc finger protein 385B isoform 1	191						nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			GTTTATTTTTCGTTGCGTCTA	0.468													21	55					0	0	1	0	0		T	180348096	T	T	180348096	2	4	89	1	0	0	0	0	0	0	0	1	17902	871	31	1		1	ZNF385B	2	180348096	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	646445	180348096	62851277	1239	55070											
CWC22	57703	broad.mit.edu	37	chr2	180810175	180810175	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcatttcttggtctctgTcattcgcaactctactgtag	7	17	7	10	1	4	0	1	0	3	0	6	0	4	0	0	1	3	3	0	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:180810175T>C	uc010frh.1	-	20	2708	c.2408A>G	c.(2407-2409)GAC>GGC	p.D803G	CWC22_uc002uno.2_Missense_Mutation_p.D325G|CWC22_uc002unp.2_Missense_Mutation_p.D803G	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	803						catalytic step 2 spliceosome	protein binding|RNA binding				0						TTGGTCTCTGTCATTCGCAAC	0.353													70	152					0	0	1	0	0		C	180810175	C	C	180810175	3	2	89	1	0	0	0	0	1	0	0	0	4071	1667	58	3	322	3	CWC22	2	180810175	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	462079	180810175	62389198	1240	55071											
ZNF804A	91752	broad.mit.edu	37	chr2	185801356	185801356	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaggttaacataactatAcataagaaaacaaatttctg	20	10	6	5	0	1	2	0	0	1	2	1	3	1	2	0	1	4	1	0	1	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:185801356A>G	uc002uph.2	+	4	1827	c.1233A>G	c.(1231-1233)ATA>ATG	p.I411M		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	411						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						ACATAACTATACATAAGAAAA	0.383													40	104					0	0	1	0	0		G	185801356	G	G	185801356	3	3	89	1	0	0	0	0	1	0	0	0	18195	381	14	3	1247	3	ZNF804A	2	185801356	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4991181	185801356	57398017	1241	55072											
FAM171B	165215	broad.mit.edu	37	chr2	187626873	187626873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cacagcccccagatgccaggGaagaggatatcatacttgaa	14	6	10	11	0	1	3	1	1	0	2	1	5	1	5	3	2	3	0	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:187626873G>A	uc002ups.2	+	8	1916	c.1804G>A	c.(1804-1806)GAA>AAA	p.E602K	FAM171B_uc002upr.1_Missense_Mutation_p.E569K|FAM171B_uc002upt.2_Missense_Mutation_p.E71K	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	602	Cytoplasmic (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						AGATGCCAGGGAAGAGGATAT	0.493													37	45					0	0	1	0	0		A	187626873	A	A	187626873	3	1	89	1	0	0	0	0	1	0	0	0	5502	1175	41	4	1834	4	FAM171B	2	187626873	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1825517	187626873	55572500	1242	55073											
ZSWIM2	151112	broad.mit.edu	37	chr2	187693422	187693422	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttgtccattcactgctgaAtttttccaagttaaagggtt	9	16	8	8	0	1	1	1	1	0	0	3	1	3	1	2	1	1	4	2	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:187693422A>G	uc002upu.1	-	9	1231	c.1191T>C	c.(1189-1191)AAT>AAC	p.N397N		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	397					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			TCACTGCTGAATTTTTCCAAG	0.363													14	40					0	0	1	0	0		G	187693422	G	G	187693422	2	3	89	1	0	0	0	0	0	0	0	1	18266	98	4	3		3	ZSWIM2	2	187693422	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	66549	187693422	55505951	1243	55074											
COL5A2	1290	broad.mit.edu	37	chr2	189899735	189899735	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttgagaaccacagctttTttgaggttcttagcttgatc	8	16	8	9	0	1	3	0	3	1	1	2	4	1	3	2	1	3	3	2	1	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:189899735T>G	uc002uqk.2	-	53	4535	c.4260A>C	c.(4258-4260)AAA>AAC	p.K1420N	COL5A2_uc010frx.2_Missense_Mutation_p.K996N	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	1420	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			CCACAGCTTTTTTGAGGTTCT	0.388													38	86					0	0	1	0	0		G	189899735	G	G	189899735	3	3	89	1	0	0	0	0	1	0	0	0	3700	1838	64	5	247	5	COL5A2	2	189899735	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2206313	189899735	53299638	1244	55075											
ANKAR	150709	broad.mit.edu	37	chr2	190602514	190602514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taatgaccatatctatttttGaacgttttcttgaatcaaca	13	17	4	7	1	3	3	1	3	2	0	3	3	3	3	1	0	2	1	1	0	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:190602514G>A	uc002uqw.1	+	17	3316	c.3316G>A	c.(3316-3318)GAA>AAA	p.E1106K	ANKAR_uc002uqu.2_RNA|ANKAR_uc002uqx.1_RNA|ANKAR_uc002uqy.1_Missense_Mutation_p.E273K	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	1177						integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			ATCTATTTTTGAACGTTTTCT	0.313													12	31					0	0	1	0	0		A	190602514	A	A	190602514	3	1	89	1	0	0	0	0	1	0	0	0	623	1291	45	4	3595	4	ANKAR	2	190602514	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	702779	190602514	52596859	1245	55076											
ANKAR	150709	broad.mit.edu	37	chr2	190611312	190611312	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtttgaaccaacttgggAaacatgtccagaaagccaac	14	9	9	9	0	0	2	0	1	0	1	1	3	1	3	3	1	5	1	3	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:190611312A>G	uc002uqw.1	+	22	4051	c.4051A>G	c.(4051-4053)AAA>GAA	p.K1351E	ANKAR_uc002uqu.2_RNA|ANKAR_uc002uqx.1_RNA|ANKAR_uc002uqy.1_3'UTR	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	1422						integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			CCAACTTGGGAAACATGTCCA	0.328													31	36					0	0	1	0	0		G	190611312	G	G	190611312	3	3	89	1	0	0	0	0	1	0	0	0	623	247	9	3	4350	3	ANKAR	2	190611312	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	8798	190611312	52588061	1246	55077											
ORMDL1	94101	broad.mit.edu	37	chr2	190647161	190647161	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttaccagattatgtataAtatttgttaaagtccaagca	14	16	5	6	0	1	1	0	0	1	1	2	1	2	1	2	0	2	3	2	0	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:190647161A>C	uc002urb.3	-	1	948	c.161T>G	c.(160-162)ATT>AGT	p.I54S	PMS1_uc010zga.1_5'Flank|PMS1_uc010zgb.1_5'Flank|PMS1_uc002urh.3_5'Flank|PMS1_uc002urk.3_5'Flank|PMS1_uc002uri.3_5'Flank|PMS1_uc010zgc.1_5'Flank|PMS1_uc010zgd.1_5'Flank|PMS1_uc002urj.2_5'Flank|ORMDL1_uc002urc.3_Missense_Mutation_p.I54S|ORMDL1_uc002urd.3_Missense_Mutation_p.I54S|ORMDL1_uc002ure.3_Missense_Mutation_p.I54S|ORMDL1_uc002urf.3_Missense_Mutation_p.I54S|PMS1_uc010zfz.1_5'Flank	NM_016467	NP_057551	Q9P0S3	ORML1_HUMAN	ORM1-like 1	54					ceramide metabolic process	endoplasmic reticulum membrane|integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(117;0.00177)|Epithelial(96;0.0317)|all cancers(119;0.0889)			ATTATGTATAATATTTGTTAA	0.269													14	21					0	0	1	0	0		C	190647161	C	C	190647161	3	2	89	1	0	0	0	0	1	0	0	0	11288	101	4	5	312	5	ORMDL1	2	190647161	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	35849	190647161	52552212	1247	55078											
GLS	2744	broad.mit.edu	37	chr2	191759964	191759964	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagaaaatacctgttcataAatttattacagtaagttttt	16	16	5	4	0	1	1	1	0	0	1	1	2	1	1	1	0	2	3	1	0	8	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:191759964A>C	uc002usf.2	+	2	737	c.473A>C	c.(472-474)AAA>ACA	p.K158T	GLS_uc002usd.2_Missense_Mutation_p.K158T|GLS_uc002use.2_Missense_Mutation_p.K158T	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	158					cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CCTGTTCATAAATTTATTACA	0.239													30	61					0	0	1	0	0		C	191759964	C	C	191759964	3	2	89	1	0	0	0	0	1	0	0	0	6478	14	1	5	479	5	GLS	2	191759964	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1112803	191759964	51439409	1248	55079											
MYO1B	4430	broad.mit.edu	37	chr2	192255065	192255065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacacatcttcaacgaggCtctagtgtgtcatcagatca	12	10	8	11	1	6	1	4	0	2	1	6	2	6	1	0	1	2	2	0	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:192255065C>T	uc010fsg.2	+	18	2084	c.1829C>T	c.(1828-1830)GCT>GTT	p.A610V	MYO1B_uc002usq.2_Missense_Mutation_p.A610V|MYO1B_uc002usr.2_Missense_Mutation_p.A610V|MYO1B_uc002usu.2_5'Flank	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	610	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			TTCAACGAGGCTCTAGTGTGT	0.458													17	123					0	0	1	0	0		T	192255065	T	T	192255065	3	4	89	1	0	0	0	0	1	0	0	0	10087	797	28	2	1895	2	MYO1B	2	192255065	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	495101	192255065	50944308	1249	55080											
SLC39A10	57181	broad.mit.edu	37	chr2	196544962	196544962	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaaaaatactatattgaaAaactttttgagcgttatggt	18	14	6	3	1	0	2	0	2	0	0	0	2	0	2	0	1	3	1	0	1	10	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:196544962A>C	uc002utg.3	+	2	410	c.196A>C	c.(196-198)AAA>CAA	p.K66Q	SLC39A10_uc002uth.3_Missense_Mutation_p.K66Q|SLC39A10_uc010zgp.1_Intron	NM_001127257	NP_001120729	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter),	66					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.221)			CTATATTGAAAAACTTTTTGA	0.368													27	66					0	0	1	0	0		C	196544962	C	C	196544962	3	2	89	1	0	0	0	0	1	0	0	0	14638	15	1	5	198	5	SLC39A10	2	196544962	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4289897	196544962	46654411	1250	55081											
DNAH7	56171	broad.mit.edu	37	chr2	196722258	196722258	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtccttgtcatattcatGaagtgactgcagaaacctca	12	13	7	9	0	3	3	3	2	0	1	4	3	4	3	2	0	2	1	2	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:196722258G>T	uc002utj.3	-	44	8358	c.8257C>A	c.(8257-8259)CAT>AAT	p.H2753N		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2753	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TCATATTCATGAAGTGACTGC	0.373													6	90					0.0293803	0.0295462	1	1	0		T	196722258	T	T	196722258	3	4	89	1	0	0	0	0	1	0	0	0	4612	1290	45	5	3905	5	DNAH7	2	196722258	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	177296	196722258	46477115	1251	55082											
STK17B	9262	broad.mit.edu	37	chr2	197002222	197002222	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggattgggtaatgagtcatcGaaacgaaatcttttggaaac	14	11	11	5	2	2	1	1	1	1	0	3	5	2	3	0	3	2	1	0	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:197002222G>A	uc002utk.2	-	8	1392	c.1068C>T	c.(1066-1068)TTC>TTT	p.F356F	STK17B_uc010fsh.2_Silent_p.F356F	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	356					apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			ATGAGTCATCGAAACGAAATC	0.378													36	86					0	0	1	0	0		A	197002222	A	A	197002222	2	1	89	1	0	0	0	0	0	0	0	1	15316	1049	37	1		1	STK17B	2	197002222	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	279964	197002222	46197151	1252	55083											
STK17B	9262	broad.mit.edu	37	chr2	197002332	197002332	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtcttgtcttcagaggAccttacagaatgatcctgag	12	11	10	8	0	3	5	1	2	2	3	4	6	4	6	2	1	1	0	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:197002332A>G	uc002utk.2	-	8	1282	c.958T>C	c.(958-960)TCC>CCC	p.S320P	STK17B_uc010fsh.2_Missense_Mutation_p.S320P	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	320					apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			TCTTCAGAGGACCTTACAGAA	0.428													41	64					0	0	1	0	0		G	197002332	G	G	197002332	3	3	89	1	0	0	0	0	1	0	0	0	15316	275	10	3	164	3	STK17B	2	197002332	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	110	197002332	46197041	1253	55084											
HECW2	57520	broad.mit.edu	37	chr2	197105219	197105219	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcttatttctctgcaggtCttttctggagtagcccataa	8	16	8	9	0	3	0	0	0	3	0	4	1	3	1	1	2	3	3	1	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:197105219C>A	uc002utm.1	-	21	3901	c.3718G>T	c.(3718-3720)GAC>TAC	p.D1240Y	HECW2_uc002utl.1_Missense_Mutation_p.D884Y	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	1240	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						CTCTGCAGGTCTTTTCTGGAG	0.423													39	70					6.48837e-15	7.35576e-15	1	1	0		A	197105219	A	A	197105219	3	1	89	1	0	0	0	0	1	0	0	0	7059	913	32	5	1036	5	HECW2	2	197105219	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	102887	197105219	46094154	1254	55085											
PGAP1	80055	broad.mit.edu	37	chr2	197729765	197729765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaagaaggatattagataCgacataagcaggaagagctc	18	6	11	6	1	0	3	0	0	0	3	1	6	0	5	0	2	4	3	0	2	7	4	rs139880907		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:197729765C>T	uc002utw.2	-	20	1921	c.1807G>A	c.(1807-1809)GTA>ATA	p.V603I	PGAP1_uc002utx.2_Missense_Mutation_p.V429I|PGAP1_uc002uty.1_Intron	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	603	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						ATATTAGATACGACATAAGCA	0.318													16	43					0	0	1	0	0		T	197729765	T	T	197729765	3	4	89	1	0	0	0	0	1	0	0	0	11796	536	19	1	993	1	PGAP1	2	197729765	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	624546	197729765	45469608	1255	55086											
ANKRD44	91526	broad.mit.edu	37	chr2	197986245	197986245	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgatgtgaagcgctgtattTccatagacattgatttcatc	10	14	9	8	2	1	3	1	2	0	1	3	4	2	3	1	0	1	2	1	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:197986245T>C	uc002uuc.2	-	8	884	c.717A>G	c.(715-717)GGA>GGG	p.G239G	ANKRD44_uc002utz.3_5'UTR|ANKRD44_uc002uua.1_Silent_p.G214G|ANKRD44_uc002uub.2_Silent_p.G239G|ANKRD44_uc010zgw.1_Silent_p.G167G	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	239	ANK 8.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GCGCTGTATTTCCATAGACAT	0.428													17	33					0	0	1	0	0		C	197986245	C	C	197986245	2	2	89	1	0	0	0	0	0	0	0	1	672	1770	62	3		3	ANKRD44	2	197986245	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	256480	197986245	45213128	1256	55087											
RFTN2	130132	broad.mit.edu	37	chr2	198511371	198511371	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattgaatttatcttgatGacttctgggtttgatgaagc	11	16	10	4	0	2	6	0	5	2	1	2	6	2	6	0	1	1	1	0	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:198511371G>T	uc002uuo.3	-	2	561	c.159C>A	c.(157-159)GTC>GTA	p.V53V		NM_144629	NP_653230	Q52LD8	RFTN2_HUMAN	raftlin family member 2	53						plasma membrane					0						TTATCTTGATGACTTCTGGGT	0.308													10	33					7.48243e-07	7.81738e-07	1	1	0		T	198511371	T	T	198511371	2	4	89	1	0	0	0	0	0	0	0	1	13284	1277	45	5		5	RFTN2	2	198511371	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	525126	198511371	44688002	1257	55088											
RFTN2	130132	broad.mit.edu	37	chr2	198540074	198540074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaatccagcaatacatattCgtaagcaaattctgtctttg	15	13	5	8	1	2	0	0	0	2	0	4	0	3	0	1	0	3	3	1	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:198540074C>T	uc002uuo.3	-	1	511	c.109G>A	c.(109-111)GAA>AAA	p.E37K		NM_144629	NP_653230	Q52LD8	RFTN2_HUMAN	raftlin family member 2	37						plasma membrane					0						AATACATATTCGTAAGCAAAT	0.363													44	101					0	0	1	0	0		T	198540074	T	T	198540074	3	4	89	1	0	0	0	0	1	0	0	0	13284	893	31	1	1432	1	RFTN2	2	198540074	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28703	198540074	44659299	1258	55089											
C2orf69	205327	broad.mit.edu	37	chr2	200789803	200789803	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattaccatgaaattatgActcgtcatcctgagaattat	15	13	6	7	1	1	4	1	3	0	2	3	5	2	4	2	0	1	0	2	0	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:200789803A>G	uc010zhb.1	+	2	535	c.352A>G	c.(352-354)ACT>GCT	p.T118A		NM_153689	NP_710156	Q8N8R5	CB069_HUMAN	hypothetical protein LOC205327 precursor	118						extracellular region				central_nervous_system(1)	1						TGAAATTATGACTCGTCATCC	0.303													13	19					0	0	1	0	0		G	200789803	G	G	200789803	3	3	89	1	0	0	0	0	1	0	0	0	2191	275	10	3	358	3	C2orf69	2	200789803	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2249729	200789803	42409570	1259	55090											
C2orf60	129450	broad.mit.edu	37	chr2	200797994	200797994	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggaaggtgcttccaaaaGatattcactcccactccaaa	14	9	7	11	0	1	1	1	0	0	1	4	3	4	2	3	2	1	1	3	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:200797994G>T	uc002uvi.3	-	8	1010	c.744C>A	c.(742-744)ATC>ATA	p.I248I	C2orf60_uc002uvj.3_Silent_p.I85I|C2orf60_uc002uvk.3_RNA|C2orf60_uc010fss.2_Silent_p.I85I	NM_001039693	NP_001034782	A2RUC4	TYW5_HUMAN	hypothetical protein LOC129450	248	JmjC.				wybutosine biosynthetic process		iron ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein homodimerization activity|tRNA binding				0						GCTTCCAAAAGATATTCACTC	0.353													38	52					1.96642e-18	2.29832e-18	1	1	0		T	200797994	T	T	200797994	2	4	89	1	0	0	0	0	0	0	0	1	2182	932	33	5		5	C2orf60	2	200797994	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8191	200797994	42401379	1260	55091											
SGOL2	151246	broad.mit.edu	37	chr2	201436553	201436553	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtaataaaaaggagaaaaGaataacaaatgagcaagagg	23	5	11	2	0	0	4	0	1	0	3	0	5	0	4	0	2	2	2	0	2	10	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:201436553G>T	uc002uvw.2	+	7	1597	c.1484G>T	c.(1483-1485)AGA>ATA	p.R495I	SGOL2_uc010zhd.1_Missense_Mutation_p.R495I|SGOL2_uc010zhe.1_Missense_Mutation_p.R495I	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	495					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						AAGGAGAAAAGAATAACAAAT	0.368													68	135					4.67498e-28	5.68127e-28	1	1	0		T	201436553	T	T	201436553	3	4	89	1	0	0	0	0	1	0	0	0	14242	942	33	5	1506	5	SGOL2	2	201436553	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	638559	201436553	41762820	1261	55092											
AOX1	316	broad.mit.edu	37	chr2	201467062	201467062	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgatgcatgcaagactttCtgtaaagtaagtggaaagga	15	11	11	4	0	1	2	0	1	1	1	1	4	1	4	0	2	2	4	0	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:201467062C>T	uc002uvx.2	+	6	593	c.492C>T	c.(490-492)TTC>TTT	p.F164F		NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	164					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	GCAAGACTTTCTGTAAAGTAA	0.453													25	60					0	0	1	0	0		T	201467062	T	T	201467062	2	4	89	1	0	0	0	0	0	0	0	1	729	912	32	4		4	AOX1	2	201467062	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30509	201467062	41732311	1262	55093											
AOX1	316	broad.mit.edu	37	chr2	201477409	201477409	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcaattcaggaatgagagtCttttttggagaaggggatgg	11	12	15	3	0	3	2	2	1	1	2	3	6	3	4	0	5	0	0	0	5	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:201477409C>T	uc002uvx.2	+	14	1442	c.1341C>T	c.(1339-1341)GTC>GTT	p.V447V	AOX1_uc010zhf.1_Silent_p.V3V|AOX1_uc010fsu.2_5'UTR	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	447					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	GAATGAGAGTCTTTTTTGGAG	0.473													35	78					0	0	1	0	0		T	201477409	T	T	201477409	2	4	89	1	0	0	0	0	0	0	0	1	729	900	32	4		4	AOX1	2	201477409	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10347	201477409	41721964	1263	55094											
FZD7	8324	broad.mit.edu	37	chr2	202900702	202900702	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttcttgctggccggcttCgtgtccctcttccgtatccg	1	15	9	16	4	2	0	0	0	2	0	7	0	6	0	5	2	1	3	5	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:202900702C>T	uc002uyw.1	+	1	1393	c.1332C>T	c.(1330-1332)TTC>TTT	p.F444F		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	444	Helical; Name=5; (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(2)|ovary(1)|breast(1)	4						TGGCCGGCTTCGTGTCCCTCT	0.607											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	59					0	0	1	0	0		T	202900702	T	T	202900702	2	4	89	1	0	0	0	0	0	0	0	1	6149	883	31	1		1	FZD7	2	202900702	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1423293	202900702	40298671	1264	55095											
BMPR2	659	broad.mit.edu	37	chr2	203329536	203329536	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttcctttattttagcttcGcagaatcaagaacggctatg	11	15	7	8	2	1	2	1	0	0	2	3	2	2	2	1	1	2	3	1	1	6	7	rs147207234	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:203329536G>A	uc002uzf.3	+	2	1229	c.81G>A	c.(79-81)TCG>TCA	p.S27S	BMPR2_uc010ftr.2_Silent_p.S27S|BMPR2_uc002uze.2_Silent_p.S27S	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	27	Extracellular (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						TTTTAGCTTCGCAGAATCAAG	0.313													28	69					0	0	1	0	0		A	203329536	A	A	203329536	2	1	89	1	0	0	0	0	0	0	0	1	1472	1074	38	1		1	BMPR2	2	203329536	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	428834	203329536	39869837	1265	55096											
WDR12	55759	broad.mit.edu	37	chr2	203749137	203749137	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaaagttgacttaagactgCcagactcaacatcccacact	14	8	5	14	0	1	3	1	1	0	2	2	3	2	3	3	0	2	1	3	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:203749137C>T	uc002uzl.2	-	9	1613	c.863G>A	c.(862-864)GGC>GAC	p.G288D	WDR12_uc010ftt.2_Missense_Mutation_p.G288D	NM_018256	NP_060726	Q9GZL7	WDR12_HUMAN	WD repeat domain 12 protein	288	WD 4.|Sufficient for nucleolar localization.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						CTTAAGACTGCCAGACTCAAC	0.408													30	69					0	0	1	0	0		T	203749137	T	T	203749137	3	4	89	1	0	0	0	0	1	0	0	0	17300	739	26	2	428	2	WDR12	2	203749137	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	419601	203749137	39450236	1266	55097											
NBEAL1	65065	broad.mit.edu	37	chr2	204034508	204034508	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccgactgttgtcacttcaTtccccaaatagttattatgg	10	14	7	10	1	2	0	2	0	0	0	3	1	3	0	3	1	1	2	3	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:204034508T>G	uc002uzt.3	+	38	6282	c.5949T>G	c.(5947-5949)CAT>CAG	p.H1983Q	NBEAL1_uc002uzs.3_Missense_Mutation_p.H693Q	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	1983							binding			ovary(1)|skin(1)	2						TGTCACTTCATTCCCCAAATA	0.328													27	67					0	0	1	0	0		G	204034508	G	G	204034508	3	3	89	1	0	0	0	0	1	0	0	0	10206	1490	52	5	6095	5	NBEAL1	2	204034508	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	285371	204034508	39164865	1267	55098											
NBEAL1	65065	broad.mit.edu	37	chr2	204073897	204073897	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtaggatggaacggtgaTtatacataccattcagaaag	14	11	11	5	1	1	2	1	1	0	1	1	4	1	4	1	3	3	1	1	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:204073897T>G	uc002uzt.3	+	52	7883	c.7550T>G	c.(7549-7551)ATT>AGT	p.I2517S	NBEAL1_uc002uzs.3_Missense_Mutation_p.I1158S|NBEAL1_uc002uzu.2_Missense_Mutation_p.I12S	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	2517	WD 2.						binding			ovary(1)|skin(1)	2						GGAACGGTGATTATACATACC	0.378													40	64					0	0	1	0	0		G	204073897	G	G	204073897	3	3	89	1	0	0	0	0	1	0	0	0	10206	1493	52	5	7752	5	NBEAL1	2	204073897	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	39389	204073897	39125476	1268	55099											
RAPH1	65059	broad.mit.edu	37	chr2	204305381	204305381	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggggttttgcacagaagctCtgttgcttgggtaatgttgg	6	14	16	5	0	1	1	0	0	1	1	1	1	1	1	0	4	3	7	0	4	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:204305381C>T	uc002vad.2	-	14	2757	c.2532G>A	c.(2530-2532)CAG>CAA	p.Q844Q		NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	844					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10						CACAGAAGCTCTGTTGCTTGG	0.592													34	71					0	0	1	0	0		T	204305381	T	T	204305381	2	4	89	1	0	0	0	0	0	0	0	1	13075	912	32	4		4	RAPH1	2	204305381	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	231484	204305381	38893992	1269	55100											
PARD3B	117583	broad.mit.edu	37	chr2	205978262	205978262	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggggaaggaggcccattggGaatacatgtagtgcccttct	9	10	14	8	0	1	0	0	0	1	0	1	3	1	3	2	5	2	1	2	5	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:205978262G>T	uc002var.1	+	6	848	c.641G>T	c.(640-642)GGA>GTA	p.G214V	PARD3B_uc010fub.1_Missense_Mutation_p.G214V|PARD3B_uc002vao.1_Missense_Mutation_p.G214V|PARD3B_uc002vap.1_Missense_Mutation_p.G214V|PARD3B_uc002vaq.1_Missense_Mutation_p.G214V	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	214	PDZ 1.				cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		GGCCCATTGGGAATACATGTA	0.428													20	35					1.01871e-10	1.10886e-10	1	1	0		T	205978262	T	T	205978262	3	4	89	1	0	0	0	0	1	0	0	0	11463	1174	41	5	663	5	PARD3B	2	205978262	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1672881	205978262	37221111	1270	55101											
INO80D	54891	broad.mit.edu	37	chr2	206870101	206870101	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagtacctgtggagaacAcccctattcctctatctgac	9	11	6	15	0	2	2	0	1	2	1	4	3	4	2	5	1	2	1	5	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:206870101A>G	uc002vaz.3	-	11	2480	c.2075T>C	c.(2074-2076)GTG>GCG	p.V692A		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	692					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						TGTGGAGAACACCCCTATTCC	0.502													35	84					0	0	1	0	0		G	206870101	G	G	206870101	3	3	89	1	0	0	0	0	1	0	0	0	7765	159	6	3	1012	3	INO80D	2	206870101	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	891839	206870101	36329272	1271	55102											
EEF1B2	1933	broad.mit.edu	37	chr2	207026796	207026796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaggctaagggaagaacGtcttgcacaatatgaatcaa	18	7	10	6	1	2	3	1	1	1	2	2	4	2	4	0	2	2	2	0	2	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:207026796G>A	uc002vbf.1	+	5	523	c.365G>A	c.(364-366)CGT>CAT	p.R122H	NDUFS1_uc010ziq.1_5'Flank|NDUFS1_uc002vbe.2_5'Flank|NDUFS1_uc010zir.1_5'Flank|NDUFS1_uc010zis.1_5'Flank|NDUFS1_uc010zit.1_5'Flank|NDUFS1_uc010ziu.1_5'Flank|EEF1B2_uc002vbg.1_Missense_Mutation_p.R122H|EEF1B2_uc002vbh.1_Missense_Mutation_p.R122H|SNORA41_uc002vbj.2_5'Flank	NM_001037663	NP_001032752	P24534	EF1B_HUMAN	eukaryotic translation elongation factor 1 beta	122						cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						AGGGAAGAACGTCTTGCACAA	0.348													33	142					0	0	1	0	0		A	207026796	A	A	207026796	3	1	89	1	0	0	0	0	1	0	0	0	4931	1145	40	1	379	1	EEF1B2	2	207026796	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	156695	207026796	36172577	1272	55103											
GPR1	2825	broad.mit.edu	37	chr2	207040930	207040930	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtttccaggagacacaGattcttggtttctgagttcc	8	14	10	9	0	2	3	0	1	2	2	4	4	4	3	2	2	1	4	2	2	0	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:207040930G>T	uc002vbl.3	-	3	1428	c.1042C>A	c.(1042-1044)CTG>ATG	p.L348M	GPR1_uc010fue.2_Missense_Mutation_p.L348M|GPR1_uc010fuf.2_Missense_Mutation_p.L348M	NM_005279	NP_005270	P46091	GPR1_HUMAN	G protein-coupled receptor 1	348	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0		Lung NSC(271;7.93e-06)|Renal(323;0.000147)|Hepatocellular(293;0.000888)		UCEC - Uterine corpus endometrioid carcinoma (47;0.000241)|Epithelial(149;1.91e-37)|STAD - Stomach adenocarcinoma(1183;0.00178)|Lung(261;0.111)|LUSC - Lung squamous cell carcinoma(261;0.184)		AGGAGACACAGATTCTTGGTT	0.428													17	39					1.56452e-12	1.73502e-12	1	1	0		T	207040930	T	T	207040930	3	4	89	1	0	0	0	0	1	0	0	0	6636	933	33	5	29	5	GPR1	2	207040930	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14134	207040930	36158443	1273	55104											
DYTN	391475	broad.mit.edu	37	chr2	207527726	207527726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctctccttgatgttacctgCctctttcttttccacggctg	3	18	6	14	1	3	1	0	1	3	0	6	1	5	1	4	1	2	2	4	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:207527726C>T	uc002vbr.1	-	11	1651	c.1534G>A	c.(1534-1536)GCA>ACA	p.A512T		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	512	Potential.					plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		ATGTTACCTGCCTCTTTCTTT	0.488													54	99					0	0	1	0	0		T	207527726	T	T	207527726	3	4	89	1	0	0	0	0	1	0	0	0	4867	739	26	2	210	2	DYTN	2	207527726	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	486796	207527726	35671647	1274	55105											
CREB1	1385	broad.mit.edu	37	chr2	208442362	208442362	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcagcacgaaagagagaggtCcgtctaatgaagaacaggta	16	5	13	7	2	1	4	0	1	1	3	2	6	2	4	1	2	2	3	1	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:208442362C>T	uc002vcc.2	+	8	1115	c.864C>T	c.(862-864)GTC>GTT	p.V288V	CREB1_uc002vcd.2_Silent_p.V274V	NM_134442	NP_604391	P16220	CREB1_HUMAN	cAMP responsive element binding protein 1	288	Basic motif.				activation of phospholipase C activity|axon guidance|innate immune response|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein dimerization activity|transcription cofactor activity		EWSR1/CREB1(42)	soft_tissue(42)|breast(1)|central_nervous_system(1)	44				LUSC - Lung squamous cell carcinoma(261;0.0768)|Epithelial(149;0.127)|Lung(261;0.145)	Adenosine monophosphate(DB00131)|Bromocriptine(DB01200)|Naloxone(DB01183)	AGAGAGAGGTCCGTCTAATGA	0.458			T	EWSR1	clear cell sarcoma|angiomatoid fibrous histiocytoma								11	40					0	0	1	0	0		T	208442362	T	T	208442362	2	4	89	1	0	0	0	0	0	0	0	1	3857	842	30	4		4	CREB1	2	208442362	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	914636	208442362	34757011	1275	55106											
FAM119A	151194	broad.mit.edu	37	chr2	208478021	208478021	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagtatcaggtcaaattCtccaggagaaaaactcccca	16	7	6	12	0	3	1	2	0	1	1	5	2	4	1	4	2	1	1	4	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:208478021C>A	uc002vcf.2	-	4	566	c.406G>T	c.(406-408)GAA>TAA	p.E136*	FAM119A_uc002vce.2_Intron|FAM119A_uc010fuk.1_Nonsense_Mutation_p.E136*|FAM119A_uc002vcg.3_Nonsense_Mutation_p.E136*	NM_145280	NP_660323	Q8WXB1	MT21A_HUMAN	hypothetical protein LOC151194	136						integral to membrane	methyltransferase activity				0				LUSC - Lung squamous cell carcinoma(261;0.0705)|Epithelial(149;0.131)|Lung(261;0.135)		AGGTCAAATTCTCCAGGAGAA	0.383													53	87					1.39843e-22	1.66947e-22	1	1	0		A	208478021	A	A	208478021	4	1	89	1	0	0	0	0	0	1	0	0	5424	922	32	5	254	5	FAM119A	2	208478021	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	35659	208478021	34721352	1276	55107											
PLEKHM3	389072	broad.mit.edu	37	chr2	208841424	208841424	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcgttccaaagacaaagtCgtcaaaatgctcaggaagct	14	8	8	11	2	2	1	2	0	0	1	5	2	3	2	2	1	2	3	2	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:208841424C>T	uc002vcl.2	-	3	1987	c.1497G>A	c.(1495-1497)ACG>ACA	p.T499T	PLEKHM3_uc002vcm.2_Silent_p.T499T	NM_001080475	NP_001073944	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M,	499					intracellular signal transduction		metal ion binding			ovary(1)	1						AAGACAAAGTCGTCAAAATGC	0.448													12	29					0	0	1	0	0		T	208841424	T	T	208841424	2	4	89	1	0	0	0	0	0	0	0	1	12101	871	31	1		1	PLEKHM3	2	208841424	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	363403	208841424	34357949	1277	55108											
CRYGA	1418	broad.mit.edu	37	chr2	209025593	209025593	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcacccccccagtcgtggtAccttctgtagtccccaggcc	5	9	9	18	1	1	0	0	0	1	0	3	0	2	0	7	2	2	3	7	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:209025593A>C	uc002vcq.3	-	3	477	c.460T>G	c.(460-462)TAC>GAC	p.Y154D		NM_014617	NP_055432	P11844	CRGA_HUMAN	crystallin, gamma A	154	Beta/gamma crystallin 'Greek key' 4.				visual perception		structural constituent of eye lens				0				Epithelial(149;0.067)|LUSC - Lung squamous cell carcinoma(261;0.0708)|Lung(261;0.135)		CAGTCGTGGTACCTTCTGTAG	0.562													61	124					0	0	1	0	0		C	209025593	C	C	209025593	3	2	89	1	0	0	0	0	1	0	0	0	3917	391	14	5	68	5	CRYGA	2	209025593	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	184169	209025593	34173780	1278	55109											
MAP2	4133	broad.mit.edu	37	chr2	210557748	210557748	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtttagttgcccccatatCtcctggccctctgactccca	5	12	8	16	0	2	1	0	1	2	0	4	1	3	1	5	2	1	2	5	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:210557748C>A	uc002vde.1	+	7	1102	c.854C>A	c.(853-855)TCT>TAT	p.S285Y	MAP2_uc002vdc.1_Missense_Mutation_p.S285Y|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.S281Y	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	285					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	GCCCCCATATCTCCTGGCCCT	0.458													25	52					3.08376e-08	3.26638e-08	1	1	0		A	210557748	A	A	210557748	3	1	89	1	0	0	0	0	1	0	0	0	9253	913	32	5	868	5	MAP2	2	210557748	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1532155	210557748	32641625	1279	55110											
MAP2	4133	broad.mit.edu	37	chr2	210559824	210559824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctgattcaaaagaacatgCcaagaaaactgaagaggctg	17	7	10	7	0	1	5	1	2	0	3	1	5	1	5	1	1	4	2	1	1	7	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:210559824C>T	uc002vde.1	+	7	3178	c.2930C>T	c.(2929-2931)GCC>GTC	p.A977V	MAP2_uc002vdc.1_Missense_Mutation_p.A977V|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.A973V	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	977					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	AAAGAACATGCCAAGAAAACT	0.393													30	79					0	0	1	0	0		T	210559824	T	T	210559824	3	4	89	1	0	0	0	0	1	0	0	0	9253	739	26	2	2944	2	MAP2	2	210559824	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2076	210559824	32639549	1280	55111											
C2orf67	151050	broad.mit.edu	37	chr2	211018339	211018339	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagcagaaaatgcaaatCtttggatttccgcagctgta	12	12	9	8	1	1	1	0	0	1	1	2	2	2	2	1	1	3	6	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:211018339C>A	uc002vds.2	-	2	1176	c.968G>T	c.(967-969)AGA>ATA	p.R323I	C2orf67_uc002vdt.2_Missense_Mutation_p.R323I|C2orf67_uc002vdw.2_Missense_Mutation_p.R323I|C2orf67_uc002vdy.1_Missense_Mutation_p.R323I|C2orf67_uc002vdv.2_Missense_Mutation_p.R323I|C2orf67_uc002vdx.1_Missense_Mutation_p.R323I	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	323										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		AAATGCAAATCTTTGGATTTC	0.418													44	93					6.21074e-16	7.10493e-16	1	1	0		A	211018339	A	A	211018339	3	1	89	1	0	0	0	0	1	0	0	0	2189	913	32	5	2051	5	C2orf67	2	211018339	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	458515	211018339	32181034	1281	55112											
C2orf67	151050	broad.mit.edu	37	chr2	211018713	211018713	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtggccaggtacaattttCttttgagtacagtgcaataa	12	13	10	6	0	1	1	0	1	1	0	1	2	1	1	1	2	3	3	1	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:211018713C>A	uc002vds.2	-	2	802	c.594G>T	c.(592-594)AAG>AAT	p.K198N	C2orf67_uc002vdt.2_Missense_Mutation_p.K198N|C2orf67_uc002vdw.2_Missense_Mutation_p.K198N|C2orf67_uc002vdy.1_Missense_Mutation_p.K198N|C2orf67_uc002vdv.2_Missense_Mutation_p.K198N|C2orf67_uc002vdx.1_Missense_Mutation_p.K198N	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	198										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		GTACAATTTTCTTTTGAGTAC	0.368													47	96					6.08268e-21	7.19453e-21	1	1	0		A	211018713	A	A	211018713	3	1	89	1	0	0	0	0	1	0	0	0	2189	912	32	5	2425	5	C2orf67	2	211018713	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	374	211018713	32180660	1282	55113											
CPS1	1373	broad.mit.edu	37	chr2	211466941	211466941	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagattgaggatgcactgAaggcagcagacaccattggc	13	6	13	9	0	0	4	0	2	0	2	0	6	0	5	1	3	2	3	1	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:211466941A>C	uc002vee.3	+	16	1855	c.1723A>C	c.(1723-1725)AAG>CAG	p.K575Q	CPS1_uc010fur.2_Missense_Mutation_p.K581Q|CPS1_uc010fus.2_Missense_Mutation_p.K124Q	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	575	ATP-grasp 1.				carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		GGATGCACTGAAGGCAGCAGA	0.502													21	47					0	0	1	0	0		C	211466941	C	C	211466941	3	2	89	1	0	0	0	0	1	0	0	0	3826	247	9	5	1807	5	CPS1	2	211466941	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	448228	211466941	31732432	1283	55114											
CPS1	1373	broad.mit.edu	37	chr2	211471539	211471539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttcaatcaatgttgttcGccacttgggcattgtgggtg	7	15	11	8	1	2	0	2	0	0	0	3	0	2	0	1	2	1	3	1	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:211471539G>A	uc002vee.3	+	18	2198	c.2066G>A	c.(2065-2067)CGC>CAC	p.R689H	CPS1_uc010fur.2_Missense_Mutation_p.R695H|CPS1_uc010fus.2_Missense_Mutation_p.R238H	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	689	ATP-grasp 1.				carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		AATGTTGTTCGCCACTTGGGC	0.468													26	39					0	0	1	0	0		A	211471539	A	A	211471539	3	1	89	1	0	0	0	0	1	0	0	0	3826	1087	38	1	2158	1	CPS1	2	211471539	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4598	211471539	31727834	1284	55115											
ERBB4	2066	broad.mit.edu	37	chr2	212812260	212812260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcataaagttttgtcccacGaataatgcgtaaattctcca	13	13	5	10	2	2	0	1	0	1	0	4	1	3	0	2	0	1	2	2	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:212812260G>A	uc002veg.1	-	3	414	c.316C>T	c.(316-318)CGT>TGT	p.R106C	ERBB4_uc002veh.1_Missense_Mutation_p.R106C|ERBB4_uc010zji.1_Missense_Mutation_p.R106C|ERBB4_uc010zjj.1_Missense_Mutation_p.R106C|ERBB4_uc010fut.1_Missense_Mutation_p.R106C	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	106	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TTTGTCCCACGAATAATGCGT	0.383										TSP Lung(8;0.080)			21	48					0	0	1	0	0		A	212812260	A	A	212812260	3	1	89	1	0	0	0	0	1	0	0	0	5217	1058	37	1	3714	1	ERBB4	2	212812260	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1340721	212812260	30387113	1285	55116											
ERBB4	2066	broad.mit.edu	37	chr2	212989563	212989563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagttttcatagtacttgcGcaaggctcggtactgctgtt	8	14	10	9	2	1	0	1	0	0	0	2	0	1	0	0	2	4	7	0	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:212989563G>A	uc002veg.1	-	2	246	c.148C>T	c.(148-150)CGC>TGC	p.R50C	ERBB4_uc002veh.1_Missense_Mutation_p.R50C|ERBB4_uc010zji.1_Missense_Mutation_p.R50C|ERBB4_uc010zjj.1_Missense_Mutation_p.R50C|ERBB4_uc010fut.1_Missense_Mutation_p.R50C	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	50	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TAGTACTTGCGCAAGGCTCGG	0.493										TSP Lung(8;0.080)			23	50					0	0	1	0	0		A	212989563	A	A	212989563	3	1	89	1	0	0	0	0	1	0	0	0	5217	1087	38	1	3886	1	ERBB4	2	212989563	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	177303	212989563	30209810	1286	55117											
SPAG16	79582	broad.mit.edu	37	chr2	214181952	214181952	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttatcctaggtatgagttAatacagaaaggagtgactga	14	13	10	4	0	0	4	0	3	0	1	1	5	1	5	1	2	1	2	1	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:214181952A>C	uc002veq.2	+	5	500	c.408A>C	c.(406-408)TTA>TTC	p.L136F	SPAG16_uc010fuz.1_Intron|SPAG16_uc002ver.2_Missense_Mutation_p.L82F|SPAG16_uc010zjk.1_Missense_Mutation_p.L42F|SPAG16_uc002veo.2_Missense_Mutation_p.L136F|SPAG16_uc002vep.1_Intron|SPAG16_uc002ves.1_Missense_Mutation_p.L105F	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	136					cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		GGTATGAGTTAATACAGAAAG	0.323													22	38					0	0	1	0	0		C	214181952	C	C	214181952	3	2	89	1	0	0	0	0	1	0	0	0	15003	359	13	5	426	5	SPAG16	2	214181952	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1192389	214181952	29017421	1287	55118											
ABCA12	26154	broad.mit.edu	37	chr2	215917230	215917230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttttccaagccaagaattCgtgcgagcacttgactgcca	10	10	8	13	2	0	2	0	1	0	1	2	3	1	2	4	0	4	1	4	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:215917230C>T	uc002vew.2	-	5	708	c.488G>A	c.(487-489)CGA>CAA	p.R163Q	ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	163					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GCCAAGAATTCGTGCGAGCAC	0.393													21	43					0	0	1	0	0		T	215917230	T	T	215917230	3	4	89	1	0	0	0	0	1	0	0	0	30	884	31	1	7526	1	ABCA12	2	215917230	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1735278	215917230	27282143	1288	55119											
FN1	2335	broad.mit.edu	37	chr2	216242982	216242982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actcacttcatatttggtggCcacctagagaaataagggca	13	10	9	9	0	2	1	2	0	0	1	2	2	2	1	2	3	0	1	2	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:216242982C>T	uc002vfa.2	-	35	5892	c.5626G>A	c.(5626-5628)GCC>ACC	p.A1876T	FN1_uc002vfb.2_Missense_Mutation_p.A1695T|FN1_uc002vfc.2_Missense_Mutation_p.A1695T|FN1_uc002vfd.2_Missense_Mutation_p.A1876T|FN1_uc002vfe.2_Missense_Mutation_p.A1785T|FN1_uc002vff.2_Missense_Mutation_p.A1785T|FN1_uc002vfg.2_Missense_Mutation_p.A1695T|FN1_uc002vfh.2_Missense_Mutation_p.A1695T|FN1_uc002vfi.2_Missense_Mutation_p.A1876T|FN1_uc002vfj.2_Missense_Mutation_p.A1786T|FN1_uc002vez.2_Missense_Mutation_p.A70T|FN1_uc010zjp.1_Missense_Mutation_p.A413T|FN1_uc002vfk.1_RNA|FN1_uc010fva.1_RNA|FN1_uc010fvb.1_RNA|FN1_uc010fvc.1_Missense_Mutation_p.A238T|FN1_uc010fvd.1_Intron	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1876	Binds to FBLN1.|Heparin-binding 2.|Fibronectin type-III 14.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TATTTGGTGGCCACCTAGAGA	0.428													15	32					0	0	1	0	0		T	216242982	T	T	216242982	3	4	89	1	0	0	0	0	1	0	0	0	5976	739	26	2	1855	2	FN1	2	216242982	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	325752	216242982	26956391	1289	55120											
FN1	2335	broad.mit.edu	37	chr2	216274830	216274830	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccttccaacggcctacaGaatttttctgaaaatttaaa	13	14	4	10	1	1	2	0	1	1	1	3	2	3	2	3	1	2	0	3	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:216274830G>T	uc002vfa.2	-	14	2215	c.1949C>A	c.(1948-1950)TCT>TAT	p.S650Y	FN1_uc002vfb.2_Missense_Mutation_p.S650Y|FN1_uc002vfc.2_Missense_Mutation_p.S650Y|FN1_uc002vfd.2_Missense_Mutation_p.S650Y|FN1_uc002vfe.2_Missense_Mutation_p.S650Y|FN1_uc002vff.2_Missense_Mutation_p.S650Y|FN1_uc002vfg.2_Missense_Mutation_p.S650Y|FN1_uc002vfh.2_Missense_Mutation_p.S650Y|FN1_uc002vfi.2_Missense_Mutation_p.S650Y|FN1_uc002vfj.2_Missense_Mutation_p.S650Y	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	650	Fibronectin type-III 1.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACGGCCTACAGAATTTTTCTG	0.363													9	20					1.12685e-05	1.16379e-05	1	1	0		T	216274830	T	T	216274830	3	4	89	1	0	0	0	0	1	0	0	0	5976	942	33	5	5616	5	FN1	2	216274830	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	31848	216274830	26924543	1290	55121											
MREG	55686	broad.mit.edu	37	chr2	216809618	216809618	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacggaaggtagtgcagttCtttctggccatctgccaggc	9	10	12	10	1	3	0	0	0	3	0	3	1	3	1	2	4	3	3	2	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:216809618C>A	uc002vfo.2	-	5	909	c.613G>T	c.(613-615)GAA>TAA	p.E205*	MREG_uc002vfq.2_RNA	NM_018000	NP_060470	Q8N565	MREG_HUMAN	whn-dependent transcript 2	205						apical plasma membrane					0		Renal(323;0.0328)		Epithelial(149;4.64e-07)|all cancers(144;5.56e-05)|LUSC - Lung squamous cell carcinoma(224;0.00832)|Lung(261;0.0111)		TAGTGCAGTTCTTTCTGGCCA	0.507													20	31					1.10923e-09	1.19438e-09	1	1	0		A	216809618	A	A	216809618	4	1	89	1	0	0	0	0	0	1	0	0	9778	922	32	5	35	5	MREG	2	216809618	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	534788	216809618	26389755	1291	55122											
MREG	55686	broad.mit.edu	37	chr2	216809669	216809669	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcttcttggggtaagttcGacgagcaagcttaaagaact	12	10	12	7	2	1	1	0	0	1	1	2	3	1	1	0	3	3	5	0	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:216809669G>A	uc002vfo.2	-	5	858	c.562C>T	c.(562-564)CGA>TGA	p.R188*	MREG_uc002vfq.2_RNA	NM_018000	NP_060470	Q8N565	MREG_HUMAN	whn-dependent transcript 2	188						apical plasma membrane					0		Renal(323;0.0328)		Epithelial(149;4.64e-07)|all cancers(144;5.56e-05)|LUSC - Lung squamous cell carcinoma(224;0.00832)|Lung(261;0.0111)		GGGTAAGTTCGACGAGCAAGC	0.498													15	25					0	0	1	0	0		A	216809669	A	A	216809669	4	1	89	1	0	0	0	0	0	1	0	0	9778	1066	37	1	86	1	MREG	2	216809669	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	51	216809669	26389704	1292	55123											
SMARCAL1	50485	broad.mit.edu	37	chr2	217279808	217279808	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatctctcctcccttggcAcaaagtcctccagaggtccc	8	9	8	16	0	1	1	0	0	1	1	7	2	6	2	5	3	0	1	5	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:217279808A>G	uc002vgc.3	+	3	711	c.381A>G	c.(379-381)GCA>GCG	p.A127A	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Silent_p.A127A|SMARCAL1_uc010fvg.2_Silent_p.A127A	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	127					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		CTCCCTTGGCACAAAGTCCTC	0.502									Schimke_Immuno-Osseous_Dysplasia				30	62					0	0	1	0	0		G	217279808	G	G	217279808	2	3	89	1	0	0	0	0	0	0	0	1	14798	146	6	3		3	SMARCAL1	2	217279808	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	470139	217279808	25919565	1293	55124											
TNS1	7145	broad.mit.edu	37	chr2	218700848	218700848	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggatgtggcttctggagActggttctcatactgtccat	7	13	13	8	0	2	1	1	0	2	1	4	3	3	2	1	5	1	2	1	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:218700848A>G	uc002vgt.2	-	18	3117	c.2719T>C	c.(2719-2721)TCT>CCT	p.S907P	TNS1_uc002vgr.2_Missense_Mutation_p.S907P|TNS1_uc002vgs.2_Missense_Mutation_p.S907P|TNS1_uc010zjv.1_Missense_Mutation_p.S907P	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	907						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GCTTCTGGAGACTGGTTCTCA	0.647													24	50					0	0	1	0	0		G	218700848	G	G	218700848	3	3	89	1	0	0	0	0	1	0	0	0	16368	275	10	3	2552	3	TNS1	2	218700848	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1421040	218700848	24498525	1294	55125											
CXCR2	3579	broad.mit.edu	37	chr2	218999817	218999817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttggccgacctactctttgCcctgaccttgcccatctggg	4	12	9	16	1	2	1	0	1	2	0	2	2	2	1	5	2	3	0	5	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:218999817C>T	uc002vgz.1	+	4	518	c.293C>T	c.(292-294)GCC>GTC	p.A98V	CXCR2_uc002vha.1_Missense_Mutation_p.A98V|CXCR2_uc002vhb.1_Missense_Mutation_p.A98V	NM_001557	NP_001548	P25025	CXCR2_HUMAN	interleukin 8 receptor beta	98	Helical; Name=2; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cellular defense response|dendritic cell chemotaxis|inflammatory response|neutrophil activation|neutrophil chemotaxis|positive regulation of cell proliferation	cell surface|integral to plasma membrane|mast cell granule	interleukin-8 receptor activity			lung(1)|breast(1)	2						CTACTCTTTGCCCTGACCTTG	0.547													52	86					0	0	1	0	0		T	218999817	T	T	218999817	3	4	89	1	0	0	0	0	1	0	0	0	4094	739	26	2	295	2	CXCR2	2	218999817	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	298969	218999817	24199556	1295	55126											
CXCR2	3579	broad.mit.edu	37	chr2	219000231	219000231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctacggattcaccctgcGtacgctgtttaaggcccaca	8	10	9	14	3	1	0	1	0	0	0	1	1	1	1	2	2	4	4	2	2	3	5	rs144013681		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:219000231G>A	uc002vgz.1	+	4	932	c.707G>A	c.(706-708)CGT>CAT	p.R236H	CXCR2_uc002vha.1_Missense_Mutation_p.R236H|CXCR2_uc002vhb.1_Missense_Mutation_p.R236H	NM_001557	NP_001548	P25025	CXCR2_HUMAN	interleukin 8 receptor beta	236	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cellular defense response|dendritic cell chemotaxis|inflammatory response|neutrophil activation|neutrophil chemotaxis|positive regulation of cell proliferation	cell surface|integral to plasma membrane|mast cell granule	interleukin-8 receptor activity			lung(1)|breast(1)	2						TTCACCCTGCGTACGCTGTTT	0.567													115	189					0	0	1	0	0		A	219000231	A	A	219000231	3	1	89	1	0	0	0	0	1	0	0	0	4094	1145	40	1	709	1	CXCR2	2	219000231	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	414	219000231	24199142	1296	55127											
CTDSP1	58190	broad.mit.edu	37	chr2	219267801	219267801	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtggatgagttcctgcagcGaatgggcgagctctttgaat	8	11	14	8	3	1	2	0	2	1	0	2	5	2	3	1	2	3	3	1	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:219267801G>A	uc002vhy.2	+	5	758	c.422G>A	c.(421-423)CGA>CAA	p.R141Q	CTDSP1_uc002vhx.2_Missense_Mutation_p.R140Q|CTDSP1_uc002vhz.2_5'UTR	NM_021198	NP_067021	Q9GZU7	CTDS1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	141	FCP1 homology.				protein dephosphorylation|regulation of transcription from RNA polymerase II promoter	nucleus	CTD phosphatase activity|metal ion binding|protein binding			ovary(1)	1		Renal(207;0.0915)		Epithelial(149;9.96e-07)|all cancers(144;0.00017)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TTCCTGCAGCGAATGGGCGAG	0.667													24	37					0	0	1	0	0		A	219267801	A	A	219267801	3	1	89	1	0	0	0	0	1	0	0	0	4006	1058	37	1	440	1	CTDSP1	2	219267801	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	267570	219267801	23931572	1297	55128											
USP37	57695	broad.mit.edu	37	chr2	219321865	219321865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caacactgatgagccggtacGaatgaggcagatttcctgtc	11	9	11	10	2	0	4	0	3	0	1	2	5	1	4	2	2	3	2	2	2	3	2	rs4292082		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:219321865G>A	uc002vie.2	-	24	3116	c.2663C>T	c.(2662-2664)TCG>TTG	p.S888L	USP37_uc010fvs.1_Missense_Mutation_p.S888L|USP37_uc010zkf.1_Missense_Mutation_p.S888L|USP37_uc002vif.2_Missense_Mutation_p.S888L|USP37_uc002vig.2_Missense_Mutation_p.S794L	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	888					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		GAGCCGGTACGAATGAGGCAG	0.353													15	24					0	0	1	0	0		A	219321865	A	A	219321865	3	1	89	1	0	0	0	0	1	0	0	0	17094	1059	37	1	288	1	USP37	2	219321865	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	54064	219321865	23877508	1298	55129											
USP37	57695	broad.mit.edu	37	chr2	219341566	219341566	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaaaatattacttactttTtccaggtcttcctgctgctg	10	16	6	9	0	1	1	0	0	1	1	3	1	3	1	2	1	4	2	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:219341566T>G	uc002vie.2	-	19	2493	c.2040A>C	c.(2038-2040)GAA>GAC	p.E680D	USP37_uc010fvs.1_Missense_Mutation_p.E680D|USP37_uc010zkf.1_Missense_Mutation_p.E680D|USP37_uc002vif.2_Missense_Mutation_p.E680D|USP37_uc002vig.2_Missense_Mutation_p.E586D	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	680					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		TACTTACTTTTTCCAGGTCTT	0.373													10	59					0	0	1	0	0		G	219341566	G	G	219341566	3	3	89	1	0	0	0	0	1	0	0	0	17094	1838	64	5	931	5	USP37	2	219341566	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	19701	219341566	23857807	1299	55130											
ZNF142	7701	broad.mit.edu	37	chr2	219507616	219507616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accggtaccgtctggtggtcGaaaagtcacagaaggggcac	11	6	14	10	3	2	1	1	0	1	1	3	2	2	1	2	5	1	2	2	5	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:219507616G>A	uc002vin.2	-	8	4059	c.3623C>T	c.(3622-3624)TCG>TTG	p.S1208L	ZNF142_uc002vil.2_Missense_Mutation_p.S1169L|ZNF142_uc010fvt.2_Missense_Mutation_p.S1045L|ZNF142_uc002vim.2_Missense_Mutation_p.S1045L	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	1208	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		TCTGGTGGTCGAAAAGTCACA	0.607													30	71					0	0	1	0	0		A	219507616	A	A	219507616	3	1	89	1	0	0	0	0	1	0	0	0	17756	1059	37	1	1452	1	ZNF142	2	219507616	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	166050	219507616	23691757	1300	55131											
ZNF142	7701	broad.mit.edu	37	chr2	219509723	219509723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagacttgccctgatgccGcagcttgtggctgctcagct	6	10	12	13	1	1	2	1	1	0	1	1	3	1	2	2	1	5	5	2	1	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:219509723G>A	uc002vin.2	-	8	1952	c.1516C>T	c.(1516-1518)CGG>TGG	p.R506W	ZNF142_uc002vil.2_Missense_Mutation_p.R467W|ZNF142_uc010fvt.2_Missense_Mutation_p.R343W|ZNF142_uc002vim.2_Missense_Mutation_p.R343W	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	506	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		CCCTGATGCCGCAGCTTGTGG	0.577													24	53					0	0	1	0	0		A	219509723	A	A	219509723	3	1	89	1	0	0	0	0	1	0	0	0	17756	1086	38	1	3559	1	ZNF142	2	219509723	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2107	219509723	23689650	1301	55132											
BCS1L	617	broad.mit.edu	37	chr2	219526163	219526163	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggattcgggtagaacgaagtCgagagatgcagatgatagac	14	7	15	5	3	0	5	0	1	0	4	2	9	0	6	0	2	2	2	0	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:219526163C>T	uc002vio.2	+	3	773	c.355C>T	c.(355-357)CGA>TGA	p.R119*	ZNF142_uc002vin.2_5'Flank|ZNF142_uc010fvt.2_5'Flank|ZNF142_uc002vim.2_5'Flank|BCS1L_uc002vip.2_Nonsense_Mutation_p.R119*|BCS1L_uc002viq.2_Nonsense_Mutation_p.R119*|BCS1L_uc010fvu.2_Nonsense_Mutation_p.R119*|BCS1L_uc010fvv.2_Nonsense_Mutation_p.R119*|BCS1L_uc002vir.2_Nonsense_Mutation_p.R119*|BCS1L_uc002vis.2_Nonsense_Mutation_p.R119*	NM_004328	NP_004319	Q9Y276	BCS1_HUMAN	BCS1-like	119	Mitochondrial matrix (Potential).				mitochondrial respiratory chain complex I assembly|mitochondrial respiratory chain complex III assembly|mitochondrial respiratory chain complex IV assembly	integral to membrane|mitochondrial respiratory chain complex III	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Renal(207;0.0474)		Epithelial(149;7.12e-07)|all cancers(144;0.000131)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGAACGAAGTCGAGAGATGCA	0.488													32	61					0	0	1	0	0		T	219526163	T	T	219526163	4	4	89	1	0	0	0	0	0	1	0	0	1390	876	31	1	361	1	BCS1L	2	219526163	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	16440	219526163	23673210	1302	55133											
STK36	27148	broad.mit.edu	37	chr2	219563571	219563571	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacttgtcctttatccaaGagcttctggctggctctgat	6	14	9	12	0	2	2	0	1	2	1	4	2	4	2	3	2	1	3	3	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:219563571G>T	uc002viu.2	+	26	3570	c.3304G>T	c.(3304-3306)GAG>TAG	p.E1102*	STK36_uc002viv.2_Nonsense_Mutation_p.E1081*|STK36_uc002viw.2_Nonsense_Mutation_p.E280*|STK36_uc002vix.2_Nonsense_Mutation_p.E147*	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	1102					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		CTTTATCCAAGAGCTTCTGGC	0.592													51	81					1.56793e-16	1.8045e-16	1	1	0		T	219563571	T	T	219563571	4	4	89	1	0	0	0	0	0	1	0	0	15327	943	33	5	3402	5	STK36	2	219563571	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	37408	219563571	23635802	1303	55134											
TTLL4	9654	broad.mit.edu	37	chr2	219617583	219617583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgccgtggtcagtttgaacGaatttttccttctcatatct	7	17	7	10	3	3	1	2	1	2	0	6	2	4	1	2	1	1	1	2	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:219617583G>A	uc002viy.2	+	17	3444	c.3074G>A	c.(3073-3075)CGA>CAA	p.R1025Q	TTLL4_uc010zkl.1_Missense_Mutation_p.R860Q|TTLL4_uc010fvx.2_Missense_Mutation_p.R961Q|TTLL4_uc010zkm.1_Missense_Mutation_p.R228Q	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	1025					protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		CAGTTTGAACGAATTTTTCCT	0.458													55	84					0	0	1	0	0		A	219617583	A	A	219617583	3	1	89	1	0	0	0	0	1	0	0	0	16755	1058	37	1	3132	1	TTLL4	2	219617583	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	54012	219617583	23581790	1304	55135											
WNT10A	80326	broad.mit.edu	37	chr2	219754759	219754759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagctggcgtggtgcacGccgtgtccaatgcgtgtgcc	5	8	15	13	4	0	0	0	0	0	0	1	0	1	0	3	2	5	3	3	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:219754759G>A	uc002vjd.1	+	3	893	c.430G>A	c.(430-432)GCC>ACC	p.A144T		NM_025216	NP_079492	Q9GZT5	WN10A_HUMAN	wingless-type MMTV integration site family,	144					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to transforming growth factor beta stimulus|female gonad development|hair follicle morphogenesis|odontogenesis|regulation of odontogenesis of dentine-containing tooth|sebaceous gland development|skin development|tongue development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity	p.A144V(1)		lung(1)|skin(1)	2		Renal(207;0.0474)		Epithelial(149;4.26e-07)|all cancers(144;8.8e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CGTGGTGCACGCCGTGTCCAA	0.562													19	50					0	0	1	0	0		A	219754759	A	A	219754759	3	1	89	1	0	0	0	0	1	0	0	0	17408	1087	38	1	440	1	WNT10A	2	219754759	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	137176	219754759	23444614	1305	55136											
CCDC108	255101	broad.mit.edu	37	chr2	219903158	219903158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtcgttgatggcagggatgGccactgtgctggcactcagg	6	10	16	9	1	1	1	1	1	0	0	2	2	1	2	1	5	1	4	1	5	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:219903158G>A	uc002vjl.1	-	4	380	c.296C>T	c.(295-297)GCC>GTC	p.A99V	CCDC108_uc010zkp.1_Missense_Mutation_p.A88V|CCDC108_uc010zkq.1_Missense_Mutation_p.A34V|CCDC108_uc002vjn.2_Missense_Mutation_p.A34V	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	99						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGCAGGGATGGCCACTGTGCT	0.522													19	46					0	0	1	0	0		A	219903158	A	A	219903158	3	1	89	1	0	0	0	0	1	0	0	0	2746	1203	42	2	5757	2	CCDC108	2	219903158	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	148399	219903158	23296215	1306	55137											
ATG9A	79065	broad.mit.edu	37	chr2	220087075	220087075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaaggagcgcagggcagagGcgacttcagccctgtgcctg	9	5	16	11	2	1	2	1	0	0	2	1	4	1	3	2	3	3	2	2	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:220087075G>A	uc002vke.1	-	12	2132	c.1946C>T	c.(1945-1947)GCC>GTC	p.A649V	ABCB6_uc010fwe.1_5'Flank|ABCB6_uc010zku.1_5'Flank|ATG9A_uc002vkd.1_RNA|ATG9A_uc002vkf.1_Missense_Mutation_p.A649V	NM_001077198	NP_001070666	Q7Z3C6	ATG9A_HUMAN	APG9 autophagy 9-like 1	649	Cytoplasmic (By similarity).				autophagic vacuole assembly|protein transport	autophagic vacuole membrane|cytoplasmic vesicle|Golgi apparatus|integral to membrane|late endosome membrane				skin(1)	1		Renal(207;0.0474)		Epithelial(149;1.37e-06)|all cancers(144;0.000222)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAGGGCAGAGGCGACTTCAGC	0.662													31	68					0	0	1	0	0		A	220087075	A	A	220087075	3	1	89	1	0	0	0	0	1	0	0	0	1103	1203	42	2	593	2	ATG9A	2	220087075	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	183917	220087075	23112298	1307	55138											
PTPRN	5798	broad.mit.edu	37	chr2	220162693	220162693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctgccgcgcatgctgccGcacacacagagccacagcca	9	5	10	17	3	0	1	0	0	0	1	0	1	0	1	4	0	6	4	4	0	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:220162693G>A	uc002vkz.2	-	13	1890	c.1801C>T	c.(1801-1803)CGG>TGG	p.R601W	PTPRN_uc010zlc.1_Missense_Mutation_p.R511W|PTPRN_uc002vla.2_Missense_Mutation_p.R572W	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	601	Cytoplasmic (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		GCATGCTGCCGCACACACAGA	0.667													10	26					0	0	1	0	0		A	220162693	A	A	220162693	3	1	89	1	0	0	0	0	1	0	0	0	12832	1086	38	1	1182	1	PTPRN	2	220162693	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	75618	220162693	23036680	1308	55139											
SPEG	10290	broad.mit.edu	37	chr2	220309737	220309737	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaaccggggccgggccacgGcacctgggggtggagccgct	5	3	19	14	4	0	0	0	0	0	0	0	1	0	1	5	7	2	3	5	7	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:220309737G>A	uc010fwg.2	+	3	669	c.669G>A	c.(667-669)CGG>CGA	p.R223R	SPEG_uc002vlm.2_RNA|SPEG_uc010fwh.1_Intron|SPEG_uc002vln.1_5'UTR	NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	223					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CCGGGCCACGGCACCTGGGGG	0.711													15	7					0	0	1	0	0		A	220309737	A	A	220309737	2	1	89	1	0	0	0	0	0	0	0	1	15061	1190	42	2		2	SPEG	2	220309737	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	147044	220309737	22889636	1309	55140											
SLC4A3	6508	broad.mit.edu	37	chr2	220500178	220500178	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcgtgaacagaccaaagtCgagatgaccacacggggtgg	13	4	15	9	3	0	4	0	2	0	2	1	6	0	4	2	3	2	0	2	3	2	0	rs140228124	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:220500178C>T	uc002vmp.3	+	13	2201	c.1932C>T	c.(1930-1932)GTC>GTT	p.V644V	SLC4A3_uc002vmo.3_Silent_p.V671V|SLC4A3_uc010fwm.2_Silent_p.V194V|SLC4A3_uc010fwn.1_Silent_p.V153V	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	644	Cytoplasmic.				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGACCAAAGTCGAGATGACCA	0.647													19	24					0	0	1	0	0		T	220500178	T	T	220500178	2	4	89	1	0	0	0	0	0	0	0	1	14680	871	31	1		1	SLC4A3	2	220500178	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	190441	220500178	22699195	1310	55141											
EPHA4	2043	broad.mit.edu	37	chr2	222308273	222308273	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatttctttggcaaactctcGcactgcttggttgggatctt	7	16	9	9	1	3	0	0	0	3	0	4	1	3	1	0	3	2	4	0	3	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:222308273G>A	uc002vmq.2	-	10	1870	c.1828C>T	c.(1828-1830)CGA>TGA	p.R610*	EPHA4_uc002vmr.2_Nonsense_Mutation_p.R610*|EPHA4_uc010zlm.1_Nonsense_Mutation_p.R551*|EPHA4_uc010zln.1_Nonsense_Mutation_p.R610*	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	610	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		GCAAACTCTCGCACTGCTTGG	0.418													37	58					0	0	1	0	0		A	222308273	A	A	222308273	4	1	89	1	0	0	0	0	0	1	0	0	5177	1095	38	1	1164	1	EPHA4	2	222308273	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1808095	222308273	20891100	1311	55142											
EPHA4	2043	broad.mit.edu	37	chr2	222433473	222433473	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgctatccacccaagttCtccctgaacagatctggaat	10	11	7	13	0	2	2	0	1	2	1	4	3	3	3	3	1	2	3	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:222433473C>A	uc002vmq.2	-	2	166	c.124G>T	c.(124-126)GAA>TAA	p.E42*	EPHA4_uc002vmr.2_Nonsense_Mutation_p.E42*|EPHA4_uc010zlm.1_Intron|EPHA4_uc010zln.1_Nonsense_Mutation_p.E42*	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	42	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		CACCCAAGTTCTCCCTGAACA	0.398													7	23					0.000157383	0.000160819	1	1	0		A	222433473	A	A	222433473	4	1	89	1	0	0	0	0	0	1	0	0	5177	922	32	5	2900	5	EPHA4	2	222433473	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	125200	222433473	20765900	1312	55143											
PAX3	5077	broad.mit.edu	37	chr2	223096870	223096870	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtcagggtaatgagttCtctcaaaagcacgctccagt	13	10	9	9	1	3	1	2	1	1	0	5	1	4	1	1	1	1	4	1	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:223096870C>A	uc010fwo.2	-	5	1085	c.719G>T	c.(718-720)AGA>ATA	p.R240I	PAX3_uc002vmt.1_Missense_Mutation_p.R240I|PAX3_uc002vmy.1_Missense_Mutation_p.R239I|PAX3_uc002vmv.1_Missense_Mutation_p.R240I|PAX3_uc002vmw.1_Missense_Mutation_p.R240I|PAX3_uc002vmx.1_Missense_Mutation_p.R240I	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	240	Homeobox.				apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GTAATGAGTTCTCTCAAAAGC	0.522			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						64	99					7.75977e-34	9.55048e-34	1	1	0		A	223096870	A	A	223096870	3	1	89	1	0	0	0	0	1	0	0	0	11499	913	32	5	850	5	PAX3	2	223096870	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	663397	223096870	20102503	1313	55144											
ACSL3	2181	broad.mit.edu	37	chr2	223783787	223783787	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggtgtatttctaggatatAgtttctttggtcccacgcct	6	18	9	8	1	2	0	0	0	2	0	3	1	3	1	2	3	0	2	2	3	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:223783787A>C	uc002vni.2	+	7	1123	c.672A>C	c.(670-672)ATA>ATC	p.I224I	ACSL3_uc002vnj.2_Silent_p.I224I	NM_004457	NP_004448	O95573	ACSL3_HUMAN	acyl-CoA synthetase long-chain family member 3	224	Cytoplasmic (Potential).				long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|fatty-acyl-CoA synthase activity|long-chain fatty acid-CoA ligase activity|protein binding			ovary(2)	2		Renal(207;0.0183)		Epithelial(121;1.28e-10)|all cancers(144;8.06e-08)|Lung(261;0.00834)|LUSC - Lung squamous cell carcinoma(224;0.00864)	Icosapent(DB00159)	TCTAGGATATAGTTTCTTTGG	0.433			T	ETV1	prostate								16	27					0	0	1	0	0		C	223783787	C	C	223783787	2	2	89	1	0	0	0	0	0	0	0	1	178	410	15	5		5	ACSL3	2	223783787	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	686917	223783787	19415586	1314	55145											
CUL3	8452	broad.mit.edu	37	chr2	225378310	225378310	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatagactgatcttccttcGagacctaaaatcattaacat	14	13	4	10	1	3	3	2	1	1	2	5	4	4	3	2	0	1	0	2	0	4	5	rs17408300	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:225378310G>A	uc002vny.2	-	5	969	c.585C>T	c.(583-585)CTC>CTT	p.L195L	CUL3_uc010zls.1_Silent_p.L129L|CUL3_uc010fwy.1_Silent_p.L201L	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	195					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		ATCTTCCTTCGAGACCTAAAA	0.303													4	41					0	0	1	0	0		A	225378310	A	A	225378310	2	1	89	1	0	0	0	0	0	0	0	1	4059	1045	37	1		1	CUL3	2	225378310	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1594523	225378310	17821063	1315	55146											
KIAA1486	57624	broad.mit.edu	37	chr2	226446931	226446931	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgatgaccagagcgaggcCgtctacgaggaaatgaagta	14	5	14	8	4	1	3	0	2	1	1	1	8	1	4	2	2	2	1	2	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:226446931C>T	uc002voe.2	+	4	973	c.798C>T	c.(796-798)GCC>GCT	p.A266A	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Silent_p.A36A	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	266										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		AGAGCGAGGCCGTCTACGAGG	0.562													50	121					0	0	1	0	0		T	226446931	T	T	226446931	2	4	89	1	0	0	0	0	0	0	0	1	8253	639	23	1		1	KIAA1486	2	226446931	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1068621	226446931	16752442	1316	55147											
IRS1	3667	broad.mit.edu	37	chr2	227661066	227661066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttgcagcatagagaaggcGaccagagctagtggaaaggc	13	6	15	7	1	0	2	0	0	0	2	0	5	0	3	1	3	3	4	1	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:227661066G>A	uc002voh.3	-	1	2441	c.2389C>T	c.(2389-2391)CGC>TGC	p.R797C		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	797					fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		TAGAGAAGGCGACCAGAGCTA	0.617													52	137					0	0	1	0	0		A	227661066	A	A	227661066	3	1	89	1	0	0	0	0	1	0	0	0	7856	1058	37	1	1343	1	IRS1	2	227661066	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1214135	227661066	15538307	1317	55148											
COL4A4	1286	broad.mit.edu	37	chr2	227946898	227946898	+	Silent	SNP	C	T	T																															ggtggtccagaggcaccatgCtttcccttggtgaaaaataa																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:227946898C>T	uc010zlt.1	-	23	2283	c.1629G>A	c.(1627-1629)AAG>AAA	p.K543K		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	543	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		AGGCACCATGCTTTCCCTTGG	0.413													57	109					0	0	1	0	0		T	227946898	T	T	227946898	2	4	89	1	0	0	0	0	0	0	0	1	3696	796	28	2		2	COL4A4	2	227946898	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	285832	227946898	15252475	1318	55149	101	2									
COL4A4	1286	broad.mit.edu	37	chr2	227946900	227946900	+	Missense_Mutation	SNP	T	G	G																															tggtccagaggcaccatgctTtcccttggtgaaaaataaga																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:227946900T>G	uc010zlt.1	-	23	2281	c.1627A>C	c.(1627-1629)AAG>CAG	p.K543Q		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	543	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		GCACCATGCTTTCCCTTGGTG	0.418													56	108					0	0	1	0	0		G	227946900	G	G	227946900	3	3	89	1	0	0	0	0	1	0	0	0	3696	1850	64	5	3549	5	COL4A4	2	227946900	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2	227946900	15252473	1319	55150	101	2									
COL4A3	1285	broad.mit.edu	37	chr2	228163401	228163401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttttcatgaattcaggtgCgcctggtccccctggacctc	6	12	9	14	1	2	1	2	1	0	0	4	2	3	2	4	3	1	0	4	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:228163401C>T	uc002vom.1	+	43	3917	c.3755C>T	c.(3754-3756)GCG>GTG	p.A1252V	COL4A3_uc002von.1_Missense_Mutation_p.A1252V|COL4A3_uc002voo.1_Missense_Mutation_p.A1252V|COL4A3_uc002vop.1_Missense_Mutation_p.A1252V|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	1252	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		AATTCAGGTGCGCCTGGTCCC	0.483													27	53					0	0	1	0	0		T	228163401	T	T	228163401	3	4	89	1	0	0	0	0	1	0	0	0	3694	768	27	1	3925	1	COL4A3	2	228163401	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	216501	228163401	15035972	1320	55151											
COL4A3	1285	broad.mit.edu	37	chr2	228163523	228163523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagacatgggaccaccaggtCgtctggtgagtatggataat	11	9	14	7	1	1	2	0	1	1	1	2	5	1	4	2	4	0	1	2	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:228163523C>T	uc002vom.1	+	43	4039	c.3877C>T	c.(3877-3879)CGT>TGT	p.R1293C	COL4A3_uc002von.1_Missense_Mutation_p.R1293C|COL4A3_uc002voo.1_Missense_Mutation_p.R1293C|COL4A3_uc002vop.1_Missense_Mutation_p.R1293C|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	1293	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		ACCACCAGGTCGTCTGGTGAG	0.373													27	59					0	0	1	0	0		T	228163523	T	T	228163523	3	4	89	1	0	0	0	0	1	0	0	0	3694	884	31	1	4047	1	COL4A3	2	228163523	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	122	228163523	15035850	1321	55152											
SLC19A3	80704	broad.mit.edu	37	chr2	228563936	228563936	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtaaaagtacgacatgttCgccagggataccaagagttg	14	8	12	7	2	0	1	0	0	0	1	1	3	0	2	2	2	2	4	2	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:228563936C>T	uc002vpi.2	-	3	584	c.495G>A	c.(493-495)GCG>GCA	p.A165A	SLC19A3_uc002vpj.2_RNA|SLC19A3_uc010zlv.1_Silent_p.A161A	NM_025243	NP_079519	Q9BZV2	S19A3_HUMAN	solute carrier family 19, member 3	165	Helical; (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)	ACGACATGTTCGCCAGGGATA	0.542													43	151					0	0	1	0	0		T	228563936	T	T	228563936	2	4	89	1	0	0	0	0	0	0	0	1	14455	871	31	1		1	SLC19A3	2	228563936	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	400413	228563936	14635437	1322	55153											
WDR69	164781	broad.mit.edu	37	chr2	228769707	228769707	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagacagaatcatcacgggGtcttttgatcataccgttgt	10	12	11	8	2	4	3	3	1	1	2	4	4	4	3	1	3	1	1	1	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:228769707G>A	uc002vpn.1	+	8	790	c.711G>A	c.(709-711)GGG>GGA	p.G237G	WDR69_uc010zlw.1_Silent_p.G222G|WDR69_uc002vpo.1_RNA	NM_178821	NP_849143	Q8N136	WDR69_HUMAN	WD repeat domain 69	237	WD 4.									breast(1)	1		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;1.22e-10)|all cancers(144;8.11e-08)|Lung(261;0.011)|LUSC - Lung squamous cell carcinoma(224;0.0148)		TCATCACGGGGTCTTTTGATC	0.428													48	88					0	0	1	0	0		A	228769707	A	A	228769707	2	1	89	1	0	0	0	0	0	0	0	1	17345	1248	44	4		4	WDR69	2	228769707	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	205771	228769707	14429666	1323	55154											
SPHKAP	80309	broad.mit.edu	37	chr2	228886519	228886519	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagataaggaacagttcgtgTcatcctccagtttcaagatg	13	11	9	8	1	2	2	2	0	0	2	5	3	4	3	2	1	1	2	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:228886519T>C	uc002vpq.2	-	6	652	c.605A>G	c.(604-606)GAC>GGC	p.D202G	SPHKAP_uc002vpp.2_Missense_Mutation_p.D202G|SPHKAP_uc010zlx.1_Missense_Mutation_p.D202G	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	202						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		ACAGTTCGTGTCATCCTCCAG	0.463													30	96					0	0	1	0	0		C	228886519	C	C	228886519	3	2	89	1	0	0	0	0	1	0	0	0	15073	1667	58	3	4525	3	SPHKAP	2	228886519	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	116812	228886519	14312854	1324	55155											
SPHKAP	80309	broad.mit.edu	37	chr2	228886659	228886659	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcttgcacattggaccaaGcagatatctggcagccaagg	11	8	10	12	0	2	1	0	0	2	1	2	2	2	2	3	3	3	3	3	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:228886659G>A	uc002vpq.2	-	6	512	c.465C>T	c.(463-465)TGC>TGT	p.C155C	SPHKAP_uc002vpp.2_Silent_p.C155C|SPHKAP_uc010zlx.1_Silent_p.C155C	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	155						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		ATTGGACCAAGCAGATATCTG	0.428													28	35					0	0	1	0	0		A	228886659	A	A	228886659	2	1	89	1	0	0	0	0	0	0	0	1	15073	963	34	2		2	SPHKAP	2	228886659	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	140	228886659	14312714	1325	55156											
DNER	92737	broad.mit.edu	37	chr2	230253102	230253102	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattcatttatgtcaatgtcGcactcttcacctagggagat	10	14	7	10	1	4	1	3	0	1	1	5	2	4	1	1	1	0	1	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:230253102G>A	uc002vpv.2	-	11	1881	c.1734C>T	c.(1732-1734)TGC>TGT	p.C578C		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	578	Extracellular (Potential).|EGF-like 9.				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		TGTCAATGTCGCACTCTTCAC	0.502													48	120					0	0	1	0	0		A	230253102	A	A	230253102	2	1	89	1	0	0	0	0	0	0	0	1	4673	1079	38	1		1	DNER	2	230253102	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1366443	230253102	12946271	1326	55157											
SLC16A14	151473	broad.mit.edu	37	chr2	230910719	230910719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacactaatgcaaggcaagtCggctatgacgcccaggatca	14	6	10	11	2	1	1	1	1	0	0	2	2	1	2	1	3	2	3	1	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:230910719C>T	uc002vqd.1	-	4	1486	c.1123G>A	c.(1123-1125)GAC>AAC	p.D375N	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Missense_Mutation_p.D375N|SLC16A14_uc002vqf.2_Missense_Mutation_p.D375N	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	375	Extracellular (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		CAAGGCAAGTCGGCTATGACG	0.443													24	72					0	0	1	0	0		T	230910719	T	T	230910719	3	4	89	1	0	0	0	0	1	0	0	0	14432	884	31	1	417	1	SLC16A14	2	230910719	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	657617	230910719	12288654	1327	55158											
SLC16A14	151473	broad.mit.edu	37	chr2	230911332	230911332	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagtcattaggaacgtaccGaatccggtccccgtggtgct	9	9	11	12	4	1	0	1	0	0	0	3	2	3	1	4	3	3	2	4	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:230911332G>A	uc002vqd.1	-	4	873	c.510C>T	c.(508-510)TTC>TTT	p.F170F	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Silent_p.F170F|SLC16A14_uc002vqf.2_Silent_p.F170F	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	170	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		GGAACGTACCGAATCCGGTCC	0.602													38	75					0	0	1	0	0		A	230911332	A	A	230911332	2	1	89	1	0	0	0	0	0	0	0	1	14432	1049	37	1		1	SLC16A14	2	230911332	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	613	230911332	12288041	1328	55159											
SP110	3431	broad.mit.edu	37	chr2	231042332	231042332	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgttccttccttttccttcGacttcaaattcatttggtgt	5	19	6	11	2	2	0	2	0	0	0	6	1	5	0	3	1	0	1	3	1	1	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:231042332G>A	uc002vqh.3	-	14	1752	c.1512C>T	c.(1510-1512)GTC>GTT	p.V504V	SP110_uc002vqg.3_Silent_p.V504V|SP110_uc002vqi.3_Silent_p.V504V|SP110_uc010fxk.2_Silent_p.V502V|SP110_uc010fxj.2_Silent_p.V147V	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	504	SAND.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		CTTTTCCTTCGACTTCAAATT	0.433													112	207					0	0	1	0	0		A	231042332	A	A	231042332	2	1	89	1	0	0	0	0	0	0	0	1	14986	1045	37	1		1	SP110	2	231042332	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	131000	231042332	12157041	1329	55160											
SP110	3431	broad.mit.edu	37	chr2	231081618	231081618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgctgaaaaagagcctcttCcatggctcttgtcatggtga	9	12	11	9	0	3	3	1	2	2	1	4	3	4	3	2	2	2	2	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:231081618C>T	uc002vqh.3	-	2	265	c.25G>A	c.(25-27)GAA>AAA	p.E9K	SP110_uc002vqg.3_Missense_Mutation_p.E9K|SP110_uc002vqi.3_Missense_Mutation_p.E9K|SP110_uc010fxk.2_Missense_Mutation_p.E9K	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	9	HSR.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		AGAGCCTCTTCCATGGCTCTT	0.363													27	28					0	0	1	0	0		T	231081618	T	T	231081618	3	4	89	1	0	0	0	0	1	0	0	0	14986	864	30	4	2252	4	SP110	2	231081618	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	39286	231081618	12117755	1330	55161											
SP140L	93349	broad.mit.edu	37	chr2	231249977	231249977	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccagctggtctcgagtgaaAagaaggcgaacatgaatctg	13	7	13	8	2	2	3	0	2	2	1	3	5	2	3	1	2	2	1	1	2	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:231249977A>C	uc010fxm.1	+	9	833	c.742A>C	c.(742-744)AAG>CAG	p.K248Q	SP140L_uc010fxo.1_Missense_Mutation_p.K55Q	NM_138402	NP_612411	Q9H930	LY10L_HUMAN	SP140 nuclear body protein-like	248						nucleus	DNA binding|metal ion binding			central_nervous_system(1)	1						CTCGAGTGAAAAGAAGGCGAA	0.463													28	48					0	0	1	0	0		C	231249977	C	C	231249977	3	2	89	1	0	0	0	0	1	0	0	0	14988	15	1	5	776	5	SP140L	2	231249977	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	168359	231249977	11949396	1331	55162											
SP100	6672	broad.mit.edu	37	chr2	231380147	231380147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggatgtggaataacaccgCtgcagctgacaagcagtttt	12	9	12	8	1	0	1	0	1	0	0	0	3	0	3	1	2	4	5	1	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:231380147C>T	uc002vqt.2	+	25	2573	c.2432C>T	c.(2431-2433)GCT>GTT	p.A811V	SP100_uc002vqu.1_Intron|SP100_uc010fxp.1_Intron	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	811	HMG box 2.				DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		AATAACACCGCTGCAGCTGAC	0.284													35	49					0	0	1	0	0		T	231380147	T	T	231380147	3	4	89	1	0	0	0	0	1	0	0	0	14985	797	28	2	2530	2	SP100	2	231380147	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	130170	231380147	11819226	1332	55163											
B3GNT7	93010	broad.mit.edu	37	chr2	232262514	232262514	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacggtgttccaacgcagTctcacccctggtcagtttct	6	12	10	13	2	3	1	2	1	2	0	5	1	4	1	3	2	1	3	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:232262514T>C	uc002vrs.2	+	2	264	c.84T>C	c.(82-84)AGT>AGC	p.S28S		NM_145236	NP_660279	Q8NFL0	B3GN7_HUMAN	UDP-GlcNAc:betaGal	28	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;3.22e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0139)		TCCAACGCAGTCTCACCCCTG	0.617													36	61					0	0	1	0	0		C	232262514	C	C	232262514	2	2	89	1	0	0	0	0	0	0	0	1	1263	1664	58	3		3	B3GNT7	2	232262514	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	882367	232262514	10936859	1333	55164											
NCL	4691	broad.mit.edu	37	chr2	232320835	232320835	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaggcctttgacaaacagaGttttggatggctctgggaag	11	10	13	7	0	1	2	0	1	1	1	1	4	1	4	1	4	1	2	1	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:232320835G>T	uc002vru.2	-	12	1859	c.1718C>A	c.(1717-1719)ACT>AAT	p.T573N	SNORA75_uc002vrv.1_5'Flank	NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	573	RRM 4.				angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		GACAAACAGAGTTTTGGATGG	0.438													17	44					1.33834e-09	1.43956e-09	1	1	0		T	232320835	T	T	232320835	3	4	89	1	0	0	0	0	1	0	0	0	10245	1029	36	5	426	5	NCL	2	232320835	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	58321	232320835	10878538	1334	55165											
CHRNG	1146	broad.mit.edu	37	chr2	233407646	233407646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagatgctcctggacccagCggcgccagcccaggaagcag	10	3	13	15	2	0	1	0	0	0	1	1	3	1	3	4	3	4	2	4	3	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:233407646C>T	uc002vsx.1	+	7	680	c.659C>T	c.(658-660)GCG>GTG	p.A220V	CHRNG_uc010fye.1_Missense_Mutation_p.A168V	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	220	Extracellular (Potential).				muscle contraction	cell junction|postsynaptic membrane	acetylcholine receptor activity				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;6.39e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00079)|LUSC - Lung squamous cell carcinoma(224;0.00757)|Lung(119;0.0086)		CTGGACCCAGCGGCGCCAGCC	0.632													24	49					0	0	1	0	0		T	233407646	T	T	233407646	3	4	89	1	0	0	0	0	1	0	0	0	3399	768	27	1	685	1	CHRNG	2	233407646	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1086811	233407646	9791727	1335	55166											
GIGYF2	26058	broad.mit.edu	37	chr2	233655451	233655451	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaacacatggaacgacgTcggaggtttgagtttgattt	10	11	14	6	4	0	2	0	2	0	0	1	6	0	5	0	4	2	2	0	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:233655451T>C	uc002vti.3	+	12	1093	c.756T>C	c.(754-756)CGT>CGC	p.R252R	GIGYF2_uc010zmj.1_Silent_p.R252R|GIGYF2_uc002vtg.2_Silent_p.R246R|GIGYF2_uc002vtj.3_Silent_p.R274R|GIGYF2_uc002vtk.3_Silent_p.R252R|GIGYF2_uc002vth.3_Silent_p.R246R|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Silent_p.R83R	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	252	Arg-rich.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		TGGAACGACGTCGGAGGTTTG	0.478													84	173					0	0	1	0	0		C	233655451	C	C	233655451	2	2	89	1	0	0	0	0	0	0	0	1	6393	1654	58	3		3	GIGYF2	2	233655451	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	247805	233655451	9543922	1336	55167											
SAG	6295	broad.mit.edu	37	chr2	234217909	234217909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagatctcccgggacaaatCggtgagtggtgcacaagtga	12	7	14	8	2	1	3	0	2	1	1	3	5	1	4	1	3	1	1	1	3	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:234217909C>T	uc002vuh.2	+	2	462	c.74C>T	c.(73-75)TCG>TTG	p.S25L	SAG_uc002vug.2_Intron|SAG_uc010zmq.1_5'UTR	NM_000541	NP_000532	P10523	ARRS_HUMAN	S-arrestin	25					rhodopsin mediated phototransduction|rhodopsin mediated signaling pathway		protein phosphatase inhibitor activity			ovary(1)	1		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.018)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.054)		Epithelial(121;2.86e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00608)|Lung(119;0.00714)|GBM - Glioblastoma multiforme(43;0.207)		CGGGACAAATCGGTGAGTGGT	0.423													15	27					0	0	1	0	0		T	234217909	T	T	234217909	3	4	89	1	0	0	0	0	1	0	0	0	13833	898	31	1	76	1	SAG	2	234217909	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	562458	234217909	8981464	1337	55168											
SAG	6295	broad.mit.edu	37	chr2	234243632	234243632	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagtgccaccaaacagcacTttgaccaagacgctgacgct	14	6	8	13	2	0	3	0	2	0	1	0	3	0	3	3	0	3	3	3	0	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:234243632T>G	uc002vuh.2	+	11	1219	c.831T>G	c.(829-831)ACT>ACG	p.T277T	SAG_uc010zmq.1_Silent_p.T143T	NM_000541	NP_000532	P10523	ARRS_HUMAN	S-arrestin	277					rhodopsin mediated phototransduction|rhodopsin mediated signaling pathway		protein phosphatase inhibitor activity			ovary(1)	1		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.018)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.054)		Epithelial(121;2.86e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00608)|Lung(119;0.00714)|GBM - Glioblastoma multiforme(43;0.207)		CAAACAGCACTTTGACCAAGA	0.488													42	72					0	0	1	0	0		G	234243632	G	G	234243632	2	3	89	1	0	0	0	0	0	0	0	1	13833	1596	56	5		5	SAG	2	234243632	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	25723	234243632	8955741	1338	55169											
USP40	55230	broad.mit.edu	37	chr2	234394260	234394260	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttttctttttcctcttggTtatttgttggttctatggga	3	25	8	5	0	3	0	0	0	3	0	4	1	4	1	1	3	0	3	1	3	2	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:234394260T>C	uc010zmr.1	-	29	3454	c.3454A>G	c.(3454-3456)ACC>GCC	p.T1152A	USP40_uc002vul.2_Missense_Mutation_p.T136A	NM_018218	NP_060688	Q9NVE5	UBP40_HUMAN	ubiquitin thioesterase 40	1140					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)|breast(1)	3		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0539)		Epithelial(121;1.71e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000407)|Lung(119;0.00277)|LUSC - Lung squamous cell carcinoma(224;0.00646)		TTCCTCTTGGTTATTTGTTGG	0.338													9	15					0	0	1	0	0		C	234394260	C	C	234394260	3	2	89	1	0	0	0	0	1	0	0	0	17098	1725	60	3	301	3	USP40	2	234394260	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	150628	234394260	8805113	1339	55170											
UGT1A9	54600	broad.mit.edu	37	chr2	234580975	234580975	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtttgtttaaagacaaaaAattagtagaatacttaaagg	19	12	8	2	0	0	2	0	0	0	2	0	3	0	2	0	1	1	3	0	1	11	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:234580975A>C	uc002vus.2	+	1	432	c.395A>C	c.(394-396)AAA>ACA	p.K132T	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Missense_Mutation_p.K132T	NM_021027	NP_066307	O60656	UD19_HUMAN	UDP glycosyltransferase 1 family, polypeptide A9	132					drug metabolic process|flavone metabolic process|negative regulation of fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding	p.K132I(1)		ovary(3)|breast(1)|skin(1)	5		Breast(86;0.000766)|all_lung(227;0.00269)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0331)|Lung NSC(271;0.0459)|Lung SC(224;0.128)		Epithelial(121;1.26e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000436)|Lung(119;0.00347)|LUSC - Lung squamous cell carcinoma(224;0.00757)	Entacapone(DB00494)|Etodolac(DB00749)|Indomethacin(DB00328)|Irinotecan(DB00762)|Mycophenolic acid(DB01024)|Oxyphenonium(DB00219)|Propofol(DB00818)|Sorafenib(DB00398)	AAAGACAAAAAATTAGTAGAA	0.323													37	71					0	0	1	0	0		C	234580975	C	C	234580975	3	2	89	1	0	0	0	0	1	0	0	0	16978	14	1	5	397	5	UGT1A9	2	234580975	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	186715	234580975	8618398	1340	55171											
UGT1A9	54600	broad.mit.edu	37	chr2	234581149	234581149	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgctcctctttcctatgTccccagaattctcttagggt	5	15	6	15	0	2	1	0	0	2	1	6	1	5	1	5	1	1	1	5	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:234581149T>C	uc002vus.2	+	1	606	c.569T>C	c.(568-570)GTC>GCC	p.V190A	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Missense_Mutation_p.V190A	NM_021027	NP_066307	O60656	UD19_HUMAN	UDP glycosyltransferase 1 family, polypeptide A9	190					drug metabolic process|flavone metabolic process|negative regulation of fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding			ovary(3)|breast(1)|skin(1)	5		Breast(86;0.000766)|all_lung(227;0.00269)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0331)|Lung NSC(271;0.0459)|Lung SC(224;0.128)		Epithelial(121;1.26e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000436)|Lung(119;0.00347)|LUSC - Lung squamous cell carcinoma(224;0.00757)	Entacapone(DB00494)|Etodolac(DB00749)|Indomethacin(DB00328)|Irinotecan(DB00762)|Mycophenolic acid(DB01024)|Oxyphenonium(DB00219)|Propofol(DB00818)|Sorafenib(DB00398)	CTTTCCTATGTCCCCAGAATT	0.483													89	177					0	0	1	0	0		C	234581149	C	C	234581149	3	2	89	1	0	0	0	0	1	0	0	0	16978	1667	58	3	571	3	UGT1A9	2	234581149	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	174	234581149	8618224	1341	55172											
UGT1A7	54577	broad.mit.edu	37	chr2	234590891	234590891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgctggacggcaccattgcGaagtgcattttctctattaa	9	13	9	10	3	1	0	0	0	1	0	3	2	1	1	1	2	2	3	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:234590891G>A	uc002vut.2	+	1	308	c.308G>A	c.(307-309)CGA>CAA	p.R103Q	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Missense_Mutation_p.R103Q	NM_019077	NP_061950	Q9HAW7	UD17_HUMAN	UDP glycosyltransferase 1 family, polypeptide A7	103					drug metabolic process|negative regulation of fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	drug binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding|retinoic acid binding			ovary(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;8.93e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000412)|Lung(119;0.00333)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GCACCATTGCGAAGTGCATTT	0.403													50	122					0	0	1	0	0		A	234590891	A	A	234590891	3	1	89	1	0	0	0	0	1	0	0	0	16976	1058	37	1	310	1	UGT1A7	2	234590891	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9742	234590891	8608482	1342	55173											
UGT1A6	54578	broad.mit.edu	37	chr2	234602500	234602500	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaactgtaagaagaggaaaGacttgtctcaggttggtggg	12	10	14	5	0	2	3	2	0	1	3	3	4	2	4	0	4	1	2	0	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:234602500G>T	uc002vuv.3	+	1	989	c.850G>T	c.(850-852)GAC>TAC	p.D284Y	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Missense_Mutation_p.D17Y|UGT1A6_uc010zmy.1_Missense_Mutation_p.D284Y	NM_001072	NP_001063	P19224	UD16_HUMAN	UDP glycosyltransferase 1 family, polypeptide A6	284					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity				0		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;5.86e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000384)|Lung(119;0.00306)|LUSC - Lung squamous cell carcinoma(224;0.00702)		GAAGAGGAAAGACTTGTCTCA	0.468													159	339					7.43762e-64	9.27664e-64	1	1	0		T	234602500	T	T	234602500	3	4	89	1	0	0	0	0	1	0	0	0	16975	942	33	5	852	5	UGT1A6	2	234602500	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11609	234602500	8596873	1343	55174											
UGT1A3	54659	broad.mit.edu	37	chr2	234638079	234638079	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acactcaactgtactttgaaAcagaacattttctgaagaaa	17	11	5	8	0	2	4	1	2	1	2	2	4	2	4	0	0	4	1	0	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:234638079A>G	uc002vuy.2	+	1	307	c.307A>G	c.(307-309)ACA>GCA	p.T103A	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Missense_Mutation_p.T103A	NM_019093	NP_061966	P35503	UD13_HUMAN	UDP glycosyltransferase 1 family, polypeptide A3	103					flavonoid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding			ovary(1)	1		Breast(86;0.000765)|all_lung(227;0.00266)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0456)|Lung SC(224;0.128)		Epithelial(121;2.4e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000476)|Lung(119;0.00243)|LUSC - Lung squamous cell carcinoma(224;0.00599)		GTACTTTGAAACAGAACATTT	0.408													64	114					0	0	1	0	0		G	234638079	G	G	234638079	3	3	89	1	0	0	0	0	1	0	0	0	16972	43	2	3	309	3	UGT1A3	2	234638079	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	35579	234638079	8561294	1344	55175											
SPP2	6694	broad.mit.edu	37	chr2	234975882	234975882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttacaggtctcatttcagacGagtccataagtgaacaattt	13	13	7	8	1	2	2	2	1	1	1	4	3	3	2	1	1	2	0	1	1	4	4	rs147173896	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:234975882G>A	uc002vvk.1	+	6	599	c.514G>A	c.(514-516)GAG>AAG	p.E172K	SPP2_uc010fyl.1_Missense_Mutation_p.E92K	NM_006944	NP_008875	Q13103	SPP24_HUMAN	secreted phosphoprotein 2, 24kDa precursor	172					bone remodeling|skeletal system development	extracellular region	endopeptidase inhibitor activity				0		Breast(86;0.0109)|Renal(207;0.019)|all_lung(227;0.13)|all_hematologic(139;0.182)		Epithelial(121;5.73e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000166)|Lung(119;0.00539)|LUSC - Lung squamous cell carcinoma(224;0.00846)		CATTTCAGACGAGTCCATAAG	0.398													42	104					0	0	1	0	0		A	234975882	A	A	234975882	3	1	89	1	0	0	0	0	1	0	0	0	15112	1059	37	1	536	1	SPP2	2	234975882	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	337803	234975882	8223491	1345	55176											
SH3BP4	23677	broad.mit.edu	37	chr2	235951091	235951091	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgagcaggccaaagtggtgCgaggattccagctgaagctg	10	6	16	9	2	0	1	0	1	0	0	1	4	1	2	2	3	4	3	2	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:235951091C>T	uc002vvp.2	+	4	2071	c.1678C>T	c.(1678-1680)CGA>TGA	p.R560*	SH3BP4_uc010fym.2_Nonsense_Mutation_p.R560*|SH3BP4_uc002vvq.2_Nonsense_Mutation_p.R560*	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	560					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		CAAAGTGGTGCGAGGATTCCA	0.557													42	78					0	0	1	0	0		T	235951091	T	T	235951091	4	4	89	1	0	0	0	0	0	1	0	0	14271	760	27	1	1684	1	SH3BP4	2	235951091	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	975209	235951091	7248282	1346	55177											
AGAP1	116987	broad.mit.edu	37	chr2	236659049	236659049	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgatgacgccagggcgaggaAgctctccaacgacctgaaac	12	4	12	13	4	1	2	0	2	1	0	2	6	1	3	3	2	3	1	3	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:236659049A>C	uc002vvs.2	+	6	1185	c.590A>C	c.(589-591)AAG>ACG	p.K197T	AGAP1_uc002vvt.2_Missense_Mutation_p.K197T	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	197	Small GTPase-like.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						AGGGCGAGGAAGCTCTCCAAC	0.537													49	95					0	0	1	0	0		C	236659049	C	C	236659049	3	2	89	1	0	0	0	0	1	0	0	0	366	72	3	5	612	5	AGAP1	2	236659049	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	707958	236659049	6540324	1347	55178											
ASB18	401036	broad.mit.edu	37	chr2	237172856	237172856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attggccagttctatcacagCgtccacaggcgtgatttcag	9	11	10	11	2	3	1	2	1	1	0	4	1	4	1	2	2	1	1	2	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:237172856C>T	uc010znh.1	-	1	133	c.133G>A	c.(133-135)GCT>ACT	p.A45T		NM_212556	NP_997721	Q6ZVZ8	ASB18_HUMAN	ankyrin repeat and SOCS box-containing 18	45					intracellular signal transduction					ovary(1)	1		all_hematologic(139;0.00615)|Renal(207;0.00963)|Breast(86;0.0126)|Acute lymphoblastic leukemia(138;0.0815)		Epithelial(121;2.04e-26)|OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(100;2.88e-05)|Lung(119;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00644)|GBM - Glioblastoma multiforme(43;0.244)		TCTATCACAGCGTCCACAGGC	0.517													20	34					0	0	1	0	0		T	237172856	T	T	237172856	3	4	89	1	0	0	0	0	1	0	0	0	1023	768	27	1	1290	1	ASB18	2	237172856	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	513807	237172856	6026517	1348	55179											
COL6A3	1293	broad.mit.edu	37	chr2	238275778	238275778	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattcgtcagtggggtcagaGttgtactggacaagccccac	10	9	12	10	1	2	1	2	0	0	1	3	2	2	2	2	3	2	2	2	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:238275778G>T	uc002vwl.2	-	11	5337	c.5052C>A	c.(5050-5052)AAC>AAA	p.N1684K	COL6A3_uc002vwo.2_Missense_Mutation_p.N1478K|COL6A3_uc010znj.1_Missense_Mutation_p.N1077K	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1684	VWFA 9.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TGGGGTCAGAGTTGTACTGGA	0.488													7	36					2.0095e-06	2.09092e-06	1	1	0		T	238275778	T	T	238275778	3	4	89	1	0	0	0	0	1	0	0	0	3704	1020	36	5	4617	5	COL6A3	2	238275778	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1102922	238275778	4923595	1349	55180											
COL6A3	1293	broad.mit.edu	37	chr2	238287555	238287555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggagctgcggcacgtgttCacggatcctgctgccgccag	6	7	14	14	4	1	0	1	0	0	0	2	2	2	2	3	3	4	4	3	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:238287555C>T	uc002vwl.2	-	6	2506	c.2221G>A	c.(2221-2223)GAA>AAA	p.E741K	COL6A3_uc002vwo.2_Missense_Mutation_p.E535K|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwq.2_Missense_Mutation_p.E535K|COL6A3_uc002vwr.2_Missense_Mutation_p.E334K|COL6A3_uc010znk.1_Intron	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	741	VWFA 4.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GGCACGTGTTCACGGATCCTG	0.602													17	42					0	0	1	0	0		T	238287555	T	T	238287555	3	4	89	1	0	0	0	0	1	0	0	0	3704	835	29	4	7515	4	COL6A3	2	238287555	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11777	238287555	4911818	1350	55181											
COL6A3	1293	broad.mit.edu	37	chr2	238289942	238289942	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcggttatgacttccctttTtgttggatgggtattgaaat	8	17	11	5	1	0	2	0	2	0	0	1	3	1	3	1	3	1	3	1	3	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:238289942T>G	uc002vwl.2	-	5	1798	c.1513A>C	c.(1513-1515)AAA>CAA	p.K505Q	COL6A3_uc002vwo.2_Missense_Mutation_p.K299Q|COL6A3_uc010znj.1_Missense_Mutation_p.K98Q|COL6A3_uc002vwq.2_Missense_Mutation_p.K299Q|COL6A3_uc002vwr.2_Missense_Mutation_p.K98Q|COL6A3_uc010znk.1_Missense_Mutation_p.K505Q	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	505	VWFA 3.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		ACTTCCCTTTTTGTTGGATGG	0.507													58	126					0	0	1	0	0		G	238289942	G	G	238289942	3	3	89	1	0	0	0	0	1	0	0	0	3704	1850	64	5	8227	5	COL6A3	2	238289942	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2387	238289942	4909431	1351	55182											
COL6A3	1293	broad.mit.edu	37	chr2	238303336	238303336	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgaagtgaggtaaaattCtctaggttgaacatatgcat	14	13	9	5	0	2	3	1	3	1	0	3	3	2	3	0	2	2	3	0	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:238303336C>A	uc002vwl.2	-	3	888	c.603G>T	c.(601-603)GAG>GAT	p.E201D	COL6A3_uc002vwo.2_Intron|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwq.2_Intron|COL6A3_uc002vwr.2_Intron|COL6A3_uc010znk.1_Missense_Mutation_p.E201D	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	201	VWFA 1.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AGGTAAAATTCTCTAGGTTGA	0.428													33	65					2.80507e-11	3.07208e-11	1	1	0		A	238303336	A	A	238303336	3	1	89	1	0	0	0	0	1	0	0	0	3704	912	32	5	9145	5	COL6A3	2	238303336	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13394	238303336	4896037	1352	55183											
RBM44	375316	broad.mit.edu	37	chr2	238726139	238726139	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaatatcacagtgcagaaGaacaagaatacataagtaac	21	6	8	6	0	1	3	1	0	0	3	1	4	1	4	0	1	4	2	0	1	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:238726139G>T	uc002vxi.3	+	3	712	c.580G>T	c.(580-582)GAA>TAA	p.E194*		NM_001080504	NP_001073973	Q6ZP01	RBM44_HUMAN	RNA binding motif protein 44	193							nucleotide binding|RNA binding			ovary(4)	4		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;3.74e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.3e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000118)|Lung(119;0.0112)|LUSC - Lung squamous cell carcinoma(224;0.0266)		CAGTGCAGAAGAACAAGAATA	0.323													15	11					6.31663e-08	6.6657e-08	1	1	0		T	238726139	T	T	238726139	4	4	89	1	0	0	0	0	0	1	0	0	13163	943	33	5	586	5	RBM44	2	238726139	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	422803	238726139	4473234	1353	55184											
RBM44	375316	broad.mit.edu	37	chr2	238726184	238726184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatcttttgaccaaacaaaaGcattagatatatctaatcca	17	13	3	8	0	2	2	0	1	2	1	3	2	3	2	2	0	2	1	2	0	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:238726184G>A	uc002vxi.3	+	3	757	c.625G>A	c.(625-627)GCA>ACA	p.A209T		NM_001080504	NP_001073973	Q6ZP01	RBM44_HUMAN	RNA binding motif protein 44	208							nucleotide binding|RNA binding			ovary(4)	4		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;3.74e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.3e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000118)|Lung(119;0.0112)|LUSC - Lung squamous cell carcinoma(224;0.0266)		CCAAACAAAAGCATTAGATAT	0.343													13	24					0	0	1	0	0		A	238726184	A	A	238726184	3	1	89	1	0	0	0	0	1	0	0	0	13163	971	34	2	631	2	RBM44	2	238726184	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	45	238726184	4473189	1354	55185											
RBM44	375316	broad.mit.edu	37	chr2	238726378	238726378	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattctgttatgttaagagaAtatcatgacctaaagcatga	16	13	7	5	0	2	3	1	2	1	1	2	4	2	3	1	0	1	3	1	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:238726378A>C	uc002vxi.3	+	3	951	c.819A>C	c.(817-819)GAA>GAC	p.E273D		NM_001080504	NP_001073973	Q6ZP01	RBM44_HUMAN	RNA binding motif protein 44	272							nucleotide binding|RNA binding			ovary(4)	4		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;3.74e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.3e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000118)|Lung(119;0.0112)|LUSC - Lung squamous cell carcinoma(224;0.0266)		TGTTAAGAGAATATCATGACC	0.363													12	25					0	0	1	0	0		C	238726378	C	C	238726378	3	2	89	1	0	0	0	0	1	0	0	0	13163	98	4	5	825	5	RBM44	2	238726378	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	194	238726378	4472995	1355	55186											
UBE2F	140739	broad.mit.edu	37	chr2	238940868	238940868	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttttttatttcaggatgtCgtttggggattaaactcttt	7	21	8	5	1	3	0	1	0	2	0	4	2	3	2	0	3	1	1	0	3	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:238940868C>T	uc002vxk.2	+	8	508	c.417C>T	c.(415-417)GTC>GTT	p.V139V	UBE2F_uc010znn.1_Silent_p.V107V|UBE2F_uc002vxl.2_RNA|UBE2F_uc010zno.1_RNA|UBE2F_uc010znp.1_Intron|SCLY_uc002vxm.3_5'UTR	NM_080678	NP_542409	Q969M7	UBE2F_HUMAN	NEDD8-conjugating enzyme	139					protein neddylation		ATP binding|NEDD8 ligase activity|protein binding				0		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;6.7e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|Kidney(56;3.53e-09)|KIRC - Kidney renal clear cell carcinoma(57;9.79e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000136)|Lung(119;0.0126)|LUSC - Lung squamous cell carcinoma(224;0.0301)		TTCAGGATGTCGTTTGGGGAT	0.338													6	18					0	0	1	0	0		T	238940868	T	T	238940868	2	4	89	1	0	0	0	0	0	0	0	1	16881	871	31	1		1	UBE2F	2	238940868	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	214490	238940868	4258505	1356	55187											
KLHL30	377007	broad.mit.edu	37	chr2	239049818	239049818	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcctgggcatctgtgagttCggggagcagcaagggctgct	6	9	17	9	1	1	1	0	1	1	0	2	2	1	2	1	4	4	6	1	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:239049818C>T	uc002vxr.1	+	1	402	c.369C>T	c.(367-369)TTC>TTT	p.F123F		NM_198582	NP_940984	Q0D2K2	KLH30_HUMAN	kelch-like 30	141											0		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;4.71e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.02e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.63e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000109)|Lung(119;0.0108)|LUSC - Lung squamous cell carcinoma(224;0.0253)		TCTGTGAGTTCGGGGAGCAGC	0.657													4	24					0	0	1	0	0		T	239049818	T	T	239049818	2	4	89	1	0	0	0	0	0	0	0	1	8400	883	31	1		1	KLHL30	2	239049818	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	108950	239049818	4149555	1357	55188											
PER2	8864	broad.mit.edu	37	chr2	239161703	239161703	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggttgagctgcaggggCgagctgctgcgggactgaaa	9	6	18	8	2	0	2	0	2	0	0	0	4	0	3	0	4	6	6	0	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:239161703C>T	uc002vyc.2	-	19	3198	c.2961G>A	c.(2959-2961)TCG>TCA	p.S987S	PER2_uc010znv.1_Silent_p.S987S	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	987					circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		GCTGCAGGGGCGAGCTGCTGC	0.682													30	46					0	0	1	0	0		T	239161703	T	T	239161703	2	4	89	1	0	0	0	0	0	0	0	1	11749	755	27	1		1	PER2	2	239161703	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	111885	239161703	4037670	1358	55189											
TRAF3IP1	26146	broad.mit.edu	37	chr2	239247082	239247082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgagccaaatcaggaaacGacaacatcagaaataggtaa	21	5	8	7	1	2	2	2	1	0	1	2	4	2	3	1	2	3	1	1	2	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:239247082G>A	uc002vye.2	+	8	1262	c.1143G>A	c.(1141-1143)ACG>ACA	p.T381T	TRAF3IP1_uc002vyf.2_Intron	NM_015650	NP_056465	Q8TDR0	MIPT3_HUMAN	TNF receptor-associated factor 3 interacting	381	DISC1-interaction domain.					cytoplasm|cytoskeleton	protein binding			ovary(1)	1		all_epithelial(40;3.22e-10)|Breast(86;0.000523)|Renal(207;0.00571)|Ovarian(221;0.156)|all_hematologic(139;0.182)		Epithelial(121;9.92e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.85e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.01e-07)|BRCA - Breast invasive adenocarcinoma(100;7.72e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0184)		ATCAGGAAACGACAACATCAG	0.294													16	20					0	0	1	0	0		A	239247082	A	A	239247082	2	1	89	1	0	0	0	0	0	0	0	1	16466	1045	37	1		1	TRAF3IP1	2	239247082	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	85379	239247082	3952291	1359	55190											
PPP1R7	5510	broad.mit.edu	37	chr2	242089964	242089964	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcaggagatgatggagggTgagcggcccctgcgggcggc	6	5	20	10	4	0	3	0	2	0	1	1	5	0	4	2	6	2	1	2	6	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:242089964T>C	uc002wat.1	+	1	67	c.52_splice	c.e1+2	p.V18_splice	PPP1R7_uc010fzm.1_Intron|PPP1R7_uc002war.2_Splice_Site_p.V18_splice|PPP1R7_uc002was.2_Splice_Site_p.V18_splice|PPP1R7_uc002wau.1_Splice_Site_p.E18_splice|PASK_uc002wao.1_5'Flank|PASK_uc010zom.1_5'Flank|PASK_uc010fzl.1_5'Flank|PASK_uc010zon.1_5'Flank|PASK_uc002waq.2_5'Flank	NM_002712	NP_002703	Q15435	PP1R7_HUMAN	protein phosphatase 1, regulatory subunit 7							cytoplasm|nucleus	protein binding|protein phosphatase type 1 regulator activity			ovary(3)	3		all_cancers(19;6.1e-33)|all_epithelial(40;1.07e-13)|Breast(86;0.000141)|Renal(207;0.00528)|all_lung(227;0.0446)|Ovarian(221;0.104)|Lung NSC(271;0.115)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.92e-32)|all cancers(36;5.35e-29)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-14)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.24e-08)|BRCA - Breast invasive adenocarcinoma(100;3.56e-06)|Lung(119;0.000588)|LUSC - Lung squamous cell carcinoma(224;0.0048)|Colorectal(34;0.0137)|COAD - Colon adenocarcinoma(134;0.096)		TGATGGAGGGTGAGCGGCCCC	0.692													5	12					0	0	1	0	0		C	242089964	C	C	242089964	5	2	89	1	0	0	0	0	0	0	1	0	12398	1710	59	3	56	3	PPP1R7	2	242089964	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2842882	242089964	1109409	1360	55191											
ANO7	50636	broad.mit.edu	37	chr2	242151518	242151518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatgccacagaaatgcaccGcacccagaccaagttcgagg	13	4	9	15	2	0	2	0	0	0	2	1	3	0	2	5	1	2	3	5	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:242151518G>A	uc002wax.2	+	16	1836	c.1733G>A	c.(1732-1734)CGC>CAC	p.R578H		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	578	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						GAAATGCACCGCACCCAGACC	0.582													22	64					0	0	1	0	0		A	242151518	A	A	242151518	3	1	89	1	0	0	0	0	1	0	0	0	702	1087	38	1	1867	1	ANO7	2	242151518	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	61554	242151518	1047855	1361	55192											
ANO7	50636	broad.mit.edu	37	chr2	242163334	242163334	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacaggttctttttggaacGaacggaacaaaggatgagca	14	8	13	6	2	1	1	0	1	1	0	1	6	1	5	0	5	4	2	0	5	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr2:242163334G>A	uc002wax.2	+	24	2812	c.2709G>A	c.(2707-2709)ACG>ACA	p.T903T		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	903	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						TTTTTGGAACGAACGGAACAA	0.602													30	63					0	0	1	0	0		A	242163334	A	A	242163334	2	1	89	1	0	0	0	0	0	0	0	1	702	1045	37	1		1	ANO7	2	242163334	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11816	242163334	1036039	1362	55193											
CNTN6	27255	broad.mit.edu	37	chr3	1425079	1425079	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatagaaacactggaagagTgctgggctatgaggtaatcc	14	8	13	6	0	0	3	0	1	0	2	1	5	1	4	1	3	2	3	1	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:1425079T>G	uc003boz.2	+	19	2771	c.2504T>G	c.(2503-2505)GTG>GGG	p.V835G	CNTN6_uc011asj.1_Missense_Mutation_p.V763G|CNTN6_uc003bpa.2_Missense_Mutation_p.V835G	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	835	Fibronectin type-III 3.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		ACTGGAAGAGTGCTGGGCTAT	0.443													57	48					0	0	1	0	0		G	1425079	G	G	1425079	3	3	89	1	0	0	0	0	1	0	0	0	3648	1696	59	5	2574	5	CNTN6	3	1425079	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08		1425079	196597351	1363	55194											
IL5RA	3568	broad.mit.edu	37	chr3	3137010	3137010	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatccattccttgtattgtgTatttttacttcataatcaaa	11	20	3	7	0	2	0	2	0	0	0	4	0	4	0	2	0	1	2	2	0	6	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:3137010T>C	uc011ask.1	-	9	1472	c.828A>G	c.(826-828)ATA>ATG	p.I276M	IL5RA_uc010hbq.2_Intron|IL5RA_uc010hbr.2_Intron|IL5RA_uc010hbs.2_Missense_Mutation_p.I276M|IL5RA_uc011asl.1_Missense_Mutation_p.I276M|IL5RA_uc011asm.1_Missense_Mutation_p.I276M|IL5RA_uc010hbt.2_Missense_Mutation_p.I276M|IL5RA_uc011asn.1_Missense_Mutation_p.I276M|IL5RA_uc010hbu.2_Missense_Mutation_p.I276M|IL5RA_uc010hbp.2_5'Flank	NM_000564	NP_000555	Q01344	IL5RA_HUMAN	interleukin 5 receptor, alpha isoform 1	276	Extracellular (Potential).				cell proliferation	extracellular space|integral to membrane|plasma membrane	interleukin-5 receptor activity			ovary(1)	1				Epithelial(13;0.00278)|all cancers(10;0.00809)|OV - Ovarian serous cystadenocarcinoma(96;0.00944)		TTGTATTGTGTATTTTTACTT	0.323													16	17					0	0	1	0	0		C	3137010	C	C	3137010	3	2	89	1	0	0	0	0	1	0	0	0	7716	1628	57	3	480	3	IL5RA	3	3137010	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1711931	3137010	194885420	1364	55195											
EDEM1	9695	broad.mit.edu	37	chr3	5241340	5241340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgatcaacacagtttcatttGacaaagattccaccgtccaa	14	11	5	11	1	2	3	2	2	0	1	4	3	4	3	3	0	1	1	3	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:5241340G>A	uc003bqi.2	+	3	778	c.646G>A	c.(646-648)GAC>AAC	p.D216N	EDEM1_uc011asz.1_Intron|EDEM1_uc003bqh.2_Missense_Mutation_p.D216N	NM_014674	NP_055489	Q92611	EDEM1_HUMAN	ER degradation enhancer, mannosidase alpha-like	216	Lumenal (Potential).				ER-associated protein catabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	integral to endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			ovary(2)|breast(1)	3				Epithelial(13;0.0588)|OV - Ovarian serous cystadenocarcinoma(96;0.0682)		AGTTTCATTTGACAAAGATTC	0.348													16	15					0	0	1	0	0		A	5241340	A	A	5241340	3	1	89	1	0	0	0	0	1	0	0	0	4917	1290	45	4	656	4	EDEM1	3	5241340	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2104330	5241340	192781090	1365	55196											
GRM7	2917	broad.mit.edu	37	chr3	6903450	6903450	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgcttactttcgtccaggcGctcatccagaaggacacctc	8	10	8	15	3	1	1	1	0	0	1	6	2	3	2	3	2	1	2	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:6903450G>A	uc003bqm.2	+	1	649	c.375G>A	c.(373-375)GCG>GCA	p.A125A	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Silent_p.A125A|GRM7_uc003bql.2_Silent_p.A125A	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	125	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	TCGTCCAGGCGCTCATCCAGA	0.602													28	21					0	0	1	0	0		A	6903450	A	A	6903450	2	1	89	1	0	0	0	0	0	0	0	1	6818	1074	38	1		1	GRM7	3	6903450	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1662110	6903450	191118980	1366	55197											
GRM7	2917	broad.mit.edu	37	chr3	7721736	7721736	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtgtgttgtgtctcctagCtctacatacaaactaccacg	9	14	7	11	1	2	0	0	0	2	0	3	0	2	0	2	0	5	2	2	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:7721736C>A	uc003bqm.2	+	9	2726	c.2452C>A	c.(2452-2454)CTC>ATC	p.L818I	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.L818I|GRM7_uc003bql.2_Missense_Mutation_p.L818I|GRM7_uc003bqn.1_Missense_Mutation_p.L401I	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	818	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	TGTCTCCTAGCTCTACATACA	0.433													17	28					4.7546e-09	5.08881e-09	1	1	0		A	7721736	A	A	7721736	3	1	89	1	0	0	0	0	1	0	0	0	6818	811	28	5	2486	5	GRM7	3	7721736	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	818286	7721736	190300694	1367	55198											
RAD18	56852	broad.mit.edu	37	chr3	8983301	8983301	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaatttgcttttattttCttttatcaacaactctgatg	9	20	5	7	0	3	2	1	2	2	0	3	2	3	2	0	0	3	2	0	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:8983301C>A	uc003brd.2	-	5	531	c.454G>T	c.(454-456)GAA>TAA	p.E152*	RAD18_uc003bre.2_RNA	NM_020165	NP_064550	Q9NS91	RAD18_HUMAN	postreplication repair protein hRAD18p	152					DNA repair	nucleus|replication fork	damaged DNA binding|ligase activity|ubiquitin protein ligase binding|Y-form DNA binding|zinc ion binding			skin(3)|ovary(2)	5				OV - Ovarian serous cystadenocarcinoma(96;0.0552)		CTTTTATTTTCTTTTATCAAC	0.443								Rad6_pathway					41	79					3.77016e-25	4.54193e-25	1	1	0		A	8983301	A	A	8983301	4	1	89	1	0	0	0	0	0	1	0	0	13005	922	32	5	1069	5	RAD18	3	8983301	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1261565	8983301	189039129	1368	55199											
RAD18	56852	broad.mit.edu	37	chr3	8990233	8990233	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagttttataggacagaaatTttcttatacagagagagcag	15	12	10	4	0	1	3	0	0	1	3	1	6	1	4	0	1	2	2	0	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:8990233T>G	uc003brd.2	-	3	232	c.155A>C	c.(154-156)AAA>ACA	p.K52T	RAD18_uc003bre.2_RNA	NM_020165	NP_064550	Q9NS91	RAD18_HUMAN	postreplication repair protein hRAD18p	52	RING-type.				DNA repair	nucleus|replication fork	damaged DNA binding|ligase activity|ubiquitin protein ligase binding|Y-form DNA binding|zinc ion binding			skin(3)|ovary(2)	5				OV - Ovarian serous cystadenocarcinoma(96;0.0552)		GGACAGAAATTTTCTTATACA	0.313								Rad6_pathway					49	86					0	0	1	0	0		G	8990233	G	G	8990233	3	3	89	1	0	0	0	0	1	0	0	0	13005	1841	64	5	1376	5	RAD18	3	8990233	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6932	8990233	189032197	1369	55200											
SETD5	55209	broad.mit.edu	37	chr3	9482139	9482139	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgaatttgttttctacaGaattctccctctgaagcaca	10	14	5	12	0	3	3	0	2	3	1	4	3	3	3	2	0	2	2	2	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:9482139G>T	uc003brt.2	+	8	1003	c.568_splice	c.e8-1	p.N190_splice	SETD5_uc003brs.1_Splice_Site_p.N171_splice|SETD5_uc003bru.2_Splice_Site_p.N92_splice|SETD5_uc003brv.2_Splice_Site_p.N79_splice|SETD5_uc010hck.2_5'Flank|SETD5_uc003brw.1_5'Flank|SETD5_uc003brx.2_5'Flank	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5											ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		GTTTTCTACAGAATTCTCCCT	0.423													11	17					3.86212e-05	3.96572e-05	1	1	0		T	9482139	T	T	9482139	5	4	89	1	0	0	0	0	0	0	1	0	14159	956	33	5	589	5	SETD5	3	9482139	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	491906	9482139	188540291	1370	55201											
CPNE9	151835	broad.mit.edu	37	chr3	9760228	9760228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagctatttccagagcctgCgcacagtgcagctctatggg	9	9	12	11	1	1	2	0	0	1	2	2	2	2	2	2	1	5	4	2	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:9760228C>T	uc003bsd.2	+	16	1354	c.1183C>T	c.(1183-1185)CGC>TGC	p.R395C		NM_153635	NP_705899	Q8IYJ1	CPNE9_HUMAN	copine-like protein	395	VWFA.							p.R395C(1)		ovary(2)	2	Medulloblastoma(99;0.227)					CCAGAGCCTGCGCACAGTGCA	0.567													39	73					0	0	1	0	0		T	9760228	T	T	9760228	3	4	89	1	0	0	0	0	1	0	0	0	3822	768	27	1	1245	1	CPNE9	3	9760228	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	278089	9760228	188262202	1371	55202											
TADA3	10474	broad.mit.edu	37	chr3	9831496	9831496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtttttggatttgggcCgtcctgggccagggcccggc	4	10	17	10	2	0	0	0	0	0	0	1	2	1	1	4	6	0	1	4	6	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:9831496C>T	uc003bsx.1	-	3	907	c.359G>A	c.(358-360)CGG>CAG	p.R120Q	TADA3_uc010hcn.1_Missense_Mutation_p.R120Q|TADA3_uc003bsy.2_Missense_Mutation_p.R120Q|ARPC4_uc003bsz.1_5'Flank|ARPC4_uc003bta.1_5'Flank|ARPC4_uc003btb.1_5'Flank|ARPC4_uc003btc.1_5'Flank	NM_006354	NP_006345	O75528	TADA3_HUMAN	transcriptional adaptor 3 isoform a	120					estrogen receptor signaling pathway|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	ligand-dependent nuclear receptor binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity				0						GGATTTGGGCCGTCCTGGGCC	0.562													37	88					0	0	1	0	0		T	9831496	T	T	9831496	3	4	89	1	0	0	0	0	1	0	0	0	15537	652	23	1	971	1	TADA3	3	9831496	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	71268	9831496	188190934	1372	55203											
CIDEC	63924	broad.mit.edu	37	chr3	9911628	9911628	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggagtatgtatcataaaaAgtcgccttcacgttcaggca	13	10	10	8	2	3	0	3	0	0	0	4	1	3	1	1	2	0	4	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:9911628A>C	uc003btq.2	-	5	632	c.492T>G	c.(490-492)ACT>ACG	p.T164T	CIDEC_uc003bto.2_Intron|CIDEC_uc010hcp.2_Intron|CIDEC_uc003btp.2_Silent_p.T174T|CIDEC_uc003btr.2_Silent_p.T90T|CIDEC_uc003bts.2_Silent_p.T90T	NM_022094	NP_071377	Q96AQ7	CIDEC_HUMAN	cell death-inducing DFFA-like effector c	164					apoptosis|induction of apoptosis	cytosol|focal adhesion|nucleus				central_nervous_system(1)	1	Medulloblastoma(99;0.227)					TATCATAAAAAGTCGCCTTCA	0.502													33	68					0	0	1	0	0		C	9911628	C	C	9911628	2	2	89	1	0	0	0	0	0	0	0	1	3430	59	3	5		5	CIDEC	3	9911628	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	80132	9911628	188110802	1373	55204											
IL17RE	132014	broad.mit.edu	37	chr3	9950918	9950918	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggcatcctacctgcaagaGgacactgtgaggcgcaaaaa	14	5	11	11	1	0	2	0	1	0	1	1	3	1	3	2	3	2	3	2	3	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:9950918G>A	uc003btu.2	+	9	870	c.753G>A	c.(751-753)GAG>GAA	p.E251E	CIDEC_uc003bto.2_Intron|IL17RE_uc003btv.2_Silent_p.E251E|IL17RE_uc011atn.1_Intron|IL17RE_uc003btw.2_Silent_p.E251E|IL17RE_uc003btx.2_Silent_p.E135E|IL17RE_uc010hcq.2_Silent_p.E251E|IL17RE_uc003bty.2_RNA	NM_153483	NP_705616	Q8NFR9	I17RE_HUMAN	interleukin 17 receptor E isoform 1	251	Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane	receptor activity			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(96;5.34e-64)		ACCTGCAAGAGGACACTGTGA	0.532													13	24					0	0	1	0	0		A	9950918	A	A	9950918	2	1	89	1	0	0	0	0	0	0	0	1	7659	991	35	4		4	IL17RE	3	9950918	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	39290	9950918	188071512	1374	55205											
IL17RC	84818	broad.mit.edu	37	chr3	9959714	9959714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaggtgccagaaggagaccGactgtgacctctgtctgcgt	8	9	14	10	2	2	4	0	2	2	2	2	6	2	4	3	2	2	0	3	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:9959714G>A	uc003bua.2	+	3	684	c.448G>A	c.(448-450)GAC>AAC	p.D150N	CIDEC_uc003bto.2_Intron|IL17RC_uc010hcr.2_RNA|IL17RC_uc011ato.1_RNA|IL17RC_uc010hcs.2_Missense_Mutation_p.D79N|IL17RC_uc003btz.2_Missense_Mutation_p.D79N|IL17RC_uc011atp.1_5'UTR|IL17RC_uc003bud.2_5'UTR|IL17RC_uc003bub.2_Missense_Mutation_p.D79N|IL17RC_uc010hct.2_Missense_Mutation_p.D79N|IL17RC_uc010hcu.2_Missense_Mutation_p.D79N|IL17RC_uc010hcv.2_Missense_Mutation_p.D79N|IL17RC_uc011atq.1_Missense_Mutation_p.D79N|IL17RC_uc003buc.2_5'UTR	NM_153461	NP_703191	Q8NAC3	I17RC_HUMAN	interleukin 17 receptor C isoform 1 precursor	150	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|pancreas(1)	2						GAAGGAGACCGACTGTGACCT	0.622													10	12					0	0	1	0	0		A	9959714	A	A	9959714	3	1	89	1	0	0	0	0	1	0	0	0	7657	1058	37	1	458	1	IL17RC	3	9959714	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8796	9959714	188062716	1375	55206											
C3orf24	115795	broad.mit.edu	37	chr3	10146117	10146117	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaaactctgaaagtcccggtCcactttggtggctgagctgt	8	11	12	10	1	1	2	0	2	1	0	3	3	3	2	2	3	2	2	2	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:10146117C>T	uc003buz.2	-	2	567	c.342G>A	c.(340-342)TGG>TGA	p.W114*	C3orf24_uc003bva.1_Nonsense_Mutation_p.W114*	NM_173472	NP_775743	Q96PS1	CC024_HUMAN	hypothetical protein LOC115795	114											0				OV - Ovarian serous cystadenocarcinoma(96;0.196)		AAGTCCCGGTCCACTTTGGTG	0.517													37	91					0	0	1	0	0		T	10146117	T	T	10146117	4	4	89	1	0	0	0	0	0	1	0	0	2220	856	30	4	195	4	C3orf24	3	10146117	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	186403	10146117	187876313	1376	55207											
SEC13	6396	broad.mit.edu	37	chr3	10354352	10354352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttccggtcataggagcacGatgccaggatgttgccgtac	8	10	12	11	3	1	0	1	0	0	0	2	3	2	2	3	3	4	3	3	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:10354352G>A	uc003bvn.2	-	4	346	c.227C>T	c.(226-228)TCG>TTG	p.S76L	SEC13_uc003bvl.2_Missense_Mutation_p.S8L|SEC13_uc003bvm.2_Missense_Mutation_p.S62L|SEC13_uc003bvp.2_Missense_Mutation_p.S79L|SEC13_uc003bvo.2_Missense_Mutation_p.S122L|SEC13_uc003bvq.1_Missense_Mutation_p.S62L|SEC13_uc003bvr.1_Missense_Mutation_p.S62L|SEC13_uc011aul.1_Missense_Mutation_p.S76L	NM_183352	NP_899195	P55735	SEC13_HUMAN	SEC13 protein isoform 1	76	WD 2.				COPII vesicle coating|intracellular protein transport|mitotic prometaphase|mRNA transport|post-translational protein modification|protein N-linked glycosylation via asparagine|transmembrane transport	cytosol|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Nup107-160 complex	protein binding			ovary(1)	1						ATAGGAGCACGATGCCAGGAT	0.572													44	78					0	0	1	0	0		A	10354352	A	A	10354352	3	1	89	1	0	0	0	0	1	0	0	0	14005	1059	37	1	765	1	SEC13	3	10354352	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	208235	10354352	187668078	1377	55208											
HRH1	3269	broad.mit.edu	37	chr3	11301359	11301359	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctctggttctatgccaaGatctacaaggccgtacgaca	11	10	9	11	2	3	1	0	0	3	1	3	2	3	1	2	2	4	3	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:11301359G>T	uc010hdr.2	+	2	978	c.636G>T	c.(634-636)AAG>AAT	p.K212N	HRH1_uc010hds.2_Missense_Mutation_p.K212N|HRH1_uc010hdt.2_Missense_Mutation_p.K212N|HRH1_uc003bwb.3_Missense_Mutation_p.K212N	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1	212	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	TCTATGCCAAGATCTACAAGG	0.512													42	103					2.56662e-36	3.17178e-36	1	1	0		T	11301359	T	T	11301359	3	4	89	1	0	0	0	0	1	0	0	0	7371	933	33	5	638	5	HRH1	3	11301359	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	947007	11301359	186721071	1378	55209											
MKRN2	23609	broad.mit.edu	37	chr3	12613843	12613843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaagtcttgcacccattcGacccagagcagaggaaggct	11	7	11	12	1	1	2	0	0	1	2	2	4	1	3	2	2	3	4	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:12613843G>A	uc003bxd.2	+	4	669	c.613G>A	c.(613-615)GAC>AAC	p.D205N	MKRN2_uc003bxe.2_Missense_Mutation_p.D203N|MKRN2_uc011aus.1_Missense_Mutation_p.D162N	NM_014160	NP_054879	Q9H000	MKRN2_HUMAN	makorin ring finger protein 2	205	Makorin-type Cys-His.					intracellular	ligase activity|nucleic acid binding|zinc ion binding				0						GCACCCATTCGACCCAGAGCA	0.522													20	27					0	0	1	0	0		A	12613843	A	A	12613843	3	1	89	1	0	0	0	0	1	0	0	0	9625	1058	37	1	627	1	MKRN2	3	12613843	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1312484	12613843	185408587	1379	55210											
CAND2	23066	broad.mit.edu	37	chr3	12858123	12858123	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcggatgctggatcctgaGccatatgttggagagatgtc	8	11	13	9	1	0	2	0	1	0	1	3	6	1	5	3	3	2	2	3	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:12858123G>A	uc003bxk.2	+	10	1741	c.1692G>A	c.(1690-1692)GAG>GAA	p.E564E	CAND2_uc003bxj.2_Silent_p.E471E	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	564					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						TGGATCCTGAGCCATATGTTG	0.627													35	45					0	0	1	0	0		A	12858123	A	A	12858123	2	1	89	1	0	0	0	0	0	0	0	1	2619	962	34	2		2	CAND2	3	12858123	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	244280	12858123	185164307	1380	55211											
CAND2	23066	broad.mit.edu	37	chr3	12858461	12858461	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacactggcagccctggAcgccctggcccagagccagg	7	3	14	17	1	0	1	0	0	0	1	0	2	0	2	5	5	2	1	5	5	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:12858461A>G	uc003bxk.2	+	10	2079	c.2030A>G	c.(2029-2031)GAC>GGC	p.D677G	CAND2_uc003bxj.2_Missense_Mutation_p.D584G	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	677	HEAT 14.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						GCAGCCCTGGACGCCCTGGCC	0.662													22	39					0	0	1	0	0		G	12858461	G	G	12858461	3	3	89	1	0	0	0	0	1	0	0	0	2619	275	10	3	2068	3	CAND2	3	12858461	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	338	12858461	185163969	1381	55212											
CAND2	23066	broad.mit.edu	37	chr3	12858543	12858543	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctgcctgccctggtcaaCgagagcgacatgcatgtggc	8	7	14	12	2	1	1	1	0	0	1	1	4	1	1	2	2	6	2	2	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:12858543C>T	uc003bxk.2	+	10	2161	c.2112C>T	c.(2110-2112)AAC>AAT	p.N704N	CAND2_uc003bxj.2_Silent_p.N611N	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	704	HEAT 15.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						CCCTGGTCAACGAGAGCGACA	0.677													14	43					0	0	1	0	0		T	12858543	T	T	12858543	2	4	89	1	0	0	0	0	0	0	0	1	2619	535	19	1		1	CAND2	3	12858543	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	82	12858543	185163887	1382	55213											
IQSEC1	9922	broad.mit.edu	37	chr3	12955032	12955032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggcagtagcagaccaaccGacggtggggcagagagagca	12	2	16	11	3	0	3	0	0	0	3	0	5	0	3	3	4	3	5	3	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:12955032G>A	uc003bxt.2	-	9	2263	c.2254C>T	c.(2254-2256)CGG>TGG	p.R752W	IQSEC1_uc003bxu.3_Missense_Mutation_p.R630W|IQSEC1_uc011auw.1_Missense_Mutation_p.R738W	NM_014869	NP_055684	Q6DN90	IQEC1_HUMAN	IQ motif and Sec7 domain 1 isoform b	752					regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1						CAGACCAACCGACGGTGGGGC	0.607													10	21					0	0	1	0	0		A	12955032	A	A	12955032	3	1	89	1	0	0	0	0	1	0	0	0	7833	1057	37	1	1206	1	IQSEC1	3	12955032	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	96489	12955032	185067398	1383	55214											
NUP210	23225	broad.mit.edu	37	chr3	13372091	13372091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgcacaactggaaccttttCgggtccatccaggacgcggt	9	9	11	12	3	0	0	0	0	0	0	3	2	2	2	3	4	3	1	3	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:13372091C>T	uc003bxv.1	-	30	4062	c.3979G>A	c.(3979-3981)GAA>AAA	p.E1327K		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1327	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					GGAACCTTTTCGGGTCCATCC	0.517													38	65					0	0	1	0	0		T	13372091	T	T	13372091	3	4	89	1	0	0	0	0	1	0	0	0	10779	893	31	1	1728	1	NUP210	3	13372091	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	417059	13372091	184650339	1384	55215											
NUP210	23225	broad.mit.edu	37	chr3	13417924	13417924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggaagcacagtttcaattCggatgttctggaaggtgagg	11	10	14	6	1	2	1	1	1	1	0	3	4	2	4	0	5	1	3	0	5	3	3	rs141201901		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:13417924C>T	uc003bxv.1	-	10	1243	c.1160G>A	c.(1159-1161)CGA>CAA	p.R387Q	NUP210_uc003bxx.2_Missense_Mutation_p.R59Q	NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	387	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					AGTTTCAATTCGGATGTTCTG	0.542													27	44					0	0	1	0	0		T	13417924	T	T	13417924	3	4	89	1	0	0	0	0	1	0	0	0	10779	884	31	1	4627	1	NUP210	3	13417924	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	45833	13417924	184604506	1385	55216											
FBLN2	2199	broad.mit.edu	37	chr3	13655629	13655629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatagtacctgaggttcGccgacctccagagcccgcag	8	8	10	15	3	1	2	1	1	1	1	4	3	2	2	5	1	2	3	5	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:13655629G>A	uc011avb.1	+	5	1819	c.1694G>A	c.(1693-1695)CGC>CAC	p.R565H	FBLN2_uc011auz.1_Missense_Mutation_p.R591H|FBLN2_uc011ava.1_Missense_Mutation_p.R565H|FBLN2_uc011avc.1_Missense_Mutation_p.R565H|uc003byc.1_5'Flank	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	565						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			CCTGAGGTTCGCCGACCTCCA	0.592													18	33					0	0	1	0	0		A	13655629	A	A	13655629	3	1	89	1	0	0	0	0	1	0	0	0	5713	1087	38	1	398	1	FBLN2	3	13655629	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	237705	13655629	184366801	1386	55217											
TMEM43	79188	broad.mit.edu	37	chr3	14176277	14176277	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtcccctcaggcctcatCgacaaagtcgacaacttcaa	11	8	7	15	2	3	0	3	0	0	0	6	2	4	0	3	2	1	0	3	2	3	1	rs145024252		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:14176277C>T	uc003byk.2	+	8	845	c.591C>T	c.(589-591)ATC>ATT	p.I197I	TMEM43_uc003byl.1_Silent_p.I77I	NM_024334	NP_077310	Q9BTV4	TMM43_HUMAN	transmembrane protein 43	197	Lumenal (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|nuclear inner membrane				ovary(1)	1						CAGGCCTCATCGACAAAGTCG	0.453													22	61					0	0	1	0	0		T	14176277	T	T	14176277	2	4	89	1	0	0	0	0	0	0	0	1	16192	874	31	1		1	TMEM43	3	14176277	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	520648	14176277	183846153	1387	55218											
LSM3	27258	broad.mit.edu	37	chr3	14223069	14223069	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttttatcagcaacaaactAccaacactgtagaggagccc	14	9	6	12	0	2	1	1	0	1	1	2	2	2	2	2	1	6	2	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:14223069A>G	uc003byn.2	+	2	60	c.31A>G	c.(31-33)ACC>GCC	p.T11A	XPC_uc011ave.1_5'Flank|XPC_uc011avf.1_5'Flank|XPC_uc011avg.1_5'Flank	NM_014463	NP_055278	P62310	LSM3_HUMAN	Lsm3 protein	11					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	catalytic step 2 spliceosome|cytosol	protein binding|RNA binding			ovary(1)	1						gcaacaaactaccAACACTGT	0.224													39	114					0	0	1	0	0		G	14223069	G	G	14223069	3	3	89	1	0	0	0	0	1	0	0	0	9075	391	14	3	37	3	LSM3	3	14223069	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	46792	14223069	183799361	1388	55219											
GRIP2	80852	broad.mit.edu	37	chr3	14535218	14535218	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctggcgatcggggggcccgGctgctgtgtgccgtgtgcgg	1	8	20	12	5	0	0	0	0	0	0	1	1	0	0	3	6	3	2	3	6	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:14535218G>T	uc011avi.1	-	25	3381	c.3381C>A	c.(3379-3381)AGC>AGA	p.S1127R	GRIP2_uc010heh.2_RNA|GRIP2_uc011avh.1_Missense_Mutation_p.S658R	NM_001080423	NP_001073892	Q9C0E4	GRIP2_HUMAN	glutamate receptor interacting protein 2	1029					synaptic transmission	cytosol|plasma membrane	protein binding			pancreas(1)	1						GGGGGGCCCGGCTGCTGTGTG	0.677													7	7					6.5536e-12	7.22086e-12	1	1	0		T	14535218	T	T	14535218	3	4	89	1	0	0	0	0	1	0	0	0	6804	1194	42	5	47	5	GRIP2	3	14535218	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	312149	14535218	183487212	1389	55220											
METTL6	131965	broad.mit.edu	37	chr3	15457386	15457386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggcggtacatgatccagaaGatcatctttagtcagatcac	12	11	9	9	1	4	4	3	1	1	3	5	4	5	4	1	2	1	1	1	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:15457386G>A	uc003bzs.1	-	4	682	c.424C>T	c.(424-426)CTT>TTT	p.L142F	METTL6_uc011avp.1_Missense_Mutation_p.L97F|METTL6_uc003bzt.1_Missense_Mutation_p.L142F|METTL6_uc010hen.1_5'Flank	NM_152396	NP_689609	Q8TCB7	METL6_HUMAN	methyltransferase like 6	142							methyltransferase activity				0						TGATCCAGAAGATCATCTTTA	0.373													33	68					0	0	1	0	0		A	15457386	A	A	15457386	3	1	89	1	0	0	0	0	1	0	0	0	9522	942	33	4	442	4	METTL6	3	15457386	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	922168	15457386	182565044	1390	55221											
BTD	686	broad.mit.edu	37	chr3	15686453	15686453	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccatagtaagtttttaaaaAttttgtcaggcgatccgtac	12	14	7	8	2	1	0	1	0	0	0	2	1	2	0	2	1	1	3	2	1	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:15686453A>T	uc003cah.2	+	4	1193	c.1090A>T	c.(1090-1092)ATT>TTT	p.I364F	BTD_uc011avv.1_Missense_Mutation_p.I366F|BTD_uc011avw.1_Missense_Mutation_p.I366F|BTD_uc011avx.1_Missense_Mutation_p.I344F	NM_000060	NP_000051	P43251	BTD_HUMAN	biotinidase precursor	364					central nervous system development|epidermis development|nitrogen compound metabolic process	extracellular space	biotin carboxylase activity|biotinidase activity				0						GTTTTTAAAAATTTTGTCAGG	0.473													46	83					0	0	1	0	0		T	15686453	T	T	15686453	3	4	89	1	0	0	0	0	1	0	0	0	1553	101	4	5	1104	5	BTD	3	15686453	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	229067	15686453	182335977	1391	55222											
BTD	686	broad.mit.edu	37	chr3	15686848	15686848	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacttcagtacttcctatatCtttcctttgtttctgacctc	7	19	3	12	0	3	1	1	1	2	0	6	1	5	1	3	0	2	2	3	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:15686848C>T	uc003cah.2	+	4	1588	c.1485C>T	c.(1483-1485)ATC>ATT	p.I495I	BTD_uc011avv.1_Silent_p.I497I|BTD_uc011avw.1_Silent_p.I497I|BTD_uc011avx.1_Silent_p.I475I	NM_000060	NP_000051	P43251	BTD_HUMAN	biotinidase precursor	495					central nervous system development|epidermis development|nitrogen compound metabolic process	extracellular space	biotin carboxylase activity|biotinidase activity				0						CTTCCTATATCTTTCCTTTGT	0.512													9	97					0	0	1	0	0		T	15686848	T	T	15686848	2	4	89	1	0	0	0	0	0	0	0	1	1553	903	32	4		4	BTD	3	15686848	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	395	15686848	182335582	1392	55223											
GALNTL2	117248	broad.mit.edu	37	chr3	16237352	16237352	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcctggtccactctcctgCggactgtacacagcatcctc	7	9	9	16	1	1	0	0	0	1	0	5	1	3	1	4	3	3	2	4	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:16237352C>T	uc003car.3	+	2	1100	c.625C>T	c.(625-627)CGG>TGG	p.R209W	GALNTL2_uc003caq.3_5'UTR	NM_054110	NP_473451	Q8N3T1	GLTL2_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	209	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1						CACTCTCCTGCGGACTGTACA	0.607													22	43					0	0	1	0	0		T	16237352	T	T	16237352	3	4	89	1	0	0	0	0	1	0	0	0	6237	759	27	1	631	1	GALNTL2	3	16237352	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	550504	16237352	181785078	1393	55224											
GALNTL2	117248	broad.mit.edu	37	chr3	16242239	16242239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgctgggggccaccagaGccaccggggatgtgctcgtc	6	6	17	12	2	0	1	0	0	0	1	2	3	0	3	4	5	3	2	4	5	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:16242239G>A	uc003car.3	+	3	1295	c.820G>A	c.(820-822)GCC>ACC	p.A274T	GALNTL2_uc003caq.3_Missense_Mutation_p.A7T	NM_054110	NP_473451	Q8N3T1	GLTL2_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	274	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1						GGCCACCAGAGCCACCGGGGA	0.612													27	36					0	0	1	0	0		A	16242239	A	A	16242239	3	1	89	1	0	0	0	0	1	0	0	0	6237	971	34	2	830	2	GALNTL2	3	16242239	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4887	16242239	181780191	1394	55225											
RFTN1	23180	broad.mit.edu	37	chr3	16475491	16475491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacagctccaggagctgggCgggcaggtcacgcagggagg	8	4	19	10	2	1	0	1	0	0	0	2	2	2	2	1	6	3	5	1	6	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:16475491C>T	uc003cay.2	-	3	481	c.199G>A	c.(199-201)GCC>ACC	p.A67T	RFTN1_uc010hes.2_Missense_Mutation_p.A31T	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	67						plasma membrane				ovary(3)|central_nervous_system(1)	4						AGGAGCTGGGCGGGCAGGTCA	0.667													24	48					0	0	1	0	0		T	16475491	T	T	16475491	3	4	89	1	0	0	0	0	1	0	0	0	13283	768	27	1	1569	1	RFTN1	3	16475491	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	233252	16475491	181546939	1395	55226											
SATB1	6304	broad.mit.edu	37	chr3	18427971	18427971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcaagctcctttccctttCgtcctggtatattcggtctc	5	17	6	13	2	2	0	1	0	1	0	8	0	5	0	3	2	1	2	3	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:18427971C>T	uc003cbh.2	-	8	3074	c.1339G>A	c.(1339-1341)GAA>AAA	p.E447K	SATB1_uc003cbi.2_Missense_Mutation_p.E447K|SATB1_uc003cbj.2_Missense_Mutation_p.E447K	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	447	CUT 1.				cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						CTTTCCCTTTCGTCCTGGTAT	0.567													38	101					0	0	1	0	0		T	18427971	T	T	18427971	3	4	89	1	0	0	0	0	1	0	0	0	13878	893	31	1	968	1	SATB1	3	18427971	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1952480	18427971	179594459	1396	55227											
EFHB	151651	broad.mit.edu	37	chr3	19924060	19924060	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcttcttttgatctggtCttgaagaagtctctttcaaa	9	17	6	9	0	6	3	1	2	5	1	7	3	6	3	1	1	0	0	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:19924060C>A	uc003cbl.3	-	12	2506	c.2310G>T	c.(2308-2310)AAG>AAT	p.K770N	EFHB_uc003cbm.2_Missense_Mutation_p.K640N	NM_144715	NP_653316	Q8N7U6	EFHB_HUMAN	EF hand domain family, member B	770					signal transduction	proteinaceous extracellular matrix	calcium ion binding				0						TTGATCTGGTCTTGAAGAAGT	0.318													5	17					0.00116845	0.00118508	1	1	0		A	19924060	A	A	19924060	3	1	89	1	0	0	0	0	1	0	0	0	4951	912	32	5	199	5	EFHB	3	19924060	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1496089	19924060	178098370	1397	55228											
NR1D2	9975	broad.mit.edu	37	chr3	24003483	24003483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatagctgttcggtttggtcGtattcctaagcgtgaaaaac	11	13	10	7	3	0	1	0	1	0	0	3	1	1	1	1	2	3	4	1	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:24003483G>A	uc003ccs.2	+	5	852	c.533G>A	c.(532-534)CGT>CAT	p.R178H	NR1D2_uc010hfd.2_RNA|NR1D2_uc011awk.1_Missense_Mutation_p.R103H	NM_005126	NP_005117	Q14995	NR1D2_HUMAN	nuclear receptor subfamily 1, group D, member 2	178					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			urinary_tract(1)|kidney(1)|skin(1)	3						CGGTTTGGTCGTATTCCTAAG	0.343													16	31					0	0	1	0	0		A	24003483	A	A	24003483	3	1	89	1	0	0	0	0	1	0	0	0	10635	1145	40	1	551	1	NR1D2	3	24003483	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4079423	24003483	174018947	1398	55229											
THRB	7068	broad.mit.edu	37	chr3	24169075	24169075	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagacatgcccaggtcaaaGatggcgtctgacaccacccc	12	5	10	14	1	2	3	1	1	1	2	2	4	2	3	4	2	1	0	4	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:24169075G>T	uc003ccx.3	-	10	1408	c.1059C>A	c.(1057-1059)ATC>ATA	p.I353I	THRB_uc010hfe.2_Silent_p.I353I|THRB_uc003ccy.3_Silent_p.I353I|THRB_uc003ccz.3_Silent_p.I348I	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	353	Ligand-binding.|Interaction with NR2F6.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)	CCAGGTCAAAGATGGCGTCTG	0.527													21	145					2.32416e-17	2.69338e-17	1	1	0		T	24169075	T	T	24169075	2	4	89	1	0	0	0	0	0	0	0	1	15900	932	33	5		5	THRB	3	24169075	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	165592	24169075	173853355	1399	55230											
THRB	7068	broad.mit.edu	37	chr3	24188225	24188225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacattcctggcactgatttCgcgtgactttgtctatgaca	8	14	9	10	2	1	3	0	3	1	0	3	4	2	3	1	1	0	1	1	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:24188225C>T	uc003ccx.3	-	7	822	c.473G>A	c.(472-474)CGA>CAA	p.R158Q	THRB_uc010hfe.2_Missense_Mutation_p.R158Q|THRB_uc003ccy.3_Missense_Mutation_p.R158Q|THRB_uc003ccz.3_Missense_Mutation_p.R153Q	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	158	NR C4-type.|Nuclear receptor.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)	GCACTGATTTCGCGTGACTTT	0.363													40	61					0	0	1	0	0		T	24188225	T	T	24188225	3	4	89	1	0	0	0	0	1	0	0	0	15900	884	31	1	932	1	THRB	3	24188225	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19150	24188225	173834205	1400	55231											
RARB	5915	broad.mit.edu	37	chr3	25542770	25542770	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccaggaatcgatgccaatActgtcgactccagaagtgct	12	8	9	12	2	0	1	0	0	0	1	3	4	1	2	3	1	3	1	3	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:25542770A>C	uc011awl.1	+	3	491	c.425A>C	c.(424-426)TAC>TCC	p.Y142S	RARB_uc003cdi.1_Missense_Mutation_p.Y23S|RARB_uc003cdh.2_Missense_Mutation_p.Y135S	NM_016152	NP_057236	P10826	RARB_HUMAN	retinoic acid receptor, beta isoform 2	142	Nuclear receptor.|NR C4-type.				embryonic digestive tract development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	protein binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|large_intestine(1)|pancreas(1)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tamibarotene(DB04942)|Tazarotene(DB00799)	CGATGCCAATACTGTCGACTC	0.393													31	58					0	0	1	0	0		C	25542770	C	C	25542770	3	2	89	1	0	0	0	0	1	0	0	0	13078	391	14	5	414	5	RARB	3	25542770	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1354545	25542770	172479660	1401	55232											
LRRC3B	116135	broad.mit.edu	37	chr3	26751587	26751587	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctgaaggccagggccagaAttgccaacaacccctggcac	12	4	10	15	0	0	2	0	1	0	1	0	2	0	2	6	3	3	1	6	3	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:26751587A>C	uc003cdp.2	+	2	1013	c.424A>C	c.(424-426)ATT>CTT	p.I142L	LRRC3B_uc003cdq.2_Missense_Mutation_p.I142L	NM_052953	NP_443185	Q96PB8	LRC3B_HUMAN	leucine rich repeat containing 3B precursor	142						integral to membrane				pancreas(2)|ovary(1)|skin(1)	4						CAGGGCCAGAATTGCCAACAA	0.498													10	31					0	0	1	0	0		C	26751587	C	C	26751587	3	2	89	1	0	0	0	0	1	0	0	0	9014	101	4	5	426	5	LRRC3B	3	26751587	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1208817	26751587	171270843	1402	55233											
SLC4A7	9497	broad.mit.edu	37	chr3	27439829	27439829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaccccaagaatacaccacGaagttttttacattcctgga	13	11	6	11	1	0	2	0	1	0	1	1	4	1	3	4	1	2	1	4	1	5	5	rs142923476	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:27439829G>A	uc003cdv.2	-	17	2487	c.2416C>T	c.(2416-2418)CGT>TGT	p.R806C	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Missense_Mutation_p.R687C|SLC4A7_uc011aww.1_Missense_Mutation_p.R815C|SLC4A7_uc011awx.1_Missense_Mutation_p.R802C|SLC4A7_uc011awy.1_Missense_Mutation_p.R798C|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Missense_Mutation_p.R687C|SLC4A7_uc011axb.1_Missense_Mutation_p.R802C|SLC4A7_uc010hfl.2_Missense_Mutation_p.R356C|SLC4A7_uc003cdw.2_Missense_Mutation_p.R682C	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	806	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						AATACACCACGAAGTTTTTTA	0.333													41	67					0	0	1	0	0		A	27439829	A	A	27439829	3	1	89	1	0	0	0	0	1	0	0	0	14683	1058	37	1	1264	1	SLC4A7	3	27439829	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	688242	27439829	170582601	1403	55234											
SLC4A7	9497	broad.mit.edu	37	chr3	27446338	27446338	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacctgcagaatttatataaAattttttcaaacactagaac	17	14	3	7	0	1	2	1	0	0	2	1	2	1	2	1	0	4	1	1	0	9	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:27446338A>C	uc003cdv.2	-	14	2102	c.2031T>G	c.(2029-2031)ATT>ATG	p.I677M	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Missense_Mutation_p.I558M|SLC4A7_uc011aww.1_Missense_Mutation_p.I686M|SLC4A7_uc011awx.1_Missense_Mutation_p.I673M|SLC4A7_uc011awy.1_Missense_Mutation_p.I669M|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Missense_Mutation_p.I558M|SLC4A7_uc011axb.1_Missense_Mutation_p.I673M|SLC4A7_uc010hfl.2_Missense_Mutation_p.I227M|SLC4A7_uc003cdw.2_Missense_Mutation_p.I553M	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	677	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						ATTTATATAAAATTTTTTCAA	0.328													17	35					0	0	1	0	0		C	27446338	C	C	27446338	3	2	89	1	0	0	0	0	1	0	0	0	14683	10	1	5	1661	5	SLC4A7	3	27446338	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	6509	27446338	170576092	1404	55235											
SLC4A7	9497	broad.mit.edu	37	chr3	27465554	27465554	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtcaacagtactattttCtctgcttccaccacttccat	10	14	4	13	0	2	0	1	0	1	0	5	1	4	0	3	0	3	2	3	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:27465554C>A	uc003cdv.2	-	8	1284	c.1213G>T	c.(1213-1215)GAA>TAA	p.E405*	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Nonsense_Mutation_p.E286*|SLC4A7_uc011aww.1_Nonsense_Mutation_p.E414*|SLC4A7_uc011awx.1_Nonsense_Mutation_p.E401*|SLC4A7_uc011awy.1_Nonsense_Mutation_p.E397*|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Nonsense_Mutation_p.E286*|SLC4A7_uc011axb.1_Nonsense_Mutation_p.E401*|SLC4A7_uc010hfm.2_Nonsense_Mutation_p.E286*|SLC4A7_uc010hfl.2_Missense_Mutation_p.E7D|SLC4A7_uc003cdw.2_Nonsense_Mutation_p.E281*	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	405	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						GTACTATTTTCTCTGCTTCCA	0.343													27	46					7.26314e-15	8.22614e-15	1	1	0		A	27465554	A	A	27465554	4	1	89	1	0	0	0	0	0	1	0	0	14683	922	32	5	2503	5	SLC4A7	3	27465554	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19216	27465554	170556876	1405	55236											
ZCWPW2	152098	broad.mit.edu	37	chr3	28454570	28454570	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgccttaatggataaagAaaaattggatgttaagattg	18	12	9	2	0	0	2	0	0	0	2	0	4	0	4	1	2	1	1	1	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:28454570A>C	uc003ceh.2	+	3	179	c.11A>C	c.(10-12)GAA>GCA	p.E4A	ZCWPW2_uc003cei.2_Missense_Mutation_p.E4A	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	4							zinc ion binding			ovary(2)	2						ATGGATAAAGAAAAATTGGAT	0.303													23	51					0	0	1	0	0		C	28454570	C	C	28454570	3	2	89	1	0	0	0	0	1	0	0	0	17623	246	9	5	13	5	ZCWPW2	3	28454570	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	989016	28454570	169567860	1406	55237											
ZCWPW2	152098	broad.mit.edu	37	chr3	28562602	28562602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagaggaaataaatatgggaGaaaaggtaatattgatagtt	19	10	12	0	0	0	3	0	1	0	2	0	6	0	4	0	3	0	2	0	3	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:28562602G>A	uc003ceh.2	+	9	1072	c.904G>A	c.(904-906)GAA>AAA	p.E302K	ZCWPW2_uc003cei.2_Missense_Mutation_p.E302K|ZCWPW2_uc010hfo.2_Missense_Mutation_p.E107K	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	302							zinc ion binding			ovary(2)	2						AAATATGGGAGAAAAGGTAAT	0.338													10	16					0	0	1	0	0		A	28562602	A	A	28562602	3	1	89	1	0	0	0	0	1	0	0	0	17623	943	33	4	930	4	ZCWPW2	3	28562602	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	108032	28562602	169459828	1407	55238											
RBMS3	27303	broad.mit.edu	37	chr3	29529985	29529985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacaaaaacacaaatcagtGcaaaggtatgtgtaagggca	18	7	10	6	0	1	1	1	1	0	0	1	1	1	1	0	2	2	4	0	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:29529985G>A	uc003cel.2	+	3	532	c.302G>A	c.(301-303)TGC>TAC	p.C101Y	RBMS3_uc003cek.2_Missense_Mutation_p.C101Y|RBMS3_uc010hfq.2_Missense_Mutation_p.C101Y|RBMS3_uc003cem.2_Missense_Mutation_p.C100Y|RBMS3_uc010hfr.2_Missense_Mutation_p.C101Y	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	101	RRM 1.					cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				ACAAATCAGTGCAAAGGTATG	0.398													34	48					0	0	1	0	0		A	29529985	A	A	29529985	3	1	89	1	0	0	0	0	1	0	0	0	13175	1319	46	2	312	2	RBMS3	3	29529985	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	967383	29529985	168492445	1408	55239											
RBMS3	27303	broad.mit.edu	37	chr3	29628640	29628640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attttgacagtcctgcagccGcacagaaagcggtagcatct	11	9	10	11	2	1	2	0	1	1	1	2	2	2	2	2	1	4	4	2	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:29628640G>A	uc003cel.2	+	4	573	c.343G>A	c.(343-345)GCA>ACA	p.A115T	RBMS3_uc003cek.2_Missense_Mutation_p.A115T|RBMS3_uc010hfq.2_Missense_Mutation_p.A115T|RBMS3_uc003cem.2_Missense_Mutation_p.A114T|RBMS3_uc010hfr.2_Missense_Mutation_p.A115T	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	115	RRM 1.					cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				TCCTGCAGCCGCACAGAAAGC	0.383													15	45					0	0	1	0	0		A	29628640	A	A	29628640	3	1	89	1	0	0	0	0	1	0	0	0	13175	1087	38	1	357	1	RBMS3	3	29628640	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	98655	29628640	168393790	1409	55240											
GADL1	339896	broad.mit.edu	37	chr3	30842400	30842400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctagataaagcaagagcacGattaactctttcttcaaggc	14	10	7	10	1	3	2	1	0	2	2	3	3	3	2	1	1	3	2	1	1	6	5	rs138172857		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:30842400G>A	uc003cep.2	-	12	1278	c.1231C>T	c.(1231-1233)CGT>TGT	p.R411C	GADL1_uc003ceq.1_Missense_Mutation_p.R411C	NM_207359	NP_997242	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1	411					carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	GCAAGAGCACGATTAACTCTT	0.294													21	50					0	0	1	0	0		A	30842400	A	A	30842400	3	1	89	1	0	0	0	0	1	0	0	0	6199	1058	37	1	350	1	GADL1	3	30842400	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1213760	30842400	167180030	1410	55241											
ZNF860	344787	broad.mit.edu	37	chr3	32031257	32031257	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacacataagagaaaaatCtttccaatgtaatgagagtg	18	10	8	5	0	1	2	0	1	1	2	2	4	2	2	1	0	1	2	1	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:32031257C>A	uc011axg.1	+	2	1235	c.686C>A	c.(685-687)TCT>TAT	p.S229Y		NM_001137674	NP_001131146	A6NHJ4	ZN860_HUMAN	zinc finger protein 860	229					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGAGAAAAATCTTTCCAATGT	0.313													76	32					1.25089e-41	1.55097e-41	1	1	0		A	32031257	A	A	32031257	3	1	89	1	0	0	0	0	1	0	0	0	18219	913	32	5	688	5	ZNF860	3	32031257	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1188857	32031257	165991173	1411	55242											
ZNF860	344787	broad.mit.edu	37	chr3	32032333	32032333	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaaaacaaaggagaattCatatgggagagaaacatcac	20	6	9	6	0	2	2	2	0	0	2	2	5	2	3	0	2	3	1	0	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:32032333C>A	uc011axg.1	+	2	2311	c.1762C>A	c.(1762-1764)CAT>AAT	p.H588N		NM_001137674	NP_001131146	A6NHJ4	ZN860_HUMAN	zinc finger protein 860	588	C2H2-type 13; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAGGAGAATTCATATGGGAGA	0.388													4	19					0.184627	0.184943	1	1	0		A	32032333	A	A	32032333	3	1	89	1	0	0	0	0	1	0	0	0	18219	826	29	5	1764	5	ZNF860	3	32032333	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1076	32032333	165990097	1412	55243											
DYNC1LI1	51143	broad.mit.edu	37	chr3	32568352	32568352	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagaaactgtaactggttttCgtgtaattctgtctagttct	9	17	9	6	1	3	1	0	0	3	1	4	2	3	1	0	1	2	4	0	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:32568352C>T	uc003cfb.3	-	13	1599	c.1511G>A	c.(1510-1512)CGA>CAA	p.R504Q	DYNC1LI1_uc011axh.1_Missense_Mutation_p.R388Q	NM_016141	NP_057225	Q9Y6G9	DC1L1_HUMAN	dynein, cytoplasmic 1, light intermediate chain	504					cell division|interspecies interaction between organisms|mitosis|positive regulation of mitotic cell cycle spindle assembly checkpoint|transport	centrosome|condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|plasma membrane|spindle pole	ATP binding|motor activity			ovary(1)	1						AACTGGTTTTCGTGTAATTCT	0.363													26	75					0	0	1	0	0		T	32568352	T	T	32568352	3	4	89	1	0	0	0	0	1	0	0	0	4850	884	31	1	64	1	DYNC1LI1	3	32568352	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	536019	32568352	165454078	1413	55244											
TRIM71	131405	broad.mit.edu	37	chr3	32932065	32932065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgcagccccaggaagacGaccgagtcatgttcacaccc	10	6	9	16	2	2	1	2	0	0	1	3	4	3	2	5	1	2	2	5	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:32932065G>A	uc003cff.2	+	4	1432	c.1369G>A	c.(1369-1371)GAC>AAC	p.D457N		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	457					multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						CCAGGAAGACGACCGAGTCAT	0.617													35	86					0	0	1	0	0		A	32932065	A	A	32932065	3	1	89	1	0	0	0	0	1	0	0	0	16570	1058	37	1	1383	1	TRIM71	3	32932065	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	363713	32932065	165090365	1414	55245											
SUSD5	26032	broad.mit.edu	37	chr3	33194681	33194681	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggacagggtggccatgggAgattcctctgtgatgaatct	9	11	14	7	0	2	3	0	2	2	1	3	5	3	4	2	4	0	0	2	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:33194681A>C	uc003cfo.1	-	5	1861	c.1443T>G	c.(1441-1443)TCT>TCG	p.S481S		NM_015551	NP_056366	O60279	SUSD5_HUMAN	sushi domain containing 5 precursor	481	Extracellular (Potential).				cell adhesion	integral to membrane	hyaluronic acid binding			ovary(1)|central_nervous_system(1)	2						TGGCCATGGGAGATTCCTCTG	0.527													19	31					0	0	1	0	0		C	33194681	C	C	33194681	2	2	89	1	0	0	0	0	0	0	0	1	15436	291	11	5		5	SUSD5	3	33194681	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	262616	33194681	164827749	1415	55246											
ARPP21	10777	broad.mit.edu	37	chr3	35748466	35748466	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttttactttgctggcagAccagagcaaaggttttgtga	10	14	11	6	0	0	3	0	1	0	2	0	3	0	3	1	2	3	5	1	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:35748466A>G	uc003cgb.2	+	10	951	c.687A>G	c.(685-687)ATA>ATG	p.I229M	ARPP21_uc003cga.2_Missense_Mutation_p.I229M|ARPP21_uc011axy.1_Missense_Mutation_p.I229M|ARPP21_uc003cgf.2_Missense_Mutation_p.I65M	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	229						cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						TTGCTGGCAGACCAGAGCAAA	0.333													24	52					0	0	1	0	0		G	35748466	G	G	35748466	3	3	89	1	0	0	0	0	1	0	0	0	979	289	10	3	730	3	ARPP21	3	35748466	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2553785	35748466	162273964	1416	55247											
ARPP21	10777	broad.mit.edu	37	chr3	35748563	35748563	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataactctagtattgataaaGaagacaatcaggttggttct	15	13	8	5	0	3	3	1	1	2	2	3	3	3	3	0	2	1	3	0	2	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:35748563G>T	uc003cgb.2	+	10	1048	c.784G>T	c.(784-786)GAA>TAA	p.E262*	ARPP21_uc003cga.2_Nonsense_Mutation_p.E262*|ARPP21_uc011axy.1_Nonsense_Mutation_p.E262*|ARPP21_uc003cgf.2_Nonsense_Mutation_p.E98*	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	262						cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						TATTGATAAAGAAGACAATCA	0.418													19	53					0.000132079	0.000135131	1	1	0		T	35748563	T	T	35748563	4	4	89	1	0	0	0	0	0	1	0	0	979	943	33	5	827	5	ARPP21	3	35748563	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	97	35748563	162273867	1417	55248											
ARPP21	10777	broad.mit.edu	37	chr3	35770832	35770832	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgcaggctcctcaggatcGctgtcccgcacccatccacc	7	7	9	18	2	1	0	1	0	0	0	5	1	4	1	5	2	1	4	5	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:35770832G>A	uc003cgb.2	+	15	1527	c.1263G>A	c.(1261-1263)TCG>TCA	p.S421S	ARPP21_uc003cga.2_Silent_p.S367S|ARPP21_uc011axy.1_Silent_p.S387S|ARPP21_uc003cgf.2_Silent_p.S222S|ARPP21_uc003cgg.2_5'UTR	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	421	Ser-rich.					cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						CCTCAGGATCGCTGTCCCGCA	0.542													39	74					0	0	1	0	0		A	35770832	A	A	35770832	2	1	89	1	0	0	0	0	0	0	0	1	979	1074	38	1		1	ARPP21	3	35770832	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	22269	35770832	162251598	1418	55249											
STAC	6769	broad.mit.edu	37	chr3	36570207	36570207	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggagacataattactCttttagaggattccaatgaa	14	11	9	7	0	1	3	0	1	1	2	2	5	2	4	2	3	1	0	2	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:36570207C>A	uc003cgh.1	+	9	979	c.940C>A	c.(940-942)CTT>ATT	p.L314I	STAC_uc011aya.1_Missense_Mutation_p.L253I	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	314	SH3.				intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						CATAATTACTCTTTTAGAGGA	0.294													15	14					7.07596e-05	7.25576e-05	1	1	0		A	36570207	A	A	36570207	3	1	89	1	0	0	0	0	1	0	0	0	15264	913	32	5	974	5	STAC	3	36570207	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	799375	36570207	161452223	1419	55250											
DCLK3	85443	broad.mit.edu	37	chr3	36779482	36779482	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggcctctgtcctctttCttgtccatgctcttgctggg	1	17	10	13	0	5	0	0	0	5	0	7	0	7	0	3	2	2	2	3	2	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:36779482C>A	uc003cgi.2	-	2	1160	c.669G>T	c.(667-669)AAG>AAT	p.K223N		NM_033403	NP_208382	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	223						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			lung(3)|large_intestine(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	9						TGTCCTCTTTCTTGTCCATGC	0.577													48	83					5.73435e-26	6.92654e-26	1	1	0		A	36779482	A	A	36779482	3	1	89	1	0	0	0	0	1	0	0	0	4296	912	32	5	1293	5	DCLK3	3	36779482	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	209275	36779482	161242948	1420	55251											
TRANK1	9881	broad.mit.edu	37	chr3	36874329	36874329	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatcaatttctttaagttCttctgctaagattttaggga	12	18	6	5	0	4	1	1	0	3	1	4	2	4	2	0	1	1	2	0	1	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:36874329C>A	uc003cgj.2	-	12	5265	c.4963G>T	c.(4963-4965)GAA>TAA	p.E1655*		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2205					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TCTTTAAGTTCTTCTGCTAAG	0.373													17	34					4.7546e-09	5.08881e-09	1	1	0		A	36874329	A	A	36874329	4	1	89	1	0	0	0	0	0	1	0	0	16480	922	32	5	2176	5	TRANK1	3	36874329	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	94847	36874329	161148101	1421	55252											
TRANK1	9881	broad.mit.edu	37	chr3	36875232	36875232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgcagcttctgctaagcGtttccgagacttcaagaaca	10	11	9	11	2	3	2	1	0	2	2	4	3	4	2	1	0	5	4	1	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:36875232G>A	uc003cgj.2	-	12	4362	c.4060C>T	c.(4060-4062)CGC>TGC	p.R1354C		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1904					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TCTGCTAAGCGTTTCCGAGAC	0.512													30	78					0	0	1	0	0		A	36875232	A	A	36875232	3	1	89	1	0	0	0	0	1	0	0	0	16480	1145	40	1	3079	1	TRANK1	3	36875232	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	903	36875232	161147198	1422	55253											
GOLGA4	2803	broad.mit.edu	37	chr3	37366074	37366074	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagatggtaacaaagaacaGgaacagacaaagcaaatctt	21	5	9	6	0	1	3	0	0	1	3	1	5	1	4	0	2	4	2	0	2	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:37366074G>T	uc003cgv.2	+	14	3001	c.2697G>T	c.(2695-2697)CAG>CAT	p.Q899H	GOLGA4_uc010hgr.1_Missense_Mutation_p.Q460H|GOLGA4_uc003cgw.2_Missense_Mutation_p.Q921H|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.Q780H	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	899	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						ACAAAGAACAGGAACAGACAA	0.333													7	61					0.00198382	0.00200883	1	1	0		T	37366074	T	T	37366074	3	4	89	1	0	0	0	0	1	0	0	0	6570	991	35	5	2821	5	GOLGA4	3	37366074	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	490842	37366074	160656356	1423	55254											
VILL	50853	broad.mit.edu	37	chr3	38039783	38039783	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatcctggaccagggtggCttcaagatctatgtgtggca	9	11	12	9	0	2	1	1	0	1	1	3	2	3	2	2	4	1	2	2	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:38039783C>T	uc003chj.2	+	9	1156	c.870C>T	c.(868-870)GGC>GGT	p.G290G	VILL_uc003chl.2_Silent_p.G290G|VILL_uc010hgu.2_Silent_p.G120G	NM_015873	NP_056957	O15195	VILL_HUMAN	villin-like protein	290	Gelsolin-like 3.				actin filament capping|cytoskeleton organization	actin cytoskeleton	actin binding|structural constituent of cytoskeleton				0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		ACCAGGGTGGCTTCAAGATCT	0.602													21	49					0	0	1	0	0		T	38039783	T	T	38039783	2	4	89	1	0	0	0	0	0	0	0	1	17191	784	28	2		2	VILL	3	38039783	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	673709	38039783	159982647	1424	55255											
PLCD1	5333	broad.mit.edu	37	chr3	38051969	38051969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtcctggtagacacggCggtgtgccaggctgaaggcg	7	7	16	11	3	0	2	0	1	0	1	1	2	1	2	3	5	1	2	3	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:38051969C>T	uc003chn.2	-	6	999	c.875G>A	c.(874-876)CGC>CAC	p.R292H	PLCD1_uc003chm.2_Missense_Mutation_p.R313H	NM_006225	NP_006216	P51178	PLCD1_HUMAN	phospholipase C, delta 1 isoform 2	292					intracellular signal transduction|lipid catabolic process|phospholipid metabolic process	cytoplasm	calcium ion binding|GTPase activating protein binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		GTAGACACGGCGGTGTGCCAG	0.637													4	47					0	0	1	0	0		T	38051969	T	T	38051969	3	4	89	1	0	0	0	0	1	0	0	0	12050	768	27	1	1435	1	PLCD1	3	38051969	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12186	38051969	159970461	1425	55256											
SCN5A	6331	broad.mit.edu	37	chr3	38593041	38593041	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctggatgatgtccgagaGcacagtgcctgtgggaaaca	10	9	13	9	1	1	2	0	1	1	1	2	5	2	4	2	2	3	1	2	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:38593041G>T	uc003cio.2	-	28	5016	c.4822C>A	c.(4822-4824)CTC>ATC	p.L1608I	SCN5A_uc003cin.2_Missense_Mutation_p.L1607I|SCN5A_uc003cil.3_Missense_Mutation_p.L1608I|SCN5A_uc010hhi.2_Missense_Mutation_p.L1590I|SCN5A_uc010hhk.2_Missense_Mutation_p.L1575I|SCN5A_uc011ayr.1_Missense_Mutation_p.L1554I	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1608	Helical; Name=S3 of repeat IV; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	ATGTCCGAGAGCACAGTGCCT	0.607													31	60					4.74835e-14	5.33807e-14	1	1	0		T	38593041	T	T	38593041	3	4	89	1	0	0	0	0	1	0	0	0	13947	971	34	5	1232	5	SCN5A	3	38593041	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	541072	38593041	159429389	1426	55257											
SCN5A	6331	broad.mit.edu	37	chr3	38628975	38628975	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggatgacgatgatgctgtcGaagatgttccagccctgttg	9	11	13	8	2	0	3	0	2	0	1	2	6	1	4	2	1	2	3	2	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:38628975G>A	uc003cio.2	-	15	2546	c.2352C>T	c.(2350-2352)TTC>TTT	p.F784F	SCN5A_uc003cin.2_Silent_p.F784F|SCN5A_uc003cil.3_Silent_p.F784F|SCN5A_uc010hhi.2_Silent_p.F784F|SCN5A_uc010hhk.2_Silent_p.F784F|SCN5A_uc011ayr.1_Silent_p.F784F|SCN5A_uc010hhj.1_Silent_p.F395F	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	784	Helical; Name=S3 of repeat II; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	TGATGCTGTCGAAGATGTTCC	0.562													24	27					0	0	1	0	0		A	38628975	A	A	38628975	2	1	89	1	0	0	0	0	0	0	0	1	13947	1049	37	1		1	SCN5A	3	38628975	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	35934	38628975	159393455	1427	55258											
SCN10A	6336	broad.mit.edu	37	chr3	38793713	38793713	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcattcacaaactcaccgaGacatcgacagctccaggggc	13	5	9	14	2	2	1	2	0	0	1	4	3	3	1	2	2	3	2	2	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:38793713G>A	uc003ciq.2	-	11	1752	c.1752C>T	c.(1750-1752)GTC>GTT	p.V584V		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	584					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	AACTCACCGAGACATCGACAG	0.483													25	65					0	0	1	0	0		A	38793713	A	A	38793713	2	1	89	1	0	0	0	0	0	0	0	1	13937	929	33	4		4	SCN10A	3	38793713	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	164738	38793713	159228717	1428	55259											
SCN11A	11280	broad.mit.edu	37	chr3	38961476	38961476	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcaggtgaattttctttCttttcaaagcaatggtctga	11	17	7	6	0	5	2	2	2	3	0	5	2	5	2	0	2	1	1	0	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:38961476C>A	uc011ays.1	-	7	1108	c.909G>T	c.(907-909)AAG>AAT	p.K303N		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	303	I.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	AATTTTCTTTCTTTTCAAAGC	0.338													24	51					7.92952e-12	8.72397e-12	1	1	0		A	38961476	A	A	38961476	3	1	89	1	0	0	0	0	1	0	0	0	13938	912	32	5	4546	5	SCN11A	3	38961476	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	167763	38961476	159060954	1429	55260											
XIRP1	165904	broad.mit.edu	37	chr3	39229433	39229433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcacctccgactatctgctCtctgctaacagaggtcaggg	9	10	9	13	1	4	1	2	0	2	1	6	2	5	1	2	2	3	2	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:39229433C>T	uc003cjk.1	-	2	1725	c.1504G>A	c.(1504-1506)GAG>AAG	p.E502K	XIRP1_uc003cji.2_Missense_Mutation_p.E502K|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	502							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		ACTATCTGCTCTCTGCTAACA	0.607													49	99					0	0	1	0	0		T	39229433	T	T	39229433	3	4	89	1	0	0	0	0	1	0	0	0	17455	922	32	4	4031	4	XIRP1	3	39229433	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	267957	39229433	158792997	1430	55261											
CCR8	1237	broad.mit.edu	37	chr3	39373970	39373970	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcctgtttgtattcagtCttctgggaaacagcctggtc	6	14	10	11	0	3	0	1	0	2	0	5	1	4	1	3	2	2	2	3	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:39373970C>A	uc010hhr.2	+	2	286	c.148C>A	c.(148-150)CTT>ATT	p.L50I	CCR8_uc003cjm.2_Intron	NM_005201	NP_005192	P51685	CCR8_HUMAN	chemokine (C-C motif) receptor 8	50	Helical; Name=1; (Potential).				cell adhesion|chemotaxis|elevation of cytosolic calcium ion concentration|immune response	integral to plasma membrane	coreceptor activity			ovary(1)|lung(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0504)|Kidney(284;0.0635)		TGTATTCAGTCTTCTGGGAAA	0.488													24	179					3.01185e-09	3.22946e-09	1	1	0		A	39373970	A	A	39373970	3	1	89	1	0	0	0	0	1	0	0	0	2950	913	32	5	150	5	CCR8	3	39373970	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	144537	39373970	158648460	1431	55262											
CTNNB1	1499	broad.mit.edu	37	chr3	41266826	41266826	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaattcctgtattacaggTggtggttaataaggctgcag	10	13	12	6	0	0	1	0	1	0	0	1	1	1	1	1	4	2	4	1	4	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:41266826T>G	uc010hia.1	+	6	653	c.497T>G	c.(496-498)GTG>GGG	p.V166G	CTNNB1_uc003ckp.2_Missense_Mutation_p.V166G|CTNNB1_uc003ckq.2_Missense_Mutation_p.V166G|CTNNB1_uc003ckr.2_Missense_Mutation_p.V166G|CTNNB1_uc011azf.1_Missense_Mutation_p.V159G|CTNNB1_uc011azg.1_Missense_Mutation_p.V94G|uc010hib.1_5'Flank	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	166	ARM 1.				adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.M1_V173del(1)|p.I35_K170del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	GTATTACAGGTGGTGGTTAAT	0.418		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				15	32					0	0	1	0	0		G	41266826	G	G	41266826	3	3	89	1	0	0	0	0	1	0	0	0	4019	1710	59	5	511	5	CTNNB1	3	41266826	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1892856	41266826	156755604	1432	55263											
CTNNB1	1499	broad.mit.edu	37	chr3	41277291	41277291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctcgggatgttcacaaccGaattgttatcagaggactaa	13	10	10	8	2	2	1	2	0	0	1	3	4	2	3	1	2	2	3	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:41277291G>A	uc010hia.1	+	12	1916	c.1760G>A	c.(1759-1761)CGA>CAA	p.R587Q	CTNNB1_uc003ckp.2_Missense_Mutation_p.R587Q|CTNNB1_uc003ckq.2_Missense_Mutation_p.R587Q|CTNNB1_uc003ckr.2_Missense_Mutation_p.R587Q|CTNNB1_uc011azf.1_Missense_Mutation_p.R580Q|CTNNB1_uc011azg.1_Missense_Mutation_p.R515Q|CTNNB1_uc003cks.2_3'UTR|CTNNB1_uc003ckt.1_Missense_Mutation_p.R22Q	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	587					adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	GTTCACAACCGAATTGTTATC	0.408		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				58	144					0	0	1	0	0		A	41277291	A	A	41277291	3	1	89	1	0	0	0	0	1	0	0	0	4019	1058	37	1	1798	1	CTNNB1	3	41277291	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	10465	41277291	156745139	1433	55264											
ULK4	54986	broad.mit.edu	37	chr3	41756778	41756778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttctgtcacaacttgaggtCgaaatacctgtgtgatgaga	11	12	10	8	1	2	3	1	3	1	1	3	5	2	3	1	1	2	0	1	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:41756778C>T	uc003ckv.3	-	25	2786	c.2585G>A	c.(2584-2586)CGA>CAA	p.R862Q		NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	862	HEAT 1.						ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		AACTTGAGGTCGAAATACCTG	0.338													23	60					0	0	1	0	0		T	41756778	T	T	41756778	3	4	89	1	0	0	0	0	1	0	0	0	17004	884	31	1	1294	1	ULK4	3	41756778	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	479487	41756778	156265652	1434	55265											
ULK4	54986	broad.mit.edu	37	chr3	41957545	41957545	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctttaggacgagaagaatCtataaatgaattaatttcca	17	12	7	5	1	1	3	0	1	1	2	2	5	2	4	1	1	1	1	1	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:41957545C>A	uc003ckv.3	-	8	929	c.728_splice	c.e8-1	p.D243_splice	ULK4_uc003ckw.2_Splice_Site_p.D243_splice|ULK4_uc003ckx.1_Splice_Site_p.D243_splice	NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4								ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		CGAGAAGAATCTATAAATGAA	0.269													18	39					8.00594e-06	8.28612e-06	1	1	0		A	41957545	A	A	41957545	5	1	89	1	0	0	0	0	0	0	1	0	17004	927	32	5	3220	5	ULK4	3	41957545	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	200767	41957545	156064885	1435	55266											
CCK	885	broad.mit.edu	37	chr3	42305056	42305056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcgggatctgcgggaggcaCcggctgcgtcagggcgccag	5	4	19	13	6	2	0	1	0	1	0	2	2	2	2	2	5	2	2	2	5	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:42305056C>T	uc003clc.1	-	2	276	c.67G>A	c.(67-69)GTG>ATG	p.V23M	CCK_uc003cld.1_Missense_Mutation_p.V23M|CCK_uc011azk.1_Missense_Mutation_p.V23M	NM_000729	NP_000720	P06307	CCKN_HUMAN	cholecystokinin preproprotein	23					axonogenesis|eating behavior|neuron migration		neuropeptide hormone activity			central_nervous_system(1)	1		Ovarian(412;0.0728)		KIRC - Kidney renal clear cell carcinoma(284;0.219)		GCGGGAGGCACCGGCTGCGTC	0.697													8	20					0	0	1	0	0		T	42305056	T	T	42305056	3	4	89	1	0	0	0	0	1	0	0	0	2882	507	18	4	288	4	CCK	3	42305056	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	347511	42305056	155717374	1436	55267											
NKTR	4820	broad.mit.edu	37	chr3	42680746	42680746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacaggaaagcagcatgtccGaaagtaaagtgttgggtgaa	16	7	13	5	1	0	1	0	1	0	0	1	3	1	2	1	2	3	4	1	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:42680746G>A	uc003clo.2	+	13	3697	c.3550G>A	c.(3550-3552)GAA>AAA	p.E1184K	NKTR_uc003clm.1_Missense_Mutation_p.E931K|NKTR_uc003clp.2_Missense_Mutation_p.E931K|NKTR_uc011azp.1_Intron|NKTR_uc003clq.1_Missense_Mutation_p.E1074K|NKTR_uc003clr.1_Missense_Mutation_p.E931K|NKTR_uc003cls.2_Missense_Mutation_p.E884K	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	1184					protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		CAGCATGTCCGAAAGTAAAGT	0.488													27	55					0	0	1	0	0		A	42680746	A	A	42680746	3	1	89	1	0	0	0	0	1	0	0	0	10467	1059	37	1	3596	1	NKTR	3	42680746	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	375690	42680746	155341684	1437	55268											
NKTR	4820	broad.mit.edu	37	chr3	42684043	42684043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggatggtacagcagaggccGaaccagaagccggagcagtt	13	4	15	9	2	0	2	0	0	0	2	0	5	0	4	3	4	5	4	3	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:42684043G>A	uc003clo.2	+	14	4244	c.4097G>A	c.(4096-4098)CGA>CAA	p.R1366Q	NKTR_uc003clp.2_Missense_Mutation_p.R1113Q|NKTR_uc011azp.1_Missense_Mutation_p.R165Q|NKTR_uc003cls.2_Missense_Mutation_p.R1066Q	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	1366					protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		AGCAGAGGCCGAACCAGAAGC	0.433													33	62					0	0	1	0	0		A	42684043	A	A	42684043	3	1	89	1	0	0	0	0	1	0	0	0	10467	1058	37	1	4147	1	NKTR	3	42684043	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3297	42684043	155338387	1438	55269											
KBTBD5	131377	broad.mit.edu	37	chr3	42730438	42730438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcacccatgcagaccgcccGctcactctttggggccactg	6	7	11	17	2	2	1	1	0	1	1	2	1	2	1	4	3	1	3	4	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:42730438G>A	uc003clv.1	+	4	1599	c.1499G>A	c.(1498-1500)CGC>CAC	p.R500H		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	500	Kelch 3.									ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		CAGACCGCCCGCTCACTCTTT	0.587													15	49					0	0	1	0	0		A	42730438	A	A	42730438	3	1	89	1	0	0	0	0	1	0	0	0	8012	1087	38	1	1513	1	KBTBD5	3	42730438	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	46395	42730438	155291992	1439	55270											
CYP8B1	1582	broad.mit.edu	37	chr3	42916094	42916094	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagggttgaggaagcgatcGtacttgaagacggtgggctc	9	10	16	6	3	0	3	0	2	0	1	2	5	0	4	0	4	2	3	0	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:42916094G>A	uc003cmh.2	-	1	1540	c.1215C>T	c.(1213-1215)TAC>TAT	p.Y405Y	CCBP2_uc003cmd.1_Intron|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Silent_p.Y405Y	NM_004391	NP_004382	Q9UNU6	CP8B1_HUMAN	cytochrome P450, family 8, subfamily B,	405					bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	7alpha-hydroxycholest-4-en-3-one 12alpha-hydroxylase activity|electron carrier activity|heme binding|oxygen binding|sterol 12-alpha-hydroxylase activity			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.213)|Kidney(284;0.249)		GGAAGCGATCGTACTTGAAGA	0.557													56	140					0	0	1	0	0		A	42916094	A	A	42916094	2	1	89	1	0	0	0	0	0	0	0	1	4201	1140	40	1		1	CYP8B1	3	42916094	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	185656	42916094	155106336	1440	55271											
ZNF662	389114	broad.mit.edu	37	chr3	42956704	42956704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acatcttattcgacatcaaaGaatccatactggggaaagac	16	9	7	9	1	2	2	1	0	1	2	4	4	3	3	1	2	1	0	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:42956704G>A	uc003cmi.2	+	5	1491	c.1139G>A	c.(1138-1140)AGA>AAA	p.R380K	ZNF662_uc003cmk.2_Missense_Mutation_p.R406K|ZNF662_uc003cmj.2_Missense_Mutation_p.R272K	NM_207404	NP_997287	Q6ZS27	ZN662_HUMAN	zinc finger protein 662 isoform 1	380	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.217)		CGACATCAAAGAATCCATACT	0.463													33	66					0	0	1	0	0		A	42956704	A	A	42956704	3	1	89	1	0	0	0	0	1	0	0	0	18096	942	33	4	1340	4	ZNF662	3	42956704	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	40610	42956704	155065726	1441	55272											
C3orf39	84892	broad.mit.edu	37	chr3	43121449	43121449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaggcgccatgcactgacGcctggcaccgtgcctcccgc	5	5	13	18	5	0	1	0	1	0	0	1	2	1	2	5	3	2	2	5	3	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:43121449G>A	uc003cmq.1	-	2	1616	c.1475C>T	c.(1474-1476)GCG>GTG	p.A492V	C3orf39_uc003cmr.1_Missense_Mutation_p.A492V	NM_032806	NP_116195	Q8NAT1	AGO61_HUMAN	glycosyltransferase precursor	492						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)|skin(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0571)|Kidney(284;0.0718)		ATGCACTGACGCCTGGCACCG	0.622													31	65					0	0	1	0	0		A	43121449	A	A	43121449	3	1	89	1	0	0	0	0	1	0	0	0	2232	1087	38	1	271	1	C3orf39	3	43121449	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	164745	43121449	154900981	1442	55273											
ZNF445	353274	broad.mit.edu	37	chr3	44490137	44490137	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attccctcagaaacacttgtCgcaggacatcctgatgacac	12	9	7	13	1	1	3	1	2	0	1	4	4	3	4	2	1	1	1	2	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:44490137C>T	uc003cnf.2	-	8	1374	c.1026G>A	c.(1024-1026)GCG>GCA	p.A342A	ZNF445_uc011azv.1_Silent_p.A330A|ZNF445_uc011azw.1_Silent_p.A342A	NM_181489	NP_852466	P59923	ZN445_HUMAN	zinc finger protein 445	342					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		AAACACTTGTCGCAGGACATC	0.413													33	71					0	0	1	0	0		T	44490137	T	T	44490137	2	4	89	1	0	0	0	0	0	0	0	1	17943	871	31	1		1	ZNF445	3	44490137	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1368688	44490137	153532293	1443	55274											
ZNF445	353274	broad.mit.edu	37	chr3	44490186	44490186	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgcttcttccaaaggtTcctgatttaagatgaatttg	9	18	7	7	0	2	3	0	2	2	1	4	3	4	3	2	1	1	2	2	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:44490186T>C	uc003cnf.2	-	8	1325	c.977A>G	c.(976-978)GAA>GGA	p.E326G	ZNF445_uc011azv.1_Missense_Mutation_p.E314G|ZNF445_uc011azw.1_Missense_Mutation_p.E326G	NM_181489	NP_852466	P59923	ZN445_HUMAN	zinc finger protein 445	326					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		TTCCAAAGGTTCCTGATTTAA	0.403													15	40					0	0	1	0	0		C	44490186	C	C	44490186	3	2	89	1	0	0	0	0	1	0	0	0	17943	1783	62	3	2122	3	ZNF445	3	44490186	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	49	44490186	153532244	1444	55275											
ZNF167	55888	broad.mit.edu	37	chr3	44612641	44612641	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatagctccagccttatggTacatcagagaacccatactg	12	11	7	11	0	1	1	1	0	0	1	2	2	2	1	3	1	5	2	3	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:44612641T>C	uc010hin.2	+	6	2427	c.2039T>C	c.(2038-2040)GTA>GCA	p.V680A	ZNF167_uc003cni.2_Intron|ZNF167_uc010hio.2_Intron|ZNF167_uc003cnj.2_Missense_Mutation_p.V680A|ZNF167_uc003cnk.2_Intron	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	680	C2H2-type 11; degenerate.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		AGCCTTATGGTACATCAGAGA	0.418													49	102					0	0	1	0	0		C	44612641	C	C	44612641	3	2	89	1	0	0	0	0	1	0	0	0	17766	1638	57	3	2057	3	ZNF167	3	44612641	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	122455	44612641	153409789	1445	55276											
ZNF167	55888	broad.mit.edu	37	chr3	44612818	44612818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacttttaatcaccaccagcGaactcacactggagagaagt	14	8	7	12	1	2	1	2	0	0	1	2	4	2	2	2	1	2	0	2	1	3	2	rs151170690		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:44612818G>A	uc010hin.2	+	6	2604	c.2216G>A	c.(2215-2217)CGA>CAA	p.R739Q	ZNF167_uc003cni.2_Intron|ZNF167_uc010hio.2_Intron|ZNF167_uc003cnj.2_Missense_Mutation_p.R739Q|ZNF167_uc003cnk.2_Intron	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	739	C2H2-type 13.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		CACCACCAGCGAACTCACACT	0.458													33	79					0	0	1	0	0		A	44612818	A	A	44612818	3	1	89	1	0	0	0	0	1	0	0	0	17766	1058	37	1	2234	1	ZNF167	3	44612818	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	177	44612818	153409612	1446	55277											
ZNF35	7584	broad.mit.edu	37	chr3	44700935	44700935	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatccacactggggagaaGccctttgcctgtaacgactg	10	8	12	11	1	0	1	0	0	0	1	1	4	1	2	3	3	3	1	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:44700935G>A	uc003cnq.2	+	4	1301	c.1080G>A	c.(1078-1080)AAG>AAA	p.K360K	ZNF35_uc003cnr.2_Silent_p.K200K	NM_003420	NP_003411	P13682	ZNF35_HUMAN	zinc finger protein 35	360					cellular response to retinoic acid|spermatogenesis	nucleus|perinuclear region of cytoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(412;0.0228)		OV - Ovarian serous cystadenocarcinoma(275;2.49e-27)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)		CTGGGGAGAAGCCCTTTGCCT	0.443													21	44					0	0	1	0	0		A	44700935	A	A	44700935	2	1	89	1	0	0	0	0	0	0	0	1	17887	962	34	2		2	ZNF35	3	44700935	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	88117	44700935	153321495	1447	55278											
ZNF35	7584	broad.mit.edu	37	chr3	44700985	44700985	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttacccagagtgcaaatcTtattgtacatcagcgaagcc	12	11	7	11	1	2	1	1	0	1	1	2	2	2	1	2	0	5	2	2	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:44700985T>G	uc003cnq.2	+	4	1351	c.1130T>G	c.(1129-1131)CTT>CGT	p.L377R	ZNF35_uc003cnr.2_Missense_Mutation_p.L217R	NM_003420	NP_003411	P13682	ZNF35_HUMAN	zinc finger protein 35	377	C2H2-type 6.				cellular response to retinoic acid|spermatogenesis	nucleus|perinuclear region of cytoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(412;0.0228)		OV - Ovarian serous cystadenocarcinoma(275;2.49e-27)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)		AGTGCAAATCTTATTGTACAT	0.468													28	42					0	0	1	0	0		G	44700985	G	G	44700985	3	3	89	1	0	0	0	0	1	0	0	0	17887	1609	56	5	1140	5	ZNF35	3	44700985	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	50	44700985	153321445	1448	55279											
ZNF35	7584	broad.mit.edu	37	chr3	44701252	44701252	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacctacttattcatcagaGaattcataatggagaaaaac	18	11	5	7	0	3	2	3	0	0	2	3	4	3	2	1	1	3	0	1	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:44701252G>T	uc003cnq.2	+	4	1618	c.1397G>T	c.(1396-1398)AGA>ATA	p.R466I	ZNF35_uc003cnr.2_Missense_Mutation_p.R306I	NM_003420	NP_003411	P13682	ZNF35_HUMAN	zinc finger protein 35	466	C2H2-type 9.				cellular response to retinoic acid|spermatogenesis	nucleus|perinuclear region of cytoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(412;0.0228)		OV - Ovarian serous cystadenocarcinoma(275;2.49e-27)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)		ATTCATCAGAGAATTCATAAT	0.463													28	69					2.49675e-24	2.99771e-24	1	1	0		T	44701252	T	T	44701252	3	4	89	1	0	0	0	0	1	0	0	0	17887	942	33	5	1407	5	ZNF35	3	44701252	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	267	44701252	153321178	1449	55280											
ZNF502	91392	broad.mit.edu	37	chr3	44763241	44763241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgaaaacactcaaatcttaCgcaacatcagagaattcaca	18	8	4	11	2	4	1	3	0	1	1	5	3	4	1	0	0	3	1	0	0	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:44763241C>T	uc011baa.1	+	4	1187	c.932C>T	c.(931-933)ACG>ATG	p.T311M	ZNF502_uc003cns.2_Missense_Mutation_p.T311M|ZNF502_uc011bab.1_Missense_Mutation_p.T311M|ZNF502_uc003cnt.2_Missense_Mutation_p.T311M	NM_001134440	NP_001127912	Q8TBZ5	ZN502_HUMAN	zinc finger protein 502	311	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00855)|KIRC - Kidney renal clear cell carcinoma(197;0.0471)|Kidney(197;0.0589)		TCAAATCTTACGCAACATCAG	0.403													79	132					0	0	1	0	0		T	44763241	T	T	44763241	3	4	89	1	0	0	0	0	1	0	0	0	17975	536	19	1	938	1	ZNF502	3	44763241	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	61989	44763241	153259189	1450	55281											
KIF15	56992	broad.mit.edu	37	chr3	44816777	44816777	+	Nonsense_Mutation	SNP	C	T	T																															atgccatcaaagtttttgtgCgaattcgtcctcctgcagaa																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:44816777C>T	uc003cnx.3	+	3	243	c.94C>T	c.(94-96)CGA>TGA	p.R32*	KIF15_uc010hiq.2_5'UTR	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	32	Kinesin-motor.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		AGTTTTTGTGCGAATTCGTCC	0.428													30	97					0	0	1	0	0		T	44816777	T	T	44816777	4	4	89	1	0	0	0	0	0	1	0	0	8293	760	27	1	104	1	KIF15	3	44816777	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	53536	44816777	153205653	1451	55282	102	2									
KIF15	56992	broad.mit.edu	37	chr3	44816783	44816783	+	Missense_Mutation	SNP	C	T	T																															tcaaagtttttgtgcgaattCgtcctcctgcagaaagatct																								rs144425306	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:44816783C>T	uc003cnx.3	+	3	249	c.100C>T	c.(100-102)CGT>TGT	p.R34C	KIF15_uc010hiq.2_5'UTR	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	34	Kinesin-motor.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		TGTGCGAATTCGTCCTCCTGC	0.438													33	102					0	0	1	0	0		T	44816783	T	T	44816783	3	4	89	1	0	0	0	0	1	0	0	0	8293	884	31	1	110	1	KIF15	3	44816783	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6	44816783	153205647	1452	55283	102	2									
EXOSC7	23016	broad.mit.edu	37	chr3	45038655	45038655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatcgctaacaccctctatCggatatttaacaataaaagc	16	10	5	10	2	1	1	0	0	1	1	3	2	1	2	1	1	3	1	1	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:45038655C>T	uc003coi.2	+	4	360	c.331C>T	c.(331-333)CGG>TGG	p.R111W	EXOSC7_uc003coh.1_Missense_Mutation_p.R46W|EXOSC7_uc011bae.1_Missense_Mutation_p.R111W|EXOSC7_uc010his.1_Missense_Mutation_p.R30W|EXOSC7_uc003coj.2_Missense_Mutation_p.R111W	NM_015004	NP_055819	Q15024	EXOS7_HUMAN	exosome component 7	111					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	3'-5'-exoribonuclease activity|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00911)|KIRC - Kidney renal clear cell carcinoma(197;0.0509)|Kidney(197;0.064)		CACCCTCTATCGGATATTTAA	0.448													38	88					0	0	1	0	0		T	45038655	T	T	45038655	3	4	89	1	0	0	0	0	1	0	0	0	5327	875	31	1	345	1	EXOSC7	3	45038655	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	221872	45038655	152983775	1453	55284											
CCR9	10803	broad.mit.edu	37	chr3	45943167	45943167	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgtttccaccaacattgAcatctgcttccaggtcaccc	8	11	6	16	1	2	1	1	1	1	0	4	1	4	1	5	1	3	2	5	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:45943167A>C	uc003coz.1	+	3	1044	c.887A>C	c.(886-888)GAC>GCC	p.D296A	LZTFL1_uc003coy.1_Intron|LZTFL1_uc011bak.1_Intron|CCR9_uc010hiv.1_Missense_Mutation_p.D284A|CCR9_uc003cpa.1_Missense_Mutation_p.D284A	NM_031200	NP_112477	P51686	CCR9_HUMAN	chemokine (C-C motif) receptor 9 isoform A	296	Extracellular (Potential).				cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|immune response	integral to plasma membrane				ovary(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00118)|KIRC - Kidney renal clear cell carcinoma(197;0.0182)|Kidney(197;0.0214)		ACCAACATTGACATCTGCTTC	0.498													31	58					0	0	1	0	0		C	45943167	C	C	45943167	3	2	89	1	0	0	0	0	1	0	0	0	2951	275	10	5	893	5	CCR9	3	45943167	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	904512	45943167	152079263	1454	55285											
CXCR6	10663	broad.mit.edu	37	chr3	45988319	45988319	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactattaacttctacacgTccatgctcatcctcacctgc	10	12	3	16	1	3	0	2	0	1	0	5	0	5	0	3	0	4	1	3	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:45988319T>C	uc003cpc.1	+	2	427	c.346T>C	c.(346-348)TCC>CCC	p.S116P	FYCO1_uc003cpb.3_Intron|FYCO1_uc011bal.1_Intron|CXCR6_uc010hix.1_Missense_Mutation_p.S116P	NM_006564	NP_006555	O00574	CXCR6_HUMAN	G protein-coupled receptor TYMSTR	116	Helical; Name=3; (Potential).				viral genome replication	integral to plasma membrane	coreceptor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		CTTCTACACGTCCATGCTCAT	0.522													83	242					0	0	1	0	0		C	45988319	C	C	45988319	3	2	89	1	0	0	0	0	1	0	0	0	4098	1667	58	3	348	3	CXCR6	3	45988319	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	45152	45988319	152034111	1455	55286											
PRSS50	29122	broad.mit.edu	37	chr3	46754462	46754462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatgatctgaaccagagtggGgattttggtgaagttgtggt	9	13	16	3	0	1	4	0	3	1	1	1	6	1	5	1	4	1	1	1	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:46754462G>A	uc003cqe.1	-	5	909	c.850C>T	c.(850-852)CCC>TCC	p.P284S	PRSS50_uc003cqf.1_Missense_Mutation_p.P198S	NM_013270	NP_037402	Q9UI38	TSP50_HUMAN	testes-specific protease 50 precursor	284	Peptidase S1.				proteolysis	endoplasmic reticulum	serine-type endopeptidase activity|threonine-type endopeptidase activity				0						ACCAGAGTGGGGATTTTGGTG	0.517													56	154					0	0	1	0	0		A	46754462	A	A	46754462	3	1	89	1	0	0	0	0	1	0	0	0	12653	1232	43	4	315	4	PRSS50	3	46754462	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	766143	46754462	151267968	1456	55287											
SETD2	29072	broad.mit.edu	37	chr3	47125869	47125869	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagtgttccaaagtctttaTaatctgattaaacataaaaa	18	13	4	6	0	2	1	0	1	2	0	3	1	3	1	1	0	1	1	1	0	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:47125869T>C	uc003cqs.2	-	12	5454	c.5401A>G	c.(5401-5403)ATA>GTA	p.I1801V	SETD2_uc003cqv.2_Missense_Mutation_p.I1868V|SETD2_uc003cqt.1_RNA	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1801					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		AAAGTCTTTATAATCTGATTA	0.249			N|F|S|Mis		clear cell renal carcinoma								9	30					0	0	1	0	0		C	47125869	C	C	47125869	3	2	89	1	0	0	0	0	1	0	0	0	14156	1406	49	3	2333	3	SETD2	3	47125869	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	371407	47125869	150896561	1457	55288											
SETD2	29072	broad.mit.edu	37	chr3	47164507	47164507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagaatatgatgaccctcgtCggaatcccagttcattaggg	11	11	10	9	2	1	3	1	2	0	1	4	4	2	4	2	2	0	1	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:47164507C>T	uc003cqs.2	-	3	1672	c.1619G>A	c.(1618-1620)CGA>CAA	p.R540Q	SETD2_uc003cqv.2_Missense_Mutation_p.R529Q	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	540					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		TGACCCTCGTCGGAATCCCAG	0.358			N|F|S|Mis		clear cell renal carcinoma								52	98					0	0	1	0	0		T	47164507	T	T	47164507	3	4	89	1	0	0	0	0	1	0	0	0	14156	884	31	1	6151	1	SETD2	3	47164507	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	38638	47164507	150857923	1458	55289											
KIF9	64147	broad.mit.edu	37	chr3	47278109	47278109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccccttgttttcgtacttgCctgcaaggtgatggaagaag	8	12	12	9	1	0	2	0	1	0	1	1	3	0	3	3	2	3	3	3	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:47278109C>T	uc010hjp.2	-	19	2529	c.1925G>A	c.(1924-1926)GGC>GAC	p.G642D	KIF9_uc003cqx.2_Missense_Mutation_p.G642D|KIF9_uc003cqy.2_Missense_Mutation_p.G577D|KIF9_uc011bat.1_RNA|uc003cqw.1_Intron	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	642					blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		TTCGTACTTGCCTGCAAGGTG	0.507													16	21					0	0	1	0	0		T	47278109	T	T	47278109	3	4	89	1	0	0	0	0	1	0	0	0	8326	753	26	2	463	2	KIF9	3	47278109	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	113602	47278109	150744321	1459	55290											
SMARCC1	6599	broad.mit.edu	37	chr3	47651782	47651782	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttccatgtggaagttttgGcgttcagtaagcaactgctg	8	14	12	7	1	1	0	1	0	0	0	2	1	2	1	1	2	3	6	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:47651782G>A	uc003crq.2	-	26	2935	c.2817C>T	c.(2815-2817)CGC>CGT	p.R939R	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Silent_p.R830R	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	939	Potential.				chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		GGAAGTTTTGGCGTTCAGTAA	0.478													74	137					0	0	1	0	0		A	47651782	A	A	47651782	2	1	89	1	0	0	0	0	0	0	0	1	14800	1190	42	2		2	SMARCC1	3	47651782	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	373673	47651782	150370648	1460	55291											
SMARCC1	6599	broad.mit.edu	37	chr3	47730897	47730897	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcctcctgctgtgactgTttcttcatcctgctcatctg	3	18	6	14	0	4	1	2	1	2	0	7	1	7	1	3	0	2	3	3	0	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:47730897T>C	uc003crq.2	-	13	1361	c.1243A>G	c.(1243-1245)ACA>GCA	p.T415A	SMARCC1_uc011bbd.1_Missense_Mutation_p.T306A	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	415					chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		GCTGTGACTGTTTCTTCATCC	0.398													7	34					0	0	1	0	0		C	47730897	C	C	47730897	3	2	89	1	0	0	0	0	1	0	0	0	14800	1725	60	3	2138	3	SMARCC1	3	47730897	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	79115	47730897	150291533	1461	55292											
SMARCC1	6599	broad.mit.edu	37	chr3	47734780	47734780	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtattttcactatctttCtttaggttcactagaaaaag	11	17	7	6	0	4	1	2	0	2	1	4	1	4	1	0	2	0	2	0	2	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:47734780C>A	uc003crq.2	-	12	1294	c.1176G>T	c.(1174-1176)AAG>AAT	p.K392N	SMARCC1_uc011bbd.1_Missense_Mutation_p.K283N	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	392					chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		CACTATCTTTCTTTAGGTTCA	0.333													23	70					3.6726e-16	4.20841e-16	1	1	0		A	47734780	A	A	47734780	3	1	89	1	0	0	0	0	1	0	0	0	14800	912	32	5	2209	5	SMARCC1	3	47734780	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3883	47734780	150287650	1462	55293											
DHX30	22907	broad.mit.edu	37	chr3	47891144	47891144	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacacggttacggagccgAtggctgacgtatttcatggc	8	9	13	11	4	1	1	1	1	0	0	1	3	1	2	2	4	2	3	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:47891144A>G	uc003cru.2	+	21	3642	c.3216A>G	c.(3214-3216)CGA>CGG	p.R1072R	DHX30_uc003crt.2_Silent_p.R1033R	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	1072						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		TACGGAGCCGATGGCTGACGT	0.632													36	42					0	0	1	0	0		G	47891144	G	G	47891144	2	3	89	1	0	0	0	0	0	0	0	1	4510	320	12	3		3	DHX30	3	47891144	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	156364	47891144	150131286	1463	55294											
CAMP	820	broad.mit.edu	37	chr3	48266793	48266793	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaccccaggataacaagaGatttgccctgctgggtgatt	12	9	10	10	0	0	2	0	1	0	1	0	4	0	3	3	2	4	1	3	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:48266793G>T	uc003csj.1	+	4	532	c.392G>T	c.(391-393)AGA>ATA	p.R131I		NM_004345	NP_004336	P49913	CAMP_HUMAN	cathelicidin antimicrobial peptide	131					killing by host of symbiont cells|negative regulation of growth of symbiont on or near host surface	extracellular region				upper_aerodigestive_tract(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000614)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		GATAACAAGAGATTTGCCCTG	0.468													72	152					1.52378e-38	1.88676e-38	1	1	0		T	48266793	T	T	48266793	3	4	89	1	0	0	0	0	1	0	0	0	2613	942	33	5	406	5	CAMP	3	48266793	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	375649	48266793	149755637	1464	55295											
FBXW12	285231	broad.mit.edu	37	chr3	48420978	48420978	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatttcaatatggtattgTacttctacactgctctcctg	8	17	6	10	0	3	0	1	0	2	0	4	0	3	0	1	1	4	4	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:48420978T>C	uc003csr.2	+	7	890	c.704T>C	c.(703-705)GTA>GCA	p.V235A	FBXW12_uc010hjv.2_Missense_Mutation_p.V216A|FBXW12_uc003css.2_Missense_Mutation_p.V165A|FBXW12_uc010hjw.2_Missense_Mutation_p.V134A	NM_207102	NP_996985	Q6X9E4	FBW12_HUMAN	F-box and WD repeat domain containing 12 isoform	235											0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TATGGTATTGTACTTCTACAC	0.423													82	152					0	0	1	0	0		C	48420978	C	C	48420978	3	2	89	1	0	0	0	0	1	0	0	0	5779	1638	57	3	763	3	FBXW12	3	48420978	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	154185	48420978	149601452	1465	55296											
PLXNB1	5364	broad.mit.edu	37	chr3	48465339	48465339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcaggaacaggaagtaggCgctggccccacgtgcaaagg	11	3	15	12	3	0	0	0	0	0	0	0	2	0	2	3	5	2	4	3	5	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:48465339C>T	uc003csw.2	-	3	952	c.682G>A	c.(682-684)GCC>ACC	p.A228T	PLXNB1_uc003csu.2_Missense_Mutation_p.A228T|PLXNB1_uc003csx.2_Missense_Mutation_p.A228T|PLXNB1_uc010hjx.1_RNA	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	228	Extracellular (Potential).|Sema.				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AGGAAGTAGGCGCTGGCCCCA	0.597													6	30					0	0	1	0	0		T	48465339	T	T	48465339	3	4	89	1	0	0	0	0	1	0	0	0	12142	768	27	1	5869	1	PLXNB1	3	48465339	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44361	48465339	149557091	1466	55297											
COL7A1	1294	broad.mit.edu	37	chr3	48626118	48626118	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgtgccctcgcggtccccGacaagtgcagtcactcgcac	6	7	12	16	4	1	0	1	0	0	0	4	1	2	0	3	2	2	2	3	2	1	0	rs139545952	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:48626118G>A	uc003ctz.2	-	19	2545	c.2544C>T	c.(2542-2544)GTC>GTT	p.V848V		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	848	Nonhelical region (NC1).|Fibronectin type-III 7.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CGCGGTCCCCGACAAGTGCAG	0.592													32	59					0	0	1	0	0		A	48626118	A	A	48626118	2	1	89	1	0	0	0	0	0	0	0	1	3707	1045	37	1		1	COL7A1	3	48626118	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	160779	48626118	149396312	1467	55298											
CELSR3	1951	broad.mit.edu	37	chr3	48694593	48694593	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgtcgttctggatgttgaAgatgaagacgtcctcagcgg	8	12	14	7	3	2	4	1	2	1	2	4	5	3	5	1	2	1	2	1	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:48694593A>C	uc003cul.2	-	2	4218	c.3937T>G	c.(3937-3939)TTC>GTC	p.F1313V	CELSR3_uc003cuf.1_Missense_Mutation_p.F1383V	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1313	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TGGATGTTGAAGATGAAGACG	0.657													16	28					0	0	1	0	0		C	48694593	C	C	48694593	3	2	89	1	0	0	0	0	1	0	0	0	3226	72	3	5	6137	5	CELSR3	3	48694593	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	68475	48694593	149327837	1468	55299											
ARIH2	10425	broad.mit.edu	37	chr3	49006041	49006041	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccattgcttcccaatgaaGaattgagagagaaatacagg	15	10	9	7	0	0	4	0	2	0	3	2	6	2	4	2	1	2	1	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:49006041G>T	uc003cvb.2	+	7	925	c.613G>T	c.(613-615)GAA>TAA	p.E205*	ARIH2_uc003cvc.2_Nonsense_Mutation_p.E205*|ARIH2_uc003cvf.2_Nonsense_Mutation_p.E123*|ARIH2_uc010hkl.2_Nonsense_Mutation_p.E205*	NM_006321	NP_006312	O95376	ARI2_HUMAN	ariadne homolog 2	205					developmental cell growth|hemopoietic stem cell proliferation|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.42e-05)|Kidney(197;0.00258)|KIRC - Kidney renal clear cell carcinoma(197;0.00269)		TCCCAATGAAGAATTGAGAGA	0.478													61	128					8.50881e-52	1.05917e-51	1	1	0		T	49006041	T	T	49006041	4	4	89	1	0	0	0	0	0	1	0	0	924	943	33	5	631	5	ARIH2	3	49006041	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	311448	49006041	149016389	1469	55300											
LAMB2	3913	broad.mit.edu	37	chr3	49162014	49162014	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggagatgggcactgctgCggatttgtgcccagcaggtt	7	10	15	9	1	1	1	1	0	0	1	1	3	1	2	1	4	4	4	1	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:49162014C>T	uc003cwe.2	-	22	3440	c.3141G>A	c.(3139-3141)CCG>CCA	p.P1047P	LAMB2_uc003cwf.1_Silent_p.P1047P	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1047	Laminin EGF-like 11.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GGCACTGCTGCGGATTTGTGC	0.597													10	16					0	0	1	0	0		T	49162014	T	T	49162014	2	4	89	1	0	0	0	0	0	0	0	1	8627	755	27	1		1	LAMB2	3	49162014	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	155973	49162014	148860416	1470	55301											
USP4	7375	broad.mit.edu	37	chr3	49321563	49321563	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgcttcttacagttgggAcagtacctaaaaagagaaac	15	10	9	7	0	1	2	0	1	1	1	1	4	1	3	1	1	4	3	1	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:49321563A>G	uc003cwq.2	-	19	2476	c.2397T>C	c.(2395-2397)TGT>TGC	p.C799C	USP4_uc003cwo.2_Silent_p.C511C|USP4_uc003cwp.2_Silent_p.C529C|USP4_uc003cwr.2_Silent_p.C752C	NM_003363	NP_003354	Q13107	UBP4_HUMAN	ubiquitin specific protease 4 isoform a	799					negative regulation of protein ubiquitination|protein deubiquitination|protein localization at cell surface|regulation of protein stability|ubiquitin-dependent protein catabolic process	lysosome|nucleus	adenosine receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|urinary_tract(1)|lung(1)	4		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)		TACAGTTGGGACAGTACCTAA	0.522													26	77					0	0	1	0	0		G	49321563	G	G	49321563	2	3	89	1	0	0	0	0	0	0	0	1	17097	273	10	3		3	USP4	3	49321563	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	159549	49321563	148700867	1471	55302											
USP4	7375	broad.mit.edu	37	chr3	49321951	49321951	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagagctcgatgcagtCtctcagggccactgtggtct	7	10	14	10	1	3	2	1	1	2	1	5	3	3	2	1	3	2	2	1	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:49321951C>A	uc003cwq.2	-	18	2417	c.2338G>T	c.(2338-2340)GAC>TAC	p.D780Y	USP4_uc003cwo.2_Missense_Mutation_p.D492Y|USP4_uc003cwp.2_Missense_Mutation_p.D510Y|USP4_uc003cwr.2_Missense_Mutation_p.D733Y	NM_003363	NP_003354	Q13107	UBP4_HUMAN	ubiquitin specific protease 4 isoform a	780					negative regulation of protein ubiquitination|protein deubiquitination|protein localization at cell surface|regulation of protein stability|ubiquitin-dependent protein catabolic process	lysosome|nucleus	adenosine receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|urinary_tract(1)|lung(1)	4		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)		TCGATGCAGTCTCTCAGGGCC	0.572													54	80					1.81118e-26	2.19096e-26	1	1	0		A	49321951	A	A	49321951	3	1	89	1	0	0	0	0	1	0	0	0	17097	913	32	5	573	5	USP4	3	49321951	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	388	49321951	148700479	1472	55303											
DAG1	1605	broad.mit.edu	37	chr3	49548223	49548223	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtgaccattccaacagatTtgattgcctccagtggagat	11	11	10	9	0	0	4	0	2	0	2	2	6	2	4	4	1	2	0	4	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:49548223T>G	uc003cxc.3	+	2	674	c.256T>G	c.(256-258)TTG>GTG	p.L86V		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	86	Required for laminin recognition.				cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		TCCAACAGATTTGATTGCCTC	0.473													17	25					0	0	1	0	0		G	49548223	G	G	49548223	3	3	89	1	0	0	0	0	1	0	0	0	4228	1838	64	5	258	5	DAG1	3	49548223	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	226272	49548223	148474207	1473	55304											
BSN	8927	broad.mit.edu	37	chr3	49690676	49690676	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgggctccttcgaataTcaagacactacagaccgtga	11	8	10	12	2	1	3	1	1	0	2	3	4	2	3	3	2	1	1	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:49690676T>G	uc003cxe.3	+	5	3801	c.3687T>G	c.(3685-3687)TAT>TAG	p.Y1229*		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1229					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CCTTCGAATATCAAGACACTA	0.667													12	25					0	0	1	0	0		G	49690676	G	G	49690676	4	3	89	1	0	0	0	0	0	1	0	0	1533	1442	50	5	3705	5	BSN	3	49690676	Nonsense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	142453	49690676	148331754	1474	55305											
BSN	8927	broad.mit.edu	37	chr3	49693126	49693126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctcagtcacggacctgcGtcatcctacagaccttttgg	7	11	10	13	2	3	1	3	0	0	1	4	2	4	2	3	3	2	1	3	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:49693126G>A	uc003cxe.3	+	5	6251	c.6137G>A	c.(6136-6138)CGT>CAT	p.R2046H		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2046					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		ACGGACCTGCGTCATCCTACA	0.587													45	95					0	0	1	0	0		A	49693126	A	A	49693126	3	1	89	1	0	0	0	0	1	0	0	0	1533	1145	40	1	6155	1	BSN	3	49693126	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2450	49693126	148329304	1475	55306											
AMIGO3	386724	broad.mit.edu	37	chr3	49755971	49755971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcggcgaaacccaggCaatgcgcatggccgggacgc	8	4	15	14	5	0	0	0	0	0	0	0	2	0	1	2	4	4	3	2	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:49755971C>T	uc003cxj.2	-	1	1268	c.928G>A	c.(928-930)GCC>ACC	p.A310T	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	310	Extracellular (Potential).|Ig-like C2-type.				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GAAACCCAGGCAATGCGCATG	0.662													30	37					0	0	1	0	0		T	49755971	T	T	49755971	3	4	89	1	0	0	0	0	1	0	0	0	577	710	25	2	590	2	AMIGO3	3	49755971	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	62845	49755971	148266459	1476	55307											
TRAIP	10293	broad.mit.edu	37	chr3	49879261	49879261	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggccacagtacgcacttCttgagagacacacagtacac	13	6	10	12	1	1	2	0	1	1	1	1	3	1	2	1	2	2	3	1	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:49879261C>A	uc003cxs.1	-	7	721	c.615G>T	c.(613-615)AAG>AAT	p.K205N	TRAIP_uc010hla.1_Intron	NM_005879	NP_005870	Q9BWF2	TRAIP_HUMAN	TRAF interacting protein	205	Potential.				cell proliferation|induction of apoptosis	perinuclear region of cytoplasm	protein binding|zinc ion binding			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GTACGCACTTCTTGAGAGACA	0.527													16	38					2.23348e-06	2.32221e-06	1	1	0		A	49879261	A	A	49879261	3	1	89	1	0	0	0	0	1	0	0	0	16474	912	32	5	830	5	TRAIP	3	49879261	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	123290	49879261	148143169	1477	55308											
RBM6	10180	broad.mit.edu	37	chr3	50102503	50102503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagggaaggcccctgcagaaGacgtctttaagaagcccctg	12	6	12	11	1	1	3	0	0	1	3	1	4	1	4	4	2	2	1	4	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:50102503G>A	uc003cyc.2	+	16	2759	c.2626G>A	c.(2626-2628)GAC>AAC	p.D876N	RBM6_uc010hlc.1_Missense_Mutation_p.D395N|RBM6_uc003cyd.2_Missense_Mutation_p.D354N|RBM6_uc003cye.2_Missense_Mutation_p.D354N|RBM6_uc011bdi.1_Missense_Mutation_p.D218N|RBM6_uc010hld.1_RNA|RBM6_uc010hle.1_RNA|RBM6_uc010hlf.1_RNA	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	876					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		CCCTGCAGAAGACGTCTTTAA	0.498													64	151					0	0	1	0	0		A	50102503	A	A	50102503	3	1	89	1	0	0	0	0	1	0	0	0	13169	942	33	4	2684	4	RBM6	3	50102503	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	223242	50102503	147919927	1478	55309											
RBM6	10180	broad.mit.edu	37	chr3	50103758	50103758	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagaagaggaggaacaGacccctcccccacagccccg	13	1	12	15	1	0	3	0	0	0	3	1	7	1	6	6	3	2	0	6	3	3	0	rs147895205	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:50103758G>T	uc003cyc.2	+	17	2899	c.2766G>T	c.(2764-2766)CAG>CAT	p.Q922H	RBM6_uc010hlc.1_3'UTR|RBM6_uc003cyd.2_Missense_Mutation_p.Q400H|RBM6_uc003cye.2_Missense_Mutation_p.Q400H|RBM6_uc011bdi.1_Missense_Mutation_p.Q264H|RBM6_uc010hld.1_RNA|RBM6_uc010hle.1_RNA|RBM6_uc010hlf.1_RNA	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	922					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		AGGAGGAACAGACCCCTCCCC	0.532													22	50					1.96292e-10	2.12899e-10	1	1	0		T	50103758	T	T	50103758	3	4	89	1	0	0	0	0	1	0	0	0	13169	933	33	5	2828	5	RBM6	3	50103758	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1255	50103758	147918672	1479	55310											
SLC38A3	10991	broad.mit.edu	37	chr3	50254684	50254684	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcagggactggtacatgaAcgggaactacctggtaatcc	11	8	12	10	1	0	1	0	1	0	0	1	3	1	3	2	4	5	3	2	4	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:50254684A>G	uc003cyn.3	+	8	704	c.563A>G	c.(562-564)AAC>AGC	p.N188S	SLC38A3_uc011bdl.1_Missense_Mutation_p.N163S|SLC38A3_uc011bdm.1_Missense_Mutation_p.N119S	NM_006841	NP_006832	Q99624	S38A3_HUMAN	solute carrier family 38, member 3	188	Helical; (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to plasma membrane	antiporter activity|L-alanine transmembrane transporter activity|L-asparagine transmembrane transporter activity|L-glutamine transmembrane transporter activity|L-histidine transmembrane transporter activity|symporter activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000275)|KIRC - Kidney renal clear cell carcinoma(197;0.00548)|Kidney(197;0.00615)	L-Asparagine(DB00174)|L-Glutamine(DB00130)|L-Histidine(DB00117)	TGGTACATGAACGGGAACTAC	0.363													3	18					0	0	1	0	0		G	50254684	G	G	50254684	3	3	89	1	0	0	0	0	1	0	0	0	14630	43	2	3	589	3	SLC38A3	3	50254684	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	150926	50254684	147767746	1480	55311											
C3orf18	51161	broad.mit.edu	37	chr3	50597097	50597097	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcccaggccactcacgcatgGatggcattggccacatcggt	8	8	11	14	2	1	0	1	0	0	0	3	1	2	1	3	5	0	2	3	5	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:50597097G>T	uc003das.2	-	5	931	c.480C>A	c.(478-480)ATC>ATA	p.I160I	C3orf18_uc003dar.2_Silent_p.I160I|C3orf18_uc011bdr.1_RNA|C3orf18_uc010hlo.2_Silent_p.I140I|C3orf18_uc010hlp.2_5'UTR|C3orf18_uc003dat.2_Silent_p.I160I	NM_016210	NP_057294	Q9UK00	CC018_HUMAN	hypothetical protein LOC51161	160						integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.0175)|Kidney(197;0.0207)		CTCACGCATGGATGGCATTGG	0.592													4	5					2.56e-06	2.66102e-06	1	1	0		T	50597097	T	T	50597097	2	4	89	1	0	0	0	0	0	0	0	1	2214	1164	41	5		5	C3orf18	3	50597097	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	342413	50597097	147425333	1481	55312											
HEMK1	51409	broad.mit.edu	37	chr3	50608616	50608616	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccggggctgggccttcagCtcatggcaaccccaaccacc	8	5	10	18	1	2	0	2	0	0	0	2	0	2	0	6	4	3	3	6	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:50608616C>T	uc003dau.2	+	2	377	c.81C>T	c.(79-81)AGC>AGT	p.S27S	C3orf18_uc003dat.2_5'Flank|HEMK1_uc003dav.2_Silent_p.S27S|HEMK1_uc003daw.2_Silent_p.S27S	NM_016173	NP_057257	Q9Y5R4	HEMK1_HUMAN	HemK methyltransferase family member 1	27					DNA methylation		DNA binding|N-methyltransferase activity|protein methyltransferase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000283)|KIRC - Kidney renal clear cell carcinoma(197;0.0179)|Kidney(197;0.0212)		GGGCCTTCAGCTCATGGCAAC	0.617													25	36					0	0	1	0	0		T	50608616	T	T	50608616	2	4	89	1	0	0	0	0	0	0	0	1	7067	796	28	2		2	HEMK1	3	50608616	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11519	50608616	147413814	1482	55313											
MAPKAPK3	7867	broad.mit.edu	37	chr3	50655008	50655008	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgggggccatggatggtgaAacagcagaggagcagggggg	10	3	22	6	1	0	2	0	1	0	1	0	4	0	4	1	8	3	2	1	8	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:50655008A>C	uc003day.1	+	4	608	c.12A>C	c.(10-12)GAA>GAC	p.E4D	MAPKAPK3_uc003daz.1_Missense_Mutation_p.E4D|MAPKAPK3_uc003dba.1_Missense_Mutation_p.E4D|MAPKAPK3_uc010hlr.1_Missense_Mutation_p.E4D	NM_004635	NP_004626	Q16644	MAPK3_HUMAN	mitogen-activated protein kinase-activated	4					activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.0188)|Kidney(197;0.0223)		TGGATGGTGAAACAGCAGAGG	0.721													17	32					0	0	1	0	0		C	50655008	C	C	50655008	3	2	89	1	0	0	0	0	1	0	0	0	9308	11	1	5	14	5	MAPKAPK3	3	50655008	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	46392	50655008	147367422	1483	55314											
MAPKAPK3	7867	broad.mit.edu	37	chr3	50683628	50683628	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccatctccccggggatGaagaggaggattcgcctggg	8	6	16	11	2	1	2	0	1	1	1	3	5	1	5	4	6	0	0	4	6	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:50683628G>T	uc003day.1	+	10	1358	c.762G>T	c.(760-762)ATG>ATT	p.M254I	MAPKAPK3_uc003daz.1_Missense_Mutation_p.M254I|MAPKAPK3_uc003dba.1_Missense_Mutation_p.M254I|MAPKAPK3_uc010hlr.1_Missense_Mutation_p.M254I	NM_004635	NP_004626	Q16644	MAPK3_HUMAN	mitogen-activated protein kinase-activated	254	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.0188)|Kidney(197;0.0223)		CCCCGGGGATGAAGAGGAGGA	0.592													77	142					4.8811e-34	6.00931e-34	1	1	0		T	50683628	T	T	50683628	3	4	89	1	0	0	0	0	1	0	0	0	9308	1290	45	5	788	5	MAPKAPK3	3	50683628	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	28620	50683628	147338802	1484	55315											
DOCK3	1795	broad.mit.edu	37	chr3	51417640	51417640	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcccggaccctgcgcaaggTaatgtactgaagcggcagcc	9	6	13	13	3	0	1	0	1	0	0	0	2	0	2	3	3	5	4	3	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:51417640T>C	uc011bds.1	+	52	5606	c.5583_splice	c.e52+2	p.K1861_splice		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3							cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		CTGCGCAAGGTAATGTACTGA	0.597													8	17					0	0	1	0	0		C	51417640	C	C	51417640	5	2	89	1	0	0	0	0	0	0	1	0	4694	1652	57	3	5791	3	DOCK3	3	51417640	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	734012	51417640	146604790	1485	55316											
RBM15B	29890	broad.mit.edu	37	chr3	51430882	51430882	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaagaaggcaagagacagCgagcgcaatcaccggaccac	15	1	14	11	3	1	2	1	0	0	2	1	6	1	4	2	3	2	2	2	3	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:51430882C>T	uc003dbd.2	+	1	2152	c.2052C>T	c.(2050-2052)AGC>AGT	p.S684S		NM_013286	NP_037418	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	684					interspecies interaction between organisms|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleoplasm	nucleotide binding|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CAAGAGACAGCGAGCGCAATC	0.582													32	55					0	0	1	0	0		T	51430882	T	T	51430882	2	4	89	1	0	0	0	0	0	0	0	1	13142	767	27	1		1	RBM15B	3	51430882	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13242	51430882	146591548	1486	55317											
VPRBP	9730	broad.mit.edu	37	chr3	51497201	51497201	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtctgcaagctgcagtgtTtaaagggggctctcggcttg	7	11	15	8	1	2	0	0	0	2	0	3	1	2	0	0	3	3	6	0	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:51497201T>G	uc003dbe.1	-	6	472	c.304A>C	c.(304-306)AAC>CAC	p.N102H	VPRBP_uc003dbg.1_Missense_Mutation_p.N102H	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	102					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		GCTGCAGTGTTTAAAGGGGGC	0.388													11	19					0	0	1	0	0		G	51497201	G	G	51497201	3	3	89	1	0	0	0	0	1	0	0	0	17211	1841	64	5	4136	5	VPRBP	3	51497201	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	66319	51497201	146525229	1487	55318											
GRM2	2912	broad.mit.edu	37	chr3	51743099	51743099	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctggagggagacttggtgCtgggtgggctgttcccagtg	4	10	18	9	0	0	1	0	0	0	1	1	3	1	2	2	5	1	3	2	5	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:51743099C>T	uc010hlv.2	+	2	339	c.100C>T	c.(100-102)CTG>TTG	p.L34L	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	34	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	AGACTTGGTGCTGGGTGGGCT	0.642													22	32					0	0	1	0	0		T	51743099	T	T	51743099	2	4	89	1	0	0	0	0	0	0	0	1	6813	796	28	2		2	GRM2	3	51743099	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	245898	51743099	146279331	1488	55319											
GRM2	2912	broad.mit.edu	37	chr3	51743227	51743227	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccgcatcaaccgtgacccGcacctgctgcctggcgtgcg	6	6	12	17	5	1	1	1	1	0	0	1	2	1	1	5	1	4	3	5	1	1	0	rs140328919		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:51743227G>A	uc010hlv.2	+	2	467	c.228G>A	c.(226-228)CCG>CCA	p.P76P	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	76	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	ACCGTGACCCGCACCTGCTGC	0.632													70	102					0	0	1	0	0		A	51743227	A	A	51743227	2	1	89	1	0	0	0	0	0	0	0	1	6813	1074	38	1		1	GRM2	3	51743227	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	128	51743227	146279203	1489	55320											
IQCF2	389123	broad.mit.edu	37	chr3	51897136	51897136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtggcggatgacgctgtCgagggtgctggagaagaaac	9	7	18	7	3	0	3	0	1	0	2	1	6	0	4	0	5	2	2	0	5	2	0	rs147180778		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:51897136C>T	uc003dbt.1	+	3	283	c.245C>T	c.(244-246)TCG>TTG	p.S82L	IQCF1_uc003dbq.3_Intron|IQCF2_uc003dbu.1_RNA	NM_203424	NP_982248	Q8IXL9	IQCF2_HUMAN	IQ motif containing F2	82											0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		ATGACGCTGTCGAGGGTGCTG	0.612													31	58					0	0	1	0	0		T	51897136	T	T	51897136	3	4	89	1	0	0	0	0	1	0	0	0	7824	893	31	1	255	1	IQCF2	3	51897136	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	153909	51897136	146125294	1490	55321											
RPL29	6159	broad.mit.edu	37	chr3	52027960	52027960	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgggcaatgtaggcaagTcgatcgagcttgcggctgac	8	8	17	8	3	0	1	0	1	0	0	2	3	0	1	0	4	2	5	0	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52027960T>G	uc003dcs.2	-	4	379	c.285A>C	c.(283-285)CGA>CGC	p.R95R		NM_000992	NP_000983	P47914	RL29_HUMAN	ribosomal protein L29	95					embryo implantation|endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	heparin binding|protein binding|RNA binding|structural constituent of ribosome				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		TGTAGGCAAGTCGATCGAGCT	0.522													40	82					0	0	1	0	0		G	52027960	G	G	52027960	2	3	89	1	0	0	0	0	0	0	0	1	13603	1654	58	5		5	RPL29	3	52027960	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	130824	52027960	145994470	1491	55322											
DNAH1	25981	broad.mit.edu	37	chr3	52381902	52381902	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctctggggtgcactataGcaccccactggagcagtttg	8	9	12	12	0	1	0	0	0	1	0	1	1	1	1	2	3	4	5	2	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52381902G>T	uc011bef.1	+	12	2279	c.2018G>T	c.(2017-2019)AGC>ATC	p.S673I	DNAH1_uc003ddt.1_Missense_Mutation_p.S673I	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	673	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GTGCACTATAGCACCCCACTG	0.607													8	7					1.12685e-05	1.16379e-05	1	1	0		T	52381902	T	T	52381902	3	4	89	1	0	0	0	0	1	0	0	0	4603	971	34	5	2060	5	DNAH1	3	52381902	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	353942	52381902	145640528	1492	55323											
DNAH1	25981	broad.mit.edu	37	chr3	52423500	52423500	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtaccgcacggtgctctaCgacagctgggtcaagcagct	9	7	12	13	3	2	0	1	0	1	0	2	1	2	0	1	2	6	6	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52423500C>T	uc011bef.1	+	60	9780	c.9519C>T	c.(9517-9519)TAC>TAT	p.Y3173Y	DNAH1_uc003ddv.2_Silent_p.Y31Y	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3238					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CGGTGCTCTACGACAGCTGGG	0.592													8	9					0	0	1	0	0		T	52423500	T	T	52423500	2	4	89	1	0	0	0	0	0	0	0	1	4603	547	19	1		1	DNAH1	3	52423500	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	41598	52423500	145598930	1493	55324											
DNAH1	25981	broad.mit.edu	37	chr3	52433758	52433758	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggcccaggaccaggacttTtacctgtgccccatctacaa	11	8	8	14	0	1	0	0	0	1	0	1	2	1	2	5	3	3	0	5	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52433758T>G	uc011bef.1	+	77	12900	c.12639T>G	c.(12637-12639)TTT>TTG	p.F4213L	DNAH1_uc003ddv.2_Missense_Mutation_p.F1046C	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	4278					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		ACCAGGACTTTTACCTGTGCC	0.597													56	79					0	0	1	0	0		G	52433758	G	G	52433758	3	3	89	1	0	0	0	0	1	0	0	0	4603	1838	64	5	12941	5	DNAH1	3	52433758	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	10258	52433758	145588672	1494	55325											
BAP1	8314	broad.mit.edu	37	chr3	52441282	52441282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggaacgcctccatggtcCgcactgcactaaggccattc	9	8	10	14	2	0	0	0	0	0	0	3	1	2	1	4	3	2	2	4	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52441282C>T	uc003ddx.2	-	7	603	c.488G>A	c.(487-489)CGG>CAG	p.R163Q	BAP1_uc010hmh.2_5'Flank	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	163					monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		CTCCATGGTCCGCACTGCACT	0.572			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								22	47					0	0	1	0	0		T	52441282	T	T	52441282	3	4	89	1	0	0	0	0	1	0	0	0	1312	652	23	1	1745	1	BAP1	3	52441282	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7524	52441282	145581148	1495	55326											
SEMA3G	56920	broad.mit.edu	37	chr3	52475391	52475391	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattgtcctggtcagagttCtcagggatccgggcggccat	6	11	13	11	2	3	1	3	0	1	1	6	2	5	2	3	4	0	1	3	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52475391C>A	uc003dea.1	-	7	702	c.702G>T	c.(700-702)GAG>GAT	p.E234D		NM_020163	NP_064548	Q9NS98	SEM3G_HUMAN	semaphorin sem2 precursor	234	Sema.				multicellular organismal development	extracellular region|membrane	receptor activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00173)|KIRC - Kidney renal clear cell carcinoma(197;0.00196)|OV - Ovarian serous cystadenocarcinoma(275;0.0333)		GGTCAGAGTTCTCAGGGATCC	0.627													26	41					1.12875e-08	1.20353e-08	1	1	0		A	52475391	A	A	52475391	3	1	89	1	0	0	0	0	1	0	0	0	14055	912	32	5	1686	5	SEMA3G	3	52475391	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34109	52475391	145547039	1496	55327											
NISCH	11188	broad.mit.edu	37	chr3	52505858	52505858	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgggggccggcgaggtCtttgccattggacccctgca	4	9	14	14	2	1	0	0	0	1	0	2	2	2	1	5	5	2	1	5	5	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52505858C>A	uc011beg.1	+	6	510	c.438C>A	c.(436-438)GTC>GTA	p.V146V	NISCH_uc003ded.3_Silent_p.V146V|NISCH_uc003dec.1_Silent_p.V146V	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	146	Necessary for homooligomerization and targeting to endosomes.				apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		CCGGCGAGGTCTTTGCCATTG	0.647											OREG0015615	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	36					6.33239e-15	7.18091e-15	1	1	0		A	52505858	A	A	52505858	2	1	89	1	0	0	0	0	0	0	0	1	10451	900	32	5		5	NISCH	3	52505858	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30467	52505858	145516572	1497	55328											
STAB1	23166	broad.mit.edu	37	chr3	52543302	52543302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcgcctgccacatctgctCgaacccaaacaagcatggag	12	6	8	15	2	1	0	0	0	1	0	3	2	1	1	3	1	5	2	3	1	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52543302C>T	uc003dej.2	+	22	2386	c.2312C>T	c.(2311-2313)TCG>TTG	p.S771L		NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	771	Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CACATCTGCTCGAACCCAAAC	0.577													9	35					0	0	1	0	0		T	52543302	T	T	52543302	3	4	89	1	0	0	0	0	1	0	0	0	15262	893	31	1	2398	1	STAB1	3	52543302	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	37444	52543302	145479128	1498	55329											
NT5DC2	64943	broad.mit.edu	37	chr3	52558592	52558592	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcggcgtacggcgtgggTagaaggtgaagtccacgcgg	8	5	19	9	6	0	2	0	1	0	1	1	2	1	2	1	5	2	3	1	5	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52558592T>C	uc003deo.2	-	14	1881	c.1457A>G	c.(1456-1458)TAC>TGC	p.Y486C	NT5DC2_uc003dem.2_Missense_Mutation_p.Y356C|NT5DC2_uc003den.2_Missense_Mutation_p.Y523C|NT5DC2_uc010hmi.2_Missense_Mutation_p.Y498C|NT5DC2_uc010hmj.2_Missense_Mutation_p.Y302C	NM_022908	NP_075059	Q9H857	NT5D2_HUMAN	5'-nucleotidase domain containing 2 isoform 2	486							hydrolase activity|metal ion binding				0				BRCA - Breast invasive adenocarcinoma(193;1.7e-05)|Kidney(197;0.00177)|KIRC - Kidney renal clear cell carcinoma(197;0.002)|OV - Ovarian serous cystadenocarcinoma(275;0.0476)		ACGGCGTGGGTAGAAGGTGAA	0.622													27	55					0	0	1	0	0		C	52558592	C	C	52558592	3	2	89	1	0	0	0	0	1	0	0	0	10710	1638	57	3	109	3	NT5DC2	3	52558592	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15290	52558592	145463838	1499	55330											
ITIH1	3697	broad.mit.edu	37	chr3	52824806	52824806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagaggaacctggtggtgtCtgtggacgacggtggcacct	8	8	17	8	2	1	1	0	0	1	1	1	5	1	3	2	6	1	1	2	6	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52824806C>T	uc003dfs.2	+	20	2387	c.2363C>T	c.(2362-2364)TCT>TTT	p.S788F	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Missense_Mutation_p.S389F|ITIH1_uc010hmo.1_Missense_Mutation_p.S342F|ITIH1_uc003dfu.2_Missense_Mutation_p.S154F	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	788	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		CTGGTGGTGTCTGTGGACGAC	0.592													57	99					0	0	1	0	0		T	52824806	T	T	52824806	3	4	89	1	0	0	0	0	1	0	0	0	7919	913	32	4	2441	4	ITIH1	3	52824806	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	266214	52824806	145197624	1500	55331											
ITIH3	3699	broad.mit.edu	37	chr3	52831835	52831835	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttactttggccatttcagatCgaggtagacatcttcgagcc	9	13	9	10	2	2	2	1	0	1	2	4	4	2	2	2	2	2	1	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52831835C>T	uc003dfv.2	+	6	588	c.552C>T	c.(550-552)ATC>ATT	p.I184I	ITIH3_uc011bek.1_Silent_p.I184I	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	184					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		CATTTCAGATCGAGGTAGACA	0.532													4	9					0	0	1	0	0		T	52831835	T	T	52831835	2	4	89	1	0	0	0	0	0	0	0	1	7921	874	31	1		1	ITIH3	3	52831835	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7029	52831835	145190595	1501	55332											
ITIH3	3699	broad.mit.edu	37	chr3	52836763	52836763	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggagcgggactacatcttCgggaattacattgagcggct	10	9	13	9	3	1	1	0	1	1	0	2	4	1	4	0	4	4	1	0	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52836763C>T	uc003dfv.2	+	13	1686	c.1650C>T	c.(1648-1650)TTC>TTT	p.F550F	ITIH3_uc011bek.1_Intron	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	550					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		ACTACATCTTCGGGAATTACA	0.602													21	30					0	0	1	0	0		T	52836763	T	T	52836763	2	4	89	1	0	0	0	0	0	0	0	1	7921	883	31	1		1	ITIH3	3	52836763	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4928	52836763	145185667	1502	55333											
ITIH4	3700	broad.mit.edu	37	chr3	52859950	52859950	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacatcatagcggataatGaggttgccgtccaggactgt	10	10	11	10	2	1	1	1	1	0	0	3	3	3	3	3	3	2	1	3	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52859950G>T	uc003dfz.2	-	6	747	c.711C>A	c.(709-711)CTC>CTA	p.L237L	ITIH4_uc011bel.1_5'UTR|ITIH4_uc003dfy.2_Silent_p.L101L|ITIH4_uc011bem.1_Silent_p.L237L|ITIH4_uc011ben.1_Silent_p.L237L	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	237					acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		AGCGGATAATGAGGTTGCCGT	0.572													17	45					5.35267e-07	5.59727e-07	1	1	0		T	52859950	T	T	52859950	2	4	89	1	0	0	0	0	0	0	0	1	7922	1277	45	5		5	ITIH4	3	52859950	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23187	52859950	145162480	1503	55334											
ITIH4	3700	broad.mit.edu	37	chr3	52860836	52860836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgaccagctgctggggccGcactttcagcagcagctcgt	6	9	12	14	2	1	1	1	1	0	0	2	1	1	1	2	2	5	6	2	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52860836G>A	uc003dfz.2	-	4	526	c.490C>T	c.(490-492)CGG>TGG	p.R164W	ITIH4_uc011bel.1_5'Flank|ITIH4_uc003dfy.2_Missense_Mutation_p.R40W|ITIH4_uc011bem.1_Missense_Mutation_p.R164W|ITIH4_uc011ben.1_Missense_Mutation_p.R164W	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	164					acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		TGCTGGGGCCGCACTTTCAGC	0.617													25	39					0	0	1	0	0		A	52860836	A	A	52860836	3	1	89	1	0	0	0	0	1	0	0	0	7922	1086	38	1	2386	1	ITIH4	3	52860836	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	886	52860836	145161594	1504	55335											
SFMBT1	51460	broad.mit.edu	37	chr3	52941623	52941623	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcagaggagcgtttcttcTtatgaacaaaaacatttttc	13	14	7	7	1	2	2	0	1	2	1	3	3	2	3	0	1	4	2	0	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:52941623T>C	uc003dgf.2	-	19	2602	c.2033A>G	c.(2032-2034)AAG>AGG	p.K678R	SFMBT1_uc010hmr.2_Missense_Mutation_p.K625R|SFMBT1_uc003dgg.2_Missense_Mutation_p.K678R|SFMBT1_uc003dgh.2_Missense_Mutation_p.K678R	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	678					regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		GCGTTTCTTCTTATGAACAAA	0.468													30	53					0	0	1	0	0		C	52941623	C	C	52941623	3	2	89	1	0	0	0	0	1	0	0	0	14182	1609	56	3	583	3	SFMBT1	3	52941623	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	80787	52941623	145080807	1505	55336											
PRKCD	5580	broad.mit.edu	37	chr3	53212512	53212512	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgaggacgaggcgaaccAgcccttctgtgccgtgaaga	9	5	15	12	4	1	2	0	1	1	1	1	6	1	3	4	3	3	0	4	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:53212512A>C	uc003dgl.2	+	3	427	c.74A>C	c.(73-75)CAG>CCG	p.Q25P	PRKCD_uc003dgm.2_Missense_Mutation_p.Q25P|PRKCD_uc003dgn.2_Missense_Mutation_p.Q25P	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta	25	C2.				activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)		GAGGCGAACCAGCCCTTCTGT	0.662													15	36					0	0	1	0	0		C	53212512	C	C	53212512	3	2	89	1	0	0	0	0	1	0	0	0	12531	188	7	5	76	5	PRKCD	3	53212512	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	270889	53212512	144809918	1506	55337											
CACNA1D	776	broad.mit.edu	37	chr3	53752369	53752369	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtctgtgaacacagagAacgtcagcggtgaaggcgag	12	6	15	8	3	2	4	1	3	1	1	2	6	2	4	0	2	3	0	0	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:53752369A>C	uc003dgv.3	+	10	1595	c.1432A>C	c.(1432-1434)AAC>CAC	p.N478H	CACNA1D_uc003dgu.3_Missense_Mutation_p.N478H|CACNA1D_uc003dgy.3_Missense_Mutation_p.N478H|CACNA1D_uc003dgw.3_Missense_Mutation_p.N125H	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	478	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	GAACACAGAGAACGTCAGCGG	0.602													25	63					0	0	1	0	0		C	53752369	C	C	53752369	3	2	89	1	0	0	0	0	1	0	0	0	2544	246	9	5	1578	5	CACNA1D	3	53752369	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	539857	53752369	144270061	1507	55338											
CACNA1D	776	broad.mit.edu	37	chr3	53845206	53845206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtgtcagcaacaaaacacGaaatcgctgatgcctgtgac	13	9	9	10	2	1	2	1	2	0	0	2	3	1	2	1	0	4	2	1	0	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:53845206G>A	uc003dgv.3	+	48	6422	c.6259G>A	c.(6259-6261)GAA>AAA	p.E2087K	CACNA1D_uc003dgu.3_Missense_Mutation_p.E2107K|CACNA1D_uc003dgy.3_Missense_Mutation_p.E2063K|CACNA1D_uc003dgw.3_Missense_Mutation_p.E1754K|CACNA1D_uc011bes.1_RNA	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	2087	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	AACAAAACACGAAATCGCTGA	0.552													26	66					0	0	1	0	0		A	53845206	A	A	53845206	3	1	89	1	0	0	0	0	1	0	0	0	2544	1059	37	1	6621	1	CACNA1D	3	53845206	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	92837	53845206	144177224	1508	55339											
ACTR8	93973	broad.mit.edu	37	chr3	53914039	53914039	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgtgtcttcgggcaatgAcgtgaggaatgctggcagga	8	11	16	6	2	1	2	0	2	1	0	2	4	1	4	0	4	1	4	0	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:53914039A>C	uc003dhd.2	-	2	280	c.221T>G	c.(220-222)GTC>GGC	p.V74G	ACTR8_uc003dhb.2_5'Flank|ACTR8_uc003dhc.2_5'UTR	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	74					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		TCGGGCAATGACGTGAGGAAT	0.473													60	123					0	0	1	0	0		C	53914039	C	C	53914039	3	2	89	1	0	0	0	0	1	0	0	0	217	275	10	5	1701	5	ACTR8	3	53914039	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	68833	53914039	144108391	1509	55340											
CACNA2D3	55799	broad.mit.edu	37	chr3	54157603	54157603	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgctgctaagtactccggTtcccagcttctgcaaaaggt	9	12	9	11	1	1	0	0	0	1	0	3	0	3	0	2	2	5	6	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:54157603T>C	uc003dhf.2	+	2	234	c.186T>C	c.(184-186)GGT>GGC	p.G62G	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_5'UTR|CACNA2D3_uc003dhh.1_RNA	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	62	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		AGTACTCCGGTTCCCAGCTTC	0.488													36	56					0	0	1	0	0		C	54157603	C	C	54157603	2	2	89	1	0	0	0	0	0	0	0	1	2553	1712	60	3		3	CACNA2D3	3	54157603	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	243564	54157603	143864827	1510	55341											
LRTM1	57408	broad.mit.edu	37	chr3	54952817	54952817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgaggacactggatcaggaGcaggaagagggcagggctgg	11	3	20	7	1	1	1	1	0	0	1	1	6	1	5	0	7	1	3	0	7	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:54952817G>A	uc003dhl.2	-	3	841	c.707C>T	c.(706-708)GCT>GTT	p.A236V	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	236	Extracellular (Potential).					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		TGGATCAGGAGCAGGAAGAGG	0.602													15	32					0	0	1	0	0		A	54952817	A	A	54952817	3	1	89	1	0	0	0	0	1	0	0	0	9062	971	34	2	334	2	LRTM1	3	54952817	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	795214	54952817	143069613	1511	55342											
CACNA2D3	55799	broad.mit.edu	37	chr3	55018657	55018657	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaattgttacctcatagAcaataatggatttattttgg	12	17	8	4	0	1	2	1	1	0	1	1	3	1	3	1	2	1	1	1	2	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:55018657A>G	uc003dhf.2	+	30	2627	c.2579A>G	c.(2578-2580)GAC>GGC	p.D860G	CACNA2D3_uc003dhg.1_Missense_Mutation_p.D766G|CACNA2D3_uc003dhh.1_RNA	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	860	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		TACCTCATAGACAATAATGGA	0.368													2	1					0	0	1	0	0		G	55018657	G	G	55018657	3	3	89	1	0	0	0	0	1	0	0	0	2553	275	10	3	2697	3	CACNA2D3	3	55018657	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	65840	55018657	143003773	1512	55343											
ERC2	26059	broad.mit.edu	37	chr3	56114904	56114904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taacatatctttcatgtcacGaatttcaccggccagtgtcc	10	13	6	12	2	4	0	3	0	1	0	5	1	5	0	3	1	1	0	3	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:56114904G>A	uc003dhr.1	-	7	1838	c.1582C>T	c.(1582-1584)CGT>TGT	p.R528C	ERC2_uc003dht.1_5'UTR	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	528	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		TTCATGTCACGAATTTCACCG	0.398													15	22					0	0	1	0	0		A	56114904	A	A	56114904	3	1	89	1	0	0	0	0	1	0	0	0	5219	1058	37	1	1325	1	ERC2	3	56114904	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1096247	56114904	141907526	1513	55344											
C3orf63	23272	broad.mit.edu	37	chr3	56657215	56657215	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gatgaaagggcatatggtgtCcccaaaaatgtctgatgagt	13	10	12	6	0	1	3	0	3	1	0	2	4	2	3	2	2	0	1	2	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:56657215C>T	uc003did.3	-	23	4781	c.4680G>A	c.(4678-4680)GGG>GGA	p.G1560G	C3orf63_uc003dib.3_Silent_p.G679G|C3orf63_uc003dic.3_Silent_p.G1184G|C3orf63_uc003die.3_3'UTR	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	1621										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		CATATGGTGTCCCCAAAAATG	0.343													22	85					0	0	1	0	0		T	56657215	T	T	56657215	2	4	89	1	0	0	0	0	0	0	0	1	2242	842	30	4		4	C3orf63	3	56657215	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	542311	56657215	141365215	1514	55345											
C3orf63	23272	broad.mit.edu	37	chr3	56661678	56661678	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctccagatacaaataatTcattgtatgtatgattttta	15	16	4	6	0	1	2	1	1	0	1	2	2	2	2	2	0	2	2	2	0	7	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:56661678T>G	uc003did.3	-	19	3880	c.3779A>C	c.(3778-3780)GAA>GCA	p.E1260A	C3orf63_uc003dib.3_Missense_Mutation_p.E379A|C3orf63_uc003dic.3_Missense_Mutation_p.E884A|C3orf63_uc003die.3_Missense_Mutation_p.E1321A	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	1321										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		TACAAATAATTCATTGTATGT	0.373													25	58					0	0	1	0	0		G	56661678	G	G	56661678	3	3	89	1	0	0	0	0	1	0	0	0	2242	1783	62	5	1130	5	C3orf63	3	56661678	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4463	56661678	141360752	1515	55346											
C3orf63	23272	broad.mit.edu	37	chr3	56674012	56674012	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtccaagtatacttttcttAcctgtaattggaatcagttt	11	17	6	7	0	2	0	1	0	1	0	3	1	3	1	2	1	2	3	2	1	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:56674012A>G	uc003did.3	-	16	2865	c.2764_splice	c.e16+1	p.D922_splice	C3orf63_uc003dic.3_Splice_Site_p.G526_splice|C3orf63_uc003die.3_Splice_Site_p.G922_splice	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b											ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		TACTTTTCTTACCTGTAATTG	0.378													12	17					0	0	1	0	0		G	56674012	G	G	56674012	5	3	89	1	0	0	0	0	0	0	1	0	2242	405	14	3	2342	3	C3orf63	3	56674012	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	12334	56674012	141348418	1516	55347											
ARHGEF3	50650	broad.mit.edu	37	chr3	56763357	56763357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagtctgtctgttccatgcGctcacagtcgaggctgacct	7	11	11	12	2	3	2	1	1	2	1	5	3	4	2	2	1	1	3	2	1	0	1	rs115250058	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:56763357G>A	uc003dig.2	-	10	1691	c.1522C>T	c.(1522-1524)CGC>TGC	p.R508C	ARHGEF3_uc011bew.1_Missense_Mutation_p.R508C|ARHGEF3_uc003dih.2_Missense_Mutation_p.R540C|ARHGEF3_uc011bev.1_Missense_Mutation_p.R479C|ARHGEF3_uc003dif.2_Missense_Mutation_p.R514C|ARHGEF3_uc010hmy.1_Missense_Mutation_p.R306C	NM_019555	NP_062455	Q9NR81	ARHG3_HUMAN	Rho guanine nucleotide exchange factor 3 isoform	508					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0161)|Kidney(284;0.019)|OV - Ovarian serous cystadenocarcinoma(275;0.193)		TGTTCCATGCGCTCACAGTCG	0.522													25	65					0	0	1	0	0		A	56763357	A	A	56763357	3	1	89	1	0	0	0	0	1	0	0	0	904	1087	38	1	62	1	ARHGEF3	3	56763357	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	89345	56763357	141259073	1517	55348											
HESX1	8820	broad.mit.edu	37	chr3	57232259	57232259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgttgaaattttttttcGccattagaaactgtgattct	9	20	7	5	1	1	3	0	2	1	1	2	3	1	3	1	0	1	1	1	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:57232259G>A	uc003din.3	-	4	858	c.524C>T	c.(523-525)GCG>GTG	p.A175V		NM_003865	NP_003856	Q9UBX0	HESX1_HUMAN	HESX homeobox 1	175						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0109)|Kidney(284;0.0126)		ATTTTTTTTCGCCATTAGAAA	0.318													15	40					0	0	1	0	0		A	57232259	A	A	57232259	3	1	89	1	0	0	0	0	1	0	0	0	7088	1087	38	1	37	1	HESX1	3	57232259	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	468902	57232259	140790171	1518	55349											
APPL1	26060	broad.mit.edu	37	chr3	57269638	57269638	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagaagatgccacagctatTtccaactatatgaaccagtt	15	10	7	9	0	0	3	0	1	0	2	1	4	1	3	3	0	4	2	3	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:57269638T>G	uc003dio.2	+	2	246	c.99T>G	c.(97-99)ATT>ATG	p.I33M	APPL1_uc010hnb.2_Missense_Mutation_p.I33M|APPL1_uc011bey.1_Missense_Mutation_p.I16M	NM_012096	NP_036228	Q9UKG1	DP13A_HUMAN	adaptor protein, phosphotyrosine interaction, PH	33	Required for RAB5A binding.				apoptosis|cell cycle|cell proliferation|insulin receptor signaling pathway|regulation of apoptosis|regulation of establishment of protein localization in plasma membrane|regulation of glucose import	cytosol|early endosome membrane|microsome|nucleus|vesicle membrane	protein kinase B binding			breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0124)|Kidney(284;0.0144)		CCACAGCTATTTCCAACTATA	0.323													47	82					0	0	1	0	0		G	57269638	G	G	57269638	3	3	89	1	0	0	0	0	1	0	0	0	817	1829	64	5	105	5	APPL1	3	57269638	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	37379	57269638	140752792	1519	55350											
APPL1	26060	broad.mit.edu	37	chr3	57283540	57283540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggactgtgaagacagacGatattgttttcagatcacct	11	13	10	7	1	2	4	2	1	0	3	2	6	2	5	1	1	0	1	1	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:57283540G>A	uc003dio.2	+	11	1163	c.1016G>A	c.(1015-1017)CGA>CAA	p.R339Q	APPL1_uc010hnb.2_Missense_Mutation_p.R339Q|APPL1_uc011bey.1_Missense_Mutation_p.R322Q	NM_012096	NP_036228	Q9UKG1	DP13A_HUMAN	adaptor protein, phosphotyrosine interaction, PH	339	Required for RAB5A binding.|PH.				apoptosis|cell cycle|cell proliferation|insulin receptor signaling pathway|regulation of apoptosis|regulation of establishment of protein localization in plasma membrane|regulation of glucose import	cytosol|early endosome membrane|microsome|nucleus|vesicle membrane	protein kinase B binding			breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0124)|Kidney(284;0.0144)		GAAGACAGACGATATTGTTTT	0.393													38	74					0	0	1	0	0		A	57283540	A	A	57283540	3	1	89	1	0	0	0	0	1	0	0	0	817	1058	37	1	1058	1	APPL1	3	57283540	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13902	57283540	140738890	1520	55351											
FAM116A	201627	broad.mit.edu	37	chr3	57616162	57616162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgaacctcttcacaaagagCttctagatggagtgcctcca	11	10	8	12	1	3	2	1	0	2	2	5	4	4	3	3	1	3	1	3	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:57616162C>T	uc003dja.2	-	18	1677	c.1606G>A	c.(1606-1608)GCT>ACT	p.A536T		NM_152678	NP_689891	Q8IWF6	F116A_HUMAN	hypothetical protein LOC201627	536										pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000621)|KIRC - Kidney renal clear cell carcinoma(284;0.0485)|Kidney(284;0.0607)		TCACAAAGAGCTTCTAGATGG	0.358													15	27					0	0	1	0	0		T	57616162	T	T	57616162	3	4	89	1	0	0	0	0	1	0	0	0	5418	797	28	2	232	2	FAM116A	3	57616162	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	332622	57616162	140406268	1521	55352											
FAM116A	201627	broad.mit.edu	37	chr3	57649398	57649398	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctttttagagttttatctcGaacttgtcggaaatacacat	11	17	6	7	2	2	1	0	0	2	1	4	3	2	2	0	1	2	1	0	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:57649398G>A	uc003dja.2	-	5	549	c.478C>T	c.(478-480)CGA>TGA	p.R160*		NM_152678	NP_689891	Q8IWF6	F116A_HUMAN	hypothetical protein LOC201627	160										pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000621)|KIRC - Kidney renal clear cell carcinoma(284;0.0485)|Kidney(284;0.0607)		GTTTTATCTCGAACTTGTCGG	0.294													27	68					0	0	1	0	0		A	57649398	A	A	57649398	4	1	89	1	0	0	0	0	0	1	0	0	5418	1066	37	1	1412	1	FAM116A	3	57649398	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	33236	57649398	140373032	1522	55353											
FAM116A	201627	broad.mit.edu	37	chr3	57651870	57651870	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaagtaaactggtaaatCtttgtcaaattgatccagga	14	14	7	6	0	2	1	1	1	1	0	3	2	3	2	1	2	1	2	1	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:57651870C>A	uc003dja.2	-	4	483	c.412G>T	c.(412-414)GAT>TAT	p.D138Y		NM_152678	NP_689891	Q8IWF6	F116A_HUMAN	hypothetical protein LOC201627	138										pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000621)|KIRC - Kidney renal clear cell carcinoma(284;0.0485)|Kidney(284;0.0607)		ACTGGTAAATCTTTGTCAAAT	0.393													30	105					7.16923e-06	7.42482e-06	1	1	0		A	57651870	A	A	57651870	3	1	89	1	0	0	0	0	1	0	0	0	5418	913	32	5	1482	5	FAM116A	3	57651870	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2472	57651870	140370560	1523	55354											
SLMAP	7871	broad.mit.edu	37	chr3	57875781	57875781	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggcagagaagctgatcgtCgaagggcatctaaccaaagc	13	7	12	9	2	1	2	0	1	1	1	3	4	1	2	1	2	3	3	1	2	4	2	rs139832644		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:57875781C>T	uc003dje.1	+	13	1468	c.1263C>T	c.(1261-1263)GTC>GTT	p.V421V	SLMAP_uc003djc.1_Silent_p.V417V|SLMAP_uc003djd.1_Silent_p.V404V|SLMAP_uc003djf.1_Silent_p.V383V|SLMAP_uc003djg.1_Intron|SLMAP_uc011bez.1_5'UTR|SLMAP_uc011bfa.1_5'UTR|SLMAP_uc003djh.2_5'UTR|SLMAP_uc003dji.1_5'UTR	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	421	Cytoplasmic (Potential).				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)		AGCTGATCGTCGAAGGGCATC	0.408													38	53					0	0	1	0	0		T	57875781	T	T	57875781	2	4	89	1	0	0	0	0	0	0	0	1	14774	871	31	1		1	SLMAP	3	57875781	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	223911	57875781	140146649	1524	55355											
FLNB	2317	broad.mit.edu	37	chr3	58131773	58131773	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcacagaggatgcaggaGaaggtactgtgtggtttacg	10	10	15	6	2	1	2	1	0	0	2	2	4	1	3	0	4	3	3	0	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:58131773G>T	uc003djj.2	+	33	5716	c.5551G>T	c.(5551-5553)GAA>TAA	p.E1851*	FLNB_uc010hne.2_Nonsense_Mutation_p.E1882*|FLNB_uc003djk.2_Nonsense_Mutation_p.E1840*|FLNB_uc010hnf.2_Nonsense_Mutation_p.E1827*|FLNB_uc003djl.2_Nonsense_Mutation_p.E1671*|FLNB_uc003djm.2_Nonsense_Mutation_p.E1658*	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1851	Filamin 17.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		GGATGCAGGAGAAGGTACTGT	0.512													22	39					1.50039e-11	1.64695e-11	1	1	0		T	58131773	T	T	58131773	4	4	89	1	0	0	0	0	0	1	0	0	5948	943	33	5	5778	5	FLNB	3	58131773	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	255992	58131773	139890657	1525	55356											
FLNB	2317	broad.mit.edu	37	chr3	58134405	58134405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatcccccgggaagtgggcGaacatctggtcagcatcaag	10	7	12	12	2	4	0	3	0	1	0	5	2	5	1	2	3	2	1	2	3	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:58134405G>A	uc003djj.2	+	36	6082	c.5917G>A	c.(5917-5919)GAA>AAA	p.E1973K	FLNB_uc010hne.2_Missense_Mutation_p.E2004K|FLNB_uc003djk.2_Missense_Mutation_p.E1962K|FLNB_uc010hnf.2_Missense_Mutation_p.E1949K|FLNB_uc003djl.2_Missense_Mutation_p.E1793K|FLNB_uc003djm.2_Missense_Mutation_p.E1780K|FLNB_uc010hng.1_5'Flank	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1973	Filamin 18.|Interaction with the cytoplasmic tail of GP1BA.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		GGAAGTGGGCGAACATCTGGT	0.572													22	49					0	0	1	0	0		A	58134405	A	A	58134405	3	1	89	1	0	0	0	0	1	0	0	0	5948	1059	37	1	6156	1	FLNB	3	58134405	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2632	58134405	139888025	1526	55357											
RPP14	11102	broad.mit.edu	37	chr3	58296086	58296086	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgccacatatgaaagAgtagtttacaaaaacccttc	14	10	6	11	0	0	2	0	1	0	1	1	2	0	2	3	0	4	3	3	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:58296086A>C	uc010hnh.2	+	2	458	c.30A>C	c.(28-30)AGA>AGC	p.R10S	RPP14_uc010hni.2_Intron|RPP14_uc003dju.3_Missense_Mutation_p.R10S|RPP14_uc003djv.3_Intron|RPP14_uc003djw.3_Intron	NM_001098783	NP_001092253	O95059	RPP14_HUMAN	ribonuclease P 14kDa subunit	10					tRNA processing	nucleus	identical protein binding|ribonuclease P activity|RNA binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000187)|KIRC - Kidney renal clear cell carcinoma(10;0.0102)|Kidney(10;0.0118)|OV - Ovarian serous cystadenocarcinoma(275;0.191)		CATATGAAAGAGTAGTTTACA	0.398													33	66					0	0	1	0	0		C	58296086	C	C	58296086	3	2	89	1	0	0	0	0	1	0	0	0	13634	301	11	5	32	5	RPP14	3	58296086	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	161681	58296086	139726344	1527	55358											
PDHB	5162	broad.mit.edu	37	chr3	58417336	58417336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataccatagctgcacctacaGcaattccagcaaagcccatc	14	7	5	15	0	0	0	0	0	0	0	2	0	1	0	4	0	7	4	4	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:58417336G>A	uc003dkf.3	-	5	316	c.287C>T	c.(286-288)GCT>GTT	p.A96V	PDHB_uc003dke.3_Missense_Mutation_p.A54V|PDHB_uc003dkg.3_Missense_Mutation_p.A78V|PDHB_uc010hnl.2_Missense_Mutation_p.A78V|PDHB_uc011bff.1_Missense_Mutation_p.A96V	NM_000925	NP_000916	P11177	ODPB_HUMAN	pyruvate dehydrogenase (lipoamide) beta	96					glycolysis|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(55;0.000179)|Kidney(10;0.00231)|KIRC - Kidney renal clear cell carcinoma(10;0.00258)|OV - Ovarian serous cystadenocarcinoma(275;0.187)	NADH(DB00157)|Pyruvic acid(DB00119)	TGCACCTACAGCAATTCCAGC	0.274													45	89					0	0	1	0	0		A	58417336	A	A	58417336	3	1	89	1	0	0	0	0	1	0	0	0	11685	971	34	2	816	2	PDHB	3	58417336	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	121250	58417336	139605094	1528	55359											
C3orf67	200844	broad.mit.edu	37	chr3	58870367	58870367	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgacatgtggaacatctgTcattagttgacagcttcgtg	9	14	11	7	1	2	2	1	2	1	0	3	3	2	3	0	1	2	2	0	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:58870367T>C	uc003dkt.1	-	7	653	c.244A>G	c.(244-246)ACA>GCA	p.T82A	uc003dku.1_Intron|C3orf67_uc003dkv.1_5'UTR|C3orf67_uc003dkw.2_5'UTR	NM_198463	NP_940865	Q6ZVT6	CC067_HUMAN	hypothetical protein LOC200844	82											0		all_cancers(2;0.000156)|all_epithelial(2;0.000493)|Breast(2;0.00446)|all_lung(2;0.074)|Lung NSC(2;0.248)		BRCA - Breast invasive adenocarcinoma(55;5.93e-06)|Kidney(10;0.00155)|KIRC - Kidney renal clear cell carcinoma(10;0.00172)|OV - Ovarian serous cystadenocarcinoma(275;0.23)		GGAACATCTGTCATTAGTTGA	0.393													56	100					0	0	1	0	0		C	58870367	C	C	58870367	3	2	89	1	0	0	0	0	1	0	0	0	2244	1667	58	3	1487	3	C3orf67	3	58870367	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	453031	58870367	139152063	1529	55360											
PTPRG	5793	broad.mit.edu	37	chr3	62118333	62118333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacgggttgaagggtgtcGtacatcatggtaagtatgcc	9	11	13	8	2	1	1	1	1	0	0	3	1	2	1	2	3	2	4	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:62118333G>A	uc003dlb.2	+	6	1392	c.673G>A	c.(673-675)GTA>ATA	p.V225I	PTPRG_uc003dlc.2_Missense_Mutation_p.V225I	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	225	Extracellular (Potential).|Alpha-carbonic anhydrase.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		GAAGGGTGTCGTACATCATGG	0.438													45	142					0	0	1	0	0		A	62118333	A	A	62118333	3	1	89	1	0	0	0	0	1	0	0	0	12827	1145	40	1	695	1	PTPRG	3	62118333	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3247966	62118333	135904097	1530	55361											
CADPS	8618	broad.mit.edu	37	chr3	62522188	62522188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccatctcaaagagggaagCgtggtcaaagttacaggggt	13	8	13	7	1	2	1	2	0	1	1	3	2	2	2	1	4	3	1	1	4	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:62522188C>T	uc003dll.2	-	12	2395	c.2035G>A	c.(2035-2037)GCT>ACT	p.A679T	CADPS_uc003dlk.1_Missense_Mutation_p.A183T|CADPS_uc003dlm.2_Missense_Mutation_p.A679T|CADPS_uc003dln.2_Missense_Mutation_p.A679T	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	679					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		AAGAGGGAAGCGTGGTCAAAG	0.398													55	115					0	0	1	0	0		T	62522188	T	T	62522188	3	4	89	1	0	0	0	0	1	0	0	0	2573	768	27	1	2175	1	CADPS	3	62522188	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	403855	62522188	135500242	1531	55362											
CADPS	8618	broad.mit.edu	37	chr3	62636621	62636621	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggctgcgtttgagtttCtggagcttgaactccccgcc	4	14	12	11	2	1	2	0	2	1	0	2	3	2	3	3	2	3	4	3	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:62636621C>A	uc003dll.2	-	5	1464	c.1104G>T	c.(1102-1104)CAG>CAT	p.Q368H	CADPS_uc003dlm.2_Missense_Mutation_p.Q368H|CADPS_uc003dln.2_Missense_Mutation_p.Q368H	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	368					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		GTTTGAGTTTCTGGAGCTTGA	0.512													41	85					6.5261e-18	7.59833e-18	1	1	0		A	62636621	A	A	62636621	3	1	89	1	0	0	0	0	1	0	0	0	2573	912	32	5	3134	5	CADPS	3	62636621	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	114433	62636621	135385809	1532	55363											
PRICKLE2	166336	broad.mit.edu	37	chr3	64085446	64085446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgggcagagagcaggctgcGaactgactctgcgctccgga	8	6	15	12	3	1	2	0	1	1	1	2	5	2	3	1	3	4	4	1	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:64085446G>A	uc003dmf.2	-	8	2402	c.1816C>T	c.(1816-1818)CGC>TGC	p.R606C		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	606						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		AGCAGGCTGCGAACTGACTCT	0.562													39	115					0	0	1	0	0		A	64085446	A	A	64085446	3	1	89	1	0	0	0	0	1	0	0	0	12509	1058	37	1	722	1	PRICKLE2	3	64085446	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1448825	64085446	133936984	1533	55364											
ADAMTS9	56999	broad.mit.edu	37	chr3	64608121	64608121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaaagttcttgctcaatgCgatctgttgagttaattctt	10	16	8	7	1	4	1	1	1	3	0	4	2	4	1	0	0	2	5	0	0	4	6	rs148570059		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:64608121C>T	uc003dmg.2	-	17	2563	c.2531G>A	c.(2530-2532)CGC>CAC	p.R844H	ADAMTS9_uc011bfo.1_Missense_Mutation_p.R816H|ADAMTS9_uc003dmh.1_Missense_Mutation_p.R673H|ADAMTS9_uc003dmk.1_Missense_Mutation_p.R844H	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	844	Spacer.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		TTGCTCAATGCGATCTGTTGA	0.453													20	66					0	0	1	0	0		T	64608121	T	T	64608121	3	4	89	1	0	0	0	0	1	0	0	0	273	768	27	1	3368	1	ADAMTS9	3	64608121	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	522675	64608121	133414309	1534	55365											
ADAMTS9	56999	broad.mit.edu	37	chr3	64617528	64617528	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccactgttttgcatgaaGaattatcgccaccacaaacc	12	10	6	13	1	0	2	0	1	0	1	1	2	0	2	4	0	3	2	4	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:64617528G>T	uc003dmg.2	-	15	2281	c.2249C>A	c.(2248-2250)TCT>TAT	p.S750Y	ADAMTS9_uc011bfo.1_Missense_Mutation_p.S722Y|ADAMTS9_uc003dmh.1_Missense_Mutation_p.S579Y|ADAMTS9_uc003dmk.1_Missense_Mutation_p.S750Y	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	750	Cys-rich.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		TTTGCATGAAGAATTATCGCC	0.358													32	67					2.09667e-21	2.48674e-21	1	1	0		T	64617528	T	T	64617528	3	4	89	1	0	0	0	0	1	0	0	0	273	942	33	5	3658	5	ADAMTS9	3	64617528	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9407	64617528	133404902	1535	55366											
SLC25A26	115286	broad.mit.edu	37	chr3	66293694	66293694	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgattcatcttcatatttGacacctatgaaacatatgtt	12	16	5	8	0	3	3	2	3	1	0	3	3	3	3	1	0	1	2	1	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:66293694G>T	uc011bfq.1	+	4	986	c.258G>T	c.(256-258)TTG>TTT	p.L86F	SLC25A26_uc011bfs.1_5'UTR|SLC25A26_uc011bft.1_RNA|SLC25A26_uc011bfr.1_Missense_Mutation_p.L86F|SLC25A26_uc003dmt.2_5'UTR	NM_173471	NP_775742	Q70HW3	SAMC_HUMAN	solute carrier family 25, member 26 isoform a	86	Solcar 2.|Helical; Name=3; (Potential).					integral to membrane|mitochondrial inner membrane|nucleus	S-adenosylmethionine transmembrane transporter activity			pancreas(1)	1		Lung NSC(201;0.00774)		BRCA - Breast invasive adenocarcinoma(55;0.00046)|KIRC - Kidney renal clear cell carcinoma(15;0.0515)|Kidney(15;0.0648)		CTTCATATTTGACACCTATGA	0.343													55	79					9.79885e-19	1.14675e-18	1	1	0		T	66293694	T	T	66293694	3	4	89	1	0	0	0	0	1	0	0	0	14514	1281	45	5	70	5	SLC25A26	3	66293694	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1676166	66293694	131728736	1536	55367											
LRIG1	26018	broad.mit.edu	37	chr3	66448589	66448589	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaaactggacagatctgatCgcattccctccaaggttcct	10	11	7	13	1	2	2	1	1	1	1	6	3	5	3	3	2	1	2	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:66448589C>T	uc003dmx.2	-	11	1265	c.1251G>A	c.(1249-1251)GCG>GCA	p.A417A	LRIG1_uc011bfu.1_Silent_p.A37A|LRIG1_uc003dmw.2_Silent_p.A83A|LRIG1_uc010hnz.2_Silent_p.A133A|LRIG1_uc010hoa.2_Silent_p.A441A	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	417	Extracellular (Potential).|LRR 15.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		CAGATCTGATCGCATTCCCTC	0.428													38	61					0	0	1	0	0		T	66448589	T	T	66448589	2	4	89	1	0	0	0	0	0	0	0	1	8962	871	31	1		1	LRIG1	3	66448589	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	154895	66448589	131573841	1537	55368											
SUCLG2	8801	broad.mit.edu	37	chr3	67559310	67559310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaagagattatacagcttCgtaatttgatctgcagccta	13	12	9	7	1	1	2	0	1	1	1	2	4	1	3	1	1	4	3	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:67559310C>T	uc003dna.3	-	7	706	c.678G>A	c.(676-678)ACG>ACA	p.T226T	SUCLG2_uc010hob.2_Intron	NM_003848	NP_003839	Q96I99	SUCB2_HUMAN	succinate-CoA ligase, GDP-forming beta subunit	226	ATP-grasp.				succinyl-CoA metabolic process|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|GTP binding|succinate-CoA ligase (GDP-forming) activity			central_nervous_system(1)|skin(1)	2		Renal(2;0.00294)|Lung NSC(201;0.012)|Hepatocellular(537;0.121)		BRCA - Breast invasive adenocarcinoma(55;3.53e-05)|Epithelial(33;0.000153)	Succinic acid(DB00139)	TATACAGCTTCGTAATTTGAT	0.323													12	46					0	0	1	0	0		T	67559310	T	T	67559310	2	4	89	1	0	0	0	0	0	0	0	1	15390	871	31	1		1	SUCLG2	3	67559310	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1110721	67559310	130463120	1538	55369											
LMOD3	56203	broad.mit.edu	37	chr3	69168243	69168243	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcagccccaacccattCtctaacatggctatcagctt	9	9	9	14	0	2	0	1	0	1	0	3	0	2	0	3	3	4	3	3	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:69168243C>A	uc003dns.2	-	2	1472	c.1263G>T	c.(1261-1263)GAG>GAT	p.E421D	LMOD3_uc003dnt.2_Missense_Mutation_p.E421D	NM_198271	NP_938012	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	421	Potential.					cytoplasm|cytoskeleton	tropomyosin binding			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		CCAACCCATTCTCTAACATGG	0.532													20	59					1.96292e-10	2.12899e-10	1	1	0		A	69168243	A	A	69168243	3	1	89	1	0	0	0	0	1	0	0	0	8875	912	32	5	427	5	LMOD3	3	69168243	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1608933	69168243	128854187	1539	55370											
LMOD3	56203	broad.mit.edu	37	chr3	69168701	69168701	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaagtccagtaacatttCtttggggatgttttcaatgt	11	15	9	6	0	2	0	1	0	1	0	3	2	3	1	1	2	1	2	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:69168701C>A	uc003dns.2	-	2	1014	c.805G>T	c.(805-807)GAA>TAA	p.E269*	LMOD3_uc003dnt.2_Nonsense_Mutation_p.E269*	NM_198271	NP_938012	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	269						cytoplasm|cytoskeleton	tropomyosin binding			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		AGTAACATTTCTTTGGGGATG	0.408													68	120					2.05175e-36	2.5359e-36	1	1	0		A	69168701	A	A	69168701	4	1	89	1	0	0	0	0	0	1	0	0	8875	922	32	5	885	5	LMOD3	3	69168701	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	458	69168701	128853729	1540	55371											
SHQ1	55164	broad.mit.edu	37	chr3	72881596	72881596	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagctgcaggggtgaaatCtggatccttaatatcaataa	13	12	9	7	0	3	1	2	1	1	0	4	2	4	2	1	3	2	2	1	3	5	4	rs143636968	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:72881596C>A	uc003dpf.2	-	5	630	c.523G>T	c.(523-525)GAT>TAT	p.D175Y	SHQ1_uc010hod.2_Missense_Mutation_p.D86Y	NM_018130	NP_060600	Q6PI26	SHQ1_HUMAN	SHQ1 homolog	175					ribonucleoprotein complex assembly	cytosol|nucleoplasm	protein binding			ovary(2)|large_intestine(1)	3		Prostate(10;0.00482)|Lung NSC(201;0.0339)|Myeloproliferative disorder(1037;0.204)		BRCA - Breast invasive adenocarcinoma(55;9.68e-05)|Epithelial(33;0.000563)|LUSC - Lung squamous cell carcinoma(21;0.00229)|Lung(16;0.00688)|KIRC - Kidney renal clear cell carcinoma(39;0.018)|Kidney(39;0.0213)		GGGGTGAAATCTGGATCCTTA	0.403													34	84					2.42023e-17	2.79957e-17	1	1	0		A	72881596	A	A	72881596	3	1	89	1	0	0	0	0	1	0	0	0	14317	913	32	5	1238	5	SHQ1	3	72881596	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3712895	72881596	125140834	1541	55372											
CNTN3	5067	broad.mit.edu	37	chr3	74411169	74411169	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaacttcttcattggattCtttgaaaaatctggagcaga	13	13	7	8	0	4	2	1	1	3	1	4	4	4	4	1	2	2	1	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:74411169C>A	uc003dpm.1	-	10	1316	c.1236G>T	c.(1234-1236)AAG>AAT	p.K412N		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	412	Ig-like C2-type 5.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		TCATTGGATTCTTTGAAAAAT	0.458													21	59					3.51602e-12	3.88498e-12	1	1	0		A	74411169	A	A	74411169	3	1	89	1	0	0	0	0	1	0	0	0	3645	912	32	5	1902	5	CNTN3	3	74411169	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1529573	74411169	123611261	1542	55373											
ROBO2	6092	broad.mit.edu	37	chr3	77526693	77526693	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actggaaaaaagacaaagttCgaattgatgacaaggaagaa	21	6	10	4	1	0	4	0	2	0	2	1	7	0	6	0	2	0	1	0	2	8	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:77526693C>T	uc003dpy.3	+	3	1160	c.517C>T	c.(517-519)CGA>TGA	p.R173*	ROBO2_uc003dpz.2_Nonsense_Mutation_p.R173*|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Nonsense_Mutation_p.R173*	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	173	Ig-like C2-type 2.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		AGACAAAGTTCGAATTGATGA	0.423													28	79					0	0	1	0	0		T	77526693	T	T	77526693	4	4	89	1	0	0	0	0	0	1	0	0	13539	876	31	1	529	1	ROBO2	3	77526693	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3115524	77526693	120495737	1543	55374											
ROBO2	6092	broad.mit.edu	37	chr3	77684173	77684173	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacaaccagcattgcctcatCgaagggaaggaatgacagat	16	6	10	9	1	1	2	1	1	0	1	2	5	1	4	2	2	4	1	2	2	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:77684173C>T	uc003dpy.3	+	24	4556	c.3913C>T	c.(3913-3915)CGA>TGA	p.R1305*	ROBO2_uc003dpz.2_Nonsense_Mutation_p.R1370*|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Nonsense_Mutation_p.R1309*	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1305	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		ATTGCCTCATCGAAGGGAAGG	0.483													25	48					0	0	1	0	0		T	77684173	T	T	77684173	4	4	89	1	0	0	0	0	0	1	0	0	13539	876	31	1	4009	1	ROBO2	3	77684173	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	157480	77684173	120338257	1544	55375											
ROBO1	6091	broad.mit.edu	37	chr3	78649283	78649283	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaattcttcattattatCttctcctctttcatatcctc	7	21	0	13	0	7	0	2	0	5	0	10	0	8	0	2	0	0	0	2	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:78649283C>A	uc003dqe.2	-	30	5129	c.4921G>T	c.(4921-4923)GAT>TAT	p.D1641Y	ROBO1_uc003dqb.2_Missense_Mutation_p.D1602Y|ROBO1_uc003dqc.2_Missense_Mutation_p.D1541Y|ROBO1_uc003dqd.2_Missense_Mutation_p.D1596Y|ROBO1_uc010hoh.2_Missense_Mutation_p.D833Y	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1641	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TCATTATTATCTTCTCCTCTT	0.368													17	19					5.3912e-06	5.59047e-06	1	1	0		A	78649283	A	A	78649283	3	1	89	1	0	0	0	0	1	0	0	0	13538	913	32	5	42	5	ROBO1	3	78649283	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	965110	78649283	119373147	1545	55376											
GBE1	2632	broad.mit.edu	37	chr3	81698040	81698040	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttggtagtacattgcatgTaaaatgtttataagaagcta	14	15	8	4	0	1	1	0	0	1	1	1	1	1	1	0	1	3	6	0	1	8	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:81698040T>C	uc003dqg.2	-	6	941	c.658A>G	c.(658-660)ACA>GCA	p.T220A	GBE1_uc011bgm.1_Missense_Mutation_p.T179A	NM_000158	NP_000149	Q04446	GLGB_HUMAN	glucan (1,4-alpha-), branching enzyme 1	220					glucose metabolic process|glycogen biosynthetic process	cytosol	1,4-alpha-glucan branching enzyme activity|cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(3)	3		Lung NSC(201;0.0117)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0654)|Epithelial(33;0.00305)|LUSC - Lung squamous cell carcinoma(29;0.00646)|BRCA - Breast invasive adenocarcinoma(55;0.00813)|Lung(72;0.0129)|KIRC - Kidney renal clear cell carcinoma(39;0.212)|Kidney(39;0.247)		ACATTGCATGTAAAATGTTTA	0.328									Glycogen_Storage_Disease_type_IV				4	9					0	0	1	0	0		C	81698040	C	C	81698040	3	2	89	1	0	0	0	0	1	0	0	0	6285	1638	57	3	1498	3	GBE1	3	81698040	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3048757	81698040	116324390	1546	55377											
EPHA3	2042	broad.mit.edu	37	chr3	89259419	89259419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcatttcaagatgttggtgCttgtgttgccttggtgtctg	4	17	14	6	0	2	1	1	0	1	1	2	1	2	1	1	3	2	4	1	3	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:89259419C>T	uc003dqy.2	+	3	788	c.563C>T	c.(562-564)GCT>GTT	p.A188V	EPHA3_uc003dqx.1_Missense_Mutation_p.A188V|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	188	Extracellular (Potential).					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		GATGTTGGTGCTTGTGTTGCC	0.443										TSP Lung(6;0.00050)			61	116					0	0	1	0	0		T	89259419	T	T	89259419	3	4	89	1	0	0	0	0	1	0	0	0	5176	797	28	2	573	2	EPHA3	3	89259419	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7561379	89259419	108763011	1547	55378											
STX19	415117	broad.mit.edu	37	chr3	93734063	93734063	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatacatgactgtctctagaGagttcaatttcctttgttct	9	17	7	8	0	3	2	1	1	2	1	5	4	4	2	1	0	1	2	1	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:93734063G>T	uc003drh.1	-	2	308	c.51C>A	c.(49-51)CTC>CTA	p.L17L	ARL13B_uc003drc.2_Intron|ARL13B_uc010hop.2_Intron|ARL13B_uc003drd.2_Intron|ARL13B_uc003dre.2_Intron|ARL13B_uc003drf.2_Intron|ARL13B_uc003drg.2_Intron	NM_001001850	NP_001001850	Q8N4C7	STX19_HUMAN	syntaxin 19	17					intracellular protein transport|vesicle-mediated transport	membrane	SNAP receptor activity				0						TGTCTCTAGAGAGTTCAATTT	0.393													34	69					3.67414e-24	4.4094e-24	1	1	0		T	93734063	T	T	93734063	2	4	89	1	0	0	0	0	0	0	0	1	15367	929	33	5		5	STX19	3	93734063	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4474644	93734063	104288367	1548	55379											
DHFRL1	200895	broad.mit.edu	37	chr3	93780181	93780181	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcttctcaggaatggagaAccaggtcttcctacccataa	12	11	7	11	0	3	1	1	0	3	1	5	3	4	2	3	3	2	0	3	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:93780181A>G	uc003dri.2	-	2	341	c.175T>C	c.(175-177)TTC>CTC	p.F59L	DHFRL1_uc003drj.2_Missense_Mutation_p.F59L|NSUN3_uc003drk.2_5'Flank|NSUN3_uc003drl.1_5'Flank	NM_176815	NP_789785	Q86XF0	DYRL1_HUMAN	dihydrofolate reductase-like 1	59	DHFR.				glycine biosynthetic process|nucleotide biosynthetic process|one-carbon metabolic process		dihydrofolate reductase activity|NADP binding				0						GGAATGGAGAACCAGGTCTTC	0.438													56	134					0	0	1	0	0		G	93780181	G	G	93780181	3	3	89	1	0	0	0	0	1	0	0	0	4488	43	2	3	392	3	DHFRL1	3	93780181	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	46118	93780181	104242249	1549	55380											
EPHA6	285220	broad.mit.edu	37	chr3	96706417	96706417	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcagatgagtcccacggaAttaaattcaagccaaaccag	17	7	7	10	1	2	2	2	1	0	1	3	3	3	3	3	1	2	0	3	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:96706417A>C	uc010how.1	+	3	737	c.694A>C	c.(694-696)ATT>CTT	p.I232L	EPHA6_uc003drp.1_Missense_Mutation_p.I232L	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	137	Ephrin-binding.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						GTCCCACGGAATTAAATTCAA	0.408													76	131					0	0	1	0	0		C	96706417	C	C	96706417	3	2	89	1	0	0	0	0	1	0	0	0	5179	101	4	5	704	5	EPHA6	3	96706417	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2926236	96706417	101316013	1550	55381											
EPHA6	285220	broad.mit.edu	37	chr3	97467501	97467501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagcagcatacagactttaCgtttacacatgatgcacata	14	11	6	10	1	1	2	1	1	0	1	1	2	1	2	0	0	6	4	0	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:97467501C>T	uc010how.1	+	18	3392	c.3349C>T	c.(3349-3351)CGT>TGT	p.R1117C		NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	1022	SAM.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						ACAGACTTTACGTTTACACAT	0.358													11	23					0	0	1	0	0		T	97467501	T	T	97467501	3	4	89	1	0	0	0	0	1	0	0	0	5179	536	19	1	3536	1	EPHA6	3	97467501	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	761084	97467501	100554929	1551	55382											
CRYBG3	131544	broad.mit.edu	37	chr3	97598582	97598582	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctgagatgtaacccaaGacctgggaaggtaaggataa	16	7	11	7	0	1	2	0	1	1	2	1	5	1	4	2	3	2	2	2	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:97598582G>T	uc003drx.2	+	2	1098	c.1034G>T	c.(1033-1035)AGA>ATA	p.R345I		NM_153605	NP_705833			beta-gamma crystallin domain containing 3												0						TGTAACCCAAGACCTGGGAAG	0.313													15	28					0.000422831	0.000430665	1	1	0		T	97598582	T	T	97598582	3	4	89	1	0	0	0	0	1	0	0	0	3916	942	33	5	1040	5	CRYBG3	3	97598582	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	131081	97598582	100423848	1552	55383											
GABRR3	200959	broad.mit.edu	37	chr3	97744433	97744433	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaaatccaggtctcattgcGaaatcgttgtcctctatatg	10	13	7	11	2	2	0	1	0	2	0	6	1	4	0	3	1	1	1	3	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:97744433G>A	uc011bgr.1	-	2	216	c.216C>T	c.(214-216)TTC>TTT	p.F72F		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	72	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0						GTCTCATTGCGAAATCGTTGT	0.403													20	20					0	0	1	0	0		A	97744433	A	A	97744433	2	1	89	1	0	0	0	0	0	0	0	1	6192	1049	37	1		1	GABRR3	3	97744433	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	145851	97744433	100277997	1553	55384											
OR5H15	403274	broad.mit.edu	37	chr3	97888229	97888229	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcacagtcttagaaaagaAatctgataagggtgtaagga	16	10	10	5	0	3	3	1	1	2	2	3	4	3	4	0	2	0	1	0	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:97888229A>C	uc011bgu.1	+	1	686	c.686A>C	c.(685-687)AAA>ACA	p.K229T		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTAGAAAAGAAATCTGATAAG	0.383													25	47					0	0	1	0	0		C	97888229	C	C	97888229	3	2	89	1	0	0	0	0	1	0	0	0	11180	14	1	5	688	5	OR5H15	3	97888229	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	143796	97888229	100134201	1554	55385											
OR5K2	402135	broad.mit.edu	37	chr3	98217437	98217437	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagtgtcttaagaaaaattCtgctgaaaataaaatctcaa	19	12	5	5	0	3	2	1	1	3	1	4	2	3	2	0	0	1	1	0	0	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:98217437C>A	uc011bgx.1	+	1	913	c.913C>A	c.(913-915)CTG>ATG	p.L305M		NM_001004737	NP_001004737	Q8NHB8	OR5K2_HUMAN	olfactory receptor, family 5, subfamily K,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						AAGAAAAATTCTGCTGAAAAT	0.294													15	21					3.27435e-08	3.46512e-08	1	1	0		A	98217437	A	A	98217437	3	1	89	1	0	0	0	0	1	0	0	0	11186	912	32	5	915	5	OR5K2	3	98217437	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	329208	98217437	99804993	1555	55386											
GPR15	2838	broad.mit.edu	37	chr3	98251081	98251082	+	Missense_Mutation	DNP	CG	TA	TA																															cccggcagccgaagactgatCgacatctttatcatcaatct																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:98251081_98251082CG>TA	uc011bgy.1	+	1	204_205	c.204_205CG>TA	c.(202-207)ATCGAC>ATTAAC	p.D69N		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	69	Cytoplasmic (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		GAAGACTGATCGACATCTTTAT	0.495													28	46					0	0	1	0	0		TA	98251082	TA	TA	98251081	3	4	89	1	0	0	0	0	1	0	0	0	6670	874	31	1	206	1	GPR15	3	98251081	Missense_Mutation	DNP	CG	TCGA-BR-8680-01A-11D-2394-08	33644	98251081	99771349	1556	55387											
ST3GAL6	10402	broad.mit.edu	37	chr3	98487301	98487301	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatgagagggtatcttgTggccatattcctgagtgctg	8	12	13	8	0	1	2	0	2	1	1	2	3	2	2	3	2	2	2	3	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:98487301T>C	uc003dsz.2	+	2	253	c.17T>C	c.(16-18)GTG>GCG	p.V6A	ST3GAL6_uc003dsy.2_5'UTR|ST3GAL6_uc003dta.2_5'UTR|ST3GAL6_uc003dtb.2_Intron|ST3GAL6_uc003dtc.2_Missense_Mutation_p.V6A|ST3GAL6_uc010hpd.2_Missense_Mutation_p.V59A	NM_006100	NP_006091	Q9Y274	SIA10_HUMAN	alpha2,3-sialyltransferase VI	6	Helical; Signal-anchor for type II membrane protein; (Potential).				amino sugar metabolic process|glycolipid metabolic process|protein glycosylation|protein lipoylation	integral to Golgi membrane	sialyltransferase activity			ovary(1)	1						GGGTATCTTGTGGCCATATTC	0.383													59	84					0	0	1	0	0		C	98487301	C	C	98487301	3	2	89	1	0	0	0	0	1	0	0	0	15244	1696	59	3	19	3	ST3GAL6	3	98487301	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	236220	98487301	99535129	1557	55388											
DCBLD2	131566	broad.mit.edu	37	chr3	98536721	98536721	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgctccaccatggtggaTccagtggttataatgcctgg	7	13	12	9	0	0	0	0	0	0	0	2	1	2	1	4	4	2	2	4	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:98536721T>C	uc003dtd.2	-	9	1467	c.1104A>G	c.(1102-1104)GGA>GGG	p.G368G	DCBLD2_uc003dte.2_Silent_p.G368G	NM_080927	NP_563615	Q96PD2	DCBD2_HUMAN	discoidin, CUB and LCCL domain containing 2	368	Extracellular (Potential).|F5/8 type C.				cell adhesion|intracellular receptor mediated signaling pathway|negative regulation of cell growth|wound healing	cell surface|integral to plasma membrane				ovary(2)|central_nervous_system(1)	3						CCATGGTGGATCCAGTGGTTA	0.438													14	23					0	0	1	0	0		C	98536721	C	C	98536721	2	2	89	1	0	0	0	0	0	0	0	1	4284	1422	50	3		3	DCBLD2	3	98536721	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	49420	98536721	99485709	1558	55389											
FILIP1L	11259	broad.mit.edu	37	chr3	99568649	99568649	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgagagagctccttaatcTtattgttttcttggtgtaat	8	19	8	6	0	2	2	0	1	2	1	3	3	3	2	1	1	1	3	1	1	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:99568649T>G	uc003dtm.2	-	5	2334	c.1871A>C	c.(1870-1872)AAG>ACG	p.K624T	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.K624T|FILIP1L_uc010hpf.2_Missense_Mutation_p.K200T|FILIP1L_uc010hpg.2_Missense_Mutation_p.K384T|FILIP1L_uc003dtn.2_Missense_Mutation_p.K384T|FILIP1L_uc003dtp.1_Missense_Mutation_p.K384T	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	624	Potential.					cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						CTCCTTAATCTTATTGTTTTC	0.363													63	88					0	0	1	0	0		G	99568649	G	G	99568649	3	3	89	1	0	0	0	0	1	0	0	0	5909	1609	56	5	1565	5	FILIP1L	3	99568649	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1031928	99568649	98453781	1559	55390											
FILIP1L	11259	broad.mit.edu	37	chr3	99648715	99648715	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catacctcattcattggtttCtcatagatgtcctcctgcca	8	15	5	13	0	3	1	3	0	1	1	6	1	5	1	4	1	2	1	4	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:99648715C>A	uc003dtm.2	-	3	874	c.411G>T	c.(409-411)GAG>GAT	p.E137D	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.E137D	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	137						cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						TCATTGGTTTCTCATAGATGT	0.473													7	82					0.0293803	0.0295462	1	1	0		A	99648715	A	A	99648715	3	1	89	1	0	0	0	0	1	0	0	0	5909	912	32	5	3033	5	FILIP1L	3	99648715	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	80066	99648715	98373715	1560	55391											
C3orf26	84319	broad.mit.edu	37	chr3	99890693	99890693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttcattaggtcgatgacaGcattcagaggagacggcaaa	13	10	11	7	2	2	3	2	1	0	2	3	5	2	3	0	3	1	2	0	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:99890693G>A	uc003dtl.2	+	7	672	c.529G>A	c.(529-531)GCA>ACA	p.A177T		NM_032359	NP_115735	Q9BQ75	CC026_HUMAN	hypothetical protein LOC84319	177							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(1)	1						GTCGATGACAGCATTCAGAGG	0.408													25	32					0	0	1	0	0		A	99890693	A	A	99890693	3	1	89	1	0	0	0	0	1	0	0	0	2221	971	34	2	569	2	C3orf26	3	99890693	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	241978	99890693	98131737	1561	55392											
LNP1	348801	broad.mit.edu	37	chr3	100170651	100170651	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttcgatgccgtagccacgTacgggattacagaaaatact	13	10	9	9	4	0	1	0	0	0	1	1	3	0	2	2	1	5	2	2	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:100170651T>C	uc003dtx.3	+	3	1525	c.245T>C	c.(244-246)GTA>GCA	p.V82A	LNP1_uc003dty.3_RNA|LNP1_uc011bhb.1_RNA	NM_001085451	NP_001078920	A1A4G5	LNP1_HUMAN	leukemia NUP98 fusion partner 1	82											0						CGTAGCCACGTACGGGATTAC	0.443													27	60					0	0	1	0	0		C	100170651	C	C	100170651	3	2	89	1	0	0	0	0	1	0	0	0	8880	1638	57	3	251	3	LNP1	3	100170651	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	279958	100170651	97851779	1562	55393											
LNP1	348801	broad.mit.edu	37	chr3	100174638	100174638	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagggacctgaaagcagaaaGgagagaaatgaaagagaatg	20	3	14	4	0	0	5	0	2	0	3	0	9	0	7	1	2	1	1	1	2	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:100174638G>T	uc003dtx.3	+	4	1685	c.405G>T	c.(403-405)AAG>AAT	p.K135N	LNP1_uc003dty.3_RNA|LNP1_uc011bhb.1_RNA	NM_001085451	NP_001078920	A1A4G5	LNP1_HUMAN	leukemia NUP98 fusion partner 1	135											0						AAAGCAGAAAGGAGAGAAATG	0.423													26	62					7.92952e-12	8.72397e-12	1	1	0		T	100174638	T	T	100174638	3	4	89	1	0	0	0	0	1	0	0	0	8880	991	35	5	415	5	LNP1	3	100174638	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3987	100174638	97847792	1563	55394											
ABI3BP	25890	broad.mit.edu	37	chr3	100511604	100511604	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttcttgggtggattggtCtgtttcttctagagaaaaca	9	15	12	5	0	4	1	0	0	4	1	4	3	4	2	0	4	1	2	0	4	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:100511604C>A	uc003dun.2	-	23	1982	c.1897G>T	c.(1897-1899)GAC>TAC	p.D633Y	ABI3BP_uc003duj.2_Missense_Mutation_p.D188Y|ABI3BP_uc003duk.2_Missense_Mutation_p.D317Y|ABI3BP_uc003dul.2_Missense_Mutation_p.D438Y|ABI3BP_uc011bhd.1_Missense_Mutation_p.D587Y|ABI3BP_uc003dum.2_Missense_Mutation_p.D19Y	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	633	Pro-rich.					extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						GTGGATTGGTCTGTTTCTTCT	0.373													22	34					1.9806e-07	2.07987e-07	1	1	0		A	100511604	A	A	100511604	3	1	89	1	0	0	0	0	1	0	0	0	91	913	32	5	1382	5	ABI3BP	3	100511604	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	336966	100511604	97510826	1564	55395											
ABI3BP	25890	broad.mit.edu	37	chr3	100605153	100605153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttatccttttctcgatagCgaattgtataaaatctgttg	10	18	6	7	2	2	0	0	0	2	0	4	2	3	0	1	0	1	2	1	0	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:100605153C>T	uc003dun.2	-	5	582	c.497G>A	c.(496-498)CGC>CAC	p.R166H	ABI3BP_uc003duo.2_Missense_Mutation_p.R159H|ABI3BP_uc003dup.3_Missense_Mutation_p.R159H	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	166	Fibronectin type-III 1.					extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						TTCTCGATAGCGAATTGTATA	0.313													9	21					0	0	1	0	0		T	100605153	T	T	100605153	3	4	89	1	0	0	0	0	1	0	0	0	91	768	27	1	2854	1	ABI3BP	3	100605153	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	93549	100605153	97417277	1565	55396											
ZBTB11	27107	broad.mit.edu	37	chr3	101395663	101395663	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcggcagcttttcggatTttacgcttgacattgccctc	6	13	10	12	3	0	1	0	1	0	0	2	2	0	2	1	3	3	3	1	3	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:101395663T>G	uc003dve.3	-	1	326	c.96A>C	c.(94-96)AAA>AAC	p.K32N	ZBTB11_uc003dvf.2_Missense_Mutation_p.K32N|LOC100009676_uc003dvg.2_Missense_Mutation_p.F59V	NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	32					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CTTTTCGGATTTTACGCTTGA	0.647													12	30					0	0	1	0	0		G	101395663	G	G	101395663	3	3	89	1	0	0	0	0	1	0	0	0	17549	1838	64	5	3109	5	ZBTB11	3	101395663	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	790510	101395663	96626767	1566	55397											
FAM55C	91775	broad.mit.edu	37	chr3	101520806	101520806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atacctgaaaggtctcctaaCcgctgcagagagtgctttct	10	11	9	11	1	2	2	0	1	2	1	3	3	2	2	3	1	4	3	3	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:101520806C>T	uc003dvn.2	+	5	1458	c.821C>T	c.(820-822)ACC>ATC	p.T274I	FAM55C_uc010hpn.2_Missense_Mutation_p.T274I	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	274						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						GGTCTCCTAACCGCTGCAGAG	0.468													25	166					0	0	1	0	0		T	101520806	T	T	101520806	3	4	89	1	0	0	0	0	1	0	0	0	5600	507	18	4	827	4	FAM55C	3	101520806	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	125143	101520806	96501624	1567	55398											
HHLA2	11148	broad.mit.edu	37	chr3	108072323	108072323	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcctatgaatgaacaaatCgtcattggaagacttgatga	14	12	9	6	1	1	5	1	4	0	1	3	6	2	6	1	1	1	1	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:108072323C>T	uc003dwy.3	+	4	281	c.114C>T	c.(112-114)ATC>ATT	p.I38I	HHLA2_uc011bhl.1_Intron|HHLA2_uc010hpu.2_Silent_p.I38I|HHLA2_uc003dwz.2_Silent_p.I38I	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	38						integral to membrane				ovary(1)	1						ATGAACAAATCGTCATTGGAA	0.373													3	15					0	0	1	0	0		T	108072323	T	T	108072323	2	4	89	1	0	0	0	0	0	0	0	1	7111	874	31	1		1	HHLA2	3	108072323	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6551517	108072323	89950107	1568	55399											
HHLA2	11148	broad.mit.edu	37	chr3	108072555	108072555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagagtaagccttctggacGaaggaatttacacctgctat	13	10	10	8	1	1	1	0	0	1	1	1	5	1	3	2	2	3	2	2	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:108072555G>A	uc003dwy.3	+	4	513	c.346G>A	c.(346-348)GAA>AAA	p.E116K	HHLA2_uc011bhl.1_Missense_Mutation_p.E52K|HHLA2_uc010hpu.2_Missense_Mutation_p.E116K|HHLA2_uc003dwz.2_Missense_Mutation_p.E116K	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	116	Ig-like V-type 1.					integral to membrane				ovary(1)	1						CCTTCTGGACGAAGGAATTTA	0.398													15	37					0	0	1	0	0		A	108072555	A	A	108072555	3	1	89	1	0	0	0	0	1	0	0	0	7111	1059	37	1	352	1	HHLA2	3	108072555	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	232	108072555	89949875	1569	55400											
GUCA1C	9626	broad.mit.edu	37	chr3	108627035	108627035	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttgccatgccattgataAattcttctaaagtcaattcc	11	16	4	10	0	3	1	1	1	2	0	4	1	4	1	3	0	2	0	3	0	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:108627035A>C	uc003dxj.2	-	4	532	c.464T>G	c.(463-465)TTT>TGT	p.F155C	GUCA1C_uc003dxk.2_Missense_Mutation_p.I168M	NM_005459	NP_005450	O95843	GUC1C_HUMAN	guanylate cyclase activator 1C	155	EF-hand 4.				signal transduction|visual perception		calcium ion binding|calcium sensitive guanylate cyclase activator activity				0						GCCATTGATAAATTCTTCTAA	0.388													19	37					0	0	1	0	0		C	108627035	C	C	108627035	3	2	89	1	0	0	0	0	1	0	0	0	6906	14	1	5	169	5	GUCA1C	3	108627035	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	554480	108627035	89395395	1570	55401											
MORC1	27136	broad.mit.edu	37	chr3	108751664	108751664	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaagactctccatttaaGacaaagatctgacaatcaaa	18	8	6	9	0	3	4	1	1	2	3	4	4	3	4	1	1	0	1	1	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:108751664G>T	uc003dxl.2	-	16	1555	c.1468C>A	c.(1468-1470)CTT>ATT	p.L490I	MORC1_uc011bhn.1_Missense_Mutation_p.L490I	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	490	CW-type.				cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						CTCCATTTAAGACAAAGATCT	0.333													24	42					1.10923e-09	1.19438e-09	1	1	0		T	108751664	T	T	108751664	3	4	89	1	0	0	0	0	1	0	0	0	9719	942	33	5	1538	5	MORC1	3	108751664	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	124629	108751664	89270766	1571	55402											
ZBED2	79413	broad.mit.edu	37	chr3	111312952	111312952	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaaagggccaaccagttCtcctgtctcactaatctctt	11	11	5	14	0	3	0	1	0	3	0	6	0	3	0	3	1	1	1	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:111312952C>A	uc003dxy.2	-	2	982	c.97G>T	c.(97-99)GAA>TAA	p.E33*	CD96_uc003dxv.2_Intron|CD96_uc003dxw.2_Intron|CD96_uc003dxx.2_Intron|CD96_uc010hpy.1_Intron	NM_024508	NP_078784	Q9BTP6	ZBED2_HUMAN	zinc finger, BED domain containing 2	33							DNA binding|metal ion binding			skin(1)	1						CCAACCAGTTCTCCTGTCTCA	0.522													47	68					7.88023e-25	9.47942e-25	1	1	0		A	111312952	A	A	111312952	4	1	89	1	0	0	0	0	0	1	0	0	17544	922	32	5	563	5	ZBED2	3	111312952	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2561288	111312952	86709478	1572	55403											
CD96	10225	broad.mit.edu	37	chr3	111325554	111325554	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaatcctttaaggttctgaAatttcctcaacagaccctcc	11	13	4	13	0	2	2	1	1	1	1	5	2	5	2	4	1	1	1	4	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:111325554A>C	uc003dxw.2	+	9	1313	c.1143A>C	c.(1141-1143)GAA>GAC	p.E381D	CD96_uc003dxv.2_Missense_Mutation_p.E365D|CD96_uc003dxx.2_Missense_Mutation_p.E365D|CD96_uc010hpy.1_Missense_Mutation_p.E365D	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor	381	Extracellular (Potential).|Pro/Ser/Thr-rich.				cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						AAGGTTCTGAAATTTCCTCAA	0.343									Opitz_Trigonocephaly_syndrome				21	55					0	0	1	0	0		C	111325554	C	C	111325554	3	2	89	1	0	0	0	0	1	0	0	0	3051	11	1	5	1177	5	CD96	3	111325554	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	12602	111325554	86696876	1573	55404											
PHLDB2	90102	broad.mit.edu	37	chr3	111671489	111671489	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgagtgatactttgcctcGaaagaaaaccacatcttcca	13	11	6	11	1	2	3	0	2	2	1	4	4	3	3	3	0	3	0	3	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:111671489G>A	uc010hqa.2	+	11	3113	c.2702G>A	c.(2701-2703)CGA>CAA	p.R901Q	PHLDB2_uc003dyc.2_Missense_Mutation_p.R885Q|PHLDB2_uc003dyd.2_Missense_Mutation_p.R858Q|PHLDB2_uc003dyg.2_Missense_Mutation_p.R901Q|PHLDB2_uc003dyh.2_Missense_Mutation_p.R858Q|PHLDB2_uc003dyi.2_Intron	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	901						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						ACTTTGCCTCGAAAGAAAACC	0.448													40	51					0	0	1	0	0		A	111671489	A	A	111671489	3	1	89	1	0	0	0	0	1	0	0	0	11871	1058	37	1	2825	1	PHLDB2	3	111671489	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	345935	111671489	86350941	1574	55405											
ABHD10	55347	broad.mit.edu	37	chr3	111700772	111700772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatggtacaaaagcgttggCgattgaggagttttgcaaat	13	11	13	4	2	0	1	0	1	0	0	0	4	0	2	0	3	3	4	0	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:111700772C>T	uc003dyk.3	+	2	365	c.284C>T	c.(283-285)GCG>GTG	p.A95V	ABHD10_uc011bhq.1_Intron	NM_018394	NP_060864	Q9NUJ1	ABHDA_HUMAN	abhydrolase domain containing 10 precursor	95						mitochondrion	serine-type peptidase activity				0						AAAGCGTTGGCGATTGAGGAG	0.398													23	44					0	0	1	0	0		T	111700772	T	T	111700772	3	4	89	1	0	0	0	0	1	0	0	0	74	768	27	1	290	1	ABHD10	3	111700772	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	29283	111700772	86321658	1575	55406											
SLC9A10	285335	broad.mit.edu	37	chr3	111898376	111898376	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaggcgaagtttttctgAcctccactacagttttgcag	9	13	8	11	1	2	1	1	1	1	0	3	2	3	1	2	1	2	3	2	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:111898376A>G	uc003dyu.2	-	23	3141	c.2919_splice	c.e23+1	p.E973_splice	SLC9A10_uc011bhu.1_Splice_Site_p.E236_splice|SLC9A10_uc010hqc.2_Splice_Site_p.E925_splice	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger						cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						AGTTTTTCTGACCTCCACTAC	0.323													32	49					0	0	1	0	0		G	111898376	G	G	111898376	5	3	89	1	0	0	0	0	0	0	1	0	14735	289	10	3	640	3	SLC9A10	3	111898376	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	197604	111898376	86124054	1576	55407											
SLC9A10	285335	broad.mit.edu	37	chr3	111921223	111921223	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcattcttttatctattatTtgcagcaactttggtgctat	8	20	5	8	0	3	0	1	0	2	0	3	0	3	0	0	1	4	3	0	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:111921223T>G	uc003dyu.2	-	18	2418	c.2196A>C	c.(2194-2196)CAA>CAC	p.Q732H	SLC9A10_uc011bhu.1_5'UTR|SLC9A10_uc010hqc.2_Missense_Mutation_p.Q684H	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	732					cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						TATCTATTATTTGCAGCAACT	0.313													43	74					0	0	1	0	0		G	111921223	G	G	111921223	3	3	89	1	0	0	0	0	1	0	0	0	14735	1838	64	5	1385	5	SLC9A10	3	111921223	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	22847	111921223	86101207	1577	55408											
CCDC80	151887	broad.mit.edu	37	chr3	112326098	112326098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcagaatggttatgtggcGcagacctgagagaaaaaaga	15	8	12	6	1	1	5	1	1	0	4	1	6	1	5	1	2	0	2	1	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:112326098G>A	uc003dzf.2	-	7	2649	c.2431C>T	c.(2431-2433)CGC>TGC	p.R811C	CCDC80_uc011bhv.1_Intron|CCDC80_uc003dzg.2_Missense_Mutation_p.R811C|CCDC80_uc003dzh.1_Missense_Mutation_p.R811C	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	811										ovary(2)	2						GTTATGTGGCGCAGACCTGAG	0.373													23	54					0	0	1	0	0		A	112326098	A	A	112326098	3	1	89	1	0	0	0	0	1	0	0	0	2857	1087	38	1	429	1	CCDC80	3	112326098	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	404875	112326098	85696332	1578	55409											
CCDC80	151887	broad.mit.edu	37	chr3	112358445	112358445	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggtctttgctcaggtCtcacggcggccccattgatg	4	12	12	13	2	3	1	2	1	2	0	4	1	3	1	2	4	2	2	2	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:112358445C>A	uc003dzf.2	-	2	526	c.308G>T	c.(307-309)AGA>ATA	p.R103I	CCDC80_uc011bhv.1_Missense_Mutation_p.R103I|CCDC80_uc003dzg.2_Missense_Mutation_p.R103I|CCDC80_uc003dzh.1_Missense_Mutation_p.R103I	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	103										ovary(2)	2						TTGCTCAGGTCTCACGGCGGC	0.612													37	86					2.48696e-23	2.97679e-23	1	1	0		A	112358445	A	A	112358445	3	1	89	1	0	0	0	0	1	0	0	0	2857	913	32	5	2572	5	CCDC80	3	112358445	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	32347	112358445	85663985	1579	55410											
CD200R1L	344807	broad.mit.edu	37	chr3	112546460	112546460	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcccatgttattatgatcaAatttcttaatgcgataggag	12	16	7	6	1	2	1	1	1	1	0	3	3	3	2	1	1	1	1	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:112546460A>C	uc003dzi.1	-	3	410	c.184T>G	c.(184-186)TTG>GTG	p.L62V	CD200R1L_uc011bhw.1_Missense_Mutation_p.L41V|CD200R1L_uc010hqf.1_Missense_Mutation_p.L41V	NM_001008784	NP_001008784	Q6Q8B3	MO2R2_HUMAN	CD200 cell surface glycoprotein receptor 2	62	Ig-like V-type.|Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)	1						ATTATGATCAAATTTCTTAAT	0.398													41	100					0	0	1	0	0		C	112546460	C	C	112546460	3	2	89	1	0	0	0	0	1	0	0	0	2985	11	1	5	647	5	CD200R1L	3	112546460	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	188015	112546460	85475970	1580	55411											
C3orf17	25871	broad.mit.edu	37	chr3	112730203	112730203	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttgaagcaatccaaacAaaggctcatataacaaaatc	18	8	4	11	0	2	1	1	1	1	0	4	1	3	1	2	1	3	2	2	1	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:112730203A>T	uc003dzr.2	-	6	663	c.602T>A	c.(601-603)TTG>TAG	p.L201*	GTPBP8_uc011bhy.1_Intron|C3orf17_uc003dzq.2_5'Flank|C3orf17_uc011bhz.1_Intron|C3orf17_uc010hqh.2_Intron|C3orf17_uc003dzt.2_Nonsense_Mutation_p.L104*|C3orf17_uc003dzs.2_Nonsense_Mutation_p.L65*|C3orf17_uc010hqg.2_Nonsense_Mutation_p.L26*|C3orf17_uc011bia.1_Intron|C3orf17_uc003dzu.2_Nonsense_Mutation_p.L130*|C3orf17_uc011bib.1_Nonsense_Mutation_p.L90*|C3orf17_uc011bic.1_Nonsense_Mutation_p.L34*|C3orf17_uc011bid.1_RNA	NM_015412	NP_056227	Q6NW34	CC017_HUMAN	hypothetical protein LOC25871	201						integral to membrane					0						CAATCCAAACAAAGGCTCATA	0.348													47	98					0	0	1	0	0		T	112730203	T	T	112730203	4	4	89	1	0	0	0	0	0	1	0	0	2213	131	5	5	1117	5	C3orf17	3	112730203	Nonsense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	183743	112730203	85292227	1581	55412											
BOC	91653	broad.mit.edu	37	chr3	112999414	112999414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attccctatagtacatcccaGcaagtaacaacaacacccca	16	7	3	15	0	0	0	0	0	0	0	2	0	2	0	4	0	5	3	4	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:112999414G>A	uc003dzx.2	+	14	2833	c.2212G>A	c.(2212-2214)GCA>ACA	p.A738T	BOC_uc003dzy.2_Missense_Mutation_p.A738T|BOC_uc003dzz.2_Missense_Mutation_p.A739T|BOC_uc003eab.2_Missense_Mutation_p.A439T|BOC_uc003eac.2_Missense_Mutation_p.A53T	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	738	Fibronectin type-III 3.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			GTACATCCCAGCAAGTAACAA	0.423													34	71					0	0	1	0	0		A	112999414	A	A	112999414	3	1	89	1	0	0	0	0	1	0	0	0	1482	971	34	2	2258	2	BOC	3	112999414	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	269211	112999414	85023016	1582	55413											
BOC	91653	broad.mit.edu	37	chr3	113005647	113005647	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgtaggacaggaacctggaAtgcagctctccccggggcca	10	5	13	13	2	1	0	0	0	1	0	2	3	1	3	4	5	3	3	4	5	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:113005647A>G	uc003dzx.2	+	20	3904	c.3283A>G	c.(3283-3285)ATG>GTG	p.M1095V	BOC_uc003dzy.2_Missense_Mutation_p.M1095V|BOC_uc003dzz.2_Missense_Mutation_p.M1096V|BOC_uc003eab.2_Missense_Mutation_p.M796V|BOC_uc003eac.2_Intron	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	1095	Cytoplasmic (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			GGAACCTGGAATGCAGCTCTC	0.532													53	137					0	0	1	0	0		G	113005647	G	G	113005647	3	3	89	1	0	0	0	0	1	0	0	0	1482	101	4	3	3353	3	BOC	3	113005647	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	6233	113005647	85016783	1583	55414											
SIDT1	54847	broad.mit.edu	37	chr3	113321949	113321949	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgtggaggagagcgacttCgacaccatgccagacattga	11	7	12	11	3	0	3	0	1	0	2	2	7	1	4	3	2	2	0	3	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:113321949C>T	uc003eak.2	+	12	1866	c.1215C>T	c.(1213-1215)TTC>TTT	p.F405F	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Silent_p.F405F|SIDT1_uc011big.1_Silent_p.F158F|SIDT1_uc011bih.1_RNA|SIDT1_uc011bii.1_5'Flank	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	405	Cytoplasmic (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						AGAGCGACTTCGACACCATGC	0.557													22	61					0	0	1	0	0		T	113321949	T	T	113321949	2	4	89	1	0	0	0	0	0	0	0	1	14327	883	31	1		1	SIDT1	3	113321949	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	316302	113321949	84700481	1584	55415											
SIDT1	54847	broad.mit.edu	37	chr3	113322822	113322822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagatgttcctttacctgTcagatttgtccaggaaggac	9	13	9	10	0	1	2	1	0	0	2	4	4	4	4	4	2	1	1	4	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:113322822T>C	uc003eak.2	+	13	1930	c.1279T>C	c.(1279-1281)TCA>CCA	p.S427P	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Missense_Mutation_p.S427P|SIDT1_uc011big.1_Missense_Mutation_p.S180P|SIDT1_uc011bih.1_RNA|SIDT1_uc011bii.1_5'Flank	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	427	Cytoplasmic (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						CCTTTACCTGTCAGATTTGTC	0.358													12	19					0	0	1	0	0		C	113322822	C	C	113322822	3	2	89	1	0	0	0	0	1	0	0	0	14327	1667	58	3	1329	3	SIDT1	3	113322822	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	873	113322822	84699608	1585	55416											
KIAA2018	205717	broad.mit.edu	37	chr3	113377699	113377699	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcacttggagatggaatcaAtacattggctgaagcgcagg	13	9	12	7	1	2	2	2	1	0	1	2	4	2	3	0	4	2	2	0	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:113377699A>C	uc003eam.2	-	7	3241	c.2830T>G	c.(2830-2832)TTG>GTG	p.L944V	KIAA2018_uc003eal.2_Missense_Mutation_p.L888V	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	944					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						GATGGAATCAATACATTGGCT	0.423													68	136					0	0	1	0	0		C	113377699	C	C	113377699	3	2	89	1	0	0	0	0	1	0	0	0	8284	98	4	5	3911	5	KIAA2018	3	113377699	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	54877	113377699	84644731	1586	55417											
KIAA2018	205717	broad.mit.edu	37	chr3	113378349	113378349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggctaatagacaattgtAcacagctttgcccagccatc	11	10	8	12	0	0	1	0	0	0	1	1	1	0	1	2	1	4	4	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:113378349A>G	uc003eam.2	-	7	2591	c.2180T>C	c.(2179-2181)GTA>GCA	p.V727A	KIAA2018_uc003eal.2_Missense_Mutation_p.V671A	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	727					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						AGACAATTGTACACAGCTTTG	0.448													18	44					0	0	1	0	0		G	113378349	G	G	113378349	3	3	89	1	0	0	0	0	1	0	0	0	8284	391	14	3	4561	3	KIAA2018	3	113378349	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	650	113378349	84644081	1587	55418											
ATP6V1A	523	broad.mit.edu	37	chr3	113497631	113497631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagctacccaaaatactcGatgaagataaagaaagcaca	20	5	6	10	1	0	3	0	1	0	2	1	4	0	3	2	0	4	2	2	0	9	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:113497631G>A	uc003eao.2	+	2	97	c.31G>A	c.(31-33)GAT>AAT	p.D11N	ATP6V1A_uc011bik.1_5'UTR	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	11					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						CAAAATACTCGATGAAGATAA	0.294													15	26					0	0	1	0	0		A	113497631	A	A	113497631	3	1	89	1	0	0	0	0	1	0	0	0	1178	1058	37	1	33	1	ATP6V1A	3	113497631	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	119282	113497631	84524799	1588	55419											
ATP6V1A	523	broad.mit.edu	37	chr3	113503563	113503563	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggtagtcatatcactggCggagacatttatggaattgt	10	14	12	5	1	2	1	2	0	0	1	2	3	2	2	0	4	0	2	0	4	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:113503563C>T	uc003eao.2	+	5	513	c.447C>T	c.(445-447)GGC>GGT	p.G149G	ATP6V1A_uc011bik.1_Silent_p.G116G	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	149					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						ATATCACTGGCGGAGACATTT	0.378													33	59					0	0	1	0	0		T	113503563	T	T	113503563	2	4	89	1	0	0	0	0	0	0	0	1	1178	755	27	1		1	ATP6V1A	3	113503563	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5932	113503563	84518867	1589	55420											
IGSF11	152404	broad.mit.edu	37	chr3	118621425	118621425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacaggtactgcaccaattCgttccagtgttgcgtggctg	7	12	12	10	2	0	1	0	1	0	0	2	1	1	1	2	2	3	5	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:118621425C>T	uc003ebw.2	-	7	1485	c.1238G>A	c.(1237-1239)CGA>CAA	p.R413Q	IGSF11_uc011biv.1_Missense_Mutation_p.R385Q|IGSF11_uc003ebx.2_Missense_Mutation_p.R389Q|IGSF11_uc003eby.2_Missense_Mutation_p.R412Q|IGSF11_uc003ebz.2_Missense_Mutation_p.R388Q|IGSF11_uc010hqs.2_Missense_Mutation_p.R412Q	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	413	Cytoplasmic (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						TGCACCAATTCGTTCCAGTGT	0.512													21	145					0	0	1	0	0		T	118621425	T	T	118621425	3	4	89	1	0	0	0	0	1	0	0	0	7614	884	31	1	61	1	IGSF11	3	118621425	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5117862	118621425	79401005	1590	55421											
IGSF11	152404	broad.mit.edu	37	chr3	118624560	118624560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatggtgactgttccctggaCctggtctgtcacaaaaataa	11	11	10	9	0	2	1	1	1	1	0	3	3	3	2	2	3	0	1	2	3	3	2	rs140836568	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:118624560C>T	uc003ebw.2	-	5	833	c.586G>A	c.(586-588)GTC>ATC	p.V196I	IGSF11_uc011biv.1_Missense_Mutation_p.V196I|IGSF11_uc003ebx.2_Missense_Mutation_p.V196I|IGSF11_uc003eby.2_Missense_Mutation_p.V195I|IGSF11_uc003ebz.2_Missense_Mutation_p.V195I|IGSF11_uc010hqs.2_Missense_Mutation_p.V195I	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	196	Ig-like C2-type.|Extracellular (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						GTTCCCTGGACCTGGTCTGTC	0.473													25	40					0	0	1	0	0		T	118624560	T	T	118624560	3	4	89	1	0	0	0	0	1	0	0	0	7614	507	18	4	721	4	IGSF11	3	118624560	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3135	118624560	79397870	1591	55422											
ARHGAP31	57514	broad.mit.edu	37	chr3	119087355	119087355	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacttatgagctctatgagAaattcacggtgagtgtttgg	10	14	12	5	1	2	4	1	4	1	1	2	5	2	4	0	2	1	2	0	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:119087355A>G	uc003ecj.3	+	3	872	c.340A>G	c.(340-342)AAA>GAA	p.K114E		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	114	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						GCTCTATGAGAAATTCACGGT	0.468													22	38					0	0	1	0	0		G	119087355	G	G	119087355	3	3	89	1	0	0	0	0	1	0	0	0	880	247	9	3	350	3	ARHGAP31	3	119087355	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	462795	119087355	78935075	1592	55423											
KTELC1	56983	broad.mit.edu	37	chr3	119211258	119211258	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggttatgatcaaattatTcccaaaatgttgaaaactga	18	12	6	5	0	1	3	1	3	0	0	2	3	2	3	1	1	1	2	1	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:119211258T>C	uc003ecm.2	+	11	1236	c.1152T>C	c.(1150-1152)ATT>ATC	p.I384I	KTELC1_uc011bja.1_Silent_p.I225I	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	384						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		ATCAAATTATTCCCAAAATGT	0.378													26	47					0	0	1	0	0		C	119211258	C	C	119211258	2	2	89	1	0	0	0	0	0	0	0	1	8599	1771	62	3		3	KTELC1	3	119211258	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	123903	119211258	78811172	1593	55424											
C3orf1	51300	broad.mit.edu	37	chr3	119219697	119219697	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaatttatcataaccggtTtgatgctgtggtatgtactg	11	15	10	5	1	1	2	1	1	0	1	1	2	1	2	1	2	3	4	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:119219697T>G	uc003ecn.2	+	2	563	c.350T>G	c.(349-351)TTT>TGT	p.F117C	C3orf1_uc003eco.2_RNA|C3orf1_uc003ecp.2_RNA	NM_016589	NP_057673	Q9NPL8	TIDC1_HUMAN	hypothetical protein LOC51300	117						integral to membrane|mitochondrial inner membrane	protein transporter activity				0				GBM - Glioblastoma multiforme(114;0.186)		CATAACCGGTTTGATGCTGTG	0.413													45	94					0	0	1	0	0		G	119219697	G	G	119219697	3	3	89	1	0	0	0	0	1	0	0	0	2209	1841	64	5	356	5	C3orf1	3	119219697	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	8439	119219697	78802733	1594	55425											
C3orf15	89876	broad.mit.edu	37	chr3	119459596	119459596	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttaaattttctcccttgatTttatcatcacacagcaccat	11	16	3	11	0	3	1	2	1	1	0	4	1	3	1	2	0	1	2	2	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:119459596T>G	uc010hqy.1	+	13	1811	c.1734T>G	c.(1732-1734)ATT>ATG	p.I578M	C3orf15_uc003ede.3_Intron|C3orf15_uc010hqz.2_Intron|C3orf15_uc011bjd.1_Intron|C3orf15_uc011bje.1_Intron|C3orf15_uc010hra.1_Missense_Mutation_p.I339M	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	Error:Variant_position_missing_in_Q7Z4T9_after_alignment						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		CTCCCTTGATTTTATCATCAC	0.343													4	12					0	0	1	0	0		G	119459596	G	G	119459596	3	3	89	1	0	0	0	0	1	0	0	0	2212	1856	64	5		5	C3orf15	3	119459596	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	239899	119459596	78562834	1595	55426											
GSK3B	2932	broad.mit.edu	37	chr3	119631622	119631622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtaccgagaacagatatacGaaacattgggttctcctcgg	13	9	10	9	3	1	2	0	0	1	2	3	4	1	2	2	2	4	2	2	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:119631622G>A	uc003edo.2	-	6	1627	c.644C>T	c.(643-645)TCG>TTG	p.S215L	GSK3B_uc003edn.2_Missense_Mutation_p.S215L	NM_001146156	NP_001139628	P49841	GSK3B_HUMAN	glycogen synthase kinase 3 beta isoform 2	215	Protein kinase.				axon guidance|epithelial to mesenchymal transition|ER overload response|glycogen metabolic process|hippocampus development|negative regulation of apoptosis|negative regulation of protein binding|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|positive regulation of cell-matrix adhesion|positive regulation of protein complex assembly|positive regulation of protein export from nucleus|positive regulation of Rac GTPase activity|regulation of microtubule-based process|superior temporal gyrus development	Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|nucleus|plasma membrane	ATP binding|beta-catenin binding|NF-kappaB binding|p53 binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|RNA polymerase II transcription factor binding|tau-protein kinase activity|ubiquitin protein ligase binding			lung(2)	2				GBM - Glioblastoma multiforme(114;0.24)	Lithium(DB01356)	ACAGATATACGAAACATTGGG	0.348													20	42					0	0	1	0	0		A	119631622	A	A	119631622	3	1	89	1	0	0	0	0	1	0	0	0	6840	1059	37	1	685	1	GSK3B	3	119631622	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	172026	119631622	78390808	1596	55427											
GSK3B	2932	broad.mit.edu	37	chr3	119720900	119720900	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacattttaccttaaatCtcttgtcctgcaatactttc	9	17	4	11	0	1	0	0	0	1	0	4	1	2	1	2	1	3	1	2	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:119720900C>A	uc003edo.2	-	2	1258	c.275G>T	c.(274-276)AGA>ATA	p.R92I	GSK3B_uc003edn.2_Missense_Mutation_p.R92I	NM_001146156	NP_001139628	P49841	GSK3B_HUMAN	glycogen synthase kinase 3 beta isoform 2	92	Protein kinase.				axon guidance|epithelial to mesenchymal transition|ER overload response|glycogen metabolic process|hippocampus development|negative regulation of apoptosis|negative regulation of protein binding|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|positive regulation of cell-matrix adhesion|positive regulation of protein complex assembly|positive regulation of protein export from nucleus|positive regulation of Rac GTPase activity|regulation of microtubule-based process|superior temporal gyrus development	Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|nucleus|plasma membrane	ATP binding|beta-catenin binding|NF-kappaB binding|p53 binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|RNA polymerase II transcription factor binding|tau-protein kinase activity|ubiquitin protein ligase binding			lung(2)	2				GBM - Glioblastoma multiforme(114;0.24)	Lithium(DB01356)	TACCTTAAATCTCTTGTCCTG	0.323													52	100					2.01872e-29	2.46164e-29	1	1	0		A	119720900	A	A	119720900	3	1	89	1	0	0	0	0	1	0	0	0	6840	913	32	5	1070	5	GSK3B	3	119720900	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	89278	119720900	78301530	1597	55428											
GPR156	165829	broad.mit.edu	37	chr3	119962867	119962867	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaattgttgtcttgcagaGatcatgaaggggtctccgat	10	13	11	7	1	3	2	1	1	2	1	4	4	3	2	1	2	2	2	1	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:119962867G>T	uc011bjf.1	-	1	79	c.79C>A	c.(79-81)CTC>ATC	p.L27I	GPR156_uc011bjg.1_Missense_Mutation_p.L27I	NM_153002	NP_694547	Q8NFN8	GP156_HUMAN	G protein-coupled receptor 156	27	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.19)		GTCTTGCAGAGATCATGAAGG	0.463													40	22					4.67007e-22	5.55902e-22	1	1	0		T	119962867	T	T	119962867	3	4	89	1	0	0	0	0	1	0	0	0	6676	942	33	5	2401	5	GPR156	3	119962867	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	241967	119962867	78059563	1598	55429											
LRRC58	116064	broad.mit.edu	37	chr3	120067729	120067729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggttgagcacctggaggCtgcggcagagcggcgactgg	7	6	19	9	3	0	3	0	2	0	1	0	5	0	4	1	6	3	4	1	6	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:120067729C>T	uc003edr.2	-	1	458	c.362G>A	c.(361-363)AGC>AAC	p.S121N		NM_001099678	NP_001093148	Q96CX6	LRC58_HUMAN	leucine rich repeat containing 58	121	LRR 4.										0				GBM - Glioblastoma multiforme(114;0.147)		CACCTGGAGGCTGCGGCAGAG	0.701													4	11					0	0	1	0	0		T	120067729	T	T	120067729	3	4	89	1	0	0	0	0	1	0	0	0	9032	797	28	2	769	2	LRRC58	3	120067729	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	104862	120067729	77954701	1599	55430											
HGD	3081	broad.mit.edu	37	chr3	120389326	120389326	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgagtgacttggccttcgTcaatggattcaaagggcttg	8	13	13	7	1	2	2	2	2	0	0	3	3	2	3	1	3	0	1	1	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:120389326T>C	uc003edw.2	-	4	600	c.230A>G	c.(229-231)GAC>GGC	p.D77G		NM_000187	NP_000178	Q93099	HGD_HUMAN	homogentisate 1,2-dioxygenase	77					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	homogentisate 1,2-dioxygenase activity|metal ion binding				0				GBM - Glioblastoma multiforme(114;0.158)		TTGGCCTTCGTCAATGGATTC	0.423													27	62					0	0	1	0	0		C	120389326	C	C	120389326	3	2	89	1	0	0	0	0	1	0	0	0	7100	1667	58	3	1151	3	HGD	3	120389326	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	321597	120389326	77633104	1600	55431											
GTF2E1	2960	broad.mit.edu	37	chr3	120469443	120469443	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagttccagcagcattgaAgcggttagccaagtatgtga	12	10	12	7	1	0	3	0	3	0	0	1	3	1	3	2	1	4	5	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:120469443A>C	uc003edz.3	+	2	158	c.44A>C	c.(43-45)AAG>ACG	p.K15T	GTF2E1_uc003edy.2_Missense_Mutation_p.K15T	NM_005513	NP_005504	P29083	T2EA_HUMAN	general transcription factor IIE, polypeptide 1,	15	HTH TFE/IIEalpha-type.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.159)		GCAGCATTGAAGCGGTTAGCC	0.423													45	94					0	0	1	0	0		C	120469443	C	C	120469443	3	2	89	1	0	0	0	0	1	0	0	0	6872	72	3	5	46	5	GTF2E1	3	120469443	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	80117	120469443	77552987	1601	55432											
STXBP5L	9515	broad.mit.edu	37	chr3	120760555	120760555	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattatattagactcgggaGacctggtgttgattgctatt	9	17	10	5	1	0	3	0	1	0	2	1	4	0	3	1	2	1	2	1	2	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:120760555G>T	uc003eec.3	+	4	436	c.296G>T	c.(295-297)AGA>ATA	p.R99I	STXBP5L_uc011bji.1_Missense_Mutation_p.R99I	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	99	WD 1.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		AGACTCGGGAGACCTGGTGTT	0.338													12	35					7.93312e-07	8.28085e-07	1	1	0		T	120760555	T	T	120760555	3	4	89	1	0	0	0	0	1	0	0	0	15382	942	33	5	306	5	STXBP5L	3	120760555	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	291112	120760555	77261875	1602	55433											
POLQ	10721	broad.mit.edu	37	chr3	121215700	121215700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagattgaatctgcccacGattgcatccatatttctgat	12	13	6	10	1	2	3	0	2	2	1	3	4	3	3	2	0	2	1	2	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:121215700G>A	uc003eee.3	-	14	2362	c.2233C>T	c.(2233-2235)CGT>TGT	p.R745C		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	745					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		ATCTGCCCACGATTGCATCCA	0.363								DNA_polymerases_(catalytic_subunits)					49	68					0	0	1	0	0		A	121215700	A	A	121215700	3	1	89	1	0	0	0	0	1	0	0	0	12227	1058	37	1	5607	1	POLQ	3	121215700	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	455145	121215700	76806730	1603	55434											
POLQ	10721	broad.mit.edu	37	chr3	121238807	121238807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccaccaaaaataggggttCgaataatcacacgacgtgca	16	6	9	10	3	1	0	1	0	0	0	2	3	1	0	2	2	1	2	2	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:121238807C>T	uc003eee.3	-	9	1508	c.1379G>A	c.(1378-1380)CGA>CAA	p.R460Q		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	460	Helicase C-terminal.				DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AATAGGGGTTCGAATAATCAC	0.468								DNA_polymerases_(catalytic_subunits)					81	152					0	0	1	0	0		T	121238807	T	T	121238807	3	4	89	1	0	0	0	0	1	0	0	0	12227	884	31	1	6481	1	POLQ	3	121238807	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	23107	121238807	76783623	1604	55435											
POLQ	10721	broad.mit.edu	37	chr3	121258410	121258410	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcccatataaccgtctacTtttattcctacttcctgaaa	10	15	3	13	1	1	1	0	1	1	0	3	1	3	1	4	0	4	0	4	0	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:121258410T>C	uc003eee.3	-	4	630	c.501A>G	c.(499-501)AAA>AAG	p.K167K		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	167	Helicase ATP-binding.				DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AACCGTCTACTTTTATTCCTA	0.398								DNA_polymerases_(catalytic_subunits)					30	47					0	0	1	0	0		C	121258410	C	C	121258410	2	2	89	1	0	0	0	0	0	0	0	1	12227	1606	56	3		3	POLQ	3	121258410	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	19603	121258410	76764020	1605	55436											
FBXO40	51725	broad.mit.edu	37	chr3	121340587	121340587	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagtggaaccgctggccaaAtgtggactctgaaaccaccc	11	6	12	12	1	1	1	0	1	1	0	1	4	1	4	4	4	2	1	4	4	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:121340587A>G	uc003eeg.2	+	3	521	c.311A>G	c.(310-312)AAT>AGT	p.N104S		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	104	TRAF-type.				muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		CGCTGGCCAAATGTGGACTCT	0.592													29	45					0	0	1	0	0		G	121340587	G	G	121340587	3	3	89	1	0	0	0	0	1	0	0	0	5763	101	4	3	317	3	FBXO40	3	121340587	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	82177	121340587	76681843	1606	55437											
FBXO40	51725	broad.mit.edu	37	chr3	121341621	121341621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtgctggctgacctaaccGctgccaccccagggggactc	7	6	12	16	1	0	1	0	1	0	0	1	2	0	2	5	3	3	3	5	3	1	1	rs143267823		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:121341621G>A	uc003eeg.2	+	3	1555	c.1345G>A	c.(1345-1347)GCT>ACT	p.A449T		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	449					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		TGACCTAACCGCTGCCACCCC	0.507													29	52					0	0	1	0	0		A	121341621	A	A	121341621	3	1	89	1	0	0	0	0	1	0	0	0	5763	1087	38	1	1351	1	FBXO40	3	121341621	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1034	121341621	76680809	1607	55438											
HCLS1	3059	broad.mit.edu	37	chr3	121351279	121351279	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgtccatctcctcaacGtcctcatagtcattctcagg	7	13	6	15	1	5	0	4	0	2	0	9	0	7	0	4	1	2	0	4	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:121351279G>A	uc003eeh.3	-	12	1265	c.1140C>T	c.(1138-1140)GAC>GAT	p.D380D	HCLS1_uc011bjj.1_Silent_p.D343D|HCLS1_uc011bjk.1_RNA	NM_005335	NP_005326	P14317	HCLS1_HUMAN	hematopoietic cell-specific Lyn substrate 1	380					erythrocyte differentiation|intracellular signal transduction|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of STAT protein|response to hormone stimulus	mitochondrion|nucleus|plasma membrane	DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(114;0.0912)		TCTCCTCAACGTCCTCATAGT	0.433													77	170					0	0	1	0	0		A	121351279	A	A	121351279	2	1	89	1	0	0	0	0	0	0	0	1	7011	1136	40	1		1	HCLS1	3	121351279	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9658	121351279	76671151	1608	55439											
HCLS1	3059	broad.mit.edu	37	chr3	121354598	121354598	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaccggcttctatgggcgtCgtcttcttataagctgtggt	5	15	11	10	3	4	0	1	0	3	0	5	0	4	0	1	3	1	2	1	3	3	5	rs149333073	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:121354598C>T	uc003eeh.3	-	9	800	c.675G>A	c.(673-675)ACG>ACA	p.T225T	HCLS1_uc011bjj.1_Silent_p.T188T|HCLS1_uc011bjk.1_RNA	NM_005335	NP_005326	P14317	HCLS1_HUMAN	hematopoietic cell-specific Lyn substrate 1	225					erythrocyte differentiation|intracellular signal transduction|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of STAT protein|response to hormone stimulus	mitochondrion|nucleus|plasma membrane	DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(114;0.0912)		CTATGGGCGTCGTCTTCTTAT	0.537													43	87					0	0	1	0	0		T	121354598	T	T	121354598	2	4	89	1	0	0	0	0	0	0	0	1	7011	871	31	1		1	HCLS1	3	121354598	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3319	121354598	76667832	1609	55440											
GOLGB1	2804	broad.mit.edu	37	chr3	121416180	121416180	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgttttaaataaatttCtatttcttggcacttagaag	11	19	6	5	0	3	1	0	0	3	1	3	1	3	1	0	1	0	2	0	1	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:121416180C>A	uc003eei.3	-	13	3301	c.3175G>T	c.(3175-3177)GAA>TAA	p.E1059*	GOLGB1_uc010hrc.2_Nonsense_Mutation_p.E1064*|GOLGB1_uc003eej.3_Nonsense_Mutation_p.E1025*|GOLGB1_uc011bjm.1_Nonsense_Mutation_p.E945*|GOLGB1_uc010hrd.1_Nonsense_Mutation_p.E1023*	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1059	Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		AAATAAATTTCTATTTCTTGG	0.378													33	82					8.88839e-20	1.04617e-19	1	1	0		A	121416180	A	A	121416180	4	1	89	1	0	0	0	0	0	1	0	0	6580	922	32	5	6644	5	GOLGB1	3	121416180	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	61582	121416180	76606250	1610	55441											
GOLGB1	2804	broad.mit.edu	37	chr3	121417443	121417443	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttcagtgctcgcctgttCtttttcaactgctggaagac	7	15	9	10	1	3	1	2	0	1	1	4	2	3	2	1	1	3	4	1	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:121417443C>A	uc003eei.3	-	13	2038	c.1912G>T	c.(1912-1914)GAA>TAA	p.E638*	GOLGB1_uc010hrc.2_Nonsense_Mutation_p.E643*|GOLGB1_uc003eej.3_Nonsense_Mutation_p.E604*|GOLGB1_uc011bjm.1_Nonsense_Mutation_p.E524*|GOLGB1_uc010hrd.1_Nonsense_Mutation_p.E602*	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	638	Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CTCGCCTGTTCTTTTTCAACT	0.373													47	88					1.0096e-33	1.24184e-33	1	1	0		A	121417443	A	A	121417443	4	1	89	1	0	0	0	0	0	1	0	0	6580	922	32	5	7907	5	GOLGB1	3	121417443	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1263	121417443	76604987	1611	55442											
GOLGB1	2804	broad.mit.edu	37	chr3	121417683	121417683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caacaataaaactgataattCtttatgtttctgagaaaatg	17	14	5	5	0	2	2	0	2	2	1	2	3	2	2	0	0	2	1	0	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:121417683C>T	uc003eei.3	-	13	1798	c.1672G>A	c.(1672-1674)GAA>AAA	p.E558K	GOLGB1_uc010hrc.2_Missense_Mutation_p.E563K|GOLGB1_uc003eej.3_Missense_Mutation_p.E524K|GOLGB1_uc011bjm.1_Missense_Mutation_p.E444K|GOLGB1_uc010hrd.1_Missense_Mutation_p.E522K	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	558	Potential.|Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		ACTGATAATTCTTTATGTTTC	0.363													41	87					0	0	1	0	0		T	121417683	T	T	121417683	3	4	89	1	0	0	0	0	1	0	0	0	6580	922	32	4	8147	4	GOLGB1	3	121417683	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	240	121417683	76604747	1612	55443											
CASR	846	broad.mit.edu	37	chr3	121980561	121980561	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggggattgagaaattcCgagaggaagctgaggaaagg	13	5	18	5	2	0	3	0	2	0	2	1	8	1	6	2	6	1	1	2	6	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:121980561C>T	uc003eev.3	+	4	1051	c.679C>T	c.(679-681)CGA>TGA	p.R227*	CASR_uc003eew.3_Nonsense_Mutation_p.R227*	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	227	Extracellular (Potential).		R -> Q (in FHH; impaired in their MAPK response to increasing extracellular calcium concentrations; less markedly impaired relative to wild-type then Leu- 227; when cotransfected with wild-type the curve is right-shifted intermediate to the curve for wild-type).		anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	TGAGAAATTCCGAGAGGAAGC	0.522													67	145					0	0	1	0	0		T	121980561	T	T	121980561	4	4	89	1	0	0	0	0	0	1	0	0	2685	644	23	1	689	1	CASR	3	121980561	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	562878	121980561	76041869	1613	55444											
PARP15	165631	broad.mit.edu	37	chr3	122335919	122335919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatgaaatgaaaatcggtgCaattacttttcaggttgcta	14	14	8	5	1	1	2	1	2	0	0	2	2	1	2	0	2	3	3	0	2	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:122335919C>T	uc003efm.2	+	6	974	c.908C>T	c.(907-909)GCA>GTA	p.A303V	PARP15_uc003efn.2_Intron|PARP15_uc003efo.1_Missense_Mutation_p.A50V|PARP15_uc003efp.1_Missense_Mutation_p.A69V|PARP15_uc011bjt.1_Missense_Mutation_p.A69V	NM_001113523	NP_001106995	Q460N3	PAR15_HUMAN	poly (ADP-ribose) polymerase family, member 15	281	Macro 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	NAD+ ADP-ribosyltransferase activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)	5				GBM - Glioblastoma multiforme(114;0.0531)		AAAATCGGTGCAATTACTTTT	0.398													43	80					0	0	1	0	0		T	122335919	T	T	122335919	3	4	89	1	0	0	0	0	1	0	0	0	11478	710	25	2	999	2	PARP15	3	122335919	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	355358	122335919	75686511	1614	55445											
PARP15	165631	broad.mit.edu	37	chr3	122340311	122340311	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcacagcctcacagagatTttataattacaccaggtgga	13	10	8	10	0	1	1	1	0	0	1	1	3	1	2	2	2	3	1	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:122340311T>G	uc003efm.2	+	8	1150	c.1084T>G	c.(1084-1086)TTT>GTT	p.F362V	PARP15_uc003efn.2_Missense_Mutation_p.F236V|PARP15_uc003efo.1_Missense_Mutation_p.F109V|PARP15_uc003efp.1_Missense_Mutation_p.F128V|PARP15_uc011bjt.1_Missense_Mutation_p.F128V	NM_001113523	NP_001106995	Q460N3	PAR15_HUMAN	poly (ADP-ribose) polymerase family, member 15	340	Macro 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	NAD+ ADP-ribosyltransferase activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)	5				GBM - Glioblastoma multiforme(114;0.0531)		TCACAGAGATTTTATAATTAC	0.378													33	57					0	0	1	0	0		G	122340311	G	G	122340311	3	3	89	1	0	0	0	0	1	0	0	0	11478	1841	64	5	1183	5	PARP15	3	122340311	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4392	122340311	75682119	1615	55446											
PARP15	165631	broad.mit.edu	37	chr3	122345735	122345735	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgatgctattgtagacttCtcatcacaacattccacccc	11	12	4	14	1	2	1	2	0	1	1	5	2	3	1	3	0	2	2	3	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:122345735C>A	uc003efm.2	+	9	1359	c.1293C>A	c.(1291-1293)TTC>TTA	p.F431L	PARP15_uc003efn.2_Intron|PARP15_uc003efo.1_Missense_Mutation_p.F178L|PARP15_uc003efp.1_Missense_Mutation_p.F197L|PARP15_uc011bjt.1_Intron	NM_001113523	NP_001106995	Q460N3	PAR15_HUMAN	poly (ADP-ribose) polymerase family, member 15	409	Macro 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	NAD+ ADP-ribosyltransferase activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)	5				GBM - Glioblastoma multiforme(114;0.0531)		TTGTAGACTTCTCATCACAAC	0.353													24	45					5.35356e-11	5.83973e-11	1	1	0		A	122345735	A	A	122345735	3	1	89	1	0	0	0	0	1	0	0	0	11478	912	32	5	1396	5	PARP15	3	122345735	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5424	122345735	75676695	1616	55447											
PARP14	54625	broad.mit.edu	37	chr3	122418266	122418266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatcatggccacaaaactcGacttcaataaaatgccactt	15	9	4	13	1	2	0	2	0	0	0	3	1	2	0	3	1	2	0	3	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:122418266G>A	uc003efq.3	+	6	924	c.865G>A	c.(865-867)GAC>AAC	p.D289N	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Missense_Mutation_p.D6N|PARP14_uc003efs.1_Missense_Mutation_p.D6N	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	289					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		CACAAAACTCGACTTCAATAA	0.383													20	39					0	0	1	0	0		A	122418266	A	A	122418266	3	1	89	1	0	0	0	0	1	0	0	0	11477	1058	37	1	887	1	PARP14	3	122418266	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	72531	122418266	75604164	1617	55448											
DIRC2	84925	broad.mit.edu	37	chr3	122564623	122564623	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcacagcaattttcgatttTtgatgattgctttagcatat	10	19	6	6	1	1	2	1	2	0	0	2	3	1	2	0	0	3	3	0	0	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:122564623T>G	uc003efw.3	+	5	986	c.847T>G	c.(847-849)TTG>GTG	p.L283V	DIRC2_uc010hrl.2_RNA|DIRC2_uc010hrm.2_Missense_Mutation_p.L121V	NM_032839	NP_116228	Q96SL1	DIRC2_HUMAN	disrupted in renal carcinoma 2	283	Helical; (Potential).				transport	integral to membrane					0				GBM - Glioblastoma multiforme(114;0.0614)		TTTTCGATTTTTGATGATTGC	0.343													10	25					0	0	1	0	0		G	122564623	G	G	122564623	3	3	89	1	0	0	0	0	1	0	0	0	4540	1838	64	5	865	5	DIRC2	3	122564623	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	146357	122564623	75457807	1618	55449											
SEMA5B	54437	broad.mit.edu	37	chr3	122630371	122630371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcctccatgctggaggCtggcaggatgactgcaggaa	8	7	15	11	0	0	1	0	1	0	0	2	4	2	4	3	6	2	4	3	6	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:122630371C>T	uc003efz.1	-	21	3362	c.3058G>A	c.(3058-3060)GCC>ACC	p.A1020T	SEMA5B_uc011bju.1_Missense_Mutation_p.A926T|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.A1020T|SEMA5B_uc003efy.1_5'UTR	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	1020	Extracellular (Potential).				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		ATGCTGGAGGCTGGCAGGATG	0.637													5	12					0	0	1	0	0		T	122630371	T	T	122630371	3	4	89	1	0	0	0	0	1	0	0	0	14063	797	28	2	409	2	SEMA5B	3	122630371	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	65748	122630371	75392059	1619	55450											
SEMA5B	54437	broad.mit.edu	37	chr3	122632771	122632771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcagggttgctgcaacttCgctggcggacctggaagccg	7	7	16	11	3	0	0	0	0	0	0	1	3	0	2	2	4	5	5	2	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:122632771C>T	uc003efz.1	-	15	2370	c.2066G>A	c.(2065-2067)CGA>CAA	p.R689Q	SEMA5B_uc011bju.1_Missense_Mutation_p.R631Q|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.R689Q|SEMA5B_uc010hro.1_Missense_Mutation_p.R631Q|SEMA5B_uc003efy.1_5'Flank	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	689	Extracellular (Potential).|TSP type-1 1.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		GCTGCAACTTCGCTGGCGGAC	0.682													33	49					0	0	1	0	0		T	122632771	T	T	122632771	3	4	89	1	0	0	0	0	1	0	0	0	14063	884	31	1	1425	1	SEMA5B	3	122632771	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2400	122632771	75389659	1620	55451											
PTPLB	201562	broad.mit.edu	37	chr3	123219414	123219414	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcatagtagtcaaaagaGaaattgtatttgttgggtaa	16	13	10	2	0	1	1	1	0	0	1	1	2	1	1	0	1	1	5	0	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:123219414G>T	uc003egj.2	-	6	680	c.630C>A	c.(628-630)TTC>TTA	p.F210L		NM_198402	NP_940684	Q6Y1H2	HACD2_HUMAN	protein tyrosine phosphatase-like (proline	210	Lumenal (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein binding			kidney(1)	1				GBM - Glioblastoma multiforme(114;0.1)		AGTCAAAAGAGAAATTGTATT	0.358													16	32					4.7546e-09	5.08881e-09	1	1	0		T	123219414	T	T	123219414	3	4	89	1	0	0	0	0	1	0	0	0	12800	933	33	5	142	5	PTPLB	3	123219414	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	586643	123219414	74803016	1621	55452											
MYLK	4638	broad.mit.edu	37	chr3	123385191	123385191	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggatgatctgagggggcaTtgctgagggaggacagggag	9	7	20	5	0	1	3	0	3	1	0	1	7	1	7	0	6	1	2	0	6	0	1	rs113124819	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:123385191T>G	uc003ego.2	-	22	3988	c.3706A>C	c.(3706-3708)ATG>CTG	p.M1236L	MYLK_uc010hrr.2_5'Flank|MYLK_uc011bjv.1_Missense_Mutation_p.M36L|MYLK_uc011bjw.1_Missense_Mutation_p.M1236L|MYLK_uc003egp.2_Missense_Mutation_p.M1167L|MYLK_uc003egq.2_Missense_Mutation_p.M1236L|MYLK_uc003egr.2_Missense_Mutation_p.M1167L|MYLK_uc003egs.2_Missense_Mutation_p.M1060L	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1236	Actin-binding (calcium/calmodulin- insensitive) (By similarity).				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		TGAGGGGGCATTGCTGAGGGA	0.562													18	31					0	0	1	0	0		G	123385191	G	G	123385191	3	3	89	1	0	0	0	0	1	0	0	0	10074	1493	52	5	2090	5	MYLK	3	123385191	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	165777	123385191	74637239	1622	55453											
MYLK	4638	broad.mit.edu	37	chr3	123419348	123419348	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattctctgctggtaatttCttcttgccacccagcactga	7	14	6	14	0	3	1	0	1	3	0	4	1	3	1	3	1	3	3	3	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:123419348C>A	uc003ego.2	-	18	3249	c.2967G>T	c.(2965-2967)AAG>AAT	p.K989N	MYLK_uc011bjw.1_Missense_Mutation_p.K989N|MYLK_uc003egp.2_Missense_Mutation_p.K920N|MYLK_uc003egq.2_Missense_Mutation_p.K989N|MYLK_uc003egr.2_Missense_Mutation_p.K920N|MYLK_uc003egs.2_Missense_Mutation_p.K813N|MYLK_uc003egt.2_Missense_Mutation_p.K180N	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	989	1-5; truncated.|5 X 28 AA approximate tandem repeats.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CTGGTAATTTCTTCTTGCCAC	0.592													27	57					3.73988e-18	4.36426e-18	1	1	0		A	123419348	A	A	123419348	3	1	89	1	0	0	0	0	1	0	0	0	10074	912	32	5	2845	5	MYLK	3	123419348	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34157	123419348	74603082	1623	55454											
MYLK	4638	broad.mit.edu	37	chr3	123427629	123427629	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgcccgtgtcctccgggaAcacttcctggatacaaaggc	8	8	11	14	3	0	0	0	0	0	0	3	2	3	2	4	3	3	0	4	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:123427629A>G	uc003ego.2	-	15	2338	c.2056T>C	c.(2056-2058)TTC>CTC	p.F686L	MYLK_uc011bjw.1_Missense_Mutation_p.F686L|MYLK_uc003egp.2_Missense_Mutation_p.F617L|MYLK_uc003egq.2_Missense_Mutation_p.F686L|MYLK_uc003egr.2_Missense_Mutation_p.F617L|MYLK_uc003egs.2_Missense_Mutation_p.F510L	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	686	Ig-like C2-type 5.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		TCCTCCGGGAACACTTCCTGG	0.572													44	89					0	0	1	0	0		G	123427629	G	G	123427629	3	3	89	1	0	0	0	0	1	0	0	0	10074	43	2	3	3768	3	MYLK	3	123427629	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	8281	123427629	74594801	1624	55455											
KALRN	8997	broad.mit.edu	37	chr3	124420922	124420922	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaccatttcttggaaggaAaattttgactcagcttacac	12	12	7	10	0	2	1	1	1	1	0	2	3	2	3	2	2	2	1	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:124420922A>C	uc003ehg.2	+	57	8161	c.8034A>C	c.(8032-8034)GAA>GAC	p.E2678D	KALRN_uc003ehk.2_Missense_Mutation_p.E981D	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2677					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						CTTGGAAGGAAAATTTTGACT	0.363													41	79					0	0	1	0	0		C	124420922	C	C	124420922	3	2	89	1	0	0	0	0	1	0	0	0	7991	11	1	5	8416	5	KALRN	3	124420922	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	993293	124420922	73601508	1625	55456											
UMPS	7372	broad.mit.edu	37	chr3	124462839	124462839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgatatcatcattgtaggtCgtggcataatctcagcagct	10	12	9	10	2	3	0	3	0	1	0	5	1	3	0	1	2	2	4	1	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:124462839C>T	uc003ehl.3	+	6	1457	c.1351C>T	c.(1351-1353)CGT>TGT	p.R451C	UMPS_uc003ehm.3_RNA|UMPS_uc011bka.1_Missense_Mutation_p.R273C|UMPS_uc011bkb.1_Missense_Mutation_p.R359C|UMPS_uc011bkc.1_Missense_Mutation_p.R273C|UMPS_uc003ehn.3_Missense_Mutation_p.R273C|UMPS_uc011bkd.1_Missense_Mutation_p.R176C	NM_000373	NP_000364	P11172	UMPS_HUMAN	uridine monophosphate synthase	451	OMPdecase.				'de novo' pyrimidine base biosynthetic process|'de novo' UMP biosynthetic process|pyrimidine nucleoside biosynthetic process	cytosol|nucleus	orotate phosphoribosyltransferase activity|orotidine-5'-phosphate decarboxylase activity			kidney(1)	1				GBM - Glioblastoma multiforme(114;0.146)		CATTGTAGGTCGTGGCATAAT	0.433													23	59					0	0	1	0	0		T	124462839	T	T	124462839	3	4	89	1	0	0	0	0	1	0	0	0	17007	884	31	1	1373	1	UMPS	3	124462839	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	41917	124462839	73559591	1626	55457											
HEG1	57493	broad.mit.edu	37	chr3	124739858	124739858	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagactgaccgtcaaagatcGcagcgttctcgggccaccat	10	7	10	14	4	2	3	1	1	1	2	4	3	2	3	3	1	1	2	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:124739858G>A	uc003ehs.3	-	4	1098	c.1030C>T	c.(1030-1032)CGA>TGA	p.R344*	HEG1_uc011bke.1_Nonsense_Mutation_p.R344*	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	344	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						GTCAAAGATCGCAGCGTTCTC	0.532													11	27					0	0	1	0	0		A	124739858	A	A	124739858	4	1	89	1	0	0	0	0	0	1	0	0	7060	1095	38	1	3171	1	HEG1	3	124739858	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	277019	124739858	73282572	1627	55458											
ZXDC	79364	broad.mit.edu	37	chr3	126189737	126189737	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagcaatgttttaaaatctaCcttccacaggacactcgaac	15	10	5	11	1	1	0	0	0	1	0	3	2	2	1	2	1	3	2	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:126189737C>T	uc003eiv.2	-	4	1324	c.1270_splice	c.e4+1	p.G424_splice	ZXDC_uc010hsh.2_Splice_Site|ZXDC_uc003eix.2_Splice_Site_p.G424_splice	NM_025112	NP_079388	Q2QGD7	ZXDC_HUMAN	ZXD family zinc finger C isoform 1						positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|LRR domain binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.155)		TTAAAATCTACCTTCCACAGG	0.438													28	58					0	0	1	0	0		T	126189737	T	T	126189737	5	4	89	1	0	0	0	0	0	0	1	0	18277	521	18	4	1339	4	ZXDC	3	126189737	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1449879	126189737	71832693	1628	55459											
PLXNA1	5361	broad.mit.edu	37	chr3	126751319	126751319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcacggacgcctgcttgtCggtggtggcccagaccttca	6	9	12	14	3	2	1	2	0	0	1	3	2	2	2	3	4	1	1	3	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:126751319C>T	uc003ejg.2	+	29	5256	c.5252C>T	c.(5251-5253)TCG>TTG	p.S1751L	PLXNA1_uc003ejh.2_Missense_Mutation_p.S419L	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1774	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GCCTGCTTGTCGGTGGTGGCC	0.587													37	74					0	0	1	0	0		T	126751319	T	T	126751319	3	4	89	1	0	0	0	0	1	0	0	0	12138	893	31	1	5435	1	PLXNA1	3	126751319	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	561582	126751319	71271111	1629	55460											
PODXL2	50512	broad.mit.edu	37	chr3	127379708	127379708	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagggcttggggtagagttCgaggctcctcaggaagcaag	9	7	17	8	1	1	1	1	0	0	1	3	3	2	2	1	5	1	6	1	5	3	3	rs114235935	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:127379708C>T	uc003ejq.2	+	3	861	c.837C>T	c.(835-837)TTC>TTT	p.F279F		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	279	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						GGGTAGAGTTCGAGGCTCCTC	0.617													14	41					0	0	1	0	0		T	127379708	T	T	127379708	2	4	89	1	0	0	0	0	0	0	0	1	12200	883	31	1		1	PODXL2	3	127379708	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	628389	127379708	70642722	1630	55461											
MGLL	11343	broad.mit.edu	37	chr3	127500727	127500727	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccggctccatgggacacaAagatgagggccctgcagaga	11	5	13	12	1	0	3	0	1	0	2	2	5	2	4	3	3	1	2	3	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:127500727A>T	uc003ejx.2	-	3	282	c.137T>A	c.(136-138)TTT>TAT	p.F46Y	MGLL_uc003ejw.2_Missense_Mutation_p.F56Y|MGLL_uc011bko.1_Missense_Mutation_p.F56Y|MGLL_uc010hsp.1_Missense_Mutation_p.F46Y	NM_001003794	NP_001003794	Q99685	MGLL_HUMAN	monoglyceride lipase isoform 2	46					arachidonic acid metabolic process|fatty acid biosynthetic process|inflammatory response|platelet activation|regulation of endocannabinoid signaling pathway|regulation of inflammatory response|regulation of sensory perception of pain|triglyceride catabolic process	plasma membrane	acylglycerol lipase activity|carboxylesterase activity|lysophospholipase activity|protein homodimerization activity				0						ATGGGACACAAAGATGAGGGC	0.473													17	28					0	0	1	0	0		T	127500727	T	T	127500727	3	4	89	1	0	0	0	0	1	0	0	0	9574	14	1	5	798	5	MGLL	3	127500727	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	121019	127500727	70521703	1631	55462											
RUVBL1	8607	broad.mit.edu	37	chr3	127823693	127823693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttgccatatcctcccatggGattctctgtctcacacggag	7	13	8	13	1	2	0	1	0	2	0	6	2	4	2	3	2	1	0	3	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:127823693G>A	uc003ekh.2	-	4	540	c.436C>T	c.(436-438)CCC>TCC	p.P146S	RUVBL1_uc003ekf.2_Missense_Mutation_p.P86S|RUVBL1_uc010hss.2_Missense_Mutation_p.P146S	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1	146					cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		CCTCCCATGGGATTCTCTGTC	0.348													32	51					0	0	1	0	0		A	127823693	A	A	127823693	3	1	89	1	0	0	0	0	1	0	0	0	13777	1174	41	4	966	4	RUVBL1	3	127823693	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	322966	127823693	70198737	1632	55463											
RPN1	6184	broad.mit.edu	37	chr3	128339383	128339383	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgctcagcctccaccgcCgacttcagcaccagctcctt	7	7	8	19	3	2	0	2	0	0	0	4	1	4	0	6	1	3	3	6	1	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:128339383C>T	uc003ekr.1	-	10	1771	c.1695G>A	c.(1693-1695)TCG>TCA	p.S565S	RPN1_uc011bkq.1_Silent_p.S393S	NM_002950	NP_002941	P04843	RPN1_HUMAN	ribophorin I precursor	565	Cytoplasmic (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|melanosome|oligosaccharyltransferase complex|rough microsome	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(114;0.189)		CCTCCACCGCCGACTTCAGCA	0.587			T	EVI1	AML								35	92					0	0	1	0	0		T	128339383	T	T	128339383	2	4	89	1	0	0	0	0	0	0	0	1	13632	639	23	1		1	RPN1	3	128339383	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	515690	128339383	69683047	1633	55464											
RAB7A	7879	broad.mit.edu	37	chr3	128525422	128525422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggaaacaagattgacctcGaaaacagacaagtaagtacc	18	6	9	8	1	0	3	0	1	0	2	1	5	0	4	2	1	3	2	2	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:128525422G>A	uc003eks.1	+	4	620	c.388G>A	c.(388-390)GAA>AAA	p.E130K	RAB7A_uc010hsv.1_Intron|RAB7A_uc003ekt.2_Missense_Mutation_p.E106K	NM_004637	NP_004628	P51149	RAB7A_HUMAN	RAB7, member RAS oncogene family	130					endocytosis|endosome to lysosome transport|epidermal growth factor catabolic process|protein transport|small GTPase mediated signal transduction	Golgi apparatus|late endosome|lysosome|melanosome|phagocytic vesicle	GDP binding|GTP binding|GTPase activity|protein binding				0				GBM - Glioblastoma multiforme(114;0.231)		GATTGACCTCGAAAACAGACA	0.473													18	32					0	0	1	0	0		A	128525422	A	A	128525422	3	1	89	1	0	0	0	0	1	0	0	0	12979	1059	37	1	398	1	RAB7A	3	128525422	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	186039	128525422	69497008	1634	55465											
KIAA1257	57501	broad.mit.edu	37	chr3	128706483	128706483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttatgaaaagctcccacgtCgtctgtgaagccggcagtct	9	10	10	12	3	2	2	0	2	2	0	4	2	3	2	2	1	2	2	2	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:128706483C>T	uc003elj.3	-	4	839	c.643G>A	c.(643-645)GAC>AAC	p.D215N	KIAA1257_uc003elg.1_Missense_Mutation_p.D215N|KIAA1257_uc003eli.3_Missense_Mutation_p.D103N	NM_020741	NP_065792	Q9ULG3	K1257_HUMAN	hypothetical protein LOC57501	215											0						GCTCCCACGTCGTCTGTGAAG	0.423													36	68					0	0	1	0	0		T	128706483	T	T	128706483	3	4	89	1	0	0	0	0	1	0	0	0	8234	884	31	1	606	1	KIAA1257	3	128706483	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	181061	128706483	69315947	1635	55466											
C3orf37	56941	broad.mit.edu	37	chr3	129009603	129009603	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcagggaacaaaccagAggcagccatacttcatctat	14	8	9	10	0	3	1	2	0	1	1	3	3	3	2	2	2	4	1	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:129009603A>G	uc003elt.2	+	4	497	c.409A>G	c.(409-411)AGG>GGG	p.R137G	C3orf37_uc003elu.2_Intron|C3orf37_uc003elv.2_Missense_Mutation_p.R137G|C3orf37_uc003elw.2_Missense_Mutation_p.R137G	NM_020187	NP_064572	Q96FZ2	CC037_HUMAN	hypothetical protein LOC56941	137										ovary(1)	1						AACAAACCAGAGGCAGCCATA	0.428													35	76					0	0	1	0	0		G	129009603	G	G	129009603	3	3	89	1	0	0	0	0	1	0	0	0	2230	295	11	3	419	3	C3orf37	3	129009603	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	303120	129009603	69012827	1636	55467											
MBD4	8930	broad.mit.edu	37	chr3	129155520	129155520	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttttttgttcagaacaaaAatttgatcctgaactcaatg	14	15	6	6	0	2	3	2	2	0	1	3	3	3	3	1	0	2	2	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:129155520A>C	uc003emh.1	-	3	1143	c.967T>G	c.(967-969)TTT>GTT	p.F323V	MBD4_uc003emi.1_Missense_Mutation_p.F323V|MBD4_uc003emj.1_Missense_Mutation_p.F323V|MBD4_uc003emk.1_Intron|MBD4_uc011bkw.1_Missense_Mutation_p.F323V	NM_003925	NP_003916	O95243	MBD4_HUMAN	methyl-CpG binding domain protein 4	323					depyrimidination	nucleoplasm	DNA N-glycosylase activity|endodeoxyribonuclease activity|protein binding|satellite DNA binding			ovary(1)|lung(1)	2						TCAGAACAAAAATTTGATCCT	0.368								BER_DNA_glycosylases					53	79					0	0	1	0	0		C	129155520	C	C	129155520	3	2	89	1	0	0	0	0	1	0	0	0	9364	14	1	5	799	5	MBD4	3	129155520	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	145917	129155520	68866910	1637	55468											
RHO	6010	broad.mit.edu	37	chr3	129247781	129247781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtccagcacaagaagctgCgcacgcctctcaactacatc	11	6	7	17	3	1	1	1	0	1	1	4	1	2	1	3	0	5	3	3	0	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:129247781C>T	uc003emt.2	+	1	300	c.205C>T	c.(205-207)CGC>TGC	p.R69C		NM_000539	NP_000530	P08100	OPSD_HUMAN	rhodopsin	69	Cytoplasmic.		Missing (in RP4).		protein-chromophore linkage|rhodopsin mediated signaling pathway	Golgi apparatus|integral to plasma membrane|photoreceptor inner segment membrane|photoreceptor outer segment membrane	G-protein coupled receptor activity|metal ion binding|photoreceptor activity|protein binding				0		all_neural(597;0.0227)|Myeloproliferative disorder(1037;0.0255)|Prostate(884;0.183)		GBM - Glioblastoma multiforme(114;2.58e-05)|Lung(219;0.0234)	Halothane(DB01159)	CAAGAAGCTGCGCACGCCTCT	0.567													45	72					0	0	1	0	0		T	129247781	T	T	129247781	3	4	89	1	0	0	0	0	1	0	0	0	13355	768	27	1	207	1	RHO	3	129247781	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	92261	129247781	68774649	1638	55469											
PLXND1	23129	broad.mit.edu	37	chr3	129277299	129277299	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcaggtcagagatggagCaggcgtcgatgaaggcctgc	9	6	17	9	2	1	2	1	1	0	1	2	5	1	3	1	4	3	3	1	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:129277299C>A	uc003emx.2	-	33	5517	c.5417G>T	c.(5416-5418)TGC>TTC	p.C1806F	PLXND1_uc003emw.2_5'UTR|PLXND1_uc011blb.1_Missense_Mutation_p.C475F	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1806	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						AGAGATGGAGCAGGCGTCGAT	0.602													24	46					4.4004e-07	4.60384e-07	1	1	0		A	129277299	A	A	129277299	3	1	89	1	0	0	0	0	1	0	0	0	12146	710	25	5	376	5	PLXND1	3	129277299	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	29518	129277299	68745131	1639	55470											
PLXND1	23129	broad.mit.edu	37	chr3	129277343	129277343	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgactgaaaggcaggcgtcGatgtggtctgtcttgtcgat	8	12	14	7	3	2	2	0	2	2	0	4	4	2	2	0	3	0	1	0	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:129277343G>A	uc003emx.2	-	33	5473	c.5373C>T	c.(5371-5373)ATC>ATT	p.I1791I	PLXND1_uc003emw.2_5'UTR|PLXND1_uc011blb.1_Silent_p.I460I	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1791	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						GGCAGGCGTCGATGTGGTCTG	0.582													23	55					0	0	1	0	0		A	129277343	A	A	129277343	2	1	89	1	0	0	0	0	0	0	0	1	12146	1048	37	1		1	PLXND1	3	129277343	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	44	129277343	68745087	1640	55471											
PLXND1	23129	broad.mit.edu	37	chr3	129302495	129302495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaacagggccactgtgccGacaggcagctggtacagctg	11	5	14	11	1	0	1	0	0	0	1	0	2	0	1	2	3	5	4	2	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:129302495G>A	uc003emx.2	-	8	2256	c.2156C>T	c.(2155-2157)TCG>TTG	p.S719L		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	719	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						CCACTGTGCCGACAGGCAGCT	0.582													18	19					0	0	1	0	0		A	129302495	A	A	129302495	3	1	89	1	0	0	0	0	1	0	0	0	12146	1059	37	1	3737	1	PLXND1	3	129302495	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	25152	129302495	68719935	1641	55472											
COL6A6	131873	broad.mit.edu	37	chr3	130284283	130284283	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccctgggcatagagggCgccagcgacacccagttgga	9	6	13	13	2	1	1	1	0	0	1	1	3	1	2	3	3	1	2	3	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:130284283C>T	uc010htl.2	+	3	1138	c.1107C>T	c.(1105-1107)GGC>GGT	p.G369G		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	369	Nonhelical region.|VWFA 2.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GCATAGAGGGCGCCAGCGACA	0.557													39	84					0	0	1	0	0		T	130284283	T	T	130284283	2	4	89	1	0	0	0	0	0	0	0	1	3706	755	27	1		1	COL6A6	3	130284283	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	981788	130284283	67738147	1642	55473											
COL6A6	131873	broad.mit.edu	37	chr3	130290173	130290173	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtacttcttcgtggagacTtttggaggtctgaagggaat	10	13	13	5	1	2	2	0	1	2	1	3	5	2	4	0	4	1	1	0	4	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:130290173T>G	uc010htl.2	+	6	2944	c.2913T>G	c.(2911-2913)ACT>ACG	p.T971T		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	971	VWFA 5.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TCGTGGAGACTTTTGGAGGTC	0.448													34	42					0	0	1	0	0		G	130290173	G	G	130290173	2	3	89	1	0	0	0	0	0	0	0	1	3706	1596	56	5		5	COL6A6	3	130290173	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	5890	130290173	67732257	1643	55474											
COL6A6	131873	broad.mit.edu	37	chr3	130305384	130305384	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataactgttgctctggatggAcctgctgattcaagtgactt	9	14	10	8	0	2	2	1	2	1	0	2	4	2	4	1	2	3	3	1	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:130305384A>G	uc010htl.2	+	10	4036	c.4005A>G	c.(4003-4005)GGA>GGG	p.G1335G	COL6A6_uc003eni.3_5'UTR	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1335	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CTCTGGATGGACCTGCTGATT	0.433													54	130					0	0	1	0	0		G	130305384	G	G	130305384	2	3	89	1	0	0	0	0	0	0	0	1	3706	262	10	3		3	COL6A6	3	130305384	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	15211	130305384	67717046	1644	55475											
COL6A6	131873	broad.mit.edu	37	chr3	130361855	130361855	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgagctcattcagtatgtgCgagaccgcagtcgtaagtac	10	10	12	9	3	2	2	2	1	0	1	3	3	2	2	1	0	3	5	1	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:130361855C>T	uc010htl.2	+	30	5246	c.5215C>T	c.(5215-5217)CGA>TGA	p.R1739*	COL6A6_uc003eni.3_Silent_p.C2C	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1739	Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TCAGTATGTGCGAGACCGCAG	0.383													12	21					0	0	1	0	0		T	130361855	T	T	130361855	4	4	89	1	0	0	0	0	0	1	0	0	3706	760	27	1	5333	1	COL6A6	3	130361855	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	56471	130361855	67660575	1645	55476											
COL6A6	131873	broad.mit.edu	37	chr3	130368016	130368016	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggatgaaggagatgatggcTttcctggtgagagacattaa	12	10	14	5	1	0	5	0	3	0	2	1	8	1	6	1	4	0	1	1	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:130368016T>G	uc010htl.2	+	32	5374	c.5343T>G	c.(5341-5343)GCT>GCG	p.A1781A	COL6A6_uc003eni.3_Intron	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1781	VWFA 8.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						AGATGATGGCTTTCCTGGTGA	0.582													4	9					0	0	1	0	0		G	130368016	G	G	130368016	2	3	89	1	0	0	0	0	0	0	0	1	3706	1596	56	5		5	COL6A6	3	130368016	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6161	130368016	67654414	1646	55477											
PIK3R4	30849	broad.mit.edu	37	chr3	130442276	130442276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaatatcactggcaaattCgtaaacatggggtttttgta	13	13	8	7	1	1	0	1	0	0	0	2	0	1	0	1	3	1	4	1	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:130442276C>T	uc003enj.2	-	7	2544	c.1963G>A	c.(1963-1965)GAA>AAA	p.E655K		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	655					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						CTGGCAAATTCGTAAACATGG	0.338													27	67					0	0	1	0	0		T	130442276	T	T	130442276	3	4	89	1	0	0	0	0	1	0	0	0	11940	893	31	1	2169	1	PIK3R4	3	130442276	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	74260	130442276	67580154	1647	55478											
PIK3R4	30849	broad.mit.edu	37	chr3	130463973	130463973	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccgagtactccccaggctTttatcatattcaaagtcatg	12	12	6	11	1	3	0	3	0	0	0	4	1	4	0	3	1	2	2	3	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:130463973T>G	uc003enj.2	-	2	671	c.90A>C	c.(88-90)AAA>AAC	p.K30N		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	30	Protein kinase.				fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						TCCCCAGGCTTTTATCATATT	0.443													22	40					0	0	1	0	0		G	130463973	G	G	130463973	3	3	89	1	0	0	0	0	1	0	0	0	11940	1838	64	5	4062	5	PIK3R4	3	130463973	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	21697	130463973	67558457	1648	55479											
ASTE1	28990	broad.mit.edu	37	chr3	130743446	130743446	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagacgcgctttacttaaGaatgtctccatgatgggtag	11	11	12	7	2	1	3	0	1	1	2	2	4	1	4	1	2	1	2	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:130743446G>T	uc003env.1	-	3	1147	c.705C>A	c.(703-705)TTC>TTA	p.F235L	NEK11_uc003enx.2_5'Flank|NEK11_uc003eny.2_5'Flank|NEK11_uc003eoa.2_5'Flank|NEK11_uc003enz.2_5'Flank|NEK11_uc010htn.2_5'Flank|NEK11_uc011blk.1_5'Flank|NEK11_uc011bll.1_5'Flank|NEK11_uc003enw.1_5'Flank|NEK11_uc011blm.1_5'Flank|ASTE1_uc010htm.1_Missense_Mutation_p.F235L|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	235					DNA repair		nuclease activity				0						CTTTACTTAAGAATGTCTCCA	0.448													33	76					3.57733e-08	3.78477e-08	1	1	0		T	130743446	T	T	130743446	3	4	89	1	0	0	0	0	1	0	0	0	1063	933	33	5	1350	5	ASTE1	3	130743446	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	279473	130743446	67278984	1649	55480											
DNAJC13	23317	broad.mit.edu	37	chr3	132172174	132172174	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagagcaaagagaagagatTattaaaagtgcaatagacca	20	7	9	5	0	1	4	1	0	0	4	1	6	1	4	1	0	2	2	1	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:132172174T>C	uc003eor.2	+	7	635	c.570T>C	c.(568-570)ATT>ATC	p.I190I	DNAJC13_uc010htq.1_Silent_p.I190I|DNAJC13_uc003eos.1_5'Flank	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	190							heat shock protein binding			ovary(1)|breast(1)	2						GAGAAGAGATTATTAAAAGTG	0.348													17	44					0	0	1	0	0		C	132172174	C	C	132172174	2	2	89	1	0	0	0	0	0	0	0	1	4638	1742	61	3		3	DNAJC13	3	132172174	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1428728	132172174	65850256	1650	55481											
DNAJC13	23317	broad.mit.edu	37	chr3	132241676	132241676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacttcctcgtataggttcGaattacgttaatgaaatttc	13	15	6	7	3	0	1	0	1	0	0	4	2	1	1	1	1	2	3	1	1	7	7	rs139626514		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:132241676G>A	uc003eor.2	+	49	5743	c.5678G>A	c.(5677-5679)CGA>CAA	p.R1893Q		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1893							heat shock protein binding			ovary(1)|breast(1)	2						GTATAGGTTCGAATTACGTTA	0.323													13	25					0	0	1	0	0		A	132241676	A	A	132241676	3	1	89	1	0	0	0	0	1	0	0	0	4638	1058	37	1	5868	1	DNAJC13	3	132241676	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	69502	132241676	65780754	1651	55482											
CCRL1	51554	broad.mit.edu	37	chr3	132320115	132320115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaagtcacagaaagcatcGcactctttcacagctgcctc	11	9	6	15	1	3	1	2	0	1	1	6	1	4	1	2	0	3	3	2	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:132320115G>A	uc003eow.2	+	2	957	c.874G>A	c.(874-876)GCA>ACA	p.A292T	ACAD11_uc003eov.3_Intron|ACAD11_uc011blr.1_Intron|CCRL1_uc003eox.2_Missense_Mutation_p.A292T	NM_016557	NP_057641	Q9NPB9	CCRL1_HUMAN	chemokine (C-C motif) receptor-like 1	292	Helical; Name=7; (Potential).				chemotaxis|immune response	integral to plasma membrane	C-C chemokine receptor activity				0						AGAAAGCATCGCACTCTTTCA	0.463													68	275					0	0	1	0	0		A	132320115	A	A	132320115	3	1	89	1	0	0	0	0	1	0	0	0	2952	1087	38	1	876	1	CCRL1	3	132320115	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	78439	132320115	65702315	1652	55483											
NPHP3	27031	broad.mit.edu	37	chr3	132401613	132401613	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccgacccaggctatcttcaTaaatctttaatgctctttca	10	15	4	12	1	5	0	2	0	3	0	6	1	6	0	2	1	1	2	2	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:132401613T>C	uc003epe.1	-	26	3823	c.3746A>G	c.(3745-3747)TAT>TGT	p.Y1249C	NPHP3_uc003eoz.1_Missense_Mutation_p.Y128C|NPHP3_uc003epd.1_Missense_Mutation_p.Y491C	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	1249	TPR 10.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						GCTATCTTCATAAATCTTTAA	0.343													41	75					0	0	1	0	0		C	132401613	C	C	132401613	3	2	89	1	0	0	0	0	1	0	0	0	10599	1406	49	3	254	3	NPHP3	3	132401613	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	81498	132401613	65620817	1653	55484											
NPHP3	27031	broad.mit.edu	37	chr3	132403524	132403524	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgctttatcatactgtttCttttcattgcatagagctgc	7	19	6	9	0	4	1	2	0	2	1	4	1	4	1	0	0	5	4	0	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:132403524C>T	uc003epe.1	-	24	3521	c.3444G>A	c.(3442-3444)AAG>AAA	p.K1148K	NPHP3_uc003eoz.1_Silent_p.K27K|NPHP3_uc003epd.1_Silent_p.K390K	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	1148	TPR 8.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						CATACTGTTTCTTTTCATTGC	0.428													29	51					0	0	1	0	0		T	132403524	T	T	132403524	2	4	89	1	0	0	0	0	0	0	0	1	10599	912	32	4		4	NPHP3	3	132403524	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1911	132403524	65618906	1654	55485											
NPHP3	27031	broad.mit.edu	37	chr3	132415633	132415633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgcaggttgtagcagaacGacagtgtcgttctagcttct	9	13	11	8	2	2	1	0	0	2	1	3	2	2	1	0	1	4	6	0	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:132415633G>A	uc003epe.1	-	15	2190	c.2113C>T	c.(2113-2115)CGT>TGT	p.R705C	NPHP3_uc003epd.1_Intron	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	705					maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						GTAGCAGAACGACAGTGTCGT	0.433													47	88					0	0	1	0	0		A	132415633	A	A	132415633	3	1	89	1	0	0	0	0	1	0	0	0	10599	1058	37	1	1931	1	NPHP3	3	132415633	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12109	132415633	65606797	1655	55486											
NPHP3	27031	broad.mit.edu	37	chr3	132437924	132437924	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtagcctctgaagtttgCtctccaactccctcttggcc	5	13	7	16	0	3	1	0	1	3	0	5	1	4	1	5	1	3	3	5	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:132437924C>A	uc003epe.1	-	3	661	c.584G>T	c.(583-585)AGC>ATC	p.S195I	NPHP3_uc003epf.1_5'UTR	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	195	Potential.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						CTGAAGTTTGCTCTCCAACTC	0.393													37	83					1.59932e-28	1.94589e-28	1	1	0		A	132437924	A	A	132437924	3	1	89	1	0	0	0	0	1	0	0	0	10599	797	28	5	3508	5	NPHP3	3	132437924	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	22291	132437924	65584506	1656	55487											
BFSP2	8419	broad.mit.edu	37	chr3	133185754	133185754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtggagttacacaacacttCgtgccaagtccagagcctcc	10	8	10	13	1	0	1	0	0	0	1	3	2	2	2	4	2	4	1	4	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:133185754C>T	uc003epn.1	+	5	1112	c.974C>T	c.(973-975)TCG>TTG	p.S325L		NM_003571	NP_003562	Q13515	BFSP2_HUMAN	phakinin	325	Rod.|Potential.				response to stimulus|visual perception	cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens				0						CACAACACTTCGTGCCAAGTC	0.562													33	63					0	0	1	0	0		T	133185754	T	T	133185754	3	4	89	1	0	0	0	0	1	0	0	0	1417	893	31	1	992	1	BFSP2	3	133185754	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	747830	133185754	64836676	1657	55488											
KY	339855	broad.mit.edu	37	chr3	134327586	134327586	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctcaaactgcctcagaGattgaggaggttttagcagc	10	12	11	8	0	2	2	2	1	1	1	3	4	2	3	1	2	4	3	1	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:134327586G>T	uc010hty.2	-	10	1057	c.995C>A	c.(994-996)TCT>TAT	p.S332Y	KY_uc011blw.1_Intron|KY_uc011blx.1_Missense_Mutation_p.S311Y|KY_uc003eqr.1_Missense_Mutation_p.S98Y	NM_178554	NP_848649	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase	332						cytoskeleton|Z disc	peptidase activity			ovary(2)	2						CTGCCTCAGAGATTGAGGAGG	0.483													38	57					4.00102e-26	4.83427e-26	1	1	0		T	134327586	T	T	134327586	3	4	89	1	0	0	0	0	1	0	0	0	8602	942	33	5	998	5	KY	3	134327586	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1141832	134327586	63694844	1658	55489											
PPP2R3A	5523	broad.mit.edu	37	chr3	135863921	135863921	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagatgaacctgcctctccCtctgaatttggaaacaaaag	14	9	7	11	0	2	3	0	2	2	1	3	4	2	4	3	1	3	0	3	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:135863921C>A	uc003eqv.1	+	14	3931	c.3366C>A	c.(3364-3366)CCC>CCA	p.P1122P	PPP2R3A_uc011blz.1_Silent_p.P386P|PPP2R3A_uc003eqw.1_Silent_p.P501P	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	1122					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						CTGCCTCTCCCTCTGAATTTG	0.353													15	33					2.61681e-11	2.86667e-11	1	1	0		A	135863921	A	A	135863921	2	1	89	1	0	0	0	0	0	0	0	1	12410	668	24	5		5	PPP2R3A	3	135863921	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1536335	135863921	62158509	1659	55490											
MSL2	55167	broad.mit.edu	37	chr3	135871511	135871511	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcatcattttcttgcctTtacaagttttgcagacataa	11	17	4	9	0	4	1	3	0	1	1	4	1	4	1	1	0	3	2	1	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:135871511T>G	uc003eqx.1	-	2	945	c.212A>C	c.(211-213)AAA>ACA	p.K71T	MSL2_uc011bmb.1_5'UTR	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	71	RING-type.				histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						TTTCTTGCCTTTACAAGTTTT	0.423													62	107					0	0	1	0	0		G	135871511	G	G	135871511	3	3	89	1	0	0	0	0	1	0	0	0	9896	1841	64	5	1525	5	MSL2	3	135871511	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	7590	135871511	62150919	1660	55491											
PCCB	5096	broad.mit.edu	37	chr3	135974701	135974701	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttgttccattgtagggaAagctaacagccagggagagg	11	10	13	7	0	1	1	0	0	1	1	2	3	2	2	2	3	3	3	2	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:135974701A>G	uc003eqy.1	+	2	238	c.187A>G	c.(187-189)AAG>GAG	p.K63E	PCCB_uc003eqz.1_Missense_Mutation_p.K63E|PCCB_uc011bmc.1_Missense_Mutation_p.K63E|PCCB_uc011bmd.1_5'UTR	NM_000532	NP_000523	P05166	PCCB_HUMAN	propionyl Coenzyme A carboxylase, beta	63	Carboxyltransferase.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|propionyl-CoA carboxylase activity				0					Biotin(DB00121)|L-Valine(DB00161)	ATTGTAGGGAAAGCTAACAGC	0.483													26	73					0	0	1	0	0		G	135974701	G	G	135974701	3	3	89	1	0	0	0	0	1	0	0	0	11524	15	1	3	193	3	PCCB	3	135974701	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	103190	135974701	62047729	1661	55492											
PCCB	5096	broad.mit.edu	37	chr3	136046553	136046553	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcctggcccaccgcagaGattgcagtcatgggagcaaa	11	7	12	11	1	1	1	1	0	0	1	1	3	1	2	3	2	3	3	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:136046553G>T	uc003eqy.1	+	13	1428	c.1377G>T	c.(1375-1377)GAG>GAT	p.E459D	PCCB_uc003eqz.1_Missense_Mutation_p.E459D|PCCB_uc011bmc.1_Missense_Mutation_p.E479D	NM_000532	NP_000523	P05166	PCCB_HUMAN	propionyl Coenzyme A carboxylase, beta	459	Carboxyltransferase.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|propionyl-CoA carboxylase activity				0					Biotin(DB00121)|L-Valine(DB00161)	CCACCGCAGAGATTGCAGTCA	0.517													18	29					4.35082e-09	4.66334e-09	1	1	0		T	136046553	T	T	136046553	3	4	89	1	0	0	0	0	1	0	0	0	11524	933	33	5	1491	5	PCCB	3	136046553	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	71852	136046553	61975877	1662	55493											
STAG1	10274	broad.mit.edu	37	chr3	136240172	136240172	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatgctatactgacactgtcGaatcaggactccaataaatt	14	12	6	9	1	1	1	1	1	0	0	3	3	2	2	1	1	2	1	1	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:136240172G>A	uc003era.1	-	7	851	c.559C>T	c.(559-561)CGA>TGA	p.R187*	STAG1_uc003erb.1_Nonsense_Mutation_p.R187*|STAG1_uc003erc.1_5'UTR|STAG1_uc010hua.1_Nonsense_Mutation_p.R50*|STAG1_uc003erd.2_Nonsense_Mutation_p.R90*|STAG1_uc003ere.2_Nonsense_Mutation_p.R187*	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	187					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						TGACACTGTCGAATCAGGACT	0.398													37	85					0	0	1	0	0		A	136240172	A	A	136240172	4	1	89	1	0	0	0	0	0	1	0	0	15267	1066	37	1	3329	1	STAG1	3	136240172	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	193619	136240172	61782258	1663	55494											
NCK1	4690	broad.mit.edu	37	chr3	136646968	136646968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taagtcctggtggcgagttcGaaattccatgaataaaacag	14	10	10	7	2	0	1	0	1	0	0	3	3	2	1	2	2	1	1	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:136646968G>A	uc003erh.2	+	2	232	c.125G>A	c.(124-126)CGA>CAA	p.R42Q	NCK1_uc011bme.1_5'Flank	NM_006153	NP_006144	P16333	NCK1_HUMAN	NCK adaptor protein 1	42	SH3 1.				axon guidance|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of translation|signal complex assembly|T cell activation|T cell receptor signaling pathway	cytosol|endoplasmic reticulum|nucleus	cytoskeletal adaptor activity|receptor binding|receptor signaling complex scaffold activity			pancreas(1)	1						TGGCGAGTTCGAAATTCCATG	0.393													46	62					0	0	1	0	0		A	136646968	A	A	136646968	3	1	89	1	0	0	0	0	1	0	0	0	10238	1058	37	1	127	1	NCK1	3	136646968	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	406796	136646968	61375462	1664	55495											
DZIP1L	199221	broad.mit.edu	37	chr3	137811252	137811252	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgtagagttctgcttggcGacatttttaaattcatccca	10	15	8	8	1	2	1	1	0	1	1	3	2	3	1	1	1	1	3	1	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:137811252G>A	uc003erq.2	-	5	1206	c.843C>T	c.(841-843)GTC>GTT	p.V281V	DZIP1L_uc003err.1_Silent_p.V281V	NM_173543	NP_775814	Q8IYY4	DZI1L_HUMAN	DAZ interacting protein 1-like	281	Potential.					intracellular	zinc ion binding			ovary(1)|pancreas(1)	2						TCTGCTTGGCGACATTTTTAA	0.308													37	64					0	0	1	0	0		A	137811252	A	A	137811252	2	1	89	1	0	0	0	0	0	0	0	1	4870	1045	37	1		1	DZIP1L	3	137811252	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1164284	137811252	60211178	1665	55496											
ESYT3	83850	broad.mit.edu	37	chr3	138183346	138183346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctgaaccccacctggaacGaagtgtttgaggtaagggtc	11	8	12	10	1	0	2	0	2	0	0	1	4	0	3	4	3	2	2	4	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:138183346G>A	uc003esk.2	+	9	1301	c.1075G>A	c.(1075-1077)GAA>AAA	p.E359K	ESYT3_uc010hug.2_RNA	NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain	359	C2 1.					integral to membrane|plasma membrane					0						CACCTGGAACGAAGTGTTTGA	0.582													24	45					0	0	1	0	0		A	138183346	A	A	138183346	3	1	89	1	0	0	0	0	1	0	0	0	5274	1059	37	1	1109	1	ESYT3	3	138183346	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	372094	138183346	59839084	1666	55497											
PIK3CB	5291	broad.mit.edu	37	chr3	138453486	138453486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaaacttacagaaataattCgtgttttctttggtggtaat	13	17	7	4	1	1	1	0	0	1	1	2	1	1	1	0	2	2	2	0	2	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:138453486C>T	uc011bmq.1	-	5	962	c.962G>A	c.(961-963)CGA>CAA	p.R321Q		NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta	321					activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						AGAAATAATTCGTGTTTTCTT	0.333													34	62					0	0	1	0	0		T	138453486	T	T	138453486	3	4	89	1	0	0	0	0	1	0	0	0	11933	884	31	1	2320	1	PIK3CB	3	138453486	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	270140	138453486	59568944	1667	55498											
COPB2	9276	broad.mit.edu	37	chr3	139085471	139085471	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggaatggtaggaaggaccTtatcagccatgctaaagtcc	12	10	11	8	0	1	0	1	0	0	0	2	3	2	3	3	4	2	2	3	4	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:139085471T>G	uc003etf.3	-	15	1953	c.1823A>C	c.(1822-1824)AAG>ACG	p.K608T	COPB2_uc011bmv.1_Missense_Mutation_p.K579T|COPB2_uc010hui.2_Missense_Mutation_p.K579T	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	608					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						AGGAAGGACCTTATCAGCCAT	0.413													20	53					0	0	1	0	0		G	139085471	G	G	139085471	3	3	89	1	0	0	0	0	1	0	0	0	3732	1609	56	5	929	5	COPB2	3	139085471	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	631985	139085471	58936959	1668	55499											
TRIM42	287015	broad.mit.edu	37	chr3	140397213	140397213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgcccttacaaagatgagCggaactgccagttctgccac	10	8	9	14	1	1	2	0	1	1	1	1	3	1	3	4	1	6	1	4	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:140397213C>T	uc003eto.1	+	1	333	c.142C>T	c.(142-144)CGG>TGG	p.R48W		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	48	Cys-rich.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						CAAAGATGAGCGGAACTGCCA	0.542													64	116					0	0	1	0	0		T	140397213	T	T	140397213	3	4	89	1	0	0	0	0	1	0	0	0	16543	759	27	1	144	1	TRIM42	3	140397213	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1311742	140397213	57625217	1669	55500											
SLC25A36	55186	broad.mit.edu	37	chr3	140675425	140675425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actggaagttgtaaaaacacGactgcagtcatcttctgtga	13	11	9	8	1	3	1	1	1	2	0	3	3	3	2	0	1	2	3	0	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:140675425G>A	uc003etr.2	+	2	333	c.98G>A	c.(97-99)CGA>CAA	p.R33Q	SLC25A36_uc003etp.2_Missense_Mutation_p.R33Q|SLC25A36_uc003ets.2_Missense_Mutation_p.R33Q|SLC25A36_uc003etq.2_5'UTR|SLC25A36_uc011bmz.1_Missense_Mutation_p.R33Q	NM_001104647	NP_001098117	Q96CQ1	S2536_HUMAN	solute carrier family 25, member 36 isoform a	33	Solcar 1.				response to estradiol stimulus|transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0						GTAAAAACACGACTGCAGTCA	0.418													23	56					0	0	1	0	0		A	140675425	A	A	140675425	3	1	89	1	0	0	0	0	1	0	0	0	14525	1058	37	1	104	1	SLC25A36	3	140675425	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	278212	140675425	57347005	1670	55501											
SLC25A36	55186	broad.mit.edu	37	chr3	140675523	140675523	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgtctcccggacctcttCattgcctaaagtgagagcat	9	12	9	11	1	3	1	1	1	2	1	4	3	3	2	3	1	2	1	3	1	3	4	rs77926656		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:140675523C>A	uc003etr.2	+	2	431	c.196C>A	c.(196-198)CAT>AAT	p.H66N	SLC25A36_uc003etp.2_Missense_Mutation_p.H66N|SLC25A36_uc003ets.2_Missense_Mutation_p.H66N|SLC25A36_uc003etq.2_5'UTR|SLC25A36_uc011bmz.1_Missense_Mutation_p.H66N	NM_001104647	NP_001098117	Q96CQ1	S2536_HUMAN	solute carrier family 25, member 36 isoform a	66	Solcar 1.				response to estradiol stimulus|transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0						CGGACCTCTTCATTGCCTAAA	0.423													38	92					1.61572e-30	1.9767e-30	1	1	0		A	140675523	A	A	140675523	3	1	89	1	0	0	0	0	1	0	0	0	14525	826	29	5	202	5	SLC25A36	3	140675523	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	98	140675523	57346907	1671	55502											
TFDP2	7029	broad.mit.edu	37	chr3	141682680	141682680	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagatgctgcaatctatGactgtttttctgcttgtatt	7	18	9	7	0	2	2	0	1	2	1	2	3	2	2	0	1	3	5	0	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:141682680G>T	uc003eun.3	-	10	1237	c.858C>A	c.(856-858)GTC>GTA	p.V286V	TFDP2_uc003euk.3_Silent_p.V199V|TFDP2_uc010hur.2_Silent_p.V226V|TFDP2_uc003eul.3_Silent_p.V226V|TFDP2_uc011bnf.1_Silent_p.V189V|TFDP2_uc011bng.1_Silent_p.V150V|TFDP2_uc003eum.3_Silent_p.V226V	NM_006286	NP_006277	Q14188	TFDP2_HUMAN	transcription factor Dp-2 (E2F dimerization	286	Dimerization (Potential).|DCB2.				cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1						TGCAATCTATGACTGTTTTTC	0.448													49	93					1.3203e-36	1.6321e-36	1	1	0		T	141682680	T	T	141682680	2	4	89	1	0	0	0	0	0	0	0	1	15823	1277	45	5		5	TFDP2	3	141682680	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1007157	141682680	56339750	1672	55503											
ATR	545	broad.mit.edu	37	chr3	142186856	142186856	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaaggattttttcatatGaatagctttattgaggattt	11	19	7	4	0	2	2	1	2	1	0	2	4	2	4	0	2	1	1	0	2	5	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:142186856G>T	uc003eux.3	-	39	6729	c.6607C>A	c.(6607-6609)CAT>AAT	p.H2203N	ATR_uc003euy.1_Missense_Mutation_p.H89N	NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	2203					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						TTTTTCATATGAATAGCTTTA	0.343								Other_conserved_DNA_damage_response_genes					37	91					1.36161e-19	1.60149e-19	1	1	0		T	142186856	T	T	142186856	3	4	89	1	0	0	0	0	1	0	0	0	1205	1290	45	5	1363	5	ATR	3	142186856	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	504176	142186856	55835574	1673	55504											
ATR	545	broad.mit.edu	37	chr3	142231276	142231276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtatttatggtatgctgatCgtcatgctttagaactgcca	9	15	10	7	1	1	2	1	1	0	1	2	2	1	2	1	2	4	4	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:142231276C>T	uc003eux.3	-	27	4800	c.4678G>A	c.(4678-4680)GAT>AAT	p.D1560N		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1560					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						GTATGCTGATCGTCATGCTTT	0.338								Other_conserved_DNA_damage_response_genes					37	73					0	0	1	0	0		T	142231276	T	T	142231276	3	4	89	1	0	0	0	0	1	0	0	0	1205	884	31	1	3340	1	ATR	3	142231276	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44420	142231276	55791154	1674	55505											
ATR	545	broad.mit.edu	37	chr3	142281952	142281952	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgatccaattactgaattCtttgaaataaacaaaaaaga	20	12	4	5	0	1	4	0	3	1	1	2	4	2	4	1	0	2	0	1	0	10	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:142281952C>A	uc003eux.3	-	4	415	c.293_splice	c.e4-1	p.E98_splice		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein						cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						TTACTGAATTCTTTGAAATAA	0.318								Other_conserved_DNA_damage_response_genes					40	78					4.92203e-23	5.88717e-23	1	1	0		A	142281952	A	A	142281952	5	1	89	1	0	0	0	0	0	0	1	0	1205	927	32	5	7818	5	ATR	3	142281952	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	50676	142281952	55740478	1675	55506											
TRPC1	7220	broad.mit.edu	37	chr3	142525010	142525010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagatctgtcaaaattccGaaatgaaataagggatttac	17	10	7	7	1	2	2	1	1	1	1	3	4	3	3	2	1	1	0	2	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:142525010G>A	uc003evc.2	+	13	2451	c.2315G>A	c.(2314-2316)CGA>CAA	p.R772Q	TRPC1_uc003evb.2_Missense_Mutation_p.R738Q	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	772					axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						TCAAAATTCCGAAATGAAATA	0.363													28	51					0	0	1	0	0		A	142525010	A	A	142525010	3	1	89	1	0	0	0	0	1	0	0	0	16604	1058	37	1	2259	1	TRPC1	3	142525010	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	243058	142525010	55497420	1676	55507											
SR140	23350	broad.mit.edu	37	chr3	142775251	142775251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccagatcccagtccagatctCcacacaggtctcataaaaag	14	7	6	14	0	2	2	1	0	2	2	6	2	4	2	4	1	0	0	4	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:142775251C>T	uc003evh.1	+	28	3148	c.3049C>T	c.(3049-3051)CCA>TCA	p.P1017S	SR140_uc003evi.1_Missense_Mutation_p.P608S|SR140_uc003evj.1_RNA|SR140_uc003evk.1_Missense_Mutation_p.P1016S	NM_001080415	NP_001073884	O15042	SR140_HUMAN	U2-associated SR140 protein	1017					RNA processing	nucleus	nucleotide binding|RNA binding				0						GTCCAGATCTCCACACAGGTC	0.408													11	21					0	0	1	0	0		T	142775251	T	T	142775251	3	4	89	1	0	0	0	0	1	0	0	0	15156	855	30	4	3159	4	SR140	3	142775251	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	250241	142775251	55247179	1677	55508											
SLC9A9	285195	broad.mit.edu	37	chr3	143271229	143271229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagttcttattttggaatccGaagacagattgttgtaggta	11	16	10	4	1	1	2	0	0	1	2	2	4	2	3	1	2	0	4	1	2	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:143271229G>A	uc003evn.2	-	9	1246	c.1064C>T	c.(1063-1065)TCG>TTG	p.S355L		NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	355					regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						TTTGGAATCCGAAGACAGATT	0.343													17	27					0	0	1	0	0		A	143271229	A	A	143271229	3	1	89	1	0	0	0	0	1	0	0	0	14746	1059	37	1	905	1	SLC9A9	3	143271229	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	495978	143271229	54751201	1678	55509											
SLC9A9	285195	broad.mit.edu	37	chr3	143550871	143550871	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatccttaccttttcaagtAtagcatttccttgatgagga	10	15	8	8	0	1	2	1	2	0	0	3	4	3	4	3	2	2	2	3	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:143550871A>G	uc003evn.2	-	2	550	c.368T>C	c.(367-369)ATA>ACA	p.I123T	SLC9A9_uc011bnk.1_Intron	NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	123					regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						CTTTTCAAGTATAGCATTTCC	0.294													15	22					0	0	1	0	0		G	143550871	G	G	143550871	3	3	89	1	0	0	0	0	1	0	0	0	14746	449	16	3	1629	3	SLC9A9	3	143550871	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	279642	143550871	54471559	1679	55510											
C3orf58	205428	broad.mit.edu	37	chr3	143708552	143708552	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcatgatccaccaagtGaaattgccaaagatggccgg	12	9	9	11	1	1	3	1	2	0	1	3	3	3	3	5	2	1	0	5	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:143708552G>T	uc003evo.2	+	3	1697	c.1162G>T	c.(1162-1164)GAA>TAA	p.E388*	C3orf58_uc011bnl.1_Nonsense_Mutation_p.E179*	NM_173552	NP_775823	Q8NDZ4	CC058_HUMAN	hypothetical protein LOC205428 isoform a	388						COPI vesicle coat|extracellular region				ovary(1)	1						TCCACCAAGTGAAATTGCCAA	0.512													45	72					2.24893e-16	2.58354e-16	1	1	0		T	143708552	T	T	143708552	4	4	89	1	0	0	0	0	0	1	0	0	2239	1291	45	5	1206	5	C3orf58	3	143708552	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	157681	143708552	54313878	1680	55511											
PLSCR4	57088	broad.mit.edu	37	chr3	145917772	145917772	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggttacaatgtaaaccatcTggtctgagttgtttttaata	11	16	8	6	1	2	1	0	1	2	0	2	1	2	1	1	2	2	4	1	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:145917772T>G	uc010huy.2	-	6	781	c.452A>C	c.(451-453)CAG>CCG	p.Q151P	PLSCR4_uc010huz.2_Missense_Mutation_p.Q151P|PLSCR4_uc003evt.3_Missense_Mutation_p.Q151P|PLSCR4_uc010hva.2_Intron|PLSCR4_uc003evu.3_Intron	NM_001128305	NP_001121777	Q9NRQ2	PLS4_HUMAN	phospholipid scramblase 4 isoform a	151	Cytoplasmic (By similarity).				blood coagulation|phospholipid scrambling	integral to membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding				0						GTAAACCATCTGGTCTGAGTT	0.363													13	35					0	0	1	0	0		G	145917772	G	G	145917772	3	3	89	1	0	0	0	0	1	0	0	0	12131	1580	55	5	553	5	PLSCR4	3	145917772	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2209220	145917772	52104658	1681	55512											
GYG1	2992	broad.mit.edu	37	chr3	148714244	148714244	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtattcaaaatgtgtatTcatggatgcagatactctgg	13	13	9	6	0	3	1	2	0	1	1	3	2	3	2	0	2	2	3	0	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:148714244T>G	uc003ewn.2	+	3	352	c.299T>G	c.(298-300)TTC>TGC	p.F100C	GYG1_uc011bnp.1_Missense_Mutation_p.F100C|GYG1_uc003ewo.2_Missense_Mutation_p.F100C|GYG1_uc003ewp.2_Missense_Mutation_p.F100C	NM_004130	NP_004121	P46976	GLYG_HUMAN	glycogenin 1	100					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	glycogenin glucosyltransferase activity|metal ion binding|protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			AAATGTGTATTCATGGATGCA	0.443													32	67					0	0	1	0	0		G	148714244	G	G	148714244	3	3	89	1	0	0	0	0	1	0	0	0	6921	1783	62	5	309	5	GYG1	3	148714244	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2796472	148714244	49308186	1682	55513											
HLTF	6596	broad.mit.edu	37	chr3	148789221	148789221	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgatgtggaagcagtggtgTttcaatagcctataaataaa	14	13	10	4	0	1	1	1	1	0	0	1	2	1	2	1	2	2	2	1	2	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:148789221T>G	uc003ewq.1	-	7	930	c.712A>C	c.(712-714)ACA>CCA	p.T238P	HLTF_uc003ewr.1_Missense_Mutation_p.T238P|HLTF_uc003ews.1_Missense_Mutation_p.T238P|HLTF_uc010hve.1_Missense_Mutation_p.T238P	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	238					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			AGCAGTGGTGTTTCAATAGCC	0.363													21	33					0	0	1	0	0		G	148789221	G	G	148789221	3	3	89	1	0	0	0	0	1	0	0	0	7231	1725	60	5	2393	5	HLTF	3	148789221	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	74977	148789221	49233209	1683	55514											
HPS3	84343	broad.mit.edu	37	chr3	148868424	148868424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtgcggtgcagtgcggCggcagctcgtgaggaggacc	6	6	18	11	4	0	1	0	1	0	0	1	3	0	3	1	5	4	3	1	5	0	0	rs142082044		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:148868424C>T	uc003ewu.1	+	6	1342	c.1202C>T	c.(1201-1203)GCG>GTG	p.A401V	HPS3_uc003ewt.1_Missense_Mutation_p.A401V|HPS3_uc011bnq.1_Missense_Mutation_p.A236V	NM_032383	NP_115759	Q969F9	HPS3_HUMAN	Hermansky-Pudlak syndrome 3 protein	401						cytoplasm				ovary(5)|large_intestine(1)	6			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			TGCAGTGCGGCGGCAGCTCGT	0.522									Hermansky-Pudlak_syndrome				21	45					0	0	1	0	0		T	148868424	T	T	148868424	3	4	89	1	0	0	0	0	1	0	0	0	7356	768	27	1	1224	1	HPS3	3	148868424	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	79203	148868424	49154006	1684	55515											
CP	1356	broad.mit.edu	37	chr3	148927157	148927157	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaatatgtttttctttttCtttatctagagaatctggag	9	20	7	5	0	5	1	1	0	4	1	5	3	5	2	0	1	0	1	0	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:148927157C>A	uc003ewy.3	-	4	875	c.622G>T	c.(622-624)GAA>TAA	p.E208*	CP_uc011bnr.1_RNA|CP_uc003ewx.3_5'UTR|CP_uc003ewz.2_Nonsense_Mutation_p.E208*|CP_uc010hvf.1_5'Flank	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	208	F5/8 type A 1.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	TTTTCTTTTTCTTTATCTAGA	0.303													25	41					1.64293e-13	1.8379e-13	1	1	0		A	148927157	A	A	148927157	4	1	89	1	0	0	0	0	0	1	0	0	3790	922	32	5	2639	5	CP	3	148927157	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	58733	148927157	49095273	1685	55516											
CP	1356	broad.mit.edu	37	chr3	148928079	148928079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggactttgttcttcagtgGcaagcaacatgtatgtatac	11	13	9	8	0	2	0	1	0	1	0	2	1	2	1	0	2	3	5	0	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:148928079G>A	uc003ewy.3	-	3	735	c.482C>T	c.(481-483)GCC>GTC	p.A161V	CP_uc011bnr.1_RNA|CP_uc003ewx.3_5'Flank|CP_uc003ewz.2_Missense_Mutation_p.A161V|CP_uc010hvf.1_5'Flank	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	161	F5/8 type A 1.|Plastocyanin-like 1.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	TTCTTCAGTGGCAAGCAACAT	0.443													37	80					0	0	1	0	0		A	148928079	A	A	148928079	3	1	89	1	0	0	0	0	1	0	0	0	3790	1203	42	2	2783	2	CP	3	148928079	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	922	148928079	49094351	1686	55517											
WWTR1	25937	broad.mit.edu	37	chr3	149238736	149238736	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatcagggaaacgggtctgTtggggattgatgttcatggg	10	11	16	4	1	3	1	2	1	1	0	3	3	3	3	0	5	1	2	0	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:149238736T>C	uc003exe.2	-	6	1075	c.1059A>G	c.(1057-1059)CAA>CAG	p.Q353Q	WWTR1_uc003exf.2_Silent_p.Q353Q|WWTR1_uc011bns.1_Silent_p.Q353Q|WWTR1_uc003exh.2_Silent_p.Q353Q	NM_015472	NP_056287	Q9GZV5	WWTR1_HUMAN	WW domain containing transcription regulator 1	353					hippo signaling cascade|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of protein kinase activity|negative regulation of protein phosphorylation|positive regulation of cell proliferation|positive regulation of epithelial to mesenchymal transition|regulation of SMAD protein import into nucleus|stem cell division|transcription, DNA-dependent	cytoplasm	transcription coactivator activity	p.Q353*(1)		breast(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			AACGGGTCTGTTGGGGATTGA	0.418													62	134					0	0	1	0	0		C	149238736	C	C	149238736	2	2	89	1	0	0	0	0	0	0	0	1	17443	1722	60	3		3	WWTR1	3	149238736	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	310657	149238736	48783694	1687	55518											
TSC22D2	9819	broad.mit.edu	37	chr3	150176284	150176284	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaatgcactgttaaaatCtctttcaagcaatgatcaat	17	12	5	7	0	3	2	2	1	1	1	4	2	3	2	0	0	2	3	0	0	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:150176284C>A	uc003exv.2	+	4	2554	c.2204C>A	c.(2203-2205)TCT>TAT	p.S735Y	TSC22D2_uc003exw.2_RNA|TSC22D2_uc003exx.2_Missense_Mutation_p.S711Y	NM_014779	NP_055594	O75157	T22D2_HUMAN	TSC22 domain family, member 2	735							sequence-specific DNA binding transcription factor activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CTGTTAAAATCTCTTTCAAGC	0.398													49	119					1.67211e-32	2.05151e-32	1	1	0		A	150176284	A	A	150176284	3	1	89	1	0	0	0	0	1	0	0	0	16634	913	32	5	2218	5	TSC22D2	3	150176284	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	937548	150176284	47846146	1688	55519											
SIAH2	6478	broad.mit.edu	37	chr3	150460058	150460058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagccacaccgtcatgaatcGaacggggcgtggcctcccag	9	5	12	15	4	1	1	1	1	0	0	3	2	2	1	4	3	2	0	4	3	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:150460058G>A	uc003eyi.2	-	2	1472	c.845C>T	c.(844-846)TCG>TTG	p.S282L		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	282	SBD.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GTCATGAATCGAACGGGGCGT	0.547													31	47					0	0	1	0	0		A	150460058	A	A	150460058	3	1	89	1	0	0	0	0	1	0	0	0	14325	1059	37	1	133	1	SIAH2	3	150460058	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	283774	150460058	47562372	1689	55520											
CLRN1	7401	broad.mit.edu	37	chr3	150659437	150659437	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaaggttttccaaaagcaTtgtacatgaagaaggctgtc	15	10	9	7	0	0	2	0	1	0	1	2	2	1	2	1	2	2	4	1	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:150659437T>G	uc003eyk.1	-	2	656	c.365A>C	c.(364-366)AAT>ACT	p.N122T	CLRN1OS_uc011bny.1_Intron|CLRN1_uc003eyj.2_Missense_Mutation_p.N46T|CLRN1_uc010hvj.1_RNA	NM_174878	NP_777367	P58418	CLRN1_HUMAN	clarin 1 isoform a	122					equilibrioception|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			TCCAAAAGCATTGTACATGAA	0.428													24	42					0	0	1	0	0		G	150659437	G	G	150659437	3	3	89	1	0	0	0	0	1	0	0	0	3560	1493	52	5	366	5	CLRN1	3	150659437	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	199379	150659437	47362993	1690	55521											
P2RY14	9934	broad.mit.edu	37	chr3	150931482	150931482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaagattttctttgtgataGcagtatagaaaacgattaac	16	14	7	4	1	1	3	0	1	1	2	1	4	1	3	0	0	3	2	0	0	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:150931482G>A	uc003eyr.1	-	3	1101	c.623C>T	c.(622-624)GCT>GTT	p.A208V	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY14_uc003eys.1_Missense_Mutation_p.A208V	NM_001081455	NP_001074924	Q15391	P2Y14_HUMAN	P2Y14 receptor	208	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled|UDP-activated nucleotide receptor activity			large_intestine(2)|ovary(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTTTGTGATAGCAGTATAGAA	0.403													40	96					0	0	1	0	0		A	150931482	A	A	150931482	3	1	89	1	0	0	0	0	1	0	0	0	11370	971	34	2	397	2	P2RY14	3	150931482	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	272045	150931482	47090948	1691	55522											
P2RY13	53829	broad.mit.edu	37	chr3	151045839	151045839	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttggcttgatgctgtggtCtttctcccttgcatacatgg	4	17	10	10	0	3	1	0	1	3	0	4	1	3	1	1	3	3	3	1	3	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:151045839C>T	uc003eyv.2	-	2	1026	c.1005G>A	c.(1003-1005)AAG>AAA	p.K335K	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_176894	NP_795713	Q9BPV8	P2Y13_HUMAN	purinergic receptor P2Y, G-protein coupled, 13	335						integral to membrane|plasma membrane				ovary(3)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0189)|Lung(72;0.0278)			ATGCTGTGGTCTTTCTCCCTT	0.363													51	112					0	0	1	0	0		T	151045839	T	T	151045839	2	4	89	1	0	0	0	0	0	0	0	1	11369	912	32	4		4	P2RY13	3	151045839	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	114357	151045839	46976591	1692	55523											
MED12L	116931	broad.mit.edu	37	chr3	151127057	151127057	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggggaccaggctgctctCtttgctgcgcaagcacggcc	5	7	14	15	3	1	0	0	0	1	0	2	1	1	1	3	4	4	5	3	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:151127057C>A	uc003eyp.2	+	38	5780	c.5742C>A	c.(5740-5742)CTC>CTA	p.L1914L	MED12L_uc011bnz.1_Intron	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1914	Gln-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AGGCTGCTCTCTTTGCTGCGC	0.522													47	77					2.9001e-28	3.52487e-28	1	1	0		A	151127057	A	A	151127057	2	1	89	1	0	0	0	0	0	0	0	1	9447	900	32	5		5	MED12L	3	151127057	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	81218	151127057	46895373	1693	55524											
IGSF10	285313	broad.mit.edu	37	chr3	151162770	151162770	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagcttcacagggaagaaAggcatctgagttagctggaa	15	7	12	7	0	2	2	1	1	1	1	2	4	2	4	0	3	3	4	0	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:151162770A>C	uc011bod.1	-	4	4999	c.4999T>G	c.(4999-5001)TTT>GTT	p.F1667V		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1667	Ig-like C2-type 3.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CAGGGAAGAAAGGCATCTGAG	0.413													36	78					0	0	1	0	0		C	151162770	C	C	151162770	3	2	89	1	0	0	0	0	1	0	0	0	7613	72	3	5	2932	5	IGSF10	3	151162770	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	35713	151162770	46859660	1694	55525											
IGSF10	285313	broad.mit.edu	37	chr3	151166641	151166641	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactgtacaaagccaaaatTtgccacactggctgaatgtg	13	10	8	10	0	1	1	1	1	0	0	1	1	1	1	2	1	3	2	2	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:151166641T>G	uc011bod.1	-	4	1128	c.1128A>C	c.(1126-1128)CAA>CAC	p.Q376H		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	376					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AAGCCAAAATTTGCCACACTG	0.393													33	53					0	0	1	0	0		G	151166641	G	G	151166641	3	3	89	1	0	0	0	0	1	0	0	0	7613	1838	64	5	6803	5	IGSF10	3	151166641	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3871	151166641	46855789	1695	55526											
AADAC	13	broad.mit.edu	37	chr3	151542473	151542473	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagattagcacctaagtatCatttcccaattcaatttgaa	15	13	4	9	0	2	2	2	1	0	1	3	2	3	2	2	0	1	2	2	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:151542473C>A	uc003eze.2	+	4	544	c.454C>A	c.(454-456)CAT>AAT	p.H152N		NM_001086	NP_001077	P22760	AAAD_HUMAN	arylacetamide deacetylase	152	Lumenal (Potential).				positive regulation of triglyceride catabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	carboxylesterase activity|deacetylase activity|serine hydrolase activity|triglyceride lipase activity			skin(2)	2		Myeloproliferative disorder(1037;0.0255)|all_neural(597;0.112)	LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			ACCTAAGTATCATTTCCCAAT	0.308													10	19					3.86212e-05	3.96572e-05	1	1	0		A	151542473	A	A	151542473	3	1	89	1	0	0	0	0	1	0	0	0	10	826	29	5	468	5	AADAC	3	151542473	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	375832	151542473	46479957	1696	55527											
TMEM14E	645843	broad.mit.edu	37	chr3	152058590	152058590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagcagaaggggactggacaGaacctacttttgcataacca	14	7	10	10	0	0	2	0	0	0	2	0	4	0	4	2	3	5	2	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:152058590G>A	uc010hvo.2	-	1	190	c.104C>T	c.(103-105)TCT>TTT	p.S35F	MBNL1_uc003ezh.2_Intron|MBNL1_uc003ezi.2_Intron|MBNL1_uc003ezj.2_Intron|MBNL1_uc003ezm.2_Intron|MBNL1_uc003ezl.2_Intron|MBNL1_uc003ezp.2_Intron|MBNL1_uc003ezn.2_Intron|MBNL1_uc003ezo.2_Intron	NM_001123228	NP_001116700	Q6UXP3	TM14E_HUMAN	transmembrane protein 14E	35						integral to membrane					0						GGACTGGACAGAACCTACTTT	0.507													34	60					0	0	1	0	0		A	152058590	A	A	152058590	3	1	89	1	0	0	0	0	1	0	0	0	16091	942	33	4	277	4	TMEM14E	3	152058590	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	516117	152058590	45963840	1697	55528											
DHX36	170506	broad.mit.edu	37	chr3	154002448	154002448	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttcttgcatctgcaatcTtttcttttcccttaaaaata	9	20	2	10	0	5	0	0	0	5	0	6	0	6	0	1	0	2	2	1	0	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:154002448T>G	uc003ezy.3	-	19	2297	c.2216A>C	c.(2215-2217)AAG>ACG	p.K739T	DHX36_uc010hvq.2_Missense_Mutation_p.K725T|DHX36_uc003ezz.3_Intron	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	739						cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			ATCTGCAATCTTTTCTTTTCC	0.313													11	18					0	0	1	0	0		G	154002448	G	G	154002448	3	3	89	1	0	0	0	0	1	0	0	0	4515	1609	56	5	838	5	DHX36	3	154002448	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1943858	154002448	44019982	1698	55529											
DHX36	170506	broad.mit.edu	37	chr3	154002693	154002693	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagtgctccaaaaagaatCatttttccaatatgtggctc	14	12	6	9	0	1	1	1	0	0	1	4	1	3	1	2	1	2	2	2	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:154002693C>A	uc003ezy.3	-	18	2196	c.2115G>T	c.(2113-2115)ATG>ATT	p.M705I	DHX36_uc010hvq.2_Missense_Mutation_p.M691I|DHX36_uc003ezz.3_Missense_Mutation_p.M705I	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	705						cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			CAAAAAGAATCATTTTTCCAA	0.413													34	52					8.53417e-09	9.10905e-09	1	1	0		A	154002693	A	A	154002693	3	1	89	1	0	0	0	0	1	0	0	0	4515	826	29	5	943	5	DHX36	3	154002693	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	245	154002693	44019737	1699	55530											
DHX36	170506	broad.mit.edu	37	chr3	154042185	154042185	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccatcacggccccagttCtgatggtagtcataactcat	9	10	7	15	1	4	1	3	1	1	0	4	1	4	1	4	2	1	2	4	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:154042185C>A	uc003ezy.3	-	1	102	c.21G>T	c.(19-21)CAG>CAT	p.Q7H	DHX36_uc010hvq.2_Missense_Mutation_p.Q7H|DHX36_uc003ezz.3_Missense_Mutation_p.Q7H	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	7						cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			GGCCCCAGTTCTGATGGTAGT	0.657													5	11					0.0215528	0.0216931	1	1	0		A	154042185	A	A	154042185	3	1	89	1	0	0	0	0	1	0	0	0	4515	912	32	5	3105	5	DHX36	3	154042185	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	39492	154042185	43980245	1700	55531											
PLCH1	23007	broad.mit.edu	37	chr3	155282900	155282900	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaggactacgcatgaagttCgtgaagcctttggaagaaag	13	8	13	7	2	0	3	0	2	0	1	1	5	0	5	1	2	2	3	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:155282900C>T	uc011bok.1	-	7	1114	c.837G>A	c.(835-837)ACG>ACA	p.T279T	PLCH1_uc011boj.1_Silent_p.T279T|PLCH1_uc011bol.1_Silent_p.T261T	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	279					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GCATGAAGTTCGTGAAGCCTT	0.423													17	32					0	0	1	0	0		T	155282900	T	T	155282900	2	4	89	1	0	0	0	0	0	0	0	1	12056	871	31	1		1	PLCH1	3	155282900	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1240715	155282900	42739530	1701	55532											
PLCH1	23007	broad.mit.edu	37	chr3	155311814	155311814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaggcctgtgatccaggtgCgggcctcctcggggttggag	4	9	18	10	2	0	2	0	2	0	0	3	3	2	3	4	6	1	1	4	6	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:155311814C>T	uc011bok.1	-	3	627	c.350G>A	c.(349-351)CGC>CAC	p.R117H	PLCH1_uc011boj.1_Missense_Mutation_p.R117H|PLCH1_uc011bol.1_Missense_Mutation_p.R99H	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	117	PH.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GATCCAGGTGCGGGCCTCCTC	0.562													16	42					0	0	1	0	0		T	155311814	T	T	155311814	3	4	89	1	0	0	0	0	1	0	0	0	12056	768	27	1	4830	1	PLCH1	3	155311814	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28914	155311814	42710616	1702	55533											
VEPH1	79674	broad.mit.edu	37	chr3	156983335	156983335	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactttcctttttgaaacaGaagttgatttccagccagtg	11	14	8	8	0	0	4	0	2	0	2	2	4	2	4	3	0	2	1	3	0	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:156983335G>T	uc003fbj.1	-	13	2562	c.2245C>A	c.(2245-2247)CTG>ATG	p.L749M	VEPH1_uc003fbk.1_Missense_Mutation_p.L749M|VEPH1_uc010hvu.1_Missense_Mutation_p.L704M	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	749	PH.					plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			TTTTGAAACAGAAGTTGATTT	0.378													24	67					9.57634e-11	1.04293e-10	1	1	0		T	156983335	T	T	156983335	3	4	89	1	0	0	0	0	1	0	0	0	17180	933	33	5	264	5	VEPH1	3	156983335	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1671521	156983335	41039095	1703	55534											
VEPH1	79674	broad.mit.edu	37	chr3	157081321	157081321	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagttttctttaacagtttCtgacaaattctctgagtcta	10	17	7	7	0	4	2	0	2	4	0	5	3	4	3	0	1	1	2	0	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:157081321C>A	uc003fbj.1	-	9	1884	c.1567G>T	c.(1567-1569)GAA>TAA	p.E523*	VEPH1_uc003fbk.1_Nonsense_Mutation_p.E523*|VEPH1_uc010hvu.1_Nonsense_Mutation_p.E523*	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	523						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			TTAACAGTTTCTGACAAATTC	0.393													15	126					1.3612e-06	1.41942e-06	1	1	0		A	157081321	A	A	157081321	4	1	89	1	0	0	0	0	0	1	0	0	17180	922	32	5	958	5	VEPH1	3	157081321	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	97986	157081321	40941109	1704	55535											
PTX3	5806	broad.mit.edu	37	chr3	157154792	157154792	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagaactcggatgattatGatctcatgtatgtgaatttg	11	14	10	6	2	1	4	1	3	1	1	3	6	1	5	1	1	1	1	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:157154792G>T	uc003fbl.3	+	1	213	c.70G>T	c.(70-72)GAT>TAT	p.D24Y	VEPH1_uc003fbj.1_Intron|VEPH1_uc003fbk.1_Intron|VEPH1_uc010hvu.1_Intron	NM_002852	NP_002843	P26022	PTX3_HUMAN	pentraxin 3 precursor	24					inflammatory response	extracellular region				central_nervous_system(1)	1			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			GGATGATTATGATCTCATGTA	0.458													45	94					2.37825e-27	2.88589e-27	1	1	0		T	157154792	T	T	157154792	3	4	89	1	0	0	0	0	1	0	0	0	12847	1290	45	5	72	5	PTX3	3	157154792	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	73471	157154792	40867638	1705	55536											
VEPH1	79674	broad.mit.edu	37	chr3	157188277	157188277	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtgattcttgtgatacaGatttcaactactgcctggtc	8	16	9	8	0	2	3	1	2	1	1	3	3	2	3	1	1	4	1	1	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:157188277G>T	uc003fbj.1	-	3	497	c.180C>A	c.(178-180)ATC>ATA	p.I60I	VEPH1_uc003fbk.1_Silent_p.I60I|VEPH1_uc010hvu.1_Silent_p.I60I|VEPH1_uc003fbm.2_Silent_p.I60I|VEPH1_uc003fbn.2_Silent_p.I60I	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	60						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			TTGTGATACAGATTTCAACTA	0.413													67	110					5.61366e-43	6.96669e-43	1	1	0		T	157188277	T	T	157188277	2	4	89	1	0	0	0	0	0	0	0	1	17180	932	33	5		5	VEPH1	3	157188277	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	33485	157188277	40834153	1706	55537											
MLF1	4291	broad.mit.edu	37	chr3	158314734	158314734	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaaattagaaagaaacttCgtaagtactaaaaacaaagc	22	7	6	6	1	0	3	0	0	0	3	1	3	0	3	0	0	4	2	0	0	10	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:158314734C>T	uc003fcb.2	+	3	416	c.279C>T	c.(277-279)TTC>TTT	p.F93F	MLF1_uc003fbz.2_Silent_p.F68F|MLF1_uc003fca.2_Silent_p.F68F|MLF1_uc003fbx.2_Silent_p.F83F|MLF1_uc003fcc.2_Silent_p.F124F|MLF1_uc003fby.2_Silent_p.F19F|MLF1_uc010hvx.2_Silent_p.F68F	NM_022443	NP_071888	P58340	MLF1_HUMAN	myeloid leukemia factor 1 isoform 1	93	Interaction with COPS3.				cell cycle arrest|myeloid progenitor cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein domain specific binding				0		Melanoma(1037;0.000458)|Prostate(884;0.0235)|all_neural(597;0.0299)	Lung(72;0.00199)|LUSC - Lung squamous cell carcinoma(72;0.00256)			AAAGAAACTTCGTAAGTACTA	0.254			T	NPM1	AML								5	17					0	0	1	0	0		T	158314734	T	T	158314734	2	4	89	1	0	0	0	0	0	0	0	1	9632	898	31	1		1	MLF1	3	158314734	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1126457	158314734	39707696	1707	55538											
MFSD1	64747	broad.mit.edu	37	chr3	158525240	158525240	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggctgatggaatttggaaGatttgtatttgggtaagtta	10	17	13	1	0	0	2	0	1	0	1	0	4	0	4	0	4	0	4	0	4	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:158525240G>T	uc003fcl.1	+	5	458	c.428G>T	c.(427-429)AGA>ATA	p.R143I	MFSD1_uc003fcm.1_RNA|MFSD1_uc003fcn.1_Missense_Mutation_p.R46I|MFSD1_uc011bow.1_Missense_Mutation_p.R104I|MFSD1_uc011box.1_Missense_Mutation_p.R70I	NM_022736	NP_073573	Q9H3U5	MFSD1_HUMAN	major facilitator superfamily domain containing	143	Helical; (Potential).				transmembrane transport	integral to membrane					0			Lung(72;0.00372)|LUSC - Lung squamous cell carcinoma(72;0.00523)			GAATTTGGAAGATTTGTATTT	0.284													33	88					7.04047e-22	8.37091e-22	1	1	0		T	158525240	T	T	158525240	3	4	89	1	0	0	0	0	1	0	0	0	9545	942	33	5	593	5	MFSD1	3	158525240	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	210506	158525240	39497190	1708	55539											
SMC4	10051	broad.mit.edu	37	chr3	160122287	160122287	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accataatagatttttaattTtacaggtaagtttattaaag	16	17	5	3	0	0	1	0	0	0	1	0	1	0	1	1	1	1	2	1	1	8	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:160122287T>G	uc003fdh.2	+	5	795	c.682T>G	c.(682-684)TTA>GTA	p.L228V	IFT80_uc003fda.2_Intron|SMC4_uc003fdf.1_RNA|SMC4_uc003fdg.1_Missense_Mutation_p.L228V|SMC4_uc010hwc.1_Intron|SMC4_uc003fdi.2_Missense_Mutation_p.L203V|SMC4_uc003fdj.2_Missense_Mutation_p.L228V|SMC4_uc010hwd.2_Missense_Mutation_p.L228V|uc011boz.1_5'Flank|MIR15B_hsa-mir-15b|MI0000438_5'Flank|uc003fdk.2_5'Flank|MIR16-2_hsa-mir-16-2|MI0000115_5'Flank	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	228					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			ATTTTTAATTTTACAGGTAAG	0.303													27	39					0	0	1	0	0		G	160122287	G	G	160122287	3	3	89	1	0	0	0	0	1	0	0	0	14810	1838	64	5	696	5	SMC4	3	160122287	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1597047	160122287	37900143	1709	55540											
SI	6476	broad.mit.edu	37	chr3	164758812	164758812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagggtaataaggtgtagCgaatagttaaatactgcctt	14	11	12	4	1	0	0	0	0	0	0	0	2	0	1	1	3	3	3	1	3	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:164758812C>T	uc003fei.2	-	18	2137	c.2075G>A	c.(2074-2076)CGC>CAC	p.R692H		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	692	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TAAGGTGTAGCGAATAGTTAA	0.373										HNSCC(35;0.089)			44	100					0	0	1	0	0		T	164758812	T	T	164758812	3	4	89	1	0	0	0	0	1	0	0	0	14322	768	27	1	3532	1	SI	3	164758812	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4636525	164758812	33263618	1710	55541											
SI	6476	broad.mit.edu	37	chr3	164758856	164758856	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatttaaccaaaagtgaattCtgcccaaaaaatgcaggatc	17	9	7	8	0	1	1	0	1	1	0	2	3	1	2	2	1	3	1	2	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:164758856C>T	uc003fei.2	-	18	2093	c.2031G>A	c.(2029-2031)CAG>CAA	p.Q677Q		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	677	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	AAAGTGAATTCTGCCCAAAAA	0.338										HNSCC(35;0.089)			47	110					0	0	1	0	0		T	164758856	T	T	164758856	2	4	89	1	0	0	0	0	0	0	0	1	14322	912	32	4		4	SI	3	164758856	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44	164758856	33263574	1711	55542											
ZBBX	79740	broad.mit.edu	37	chr3	167086357	167086357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccattcgcagttcttgaGcatttctgaagacataagat	11	14	7	9	1	3	4	0	2	3	2	5	4	3	4	1	0	1	3	1	0	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:167086357G>A	uc003fep.2	-	5	397	c.74C>T	c.(73-75)GCT>GTT	p.A25V	ZBBX_uc011bpc.1_Missense_Mutation_p.A25V|ZBBX_uc003feq.2_5'UTR	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	25	Potential.					intracellular	zinc ion binding			ovary(2)	2						CAGTTCTTGAGCATTTCTGAA	0.328													24	46					0	0	1	0	0		A	167086357	A	A	167086357	3	1	89	1	0	0	0	0	1	0	0	0	17542	971	34	2	2396	2	ZBBX	3	167086357	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2327501	167086357	30936073	1712	55543											
ZBBX	79740	broad.mit.edu	37	chr3	167090699	167090699	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgttcatgattaccacCttaatattgtctaaaagtta	12	18	4	7	0	3	1	1	1	2	0	3	1	3	1	2	0	1	2	2	0	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:167090699C>A	uc003fep.2	-	4	314	c.-9G>T	c.(-11--7)AAGGT>AATGT		ZBBX_uc011bpc.1_Translation_Start_Site|ZBBX_uc003feq.2_Translation_Start_Site	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing							intracellular	zinc ion binding			ovary(2)	2						TGATTACCACCTTAATATTGT	0.294													12	51					9.31168e-06	9.63026e-06	1	1	0		A	167090699	A	A	167090699	1	1	89	1	0	0	0	0	0	0	0	0	17542	696	24	5		5	ZBBX	3	167090699	Translation_Start_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4342	167090699	30931731	1713	55544											
SERPINI2	5276	broad.mit.edu	37	chr3	167185069	167185069	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacttcagtacaaaaaattcTtcccctagaaaataatttta	17	13	3	8	0	2	1	1	0	1	1	3	2	3	1	2	0	1	1	2	0	9	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:167185069T>G	uc003fer.1	-	2	310	c.252A>C	c.(250-252)GAA>GAC	p.E84D	SERPINI2_uc003fes.1_Missense_Mutation_p.E94D|SERPINI2_uc003fet.1_Missense_Mutation_p.E84D	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),	84					cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						CAAAAAATTCTTCCCCTAGAA	0.323													18	28					0	0	1	0	0		G	167185069	G	G	167185069	3	3	89	1	0	0	0	0	1	0	0	0	14144	1606	56	5	993	5	SERPINI2	3	167185069	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	94370	167185069	30837361	1714	55545											
WDR49	151790	broad.mit.edu	37	chr3	167246875	167246875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttcaaccatccatcaagatCtcctgtggtaaggtatcgat	11	13	7	10	1	3	1	2	0	1	1	6	2	4	1	3	2	1	2	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:167246875C>T	uc003fev.1	-	10	1621	c.1315G>A	c.(1315-1317)GAT>AAT	p.D439N	WDR49_uc003feu.1_Missense_Mutation_p.D264N|WDR49_uc011bpd.1_Missense_Mutation_p.D503N|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	439	WD 7.									large_intestine(1)|ovary(1)|skin(1)	3						CCATCAAGATCTCCTGTGGTA	0.343													13	48					0	0	1	0	0		T	167246875	T	T	167246875	3	4	89	1	0	0	0	0	1	0	0	0	17328	913	32	4	802	4	WDR49	3	167246875	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	61806	167246875	30775555	1715	55546											
WDR49	151790	broad.mit.edu	37	chr3	167293770	167293770	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catggcttttcaccctcttgCtggcttcacttttcattgcc	4	17	6	14	0	4	0	3	0	1	0	4	0	4	0	2	2	2	3	2	2	0	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:167293770C>A	uc003fev.1	-	4	728	c.422G>T	c.(421-423)AGC>ATC	p.S141I	WDR49_uc003feu.1_5'Flank|WDR49_uc011bpd.1_Missense_Mutation_p.S194I|WDR49_uc003few.1_Missense_Mutation_p.S482I	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	141										large_intestine(1)|ovary(1)|skin(1)	3						CACCCTCTTGCTGGCTTCACT	0.408													60	102					2.89935e-36	3.58189e-36	1	1	0		A	167293770	A	A	167293770	3	1	89	1	0	0	0	0	1	0	0	0	17328	797	28	5	1719	5	WDR49	3	167293770	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	46895	167293770	30728660	1716	55547											
GOLIM4	27333	broad.mit.edu	37	chr3	167750634	167750634	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgccacacatcattatttcGagacacctaggccaagcaca	13	8	6	14	1	1	1	1	0	0	1	2	2	1	1	3	1	2	1	3	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:167750634G>A	uc003ffe.2	-	9	1194	c.850C>T	c.(850-852)CGA>TGA	p.R284*	GOLIM4_uc011bpe.1_Nonsense_Mutation_p.R284*|GOLIM4_uc011bpf.1_Nonsense_Mutation_p.R256*|GOLIM4_uc011bpg.1_Nonsense_Mutation_p.R256*	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	284	Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						TCATTATTTCGAGACACCTAG	0.453													36	72					0	0	1	0	0		A	167750634	A	A	167750634	4	1	89	1	0	0	0	0	0	1	0	0	6581	1066	37	1	1272	1	GOLIM4	3	167750634	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	456864	167750634	30271796	1717	55548											
MECOM	2122	broad.mit.edu	37	chr3	168802737	168802737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatagcactggattccgccGcagccctggccatactgtgc	7	8	12	14	2	0	0	0	0	0	0	1	2	1	2	4	3	4	2	4	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:168802737G>A	uc003ffi.3	-	16	3385	c.3116C>T	c.(3115-3117)GCG>GTG	p.A1039V	MECOM_uc010hwk.1_3'UTR|MECOM_uc003ffj.3_Missense_Mutation_p.A1104V|MECOM_uc011bpi.1_Missense_Mutation_p.A1031V|MECOM_uc003ffn.3_Missense_Mutation_p.A1039V|MECOM_uc003ffk.2_Missense_Mutation_p.A1030V|MECOM_uc003ffl.2_Missense_Mutation_p.A1190V|MECOM_uc011bpj.1_Missense_Mutation_p.A1227V|MECOM_uc011bpk.1_Missense_Mutation_p.A1029V	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	1039					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						GGATTCCGCCGCAGCCCTGGC	0.517													48	105					0	0	1	0	0		A	168802737	A	A	168802737	3	1	89	1	0	0	0	0	1	0	0	0	9440	1087	38	1	43	1	MECOM	3	168802737	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1052103	168802737	29219693	1718	55549											
ARPM1	84517	broad.mit.edu	37	chr3	169485577	169485577	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagaagagggcctctggAcaagaaaagagctggtcatg	14	5	16	6	0	2	4	1	0	1	4	2	7	2	6	1	4	1	1	1	4	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:169485577A>G	uc003ffs.1	-	2	1137	c.762T>C	c.(760-762)TGT>TGC	p.C254C	TERC_uc003ffr.1_5'Flank	NM_032487	NP_115876	Q9BYD9	ARPM1_HUMAN	actin related protein M1	254						cytoplasm|cytoskeleton					0	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;5.01e-59)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			GGGCCTCTGGACAAGAAAAGA	0.473													41	83					0	0	1	0	0		G	169485577	G	G	169485577	2	3	89	1	0	0	0	0	0	0	0	1	977	273	10	3		3	ARPM1	3	169485577	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	682840	169485577	28536853	1719	55550											
MYNN	55892	broad.mit.edu	37	chr3	169496751	169496751	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagattataataatcgagaGaaatcagaagtatctacaga	19	9	8	5	2	2	4	1	0	1	4	3	7	2	4	0	0	1	1	0	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:169496751G>T	uc003fft.2	+	3	891	c.462G>T	c.(460-462)GAG>GAT	p.E154D	MYNN_uc011bpm.1_Missense_Mutation_p.E40D|MYNN_uc003ffu.2_Missense_Mutation_p.E154D|MYNN_uc003ffv.2_5'UTR|MYNN_uc010hwo.2_Missense_Mutation_p.E154D|MYNN_uc003ffw.1_RNA	NM_018657	NP_061127	Q9NPC7	MYNN_HUMAN	myoneurin	154						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;2.19e-58)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			ATAATCGAGAGAAATCAGAAG	0.353													12	46					2.80697e-09	3.01096e-09	1	1	0		T	169496751	T	T	169496751	3	4	89	1	0	0	0	0	1	0	0	0	10079	933	33	5	468	5	MYNN	3	169496751	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11174	169496751	28525679	1720	55551											
LRRC34	151827	broad.mit.edu	37	chr3	169513321	169513321	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaaatgtagatatgagaGaaagtgagatttgttttcat	14	13	9	5	0	1	4	1	2	0	3	1	6	1	4	2	0	0	2	2	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:169513321G>T	uc003ffx.2	-	9	1023	c.1008C>A	c.(1006-1008)TTC>TTA	p.F336L	LRRC34_uc003ffy.2_Missense_Mutation_p.F368L|LRRC34_uc011bpn.1_3'UTR|LRRC34_uc003ffz.2_Missense_Mutation_p.F320L|LRRC34_uc003fga.3_3'UTR	NM_153353	NP_699184	Q8IZ02	LRC34_HUMAN	leucine rich repeat containing 34	336											0	all_cancers(22;4.12e-22)|all_epithelial(15;7.54e-27)|all_lung(20;1.63e-16)|Lung NSC(18;6.92e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			AGATATGAGAGAAAGTGAGAT	0.373													17	39					1.5739e-10	1.71181e-10	1	1	0		T	169513321	T	T	169513321	3	4	89	1	0	0	0	0	1	0	0	0	9007	933	33	5	259	5	LRRC34	3	169513321	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16570	169513321	28509109	1721	55552											
LRRC34	151827	broad.mit.edu	37	chr3	169525227	169525227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataatacctgaagcagtttcGcagcatagtatgcaccaaca	15	9	7	10	1	0	1	0	1	0	0	1	1	0	1	2	0	5	6	2	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:169525227G>A	uc003ffx.2	-	4	407	c.392C>T	c.(391-393)GCG>GTG	p.A131V	LRRC34_uc003ffy.2_Missense_Mutation_p.A131V|LRRC34_uc011bpn.1_Missense_Mutation_p.A131V|LRRC34_uc003ffz.2_Missense_Mutation_p.A83V|LRRC34_uc003fga.3_Missense_Mutation_p.A83V	NM_153353	NP_699184	Q8IZ02	LRC34_HUMAN	leucine rich repeat containing 34	131											0	all_cancers(22;4.12e-22)|all_epithelial(15;7.54e-27)|all_lung(20;1.63e-16)|Lung NSC(18;6.92e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			AAGCAGTTTCGCAGCATAGTA	0.328													37	52					0	0	1	0	0		A	169525227	A	A	169525227	3	1	89	1	0	0	0	0	1	0	0	0	9007	1087	38	1	1017	1	LRRC34	3	169525227	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11906	169525227	28497203	1722	55553											
LRRC34	151827	broad.mit.edu	37	chr3	169525456	169525456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctttctactggcactaagCgattgttaccagcaatgttt	9	15	7	10	1	2	0	0	0	2	0	2	1	2	0	1	1	4	4	1	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:169525456C>T	uc003ffx.2	-	3	275	c.260G>A	c.(259-261)CGC>CAC	p.R87H	LRRC34_uc003ffy.2_Missense_Mutation_p.R87H|LRRC34_uc011bpn.1_Missense_Mutation_p.R87H|LRRC34_uc003ffz.2_Missense_Mutation_p.R39H|LRRC34_uc003fga.3_Missense_Mutation_p.R39H	NM_153353	NP_699184	Q8IZ02	LRC34_HUMAN	leucine rich repeat containing 34	87											0	all_cancers(22;4.12e-22)|all_epithelial(15;7.54e-27)|all_lung(20;1.63e-16)|Lung NSC(18;6.92e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			TGGCACTAAGCGATTGTTACC	0.289													23	37					0	0	1	0	0		T	169525456	T	T	169525456	3	4	89	1	0	0	0	0	1	0	0	0	9007	768	27	1	1153	1	LRRC34	3	169525456	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	229	169525456	28496974	1723	55554											
LRRIQ4	344657	broad.mit.edu	37	chr3	169539922	169539922	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagattcagcgtttaaaGaacatcagggtcctctacct	12	10	9	10	1	3	2	2	0	1	2	4	3	4	2	2	2	3	1	2	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:169539922G>T	uc003fgb.2	+	1	213	c.213G>T	c.(211-213)AAG>AAT	p.K71N		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	71											0						AGCGTTTAAAGAACATCAGGG	0.502													40	91					7.04047e-22	8.37091e-22	1	1	0		T	169539922	T	T	169539922	3	4	89	1	0	0	0	0	1	0	0	0	9049	933	33	5	215	5	LRRIQ4	3	169539922	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14466	169539922	28482508	1724	55555											
GPR160	26996	broad.mit.edu	37	chr3	169801785	169801785	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctctctcttcagagaacTgctcttttcagtaccagtta	8	15	6	12	0	5	1	2	0	3	1	6	2	5	1	1	0	4	4	1	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:169801785T>C	uc003fgi.2	+	4	615	c.25T>C	c.(25-27)TGC>CGC	p.C9R	GPR160_uc010hwq.2_Missense_Mutation_p.C9R	NM_014373	NP_055188	Q9UJ42	GP160_HUMAN	G protein-coupled receptor 160	9	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_cancers(22;3.26e-22)|all_epithelial(15;5.71e-27)|all_lung(20;8.41e-17)|Lung NSC(18;3.49e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			TTCAGAGAACTGCTCTTTTCA	0.348													29	86					0	0	1	0	0		C	169801785	C	C	169801785	3	2	89	1	0	0	0	0	1	0	0	0	6679	1580	55	3	27	3	GPR160	3	169801785	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	261863	169801785	28220645	1725	55556											
RPL22L1	200916	broad.mit.edu	37	chr3	170584266	170584266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccactcgaagccaatcaCgaagattgttcttcttaagg	13	10	7	11	2	3	1	1	0	2	1	4	3	3	1	2	1	2	1	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:170584266C>T	uc003fhc.3	-	4	361	c.272G>A	c.(271-273)CGT>CAT	p.R91H	RPL22L1_uc003fhb.3_RNA	NM_001099645	NP_001093115	Q6P5R6	RL22L_HUMAN	ribosomal protein L22-like 1	91					translation	ribosome	structural constituent of ribosome				0	all_cancers(22;1.96e-19)|all_lung(20;1.59e-15)|Lung NSC(18;7.08e-15)|Ovarian(172;0.00197)|Breast(254;0.137)		LUSC - Lung squamous cell carcinoma(14;1.1e-14)|Lung(28;2.99e-14)			AAGCCAATCACGAAGATTGTT	0.348													4	4					0	0	1	0	0		T	170584266	T	T	170584266	3	4	89	1	0	0	0	0	1	0	0	0	13594	536	19	1	100	1	RPL22L1	3	170584266	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	782481	170584266	27438164	1726	55557											
TNIK	23043	broad.mit.edu	37	chr3	170797352	170797352	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtccccaacagtgatccAgccttgtttcttttctactt	8	15	5	13	0	2	1	0	1	2	0	4	1	4	1	4	0	3	1	4	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:170797352A>G	uc003fhh.2	-	28	3748	c.3403T>C	c.(3403-3405)TGG>CGG	p.W1135R	TNIK_uc003fhi.2_Missense_Mutation_p.W1080R|TNIK_uc003fhj.2_Missense_Mutation_p.W1106R|TNIK_uc003fhk.2_Missense_Mutation_p.W1127R|TNIK_uc003fhl.2_Missense_Mutation_p.W1051R|TNIK_uc003fhm.2_Missense_Mutation_p.W1072R|TNIK_uc003fhn.2_Missense_Mutation_p.W1098R|TNIK_uc003fho.2_Missense_Mutation_p.W1043R|TNIK_uc003fhg.2_Missense_Mutation_p.W313R|TNIK_uc003fhp.2_Missense_Mutation_p.W67R	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	1135	CNH.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			ACAGTGATCCAGCCTTGTTTC	0.353													6	36					0	0	1	0	0		G	170797352	G	G	170797352	3	3	89	1	0	0	0	0	1	0	0	0	16338	188	7	3	703	3	TNIK	3	170797352	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	213086	170797352	27225078	1727	55558											
TNIK	23043	broad.mit.edu	37	chr3	170805225	170805225	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggctctgctgcaccaggTcagggaggttgatgtggcca	8	9	15	9	0	2	1	1	1	1	0	2	2	2	2	2	5	2	4	2	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:170805225T>C	uc003fhh.2	-	24	3137	c.2792A>G	c.(2791-2793)GAC>GGC	p.D931G	TNIK_uc003fhi.2_Missense_Mutation_p.D876G|TNIK_uc003fhj.2_Missense_Mutation_p.D902G|TNIK_uc003fhk.2_Missense_Mutation_p.D923G|TNIK_uc003fhl.2_Missense_Mutation_p.D847G|TNIK_uc003fhm.2_Missense_Mutation_p.D868G|TNIK_uc003fhn.2_Missense_Mutation_p.D894G|TNIK_uc003fho.2_Missense_Mutation_p.D839G|TNIK_uc003fhg.2_Missense_Mutation_p.D109G	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	931	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			CTGCACCAGGTCAGGGAGGTT	0.587													34	89					0	0	1	0	0		C	170805225	C	C	170805225	3	2	89	1	0	0	0	0	1	0	0	0	16338	1667	58	3	1330	3	TNIK	3	170805225	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	7873	170805225	27217205	1728	55559											
TNIK	23043	broad.mit.edu	37	chr3	171087468	171087468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccaattcaaagatccctgCggggtcctgaaagaaaataa	16	7	8	10	1	1	3	1	1	0	2	3	3	3	3	3	2	1	0	3	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:171087468C>T	uc003fhh.2	-	2	409	c.64G>A	c.(64-66)GCA>ACA	p.A22T	TNIK_uc003fhi.2_Missense_Mutation_p.A22T|TNIK_uc003fhj.2_Missense_Mutation_p.A22T|TNIK_uc003fhk.2_Missense_Mutation_p.A22T|TNIK_uc003fhl.2_Missense_Mutation_p.A22T|TNIK_uc003fhm.2_Missense_Mutation_p.A22T|TNIK_uc003fhn.2_Missense_Mutation_p.A22T|TNIK_uc003fho.2_Missense_Mutation_p.A22T|TNIK_uc003fhq.2_RNA	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	22					actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			AAGATCCCTGCGGGGTCCTGA	0.338													4	5					0	0	1	0	0		T	171087468	T	T	171087468	3	4	89	1	0	0	0	0	1	0	0	0	16338	768	27	1	4146	1	TNIK	3	171087468	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	282243	171087468	26934962	1729	55560											
PLD1	5337	broad.mit.edu	37	chr3	171427395	171427395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagcagcatatgacccaaatCgatgatctttgagaaagttg	14	11	9	7	1	1	3	0	3	1	1	2	5	1	3	1	0	2	3	1	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:171427395C>T	uc003fhs.2	-	10	1132	c.1016G>A	c.(1015-1017)CGA>CAA	p.R339Q	PLD1_uc003fht.2_Missense_Mutation_p.R339Q	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	339					cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	TGACCCAAATCGATGATCTTT	0.393													37	104					0	0	1	0	0		T	171427395	T	T	171427395	3	4	89	1	0	0	0	0	1	0	0	0	12064	884	31	1	2280	1	PLD1	3	171427395	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	339927	171427395	26595035	1730	55561											
PLD1	5337	broad.mit.edu	37	chr3	171453312	171453312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaatggggatgcggataaagGctttgtacttgagcagctct	10	11	14	6	1	1	1	0	1	1	0	1	4	1	3	0	4	4	4	0	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:171453312G>A	uc003fhs.2	-	4	520	c.404C>T	c.(403-405)GCC>GTC	p.A135V	PLD1_uc003fht.2_Missense_Mutation_p.A135V	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	135	PX.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	GCGGATAAAGGCTTTGTACTT	0.333													26	79					0	0	1	0	0		A	171453312	A	A	171453312	3	1	89	1	0	0	0	0	1	0	0	0	12064	1203	42	2	2916	2	PLD1	3	171453312	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	25917	171453312	26569118	1731	55562											
ECT2	1894	broad.mit.edu	37	chr3	172491704	172491704	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatttagttatttcaagtAccattggaagaggaaggaca	14	12	9	6	0	2	1	2	0	0	1	2	4	2	4	1	3	1	2	1	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:172491704A>C	uc003fii.2	+	13	1485	c.1347A>C	c.(1345-1347)GTA>GTC	p.V449V	ECT2_uc010hwv.1_Silent_p.V480V|ECT2_uc003fih.2_Silent_p.V448V|ECT2_uc003fij.1_Silent_p.V449V|ECT2_uc003fik.1_Silent_p.V449V|ECT2_uc003fil.1_Silent_p.V480V	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	449	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			TATTTCAAGTACCATTGGAAG	0.363													17	46					0	0	1	0	0		C	172491704	C	C	172491704	2	2	89	1	0	0	0	0	0	0	0	1	4907	378	14	5		5	ECT2	3	172491704	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1038392	172491704	25530726	1732	55563											
ECT2	1894	broad.mit.edu	37	chr3	172520655	172520655	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcaacctatacaggctaAtcttttatcttctcaccgaa	11	16	3	11	1	4	0	2	0	3	0	5	1	4	0	2	1	2	1	2	1	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:172520655A>C	uc003fii.2	+	19	2036	c.1898A>C	c.(1897-1899)AAT>ACT	p.N633T	ECT2_uc010hwv.1_Missense_Mutation_p.N664T|ECT2_uc003fih.2_Missense_Mutation_p.N632T|ECT2_uc003fij.1_Missense_Mutation_p.N633T|ECT2_uc003fik.1_Missense_Mutation_p.N633T|ECT2_uc003fil.1_Missense_Mutation_p.N664T|ECT2_uc003fim.1_5'UTR	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	633					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			ATACAGGCTAATCTTTTATCT	0.353													14	49					0	0	1	0	0		C	172520655	C	C	172520655	3	2	89	1	0	0	0	0	1	0	0	0	4907	101	4	5	1968	5	ECT2	3	172520655	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	28951	172520655	25501775	1733	55564											
NLGN1	22871	broad.mit.edu	37	chr3	173996827	173996827	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagaacttgttgaccaaGatattcaaccagctcgatac	16	9	6	10	1	1	3	1	1	0	2	2	4	1	3	2	0	4	2	2	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:173996827G>T	uc003fio.1	+	6	1459	c.1036G>T	c.(1036-1038)GAT>TAT	p.D346Y	NLGN1_uc010hww.1_Missense_Mutation_p.D386Y|NLGN1_uc003fip.1_Missense_Mutation_p.D346Y	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	363	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TGTTGACCAAGATATTCAACC	0.428													83	166					1.32764e-51	1.65214e-51	1	1	0		T	173996827	T	T	173996827	3	4	89	1	0	0	0	0	1	0	0	0	10480	942	33	5	1050	5	NLGN1	3	173996827	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1476172	173996827	24025603	1734	55565											
PIK3CA	5290	broad.mit.edu	37	chr3	178921553	178921553	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtgcaacctacgtgaaTgtaaatattcgagacattga	13	13	8	7	2	0	3	0	2	0	1	1	4	0	3	1	0	3	2	1	0	6	6	rs121913284		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:178921553T>A	uc003fjk.2	+	5	1192	c.1035T>A	c.(1033-1035)AAT>AAA	p.N345K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	345					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.N345K(29)|p.N345I(2)|p.N345S(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			CCTACGTGAATGTAAATATTC	0.308		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			28	70					0	0	1	0	0		A	178921553	A	A	178921553	3	1	89	1	0	0	0	0	1	0	0	0	11932	1461	51	5	1049	5	PIK3CA	3	178921553	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4924726	178921553	19100877	1735	55566											
ZNF639	51193	broad.mit.edu	37	chr3	179047499	179047499	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgagacagccagatttaaAatattttgacaacaaaggta	18	11	7	5	0	0	3	0	2	0	2	0	4	0	3	1	1	2	1	1	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:179047499A>C	uc003fjq.1	+	4	495	c.152A>C	c.(151-153)AAA>ACA	p.K51T	ZNF639_uc003fjr.1_Missense_Mutation_p.K51T	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	51					initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			CCAGATTTAAAATATTTTGAC	0.299													10	145					0	0	1	0	0		C	179047499	C	C	179047499	3	2	89	1	0	0	0	0	1	0	0	0	18081	14	1	5	158	5	ZNF639	3	179047499	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	125946	179047499	18974931	1736	55567											
ZNF639	51193	broad.mit.edu	37	chr3	179051273	179051273	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgaagaaccgccagctaAactttgtaaaattcttgaca	15	11	7	8	1	1	4	0	3	1	1	1	4	1	4	2	0	3	2	2	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:179051273A>C	uc003fjq.1	+	6	864	c.521A>C	c.(520-522)AAA>ACA	p.K174T	ZNF639_uc003fjr.1_Missense_Mutation_p.K174T	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	174					initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			CCGCCAGCTAAACTTTGTAAA	0.418													38	56					0	0	1	0	0		C	179051273	C	C	179051273	3	2	89	1	0	0	0	0	1	0	0	0	18081	14	1	5	535	5	ZNF639	3	179051273	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3774	179051273	18971157	1737	55568											
MFN1	55669	broad.mit.edu	37	chr3	179066690	179066690	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgtgctggctaagaaggcGattactgcaatctttgacca	10	13	10	8	1	1	2	0	1	1	1	1	3	1	2	1	2	3	3	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:179066690G>A	uc003fjs.2	+	2	177	c.51G>A	c.(49-51)GCG>GCA	p.A17A	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Silent_p.A45A	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	17	Cytoplasmic (Potential).			A -> G (in Ref. 1; AAK06840).	mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			CTAAGAAGGCGATTACTGCAA	0.378													72	140					0	0	1	0	0		A	179066690	A	A	179066690	2	1	89	1	0	0	0	0	0	0	0	1	9541	1045	37	1		1	MFN1	3	179066690	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	15417	179066690	18955740	1738	55569											
MFN1	55669	broad.mit.edu	37	chr3	179082099	179082099	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattagtccaggcacagatgTcactacagagctggatagct	12	9	10	10	0	1	2	1	0	0	2	2	3	2	3	1	2	3	3	1	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:179082099T>G	uc003fjs.2	+	6	677	c.551T>G	c.(550-552)GTC>GGC	p.V184G	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Missense_Mutation_p.V212G|MFN1_uc010hxc.2_Missense_Mutation_p.V37G	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	184	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			GGCACAGATGTCACTACAGAG	0.323													17	39					0	0	1	0	0		G	179082099	G	G	179082099	3	3	89	1	0	0	0	0	1	0	0	0	9541	1667	58	5	569	5	MFN1	3	179082099	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15409	179082099	18940331	1739	55570											
MFN1	55669	broad.mit.edu	37	chr3	179096507	179096507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcaagaggatattgtatttCctttttccctgggctggtct	6	18	9	8	0	2	1	1	0	1	1	4	2	4	2	2	3	0	2	2	3	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:179096507C>T	uc003fjs.2	+	14	1693	c.1567C>T	c.(1567-1569)CGT>TGT	p.R523C	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Missense_Mutation_p.P551S|MFN1_uc010hxc.2_Intron	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	523	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			TATTGTATTTCCTTTTTCCCT	0.388													24	34					0	0	1	0	0		T	179096507	T	T	179096507	3	4	89	1	0	0	0	0	1	0	0	0	9541	855	30	4	1617	4	MFN1	3	179096507	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14408	179096507	18925923	1740	55571											
GNB4	59345	broad.mit.edu	37	chr3	179132743	179132743	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttaagttatatatagagcaGatgttgtccaagcctccaca	13	13	7	8	0	0	2	0	0	0	2	2	2	2	2	3	0	2	3	3	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:179132743G>A	uc003fjv.3	-	6	640	c.360C>T	c.(358-360)ATC>ATT	p.I120I	GNB4_uc003fju.3_Silent_p.I31I	NM_021629	NP_067642	Q9HAV0	GBB4_HUMAN	guanine nucleotide-binding protein, beta-4	120	WD 2.				cellular response to glucagon stimulus|energy reserve metabolic process	plasma membrane	signal transducer activity			skin(2)	2	all_cancers(143;2.01e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.237)			ATATAGAGCAGATGTTGTCCA	0.473													84	166					0	0	1	0	0		A	179132743	A	A	179132743	2	1	89	1	0	0	0	0	0	0	0	1	6535	932	33	4		4	GNB4	3	179132743	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	36236	179132743	18889687	1741	55572											
MRPL47	57129	broad.mit.edu	37	chr3	179306726	179306726	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaaaagaatttttgctttCtttctctctaaattttcctt	9	23	2	7	0	3	1	0	0	3	1	5	1	4	1	1	0	1	1	1	0	5	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:179306726C>A	uc003fjz.2	-	7	709	c.687G>T	c.(685-687)AAG>AAT	p.K229N	MRPL47_uc003fka.2_Missense_Mutation_p.K119N|MRPL47_uc003fkb.2_Missense_Mutation_p.K209N	NM_020409	NP_065142	Q9HD33	RM47_HUMAN	mitochondrial ribosomal protein L47 isoform a	229					translation	mitochondrial ribosome	structural constituent of ribosome				0	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)			TTTTTGCTTTCTTTCTCTCTA	0.323													38	53					2.75727e-19	3.2379e-19	1	1	0		A	179306726	A	A	179306726	3	1	89	1	0	0	0	0	1	0	0	0	9829	912	32	5	69	5	MRPL47	3	179306726	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	173983	179306726	18715704	1742	55573											
NDUFB5	4711	broad.mit.edu	37	chr3	179341795	179341795	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaattgacaaggaacttatTgatcattctccgaaagcaac	16	10	6	9	1	2	2	1	2	1	0	3	4	2	3	1	1	3	1	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:179341795T>G	uc003fkc.2	+	6	566	c.537T>G	c.(535-537)ATT>ATG	p.I179M	NDUFB5_uc003fkd.2_RNA|NDUFB5_uc003fke.2_Missense_Mutation_p.I127M	NM_002492	NP_002483	O43674	NDUB5_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	179					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			skin(1)	1	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)		NADH(DB00157)	AGGAACTTATTGATCATTCTC	0.338													36	74					0	0	1	0	0		G	179341795	G	G	179341795	3	3	89	1	0	0	0	0	1	0	0	0	10303	1800	63	5	559	5	NDUFB5	3	179341795	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	35069	179341795	18680635	1743	55574											
CCDC39	339829	broad.mit.edu	37	chr3	180366038	180366038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgtttcagagaggaacgaGttccttcaatttctgataaa	13	13	9	6	1	3	2	2	1	1	1	4	6	4	3	1	1	1	2	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:180366038G>A	uc010hxe.2	-	10	1392	c.1277C>T	c.(1276-1278)ACT>ATT	p.T426I	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	426	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AGAGGAACGAGTTCCTTCAAT	0.368													40	53					0	0	1	0	0		A	180366038	A	A	180366038	3	1	89	1	0	0	0	0	1	0	0	0	2814	1029	36	4	1592	4	CCDC39	3	180366038	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1024243	180366038	17656392	1744	55575											
ATP11B	23200	broad.mit.edu	37	chr3	182635851	182635851	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctataccaacgacaggAgcatcttgactctctccaca	11	11	5	14	1	3	1	0	1	3	0	5	3	4	2	2	1	3	1	2	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:182635851A>G	uc003flb.2	+	30	3750	c.3493A>G	c.(3493-3495)AGC>GGC	p.S1165G	ATP11B_uc010hxg.2_RNA	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	1165	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			CAACGACAGGAGCATCTTGAC	0.413													41	78					0	0	1	0	0		G	182635851	G	G	182635851	3	3	89	1	0	0	0	0	1	0	0	0	1121	304	11	3	3611	3	ATP11B	3	182635851	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2269813	182635851	15386579	1745	55576											
DCUN1D1	54165	broad.mit.edu	37	chr3	182679035	182679035	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatcctttttgtcctggatTctttgcaaaattaaaagtaa	13	17	5	6	0	1	0	0	0	1	0	3	1	3	1	2	1	1	2	2	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:182679035T>C	uc003fld.1	-	4	548	c.499A>G	c.(499-501)AAT>GAT	p.N167D	DCUN1D1_uc011bqn.1_Missense_Mutation_p.N24D	NM_020640	NP_065691	Q96GG9	DCNL1_HUMAN	RP42 homolog	167	DCUN1.					ubiquitin ligase complex	protein binding			ovary(1)	1	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;2.54e-44)|Epithelial(37;4.71e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			TGTCCTGGATTCTTTGCAAAA	0.299													99	182					0	0	1	0	0		C	182679035	C	C	182679035	3	2	89	1	0	0	0	0	1	0	0	0	4316	1783	62	3	296	3	DCUN1D1	3	182679035	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	43184	182679035	15343395	1746	55577											
DCUN1D1	54165	broad.mit.edu	37	chr3	182681709	182681709	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgaactcctgtttggagaActcgcactgtgttgctgctc	7	13	10	11	1	0	2	0	1	0	1	3	3	1	2	1	1	4	5	1	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:182681709A>G	uc003fld.1	-	3	398	c.349T>C	c.(349-351)TTC>CTC	p.F117L	DCUN1D1_uc011bqn.1_Intron	NM_020640	NP_065691	Q96GG9	DCNL1_HUMAN	RP42 homolog	117	DCUN1.					ubiquitin ligase complex	protein binding			ovary(1)	1	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;2.54e-44)|Epithelial(37;4.71e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			TGTTTGGAGAACTCGCACTGT	0.423													27	71					0	0	1	0	0		G	182681709	G	G	182681709	3	3	89	1	0	0	0	0	1	0	0	0	4316	43	2	3	450	3	DCUN1D1	3	182681709	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2674	182681709	15340721	1747	55578											
MCF2L2	23101	broad.mit.edu	37	chr3	182946141	182946141	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcacacttttccaactCttttagaaaagtcctagaaa	14	12	4	11	0	2	2	1	0	1	2	4	2	4	2	2	0	2	1	2	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:182946141C>A	uc003fli.1	-	18	2149	c.2059G>T	c.(2059-2061)GAG>TAG	p.E687*	MCF2L2_uc003flj.1_Nonsense_Mutation_p.E687*	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	687	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TTTTCCAACTCTTTTAGAAAA	0.323													23	46					2.48779e-11	2.72679e-11	1	1	0		A	182946141	A	A	182946141	4	1	89	1	0	0	0	0	0	1	0	0	9398	922	32	5	1337	5	MCF2L2	3	182946141	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	264432	182946141	15076289	1748	55579											
B3GNT5	84002	broad.mit.edu	37	chr3	182988416	182988416	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcacagacactaaattCaagtctttacatagacgatg	15	10	7	9	1	3	2	2	0	1	2	3	3	3	2	0	1	1	1	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:182988416C>A	uc003flk.2	+	2	1360	c.830C>A	c.(829-831)TCA>TAA	p.S277*	MCF2L2_uc003fli.1_Intron|MCF2L2_uc003flj.1_Intron|MCF2L2_uc011bqr.1_Intron|B3GNT5_uc003fll.2_Nonsense_Mutation_p.S277*|B3GNT5_uc003flm.2_Nonsense_Mutation_p.S277*	NM_032047	NP_114436	Q9BYG0	B3GN5_HUMAN	UDP-GlcNAc:betaGal	277	Lumenal (Potential).				central nervous system development|glycolipid biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	beta-galactosyl-N-acetylglucosaminylgalactosylglucosyl-ceramide beta-1,3-acetylglucosaminyltransferase activity|galactosyltransferase activity			ovary(1)	1	all_cancers(143;8.52e-13)|Ovarian(172;0.0355)		all cancers(12;4.52e-44)|Epithelial(37;8.82e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			ACACTAAATTCAAGTCTTTAC	0.468													28	64					9.80776e-20	1.15405e-19	1	1	0		A	182988416	A	A	182988416	4	1	89	1	0	0	0	0	0	1	0	0	1261	838	29	5	832	5	B3GNT5	3	182988416	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	42275	182988416	15034014	1749	55580											
KLHL6	89857	broad.mit.edu	37	chr3	183273245	183273245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtcagagcgttttccattCgcagggtttccaggccattc	6	13	10	12	2	1	1	1	0	0	1	5	1	3	1	3	2	1	3	3	2	0	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:183273245C>T	uc003flr.2	-	1	255	c.197G>A	c.(196-198)CGA>CAA	p.R66Q	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_Missense_Mutation_p.R64Q	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	66										haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			GTTTTCCATTCGCAGGGTTTC	0.493													69	123					0	0	1	0	0		T	183273245	T	T	183273245	3	4	89	1	0	0	0	0	1	0	0	0	8409	884	31	1	1696	1	KLHL6	3	183273245	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	284829	183273245	14749185	1750	55581											
YEATS2	55689	broad.mit.edu	37	chr3	183528314	183528314	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaggccatttgcaacatTccttttctggacttcctcac	8	13	5	15	0	2	0	1	0	1	0	4	1	4	1	4	2	2	1	4	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:183528314T>C	uc003fly.2	+	31	4407	c.4212T>C	c.(4210-4212)ATT>ATC	p.I1404I		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	1404					histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TTTGCAACATTCCTTTTCTGG	0.448													15	41					0	0	1	0	0		C	183528314	C	C	183528314	2	2	89	1	0	0	0	0	0	0	0	1	17498	1771	62	3		3	YEATS2	3	183528314	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	255069	183528314	14494116	1751	55582											
EIF2B5	8893	broad.mit.edu	37	chr3	183854515	183854515	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagctgctcaaatcaaagAacatttactgtaaggccctg	15	9	8	9	0	2	1	2	0	0	1	2	2	2	1	1	1	4	3	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:183854515A>C	uc003fmp.2	+	2	675	c.311A>C	c.(310-312)GAA>GCA	p.E104A	EIF2B5_uc010hxs.2_Missense_Mutation_p.E104A|EIF2B5_uc003fmq.2_5'UTR	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	104					astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			CAAATCAAAGAACATTTACTG	0.413													78	183					0	0	1	0	0		C	183854515	C	C	183854515	3	2	89	1	0	0	0	0	1	0	0	0	5010	246	9	5	317	5	EIF2B5	3	183854515	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	326201	183854515	14167915	1752	55583											
EIF2B5	8893	broad.mit.edu	37	chr3	183856022	183856022	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggattgtcatatcagcatCtgttctcctcaggtgagctc	7	14	9	11	0	5	1	3	1	2	0	7	2	5	2	1	2	2	3	1	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:183856022C>A	uc003fmp.2	+	5	1117	c.753C>A	c.(751-753)ATC>ATA	p.I251I	EIF2B5_uc003fmq.2_Translation_Start_Site	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	251					astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			ATATCAGCATCTGTTCTCCTC	0.473													26	48					5.45727e-16	6.24559e-16	1	1	0		A	183856022	A	A	183856022	2	1	89	1	0	0	0	0	0	0	0	1	5010	903	32	5		5	EIF2B5	3	183856022	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1507	183856022	14166408	1753	55584											
DVL3	1857	broad.mit.edu	37	chr3	183884050	183884050	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagccaggagatatgttgttAcaggtatcagtgcccatcct	10	11	11	9	0	1	1	1	0	0	1	2	3	2	1	3	2	3	3	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:183884050A>G	uc003fms.2	+	8	1040	c.900A>G	c.(898-900)TTA>TTG	p.L300L	DVL3_uc011bqw.1_Silent_p.L300L|DVL3_uc003fmt.2_5'UTR|DVL3_uc003fmu.2_Silent_p.L132L	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	300	PDZ.				canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			ATATGTTGTTACAGGTATCAG	0.577													34	76					0	0	1	0	0		G	183884050	G	G	183884050	2	3	89	1	0	0	0	0	0	0	0	1	4843	388	14	3		3	DVL3	3	183884050	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	28028	183884050	14138380	1754	55585											
EIF4G1	1981	broad.mit.edu	37	chr3	184041688	184041688	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgcctcaaaggggtcattGacctcatttttgagaaggcc	11	10	10	10	1	3	2	3	2	0	1	3	3	3	2	3	3	1	0	3	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:184041688G>T	uc003fnp.2	+	16	2593	c.2395G>T	c.(2395-2397)GAC>TAC	p.D799Y	EIF4G1_uc003fno.1_Missense_Mutation_p.D740Y|EIF4G1_uc010hxw.1_Missense_Mutation_p.D635Y|EIF4G1_uc003fnt.2_Missense_Mutation_p.D510Y|EIF4G1_uc003fnq.2_Missense_Mutation_p.D712Y|EIF4G1_uc003fnr.2_Missense_Mutation_p.D635Y|EIF4G1_uc010hxx.2_Missense_Mutation_p.D806Y|EIF4G1_uc003fns.2_Missense_Mutation_p.D759Y|EIF4G1_uc010hxy.2_Missense_Mutation_p.D806Y|EIF4G1_uc003fnv.3_Missense_Mutation_p.D800Y|EIF4G1_uc003fnu.3_Missense_Mutation_p.D799Y|EIF4G1_uc003fnw.2_Missense_Mutation_p.D806Y|EIF4G1_uc003fnx.2_Missense_Mutation_p.D604Y|EIF4G1_uc003fny.3_Missense_Mutation_p.D603Y|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	799	eIF3/EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGGGGTCATTGACCTCATTTT	0.522													42	75					3.68427e-32	4.51887e-32	1	1	0		T	184041688	T	T	184041688	3	4	89	1	0	0	0	0	1	0	0	0	5044	1290	45	5	2449	5	EIF4G1	3	184041688	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	157638	184041688	13980742	1755	55586											
THPO	7066	broad.mit.edu	37	chr3	184090679	184090679	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttcagcagaccaggaatCttggctctgaatccctgctg	8	11	11	11	0	3	2	1	1	2	1	4	3	4	3	2	3	2	4	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:184090679C>A	uc003fol.1	-	6	899	c.684G>T	c.(682-684)AAG>AAT	p.K228N	THPO_uc003fom.1_Missense_Mutation_p.K224N|THPO_uc003fon.2_Missense_Mutation_p.D190Y|THPO_uc011bro.1_Missense_Mutation_p.D186Y|THPO_uc003fop.2_Missense_Mutation_p.D186Y|THPO_uc011brp.1_Intron|THPO_uc011brq.1_Intron|THPO_uc003for.1_RNA|THPO_uc003fos.1_RNA	NM_000460	NP_000451	P40225	TPO_HUMAN	thrombopoietin precursor	228					cell proliferation|platelet activation	extracellular space	cytokine activity|growth factor activity|hormone activity			ovary(1)	1	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GACCAGGAATCTTGGCTCTGA	0.517													18	49					2.48551e-13	2.7759e-13	1	1	0		A	184090679	A	A	184090679	3	1	89	1	0	0	0	0	1	0	0	0	15897	913	32	5	381	5	THPO	3	184090679	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	48991	184090679	13931751	1756	55587											
CHRD	8646	broad.mit.edu	37	chr3	184102385	184102385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatgctgctgcagaatgagCtcttcctgaacgtgggcacc	9	10	11	11	1	1	3	0	2	1	1	2	3	2	3	2	1	5	5	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:184102385C>T	uc003fov.2	+	13	1747	c.1501C>T	c.(1501-1503)CTC>TTC	p.L501F	CHRD_uc003fow.2_Missense_Mutation_p.L131F|CHRD_uc003fox.2_Missense_Mutation_p.L501F|CHRD_uc003foy.2_Missense_Mutation_p.L131F|CHRD_uc010hyc.2_Missense_Mutation_p.L91F|CHRD_uc011brr.1_Missense_Mutation_p.L131F	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	501	CHRD 3.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCAGAATGAGCTCTTCCTGAA	0.647													60	76					0	0	1	0	0		T	184102385	T	T	184102385	3	4	89	1	0	0	0	0	1	0	0	0	3375	797	28	2	1551	2	CHRD	3	184102385	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11706	184102385	13920045	1757	55588											
EPHB3	2049	broad.mit.edu	37	chr3	184298943	184298943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctcaaggtcattgccagcGctcagtctgggttagtacct	7	11	11	12	1	4	0	3	0	1	0	4	0	4	0	3	2	3	3	3	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:184298943G>A	uc003foz.2	+	14	3159	c.2722G>A	c.(2722-2724)GCT>ACT	p.A908T		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	908	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			CATTGCCAGCGCTCAGTCTGG	0.572													37	65					0	0	1	0	0		A	184298943	A	A	184298943	3	1	89	1	0	0	0	0	1	0	0	0	5184	1087	38	1	2776	1	EPHB3	3	184298943	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	196558	184298943	13723487	1758	55589											
EHHADH	1962	broad.mit.edu	37	chr3	184953175	184953175	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccacgggcttctcatttCtctgtatttcatctactaca	8	15	4	14	1	4	0	2	0	3	0	6	0	4	0	2	1	2	2	2	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:184953175C>A	uc003fpf.2	-	3	281	c.254G>T	c.(253-255)AGA>ATA	p.R85I	EHHADH_uc011brs.1_5'UTR	NM_001966	NP_001957	Q08426	ECHP_HUMAN	enoyl-Coenzyme A, hydratase/3-hydroxyacyl	85	Enoyl-CoA hydratase / isomerase.					peroxisome	3-hydroxyacyl-CoA dehydrogenase activity|coenzyme binding|dodecenoyl-CoA delta-isomerase activity|enoyl-CoA hydratase activity			ovary(3)	3	all_cancers(143;4.04e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.98e-32)|OV - Ovarian serous cystadenocarcinoma(80;5.55e-21)		NADH(DB00157)	CTTCTCATTTCTCTGTATTTC	0.517													27	29					2.79863e-10	3.03339e-10	1	1	0		A	184953175	A	A	184953175	3	1	89	1	0	0	0	0	1	0	0	0	4988	913	32	5	1937	5	EHHADH	3	184953175	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	654232	184953175	13069255	1759	55590											
MAP3K13	9175	broad.mit.edu	37	chr3	185161334	185161334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcaggaagatcacacctcGattgctagtagactggtcca	11	9	11	10	1	1	2	1	0	0	2	3	4	2	3	2	3	1	3	2	3	3	3	rs141609876		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:185161334G>A	uc010hyf.2	+	5	1027	c.761G>A	c.(760-762)CGA>CAA	p.R254Q	MAP3K13_uc011brt.1_Missense_Mutation_p.R47Q|MAP3K13_uc003fph.3_Missense_Mutation_p.R22Q|MAP3K13_uc011bru.1_Missense_Mutation_p.R110Q|MAP3K13_uc003fpi.2_Missense_Mutation_p.R254Q|MAP3K13_uc010hyg.2_Intron	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	254	Protein kinase.				activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			ATCACACCTCGATTGCTAGTA	0.433													50	93					0	0	1	0	0		A	185161334	A	A	185161334	3	1	89	1	0	0	0	0	1	0	0	0	9265	1058	37	1	771	1	MAP3K13	3	185161334	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	208159	185161334	12861096	1760	55591											
IGF2BP2	10644	broad.mit.edu	37	chr3	185416116	185416116	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggtgaggagggatgtttcGaatctgaattttcctgctcc	8	13	12	8	1	1	2	0	2	1	0	4	5	3	4	2	3	1	2	2	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:185416116G>A	uc003fpo.2	-	3	338	c.259C>T	c.(259-261)CGA>TGA	p.R87*	IGF2BP2_uc010hyi.2_Nonsense_Mutation_p.R24*|IGF2BP2_uc010hyj.2_Nonsense_Mutation_p.R24*|IGF2BP2_uc010hyk.2_5'UTR|IGF2BP2_uc010hyl.2_Nonsense_Mutation_p.R24*|IGF2BP2_uc003fpp.2_Nonsense_Mutation_p.R87*|IGF2BP2_uc003fpq.2_Nonsense_Mutation_p.R86*	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	87	RRM 2.				anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			GGGATGTTTCGAATCTGAATT	0.398													12	40					0	0	1	0	0		A	185416116	A	A	185416116	4	1	89	1	0	0	0	0	0	1	0	0	7590	1066	37	1	1596	1	IGF2BP2	3	185416116	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	254782	185416116	12606314	1761	55592											
CRYGS	1427	broad.mit.edu	37	chr3	186257252	186257252	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgtacccagcaaagttgggCctttcataaacagcccaggt	12	9	9	11	0	1	0	1	0	0	0	1	0	1	0	3	2	4	3	3	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:186257252C>T	uc003fqe.2	-	2	208	c.156G>A	c.(154-156)AGG>AGA	p.R52R	CRYGS_uc003fqf.2_Silent_p.R52R	NM_017541	NP_060011	P22914	CRBS_HUMAN	crystallin, gamma S	52	Beta/gamma crystallin 'Greek key' 2.			R -> T (in Ref. 2; AA sequence).			structural constituent of eye lens				0	all_cancers(143;3.75e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.5e-22)	GBM - Glioblastoma multiforme(93;0.0906)		CAAAGTTGGGCCTTTCATAAA	0.522													29	46					0	0	1	0	0		T	186257252	T	T	186257252	2	4	89	1	0	0	0	0	0	0	0	1	3922	738	26	2		2	CRYGS	3	186257252	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	841136	186257252	11765178	1762	55593											
KNG1	3827	broad.mit.edu	37	chr3	186445091	186445091	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgaattgttccaaagagaaTtttctgttcttaactccaga	13	14	6	8	1	2	2	0	0	2	2	4	4	4	2	2	0	1	2	2	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:186445091T>G	uc011bsa.1	+	5	842	c.630T>G	c.(628-630)AAT>AAG	p.N210K	KNG1_uc003fqr.2_Missense_Mutation_p.N210K	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	210	Cystatin 2.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	CCAAAGAGAATTTTCTGTTCT	0.348													37	73					0	0	1	0	0		G	186445091	G	G	186445091	3	3	89	1	0	0	0	0	1	0	0	0	8443	1490	52	5	648	5	KNG1	3	186445091	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	187839	186445091	11577339	1763	55594											
KNG1	3827	broad.mit.edu	37	chr3	186459654	186459654	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacaccaagggggccatgTccttgaccatggacataagc	12	7	11	11	0	0	2	0	2	0	0	1	3	1	3	4	3	2	0	4	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:186459654T>C	uc011bsa.1	+	10	1681	c.1469T>C	c.(1468-1470)GTC>GCC	p.V490A	KNG1_uc003fqr.2_Intron	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	490	|His-rich.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	GGGGGCCATGTCCTTGACCAT	0.443													19	30					0	0	1	0	0		C	186459654	C	C	186459654	3	2	89	1	0	0	0	0	1	0	0	0	8443	1667	58	3	1507	3	KNG1	3	186459654	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	14563	186459654	11562776	1764	55595											
RTP4	64108	broad.mit.edu	37	chr3	187088673	187088673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacatcccagggtcaggtgCgtatgaggctctttggccaa	8	9	14	10	1	2	1	1	1	1	0	3	2	3	2	2	5	1	2	2	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:187088673C>T	uc003frm.2	+	2	315	c.253C>T	c.(253-255)CGT>TGT	p.R85C		NM_022147	NP_071430	Q96DX8	RTP4_HUMAN	28kD interferon responsive protein	85	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste|protein targeting to membrane	cytoplasm|integral to membrane	protein binding				0	all_cancers(143;4.66e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		GGGTCAGGTGCGTATGAGGCT	0.567													8	36					0	0	1	0	0		T	187088673	T	T	187088673	3	4	89	1	0	0	0	0	1	0	0	0	13761	768	27	1	259	1	RTP4	3	187088673	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	629019	187088673	10933757	1765	55596											
RTP4	64108	broad.mit.edu	37	chr3	187088944	187088944	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcatgacaaagccgtccaAatccctactcccccacctaa	12	7	4	18	1	0	1	0	1	0	0	3	1	3	1	6	0	3	1	6	0	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:187088944A>C	uc003frm.2	+	2	586	c.524A>C	c.(523-525)AAA>ACA	p.K175T		NM_022147	NP_071430	Q96DX8	RTP4_HUMAN	28kD interferon responsive protein	175	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste|protein targeting to membrane	cytoplasm|integral to membrane	protein binding				0	all_cancers(143;4.66e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		AAGCCGTCCAAATCCCTACTC	0.517													9	48					0	0	1	0	0		C	187088944	C	C	187088944	3	2	89	1	0	0	0	0	1	0	0	0	13761	14	1	5	530	5	RTP4	3	187088944	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	271	187088944	10933486	1766	55597											
RTP2	344892	broad.mit.edu	37	chr3	187416459	187416459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctcctccagcagcttctCgctgggcttccagtgaacga	6	10	9	16	2	1	1	0	1	1	0	6	2	5	1	4	1	3	4	4	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:187416459C>T	uc003fro.1	-	2	934	c.505G>A	c.(505-507)GAG>AAG	p.E169K		NM_001004312	NP_001004312	Q5QGT7	RTP2_HUMAN	receptor transporting protein 2	169	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding				0	all_cancers(143;4.06e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0515)		AGCAGCTTCTCGCTGGGCTTC	0.647													22	50					0	0	1	0	0		T	187416459	T	T	187416459	3	4	89	1	0	0	0	0	1	0	0	0	13759	893	31	1	176	1	RTP2	3	187416459	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	327515	187416459	10605971	1767	55598											
TP63	8626	broad.mit.edu	37	chr3	189349237	189349237	+	Translation_Start_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggctttatatctatatatAcacaggtatatgtgtatatt	12	17	6	6	1	1	0	0	0	1	0	1	0	1	0	1	2	1	3	1	2	10	12			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:189349237A>G	uc003fry.2	+	1	22	c.-67A>G	c.(-69--65)ATACA>ATGCA		TP63_uc003frx.2_Translation_Start_Site|TP63_uc003frz.2_Translation_Start_Site|TP63_uc010hzc.1_Translation_Start_Site	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1						anti-apoptosis|cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		ATCTATATATACACAGGTATA	0.358									Hay-Wells_syndrome	HNSCC(45;0.13)			20	40					0	0	1	0	0		G	189349237	G	G	189349237	1	3	89	1	0	0	0	0	0	0	0	0	16418	406	14	3		3	TP63	3	189349237	Translation_Start_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1932778	189349237	8673193	1768	55599											
TP63	8626	broad.mit.edu	37	chr3	189526302	189526302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagtcgagcaccgccaagtCggccacctggacggtaagag	10	4	14	13	4	0	1	0	0	0	1	2	3	0	2	4	3	1	3	4	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:189526302C>T	uc003fry.2	+	4	655	c.566C>T	c.(565-567)TCG>TTG	p.S189L	TP63_uc003frx.2_Missense_Mutation_p.S189L|TP63_uc003frz.2_Missense_Mutation_p.S189L|TP63_uc010hzc.1_Missense_Mutation_p.S189L|TP63_uc003fsa.2_Missense_Mutation_p.S95L|TP63_uc003fsb.2_Missense_Mutation_p.S95L|TP63_uc003fsc.2_Missense_Mutation_p.S95L|TP63_uc003fsd.2_Missense_Mutation_p.S95L|TP63_uc010hzd.1_Intron|TP63_uc003fse.1_Missense_Mutation_p.S70L	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	189					anti-apoptosis|cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		ACCGCCAAGTCGGCCACCTGG	0.622									Hay-Wells_syndrome	HNSCC(45;0.13)			42	53					0	0	1	0	0		T	189526302	T	T	189526302	3	4	89	1	0	0	0	0	1	0	0	0	16418	893	31	1	626	1	TP63	3	189526302	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	177065	189526302	8496128	1769	55600											
LEPREL1	55214	broad.mit.edu	37	chr3	189691761	189691761	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtatggggtgaagttttTcctctgtatccatcaccaac	8	14	10	9	0	2	1	1	1	1	0	4	1	4	1	3	3	1	3	3	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:189691761T>C	uc011bsk.1	-	10	1873	c.1485A>G	c.(1483-1485)GGA>GGG	p.G495G	LEPREL1_uc003fsg.2_Silent_p.G314G	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	495					collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GTGAAGTTTTTCCTCTGTATC	0.323													28	221					0	0	1	0	0		C	189691761	C	C	189691761	2	2	89	1	0	0	0	0	0	0	0	1	8746	1770	62	3		3	LEPREL1	3	189691761	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	165459	189691761	8330669	1770	55601											
LEPREL1	55214	broad.mit.edu	37	chr3	189700850	189700850	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttaccttctcttaggtctcGatctatcttgggtgatagct	6	17	8	10	1	4	1	0	1	4	0	6	2	4	1	1	2	2	1	1	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:189700850G>A	uc011bsk.1	-	8	1697	c.1309C>T	c.(1309-1311)CGA>TGA	p.R437*	LEPREL1_uc003fsg.2_Nonsense_Mutation_p.R256*	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	437					collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	CTTAGGTCTCGATCTATCTTG	0.448													46	91					0	0	1	0	0		A	189700850	A	A	189700850	4	1	89	1	0	0	0	0	0	1	0	0	8746	1066	37	1	849	1	LEPREL1	3	189700850	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9089	189700850	8321580	1771	55602											
LEPREL1	55214	broad.mit.edu	37	chr3	189702354	189702354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttaccgattctcatcctgtCgtcctccatatctgatccaa	8	14	4	15	2	2	1	1	1	2	0	8	2	6	1	5	0	1	0	5	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:189702354C>T	uc011bsk.1	-	7	1602	c.1214G>A	c.(1213-1215)CGA>CAA	p.R405Q	LEPREL1_uc003fsg.2_Missense_Mutation_p.R224Q	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	405					collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	CTCATCCTGTCGTCCTCCATA	0.318													33	96					0	0	1	0	0		T	189702354	T	T	189702354	3	4	89	1	0	0	0	0	1	0	0	0	8746	884	31	1	948	1	LEPREL1	3	189702354	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1504	189702354	8320076	1772	55603											
LEPREL1	55214	broad.mit.edu	37	chr3	189838069	189838069	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcccgctgcaggtagttgTagggcactctgcgctggaag	7	8	16	10	2	1	0	0	0	1	0	1	1	1	1	1	4	2	7	1	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:189838069T>G	uc011bsk.1	-	1	840	c.452A>C	c.(451-453)TAC>TCC	p.Y151S	LEPREL1_uc003fsg.2_Intron	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	151	TPR 2.				collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	CAGGTAGTTGTAGGGCACTCT	0.662													6	10					0	0	1	0	0		G	189838069	G	G	189838069	3	3	89	1	0	0	0	0	1	0	0	0	8746	1638	57	5	1734	5	LEPREL1	3	189838069	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	135715	189838069	8184361	1773	55604											
IL1RAP	3556	broad.mit.edu	37	chr3	190326850	190326850	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaaagacagctgtttcaaTtcccccatgaaactcccagt	14	9	5	13	0	1	2	1	1	0	1	3	2	3	2	3	0	2	2	3	0	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:190326850T>C	uc003fsm.1	+	5	623	c.417T>C	c.(415-417)AAT>AAC	p.N139N	IL1RAP_uc003fsk.2_Silent_p.N139N|IL1RAP_uc003fsl.2_Silent_p.N139N|IL1RAP_uc010hzf.2_5'UTR|IL1RAP_uc010hzg.1_Silent_p.N139N|IL1RAP_uc003fsn.1_RNA|IL1RAP_uc003fso.1_Silent_p.N139N|IL1RAP_uc003fsp.1_RNA|IL1RAP_uc003fsq.2_Silent_p.N139N	NM_002182	NP_002173	Q9NPH3	IL1AP_HUMAN	interleukin 1 receptor accessory protein isoform	139	Extracellular (Potential).				inflammatory response|innate immune response|protein complex assembly	extracellular region|integral to plasma membrane				ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0733)|Breast(254;0.21)		Lung(62;1.95e-06)|LUSC - Lung squamous cell carcinoma(58;2.05e-06)	GBM - Glioblastoma multiforme(93;0.00851)		GCTGTTTCAATTCCCCCATGA	0.368													41	94					0	0	1	0	0		C	190326850	C	C	190326850	2	2	89	1	0	0	0	0	0	0	0	1	7676	1490	52	3		3	IL1RAP	3	190326850	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	488781	190326850	7695580	1774	55605											
UTS2D	257313	broad.mit.edu	37	chr3	190993102	190993102	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taggacgtctcagaatccttCtcctccactagctgttcttt	7	15	6	13	1	3	1	1	0	3	1	7	2	5	2	3	1	1	2	3	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:190993102C>T	uc003fsu.2	-	8	1060	c.273G>A	c.(271-273)GAG>GAA	p.E91E		NM_198152	NP_937795	Q765I0	UTS2B_HUMAN	urotensin 2 domain containing precursor	91						extracellular region	hormone activity				0	all_cancers(143;1.77e-09)|Ovarian(172;0.103)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000214)		CAGAATCCTTCTCCTCCACTA	0.333													60	110					0	0	1	0	0		T	190993102	T	T	190993102	2	4	89	1	0	0	0	0	0	0	0	1	17131	912	32	4		4	UTS2D	3	190993102	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	666252	190993102	7029328	1775	55606											
C3orf59	151963	broad.mit.edu	37	chr3	192517304	192517304	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccaagagggtaaagtccAtatcatagtcagtaccccgg	13	7	10	11	1	2	1	2	0	0	1	3	1	3	1	4	2	1	3	4	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:192517304A>G	uc011bsp.1	-	2	668	c.347T>C	c.(346-348)ATG>ACG	p.M116T		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	116											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		GGTAAAGTCCATATCATAGTC	0.542													23	52					0	0	1	0	0		G	192517304	G	G	192517304	3	3	89	1	0	0	0	0	1	0	0	0	2240	217	8	3	1132	3	C3orf59	3	192517304	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1524202	192517304	5505126	1776	55607											
ATP13A4	84239	broad.mit.edu	37	chr3	193182749	193182749	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgtcaaagcagacaaggtTtaactgtccacatacgttga	13	11	8	9	1	1	2	1	1	0	1	2	2	2	2	1	1	3	3	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:193182749T>G	uc003ftd.2	-	12	1549	c.1441A>C	c.(1441-1443)AAC>CAC	p.N481H	ATP13A4_uc003fte.1_Missense_Mutation_p.N481H|ATP13A4_uc011bsr.1_5'UTR|ATP13A4_uc010hzi.2_RNA|ATP13A4_uc003ftf.3_Missense_Mutation_p.N187H	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	481	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		CAGACAAGGTTTAACTGTCCA	0.433													44	93					0	0	1	0	0		G	193182749	G	G	193182749	3	3	89	1	0	0	0	0	1	0	0	0	1127	1841	64	5	2225	5	ATP13A4	3	193182749	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	665445	193182749	4839681	1777	55608											
ATP13A4	84239	broad.mit.edu	37	chr3	193232644	193232644	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttccggcagccttgagtcCgatagccaaatatctcctgg	8	12	9	12	2	1	1	0	1	1	0	4	2	3	1	5	2	2	1	5	2	3	5	rs141456857		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:193232644C>A	uc003ftd.2	-	2	185	c.77G>T	c.(76-78)CGG>CTG	p.R26L	ATP13A4_uc003fte.1_Missense_Mutation_p.R26L|ATP13A4_uc011bsr.1_5'UTR	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	26	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		GCCTTGAGTCCGATAGCCAAA	0.418													17	46					0.000422831	0.000430665	1	1	0		A	193232644	A	A	193232644	3	1	89	1	0	0	0	0	1	0	0	0	1127	652	23	5	3629	5	ATP13A4	3	193232644	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	49895	193232644	4789786	1778	55609											
ATP13A3	79572	broad.mit.edu	37	chr3	194140694	194140694	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcacagaaaaaacaaaaaAatctggaaaagacagcaaaa	27	3	5	6	0	2	2	1	0	1	2	2	3	2	3	0	1	2	1	0	1	11	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:194140694A>C	uc003fty.3	-	30	3718	c.3316T>G	c.(3316-3318)TTT>GTT	p.F1106V	ATP13A3_uc003ftx.3_Translation_Start_Site	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	1106	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		AAAACAAAAAAATCTGGAAAA	0.294													12	13					0	0	1	0	0		C	194140694	C	C	194140694	3	2	89	1	0	0	0	0	1	0	0	0	1126	14	1	5	376	5	ATP13A3	3	194140694	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	908050	194140694	3881736	1779	55610											
ATP13A3	79572	broad.mit.edu	37	chr3	194169269	194169269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccacaaaacaaagtatgtCgtttatgtgtttctggatta	12	15	7	7	1	1	0	0	0	1	0	3	1	2	1	1	1	1	3	1	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:194169269C>T	uc003fty.3	-	11	1469	c.1067G>A	c.(1066-1068)CGA>CAA	p.R356Q	ATP13A3_uc003ftz.1_Missense_Mutation_p.R62Q	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	356					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		CAAAGTATGTCGTTTATGTGT	0.368													28	50					0	0	1	0	0		T	194169269	T	T	194169269	3	4	89	1	0	0	0	0	1	0	0	0	1126	884	31	1	2701	1	ATP13A3	3	194169269	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28575	194169269	3853161	1780	55611											
TMEM44	93109	broad.mit.edu	37	chr3	194349195	194349195	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgcagcacacagtgccgActggtcctgtctgggtttct	6	10	12	13	2	2	0	0	0	2	0	3	1	3	0	2	2	2	4	2	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:194349195A>C	uc010hzn.2	-	2	350	c.181T>G	c.(181-183)TCG>GCG	p.S61A	TMEM44_uc003fue.2_Missense_Mutation_p.S61A|TMEM44_uc003fud.2_Missense_Mutation_p.S61A|TMEM44_uc003fuf.2_Missense_Mutation_p.S61A|TMEM44_uc011bsv.1_Missense_Mutation_p.S61A|TMEM44_uc003fuh.1_RNA	NM_001011655	NP_001011655	Q2T9K0	TMM44_HUMAN	transmembrane protein 44 isoform b	61	Cytoplasmic (Potential).					integral to membrane					0	all_cancers(143;1.41e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;9.06e-06)		CACAGTGCCGACTGGTCCTGT	0.577													8	15					0	0	1	0	0		C	194349195	C	C	194349195	3	2	89	1	0	0	0	0	1	0	0	0	16193	275	10	5	1320	5	TMEM44	3	194349195	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	179926	194349195	3673235	1781	55612											
TNK2	10188	broad.mit.edu	37	chr3	195613863	195613863	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaccttactcatccacgaCttgcgtttgcacaaggcctt	8	11	6	16	2	1	0	1	0	0	0	2	1	2	0	4	1	3	2	4	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:195613863C>A	uc003fvu.1	-	3	762	c.219G>T	c.(217-219)AAG>AAT	p.K73N	TNK2_uc003fvs.1_Missense_Mutation_p.K105N|TNK2_uc003fvt.1_Missense_Mutation_p.K136N|TNK2_uc010hzw.1_RNA|TNK2_uc003fvv.1_5'Flank|TNK2_uc010hzx.1_Missense_Mutation_p.K87N	NM_005781	NP_005772	Q07912	ACK1_HUMAN	tyrosine kinase, non-receptor, 2 isoform 1	73	SAM-like domain.				positive regulation of peptidyl-tyrosine phosphorylation|protein ubiquitination|small GTPase mediated signal transduction	adherens junction|cytoplasmic vesicle membrane|endosome|nucleus	ATP binding|GTPase inhibitor activity|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|central_nervous_system(3)|lung(2)|stomach(1)|skin(1)	10	all_cancers(143;6.48e-09)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;1.46e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.3e-19)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;0.000757)	Adenosine triphosphate(DB00171)	TCATCCACGACTTGCGTTTGC	0.567													28	86					8.16721e-17	9.41672e-17	1	1	0		A	195613863	A	A	195613863	3	1	89	1	0	0	0	0	1	0	0	0	16343	564	20	5	2998	5	TNK2	3	195613863	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1264668	195613863	2408567	1782	55613											
TFRC	7037	broad.mit.edu	37	chr3	195787075	195787075	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcattgttttctcaataagCgtatacaacagtgggctggc	10	13	10	8	1	1	0	1	0	1	0	2	0	1	0	0	2	4	4	0	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:195787075C>T	uc003fvz.3	-	14	1795	c.1512G>A	c.(1510-1512)ACG>ACA	p.T504T	TFRC_uc003fwa.3_Silent_p.T504T|TFRC_uc010hzy.2_Silent_p.T423T|TFRC_uc011btr.1_Silent_p.T222T	NM_003234	NP_003225	P02786	TFR1_HUMAN	transferrin receptor	504	Extracellular (Potential).				cellular iron ion homeostasis|endocytosis|interspecies interaction between organisms|proteolysis|transferrin transport|transmembrane transport	coated pit|endosome|integral to plasma membrane|melanosome	peptidase activity|transferrin receptor activity			ovary(3)	3	all_cancers(143;1.94e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.36e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.17e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00233)		TCTCAATAAGCGTATACAACA	0.343			T	BCL6	NHL								12	22					0	0	1	0	0		T	195787075	T	T	195787075	2	4	89	1	0	0	0	0	0	0	0	1	15837	755	27	1		1	TFRC	3	195787075	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	173212	195787075	2235355	1783	55614											
OSTalpha	200931	broad.mit.edu	37	chr3	195955063	195955063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggaggcagtgctgaggaCgctgagggacaccccgatga	11	4	17	9	2	0	3	0	3	0	0	0	8	0	6	2	4	1	3	2	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:195955063C>T	uc003fwd.2	+	5	641	c.440C>T	c.(439-441)ACG>ATG	p.T147M	OSTalpha_uc010iac.1_Missense_Mutation_p.T31M|OSTalpha_uc003fwe.2_Missense_Mutation_p.T14M	NM_152672	NP_689885	Q86UW1	OSTA_HUMAN	organic solute transporter alpha	147						integral to membrane|plasma membrane	transporter activity			ovary(1)	1	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;8.83e-25)|all cancers(36;8.38e-23)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;7.51e-07)|Lung(62;1.06e-06)	GBM - Glioblastoma multiforme(46;0.00202)		GTGCTGAGGACGCTGAGGGAC	0.502													58	133					0	0	1	0	0		T	195955063	T	T	195955063	3	4	89	1	0	0	0	0	1	0	0	0	11319	536	19	1	458	1	OSTalpha	3	195955063	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	167988	195955063	2067367	1784	55615											
RNF168	165918	broad.mit.edu	37	chr3	196214416	196214416	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcactggctttgttttCttcttcctcgctggcccgtc	1	19	7	14	2	4	0	1	0	3	0	7	0	5	0	2	2	0	3	2	2	0	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:196214416C>A	uc003fwq.2	-	3	950	c.412G>T	c.(412-414)GAA>TAA	p.E138*	RNF168_uc010iah.2_5'UTR	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	138	Glu-rich.				double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		GCTTTGTTTTCTTCTTCCTCG	0.433													53	99					6.08268e-21	7.19453e-21	1	1	0		A	196214416	A	A	196214416	4	1	89	1	0	0	0	0	0	1	0	0	13484	922	32	5	1319	5	RNF168	3	196214416	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	259353	196214416	1808014	1785	55616											
WDR53	348793	broad.mit.edu	37	chr3	196287914	196287914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctctgaggcctctgaggccGaaaagccactgaggagcaga	11	5	14	11	1	2	4	0	3	2	1	2	6	2	5	3	3	2	2	3	3	2	0	rs139966326		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:196287914G>A	uc003fwt.2	-	3	904	c.433C>T	c.(433-435)CGG>TGG	p.R145W		NM_182627	NP_872433	Q7Z5U6	WDR53_HUMAN	WD repeat domain 53	145	WD 3.									breast(1)|skin(1)	2	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.6e-23)|all cancers(36;1.54e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.29e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		CTCTGAGGCCGAAAAGCCACT	0.463													36	110					0	0	1	0	0		A	196287914	A	A	196287914	3	1	89	1	0	0	0	0	1	0	0	0	17331	1057	37	1	651	1	WDR53	3	196287914	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	73498	196287914	1734516	1786	55617											
WDR53	348793	broad.mit.edu	37	chr3	196288018	196288018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagagtcgtcagcagaaGccagcaggttttccgtttga	9	9	11	12	2	1	3	1	1	0	2	3	3	2	3	4	1	3	4	4	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:196288018G>A	uc003fwt.2	-	3	800	c.329C>T	c.(328-330)GCT>GTT	p.A110V		NM_182627	NP_872433	Q7Z5U6	WDR53_HUMAN	WD repeat domain 53	110	WD 2.									breast(1)|skin(1)	2	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.6e-23)|all cancers(36;1.54e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.29e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		GTCAGCAGAAGCCAGCAGGTT	0.418													42	132					0	0	1	0	0		A	196288018	A	A	196288018	3	1	89	1	0	0	0	0	1	0	0	0	17331	971	34	2	755	2	WDR53	3	196288018	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	104	196288018	1734412	1787	55618											
FBXO45	200933	broad.mit.edu	37	chr3	196311019	196311019	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcagataggagaaagaattCgagtcatcttggacatggaa	15	9	12	5	1	2	3	1	0	1	3	3	7	2	5	0	3	1	1	0	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:196311019C>T	uc010iai.2	+	3	822	c.691C>T	c.(691-693)CGA>TGA	p.R231*		NM_001105573	NP_001099043	P0C2W1	FBSP1_HUMAN	F-box protein 45	231	B30.2/SPRY.				nervous system development|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	cell junction|postsynaptic membrane|presynaptic membrane	protein binding			skin(1)	1	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;2.75e-23)|all cancers(36;2.47e-21)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		AGAAAGAATTCGAGTCATCTT	0.393													25	48					0	0	1	0	0		T	196311019	T	T	196311019	4	4	89	1	0	0	0	0	0	1	0	0	5768	876	31	1	701	1	FBXO45	3	196311019	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	23001	196311019	1711411	1788	55619											
PIGX	54965	broad.mit.edu	37	chr3	196457961	196457961	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacaagatgaagtataaaTcagtaagctaatgttttatg	17	12	9	3	0	1	2	1	1	0	1	1	3	1	3	0	1	2	4	0	1	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:196457961T>G	uc010iaj.2	+	6	843	c.562T>G	c.(562-564)TCA>GCA	p.S188A	PIGX_uc003fwx.3_Missense_Mutation_p.S170A|PIGX_uc011btx.1_RNA	NM_017861	NP_060331	Q8TBF5	PIGX_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	211	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane					0	all_cancers(143;1.41e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;1.08e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00322)		GAAGTATAAATCAGTAAGCTA	0.373													15	32					0	0	1	0	0		G	196457961	G	G	196457961	3	3	89	1	0	0	0	0	1	0	0	0	11922	1435	50	5	707	5	PIGX	3	196457961	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	146942	196457961	1564469	1789	55620											
DLG1	1739	broad.mit.edu	37	chr3	196812540	196812540	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattcatcatcagaagcattAataacatggaggatatctcc	15	11	6	9	0	4	1	3	0	1	1	5	3	4	3	1	2	2	1	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:196812540A>C	uc003fxo.3	-	17	2038	c.1848T>G	c.(1846-1848)ATT>ATG	p.I616M	DLG1_uc011bub.1_Missense_Mutation_p.I500M|DLG1_uc011buc.1_Missense_Mutation_p.I500M|DLG1_uc011bud.1_Missense_Mutation_p.I299M|DLG1_uc003fxn.3_Missense_Mutation_p.I616M|DLG1_uc011bue.1_Missense_Mutation_p.I583M|DLG1_uc010ial.2_Missense_Mutation_p.I616M|DLG1_uc011buf.1_RNA|DLG1_uc003fxp.2_RNA|DLG1_uc010iam.1_Missense_Mutation_p.I583M	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	616	SH3.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		CAGAAGCATTAATAACATGGA	0.463													45	93					0	0	1	0	0		C	196812540	C	C	196812540	3	2	89	1	0	0	0	0	1	0	0	0	4560	358	13	5	1010	5	DLG1	3	196812540	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	354579	196812540	1209890	1790	55621											
DLG1	1739	broad.mit.edu	37	chr3	196888575	196888575	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggacagggatcacagggAcagtgggaggagagggaaga	14	2	20	5	0	1	2	1	0	0	2	1	8	1	7	0	6	0	1	0	6	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr3:196888575A>G	uc003fxo.3	-	6	708	c.518T>C	c.(517-519)GTC>GCC	p.V173A	DLG1_uc011bub.1_Intron|DLG1_uc011buc.1_Intron|DLG1_uc011bud.1_Intron|DLG1_uc003fxn.3_Missense_Mutation_p.V173A|DLG1_uc011bue.1_Intron|DLG1_uc010ial.2_Missense_Mutation_p.V173A|DLG1_uc011buf.1_Intron|DLG1_uc003fxp.2_RNA|DLG1_uc010iam.1_Intron|DLG1_uc010ian.2_Intron	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	173	Interaction with SH3 domains.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		GATCACAGGGACAGTGGGAGG	0.383													7	16					0	0	1	0	0		G	196888575	G	G	196888575	3	3	89	1	0	0	0	0	1	0	0	0	4560	275	10	3	2384	3	DLG1	3	196888575	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	76035	196888575	1133855	1791	55622											
ZNF718	255403	broad.mit.edu	37	chr4	155467	155467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agactttgctaaacataagaGaattcatacaggagagaaac	19	8	8	6	0	1	3	1	0	0	3	1	6	1	4	0	1	4	1	0	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:155467G>A	uc003fzt.3	+	8	1125	c.992G>A	c.(991-993)AGA>AAA	p.R331K	ZNF595_uc003fzu.1_Intron|ZNF718_uc010iaz.2_RNA|ZNF718_uc003fzw.3_Missense_Mutation_p.E111K	NM_001039127	NP_001034216	Q3SXZ3	ZN718_HUMAN	zinc finger protein 718	331	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0681)|Epithelial(2;0.0838)|all cancers(2;0.135)|LUSC - Lung squamous cell carcinoma(95;0.18)		AAACATAAGAGAATTCATACA	0.388													8	11					0	0	1	0	0		A	155467	A	A	155467	3	1	89	1	0	0	0	0	1	0	0	0	18145	942	33	4	1006	4	ZNF718	4	155467	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08		155467	190998809	1792	55623											
ZNF732	654254	broad.mit.edu	37	chr4	266034	266034	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaagattaaataccatttAaagtctttgccacattcttc	14	16	3	8	0	2	1	0	0	2	1	3	1	2	1	2	0	2	0	2	0	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:266034A>T	uc011buu.1	-	3	623	c.609T>A	c.(607-609)TTT>TTA	p.F203L	ZNF732_uc010ibb.1_Intron	NM_001137608	NP_001131080	B4DXR9	ZN732_HUMAN	zinc finger protein 732	204	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AATACCATTTAAAGTCTTTGC	0.368													10	13					0	0	1	0	0		T	266034	T	T	266034	3	4	89	1	0	0	0	0	1	0	0	0	18148	359	13	5	1149	5	ZNF732	4	266034	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	110567	266034	190888242	1793	55624											
ZNF732	654254	broad.mit.edu	37	chr4	289920	289920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctggagagaattctatggCcacatccctgaatgttaaga	12	12	9	8	0	2	3	0	1	2	2	3	5	3	4	2	2	0	1	2	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:289920C>T	uc011buu.1	-	1	39	c.25G>A	c.(25-27)GCC>ACC	p.A9T	ZNF732_uc010ibb.1_Intron	NM_001137608	NP_001131080	B4DXR9	ZN732_HUMAN	zinc finger protein 732	10	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AATTCTATGGCCACATCCCTG	0.408													29	54					0	0	1	0	0		T	289920	T	T	289920	3	4	89	1	0	0	0	0	1	0	0	0	18148	739	26	2	1741	2	ZNF732	4	289920	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	23886	289920	190864356	1794	55625											
ZNF721	170960	broad.mit.edu	37	chr4	435862	435862	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgtatgaatcctcttatgTttagcaaagcttgaggatga	11	14	9	7	0	1	3	0	3	1	0	2	4	2	4	2	1	2	4	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:435862T>G	uc003gag.2	-	3	3085	c.2394A>C	c.(2392-2394)AAA>AAC	p.K798N	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.K830N|ZNF721_uc010ibe.2_Missense_Mutation_p.K786N	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	798						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						TCCTCTTATGTTTAGCAAAGC	0.368													26	56					0	0	1	0	0		G	435862	G	G	435862	3	3	89	1	0	0	0	0	1	0	0	0	18147	1722	60	5	381	5	ZNF721	4	435862	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	145942	435862	190718414	1795	55626											
ZNF721	170960	broad.mit.edu	37	chr4	437198	437198	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctctccagtatgaattCtcctatgtacgtaaaggttt	9	17	7	8	1	2	1	0	1	2	0	5	1	3	1	2	1	1	5	2	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:437198C>A	uc003gag.2	-	3	1749	c.1058G>T	c.(1057-1059)AGA>ATA	p.R353I	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.R385I|ZNF721_uc010ibe.2_Missense_Mutation_p.R341I	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	353						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						AGTATGAATTCTCCTATGTAC	0.423													23	64					1.64293e-13	1.8379e-13	1	1	0		A	437198	A	A	437198	3	1	89	1	0	0	0	0	1	0	0	0	18147	913	32	5	1717	5	ZNF721	4	437198	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1336	437198	190717078	1796	55627											
ZNF721	170960	broad.mit.edu	37	chr4	437786	437786	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttctctccagtatgaattTtcttgtgttgattcaggtct	6	20	8	7	0	4	2	1	2	3	0	6	2	5	2	1	1	0	3	1	1	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:437786T>G	uc003gag.2	-	3	1161	c.470A>C	c.(469-471)AAA>ACA	p.K157T	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.K189T|ZNF721_uc010ibe.2_Missense_Mutation_p.K145T	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	157						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						AGTATGAATTTTCTTGTGTTG	0.393													49	103					0	0	1	0	0		G	437786	G	G	437786	3	3	89	1	0	0	0	0	1	0	0	0	18147	1841	64	5	2305	5	ZNF721	4	437786	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	588	437786	190716490	1797	55628											
ZNF721	170960	broad.mit.edu	37	chr4	466372	466372	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttatcctcacctagggagAccaggtttctgtagttctcc	8	13	9	11	0	3	1	1	0	2	1	5	2	4	1	4	2	0	4	4	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:466372A>G	uc003gag.2	-	2	717	c.26T>C	c.(25-27)GTC>GCC	p.V9A	ABCA11P_uc003gac.2_5'UTR|ABCA11P_uc003gad.2_RNA|ABCA11P_uc011buv.1_Missense_Mutation_p.V41A|ABCA11P_uc003gae.2_5'UTR|ABCA11P_uc010ibd.1_5'UTR|ZNF721_uc003gaf.3_Missense_Mutation_p.V41A|ZNF721_uc010ibe.2_Intron	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	9						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						ACCTAGGGAGACCAGGTTTCT	0.378													32	64					0	0	1	0	0		G	466372	G	G	466372	3	3	89	1	0	0	0	0	1	0	0	0	18147	275	10	3	2753	3	ZNF721	4	466372	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	28586	466372	190687904	1798	55629											
PIGG	54872	broad.mit.edu	37	chr4	499698	499698	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatggaacaacctcatttttCgtgtcagattacacagaggt	12	12	9	8	1	2	2	2	0	0	2	3	4	2	3	1	2	3	0	1	2	3	3	rs146375356		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:499698C>T	uc003gak.3	+	3	688	c.552C>T	c.(550-552)TTC>TTT	p.F184F	PIGG_uc003gaj.3_Silent_p.F184F|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Intron|PIGG_uc003gal.3_Silent_p.F95F|PIGG_uc003gai.2_RNA|PIGG_uc011buw.1_Silent_p.F62F|PIGG_uc003gam.2_Silent_p.F95F|PIGG_uc003gan.2_Silent_p.F95F	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	184	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity	p.F184F(1)		central_nervous_system(2)|ovary(1)|skin(1)	4						CCTCATTTTTCGTGTCAGATT	0.338													18	36					0	0	1	0	0		T	499698	T	T	499698	2	4	89	1	0	0	0	0	0	0	0	1	11907	883	31	1		1	PIGG	4	499698	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	33326	499698	190654578	1799	55630											
GAK	2580	broad.mit.edu	37	chr4	891937	891937	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccttggttactaagcaacaAgttctcaacctgtaaaattc	13	12	5	11	0	1	0	1	0	1	0	3	0	1	0	2	1	4	4	2	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:891937A>C	uc003gbm.3	-	6	734	c.535T>G	c.(535-537)TTG>GTG	p.L179V	GAK_uc003gbn.3_Missense_Mutation_p.L100V|GAK_uc010ibk.1_Missense_Mutation_p.L73V|GAK_uc003gbl.3_Missense_Mutation_p.L43V	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	179	Protein kinase.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		CTAAGCAACAAGTTCTCAACC	0.542													20	29					0	0	1	0	0		C	891937	C	C	891937	3	2	89	1	0	0	0	0	1	0	0	0	6210	69	3	5	3492	5	GAK	4	891937	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	392239	891937	190262339	1800	55631											
SPON2	10417	broad.mit.edu	37	chr4	1164274	1164274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggggctctgtcgcagccGcaccagtgtcaccctggcga	5	7	13	16	3	2	0	1	0	1	0	3	1	2	0	4	3	1	3	4	3	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:1164274G>A	uc003gcn.3	-	4	754	c.727C>T	c.(727-729)CGG>TGG	p.R243W	SPON2_uc003gco.3_Missense_Mutation_p.R243W|SPON2_uc010ibr.2_Missense_Mutation_p.R243W|SPON2_uc003gcm.1_3'UTR	NM_012445	NP_036577	Q9BUD6	SPON2_HUMAN	spondin 2, extracellular matrix protein	243					axon guidance|cell adhesion|innate immune response	proteinaceous extracellular matrix	metal ion binding			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00805)	UCEC - Uterine corpus endometrioid carcinoma (64;0.139)|Colorectal(103;0.19)		TGTCGCAGCCGCACCAGTGTC	0.642													41	74					0	0	1	0	0		A	1164274	A	A	1164274	3	1	89	1	0	0	0	0	1	0	0	0	15108	1086	38	1	276	1	SPON2	4	1164274	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	272337	1164274	189990002	1801	55632											
CRIPAK	285464	broad.mit.edu	37	chr4	1389618	1389618	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggatcccttttatatttCtctgcacctcgagataacgt	10	14	6	11	2	1	1	0	0	1	1	4	3	2	2	2	1	2	1	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:1389618C>A	uc003gdf.2	+	1	4279	c.1319C>A	c.(1318-1320)TCT>TAT	p.S440Y		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	440	Interaction with PAK1.				ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			TTTTATATTTCTCTGCACCTC	0.428													29	54					3.65163e-15	4.15301e-15	1	1	0		A	1389618	A	A	1389618	3	1	89	1	0	0	0	0	1	0	0	0	3880	913	32	5	1321	5	CRIPAK	4	1389618	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	225344	1389618	189764658	1802	55633											
FGFR3	2261	broad.mit.edu	37	chr4	1805474	1805474	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctctccttgcacaacgTcacctttgaggacgccgggg	6	10	12	13	3	2	1	1	1	1	0	4	2	3	2	3	4	2	2	3	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:1805474T>C	uc003gdr.3	+	8	1242	c.986T>C	c.(985-987)GTC>GCC	p.V329A	FGFR3_uc003gdu.2_Intron|FGFR3_uc003gds.3_Intron|FGFR3_uc003gdq.3_Missense_Mutation_p.V329A|FGFR3_uc010icb.1_Missense_Mutation_p.V137A|FGFR3_uc003gdt.1_Missense_Mutation_p.V158A	NM_000142	NP_000133	P22607	FGFR3_HUMAN	fibroblast growth factor receptor 3 isoform 1	329	Ig-like C2-type 3.|Extracellular (Potential).				bone maturation|cell growth|insulin receptor signaling pathway|JAK-STAT cascade|MAPKKK cascade|negative regulation of developmental growth|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|identical protein binding			urinary_tract(2177)|skin(314)|upper_aerodigestive_tract(57)|haematopoietic_and_lymphoid_tissue(24)|prostate(9)|cervix(6)|central_nervous_system(4)|large_intestine(3)|lung(3)|testis(2)|pancreas(1)	2600		Breast(71;0.212)|all_epithelial(65;0.241)	all cancers(2;0.000145)|OV - Ovarian serous cystadenocarcinoma(23;0.0019)|Epithelial(3;0.00221)|GBM - Glioblastoma multiforme(2;0.234)		Palifermin(DB00039)	TTGCACAACGTCACCTTTGAG	0.602		1	Mis|T	IGH@|ETV6	bladder|MM|T-cell lymphoma		Hypochondroplasia|Thanatophoric dysplasia		Muenke_syndrome|Saethre-Chotzen_syndrome				17	34					0	0	1	0	0		C	1805474	C	C	1805474	3	2	89	1	0	0	0	0	1	0	0	0	5881	1667	58	3	1167	3	FGFR3	4	1805474	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	415856	1805474	189348802	1803	55634											
WHSC1	7468	broad.mit.edu	37	chr4	1902902	1902902	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacaggaagaggagcataaAatatgactccttgctggagc	15	7	12	7	0	0	2	0	1	0	1	1	6	1	5	1	3	4	2	1	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:1902902A>C	uc003gdz.3	+	2	697	c.521A>C	c.(520-522)AAA>ACA	p.K174T	WHSC1_uc003geb.3_Missense_Mutation_p.K174T|WHSC1_uc003gec.3_Missense_Mutation_p.K174T|WHSC1_uc003ged.3_Missense_Mutation_p.K174T|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gdx.2_Missense_Mutation_p.K174T|WHSC1_uc003gdy.1_Missense_Mutation_p.K174T|WHSC1_uc010icd.1_Missense_Mutation_p.K174T|WHSC1_uc003gea.1_Missense_Mutation_p.K174T|WHSC1_uc010ice.1_Missense_Mutation_p.K174T|WHSC1_uc003geg.1_Missense_Mutation_p.K174T|WHSC1_uc003geh.1_Missense_Mutation_p.K174T	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	174					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		AGGAGCATAAAATATGACTCC	0.443			T	IGH@	MM								24	46					0	0	1	0	0		C	1902902	C	C	1902902	3	2	89	1	0	0	0	0	1	0	0	0	17388	14	1	5	523	5	WHSC1	4	1902902	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	97428	1902902	189251374	1804	55635											
WHSC2	7469	broad.mit.edu	37	chr4	1985339	1985339	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacctcgggagccggccatGaagcccaggatgagggcctt	9	6	14	12	2	0	2	0	2	0	0	1	4	0	4	5	4	3	0	5	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:1985339G>T	uc003gem.2	-	10	1659	c.1419C>A	c.(1417-1419)TTC>TTA	p.F473L	WHSC2_uc003gek.2_Missense_Mutation_p.F199L|WHSC2_uc003gel.2_Missense_Mutation_p.F387L|WHSC2_uc003gen.2_Missense_Mutation_p.F327L	NM_005663	NP_005654	Q9H3P2	NELFA_HUMAN	Wolf-Hirschhorn syndrome candidate 2 protein	462					multicellular organismal development|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm				skin(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0155)			AGCCGGCCATGAAGCCCAGGA	0.662													21	51					1.10513e-12	1.22773e-12	1	1	0		T	1985339	T	T	1985339	3	4	89	1	0	0	0	0	1	0	0	0	17390	1281	45	5	208	5	WHSC2	4	1985339	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	82437	1985339	189168937	1805	55636											
POLN	353497	broad.mit.edu	37	chr4	2172450	2172450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttctgcaaccccgttctggGgagactgttcctttgactca	6	14	9	12	1	3	2	1	1	2	1	4	3	4	2	3	2	2	3	3	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:2172450G>A	uc003ger.2	-	11	1510	c.1510C>T	c.(1510-1512)CCC>TCC	p.P504S	POLN_uc010ich.1_Missense_Mutation_p.P95S|POLN_uc011bvi.1_Missense_Mutation_p.P504S	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	504					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			CCCGTTCTGGGGAGACTGTTC	0.428								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					51	110					0	0	1	0	0		A	2172450	A	A	2172450	3	1	89	1	0	0	0	0	1	0	0	0	12226	1232	43	4	1248	4	POLN	4	2172450	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	187111	2172450	188981826	1806	55637											
POLN	353497	broad.mit.edu	37	chr4	2210191	2210191	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggcagaacctcttgatgtCtgacttcttaaagatttaag	11	15	8	7	0	3	4	0	2	3	2	3	4	3	4	1	1	1	1	1	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:2210191C>T	uc003ger.2	-	3	237	c.237G>A	c.(235-237)CAG>CAA	p.Q79Q	POLN_uc010ich.1_5'UTR|POLN_uc011bvi.1_Silent_p.Q79Q	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	79					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			CTCTTGATGTCTGACTTCTTA	0.378								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					28	54					0	0	1	0	0		T	2210191	T	T	2210191	2	4	89	1	0	0	0	0	0	0	0	1	12226	912	32	4		4	POLN	4	2210191	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	37741	2210191	188944085	1807	55638											
MXD4	10608	broad.mit.edu	37	chr4	2252282	2252282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacgggcctacgagagggCggggcggcccagccgccggc	5	1	20	15	6	0	1	0	0	0	1	0	2	0	1	4	7	2	1	4	7	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:2252282C>T	uc003geu.1	-	6	651	c.619G>A	c.(619-621)GCC>ACC	p.A207T		NM_006454	NP_006445	Q14582	MAD4_HUMAN	MAD4	207					negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|transcription corepressor activity				0						TACGAGAGGGCGGGGCGGCCC	0.706													4	12					0	0	1	0	0		T	2252282	T	T	2252282	3	4	89	1	0	0	0	0	1	0	0	0	10019	768	27	1	14	1	MXD4	4	2252282	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	42091	2252282	188901994	1808	55639											
FAM193A	8603	broad.mit.edu	37	chr4	2673955	2673955	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcctggccatcagttCttgagcccagagaagcccac	8	9	8	16	0	2	2	1	1	1	1	4	3	4	2	5	1	2	1	5	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:2673955C>A	uc010icl.2	+	11	1665	c.1314C>A	c.(1312-1314)TTC>TTA	p.F438L	FAM193A_uc010ick.2_Missense_Mutation_p.F638L|FAM193A_uc003gfd.2_Missense_Mutation_p.F438L|FAM193A_uc011bvm.1_Missense_Mutation_p.F460L|FAM193A_uc011bvn.1_Missense_Mutation_p.F438L|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Missense_Mutation_p.F292L	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	438										ovary(3)	3						GCCATCAGTTCTTGAGCCCAG	0.537													28	53					8.58068e-18	9.97771e-18	1	1	0		A	2673955	A	A	2673955	3	1	89	1	0	0	0	0	1	0	0	0	5535	912	32	5	1348	5	FAM193A	4	2673955	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	421673	2673955	188480321	1809	55640											
GRK4	2868	broad.mit.edu	37	chr4	3006044	3006044	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaacccttccaaaaaagcCtttgaggaatgtactaggta	15	9	9	8	0	0	2	0	1	0	1	1	4	1	3	3	2	3	2	3	2	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:3006044C>A	uc003ggn.1	+	5	881	c.426C>A	c.(424-426)GCC>GCA	p.A142A	GRK4_uc003ggo.1_Silent_p.A142A|GRK4_uc003ggp.1_Silent_p.A110A|GRK4_uc003ggq.1_Silent_p.A110A	NM_182982	NP_892027	P32298	GRK4_HUMAN	G protein-coupled receptor kinase 4 isoform	142	RGS.|N-terminal.					cell cortex	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CCAAAAAAGCCTTTGAGGAAT	0.428													41	99					1.68508e-10	1.83104e-10	1	1	0		A	3006044	A	A	3006044	2	1	89	1	0	0	0	0	0	0	0	1	6807	668	24	5		5	GRK4	4	3006044	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	332089	3006044	188148232	1810	55641											
HTT	3064	broad.mit.edu	37	chr4	3088673	3088673	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttatttttagaaagaaaGaactttcagctaccaagaaa	17	14	5	5	0	1	4	1	0	0	4	1	4	1	4	1	0	3	1	1	0	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:3088673G>T	uc011bvq.1	+	3	422	c.277G>T	c.(277-279)GAA>TAA	p.E93*		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	91					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		TAGAAAGAAAGAACTTTCAGC	0.353													16	38					6.31663e-08	6.6657e-08	1	1	0		T	3088673	T	T	3088673	4	4	89	1	0	0	0	0	0	1	0	0	7473	943	33	5	277	5	HTT	4	3088673	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	82629	3088673	188065603	1811	55642											
HTT	3064	broad.mit.edu	37	chr4	3138026	3138026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatgaagaccccagggtgcGacatgttgccgcagcatcac	11	6	12	12	2	1	3	1	1	0	2	1	4	1	3	3	1	3	3	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:3138026G>A	uc011bvq.1	+	22	2922	c.2777G>A	c.(2776-2778)CGA>CAA	p.R926Q		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	924	HEAT 5.				establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		CCCAGGGTGCGACATGTTGCC	0.368													22	39					0	0	1	0	0		A	3138026	A	A	3138026	3	1	89	1	0	0	0	0	1	0	0	0	7473	1058	37	1	2853	1	HTT	4	3138026	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	49353	3138026	188016250	1812	55643											
HTT	3064	broad.mit.edu	37	chr4	3184144	3184144	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaatgaagacaagtggaagCgactgtctcgacagatagct	15	7	12	7	2	1	4	0	1	1	3	2	7	1	5	0	1	2	1	0	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:3184144C>T	uc011bvq.1	+	38	4964	c.4819C>T	c.(4819-4821)CGA>TGA	p.R1607*		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1605					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		CAAGTGGAAGCGACTGTCTCG	0.483													25	45					0	0	1	0	0		T	3184144	T	T	3184144	4	4	89	1	0	0	0	0	0	1	0	0	7473	760	27	1	4959	1	HTT	4	3184144	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	46118	3184144	187970132	1813	55644											
HTT	3064	broad.mit.edu	37	chr4	3201479	3201479	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatgttccggagaatcacaGcagctgccactaggctgttc	10	9	11	11	1	1	1	1	0	0	1	3	3	2	1	2	2	3	5	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:3201479G>A	uc011bvq.1	+	42	5540	c.5395G>A	c.(5395-5397)GCA>ACA	p.A1799T		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1797					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GAGAATCACAGCAGCTGCCAC	0.507													29	54					0	0	1	0	0		A	3201479	A	A	3201479	3	1	89	1	0	0	0	0	1	0	0	0	7473	971	34	2	5551	2	HTT	4	3201479	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17335	3201479	187952797	1814	55645											
HTT	3064	broad.mit.edu	37	chr4	3210534	3210534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attccctgctggacaggtttCgtctctccaccatgcaagac	8	11	8	14	1	1	1	0	0	1	1	5	2	3	2	3	2	2	3	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:3210534C>T	uc011bvq.1	+	47	6338	c.6193C>T	c.(6193-6195)CGT>TGT	p.R2065C		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2063					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GGACAGGTTTCGTCTCTCCAC	0.433													19	52					0	0	1	0	0		T	3210534	T	T	3210534	3	4	89	1	0	0	0	0	1	0	0	0	7473	884	31	1	6369	1	HTT	4	3210534	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9055	3210534	187943742	1815	55646											
RGS12	6002	broad.mit.edu	37	chr4	3318097	3318097	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaccagatacttgctgTcaatgaaatcaacgtgaaaa	16	9	9	7	1	2	4	2	2	0	2	2	5	2	4	1	1	3	1	1	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:3318097T>C	uc003ggw.2	+	2	1104	c.200T>C	c.(199-201)GTC>GCC	p.V67A	RGS12_uc003ggu.2_Missense_Mutation_p.V67A|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Missense_Mutation_p.V67A|RGS12_uc003ggx.1_Missense_Mutation_p.V67A	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	67	PDZ.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		ATACTTGCTGTCAATGAAATC	0.517													20	35					0	0	1	0	0		C	3318097	C	C	3318097	3	2	89	1	0	0	0	0	1	0	0	0	13320	1667	58	3	202	3	RGS12	4	3318097	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	107563	3318097	187836179	1816	55647											
HGFAC	3083	broad.mit.edu	37	chr4	3449301	3449301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacgcagaccttcggcatcGagaagtacatcccgtacacc	11	7	9	14	4	0	3	0	1	0	2	3	4	1	3	3	1	2	4	3	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:3449301G>A	uc003ghc.2	+	11	1441	c.1438G>A	c.(1438-1440)GAG>AAG	p.E480K	HGFAC_uc010icw.2_Missense_Mutation_p.E487K	NM_001528	NP_001519	Q04756	HGFA_HUMAN	HGF activator preproprotein	480	Peptidase S1.				proteolysis	extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(2)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		CTTCGGCATCGAGAAGTACAT	0.662													101	190					0	0	1	0	0		A	3449301	A	A	3449301	3	1	89	1	0	0	0	0	1	0	0	0	7102	1059	37	1	1480	1	HGFAC	4	3449301	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	131204	3449301	187704975	1817	55648											
LRPAP1	4043	broad.mit.edu	37	chr4	3516638	3516638	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcttctcgattttggcttcGaagtgcttgagctcctcctg	4	16	10	11	2	1	1	0	1	1	0	5	3	3	1	2	1	3	4	2	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:3516638G>A	uc003ghi.2	-	7	937	c.852C>T	c.(850-852)TTC>TTT	p.F284F		NM_002337	NP_002328	P30533	AMRP_HUMAN	low density lipoprotein receptor-related protein	284	LDL receptor binding (Potential).|Potential.				negative regulation of protein binding|negative regulation of very-low-density lipoprotein particle clearance|protein folding|vesicle-mediated transport	cell surface|integral to membrane|plasma membrane	asialoglycoprotein receptor activity|heparin binding|low-density lipoprotein particle receptor binding|receptor antagonist activity|unfolded protein binding|very-low-density lipoprotein particle receptor binding			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.165)		TTTTGGCTTCGAAGTGCTTGA	0.587													46	89					0	0	1	0	0		A	3516638	A	A	3516638	2	1	89	1	0	0	0	0	0	0	0	1	8982	1049	37	1		1	LRPAP1	4	3516638	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	67337	3516638	187637638	1818	55649											
TMEM128	85013	broad.mit.edu	37	chr4	4248040	4248040	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattaagtcttggaagaggtTtctcctttttctcaacagct	9	17	7	8	0	3	1	1	0	3	1	5	2	3	2	1	2	2	2	1	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:4248040T>G	uc003ghr.1	-	2	158	c.128A>C	c.(127-129)AAA>ACA	p.K43T	TMEM128_uc003ghq.1_Missense_Mutation_p.K19T|TMEM128_uc003ghs.2_Missense_Mutation_p.K43T|TMEM128_uc011bvv.1_Missense_Mutation_p.K43T|TMEM128_uc011bvw.1_Missense_Mutation_p.K43T	NM_032927	NP_116316	Q5BJH2	TM128_HUMAN	transmembrane protein 128	43				K -> E (in Ref. 2; CAI45928).		integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (64;0.166)		TGGAAGAGGTTTCTCCTTTTT	0.353													37	74					0	0	1	0	0		G	4248040	G	G	4248040	3	3	89	1	0	0	0	0	1	0	0	0	16066	1841	64	5	381	5	TMEM128	4	4248040	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	731402	4248040	186906236	1819	55650											
CYTL1	54360	broad.mit.edu	37	chr4	5018581	5018581	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctcctgcagaacgagttCatgatggtgtacagcttccg	9	11	10	11	2	2	2	1	1	1	1	4	3	3	2	2	1	4	4	2	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:5018581C>A	uc003gig.2	-	3	334	c.309G>T	c.(307-309)ATG>ATT	p.M103I		NM_018659	NP_061129	Q9NRR1	CYTL1_HUMAN	cytokine-like 1 precursor	103					signal transduction	extracellular space|soluble fraction	receptor binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.164)		AGAACGAGTTCATGATGGTGT	0.498													66	111					2.60599e-31	3.19155e-31	1	1	0		A	5018581	A	A	5018581	3	1	89	1	0	0	0	0	1	0	0	0	4211	826	29	5	109	5	CYTL1	4	5018581	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	770541	5018581	186135695	1820	55651											
C4orf6	10141	broad.mit.edu	37	chr4	5528021	5528021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacccaaaccccagtgtgaCtgtctccggtgctcactcaa	9	9	8	15	1	3	2	2	2	1	0	4	2	3	2	4	1	2	1	4	1	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:5528021C>T	uc003gii.2	+	2	420	c.245C>T	c.(244-246)ACT>ATT	p.T82I		NM_005750	NP_005741	Q99440	CD006_HUMAN	chromosome 4 open reading frame 6	82					nervous system development						0						CCCAGTGTGACTGTCTCCGGT	0.458													19	44					0	0	1	0	0		T	5528021	T	T	5528021	3	4	89	1	0	0	0	0	1	0	0	0	2281	565	20	4	251	4	C4orf6	4	5528021	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	509440	5528021	185626255	1821	55652											
EVC2	132884	broad.mit.edu	37	chr4	5683025	5683025	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttatggaaaaaagcacttTcagctgtgttctgttctaga	11	15	9	6	0	3	1	1	0	2	1	3	2	3	2	0	1	2	5	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:5683025T>G	uc003gij.2	-	7	886	c.832A>C	c.(832-834)AAA>CAA	p.K278Q	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Missense_Mutation_p.K198Q	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	278						integral to membrane				large_intestine(3)|ovary(2)	5						AAAAGCACTTTCAGCTGTGTT	0.468													15	35					0	0	1	0	0		G	5683025	G	G	5683025	3	3	89	1	0	0	0	0	1	0	0	0	5294	1792	62	5	3158	5	EVC2	4	5683025	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	155004	5683025	185471251	1822	55653											
EVC	2121	broad.mit.edu	37	chr4	5750029	5750029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgattctcaggagctgcaggCtctggtaatgctggaggggg	7	9	17	8	1	2	0	1	0	2	0	3	3	2	2	0	6	3	5	0	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:5750029C>T	uc003gil.1	+	8	1278	c.1094C>T	c.(1093-1095)GCT>GTT	p.A365V	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Silent_p.E458E	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	365					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				GAGCTGCAGGCTCTGGTAATG	0.473													11	34					0	0	1	0	0		T	5750029	T	T	5750029	3	4	89	1	0	0	0	0	1	0	0	0	5293	797	28	2	1124	2	EVC	4	5750029	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	67004	5750029	185404247	1823	55654											
CRMP1	1400	broad.mit.edu	37	chr4	5862925	5862925	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaccaggaacgattaagttCtctcctatttgtctggaggc	9	12	9	11	1	2	0	0	0	2	0	4	3	3	2	3	3	1	1	3	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:5862925C>T	uc003gip.2	-	4	242	c.141G>A	c.(139-141)GAG>GAA	p.E47E	CRMP1_uc003gin.1_Intron|CRMP1_uc003giq.2_Silent_p.E47E|CRMP1_uc003gir.2_Silent_p.E42E|CRMP1_uc003gis.2_Silent_p.E161E	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	47					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		CGATTAAGTTCTCTCCTATTT	0.453													32	64					0	0	1	0	0		T	5862925	T	T	5862925	2	4	89	1	0	0	0	0	0	0	0	1	3893	912	32	4		4	CRMP1	4	5862925	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	112896	5862925	185291351	1824	55655											
C4orf50	389197	broad.mit.edu	37	chr4	5961154	5961154	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgggaattgctgcaaatgCtttgtctaagctcttggtga	8	14	11	8	0	2	1	0	1	2	0	2	2	2	2	1	2	4	4	1	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:5961154C>A	uc003git.1	-	7	869	c.779G>T	c.(778-780)AGC>ATC	p.S260I		NM_207405	NP_997288	Q6ZRC1	CD050_HUMAN	hypothetical protein LOC389197	260										pancreas(2)|breast(1)	3						GCTGCAAATGCTTTGTCTAAG	0.493													27	87					1.75199e-13	1.95935e-13	1	1	0		A	5961154	A	A	5961154	3	1	89	1	0	0	0	0	1	0	0	0	2279	797	28	5	55	5	C4orf50	4	5961154	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	98229	5961154	185193122	1825	55656											
JAKMIP1	152789	broad.mit.edu	37	chr4	6066724	6066724	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatccaaaaaatgtctcCacaacatgcttctgtaaaac	17	10	3	11	0	3	0	1	0	2	0	5	0	4	0	2	0	3	2	2	0	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:6066724C>A	uc003giu.3	-	9	1590	c.1314G>T	c.(1312-1314)GTG>GTT	p.V438V	JAKMIP1_uc010idb.1_Silent_p.V438V|JAKMIP1_uc010idc.1_Silent_p.V253V|JAKMIP1_uc010idd.1_Silent_p.V438V|JAKMIP1_uc011bwc.1_Silent_p.V273V|JAKMIP1_uc003giv.3_Silent_p.V438V|JAKMIP1_uc010ide.2_Silent_p.V438V	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	438	Mediates interaction with TYK2 and GABBR1.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						AAAATGTCTCCACAACATGCT	0.512													22	81					1.55795e-14	1.75964e-14	1	1	0		A	6066724	A	A	6066724	2	1	89	1	0	0	0	0	0	0	0	1	7956	581	21	5		5	JAKMIP1	4	6066724	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	105570	6066724	185087552	1826	55657											
JAKMIP1	152789	broad.mit.edu	37	chr4	6114646	6114646	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcacgccagccagcaggcGtggctaccagctccaccgtg	8	4	12	17	4	0	0	0	0	0	0	1	0	1	0	5	2	4	4	5	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:6114646G>A	uc003giu.3	-	2	208	c.-68C>T	c.(-70--66)CACGC>CATGC		JAKMIP1_uc010idb.1_Translation_Start_Site|JAKMIP1_uc010idc.1_Translation_Start_Site|JAKMIP1_uc010idd.1_Translation_Start_Site|JAKMIP1_uc011bwc.1_Translation_Start_Site|JAKMIP1_uc003giv.3_Translation_Start_Site|JAKMIP1_uc010ide.2_Translation_Start_Site	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein						protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GCCAGCAGGCGTGGCTACCAG	0.607													9	10					0	0	1	0	0		A	6114646	A	A	6114646	1	1	89	1	0	0	0	0	0	0	0	0	7956	1160	40	1		1	JAKMIP1	4	6114646	Translation_Start_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	47922	6114646	185039630	1827	55658											
CCDC96	257236	broad.mit.edu	37	chr4	7043201	7043201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtctgatgttgtccgtccGcagcccctctcgggcttgct	3	12	11	15	3	2	1	0	1	2	0	5	1	4	1	4	1	2	4	4	1	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:7043201G>A	uc003gjv.2	-	1	1528	c.1465C>T	c.(1465-1467)CGG>TGG	p.R489W	TADA2B_uc003gjw.3_5'Flank|TADA2B_uc010idi.2_5'Flank	NM_153376	NP_699207	Q2M329	CCD96_HUMAN	coiled-coil domain containing 96	489											0						TTGTCCGTCCGCAGCCCCTCT	0.557													73	125					0	0	1	0	0		A	7043201	A	A	7043201	3	1	89	1	0	0	0	0	1	0	0	0	2877	1086	38	1	206	1	CCDC96	4	7043201	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	928555	7043201	184111075	1828	55659											
SORCS2	57537	broad.mit.edu	37	chr4	7705057	7705057	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggaccacggcggcgtgatCgtggccatcaaagacacctc	9	6	12	14	4	1	2	1	1	0	1	3	3	1	3	3	4	0	0	3	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:7705057C>T	uc003gkb.3	+	13	1719	c.1719C>T	c.(1717-1719)ATC>ATT	p.I573I	SORCS2_uc011bwi.1_Silent_p.I401I	NM_020777	NP_065828	Q96PQ0	SORC2_HUMAN	VPS10 domain receptor protein SORCS 2 precursor	573	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2						GCGGCGTGATCGTGGCCATCA	0.602													8	17					0	0	1	0	0		T	7705057	T	T	7705057	2	4	89	1	0	0	0	0	0	0	0	1	14956	874	31	1		1	SORCS2	4	7705057	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	661856	7705057	183449219	1829	55660											
SORCS2	57537	broad.mit.edu	37	chr4	7706006	7706006	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggggacgagacgctggtCatgacgtgagtgcggggacc	8	5	18	10	4	1	3	1	2	0	1	1	6	1	5	2	5	1	1	2	5	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:7706006C>A	uc003gkb.3	+	14	1863	c.1863C>A	c.(1861-1863)GTC>GTA	p.V621V	SORCS2_uc011bwi.1_Silent_p.V449V	NM_020777	NP_065828	Q96PQ0	SORC2_HUMAN	VPS10 domain receptor protein SORCS 2 precursor	621	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2						AGACGCTGGTCATGACGTGAG	0.662													3	13					1	1	1	1	0		A	7706006	A	A	7706006	2	1	89	1	0	0	0	0	0	0	0	1	14956	813	29	5		5	SORCS2	4	7706006	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	949	7706006	183448270	1830	55661											
SH3TC1	54436	broad.mit.edu	37	chr4	8214461	8214461	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgctggctgtgcggaggaAgagcagactgcgggaccccg	7	5	18	11	3	0	2	0	0	0	2	0	5	0	5	2	4	4	4	2	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:8214461A>C	uc003gkv.3	+	4	382	c.281A>C	c.(280-282)AAG>ACG	p.K94T	SH3TC1_uc003gkw.3_Missense_Mutation_p.K18T|SH3TC1_uc003gkx.3_RNA	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	94							binding			large_intestine(2)|pancreas(1)	3						GTGCGGAGGAAGAGCAGACTG	0.667													14	17					0	0	1	0	0		C	8214461	C	C	8214461	3	2	89	1	0	0	0	0	1	0	0	0	14286	72	3	5	291	5	SH3TC1	4	8214461	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	508455	8214461	182939815	1831	55662											
HTRA3	94031	broad.mit.edu	37	chr4	8305989	8305989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatgtgcaagaggttgcgccGaattcaccttctcagaggta	10	11	11	9	2	2	2	2	0	1	2	3	3	2	2	2	2	2	3	2	2	4	5	rs145508993		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:8305989G>A	uc003gla.2	+	8	1383	c.1179G>A	c.(1177-1179)CCG>CCA	p.P393P		NM_053044	NP_444272	P83110	HTRA3_HUMAN	HtrA serine peptidase 3 precursor	393	PDZ.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity			ovary(1)	1						AGGTTGCGCCGAATTCACCTT	0.597													21	32					0	0	1	0	0		A	8305989	A	A	8305989	2	1	89	1	0	0	0	0	0	0	0	1	7471	1045	37	1		1	HTRA3	4	8305989	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	91528	8305989	182848287	1832	55663											
GPR78	27201	broad.mit.edu	37	chr4	8583065	8583065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgctacgccggacgcctgcGaccgcgctatgccggcctgc	4	5	14	18	8	0	0	0	0	0	0	0	2	0	1	5	2	4	2	5	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:8583065G>A	uc003glk.2	+	1	775	c.356G>A	c.(355-357)CGA>CAA	p.R119Q	CPZ_uc003gll.2_RNA	NM_080819	NP_543009	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	119	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(4)|ovary(2)	6						GGACGCCTGCGACCGCGCTAT	0.706													7	8					0	0	1	0	0		A	8583065	A	A	8583065	3	1	89	1	0	0	0	0	1	0	0	0	6725	1058	37	1	358	1	GPR78	4	8583065	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	277076	8583065	182571211	1833	55664											
GPR78	27201	broad.mit.edu	37	chr4	8589021	8589021	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgctgaagagaaccccGcgcccagcgtccacccacaa	11	3	9	18	3	0	2	0	1	0	1	1	3	1	2	5	0	4	2	5	0	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:8589021G>A	uc003glk.2	+	3	1442	c.1023G>A	c.(1021-1023)CCG>CCA	p.P341P	CPZ_uc003gll.2_Intron	NM_080819	NP_543009	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	341	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(4)|ovary(2)	6						AGAGAACCCCGCGCCCAGCGT	0.642													28	60					0	0	1	0	0		A	8589021	A	A	8589021	2	1	89	1	0	0	0	0	0	0	0	1	6725	1074	38	1		1	GPR78	4	8589021	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5956	8589021	182565255	1834	55665											
HS3ST1	9957	broad.mit.edu	37	chr4	11400898	11400898	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttttgttaaagtagaagttCgaagcattgatctgcggcga	11	13	12	5	3	1	2	0	1	1	1	2	4	1	2	0	1	2	5	0	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:11400898C>T	uc003gmq.2	-	2	1055	c.732G>A	c.(730-732)TCG>TCA	p.S244S		NM_005114	NP_005105	O14792	HS3S1_HUMAN	heparan sulfate D-glucosaminyl	244						Golgi lumen|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			skin(1)	1						AGTAGAAGTTCGAAGCATTGA	0.572													23	40					0	0	1	0	0		T	11400898	T	T	11400898	2	4	89	1	0	0	0	0	0	0	0	1	7379	871	31	1		1	HS3ST1	4	11400898	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2811877	11400898	179753378	1835	55666											
RAB28	9364	broad.mit.edu	37	chr4	13383192	13383192	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtaagtgtttttcaggttTtattgttcgcatatgctcca	7	18	8	8	2	1	0	1	0	0	0	3	0	2	0	2	1	1	6	2	1	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:13383192T>G	uc003gmu.2	-	5	633	c.418A>C	c.(418-420)AAA>CAA	p.K140Q	RAB28_uc003gmt.2_Missense_Mutation_p.K140Q|RAB28_uc011bwz.1_Missense_Mutation_p.K140Q|RAB28_uc003gmv.2_RNA	NM_001017979	NP_001017979	P51157	RAB28_HUMAN	RAB28, member RAS oncogene family isoform 1	140					small GTPase mediated signal transduction	plasma membrane	GDP binding|GTP binding|GTPase activity			ovary(1)|skin(1)	2						TTTTCAGGTTTTATTGTTCGC	0.318													13	36					0	0	1	0	0		G	13383192	G	G	13383192	3	3	89	1	0	0	0	0	1	0	0	0	12941	1850	64	5	399	5	RAB28	4	13383192	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1982294	13383192	177771084	1836	55667											
BOD1L	259282	broad.mit.edu	37	chr4	13579056	13579056	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgatacagtgagagaacgtTtgggttttcttcctctccga	8	14	10	9	2	2	3	0	2	2	1	4	5	3	3	2	1	2	2	2	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:13579056T>G	uc003gmz.1	-	24	8972	c.8855A>C	c.(8854-8856)AAA>ACA	p.K2952T		NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2952							DNA binding			ovary(5)|breast(1)	6						GAGAGAACGTTTGGGTTTTCT	0.353													10	20					0	0	1	0	0		G	13579056	G	G	13579056	3	3	89	1	0	0	0	0	1	0	0	0	1484	1841	64	5	312	5	BOD1L	4	13579056	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	195864	13579056	177575220	1837	55668											
BOD1L	259282	broad.mit.edu	37	chr4	13603585	13603585	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatcatccttttcctctgTcacaacgctatttacattgg	9	15	5	12	1	3	0	2	0	1	0	5	0	5	0	2	1	3	2	2	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:13603585T>C	uc003gmz.1	-	10	5056	c.4939A>G	c.(4939-4941)ACA>GCA	p.T1647A	BOD1L_uc010idr.1_Missense_Mutation_p.T984A	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1647							DNA binding			ovary(5)|breast(1)	6						TTTTCCTCTGTCACAACGCTA	0.438													86	169					0	0	1	0	0		C	13603585	C	C	13603585	3	2	89	1	0	0	0	0	1	0	0	0	1484	1667	58	3	4284	3	BOD1L	4	13603585	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	24529	13603585	177550691	1838	55669											
BOD1L	259282	broad.mit.edu	37	chr4	13603599	13603599	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctctgtcacaacgctatttAcattggcttcgattttaact	9	16	5	11	2	2	0	1	0	1	0	3	1	2	0	1	1	3	2	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:13603599A>G	uc003gmz.1	-	10	5042	c.4925T>C	c.(4924-4926)GTA>GCA	p.V1642A	BOD1L_uc010idr.1_Missense_Mutation_p.V979A	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1642							DNA binding			ovary(5)|breast(1)	6						AACGCTATTTACATTGGCTTC	0.453													76	151					0	0	1	0	0		G	13603599	G	G	13603599	3	3	89	1	0	0	0	0	1	0	0	0	1484	391	14	3	4298	3	BOD1L	4	13603599	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	14	13603599	177550677	1839	55670											
CC2D2A	57545	broad.mit.edu	37	chr4	15504497	15504497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccactcctcggcccagacGcttacgaagtcccagtaaga	10	6	8	17	3	0	2	0	0	0	2	3	3	2	2	5	1	1	2	5	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:15504497G>A	uc010idv.2	+	7	634	c.389G>A	c.(388-390)CGC>CAC	p.R130H	CC2D2A_uc003gnx.2_Missense_Mutation_p.R81H|CC2D2A_uc003gnu.2_Missense_Mutation_p.R130H|CC2D2A_uc003gnv.2_Missense_Mutation_p.R130H	NM_001080522	NP_001073991	Q9P2K1	C2D2A_HUMAN	coiled-coil and C2 domain containing 2A isoform	130					cell projection organization	cilium|microtubule basal body				pancreas(2)|ovary(1)	3						CGGCCCAGACGCTTACGAAGT	0.433													6	11					0	0	1	0	0		A	15504497	A	A	15504497	3	1	89	1	0	0	0	0	1	0	0	0	2731	1087	38	1	610	1	CC2D2A	4	15504497	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1900898	15504497	175649779	1840	55671											
CC2D2A	57545	broad.mit.edu	37	chr4	15581677	15581677	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagtttccaaatcgtcagtgCcttacaacagtaattgatat	14	13	6	8	1	1	1	1	1	0	0	3	1	2	1	2	0	3	2	2	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:15581677C>T	uc010idv.2	+	31	4103	c.3858C>T	c.(3856-3858)TGC>TGT	p.C1286C	CC2D2A_uc003gnx.2_Silent_p.C1178C|CC2D2A_uc003gnz.1_RNA|CC2D2A_uc003goa.1_RNA	NM_001080522	NP_001073991	Q9P2K1	C2D2A_HUMAN	coiled-coil and C2 domain containing 2A isoform	1286					cell projection organization	cilium|microtubule basal body				pancreas(2)|ovary(1)	3						ATCGTCAGTGCCTTACAACAG	0.373													10	118					0	0	1	0	0		T	15581677	T	T	15581677	2	4	89	1	0	0	0	0	0	0	0	1	2731	747	26	2		2	CC2D2A	4	15581677	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	77180	15581677	175572599	1841	55672											
CC2D2A	57545	broad.mit.edu	37	chr4	15589443	15589443	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttctttttgtcagcaatTtcttgatctcctggcagggg	5	19	9	8	0	4	1	1	1	3	0	5	1	4	1	1	3	1	2	1	3	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:15589443T>G	uc010idv.2	+	33	4315	c.4070T>G	c.(4069-4071)TTT>TGT	p.F1357C	CC2D2A_uc003gnx.2_Missense_Mutation_p.F1249C|CC2D2A_uc003gnz.1_RNA|CC2D2A_uc003goa.1_RNA	NM_001080522	NP_001073991	Q9P2K1	C2D2A_HUMAN	coiled-coil and C2 domain containing 2A isoform	1357					cell projection organization	cilium|microtubule basal body				pancreas(2)|ovary(1)	3						TGTCAGCAATTTCTTGATCTC	0.388													7	15					0	0	1	0	0		G	15589443	G	G	15589443	3	3	89	1	0	0	0	0	1	0	0	0	2731	1841	64	5	4395	5	CC2D2A	4	15589443	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	7766	15589443	175564833	1842	55673											
FBXL5	26234	broad.mit.edu	37	chr4	15627020	15627020	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgctgcttttctacacaTtgcagaagattctgggagtg	8	14	10	9	0	2	2	0	0	2	2	2	3	2	3	1	1	4	3	1	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:15627020T>G	uc003goc.1	-	9	1808	c.1705A>C	c.(1705-1707)ATG>CTG	p.M569L	FBXL5_uc010idw.1_Missense_Mutation_p.M482L|FBXL5_uc003gob.1_Missense_Mutation_p.M443L|FBXL5_uc010idx.1_Missense_Mutation_p.M568L|FBXL5_uc003god.1_Missense_Mutation_p.M552L|FBXL5_uc010idy.1_Missense_Mutation_p.M569L	NM_012161	NP_036293	Q9UKA1	FBXL5_HUMAN	F-box and leucine-rich repeat protein 5 isoform	569					iron ion homeostasis|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|SCF ubiquitin ligase complex	iron ion binding|protein binding|ubiquitin-protein ligase activity				0						TTTCTACACATTGCAGAAGAT	0.418													15	27					0	0	1	0	0		G	15627020	G	G	15627020	3	3	89	1	0	0	0	0	1	0	0	0	5736	1493	52	5	382	5	FBXL5	4	15627020	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	37577	15627020	175527256	1843	55674											
CD38	952	broad.mit.edu	37	chr4	15850203	15850203	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaaaaatcctgaggattCatcttgcacatctgagatct	12	13	8	8	0	4	3	1	3	3	1	5	5	5	4	1	1	1	1	1	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:15850203C>A	uc011bxc.1	+	8	988	c.881C>A	c.(880-882)TCA>TAA	p.S294*	CD38_uc003gol.1_Nonsense_Mutation_p.S294*	NM_001775	NP_001766	P28907	CD38_HUMAN	CD38 antigen	294	Extracellular (Potential).				B cell receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of apoptosis|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of transcription, DNA-dependent|response to drug	integral to membrane|plasma membrane	binding|NAD+ nucleosidase activity|receptor activity			ovary(2)	2						CCTGAGGATTCATCTTGCACA	0.428													14	39					7.93312e-07	8.28085e-07	1	1	0		A	15850203	A	A	15850203	4	1	89	1	0	0	0	0	0	1	0	0	3012	838	29	5	911	5	CD38	4	15850203	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	223183	15850203	175304073	1844	55675											
CLRN2	645104	broad.mit.edu	37	chr4	17528593	17528593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggatctgcgtggccagcgCttcggcccatgctgcaaact	6	10	12	13	3	1	0	0	0	1	0	2	1	1	1	2	3	5	3	2	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:17528593C>T	uc003gpg.1	+	3	689	c.587C>T	c.(586-588)GCT>GTT	p.A196V		NM_001079827	NP_001073296	A0PK11	CLRN2_HUMAN	clarin 2	196	Helical; (Potential).					integral to membrane					0						GTGGCCAGCGCTTCGGCCCAT	0.527													29	47					0	0	1	0	0		T	17528593	T	T	17528593	3	4	89	1	0	0	0	0	1	0	0	0	3561	797	28	2	597	2	CLRN2	4	17528593	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1678390	17528593	173625683	1845	55676											
NCAPG	64151	broad.mit.edu	37	chr4	17838918	17838918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaagaggatgttcaacttcGacattgcctaggcgtgttct	9	13	11	8	2	2	2	1	1	1	1	3	4	2	3	1	2	2	2	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:17838918G>A	uc003gpp.2	+	15	2422	c.2246G>A	c.(2245-2247)CGA>CAA	p.R749Q	NCAPG_uc011bxj.1_Missense_Mutation_p.R258Q	NM_022346	NP_071741	Q9BPX3	CND3_HUMAN	chromosome condensation protein G	749					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	protein binding			large_intestine(1)	1				STAD - Stomach adenocarcinoma(129;0.18)		GTTCAACTTCGACATTGCCTA	0.428													24	58					0	0	1	0	0		A	17838918	A	A	17838918	3	1	89	1	0	0	0	0	1	0	0	0	10226	1058	37	1	2304	1	NCAPG	4	17838918	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	310325	17838918	173315358	1846	55677											
NCAPG	64151	broad.mit.edu	37	chr4	17845005	17845005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccgcagcactagaaaaaaGtaaacttaaccttgcccaat	18	7	5	11	1	0	1	0	0	0	1	0	1	0	1	3	0	5	3	3	0	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:17845005G>A	uc003gpp.2	+	21	3181	c.3005G>A	c.(3004-3006)AGT>AAT	p.S1002N	NCAPG_uc011bxj.1_Missense_Mutation_p.S511N|LCORL_uc003gpq.2_3'UTR|LCORL_uc011bxk.1_3'UTR	NM_022346	NP_071741	Q9BPX3	CND3_HUMAN	chromosome condensation protein G	1002					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	protein binding			large_intestine(1)	1				STAD - Stomach adenocarcinoma(129;0.18)		CTAGAAAAAAGTAAACTTAAC	0.353													7	121					0	0	1	0	0		A	17845005	A	A	17845005	3	1	89	1	0	0	0	0	1	0	0	0	10226	1029	36	4	3087	4	NCAPG	4	17845005	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6087	17845005	173309271	1847	55678											
SLIT2	9353	broad.mit.edu	37	chr4	20598177	20598177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttgcctggctatcagggaGaaaagtgtgaaaaattggtt	12	12	13	4	0	1	2	1	1	0	1	1	3	1	2	1	3	1	3	1	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:20598177G>A	uc003gpr.1	+	32	3664	c.3460G>A	c.(3460-3462)GAA>AAA	p.E1154K	SLIT2_uc003gps.1_Missense_Mutation_p.E1146K	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1154	EGF-like 6.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CTATCAGGGAGAAAAGTGTGA	0.403													24	41					0	0	1	0	0		A	20598177	A	A	20598177	3	1	89	1	0	0	0	0	1	0	0	0	14765	943	33	4	3586	4	SLIT2	4	20598177	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2753172	20598177	170556099	1848	55679											
SLIT2	9353	broad.mit.edu	37	chr4	20618673	20618673	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccgatgcaaacaggcattTtgcctggctgtgagccatgc	8	10	12	11	1	0	1	0	1	0	0	0	2	0	1	3	2	6	3	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:20618673T>G	uc003gpr.1	+	35	4192	c.3988T>G	c.(3988-3990)TTG>GTG	p.L1330V	SLIT2_uc003gps.1_Missense_Mutation_p.L1322V	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1330	Laminin G-like.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						AACAGGCATTTTGCCTGGCTG	0.587													26	51					0	0	1	0	0		G	20618673	G	G	20618673	3	3	89	1	0	0	0	0	1	0	0	0	14765	1838	64	5	4126	5	SLIT2	4	20618673	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	20496	20618673	170535603	1849	55680											
DHX15	1665	broad.mit.edu	37	chr4	24550623	24550623	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaacttcacgctttattCtcttacaggcttcatcaatt	10	16	3	12	1	5	0	4	0	1	0	6	0	5	0	0	1	2	2	0	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:24550623C>A	uc003gqx.2	-	6	1271	c.1103G>T	c.(1102-1104)AGA>ATA	p.R368I		NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	368	Helicase C-terminal.				mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				ACGCTTTATTCTCTTACAGGC	0.343													29	46					1.68575e-08	1.7923e-08	1	1	0		A	24550623	A	A	24550623	3	1	89	1	0	0	0	0	1	0	0	0	4507	913	32	5	1320	5	DHX15	4	24550623	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3931950	24550623	166603653	1850	55681											
LGI2	55203	broad.mit.edu	37	chr4	25019737	25019737	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaaccacaggtatagccActtggctttgcagtcacatt	10	12	7	12	0	2	0	2	0	0	0	2	0	2	0	2	2	3	3	2	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:25019737A>C	uc003grf.2	-	6	628	c.529T>G	c.(529-531)TGG>GGG	p.W177G		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	177	LRRCT.					extracellular region					0		Breast(46;0.173)				AGGTATAGCCACTTGGCTTTG	0.383													34	80					0	0	1	0	0		C	25019737	C	C	25019737	3	2	89	1	0	0	0	0	1	0	0	0	8768	159	6	5	1120	5	LGI2	4	25019737	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	469114	25019737	166134539	1851	55682											
LGI2	55203	broad.mit.edu	37	chr4	25030162	25030162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggcagatgggaaaacattCggtccttgatttctgaaaac	14	10	10	7	1	1	3	0	2	1	1	3	4	2	4	1	3	2	1	1	3	5	3	rs139692298		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:25030162C>T	uc003grf.2	-	2	335	c.236G>A	c.(235-237)CGA>CAA	p.R79Q		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	79						extracellular region					0		Breast(46;0.173)				GGAAAACATTCGGTCCTTGAT	0.522													7	13					0	0	1	0	0		T	25030162	T	T	25030162	3	4	89	1	0	0	0	0	1	0	0	0	8768	884	31	1	1429	1	LGI2	4	25030162	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10425	25030162	166124114	1852	55683											
ZCCHC4	29063	broad.mit.edu	37	chr4	25315706	25315706	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaggtgacccaagggaaaGaagaaactcggaggttttat	16	8	12	5	1	0	3	0	1	0	2	1	5	0	5	1	4	1	1	1	4	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:25315706G>T	uc003grl.3	+	2	202	c.166G>T	c.(166-168)GAA>TAA	p.E56*		NM_024936	NP_079212	Q9H5U6	ZCHC4_HUMAN	zinc finger, CCHC domain containing 4	56							methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(2)	2		Breast(46;0.0503)				CCAAGGGAAAGAAGAAACTCG	0.363													63	112					1.53582e-20	1.8142e-20	1	1	0		T	25315706	T	T	25315706	4	4	89	1	0	0	0	0	0	1	0	0	17615	943	33	5	172	5	ZCCHC4	4	25315706	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	285544	25315706	165838570	1853	55684											
SLC34A2	10568	broad.mit.edu	37	chr4	25665855	25665855	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagggaagattctctgtttCttccaagggattgggagatt	11	13	12	5	0	2	2	0	0	2	2	4	5	3	4	1	3	0	1	1	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:25665855C>A	uc003grr.2	+	4	363	c.282C>A	c.(280-282)TTC>TTA	p.F94L	SLC34A2_uc003grs.2_Missense_Mutation_p.F93L|SLC34A2_uc010iev.2_Missense_Mutation_p.F93L	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	94	Cytoplasmic (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				TTCTCTGTTTCTTCCAAGGGA	0.478													55	81					7.47603e-22	8.88748e-22	1	1	0		A	25665855	A	A	25665855	3	1	89	1	0	0	0	0	1	0	0	0	14593	912	32	5	292	5	SLC34A2	4	25665855	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	350149	25665855	165488421	1854	55685											
SEL1L3	23231	broad.mit.edu	37	chr4	25769163	25769163	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataccaaaggaaggagcatcGatttgaaaaacagagaaatt	20	7	9	5	1	0	2	0	1	0	1	1	6	0	4	1	2	3	1	1	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:25769163G>A	uc003gru.3	-	19	2981	c.2829C>T	c.(2827-2829)ATC>ATT	p.I943I	SEL1L3_uc003grt.2_5'UTR|SEL1L3_uc003grv.2_Silent_p.I350I	NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	943						integral to membrane	binding				0						AAGGAGCATCGATTTGAAAAA	0.373													6	5					0	0	1	0	0		A	25769163	A	A	25769163	2	1	89	1	0	0	0	0	0	0	0	1	14037	1048	37	1		1	SEL1L3	4	25769163	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	103308	25769163	165385113	1855	55686											
SEL1L3	23231	broad.mit.edu	37	chr4	25834646	25834646	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttaaaagagatatccagtcGaaaccactccttcaaaggta	16	9	7	9	1	1	1	1	0	0	1	4	3	3	1	3	1	1	2	3	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:25834646G>A	uc003gru.3	-	5	1221	c.1069C>T	c.(1069-1071)CGA>TGA	p.R357*		NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	357						integral to membrane	binding				0						ATATCCAGTCGAAACCACTCC	0.393													29	55					0	0	1	0	0		A	25834646	A	A	25834646	4	1	89	1	0	0	0	0	0	1	0	0	14037	1066	37	1	2409	1	SEL1L3	4	25834646	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	65483	25834646	165319630	1856	55687											
RBPJ	3516	broad.mit.edu	37	chr4	26407849	26407849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggatcaaacagtacttattCttcatgcaaaagttgcacag	14	11	8	8	0	3	0	2	0	1	0	3	1	3	1	0	1	4	4	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:26407849C>T	uc003grx.1	+	4	387	c.151C>T	c.(151-153)CTT>TTT	p.L51F	RBPJ_uc003gry.1_Missense_Mutation_p.L36F|RBPJ_uc003grz.1_Missense_Mutation_p.L51F|RBPJ_uc011bxt.1_Missense_Mutation_p.L51F|RBPJ_uc003gsa.1_Missense_Mutation_p.L37F|RBPJ_uc003gsb.1_Missense_Mutation_p.L38F|RBPJ_uc003gsc.1_Missense_Mutation_p.L37F	NM_005349	NP_005340	Q06330	SUH_HUMAN	recombining binding protein suppressor of	51					DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)				AGTACTTATTCTTCATGCAAA	0.318													39	72					0	0	1	0	0		T	26407849	T	T	26407849	3	4	89	1	0	0	0	0	1	0	0	0	13186	913	32	4	224	4	RBPJ	4	26407849	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	573203	26407849	164746427	1857	55688											
CCKAR	886	broad.mit.edu	37	chr4	26483749	26483749	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttgcaggtaacacccatcGctgtcctcatatttgccgct	7	14	7	13	2	1	0	1	0	0	0	3	0	2	0	3	1	3	4	3	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:26483749G>A	uc003gse.1	-	5	951	c.798C>T	c.(796-798)AGC>AGT	p.S266S		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	266	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	AACACCCATCGCTGTCCTCAT	0.602													32	63					0	0	1	0	0		A	26483749	A	A	26483749	2	1	89	1	0	0	0	0	0	0	0	1	2883	1078	38	1		1	CCKAR	4	26483749	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	75900	26483749	164670527	1858	55689											
TBC1D19	55296	broad.mit.edu	37	chr4	26685314	26685314	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggatgtcttgtattatgaGcagcttaagaccaatgtgat	12	14	10	5	0	1	3	0	2	1	1	1	4	1	4	1	1	2	3	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:26685314G>A	uc003gsf.3	+	12	1104	c.834G>A	c.(832-834)GAG>GAA	p.E278E	TBC1D19_uc010iew.2_Silent_p.E278E|TBC1D19_uc011bxu.1_Silent_p.E213E	NM_018317	NP_060787	Q8N5T2	TBC19_HUMAN	TBC1 domain family, member 19	278	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			breast(1)	1		Breast(46;0.0503)				TGTATTATGAGCAGCTTAAGA	0.269													31	78					0	0	1	0	0		A	26685314	A	A	26685314	2	1	89	1	0	0	0	0	0	0	0	1	15632	962	34	2		2	TBC1D19	4	26685314	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	201565	26685314	164468962	1859	55690											
STIM2	57620	broad.mit.edu	37	chr4	27019550	27019550	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagtgtcaagttgccctgcGctttatcgaaatgaagagga	11	11	11	8	2	2	2	2	1	0	1	3	4	2	3	1	1	2	2	1	1	4	3	rs148666846		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:27019550G>A	uc003gsh.3	+	12	2208	c.1992G>A	c.(1990-1992)GCG>GCA	p.A664A	STIM2_uc003gsg.3_Silent_p.A656A|STIM2_uc010iex.2_Silent_p.A656A|STIM2_uc010iey.2_Silent_p.A280A	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2	569	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)				GTTGCCCTGCGCTTTATCGAA	0.532													122	262					0	0	1	0	0		A	27019550	A	A	27019550	2	1	89	1	0	0	0	0	0	0	0	1	15309	1074	38	1		1	STIM2	4	27019550	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	334236	27019550	164134726	1860	55691											
PCDH7	5099	broad.mit.edu	37	chr4	30723560	30723560	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagccaccgaccgcgacttCggccgcaacggcatcgagcg	9	3	12	17	8	0	0	0	0	0	0	2	3	0	0	4	2	3	2	4	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:30723560C>T	uc003gsk.1	+	1	1524	c.516C>T	c.(514-516)TTC>TTT	p.F172F	PCDH7_uc011bxw.1_Silent_p.F172F|PCDH7_uc011bxx.1_Silent_p.F172F	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	172	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						ACCGCGACTTCGGCCGCAACG	0.483													7	8					0	0	1	0	0		T	30723560	T	T	30723560	2	4	89	1	0	0	0	0	0	0	0	1	11535	883	31	1		1	PCDH7	4	30723560	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3704010	30723560	160430716	1861	55692											
PCDH7	5099	broad.mit.edu	37	chr4	30723906	30723906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgacggcggcgacccgcctCgctcctcgcaggccatccta	5	5	12	19	7	0	0	0	0	0	0	4	2	2	0	5	3	0	2	5	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:30723906C>T	uc003gsk.1	+	1	1870	c.862C>T	c.(862-864)CGC>TGC	p.R288C	PCDH7_uc011bxw.1_Intron|PCDH7_uc011bxx.1_Missense_Mutation_p.R288C	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	288	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						CGACCCGCCTCGCTCCTCGCA	0.672													5	14					0	0	1	0	0		T	30723906	T	T	30723906	3	4	89	1	0	0	0	0	1	0	0	0	11535	884	31	1	864	1	PCDH7	4	30723906	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	346	30723906	160430370	1862	55693											
PTTG2	10744	broad.mit.edu	37	chr4	37962363	37962363	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgttaaaacaaaaagttCtgttcctgcctcagatgacg	13	11	8	9	1	2	2	1	1	1	1	3	3	3	2	2	0	2	3	2	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:37962363C>A	uc011bye.1	+	1	308	c.308C>A	c.(307-309)TCT>TAT	p.S103Y	TBC1D1_uc003gtb.2_Intron|TBC1D1_uc011byd.1_Intron|TBC1D1_uc010ifd.2_Intron	NM_006607	NP_006598	Q9NZH5	PTTG2_HUMAN	pituitary tumor-transforming 2	103					chromosome organization|DNA metabolic process	cytoplasm|nucleus	SH3 domain binding				0						ACAAAAAGTTCTGTTCCTGCC	0.408													49	110					8.72198e-27	1.05727e-26	1	1	0		A	37962363	A	A	37962363	3	1	89	1	0	0	0	0	1	0	0	0	12846	913	32	5	310	5	PTTG2	4	37962363	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7238457	37962363	153191913	1863	55694											
KLF3	51274	broad.mit.edu	37	chr4	38690382	38690382	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccttcggctgggaattcGccctcctctctgaagttccc	4	11	8	18	2	1	1	0	1	1	0	6	2	3	2	5	2	0	2	5	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:38690382G>A	uc003gth.3	+	3	566	c.234G>A	c.(232-234)TCG>TCA	p.S78S	KLF3_uc003gtg.2_Silent_p.S78S	NM_016531	NP_057615	P57682	KLF3_HUMAN	Kruppel-like factor 3 (basic)	78	Pro-rich.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						CTGGGAATTCGCCCTCCTCTC	0.567													27	58					0	0	1	0	0		A	38690382	A	A	38690382	2	1	89	1	0	0	0	0	0	0	0	1	8363	1074	38	1		1	KLF3	4	38690382	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	728019	38690382	152463894	1864	55695											
KLF3	51274	broad.mit.edu	37	chr4	38696436	38696437	+	Frame_Shift_Ins	INS	-	AA	AA																															aatccccggatactcaaaggINSaagcggaggatacacagatg																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:38696436_38696437insAA	uc003gth.3	+	5	1097_1098	c.765_766insAA	c.(763-768)AGGAAGfs	p.R255fs		NM_016531	NP_057615	P57682	KLF3_HUMAN	Kruppel-like factor 3 (basic)	255_256					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						ATACTCAAAGGAAGCGGAGGAT	0.46													43	94	---	---	---	---						.	AA	38696437	AA	AA	38696436	7	5	89	1	0	1	1	0	0	0	0	0	8363	1165	41	0	779	0	KLF3	4	38696436	Frame_Shift_Ins	INS	-	TCGA-BR-8680-01A-11D-2394-08	6054	38696436	152457840	1865	55696											
TLR10	81793	broad.mit.edu	37	chr4	38774898	38774898	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attaacattaatagcagctcGaaggtttgcccagaaaagcc	15	9	8	9	1	0	1	0	0	0	1	1	2	0	1	2	1	5	3	2	1	6	4	rs145139818	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:38774898G>A	uc003gti.2	-	2	2693	c.2314C>T	c.(2314-2316)CGA>TGA	p.R772*	TLR10_uc003gtj.2_Nonsense_Mutation_p.R772*|TLR10_uc003gtk.2_Nonsense_Mutation_p.R772*	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	772	TIR.|Cytoplasmic (Potential).				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						ATAGCAGCTCGAAGGTTTGCC	0.418													37	72					0	0	1	0	0		A	38774898	A	A	38774898	4	1	89	1	0	0	0	0	0	1	0	0	15975	1066	37	1	125	1	TLR10	4	38774898	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	78462	38774898	152379378	1866	55697											
TLR10	81793	broad.mit.edu	37	chr4	38775961	38775961	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accacagtttctggccatgaGcaattttcatcatttttatg	10	16	6	9	0	3	1	2	1	1	0	3	1	3	1	2	1	1	2	2	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:38775961G>A	uc003gti.2	-	2	1630	c.1251C>T	c.(1249-1251)TGC>TGT	p.C417C	TLR10_uc003gtj.2_Silent_p.C417C|TLR10_uc003gtk.2_Silent_p.C417C	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	417	Extracellular (Potential).|LRR 11.				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						CTGGCCATGAGCAATTTTCAT	0.358													23	97					0	0	1	0	0		A	38775961	A	A	38775961	2	1	89	1	0	0	0	0	0	0	0	1	15975	963	34	2		2	TLR10	4	38775961	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1063	38775961	152378315	1867	55698											
TLR1	7096	broad.mit.edu	37	chr4	38799017	38799017	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaggaaggtcagttaaaGaattgaaagcaacattgagt	17	9	10	5	0	1	3	1	2	0	1	2	4	2	4	1	2	2	2	1	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:38799017G>T	uc003gtl.2	-	4	1710	c.1436C>A	c.(1435-1437)TCT>TAT	p.S479Y		NM_003263	NP_003254	Q15399	TLR1_HUMAN	toll-like receptor 1 precursor	479	Extracellular (Potential).|LRR 11.				cellular response to triacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|inflammatory response|innate immune response|macrophage activation|positive regulation of interleukin-6 biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	integral to plasma membrane|phagocytic vesicle membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	protein heterodimerization activity|transmembrane receptor activity			lung(2)|skin(2)|prostate(1)	5						GTCAGTTAAAGAATTGAAAGC	0.403													60	80					7.05995e-25	8.49517e-25	1	1	0		T	38799017	T	T	38799017	3	4	89	1	0	0	0	0	1	0	0	0	15974	942	33	5	928	5	TLR1	4	38799017	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23056	38799017	152355259	1868	55699											
TLR1	7096	broad.mit.edu	37	chr4	38799487	38799487	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgttcatattcgaaaaGatttcatagatataactttg	14	17	6	4	1	2	3	2	1	0	2	3	4	2	3	0	0	1	1	0	0	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:38799487G>T	uc003gtl.2	-	4	1240	c.966C>A	c.(964-966)ATC>ATA	p.I322I		NM_003263	NP_003254	Q15399	TLR1_HUMAN	toll-like receptor 1 precursor	322	Extracellular (Potential).				cellular response to triacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|inflammatory response|innate immune response|macrophage activation|positive regulation of interleukin-6 biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	integral to plasma membrane|phagocytic vesicle membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	protein heterodimerization activity|transmembrane receptor activity			lung(2)|skin(2)|prostate(1)	5						TATTCGAAAAGATTTCATAGA	0.398													22	59					2.89027e-11	3.162e-11	1	1	0		T	38799487	T	T	38799487	2	4	89	1	0	0	0	0	0	0	0	1	15974	932	33	5		5	TLR1	4	38799487	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	470	38799487	152354789	1869	55700											
TMEM156	80008	broad.mit.edu	37	chr4	39000286	39000286	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtttgttcctgagaaataAaatccatgtttcctttagac	12	16	6	7	0	0	2	0	1	0	2	3	3	3	2	3	0	0	3	3	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:39000286A>C	uc003gto.2	-	2	440	c.332T>G	c.(331-333)TTT>TGT	p.F111C	TMEM156_uc010ifj.2_Missense_Mutation_p.F111C	NM_024943	NP_079219	Q8N614	TM156_HUMAN	transmembrane protein 156	111	Extracellular (Potential).					integral to membrane				skin(1)	1						CTGAGAAATAAAATCCATGTT	0.328													15	17					0	0	1	0	0		C	39000286	C	C	39000286	3	2	89	1	0	0	0	0	1	0	0	0	16098	14	1	5	578	5	TMEM156	4	39000286	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	200799	39000286	152153990	1870	55701											
WDR19	57728	broad.mit.edu	37	chr4	39276564	39276564	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccaaatacaaaaagaagatCgagggaatggtcaggtaggc	17	5	13	6	1	1	2	1	0	0	2	2	4	1	3	1	4	1	1	1	4	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:39276564C>T	uc003gtv.2	+	33	3856	c.3702C>T	c.(3700-3702)ATC>ATT	p.I1234I	WDR19_uc011byi.1_Silent_p.I1074I|WDR19_uc003gtw.1_Silent_p.I831I	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19	1234					cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1						AAAAGAAGATCGAGGGAATGG	0.438													19	37					0	0	1	0	0		T	39276564	T	T	39276564	2	4	89	1	0	0	0	0	0	0	0	1	17305	874	31	1		1	WDR19	4	39276564	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	276278	39276564	151877712	1871	55702											
RFC1	5981	broad.mit.edu	37	chr4	39290437	39290437	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccttatctttttctggttTtgaaggctttgaagattttg	6	21	8	6	0	2	3	0	2	2	1	3	3	3	3	1	2	0	2	1	2	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:39290437T>G	uc003gty.1	-	25	3525	c.3391A>C	c.(3391-3393)AAA>CAA	p.K1131Q	RFC1_uc003gtx.1_Missense_Mutation_p.K1130Q	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit	1131					DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4						TTTTCTGGTTTTGAAGGCTTT	0.348													29	64					0	0	1	0	0		G	39290437	G	G	39290437	3	3	89	1	0	0	0	0	1	0	0	0	13269	1850	64	5	59	5	RFC1	4	39290437	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	13873	39290437	151863839	1872	55703											
PDS5A	23244	broad.mit.edu	37	chr4	39905808	39905808	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagcttcttttcttactcGccactaaaaagcataaaatt	14	14	3	10	1	2	0	0	0	2	0	3	0	2	0	1	0	3	2	1	0	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:39905808G>A	uc003guv.3	-	12	1777	c.1237C>T	c.(1237-1239)CGA>TGA	p.R413*	PDS5A_uc010ifo.2_Nonsense_Mutation_p.R373*|PDS5A_uc003guw.3_Nonsense_Mutation_p.R413*	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	413	HEAT.				cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						TTTCTTACTCGCCACTAAAAA	0.388													6	15					0	0	1	0	0		A	39905808	A	A	39905808	4	1	89	1	0	0	0	0	0	1	0	0	11710	1095	38	1	2897	1	PDS5A	4	39905808	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	615371	39905808	151248468	1873	55704											
N4BP2	55728	broad.mit.edu	37	chr4	40119490	40119490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcccctggaattttcaggCgtaacattcatggggtaagc	9	13	10	9	1	2	0	2	0	0	0	3	1	3	1	2	4	2	2	2	4	3	6	rs139764100		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:40119490C>T	uc003guy.3	+	8	2004	c.1666C>T	c.(1666-1668)CGT>TGT	p.R556C	N4BP2_uc010ifq.2_Missense_Mutation_p.R476C|N4BP2_uc010ifr.2_Missense_Mutation_p.R476C	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	556						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						AATTTTCAGGCGTAACATTCA	0.303													13	24					0	0	1	0	0		T	40119490	T	T	40119490	3	4	89	1	0	0	0	0	1	0	0	0	10128	782	27	1	1688	1	N4BP2	4	40119490	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	213682	40119490	151034786	1874	55705											
APBB2	323	broad.mit.edu	37	chr4	40823991	40823991	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtgtccatgatgaaggcaAatgtgtggacgtccttccca	9	10	11	11	2	0	2	0	2	0	0	3	3	3	3	4	2	0	1	4	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:40823991A>C	uc003gvl.2	-	17	2636	c.2006T>G	c.(2005-2007)TTT>TGT	p.F669C	APBB2_uc010ifu.2_Missense_Mutation_p.F241C|APBB2_uc003gvm.2_Missense_Mutation_p.F647C|APBB2_uc003gvn.2_Missense_Mutation_p.F670C|APBB2_uc003gvk.2_Missense_Mutation_p.F121C	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	669	PID 2.				cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						GATGAAGGCAAATGTGTGGAC	0.542													27	48					0	0	1	0	0		C	40823991	C	C	40823991	3	2	89	1	0	0	0	0	1	0	0	0	761	14	1	5	278	5	APBB2	4	40823991	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	704501	40823991	150330285	1875	55706											
DCAF4L1	285429	broad.mit.edu	37	chr4	41984086	41984086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcgtagtgaaccaggtcGaagtcgaaggctccaagtac	11	9	11	10	3	1	1	0	1	1	0	5	3	2	1	2	2	2	3	2	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:41984086G>A	uc003gwk.2	+	1	374	c.277G>A	c.(277-279)GAA>AAA	p.E93K		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	93										skin(1)	1						GAACCAGGTCGAAGTCGAAGG	0.537													8	78					0	0	1	0	0		A	41984086	A	A	41984086	3	1	89	1	0	0	0	0	1	0	0	0	4274	1059	37	1	279	1	DCAF4L1	4	41984086	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1160095	41984086	149170190	1876	55707											
ATP8A1	10396	broad.mit.edu	37	chr4	42414996	42414996	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcacttcagactgtgaaacGattccattttcatcttgaga	12	14	6	9	1	4	3	3	2	1	2	5	5	5	3	1	0	1	0	1	0	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:42414996G>A	uc003gwr.2	-	37	3664	c.3432C>T	c.(3430-3432)ATC>ATT	p.I1144I	ATP8A1_uc003gwq.2_Silent_p.I370I|ATP8A1_uc003gws.2_Silent_p.I1129I	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	1144	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	ACTGTGAAACGATTCCATTTT	0.438													25	28					0	0	1	0	0		A	42414996	A	A	42414996	2	1	89	1	0	0	0	0	0	0	0	1	1193	1048	37	1		1	ATP8A1	4	42414996	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	430910	42414996	148739280	1877	55708											
ATP8A1	10396	broad.mit.edu	37	chr4	42577698	42577698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcagcagtgtctgtgggttCatagtgcatgtcaagatcct	9	12	12	8	0	3	1	2	0	1	1	4	1	4	1	1	1	3	4	1	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:42577698C>T	uc003gwr.2	-	13	1379	c.1147G>A	c.(1147-1149)GAA>AAA	p.E383K	ATP8A1_uc003gws.2_Missense_Mutation_p.E383K|ATP8A1_uc011byz.1_Missense_Mutation_p.E383K	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	383	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	TCTGTGGGTTCATAGTGCATG	0.328													18	169					0	0	1	0	0		T	42577698	T	T	42577698	3	4	89	1	0	0	0	0	1	0	0	0	1193	835	29	4	2447	4	ATP8A1	4	42577698	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	162702	42577698	148576578	1878	55709											
GNPDA2	132789	broad.mit.edu	37	chr4	44709820	44709820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctaaagtagcatcttcatCgcatacaaaaatagtccggg	14	11	7	9	2	3	0	1	0	2	0	5	0	4	0	1	1	2	3	1	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:44709820C>T	uc003gwy.2	-	6	875	c.718G>A	c.(718-720)GAT>AAT	p.D240N	GNPDA2_uc010iga.2_Missense_Mutation_p.D206N|GNPDA2_uc011bzb.1_Missense_Mutation_p.D170N|GNPDA2_uc003gwz.1_Missense_Mutation_p.D240N	NM_138335	NP_612208	Q8TDQ7	GNPI2_HUMAN	glucosamine-6-phosphate deaminase 2	240					N-acetylglucosamine metabolic process	cytoplasm	glucosamine-6-phosphate deaminase activity|hydrolase activity			ovary(1)	1						GCATCTTCATCGCATACAAAA	0.403													13	27					0	0	1	0	0		T	44709820	T	T	44709820	3	4	89	1	0	0	0	0	1	0	0	0	6558	884	31	1	120	1	GNPDA2	4	44709820	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2132122	44709820	146444456	1879	55710											
COX7B2	170712	broad.mit.edu	37	chr4	46737011	46737011	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactctgccaacaggggataGgttccattctattccaatct	11	12	7	11	0	3	0	0	0	3	0	5	1	5	1	3	3	3	1	3	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:46737011G>A	uc003gxf.2	-	3	379	c.199C>T	c.(199-201)CTA>TTA	p.L67L	COX7B2_uc010ige.2_RNA	NM_130902	NP_570972	Q8TF08	CX7B2_HUMAN	cytochrome c oxidase subunit VIIb2 precursor	67	Mitochondrial intermembrane (By similarity).					integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity				0						ACAGGGGATAGGTTCCATTCT	0.403													33	71					0	0	1	0	0		A	46737011	A	A	46737011	2	1	89	1	0	0	0	0	0	0	0	1	3786	991	35	4		4	COX7B2	4	46737011	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2027191	46737011	144417265	1880	55711											
GABRA4	2557	broad.mit.edu	37	chr4	46930668	46930668	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattcttgaacaactgtggaAgatttgcttgaatggtttcc	10	15	10	6	0	1	3	0	2	1	1	2	5	2	4	1	2	3	2	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:46930668A>C	uc003gxg.2	-	9	1378	c.1239T>G	c.(1237-1239)TCT>TCG	p.S413S		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	413	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CAACTGTGGAAGATTTGCTTG	0.423													32	59					0	0	1	0	0		C	46930668	C	C	46930668	2	2	89	1	0	0	0	0	0	0	0	1	6177	59	3	5		5	GABRA4	4	46930668	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	193657	46930668	144223608	1881	55712											
GABRB1	2560	broad.mit.edu	37	chr4	47405722	47405722	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcatctgcagccagagtcGcactaggtaatacattctca	12	10	8	11	1	2	1	1	0	2	1	4	1	2	1	1	1	4	4	1	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:47405722G>A	uc003gxh.2	+	7	1203	c.829G>A	c.(829-831)GCA>ACA	p.A277T	GABRB1_uc011bze.1_Missense_Mutation_p.A207T	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	277	Helical; (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	AGCCAGAGTCGCACTAGGTAA	0.398													21	53					0	0	1	0	0		A	47405722	A	A	47405722	3	1	89	1	0	0	0	0	1	0	0	0	6180	1087	38	1	855	1	GABRB1	4	47405722	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	475054	47405722	143748554	1882	55713											
ATP10D	57205	broad.mit.edu	37	chr4	47593305	47593305	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtgctattgagcaaggAaacttatctctgtgtgaaac	11	13	9	8	0	1	2	0	2	1	0	3	3	2	3	1	1	4	2	1	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:47593305A>C	uc003gxk.1	+	23	4352	c.4188A>C	c.(4186-4188)GGA>GGC	p.G1396G	ATP10D_uc003gxl.1_Silent_p.G644G	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	1396	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						TTGAGCAAGGAAACTTATCTC	0.458													62	122					0	0	1	0	0		C	47593305	C	C	47593305	2	2	89	1	0	0	0	0	0	0	0	1	1119	233	9	5		5	ATP10D	4	47593305	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	187583	47593305	143560971	1883	55714											
CORIN	10699	broad.mit.edu	37	chr4	47597786	47597786	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctgtcttttaatccattcGacgaaatatgacacattact	13	15	4	9	2	2	1	0	1	2	0	4	3	3	1	1	0	1	0	1	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:47597786G>A	uc003gxm.2	-	22	3174	c.3081C>T	c.(3079-3081)GTC>GTT	p.V1027V	CORIN_uc011bzf.1_Silent_p.V888V|CORIN_uc011bzg.1_Silent_p.V960V	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	1027	Extracellular (Potential).|Peptidase S1.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						TAATCCATTCGACGAAATATG	0.413													29	66					0	0	1	0	0		A	47597786	A	A	47597786	2	1	89	1	0	0	0	0	0	0	0	1	3755	1045	37	1		1	CORIN	4	47597786	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4481	47597786	143556490	1884	55715											
CORIN	10699	broad.mit.edu	37	chr4	47602261	47602261	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaactgtgccagactcataGccagcacatatcatccgagt	12	9	7	13	1	3	1	3	0	0	1	4	2	4	1	3	0	4	1	3	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:47602261G>A	uc003gxm.2	-	21	3009	c.2916C>T	c.(2914-2916)GGC>GGT	p.G972G	CORIN_uc011bzf.1_Silent_p.G833G|CORIN_uc011bzg.1_Silent_p.G905G	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	972	Extracellular (Potential).|Peptidase S1.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						CAGACTCATAGCCAGCACATA	0.423													28	63					0	0	1	0	0		A	47602261	A	A	47602261	2	1	89	1	0	0	0	0	0	0	0	1	3755	958	34	2		2	CORIN	4	47602261	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4475	47602261	143552015	1885	55716											
CORIN	10699	broad.mit.edu	37	chr4	47663851	47663851	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaacagactcacagcgttCtttagagtgttcacacaatg	14	10	8	9	1	3	3	2	0	1	3	3	3	3	3	0	0	2	2	0	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:47663851C>A	uc003gxm.2	-	12	1705	c.1612G>T	c.(1612-1614)GAA>TAA	p.E538*	CORIN_uc011bzf.1_Nonsense_Mutation_p.E399*|CORIN_uc011bzg.1_Nonsense_Mutation_p.E471*|CORIN_uc011bzh.1_Nonsense_Mutation_p.E501*|CORIN_uc011bzi.1_Nonsense_Mutation_p.E501*	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	538	Extracellular (Potential).|FZ 2.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						TCACAGCGTTCTTTAGAGTGT	0.413													16	40					0.000308642	0.000314477	1	1	0		A	47663851	A	A	47663851	4	1	89	1	0	0	0	0	0	1	0	0	3755	922	32	5	1560	5	CORIN	4	47663851	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	61590	47663851	143490425	1886	55717											
CORIN	10699	broad.mit.edu	37	chr4	47667215	47667215	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcctgtggccaaaataatTtggataacttgtactgttgt	11	15	9	6	0	0	0	0	0	0	0	1	1	1	1	2	2	2	2	2	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:47667215T>G	uc003gxm.2	-	11	1516	c.1423A>C	c.(1423-1425)AAT>CAT	p.N475H	CORIN_uc011bzf.1_Missense_Mutation_p.N336H|CORIN_uc011bzg.1_Missense_Mutation_p.N408H|CORIN_uc011bzh.1_Missense_Mutation_p.N438H|CORIN_uc011bzi.1_Missense_Mutation_p.N438H	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	475	Extracellular (Potential).|FZ 2.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						CCAAAATAATTTGGATAACTT	0.363													28	74					0	0	1	0	0		G	47667215	G	G	47667215	3	3	89	1	0	0	0	0	1	0	0	0	3755	1841	64	5	1753	5	CORIN	4	47667215	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3364	47667215	143487061	1887	55718											
CORIN	10699	broad.mit.edu	37	chr4	47765400	47765400	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggttccgaaatacctgtCatcgccatcaatgatgcact	10	11	8	12	2	2	1	2	1	0	0	4	2	3	1	3	1	2	2	3	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:47765400C>A	uc003gxm.2	-	4	706	c.613G>T	c.(613-615)GAC>TAC	p.D205Y	CORIN_uc011bzf.1_Missense_Mutation_p.D66Y|CORIN_uc011bzg.1_Missense_Mutation_p.D138Y|CORIN_uc011bzh.1_Missense_Mutation_p.D205Y|CORIN_uc011bzi.1_Missense_Mutation_p.D205Y|CORIN_uc003gxn.3_Missense_Mutation_p.D205Y	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	205	Extracellular (Potential).|FZ 1.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						AAATACCTGTCATCGCCATCA	0.413													8	17					0.000274275	0.000279565	1	1	0		A	47765400	A	A	47765400	3	1	89	1	0	0	0	0	1	0	0	0	3755	826	29	5	2591	5	CORIN	4	47765400	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	98185	47765400	143388876	1888	55719											
NFXL1	152518	broad.mit.edu	37	chr4	47887941	47887941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcttgtggtacgttctcggCcacagggcactgtcaccttt	5	13	11	12	2	3	0	1	0	2	0	4	0	3	0	2	3	1	3	2	3	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:47887941C>T	uc010igh.2	-	13	1796	c.1619G>A	c.(1618-1620)GGC>GAC	p.G540D	NFXL1_uc003gxp.2_Missense_Mutation_p.G540D|NFXL1_uc003gxq.3_RNA|NFXL1_uc010igi.2_Missense_Mutation_p.G540D	NM_152995	NP_694540	Q6ZNB6	NFXL1_HUMAN	nuclear transcription factor, X-box binding-like	540						integral to membrane|nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						ACGTTCTCGGCCACAGGGCAC	0.438													80	161					0	0	1	0	0		T	47887941	T	T	47887941	3	4	89	1	0	0	0	0	1	0	0	0	10407	739	26	2	1160	2	NFXL1	4	47887941	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	122541	47887941	143266335	1889	55720											
CNGA1	1259	broad.mit.edu	37	chr4	47939313	47939313	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcattcatgttggaaaTcatagaacctatgttaccaa	13	12	8	8	0	2	1	2	0	0	1	2	2	2	2	2	2	3	4	2	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:47939313T>G	uc003gxt.3	-	11	1464	c.1198A>C	c.(1198-1200)ATT>CTT	p.I400L	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.I469L	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	400	Extracellular (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						ATGTTGGAAATCATAGAACCT	0.388													34	94					0	0	1	0	0		G	47939313	G	G	47939313	3	3	89	1	0	0	0	0	1	0	0	0	3599	1435	50	5	878	5	CNGA1	4	47939313	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	51372	47939313	143214963	1890	55721											
CNGA1	1259	broad.mit.edu	37	chr4	47942804	47942804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttgttcgtacaaacatatCgattaaatagactatgtctg	13	14	6	8	2	1	1	0	0	1	1	3	2	1	1	1	0	2	2	1	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:47942804C>T	uc003gxt.3	-	10	906	c.640G>A	c.(640-642)GAT>AAT	p.D214N	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.D283N	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	214	Helical; Name=H2; (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						ACAAACATATCGATTAAATAG	0.289													18	69					0	0	1	0	0		T	47942804	T	T	47942804	3	4	89	1	0	0	0	0	1	0	0	0	3599	884	31	1	1440	1	CNGA1	4	47942804	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3491	47942804	143211472	1891	55722											
SLAIN2	57606	broad.mit.edu	37	chr4	48371900	48371900	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaagaaaaaacttacaccaAtgcagaaatcggttagtcca	19	7	6	9	1	0	2	0	0	0	2	2	2	1	2	2	1	3	2	2	1	8	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:48371900A>C	uc003gya.3	+	2	568	c.424A>C	c.(424-426)ATG>CTG	p.M142L		NM_020846	NP_065897	Q9P270	SLAI2_HUMAN	SLAIN motif family, member 2	142						centrosome					0						ACTTACACCAATGCAGAAATC	0.363													36	40					0	0	1	0	0		C	48371900	C	C	48371900	3	2	89	1	0	0	0	0	1	0	0	0	14391	101	4	5	430	5	SLAIN2	4	48371900	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	429096	48371900	142782376	1892	55723											
SLC10A4	201780	broad.mit.edu	37	chr4	48486071	48486071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctcgccttcaagctggacGaggtggccgccgtggcggtg	4	7	16	14	5	1	0	1	0	0	0	2	2	1	1	4	5	1	1	4	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:48486071G>A	uc003gyc.2	+	1	712	c.493G>A	c.(493-495)GAG>AAG	p.E165K		NM_152679	NP_689892	Q96EP9	NTCP4_HUMAN	solute carrier family 10, member 4	165	Extracellular (Potential).					integral to membrane	bile acid:sodium symporter activity			central_nervous_system(1)	1						CAAGCTGGACGAGGTGGCCGC	0.677													4	24					0	0	1	0	0		A	48486071	A	A	48486071	3	1	89	1	0	0	0	0	1	0	0	0	14401	1059	37	1	495	1	SLC10A4	4	48486071	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	114171	48486071	142668205	1893	55724											
SLC10A4	201780	broad.mit.edu	37	chr4	48490559	48490559	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttatgtgatagcaatttTtatgcctttggcaggctacg	8	17	10	6	1	0	1	0	1	0	0	0	1	0	1	1	2	3	4	1	2	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:48490559T>G	uc003gyc.2	+	3	1136	c.917T>G	c.(916-918)TTT>TGT	p.F306C	ZAR1_uc003gyd.2_5'Flank	NM_152679	NP_689892	Q96EP9	NTCP4_HUMAN	solute carrier family 10, member 4	306	Helical; (Potential).					integral to membrane	bile acid:sodium symporter activity			central_nervous_system(1)	1						ATAGCAATTTTTATGCCTTTG	0.468													80	153					0	0	1	0	0		G	48490559	G	G	48490559	3	3	89	1	0	0	0	0	1	0	0	0	14401	1841	64	5	927	5	SLC10A4	4	48490559	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4488	48490559	142663717	1894	55725											
FRYL	285527	broad.mit.edu	37	chr4	48559550	48559550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttctccccgtaaccagcGcctactagtcaccataagtt	9	11	5	16	2	2	0	1	0	1	0	4	0	3	0	6	0	3	2	6	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:48559550G>A	uc003gyh.1	-	34	4650	c.4045C>T	c.(4045-4047)CGC>TGC	p.R1349C	FRYL_uc003gyk.2_Missense_Mutation_p.R1349C|FRYL_uc003gyg.1_Missense_Mutation_p.R45C|FRYL_uc003gyi.1_Missense_Mutation_p.R238C	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	1349					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						CGTAACCAGCGCCTACTAGTC	0.443													58	136					0	0	1	0	0		A	48559550	A	A	48559550	3	1	89	1	0	0	0	0	1	0	0	0	6078	1087	38	1	5120	1	FRYL	4	48559550	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	68991	48559550	142594726	1895	55726											
FRYL	285527	broad.mit.edu	37	chr4	48577170	48577170	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtcctgccaagacctagaAcaagggattctgtgatttcc	10	11	10	10	0	1	3	0	1	1	2	3	4	3	4	4	2	2	0	4	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:48577170A>G	uc003gyh.1	-	25	3415	c.2810T>C	c.(2809-2811)GTT>GCT	p.V937A	FRYL_uc003gyk.2_Missense_Mutation_p.V937A	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	937					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						AAGACCTAGAACAAGGGATTC	0.403													30	80					0	0	1	0	0		G	48577170	G	G	48577170	3	3	89	1	0	0	0	0	1	0	0	0	6078	43	2	3	6391	3	FRYL	4	48577170	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	17620	48577170	142577106	1896	55727											
FRYL	285527	broad.mit.edu	37	chr4	48583531	48583531	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgactgctacagagaatgAcaagcgcaaagccttcaacc	14	6	9	12	2	1	2	1	1	0	1	2	4	1	2	2	0	5	2	2	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:48583531A>G	uc003gyh.1	-	21	2683	c.2078T>C	c.(2077-2079)GTC>GCC	p.V693A	FRYL_uc003gyk.2_Missense_Mutation_p.V693A	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	693					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						ACAGAGAATGACAAGCGCAAA	0.463													24	36					0	0	1	0	0		G	48583531	G	G	48583531	3	3	89	1	0	0	0	0	1	0	0	0	6078	275	10	3	7139	3	FRYL	4	48583531	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	6361	48583531	142570745	1897	55728											
FRYL	285527	broad.mit.edu	37	chr4	48611819	48611819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacttcatgaactaagggatCgggtacaggatgaacaggaa	16	7	12	6	1	1	2	1	2	0	0	2	5	1	5	0	4	4	1	0	4	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:48611819C>T	uc003gyh.1	-	8	1038	c.433G>A	c.(433-435)GAT>AAT	p.D145N	FRYL_uc003gyk.2_Missense_Mutation_p.D145N	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	145					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						ACTAAGGGATCGGGTACAGGA	0.289													9	26					0	0	1	0	0		T	48611819	T	T	48611819	3	4	89	1	0	0	0	0	1	0	0	0	6078	884	31	1	8836	1	FRYL	4	48611819	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28288	48611819	142542457	1898	55729											
LRRC66	339977	broad.mit.edu	37	chr4	52860895	52860895	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttcttgattcttgcattTccctggaattgtttggaagg	7	18	9	7	0	3	1	0	1	3	0	4	3	4	3	1	3	1	2	1	3	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:52860895T>C	uc003gzi.2	-	4	2306	c.2293A>G	c.(2293-2295)AAA>GAA	p.K765E		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	765						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						TTCTTGCATTTCCCTGGAATT	0.468													25	67					0	0	1	0	0		C	52860895	C	C	52860895	3	2	89	1	0	0	0	0	1	0	0	0	9036	1792	62	3	353	3	LRRC66	4	52860895	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4249076	52860895	138293381	1899	55730											
SPATA18	132671	broad.mit.edu	37	chr4	52946066	52946066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgcatatggagcagatggaGaagtttttaatgattgcaag	13	13	12	3	0	0	3	0	1	0	2	0	5	0	4	0	2	3	4	0	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:52946066G>A	uc003gzl.2	+	9	1614	c.1336G>A	c.(1336-1338)GAA>AAA	p.E446K	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.E414K|SPATA18_uc003gzk.1_Missense_Mutation_p.E446K	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	446					mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			AGCAGATGGAGAAGTTTTTAA	0.398													60	128					0	0	1	0	0		A	52946066	A	A	52946066	3	1	89	1	0	0	0	0	1	0	0	0	15028	943	33	4	1370	4	SPATA18	4	52946066	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	85171	52946066	138208210	1900	55731											
LNX1	84708	broad.mit.edu	37	chr4	54343119	54343119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggctgacctctgtcagttCgaccccatccacattcaaca	9	9	6	17	2	3	1	2	1	1	0	5	2	4	1	5	1	1	2	5	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:54343119C>T	uc003hag.3	-	9	1949	c.1693G>A	c.(1693-1695)GAA>AAA	p.E565K	PDGFRA_uc003haa.2_Intron|LNX1_uc003haf.3_Missense_Mutation_p.E469K|LNX1_uc003hah.3_RNA	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	565	PDZ 3.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			TCTGTCAGTTCGACCCCATCC	0.468													45	130					0	0	1	0	0		T	54343119	T	T	54343119	3	4	89	1	0	0	0	0	1	0	0	0	8882	893	31	1	505	1	LNX1	4	54343119	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1397053	54343119	136811157	1901	55732											
CHIC2	26511	broad.mit.edu	37	chr4	54880282	54880282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataacttctcaatcgatcttCgtgtctggaagacaaatgag	13	12	8	8	2	3	2	1	1	3	1	6	4	3	3	0	1	1	0	0	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:54880282C>T	uc003haj.1	-	4	656	c.335G>A	c.(334-336)CGA>CAA	p.R112Q	PDGFRA_uc003haa.2_Intron	NM_012110	NP_036242	Q9UKJ5	CHIC2_HUMAN	cysteine-rich hydrophobic domain 2	112		Breakpoint for translocation to form CHIC2-ETV6 in AML.				plasma membrane	protein binding			central_nervous_system(1)	1	all_cancers(7;0.0193)|all_neural(26;0.0209)|Lung NSC(11;0.0281)|Glioma(25;0.08)		LUSC - Lung squamous cell carcinoma(32;0.00216)			AATCGATCTTCGTGTCTGGAA	0.403			T	ETV6	AML								16	34					0	0	1	0	0		T	54880282	T	T	54880282	3	4	89	1	0	0	0	0	1	0	0	0	3347	884	31	1	174	1	CHIC2	4	54880282	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	537163	54880282	136273994	1902	55733											
PDGFRA	5156	broad.mit.edu	37	chr4	55131147	55131147	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtataagtcaggggaaacGattgtggtcacctgtgctgt	9	12	14	6	1	2	0	2	0	0	0	2	2	2	1	1	3	2	2	1	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:55131147G>A	uc003han.3	+	5	1021	c.690G>A	c.(688-690)ACG>ACA	p.T230T	PDGFRA_uc003haa.2_Intron|PDGFRA_uc003hal.2_3'UTR|PDGFRA_uc010igq.1_Silent_p.T124T|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	230	Ig-like C2-type 3.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	CAGGGGAAACGATTGTGGTCA	0.403			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			44	97					0	0	1	0	0		A	55131147	A	A	55131147	2	1	89	1	0	0	0	0	0	0	0	1	11680	1045	37	1		1	PDGFRA	4	55131147	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	250865	55131147	136023129	1903	55734											
PDGFRA	5156	broad.mit.edu	37	chr4	55138668	55138668	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgatattgagtggatgAtatgcaaagatattaagaag	15	13	10	3	0	0	5	0	3	0	2	1	6	1	6	1	1	1	1	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:55138668A>G	uc003han.3	+	9	1676	c.1345A>G	c.(1345-1347)ATA>GTA	p.I449V	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Missense_Mutation_p.I343V|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	449	Ig-like C2-type 5.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	TGAGTGGATGATATGCAAAGA	0.433			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			29	66					0	0	1	0	0		G	55138668	G	G	55138668	3	3	89	1	0	0	0	0	1	0	0	0	11680	333	12	3	1375	3	PDGFRA	4	55138668	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	7521	55138668	136015608	1904	55735											
PDGFRA	5156	broad.mit.edu	37	chr4	55139855	55139855	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgatgcctggctaagaatCtccttggagctgagaaccga	10	9	12	10	2	1	2	0	1	1	2	2	6	1	3	3	2	4	2	3	2	3	2	rs142980928		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:55139855C>A	uc003han.3	+	10	1847	c.1516C>A	c.(1516-1518)CTC>ATC	p.L506I	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Missense_Mutation_p.L400I|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	506	Ig-like C2-type 5.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	GGCTAAGAATCTCCTTGGAGC	0.592			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			23	43					2.39556e-15	2.72789e-15	1	1	0		A	55139855	A	A	55139855	3	1	89	1	0	0	0	0	1	0	0	0	11680	913	32	5	1550	5	PDGFRA	4	55139855	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1187	55139855	136014421	1905	55736											
KIT	3815	broad.mit.edu	37	chr4	55561801	55561801	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcactgatccgggctttgTcaaatggacttttgagatcc	9	13	10	9	1	1	2	1	2	0	1	3	4	3	3	2	2	1	2	2	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:55561801T>C	uc010igr.2	+	2	278	c.191T>C	c.(190-192)GTC>GCC	p.V64A	KIT_uc010igs.2_Missense_Mutation_p.V64A	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	64	Extracellular (Potential).|Ig-like C2-type 1.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CCGGGCTTTGTCAAATGGACT	0.493		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				21	56					0	0	1	0	0		C	55561801	C	C	55561801	3	2	89	1	0	0	0	0	1	0	0	0	8345	1667	58	3	197	3	KIT	4	55561801	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	421946	55561801	135592475	1906	55737											
KIT	3815	broad.mit.edu	37	chr4	55575630	55575630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taacgagattaaaaggcaccGaaggaggcacttacacattc	16	7	9	9	2	0	1	0	0	0	1	1	4	0	2	1	3	2	2	1	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:55575630G>A	uc010igr.2	+	7	1243	c.1156G>A	c.(1156-1158)GAA>AAA	p.E386K	KIT_uc010igs.2_Missense_Mutation_p.E386K	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	386	Ig-like C2-type 4.|Extracellular (Potential).				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	AAAAGGCACCGAAGGAGGCAC	0.403		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				33	65					0	0	1	0	0		A	55575630	A	A	55575630	3	1	89	1	0	0	0	0	1	0	0	0	8345	1059	37	1	1182	1	KIT	4	55575630	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13829	55575630	135578646	1907	55738											
NMU	10874	broad.mit.edu	37	chr4	56466696	56466696	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtatgtacctaccctgaatAaaaaatatcctcgactttga	15	12	5	9	1	0	2	0	2	0	0	2	3	1	2	3	0	2	2	3	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:56466696A>C	uc003hbc.2	-	8	588	c.482T>G	c.(481-483)TTA>TGA	p.L161*	NMU_uc003hbd.1_RNA|NMU_uc010igv.1_RNA|NMU_uc010igw.1_Nonsense_Mutation_p.L76*|NMU_uc010igx.1_RNA	NM_006681	NP_006672	P48645	NMU_HUMAN	neuromedin U precursor	161					neuropeptide signaling pathway	extracellular region					0	Lung NSC(11;0.00256)|all_epithelial(27;0.075)|Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.103)	LUSC - Lung squamous cell carcinoma(4;6.72e-08)|Lung(4;6.22e-07)|Epithelial(7;0.00559)	LUSC - Lung squamous cell carcinoma(721;0.0115)		TACCCTGAATAAAAAATATCC	0.289													25	44					0	0	1	0	0		C	56466696	C	C	56466696	4	2	89	1	0	0	0	0	0	1	0	0	10524	372	13	5	50	5	NMU	4	56466696	Nonsense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	891066	56466696	134687580	1908	55739											
NMU	10874	broad.mit.edu	37	chr4	56473499	56473499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcccaacttctgtgtcttcGaataatgaaataagaactgt	13	13	7	8	1	2	2	0	1	2	1	3	3	2	2	1	0	3	0	1	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:56473499G>A	uc003hbc.2	-	6	432	c.326C>T	c.(325-327)TCG>TTG	p.S109L	NMU_uc003hbd.1_RNA|NMU_uc010igv.1_Intron|NMU_uc010igw.1_Missense_Mutation_p.S24L|NMU_uc010igx.1_Intron	NM_006681	NP_006672	P48645	NMU_HUMAN	neuromedin U precursor	109					neuropeptide signaling pathway	extracellular region					0	Lung NSC(11;0.00256)|all_epithelial(27;0.075)|Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.103)	LUSC - Lung squamous cell carcinoma(4;6.72e-08)|Lung(4;6.22e-07)|Epithelial(7;0.00559)	LUSC - Lung squamous cell carcinoma(721;0.0115)		CTGTGTCTTCGAATAATGAAA	0.269													25	50					0	0	1	0	0		A	56473499	A	A	56473499	3	1	89	1	0	0	0	0	1	0	0	0	10524	1059	37	1	214	1	NMU	4	56473499	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6803	56473499	134680777	1909	55740											
EXOC1	55763	broad.mit.edu	37	chr4	56736848	56736848	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctttaactttgtaggctaAcatccagtcaatcatggcat	11	14	7	9	0	3	0	2	0	1	0	4	0	4	0	1	2	2	3	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:56736848A>G	uc003hbe.1	+	6	766	c.608A>G	c.(607-609)AAC>AGC	p.N203S	EXOC1_uc003hbf.1_Missense_Mutation_p.N203S|EXOC1_uc003hbg.1_Missense_Mutation_p.N203S	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	203					exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					TTGTAGGCTAACATCCAGTCA	0.289													25	53					0	0	1	0	0		G	56736848	G	G	56736848	3	3	89	1	0	0	0	0	1	0	0	0	5309	43	2	3	626	3	EXOC1	4	56736848	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	263349	56736848	134417428	1910	55741											
CEP135	9662	broad.mit.edu	37	chr4	56835228	56835228	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taataggctttttattcctaGaaagagattaaaagaaagct	17	13	7	4	0	0	3	0	0	0	3	1	4	1	3	1	1	1	2	1	1	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:56835228G>A	uc003hbi.2	+	9	1279	c.1045_splice	c.e9-1	p.K349_splice	CEP135_uc003hbj.2_Splice_Site_p.K55_splice	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4						centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					TTTATTCCTAGAAAGAGATTA	0.328													7	42					0	0	1	0	0		A	56835228	A	A	56835228	5	1	89	1	0	0	0	0	0	0	1	0	3250	956	33	4	1074	4	CEP135	4	56835228	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	98380	56835228	134319048	1911	55742											
CEP135	9662	broad.mit.edu	37	chr4	56865579	56865579	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaaaatactggaggaaaaGataggtaaatgttttaaaat	20	12	8	1	0	0	1	0	0	0	1	0	3	0	3	0	3	1	2	0	3	10	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:56865579G>T	uc003hbi.2	+	16	2355	c.2121G>T	c.(2119-2121)AAG>AAT	p.K707N	CEP135_uc003hbj.2_Missense_Mutation_p.K413N	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	707	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					TGGAGGAAAAGATAGGTAAAT	0.343													23	43					1.28384e-07	1.34871e-07	1	1	0		T	56865579	T	T	56865579	3	4	89	1	0	0	0	0	1	0	0	0	3250	933	33	5	2179	5	CEP135	4	56865579	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	30351	56865579	134288697	1912	55743											
AASDH	132949	broad.mit.edu	37	chr4	57204655	57204655	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgattccaggaccacaggAgaagagaagacttctccagg	14	7	11	9	0	1	4	0	1	1	3	3	7	2	5	3	3	0	0	3	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:57204655A>G	uc003hbn.2	-	15	3363	c.3210T>C	c.(3208-3210)TCT>TCC	p.S1070S	AASDH_uc010ihb.2_Silent_p.S585S|AASDH_uc011caa.1_3'UTR|AASDH_uc003hbo.2_Silent_p.S970S|AASDH_uc011cab.1_Silent_p.S585S|AASDH_uc010ihc.2_3'UTR	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	1070					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				GGACCACAGGAGAAGAGAAGA	0.403													15	60					0	0	1	0	0		G	57204655	G	G	57204655	2	3	89	1	0	0	0	0	0	0	0	1	22	291	11	3		3	AASDH	4	57204655	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	339076	57204655	133949621	1913	55744											
AASDH	132949	broad.mit.edu	37	chr4	57220879	57220879	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atataaaacaacctaaaaatActtggccactgccttcctga	16	10	4	11	0	0	1	0	1	0	0	1	1	1	1	4	1	4	0	4	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:57220879A>G	uc003hbn.2	-	7	1355	c.1202T>C	c.(1201-1203)GTA>GCA	p.V401A	AASDH_uc010ihb.2_5'UTR|AASDH_uc011caa.1_Missense_Mutation_p.V248A|AASDH_uc003hbo.2_Missense_Mutation_p.V301A|AASDH_uc011cab.1_Intron|AASDH_uc010ihc.2_Missense_Mutation_p.V401A|AASDH_uc003hbp.2_Missense_Mutation_p.V401A	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	401					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				ACCTAAAAATACTTGGCCACT	0.333													34	90					0	0	1	0	0		G	57220879	G	G	57220879	3	3	89	1	0	0	0	0	1	0	0	0	22	391	14	3	2130	3	AASDH	4	57220879	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	16224	57220879	133933397	1914	55745											
PPAT	5471	broad.mit.edu	37	chr4	57267619	57267619	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtctggatatttccacaaTttctccaggcaagacttcac	10	13	7	11	0	3	1	1	0	2	1	5	2	4	2	2	2	0	1	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:57267619T>C	uc003hbr.2	-	7	965	c.763A>G	c.(763-765)ATT>GTT	p.I255V		NM_002703	NP_002694	Q06203	PUR1_HUMAN	phosphoribosyl pyrophosphate amidotransferase	255	Glutamine amidotransferase type-2.				glutamine metabolic process|nucleoside metabolic process|purine base biosynthetic process|purine ribonucleoside monophosphate biosynthetic process	cytosol	4 iron, 4 sulfur cluster binding|amidophosphoribosyltransferase activity|metal ion binding				0	Glioma(25;0.08)|all_neural(26;0.101)				L-Glutamine(DB00130)|Thioguanine(DB00352)	ATTTCCACAATTTCTCCAGGC	0.323													12	24					0	0	1	0	0		C	57267619	C	C	57267619	3	2	89	1	0	0	0	0	1	0	0	0	12321	1493	52	3	810	3	PPAT	4	57267619	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	46740	57267619	133886657	1915	55746											
REST	5978	broad.mit.edu	37	chr4	57777156	57777156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaagtttggaactcagcGtcgtagaacctcagcctgta	11	10	11	9	2	2	2	2	1	0	2	3	4	2	3	2	1	4	3	2	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:57777156G>A	uc003hch.2	+	2	699	c.352G>A	c.(352-354)GTC>ATC	p.V118I	REST_uc003hci.2_Missense_Mutation_p.V118I|REST_uc003hcj.1_Missense_Mutation_p.V118I|REST_uc010ihf.2_5'UTR	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	118	Interaction with SIN3A.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					GGAACTCAGCGTCGTAGAACC	0.448													30	60					0	0	1	0	0		A	57777156	A	A	57777156	3	1	89	1	0	0	0	0	1	0	0	0	13259	1145	40	1	354	1	REST	4	57777156	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	509537	57777156	133377120	1916	55747											
REST	5978	broad.mit.edu	37	chr4	57796369	57796369	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaatgaaaaaacagaaataGaacaaacaaaaataaaaggg	27	3	6	5	0	0	3	0	1	0	2	0	3	0	3	1	1	3	0	1	1	12	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:57796369G>A	uc003hch.2	+	4	1692	c.1345G>A	c.(1345-1347)GAA>AAA	p.E449K	REST_uc003hci.2_Missense_Mutation_p.E449K|REST_uc010ihf.2_Missense_Mutation_p.E123K	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	449	Lys-rich.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					AACAGAAATAGAACAAACAAA	0.328													19	47					0	0	1	0	0		A	57796369	A	A	57796369	3	1	89	1	0	0	0	0	1	0	0	0	13259	943	33	4	1355	4	REST	4	57796369	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	19213	57796369	133357907	1917	55748											
REST	5978	broad.mit.edu	37	chr4	57797984	57797984	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaacgtgaagcagtgtccaAaactgcactggcatcacctc	13	7	9	12	1	1	2	1	1	0	1	3	2	2	2	2	1	4	3	2	1	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:57797984A>G	uc003hch.2	+	4	3307	c.2960A>G	c.(2959-2961)AAA>AGA	p.K987R	REST_uc003hci.2_Missense_Mutation_p.K987R|REST_uc010ihf.2_Missense_Mutation_p.K661R	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	987					cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					GCAGTGTCCAAAACTGCACTG	0.448													28	52					0	0	1	0	0		G	57797984	G	G	57797984	3	3	89	1	0	0	0	0	1	0	0	0	13259	14	1	3	2970	3	REST	4	57797984	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1615	57797984	133356292	1918	55749											
C4orf14	84273	broad.mit.edu	37	chr4	57834643	57834643	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaatggactgtgttggcaaAacaatatttacttctttttc	12	16	6	7	0	1	0	0	0	1	0	2	1	1	1	0	2	2	2	0	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:57834643A>C	uc003hck.2	-	4	1629	c.1554T>G	c.(1552-1554)GTT>GTG	p.V518V		NM_032313	NP_115689	Q8NC60	CD014_HUMAN	hypothetical protein LOC84273	518							GTP binding			ovary(1)|breast(1)	2	Glioma(25;0.08)|all_neural(26;0.181)					GTGTTGGCAAAACAATATTTA	0.318													22	44					0	0	1	0	0		C	57834643	C	C	57834643	2	2	89	1	0	0	0	0	0	0	0	1	2254	1	1	5		5	C4orf14	4	57834643	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	36659	57834643	133319633	1919	55750											
POLR2B	5431	broad.mit.edu	37	chr4	57857005	57857005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaaagaattgtggaagacGctcctcctatagacctacag	13	10	8	10	1	1	3	1	0	0	3	3	4	3	4	3	1	1	1	3	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:57857005G>A	uc003hcl.1	+	3	227	c.184G>A	c.(184-186)GCT>ACT	p.A62T	POLR2B_uc011cae.1_Missense_Mutation_p.A55T|POLR2B_uc011caf.1_Intron	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	62					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					TGTGGAAGACGCTCCTCCTAT	0.413													24	63					0	0	1	0	0		A	57857005	A	A	57857005	3	1	89	1	0	0	0	0	1	0	0	0	12234	1087	38	1	194	1	POLR2B	4	57857005	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	22362	57857005	133297271	1920	55751											
POLR2B	5431	broad.mit.edu	37	chr4	57889730	57889730	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcaatcaggaaggatataAattttgtaaaataagggtga	17	12	9	3	0	2	1	2	1	1	0	3	3	2	3	0	3	0	1	0	3	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:57889730A>C	uc003hcl.1	+	19	2793	c.2750A>C	c.(2749-2751)AAA>ACA	p.K917T	POLR2B_uc011cae.1_Missense_Mutation_p.K910T|POLR2B_uc011caf.1_Missense_Mutation_p.K842T|POLR2B_uc003hcm.1_Missense_Mutation_p.K410T	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	917					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					GAAGGATATAAATTTTGTAAA	0.343													53	90					0	0	1	0	0		C	57889730	C	C	57889730	3	2	89	1	0	0	0	0	1	0	0	0	12234	14	1	5	2824	5	POLR2B	4	57889730	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	32725	57889730	133264546	1921	55752											
EPHA5	2044	broad.mit.edu	37	chr4	66230858	66230858	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tactttaagggttttgatagCcacaggtaattctctttttc	9	18	7	7	0	1	1	0	1	1	0	3	1	1	1	1	2	2	2	1	2	4	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:66230858C>A	uc003hcy.2	-	12	2306	c.2113G>T	c.(2113-2115)GCT>TCT	p.A705S	EPHA5_uc003hcx.2_Missense_Mutation_p.A637S|EPHA5_uc003hcz.2_Missense_Mutation_p.A683S|EPHA5_uc011cah.1_Missense_Mutation_p.A706S|EPHA5_uc011cai.1_Missense_Mutation_p.A684S|EPHA5_uc003hda.2_Missense_Mutation_p.A706S	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	705	Cytoplasmic (Potential).|Protein kinase.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						GTTTTGATAGCCACAGGTAAT	0.373										TSP Lung(17;0.13)			39	101					4.62619e-21	5.47655e-21	1	1	0		A	66230858	A	A	66230858	3	1	89	1	0	0	0	0	1	0	0	0	5178	739	26	5	1028	5	EPHA5	4	66230858	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8341128	66230858	124923418	1922	55753											
EPHA5	2044	broad.mit.edu	37	chr4	66286258	66286258	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttttgcaattttccctttTttcacattggtgactggaga	7	20	7	7	0	1	2	1	1	0	1	2	3	2	2	1	2	1	1	1	2	1	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:66286258T>C	uc003hcy.2	-	6	1621	c.1428A>G	c.(1426-1428)AAA>AAG	p.K476K	EPHA5_uc003hcx.2_Silent_p.K407K|EPHA5_uc003hcz.2_Silent_p.K476K|EPHA5_uc011cah.1_Silent_p.K476K|EPHA5_uc011cai.1_Silent_p.K476K|EPHA5_uc003hda.2_Silent_p.K476K	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	476	Extracellular (Potential).|Fibronectin type-III 2.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TTTTCCCTTTTTTCACATTGG	0.353										TSP Lung(17;0.13)			21	41					0	0	1	0	0		C	66286258	C	C	66286258	2	2	89	1	0	0	0	0	0	0	0	1	5178	1838	64	3		3	EPHA5	4	66286258	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	55400	66286258	124868018	1923	55754											
EPHA5	2044	broad.mit.edu	37	chr4	66467723	66467723	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagatcaagttctgtaaaGctttcatcggcagcaatggt	12	11	9	9	1	3	1	2	0	1	1	4	1	3	1	1	2	2	5	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:66467723G>T	uc003hcy.2	-	3	739	c.546C>A	c.(544-546)AGC>AGA	p.S182R	EPHA5_uc003hcx.2_Missense_Mutation_p.S113R|EPHA5_uc003hcz.2_Missense_Mutation_p.S182R|EPHA5_uc011cah.1_Missense_Mutation_p.S182R|EPHA5_uc011cai.1_Missense_Mutation_p.S182R|EPHA5_uc003hda.2_Missense_Mutation_p.S182R	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	182	Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						GTTCTGTAAAGCTTTCATCGG	0.363										TSP Lung(17;0.13)			32	94					9.65021e-13	1.07265e-12	1	1	0		T	66467723	T	T	66467723	3	4	89	1	0	0	0	0	1	0	0	0	5178	962	34	5	2631	5	EPHA5	4	66467723	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	181465	66467723	124686553	1924	55755											
UBA6	55236	broad.mit.edu	37	chr4	68497427	68497427	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actaaatataaatacttacaAaggctcatttaaatcaaatt	20	13	2	6	0	2	0	2	0	0	0	2	0	2	0	0	1	2	1	0	1	11	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:68497427A>C	uc003hdg.3	-	25	2309	c.2257T>G	c.(2257-2259)TTG>GTG	p.L753V		NM_018227	NP_060697	A0AVT1	UBA6_HUMAN	ubiquitin-activating enzyme E1-like 2	753					protein ubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm	ATP binding|FAT10 activating enzyme activity|ligase activity|protein binding				0						AATACTTACAAAGGCTCATTT	0.299													12	27					0	0	1	0	0		C	68497427	C	C	68497427	3	2	89	1	0	0	0	0	1	0	0	0	16858	28	1	5	937	5	UBA6	4	68497427	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2029704	68497427	122656849	1925	55756											
TMPRSS11F	389208	broad.mit.edu	37	chr4	68930556	68930556	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtcattttcatttgtttCtctatggtaattctcatgaa	10	20	5	6	0	4	1	3	1	2	0	6	1	4	1	0	1	0	2	0	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:68930556C>A	uc003hdt.1	-	8	911	c.862G>T	c.(862-864)GAA>TAA	p.E288*	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron|SYT14L_uc010ihn.2_5'Flank	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	288	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						TCATTTGTTTCTCTATGGTAA	0.383													19	41					8.34094e-07	8.70543e-07	1	1	0		A	68930556	A	A	68930556	4	1	89	1	0	0	0	0	0	1	0	0	16268	922	32	5	466	5	TMPRSS11F	4	68930556	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	433129	68930556	122223720	1926	55757											
TMPRSS11F	389208	broad.mit.edu	37	chr4	68930577	68930577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctatggtaattctcatgaaGaataattttcctcacatttc	12	17	4	8	0	3	2	2	1	2	1	6	2	4	2	1	1	0	1	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:68930577G>A	uc003hdt.1	-	8	890	c.841C>T	c.(841-843)CTT>TTT	p.L281F	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron|SYT14L_uc010ihn.2_5'Flank	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	281	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						TTCTCATGAAGAATAATTTTC	0.358													12	39					0	0	1	0	0		A	68930577	A	A	68930577	3	1	89	1	0	0	0	0	1	0	0	0	16268	942	33	4	487	4	TMPRSS11F	4	68930577	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21	68930577	122223699	1927	55758											
YTHDC1	91746	broad.mit.edu	37	chr4	69198539	69198539	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcacgaacggaagatgAtaatttctcatgcttctttt	12	13	8	8	2	2	2	1	1	2	1	3	5	2	3	0	1	3	2	0	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:69198539A>G	uc003hdx.2	-	6	1353	c.1000T>C	c.(1000-1002)TCA>CCA	p.S334P	YTHDC1_uc003hdy.2_Intron	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	334										upper_aerodigestive_tract(1)|ovary(1)	2						ACGGAAGATGATAATTTCTCA	0.323													19	35					0	0	1	0	0		G	69198539	G	G	69198539	3	3	89	1	0	0	0	0	1	0	0	0	17522	333	12	3	1231	3	YTHDC1	4	69198539	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	267962	69198539	121955737	1928	55759											
YTHDC1	91746	broad.mit.edu	37	chr4	69203598	69203598	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtatcagtagattccattcGatcactttttctttttgatc	8	19	6	8	1	3	2	2	1	1	1	6	3	4	2	1	1	0	2	1	1	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:69203598G>A	uc003hdx.2	-	3	504	c.151C>T	c.(151-153)CGA>TGA	p.R51*	YTHDC1_uc003hdy.2_Nonsense_Mutation_p.R51*	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	51										upper_aerodigestive_tract(1)|ovary(1)	2						GATTCCATTCGATCACTTTTT	0.303													20	40					0	0	1	0	0		A	69203598	A	A	69203598	4	1	89	1	0	0	0	0	0	1	0	0	17522	1066	37	1	2092	1	YTHDC1	4	69203598	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5059	69203598	121950678	1929	55760											
UGT2B15	7366	broad.mit.edu	37	chr4	69513092	69513092	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgataatttcatgacattCtctttatagctgaaggataa	13	16	6	6	0	2	3	1	3	1	0	3	4	2	4	0	1	1	1	0	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:69513092C>A	uc011cal.1	-	6	1361	c.1323G>T	c.(1321-1323)GAG>GAT	p.E441D		NM_001076	NP_001067	P54855	UDB15_HUMAN	UDP glycosyltransferase 2B15 precursor	441					steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity				0						TCATGACATTCTCTTTATAGC	0.363													36	91					6.50621e-10	7.02873e-10	1	1	0		A	69513092	A	A	69513092	3	1	89	1	0	0	0	0	1	0	0	0	16984	912	32	5	1890	5	UGT2B15	4	69513092	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	309494	69513092	121641184	1930	55761											
UGT2B10	7365	broad.mit.edu	37	chr4	69884051	69884051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttaaaattccaggagtttCgcataagccatatgtcagct	13	13	7	8	1	1	0	1	0	0	0	3	1	2	1	2	1	2	3	2	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:69884051C>T	uc011cao.1	-	5	798	c.662G>A	c.(661-663)CGA>CAA	p.R221Q	UGT2B10_uc011can.1_Missense_Mutation_p.R137Q			P36537	UDB10_HUMAN	RecName: Full=UDP-glucuronosyltransferase 2B28;          Short=UDPGT 2B28;          EC=2.4.1.17; Flags: Precursor;	258					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						CCAGGAGTTTCGCATAAGCCA	0.383													60	120					0	0	1	0	0		T	69884051	T	T	69884051	3	4	89	1	0	0	0	0	1	0	0	0	16982	884	31	1	2444	1	UGT2B10	4	69884051	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	370959	69884051	121270225	1931	55762											
UGT2B10	7365	broad.mit.edu	37	chr4	69885730	69885730	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactacatctttacagaagtTtctaattatgttattatatg	14	18	4	5	0	2	1	0	0	2	1	2	1	2	1	0	0	3	2	0	0	9	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:69885730T>G	uc011cao.1	-	4	395	c.259A>C	c.(259-261)AAC>CAC	p.N87H	UGT2B10_uc011can.1_Missense_Mutation_p.N87H			P36537	UDB10_HUMAN	RecName: Full=UDP-glucuronosyltransferase 2B28;          Short=UDPGT 2B28;          EC=2.4.1.17; Flags: Precursor;	124					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						TTACAGAAGTTTCTAATTATG	0.308													15	32					0	0	1	0	0		G	69885730	G	G	69885730	3	3	89	1	0	0	0	0	1	0	0	0	16982	1841	64	5	2851	5	UGT2B10	4	69885730	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1679	69885730	121268546	1932	55763											
UGT2B7	7364	broad.mit.edu	37	chr4	69962911	69962911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttactttgacttttggttcGaaatatttgacatgaagaag	12	17	8	4	1	0	4	0	3	0	1	1	5	0	4	0	1	1	1	0	1	5	8	rs146308452	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:69962911G>A	uc003heg.3	+	1	719	c.673G>A	c.(673-675)GAA>AAA	p.E225K	UGT2B7_uc010ihq.2_Missense_Mutation_p.E225K	NM_001074	NP_001065	P16662	UD2B7_HUMAN	UDP glucuronosyltransferase 2B7 precursor	225					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|skin(1)	2						CTTTTGGTTCGAAATATTTGA	0.318													19	69					0	0	1	0	0		A	69962911	A	A	69962911	3	1	89	1	0	0	0	0	1	0	0	0	16988	1059	37	1	675	1	UGT2B7	4	69962911	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	77181	69962911	121191365	1933	55764											
C4orf7	260436	broad.mit.edu	37	chr4	71096917	71096917	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactccattttgcagatgaaGaaagttctcctcctgatcac	11	13	6	11	0	2	4	1	2	1	2	5	4	4	4	3	0	2	2	3	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:71096917G>T	uc003hfd.2	+	2	91	c.6G>T	c.(4-6)AAG>AAT	p.K2N		NM_152997	NP_694542	Q8NFU4	FDSCP_HUMAN	chromosome 4 open reading frame 7 precursor	2						extracellular region				central_nervous_system(1)	1						TGCAGATGAAGAAAGTTCTCC	0.318													34	90					4.92203e-23	5.88717e-23	1	1	0		T	71096917	T	T	71096917	3	4	89	1	0	0	0	0	1	0	0	0	2282	933	33	5	8	5	C4orf7	4	71096917	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1134006	71096917	120057359	1934	55765											
C4orf35	85438	broad.mit.edu	37	chr4	71201477	71201477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaagaagagaaaataaccGaaattgacctaagtgtttta	18	11	8	4	1	0	4	0	2	0	2	0	6	0	4	2	0	1	1	2	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:71201477G>A	uc003hff.2	+	1	807	c.721G>A	c.(721-723)GAA>AAA	p.E241K		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	241						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				GAAAATAACCGAAATTGACCT	0.423													27	59					0	0	1	0	0		A	71201477	A	A	71201477	3	1	89	1	0	0	0	0	1	0	0	0	2268	1059	37	1	723	1	C4orf35	4	71201477	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	104560	71201477	119952799	1935	55766											
PROL1	58503	broad.mit.edu	37	chr4	71275761	71275761	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcccagcctttaaaagttTttggcaaaaactctttgcca	12	12	6	11	0	1	0	0	0	1	0	1	0	1	0	3	1	4	2	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:71275761T>G	uc003hfi.2	+	3	890	c.716T>G	c.(715-717)TTT>TGT	p.F239C		NM_021225	NP_067048	Q99935	PROL1_HUMAN	proline rich, lacrimal 1	239					regulation of sensory perception of pain	extracellular region	endopeptidase inhibitor activity			large_intestine(1)	1		all_hematologic(202;0.196)				TTTAAAAGTTTTTGGCAAAAA	0.368													36	33					0	0	1	0	0		G	71275761	G	G	71275761	3	3	89	1	0	0	0	0	1	0	0	0	12576	1841	64	5	722	5	PROL1	4	71275761	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	74284	71275761	119878515	1936	55767											
MUC7	4589	broad.mit.edu	37	chr4	71346516	71346516	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attttctttcttttctgcagTtcagtgaaggtcgagaaagg	9	16	10	6	1	4	2	1	1	3	1	5	3	4	2	0	2	1	2	0	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:71346516T>G	uc011cat.1	+	4	343	c.55T>G	c.(55-57)TTC>GTC	p.F19V	MUC7_uc011cau.1_Missense_Mutation_p.F19V|MUC7_uc003hfj.2_Missense_Mutation_p.F19V	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	19						extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			ttttctgcagTTCAGTGAAGG	0.219													37	62					0	0	1	0	0		G	71346516	G	G	71346516	3	3	89	1	0	0	0	0	1	0	0	0	9999	1739	60	5	61	5	MUC7	4	71346516	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	70755	71346516	119807760	1937	55768											
MUC7	4589	broad.mit.edu	37	chr4	71347004	71347004	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actacaccagctccaccatcTtcctcagctccaccagagac	11	7	4	19	0	2	1	1	0	1	1	5	2	5	1	6	0	3	2	6	0	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:71347004T>G	uc011cat.1	+	4	831	c.543T>G	c.(541-543)TCT>TCG	p.S181S	MUC7_uc011cau.1_Silent_p.S181S|MUC7_uc003hfj.2_Silent_p.S181S|uc011cav.1_RNA	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	181	1.|Thr-rich.					extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			CTCCACCATCTTCCTCAGCTC	0.572													78	142					0	0	1	0	0		G	71347004	G	G	71347004	2	3	89	1	0	0	0	0	0	0	0	1	9999	1596	56	5		5	MUC7	4	71347004	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	488	71347004	119807272	1938	55769											
AMTN	401138	broad.mit.edu	37	chr4	71389592	71389592	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcccctgcaggtctttcCttctttaagtctgataccat	8	15	5	13	0	3	1	0	1	3	0	5	1	5	1	4	1	2	1	4	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:71389592C>A	uc003hfk.1	+	4	235	c.146C>A	c.(145-147)CCT>CAT	p.P49H	AMTN_uc010ihy.1_Missense_Mutation_p.P48H	NM_212557	NP_997722	Q6UX39	AMTN_HUMAN	amelotin precursor	49					biomineral tissue development|cell adhesion|odontogenesis of dentine-containing tooth	basal lamina|cell-cell junction				large_intestine(1)|central_nervous_system(1)	2			Lung(101;0.235)			CAGGTCTTTCCTTCTTTAAGT	0.408													49	106					2.29192e-23	2.74373e-23	1	1	0		A	71389592	A	A	71389592	3	1	89	1	0	0	0	0	1	0	0	0	590	681	24	5	156	5	AMTN	4	71389592	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	42588	71389592	119764684	1939	55770											
ENAM	10117	broad.mit.edu	37	chr4	71497411	71497411	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaggcaaaatgaagattCtcctggtctttctagggctt	12	12	9	8	0	3	2	0	1	3	1	4	2	3	2	1	3	0	2	1	3	6	4	rs141942524		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:71497411C>A	uc011caw.1	+	3	360	c.79C>A	c.(79-81)CTC>ATC	p.L27I		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	27					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			AATGAAGATTCTCCTGGTCTT	0.348													75	165					2.43516e-34	3.00028e-34	1	1	0		A	71497411	A	A	71497411	3	1	89	1	0	0	0	0	1	0	0	0	5120	913	32	5	85	5	ENAM	4	71497411	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	107819	71497411	119656865	1940	55771											
SLC4A4	8671	broad.mit.edu	37	chr4	72423482	72423482	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagcatcagcctgacttCatctacctgcgtcatgttcc	8	12	7	14	1	4	2	3	2	1	0	5	2	5	2	3	0	4	2	3	0	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:72423482C>A	uc003hfy.2	+	22	2934	c.2817C>A	c.(2815-2817)TTC>TTA	p.F939L	SLC4A4_uc010iic.2_Missense_Mutation_p.F939L|SLC4A4_uc010iib.2_Missense_Mutation_p.F855L|SLC4A4_uc003hfz.2_Missense_Mutation_p.F939L|SLC4A4_uc003hgc.3_Missense_Mutation_p.F895L|SLC4A4_uc010iid.2_Missense_Mutation_p.F143L	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	939	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			AGCCTGACTTCATCTACCTGC	0.517													21	44					1.01871e-10	1.10886e-10	1	1	0		A	72423482	A	A	72423482	3	1	89	1	0	0	0	0	1	0	0	0	14681	825	29	5	3020	5	SLC4A4	4	72423482	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	926071	72423482	118730794	1941	55772											
SLC4A4	8671	broad.mit.edu	37	chr4	72429587	72429587	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacagcaacctttcctaagCgatagcaaaccttctgacag	14	8	7	12	1	1	1	0	1	1	0	2	3	2	1	3	0	6	2	3	0	5	4	rs139191615		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:72429587C>T	uc003hfy.2	+	24	3294	c.3177C>T	c.(3175-3177)AGC>AGT	p.S1059S	SLC4A4_uc010iic.2_Intron|SLC4A4_uc010iib.2_Silent_p.S975S|SLC4A4_uc003hfz.2_Silent_p.S1059S|SLC4A4_uc003hgc.3_Silent_p.S1015S|SLC4A4_uc010iid.2_Silent_p.S263S	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	1059	Required for basolateral targeting.|Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			CTTTCCTAAGCGATAGCAAAC	0.393													43	65					0	0	1	0	0		T	72429587	T	T	72429587	2	4	89	1	0	0	0	0	0	0	0	1	14681	767	27	1		1	SLC4A4	4	72429587	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6105	72429587	118724689	1942	55773											
GC	2638	broad.mit.edu	37	chr4	72622523	72622523	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagttgggcagctggcatgaAgtaagtgcacacaaaaacgt	14	7	13	7	1	0	1	0	1	0	0	0	2	0	1	0	2	3	6	0	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:72622523A>C	uc003hge.2	-	8	1093	c.940T>G	c.(940-942)TTC>GTC	p.F314V	GC_uc003hgd.2_Missense_Mutation_p.F192V|GC_uc010iie.2_Missense_Mutation_p.F314V|GC_uc010iif.2_Missense_Mutation_p.F333V	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	314	Albumin 2.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	GCTGGCATGAAGTAAGTGCAC	0.418													28	50					0	0	1	0	0		C	72622523	C	C	72622523	3	2	89	1	0	0	0	0	1	0	0	0	6297	72	3	5	504	5	GC	4	72622523	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	192936	72622523	118531753	1943	55774											
NPFFR2	10886	broad.mit.edu	37	chr4	73013275	73013275	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcatttatggtttcttcAacgagaatttccgccgtggt	8	15	8	10	3	3	1	2	0	1	1	4	2	4	1	3	2	1	1	3	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:73013275A>G	uc003hgg.2	+	4	1413	c.1315A>G	c.(1315-1317)AAC>GAC	p.N439D	NPFFR2_uc010iig.1_Missense_Mutation_p.N221D|NPFFR2_uc003hgi.2_Missense_Mutation_p.N340D|NPFFR2_uc003hgh.2_Missense_Mutation_p.N337D|NPFFR2_uc003hgj.2_RNA	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	439	Cytoplasmic (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			TGGTTTCTTCAACGAGAATTT	0.453													32	70					0	0	1	0	0		G	73013275	G	G	73013275	3	3	89	1	0	0	0	0	1	0	0	0	10597	130	5	3	1335	3	NPFFR2	4	73013275	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	390752	73013275	118141001	1944	55775											
COX18	285521	broad.mit.edu	37	chr4	73927616	73927616	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctgaaaacgagacattcCaattttttgtagagcacaaa	15	11	7	8	2	1	3	0	1	1	2	2	4	2	3	1	0	2	2	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:73927616C>A	uc003hgm.1	-	5	848	c.742G>T	c.(742-744)GGA>TGA	p.G248*	COX18_uc003hgn.1_Nonsense_Mutation_p.G97*|COX18_uc011cbc.1_Nonsense_Mutation_p.G249*|COX18_uc010iih.1_Nonsense_Mutation_p.G248*	NM_173827	NP_776188	Q8N8Q8	COX18_HUMAN	mitochondrial COX18 precursor	248					protein insertion into mitochondrial membrane|respiratory chain complex IV assembly	integral to mitochondrial inner membrane	protein transporter activity				0	Breast(15;0.00096)		Epithelial(6;1.26e-06)|OV - Ovarian serous cystadenocarcinoma(6;9.45e-06)|all cancers(17;2.05e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CGAGACATTCCAATTTTTTGT	0.363													14	18					0.0202918	0.020439	1	1	0		A	73927616	A	A	73927616	4	1	89	1	0	0	0	0	0	1	0	0	3770	603	21	5	267	5	COX18	4	73927616	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	914341	73927616	117226660	1945	55776											
ANKRD17	26057	broad.mit.edu	37	chr4	73956680	73956680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactttgtgtacttaaggtcGaaggtagctggacagaagag	12	10	13	6	1	0	2	0	0	0	2	1	4	0	3	0	3	2	3	0	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:73956680G>A	uc003hgp.2	-	29	6782	c.6665C>T	c.(6664-6666)TCG>TTG	p.S2222L	ANKRD17_uc003hgo.2_Missense_Mutation_p.S2109L|ANKRD17_uc003hgq.2_Missense_Mutation_p.S1971L|ANKRD17_uc003hgr.2_Missense_Mutation_p.S2221L	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	2222					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			ACTTAAGGTCGAAGGTAGCTG	0.443													59	159					0	0	1	0	0		A	73956680	A	A	73956680	3	1	89	1	0	0	0	0	1	0	0	0	646	1059	37	1	1170	1	ANKRD17	4	73956680	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	29064	73956680	117197596	1946	55777											
ANKRD17	26057	broad.mit.edu	37	chr4	73979536	73979536	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtctaactcctctaacaaAatgctggcgtttttgtttgc	10	15	7	9	1	2	0	0	0	2	0	3	0	3	0	1	1	4	3	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:73979536A>C	uc003hgp.2	-	24	4491	c.4374T>G	c.(4372-4374)ATT>ATG	p.I1458M	ANKRD17_uc003hgo.2_Missense_Mutation_p.I1345M|ANKRD17_uc003hgq.2_Missense_Mutation_p.I1207M|ANKRD17_uc003hgr.2_Missense_Mutation_p.I1457M|ANKRD17_uc011cbd.1_Missense_Mutation_p.I1023M	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1458	Potential.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CCTCTAACAAAATGCTGGCGT	0.303													57	135					0	0	1	0	0		C	73979536	C	C	73979536	3	2	89	1	0	0	0	0	1	0	0	0	646	10	1	5	3481	5	ANKRD17	4	73979536	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	22856	73979536	117174740	1947	55778											
ALB	213	broad.mit.edu	37	chr4	74283258	74283258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttttcaggctattagttCgttacaccaagaaagtaccc	11	15	6	9	1	1	1	1	0	0	1	2	1	1	1	2	1	2	4	2	1	6	8	rs78575701		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:74283258C>T	uc003hgs.3	+	11	1373	c.1300C>T	c.(1300-1302)CGT>TGT	p.R434C	ALB_uc003hgw.3_Missense_Mutation_p.R242C|ALB_uc011cbe.1_Missense_Mutation_p.R113C|ALB_uc003hgt.3_Missense_Mutation_p.R434C|ALB_uc010iii.2_Missense_Mutation_p.R319C|ALB_uc003hgu.3_Missense_Mutation_p.R284C|ALB_uc003hgv.3_Missense_Mutation_p.R113C|ALB_uc011cbf.1_Missense_Mutation_p.R324C|ALB_uc010iij.2_Intron|ALB_uc003hgx.3_Missense_Mutation_p.R113C	NM_000477	NP_000468	P02768	ALBU_HUMAN	albumin preproprotein	434	Albumin 3.		R -> C (in Liprizzi).		bile acid and bile salt transport|bile acid metabolic process|cellular response to starvation|hemolysis by symbiont of host erythrocytes|lipoprotein metabolic process|maintenance of mitochondrion location|negative regulation of apoptosis|platelet activation|platelet degranulation|sodium-independent organic anion transport|transmembrane transport	extracellular space|platelet alpha granule lumen|protein complex	antioxidant activity|chaperone binding|copper ion binding|DNA binding|drug binding|fatty acid binding|pyridoxal phosphate binding|toxin binding			ovary(3)|skin(3)	6	Breast(15;0.00102)		Epithelial(6;4.8e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000263)|all cancers(17;0.000472)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Acenocoumarol(DB01418)|Acitretin(DB00459)|Alfentanil(DB00802)|Aluminium(DB01370)|Auranofin(DB00995)|Bismuth(DB01402)|Captopril(DB01197)|Carboplatin(DB00958)|Cefalotin(DB00456)|Cefazolin(DB01327)|Cefonicid(DB01328)|Cefoperazone(DB01329)|Chlorpheniramine(DB01114)|Chlorpromazine(DB00477)|Ciprofloxacin(DB00537)|Clonazepam(DB01068)|Cloxacillin(DB01147)|Cytarabine(DB00987)|Dantrolene(DB01219)|Diclofenac(DB00586)|Diflunisal(DB00861)|Digitoxin(DB01396)|Estrone(DB00655)|Ethacrynic acid(DB00903)|Etodolac(DB00749)|Flurbiprofen(DB00712)|Gadobenate Dimeglumine(DB00743)|Gatifloxacin(DB01044)|Gliclazide(DB01120)|Halothane(DB01159)|Human Serum Albumin(DB00062)|Hyaluronidase(DB00070)|Ibuprofen(DB01050)|Insulin-detemir(DB01307)|Insulin-glargine(DB01308)|Iodipamide(DB04711)|Ketoprofen(DB01009)|Levamisole(DB00848)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Mefenamic acid(DB00784)|Mephenytoin(DB00532)|Methotrexate(DB00563)|Nortriptyline(DB00540)|Oxazepam(DB00842)|Paclitaxel(DB01229)|Phenprocoumon(DB00946)|Probenecid(DB01032)|Propofol(DB00818)|Pyridoxine(DB00165)|Salicyclic acid(DB00936)|Saquinavir(DB01232)|Serum albumin(DB00096)|Serum albumin iodonated(DB00064)|Sodium lauryl sulfate(DB00815)|Sucralfate(DB00364)|Sulfamethizole(DB00576)|Sulindac(DB00605)|Suprofen(DB00870)|Testosterone(DB00624)|Xanthophyll(DB00137)	GCTATTAGTTCGTTACACCAA	0.403													28	51					0	0	1	0	0		T	74283258	T	T	74283258	3	4	89	1	0	0	0	0	1	0	0	0	486	884	31	1	1342	1	ALB	4	74283258	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	303722	74283258	116871018	1948	55779											
ALB	213	broad.mit.edu	37	chr4	74285345	74285345	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgacgataaggagacctgcTttgccgaggaggtactacag	11	8	13	9	2	0	2	0	1	0	1	0	6	0	3	2	3	4	2	2	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:74285345T>G	uc003hgs.3	+	13	1847	c.1774T>G	c.(1774-1776)TTT>GTT	p.F592V	ALB_uc003hgw.3_Missense_Mutation_p.F400V|ALB_uc011cbe.1_Missense_Mutation_p.F271V|ALB_uc003hgt.3_Missense_Mutation_p.F592V|ALB_uc010iii.2_Missense_Mutation_p.F477V|ALB_uc003hgu.3_Missense_Mutation_p.F442V|ALB_uc003hgv.3_Missense_Mutation_p.F271V|ALB_uc011cbf.1_Missense_Mutation_p.F482V|ALB_uc010iij.2_RNA|ALB_uc003hgx.3_Missense_Mutation_p.F271V	NM_000477	NP_000468	P02768	ALBU_HUMAN	albumin preproprotein	592	Albumin 3.				bile acid and bile salt transport|bile acid metabolic process|cellular response to starvation|hemolysis by symbiont of host erythrocytes|lipoprotein metabolic process|maintenance of mitochondrion location|negative regulation of apoptosis|platelet activation|platelet degranulation|sodium-independent organic anion transport|transmembrane transport	extracellular space|platelet alpha granule lumen|protein complex	antioxidant activity|chaperone binding|copper ion binding|DNA binding|drug binding|fatty acid binding|pyridoxal phosphate binding|toxin binding			ovary(3)|skin(3)	6	Breast(15;0.00102)		Epithelial(6;4.8e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000263)|all cancers(17;0.000472)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Acenocoumarol(DB01418)|Acitretin(DB00459)|Alfentanil(DB00802)|Aluminium(DB01370)|Auranofin(DB00995)|Bismuth(DB01402)|Captopril(DB01197)|Carboplatin(DB00958)|Cefalotin(DB00456)|Cefazolin(DB01327)|Cefonicid(DB01328)|Cefoperazone(DB01329)|Chlorpheniramine(DB01114)|Chlorpromazine(DB00477)|Ciprofloxacin(DB00537)|Clonazepam(DB01068)|Cloxacillin(DB01147)|Cytarabine(DB00987)|Dantrolene(DB01219)|Diclofenac(DB00586)|Diflunisal(DB00861)|Digitoxin(DB01396)|Estrone(DB00655)|Ethacrynic acid(DB00903)|Etodolac(DB00749)|Flurbiprofen(DB00712)|Gadobenate Dimeglumine(DB00743)|Gatifloxacin(DB01044)|Gliclazide(DB01120)|Halothane(DB01159)|Human Serum Albumin(DB00062)|Hyaluronidase(DB00070)|Ibuprofen(DB01050)|Insulin-detemir(DB01307)|Insulin-glargine(DB01308)|Iodipamide(DB04711)|Ketoprofen(DB01009)|Levamisole(DB00848)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Mefenamic acid(DB00784)|Mephenytoin(DB00532)|Methotrexate(DB00563)|Nortriptyline(DB00540)|Oxazepam(DB00842)|Paclitaxel(DB01229)|Phenprocoumon(DB00946)|Probenecid(DB01032)|Propofol(DB00818)|Pyridoxine(DB00165)|Salicyclic acid(DB00936)|Saquinavir(DB01232)|Serum albumin(DB00096)|Serum albumin iodonated(DB00064)|Sodium lauryl sulfate(DB00815)|Sucralfate(DB00364)|Sulfamethizole(DB00576)|Sulindac(DB00605)|Suprofen(DB00870)|Testosterone(DB00624)|Xanthophyll(DB00137)	GGAGACCTGCTTTGCCGAGGA	0.418													44	89					0	0	1	0	0		G	74285345	G	G	74285345	3	3	89	1	0	0	0	0	1	0	0	0	486	1609	56	5	1824	5	ALB	4	74285345	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2087	74285345	116868931	1949	55780											
RASSF6	166824	broad.mit.edu	37	chr4	74447980	74447980	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactctgaccttagtttctgAttcaaaggctggaatgaaaa	13	13	8	7	0	3	3	1	3	2	0	3	4	3	4	1	2	1	2	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:74447980A>G	uc003hhd.1	-	7	814	c.691T>C	c.(691-693)TCA>CCA	p.S231P	RASSF6_uc003hhc.1_Missense_Mutation_p.S199P|RASSF6_uc010iik.1_Intron|RASSF6_uc010iil.1_Missense_Mutation_p.S187P	NM_201431	NP_958834	Q6ZTQ3	RASF6_HUMAN	Ras association (RalGDS/AF-6) domain family 6	231	Ras-associating.				apoptosis|signal transduction		protein binding			pancreas(2)	2	Breast(15;0.00102)		all cancers(17;0.00104)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)			TTAGTTTCTGATTCAAAGGCT	0.289													10	19					0	0	1	0	0		G	74447980	G	G	74447980	3	3	89	1	0	0	0	0	1	0	0	0	13115	333	12	3	438	3	RASSF6	4	74447980	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	162635	74447980	116706296	1950	55781											
RASSF6	166824	broad.mit.edu	37	chr4	74477513	74477513	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgagccatcatagtcatCttttcctcctttttgagatg	7	17	8	9	0	3	2	2	2	1	1	5	3	5	2	3	1	1	0	3	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:74477513C>A	uc003hhd.1	-	2	219	c.96G>T	c.(94-96)AAG>AAT	p.K32N	RASSF6_uc003hhc.1_5'UTR|RASSF6_uc010iik.1_5'UTR|RASSF6_uc010iil.1_Intron	NM_201431	NP_958834	Q6ZTQ3	RASF6_HUMAN	Ras association (RalGDS/AF-6) domain family 6	32					apoptosis|signal transduction		protein binding			pancreas(2)	2	Breast(15;0.00102)		all cancers(17;0.00104)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)			TCATAGTCATCTTTTCCTCCT	0.333													42	77					4.67007e-22	5.55902e-22	1	1	0		A	74477513	A	A	74477513	3	1	89	1	0	0	0	0	1	0	0	0	13115	912	32	5	1053	5	RASSF6	4	74477513	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	29533	74477513	116676763	1951	55782											
RCHY1	25898	broad.mit.edu	37	chr4	76419368	76419368	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacatttcaaacaatggaaAaaatcttcctttggaccaat	16	13	4	8	0	2	0	1	0	1	0	3	2	3	2	2	2	2	0	2	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:76419368A>C	uc003hik.2	-	4	480	c.348T>G	c.(346-348)TTT>TTG	p.F116L	RCHY1_uc010iio.2_Missense_Mutation_p.F12L|RCHY1_uc003hij.2_Missense_Mutation_p.F116L|RCHY1_uc003hil.2_Missense_Mutation_p.F116L|RCHY1_uc010iip.2_Missense_Mutation_p.F116L|RCHY1_uc010iiq.2_RNA|RCHY1_uc010iir.2_Missense_Mutation_p.F76L	NM_015436	NP_056251	Q96PM5	ZN363_HUMAN	ring finger and CHY zinc finger domain	116	CTCHY-type.				positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein autoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nuclear speck|ubiquitin ligase complex	electron carrier activity|p53 binding|protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			AACAATGGAAAAAATCTTCCT	0.269													10	24					0	0	1	0	0		C	76419368	C	C	76419368	3	2	89	1	0	0	0	0	1	0	0	0	13202	11	1	5	461	5	RCHY1	4	76419368	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1941855	76419368	114734908	1952	55783											
CDKL2	8999	broad.mit.edu	37	chr4	76521479	76521479	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgatggggaatgtctgttCggtttaacaaatggaataga	12	12	12	5	1	1	2	0	1	1	1	2	4	1	4	1	4	1	2	1	4	5	4	rs146029707		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:76521479C>T	uc003hiq.2	-	10	1893	c.1368G>A	c.(1366-1368)CCG>CCA	p.P456P	CDKL2_uc011cbp.1_Silent_p.P456P	NM_003948	NP_003939	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2	456					sex differentiation|signal transduction	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(2)|stomach(2)|breast(2)|skin(1)	7			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			AATGTCTGTTCGGTTTAACAA	0.343													23	56					0	0	1	0	0		T	76521479	T	T	76521479	2	4	89	1	0	0	0	0	0	0	0	1	3157	871	31	1		1	CDKL2	4	76521479	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	102111	76521479	114632797	1953	55784											
G3BP2	9908	broad.mit.edu	37	chr4	76570777	76570777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccgggacctcgatcattgCgcctaatatccctgcgatca	9	9	8	15	4	2	0	2	0	0	0	4	3	3	1	4	1	2	0	4	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:76570777C>T	uc003hir.2	-	12	1451	c.1286G>A	c.(1285-1287)CGC>CAC	p.R429H	G3BP2_uc003his.2_Missense_Mutation_p.R429H|G3BP2_uc003hit.2_Missense_Mutation_p.R396H	NM_012297	NP_036429	Q9UN86	G3BP2_HUMAN	Ras-GTPase activating protein SH3 domain-binding	429	Gly-rich.				cytoplasmic sequestering of NF-kappaB|mRNA transport|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	GTPase activator activity|nucleotide binding|receptor signaling complex scaffold activity|RNA binding			breast(2)|central_nervous_system(1)	3			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			TCGATCATTGCGCCTAATATC	0.522													31	88					0	0	1	0	0		T	76570777	T	T	76570777	3	4	89	1	0	0	0	0	1	0	0	0	6156	768	27	1	166	1	G3BP2	4	76570777	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	49298	76570777	114583499	1954	55785											
USO1	8615	broad.mit.edu	37	chr4	76715020	76715020	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattggcaaccctccagtttCtttacttcaacagtgcacca	10	13	5	13	0	2	0	1	0	1	0	3	0	3	0	3	1	4	3	3	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:76715020C>A	uc003hiu.2	+	12	1593	c.1418C>A	c.(1417-1419)TCT>TAT	p.S473Y	USO1_uc003hiv.2_Missense_Mutation_p.S308Y|USO1_uc003hiw.2_Missense_Mutation_p.S308Y	NM_003715	NP_003706	O60763	USO1_HUMAN	USO1 homolog, vesicle docking protein	473	Globular head.|ARM 9.				intracellular protein transport|vesicle fusion with Golgi apparatus	cytosol|Golgi membrane	protein binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			CCTCCAGTTTCTTTACTTCAA	0.423													21	57					1.1804e-14	1.33524e-14	1	1	0		A	76715020	A	A	76715020	3	1	89	1	0	0	0	0	1	0	0	0	17065	913	32	5	1309	5	USO1	4	76715020	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	144243	76715020	114439256	1955	55786											
PPEF2	5470	broad.mit.edu	37	chr4	76805796	76805796	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctgttaagatggaactCtttggggtaaaccagcatga	11	12	10	8	0	2	2	0	1	2	1	3	3	3	3	2	3	3	3	2	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:76805796C>A	uc003hix.2	-	8	1054	c.697G>T	c.(697-699)GAG>TAG	p.E233*	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Nonsense_Mutation_p.E233*	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	233	Catalytic.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			AGATGGAACTCTTTGGGGTAA	0.403													76	137					7.45626e-27	9.03977e-27	1	1	0		A	76805796	A	A	76805796	4	1	89	1	0	0	0	0	0	1	0	0	12327	922	32	5	1604	5	PPEF2	4	76805796	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	90776	76805796	114348480	1956	55787											
PPEF2	5470	broad.mit.edu	37	chr4	76811283	76811283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaatatgcgggtcaggaagtCccctagtccagatagaaaag	14	7	12	8	1	1	2	1	0	0	2	3	4	3	3	3	2	1	0	3	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:76811283C>T	uc003hix.2	-	5	601	c.244G>A	c.(244-246)GAC>AAC	p.D82N	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Missense_Mutation_p.D82N	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	82					detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			GTCAGGAAGTCCCCTAGTCCA	0.418													27	60					0	0	1	0	0		T	76811283	T	T	76811283	3	4	89	1	0	0	0	0	1	0	0	0	12327	855	30	4	2069	4	PPEF2	4	76811283	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5487	76811283	114342993	1957	55788											
CCDC158	339965	broad.mit.edu	37	chr4	77252554	77252554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtccctcaacgagttgttgCttctgttggtagagggatgg	7	13	14	7	1	2	1	1	0	1	1	3	3	3	2	1	3	2	5	1	3	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:77252554C>T	uc003hkb.3	-	20	3026	c.2873G>A	c.(2872-2874)AGC>AAC	p.S958N		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	958	Ser-rich.									skin(3)|ovary(2)|pancreas(1)	6						CGAGTTGTTGCTTCTGTTGGT	0.363													38	93					0	0	1	0	0		T	77252554	T	T	77252554	3	4	89	1	0	0	0	0	1	0	0	0	2793	797	28	2	488	2	CCDC158	4	77252554	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	441271	77252554	113901722	1958	55789											
SHROOM3	57619	broad.mit.edu	37	chr4	77660178	77660179	+	Frame_Shift_Ins	INS	-	T	T																															ctggccgggagcgttcaggcINStccatggacaatacttctgc																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:77660178_77660179insT	uc011cbx.1	+	5	1805_1806	c.852_853insT	c.(850-855)GGCTCCfs	p.G284fs	SHROOM3_uc011cbz.1_Frame_Shift_Ins_p.G108fs|SHROOM3_uc003hkf.1_Frame_Shift_Ins_p.G159fs|SHROOM3_uc003hkg.2_Frame_Shift_Ins_p.G62fs	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	284_285					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			AGCGTTCAGGCTCCATGGACAA	0.54													20	42	---	---	---	---						.	T	77660179	T	T	77660178	7	5	89	1	0	1	1	0	0	0	0	0	14320	784	28	0	870	0	SHROOM3	4	77660178	Frame_Shift_Ins	INS	-	TCGA-BR-8680-01A-11D-2394-08	407624	77660178	113494098	1959	55790											
SHROOM3	57619	broad.mit.edu	37	chr4	77700059	77700059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagggagcgagtagtgctggGcatcttggccaattaccttt	8	11	13	9	1	1	0	0	0	1	0	1	2	1	1	2	3	3	3	2	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:77700059G>A	uc011cbx.1	+	11	6673	c.5720G>A	c.(5719-5721)GGC>GAC	p.G1907D	SHROOM3_uc003hkg.2_Missense_Mutation_p.G1685D	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	1907	ASD2.				apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			GTAGTGCTGGGCATCTTGGCC	0.542													23	36					0	0	1	0	0		A	77700059	A	A	77700059	3	1	89	1	0	0	0	0	1	0	0	0	14320	1203	42	2	5762	2	SHROOM3	4	77700059	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	39881	77700059	113454217	1960	55791											
FRAS1	80144	broad.mit.edu	37	chr4	79236761	79236761	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttagcttgtgaccaatcCtgtgacagttgtggccccag	7	11	10	13	0	0	2	0	2	0	0	1	2	1	2	5	1	1	2	5	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:79236761C>T	uc003hlb.2	+	16	2132	c.1692C>T	c.(1690-1692)TCC>TCT	p.S564S	FRAS1_uc003hkw.2_Silent_p.S564S|FRAS1_uc003hky.1_Silent_p.S268S|FRAS1_uc003hkz.2_Silent_p.S268S|FRAS1_uc003hla.1_Silent_p.S75S	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	564	FU 4.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						GTGACCAATCCTGTGACAGTT	0.483													37	67					0	0	1	0	0		T	79236761	T	T	79236761	2	4	89	1	0	0	0	0	0	0	0	1	6056	668	24	4		4	FRAS1	4	79236761	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1536702	79236761	111917515	1961	55792											
FRAS1	80144	broad.mit.edu	37	chr4	79400712	79400712	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcatgcttattgatgacagCgagtatgaagaggaagaaga	15	9	13	4	1	1	6	1	3	0	3	1	8	1	7	0	1	2	2	0	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:79400712C>T	uc003hlb.2	+	56	8723	c.8283C>T	c.(8281-8283)AGC>AGT	p.S2761S		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2756	Extracellular (Potential).|Calx-beta 2.				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TTGATGACAGCGAGTATGAAG	0.507													21	55					0	0	1	0	0		T	79400712	T	T	79400712	2	4	89	1	0	0	0	0	0	0	0	1	6056	767	27	1		1	FRAS1	4	79400712	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	163951	79400712	111753564	1962	55793											
FRAS1	80144	broad.mit.edu	37	chr4	79458157	79458157	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcttttcaggtcaaatcCtttatggccgagtactttgg	9	15	8	9	1	3	0	2	0	1	0	4	1	4	0	2	3	1	1	2	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:79458157C>A	uc003hlb.2	+	72	11541	c.11101C>A	c.(11101-11103)CTT>ATT	p.L3701I		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	3696	Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						AGGTCAAATCCTTTATGGCCG	0.373													26	71					1.68575e-08	1.7923e-08	1	1	0		A	79458157	A	A	79458157	3	1	89	1	0	0	0	0	1	0	0	0	6056	681	24	5	11462	5	FRAS1	4	79458157	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	57445	79458157	111696119	1963	55794											
PAQR3	152559	broad.mit.edu	37	chr4	79845039	79845039	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccgctctgggactttggaAatgtagaataggaaagcaag	14	9	12	6	1	1	1	0	0	1	1	1	4	1	4	1	3	2	3	1	3	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:79845039A>C	uc003hlp.1	-	5	969	c.765T>G	c.(763-765)ATT>ATG	p.I255M	PAQR3_uc003hlm.2_RNA|PAQR3_uc003hln.2_RNA|PAQR3_uc003hlq.1_Missense_Mutation_p.I137M	NM_001040202	NP_001035292	Q6TCH7	PAQR3_HUMAN	progestin and adipoQ receptor family member III	255	Helical; (Potential).					Golgi membrane|integral to membrane	receptor activity				0						GGACTTTGGAAATGTAGAATA	0.378													17	42					0	0	1	0	0		C	79845039	C	C	79845039	3	2	89	1	0	0	0	0	1	0	0	0	11455	10	1	5	178	5	PAQR3	4	79845039	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	386882	79845039	111309237	1964	55795											
GK2	2712	broad.mit.edu	37	chr4	80328097	80328097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccatctacctgcaaatgacGaagtggaattccacagtcac	13	9	7	12	1	2	1	1	1	1	0	4	3	4	2	3	1	2	1	3	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:80328097G>A	uc003hlu.2	-	1	1276	c.1258C>T	c.(1258-1260)CGT>TGT	p.R420C		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	420					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						TGCAAATGACGAAGTGGAATT	0.393													41	80					0	0	1	0	0		A	80328097	A	A	80328097	3	1	89	1	0	0	0	0	1	0	0	0	6436	1058	37	1	407	1	GK2	4	80328097	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	483058	80328097	110826179	1965	55796											
ANTXR2	118429	broad.mit.edu	37	chr4	80977160	80977160	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcctccaagcctttactgaTtttgcctctgaaaataatat	12	15	4	10	0	1	2	0	2	1	0	3	2	3	2	4	0	3	0	4	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:80977160T>G	uc003hlz.3	-	4	1067	c.304A>C	c.(304-306)ATC>CTC	p.I102L	ANTXR2_uc003hly.3_Missense_Mutation_p.I102L|ANTXR2_uc003hlx.1_RNA|ANTXR2_uc010ijn.2_Missense_Mutation_p.I102L	NM_001145794	NP_001139266	P58335	ANTR2_HUMAN	anthrax toxin receptor 2 isoform 2	102	Extracellular (Potential).|VWFA.					endoplasmic reticulum membrane|extracellular region|integral to membrane|plasma membrane	metal ion binding|protein binding|receptor activity			ovary(1)	1						CCTTTACTGATTTTGCCTCTG	0.303									Juvenile_Hyaline_Fibromatosis				8	3					0	0	1	0	0		G	80977160	G	G	80977160	3	3	89	1	0	0	0	0	1	0	0	0	712	1493	52	5	1260	5	ANTXR2	4	80977160	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	649063	80977160	110177116	1966	55797											
PRDM8	56978	broad.mit.edu	37	chr4	81124520	81124520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtgcaatgcctccttccGcatgacctccgacctggtgt	7	10	9	15	2	0	1	0	1	0	0	3	2	3	1	6	1	2	2	6	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:81124520G>A	uc010ijo.2	+	8	2743	c.1904G>A	c.(1903-1905)CGC>CAC	p.R635H	PRDM8_uc003hmb.3_Missense_Mutation_p.R635H|PRDM8_uc003hmc.3_Missense_Mutation_p.R635H	NM_020226	NP_064611	Q9NQV8	PRDM8_HUMAN	PR domain containing 8	635	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GCCTCCTTCCGCATGACCTCC	0.478													15	15					0	0	1	0	0		A	81124520	A	A	81124520	3	1	89	1	0	0	0	0	1	0	0	0	12484	1087	38	1	1914	1	PRDM8	4	81124520	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	147360	81124520	110029756	1967	55798											
PRDM8	56978	broad.mit.edu	37	chr4	81124564	81124564	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatgaggtcgcaccacaaaAaggagtatgcgatggagccc	14	6	12	9	2	0	1	0	1	0	0	1	4	0	3	2	3	2	2	2	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:81124564A>C	uc010ijo.2	+	8	2787	c.1948A>C	c.(1948-1950)AAG>CAG	p.K650Q	PRDM8_uc003hmb.3_Missense_Mutation_p.K650Q|PRDM8_uc003hmc.3_Missense_Mutation_p.K650Q	NM_020226	NP_064611	Q9NQV8	PRDM8_HUMAN	PR domain containing 8	650					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GCACCACAAAAAGGAGTATGC	0.597													13	17					0	0	1	0	0		C	81124564	C	C	81124564	3	2	89	1	0	0	0	0	1	0	0	0	12484	15	1	5	1958	5	PRDM8	4	81124564	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	44	81124564	110029712	1968	55799											
BMP3	651	broad.mit.edu	37	chr4	81967324	81967324	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaatgatgccgccatttCtgagccagaaagtgtggtat	10	11	11	9	1	1	3	0	2	1	1	1	3	1	3	4	1	3	1	4	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:81967324C>A	uc003hmg.3	+	2	1069	c.749C>A	c.(748-750)TCT>TAT	p.S250Y		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	250					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						GCCGCCATTTCTGAGCCAGAA	0.473													48	81					1.06522e-23	1.27633e-23	1	1	0		A	81967324	A	A	81967324	3	1	89	1	0	0	0	0	1	0	0	0	1462	913	32	5	755	5	BMP3	4	81967324	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	842760	81967324	109186952	1969	55800											
BMP3	651	broad.mit.edu	37	chr4	81974618	81974618	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcactcagtattttattCtttgatgaaaataagaatgt	13	17	5	6	0	3	3	2	2	1	1	4	3	4	3	1	0	0	1	1	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:81974618C>A	uc003hmg.3	+	3	1667	c.1347C>A	c.(1345-1347)TTC>TTA	p.F449L		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	449					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						GTATTTTATTCTTTGATGAAA	0.418													40	117					3.61848e-18	4.2256e-18	1	1	0		A	81974618	A	A	81974618	3	1	89	1	0	0	0	0	1	0	0	0	1462	912	32	5	1357	5	BMP3	4	81974618	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7294	81974618	109179658	1970	55801											
RASGEF1B	153020	broad.mit.edu	37	chr4	82362046	82362046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgccccacgaagagctgttCgataattatagaaattgctt	12	12	8	9	2	0	2	0	0	0	2	1	4	0	2	2	0	3	3	2	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:82362046C>T	uc003hmi.1	-	10	1190	c.1046G>A	c.(1045-1047)CGA>CAA	p.R349Q	RASGEF1B_uc003hmj.1_Missense_Mutation_p.R348Q|RASGEF1B_uc010ijq.1_Missense_Mutation_p.R307Q	NM_152545	NP_689758	Q0VAM2	RGF1B_HUMAN	RasGEF domain family, member 1B	349	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						AAGAGCTGTTCGATAATTATA	0.343													58	139					0	0	1	0	0		T	82362046	T	T	82362046	3	4	89	1	0	0	0	0	1	0	0	0	13095	884	31	1	395	1	RASGEF1B	4	82362046	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	387428	82362046	108792230	1971	55802											
TMEM150C	441027	broad.mit.edu	37	chr4	83425759	83425759	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatccagctgaagtaaacaAagtaaatacaagaggtagga	20	6	9	6	0	0	2	0	1	0	1	1	3	1	3	1	2	3	4	1	2	10	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:83425759A>C	uc003hmy.1	-	2	130	c.52T>G	c.(52-54)TTG>GTG	p.L18V	TMEM150C_uc011ccj.1_Missense_Mutation_p.L48V	NM_001080506	NP_001073975	B9EJG8	T150C_HUMAN	transmembrane protein 150C	18	Helical; (Potential).					integral to membrane				ovary(1)	1						GAAGTAAACAAAGTAAATACA	0.328													12	19					0	0	1	0	0		C	83425759	C	C	83425759	3	2	89	1	0	0	0	0	1	0	0	0	16094	11	1	5	725	5	TMEM150C	4	83425759	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1063713	83425759	107728517	1972	55803											
SCD5	79966	broad.mit.edu	37	chr4	83602054	83602054	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtggtccctggaccactcGaagatgtcattctgcagaga	9	9	12	11	2	2	2	1	0	1	2	4	5	3	3	2	3	1	1	2	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:83602054G>A	uc003hna.2	-	3	695	c.375C>T	c.(373-375)TTC>TTT	p.F125F	SCD5_uc003hnb.3_Silent_p.F125F	NM_001037582	NP_001032671	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5 isoform a	125					fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity			ovary(1)	1		Colorectal(4;0.0323)|Hepatocellular(203;0.115)				TGGACCACTCGAAGATGTCAT	0.607													41	69					0	0	1	0	0		A	83602054	A	A	83602054	2	1	89	1	0	0	0	0	0	0	0	1	13912	1049	37	1		1	SCD5	4	83602054	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	176295	83602054	107552222	1973	55804											
SEC31A	22872	broad.mit.edu	37	chr4	83770112	83770112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctctacaaagtctgtcacGaagctgcatgatatttggct	10	13	9	9	1	3	1	1	1	2	0	3	2	3	1	0	1	4	4	0	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:83770112G>A	uc003hnf.2	-	20	2511	c.2347C>T	c.(2347-2349)CGT>TGT	p.R783C	SEC31A_uc003hne.2_Missense_Mutation_p.R516C|SEC31A_uc011ccl.1_Missense_Mutation_p.R744C|SEC31A_uc003hnl.2_Missense_Mutation_p.R744C|SEC31A_uc003hng.2_Missense_Mutation_p.R783C|SEC31A_uc003hnh.2_Missense_Mutation_p.R783C|SEC31A_uc003hni.2_Missense_Mutation_p.R783C|SEC31A_uc003hnj.2_Missense_Mutation_p.R744C|SEC31A_uc011ccm.1_Missense_Mutation_p.R778C|SEC31A_uc011ccn.1_Missense_Mutation_p.R783C|SEC31A_uc003hnk.2_Missense_Mutation_p.R744C|SEC31A_uc003hnm.2_Missense_Mutation_p.R783C|SEC31A_uc003hnn.1_Missense_Mutation_p.R783C	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	783					COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				AGTCTGTCACGAAGCTGCATG	0.443													12	109					0	0	1	0	0		A	83770112	A	A	83770112	3	1	89	1	0	0	0	0	1	0	0	0	14023	1058	37	1	1347	1	SEC31A	4	83770112	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	168058	83770112	107384164	1974	55805											
SEC31A	22872	broad.mit.edu	37	chr4	83787987	83787987	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaagcaccaacaggccttcGaatccacttgggcggcttct	10	8	10	13	2	1	1	0	0	1	1	3	2	2	1	3	3	2	2	3	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:83787987G>A	uc003hnf.2	-	10	1335	c.1171C>T	c.(1171-1173)CGA>TGA	p.R391*	SEC31A_uc003hne.2_Nonsense_Mutation_p.R163*|SEC31A_uc011ccl.1_Nonsense_Mutation_p.R391*|SEC31A_uc003hnl.2_Nonsense_Mutation_p.R391*|SEC31A_uc003hng.2_Nonsense_Mutation_p.R391*|SEC31A_uc003hnh.2_Nonsense_Mutation_p.R391*|SEC31A_uc003hni.2_Nonsense_Mutation_p.R391*|SEC31A_uc003hnj.2_Nonsense_Mutation_p.R391*|SEC31A_uc011ccm.1_Nonsense_Mutation_p.R386*|SEC31A_uc011ccn.1_Nonsense_Mutation_p.R391*|SEC31A_uc003hnk.2_Nonsense_Mutation_p.R391*|SEC31A_uc003hnm.2_Nonsense_Mutation_p.R391*|SEC31A_uc003hnn.1_Nonsense_Mutation_p.R391*|SEC31A_uc003hno.2_Nonsense_Mutation_p.R391*	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	391	Interaction with SEC13.				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				ACAGGCCTTCGAATCCACTTG	0.458													57	126					0	0	1	0	0		A	83787987	A	A	83787987	4	1	89	1	0	0	0	0	0	1	0	0	14023	1066	37	1	2563	1	SEC31A	4	83787987	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17875	83787987	107366289	1975	55806											
THAP9	79725	broad.mit.edu	37	chr4	83840004	83840004	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcatctgtacaggattataAatgttcaagttttgctaata	13	16	7	5	0	3	0	2	0	1	0	3	1	3	1	0	1	2	4	0	1	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:83840004A>C	uc003hnt.2	+	5	2758	c.2639A>C	c.(2638-2640)AAA>ACA	p.K880T	THAP9_uc003hns.1_Missense_Mutation_p.K736T|THAP9_uc003hnu.1_RNA|THAP9_uc003hnv.2_Missense_Mutation_p.K597T	NM_024672	NP_078948	Q9H5L6	THAP9_HUMAN	THAP domain containing 9	880							DNA binding|metal ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	5		Hepatocellular(203;0.114)				CAGGATTATAAATGTTCAAGT	0.308													51	66					0	0	1	0	0		C	83840004	C	C	83840004	3	2	89	1	0	0	0	0	1	0	0	0	15876	14	1	5	2657	5	THAP9	4	83840004	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	52017	83840004	107314272	1976	55807											
WDFY3	23001	broad.mit.edu	37	chr4	85696261	85696261	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtgttcaaataaggaaaGatgaagttcatatggtgcat	17	11	10	3	0	2	2	2	1	0	1	2	3	2	3	0	2	1	3	0	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:85696261G>T	uc003hpd.2	-	28	4957	c.4549C>A	c.(4549-4551)CTT>ATT	p.L1517I		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1517						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AATAAGGAAAGATGAAGTTCA	0.333													35	34					9.73076e-26	1.17469e-25	1	1	0		T	85696261	T	T	85696261	3	4	89	1	0	0	0	0	1	0	0	0	17296	942	33	5	6195	5	WDFY3	4	85696261	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1856257	85696261	105458015	1977	55808											
WDFY3	23001	broad.mit.edu	37	chr4	85731148	85731148	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacatcttcctctaaaagtCtttgaaatggctgtgtattt	10	18	6	7	0	3	1	0	1	3	0	4	1	4	1	1	1	1	2	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:85731148C>A	uc003hpd.2	-	14	2645	c.2237G>T	c.(2236-2238)AGA>ATA	p.R746I	WDFY3_uc003hpf.2_Missense_Mutation_p.R746I	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	746						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CTCTAAAAGTCTTTGAAATGG	0.398													52	105					1.00221e-16	1.15522e-16	1	1	0		A	85731148	A	A	85731148	3	1	89	1	0	0	0	0	1	0	0	0	17296	913	32	5	8606	5	WDFY3	4	85731148	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34887	85731148	105423128	1978	55809											
MAPK10	5602	broad.mit.edu	37	chr4	87024399	87024399	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttaataaactaataatcTgaaagagagtggaagggaca	19	9	9	4	0	1	2	0	1	1	1	1	5	1	4	0	2	1	0	0	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:87024399T>G	uc003hpq.2	-	5	434	c.367_splice	c.e5-1	p.I123_splice	MAPK10_uc010ikg.2_Splice_Site_p.I85_splice|MAPK10_uc003hpr.2_Splice_Site_p.I85_splice|MAPK10_uc003hps.2_Splice_Site_p.I123_splice|MAPK10_uc003hpt.2_Splice_Site_p.I123_splice|MAPK10_uc003hpu.2_Splice_Site_p.I123_splice|MAPK10_uc003hpv.2_Intron|MAPK10_uc010ikh.1_Intron|MAPK10_uc003hpo.2_Intron|MAPK10_uc011ccw.1_Splice_Site_p.I9_splice|MAPK10_uc003hpp.2_Intron	NM_138982	NP_620448	P53779	MK10_HUMAN	mitogen-activated protein kinase 10 isoform 2						innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)		ACTAATAATCTgaaagagagt	0.269													18	40					0	0	1	0	0		G	87024399	G	G	87024399	5	3	89	1	0	0	0	0	0	0	1	0	9290	1594	55	5	1070	5	MAPK10	4	87024399	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1293251	87024399	104129877	1979	55810											
PTPN13	5783	broad.mit.edu	37	chr4	87622475	87622475	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttaacaaagggcttagtaAatctatgggatttctgtcca	12	14	8	7	0	3	0	0	0	3	0	4	1	4	1	1	2	1	2	1	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:87622475A>C	uc003hpz.2	+	7	1196	c.716A>C	c.(715-717)AAA>ACA	p.K239T	PTPN13_uc003hpy.2_Missense_Mutation_p.K239T|PTPN13_uc003hqa.2_Missense_Mutation_p.K239T|PTPN13_uc003hqb.2_Missense_Mutation_p.K239T	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	239						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		GGGCTTAGTAAATCTATGGGA	0.353													13	20					0	0	1	0	0		C	87622475	C	C	87622475	3	2	89	1	0	0	0	0	1	0	0	0	12805	14	1	5	738	5	PTPN13	4	87622475	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	598076	87622475	103531801	1980	55811											
PTPN13	5783	broad.mit.edu	37	chr4	87637691	87637691	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taatccttttagaaccagttCgaagatacaaaacttatcat	16	13	4	8	1	1	2	1	0	0	2	3	3	2	2	2	0	3	1	2	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:87637691C>T	uc003hpz.2	+	8	1684	c.1204C>T	c.(1204-1206)CGA>TGA	p.R402*	PTPN13_uc003hpy.2_Nonsense_Mutation_p.R402*|PTPN13_uc003hqa.2_Nonsense_Mutation_p.R402*|PTPN13_uc003hqb.2_Nonsense_Mutation_p.R402*	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	402						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		AGAACCAGTTCGAAGATACAA	0.328													6	5					0	0	1	0	0		T	87637691	T	T	87637691	4	4	89	1	0	0	0	0	0	1	0	0	12805	876	31	1	1230	1	PTPN13	4	87637691	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	15216	87637691	103516585	1981	55812											
SLC10A6	345274	broad.mit.edu	37	chr4	87744921	87744921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggcccaggagtgatggCaccttcttcattcacctcca	7	11	10	13	0	3	1	2	1	1	0	4	2	4	2	4	4	0	1	4	4	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:87744921C>T	uc003hqd.2	-	6	1202	c.1054G>A	c.(1054-1056)GCC>ACC	p.A352T		NM_197965	NP_932069	Q3KNW5	SOAT_HUMAN	sodium-dependent organic anion transporter	352	Cytoplasmic (Potential).					integral to membrane|plasma membrane	bile acid:sodium symporter activity				0		Acute lymphoblastic leukemia(40;0.244)|all_hematologic(202;0.248)		OV - Ovarian serous cystadenocarcinoma(123;0.00099)		GGAGTGATGGCACCTTCTTCA	0.522													20	51					0	0	1	0	0		T	87744921	T	T	87744921	3	4	89	1	0	0	0	0	1	0	0	0	14403	710	25	2	83	2	SLC10A6	4	87744921	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	107230	87744921	103409355	1982	55813											
DSPP	1834	broad.mit.edu	37	chr4	88533280	88533280	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctcaaagcaaaccactggaGagacatgtcgaaaaatccat	17	6	7	11	1	1	1	1	0	0	1	3	4	2	2	3	1	2	1	3	1	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:88533280G>A	uc003hqu.2	+	3	195	c.75G>A	c.(73-75)GAG>GAA	p.E25E		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	25					biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		AACCACTGGAGAGACATGTCG	0.338													15	30					0	0	1	0	0		A	88533280	A	A	88533280	2	1	89	1	0	0	0	0	0	0	0	1	4788	933	33	4		4	DSPP	4	88533280	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	788359	88533280	102620996	1983	55814											
DSPP	1834	broad.mit.edu	37	chr4	88533818	88533818	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaatggaaatactgataaGaatacccaaaatggggatgt	18	9	9	5	0	0	2	0	1	0	1	0	4	0	4	1	3	2	0	1	3	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:88533818G>T	uc003hqu.2	+	4	600	c.480G>T	c.(478-480)AAG>AAT	p.K160N		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	160					biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		ATACTGATAAGAATACCCAAA	0.438													20	34					8.10497e-08	8.54627e-08	1	1	0		T	88533818	T	T	88533818	3	4	89	1	0	0	0	0	1	0	0	0	4788	933	33	5	490	5	DSPP	4	88533818	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	538	88533818	102620458	1984	55815											
IBSP	3381	broad.mit.edu	37	chr4	88732678	88732678	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagaggcagaaaacggcaaCggcagcagcggaggagacaa	17	0	15	9	3	0	3	0	0	0	3	0	5	0	4	0	5	4	4	0	5	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:88732678C>T	uc003hqx.3	+	7	668	c.570C>T	c.(568-570)AAC>AAT	p.N190N		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	190					biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		AAAACGGCAACGGCAGCAGCG	0.443													21	35					0	0	1	0	0		T	88732678	T	T	88732678	2	4	89	1	0	0	0	0	0	0	0	1	7491	535	19	1		1	IBSP	4	88732678	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	198860	88732678	102421598	1985	55816											
MEPE	56955	broad.mit.edu	37	chr4	88767192	88767192	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaggcagtagtgatgcagCtgaaagtaccaactataatg	16	8	11	6	0	0	3	0	2	0	1	0	3	0	3	1	1	4	5	1	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:88767192C>T	uc003hqy.2	+	4	1211	c.1172C>T	c.(1171-1173)GCT>GTT	p.A391V	MEPE_uc010ikn.2_Missense_Mutation_p.A278V	NM_020203	NP_064588	Q9NQ76	MEPE_HUMAN	matrix, extracellular phosphoglycoprotein with	391					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			ovary(1)|lung(1)|skin(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000432)		AGTGATGCAGCTGAAAGTACC	0.413													14	52					0	0	1	0	0		T	88767192	T	T	88767192	3	4	89	1	0	0	0	0	1	0	0	0	9496	797	28	2	1182	2	MEPE	4	88767192	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34514	88767192	102387084	1986	55817											
PPM1K	152926	broad.mit.edu	37	chr4	89198321	89198321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagacaggcgggcatgactcGaaaaggctttatctatttct	11	11	10	9	2	2	2	0	1	2	1	3	3	2	2	0	3	0	2	0	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:89198321G>A	uc003hrm.3	-	3	905	c.515C>T	c.(514-516)TCG>TTG	p.S172L	PPM1K_uc010ikp.1_Missense_Mutation_p.S172L|PPM1K_uc003hrn.2_Missense_Mutation_p.S172L	NM_152542	NP_689755	Q8N3J5	PPM1K_HUMAN	protein phosphatase 1K (PP2C domain containing)	172	PP2C-like.				protein dephosphorylation	mitochondrial matrix|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000192)		GGCATGACTCGAAAAGGCTTT	0.443													32	39					0	0	1	0	0		A	89198321	A	A	89198321	3	1	89	1	0	0	0	0	1	0	0	0	12365	1059	37	1	623	1	PPM1K	4	89198321	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	431129	89198321	101955955	1987	55818											
HERC6	55008	broad.mit.edu	37	chr4	89311819	89311819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtagatagccaagtgttttCgtggggaaagaacagccatg	12	10	13	6	1	0	2	0	0	0	2	1	3	0	3	2	2	3	2	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:89311819C>T	uc011cdi.1	+	4	635	c.452C>T	c.(451-453)TCG>TTG	p.S151L	HERC6_uc003hrp.1_RNA|HERC6_uc011cdj.1_Missense_Mutation_p.S151L|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	151	RCC1 3.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		CAAGTGTTTTCGTGGGGAAAG	0.463													17	16					0	0	1	0	0		T	89311819	T	T	89311819	3	4	89	1	0	0	0	0	1	0	0	0	7078	893	31	1	263	1	HERC6	4	89311819	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	113498	89311819	101842457	1988	55819											
HERC5	51191	broad.mit.edu	37	chr4	89380566	89380566	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagagcacatgctgattCtctcatcagatggaaaacca	14	8	9	10	0	3	3	2	1	1	2	4	5	3	4	1	1	4	3	1	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:89380566C>A	uc003hrt.2	+	2	487	c.334C>A	c.(334-336)CTC>ATC	p.L112I		NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	112	RCC1 1.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		CATGCTGATTCTCTCATCAGA	0.338													38	87					6.45866e-13	7.18389e-13	1	1	0		A	89380566	A	A	89380566	3	1	89	1	0	0	0	0	1	0	0	0	7077	913	32	5	340	5	HERC5	4	89380566	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	68747	89380566	101773710	1989	55820											
HERC5	51191	broad.mit.edu	37	chr4	89390312	89390312	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtttgtttacagaattCatatgttaatctgaagagga	12	16	8	5	0	2	3	1	1	1	2	3	4	3	4	1	1	1	3	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:89390312C>A	uc003hrt.2	+	9	1292	c.1139C>A	c.(1138-1140)TCA>TAA	p.S380*	HERC5_uc011cdm.1_Nonsense_Mutation_p.S18*	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	380					innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		TTACAGAATTCATATGTTAAT	0.373													8	29					2.52707e-12	2.79602e-12	1	1	0		A	89390312	A	A	89390312	4	1	89	1	0	0	0	0	0	1	0	0	7077	838	29	5	1173	5	HERC5	4	89390312	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9746	89390312	101763964	1990	55821											
FAM13A	10144	broad.mit.edu	37	chr4	89658668	89658668	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcgccctcgataattggCtgcagcaaagggcttctccg	7	11	11	12	3	1	0	0	0	1	0	4	1	1	0	2	2	2	5	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:89658668C>G	uc003hse.1	-	21	2809	c.2601G>C	c.(2599-2601)CAG>CAC	p.Q867H	FAM13A_uc011cdp.1_5'UTR|FAM13A_uc003hsa.1_Intron|FAM13A_uc003hsb.1_Missense_Mutation_p.Q541H|FAM13A_uc003hsd.1_Intron|FAM13A_uc003hsc.1_Missense_Mutation_p.Q527H|FAM13A_uc011cdq.1_Missense_Mutation_p.Q513H|FAM13A_uc003hsf.1_Missense_Mutation_p.Q453H|FAM13A_uc003hsg.1_Intron	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	867					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						CGATAATTGGCTGCAGCAAAG	0.532													28	54					0	0	1	0	0		G	89658668	G	G	89658668	3	3	89	1	0	0	0	0	1	0	0	0	5463	796	28	5	486	5	FAM13A	4	89658668	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	268356	89658668	101495608	1991	55822											
FAM13A	10144	broad.mit.edu	37	chr4	89709072	89709072	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagctgatcggatggttCtttctaagagtctggcaaaa	11	12	10	8	1	3	2	0	1	3	1	4	3	3	3	0	3	2	3	0	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:89709072C>A	uc003hse.1	-	10	1311	c.1103G>T	c.(1102-1104)AGA>ATA	p.R368I	FAM13A_uc003hsb.1_Missense_Mutation_p.R42I|FAM13A_uc003hsd.1_Missense_Mutation_p.R42I|FAM13A_uc003hsc.1_Missense_Mutation_p.R28I|FAM13A_uc011cdq.1_Missense_Mutation_p.R14I|FAM13A_uc003hsf.1_Intron|FAM13A_uc003hsg.1_5'UTR|FAM13A_uc003hsh.1_Missense_Mutation_p.R182I|FAM13A_uc010ikr.1_5'UTR	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	368					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						TCGGATGGTTCTTTCTAAGAG	0.393													20	42					1.00905e-13	1.13002e-13	1	1	0		A	89709072	A	A	89709072	3	1	89	1	0	0	0	0	1	0	0	0	5463	913	32	5	2028	5	FAM13A	4	89709072	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	50404	89709072	101445204	1992	55823											
MMRN1	22915	broad.mit.edu	37	chr4	90856259	90856259	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgactcttacatgtgagaaGcctattaaagaactagaagt	16	11	8	6	0	1	4	0	2	1	3	1	5	1	4	1	0	3	0	1	0	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:90856259G>A	uc003hst.2	+	6	1499	c.1428G>A	c.(1426-1428)AAG>AAA	p.K476K	MMRN1_uc010iku.2_Intron|MMRN1_uc011cds.1_Silent_p.K218K	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	476					cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		CATGTGAGAAGCCTATTAAAG	0.378													45	58					0	0	1	0	0		A	90856259	A	A	90856259	2	1	89	1	0	0	0	0	0	0	0	1	9688	962	34	2		2	MMRN1	4	90856259	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1147187	90856259	100298017	1993	55824											
MMRN1	22915	broad.mit.edu	37	chr4	90856603	90856603	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagagtctctcagaggtgAatgtgaagacatgttatcca	14	10	11	6	0	2	5	1	2	1	3	4	6	3	5	1	1	0	1	1	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:90856603A>G	uc003hst.2	+	6	1843	c.1772A>G	c.(1771-1773)GAA>GGA	p.E591G	MMRN1_uc010iku.2_Intron|MMRN1_uc011cds.1_Missense_Mutation_p.E333G	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	591	Potential.				cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		CTCAGAGGTGAATGTGAAGAC	0.348													27	54					0	0	1	0	0		G	90856603	G	G	90856603	3	3	89	1	0	0	0	0	1	0	0	0	9688	246	9	3	1794	3	MMRN1	4	90856603	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	344	90856603	100297673	1994	55825											
MMRN1	22915	broad.mit.edu	37	chr4	90856704	90856704	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaacattggctgaagttCtctttccaatggacaataag	14	12	7	8	0	2	1	1	1	1	0	4	2	3	2	1	2	1	2	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:90856704C>A	uc003hst.2	+	6	1944	c.1873C>A	c.(1873-1875)CTC>ATC	p.L625I	MMRN1_uc010iku.2_Intron|MMRN1_uc011cds.1_Missense_Mutation_p.L367I	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	625	Potential.				cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		GGCTGAAGTTCTCTTTCCAAT	0.353													42	101					3.54909e-21	4.20329e-21	1	1	0		A	90856704	A	A	90856704	3	1	89	1	0	0	0	0	1	0	0	0	9688	913	32	5	1895	5	MMRN1	4	90856704	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	101	90856704	100297572	1995	55826											
FAM190A	401145	broad.mit.edu	37	chr4	91230341	91230341	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtccctcaattctgctgcTgttacaaagacaacaacaga	14	10	6	11	0	2	2	1	0	1	2	3	2	3	2	1	0	5	3	1	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:91230341T>G	uc003hsv.3	+	2	1246	c.906T>G	c.(904-906)GCT>GCG	p.A302A	FAM190A_uc003hsu.3_Silent_p.A302A|FAM190A_uc010ikv.2_RNA|FAM190A_uc003hsw.2_Silent_p.A302A	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1	302										large_intestine(1)|ovary(1)	2						ATTCTGCTGCTGTTACAAAGA	0.423													66	148					0	0	1	0	0		G	91230341	G	G	91230341	2	3	89	1	0	0	0	0	0	0	0	1	5532	1567	55	5		5	FAM190A	4	91230341	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	373637	91230341	99923935	1996	55827											
GRID2	2895	broad.mit.edu	37	chr4	94411866	94411866	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatttgctttgattgttatCtcatcttacacggcaaacct	9	17	5	10	1	2	1	1	1	2	0	3	1	2	1	1	1	3	3	1	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:94411866C>A	uc011cdt.1	+	12	2193	c.1935C>A	c.(1933-1935)ATC>ATA	p.I645I	GRID2_uc011cdu.1_Silent_p.I550I	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	645	Helical; (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	TGATTGTTATCTCATCTTACA	0.443													45	73					3.54909e-21	4.20329e-21	1	1	0		A	94411866	A	A	94411866	2	1	89	1	0	0	0	0	0	0	0	1	6788	903	32	5		5	GRID2	4	94411866	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3181525	94411866	96742410	1997	55828											
SMARCAD1	56916	broad.mit.edu	37	chr4	95191964	95191964	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatggcattttggcagatGaaatggtaagtgtactttat	12	16	10	3	0	0	2	0	1	0	1	0	2	0	2	0	3	1	4	0	3	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:95191964G>T	uc003htc.3	+	11	1822	c.1567G>T	c.(1567-1569)GAA>TAA	p.E523*	SMARCAD1_uc003htb.3_Nonsense_Mutation_p.E523*|SMARCAD1_uc003htd.3_Nonsense_Mutation_p.E523*|SMARCAD1_uc010ila.2_Nonsense_Mutation_p.E386*|SMARCAD1_uc011cdw.1_Nonsense_Mutation_p.E93*	NM_020159	NP_064544	Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated	523	ATP (By similarity).|Helicase ATP-binding.				chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		TTTGGCAGATGAAATGGTAAG	0.348													27	65					2.79863e-10	3.03339e-10	1	1	0		T	95191964	T	T	95191964	4	4	89	1	0	0	0	0	0	1	0	0	14797	1291	45	5	1605	5	SMARCAD1	4	95191964	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	780098	95191964	95962312	1998	55829											
RAP1GDS1	5910	broad.mit.edu	37	chr4	99313106	99313106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttttgtttttacagattCgcttcaagctcagcttatca	8	20	5	8	1	3	1	3	0	0	1	4	1	3	1	0	0	3	4	0	0	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:99313106C>T	uc003htx.3	+	6	702	c.512C>T	c.(511-513)TCG>TTG	p.S171L	RAP1GDS1_uc003htu.2_Missense_Mutation_p.S171L|RAP1GDS1_uc003htw.3_Missense_Mutation_p.S172L|RAP1GDS1_uc003htv.3_Missense_Mutation_p.S172L|RAP1GDS1_uc003htz.3_Missense_Mutation_p.S122L|RAP1GDS1_uc003hty.3_Missense_Mutation_p.S123L|RAP1GDS1_uc003hua.3_Intron	NM_001100427	NP_001093897	P52306	GDS1_HUMAN	RAP1, GTP-GDP dissociation stimulator 1 isoform	171	ARM 2.						binding|GTPase activator activity			ovary(1)|lung(1)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;2.9e-07)|LUSC - Lung squamous cell carcinoma(1;0.0253)|Lung(1;0.0576)		TTTACAGATTCGCTTCAAGCT	0.343			T	NUP98	T-ALL								6	27					0	0	1	0	0		T	99313106	T	T	99313106	3	4	89	1	0	0	0	0	1	0	0	0	13064	893	31	1	537	1	RAP1GDS1	4	99313106	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4121142	99313106	91841170	1999	55830											
TSPAN5	10098	broad.mit.edu	37	chr4	99399882	99399882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggaacgccacatcgctctCgacttgcattggaatctgtg	9	11	10	11	3	2	0	0	0	2	0	4	3	2	2	1	2	2	2	1	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:99399882C>T	uc003hub.2	-	5	880	c.530G>A	c.(529-531)CGA>CAA	p.R177Q	TSPAN5_uc011cdz.1_Missense_Mutation_p.R106Q	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	177	Extracellular (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)		ACATCGCTCTCGACTTGCATT	0.468													32	63					0	0	1	0	0		T	99399882	T	T	99399882	3	4	89	1	0	0	0	0	1	0	0	0	16676	884	31	1	292	1	TSPAN5	4	99399882	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	86776	99399882	91754394	2000	55831											
EIF4E	1977	broad.mit.edu	37	chr4	99808251	99808251	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctctagccaaaagcgatcGaggtcacttcgtctctgctg	8	11	10	12	3	3	0	1	0	2	0	7	2	3	0	1	1	3	1	1	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:99808251G>A	uc003hue.2	-	5	1901	c.378C>T	c.(376-378)CTC>CTT	p.L126L	EIF4E_uc011cea.1_Silent_p.L146L|EIF4E_uc011ceb.1_Silent_p.L126L|EIF4E_uc011cec.1_Silent_p.L126L	NM_001968	NP_001959	P06730	IF4E_HUMAN	eukaryotic translation initiation factor 4E	126					G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|interspecies interaction between organisms|mRNA export from nucleus|nuclear-transcribed mRNA poly(A) tail shortening|positive regulation of mitotic cell cycle|regulation of translation	cytoplasmic mRNA processing body|cytosol|eukaryotic translation initiation factor 4F complex|mRNA cap binding complex|RNA-induced silencing complex	protein binding|RNA cap binding|translation initiation factor activity			lung(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)|LUSC - Lung squamous cell carcinoma(721;0.00227)		AAAAGCGATCGAGGTCACTTC	0.383													84	144					0	0	1	0	0		A	99808251	A	A	99808251	2	1	89	1	0	0	0	0	0	0	0	1	5036	1045	37	1		1	EIF4E	4	99808251	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	408369	99808251	91346025	2001	55832											
ADH5	128	broad.mit.edu	37	chr4	99993587	99993587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attaaatctttacaacagttCgaatgctgtaaaaggaagca	17	11	7	6	1	1	0	0	0	1	0	2	2	1	1	0	1	4	4	0	1	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:99993587C>T	uc003hui.2	-	9	1186	c.1106G>A	c.(1105-1107)CGA>CAA	p.R369Q	ADH5_uc003huj.2_3'UTR	NM_000671	NP_000662	P11766	ADHX_HUMAN	class III alcohol dehydrogenase, chi subunit	369					ethanol oxidation|response to redox state		alcohol dehydrogenase (NAD) activity|electron carrier activity|fatty acid binding|formaldehyde dehydrogenase activity|S-(hydroxymethyl)glutathione dehydrogenase activity|zinc ion binding	p.R369*(1)		ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;2.5e-07)	NADH(DB00157)	TACAACAGTTCGAATGCTGTA	0.383													10	23					0	0	1	0	0		T	99993587	T	T	99993587	3	4	89	1	0	0	0	0	1	0	0	0	311	884	31	1	22	1	ADH5	4	99993587	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	185336	99993587	91160689	2002	55833											
ADH6	130	broad.mit.edu	37	chr4	100126121	100126121	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcaactgcttcattgattTtatcaagattcagagtatga	13	16	6	6	0	4	4	4	2	0	2	4	4	4	4	0	0	2	2	0	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:100126121T>G	uc003hup.3	-	8	1158	c.1064A>C	c.(1063-1065)AAA>ACA	p.K355T	uc003hum.1_Intron|ADH6_uc003huo.2_Missense_Mutation_p.K355T|ADH6_uc011cef.1_Missense_Mutation_p.K146T|ADH6_uc010ile.2_3'UTR	NM_000672	NP_000663	P28332	ADH6_HUMAN	class V alcohol dehydrogenase isoform 2	355					ethanol oxidation|response to ethanol|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|electron carrier activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(123;3.58e-08)	Abacavir(DB01048)|NADH(DB00157)	TTCATTGATTTTATCAAGATT	0.378													21	61					0	0	1	0	0		G	100126121	G	G	100126121	3	3	89	1	0	0	0	0	1	0	0	0	312	1841	64	5	75	5	ADH6	4	100126121	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	132534	100126121	91028155	2003	55834											
ADH6	130	broad.mit.edu	37	chr4	100131414	100131414	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgattttcccttgcaggtaAacctgctggtaccatcagac	9	13	8	11	0	1	2	1	1	0	1	2	2	2	2	3	2	4	4	3	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:100131414A>C	uc003hup.3	-	5	486	c.392T>G	c.(391-393)TTT>TGT	p.F131C	uc003hum.1_Intron|ADH6_uc003huo.2_Missense_Mutation_p.F131C|ADH6_uc011cef.1_Intron|ADH6_uc010ile.2_Missense_Mutation_p.F131C	NM_000672	NP_000663	P28332	ADH6_HUMAN	class V alcohol dehydrogenase isoform 2	131					ethanol oxidation|response to ethanol|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|electron carrier activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(123;3.58e-08)	Abacavir(DB01048)|NADH(DB00157)	CTTGCAGGTAAACCTGCTGGT	0.353													18	50					0	0	1	0	0		C	100131414	C	C	100131414	3	2	89	1	0	0	0	0	1	0	0	0	312	14	1	5	759	5	ADH6	4	100131414	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	5293	100131414	91022862	2004	55835											
ADH1A	124	broad.mit.edu	37	chr4	100201343	100201343	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtacgtccagtcagtagcaGcatagggttcattgagaggt	10	10	14	7	1	2	1	2	1	0	1	3	2	3	1	1	3	3	5	1	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:100201343G>A	uc003hur.1	-	7	993	c.922C>T	c.(922-924)CTG>TTG	p.L308L	uc003hum.1_Intron|ADH1A_uc011ceg.1_Silent_p.L308L	NM_000667	NP_000658	P07327	ADH1A_HUMAN	class I alcohol dehydrogenase, alpha subunit	308					ethanol oxidation|transcription, DNA-dependent|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|protein binding|zinc ion binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(123;9.56e-08)	Fomepizole(DB01213)|NADH(DB00157)	GTCAGTAGCAGCATAGGGTTC	0.468													92	190					0	0	1	0	0		A	100201343	A	A	100201343	2	1	89	1	0	0	0	0	0	0	0	1	307	962	34	2		2	ADH1A	4	100201343	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	69929	100201343	90952933	2005	55836											
MTTP	4547	broad.mit.edu	37	chr4	100521856	100521856	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgcctgtggatttgcttCtcatcccaatgaagaactcc	9	13	7	12	0	1	2	1	1	1	1	4	3	3	3	3	1	3	1	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:100521856C>A	uc003hvc.3	+	10	1458	c.1202C>A	c.(1201-1203)TCT>TAT	p.S401Y	MTTP_uc011cej.1_Missense_Mutation_p.S428Y	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	401	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	GGATTTGCTTCTCATCCCAAT	0.378													24	58					7.87624e-14	8.83987e-14	1	1	0		A	100521856	A	A	100521856	3	1	89	1	0	0	0	0	1	0	0	0	9982	913	32	5	1236	5	MTTP	4	100521856	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	320513	100521856	90632420	2006	55837											
EMCN	51705	broad.mit.edu	37	chr4	101342465	101342465	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgccttccagcacattcggTacaaacccaccagaacaaat	14	7	5	15	1	0	1	0	0	0	1	2	1	1	1	4	1	5	2	4	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:101342465T>A	uc003hvr.2	-	8	817	c.638A>T	c.(637-639)TAC>TTC	p.Y213F	EMCN_uc011cel.1_Missense_Mutation_p.Y200F|EMCN_uc011cem.1_Intron	NM_016242	NP_057326	Q9ULC0	MUCEN_HUMAN	endomucin isoform 1	213	Cytoplasmic (Potential).					extracellular region|integral to membrane|plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(123;2.49e-08)		GCACATTCGGTACAAACCCAC	0.348													34	59					0	0	1	0	0		A	101342465	A	A	101342465	3	1	89	1	0	0	0	0	1	0	0	0	5094	1638	57	5	163	5	EMCN	4	101342465	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	820609	101342465	89811811	2007	55838											
SLC39A8	64116	broad.mit.edu	37	chr4	103226180	103226180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaataacatctttagcattCtttcaaaaaagaaaagtagg	18	13	5	5	0	3	1	1	0	2	1	3	1	3	1	0	1	2	2	0	1	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:103226180C>T	uc003hwb.1	-	4	1170	c.641G>A	c.(640-642)AGA>AAA	p.R214K	SLC39A8_uc011ceo.1_Missense_Mutation_p.R214K|SLC39A8_uc003hwa.1_Missense_Mutation_p.R147K|SLC39A8_uc003hwc.2_Missense_Mutation_p.R214K	NM_022154	NP_071437	Q9C0K1	S39A8_HUMAN	solute carrier family 39 (zinc transporter),	214	Extracellular (Potential).					integral to membrane|organelle membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(203;0.217)		all cancers(1;9.78e-10)|OV - Ovarian serous cystadenocarcinoma(123;1.52e-09)|GBM - Glioblastoma multiforme(1;0.000142)		CTTTAGCATTCTTTCAAAAAA	0.333													22	35					0	0	1	0	0		T	103226180	T	T	103226180	3	4	89	1	0	0	0	0	1	0	0	0	14649	913	32	4	838	4	SLC39A8	4	103226180	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1883715	103226180	87928096	2008	55839											
UBE2D3	7323	broad.mit.edu	37	chr4	103747704	103747704	+	Translation_Start_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctcctcactctctcggtgTatgctcaaaggtccggccaa	7	10	10	14	2	3	0	2	0	1	0	7	0	5	0	3	4	1	3	3	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:103747704T>C	uc003hwk.2	-	2	423	c.-38A>G	c.(-40--36)ATACA>ATGCA		UBE2D3_uc003hwi.2_Translation_Start_Site|UBE2D3_uc003hwj.2_RNA|UBE2D3_uc003hwl.2_Translation_Start_Site|UBE2D3_uc011cet.1_Translation_Start_Site|UBE2D3_uc011ceu.1_Translation_Start_Site|UBE2D3_uc003hwo.2_Translation_Start_Site|UBE2D3_uc003hwp.2_Translation_Start_Site|UBE2D3_uc003hwq.2_Intron|UBE2D3_uc003hwr.2_Translation_Start_Site|uc003hws.1_5'Flank	NM_181887	NP_871616	P61077	UB2D3_HUMAN	ubiquitin-conjugating enzyme E2D 3 isoform 1						apoptosis|BMP signaling pathway|DNA repair|negative regulation of type I interferon production|proteasomal ubiquitin-dependent protein catabolic process|protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein monoubiquitination|transforming growth factor beta receptor signaling pathway	endosome membrane|plasma membrane	ATP binding|protein binding|ubiquitin-protein ligase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.13e-08)		TCTCTCGGTGTATGCTCAAAG	0.557													57	96					0	0	1	0	0		C	103747704	C	C	103747704	1	2	89	1	0	0	0	0	0	0	0	0	16876	1653	57	3		3	UBE2D3	4	103747704	Translation_Start_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	521524	103747704	87406572	2009	55840											
NHEDC2	133308	broad.mit.edu	37	chr4	103966064	103966064	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacctggtcacggcttggaaAgtactgaatgaaaaatccaa	15	8	9	9	1	1	2	1	2	0	0	2	3	2	3	2	3	1	2	2	3	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:103966064A>C	uc003hwx.3	-	8	1851	c.979T>G	c.(979-981)TTT>GTT	p.F327V	NHEDC2_uc010iln.1_Missense_Mutation_p.F179V|NHEDC2_uc003hwy.2_Missense_Mutation_p.F327V|NHEDC2_uc011cew.1_Missense_Mutation_p.F270V|NHEDC2_uc011cex.1_Missense_Mutation_p.F270V	NM_178833	NP_849155	Q86UD5	NHDC2_HUMAN	Na+/H+ exchanger domain containing 2	327	Helical; (Potential).				sodium ion transport	integral to membrane|mitochondrial membrane	solute:hydrogen antiporter activity				0				OV - Ovarian serous cystadenocarcinoma(123;2.3e-08)		CGGCTTGGAAAGTACTGAATG	0.393													45	134					0	0	1	0	0		C	103966064	C	C	103966064	3	2	89	1	0	0	0	0	1	0	0	0	10420	72	3	5	654	5	NHEDC2	4	103966064	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	218360	103966064	87188212	2010	55841											
BDH2	56898	broad.mit.edu	37	chr4	104003289	104003289	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctatttcttctgcagttgcGaatcttcccgtcttttgtct	4	19	7	11	2	5	0	0	0	5	0	6	1	6	0	1	0	2	3	1	0	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:104003289G>A	uc003hwz.2	-	9	738	c.633C>T	c.(631-633)TTC>TTT	p.F211F	BDH2_uc003hxa.2_RNA	NM_020139	NP_064524	Q9BUT1	BDH2_HUMAN	3-hydroxybutyrate dehydrogenase, type 2	211					fatty acid beta-oxidation|heme metabolic process|iron ion homeostasis|siderophore biosynthetic process	cytoplasm	3-hydroxybutyrate dehydrogenase activity|NAD binding|oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.02e-08)		CTGCAGTTGCGAATCTTCCCG	0.463													17	44					0	0	1	0	0		A	104003289	A	A	104003289	2	1	89	1	0	0	0	0	0	0	0	1	1392	1049	37	1		1	BDH2	4	104003289	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	37225	104003289	87150987	2011	55842											
CENPE	1062	broad.mit.edu	37	chr4	104080192	104080192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcaaagcacccaaactcGaatcaaatttttgggcttct	12	13	5	11	1	4	0	2	0	2	0	5	1	4	0	1	1	2	2	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:104080192G>A	uc003hxb.1	-	22	2666	c.2576C>T	c.(2575-2577)TCG>TTG	p.S859L	CENPE_uc003hxc.1_Missense_Mutation_p.S834L	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	859	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		ACCCAAACTCGAATCAAATTT	0.383													21	55					0	0	1	0	0		A	104080192	A	A	104080192	3	1	89	1	0	0	0	0	1	0	0	0	3233	1059	37	1	5641	1	CENPE	4	104080192	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	76903	104080192	87074084	2012	55843											
CENPE	1062	broad.mit.edu	37	chr4	104081903	104081903	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttctttctgaagatcagtaAtctttccttccaattccaaa	11	16	4	10	0	4	2	1	1	3	1	7	2	7	2	3	0	0	2	3	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:104081903A>C	uc003hxb.1	-	21	2255	c.2165T>G	c.(2164-2166)ATT>AGT	p.I722S	CENPE_uc003hxc.1_Missense_Mutation_p.I697S	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	722	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		AAGATCAGTAATCTTTCCTTC	0.299													40	81					0	0	1	0	0		C	104081903	C	C	104081903	3	2	89	1	0	0	0	0	1	0	0	0	3233	101	4	5	6056	5	CENPE	4	104081903	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1711	104081903	87072373	2013	55844											
CENPE	1062	broad.mit.edu	37	chr4	104098057	104098057	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttgaaaaaagcactcacaTtcatcaatttctcgtaataa	17	12	3	9	1	4	1	3	1	1	0	5	1	4	1	0	0	1	2	0	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:104098057T>C	uc003hxb.1	-	14	1479	c.1389A>G	c.(1387-1389)GAA>GAG	p.E463E	CENPE_uc003hxc.1_Silent_p.E463E	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	463	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		AGCACTCACATTCATCAATTT	0.254													14	13					0	0	1	0	0		C	104098057	C	C	104098057	2	2	89	1	0	0	0	0	0	0	0	1	3233	1507	52	3		3	CENPE	4	104098057	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	16154	104098057	87056219	2014	55845											
CENPE	1062	broad.mit.edu	37	chr4	104116366	104116366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatttccatgtaagatacacGtaagagaaattccctatcag	15	12	6	8	1	1	2	1	0	0	2	3	3	3	2	2	0	1	2	2	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:104116366G>A	uc003hxb.1	-	5	472	c.382C>T	c.(382-384)CGT>TGT	p.R128C	CENPE_uc003hxc.1_Missense_Mutation_p.R128C	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	128	Kinesin-motor.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TAAGATACACGTAAGAGAAAT	0.323													19	47					0	0	1	0	0		A	104116366	A	A	104116366	3	1	89	1	0	0	0	0	1	0	0	0	3233	1145	40	1	7903	1	CENPE	4	104116366	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	18309	104116366	87037910	2015	55846											
CENPE	1062	broad.mit.edu	37	chr4	104117407	104117407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcattaccatgaaagacacGatctaaacaacaacaacaac	20	7	3	11	1	2	2	1	1	1	1	2	3	2	2	1	0	6	0	1	0	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:104117407G>A	uc003hxb.1	-	3	241	c.151C>T	c.(151-153)CGT>TGT	p.R51C	CENPE_uc003hxc.1_Missense_Mutation_p.R51C	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	51	Kinesin-motor.			R -> H (in Ref. 5; BAF83051).	blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TGAAAGACACGATCTAaacaa	0.299													15	35					0	0	1	0	0		A	104117407	A	A	104117407	3	1	89	1	0	0	0	0	1	0	0	0	3233	1058	37	1	8142	1	CENPE	4	104117407	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1041	104117407	87036869	2016	55847											
TET2	54790	broad.mit.edu	37	chr4	106156276	106156276	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcactaaggattcctttTctgccactaccacaccacca	10	12	4	15	0	2	0	1	0	1	0	3	1	3	1	5	1	2	1	5	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:106156276T>G	uc003hxk.2	+	3	1563	c.1177T>G	c.(1177-1179)TCT>GCT	p.S393A	TET2_uc011cez.1_Missense_Mutation_p.S414A|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Missense_Mutation_p.S393A|TET2_uc003hxi.1_Missense_Mutation_p.S393A	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	393					cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen	p.(S393_A394)fs*(49_50)(1)		haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		GGATTCCTTTTCTGCCACTAC	0.458			Mis N|F		MDS								41	102					0	0	1	0	0		G	106156276	G	G	106156276	3	3	89	1	0	0	0	0	1	0	0	0	15795	1783	62	5	1179	5	TET2	4	106156276	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2038869	106156276	84998000	2017	55848											
TET2	54790	broad.mit.edu	37	chr4	106156313	106156313	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaccaccatcacaattgcTtctttctccccctcctcctc	7	12	1	21	0	3	0	1	0	2	0	7	0	5	0	7	0	1	1	7	0	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:106156313T>G	uc003hxk.2	+	3	1600	c.1214T>G	c.(1213-1215)CTT>CGT	p.L405R	TET2_uc011cez.1_Missense_Mutation_p.L426R|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Missense_Mutation_p.L405R|TET2_uc003hxi.1_Missense_Mutation_p.L405R	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	405	Pro-rich.				cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		TCACAATTGCTTCTTTCTCCC	0.458			Mis N|F		MDS								39	109					0	0	1	0	0		G	106156313	G	G	106156313	3	3	89	1	0	0	0	0	1	0	0	0	15795	1609	56	5	1216	5	TET2	4	106156313	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	37	106156313	84997963	2018	55849											
TET2	54790	broad.mit.edu	37	chr4	106156805	106156805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggatggattgaattgaaggCccctcgttttcaccaagcgg	10	10	12	9	2	1	2	1	2	0	0	2	4	1	4	3	4	1	1	3	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:106156805C>T	uc003hxk.2	+	3	2092	c.1706C>T	c.(1705-1707)GCC>GTC	p.A569V	TET2_uc011cez.1_Missense_Mutation_p.A590V|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Missense_Mutation_p.A569V|TET2_uc003hxi.1_Missense_Mutation_p.A569V	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	569					cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		GAATTGAAGGCCCCTCGTTTT	0.463			Mis N|F		MDS								22	89					0	0	1	0	0		T	106156805	T	T	106156805	3	4	89	1	0	0	0	0	1	0	0	0	15795	739	26	2	1708	2	TET2	4	106156805	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	492	106156805	84997471	2019	55850											
PPA2	27068	broad.mit.edu	37	chr4	106377901	106377901	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtagtgaccagttacattCtctgcaaagacacaaacaaa	17	9	6	9	0	1	2	0	1	1	1	2	2	1	2	1	0	3	3	1	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:106377901C>A	uc003hxl.2	-	2	179	c.159G>T	c.(157-159)AAG>AAT	p.K53N	PPA2_uc003hxm.2_Missense_Mutation_p.K53N|PPA2_uc003hxn.2_Missense_Mutation_p.K53N|PPA2_uc003hxo.2_Missense_Mutation_p.K53N|PPA2_uc003hxp.2_Intron|PPA2_uc003hxq.2_5'UTR|PPA2_uc003hxr.2_Intron|PPA2_uc011cfa.1_Intron	NM_176869	NP_789845	Q9H2U2	IPYR2_HUMAN	inorganic pyrophosphatase 2 isoform 1 precursor	53					diphosphate metabolic process|tRNA aminoacylation for protein translation	mitochondrial matrix	inorganic diphosphatase activity|magnesium ion binding			pancreas(1)	1		Myeloproliferative disorder(5;0.0255)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.03e-07)		CAGTTACATTCTCTGCAAAGA	0.333													26	78					3.00307e-07	3.14794e-07	1	1	0		A	106377901	A	A	106377901	3	1	89	1	0	0	0	0	1	0	0	0	12306	927	32	5	889	5	PPA2	4	106377901	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	221096	106377901	84776375	2020	55851											
SGMS2	166929	broad.mit.edu	37	chr4	108824539	108824539	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacttatttgttcatcaaaGaatgtaagtaatagcccatt	14	15	6	6	0	2	2	2	1	0	1	2	2	2	2	1	0	1	3	1	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:108824539G>T	uc003hyl.3	+	5	1279	c.724G>T	c.(724-726)GAA>TAA	p.E242*	uc003hym.1_Intron|SGMS2_uc003hyn.2_Nonsense_Mutation_p.E242*|SGMS2_uc003hyo.2_Nonsense_Mutation_p.E242*	NM_001136258	NP_001129730	Q8NHU3	SMS2_HUMAN	sphingomyelin synthase 2	242					sphingomyelin biosynthetic process	integral to Golgi membrane|integral to plasma membrane	ceramide cholinephosphotransferase activity|kinase activity|sphingomyelin synthase activity			lung(1)	1				OV - Ovarian serous cystadenocarcinoma(123;2.95e-05)	Choline(DB00122)	GTTCATCAAAGAATGTAAGTA	0.453													27	49					6.32553e-13	7.03772e-13	1	1	0		T	108824539	T	T	108824539	4	4	89	1	0	0	0	0	0	1	0	0	14240	943	33	5	734	5	SGMS2	4	108824539	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2446638	108824539	82329737	2021	55852											
CYP2U1	113612	broad.mit.edu	37	chr4	108866502	108866502	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatttaaggaattaagacaAattgaaaaggatataaccag	20	9	7	5	0	0	2	0	1	0	1	0	4	0	4	2	2	1	0	2	2	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:108866502A>C	uc003hyp.2	+	2	950	c.867A>C	c.(865-867)CAA>CAC	p.Q289H	CYP2U1_uc011cfi.1_Missense_Mutation_p.Q80H	NM_183075	NP_898898	Q7Z449	CP2U1_HUMAN	cytochrome P450, family 2, subfamily U,	289					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000128)		AATTAAGACAAATTGAAAAGG	0.403													38	52					0	0	1	0	0		C	108866502	C	C	108866502	3	2	89	1	0	0	0	0	1	0	0	0	4178	11	1	5	873	5	CYP2U1	4	108866502	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	41963	108866502	82287774	2022	55853											
CYP2U1	113612	broad.mit.edu	37	chr4	108866523	108866523	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgaaaaggatataaccagTttccttaaaaaaatcatcaa	20	11	4	6	0	2	1	2	1	0	0	3	2	3	2	2	1	1	1	2	1	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:108866523T>C	uc003hyp.2	+	2	971	c.888T>C	c.(886-888)AGT>AGC	p.S296S	CYP2U1_uc011cfi.1_Silent_p.S87S	NM_183075	NP_898898	Q7Z449	CP2U1_HUMAN	cytochrome P450, family 2, subfamily U,	296					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000128)		ATATAACCAGTTTCCTTAAAA	0.403													31	41					0	0	1	0	0		C	108866523	C	C	108866523	2	2	89	1	0	0	0	0	0	0	0	1	4178	1722	60	3		3	CYP2U1	4	108866523	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	21	108866523	82287753	2023	55854											
CYP2U1	113612	broad.mit.edu	37	chr4	108870649	108870649	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacaactaattaaaaaaGaaacctttattccttttggg	17	12	6	6	0	0	1	0	0	0	1	1	2	1	2	2	2	2	0	2	2	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:108870649G>T	uc003hyp.2	+	4	1515	c.1432G>T	c.(1432-1434)GAA>TAA	p.E478*	CYP2U1_uc011cfi.1_Nonsense_Mutation_p.E269*	NM_183075	NP_898898	Q7Z449	CP2U1_HUMAN	cytochrome P450, family 2, subfamily U,	478					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000128)		AATTAAAAAAGAAACCTTTAT	0.333													13	31					7.03913e-09	7.52015e-09	1	1	0		T	108870649	T	T	108870649	4	4	89	1	0	0	0	0	0	1	0	0	4178	943	33	5	1446	5	CYP2U1	4	108870649	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4126	108870649	82283627	2024	55855											
AGXT2L1	64850	broad.mit.edu	37	chr4	109663646	109663646	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgcaaatcagtcatgtCttgagcctcttactgagcag	13	11	8	9	0	4	2	2	2	2	0	4	2	4	2	1	0	4	2	1	0	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:109663646C>A	uc003hzc.2	-	13	1675	c.1494G>T	c.(1492-1494)AAG>AAT	p.K498N	AGXT2L1_uc010imc.2_Missense_Mutation_p.K492N|AGXT2L1_uc011cfm.1_Missense_Mutation_p.K458N|AGXT2L1_uc011cfn.1_Missense_Mutation_p.K425N|AGXT2L1_uc011cfo.1_Missense_Mutation_p.K440N	NM_031279	NP_112569	Q8TBG4	AT2L1_HUMAN	alanine-glyoxylate aminotransferase 2-like 1	498					cellular amino acid metabolic process	mitochondrion	alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000281)		TCAGTCATGTCTTGAGCCTCT	0.418													41	96					1.23103e-26	1.49092e-26	1	1	0		A	109663646	A	A	109663646	3	1	89	1	0	0	0	0	1	0	0	0	406	912	32	5	9	5	AGXT2L1	4	109663646	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	792997	109663646	81490630	2025	55856											
COL25A1	84570	broad.mit.edu	37	chr4	109895713	109895713	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgccttttggaccaggaggGccctgaaaaaaagaaagaga	15	6	12	8	1	0	3	0	1	0	2	1	6	0	5	3	3	0	0	3	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:109895713G>A	uc003hze.1	-	6	972	c.441C>T	c.(439-441)GGC>GGT	p.G147G	COL25A1_uc003hzg.2_Silent_p.G147G|COL25A1_uc003hzd.2_RNA|COL25A1_uc003hzf.2_5'UTR	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	147	Extracellular (Potential).|Collagen-like 1.					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		GACCAGGAGGGCCCTGAAAAA	0.323													28	70					0	0	1	0	0		A	109895713	A	A	109895713	2	1	89	1	0	0	0	0	0	0	0	1	3687	1190	42	2		2	COL25A1	4	109895713	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	232067	109895713	81258563	2026	55857											
SEC24B	10427	broad.mit.edu	37	chr4	110434991	110434991	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaattcaactgtggagttCattgcttcttcagattacat	11	15	7	8	0	4	2	3	0	1	2	4	3	4	3	0	1	3	2	0	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:110434991C>A	uc003hzk.2	+	10	2047	c.1992C>A	c.(1990-1992)TTC>TTA	p.F664L	SEC24B_uc003hzl.2_Missense_Mutation_p.F629L|SEC24B_uc011cfp.1_Missense_Mutation_p.F694L|SEC24B_uc011cfq.1_Missense_Mutation_p.F663L|SEC24B_uc011cfr.1_Missense_Mutation_p.F628L	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	664					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		CTGTGGAGTTCATTGCTTCTT	0.353													56	85					2.48909e-17	2.8784e-17	1	1	0		A	110434991	A	A	110434991	3	1	89	1	0	0	0	0	1	0	0	0	14020	825	29	5	2030	5	SEC24B	4	110434991	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	539278	110434991	80719285	2027	55858											
SEC24B	10427	broad.mit.edu	37	chr4	110446055	110446055	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacagcaaactgcagtggatTtgttccttttaagttcacag	11	13	9	8	0	1	0	1	0	0	0	2	2	2	1	1	1	3	4	1	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:110446055T>G	uc003hzk.2	+	15	2645	c.2590T>G	c.(2590-2592)TTG>GTG	p.L864V	SEC24B_uc003hzl.2_Missense_Mutation_p.L829V|SEC24B_uc011cfp.1_Missense_Mutation_p.L894V|SEC24B_uc011cfq.1_Missense_Mutation_p.L863V|SEC24B_uc011cfr.1_Missense_Mutation_p.L828V	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	864					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		TGCAGTGGATTTGTTCCTTTT	0.353													22	52					0	0	1	0	0		G	110446055	G	G	110446055	3	3	89	1	0	0	0	0	1	0	0	0	14020	1838	64	5	2648	5	SEC24B	4	110446055	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	11064	110446055	80708221	2028	55859											
SEC24B	10427	broad.mit.edu	37	chr4	110451453	110451453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttgctttttagctgtggatCggtccgtttcatcaagtctg	5	17	11	8	2	3	0	2	0	1	0	5	1	4	1	1	2	2	4	1	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:110451453C>T	uc003hzk.2	+	19	3140	c.3085C>T	c.(3085-3087)CGG>TGG	p.R1029W	SEC24B_uc003hzl.2_Missense_Mutation_p.R994W|SEC24B_uc011cfp.1_Missense_Mutation_p.R1059W|SEC24B_uc011cfq.1_Missense_Mutation_p.R1028W|SEC24B_uc011cfr.1_Missense_Mutation_p.R993W	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	1029					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		AGCTGTGGATCGGTCCGTTTC	0.378													19	58					0	0	1	0	0		T	110451453	T	T	110451453	3	4	89	1	0	0	0	0	1	0	0	0	14020	875	31	1	3159	1	SEC24B	4	110451453	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5398	110451453	80702823	2029	55860											
CCDC109B	55013	broad.mit.edu	37	chr4	110605624	110605624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctggaatagaagctcattCggaagccaaaaccagtggac	15	6	11	9	1	1	1	1	0	0	1	2	4	1	4	2	3	4	2	2	3	6	2	rs149233225		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:110605624C>T	uc011cfs.1	+	6	777	c.638C>T	c.(637-639)TCG>TTG	p.S213L		NM_017918	NP_060388	Q9NWR8	C109B_HUMAN	coiled-coil domain containing 109B	213						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;6.65e-06)		GAAGCTCATTCGGAAGCCAAA	0.493													23	45					0	0	1	0	0		T	110605624	T	T	110605624	3	4	89	1	0	0	0	0	1	0	0	0	2748	893	31	1	660	1	CCDC109B	4	110605624	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	154171	110605624	80548652	2030	55861											
CFI	3426	broad.mit.edu	37	chr4	110687839	110687839	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtgccattctttgggcActgatacggtagtttacaaa	10	13	10	8	1	1	1	0	1	1	0	1	1	1	1	1	2	4	4	1	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:110687839A>G	uc003hzr.3	-	2	407	c.199T>C	c.(199-201)TGC>CGC	p.C67R	CFI_uc011cft.1_Missense_Mutation_p.C67R|CFI_uc003hzs.3_Missense_Mutation_p.C67R	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	67	Kazal-like.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		TTCTTTGGGCACTGATACGGT	0.448													21	49					0	0	1	0	0		G	110687839	G	G	110687839	3	3	89	1	0	0	0	0	1	0	0	0	3292	159	6	3	1600	3	CFI	4	110687839	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	82215	110687839	80466437	2031	55862											
EGF	1950	broad.mit.edu	37	chr4	110862234	110862234	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcattataatgagaaaaGaatctattgggtggatttag	14	16	9	2	0	2	2	1	1	1	2	2	4	2	3	0	2	0	0	0	2	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:110862234G>T	uc003hzy.3	+	2	712	c.260G>T	c.(259-261)AGA>ATA	p.R87I	EGF_uc011cfu.1_Missense_Mutation_p.R87I|EGF_uc011cfv.1_Missense_Mutation_p.R87I	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	87	LDL-receptor class B 1.|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	AATGAGAAAAGAATCTATTGG	0.373													27	67					6.32553e-13	7.03772e-13	1	1	0		T	110862234	T	T	110862234	3	4	89	1	0	0	0	0	1	0	0	0	4968	942	33	5	266	5	EGF	4	110862234	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	174395	110862234	80292042	2032	55863											
EGF	1950	broad.mit.edu	37	chr4	110901199	110901199	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctatgccatcagtaatgAgagtaaacaagaggactggc	14	7	13	7	0	1	2	1	1	0	2	1	4	1	3	1	3	2	3	1	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:110901199A>C	uc003hzy.3	+	14	2577	c.2125A>C	c.(2125-2127)AGA>CGA	p.R709R	EGF_uc011cfu.1_Silent_p.R667R|EGF_uc011cfv.1_Silent_p.R709R|EGF_uc010imk.2_5'Flank	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	709	Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	ATCAGTAATGAGAGTAAACAA	0.443													30	67					0	0	1	0	0		C	110901199	C	C	110901199	2	2	89	1	0	0	0	0	0	0	0	1	4968	296	11	5		5	EGF	4	110901199	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	38965	110901199	80253077	2033	55864											
PITX2	5308	broad.mit.edu	37	chr4	111542364	111542364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtccacacagcgatttcttCgcgtgtggacatgtccgggt	6	11	13	11	4	1	0	0	0	1	0	4	2	3	1	2	3	1	0	2	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:111542364C>T	uc003iad.2	-	4	928	c.346G>A	c.(346-348)GAA>AAA	p.E116K	PITX2_uc003iac.2_Missense_Mutation_p.E123K|PITX2_uc003iae.2_Missense_Mutation_p.E70K|PITX2_uc010iml.2_Intron|PITX2_uc003iaf.2_Missense_Mutation_p.E116K|PITX2_uc003iag.1_Missense_Mutation_p.E123K	NM_153426	NP_700475	Q99697	PITX2_HUMAN	paired-like homeodomain transcription factor 2	116	Homeobox.				determination of left/right symmetry|organ morphogenesis	transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription factor binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00222)		GCGATTTCTTCGCGTGTGGAC	0.617													24	28					0	0	1	0	0		T	111542364	T	T	111542364	3	4	89	1	0	0	0	0	1	0	0	0	11974	893	31	1	615	1	PITX2	4	111542364	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	641165	111542364	79611912	2034	55865											
C4orf21	55345	broad.mit.edu	37	chr4	113508552	113508552	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactttctttctggaaaccgAatcttgactgctaaaatcct	11	15	5	10	1	3	1	0	1	3	0	4	3	4	2	2	1	3	1	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:113508552A>G	uc003iau.2	-	12	3872	c.3661T>C	c.(3661-3663)TCG>CCG	p.S1221P	C4orf21_uc003iav.2_RNA	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	43						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		CTGGAAACCGAATCTTGACTG	0.388													80	172					0	0	1	0	0		G	113508552	G	G	113508552	3	3	89	1	0	0	0	0	1	0	0	0	2257	246	9	3	2721	3	C4orf21	4	113508552	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1966188	113508552	77645724	2035	55866											
C4orf21	55345	broad.mit.edu	37	chr4	113508887	113508887	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggctcaatgctaaacgaaAgaactgctgacttttcacac	14	9	7	11	1	2	2	2	1	0	1	2	3	2	2	0	1	4	3	0	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:113508887A>C	uc003iau.2	-	12	3537	c.3326T>G	c.(3325-3327)CTT>CGT	p.L1109R	C4orf21_uc003iav.2_RNA	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		GCTAAACGAAAGAACTGCTGA	0.413													3	8					0	0	1	0	0		C	113508887	C	C	113508887	3	2	89	1	0	0	0	0	1	0	0	0	2257	72	3	5	3056	5	C4orf21	4	113508887	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	335	113508887	77645389	2036	55867											
C4orf21	55345	broad.mit.edu	37	chr4	113545027	113545027	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcctttgtcatcatataaAattgcctgtatgaaaacaaa	15	13	5	8	0	2	1	2	1	0	0	3	1	3	1	2	0	2	2	2	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:113545027A>C	uc003iau.2	-	4	319	c.108T>G	c.(106-108)ATT>ATG	p.I36M	C4orf21_uc003iaw.2_Missense_Mutation_p.I36M	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		CATCATATAAAATTGCCTGTA	0.254													7	24					0	0	1	0	0		C	113545027	C	C	113545027	3	2	89	1	0	0	0	0	1	0	0	0	2257	10	1	5	6306	5	C4orf21	4	113545027	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	36140	113545027	77609249	2037	55868											
ANK2	287	broad.mit.edu	37	chr4	114276905	114276905	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatccacagccacctcagaCgagacaaaggccttgccgct	12	5	9	15	2	1	2	1	0	0	2	2	4	2	2	5	1	2	1	5	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:114276905C>T	uc003ibe.3	+	38	7231	c.7131C>T	c.(7129-7131)GAC>GAT	p.D2377D	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Translation_Start_Site|ANK2_uc011cgb.1_Silent_p.D2392D	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2344					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CCACCTCAGACGAGACAAAGG	0.498													21	47					0	0	1	0	0		T	114276905	T	T	114276905	2	4	89	1	0	0	0	0	0	0	0	1	621	535	19	1		1	ANK2	4	114276905	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	731878	114276905	76877371	2038	55869											
ANK2	287	broad.mit.edu	37	chr4	114278303	114278303	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagattgccccagtgaaagCttttcatcttcatcctcttt	8	15	6	12	0	4	2	2	1	2	1	5	2	5	2	3	0	2	2	3	0	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:114278303C>T	uc003ibe.3	+	38	8629	c.8529C>T	c.(8527-8529)AGC>AGT	p.S2843S	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Silent_p.S145S|ANK2_uc011cgb.1_Silent_p.S2858S	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2810					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CCAGTGAAAGCTTTTCATCTT	0.403													60	120					0	0	1	0	0		T	114278303	T	T	114278303	2	4	89	1	0	0	0	0	0	0	0	1	621	796	28	2		2	ANK2	4	114278303	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1398	114278303	76875973	2039	55870											
ANK2	287	broad.mit.edu	37	chr4	114284541	114284541	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagcaaattcatcaaattCgaattgaaaatcccaactct	17	10	5	9	1	3	1	2	1	1	0	5	3	4	2	1	1	2	1	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:114284541C>T	uc003ibe.3	+	40	10904	c.10804C>T	c.(10804-10806)CGA>TGA	p.R3602*	ANK2_uc003ibd.3_Nonsense_Mutation_p.R1508*|ANK2_uc003ibf.3_Nonsense_Mutation_p.R1517*|ANK2_uc011cgc.1_Nonsense_Mutation_p.R693*|ANK2_uc003ibg.3_Nonsense_Mutation_p.R501*|ANK2_uc003ibh.3_Nonsense_Mutation_p.R191*|ANK2_uc011cgd.1_Nonsense_Mutation_p.R904*	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3569	Death.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TCATCAAATTCGAATTGAAAA	0.388													18	40					0	0	1	0	0		T	114284541	T	T	114284541	4	4	89	1	0	0	0	0	0	1	0	0	621	876	31	1	11027	1	ANK2	4	114284541	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6238	114284541	76869735	2040	55871											
NDST4	64579	broad.mit.edu	37	chr4	115898385	115898385	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatccaaggttgaaggtaaAatttgcaacctgagtgcgca	15	9	10	7	1	0	2	0	2	0	0	1	2	1	2	2	2	3	4	2	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:115898385A>C	uc003ibu.2	-	3	1703	c.1024T>G	c.(1024-1026)TTT>GTT	p.F342V	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	342	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TTGAAGGTAAAATTTGCAACC	0.323													35	49					0	0	1	0	0		C	115898385	C	C	115898385	3	2	89	1	0	0	0	0	1	0	0	0	10277	14	1	5	1642	5	NDST4	4	115898385	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1613844	115898385	75255891	2041	55872											
NDST3	9348	broad.mit.edu	37	chr4	118975799	118975799	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaccccagaaaacctttCtccttccatctctaaaggtg	13	10	5	13	0	2	2	0	0	2	2	5	2	3	2	5	1	1	0	5	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:118975799C>A	uc003ibx.2	+	2	1137	c.734C>A	c.(733-735)TCT>TAT	p.S245Y	NDST3_uc011cgf.1_Missense_Mutation_p.S245Y|NDST3_uc003ibw.2_Missense_Mutation_p.S245Y	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	245	Lumenal (Potential).|Heparan sulfate N-deacetylase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						GAAAACCTTTCTCCTTCCATC	0.383													66	85					6.07242e-22	7.22307e-22	1	1	0		A	118975799	A	A	118975799	3	1	89	1	0	0	0	0	1	0	0	0	10276	913	32	5	736	5	NDST3	4	118975799	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3077414	118975799	72178477	2042	55873											
NDST3	9348	broad.mit.edu	37	chr4	118975970	118975970	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctgacattgtccttggAcaggtacattcttgtggata	9	13	12	7	0	1	1	0	1	1	0	2	4	2	3	1	4	1	2	1	4	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:118975970A>G	uc003ibx.2	+	2	1308	c.905A>G	c.(904-906)GAC>GGC	p.D302G	NDST3_uc011cgf.1_Missense_Mutation_p.D302G|NDST3_uc003ibw.2_Missense_Mutation_p.D302G	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	302	Lumenal (Potential).|Heparan sulfate N-deacetylase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						TTGTCCTTGGACAGGTACATT	0.398													80	126					0	0	1	0	0		G	118975970	G	G	118975970	3	3	89	1	0	0	0	0	1	0	0	0	10276	275	10	3	907	3	NDST3	4	118975970	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	171	118975970	72178306	2043	55874											
PRSS12	8492	broad.mit.edu	37	chr4	119229642	119229642	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccttatcagtccatccaTcatcacagattgttccccac	10	12	3	16	0	3	1	3	0	0	1	7	1	7	1	5	0	0	1	5	0	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:119229642T>C	uc003ica.1	-	8	1627	c.1580A>G	c.(1579-1581)GAT>GGT	p.D527G		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	527	SRCR 4.					membrane	scavenger receptor activity			skin(1)	1						AGTCCATCCATCATCACAGAT	0.423													54	105					0	0	1	0	0		C	119229642	C	C	119229642	3	2	89	1	0	0	0	0	1	0	0	0	12637	1435	50	3	1071	3	PRSS12	4	119229642	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	253672	119229642	71924634	2044	55875											
SYNPO2	171024	broad.mit.edu	37	chr4	119952619	119952619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagacacggtgcaggcccacGctgctcgagctcagtctccc	7	6	11	17	3	2	1	1	0	1	1	4	2	2	1	2	2	3	4	2	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:119952619G>A	uc003icm.3	+	4	2885	c.2689G>A	c.(2689-2691)GCT>ACT	p.A897T	SYNPO2_uc010ina.2_Missense_Mutation_p.A897T|SYNPO2_uc010inb.2_Missense_Mutation_p.A897T|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Missense_Mutation_p.A825T	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	897						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						GCAGGCCCACGCTGCTCGAGC	0.552													42	71					0	0	1	0	0		A	119952619	A	A	119952619	3	1	89	1	0	0	0	0	1	0	0	0	15482	1087	38	1	2703	1	SYNPO2	4	119952619	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	722977	119952619	71201657	2045	55876											
SYNPO2	171024	broad.mit.edu	37	chr4	119952769	119952769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcagccatcagctgcacagCcctccaaaatgggcaagaaa	14	5	8	14	0	2	1	2	0	0	1	3	1	3	1	3	1	4	3	3	1	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:119952769C>T	uc003icm.3	+	4	3035	c.2839C>T	c.(2839-2841)CCC>TCC	p.P947S	SYNPO2_uc010ina.2_Missense_Mutation_p.P947S|SYNPO2_uc010inb.2_Missense_Mutation_p.P947S|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Missense_Mutation_p.P875S	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	947						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						AGCTGCACAGCCCTCCAAAAT	0.502													38	53					0	0	1	0	0		T	119952769	T	T	119952769	3	4	89	1	0	0	0	0	1	0	0	0	15482	739	26	2	2853	2	SYNPO2	4	119952769	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	150	119952769	71201507	2046	55877											
SYNPO2	171024	broad.mit.edu	37	chr4	119953078	119953078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagtcagtgcatccccagtgCctgtgggcattcccacctcg	6	9	10	16	1	1	0	1	0	0	0	4	0	3	0	5	1	2	2	5	1	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:119953078C>T	uc003icm.3	+	4	3344	c.3148C>T	c.(3148-3150)CCT>TCT	p.P1050S	SYNPO2_uc010ina.2_Missense_Mutation_p.P1050S|SYNPO2_uc010inb.2_Missense_Mutation_p.P1050S|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Intron	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	1050						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						ATCCCCAGTGCCTGTGGGCAT	0.517													25	47					0	0	1	0	0		T	119953078	T	T	119953078	3	4	89	1	0	0	0	0	1	0	0	0	15482	739	26	2	3162	2	SYNPO2	4	119953078	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	309	119953078	71201198	2047	55878											
USP53	54532	broad.mit.edu	37	chr4	120192574	120192574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggatcatataaacatgaccGagttgtacctcagagtcgag	14	9	10	8	2	2	2	2	1	0	1	3	5	2	3	2	1	2	2	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:120192574G>A	uc003ics.3	+	15	2625	c.1559G>A	c.(1558-1560)CGA>CAA	p.R520Q	USP53_uc003icr.3_Missense_Mutation_p.R520Q|USP53_uc003icu.3_Missense_Mutation_p.R143Q|USP53_uc003ict.2_Missense_Mutation_p.R143Q	NM_019050	NP_061923	Q70EK8	UBP53_HUMAN	ubiquitin specific protease 53	520					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			ovary(1)|breast(1)|kidney(1)|skin(1)	4						AAACATGACCGAGTTGTACCT	0.398													41	81					0	0	1	0	0		A	120192574	A	A	120192574	3	1	89	1	0	0	0	0	1	0	0	0	17110	1058	37	1	1605	1	USP53	4	120192574	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	239496	120192574	70961702	2048	55879											
USP53	54532	broad.mit.edu	37	chr4	120213820	120213820	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atggatcaatgttactttgaGaactctctatccacagaatg	13	13	7	8	0	2	2	1	1	1	2	4	4	3	3	1	1	2	1	1	1	5	3	rs10010374		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:120213820G>A	uc003ics.3	+	18	3742	c.2676G>A	c.(2674-2676)GAG>GAA	p.E892E	USP53_uc003icr.3_Silent_p.E892E|USP53_uc003icu.3_Silent_p.E515E	NM_019050	NP_061923	Q70EK8	UBP53_HUMAN	ubiquitin specific protease 53	892					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			ovary(1)|breast(1)|kidney(1)|skin(1)	4						GTTACTTTGAGAACTCTCTAT	0.428													28	50					0	0	1	0	0		A	120213820	A	A	120213820	2	1	89	1	0	0	0	0	0	0	0	1	17110	933	33	4		4	USP53	4	120213820	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21246	120213820	70940456	2049	55880											
PDE5A	8654	broad.mit.edu	37	chr4	120419777	120419777	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagttccgcttggcctggccGctttccccattaatcagcat	6	12	8	15	2	1	0	1	0	0	0	3	0	3	0	5	2	1	4	5	2	1	4	rs143408453	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:120419777G>A	uc003idh.2	-	21	2762	c.2607C>T	c.(2605-2607)AGC>AGT	p.S869S	uc003ide.3_Intron|PDE5A_uc003idf.2_Silent_p.S827S|PDE5A_uc003idg.2_Silent_p.S817S	NM_001083	NP_001074	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 1	869					platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)	TGGCCTGGCCGCTTTCCCCAT	0.488													33	54					0	0	1	0	0		A	120419777	A	A	120419777	2	1	89	1	0	0	0	0	0	0	0	1	11663	1078	38	1		1	PDE5A	4	120419777	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	205957	120419777	70734499	2050	55881											
C4orf31	79625	broad.mit.edu	37	chr4	121957679	121957679	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagttatcatccacttcttTtttgtagatgcaaaacttgt	10	18	6	7	0	2	1	1	0	1	1	3	1	3	1	1	0	2	4	1	0	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:121957679T>G	uc003idq.1	-	4	1974	c.1447A>C	c.(1447-1449)AAA>CAA	p.K483Q		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	483	Fibronectin type-III 2.										0						TCCACTTCTTTTTTGTAGATG	0.428													46	85					0	0	1	0	0		G	121957679	G	G	121957679	3	3	89	1	0	0	0	0	1	0	0	0	2264	1850	64	5	263	5	C4orf31	4	121957679	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1537902	121957679	69196597	2051	55882											
C4orf31	79625	broad.mit.edu	37	chr4	121958329	121958329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggctttgcctggaaactgCgttctttacctgaattatca	10	14	8	9	1	2	1	1	1	1	0	2	2	2	2	2	2	4	2	2	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:121958329C>T	uc003idq.1	-	4	1324	c.797G>A	c.(796-798)CGC>CAC	p.R266H		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	266	Fibronectin type-III 1.										0						CTGGAAACTGCGTTCTTTACC	0.458													31	51					0	0	1	0	0		T	121958329	T	T	121958329	3	4	89	1	0	0	0	0	1	0	0	0	2264	768	27	1	913	1	C4orf31	4	121958329	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	650	121958329	69195947	2052	55883											
QRFPR	84109	broad.mit.edu	37	chr4	122250697	122250697	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatgcctttgtgctggagaGaaggttttatttactatgca	9	15	10	7	0	0	1	0	0	0	1	0	3	0	2	2	2	4	3	2	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:122250697G>A	uc010inj.1	-	6	1447	c.1068C>T	c.(1066-1068)TTC>TTT	p.F356F	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_3'UTR	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	356	Cytoplasmic (Potential).					plasma membrane	neuropeptide Y receptor activity				0						GTGCTGGAGAGAAGGTTTTAT	0.373													45	96					0	0	1	0	0		A	122250697	A	A	122250697	2	1	89	1	0	0	0	0	0	0	0	1	12903	933	33	4		4	QRFPR	4	122250697	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	292368	122250697	68903579	2053	55884											
EXOSC9	5393	broad.mit.edu	37	chr4	122732818	122732818	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagctttggagaatgaccaAaaagtaaggtaagtaacttt	18	10	9	4	0	0	2	0	1	0	1	0	3	0	2	1	2	2	4	1	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:122732818A>C	uc003iea.2	+	8	927	c.819A>C	c.(817-819)CAA>CAC	p.Q273H	EXOSC9_uc003idz.2_Missense_Mutation_p.Q273H|EXOSC9_uc003ieb.2_Missense_Mutation_p.Q257H|EXOSC9_uc010inp.1_RNA	NM_005033	NP_005024	Q06265	EXOS9_HUMAN	exosome component 9 isoform 2	273					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|immune response|nuclear mRNA surveillance|nuclear polyadenylation-dependent rRNA catabolic process|positive regulation of cell growth|rRNA processing	cytosol|nuclear exosome (RNase complex)|nucleolus|nucleolus|nucleus	3'-5'-exoribonuclease activity|AU-rich element binding|protein binding				0						AGAATGACCAAAAAGTAAGGT	0.279													21	24					0	0	1	0	0		C	122732818	C	C	122732818	3	2	89	1	0	0	0	0	1	0	0	0	5329	11	1	5	849	5	EXOSC9	4	122732818	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	482121	122732818	68421458	2054	55885											
KIAA1109	84162	broad.mit.edu	37	chr4	123160734	123160734	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaggataagtcagtaggTcaatctcctcttagatctcc	11	12	7	11	0	6	1	3	0	3	1	8	2	6	2	2	2	0	1	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:123160734T>C	uc003ieh.2	+	27	3942	c.3897T>C	c.(3895-3897)GGT>GGC	p.G1299G	KIAA1109_uc003iei.1_Silent_p.G1052G|KIAA1109_uc010ins.1_Silent_p.G642G|KIAA1109_uc003iek.2_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1299					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGTCAGTAGGTCAATCTCCTC	0.428													28	69					0	0	1	0	0		C	123160734	C	C	123160734	2	2	89	1	0	0	0	0	0	0	0	1	8224	1654	58	3		3	KIAA1109	4	123160734	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	427916	123160734	67993542	2055	55886											
KIAA1109	84162	broad.mit.edu	37	chr4	123179988	123179988	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacccatagtgactctgcatTaaaaataaaggtatattatt	16	14	5	6	0	1	1	0	1	1	0	1	1	1	1	1	1	2	2	1	1	10	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:123179988T>C	uc003ieh.2	+	40	6797	c.6752T>C	c.(6751-6753)TTA>TCA	p.L2251S	KIAA1109_uc003iel.1_Missense_Mutation_p.L186S|KIAA1109_uc003iek.2_Missense_Mutation_p.L870S	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2251					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GACTCTGCATTAAAAATAAAG	0.383													13	39					0	0	1	0	0		C	123179988	C	C	123179988	3	2	89	1	0	0	0	0	1	0	0	0	8224	1764	61	3	6910	3	KIAA1109	4	123179988	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	19254	123179988	67974288	2056	55887											
KIAA1109	84162	broad.mit.edu	37	chr4	123265632	123265632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtttgtcacggatcaggCgttcaggaggtgcctcattt	7	13	13	8	2	4	1	4	1	0	0	4	3	4	3	1	4	1	2	1	4	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:123265632C>T	uc003ieh.2	+	72	12694	c.12649C>T	c.(12649-12651)CGT>TGT	p.R4217C	KIAA1109_uc003iem.2_Missense_Mutation_p.R573C|KIAA1109_uc003ien.2_Missense_Mutation_p.R151C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4217					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ACGGATCAGGCGTTCAGGAGG	0.393													31	91					0	0	1	0	0		T	123265632	T	T	123265632	3	4	89	1	0	0	0	0	1	0	0	0	8224	768	27	1	12935	1	KIAA1109	4	123265632	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	85644	123265632	67888644	2057	55888											
KIAA1109	84162	broad.mit.edu	37	chr4	123274229	123274229	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttttcatggtccaaattttCgttcaaaatcttgggccctt	8	17	7	9	1	3	0	2	0	1	0	5	0	4	0	2	2	0	2	2	2	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:123274229C>T	uc003ieh.2	+	79	14065	c.14020C>T	c.(14020-14022)CGT>TGT	p.R4674C	KIAA1109_uc003iem.2_Missense_Mutation_p.R1030C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4674					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TCCAAATTTTCGTTCAAAATC	0.368													28	60					0	0	1	0	0		T	123274229	T	T	123274229	3	4	89	1	0	0	0	0	1	0	0	0	8224	884	31	1	14334	1	KIAA1109	4	123274229	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8597	123274229	67880047	2058	55889											
ADAD1	132612	broad.mit.edu	37	chr4	123336586	123336586	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatcgctataaagcaacgTgttgatgatgcactcacttc	13	11	8	9	2	1	2	1	2	0	0	3	3	1	2	0	0	3	4	0	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:123336586T>C	uc003ieo.2	+	11	1534	c.1302T>C	c.(1300-1302)CGT>CGC	p.R434R	ADAD1_uc003iep.2_Silent_p.R423R|ADAD1_uc003ieq.2_Silent_p.R416R	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	434	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						TAAAGCAACGTGTTGATGATG	0.373													41	99					0	0	1	0	0		C	123336586	C	C	123336586	2	2	89	1	0	0	0	0	0	0	0	1	231	1683	59	3		3	ADAD1	4	123336586	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	62357	123336586	67817690	2059	55890											
BBS12	166379	broad.mit.edu	37	chr4	123663068	123663068	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggtgatggcttgcagagtCgtaaacaaaagaagacacat	16	8	11	6	1	0	4	0	1	0	3	1	4	0	4	0	2	2	3	0	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:123663068C>T	uc003ieu.2	+	2	214	c.21C>T	c.(19-21)GTC>GTT	p.V7V		NM_152618	NP_689831	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	7					cellular protein metabolic process	cilium	ATP binding			ovary(2)	2						CTTGCAGAGTCGTAAACAAAA	0.318									Bardet-Biedl_syndrome				23	41					0	0	1	0	0		T	123663068	T	T	123663068	2	4	89	1	0	0	0	0	0	0	0	1	1338	871	31	1		1	BBS12	4	123663068	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	326482	123663068	67491208	2060	55891											
NUDT6	11162	broad.mit.edu	37	chr4	123818804	123818804	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttcttcaggctctgacagGcctcctggaaacttccacat	8	12	7	14	0	4	1	1	1	3	0	6	2	6	2	3	3	1	1	3	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:123818804G>A	uc003iew.2	-	4	560	c.528C>T	c.(526-528)GGC>GGT	p.G176G	FGF2_uc003iev.1_3'UTR|NUDT6_uc003iex.2_Silent_p.G7G	NM_007083	NP_009014	P53370	NUDT6_HUMAN	nudix-type motif 6 isoform a	176	Nudix hydrolase.|Nudix box.					mitochondrion|nucleus	growth factor activity|hydrolase activity				0						GCTCTGACAGGCCTCCTGGAA	0.308													26	45					0	0	1	0	0		A	123818804	A	A	123818804	2	1	89	1	0	0	0	0	0	0	0	1	10762	1190	42	2		2	NUDT6	4	123818804	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	155736	123818804	67335472	2061	55892											
NUDT6	11162	broad.mit.edu	37	chr4	123838690	123838690	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgtgaagcatatcctggTaatctgctgggcccttctct	7	14	10	10	0	2	2	0	2	2	0	4	2	3	2	2	2	2	3	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:123838690T>G	uc003iew.2	-	2	440	c.408A>C	c.(406-408)TTA>TTC	p.L136F	NUDT6_uc003iex.2_5'UTR	NM_007083	NP_009014	P53370	NUDT6_HUMAN	nudix-type motif 6 isoform a	136						mitochondrion|nucleus	growth factor activity|hydrolase activity				0						CATATCCTGGTAATCTGCTGG	0.458													30	92					0	0	1	0	0		G	123838690	G	G	123838690	3	3	89	1	0	0	0	0	1	0	0	0	10762	1635	57	5	558	5	NUDT6	4	123838690	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	19886	123838690	67315586	2062	55893											
FAT4	79633	broad.mit.edu	37	chr4	126239987	126239987	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggtttttgagaacgtggcGctgggatatcatgtgggtag	7	13	17	4	2	1	1	1	1	0	1	1	3	1	2	0	4	1	3	0	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:126239987G>A	uc003ifj.3	+	1	2421	c.2421G>A	c.(2419-2421)GCG>GCA	p.A807A		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	807	Extracellular (Potential).|Cadherin 8.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AGAACGTGGCGCTGGGATATC	0.453													59	97					0	0	1	0	0		A	126239987	A	A	126239987	2	1	89	1	0	0	0	0	0	0	0	1	5706	1074	38	1		1	FAT4	4	126239987	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2401297	126239987	64914289	2063	55894											
FAT4	79633	broad.mit.edu	37	chr4	126328095	126328095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgatgatagttttcgcatcGacccagaatccggagatctg	10	11	10	10	3	1	4	0	2	1	2	4	6	2	4	2	1	0	2	2	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:126328095G>A	uc003ifj.3	+	3	5368	c.5368G>A	c.(5368-5370)GAC>AAC	p.D1790N	FAT4_uc011cgp.1_Missense_Mutation_p.D88N	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1790	Cadherin 17.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TTTTCGCATCGACCCAGAATC	0.473													38	94					0	0	1	0	0		A	126328095	A	A	126328095	3	1	89	1	0	0	0	0	1	0	0	0	5706	1058	37	1	5378	1	FAT4	4	126328095	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	88108	126328095	64826181	2064	55895											
FAT4	79633	broad.mit.edu	37	chr4	126328144	126328144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcggttggacagggaacGccgctccaaatattcactgc	10	7	12	12	3	1	0	1	0	0	0	2	2	2	2	2	4	2	2	2	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:126328144G>A	uc003ifj.3	+	3	5417	c.5417G>A	c.(5416-5418)CGC>CAC	p.R1806H	FAT4_uc011cgp.1_Missense_Mutation_p.R104H	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1806	Cadherin 17.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GACAGGGAACGCCGCTCCAAA	0.473													57	126					0	0	1	0	0		A	126328144	A	A	126328144	3	1	89	1	0	0	0	0	1	0	0	0	5706	1087	38	1	5427	1	FAT4	4	126328144	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	49	126328144	64826132	2065	55896											
FAT4	79633	broad.mit.edu	37	chr4	126371220	126371220	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagattttggactgaatTcagaagtggagtatttcatt	14	14	9	4	0	2	3	2	1	0	2	2	5	2	5	0	2	0	1	0	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:126371220T>C	uc003ifj.3	+	9	9049	c.9049T>C	c.(9049-9051)TCA>CCA	p.S3017P	FAT4_uc011cgp.1_Missense_Mutation_p.S1315P|FAT4_uc003ifi.1_Missense_Mutation_p.S495P	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3017	Extracellular (Potential).|Cadherin 29.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGGACTGAATTCAGAAGTGGA	0.343													36	58					0	0	1	0	0		C	126371220	C	C	126371220	3	2	89	1	0	0	0	0	1	0	0	0	5706	1783	62	3	9083	3	FAT4	4	126371220	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	43076	126371220	64783056	2066	55897											
FAT4	79633	broad.mit.edu	37	chr4	126372053	126372053	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaagggacaaatgaataTgtgccccgttttgtttccaa	13	13	8	7	1	0	1	0	1	0	0	1	2	1	2	3	1	1	2	3	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:126372053T>C	uc003ifj.3	+	9	9882	c.9882T>C	c.(9880-9882)TAT>TAC	p.Y3294Y	FAT4_uc011cgp.1_Silent_p.Y1592Y|FAT4_uc003ifi.1_Silent_p.Y772Y	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3294	Cadherin 31.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAAATGAATATGTGCCCCGTT	0.408													22	55					0	0	1	0	0		C	126372053	C	C	126372053	2	2	89	1	0	0	0	0	0	0	0	1	5706	1471	51	3		3	FAT4	4	126372053	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	833	126372053	64782223	2067	55898											
FAT4	79633	broad.mit.edu	37	chr4	126372616	126372616	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctataatctctcagttttggCtgttgattcagggaccccct	7	15	8	11	0	3	1	2	1	1	0	4	2	3	2	2	2	0	3	2	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:126372616C>A	uc003ifj.3	+	9	10445	c.10445C>A	c.(10444-10446)GCT>GAT	p.A3482D	FAT4_uc011cgp.1_Missense_Mutation_p.A1780D|FAT4_uc003ifi.1_Missense_Mutation_p.A960D	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3482	Cadherin 33.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TCAGTTTTGGCTGTTGATTCA	0.453													47	114					3.39706e-21	4.02498e-21	1	1	0		A	126372616	A	A	126372616	3	1	89	1	0	0	0	0	1	0	0	0	5706	797	28	5	10479	5	FAT4	4	126372616	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	563	126372616	64781660	2068	55899											
FAT4	79633	broad.mit.edu	37	chr4	126400929	126400929	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaaggcgcttgtactcgcagCccatgccaacatggtggcac	9	7	12	13	2	0	0	0	0	0	0	1	1	0	0	2	3	4	4	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:126400929C>T	uc003ifj.3	+	14	12507	c.12507C>T	c.(12505-12507)AGC>AGT	p.S4169S	FAT4_uc011cgp.1_Intron|FAT4_uc003ifi.1_Silent_p.S1647S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4169	EGF-like 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GTACTCGCAGCCCATGCCAAC	0.423													11	34					0	0	1	0	0		T	126400929	T	T	126400929	2	4	89	1	0	0	0	0	0	0	0	1	5706	738	26	2		2	FAT4	4	126400929	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28313	126400929	64753347	2069	55900											
FAT4	79633	broad.mit.edu	37	chr4	126412663	126412663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcctcgaaggtaccacggtCgcagggccgagggaggacct	9	4	16	12	4	0	0	0	0	0	0	2	4	0	2	4	5	2	2	4	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:126412663C>T	uc003ifj.3	+	17	14686	c.14686C>T	c.(14686-14688)CGC>TGC	p.R4896C	FAT4_uc011cgp.1_Missense_Mutation_p.R3137C|FAT4_uc003ifi.1_Missense_Mutation_p.R2373C	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4896	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GTACCACGGTCGCAGGGCCGA	0.522													25	51					0	0	1	0	0		T	126412663	T	T	126412663	3	4	89	1	0	0	0	0	1	0	0	0	5706	884	31	1	14752	1	FAT4	4	126412663	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11734	126412663	64741613	2070	55901											
HSPA4L	22824	broad.mit.edu	37	chr4	128739553	128739553	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactccagaagaggaaattgAtcatacaggagccaaaacaa	19	5	8	9	0	1	3	1	1	0	2	2	5	2	5	2	2	3	0	2	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:128739553A>G	uc003ifm.2	+	13	1905	c.1652A>G	c.(1651-1653)GAT>GGT	p.D551G	HSPA4L_uc010iny.1_Missense_Mutation_p.D510G|HSPA4L_uc011cgr.1_Missense_Mutation_p.D518G	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	551					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						GAGGAAATTGATCATACAGGA	0.299													29	56					0	0	1	0	0		G	128739553	G	G	128739553	3	3	89	1	0	0	0	0	1	0	0	0	7429	333	12	3	1702	3	HSPA4L	4	128739553	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2326890	128739553	62414723	2071	55902											
PLK4	10733	broad.mit.edu	37	chr4	128804620	128804620	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactattttgaagatagcaaTtatgtgtatctggtattaga	14	16	8	3	0	1	3	0	1	1	2	1	3	1	3	0	1	2	3	0	1	9	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:128804620T>G	uc003ifo.2	+	4	494	c.249T>G	c.(247-249)AAT>AAG	p.N83K	PLK4_uc011cgs.1_Missense_Mutation_p.N51K|PLK4_uc011cgt.1_Missense_Mutation_p.N42K	NM_014264	NP_055079	O00444	PLK4_HUMAN	polo-like kinase 4	83	Protein kinase.				G2/M transition of mitotic cell cycle|positive regulation of centriole replication|trophoblast giant cell differentiation	centriole|cleavage furrow|cytosol|nucleolus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						AAGATAGCAATTATGTGTATC	0.313													16	46					0	0	1	0	0		G	128804620	G	G	128804620	3	3	89	1	0	0	0	0	1	0	0	0	12117	1490	52	5	263	5	PLK4	4	128804620	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	65067	128804620	62349656	2072	55903											
C4orf29	80167	broad.mit.edu	37	chr4	128941239	128941239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgttatattacagatggCttccttagcggtatccaact	10	15	7	9	1	1	1	0	0	1	1	3	1	3	1	2	2	3	3	2	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:128941239C>T	uc003ifr.2	+	10	932	c.614C>T	c.(613-615)GCT>GTT	p.A205V	C4orf29_uc003ifs.2_Missense_Mutation_p.A99V|C4orf29_uc003ift.2_Missense_Mutation_p.A36V|C4orf29_uc003ifu.2_Missense_Mutation_p.A36V|C4orf29_uc010inz.2_Missense_Mutation_p.A2V|C4orf29_uc003ifv.2_Missense_Mutation_p.A36V	NM_001039717	NP_001034806	Q0P651	CD029_HUMAN	hypothetical protein LOC80167 precursor	205						extracellular region				ovary(1)	1						TTACAGATGGCTTCCTTAGCG	0.368													7	24					0	0	1	0	0		T	128941239	T	T	128941239	3	4	89	1	0	0	0	0	1	0	0	0	2262	797	28	2	644	2	C4orf29	4	128941239	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	136619	128941239	62213037	2073	55904											
PCDH10	57575	broad.mit.edu	37	chr4	134071595	134071595	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctggaggtctttctggaGaaccccctggagctgttcca	7	10	11	13	0	2	1	0	0	2	1	3	4	3	3	4	4	2	2	4	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:134071595G>T	uc003iha.2	+	1	1126	c.300G>T	c.(298-300)GAG>GAT	p.E100D	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.E100D	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	100	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TCTTTCTGGAGAACCCCCTGG	0.557													31	79					3.99451e-17	4.61668e-17	1	1	0		T	134071595	T	T	134071595	3	4	89	1	0	0	0	0	1	0	0	0	11526	933	33	5	302	5	PCDH10	4	134071595	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5130356	134071595	57082681	2074	55905											
PCDH10	57575	broad.mit.edu	37	chr4	134072121	134072121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatccagctcaacgccaccGacccggacgagggccagaac	11	3	11	16	4	1	2	1	1	0	1	2	5	2	3	5	2	3	1	5	2	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:134072121G>A	uc003iha.2	+	1	1652	c.826G>A	c.(826-828)GAC>AAC	p.D276N	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.D276N	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	276	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CAACGCCACCGACCCGGACGA	0.627													39	72					0	0	1	0	0		A	134072121	A	A	134072121	3	1	89	1	0	0	0	0	1	0	0	0	11526	1058	37	1	828	1	PCDH10	4	134072121	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	526	134072121	57082155	2075	55906											
PCDH10	57575	broad.mit.edu	37	chr4	134075511	134075511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctagttgacagacctcgccGagttaacaggtatggactct	10	11	10	10	2	2	2	0	1	2	1	3	4	2	3	2	2	1	3	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:134075511G>A	uc003iha.2	+	2	3507	c.2681G>A	c.(2680-2682)CGA>CAA	p.R894Q		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	894	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AGACCTCGCCGAGTTAACAGG	0.353													13	18					0	0	1	0	0		A	134075511	A	A	134075511	3	1	89	1	0	0	0	0	1	0	0	0	11526	1058	37	1	2747	1	PCDH10	4	134075511	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3390	134075511	57078765	2076	55907											
PCDH18	54510	broad.mit.edu	37	chr4	138450792	138450792	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgggtgagttctaatgaGaaattctctggcacgtggtt	8	13	14	6	2	2	2	0	2	2	1	3	3	2	2	0	3	0	3	0	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:138450792G>T	uc003ihe.3	-	1	2838	c.2451C>A	c.(2449-2451)TTC>TTA	p.F817L	PCDH18_uc003ihf.3_Missense_Mutation_p.F810L|PCDH18_uc011cgz.1_Missense_Mutation_p.F28L|PCDH18_uc003ihg.3_Missense_Mutation_p.F597L|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	817	Cytoplasmic (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					GTTCTAATGAGAAATTCTCTG	0.458													16	32					3.32936e-07	3.48551e-07	1	1	0		T	138450792	T	T	138450792	3	4	89	1	0	0	0	0	1	0	0	0	11532	933	33	5	972	5	PCDH18	4	138450792	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4375281	138450792	52703484	2077	55908											
PCDH18	54510	broad.mit.edu	37	chr4	138451451	138451451	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttattcttgtgacatgaaAgccactttcagcccctttgg	8	14	7	12	0	2	2	1	2	1	0	2	2	2	2	4	1	2	0	4	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:138451451A>C	uc003ihe.3	-	1	2179	c.1792T>G	c.(1792-1794)TTT>GTT	p.F598V	PCDH18_uc003ihf.3_Missense_Mutation_p.F591V|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.F378V|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	598	Cadherin 6.|Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					GTGACATGAAAGCCACTTTCA	0.443													114	186					0	0	1	0	0		C	138451451	C	C	138451451	3	2	89	1	0	0	0	0	1	0	0	0	11532	72	3	5	1631	5	PCDH18	4	138451451	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	659	138451451	52702825	2078	55909											
PCDH18	54510	broad.mit.edu	37	chr4	138451957	138451957	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacagtcaaactatactcaGatctcttttctctatccagt	11	16	3	11	0	4	1	2	0	2	1	7	1	5	1	1	0	3	0	1	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:138451957G>T	uc003ihe.3	-	1	1673	c.1286C>A	c.(1285-1287)TCT>TAT	p.S429Y	PCDH18_uc003ihf.3_Missense_Mutation_p.S422Y|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.S209Y|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	429	Cadherin 4.|Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					ACTATACTCAGATCTCTTTTC	0.363													41	103					4.14481e-20	4.8834e-20	1	1	0		T	138451957	T	T	138451957	3	4	89	1	0	0	0	0	1	0	0	0	11532	942	33	5	2137	5	PCDH18	4	138451957	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	506	138451957	52702319	2079	55910											
PCDH18	54510	broad.mit.edu	37	chr4	138452515	138452515	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctgctcaaaagcagggCtgttgtcattggagtctgaa	10	12	12	7	0	3	1	2	1	1	0	3	2	3	2	0	2	3	5	0	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:138452515C>T	uc003ihe.3	-	1	1115	c.728G>A	c.(727-729)AGC>AAC	p.S243N	PCDH18_uc003ihf.3_Missense_Mutation_p.S236N|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.S23N|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	243	Extracellular (Potential).|Cadherin 2.				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					AAAAGCAGGGCTGTTGTCATT	0.463													39	75					0	0	1	0	0		T	138452515	T	T	138452515	3	4	89	1	0	0	0	0	1	0	0	0	11532	797	28	2	2695	2	PCDH18	4	138452515	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	558	138452515	52701761	2080	55911											
NAA15	80155	broad.mit.edu	37	chr4	140306065	140306065	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatcgtctttttggagcaacGaatccaaagaattttaatga	15	13	7	6	2	1	2	0	1	1	1	3	4	2	3	1	1	2	1	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:140306065G>A	uc003ihu.1	+	18	2491	c.2235G>A	c.(2233-2235)ACG>ACA	p.T745T		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	745					angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2						TTGGAGCAACGAATCCAAAGA	0.284													18	36					0	0	1	0	0		A	140306065	A	A	140306065	2	1	89	1	0	0	0	0	0	0	0	1	10136	1045	37	1		1	NAA15	4	140306065	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1853550	140306065	50848211	2081	55912											
NAA15	80155	broad.mit.edu	37	chr4	140306076	140306076	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggagcaacgaatccaaagaAttttaatgaaacttttctga	16	12	7	6	1	1	3	0	2	1	1	2	5	2	4	1	1	3	1	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:140306076A>C	uc003ihu.1	+	18	2502	c.2246A>C	c.(2245-2247)AAT>ACT	p.N749T		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	749					angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2						AATCCAAAGAATTTTAATGAA	0.303													4	48					0	0	1	0	0		C	140306076	C	C	140306076	3	2	89	1	0	0	0	0	1	0	0	0	10136	101	4	5	2316	5	NAA15	4	140306076	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	11	140306076	50848200	2082	55913											
CLGN	1047	broad.mit.edu	37	chr4	141315154	141315154	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaatggatgatcatcttcGaaataatctggattaggaat	16	12	9	4	1	3	2	1	1	2	1	4	6	3	5	0	3	0	0	0	3	5	3	rs76550209	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:141315154G>A	uc011chi.1	-	12	1409	c.1191C>T	c.(1189-1191)TTC>TTT	p.F397F	CLGN_uc003iii.2_Silent_p.F397F	NM_001130675	NP_001124147	O14967	CLGN_HUMAN	calmegin precursor	397	Lumenal (Potential).|2-4.				protein folding	endoplasmic reticulum membrane|integral to membrane	calcium ion binding|unfolded protein binding			ovary(2)|skin(1)	3	all_hematologic(180;0.162)					GATCATCTTCGAAATAATCTG	0.323													15	41					0	0	1	0	0		A	141315154	A	A	141315154	2	1	89	1	0	0	0	0	0	0	0	1	3527	1049	37	1		1	CLGN	4	141315154	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1009078	141315154	49839122	2083	55914											
UCP1	7350	broad.mit.edu	37	chr4	141489041	141489041	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagcccgctgtagagttTcatccgcccttctgttttta	6	14	9	12	2	2	1	1	0	1	1	3	1	3	1	3	1	1	5	3	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:141489041T>G	uc011chj.1	-	2	293	c.217A>C	c.(217-219)AAA>CAA	p.K73Q	UCP1_uc011chk.1_Missense_Mutation_p.K73Q	NM_021833	NP_068605	P25874	UCP1_HUMAN	uncoupling protein 1	73	Solcar 1.				brown fat cell differentiation|cellular lipid metabolic process|respiratory electron transport chain	integral to membrane|mitochondrial inner membrane	binding			ovary(1)	1	all_hematologic(180;0.162)					CTGTAGAGTTTCATCCGCCCT	0.557													34	81					0	0	1	0	0		G	141489041	G	G	141489041	3	3	89	1	0	0	0	0	1	0	0	0	16956	1792	62	5	724	5	UCP1	4	141489041	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	173887	141489041	49665235	2084	55915											
RNF150	57484	broad.mit.edu	37	chr4	142053630	142053630	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccagttcttgccgcgggtCggggcggcgaacttggtgtt	4	11	16	10	5	1	0	0	0	1	0	3	1	2	0	2	5	2	2	2	5	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:142053630C>T	uc003iio.1	-	1	987	c.333G>A	c.(331-333)CCG>CCA	p.P111P	RNF150_uc010iok.1_Silent_p.P111P|RNF150_uc003iip.1_Silent_p.P111P	NM_020724	NP_065775	Q9ULK6	RN150_HUMAN	ring finger protein 150 precursor	111	Extracellular (Potential).|PA.					integral to membrane	zinc ion binding			ovary(1)	1	all_hematologic(180;0.162)					TGCCGCGGGTCGGGGCGGCGA	0.667													4	7					0	0	1	0	0		T	142053630	T	T	142053630	2	4	89	1	0	0	0	0	0	0	0	1	13476	871	31	1		1	RNF150	4	142053630	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	564589	142053630	49100646	2085	55916											
GAB1	2549	broad.mit.edu	37	chr4	144390300	144390300	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcctggacagatgggagAcagtccacagaatcagaaac	16	4	12	9	0	1	4	1	0	0	4	2	7	2	5	2	2	2	0	2	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:144390300A>G	uc003ije.2	+	10	2402	c.2043A>G	c.(2041-2043)AGA>AGG	p.R681R	GAB1_uc003ijd.2_Silent_p.R711R|GAB1_uc011chq.1_Silent_p.R578R	NM_002039	NP_002030	Q13480	GAB1_HUMAN	GRB2-associated binding protein 1 isoform b	681					cell proliferation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			breast(2)|lung(1)|skin(1)	4	all_hematologic(180;0.158)					CAGATGGGAGACAGTCCACAG	0.438													14	45					0	0	1	0	0		G	144390300	G	G	144390300	2	3	89	1	0	0	0	0	0	0	0	1	6162	272	10	3		3	GAB1	4	144390300	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2336670	144390300	46763976	2086	55917											
SMARCA5	8467	broad.mit.edu	37	chr4	144471198	144471198	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttactttgattgaaagagaaAacatggaactagaagaaaag	20	9	9	3	0	0	5	0	2	0	3	0	7	0	6	0	1	3	0	0	1	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:144471198A>C	uc003ijg.2	+	23	3496	c.3034A>C	c.(3034-3036)AAC>CAC	p.N1012H		NM_003601	NP_003592	O60264	SMCA5_HUMAN	SWI/SNF-related matrix-associated	1012					CenH3-containing nucleosome assembly at centromere|nucleosome positioning|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	condensed chromosome|nucleolus|nucleoplasm|NURF complex|RSF complex	ATP binding|ATPase activity|DNA binding|helicase activity|nucleosome binding|protein binding			skin(1)	1	all_hematologic(180;0.158)					TGAAAGAGAAAACATGGAACT	0.343													9	23					0	0	1	0	0		C	144471198	C	C	144471198	3	2	89	1	0	0	0	0	1	0	0	0	14796	14	1	5	3124	5	SMARCA5	4	144471198	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	80898	144471198	46683078	2087	55918											
HHIP	64399	broad.mit.edu	37	chr4	145573877	145573877	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagaagtcttggaaagaGacctagtacttcctctgctc	12	10	10	9	0	2	3	0	0	2	3	4	6	3	4	2	1	2	2	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:145573877G>T	uc003ijs.1	+	2	1055	c.400G>T	c.(400-402)GAC>TAC	p.D134Y	HHIP_uc003ijr.1_Missense_Mutation_p.D134Y	NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	134						cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		CTTGGAAAGAGACCTAGTACT	0.408													63	113					1.1794e-34	1.45376e-34	1	1	0		T	145573877	T	T	145573877	3	4	89	1	0	0	0	0	1	0	0	0	7108	942	33	5	406	5	HHIP	4	145573877	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1102679	145573877	45580399	2088	55919											
HHIP	64399	broad.mit.edu	37	chr4	145629371	145629371	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggacacagacatgtgcaaCgtgccttattccataccaag	12	9	9	11	1	0	1	0	0	0	1	1	2	1	2	3	1	4	1	3	1	4	3	rs144126673		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:145629371C>T	uc003ijs.1	+	7	1864	c.1209C>T	c.(1207-1209)AAC>AAT	p.N403N		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	403						cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		ACATGTGCAACGTGCCTTATT	0.488													22	55					0	0	1	0	0		T	145629371	T	T	145629371	2	4	89	1	0	0	0	0	0	0	0	1	7108	535	19	1		1	HHIP	4	145629371	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	55494	145629371	45524905	2089	55920											
OTUD4	54726	broad.mit.edu	37	chr4	146059262	146059262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccagagacagatccaattCtcctttttcatcagagggca	11	12	7	11	0	3	3	2	0	1	3	6	4	5	3	3	1	0	1	3	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:146059262C>T	uc003ika.3	-	21	2608	c.2470G>A	c.(2470-2472)GAA>AAA	p.E824K	OTUD4_uc003ijz.3_Missense_Mutation_p.E823K	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	888							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					AGATCCAATTCTCCTTTTTCA	0.413													16	40					0	0	1	0	0		T	146059262	T	T	146059262	3	4	89	1	0	0	0	0	1	0	0	0	11333	922	32	4	683	4	OTUD4	4	146059262	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	429891	146059262	45095014	2090	55921											
OTUD4	54726	broad.mit.edu	37	chr4	146071967	146071967	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcctaccagaatggaaattTtgtccagaagtggaaggttt	12	12	10	7	0	0	2	0	0	0	2	2	4	2	4	3	3	1	1	3	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:146071967T>G	uc003ika.3	-	12	1002	c.864A>C	c.(862-864)CAA>CAC	p.Q288H	OTUD4_uc003ijz.3_Missense_Mutation_p.Q287H	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	352							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					AATGGAAATTTTGTCCAGAAG	0.413													21	27					0	0	1	0	0		G	146071967	G	G	146071967	3	3	89	1	0	0	0	0	1	0	0	0	11333	1838	64	5	2325	5	OTUD4	4	146071967	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	12705	146071967	45082309	2091	55922											
OTUD4	54726	broad.mit.edu	37	chr4	146071986	146071986	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtccagaagtggaaggtTttttcatcttcttccctgac	7	17	8	9	0	3	2	1	1	2	1	5	3	5	3	2	2	0	1	2	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:146071986T>G	uc003ika.3	-	12	983	c.845A>C	c.(844-846)AAA>ACA	p.K282T	OTUD4_uc003ijz.3_Missense_Mutation_p.K281T	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	346							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					AGTGGAAGGTTTTTTCATCTT	0.433													19	28					0	0	1	0	0		G	146071986	G	G	146071986	3	3	89	1	0	0	0	0	1	0	0	0	11333	1841	64	5	2344	5	OTUD4	4	146071986	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	19	146071986	45082290	2092	55923											
ZNF827	152485	broad.mit.edu	37	chr4	146807209	146807209	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttctgtcctcaggaagtgCtgatggcaacgcatgtggag	8	10	14	9	1	2	1	1	1	1	0	3	3	3	3	1	3	2	4	1	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:146807209C>T	uc003ikn.2	-	4	1416	c.1368G>A	c.(1366-1368)CAG>CAA	p.Q456Q	ZNF827_uc003ikm.2_Silent_p.Q456Q|ZNF827_uc010iox.2_Silent_p.Q106Q	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	456					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					TCAGGAAGTGCTGATGGCAAC	0.562													14	36					0	0	1	0	0		T	146807209	T	T	146807209	2	4	89	1	0	0	0	0	0	0	0	1	18205	796	28	2		2	ZNF827	4	146807209	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	735223	146807209	44347067	2093	55924											
ZNF827	152485	broad.mit.edu	37	chr4	146859541	146859541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gggaaggcgcttgggctgctCctgcttcctcctgggcattt	3	12	14	12	1	0	0	0	0	0	0	3	1	3	1	3	4	2	5	3	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:146859541C>T	uc003ikn.2	-	1	67	c.19G>A	c.(19-21)GAG>AAG	p.E7K	ZNF827_uc003ikm.2_Missense_Mutation_p.E7K|ZNF827_uc010iox.2_Missense_Mutation_p.E7K	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	7					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					TTGGGCTGCTCCTGCTTCCTC	0.368													49	85					0	0	1	0	0		T	146859541	T	T	146859541	3	4	89	1	0	0	0	0	1	0	0	0	18205	864	30	4	3266	4	ZNF827	4	146859541	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	52332	146859541	44294735	2094	55925											
TMEM184C	55751	broad.mit.edu	37	chr4	148539147	148539147	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaactggagacagtggAttcgacctttagtagcggtc	10	9	15	7	2	0	1	0	0	0	1	2	6	0	4	1	5	2	1	1	5	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:148539147A>G	uc003ila.3	+	1	609	c.40A>G	c.(40-42)ATT>GTT	p.I14V		NM_018241	NP_060711	Q9NVA4	T184C_HUMAN	transmembrane protein 184C	14						integral to membrane					0						GAGACAGTGGATTCGACCTTT	0.483											OREG0016353	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	58	118					0	0	1	0	0		G	148539147	G	G	148539147	3	3	89	1	0	0	0	0	1	0	0	0	16131	333	12	3	42	3	TMEM184C	4	148539147	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1679606	148539147	42615129	2095	55926											
TMEM184C	55751	broad.mit.edu	37	chr4	148554919	148554919	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattgttgttctcataggatTttattatctgtattgagatg	9	21	8	3	0	2	1	1	1	2	1	3	3	2	2	0	1	0	3	0	1	5	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:148554919T>G	uc003ila.3	+	9	1452	c.883T>G	c.(883-885)TTT>GTT	p.F295V		NM_018241	NP_060711	Q9NVA4	T184C_HUMAN	transmembrane protein 184C	295	Helical; (Potential).					integral to membrane					0						CTCATAGGATTTTATTATCTG	0.363													39	85					0	0	1	0	0		G	148554919	G	G	148554919	3	3	89	1	0	0	0	0	1	0	0	0	16131	1841	64	5	917	5	TMEM184C	4	148554919	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15772	148554919	42599357	2096	55927											
PRMT10	90826	broad.mit.edu	37	chr4	148582140	148582140	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaataagccggactctgaaAtttcacatttgttggcaaat	14	12	8	7	1	2	2	1	1	1	1	2	3	2	3	1	2	1	2	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:148582140A>G	uc003ilc.2	-	7	1145	c.1003T>C	c.(1003-1005)TTT>CTT	p.F335L	PRMT10_uc003ilb.2_5'UTR|PRMT10_uc003ild.2_Missense_Mutation_p.F222L	NM_138364	NP_612373	Q6P2P2	ANM10_HUMAN	protein arginine methyltransferase 10	335						cytoplasm	binding|protein methyltransferase activity			ovary(1)|central_nervous_system(1)	2						GGACTCTGAAATTTCACATTT	0.393													41	62					0	0	1	0	0		G	148582140	G	G	148582140	3	3	89	1	0	0	0	0	1	0	0	0	12558	101	4	3	1558	3	PRMT10	4	148582140	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	27221	148582140	42572136	2097	55928											
NR3C2	4306	broad.mit.edu	37	chr4	149041348	149041348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aactttcatgatggtgtattCttcaaaggtgagctgcagtc	10	14	10	7	0	3	2	2	2	1	0	4	2	3	2	0	2	3	3	0	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:149041348C>T	uc003ilj.3	-	7	2936	c.2602G>A	c.(2602-2604)GAA>AAA	p.E868K	NR3C2_uc003ilk.3_Missense_Mutation_p.E751K|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	868	Steroid-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	ATGGTGTATTCTTCAAAGGTG	0.448													28	53					0	0	1	0	0		T	149041348	T	T	149041348	3	4	89	1	0	0	0	0	1	0	0	0	10650	922	32	4	364	4	NR3C2	4	149041348	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	459208	149041348	42112928	2098	55929											
LRBA	987	broad.mit.edu	37	chr4	151356761	151356761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttaatatcagaggtatcacGctgactgtttcgccaagctc	10	12	8	11	2	2	2	2	1	0	1	4	2	2	2	1	1	1	4	1	1	4	4	rs139428686		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:151356761G>A	uc010ipj.2	-	47	7528	c.7054C>T	c.(7054-7056)CGT>TGT	p.R2352C	LRBA_uc010ipi.2_Intron|LRBA_uc003ils.3_Missense_Mutation_p.R242C|LRBA_uc003ilt.3_Missense_Mutation_p.R1000C|LRBA_uc003ilu.3_Missense_Mutation_p.R2341C	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2352	BEACH.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					GAGGTATCACGCTGACTGTTT	0.363													36	91					0	0	1	0	0		A	151356761	A	A	151356761	3	1	89	1	0	0	0	0	1	0	0	0	8949	1087	38	1	1585	1	LRBA	4	151356761	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2315413	151356761	39797515	2099	55930											
LRBA	987	broad.mit.edu	37	chr4	151773634	151773634	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatagaagcagttacttcActgacagtcattgaatcttt	12	15	6	8	0	3	3	2	2	1	1	3	3	3	3	0	0	2	2	0	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:151773634A>G	uc010ipj.2	-	23	3702	c.3228T>C	c.(3226-3228)AGT>AGC	p.S1076S	LRBA_uc003ilt.3_5'Flank|LRBA_uc003ilu.3_Silent_p.S1076S	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1076						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					CAGTTACTTCACTGACAGTCA	0.368													22	57					0	0	1	0	0		G	151773634	G	G	151773634	2	3	89	1	0	0	0	0	0	0	0	1	8949	156	6	3		3	LRBA	4	151773634	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	416873	151773634	39380642	2100	55931											
LRBA	987	broad.mit.edu	37	chr4	151827471	151827471	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcaaggctatatcctattAccaagaagcccttacaggca	13	11	6	11	0	1	1	1	0	0	1	2	1	2	1	3	2	3	2	3	2	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:151827471A>G	uc010ipj.2	-	12	2054	c.1580T>C	c.(1579-1581)GTA>GCA	p.V527A	LRBA_uc003ilu.3_Missense_Mutation_p.V527A|LRBA_uc010ipk.1_Missense_Mutation_p.V446A	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	527						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					ATATCCTATTACCAAGAAGCC	0.343													37	127					0	0	1	0	0		G	151827471	G	G	151827471	3	3	89	1	0	0	0	0	1	0	0	0	8949	391	14	3	7199	3	LRBA	4	151827471	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	53837	151827471	39326805	2101	55932											
LRBA	987	broad.mit.edu	37	chr4	151849672	151849672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttaagtttttttacccatCgtcctttatctccttgaagt	8	19	4	10	1	1	1	0	1	1	0	4	1	2	1	3	0	1	1	3	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:151849672C>T	uc010ipj.2	-	4	1019	c.545G>A	c.(544-546)CGA>CAA	p.R182Q	LRBA_uc003ilu.3_Missense_Mutation_p.R182Q|LRBA_uc010ipk.1_Missense_Mutation_p.R101Q	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	182						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TTTTACCCATCGTCCTTTATC	0.368													9	26					0	0	1	0	0		T	151849672	T	T	151849672	3	4	89	1	0	0	0	0	1	0	0	0	8949	884	31	1	8266	1	LRBA	4	151849672	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	22201	151849672	39304604	2102	55933											
SH3D19	152503	broad.mit.edu	37	chr4	152086764	152086764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcctggtttggctggaattCgaattacagtgggcttcctg	6	15	12	8	1	0	0	0	0	0	0	3	2	2	1	2	4	1	3	2	4	3	5	rs145229595		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:152086764C>T	uc010ipl.1	-	8	1869	c.779G>A	c.(778-780)CGA>CAA	p.R260Q	SH3D19_uc003imb.2_Missense_Mutation_p.R38Q|SH3D19_uc003imc.2_Intron|SH3D19_uc003ime.2_Missense_Mutation_p.R260Q|SH3D19_uc010ipm.2_Missense_Mutation_p.R260Q	NM_001009555	NP_001009555	Q5HYK7	SH319_HUMAN	SH3 domain containing 19 isoform a	260	Pro-rich.				cellular membrane organization|positive regulation of membrane protein ectodomain proteolysis|post-Golgi vesicle-mediated transport	cytosol|Golgi apparatus|nucleus|plasma membrane	proline-rich region binding			ovary(1)|skin(1)	2	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)				GGCTGGAATTCGAATTACAGT	0.408													34	61					0	0	1	0	0		T	152086764	T	T	152086764	3	4	89	1	0	0	0	0	1	0	0	0	14274	884	31	1	1649	1	SH3D19	4	152086764	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	237092	152086764	39067512	2103	55934											
PET112L	5188	broad.mit.edu	37	chr4	152679967	152679967	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaaaaaaagaaaccaaaGaatttggaggtgctgaaaag	21	6	9	5	0	1	3	1	1	0	2	1	4	1	4	1	2	2	1	1	2	8	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:152679967G>T	uc003iml.2	-	2	296	c.284C>A	c.(283-285)TCT>TAT	p.S95Y	PET112L_uc003imm.3_Missense_Mutation_p.S95Y	NM_004564	NP_004555	O75879	GATB_HUMAN	PET112-like precursor	95						mitochondrion	ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor|translation factor activity, nucleic acid binding				0	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)			L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	AGAAACCAAAGAATTTGGAGG	0.358													42	113					1.02591e-13	1.14875e-13	1	1	0		T	152679967	T	T	152679967	3	4	89	1	0	0	0	0	1	0	0	0	11753	942	33	5	1437	5	PET112L	4	152679967	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	593203	152679967	38474309	2104	55935											
FBXW7	55294	broad.mit.edu	37	chr4	153332915	153332915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctcagagagcctccagttCgtcgtcttttgctgcccaca	6	12	8	15	2	2	1	1	0	2	1	6	2	3	1	3	0	3	2	3	0	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:153332915C>T	uc003ims.2	-	2	190	c.41G>A	c.(40-42)CGA>CAA	p.R14Q	FBXW7_uc011cii.1_Missense_Mutation_p.R14Q|FBXW7_uc003imt.2_Missense_Mutation_p.R14Q|FBXW7_uc003imu.2_Missense_Mutation_p.R14Q	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	14					interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				GCCTCCAGTTCGTCGTCTTTT	0.483			Mis|N|D|F		colorectal|endometrial|T-ALL								14	38					0	0	1	0	0		T	153332915	T	T	153332915	3	4	89	1	0	0	0	0	1	0	0	0	5783	884	31	1	2542	1	FBXW7	4	153332915	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	652948	153332915	37821361	2105	55936											
TIGD4	201798	broad.mit.edu	37	chr4	153690733	153690733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtatctaaagcagttattGcctcagattttgatggtaaa	13	14	9	5	0	2	2	1	1	1	1	2	3	2	2	1	1	2	4	1	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:153690733G>A	uc003imy.2	-	2	2206	c.1424C>T	c.(1423-1425)GCA>GTA	p.A475V		NM_145720	NP_663772	Q8IY51	TIGD4_HUMAN	tigger transposable element derived 4	475					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|DNA binding			ovary(1)	1	all_hematologic(180;0.093)					AGCAGTTATTGCCTCAGATTT	0.343													24	34					0	0	1	0	0		A	153690733	A	A	153690733	3	1	89	1	0	0	0	0	1	0	0	0	15923	1319	46	2	118	2	TIGD4	4	153690733	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	357818	153690733	37463543	2106	55937											
TIGD4	201798	broad.mit.edu	37	chr4	153691842	153691842	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacgtaacatcggaccattAactggtacatttagacactg	14	10	8	9	2	0	2	0	0	0	2	1	3	0	3	1	2	3	2	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:153691842A>C	uc003imy.2	-	2	1097	c.315T>G	c.(313-315)GTT>GTG	p.V105V		NM_145720	NP_663772	Q8IY51	TIGD4_HUMAN	tigger transposable element derived 4	105	HTH CENPB-type.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|DNA binding			ovary(1)	1	all_hematologic(180;0.093)					TCGGACCATTAACTGGTACAT	0.383													55	122					0	0	1	0	0		C	153691842	C	C	153691842	2	2	89	1	0	0	0	0	0	0	0	1	15923	349	13	5		5	TIGD4	4	153691842	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1109	153691842	37462434	2107	55938											
FHDC1	85462	broad.mit.edu	37	chr4	153896828	153896828	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgactccagacccagaggCggggacccggaggaaggcgg	10	1	17	13	4	0	2	0	0	0	2	1	6	1	5	4	7	0	0	4	7	1	0	rs144649820		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:153896828C>T	uc003inf.2	+	11	2460	c.2385C>T	c.(2383-2385)GGC>GGT	p.G795G		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	795					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					GACCCAGAGGCGGGGACCCGG	0.612													48	86					0	0	1	0	0		T	153896828	T	T	153896828	2	4	89	1	0	0	0	0	0	0	0	1	5890	755	27	1		1	FHDC1	4	153896828	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	204986	153896828	37257448	2108	55939											
DCHS2	54798	broad.mit.edu	37	chr4	155242229	155242229	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatcatctgcaacaatactaAaatgtaactttccattataa	17	14	2	8	0	2	0	1	0	1	0	3	0	3	0	1	0	4	2	1	0	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:155242229A>C	uc003inw.2	-	14	2957	c.2957T>G	c.(2956-2958)TTT>TGT	p.F986C		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	986	Cadherin 8.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AACAATACTAAAATGTAACTT	0.333													35	46					0	0	1	0	0		C	155242229	C	C	155242229	3	2	89	1	0	0	0	0	1	0	0	0	4291	14	1	5	5841	5	DCHS2	4	155242229	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1345401	155242229	35912047	2109	55940											
DCHS2	54798	broad.mit.edu	37	chr4	155298497	155298497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatttgcccatcatgagggtCgatccggaatgcctgaggtg	8	10	14	9	2	1	2	1	2	0	0	3	5	2	3	3	3	2	0	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:155298497C>T	uc003inw.2	-	3	334	c.334G>A	c.(334-336)GAC>AAC	p.D112N	DCHS2_uc003inx.2_Missense_Mutation_p.D718N	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	112	Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TCATGAGGGTCGATCCGGAAT	0.463													31	59					0	0	1	0	0		T	155298497	T	T	155298497	3	4	89	1	0	0	0	0	1	0	0	0	4291	884	31	1	8604	1	DCHS2	4	155298497	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	56268	155298497	35855779	2110	55941											
FGA	2243	broad.mit.edu	37	chr4	155505592	155505592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcaatcagagcatcacccGcagtgccttcataggaggag	11	7	10	13	1	4	1	4	0	0	1	4	3	4	3	3	2	2	2	3	2	2	2	rs150073296	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:155505592G>A	uc003iod.1	-	6	2343	c.2285C>T	c.(2284-2286)GCG>GTG	p.A762V		NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	762	Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	AGCATCACCCGCAGTGCCTTC	0.542													55	107					0	0	1	0	0		A	155505592	A	A	155505592	3	1	89	1	0	0	0	0	1	0	0	0	5844	1087	38	1	319	1	FGA	4	155505592	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	207095	155505592	35648684	2111	55942											
RBM46	166863	broad.mit.edu	37	chr4	155717946	155717946	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaacaaatggatgcagtaaAgttcgaactggtattcagaa	16	9	11	5	1	1	1	1	0	0	1	2	4	1	3	0	3	3	4	0	3	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:155717946A>C	uc003ioo.2	+	2	215	c.42A>C	c.(40-42)AAA>AAC	p.K14N	RBM46_uc011cim.1_Missense_Mutation_p.K14N|RBM46_uc003iop.1_Missense_Mutation_p.K14N	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	14							nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				GATGCAGTAAAGTTCGAACTG	0.353													13	39					0	0	1	0	0		C	155717946	C	C	155717946	3	2	89	1	0	0	0	0	1	0	0	0	13165	69	3	5	44	5	RBM46	4	155717946	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	212354	155717946	35436330	2112	55943											
RBM46	166863	broad.mit.edu	37	chr4	155720683	155720683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctacgttagaagatgcaaagGaactggcagcccagtttaca	14	8	10	9	1	0	2	0	0	0	2	0	3	0	3	1	2	5	4	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:155720683G>A	uc003ioo.2	+	4	1542	c.1369G>A	c.(1369-1371)GAA>AAA	p.E457K	RBM46_uc011cim.1_Missense_Mutation_p.E457K|RBM46_uc003iop.1_Missense_Mutation_p.E457K	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	457							nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				AGATGCAAAGGAACTGGCAGC	0.323													6	17					0	0	1	0	0		A	155720683	A	A	155720683	3	1	89	1	0	0	0	0	1	0	0	0	13165	1175	41	4	1379	4	RBM46	4	155720683	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2737	155720683	35433593	2113	55944											
MAP9	79884	broad.mit.edu	37	chr4	156281545	156281545	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatttcaaggaattatggttTtcagtgatttcttcatttgg	9	19	9	4	0	4	1	3	1	1	0	4	3	4	2	0	3	0	1	0	3	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:156281545T>G	uc003ios.2	-	7	1089	c.825A>C	c.(823-825)GAA>GAC	p.E275D	MAP9_uc011cin.1_Intron|MAP9_uc010iqa.1_RNA|MAP9_uc003iot.1_Missense_Mutation_p.E274D	NM_001039580	NP_001034669	Q49MG5	MAP9_HUMAN	aster-associated protein	275					cell division|mitosis	cytoplasm|microtubule|spindle				ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.143)		AATTATGGTTTTCAGTGATTT	0.328													16	29					0	0	1	0	0		G	156281545	G	G	156281545	3	3	89	1	0	0	0	0	1	0	0	0	9288	1838	64	5	1150	5	MAP9	4	156281545	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	560862	156281545	34872731	2114	55945											
MAP9	79884	broad.mit.edu	37	chr4	156294541	156294541	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcatcatctgatatatgAaagtcattcatttttttatt	11	21	3	6	0	6	2	4	2	2	0	6	2	6	2	0	0	0	0	0	0	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:156294541A>C	uc003ios.2	-	4	492	c.228T>G	c.(226-228)TTT>TTG	p.F76L	MAP9_uc011cin.1_Missense_Mutation_p.F76L|MAP9_uc010iqa.1_RNA|MAP9_uc003iot.1_Missense_Mutation_p.F76L|MAP9_uc010iqb.1_Missense_Mutation_p.F4L	NM_001039580	NP_001034669	Q49MG5	MAP9_HUMAN	aster-associated protein	76					cell division|mitosis	cytoplasm|microtubule|spindle				ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.143)		CTGATATATGAAAGTCATTCA	0.299													12	24					0	0	1	0	0		C	156294541	C	C	156294541	3	2	89	1	0	0	0	0	1	0	0	0	9288	243	9	5	1759	5	MAP9	4	156294541	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	12996	156294541	34859735	2115	55946											
GUCY1A3	2982	broad.mit.edu	37	chr4	156632398	156632398	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaactctgtgaaaaaatctTcaagggtaaggaaaacataa	20	8	7	6	0	3	1	1	1	2	0	3	2	3	2	0	2	2	1	0	2	9	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:156632398T>G	uc003iov.2	+	7	1617	c.1081T>G	c.(1081-1083)TCA>GCA	p.S361A	GUCY1A3_uc003iou.2_Missense_Mutation_p.S361A|GUCY1A3_uc010iqc.2_Missense_Mutation_p.S361A|GUCY1A3_uc003iow.2_Missense_Mutation_p.S361A|GUCY1A3_uc010iqd.2_Missense_Mutation_p.S360A|GUCY1A3_uc003iox.2_Missense_Mutation_p.S361A|GUCY1A3_uc003ioz.2_Missense_Mutation_p.S126A|GUCY1A3_uc003ioy.2_Missense_Mutation_p.S361A|GUCY1A3_uc010iqe.2_Missense_Mutation_p.S126A|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Missense_Mutation_p.S361A	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	361					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		GAAAAAATCTTCAAGGGTAAG	0.343													24	45					0	0	1	0	0		G	156632398	G	G	156632398	3	3	89	1	0	0	0	0	1	0	0	0	6910	1783	62	5	1095	5	GUCY1A3	4	156632398	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	337857	156632398	34521878	2116	55947											
GUCY1B3	2983	broad.mit.edu	37	chr4	156725805	156725805	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcataggacagcggatgcctCgatactgtctttttgggaat	9	13	11	8	2	2	0	1	0	1	0	3	4	2	3	1	3	3	0	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:156725805C>T	uc003ipc.2	+	12	1782	c.1615C>T	c.(1615-1617)CGA>TGA	p.R539*	GUCY1B3_uc011cio.1_Nonsense_Mutation_p.R561*|GUCY1B3_uc011cip.1_Nonsense_Mutation_p.R519*|GUCY1B3_uc003ipd.2_Nonsense_Mutation_p.R467*|GUCY1B3_uc010iqf.2_Nonsense_Mutation_p.R506*|GUCY1B3_uc010iqg.2_Nonsense_Mutation_p.R510*|GUCY1B3_uc011ciq.1_Nonsense_Mutation_p.R467*	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	539	Guanylate cyclase.				blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		GCGGATGCCTCGATACTGTCT	0.403													23	56					0	0	1	0	0		T	156725805	T	T	156725805	4	4	89	1	0	0	0	0	0	1	0	0	6911	876	31	1	1661	1	GUCY1B3	4	156725805	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	93407	156725805	34428471	2117	55948											
CTSO	1519	broad.mit.edu	37	chr4	156847209	156847209	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacacaaatatagaagaaacGgaatctgcaatacctaaggg	19	6	8	8	1	1	2	0	0	1	2	1	3	1	3	1	2	3	1	1	2	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:156847209G>A	uc003ipg.2	-	8	994	c.945C>T	c.(943-945)TCC>TCT	p.S315S		NM_001334	NP_001325	P43234	CATO_HUMAN	cathepsin O preproprotein	315					proteolysis	lysosome	cysteine-type endopeptidase activity				0	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.05)|Kidney(143;0.0627)|COAD - Colon adenocarcinoma(41;0.148)		TAGAAGAAACGGAATCTGCAA	0.303													7	25					0	0	1	0	0		A	156847209	A	A	156847209	2	1	89	1	0	0	0	0	0	0	0	1	4043	1103	39	1		1	CTSO	4	156847209	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	121404	156847209	34307067	2118	55949											
CTSO	1519	broad.mit.edu	37	chr4	156860584	156860584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcagccataattattatacGaacagtcaatgacctgctgg	13	11	8	9	1	1	1	1	1	0	0	1	2	1	1	2	1	5	2	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:156860584G>A	uc003ipg.2	-	4	540	c.491C>T	c.(490-492)TCG>TTG	p.S164L		NM_001334	NP_001325	P43234	CATO_HUMAN	cathepsin O preproprotein	164					proteolysis	lysosome	cysteine-type endopeptidase activity				0	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.05)|Kidney(143;0.0627)|COAD - Colon adenocarcinoma(41;0.148)		ATTATTATACGAACAGTCAAT	0.463													43	111					0	0	1	0	0		A	156860584	A	A	156860584	3	1	89	1	0	0	0	0	1	0	0	0	4043	1059	37	1	494	1	CTSO	4	156860584	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13375	156860584	34293692	2119	55950											
GRIA2	2891	broad.mit.edu	37	chr4	158257880	158257880	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgcctttatgcagcaaGgatgcgatatttcgccaagg	9	11	13	8	2	0	0	0	0	0	0	1	2	0	1	2	3	4	2	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:158257880G>T	uc003ipm.3	+	11	2284	c.1825G>T	c.(1825-1827)GGA>TGA	p.G609*	GRIA2_uc011cit.1_Nonsense_Mutation_p.G562*|GRIA2_uc003ipl.3_Nonsense_Mutation_p.G609*|GRIA2_uc003ipk.3_Nonsense_Mutation_p.G562*|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	609	Cytoplasmic (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	TATGCAGCAAGGATGCGATAT	0.403													48	105					2.43277e-16	2.79395e-16	1	1	0		T	158257880	T	T	158257880	4	4	89	1	0	0	0	0	0	1	0	0	6784	1001	35	5	1867	5	GRIA2	4	158257880	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1397296	158257880	32896396	2120	55951											
GRIA2	2891	broad.mit.edu	37	chr4	158262455	158262455	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggaggtgtgtggtggttCtttaccctgatcataatctc	6	16	12	7	0	3	1	1	1	2	0	4	2	3	2	1	4	1	2	1	4	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:158262455C>A	uc003ipm.3	+	12	2343	c.1884C>A	c.(1882-1884)TTC>TTA	p.F628L	GRIA2_uc011cit.1_Missense_Mutation_p.F581L|GRIA2_uc003ipl.3_Missense_Mutation_p.F628L|GRIA2_uc003ipk.3_Missense_Mutation_p.F581L|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	628	Helical; (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	TGTGGTGGTTCTTTACCCTGA	0.423													64	113					2.59843e-28	3.15915e-28	1	1	0		A	158262455	A	A	158262455	3	1	89	1	0	0	0	0	1	0	0	0	6784	912	32	5	1930	5	GRIA2	4	158262455	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4575	158262455	32891821	2121	55952											
GRIA2	2891	broad.mit.edu	37	chr4	158262572	158262572	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaagcaaacagaaattgcTtatggaacattagactctgg	15	11	8	7	0	2	2	0	0	2	2	2	3	2	3	0	2	4	2	0	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:158262572T>G	uc003ipm.3	+	12	2460	c.2001T>G	c.(1999-2001)GCT>GCG	p.A667A	GRIA2_uc011cit.1_Silent_p.A620A|GRIA2_uc003ipl.3_Silent_p.A667A|GRIA2_uc003ipk.3_Silent_p.A620A|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	667	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	CAGAAATTGCTTATGGAACAT	0.408													68	104					0	0	1	0	0		G	158262572	G	G	158262572	2	3	89	1	0	0	0	0	0	0	0	1	6784	1596	56	5		5	GRIA2	4	158262572	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	117	158262572	32891704	2122	55953											
RXFP1	59350	broad.mit.edu	37	chr4	159567986	159567986	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttattcgtgatcggaggCtttgacctaaagtttcgtgg	8	16	11	6	3	0	2	0	2	0	0	3	3	0	3	1	3	0	2	1	3	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:159567986C>T	uc003ipz.2	+	16	1471	c.1389C>T	c.(1387-1389)GGC>GGT	p.G463G	RXFP1_uc011cja.1_Silent_p.G358G|RXFP1_uc010iqo.2_Silent_p.G415G|RXFP1_uc011cjb.1_Silent_p.G361G|RXFP1_uc010iqk.2_Silent_p.G331G|RXFP1_uc011cjc.1_Silent_p.G382G|RXFP1_uc011cjd.1_Silent_p.G382G|RXFP1_uc010iql.2_Silent_p.G307G|RXFP1_uc011cje.1_Silent_p.G490G|RXFP1_uc010iqm.2_Silent_p.G430G|RXFP1_uc011cjf.1_Silent_p.G332G|RXFP1_uc010iqn.2_Silent_p.G408G	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	463	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		TGATCGGAGGCTTTGACCTAA	0.403													34	100					0	0	1	0	0		T	159567986	T	T	159567986	2	4	89	1	0	0	0	0	0	0	0	1	13784	784	28	2		2	RXFP1	4	159567986	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1305414	159567986	31586290	2123	55954											
FNIP2	57600	broad.mit.edu	37	chr4	159789335	159789335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagaaggacttagtccagcGaatactttatgtcctgacct	11	11	9	10	1	0	2	0	1	0	1	2	4	2	3	3	1	2	1	3	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:159789335G>A	uc003iqe.3	+	13	1730	c.1547G>A	c.(1546-1548)CGA>CAA	p.R516Q		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	516					DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		TTAGTCCAGCGAATACTTTAT	0.493													50	84					0	0	1	0	0		A	159789335	A	A	159789335	3	1	89	1	0	0	0	0	1	0	0	0	5990	1058	37	1	1597	1	FNIP2	4	159789335	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	221349	159789335	31364941	2124	55955											
RAPGEF2	9693	broad.mit.edu	37	chr4	160235815	160235815	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtggattccgaagacgacGacgatgaagaagacattgag	15	6	13	7	4	0	5	0	2	0	3	1	10	1	6	1	1	0	0	1	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:160235815G>A	uc003iqg.3	+	3	575	c.265G>A	c.(265-267)GAC>AAC	p.D89N		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	89					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		CGAAGACGACGACGATGAAGA	0.478													17	51					0	0	1	0	0		A	160235815	A	A	160235815	3	1	89	1	0	0	0	0	1	0	0	0	13069	1058	37	1	275	1	RAPGEF2	4	160235815	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	446480	160235815	30918461	2125	55956											
RAPGEF2	9693	broad.mit.edu	37	chr4	160252923	160252923	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgagaagggatttggaatcTttgttgacagtgtagattca	11	14	12	4	0	2	3	1	2	1	2	2	6	2	5	0	2	0	2	0	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:160252923T>G	uc003iqg.3	+	9	1544	c.1234T>G	c.(1234-1236)TTT>GTT	p.F412V		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	412	PDZ.				cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		ATTTGGAATCTTTGTTGACAG	0.418													60	136					0	0	1	0	0		G	160252923	G	G	160252923	3	3	89	1	0	0	0	0	1	0	0	0	13069	1609	56	5	1268	5	RAPGEF2	4	160252923	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	17108	160252923	30901353	2126	55957											
FSTL5	56884	broad.mit.edu	37	chr4	162402200	162402200	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttttgggactgcacatcaAcaataaggactctgtccaaa	13	11	7	10	0	2	0	1	0	1	0	3	2	3	2	1	2	2	1	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:162402200A>G	uc003iqh.2	-	13	2016	c.1580T>C	c.(1579-1581)GTT>GCT	p.V527A	FSTL5_uc003iqi.2_Missense_Mutation_p.V526A|FSTL5_uc010iqv.2_Missense_Mutation_p.V517A	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	527						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CTGCACATCAACAATAAGGAC	0.328													49	87					0	0	1	0	0		G	162402200	G	G	162402200	3	3	89	1	0	0	0	0	1	0	0	0	6094	43	2	3	979	3	FSTL5	4	162402200	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2149277	162402200	28752076	2127	55958											
FSTL5	56884	broad.mit.edu	37	chr4	162402250	162402250	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaacataaatgaacttgtcTttgacattaacagctgatgc	14	12	7	8	0	1	3	0	3	1	0	1	3	1	3	0	0	5	2	0	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:162402250T>G	uc003iqh.2	-	13	1966	c.1530A>C	c.(1528-1530)AAA>AAC	p.K510N	FSTL5_uc003iqi.2_Missense_Mutation_p.K509N|FSTL5_uc010iqv.2_Missense_Mutation_p.K500N	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	510						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TGAACTTGTCTTTGACATTAA	0.383													11	159					0	0	1	0	0		G	162402250	G	G	162402250	3	3	89	1	0	0	0	0	1	0	0	0	6094	1606	56	5	1029	5	FSTL5	4	162402250	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	50	162402250	28752026	2128	55959											
FSTL5	56884	broad.mit.edu	37	chr4	162463795	162463795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcacctaagactggcagttaCcccaggctctctagcctgac	9	8	9	15	0	1	2	0	1	1	1	2	2	1	2	4	2	2	4	4	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:162463795C>T	uc003iqh.2	-	9	1502	c.1066G>A	c.(1066-1068)GTA>ATA	p.V356I	FSTL5_uc003iqi.2_Missense_Mutation_p.V355I|FSTL5_uc010iqv.2_Missense_Mutation_p.V355I	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	356	Ig-like 2.					extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CTGGCAGTTACCCCAGGCTCT	0.433													9	83					0	0	1	0	0		T	162463795	T	T	162463795	3	4	89	1	0	0	0	0	1	0	0	0	6094	507	18	4	1509	4	FSTL5	4	162463795	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	61545	162463795	28690481	2129	55960											
NPY1R	4886	broad.mit.edu	37	chr4	164247294	164247294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttgattatcagctgatgtCgttccacagcaatgagaacc	11	11	10	9	1	1	3	1	3	0	1	3	4	2	3	2	1	3	4	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:164247294C>T	uc003iqm.1	-	2	679	c.413G>A	c.(412-414)CGA>CAA	p.R138Q	NPY1R_uc011cjj.1_Intron	NM_000909	NP_000900	P25929	NPY1R_HUMAN	neuropeptide Y receptor Y1	138	Cytoplasmic (Potential).				inhibition of adenylate cyclase activity by G-protein signaling pathway|outflow tract morphogenesis	integral to plasma membrane	protein binding			lung(1)|pancreas(1)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				CAGCTGATGTCGTTCCACAGC	0.443													55	76					0	0	1	0	0		T	164247294	T	T	164247294	3	4	89	1	0	0	0	0	1	0	0	0	10627	884	31	1	749	1	NPY1R	4	164247294	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1783499	164247294	26906982	2130	55961											
TKTL2	84076	broad.mit.edu	37	chr4	164393208	164393208	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgatcctccactgtgataActcggccgcctgtggctttt	6	13	10	12	2	0	2	0	2	0	0	3	2	2	2	4	2	1	1	4	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:164393208A>C	uc003iqp.3	-	1	1840	c.1679T>G	c.(1678-1680)GTT>GGT	p.V560G		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	560						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				CACTGTGATAACTCGGCCGCC	0.517													33	100					0	0	1	0	0		C	164393208	C	C	164393208	3	2	89	1	0	0	0	0	1	0	0	0	15961	43	2	5	205	5	TKTL2	4	164393208	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	145914	164393208	26761068	2131	55962											
TKTL2	84076	broad.mit.edu	37	chr4	164394533	164394533	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccctgttgccacgtcaacAaacggcaatcggggggtagg	10	6	14	11	3	1	0	1	0	0	0	2	1	1	0	2	5	3	3	2	5	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:164394533A>C	uc003iqp.3	-	1	515	c.354T>G	c.(352-354)TTT>TTG	p.F118L		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	118						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				CCACGTCAACAAACGGCAATC	0.537													20	57					0	0	1	0	0		C	164394533	C	C	164394533	3	2	89	1	0	0	0	0	1	0	0	0	15961	127	5	5	1530	5	TKTL2	4	164394533	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1325	164394533	26759743	2132	55963											
TRIM61	391712	broad.mit.edu	37	chr4	165891030	165891030	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtagatccttccaggacAtaatgatgcaggagagacag	14	8	11	8	0	0	3	0	1	0	2	2	6	2	5	2	2	1	2	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:165891030A>G	uc003iqw.2	-	3	736	c.125T>C	c.(124-126)ATG>ACG	p.M42T		NM_001012414	NP_001012414	Q5EBN2	TRI61_HUMAN	tripartite motif-containing 61	42	RING-type.					intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.109)		GBM - Glioblastoma multiforme(119;0.155)		CTTCCAGGACATAATGATGCA	0.488													19	74					0	0	1	0	0		G	165891030	G	G	165891030	3	3	89	1	0	0	0	0	1	0	0	0	16562	217	8	3	512	3	TRIM61	4	165891030	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1496497	165891030	25263246	2133	55964											
TMEM192	201931	broad.mit.edu	37	chr4	166021968	166021968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcaatgggtttgtgtaatttCctgggcacttgtcctcattt	6	18	9	8	0	2	0	2	0	0	0	4	0	4	0	2	2	0	3	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:166021968C>T	uc003iqz.3	-	3	350	c.251G>A	c.(250-252)GGA>GAA	p.G84E		NM_001100389	NP_001093859	Q8IY95	TM192_HUMAN	transmembrane protein 192	84	Lumenal (Potential).					Golgi apparatus|integral to membrane|late endosome|lysosomal membrane|nucleus				skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0926)		TGTGTAATTTCCTGGGCACTT	0.398													14	54					0	0	1	0	0		T	166021968	T	T	166021968	3	4	89	1	0	0	0	0	1	0	0	0	16140	855	30	4	580	4	TMEM192	4	166021968	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	130938	166021968	25132308	2134	55965											
KLHL2	11275	broad.mit.edu	37	chr4	166141156	166141156	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaaaaacactgcccagtgAcagtgaatccttggcatatg	13	8	9	11	1	0	2	0	2	0	0	1	3	1	2	3	1	2	1	3	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:166141156A>G	uc003irb.2	+	2	356	c.97A>G	c.(97-99)ACA>GCA	p.T33A	KLHL2_uc011cjm.1_Missense_Mutation_p.T37A|KLHL2_uc003irc.2_5'UTR	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	33					intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		CTGCCCAGTGACAGTGAATCC	0.373													14	54					0	0	1	0	0		G	166141156	G	G	166141156	3	3	89	1	0	0	0	0	1	0	0	0	8390	275	10	3	145	3	KLHL2	4	166141156	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	119188	166141156	25013120	2135	55966											
KLHL2	11275	broad.mit.edu	37	chr4	166232625	166232625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttattataggtttgtcatCtgtggaagcatacaacataa	13	15	7	6	0	2	0	1	0	1	0	2	1	2	1	0	2	3	2	0	2	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:166232625C>T	uc003irb.2	+	11	1506	c.1247C>T	c.(1246-1248)TCT>TTT	p.S416F	KLHL2_uc011cjm.1_Missense_Mutation_p.S420F|KLHL2_uc003irc.2_Missense_Mutation_p.S328F|KLHL2_uc010ira.2_Missense_Mutation_p.S69F	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	416	Kelch 3.				intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		GGTTTGTCATCTGTGGAAGCA	0.368													52	97					0	0	1	0	0		T	166232625	T	T	166232625	3	4	89	1	0	0	0	0	1	0	0	0	8390	913	32	4	1331	4	KLHL2	4	166232625	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	91469	166232625	24921651	2136	55967											
CPE	1363	broad.mit.edu	37	chr4	166403472	166403472	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaatctccatggaggaGaccttgtggccaattatcca	10	10	9	12	0	1	1	0	0	1	1	3	3	2	2	5	3	1	0	5	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:166403472G>T	uc003irg.3	+	4	1028	c.751G>T	c.(751-753)GAC>TAC	p.D251Y		NM_001873	NP_001864	P16870	CBPE_HUMAN	carboxypeptidase E preproprotein	251					cardiac left ventricle morphogenesis|neuropeptide signaling pathway|protein modification process	extracellular region|nucleus|plasma membrane	metallocarboxypeptidase activity|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0962)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.137)	Glucagon recombinant(DB00040)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CCATGGAGGAGACCTTGTGGC	0.403													40	70					6.45866e-13	7.18389e-13	1	1	0		T	166403472	T	T	166403472	3	4	89	1	0	0	0	0	1	0	0	0	3802	942	33	5	765	5	CPE	4	166403472	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	170847	166403472	24750804	2137	55968											
TLL1	7092	broad.mit.edu	37	chr4	166999181	166999181	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggccaccgaatcaaatTagtaagtgagcacatccttt	12	11	7	11	1	1	1	1	1	0	0	3	2	3	1	4	1	1	2	4	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:166999181T>G	uc003irh.1	+	18	3088	c.2441T>G	c.(2440-2442)TTA>TGA	p.L814*	TLL1_uc011cjn.1_Nonsense_Mutation_p.L837*|TLL1_uc011cjo.1_Nonsense_Mutation_p.L638*	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	814	CUB 4.				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		CGAATCAAATTAGTAAGTGAG	0.453													20	34					0	0	1	0	0		G	166999181	G	G	166999181	4	3	89	1	0	0	0	0	0	1	0	0	15970	1768	61	5	2511	5	TLL1	4	166999181	Nonsense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	595709	166999181	24155095	2138	55969											
DDX60	55601	broad.mit.edu	37	chr4	169194428	169194428	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttattaattaaaataccctAcctgacagtttaaggcatca	15	13	4	9	0	1	1	1	1	0	0	1	1	1	1	2	1	2	2	2	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:169194428A>G	uc003irp.2	-	18	2866	c.2574_splice	c.e18+1	p.Q858_splice		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60								ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		AAAATACCCTACCTGACAGTT	0.353													22	39					0	0	1	0	0		G	169194428	G	G	169194428	5	3	89	1	0	0	0	0	0	0	1	0	4381	405	14	3	2646	3	DDX60	4	169194428	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2195247	169194428	21959848	2139	55970											
DDX60	55601	broad.mit.edu	37	chr4	169197322	169197322	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagctatacttaaatctttCgtggttttaccttgataaac	12	16	5	8	1	1	1	0	1	1	0	2	1	1	1	1	1	4	2	1	1	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:169197322C>T	uc003irp.2	-	15	2281	c.1989G>A	c.(1987-1989)ACG>ACA	p.T663T		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	663							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		TTAAATCTTTCGTGGTTTTAC	0.328													13	33					0	0	1	0	0		T	169197322	T	T	169197322	2	4	89	1	0	0	0	0	0	0	0	1	4381	871	31	1		1	DDX60	4	169197322	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2894	169197322	21956954	2140	55971											
DDX60L	91351	broad.mit.edu	37	chr4	169305863	169305863	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgtcctctcagctcaggaAcactggatgcaaggagtctt	10	10	10	11	0	3	0	2	0	2	0	5	3	4	3	1	3	3	2	1	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:169305863A>G	uc003irq.3	-	30	4237	c.4016T>C	c.(4015-4017)GTT>GCT	p.V1339A		NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	1339	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		CAGCTCAGGAACACTGGATGC	0.498													16	20					0	0	1	0	0		G	169305863	G	G	169305863	3	3	89	1	0	0	0	0	1	0	0	0	4382	43	2	3	1140	3	DDX60L	4	169305863	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	108541	169305863	21848413	2141	55972											
NEK1	4750	broad.mit.edu	37	chr4	170428878	170428878	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctataccttcagtgattcGatttttttgcgcctcatgtc	6	18	7	10	2	3	1	2	1	1	0	5	2	3	1	2	0	2	0	2	0	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:170428878G>A	uc003isb.1	-	20	2307	c.1815C>T	c.(1813-1815)ATC>ATT	p.I605I	NEK1_uc003isc.1_Silent_p.I561I|NEK1_uc003isd.1_Silent_p.I633I|NEK1_uc003ise.1_Silent_p.I589I|NEK1_uc003isf.1_Silent_p.I536I	NM_012224	NP_036356	Q96PY6	NEK1_HUMAN	NIMA-related kinase 1	605					cell division|cilium assembly|mitosis	nucleus|pericentriolar material	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(3)|ovary(2)|large_intestine(1)	6		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)|KIRC - Kidney renal clear cell carcinoma(143;0.0325)|Kidney(143;0.0385)|LUSC - Lung squamous cell carcinoma(193;0.14)		TCAGTGATTCGATTTTTTTGC	0.338													13	30					0	0	1	0	0		A	170428878	A	A	170428878	2	1	89	1	0	0	0	0	0	0	0	1	10340	1048	37	1		1	NEK1	4	170428878	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1123015	170428878	20725398	2142	55973											
MFAP3L	9848	broad.mit.edu	37	chr4	170913428	170913428	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggataccttggtgatgtTcaggaggccgctgtcgtgca	8	10	15	8	2	1	1	1	1	0	0	2	4	1	3	2	4	2	3	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:170913428T>C	uc003isp.3	-	3	509	c.331A>G	c.(331-333)AAC>GAC	p.N111D	MFAP3L_uc003isn.3_Missense_Mutation_p.N8D	NM_021647	NP_067679	O75121	MFA3L_HUMAN	microfibrillar-associated protein 3-like isoform	111	Extracellular (Potential).|Ig-like C2-type.					integral to membrane|plasma membrane				ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0201)|LUSC - Lung squamous cell carcinoma(193;0.116)		TTGGTGATGTTCAGGAGGCCG	0.498													29	82					0	0	1	0	0		C	170913428	C	C	170913428	3	2	89	1	0	0	0	0	1	0	0	0	9534	1783	62	3	902	3	MFAP3L	4	170913428	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	484550	170913428	20240848	2143	55974											
GALNTL6	442117	broad.mit.edu	37	chr4	173930333	173930333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcttctttccacagatccGaaatgtggcagcaaatctct	10	14	6	11	1	3	1	0	0	3	1	6	2	5	1	2	1	1	2	2	1	2	3	rs146923140		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:173930333G>A	uc003isv.2	+	11	2112	c.1376G>A	c.(1375-1377)CGA>CAA	p.R459Q		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	459	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						CCACAGATCCGAAATGTGGCA	0.443													19	67					0	0	1	0	0		A	173930333	A	A	173930333	3	1	89	1	0	0	0	0	1	0	0	0	6240	1058	37	1	1414	1	GALNTL6	4	173930333	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3016905	173930333	17223943	2144	55975											
SAP30	8819	broad.mit.edu	37	chr4	174294593	174294593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacttaattcagagtgttcGaaacagaagaaagagaaaag	21	7	9	4	1	1	4	1	0	0	4	2	6	1	4	0	0	2	1	0	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:174294593G>A	uc003itd.2	+	2	609	c.368G>A	c.(367-369)CGA>CAA	p.R123Q		NM_003864	NP_003855	O75446	SAP30_HUMAN	Sin3A-associated protein, 30kDa	123	Interaction with NCOR1 (By similarity).				transcription, DNA-dependent	histone deacetylase complex	DNA binding|metal ion binding|protein binding|transcription corepressor activity			ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0837)|all_hematologic(60;0.107)		all cancers(43;1.15e-17)|Epithelial(43;4.33e-16)|OV - Ovarian serous cystadenocarcinoma(60;6.62e-09)|STAD - Stomach adenocarcinoma(60;0.00278)|GBM - Glioblastoma multiforme(59;0.00659)|LUSC - Lung squamous cell carcinoma(193;0.0919)		CAGAGTGTTCGAAACAGAAGA	0.348													36	75					0	0	1	0	0		A	174294593	A	A	174294593	3	1	89	1	0	0	0	0	1	0	0	0	13858	1058	37	1	374	1	SAP30	4	174294593	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	364260	174294593	16859683	2145	55976											
SAP30	8819	broad.mit.edu	37	chr4	174298430	174298430	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttcatctactcagtgaaGaatgacaagaacaaatcaga	18	10	6	7	0	4	5	3	2	1	3	4	5	4	5	0	0	2	0	0	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:174298430G>T	uc003itd.2	+	4	856	c.615G>T	c.(613-615)AAG>AAT	p.K205N		NM_003864	NP_003855	O75446	SAP30_HUMAN	Sin3A-associated protein, 30kDa	205	Interaction with SIN3A (By similarity).				transcription, DNA-dependent	histone deacetylase complex	DNA binding|metal ion binding|protein binding|transcription corepressor activity			ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0837)|all_hematologic(60;0.107)		all cancers(43;1.15e-17)|Epithelial(43;4.33e-16)|OV - Ovarian serous cystadenocarcinoma(60;6.62e-09)|STAD - Stomach adenocarcinoma(60;0.00278)|GBM - Glioblastoma multiforme(59;0.00659)|LUSC - Lung squamous cell carcinoma(193;0.0919)		ACTCAGTGAAGAATGACAAGA	0.343													39	93					3.78316e-11	4.13718e-11	1	1	0		T	174298430	T	T	174298430	3	4	89	1	0	0	0	0	1	0	0	0	13858	933	33	5	629	5	SAP30	4	174298430	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3837	174298430	16855846	2146	55977											
WDR17	116966	broad.mit.edu	37	chr4	177067147	177067147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccattgatgatatttcagaGacatgatagccactggctgt	11	13	9	8	0	1	4	1	3	0	1	2	5	2	4	2	1	1	1	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:177067147G>A	uc003iuj.2	+	13	1759	c.1603G>A	c.(1603-1605)GAC>AAC	p.D535N	WDR17_uc003iuk.2_Missense_Mutation_p.D511N|WDR17_uc003ium.3_Missense_Mutation_p.D511N|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	535	WD 9.									ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		ATATTTCAGAGACATGATAGC	0.313													8	43					0	0	1	0	0		A	177067147	A	A	177067147	3	1	89	1	0	0	0	0	1	0	0	0	17303	956	33	4	1649	4	WDR17	4	177067147	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2768717	177067147	14087129	2147	55978											
SPATA4	132851	broad.mit.edu	37	chr4	177105979	177105979	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtttcatagcagagtaataAgaatgttgtccagcttgctt	11	14	10	6	0	1	2	1	0	0	2	2	2	2	2	1	1	3	6	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:177105979A>C	uc003iuo.1	-	6	979	c.870T>G	c.(868-870)TCT>TCG	p.S290S		NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4	290					apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)		CAGAGTAATAAGAATGTTGTC	0.373													28	70					0	0	1	0	0		C	177105979	C	C	177105979	2	2	89	1	0	0	0	0	0	0	0	1	15035	59	3	5		5	SPATA4	4	177105979	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	38832	177105979	14048297	2148	55979											
SPATA4	132851	broad.mit.edu	37	chr4	177109304	177109304	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcttcctcttttaactttTaaattatatctgcgcccaga	10	17	3	11	1	3	1	0	0	3	1	4	1	4	1	2	0	2	0	2	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:177109304T>G	uc003iuo.1	-	5	880	c.771A>C	c.(769-771)TTA>TTC	p.L257F		NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4	257					apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)		TTTTAACTTTTAAATTATATC	0.338													20	42					0	0	1	0	0		G	177109304	G	G	177109304	3	3	89	1	0	0	0	0	1	0	0	0	15035	1751	61	5	154	5	SPATA4	4	177109304	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3325	177109304	14044972	2149	55980											
SPATA4	132851	broad.mit.edu	37	chr4	177113869	177113869	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggtcagcatgttgggattGcttagtaattctgataacct	9	16	10	6	0	2	1	1	1	1	0	2	2	2	2	1	2	3	4	1	2	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:177113869G>A	uc003iuo.1	-	4	706	c.597C>T	c.(595-597)AGC>AGT	p.S199S		NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4	199					apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)		TGTTGGGATTGCTTAGTAATT	0.373													18	44					0	0	1	0	0		A	177113869	A	A	177113869	2	1	89	1	0	0	0	0	0	0	0	1	15035	1310	46	2		2	SPATA4	4	177113869	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4565	177113869	14040407	2150	55981											
ASB5	140458	broad.mit.edu	37	chr4	177136836	177136836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggttttcctatgtagcttCggatacagagtcggcaaagt	9	14	11	7	2	0	1	0	0	0	1	3	2	1	2	1	3	2	4	1	3	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:177136836C>T	uc003iuq.1	-	7	921	c.905G>A	c.(904-906)CGA>CAA	p.R302Q	ASB5_uc003iup.1_Missense_Mutation_p.R249Q	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	302	SOCS box.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		TATGTAGCTTCGGATACAGAG	0.353													18	31					0	0	1	0	0		T	177136836	T	T	177136836	3	4	89	1	0	0	0	0	1	0	0	0	1027	884	31	1	88	1	ASB5	4	177136836	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	22967	177136836	14017440	2151	55982											
SPCS3	60559	broad.mit.edu	37	chr4	177243323	177243323	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttatctttattcctagaaAaaatgtagaagatttcactg	14	17	5	5	0	2	3	1	0	1	3	3	3	3	3	1	0	0	1	1	0	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:177243323A>C	uc003iur.3	+	2	284	c.146A>C	c.(145-147)AAA>ACA	p.K49T		NM_021928	NP_068747	P61009	SPCS3_HUMAN	signal peptidase complex subunit 3	49	Lumenal (Potential).				energy reserve metabolic process|regulation of insulin secretion|signal peptide processing	integral to membrane|microsome|signal peptidase complex	peptidase activity			ovary(1)	1		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.43e-19)|Epithelial(43;1.84e-16)|OV - Ovarian serous cystadenocarcinoma(60;4.51e-09)|GBM - Glioblastoma multiforme(59;0.000142)|STAD - Stomach adenocarcinoma(60;0.00279)|LUSC - Lung squamous cell carcinoma(193;0.0319)		ATTCCTAGAAAAAATGTAGAA	0.333													17	30					0	0	1	0	0		C	177243323	C	C	177243323	3	2	89	1	0	0	0	0	1	0	0	0	15050	14	1	5	152	5	SPCS3	4	177243323	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	106487	177243323	13910953	2152	55983											
VEGFC	7424	broad.mit.edu	37	chr4	177649045	177649045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaaagaaggtgtttgtcgCgactccaaactccttcccca	10	12	7	12	2	0	1	0	0	0	1	4	2	3	1	4	1	1	1	4	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:177649045C>T	uc003ius.1	-	3	869	c.439G>A	c.(439-441)GCG>ACG	p.A147T		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	147					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		GTGTTTGTCGCGACTCCAAAC	0.493													28	69					0	0	1	0	0		T	177649045	T	T	177649045	3	4	89	1	0	0	0	0	1	0	0	0	17178	768	27	1	843	1	VEGFC	4	177649045	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	405722	177649045	13505231	2153	55984											
VEGFC	7424	broad.mit.edu	37	chr4	177650885	177650885	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtaactgctcctccagatCtttgcttgcataagcctgtc	7	13	7	14	1	1	1	0	0	1	1	4	1	3	1	4	0	5	4	4	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:177650885C>A	uc003ius.1	-	2	593	c.163G>T	c.(163-165)GAT>TAT	p.D55Y		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	55					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		TCCTCCAGATCTTTGCTTGCA	0.393													16	46					5.01169e-05	5.14484e-05	1	1	0		A	177650885	A	A	177650885	3	1	89	1	0	0	0	0	1	0	0	0	17178	913	32	5	1123	5	VEGFC	4	177650885	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1840	177650885	13503391	2154	55985											
AGA	175	broad.mit.edu	37	chr4	178354419	178354419	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccccaaagaattctggaaAatgcttctggattcttgaaa	14	11	8	8	0	3	2	0	1	3	1	3	4	3	4	2	2	2	1	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:178354419A>C	uc003iuu.1	-	8	951	c.889T>G	c.(889-891)TTT>GTT	p.F297V	AGA_uc010irt.1_Intron	NM_000027	NP_000018	P20933	ASPG_HUMAN	aspartylglucosaminidase precursor	297					asparagine catabolic process via L-aspartate|protein deglycosylation|protein maturation	endoplasmic reticulum|intermediate filament cytoskeleton|lysosome|microtubule cytoskeleton	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0		all_lung(41;1.27e-09)|Lung NSC(41;1.1e-08)|Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Hepatocellular(41;0.148)|all_neural(102;0.164)|Colorectal(36;0.245)		all cancers(43;1.37e-22)|Epithelial(43;3.86e-20)|OV - Ovarian serous cystadenocarcinoma(60;3.8e-11)|Colorectal(24;6.98e-05)|GBM - Glioblastoma multiforme(59;0.000362)|COAD - Colon adenocarcinoma(29;0.000462)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0328)|READ - Rectum adenocarcinoma(43;0.163)		AATTCTGGAAAATGCTTCTGG	0.383													63	126					0	0	1	0	0		C	178354419	C	C	178354419	3	2	89	1	0	0	0	0	1	0	0	0	365	14	1	5	159	5	AGA	4	178354419	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	703534	178354419	12799857	2155	55986											
ODZ3	55714	broad.mit.edu	37	chr4	183714517	183714517	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtgatctaccgttatgacgGcctgggaaggcgtgtttcta	8	12	13	8	3	2	2	0	2	2	0	2	3	2	3	2	3	1	2	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:183714517G>T	uc003ivd.1	+	25	6729	c.6692G>T	c.(6691-6693)GGC>GTC	p.G2231V		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2231	YD 22.|Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CGTTATGACGGCCTGGGAAGG	0.463													24	37					1.64293e-13	1.8379e-13	1	1	0		T	183714517	T	T	183714517	3	4	89	1	0	0	0	0	1	0	0	0	10855	1203	42	5	6790	5	ODZ3	4	183714517	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5360098	183714517	7439759	2156	55987											
WWC2	80014	broad.mit.edu	37	chr4	184205450	184205450	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgccccaaagagcgcagcagCctgagctctagacagcatcc	11	4	10	16	2	1	3	0	1	1	2	2	3	2	3	4	0	5	4	4	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:184205450C>T	uc010irx.2	+	19	3137	c.2955C>T	c.(2953-2955)AGC>AGT	p.S985S	WWC2_uc003ivk.3_Silent_p.S780S|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_Silent_p.S667S|WWC2_uc003ivn.3_Silent_p.S500S|WWC2_uc010irz.2_Silent_p.S326S|WWC2_uc003ivo.3_Silent_p.S113S	NM_024949	NP_079225	Q6AWC2	WWC2_HUMAN	WW and C2 domain containing 2	985										ovary(2)|lung(1)	3		all_lung(41;5.28e-14)|Lung NSC(41;1.35e-13)|Colorectal(36;0.00681)|Hepatocellular(41;0.00886)|Renal(120;0.00992)|Prostate(90;0.0237)|all_hematologic(60;0.0592)|Esophageal squamous(56;0.179)|all_neural(102;0.202)		all cancers(43;3.38e-24)|Epithelial(43;1.4e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.09e-09)|GBM - Glioblastoma multiforme(59;3.33e-05)|Colorectal(24;3.58e-05)|STAD - Stomach adenocarcinoma(60;4.21e-05)|COAD - Colon adenocarcinoma(29;0.000171)|LUSC - Lung squamous cell carcinoma(40;0.0145)|READ - Rectum adenocarcinoma(43;0.242)		AGCGCAGCAGCCTGAGCTCTA	0.488													29	68					0	0	1	0	0		T	184205450	T	T	184205450	2	4	89	1	0	0	0	0	0	0	0	1	17438	738	26	2		2	WWC2	4	184205450	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	490933	184205450	6948826	2157	55988											
CLDN22	53842	broad.mit.edu	37	chr4	184240709	184240709	+	Nonstop_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacgcttgtcctttctggcTtagtgtttcaggttggtgtt	4	18	12	7	1	2	1	1	0	1	1	3	1	3	1	1	3	0	5	1	3	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:184240709T>G	uc010isa.1	-	1	1219	c.663A>C	c.(661-663)TAA>TAC	p.*221Y	WWC2_uc010irx.2_3'UTR|WWC2_uc003ivk.3_3'UTR|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_3'UTR|WWC2_uc003ivn.3_3'UTR|WWC2_uc010irz.2_3'UTR|WWC2_uc003ivo.3_3'UTR	NM_001111319	NP_001104789	Q8N7P3	CLD22_HUMAN	claudin 22	221					calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0		all_lung(41;6.9e-12)|Lung NSC(41;1.28e-11)|Colorectal(36;0.0172)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|Esophageal squamous(56;0.176)		all cancers(43;4.1e-26)|Epithelial(43;6.45e-22)|OV - Ovarian serous cystadenocarcinoma(60;7.64e-10)|Colorectal(24;5.87e-06)|GBM - Glioblastoma multiforme(59;6.5e-06)|STAD - Stomach adenocarcinoma(60;2.09e-05)|COAD - Colon adenocarcinoma(29;5.15e-05)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		CCTTTCTGGCTTAGTGTTTCA	0.507													90	217					0	0	1	0	0		G	184240709	G	G	184240709	4	3	89	1	0	0	0	0	0	0	0	0	3486	1616	56	5	3	5	CLDN22	4	184240709	Nonstop_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	35259	184240709	6913567	2158	55989											
STOX2	56977	broad.mit.edu	37	chr4	184931772	184931772	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcaactcttgtccaacaaAaacagccacagatgactatt	16	9	4	12	0	2	2	1	1	1	1	3	2	3	2	2	0	4	0	2	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:184931772A>G	uc003ivz.1	+	3	3216	c.1781A>G	c.(1780-1782)AAA>AGA	p.K594R	STOX2_uc003iwa.1_Missense_Mutation_p.K283R	NM_020225	NP_064610	Q9P2F5	STOX2_HUMAN	storkhead box 2	594					embryo development|maternal placenta development						0		all_lung(41;1.89e-12)|Lung NSC(41;3.48e-12)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|all_hematologic(60;0.027)|Prostate(90;0.0283)		all cancers(43;2.85e-26)|Epithelial(43;2.27e-22)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-10)|Colorectal(24;8.23e-06)|GBM - Glioblastoma multiforme(59;1.64e-05)|STAD - Stomach adenocarcinoma(60;3.6e-05)|COAD - Colon adenocarcinoma(29;4.37e-05)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.227)		TGTCCAACAAAAACAGCCACA	0.522													22	37					0	0	1	0	0		G	184931772	G	G	184931772	3	3	89	1	0	0	0	0	1	0	0	0	15345	14	1	3	1791	3	STOX2	4	184931772	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	691063	184931772	6222504	2159	55990											
IRF2	3660	broad.mit.edu	37	chr4	185340688	185340688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcccacccatgtctagccGcatgcatccaggggatctga	9	8	9	15	1	2	1	0	1	2	0	4	2	4	2	4	2	2	2	4	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:185340688G>A	uc003iwf.3	-	3	322	c.122C>T	c.(121-123)GCG>GTG	p.A41V		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	41	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		ATGTCTAGCCGCATGCATCCA	0.423													29	86					0	0	1	0	0		A	185340688	A	A	185340688	3	1	89	1	0	0	0	0	1	0	0	0	7844	1087	38	1	955	1	IRF2	4	185340688	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	408916	185340688	5813588	2160	55991											
HELT	391723	broad.mit.edu	37	chr4	185940639	185940639	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagtgcccatggccttggcGaagcaggtaacgttggcgac	9	7	14	11	3	0	0	0	0	0	0	0	2	0	0	2	4	3	3	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:185940639G>A	uc011ckq.1	+	2	258	c.258G>A	c.(256-258)GCG>GCA	p.A86A	HELT_uc011cko.1_Silent_p.A42A|HELT_uc003ixa.3_Silent_p.A42A|HELT_uc011ckp.1_5'UTR	NM_001029887	NP_001025058	A6NFD8	HELT_HUMAN	HES/HEY-like transcription factor	86	Helix-loop-helix motif.						DNA binding				0		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;8.92e-26)|Epithelial(43;3.02e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-11)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		TGGCCTTGGCGAAGCAGGTAA	0.632													5	11					0	0	1	0	0		A	185940639	A	A	185940639	2	1	89	1	0	0	0	0	0	0	0	1	7064	1045	37	1		1	HELT	4	185940639	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	599951	185940639	5213637	2161	55992											
SNX25	83891	broad.mit.edu	37	chr4	186244746	186244746	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggagagcaaagaaatatCtgtggaaaaatcactttaca	17	10	9	5	0	2	2	1	0	1	2	2	4	2	3	0	2	2	1	0	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:186244746C>A	uc003ixh.2	+	9	1238	c.1049C>A	c.(1048-1050)TCT>TAT	p.S350Y	SNX25_uc010ish.2_Missense_Mutation_p.S121Y|SNX25_uc003ixi.2_Translation_Start_Site	NM_031953	NP_114159	Q9H3E2	SNX25_HUMAN	sorting nexin 25	350	RGS.				cell communication|protein transport	endosome membrane	phosphatidylinositol binding|signal transducer activity			ovary(2)|breast(2)|pancreas(1)	5		all_lung(41;1.03e-13)|Lung NSC(41;2.5e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00886)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;2.13e-24)|Epithelial(43;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.6e-11)|BRCA - Breast invasive adenocarcinoma(30;0.00013)|Colorectal(24;0.000165)|GBM - Glioblastoma multiforme(59;0.000357)|COAD - Colon adenocarcinoma(29;0.000887)|STAD - Stomach adenocarcinoma(60;0.00118)|LUSC - Lung squamous cell carcinoma(40;0.0129)|READ - Rectum adenocarcinoma(43;0.228)		AAAGAAATATCTGTGGAAAAA	0.318													25	62					4.7796e-09	5.11423e-09	1	1	0		A	186244746	A	A	186244746	3	1	89	1	0	0	0	0	1	0	0	0	14921	913	32	5	1079	5	SNX25	4	186244746	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	304107	186244746	4909530	2162	55993											
SNX25	83891	broad.mit.edu	37	chr4	186272701	186272701	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgacgtgcaggggaaaaaaAattctttttcattatcctca	13	13	7	8	2	3	0	2	0	1	0	5	2	4	1	1	2	1	1	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:186272701A>C	uc003ixh.2	+	14	2101	c.1912A>C	c.(1912-1914)AAT>CAT	p.N638H	SNX25_uc010ish.2_Intron|SNX25_uc003ixi.2_Missense_Mutation_p.N142H	NM_031953	NP_114159	Q9H3E2	SNX25_HUMAN	sorting nexin 25	638					cell communication|protein transport	endosome membrane	phosphatidylinositol binding|signal transducer activity			ovary(2)|breast(2)|pancreas(1)	5		all_lung(41;1.03e-13)|Lung NSC(41;2.5e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00886)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;2.13e-24)|Epithelial(43;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.6e-11)|BRCA - Breast invasive adenocarcinoma(30;0.00013)|Colorectal(24;0.000165)|GBM - Glioblastoma multiforme(59;0.000357)|COAD - Colon adenocarcinoma(29;0.000887)|STAD - Stomach adenocarcinoma(60;0.00118)|LUSC - Lung squamous cell carcinoma(40;0.0129)|READ - Rectum adenocarcinoma(43;0.228)		GGGGAAAAAAAATTCTTTTTC	0.438													34	65					0	0	1	0	0		C	186272701	C	C	186272701	3	2	89	1	0	0	0	0	1	0	0	0	14921	14	1	5	1962	5	SNX25	4	186272701	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	27955	186272701	4881575	2163	55994											
SNX25	83891	broad.mit.edu	37	chr4	186278858	186278858	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagaacattaattgcccTcgttcaggtcacttttggaa	12	12	9	8	1	2	2	2	0	0	2	3	4	2	3	1	2	2	1	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:186278858T>G	uc003ixh.2	+	16	2315	c.2126T>G	c.(2125-2127)CTC>CGC	p.L709R	SNX25_uc010ish.2_Missense_Mutation_p.L425R|SNX25_uc003ixi.2_Missense_Mutation_p.L213R	NM_031953	NP_114159	Q9H3E2	SNX25_HUMAN	sorting nexin 25	709					cell communication|protein transport	endosome membrane	phosphatidylinositol binding|signal transducer activity			ovary(2)|breast(2)|pancreas(1)	5		all_lung(41;1.03e-13)|Lung NSC(41;2.5e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00886)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;2.13e-24)|Epithelial(43;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.6e-11)|BRCA - Breast invasive adenocarcinoma(30;0.00013)|Colorectal(24;0.000165)|GBM - Glioblastoma multiforme(59;0.000357)|COAD - Colon adenocarcinoma(29;0.000887)|STAD - Stomach adenocarcinoma(60;0.00118)|LUSC - Lung squamous cell carcinoma(40;0.0129)|READ - Rectum adenocarcinoma(43;0.228)		TTAATTGCCCTCGTTCAGGTC	0.378													25	62					0	0	1	0	0		G	186278858	G	G	186278858	3	3	89	1	0	0	0	0	1	0	0	0	14921	1551	54	5	2184	5	SNX25	4	186278858	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6157	186278858	4875418	2164	55995											
LRP2BP	55805	broad.mit.edu	37	chr4	186288369	186288369	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataagtaaggagtgaagttCatctgccaatgcgggattca	14	10	11	6	1	3	1	2	1	1	0	3	3	3	3	1	2	2	2	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:186288369C>A	uc003ixj.1	-	8	1821	c.1009G>T	c.(1009-1011)GAA>TAA	p.E337*	SNX25_uc003ixi.2_Intron|LRP2BP_uc003ixk.1_Nonsense_Mutation_p.E311*|LRP2BP_uc011ckr.1_Nonsense_Mutation_p.E337*	NM_018409	NP_060879	Q9P2M1	LR2BP_HUMAN	LRP2 binding protein	337						cytoplasm	protein binding				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;2.14e-25)|Epithelial(43;1.55e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-11)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000766)|Colorectal(24;0.00116)|LUSC - Lung squamous cell carcinoma(40;0.00904)|COAD - Colon adenocarcinoma(29;0.0101)|READ - Rectum adenocarcinoma(43;0.161)		GAGTGAAGTTCATCTGCCAAT	0.313													48	102					1.46357e-32	1.79619e-32	1	1	0		A	186288369	A	A	186288369	4	1	89	1	0	0	0	0	0	1	0	0	8975	835	29	5	38	5	LRP2BP	4	186288369	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9511	186288369	4865907	2165	55996											
CCDC110	256309	broad.mit.edu	37	chr4	186380271	186380271	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttacttaacttagactgAatagtactcttttcttcaac	11	18	4	8	0	3	2	1	1	2	1	3	2	3	2	0	0	4	2	0	0	7	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:186380271A>C	uc003ixu.3	-	6	1546	c.1470T>G	c.(1468-1470)ATT>ATG	p.I490M	CCDC110_uc003ixv.3_Missense_Mutation_p.I453M|CCDC110_uc011ckt.1_Missense_Mutation_p.I490M	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	490	Potential.					nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		ACTTAGACTGAATAGTACTCT	0.279													9	46					0	0	1	0	0		C	186380271	C	C	186380271	3	2	89	1	0	0	0	0	1	0	0	0	2750	242	9	5	1039	5	CCDC110	4	186380271	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	91902	186380271	4774005	2166	55997											
CCDC110	256309	broad.mit.edu	37	chr4	186381000	186381000	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgaagctcttctttcatTtgtttgatagaatggcaaat	10	19	7	5	0	3	3	1	2	2	1	3	3	3	3	0	1	1	3	0	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:186381000T>G	uc003ixu.3	-	6	817	c.741A>C	c.(739-741)CAA>CAC	p.Q247H	CCDC110_uc003ixv.3_Missense_Mutation_p.Q210H|CCDC110_uc011ckt.1_Missense_Mutation_p.Q247H	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	247						nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		CTTCTTTCATTTGTTTGATAG	0.348													46	88					0	0	1	0	0		G	186381000	G	G	186381000	3	3	89	1	0	0	0	0	1	0	0	0	2750	1838	64	5	1768	5	CCDC110	4	186381000	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	729	186381000	4773276	2167	55998											
SORBS2	8470	broad.mit.edu	37	chr4	186536109	186536109	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctttctcaggaggtgtgAgtttctatgaaggaaatagt	10	14	13	4	0	2	2	1	2	2	0	3	4	2	4	0	3	1	2	0	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:186536109A>C	uc003iyl.2	-	17	3617	c.2759T>G	c.(2758-2760)CTC>CGC	p.L920R	SORBS2_uc003iyh.2_Missense_Mutation_p.L644R|SORBS2_uc011ckw.1_Missense_Mutation_p.L481R|SORBS2_uc003iyi.2_Missense_Mutation_p.L551R|SORBS2_uc011ckx.1_Missense_Mutation_p.L486R|SORBS2_uc003iyk.2_Missense_Mutation_p.L464R|SORBS2_uc003iym.2_Missense_Mutation_p.L1020R|SORBS2_uc003iyn.1_Missense_Mutation_p.L511R|SORBS2_uc011cku.1_Missense_Mutation_p.L312R|SORBS2_uc011ckv.1_Missense_Mutation_p.L824R|SORBS2_uc003iyd.2_Missense_Mutation_p.L619R|SORBS2_uc003iye.2_Missense_Mutation_p.L493R|SORBS2_uc003iya.2_Missense_Mutation_p.L440R|SORBS2_uc003iyb.2_Missense_Mutation_p.L393R|SORBS2_uc003iyc.2_Missense_Mutation_p.L373R|SORBS2_uc003iyg.2_Missense_Mutation_p.L1034R|SORBS2_uc003iyf.2_Missense_Mutation_p.L456R|SORBS2_uc003iyo.1_Missense_Mutation_p.L369R	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	920	SH3 1.					actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		AGGAGGTGTGAGTTTCTATGA	0.493													29	75					0	0	1	0	0		C	186536109	C	C	186536109	3	2	89	1	0	0	0	0	1	0	0	0	14953	304	11	5	563	5	SORBS2	4	186536109	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	155109	186536109	4618167	2168	55999											
TLR3	7098	broad.mit.edu	37	chr4	187003649	187003649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagcaatacaactttcttggGactaaagtggacaaatctca	15	10	7	9	0	2	0	1	0	2	0	3	2	2	2	0	2	3	1	0	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:187003649G>A	uc003iyq.2	+	4	910	c.809G>A	c.(808-810)GGA>GAA	p.G270E	TLR3_uc011ckz.1_5'UTR|TLR3_uc003iyr.2_5'UTR	NM_003265	NP_003256	O15455	TLR3_HUMAN	toll-like receptor 3 precursor	270	LRR 9.|Lumenal (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|defense response to bacterium|defense response to virus|detection of virus|hyperosmotic response|I-kappaB phosphorylation|inflammatory response|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of osteoclast differentiation|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|toll-like receptor 3 signaling pathway	endoplasmic reticulum membrane|endosome membrane|integral to plasma membrane	double-stranded RNA binding|transmembrane receptor activity			ovary(2)|prostate(1)|lung(1)|breast(1)	5		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		ACTTTCTTGGGACTAAAGTGG	0.413													31	66					0	0	1	0	0		A	187003649	A	A	187003649	3	1	89	1	0	0	0	0	1	0	0	0	15977	1174	41	4	819	4	TLR3	4	187003649	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	467540	187003649	4150627	2169	56000											
FAM149A	25854	broad.mit.edu	37	chr4	187088351	187088351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagcagtcggatacgcctcGaaaaagttcattgacacaaa	15	7	8	11	3	1	1	1	1	0	0	3	3	1	2	2	1	2	2	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:187088351G>A	uc003iyt.3	+	13	1889	c.1310G>A	c.(1309-1311)CGA>CAA	p.R437Q	FAM149A_uc011cla.1_Missense_Mutation_p.R437Q|FAM149A_uc003iyu.3_Missense_Mutation_p.R437Q|FAM149A_uc010isl.2_Missense_Mutation_p.R437Q|FAM149A_uc011clb.1_Missense_Mutation_p.R436Q	NM_015398	NP_056213	A5PLN7	F149A_HUMAN	hypothetical protein LOC25854	728										breast(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.19e-10)|BRCA - Breast invasive adenocarcinoma(30;1.22e-05)|GBM - Glioblastoma multiforme(59;0.000122)|STAD - Stomach adenocarcinoma(60;0.000288)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.166)		GATACGCCTCGAAAAAGTTCA	0.353													52	92					0	0	1	0	0		A	187088351	A	A	187088351	3	1	89	1	0	0	0	0	1	0	0	0	5466	1058	37	1	1348	1	FAM149A	4	187088351	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	84702	187088351	4065925	2170	56001											
MTNR1A	4543	broad.mit.edu	37	chr4	187455635	187455635	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccacccgttgttaaatatCgacatcagcaccaacgggta	12	10	7	12	3	1	0	1	0	0	0	3	1	2	0	3	1	2	4	3	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:187455635C>T	uc003izd.1	-	2	279	c.261G>A	c.(259-261)TCG>TCA	p.S87S		NM_005958	NP_005949	P48039	MTR1A_HUMAN	melatonin receptor 1A	87	Extracellular (Potential).				circadian rhythm|G-protein signaling, coupled to cyclic nucleotide second messenger|mating behavior	integral to plasma membrane	melatonin receptor activity			ovary(1)|skin(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5		all_cancers(14;6.39e-56)|all_epithelial(14;1.48e-41)|all_lung(41;2.45e-15)|Lung NSC(41;7.26e-15)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00335)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|Renal(120;0.0183)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;7.63e-12)|BRCA - Breast invasive adenocarcinoma(30;6.68e-07)|GBM - Glioblastoma multiforme(59;3.44e-05)|LUSC - Lung squamous cell carcinoma(40;0.000106)|STAD - Stomach adenocarcinoma(60;0.000279)|READ - Rectum adenocarcinoma(43;0.159)	Melatonin(DB01065)|Ramelteon(DB00980)	TGTTAAATATCGACATCAGCA	0.507													27	55					0	0	1	0	0		T	187455635	T	T	187455635	2	4	89	1	0	0	0	0	0	0	0	1	9969	871	31	1		1	MTNR1A	4	187455635	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	367284	187455635	3698641	2171	56002											
FAT1	2195	broad.mit.edu	37	chr4	187517847	187517847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggttaaaagtgctgaattCgggatgctctgggatagcag	10	10	16	5	1	1	1	0	1	1	0	2	3	1	3	0	4	3	4	0	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:187517847C>T	uc003izf.2	-	25	13035	c.12847G>A	c.(12847-12849)GAA>AAA	p.E4283K	FAT1_uc010isn.2_5'Flank|FAT1_uc003ize.2_Missense_Mutation_p.E174K	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4283	Cytoplasmic (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GTGCTGAATTCGGGATGCTCT	0.557										HNSCC(5;0.00058)			17	24					0	0	1	0	0		T	187517847	T	T	187517847	3	4	89	1	0	0	0	0	1	0	0	0	5703	893	31	1	931	1	FAT1	4	187517847	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	62212	187517847	3636429	2172	56003											
FAT1	2195	broad.mit.edu	37	chr4	187524488	187524488	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtttctggaatacattcAgtatcctaactccaatgatt	13	14	6	8	0	2	2	1	1	1	1	4	3	4	3	2	1	2	2	2	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:187524488A>C	uc003izf.2	-	19	11380	c.11192T>G	c.(11191-11193)CTG>CGG	p.L3731R		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3731	Extracellular (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GAATACATTCAGTATCCTAAC	0.453										HNSCC(5;0.00058)			17	21					0	0	1	0	0		C	187524488	C	C	187524488	3	2	89	1	0	0	0	0	1	0	0	0	5703	188	7	5	2610	5	FAT1	4	187524488	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	6641	187524488	3629788	2173	56004											
FAT1	2195	broad.mit.edu	37	chr4	187524871	187524871	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattgccctatgtctagcttTttgtgtgctatcagcttgcc	5	18	8	10	0	2	0	1	0	1	0	2	0	2	0	2	0	5	3	2	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:187524871T>G	uc003izf.2	-	19	10997	c.10809A>C	c.(10807-10809)AAA>AAC	p.K3603N		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3603	Extracellular (Potential).|Cadherin 33.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TGTCTAGCTTTTTGTGTGCTA	0.498										HNSCC(5;0.00058)			26	32					0	0	1	0	0		G	187524871	G	G	187524871	3	3	89	1	0	0	0	0	1	0	0	0	5703	1838	64	5	2993	5	FAT1	4	187524871	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	383	187524871	3629405	2174	56005											
FAT1	2195	broad.mit.edu	37	chr4	187532563	187532563	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttagaatctatgctgaatTtcccatgttcatttccactt	9	19	4	9	0	2	2	1	1	1	1	4	2	4	2	2	0	1	2	2	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:187532563T>G	uc003izf.2	-	14	10018	c.9830A>C	c.(9829-9831)AAA>ACA	p.K3277T		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3277	Extracellular (Potential).|Cadherin 30.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TATGCTGAATTTCCCATGTTC	0.388										HNSCC(5;0.00058)			16	28					0	0	1	0	0		G	187532563	G	G	187532563	3	3	89	1	0	0	0	0	1	0	0	0	5703	1841	64	5	3992	5	FAT1	4	187532563	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	7692	187532563	3621713	2175	56006											
FAT1	2195	broad.mit.edu	37	chr4	187541629	187541629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctcacgatcgaagggCgtgccagtggttgacagaac	9	8	14	10	3	1	2	1	1	0	1	2	4	1	2	1	2	4	3	1	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:187541629C>T	uc003izf.2	-	10	6299	c.6111G>A	c.(6109-6111)ACG>ACA	p.T2037T		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2037	Extracellular (Potential).|Cadherin 18.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GATCGAAGGGCGTGCCAGTGG	0.488										HNSCC(5;0.00058)			76	190					0	0	1	0	0		T	187541629	T	T	187541629	2	4	89	1	0	0	0	0	0	0	0	1	5703	755	27	1		1	FAT1	4	187541629	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9066	187541629	3612647	2176	56007											
FAT1	2195	broad.mit.edu	37	chr4	187542860	187542860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catactccgcttggttacttCgatctaattctttggcagtt	7	17	7	10	2	2	0	0	0	2	0	4	1	3	0	1	2	2	4	1	2	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:187542860C>T	uc003izf.2	-	10	5068	c.4880G>A	c.(4879-4881)CGA>CAA	p.R1627Q		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1627	Extracellular (Potential).|Cadherin 14.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TTGGTTACTTCGATCTAATTC	0.368										HNSCC(5;0.00058)			11	21					0	0	1	0	0		T	187542860	T	T	187542860	3	4	89	1	0	0	0	0	1	0	0	0	5703	884	31	1	8958	1	FAT1	4	187542860	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1231	187542860	3611416	2177	56008											
FAT1	2195	broad.mit.edu	37	chr4	187549793	187549793	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtttgtttttctcatccTgatccacagcactgatttgc	7	18	6	10	0	1	2	1	2	1	0	4	2	3	2	2	0	2	3	2	0	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:187549793T>G	uc003izf.2	-	8	4636	c.4448A>C	c.(4447-4449)CAG>CCG	p.Q1483P		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1483	Extracellular (Potential).|Cadherin 13.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TTTCTCATCCTGATCCACAGC	0.408										HNSCC(5;0.00058)			18	54					0	0	1	0	0		G	187549793	G	G	187549793	3	3	89	1	0	0	0	0	1	0	0	0	5703	1580	55	5	9398	5	FAT1	4	187549793	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6933	187549793	3604483	2178	56009											
TRIML2	205860	broad.mit.edu	37	chr4	189012796	189012796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagacccagagagtccactCggtccccatcaccgaccccg	10	4	9	18	3	1	2	1	0	0	2	4	5	3	2	7	1	0	0	7	1	1	0	rs150210586		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr4:189012796C>T	uc003izl.2	-	7	931	c.895G>A	c.(895-897)GAG>AAG	p.E299K	TRIML2_uc003izj.1_Missense_Mutation_p.E127K|TRIML2_uc003izk.1_Missense_Mutation_p.E107K|TRIML2_uc011cle.1_Missense_Mutation_p.E374K	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	299	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		AGAGTCCACTCGGTCCCCATC	0.577													57	156					0	0	1	0	0		T	189012796	T	T	189012796	3	4	89	1	0	0	0	0	1	0	0	0	16577	893	31	1	272	1	TRIML2	4	189012796	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1463003	189012796	2141480	2179	56010											
PLEKHG4B	153478	broad.mit.edu	37	chr5	156256	156256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaagacccactgcttgtgtCtctcaggctggaggggggca	7	8	16	10	0	2	1	1	0	1	1	3	3	2	3	1	6	1	3	1	6	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:156256C>T	uc003jak.2	+	8	1261	c.1211C>T	c.(1210-1212)TCT>TTT	p.S404F		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	404					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		CTGCTTGTGTCTCTCAGGCTG	0.592													27	35					0	0	1	0	0		T	156256	T	T	156256	3	4	89	1	0	0	0	0	1	0	0	0	12091	913	32	4	1241	4	PLEKHG4B	5	156256	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08		156256	180759004	2180	56011											
TERT	7015	broad.mit.edu	37	chr5	1272354	1272354	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctcctgcaggtgagccacGaactgtcgcatgtacggctg	7	9	13	12	3	1	1	0	1	1	0	3	2	1	1	2	2	4	4	2	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:1272354G>A	uc003jcb.1	-	7	2386	c.2328C>T	c.(2326-2328)TTC>TTT	p.F776F	TERT_uc003jbz.1_Intron|TERT_uc003jca.1_Silent_p.F764F|TERT_uc003jcc.1_Silent_p.F776F|TERT_uc003jcd.1_Intron|TERT_uc003jce.1_Intron	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	776	Reverse transcriptase.				anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GGTGAGCCACGAACTGTCGCA	0.657									TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				8	17					0	0	1	0	0		A	1272354	A	A	1272354	2	1	89	1	0	0	0	0	0	0	0	1	15789	1049	37	1		1	TERT	5	1272354	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1116098	1272354	179642906	2181	56012											
CLPTM1L	81037	broad.mit.edu	37	chr5	1334416	1334416	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgactcacatggaacgctgcGacaaagaaggtcagcgccag	13	5	12	11	3	2	2	2	1	0	1	2	4	2	3	1	2	3	1	1	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:1334416G>A	uc003jch.2	-	7	925	c.879C>T	c.(877-879)GTC>GTT	p.V293V	CLPTM1L_uc003jcg.2_Silent_p.V160V	NM_030782	NP_110409	Q96KA5	CLP1L_HUMAN	CLPTM1-like	293	Helical; (Potential).				apoptosis	integral to membrane				breast(1)|central_nervous_system(1)	2	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		GGAACGCTGCGACAAAGAAGG	0.547													14	34					0	0	1	0	0		A	1334416	A	A	1334416	2	1	89	1	0	0	0	0	0	0	0	1	3558	1045	37	1		1	CLPTM1L	5	1334416	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	62062	1334416	179580844	2182	56013											
LPCAT1	79888	broad.mit.edu	37	chr5	1474721	1474721	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctaaaaggcaagtgtcagCggggagacggagctgtcctt	10	9	14	8	2	2	1	1	0	1	1	3	3	3	2	1	4	2	2	1	4	3	3	rs138573338		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:1474721C>T	uc003jcm.2	-	10	1096	c.979G>A	c.(979-981)GCT>ACT	p.A327T		NM_024830	NP_079106	Q8NF37	PCAT1_HUMAN	lysophosphatidylcholine acyltransferase 1	327	Lumenal (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(19;0.0274)|all cancers(22;0.0534)	GBM - Glioblastoma multiforme(108;0.156)		CAAGTGTCAGCGGGGAGACGG	0.607													16	20					0	0	1	0	0		T	1474721	T	T	1474721	3	4	89	1	0	0	0	0	1	0	0	0	8928	768	27	1	645	1	LPCAT1	5	1474721	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	140305	1474721	179440539	2183	56014											
ADAMTS16	170690	broad.mit.edu	37	chr5	5239839	5239839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctggagcccggagtatccGcatctatgaaatgaacgtct	10	11	10	10	3	3	2	0	2	3	0	4	4	4	4	2	2	2	2	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:5239839G>A	uc003jdl.2	+	16	2462	c.2324G>A	c.(2323-2325)CGC>CAC	p.R775H	ADAMTS16_uc003jdk.1_Missense_Mutation_p.R775H	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	775	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CGGAGTATCCGCATCTATGAA	0.502													50	91					0	0	1	0	0		A	5239839	A	A	5239839	3	1	89	1	0	0	0	0	1	0	0	0	261	1087	38	1	2386	1	ADAMTS16	5	5239839	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3765118	5239839	175675421	2184	56015											
KIAA0947	23379	broad.mit.edu	37	chr5	5460963	5460963	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaccattcataaactcactCgaggtctatgcattgagaga	14	10	8	9	1	3	3	2	1	1	2	4	5	3	3	1	1	2	1	1	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:5460963C>T	uc003jdm.3	+	13	1738	c.1516C>T	c.(1516-1518)CGA>TGA	p.R506*		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	506										ovary(1)|central_nervous_system(1)	2						TAAACTCACTCGAGGTCTATG	0.448													41	66					0	0	1	0	0		T	5460963	T	T	5460963	4	4	89	1	0	0	0	0	0	1	0	0	8218	876	31	1	1566	1	KIAA0947	5	5460963	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	221124	5460963	175454297	2185	56016											
KIAA0947	23379	broad.mit.edu	37	chr5	5461150	5461150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagtttactaagtggacacGaattaatgaaatcacttctg	15	12	8	6	1	2	2	1	1	1	1	2	4	2	3	0	1	1	1	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:5461150G>A	uc003jdm.3	+	13	1925	c.1703G>A	c.(1702-1704)CGA>CAA	p.R568Q		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	568										ovary(1)|central_nervous_system(1)	2						AAGTGGACACGAATTAATGAA	0.388													72	122					0	0	1	0	0		A	5461150	A	A	5461150	3	1	89	1	0	0	0	0	1	0	0	0	8218	1058	37	1	1753	1	KIAA0947	5	5461150	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	187	5461150	175454110	2186	56017											
KIAA0947	23379	broad.mit.edu	37	chr5	5461831	5461831	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttcatggcaccatagtgAtttattaaggaaaggtggcg	12	12	11	6	1	1	1	1	1	0	0	1	2	1	2	1	4	1	1	1	4	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:5461831A>G	uc003jdm.3	+	13	2606	c.2384A>G	c.(2383-2385)GAT>GGT	p.D795G		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	795										ovary(1)|central_nervous_system(1)	2						CACCATAGTGATTTATTAAGG	0.388													11	16					0	0	1	0	0		G	5461831	G	G	5461831	3	3	89	1	0	0	0	0	1	0	0	0	8218	333	12	3	2434	3	KIAA0947	5	5461831	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	681	5461831	175453429	2187	56018											
NSUN2	54888	broad.mit.edu	37	chr5	6623341	6623341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctaccttatgatgaggccGcacgttgaggagcagtggtg	8	10	15	8	2	0	3	0	3	0	0	0	4	0	4	2	3	3	4	2	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:6623341G>A	uc003jdu.2	-	5	588	c.523C>T	c.(523-525)CGG>TGG	p.R175W	NSUN2_uc003jdt.2_5'Flank|NSUN2_uc011cmk.1_Missense_Mutation_p.R140W|NSUN2_uc003jdv.2_5'UTR	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	175						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						TGATGAGGCCGCACGTTGAGG	0.408													29	50					0	0	1	0	0		A	6623341	A	A	6623341	3	1	89	1	0	0	0	0	1	0	0	0	10697	1086	38	1	1840	1	NSUN2	5	6623341	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1161510	6623341	174291919	2188	56019											
ADCY2	108	broad.mit.edu	37	chr5	7789775	7789775	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgaatattactgtaggttAgacttcttatggaagaacaa	16	13	8	4	0	1	3	0	1	1	2	1	4	1	4	0	2	2	2	0	2	10	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:7789775A>G	uc003jdz.1	+	20	2557	c.2490A>G	c.(2488-2490)TTA>TTG	p.L830L	ADCY2_uc011cmo.1_Silent_p.L650L|ADCY2_uc010itm.1_Silent_p.L26L	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	830	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						ACTGTAGGTTAGACTTCTTAT	0.448													42	65					0	0	1	0	0		G	7789775	G	G	7789775	2	3	89	1	0	0	0	0	0	0	0	1	294	417	15	3		3	ADCY2	5	7789775	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1166434	7789775	173125485	2189	56020											
SEMA5A	9037	broad.mit.edu	37	chr5	9227037	9227037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccacaggtgaataaccggtCgccacccaccagaagcaccc	12	3	8	18	2	0	2	0	1	0	1	1	2	0	2	6	2	2	1	6	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:9227037C>T	uc003jek.2	-	7	1088	c.376G>A	c.(376-378)GAC>AAC	p.D126N		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	126	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						AATAACCGGTCGCCACCCACC	0.393													13	71					0	0	1	0	0		T	9227037	T	T	9227037	3	4	89	1	0	0	0	0	1	0	0	0	14062	884	31	1	2916	1	SEMA5A	5	9227037	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1437262	9227037	171688223	2190	56021											
CTNND2	1501	broad.mit.edu	37	chr5	11082831	11082831	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctccttatttctgacgTccaaggccatgttccgcagc	7	12	9	13	2	1	2	0	2	1	0	4	2	4	2	4	1	2	3	4	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:11082831T>C	uc003jfa.1	-	16	2910	c.2765A>G	c.(2764-2766)GAC>GGC	p.D922G	CTNND2_uc010itt.2_Missense_Mutation_p.D831G|CTNND2_uc011cmy.1_Missense_Mutation_p.D585G|CTNND2_uc011cmz.1_Missense_Mutation_p.D489G|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.D514G	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	922					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						ATTTCTGACGTCCAAGGCCAT	0.522													29	78					0	0	1	0	0		C	11082831	C	C	11082831	3	2	89	1	0	0	0	0	1	0	0	0	4023	1667	58	3	940	3	CTNND2	5	11082831	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1855794	11082831	169832429	2191	56022											
DNAH5	1767	broad.mit.edu	37	chr5	13708403	13708403	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcctgaggaaaatgttCataggctggaatggccccat	10	10	11	10	0	1	1	1	1	0	0	2	3	2	3	4	4	1	2	4	4	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:13708403C>A	uc003jfd.2	-	76	13209	c.13167G>T	c.(13165-13167)ATG>ATT	p.M4389I	DNAH5_uc003jfc.2_Missense_Mutation_p.M557I	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4389					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GGAAAATGTTCATAGGCTGGA	0.458									Kartagener_syndrome				50	83					1.39843e-22	1.66947e-22	1	1	0		A	13708403	A	A	13708403	3	1	89	1	0	0	0	0	1	0	0	0	4610	826	29	5	723	5	DNAH5	5	13708403	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2625572	13708403	167206857	2192	56023											
DNAH5	1767	broad.mit.edu	37	chr5	13753355	13753355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaattacctggagttcatttCggctttctttatttttaatc	9	20	5	7	1	2	0	1	0	1	0	4	1	2	1	1	2	1	2	1	2	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:13753355C>T	uc003jfd.2	-	63	10901	c.10859G>A	c.(10858-10860)CGA>CAA	p.R3620Q	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3620	AAA 5 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GAGTTCATTTCGGCTTTCTTT	0.333									Kartagener_syndrome				36	23					0	0	1	0	0		T	13753355	T	T	13753355	3	4	89	1	0	0	0	0	1	0	0	0	4610	884	31	1	3083	1	DNAH5	5	13753355	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44952	13753355	167161905	2193	56024											
DNAH5	1767	broad.mit.edu	37	chr5	13762932	13762932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatacgcgtttagcagtttCgatgttatagtcaggcattt	10	15	9	7	3	1	0	1	0	0	0	2	1	1	0	0	1	2	5	0	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:13762932C>T	uc003jfd.2	-	60	10222	c.10180G>A	c.(10180-10182)GAA>AAA	p.E3394K	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3394	Stalk (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTAGCAGTTTCGATGTTATAG	0.373									Kartagener_syndrome				22	60					0	0	1	0	0		T	13762932	T	T	13762932	3	4	89	1	0	0	0	0	1	0	0	0	4610	893	31	1	3774	1	DNAH5	5	13762932	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9577	13762932	167152328	2194	56025											
DNAH5	1767	broad.mit.edu	37	chr5	13769652	13769652	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttgtagctccttttctttCgcttccagttctttactcaa	6	19	4	12	1	3	0	1	0	2	0	6	0	5	0	2	0	2	4	2	0	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:13769652C>T	uc003jfd.2	-	57	9720	c.9678G>A	c.(9676-9678)GCG>GCA	p.A3226A	DNAH5_uc003jfc.2_5'Flank	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3226	Stalk (By similarity).|Potential.				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CCTTTTCTTTCGCTTCCAGTT	0.433									Kartagener_syndrome				56	122					0	0	1	0	0		T	13769652	T	T	13769652	2	4	89	1	0	0	0	0	0	0	0	1	4610	871	31	1		1	DNAH5	5	13769652	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6720	13769652	167145608	2195	56026											
DNAH5	1767	broad.mit.edu	37	chr5	13769697	13769697	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaacagactctgaagcttcTttgagcttttccaatccagt	10	13	7	11	0	2	3	0	2	2	1	4	3	4	3	2	0	3	3	2	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:13769697T>G	uc003jfd.2	-	57	9675	c.9633A>C	c.(9631-9633)AAA>AAC	p.K3211N	DNAH5_uc003jfc.2_5'Flank	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3211	Stalk (By similarity).|Potential.				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CTGAAGCTTCTTTGAGCTTTT	0.433									Kartagener_syndrome				52	108					0	0	1	0	0		G	13769697	G	G	13769697	3	3	89	1	0	0	0	0	1	0	0	0	4610	1606	56	5	4333	5	DNAH5	5	13769697	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	45	13769697	167145563	2196	56027											
DNAH5	1767	broad.mit.edu	37	chr5	13811916	13811916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctgcttcttgaggtgagCgtttcttaagaaaaccctgt	8	16	9	8	1	3	3	0	2	3	1	3	3	3	3	1	1	3	2	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:13811916C>T	uc003jfd.2	-	44	7289	c.7247G>A	c.(7246-7248)CGC>CAC	p.R2416H		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2416	AAA 2 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTGAGGTGAGCGTTTCTTAAG	0.393									Kartagener_syndrome				20	57					0	0	1	0	0		T	13811916	T	T	13811916	3	4	89	1	0	0	0	0	1	0	0	0	4610	768	27	1	6771	1	DNAH5	5	13811916	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	42219	13811916	167103344	2197	56028											
DNAH5	1767	broad.mit.edu	37	chr5	13850896	13850896	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgatcttcacccaagatTtatctatgttagaaaaccgc	13	13	5	10	1	4	3	2	1	2	2	4	3	4	3	2	0	1	1	2	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:13850896T>G	uc003jfd.2	-	31	5021	c.4979A>C	c.(4978-4980)AAA>ACA	p.K1660T		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1660	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CACCCAAGATTTATCTATGTT	0.463									Kartagener_syndrome				39	84					0	0	1	0	0		G	13850896	G	G	13850896	3	3	89	1	0	0	0	0	1	0	0	0	4610	1841	64	5	9091	5	DNAH5	5	13850896	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	38980	13850896	167064364	2198	56029											
DNAH5	1767	broad.mit.edu	37	chr5	13865867	13865867	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctatttacagtttctatgAcactgttgtacagagtatat	12	16	7	6	0	1	2	0	1	1	1	1	2	1	2	0	0	3	5	0	0	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:13865867A>G	uc003jfd.2	-	27	4307	c.4265T>C	c.(4264-4266)GTC>GCC	p.V1422A		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1422	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGTTTCTATGACACTGTTGTA	0.333									Kartagener_syndrome				21	36					0	0	1	0	0		G	13865867	G	G	13865867	3	3	89	1	0	0	0	0	1	0	0	0	4610	275	10	3	9821	3	DNAH5	5	13865867	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	14971	13865867	167049393	2199	56030											
DNAH5	1767	broad.mit.edu	37	chr5	13914039	13914039	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattttgtttaagcttttgtTttgtcttgtgaaagcagagc	8	19	10	4	0	1	2	0	1	1	1	1	3	1	2	0	0	3	4	0	0	2	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:13914039T>G	uc003jfd.2	-	11	1391	c.1349A>C	c.(1348-1350)AAA>ACA	p.K450T	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	450	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AAGCTTTTGTTTTGTCTTGTG	0.318									Kartagener_syndrome				13	36					0	0	1	0	0		G	13914039	G	G	13914039	3	3	89	1	0	0	0	0	1	0	0	0	4610	1841	64	5	12801	5	DNAH5	5	13914039	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	48172	13914039	167001221	2200	56031											
DNAH5	1767	broad.mit.edu	37	chr5	13923469	13923469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taccccagtaagagccacatCgtttccctcggtcacgaaca	11	8	7	15	3	1	1	1	0	0	1	4	2	2	1	4	1	3	2	4	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:13923469C>T	uc003jfd.2	-	4	400	c.358G>A	c.(358-360)GAT>AAT	p.D120N	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	120	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGAGCCACATCGTTTCCCTCG	0.458									Kartagener_syndrome				63	156					0	0	1	0	0		T	13923469	T	T	13923469	3	4	89	1	0	0	0	0	1	0	0	0	4610	884	31	1	13820	1	DNAH5	5	13923469	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9430	13923469	166991791	2201	56032											
TRIO	7204	broad.mit.edu	37	chr5	14462881	14462881	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagagaggccggaacgagggCctgagcagcggtactctctc	9	5	15	12	3	1	2	0	1	1	1	3	5	1	3	2	4	4	2	2	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:14462881C>T	uc003jff.2	+	36	5520	c.5514C>T	c.(5512-5514)GGC>GGT	p.G1838G	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Silent_p.G1487G|TRIO_uc003jfi.1_Silent_p.G141G	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1838					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GGAACGAGGGCCTGAGCAGCG	0.592													37	94					0	0	1	0	0		T	14462881	T	T	14462881	2	4	89	1	0	0	0	0	0	0	0	1	16578	726	26	2		2	TRIO	5	14462881	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	539412	14462881	166452379	2202	56033											
FBXL7	23194	broad.mit.edu	37	chr5	15928442	15928442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgtctcatgctggaaaccGtaactgtcagtggctgcagg	8	11	13	9	1	2	0	2	0	1	0	3	1	2	1	1	3	4	4	1	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:15928442G>A	uc003jfn.1	+	3	1052	c.571G>A	c.(571-573)GTA>ATA	p.V191I		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	191	LRR 1.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						GCTGGAAACCGTAACTGTCAG	0.627													12	23					0	0	1	0	0		A	15928442	A	A	15928442	3	1	89	1	0	0	0	0	1	0	0	0	5738	1145	40	1	581	1	FBXL7	5	15928442	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1465561	15928442	164986818	2203	56034											
ZNF622	90441	broad.mit.edu	37	chr5	16465454	16465454	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttcttttcattcatcatCtccactttccgattcactgc	8	17	3	13	1	6	0	4	0	2	0	8	1	7	0	2	0	1	1	2	0	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:16465454C>A	uc003jfq.2	-	1	441	c.321G>T	c.(319-321)GAG>GAT	p.E107D		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	107						cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						CATTCATCATCTCCACTTTCC	0.552													36	89					3.62531e-18	4.23176e-18	1	1	0		A	16465454	A	A	16465454	3	1	89	1	0	0	0	0	1	0	0	0	18071	912	32	5	1136	5	ZNF622	5	16465454	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	537012	16465454	164449806	2204	56035											
MYO10	4651	broad.mit.edu	37	chr5	16671611	16671611	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagtaaagtttgaagtagaAtttccatggcaggtccccaa	13	10	10	8	0	0	2	0	1	0	1	2	2	2	2	3	2	0	5	3	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:16671611A>C	uc003jft.3	-	38	5818	c.5350T>G	c.(5350-5352)TTC>GTC	p.F1784V	MYO10_uc011cnb.1_Missense_Mutation_p.F413V|MYO10_uc011cnc.1_Missense_Mutation_p.F663V|MYO10_uc011cnd.1_Missense_Mutation_p.F1141V|MYO10_uc011cne.1_Missense_Mutation_p.F1141V|MYO10_uc010itx.2_Missense_Mutation_p.F1406V	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1784	FERM.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						TTGAAGTAGAATTTCCATGGC	0.473													15	43					0	0	1	0	0		C	16671611	C	C	16671611	3	2	89	1	0	0	0	0	1	0	0	0	10080	101	4	5	842	5	MYO10	5	16671611	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	206157	16671611	164243649	2205	56036											
MYO10	4651	broad.mit.edu	37	chr5	16794857	16794857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgcccaggtggcgccggCtgtactgctccatggtggca	4	8	15	14	3	0	0	0	0	0	0	2	0	1	0	3	5	2	5	3	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:16794857C>T	uc003jft.3	-	4	833	c.365G>A	c.(364-366)AGC>AAC	p.S122N	MYO10_uc003jfu.2_Missense_Mutation_p.S89N	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	122	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						GTGGCGCCGGCTGTACTGCTC	0.647													7	19					0	0	1	0	0		T	16794857	T	T	16794857	3	4	89	1	0	0	0	0	1	0	0	0	10080	797	28	2	5963	2	MYO10	5	16794857	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	123246	16794857	164120403	2206	56037											
CDH18	1016	broad.mit.edu	37	chr5	19747052	19747052	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaatgatttttcttaccCatatctgacatttcaggcac	13	14	4	10	0	3	2	1	2	2	0	3	2	3	2	1	1	1	1	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:19747052C>A	uc003jgc.2	-	3	899	c.522G>T	c.(520-522)ATG>ATT	p.M174I	CDH18_uc003jgd.2_Missense_Mutation_p.M174I|CDH18_uc011cnm.1_Missense_Mutation_p.M174I	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	174	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TTTTCTTACCCATATCTGACA	0.308													29	59					1.74807e-11	1.91857e-11	1	1	0		A	19747052	A	A	19747052	3	1	89	1	0	0	0	0	1	0	0	0	3106	608	21	5	1890	5	CDH18	5	19747052	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2952195	19747052	161168208	2207	56038											
CDH12	1010	broad.mit.edu	37	chr5	21752079	21752079	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcctgtagcctttgatGaatgaaatcccttatgtctg	9	17	7	8	0	1	3	0	3	1	0	3	3	3	3	3	0	1	1	3	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:21752079G>T	uc010iuc.2	-	12	2610	c.2152C>A	c.(2152-2154)CAT>AAT	p.H718N	CDH12_uc011cno.1_Missense_Mutation_p.H678N|CDH12_uc003jgk.2_Missense_Mutation_p.H718N|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	718	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						AGCCTTTGATGAATGAAATCC	0.478										HNSCC(59;0.17)			27	78					9.39395e-14	1.05303e-13	1	1	0		T	21752079	T	T	21752079	3	4	89	1	0	0	0	0	1	0	0	0	3101	1290	45	5	236	5	CDH12	5	21752079	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2005027	21752079	159163181	2208	56039											
CDH12	1010	broad.mit.edu	37	chr5	21975363	21975363	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagagtgtagaaaggtttCtcttctctatctaggctcct	9	14	9	9	1	3	2	0	0	3	2	6	3	4	2	1	2	0	3	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:21975363C>A	uc010iuc.2	-	3	821	c.363G>T	c.(361-363)GAG>GAT	p.E121D	CDH12_uc011cno.1_Missense_Mutation_p.E121D|CDH12_uc003jgk.2_Missense_Mutation_p.E121D	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	121	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						AGAAAGGTTTCTCTTCTCTAT	0.458										HNSCC(59;0.17)			39	88					6.5261e-18	7.59833e-18	1	1	0		A	21975363	A	A	21975363	3	1	89	1	0	0	0	0	1	0	0	0	3101	912	32	5	2061	5	CDH12	5	21975363	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	223284	21975363	158939897	2209	56040											
PRDM9	56979	broad.mit.edu	37	chr5	23526399	23526399	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctggccttttcaagtcagaAatttctcagtcaacatgtag	11	14	7	9	0	5	1	4	0	2	1	6	1	5	1	1	1	1	1	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:23526399A>C	uc003jgo.2	+	11	1384	c.1202A>C	c.(1201-1203)AAA>ACA	p.K401T		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	401	C2H2-type 1.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						TCAAGTCAGAAATTTCTCAGT	0.473										HNSCC(3;0.000094)			41	82					0	0	1	0	0		C	23526399	C	C	23526399	3	2	89	1	0	0	0	0	1	0	0	0	12485	14	1	5	1240	5	PRDM9	5	23526399	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1551036	23526399	157388861	2210	56041											
CDH10	1008	broad.mit.edu	37	chr5	24487912	24487912	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcagagattcagcaatggAatcatttccttcataggcat	13	12	7	9	0	4	1	4	0	0	1	5	3	5	2	1	2	1	2	1	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:24487912A>C	uc003jgr.1	-	12	2559	c.2227T>G	c.(2227-2229)TCC>GCC	p.S743A	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	743	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TCAGCAATGGAATCATTTCCT	0.463										HNSCC(23;0.051)			48	124					0	0	1	0	0		C	24487912	C	C	24487912	3	2	89	1	0	0	0	0	1	0	0	0	3099	246	9	5	143	5	CDH10	5	24487912	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	961513	24487912	156427348	2211	56042											
CDH10	1008	broad.mit.edu	37	chr5	24505233	24505233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcttactgatttcagcagCaataacagtaagattatgcc	14	12	6	9	0	2	2	1	1	1	1	2	2	2	2	1	0	5	3	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:24505233C>T	uc003jgr.1	-	8	1713	c.1381G>A	c.(1381-1383)GCT>ACT	p.A461T	CDH10_uc011cnu.1_Intron	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	461	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ATTTCAGCAGCAATAACAGTA	0.284										HNSCC(23;0.051)			21	47					0	0	1	0	0		T	24505233	T	T	24505233	3	4	89	1	0	0	0	0	1	0	0	0	3099	710	25	2	1005	2	CDH10	5	24505233	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	17321	24505233	156410027	2212	56043											
CDH9	1007	broad.mit.edu	37	chr5	26881475	26881475	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatcttcgatggataaaatCttgtacatcaatattttccc	13	16	4	8	1	3	0	1	0	2	0	5	2	4	1	1	1	1	1	1	1	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:26881475C>A	uc003jgs.1	-	12	2309	c.2140G>T	c.(2140-2142)GAT>TAT	p.D714Y	CDH9_uc011cnv.1_Missense_Mutation_p.D307Y	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	714	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TGGATAAAATCTTGTACATCA	0.418													41	110					3.09479e-21	3.66737e-21	1	1	0		A	26881475	A	A	26881475	3	1	89	1	0	0	0	0	1	0	0	0	3120	913	32	5	233	5	CDH9	5	26881475	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2376242	26881475	154033785	2213	56044											
CDH9	1007	broad.mit.edu	37	chr5	26881565	26881565	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtctaagtttactgtcttCtcttgcctctggattcctta	5	18	6	12	1	4	0	0	0	4	0	6	1	5	1	3	1	2	1	3	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:26881565C>A	uc003jgs.1	-	12	2219	c.2050G>T	c.(2050-2052)GAA>TAA	p.E684*	CDH9_uc011cnv.1_Nonsense_Mutation_p.E277*	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	684	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TTACTGTCTTCTCTTGCCTCT	0.438													88	137					1.3521e-30	1.65467e-30	1	1	0		A	26881565	A	A	26881565	4	1	89	1	0	0	0	0	0	1	0	0	3120	922	32	5	323	5	CDH9	5	26881565	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	90	26881565	154033695	2214	56045											
CDH9	1007	broad.mit.edu	37	chr5	26890660	26890660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acggtccatatcagtatgccGatcaacagagtacctggcag	12	8	10	11	2	2	1	2	0	0	1	3	2	3	1	3	2	3	3	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:26890660G>A	uc003jgs.1	-	8	1436	c.1267C>T	c.(1267-1269)CGG>TGG	p.R423W	CDH9_uc011cnv.1_Missense_Mutation_p.R16W	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	423	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TCAGTATGCCGATCAACAGAG	0.383													43	85					0	0	1	0	0		A	26890660	A	A	26890660	3	1	89	1	0	0	0	0	1	0	0	0	3120	1057	37	1	1122	1	CDH9	5	26890660	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9095	26890660	154024600	2215	56046											
CDH9	1007	broad.mit.edu	37	chr5	26902745	26902745	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaccacagctgtatcttTgaaaggtcccaggtgtaaga	11	12	10	8	0	1	3	0	2	1	1	2	3	2	3	2	2	1	3	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:26902745T>C	uc003jgs.1	-	7	1262	c.1093A>G	c.(1093-1095)AAA>GAA	p.K365E		NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	365	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						GCTGTATCTTTGAAAGGTCCC	0.378													11	94					0	0	1	0	0		C	26902745	C	C	26902745	3	2	89	1	0	0	0	0	1	0	0	0	3120	1821	63	3	1300	3	CDH9	5	26902745	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	12085	26902745	154012515	2216	56047											
CDH9	1007	broad.mit.edu	37	chr5	26988334	26988334	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttgtcagacccgctatcTttttgcttgataaataactg	9	17	6	9	1	2	2	1	1	1	1	2	2	2	2	1	0	2	2	1	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:26988334T>C	uc003jgs.1	-	2	276	c.107A>G	c.(106-108)AAG>AGG	p.K36R	CDH9_uc010iug.2_Missense_Mutation_p.K36R	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	36					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						ACCCGCTATCTTTTTGCTTGA	0.388													24	48					0	0	1	0	0		C	26988334	C	C	26988334	3	2	89	1	0	0	0	0	1	0	0	0	3120	1609	56	3	2306	3	CDH9	5	26988334	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	85589	26988334	153926926	2217	56048											
CDH6	1004	broad.mit.edu	37	chr5	31313500	31313500	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatggttcgatttttacatcGaaacttcttgaccgagaaac	13	13	7	8	3	1	2	0	1	1	1	3	5	1	2	1	1	3	1	1	1	4	6	rs142200699		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:31313500G>A	uc003jhe.1	+	8	1655	c.1329G>A	c.(1327-1329)TCG>TCA	p.S443S	CDH6_uc003jhd.1_Silent_p.S443S	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	443	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						TTTTTACATCGAAACTTCTTG	0.393													67	120					0	0	1	0	0		A	31313500	A	A	31313500	2	1	89	1	0	0	0	0	0	0	0	1	3117	1045	37	1		1	CDH6	5	31313500	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4325166	31313500	149601760	2218	56049											
CDH6	1004	broad.mit.edu	37	chr5	31323161	31323161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgacggactccaacagctCgcgacaacaccgatgtcaga	12	4	9	16	5	1	1	1	0	0	1	3	5	2	2	3	1	3	1	3	1	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:31323161C>T	uc003jhe.1	+	12	2445	c.2119C>T	c.(2119-2121)CGC>TGC	p.R707C		NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	707	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding	p.R707C(1)		ovary(4)|skin(2)|large_intestine(1)	7						TCCAACAGCTCGCGACAACAC	0.522													20	52					0	0	1	0	0		T	31323161	T	T	31323161	3	4	89	1	0	0	0	0	1	0	0	0	3117	884	31	1	2161	1	CDH6	5	31323161	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9661	31323161	149592099	2219	56050											
RNASEN	29102	broad.mit.edu	37	chr5	31508786	31508786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcagggtgggcctttttgCgtttgatttctgcaataacg	6	15	13	7	2	2	1	1	1	1	0	2	1	2	1	1	3	3	2	1	3	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:31508786C>T	uc003jhg.2	-	9	1888	c.1529G>A	c.(1528-1530)CGC>CAC	p.R510H	RNASEN_uc003jhh.2_Missense_Mutation_p.R473H|RNASEN_uc003jhi.2_Missense_Mutation_p.R473H|RNASEN_uc010iui.1_Missense_Mutation_p.R433H	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	510	Necessary for interaction with DGCR8 and pri-miRNA processing activity.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						GGCCTTTTTGCGTTTGATTTC	0.478													25	65					0	0	1	0	0		T	31508786	T	T	31508786	3	4	89	1	0	0	0	0	1	0	0	0	13442	768	27	1	2703	1	RNASEN	5	31508786	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	185625	31508786	149406474	2220	56051											
RNASEN	29102	broad.mit.edu	37	chr5	31521241	31521241	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgcttaccttccagatctCttatactcttttttgtagga	7	19	5	10	0	2	1	0	0	2	1	4	2	3	2	2	1	3	2	2	1	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:31521241C>T	uc003jhg.2	-	5	1295	c.936G>A	c.(934-936)AAG>AAA	p.K312K	RNASEN_uc003jhh.2_Silent_p.K312K|RNASEN_uc003jhi.2_Silent_p.K312K|RNASEN_uc010iui.1_Intron	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	312	Arg-rich.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						TTCCAGATCTCTTATACTCTT	0.423													59	122					0	0	1	0	0		T	31521241	T	T	31521241	2	4	89	1	0	0	0	0	0	0	0	1	13442	912	32	4		4	RNASEN	5	31521241	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12455	31521241	149394019	2221	56052											
PDZD2	23037	broad.mit.edu	37	chr5	31799489	31799489	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catccagaagctgcaggagtAcatccagctgaactttgctg	11	9	10	11	0	0	2	0	1	0	1	2	3	2	3	2	1	6	5	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:31799489A>G	uc003jhl.2	+	2	522	c.134A>G	c.(133-135)TAC>TGC	p.Y45C	PDZD2_uc003jhm.2_Missense_Mutation_p.Y45C	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	45					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CTGCAGGAGTACATCCAGCTG	0.612													47	126					0	0	1	0	0		G	31799489	G	G	31799489	3	3	89	1	0	0	0	0	1	0	0	0	11720	391	14	3	136	3	PDZD2	5	31799489	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	278248	31799489	149115771	2222	56053											
PDZD2	23037	broad.mit.edu	37	chr5	32087704	32087704	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgctggagggagcagatTctgtgtcctcaagggcaccg	7	8	14	12	1	2	1	1	0	1	1	3	3	3	3	3	3	2	3	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:32087704T>G	uc003jhl.2	+	20	4538	c.4150T>G	c.(4150-4152)TCT>GCT	p.S1384A	PDZD2_uc003jhm.2_Missense_Mutation_p.S1384A	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1384					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GGGAGCAGATTCTGTGTCCTC	0.587													6	34					0	0	1	0	0		G	32087704	G	G	32087704	3	3	89	1	0	0	0	0	1	0	0	0	11720	1783	62	5	4224	5	PDZD2	5	32087704	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	288215	32087704	148827556	2223	56054											
ZFR	51663	broad.mit.edu	37	chr5	32388677	32388677	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaagcacgttcagtaataGaaacaattttctgaactgcc	15	12	6	8	1	2	2	1	1	1	1	2	2	2	2	1	0	4	3	1	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:32388677G>T	uc003jhr.1	-	13	2326	c.2246C>A	c.(2245-2247)TCT>TAT	p.S749Y	ZFR_uc011cny.1_RNA	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	749					multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		TTCAGTAATAGAAACAATTTT	0.393													29	58					3.1745e-13	3.54443e-13	1	1	0		T	32388677	T	T	32388677	3	4	89	1	0	0	0	0	1	0	0	0	17684	942	33	5	1010	5	ZFR	5	32388677	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	300973	32388677	148526583	2224	56055											
NPR3	4883	broad.mit.edu	37	chr5	32712124	32712124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccatcgagtatgctctgcGcagcgtggagggcaacggga	8	6	17	10	4	1	0	0	0	1	0	2	3	1	2	1	4	4	4	1	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:32712124G>A	uc003jhv.2	+	1	460	c.242G>A	c.(241-243)CGC>CAC	p.R81H	NPR3_uc010iuo.2_Intron|NPR3_uc011cnz.1_Intron|NPR3_uc003jhu.2_Missense_Mutation_p.R81H	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	81	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	TATGCTCTGCGCAGCGTGGAG	0.632													10	25					0	0	1	0	0		A	32712124	A	A	32712124	3	1	89	1	0	0	0	0	1	0	0	0	10615	1087	38	1	244	1	NPR3	5	32712124	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	323447	32712124	148203136	2225	56056											
NPR3	4883	broad.mit.edu	37	chr5	32774841	32774841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtttgttgaaggattccacGatgccatcctcctctacgtc	7	14	8	12	2	1	1	0	1	1	0	5	3	4	2	4	1	2	2	4	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:32774841G>A	uc003jhv.2	+	4	1305	c.1087G>A	c.(1087-1089)GAT>AAT	p.D363N	NPR3_uc010iuo.2_Missense_Mutation_p.D147N|NPR3_uc011cnz.1_Missense_Mutation_p.D147N|NPR3_uc003jhu.2_Missense_Mutation_p.D363N	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	363	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	AGGATTCCACGATGCCATCCT	0.438													46	90					0	0	1	0	0		A	32774841	A	A	32774841	3	1	89	1	0	0	0	0	1	0	0	0	10615	1058	37	1	1101	1	NPR3	5	32774841	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	62717	32774841	148140419	2226	56057											
NPR3	4883	broad.mit.edu	37	chr5	32783106	32783106	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgaaaaccgaattgtagaGcatacaaacagctctccctg	15	8	8	10	1	1	2	0	1	1	1	2	4	1	2	2	0	5	3	2	0	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:32783106G>A	uc003jhv.2	+	6	1616	c.1398G>A	c.(1396-1398)GAG>GAA	p.E466E	NPR3_uc010iuo.2_Silent_p.E250E|NPR3_uc011cnz.1_Silent_p.E250E|NPR3_uc003jhu.2_Silent_p.E466E	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	466	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	GAATTGTAGAGCATACAAACA	0.383													10	6					0	0	1	0	0		A	32783106	A	A	32783106	2	1	89	1	0	0	0	0	0	0	0	1	10615	962	34	2		2	NPR3	5	32783106	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8265	32783106	148132154	2227	56058											
C5orf23	79614	broad.mit.edu	37	chr5	32789659	32789659	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaaatgcatgggaaaaGaacacctccttttctccttt	13	11	8	9	0	1	2	0	0	1	2	3	5	2	3	3	1	2	1	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:32789659G>T	uc003jhw.1	+	1	715	c.152G>T	c.(151-153)AGA>ATA	p.R51I		NM_024563	NP_078839			hypothetical protein LOC79614												0						CATGGGAAAAGAACACCTCCT	0.383													63	38					1.48873e-21	1.76774e-21	1	1	0		T	32789659	T	T	32789659	3	4	89	1	0	0	0	0	1	0	0	0	2289	942	33	5	154	5	C5orf23	5	32789659	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6553	32789659	148125601	2228	56059											
TARS	6897	broad.mit.edu	37	chr5	33467669	33467669	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgtttgttttagttgtTggtgaaaaagagaaaatcag	12	16	12	1	0	1	2	1	1	0	1	1	3	1	2	0	1	0	4	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:33467669T>G	uc003jhy.2	+	19	2323	c.2028T>G	c.(2026-2028)GTT>GTG	p.V676V	TARS_uc011cob.1_Silent_p.V664V|TARS_uc011coc.1_Silent_p.V697V|TARS_uc003jhz.2_Silent_p.V572V|TARS_uc011cod.1_Silent_p.V555V	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	676					threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)	TTTTAGTTGTTGGTGAAAAAG	0.403													18	37					0	0	1	0	0		G	33467669	G	G	33467669	2	3	89	1	0	0	0	0	0	0	0	1	15584	1799	63	5		5	TARS	5	33467669	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	678010	33467669	147447591	2229	56060											
C1QTNF3	114899	broad.mit.edu	37	chr5	34033499	34033499	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccaggtcacctttgtcGcccttctcacctttggctcc	3	12	8	18	1	2	0	2	0	1	0	5	0	3	0	6	3	0	1	6	3	0	3	rs147942281	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:34033499G>A	uc003jin.2	-	3	348	c.261C>T	c.(259-261)GGC>GGT	p.G87G	C1QTNF3_uc003jio.2_Silent_p.G160G	NM_030945	NP_112207	Q9BXJ4	C1QT3_HUMAN	C1q and tumor necrosis factor related protein 3	87	Collagen-like.					collagen					0	all_lung(31;0.0207)					CACCTTTGTCGCCCTTCTCAC	0.542													61	82					0	0	1	0	0		A	34033499	A	A	34033499	2	1	89	1	0	0	0	0	0	0	0	1	1967	1074	38	1		1	C1QTNF3	5	34033499	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	565830	34033499	146881761	2230	56061											
RAI14	26064	broad.mit.edu	37	chr5	34807920	34807920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatagtctaaatgcccagccGaaagtgtcgacagctctggg	11	9	11	10	2	2	0	0	0	2	0	3	2	2	0	2	1	3	1	2	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:34807920G>A	uc003jir.2	+	6	533	c.337G>A	c.(337-339)GAA>AAA	p.E113K	RAI14_uc010iur.2_Missense_Mutation_p.E113K|RAI14_uc011coj.1_Missense_Mutation_p.E113K|RAI14_uc010ius.1_Missense_Mutation_p.E42K|RAI14_uc003jis.2_Missense_Mutation_p.E116K|RAI14_uc003jit.2_Missense_Mutation_p.E113K|RAI14_uc011cok.1_Missense_Mutation_p.E105K	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	113	ANK 3.					cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					ATGCCCAGCCGAAAGTGTCGA	0.363													32	67					0	0	1	0	0		A	34807920	A	A	34807920	3	1	89	1	0	0	0	0	1	0	0	0	13033	1059	37	1	420	1	RAI14	5	34807920	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	774421	34807920	146107340	2231	56062											
TTC23L	153657	broad.mit.edu	37	chr5	34845772	34845772	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagctcagctgattaaggaAaaaatggtaaaacaaaaaac	21	7	8	5	0	1	1	1	1	0	0	1	2	1	2	0	2	4	4	0	2	10	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:34845772A>G	uc003jiu.2	+	3	352	c.249A>G	c.(247-249)GAA>GAG	p.E83E		NM_144725	NP_653326	Q6PF05	TT23L_HUMAN	tetratricopeptide repeat domain 23-like	83	Potential.						binding			central_nervous_system(1)	1						TGATTAAGGAAAAAATGGTAA	0.348													9	26					0	0	1	0	0		G	34845772	G	G	34845772	2	3	89	1	0	0	0	0	0	0	0	1	16717	11	1	3		3	TTC23L	5	34845772	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	37852	34845772	146069488	2232	56063											
RAD1	5810	broad.mit.edu	37	chr5	34913634	34913634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaggacagttaaattaattCgaaaagtaacagactcttcc	18	10	6	7	1	1	1	0	0	1	1	3	3	2	2	1	1	1	2	1	1	7	5	rs150523066		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:34913634C>T	uc003jix.2	-	3	577	c.248G>A	c.(247-249)CGA>CAA	p.R83Q	RAD1_uc003jiw.2_Intron|RAD1_uc003jiy.2_Missense_Mutation_p.R83Q|BRIX1_uc003jiz.2_5'Flank|BRIX1_uc011col.1_5'Flank|BRIX1_uc003jja.2_5'Flank	NM_002853	NP_002844	O60671	RAD1_HUMAN	RAD1 homolog	83					DNA damage checkpoint|DNA repair|DNA replication|meiotic prophase I	nucleoplasm	3'-5' exonuclease activity|damaged DNA binding|exodeoxyribonuclease III activity|protein binding				0	all_lung(31;0.000107)	Lung NSC(810;5.19e-05)|Ovarian(839;0.0448)|Breast(839;0.198)	COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)			TAAATTAATTCGAAAAGTAAC	0.279								Other_conserved_DNA_damage_response_genes					25	50					0	0	1	0	0		T	34913634	T	T	34913634	3	4	89	1	0	0	0	0	1	0	0	0	13003	884	31	1	616	1	RAD1	5	34913634	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	67862	34913634	146001626	2233	56064											
AGXT2	64902	broad.mit.edu	37	chr5	35035348	35035348	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaagaaatgatgtctatgTtgtttgagtgcgccctggcc	9	13	12	7	1	1	4	0	3	1	1	1	4	1	4	2	1	1	2	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:35035348T>C	uc003jjf.2	-	5	639	c.560A>G	c.(559-561)AAC>AGC	p.N187S	AGXT2_uc011com.1_Missense_Mutation_p.N187S|AGXT2_uc011con.1_Missense_Mutation_p.N95S	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	187					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	GATGTCTATGTTGTTTGAGTG	0.448													19	110					0	0	1	0	0		C	35035348	C	C	35035348	3	2	89	1	0	0	0	0	1	0	0	0	405	1725	60	3	1024	3	AGXT2	5	35035348	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	121714	35035348	145879912	2234	56065											
AGXT2	64902	broad.mit.edu	37	chr5	35039553	35039553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caggggtttctggaaatatgCcgtcaccacaggagaaagat	13	8	12	8	1	2	2	1	0	1	2	2	4	2	3	2	4	1	1	2	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:35039553C>T	uc003jjf.2	-	3	317	c.238G>A	c.(238-240)GCA>ACA	p.A80T	AGXT2_uc011com.1_Missense_Mutation_p.A80T|AGXT2_uc011con.1_5'UTR	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	80					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	TGGAAATATGCCGTCACCACA	0.473													33	52					0	0	1	0	0		T	35039553	T	T	35039553	3	4	89	1	0	0	0	0	1	0	0	0	405	739	26	2	1354	2	AGXT2	5	35039553	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4205	35039553	145875707	2235	56066											
SPEF2	79925	broad.mit.edu	37	chr5	35628563	35628563	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgttttgaaactcaggTcccaagtcatttgcaaaggc	12	12	8	9	0	3	1	3	1	0	0	4	1	4	1	1	2	2	2	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:35628563T>C	uc003jjo.2	+	2	171	c.60T>C	c.(58-60)AGT>AGC	p.S20S	SPEF2_uc003jjn.1_Silent_p.S20S|SPEF2_uc003jjq.3_Silent_p.S20S	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	20	CH.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GAAACTCAGGTCCCAAGTCAT	0.338													22	58					0	0	1	0	0		C	35628563	C	C	35628563	2	2	89	1	0	0	0	0	0	0	0	1	15060	1681	58	3		3	SPEF2	5	35628563	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	589010	35628563	145286697	2236	56067											
IL7R	3575	broad.mit.edu	37	chr5	35873660	35873660	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatgtatgagattaaagttCgatccatccctgatcactat	13	13	6	9	1	1	2	1	2	0	1	4	4	3	2	2	0	0	2	2	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:35873660C>T	uc003jjs.2	+	5	705	c.616C>T	c.(616-618)CGA>TGA	p.R206*	IL7R_uc011coo.1_Nonsense_Mutation_p.R206*|IL7R_uc011cop.1_Intron	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	206	Extracellular (Potential).|Fibronectin type-III.				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			GATTAAAGTTCGATCCATCCC	0.423													23	59					0	0	1	0	0		T	35873660	T	T	35873660	4	4	89	1	0	0	0	0	0	1	0	0	7721	876	31	1	634	1	IL7R	5	35873660	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	245097	35873660	145041600	2237	56068											
UGT3A1	133688	broad.mit.edu	37	chr5	35965926	35965926	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagatcatagttctcattCtttaaggaatccattatatc	13	15	4	9	0	3	1	2	0	2	1	6	2	4	2	2	1	0	1	2	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:35965926C>A	uc003jjv.1	-	4	562	c.405G>T	c.(403-405)AAG>AAT	p.K135N	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.K135N|UGT3A1_uc011cor.1_Missense_Mutation_p.K101N|UGT3A1_uc003jjy.1_Missense_Mutation_p.K81N	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	135	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AGTTCTCATTCTTTAAGGAAT	0.358													25	40					7.87624e-14	8.83987e-14	1	1	0		A	35965926	A	A	35965926	3	1	89	1	0	0	0	0	1	0	0	0	16989	912	32	5	1264	5	UGT3A1	5	35965926	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	92266	35965926	144949334	2238	56069											
UGT3A2	167127	broad.mit.edu	37	chr5	36049086	36049086	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaaaggcaaagtcagagtTaatgaaccacaactctgctt	16	9	7	9	0	3	2	2	1	1	1	3	2	3	2	1	1	3	3	1	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:36049086T>G	uc003jjz.1	-	4	841	c.748A>C	c.(748-750)AAC>CAC	p.N250H	UGT3A2_uc011cos.1_Missense_Mutation_p.N216H|UGT3A2_uc011cot.1_Intron	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	250	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AAGTCAGAGTTAATGAACCAC	0.418													38	75					0	0	1	0	0		G	36049086	G	G	36049086	3	3	89	1	0	0	0	0	1	0	0	0	16990	1754	61	5	839	5	UGT3A2	5	36049086	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	83160	36049086	144866174	2239	56070											
SKP2	6502	broad.mit.edu	37	chr5	36166751	36166751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catttatggaccaaccattgGctgaacatttcaggtaaaga	14	11	8	8	0	1	2	1	1	0	1	1	3	1	3	2	3	2	2	2	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:36166751G>A	uc003jkc.1	+	4	705	c.523G>A	c.(523-525)GCT>ACT	p.A175T	SKP2_uc011cou.1_Missense_Mutation_p.A6T|SKP2_uc003jkd.2_Missense_Mutation_p.A175T	NM_005983	NP_005974	Q13309	SKP2_HUMAN	S-phase kinase-associated protein 2 isoform 1	175	LRR 2.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G1/S transition of mitotic cell cycle|S phase of mitotic cell cycle	nucleoplasm|SCF ubiquitin ligase complex	protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4	all_lung(31;5.63e-05)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CCAACCATTGGCTGAACATTT	0.413													22	72					0	0	1	0	0		A	36166751	A	A	36166751	3	1	89	1	0	0	0	0	1	0	0	0	14387	1203	42	2	537	2	SKP2	5	36166751	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	117665	36166751	144748509	2240	56071											
SLC1A3	6507	broad.mit.edu	37	chr5	36608664	36608664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgttaaaagttacctgtttCggaatgcttttgtgctgctc	8	17	9	7	1	0	0	0	0	0	0	2	1	0	1	1	1	4	6	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:36608664C>T	uc003jkj.3	+	2	615	c.139C>T	c.(139-141)CGG>TGG	p.R47W	SLC1A3_uc011cox.1_5'UTR|SLC1A3_uc010iuy.2_Missense_Mutation_p.R47W	NM_004172	NP_004163	P43003	EAA1_HUMAN	solute carrier family 1 (glial high affinity	47	Cytoplasmic (Potential).				D-aspartate import|L-glutamate import|neurotransmitter uptake	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0	all_lung(31;0.000245)		Epithelial(62;0.0444)|Lung(74;0.111)|all cancers(62;0.128)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)		L-Glutamic Acid(DB00142)	TTACCTGTTTCGGAATGCTTT	0.443													65	136					0	0	1	0	0		T	36608664	T	T	36608664	3	4	89	1	0	0	0	0	1	0	0	0	14458	875	31	1	141	1	SLC1A3	5	36608664	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	441913	36608664	144306596	2241	56072											
SLC1A3	6507	broad.mit.edu	37	chr5	36671167	36671167	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtaaggcatcagggaagaTgggaatgcgagctgtagtct	12	9	15	5	1	2	1	1	0	1	1	2	4	2	3	0	3	2	4	0	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:36671167T>C	uc003jkj.3	+	4	832	c.356T>C	c.(355-357)ATG>ACG	p.M119T	SLC1A3_uc011cox.1_Missense_Mutation_p.M12T|SLC1A3_uc010iuy.2_Missense_Mutation_p.M119T	NM_004172	NP_004163	P43003	EAA1_HUMAN	solute carrier family 1 (glial high affinity	119					D-aspartate import|L-glutamate import|neurotransmitter uptake	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0	all_lung(31;0.000245)		Epithelial(62;0.0444)|Lung(74;0.111)|all cancers(62;0.128)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)		L-Glutamic Acid(DB00142)	TCAGGGAAGATGGGAATGCGA	0.463													25	47					0	0	1	0	0		C	36671167	C	C	36671167	3	2	89	1	0	0	0	0	1	0	0	0	14458	1464	51	3	383	3	SLC1A3	5	36671167	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	62503	36671167	144244093	2242	56073											
SLC1A3	6507	broad.mit.edu	37	chr5	36677045	36677045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtgcccatccaggccaacGaaacgcttgtgggtgctgtg	9	8	13	11	2	0	0	0	0	0	0	1	1	1	0	3	2	4	2	3	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:36677045G>A	uc003jkj.3	+	6	1095	c.619G>A	c.(619-621)GAA>AAA	p.E207K	SLC1A3_uc011cox.1_Missense_Mutation_p.E100K|SLC1A3_uc010iuy.2_Missense_Mutation_p.E207K	NM_004172	NP_004163	P43003	EAA1_HUMAN	solute carrier family 1 (glial high affinity	207	Extracellular (Potential).				D-aspartate import|L-glutamate import|neurotransmitter uptake	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0	all_lung(31;0.000245)		Epithelial(62;0.0444)|Lung(74;0.111)|all cancers(62;0.128)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)		L-Glutamic Acid(DB00142)	CCAGGCCAACGAAACGCTTGT	0.393													19	30					0	0	1	0	0		A	36677045	A	A	36677045	3	1	89	1	0	0	0	0	1	0	0	0	14458	1059	37	1	654	1	SLC1A3	5	36677045	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5878	36677045	144238215	2243	56074											
NIPBL	25836	broad.mit.edu	37	chr5	36971016	36971016	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgttgcaggtggtttgagaAacatacatgataataaagtt	14	14	10	3	0	0	2	0	2	0	1	0	3	0	2	0	2	3	4	0	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:36971016A>C	uc003jkl.3	+	7	1148	c.649A>C	c.(649-651)AAC>CAC	p.N217H	NIPBL_uc003jkk.3_Missense_Mutation_p.N217H|NIPBL_uc003jkm.1_Missense_Mutation_p.N96H	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	217					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			TGGTTTGAGAAACATACATGA	0.348													25	50					0	0	1	0	0		C	36971016	C	C	36971016	3	2	89	1	0	0	0	0	1	0	0	0	10447	14	1	5	671	5	NIPBL	5	36971016	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	293971	36971016	143944244	2244	56075											
C5orf42	65250	broad.mit.edu	37	chr5	37183640	37183640	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaatttaatatattcaTcatcatcacgttcaaattcc	15	14	3	9	1	5	0	5	0	0	0	6	1	6	1	1	1	0	1	1	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:37183640T>G	uc011cpa.1	-	26	4874	c.4643A>C	c.(4642-4644)GAT>GCT	p.D1548A	C5orf42_uc011coy.1_Missense_Mutation_p.D49A|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.D623A|C5orf42_uc011cpb.1_Missense_Mutation_p.D429A	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1548										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			AATATATTCATCATCATCACG	0.318													15	44					0	0	1	0	0		G	37183640	G	G	37183640	3	3	89	1	0	0	0	0	1	0	0	0	2304	1435	50	5	5058	5	C5orf42	5	37183640	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	212624	37183640	143731620	2245	56076											
NUP155	9631	broad.mit.edu	37	chr5	37299063	37299063	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatccgaggagctcaatgTcacactgtcactcaattctg	10	12	7	12	1	6	0	4	0	2	0	7	2	7	1	1	1	1	1	1	1	3	2	rs144851445		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:37299063T>C	uc003jku.1	-	32	3818	c.3700A>G	c.(3700-3702)ACA>GCA	p.T1234A	NUP155_uc003jkt.1_Missense_Mutation_p.T1175A|NUP155_uc010iuz.1_Missense_Mutation_p.T1170A	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	1234					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GAGCTCAATGTCACACTGTCA	0.363													18	32					0	0	1	0	0		C	37299063	C	C	37299063	3	2	89	1	0	0	0	0	1	0	0	0	10775	1667	58	3	491	3	NUP155	5	37299063	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	115423	37299063	143616197	2246	56077											
WDR70	55100	broad.mit.edu	37	chr5	37727132	37727132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agacagcccatattgggtttCtccagcatattccaagtgag	11	11	9	10	0	1	2	0	1	1	1	3	2	2	2	3	1	2	2	3	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:37727132C>T	uc003jkv.2	+	17	1920	c.1862C>T	c.(1861-1863)TCT>TTT	p.S621F		NM_018034	NP_060504	Q9NW82	WDR70_HUMAN	WD repeat domain 70	621										ovary(1)|central_nervous_system(1)	2	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TATTGGGTTTCTCCAGCATAT	0.383													31	78					0	0	1	0	0		T	37727132	T	T	37727132	3	4	89	1	0	0	0	0	1	0	0	0	17347	913	32	4	1928	4	WDR70	5	37727132	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	428069	37727132	143188128	2247	56078											
LIFR	3977	broad.mit.edu	37	chr5	38481831	38481831	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacttccaaatgagacaaTctcactgttgctgtctatgg	10	13	9	9	0	2	1	1	1	2	1	4	3	3	2	1	2	1	2	1	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:38481831T>G	uc010ive.1	-	20	3492	c.3160A>C	c.(3160-3162)ATT>CTT	p.I1054L	LIFR_uc003jli.2_Missense_Mutation_p.I1054L	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	1054	Cytoplasmic (Potential).				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					AATGAGACAATCTCACTGTTG	0.423			T	PLAG1	salivary adenoma								60	111					0	0	1	0	0		G	38481831	G	G	38481831	3	3	89	1	0	0	0	0	1	0	0	0	8796	1435	50	5	137	5	LIFR	5	38481831	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	754699	38481831	142433429	2248	56079											
LIFR	3977	broad.mit.edu	37	chr5	38506127	38506127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaataataattgatagctttCgtttgtaggtgcttcagctc	11	16	8	6	1	1	1	1	1	0	0	3	1	1	1	0	1	3	5	0	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:38506127C>T	uc010ive.1	-	9	1503	c.1171G>A	c.(1171-1173)GAA>AAA	p.E391K	LIFR_uc003jli.2_Missense_Mutation_p.E391K	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	391	Fibronectin type-III 2.|Extracellular (Potential).				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					TGATAGCTTTCGTTTGTAGGT	0.289			T	PLAG1	salivary adenoma								36	75					0	0	1	0	0		T	38506127	T	T	38506127	3	4	89	1	0	0	0	0	1	0	0	0	8796	893	31	1	2170	1	LIFR	5	38506127	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	24296	38506127	142409133	2249	56080											
OSMR	9180	broad.mit.edu	37	chr5	38884119	38884119	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattcaacttgaatagtgtGcctttcattaggaataaagg	13	13	9	6	0	2	1	2	1	0	0	2	2	2	2	1	2	2	1	1	2	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:38884119G>A	uc003jln.1	+	5	976	c.609G>A	c.(607-609)GTG>GTA	p.V203V	OSMR_uc003jlm.1_Silent_p.V203V	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	203	Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					TGAATAGTGTGCCTTTCATTA	0.368													69	134					0	0	1	0	0		A	38884119	A	A	38884119	2	1	89	1	0	0	0	0	0	0	0	1	11311	1306	46	2		2	OSMR	5	38884119	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	377992	38884119	142031141	2250	56081											
OSMR	9180	broad.mit.edu	37	chr5	38924691	38924691	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgatttgaaaaggcagttCtttcaggtgacatctatttt	11	15	8	7	1	3	2	1	2	2	0	3	3	3	2	0	2	0	2	0	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:38924691C>A	uc003jln.1	+	14	2405	c.2038C>A	c.(2038-2040)CTT>ATT	p.L680I	OSMR_uc011cpj.1_5'UTR	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	680	Fibronectin type-III 4.|Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					AAAGGCAGTTCTTTCAGGTGA	0.328													40	75					0.00552359	0.00557806	1	1	0		A	38924691	A	A	38924691	3	1	89	1	0	0	0	0	1	0	0	0	11311	913	32	5	2126	5	OSMR	5	38924691	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	40572	38924691	141990569	2251	56082											
RICTOR	253260	broad.mit.edu	37	chr5	38945754	38945754	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggattgaattcattattTccgtaagactcatctgctgt	11	16	7	7	1	3	2	2	1	1	1	4	3	4	3	1	1	1	2	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:38945754T>G	uc003jlp.2	-	34	4496	c.4472A>C	c.(4471-4473)GAA>GCA	p.E1491A	RICTOR_uc003jlo.2_Missense_Mutation_p.E1515A|RICTOR_uc010ivf.2_Intron	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	1491					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					ATTCATTATTTCCGTAAGACT	0.363													24	61					0	0	1	0	0		G	38945754	G	G	38945754	3	3	89	1	0	0	0	0	1	0	0	0	13383	1783	62	5	674	5	RICTOR	5	38945754	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	21063	38945754	141969506	2252	56083											
FYB	2533	broad.mit.edu	37	chr5	39202791	39202791	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggctggtgttccgaatCtttggcctgctccagtgggc	4	12	14	11	1	1	0	0	0	1	0	3	1	3	0	3	4	2	4	3	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:39202791C>A	uc003jls.2	-	1	339	c.272G>T	c.(271-273)AGA>ATA	p.R91I	FYB_uc003jlt.2_Missense_Mutation_p.R91I|FYB_uc003jlu.2_Missense_Mutation_p.R91I|FYB_uc011cpl.1_Missense_Mutation_p.R101I	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	91					cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			TGTTCCGAATCTTTGGCCTGC	0.552													12	26					0.000151284	0.000154703	1	1	0		A	39202791	A	A	39202791	3	1	89	1	0	0	0	0	1	0	0	0	6138	913	32	5	2289	5	FYB	5	39202791	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	257037	39202791	141712469	2253	56084											
C9	735	broad.mit.edu	37	chr5	39311447	39311447	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attacaaatcttcccagatgAatttctcctttcacatgcag	12	14	4	11	0	3	2	1	1	2	1	5	2	4	2	2	0	2	1	2	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:39311447A>G	uc003jlv.3	-	7	992	c.903T>C	c.(901-903)ATT>ATC	p.I301I		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	301	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			TTCCCAGATGAATTTCTCCTT	0.348													25	42					0	0	1	0	0		G	39311447	G	G	39311447	2	3	89	1	0	0	0	0	0	0	0	1	2446	242	9	3		3	C9	5	39311447	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	108656	39311447	141603813	2254	56085											
C9	735	broad.mit.edu	37	chr5	39342196	39342196	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggagatgaacacttaccatTtgtctgagacaaggatcgca	13	9	11	8	1	1	3	0	2	1	2	2	6	1	4	1	2	2	1	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:39342196T>G	uc003jlv.3	-	2	269	c.180A>C	c.(178-180)CAA>CAC	p.Q60H		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	60	TSP type-1.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			CACTTACCATTTGTCTGAGAC	0.493													22	53					0	0	1	0	0		G	39342196	G	G	39342196	3	3	89	1	0	0	0	0	1	0	0	0	2446	1838	64	5	1539	5	C9	5	39342196	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	30749	39342196	141573064	2255	56086											
DAB2	1601	broad.mit.edu	37	chr5	39376141	39376141	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatctttaaagaaagggttCtcaaatgcattgtcagtaga	15	12	9	5	0	3	2	2	0	2	2	4	3	3	2	0	1	1	3	0	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:39376141C>A	uc003jlx.2	-	13	2736	c.2205G>T	c.(2203-2205)GAG>GAT	p.E735D	DAB2_uc003jlw.2_Missense_Mutation_p.E714D	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	735	Required for interaction with MYO6 (By similarity).				cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			AGAAAGGGTTCTCAAATGCAT	0.428													35	71					3.76114e-14	4.23289e-14	1	1	0		A	39376141	A	A	39376141	3	1	89	1	0	0	0	0	1	0	0	0	4221	912	32	5	115	5	DAB2	5	39376141	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	33945	39376141	141539119	2256	56087											
DAB2	1601	broad.mit.edu	37	chr5	39382876	39382876	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcttcccacaaaagggttCggggaggatttgacagagaa	12	7	15	7	1	0	2	0	1	0	1	2	5	1	4	1	5	0	2	1	5	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:39382876C>T	uc003jlx.2	-	10	1716	c.1185G>A	c.(1183-1185)CCG>CCA	p.P395P	DAB2_uc003jlw.2_Silent_p.P374P	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	395					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			CAAAAGGGTTCGGGGAGGATT	0.512													29	60					0	0	1	0	0		T	39382876	T	T	39382876	2	4	89	1	0	0	0	0	0	0	0	1	4221	871	31	1		1	DAB2	5	39382876	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6735	39382876	141532384	2257	56088											
PRKAA1	5562	broad.mit.edu	37	chr5	40767575	40767575	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctttattacctgatatCtttgattgtggccctcttca	7	18	6	10	0	3	2	1	2	2	0	3	2	3	2	2	1	2	1	2	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:40767575C>A	uc003jmc.2	-	6	820	c.814G>T	c.(814-816)GAT>TAT	p.D272Y	PRKAA1_uc003jmb.2_Missense_Mutation_p.D287Y	NM_006251	NP_006242	Q13131	AAPK1_HUMAN	protein kinase, AMP-activated, alpha 1 catalytic	272	Protein kinase.				activation of MAPK activity|cell cycle arrest|cholesterol biosynthetic process|fatty acid biosynthetic process|insulin receptor signaling pathway|negative regulation of glucosylceramide biosynthetic process|positive regulation of anti-apoptosis|positive regulation of cholesterol biosynthetic process|regulation of fatty acid oxidation|response to hypoxia	cytosol	ATP binding|cAMP-dependent protein kinase activity|metal ion binding|protein binding			breast(1)	1					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)|Phenformin(DB00914)	TACCTGATATCTTTGATTGTG	0.269													26	36					1.12875e-08	1.20353e-08	1	1	0		A	40767575	A	A	40767575	3	1	89	1	0	0	0	0	1	0	0	0	12515	913	32	5	881	5	PRKAA1	5	40767575	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1384699	40767575	140147685	2258	56089											
CARD6	84674	broad.mit.edu	37	chr5	40852710	40852710	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgctgggggccatgaaaGacattgtgaagaagcagtca	14	8	13	6	0	1	4	1	2	0	2	1	4	1	4	1	2	2	2	1	2	4	2	rs148937373		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:40852710G>T	uc003jmg.2	+	3	1351	c.1276G>T	c.(1276-1278)GAC>TAC	p.D426Y		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	426					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						GGCCATGAAAGACATTGTGAA	0.458													8	53					1.26484e-09	1.36158e-09	1	1	0		T	40852710	T	T	40852710	3	4	89	1	0	0	0	0	1	0	0	0	2653	942	33	5	1286	5	CARD6	5	40852710	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	85135	40852710	140062550	2259	56090											
CARD6	84674	broad.mit.edu	37	chr5	40853422	40853422	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtagatgaagactttgaaaAcactcagagaattcaagttt	16	11	9	5	0	2	5	2	2	0	3	2	6	2	5	0	1	1	2	0	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:40853422A>G	uc003jmg.2	+	3	2063	c.1988A>G	c.(1987-1989)AAC>AGC	p.N663S		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	663					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						GACTTTGAAAACACTCAGAGA	0.488													75	121					0	0	1	0	0		G	40853422	G	G	40853422	3	3	89	1	0	0	0	0	1	0	0	0	2653	43	2	3	1998	3	CARD6	5	40853422	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	712	40853422	140061838	2260	56091											
HEATR7B2	133558	broad.mit.edu	37	chr5	40998171	40998171	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttacagaggaatgcttgTctctttacaccttctcagga	9	13	9	10	0	2	1	1	0	2	1	4	3	2	3	1	3	3	2	1	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:40998171T>C	uc003jmj.3	-	42	5231	c.4741A>G	c.(4741-4743)ACA>GCA	p.T1581A	HEATR7B2_uc003jmi.3_Missense_Mutation_p.T1136A	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1581							binding			ovary(6)|central_nervous_system(2)	8						GGAATGCTTGTCTCTTTACAC	0.453													67	131					0	0	1	0	0		C	40998171	C	C	40998171	3	2	89	1	0	0	0	0	1	0	0	0	7051	1667	58	3	20	3	HEATR7B2	5	40998171	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	144749	40998171	139917089	2261	56092											
HEATR7B2	133558	broad.mit.edu	37	chr5	41058242	41058242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcccagggcgtatccacGgaagtcttcccgatgcagca	8	7	12	14	3	1	0	0	0	1	0	3	2	3	1	3	3	2	3	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:41058242G>A	uc003jmj.3	-	7	1169	c.679C>T	c.(679-681)CGT>TGT	p.R227C	HEATR7B2_uc003jmi.3_5'UTR	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	227							binding			ovary(6)|central_nervous_system(2)	8						GCGTATCCACGGAAGTCTTCC	0.512													17	33					0	0	1	0	0		A	41058242	A	A	41058242	3	1	89	1	0	0	0	0	1	0	0	0	7051	1116	39	1	4222	1	HEATR7B2	5	41058242	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	60071	41058242	139857018	2262	56093											
C6	729	broad.mit.edu	37	chr5	41181522	41181522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatggttgatattttcacttCtctttgaggaataaaaaatt	13	18	6	4	0	2	2	1	2	1	0	3	3	2	3	0	2	0	1	0	2	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:41181522C>T	uc003jmk.2	-	7	1076	c.866G>A	c.(865-867)AGA>AAA	p.R289K	C6_uc003jml.1_Missense_Mutation_p.R289K	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	289	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				ATTTTCACTTCTCTTTGAGGA	0.363													34	63					0	0	1	0	0		T	41181522	T	T	41181522	3	4	89	1	0	0	0	0	1	0	0	0	2318	913	32	4	1986	4	C6	5	41181522	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	123280	41181522	139733738	2263	56094											
PLCXD3	345557	broad.mit.edu	37	chr5	41382433	41382433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcattgtcggggtctctggGcttggtggaaattcgaagat	7	14	14	6	2	2	1	1	0	1	1	5	3	2	2	0	5	0	1	0	5	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:41382433G>A	uc003jmm.1	-	2	409	c.307C>T	c.(307-309)CCC>TCC	p.P103S		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	103	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity	p.P103P(1)		skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						GGGTCTCTGGGCTTGGTGGAA	0.443													35	57					0	0	1	0	0		A	41382433	A	A	41382433	3	1	89	1	0	0	0	0	1	0	0	0	12062	1203	42	2	666	2	PLCXD3	5	41382433	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	200911	41382433	139532827	2264	56095											
GHR	2690	broad.mit.edu	37	chr5	42719381	42719381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccaggttctgagatgcCtgtcccagactatacctcca	8	12	8	13	0	1	2	0	1	1	2	4	3	4	2	5	1	2	2	5	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:42719381C>T	uc003jmt.2	+	10	1815	c.1772C>T	c.(1771-1773)CCT>CTT	p.P591L	GHR_uc011cpq.1_Missense_Mutation_p.P404L	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	591	Cytoplasmic (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	TCTGAGATGCCTGTCCCAGAC	0.502													18	38					0	0	1	0	0		T	42719381	T	T	42719381	3	4	89	1	0	0	0	0	1	0	0	0	6386	681	24	4	1806	4	GHR	5	42719381	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1336948	42719381	138195879	2265	56096											
C5orf28	64417	broad.mit.edu	37	chr5	43446338	43446338	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacctcagacatcaatacGaactccatgttttgaagaca	14	11	6	10	1	2	3	2	1	0	2	3	4	3	3	2	0	3	2	2	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:43446338G>T	uc003jny.2	-	3	777	c.634C>A	c.(634-636)CGT>AGT	p.R212S	C5orf28_uc003jnv.3_Missense_Mutation_p.R212S|C5orf28_uc003jnx.2_Missense_Mutation_p.R212S	NM_022483	NP_071928	Q0VDI3	CE028_HUMAN	hypothetical protein LOC64417	212						integral to membrane					0	Lung NSC(6;2.07e-05)					ACATCAATACGAACTCCATGT	0.343													7	79					0.0381472	0.0383344	1	1	0		T	43446338	T	T	43446338	3	4	89	1	0	0	0	0	1	0	0	0	2292	1058	37	5	17	5	C5orf28	5	43446338	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	726957	43446338	137468922	2266	56097											
C5orf34	375444	broad.mit.edu	37	chr5	43490760	43490760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttggagaacagaagatgacGaatgagtgggcatctctctg	12	9	13	7	1	2	5	0	2	2	3	3	7	2	5	0	2	1	1	0	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:43490760G>A	uc003jnz.1	-	12	1969	c.1652C>T	c.(1651-1653)TCG>TTG	p.S551L		NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	551										breast(1)	1	Lung NSC(6;2.07e-05)					AGAAGATGACGAATGAGTGGG	0.323													18	43					0	0	1	0	0		A	43490760	A	A	43490760	3	1	89	1	0	0	0	0	1	0	0	0	2296	1059	37	1	276	1	C5orf34	5	43490760	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	44422	43490760	137424500	2267	56098											
NNT	23530	broad.mit.edu	37	chr5	43613147	43613147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgtggaatcgggtgcgggcGaagcttccaagttctcagat	8	10	14	9	4	1	1	1	0	1	1	5	3	2	2	1	3	2	2	1	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:43613147G>A	uc003joe.2	+	3	544	c.289G>A	c.(289-291)GAA>AAA	p.E97K	NNT_uc003jof.2_Missense_Mutation_p.E97K	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	97	Mitochondrial matrix.				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	GGGTGCGGGCGAAGCTTCCAA	0.473													46	114					0	0	1	0	0		A	43613147	A	A	43613147	3	1	89	1	0	0	0	0	1	0	0	0	10529	1059	37	1	295	1	NNT	5	43613147	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	122387	43613147	137302113	2268	56099											
MRPS30	10884	broad.mit.edu	37	chr5	44811250	44811250	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcgaatatccaagcaactCgcagaggtaaggatttattg	14	11	9	7	2	0	1	0	0	0	1	3	3	1	2	1	2	2	3	1	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:44811250C>T	uc003joh.2	+	2	779	c.741C>T	c.(739-741)CTC>CTT	p.L247L	MRPS30_uc003joi.1_RNA	NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	247					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)					CCAAGCAACTCGCAGAGGTAA	0.368													39	85					0	0	1	0	0		T	44811250	T	T	44811250	2	4	89	1	0	0	0	0	0	0	0	1	9858	871	31	1		1	MRPS30	5	44811250	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1198103	44811250	136104010	2269	56100											
PARP8	79668	broad.mit.edu	37	chr5	50117077	50117077	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactagtatccatgtgtaggTctgcgttggaatctcctaga	9	14	10	8	1	2	1	0	0	2	1	4	2	3	2	2	2	2	3	2	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:50117077T>C	uc003jon.3	+	17	1881	c.1699T>C	c.(1699-1701)TCT>CCT	p.S567P	PARP8_uc011cpz.1_Missense_Mutation_p.S459P|PARP8_uc003joo.2_Missense_Mutation_p.S567P|PARP8_uc003jop.2_Intron	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	567						intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				CATGTGTAGGTCTGCGTTGGA	0.423													41	59					0	0	1	0	0		C	50117077	C	C	50117077	3	2	89	1	0	0	0	0	1	0	0	0	11484	1667	58	3	1761	3	PARP8	5	50117077	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	5305827	50117077	130798183	2270	56101											
ITGA1	3672	broad.mit.edu	37	chr5	52216277	52216277	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcgaaaatcagaatgcacTaagcactccttctacatgtt	13	12	6	10	1	2	1	1	0	1	1	4	2	3	1	1	0	3	4	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:52216277T>G	uc003jou.2	+	17	2323	c.2271T>G	c.(2269-2271)ACT>ACG	p.T757T	ITGA1_uc003jov.2_RNA|ITGA1_uc003jow.2_Silent_p.T288T	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	757	Extracellular (Potential).				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				CAGAATGCACTAAGCACTCCT	0.358													5	40					0	0	1	0	0		G	52216277	G	G	52216277	2	3	89	1	0	0	0	0	0	0	0	1	7888	1509	53	5		5	ITGA1	5	52216277	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2099200	52216277	128698983	2271	56102											
FST	10468	broad.mit.edu	37	chr5	52779982	52779982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctactgtgtgacctgtaatCggatttgcccagagcctgct	7	12	10	12	1	0	2	0	1	0	1	1	3	0	3	4	1	4	2	4	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:52779982C>T	uc003jpd.2	+	4	607	c.580C>T	c.(580-582)CGG>TGG	p.R194W	FST_uc003jpc.2_Missense_Mutation_p.R194W	NM_013409	NP_037541	P19883	FST_HUMAN	follistatin isoform FST344 precursor	194	Kazal-like 2.				hemopoietic progenitor cell differentiation|negative regulation of activin receptor signaling pathway|negative regulation of follicle-stimulating hormone secretion|negative regulation of transcription from RNA polymerase II promoter|positive regulation of hair follicle development	extracellular region	activin binding|protein binding|signal transducer activity				0		Ovarian(174;1.78e-06)|Lung NSC(810;3.55e-06)|Breast(144;4.08e-05)				GACCTGTAATCGGATTTGCCC	0.517													33	69					0	0	1	0	0		T	52779982	T	T	52779982	3	4	89	1	0	0	0	0	1	0	0	0	6090	875	31	1	594	1	FST	5	52779982	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	563705	52779982	128135278	2272	56103											
GZMA	3001	broad.mit.edu	37	chr5	54404084	54404084	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaatagtgcatcttggtcCgatactctgagagaagtcaa	13	10	9	9	1	3	2	1	1	2	1	4	4	4	2	1	1	2	1	1	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:54404084C>T	uc003jpm.2	+	4	526	c.489C>T	c.(487-489)TCC>TCT	p.S163S		NM_006144	NP_006135	P12544	GRAA_HUMAN	granzyme A precursor	163	Peptidase S1.				cleavage of lamin|cytolysis|immune response|negative regulation of DNA binding|negative regulation of endodeoxyribonuclease activity|negative regulation of oxidoreductase activity|positive regulation of apoptosis	extracellular region|immunological synapse|nucleus	protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				CATCTTGGTCCGATACTCTGA	0.423													24	38					0	0	1	0	0		T	54404084	T	T	54404084	2	4	89	1	0	0	0	0	0	0	0	1	6931	639	23	1		1	GZMA	5	54404084	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1624102	54404084	126511176	2273	56104											
PPAP2A	8611	broad.mit.edu	37	chr5	54721131	54721131	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttctttaaaagaagttCtttctttgaagaaatccgat	12	18	5	6	1	4	3	0	1	4	2	5	4	5	3	1	0	0	1	1	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:54721131C>A	uc003jqa.2	-	6	1174	c.758G>T	c.(757-759)AGA>ATA	p.R253I	SKIV2L2_uc003jpy.3_3'UTR|SKIV2L2_uc011cqi.1_3'UTR|PPAP2A_uc003jpz.2_Missense_Mutation_p.R254I|PPAP2A_uc003jqb.2_RNA	NM_003711	NP_003702	O14494	LPP1_HUMAN	phosphatidic acid phosphatase type 2A isoform 1	253	Cytoplasmic (Potential).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|androgen receptor signaling pathway|germ cell migration|negative regulation of cell proliferation|phospholipid dephosphorylation|regulation of lipid metabolic process|sphingolipid metabolic process	integral to plasma membrane|membrane fraction	phosphatidate phosphatase activity|sphingosine-1-phosphate phosphatase activity			ovary(2)	2		Lung NSC(810;4.08e-05)|Prostate(74;0.0181)|Breast(144;0.0544)				AAAAGAAGTTCTTTCTTTGAA	0.348													26	45					4.72057e-08	4.99044e-08	1	1	0		A	54721131	A	A	54721131	3	1	89	1	0	0	0	0	1	0	0	0	12309	913	32	5	100	5	PPAP2A	5	54721131	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	317047	54721131	126194129	2274	56105											
SLC38A9	153129	broad.mit.edu	37	chr5	54993700	54993700	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttagatccgatggctcAaactggatattcataggtcc	11	12	9	9	1	3	1	2	0	1	1	5	4	5	2	2	3	1	1	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:54993700A>C	uc003jqf.2	-	3	288	c.87T>G	c.(85-87)TTT>TTG	p.F29L	SLC38A9_uc010ivy.2_5'UTR	NM_173514	NP_775785	Q8NBW4	S38A9_HUMAN	solute carrier family 38, member 9	29					amino acid transport|sodium ion transport	integral to membrane					0		Lung NSC(810;0.00122)|Prostate(74;0.0376)|Breast(144;0.181)				CCGATGGCTCAAACTGGATAT	0.338													16	62					0	0	1	0	0		C	54993700	C	C	54993700	3	2	89	1	0	0	0	0	1	0	0	0	14636	127	5	5	1654	5	SLC38A9	5	54993700	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	272569	54993700	125921560	2275	56106											
DDX4	54514	broad.mit.edu	37	chr5	55059080	55059080	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagagttttggaaacagaGgtaattacttggttatgata	15	13	11	2	0	0	3	0	1	0	2	0	5	0	4	0	3	2	3	0	3	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:55059080G>T	uc003jqg.3	+	5	357	c.283G>T	c.(283-285)GGT>TGT	p.G95C	DDX4_uc010ivz.2_Missense_Mutation_p.G95C|DDX4_uc003jqh.3_Missense_Mutation_p.G95C	NM_001136034	NP_001129506	Q9NQI0	DDX4_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4 isoform	95	Gly-rich.				multicellular organismal development|sperm motility	perinuclear region of cytoplasm|pi-body|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|skin(1)	2		Lung NSC(810;6.93e-05)|all_neural(839;0.00409)|Prostate(74;0.0107)|Breast(144;0.0544)|Ovarian(174;0.223)				TGGAAACAGAGGTAATTACTT	0.323													28	46					2.12542e-12	2.35257e-12	1	1	0		T	55059080	T	T	55059080	3	4	89	1	0	0	0	0	1	0	0	0	4363	1014	35	5	297	5	DDX4	5	55059080	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	65380	55059080	125856180	2276	56107											
DDX4	54514	broad.mit.edu	37	chr5	55082355	55082355	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaattttcagacttttgaaGaagctaatctctgtcagaca	14	14	6	7	0	3	4	2	1	1	3	4	4	3	4	0	0	1	1	0	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:55082355G>T	uc003jqg.3	+	14	948	c.874G>T	c.(874-876)GAA>TAA	p.E292*	DDX4_uc010ivz.2_Nonsense_Mutation_p.E272*|DDX4_uc003jqh.3_Nonsense_Mutation_p.E258*|DDX4_uc003jqj.2_Nonsense_Mutation_p.E143*	NM_001136034	NP_001129506	Q9NQI0	DDX4_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4 isoform	292	Q motif.				multicellular organismal development|sperm motility	perinuclear region of cytoplasm|pi-body|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|skin(1)	2		Lung NSC(810;6.93e-05)|all_neural(839;0.00409)|Prostate(74;0.0107)|Breast(144;0.0544)|Ovarian(174;0.223)				GACTTTTGAAGAAGCTAATCT	0.323													27	43					6.38683e-12	7.03806e-12	1	1	0		T	55082355	T	T	55082355	4	4	89	1	0	0	0	0	0	1	0	0	4363	943	33	5	965	5	DDX4	5	55082355	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23275	55082355	125832905	2277	56108											
IL31RA	133396	broad.mit.edu	37	chr5	55164656	55164656	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaacatttcctgtgtctaCtactataggaaaaatttaac	15	13	6	7	0	1	1	0	0	1	1	2	3	2	2	1	1	4	0	1	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:55164656C>A	uc003jql.2	+	3	257	c.192C>A	c.(190-192)TAC>TAA	p.Y64*	IL31RA_uc003jqk.2_Nonsense_Mutation_p.Y64*|IL31RA_uc011cqj.1_Intron|IL31RA_uc003jqm.2_Nonsense_Mutation_p.Y32*|IL31RA_uc003jqn.2_Nonsense_Mutation_p.Y64*|IL31RA_uc010iwa.1_Nonsense_Mutation_p.Y32*|IL31RA_uc003jqo.2_5'UTR	NM_139017	NP_620586	Q8NI17	IL31R_HUMAN	gp130-like monocyte receptor	32	Extracellular (Potential).|Fibronectin type-III 1.				anti-apoptosis|defense response|homeostatic process|JAK-STAT cascade|macrophage differentiation|MAPKKK cascade|monocyte differentiation|negative regulation of macrophage activation|positive regulation of cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|plasma membrane	cytokine receptor activity|protein kinase binding|transcription coactivator activity			ovary(1)	1		Lung NSC(810;6.93e-05)|Prostate(74;0.00741)|Breast(144;0.0544)|Ovarian(174;0.223)				CCTGTGTCTACTACTATAGGA	0.373													43	81					2.00842e-17	2.32847e-17	1	1	0		A	55164656	A	A	55164656	4	1	89	1	0	0	0	0	0	1	0	0	7707	576	20	5	202	5	IL31RA	5	55164656	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	82301	55164656	125750604	2278	56109											
IL31RA	133396	broad.mit.edu	37	chr5	55212583	55212583	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgacaagttggtggtgaacTttgggaatgttctgcaagaa	11	13	13	4	0	1	3	0	2	1	1	1	4	1	4	0	3	2	3	0	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:55212583T>G	uc003jql.2	+	15	1995	c.1930T>G	c.(1930-1932)TTT>GTT	p.F644V	IL31RA_uc003jqm.2_Missense_Mutation_p.F612V|IL31RA_uc003jqn.2_Missense_Mutation_p.F644V|IL31RA_uc003jqo.2_Missense_Mutation_p.F502V	NM_139017	NP_620586	Q8NI17	IL31R_HUMAN	gp130-like monocyte receptor	612	Cytoplasmic (Potential).				anti-apoptosis|defense response|homeostatic process|JAK-STAT cascade|macrophage differentiation|MAPKKK cascade|monocyte differentiation|negative regulation of macrophage activation|positive regulation of cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|plasma membrane	cytokine receptor activity|protein kinase binding|transcription coactivator activity			ovary(1)	1		Lung NSC(810;6.93e-05)|Prostate(74;0.00741)|Breast(144;0.0544)|Ovarian(174;0.223)				GGTGGTGAACTTTGGGAATGT	0.458													20	53					0	0	1	0	0		G	55212583	G	G	55212583	3	3	89	1	0	0	0	0	1	0	0	0	7707	1609	56	5	1988	5	IL31RA	5	55212583	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	47927	55212583	125702677	2279	56110											
MAP3K1	4214	broad.mit.edu	37	chr5	56181765	56181765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctattgtcttatagggggatCggtggctcatttgctgagta	7	15	13	6	1	2	1	1	1	1	0	3	2	2	2	0	4	1	3	0	4	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:56181765C>T	uc003jqw.3	+	17	4490	c.3989C>T	c.(3988-3990)TCG>TTG	p.S1330L		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	1330	Protein kinase.				cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		ATAGGGGGATCGGTGGCTCAT	0.343													19	56					0	0	1	0	0		T	56181765	T	T	56181765	3	4	89	1	0	0	0	0	1	0	0	0	9261	893	31	1	4055	1	MAP3K1	5	56181765	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	969182	56181765	124733495	2280	56111											
GPBP1	65056	broad.mit.edu	37	chr5	56526703	56526703	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttgagaagcattctgaaAactttgcatggacagagaat	15	12	9	5	0	1	3	0	2	1	2	1	6	1	4	0	1	3	2	0	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:56526703A>C	uc003jrh.3	+	4	1368	c.94A>C	c.(94-96)AAC>CAC	p.N32H	GPBP1_uc010iwg.2_Missense_Mutation_p.N32H|GPBP1_uc003jri.3_5'UTR|GPBP1_uc003jrj.3_Missense_Mutation_p.N39H|GPBP1_uc003jrk.3_Missense_Mutation_p.N39H|GPBP1_uc003jrl.3_RNA	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	32					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		GCATTCTGAAAACTTTGCATG	0.343													32	54					0	0	1	0	0		C	56526703	C	C	56526703	3	2	89	1	0	0	0	0	1	0	0	0	6610	14	1	5	125	5	GPBP1	5	56526703	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	344938	56526703	124388557	2281	56112											
GPBP1	65056	broad.mit.edu	37	chr5	56546838	56546838	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaccaagaaagggatataAaccgaaacttcgatgaaaat	19	7	7	8	2	1	2	1	1	0	1	2	5	1	3	2	1	2	0	2	1	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:56546838A>C	uc003jrh.3	+	10	2304	c.1030A>C	c.(1030-1032)AAC>CAC	p.N344H	GPBP1_uc010iwg.2_Missense_Mutation_p.N364H|GPBP1_uc003jri.3_Missense_Mutation_p.N173H|GPBP1_uc003jrj.3_Missense_Mutation_p.N336H|GPBP1_uc003jrk.3_Missense_Mutation_p.N351H|GPBP1_uc003jrl.3_RNA	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	344					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		AAGGGATATAAACCGAAACTT	0.353													32	51					0	0	1	0	0		C	56546838	C	C	56546838	3	2	89	1	0	0	0	0	1	0	0	0	6610	14	1	5	1085	5	GPBP1	5	56546838	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	20135	56546838	124368422	2282	56113											
PLK2	10769	broad.mit.edu	37	chr5	57752802	57752802	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatatatcttgctttgtcttTtttgccaccaaaaagagcag	12	15	6	8	0	2	1	0	0	2	1	2	1	2	1	2	0	3	2	2	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:57752802T>G	uc003jrn.2	-	8	1253	c.1126A>C	c.(1126-1128)AAA>CAA	p.K376Q		NM_006622	NP_006613	Q9NYY3	PLK2_HUMAN	polo-like kinase 2	376					positive regulation of I-kappaB kinase/NF-kappaB cascade		ATP binding|protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|lung(1)|skin(1)	4		all_cancers(5;1.76e-12)|all_epithelial(5;2.09e-13)|all_lung(5;6.64e-05)|Lung NSC(5;0.000127)|Prostate(74;0.055)|Breast(144;0.0602)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;7.03e-37)		GCTTTGTCTTTTTTGCCACCA	0.328													41	55					0	0	1	0	0		G	57752802	G	G	57752802	3	3	89	1	0	0	0	0	1	0	0	0	12115	1850	64	5	959	5	PLK2	5	57752802	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1205964	57752802	123162458	2283	56114											
PLK2	10769	broad.mit.edu	37	chr5	57754894	57754894	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttatttgtcaaatctgtcAtctcgtaacattttgcaaag	11	17	6	7	1	4	0	2	0	2	0	5	0	4	0	0	0	2	3	0	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:57754894A>G	uc003jrn.2	-	2	423	c.296T>C	c.(295-297)ATG>ACG	p.M99T	PLK2_uc011cql.1_Missense_Mutation_p.M1T	NM_006622	NP_006613	Q9NYY3	PLK2_HUMAN	polo-like kinase 2	99	Protein kinase.				positive regulation of I-kappaB kinase/NF-kappaB cascade		ATP binding|protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|lung(1)|skin(1)	4		all_cancers(5;1.76e-12)|all_epithelial(5;2.09e-13)|all_lung(5;6.64e-05)|Lung NSC(5;0.000127)|Prostate(74;0.055)|Breast(144;0.0602)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;7.03e-37)		CAAATCTGTCATCTCGTAACA	0.393													26	58					0	0	1	0	0		G	57754894	G	G	57754894	3	3	89	1	0	0	0	0	1	0	0	0	12115	217	8	3	1813	3	PLK2	5	57754894	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2092	57754894	123160366	2284	56115											
PDE4D	5144	broad.mit.edu	37	chr5	58287668	58287668	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aatcatcataccttggcaagGacatcttcttgttcagtttt	10	16	6	9	0	5	0	3	0	2	0	5	1	5	1	1	2	1	3	1	2	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:58287668G>A	uc003jsa.2	-	8	1351	c.1179C>T	c.(1177-1179)GTC>GTT	p.V393V	PDE4D_uc003jrx.2_Silent_p.V257V|PDE4D_uc003jry.2_Silent_p.V91V|PDE4D_uc003jrz.2_Silent_p.V329V|PDE4D_uc003jsb.2_Silent_p.V332V|PDE4D_uc003jrt.2_Silent_p.V91V|PDE4D_uc003jru.2_Silent_p.V169V|PDE4D_uc003jrv.2_Silent_p.V263V|PDE4D_uc003jrw.2_Silent_p.V271V|PDE4D_uc003jrs.2_Silent_p.V102V	NM_001104631	NP_001098101	Q08499	PDE4D_HUMAN	phosphodiesterase 4D isoform 1	393					signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)	CCTTGGCAAGGACATCTTCTT	0.348													7	14					0	0	1	0	0		A	58287668	A	A	58287668	2	1	89	1	0	0	0	0	0	0	0	1	11661	1161	41	4		4	PDE4D	5	58287668	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	532774	58287668	122627592	2285	56116											
DEPDC1B	55789	broad.mit.edu	37	chr5	59901524	59901524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaatcaacctaccagtgttCgggtaccaaagccatcacac	15	7	6	13	1	2	0	2	0	0	0	3	0	2	0	4	1	4	2	4	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:59901524C>T	uc003jsh.2	-	8	1131	c.1058G>A	c.(1057-1059)CGA>CAA	p.R353Q	DEPDC1B_uc011cqm.1_Missense_Mutation_p.R353Q|DEPDC1B_uc011cqn.1_Missense_Mutation_p.R326Q	NM_018369	NP_060839	Q8WUY9	DEP1B_HUMAN	DEP domain containing 1B isoform 1	353	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)	1		Lung NSC(810;0.000214)|Prostate(74;0.0147)|Breast(144;0.0991)|Ovarian(174;0.17)				TACCAGTGTTCGGGTACCAAA	0.418													40	101					0	0	1	0	0		T	59901524	T	T	59901524	3	4	89	1	0	0	0	0	1	0	0	0	4446	884	31	1	547	1	DEPDC1B	5	59901524	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1613856	59901524	121013736	2286	56117											
DEPDC1B	55789	broad.mit.edu	37	chr5	59941376	59941376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcctctgtcagctgtctgCggtggacaagacggcaagct	7	9	14	11	2	3	1	1	0	2	1	3	2	3	2	1	4	3	3	1	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:59941376C>T	uc003jsh.2	-	4	594	c.521G>A	c.(520-522)CGC>CAC	p.R174H	DEPDC1B_uc011cqm.1_Missense_Mutation_p.R174H|DEPDC1B_uc011cqn.1_Missense_Mutation_p.R147H	NM_018369	NP_060839	Q8WUY9	DEP1B_HUMAN	DEP domain containing 1B isoform 1	174					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)	1		Lung NSC(810;0.000214)|Prostate(74;0.0147)|Breast(144;0.0991)|Ovarian(174;0.17)				CAGCTGTCTGCGGTGGACAAG	0.423													35	46					0	0	1	0	0		T	59941376	T	T	59941376	3	4	89	1	0	0	0	0	1	0	0	0	4446	768	27	1	1100	1	DEPDC1B	5	59941376	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	39852	59941376	120973884	2287	56118											
DEPDC1B	55789	broad.mit.edu	37	chr5	59982961	59982961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgcagccaatccacagcttCggccgctgtgaaacaatgct	11	8	9	13	2	0	1	0	1	0	0	2	1	1	1	3	1	5	4	3	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:59982961C>T	uc003jsh.2	-	2	215	c.142G>A	c.(142-144)GAA>AAA	p.E48K	DEPDC1B_uc011cqm.1_Missense_Mutation_p.E48K|DEPDC1B_uc011cqn.1_Missense_Mutation_p.E21K	NM_018369	NP_060839	Q8WUY9	DEP1B_HUMAN	DEP domain containing 1B isoform 1	48	DEP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)	1		Lung NSC(810;0.000214)|Prostate(74;0.0147)|Breast(144;0.0991)|Ovarian(174;0.17)				TCCACAGCTTCGGCCGCTGTG	0.507													43	81					0	0	1	0	0		T	59982961	T	T	59982961	3	4	89	1	0	0	0	0	1	0	0	0	4446	893	31	1	1487	1	DEPDC1B	5	59982961	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	41585	59982961	120932299	2288	56119											
ELOVL7	79993	broad.mit.edu	37	chr5	60067919	60067919	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaatcttcaactcttggAtctaagagaaaaacaatatg	17	10	6	8	0	4	1	1	0	3	1	4	3	4	2	1	1	3	0	1	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:60067919A>G	uc003jsi.3	-	4	266	c.66T>C	c.(64-66)GAT>GAC	p.D22D	ELOVL7_uc011cqo.1_5'UTR|ELOVL7_uc010iwk.2_Silent_p.D22D|ELOVL7_uc003jsj.3_Silent_p.Y9Y	NM_024930	NP_079206	A1L3X0	ELOV7_HUMAN	elongation of very long chain fatty acids-like	22					fatty acid elongation, polyunsaturated fatty acid|fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding				0		Lung NSC(810;2.56e-06)|Prostate(74;0.0115)|Breast(144;0.0244)|Ovarian(174;0.0481)				CAACTCTTGGATCTAAGAGAA	0.433													6	17					0	0	1	0	0		G	60067919	G	G	60067919	2	3	89	1	0	0	0	0	0	0	0	1	5087	347	12	3		3	ELOVL7	5	60067919	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	84958	60067919	120847341	2289	56120											
KIF2A	3796	broad.mit.edu	37	chr5	61643984	61643984	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcctcagccaaagtaaacaAaattgtaaaggttagtgatg	17	10	8	6	0	1	1	1	1	0	0	2	1	2	1	2	1	2	3	2	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:61643984A>C	uc003jsy.3	+	3	580	c.269A>C	c.(268-270)AAA>ACA	p.K90T	KIF2A_uc003jsz.3_Missense_Mutation_p.K90T|KIF2A_uc010iwp.2_Missense_Mutation_p.K90T|KIF2A_uc003jsx.3_Missense_Mutation_p.K70T|KIF2A_uc010iwq.2_5'UTR	NM_004520	NP_004511	O00139	KIF2A_HUMAN	kinesin heavy chain member 2 isoform 1	90	Globular (Potential).				blood coagulation|cell differentiation|cell division|microtubule-based movement|mitotic prometaphase|mitotic spindle organization|nervous system development	centrosome|cytosol|microtubule|spindle pole	ATP binding|microtubule motor activity|protein binding				0		Lung NSC(810;8.94e-06)|Prostate(74;0.0132)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.14)		AAAGTAAACAAAATTGTAAAG	0.438													36	90					0	0	1	0	0		C	61643984	C	C	61643984	3	2	89	1	0	0	0	0	1	0	0	0	8313	14	1	5	279	5	KIF2A	5	61643984	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1576065	61643984	119271276	2290	56121											
KIF2A	3796	broad.mit.edu	37	chr5	61669521	61669521	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtatttatagggtcaaaGaattgactgtagatccaact	14	14	8	5	0	1	3	1	1	0	2	2	3	2	3	1	1	1	2	1	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:61669521G>T	uc003jsy.3	+	17	1965	c.1654G>T	c.(1654-1656)GAA>TAA	p.E552*	KIF2A_uc003jsz.3_Nonsense_Mutation_p.E590*|KIF2A_uc010iwp.2_Nonsense_Mutation_p.E533*|KIF2A_uc003jsx.3_Nonsense_Mutation_p.E532*|KIF2A_uc010iwq.2_Nonsense_Mutation_p.E355*	NM_004520	NP_004511	O00139	KIF2A_HUMAN	kinesin heavy chain member 2 isoform 1	552	Kinesin-motor.				blood coagulation|cell differentiation|cell division|microtubule-based movement|mitotic prometaphase|mitotic spindle organization|nervous system development	centrosome|cytosol|microtubule|spindle pole	ATP binding|microtubule motor activity|protein binding				0		Lung NSC(810;8.94e-06)|Prostate(74;0.0132)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.14)		TAGGGTCAAAGAATTGACTGT	0.408													9	22					1.12685e-05	1.16379e-05	1	1	0		T	61669521	T	T	61669521	4	4	89	1	0	0	0	0	0	1	0	0	8313	943	33	5	1838	5	KIF2A	5	61669521	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	25537	61669521	119245739	2291	56122											
RNF180	285671	broad.mit.edu	37	chr5	63509662	63509662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggcttttaaacatggcccGaaataataatgaccctggaa	15	9	8	9	1	0	1	0	1	0	0	0	3	0	2	2	3	1	1	2	3	6	4	rs139361682	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:63509662G>A	uc003jti.2	+	4	619	c.509G>A	c.(508-510)CGA>CAA	p.R170Q	RNF180_uc003jth.3_Missense_Mutation_p.R170Q|RNF180_uc010iws.2_Intron	NM_001113561	NP_001107033	Q86T96	RN180_HUMAN	ring finger protein 180 isoform 1	170	Cytoplasmic (Potential).					integral to membrane|nuclear envelope	zinc ion binding				0		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0848)|Colorectal(97;0.234)		Lung(70;0.114)		AACATGGCCCGAAATAATAAT	0.443													37	81					0	0	1	0	0		A	63509662	A	A	63509662	3	1	89	1	0	0	0	0	1	0	0	0	13489	1058	37	1	519	1	RNF180	5	63509662	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1840141	63509662	117405598	2292	56123											
ADAMTS6	11174	broad.mit.edu	37	chr5	64520865	64520865	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcccaaaatattatcacAgcctacgtgctgaaaacaga	17	8	6	10	1	1	3	1	1	0	2	2	3	2	3	2	0	4	1	2	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:64520865A>C	uc003jtp.2	-	17	2891	c.2077T>G	c.(2077-2079)TGT>GGT	p.C693G	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA|ADAMTS6_uc003jtr.1_Missense_Mutation_p.C314G	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	693					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		ATATTATCACAGCCTACGTGC	0.383													29	57					0	0	1	0	0		C	64520865	C	C	64520865	3	2	89	1	0	0	0	0	1	0	0	0	270	188	7	5	1312	5	ADAMTS6	5	64520865	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1011203	64520865	116394395	2293	56124											
TRIM23	373	broad.mit.edu	37	chr5	64892294	64892294	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaatggtcttaatttgtgTtttccacctacatcccaaat	11	15	4	11	0	1	0	0	0	1	0	3	0	3	0	3	1	1	1	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:64892294T>G	uc003jty.2	-	9	1460	c.1374A>C	c.(1372-1374)AAA>AAC	p.K458N	TRIM23_uc003jtw.2_Missense_Mutation_p.K458N|TRIM23_uc003jtx.2_Missense_Mutation_p.K458N	NM_001656	NP_001647	P36406	TRI23_HUMAN	ADP-ribosylation factor domain protein 1 isoform	458	GTP (By similarity).|ARF-like.			K->I: Suppresses GTPase activity. Decreases interaction with PSCD1.	interspecies interaction between organisms|small GTPase mediated signal transduction	Golgi membrane|lysosomal membrane	enzyme activator activity|GDP binding|GTP binding|GTPase activity|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Breast(144;0.0433)|Ovarian(174;0.0545)|Colorectal(97;0.234)		Lung(70;0.00473)		TTAATTTGTGTTTTCCACCTA	0.264													17	51					0	0	1	0	0		G	64892294	G	G	64892294	3	3	89	1	0	0	0	0	1	0	0	0	16523	1722	60	5	429	5	TRIM23	5	64892294	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	371429	64892294	116022966	2294	56125											
SGTB	54557	broad.mit.edu	37	chr5	64976553	64976553	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataggaatcattttcagggTcaagatctaatgccttttga	12	15	8	6	0	4	2	3	1	1	1	4	3	4	3	1	2	1	0	1	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:64976553T>G	uc003jud.2	-	7	768	c.548A>C	c.(547-549)GAC>GCC	p.D183A		NM_019072	NP_061945	Q96EQ0	SGTB_HUMAN	small glutamine-rich tetratricopeptide repeat	183	TPR 4.						binding				0		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Ovarian(174;0.0545)|Breast(144;0.174)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0657)|Lung(70;0.00487)		ATTTTCAGGGTCAAGATCTAA	0.358													49	78					0	0	1	0	0		G	64976553	G	G	64976553	3	3	89	1	0	0	0	0	1	0	0	0	14251	1667	58	5	386	5	SGTB	5	64976553	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	84259	64976553	115938707	2295	56126											
MAST4	375449	broad.mit.edu	37	chr5	66438048	66438048	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactggaatctgaggatgAcacaagttattttgatagta	14	12	9	6	0	1	3	0	3	1	0	1	5	1	5	1	2	1	2	1	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:66438048A>G	uc003jut.1	+	19	2101	c.2033A>G	c.(2032-2034)GAC>GGC	p.D678G	MAST4_uc003juu.1_Missense_Mutation_p.D688G|MAST4_uc011cra.1_Missense_Mutation_p.D661G|MAST4_uc003juv.2_Missense_Mutation_p.D673G|MAST4_uc003juw.2_Missense_Mutation_p.D673G	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	870	AGC-kinase C-terminal.					cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		TCTGAGGATGACACAAGTTAT	0.358													32	68					0	0	1	0	0		G	66438048	G	G	66438048	3	3	89	1	0	0	0	0	1	0	0	0	9345	275	10	3	2808	3	MAST4	5	66438048	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1461495	66438048	114477212	2296	56127											
MAST4	375449	broad.mit.edu	37	chr5	66461024	66461024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgtgctttccagaaactgCgaaaaccagtgacaactcca	14	8	7	12	1	0	2	0	1	0	1	2	3	2	2	3	0	5	1	3	0	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:66461024C>T	uc003jut.1	+	28	5518	c.5450C>T	c.(5449-5451)GCG>GTG	p.A1817V	MAST4_uc003juw.2_Missense_Mutation_p.A1745V|MAST4_uc003jux.2_5'Flank	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	2009						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		CCAGAAACTGCGAAAACCAGT	0.562													4	16					0	0	1	0	0		T	66461024	T	T	66461024	3	4	89	1	0	0	0	0	1	0	0	0	9345	768	27	1	6261	1	MAST4	5	66461024	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	22976	66461024	114454236	2297	56128											
CCNB1	891	broad.mit.edu	37	chr5	68470866	68470866	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacagatggaaatgaagattCtaagagctttaaactttggt	15	12	10	4	0	1	4	0	1	1	3	1	6	1	5	0	2	2	1	0	2	5	5	rs1622483		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:68470866C>G	uc003jvm.2	+	6	1045	c.868C>G	c.(868-870)CTA>GTA	p.L290V	CCNB1_uc011crd.1_Missense_Mutation_p.L290V|CCNB1_uc010ixb.2_Missense_Mutation_p.L290V	NM_031966	NP_114172	P14635	CCNB1_HUMAN	cyclin B1	290					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitotic cell cycle spindle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|mitotic spindle stabilization|positive regulation of attachment of spindle microtubules to kinetochore|positive regulation of mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	condensed nuclear chromosome outer kinetochore|cytosol|microtubule organizing center|nucleoplasm|spindle pole					0		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		AATGAAGATTCTAAGAGCTTT	0.418													53	111					0	0	1	0	0		G	68470866	G	G	68470866	3	3	89	1	0	0	0	0	1	0	0	0	2914	912	32	5	890	5	CCNB1	5	68470866	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2009842	68470866	112444394	2298	56129											
CCNB1	891	broad.mit.edu	37	chr5	68470918	68470918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctacctttgcacttccttcGgagagcatctaagattggag	9	13	9	10	1	2	2	0	0	2	2	4	4	3	3	2	2	3	2	2	2	2	6	rs138386021		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:68470918G>A	uc003jvm.2	+	6	1097	c.920G>A	c.(919-921)CGG>CAG	p.R307Q	CCNB1_uc011crd.1_Missense_Mutation_p.R307Q|CCNB1_uc010ixb.2_Missense_Mutation_p.R307Q	NM_031966	NP_114172	P14635	CCNB1_HUMAN	cyclin B1	307					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitotic cell cycle spindle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|mitotic spindle stabilization|positive regulation of attachment of spindle microtubules to kinetochore|positive regulation of mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	condensed nuclear chromosome outer kinetochore|cytosol|microtubule organizing center|nucleoplasm|spindle pole					0		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		CACTTCCTTCGGAGAGCATCT	0.448													51	95					0	0	1	0	0		A	68470918	A	A	68470918	3	1	89	1	0	0	0	0	1	0	0	0	2914	1116	39	1	942	1	CCNB1	5	68470918	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	52	68470918	112444342	2299	56130											
RAD17	5884	broad.mit.edu	37	chr5	68681898	68681898	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaccagttttatcgggattCtcatactttacatgaagttc	11	16	6	8	1	1	1	1	1	1	0	4	2	1	2	1	1	3	2	1	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:68681898C>A	uc003jwo.2	+	6	769	c.707C>A	c.(706-708)TCT>TAT	p.S236Y	RAD17_uc003jwg.2_Missense_Mutation_p.S225Y|RAD17_uc003jwh.2_Missense_Mutation_p.S225Y|RAD17_uc003jwi.2_Missense_Mutation_p.S225Y|RAD17_uc003jwj.2_Missense_Mutation_p.S225Y|RAD17_uc003jwk.2_Missense_Mutation_p.S225Y|RAD17_uc003jwl.2_Missense_Mutation_p.S225Y|RAD17_uc003jwm.2_Missense_Mutation_p.S60Y|RAD17_uc003jwn.2_Missense_Mutation_p.S139Y	NM_133339	NP_579917	O75943	RAD17_HUMAN	RAD17 homolog isoform 2	236					cell cycle|DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint|mitotic cell cycle checkpoint|negative regulation of DNA replication|regulation of phosphorylation	nucleoplasm	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Lung NSC(167;5.19e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;9.36e-57)|Epithelial(20;1.21e-52)|all cancers(19;3.34e-48)|Lung(70;0.0183)		TATCGGGATTCTCATACTTTA	0.244								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					23	60					4.81078e-24	5.77265e-24	1	1	0		A	68681898	A	A	68681898	3	1	89	1	0	0	0	0	1	0	0	0	13004	913	32	5	742	5	RAD17	5	68681898	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	210980	68681898	112233362	2300	56131											
NAIP	4671	broad.mit.edu	37	chr5	70308498	70308498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtaaaacccagcggccGccatctcctgtggtatccat	10	9	9	13	2	1	1	0	1	1	0	3	1	2	1	5	2	2	2	5	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:70308498G>A	uc003kar.1	-	4	963	c.245C>T	c.(244-246)GCG>GTG	p.A82V	NAIP_uc003kat.1_Intron|NAIP_uc011crs.1_Missense_Mutation_p.A82V|NAIP_uc003kas.1_Intron	NM_004536	NP_004527	Q13075	BIRC1_HUMAN	NLR family, apoptosis inhibitory protein isoform	82	BIR 1.				anti-apoptosis|apoptosis|nervous system development	basolateral plasma membrane|cytoplasm	caspase inhibitor activity|metal ion binding|nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(1)	1		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		CCCAGCGGCCGCCATCTCCTG	0.488													32	90					0	0	1	0	0		A	70308498	A	A	70308498	3	1	89	1	0	0	0	0	1	0	0	0	10165	1087	38	1	4022	1	NAIP	5	70308498	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1626600	70308498	110606762	2301	56132											
NAIP	4671	broad.mit.edu	37	chr5	70308571	70308571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taacctttttgcttcactgcGcatttgagagttgtagcctt	7	17	8	9	1	1	1	1	1	0	1	1	2	1	1	2	0	4	4	2	0	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:70308571G>A	uc003kar.1	-	4	890	c.172C>T	c.(172-174)CGC>TGC	p.R58C	NAIP_uc003kat.1_Intron|NAIP_uc011crs.1_Missense_Mutation_p.R58C|NAIP_uc003kas.1_Intron	NM_004536	NP_004527	Q13075	BIRC1_HUMAN	NLR family, apoptosis inhibitory protein isoform	58					anti-apoptosis|apoptosis|nervous system development	basolateral plasma membrane|cytoplasm	caspase inhibitor activity|metal ion binding|nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(1)	1		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		GCTTCACTGCGCATTTGAGAG	0.483													67	150					0	0	1	0	0		A	70308571	A	A	70308571	3	1	89	1	0	0	0	0	1	0	0	0	10165	1087	38	1	4095	1	NAIP	5	70308571	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	73	70308571	110606689	2302	56133											
BDP1	55814	broad.mit.edu	37	chr5	70786822	70786822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatttgtagataaatgtcagGctataaggcctgagctaaag	14	12	10	5	0	1	2	1	1	0	1	1	2	1	2	1	2	1	3	1	2	8	7	rs142464289	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:70786822G>A	uc003kbp.1	+	11	1767	c.1504G>A	c.(1504-1506)GCT>ACT	p.A502T	BDP1_uc003kbn.1_Missense_Mutation_p.A502T|BDP1_uc003kbo.2_Missense_Mutation_p.A502T	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	502					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		TAAATGTCAGGCTATAAGGCC	0.363													21	52					0	0	1	0	0		A	70786822	A	A	70786822	3	1	89	1	0	0	0	0	1	0	0	0	1396	1203	42	2	1546	2	BDP1	5	70786822	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	478251	70786822	110128438	2303	56134											
BDP1	55814	broad.mit.edu	37	chr5	70791146	70791146	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttcagatttgccttcattCgaagttggaattagagcatt	11	15	8	7	1	2	2	2	0	0	2	3	4	2	3	1	1	2	2	1	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:70791146C>T	uc003kbp.1	+	12	1973	c.1710C>T	c.(1708-1710)TTC>TTT	p.F570F	BDP1_uc003kbn.1_Silent_p.F570F|BDP1_uc003kbo.2_Silent_p.F570F	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	570					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		TGCCTTCATTCGAAGTTGGAA	0.328													28	63					0	0	1	0	0		T	70791146	T	T	70791146	2	4	89	1	0	0	0	0	0	0	0	1	1396	883	31	1		1	BDP1	5	70791146	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4324	70791146	110124114	2304	56135											
BDP1	55814	broad.mit.edu	37	chr5	70805836	70805836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caagggagaagacaccagagGtgactgatgccactgaggaa	15	4	14	8	0	0	6	0	3	0	3	0	8	0	7	2	3	1	0	2	3	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:70805836G>A	uc003kbp.1	+	17	3180	c.2917G>A	c.(2917-2919)GTG>ATG	p.V973M	BDP1_uc003kbn.1_Missense_Mutation_p.V973M|BDP1_uc003kbo.2_Missense_Mutation_p.V973M	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	973	3.|9 X 55 AA repeats of G-R-R-X-I-S-P-X-E-N- G-X-E-E-V-K-P-X-X-E-M-E-T-D-L-K-X-T-G-R- E-X-X-X-R-E-K-T-X-E-X-X-D-A-X-E-E-I-D-X- D-L-E-E-T.			V -> G (in Ref. 2; CAC21448/CAC04245).	regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		GACACCAGAGGTGACTGATGC	0.458													51	101					0	0	1	0	0		A	70805836	A	A	70805836	3	1	89	1	0	0	0	0	1	0	0	0	1396	1261	44	4	2983	4	BDP1	5	70805836	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14690	70805836	110109424	2305	56136											
BDP1	55814	broad.mit.edu	37	chr5	70810930	70810930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagcaccagtccagaaaaatGactcagttgtttctgtgggg	11	10	11	9	0	2	2	1	1	1	1	3	2	3	2	2	2	1	3	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:70810930G>A	uc003kbp.1	+	20	4893	c.4630G>A	c.(4630-4632)GAC>AAC	p.D1544N	BDP1_uc003kbo.2_Missense_Mutation_p.D1544N	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1544					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		CCAGAAAAATGACTCAGTTGT	0.343													16	38					0	0	1	0	0		A	70810930	A	A	70810930	3	1	89	1	0	0	0	0	1	0	0	0	1396	1290	45	4	4708	4	BDP1	5	70810930	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5094	70810930	110104330	2306	56137											
BDP1	55814	broad.mit.edu	37	chr5	70818628	70818628	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggtttcagcaagaaaaGattgtgtaggttccaaagag	14	10	13	4	0	1	3	1	0	0	3	2	4	2	4	1	3	1	4	1	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:70818628G>T	uc003kbp.1	+	24	5502	c.5239G>T	c.(5239-5241)GAT>TAT	p.D1747Y	BDP1_uc003kbo.2_Missense_Mutation_p.D1747Y|BDP1_uc003kbq.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1747					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AGCAAGAAAAGATTGTGTAGG	0.368													28	44					1.88708e-17	2.18811e-17	1	1	0		T	70818628	T	T	70818628	3	4	89	1	0	0	0	0	1	0	0	0	1396	942	33	5	5333	5	BDP1	5	70818628	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7698	70818628	110096632	2307	56138											
BDP1	55814	broad.mit.edu	37	chr5	70855831	70855831	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtctcacaagggacaagaTatttttcttacctcaggaag	13	11	9	8	0	3	1	2	0	2	1	4	4	3	3	1	2	1	0	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:70855831T>C	uc003kbp.1	+	37	7526	c.7263T>C	c.(7261-7263)GAT>GAC	p.D2421D	BDP1_uc003kbq.1_RNA|BDP1_uc003kbr.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	2421					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AGGGACAAGATATTTTTCTTA	0.403													44	71					0	0	1	0	0		C	70855831	C	C	70855831	2	2	89	1	0	0	0	0	0	0	0	1	1396	1403	49	3		3	BDP1	5	70855831	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	37203	70855831	110059429	2308	56139											
BDP1	55814	broad.mit.edu	37	chr5	70858262	70858262	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccattcaatgaaagccaggAaaaaaatcgagagtcctctg	16	8	8	9	1	2	2	1	1	1	1	5	4	4	3	3	1	1	0	3	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:70858262A>G	uc003kbp.1	+	38	7921	c.7658A>G	c.(7657-7659)GAA>GGA	p.E2553G	BDP1_uc003kbq.1_RNA|BDP1_uc003kbr.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	2553					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		GAAAGCCAGGAAAAAAATCGA	0.373													10	96					0	0	1	0	0		G	70858262	G	G	70858262	3	3	89	1	0	0	0	0	1	0	0	0	1396	246	9	3	7808	3	BDP1	5	70858262	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2431	70858262	110056998	2309	56140											
MCCC2	64087	broad.mit.edu	37	chr5	70948577	70948577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaacccttactattccagcGcaaggtgggggccagaacat	12	7	11	11	1	0	1	0	0	0	1	1	2	1	1	3	3	4	1	3	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:70948577G>A	uc003kbs.3	+	16	1708	c.1570G>A	c.(1570-1572)GCA>ACA	p.A524T	MCCC2_uc003kbt.3_RNA	NM_022132	NP_071415	Q9HCC0	MCCB_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 2 (beta)	524	Carboxyltransferase.				leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)	1		Lung NSC(167;0.000697)|Prostate(74;0.0107)|Ovarian(174;0.0175)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.04e-54)	Biotin(DB00121)	CTATTCCAGCGCAAGGTGGGG	0.473													15	34					0	0	1	0	0		A	70948577	A	A	70948577	3	1	89	1	0	0	0	0	1	0	0	0	9393	1087	38	1	1632	1	MCCC2	5	70948577	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	90315	70948577	109966683	2310	56141											
MAP1B	4131	broad.mit.edu	37	chr5	71494696	71494696	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccgtgcctcagtgttattCgatacaatgcaacaccatct	10	13	6	12	2	2	0	1	0	1	0	4	1	3	0	3	0	4	2	3	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:71494696C>T	uc003kbw.3	+	5	5755	c.5514C>T	c.(5512-5514)TTC>TTT	p.F1838F	MAP1B_uc010iyw.1_Silent_p.F1855F|MAP1B_uc010iyx.1_Silent_p.F1712F|MAP1B_uc010iyy.1_Silent_p.F1712F	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1838						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		CAGTGTTATTCGATACAATGC	0.498													30	67					0	0	1	0	0		T	71494696	T	T	71494696	2	4	89	1	0	0	0	0	0	0	0	1	9246	883	31	1		1	MAP1B	5	71494696	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	546119	71494696	109420564	2311	56142											
MRPS27	23107	broad.mit.edu	37	chr5	71524145	71524145	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacccactgagttcttttgTtttaggcctggaagcaaaag	12	12	9	8	0	1	1	0	1	1	0	1	2	1	2	2	2	2	3	2	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:71524145T>G	uc003kbz.3	-	8	678	c.642A>C	c.(640-642)AAA>AAC	p.K214N	MRPS27_uc003kca.3_Missense_Mutation_p.K158N|MRPS27_uc011cse.1_Missense_Mutation_p.K228N|MRPS27_uc010iza.2_Missense_Mutation_p.K158N|MRPS27_uc011csd.1_5'Flank|MRPS27_uc010iyz.1_RNA	NM_015084	NP_055899	Q92552	RT27_HUMAN	mitochondrial ribosomal protein S27	214						mitochondrion|ribosome					0		Lung NSC(167;0.00237)|Ovarian(174;0.0175)|Prostate(461;0.141)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.46e-53)		AGTTCTTTTGTTTTAGGCCTG	0.403													24	75					0	0	1	0	0		G	71524145	G	G	71524145	3	3	89	1	0	0	0	0	1	0	0	0	9856	1722	60	5	618	5	MRPS27	5	71524145	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	29449	71524145	109391115	2312	56143											
ZNF366	167465	broad.mit.edu	37	chr5	71739902	71739902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtgtgcagagctgctggCtctggggggccaggccaggg	4	6	21	10	1	1	1	0	0	1	1	1	1	1	1	2	7	3	4	2	7	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:71739902C>T	uc003kce.1	-	5	2102	c.1916G>A	c.(1915-1917)AGC>AAC	p.S639N		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	639					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		GAGCTGCTGGCTCTGGGGGGC	0.647													66	191					0	0	1	0	0		T	71739902	T	T	71739902	3	4	89	1	0	0	0	0	1	0	0	0	17895	797	28	2	322	2	ZNF366	5	71739902	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	215757	71739902	109175358	2313	56144											
TNPO1	3842	broad.mit.edu	37	chr5	72201159	72201159	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatttaaaaatcaagttggCgatgaaaattggaggcgttt	14	12	12	3	2	1	1	1	1	0	0	1	4	1	3	0	4	0	2	0	4	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:72201159C>T	uc003kck.3	+	24	2766	c.2619C>T	c.(2617-2619)GGC>GGT	p.G873G	TNPO1_uc011csj.1_Silent_p.G823G|TNPO1_uc003kch.2_Silent_p.G865G|TNPO1_uc003kci.3_Silent_p.G865G|TNPO1_uc003kcg.3_Silent_p.G865G	NM_002270	NP_002261	Q92973	TNPO1_HUMAN	transportin 1 isoform 1	873					interspecies interaction between organisms|mRNA metabolic process|protein import into nucleus, translocation	cytosol|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			skin(3)|urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)	7		Lung NSC(167;0.0053)|Ovarian(174;0.0175)		OV - Ovarian serous cystadenocarcinoma(47;6.14e-54)		ATCAAGTTGGCGATGAAAATT	0.353													39	85					0	0	1	0	0		T	72201159	T	T	72201159	2	4	89	1	0	0	0	0	0	0	0	1	16360	755	27	1		1	TNPO1	5	72201159	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	461257	72201159	108714101	2314	56145											
FCHO2	115548	broad.mit.edu	37	chr5	72285288	72285288	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcatactccaggtcaatgAcaaaactagcaaaatctgca	17	7	7	10	0	2	1	1	1	1	0	3	1	3	1	1	2	4	3	1	2	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:72285288A>C	uc003kcl.2	+	3	276	c.160A>C	c.(160-162)ACA>CCA	p.T54P	FCHO2_uc011csl.1_Missense_Mutation_p.T54P|FCHO2_uc011csk.1_Missense_Mutation_p.T54P|FCHO2_uc011csm.1_5'Flank	NM_138782	NP_620137	Q0JRZ9	FCHO2_HUMAN	FCH domain only 2 isoform a	54	FCH.									ovary(1)	1		Lung NSC(167;0.0465)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;4.6e-53)		CAGGTCAATGACAAAACTAGC	0.338													5	11					0	0	1	0	0		C	72285288	C	C	72285288	3	2	89	1	0	0	0	0	1	0	0	0	5802	275	10	5	170	5	FCHO2	5	72285288	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	84129	72285288	108629972	2315	56146											
BTF3	689	broad.mit.edu	37	chr5	72798357	72798357	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggttcatagaacagccacAgcagatgacaaaaaacttca	17	7	8	9	0	2	3	2	1	0	2	2	3	2	3	1	1	4	2	1	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:72798357A>G	uc003kcr.1	+	3	489	c.246A>G	c.(244-246)ACA>ACG	p.T82T	BTF3_uc003kcq.1_Silent_p.T38T|BTF3_uc003kcs.1_RNA|BTF3_uc003kct.1_RNA	NM_001037637	NP_001032726	P20290	BTF3_HUMAN	basic transcription factor 3 isoform A	82	NAC-A/B.			Missing (in Ref. 2; AAA58398).	regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding				0		Lung NSC(167;0.00405)|Ovarian(174;0.0175)		OV - Ovarian serous cystadenocarcinoma(47;2.73e-54)		GAACAGCCACAGCAGATGACA	0.368													7	61					0	0	1	0	0		G	72798357	G	G	72798357	2	3	89	1	0	0	0	0	0	0	0	1	1554	175	7	3		3	BTF3	5	72798357	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	513069	72798357	108116903	2316	56147											
RGNEF	64283	broad.mit.edu	37	chr5	73153952	73153952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agataaagagaagctgaatcGacatcagtttgccccaggaa	16	7	10	8	1	1	3	1	1	0	2	2	6	1	4	2	1	2	2	2	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:73153952G>A	uc011csq.1	+	15	1966	c.1955G>A	c.(1954-1956)CGA>CAA	p.R652Q	RGNEF_uc003kcx.2_Missense_Mutation_p.R652Q|RGNEF_uc010izf.2_Missense_Mutation_p.R652Q|RGNEF_uc011csr.1_Missense_Mutation_p.R339Q	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	652	Phorbol-ester/DAG-type.				cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		AAGCTGAATCGACATCAGTTT	0.448													53	119					0	0	1	0	0		A	73153952	A	A	73153952	3	1	89	1	0	0	0	0	1	0	0	0	13308	1058	37	1	2013	1	RGNEF	5	73153952	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	355595	73153952	107761308	2317	56148											
RGNEF	64283	broad.mit.edu	37	chr5	73207201	73207201	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacactttcaacaaactgaaTccatcagttatccatcagga	16	10	4	11	0	3	1	3	1	0	0	5	2	5	2	2	1	3	1	2	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:73207201T>G	uc011csq.1	+	34	4760	c.4749T>G	c.(4747-4749)AAT>AAG	p.N1583K	RGNEF_uc003kcx.2_Missense_Mutation_p.N1583K|RGNEF_uc010izf.2_Missense_Mutation_p.N1583K|RGNEF_uc011csr.1_Missense_Mutation_p.N1270K|RGNEF_uc003kcz.3_Missense_Mutation_p.N547K|RGNEF_uc003kda.3_Missense_Mutation_p.N503K	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	1583	Interaction with microtubules (By similarity).				cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		ACAAACTGAATCCATCAGTTA	0.378													14	35					0	0	1	0	0		G	73207201	G	G	73207201	3	3	89	1	0	0	0	0	1	0	0	0	13308	1432	50	5	4883	5	RGNEF	5	73207201	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	53249	73207201	107708059	2318	56149											
GFM2	84340	broad.mit.edu	37	chr5	74047274	74047274	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatagtaatgcctctttctcGctcttgggccatgaaatctg	9	14	8	10	1	4	1	0	1	4	0	5	1	4	1	2	1	1	2	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:74047274G>A	uc003kdh.1	-	6	653	c.349C>T	c.(349-351)CGA>TGA	p.R117*	GFM2_uc003kdi.1_Nonsense_Mutation_p.R117*|GFM2_uc010izj.1_Nonsense_Mutation_p.R149*|GFM2_uc010izk.1_RNA|GFM2_uc003kdj.1_Nonsense_Mutation_p.R117*|GFM2_uc010izl.1_Intron	NM_032380	NP_115756	Q969S9	RRF2M_HUMAN	mitochondrial elongation factor G2 isoform 1	117					mitochondrial translation|ribosome disassembly	mitochondrion	GTP binding|GTPase activity				0		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.86e-56)		CCTCTTTCTCGCTCTTGGGCC	0.378													64	121					0	0	1	0	0		A	74047274	A	A	74047274	4	1	89	1	0	0	0	0	0	1	0	0	6357	1095	38	1	2086	1	GFM2	5	74047274	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	840073	74047274	106867986	2319	56150											
NSA2	10412	broad.mit.edu	37	chr5	74066522	74066522	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaagtattaaaagttattCgaacaggaaagagaaagaag	21	7	10	3	1	0	3	0	0	0	3	1	6	0	4	0	1	1	2	0	1	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:74066522C>T	uc003kdk.1	+	4	492	c.409C>T	c.(409-411)CGA>TGA	p.R137*		NM_014886	NP_055701	O95478	NSA2_HUMAN	NSA2 ribosome biogenesis homolog	137	Lys-rich.				rRNA processing	nucleolus|ribonucleoprotein complex				ovary(1)	1						AAAAGTTATTCGAACAGGAAA	0.368													30	63					0	0	1	0	0		T	74066522	T	T	74066522	4	4	89	1	0	0	0	0	0	1	0	0	10687	876	31	1	423	1	NSA2	5	74066522	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19248	74066522	106848738	2320	56151											
GCNT4	51301	broad.mit.edu	37	chr5	74324701	74324701	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccataaatacacacgcttcGaaggtgagatccagtacaac	15	8	7	11	2	0	1	0	1	0	1	3	3	2	1	2	1	3	2	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:74324701G>A	uc003kdn.2	-	1	2024	c.1162C>T	c.(1162-1164)CGA>TGA	p.R388*		NM_016591	NP_057675	Q9P109	GCNT4_HUMAN	core 2 beta-1,6-N-acetylglucosaminyltransferase	388	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;8.44e-57)		CACACGCTTCGAAGGTGAGAT	0.418													50	57					0	0	1	0	0		A	74324701	A	A	74324701	4	1	89	1	0	0	0	0	0	1	0	0	6318	1066	37	1	203	1	GCNT4	5	74324701	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	258179	74324701	106590559	2321	56152											
HMGCR	3156	broad.mit.edu	37	chr5	74645970	74645970	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttgtgtgtccttggtattAgaggtaagaccaattcttac	9	15	10	7	0	1	2	0	0	1	2	2	2	2	2	2	2	1	3	2	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:74645970A>C	uc003kdp.2	+	7	816	c.660A>C	c.(658-660)TTA>TTC	p.L220F	HMGCR_uc011cst.1_Missense_Mutation_p.L240F|HMGCR_uc003kdq.2_Missense_Mutation_p.L220F|HMGCR_uc010izn.1_Missense_Mutation_p.L60F	NM_000859	NP_000850	P04035	HMDH_HUMAN	3-hydroxy-3-methylglutaryl-Coenzyme A reductase	220	Helical; (Potential).				cholesterol biosynthetic process|coenzyme A metabolic process|germ cell migration|gonad development|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal membrane	hydroxymethylglutaryl-CoA reductase (NADPH) activity|NADP binding			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;2.24e-54)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Cerivastatin(DB00439)|Fluvastatin(DB01095)|Lovastatin(DB00227)|NADH(DB00157)|Pravastatin(DB00175)|Rosuvastatin(DB01098)|Simvastatin(DB00641)	CCTTGGTATTAGAGGTAAGAC	0.398													22	53					0	0	1	0	0		C	74645970	C	C	74645970	3	2	89	1	0	0	0	0	1	0	0	0	7247	417	15	5	682	5	HMGCR	5	74645970	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	321269	74645970	106269290	2322	56153											
POLK	51426	broad.mit.edu	37	chr5	74869615	74869615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgttcgtgcagccatgccagGatttattgctaagaggctgt	8	13	12	8	1	0	1	0	0	0	1	1	2	0	2	2	2	4	4	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:74869615G>A	uc003kdw.2	+	5	557	c.461G>A	c.(460-462)GGA>GAA	p.G154E	POLK_uc003kdx.2_RNA|POLK_uc003kdy.2_RNA|POLK_uc003kea.2_Missense_Mutation_p.G154E|POLK_uc003keb.2_Missense_Mutation_p.G154E|POLK_uc010izq.2_Missense_Mutation_p.G154E|POLK_uc003kec.2_Missense_Mutation_p.G64E|POLK_uc010izr.2_RNA|POLK_uc010izs.2_RNA|POLK_uc003ked.2_Missense_Mutation_p.G64E|POLK_uc003kee.2_Missense_Mutation_p.G154E|POLK_uc003kef.2_Missense_Mutation_p.G64E	NM_016218	NP_057302	Q9UBT6	POLK_HUMAN	DNA-directed DNA polymerase kappa	154	UmuC.				DNA replication|nucleotide-excision repair, DNA gap filling	nucleus	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|kidney(2)	4		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;2.9e-54)|all cancers(79;1.27e-42)		GCCATGCCAGGATTTATTGCT	0.413								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					42	78					0	0	1	0	0		A	74869615	A	A	74869615	3	1	89	1	0	0	0	0	1	0	0	0	12223	1174	41	4	475	4	POLK	5	74869615	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	223645	74869615	106045645	2323	56154											
POLK	51426	broad.mit.edu	37	chr5	74892287	74892287	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaatgtgaagccgtgaataAacaaagtttccagacatcac	17	9	7	8	1	1	3	1	2	0	1	2	3	2	3	2	0	2	1	2	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:74892287A>G	uc003kdw.2	+	13	1865	c.1769A>G	c.(1768-1770)AAA>AGA	p.K590R	POLK_uc003kdx.2_RNA|POLK_uc003kdy.2_RNA|POLK_uc010izq.2_Missense_Mutation_p.K392R|POLK_uc003kec.2_Missense_Mutation_p.K500R|POLK_uc010izr.2_RNA|POLK_uc010izs.2_RNA|POLK_uc003ked.2_Intron|POLK_uc003kee.2_Intron|POLK_uc003kef.2_Missense_Mutation_p.K500R	NM_016218	NP_057302	Q9UBT6	POLK_HUMAN	DNA-directed DNA polymerase kappa	590					DNA replication|nucleotide-excision repair, DNA gap filling	nucleus	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|kidney(2)	4		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;2.9e-54)|all cancers(79;1.27e-42)		GCCGTGAATAAACAAAGTTTC	0.333								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					43	92					0	0	1	0	0		G	74892287	G	G	74892287	3	3	89	1	0	0	0	0	1	0	0	0	12223	14	1	3	1815	3	POLK	5	74892287	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	22672	74892287	106022973	2324	56155											
SV2C	22987	broad.mit.edu	37	chr5	75427987	75427987	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaagagttagcccagcagTatgagctgataatccaagaa	16	7	11	7	0	0	4	0	2	0	2	1	5	1	5	2	1	3	4	2	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:75427987T>C	uc003kei.1	+	2	546	c.412T>C	c.(412-414)TAT>CAT	p.Y138H		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	138	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		AGCCCAGCAGTATGAGCTGAT	0.547													37	89					0	0	1	0	0		C	75427987	C	C	75427987	3	2	89	1	0	0	0	0	1	0	0	0	15444	1638	57	3	414	3	SV2C	5	75427987	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	535700	75427987	105487273	2325	56156											
F2RL2	2151	broad.mit.edu	37	chr5	75913486	75913486	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggatctaagcaactattaAgactacccaggcacaaagct	16	8	7	10	0	1	1	0	0	1	1	1	2	1	2	1	2	4	3	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:75913486A>C	uc003kem.2	-	2	1231	c.1046T>G	c.(1045-1047)CTT>CGT	p.L349R	IQGAP2_uc003kek.2_Intron|IQGAP2_uc010izv.2_Intron|IQGAP2_uc011csv.1_Intron|IQGAP2_uc003kel.2_Intron|F2RL2_uc011csw.1_Missense_Mutation_p.L327R	NM_004101	NP_004092	O00254	PAR3_HUMAN	coagulation factor II (thrombin) receptor-like 2	349	Helical; Name=7; (Potential).				platelet activation	extracellular region|integral to plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|thrombin receptor activity			skin(2)|ovary(1)	3		all_lung(232;0.000462)|Lung NSC(167;0.00124)|Prostate(461;0.00955)|Ovarian(174;0.0129)		all cancers(79;4.43e-43)		GCAACTATTAAGACTACCCAG	0.328													28	58					0	0	1	0	0		C	75913486	C	C	75913486	3	2	89	1	0	0	0	0	1	0	0	0	5353	72	3	5	82	5	F2RL2	5	75913486	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	485499	75913486	105001774	2326	56157											
IQGAP2	10788	broad.mit.edu	37	chr5	75927780	75927780	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacttctaatgcaaatgAcataatcccggagtgtgctg	11	12	8	10	1	1	1	0	1	1	0	3	2	3	2	2	1	2	2	2	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:75927780A>G	uc003kek.2	+	15	1931	c.1709A>G	c.(1708-1710)GAC>GGC	p.D570G	IQGAP2_uc010izv.2_Missense_Mutation_p.D123G|IQGAP2_uc011csv.1_Missense_Mutation_p.D123G|IQGAP2_uc003kel.2_Missense_Mutation_p.D123G	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	570					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		AATGCAAATGACATAATCCCG	0.388													31	61					0	0	1	0	0		G	75927780	G	G	75927780	3	3	89	1	0	0	0	0	1	0	0	0	7831	275	10	3	1767	3	IQGAP2	5	75927780	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	14294	75927780	104987480	2327	56158											
F2RL1	2150	broad.mit.edu	37	chr5	76129240	76129240	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgatgatcagaatgctgCgatcttctgccatggatgaa	10	12	11	8	1	3	4	1	3	2	1	3	6	3	5	1	1	4	2	1	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:76129240C>T	uc003keo.2	+	2	983	c.808C>T	c.(808-810)CGA>TGA	p.R270*		NM_005242	NP_005233	P55085	PAR2_HUMAN	coagulation factor II (thrombin) receptor-like 1	270	Cytoplasmic (Potential).				blood coagulation|elevation of cytosolic calcium ion concentration|positive regulation of leukocyte chemotaxis|positive regulation of positive chemotaxis|regulation of blood coagulation	Golgi apparatus|integral to plasma membrane	receptor binding|thrombin receptor activity			central_nervous_system(1)	1		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;7.7e-51)|Epithelial(54;2.77e-45)|all cancers(79;3.47e-41)		CAGAATGCTGCGATCTTCTGC	0.493													59	100					0	0	1	0	0		T	76129240	T	T	76129240	4	4	89	1	0	0	0	0	0	1	0	0	5352	760	27	1	814	1	F2RL1	5	76129240	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	201460	76129240	104786020	2328	56159											
AGGF1	55109	broad.mit.edu	37	chr5	76344002	76344002	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagatgaagacaaaatttgGcccccatgtattagagtaat	15	10	9	7	0	0	4	0	1	0	3	0	4	0	4	2	1	0	3	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:76344002G>A	uc003ket.2	+	7	1578	c.1218G>A	c.(1216-1218)TGG>TGA	p.W406*		NM_018046	NP_060516	Q8N302	AGGF1_HUMAN	angiogenic factor VG5Q	406					angiogenesis|cell adhesion|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|RNA processing|vasculogenesis	extracellular region|perinuclear region of cytoplasm	eukaryotic cell surface binding|nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;4.51e-51)|Epithelial(54;2.2e-45)|all cancers(79;6.68e-41)		ACAAAATTTGGCCCCCATGTA	0.353													33	101					0	0	1	0	0		A	76344002	A	A	76344002	4	1	89	1	0	0	0	0	0	1	0	0	382	1212	42	2	1244	2	AGGF1	5	76344002	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	214762	76344002	104571258	2329	56160											
AP3B1	8546	broad.mit.edu	37	chr5	77409712	77409712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctccttcctccccactttCgccttgttctccactttcac	3	16	3	19	1	3	0	1	0	2	0	8	0	5	0	6	0	0	1	6	0	0	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:77409712C>T	uc003kfj.2	-	19	2238	c.2113G>A	c.(2113-2115)GAA>AAA	p.E705K		NM_003664	NP_003655	O00203	AP3B1_HUMAN	adaptor-related protein complex 3, beta 1	705	Glu/Ser-rich.				endocytosis|melanosome organization	clathrin coated vesicle membrane|Golgi apparatus|membrane coat	protein phosphatase binding|protein transporter activity			central_nervous_system(1)	1		all_lung(232;0.000397)|Lung NSC(167;0.00106)|Ovarian(174;0.0105)|Prostate(461;0.215)		OV - Ovarian serous cystadenocarcinoma(54;8.23e-47)|Epithelial(54;2.74e-41)|all cancers(79;4.8e-36)		TCCCCACTTTCGCCTTGTTCT	0.463									Hermansky-Pudlak_syndrome				15	38					0	0	1	0	0		T	77409712	T	T	77409712	3	4	89	1	0	0	0	0	1	0	0	0	744	893	31	1	1207	1	AP3B1	5	77409712	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1065710	77409712	103505548	2330	56161											
AP3B1	8546	broad.mit.edu	37	chr5	77423858	77423858	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaggtcaacttaccaacTctattacttctacatttcga	14	13	4	10	1	3	1	1	0	2	1	4	2	3	1	1	1	5	0	1	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:77423858T>G	uc003kfj.2	-	17	2089	c.1964A>C	c.(1963-1965)GAG>GCG	p.E655A		NM_003664	NP_003655	O00203	AP3B1_HUMAN	adaptor-related protein complex 3, beta 1	655					endocytosis|melanosome organization	clathrin coated vesicle membrane|Golgi apparatus|membrane coat	protein phosphatase binding|protein transporter activity			central_nervous_system(1)	1		all_lung(232;0.000397)|Lung NSC(167;0.00106)|Ovarian(174;0.0105)|Prostate(461;0.215)		OV - Ovarian serous cystadenocarcinoma(54;8.23e-47)|Epithelial(54;2.74e-41)|all cancers(79;4.8e-36)		ACTTACCAACTCTATTACTTC	0.373									Hermansky-Pudlak_syndrome				8	100					0	0	1	0	0		G	77423858	G	G	77423858	3	3	89	1	0	0	0	0	1	0	0	0	744	1551	54	5	1364	5	AP3B1	5	77423858	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	14146	77423858	103491402	2331	56162											
SCAMP1	9522	broad.mit.edu	37	chr5	77717663	77717663	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctaaatatcttcggatgcTtggcttggttttgtgttgat	6	20	10	5	1	2	1	0	1	2	0	3	2	2	2	0	3	1	4	0	3	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:77717663T>C	uc003kfl.2	+	6	668	c.511T>C	c.(511-513)TTG>CTG	p.L171L	SCAMP1_uc010jaa.2_Intron|SCAMP1_uc011ctc.1_RNA|SCAMP1_uc011ctd.1_RNA|SCAMP1_uc003kfm.2_RNA	NM_004866	NP_004857	O15126	SCAM1_HUMAN	secretory carrier membrane protein 1	171	Helical; (Potential).				post-Golgi vesicle-mediated transport|protein transport	integral to membrane|recycling endosome membrane|trans-Golgi network	protein binding				0		all_lung(232;0.000397)|Lung NSC(167;0.00105)|Ovarian(174;0.0105)|Prostate(461;0.214)		OV - Ovarian serous cystadenocarcinoma(54;1.9e-46)|Epithelial(54;9.4e-43)|all cancers(79;1.12e-37)		CTTCGGATGCTTGGCTTGGTT	0.358													16	161					0	0	1	0	0		C	77717663	C	C	77717663	2	2	89	1	0	0	0	0	0	0	0	1	13895	1606	56	3		3	SCAMP1	5	77717663	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	293805	77717663	103197597	2332	56163											
JMY	133746	broad.mit.edu	37	chr5	78608246	78608246	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagagaaaaattacatgaTgaagaagaaagaaaaagtgc	24	5	10	2	0	0	7	0	2	0	5	0	8	0	7	0	0	2	0	0	0	9	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:78608246T>C	uc003kfx.3	+	8	2509	c.1989T>C	c.(1987-1989)GAT>GAC	p.D663D	JMY_uc003kfw.1_Silent_p.D309D	NM_152405	NP_689618	Q8N9B5	JMY_HUMAN	junction-mediating and regulatory protein	663					'de novo' actin filament nucleation|actin polymerization-dependent cell motility|Arp2/3 complex-mediated actin nucleation|cell cycle arrest|DNA repair|induction of apoptosis|positive regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter	cell leading edge|cytoplasm|cytoskeleton|nucleus	actin binding|transcription coactivator activity				0		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;4.45e-45)|Epithelial(54;5.85e-40)|all cancers(79;2.89e-35)		AATTACATGATGAAGAAGAAA	0.313													31	64					0	0	1	0	0		C	78608246	C	C	78608246	2	2	89	1	0	0	0	0	0	0	0	1	7973	1461	51	3		3	JMY	5	78608246	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	890583	78608246	102307014	2333	56164											
JMY	133746	broad.mit.edu	37	chr5	78608266	78608266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaagaagaaagaaaaagtgCctgggttagccaagagagac	18	5	13	5	0	0	6	0	1	0	5	0	7	0	6	2	1	2	1	2	1	7	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:78608266C>T	uc003kfx.3	+	8	2529	c.2009C>T	c.(2008-2010)GCC>GTC	p.A670V	JMY_uc003kfw.1_Missense_Mutation_p.A316V	NM_152405	NP_689618	Q8N9B5	JMY_HUMAN	junction-mediating and regulatory protein	670					'de novo' actin filament nucleation|actin polymerization-dependent cell motility|Arp2/3 complex-mediated actin nucleation|cell cycle arrest|DNA repair|induction of apoptosis|positive regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter	cell leading edge|cytoplasm|cytoskeleton|nucleus	actin binding|transcription coactivator activity				0		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;4.45e-45)|Epithelial(54;5.85e-40)|all cancers(79;2.89e-35)		AGAAAAAGTGCCTGGGTTAGC	0.294													34	67					0	0	1	0	0		T	78608266	T	T	78608266	3	4	89	1	0	0	0	0	1	0	0	0	7973	739	26	2	2039	2	JMY	5	78608266	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	20	78608266	102306994	2334	56165											
HOMER1	9456	broad.mit.edu	37	chr5	78734856	78734856	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtgaaaatggcaatgcattCtgagttggttcagcccttgg	9	13	12	7	0	2	2	1	2	1	0	2	2	2	2	1	3	2	4	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:78734856C>T	uc003kfy.2	-	5	1607	c.504G>A	c.(502-504)CAG>CAA	p.Q168Q	HOMER1_uc010jab.2_Silent_p.Q168Q|HOMER1_uc010jac.2_Intron|HOMER1_uc010jad.2_Intron	NM_004272	NP_004263	Q86YM7	HOME1_HUMAN	homer 1	168					activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic density|postsynaptic membrane					0		Lung NSC(167;0.00131)|all_lung(232;0.00151)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.87e-44)|Epithelial(54;7.07e-41)|all cancers(79;5.5e-36)		GCAATGCATTCTGAGTTGGTT	0.393													29	93					0	0	1	0	0		T	78734856	T	T	78734856	2	4	89	1	0	0	0	0	0	0	0	1	7294	912	32	4		4	HOMER1	5	78734856	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	126590	78734856	102180404	2335	56166											
PAPD4	167153	broad.mit.edu	37	chr5	78975427	78975427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atagtcaaatgatttcagttCgtgaagccaaagccattcca	14	11	7	9	1	2	2	2	2	0	0	4	2	3	2	3	0	2	1	3	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:78975427C>T	uc010jae.1	+	14	1652	c.1234C>T	c.(1234-1236)CGT>TGT	p.R412C	PAPD4_uc003kgb.2_Missense_Mutation_p.R412C|PAPD4_uc010jaf.1_Missense_Mutation_p.R412C|PAPD4_uc003kga.2_Missense_Mutation_p.R408C|PAPD4_uc003kfz.2_Missense_Mutation_p.R369C	NM_001114393	NP_001107865	Q6PIY7	GLD2_HUMAN	PAP associated domain containing 4	412	PAP-associated.				histone mRNA catabolic process|mRNA processing|RNA polyadenylation	cytoplasm	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity			ovary(1)	1		Lung NSC(167;0.00293)|all_lung(232;0.00323)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;8.61e-47)|Epithelial(54;1.32e-41)|all cancers(79;2.45e-36)		GATTTCAGTTCGTGAAGCCAA	0.313													27	45					0	0	1	0	0		T	78975427	T	T	78975427	3	4	89	1	0	0	0	0	1	0	0	0	11443	884	31	1	1280	1	PAPD4	5	78975427	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	240571	78975427	101939833	2336	56167											
CMYA5	202333	broad.mit.edu	37	chr5	79026867	79026867	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcaccatccacaaccgAaaagacttctgaatgccagt	13	9	5	14	1	3	2	1	1	2	1	5	3	4	2	4	0	2	0	4	0	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:79026867A>C	uc003kgc.2	+	2	2351	c.2279A>C	c.(2278-2280)GAA>GCA	p.E760A		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	760						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TCCACAACCGAAAAGACTTCT	0.512													40	70					0	0	1	0	0		C	79026867	C	C	79026867	3	2	89	1	0	0	0	0	1	0	0	0	3593	246	9	5	2285	5	CMYA5	5	79026867	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	51440	79026867	101888393	2337	56168											
CMYA5	202333	broad.mit.edu	37	chr5	79028077	79028077	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatctatagtaaaggaagaAaccaaacctgcatctccaca	17	8	5	11	0	3	1	1	0	2	1	4	2	3	2	3	1	3	2	3	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:79028077A>C	uc003kgc.2	+	2	3561	c.3489A>C	c.(3487-3489)GAA>GAC	p.E1163D		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1163						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TAAAGGAAGAAACCAAACCTG	0.443													23	36					0	0	1	0	0		C	79028077	C	C	79028077	3	2	89	1	0	0	0	0	1	0	0	0	3593	11	1	5	3495	5	CMYA5	5	79028077	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1210	79028077	101887183	2338	56169											
CMYA5	202333	broad.mit.edu	37	chr5	79028508	79028508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aatggagatgaaacatgattCcaaaataacaactacaccta	20	8	5	8	0	0	3	0	2	0	1	1	4	1	3	2	1	4	0	2	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:79028508C>T	uc003kgc.2	+	2	3992	c.3920C>T	c.(3919-3921)TCC>TTC	p.S1307F		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1307						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AAACATGATTCCAAAATAACA	0.393													6	23					0	0	1	0	0		T	79028508	T	T	79028508	3	4	89	1	0	0	0	0	1	0	0	0	3593	855	30	4	3926	4	CMYA5	5	79028508	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	431	79028508	101886752	2339	56170											
CMYA5	202333	broad.mit.edu	37	chr5	79028992	79028992	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagtagaagccaaagaagtTaaagctgggttgccagtaat	16	8	12	5	0	0	2	0	0	0	2	0	3	0	2	2	1	3	5	2	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:79028992T>G	uc003kgc.2	+	2	4476	c.4404T>G	c.(4402-4404)GTT>GTG	p.V1468V		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1468						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CCAAAGAAGTTAAAGCTGGGT	0.378													45	70					0	0	1	0	0		G	79028992	G	G	79028992	2	3	89	1	0	0	0	0	0	0	0	1	3593	1741	61	5		5	CMYA5	5	79028992	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	484	79028992	101886268	2340	56171											
CMYA5	202333	broad.mit.edu	37	chr5	79031392	79031392	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttaaagaaaaatccatgatTttatcaaatgtagaagattt	18	14	6	3	0	1	4	1	1	0	3	2	4	2	4	1	0	0	2	1	0	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:79031392T>G	uc003kgc.2	+	2	6876	c.6804T>G	c.(6802-6804)ATT>ATG	p.I2268M		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2268						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AATCCATGATTTTATCAAATG	0.338													44	97					0	0	1	0	0		G	79031392	G	G	79031392	3	3	89	1	0	0	0	0	1	0	0	0	3593	1829	64	5	6810	5	CMYA5	5	79031392	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2400	79031392	101883868	2341	56172											
CMYA5	202333	broad.mit.edu	37	chr5	79031470	79031470	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gattatggaaaaaaagaaatCtcaggcgattcagaggaaat	19	8	10	4	1	2	2	2	0	1	2	3	6	2	4	0	3	0	0	0	3	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:79031470C>T	uc003kgc.2	+	2	6954	c.6882C>T	c.(6880-6882)ATC>ATT	p.I2294I		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2294						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AAAAAGAAATCTCAGGCGATT	0.338													49	86					0	0	1	0	0		T	79031470	T	T	79031470	2	4	89	1	0	0	0	0	0	0	0	1	3593	903	32	4		4	CMYA5	5	79031470	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	78	79031470	101883790	2342	56173											
CMYA5	202333	broad.mit.edu	37	chr5	79032569	79032569	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggaaatctagtattagaaAagtcaagcagagatatgcca	19	8	9	5	0	2	2	1	0	1	2	2	4	2	3	1	1	2	2	1	1	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:79032569A>C	uc003kgc.2	+	2	8053	c.7981A>C	c.(7981-7983)AAG>CAG	p.K2661Q		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2661						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AGTATTAGAAAAGTCAAGCAG	0.408													16	39					0	0	1	0	0		C	79032569	C	C	79032569	3	2	89	1	0	0	0	0	1	0	0	0	3593	15	1	5	7987	5	CMYA5	5	79032569	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1099	79032569	101882691	2343	56174											
THBS4	7060	broad.mit.edu	37	chr5	79378945	79378945	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtttcaaacccagaattTcgaccgcttcgataattaaa	15	11	6	9	3	1	2	1	0	0	2	3	4	1	2	2	0	1	2	2	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:79378945T>G	uc003kgh.2	+	23	3190	c.2867T>G	c.(2866-2868)TTC>TGC	p.F956C	uc003kgi.3_Intron	NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	956					endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		ACCCAGAATTTCGACCGCTTC	0.443											OREG0016685	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	43	67					0	0	1	0	0		G	79378945	G	G	79378945	3	3	89	1	0	0	0	0	1	0	0	0	15881	1783	62	5	2953	5	THBS4	5	79378945	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	346376	79378945	101536315	2344	56175											
ZFYVE16	9765	broad.mit.edu	37	chr5	79732754	79732754	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagttccctgaatgaaaaaAcactcaagggacttacttct	15	10	7	9	0	2	3	1	2	1	1	3	4	3	4	1	1	2	1	1	1	6	3	rs145932207		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:79732754A>G	uc003kgr.3	+	4	552	c.250A>G	c.(250-252)ACA>GCA	p.T84A	ZFYVE16_uc010jak.1_Missense_Mutation_p.T84A|ZFYVE16_uc003kgp.2_Missense_Mutation_p.T84A|ZFYVE16_uc003kgq.3_Missense_Mutation_p.T84A|ZFYVE16_uc003kgs.3_Missense_Mutation_p.T84A	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	84					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		GAATGAAAAAACACTCAAGGG	0.393													37	64					0	0	1	0	0		G	79732754	G	G	79732754	3	3	89	1	0	0	0	0	1	0	0	0	17689	43	2	3	256	3	ZFYVE16	5	79732754	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	353809	79732754	101182506	2345	56176											
ZFYVE16	9765	broad.mit.edu	37	chr5	79733028	79733028	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgtcagatactccctgtgTttcttcaacagaccatgata	11	13	7	10	0	3	3	2	1	1	2	4	3	4	3	2	0	2	1	2	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:79733028T>C	uc003kgr.3	+	4	826	c.524T>C	c.(523-525)GTT>GCT	p.V175A	ZFYVE16_uc010jak.1_Missense_Mutation_p.V175A|ZFYVE16_uc003kgp.2_Missense_Mutation_p.V175A|ZFYVE16_uc003kgq.3_Missense_Mutation_p.V175A|ZFYVE16_uc003kgs.3_Missense_Mutation_p.V175A	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	175					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		ACTCCCTGTGTTTCTTCAACA	0.338													35	61					0	0	1	0	0		C	79733028	C	C	79733028	3	2	89	1	0	0	0	0	1	0	0	0	17689	1725	60	3	530	3	ZFYVE16	5	79733028	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	274	79733028	101182232	2346	56177											
ZFYVE16	9765	broad.mit.edu	37	chr5	79746389	79746389	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agactatttatcaccatataTaaggatgctctaaaaggtat	16	13	6	6	0	2	1	1	0	1	1	2	2	2	2	1	2	1	2	1	2	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:79746389T>C	uc003kgr.3	+	10	3668	c.3366T>C	c.(3364-3366)TAT>TAC	p.Y1122Y	ZFYVE16_uc003kgp.2_Silent_p.Y1122Y|ZFYVE16_uc003kgq.3_Silent_p.Y1122Y|ZFYVE16_uc003kgs.3_Silent_p.Y1122Y|ZFYVE16_uc003kgt.3_Silent_p.Y210Y	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	1122					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		TCACCATATATAAGGATGCTC	0.348													54	105					0	0	1	0	0		C	79746389	C	C	79746389	2	2	89	1	0	0	0	0	0	0	0	1	17689	1413	49	3		3	ZFYVE16	5	79746389	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	13361	79746389	101168871	2347	56178											
ZFYVE16	9765	broad.mit.edu	37	chr5	79752310	79752310	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaccagtataccttgcatAatatagatcaactgttgatt	14	15	5	7	0	1	2	1	1	0	1	1	2	1	2	2	0	4	3	2	0	7	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:79752310A>C	uc003kgr.3	+	13	4023	c.3721A>C	c.(3721-3723)AAT>CAT	p.N1241H	ZFYVE16_uc003kgq.3_Missense_Mutation_p.N1241H|ZFYVE16_uc003kgs.3_Missense_Mutation_p.N1241H|ZFYVE16_uc003kgt.3_Missense_Mutation_p.N329H|ZFYVE16_uc003kgu.3_5'UTR	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	1241					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		TACCTTGCATAATATAGATCA	0.299													34	69					0	0	1	0	0		C	79752310	C	C	79752310	3	2	89	1	0	0	0	0	1	0	0	0	17689	362	13	5	3763	5	ZFYVE16	5	79752310	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	5921	79752310	101162950	2348	56179											
MSH3	4437	broad.mit.edu	37	chr5	80064742	80064742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaattcaaggtgttattgacGagatccgaatgcatttgcaa	14	12	9	6	2	1	2	1	1	0	1	2	4	2	2	1	1	2	3	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:80064742G>A	uc003kgz.2	+	15	2426	c.2173G>A	c.(2173-2175)GAG>AAG	p.E725K		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	725					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		TGTTATTGACGAGATCCGAAT	0.328								MMR					33	58					0	0	1	0	0		A	80064742	A	A	80064742	3	1	89	1	0	0	0	0	1	0	0	0	9889	1059	37	1	2231	1	MSH3	5	80064742	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	312432	80064742	100850518	2349	56180											
MSH3	4437	broad.mit.edu	37	chr5	80109451	80109451	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggaccaaacatgggtggaAagagctcctacataaaacaa	17	5	9	10	1	0	1	0	0	0	1	1	3	1	3	3	3	4	1	3	3	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:80109451A>C	uc003kgz.2	+	20	2957	c.2704A>C	c.(2704-2706)AAG>CAG	p.K902Q		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	902	ATP (Potential).				maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		CATGGGTGGAAAGAGCTCCTA	0.393								MMR					44	82					0	0	1	0	0		C	80109451	C	C	80109451	3	2	89	1	0	0	0	0	1	0	0	0	9889	15	1	5	2782	5	MSH3	5	80109451	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	44709	80109451	100805809	2350	56181											
RASGRF2	5924	broad.mit.edu	37	chr5	80422905	80422905	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaccaggacagacggcggAcaatgcccactgctctgttt	11	8	10	12	2	1	1	0	0	1	1	1	3	1	3	2	3	3	2	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:80422905A>G	uc003kha.1	+	17	2609	c.2609A>G	c.(2608-2610)GAC>GGC	p.D870G	RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	870					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		CAGACGGCGGACAATGCCCAC	0.468													21	43					0	0	1	0	0		G	80422905	G	G	80422905	3	3	89	1	0	0	0	0	1	0	0	0	13098	275	10	3	2675	3	RASGRF2	5	80422905	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	313454	80422905	100492355	2351	56182											
RASGRF2	5924	broad.mit.edu	37	chr5	80497154	80497154	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattttattttacaggatttCgaactcaacaatgaactaaa	16	14	4	7	1	1	1	1	1	0	0	2	3	1	2	0	1	4	0	0	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:80497154C>T	uc003kha.1	+	19	2799	c.2799C>T	c.(2797-2799)TTC>TTT	p.F933F	RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	933					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		TACAGGATTTCGAACTCAACA	0.368													32	56					0	0	1	0	0		T	80497154	T	T	80497154	2	4	89	1	0	0	0	0	0	0	0	1	13098	883	31	1		1	RASGRF2	5	80497154	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	74249	80497154	100418106	2352	56183											
CKMT2	1160	broad.mit.edu	37	chr5	80559356	80559356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacctaagactccagaagcGtggcacaggtggtgtggaca	13	6	13	9	1	0	2	0	0	0	2	1	3	1	3	2	4	2	1	2	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:80559356G>A	uc003khc.3	+	10	1303	c.1061G>A	c.(1060-1062)CGT>CAT	p.R354H	RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Missense_Mutation_p.R354H|CKMT2_uc003khd.3_Missense_Mutation_p.R354H|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816	P17540	KCRS_HUMAN	sarcomeric mitochondrial creatine kinase	354	Phosphagen kinase C-terminal.|ATP.				creatine metabolic process|muscle contraction	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;2.29e-44)|Epithelial(54;1.05e-38)|all cancers(79;4.15e-34)	Creatine(DB00148)	CTCCAGAAGCGTGGCACAGGT	0.453													47	67					0	0	1	0	0		A	80559356	A	A	80559356	3	1	89	1	0	0	0	0	1	0	0	0	3454	1145	40	1	1091	1	CKMT2	5	80559356	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	62202	80559356	100355904	2353	56184											
ACOT12	134526	broad.mit.edu	37	chr5	80639678	80639678	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcaaagtggaacctcttCtttgtgggaaataacatatt	13	14	8	6	0	2	0	0	0	2	0	2	2	2	2	1	2	3	1	1	2	6	6	rs149926544		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:80639678C>A	uc003khl.3	-	10	1058	c.1003G>T	c.(1003-1005)GAA>TAA	p.E335*	RNU5E_uc011cto.1_Intron	NM_130767	NP_570123	Q8WYK0	ACO12_HUMAN	acyl-CoA thioesterase 12	335					acyl-CoA metabolic process|fatty acid metabolic process	cytosol	acetyl-CoA hydrolase activity|carboxylesterase activity			ovary(1)|kidney(1)	2		Lung NSC(167;0.0176)|all_lung(232;0.0205)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;1.37e-45)|Epithelial(54;1.25e-39)|all cancers(79;5.01e-34)		GGAACCTCTTCTTTGTGGGAA	0.318													16	44					3.41278e-10	3.69662e-10	1	1	0		A	80639678	A	A	80639678	4	1	89	1	0	0	0	0	0	1	0	0	150	922	32	5	688	5	ACOT12	5	80639678	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	80322	80639678	100275582	2354	56185											
RPS23	6228	broad.mit.edu	37	chr5	81573622	81573622	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatcatgccacttctggtcTcgtcggtgactacggagctt	6	14	10	11	3	3	1	1	1	2	0	5	2	3	2	1	3	3	1	1	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:81573622T>G	uc003khu.2	-	2	147	c.54A>C	c.(52-54)CGA>CGC	p.R18R	ATP6AP1L_uc003khv.2_5'Flank	NM_001025	NP_001016	P62266	RS23_HUMAN	ribosomal protein S23	18					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein binding|structural constituent of ribosome				0		Lung NSC(167;0.0025)|all_lung(232;0.00278)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;1.94e-42)|Epithelial(54;8.38e-37)|all cancers(79;1.42e-31)		ACTTCTGGTCTCGTCGGTGAC	0.448													35	61					0	0	1	0	0		G	81573622	G	G	81573622	2	3	89	1	0	0	0	0	0	0	0	1	13659	1538	54	5		5	RPS23	5	81573622	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	933944	81573622	99341638	2355	56186											
VCAN	1462	broad.mit.edu	37	chr5	82815188	82815188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaaagaggctacaaccatcGatttgagtatcctcgcagaa	14	9	8	10	2	0	3	0	1	0	2	3	4	1	3	2	1	2	3	2	1	6	4	rs143128206	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:82815188G>A	uc003kii.3	+	7	1419	c.1063G>A	c.(1063-1065)GAT>AAT	p.D355N	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.D355N|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	355	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TACAACCATCGATTTGAGTAT	0.368													100	34					0	0	1	0	0		A	82815188	A	A	82815188	3	1	89	1	0	0	0	0	1	0	0	0	17164	1058	37	1	1085	1	VCAN	5	82815188	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1241566	82815188	98100072	2356	56187											
VCAN	1462	broad.mit.edu	37	chr5	82833723	82833723	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagagctctcagggagttCttcgattccaattacagaag	11	12	10	8	1	2	2	1	0	2	2	5	4	3	3	1	1	2	3	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:82833723C>A	uc003kii.3	+	8	5257	c.4901C>A	c.(4900-4902)TCT>TAT	p.S1634Y	VCAN_uc003kij.3_Missense_Mutation_p.S647Y|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.S298Y	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1634	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TCAGGGAGTTCTTCGATTCCA	0.418													31	48					7.01153e-11	7.64216e-11	1	1	0		A	82833723	A	A	82833723	3	1	89	1	0	0	0	0	1	0	0	0	17164	913	32	5	4927	5	VCAN	5	82833723	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	18535	82833723	98081537	2357	56188											
VCAN	1462	broad.mit.edu	37	chr5	82834640	82834640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttcagtggtgactttagaGaatactcaacagtgtctcat	12	14	8	7	0	3	2	3	1	1	1	4	3	3	2	0	1	2	0	0	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:82834640G>A	uc003kii.3	+	8	6174	c.5818G>A	c.(5818-5820)GAA>AAA	p.E1940K	VCAN_uc003kij.3_Missense_Mutation_p.E953K|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.E604K	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1940	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TGACTTTAGAGAATACTCAAC	0.438													45	91					0	0	1	0	0		A	82834640	A	A	82834640	3	1	89	1	0	0	0	0	1	0	0	0	17164	943	33	4	5844	4	VCAN	5	82834640	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	917	82834640	98080620	2358	56189											
VCAN	1462	broad.mit.edu	37	chr5	82834920	82834920	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccagtgctgtgcaaaagtTttctggtacagcttcctcca	8	13	8	12	0	1	0	0	0	1	0	4	0	4	0	3	1	4	5	3	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:82834920T>G	uc003kii.3	+	8	6454	c.6098T>G	c.(6097-6099)TTT>TGT	p.F2033C	VCAN_uc003kij.3_Missense_Mutation_p.F1046C|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.F697C	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2033	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GTGCAAAAGTTTTCTGGTACA	0.483													18	36					0	0	1	0	0		G	82834920	G	G	82834920	3	3	89	1	0	0	0	0	1	0	0	0	17164	1841	64	5	6124	5	VCAN	5	82834920	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	280	82834920	98080340	2359	56190											
RASA1	5921	broad.mit.edu	37	chr5	86686667	86686667	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaactgcttcaacaaaaacaAaaccagtatacaaaaaccaa	23	5	3	10	0	1	0	1	0	0	0	1	1	1	0	2	0	7	2	2	0	11	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:86686667A>C	uc003kiw.2	+	25	3229	c.3111A>C	c.(3109-3111)CAA>CAC	p.Q1037H	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Missense_Mutation_p.Q860H|RASA1_uc011ctv.1_Missense_Mutation_p.Q870H|RASA1_uc011ctw.1_Missense_Mutation_p.Q871H|RASA1_uc010jaw.2_Missense_Mutation_p.Q859H	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	1037					cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		AACAAAAACAAAACCAGTATA	0.393													25	39					0	0	1	0	0		C	86686667	C	C	86686667	3	2	89	1	0	0	0	0	1	0	0	0	13085	11	1	5	3221	5	RASA1	5	86686667	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3851747	86686667	94228593	2360	56191											
TMEM161B	153396	broad.mit.edu	37	chr5	87498828	87498828	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcataatgtagtctttggTgattggttttacccagagca	9	16	10	6	0	2	2	1	1	1	1	2	2	2	2	1	2	2	4	1	2	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:87498828T>C	uc003kjc.2	-	9	990	c.865A>G	c.(865-867)ACC>GCC	p.T289A	TMEM161B_uc011cty.1_Missense_Mutation_p.T278A|TMEM161B_uc010jax.2_RNA|TMEM161B_uc011ctz.1_Missense_Mutation_p.T156A|TMEM161B_uc011ctx.1_Missense_Mutation_p.T107A	NM_153354	NP_699185	Q8NDZ6	T161B_HUMAN	transmembrane protein 161B	289						integral to membrane				skin(2)	2		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)		TAGTCTTTGGTGATTGGTTTT	0.353													39	85					0	0	1	0	0		C	87498828	C	C	87498828	3	2	89	1	0	0	0	0	1	0	0	0	16102	1696	59	3	614	3	TMEM161B	5	87498828	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	812161	87498828	93416432	2361	56192											
CETN3	1070	broad.mit.edu	37	chr5	89695264	89695264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaattctctagcaacacgtCgcaaattcctcaagcttatt	12	12	4	13	2	2	0	1	0	1	0	5	0	3	0	2	0	3	3	2	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:89695264C>T	uc003kjo.2	-	4	496	c.371G>A	c.(370-372)CGA>CAA	p.R124Q		NM_004365	NP_004356	O15182	CETN3_HUMAN	centrin 3	124	EF-hand 3.				cell division|centrosome cycle|mitosis	centriole	calcium ion binding				0		all_cancers(142;7.93e-09)|all_epithelial(76;2.13e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;1.42e-32)|Epithelial(54;1.45e-26)|all cancers(79;2.87e-23)		AGCAACACGTCGCAAATTCCT	0.358													32	56					0	0	1	0	0		T	89695264	T	T	89695264	3	4	89	1	0	0	0	0	1	0	0	0	3279	884	31	1	140	1	CETN3	5	89695264	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2196436	89695264	91219996	2362	56193											
LYSMD3	116068	broad.mit.edu	37	chr5	89814712	89814712	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcttgttggctgaaatgtAttcctttagttggcacaatt	9	17	8	7	0	1	1	0	1	1	0	2	1	2	1	1	2	0	5	1	2	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:89814712A>G	uc003kjr.2	-	3	993	c.845T>C	c.(844-846)ATA>ACA	p.I282T	LYSMD3_uc010jaz.1_Missense_Mutation_p.Y124H|LYSMD3_uc003kjs.1_3'UTR	NM_198273	NP_938014	Q7Z3D4	LYSM3_HUMAN	LysM, putative peptidoglycan-binding, domain	282	Cytoplasmic (Potential).				cell wall macromolecule catabolic process	integral to membrane					0		all_cancers(142;5.03e-09)|all_epithelial(76;1.23e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;1.94e-31)|Epithelial(54;5.22e-26)|all cancers(79;2.42e-22)		GCTGAAATGTATTCCTTTAGT	0.373													51	87					0	0	1	0	0		G	89814712	G	G	89814712	3	3	89	1	0	0	0	0	1	0	0	0	9144	449	16	3	79	3	LYSMD3	5	89814712	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	119448	89814712	91100548	2363	56194											
LYSMD3	116068	broad.mit.edu	37	chr5	89821102	89821102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgattctgatgcctccctGccataatgttaaaatctgga	11	13	7	10	1	2	1	0	1	2	0	3	3	3	2	3	1	3	1	3	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:89821102G>A	uc003kjr.2	-	2	153	c.5C>T	c.(4-6)GCA>GTA	p.A2V	LYSMD3_uc010jaz.1_Missense_Mutation_p.A2V|LYSMD3_uc003kjs.1_Missense_Mutation_p.A2V	NM_198273	NP_938014	Q7Z3D4	LYSM3_HUMAN	LysM, putative peptidoglycan-binding, domain	2	Extracellular (Potential).				cell wall macromolecule catabolic process	integral to membrane					0		all_cancers(142;5.03e-09)|all_epithelial(76;1.23e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;1.94e-31)|Epithelial(54;5.22e-26)|all cancers(79;2.42e-22)		ATGCCTCCCTGCCATAATGTT	0.398													11	33					0	0	1	0	0		A	89821102	A	A	89821102	3	1	89	1	0	0	0	0	1	0	0	0	9144	1319	46	2	923	2	LYSMD3	5	89821102	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6390	89821102	91094158	2364	56195											
GPR98	84059	broad.mit.edu	37	chr5	89948166	89948166	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaatttattttgtaggatTttgaggcaccgaggatactt	10	18	9	4	1	0	1	0	1	0	0	0	4	0	3	1	3	1	2	1	3	4	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:89948166T>G	uc003kju.2	+	19	3516	c.3420T>G	c.(3418-3420)ATT>ATG	p.I1140M	GPR98_uc003kjt.2_Translation_Start_Site	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1140	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TTTGTAGGATTTTGAGGCACC	0.353													47	95					0	0	1	0	0		G	89948166	G	G	89948166	3	3	89	1	0	0	0	0	1	0	0	0	6737	1829	64	5	3494	5	GPR98	5	89948166	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	127064	89948166	90967094	2365	56196											
GPR98	84059	broad.mit.edu	37	chr5	89986685	89986685	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtaaacctgccaataattCgaaattctgggacactcggc	13	9	9	10	2	1	0	0	0	1	0	3	2	1	1	2	3	2	1	2	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:89986685C>T	uc003kju.2	+	31	6874	c.6778C>T	c.(6778-6780)CGA>TGA	p.R2260*	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2260	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GCCAATAATTCGAAATTCTGG	0.438													10	24					0	0	1	0	0		T	89986685	T	T	89986685	4	4	89	1	0	0	0	0	0	1	0	0	6737	876	31	1	6900	1	GPR98	5	89986685	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	38519	89986685	90928575	2366	56197											
GPR98	84059	broad.mit.edu	37	chr5	90136657	90136657	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttgtctcagatgcagattCgcaggccatttgggggcttg	6	13	13	9	1	2	2	1	0	2	2	4	2	2	2	1	3	1	3	1	3	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:90136657C>T	uc003kju.2	+	78	16970	c.16874C>T	c.(16873-16875)TCG>TTG	p.S5625L	GPR98_uc003kjt.2_Missense_Mutation_p.S3331L|GPR98_uc003kjw.2_Missense_Mutation_p.S1286L	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	5625	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GATGCAGATTCGCAGGCCATT	0.468													25	63					0	0	1	0	0		T	90136657	T	T	90136657	3	4	89	1	0	0	0	0	1	0	0	0	6737	893	31	1	17184	1	GPR98	5	90136657	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	149972	90136657	90778603	2367	56198											
ARRDC3	57561	broad.mit.edu	37	chr5	90669530	90669530	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaggtggaggcaagaatcGaaactcctggatatatgcaa	16	7	12	6	1	0	2	0	0	0	2	2	5	1	4	1	4	2	2	1	4	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:90669530G>A	uc003kjz.2	-	7	1399	c.1159C>T	c.(1159-1161)CGA>TGA	p.R387*		NM_020801	NP_065852	Q96B67	ARRD3_HUMAN	arrestin domain containing 3	387					signal transduction	cytoplasm	protein binding			ovary(1)|breast(1)	2		all_cancers(142;2.22e-05)|all_epithelial(76;1.58e-07)|all_lung(232;0.000521)|Lung NSC(167;0.000548)|Ovarian(174;0.0798)|Colorectal(57;0.207)		OV - Ovarian serous cystadenocarcinoma(54;4.56e-30)|Epithelial(54;7.55e-26)|all cancers(79;3.63e-22)		GGCAAGAATCGAAACTCCTGG	0.423													36	81					0	0	1	0	0		A	90669530	A	A	90669530	4	1	89	1	0	0	0	0	0	1	0	0	985	1066	37	1	93	1	ARRDC3	5	90669530	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	532873	90669530	90245730	2368	56199											
ARRDC3	57561	broad.mit.edu	37	chr5	90678662	90678662	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caattaagatgtctttatggTtgaaatactctacttcttca	12	17	5	7	0	4	2	1	1	3	1	4	2	4	2	0	1	2	1	0	1	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:90678662T>C	uc003kjz.2	-	1	488	c.248A>G	c.(247-249)AAC>AGC	p.N83S	LOC100129716_uc003kka.3_Intron	NM_020801	NP_065852	Q96B67	ARRD3_HUMAN	arrestin domain containing 3	83					signal transduction	cytoplasm	protein binding			ovary(1)|breast(1)	2		all_cancers(142;2.22e-05)|all_epithelial(76;1.58e-07)|all_lung(232;0.000521)|Lung NSC(167;0.000548)|Ovarian(174;0.0798)|Colorectal(57;0.207)		OV - Ovarian serous cystadenocarcinoma(54;4.56e-30)|Epithelial(54;7.55e-26)|all cancers(79;3.63e-22)		GTCTTTATGGTTGAAATACTC	0.388													9	162					0	0	1	0	0		C	90678662	C	C	90678662	3	2	89	1	0	0	0	0	1	0	0	0	985	1725	60	3	1028	3	ARRDC3	5	90678662	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	9132	90678662	90236598	2369	56200											
TTC37	9652	broad.mit.edu	37	chr5	94863782	94863782	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtttaatcaaagcctctgCtttcaaatgaagacaaagat	16	11	7	7	0	3	3	2	1	1	2	3	4	3	3	1	0	2	2	1	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:94863782C>T	uc003klb.2	-	13	1339	c.1069G>A	c.(1069-1071)GCA>ACA	p.A357T	TTC37_uc010jbf.1_Missense_Mutation_p.A309T	NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	357							binding			ovary(3)|pancreas(1)	4						AAAGCCTCTGCTTTCAAATGA	0.378													32	72					0	0	1	0	0		T	94863782	T	T	94863782	3	4	89	1	0	0	0	0	1	0	0	0	16731	797	28	2	3749	2	TTC37	5	94863782	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4185120	94863782	86051478	2370	56201											
SPATA9	83890	broad.mit.edu	37	chr5	95011265	95011265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatatgctgtttaatccacGaattaatgttgctcgattaa	12	15	8	6	2	0	0	0	0	0	0	2	3	1	1	1	1	2	4	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:95011265G>A	uc003klj.1	-	3	385	c.229C>T	c.(229-231)CGT>TGT	p.R77C	SPATA9_uc010jbh.1_RNA|SPATA9_uc003klh.1_RNA|SPATA9_uc003kli.1_Intron	NM_031952	NP_114158	Q9BWV2	SPAT9_HUMAN	spermatogenesis associated 9	77					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane					0		all_cancers(142;1.28e-06)|all_epithelial(76;1.55e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.00473)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.91e-16)		TTTAATCCACGAATTAATGTT	0.408													34	54					0	0	1	0	0		A	95011265	A	A	95011265	3	1	89	1	0	0	0	0	1	0	0	0	15041	1058	37	1	547	1	SPATA9	5	95011265	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	147483	95011265	85903995	2371	56202											
CAST	831	broad.mit.edu	37	chr5	96064902	96064902	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagaaggaaagccaaaaGaacacacagaggtaaatgat	21	3	9	8	0	0	4	0	1	0	3	0	5	0	5	2	2	2	1	2	2	8	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:96064902G>T	uc003klz.1	+	5	337	c.175G>T	c.(175-177)GAA>TAA	p.E59*	CAST_uc003klt.2_Nonsense_Mutation_p.E59*|CAST_uc003klu.2_Nonsense_Mutation_p.E142*|CAST_uc003klv.2_Nonsense_Mutation_p.E120*|CAST_uc003klw.2_Intron|CAST_uc003klx.2_Intron|CAST_uc003kly.2_Nonsense_Mutation_p.E120*|CAST_uc011cuo.1_Nonsense_Mutation_p.E105*|CAST_uc011cup.1_Nonsense_Mutation_p.E37*|CAST_uc011cuq.1_Intron|CAST_uc011cur.1_Nonsense_Mutation_p.E45*|CAST_uc011cus.1_Nonsense_Mutation_p.E59*|CAST_uc003kma.1_Intron|CAST_uc011cut.1_Nonsense_Mutation_p.E37*|CAST_uc003kmb.2_Intron|CAST_uc003kmc.2_Nonsense_Mutation_p.E59*|CAST_uc003kmd.2_Nonsense_Mutation_p.E37*|CAST_uc003kme.2_Intron|CAST_uc003kmf.2_Nonsense_Mutation_p.E37*	NM_001042443	NP_001035908	P20810	ICAL_HUMAN	calpastatin isoform i	59							calcium-dependent cysteine-type endopeptidase inhibitor activity|protein binding			central_nervous_system(3)|ovary(1)|kidney(1)	5		all_cancers(142;5.27e-07)|all_epithelial(76;8.21e-10)|all_lung(232;0.000396)|Lung NSC(167;0.000539)|Ovarian(225;0.024)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;6.85e-15)		AAAGCCAAAAGAACACACAGA	0.323													21	41					2.41591e-17	2.79654e-17	1	1	0		T	96064902	T	T	96064902	4	4	89	1	0	0	0	0	0	1	0	0	2687	943	33	5	450	5	CAST	5	96064902	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1053637	96064902	84850358	2372	56203											
ERAP1	51752	broad.mit.edu	37	chr5	96117444	96117444	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcagagggcaaattcaatTtggcttttctcagtactgga	10	13	10	8	0	2	1	2	0	1	1	3	2	2	2	0	3	2	4	0	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:96117444T>G	uc003kmm.2	-	16	2747	c.2400A>C	c.(2398-2400)CAA>CAC	p.Q800H	ERAP1_uc003kml.2_Missense_Mutation_p.Q800H|ERAP1_uc010jbm.1_Missense_Mutation_p.Q612H|ERAP1_uc003kmn.2_Missense_Mutation_p.Q800H	NM_001040458	NP_001035548	Q9NZ08	ERAP1_HUMAN	type 1 tumor necrosis factor receptor shedding	800	Lumenal (Potential).				angiogenesis|antigen processing and presentation of endogenous peptide antigen via MHC class I|fat cell differentiation|membrane protein ectodomain proteolysis|regulation of blood pressure|regulation of innate immune response|response to bacterium	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|integral to membrane	aminopeptidase activity|interleukin-1, Type II receptor binding|interleukin-6 receptor binding|metalloexopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		all_cancers(142;1.75e-06)|all_epithelial(76;3.08e-09)|all_lung(232;0.000435)|Lung NSC(167;0.000601)|Ovarian(225;0.024)|Colorectal(57;0.0432)|Breast(839;0.244)		all cancers(79;7.26e-15)|COAD - Colon adenocarcinoma(37;0.071)		CAAATTCAATTTGGCTTTTCT	0.418													35	86					0	0	1	0	0		G	96117444	G	G	96117444	3	3	89	1	0	0	0	0	1	0	0	0	5211	1838	64	5	474	5	ERAP1	5	96117444	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	52542	96117444	84797816	2373	56204											
RGMB	285704	broad.mit.edu	37	chr5	98129003	98129003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttgtgcggcaggtgggtcGctacctgacccttgccatcc	4	11	13	13	2	0	1	0	1	0	0	2	1	1	1	4	3	3	3	4	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:98129003G>A	uc003knc.2	+	5	1385	c.983G>A	c.(982-984)CGC>CAC	p.R328H		NM_001012761	NP_001012779	Q6NW40	RGMB_HUMAN	RGM domain family, member B	287					axon guidance|BMP signaling pathway|cell adhesion|positive regulation of transcription, DNA-dependent	anchored to plasma membrane|ER-Golgi intermediate compartment|membrane raft	identical protein binding				0		all_cancers(142;2.76e-08)|all_epithelial(76;2.98e-11)|all_lung(232;0.000485)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0587)		CAGGTGGGTCGCTACCTGACC	0.597													8	25					0	0	1	0	0		A	98129003	A	A	98129003	3	1	89	1	0	0	0	0	1	0	0	0	13306	1087	38	1	997	1	RGMB	5	98129003	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2011559	98129003	82786257	2374	56205											
CHD1	1105	broad.mit.edu	37	chr5	98209305	98209305	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttaatgttacctgttcgtTctgttcctgaagaactatcc	8	17	7	9	1	1	2	0	1	1	1	4	2	3	2	3	0	2	5	3	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:98209305T>C	uc003knf.2	-	25	3711	c.3563A>G	c.(3562-3564)GAA>GGA	p.E1188G	CHD1_uc010jbn.2_5'UTR	NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	1188					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	ACCTGTTCGTTCTGTTCCTGA	0.318													23	57					0	0	1	0	0		C	98209305	C	C	98209305	3	2	89	1	0	0	0	0	1	0	0	0	3326	1783	62	3	1613	3	CHD1	5	98209305	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	80302	98209305	82705955	2375	56206											
SLCO4C1	353189	broad.mit.edu	37	chr5	101592925	101592925	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgtgaacagtgcaaactTcattgtgtttttacatgtca	12	15	8	6	0	2	2	2	1	0	1	2	2	2	2	0	0	4	2	0	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:101592925T>C	uc003knm.2	-	8	1650	c.1363A>G	c.(1363-1365)AAG>GAG	p.K455E		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	455	Helical; Name=9; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		AGTGCAAACTTCATTGTGTTT	0.373													13	37					0	0	1	0	0		C	101592925	C	C	101592925	3	2	89	1	0	0	0	0	1	0	0	0	14755	1792	62	3	835	3	SLCO4C1	5	101592925	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3383620	101592925	79322335	2376	56207											
SLCO6A1	133482	broad.mit.edu	37	chr5	101735385	101735385	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccgggtctggcatcaataAaatcaccttctgcatctgca	10	11	7	13	1	5	0	2	0	3	0	6	0	6	0	2	2	2	3	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:101735385A>C	uc003knn.2	-	10	1860	c.1688T>G	c.(1687-1689)TTT>TGT	p.F563C	SLCO6A1_uc003kno.2_Missense_Mutation_p.F310C|SLCO6A1_uc003knp.2_Missense_Mutation_p.F563C|SLCO6A1_uc003knq.2_Missense_Mutation_p.F501C	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	563	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		GGCATCAATAAAATCACCTTC	0.338													29	61					0	0	1	0	0		C	101735385	C	C	101735385	3	2	89	1	0	0	0	0	1	0	0	0	14757	14	1	5	487	5	SLCO6A1	5	101735385	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	142460	101735385	79179875	2377	56208											
SLCO6A1	133482	broad.mit.edu	37	chr5	101795417	101795417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtacaccatgcaacgacagCggcaaaaagaaaattaatcc	18	6	7	10	2	0	1	0	0	0	1	1	2	1	1	2	1	4	3	2	1	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:101795417C>T	uc003knn.2	-	5	1136	c.964G>A	c.(964-966)GCT>ACT	p.A322T	SLCO6A1_uc003kno.2_Intron|SLCO6A1_uc003knp.2_Missense_Mutation_p.A322T|SLCO6A1_uc003knq.2_Missense_Mutation_p.A260T	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	322	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		GCAACGACAGCGGCAAAAAGA	0.328													25	61					0	0	1	0	0		T	101795417	T	T	101795417	3	4	89	1	0	0	0	0	1	0	0	0	14757	768	27	1	1231	1	SLCO6A1	5	101795417	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	60032	101795417	79119843	2378	56209											
NUDT12	83594	broad.mit.edu	37	chr5	102895125	102895125	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccccaaaatacagcaatgTccagtgcagtctgccttgat	13	9	7	12	0	1	1	0	1	1	0	2	1	2	1	4	0	5	2	4	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:102895125T>C	uc003koi.2	-	3	344	c.251A>G	c.(250-252)GAC>GGC	p.D84G	NUDT12_uc011cvb.1_Missense_Mutation_p.D66G|NUDT12_uc010jbq.1_3'UTR	NM_031438	NP_113626	Q9BQG2	NUD12_HUMAN	nudix-type motif 12	84	ANK 3.					nucleus|peroxisome	metal ion binding|NAD+ diphosphatase activity				0		all_cancers(142;6.38e-08)|all_epithelial(76;1.99e-10)|Prostate(80;0.0138)|Lung NSC(167;0.0212)|Colorectal(57;0.0247)|all_lung(232;0.0283)|Ovarian(225;0.0423)		Epithelial(69;9.3e-13)|COAD - Colon adenocarcinoma(37;0.0221)		TACAGCAATGTCCAGTGCAGT	0.373													36	55					0	0	1	0	0		C	102895125	C	C	102895125	3	2	89	1	0	0	0	0	1	0	0	0	10747	1667	58	3	1157	3	NUDT12	5	102895125	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1099708	102895125	78020135	2379	56210											
FBXL17	64839	broad.mit.edu	37	chr5	107216831	107216831	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgatttctttacaccatccGacatccacagtctctattgt	9	15	5	12	1	2	1	0	1	2	0	5	2	4	1	3	0	1	0	3	0	2	5	rs143348449	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:107216831G>A	uc011cvc.1	-	8	2279	c.1872C>T	c.(1870-1872)GTC>GTT	p.V624V	FBXL17_uc003kon.3_Silent_p.V226V	NM_001163315	NP_001156787	Q9UF56	FXL17_HUMAN	F-box and leucine-rich repeat protein 17	624											0		all_cancers(142;0.00273)|all_epithelial(76;0.000362)|Prostate(80;0.0115)|Myeloproliferative disorder(839;0.0393)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;9.63e-11)|Epithelial(69;4.02e-10)		TACACCATCCGACATCCACAG	0.468													44	82					0	0	1	0	0		A	107216831	A	A	107216831	2	1	89	1	0	0	0	0	0	0	0	1	5727	1045	37	1		1	FBXL17	5	107216831	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4321706	107216831	73698429	2380	56211											
FER	2241	broad.mit.edu	37	chr5	108203635	108203635	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttacaaaagatgcaagaaGaaatgataaaagcactgtaa	21	7	7	6	0	0	4	0	1	0	3	0	4	0	4	1	0	3	3	1	0	9	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:108203635G>T	uc003kop.1	+	6	1033	c.649G>T	c.(649-651)GAA>TAA	p.E217*	FER_uc011cve.1_Nonsense_Mutation_p.E157*|FER_uc011cvf.1_RNA|FER_uc011cvg.1_Nonsense_Mutation_p.E42*	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	217	Important for interaction with membranes containing phosphoinositides.				intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		GATGCAAGAAGAAATGATAAA	0.353													17	43					3.32936e-07	3.48551e-07	1	1	0		T	108203635	T	T	108203635	4	4	89	1	0	0	0	0	0	1	0	0	5827	943	33	5	663	5	FER	5	108203635	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	986804	108203635	72711625	2381	56212											
MAN2A1	4124	broad.mit.edu	37	chr5	109155379	109155379	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcttttaaagatctcttttCgagcacatataccgccattg	11	15	5	10	2	2	1	0	0	2	1	4	2	2	1	2	0	2	1	2	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:109155379C>T	uc003kou.1	+	14	3082	c.2119C>T	c.(2119-2121)CGA>TGA	p.R707*		NM_002372	NP_002363	Q16706	MA2A1_HUMAN	mannosidase, alpha, class 2A, member 1	707	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(142;8.66e-07)|all_epithelial(76;7.73e-09)|Prostate(80;0.000303)|Lung NSC(167;0.0186)|all_lung(232;0.0241)|Ovarian(225;0.0444)|Colorectal(57;0.0959)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;2.17e-10)|Epithelial(69;1.37e-09)|COAD - Colon adenocarcinoma(37;0.141)		GATCTCTTTTCGAGCACATAT	0.308													32	71					0	0	1	0	0		T	109155379	T	T	109155379	4	4	89	1	0	0	0	0	0	1	0	0	9232	876	31	1	2173	1	MAN2A1	5	109155379	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	951744	109155379	71759881	2382	56213											
MAN2A1	4124	broad.mit.edu	37	chr5	109183456	109183456	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agattacagctaatctatttCgaatactactagaaaaaaga	19	11	5	6	1	1	3	0	0	1	3	2	4	1	3	0	0	4	1	0	0	10	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:109183456C>T	uc003kou.1	+	19	3904	c.2941C>T	c.(2941-2943)CGA>TGA	p.R981*		NM_002372	NP_002363	Q16706	MA2A1_HUMAN	mannosidase, alpha, class 2A, member 1	981	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(142;8.66e-07)|all_epithelial(76;7.73e-09)|Prostate(80;0.000303)|Lung NSC(167;0.0186)|all_lung(232;0.0241)|Ovarian(225;0.0444)|Colorectal(57;0.0959)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;2.17e-10)|Epithelial(69;1.37e-09)|COAD - Colon adenocarcinoma(37;0.141)		TAATCTATTTCGAATACTACT	0.343													24	39					0	0	1	0	0		T	109183456	T	T	109183456	4	4	89	1	0	0	0	0	0	1	0	0	9232	876	31	1	3015	1	MAN2A1	5	109183456	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28077	109183456	71731804	2383	56214											
WDR36	134430	broad.mit.edu	37	chr5	110445966	110445966	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatgtatataacatgcagTctggcatacatcgaggaagt	14	11	10	6	1	1	1	0	0	1	1	2	3	1	2	0	2	3	3	0	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:110445966T>C	uc003kpd.2	+	13	1690	c.1573T>C	c.(1573-1575)TCT>CCT	p.S525P	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	525	WD 6.				response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		TAACATGCAGTCTGGCATACA	0.353													17	131					0	0	1	0	0		C	110445966	C	C	110445966	3	2	89	1	0	0	0	0	1	0	0	0	17316	1667	58	3	1623	3	WDR36	5	110445966	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1262510	110445966	70469294	2384	56215											
EPB41L4A	64097	broad.mit.edu	37	chr5	111754705	111754705	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagcaaaacttcgcagtaaAattcttccggaacagcgcag	14	7	10	10	3	1	0	0	0	1	0	3	2	2	2	1	2	4	4	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:111754705A>C	uc003kpv.1	-	1	306	c.32T>G	c.(31-33)TTT>TGT	p.F11C	EPB41L4A_uc003kpw.1_Missense_Mutation_p.F11C|FLJ11235_uc003kpx.1_5'Flank	NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	11	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		TTCGCAGTAAAATTCTTCCGG	0.602													26	34					0	0	1	0	0		C	111754705	C	C	111754705	3	2	89	1	0	0	0	0	1	0	0	0	5163	14	1	5	2120	5	EPB41L4A	5	111754705	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1308739	111754705	69160555	2385	56216											
APC	324	broad.mit.edu	37	chr5	112151261	112151261	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagcacacactctgcacctCgaaggctgacaagtcatctg	11	8	9	13	1	3	1	1	1	2	0	4	2	3	1	1	1	2	4	1	1	3	1	rs137854568		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:112151261C>T	uc010jby.2	+	9	1284	c.904C>T	c.(904-906)CGA>TGA	p.R302*	APC_uc011cvt.1_Nonsense_Mutation_p.R284*|APC_uc003kpz.3_Nonsense_Mutation_p.R302*|APC_uc003kpy.3_Nonsense_Mutation_p.R302*|APC_uc010jbz.2_Nonsense_Mutation_p.R19*	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	302	Leu-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.R302*(10)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		CTCTGCACCTCGAAGGCTGAC	0.388		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			18	47					0	0	1	0	0		T	112151261	T	T	112151261	4	4	89	1	0	0	0	0	0	1	0	0	763	876	31	1	934	1	APC	5	112151261	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	396556	112151261	68763999	2386	56217											
APC	324	broad.mit.edu	37	chr5	112173621	112173621	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaacttttgacaatatagAcaatttaagtcccaaggcat	17	11	6	7	0	0	3	0	1	0	2	1	3	1	3	1	1	1	1	1	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:112173621A>G	uc010jby.2	+	16	2710	c.2330A>G	c.(2329-2331)GAC>GGC	p.D777G	APC_uc011cvt.1_Missense_Mutation_p.D759G|APC_uc003kpz.3_Missense_Mutation_p.D777G|APC_uc003kpy.3_Missense_Mutation_p.D777G|APC_uc010jbz.2_Missense_Mutation_p.D494G|APC_uc010jca.2_Missense_Mutation_p.D77G	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	777	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.D777fs*2(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		GACAATATAGACAATTTAAGT	0.393		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			43	68					0	0	1	0	0		G	112173621	G	G	112173621	3	3	89	1	0	0	0	0	1	0	0	0	763	275	10	3	2388	3	APC	5	112173621	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	22360	112173621	68741639	2387	56218											
APC	324	broad.mit.edu	37	chr5	112174393	112174393	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcttaaatattcagatgaGcagttgaactctggaaggca	14	11	10	6	0	3	3	1	2	2	1	3	4	3	4	0	2	2	3	0	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:112174393G>A	uc010jby.2	+	16	3482	c.3102G>A	c.(3100-3102)GAG>GAA	p.E1034E	APC_uc011cvt.1_Silent_p.E1016E|APC_uc003kpz.3_Silent_p.E1034E|APC_uc003kpy.3_Silent_p.E1034E|APC_uc010jbz.2_Silent_p.E751E|APC_uc010jca.2_Silent_p.E334E	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1034	Ser-rich.|Responsible for down-regulation through a process mediated by direct ubiquitination.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		ATTCAGATGAGCAGTTGAACT	0.358		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			35	51					0	0	1	0	0		A	112174393	A	A	112174393	2	1	89	1	0	0	0	0	0	0	0	1	763	962	34	2		2	APC	5	112174393	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	772	112174393	68740867	2388	56219											
APC	324	broad.mit.edu	37	chr5	112174916	112174916	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacaaagcagtaaaaccGaacatatgtcttcaagcagt	16	8	8	9	1	2	0	1	0	1	0	2	2	2	1	1	1	4	3	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:112174916G>T	uc010jby.2	+	16	4005	c.3625G>T	c.(3625-3627)GAA>TAA	p.E1209*	APC_uc011cvt.1_Nonsense_Mutation_p.E1191*|APC_uc003kpz.3_Nonsense_Mutation_p.E1209*|APC_uc003kpy.3_Nonsense_Mutation_p.E1209*|APC_uc010jbz.2_Nonsense_Mutation_p.E926*|APC_uc010jca.2_Nonsense_Mutation_p.E509*	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1209	Ser-rich.|Responsible for down-regulation through a process mediated by direct ubiquitination.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.E1209V(1)|p.K1192fs*3(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		CAGTAAAACCGAACATATGTC	0.398		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			50	71					2.64894e-19	3.11158e-19	1	1	0		T	112174916	T	T	112174916	4	4	89	1	0	0	0	0	0	1	0	0	763	1059	37	5	3683	5	APC	5	112174916	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	523	112174916	68740344	2389	56220											
APC	324	broad.mit.edu	37	chr5	112175639	112175639	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaaacagctcaaaccaagCgagaagtacctaaaaataaa	21	5	5	10	1	2	1	2	0	0	1	2	2	2	1	2	0	5	2	2	0	10	3	rs121913332		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:112175639C>T	uc010jby.2	+	16	4728	c.4348C>T	c.(4348-4350)CGA>TGA	p.R1450*	APC_uc011cvt.1_Nonsense_Mutation_p.R1432*|APC_uc003kpz.3_Nonsense_Mutation_p.R1450*|APC_uc003kpy.3_Nonsense_Mutation_p.R1450*|APC_uc010jbz.2_Nonsense_Mutation_p.R1167*|APC_uc010jca.2_Nonsense_Mutation_p.R750*	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1450	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.R1450*(115)|p.?(1)|p.P1424fs*19(1)|p.K1192fs*3(1)|p.R1450fs*22(1)|p.S1436fs*22(1)|p.R1450fs*5(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TCAAACCAAGCGAGAAGTACC	0.478	R1450*(SW837_LARGE_INTESTINE)|R1450*(LS123_LARGE_INTESTINE)|R1450*(SW1417_LARGE_INTESTINE)|R1450*(MKN74_STOMACH)	12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			31	58					0	0	1	0	0		T	112175639	T	T	112175639	4	4	89	1	0	0	0	0	0	1	0	0	763	760	27	1	4406	1	APC	5	112175639	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	723	112175639	68739621	2390	56221											
APC	324	broad.mit.edu	37	chr5	112177901	112177901	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttgattactggaaaagttCgatctaattcagaaatttca	14	15	7	5	1	3	2	2	1	1	1	4	4	3	3	0	1	1	2	0	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:112177901C>T	uc010jby.2	+	16	6990	c.6610C>T	c.(6610-6612)CGA>TGA	p.R2204*	APC_uc011cvt.1_Nonsense_Mutation_p.R2186*|APC_uc003kpz.3_Nonsense_Mutation_p.R2204*|APC_uc003kpy.3_Nonsense_Mutation_p.R2204*|APC_uc010jbz.2_Nonsense_Mutation_p.R1921*|APC_uc010jca.2_Nonsense_Mutation_p.R1504*	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	2204	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGGAAAAGTTCGATCTAATTC	0.363		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			34	72					0	0	1	0	0		T	112177901	T	T	112177901	4	4	89	1	0	0	0	0	0	1	0	0	763	876	31	1	6668	1	APC	5	112177901	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2262	112177901	68737359	2391	56222											
REEP5	7905	broad.mit.edu	37	chr5	112222851	112222851	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagccccattagaagggctCggggccatgcaccacaacag	11	5	11	14	1	1	1	1	0	0	1	2	1	1	1	4	3	3	2	4	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:112222851C>T	uc003kqe.1	-	4	525	c.381G>A	c.(379-381)CCG>CCA	p.P127P	SRP19_uc011cvu.1_Intron|SRP19_uc011cvv.1_Intron|REEP5_uc011cvw.1_Silent_p.P100P|REEP5_uc011cvx.1_RNA|REEP5_uc011cvy.1_Intron|REEP5_uc011cvz.1_RNA	NM_005669	NP_005660	Q00765	REEP5_HUMAN	receptor accessory protein 5	127						integral to membrane	protein binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		Epithelial(69;1.3e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.26e-08)|all cancers(49;3.56e-07)|Colorectal(14;0.00778)|COAD - Colon adenocarcinoma(37;0.013)		TAGAAGGGCTCGGGGCCATGC	0.537													13	42					0	0	1	0	0		T	112222851	T	T	112222851	2	4	89	1	0	0	0	0	0	0	0	1	13233	871	31	1		1	REEP5	5	112222851	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44950	112222851	68692409	2392	56223											
DCP2	167227	broad.mit.edu	37	chr5	112321534	112321534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgttttgtttttgacagccGatttattttgcatattccca	7	20	7	7	1	0	1	0	1	0	0	1	2	1	1	2	0	2	3	2	0	2	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:112321534G>A	uc003kqh.2	+	2	254	c.56G>A	c.(55-57)CGA>CAA	p.R19Q	DCP2_uc011cwa.1_Intron	NM_152624	NP_689837	Q8IU60	DCP2_HUMAN	DCP2 decapping enzyme	19					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasmic mRNA processing body|cytosol|nucleus|RNA-induced silencing complex	exoribonuclease activity, producing 5'-phosphomonoesters|manganese ion binding|protein binding|protein binding|RNA binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		OV - Ovarian serous cystadenocarcinoma(64;6.98e-08)|Epithelial(69;7.87e-08)|all cancers(49;1.06e-05)|COAD - Colon adenocarcinoma(37;0.0123)|Colorectal(14;0.0171)		TTTGACAGCCGATTTATTTTG	0.358													37	77					0	0	1	0	0		A	112321534	A	A	112321534	3	1	89	1	0	0	0	0	1	0	0	0	4303	1058	37	1	62	1	DCP2	5	112321534	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	98683	112321534	68593726	2393	56224											
TSSK1B	83942	broad.mit.edu	37	chr5	112770308	112770308	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtgatgtctcaaagatctCgtaggtcttaatgatggagc	11	13	11	6	1	3	3	1	2	3	1	5	4	3	4	0	2	1	1	0	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:112770308C>T	uc003kqm.2	-	1	421	c.229G>A	c.(229-231)GAG>AAG	p.E77K	MCC_uc003kql.3_Intron	NM_032028	NP_114417	Q9BXA7	TSSK1_HUMAN	testis-specific serine kinase 1	77	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|skin(2)|stomach(1)	5		all_cancers(142;0.0138)|all_epithelial(76;0.000445)|Colorectal(10;0.00814)|Prostate(80;0.0115)|Ovarian(225;0.156)		Epithelial(69;4.15e-08)|OV - Ovarian serous cystadenocarcinoma(64;4.49e-08)|all cancers(49;3.2e-06)|COAD - Colon adenocarcinoma(37;0.0371)|Colorectal(14;0.0449)		TCAAAGATCTCGTAGGTCTTA	0.532													17	41					0	0	1	0	0		T	112770308	T	T	112770308	3	4	89	1	0	0	0	0	1	0	0	0	16694	893	31	1	878	1	TSSK1B	5	112770308	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	448774	112770308	68144952	2394	56225											
YTHDC2	64848	broad.mit.edu	37	chr5	112862484	112862484	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctggaaagaccacacaggTttgtttcttttttgttgttt	7	19	9	6	0	2	1	0	0	2	1	2	2	2	2	1	2	0	4	1	2	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:112862484T>C	uc003kqn.2	+	4	858	c.675_splice	c.e4+2	p.Q225_splice	YTHDC2_uc010jce.1_Splice_Site_p.Q225_splice|YTHDC2_uc010jcf.1_Intron	NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2								ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		ACCACACAGGTTTGTTTCTTT	0.239													18	32					0	0	1	0	0		C	112862484	C	C	112862484	5	2	89	1	0	0	0	0	0	0	1	0	17523	1739	60	3	691	3	YTHDC2	5	112862484	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	92176	112862484	68052776	2395	56226											
YTHDC2	64848	broad.mit.edu	37	chr5	112896785	112896785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttatttttaagggcagggcGatgtagacctggaatttgtt	9	16	12	4	1	0	1	0	0	0	1	0	3	0	2	1	3	0	3	1	3	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:112896785G>A	uc003kqn.2	+	18	2408	c.2225G>A	c.(2224-2226)CGA>CAA	p.R742Q	YTHDC2_uc010jcf.1_Missense_Mutation_p.R442Q	NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	742	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		AGGGCAGGGCGATGTAGACCT	0.328													17	22					0	0	1	0	0		A	112896785	A	A	112896785	3	1	89	1	0	0	0	0	1	0	0	0	17523	1058	37	1	2295	1	YTHDC2	5	112896785	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	34301	112896785	68018475	2396	56227											
AQPEP	206338	broad.mit.edu	37	chr5	115298524	115298524	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaagccgacgccaaccccGaaacccagcagtgcacgcga	13	1	10	17	5	0	1	0	0	0	1	0	4	0	1	5	0	5	2	5	0	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:115298524G>A	uc003kro.2	+	1	374	c.210G>A	c.(208-210)CCG>CCA	p.P70P	AQPEP_uc003krp.2_RNA|uc003krn.1_5'UTR	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	70	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						CGCCAACCCCGAAACCCAGCA	0.706													13	40					0	0	1	0	0		A	115298524	A	A	115298524	2	1	89	1	0	0	0	0	0	0	0	1	834	1045	37	1		1	AQPEP	5	115298524	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2401739	115298524	65616736	2397	56228											
DMXL1	1657	broad.mit.edu	37	chr5	118485264	118485264	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaccatcttctaaacaaGaacctgttataacagattcg	15	10	6	10	1	2	2	0	0	2	2	3	2	2	2	2	1	4	2	2	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:118485264G>T	uc003ksd.2	+	18	3923	c.3742G>T	c.(3742-3744)GAA>TAA	p.E1248*	DMXL1_uc010jcl.1_Nonsense_Mutation_p.E1248*	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1248	WD 10.									ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		TTCTAAACAAGAACCTGTTAT	0.413													53	92					2.01872e-29	2.46164e-29	1	1	0		T	118485264	T	T	118485264	4	4	89	1	0	0	0	0	0	1	0	0	4600	943	33	5	3812	5	DMXL1	5	118485264	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3186740	118485264	62429996	2398	56229											
DMXL1	1657	broad.mit.edu	37	chr5	118503325	118503325	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagaaattgaatgacattCagttggctcttgtaatagca	13	14	9	5	0	2	3	1	3	1	1	2	4	2	3	0	1	1	4	0	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:118503325C>A	uc003ksd.2	+	23	5345	c.5164C>A	c.(5164-5166)CAG>AAG	p.Q1722K	DMXL1_uc010jcl.1_Missense_Mutation_p.Q1722K	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1722										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		GAATGACATTCAGTTGGCTCT	0.299													7	19					2.7689e-08	2.93819e-08	1	1	0		A	118503325	A	A	118503325	3	1	89	1	0	0	0	0	1	0	0	0	4600	827	29	5	5254	5	DMXL1	5	118503325	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	18061	118503325	62411935	2399	56230											
HSD17B4	3295	broad.mit.edu	37	chr5	118861613	118861613	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgttctctcttttcctaggTtttgacaagcccatattaca	8	17	6	10	0	2	1	0	1	2	0	4	1	3	1	2	1	2	2	2	1	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:118861613T>C	uc003ksj.2	+	19	1698	c.1575T>C	c.(1573-1575)GGT>GGC	p.G525G	HSD17B4_uc011cwg.1_Silent_p.G501G|HSD17B4_uc011cwh.1_Silent_p.G507G|HSD17B4_uc011cwi.1_Silent_p.G550G|HSD17B4_uc003ksk.3_Silent_p.G378G|HSD17B4_uc011cwj.1_Silent_p.G378G|HSD17B4_uc010jcn.1_Silent_p.G263G|HSD17B4_uc010jco.1_5'UTR	NM_000414	NP_000405	P51659	DHB4_HUMAN	hydroxysteroid (17-beta) dehydrogenase 4	525	MaoC-like.|Enoyl-CoA hydratase 2.				bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3-hydroxyacyl-CoA dehydrogenase activity|3alpha,7alpha,12alpha-trihydroxy-5beta-cholest-24-enoyl-CoA hydratase activity|estradiol 17-beta-dehydrogenase activity|isomerase activity|long-chain-enoyl-CoA hydratase activity|protein binding|sterol binding|sterol transporter activity			ovary(1)|pancreas(1)	2		all_cancers(142;0.0206)|Prostate(80;0.0322)		OV - Ovarian serous cystadenocarcinoma(64;0.000247)|Epithelial(69;0.000849)|all cancers(49;0.0122)	NADH(DB00157)	TTTTCCTAGGTTTTGACAAGC	0.358													25	55					0	0	1	0	0		C	118861613	C	C	118861613	2	2	89	1	0	0	0	0	0	0	0	1	7402	1739	60	3		3	HSD17B4	5	118861613	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	358288	118861613	62053647	2400	56231											
FAM170A	340069	broad.mit.edu	37	chr5	118969821	118969821	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaagaggaaaggggcatGaaaatatactacatgcaggt	19	6	11	5	0	0	2	0	1	0	1	0	3	0	3	0	4	4	2	0	4	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:118969821G>T	uc003ksm.2	+	3	588	c.378G>T	c.(376-378)ATG>ATT	p.M126I	FAM170A_uc003ksl.2_Missense_Mutation_p.M126I|FAM170A_uc003ksn.2_Missense_Mutation_p.M126I|FAM170A_uc003kso.2_Missense_Mutation_p.M79I	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	126						intracellular	zinc ion binding			skin(1)	1						AAAGGGGCATGAAAATATACT	0.463													27	60					9.39395e-14	1.05303e-13	1	1	0		T	118969821	T	T	118969821	3	4	89	1	0	0	0	0	1	0	0	0	5500	1290	45	5	388	5	FAM170A	5	118969821	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	108208	118969821	61945439	2401	56232											
PRR16	51334	broad.mit.edu	37	chr5	119800232	119800232	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcctgtccagccgagggAccgccggcagcctccaaaac	8	5	11	17	4	0	0	0	0	0	0	4	2	3	1	7	2	3	1	7	2	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:119800232A>G	uc003ksq.2	+	1	214	c.51A>G	c.(49-51)GGA>GGG	p.G17G	PRR16_uc003ksp.2_5'UTR	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16	17										pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		CAGCCGAGGGACCGCCGGCAG	0.607													5	9					0	0	1	0	0		G	119800232	G	G	119800232	2	3	89	1	0	0	0	0	0	0	0	1	12611	290	10	3		3	PRR16	5	119800232	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	830411	119800232	61115028	2402	56233											
SNCAIP	9627	broad.mit.edu	37	chr5	121759111	121759111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcatcagctgtcatccacGaccagcacaagctgtccact	12	7	7	15	1	2	0	2	0	0	0	4	1	4	0	3	0	4	4	3	0	2	0	rs140366495		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:121759111G>A	uc003ksw.1	+	4	885	c.679G>A	c.(679-681)GAC>AAC	p.D227N	SNCAIP_uc011cwl.1_Intron|SNCAIP_uc010jct.2_Missense_Mutation_p.D227N|SNCAIP_uc003ksx.1_Missense_Mutation_p.D274N|SNCAIP_uc003ksy.1_Intron|SNCAIP_uc003ksz.1_Intron|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Intron|SNCAIP_uc003kta.1_Intron|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Intron|SNCAIP_uc010jcx.1_Missense_Mutation_p.D227N	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	227					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		TGTCATCCACGACCAGCACAA	0.463													41	78					0	0	1	0	0		A	121759111	A	A	121759111	3	1	89	1	0	0	0	0	1	0	0	0	14866	1058	37	1	689	1	SNCAIP	5	121759111	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1958879	121759111	59156149	2403	56234											
SNX2	6643	broad.mit.edu	37	chr5	122137575	122137575	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actttctagattgaagaagaAgcaaatggagacatttttga	16	12	9	4	0	1	6	0	2	1	4	1	7	1	6	0	1	1	1	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:122137575A>C	uc003kte.2	+	4	451	c.402A>C	c.(400-402)GAA>GAC	p.E134D	SNX2_uc011cwn.1_Missense_Mutation_p.E17D	NM_003100	NP_003091	O60749	SNX2_HUMAN	sorting nexin 2	134					cell communication|endocytosis|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding|protein transporter activity			kidney(1)	1		all_cancers(142;1.14e-44)|all_lung(232;1.03e-13)|Lung NSC(810;2.5e-13)|Breast(839;0.000812)|Myeloproliferative disorder(839;0.0122)|Prostate(80;0.0235)|all_hematologic(541;0.0592)|all_neural(839;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	all cancers(49;2.13e-24)|Epithelial(69;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(64;5.6e-11)|BRCA - Breast invasive adenocarcinoma(61;0.00013)|GBM - Glioblastoma multiforme(465;0.000357)|COAD - Colon adenocarcinoma(49;0.000887)|Lung(113;0.0109)		TTGAAGAAGAAGCAAATGGAG	0.229													27	67					0	0	1	0	0		C	122137575	C	C	122137575	3	2	89	1	0	0	0	0	1	0	0	0	14916	69	3	5	416	5	SNX2	5	122137575	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	378464	122137575	58777685	2404	56235											
CEP120	153241	broad.mit.edu	37	chr5	122724294	122724294	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgaagcaggtacagaaGaactggctgaaatgaacata	17	6	11	7	0	0	5	0	3	0	2	0	5	0	5	1	2	4	3	1	2	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:122724294G>T	uc003ktk.2	-	10	1344	c.1262C>A	c.(1261-1263)TCT>TAT	p.S421Y	CEP120_uc011cwq.1_Missense_Mutation_p.S230Y|CEP120_uc010jcz.1_Missense_Mutation_p.S395Y	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	421						centrosome				ovary(1)	1						AGGTACAGAAGAACTGGCTGA	0.373													51	82					1.62263e-30	1.98456e-30	1	1	0		T	122724294	T	T	122724294	3	4	89	1	0	0	0	0	1	0	0	0	3249	942	33	5	1746	5	CEP120	5	122724294	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	586719	122724294	58190966	2405	56236											
CEP120	153241	broad.mit.edu	37	chr5	122729052	122729052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctacactgctacggatgCgaactgatgctctctctggc	7	13	9	12	2	3	1	0	1	3	0	4	3	3	2	0	2	6	2	0	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:122729052C>T	uc003ktk.2	-	7	834	c.752G>A	c.(751-753)CGC>CAC	p.R251H	CEP120_uc011cwq.1_Missense_Mutation_p.R60H|CEP120_uc010jcz.1_Missense_Mutation_p.R225H	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	251						centrosome				ovary(1)	1						GCTACGGATGCGAACTGATGC	0.403													31	74					0	0	1	0	0		T	122729052	T	T	122729052	3	4	89	1	0	0	0	0	1	0	0	0	3249	768	27	1	2268	1	CEP120	5	122729052	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4758	122729052	58186208	2406	56237											
ZNF608	57507	broad.mit.edu	37	chr5	124080003	124080003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccccggaaggggcctggCtgccactgccattctggtgg	4	7	15	15	1	1	0	0	0	1	0	1	1	1	1	6	6	2	1	6	6	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:124080003C>T	uc003ktq.1	-	1	803	c.680G>A	c.(679-681)AGC>AAC	p.S227N	ZNF608_uc003ktr.1_RNA|ZNF608_uc003kts.1_Missense_Mutation_p.S227N|ZNF608_uc003ktt.1_Missense_Mutation_p.S227N	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	227						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		AGGGGCCTGGCTGCCACTGCC	0.652													33	77					0	0	1	0	0		T	124080003	T	T	124080003	3	4	89	1	0	0	0	0	1	0	0	0	18059	797	28	2	3894	2	ZNF608	5	124080003	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1350951	124080003	56835257	2407	56238											
GRAMD3	65983	broad.mit.edu	37	chr5	125819236	125819236	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatatagcagttctggtTctcaaactcctgaatctgag	12	12	9	8	0	3	2	1	2	3	0	5	3	4	3	1	2	2	3	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:125819236T>G	uc003ktu.2	+	9	1247	c.817T>G	c.(817-819)TCT>GCT	p.S273A	GRAMD3_uc011cwt.1_Missense_Mutation_p.S288A|GRAMD3_uc011cwv.1_Missense_Mutation_p.S281A|GRAMD3_uc011cww.1_Missense_Mutation_p.S169A|GRAMD3_uc011cwx.1_RNA|GRAMD3_uc011cwy.1_Missense_Mutation_p.S164A|GRAMD3_uc011cwz.1_Missense_Mutation_p.S257A|GRAMD3_uc011cwu.1_Missense_Mutation_p.S257A	NM_023927	NP_076416	Q96HH9	GRAM3_HUMAN	GRAM domain containing 3 isoform 2	273										central_nervous_system(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0401)|OV - Ovarian serous cystadenocarcinoma(64;0.0604)|all cancers(49;0.108)		CAGTTCTGGTTCTCAAACTCC	0.398													29	53					0	0	1	0	0		G	125819236	G	G	125819236	3	3	89	1	0	0	0	0	1	0	0	0	6767	1783	62	5	1065	5	GRAMD3	5	125819236	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1739233	125819236	55096024	2408	56239											
MEGF10	84466	broad.mit.edu	37	chr5	126791103	126791103	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcacagacctgggaaaGaattctgaatataattcaag	15	11	7	8	0	4	3	2	1	2	2	4	4	4	4	1	1	0	0	1	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:126791103G>T	uc003kuh.3	+	25	3398	c.3036G>T	c.(3034-3036)AAG>AAT	p.K1012N	MEGF10_uc003kui.3_Missense_Mutation_p.K1012N	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	1012	Cytoplasmic (Potential).|Necessary for formation of large intracellular vacuoles.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		ACCTGGGAAAGAATTCTGAAT	0.388													64	145					1.02487e-32	1.25835e-32	1	1	0		T	126791103	T	T	126791103	3	4	89	1	0	0	0	0	1	0	0	0	9478	933	33	5	3126	5	MEGF10	5	126791103	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	971867	126791103	54124157	2409	56240											
FBN2	2201	broad.mit.edu	37	chr5	127615904	127615904	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggcattcagtgcctgaaGaacttgactggaatccttca	12	10	9	10	0	2	3	2	2	0	1	3	4	3	4	2	2	2	1	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:127615904G>T	uc003kuu.2	-	56	7557	c.7118C>A	c.(7117-7119)TCT>TAT	p.S2373Y		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	2373	EGF-like 40; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		AGTGCCTGAAGAACTTGACTG	0.378													21	46					1.64113e-05	1.69216e-05	1	1	0		T	127615904	T	T	127615904	3	4	89	1	0	0	0	0	1	0	0	0	5717	942	33	5	1660	5	FBN2	5	127615904	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	824801	127615904	53299356	2410	56241											
FBN2	2201	broad.mit.edu	37	chr5	127641543	127641543	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaacagcaggtcattgtaActgaatcctgtagggcattc	12	10	9	10	0	1	1	1	1	0	0	3	1	2	1	2	2	3	4	2	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:127641543A>C	uc003kuu.2	-	43	5959	c.5520T>G	c.(5518-5520)AGT>AGG	p.S1840R		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1840	EGF-like 29; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GGTCATTGTAACTGAATCCTG	0.378													56	88					0	0	1	0	0		C	127641543	C	C	127641543	3	2	89	1	0	0	0	0	1	0	0	0	5717	40	2	5	3310	5	FBN2	5	127641543	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	25639	127641543	53273717	2411	56242											
FBN2	2201	broad.mit.edu	37	chr5	127648405	127648405	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatgaagagcgactgacGcccaccccgatctcggtgtt	9	7	11	14	4	1	3	0	2	1	1	2	5	1	3	3	1	2	2	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:127648405G>A	uc003kuu.2	-	37	5239	c.4800C>T	c.(4798-4800)GGC>GGT	p.G1600G		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1600	TB 6.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		AGCGACTGACGCCCACCCCGA	0.552													143	277					0	0	1	0	0		A	127648405	A	A	127648405	2	1	89	1	0	0	0	0	0	0	0	1	5717	1074	38	1		1	FBN2	5	127648405	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6862	127648405	53266855	2412	56243											
FBN2	2201	broad.mit.edu	37	chr5	127782261	127782261	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtattgatacagtttcctcCttggcatatccctgggatag	8	15	9	9	0	0	1	0	1	0	0	3	2	3	2	3	2	1	3	3	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:127782261C>A	uc003kuu.2	-	7	1304	c.865G>T	c.(865-867)GGA>TGA	p.G289*	FBN2_uc003kuv.2_Nonsense_Mutation_p.G256*|FBN2_uc003kuw.3_Nonsense_Mutation_p.G289*|FBN2_uc003kux.1_Nonsense_Mutation_p.G289*	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	289	EGF-like 4; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		CAGTTTCCTCCTTGGCATATC	0.408													37	86					9.62906e-15	1.09027e-14	1	1	0		A	127782261	A	A	127782261	4	1	89	1	0	0	0	0	0	1	0	0	5717	690	24	5	8109	5	FBN2	5	127782261	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	133856	127782261	53132999	2413	56244											
SLC27A6	28965	broad.mit.edu	37	chr5	128302039	128302039	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccaaaagacaacctcggaAacctttcatcatctatgagg	14	9	7	11	1	3	2	2	1	1	1	4	3	3	3	3	2	3	0	3	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:128302039A>C	uc003kuy.2	+	2	605	c.209A>C	c.(208-210)AAA>ACA	p.K70T	SLC27A6_uc003kuz.2_Missense_Mutation_p.K70T	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	70					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		CAACCTCGGAAACCTTTCATC	0.453													39	62					0	0	1	0	0		C	128302039	C	C	128302039	3	2	89	1	0	0	0	0	1	0	0	0	14555	14	1	5	211	5	SLC27A6	5	128302039	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	519778	128302039	52613221	2414	56245											
SLC27A6	28965	broad.mit.edu	37	chr5	128362977	128362977	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagacttaatagtccaggaTcaggacaatttcctttattt	12	14	8	7	0	1	1	1	0	0	1	3	4	3	3	2	3	0	0	2	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:128362977T>G	uc003kuy.2	+	8	1803	c.1407T>G	c.(1405-1407)GAT>GAG	p.D469E	SLC27A6_uc003kuz.2_Missense_Mutation_p.D469E	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	469					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		TAGTCCAGGATCAGGACAATT	0.388													62	114					0	0	1	0	0		G	128362977	G	G	128362977	3	3	89	1	0	0	0	0	1	0	0	0	14555	1432	50	5	1433	5	SLC27A6	5	128362977	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	60938	128362977	52552283	2415	56246											
CHSY3	337876	broad.mit.edu	37	chr5	129520286	129520286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctgagaaccagccccctcGacagagcctcagtagcattt	11	7	9	14	1	1	2	1	1	0	2	2	4	1	2	4	0	5	3	4	0	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:129520286G>A	uc003kvd.2	+	3	1451	c.1451G>A	c.(1450-1452)CGA>CAA	p.R484Q		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	484	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		CAGCCCCCTCGACAGAGCCTC	0.493													21	47					0	0	1	0	0		A	129520286	A	A	129520286	3	1	89	1	0	0	0	0	1	0	0	0	3416	1058	37	1	1461	1	CHSY3	5	129520286	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1157309	129520286	51394974	2416	56247											
RAPGEF6	51735	broad.mit.edu	37	chr5	130940376	130940376	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgaagataagaataaataGtatttaagtcctgtggaaca	18	11	8	4	0	0	3	0	1	0	2	1	4	1	4	1	1	1	1	1	1	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:130940376G>T	uc003kvn.1	-	2	286	c.80C>A	c.(79-81)ACT>AAT	p.T27N	RAPGEF6_uc003kvp.1_Missense_Mutation_p.T77N|RAPGEF6_uc003kvo.1_Missense_Mutation_p.T27N|RAPGEF6_uc010jdi.1_Missense_Mutation_p.T27N|RAPGEF6_uc010jdj.1_Missense_Mutation_p.T27N|RAPGEF6_uc003kvr.2_Missense_Mutation_p.T27N|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Missense_Mutation_p.T27N	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	27					Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		AGAATAAATAGTATTTAAGTC	0.318													14	28					1.5842e-08	1.6863e-08	1	1	0		T	130940376	T	T	130940376	3	4	89	1	0	0	0	0	1	0	0	0	13073	1029	36	5	5319	5	RAPGEF6	5	130940376	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1420090	130940376	49974884	2417	56248											
ACSL6	23305	broad.mit.edu	37	chr5	131298258	131298258	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccccatggacatagatttgCgccacaggttggctccggat	8	10	11	12	2	0	1	0	0	0	1	2	3	2	3	4	4	1	2	4	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:131298258C>T	uc010jdo.1	-	18	1835	c.1752G>A	c.(1750-1752)GCG>GCA	p.A584A	ACSL6_uc003kvv.1_RNA|ACSL6_uc003kvx.1_Silent_p.A609A|ACSL6_uc003kvy.1_Silent_p.A609A|ACSL6_uc003kwb.2_Silent_p.A574A|ACSL6_uc003kvz.1_Silent_p.A509A|ACSL6_uc003kwa.1_Silent_p.A595A|ACSL6_uc003kvw.1_Silent_p.A230A|ACSL6_uc010jdn.1_Silent_p.A599A	NM_015256	NP_056071	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6	584	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CATAGATTTGCGCCACAGGTT	0.448													28	59					0	0	1	0	0		T	131298258	T	T	131298258	2	4	89	1	0	0	0	0	0	0	0	1	181	755	27	1		1	ACSL6	5	131298258	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	357882	131298258	49617002	2418	56249											
ACSL6	23305	broad.mit.edu	37	chr5	131321104	131321104	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgtgcctctgcttacctgtCgtgccgcttgtgaaacacac	6	11	10	14	3	1	1	0	1	1	0	2	1	1	1	3	0	5	2	3	0	2	2	rs148729460	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:131321104C>T	uc010jdo.1	-	9	920	c.837G>A	c.(835-837)ACG>ACA	p.T279T	ACSL6_uc003kvv.1_RNA|ACSL6_uc003kvx.1_Silent_p.T304T|ACSL6_uc003kvy.1_Silent_p.T304T|ACSL6_uc003kwb.2_Silent_p.T269T|ACSL6_uc003kvz.1_Silent_p.T244T|ACSL6_uc003kwa.1_Silent_p.T290T|ACSL6_uc010jdn.1_Silent_p.T294T|ACSL6_uc010jdp.1_RNA	NM_015256	NP_056071	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6	279	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GCTTACCTGTCGTGCCGCTTG	0.592													12	25					0	0	1	0	0		T	131321104	T	T	131321104	2	4	89	1	0	0	0	0	0	0	0	1	181	871	31	1		1	ACSL6	5	131321104	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	22846	131321104	49594156	2419	56250											
IRF1	3659	broad.mit.edu	37	chr5	131822766	131822766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagggagttcatggcacagcGaaagttggccttccacgtct	9	9	12	11	2	2	0	1	0	1	0	3	2	3	1	2	3	1	3	2	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:131822766G>A	uc003kxa.2	-	4	478	c.244C>T	c.(244-246)CGC>TGC	p.R82C	IRF1_uc003kxd.2_RNA|IRF1_uc003kxb.2_Missense_Mutation_p.R82C|IRF1_uc010jdt.1_Missense_Mutation_p.R82C	NM_002198	NP_002189	P10914	IRF1_HUMAN	interferon regulatory factor 1	82	IRF tryptophan pentad repeat.				blood coagulation|cellular response to mechanical stimulus|interferon-gamma-mediated signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleoplasm					0		all_cancers(142;0.026)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	LUAD - Lung adenocarcinoma(142;0.247)		ATGGCACAGCGAAAGTTGGCC	0.557													139	291					0	0	1	0	0		A	131822766	A	A	131822766	3	1	89	1	0	0	0	0	1	0	0	0	7843	1058	37	1	761	1	IRF1	5	131822766	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	501662	131822766	49092494	2420	56251											
IL4	3565	broad.mit.edu	37	chr5	132009824	132009824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtccacggacacaagtgcGatatcaccttacaggagatc	12	9	9	11	2	1	1	1	0	0	1	3	4	2	2	2	2	2	0	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:132009824G>A	uc003kxk.1	+	1	452	c.82G>A	c.(82-84)GAT>AAT	p.D28N	IL4_uc003kxl.1_Missense_Mutation_p.D28N	NM_000589	NP_000580	P05112	IL4_HUMAN	interleukin 4 isoform 1 precursor	28					B cell differentiation|cellular defense response|chemotaxis|cholesterol metabolic process|connective tissue growth factor biosynthetic process|negative regulation of apoptosis|negative regulation of osteoclast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of interleukin-13 production|positive regulation of isotype switching to IgE isotypes|positive regulation of isotype switching to IgG isotypes|positive regulation of MHC class II biosynthetic process|positive regulation of T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|T-helper 2 cell cytokine production	extracellular space	cytokine activity|growth factor activity|interleukin-4 receptor binding				0		all_cancers(142;2.81e-05)|all_lung(232;1.47e-05)|Lung NSC(810;2.31e-05)|all_neural(839;0.0459)|Ovarian(839;0.0481)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	GBM - Glioblastoma multiforme(465;0.00245)		ACACAAGTGCGATATCACCTT	0.498													58	90					0	0	1	0	0		A	132009824	A	A	132009824	3	1	89	1	0	0	0	0	1	0	0	0	7712	1058	37	1	84	1	IL4	5	132009824	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	187058	132009824	48905436	2421	56252											
KIF3A	11127	broad.mit.edu	37	chr5	132034929	132034929	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctagtttcatcaaagacTgacgcagactctcctcagta	11	13	6	11	1	5	3	3	1	2	2	6	3	5	3	1	0	0	3	1	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:132034929T>G	uc003kxo.2	-	16	2139	c.1985A>C	c.(1984-1986)CAG>CCG	p.Q662P	KIF3A_uc003kxm.2_Missense_Mutation_p.Q244P|KIF3A_uc003kxn.2_Missense_Mutation_p.Q647P|KIF3A_uc011cxf.1_Missense_Mutation_p.Q689P|KIF3A_uc003kxp.2_Missense_Mutation_p.Q665P	NM_007054	NP_008985	Q9Y496	KIF3A_HUMAN	kinesin family member 3A	662					blood coagulation|organelle organization|plus-end-directed vesicle transport along microtubule	centrosome|cytosol|kinesin II complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|protein binding			pancreas(1)	1		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CATCAAAGACTGACGCAGACT	0.443													78	134					0	0	1	0	0		G	132034929	G	G	132034929	3	3	89	1	0	0	0	0	1	0	0	0	8316	1580	55	5	122	5	KIF3A	5	132034929	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	25105	132034929	48880331	2422	56253											
AFF4	27125	broad.mit.edu	37	chr5	132216807	132216807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtccctgccgggtataacGaactagatctgtcatgatgc	10	10	10	11	2	2	2	1	1	1	1	3	3	3	2	2	1	4	1	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:132216807G>A	uc003kyd.2	-	21	3844	c.3436C>T	c.(3436-3438)CGT>TGT	p.R1146C	AFF4_uc011cxk.1_Missense_Mutation_p.R824C	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	1146					transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CGGGTATAACGAACTAGATCT	0.418													27	46					0	0	1	0	0		A	132216807	A	A	132216807	3	1	89	1	0	0	0	0	1	0	0	0	359	1058	37	1	59	1	AFF4	5	132216807	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	181878	132216807	48698453	2423	56254											
PHF15	23338	broad.mit.edu	37	chr5	133871564	133871564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagatggaagagaagaggcGaaaatactccatcagcagtg	16	5	13	7	1	1	3	1	0	0	3	2	6	2	4	1	2	2	2	1	2	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:133871564G>A	uc003kzo.1	+	2	196	c.17G>A	c.(16-18)CGA>CAA	p.R6Q	PHF15_uc011cxt.1_Missense_Mutation_p.R6Q|PHF15_uc003kzk.2_Missense_Mutation_p.R22Q|PHF15_uc003kzl.2_Missense_Mutation_p.R6Q|PHF15_uc003kzm.2_Missense_Mutation_p.R6Q|PHF15_uc003kzn.2_Missense_Mutation_p.R6Q	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	6					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GAGAAGAGGCGAAAATACTCC	0.488													20	42					0	0	1	0	0		A	133871564	A	A	133871564	3	1	89	1	0	0	0	0	1	0	0	0	11845	1058	37	1	19	1	PHF15	5	133871564	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1654757	133871564	47043696	2424	56255											
PHF15	23338	broad.mit.edu	37	chr5	133909341	133909341	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttgttttctcaggttagaAatctgtgctacatggtgaca	9	16	9	7	0	3	2	1	1	3	1	4	2	3	2	0	2	2	3	0	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:133909341A>C	uc003kzo.1	+	10	1620	c.1441A>C	c.(1441-1443)AAT>CAT	p.N481H	PHF15_uc011cxt.1_Missense_Mutation_p.N481H|PHF15_uc003kzk.2_Missense_Mutation_p.N497H|PHF15_uc003kzl.2_Missense_Mutation_p.N481H|PHF15_uc003kzm.2_Missense_Mutation_p.N481H|PHF15_uc003kzn.2_Intron|PHF15_uc003kzp.2_Missense_Mutation_p.N189H	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	481					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCAGGTTAGAAATCTGTGCTA	0.507													14	65					0	0	1	0	0		C	133909341	C	C	133909341	3	2	89	1	0	0	0	0	1	0	0	0	11845	14	1	5	1475	5	PHF15	5	133909341	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	37777	133909341	47005919	2425	56256											
SAR1B	51128	broad.mit.edu	37	chr5	133944178	133944178	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcacattagcaatggtttCatctgtcattagtgactgaa	12	13	9	7	0	3	2	2	2	1	0	3	2	3	2	0	2	1	3	0	2	4	3	rs137853125		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:133944178C>A	uc003kzq.2	-	7	611	c.364G>T	c.(364-366)GAA>TAA	p.E122*	SAR1B_uc003kzr.2_Nonsense_Mutation_p.E122*	NM_001033503	NP_001028675	Q9Y6B6	SAR1B_HUMAN	SAR1a gene homolog 2	122					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi cisterna membrane	GTP binding|GTPase activity|metal ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GCAATGGTTTCATCTGTCATT	0.353													10	32					0.010729	0.0108148	1	1	0		A	133944178	A	A	133944178	4	1	89	1	0	0	0	0	0	1	0	0	13865	835	29	5	240	5	SAR1B	5	133944178	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34837	133944178	46971082	2426	56257											
CAMLG	819	broad.mit.edu	37	chr5	134086512	134086512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattgtcgggaattcctgccGaagtgataaatcgatcaatg	12	12	10	7	3	1	1	1	1	0	0	4	4	2	2	2	1	1	0	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:134086512G>A	uc003kzt.2	+	4	868	c.763G>A	c.(763-765)GAA>AAA	p.E255K	CAMLG_uc003kzu.2_3'UTR	NM_001745	NP_001736	P49069	CAMLG_HUMAN	calcium modulating ligand	255	Helical; (Potential).				defense response	endoplasmic reticulum|integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Cyclosporine(DB00091)	AATTCCTGCCGAAGTGATAAA	0.368													20	50					0	0	1	0	0		A	134086512	A	A	134086512	3	1	89	1	0	0	0	0	1	0	0	0	2612	1059	37	1	777	1	CAMLG	5	134086512	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	142334	134086512	46828748	2427	56258											
C5orf24	134553	broad.mit.edu	37	chr5	134190891	134190891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggaaccaccaaatcagcaGgataccggaccagcacaggc	14	2	11	14	2	1	0	1	0	0	0	1	3	1	3	4	4	4	2	4	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:134190891G>A	uc003kzx.2	+	2	362	c.301G>A	c.(301-303)GGA>AGA	p.G101R	C5orf24_uc003kzy.3_Missense_Mutation_p.G101R|C5orf24_uc003kzz.2_Missense_Mutation_p.G101R	NM_152409	NP_689622	Q7Z6I8	CE024_HUMAN	hypothetical protein LOC134553	101											0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CAAATCAGCAGGATACCGGAC	0.498													42	92					0	0	1	0	0		A	134190891	A	A	134190891	3	1	89	1	0	0	0	0	1	0	0	0	2290	1001	35	4	303	4	C5orf24	5	134190891	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	104379	134190891	46724369	2428	56259											
TGFBI	7045	broad.mit.edu	37	chr5	135382148	135382148	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccggcagcttcaccatcttCgcccctagcaacgaggcctg	7	7	9	18	3	2	0	1	0	1	0	3	1	2	0	5	2	3	3	5	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:135382148C>T	uc003lbf.3	+	4	584	c.423C>T	c.(421-423)TTC>TTT	p.F141F	TGFBI_uc003lbg.3_5'UTR|TGFBI_uc003lbh.3_5'UTR|TGFBI_uc011cyb.1_5'UTR|TGFBI_uc010jed.2_5'Flank	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	141	FAS1 1.				angiogenesis|cell adhesion|cell proliferation|negative regulation of cell adhesion|response to stimulus|visual perception	extracellular space|proteinaceous extracellular matrix	integrin binding			breast(3)|ovary(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TCACCATCTTCGCCCCTAGCA	0.637													8	26					0	0	1	0	0		T	135382148	T	T	135382148	2	4	89	1	0	0	0	0	0	0	0	1	15845	883	31	1		1	TGFBI	5	135382148	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1191257	135382148	45533112	2429	56260											
TRPC7	57113	broad.mit.edu	37	chr5	135567128	135567128	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgttataaacgccgtagaGaacgtagccaatgttctcga	13	9	10	9	5	1	1	0	0	1	1	2	4	1	1	2	0	3	4	2	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:135567128G>T	uc003lbn.1	-	7	1954	c.1951C>A	c.(1951-1953)CTC>ATC	p.L651I	TRPC7_uc010jef.1_Missense_Mutation_p.L588I|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.L582I|TRPC7_uc010jei.1_Missense_Mutation_p.L527I|TRPC7_uc010jej.1_Missense_Mutation_p.L203I	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	652	Helical; (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ACGCCGTAGAGAACGTAGCCA	0.408													8	16					0.00307968	0.0031162	1	1	0		T	135567128	T	T	135567128	3	4	89	1	0	0	0	0	1	0	0	0	16610	942	33	5	654	5	TRPC7	5	135567128	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	184980	135567128	45348132	2430	56261											
TRPC7	57113	broad.mit.edu	37	chr5	135693035	135693035	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctccctcagcgttgtgTgccggcgctgcatgtttttg	2	15	11	13	3	2	0	1	0	1	0	3	0	2	0	3	1	3	4	3	1	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:135693035T>C	uc003lbn.1	-	1	41	c.38A>G	c.(37-39)CAC>CGC	p.H13R	TRPC7_uc010jef.1_Missense_Mutation_p.H5R|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.H5R|TRPC7_uc010jei.1_Missense_Mutation_p.H5R|TRPC7_uc010jej.1_5'UTR	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	14	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CAGCGTTGTGTGCCGGCGCTG	0.592													24	48					0	0	1	0	0		C	135693035	C	C	135693035	3	2	89	1	0	0	0	0	1	0	0	0	16610	1696	59	3	2591	3	TRPC7	5	135693035	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	125907	135693035	45222225	2431	56262											
MYOT	9499	broad.mit.edu	37	chr5	137206353	137206353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactaagcatgtttaactacGaacgtccaaaacacttcatc	16	10	4	11	2	1	0	1	0	0	0	3	1	2	0	1	0	6	2	1	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:137206353G>A	uc011cye.1	+	2	30	c.13G>A	c.(13-15)GAA>AAA	p.E5K	MYOT_uc003lbv.2_Missense_Mutation_p.E5K|MYOT_uc011cyg.1_Intron|MYOT_uc011cyh.1_Intron	NM_001135940	NP_001129412	Q9UBF9	MYOTI_HUMAN	myotilin isoform b	5					muscle contraction	actin cytoskeleton|sarcolemma|sarcomere	actin binding|structural constituent of muscle			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GTTTAACTACGAACGTCCAAA	0.468													80	145					0	0	1	0	0		A	137206353	A	A	137206353	3	1	89	1	0	0	0	0	1	0	0	0	10112	1059	37	1	15	1	MYOT	5	137206353	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1513318	137206353	43708907	2432	56263											
MYOT	9499	broad.mit.edu	37	chr5	137217750	137217750	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcattcaagtgccagagAacatgtcgattgatgaagga	13	11	11	6	1	2	3	2	2	0	1	3	6	2	4	1	1	2	1	1	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:137217750A>C	uc011cye.1	+	6	789	c.772A>C	c.(772-774)AAC>CAC	p.N258H	MYOT_uc003lbv.2_Missense_Mutation_p.N258H|MYOT_uc011cyg.1_Missense_Mutation_p.N74H|MYOT_uc011cyh.1_Missense_Mutation_p.N143H	NM_001135940	NP_001129412	Q9UBF9	MYOTI_HUMAN	myotilin isoform b	258	Necessary for interaction with ACTA1.|Ig-like C2-type 1.|Necessary for interaction with FLNC.				muscle contraction	actin cytoskeleton|sarcolemma|sarcomere	actin binding|structural constituent of muscle			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			AGTGCCAGAGAACATGTCGAT	0.393													36	77					0	0	1	0	0		C	137217750	C	C	137217750	3	2	89	1	0	0	0	0	1	0	0	0	10112	246	9	5	790	5	MYOT	5	137217750	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	11397	137217750	43697510	2433	56264											
PKD2L2	27039	broad.mit.edu	37	chr5	137241990	137241990	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttagctactatgactattTtattgcttcctgtgaaatca	10	18	6	7	0	1	2	1	2	0	0	2	2	2	2	1	0	3	3	1	0	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:137241990T>C	uc003lby.2	+	6	898	c.842T>C	c.(841-843)TTT>TCT	p.F281S	PKD2L2_uc010jep.1_Missense_Mutation_p.F221S|PKD2L2_uc003lbw.1_Missense_Mutation_p.F281S|PKD2L2_uc003lbx.2_Missense_Mutation_p.F281S|PKD2L2_uc011cyi.1_5'UTR	NM_014386	NP_055201	Q9NZM6	PK2L2_HUMAN	polycystic kidney disease 2-like 2	281	Helical; (Potential).					integral to membrane	calcium ion binding|ion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TATGACTATTTTATTGCTTCC	0.343													45	68					0	0	1	0	0		C	137241990	C	C	137241990	3	2	89	1	0	0	0	0	1	0	0	0	11987	1841	64	3	864	3	PKD2L2	5	137241990	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	24240	137241990	43673270	2434	56265											
PKD2L2	27039	broad.mit.edu	37	chr5	137242046	137242046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttttgtcttcacaacacaaGaagtcaaaaaaataaaagaa	21	10	4	6	0	3	2	2	0	1	2	3	2	3	2	0	0	1	0	0	0	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:137242046G>A	uc003lby.2	+	6	954	c.898G>A	c.(898-900)GAA>AAA	p.E300K	PKD2L2_uc010jep.1_Missense_Mutation_p.E240K|PKD2L2_uc003lbw.1_Missense_Mutation_p.E300K|PKD2L2_uc003lbx.2_Missense_Mutation_p.E300K|PKD2L2_uc011cyi.1_5'UTR	NM_014386	NP_055201	Q9NZM6	PK2L2_HUMAN	polycystic kidney disease 2-like 2	300	Cytoplasmic (Potential).					integral to membrane	calcium ion binding|ion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CACAACACAAGAAGTCAAAAA	0.318													24	60					0	0	1	0	0		A	137242046	A	A	137242046	3	1	89	1	0	0	0	0	1	0	0	0	11987	943	33	4	920	4	PKD2L2	5	137242046	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	56	137242046	43673214	2435	56266											
FAM13B	51306	broad.mit.edu	37	chr5	137284799	137284799	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggtctagagaagagccaaAgctttttggaagtgtgttac	12	12	12	5	0	1	2	0	0	1	2	1	4	1	3	1	2	3	2	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:137284799A>C	uc003lbz.2	-	17	2473	c.1939T>G	c.(1939-1941)TTT>GTT	p.F647V	FAM13B_uc003lcb.2_Missense_Mutation_p.F551V|FAM13B_uc003lca.2_Missense_Mutation_p.F647V	NM_016603	NP_057687	Q9NYF5	FA13B_HUMAN	hypothetical protein LOC51306 isoform 1	647					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						GAAGAGCCAAAGCTTTTTGGA	0.388													39	80					0	0	1	0	0		C	137284799	C	C	137284799	3	2	89	1	0	0	0	0	1	0	0	0	5464	72	3	5	836	5	FAM13B	5	137284799	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	42753	137284799	43630461	2436	56267											
KIF20A	10112	broad.mit.edu	37	chr5	137518869	137518869	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttctccagaaacaagtcatCgatgggcacagccagacact	13	7	8	13	1	2	2	1	0	1	2	4	3	2	2	2	1	2	1	2	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:137518869C>T	uc003lcj.2	+	8	1340	c.844C>T	c.(844-846)CGA>TGA	p.R282*	KIF20A_uc011cyo.1_Nonsense_Mutation_p.R264*	NM_005733	NP_005724	O95235	KI20A_HUMAN	kinesin family member 20A	282	Kinesin-motor.				cytokinesis|M phase of mitotic cell cycle|microtubule-based movement|protein transport|vesicle-mediated transport	Golgi apparatus|microtubule|nucleoplasm	ATP binding|microtubule motor activity|protein binding|transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			AACAAGTCATCGATGGGCACA	0.498													32	66					0	0	1	0	0		T	137518869	T	T	137518869	4	4	89	1	0	0	0	0	0	1	0	0	8302	876	31	1	870	1	KIF20A	5	137518869	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	234070	137518869	43396391	2437	56268											
GFRA3	2676	broad.mit.edu	37	chr5	137589038	137589038	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagaagagttggctgtgaaAacgcatcttagctgcaatgg	12	9	14	6	1	1	3	0	1	1	2	1	4	1	3	0	3	3	5	0	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:137589038A>C	uc003lcn.2	-	7	1191	c.1051T>G	c.(1051-1053)TTT>GTT	p.F351V	GFRA3_uc003lco.2_Missense_Mutation_p.F320V	NM_001496	NP_001487	O60609	GFRA3_HUMAN	GDNF family receptor alpha 3 preproprotein	351					peripheral nervous system development	anchored to membrane|cytoplasm|extrinsic to membrane|intracellular membrane-bounded organelle	receptor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			TGGCTGTGAAAACGCATCTTA	0.552													3	13					0	0	1	0	0		C	137589038	C	C	137589038	3	2	89	1	0	0	0	0	1	0	0	0	6364	14	1	5	159	5	GFRA3	5	137589038	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	70169	137589038	43326222	2438	56269											
CDC25C	995	broad.mit.edu	37	chr5	137627783	137627783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctggcatcgacggggagCgatataggccacttctgctc	7	10	12	12	3	2	0	0	0	2	0	5	3	2	1	1	4	2	2	1	4	2	3	rs148887677		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:137627783C>T	uc003lcp.1	-	8	909	c.638G>A	c.(637-639)CGC>CAC	p.R213H	CDC25C_uc003lcq.1_Missense_Mutation_p.R140H|CDC25C_uc003lcr.1_Missense_Mutation_p.R213H|CDC25C_uc011cyp.1_Missense_Mutation_p.R230H|CDC25C_uc003lcs.1_Missense_Mutation_p.R291H	NM_001790	NP_001781	P30307	MPIP3_HUMAN	cell division cycle 25C isoform a	213					cell cycle checkpoint|cell division|cell proliferation|DNA replication|G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm	protein tyrosine phosphatase activity|WW domain binding			lung(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CGACGGGGAGCGATATAGGCC	0.313													45	92					0	0	1	0	0		T	137627783	T	T	137627783	3	4	89	1	0	0	0	0	1	0	0	0	3067	768	27	1	811	1	CDC25C	5	137627783	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	38745	137627783	43287477	2439	56270											
KDM3B	51780	broad.mit.edu	37	chr5	137715275	137715275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gactgatctcccttttaggtCcctacagtgttcaaggtcac	8	13	8	12	0	3	1	2	1	1	0	5	2	4	1	2	2	1	1	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:137715275C>T	uc003lcy.1	+	5	783	c.583C>T	c.(583-585)CCC>TCC	p.P195S	KDM3B_uc010jew.1_5'UTR	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	195					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						CCTTTTAGGTCCCTACAGTGT	0.403													27	48					0	0	1	0	0		T	137715275	T	T	137715275	3	4	89	1	0	0	0	0	1	0	0	0	8143	855	30	4	601	4	KDM3B	5	137715275	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	87492	137715275	43199985	2440	56271											
KDM3B	51780	broad.mit.edu	37	chr5	137771343	137771343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaccatgcagtgaaagatgCggttggcaccctcaaggctc	10	9	11	11	1	1	2	1	1	0	1	2	2	1	2	2	3	3	4	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:137771343C>T	uc003lcy.1	+	24	5440	c.5240C>T	c.(5239-5241)GCG>GTG	p.A1747V	KDM3B_uc010jew.1_Missense_Mutation_p.A1403V|KDM3B_uc011cys.1_Missense_Mutation_p.A779V	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	1747					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						GTGAAAGATGCGGTTGGCACC	0.478													6	19					0	0	1	0	0		T	137771343	T	T	137771343	3	4	89	1	0	0	0	0	1	0	0	0	8143	768	27	1	5334	1	KDM3B	5	137771343	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	56068	137771343	43143917	2441	56272											
ETF1	2107	broad.mit.edu	37	chr5	137844015	137844015	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtagtcatcaaggtcaaaAaattcatcgtctcctccttg	12	13	6	10	1	5	0	4	0	1	0	8	0	6	0	2	1	0	1	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:137844015A>C	uc003ldc.3	-	11	1458	c.1293T>G	c.(1291-1293)TTT>TTG	p.F431L	ETF1_uc011cyv.1_Missense_Mutation_p.F417L|ETF1_uc010jex.2_RNA|ETF1_uc003ldd.3_Missense_Mutation_p.F398L	NM_004730	NP_004721	P62495	ERF1_HUMAN	eukaryotic translation termination factor 1	431					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation|regulation of translational termination	cytoplasm	protein binding|ribosome binding|translation release factor activity, codon specific			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CAAGGTCAAAAAATTCATCGT	0.473													9	27					0	0	1	0	0		C	137844015	C	C	137844015	3	2	89	1	0	0	0	0	1	0	0	0	5276	11	1	5	24	5	ETF1	5	137844015	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	72672	137844015	43071245	2442	56273											
HSPA9	3313	broad.mit.edu	37	chr5	137892159	137892159	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctttttgtatgccatttcGaacagcttcagtgatgcctg	8	15	8	10	1	1	1	1	1	0	0	2	2	1	1	3	0	4	2	3	0	2	5	rs148730345		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:137892159G>A	uc003ldf.2	-	16	2052	c.1944C>T	c.(1942-1944)TTC>TTT	p.F648F	HSPA9_uc003lde.2_Silent_p.F65F	NM_004134	NP_004125	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 precursor	648					anti-apoptosis|protein folding	cell surface|mitochondrial nucleoid	ATP binding|unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ATGCCATTTCGAACAGCTTCA	0.453													77	163					0	0	1	0	0		A	137892159	A	A	137892159	2	1	89	1	0	0	0	0	0	0	0	1	7433	1049	37	1		1	HSPA9	5	137892159	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	48144	137892159	43023101	2443	56274											
CTNNA1	1495	broad.mit.edu	37	chr5	138160307	138160307	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcctctatactgcatcccAggcatgcctacagcaccctg	9	9	7	16	0	1	0	0	0	1	0	3	1	3	0	4	1	5	3	4	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:138160307A>G	uc003ldh.2	+	6	772	c.677A>G	c.(676-678)CAG>CGG	p.Q226R	CTNNA1_uc011cyx.1_Missense_Mutation_p.Q123R|CTNNA1_uc011cyy.1_Missense_Mutation_p.Q103R|CTNNA1_uc003ldi.2_Intron|CTNNA1_uc003ldj.2_Missense_Mutation_p.Q226R	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	226	Involved in homodimerization.				adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ACTGCATCCCAGGCATGCCTA	0.517													20	48					0	0	1	0	0		G	138160307	G	G	138160307	3	3	89	1	0	0	0	0	1	0	0	0	4015	188	7	3	695	3	CTNNA1	5	138160307	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	268148	138160307	42754953	2444	56275											
CTNNA1	1495	broad.mit.edu	37	chr5	138160426	138160426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaggccactgcctcagacGatgcctcacagcaccagggt	9	5	10	17	1	2	1	2	0	0	1	2	2	2	1	5	2	3	1	5	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:138160426G>A	uc003ldh.2	+	6	891	c.796G>A	c.(796-798)GAT>AAT	p.D266N	CTNNA1_uc011cyx.1_Missense_Mutation_p.D163N|CTNNA1_uc011cyy.1_Missense_Mutation_p.D143N|CTNNA1_uc003ldi.2_Intron|CTNNA1_uc003ldj.2_Missense_Mutation_p.D266N	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	266					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TGCCTCAGACGATGCCTCACA	0.532													52	99					0	0	1	0	0		A	138160426	A	A	138160426	3	1	89	1	0	0	0	0	1	0	0	0	4015	1058	37	1	814	1	CTNNA1	5	138160426	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	119	138160426	42754834	2445	56276											
LRRTM2	26045	broad.mit.edu	37	chr5	138208713	138208713	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatattatacttcacattCtttgtatggcagctgctgac	10	16	7	8	0	2	2	1	1	1	1	2	2	2	2	0	1	3	4	0	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:138208713C>A	uc011cyz.1	-	2	1994	c.1537G>T	c.(1537-1539)GAA>TAA	p.E513*	CTNNA1_uc003ldh.2_Intron|CTNNA1_uc011cyx.1_Intron|CTNNA1_uc011cyy.1_Intron|CTNNA1_uc003ldi.2_Intron|CTNNA1_uc003ldj.2_Intron|LRRTM2_uc010jez.2_RNA|LRRTM2_uc011cza.1_Nonsense_Mutation_p.E379*|CTNNA1_uc003ldl.2_5'Flank	NM_015564	NP_056379	O43300	LRRT2_HUMAN	leucine rich repeat transmembrane neuronal 2	513	Cytoplasmic (Potential).					cell junction|integral to membrane|postsynaptic membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ACTTCACATTCTTTGTATGGC	0.363													59	110					1.27862e-28	1.55661e-28	1	1	0		A	138208713	A	A	138208713	4	1	89	1	0	0	0	0	0	1	0	0	9058	922	32	5	17	5	LRRTM2	5	138208713	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	48287	138208713	42706547	2446	56277											
SIL1	64374	broad.mit.edu	37	chr5	138386648	138386648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttgcctttcaaattatttCggaacttgtcctcatattgg	8	19	6	8	1	2	0	2	0	0	0	4	1	3	1	2	2	2	0	2	2	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:138386648C>T	uc003ldm.2	-	3	349	c.332G>A	c.(331-333)CGA>CAA	p.R111Q	SIL1_uc003ldn.2_Missense_Mutation_p.R110Q|SIL1_uc003ldo.2_Missense_Mutation_p.R111Q|SIL1_uc003ldp.2_Missense_Mutation_p.R111Q	NM_022464	NP_071909	Q9H173	SIL1_HUMAN	SIL1 protein precursor	111	Interaction with HSPA5 and localization to the endoplasmic reticulum (By similarity).				intracellular protein transport|protein folding|transmembrane transport	endoplasmic reticulum lumen	unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CAAATTATTTCGGAACTTGTC	0.438									Marinesco-Sj_gren_syndrome				40	90					0	0	1	0	0		T	138386648	T	T	138386648	3	4	89	1	0	0	0	0	1	0	0	0	14346	884	31	1	1081	1	SIL1	5	138386648	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	177935	138386648	42528612	2447	56278											
SLC23A1	9963	broad.mit.edu	37	chr5	138715727	138715727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagcaggaaggtgaggttgCgcaggtactgggagaagagg	11	5	20	5	1	0	3	0	1	0	2	0	5	0	4	0	6	3	5	0	6	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:138715727C>T	uc003leh.2	-	7	783	c.686G>A	c.(685-687)CGC>CAC	p.R229H	SLC23A1_uc003leg.2_Missense_Mutation_p.R233H	NM_005847	NP_005838	Q9UHI7	S23A1_HUMAN	solute carrier family 23 (nucleobase	229					brain development|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|response to toxin|transepithelial L-ascorbic acid transport|water-soluble vitamin metabolic process	apical plasma membrane|cytoplasm|integral to plasma membrane|intracellular organelle|membrane fraction	dehydroascorbic acid transporter activity|L-ascorbate:sodium symporter activity|nucleobase transmembrane transporter activity|protein binding|sodium-dependent L-ascorbate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)		Vitamin C(DB00126)	GGTGAGGTTGCGCAGGTACTG	0.602													6	22					0	0	1	0	0		T	138715727	T	T	138715727	3	4	89	1	0	0	0	0	1	0	0	0	14487	768	27	1	1142	1	SLC23A1	5	138715727	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	329079	138715727	42199533	2448	56279											
PSD2	84249	broad.mit.edu	37	chr5	139216473	139216473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcacgaagaaggtgacgcGaatcctggatggtggcaacc	12	5	15	9	3	0	2	0	1	0	1	1	5	1	3	2	5	1	2	2	5	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:139216473G>A	uc003leu.1	+	10	1686	c.1481G>A	c.(1480-1482)CGA>CAA	p.R494Q		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	494					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGGTGACGCGAATCCTGGAT	0.582													39	98					0	0	1	0	0		A	139216473	A	A	139216473	3	1	89	1	0	0	0	0	1	0	0	0	12669	1058	37	1	1515	1	PSD2	5	139216473	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	500746	139216473	41698787	2449	56280											
PSD2	84249	broad.mit.edu	37	chr5	139217339	139217339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgaagcttaagacagccGactggagggtattcctcttc	9	11	11	10	1	1	2	0	1	1	1	3	4	2	3	2	2	3	3	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:139217339G>A	uc003leu.1	+	12	2000	c.1795G>A	c.(1795-1797)GAC>AAC	p.D599N		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	599	PH.				regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAAGACAGCCGACTGGAGGGT	0.612													14	38					0	0	1	0	0		A	139217339	A	A	139217339	3	1	89	1	0	0	0	0	1	0	0	0	12669	1058	37	1	1837	1	PSD2	5	139217339	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	866	139217339	41697921	2450	56281											
NRG2	9542	broad.mit.edu	37	chr5	139231256	139231256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggcgcggtggccctgcGccgctcctccaggttgtagg	2	8	18	13	4	0	0	0	0	0	0	2	0	2	0	4	6	1	3	4	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:139231256G>A	uc003lex.1	-	9	1930	c.1705C>T	c.(1705-1707)CGC>TGC	p.R569C	NRG2_uc003lev.1_Missense_Mutation_p.R577C|NRG2_uc003lew.1_Missense_Mutation_p.R571C|NRG2_uc003ley.1_Missense_Mutation_p.R563C	NM_004883	NP_004874	O14511	NRG2_HUMAN	neuregulin 2 isoform 1	569	Cytoplasmic (Potential).				embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGCCCTGCGCCGCTCCTCC	0.632													22	55					0	0	1	0	0		A	139231256	A	A	139231256	3	1	89	1	0	0	0	0	1	0	0	0	10667	1087	38	1	855	1	NRG2	5	139231256	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13917	139231256	41684004	2451	56282											
NRG2	9542	broad.mit.edu	37	chr5	139231356	139231356	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgatgatagcatgatcccCgactgggagtcagaagtcag	12	8	12	9	1	2	4	2	3	0	1	3	6	3	5	2	1	1	1	2	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:139231356C>A	uc003lex.1	-	9	1830	c.1605G>T	c.(1603-1605)TCG>TCT	p.S535S	NRG2_uc003lev.1_Silent_p.S543S|NRG2_uc003lew.1_Silent_p.S537S|NRG2_uc003ley.1_Silent_p.S529S	NM_004883	NP_004874	O14511	NRG2_HUMAN	neuregulin 2 isoform 1	535	Cytoplasmic (Potential).				embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCATGATCCCCGACTGGGAGT	0.617													15	38					2.31682e-05	2.38585e-05	1	1	0		A	139231356	A	A	139231356	2	1	89	1	0	0	0	0	0	0	0	1	10667	639	23	5		5	NRG2	5	139231356	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	100	139231356	41683904	2452	56283											
TMCO6	55374	broad.mit.edu	37	chr5	140022539	140022539	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctccactctccctcagcAcatgctacaaatgttgcaac	10	9	6	16	0	2	0	1	0	1	0	4	0	3	0	3	1	5	4	3	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140022539A>G	uc003lgl.2	+	7	820	c.719A>G	c.(718-720)CAC>CGC	p.H240R	TMCO6_uc003lgm.2_Missense_Mutation_p.H246R|TMCO6_uc010jft.2_5'UTR|TMCO6_uc003lgn.2_Missense_Mutation_p.H131R|TMCO6_uc003lgo.2_5'UTR	NM_018502	NP_060972	Q96DC7	TMCO6_HUMAN	transmembrane and coiled-coil domains 6	240					protein import into nucleus	cytoplasm|nuclear pore	binding|protein transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCCCTCAGCACATGCTACAA	0.532													19	56					0	0	1	0	0		G	140022539	G	G	140022539	3	3	89	1	0	0	0	0	1	0	0	0	16025	159	6	3	745	3	TMCO6	5	140022539	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	791183	140022539	40892721	2453	56284											
TMCO6	55374	broad.mit.edu	37	chr5	140023501	140023501	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgcagttctttttccagaAacagcccagtctgctccctg	7	13	7	14	0	3	1	0	0	3	1	5	1	5	1	3	0	4	3	3	0	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140023501A>G	uc003lgl.2	+	9	1156	c.1055A>G	c.(1054-1056)AAA>AGA	p.K352R	TMCO6_uc003lgm.2_Missense_Mutation_p.K358R|TMCO6_uc010jft.2_Missense_Mutation_p.K112R|TMCO6_uc003lgn.2_Missense_Mutation_p.K243R|TMCO6_uc003lgo.2_Missense_Mutation_p.K112R	NM_018502	NP_060972	Q96DC7	TMCO6_HUMAN	transmembrane and coiled-coil domains 6	352	Helical; (Potential).				protein import into nucleus	cytoplasm|nuclear pore	binding|protein transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTTTCCAGAAACAGCCCAGT	0.517													20	70					0	0	1	0	0		G	140023501	G	G	140023501	3	3	89	1	0	0	0	0	1	0	0	0	16025	14	1	3	1089	3	TMCO6	5	140023501	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	962	140023501	40891759	2454	56285											
WDR55	54853	broad.mit.edu	37	chr5	140047890	140047890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaccatctcaaggcctgccGagctgtggccttctctgaag	7	10	10	14	1	3	1	2	1	2	0	5	2	3	1	4	2	2	1	4	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140047890G>A	uc003lgr.3	+	2	377	c.263G>A	c.(262-264)CGA>CAA	p.R88Q	WDR55_uc011czl.1_5'Flank	NM_017706	NP_060176	Q9H6Y2	WDR55_HUMAN	WD repeat domain 55	88	WD 2.				rRNA processing	cytoplasm|nucleolus				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGGCCTGCCGAGCTGTGGCC	0.562													42	80					0	0	1	0	0		A	140047890	A	A	140047890	3	1	89	1	0	0	0	0	1	0	0	0	17333	1058	37	1	269	1	WDR55	5	140047890	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24389	140047890	40867370	2455	56286											
HARS2	23438	broad.mit.edu	37	chr5	140077629	140077629	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagaactgaaagaaggggTcatcaagatccgttcagtgg	14	7	13	7	1	3	4	3	1	0	3	4	4	4	4	1	3	1	2	1	3	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140077629T>C	uc003lgx.2	+	12	1643	c.1427T>C	c.(1426-1428)GTC>GCC	p.V476A	HARS2_uc011czr.1_Missense_Mutation_p.V451A|HARS2_uc011czs.1_Missense_Mutation_p.V332A|HARS2_uc011czt.1_Missense_Mutation_p.V304A|HARS2_uc011czu.1_Missense_Mutation_p.V302A|ZMAT2_uc003lgy.1_5'Flank	NM_012208	NP_036340	P49590	SYHM_HUMAN	histidyl-tRNA synthetase 2 precursor	476					histidyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|histidine-tRNA ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAGAAGGGGTCATCAAGATC	0.473													31	49					0	0	1	0	0		C	140077629	C	C	140077629	3	2	89	1	0	0	0	0	1	0	0	0	6976	1667	58	3	1473	3	HARS2	5	140077629	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	29739	140077629	40837631	2456	56287											
PCDHA1	56147	broad.mit.edu	37	chr5	140166397	140166397	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaacgtacacgctcagcccGagtgattatttctctttgga	9	13	8	11	3	2	1	1	1	1	0	3	3	2	2	1	1	3	2	1	1	3	5	rs150817350		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140166397G>A	uc003lhb.2	+	1	522	c.522G>A	c.(520-522)CCG>CCA	p.P174P	PCDHA1_uc003lha.2_Silent_p.P174P|PCDHA1_uc003lgz.2_Silent_p.P174P	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	174	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCTCAGCCCGAGTGATTATT	0.418													12	95					0	0	1	0	0		A	140166397	A	A	140166397	2	1	89	1	0	0	0	0	0	0	0	1	11538	1045	37	1		1	PCDHA1	5	140166397	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	88768	140166397	40748863	2457	56288											
PCDHA2	56146	broad.mit.edu	37	chr5	140174848	140174848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgtgcgggcggagcgCggaatgtagcatccacgtgg	7	6	19	9	5	0	0	0	0	0	0	1	3	1	3	1	5	4	3	1	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140174848C>T	uc003lhd.2	+	1	405	c.299C>T	c.(298-300)GCG>GTG	p.A100V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.A100V|PCDHA2_uc011czy.1_Missense_Mutation_p.A100V	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	100	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCGGAGCGCGGAATGTAGC	0.542													92	193					0	0	1	0	0		T	140174848	T	T	140174848	3	4	89	1	0	0	0	0	1	0	0	0	11543	768	27	1	301	1	PCDHA2	5	140174848	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8451	140174848	40740412	2458	56289											
PCDHA4	56144	broad.mit.edu	37	chr5	140187116	140187116	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgtagacaggccgctgcAggttttccatgtggacgtgg	7	10	15	9	3	0	1	0	0	0	1	2	3	1	2	2	4	1	4	2	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140187116A>C	uc003lhi.2	+	1	445	c.344A>C	c.(343-345)CAG>CCG	p.Q115P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.Q115P|PCDHA4_uc011daa.1_Missense_Mutation_p.Q115P	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	115	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGCCGCTGCAGGTTTTCCAT	0.582													88	115					0	0	1	0	0		C	140187116	C	C	140187116	3	2	89	1	0	0	0	0	1	0	0	0	11545	188	7	5	346	5	PCDHA4	5	140187116	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	12268	140187116	40728144	2459	56290											
PCDHA4	56144	broad.mit.edu	37	chr5	140187186	140187186	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttcccagcaacacaaaaGaacctgtccatcgcggaatc	13	7	8	13	2	0	1	0	0	0	1	4	2	2	2	3	1	3	2	3	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140187186G>T	uc003lhi.2	+	1	515	c.414G>T	c.(412-414)AAG>AAT	p.K138N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.K138N|PCDHA4_uc011daa.1_Missense_Mutation_p.K138N	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	138	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAACACAAAAGAACCTGTCCA	0.572													47	113					1.06522e-23	1.27633e-23	1	1	0		T	140187186	T	T	140187186	3	4	89	1	0	0	0	0	1	0	0	0	11545	933	33	5	416	5	PCDHA4	5	140187186	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	70	140187186	40728074	2460	56291											
PCDHA6	56142	broad.mit.edu	37	chr5	140208802	140208802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgccctaattagcgtgaacGacctcgattcaggtgccaac	10	9	9	13	4	1	1	1	1	0	0	3	3	1	1	3	1	4	0	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140208802G>A	uc003lho.2	+	1	1153	c.1126G>A	c.(1126-1128)GAC>AAC	p.D376N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.D376N|PCDHA6_uc011dab.1_Missense_Mutation_p.D376N	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	376	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGCGTGAACGACCTCGATTC	0.498													59	166					0	0	1	0	0		A	140208802	A	A	140208802	3	1	89	1	0	0	0	0	1	0	0	0	11547	1058	37	1	1128	1	PCDHA6	5	140208802	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21616	140208802	40706458	2461	56292											
PCDHA7	56141	broad.mit.edu	37	chr5	140214350	140214350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaggtgaaggacattaacGacaaccctccggtgttccca	11	8	11	11	2	0	1	0	1	0	0	2	4	2	3	3	4	2	1	3	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140214350G>A	uc003lhq.2	+	1	382	c.382G>A	c.(382-384)GAC>AAC	p.D128N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.D128N	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	128	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACATTAACGACAACCCTCC	0.597													81	122					0	0	1	0	0		A	140214350	A	A	140214350	3	1	89	1	0	0	0	0	1	0	0	0	11548	1058	37	1	384	1	PCDHA7	5	140214350	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5548	140214350	40700910	2462	56293											
PCDHA8	56140	broad.mit.edu	37	chr5	140221499	140221499	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttgagctcgtattaagaaAatccttggacagagaggacg	13	9	13	6	2	0	3	0	1	0	2	2	6	1	5	1	3	1	3	1	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140221499A>C	uc003lhs.2	+	1	593	c.593A>C	c.(592-594)AAA>ACA	p.K198T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.K198T	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	198	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTATTAAGAAAATCCTTGGAC	0.473													9	98					0	0	1	0	0		C	140221499	C	C	140221499	3	2	89	1	0	0	0	0	1	0	0	0	11549	14	1	5	595	5	PCDHA8	5	140221499	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	7149	140221499	40693761	2463	56294											
PCDHA9	9752	broad.mit.edu	37	chr5	140228097	140228097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaatgttatactcaagtcGaggagatccagagggtcagc	13	9	12	7	1	2	3	2	1	0	2	4	5	3	3	1	2	2	1	1	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140228097G>A	uc003lhu.2	+	1	741	c.17G>A	c.(16-18)CGA>CAA	p.R6Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.R6Q	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	6					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TACTCAAGTCGAGGAGATCCA	0.488													73	109					0	0	1	0	0		A	140228097	A	A	140228097	3	1	89	1	0	0	0	0	1	0	0	0	11550	1058	37	1	19	1	PCDHA9	5	140228097	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6598	140228097	40687163	2464	56295											
PCDHA11	56138	broad.mit.edu	37	chr5	140249484	140249484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgtgctcaaactaaacGccacagaccgagacgaagga	14	6	9	12	3	2	2	1	0	1	2	2	5	2	3	2	1	3	1	2	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140249484G>A	uc003lia.2	+	1	1654	c.796G>A	c.(796-798)GCC>ACC	p.A266T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.A266T	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	266	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAAACTAAACGCCACAGACCG	0.388													7	14					0	0	1	0	0		A	140249484	A	A	140249484	3	1	89	1	0	0	0	0	1	0	0	0	11540	1087	38	1	798	1	PCDHA11	5	140249484	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21387	140249484	40665776	2465	56296											
PCDHA12	56137	broad.mit.edu	37	chr5	140255526	140255526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcattttcctctagagggcGcttctgatgcggatatcggc	6	13	11	11	3	3	2	1	1	2	1	5	3	4	3	1	3	1	1	1	3	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140255526G>A	uc003lic.2	+	1	596	c.469G>A	c.(469-471)GCT>ACT	p.A157T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.A157T	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	157	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTAGAGGGCGCTTCTGATGC	0.408													52	70					0	0	1	0	0		A	140255526	A	A	140255526	3	1	89	1	0	0	0	0	1	0	0	0	11541	1087	38	1	471	1	PCDHA12	5	140255526	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6042	140255526	40659734	2466	56297											
PCDHAC1	56135	broad.mit.edu	37	chr5	140307492	140307492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtgaacgatcatgcccccGaactggacttcctgactctt	9	10	8	14	3	2	2	1	2	1	0	3	5	3	3	3	1	3	0	3	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140307492G>A	uc003lih.2	+	1	1191	c.1015G>A	c.(1015-1017)GAA>AAA	p.E339K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.E339K	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	339	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCATGCCCCCGAACTGGACTT	0.522													72	128					0	0	1	0	0		A	140307492	A	A	140307492	3	1	89	1	0	0	0	0	1	0	0	0	11551	1059	37	1	1017	1	PCDHAC1	5	140307492	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	51966	140307492	40607768	2467	56298											
PCDHAC1	56135	broad.mit.edu	37	chr5	140307515	140307515	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggacttcctgactctttcGaacccagtacctgaggacgc	8	10	9	14	2	1	2	0	2	1	0	3	5	2	4	3	2	2	1	3	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140307515G>A	uc003lih.2	+	1	1214	c.1038G>A	c.(1036-1038)TCG>TCA	p.S346S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Silent_p.S346S	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	346	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGACTCTTTCGAACCCAGTAC	0.517													46	121					0	0	1	0	0		A	140307515	A	A	140307515	2	1	89	1	0	0	0	0	0	0	0	1	11551	1045	37	1		1	PCDHAC1	5	140307515	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23	140307515	40607745	2468	56299											
PCDHAC1	56135	broad.mit.edu	37	chr5	140308872	140308872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatatcctgtattcagattCggaataggaaaggggatcac	14	10	10	7	1	2	1	2	0	0	1	4	4	3	4	1	4	0	1	1	4	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140308872C>T	uc003lih.2	+	1	2571	c.2395C>T	c.(2395-2397)CGG>TGG	p.R799W	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.R799W	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	799	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TATTCAGATTCGGAATAGGAA	0.453													55	113					0	0	1	0	0		T	140308872	T	T	140308872	3	4	89	1	0	0	0	0	1	0	0	0	11551	875	31	1	2397	1	PCDHAC1	5	140308872	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1357	140308872	40606388	2469	56300											
PCDHB1	29930	broad.mit.edu	37	chr5	140431993	140431993	+	Missense_Mutation	SNP	A	C	C																															cctcgattttgaagccattgAaacatacgacattgacattc																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140431993A>C	uc003lik.1	+	1	1015	c.938A>C	c.(937-939)GAA>GCA	p.E313A		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	313	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAAGCCATTGAAACATACGAC	0.458													52	77					0	0	1	0	0		C	140431993	C	C	140431993	3	2	89	1	0	0	0	0	1	0	0	0	11553	246	9	5	940	5	PCDHB1	5	140431993	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	123121	140431993	40483267	2470	56301	103	2									
PCDHB1	29930	broad.mit.edu	37	chr5	140432001	140432001	+	Missense_Mutation	SNP	G	A	A																															ttgaagccattgaaacatacGacattgacattcaagctaca																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140432001G>A	uc003lik.1	+	1	1023	c.946G>A	c.(946-948)GAC>AAC	p.D316N		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	316	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGAAACATACGACATTGACAT	0.463													57	83					0	0	1	0	0		A	140432001	A	A	140432001	3	1	89	1	0	0	0	0	1	0	0	0	11553	1058	37	1	948	1	PCDHB1	5	140432001	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8	140432001	40483259	2471	56302	103	2									
PCDHB1	29930	broad.mit.edu	37	chr5	140432773	140432773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagaacggcaccttgccctGcaatgacctggtgcccaggt	8	7	12	14	1	0	2	0	1	0	1	0	2	0	2	4	3	4	3	4	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140432773G>A	uc003lik.1	+	1	1795	c.1718G>A	c.(1717-1719)TGC>TAC	p.C573Y		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	573	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACCTTGCCCTGCAATGACCTG	0.502													22	65					0	0	1	0	0		A	140432773	A	A	140432773	3	1	89	1	0	0	0	0	1	0	0	0	11553	1319	46	2	1720	2	PCDHB1	5	140432773	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	772	140432773	40482487	2472	56303											
PCDHB1	29930	broad.mit.edu	37	chr5	140432871	140432871	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattcttggctttcatatCatctacttaaggccactgac	11	14	6	10	0	4	2	2	1	2	1	4	2	4	2	1	2	1	1	1	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140432871C>A	uc003lik.1	+	1	1893	c.1816C>A	c.(1816-1818)CAT>AAT	p.H606N		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	606	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTTTCATATCATCTACTTAA	0.468													28	51					1.17739e-12	1.30765e-12	1	1	0		A	140432871	A	A	140432871	3	1	89	1	0	0	0	0	1	0	0	0	11553	826	29	5	1818	5	PCDHB1	5	140432871	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	98	140432871	40482389	2473	56304											
PCDHB1	29930	broad.mit.edu	37	chr5	140432958	140432958	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggcagatatctgagagaGaccccatgatgcagaaattg	15	8	11	7	0	1	5	0	2	1	4	1	7	1	5	2	1	1	2	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140432958G>T	uc003lik.1	+	1	1980	c.1903G>T	c.(1903-1905)GAC>TAC	p.D635Y		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	635	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATCTGAGAGAGACCCCATGAT	0.423													51	108					3.68337e-26	4.45113e-26	1	1	0		T	140432958	T	T	140432958	3	4	89	1	0	0	0	0	1	0	0	0	11553	942	33	5	1905	5	PCDHB1	5	140432958	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	87	140432958	40482302	2474	56305											
PCDHB3	56132	broad.mit.edu	37	chr5	140481185	140481185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgattaatagttatgaagtcGacatcgaggccaaggatggc	13	9	12	7	3	0	1	0	1	0	0	2	5	0	2	1	3	0	1	1	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140481185G>A	uc003lio.2	+	1	952	c.952G>A	c.(952-954)GAC>AAC	p.D318N	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	318	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTATGAAGTCGACATCGAGGC	0.428													37	57					0	0	1	0	0		A	140481185	A	A	140481185	3	1	89	1	0	0	0	0	1	0	0	0	11562	1058	37	1	954	1	PCDHB3	5	140481185	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	48227	140481185	40434075	2475	56306											
PCDHB3	56132	broad.mit.edu	37	chr5	140482283	140482283	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccggcccaggcccaggccGacttgctcaccgtctacctg	6	6	10	19	3	2	0	1	0	1	0	2	1	2	0	6	3	2	1	6	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140482283G>A	uc003lio.2	+	1	2050	c.2050G>A	c.(2050-2052)GAC>AAC	p.D684N	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	684	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCCCAGGCCGACTTGCTCAC	0.682													79	171					0	0	1	0	0		A	140482283	A	A	140482283	3	1	89	1	0	0	0	0	1	0	0	0	11562	1058	37	1	2052	1	PCDHB3	5	140482283	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1098	140482283	40432977	2476	56307											
PCDHB4	56131	broad.mit.edu	37	chr5	140502262	140502262	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtctggcacggtcatggttCgaatcctgatcatggacatc	8	11	12	10	2	3	1	2	1	1	0	6	3	4	2	1	5	0	2	1	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140502262C>T	uc003lip.1	+	1	682	c.682C>T	c.(682-684)CGA>TGA	p.R228*		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	228	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGTCATGGTTCGAATCCTGAT	0.542													63	92					0	0	1	0	0		T	140502262	T	T	140502262	4	4	89	1	0	0	0	0	0	1	0	0	11563	876	31	1	684	1	PCDHB4	5	140502262	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19979	140502262	40412998	2477	56308											
PCDHB5	26167	broad.mit.edu	37	chr5	140515899	140515899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaaccatttgtaatagacGagaaaacagcagaaattcgc	17	8	7	9	2	1	3	1	0	0	3	2	4	1	3	1	0	3	2	1	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140515899G>A	uc003liq.2	+	1	1100	c.883G>A	c.(883-885)GAG>AAG	p.E295K		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	295	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGTAATAGACGAGAAAACAGC	0.458													64	135					0	0	1	0	0		A	140515899	A	A	140515899	3	1	89	1	0	0	0	0	1	0	0	0	11564	1059	37	1	885	1	PCDHB5	5	140515899	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13637	140515899	40399361	2478	56309											
PCDHB6	56130	broad.mit.edu	37	chr5	140529924	140529924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggagaggtgggttctgaatCgattcagtattccgtattgg	8	13	15	5	2	2	2	1	1	1	1	4	4	3	2	1	4	0	3	1	4	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140529924C>T	uc003lir.2	+	1	86	c.86C>T	c.(85-87)TCG>TTG	p.S29L	PCDHB6_uc011dah.1_Intron	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	29	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGTTCTGAATCGATTCAGTAT	0.478													36	95					0	0	1	0	0		T	140529924	T	T	140529924	3	4	89	1	0	0	0	0	1	0	0	0	11565	893	31	1	88	1	PCDHB6	5	140529924	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14025	140529924	40385336	2479	56310											
PCDHB6	56130	broad.mit.edu	37	chr5	140530736	140530736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcaatcacaggagaaattCggctgagaaaggctttggat	14	8	12	7	2	1	2	1	1	0	2	2	5	1	3	0	4	0	3	0	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140530736C>T	uc003lir.2	+	1	898	c.898C>T	c.(898-900)CGG>TGG	p.R300W	PCDHB6_uc011dah.1_Missense_Mutation_p.R164W	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	300	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGAGAAATTCGGCTGAGAAA	0.443													43	89					0	0	1	0	0		T	140530736	T	T	140530736	3	4	89	1	0	0	0	0	1	0	0	0	11565	875	31	1	900	1	PCDHB6	5	140530736	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	812	140530736	40384524	2480	56311											
PCDHB7	56129	broad.mit.edu	37	chr5	140552652	140552652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaaattttactgctcagttCgcttactggtgatctacttc	8	16	7	10	1	2	1	1	1	1	0	4	1	2	1	0	1	4	4	0	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140552652C>T	uc003lit.2	+	1	410	c.236C>T	c.(235-237)TCG>TTG	p.S79L		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	79	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGCTCAGTTCGCTTACTGGT	0.473													33	65					0	0	1	0	0		T	140552652	T	T	140552652	3	4	89	1	0	0	0	0	1	0	0	0	11566	893	31	1	238	1	PCDHB7	5	140552652	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	21916	140552652	40362608	2481	56312											
PCDHB7	56129	broad.mit.edu	37	chr5	140553101	140553101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcagggaccgccctcgtgCgcattctggttctagacgta	7	10	12	12	4	3	1	1	0	2	1	4	3	3	2	2	2	1	3	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140553101C>T	uc003lit.2	+	1	859	c.685C>T	c.(685-687)CGC>TGC	p.R229C		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	229	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCCCTCGTGCGCATTCTGGT	0.542													32	70					0	0	1	0	0		T	140553101	T	T	140553101	3	4	89	1	0	0	0	0	1	0	0	0	11566	768	27	1	687	1	PCDHB7	5	140553101	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	449	140553101	40362159	2482	56313											
PCDHB7	56129	broad.mit.edu	37	chr5	140553637	140553637	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatactctggtaacagagaaAcctttggatcgagagaggaa	15	9	11	6	1	1	2	0	0	1	2	2	7	1	4	1	3	3	1	1	3	5	4	rs142786900	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140553637A>C	uc003lit.2	+	1	1395	c.1221A>C	c.(1219-1221)AAA>AAC	p.K407N		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	407	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TAACAGAGAAACCTTTGGATC	0.502													40	61					0	0	1	0	0		C	140553637	C	C	140553637	3	2	89	1	0	0	0	0	1	0	0	0	11566	40	2	5	1223	5	PCDHB7	5	140553637	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	536	140553637	40361623	2483	56314											
PCDHB8	56128	broad.mit.edu	37	chr5	140558153	140558153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagccccaactcctattttCgggtcctcacccgcaaacgc	8	9	6	18	3	2	0	2	0	0	0	5	0	4	0	5	1	3	1	5	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140558153C>T	uc011dai.1	+	1	724	c.538C>T	c.(538-540)CGG>TGG	p.R180W	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	180	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTCCTATTTTCGGGTCCTCAC	0.493													35	108					0	0	1	0	0		T	140558153	T	T	140558153	3	4	89	1	0	0	0	0	1	0	0	0	11567	875	31	1	540	1	PCDHB8	5	140558153	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4516	140558153	40357107	2484	56315											
PCDHB8	56128	broad.mit.edu	37	chr5	140559338	140559338	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggctccgcgccctgcaccGagctggtgccccgggcggcc	3	5	15	18	5	0	0	0	0	0	0	1	1	1	0	6	4	3	3	6	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140559338G>A	uc011dai.1	+	1	1909	c.1723G>A	c.(1723-1725)GAG>AAG	p.E575K	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	575	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCCTGCACCGAGCTGGTGCC	0.697													21	85					0	0	1	0	0		A	140559338	A	A	140559338	3	1	89	1	0	0	0	0	1	0	0	0	11567	1059	37	1	1725	1	PCDHB8	5	140559338	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1185	140559338	40355922	2485	56316											
PCDHB8	56128	broad.mit.edu	37	chr5	140559922	140559922	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgagttccagttcctgaaAccagtattacctaatattca	14	13	5	9	0	1	2	1	2	0	0	3	2	3	2	4	0	2	3	4	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140559922A>G	uc011dai.1	+	1	2493	c.2307A>G	c.(2305-2307)AAA>AAG	p.K769K	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	769	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGTTCCTGAAACCAGTATTAC	0.478													34	92					0	0	1	0	0		G	140559922	G	G	140559922	2	3	89	1	0	0	0	0	0	0	0	1	11567	40	2	3		3	PCDHB8	5	140559922	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	584	140559922	40355338	2486	56317											
PCDHB10	56126	broad.mit.edu	37	chr5	140573028	140573028	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcctttttctggggaaatCtttctcagagaattgcttga	10	16	8	7	0	3	2	1	1	3	1	5	4	4	3	1	2	1	1	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140573028C>A	uc003lix.2	+	1	1077	c.903C>A	c.(901-903)ATC>ATA	p.I301I		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	301	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGGGGAAATCTTTCTCAGAG	0.368													39	72					1.96642e-18	2.29832e-18	1	1	0		A	140573028	A	A	140573028	2	1	89	1	0	0	0	0	0	0	0	1	11554	903	32	5		5	PCDHB10	5	140573028	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13106	140573028	40342232	2487	56318											
PCDHB11	56125	broad.mit.edu	37	chr5	140579519	140579519	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggggctgaaggtgagaGaactgtcctcacggggggct	8	7	17	9	1	1	3	1	2	0	1	2	4	2	3	2	6	1	2	2	6	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140579519G>T	uc003liy.2	+	1	172	c.172G>T	c.(172-174)GAA>TAA	p.E58*	PCDHB11_uc011daj.1_Intron	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	58	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAAGGTGAGAGAACTGTCCTC	0.512													37	66					2.42023e-17	2.79957e-17	1	1	0		T	140579519	T	T	140579519	4	4	89	1	0	0	0	0	0	1	0	0	11555	943	33	5	174	5	PCDHB11	5	140579519	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6491	140579519	40335741	2488	56319											
PCDHB11	56125	broad.mit.edu	37	chr5	140581471	140581471	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttctcggtgctcctgttCgtggcggtgcggctgtgcag	1	13	15	12	4	2	0	0	0	2	0	5	0	3	0	1	4	3	4	1	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140581471C>T	uc003liy.2	+	1	2124	c.2124C>T	c.(2122-2124)TTC>TTT	p.F708F	PCDHB11_uc011daj.1_Silent_p.F343F	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	708	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGCTCCTGTTCGTGGCGGTGC	0.682													67	183					0	0	1	0	0		T	140581471	T	T	140581471	2	4	89	1	0	0	0	0	0	0	0	1	11555	883	31	1		1	PCDHB11	5	140581471	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1952	140581471	40333789	2489	56320											
PCDHB13	56123	broad.mit.edu	37	chr5	140594772	140594772	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttaccagcccaatacctgaGaacgcgcctgaaactgtggt	11	9	9	12	2	0	2	0	2	0	1	0	3	0	2	4	1	5	0	4	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140594772G>A	uc003lja.1	+	1	1264	c.1077G>A	c.(1075-1077)GAG>GAA	p.E359E		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	359	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAATACCTGAGAACGCGCCTG	0.448													101	187					0	0	1	0	0		A	140594772	A	A	140594772	2	1	89	1	0	0	0	0	0	0	0	1	11557	933	33	4		4	PCDHB13	5	140594772	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13301	140594772	40320488	2490	56321											
PCDHB14	56122	broad.mit.edu	37	chr5	140605445	140605445	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggggaaatcgagaactttCgaaatagctttggacttaac	13	11	11	6	2	0	1	0	0	0	1	2	5	0	3	0	3	3	1	0	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140605445C>T	uc003ljb.2	+	1	2368	c.2368C>T	c.(2368-2370)CGA>TGA	p.R790*	PCDHB14_uc011dal.1_Nonsense_Mutation_p.R637*	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	790	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGAGAACTTTCGAAATAGCTT	0.343													34	67					0	0	1	0	0		T	140605445	T	T	140605445	4	4	89	1	0	0	0	0	0	1	0	0	11558	876	31	1	2370	1	PCDHB14	5	140605445	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10673	140605445	40309815	2491	56322											
PCDHB15	56121	broad.mit.edu	37	chr5	140625165	140625165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatggagcctgcaggggagCgctttcccgaacaaaggcaa	12	5	14	10	2	0	1	0	0	0	1	1	4	1	3	2	4	4	3	2	4	3	1	rs147410183		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140625165C>T	uc003lje.2	+	1	19	c.19C>T	c.(19-21)CGC>TGC	p.R7C		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	7					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGCAGGGGAGCGCTTTCCCGA	0.537													20	45					0	0	1	0	0		T	140625165	T	T	140625165	3	4	89	1	0	0	0	0	1	0	0	0	11559	768	27	1	21	1	PCDHB15	5	140625165	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19720	140625165	40290095	2492	56323											
PCDHB15	56121	broad.mit.edu	37	chr5	140625274	140625274	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaaacagagagaggttCttttgtagccaacctggcca	12	8	13	8	0	1	2	0	0	1	2	1	5	1	4	3	4	3	2	3	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140625274C>A	uc003lje.2	+	1	128	c.128C>A	c.(127-129)TCT>TAT	p.S43Y		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	43	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGAGAGGTTCTTTTGTAGCC	0.547													26	71					5.61819e-17	6.48411e-17	1	1	0		A	140625274	A	A	140625274	3	1	89	1	0	0	0	0	1	0	0	0	11559	913	32	5	130	5	PCDHB15	5	140625274	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	109	140625274	40289986	2493	56324											
PCDHB15	56121	broad.mit.edu	37	chr5	140625481	140625481	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttccaagtgttactgaaaaAacctttggaagtatttcgag	13	14	8	6	1	0	1	0	1	0	0	2	3	1	2	2	1	2	2	2	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140625481A>C	uc003lje.2	+	1	335	c.335A>C	c.(334-336)AAA>ACA	p.K112T		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	112	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTACTGAAAAAACCTTTGGAA	0.438													53	88					0	0	1	0	0		C	140625481	C	C	140625481	3	2	89	1	0	0	0	0	1	0	0	0	11559	14	1	5	337	5	PCDHB15	5	140625481	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	207	140625481	40289779	2494	56325											
PCDHB15	56121	broad.mit.edu	37	chr5	140627444	140627444	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtaatgatttcaagttCttgaagcctatattcccaaa	15	13	6	7	0	2	2	1	2	1	0	3	3	3	2	2	0	1	2	2	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140627444C>A	uc003lje.2	+	1	2298	c.2298C>A	c.(2296-2298)TTC>TTA	p.F766L		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	766	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATTTCAAGTTCTTGAAGCCTA	0.473													70	92					2.165e-29	2.63963e-29	1	1	0		A	140627444	A	A	140627444	3	1	89	1	0	0	0	0	1	0	0	0	11559	912	32	5	2300	5	PCDHB15	5	140627444	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1963	140627444	40287816	2495	56326											
SLC25A2	83884	broad.mit.edu	37	chr5	140682859	140682859	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaacgatcggctcagttCatagccaccaaagaaaaaga	20	5	7	9	2	2	2	2	0	0	2	3	3	2	2	2	1	2	2	2	1	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140682859C>A	uc003ljf.2	-	1	754	c.574G>T	c.(574-576)GAA>TAA	p.E192*		NM_031947	NP_114153	Q9BXI2	ORNT2_HUMAN	solute carrier family 25 member 2	192	Solcar 2.				mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity			ovary(1)	1		all_lung(500;0.000249)|Lung NSC(810;0.0011)|Ovarian(839;0.00556)|Breast(839;0.0173)|all_hematologic(541;0.152)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.00204)	L-Ornithine(DB00129)	CGGCTCAGTTCATAGCCACCA	0.463													40	84					1.07121e-22	1.27939e-22	1	1	0		A	140682859	A	A	140682859	4	1	89	1	0	0	0	0	0	1	0	0	14507	835	29	5	335	5	SLC25A2	5	140682859	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	55415	140682859	40232401	2496	56327											
PCDHGA1	56114	broad.mit.edu	37	chr5	140710513	140710513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcagcttgatcaccgcgCgcaggatagaccgggaggag	9	5	17	10	4	1	2	1	1	0	1	1	5	1	5	2	4	1	3	2	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140710513C>T	uc003lji.1	+	1	262	c.262C>T	c.(262-264)CGC>TGC	p.R88C	PCDHGA1_uc011dan.1_Missense_Mutation_p.R88C	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	88	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATCACCGCGCGCAGGATAGA	0.537													83	170					0	0	1	0	0		T	140710513	T	T	140710513	3	4	89	1	0	0	0	0	1	0	0	0	11569	768	27	1	264	1	PCDHGA1	5	140710513	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27654	140710513	40204747	2497	56328											
PCDHGA1	56114	broad.mit.edu	37	chr5	140711198	140711198	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagaatacaaaatgtattCaatggaagttcaagcccagg	17	8	9	7	1	2	1	2	0	0	1	2	3	2	2	1	2	2	2	1	2	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140711198C>A	uc003lji.1	+	1	947	c.947C>A	c.(946-948)TCA>TAA	p.S316*	PCDHGA1_uc011dan.1_Nonsense_Mutation_p.S316*	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	316	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAATGTATTCAATGGAAGTT	0.388													36	66					1.36161e-19	1.60149e-19	1	1	0		A	140711198	A	A	140711198	4	1	89	1	0	0	0	0	0	1	0	0	11569	838	29	5	949	5	PCDHGA1	5	140711198	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	685	140711198	40204062	2498	56329											
PCDHGB1	56104	broad.mit.edu	37	chr5	140730274	140730274	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttacccggggtaaaattCtctctggattctgctcaaga	9	12	9	11	1	4	1	1	0	3	1	5	2	4	2	2	3	2	2	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140730274C>A	uc003ljo.1	+	1	447	c.447C>A	c.(445-447)TTC>TTA	p.F149L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Missense_Mutation_p.F149L	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	149	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGTAAAATTCTCTCTGGATT	0.413													71	136					1.08321e-29	1.32225e-29	1	1	0		A	140730274	A	A	140730274	3	1	89	1	0	0	0	0	1	0	0	0	11581	912	32	5	449	5	PCDHGB1	5	140730274	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19076	140730274	40184986	2499	56330											
PCDHGB1	56104	broad.mit.edu	37	chr5	140730670	140730670	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acctatgccttcctcaattcCccaataagtaccagcctctt	10	12	3	16	0	2	0	1	0	1	0	4	0	4	0	7	0	3	1	7	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140730670C>A	uc003ljo.1	+	1	843	c.843C>A	c.(841-843)TCC>TCA	p.S281S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Silent_p.S281S	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	281	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCTCAATTCCCCAATAAGTA	0.478													33	106					4.65686e-17	5.37613e-17	1	1	0		A	140730670	A	A	140730670	2	1	89	1	0	0	0	0	0	0	0	1	11581	610	22	5		5	PCDHGB1	5	140730670	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	396	140730670	40184590	2500	56331											
PCDHGB1	56104	broad.mit.edu	37	chr5	140731944	140731944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcctcgcggtgattctagCgatcgccctgcgcctgcgac	4	10	11	16	6	2	1	0	1	2	0	5	3	2	1	3	1	3	0	3	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140731944C>T	uc003ljo.1	+	1	2117	c.2117C>T	c.(2116-2118)GCG>GTG	p.A706V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGA4_uc003ljq.1_5'Flank|PCDHGB1_uc011daq.1_Missense_Mutation_p.A706V|PCDHGA4_uc003ljp.1_5'Flank	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	706	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGATTCTAGCGATCGCCCTG	0.617													83	148					0	0	1	0	0		T	140731944	T	T	140731944	3	4	89	1	0	0	0	0	1	0	0	0	11581	768	27	1	2119	1	PCDHGB1	5	140731944	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1274	140731944	40183316	2501	56332											
PCDHGA4	56111	broad.mit.edu	37	chr5	140734861	140734861	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcagggccgaacagattCtctactcggtgtttgaggag	11	10	12	8	2	2	2	1	1	1	1	4	4	2	3	1	3	2	1	1	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140734861C>A	uc003ljq.1	+	1	94	c.94C>A	c.(94-96)CTC>ATC	p.L32I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.L32I	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	32	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAACAGATTCTCTACTCGGT	0.642													30	69					1.2476e-16	1.43726e-16	1	1	0		A	140734861	A	A	140734861	3	1	89	1	0	0	0	0	1	0	0	0	11575	913	32	5	96	5	PCDHGA4	5	140734861	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2917	140734861	40180399	2502	56333											
PCDHGB2	56103	broad.mit.edu	37	chr5	140740020	140740020	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctctgtgtgttctggatttCgatactgtcgctgaaaatcc	7	15	9	10	2	2	1	0	1	2	0	5	3	3	2	2	1	1	2	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140740020C>T	uc003ljs.1	+	1	318	c.318C>T	c.(316-318)TTC>TTT	p.F106F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Silent_p.F106F	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	106	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCTGGATTTCGATACTGTCG	0.383													47	106					0	0	1	0	0		T	140740020	T	T	140740020	2	4	89	1	0	0	0	0	0	0	0	1	11582	883	31	1		1	PCDHGB2	5	140740020	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5159	140740020	40175240	2503	56334											
PCDHGB3	56102	broad.mit.edu	37	chr5	140750426	140750426	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagccacatttgccctggaAtctgcgcaagatcctgatgt	9	10	11	11	1	1	2	0	1	1	1	2	4	2	4	3	2	3	1	3	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140750426A>G	uc003ljw.1	+	1	465	c.465A>G	c.(463-465)GAA>GAG	p.E155E	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc011dat.1_Silent_p.E155E	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	155	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGCCCTGGAATCTGCGCAAG	0.498													79	174					0	0	1	0	0		G	140750426	G	G	140750426	2	3	89	1	0	0	0	0	0	0	0	1	11583	98	4	3		3	PCDHGB3	5	140750426	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	10406	140750426	40164834	2504	56335											
PCDHGB3	56102	broad.mit.edu	37	chr5	140751953	140751953	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcatgctgcacctaatcttCgcagatagcttgcaagagat	11	11	9	10	1	2	2	1	0	1	2	3	3	2	2	1	0	4	5	1	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140751953C>T	uc003ljw.1	+	1	1992	c.1992C>T	c.(1990-1992)TTC>TTT	p.F664F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Silent_p.F664F|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	664	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCTAATCTTCGCAGATAGCT	0.607													36	74					0	0	1	0	0		T	140751953	T	T	140751953	2	4	89	1	0	0	0	0	0	0	0	1	11583	883	31	1		1	PCDHGB3	5	140751953	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1527	140751953	40163307	2505	56336											
PCDHGB3	56102	broad.mit.edu	37	chr5	140752194	140752194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagttctccccacctacagcGaaaggactttgccttattcc	9	11	7	14	1	1	0	0	0	1	0	3	3	2	1	5	1	3	1	5	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140752194G>A	uc003ljw.1	+	1	2233	c.2233G>A	c.(2233-2235)GAA>AAA	p.E745K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.E745K|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	745	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACCTACAGCGAAAGGACTTT	0.512													37	54					0	0	1	0	0		A	140752194	A	A	140752194	3	1	89	1	0	0	0	0	1	0	0	0	11583	1059	37	1	2235	1	PCDHGB3	5	140752194	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	241	140752194	40163066	2506	56337											
PCDHGA7	56108	broad.mit.edu	37	chr5	140764273	140764273	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagattcaggccagaacgccTggctgtcatacctcctgctt	9	10	9	13	1	2	2	2	0	0	2	3	2	3	2	4	2	3	2	4	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140764273T>G	uc003lka.1	+	1	1807	c.1807T>G	c.(1807-1809)TGG>GGG	p.W603G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.W603G	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	603	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGAACGCCTGGCTGTCATA	0.637													32	106					0	0	1	0	0		G	140764273	G	G	140764273	3	3	89	1	0	0	0	0	1	0	0	0	11578	1580	55	5	1809	5	PCDHGA7	5	140764273	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	12079	140764273	40150987	2507	56338											
PCDHGA7	56108	broad.mit.edu	37	chr5	140764319	140764319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcgagccaggactctttgCggttgggctgtacacgggcg	6	8	16	11	4	1	0	0	0	1	0	1	2	1	1	1	4	4	3	1	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140764319C>T	uc003lka.1	+	1	1853	c.1853C>T	c.(1852-1854)GCG>GTG	p.A618V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.A618V	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	618	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACTCTTTGCGGTTGGGCTG	0.642													18	78					0	0	1	0	0		T	140764319	T	T	140764319	3	4	89	1	0	0	0	0	1	0	0	0	11578	768	27	1	1855	1	PCDHGA7	5	140764319	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	46	140764319	40150941	2508	56339											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769585	140769585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgattctggccattgccttgCgcctgcgacgctcctccagc	4	11	10	16	3	1	1	0	1	1	0	3	2	3	1	5	1	4	1	5	1	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140769585C>T	uc003lkc.1	+	1	2134	c.2134C>T	c.(2134-2136)CGC>TGC	p.R712C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.R712C	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	712	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CATTGCCTTGCGCCTGCGACG	0.607													86	172					0	0	1	0	0		T	140769585	T	T	140769585	3	4	89	1	0	0	0	0	1	0	0	0	11584	768	27	1	2136	1	PCDHGB4	5	140769585	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5266	140769585	40145675	2509	56340											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769650	140769650	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtctctgtgttaaatcCgaatccgtggttccccccaa	7	12	8	14	2	1	0	0	0	1	0	5	1	4	0	6	2	0	2	6	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140769650C>T	uc003lkc.1	+	1	2199	c.2199C>T	c.(2197-2199)TCC>TCT	p.S733S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Silent_p.S733S	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	733	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGTTAAATCCGAATCCGTGG	0.527													104	196					0	0	1	0	0		T	140769650	T	T	140769650	2	4	89	1	0	0	0	0	0	0	0	1	11584	639	23	1		1	PCDHGB4	5	140769650	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	65	140769650	40145610	2510	56341											
PCDHGA8	9708	broad.mit.edu	37	chr5	140772850	140772850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgttatccactcccagaagCtgttgacccggatgtgggcg	8	9	12	12	3	0	2	0	1	0	1	2	3	2	3	3	2	1	3	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140772850C>T	uc003lkd.1	+	1	1368	c.470C>T	c.(469-471)GCT>GTT	p.A157V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.A157V	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	157	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCCCAGAAGCTGTTGACCCG	0.488													32	80					0	0	1	0	0		T	140772850	T	T	140772850	3	4	89	1	0	0	0	0	1	0	0	0	11579	797	28	2	472	2	PCDHGA8	5	140772850	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3200	140772850	40142410	2511	56342											
PCDHGA8	9708	broad.mit.edu	37	chr5	140773459	140773459	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcccagtgttagaaaattCtcttcccgggacagtaattg	11	12	9	9	1	1	1	0	0	1	1	3	2	2	2	2	1	1	2	2	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140773459C>A	uc003lkd.1	+	1	1977	c.1079C>A	c.(1078-1080)TCT>TAT	p.S360Y	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.S360Y	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	360	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTAGAAAATTCTCTTCCCGGG	0.408													36	62					2.47316e-13	2.76362e-13	1	1	0		A	140773459	A	A	140773459	3	1	89	1	0	0	0	0	1	0	0	0	11579	913	32	5	1081	5	PCDHGA8	5	140773459	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	609	140773459	40141801	2512	56343											
PCDHGB5	56101	broad.mit.edu	37	chr5	140779267	140779267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgagcagctgcgcaccttcGaactcacactacaggcccgc	10	5	9	17	4	1	0	1	0	0	0	2	2	1	0	2	1	5	3	2	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140779267G>A	uc003lkf.1	+	1	1573	c.1573G>A	c.(1573-1575)GAA>AAA	p.E525K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.E525K	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	525	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGCACCTTCGAACTCACACT	0.652													13	30					0	0	1	0	0		A	140779267	A	A	140779267	3	1	89	1	0	0	0	0	1	0	0	0	11585	1059	37	1	1575	1	PCDHGB5	5	140779267	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5808	140779267	40135993	2513	56344											
PCDHGB5	56101	broad.mit.edu	37	chr5	140779568	140779568	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaggagaggtgcgcacagCgcgtgccttgggcgacaggg	8	4	18	11	4	0	1	0	0	0	1	0	3	0	1	1	4	3	1	1	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140779568C>T	uc003lkf.1	+	1	1874	c.1874C>T	c.(1873-1875)GCG>GTG	p.A625V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.A625V|PCDHGA9_uc011dax.1_5'Flank|PCDHGA9_uc003lkh.1_5'Flank	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	625	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCGCACAGCGCGTGCCTTG	0.697													21	48					0	0	1	0	0		T	140779568	T	T	140779568	3	4	89	1	0	0	0	0	1	0	0	0	11585	768	27	1	1876	1	PCDHGB5	5	140779568	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	301	140779568	40135692	2514	56345											
PCDHGB6	56100	broad.mit.edu	37	chr5	140788389	140788389	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccgggaagaacagagatCtcatagcttgatattgactg	14	9	11	7	1	1	5	1	2	1	3	2	7	1	6	1	1	2	1	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140788389C>A	uc003lkj.1	+	1	620	c.620C>A	c.(619-621)TCT>TAT	p.S207Y	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.S207Y	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	207	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAACAGAGATCTCATAGCTTG	0.448													9	19					2.74318e-10	2.97486e-10	1	1	0		A	140788389	A	A	140788389	3	1	89	1	0	0	0	0	1	0	0	0	11586	913	32	5	622	5	PCDHGB6	5	140788389	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8821	140788389	40126871	2515	56346											
PCDHGB6	56100	broad.mit.edu	37	chr5	140788952	140788952	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagacattccattcaagattTattcttcttccaataactac	13	15	2	11	0	3	2	1	0	2	2	5	2	5	2	2	0	2	0	2	0	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140788952T>C	uc003lkj.1	+	1	1183	c.1183T>C	c.(1183-1185)TAT>CAT	p.Y395H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.Y395H	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	395	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTCAAGATTTATTCTTCTTC	0.453													23	50					0	0	1	0	0		C	140788952	C	C	140788952	3	2	89	1	0	0	0	0	1	0	0	0	11586	1754	61	3	1185	3	PCDHGB6	5	140788952	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	563	140788952	40126308	2516	56347											
PCDHGB6	56100	broad.mit.edu	37	chr5	140789915	140789915	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccattgccttgcgcctgCgacgctctctcagccctgct	3	11	10	17	3	2	0	1	0	1	0	3	1	2	0	4	1	5	2	4	1	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140789915C>T	uc003lkj.1	+	1	2146	c.2146C>T	c.(2146-2148)CGA>TGA	p.R716*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Nonsense_Mutation_p.R716*|PCDHGA10_uc011day.1_5'Flank|PCDHGA10_uc003lkl.1_5'Flank	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	716	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTGCGCCTGCGACGCTCTCT	0.577													50	100					0	0	1	0	0		T	140789915	T	T	140789915	4	4	89	1	0	0	0	0	0	1	0	0	11586	760	27	1	2148	1	PCDHGB6	5	140789915	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	963	140789915	40125345	2517	56348											
PCDHGA10	56106	broad.mit.edu	37	chr5	140793736	140793736	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagatggaggagcatatCttgcaactgcaaaagtgttg	14	9	12	6	0	1	2	0	0	1	2	1	4	1	4	0	2	4	4	0	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140793736C>A	uc003lkl.1	+	1	994	c.994C>A	c.(994-996)CTT>ATT	p.L332I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.L332I	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	332	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGAGCATATCTTGCAACTGC	0.353													4	16					0.00024832	0.000253393	1	1	0		A	140793736	A	A	140793736	3	1	89	1	0	0	0	0	1	0	0	0	11570	913	32	5	996	5	PCDHGA10	5	140793736	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3821	140793736	40121524	2518	56349											
PCDHGA10	56106	broad.mit.edu	37	chr5	140794687	140794687	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaagcaaagcctcgtagtgGccgtccaggaccacggccag	10	5	12	14	3	1	0	1	0	0	0	3	1	2	1	5	3	2	2	5	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140794687G>T	uc003lkl.1	+	1	1945	c.1945G>T	c.(1945-1947)GCC>TCC	p.A649S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.A649S|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	649	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTCGTAGTGGCCGTCCAGGA	0.706													50	98					5.82388e-19	6.82633e-19	1	1	0		T	140794687	T	T	140794687	3	4	89	1	0	0	0	0	1	0	0	0	11570	1203	42	5	1947	5	PCDHGA10	5	140794687	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	951	140794687	40120573	2519	56350											
PCDHGA11	56105	broad.mit.edu	37	chr5	140801986	140801986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccttttaaattagaaaagActtatggaaattattacaaa	18	14	5	4	0	0	2	0	0	0	2	0	3	0	3	1	1	2	0	1	1	10	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140801986A>G	uc003lkq.1	+	1	1450	c.1192A>G	c.(1192-1194)ACT>GCT	p.T398A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.T398A|PCDHGA11_uc003lkp.1_Missense_Mutation_p.T398A	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	398	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTAGAAAAGACTTATGGAAA	0.403													22	43					0	0	1	0	0		G	140801986	G	G	140801986	3	3	89	1	0	0	0	0	1	0	0	0	11571	275	10	3	1194	3	PCDHGA11	5	140801986	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	7299	140801986	40113274	2520	56351											
PCDHGA11	56105	broad.mit.edu	37	chr5	140802023	140802023	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaattgataacaagcagagTgctggacagggagttggtcc	13	8	13	7	0	0	2	0	1	0	1	1	4	1	4	1	3	3	3	1	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140802023T>C	uc003lkq.1	+	1	1487	c.1229T>C	c.(1228-1230)GTG>GCG	p.V410A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.V410A|PCDHGA11_uc003lkp.1_Missense_Mutation_p.V410A	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	410	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAAGCAGAGTGCTGGACAGG	0.428													35	76					0	0	1	0	0		C	140802023	C	C	140802023	3	2	89	1	0	0	0	0	1	0	0	0	11571	1696	59	3	1231	3	PCDHGA11	5	140802023	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	37	140802023	40113237	2521	56352											
PCDHGA11	56105	broad.mit.edu	37	chr5	140802987	140802987	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcaggcttctgaaggCgggttggcaggtatgcccac	6	9	15	11	1	1	1	0	1	1	0	1	1	1	1	1	5	3	6	1	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140802987C>T	uc003lkq.1	+	1	2451	c.2193C>T	c.(2191-2193)GGC>GGT	p.G731G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Silent_p.G731G|PCDHGA11_uc003lkp.1_Intron|PCDHGB8P_uc011daz.1_5'Flank	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	731	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTCTGAAGGCGGGTTGGCAG	0.587													18	58					0	0	1	0	0		T	140802987	T	T	140802987	2	4	89	1	0	0	0	0	0	0	0	1	11571	755	27	1		1	PCDHGA11	5	140802987	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	964	140802987	40112273	2522	56353											
PCDHGA12	26025	broad.mit.edu	37	chr5	140811351	140811351	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgttctggacgtgaacgAcaatgccccagaagtggtcc	10	8	11	12	2	1	2	0	1	1	1	2	4	2	3	3	2	2	1	3	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140811351A>G	uc003lkt.1	+	1	1194	c.1025A>G	c.(1024-1026)GAC>GGC	p.D342G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.D342G	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	342	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGTGAACGACAATGCCCCA	0.493													42	71					0	0	1	0	0		G	140811351	G	G	140811351	3	3	89	1	0	0	0	0	1	0	0	0	11572	275	10	3	1027	3	PCDHGA12	5	140811351	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	8364	140811351	40103909	2523	56354											
PCDHGA12	26025	broad.mit.edu	37	chr5	140812460	140812460	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccttcgtcatcttgctgCtggcgctcaggctgcggcgc	2	11	14	14	4	3	0	2	0	1	0	4	0	3	0	1	4	3	4	1	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140812460C>T	uc003lkt.1	+	1	2303	c.2134C>T	c.(2134-2136)CTG>TTG	p.L712L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.L712L	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	712	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CATCTTGCTGCTGGCGCTCAG	0.647													67	113					0	0	1	0	0		T	140812460	T	T	140812460	2	4	89	1	0	0	0	0	0	0	0	1	11572	796	28	2		2	PCDHGA12	5	140812460	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1109	140812460	40102800	2524	56355											
PCDHGC4	56098	broad.mit.edu	37	chr5	140865298	140865298	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggatgtgaagaagcgcagCgacggcagcctggtcccaga	10	5	15	11	3	0	3	0	1	0	2	1	5	1	4	2	3	3	2	2	3	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140865298C>T	uc003lky.1	+	1	558	c.558C>T	c.(556-558)AGC>AGT	p.S186S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Silent_p.S186S	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	186	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAAGCGCAGCGACGGCAGCC	0.557													30	61					0	0	1	0	0		T	140865298	T	T	140865298	2	4	89	1	0	0	0	0	0	0	0	1	11589	767	27	1		1	PCDHGC4	5	140865298	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	52838	140865298	40049962	2525	56356											
PCDHGC4	56098	broad.mit.edu	37	chr5	140866394	140866394	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttagcagcactgtaacagttCgtctatttgtgctggacctc	8	14	9	10	1	1	0	0	0	1	0	3	1	1	1	1	1	4	5	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140866394C>T	uc003lky.1	+	1	1654	c.1654C>T	c.(1654-1656)CGT>TGT	p.R552C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Missense_Mutation_p.R552C|PCDHGC5_uc011dbc.1_5'Flank|PCDHGC5_uc003lla.1_5'Flank	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	552	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTAACAGTTCGTCTATTTGT	0.567													50	95					0	0	1	0	0		T	140866394	T	T	140866394	3	4	89	1	0	0	0	0	1	0	0	0	11589	884	31	1	1656	1	PCDHGC4	5	140866394	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1096	140866394	40048866	2526	56357											
DIAPH1	1729	broad.mit.edu	37	chr5	140951552	140951552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagttcattgttctcaaagCggtcctccttcacctttgtc	8	15	6	12	1	3	0	3	0	1	0	7	0	5	0	3	1	1	2	3	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:140951552C>T	uc003llb.3	-	17	2555	c.2414G>A	c.(2413-2415)CGC>CAC	p.R805H	DIAPH1_uc003llc.3_Missense_Mutation_p.R796H|DIAPH1_uc010jgc.1_Missense_Mutation_p.R244H	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	805	FH2.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTCTCAAAGCGGTCCTCCTT	0.498													38	72					0	0	1	0	0		T	140951552	T	T	140951552	3	4	89	1	0	0	0	0	1	0	0	0	4524	768	27	1	1452	1	DIAPH1	5	140951552	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	85158	140951552	39963708	2527	56358											
RELL2	285613	broad.mit.edu	37	chr5	141019684	141019684	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccccaggtcctagccaGccccccagtacagaatggag	11	4	10	16	0	0	1	0	0	0	1	1	2	1	2	7	2	4	1	7	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:141019684G>T	uc003lli.2	+	6	1549	c.701G>T	c.(700-702)AGC>ATC	p.S234I	RELL2_uc003llh.2_Missense_Mutation_p.S234I|RELL2_uc003llg.2_Missense_Mutation_p.S168I|RELL2_uc010jgf.2_Missense_Mutation_p.S168I|FCHSD1_uc010jgg.2_3'UTR|FCHSD1_uc003llj.2_RNA|FCHSD1_uc003llk.2_3'UTR	NM_001130029	NP_001123501	Q8NC24	RELL2_HUMAN	RELT-like 2	234						integral to membrane|plasma membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTCCTAGCCAGCCCCCCAGTA	0.662													21	44					1.96292e-10	2.12899e-10	1	1	0		T	141019684	T	T	141019684	3	4	89	1	0	0	0	0	1	0	0	0	13244	971	34	5	719	5	RELL2	5	141019684	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	68132	141019684	39895576	2528	56359											
PCDH1	5097	broad.mit.edu	37	chr5	141244951	141244951	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctggtggaatgtgtattcGatttctgcattggcaccttg	6	15	12	8	1	1	0	0	0	1	0	2	2	1	1	2	3	1	3	2	3	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:141244951G>A	uc003llq.2	-	3	1062	c.945C>T	c.(943-945)ATC>ATT	p.I315I	PCDH1_uc003llp.2_Silent_p.I315I|PCDH1_uc011dbf.1_Silent_p.I293I	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	315	Extracellular (Potential).|Cadherin 3.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		ATGTGTATTCGATTTCTGCAT	0.483													44	90					0	0	1	0	0		A	141244951	A	A	141244951	2	1	89	1	0	0	0	0	0	0	0	1	11525	1048	37	1		1	PCDH1	5	141244951	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	225267	141244951	39670309	2529	56360											
PCDH12	51294	broad.mit.edu	37	chr5	141335704	141335704	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaggctggcttttccatcGctgagcacaggctggaccac	8	8	13	12	1	0	2	0	1	0	1	2	4	1	3	2	4	1	5	2	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:141335704G>A	uc003llx.2	-	1	2924	c.1713C>T	c.(1711-1713)AGC>AGT	p.S571S		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	571	Extracellular (Potential).				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTTTCCATCGCTGAGCACAG	0.602													30	48					0	0	1	0	0		A	141335704	A	A	141335704	2	1	89	1	0	0	0	0	0	0	0	1	11529	1078	38	1		1	PCDH12	5	141335704	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	90753	141335704	39579556	2530	56361											
PCDH12	51294	broad.mit.edu	37	chr5	141336702	141336702	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaacgcagggctattgtCattggagtccaagacgttga	12	9	12	8	2	1	2	1	1	0	1	2	3	2	3	1	2	2	4	1	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:141336702C>A	uc003llx.2	-	1	1926	c.715G>T	c.(715-717)GAC>TAC	p.D239Y		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	239	Extracellular (Potential).|Cadherin 2.				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCTATTGTCATTGGAGTCC	0.488													26	67					2.48779e-11	2.72679e-11	1	1	0		A	141336702	A	A	141336702	3	1	89	1	0	0	0	0	1	0	0	0	11529	826	29	5	2855	5	PCDH12	5	141336702	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	998	141336702	39578558	2531	56362											
PCDH12	51294	broad.mit.edu	37	chr5	141337067	141337067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctccacatggatcagaGccaaatcccctgtggcaagc	11	7	10	13	0	2	1	1	0	1	1	4	3	3	3	4	3	2	1	4	3	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:141337067G>A	uc003llx.2	-	1	1561	c.350C>T	c.(349-351)GCT>GTT	p.A117V		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	117	Cadherin 1.|Extracellular (Potential).				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGGATCAGAGCCAAATCCCC	0.582													44	74					0	0	1	0	0		A	141337067	A	A	141337067	3	1	89	1	0	0	0	0	1	0	0	0	11529	971	34	2	3220	2	PCDH12	5	141337067	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	365	141337067	39578193	2532	56363											
NR3C1	2908	broad.mit.edu	37	chr5	142780030	142780030	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacctattgaggtttgcaatGctttcttccaaaagctttaa	11	15	7	8	0	1	1	0	1	1	0	2	2	2	1	2	1	3	4	2	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:142780030G>A	uc003lmz.2	-	2	867	c.375C>T	c.(373-375)AGC>AGT	p.S125S	NR3C1_uc003lmy.2_Silent_p.S125S|NR3C1_uc003lna.2_Silent_p.S125S|NR3C1_uc003lnb.2_Silent_p.S125S|NR3C1_uc011dbk.1_Intron|NR3C1_uc003lnc.2_Silent_p.S125S|NR3C1_uc003lnd.2_Silent_p.S125S|NR3C1_uc003lne.2_Silent_p.S125S|NR3C1_uc003lnf.2_Silent_p.S125S|NR3C1_uc003lng.2_Silent_p.S125S|NR3C1_uc003lnh.2_Silent_p.S125S|NR3C1_uc003lni.2_Silent_p.S125S	NM_000176	NP_000167	P04150	GCR_HUMAN	glucocorticoid receptor isoform alpha	125	Modulating.				chromatin modification|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus|transcription from RNA polymerase II promoter	mitochondrial matrix|nucleoplasm	glucocorticoid receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(2;3.2e-05)|all_hematologic(2;0.000361)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)		Amcinonide(DB00288)|Betamethasone(DB00443)|Budesonide(DB01222)|Dexamethasone(DB01234)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluticasone Propionate(DB00588)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol Etabonate(DB00873)|Methylprednisolone(DB00959)|Mifepristone(DB00834)|Mometasone(DB00764)|Prednisone(DB00635)	GGTTTGCAATGCTTTCTTCCA	0.488													54	114					0	0	1	0	0		A	142780030	A	A	142780030	2	1	89	1	0	0	0	0	0	0	0	1	10649	1310	46	2		2	NR3C1	5	142780030	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1442963	142780030	38135230	2533	56364											
KCTD16	57528	broad.mit.edu	37	chr5	143586725	143586725	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaaggaagcgacacaagaAtctgccccccttcctccctg	10	6	7	18	1	1	1	0	0	1	1	3	3	3	2	6	1	2	0	6	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:143586725A>C	uc003lnm.1	+	3	1077	c.448A>C	c.(448-450)ATC>CTC	p.I150L	KCTD16_uc003lnn.1_Missense_Mutation_p.I150L	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	150						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			CGACACAAGAATCTGCCCCCC	0.547													29	70					0	0	1	0	0		C	143586725	C	C	143586725	3	2	89	1	0	0	0	0	1	0	0	0	8119	101	4	5	450	5	KCTD16	5	143586725	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	806695	143586725	37328535	2534	56365											
TCERG1	10915	broad.mit.edu	37	chr5	145886637	145886637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatactcgtaggaccctccGaaaagatcaccgctgggaat	12	8	10	11	3	1	2	1	1	0	1	3	5	2	4	3	2	1	2	3	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:145886637G>A	uc003lob.2	+	19	2817	c.2777G>A	c.(2776-2778)CGA>CAA	p.R926Q	TCERG1_uc003loc.2_Missense_Mutation_p.R905Q	NM_006706	NP_006697	O14776	TCRG1_HUMAN	transcription elongation regulator 1 isoform 1	926	FF 4.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			ovary(1)|skin(1)	2		Lung NSC(249;0.00188)|all_lung(500;0.00307)|all_neural(839;0.0424)|Breast(839;0.0743)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGGACCCTCCGAAAAGATCAC	0.328													59	112					0	0	1	0	0		A	145886637	A	A	145886637	3	1	89	1	0	0	0	0	1	0	0	0	15710	1058	37	1	2851	1	TCERG1	5	145886637	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2299912	145886637	35028623	2535	56366											
PPP2R2B	5521	broad.mit.edu	37	chr5	146070775	146070775	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctggcctcttatcacgctcGctgactttccacagcttcac	6	13	6	16	2	4	1	2	1	2	0	6	1	5	1	2	1	1	3	2	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:146070775G>A	uc003loe.2	-	4	888	c.363C>T	c.(361-363)AGC>AGT	p.S121S	PPP2R2B_uc010jgm.2_Silent_p.S110S|PPP2R2B_uc003log.3_Silent_p.S121S|PPP2R2B_uc003lof.3_Silent_p.S121S|PPP2R2B_uc003loi.3_Silent_p.S124S|PPP2R2B_uc003loh.3_Silent_p.S121S|PPP2R2B_uc003loj.3_Silent_p.S101S|PPP2R2B_uc003lok.3_Silent_p.S110S|PPP2R2B_uc011dbu.1_Silent_p.S127S|PPP2R2B_uc011dbv.1_Silent_p.S179S	NM_004576	NP_004567	Q00005	2ABB_HUMAN	beta isoform of regulatory subunit B55, protein	121	WD 2.				apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TATCACGCTCGCTGACTTTCC	0.507													35	50					0	0	1	0	0		A	146070775	A	A	146070775	2	1	89	1	0	0	0	0	0	0	0	1	12407	1078	38	1		1	PPP2R2B	5	146070775	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	184138	146070775	34844485	2536	56367											
DPYSL3	1809	broad.mit.edu	37	chr5	146778797	146778797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacagccacgaactggttttCgtccattttccctgtggcct	6	13	8	14	2	0	0	0	0	0	0	3	1	2	0	4	2	2	1	4	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:146778797C>T	uc003lon.1	-	11	1239	c.1129G>A	c.(1129-1131)GAA>AAA	p.E377K	DPYSL3_uc003loo.2_Missense_Mutation_p.E491K	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	377					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACTGGTTTTCGTCCATTTTC	0.423													58	108					0	0	1	0	0		T	146778797	T	T	146778797	3	4	89	1	0	0	0	0	1	0	0	0	4754	893	31	1	599	1	DPYSL3	5	146778797	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	708022	146778797	34136463	2537	56368											
JAKMIP2	9832	broad.mit.edu	37	chr5	147020340	147020340	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggatgatgtctctgaaTccatagagtcctcatcatag	11	12	8	10	0	3	3	2	2	1	1	6	4	5	4	3	1	0	0	3	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:147020340T>G	uc003loq.1	-	9	1710	c.1328A>C	c.(1327-1329)GAT>GCT	p.D443A	JAKMIP2_uc011dbx.1_Missense_Mutation_p.D401A|JAKMIP2_uc003lor.1_Missense_Mutation_p.D443A|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.D443A	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	443						Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCTCTGAATCCATAGAGTC	0.428													41	47					0	0	1	0	0		G	147020340	G	G	147020340	3	3	89	1	0	0	0	0	1	0	0	0	7957	1435	50	5	1156	5	JAKMIP2	5	147020340	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	241543	147020340	33894920	2538	56369											
FBXO38	81545	broad.mit.edu	37	chr5	147803583	147803583	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaaatgagatggaagacatCgtccaagaagatggagaggt	16	8	13	4	1	0	5	0	1	0	5	2	8	1	6	1	3	0	0	1	3	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:147803583C>T	uc003lpf.1	+	13	1761	c.1641C>T	c.(1639-1641)ATC>ATT	p.I547I	FBXO38_uc003lpg.1_Silent_p.I547I|FBXO38_uc003lph.2_Silent_p.I547I	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	547						cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGAAGACATCGTCCAAGAAG	0.433													23	59					0	0	1	0	0		T	147803583	T	T	147803583	2	4	89	1	0	0	0	0	0	0	0	1	5760	874	31	1		1	FBXO38	5	147803583	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	783243	147803583	33111677	2539	56370											
HTR4	3360	broad.mit.edu	37	chr5	147902810	147902810	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attatagggagaaaagaaatAaacgtggggatgacccagca	18	6	12	5	1	0	3	0	1	0	2	0	5	0	4	1	3	2	1	1	3	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:147902810A>G	uc003lpn.2	-	5	617	c.453T>C	c.(451-453)TTT>TTC	p.F151F	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Silent_p.F151F|HTR4_uc003lpj.1_Silent_p.F151F|HTR4_uc003lpk.2_Silent_p.F151F|HTR4_uc011dby.1_Silent_p.F151F|HTR4_uc003lpl.2_Silent_p.F151F|HTR4_uc003lpm.2_Silent_p.F151F|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Silent_p.F151F	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	151	Helical; Name=4; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	GAAAAGAAATAAACGTGGGGA	0.463													23	51					0	0	1	0	0		G	147902810	G	G	147902810	2	3	89	1	0	0	0	0	0	0	0	1	7465	359	13	3		3	HTR4	5	147902810	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	99227	147902810	33012450	2540	56371											
SH3TC2	79628	broad.mit.edu	37	chr5	148406848	148406848	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtggctcaagcacatccAaagccttcttggcctggctg	8	9	11	13	0	2	0	1	0	1	0	3	0	3	0	3	3	2	4	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:148406848A>G	uc003lpu.2	-	11	2599	c.2447T>C	c.(2446-2448)TTG>TCG	p.L816S	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_Missense_Mutation_p.L460S|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_Missense_Mutation_p.L363S|SH3TC2_uc010jgx.2_Missense_Mutation_p.L809S|SH3TC2_uc003lpv.1_Missense_Mutation_p.L363S|SH3TC2_uc011dbz.1_Missense_Mutation_p.L701S	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	816							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGCACATCCAAAGCCTTCTT	0.547													46	89					0	0	1	0	0		G	148406848	G	G	148406848	3	3	89	1	0	0	0	0	1	0	0	0	14287	131	5	3	1447	3	SH3TC2	5	148406848	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	504038	148406848	32508412	2541	56372											
AFAP1L1	134265	broad.mit.edu	37	chr5	148679892	148679892	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccactcggggcccagcttCgtggaatccctctttgaaga	7	10	10	14	2	1	2	0	1	1	1	5	3	3	3	3	3	1	1	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:148679892C>T	uc003lqh.2	+	3	335	c.204C>T	c.(202-204)TTC>TTT	p.F68F	AFAP1L1_uc003lqg.3_Silent_p.F68F|AFAP1L1_uc010jgy.2_Silent_p.F68F	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	68							protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCCCAGCTTCGTGGAATCCC	0.562													15	26					0	0	1	0	0		T	148679892	T	T	148679892	2	4	89	1	0	0	0	0	0	0	0	1	354	883	31	1		1	AFAP1L1	5	148679892	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	273044	148679892	32235368	2542	56373											
AFAP1L1	134265	broad.mit.edu	37	chr5	148687128	148687128	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgctgcggaaaaagcgtttCgggcagtgggccaagcagct	9	7	15	10	3	0	0	0	0	0	0	1	1	0	1	1	3	5	5	1	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:148687128C>T	uc003lqh.2	+	7	830	c.699C>T	c.(697-699)TTC>TTT	p.F233F	AFAP1L1_uc003lqg.3_Silent_p.F233F|AFAP1L1_uc010jgy.2_Silent_p.F233F	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	233	PH 1.						protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAAGCGTTTCGGGCAGTGGG	0.622													15	39					0	0	1	0	0		T	148687128	T	T	148687128	2	4	89	1	0	0	0	0	0	0	0	1	354	883	31	1		1	AFAP1L1	5	148687128	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7236	148687128	32228132	2543	56374											
AFAP1L1	134265	broad.mit.edu	37	chr5	148699965	148699965	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	attttctagatatgcaagatCctgccagaatcagtggcctg	11	12	9	9	0	2	3	1	0	1	3	3	3	3	3	3	1	2	1	3	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:148699965C>T	uc003lqh.2	+	14	1768	c.1637C>T	c.(1636-1638)TCC>TTC	p.S546F	AFAP1L1_uc010jgy.2_Missense_Mutation_p.S546F|AFAP1L1_uc003lqi.1_Missense_Mutation_p.S161F	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	546							protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TATGCAAGATCCTGCCAGAAT	0.343													18	46					0	0	1	0	0		T	148699965	T	T	148699965	3	4	89	1	0	0	0	0	1	0	0	0	354	855	30	4	1691	4	AFAP1L1	5	148699965	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12837	148699965	32215295	2544	56375											
PCYOX1L	78991	broad.mit.edu	37	chr5	148746955	148746955	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagccggggcccaaggcagcCtgtggtctgtggaaggaggc	7	6	18	10	1	1	0	0	0	1	0	1	2	1	2	3	7	2	1	3	7	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:148746955C>T	uc003lqk.2	+	5	777	c.715C>T	c.(715-717)CTG>TTG	p.L239L	PCYOX1L_uc003lql.2_Silent_p.L222L|PCYOX1L_uc010jgz.2_Silent_p.L163L|PCYOX1L_uc003lqm.2_Silent_p.L121L|PCYOX1L_uc003lqn.2_Silent_p.L149L	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	239					prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAAGGCAGCCTGTGGTCTGT	0.602											OREG0016912	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	50					0	0	1	0	0		T	148746955	T	T	148746955	2	4	89	1	0	0	0	0	0	0	0	1	11628	680	24	4		4	PCYOX1L	5	148746955	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	46990	148746955	32168305	2545	56376											
PDE6A	5145	broad.mit.edu	37	chr5	149324052	149324052	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagtcccgcaggagatcaAagatgatttcgctctcctcc	11	9	9	12	2	2	3	1	1	1	2	6	5	4	3	3	1	0	2	3	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:149324052A>C	uc003lrg.3	-	1	305	c.185T>G	c.(184-186)TTT>TGT	p.F62C		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	62					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CAGGAGATCAAAGATGATTTC	0.547													31	44					0	0	1	0	0		C	149324052	C	C	149324052	3	2	89	1	0	0	0	0	1	0	0	0	11664	14	1	5	2485	5	PDE6A	5	149324052	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	577097	149324052	31591208	2546	56377											
CAMK2A	815	broad.mit.edu	37	chr5	149607839	149607839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaggctgtcatgccagggtCgcacatcttcctgggggaaa	9	8	14	10	1	2	0	1	0	1	0	4	2	3	1	2	4	1	2	2	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:149607839C>T	uc003lru.2	-	16	1335	c.1120G>A	c.(1120-1122)GAC>AAC	p.D374N	CAMK2A_uc003lrs.2_Missense_Mutation_p.D85N|CAMK2A_uc003lrt.2_Missense_Mutation_p.D385N	NM_171825	NP_741960	Q9UQM7	KCC2A_HUMAN	calcium/calmodulin-dependent protein kinase II	374					interferon-gamma-mediated signaling pathway|positive regulation of NF-kappaB transcription factor activity|synaptic transmission	cell junction|cytosol|endocytic vesicle membrane|nucleoplasm|presynaptic membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)	1		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATGCCAGGGTCGCACATCTTC	0.502													12	20					0	0	1	0	0		T	149607839	T	T	149607839	3	4	89	1	0	0	0	0	1	0	0	0	2602	884	31	1	328	1	CAMK2A	5	149607839	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	283787	149607839	31307421	2547	56378											
DCTN4	51164	broad.mit.edu	37	chr5	150133162	150133162	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaagctgtgtggagatgctCgtggcccgagtagagagggt	8	8	19	6	2	0	2	0	0	0	2	1	6	0	3	1	4	2	3	1	4	2	1	rs144113005	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:150133162C>T	uc003lsv.2	-	3	366	c.264G>A	c.(262-264)ACG>ACA	p.T88T	DCTN4_uc003lsu.2_Silent_p.T31T|DCTN4_uc010jhi.2_Silent_p.T88T|DCTN4_uc010jhj.2_RNA|DCTN4_uc011dck.1_Silent_p.T31T	NM_016221	NP_057305	Q9UJW0	DCTN4_HUMAN	dynactin 4 (p62) isoform b	88						centrosome|nucleus	protein N-terminus binding			central_nervous_system(1)	1		Medulloblastoma(196;0.167)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGGAGATGCTCGTGGCCCGAG	0.478													17	38					0	0	1	0	0		T	150133162	T	T	150133162	2	4	89	1	0	0	0	0	0	0	0	1	4312	871	31	1		1	DCTN4	5	150133162	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	525323	150133162	30782098	2548	56379											
TNIP1	10318	broad.mit.edu	37	chr5	150418747	150418747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtacttgaccttttggcGcagctccttggcctctgctg	4	13	11	13	1	1	1	0	1	1	0	2	1	2	1	3	3	3	4	3	3	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:150418747G>A	uc003ltf.2	-	12	1763	c.1174C>T	c.(1174-1176)CGC>TGC	p.R392C	TNIP1_uc010jhl.2_RNA|TNIP1_uc010jhm.2_Missense_Mutation_p.R392C|TNIP1_uc010jhn.2_Missense_Mutation_p.R392C|TNIP1_uc011dco.1_Missense_Mutation_p.R392C|TNIP1_uc003lth.2_RNA|TNIP1_uc003lti.2_Missense_Mutation_p.R392C|TNIP1_uc003ltg.2_Missense_Mutation_p.R339C|TNIP1_uc003ltj.2_Missense_Mutation_p.R392C|TNIP1_uc010jho.1_RNA|TNIP1_uc010jhq.1_Missense_Mutation_p.R339C|TNIP1_uc010jhp.1_Missense_Mutation_p.R339C|TNIP1_uc010jhr.1_Missense_Mutation_p.R392C|TNIP1_uc003ltk.2_Missense_Mutation_p.R392C	NM_006058	NP_006049	Q15025	TNIP1_HUMAN	TNFAIP3 interacting protein 1	392	Potential.|Interacts with Nef.				defense response|glycoprotein biosynthetic process|negative regulation of viral genome replication|translation	cytoplasm|nucleus	protein binding			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.0911)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACCTTTTGGCGCAGCTCCTTG	0.582													17	20					0	0	1	0	0		A	150418747	A	A	150418747	3	1	89	1	0	0	0	0	1	0	0	0	16339	1087	38	1	764	1	TNIP1	5	150418747	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	285585	150418747	30496513	2549	56380											
SLC36A2	153201	broad.mit.edu	37	chr5	150704958	150704958	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgatggacattcccaaaGacaggatggctgggaagtgg	12	7	15	7	1	0	2	0	1	0	1	1	6	1	5	1	5	0	1	1	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:150704958G>T	uc003lty.2	-	8	1029	c.899C>A	c.(898-900)TCT>TAT	p.S300Y	GM2A_uc011dcs.1_Intron|SLC36A2_uc003ltz.2_RNA|SLC36A2_uc003lua.2_Missense_Mutation_p.S102Y|SLC36A2_uc010jhv.2_Missense_Mutation_p.S300Y	NM_181776	NP_861441	Q495M3	S36A2_HUMAN	solute carrier family 36, member 2	300	Helical; (Potential).				cellular nitrogen compound metabolic process	cytoplasm|integral to membrane|plasma membrane	glycine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CATTCCCAAAGACAGGATGGC	0.443													10	35					7.03913e-09	7.52015e-09	1	1	0		T	150704958	T	T	150704958	3	4	89	1	0	0	0	0	1	0	0	0	14619	942	33	5	564	5	SLC36A2	5	150704958	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	286211	150704958	30210302	2550	56381											
SLC36A1	206358	broad.mit.edu	37	chr5	150838484	150838484	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaccagcgctttggtcaaaGcaatagcacaacgtgagtag	13	8	10	10	2	1	1	1	1	0	0	1	1	1	1	1	1	5	4	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:150838484G>T	uc003luc.2	+	2	348	c.131G>T	c.(130-132)AGC>ATC	p.S44I	GM2A_uc011dcs.1_Intron|SLC36A1_uc003lub.1_Missense_Mutation_p.S44I|SLC36A1_uc010jhw.1_Missense_Mutation_p.S44I	NM_078483	NP_510968	Q7Z2H8	S36A1_HUMAN	solute carrier family 36 member 1	44	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	endoplasmic reticulum|integral to membrane|lysosomal membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			skin(1)	1		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)|all_neural(839;0.138)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Glycine(DB00145)|L-Alanine(DB00160)	TTTGGTCAAAGCAATAGCACA	0.552													20	42					1.66031e-10	1.80435e-10	1	1	0		T	150838484	T	T	150838484	3	4	89	1	0	0	0	0	1	0	0	0	14618	971	34	5	133	5	SLC36A1	5	150838484	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	133526	150838484	30076776	2551	56382											
FAT2	2196	broad.mit.edu	37	chr5	150924751	150924751	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcctttctgtcctgcaagttCtccttcacagctgcccagta	6	13	7	15	0	3	0	1	0	2	0	5	0	4	0	4	0	3	4	4	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:150924751C>T	uc003lue.3	-	9	5950	c.5937G>A	c.(5935-5937)GAG>GAA	p.E1979E	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1979	Extracellular (Potential).|Cadherin 17.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCTGCAAGTTCTCCTTCACAG	0.453													26	47					0	0	1	0	0		T	150924751	T	T	150924751	2	4	89	1	0	0	0	0	0	0	0	1	5704	912	32	4		4	FAT2	5	150924751	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	86267	150924751	29990509	2552	56383											
FAT2	2196	broad.mit.edu	37	chr5	150930303	150930303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgaggcttttgcccttgtCttgatctatggcctggactc	5	15	11	10	0	2	2	0	2	2	0	3	4	2	3	2	3	1	1	2	3	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:150930303C>T	uc003lue.3	-	7	4439	c.4426G>A	c.(4426-4428)GAC>AAC	p.D1476N	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1476	Extracellular (Potential).|Cadherin 13.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTGCCCTTGTCTTGATCTATG	0.562													9	21					0	0	1	0	0		T	150930303	T	T	150930303	3	4	89	1	0	0	0	0	1	0	0	0	5704	913	32	4	8691	4	FAT2	5	150930303	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5552	150930303	29984957	2553	56384											
FAT2	2196	broad.mit.edu	37	chr5	150946848	150946848	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagctgaagaaaaatggAcacttccttctcccggcgaa	12	8	9	12	2	1	3	0	2	1	1	3	5	2	4	3	2	1	1	3	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:150946848A>G	uc003lue.3	-	1	1658	c.1645T>C	c.(1645-1647)TCC>CCC	p.S549P	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.S549P	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	549	Cadherin 4.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGAAAAATGGACACTTCCTTC	0.473													37	66					0	0	1	0	0		G	150946848	G	G	150946848	3	3	89	1	0	0	0	0	1	0	0	0	5704	275	10	3	11496	3	FAT2	5	150946848	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	16545	150946848	29968412	2554	56385											
FAT2	2196	broad.mit.edu	37	chr5	150948206	150948206	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctctttgtccttattCttaggaagcagaagttgccc	7	15	9	10	0	2	1	0	0	2	1	3	2	3	2	2	1	4	4	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:150948206C>A	uc003lue.3	-	1	300	c.287G>T	c.(286-288)AGA>ATA	p.R96I	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.R96I	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	96	Extracellular (Potential).|Cadherin 1.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGTCCTTATTCTTAGGAAGCA	0.507													96	187					9.06123e-46	1.12606e-45	1	1	0		A	150948206	A	A	150948206	3	1	89	1	0	0	0	0	1	0	0	0	5704	913	32	5	12854	5	FAT2	5	150948206	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1358	150948206	29967054	2555	56386											
GLRA1	2741	broad.mit.edu	37	chr5	151208496	151208496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctaccttgtgatgtctccGcttcctcctgaatcggagca	6	12	9	14	2	1	2	0	2	1	0	5	3	3	3	5	1	2	2	5	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:151208496G>A	uc003lut.2	-	8	1332	c.1045C>T	c.(1045-1047)CGG>TGG	p.R349W	GLRA1_uc003lur.2_Missense_Mutation_p.R349W|GLRA1_uc003lus.2_Missense_Mutation_p.R266W	NM_001146040	NP_001139512	P23415	GLRA1_HUMAN	glycine receptor, alpha 1 isoform 1 precursor	349	Cytoplasmic (Probable).				muscle contraction|negative regulation of transmission of nerve impulse|neuropeptide signaling pathway|positive regulation of acrosome reaction|regulation of membrane potential|startle response	cell junction|chloride channel complex|integral to plasma membrane|intracellular membrane-bounded organelle|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|protein binding|receptor activity|taurine binding|transmitter-gated ion channel activity			ovary(1)|central_nervous_system(1)	2		all_hematologic(541;0.0341)|Medulloblastoma(196;0.0912)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Ethanol(DB00898)|Glycine(DB00145)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TGATGTCTCCGCTTCCTCCTG	0.463													100	179					0	0	1	0	0		A	151208496	A	A	151208496	3	1	89	1	0	0	0	0	1	0	0	0	6469	1086	38	1	336	1	GLRA1	5	151208496	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	260290	151208496	29706764	2556	56387											
FAM114A2	10827	broad.mit.edu	37	chr5	153406049	153406049	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttttagagtctctaattCttctccactcagagaattaa	13	15	4	9	0	4	2	1	0	3	2	6	3	4	2	1	0	1	0	1	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:153406049C>A	uc003lvb.2	-	8	1411	c.823G>T	c.(823-825)GAA>TAA	p.E275*	FAM114A2_uc003lvc.2_Nonsense_Mutation_p.E275*|FAM114A2_uc003lvd.2_Nonsense_Mutation_p.E275*|FAM114A2_uc003lve.2_Nonsense_Mutation_p.E91*|FAM114A2_uc011dda.1_Nonsense_Mutation_p.E205*	NM_018691	NP_061161	Q9NRY5	F1142_HUMAN	hypothetical protein LOC10827	275	Potential.						purine nucleotide binding				0						GTCTCTAATTCTTCTCCACTC	0.318													10	22					0.000673444	0.000684558	1	1	0		A	153406049	A	A	153406049	4	1	89	1	0	0	0	0	0	1	0	0	5415	922	32	5	722	5	FAM114A2	5	153406049	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2197553	153406049	27509211	2557	56388											
LARP1	23367	broad.mit.edu	37	chr5	154181870	154181870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcgtgccaagatgagcgccGaactggccaaggtcattaat	11	7	12	11	4	1	2	1	1	0	1	1	3	1	2	3	2	3	0	3	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:154181870G>A	uc003lvp.2	+	11	2449	c.2020G>A	c.(2020-2022)GAA>AAA	p.E674K	LARP1_uc003lvo.2_Missense_Mutation_p.E597K|LARP1_uc010jie.1_Missense_Mutation_p.E469K	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	674							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			GATGAGCGCCGAACTGGCCAA	0.552													29	48					0	0	1	0	0		A	154181870	A	A	154181870	3	1	89	1	0	0	0	0	1	0	0	0	8644	1059	37	1	1831	1	LARP1	5	154181870	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	775821	154181870	26733390	2558	56389											
LARP1	23367	broad.mit.edu	37	chr5	154182861	154182861	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgcagcaagaagtcgaGaacttcaaaaaggtcaatat	16	8	8	9	1	3	2	2	0	1	2	4	3	3	2	1	1	3	2	1	1	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:154182861G>T	uc003lvp.2	+	12	2550	c.2121G>T	c.(2119-2121)GAG>GAT	p.E707D	LARP1_uc003lvo.2_Missense_Mutation_p.E630D|LARP1_uc010jie.1_Missense_Mutation_p.E502D	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	707							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			AAGAAGTCGAGAACTTCAAAA	0.517													30	54					5.60225e-13	6.24063e-13	1	1	0		T	154182861	T	T	154182861	3	4	89	1	0	0	0	0	1	0	0	0	8644	933	33	5	1936	5	LARP1	5	154182861	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	991	154182861	26732399	2559	56390											
LARP1	23367	broad.mit.edu	37	chr5	154183768	154183768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaacctttgcagatgcctcGaaaaagaaagacaagacaca	18	6	7	10	1	0	4	0	0	0	4	1	5	0	4	2	0	3	1	2	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:154183768G>A	uc003lvp.2	+	14	2876	c.2447G>A	c.(2446-2448)CGA>CAA	p.R816Q	LARP1_uc003lvo.2_Missense_Mutation_p.R739Q	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	816							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CAGATGCCTCGAAAAAGAAAG	0.507													12	110					0	0	1	0	0		A	154183768	A	A	154183768	3	1	89	1	0	0	0	0	1	0	0	0	8644	1058	37	1	2270	1	LARP1	5	154183768	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	907	154183768	26731492	2560	56391											
FAM71B	153745	broad.mit.edu	37	chr5	156589906	156589906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttctgattcttgtcccccGctctcctgcggtgactttca	3	16	7	15	2	4	2	1	2	3	0	6	2	5	2	3	1	1	1	3	1	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:156589906G>A	uc003lwn.2	-	2	1470	c.1370C>T	c.(1369-1371)GCG>GTG	p.A457V		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	457	Bipartite nuclear localization signal (Potential).					nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTTGTCCCCCGCTCTCCTGCG	0.488													62	108					0	0	1	0	0		A	156589906	A	A	156589906	3	1	89	1	0	0	0	0	1	0	0	0	5622	1087	38	1	451	1	FAM71B	5	156589906	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2406138	156589906	24325354	2561	56392											
CYFIP2	26999	broad.mit.edu	37	chr5	156734839	156734839	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaactggatgccaagaagaGaattaatcttagcaaaattg	18	9	8	6	0	1	2	0	0	1	2	1	4	1	3	1	1	3	1	1	1	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:156734839G>T	uc003lwq.2	+	11	1004	c.866G>T	c.(865-867)AGA>ATA	p.R289I	CYFIP2_uc011ddn.1_Missense_Mutation_p.R263I|CYFIP2_uc011ddo.1_Missense_Mutation_p.R93I|CYFIP2_uc003lwr.2_Missense_Mutation_p.R289I|CYFIP2_uc003lws.2_Missense_Mutation_p.R289I|CYFIP2_uc003lwt.2_Missense_Mutation_p.R167I|CYFIP2_uc011ddp.1_Missense_Mutation_p.R23I	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	289					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GCCAAGAAGAGAATTAATCTT	0.458													9	7					1.12685e-05	1.16379e-05	1	1	0		T	156734839	T	T	156734839	3	4	89	1	0	0	0	0	1	0	0	0	4141	942	33	5	896	5	CYFIP2	5	156734839	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	144933	156734839	24180421	2562	56393											
CYFIP2	26999	broad.mit.edu	37	chr5	156747684	156747684	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctacaggcaattcgaaaGaccatctgtgactgggaggg	11	8	13	9	1	1	2	0	1	1	1	3	4	2	3	2	3	1	1	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:156747684G>T	uc003lwq.2	+	17	1683	c.1545G>T	c.(1543-1545)AAG>AAT	p.K515N	CYFIP2_uc011ddn.1_Missense_Mutation_p.K489N|CYFIP2_uc011ddo.1_Missense_Mutation_p.K319N|CYFIP2_uc003lwr.2_Missense_Mutation_p.K515N|CYFIP2_uc003lws.2_Missense_Mutation_p.K515N|CYFIP2_uc003lwt.2_Missense_Mutation_p.K393N|CYFIP2_uc011ddp.1_Missense_Mutation_p.K249N	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	515					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CAATTCGAAAGACCATCTGTG	0.542													18	34					5.03518e-11	5.49976e-11	1	1	0		T	156747684	T	T	156747684	3	4	89	1	0	0	0	0	1	0	0	0	4141	933	33	5	1599	5	CYFIP2	5	156747684	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12845	156747684	24167576	2563	56394											
CYFIP2	26999	broad.mit.edu	37	chr5	156786115	156786115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctgggttatcagggcatcGctgtggtcatggaggaactg	7	11	15	8	1	2	0	2	0	0	0	4	2	3	2	1	5	1	3	1	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:156786115G>A	uc003lwq.2	+	26	2914	c.2776G>A	c.(2776-2778)GCT>ACT	p.A926T	CYFIP2_uc011ddn.1_Missense_Mutation_p.A900T|CYFIP2_uc011ddo.1_Missense_Mutation_p.A730T|CYFIP2_uc003lwr.2_Missense_Mutation_p.A926T|CYFIP2_uc003lws.2_Missense_Mutation_p.A926T|CYFIP2_uc003lwt.2_Missense_Mutation_p.A829T|CYFIP2_uc011ddp.1_Missense_Mutation_p.A660T	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	951					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TCAGGGCATCGCTGTGGTCAT	0.483													47	89					0	0	1	0	0		A	156786115	A	A	156786115	3	1	89	1	0	0	0	0	1	0	0	0	4141	1087	38	1	2866	1	CYFIP2	5	156786115	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	38431	156786115	24129145	2564	56395											
RNF145	153830	broad.mit.edu	37	chr5	158596042	158596042	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcactgccaggattaacagCgttactccttctgtcatgcc	8	12	8	13	1	2	0	1	0	1	0	3	1	3	1	3	1	6	2	3	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:158596042C>T	uc003lxp.2	-	8	1273	c.960G>A	c.(958-960)ACG>ACA	p.T320T	RNF145_uc011ddy.1_Silent_p.T334T|RNF145_uc003lxo.1_Silent_p.T348T|RNF145_uc011ddz.1_Silent_p.T337T|RNF145_uc010jiq.1_Silent_p.T350T	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	320	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGATTAACAGCGTTACTCCTT	0.383													51	100					0	0	1	0	0		T	158596042	T	T	158596042	2	4	89	1	0	0	0	0	0	0	0	1	13472	755	27	1		1	RNF145	5	158596042	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1809927	158596042	22319218	2565	56396											
PWWP2A	114825	broad.mit.edu	37	chr5	159507740	159507740	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtaagggagcagcaggactCgtcactgtctgatgtaatag	11	10	13	7	1	2	1	1	1	1	0	3	3	2	3	0	2	2	4	0	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:159507740C>T	uc003lxv.3	-	3	1644	c.1587G>A	c.(1585-1587)ACG>ACA	p.T529T	PWWP2A_uc011dec.1_Intron	NM_052927	NP_443159	Q96N64	PWP2A_HUMAN	PWWP domain containing 2A isoform a	Error:Variant_position_missing_in_Q96N64_after_alignment											0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAGCAGGACTCGTCACTGTCT	0.418													4	1					0	0	1	0	0		T	159507740	T	T	159507740	2	4	89	1	0	0	0	0	0	0	0	1	12870	871	31	1		1	PWWP2A	5	159507740	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	911698	159507740	21407520	2566	56397											
C1QTNF2	114898	broad.mit.edu	37	chr5	159781843	159781843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttgccaggaaagcccattCgtcccatcattcctgagggc	8	10	9	14	1	1	1	1	1	0	0	4	2	3	2	4	2	2	0	4	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:159781843C>T	uc003lyd.2	-	2	315	c.311G>A	c.(310-312)CGA>CAA	p.R104Q		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	59	Collagen-like.					collagen				skin(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AAAGCCCATTCGTCCCATCAT	0.662													9	23					0	0	1	0	0		T	159781843	T	T	159781843	3	4	89	1	0	0	0	0	1	0	0	0	1966	884	31	1	689	1	C1QTNF2	5	159781843	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	274103	159781843	21133417	2567	56398											
ATP10B	23120	broad.mit.edu	37	chr5	159992649	159992649	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtgccacatctctgttcGtggagtactgactcttccac	6	13	8	14	2	2	1	0	1	2	0	6	2	4	2	3	1	2	2	3	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:159992649G>C	uc003lym.1	-	26	5044	c.4197C>G	c.(4195-4197)CAC>CAG	p.H1399Q	ATP10B_uc010jit.1_Missense_Mutation_p.H649Q	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	1399	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATCTCTGTTCGTGGAGTACTG	0.557													48	120					0	0	1	0	0		C	159992649	C	C	159992649	3	2	89	1	0	0	0	0	1	0	0	0	1118	1136	40	5	192	5	ATP10B	5	159992649	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	210806	159992649	20922611	2568	56399											
ATP10B	23120	broad.mit.edu	37	chr5	159992842	159992842	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtctggggggagtttgTcaattttctgagcttttgag	5	19	13	4	0	3	2	1	2	2	0	3	3	3	3	0	3	1	2	0	3	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:159992842T>C	uc003lym.1	-	26	4851	c.4004A>G	c.(4003-4005)GAC>GGC	p.D1335G	ATP10B_uc010jit.1_Missense_Mutation_p.D585G	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	1335	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGGGAGTTTGTCAATTTTCTG	0.468													53	111					0	0	1	0	0		C	159992842	C	C	159992842	3	2	89	1	0	0	0	0	1	0	0	0	1118	1667	58	3	385	3	ATP10B	5	159992842	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	193	159992842	20922418	2569	56400											
GABRA6	2559	broad.mit.edu	37	chr5	161128750	161128750	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtttatctttccaaagatAcaatggaagtcagtagcagt	14	13	8	6	0	2	1	1	0	1	1	3	2	3	2	1	1	2	3	1	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:161128750A>G	uc003lyu.2	+	9	1671	c.1333A>G	c.(1333-1335)ACA>GCA	p.T445A	GABRA6_uc003lyv.2_Missense_Mutation_p.T216A	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	445					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TTCCAAAGATACAATGGAAGT	0.388										TCGA Ovarian(5;0.080)			37	77					0	0	1	0	0		G	161128750	G	G	161128750	3	3	89	1	0	0	0	0	1	0	0	0	6179	391	14	3	1367	3	GABRA6	5	161128750	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1135908	161128750	19786510	2570	56401											
GABRA1	2554	broad.mit.edu	37	chr5	161300284	161300284	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcagtggcccacaacatGaccatgcccaacaaactcct	14	6	6	15	0	1	1	1	1	0	0	2	1	2	1	4	1	4	0	4	1	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:161300284G>T	uc010jiw.2	+	6	885	c.417G>T	c.(415-417)ATG>ATT	p.M139I	GABRA1_uc010jix.2_Missense_Mutation_p.M139I|GABRA1_uc010jiy.2_Missense_Mutation_p.M139I|GABRA1_uc003lyx.3_Missense_Mutation_p.M139I|GABRA1_uc010jiz.2_Missense_Mutation_p.M139I|GABRA1_uc010jja.2_Missense_Mutation_p.M139I|GABRA1_uc010jjb.2_Missense_Mutation_p.M139I	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	139	Extracellular (Probable).			Missing (in Ref. 4; CAA31925).	gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	CCCACAACATGACCATGCCCA	0.473													28	60					1.77063e-15	2.01907e-15	1	1	0		T	161300284	T	T	161300284	3	4	89	1	0	0	0	0	1	0	0	0	6174	1290	45	5	431	5	GABRA1	5	161300284	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	171534	161300284	19614976	2571	56402											
GABRA1	2554	broad.mit.edu	37	chr5	161309607	161309607	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttatgaatggaccagagaGccagcacgctcagtggttgt	10	10	13	8	1	1	2	1	1	0	1	1	4	1	3	2	2	2	4	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:161309607G>A	uc010jiw.2	+	8	1071	c.603G>A	c.(601-603)GAG>GAA	p.E201E	GABRA1_uc010jix.2_Silent_p.E201E|GABRA1_uc010jiy.2_Silent_p.E201E|GABRA1_uc003lyx.3_Silent_p.E201E|GABRA1_uc010jiz.2_Silent_p.E201E|GABRA1_uc010jja.2_Silent_p.E201E|GABRA1_uc010jjb.2_Silent_p.E201E	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	201	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	GGACCAGAGAGCCAGCACGCT	0.393													27	48					0	0	1	0	0		A	161309607	A	A	161309607	2	1	89	1	0	0	0	0	0	0	0	1	6174	962	34	2		2	GABRA1	5	161309607	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9323	161309607	19605653	2572	56403											
GABRA1	2554	broad.mit.edu	37	chr5	161317999	161317999	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcataatgacagtgattCtctcacaagtctccttctgg	10	13	7	11	0	4	2	1	2	3	0	6	2	4	2	1	1	1	1	1	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:161317999C>A	uc010jiw.2	+	9	1267	c.799C>A	c.(799-801)CTC>ATC	p.L267I	GABRA1_uc010jix.2_Missense_Mutation_p.L267I|GABRA1_uc010jiy.2_Missense_Mutation_p.L267I|GABRA1_uc003lyx.3_Missense_Mutation_p.L267I|GABRA1_uc010jiz.2_Missense_Mutation_p.L267I|GABRA1_uc010jja.2_Missense_Mutation_p.L267I|GABRA1_uc010jjb.2_Missense_Mutation_p.L267I	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	267	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	GACAGTGATTCTCTCACAAGT	0.418													24	53					5.35356e-11	5.83973e-11	1	1	0		A	161317999	A	A	161317999	3	1	89	1	0	0	0	0	1	0	0	0	6174	913	32	5	825	5	GABRA1	5	161317999	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8392	161317999	19597261	2573	56404											
GABRA1	2554	broad.mit.edu	37	chr5	161324122	161324122	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttctttctacagccaaaGaaagtaaaggatcctcttat	13	14	5	9	0	4	1	0	0	4	1	5	2	5	2	2	1	2	1	2	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:161324122G>T	uc010jiw.2	+	11	1533	c.1065G>T	c.(1063-1065)AAG>AAT	p.K355N	GABRA1_uc010jix.2_Missense_Mutation_p.K355N|GABRA1_uc010jiy.2_Missense_Mutation_p.K355N|GABRA1_uc003lyx.3_Missense_Mutation_p.K355N|GABRA1_uc010jiz.2_Missense_Mutation_p.K355N|GABRA1_uc010jja.2_Missense_Mutation_p.K355N|GABRA1_uc010jjb.2_Missense_Mutation_p.K355N	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	355	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	TACAGCCAAAGAAAGTAAAGG	0.433													36	94					6.97489e-18	8.11623e-18	1	1	0		T	161324122	T	T	161324122	3	4	89	1	0	0	0	0	1	0	0	0	6174	933	33	5	1099	5	GABRA1	5	161324122	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6123	161324122	19591138	2574	56405											
GABRA1	2554	broad.mit.edu	37	chr5	161324264	161324264	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacctaaagaggtcaagcccGaaacaaaaccaccagaaccc	19	2	6	14	1	1	2	1	0	0	2	1	3	1	2	5	1	5	0	5	1	8	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:161324264G>A	uc010jiw.2	+	11	1675	c.1207G>A	c.(1207-1209)GAA>AAA	p.E403K	GABRA1_uc010jix.2_Missense_Mutation_p.E403K|GABRA1_uc010jiy.2_Missense_Mutation_p.E403K|GABRA1_uc003lyx.3_Missense_Mutation_p.E403K|GABRA1_uc010jiz.2_Missense_Mutation_p.E403K|GABRA1_uc010jja.2_Missense_Mutation_p.E403K|GABRA1_uc010jjb.2_Missense_Mutation_p.E403K	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	403	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	GGTCAAGCCCGAAACAAAACC	0.473													44	114					0	0	1	0	0		A	161324264	A	A	161324264	3	1	89	1	0	0	0	0	1	0	0	0	6174	1059	37	1	1241	1	GABRA1	5	161324264	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	142	161324264	19590996	2575	56406											
GABRG2	2566	broad.mit.edu	37	chr5	161495013	161495013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaaaaaaaagcgatgagttCgccaaatatatggagcacag	20	6	9	6	2	0	1	0	1	0	0	1	3	0	2	1	1	2	2	1	1	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:161495013C>T	uc003lyz.3	+	1	366	c.8C>T	c.(7-9)TCG>TTG	p.S3L	GABRG2_uc010jjc.2_Missense_Mutation_p.S3L|GABRG2_uc003lyy.3_Missense_Mutation_p.S3L|GABRG2_uc011dej.1_5'UTR	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	3					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		GCGATGAGTTCGCCAAATATA	0.453													21	38					0	0	1	0	0		T	161495013	T	T	161495013	3	4	89	1	0	0	0	0	1	0	0	0	6186	893	31	1	10	1	GABRG2	5	161495013	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	170749	161495013	19420247	2576	56407											
GABRG2	2566	broad.mit.edu	37	chr5	161530961	161530961	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgaagtgggcgacacaaGatcctggaggctttatcaat	11	11	12	7	1	1	2	1	1	0	1	2	4	2	3	1	3	0	2	1	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:161530961G>T	uc003lyz.3	+	6	1056	c.698G>T	c.(697-699)AGA>ATA	p.R233I	GABRG2_uc010jjc.2_Missense_Mutation_p.R273I|GABRG2_uc003lyy.3_Missense_Mutation_p.R233I|GABRG2_uc011dej.1_Missense_Mutation_p.R138I	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	233	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		GGCGACACAAGATCCTGGAGG	0.413													33	51					1.99505e-19	2.34416e-19	1	1	0		T	161530961	T	T	161530961	3	4	89	1	0	0	0	0	1	0	0	0	6186	942	33	5	844	5	GABRG2	5	161530961	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	35948	161530961	19384299	2577	56408											
HMMR	3161	broad.mit.edu	37	chr5	162900198	162900198	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttagtgtttcaatagagAaagaaaagattgatgaaaaa	19	12	9	1	0	1	5	1	2	0	3	1	6	1	5	0	0	0	2	0	0	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:162900198A>G	uc003lzf.2	+	8	843	c.661A>G	c.(661-663)AAA>GAA	p.K221E	HMMR_uc003lzh.2_Missense_Mutation_p.K222E|HMMR_uc003lzg.2_Missense_Mutation_p.K206E|HMMR_uc011dem.1_Missense_Mutation_p.K135E	NM_012484	NP_036616	O75330	HMMR_HUMAN	hyaluronan-mediated motility receptor isoform b	221						cell surface|cytoplasm	hyaluronic acid binding				0	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0296)|OV - Ovarian serous cystadenocarcinoma(192;0.0423)|Epithelial(171;0.0848)		TTCAATAGAGAAAGAAAAGAT	0.264													5	22					0	0	1	0	0		G	162900198	G	G	162900198	3	3	89	1	0	0	0	0	1	0	0	0	7258	247	9	3	694	3	HMMR	5	162900198	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1369237	162900198	18015062	2578	56409											
HMMR	3161	broad.mit.edu	37	chr5	162900450	162900450	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagaagaaaatttgaaagAgaagaatgatgaaattttaa	21	11	9	0	0	0	7	0	3	0	4	0	8	0	7	0	0	0	1	0	0	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:162900450A>C	uc003lzf.2	+	9	970	c.788A>C	c.(787-789)GAG>GCG	p.E263A	HMMR_uc003lzh.2_Missense_Mutation_p.E264A|HMMR_uc003lzg.2_Missense_Mutation_p.E248A|HMMR_uc011dem.1_Missense_Mutation_p.E177A	NM_012484	NP_036616	O75330	HMMR_HUMAN	hyaluronan-mediated motility receptor isoform b	263						cell surface|cytoplasm	hyaluronic acid binding				0	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0296)|OV - Ovarian serous cystadenocarcinoma(192;0.0423)|Epithelial(171;0.0848)		AATTTGAAAGAGAAGAATGAT	0.308													28	67					0	0	1	0	0		C	162900450	C	C	162900450	3	2	89	1	0	0	0	0	1	0	0	0	7258	304	11	5	825	5	HMMR	5	162900450	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	252	162900450	18014810	2579	56410											
HMMR	3161	broad.mit.edu	37	chr5	162902491	162902491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcgagtcttcatcagaagCtctgttcttttcaagaggaa	10	14	8	9	1	6	2	3	0	3	2	7	4	6	3	0	1	1	2	0	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:162902491C>T	uc003lzf.2	+	11	1260	c.1078C>T	c.(1078-1080)CTC>TTC	p.L360F	HMMR_uc003lzh.2_Missense_Mutation_p.L361F|HMMR_uc003lzg.2_Missense_Mutation_p.L345F|HMMR_uc011dem.1_Missense_Mutation_p.L274F	NM_012484	NP_036616	O75330	HMMR_HUMAN	hyaluronan-mediated motility receptor isoform b	360						cell surface|cytoplasm	hyaluronic acid binding				0	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0296)|OV - Ovarian serous cystadenocarcinoma(192;0.0423)|Epithelial(171;0.0848)		TCATCAGAAGCTCTGTTCTTT	0.353													16	45					0	0	1	0	0		T	162902491	T	T	162902491	3	4	89	1	0	0	0	0	1	0	0	0	7258	797	28	2	1123	2	HMMR	5	162902491	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2041	162902491	18012769	2580	56411											
ODZ2	57451	broad.mit.edu	37	chr5	167551866	167551866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttttttcagttgattgcttgGatcccacctgctccagccac	6	15	7	13	0	1	1	1	1	0	0	3	2	3	2	4	1	3	3	4	1	0	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:167551866G>A	uc010jjd.2	+	11	2020	c.2020G>A	c.(2020-2022)GAT>AAT	p.D674N	ODZ2_uc003lzr.3_Missense_Mutation_p.D442N|ODZ2_uc003lzt.3_Missense_Mutation_p.D38N|ODZ2_uc010jje.2_5'UTR|uc003lzs.1_Intron	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		TGATTGCTTGGATCCCACCTG	0.507													10	13					0	0	1	0	0		A	167551866	A	A	167551866	3	1	89	1	0	0	0	0	1	0	0	0	10854	1174	41	4	2062	4	ODZ2	5	167551866	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4649375	167551866	13363394	2581	56412											
ODZ2	57451	broad.mit.edu	37	chr5	167671461	167671461	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttgtccattgactatgatCgaaatattcggactgaaaag	13	13	8	7	2	1	3	0	3	1	0	4	5	2	4	1	1	0	0	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:167671461C>T	uc010jjd.2	+	26	5530	c.5530C>T	c.(5530-5532)CGA>TGA	p.R1844*	ODZ2_uc003lzr.3_Nonsense_Mutation_p.R1614*|ODZ2_uc003lzt.3_Nonsense_Mutation_p.R1217*|ODZ2_uc010jje.2_Nonsense_Mutation_p.R1108*	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		TGACTATGATCGAAATATTCG	0.502													12	22					0	0	1	0	0		T	167671461	T	T	167671461	4	4	89	1	0	0	0	0	0	1	0	0	10854	876	31	1	5632	1	ODZ2	5	167671461	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	119595	167671461	13243799	2582	56413											
WWC1	23286	broad.mit.edu	37	chr5	167855774	167855774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaagcagtgggtgcgacccGaattcagattgccctgaagt	10	8	14	9	2	1	2	1	1	0	1	1	5	1	3	2	2	3	1	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:167855774G>A	uc003lzu.2	+	13	2075	c.1982G>A	c.(1981-1983)CGA>CAA	p.R661Q	WWC1_uc003lzv.2_Missense_Mutation_p.R661Q|WWC1_uc011den.1_Missense_Mutation_p.R661Q|WWC1_uc003lzw.2_Missense_Mutation_p.R460Q|WWC1_uc010jjf.1_5'Flank	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	661	C2.				cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		GGTGCGACCCGAATTCAGATT	0.547													30	33					0	0	1	0	0		A	167855774	A	A	167855774	3	1	89	1	0	0	0	0	1	0	0	0	17437	1058	37	1	2032	1	WWC1	5	167855774	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	184313	167855774	13059486	2583	56414											
PANK3	79646	broad.mit.edu	37	chr5	167990936	167990936	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaccaaatctttcataaTctcctccataaatatcacgg	15	11	3	12	1	4	0	2	0	2	0	6	0	5	0	3	1	1	1	3	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:167990936T>G	uc003lzz.1	-	4	1070	c.770A>C	c.(769-771)GAT>GCT	p.D257A	uc003maa.1_5'Flank|MIR103-1_hsa-mir-103-1|MI0000109_5'Flank	NM_024594	NP_078870	Q9H999	PANK3_HUMAN	pantothenate kinase 3	257					coenzyme A biosynthetic process	cytoplasm|nucleus	ATP binding|pantothenate kinase activity			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0441)|all_lung(126;0.0909)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0989)|OV - Ovarian serous cystadenocarcinoma(192;0.147)|Epithelial(171;0.188)		TCTTTCATAATCTCCTCCATA	0.378													73	130					0	0	1	0	0		G	167990936	G	G	167990936	3	3	89	1	0	0	0	0	1	0	0	0	11437	1435	50	5	358	5	PANK3	5	167990936	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	135162	167990936	12924324	2584	56415											
DOCK2	1794	broad.mit.edu	37	chr5	169141087	169141087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgacccttccttcttatcGacaccatgtggaaaacaagg	11	10	7	13	1	1	1	0	1	1	0	3	3	2	2	4	2	1	0	4	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:169141087G>A	uc003maf.2	+	18	1795	c.1715G>A	c.(1714-1716)CGA>CAA	p.R572Q	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.R64Q|DOCK2_uc010jjl.1_Missense_Mutation_p.R90Q	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	572	DHR-1.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCTTCTTATCGACACCATGTG	0.572													27	54					0	0	1	0	0		A	169141087	A	A	169141087	3	1	89	1	0	0	0	0	1	0	0	0	4693	1058	37	1	1785	1	DOCK2	5	169141087	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1150151	169141087	11774173	2585	56416											
LCP2	3937	broad.mit.edu	37	chr5	169679511	169679511	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaccactcttcatttaatGaattctgaaaatgtaaattt	14	16	4	7	1	3	2	1	2	2	0	3	2	3	2	1	0	1	2	1	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:169679511G>T	uc003man.1	-	19	1457	c.1250C>A	c.(1249-1251)TCA>TAA	p.S417*	C5orf58_uc003mal.2_RNA|LCP2_uc011des.1_Nonsense_Mutation_p.S212*|LCP2_uc011det.1_Nonsense_Mutation_p.S246*	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	417					immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		TTCATTTAATGAATTCTGAAA	0.308													6	6					5.9392e-07	6.20744e-07	1	1	0		T	169679511	T	T	169679511	4	4	89	1	0	0	0	0	0	1	0	0	8708	1294	45	5	363	5	LCP2	5	169679511	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	538424	169679511	11235749	2586	56417											
NPM1	4869	broad.mit.edu	37	chr5	170818793	170818793	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtgcatattagtggacaGcacttagtaggtatgttatt	11	14	10	6	0	0	0	0	0	0	0	0	1	0	1	1	2	2	5	1	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:170818793G>A	uc011dex.1	+	5	477	c.342G>A	c.(340-342)CAG>CAA	p.Q114Q	NPM1_uc003mbh.2_Silent_p.Q114Q|NPM1_uc003mbi.2_Silent_p.Q114Q|NPM1_uc003mbj.2_Silent_p.Q114Q	NM_002520	NP_002511	P06748	NPM_HUMAN	nucleophosmin 1 isoform 1	114	Necessary for interaction with APEX1.|Required for interaction with SENP3.				anti-apoptosis|cell aging|CenH3-containing nucleosome assembly at centromere|centrosome cycle|DNA repair|interspecies interaction between organisms|intracellular protein transport|negative regulation of cell proliferation|negative regulation of centrosome duplication|nucleocytoplasmic transport|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|regulation of endodeoxyribonuclease activity|regulation of endoribonuclease activity|ribosome assembly|signal transduction	nucleolus|nucleoplasm|ribonucleoprotein complex|spindle pole centrosome	histone binding|NF-kappaB binding|protein binding|protein heterodimerization activity|protein homodimerization activity|ribosomal large subunit binding|ribosomal small subunit binding|RNA binding|Tat protein binding|transcription coactivator activity|unfolded protein binding		NPM1/ALK(632)	haematopoietic_and_lymphoid_tissue(3109)|skin(1)	3110	Renal(175;0.000159)|Lung NSC(126;0.00576)|all_lung(126;0.00963)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TTAGTGGACAGCACTTAGTAG	0.403			T|F 	ALK|RARA|MLF1	NHL|APL|AML								23	40					0	0	1	0	0		A	170818793	A	A	170818793	2	1	89	1	0	0	0	0	0	0	0	1	10606	962	34	2		2	NPM1	5	170818793	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1139282	170818793	10096467	2587	56418											
FBXW11	23291	broad.mit.edu	37	chr5	171295779	171295779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaactcatcaaactggagccGaaacacacgtccagaatgtt	16	7	7	11	2	2	1	2	0	0	1	3	3	3	2	2	1	4	1	2	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:171295779G>A	uc003mbm.1	-	12	1860	c.1489C>T	c.(1489-1491)CGG>TGG	p.R497W	FBXW11_uc011dey.1_Missense_Mutation_p.R465W|FBXW11_uc003mbl.1_Missense_Mutation_p.R484W|FBXW11_uc003mbn.1_Missense_Mutation_p.R463W	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	497	WD 7.				cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AACTGGAGCCGAAACACACGT	0.413													27	42					0	0	1	0	0		A	171295779	A	A	171295779	3	1	89	1	0	0	0	0	1	0	0	0	5778	1057	37	1	143	1	FBXW11	5	171295779	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	476986	171295779	9619481	2588	56419											
FBXW11	23291	broad.mit.edu	37	chr5	171299912	171299912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatccactaacaaccaggCgatccctgtactggagacag	13	7	9	12	1	0	2	0	1	0	1	2	4	2	2	3	2	3	1	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:171299912C>T	uc003mbm.1	-	9	1612	c.1241G>A	c.(1240-1242)CGC>CAC	p.R414H	FBXW11_uc011dey.1_Missense_Mutation_p.R382H|FBXW11_uc003mbl.1_Missense_Mutation_p.R401H|FBXW11_uc003mbn.1_Missense_Mutation_p.R380H	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	414	WD 5.				cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AACAACCAGGCGATCCCTGTA	0.473													32	51					0	0	1	0	0		T	171299912	T	T	171299912	3	4	89	1	0	0	0	0	1	0	0	0	5778	768	27	1	403	1	FBXW11	5	171299912	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4133	171299912	9615348	2589	56420											
ERGIC1	57222	broad.mit.edu	37	chr5	172341770	172341770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcacgaagtgggccacatcGacaactccatgaagatcccg	12	5	11	13	3	0	2	0	1	0	1	3	4	2	2	3	2	1	1	3	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:172341770G>A	uc003mbw.3	+	5	498	c.304G>A	c.(304-306)GAC>AAC	p.D102N	ERGIC1_uc003mby.3_Missense_Mutation_p.D10N|ERGIC1_uc011dfa.1_Missense_Mutation_p.D47N|ERGIC1_uc003mbz.3_Missense_Mutation_p.D57N	NM_001031711	NP_001026881	Q969X5	ERGI1_HUMAN	endoplasmic reticulum-golgi intermediate	102	Lumenal (Potential).				ER to Golgi vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	protein binding			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00344)|all_lung(126;0.00594)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GGGCCACATCGACAACTCCAT	0.572													6	59					0	0	1	0	0		A	172341770	A	A	172341770	3	1	89	1	0	0	0	0	1	0	0	0	5231	1058	37	1	322	1	ERGIC1	5	172341770	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1041858	172341770	8573490	2590	56421											
RPL26L1	51121	broad.mit.edu	37	chr5	172396461	172396461	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggatcggaaaaaaattCttgaacgcaaagccaagtct	18	7	8	8	2	2	1	0	1	2	0	3	3	2	3	1	2	2	1	1	2	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:172396461C>A	uc003mcc.2	+	4	397	c.355C>A	c.(355-357)CTT>ATT	p.L119I		NM_016093	NP_057177	Q9UNX3	RL26L_HUMAN	ribosomal protein L26-like 1	119					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|large ribosomal subunit	structural constituent of ribosome				0	Renal(175;0.000159)|Lung NSC(126;0.00344)|all_lung(126;0.00594)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GAAAAAAATTCTTGAACGCAA	0.403													32	81					2.61193e-14	2.9448e-14	1	1	0		A	172396461	A	A	172396461	3	1	89	1	0	0	0	0	1	0	0	0	13599	913	32	5	365	5	RPL26L1	5	172396461	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	54691	172396461	8518799	2591	56422											
C5orf41	153222	broad.mit.edu	37	chr5	172513516	172513516	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtagcctagtgtaagcGgaatggatccgcctttcggg	7	12	14	8	3	0	0	0	0	0	0	2	2	1	2	3	3	2	3	3	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:172513516G>T	uc003mch.2	+	3	326	c.22G>T	c.(22-24)GGA>TGA	p.G8*	C5orf41_uc003mcg.2_Nonsense_Mutation_p.G8*|C5orf41_uc003mcf.2_Nonsense_Mutation_p.G8*|C5orf41_uc011dfd.1_Nonsense_Mutation_p.G8*	NM_153607	NP_705835	Q8IUR6	CE041_HUMAN	luman-recruiting factor	8							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TAGTGTAAGCGGAATGGATCC	0.438													42	97					2.95478e-19	3.46784e-19	1	1	0		T	172513516	T	T	172513516	4	4	89	1	0	0	0	0	0	1	0	0	2303	1117	39	5	28	5	C5orf41	5	172513516	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	117055	172513516	8401744	2592	56423											
BNIP1	662	broad.mit.edu	37	chr5	172590728	172590728	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcctcttttgtttcagTcacttcttcacgaacgatcc	6	17	4	14	2	5	0	3	0	2	0	8	2	8	0	3	0	1	1	3	0	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:172590728T>G	uc003mcj.3	+	6	595	c.491T>G	c.(490-492)GTC>GGC	p.V164G	BNIP1_uc003mci.3_Missense_Mutation_p.V207G|BNIP1_uc003mck.3_Missense_Mutation_p.V173G|BNIP1_uc003mcl.3_Missense_Mutation_p.V130G	NM_001205	NP_001196	Q12981	SEC20_HUMAN	BCL2/adenovirus E1B 19kD interacting protein 1	164	Cytoplasmic (Potential).				anti-apoptosis|apoptosis|endoplasmic reticulum membrane fusion|endoplasmic reticulum organization|induction of apoptosis|vesicle-mediated transport	integral to endoplasmic reticulum membrane|nuclear envelope|SNARE complex	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TTTGTTTCAGTCACTTCTTCA	0.493													13	43					0	0	1	0	0		G	172590728	G	G	172590728	3	3	89	1	0	0	0	0	1	0	0	0	1477	1681	58	5	646	5	BNIP1	5	172590728	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	77212	172590728	8324532	2593	56424											
CDHR2	54825	broad.mit.edu	37	chr5	176003151	176003151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccccccgcatccccatcGatgacctcaccatggtggtc	6	8	7	20	2	1	1	1	1	0	0	5	2	3	1	8	2	0	1	8	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:176003151G>A	uc003mem.1	+	12	1225	c.1159G>A	c.(1159-1161)GAT>AAT	p.D387N	CDHR2_uc003men.1_Missense_Mutation_p.D387N	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	387	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding	p.D387N(1)		ovary(2)	2						CATCCCCATCGATGACCTCAC	0.657													35	47					0	0	1	0	0		A	176003151	A	A	176003151	3	1	89	1	0	0	0	0	1	0	0	0	3122	1058	37	1	1201	1	CDHR2	5	176003151	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3412423	176003151	4912109	2594	56425											
HK3	3101	broad.mit.edu	37	chr5	176308305	176308305	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcacacccagactcaccgCgggtgcagcttgtagagcgt	8	6	12	15	4	1	2	1	0	0	2	1	2	1	2	3	1	3	4	3	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:176308305C>T	uc003mfa.2	-	18	2717	c.2625G>A	c.(2623-2625)CCG>CCA	p.P875P	HK3_uc003mez.2_Silent_p.P431P	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	875	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGACTCACCGCGGGTGCAGCT	0.672													30	67					0	0	1	0	0		T	176308305	T	T	176308305	2	4	89	1	0	0	0	0	0	0	0	1	7208	755	27	1		1	HK3	5	176308305	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	305154	176308305	4606955	2595	56426											
NSD1	64324	broad.mit.edu	37	chr5	176636805	176636805	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatcctgagtcagaacatGacctgttgcttaatggctgt	10	13	10	8	0	1	4	1	3	0	1	2	4	2	4	2	1	2	3	2	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:176636805G>T	uc003mfr.3	+	5	1543	c.1405G>T	c.(1405-1407)GAC>TAC	p.D469Y	NSD1_uc003mft.3_Missense_Mutation_p.D200Y|NSD1_uc003mfs.1_Missense_Mutation_p.D366Y|NSD1_uc011dfx.1_Missense_Mutation_p.D117Y	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	469					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		GTCAGAACATGACCTGTTGCT	0.423			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			47	89					1.30916e-28	1.59356e-28	1	1	0		T	176636805	T	T	176636805	3	4	89	1	0	0	0	0	1	0	0	0	10688	1290	45	5	1419	5	NSD1	5	176636805	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	328500	176636805	4278455	2596	56427											
NSD1	64324	broad.mit.edu	37	chr5	176671259	176671259	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccacatcttattcaaaaGattttggtggaggtgagtat	11	14	11	5	0	2	2	1	1	1	1	2	3	2	3	1	3	1	1	1	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:176671259G>T	uc003mfr.3	+	9	4504	c.4366G>T	c.(4366-4368)GAT>TAT	p.D1456Y	NSD1_uc003mft.3_Missense_Mutation_p.D1187Y|NSD1_uc003mfs.1_Missense_Mutation_p.D1353Y|NSD1_uc011dfx.1_Missense_Mutation_p.D1104Y	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1456					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		TTATTCAAAAGATTTTGGTGG	0.343			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			12	22					2.80697e-09	3.01096e-09	1	1	0		T	176671259	T	T	176671259	3	4	89	1	0	0	0	0	1	0	0	0	10688	942	33	5	4396	5	NSD1	5	176671259	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	34454	176671259	4244001	2597	56428											
NHP2	55651	broad.mit.edu	37	chr5	177580513	177580513	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttttctcctttgttgacaAatttctgaacctctttcacc	7	19	3	12	0	4	2	1	2	3	0	5	2	4	2	3	0	1	1	3	0	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:177580513A>C	uc003mir.2	-	2	352	c.209T>G	c.(208-210)TTT>TGT	p.F70C	NHP2_uc003mis.2_Missense_Mutation_p.F70C	NM_017838	NP_060308	Q9NX24	NHP2_HUMAN	nucleolar protein family A, member 2 isoform a	70					rRNA pseudouridine synthesis	Cajal body|nucleolus|small nucleolar ribonucleoprotein complex	protein binding|snoRNA binding				0						TTTGTTGACAAATTTCTGAAC	0.512													62	125					0	0	1	0	0		C	177580513	C	C	177580513	3	2	89	1	0	0	0	0	1	0	0	0	10428	14	1	5	264	5	NHP2	5	177580513	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	909254	177580513	3334747	2598	56429											
COL23A1	91522	broad.mit.edu	37	chr5	177681965	177681965	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaccttgagggcatccaaGatcctgccatcatagtcgat	11	10	8	12	1	1	2	1	1	0	1	4	3	3	2	4	1	2	1	4	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:177681965G>T	uc003mje.2	-	16	1303	c.945C>A	c.(943-945)ATC>ATA	p.I315I	COL23A1_uc010jkt.2_Silent_p.I197I	NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	315	Extracellular (Potential).|Gly-rich.					collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		GGGCATCCAAGATCCTGCCAT	0.488													77	163					2.26256e-52	2.81814e-52	1	1	0		T	177681965	T	T	177681965	2	4	89	1	0	0	0	0	0	0	0	1	3685	932	33	5		5	COL23A1	5	177681965	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	101452	177681965	3233295	2599	56430											
ZNF354A	6940	broad.mit.edu	37	chr5	178139758	178139758	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctctccagtgtgaattCtctgatgataacgaagggat	10	13	10	8	1	2	3	0	3	2	0	5	5	3	4	1	1	1	1	1	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:178139758C>A	uc003mjj.2	-	5	1319	c.1121G>T	c.(1120-1122)AGA>ATA	p.R374I		NM_005649	NP_005640	O60765	Z354A_HUMAN	zinc finger protein 354A	374	C2H2-type 5.				regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;0.000536)|Renal(175;0.000159)|all_epithelial(37;0.000221)|Lung NSC(126;0.00308)|all_lung(126;0.00536)	all_cancers(40;0.0452)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.185)		AGTGTGAATTCTCTGATGATA	0.403													34	75					1.62957e-23	1.95196e-23	1	1	0		A	178139758	A	A	178139758	3	1	89	1	0	0	0	0	1	0	0	0	17889	913	32	5	700	5	ZNF354A	5	178139758	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	457793	178139758	2775502	2600	56431											
ZNF354A	6940	broad.mit.edu	37	chr5	178152396	178152396	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctagagaggagacgccagaAccgtctttctccacctccca	10	7	8	16	2	2	3	0	0	2	3	4	5	3	3	6	1	1	0	6	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:178152396A>G	uc003mjj.2	-	4	435	c.237T>C	c.(235-237)GGT>GGC	p.G79G		NM_005649	NP_005640	O60765	Z354A_HUMAN	zinc finger protein 354A	79	KRAB.				regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;0.000536)|Renal(175;0.000159)|all_epithelial(37;0.000221)|Lung NSC(126;0.00308)|all_lung(126;0.00536)	all_cancers(40;0.0452)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.185)		AGACGCCAGAACCGTCTTTCT	0.517													40	130					0	0	1	0	0		G	178152396	G	G	178152396	2	3	89	1	0	0	0	0	0	0	0	1	17889	30	2	3		3	ZNF354A	5	178152396	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	12638	178152396	2762864	2601	56432											
ZNF354B	117608	broad.mit.edu	37	chr5	178309931	178309931	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtagatagaagccataaaAatgttgaatttggccaaaac	17	10	8	6	0	0	3	0	1	0	2	0	3	0	3	2	1	2	2	2	1	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:178309931A>C	uc003mjl.2	+	5	704	c.478A>C	c.(478-480)AAT>CAT	p.N160H	ZNF354B_uc003mjm.2_Missense_Mutation_p.N160H	NM_058230	NP_478137	Q96LW1	Z354B_HUMAN	zinc finger protein 354B	160					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAGCCATAAAAATGTTGAATT	0.294													21	43					0	0	1	0	0		C	178309931	C	C	178309931	3	2	89	1	0	0	0	0	1	0	0	0	17890	14	1	5	492	5	ZNF354B	5	178309931	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	157535	178309931	2605329	2602	56433											
ZNF454	285676	broad.mit.edu	37	chr5	178373364	178373364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaatttgctgttgcaggaatCggtgaccttcaaggatgtgg	9	12	14	6	1	1	1	1	1	0	0	2	4	1	3	1	4	2	3	1	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:178373364C>T	uc003mjo.1	+	3	309	c.38C>T	c.(37-39)TCG>TTG	p.S13L	ZNF454_uc010jkz.1_Missense_Mutation_p.S13L|ZNF454_uc003mjp.2_Silent_p.I48I	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	13					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(89;0.000904)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.225)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.234)		TTGCAGGAATCGGTGACCTTC	0.567													37	69					0	0	1	0	0		T	178373364	T	T	178373364	3	4	89	1	0	0	0	0	1	0	0	0	17948	893	31	1	44	1	ZNF454	5	178373364	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	63433	178373364	2541896	2603	56434											
ZNF454	285676	broad.mit.edu	37	chr5	178392029	178392029	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaaaaatgcaaatcagaaAattcatattaaggagaaaag	24	7	7	3	0	2	2	2	0	0	2	2	4	2	2	0	1	1	1	0	1	10	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:178392029A>C	uc003mjo.1	+	5	895	c.624A>C	c.(622-624)AAA>AAC	p.K208N	ZNF454_uc010jkz.1_Missense_Mutation_p.K208N	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	208					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(89;0.000904)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.225)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.234)		CAAATCAGAAAATTCATATTA	0.348													39	47					0	0	1	0	0		C	178392029	C	C	178392029	3	2	89	1	0	0	0	0	1	0	0	0	17948	11	1	5	638	5	ZNF454	5	178392029	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	18665	178392029	2523231	2604	56435											
ZNF454	285676	broad.mit.edu	37	chr5	178392784	178392784	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccttacccaacataagaGaattcatactagggaaaaac	18	7	6	10	0	1	1	1	0	0	1	1	3	1	2	2	1	5	0	2	1	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:178392784G>T	uc003mjo.1	+	5	1650	c.1379G>T	c.(1378-1380)AGA>ATA	p.R460I	ZNF454_uc010jkz.1_Missense_Mutation_p.R460I	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	460	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(89;0.000904)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.225)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.234)		CAACATAAGAGAATTCATACT	0.403													45	104					1.23103e-26	1.49092e-26	1	1	0		T	178392784	T	T	178392784	3	4	89	1	0	0	0	0	1	0	0	0	17948	942	33	5	1393	5	ZNF454	5	178392784	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	755	178392784	2522476	2605	56436											
ZNF354C	30832	broad.mit.edu	37	chr5	178505734	178505734	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcctcatagacaggacattTttatagaagaaacatctcag	15	11	7	8	0	2	3	2	0	1	3	3	4	2	4	1	1	2	0	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:178505734T>G	uc003mju.2	+	5	416	c.301T>G	c.(301-303)TTT>GTT	p.F101V		NM_014594	NP_055409	Q86Y25	Z354C_HUMAN	zinc finger protein 354C	101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(89;0.00065)|all_epithelial(37;0.000153)|Renal(175;0.000159)|Lung NSC(126;0.00175)|all_lung(126;0.00309)	all_cancers(40;0.19)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.247)		ACAGGACATTTTTATAGAAGA	0.383													31	50					0	0	1	0	0		G	178505734	G	G	178505734	3	3	89	1	0	0	0	0	1	0	0	0	17891	1841	64	5	315	5	ZNF354C	5	178505734	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	112950	178505734	2409526	2606	56437											
ZNF354C	30832	broad.mit.edu	37	chr5	178506881	178506881	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcagccagtattcattttTaaccgaacatgagaggatcc	12	12	7	10	1	2	1	2	1	0	1	3	4	3	2	3	1	3	1	3	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:178506881T>G	uc003mju.2	+	5	1563	c.1448T>G	c.(1447-1449)TTA>TGA	p.L483*		NM_014594	NP_055409	Q86Y25	Z354C_HUMAN	zinc finger protein 354C	483	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(89;0.00065)|all_epithelial(37;0.000153)|Renal(175;0.000159)|Lung NSC(126;0.00175)|all_lung(126;0.00309)	all_cancers(40;0.19)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.247)		TATTCATTTTTAACCGAACAT	0.393													41	61					0	0	1	0	0		G	178506881	G	G	178506881	4	3	89	1	0	0	0	0	0	1	0	0	17891	1764	61	5	1462	5	ZNF354C	5	178506881	Nonsense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1147	178506881	2408379	2607	56438											
ADAMTS2	9509	broad.mit.edu	37	chr5	178541025	178541025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttttgtagggttcatctacgGcattggtttctgggtgatcc	5	17	12	7	1	3	1	1	1	2	0	4	1	4	1	1	4	1	4	1	4	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:178541025G>A	uc003mjw.2	-	22	3479	c.3479C>T	c.(3478-3480)GCC>GTC	p.A1160V	uc003mjv.3_5'Flank	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1160					collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		TTCATCTACGGCATTGGTTTC	0.552													49	86					0	0	1	0	0		A	178541025	A	A	178541025	3	1	89	1	0	0	0	0	1	0	0	0	265	1203	42	2	160	2	ADAMTS2	5	178541025	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	34144	178541025	2374235	2608	56439											
ADAMTS2	9509	broad.mit.edu	37	chr5	178557056	178557056	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactggcatccacgtcattCtcttcatttaagatgaactt	11	14	6	10	1	3	2	2	1	1	1	5	3	4	2	1	1	2	1	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:178557056C>A	uc003mjw.2	-	16	2334	c.2334G>T	c.(2332-2334)GAG>GAT	p.E778D		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	778	Spacer.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CCACGTCATTCTCTTCATTTA	0.577													23	48					1.96895e-08	2.09068e-08	1	1	0		A	178557056	A	A	178557056	3	1	89	1	0	0	0	0	1	0	0	0	265	912	32	5	1329	5	ADAMTS2	5	178557056	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	16031	178557056	2358204	2609	56440											
ADAMTS2	9509	broad.mit.edu	37	chr5	178770784	178770784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccagcccatcgcagttgCtgagcgccacagaggaggct	9	6	12	14	2	1	2	1	1	0	1	2	3	1	3	3	2	3	4	3	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:178770784C>T	uc003mjw.2	-	2	518	c.518G>A	c.(517-519)AGC>AAC	p.S173N	ADAMTS2_uc011dgm.1_Missense_Mutation_p.S173N	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	173					collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		ATCGCAGTTGCTGAGCGCCAC	0.637													7	11					0	0	1	0	0		T	178770784	T	T	178770784	3	4	89	1	0	0	0	0	1	0	0	0	265	797	28	2	3276	2	ADAMTS2	5	178770784	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	213728	178770784	2144476	2610	56441											
MAML1	9794	broad.mit.edu	37	chr5	179195995	179195995	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtaatgaagcagcatcagTtgcttttggaccaacagaaa	14	10	9	8	0	1	2	1	1	0	1	1	3	1	3	1	1	4	5	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:179195995T>C	uc003mkm.2	+	3	2139	c.1876T>C	c.(1876-1878)TTG>CTG	p.L626L	MAML1_uc003mkn.1_Silent_p.L626L	NM_014757	NP_055572	Q92585	MAML1_HUMAN	mastermind-like 1	626					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	peptide antigen binding|protein kinase binding|transcription coactivator activity			lung(4)|ovary(2)	6	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCAGCATCAGTTGCTTTTGGA	0.552													52	103					0	0	1	0	0		C	179195995	C	C	179195995	2	2	89	1	0	0	0	0	0	0	0	1	9223	1722	60	3		3	MAML1	5	179195995	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	425211	179195995	1719265	2611	56442											
TBC1D9B	23061	broad.mit.edu	37	chr5	179302018	179302018	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgatgccctcatagaaaaaGcagtcgacgatgaccacggc	13	7	10	11	3	1	3	1	2	0	1	2	5	1	3	2	1	2	1	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:179302018G>A	uc003mlh.2	-	12	2107	c.2070C>T	c.(2068-2070)TGC>TGT	p.C690C	TBC1D9B_uc003mli.2_Silent_p.C690C|TBC1D9B_uc003mlj.2_Silent_p.C690C|TBC1D9B_uc011dgv.1_5'Flank	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	690	Rab-GAP TBC.					integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CATAGAAAAAGCAGTCGACGA	0.627													25	55					0	0	1	0	0		A	179302018	A	A	179302018	2	1	89	1	0	0	0	0	0	0	0	1	15653	963	34	2		2	TBC1D9B	5	179302018	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	106023	179302018	1613242	2612	56443											
RASGEF1C	255426	broad.mit.edu	37	chr5	179529139	179529139	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttcgtaagaagccaaataAagacctagacagaaaatgaa	20	7	7	7	1	0	5	0	1	0	4	1	5	0	5	2	0	1	1	2	0	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:179529139A>C	uc003mlq.2	-	12	1605	c.1308T>G	c.(1306-1308)CTT>CTG	p.L436L	RASGEF1C_uc003mlr.2_Silent_p.L436L|RASGEF1C_uc003mlp.3_Silent_p.L285L	NM_175062	NP_778232	Q8N431	RGF1C_HUMAN	RasGEF domain family, member 1C	436	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(89;3.44e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0242)|Medulloblastoma(196;0.00498)|all_neural(177;0.0137)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAGCCAAATAAAGACCTAGAC	0.363													22	36					0	0	1	0	0		C	179529139	C	C	179529139	2	2	89	1	0	0	0	0	0	0	0	1	13096	1	1	5		5	RASGEF1C	5	179529139	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	227121	179529139	1386121	2613	56444											
GFPT2	9945	broad.mit.edu	37	chr5	179743815	179743815	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaatcacgatgagccgtcgGcatcgtcgaatctccttcaa	10	9	8	14	5	3	1	2	1	1	0	7	3	3	1	3	1	1	1	3	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:179743815G>A	uc003mlw.1	-	12	1199	c.1101C>T	c.(1099-1101)TGC>TGT	p.C367C		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	367	SIS 1.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	TGAGCCGTCGGCATCGTCGAA	0.577													23	37					0	0	1	0	0		A	179743815	A	A	179743815	2	1	89	1	0	0	0	0	0	0	0	1	6361	1195	42	2		2	GFPT2	5	179743815	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	214676	179743815	1171445	2614	56445											
CNOT6	57472	broad.mit.edu	37	chr5	179994129	179994129	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacagtttttttctggtagaGctgaaagaacgtggctataa	12	14	10	5	1	1	3	0	1	1	2	1	3	1	3	0	2	3	4	0	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:179994129G>A	uc003mlx.2	+	8	1108	c.759G>A	c.(757-759)GAG>GAA	p.E253E	CNOT6_uc010jld.2_Silent_p.E253E|CNOT6_uc010jle.2_Silent_p.E248E	NM_015455	NP_056270	Q9ULM6	CNOT6_HUMAN	CCR4-NOT transcription complex, subunit 6	253					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	exonuclease activity|metal ion binding|protein binding|RNA binding				0	all_cancers(89;3.3e-05)|all_epithelial(37;7.38e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00543)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.023)		TTCTGGTAGAGCTGAAAGAAC	0.363													37	66					0	0	1	0	0		A	179994129	A	A	179994129	2	1	89	1	0	0	0	0	0	0	0	1	3625	962	34	2		2	CNOT6	5	179994129	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	250314	179994129	921131	2615	56446											
FLT4	2324	broad.mit.edu	37	chr5	180057603	180057603	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgtggtgccctcgatgcgtgCcttgatgtacttgtagtagc	5	13	13	10	3	0	1	0	1	0	0	1	2	0	1	2	1	5	3	2	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr5:180057603C>A	uc003mma.3	-	3	431	c.352G>T	c.(352-354)GCA>TCA	p.A118S	FLT4_uc003mlz.3_Missense_Mutation_p.A118S|FLT4_uc003mmb.1_5'Flank|FLT4_uc011dgy.1_Missense_Mutation_p.A118S|FLT4_uc011dgz.1_Missense_Mutation_p.A118S|FLT4_uc011dha.1_Missense_Mutation_p.A118S	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	118	Ig-like C2-type 1.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	TCGATGCGTGCCTTGATGTAC	0.642									Congenital_Hereditary_Lymphedema				21	39					8.10497e-08	8.54627e-08	1	1	0		A	180057603	A	A	180057603	3	1	89	1	0	0	0	0	1	0	0	0	5958	739	26	5	3859	5	FLT4	5	180057603	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	63474	180057603	857657	2616	56447											
IRF4	3662	broad.mit.edu	37	chr6	393249	393249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtggctgatcgaccagatcGacagcggcaagtaccccggg	10	5	14	12	4	0	2	0	1	0	1	2	4	0	2	3	3	2	3	3	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:393249G>A	uc003msz.3	+	2	210	c.97G>A	c.(97-99)GAC>AAC	p.D33N	IRF4_uc010jne.1_Missense_Mutation_p.D33N|IRF4_uc003mta.3_RNA|IRF4_uc003mtb.3_Missense_Mutation_p.D33N	NM_002460	NP_002451	Q15306	IRF4_HUMAN	interferon regulatory factor 4	33	IRF tryptophan pentad repeat.				interferon-gamma-mediated signaling pathway|positive regulation of interleukin-10 biosynthetic process|positive regulation of interleukin-13 biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of transcription, DNA-dependent|regulation of T-helper cell differentiation|T cell activation|type I interferon-mediated signaling pathway	cytoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1		Breast(5;0.0155)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.03)|BRCA - Breast invasive adenocarcinoma(62;0.0702)		CGACCAGATCGACAGCGGCAA	0.662			T	IGH@	MM 								3	10					0	0	1	0	0		A	393249	A	A	393249	3	1	89	1	0	0	0	0	1	0	0	0	7848	1058	37	1	99	1	IRF4	6	393249	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08		393249	170721818	2617	56448											
EXOC2	55770	broad.mit.edu	37	chr6	598085	598085	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatttatccagaagtaattCtcttaaagcttcaatccttg	13	15	4	9	0	2	1	1	0	1	1	5	1	4	1	2	0	1	2	2	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:598085C>A	uc003mtd.2	-	10	1143	c.1009G>T	c.(1009-1011)GAA>TAA	p.E337*	EXOC2_uc003mte.2_Nonsense_Mutation_p.E337*|EXOC2_uc011dho.1_Intron	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	337					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		AGAAGTAATTCTCTTAAAGCT	0.274													12	29					0.105934	0.10631	1	1	0		A	598085	A	A	598085	4	1	89	1	0	0	0	0	0	1	0	0	5310	922	32	5	1841	5	EXOC2	6	598085	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	204836	598085	170516982	2618	56449											
EXOC2	55770	broad.mit.edu	37	chr6	637805	637805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtcacaagggggggttgtCgtgatcgagacattgtgctt	7	11	16	7	3	1	2	1	1	0	1	3	3	1	2	0	4	1	2	0	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:637805C>T	uc003mtd.2	-	2	148	c.14G>A	c.(13-15)CGA>CAA	p.R5Q	EXOC2_uc003mte.2_Missense_Mutation_p.R5Q|EXOC2_uc011dho.1_Intron	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	5					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		GGGGGGTTGTCGTGATCGAGA	0.478													31	99					0	0	1	0	0		T	637805	T	T	637805	3	4	89	1	0	0	0	0	1	0	0	0	5310	884	31	1	2868	1	EXOC2	6	637805	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	39720	637805	170477262	2619	56450											
FOXC1	2296	broad.mit.edu	37	chr6	1610914	1610914	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccaaggacatggtgaaGccgccctatagctacatcgc	11	6	10	14	2	0	1	0	1	0	0	1	2	0	2	3	2	4	1	3	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:1610914G>T	uc003mtp.2	+	1	234	c.234G>T	c.(232-234)AAG>AAT	p.K78N		NM_001453	NP_001444	Q12948	FOXC1_HUMAN	forkhead box C1	78	Fork-head.				anti-apoptosis|artery morphogenesis|blood vessel remodeling|brain development|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|germ cell migration|glycosaminoglycan metabolic process|lacrimal gland development|lymphangiogenesis|metanephros development|negative regulation of mitotic cell cycle|neural crest cell fate commitment|Notch signaling pathway|odontogenesis of dentine-containing tooth|ossification|ovarian follicle development|paraxial mesodermal cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	nuclear heterochromatin|transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(93;0.0733)	all_cancers(2;4.45e-07)|all_epithelial(2;4.33e-05)|all_lung(73;0.0713)|all_hematologic(90;0.0895)		Epithelial(2;0.0904)|OV - Ovarian serous cystadenocarcinoma(45;0.095)|all cancers(2;0.168)		ACATGGTGAAGCCGCCCTATA	0.647													31	51					1.88708e-17	2.18811e-17	1	1	0		T	1610914	T	T	1610914	3	4	89	1	0	0	0	0	1	0	0	0	6008	962	34	5	236	5	FOXC1	6	1610914	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	973109	1610914	169504153	2620	56451											
MYLK4	340156	broad.mit.edu	37	chr6	2671570	2671570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcctgggcatcagagccacGattcttcttcttctagggaa	8	12	10	11	1	5	1	1	0	4	1	6	3	6	2	2	2	1	1	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:2671570G>A	uc003mty.3	-	12	1429	c.1132C>T	c.(1132-1134)CGT>TGT	p.R378C	MYLK4_uc003mtx.3_Missense_Mutation_p.R93C	NM_001012418	NP_001012418	Q86YV6	MYLK4_HUMAN	myosin light chain kinase family, member 4	378							ATP binding|protein serine/threonine kinase activity			breast(3)|ovary(1)	4	Ovarian(93;0.0412)	all_hematologic(90;0.0897)				TCAGAGCCACGATTCTTCTTC	0.473													9	41					0	0	1	0	0		A	2671570	A	A	2671570	3	1	89	1	0	0	0	0	1	0	0	0	10077	1058	37	1	38	1	MYLK4	6	2671570	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1060656	2671570	168443497	2621	56452											
WRNIP1	56897	broad.mit.edu	37	chr6	2770510	2770510	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatggtgactattttaatgCgagcgatcaactccctggga	11	11	10	9	2	1	1	1	1	0	0	2	4	2	2	1	2	3	0	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:2770510C>T	uc003mtz.2	+	3	1362	c.1171C>T	c.(1171-1173)CGA>TGA	p.R391*	WRNIP1_uc003mua.2_Nonsense_Mutation_p.R366*	NM_020135	NP_064520	Q96S55	WRIP1_HUMAN	Werner helicase interacting protein isoform 1	391					DNA replication|DNA synthesis involved in DNA repair|regulation of DNA-dependent DNA replication initiation	mitochondrion|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|DNA binding|metal ion binding|protein binding			ovary(1)|pancreas(1)	2	Ovarian(93;0.0412)	all_hematologic(90;0.0895)				TATTTTAATGCGAGCGATCAA	0.517													47	66					0	0	1	0	0		T	2770510	T	T	2770510	4	4	89	1	0	0	0	0	0	1	0	0	17429	760	27	1	1181	1	WRNIP1	6	2770510	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	98940	2770510	168344557	2622	56453											
SERPINB6	5269	broad.mit.edu	37	chr6	2948628	2948628	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcggcgcagaagcgggggacGaatctggcacaccgcatcat	10	5	14	12	5	2	1	1	0	1	1	3	3	2	2	1	4	1	3	1	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:2948628G>A	uc003muk.2	-	6	3030	c.1035C>T	c.(1033-1035)TTC>TTT	p.F345F	SERPINB6_uc003mui.2_Silent_p.F228F|SERPINB6_uc003muj.2_RNA|SERPINB6_uc003mul.2_Silent_p.F345F|SERPINB6_uc003mum.2_Silent_p.F345F|SERPINB6_uc003mun.2_Silent_p.F345F|SERPINB6_uc003muo.2_Silent_p.F345F	NM_004568	NP_004559	P35237	SPB6_HUMAN	serine (or cysteine) proteinase inhibitor, clade	345					regulation of proteolysis	centrosome|cytosol|protein complex	protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Drotrecogin alfa(DB00055)	AGCGGGGGACGAATCTGGCAC	0.582													23	57					0	0	1	0	0		A	2948628	A	A	2948628	2	1	89	1	0	0	0	0	0	0	0	1	14130	1049	37	1		1	SERPINB6	6	2948628	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	178118	2948628	168166439	2623	56454											
C6orf146	222826	broad.mit.edu	37	chr6	4069760	4069760	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgaaaggttcctcaacatTttttattgtttctggcttca	8	18	8	7	0	3	1	2	1	1	0	4	1	4	1	1	3	1	3	1	3	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:4069760T>G	uc003mvx.2	-	7	1037	c.697A>C	c.(697-699)AAT>CAT	p.N233H	C6orf146_uc010jnq.1_Intron|C6orf146_uc003mvy.2_Missense_Mutation_p.N170H	NM_173563	NP_775834	Q8IXS0	CF146_HUMAN	hypothetical protein LOC222826	233										ovary(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				TCCTCAACATTTTTTATTGTT	0.378													10	118					0	0	1	0	0		G	4069760	G	G	4069760	3	3	89	1	0	0	0	0	1	0	0	0	2338	1841	64	5	833	5	C6orf146	6	4069760	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1121132	4069760	167045307	2624	56455											
CDYL	9425	broad.mit.edu	37	chr6	4954278	4954278	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtacttgcagaggaagatCgatgagttctgagtgtcggg	11	10	15	5	2	1	4	0	2	1	2	3	6	1	5	0	2	2	3	0	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:4954278C>T	uc003mwi.2	+	9	1916	c.1785C>T	c.(1783-1785)ATC>ATT	p.I595I	CDYL_uc003mwj.2_Silent_p.I541I|CDYL_uc003mwk.2_Silent_p.I306I|CDYL_uc011dhx.1_Silent_p.I409I|CDYL_uc011dhy.1_Silent_p.I409I	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	595					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		AGAGGAAGATCGATGAGTTCT	0.577													7	35					0	0	1	0	0		T	4954278	T	T	4954278	2	4	89	1	0	0	0	0	0	0	0	1	3188	874	31	1		1	CDYL	6	4954278	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	884518	4954278	166160789	2625	56456											
F13A1	2162	broad.mit.edu	37	chr6	6167838	6167838	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccggcttggatcagcacCgcctctttcttgactagtag	6	12	10	13	3	3	1	1	1	2	0	4	2	3	2	3	2	1	3	3	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:6167838C>T	uc003mwv.2	-	13	1884	c.1761G>A	c.(1759-1761)GCG>GCA	p.A587A	F13A1_uc011dib.1_Silent_p.A524A	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	587					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	GGATCAGCACCGCCTCTTTCT	0.527													11	31					0	0	1	0	0		T	6167838	T	T	6167838	2	4	89	1	0	0	0	0	0	0	0	1	5348	639	23	1		1	F13A1	6	6167838	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1213560	6167838	164947229	2626	56457											
F13A1	2162	broad.mit.edu	37	chr6	6225075	6225075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatccaacgaggacaccttCgtcatctttggcattcacct	9	11	8	13	2	3	0	2	0	1	0	5	3	4	2	3	3	1	1	3	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:6225075C>T	uc003mwv.2	-	7	940	c.817G>A	c.(817-819)GAA>AAA	p.E273K	F13A1_uc011dib.1_Missense_Mutation_p.E210K	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	273					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	AGGACACCTTCGTCATCTTTG	0.498													30	70					0	0	1	0	0		T	6225075	T	T	6225075	3	4	89	1	0	0	0	0	1	0	0	0	5348	893	31	1	1417	1	F13A1	6	6225075	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	57237	6225075	164889992	2627	56458											
CAGE1	285782	broad.mit.edu	37	chr6	7373574	7373574	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggttttccttttcaagtTtctggaattcctcctgtaaa	8	17	6	10	0	2	0	1	0	1	0	5	1	5	1	4	2	0	3	4	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:7373574T>G	uc003mxi.2	-	4	1791	c.1070A>C	c.(1069-1071)AAA>ACA	p.K357T	CAGE1_uc003mxh.2_RNA|CAGE1_uc003mxj.2_Missense_Mutation_p.K248T|CAGE1_uc003mxk.1_Missense_Mutation_p.K248T	NM_205864	NP_995586	Q8TC20	CAGE1_HUMAN	cancer antigen 1	493	Potential.										0	Ovarian(93;0.0418)					CTTTTCAAGTTTCTGGAATTC	0.378													9	27					0	0	1	0	0		G	7373574	G	G	7373574	3	3	89	1	0	0	0	0	1	0	0	0	2575	1841	64	5	1187	5	CAGE1	6	7373574	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1148499	7373574	163741493	2628	56459											
RIOK1	83732	broad.mit.edu	37	chr6	7405486	7405486	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttccttctgacagatttCtttatgaggcacagtgttgc	7	18	8	8	0	2	3	0	2	2	1	3	3	3	3	1	1	1	2	1	1	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:7405486C>A	uc003mxn.2	+	12	1275	c.1101C>A	c.(1099-1101)TTC>TTA	p.F367L	RIOK1_uc003mxo.2_Missense_Mutation_p.F126L	NM_031480	NP_113668	Q9BRS2	RIOK1_HUMAN	RIO kinase 1 isoform 1	367	Protein kinase.						ATP binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|skin(1)	4	Ovarian(93;0.0418)					TGACAGATTTCTTTATGAGGC	0.363													17	37					4.75885e-15	5.40475e-15	1	1	0		A	7405486	A	A	7405486	3	1	89	1	0	0	0	0	1	0	0	0	13402	912	32	5	1147	5	RIOK1	6	7405486	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	31912	7405486	163709581	2629	56460											
RIOK1	83732	broad.mit.edu	37	chr6	7411600	7411600	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatattcctagaaccttgaaTgaagtgaaaaattatgagag	17	12	8	4	0	0	5	0	4	0	2	1	6	1	5	2	0	1	0	2	0	9	6	rs138618030		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:7411600T>C	uc003mxn.2	+	14	1479	c.1305T>C	c.(1303-1305)AAT>AAC	p.N435N	RIOK1_uc003mxo.2_Silent_p.N194N	NM_031480	NP_113668	Q9BRS2	RIOK1_HUMAN	RIO kinase 1 isoform 1	435	Protein kinase.						ATP binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|skin(1)	4	Ovarian(93;0.0418)					GAACCTTGAATGAAGTGAAAA	0.358													37	64					0	0	1	0	0		C	7411600	C	C	7411600	2	2	89	1	0	0	0	0	0	0	0	1	13402	1461	51	3		3	RIOK1	6	7411600	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6114	7411600	163703467	2630	56461											
DSP	1832	broad.mit.edu	37	chr6	7575554	7575554	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatgacttgaacttgaaGaagtcgttgttggccactat	14	12	9	6	1	0	4	0	3	0	1	1	4	0	4	1	1	1	2	1	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:7575554G>T	uc003mxp.1	+	18	2742	c.2463G>T	c.(2461-2463)AAG>AAT	p.K821N	DSP_uc003mxq.1_Missense_Mutation_p.K821N	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	821	Globular 1.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TGAACTTGAAGAAGTCGTTGT	0.388													38	89					3.33393e-15	3.79275e-15	1	1	0		T	7575554	T	T	7575554	3	4	89	1	0	0	0	0	1	0	0	0	4787	933	33	5	2533	5	DSP	6	7575554	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	163954	7575554	163539513	2631	56462											
DSP	1832	broad.mit.edu	37	chr6	7584004	7584004	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatccccgagatagtcagaAaaactttgtggatccagtca	13	10	9	9	1	2	3	2	1	0	2	4	5	4	4	3	1	1	0	3	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:7584004A>C	uc003mxp.1	+	24	6788	c.6509A>C	c.(6508-6510)AAA>ACA	p.K2170T	DSP_uc003mxq.1_Missense_Mutation_p.K1571T	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2170	Plectin 5.|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GATAGTCAGAAAAACTTTGTG	0.473													32	72					0	0	1	0	0		C	7584004	C	C	7584004	3	2	89	1	0	0	0	0	1	0	0	0	4787	14	1	5	6603	5	DSP	6	7584004	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	8450	7584004	163531063	2632	56463											
GCM2	9247	broad.mit.edu	37	chr6	10876691	10876691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctacctgaaaaaagatcGcgttgccatcaagccgccaa	14	6	8	13	3	1	2	1	1	0	1	2	3	1	2	5	0	3	1	5	0	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:10876691G>A	uc003mzn.3	-	3	515	c.443C>T	c.(442-444)GCG>GTG	p.A148V	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	148	GCM.				cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				AAAAAAGATCGCGTTGCCATC	0.498													18	36					0	0	1	0	0		A	10876691	A	A	10876691	3	1	89	1	0	0	0	0	1	0	0	0	6313	1087	38	1	1089	1	GCM2	6	10876691	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3292687	10876691	160238376	2633	56464											
ERVFRDE1	405754	broad.mit.edu	37	chr6	11104843	11104843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcccaaaaaagagaatttCgagtttggtccaatagaacc	15	11	7	8	1	0	2	0	0	0	2	3	4	2	2	3	1	1	1	3	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:11104843C>T	uc003mzt.2	-	2	1071	c.701G>A	c.(700-702)CGA>CAA	p.R234Q	LOC221710_uc003mzr.2_Intron|LOC221710_uc011dio.1_Intron	NM_207582	NP_997465	P60508	EFRD1_HUMAN	syncytin 2	234	Extracellular (Potential).					integral to membrane|plasma membrane|virion					0						aagagaatttcgagttTGGTC	0.219													16	40					0	0	1	0	0		T	11104843	T	T	11104843	3	4	89	1	0	0	0	0	1	0	0	0	5254	884	31	1	919	1	ERVFRDE1	6	11104843	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	228152	11104843	160010224	2634	56465											
HIVEP1	3096	broad.mit.edu	37	chr6	12120209	12120209	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagctgagaatcacctgaaaAaaataccaaaatccccactg	18	7	5	11	0	1	2	1	2	0	1	2	3	2	2	4	0	2	1	4	0	8	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:12120209A>C	uc003nac.2	+	4	360	c.181A>C	c.(181-183)AAA>CAA	p.K61Q	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	61					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				TCACCTGAAAAAAATACCAAA	0.398													53	101					0	0	1	0	0		C	12120209	C	C	12120209	3	2	89	1	0	0	0	0	1	0	0	0	7202	15	1	5	191	5	HIVEP1	6	12120209	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1015366	12120209	158994858	2635	56466											
HIVEP1	3096	broad.mit.edu	37	chr6	12120319	12120319	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggagtctcacaagaaacaGaattatattcctgtaaaaaa	18	10	6	7	1	1	2	1	0	1	2	4	3	2	3	1	1	1	1	1	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:12120319G>T	uc003nac.2	+	4	470	c.291G>T	c.(289-291)CAG>CAT	p.Q97H	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	97					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				ACAAGAAACAGAATTATATTC	0.388													50	84					1.0442e-30	1.27806e-30	1	1	0		T	12120319	T	T	12120319	3	4	89	1	0	0	0	0	1	0	0	0	7202	933	33	5	301	5	HIVEP1	6	12120319	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	110	12120319	158994748	2636	56467											
HIVEP1	3096	broad.mit.edu	37	chr6	12121176	12121176	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactcatgttgcctctgttgTtaatcaaagcgtagagcaaa	13	12	8	8	1	3	1	2	0	1	1	3	1	3	1	1	0	4	5	1	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:12121176T>G	uc003nac.2	+	4	1327	c.1148T>G	c.(1147-1149)GTT>GGT	p.V383G	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	383					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				GCCTCTGTTGTTAATCAAAGC	0.393													86	159					0	0	1	0	0		G	12121176	G	G	12121176	3	3	89	1	0	0	0	0	1	0	0	0	7202	1725	60	5	1158	5	HIVEP1	6	12121176	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	857	12121176	158993891	2637	56468											
HIVEP1	3096	broad.mit.edu	37	chr6	12122667	12122667	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctatgatgatgtctttgTatcgggacctaacgctcctg	7	16	9	9	2	2	2	0	2	2	0	4	3	3	3	2	1	1	2	2	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:12122667T>C	uc003nac.2	+	4	2818	c.2639T>C	c.(2638-2640)GTA>GCA	p.V880A	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	880					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				GATGTCTTTGTATCGGGACCT	0.443													49	98					0	0	1	0	0		C	12122667	C	C	12122667	3	2	89	1	0	0	0	0	1	0	0	0	7202	1638	57	3	2649	3	HIVEP1	6	12122667	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1491	12122667	158992400	2638	56469											
JARID2	3720	broad.mit.edu	37	chr6	15501389	15501389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaggagatcctggagaagCgcaaggggccgctggaaggc	12	3	18	8	2	0	3	0	0	0	3	1	6	1	4	2	6	1	2	2	6	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:15501389C>T	uc003nbj.2	+	8	2441	c.2197C>T	c.(2197-2199)CGC>TGC	p.R733C	JARID2_uc011div.1_Missense_Mutation_p.R561C|JARID2_uc011diw.1_Missense_Mutation_p.R695C	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	733					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				CCTGGAGAAGCGCAAGGGGCC	0.637													44	114					0	0	1	0	0		T	15501389	T	T	15501389	3	4	89	1	0	0	0	0	1	0	0	0	7961	768	27	1	2227	1	JARID2	6	15501389	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3378722	15501389	155613678	2639	56470											
GMPR	2766	broad.mit.edu	37	chr6	16274705	16274705	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctttccggagcagatatCatcaaagtgggagttggacc	11	11	11	8	1	3	1	2	0	1	1	4	4	4	4	2	3	1	2	2	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:16274705C>A	uc003nbs.2	+	5	639	c.525C>A	c.(523-525)ATC>ATA	p.I175I		NM_006877	NP_006868	P36959	GMPR1_HUMAN	guanosine monophosphate reductase	175					nucleotide metabolic process|purine base metabolic process|purine-containing compound salvage|response to cold	cytosol	GMP reductase activity|metal ion binding			ovary(1)	1	Breast(50;0.0427)|Ovarian(93;0.103)	all_hematologic(90;0.0895)				GAGCAGATATCATCAAAGTGG	0.493													17	38					9.16793e-09	9.77785e-09	1	1	0		A	16274705	A	A	16274705	2	1	89	1	0	0	0	0	0	0	0	1	6511	816	29	5		5	GMPR	6	16274705	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	773316	16274705	154840362	2640	56471											
NUP153	9972	broad.mit.edu	37	chr6	17648090	17648090	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttacgattggagatgaaAatttaaacatgggactgcca	15	12	9	5	1	0	2	0	1	0	1	0	5	0	3	1	2	3	0	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:17648090A>C	uc003ncd.1	-	13	1780	c.1580T>G	c.(1579-1581)TTT>TGT	p.F527C	NUP153_uc011dje.1_Missense_Mutation_p.F558C|NUP153_uc010jpl.1_Missense_Mutation_p.F527C	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	527					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			TGGAGATGAAAATTTAAACAT	0.338													49	96					0	0	1	0	0		C	17648090	C	C	17648090	3	2	89	1	0	0	0	0	1	0	0	0	10774	14	1	5	2887	5	NUP153	6	17648090	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1373385	17648090	153466977	2641	56472											
DEK	7913	broad.mit.edu	37	chr6	18256686	18256686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attcttctttaatgaggacaCctgaaaatgttccttattat	12	17	5	7	0	2	2	0	2	2	0	3	3	3	3	2	1	0	1	2	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:18256686C>T	uc003ncr.1	-	5	551	c.358G>A	c.(358-360)GTG>ATG	p.V120M	DEK_uc011djf.1_Missense_Mutation_p.V86M|DEK_uc011djg.1_RNA	NM_003472	NP_003463	P35659	DEK_HUMAN	DEK oncogene isoform 1	120					chromatin modification|regulation of transcription from RNA polymerase II promoter|signal transduction|transcription from RNA polymerase II promoter|viral genome replication	nucleus	DNA binding|histone binding			kidney(1)	1	Ovarian(93;0.00769)|Breast(50;0.0495)	all_hematologic(90;0.053)	OV - Ovarian serous cystadenocarcinoma(7;0.00291)|all cancers(50;0.031)|Epithelial(50;0.0332)			AATGAGGACACCTGAAAATGT	0.308			T	NUP214	AML								17	35					0	0	1	0	0		T	18256686	T	T	18256686	3	4	89	1	0	0	0	0	1	0	0	0	4430	521	18	4	797	4	DEK	6	18256686	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	608596	18256686	152858381	2642	56473											
MBOAT1	154141	broad.mit.edu	37	chr6	20118675	20118675	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcatacactcacctcaattTtccagatgtttaggttcgaa	12	13	6	10	1	2	1	2	0	0	1	4	2	3	1	2	1	2	3	2	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:20118675T>G	uc003ncx.1	-	9	1209	c.1004A>C	c.(1003-1005)AAA>ACA	p.K335T	MBOAT1_uc011dji.1_Missense_Mutation_p.K186T	NM_001080480	NP_001073949	Q6ZNC8	MBOA1_HUMAN	membrane bound O-acyltransferase domain	335					phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(95;0.244)|Breast(50;0.0379)|Ovarian(93;0.0473)|all_epithelial(95;0.109)		OV - Ovarian serous cystadenocarcinoma(7;0.00392)|all cancers(50;0.0117)|Epithelial(50;0.0454)			CACCTCAATTTTCCAGATGTT	0.423													5	63					0	0	1	0	0		G	20118675	G	G	20118675	3	3	89	1	0	0	0	0	1	0	0	0	9374	1841	64	5	503	5	MBOAT1	6	20118675	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1861989	20118675	150996392	2643	56474											
E2F3	1871	broad.mit.edu	37	chr6	20480168	20480168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaaggaagagctgcactacGaagtccagatagtccaaaaa	18	5	9	9	1	0	2	0	0	0	2	2	4	2	3	2	1	3	2	2	1	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:20480168G>A	uc003nda.2	+	2	812	c.485G>A	c.(484-486)CGA>CAA	p.R162Q	E2F3_uc003ncz.2_Missense_Mutation_p.R162Q	NM_001949	NP_001940	O00716	E2F3_HUMAN	E2F transcription factor 3	162	Potential.				G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(95;0.154)|all_epithelial(95;0.0585)|Breast(50;0.146)|Ovarian(93;0.148)		OV - Ovarian serous cystadenocarcinoma(7;0.0068)|all cancers(50;0.0148)|Epithelial(50;0.0562)			GCTGCACTACGAAGTCCAGAT	0.453													11	20					0	0	1	0	0		A	20480168	A	A	20480168	3	1	89	1	0	0	0	0	1	0	0	0	4874	1058	37	1	491	1	E2F3	6	20480168	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	361493	20480168	150634899	2644	56475											
E2F3	1871	broad.mit.edu	37	chr6	20483077	20483077	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accgagctcagtcaggaagaGaagaaattagatgaactgat	17	7	11	6	1	2	5	2	2	0	3	2	8	2	6	1	1	2	1	1	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:20483077G>A	uc003nda.2	+	4	1137	c.810G>A	c.(808-810)GAG>GAA	p.E270E	E2F3_uc003ncz.2_Silent_p.E264E	NM_001949	NP_001940	O00716	E2F3_HUMAN	E2F transcription factor 3	270	Dimerization (Potential).				G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(95;0.154)|all_epithelial(95;0.0585)|Breast(50;0.146)|Ovarian(93;0.148)		OV - Ovarian serous cystadenocarcinoma(7;0.0068)|all cancers(50;0.0148)|Epithelial(50;0.0562)			GTCAGGAAGAGAAGAAATTAG	0.502													20	63					0	0	1	0	0		A	20483077	A	A	20483077	2	1	89	1	0	0	0	0	0	0	0	1	4874	933	33	4		4	E2F3	6	20483077	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2909	20483077	150631990	2645	56476											
NRSN1	140767	broad.mit.edu	37	chr6	24145834	24145834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attgactgttctggcagtggGctttcttgtgccccccaaaa	7	13	10	11	0	2	1	0	1	2	0	2	1	2	1	3	2	1	3	3	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:24145834G>A	uc010jpq.1	+	4	485	c.248G>A	c.(247-249)GGC>GAC	p.G83D		NM_080723	NP_542454	Q8IZ57	NRSN1_HUMAN	neurensin 1	83	Helical; (Potential).				nervous system development	growth cone|integral to membrane|neuronal cell body|transport vesicle					0						CTGGCAGTGGGCTTTCTTGTG	0.478													47	79					0	0	1	0	0		A	24145834	A	A	24145834	3	1	89	1	0	0	0	0	1	0	0	0	10681	1203	42	2	254	2	NRSN1	6	24145834	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3662757	24145834	146969233	2646	56477											
GPLD1	2822	broad.mit.edu	37	chr6	24489651	24489651	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accagtacttacctatttctAcgtgtgttgaaaggccacac	11	12	7	11	1	1	1	0	1	1	0	1	1	1	1	3	1	3	2	3	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:24489651A>G	uc003ned.1	-	1	200	c.89T>C	c.(88-90)GTA>GCA	p.V30A	GPLD1_uc010jps.1_Missense_Mutation_p.V30A|GPLD1_uc003nee.2_Missense_Mutation_p.V30A	NM_001503	NP_001494	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific	30						extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3						ACCTATTTCTACGTGTGTTGA	0.458													23	46					0	0	1	0	0		G	24489651	G	G	24489651	3	3	89	1	0	0	0	0	1	0	0	0	6629	391	14	3	2574	3	GPLD1	6	24489651	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	343817	24489651	146625416	2647	56478											
KIAA0319	9856	broad.mit.edu	37	chr6	24596714	24596714	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtcacagctggacaggTcacagcaagcggccgtgcag	10	4	14	13	2	2	0	2	0	0	0	2	1	2	1	2	4	4	3	2	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:24596714T>C	uc011djo.1	-	3	425	c.188A>G	c.(187-189)GAC>GGC	p.D63G	KIAA0319_uc011djp.1_Missense_Mutation_p.D18G|KIAA0319_uc003neh.1_Missense_Mutation_p.D63G|KIAA0319_uc011djq.1_Missense_Mutation_p.D54G|KIAA0319_uc011djr.1_Missense_Mutation_p.D63G	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	63	MANSC.|Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						GCTGGACAGGTCACAGCAAGC	0.567													24	50					0	0	1	0	0		C	24596714	C	C	24596714	3	2	89	1	0	0	0	0	1	0	0	0	8184	1667	58	3	3106	3	KIAA0319	6	24596714	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	107063	24596714	146518353	2648	56479											
GMNN	51053	broad.mit.edu	37	chr6	24784681	24784681	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtaatacagcttcataaaGaaattgaacaaaaggacaat	21	9	6	5	0	1	2	1	1	0	1	1	3	1	3	0	1	3	2	0	1	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:24784681G>T	uc003nem.2	+	6	574	c.367G>T	c.(367-369)GAA>TAA	p.E123*	GMNN_uc003nen.2_Nonsense_Mutation_p.E123*	NM_015895	NP_056979	O75496	GEMI_HUMAN	geminin	123	|Necessary and sufficient for interaction with IDAS.				M/G1 transition of mitotic cell cycle|negative regulation of cell cycle|negative regulation of DNA replication|negative regulation of transcription, DNA-dependent	cytosol|nucleoplasm	histone deacetylase binding			ovary(1)	1						GCTTCATAAAGAAATTGAACA	0.338													10	46					4.68919e-08	4.95982e-08	1	1	0		T	24784681	T	T	24784681	4	4	89	1	0	0	0	0	0	1	0	0	6508	943	33	5	385	5	GMNN	6	24784681	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	187967	24784681	146330386	2649	56480											
SCGN	10590	broad.mit.edu	37	chr6	25682209	25682209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgacagaaataaagatggtCggttggatctaaatgactta	15	12	10	4	1	1	4	0	2	1	2	2	5	1	5	0	3	0	1	0	3	6	5	rs148850055	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:25682209C>T	uc003nfb.2	+	7	705	c.502C>T	c.(502-504)CGG>TGG	p.R168W	SCGN_uc010jpz.2_Intron	NM_006998	NP_008929	O76038	SEGN_HUMAN	secretagogin precursor	168	4 (Potential).|EF-hand 4.					extracellular region|transport vesicle membrane	calcium ion binding			ovary(2)|pancreas(1)	3						TAAAGATGGTCGGTTGGATCT	0.338													13	47					0	0	1	0	0		T	25682209	T	T	25682209	3	4	89	1	0	0	0	0	1	0	0	0	13928	875	31	1	528	1	SCGN	6	25682209	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	897528	25682209	145432858	2650	56481											
HFE	3077	broad.mit.edu	37	chr6	26092943	26092943	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaggtgacacatcatgTgacctcttcagtgaccactc	10	10	10	11	0	3	4	2	4	1	0	4	4	3	4	2	2	0	0	2	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:26092943T>C	uc003nfx.1	+	4	807	c.647T>C	c.(646-648)GTG>GCG	p.V216A	HFE_uc003nfy.1_Missense_Mutation_p.V193A|HFE_uc010jqe.1_Intron|HFE_uc003nfz.1_Missense_Mutation_p.V128A|HFE_uc003ngd.1_Intron|HFE_uc003nga.1_Intron|HFE_uc003ngb.1_Intron|HFE_uc003ngc.1_Missense_Mutation_p.V124A|HFE_uc003nge.1_Missense_Mutation_p.V36A|HFE_uc003ngf.1_Intron	NM_000410	NP_000401	Q30201	HFE_HUMAN	hemochromatosis protein isoform 1 precursor	216	Alpha-3.|Ig-like C1-type.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|cellular iron ion homeostasis|immune response|iron ion transport|protein complex assembly|receptor-mediated endocytosis	apical part of cell|basal part of cell|cytoplasmic vesicle|early endosome|integral to plasma membrane|MHC class I protein complex|perinuclear region of cytoplasm|recycling endosome	protein binding				0						ACACATCATGTGACCTCTTCA	0.512									Hemochromatosis				56	118					0	0	1	0	0		C	26092943	C	C	26092943	3	2	89	1	0	0	0	0	1	0	0	0	7097	1696	59	3	661	3	HFE	6	26092943	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	410734	26092943	145022124	2651	56482											
HIST1H1E	3008	broad.mit.edu	37	chr6	26157150	26157150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagcccgaaaaaggcgaaaGcagccaagccaaaaaaggcg	20	0	11	10	3	0	0	0	0	0	0	0	2	0	0	3	2	4	1	3	2	8	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:26157150G>A	uc003ngq.2	+	1	592	c.532G>A	c.(532-534)GCA>ACA	p.A178T	HIST1H2BD_uc003ngr.2_5'Flank|HIST1H2BD_uc003ngs.2_5'Flank	NM_005321	NP_005312	P10412	H14_HUMAN	histone cluster 1, H1e	178					nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			large_intestine(1)|ovary(1)	2						AAAGGCGAAAGCAGCCAAGCC	0.582													8	18					0	0	1	0	0		A	26157150	A	A	26157150	3	1	89	1	0	0	0	0	1	0	0	0	7142	971	34	2	534	2	HIST1H1E	6	26157150	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	64207	26157150	144957917	2652	56483											
HIST1H3F	8968	broad.mit.edu	37	chr6	26250748	26250748	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaccggtggctggcgcgCttttgcgagccgccttagtg	3	9	15	14	6	0	0	0	0	0	0	0	1	0	0	4	3	2	2	4	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:26250748C>A	uc003nhg.1	-	1	88	c.86G>T	c.(85-87)AGC>ATC	p.S29I	HIST1H2BH_uc003nhh.2_5'Flank	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	29					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0						GGCTGGCGCGCTTTTGCGAGC	0.607													30	87					3.73148e-12	4.12027e-12	1	1	0		A	26250748	A	A	26250748	3	1	89	1	0	0	0	0	1	0	0	0	7176	797	28	5	328	5	HIST1H3F	6	26250748	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	93598	26250748	144864319	2653	56484											
BTN3A2	11118	broad.mit.edu	37	chr6	26373510	26373510	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttattttccagagagccTccaggaggaactcagtaagt	11	11	11	8	0	1	1	1	0	0	1	3	4	3	3	3	3	2	2	3	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:26373510T>C	uc010jqh.1	+	7	1182	c.923T>C	c.(922-924)CTC>CCC	p.L308P	BTN3A2_uc003nho.1_Missense_Mutation_p.L306P|BTN3A2_uc003nhp.2_Missense_Mutation_p.L308P|BTN3A2_uc011dkd.1_Missense_Mutation_p.L266P|BTN3A2_uc011dke.1_Missense_Mutation_p.L285P|BTN3A2_uc010jqi.1_Missense_Mutation_p.L306P	NM_007047	NP_008978	P78410	BT3A2_HUMAN	butyrophilin, subfamily 3, member A2 precursor	308	Cytoplasmic (Potential).|Potential.					integral to membrane					0						CCAGAGAGCCTCCAGGAGGAA	0.398													11	96					0	0	1	0	0		C	26373510	C	C	26373510	3	2	89	1	0	0	0	0	1	0	0	0	1566	1551	54	3	941	3	BTN3A2	6	26373510	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	122762	26373510	144741557	2654	56485											
ZSCAN16	80345	broad.mit.edu	37	chr6	28097700	28097700	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcttattagacatcaaaGaattcataccgcaaataaac	18	10	4	9	1	3	2	2	0	1	2	3	2	3	2	1	0	3	2	1	0	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:28097700G>T	uc003nkm.2	+	4	1119	c.1019G>T	c.(1018-1020)AGA>ATA	p.R340I	uc010jqw.1_Intron|uc003nkk.1_Intron|uc003nkl.1_Intron	NM_025231	NP_079507	Q9H4T2	ZSC16_HUMAN	zinc finger and SCAN domain containing 16	340	C2H2-type 4.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)	1						AGACATCAAAGAATTCATACC	0.363													15	30					1.3612e-06	1.41942e-06	1	1	0		T	28097700	T	T	28097700	3	4	89	1	0	0	0	0	1	0	0	0	18254	942	33	5	1029	5	ZSCAN16	6	28097700	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1724190	28097700	143017367	2655	56486											
ZNF323	64288	broad.mit.edu	37	chr6	28297521	28297521	+	Translation_Start_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagggataactgtgatttaaAattttctgatttaatcttcc	13	17	6	5	0	2	2	0	2	2	0	3	3	3	3	1	1	1	0	1	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:28297521A>C	uc003nla.2	-	2	340	c.-60T>G	c.(-62--58)ATTTT>ATGTT		ZNF323_uc003nld.2_Intron|ZNF323_uc010jra.2_Intron|ZNF323_uc003nlb.2_Intron|ZNF323_uc010jrb.2_Intron|ZNF323_uc003nlc.2_Translation_Start_Site	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323						viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TGTGATTTAAAATTTTCTGAT	0.338													19	37					0	0	1	0	0		C	28297521	C	C	28297521	1	2	89	1	0	0	0	0	0	0	0	0	17868	29	1	5		5	ZNF323	6	28297521	Translation_Start_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	199821	28297521	142817546	2656	56487											
GPX5	2880	broad.mit.edu	37	chr6	28499606	28499606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctatggtctagttgtgttggGctttccctgcaaccaatttg	6	16	10	9	0	1	0	0	0	1	0	2	0	2	0	2	2	2	4	2	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:28499606G>A	uc003nll.2	+	3	295	c.293G>A	c.(292-294)GGC>GAC	p.G98D	GPX5_uc003nlm.2_Intron|GPX5_uc003nln.2_Intron	NM_001509	NP_001500	O75715	GPX5_HUMAN	glutathione peroxidase 5 isoform 1 precursor	98					lipid metabolic process|response to oxidative stress	extracellular region	glutathione peroxidase activity			skin(1)	1					Glutathione(DB00143)	GTTGTGTTGGGCTTTCCCTGC	0.473													92	179					0	0	1	0	0		A	28499606	A	A	28499606	3	1	89	1	0	0	0	0	1	0	0	0	6759	1203	42	2	303	2	GPX5	6	28499606	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	202085	28499606	142615461	2657	56488											
SCAND3	114821	broad.mit.edu	37	chr6	28540442	28540442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaacactaagagttcatttCgtatttcaaacattcttgac	14	14	5	8	1	3	2	2	1	1	1	4	3	3	2	0	0	2	2	0	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:28540442C>T	uc003nlo.2	-	4	3842	c.3224G>A	c.(3223-3225)CGA>CAA	p.R1075Q		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	1075					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						gagttcatttcgtatttcaaa	0													33	68					0	0	1	0	0		T	28540442	T	T	28540442	3	4	89	1	0	0	0	0	1	0	0	0	13901	884	31	1	757	1	SCAND3	6	28540442	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	40836	28540442	142574625	2658	56489											
SCAND3	114821	broad.mit.edu	37	chr6	28541080	28541080	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggtacctgagctaccttCtttgctgcagattcacccaa	9	12	8	12	0	2	2	1	1	1	1	2	2	2	2	3	1	5	4	3	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:28541080C>A	uc003nlo.2	-	4	3204	c.2586G>T	c.(2584-2586)AAG>AAT	p.K862N		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	862					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						gagctaccttctttgctgcag	0													61	107					8.13277e-46	1.01083e-45	1	1	0		A	28541080	A	A	28541080	3	1	89	1	0	0	0	0	1	0	0	0	13901	912	32	5	1395	5	SCAND3	6	28541080	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	638	28541080	142573987	2659	56490											
SCAND3	114821	broad.mit.edu	37	chr6	28541478	28541478	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccgagtgaaactagcatGaactcttttggttttccctt	8	17	7	9	1	1	2	0	2	1	0	3	3	3	2	2	1	3	2	2	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:28541478G>T	uc003nlo.2	-	4	2806	c.2188C>A	c.(2188-2190)CAT>AAT	p.H730N		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	730					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						aaactagcatgaactcttttg	0													16	39					1.15088e-07	1.20949e-07	1	1	0		T	28541478	T	T	28541478	3	4	89	1	0	0	0	0	1	0	0	0	13901	1290	45	5	1793	5	SCAND3	6	28541478	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	398	28541478	142573589	2660	56491											
OR11A1	26531	broad.mit.edu	37	chr6	29394947	29394947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagggccacaaccagtcCatctaccacaaatccagaga	15	4	6	16	0	1	1	0	0	1	1	3	2	3	1	6	1	2	0	6	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:29394947C>T	uc003nmg.2	-	1	563	c.472G>A	c.(472-474)GGA>AGA	p.G158R		NM_013937	NP_039225	Q9GZK7	O11A1_HUMAN	olfactory receptor, family 11, subfamily A,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACAACCAGTCCATCTACCACA	0.567													33	37					0	0	1	0	0		T	29394947	T	T	29394947	3	4	89	1	0	0	0	0	1	0	0	0	10943	603	21	4	479	4	OR11A1	6	29394947	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	853469	29394947	141720120	2661	56492											
OR10C1	442194	broad.mit.edu	37	chr6	29408578	29408578	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttatctatattcgccctaaGgccagctacgatccggccac	9	11	7	14	3	1	0	0	0	1	0	3	1	2	0	4	2	2	1	4	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:29408578G>A	uc011dlp.1	+	1	786	c.786G>A	c.(784-786)AAG>AAA	p.K262K	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTCGCCCTAAGGCCAGCTACG	0.587													90	197					0	0	1	0	0		A	29408578	A	A	29408578	2	1	89	1	0	0	0	0	0	0	0	1	10917	991	35	4		4	OR10C1	6	29408578	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13631	29408578	141706489	2662	56493											
MAS1L	116511	broad.mit.edu	37	chr6	29455512	29455512	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatatgtatggtttcattCgtctcattttgaagaaagac	11	16	8	6	1	2	3	2	1	1	2	4	3	2	3	0	1	1	3	0	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:29455512C>A	uc011dlq.1	-	1	168	c.168G>T	c.(166-168)ACG>ACT	p.T56T		NM_052967	NP_443199	P35410	MAS1L_HUMAN	MAS1 oncogene-like	56	Extracellular (Potential).					cytoplasm|integral to membrane|nucleus|plasma membrane	G-protein coupled receptor activity			ovary(7)|lung(2)	9						TGGTTTCATTCGTCTCATTTT	0.522													27	54					1.77063e-15	2.01907e-15	1	1	0		A	29455512	A	A	29455512	2	1	89	1	0	0	0	0	0	0	0	1	9339	871	31	5		5	MAS1L	6	29455512	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	46934	29455512	141659555	2663	56494											
OR2H2	7932	broad.mit.edu	37	chr6	29556646	29556646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggggaaggaaatggggCtcacacaaagctgagggaga	13	5	17	6	0	1	2	1	1	0	1	1	5	1	4	0	6	2	3	0	6	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:29556646C>T	uc003nmr.1	+	1	964	c.925C>T	c.(925-927)CTC>TTC	p.L309F	GABBR1_uc003nmp.3_Intron	NM_007160	NP_009091	O95918	OR2H2_HUMAN	olfactory receptor, family 2, subfamily H,	309	Cytoplasmic (Potential).			MGLTQS -> RDSRESWRAA (in Ref. 1; AAB36567).	defense response|mating|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGAAATGGGGCTCACACAAAG	0.483													18	48					0	0	1	0	0		T	29556646	T	T	29556646	3	4	89	1	0	0	0	0	1	0	0	0	11021	797	28	2	927	2	OR2H2	6	29556646	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	101134	29556646	141558421	2664	56495											
TRIM10	10107	broad.mit.edu	37	chr6	30121843	30121843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaggtgtagatgggctctCgggtgacagcgttggtgaag	8	10	18	5	2	1	4	0	3	1	1	2	4	1	4	0	4	1	3	0	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:30121843C>T	uc003npo.3	-	7	1425	c.1349G>A	c.(1348-1350)CGA>CAA	p.R450Q	TRIM10_uc003npn.2_Intron	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	450	B30.2/SPRY.					cytoplasm	zinc ion binding				0						GATGGGCTCTCGGGTGACAGC	0.597													28	54					0	0	1	0	0		T	30121843	T	T	30121843	3	4	89	1	0	0	0	0	1	0	0	0	16512	884	31	1	188	1	TRIM10	6	30121843	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	565197	30121843	140993224	2665	56496											
TRIM39	56658	broad.mit.edu	37	chr6	30314232	30314232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggggacagcgctggaccGtacagacctgcctaacatgc	10	5	13	13	2	0	1	0	0	0	1	0	3	0	3	3	3	5	3	3	3	2	2	rs148620646	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:30314232G>A	uc010jsa.1	+	9	1319	c.1312G>A	c.(1312-1314)GTA>ATA	p.V438I	RPP21_uc003nqd.1_Missense_Mutation_p.V112I|RPP21_uc003nqe.1_Missense_Mutation_p.V89I|RPP21_uc003nqf.1_Missense_Mutation_p.V89I	NM_172016	NP_742013	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 2	Error:Variant_position_missing_in_Q9HCM9_after_alignment					apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						GCGCTGGACCGTACAGACCTG	0.572													24	52					0	0	1	0	0		A	30314232	A	A	30314232	3	1	89	1	0	0	0	0	1	0	0	0	16539	1145	40	1		1	TRIM39	6	30314232	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	192389	30314232	140800835	2666	56497											
HLA-E	3133	broad.mit.edu	37	chr6	30458020	30458020	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaggggcggggccagggtCtcacaccctgcagtggatgc	7	6	16	12	1	1	0	1	0	1	0	2	1	1	1	2	6	2	1	2	6	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:30458020C>A	uc003nqg.2	+	3	376	c.338C>A	c.(337-339)TCT>TAT	p.S113Y	HLA-E_uc011dmg.1_Intron|HLA-E_uc011dmh.1_Missense_Mutation_p.S154Y	NM_005516	NP_005507	P13747	HLAE_HUMAN	major histocompatibility complex, class I, E	113	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			central_nervous_system(4)|ovary(1)	5						GGGCCAGGGTCTCACACCCTG	0.637													18	40					2.35188e-11	2.57851e-11	1	1	0		A	30458020	A	A	30458020	3	1	89	1	0	0	0	0	1	0	0	0	7226	913	32	5	348	5	HLA-E	6	30458020	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	143788	30458020	140657047	2667	56498											
PPP1R10	5514	broad.mit.edu	37	chr6	30577694	30577694	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaggcccttgagaagttCtttggggtctatgggacccg	6	11	14	10	1	2	1	0	1	2	1	3	3	3	2	3	4	0	1	3	4	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:30577694C>A	uc003nqn.1	-	3	580	c.28G>T	c.(28-30)GAA>TAA	p.E10*	PPP1R10_uc010jsc.1_5'UTR	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	10	Interaction with TOX4 (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						TTGAGAAGTTCTTTGGGGTCT	0.478													27	50					4.87955e-14	5.4818e-14	1	1	0		A	30577694	A	A	30577694	4	1	89	1	0	0	0	0	0	1	0	0	12374	922	32	5	2866	5	PPP1R10	6	30577694	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	119674	30577694	140537373	2668	56499											
MDC1	9656	broad.mit.edu	37	chr6	30673264	30673264	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcttgacagaggatctattTtttcttcccctagtagcctg	7	16	8	10	0	3	2	0	1	3	1	4	3	4	3	3	1	1	1	3	1	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:30673264T>G	uc003nrg.3	-	10	4136	c.3696A>C	c.(3694-3696)AAA>AAC	p.K1232N	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Missense_Mutation_p.K839N	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1232	Pro-rich.|Interaction with the PRKDC complex.			Missing (in Ref. 2; CAH18685).	cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						AGGATCTATTTTTTCTTCCCC	0.572								Other_conserved_DNA_damage_response_genes					130	216					0	0	1	0	0		G	30673264	G	G	30673264	3	3	89	1	0	0	0	0	1	0	0	0	9421	1838	64	5	2597	5	MDC1	6	30673264	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	95570	30673264	140441803	2669	56500											
DDR1	780	broad.mit.edu	37	chr6	30863249	30863249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccgtccccctcgaggcccgGgcccccccacacccgcctgg	3	3	10	25	4	0	0	0	0	0	0	2	1	1	0	9	3	0	0	9	3	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:30863249G>A	uc003nrr.2	+	13	1841	c.1582G>A	c.(1582-1584)GGC>AGC	p.G528S	DDR1_uc010jse.2_Intron|DDR1_uc003nrq.2_Intron|DDR1_uc003nrs.2_Missense_Mutation_p.G528S|DDR1_uc003nrt.2_Intron|DDR1_uc011dms.1_Intron|DDR1_uc003nru.2_Intron|DDR1_uc003nrv.2_Missense_Mutation_p.G528S|DDR1_uc003nrw.1_Silent_p.R299R|DDR1_uc003nry.1_Intron|DDR1_uc003nrx.1_Intron|DDR1_uc003nrz.1_5'Flank	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	528	Gly/Pro-rich.|Cytoplasmic (Potential).				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	TCGAGGCCCGGGCCCCCCCAC	0.692													74	130					0	0	1	0	0		A	30863249	A	A	30863249	3	1	89	1	0	0	0	0	1	0	0	0	4339	1232	43	4	1624	4	DDR1	6	30863249	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	189985	30863249	140251818	2670	56501											
VARS2	57176	broad.mit.edu	37	chr6	30884684	30884684	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagatctgtgagcagctgcGagctctgggtgcctccctgg	6	9	15	11	1	2	2	0	1	2	1	3	4	3	2	2	2	5	3	2	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:30884684G>A	uc003nsc.1	+	7	1333	c.701G>A	c.(700-702)CGA>CAA	p.R234Q	VARS2_uc003nsd.2_Missense_Mutation_p.R234Q|VARS2_uc011dmx.1_Missense_Mutation_p.R234Q|VARS2_uc011dmy.1_Missense_Mutation_p.R94Q|VARS2_uc011dmz.1_Missense_Mutation_p.R264Q|VARS2_uc011dna.1_Missense_Mutation_p.R234Q|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_5'Flank|VARS2_uc010jsg.1_5'Flank	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	234					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						GAGCAGCTGCGAGCTCTGGGT	0.428													49	81					0	0	1	0	0		A	30884684	A	A	30884684	3	1	89	1	0	0	0	0	1	0	0	0	17150	1058	37	1	821	1	VARS2	6	30884684	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21435	30884684	140230383	2671	56502											
C2	717	broad.mit.edu	37	chr6	31901481	31901481	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccgctatcgctgctcctcGaatcttgtgctcacggggtc	4	12	11	14	4	2	0	1	0	1	0	7	1	4	0	2	2	2	4	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:31901481G>A	uc003nyf.2	+	4	801	c.537G>A	c.(535-537)TCG>TCA	p.S179S	C2_uc003nyc.2_Missense_Mutation_p.R11Q|C2_uc011doo.1_Missense_Mutation_p.R11Q|C2_uc011dop.1_Silent_p.S56S|C2_uc003nye.3_Silent_p.S179S|C2_uc010jtk.2_Silent_p.S47S|C2_uc011doq.1_Silent_p.S150S|C2_uc003nyg.2_Silent_p.S47S|CFB_uc011dor.1_Silent_p.S117S	NM_000063	NP_000054	P06681	CO2_HUMAN	complement component 2 isoform 1 preproprotein	179	Sushi 3.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space	serine-type endopeptidase activity			ovary(1)|skin(1)	2		Ovarian(999;0.00965)		LUAD - Lung adenocarcinoma(999;0.247)		GCTGCTCCTCGAATCTTGTGC	0.652													25	52					0	0	1	0	0		A	31901481	A	A	31901481	2	1	89	1	0	0	0	0	0	0	0	1	2077	1045	37	1		1	C2	6	31901481	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1016797	31901481	139213586	2672	56503											
TNXB	7148	broad.mit.edu	37	chr6	32036213	32036213	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cccatgcgctggccaccgtgGaagccgtacaggttcatctt	7	9	11	14	3	2	0	1	0	1	0	2	1	2	1	4	3	3	3	4	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:32036213G>A	uc003nzl.2	-	17	6376	c.6174C>T	c.(6172-6174)TTC>TTT	p.F2058F		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2140	Fibronectin type-III 13.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GGCCACCGTGGAAGCCGTACA	0.632													15	43					0	0	1	0	0		A	32036213	A	A	32036213	2	1	89	1	0	0	0	0	0	0	0	1	16371	1165	41	4		4	TNXB	6	32036213	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	134732	32036213	139078854	2673	56504											
TNXB	7148	broad.mit.edu	37	chr6	32047025	32047025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtccagaagaggctcagcGaatcaggggaggatcctgtc	10	6	15	10	2	2	2	2	0	0	2	5	5	4	4	2	5	1	1	2	5	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:32047025G>A	uc003nzl.2	-	11	4362	c.4160C>T	c.(4159-4161)TCG>TTG	p.S1387L		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1474	Fibronectin type-III 7.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GAGGCTCAGCGAATCAGGGGA	0.687													40	80					0	0	1	0	0		A	32047025	A	A	32047025	3	1	89	1	0	0	0	0	1	0	0	0	16371	1059	37	1	10689	1	TNXB	6	32047025	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	10812	32047025	139068042	2674	56505											
TNXB	7148	broad.mit.edu	37	chr6	32065029	32065029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgggaaagcacacgcaacGaccacggacacagcgaccct	13	1	11	16	5	0	0	0	0	0	0	0	4	0	2	3	2	3	2	3	2	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:32065029G>A	uc003nzl.2	-	3	803	c.601C>T	c.(601-603)CGT>TGT	p.R201C		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	201	EGF-like 2.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CACACGCAACGACCACGGACA	0.657													7	15					0	0	1	0	0		A	32065029	A	A	32065029	3	1	89	1	0	0	0	0	1	0	0	0	16371	1058	37	1	14280	1	TNXB	6	32065029	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	18004	32065029	139050038	2675	56506											
PPT2	9374	broad.mit.edu	37	chr6	32130710	32130710	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttatgagacctgcattGaaccttggctctcctgagga	8	12	9	12	0	1	3	0	3	1	1	2	5	1	4	4	2	2	2	4	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:32130710G>T	uc003nzx.2	+	9	1460	c.892G>T	c.(892-894)GAA>TAA	p.E298*	PPT2_uc003nzw.2_Nonsense_Mutation_p.E304*|PPT2_uc011dpi.1_Intron|PPT2_uc003nzy.1_Intron|PPT2_uc003nzz.2_Nonsense_Mutation_p.E298*|PPT2_uc003oaa.2_Nonsense_Mutation_p.E298*|PPT2_uc010jtu.1_Intron|EGFL8_uc003oac.1_5'Flank|EGFL8_uc003oab.1_5'Flank	NM_005155	NP_005146	Q9UMR5	PPT2_HUMAN	palmitoyl-protein thioesterase 2 isoform a	298					protein modification process	lysosome	palmitoyl-(protein) hydrolase activity				0						GACCTGCATTGAACCTTGGCT	0.562													77	173					8.6838e-40	1.07605e-39	1	1	0		T	32130710	T	T	32130710	4	4	89	1	0	0	0	0	0	1	0	0	12434	1291	45	5	944	5	PPT2	6	32130710	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	65681	32130710	138984357	2676	56507											
AGER	177	broad.mit.edu	37	chr6	32150740	32150740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggggtcaccattagctccGactgcagtgtgaagagccct	8	9	12	12	1	1	2	1	1	0	1	2	3	2	2	3	2	3	2	3	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:32150740G>A	uc003oal.1	-	6	593	c.569C>T	c.(568-570)TCG>TTG	p.S190L	AGER_uc003oak.1_5'Flank|AGER_uc003oar.2_Missense_Mutation_p.S89L|AGER_uc011dpm.1_Missense_Mutation_p.S89L|AGER_uc011dpn.1_Missense_Mutation_p.S89L|AGER_uc010jtv.1_Missense_Mutation_p.S190L|AGER_uc011dpo.1_Missense_Mutation_p.S103L|AGER_uc003oam.1_Intron|AGER_uc003oan.1_Missense_Mutation_p.S176L|AGER_uc003oap.1_Missense_Mutation_p.S206L|AGER_uc003oat.1_Missense_Mutation_p.S206L|AGER_uc003oao.1_RNA|AGER_uc003oaq.1_Missense_Mutation_p.S176L|AGER_uc010jtw.1_RNA|AGER_uc003oas.1_Missense_Mutation_p.S190L|AGER_uc003oau.1_Missense_Mutation_p.S190L|AGER_uc011dpp.1_Missense_Mutation_p.S190L|AGER_uc011dpq.1_Missense_Mutation_p.S206L	NM_001136	NP_001127	Q15109	RAGE_HUMAN	advanced glycosylation end product-specific	190	Extracellular (Potential).|Ig-like C2-type 1.				cell surface receptor linked signaling pathway|inflammatory response|innate immune response|neuron projection development|positive regulation of NF-kappaB transcription factor activity	integral to plasma membrane	S100 alpha binding|transmembrane receptor activity			breast(1)	1						CATTAGCTCCGACTGCAGTGT	0.597													31	53					0	0	1	0	0		A	32150740	A	A	32150740	3	1	89	1	0	0	0	0	1	0	0	0	379	1059	37	1	698	1	AGER	6	32150740	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	20030	32150740	138964327	2677	56508											
C6orf10	10665	broad.mit.edu	37	chr6	32307386	32307386	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaacttacaaggaggttCttcagttgtttgtaaacatt	12	14	10	5	0	2	0	1	0	1	0	2	2	2	2	0	3	3	4	0	3	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:32307386C>A	uc011dpy.1	-	10	552	c.379G>T	c.(379-381)GAA>TAA	p.E127*	C6orf10_uc011dpz.1_Nonsense_Mutation_p.E111*	NM_006781	NP_006772	Q5SRN2	CF010_HUMAN	chromosome 6 open reading frame 10	127						integral to membrane				skin(1)	1						CAAGGAGGTTCTTCAGTTGTT	0.214													43	126					5.57489e-27	6.76085e-27	1	1	0		A	32307386	A	A	32307386	4	1	89	1	0	0	0	0	0	1	0	0	2320	922	32	5	1072	5	C6orf10	6	32307386	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	156646	32307386	138807681	2678	56509											
HLA-DMB	3109	broad.mit.edu	37	chr6	32905115	32905115	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggcatgacaagcttcccGttcttcctccacgtgatagt	8	12	9	12	2	1	3	0	3	1	0	4	3	4	3	3	1	1	3	3	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:32905115G>A	uc003ocl.1	-	3	689	c.456C>T	c.(454-456)AAC>AAT	p.N152N	HLA-DMB_uc003ocj.1_3'UTR|HLA-DMB_uc003ock.1_5'Flank|HLA-DMB_uc010jud.1_Silent_p.N21N|HLA-DMB_uc010jue.1_Silent_p.N21N|HLA-DMB_uc010juf.1_Silent_p.N21N|HLA-DMB_uc011dql.1_Silent_p.N152N	NM_002118	NP_002109	P28068	DMB_HUMAN	major histocompatibility complex, class II, DM	152	Lumenal (Potential).|Ig-like C1-type.|Beta-2.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0						CAAGCTTCCCGTTCTTCCTCC	0.537													42	85					0	0	1	0	0		A	32905115	A	A	32905115	2	1	89	1	0	0	0	0	0	0	0	1	7215	1136	40	1		1	HLA-DMB	6	32905115	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	597729	32905115	138209952	2679	56510											
HLA-DOA	3111	broad.mit.edu	37	chr6	32975854	32975854	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatgggctttgattgcggcGatgccggccagcccgccctg	5	8	15	13	4	0	2	0	1	0	1	0	3	0	2	4	3	3	1	4	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:32975854G>A	uc003ocr.2	-	2	343	c.267C>T	c.(265-267)ATC>ATT	p.I89I	HLA-DOA_uc010juj.2_Silent_p.I59I|HLA-DOA_uc010jui.2_Silent_p.I89I	NM_002119	NP_002110	P06340	DOA_HUMAN	major histocompatibility complex, class II, DO	89	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endosome membrane|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0						TGATTGCGGCGATGCCGGCCA	0.642													16	42					0	0	1	0	0		A	32975854	A	A	32975854	2	1	89	1	0	0	0	0	0	0	0	1	7216	1048	37	1		1	HLA-DOA	6	32975854	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	70739	32975854	138139213	2680	56511											
COL11A2	1302	broad.mit.edu	37	chr6	33132248	33132248	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctgagtccacgtaagaGaactggaaggagagagaggg	13	5	15	8	1	1	4	0	1	1	3	2	8	2	5	2	3	1	1	2	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:33132248G>T	uc003ocx.1	-	65	5094	c.4866C>A	c.(4864-4866)TTC>TTA	p.F1622L	COL11A2_uc010jul.1_Missense_Mutation_p.F192L|COL11A2_uc003ocy.1_Missense_Mutation_p.F1536L|COL11A2_uc003ocz.1_Missense_Mutation_p.F1515L	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1622	Fibrillar collagen NC1.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						CCACGTAAGAGAACTGGAAGG	0.642													3	3					0.004672	0.00471866	1	1	0		T	33132248	T	T	33132248	3	4	89	1	0	0	0	0	1	0	0	0	3671	933	33	5	352	5	COL11A2	6	33132248	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	156394	33132248	137982819	2681	56512											
RGL2	5863	broad.mit.edu	37	chr6	33260034	33260034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgctgccgcaggaggaaatCgtgtgaagctccatccatgg	9	7	13	12	3	0	1	0	1	0	0	3	3	2	3	4	3	2	3	4	3	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:33260034C>T	uc003odv.2	-	18	2312	c.2179G>A	c.(2179-2181)GAT>AAT	p.D727N	RGL2_uc003odu.2_Missense_Mutation_p.D287N|RGL2_uc010jur.2_Missense_Mutation_p.D287N|RGL2_uc003odw.2_Missense_Mutation_p.D645N	NM_004761	NP_004752	O15211	RGL2_HUMAN	ral guanine nucleotide dissociation	727	Ras-associating.				Ras protein signal transduction|regulation of small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity			skin(3)|lung(1)|breast(1)|pancreas(1)	6						AGGAGGAAATCGTGTGAAGCT	0.577													26	68					0	0	1	0	0		T	33260034	T	T	33260034	3	4	89	1	0	0	0	0	1	0	0	0	13302	884	31	1	158	1	RGL2	6	33260034	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	127786	33260034	137855033	2682	56513											
DAXX	1616	broad.mit.edu	37	chr6	33287518	33287518	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtaacgatggtgacactaTgcgtcctttgttttgctgct	7	15	10	9	2	0	1	0	1	0	0	1	2	1	1	1	1	4	4	1	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:33287518T>C	uc003oec.2	-	6	1783	c.1579A>G	c.(1579-1581)ATA>GTA	p.I527V	ZBTB22_uc003oeb.2_5'Flank|ZBTB22_uc010juu.2_5'Flank|DAXX_uc011drd.1_Missense_Mutation_p.I452V|DAXX_uc011dre.1_Missense_Mutation_p.I539V|DAXX_uc003oed.2_Missense_Mutation_p.I527V	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	527	Asp/Glu-rich (acidic).|Interaction with MAP3K5.|Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						GGTGACACTATGCGTCCTTTG	0.517			Mis|F|N		Pancreatic neuroendocrine tumors								37	71					0	0	1	0	0		C	33287518	C	C	33287518	3	2	89	1	0	0	0	0	1	0	0	0	4246	1464	51	3	655	3	DAXX	6	33287518	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	27484	33287518	137827549	2683	56514											
ZBTB9	221504	broad.mit.edu	37	chr6	33423510	33423510	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgctgcaaattcaggtGgaagaagaagaggaggagga	16	5	17	3	0	1	3	1	0	0	3	1	8	1	7	0	5	2	2	0	5	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:33423510G>A	uc003oeq.2	+	2	901	c.633G>A	c.(631-633)GTG>GTA	p.V211V		NM_152735	NP_689948	Q96C00	ZBTB9_HUMAN	zinc finger and BTB domain containing 9	211					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAATTCaggtggaagaagaag	0.438													35	69					0	0	1	0	0		A	33423510	A	A	33423510	2	1	89	1	0	0	0	0	0	0	0	1	17583	1335	47	4		4	ZBTB9	6	33423510	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	135992	33423510	137691557	2684	56515											
C6orf1	221491	broad.mit.edu	37	chr6	34214882	34214882	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcagttcctcagctgggTcatagctgtacatggggagc	8	10	13	10	0	2	0	2	0	0	0	3	1	3	1	1	3	5	5	1	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:34214882T>C	uc003ojf.2	-	4	656	c.64A>G	c.(64-66)ACC>GCC	p.T22A	uc003oje.1_5'Flank|C6orf1_uc003ojg.2_Missense_Mutation_p.T22A|C6orf1_uc003ojh.2_Missense_Mutation_p.T22A|C6orf1_uc003oji.2_RNA	NM_178508	NP_848603	Q86T20	CF001_HUMAN	hypothetical protein LOC221491 precursor	22						extracellular region					0		Ovarian(999;0.0228)		BRCA - Breast invasive adenocarcinoma(397;1.11e-10)		CTCAGCTGGGTCATAGCTGTA	0.627													41	106					0	0	1	0	0		C	34214882	C	C	34214882	3	2	89	1	0	0	0	0	1	0	0	0	2319	1667	58	3	423	3	C6orf1	6	34214882	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	791372	34214882	136900185	2685	56516											
UHRF1BP1	54887	broad.mit.edu	37	chr6	34802027	34802027	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gccgaaaaggtggtggaaggGatgttcatcattgtcaattc	11	11	13	6	1	3	0	3	0	0	0	4	3	3	2	1	4	0	1	1	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:34802027G>A	uc003oju.3	+	5	606	c.372G>A	c.(370-372)GGG>GGA	p.G124G	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	124										ovary(3)	3						TGGTGGAAGGGATGTTCATCA	0.433													14	35					0	0	1	0	0		A	34802027	A	A	34802027	2	1	89	1	0	0	0	0	0	0	0	1	16994	1161	41	4		4	UHRF1BP1	6	34802027	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	587145	34802027	136313040	2686	56517											
UHRF1BP1	54887	broad.mit.edu	37	chr6	34840168	34840168	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgccaaccaggataaagaaAaacttcttcaggagattagg	17	8	9	7	0	2	2	1	0	1	2	2	4	2	3	2	3	3	0	2	3	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:34840168A>C	uc003oju.3	+	21	4510	c.4276A>C	c.(4276-4278)AAA>CAA	p.K1426Q	UHRF1BP1_uc010jvm.1_Intron|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	1426	Potential.									ovary(3)	3						GGATAAAGAAAAACTTCTTCA	0.418													23	54					0	0	1	0	0		C	34840168	C	C	34840168	3	2	89	1	0	0	0	0	1	0	0	0	16994	15	1	5	4358	5	UHRF1BP1	6	34840168	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	38141	34840168	136274899	2687	56518											
ANKS1A	23294	broad.mit.edu	37	chr6	34953007	34953007	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatctgaccaagactccacGaacaaggaggctgaggcagc	13	5	11	12	1	2	3	1	2	1	1	3	5	3	4	2	3	2	2	2	3	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:34953007G>A	uc003ojx.3	+	8	1303	c.1161G>A	c.(1159-1161)ACG>ACA	p.T387T	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	387						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						AAGACTCCACGAACAAGGAGG	0.587													20	64					0	0	1	0	0		A	34953007	A	A	34953007	2	1	89	1	0	0	0	0	0	0	0	1	688	1045	37	1		1	ANKS1A	6	34953007	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	112839	34953007	136162060	2688	56519											
SCUBE3	222663	broad.mit.edu	37	chr6	35213122	35213122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcaaccccccacccaagcGcaagatccttatcgtggtac	11	7	6	17	2	1	1	1	0	0	1	3	1	2	1	5	1	3	2	5	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:35213122G>A	uc003okf.1	+	19	2525	c.2519G>A	c.(2518-2520)CGC>CAC	p.R840H	SCUBE3_uc003okg.1_Missense_Mutation_p.R839H|SCUBE3_uc003okh.1_Missense_Mutation_p.R727H	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	840	CUB.				protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						CCACCCAAGCGCAAGATCCTT	0.557													11	92					0	0	1	0	0		A	35213122	A	A	35213122	3	1	89	1	0	0	0	0	1	0	0	0	13971	1087	38	1	2593	1	SCUBE3	6	35213122	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	260115	35213122	135901945	2689	56520											
PPARD	5467	broad.mit.edu	37	chr6	35391736	35391736	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcagctatccgttttggTcggatgccggaggctgagaa	7	11	15	8	3	0	1	0	1	0	1	2	4	1	3	2	4	3	4	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:35391736T>C	uc003okm.2	+	6	747	c.438T>C	c.(436-438)GGT>GGC	p.G146G	PPARD_uc003okl.2_Silent_p.G146G|PPARD_uc003okn.2_Silent_p.G146G|PPARD_uc011dtb.1_Silent_p.G107G|PPARD_uc011dtc.1_Silent_p.G48G|PPARD_uc010jvv.1_RNA	NM_006238	NP_006229	Q03181	PPARD_HUMAN	peroxisome proliferative activated receptor,	146					apoptosis|axon ensheathment|cholesterol metabolic process|decidualization|embryo implantation|fatty acid beta-oxidation|fatty acid transport|generation of precursor metabolites and energy|glucose metabolic process|glucose transport|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fat cell differentiation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|linoleic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1					Icosapent(DB00159)|Sulindac(DB00605)|Treprostinil(DB00374)	TCCGTTTTGGTCGGATGCCGG	0.622													19	37					0	0	1	0	0		C	35391736	C	C	35391736	2	2	89	1	0	0	0	0	0	0	0	1	12317	1654	58	3		3	PPARD	6	35391736	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	178614	35391736	135723331	2690	56521											
FKBP5	2289	broad.mit.edu	37	chr6	35547912	35547912	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaatgattcagaagctttCgattccttttctgataaacc	13	14	6	8	1	2	4	1	2	1	2	4	5	3	4	2	0	2	1	2	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:35547912C>T	uc011dte.1	-	9	1130	c.927G>A	c.(925-927)TCG>TCA	p.S309S	FKBP5_uc003okx.2_Silent_p.S309S|FKBP5_uc011dtf.1_Silent_p.S130S|FKBP5_uc003oky.2_Silent_p.S309S	NM_001145776	NP_001139248	Q13451	FKBP5_HUMAN	FK506 binding protein 5 isoform 1	309					protein folding	cytoplasm|membrane|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1						CAGAAGCTTTCGATTCCTTTT	0.433													52	99					0	0	1	0	0		T	35547912	T	T	35547912	2	4	89	1	0	0	0	0	0	0	0	1	5925	871	31	1		1	FKBP5	6	35547912	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	156176	35547912	135567155	2691	56522											
C6orf222	389384	broad.mit.edu	37	chr6	36288974	36288974	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcttggagaagtgccacAagcttctggatgatgatctc	10	12	10	9	0	3	3	0	2	3	1	4	5	3	4	1	2	2	1	1	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:36288974A>C	uc003oly.2	-	10	1804	c.1626T>G	c.(1624-1626)CTT>CTG	p.L542L		NM_001010903	NP_001010903	P0C671	CF222_HUMAN	hypothetical protein LOC389384	542										skin(2)|ovary(1)|breast(1)	4						GAAGTGCCACAAGCTTCTGGA	0.517													6	8					0	0	1	0	0		C	36288974	C	C	36288974	2	2	89	1	0	0	0	0	0	0	0	1	2359	117	5	5		5	C6orf222	6	36288974	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	741062	36288974	134826093	2692	56523											
C6orf222	389384	broad.mit.edu	37	chr6	36298001	36298001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttgtgaccttgcttcttgCggctgggcttcttgtcgtgg	1	17	13	10	2	3	1	0	1	3	0	4	1	3	1	1	3	2	3	1	3	0	6	rs141030977		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:36298001C>T	uc003oly.2	-	2	645	c.467G>A	c.(466-468)CGC>CAC	p.R156H		NM_001010903	NP_001010903	P0C671	CF222_HUMAN	hypothetical protein LOC389384	156										skin(2)|ovary(1)|breast(1)	4						TTGCTTCTTGCGGCTGGGCTT	0.622													28	60					0	0	1	0	0		T	36298001	T	T	36298001	3	4	89	1	0	0	0	0	1	0	0	0	2359	768	27	1	1535	1	C6orf222	6	36298001	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9027	36298001	134817066	2693	56524											
CPNE5	57699	broad.mit.edu	37	chr6	36767773	36767773	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggaggttctgcttctcctcGaaaaagtaatccacaatgaa	13	10	8	10	2	2	1	0	1	2	0	5	3	3	2	2	2	1	3	2	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:36767773G>A	uc003omr.1	-	4	325	c.258C>T	c.(256-258)TTC>TTT	p.F86F	CPNE5_uc003oms.1_Silent_p.F48F	NM_020939	NP_065990	Q9HCH3	CPNE5_HUMAN	copine V	86	C2 1.									skin(1)	1						GCTTCTCCTCGAAAAAGTAAT	0.517													15	27					0	0	1	0	0		A	36767773	A	A	36767773	2	1	89	1	0	0	0	0	0	0	0	1	3818	1049	37	1		1	CPNE5	6	36767773	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	469772	36767773	134347294	2694	56525											
MTCH1	23787	broad.mit.edu	37	chr6	36938221	36938221	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtcgccaactagcaggAaggggtaggtcagcatgctc	10	7	15	9	1	1	1	1	1	0	0	3	2	1	2	1	5	4	4	1	5	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:36938221A>G	uc003ond.1	-	10	983	c.983T>C	c.(982-984)TTC>TCC	p.F328S	MTCH1_uc003onc.1_Missense_Mutation_p.F311S|MTCH1_uc010jwo.1_RNA|MTCH1_uc003one.3_Missense_Mutation_p.F328S|MTCH1_uc011dtt.1_Missense_Mutation_p.F143S	NM_014341	NP_055156	Q9NZJ7	MTCH1_HUMAN	mitochondrial carrier homolog 1	328	Helical; (Potential).				activation of caspase activity|neuronal ion channel clustering|positive regulation of apoptosis|regulation of signal transduction|transport	integral to membrane|mitochondrial inner membrane	protein binding				0						AACTAGCAGGAAGGGGTAGGT	0.622													26	51					0	0	1	0	0		G	36938221	G	G	36938221	3	3	89	1	0	0	0	0	1	0	0	0	9931	246	9	3	198	3	MTCH1	6	36938221	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	170448	36938221	134176846	2695	56526											
DNAH8	1769	broad.mit.edu	37	chr6	38818056	38818056	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttttcagaatattgacaaGtcttggataaaaataatgca	16	13	7	5	1	2	2	1	1	1	1	2	3	2	3	0	1	1	2	0	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:38818056G>T	uc003ooe.1	+	36	5178	c.4578G>T	c.(4576-4578)AAG>AAT	p.K1526N		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ATATTGACAAGTCTTGGATAA	0.363													8	99					0.0381472	0.0383344	1	1	0		T	38818056	T	T	38818056	3	4	89	1	0	0	0	0	1	0	0	0	4613	1020	36	5	4712	5	DNAH8	6	38818056	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1879835	38818056	132297011	2696	56527											
DNAH8	1769	broad.mit.edu	37	chr6	38994321	38994321	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcttctttttttctttaaGgcttcctcacagcaatgagg	7	18	6	10	0	4	1	1	1	3	0	6	1	5	1	1	2	1	2	1	2	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:38994321G>T	uc003ooe.1	+	90	13664	c.13064_splice	c.e90-1	p.G4355_splice		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTTTCTTTAAGGCTTCCTCAC	0.433													12	41					1.05317e-09	1.13491e-09	1	1	0		T	38994321	T	T	38994321	5	4	89	1	0	0	0	0	0	0	1	0	4613	1014	35	5	13413	5	DNAH8	6	38994321	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	176265	38994321	132120746	2697	56528											
GLP1R	2740	broad.mit.edu	37	chr6	39046914	39046914	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcatctttgttcgggtCatctgcatcgtggtatccaa	6	16	8	11	2	4	0	2	0	2	0	8	0	6	0	2	2	1	3	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:39046914C>A	uc003ooj.3	+	10	1041	c.981C>A	c.(979-981)GTC>GTA	p.V327V	GLP1R_uc003ooh.2_RNA|GLP1R_uc003ooi.2_RNA	NM_002062	NP_002053	P43220	GLP1R_HUMAN	glucagon-like peptide 1 receptor precursor	327	Helical; Name=5; (Potential).				activation of adenylate cyclase activity|cAMP-mediated signaling|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	glucagon receptor activity|peptide receptor activity, G-protein coupled			lung(3)|breast(1)|pancreas(1)	5					Exenatide(DB01276)|Glucagon recombinant(DB00040)	TTGTTCGGGTCATCTGCATCG	0.557													61	101					3.94839e-29	4.8097e-29	1	1	0		A	39046914	A	A	39046914	2	1	89	1	0	0	0	0	0	0	0	1	6467	813	29	5		5	GLP1R	6	39046914	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	52593	39046914	132068153	2698	56529											
LRFN2	57497	broad.mit.edu	37	chr6	40359708	40359708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgctctccatcacccattCggagctgccaaaagtccccc	8	8	7	18	2	2	0	1	0	1	0	5	1	3	1	5	1	3	2	5	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:40359708C>T	uc003oph.1	-	3	2809	c.2344G>A	c.(2344-2346)GAA>AAA	p.E782K		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	782	Cytoplasmic (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					ATCACCCATTCGGAGCTGCCA	0.597													30	50					0	0	1	0	0		T	40359708	T	T	40359708	3	4	89	1	0	0	0	0	1	0	0	0	8956	893	31	1	29	1	LRFN2	6	40359708	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1312794	40359708	130755359	2699	56530											
BYSL	705	broad.mit.edu	37	chr6	41898422	41898422	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaaggcatttaagatcaTccctgcactctccaactggg	10	9	8	14	0	2	1	1	0	1	1	4	1	3	1	3	2	2	2	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:41898422T>C	uc003orl.2	+	4	956	c.620T>C	c.(619-621)ATC>ACC	p.I207T		NM_004053	NP_004044	Q13895	BYST_HUMAN	bystin	207					cell adhesion|female pregnancy|ribosome biogenesis	cytoplasm|nucleolus					0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000473)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TTTAAGATCATCCCTGCACTC	0.512													8	52					0	0	1	0	0		C	41898422	C	C	41898422	3	2	89	1	0	0	0	0	1	0	0	0	1579	1435	50	3	634	3	BYSL	6	41898422	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1538714	41898422	129216645	2700	56531											
PRPH2	5961	broad.mit.edu	37	chr6	42666207	42666207	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggttggacacaccatccagCgacgtctgtaggtagcgcag	9	7	14	11	3	1	0	0	0	1	0	2	2	2	1	2	3	2	4	2	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:42666207C>T	uc003osk.2	-	3	1153	c.867G>A	c.(865-867)TCG>TCA	p.S289S		NM_000322	NP_000313	P23942	PRPH2_HUMAN	peripherin 2	289	Helical; (Potential).				cell adhesion|visual perception	integral to membrane				ovary(4)|central_nervous_system(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.00178)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0904)			CACCATCCAGCGACGTCTGTA	0.587													19	62					0	0	1	0	0		T	42666207	T	T	42666207	2	4	89	1	0	0	0	0	0	0	0	1	12599	755	27	1		1	PRPH2	6	42666207	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	767785	42666207	128448860	2701	56532											
GNMT	27232	broad.mit.edu	37	chr6	42931424	42931424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctgctacttcatccacGtgctcaagaggacagactga	10	10	8	13	1	2	3	2	1	0	2	4	4	4	4	2	1	3	2	2	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:42931424G>A	uc003otd.2	+	6	874	c.868G>A	c.(868-870)GTG>ATG	p.V290M	uc003ote.1_5'Flank	NM_018960	NP_061833	Q14749	GNMT_HUMAN	glycine N-methyltransferase	290					protein homotetramerization|protein modification process|S-adenosylmethionine metabolic process		folic acid binding|glycine binding|glycine N-methyltransferase activity				0	Colorectal(47;0.196)		all cancers(41;0.00196)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0461)		Glycine(DB00145)|S-Adenosylmethionine(DB00118)	CTTCATCCACGTGCTCAAGAG	0.597													21	37					0	0	1	0	0		A	42931424	A	A	42931424	3	1	89	1	0	0	0	0	1	0	0	0	6555	1145	40	1	890	1	GNMT	6	42931424	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	265217	42931424	128183643	2702	56533											
PPP2R5D	5528	broad.mit.edu	37	chr6	42978669	42978669	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccccctgtgtactcgatggaGacagagacccccacagctga	10	6	10	15	1	0	3	0	1	0	2	1	6	0	3	4	1	2	2	4	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:42978669G>A	uc003oth.2	+	15	1691	c.1605G>A	c.(1603-1605)GAG>GAA	p.E535E	MEA1_uc010jyc.1_Intron|PPP2R5D_uc003otg.2_Silent_p.E503E|PPP2R5D_uc010jyd.2_Silent_p.E429E|PPP2R5D_uc011dva.1_Silent_p.E384E|PPP2R5D_uc003oti.2_Silent_p.E384E|PPP2R5D_uc003otj.2_Silent_p.E366E	NM_006245	NP_006236	Q14738	2A5D_HUMAN	delta isoform of regulatory subunit B56, protein	535					nervous system development|signal transduction	cytoplasm|nucleus|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			breast(1)|central_nervous_system(1)	2			Colorectal(64;0.00237)|all cancers(41;0.00411)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0664)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			ACTCGATGGAGACAGAGACCC	0.567													43	84					0	0	1	0	0		A	42978669	A	A	42978669	2	1	89	1	0	0	0	0	0	0	0	1	12417	933	33	4		4	PPP2R5D	6	42978669	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	47245	42978669	128136398	2703	56534											
MRPL2	51069	broad.mit.edu	37	chr6	43024071	43024071	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatcatagcggacttggatAaccttctcctcaaagggtcc	10	10	10	11	1	3	0	2	0	1	0	5	3	4	3	3	4	2	0	3	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:43024071A>C	uc003ots.1	-	3	501	c.378T>G	c.(376-378)GTT>GTG	p.V126V	CUL7_uc011dvb.1_5'Flank|CUL7_uc003otq.2_5'Flank|CUL7_uc010jyh.2_5'Flank|KLC4_uc003otr.1_Intron|MRPL2_uc011dvc.1_Silent_p.V126V	NM_015950	NP_057034	Q5T653	RM02_HUMAN	mitochondrial ribosomal protein L2 precursor	126					translation	mitochondrion|ribosome	structural constituent of ribosome				0		Ovarian(999;0.0014)	Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00708)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)	BRCA - Breast invasive adenocarcinoma(397;0.0026)		GGACTTGGATAACCTTCTCCT	0.507													31	56					0	0	1	0	0		C	43024071	C	C	43024071	2	2	89	1	0	0	0	0	0	0	0	1	9803	349	13	5		5	MRPL2	6	43024071	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	45402	43024071	128090996	2704	56535											
CUL9	23113	broad.mit.edu	37	chr6	43156447	43156447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctggtccgtcctgacagatCgctgaggttagcatactggg	7	11	13	10	2	1	3	0	2	1	1	4	3	3	3	2	3	2	3	2	3	2	2	rs79064744	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:43156447C>T	uc003ouk.2	+	8	2249	c.2174C>T	c.(2173-2175)TCG>TTG	p.S725L	CUL9_uc003ouj.1_3'UTR|CUL9_uc003oul.2_Missense_Mutation_p.S725L|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_3'UTR	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	725					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						CCTGACAGATCGCTGAGGTTA	0.547													16	32					0	0	1	0	0		T	43156447	T	T	43156447	3	4	89	1	0	0	0	0	1	0	0	0	4064	893	31	1	2200	1	CUL9	6	43156447	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	132376	43156447	127958620	2705	56536											
CUL9	23113	broad.mit.edu	37	chr6	43166427	43166427	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttgggggcccatctgcaGaactactcctggacttggag	7	10	14	10	0	1	1	0	0	1	1	2	3	2	3	2	5	3	2	2	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:43166427G>T	uc003ouk.2	+	12	2959	c.2884G>T	c.(2884-2886)GAA>TAA	p.E962*	CUL9_uc003oul.2_Nonsense_Mutation_p.E962*|CUL9_uc010jyk.2_Nonsense_Mutation_p.E114*	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	962					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						CCCATCTGCAGAACTACTCCT	0.632													70	150					1.12115e-39	1.38906e-39	1	1	0		T	43166427	T	T	43166427	4	4	89	1	0	0	0	0	0	1	0	0	4064	943	33	5	2926	5	CUL9	6	43166427	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9980	43166427	127948640	2706	56537											
ZNF318	24149	broad.mit.edu	37	chr6	43306479	43306479	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatcctggttaacagattCtctgaggtggatttctacca	9	15	8	9	0	2	2	0	1	2	1	4	3	3	3	2	3	2	1	2	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:43306479C>A	uc003oux.2	-	10	5335	c.5257G>T	c.(5257-5259)GAA>TAA	p.E1753*	ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	1753					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			TTAACAGATTCTCTGAGGTGG	0.433													47	87					1.89013e-27	2.29391e-27	1	1	0		A	43306479	A	A	43306479	4	1	89	1	0	0	0	0	0	1	0	0	17861	922	32	5	1586	5	ZNF318	6	43306479	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	140052	43306479	127808588	2707	56538											
ZNF318	24149	broad.mit.edu	37	chr6	43323460	43323460	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcttcatccccatagaGaaatttctcctcatcttcaa	10	15	2	14	0	7	1	3	0	4	1	9	2	8	1	3	0	0	0	3	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:43323460G>T	uc003oux.2	-	4	1690	c.1612C>A	c.(1612-1614)CTC>ATC	p.L538I	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	538					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			TCCCCATAGAGAAATTTCTCC	0.483													133	224					5.78353e-53	7.20589e-53	1	1	0		T	43323460	T	T	43323460	3	4	89	1	0	0	0	0	1	0	0	0	17861	942	33	5	5255	5	ZNF318	6	43323460	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16981	43323460	127791607	2708	56539											
ZNF318	24149	broad.mit.edu	37	chr6	43323494	43323494	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcaatgtcgggaaagctAcgtcgccttttttcctgtgt	6	16	9	10	3	2	0	1	0	1	0	5	1	3	1	2	1	2	1	2	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:43323494A>G	uc003oux.2	-	4	1656	c.1578T>C	c.(1576-1578)CGT>CGC	p.R526R	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	526					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			CGGGAAAGCTACGTCGCCTTT	0.493													138	264					0	0	1	0	0		G	43323494	G	G	43323494	2	3	89	1	0	0	0	0	0	0	0	1	17861	378	14	3		3	ZNF318	6	43323494	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	34	43323494	127791573	2709	56540											
ABCC10	89845	broad.mit.edu	37	chr6	43400462	43400462	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggcagcctcaggacatttgCcgcctcccccacagactgca	8	6	9	18	2	1	1	1	0	0	1	2	2	2	2	5	2	3	2	5	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:43400462C>T	uc003ouy.1	+	3	959	c.744C>T	c.(742-744)TGC>TGT	p.C248C	ABCC10_uc003ouz.1_Silent_p.C205C	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	248						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			AGGACATTTGCCGCCTCCCCC	0.642													32	56					0	0	1	0	0		T	43400462	T	T	43400462	2	4	89	1	0	0	0	0	0	0	0	1	50	747	26	2		2	ABCC10	6	43400462	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	76968	43400462	127714605	2710	56541											
GTPBP2	54676	broad.mit.edu	37	chr6	43592340	43592340	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagccaggctgcttgaggAcccgctccagctggcgtact	6	7	14	14	2	0	1	0	1	0	0	1	2	1	2	3	4	4	6	3	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:43592340A>G	uc003ovs.2	-	7	1044	c.1007T>C	c.(1006-1008)GTC>GCC	p.V336A	GTPBP2_uc010jyv.2_Missense_Mutation_p.V248A|GTPBP2_uc003ovt.1_Missense_Mutation_p.V336A	NM_019096	NP_061969	Q9BX10	GTPB2_HUMAN	GTP binding protein 2	336							GTP binding|GTPase activity			liver(1)|skin(1)	2	all_cancers(18;9.36e-06)|Lung NSC(15;0.00161)|all_lung(25;0.004)		all cancers(41;0.000501)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0826)|OV - Ovarian serous cystadenocarcinoma(102;0.167)			CTGCTTGAGGACCCGCTCCAG	0.597													23	49					0	0	1	0	0		G	43592340	G	G	43592340	3	3	89	1	0	0	0	0	1	0	0	0	6896	275	10	3	825	3	GTPBP2	6	43592340	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	191878	43592340	127522727	2711	56542											
TMEM63B	55362	broad.mit.edu	37	chr6	44103088	44103088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcggcggcaggagagggaccGagtggaacaggaatagtatg	12	5	18	6	3	0	1	0	0	0	1	1	6	0	4	1	6	1	2	1	6	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:44103088G>A	uc003owr.2	+	4	327	c.263G>A	c.(262-264)CGA>CAA	p.R88Q	TMEM63B_uc003owq.1_Missense_Mutation_p.R88Q|TMEM63B_uc010jyy.1_Intron|TMEM63B_uc003ows.2_Intron	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	88						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			GAGAGGGACCGAGTGGAACAG	0.587													8	14					0	0	1	0	0		A	44103088	A	A	44103088	3	1	89	1	0	0	0	0	1	0	0	0	16216	1058	37	1	273	1	TMEM63B	6	44103088	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	510748	44103088	127011979	2712	56543											
TCTE1	202500	broad.mit.edu	37	chr6	44250104	44250104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactgggcaccgggtgcacGcacctggttgttagccaggt	6	8	16	11	2	0	0	0	0	0	0	0	1	0	1	3	5	2	5	3	5	1	2	rs114241529	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:44250104G>A	uc003oxi.2	-	4	1195	c.1039C>T	c.(1039-1041)CGT>TGT	p.R347C	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_182539	NP_872345	Q5JU00	TCTE1_HUMAN	t-complex-associated testis expressed 1	347	LRR 2.									ovary(2)|skin(2)	4	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CCGGGTGCACGCACCTGGTTG	0.597													52	100					0	0	1	0	0		A	44250104	A	A	44250104	3	1	89	1	0	0	0	0	1	0	0	0	15742	1087	38	1	474	1	TCTE1	6	44250104	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	147016	44250104	126864963	2713	56544											
CDC5L	988	broad.mit.edu	37	chr6	44360556	44360556	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgcttagaacactatgAatttcttctgtaagtgagtc	11	14	8	8	0	2	3	0	2	2	1	3	3	2	3	1	0	2	2	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:44360556A>C	uc003oxl.2	+	3	561	c.302A>C	c.(301-303)GAA>GCA	p.E101A		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	101	H-T-H motif (By similarity).|HTH myb-type 2.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GAACACTATGAATTTCTTCTG	0.388													11	38					0	0	1	0	0		C	44360556	C	C	44360556	3	2	89	1	0	0	0	0	1	0	0	0	3085	246	9	5	312	5	CDC5L	6	44360556	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	110452	44360556	126754511	2714	56545											
SLC25A27	9481	broad.mit.edu	37	chr6	46630234	46630234	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactggaaggaaaaccattgCggtaagttctccaattaacc	15	9	8	9	1	1	0	0	0	1	0	2	2	1	2	3	3	4	2	3	3	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:46630234C>T	uc003oyh.2	+	4	756	c.505C>T	c.(505-507)CGA>TGA	p.R169*	SLC25A27_uc011dwb.1_Nonsense_Mutation_p.R169*|SLC25A27_uc003oyg.2_Nonsense_Mutation_p.R169*|SLC25A27_uc011dwc.1_Nonsense_Mutation_p.R83*|SLC25A27_uc003oyi.2_Nonsense_Mutation_p.R99*	NM_004277	NP_004268	O95847	UCP4_HUMAN	solute carrier family 25, member 27	169	Solcar 2.				generation of precursor metabolites and energy|transport	integral to membrane|mitochondrial inner membrane					0			Lung(136;0.192)			AAAACCATTGCGGTAAGTTCT	0.398													21	52					0	0	1	0	0		T	46630234	T	T	46630234	4	4	89	1	0	0	0	0	0	1	0	0	14515	782	27	1	519	1	SLC25A27	6	46630234	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2269678	46630234	124484833	2715	56546											
TDRD6	221400	broad.mit.edu	37	chr6	46657305	46657305	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactcccagccttaagatcTatcaggttaaagatgaatgc	13	11	7	10	0	3	3	2	1	1	2	4	3	4	3	2	1	2	1	2	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:46657305T>G	uc003oyj.2	+	1	1440	c.1440T>G	c.(1438-1440)TCT>TCG	p.S480S	TDRD6_uc010jze.2_Silent_p.S474S	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	480					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			CCTTAAGATCTATCAGGTTAA	0.433													45	88					0	0	1	0	0		G	46657305	G	G	46657305	2	3	89	1	0	0	0	0	0	0	0	1	15759	1509	53	5		5	TDRD6	6	46657305	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	27071	46657305	124457762	2716	56547											
TDRD6	221400	broad.mit.edu	37	chr6	46660415	46660416	+	Frame_Shift_Ins	INS	-	C	C																															cttaactggtataatccagaINSaaaaaaaatgataagagctt																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:46660415_46660416insC	uc003oyj.2	+	1	4550_4551	c.4550_4551insC	c.(4549-4551)GAAfs	p.E1517fs	TDRD6_uc010jze.2_Frame_Shift_Ins_p.E1511fs	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1517					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			TATAATCCAGAAAAAAAAATGA	0.356													34	72	---	---	---	---						.	C	46660416	C	C	46660415	7	5	89	1	0	1	1	0	0	0	0	0	15759	246	9	0	4552	0	TDRD6	6	46660415	Frame_Shift_Ins	INS	-	TCGA-BR-8680-01A-11D-2394-08	3110	46660415	124454652	2717	56548											
PLA2G7	7941	broad.mit.edu	37	chr6	46677131	46677131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaagaatgtccaattactgCtattttttccctatcaatag	14	15	4	8	0	1	1	1	0	0	1	3	1	3	1	2	0	2	1	2	0	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:46677131C>T	uc010jzf.2	-	9	1071	c.802G>A	c.(802-804)GCA>ACA	p.A268T	PLA2G7_uc010jzg.1_Missense_Mutation_p.A268T	NM_005084	NP_005075	Q13093	PAFA_HUMAN	phospholipase A2, group VII	268					inflammatory response|lipid catabolic process	extracellular space	1-alkyl-2-acetylglycerophosphocholine esterase activity|phospholipid binding				0			Lung(136;0.192)			CCAATTACTGCTATTTTTTCC	0.308													29	74					0	0	1	0	0		T	46677131	T	T	46677131	3	4	89	1	0	0	0	0	1	0	0	0	12028	797	28	2	539	2	PLA2G7	6	46677131	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	16716	46677131	124437936	2718	56549											
MEP1A	4224	broad.mit.edu	37	chr6	46803248	46803248	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaacccttgccaaaatgaCggcatctgtgtgaacgtgaa	13	8	9	11	2	1	3	0	3	1	0	1	3	1	3	3	1	3	1	3	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:46803248C>T	uc010jzh.1	+	13	2088	c.2046C>T	c.(2044-2046)GAC>GAT	p.D682D	MEP1A_uc011dwg.1_Silent_p.D404D|MEP1A_uc011dwh.1_Silent_p.D710D|MEP1A_uc011dwi.1_Silent_p.D582D	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	682	EGF-like.|Extracellular (Potential).				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			GCCAAAATGACGGCATCTGTG	0.607													5	27					0	0	1	0	0		T	46803248	T	T	46803248	2	4	89	1	0	0	0	0	0	0	0	1	9493	535	19	1		1	MEP1A	6	46803248	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	126117	46803248	124311819	2719	56550											
GPR116	221395	broad.mit.edu	37	chr6	46821800	46821800	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttctggggtggaaacatTatacgttcctgaaaaacaga	13	11	10	7	1	1	2	0	1	1	1	2	3	2	3	1	3	4	2	1	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:46821800T>G	uc003oyo.3	-	21	4259	c.3970A>C	c.(3970-3972)AAT>CAT	p.N1324H	GPR116_uc011dwj.1_Missense_Mutation_p.N879H|GPR116_uc011dwk.1_3'UTR|GPR116_uc003oyp.3_Missense_Mutation_p.N1182H|GPR116_uc003oyq.3_Missense_Mutation_p.N1324H	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	1324	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			GTGGAAACATTATACGTTCCT	0.493													34	53					0	0	1	0	0		G	46821800	G	G	46821800	3	3	89	1	0	0	0	0	1	0	0	0	6648	1754	61	5	74	5	GPR116	6	46821800	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	18552	46821800	124293267	2720	56551											
GPR110	266977	broad.mit.edu	37	chr6	46996794	46996794	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccacagcactccaacttTcattttccctggactgaaca	11	10	6	14	0	1	1	1	1	0	0	3	3	3	2	3	1	4	1	3	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:46996794T>G	uc003oyt.2	-	2	203	c.4A>C	c.(4-6)AAA>CAA	p.K2Q	GPR110_uc011dwl.1_5'UTR|GPR110_uc003oyu.1_Missense_Mutation_p.K2Q	NM_153840	NP_722582	Q5T601	GP110_HUMAN	G-protein coupled receptor 110 isoform 1	2					neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|pancreas(1)	3						ACTCCAACTTTCATTTTCCCT	0.488													24	57					0	0	1	0	0		G	46996794	G	G	46996794	3	3	89	1	0	0	0	0	1	0	0	0	6642	1792	62	5	2834	5	GPR110	6	46996794	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	174994	46996794	124118273	2721	56552											
MUT	4594	broad.mit.edu	37	chr6	49419394	49419394	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatactgctgccattgcttCtattgcagtacggacaatat	12	13	7	9	1	1	0	0	0	1	0	1	1	1	1	1	1	6	4	1	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:49419394C>A	uc003ozg.3	-	6	1372	c.1117G>T	c.(1117-1119)GAA>TAA	p.E373*		NM_000255	NP_000246	P22033	MUTA_HUMAN	methylmalonyl Coenzyme A mutase precursor	373					fatty acid beta-oxidation	mitochondrial matrix	cobalamin binding|metal ion binding|methylmalonyl-CoA mutase activity				0	Lung NSC(77;0.0376)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GCCATTGCTTCTATTGCAGTA	0.368													25	39					4.4004e-07	4.60384e-07	1	1	0		A	49419394	A	A	49419394	4	1	89	1	0	0	0	0	0	1	0	0	10009	922	32	5	1167	5	MUT	6	49419394	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2422600	49419394	121695673	2722	56553											
TFAP2D	83741	broad.mit.edu	37	chr6	50696595	50696595	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtggtcaaccccacaGacttattttgctctgtccct	6	14	7	14	0	2	1	1	0	1	1	3	1	3	1	4	1	2	1	4	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:50696595G>T	uc003paf.2	+	4	1137	c.625G>T	c.(625-627)GAC>TAC	p.D209Y	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	209							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					CAACCCCACAGACTTATTTTG	0.463													25	65					1.16021e-09	1.2491e-09	1	1	0		T	50696595	T	T	50696595	3	4	89	1	0	0	0	0	1	0	0	0	15815	942	33	5	639	5	TFAP2D	6	50696595	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1277201	50696595	120418472	2723	56554											
TFAP2B	7021	broad.mit.edu	37	chr6	50796360	50796360	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgccaataacagcggcaTgaatctattggaccagtctg	13	9	10	9	1	2	2	0	1	2	1	2	3	2	3	2	2	3	1	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:50796360T>C	uc003pag.2	+	3	735	c.569T>C	c.(568-570)ATG>ACG	p.M190T		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	190					nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					AACAGCGGCATGAATCTATTG	0.328													40	78					0	0	1	0	0		C	50796360	C	C	50796360	3	2	89	1	0	0	0	0	1	0	0	0	15813	1464	51	3	579	3	TFAP2B	6	50796360	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	99765	50796360	120318707	2724	56555											
TFAP2B	7021	broad.mit.edu	37	chr6	50810818	50810818	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcaggcaactttgtaaaGaatttacggatctactggcg	11	13	10	7	2	1	1	0	0	1	1	1	2	1	2	0	3	4	3	0	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:50810818G>T	uc003pag.2	+	7	1262	c.1096G>T	c.(1096-1098)GAA>TAA	p.E366*		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	366				QLCKEFTDLLAQDRTPIGNSRPSPILEPGIQSCLTHFSLIT HGFGAPAICAALTALQNYLTEALKGMDKMFLNNTTTNRHTS GEGPGSKTGDKEEKHRK -> GNFVKNLRIYWRRTGHR (in Ref. 1; CAA71047).	nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					ACTTTGTAAAGAATTTACGGA	0.567													119	63					1.88967e-73	2.36014e-73	1	1	0		T	50810818	T	T	50810818	4	4	89	1	0	0	0	0	0	1	0	0	15813	943	33	5	1122	5	TFAP2B	6	50810818	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14458	50810818	120304249	2725	56556											
PKHD1	5314	broad.mit.edu	37	chr6	51524753	51524753	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtatgtacatttctgttCttctctaaatgtacctataa	10	19	5	7	0	3	0	0	0	3	0	4	0	3	0	1	1	2	4	1	1	7	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:51524753C>A	uc003pah.1	-	61	10447	c.10171G>T	c.(10171-10173)GAA>TAA	p.E3391*		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3391	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CATTTCTGTTCTTCTCTAAAT	0.348													17	26					9.16793e-09	9.77785e-09	1	1	0		A	51524753	A	A	51524753	4	1	89	1	0	0	0	0	0	1	0	0	11990	922	32	5	2081	5	PKHD1	6	51524753	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	713935	51524753	119590314	2726	56557											
PKHD1	5314	broad.mit.edu	37	chr6	51612618	51612618	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcctgaaattgaatgatCattcctcactttgtgccatg	10	15	7	9	0	2	3	2	3	0	0	4	4	4	3	3	0	1	0	3	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:51612618C>A	uc003pah.1	-	58	10072	c.9796G>T	c.(9796-9798)GAT>TAT	p.D3266Y	PKHD1_uc010jzn.1_Missense_Mutation_p.D1249Y|PKHD1_uc003pai.2_Missense_Mutation_p.D3266Y	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3266	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					ATTGAATGATCATTCCTCACT	0.408													34	78					6.02846e-25	7.25611e-25	1	1	0		A	51612618	A	A	51612618	3	1	89	1	0	0	0	0	1	0	0	0	11990	826	29	5	2507	5	PKHD1	6	51612618	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	87865	51612618	119502449	2727	56558											
PKHD1	5314	broad.mit.edu	37	chr6	51613035	51613035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atagagatgaaggccatgaaGacttgaatgcgccacattgt	14	9	11	7	1	0	5	0	3	0	2	0	6	0	5	2	1	1	0	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:51613035G>A	uc003pah.1	-	58	9655	c.9379C>T	c.(9379-9381)CTT>TTT	p.L3127F	PKHD1_uc010jzn.1_Missense_Mutation_p.L1110F|PKHD1_uc003pai.2_Missense_Mutation_p.L3127F	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3127	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AGGCCATGAAGACTTGAATGC	0.468													116	248					0	0	1	0	0		A	51613035	A	A	51613035	3	1	89	1	0	0	0	0	1	0	0	0	11990	942	33	4	2924	4	PKHD1	6	51613035	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	417	51613035	119502032	2728	56559											
PKHD1	5314	broad.mit.edu	37	chr6	51747971	51747971	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagacgtcaattccaaaatCtctgcatgaataaactttga	16	11	5	9	1	2	3	1	2	1	1	4	3	3	3	1	0	2	1	1	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:51747971C>A	uc003pah.1	-	46	7546	c.7270G>T	c.(7270-7272)GAT>TAT	p.D2424Y	PKHD1_uc010jzn.1_Missense_Mutation_p.D407Y|PKHD1_uc003pai.2_Missense_Mutation_p.D2424Y	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2424	Extracellular (Potential).|PbH1 5.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					ATTCCAAAATCTCTGCATGAA	0.368													21	30					1.55795e-14	1.75964e-14	1	1	0		A	51747971	A	A	51747971	3	1	89	1	0	0	0	0	1	0	0	0	11990	913	32	5	5081	5	PKHD1	6	51747971	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	134936	51747971	119367096	2729	56560											
PKHD1	5314	broad.mit.edu	37	chr6	51892664	51892664	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaggctcgatgctgaaaacTtctgtgaggtactggatgtg	10	11	13	7	1	1	2	0	2	1	0	2	4	1	3	0	3	3	3	0	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:51892664T>G	uc003pah.1	-	31	3867	c.3591A>C	c.(3589-3591)GAA>GAC	p.E1197D	PKHD1_uc003pai.2_Missense_Mutation_p.E1197D	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1197	Extracellular (Potential).|IPT/TIG 7.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TGCTGAAAACTTCTGTGAGGT	0.438													29	47					0	0	1	0	0		G	51892664	G	G	51892664	3	3	89	1	0	0	0	0	1	0	0	0	11990	1606	56	5	8820	5	PKHD1	6	51892664	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	144693	51892664	119222403	2730	56561											
PAQR8	85315	broad.mit.edu	37	chr6	52268312	52268312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcctttgccgaggctgagGccttgccatgggcgtctacc	4	9	15	13	2	1	1	0	1	1	0	1	2	1	1	5	4	3	1	5	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:52268312G>A	uc003pao.3	+	2	475	c.301G>A	c.(301-303)GCC>ACC	p.A101T		NM_133367	NP_588608	Q8TEZ7	MPRB_HUMAN	progestin and adipoQ receptor family member	101	Extracellular (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding				0	Lung NSC(77;0.0875)					CGAGGCTGAGGCCTTGCCATG	0.592													33	79					0	0	1	0	0		A	52268312	A	A	52268312	3	1	89	1	0	0	0	0	1	0	0	0	11460	1203	42	2	303	2	PAQR8	6	52268312	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	375648	52268312	118846755	2731	56562											
GSTA5	221357	broad.mit.edu	37	chr6	52702399	52702399	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagattctagaaatttCtcttccaactggaagcagaa	13	12	7	9	0	3	3	0	0	3	3	5	4	4	4	1	1	3	2	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:52702399C>A	uc003pba.1	-	3	166	c.96G>T	c.(94-96)GAG>GAT	p.E32D		NM_153699	NP_714543	Q7RTV2	GSTA5_HUMAN	glutathione S-transferase alpha 5	32	GST N-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.0912)				Glutathione(DB00143)	CTAGAAATTTCTCTTCCAACT	0.368													19	50					2.4624e-09	2.64481e-09	1	1	0		A	52702399	A	A	52702399	3	1	89	1	0	0	0	0	1	0	0	0	6850	912	32	5	592	5	GSTA5	6	52702399	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	434087	52702399	118412668	2732	56563											
GSTA4	2941	broad.mit.edu	37	chr6	52859107	52859107	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaccaacagtcccaatttCgcgtcttcaacccagtgctc	10	9	6	16	2	2	1	1	0	1	1	5	1	3	1	3	0	3	1	3	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:52859107C>T	uc003pbc.2	-	1	1	c.-63_splice	c.e1-1		GSTA4_uc003pbd.2_Splice_Site|GSTA4_uc003pbe.2_Splice_Site|GSTA4_uc003pbf.2_Intron|GSTA4_uc003pbg.2_5'Flank	NM_001512	NP_001503	O15217	GSTA4_HUMAN	glutathione S-transferase alpha 4						glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity|protein homodimerization activity				0	Lung NSC(77;0.103)				Glutathione(DB00143)	GTCCCAATTTCGCGTCTTCAA	0.473													14	25					0	0	1	0	0		T	52859107	T	T	52859107	5	4	89	1	0	0	0	0	0	0	1	0	6849	899	31	1		1	GSTA4	6	52859107	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	156708	52859107	118255960	2733	56564											
ICK	22858	broad.mit.edu	37	chr6	52897353	52897353	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttaatgagctggtaaaGattttccttcatgtactcga	10	16	7	8	1	2	2	1	1	1	1	4	3	3	2	1	1	2	3	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:52897353G>T	uc003pbh.2	-	5	746	c.256C>A	c.(256-258)CTT>ATT	p.L86I	ICK_uc003pbi.2_Missense_Mutation_p.L86I|ICK_uc003pbj.2_Missense_Mutation_p.L86I	NM_016513	NP_057597	Q9UPZ9	ICK_HUMAN	intestinal cell kinase	86	Protein kinase.				intracellular protein kinase cascade|multicellular organismal development	cytosol|nucleus	ATP binding|cyclin-dependent protein kinase activity|magnesium ion binding			ovary(1)|large_intestine(1)|lung(1)|kidney(1)|central_nervous_system(1)	5	Lung NSC(77;0.103)					AGCTGGTAAAGATTTTCCTTC	0.284													17	17					1.15919e-05	1.19703e-05	1	1	0		T	52897353	T	T	52897353	3	4	89	1	0	0	0	0	1	0	0	0	7500	942	33	5	1686	5	ICK	6	52897353	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	38246	52897353	118217714	2734	56565											
FBXO9	26268	broad.mit.edu	37	chr6	52960345	52960345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatacagatattttcgtcGtgtccctgtacaagaagcag	13	12	8	8	2	0	2	0	0	0	2	3	2	1	2	1	0	3	2	1	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:52960345G>A	uc003pbo.2	+	12	1169	c.1118G>A	c.(1117-1119)CGT>CAT	p.R373H	FBXO9_uc003pbk.2_Missense_Mutation_p.R329H|FBXO9_uc003pbl.2_Missense_Mutation_p.R363H|FBXO9_uc003pbm.2_Missense_Mutation_p.R253H|FBXO9_uc003pbn.2_Missense_Mutation_p.R253H	NM_012347	NP_036479	Q9UK97	FBX9_HUMAN	F-box only protein 9 isoform 1	373						ubiquitin ligase complex	ubiquitin-protein ligase activity			pancreas(1)	1	Lung NSC(77;0.103)					TATTTTCGTCGTGTCCCTGTA	0.378													17	23					0	0	1	0	0		A	52960345	A	A	52960345	3	1	89	1	0	0	0	0	1	0	0	0	5776	1145	40	1	1167	1	FBXO9	6	52960345	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	62992	52960345	118154722	2735	56566											
LRRC1	55227	broad.mit.edu	37	chr6	53767437	53767437	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttacaggaaaactaaaGaaactgtcaatcttgaaggt	16	11	8	6	0	2	2	1	1	1	1	2	3	2	3	0	2	3	1	0	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:53767437G>T	uc003pcd.1	+	9	1075	c.798G>T	c.(796-798)AAG>AAT	p.K266N		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	266	LRR 12.					cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		GAAAACTAAAGAAACTGTCAA	0.333													24	59					1.10923e-09	1.19438e-09	1	1	0		T	53767437	T	T	53767437	3	4	89	1	0	0	0	0	1	0	0	0	8984	933	33	5	832	5	LRRC1	6	53767437	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	807092	53767437	117347630	2736	56567											
LRRC1	55227	broad.mit.edu	37	chr6	53785469	53785469	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaacttggtaaatgatgtCtctgatgaagcctggaacga	13	10	12	6	1	1	4	0	3	1	1	2	7	1	5	1	2	3	1	1	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:53785469C>A	uc003pcd.1	+	13	1603	c.1326C>A	c.(1324-1326)GTC>GTA	p.V442V		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	442						cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		TAAATGATGTCTCTGATGAAG	0.463													33	54					2.81731e-10	3.05284e-10	1	1	0		A	53785469	A	A	53785469	2	1	89	1	0	0	0	0	0	0	0	1	8984	900	32	5		5	LRRC1	6	53785469	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	18032	53785469	117329598	2737	56568											
C6orf142	90523	broad.mit.edu	37	chr6	53989606	53989606	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaggggactgatctcaaGacctcatcacatcctgaaat	14	8	7	12	0	3	3	3	2	1	1	5	4	4	4	2	2	0	0	2	2	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:53989606G>T	uc003pcg.3	+	3	668	c.555G>T	c.(553-555)AAG>AAT	p.K185N	C6orf142_uc003pcf.2_Missense_Mutation_p.K185N|C6orf142_uc003pch.3_Missense_Mutation_p.K123N|C6orf142_uc011dwz.1_Missense_Mutation_p.K144N|C6orf142_uc011dxa.1_Missense_Mutation_p.K196N	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523	185						nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					CTGATCTCAAGACCTCATCAC	0.522													19	47					3.99206e-14	4.49031e-14	1	1	0		T	53989606	T	T	53989606	3	4	89	1	0	0	0	0	1	0	0	0	2336	933	33	5	565	5	C6orf142	6	53989606	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	204137	53989606	117125461	2738	56569											
TINAG	27283	broad.mit.edu	37	chr6	54214548	54214548	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctacccacttttcaaaGaccaaaatgctaccaacaat	16	9	3	13	0	1	1	1	0	0	1	1	1	1	1	3	0	5	2	3	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:54214548G>T	uc003pcj.2	+	7	1080	c.934G>T	c.(934-936)GAC>TAC	p.D312Y	TINAG_uc010jzt.2_RNA	NM_014464	NP_055279	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	312					cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			ACTTTTCAAAGACCAAAATGC	0.428													37	79					9.45814e-24	1.13393e-23	1	1	0		T	54214548	T	T	54214548	3	4	89	1	0	0	0	0	1	0	0	0	15946	942	33	5	960	5	TINAG	6	54214548	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	224942	54214548	116900519	2739	56570											
HCRTR2	3062	broad.mit.edu	37	chr6	55145214	55145214	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtatatgccaatagtgctgcGaatccaattatttataattt	13	16	6	6	1	0	0	0	0	0	0	1	1	1	0	2	0	3	2	2	0	9	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:55145214G>A	uc003pcl.2	+	6	1392	c.1077G>A	c.(1075-1077)GCG>GCA	p.A359A	HCRTR2_uc010jzv.2_RNA	NM_001526	NP_001517	O43614	OX2R_HUMAN	orexin receptor 2	359	Helical; Name=7; (Potential).				feeding behavior	integral to plasma membrane	neuropeptide receptor activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|breast(1)	6	Lung NSC(77;0.107)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			ATAGTGCTGCGAATCCAATTA	0.343													38	63					0	0	1	0	0		A	55145214	A	A	55145214	2	1	89	1	0	0	0	0	0	0	0	1	7018	1045	37	1		1	HCRTR2	6	55145214	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	930666	55145214	115969853	2740	56571											
BMP5	653	broad.mit.edu	37	chr6	55659124	55659124	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcccaaattattctggggaTtaatcacccaatgattgctg	12	12	8	9	0	2	1	1	1	1	0	2	2	2	2	2	2	2	1	2	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:55659124T>G	uc003pcq.2	-	3	1497	c.785A>C	c.(784-786)AAT>ACT	p.N262T	BMP5_uc011dxf.1_Missense_Mutation_p.N262T	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	262					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			ATTCTGGGGATTAATCACCCA	0.403													30	68					0	0	1	0	0		G	55659124	G	G	55659124	3	3	89	1	0	0	0	0	1	0	0	0	1464	1493	52	5	599	5	BMP5	6	55659124	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	513910	55659124	115455943	2741	56572											
DST	667	broad.mit.edu	37	chr6	56325025	56325025	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgataaatatcctggaagtcGaagcttgcttccttgtattg	10	15	9	7	1	0	1	0	1	0	0	3	3	2	2	2	1	2	3	2	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:56325025G>A	uc003pdf.2	-	96	16697	c.16669C>T	c.(16669-16671)CGA>TGA	p.R5557*	DST_uc003pcz.3_Nonsense_Mutation_p.R5379*|DST_uc011dxj.1_Nonsense_Mutation_p.R5408*|DST_uc011dxk.1_Nonsense_Mutation_p.R5419*|DST_uc003pcy.3_Nonsense_Mutation_p.R5053*|DST_uc003pcv.3_Nonsense_Mutation_p.R175*|DST_uc003pcw.3_Nonsense_Mutation_p.R136*|DST_uc003pcx.3_Nonsense_Mutation_p.R99*	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	7452					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CCTGGAAGTCGAAGCTTGCTT	0.458													16	38					0	0	1	0	0		A	56325025	A	A	56325025	4	1	89	1	0	0	0	0	0	1	0	0	4789	1066	37	1	366	1	DST	6	56325025	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	665901	56325025	114790042	2742	56573											
DST	667	broad.mit.edu	37	chr6	56354333	56354333	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attttgtctggatcatttgcGatttccagttcagaatccaa	10	16	7	8	1	3	1	2	0	1	1	5	3	5	2	2	1	1	1	2	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:56354333G>A	uc003pdf.2	-	80	14503	c.14475C>T	c.(14473-14475)ATC>ATT	p.I4825I	DST_uc003pcz.3_Silent_p.I4647I|DST_uc011dxj.1_Silent_p.I4676I|DST_uc011dxk.1_Silent_p.I4687I|DST_uc003pcy.3_Silent_p.I4321I|DST_uc003pda.3_Silent_p.I17I	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6733	Spectrin 18.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			GATCATTTGCGATTTCCAGTT	0.358													33	87					0	0	1	0	0		A	56354333	A	A	56354333	2	1	89	1	0	0	0	0	0	0	0	1	4789	1048	37	1		1	DST	6	56354333	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	29308	56354333	114760734	2743	56574											
ZNF451	26036	broad.mit.edu	37	chr6	56963933	56963933	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagagcctagcacctcttaTactgatgtaagtacattata	14	12	7	8	0	1	2	0	1	1	1	1	3	1	2	2	0	4	3	2	0	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:56963933T>C	uc003pdm.1	+	3	404	c.180T>C	c.(178-180)TAT>TAC	p.Y60Y	ZNF451_uc003pdl.2_Silent_p.Y60Y|ZNF451_uc003pdn.1_Silent_p.Y60Y|ZNF451_uc011dxn.1_Silent_p.Y60Y|ZNF451_uc003pdk.1_Silent_p.Y60Y|ZNF451_uc003pdo.2_RNA|uc003pdp.2_5'Flank	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	60					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			GCACCTCTTATACTGATGTAA	0.358													14	25					0	0	1	0	0		C	56963933	C	C	56963933	2	2	89	1	0	0	0	0	0	0	0	1	17947	1413	49	3		3	ZNF451	6	56963933	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	609600	56963933	114151134	2744	56575											
ZNF451	26036	broad.mit.edu	37	chr6	56997971	56997971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtttgacaatgggcaccttCtcttaggacatttgaaaagg	12	12	10	7	0	1	2	0	2	1	0	2	3	1	3	1	3	0	2	1	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:56997971C>T	uc003pdm.1	+	6	780	c.556C>T	c.(556-558)CTC>TTC	p.L186F	ZNF451_uc003pdl.2_Missense_Mutation_p.L186F|ZNF451_uc003pdn.1_Missense_Mutation_p.L186F|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Missense_Mutation_p.L186F	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	186	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TGGGCACCTTCTCTTAGGACA	0.393													23	85					0	0	1	0	0		T	56997971	T	T	56997971	3	4	89	1	0	0	0	0	1	0	0	0	17947	913	32	4	578	4	ZNF451	6	56997971	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34038	56997971	114117096	2745	56576											
RAB23	51715	broad.mit.edu	37	chr6	57061318	57061318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttggtatatctcccacttCggctactactttctctctcc	6	16	5	14	1	3	0	0	0	3	0	7	0	3	0	2	2	2	3	2	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:57061318C>T	uc003pds.2	-	4	534	c.328G>A	c.(328-330)GAA>AAA	p.E110K	RAB23_uc003pdt.2_Missense_Mutation_p.E110K|RAB23_uc010kac.2_Missense_Mutation_p.E110K|RAB23_uc010kad.2_Intron	NM_183227	NP_899050	Q9ULC3	RAB23_HUMAN	Ras-related protein Rab-23	110					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			skin(1)	1	Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TCTCCCACTTCGGCTACTACT	0.428													46	70					0	0	1	0	0		T	57061318	T	T	57061318	3	4	89	1	0	0	0	0	1	0	0	0	12935	893	31	1	401	1	RAB23	6	57061318	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	63347	57061318	114053749	2746	56577											
PRIM2	5558	broad.mit.edu	37	chr6	57467169	57467169	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttcagttgcctgaagatTattctatccaatccaccaag	11	13	5	12	0	2	2	1	1	1	1	4	2	4	2	5	0	1	1	5	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:57467169T>G	uc003pdx.2	+	12	1197	c.1110T>G	c.(1108-1110)ATT>ATG	p.I370M		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	370					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		GCCTGAAGATTATTCTATCCA	0.438													16	109					0	0	1	0	0		G	57467169	G	G	57467169	3	3	89	1	0	0	0	0	1	0	0	0	12513	1742	61	5	1148	5	PRIM2	6	57467169	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	405851	57467169	113647898	2747	56578											
PRIM2	5558	broad.mit.edu	37	chr6	57472420	57472420	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttgcagtcatacaagatCtctcctggagggataagcca	13	9	10	9	0	2	1	1	0	1	1	4	3	3	3	2	2	3	2	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:57472420C>A	uc003pdx.2	+	13	1296	c.1209C>A	c.(1207-1209)ATC>ATA	p.I403I		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	403					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		CATACAAGATCTCTCCTGGAG	0.443													7	52					1.06961e-07	1.12684e-07	1	1	0		A	57472420	A	A	57472420	2	1	89	1	0	0	0	0	0	0	0	1	12513	903	32	5		5	PRIM2	6	57472420	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5251	57472420	113642647	2748	56579											
PHF3	23469	broad.mit.edu	37	chr6	64395212	64395212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taatgtcaaaagtgtgaaacGaaatactgatgtaccagaat	18	10	8	5	1	1	3	1	2	0	1	1	4	1	3	1	0	3	1	1	0	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:64395212G>A	uc003pep.1	+	3	1615	c.1589G>A	c.(1588-1590)CGA>CAA	p.R530Q	PHF3_uc010kaf.1_Missense_Mutation_p.R530Q|PHF3_uc003pem.2_Missense_Mutation_p.R483Q|PHF3_uc010kag.1_Missense_Mutation_p.R442Q|PHF3_uc010kah.1_Missense_Mutation_p.R344Q|PHF3_uc003pen.2_Missense_Mutation_p.R442Q|PHF3_uc011dxs.1_Intron|PHF3_uc003peo.2_Missense_Mutation_p.R530Q	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	530					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			AGTGTGAAACGAAATACTGAT	0.343													21	48					0	0	1	0	0		A	64395212	A	A	64395212	3	1	89	1	0	0	0	0	1	0	0	0	11855	1058	37	1	1599	1	PHF3	6	64395212	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6922792	64395212	106719855	2749	56580											
PHF3	23469	broad.mit.edu	37	chr6	64395712	64395712	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagataacatagctaccAtaagaagagaaggctctgat	16	9	8	8	0	1	4	0	1	1	3	2	5	2	4	2	1	3	2	2	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:64395712A>C	uc003pep.1	+	3	2115	c.2089A>C	c.(2089-2091)ATA>CTA	p.I697L	PHF3_uc010kaf.1_Missense_Mutation_p.I697L|PHF3_uc003pem.2_Missense_Mutation_p.I650L|PHF3_uc010kag.1_Missense_Mutation_p.I609L|PHF3_uc010kah.1_Missense_Mutation_p.I511L|PHF3_uc003pen.2_Missense_Mutation_p.I609L|PHF3_uc011dxs.1_Intron|PHF3_uc003peo.2_Missense_Mutation_p.I697L	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	697					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			CATAGCTACCATAAGAAGAGA	0.418													38	84					0	0	1	0	0		C	64395712	C	C	64395712	3	2	89	1	0	0	0	0	1	0	0	0	11855	217	8	5	2099	5	PHF3	6	64395712	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	500	64395712	106719355	2750	56581											
BAI3	577	broad.mit.edu	37	chr6	69666665	69666665	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaatgtgaaggaacgggcGaagaagtgagaagatgcaat	17	5	15	4	2	0	4	0	2	0	3	0	7	0	5	0	2	3	2	0	2	7	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:69666665G>A	uc003pev.3	+	8	1937	c.1489G>A	c.(1489-1491)GAA>AAA	p.E497K	BAI3_uc010kak.2_Missense_Mutation_p.E497K	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	497	TSP type-1 4.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AGGAACGGGCGAAGAAGTGAG	0.453													22	71					0	0	1	0	0		A	69666665	A	A	69666665	3	1	89	1	0	0	0	0	1	0	0	0	1301	1059	37	1	1511	1	BAI3	6	69666665	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5270953	69666665	101448402	2751	56582											
LMBRD1	55788	broad.mit.edu	37	chr6	70407530	70407530	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgattatcagaagttatatTagtctgaaagataaaaatac	19	13	6	3	0	2	4	1	2	1	2	2	4	2	4	0	0	1	1	0	0	10	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:70407530T>C	uc003pfa.2	-	14	1457	c.1342A>G	c.(1342-1344)AAT>GAT	p.N448D	LMBRD1_uc003pey.2_Missense_Mutation_p.N244D|LMBRD1_uc003pez.2_Missense_Mutation_p.N375D|LMBRD1_uc010kal.2_Missense_Mutation_p.N375D|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	448	Extracellular (Potential).			N->Q: Affects glycosylation status; when associated with Q-457.	interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						GAAGTTATATTAGTCTGAAAG	0.294													21	47					0	0	1	0	0		C	70407530	C	C	70407530	3	2	89	1	0	0	0	0	1	0	0	0	8859	1754	61	3	292	3	LMBRD1	6	70407530	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	740865	70407530	100707537	2752	56583											
COL9A1	1297	broad.mit.edu	37	chr6	71009840	71009840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggatagctcttctagatgCtgctttatctacctggaact	8	15	8	10	0	3	1	0	0	3	1	3	3	3	3	1	2	5	3	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:71009840C>T	uc003pfg.3	-	4	364	c.205G>A	c.(205-207)GCA>ACA	p.A69T		NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	69	Nonhelical region (NC4).|TSP N-terminal.				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						CTTCTAGATGCTGCTTTATCT	0.383													23	49					0	0	1	0	0		T	71009840	T	T	71009840	3	4	89	1	0	0	0	0	1	0	0	0	3710	797	28	2	2776	2	COL9A1	6	71009840	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	602310	71009840	100105227	2753	56584											
FAM135A	57579	broad.mit.edu	37	chr6	71235543	71235543	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaaattcaagcattaaagAccctttacaatttgtttttt	13	18	3	7	0	1	1	1	0	0	1	1	1	1	1	1	0	2	2	1	0	7	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:71235543A>C	uc003pfj.2	+	13	2889	c.2756A>C	c.(2755-2757)GAC>GCC	p.D919A	FAM135A_uc003pfi.2_Missense_Mutation_p.D723A|FAM135A_uc003pfh.2_Missense_Mutation_p.D706A|FAM135A_uc003pfl.2_Missense_Mutation_p.D586A|FAM135A_uc003pfn.2_Intron|FAM135A_uc003pfo.1_Missense_Mutation_p.D290A|FAM135A_uc010kan.1_5'Flank	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	919										central_nervous_system(1)	1						AGCATTAAAGACCCTTTACAA	0.363													33	66					0	0	1	0	0		C	71235543	C	C	71235543	3	2	89	1	0	0	0	0	1	0	0	0	5459	275	10	5	2884	5	FAM135A	6	71235543	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	225703	71235543	99879524	2754	56585											
RIMS1	22999	broad.mit.edu	37	chr6	72975748	72975748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttgcattcaccagaacgaGaaaggtataaaataaagact	18	9	8	6	1	1	3	1	0	0	3	1	4	1	3	1	1	2	3	1	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:72975748G>A	uc003pga.2	+	22	3471	c.3394G>A	c.(3394-3396)GAA>AAA	p.E1132K	RIMS1_uc011dyb.1_Intron|RIMS1_uc003pgc.2_Missense_Mutation_p.E694K|RIMS1_uc010kaq.2_Missense_Mutation_p.E541K|RIMS1_uc011dyc.1_Missense_Mutation_p.E542K|RIMS1_uc010kar.2_Missense_Mutation_p.E461K|RIMS1_uc011dyd.1_Missense_Mutation_p.E527K|RIMS1_uc003pgf.2_Intron|RIMS1_uc003pgg.2_Missense_Mutation_p.E285K|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Missense_Mutation_p.E284K|RIMS1_uc003pgd.2_Missense_Mutation_p.E311K|RIMS1_uc003pge.2_Missense_Mutation_p.E285K|RIMS1_uc011dye.1_Intron|RIMS1_uc011dyf.1_Intron|RIMS1_uc010kas.1_Missense_Mutation_p.E527K	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1132					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				ACCAGAACGAGAAAGGTATAA	0.383													3	5					0	0	1	0	0		A	72975748	A	A	72975748	3	1	89	1	0	0	0	0	1	0	0	0	13392	943	33	4	3643	4	RIMS1	6	72975748	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1740205	72975748	98139319	2755	56586											
RIMS1	22999	broad.mit.edu	37	chr6	73108789	73108789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaagtccacagggtaaagTtcttcaggtcagtaatagtt	13	12	10	6	0	3	1	2	1	1	0	4	1	4	1	1	2	0	4	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:73108789T>C	uc003pga.2	+	33	4930	c.4853T>C	c.(4852-4854)GTT>GCT	p.V1618A	RIMS1_uc011dyb.1_Missense_Mutation_p.V1015A|RIMS1_uc003pgc.2_Missense_Mutation_p.V1033A|RIMS1_uc010kaq.2_Missense_Mutation_p.V938A|RIMS1_uc011dyc.1_Missense_Mutation_p.V743A|RIMS1_uc010kar.2_Missense_Mutation_p.V686A|RIMS1_uc011dyd.1_Missense_Mutation_p.V752A|RIMS1_uc003pgf.2_Missense_Mutation_p.V618A|RIMS1_uc003pgg.2_Missense_Mutation_p.V514A|RIMS1_uc003pgi.2_Missense_Mutation_p.V434A|RIMS1_uc003pgh.2_Missense_Mutation_p.V485A|RIMS1_uc003pgd.2_Missense_Mutation_p.V684A|RIMS1_uc003pge.2_Missense_Mutation_p.V658A|RIMS1_uc011dye.1_Missense_Mutation_p.V424A|RIMS1_uc011dyf.1_Missense_Mutation_p.V242A|RIMS1_uc011dyg.1_Missense_Mutation_p.V145A	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1618	C2 2.				calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				CAGGGTAAAGTTCTTCAGGTC	0.383													32	45					0	0	1	0	0		C	73108789	C	C	73108789	3	2	89	1	0	0	0	0	1	0	0	0	13392	1725	60	3	5146	3	RIMS1	6	73108789	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	133041	73108789	98006278	2756	56587											
KCNQ5	56479	broad.mit.edu	37	chr6	73843259	73843259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagcaccgacatcacagccGagggcagtcccaccaaagtg	13	3	10	15	2	1	0	1	0	0	0	2	2	2	0	4	1	2	2	4	1	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:73843259G>A	uc003pgk.2	+	10	1710	c.1363G>A	c.(1363-1365)GAG>AAG	p.E455K	KCNQ5_uc011dyh.1_Missense_Mutation_p.E474K|KCNQ5_uc011dyi.1_Missense_Mutation_p.E465K|KCNQ5_uc010kat.2_Missense_Mutation_p.E446K|KCNQ5_uc011dyj.1_Intron|KCNQ5_uc011dyk.1_Missense_Mutation_p.E205K	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	455					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CATCACAGCCGAGGGCAGTCC	0.592													42	75					0	0	1	0	0		A	73843259	A	A	73843259	3	1	89	1	0	0	0	0	1	0	0	0	8102	1059	37	1	1462	1	KCNQ5	6	73843259	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	734470	73843259	97271808	2757	56588											
C6orf150	115004	broad.mit.edu	37	chr6	74138502	74138502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgttcaaaatttccttttCgatgtgagagaaggatagcc	12	14	9	6	1	1	2	1	1	0	1	3	5	2	3	2	1	1	1	2	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:74138502C>T	uc003pgx.1	-	4	1286	c.1147G>A	c.(1147-1149)GAA>AAA	p.E383K		NM_138441	NP_612450	Q8N884	M21D1_HUMAN	hypothetical protein LOC115004	383											0						ATTTCCTTTTCGATGTGAGAG	0.323													12	33					0	0	1	0	0		T	74138502	T	T	74138502	3	4	89	1	0	0	0	0	1	0	0	0	2340	893	31	1	429	1	C6orf150	6	74138502	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	295243	74138502	96976565	2758	56589											
MTO1	25821	broad.mit.edu	37	chr6	74191931	74191931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagagttccgtttgtcactgCgccctgataatgctgacagc	8	12	10	11	2	1	3	1	2	0	1	2	3	2	3	2	0	3	3	2	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:74191931C>T	uc003pgy.3	+	9	1628	c.1504C>T	c.(1504-1506)CGC>TGC	p.R502C	MTO1_uc010kav.2_Missense_Mutation_p.R517C|MTO1_uc003pgz.3_Missense_Mutation_p.R477C|MTO1_uc003pha.3_Missense_Mutation_p.R139C|MTO1_uc003phb.3_Missense_Mutation_p.R428C	NM_133645	NP_598400	Q9Y2Z2	MTO1_HUMAN	mitochondrial translation optimization 1 homolog	502					tRNA processing	mitochondrion	flavin adenine dinucleotide binding			ovary(3)|skin(2)|pancreas(1)	6						TTTGTCACTGCGCCCTGATAA	0.418													15	55					0	0	1	0	0		T	74191931	T	T	74191931	3	4	89	1	0	0	0	0	1	0	0	0	9971	768	27	1	1662	1	MTO1	6	74191931	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	53429	74191931	96923136	2759	56590											
CD109	135228	broad.mit.edu	37	chr6	74530184	74530184	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactcttttgtatttctcaaGgtaaatgaaacccagttttg	11	16	7	7	0	2	1	1	1	2	0	3	2	2	1	1	1	1	3	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:74530184G>A	uc003php.2	+	32	4485	c.4060_splice	c.e32-1	p.V1354_splice	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Splice_Site_p.V1337_splice|CD109_uc010kba.2_Splice_Site_p.V1277_splice	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor							anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						TATTTCTCAAGGTAAATGAAA	0.328													16	31					0	0	1	0	0		A	74530184	A	A	74530184	5	1	89	1	0	0	0	0	0	0	1	0	2966	1014	35	4	4185	4	CD109	6	74530184	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	338253	74530184	96584883	2760	56591											
COL12A1	1303	broad.mit.edu	37	chr6	75841699	75841699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaggagaatacacaacgCgatattgcagcacaggtcct	14	6	9	12	2	0	1	0	0	0	1	1	3	1	1	2	2	4	2	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:75841699C>T	uc003phs.2	-	35	6060	c.5894G>A	c.(5893-5895)CGC>CAC	p.R1965H	COL12A1_uc003pht.2_Missense_Mutation_p.R801H	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1965	Fibronectin type-III 15.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						ATACACAACGCGATATTGCAG	0.468													25	49					0	0	1	0	0		T	75841699	T	T	75841699	3	4	89	1	0	0	0	0	1	0	0	0	3672	768	27	1	3425	1	COL12A1	6	75841699	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1311515	75841699	95273368	2761	56592											
COL12A1	1303	broad.mit.edu	37	chr6	75848567	75848567	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atctgagcttccaaaaggtgCccaagttattctgtagagag	12	11	10	8	0	2	2	0	1	2	1	3	3	3	2	2	1	2	3	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:75848567C>T	uc003phs.2	-	28	5234	c.5068G>A	c.(5068-5070)GCA>ACA	p.A1690T	COL12A1_uc003pht.2_Missense_Mutation_p.A526T	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1690	Fibronectin type-III 12.			A -> G (in Ref. 1; AAC51244).	cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CCAAAAGGTGCCCAAGTTATT	0.403													35	76					0	0	1	0	0		T	75848567	T	T	75848567	3	4	89	1	0	0	0	0	1	0	0	0	3672	739	26	2	4279	2	COL12A1	6	75848567	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6868	75848567	95266500	2762	56593											
COL12A1	1303	broad.mit.edu	37	chr6	75890799	75890799	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctccaccacagtgacctCatcatccccagccgcttcct	7	9	6	19	1	2	1	2	1	0	0	5	1	5	1	7	1	1	2	7	1	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:75890799C>A	uc003phs.2	-	11	2186	c.2020G>T	c.(2020-2022)GAG>TAG	p.E674*	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_Nonsense_Mutation_p.E332*	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	674	Fibronectin type-III 3.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						ACAGTGACCTCATCATCCCCA	0.478													44	62					6.07928e-31	7.44305e-31	1	1	0		A	75890799	A	A	75890799	4	1	89	1	0	0	0	0	0	1	0	0	3672	835	29	5	7395	5	COL12A1	6	75890799	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	42232	75890799	95224268	2763	56594											
COL12A1	1303	broad.mit.edu	37	chr6	75893216	75893216	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccggctgtattgcacaaGactaatctggaccctatttg	10	12	8	11	1	1	1	0	0	1	1	2	2	2	2	2	2	1	3	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:75893216G>T	uc003phs.2	-	10	1607	c.1441C>A	c.(1441-1443)CTT>ATT	p.L481I	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_Missense_Mutation_p.L139I	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	481	VWFA 2.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TATTGCACAAGACTAATCTGG	0.363													34	76					9.04072e-19	1.05817e-18	1	1	0		T	75893216	T	T	75893216	3	4	89	1	0	0	0	0	1	0	0	0	3672	942	33	5	7978	5	COL12A1	6	75893216	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2417	75893216	95221851	2764	56595											
FILIP1	27145	broad.mit.edu	37	chr6	76018411	76018411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccttagccactgccctcagCccttcccccctccgagagag	6	7	7	21	1	1	1	1	0	0	1	3	3	3	1	8	0	3	0	8	0	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:76018411C>T	uc003pia.2	-	6	4011	c.3638G>A	c.(3637-3639)GGC>GAC	p.G1213D	FILIP1_uc003phy.1_Intron|FILIP1_uc003phz.2_Missense_Mutation_p.G1114D|FILIP1_uc010kbe.2_Missense_Mutation_p.G1216D	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	1213										skin(3)|ovary(1)	4						CTGCCCTCAGCCCTTCCCCCC	0.493													56	135					0	0	1	0	0		T	76018411	T	T	76018411	3	4	89	1	0	0	0	0	1	0	0	0	5908	739	26	2	7	2	FILIP1	6	76018411	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	125195	76018411	95096656	2765	56596											
MYO6	4646	broad.mit.edu	37	chr6	76551007	76551007	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcaaggcaaagaggaaaGaaattatcatatcttttata	17	13	7	4	0	3	2	2	0	1	2	3	3	3	3	0	2	0	2	0	2	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:76551007G>T	uc003pih.1	+	9	1007	c.728G>T	c.(727-729)AGA>ATA	p.R243I	MYO6_uc003pig.1_Missense_Mutation_p.R243I|MYO6_uc003pii.1_Missense_Mutation_p.R243I	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	243	Myosin head-like.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		AAAGAGGAAAGAAATTATCAT	0.353													16	39					4.14922e-12	4.57968e-12	1	1	0		T	76551007	T	T	76551007	3	4	89	1	0	0	0	0	1	0	0	0	10099	942	33	5	758	5	MYO6	6	76551007	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	532596	76551007	94564060	2766	56597											
MYO6	4646	broad.mit.edu	37	chr6	76551055	76551055	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctggtgcttctgaagataTtagagaaaaacttcatttga	13	14	9	5	0	2	4	1	2	1	2	2	5	2	4	0	1	3	2	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:76551055T>C	uc003pih.1	+	9	1055	c.776T>C	c.(775-777)ATT>ACT	p.I259T	MYO6_uc003pig.1_Missense_Mutation_p.I259T|MYO6_uc003pii.1_Missense_Mutation_p.I259T	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	259	Myosin head-like.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		TCTGAAGATATTAGAGAAAAA	0.284													14	38					0	0	1	0	0		C	76551055	C	C	76551055	3	2	89	1	0	0	0	0	1	0	0	0	10099	1493	52	3	806	3	MYO6	6	76551055	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	48	76551055	94564012	2767	56598											
MYO6	4646	broad.mit.edu	37	chr6	76604947	76604947	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaatatattcttttcacaGaaatgatggaacaagaccca	18	11	5	7	0	2	3	1	1	1	2	2	4	2	4	1	1	1	0	1	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:76604947G>T	uc003pih.1	+	29	3387	c.3108_splice	c.e29-1	p.R1036_splice	MYO6_uc003pig.1_Intron|MYO6_uc003pii.1_Intron|MYO6_uc003pij.1_5'UTR	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI						actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		TCTTTTCACAGAAATGATGGA	0.303													16	45					8.00594e-06	8.28612e-06	1	1	0		T	76604947	T	T	76604947	5	4	89	1	0	0	0	0	0	0	1	0	10099	956	33	5	3217	5	MYO6	6	76604947	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	53892	76604947	94510120	2768	56599											
IMPG1	3617	broad.mit.edu	37	chr6	76633355	76633355	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagtatgattttaccttgTtattttgttgattttggaac	10	20	8	3	0	0	2	0	2	0	0	0	4	0	3	1	1	2	3	1	1	5	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:76633355T>C	uc003pik.1	-	16	2442	c.2312A>G	c.(2311-2313)AAC>AGC	p.N771S		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	771					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				TTTTACCTTGTTATTTTGTTG	0.279													9	27					0	0	1	0	0		C	76633355	C	C	76633355	3	2	89	1	0	0	0	0	1	0	0	0	7744	1725	60	3	89	3	IMPG1	6	76633355	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	28408	76633355	94481712	2769	56600											
HTR1B	3351	broad.mit.edu	37	chr6	78173062	78173062	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggataagttggcttgaggaAcccaggtctcggagcccgcg	9	7	15	10	3	1	1	0	1	1	0	2	4	1	4	2	5	2	2	2	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:78173062A>G	uc003pil.1	-	1	59	c.59T>C	c.(58-60)GTT>GCT	p.V20A		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	20	Extracellular (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	GGCTTGAGGAACCCAGGTCTC	0.622													36	64					0	0	1	0	0		G	78173062	G	G	78173062	3	3	89	1	0	0	0	0	1	0	0	0	7453	43	2	3	1117	3	HTR1B	6	78173062	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1539707	78173062	92942005	2770	56601											
PHIP	55023	broad.mit.edu	37	chr6	79656535	79656535	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagatttataatctgataaAactgaactaatgtgttcttc	14	15	6	6	0	2	3	0	2	2	1	3	3	2	3	0	0	2	2	0	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:79656535A>C	uc003pir.2	-	37	4489	c.4263T>G	c.(4261-4263)GTT>GTG	p.V1421V	PHIP_uc003piq.2_Silent_p.V445V|PHIP_uc011dyp.1_Silent_p.V1420V|PHIP_uc003pio.3_Silent_p.V307V	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1421					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		AATCTGATAAAACTGAACTAA	0.368													21	50					0	0	1	0	0		C	79656535	C	C	79656535	2	2	89	1	0	0	0	0	0	0	0	1	11861	1	1	5		5	PHIP	6	79656535	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1483473	79656535	91458532	2771	56602											
LCA5	167691	broad.mit.edu	37	chr6	80222985	80222985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctgaaactagtttctttgCcaaatcatctcgttcaggta	10	15	7	9	1	4	1	2	1	2	0	5	1	4	1	1	1	3	4	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:80222985C>T	uc003pix.2	-	3	1099	c.664G>A	c.(664-666)GCA>ACA	p.A222T	LCA5_uc003piy.2_Missense_Mutation_p.A222T|LCA5_uc011dyq.1_RNA|LCA5_uc011dyr.1_Missense_Mutation_p.A222T	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	222	Potential.				protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		AGTTTCTTTGCCAAATCATCT	0.358													45	82					0	0	1	0	0		T	80222985	T	T	80222985	3	4	89	1	0	0	0	0	1	0	0	0	8672	739	26	2	1453	2	LCA5	6	80222985	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	566450	80222985	90892082	2772	56603											
LCA5	167691	broad.mit.edu	37	chr6	80223141	80223141	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttaagcgttctttgagtgCtgtaatctcattgttatgac	8	18	8	7	1	3	2	1	2	3	0	4	2	3	2	0	0	2	4	0	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:80223141C>A	uc003pix.2	-	3	943	c.508G>T	c.(508-510)GCA>TCA	p.A170S	LCA5_uc003piy.2_Missense_Mutation_p.A170S|LCA5_uc011dyq.1_RNA|LCA5_uc011dyr.1_Missense_Mutation_p.A170S	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	170	Potential.				protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		TCTTTGAGTGCTGTAATCTCA	0.358													42	81					8.16277e-20	9.61182e-20	1	1	0		A	80223141	A	A	80223141	3	1	89	1	0	0	0	0	1	0	0	0	8672	797	28	5	1609	5	LCA5	6	80223141	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	156	80223141	90891926	2773	56604											
TTK	7272	broad.mit.edu	37	chr6	80717654	80717654	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttaaataaattgattggtCgttacagtcaagcaattgaa	15	15	7	4	1	1	2	1	2	0	0	2	2	1	2	0	1	2	2	0	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:80717654C>T	uc003pjc.2	+	3	342	c.268C>T	c.(268-270)CGT>TGT	p.R90C	TTK_uc003pjb.3_Missense_Mutation_p.R90C	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	90					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		ATTGATTGGTCGTTACAGTCA	0.388													39	55					0	0	1	0	0		T	80717654	T	T	80717654	3	4	89	1	0	0	0	0	1	0	0	0	16746	884	31	1	274	1	TTK	6	80717654	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	494513	80717654	90397413	2774	56605											
FAM46A	55603	broad.mit.edu	37	chr6	82460081	82460081	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaactgcctccggagggaAtccacaaatttcagttccac	12	9	7	13	1	2	0	2	0	0	0	5	2	5	2	4	2	2	1	4	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:82460081A>G	uc003pjg.2	-	3	978	c.660T>C	c.(658-660)GAT>GAC	p.D220D	FAM46A_uc003pjf.2_Silent_p.D239D	NM_017633	NP_060103	Q96IP4	FA46A_HUMAN	hypothetical protein LOC55603	220											0		all_cancers(76;6.74e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000282)|all_epithelial(107;0.0104)		BRCA - Breast invasive adenocarcinoma(397;0.0428)		TCCGGAGGGAATCCACAAATT	0.393													29	55					0	0	1	0	0		G	82460081	G	G	82460081	2	3	89	1	0	0	0	0	0	0	0	1	5579	98	4	3		3	FAM46A	6	82460081	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1742427	82460081	88654986	2775	56606											
IBTK	25998	broad.mit.edu	37	chr6	82914599	82914599	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagttaatgctacttcacaAatctctttcaaccgggttat	11	15	5	10	1	4	0	3	0	1	0	5	0	4	0	1	1	3	3	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:82914599A>C	uc003pjl.1	-	17	3113	c.2586T>G	c.(2584-2586)ATT>ATG	p.I862M	IBTK_uc011dyu.1_Translation_Start_Site|IBTK_uc011dyv.1_Missense_Mutation_p.I862M|IBTK_uc011dyw.1_Missense_Mutation_p.I661M|IBTK_uc010kbi.1_Missense_Mutation_p.I556M|IBTK_uc003pjm.2_Missense_Mutation_p.I862M	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	862					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		CTACTTCACAAATCTCTTTCA	0.274													19	31					0	0	1	0	0		C	82914599	C	C	82914599	3	2	89	1	0	0	0	0	1	0	0	0	7492	10	1	5	1527	5	IBTK	6	82914599	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	454518	82914599	88200468	2776	56607											
DOPEY1	23033	broad.mit.edu	37	chr6	83819957	83819957	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgtttacctggaatcacgtAtgttcttgcccatttaaaca	10	14	7	10	2	2	0	1	0	1	0	2	1	2	1	2	1	3	3	2	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:83819957A>G	uc003pjs.1	+	6	865	c.605A>G	c.(604-606)TAT>TGT	p.Y202C	DOPEY1_uc011dyy.1_Missense_Mutation_p.Y202C|DOPEY1_uc010kbl.1_Missense_Mutation_p.Y202C	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	202					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		GGAATCACGTATGTTCTTGCC	0.433													85	117					0	0	1	0	0		G	83819957	G	G	83819957	3	3	89	1	0	0	0	0	1	0	0	0	4713	449	16	3	619	3	DOPEY1	6	83819957	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	905358	83819957	87295110	2777	56608											
PGM3	5238	broad.mit.edu	37	chr6	83884180	83884180	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgattgttttatcttCatttcaacagctgtactaaa	10	18	5	8	0	4	1	2	1	2	0	4	1	4	1	0	0	4	4	0	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:83884180C>A	uc003pjv.2	-	10	1195	c.1155G>T	c.(1153-1155)ATG>ATT	p.M385I	PGM3_uc003pjw.2_Missense_Mutation_p.M304I|PGM3_uc011dyz.1_Missense_Mutation_p.M413I	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	385					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		GTTTTATCTTCATTTCAACAG	0.338													15	28					2.48551e-13	2.7759e-13	1	1	0		A	83884180	A	A	83884180	3	1	89	1	0	0	0	0	1	0	0	0	11819	826	29	5	489	5	PGM3	6	83884180	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	64223	83884180	87230887	2778	56609											
PRSS35	167681	broad.mit.edu	37	chr6	84233365	84233365	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcatcgaatgccagaaaGaactcccaactcccagcctt	12	7	8	14	1	0	2	0	0	0	2	3	3	2	2	4	1	4	1	4	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:84233365G>T	uc003pjz.2	+	2	368	c.205G>T	c.(205-207)GAA>TAA	p.E69*	PRSS35_uc010kbm.2_Nonsense_Mutation_p.E69*	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	69					proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		ATGCCAGAAAGAACTCCCAAC	0.468													27	70					7.92952e-12	8.72397e-12	1	1	0		T	84233365	T	T	84233365	4	4	89	1	0	0	0	0	0	1	0	0	12646	943	33	5	207	5	PRSS35	6	84233365	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	349185	84233365	86881702	2779	56610											
PRSS35	167681	broad.mit.edu	37	chr6	84233890	84233890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccggggtcagaggattgccGaagggaggccttcctttcag	7	8	16	10	2	2	1	2	0	0	1	3	4	3	3	4	5	1	0	4	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:84233890G>A	uc003pjz.2	+	2	893	c.730G>A	c.(730-732)GAA>AAA	p.E244K	PRSS35_uc010kbm.2_Missense_Mutation_p.E244K	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	244	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		GAGGATTGCCGAAGGGAGGCC	0.567													21	48					0	0	1	0	0		A	84233890	A	A	84233890	3	1	89	1	0	0	0	0	1	0	0	0	12646	1059	37	1	732	1	PRSS35	6	84233890	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	525	84233890	86881177	2780	56611											
CYB5R4	51167	broad.mit.edu	37	chr6	84618734	84618734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttttacataccaggttcatCgttgggtcaattatgaatcc	10	15	8	8	1	2	1	2	1	0	0	4	1	3	1	2	2	2	3	2	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:84618734C>T	uc003pkf.2	+	4	469	c.337C>T	c.(337-339)CGT>TGT	p.R113C		NM_016230	NP_057314	Q7L1T6	NB5R4_HUMAN	cytochrome b5 reductase 4	113	Cytochrome b5 heme-binding.				cell development|detection of oxygen|generation of precursor metabolites and energy|glucose homeostasis|insulin secretion|response to antibiotic|superoxide metabolic process	endoplasmic reticulum|perinuclear region of cytoplasm	cytochrome-b5 reductase activity|heme binding|NAD(P)H oxidase activity			breast(2)	2		all_cancers(76;7e-07)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00128)		BRCA - Breast invasive adenocarcinoma(397;0.0871)		CCAGGTTCATCGTTGGGTCAA	0.418													12	35					0	0	1	0	0		T	84618734	T	T	84618734	3	4	89	1	0	0	0	0	1	0	0	0	4132	884	31	1	351	1	CYB5R4	6	84618734	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	384844	84618734	86496333	2781	56612											
SYNCRIP	10492	broad.mit.edu	37	chr6	86333812	86333812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaatatgttttccagaacGaatttcatgattattatact	14	16	4	7	1	1	2	1	1	0	1	2	3	2	2	2	0	2	1	2	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:86333812G>A	uc003pla.2	-	7	1226	c.685C>T	c.(685-687)CGT>TGT	p.R229C	SYNCRIP_uc003pku.2_Missense_Mutation_p.R229C|SYNCRIP_uc003pkw.2_Missense_Mutation_p.R229C|SYNCRIP_uc003pky.2_Missense_Mutation_p.R131C|SYNCRIP_uc003pkv.2_Missense_Mutation_p.R229C|SYNCRIP_uc003pkx.2_Missense_Mutation_p.R77C|SYNCRIP_uc003pkz.2_Missense_Mutation_p.R229C	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	229	RRM 1.				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		TTTCCAGAACGAATTTCATGA	0.328													19	49					0	0	1	0	0		A	86333812	A	A	86333812	3	1	89	1	0	0	0	0	1	0	0	0	15469	1058	37	1	1252	1	SYNCRIP	6	86333812	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1715078	86333812	84781255	2782	56613											
SYNCRIP	10492	broad.mit.edu	37	chr6	86349994	86349994	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctactttggtcccttgtTtttctctctgcctgtaagtc	3	19	7	12	0	2	0	0	0	2	0	5	0	3	0	2	1	3	3	2	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:86349994T>C	uc003pla.2	-	4	861	c.320A>G	c.(319-321)AAA>AGA	p.K107R	SYNCRIP_uc003pku.2_Missense_Mutation_p.K107R|SYNCRIP_uc003pkw.2_Missense_Mutation_p.K107R|SYNCRIP_uc003pky.2_Missense_Mutation_p.K9R|SYNCRIP_uc003pkv.2_Missense_Mutation_p.K107R|SYNCRIP_uc003pkx.2_5'UTR|SYNCRIP_uc003pkz.2_Missense_Mutation_p.K107R	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	107					CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		GGTCCCTTGTTTTTCTCTCTG	0.338													49	81					0	0	1	0	0		C	86349994	C	C	86349994	3	2	89	1	0	0	0	0	1	0	0	0	15469	1841	64	3	1629	3	SYNCRIP	6	86349994	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	16182	86349994	84765073	2783	56614											
HTR1E	3354	broad.mit.edu	37	chr6	87725558	87725558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaccgccgcctaagccctcCccctagtcagtgcaccatcc	7	6	6	22	2	1	0	1	0	0	0	3	0	3	0	9	0	2	1	9	0	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:87725558C>T	uc003pli.2	+	2	1209	c.506C>T	c.(505-507)CCC>CTC	p.P169L		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	169	Extracellular (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	CTAAGCCCTCCCCCTAGTCAG	0.532													34	82					0	0	1	0	0		T	87725558	T	T	87725558	3	4	89	1	0	0	0	0	1	0	0	0	7455	623	22	4	508	4	HTR1E	6	87725558	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1375564	87725558	83389509	2784	56615											
ZNF292	23036	broad.mit.edu	37	chr6	87967536	87967536	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggtgggcacttatccaagCgatcttactgtaaaccactg	10	11	10	10	1	1	0	0	0	1	0	2	1	2	0	2	2	3	2	2	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:87967536C>T	uc003plm.3	+	8	4230	c.4189C>T	c.(4189-4191)CGA>TGA	p.R1397*		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1397	C2H2-type 8; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		CTTATCCAAGCGATCTTACTG	0.448													39	66					0	0	1	0	0		T	87967536	T	T	87967536	4	4	89	1	0	0	0	0	0	1	0	0	17851	760	27	1	4219	1	ZNF292	6	87967536	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	241978	87967536	83147531	2785	56616											
ZNF292	23036	broad.mit.edu	37	chr6	87969690	87969690	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagtccttacagaccttatCgatgtgttcaccagggatgc	10	11	9	11	1	1	1	1	0	0	1	3	3	2	2	3	1	2	1	3	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:87969690C>T	uc003plm.3	+	8	6384	c.6343C>T	c.(6343-6345)CGA>TGA	p.R2115*		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	2115	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		CAGACCTTATCGATGTGTTCA	0.418													33	81					0	0	1	0	0		T	87969690	T	T	87969690	4	4	89	1	0	0	0	0	0	1	0	0	17851	876	31	1	6373	1	ZNF292	6	87969690	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2154	87969690	83145377	2786	56617											
C6orf165	154313	broad.mit.edu	37	chr6	88120335	88120335	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctggatccaagtaatggCtttaacatggatagaaccct	12	11	9	9	0	0	1	0	0	0	1	2	3	2	3	3	3	2	2	3	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:88120335C>T	uc003plv.2	+	3	233	c.141C>T	c.(139-141)GGC>GGT	p.G47G	C6orf165_uc003plw.2_5'UTR|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Silent_p.G47G	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	47										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		CAAGTAATGGCTTTAACATGG	0.348													29	76					0	0	1	0	0		T	88120335	T	T	88120335	2	4	89	1	0	0	0	0	0	0	0	1	2344	784	28	2		2	C6orf165	6	88120335	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	150645	88120335	82994732	2787	56618											
C6orf165	154313	broad.mit.edu	37	chr6	88123615	88123615	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgatatgaattatacgaatCgaggtaatgtatactaccta	15	13	7	6	3	0	1	0	1	0	0	2	4	0	1	1	1	3	2	1	1	10	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:88123615C>T	uc003plv.2	+	4	372	c.280C>T	c.(280-282)CGA>TGA	p.R94*	C6orf165_uc003plw.2_5'UTR|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Nonsense_Mutation_p.R94*	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	94										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		TTATACGAATCGAGGTAATGT	0.313													30	41					0	0	1	0	0		T	88123615	T	T	88123615	4	4	89	1	0	0	0	0	0	1	0	0	2344	876	31	1	290	1	C6orf165	6	88123615	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3280	88123615	82991452	2788	56619											
C6orf165	154313	broad.mit.edu	37	chr6	88126425	88126425	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcaggcagagcttgggAcatttctaactctttctaag	9	14	8	10	0	4	1	1	0	3	1	5	2	5	2	1	2	2	2	1	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:88126425A>G	uc003plv.2	+	6	603	c.511A>G	c.(511-513)ACA>GCA	p.T171A	C6orf165_uc003plw.2_5'UTR|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.T171A	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	171										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		AGAGCTTGGGACATTTCTAAC	0.358													11	20					0	0	1	0	0		G	88126425	G	G	88126425	3	3	89	1	0	0	0	0	1	0	0	0	2344	275	10	3	529	3	C6orf165	6	88126425	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2810	88126425	82988642	2789	56620											
C6orf165	154313	broad.mit.edu	37	chr6	88170746	88170746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccacttctttagatgagaGatgctgacaaacattatata	14	13	6	8	0	1	4	0	2	1	2	2	5	2	4	1	0	2	1	1	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:88170746G>A	uc003plv.2	+	12	1593	c.1501G>A	c.(1501-1503)GAT>AAT	p.D501N	SLC35A1_uc003plx.2_RNA|C6orf165_uc003plw.2_Missense_Mutation_p.D313N|C6orf165_uc010kbv.1_RNA	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	501										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		TTAGATGAGAGATGCTGACAA	0.303													15	34					0	0	1	0	0		A	88170746	A	A	88170746	3	1	89	1	0	0	0	0	1	0	0	0	2344	942	33	4	1543	4	C6orf165	6	88170746	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	44321	88170746	82944321	2790	56621											
C6orf165	154313	broad.mit.edu	37	chr6	88170802	88170802	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgaaagtagcacacagacGaatacacacatactgccacc	16	6	7	12	1	0	2	0	1	0	1	0	3	0	2	2	0	4	2	2	0	5	3	rs149608815	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:88170802G>A	uc003plv.2	+	12	1649	c.1557G>A	c.(1555-1557)ACG>ACA	p.T519T	SLC35A1_uc003plx.2_RNA|C6orf165_uc003plw.2_Silent_p.T331T|C6orf165_uc010kbv.1_RNA	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	519										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		GCACACAGACGAATACACACA	0.328													15	43					0	0	1	0	0		A	88170802	A	A	88170802	2	1	89	1	0	0	0	0	0	0	0	1	2344	1045	37	1		1	C6orf165	6	88170802	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	56	88170802	82944265	2791	56622											
RARS2	57038	broad.mit.edu	37	chr6	88231241	88231241	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctatagcagctgcaagatCtctgaaacaaagtggccata	15	9	8	9	0	2	2	0	1	2	1	3	2	2	2	1	1	4	3	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:88231241C>A	uc003pme.2	-	12	1036	c.976G>T	c.(976-978)GAT>TAT	p.D326Y	RARS2_uc003pmb.2_Missense_Mutation_p.D151Y|RARS2_uc003pmc.2_Missense_Mutation_p.D151Y|RARS2_uc003pmd.2_5'UTR|RARS2_uc003pmf.2_RNA	NM_020320	NP_064716	Q5T160	SYRM_HUMAN	arginyl-tRNA synthetase 2, mitochondrial	326					arginyl-tRNA aminoacylation	mitochondrial matrix	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|central_nervous_system(1)	3		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0456)		GCTGCAAGATCTCTGAAACAA	0.323													22	55					2.89027e-11	3.162e-11	1	1	0		A	88231241	A	A	88231241	3	1	89	1	0	0	0	0	1	0	0	0	13084	927	32	5	796	5	RARS2	6	88231241	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	60439	88231241	82883826	2792	56623											
AKIRIN2	55122	broad.mit.edu	37	chr6	88387650	88387650	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagtaaataagggctgttCtttttttaatggtgaggatg	11	16	12	2	0	1	2	0	1	1	1	1	3	1	3	0	3	0	3	0	3	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:88387650C>A	uc003pmk.2	-	3	998	c.415G>T	c.(415-417)GAA>TAA	p.E139*		NM_018064	NP_060534	Q53H80	AKIR2_HUMAN	akirin 2	139					innate immune response|transcription, DNA-dependent	transcriptional repressor complex					0						AAGGGCTGTTCTTTTTTTAAT	0.373													39	55					3.78316e-11	4.13718e-11	1	1	0		A	88387650	A	A	88387650	4	1	89	1	0	0	0	0	0	1	0	0	462	922	32	5	208	5	AKIRIN2	6	88387650	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	156409	88387650	82727417	2793	56624											
PNRC1	10957	broad.mit.edu	37	chr6	89790697	89790697	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcttttcctcccgaggttaCtttggggccctcccgatggt	3	13	12	13	2	0	0	0	0	0	0	3	2	3	0	4	5	1	2	4	5	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:89790697C>A	uc003pmv.2	+	1	269	c.84C>A	c.(82-84)TAC>TAA	p.Y28*	PNRC1_uc003pmu.2_Nonsense_Mutation_p.Y28*|PNRC1_uc003pmx.2_5'Flank	NM_006813	NP_006804	Q12796	PNRC1_HUMAN	proline-rich nuclear receptor coactivator 1	28					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding				0		all_cancers(76;3.64e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.102)		CCCGAGGTTACTTTGGGGCCC	0.667										Multiple Myeloma(7;0.094)			9	49					7.48243e-07	7.81738e-07	1	1	0		A	89790697	A	A	89790697	4	1	89	1	0	0	0	0	0	1	0	0	12193	576	20	5	86	5	PNRC1	6	89790697	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1403047	89790697	81324370	2794	56625											
ANKRD6	22881	broad.mit.edu	37	chr6	90323556	90323556	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgcgctataatcacttgTccatcattaggctcctcctc	7	13	6	15	2	2	0	2	0	0	0	6	0	5	0	3	1	1	2	3	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:90323556T>C	uc003pni.3	+	7	903	c.562T>C	c.(562-564)TCC>CCC	p.S188P	ANKRD6_uc003pne.3_Missense_Mutation_p.S188P|ANKRD6_uc003pnf.3_Missense_Mutation_p.S188P|ANKRD6_uc011dzy.1_Missense_Mutation_p.S188P|ANKRD6_uc010kcd.2_Missense_Mutation_p.S155P|LYRM2_uc010kce.1_Intron|LYRM2_uc003png.2_Intron|ANKRD6_uc003pnh.3_5'UTR	NM_014942	NP_055757	Q9Y2G4	ANKR6_HUMAN	ankyrin repeat domain 6	188	ANK 6.						protein binding			ovary(2)|pancreas(1)	3		all_cancers(76;1.22e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;1.83e-05)|Lung NSC(302;0.239)		BRCA - Breast invasive adenocarcinoma(108;0.0209)		TAATCACTTGTCCATCATTAG	0.468													12	33					0	0	1	0	0		C	90323556	C	C	90323556	3	2	89	1	0	0	0	0	1	0	0	0	685	1667	58	3	584	3	ANKRD6	6	90323556	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	532859	90323556	80791511	2795	56626											
MDN1	23195	broad.mit.edu	37	chr6	90361988	90361988	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcttagctcattgacatCttttaaaaagggctaaaaag	14	13	7	7	0	3	1	1	1	2	0	3	1	3	1	0	1	1	2	0	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:90361988C>A	uc003pnn.1	-	95	15954	c.15838G>T	c.(15838-15840)GAT>TAT	p.D5280Y		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5280					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TCATTGACATCTTTTAAAAAG	0.458													24	61					7.33532e-06	7.59587e-06	1	1	0		A	90361988	A	A	90361988	3	1	89	1	0	0	0	0	1	0	0	0	9433	913	32	5	984	5	MDN1	6	90361988	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	38432	90361988	80753079	2796	56627											
MDN1	23195	broad.mit.edu	37	chr6	90434994	90434994	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagggattctgacacccaAaaatcttcgtcttttcatgc	12	13	6	10	1	4	1	1	1	3	0	5	2	4	2	1	1	1	0	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:90434994A>C	uc003pnn.1	-	38	5710	c.5594T>G	c.(5593-5595)TTT>TGT	p.F1865C		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1865					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CTGACACCCAAAAATCTTCGT	0.448													38	78					0	0	1	0	0		C	90434994	C	C	90434994	3	2	89	1	0	0	0	0	1	0	0	0	9433	14	1	5	11456	5	MDN1	6	90434994	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	73006	90434994	80680073	2797	56628											
MDN1	23195	broad.mit.edu	37	chr6	90448144	90448144	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgagggcaccatatttCtgtaaaccggtttcttaagg	9	14	10	8	1	2	1	0	1	2	0	2	1	2	1	2	3	1	4	2	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:90448144C>A	uc003pnn.1	-	33	4740	c.4624G>T	c.(4624-4626)GAA>TAA	p.E1542*		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1542					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CACCATATTTCTGTAAACCGG	0.383													34	65					3.90053e-15	4.43362e-15	1	1	0		A	90448144	A	A	90448144	4	1	89	1	0	0	0	0	0	1	0	0	9433	922	32	5	12446	5	MDN1	6	90448144	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13150	90448144	80666923	2798	56629											
MDN1	23195	broad.mit.edu	37	chr6	90450000	90450000	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcatggttgctagaatacGaaattttttcccagcagtca	11	14	8	8	1	2	1	2	0	0	1	3	2	3	1	1	1	3	4	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:90450000G>T	uc003pnn.1	-	32	4662	c.4546C>A	c.(4546-4548)CGT>AGT	p.R1516S		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1516					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GCTAGAATACGAAATTTTTTC	0.408													34	84					2.20474e-14	2.4888e-14	1	1	0		T	90450000	T	T	90450000	3	4	89	1	0	0	0	0	1	0	0	0	9433	1058	37	5	12528	5	MDN1	6	90450000	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1856	90450000	80665067	2799	56630											
CASP8AP2	9994	broad.mit.edu	37	chr6	90578381	90578381	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttaaaatgcattgttgAggaaacctatatcgacttga	13	13	8	7	1	0	2	0	2	0	0	1	4	0	3	2	1	2	2	2	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:90578381A>T	uc003pnr.2	+	8	5568	c.5372A>T	c.(5371-5373)GAG>GTG	p.E1791V	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.E1791V|CASP8AP2_uc011dzz.1_Missense_Mutation_p.E1791V	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	1791	NCOA2-binding.				cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		TGCATTGTTGAGGAAACCTAT	0.408													17	44					0	0	1	0	0		T	90578381	T	T	90578381	3	4	89	1	0	0	0	0	1	0	0	0	2681	304	11	5	5398	5	CASP8AP2	6	90578381	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	128381	90578381	80536686	2800	56631											
GJA10	84694	broad.mit.edu	37	chr6	90604936	90604936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taagaaatccagcagtgaggGcattgaggatgaaacaggcc	15	6	13	7	0	0	4	0	3	0	1	1	5	1	5	2	3	2	2	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:90604936G>A	uc011eaa.1	+	1	749	c.749G>A	c.(748-750)GGC>GAC	p.G250D		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	250	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		AGCAGTGAGGGCATTGAGGAT	0.398													42	86					0	0	1	0	0		A	90604936	A	A	90604936	3	1	89	1	0	0	0	0	1	0	0	0	6416	1203	42	2	751	2	GJA10	6	90604936	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	26555	90604936	80510131	2801	56632											
MAP3K7	6885	broad.mit.edu	37	chr6	91229036	91229036	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagttatctgatccattggTatctggaattcaagcatgta	11	14	10	6	0	3	1	1	1	2	0	4	3	4	3	1	3	1	4	1	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:91229036T>C	uc003pnz.1	-	15	1627	c.1465A>G	c.(1465-1467)ACC>GCC	p.T489A	MAP3K7_uc003pny.1_Missense_Mutation_p.T26A|MAP3K7_uc003poa.1_Missense_Mutation_p.T489A|MAP3K7_uc003pob.1_Missense_Mutation_p.T462A|MAP3K7_uc003poc.1_Missense_Mutation_p.T462A	NM_145331	NP_663304	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	489					activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		GATCCATTGGTATCTGGAATT	0.328													19	38					0	0	1	0	0		C	91229036	C	C	91229036	3	2	89	1	0	0	0	0	1	0	0	0	9273	1638	57	3	367	3	MAP3K7	6	91229036	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	624100	91229036	79886031	2802	56633											
FHL5	9457	broad.mit.edu	37	chr6	97052727	97052727	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgctgccaaggatgagcgCctgctgtgcacggagtgcta	7	10	14	10	2	0	1	0	1	0	0	0	3	0	3	2	2	6	4	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:97052727C>T	uc003pos.1	+	4	666	c.261C>T	c.(259-261)CGC>CGT	p.R87R	FHL5_uc003pot.1_Silent_p.R87R	NM_020482	NP_065228	Q5TD97	FHL5_HUMAN	activator of cAMP-responsive element modulator	87	LIM zinc-binding 1.					nucleus	zinc ion binding			ovary(2)	2		all_cancers(76;1.57e-07)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00266)|Colorectal(196;0.0341)|Lung NSC(302;0.204)		BRCA - Breast invasive adenocarcinoma(108;0.0948)		AGGATGAGCGCCTGCTGTGCA	0.522													40	69					0	0	1	0	0		T	97052727	T	T	97052727	2	4	89	1	0	0	0	0	0	0	0	1	5895	726	26	2		2	FHL5	6	97052727	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5823691	97052727	74062340	2803	56634											
GPR63	81491	broad.mit.edu	37	chr6	97246403	97246403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcactaggacgtatccgtCgctttgtgtgaccagggagc	8	9	13	11	3	0	1	0	1	0	0	2	3	1	3	2	2	2	3	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:97246403C>T	uc010kcl.2	-	3	1683	c.1205G>A	c.(1204-1206)CGA>CAA	p.R402Q	GPR63_uc003pou.2_Missense_Mutation_p.R402Q	NM_001143957	NP_001137429	Q9BZJ6	GPR63_HUMAN	G protein-coupled receptor 63	402	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;6.89e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0618)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0912)		ACGTATCCGTCGCTTTGTGTG	0.473													32	57					0	0	1	0	0		T	97246403	T	T	97246403	3	4	89	1	0	0	0	0	1	0	0	0	6719	884	31	1	58	1	GPR63	6	97246403	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	193676	97246403	73868664	2804	56635											
KLHL32	114792	broad.mit.edu	37	chr6	97424044	97424044	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctagcagcatgcagtgaCtatttccgggtaagtcagca	10	10	11	10	1	1	1	1	1	0	0	3	1	3	1	2	1	4	5	2	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:97424044C>A	uc010kcm.1	+	3	667	c.195C>A	c.(193-195)GAC>GAA	p.D65E	KLHL32_uc003poy.2_Missense_Mutation_p.D65E|KLHL32_uc011ead.1_Missense_Mutation_p.D65E|KLHL32_uc003poz.2_5'UTR|KLHL32_uc011eae.1_Missense_Mutation_p.D65E	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	65	BTB.									ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		CATGCAGTGACTATTTCCGGG	0.448													17	59					0.000566183	0.000576314	1	1	0		A	97424044	A	A	97424044	3	1	89	1	0	0	0	0	1	0	0	0	8402	564	20	5	201	5	KLHL32	6	97424044	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	177641	97424044	73691023	2805	56636											
KLHL32	114792	broad.mit.edu	37	chr6	97562324	97562324	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatggacttttgttcagtcCtttgacagatccctttcatg	9	16	7	9	0	2	2	2	1	0	1	4	3	4	3	2	1	0	1	2	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:97562324C>A	uc010kcm.1	+	7	1765	c.1293C>A	c.(1291-1293)TCC>TCA	p.S431S	KLHL32_uc003poy.2_Silent_p.S431S|KLHL32_uc011ead.1_Silent_p.S395S|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Silent_p.S362S|KLHL32_uc003ppa.2_Intron	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	431	Kelch 3.									ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		TTGTTCAGTCCTTTGACAGAT	0.438													37	64					2.6416e-12	2.92235e-12	1	1	0		A	97562324	A	A	97562324	2	1	89	1	0	0	0	0	0	0	0	1	8402	668	24	5		5	KLHL32	6	97562324	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	138280	97562324	73552743	2806	56637											
FBXL4	26235	broad.mit.edu	37	chr6	99374803	99374803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagctgtcctggctcggCgccgaaggcatatataataa	10	11	11	9	3	0	0	0	0	0	0	2	1	1	0	2	3	1	4	2	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:99374803C>T	uc003ppf.1	-	3	420	c.62G>A	c.(61-63)CGC>CAC	p.R21H	FBXL4_uc003ppg.1_Missense_Mutation_p.R21H|FBXL4_uc003pph.1_5'UTR	NM_012160	NP_036292	Q9UKA2	FBXL4_HUMAN	F-box and leucine-rich repeat protein 4	21					ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex				skin(2)	2		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0413)		CCTGGCTCGGCGCCGAAGGCA	0.448													70	106					0	0	1	0	0		T	99374803	T	T	99374803	3	4	89	1	0	0	0	0	1	0	0	0	5735	768	27	1	1831	1	FBXL4	6	99374803	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1812479	99374803	71740264	2807	56638											
C6orf168	84553	broad.mit.edu	37	chr6	99771429	99771429	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgcgtttcacaattcctttCgttatgtggcacacaaccca	9	13	6	13	3	1	0	1	0	0	0	4	0	2	0	2	1	1	3	2	1	3	4	rs144270064	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:99771429C>T	uc003ppj.3	-	4	997	c.714G>A	c.(712-714)ACG>ACA	p.T238T	C6orf168_uc003ppi.3_Intron	NM_032511	NP_115900	Q5TGI0	CF168_HUMAN	hypothetical protein LOC84553	238										ovary(2)|central_nervous_system(1)	3		all_cancers(76;1.63e-06)|Acute lymphoblastic leukemia(125;5.12e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00898)|Colorectal(196;0.0699)|Lung NSC(302;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.073)		CAATTCCTTTCGTTATGTGGC	0.537													16	27					0	0	1	0	0		T	99771429	T	T	99771429	2	4	89	1	0	0	0	0	0	0	0	1	2346	871	31	1		1	C6orf168	6	99771429	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	396626	99771429	71343638	2808	56639											
COQ3	51805	broad.mit.edu	37	chr6	99825356	99825356	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggaattgttttcagaagaTtgtcccttttttaaaaaatt	13	18	6	4	0	1	2	1	0	0	2	2	3	2	3	1	1	0	1	1	1	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:99825356T>C	uc003ppk.2	-	4	419	c.392A>G	c.(391-393)AAT>AGT	p.N131S		NM_017421	NP_059117	Q9NZJ6	COQ3_HUMAN	hexaprenyldihydroxybenzoate methyltransferase	131					glycerol metabolic process|ubiquinone biosynthetic process	mitochondrial matrix	2-polyprenyl-6-methoxy-1,4-benzoquinone methyltransferase activity|3-demethylubiquinone-9 3-O-methyltransferase activity|hexaprenyldihydroxybenzoate methyltransferase activity			upper_aerodigestive_tract(1)	1		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0625)		TTTCAGAAGATTGTCCCTTTT	0.348													11	27					0	0	1	0	0		C	99825356	C	C	99825356	3	2	89	1	0	0	0	0	1	0	0	0	3749	1493	52	3	733	3	COQ3	6	99825356	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	53927	99825356	71289711	2809	56640											
SFRS18	25957	broad.mit.edu	37	chr6	99852513	99852513	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtgtgcatctttggctacGtaataaatttcttcatctgt	8	17	8	8	2	4	0	1	0	3	0	4	0	4	0	0	2	2	3	0	2	4	6	rs143393166	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:99852513G>A	uc003ppo.3	-	9	1296	c.1068C>T	c.(1066-1068)TAC>TAT	p.Y356Y	SFRS18_uc003ppp.3_Silent_p.Y356Y|SFRS18_uc011eag.1_Silent_p.Y356Y	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	356						nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		CTTTGGCTACGTAATAAATTT	0.353													19	41					0	0	1	0	0		A	99852513	A	A	99852513	2	1	89	1	0	0	0	0	0	0	0	1	14199	1140	40	1		1	SFRS18	6	99852513	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	27157	99852513	71262554	2810	56641											
SFRS18	25957	broad.mit.edu	37	chr6	99862453	99862453	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttgtttccttacttggaTcctgttggtgctggaatgac	7	17	10	7	0	0	1	0	1	0	0	2	3	2	3	2	3	2	3	2	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:99862453T>C	uc003ppo.3	-	3	311	c.83A>G	c.(82-84)GAT>GGT	p.D28G	SFRS18_uc003ppp.3_Missense_Mutation_p.D28G|SFRS18_uc011eag.1_Missense_Mutation_p.D28G|SFRS18_uc003ppr.2_Missense_Mutation_p.D28G|SFRS18_uc003ppt.2_Missense_Mutation_p.D28G|SFRS18_uc003pps.2_Missense_Mutation_p.D28G	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	28	Gln-rich.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		CTTACTTGGATCCTGTTGGTG	0.443													27	49					0	0	1	0	0		C	99862453	C	C	99862453	3	2	89	1	0	0	0	0	1	0	0	0	14199	1435	50	3	2374	3	SFRS18	6	99862453	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	9940	99862453	71252614	2811	56642											
USP45	85015	broad.mit.edu	37	chr6	99885256	99885256	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catagagaccgtagagaactTtatctcccacacttgcattc	12	11	6	12	1	1	2	0	0	1	2	3	4	1	2	2	0	2	2	2	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:99885256T>G	uc003ppx.2	-	17	2713	c.2180A>C	c.(2179-2181)AAA>ACA	p.K727T	USP45_uc003ppv.2_RNA|USP45_uc003ppw.2_Missense_Mutation_p.K407T	NM_001080481	NP_001073950	Q70EL2	UBP45_HUMAN	ubiquitin specific peptidase 45	727					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|breast(1)	2		all_cancers(76;0.000208)|Acute lymphoblastic leukemia(125;8.41e-11)|all_hematologic(75;2.56e-07)|all_epithelial(107;0.122)|Colorectal(196;0.133)		BRCA - Breast invasive adenocarcinoma(108;0.0718)		GTAGAGAACTTTATCTCCCAC	0.358													15	40					0	0	1	0	0		G	99885256	G	G	99885256	3	3	89	1	0	0	0	0	1	0	0	0	17102	1841	64	5	272	5	USP45	6	99885256	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	22803	99885256	71229811	2812	56643											
USP45	85015	broad.mit.edu	37	chr6	99891518	99891518	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcttcctggcattagtatAaactccttctactttctttt	7	20	4	10	0	2	0	0	0	2	0	4	0	4	0	2	1	3	3	2	1	5	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:99891518A>C	uc003ppx.2	-	15	2529	c.1996T>G	c.(1996-1998)TAT>GAT	p.Y666D	USP45_uc003ppv.2_RNA|USP45_uc003ppw.2_Missense_Mutation_p.Y346D	NM_001080481	NP_001073950	Q70EL2	UBP45_HUMAN	ubiquitin specific peptidase 45	666					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|breast(1)	2		all_cancers(76;0.000208)|Acute lymphoblastic leukemia(125;8.41e-11)|all_hematologic(75;2.56e-07)|all_epithelial(107;0.122)|Colorectal(196;0.133)		BRCA - Breast invasive adenocarcinoma(108;0.0718)		GCATTAGTATAAACTCCTTCT	0.289													10	34					0	0	1	0	0		C	99891518	C	C	99891518	3	2	89	1	0	0	0	0	1	0	0	0	17102	362	13	5	464	5	USP45	6	99891518	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	6262	99891518	71223549	2813	56644											
USP45	85015	broad.mit.edu	37	chr6	99956550	99956550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctagctgcccatcatagaatCttctttcttttaaacattct	10	17	3	11	0	5	1	1	0	4	1	5	1	5	1	1	0	3	1	1	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:99956550C>T	uc003ppx.2	-	3	742	c.209G>A	c.(208-210)AGA>AAA	p.R70K	USP45_uc003ppw.2_5'UTR|USP45_uc003ppy.2_RNA|USP45_uc010kcq.1_Missense_Mutation_p.R70K|USP45_uc003ppz.2_Missense_Mutation_p.R70K|USP45_uc003pqa.2_Missense_Mutation_p.R70K	NM_001080481	NP_001073950	Q70EL2	UBP45_HUMAN	ubiquitin specific peptidase 45	70	UBP-type.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|breast(1)	2		all_cancers(76;0.000208)|Acute lymphoblastic leukemia(125;8.41e-11)|all_hematologic(75;2.56e-07)|all_epithelial(107;0.122)|Colorectal(196;0.133)		BRCA - Breast invasive adenocarcinoma(108;0.0718)		ATCATAGAATCTTCTTTCTTT	0.378													12	20					0	0	1	0	0		T	99956550	T	T	99956550	3	4	89	1	0	0	0	0	1	0	0	0	17102	913	32	4	2299	4	USP45	6	99956550	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	65032	99956550	71158517	2814	56645											
MCHR2	84539	broad.mit.edu	37	chr6	100395798	100395798	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aactatgtggaccaaatcagCcacagccaggttgcagatat	14	8	9	10	0	1	1	1	0	0	1	1	2	1	2	3	2	4	2	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:100395798C>A	uc003pqh.1	-	3	547	c.232G>T	c.(232-234)GCT>TCT	p.A78S	MCHR2_uc003pqi.1_Missense_Mutation_p.A78S	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	78	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		ACCAAATCAGCCACAGCCAGG	0.468													28	58					3.73148e-12	4.12027e-12	1	1	0		A	100395798	A	A	100395798	3	1	89	1	0	0	0	0	1	0	0	0	9401	739	26	5	806	5	MCHR2	6	100395798	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	439248	100395798	70719269	2815	56646											
ASCC3	10973	broad.mit.edu	37	chr6	101091945	101091945	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatactctgaatgataaaTatgatcatttgtaggatctt	16	15	6	4	0	3	3	1	3	2	0	3	4	3	4	0	1	1	1	0	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:101091945T>C	uc003pqk.2	-	23	4023	c.3694A>G	c.(3694-3696)ATT>GTT	p.I1232V		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1232	SEC63 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		GAATGATAAATATGATCATTT	0.303													49	74					0	0	1	0	0		C	101091945	C	C	101091945	3	2	89	1	0	0	0	0	1	0	0	0	1034	1406	49	3	2994	3	ASCC3	6	101091945	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	696147	101091945	70023122	2816	56647											
ASCC3	10973	broad.mit.edu	37	chr6	101166000	101166000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgtccaagaggtactggtCgaaaacggccatcaaagaag	14	7	11	9	2	2	2	1	0	1	2	4	3	3	2	2	3	2	1	2	3	6	1	rs142555952		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:101166000C>T	uc003pqk.2	-	12	2359	c.2030G>A	c.(2029-2031)CGA>CAA	p.R677Q	ASCC3_uc011eai.1_Missense_Mutation_p.R579Q|ASCC3_uc003pql.2_Missense_Mutation_p.R677Q	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	677					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		AGGTACTGGTCGAAAACGGCC	0.333													24	44					0	0	1	0	0		T	101166000	T	T	101166000	3	4	89	1	0	0	0	0	1	0	0	0	1034	884	31	1	4702	1	ASCC3	6	101166000	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	74055	101166000	69949067	2817	56648											
ASCC3	10973	broad.mit.edu	37	chr6	101246682	101246682	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttcttcataaagcttgttAttctctctttggattccttc	7	20	4	10	0	4	0	1	0	3	0	7	1	5	1	1	1	1	2	1	1	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:101246682A>G	uc003pqk.2	-	8	1631	c.1302T>C	c.(1300-1302)AAT>AAC	p.N434N	ASCC3_uc011eai.1_Silent_p.N336N|ASCC3_uc003pql.2_Silent_p.N434N	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	434					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		AAAGCTTGTTATTCTCTCTTT	0.333													30	49					0	0	1	0	0		G	101246682	G	G	101246682	2	3	89	1	0	0	0	0	0	0	0	1	1034	446	16	3		3	ASCC3	6	101246682	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	80682	101246682	69868385	2818	56649											
ASCC3	10973	broad.mit.edu	37	chr6	101248368	101248368	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcattttctcctaaaattTttttacaattgtctaagaag	13	18	4	6	0	2	1	0	0	2	1	3	1	2	1	1	0	2	1	1	0	7	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:101248368T>G	uc003pqk.2	-	6	1264	c.935A>C	c.(934-936)AAA>ACA	p.K312T	ASCC3_uc011eai.1_Missense_Mutation_p.K214T|ASCC3_uc003pql.2_Missense_Mutation_p.K312T	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	312					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		TCCTAAAATTTTTTTACAATT	0.303													12	16					0	0	1	0	0		G	101248368	G	G	101248368	3	3	89	1	0	0	0	0	1	0	0	0	1034	1841	64	5	5821	5	ASCC3	6	101248368	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1686	101248368	69866699	2819	56650											
GRIK2	2898	broad.mit.edu	37	chr6	102074270	102074270	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagcctgtgatcagctgtCtcttggggtggctgccatct	4	14	12	11	0	4	1	2	1	2	0	5	1	4	1	2	3	3	2	2	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:102074270C>A	uc003pqp.3	+	3	548	c.299C>A	c.(298-300)TCT>TAT	p.S100Y	GRIK2_uc003pqn.2_Missense_Mutation_p.S100Y|GRIK2_uc003pqo.3_Missense_Mutation_p.S100Y|GRIK2_uc010kcw.2_Missense_Mutation_p.S100Y	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	100	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	GATCAGCTGTCTCTTGGGGTG	0.502													118	206					9.05284e-58	1.12844e-57	1	1	0		A	102074270	A	A	102074270	3	1	89	1	0	0	0	0	1	0	0	0	6790	913	32	5	309	5	GRIK2	6	102074270	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	825902	102074270	69040797	2820	56651											
GRIK2	2898	broad.mit.edu	37	chr6	102134199	102134199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaggcacctccgaaacccGattcaggtttgctggatgga	9	9	12	11	2	1	0	1	0	0	0	2	4	2	2	3	4	3	4	3	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:102134199G>A	uc003pqp.3	+	6	1171	c.922G>A	c.(922-924)GAT>AAT	p.D308N	GRIK2_uc003pqn.2_Missense_Mutation_p.D308N|GRIK2_uc003pqo.3_Missense_Mutation_p.D308N|GRIK2_uc010kcw.2_Missense_Mutation_p.D308N	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	308	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	TCCGAAACCCGATTCAGGTTT	0.393													28	84					0	0	1	0	0		A	102134199	A	A	102134199	3	1	89	1	0	0	0	0	1	0	0	0	6790	1058	37	1	944	1	GRIK2	6	102134199	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	59929	102134199	68980868	2821	56652											
HACE1	57531	broad.mit.edu	37	chr6	105224916	105224916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctccatggaaccgtacaGcaatcccttgctttagcttt	8	14	6	13	1	1	0	0	0	1	0	3	1	2	1	3	1	5	4	3	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:105224916G>A	uc003pqu.1	-	16	2025	c.1748C>T	c.(1747-1749)GCT>GTT	p.A583V	HACE1_uc010kcy.1_Missense_Mutation_p.A65V|HACE1_uc010kcz.1_Intron|HACE1_uc010kcx.1_5'UTR|HACE1_uc003pqt.1_Missense_Mutation_p.A236V	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	583	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		GAACCGTACAGCAATCCCTTG	0.333													26	25					0	0	1	0	0		A	105224916	A	A	105224916	3	1	89	1	0	0	0	0	1	0	0	0	6956	971	34	2	1017	2	HACE1	6	105224916	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3090717	105224916	65890151	2822	56653											
HACE1	57531	broad.mit.edu	37	chr6	105239404	105239404	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacctggcttcttggagttTtattcccattgtagcccata	8	15	7	11	0	1	0	0	0	1	0	2	1	2	1	3	2	1	3	3	2	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:105239404T>G	uc003pqu.1	-	11	1326	c.1049A>C	c.(1048-1050)AAA>ACA	p.K350T	HACE1_uc010kcy.1_5'UTR|HACE1_uc010kcz.1_Missense_Mutation_p.K350T	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	350					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		TCTTGGAGTTTTATTCCCATT	0.383													52	92					0	0	1	0	0		G	105239404	G	G	105239404	3	3	89	1	0	0	0	0	1	0	0	0	6956	1841	64	5	1736	5	HACE1	6	105239404	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	14488	105239404	65875663	2823	56654											
BVES	11149	broad.mit.edu	37	chr6	105577274	105577274	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtctcttcttgtataaaaGatacgacagatgcaaaatgt	14	12	8	7	2	2	2	0	0	2	2	3	3	2	2	0	1	2	2	0	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:105577274G>T	uc003pqw.2	-	3	488	c.331C>A	c.(331-333)CTT>ATT	p.L111I	BVES_uc003pqx.2_Missense_Mutation_p.L111I|BVES_uc003pqy.2_Missense_Mutation_p.L111I	NM_147147	NP_671488	Q8NE79	POPD1_HUMAN	blood vessel epicardial substance isoform 5	111	Helical; (Potential).				epithelial cell-cell adhesion|muscle organ development|positive regulation of locomotion|positive regulation of receptor recycling|regulation of Cdc42 GTPase activity|regulation of cell shape|regulation of Rac GTPase activity|substrate adhesion-dependent cell spreading|vesicle-mediated transport	integral to membrane|lateral plasma membrane|tight junction	structural molecule activity				0		all_cancers(87;2.83e-05)|Acute lymphoblastic leukemia(125;1.95e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0101)|Colorectal(196;0.204)|Lung NSC(302;0.238)				TTGTATAAAAGATACGACAGA	0.348													22	25					1.64113e-05	1.69216e-05	1	1	0		T	105577274	T	T	105577274	3	4	89	1	0	0	0	0	1	0	0	0	1578	942	33	5	775	5	BVES	6	105577274	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	337870	105577274	65537793	2824	56655											
POPDC3	64208	broad.mit.edu	37	chr6	105606497	105606497	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcattcaaggcatagagttTatctgcaatgtcactgccaa	12	12	8	9	0	4	1	3	0	1	1	4	1	4	1	1	1	2	3	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:105606497T>G	uc003prb.2	-	4	1126	c.724A>C	c.(724-726)AAA>CAA	p.K242Q	uc003pqz.2_Intron|POPDC3_uc003pra.2_RNA	NM_022361	NP_071756	Q9HBV1	POPD3_HUMAN	popeye protein 3	242						integral to membrane				skin(3)|ovary(2)	5		all_cancers(87;4.87e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0157)|Colorectal(196;0.202)|Lung NSC(302;0.238)				GCATAGAGTTTATCTGCAATG	0.393													90	155					0	0	1	0	0		G	105606497	G	G	105606497	3	3	89	1	0	0	0	0	1	0	0	0	12275	1763	61	5	155	5	POPDC3	6	105606497	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	29223	105606497	65508570	2825	56656											
PREP	5550	broad.mit.edu	37	chr6	105816843	105816843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaaatatcttctgactgatCggttcccaagacatggtagt	12	12	8	9	1	2	3	0	2	2	1	4	3	3	3	1	2	0	2	1	2	5	4	rs145682559		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:105816843C>T	uc003prc.2	-	6	855	c.652G>A	c.(652-654)GAT>AAT	p.D218N		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	218					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)	TCTGACTGATCGGTTCCCAAG	0.408													47	119					0	0	1	0	0		T	105816843	T	T	105816843	3	4	89	1	0	0	0	0	1	0	0	0	12496	884	31	1	1520	1	PREP	6	105816843	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	210346	105816843	65298224	2826	56657											
PDSS2	57107	broad.mit.edu	37	chr6	107780297	107780297	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcgaaggctcatgaaggAcgtggggtaccccacgatct	10	6	14	11	3	2	1	1	1	1	0	2	4	2	2	2	4	2	3	2	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:107780297A>G	uc003prt.2	-	1	483	c.193T>C	c.(193-195)TCC>CCC	p.S65P	PDSS2_uc011eak.1_Intron|PDSS2_uc011eal.1_Missense_Mutation_p.S65P|PDSS2_uc003pru.2_Missense_Mutation_p.S65P|PDSS2_uc003prv.2_Missense_Mutation_p.S65P	NM_020381	NP_065114	Q86YH6	DLP1_HUMAN	prenyl diphosphate synthase, subunit 2	65					isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	protein heterodimerization activity			ovary(2)	2	Breast(9;0.0127)	all_cancers(87;3.63e-05)|Acute lymphoblastic leukemia(125;2.86e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.0108)|Colorectal(196;0.156)|Lung NSC(302;0.211)	BRCA - Breast invasive adenocarcinoma(8;0.0101)|all cancers(7;0.243)	BRCA - Breast invasive adenocarcinoma(108;0.112)|OV - Ovarian serous cystadenocarcinoma(136;0.173)|all cancers(137;0.191)		CTCATGAAGGACGTGGGGTAC	0.622											OREG0017595	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	49					0	0	1	0	0		G	107780297	G	G	107780297	3	3	89	1	0	0	0	0	1	0	0	0	11713	275	10	3	1038	3	PDSS2	6	107780297	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1963454	107780297	63334770	2827	56658											
NR2E1	7101	broad.mit.edu	37	chr6	108499413	108499413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaagtgggctaagagtgtgCcagccttctccacgctgtct	7	11	11	12	1	3	1	1	0	2	1	4	1	3	1	3	1	2	2	3	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:108499413C>T	uc003psg.2	+	5	1365	c.610C>T	c.(610-612)CCA>TCA	p.P204S		NM_003269	NP_003260	Q9Y466	NR2E1_HUMAN	nuclear receptor subfamily 2, group E, member 1	204	Ligand-binding (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(87;8.13e-05)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00866)|Colorectal(196;0.0637)		BRCA - Breast invasive adenocarcinoma(108;0.013)|Epithelial(106;0.0521)|all cancers(137;0.068)|OV - Ovarian serous cystadenocarcinoma(136;0.0689)		TAAGAGTGTGCCAGCCTTCTC	0.512													19	51					0	0	1	0	0		T	108499413	T	T	108499413	3	4	89	1	0	0	0	0	1	0	0	0	10644	739	26	2	628	2	NR2E1	6	108499413	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	719116	108499413	62615654	2828	56659											
ARMC2	84071	broad.mit.edu	37	chr6	109197433	109197433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatttaacaaaatcaaatgCtatttgccacttaaagagtc	16	14	4	7	0	1	1	1	0	0	1	2	1	1	1	1	0	3	1	1	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:109197433C>T	uc003pss.3	+	5	725	c.551C>T	c.(550-552)GCT>GTT	p.A184V	ARMC2_uc011eao.1_Missense_Mutation_p.A19V	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	184							binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)		AAATCAAATGCTATTTGCCAC	0.368													28	61					0	0	1	0	0		T	109197433	T	T	109197433	3	4	89	1	0	0	0	0	1	0	0	0	952	797	28	2	565	2	ARMC2	6	109197433	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	698020	109197433	61917634	2829	56660											
ARMC2	84071	broad.mit.edu	37	chr6	109286202	109286202	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttagtggactgtttaagaGatttgggtcctactgattgg	8	15	14	4	0	0	2	0	1	0	1	1	4	1	3	1	4	1	2	1	4	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:109286202G>T	uc003pss.3	+	17	2479	c.2305G>T	c.(2305-2307)GAT>TAT	p.D769Y	ARMC2_uc011eao.1_Missense_Mutation_p.D604Y	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	769	ARM 12.						binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)		CTGTTTAAGAGATTTGGGTCC	0.333													75	139					2.9056e-39	3.59884e-39	1	1	0		T	109286202	T	T	109286202	3	4	89	1	0	0	0	0	1	0	0	0	952	942	33	5	2367	5	ARMC2	6	109286202	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	88769	109286202	61828865	2830	56661											
ZBTB24	9841	broad.mit.edu	37	chr6	109787482	109787482	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttatgtacagaatcggttaCgagaagctgaatttcctgct	11	13	10	7	2	0	3	0	1	0	2	2	4	1	3	1	1	4	5	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:109787482C>T	uc003ptl.1	-	7	1834	c.1666G>A	c.(1666-1668)GTA>ATA	p.V556I	MICAL1_uc011eaq.1_5'Flank|ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Missense_Mutation_p.V500I|ZBTB24_uc010kdt.1_RNA	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	556					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		GAATCGGTTACGAGAAGCTGA	0.468													40	92					0	0	1	0	0		T	109787482	T	T	109787482	3	4	89	1	0	0	0	0	1	0	0	0	17556	536	19	1	431	1	ZBTB24	6	109787482	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	501280	109787482	61327585	2831	56662											
AKD1	221264	broad.mit.edu	37	chr6	109814771	109814771	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcggaacctttgggattaAatgctgtagaaaatttcaca	14	13	8	6	1	1	1	1	0	0	1	2	3	1	3	1	2	2	2	1	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:109814771A>C	uc003ptn.2	-	41	5614	c.5537T>G	c.(5536-5538)TTT>TGT	p.F1846C	AKD1_uc011eas.1_Missense_Mutation_p.F231C	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1846					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TTTGGGATTAAATGCTGTAGA	0.363													5	64					0	0	1	0	0		C	109814771	C	C	109814771	3	2	89	1	0	0	0	0	1	0	0	0	460	14	1	5	202	5	AKD1	6	109814771	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	27289	109814771	61300296	2832	56663											
AKD1	221264	broad.mit.edu	37	chr6	109816641	109816641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcccagtatttcagtggcGacctaagaacacaaagttca	13	10	8	10	1	2	1	2	0	0	1	3	2	3	1	2	1	1	3	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:109816641G>A	uc003ptn.2	-	39	5395	c.5318C>T	c.(5317-5319)TCG>TTG	p.S1773L	AKD1_uc011eas.1_Missense_Mutation_p.S158L	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1773					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TTTCAGTGGCGACCTAAGAAC	0.408													17	42					0	0	1	0	0		A	109816641	A	A	109816641	3	1	89	1	0	0	0	0	1	0	0	0	460	1059	37	1	429	1	AKD1	6	109816641	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1870	109816641	61298426	2833	56664											
AKD1	221264	broad.mit.edu	37	chr6	109820263	109820263	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacattcagtttttcctgaGaactcattttatagtagtgc	10	18	6	7	0	2	1	2	1	0	1	3	2	3	1	1	0	3	2	1	0	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:109820263G>T	uc003ptn.2	-	36	5107	c.5030C>A	c.(5029-5031)TCT>TAT	p.S1677Y	AKD1_uc011eas.1_Missense_Mutation_p.S62Y	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1677					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TTTTTCCTGAGAACTCATTTT	0.398													7	28					2.17888e-05	2.24492e-05	1	1	0		T	109820263	T	T	109820263	3	4	89	1	0	0	0	0	1	0	0	0	460	942	33	5	729	5	AKD1	6	109820263	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3622	109820263	61294804	2834	56665											
FIG4	9896	broad.mit.edu	37	chr6	110048403	110048403	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcatgcaatctataaggtCgaagatacaaatatgatcta	16	11	8	6	1	3	2	1	1	2	1	4	3	3	2	0	2	2	1	0	2	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:110048403C>T	uc003ptt.2	+	4	596	c.381C>T	c.(379-381)GTC>GTT	p.V127V	FIG4_uc011eau.1_Intron	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	127					cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		TCTATAAGGTCGAAGATACAA	0.353													52	141					0	0	1	0	0		T	110048403	T	T	110048403	2	4	89	1	0	0	0	0	0	0	0	1	5902	871	31	1		1	FIG4	6	110048403	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	228140	110048403	61066664	2835	56666											
WASF1	8936	broad.mit.edu	37	chr6	110424718	110424718	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgactaaatggcaaggcagaAagtgagtaagatccatccat	16	8	10	7	0	0	4	0	2	0	2	2	4	2	4	2	2	0	3	2	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:110424718A>C	uc003ptv.1	-	9	1593	c.756T>G	c.(754-756)CTT>CTG	p.L252L	WASF1_uc003ptw.1_Silent_p.L252L|WASF1_uc003ptx.1_Silent_p.L252L|WASF1_uc003pty.1_Silent_p.L252L	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	252					actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)		GCAAGGCAGAAAGTGAGTAAG	0.373													37	75					0	0	1	0	0		C	110424718	C	C	110424718	2	2	89	1	0	0	0	0	0	0	0	1	17278	1	1	5		5	WASF1	6	110424718	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	376315	110424718	60690349	2836	56667											
GTF3C6	112495	broad.mit.edu	37	chr6	111288852	111288852	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaattggaagaggaagaGattcaaatgaacgacagttc	16	9	12	4	1	1	3	1	1	0	2	2	8	1	6	0	3	1	1	0	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:111288852G>T	uc003pum.2	+	6	711	c.501G>T	c.(499-501)GAG>GAT	p.E167D		NM_138408	NP_612417	Q969F1	TF3C6_HUMAN	general transcription factor IIIC, polypeptide	167						transcription factor TFIIIC complex	DNA binding|protein binding				0		all_cancers(87;0.00328)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|Colorectal(196;0.0466)|all_epithelial(87;0.0575)		OV - Ovarian serous cystadenocarcinoma(136;0.105)|all cancers(137;0.179)|Epithelial(106;0.186)		AAGAGGAAGAGATTCAAATGA	0.393													51	94					8.44121e-28	1.02551e-27	1	1	0		T	111288852	T	T	111288852	3	4	89	1	0	0	0	0	1	0	0	0	6893	933	33	5	523	5	GTF3C6	6	111288852	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	864134	111288852	59826215	2837	56668											
SLC16A10	117247	broad.mit.edu	37	chr6	111540115	111540115	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcctcatcatgggtctcttCgatggatgcttcatttccat	6	16	8	11	1	4	0	3	0	1	0	7	2	5	1	2	2	2	1	2	2	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:111540115C>T	uc003pus.2	+	5	1360	c.1185C>T	c.(1183-1185)TTC>TTT	p.F395F	SLC16A10_uc003put.2_Silent_p.F81F	NM_018593	NP_061063	Q8TF71	MOT10_HUMAN	solute carrier family 16, member 10	395	Cytoplasmic (Potential).				aromatic amino acid transport|cellular nitrogen compound metabolic process|ion transport	basolateral plasma membrane|integral to membrane	amino acid transmembrane transporter activity				0		all_cancers(87;0.00172)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0313)|Colorectal(196;0.0466)		OV - Ovarian serous cystadenocarcinoma(136;0.0703)|Epithelial(106;0.12)|all cancers(137;0.132)		TGGGTCTCTTCGATGGATGCT	0.468													58	113					0	0	1	0	0		T	111540115	T	T	111540115	2	4	89	1	0	0	0	0	0	0	0	1	14428	883	31	1		1	SLC16A10	6	111540115	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	251263	111540115	59574952	2838	56669											
REV3L	5980	broad.mit.edu	37	chr6	111680142	111680142	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagagcacagattgggtCaaattcaggatccggttcta	13	9	11	8	1	3	2	2	0	1	2	4	4	4	3	1	3	2	2	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:111680142C>A	uc003puy.3	-	17	7278	c.6955G>T	c.(6955-6957)GAC>TAC	p.D2319Y	REV3L_uc003pux.3_Missense_Mutation_p.D2241Y|REV3L_uc003puz.3_Missense_Mutation_p.D2241Y|REV3L_uc003pva.1_RNA	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2319					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		CAGATTGGGTCAAATTCAGGA	0.388								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					38	72					2.40579e-17	2.7868e-17	1	1	0		A	111680142	A	A	111680142	3	1	89	1	0	0	0	0	1	0	0	0	13265	826	29	5	2501	5	REV3L	6	111680142	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	140027	111680142	59434925	2839	56670											
REV3L	5980	broad.mit.edu	37	chr6	111694807	111694807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttttgtacttctgggagttCgaggttttcttggggacgtt	4	18	14	5	2	2	0	0	0	2	0	3	3	2	2	0	4	1	5	0	4	1	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:111694807C>T	uc003puy.3	-	13	5074	c.4751G>A	c.(4750-4752)CGA>CAA	p.R1584Q	REV3L_uc003pux.3_Missense_Mutation_p.R1506Q|REV3L_uc003puz.3_Missense_Mutation_p.R1506Q	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1584					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TCTGGGAGTTCGAGGTTTTCT	0.353								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					103	208					0	0	1	0	0		T	111694807	T	T	111694807	3	4	89	1	0	0	0	0	1	0	0	0	13265	884	31	1	4721	1	REV3L	6	111694807	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14665	111694807	59420260	2840	56671											
REV3L	5980	broad.mit.edu	37	chr6	111695509	111695509	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttgaattaacgttgatTcctttagagtaaacatagca	13	17	6	5	1	0	3	0	2	0	1	1	3	1	3	1	0	3	3	1	0	6	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:111695509T>C	uc003puy.3	-	13	4372	c.4049A>G	c.(4048-4050)GAA>GGA	p.E1350G	REV3L_uc003pux.3_Missense_Mutation_p.E1272G|REV3L_uc003puz.3_Missense_Mutation_p.E1272G	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1350					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TAACGTTGATTCCTTTAGAGT	0.328								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					58	92					0	0	1	0	0		C	111695509	C	C	111695509	3	2	89	1	0	0	0	0	1	0	0	0	13265	1783	62	3	5423	3	REV3L	6	111695509	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	702	111695509	59419558	2841	56672											
REV3L	5980	broad.mit.edu	37	chr6	111709117	111709117	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagatcctgataatgttCtgcttaattaaaacatatcc	14	13	4	10	0	1	2	0	1	1	1	3	2	3	2	3	0	2	2	3	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:111709117C>A	uc003puy.3	-	9	1271	c.948_splice	c.e9-1	p.V316_splice	REV3L_uc003pux.3_Splice_Site_p.V238_splice|REV3L_uc003puz.3_Splice_Site_p.V238_splice	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta						DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TGATAATGTTCTGCTTAATTA	0.358								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					22	39					3.08376e-08	3.26638e-08	1	1	0		A	111709117	A	A	111709117	5	1	89	1	0	0	0	0	0	0	1	0	13265	927	32	5	8541	5	REV3L	6	111709117	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13608	111709117	59405950	2842	56673											
FYN	2534	broad.mit.edu	37	chr6	111995824	111995824	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccgtccacttgatggggAactttgcacctgcagaatga	9	9	13	10	1	0	3	0	2	0	1	1	4	1	4	3	3	3	2	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:111995824A>C	uc003pvj.2	-	12	1623	c.1283T>G	c.(1282-1284)TTC>TGC	p.F428C	FYN_uc003pvi.2_Missense_Mutation_p.F373C|FYN_uc003pvk.2_Missense_Mutation_p.F428C|FYN_uc003pvh.2_Missense_Mutation_p.F425C	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	428	Protein kinase.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	CTTGATGGGGAACTTTGCACC	0.542													48	101					0	0	1	0	0		C	111995824	C	C	111995824	3	2	89	1	0	0	0	0	1	0	0	0	6140	246	9	5	338	5	FYN	6	111995824	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	286707	111995824	59119243	2843	56674											
WISP3	8838	broad.mit.edu	37	chr6	112389552	112389552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaaatgagaaaagagaaaaGactgtgttacattcagcctt	17	10	9	5	0	1	4	1	2	0	3	1	6	1	4	1	0	2	1	1	0	6	3	rs146519527		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:112389552G>A	uc003pvm.2	+	5	844	c.734G>A	c.(733-735)AGA>AAA	p.R245K	WISP3_uc003pvn.2_RNA|WISP3_uc003pvo.2_Missense_Mutation_p.R263K	NM_003880	NP_003871	O95389	WISP3_HUMAN	WNT1 inducible signaling pathway protein 3	245	TSP type-1.				cell-cell signaling|regulation of cell growth|signal transduction	extracellular region|soluble fraction	growth factor activity|insulin-like growth factor binding				0		all_cancers(87;0.000196)|Acute lymphoblastic leukemia(125;1.18e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0283)|OV - Ovarian serous cystadenocarcinoma(136;0.0613)|Epithelial(106;0.0827)|GBM - Glioblastoma multiforme(226;0.0972)|BRCA - Breast invasive adenocarcinoma(108;0.246)		AAAGAGAAAAGACTGTGTTAC	0.343													8	29					0	0	1	0	0		A	112389552	A	A	112389552	3	1	89	1	0	0	0	0	1	0	0	0	17400	942	33	4	802	4	WISP3	6	112389552	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	393728	112389552	58725515	2844	56675											
TUBE1	51175	broad.mit.edu	37	chr6	112397530	112397530	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtcatttcttacttgatTgtcaatgggcaatacacagt	12	15	7	7	0	3	1	2	1	1	0	3	1	3	1	0	1	2	1	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:112397530T>C	uc003pvq.2	-	7	745	c.631A>G	c.(631-633)AAT>GAT	p.N211D	TUBE1_uc003pvr.2_Missense_Mutation_p.N136D	NM_016262	NP_057346	Q9UJT0	TBE_HUMAN	tubulin, epsilon 1	211					centrosome cycle|microtubule-based movement|protein polymerization	microtubule|pericentriolar material	GTP binding|GTPase activity|structural constituent of cytoskeleton			ovary(1)	1		all_cancers(87;0.0101)|all_hematologic(75;0.000258)|Colorectal(196;0.0466)|all_epithelial(87;0.1)		all cancers(137;0.0217)|OV - Ovarian serous cystadenocarcinoma(136;0.0613)|Epithelial(106;0.0636)|GBM - Glioblastoma multiforme(226;0.0972)|BRCA - Breast invasive adenocarcinoma(108;0.246)		CTTACTTGATTGTCAATGGGC	0.338													23	65					0	0	1	0	0		C	112397530	C	C	112397530	3	2	89	1	0	0	0	0	1	0	0	0	16789	1812	63	3	820	3	TUBE1	6	112397530	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	7978	112397530	58717537	2845	56676											
LAMA4	3910	broad.mit.edu	37	chr6	112496523	112496523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatacacctacgttcgtaaGcctcatctgcctcctcatcc	9	11	5	16	2	3	0	2	0	1	0	6	1	5	0	5	0	4	2	5	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:112496523G>A	uc003pvu.2	-	11	1658	c.1349C>T	c.(1348-1350)GCT>GTT	p.A450V	LAMA4_uc003pvv.2_Missense_Mutation_p.A443V|LAMA4_uc003pvt.2_Missense_Mutation_p.A443V	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	450	Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		ACGTTCGTAAGCCTCATCTGC	0.483													43	80					0	0	1	0	0		A	112496523	A	A	112496523	3	1	89	1	0	0	0	0	1	0	0	0	8624	971	34	2	4238	2	LAMA4	6	112496523	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	98993	112496523	58618544	2846	56677											
LAMA4	3910	broad.mit.edu	37	chr6	112513010	112513010	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtcacatttcttacaggtGcttccaatgagtaaggggtt	10	13	10	8	0	2	1	1	1	1	0	3	1	3	1	1	3	2	3	1	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:112513010G>A	uc003pvu.2	-	6	855	c.546C>T	c.(544-546)AGC>AGT	p.S182S	LAMA4_uc003pvv.2_Silent_p.S182S|LAMA4_uc003pvt.2_Silent_p.S182S	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	182	Laminin EGF-like 2.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		TCTTACAGGTGCTTCCAATGA	0.398													21	43					0	0	1	0	0		A	112513010	A	A	112513010	2	1	89	1	0	0	0	0	0	0	0	1	8624	1310	46	2		2	LAMA4	6	112513010	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16487	112513010	58602057	2847	56678											
COL10A1	1300	broad.mit.edu	37	chr6	116441409	116441409	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggtgtattcatcataggTgtacattacaggggtgccat	9	15	11	6	0	2	0	2	0	0	0	2	0	2	0	1	4	3	2	1	4	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:116441409T>C	uc003pwm.2	-	3	1966	c.1870A>G	c.(1870-1872)ACC>GCC	p.T624A	NT5DC1_uc003pwj.2_Intron|NT5DC1_uc003pwk.2_Intron|NT5DC1_uc003pwl.2_Intron	NM_000493	NP_000484	Q03692	COAA1_HUMAN	type X collagen alpha 1 precursor	624	Nonhelical region (NC1).|C1q.				skeletal system development	collagen	metal ion binding			central_nervous_system(1)	1		all_cancers(87;0.0176)|all_epithelial(87;0.0263)|Colorectal(196;0.234)		all cancers(137;0.0157)|OV - Ovarian serous cystadenocarcinoma(136;0.0325)|GBM - Glioblastoma multiforme(226;0.0446)|Epithelial(106;0.0711)		TCATCATAGGTGTACATTACA	0.463													51	68					0	0	1	0	0		C	116441409	C	C	116441409	3	2	89	1	0	0	0	0	1	0	0	0	3669	1696	59	3	176	3	COL10A1	6	116441409	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3928399	116441409	54673658	2848	56679											
COL10A1	1300	broad.mit.edu	37	chr6	116441517	116441517	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtatctgacaagtaaagaTtccagtccttgggtcataat	12	13	9	7	0	2	2	1	1	1	1	4	2	4	2	2	2	0	2	2	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:116441517T>G	uc003pwm.2	-	3	1858	c.1762A>C	c.(1762-1764)ATC>CTC	p.I588L	NT5DC1_uc003pwj.2_Intron|NT5DC1_uc003pwk.2_Intron|NT5DC1_uc003pwl.2_Intron	NM_000493	NP_000484	Q03692	COAA1_HUMAN	type X collagen alpha 1 precursor	588	Nonhelical region (NC1).|C1q.				skeletal system development	collagen	metal ion binding			central_nervous_system(1)	1		all_cancers(87;0.0176)|all_epithelial(87;0.0263)|Colorectal(196;0.234)		all cancers(137;0.0157)|OV - Ovarian serous cystadenocarcinoma(136;0.0325)|GBM - Glioblastoma multiforme(226;0.0446)|Epithelial(106;0.0711)		CAAGTAAAGATTCCAGTCCTT	0.403													30	58					0	0	1	0	0		G	116441517	G	G	116441517	3	3	89	1	0	0	0	0	1	0	0	0	3669	1493	52	5	284	5	COL10A1	6	116441517	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	108	116441517	54673550	2849	56680											
FAM162B	221303	broad.mit.edu	37	chr6	117086337	117086337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggcgggatctcctccatcGatttgaaacgccctgtccac	8	9	10	14	3	1	1	0	1	1	0	5	4	3	2	4	2	1	0	4	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:117086337G>A	uc003pxi.2	-	2	401	c.254C>T	c.(253-255)TCG>TTG	p.S85L		NM_001085480	NP_001078949	Q5T6X4	F162B_HUMAN	hypothetical protein LOC221303	85						integral to membrane					0						CTCCTCCATCGATTTGAAACG	0.637													18	58					0	0	1	0	0		A	117086337	A	A	117086337	3	1	89	1	0	0	0	0	1	0	0	0	5486	1059	37	1	246	1	FAM162B	6	117086337	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	644820	117086337	54028730	2850	56681											
GPRC6A	222545	broad.mit.edu	37	chr6	117127925	117127925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gccaatctttttaacattagGaatggtggtaatcttggtgg	10	15	11	5	0	2	0	0	0	2	0	2	1	2	1	1	5	1	1	1	5	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:117127925G>A	uc003pxj.1	-	3	965	c.943C>T	c.(943-945)CCT>TCT	p.P315S	GPRC6A_uc003pxk.1_Intron|GPRC6A_uc003pxl.1_Missense_Mutation_p.P315S	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	315	Extracellular (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		TTAACATTAGGAATGGTGGTA	0.363													44	111					0	0	1	0	0		A	117127925	A	A	117127925	3	1	89	1	0	0	0	0	1	0	0	0	6744	1174	41	4	1853	4	GPRC6A	6	117127925	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	41588	117127925	53987142	2851	56682											
RFX6	222546	broad.mit.edu	37	chr6	117203536	117203536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctttctttttagacaattCgccagaagtttcccctccta	9	16	4	12	1	2	2	0	0	2	2	5	2	4	2	4	0	0	1	4	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:117203536C>T	uc003pxm.2	+	4	574	c.511C>T	c.(511-513)CGC>TGC	p.R171C		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	171	RFX-type winged-helix.				glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TTAGACAATTCGCCAGAAGTT	0.403													13	45					0	0	1	0	0		T	117203536	T	T	117203536	3	4	89	1	0	0	0	0	1	0	0	0	13292	884	31	1	525	1	RFX6	6	117203536	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	75611	117203536	53911531	2852	56683											
RFX6	222546	broad.mit.edu	37	chr6	117203581	117203581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggcggcttggaacaagaGgccattcaaagtaagatacc	15	6	11	9	1	1	2	1	0	0	2	1	3	1	3	2	4	2	2	2	4	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:117203581G>A	uc003pxm.2	+	4	619	c.556G>A	c.(556-558)GGC>AGC	p.G186S		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	186	RFX-type winged-helix.				glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TGGAACAAGAGGCCATTCAAA	0.383													17	55					0	0	1	0	0		A	117203581	A	A	117203581	3	1	89	1	0	0	0	0	1	0	0	0	13292	1000	35	4	570	4	RFX6	6	117203581	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	45	117203581	53911486	2853	56684											
ROS1	6098	broad.mit.edu	37	chr6	117641051	117641051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcactgctactttgatttCtccacttccaactcctaaga	9	15	3	14	0	2	2	1	1	1	1	5	2	4	2	3	0	3	1	3	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:117641051C>T	uc003pxp.1	-	36	6119	c.5920G>A	c.(5920-5922)GAA>AAA	p.E1974K	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Missense_Mutation_p.E300K	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1974	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		ACTTTGATTTCTCCACTTCCA	0.413			T	GOPC|ROS1	glioblastoma|NSCLC								32	109					0	0	1	0	0		T	117641051	T	T	117641051	3	4	89	1	0	0	0	0	1	0	0	0	13556	922	32	4	1155	4	ROS1	6	117641051	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	437470	117641051	53474016	2854	56685											
ROS1	6098	broad.mit.edu	37	chr6	117647545	117647545	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtcatcttccaccttaaaTtctggttctgtaaattattt	10	19	4	8	0	4	0	1	0	3	0	5	0	5	0	2	1	0	2	2	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:117647545T>G	uc003pxp.1	-	33	5598	c.5399A>C	c.(5398-5400)AAT>ACT	p.N1800T	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1800	Fibronectin type-III 9.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		CCACCTTAAATTCTGGTTCTG	0.323			T	GOPC|ROS1	glioblastoma|NSCLC								16	26					0	0	1	0	0		G	117647545	G	G	117647545	3	3	89	1	0	0	0	0	1	0	0	0	13556	1493	52	5	1688	5	ROS1	6	117647545	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6494	117647545	53467522	2855	56686											
ROS1	6098	broad.mit.edu	37	chr6	117658374	117658374	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagtgaggtgctattttCtcccgtcttataaaccacca	10	13	8	10	1	2	1	0	1	2	0	3	2	2	2	3	2	2	1	3	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:117658374C>A	uc003pxp.1	-	31	5408	c.5209G>T	c.(5209-5211)GAA>TAA	p.E1737*	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1737	Fibronectin type-III 8.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		GTGCTATTTTCTCCCGTCTTA	0.358			T	GOPC|ROS1	glioblastoma|NSCLC								24	49					9.57634e-11	1.04293e-10	1	1	0		A	117658374	A	A	117658374	4	1	89	1	0	0	0	0	0	1	0	0	13556	922	32	5	1886	5	ROS1	6	117658374	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10829	117658374	53456693	2856	56687											
SLC35F1	222553	broad.mit.edu	37	chr6	118588164	118588164	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atccctcccaatagctcctgGactgttttgtgatcccagtc	7	13	7	14	0	0	1	0	1	0	0	5	2	4	2	4	1	1	2	4	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:118588164G>T	uc003pxx.3	+	4	685	c.484G>T	c.(484-486)GAC>TAC	p.D162Y	SLC35F1_uc003pxy.1_5'UTR	NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	162	Helical; (Potential).				transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		ATAGCTCCTGGACTGTTTTGT	0.473													88	217					1.19196e-48	1.48263e-48	1	1	0		T	118588164	T	T	118588164	3	4	89	1	0	0	0	0	1	0	0	0	14613	1174	41	5	498	5	SLC35F1	6	118588164	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	929790	118588164	52526903	2857	56688											
C6orf204	387119	broad.mit.edu	37	chr6	118844970	118844970	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaaaatagactcaccgatcGattacaatttctttctgcct	12	15	4	10	2	3	1	1	0	2	1	4	3	3	1	2	0	2	0	2	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:118844970G>A	uc003pxz.1	-	4	1722	c.1134C>T	c.(1132-1134)ATC>ATT	p.I378I	C6orf204_uc003pya.1_Silent_p.I381I|C6orf204_uc003pyb.2_Silent_p.I378I|C6orf204_uc011ebj.1_Silent_p.I276I|C6orf204_uc003pyc.2_Silent_p.I381I	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	378						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		CTCACCGATCGATTACAATTT	0.308													15	46					0	0	1	0	0		A	118844970	A	A	118844970	2	1	89	1	0	0	0	0	0	0	0	1	2356	1048	37	1		1	C6orf204	6	118844970	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	256806	118844970	52270097	2858	56689											
ASF1A	25842	broad.mit.edu	37	chr6	119221986	119221986	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagtgaagaatacgatcaAgttttagactctgttttagt	14	14	9	4	1	2	3	1	1	1	2	2	5	2	3	0	0	1	2	0	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:119221986A>C	uc011ebn.1	+	2	502	c.165A>C	c.(163-165)CAA>CAC	p.Q55H		NM_014034	NP_054753	Q9Y294	ASF1A_HUMAN	ASF1 anti-silencing function 1 homolog A	55	Interaction with histone H3, CHAF1B, and HIRA.				chromatin modification|DNA repair|loss of chromatin silencing|nucleosome assembly|transcription, DNA-dependent	chromatin remodeling complex	chromatin binding|histone binding				0		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0633)|OV - Ovarian serous cystadenocarcinoma(136;0.188)		AATACGATCAAGTTTTAGACT	0.348													59	110					0	0	1	0	0		C	119221986	C	C	119221986	3	2	89	1	0	0	0	0	1	0	0	0	1038	69	3	5	58	5	ASF1A	6	119221986	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	377016	119221986	51893081	2859	56690											
ASF1A	25842	broad.mit.edu	37	chr6	119226904	119226904	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtacctatcgaggacaaGaatttattagagttggctat	12	14	9	6	1	0	2	0	0	0	2	1	4	0	3	1	2	1	3	1	2	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:119226904G>T	uc011ebn.1	+	3	650	c.313G>T	c.(313-315)GAA>TAA	p.E105*		NM_014034	NP_054753	Q9Y294	ASF1A_HUMAN	ASF1 anti-silencing function 1 homolog A	105	Interaction with histone H3, CHAF1B, and HIRA.				chromatin modification|DNA repair|loss of chromatin silencing|nucleosome assembly|transcription, DNA-dependent	chromatin remodeling complex	chromatin binding|histone binding				0		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0633)|OV - Ovarian serous cystadenocarcinoma(136;0.188)		TCGAGGACAAGAATTTATTAG	0.358													82	53					5.52753e-52	6.88169e-52	1	1	0		T	119226904	T	T	119226904	4	4	89	1	0	0	0	0	0	1	0	0	1038	943	33	5	210	5	ASF1A	6	119226904	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4918	119226904	51888163	2860	56691											
FAM184A	79632	broad.mit.edu	37	chr6	119345901	119345901	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcaagaatttgttgaatTtcttcttcatgagcatcttt	10	18	6	7	0	5	3	2	2	3	1	5	3	5	3	0	0	2	3	0	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:119345901T>G	uc003pyj.2	-	2	585	c.237A>C	c.(235-237)GAA>GAC	p.E79D	FAM184A_uc003pyk.3_5'UTR|FAM184A_uc003pyl.3_5'UTR	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	79	Potential.									ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						TTTGTTGAATTTCTTCTTCAT	0.323													19	48					0	0	1	0	0		G	119345901	G	G	119345901	3	3	89	1	0	0	0	0	1	0	0	0	5522	1838	64	5	3253	5	FAM184A	6	119345901	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	118997	119345901	51769166	2861	56692											
MAN1A1	4121	broad.mit.edu	37	chr6	119510876	119510876	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgggcaatttcagccccgAgttcaaggtagtgttgggcc	8	10	13	10	2	2	0	2	0	0	0	2	1	2	0	3	3	2	4	3	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:119510876A>G	uc003pym.1	-	10	1941	c.1499T>C	c.(1498-1500)CTC>CCC	p.L500P		NM_005907	NP_005898	P33908	MA1A1_HUMAN	mannosidase, alpha, class 1A, member 1	500	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_epithelial(87;0.173)		OV - Ovarian serous cystadenocarcinoma(136;0.0612)|GBM - Glioblastoma multiforme(226;0.0702)|all cancers(137;0.115)		TTCAGCCCCGAGTTCAAGGTA	0.498													56	95					0	0	1	0	0		G	119510876	G	G	119510876	3	3	89	1	0	0	0	0	1	0	0	0	9228	304	11	3	478	3	MAN1A1	6	119510876	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	164975	119510876	51604191	2862	56693											
C6orf170	221322	broad.mit.edu	37	chr6	121642797	121642797	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctttagattcttgagttCttttagtgacctgctgtaca	8	18	7	8	0	3	3	0	2	3	1	3	3	3	3	1	0	2	3	1	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:121642797C>A	uc003pyo.1	-	2	367	c.299G>T	c.(298-300)AGA>ATA	p.R100I	C6orf170_uc003pyq.1_RNA	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	100					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		TTCTTGAGTTCTTTTAGTGAC	0.274													68	142					2.48295e-43	3.08233e-43	1	1	0		A	121642797	A	A	121642797	3	1	89	1	0	0	0	0	1	0	0	0	2347	913	32	5	3598	5	C6orf170	6	121642797	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2131921	121642797	49472270	2863	56694											
HSF2	3298	broad.mit.edu	37	chr6	122753198	122753198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctctgtagataaacccataGaagttgatgagcttctggat	12	12	9	8	0	2	4	0	2	2	2	2	5	2	5	2	1	2	3	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:122753198G>A	uc003pyu.2	+	13	1631	c.1444G>A	c.(1444-1446)GAA>AAA	p.E482K	HSF2_uc003pyv.2_Missense_Mutation_p.E464K	NM_004506	NP_004497	Q03933	HSF2_HUMAN	heat shock transcription factor 2 isoform a	482					response to stress|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0				OV - Ovarian serous cystadenocarcinoma(136;0.00371)|all cancers(137;0.0299)|GBM - Glioblastoma multiforme(226;0.0586)		TAAACCCATAGAAGTTGATGA	0.473													47	107					0	0	1	0	0		A	122753198	A	A	122753198	3	1	89	1	0	0	0	0	1	0	0	0	7412	943	33	4	1494	4	HSF2	6	122753198	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1110401	122753198	48361869	2864	56695											
SMPDL3A	10924	broad.mit.edu	37	chr6	123124953	123124953	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggctagaaagtacattgaAcaactctcagcagaataagg	17	8	9	7	0	1	3	1	1	1	2	2	3	1	3	0	2	4	3	0	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:123124953A>C	uc003pzg.2	+	5	1234	c.713A>C	c.(712-714)AAC>ACC	p.N238T	SMPDL3A_uc003pzh.2_Missense_Mutation_p.N107T	NM_006714	NP_006705	Q92484	ASM3A_HUMAN	acid sphingomyelinase-like phosphodiesterase 3A	238					sphingomyelin catabolic process	extracellular space	hydrolase activity, acting on glycosyl bonds|protein binding|sphingomyelin phosphodiesterase activity				0				GBM - Glioblastoma multiforme(226;0.236)		AGTACATTGAACAACTCTCAG	0.398													36	99					0	0	1	0	0		C	123124953	C	C	123124953	3	2	89	1	0	0	0	0	1	0	0	0	14833	43	2	5	731	5	SMPDL3A	6	123124953	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	371755	123124953	47990114	2865	56696											
TRDN	10345	broad.mit.edu	37	chr6	123699033	123699033	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttccacatgtttttctttCttttcctgttctgaaacata	7	20	5	9	0	3	1	0	1	3	0	5	1	5	1	2	1	1	3	2	1	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:123699033C>A	uc003pzj.1	-	17	1219	c.1197G>T	c.(1195-1197)AAG>AAT	p.K399N	TRDN_uc003pzk.1_Missense_Mutation_p.K400N|TRDN_uc003pzl.1_Missense_Mutation_p.K400N|TRDN_uc010kem.1_5'UTR	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	399	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		GTTTTTCTTTCTTTTCCTGTT	0.234													4	10					0.00024832	0.000253393	1	1	0		A	123699033	A	A	123699033	3	1	89	1	0	0	0	0	1	0	0	0	16494	912	32	5	1092	5	TRDN	6	123699033	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	574080	123699033	47416034	2866	56697											
RSPO3	84870	broad.mit.edu	37	chr6	127469858	127469858	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcagattacaatggatgtTtgtcatgtaagcccagacta	12	12	9	8	0	2	2	2	0	0	2	2	3	2	3	1	1	2	3	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:127469858T>G	uc003qar.2	+	2	453	c.163T>G	c.(163-165)TTG>GTG	p.L55V	RSPO3_uc003qas.1_Missense_Mutation_p.L55V	NM_032784	NP_116173	Q9BXY4	RSPO3_HUMAN	R-spondin 3 precursor	55	FU 1.					extracellular region	heparin binding				0				GBM - Glioblastoma multiforme(226;0.0555)		CAATGGATGTTTGTCATGTAA	0.423													30	71					0	0	1	0	0		G	127469858	G	G	127469858	3	3	89	1	0	0	0	0	1	0	0	0	13736	1838	64	5	169	5	RSPO3	6	127469858	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3770825	127469858	43645209	2867	56698											
RNF146	81847	broad.mit.edu	37	chr6	127608756	127608756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatcgatcgggaactgatcGatcagtagcagggggtggaa	12	7	16	6	3	1	2	1	1	0	1	4	6	1	4	0	4	2	2	0	4	3	1	rs143742264		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:127608756G>A	uc003qav.2	+	3	1157	c.998G>A	c.(997-999)CGA>CAA	p.R333Q	RNF146_uc003qat.2_Missense_Mutation_p.R332Q|RNF146_uc003qau.2_Missense_Mutation_p.R332Q|RNF146_uc003qaw.2_Missense_Mutation_p.R332Q	NM_030963	NP_112225	Q9NTX7	RN146_HUMAN	ring finger protein 146	333					positive regulation of canonical Wnt receptor signaling pathway|protein autoubiquitination|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol	poly-ADP-D-ribose binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1				GBM - Glioblastoma multiforme(226;0.0407)|all cancers(137;0.2)		GGAACTGATCGATCAGTAGCA	0.463													32	80					0	0	1	0	0		A	127608756	A	A	127608756	3	1	89	1	0	0	0	0	1	0	0	0	13473	1058	37	1	997	1	RNF146	6	127608756	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	138898	127608756	43506311	2868	56699											
C6orf174	387104	broad.mit.edu	37	chr6	127797590	127797590	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccttaacaaactgcagctgGcacttcagatcttcattgtc	10	13	6	12	0	3	1	2	0	1	1	5	1	4	1	1	1	4	3	1	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:127797590G>A	uc003qbd.2	-	6	2446	c.1581C>T	c.(1579-1581)TGC>TGT	p.C527C	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	527	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		ACTGCAGCTGGCACTTCAGAT	0.408													43	64					0	0	1	0	0		A	127797590	A	A	127797590	2	1	89	1	0	0	0	0	0	0	0	1	2348	1195	42	2		2	C6orf174	6	127797590	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	188834	127797590	43317477	2869	56700											
THEMIS	387357	broad.mit.edu	37	chr6	128150816	128150816	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttcacactcgtagaattCtccttcttgtgacaaaggca	11	13	6	11	1	4	2	1	1	3	1	6	2	4	2	1	1	0	2	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:128150816C>A	uc003qbi.2	-	4	833	c.514G>T	c.(514-516)GAA>TAA	p.E172*	THEMIS_uc010kfa.2_Nonsense_Mutation_p.E75*|THEMIS_uc011ebt.1_Nonsense_Mutation_p.E172*|THEMIS_uc010kfb.2_Nonsense_Mutation_p.E137*	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	172	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						TCGTAGAATTCTCCTTCTTGT	0.368													41	100					2.66277e-13	2.97347e-13	1	1	0		A	128150816	A	A	128150816	4	1	89	1	0	0	0	0	0	1	0	0	15885	922	32	5	1548	5	THEMIS	6	128150816	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	353226	128150816	42964251	2870	56701											
THEMIS	387357	broad.mit.edu	37	chr6	128176253	128176253	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaatttcagctatgatctTcttaactttgagaccagtaa	14	14	5	8	0	3	2	1	2	2	1	3	3	3	2	1	0	2	2	1	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:128176253T>C	uc003qbi.2	-	3	491	c.172A>G	c.(172-174)AAG>GAG	p.K58E	THEMIS_uc010kfa.2_5'UTR|THEMIS_uc011ebt.1_Missense_Mutation_p.K58E|THEMIS_uc010kfb.2_Missense_Mutation_p.K23E	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	58	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						GCTATGATCTTCTTAACTTTG	0.353													28	45					0	0	1	0	0		C	128176253	C	C	128176253	3	2	89	1	0	0	0	0	1	0	0	0	15885	1792	62	3	1894	3	THEMIS	6	128176253	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	25437	128176253	42938814	2871	56702											
LAMA2	3908	broad.mit.edu	37	chr6	129380932	129380932	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctaactcaatagagaGacacccgattacaaatgcta	15	9	7	10	1	1	2	1	0	0	2	1	4	1	2	1	0	5	3	1	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:129380932G>T	uc003qbn.2	+	3	392	c.287G>T	c.(286-288)AGA>ATA	p.R96I	LAMA2_uc003qbo.2_Missense_Mutation_p.R96I	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	96	Laminin N-terminal.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TCAATAGAGAGACACCCGATT	0.333													15	54					2.31682e-05	2.38585e-05	1	1	0		T	129380932	T	T	129380932	3	4	89	1	0	0	0	0	1	0	0	0	8622	942	33	5	297	5	LAMA2	6	129380932	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1204679	129380932	41734135	2872	56703											
LAMA2	3908	broad.mit.edu	37	chr6	129826403	129826403	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagatggggcttccaacaGaaccatcagtcccaaaaaag	15	7	9	10	0	1	2	1	0	0	2	3	2	3	2	3	2	2	2	3	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:129826403G>T	uc003qbn.2	+	60	8711	c.8606G>T	c.(8605-8607)AGA>ATA	p.R2869I	LAMA2_uc003qbo.2_Missense_Mutation_p.R2865I|uc003qbq.2_Intron	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2869	Laminin G-like 4.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GCTTCCAACAGAACCATCAGT	0.413													24	59					3.08376e-08	3.26638e-08	1	1	0		T	129826403	T	T	129826403	3	4	89	1	0	0	0	0	1	0	0	0	8622	942	33	5	8848	5	LAMA2	6	129826403	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	445471	129826403	41288664	2873	56704											
C6orf191	253582	broad.mit.edu	37	chr6	130154651	130154651	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagtgactgaaatagcataAtcccaaacccattcttccac	15	10	4	12	0	1	2	0	2	1	0	3	2	3	2	3	0	2	1	3	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:130154651A>C	uc003qbs.2	-	4	356	c.273T>G	c.(271-273)GAT>GAG	p.D91E		NM_001010876	NP_001010876	Q5VVB8	CF191_HUMAN	hypothetical protein LOC253582	91						integral to membrane				large_intestine(1)	1				GBM - Glioblastoma multiforme(226;0.0387)|all cancers(137;0.115)|OV - Ovarian serous cystadenocarcinoma(155;0.131)		AAATAGCATAATCCCAAACCC	0.343													21	76					0	0	1	0	0		C	130154651	C	C	130154651	3	2	89	1	0	0	0	0	1	0	0	0	2351	98	4	5	121	5	C6orf191	6	130154651	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	328248	130154651	40960416	2874	56705											
SAMD3	154075	broad.mit.edu	37	chr6	130497126	130497126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcgaacatatttaaagcGatctttgagggctcgtttcc	9	15	8	9	3	2	1	0	1	2	0	5	3	3	1	1	1	2	2	1	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:130497126G>A	uc003qbv.2	-	9	1008	c.682C>T	c.(682-684)CGC>TGC	p.R228C	SAMD3_uc003qbx.2_Missense_Mutation_p.R228C|SAMD3_uc003qbw.2_Missense_Mutation_p.R228C|SAMD3_uc010kfg.1_3'UTR	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	228										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		TATTTAAAGCGATCTTTGAGG	0.353													42	65					0	0	1	0	0		A	130497126	A	A	130497126	3	1	89	1	0	0	0	0	1	0	0	0	13845	1058	37	1	900	1	SAMD3	6	130497126	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	342475	130497126	40617941	2875	56706											
SAMD3	154075	broad.mit.edu	37	chr6	130505666	130505666	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgatccgggcacttctgCtctgctaacatgcatttgac	7	13	9	12	1	2	2	0	2	2	0	3	2	3	2	1	1	4	4	1	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:130505666C>T	uc003qbv.2	-	7	812	c.486G>A	c.(484-486)GAG>GAA	p.E162E	SAMD3_uc003qbx.2_Silent_p.E162E|SAMD3_uc003qbw.2_Silent_p.E162E|SAMD3_uc010kfg.1_Silent_p.E162E|SAMD3_uc003qby.2_Silent_p.E162E|SAMD3_uc003qbz.1_Silent_p.E121E	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	162										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		GGCACTTCTGCTCTGCTAACA	0.443													19	30					0	0	1	0	0		T	130505666	T	T	130505666	2	4	89	1	0	0	0	0	0	0	0	1	13845	796	28	2		2	SAMD3	6	130505666	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8540	130505666	40609401	2876	56707											
TMEM200A	114801	broad.mit.edu	37	chr6	130762121	130762121	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggcaaatgaacggcatgtAcactggtttgatgggagaaa	15	8	13	5	1	0	3	0	2	0	1	0	4	0	3	0	4	2	4	0	4	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:130762121A>G	uc003qca.2	+	3	1425	c.554A>G	c.(553-555)TAC>TGC	p.Y185C	TMEM200A_uc010kfh.2_Missense_Mutation_p.Y185C|TMEM200A_uc010kfi.2_Missense_Mutation_p.Y185C|TMEM200A_uc003qcb.2_Missense_Mutation_p.Y185C	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	185	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		AACGGCATGTACACTGGTTTG	0.453													38	58					0	0	1	0	0		G	130762121	G	G	130762121	3	3	89	1	0	0	0	0	1	0	0	0	16148	391	14	3	556	3	TMEM200A	6	130762121	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	256455	130762121	40352946	2877	56708											
TMEM200A	114801	broad.mit.edu	37	chr6	130762228	130762228	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgggttttcggagcagttttCgaatggacagctccgtggag	7	11	15	8	4	0	0	0	0	0	0	3	4	1	3	1	4	2	4	1	4	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:130762228C>T	uc003qca.2	+	3	1532	c.661C>T	c.(661-663)CGA>TGA	p.R221*	TMEM200A_uc010kfh.2_Nonsense_Mutation_p.R221*|TMEM200A_uc010kfi.2_Nonsense_Mutation_p.R221*|TMEM200A_uc003qcb.2_Nonsense_Mutation_p.R221*	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	221	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		GAGCAGTTTTCGAATGGACAG	0.478													21	33					0	0	1	0	0		T	130762228	T	T	130762228	4	4	89	1	0	0	0	0	0	1	0	0	16148	876	31	1	663	1	TMEM200A	6	130762228	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	107	130762228	40352839	2878	56709											
EPB41L2	2037	broad.mit.edu	37	chr6	131276416	131276416	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttgtcttcctgtgtttcTtttaccttctcttctctctc	3	23	3	12	0	5	0	0	0	5	0	9	0	6	0	2	0	1	1	2	0	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:131276416T>G	uc003qch.2	-	3	716	c.534A>C	c.(532-534)AAA>AAC	p.K178N	EPB41L2_uc003qcg.1_Missense_Mutation_p.K178N|EPB41L2_uc011eby.1_Missense_Mutation_p.K178N|EPB41L2_uc003qci.2_Missense_Mutation_p.K178N|EPB41L2_uc010kfk.2_Missense_Mutation_p.K178N|EPB41L2_uc010kfl.1_Missense_Mutation_p.K178N	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	178					cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		CCTGTGTTTCTTTTACCTTCT	0.393													59	93					0	0	1	0	0		G	131276416	G	G	131276416	3	3	89	1	0	0	0	0	1	0	0	0	5161	1606	56	5	2551	5	EPB41L2	6	131276416	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	514188	131276416	39838651	2879	56710											
MED23	9439	broad.mit.edu	37	chr6	131911481	131911481	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctatcatacaacgagttCtctcttgctgaaatctttgt	9	16	5	11	1	5	1	1	1	4	0	6	2	5	1	1	0	3	2	1	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:131911481C>A	uc003qcs.1	-	27	3962	c.3788G>T	c.(3787-3789)AGA>ATA	p.R1263I	MED23_uc003qcq.2_Missense_Mutation_p.R1269I|MED23_uc003qcr.1_Missense_Mutation_p.R118I	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	1263					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		ACAACGAGTTCTCTCTTGCTG	0.303													18	44					5.35267e-07	5.59727e-07	1	1	0		A	131911481	A	A	131911481	3	1	89	1	0	0	0	0	1	0	0	0	9459	913	32	5	337	5	MED23	6	131911481	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	635065	131911481	39203586	2880	56711											
ENPP1	5167	broad.mit.edu	37	chr6	132179855	132179855	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagaccggtatatccaacaAaaactttccccaatcactac	15	9	4	13	1	1	1	1	1	0	1	3	2	3	1	4	1	3	1	4	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:132179855A>C	uc011ecf.1	+	7	783	c.763A>C	c.(763-765)AAA>CAA	p.K255Q	ENPP1_uc003qcy.2_5'Flank	NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	255	Phosphodiesterase.|Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	ATATCCAACAAAAACTTTCCC	0.338													19	43					0	0	1	0	0		C	132179855	C	C	132179855	3	2	89	1	0	0	0	0	1	0	0	0	5137	15	1	5	789	5	ENPP1	6	132179855	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	268374	132179855	38935212	2881	56712											
MOXD1	26002	broad.mit.edu	37	chr6	132641802	132641802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctatctttcgtgttgtagCgacactcagtaattaggtta	9	16	8	8	2	3	0	1	0	2	0	4	1	3	0	0	1	1	4	0	1	5	7	rs142592039	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:132641802C>T	uc003qdf.2	-	9	1430	c.1331G>A	c.(1330-1332)CGC>CAC	p.R444H	MOXD1_uc003qde.2_Missense_Mutation_p.R376H	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	444	Lumenal (Potential).				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		CGTGTTGTAGCGACACTCAGT	0.308													9	25					0	0	1	0	0		T	132641802	T	T	132641802	3	4	89	1	0	0	0	0	1	0	0	0	9738	768	27	1	526	1	MOXD1	6	132641802	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	461947	132641802	38473265	2882	56713											
EYA4	2070	broad.mit.edu	37	chr6	133827290	133827290	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actccgcatggaagaaatgaTttttaatcttgctgatactc	12	14	7	8	1	1	3	0	2	1	1	3	4	2	4	1	1	2	2	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:133827290T>G	uc003qec.3	+	14	1696	c.1238T>G	c.(1237-1239)ATT>AGT	p.I413S	EYA4_uc011ecq.1_Missense_Mutation_p.I359S|EYA4_uc011ecr.1_Missense_Mutation_p.I365S|EYA4_uc003qed.3_Missense_Mutation_p.I413S|EYA4_uc003qee.3_Missense_Mutation_p.I390S|EYA4_uc011ecs.1_Missense_Mutation_p.I419S|uc003qef.1_RNA|uc003qeg.1_RNA	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	413					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		GAAGAAATGATTTTTAATCTT	0.353													30	50					0	0	1	0	0		G	133827290	G	G	133827290	3	3	89	1	0	0	0	0	1	0	0	0	5339	1493	52	5	1288	5	EYA4	6	133827290	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1185488	133827290	37287777	2883	56714											
AHI1	54806	broad.mit.edu	37	chr6	135752450	135752450	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcctgaatacatatgatGacctatttaaaaaaataaga	19	12	4	6	0	1	4	0	3	1	1	2	4	1	4	2	0	1	0	2	0	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:135752450G>T	uc003qgi.2	-	17	2653	c.2269C>A	c.(2269-2271)CAT>AAT	p.H757N	AHI1_uc003qgf.2_RNA|AHI1_uc003qgg.2_Missense_Mutation_p.H207N|AHI1_uc003qgh.2_Missense_Mutation_p.H757N|AHI1_uc003qgj.2_Missense_Mutation_p.H757N|AHI1_uc003qgk.3_RNA|AHI1_uc003qgl.3_Missense_Mutation_p.H757N	NM_001134831	NP_001128303	Q8N157	AHI1_HUMAN	Abelson helper integration site 1 isoform a	757	WD 4.					adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		TACATATGATGACCTATTTAA	0.348													5	10					0.217242	0.217534	1	1	0		T	135752450	T	T	135752450	3	4	89	1	0	0	0	0	1	0	0	0	413	1290	45	5	1430	5	AHI1	6	135752450	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1925160	135752450	35362617	2884	56715											
BCLAF1	9774	broad.mit.edu	37	chr6	136589344	136589344	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcaaagcctgagtattCtttcatttcatggtgagttt	8	17	8	8	0	3	2	2	2	1	0	4	2	4	2	2	1	2	3	2	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:136589344C>A	uc003qgx.1	-	10	2606	c.2353G>T	c.(2353-2355)GAA>TAA	p.E785*	BCLAF1_uc011edb.1_Nonsense_Mutation_p.E113*|BCLAF1_uc003qgw.1_Nonsense_Mutation_p.E612*|BCLAF1_uc003qgy.1_Nonsense_Mutation_p.E783*|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Nonsense_Mutation_p.E783*	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	785					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CCTGAGTATTCTTTCATTTCA	0.383													43	151					1.48734e-19	1.74885e-19	1	1	0		A	136589344	A	A	136589344	4	1	89	1	0	0	0	0	0	1	0	0	1384	922	32	5	425	5	BCLAF1	6	136589344	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	836894	136589344	34525723	2885	56716											
BCLAF1	9774	broad.mit.edu	37	chr6	136590593	136590593	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctgtcatctttgtaagatTtgtattccttgtaatctttt	8	21	5	7	0	3	1	1	0	2	1	4	1	4	1	2	0	0	3	2	0	3	9	rs142580882		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:136590593T>G	uc003qgx.1	-	9	2454	c.2201A>C	c.(2200-2202)AAA>ACA	p.K734T	BCLAF1_uc011edb.1_5'Flank|BCLAF1_uc003qgw.1_Missense_Mutation_p.K561T|BCLAF1_uc003qgy.1_Missense_Mutation_p.K732T|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.K732T	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	734					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TTTGTAAGATTTGTATTCCTT	0.348													22	61					0	0	1	0	0		G	136590593	G	G	136590593	3	3	89	1	0	0	0	0	1	0	0	0	1384	1841	64	5	581	5	BCLAF1	6	136590593	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1249	136590593	34524474	2886	56717											
BCLAF1	9774	broad.mit.edu	37	chr6	136597477	136597477	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtcatccccttctgaatCattaaacttttgttttccag	8	18	5	10	0	3	1	2	1	1	0	5	1	5	1	3	0	1	1	3	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:136597477C>A	uc003qgx.1	-	5	1439	c.1186G>T	c.(1186-1188)GAT>TAT	p.D396Y	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Missense_Mutation_p.D394Y|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.D394Y	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	396					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CCTTCTGAATCATTAAACTTT	0.443													93	560					5.48297e-45	6.80965e-45	1	1	0		A	136597477	A	A	136597477	3	1	89	1	0	0	0	0	1	0	0	0	1384	826	29	5	1612	5	BCLAF1	6	136597477	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6884	136597477	34517590	2887	56718											
MAP3K5	4217	broad.mit.edu	37	chr6	136888937	136888937	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttgaaggctgttcctcaTggtcatcttctacatccaag	9	14	8	10	0	4	1	2	1	2	0	6	2	6	1	2	2	1	2	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:136888937T>C	uc003qhc.2	-	26	3954	c.3593A>G	c.(3592-3594)CAT>CGT	p.H1198R	MAP3K5_uc011edj.1_Missense_Mutation_p.H445R|MAP3K5_uc011edk.1_Missense_Mutation_p.H1044R	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	1198					activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		CTGTTCCTCATGGTCATCTTC	0.468													28	50					0	0	1	0	0		C	136888937	C	C	136888937	3	2	89	1	0	0	0	0	1	0	0	0	9271	1464	51	3	551	3	MAP3K5	6	136888937	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	291460	136888937	34226130	2888	56719											
MAP3K5	4217	broad.mit.edu	37	chr6	136904864	136904864	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtgttcccattttagtttCggttcttcagccccctgtga	5	17	8	11	1	2	1	1	1	1	0	4	1	3	1	3	1	1	3	3	1	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:136904864C>T	uc003qhc.2	-	24	3601	c.3240G>A	c.(3238-3240)CCG>CCA	p.P1080P	MAP3K5_uc011edj.1_Silent_p.P327P|MAP3K5_uc011edk.1_Silent_p.P926P	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	1080					activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		ATTTTAGTTTCGGTTCTTCAG	0.448													34	61					0	0	1	0	0		T	136904864	T	T	136904864	2	4	89	1	0	0	0	0	0	0	0	1	9271	871	31	1		1	MAP3K5	6	136904864	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	15927	136904864	34210203	2889	56720											
MAP3K5	4217	broad.mit.edu	37	chr6	136923031	136923031	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaggctctcttgtcaggAtctggttcaaaacatttcag	10	12	9	10	0	5	0	3	0	2	0	6	1	5	1	0	3	1	3	0	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:136923031A>G	uc003qhc.2	-	20	3127	c.2766T>C	c.(2764-2766)GAT>GAC	p.D922D	MAP3K5_uc011edj.1_Silent_p.D169D|MAP3K5_uc011edk.1_Silent_p.D767D	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	922	Protein kinase.				activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		TCTTGTCAGGATCTGGTTCAA	0.408													35	55					0	0	1	0	0		G	136923031	G	G	136923031	2	3	89	1	0	0	0	0	0	0	0	1	9271	330	12	3		3	MAP3K5	6	136923031	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	18167	136923031	34192036	2890	56721											
KIAA1244	57221	broad.mit.edu	37	chr6	138644882	138644882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctgtgccctgcaagatgCgttctctgccacactcaagc	7	10	9	15	1	2	1	1	0	1	1	3	1	2	1	2	0	6	3	2	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:138644882C>T	uc003qhu.2	+	30	4841	c.4841C>T	c.(4840-4842)GCG>GTG	p.A1614V		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1614					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CTGCAAGATGCGTTCTCTGCC	0.527													17	36					0	0	1	0	0		T	138644882	T	T	138644882	3	4	89	1	0	0	0	0	1	0	0	0	8233	768	27	1	4959	1	KIAA1244	6	138644882	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1721851	138644882	32470185	2891	56722											
KIAA1244	57221	broad.mit.edu	37	chr6	138655224	138655224	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcctggagaggaaaagacGatacaagtgccagaagccaa	16	5	11	9	1	1	3	0	0	1	3	2	6	1	4	3	2	3	0	3	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:138655224G>A	uc003qhu.2	+	33	5241	c.5241G>A	c.(5239-5241)ACG>ACA	p.T1747T		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1747					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		AGGAAAAGACGATACAAGTGC	0.478													12	37					0	0	1	0	0		A	138655224	A	A	138655224	2	1	89	1	0	0	0	0	0	0	0	1	8233	1045	37	1		1	KIAA1244	6	138655224	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	10342	138655224	32459843	2892	56723											
REPS1	85021	broad.mit.edu	37	chr6	139241371	139241371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctacagtattaccagaagcGaatttcaccgatgaatttat	14	12	6	9	2	1	2	1	1	0	1	1	4	1	2	3	0	3	1	3	0	7	6	rs35695721	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:139241371G>A	uc003qii.2	-	12	2088	c.1509C>T	c.(1507-1509)TTC>TTT	p.F503F	REPS1_uc003qig.3_Silent_p.F476F|REPS1_uc011edr.1_Silent_p.F503F|REPS1_uc003qij.2_Silent_p.F476F|REPS1_uc003qik.2_Silent_p.F109F	NM_031922	NP_114128	Q96D71	REPS1_HUMAN	RALBP1 associated Eps domain containing 1	503						coated pit|plasma membrane	calcium ion binding|SH3 domain binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(68;0.000434)|OV - Ovarian serous cystadenocarcinoma(155;0.000548)		TACCAGAAGCGAATTTCACCG	0.328													49	68					0	0	1	0	0		A	139241371	A	A	139241371	2	1	89	1	0	0	0	0	0	0	0	1	13253	1049	37	1		1	REPS1	6	139241371	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	586147	139241371	31873696	2893	56724											
TXLNB	167838	broad.mit.edu	37	chr6	139564361	139564361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgatttttttgtggagttCgtttctctcttcttgtaaag	5	22	8	6	1	4	1	0	1	4	0	6	2	4	2	0	1	0	3	0	1	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:139564361C>T	uc011eds.1	-	10	1522	c.1357G>A	c.(1357-1359)GAA>AAA	p.E453K		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	453	Potential.					cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		TTGTGGAGTTCGTTTCTCTCT	0.438													17	38					0	0	1	0	0		T	139564361	T	T	139564361	3	4	89	1	0	0	0	0	1	0	0	0	16814	893	31	1	701	1	TXLNB	6	139564361	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	322990	139564361	31550706	2894	56725											
GPR126	57211	broad.mit.edu	37	chr6	142691792	142691792	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggggacatttataactttCgactttggaattttaccatg	12	15	8	6	1	0	0	0	0	0	0	1	3	0	2	1	3	2	0	1	3	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:142691792C>T	uc010khc.2	+	4	1342	c.931C>T	c.(931-933)CGA>TGA	p.R311*	GPR126_uc010khd.2_Nonsense_Mutation_p.R311*|GPR126_uc010khe.2_Nonsense_Mutation_p.R311*|GPR126_uc010khf.2_Nonsense_Mutation_p.R311*|GPR126_uc003qix.2_Nonsense_Mutation_p.R311*	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	311	Pentaxin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		TTATAACTTTCGACTTTGGAA	0.383													54	144					0	0	1	0	0		T	142691792	T	T	142691792	4	4	89	1	0	0	0	0	0	1	0	0	6655	876	31	1	945	1	GPR126	6	142691792	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3127431	142691792	28423275	2895	56726											
HIVEP2	3097	broad.mit.edu	37	chr6	143082678	143082678	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttttcatgtgtgctttaGatttcatatgcttcgttagg	7	21	8	5	1	2	1	2	0	0	1	3	1	2	1	0	1	2	3	0	1	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:143082678G>T	uc003qjd.2	-	8	6286	c.5543C>A	c.(5542-5544)TCT>TAT	p.S1848Y		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1848	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GTGTGCTTTAGATTTCATATG	0.358													52	120					3.07002e-29	3.74194e-29	1	1	0		T	143082678	T	T	143082678	3	4	89	1	0	0	0	0	1	0	0	0	7203	942	33	5	1809	5	HIVEP2	6	143082678	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	390886	143082678	28032389	2896	56727											
PHACTR2	9749	broad.mit.edu	37	chr6	144086472	144086472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacttcatccacctcatctCgtcccaaagcttcaaaggag	11	9	5	16	1	4	0	3	0	1	0	7	1	6	1	4	1	1	1	4	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:144086472C>T	uc003qjq.3	+	6	866	c.736C>T	c.(736-738)CGT>TGT	p.R246C	PHACTR2_uc010khh.2_Missense_Mutation_p.R166C|PHACTR2_uc010khi.2_Missense_Mutation_p.R257C|PHACTR2_uc003qjr.3_Missense_Mutation_p.R177C	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3	246							actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		CACCTCATCTCGTCCCAAAGC	0.463													48	106					0	0	1	0	0		T	144086472	T	T	144086472	3	4	89	1	0	0	0	0	1	0	0	0	11829	884	31	1	808	1	PHACTR2	6	144086472	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1003794	144086472	27028595	2897	56728											
UTRN	7402	broad.mit.edu	37	chr6	144808711	144808711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatctgttctgcgccacccgGcagataatcgcacccagatt	10	9	8	14	3	2	2	0	0	2	2	3	2	2	2	3	1	1	3	3	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:144808711G>A	uc003qkt.2	+	28	3942	c.3850G>A	c.(3850-3852)GCA>ACA	p.A1284T		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1284	Spectrin 9.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GCGCCACCCGGCAGATAATCG	0.458													48	91					0	0	1	0	0		A	144808711	A	A	144808711	3	1	89	1	0	0	0	0	1	0	0	0	17129	1203	42	2	3960	2	UTRN	6	144808711	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	722239	144808711	26306356	2898	56729											
UTRN	7402	broad.mit.edu	37	chr6	144860536	144860536	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtttacctgaaagggataAaatttcagaaagcttaagga	17	10	10	4	0	1	2	1	1	0	1	1	5	1	4	1	2	2	2	1	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:144860536A>C	uc003qkt.2	+	44	6568	c.6476A>C	c.(6475-6477)AAA>ACA	p.K2159T		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	2159					muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GAAAGGGATAAAATTTCAGAA	0.328													26	48					0	0	1	0	0		C	144860536	C	C	144860536	3	2	89	1	0	0	0	0	1	0	0	0	17129	14	1	5	6650	5	UTRN	6	144860536	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	51825	144860536	26254531	2899	56730											
UTRN	7402	broad.mit.edu	37	chr6	144869983	144869983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatcaataagaccgtttcccGaatgaaagtaggtgcatagt	14	10	10	7	2	1	2	1	1	0	1	2	4	2	2	2	1	1	3	2	1	6	4	rs150069642		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:144869983G>A	uc003qkt.2	+	46	6895	c.6803G>A	c.(6802-6804)CGA>CAA	p.R2268Q		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	2268	Spectrin 15.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		ACCGTTTCCCGAATGAAAGTA	0.428													24	29					0	0	1	0	0		A	144869983	A	A	144869983	3	1	89	1	0	0	0	0	1	0	0	0	17129	1058	37	1	6985	1	UTRN	6	144869983	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9447	144869983	26245084	2900	56731											
FBXO30	84085	broad.mit.edu	37	chr6	146126324	146126324	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttccaaatctgatgtatcTactgctttatcttcctttgg	8	18	5	10	0	3	1	0	1	3	0	5	1	5	1	2	1	2	2	2	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:146126324T>G	uc003qla.2	-	2	1417	c.1218A>C	c.(1216-1218)GTA>GTC	p.V406V	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	406	F-box.						ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		CTGATGTATCTACTGCTTTAT	0.403													77	182					0	0	1	0	0		G	146126324	G	G	146126324	2	3	89	1	0	0	0	0	0	0	0	1	5754	1509	53	5		5	FBXO30	6	146126324	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1256341	146126324	24988743	2901	56732											
SHPRH	257218	broad.mit.edu	37	chr6	146266673	146266673	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctgttccgttgaacatcGtatctatatatagaactgac	11	14	6	10	2	1	3	0	2	1	1	4	3	3	3	2	0	2	3	2	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:146266673G>A	uc003qlf.2	-	8	1821	c.1422C>T	c.(1420-1422)TAC>TAT	p.Y474Y	SHPRH_uc003qld.2_Silent_p.Y474Y|SHPRH_uc003qle.2_Silent_p.Y474Y|SHPRH_uc003qlg.1_Silent_p.Y30Y|SHPRH_uc003qlj.1_Silent_p.Y363Y	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	474	H15.				DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		GTTGAACATCGTATCTATATA	0.378													21	47					0	0	1	0	0		A	146266673	A	A	146266673	2	1	89	1	0	0	0	0	0	0	0	1	14316	1140	40	1		1	SHPRH	6	146266673	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	140349	146266673	24848394	2902	56733											
STXBP5	134957	broad.mit.edu	37	chr6	147680279	147680279	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtaacaagcattgacaaaGaatcccgagaagcgatctcc	15	7	9	10	2	1	3	0	1	1	2	3	5	2	3	2	0	3	2	2	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:147680279G>T	uc003qlz.2	+	23	2526	c.2365G>T	c.(2365-2367)GAA>TAA	p.E789*	STXBP5_uc010khz.1_Nonsense_Mutation_p.E753*|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Nonsense_Mutation_p.E444*	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	789					exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		CATTGACAAAGAATCCCGAGA	0.433													23	51					1.96895e-08	2.09068e-08	1	1	0		T	147680279	T	T	147680279	4	4	89	1	0	0	0	0	0	1	0	0	15381	943	33	5	2455	5	STXBP5	6	147680279	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1413606	147680279	23434788	2903	56734											
STXBP5	134957	broad.mit.edu	37	chr6	147684753	147684753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaaaatattacagagacctCgtttgtgcttcgtggagata	12	12	10	7	2	0	2	0	0	0	2	2	4	0	2	1	1	2	3	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:147684753C>T	uc003qlz.2	+	24	2989	c.2828C>T	c.(2827-2829)TCG>TTG	p.S943L	STXBP5_uc010khz.1_Missense_Mutation_p.S907L|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Missense_Mutation_p.S598L	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	943	WD 13.				exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		ACAGAGACCTCGTTTGTGCTT	0.388													49	83					0	0	1	0	0		T	147684753	T	T	147684753	3	4	89	1	0	0	0	0	1	0	0	0	15381	893	31	1	2922	1	STXBP5	6	147684753	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4474	147684753	23430314	2904	56735											
STXBP5	134957	broad.mit.edu	37	chr6	147703987	147703987	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctggtggcattgaaggCgtaaaaggggcagcatctgg	9	7	17	8	1	1	1	0	1	1	0	1	1	1	1	1	7	1	4	1	7	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:147703987C>T	uc003qlz.2	+	27	3428	c.3267C>T	c.(3265-3267)GGC>GGT	p.G1089G	STXBP5_uc010khz.1_Silent_p.G1053G|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Silent_p.G744G	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	1089	v-SNARE coiled-coil homology.				exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		GCATTGAAGGCGTAAAAGGGG	0.488													52	100					0	0	1	0	0		T	147703987	T	T	147703987	2	4	89	1	0	0	0	0	0	0	0	1	15381	755	27	1		1	STXBP5	6	147703987	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19234	147703987	23411080	2905	56736											
SASH1	23328	broad.mit.edu	37	chr6	148865654	148865654	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctccccagtcccgatgcGccatgcctgccagtgaaaag	8	6	10	17	2	0	1	0	1	0	0	2	2	2	1	7	0	3	0	7	0	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:148865654G>A	uc003qme.1	+	18	3523	c.3048G>A	c.(3046-3048)GCG>GCA	p.A1016A	SASH1_uc011eeb.1_Silent_p.A777A|SASH1_uc003qmf.1_Silent_p.A426A	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	1016	Pro-rich.						protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		GTCCCGATGCGCCATGCCTGC	0.672													25	12					0	0	1	0	0		A	148865654	A	A	148865654	2	1	89	1	0	0	0	0	0	0	0	1	13873	1074	38	1		1	SASH1	6	148865654	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1161667	148865654	22249413	2906	56737											
SUMO4	387082	broad.mit.edu	37	chr6	149721599	149721599	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaatttgaaggtggcgggAcaggatggttctgtggtgca	9	12	16	4	1	1	1	0	1	1	0	1	3	1	3	0	6	1	2	0	6	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:149721599A>G	uc003qml.2	+	1	105	c.72A>G	c.(70-72)GGA>GGG	p.G24G	TAB2_uc011eec.1_Intron|TAB2_uc003qmj.2_Intron|TAB2_uc003qmk.3_Intron	NM_001002255	NP_001002255	Q6EEV6	SUMO4_HUMAN	SMT3 suppressor of mif two 3 homolog 4	24	Ubiquitin-like.										0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;7.91e-12)|GBM - Glioblastoma multiforme(68;0.0282)		AGGTGGCGGGACAGGATGGTT	0.463													41	55					0	0	1	0	0		G	149721599	G	G	149721599	2	3	89	1	0	0	0	0	0	0	0	1	15415	262	10	3		3	SUMO4	6	149721599	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	855945	149721599	21393468	2907	56738											
PPIL4	85313	broad.mit.edu	37	chr6	149862082	149862082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttactcatttcctaacctgaGatccatgttgatcactgcca	10	14	5	12	0	2	2	2	2	0	1	4	3	4	2	4	0	3	1	4	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:149862082G>A	uc003qmo.1	-	4	347	c.317C>T	c.(316-318)TCT>TTT	p.S106F	PPIL4_uc010kic.2_RNA|PPIL4_uc003qmp.1_Missense_Mutation_p.S106F	NM_139126	NP_624311	Q8WUA2	PPIL4_HUMAN	peptidylprolyl isomerase-like 4	106	PPIase cyclophilin-type.				protein folding	nucleus	nucleotide binding|peptidyl-prolyl cis-trans isomerase activity|RNA binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.11e-11)|GBM - Glioblastoma multiforme(68;0.0885)		CCTAACCTGAGATCCATGTTG	0.393													47	52					0	0	1	0	0		A	149862082	A	A	149862082	3	1	89	1	0	0	0	0	1	0	0	0	12351	942	33	4	1201	4	PPIL4	6	149862082	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	140483	149862082	21252985	2908	56739											
KATNA1	11104	broad.mit.edu	37	chr6	149954037	149954037	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacatgtttagcttccacatTtatttcctgccaaacctgat	11	15	4	11	0	0	1	0	1	0	0	2	1	2	1	4	0	4	2	4	0	4	6	rs146991684		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:149954037T>G	uc003qmr.1	-	2	223	c.178A>C	c.(178-180)AAT>CAT	p.N60H	KATNA1_uc003qms.2_Missense_Mutation_p.N60H|KATNA1_uc003qmt.2_Missense_Mutation_p.N60H|KATNA1_uc011eed.1_Missense_Mutation_p.N60H	NM_007044	NP_008975	O75449	KTNA1_HUMAN	katanin p60 subunit A 1	60	Interaction with microtubule.				cell division|interphase of mitotic cell cycle|mitosis	microtubule|microtubule organizing center|spindle pole	ATP binding|microtubule binding|microtubule-severing ATPase activity|protein heterodimerization activity			skin(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;2.95e-12)|GBM - Glioblastoma multiforme(68;0.173)		GCTTCCACATTTATTTCCTGC	0.363													32	20					0	0	1	0	0		G	149954037	G	G	149954037	3	3	89	1	0	0	0	0	1	0	0	0	8000	1841	64	5	1333	5	KATNA1	6	149954037	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	91955	149954037	21161030	2909	56740											
LATS1	9113	broad.mit.edu	37	chr6	149983146	149983146	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggatcaacaggatcaaaatTtgatgtatctgttgggtgtg	12	13	12	4	0	3	1	2	1	1	0	3	3	3	3	0	3	1	2	0	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:149983146T>G	uc003qmu.1	-	8	3660	c.3112A>C	c.(3112-3114)AAT>CAT	p.N1038H	LATS1_uc010kif.1_Missense_Mutation_p.N933H	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	1038	AGC-kinase C-terminal.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		GGATCAAAATTTGATGTATCT	0.358													20	80					0	0	1	0	0		G	149983146	G	G	149983146	3	3	89	1	0	0	0	0	1	0	0	0	8662	1841	64	5	284	5	LATS1	6	149983146	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	29109	149983146	21131921	2910	56741											
LATS1	9113	broad.mit.edu	37	chr6	149983213	149983213	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtctcaggtcactggaGaagtcaattgttttaaaaaa	13	13	9	6	0	3	1	3	0	1	1	4	2	3	1	0	2	1	2	0	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:149983213G>T	uc003qmu.1	-	8	3593	c.3045C>A	c.(3043-3045)TTC>TTA	p.F1015L	LATS1_uc010kif.1_Missense_Mutation_p.F910L	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	1015	AGC-kinase C-terminal.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		GGTCACTGGAGAAGTCAATTG	0.378													46	41					1.48734e-19	1.74885e-19	1	1	0		T	149983213	T	T	149983213	3	4	89	1	0	0	0	0	1	0	0	0	8662	933	33	5	351	5	LATS1	6	149983213	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	67	149983213	21131854	2911	56742											
PLEKHG1	57480	broad.mit.edu	37	chr6	151161391	151161391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggtcggaaagggatcagcGctaaatctcagccttatcac	11	9	11	10	2	3	0	3	0	1	0	5	2	3	2	1	3	2	1	1	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:151161391G>A	uc003qny.1	+	17	3829	c.3517G>A	c.(3517-3519)GCT>ACT	p.A1173T	PLEKHG1_uc011eem.1_Missense_Mutation_p.A1232T	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	1173					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		AGGGATCAGCGCTAAATCTCA	0.488													49	53					0	0	1	0	0		A	151161391	A	A	151161391	3	1	89	1	0	0	0	0	1	0	0	0	12087	1087	38	1	3575	1	PLEKHG1	6	151161391	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1178178	151161391	19953676	2912	56743											
MTHFD1L	25902	broad.mit.edu	37	chr6	151239797	151239797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctccttgctgcagctctgcGaattcaggtttgttcaacat	7	15	8	11	1	4	0	2	0	2	0	5	1	4	0	1	1	5	5	1	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:151239797G>A	uc003qob.2	+	9	1245	c.977G>A	c.(976-978)CGA>CAA	p.R326Q	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Missense_Mutation_p.R327Q|MTHFD1L_uc003qoc.2_Missense_Mutation_p.R274Q	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	326	Methylenetetrahydrofolate dehydrogenase and cyclohydrolase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		GCAGCTCTGCGAATTCAGGTT	0.408													44	29					0	0	1	0	0		A	151239797	A	A	151239797	3	1	89	1	0	0	0	0	1	0	0	0	9946	1058	37	1	1011	1	MTHFD1L	6	151239797	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	78406	151239797	19875270	2913	56744											
AKAP12	9590	broad.mit.edu	37	chr6	151672532	151672532	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgaagagaccacagaaatGgtgtcagcagtctcccagtt	12	8	11	10	0	2	3	1	1	1	2	3	4	2	3	2	1	1	3	2	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:151672532G>T	uc011eep.1	+	4	3246	c.3006G>T	c.(3004-3006)ATG>ATT	p.M1002I	AKAP12_uc003qoe.2_Missense_Mutation_p.M1002I|AKAP12_uc003qof.2_Missense_Mutation_p.M904I|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.M897I	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	1002					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		CCACAGAAATGGTGTCAGCAG	0.572													26	14					1.66031e-10	1.80435e-10	1	1	0		T	151672532	T	T	151672532	3	4	89	1	0	0	0	0	1	0	0	0	448	1348	47	5	3045	5	AKAP12	6	151672532	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	432735	151672532	19442535	2914	56745											
C6orf97	80129	broad.mit.edu	37	chr6	151865837	151865837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgacaaggcatcagatgaaGatttaattttaaaggtgtct	15	13	9	4	0	2	4	1	2	1	2	2	4	2	4	0	2	0	1	0	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:151865837G>A	uc003qol.2	+	4	663	c.574G>A	c.(574-576)GAT>AAT	p.D192N		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	192	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		ATCAGATGAAGATTTAATTTT	0.378													32	35					0	0	1	0	0		A	151865837	A	A	151865837	3	1	89	1	0	0	0	0	1	0	0	0	2377	942	33	4	588	4	C6orf97	6	151865837	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	193305	151865837	19249230	2915	56746											
C6orf97	80129	broad.mit.edu	37	chr6	151894465	151894465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agttggagaagagtttgaagGccagtcaggatgcagtcaca	13	8	14	6	0	2	3	2	1	0	2	2	5	2	4	1	3	1	3	1	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:151894465G>A	uc003qol.2	+	6	1020	c.931G>A	c.(931-933)GCC>ACC	p.A311T		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	311											0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		GAGTTTGAAGGCCAGTCAGGA	0.522													10	60					0	0	1	0	0		A	151894465	A	A	151894465	3	1	89	1	0	0	0	0	1	0	0	0	2377	1203	42	2	953	2	C6orf97	6	151894465	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	28628	151894465	19220602	2916	56747											
SYNE1	23345	broad.mit.edu	37	chr6	152576134	152576134	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agtatcttcaataacatctcGattatcaccattctctggaa	13	14	4	10	1	5	0	2	0	3	0	7	2	5	1	1	1	1	1	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:152576134G>C	uc010kiw.2	-	104	19953	c.19351C>G	c.(19351-19353)CGA>GGA	p.R6451G	SYNE1_uc010kiv.2_Missense_Mutation_p.R975G|SYNE1_uc003qos.3_Missense_Mutation_p.R975G|SYNE1_uc003qot.3_Missense_Mutation_p.R6380G|SYNE1_uc003qou.3_Missense_Mutation_p.R6451G	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6451	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		ATAACATCTCGATTATCACCA	0.373										HNSCC(10;0.0054)			12	9					0	0	1	0	0		C	152576134	C	C	152576134	3	2	89	1	0	0	0	0	1	0	0	0	15470	1066	37	5	7287	5	SYNE1	6	152576134	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	681669	152576134	18538933	2917	56748											
SYNE1	23345	broad.mit.edu	37	chr6	152631869	152631869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacgaattttgatcatctgtCgcaactcctcagtctcccgt	9	13	6	13	3	4	1	2	1	2	0	7	2	5	1	2	0	2	1	2	0	3	2	rs141550859	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:152631869C>T	uc010kiw.2	-	88	17452	c.16850G>A	c.(16849-16851)CGA>CAA	p.R5617Q	SYNE1_uc010kiv.2_Missense_Mutation_p.R141Q|SYNE1_uc003qos.3_Missense_Mutation_p.R141Q|SYNE1_uc003qot.3_Missense_Mutation_p.R5546Q|SYNE1_uc003qou.3_Missense_Mutation_p.R5617Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5617	Spectrin 17.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GATCATCTGTCGCAACTCCTC	0.363										HNSCC(10;0.0054)			11	19					0	0	1	0	0		T	152631869	T	T	152631869	3	4	89	1	0	0	0	0	1	0	0	0	15470	884	31	1	9852	1	SYNE1	6	152631869	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	55735	152631869	18483198	2918	56749											
SYNE1	23345	broad.mit.edu	37	chr6	152725425	152725425	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgcagttcttccaatcTcaatgctttgtttttaactt	9	18	6	8	0	2	0	1	0	2	0	4	1	3	1	1	1	3	4	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:152725425T>G	uc010kiw.2	-	46	7350	c.6748A>C	c.(6748-6750)AGA>CGA	p.R2250R	SYNE1_uc003qot.3_Silent_p.R2257R|SYNE1_uc003qou.3_Silent_p.R2250R|SYNE1_uc010kjb.1_Silent_p.R2233R	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2250	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCTTCCAATCTCAATGCTTTG	0.323										HNSCC(10;0.0054)			28	37					0	0	1	0	0		G	152725425	G	G	152725425	2	3	89	1	0	0	0	0	0	0	0	1	15470	1559	54	5		5	SYNE1	6	152725425	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	93556	152725425	18389642	2919	56750											
SYNE1	23345	broad.mit.edu	37	chr6	152792886	152792886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggtgtagctctgatgtggagGaaacaaaatgaaacctagaa	16	8	12	5	0	1	3	0	2	1	1	1	5	1	5	1	3	3	2	1	3	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:152792886G>A	uc010kiw.2	-	16	2080	c.1478C>T	c.(1477-1479)TCC>TTC	p.S493F	SYNE1_uc003qot.3_Missense_Mutation_p.S500F|SYNE1_uc003qou.3_Missense_Mutation_p.S493F|SYNE1_uc010kjb.1_Missense_Mutation_p.S476F|SYNE1_uc003qpa.1_Missense_Mutation_p.S493F|SYNE1_uc003qox.1_Missense_Mutation_p.S9F|SYNE1_uc003qoz.2_Intron|SYNE1_uc003qoy.2_Missense_Mutation_p.S60F	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	493	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TGATGTGGAGGAAACAAAATG	0.363										HNSCC(10;0.0054)			22	24					0	0	1	0	0		A	152792886	A	A	152792886	3	1	89	1	0	0	0	0	1	0	0	0	15470	1174	41	4	25512	4	SYNE1	6	152792886	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	67461	152792886	18322181	2920	56751											
SYNE1	23345	broad.mit.edu	37	chr6	152826458	152826458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaccaattccggtcgaatgGcatgaataactgaatgaaag	15	8	9	9	2	0	3	0	3	0	0	2	4	1	3	3	2	1	1	3	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:152826458G>A	uc010kiw.2	-	9	1258	c.656C>T	c.(655-657)GCC>GTC	p.A219V	SYNE1_uc003qot.3_Missense_Mutation_p.A226V|SYNE1_uc003qou.3_Missense_Mutation_p.A219V|SYNE1_uc010kjb.1_Missense_Mutation_p.A219V|SYNE1_uc003qpa.1_Missense_Mutation_p.A219V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	219	Actin-binding.|CH 2.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CGGTCGAATGGCATGAATAAC	0.428										HNSCC(10;0.0054)			33	31					0	0	1	0	0		A	152826458	A	A	152826458	3	1	89	1	0	0	0	0	1	0	0	0	15470	1203	42	2	26362	2	SYNE1	6	152826458	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	33572	152826458	18288609	2921	56752											
TFB1M	51106	broad.mit.edu	37	chr6	155578994	155578994	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctgtaattctctgcgtcAtcctcttctttttcttcatt	5	21	4	11	1	7	0	2	0	5	0	9	0	8	0	1	0	1	1	1	0	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:155578994A>C	uc003qqj.3	-	7	1081	c.1017T>G	c.(1015-1017)GAT>GAG	p.D339E	TFB1M_uc003qqk.2_RNA|uc003qqi.1_5'Flank	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	339					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		TCTCTGCGTCATCCTCTTCTT	0.413													39	33					0	0	1	0	0		C	155578994	C	C	155578994	3	2	89	1	0	0	0	0	1	0	0	0	15818	214	8	5	27	5	TFB1M	6	155578994	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2752536	155578994	15536073	2922	56753											
FNDC1	84624	broad.mit.edu	37	chr6	159653106	159653106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctaatggtggggcgccccGaaaaccccagcttcgcgcca	8	5	13	15	4	0	0	0	0	0	0	1	1	0	0	5	4	2	2	5	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:159653106G>A	uc010kjv.2	+	11	1762	c.1562G>A	c.(1561-1563)CGA>CAA	p.R521Q	FNDC1_uc010kjw.1_Missense_Mutation_p.R406Q	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	521						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		GGGGCGCCCCGAAAACCCCAG	0.567													16	14					0	0	1	0	0		A	159653106	A	A	159653106	3	1	89	1	0	0	0	0	1	0	0	0	5982	1058	37	1	1604	1	FNDC1	6	159653106	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4074112	159653106	11461961	2923	56754											
FNDC1	84624	broad.mit.edu	37	chr6	159653414	159653414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcctctcctgcccaccacGcgtccacccagggcacctct	5	6	8	22	3	2	0	0	0	2	0	4	0	3	0	7	2	1	1	7	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:159653414G>A	uc010kjv.2	+	11	2070	c.1870G>A	c.(1870-1872)GCG>ACG	p.A624T	FNDC1_uc010kjw.1_Missense_Mutation_p.A509T	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	624						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		TGCCCACCACGCGTCCACCCA	0.667													25	13					0	0	1	0	0		A	159653414	A	A	159653414	3	1	89	1	0	0	0	0	1	0	0	0	5982	1087	38	1	1912	1	FNDC1	6	159653414	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	308	159653414	11461653	2924	56755											
TCP1	6950	broad.mit.edu	37	chr6	160200773	160200773	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctagtgtattgggaataAcaagaagtgatcttgcaaac	14	11	10	6	0	1	2	0	1	1	1	1	3	1	3	0	1	4	3	0	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:160200773A>G	uc003qsr.2	-	11	1575	c.1340T>C	c.(1339-1341)GTT>GCT	p.V447A	TCP1_uc003qss.2_Missense_Mutation_p.V292A|TCP1_uc010kjz.2_Intron|TCP1_uc003qst.2_Missense_Mutation_p.V223A	NM_030752	NP_110379	P17987	TCPA_HUMAN	T-complex protein 1 isoform a	447					'de novo' posttranslational protein folding|tubulin complex assembly	cell junction|Golgi apparatus	ATP binding|unfolded protein binding			breast(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(65;4.05e-20)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		ATTGGGAATAACAAGAAGTGA	0.418													40	35					0	0	1	0	0		G	160200773	G	G	160200773	3	3	89	1	0	0	0	0	1	0	0	0	15734	43	2	3	338	3	TCP1	6	160200773	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	547359	160200773	10914294	2925	56756											
LPA	4018	broad.mit.edu	37	chr6	161015117	161015117	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccatcaccatggtagcAatcctggaccccggggcttt	7	10	10	14	1	1	0	1	0	0	0	3	1	3	1	5	4	1	3	5	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:161015117A>G	uc003qtl.2	-	23	3622	c.3502T>C	c.(3502-3504)TGC>CGC	p.C1168R		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3676	Kringle 33.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	CCATGGTAGCAATCCTGGACC	0.473													52	36					0	0	1	0	0		G	161015117	G	G	161015117	3	3	89	1	0	0	0	0	1	0	0	0	8921	130	5	3	2692	3	LPA	6	161015117	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	814344	161015117	10099950	2926	56757											
PLG	5340	broad.mit.edu	37	chr6	161160158	161160158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacaccaagaagtgaatctcGaaccgcatgttcaggaaata	16	7	8	10	2	2	2	1	1	1	1	3	4	2	3	2	1	1	2	2	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:161160158G>A	uc003qtm.3	+	16	1999	c.1936G>A	c.(1936-1938)GAA>AAA	p.E646K		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	646	Peptidase S1.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	AGTGAATCTCGAACCGCATGT	0.488													29	35					0	0	1	0	0		A	161160158	A	A	161160158	3	1	89	1	0	0	0	0	1	0	0	0	12105	1059	37	1	2002	1	PLG	6	161160158	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	145041	161160158	9954909	2927	56758											
MAP3K4	4216	broad.mit.edu	37	chr6	161470677	161470677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaggagttggaaagtagtaCggatgagagtgaagaagaac	18	6	15	2	1	0	4	0	2	0	3	0	8	0	7	0	3	2	3	0	3	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:161470677C>T	uc003qtn.2	+	3	1515	c.1373C>T	c.(1372-1374)ACG>ATG	p.T458M	MAP3K4_uc010kkc.1_Missense_Mutation_p.T458M|MAP3K4_uc003qto.2_Missense_Mutation_p.T458M|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Translation_Start_Site	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	458					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		GAAAGTAGTACGGATGAGAGT	0.478													15	20					0	0	1	0	0		T	161470677	T	T	161470677	3	4	89	1	0	0	0	0	1	0	0	0	9270	536	19	1	1383	1	MAP3K4	6	161470677	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	310519	161470677	9644390	2928	56759											
MAP3K4	4216	broad.mit.edu	37	chr6	161513055	161513055	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacagtatcataaagaagTtgttcgtttgatgtctgggg	10	15	11	5	1	2	2	1	1	1	1	3	2	2	2	0	2	1	4	0	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:161513055T>G	uc003qtn.2	+	13	3291	c.3149T>G	c.(3148-3150)GTT>GGT	p.V1050G	MAP3K4_uc010kkc.1_Missense_Mutation_p.V1050G|MAP3K4_uc003qto.2_Missense_Mutation_p.V1050G|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.V503G|MAP3K4_uc003qtp.2_Missense_Mutation_p.V40G	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	1050					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		CATAAAGAAGTTGTTCGTTTG	0.328													56	45					0	0	1	0	0		G	161513055	G	G	161513055	3	3	89	1	0	0	0	0	1	0	0	0	9270	1725	60	5	3199	5	MAP3K4	6	161513055	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	42378	161513055	9602012	2929	56760											
C6orf118	168090	broad.mit.edu	37	chr6	165713944	165713944	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcagtctgttgaactgcTgggggctgcacgtgcaaatt	7	11	14	9	2	1	1	0	1	1	0	1	1	1	1	0	2	5	6	0	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:165713944T>G	uc003qum.3	-	3	821	c.785A>C	c.(784-786)CAG>CCG	p.Q262P	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	262											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		GTTGAACTGCTGGGGGCTGCA	0.423													71	66					0	0	1	0	0		G	165713944	G	G	165713944	3	3	89	1	0	0	0	0	1	0	0	0	2326	1580	55	5	652	5	C6orf118	6	165713944	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4200889	165713944	5401123	2930	56761											
KIF25	3834	broad.mit.edu	37	chr6	168440763	168440763	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggctgtcggcagcgcctcGaaactgatggagctcgttca	8	8	14	11	4	1	1	1	1	0	0	4	3	1	2	1	3	3	4	1	3	1	1	rs146483835		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:168440763G>A	uc003qwk.1	+	6	775	c.513G>A	c.(511-513)TCG>TCA	p.S171S	KIF25_uc003qwl.1_Silent_p.S171S	NM_030615	NP_085118	Q9UIL4	KIF25_HUMAN	kinesin family member 25 isoform 1	171	Kinesin-motor.				microtubule-based movement|mitotic sister chromatid segregation	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(1)|pancreas(1)	2		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		GCAGCGCCTCGAAACTGATGG	0.607													29	35					0	0	1	0	0		A	168440763	A	A	168440763	2	1	89	1	0	0	0	0	0	0	0	1	8309	1045	37	1		1	KIF25	6	168440763	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2726819	168440763	2674304	2931	56762											
DLL1	28514	broad.mit.edu	37	chr6	170592125	170592125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcggatatgacgtacaccGactggtacttggtgtctttt	7	14	10	10	3	1	1	0	1	1	0	2	3	1	2	2	3	2	2	2	3	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr6:170592125G>A	uc003qxm.2	-	10	2587	c.2117C>T	c.(2116-2118)TCG>TTG	p.S706L		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	706	Cytoplasmic (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		GACGTACACCGACTGGTACTT	0.502													41	61					0	0	1	0	0		A	170592125	A	A	170592125	3	1	89	1	0	0	0	0	1	0	0	0	4572	1059	37	1	62	1	DLL1	6	170592125	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2151362	170592125	522942	2932	56763											
INTS1	26173	broad.mit.edu	37	chr7	1511249	1511249	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctccgccgggacatctcGtctatgtcactcagaacctc	7	10	9	15	3	5	1	2	0	3	1	8	2	5	2	3	2	1	0	3	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:1511249G>A	uc003skn.2	-	45	6314	c.6213C>T	c.(6211-6213)GAC>GAT	p.D2071D	INTS1_uc003skm.1_Silent_p.D208D	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	2071					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		GGGACATCTCGTCTATGTCAC	0.632													22	59					0	0	1	0	0		A	1511249	A	A	1511249	2	1	89	1	0	0	0	0	0	0	0	1	7791	1136	40	1		1	INTS1	7	1511249	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08		1511249	157627414	2933	56764											
EIF3B	8662	broad.mit.edu	37	chr7	2406181	2406181	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagccatgatggcaaattCtttgccagaatgaccctgga	11	10	11	9	0	1	3	0	2	1	1	1	5	1	5	3	3	2	1	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:2406181C>A	uc003slx.2	+	8	1394	c.1311C>A	c.(1309-1311)TTC>TTA	p.F437L	EIF3B_uc003sly.2_Missense_Mutation_p.F437L|EIF3B_uc003sma.2_Missense_Mutation_p.F165L	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,	437	WD 3.				regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		ATGGCAAATTCTTTGCCAGAA	0.483													41	75					6.1244e-12	6.75432e-12	1	1	0		A	2406181	A	A	2406181	3	1	89	1	0	0	0	0	1	0	0	0	5019	912	32	5	1341	5	EIF3B	7	2406181	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	894932	2406181	156732482	2934	56765											
EIF3B	8662	broad.mit.edu	37	chr7	2414218	2414218	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagcccccaaggacagttCgtggtgttggcgggcctgag	6	8	17	10	2	0	1	0	1	0	0	1	3	0	3	3	5	1	2	3	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:2414218C>T	uc003slx.2	+	13	1949	c.1866C>T	c.(1864-1866)TTC>TTT	p.F622F	EIF3B_uc003sly.2_Silent_p.F622F|EIF3B_uc003sma.2_Silent_p.F350F|EIF3B_uc003smb.2_5'Flank	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,	622					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		AAGGACAGTTCGTGGTGTTGG	0.627													36	89					0	0	1	0	0		T	2414218	T	T	2414218	2	4	89	1	0	0	0	0	0	0	0	1	5019	883	31	1		1	EIF3B	7	2414218	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8037	2414218	156724445	2935	56766											
CARD11	84433	broad.mit.edu	37	chr7	2946428	2946428	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agctccttctccttcagccgGcacacgcgcaggaactcctc	7	8	8	18	3	2	0	1	0	1	0	6	1	4	1	4	2	3	3	4	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:2946428G>A	uc003smv.2	-	25	3713	c.3309C>T	c.(3307-3309)TGC>TGT	p.C1103C		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	1103	Guanylate kinase-like.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		CCTTCAGCCGGCACACGCGCA	0.672			Mis		DLBCL								17	31					0	0	1	0	0		A	2946428	A	A	2946428	2	1	89	1	0	0	0	0	0	0	0	1	2648	1195	42	2		2	CARD11	7	2946428	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	532210	2946428	156192235	2936	56767											
CARD11	84433	broad.mit.edu	37	chr7	2951926	2951926	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaactcatctcttgtgacGatatctgcagagagaggggc	11	9	13	8	1	3	3	1	1	2	2	4	6	3	4	0	3	2	1	0	3	2	2	rs148497800	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:2951926G>A	uc003smv.2	-	23	3428	c.3024C>T	c.(3022-3024)ATC>ATT	p.I1008I		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	1008	Guanylate kinase-like.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		CTCTTGTGACGATATCTGCAG	0.582			Mis		DLBCL								21	30					0	0	1	0	0		A	2951926	A	A	2951926	2	1	89	1	0	0	0	0	0	0	0	1	2648	1048	37	1		1	CARD11	7	2951926	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5498	2951926	156186737	2937	56768											
CARD11	84433	broad.mit.edu	37	chr7	2974176	2974176	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactcctccgaggtggaagAatcgtcagcttcttgaccat	9	11	10	11	2	2	3	1	2	1	1	5	5	4	4	3	2	1	1	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:2974176A>C	uc003smv.2	-	10	1833	c.1429T>G	c.(1429-1431)TCT>GCT	p.S477A		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	477					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GAGGTGGAAGAATCGTCAGCT	0.577			Mis		DLBCL								12	27					0	0	1	0	0		C	2974176	C	C	2974176	3	2	89	1	0	0	0	0	1	0	0	0	2648	246	9	5	2099	5	CARD11	7	2974176	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	22250	2974176	156164487	2938	56769											
SDK1	221935	broad.mit.edu	37	chr7	3678674	3678674	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagaagctcgatgctgggtTttaccgctgcgtggtgcgaa	7	10	15	9	4	0	1	0	0	0	1	1	3	0	1	1	2	5	5	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:3678674T>G	uc003smx.2	+	3	636	c.497T>G	c.(496-498)TTT>TGT	p.F166C		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	166	Ig-like C2-type 1.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GATGCTGGGTTTTACCGCTGC	0.408													9	20					0	0	1	0	0		G	3678674	G	G	3678674	3	3	89	1	0	0	0	0	1	0	0	0	13993	1841	64	5	507	5	SDK1	7	3678674	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	704498	3678674	155459989	2939	56770											
SDK1	221935	broad.mit.edu	37	chr7	3681706	3681706	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagtgacttggtttagaGaagggcacaagattattcca	13	11	10	7	0	1	3	1	1	0	2	2	4	2	3	1	2	0	2	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:3681706G>T	uc003smx.2	+	4	821	c.682G>T	c.(682-684)GAA>TAA	p.E228*		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	228	Ig-like C2-type 2.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TTGGTTTAGAGAAGGGCACAA	0.453													21	53					2.39556e-15	2.72789e-15	1	1	0		T	3681706	T	T	3681706	4	4	89	1	0	0	0	0	0	1	0	0	13993	943	33	5	696	5	SDK1	7	3681706	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3032	3681706	155456957	2940	56771											
SDK1	221935	broad.mit.edu	37	chr7	4116768	4116768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgacgtggccgctgtgactgCcgtgggcactggcctggtga	4	8	17	12	4	0	2	0	2	0	0	0	3	0	2	3	4	1	2	3	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:4116768C>T	uc003smx.2	+	21	3288	c.3149C>T	c.(3148-3150)GCC>GTC	p.A1050V	SDK1_uc010kso.2_Missense_Mutation_p.A326V	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1050	Fibronectin type-III 4.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GCTGTGACTGCCGTGGGCACT	0.577													15	39					0	0	1	0	0		T	4116768	T	T	4116768	3	4	89	1	0	0	0	0	1	0	0	0	13993	739	26	2	3231	2	SDK1	7	4116768	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	435062	4116768	155021895	2941	56772											
TNRC18	84629	broad.mit.edu	37	chr7	5372633	5372633	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccccgcaggcgaccgctTgcgcaccttgacctcgctct	5	7	10	19	5	1	1	0	1	1	0	2	2	1	1	5	1	2	4	5	1	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:5372633T>C	uc003soi.3	-	19	6116	c.5767A>G	c.(5767-5769)AAG>GAG	p.K1923E		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1923							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GGCGACCGCTTGCGCACCTTG	0.721													5	7					0	0	1	0	0		C	5372633	C	C	5372633	3	2	89	1	0	0	0	0	1	0	0	0	16364	1821	63	3	3187	3	TNRC18	7	5372633	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1255865	5372633	153766030	2942	56773											
TNRC18	84629	broad.mit.edu	37	chr7	5410840	5410840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagcggatgggcttgtcttCgggtgagagtgccaggcgct	6	9	17	9	3	1	1	0	1	1	1	2	3	1	2	1	4	2	2	1	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:5410840C>T	uc003soi.3	-	11	3734	c.3385G>A	c.(3385-3387)GAA>AAA	p.E1129K		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1129	Pro-rich.						DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GGCTTGTCTTCGGGTGAGAGT	0.701													10	18					0	0	1	0	0		T	5410840	T	T	5410840	3	4	89	1	0	0	0	0	1	0	0	0	16364	893	31	1	5601	1	TNRC18	7	5410840	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	38207	5410840	153727823	2943	56774											
TNRC18	84629	broad.mit.edu	37	chr7	5415827	5415827	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagggcgggccagaggggCggtacggtggcccgctccat	6	5	18	12	4	0	1	0	0	0	1	1	1	1	1	3	7	2	2	3	7	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:5415827C>T	uc003soi.3	-	9	2986	c.2637G>A	c.(2635-2637)CCG>CCA	p.P879P		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	879							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GCCAGAGGGGCGGTACGGTGG	0.692													5	5					0	0	1	0	0		T	5415827	T	T	5415827	2	4	89	1	0	0	0	0	0	0	0	1	16364	755	27	1		1	TNRC18	7	5415827	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4987	5415827	153722836	2944	56775											
RNF216	54476	broad.mit.edu	37	chr7	5662563	5662563	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggggcatgtggatgggaccGaagtcatagttgacccgcac	10	7	15	9	2	1	1	1	1	0	0	1	4	1	3	2	4	0	3	2	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:5662563G>A	uc003soy.1	-	17	2719	c.2529C>T	c.(2527-2529)TTC>TTT	p.F843F	RNF216_uc010ksz.1_Silent_p.F465F|RNF216_uc010kta.1_Silent_p.F465F|RNF216_uc011jwj.1_Silent_p.F465F|RNF216_uc003sox.1_Silent_p.F900F	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	843	Pro-rich.				apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		GGATGGGACCGAAGTCATAGT	0.627													75	124					0	0	1	0	0		A	5662563	A	A	5662563	2	1	89	1	0	0	0	0	0	0	0	1	13505	1049	37	1		1	RNF216	7	5662563	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	246736	5662563	153476100	2945	56776											
RNF216	54476	broad.mit.edu	37	chr7	5780605	5780605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgataaaataaaacttaccGtttctttcactagtagttca	14	16	4	7	1	3	1	2	1	1	0	3	1	3	1	1	0	2	3	1	0	7	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:5780605G>A	uc003soy.1	-	4	1062	c.872C>T	c.(871-873)ACG>ATG	p.T291M	RNF216_uc010ksz.1_Translation_Start_Site|RNF216_uc010kta.1_Intron|RNF216_uc011jwj.1_Intron|RNF216_uc003sox.1_Missense_Mutation_p.T348M	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	291					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		AAAACTTACCGTTTCTTTCAC	0.343													21	48					0	0	1	0	0		A	5780605	A	A	5780605	3	1	89	1	0	0	0	0	1	0	0	0	13505	1159	40	1	1784	1	RNF216	7	5780605	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	118042	5780605	153358058	2946	56777											
RNF216	54476	broad.mit.edu	37	chr7	5792512	5792512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcatcatccaggtcctcttCttcatgctgctgaggagctg	7	13	9	12	0	5	1	3	1	2	0	7	2	7	2	2	2	3	3	2	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:5792512C>T	uc003soy.1	-	3	356	c.166G>A	c.(166-168)GAA>AAA	p.E56K	RNF216_uc010ksz.1_5'UTR|RNF216_uc010kta.1_5'UTR|RNF216_uc011jwj.1_Intron|RNF216_uc003sox.1_Missense_Mutation_p.E56K	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	56					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		AGGTCCTCTTCTTCATGCTGC	0.453													13	28					0	0	1	0	0		T	5792512	T	T	5792512	3	4	89	1	0	0	0	0	1	0	0	0	13505	922	32	4	2665	4	RNF216	7	5792512	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11907	5792512	153346151	2947	56778											
ZNF12	7559	broad.mit.edu	37	chr7	6731035	6731035	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttactcctgaatgagttCtatgatggatagtgaggtat	10	16	11	4	0	1	4	0	4	1	0	2	5	2	5	1	2	1	3	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:6731035C>A	uc003sqt.1	-	5	2092	c.1538G>T	c.(1537-1539)AGA>ATA	p.R513I	ZNF12_uc011jxa.1_Missense_Mutation_p.R351I|ZNF12_uc003sqs.1_Missense_Mutation_p.R475I	NM_016265	NP_057349	P17014	ZNF12_HUMAN	zinc finger protein 12 isoform a	513	C2H2-type 9.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0231)		TGAATGAGTTCTATGATGGAT	0.418													33	79					4.4194e-11	4.82974e-11	1	1	0		A	6731035	A	A	6731035	3	1	89	1	0	0	0	0	1	0	0	0	17743	913	32	5	559	5	ZNF12	7	6731035	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	938523	6731035	152407628	2948	56779											
RSPH10B2	728194	broad.mit.edu	37	chr7	6805365	6805365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttattacaatcaagagggtaCgtgttggtacgagggagact	12	11	13	5	2	1	2	1	0	0	2	1	4	1	2	0	3	3	3	0	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:6805365C>T	uc003sqw.1	+	7	873	c.602C>T	c.(601-603)ACG>ATG	p.T201M	RSPH10B2_uc010ktk.1_Missense_Mutation_p.T201M|RSPH10B2_uc011jxc.1_Intron|RSPH10B2_uc010ktl.1_RNA	NM_173565	NP_775836	B2RC85	R10B2_HUMAN	radial spoke head 10 homolog B	201	MORN 5.									ovary(1)|pancreas(1)|skin(1)	3						CAAGAGGGTACGTGTTGGTAC	0.423													14	67					0	0	1	0	0		T	6805365	T	T	6805365	3	4	89	1	0	0	0	0	1	0	0	0	13729	536	19	1	3309	1	RSPH10B2	7	6805365	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	74330	6805365	152333298	2949	56780											
C1GALT1	56913	broad.mit.edu	37	chr7	7278086	7278086	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaaccaaagaaggcagaGatcaactatactggaaaaca	21	5	8	7	0	1	3	1	1	0	2	1	5	1	4	1	2	4	1	1	2	9	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:7278086G>T	uc010ktn.2	+	3	644	c.421G>T	c.(421-423)GAT>TAT	p.D141Y	C1GALT1_uc003sra.2_Missense_Mutation_p.D141Y|C1GALT1_uc010kto.1_Missense_Mutation_p.D141Y	NM_020156	NP_064541	Q9NS00	C1GLT_HUMAN	core 1 synthase,	141	Lumenal (Potential).				angiogenesis|cell differentiation|kidney development	integral to membrane	glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase activity|metal ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.177)		AGAAGGCAGAGATCAACTATA	0.373													30	67					9.39395e-14	1.05303e-13	1	1	0		T	7278086	T	T	7278086	3	4	89	1	0	0	0	0	1	0	0	0	1955	942	33	5	427	5	C1GALT1	7	7278086	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	472721	7278086	151860577	2950	56781											
C1GALT1	56913	broad.mit.edu	37	chr7	7278461	7278461	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataccattggaaaagaaactTttcatccctttgtgccagaa	14	12	6	9	0	1	2	1	0	0	2	2	3	2	3	3	1	3	0	3	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:7278461T>A	uc010ktn.2	+	3	1019	c.796T>A	c.(796-798)TTT>ATT	p.F266I	C1GALT1_uc003sra.2_Missense_Mutation_p.F266I|C1GALT1_uc010kto.1_Missense_Mutation_p.F266I	NM_020156	NP_064541	Q9NS00	C1GLT_HUMAN	core 1 synthase,	266	Lumenal (Potential).				angiogenesis|cell differentiation|kidney development	integral to membrane	glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase activity|metal ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.177)		AAAAGAAACTTTTCATCCCTT	0.378													22	42					0	0	1	0	0		A	7278461	A	A	7278461	3	1	89	1	0	0	0	0	1	0	0	0	1955	1841	64	5	802	5	C1GALT1	7	7278461	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	375	7278461	151860202	2951	56782											
COL28A1	340267	broad.mit.edu	37	chr7	7493131	7493131	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggtggaccaataggaccTtggattccctttaaaataaa	14	10	8	9	0	0	0	0	0	0	0	1	3	1	3	4	4	0	0	4	4	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:7493131T>G	uc003src.1	-	17	1497	c.1380A>C	c.(1378-1380)CAA>CAC	p.Q460H	COL28A1_uc011jxe.1_Missense_Mutation_p.Q143H|COL28A1_uc003srd.2_Missense_Mutation_p.Q15H	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	460					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		CAATAGGACCTTGGATTCCCt	0.373													27	72					0	0	1	0	0		G	7493131	G	G	7493131	3	3	89	1	0	0	0	0	1	0	0	0	3689	1606	56	5	2073	5	COL28A1	7	7493131	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	214670	7493131	151645532	2952	56783											
PHF14	9678	broad.mit.edu	37	chr7	11076293	11076293	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaaccagctctcactgcAgattttgtgaattattattt	12	15	6	8	0	1	2	1	1	1	1	2	2	1	2	1	0	4	3	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:11076293A>C	uc003sry.1	+	9	2286	c.1851A>C	c.(1849-1851)GCA>GCC	p.A617A	PHF14_uc011jxi.1_Silent_p.A332A|PHF14_uc003srz.2_Silent_p.A617A|PHF14_uc011jxj.1_Silent_p.A332A	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	617							zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		CTCTCACTGCAGATTTTGTGA	0.348													12	29					0	0	1	0	0		C	11076293	C	C	11076293	2	2	89	1	0	0	0	0	0	0	0	1	11844	175	7	5		5	PHF14	7	11076293	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3583162	11076293	148062370	2953	56784											
PHF14	9678	broad.mit.edu	37	chr7	11091326	11091326	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatggaaccaaacgatcAaggaggcagattaaggaacc	17	4	11	9	1	1	2	1	0	0	2	1	6	1	5	3	4	3	1	3	4	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:11091326A>G	uc003sry.1	+	14	2835	c.2400A>G	c.(2398-2400)TCA>TCG	p.S800S	PHF14_uc011jxi.1_Silent_p.S515S|PHF14_uc003srz.2_Silent_p.S800S|PHF14_uc011jxj.1_Silent_p.S515S	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	800							zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		CCAAACGATCAAGGAGGCAGA	0.458													13	34					0	0	1	0	0		G	11091326	G	G	11091326	2	3	89	1	0	0	0	0	0	0	0	1	11844	117	5	3		3	PHF14	7	11091326	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	15033	11091326	148047337	2954	56785											
THSD7A	221981	broad.mit.edu	37	chr7	11446969	11446969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgagaacattctgaccaagGagaccaatcagaaagctgac	16	7	9	9	0	2	5	1	3	1	3	2	7	2	5	2	1	2	1	2	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:11446969G>A	uc003ssf.3	-	19	4132	c.3880C>T	c.(3880-3882)CCT>TCT	p.P1294S		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1294	Extracellular (Potential).|TSP type-1 13.					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TCTGACCAAGGAGACCAATCA	0.438										HNSCC(18;0.044)			12	14					0	0	1	0	0		A	11446969	A	A	11446969	3	1	89	1	0	0	0	0	1	0	0	0	15904	1174	41	4	1129	4	THSD7A	7	11446969	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	355643	11446969	147691694	2955	56786											
THSD7A	221981	broad.mit.edu	37	chr7	11450874	11450874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caactgacttgccatcacttCgaacacaatccaacatcctt	13	10	3	15	1	1	1	1	1	0	0	4	2	3	1	3	0	4	0	3	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:11450874C>T	uc003ssf.3	-	18	4010	c.3758G>A	c.(3757-3759)CGA>CAA	p.R1253Q		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1253	TSP type-1 12.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		GCCATCACTTCGAACACAATC	0.403										HNSCC(18;0.044)			19	41					0	0	1	0	0		T	11450874	T	T	11450874	3	4	89	1	0	0	0	0	1	0	0	0	15904	884	31	1	1255	1	THSD7A	7	11450874	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3905	11450874	147687789	2956	56787											
THSD7A	221981	broad.mit.edu	37	chr7	11514155	11514155	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatgctcattacagcttcgTacttcttgcaaagcactgct	9	13	8	11	1	2	0	1	0	1	0	3	1	2	1	0	1	7	6	0	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:11514155T>C	uc003ssf.3	-	8	2310	c.2058A>G	c.(2056-2058)GTA>GTG	p.V686V		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	686	TSP type-1 6.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TACAGCTTCGTACTTCTTGCA	0.463										HNSCC(18;0.044)			14	31					0	0	1	0	0		C	11514155	C	C	11514155	2	2	89	1	0	0	0	0	0	0	0	1	15904	1625	57	3		3	THSD7A	7	11514155	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	63281	11514155	147624508	2957	56788											
SCIN	85477	broad.mit.edu	37	chr7	12680065	12680065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaatggaacatcaaagaaaGgaggtcaggcacctgctccc	15	5	11	10	0	2	2	2	0	0	2	3	4	3	4	2	4	2	2	2	4	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:12680065G>A	uc003ssn.3	+	11	1714	c.1504G>A	c.(1504-1506)GGA>AGA	p.G502R	SCIN_uc010ktt.2_RNA|SCIN_uc003sso.3_Missense_Mutation_p.G255R	NM_001112706	NP_001106177	Q9Y6U3	ADSV_HUMAN	scinderin isoform 1	502	Ca(2+)-dependent actin binding.				actin filament capping|actin filament severing|actin nucleation|calcium ion-dependent exocytosis|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of megakaryocyte differentiation|positive regulation of secretion|regulation of chondrocyte differentiation	cell cortex|cytoskeleton	1-phosphatidylinositol binding|actin filament binding|calcium ion binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		ATCAAAGAAAGGAGGTCAGGC	0.463													10	26					0	0	1	0	0		A	12680065	A	A	12680065	3	1	89	1	0	0	0	0	1	0	0	0	13930	1001	35	4	1546	4	SCIN	7	12680065	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1165910	12680065	146458598	2958	56789											
ETV1	2115	broad.mit.edu	37	chr7	13946202	13946202	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggtccttcccgatacatTcctggctcttgtttgatgtc	4	16	10	11	1	1	1	0	1	1	0	5	2	4	1	3	2	1	2	3	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:13946202T>G	uc011jxq.1	-	12	1702	c.963A>C	c.(961-963)GGA>GGC	p.G321G	ETV1_uc011jxn.1_Silent_p.G281G|ETV1_uc011jxo.1_Silent_p.G218G|ETV1_uc011jxp.1_Silent_p.G263G|ETV1_uc003ssw.3_Silent_p.G298G|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Silent_p.G303G|ETV1_uc011jxs.1_Silent_p.G303G|ETV1_uc010ktv.2_Missense_Mutation_p.E190A	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	321					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						CCCGATACATTCCTGGCTCTT	0.363			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								7	19					0	0	1	0	0		G	13946202	G	G	13946202	2	3	89	1	0	0	0	0	0	0	0	1	5285	1770	62	5		5	ETV1	7	13946202	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1266137	13946202	145192461	2959	56790											
ETV1	2115	broad.mit.edu	37	chr7	13971292	13971292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttggctcagacatctggcGttggtacataggacgtcctt	7	13	12	9	2	2	1	1	0	1	1	3	2	3	2	1	4	1	4	1	4	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:13971292G>A	uc011jxq.1	-	9	1376	c.637C>T	c.(637-639)CGC>TGC	p.R213C	ETV1_uc011jxn.1_Missense_Mutation_p.R173C|ETV1_uc011jxo.1_Missense_Mutation_p.R110C|ETV1_uc011jxp.1_Missense_Mutation_p.R155C|ETV1_uc003ssw.3_Missense_Mutation_p.R213C|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Missense_Mutation_p.R195C|ETV1_uc011jxs.1_Missense_Mutation_p.R195C|ETV1_uc010ktv.2_Missense_Mutation_p.R82C	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	213					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						GACATCTGGCGTTGGTACATA	0.532			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								21	30					0	0	1	0	0		A	13971292	A	A	13971292	3	1	89	1	0	0	0	0	1	0	0	0	5285	1145	40	1	820	1	ETV1	7	13971292	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	25090	13971292	145167371	2960	56791											
ETV1	2115	broad.mit.edu	37	chr7	13971370	13971370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggttcagaaagctggcggcGaaatctagggaataagagag	14	6	16	5	2	2	2	1	0	1	2	2	5	2	3	0	4	1	2	0	4	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:13971370G>A	uc011jxq.1	-	9	1298	c.559C>T	c.(559-561)CGC>TGC	p.R187C	ETV1_uc011jxn.1_Missense_Mutation_p.R147C|ETV1_uc011jxo.1_Missense_Mutation_p.R84C|ETV1_uc011jxp.1_Missense_Mutation_p.R129C|ETV1_uc003ssw.3_Missense_Mutation_p.R187C|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Missense_Mutation_p.R169C|ETV1_uc011jxs.1_Missense_Mutation_p.R169C|ETV1_uc010ktv.2_Missense_Mutation_p.R56C	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	187					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						AGCTGGCGGCGAAATCTAGGG	0.448			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								15	33					0	0	1	0	0		A	13971370	A	A	13971370	3	1	89	1	0	0	0	0	1	0	0	0	5285	1058	37	1	898	1	ETV1	7	13971370	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	78	13971370	145167293	2961	56792											
ETV1	2115	broad.mit.edu	37	chr7	14027729	14027729	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttctgaatcatgagccaGatctctgttaatgaattttc	11	15	6	9	0	3	4	1	3	2	1	5	4	3	4	2	0	1	1	2	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:14027729G>T	uc011jxq.1	-	4	854	c.115C>A	c.(115-117)CTG>ATG	p.L39M	ETV1_uc011jxn.1_5'Flank|ETV1_uc011jxo.1_5'Flank|ETV1_uc011jxp.1_5'Flank|ETV1_uc003ssw.3_Missense_Mutation_p.L39M|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Missense_Mutation_p.L39M|ETV1_uc011jxs.1_Missense_Mutation_p.L39M|ETV1_uc010ktv.2_5'Flank	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	39				L -> V (in Ref. 2; CAA60642).	transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						TCATGAGCCAGATCTCTGTTA	0.388			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								8	35					1.58986e-06	1.65575e-06	1	1	0		T	14027729	T	T	14027729	3	4	89	1	0	0	0	0	1	0	0	0	5285	933	33	5	1427	5	ETV1	7	14027729	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	56359	14027729	145110934	2962	56793											
DGKB	1607	broad.mit.edu	37	chr7	14613896	14613896	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgggtctcctttctcatCtttgtcattaggtatgactt	6	18	7	10	0	4	1	2	1	3	0	6	1	4	1	1	2	0	1	1	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:14613896C>A	uc003ssz.2	-	19	1901	c.1714G>T	c.(1714-1716)GAT>TAT	p.D572Y	DGKB_uc011jxt.1_Missense_Mutation_p.D553Y|DGKB_uc003sta.2_Missense_Mutation_p.D572Y|DGKB_uc011jxu.1_Missense_Mutation_p.D571Y	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	572					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	CCTTTCTCATCTTTGTCATTA	0.368													80	138					7.68447e-34	9.45924e-34	1	1	0		A	14613896	A	A	14613896	3	1	89	1	0	0	0	0	1	0	0	0	4472	913	32	5	743	5	DGKB	7	14613896	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	586167	14613896	144524767	2963	56794											
DGKB	1607	broad.mit.edu	37	chr7	14741347	14741347	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccatccgtgtcataaaggcGaaacataactagaatgaaag	17	7	8	9	2	1	2	1	1	0	1	2	3	2	2	2	1	2	0	2	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:14741347G>A	uc003ssz.2	-	6	662	c.475C>T	c.(475-477)CGC>TGC	p.R159C	DGKB_uc011jxt.1_Missense_Mutation_p.R152C|DGKB_uc003sta.2_Missense_Mutation_p.R159C|DGKB_uc011jxu.1_Missense_Mutation_p.R159C|DGKB_uc011jxv.1_Missense_Mutation_p.R159C	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	159	EF-hand 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	TCATAAAGGCGAAACATAACT	0.318													11	48					0	0	1	0	0		A	14741347	A	A	14741347	3	1	89	1	0	0	0	0	1	0	0	0	4472	1058	37	1	2034	1	DGKB	7	14741347	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	127451	14741347	144397316	2964	56795											
ISPD	729920	broad.mit.edu	37	chr7	16255710	16255710	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtgggtaagatatgagaAgcccatataacaaaatattt	16	11	8	6	0	0	2	0	1	0	2	0	3	0	2	2	1	2	1	2	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:16255710A>C	uc010ktx.2	-	9	1232	c.1232T>G	c.(1231-1233)CTT>CGT	p.L411R	ISPD_uc010kty.2_Missense_Mutation_p.L361R|uc003stf.2_Intron	NM_001101426	NP_001094896	A4D126	ISPD_HUMAN	notch1-induced protein isoform a	411					isoprenoid biosynthetic process		nucleotidyltransferase activity			ovary(1)	1						AGATATGAGAAGCCCATATAA	0.328										Multiple Myeloma(15;0.18)			13	34					0	0	1	0	0		C	16255710	C	C	16255710	3	2	89	1	0	0	0	0	1	0	0	0	7880	72	3	5	131	5	ISPD	7	16255710	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1514363	16255710	142882953	2965	56796											
ISPD	729920	broad.mit.edu	37	chr7	16255773	16255773	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attctctaatctgcattaggTtttccattttctgactggga	8	18	7	8	0	3	1	0	1	3	0	5	2	4	2	1	2	1	2	1	2	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:16255773T>C	uc010ktx.2	-	9	1169	c.1169A>G	c.(1168-1170)AAC>AGC	p.N390S	ISPD_uc010kty.2_Missense_Mutation_p.N340S|uc003stf.2_Intron	NM_001101426	NP_001094896	A4D126	ISPD_HUMAN	notch1-induced protein isoform a	390					isoprenoid biosynthetic process		nucleotidyltransferase activity			ovary(1)	1						CTGCATTAGGTTTTCCATTTT	0.308										Multiple Myeloma(15;0.18)			12	17					0	0	1	0	0		C	16255773	C	C	16255773	3	2	89	1	0	0	0	0	1	0	0	0	7880	1725	60	3	194	3	ISPD	7	16255773	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	63	16255773	142882890	2966	56797											
SOSTDC1	25928	broad.mit.edu	37	chr7	16505131	16505131	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgaaatgcctgcctccatTtctggcttgattcaacgtgc	8	13	8	12	1	2	2	1	2	1	0	3	2	3	2	3	1	4	1	3	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:16505131T>G	uc003stg.2	-	1	344	c.163A>C	c.(163-165)AAT>CAT	p.N55H	SOSTDC1_uc003sth.2_Missense_Mutation_p.N55H	NM_015464	NP_056279	Q6X4U4	SOSD1_HUMAN	sclerostin domain containing 1 precursor	55					Wnt receptor signaling pathway					ovary(2)|central_nervous_system(1)	3	Lung NSC(10;0.185)			UCEC - Uterine corpus endometrioid carcinoma (126;0.177)		CTGCCTCCATTTCTGGCTTGA	0.408													13	126					0	0	1	0	0		G	16505131	G	G	16505131	3	3	89	1	0	0	0	0	1	0	0	0	14964	1841	64	5	465	5	SOSTDC1	7	16505131	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	249358	16505131	142633532	2967	56798											
ANKMY2	57037	broad.mit.edu	37	chr7	16650274	16650274	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttcatagccaatacttCattcatgtctctttgcttca	9	17	3	12	0	6	0	4	0	2	0	7	0	6	0	1	0	3	1	1	0	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:16650274C>A	uc003sti.2	-	6	846	c.646G>T	c.(646-648)GAA>TAA	p.E216*	ANKMY2_uc010ktz.2_RNA	NM_020319	NP_064715	Q8IV38	ANKY2_HUMAN	ankyrin repeat and MYND domain containing 2	216						cilium	zinc ion binding			central_nervous_system(1)	1	Lung NSC(10;0.103)|all_lung(11;0.204)			UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		GCCAATACTTCATTCATGTCT	0.358													23	70					1.55469e-16	1.78953e-16	1	1	0		A	16650274	A	A	16650274	4	1	89	1	0	0	0	0	0	1	0	0	635	835	29	5	699	5	ANKMY2	7	16650274	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	145143	16650274	142488389	2968	56799											
AHR	196	broad.mit.edu	37	chr7	17378642	17378642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacagagcatttacgaaaacGaaatacgaagttgcctttta	17	10	7	7	3	0	1	0	0	0	1	0	4	0	1	1	0	6	2	1	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:17378642G>A	uc011jxz.1	+	10	1806	c.1193G>A	c.(1192-1194)CGA>CAA	p.R398Q	AHR_uc003stt.3_RNA	NM_001621	NP_001612	P35869	AHR_HUMAN	aryl hydrocarbon receptor precursor	398					apoptosis|blood vessel development|cell cycle|regulation of B cell proliferation|response to stress|transcription from RNA polymerase II promoter|xenobiotic metabolic process	cytosolic aryl hydrocarbon receptor complex|transcription factor complex	Hsp90 protein binding|ligand-dependent nuclear receptor activity|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			urinary_tract(1)|kidney(1)|pancreas(1)	3	Lung NSC(10;0.0392)|all_lung(11;0.0754)					TTACGAAAACGAAATACGAAG	0.333													41	88					0	0	1	0	0		A	17378642	A	A	17378642	3	1	89	1	0	0	0	0	1	0	0	0	416	1058	37	1	1231	1	AHR	7	17378642	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	728368	17378642	141760021	2969	56800											
AHR	196	broad.mit.edu	37	chr7	17379187	17379187	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacattgacttaacggatGaaatcctgacgtatgtccaa	14	10	9	8	2	0	4	0	3	0	1	2	6	2	5	2	1	1	1	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:17379187G>T	uc011jxz.1	+	10	2351	c.1738G>T	c.(1738-1740)GAA>TAA	p.E580*	AHR_uc003stt.3_RNA	NM_001621	NP_001612	P35869	AHR_HUMAN	aryl hydrocarbon receptor precursor	580					apoptosis|blood vessel development|cell cycle|regulation of B cell proliferation|response to stress|transcription from RNA polymerase II promoter|xenobiotic metabolic process	cytosolic aryl hydrocarbon receptor complex|transcription factor complex	Hsp90 protein binding|ligand-dependent nuclear receptor activity|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			urinary_tract(1)|kidney(1)|pancreas(1)	3	Lung NSC(10;0.0392)|all_lung(11;0.0754)					CTTAACGGATGAAATCCTGAC	0.383													59	101					1.00798e-23	1.20828e-23	1	1	0		T	17379187	T	T	17379187	4	4	89	1	0	0	0	0	0	1	0	0	416	1291	45	5	1776	5	AHR	7	17379187	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	545	17379187	141759476	2970	56801											
SNX13	23161	broad.mit.edu	37	chr7	17836501	17836501	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctactcttgttctcattcGaatacttttatctctgcatg	7	19	5	10	1	3	0	1	0	3	0	6	1	3	0	0	0	4	3	0	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:17836501G>A	uc003stw.1	-	25	2821	c.2608C>T	c.(2608-2610)CGA>TGA	p.R870*	SNX13_uc003stv.2_Nonsense_Mutation_p.R859*|SNX13_uc010kuc.2_Nonsense_Mutation_p.R656*|SNX13_uc010kub.2_Nonsense_Mutation_p.R265*			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;	870					cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					GTTCTCATTCGAATACTTTTA	0.328													39	92					0	0	1	0	0		A	17836501	A	A	17836501	4	1	89	1	0	0	0	0	0	1	0	0	14909	1066	37	1	306	1	SNX13	7	17836501	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	457314	17836501	141302162	2971	56802											
SNX13	23161	broad.mit.edu	37	chr7	17854462	17854462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtctgcttacttaccttgcGagcaaaatccccttttcctt	7	15	6	13	1	1	0	0	0	1	0	3	1	3	0	4	1	5	2	4	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:17854462G>A	uc003stw.1	-	20	2305	c.2092C>T	c.(2092-2094)CGC>TGC	p.R698C	SNX13_uc003stv.2_Missense_Mutation_p.R687C|SNX13_uc010kuc.2_Missense_Mutation_p.R484C|SNX13_uc010kub.2_Missense_Mutation_p.R93C			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;	698					cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					CTTACCTTGCGAGCAAAATCC	0.388													5	7					0	0	1	0	0		A	17854462	A	A	17854462	3	1	89	1	0	0	0	0	1	0	0	0	14909	1058	37	1	842	1	SNX13	7	17854462	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17961	17854462	141284201	2972	56803											
SNX13	23161	broad.mit.edu	37	chr7	17890483	17890483	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctagagatctaagatactgTaattcttctgctgccttatc	10	16	6	9	0	4	2	0	0	4	2	5	3	4	2	1	0	3	2	1	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:17890483T>C	uc003stw.1	-	10	1155	c.942A>G	c.(940-942)TTA>TTG	p.L314L	SNX13_uc003stv.2_Silent_p.L314L|SNX13_uc010kuc.2_Silent_p.L111L			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;	314					cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					TAAGATACTGTAATTCTTCTG	0.303													19	44					0	0	1	0	0		C	17890483	C	C	17890483	2	2	89	1	0	0	0	0	0	0	0	1	14909	1635	57	3		3	SNX13	7	17890483	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	36021	17890483	141248180	2973	56804											
PRPS1L1	221823	broad.mit.edu	37	chr7	18066628	18066628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagcatgcagtgttgatgcGagaaatggctgggccagaaa	14	7	14	6	1	0	3	0	1	0	2	0	4	0	3	1	2	3	4	1	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:18066628G>A	uc003stz.2	-	1	859	c.778C>T	c.(778-780)CGC>TGC	p.R260C		NM_175886	NP_787082	P21108	PRPS3_HUMAN	phosphoribosyl pyrophosphate synthetase 1-like	260					nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			ovary(1)	1	Lung NSC(10;0.0385)|all_lung(11;0.0736)					GTGTTGATGCGAGAAATGGCT	0.443													48	110					0	0	1	0	0		A	18066628	A	A	18066628	3	1	89	1	0	0	0	0	1	0	0	0	12601	1058	37	1	182	1	PRPS1L1	7	18066628	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	176145	18066628	141072035	2974	56805											
HDAC9	9734	broad.mit.edu	37	chr7	18687588	18687588	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcatttattattgaaaGaacaaatgcgacagcaaaag	18	9	8	6	1	0	2	0	1	0	1	0	3	0	2	0	0	5	3	0	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:18687588G>T	uc003suh.2	+	9	1248	c.1207G>T	c.(1207-1209)GAA>TAA	p.E403*	HDAC9_uc003sue.2_Nonsense_Mutation_p.E403*|HDAC9_uc011jyd.1_Nonsense_Mutation_p.E403*|HDAC9_uc003sui.2_Nonsense_Mutation_p.E406*|HDAC9_uc003suj.2_Nonsense_Mutation_p.E362*|HDAC9_uc011jya.1_Nonsense_Mutation_p.E400*|HDAC9_uc003sua.1_Nonsense_Mutation_p.E381*|HDAC9_uc011jyb.1_Nonsense_Mutation_p.E359*|HDAC9_uc003sud.1_Nonsense_Mutation_p.E403*|HDAC9_uc011jyc.1_Nonsense_Mutation_p.E362*|HDAC9_uc003suf.1_Nonsense_Mutation_p.E434*|HDAC9_uc010kud.1_Nonsense_Mutation_p.E406*|HDAC9_uc011jye.1_Nonsense_Mutation_p.E375*|HDAC9_uc011jyf.1_Nonsense_Mutation_p.E326*|HDAC9_uc010kue.1_Nonsense_Mutation_p.E146*	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	403					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	ATTATTGAAAGAACAAATGCG	0.443													3	19					0.004672	0.00471866	1	1	0		T	18687588	T	T	18687588	4	4	89	1	0	0	0	0	0	1	0	0	7030	943	33	5	1250	5	HDAC9	7	18687588	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	620960	18687588	140451075	2975	56806											
HDAC9	9734	broad.mit.edu	37	chr7	18688191	18688191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgtcacagacccctgaaccGaacccagtctgcacctttgc	9	7	7	18	2	2	2	1	1	1	1	2	3	2	2	6	0	4	1	6	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:18688191G>A	uc003suh.2	+	10	1384	c.1343G>A	c.(1342-1344)CGA>CAA	p.R448Q	HDAC9_uc003sue.2_Missense_Mutation_p.R448Q|HDAC9_uc011jyd.1_Missense_Mutation_p.R448Q|HDAC9_uc003sui.2_Missense_Mutation_p.R451Q|HDAC9_uc003suj.2_Missense_Mutation_p.R407Q|HDAC9_uc011jya.1_Missense_Mutation_p.R445Q|HDAC9_uc003sua.1_Missense_Mutation_p.R426Q|HDAC9_uc011jyb.1_Missense_Mutation_p.R404Q|HDAC9_uc003sud.1_Missense_Mutation_p.R448Q|HDAC9_uc011jyc.1_Missense_Mutation_p.R407Q|HDAC9_uc003suf.1_Missense_Mutation_p.R479Q|HDAC9_uc010kud.1_Missense_Mutation_p.R451Q|HDAC9_uc011jye.1_Missense_Mutation_p.R420Q|HDAC9_uc011jyf.1_Missense_Mutation_p.R371Q|HDAC9_uc010kue.1_Missense_Mutation_p.R191Q	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	448					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity	p.P448P(1)		lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CCCCTGAACCGAACCCAGTCT	0.517													36	78					0	0	1	0	0		A	18688191	A	A	18688191	3	1	89	1	0	0	0	0	1	0	0	0	7030	1058	37	1	1390	1	HDAC9	7	18688191	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	603	18688191	140450472	2976	56807											
HDAC9	9734	broad.mit.edu	37	chr7	18975448	18975448	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaggttttggtcatttgacGaagcaattgatgacattggc	10	14	12	5	1	1	3	1	3	0	0	1	4	1	3	0	3	1	3	0	3	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:18975448G>A	uc003suh.2	+	22	2852	c.2811G>A	c.(2809-2811)ACG>ACA	p.T937T	HDAC9_uc003sue.2_Silent_p.T937T|HDAC9_uc003sui.2_Silent_p.T940T|HDAC9_uc003suj.2_Silent_p.T896T|HDAC9_uc003suk.2_Silent_p.T185T	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	937	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	GTCATTTGACGAAGCAATTGA	0.363													66	116					0	0	1	0	0		A	18975448	A	A	18975448	2	1	89	1	0	0	0	0	0	0	0	1	7030	1045	37	1		1	HDAC9	7	18975448	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	287257	18975448	140163215	2977	56808											
FERD3L	222894	broad.mit.edu	37	chr7	19184613	19184613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacgtgggcaccttcctccGcagctggtcaaaggcctcgt	8	8	11	14	3	1	0	1	0	0	0	4	0	3	0	4	3	2	3	4	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:19184613G>A	uc003suo.1	-	1	432	c.373C>T	c.(373-375)CGG>TGG	p.R125W	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	125	Helix-loop-helix motif.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						ACCTTCCTCCGCAGCTGGTCA	0.587													24	49					0	0	1	0	0		A	19184613	A	A	19184613	3	1	89	1	0	0	0	0	1	0	0	0	5830	1086	38	1	131	1	FERD3L	7	19184613	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	209165	19184613	139954050	2978	56809											
MACC1	346389	broad.mit.edu	37	chr7	20180649	20180649	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattaaaactccagttaattCtctccagtgtttagtcacag	12	15	5	9	0	2	0	1	0	1	0	5	0	4	0	2	0	1	2	2	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:20180649C>A	uc003sus.3	-	7	2788	c.2479G>T	c.(2479-2481)GAA>TAA	p.E827*	MACC1_uc010kug.2_Nonsense_Mutation_p.E827*	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	827					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						CCAGTTAATTCTCTCCAGTGT	0.383													32	87					5.90632e-09	6.31323e-09	1	1	0		A	20180649	A	A	20180649	4	1	89	1	0	0	0	0	0	1	0	0	9161	922	32	5	83	5	MACC1	7	20180649	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	996036	20180649	138958014	2979	56810											
ITGB8	3696	broad.mit.edu	37	chr7	20420296	20420296	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcccacacagtgactacAatttagactgcatgcctccc	10	12	5	14	0	0	2	0	1	0	1	2	2	2	2	3	0	3	1	3	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:20420296A>C	uc003suu.2	+	5	1348	c.643A>C	c.(643-645)AAT>CAT	p.N215H	ITGB8_uc011jyh.1_Missense_Mutation_p.N80H|ITGB8_uc003sut.2_Missense_Mutation_p.N215H	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	215	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						CAGTGACTACAATTTAGACTG	0.388													37	75					0	0	1	0	0		C	20420296	C	C	20420296	3	2	89	1	0	0	0	0	1	0	0	0	7917	130	5	5	661	5	ITGB8	7	20420296	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	239647	20420296	138718367	2980	56811											
ABCB5	340273	broad.mit.edu	37	chr7	20682911	20682911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgacagaccaagaggattcGaaaacagttttttcattcag	15	10	8	8	2	2	2	2	0	0	2	3	5	2	3	1	1	1	1	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:20682911G>A	uc010kuh.2	+	6	656	c.419G>A	c.(418-420)CGA>CAA	p.R140Q		NM_001163941	NP_001157413	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	324	Extracellular (Potential).|ABC transmembrane type-1.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						AAGAGGATTCGAAAACAGTTT	0.418													15	31					0	0	1	0	0		A	20682911	A	A	20682911	3	1	89	1	0	0	0	0	1	0	0	0	44	1058	37	1	437	1	ABCB5	7	20682911	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	262615	20682911	138455752	2981	56812											
SP8	221833	broad.mit.edu	37	chr7	20824181	20824181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggtgccgctgcagctcgtCggagcgcgtgaagcgcttgc	5	7	16	13	6	0	1	0	1	0	0	2	2	0	2	1	2	6	4	1	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:20824181C>T	uc003suy.2	-	3	1442	c.1201G>A	c.(1201-1203)GAC>AAC	p.D401N	SP8_uc003suz.2_Missense_Mutation_p.D419N	NM_198956	NP_945194	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor isoform 2	401					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						TGCAGCTCGTCGGAGCGCGTG	0.657													8	12					0	0	1	0	0		T	20824181	T	T	20824181	3	4	89	1	0	0	0	0	1	0	0	0	14995	884	31	1	275	1	SP8	7	20824181	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	141270	20824181	138314482	2982	56813											
DNAH11	8701	broad.mit.edu	37	chr7	21641066	21641066	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattccggacttcagagaGaattaaatgaaggtgatcat	15	10	10	6	1	2	5	2	2	0	3	3	7	3	6	1	2	0	0	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:21641066G>T	uc003svc.2	+	18	3509	c.3478G>T	c.(3478-3480)GAA>TAA	p.E1160*		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1160	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						ACTTCAGAGAGAATTAAATGA	0.348									Kartagener_syndrome				23	49					1.96895e-08	2.09068e-08	1	1	0		T	21641066	T	T	21641066	4	4	89	1	0	0	0	0	0	1	0	0	4605	943	33	5	3548	5	DNAH11	7	21641066	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	816885	21641066	137497597	2983	56814											
DNAH11	8701	broad.mit.edu	37	chr7	21721288	21721288	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggtggcaaaacttatttCtcagaaggcaagttgtttgt	10	14	11	6	1	1	1	1	0	1	1	2	1	1	1	0	3	1	4	0	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:21721288C>A	uc003svc.2	+	31	5499	c.5468C>A	c.(5467-5469)TCT>TAT	p.S1823Y		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1823	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AAACTTATTTCTCAGAAGGCA	0.383									Kartagener_syndrome				30	66					4.31634e-10	4.67161e-10	1	1	0		A	21721288	A	A	21721288	3	1	89	1	0	0	0	0	1	0	0	0	4605	913	32	5	5590	5	DNAH11	7	21721288	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	80222	21721288	137417375	2984	56815											
DNAH11	8701	broad.mit.edu	37	chr7	21857846	21857846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aattttaaggtttttgaatgCcattgaaactgctttggcct	10	17	8	6	0	0	2	0	2	0	0	0	2	0	2	2	2	3	2	2	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:21857846C>T	uc003svc.2	+	66	10632	c.10601C>T	c.(10600-10602)GCC>GTC	p.A3534V		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3534	AAA 5 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TTTTTGAATGCCATTGAAACT	0.318									Kartagener_syndrome				17	33					0	0	1	0	0		T	21857846	T	T	21857846	3	4	89	1	0	0	0	0	1	0	0	0	4605	739	26	2	10860	2	DNAH11	7	21857846	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	136558	21857846	137280817	2985	56816											
RAPGEF5	9771	broad.mit.edu	37	chr7	22175722	22175722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaatgcatctctgtaggCtttgtgatttagggaaggat	9	16	12	4	0	1	2	0	2	1	0	2	4	1	4	0	3	1	3	0	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:22175722C>T	uc003svg.2	-	23	2204	c.1891G>A	c.(1891-1893)GCC>ACC	p.A631T	RAPGEF5_uc011jyl.1_Missense_Mutation_p.A312T	NM_012294	NP_036426	Q92565	RPGF5_HUMAN	Rap guanine nucleotide exchange factor (GEF) 5	481	Ras-GEF.				nervous system development|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	nucleus	GTP-dependent protein binding|Rap guanyl-nucleotide exchange factor activity			ovary(1)	1						TCTCTGTAGGCTTTGTGATTT	0.358													8	35					0	0	1	0	0		T	22175722	T	T	22175722	3	4	89	1	0	0	0	0	1	0	0	0	13072	797	28	2	317	2	RAPGEF5	7	22175722	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	317876	22175722	136962941	2986	56817											
FAM126A	84668	broad.mit.edu	37	chr7	22985298	22985298	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagttctttctgaaacgtaAataagcttttcttcttggag	10	17	7	7	1	5	1	1	1	4	0	5	2	5	2	0	1	2	3	0	1	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:22985298A>C	uc003svm.3	-	11	1731	c.1476T>G	c.(1474-1476)ATT>ATG	p.I492M	FAM126A_uc003svn.3_3'UTR	NM_032581	NP_115970	Q9BYI3	HYCCI_HUMAN	family with sequence similarity 126, member A	492						cytoplasm|membrane	signal transducer activity			central_nervous_system(1)	1						CTGAAACGTAAATAAGCTTTT	0.433													43	89					0	0	1	0	0		C	22985298	C	C	22985298	3	2	89	1	0	0	0	0	1	0	0	0	5440	10	1	5	93	5	FAM126A	7	22985298	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	809576	22985298	136153365	2987	56818											
NUPL2	11097	broad.mit.edu	37	chr7	23239806	23239806	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctttccagtcaataacagCagcagtgataatgctcagaa	14	9	9	9	0	2	2	2	1	0	1	3	2	3	2	1	1	4	4	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:23239806C>T	uc003svu.2	+	7	973	c.714C>T	c.(712-714)AGC>AGT	p.S238S	NUPL2_uc003svv.2_RNA|NUPL2_uc003svw.2_Silent_p.S115S|NUPL2_uc011jyw.1_RNA|NUPL2_uc003svx.2_Silent_p.S115S|NUPL2_uc011jyx.1_Silent_p.S10S	NM_007342	NP_031368	O15504	NUPL2_HUMAN	nucleoporin like 2	238	Ser-rich.				carbohydrate metabolic process|glucose transport|mRNA transport|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nuclear pore	nuclear export signal receptor activity|nucleic acid binding|zinc ion binding			skin(2)|ovary(1)	3						TCAATAACAGCAGCAGTGATA	0.358													8	11					0	0	1	0	0		T	23239806	T	T	23239806	2	4	89	1	0	0	0	0	0	0	0	1	10794	709	25	2		2	NUPL2	7	23239806	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	254508	23239806	135898857	2988	56819											
GPNMB	10457	broad.mit.edu	37	chr7	23286505	23286505	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctactatttcctgggatTtctgctcctggctgcaagat	6	16	8	11	0	2	1	0	0	2	1	5	2	4	2	2	2	3	3	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:23286505T>G	uc003swc.2	+	1	190	c.29T>G	c.(28-30)TTT>TGT	p.F10C	GPNMB_uc003swa.2_Missense_Mutation_p.F10C|GPNMB_uc003swb.2_Missense_Mutation_p.F10C|GPNMB_uc011jyy.1_Missense_Mutation_p.F10C|GPNMB_uc011jyz.1_Missense_Mutation_p.F10C	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	10					negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			TTCCTGGGATTTCTGCTCCTG	0.483													46	89					0	0	1	0	0		G	23286505	G	G	23286505	3	3	89	1	0	0	0	0	1	0	0	0	6635	1841	64	5	31	5	GPNMB	7	23286505	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	46699	23286505	135852158	2989	56820											
GPNMB	10457	broad.mit.edu	37	chr7	23306137	23306137	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgattcaaacaccccaggAcctgctggtgacaaccccct	11	8	7	15	0	1	2	1	2	0	0	1	3	1	3	5	2	3	1	5	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:23306137A>G	uc003swc.2	+	7	1217	c.1056A>G	c.(1054-1056)GGA>GGG	p.G352G	GPNMB_uc003swb.2_Silent_p.G340G|GPNMB_uc011jyy.1_Silent_p.G294G|GPNMB_uc011jyz.1_Silent_p.G241G	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	352	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			ACACCCCAGGACCTGCTGGTG	0.383													24	61					0	0	1	0	0		G	23306137	G	G	23306137	2	3	89	1	0	0	0	0	0	0	0	1	6635	289	10	3		3	GPNMB	7	23306137	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	19632	23306137	135832526	2990	56821											
IGF2BP3	10643	broad.mit.edu	37	chr7	23352069	23352069	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaatttcctgaatttttCtctgggcaacctagaaaagg	12	13	8	8	0	2	3	1	1	1	2	4	3	3	3	2	2	1	1	2	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:23352069C>A	uc003swg.2	-	15	1918	c.1652G>T	c.(1651-1653)AGA>ATA	p.R551I	IGF2BP3_uc003swf.2_Missense_Mutation_p.R170I	NM_006547	NP_006538	O00425	IF2B3_HUMAN	insulin-like growth factor 2 mRNA binding	551	KH 4.				anatomical structure morphogenesis|negative regulation of translation|translation	cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			ovary(2)	2						CTGAATTTTTCTCTGGGCAAC	0.393													34	63					9.17885e-22	1.0907e-21	1	1	0		A	23352069	A	A	23352069	3	1	89	1	0	0	0	0	1	0	0	0	7591	913	32	5	91	5	IGF2BP3	7	23352069	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	45932	23352069	135786594	2991	56822											
TRA2A	29896	broad.mit.edu	37	chr7	23552632	23552632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atatcgagaaaatacttcacGaagatccctctctgttgtgt	12	13	7	9	2	2	2	1	0	1	2	5	4	3	2	1	0	1	1	1	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:23552632G>A	uc003swi.2	-	4	620	c.406C>T	c.(406-408)CGT>TGT	p.R136C	TRA2A_uc011jzb.1_RNA|TRA2A_uc011jzc.1_Missense_Mutation_p.R35C|TRA2A_uc011jzd.1_Missense_Mutation_p.R35C|TRA2A_uc010kuo.1_RNA	NM_013293	NP_037425	Q13595	TRA2A_HUMAN	transformer-2 alpha	136	RRM.				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|RNA binding			ovary(1)	1						AATACTTCACGAAGATCCCTC	0.413													25	48					0	0	1	0	0		A	23552632	A	A	23552632	3	1	89	1	0	0	0	0	1	0	0	0	16459	1058	37	1	462	1	TRA2A	7	23552632	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	200563	23552632	135586031	2992	56823											
C7orf46	340277	broad.mit.edu	37	chr7	23724207	23724207	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttacctctgcgcttacaaaAcagattatttgtgagctggc	10	14	8	9	1	1	2	0	1	1	1	1	2	1	2	1	1	5	2	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:23724207A>C	uc003swo.3	+	2	244	c.155A>C	c.(154-156)AAC>ACC	p.N52T	C7orf46_uc003swq.3_Missense_Mutation_p.N52T|C7orf46_uc003swr.3_Intron|C7orf46_uc003swp.3_RNA|C7orf46_uc010kup.2_RNA	NM_199136	NP_954587	A4D161	CG046_HUMAN	hypothetical protein LOC340277 isoform 1	52											0						CGCTTACAAAACAGATTATTT	0.378													22	44					0	0	1	0	0		C	23724207	C	C	23724207	3	2	89	1	0	0	0	0	1	0	0	0	2399	43	2	5	161	5	C7orf46	7	23724207	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	171575	23724207	135414456	2993	56824											
STK31	56164	broad.mit.edu	37	chr7	23811802	23811802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttgaatatttaaataagagtCccagtgtggatcacttgcta	13	14	8	6	0	1	2	1	1	0	1	2	3	2	3	1	1	1	1	1	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:23811802C>T	uc003sws.3	+	15	1937	c.1870C>T	c.(1870-1872)CCC>TCC	p.P624S	STK31_uc003swt.3_Missense_Mutation_p.P601S|STK31_uc011jze.1_Missense_Mutation_p.P624S|STK31_uc010kuq.2_Missense_Mutation_p.P601S	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	624							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						AAATAAGAGTCCCAGTGTGGA	0.303													28	60					0	0	1	0	0		T	23811802	T	T	23811802	3	4	89	1	0	0	0	0	1	0	0	0	15321	855	30	4	1928	4	STK31	7	23811802	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	87595	23811802	135326861	2994	56825											
NFE2L3	9603	broad.mit.edu	37	chr7	26225069	26225069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttatccgtgacatcagacGaagagggaaaaataaagttg	17	8	10	6	2	1	3	1	1	0	2	2	5	2	4	1	1	0	1	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:26225069G>A	uc003sxq.2	+	4	2023	c.1751G>A	c.(1750-1752)CGA>CAA	p.R584Q		NM_004289	NP_004280	Q9Y4A8	NF2L3_HUMAN	nuclear factor erythroid 2-like 3	584	Basic motif.				transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			skin(3)|ovary(1)	4						GACATCAGACGAAGAGGGAAA	0.373													16	47					0	0	1	0	0		A	26225069	A	A	26225069	3	1	89	1	0	0	0	0	1	0	0	0	10388	1058	37	1	1765	1	NFE2L3	7	26225069	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2413267	26225069	132913594	2995	56826											
HIBADH	11112	broad.mit.edu	37	chr7	27669050	27669050	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaacttctttggccaattCttttgaaactgcaggatcaa	11	14	6	10	0	4	1	2	1	2	0	4	2	4	2	1	2	3	1	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:27669050C>A	uc003szf.2	-	4	619	c.424G>T	c.(424-426)GAA>TAA	p.E142*	HIBADH_uc003szg.2_Nonsense_Mutation_p.E93*|HIBADH_uc003szh.2_Nonsense_Mutation_p.E41*|HIBADH_uc003szi.2_Nonsense_Mutation_p.E93*	NM_152740	NP_689953	P31937	3HIDH_HUMAN	3-hydroxyisobutyrate dehydrogenase precursor	142					branched chain family amino acid catabolic process|pentose-phosphate shunt|valine metabolic process	mitochondrial matrix	3-hydroxyisobutyrate dehydrogenase activity|NAD binding|phosphogluconate dehydrogenase (decarboxylating) activity			ovary(2)	2			GBM - Glioblastoma multiforme(3;0.0368)		NADH(DB00157)	TTGGCCAATTCTTTTGAAACT	0.333													49	71					1.21353e-23	1.45383e-23	1	1	0		A	27669050	A	A	27669050	4	1	89	1	0	0	0	0	0	1	0	0	7115	922	32	5	606	5	HIBADH	7	27669050	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1443981	27669050	131469613	2996	56827											
TAX1BP1	8887	broad.mit.edu	37	chr7	27831686	27831686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaacaggttcaggcaactcGgcaagaagttgtctttctgg	10	10	13	8	1	3	1	1	0	2	1	4	2	3	2	0	5	2	4	0	5	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:27831686G>A	uc003szl.2	+	9	1258	c.1100G>A	c.(1099-1101)CGG>CAG	p.R367Q	TAX1BP1_uc011jzo.1_Missense_Mutation_p.R367Q|TAX1BP1_uc003szk.2_Missense_Mutation_p.R367Q|TAX1BP1_uc011jzp.1_Missense_Mutation_p.R210Q	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	367	Oligomerization.|Potential.				anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)			CAGGCAACTCGGCAAGAAGTT	0.418													28	53					0	0	1	0	0		A	27831686	A	A	27831686	3	1	89	1	0	0	0	0	1	0	0	0	15619	1116	39	1	1130	1	TAX1BP1	7	27831686	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	162636	27831686	131306977	2997	56828											
LOC402644	402644	broad.mit.edu	37	chr7	28319061	28319061	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacgctttaggataaatttCtcatcttcaaatttctcccc	10	16	4	11	1	4	0	2	0	3	0	6	1	4	1	2	1	1	2	2	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:28319061C>A	uc010kuz.1	-	1	258	c.258G>T	c.(256-258)GAG>GAT	p.E86D		NM_001126493	NP_001119965			hypothetical protein LOC402644												0						GGATAAATTTCTCATCTTCAA	0.463													25	50					6.12954e-19	7.17843e-19	1	1	0		A	28319061	A	A	28319061	3	1	89	1	0	0	0	0	1	0	0	0	8896	912	32	5	222	5	LOC402644	7	28319061	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	487375	28319061	130819602	2998	56829											
CPVL	54504	broad.mit.edu	37	chr7	29132288	29132288	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgactgcatatccgtgggTatcatcagtaaaactgaagc	13	11	9	8	1	2	2	2	2	0	0	3	2	3	2	1	1	3	3	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:29132288T>C	uc003szv.2	-	6	612	c.493A>G	c.(493-495)ACC>GCC	p.T165A	CPVL_uc003szw.2_Missense_Mutation_p.T165A|CPVL_uc003szx.2_Missense_Mutation_p.T165A	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	165					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						TATCCGTGGGTATCATCAGTA	0.453													13	31					0	0	1	0	0		C	29132288	C	C	29132288	3	2	89	1	0	0	0	0	1	0	0	0	3838	1638	57	3	969	3	CPVL	7	29132288	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	813227	29132288	130006375	2999	56830											
C7orf41	222166	broad.mit.edu	37	chr7	30185810	30185810	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcacgtgtggagtgagagCgaggactgcctgcctttctt	7	10	14	10	2	1	1	0	1	1	1	1	5	1	3	2	2	4	1	2	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:30185810C>T	uc011kab.1	+	2	381	c.180C>T	c.(178-180)AGC>AGT	p.S60S	C7orf41_uc010kvr.1_RNA|C7orf41_uc003tar.1_Silent_p.S60S	NM_152793	NP_690006	Q8N3F0	CG041_HUMAN	hypothetical protein LOC222166	60											0						GGAGTGAGAGCGAGGACTGCC	0.522													31	57					0	0	1	0	0		T	30185810	T	T	30185810	2	4	89	1	0	0	0	0	0	0	0	1	2394	767	27	1		1	C7orf41	7	30185810	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1053522	30185810	128952853	3000	56831											
INMT	11185	broad.mit.edu	37	chr7	30795377	30795377	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggctttgacattgaacaGctcctacacagtccccagag	10	9	9	13	0	0	3	0	2	0	1	2	3	2	3	3	1	3	3	3	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:30795377G>A	uc003tbs.1	+	3	718	c.702G>A	c.(700-702)CAG>CAA	p.Q234Q	FAM188B_uc010kwe.2_Intron|INMT_uc010kwc.1_RNA|INMT_uc010kwd.1_Silent_p.Q233Q	NM_006774	NP_006765	O95050	INMT_HUMAN	indolethylamine N-methyltransferase	234						cytoplasm	amine N-methyltransferase activity				0						ACATTGAACAGCTCCTACACA	0.577													42	94					0	0	1	0	0		A	30795377	A	A	30795377	2	1	89	1	0	0	0	0	0	0	0	1	7761	962	34	2		2	INMT	7	30795377	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	609567	30795377	128343286	3001	56832											
CCDC129	223075	broad.mit.edu	37	chr7	31611727	31611727	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactgtagatctttgcatcAgttttcagaaactcccatcc	11	13	5	12	0	3	2	2	0	1	2	5	2	5	2	2	0	3	3	2	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:31611727A>C	uc003tcj.1	+	6	1313	c.320A>C	c.(319-321)CAG>CCG	p.Q107P	CCDC129_uc011kad.1_Missense_Mutation_p.Q117P|CCDC129_uc003tci.1_Missense_Mutation_p.Q106P|CCDC129_uc011kae.1_Missense_Mutation_p.Q133P|CCDC129_uc003tck.1_Missense_Mutation_p.Q15P	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	107											0						TCTTTGCATCAGTTTTCAGAA	0.403													10	18					0	0	1	0	0		C	31611727	C	C	31611727	3	2	89	1	0	0	0	0	1	0	0	0	2767	188	7	5	338	5	CCDC129	7	31611727	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	816350	31611727	127526936	3002	56833											
CCDC129	223075	broad.mit.edu	37	chr7	31682346	31682346	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagaatggaggtagaaaGccaagagatcagagccacag	16	4	14	7	0	1	4	1	1	0	4	1	7	1	5	2	2	2	2	2	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:31682346G>A	uc003tcj.1	+	11	2355	c.1362G>A	c.(1360-1362)AAG>AAA	p.K454K	CCDC129_uc011kad.1_Silent_p.K464K|CCDC129_uc003tci.1_Silent_p.K305K|CCDC129_uc011kae.1_Silent_p.K480K|CCDC129_uc003tck.1_Silent_p.K362K	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	454											0						GAGGTAGAAAGCCAAGAGATC	0.522													14	36					0	0	1	0	0		A	31682346	A	A	31682346	2	1	89	1	0	0	0	0	0	0	0	1	2767	962	34	2		2	CCDC129	7	31682346	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	70619	31682346	127456317	3003	56834											
CCDC129	223075	broad.mit.edu	37	chr7	31691657	31691657	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcaaatcagagaagggaTtttactggtatgggtgatgg	12	11	14	4	0	2	2	2	1	0	1	2	4	2	3	0	4	2	2	0	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:31691657T>C	uc003tcj.1	+	13	3809	c.2816T>C	c.(2815-2817)ATT>ACT	p.I939T	CCDC129_uc011kad.1_Missense_Mutation_p.I949T|CCDC129_uc003tci.1_Missense_Mutation_p.I790T|CCDC129_uc011kae.1_Missense_Mutation_p.I965T|CCDC129_uc003tck.1_Missense_Mutation_p.I847T	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	939											0						AGAGAAGGGATTTTACTGGTA	0.488													5	12					0	0	1	0	0		C	31691657	C	C	31691657	3	2	89	1	0	0	0	0	1	0	0	0	2767	1493	52	3	2862	3	CCDC129	7	31691657	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	9311	31691657	127447006	3004	56835											
C7orf16	10842	broad.mit.edu	37	chr7	31735144	31735144	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaagcctagaaagggaaaAaatgtacaggccaccctgaa	19	4	10	8	0	0	3	0	1	0	2	0	4	0	4	3	2	2	1	3	2	9	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:31735144A>C	uc003tcl.2	+	3	302	c.144A>C	c.(142-144)AAA>AAC	p.K48N	C7orf16_uc011kaf.1_Intron	NM_006658	NP_006649	O96001	GSUB_HUMAN	G-substrate isoform 1	48					behavior|central nervous system development|intracellular protein kinase cascade|protein phosphorylation	soluble fraction				ovary(2)|central_nervous_system(1)	3			GBM - Glioblastoma multiforme(11;0.216)			GAAAGGGAAAAAATGTACAGG	0.398													45	95					0	0	1	0	0		C	31735144	C	C	31735144	3	2	89	1	0	0	0	0	1	0	0	0	2381	11	1	5	150	5	C7orf16	7	31735144	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	43487	31735144	127403519	3005	56836											
C7orf16	10842	broad.mit.edu	37	chr7	31746890	31746890	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaggatggtgacaagatagCtatttaaagatagttcccct	15	11	9	6	0	0	3	0	1	0	2	1	4	1	4	2	2	1	2	2	2	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:31746890C>T	uc003tcl.2	+	5	619	c.461C>T	c.(460-462)GCT>GTT	p.A154V	C7orf16_uc011kaf.1_Missense_Mutation_p.A103V	NM_006658	NP_006649	O96001	GSUB_HUMAN	G-substrate isoform 1	154					behavior|central nervous system development|intracellular protein kinase cascade|protein phosphorylation	soluble fraction				ovary(2)|central_nervous_system(1)	3			GBM - Glioblastoma multiforme(11;0.216)			GACAAGATAGCTATTTAAAGA	0.423													15	36					0	0	1	0	0		T	31746890	T	T	31746890	3	4	89	1	0	0	0	0	1	0	0	0	2381	797	28	2	475	2	C7orf16	7	31746890	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11746	31746890	127391773	3006	56837											
PDE1C	5137	broad.mit.edu	37	chr7	31855674	31855674	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcagctttgccagatgcGccttcttcagcctggctttt	4	16	8	13	1	3	1	2	0	2	1	4	1	3	1	3	1	4	2	3	1	0	6	rs144853377	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:31855674G>A	uc003tcm.1	-	15	2146	c.1677C>T	c.(1675-1677)GGC>GGT	p.G559G	PDE1C_uc003tcn.1_Silent_p.G559G|PDE1C_uc003tco.1_Silent_p.G619G|PDE1C_uc003tcr.2_Silent_p.G559G|PDE1C_uc003tcs.2_Silent_p.G559G	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	559					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			TGCCAGATGCGCCTTCTTCAG	0.502													77	119					0	0	1	0	0		A	31855674	A	A	31855674	2	1	89	1	0	0	0	0	0	0	0	1	11654	1074	38	1		1	PDE1C	7	31855674	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	108784	31855674	127282989	3007	56838											
PDE1C	5137	broad.mit.edu	37	chr7	31862790	31862790	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagatgacagaattgttgatCggggcacttccctctgaacc	10	10	11	10	1	1	5	0	3	1	2	3	6	2	5	2	2	1	2	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:31862790C>T	uc003tcm.1	-	14	1948	c.1479G>A	c.(1477-1479)CCG>CCA	p.P493P	PDE1C_uc003tcn.1_Silent_p.P493P|PDE1C_uc003tco.1_Silent_p.P553P|PDE1C_uc003tcr.2_Silent_p.P493P|PDE1C_uc003tcs.2_Silent_p.P493P	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	493	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			AATTGTTGATCGGGGCACTTC	0.468													49	69					0	0	1	0	0		T	31862790	T	T	31862790	2	4	89	1	0	0	0	0	0	0	0	1	11654	871	31	1		1	PDE1C	7	31862790	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7116	31862790	127275873	3008	56839											
KBTBD2	25948	broad.mit.edu	37	chr7	32909220	32909220	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagtgggtttctcgcataaAcacacatagagaatttgaga	15	11	9	6	1	1	2	0	1	1	2	2	4	1	2	0	1	1	2	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:32909220A>G	uc003tdb.2	-	4	2268	c.1609T>C	c.(1609-1611)TTT>CTT	p.F537L	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	537	Kelch 5.										0			GBM - Glioblastoma multiforme(11;0.0499)			TCTCGCATAAACACACATAGA	0.448													66	115					0	0	1	0	0		G	32909220	G	G	32909220	3	3	89	1	0	0	0	0	1	0	0	0	8009	43	2	3	266	3	KBTBD2	7	32909220	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1046430	32909220	126229443	3009	56840											
KBTBD2	25948	broad.mit.edu	37	chr7	32910050	32910050	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctttagtcatcccaagtCttggtttgaaaaacttgggc	9	14	8	10	0	3	1	1	1	2	0	4	1	4	1	2	2	1	1	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:32910050C>A	uc003tdb.2	-	4	1438	c.779G>T	c.(778-780)AGA>ATA	p.R260I	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	260											0			GBM - Glioblastoma multiforme(11;0.0499)			CATCCCAAGTCTTGGTTTGAA	0.418													27	58					2.41591e-17	2.79654e-17	1	1	0		A	32910050	A	A	32910050	3	1	89	1	0	0	0	0	1	0	0	0	8009	913	32	5	1096	5	KBTBD2	7	32910050	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	830	32910050	126228613	3010	56841											
NT5C3	51251	broad.mit.edu	37	chr7	33066500	33066500	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttgtagggttcttgattcGaactgaacttttctggaatt	8	18	9	6	1	3	2	0	2	3	0	4	4	3	3	0	2	2	2	0	2	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:33066500G>A	uc003tdk.2	-	2	258	c.181C>T	c.(181-183)CGA>TGA	p.R61*	AVL9_uc011kai.1_Intron|NT5C3_uc003tdi.2_Nonsense_Mutation_p.R22*|NT5C3_uc003tdj.2_Nonsense_Mutation_p.R22*	NM_001002010	NP_001002010	Q9H0P0	5NT3_HUMAN	5'-nucleotidase, cytosolic III isoform 1	61					nucleotide metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol|endoplasmic reticulum	2'-phosphotransferase activity|5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1			GBM - Glioblastoma multiforme(11;0.0894)			TTCTTGATTCGAACTGAACTT	0.338													22	38					0	0	1	0	0		A	33066500	A	A	33066500	4	1	89	1	0	0	0	0	0	1	0	0	10707	1066	37	1	861	1	NT5C3	7	33066500	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	156450	33066500	126072163	3011	56842											
BBS9	27241	broad.mit.edu	37	chr7	33312691	33312691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctctttcaatcagtcggCatcctctgtttttgttcttg	4	20	7	10	1	5	0	2	0	3	0	8	0	6	0	1	1	0	3	1	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:33312691C>T	uc003tdn.1	+	8	1283	c.770C>T	c.(769-771)GCA>GTA	p.A257V	BBS9_uc003tdo.1_Missense_Mutation_p.A257V|BBS9_uc003tdp.1_Missense_Mutation_p.A257V|BBS9_uc003tdq.1_Missense_Mutation_p.A257V|BBS9_uc010kwn.1_RNA|BBS9_uc011kan.1_Missense_Mutation_p.A257V|BBS9_uc011kao.1_Missense_Mutation_p.A135V	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	257					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			AATCAGTCGGCATCCTCTGTT	0.373									Bardet-Biedl_syndrome				62	128					0	0	1	0	0		T	33312691	T	T	33312691	3	4	89	1	0	0	0	0	1	0	0	0	1343	710	25	2	796	2	BBS9	7	33312691	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	246191	33312691	125825972	3012	56843											
KIAA0895	23366	broad.mit.edu	37	chr7	36366482	36366482	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgagggaccctcatgttttCggtaactgccaatcctttta	9	14	8	10	1	1	1	1	1	0	0	3	2	2	2	3	2	2	2	3	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:36366482C>T	uc003tfd.2	-	7	1501	c.1450G>A	c.(1450-1452)GAA>AAA	p.E484K	KIAA0895_uc003tfc.2_Missense_Mutation_p.E471K|KIAA0895_uc011kaw.1_Missense_Mutation_p.E381K|KIAA0895_uc003tfb.2_Missense_Mutation_p.E433K|KIAA0895_uc011kax.1_Missense_Mutation_p.E481K	NM_001100425	NP_001093895	Q8NCT3	K0895_HUMAN	hypothetical protein LOC23366 isoform 1	484											0						CTCATGTTTTCGGTAACTGCC	0.378													46	84					0	0	1	0	0		T	36366482	T	T	36366482	3	4	89	1	0	0	0	0	1	0	0	0	8213	893	31	1	116	1	KIAA0895	7	36366482	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3053791	36366482	122772181	3013	56844											
ANLN	54443	broad.mit.edu	37	chr7	36435908	36435908	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacccgtgccaggcgagagAatcttcagagaaaaatggct	14	6	12	9	2	2	2	1	0	1	2	2	6	2	2	2	2	2	1	2	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:36435908A>C	uc003tff.2	+	2	256	c.52A>C	c.(52-54)AAT>CAT	p.N18H	ANLN_uc011kaz.1_Missense_Mutation_p.N18H|ANLN_uc003tfg.2_Missense_Mutation_p.N18H|ANLN_uc010kxe.2_Missense_Mutation_p.N18H	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	18	Required for ubiquitination.|Nuclear localization.|Interaction with CD2AP.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						CAGGCGAGAGAATCTTCAGAG	0.428													26	53					0	0	1	0	0		C	36435908	C	C	36435908	3	2	89	1	0	0	0	0	1	0	0	0	694	246	9	5	58	5	ANLN	7	36435908	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	69426	36435908	122702755	3014	56845											
ANLN	54443	broad.mit.edu	37	chr7	36438957	36438957	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttaaaacacgtatgcaaAaacttgcagagcaacggcgc	16	6	9	10	3	0	1	0	0	0	1	0	1	0	1	0	1	6	5	0	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:36438957A>C	uc003tff.2	+	3	646	c.442A>C	c.(442-444)AAA>CAA	p.K148Q	ANLN_uc011kaz.1_Missense_Mutation_p.K60Q|ANLN_uc003tfg.2_Missense_Mutation_p.K148Q|ANLN_uc010kxe.2_Missense_Mutation_p.K148Q	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	148	Nuclear localization.|Interaction with CD2AP.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						ACGTATGCAAAAACTTGCAGA	0.458													22	39					0	0	1	0	0		C	36438957	C	C	36438957	3	2	89	1	0	0	0	0	1	0	0	0	694	15	1	5	452	5	ANLN	7	36438957	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3049	36438957	122699706	3015	56846											
ANLN	54443	broad.mit.edu	37	chr7	36465637	36465637	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttagaaaagcaacattcAttcttcaggtgagtgtatct	12	16	7	6	0	4	2	2	1	2	1	4	2	4	2	0	1	2	2	0	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:36465637A>C	uc003tff.2	+	19	2966	c.2762A>C	c.(2761-2763)CAT>CCT	p.H921P	ANLN_uc011kaz.1_Missense_Mutation_p.H833P|ANLN_uc003tfg.2_Missense_Mutation_p.H884P|ANLN_uc010kxe.2_Missense_Mutation_p.H883P	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	921	Localization to the cleavage furrow.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						AGCAACATTCATTCTTCAGGT	0.274													18	32					0	0	1	0	0		C	36465637	C	C	36465637	3	2	89	1	0	0	0	0	1	0	0	0	694	217	8	5	2836	5	ANLN	7	36465637	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	26680	36465637	122673026	3016	56847											
TXNDC3	51314	broad.mit.edu	37	chr7	37901645	37901645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatagaatggcaaaattatcGaaaagattcagggtgcaaat	18	10	9	4	1	1	2	1	0	0	2	2	3	1	2	0	2	1	2	0	2	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:37901645G>A	uc003tfn.2	+	7	658	c.286G>A	c.(286-288)GAA>AAA	p.E96K		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	96	Thioredoxin.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						CAAAATTATCGAAAAGATTCA	0.383									Kartagener_syndrome				27	52					0	0	1	0	0		A	37901645	A	A	37901645	3	1	89	1	0	0	0	0	1	0	0	0	16824	1059	37	1	304	1	TXNDC3	7	37901645	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1436008	37901645	121237018	3017	56848											
TXNDC3	51314	broad.mit.edu	37	chr7	37907312	37907312	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttattttgtagtgtgacttCgaagagtttgtctcttttat	7	22	8	4	1	1	2	0	1	1	1	3	3	1	2	0	0	0	2	0	0	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:37907312C>T	uc003tfn.2	+	11	1002	c.630C>T	c.(628-630)TTC>TTT	p.F210F		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	210	NDK 1.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						AGTGTGACTTCGAAGAGTTTG	0.388									Kartagener_syndrome				24	42					0	0	1	0	0		T	37907312	T	T	37907312	2	4	89	1	0	0	0	0	0	0	0	1	16824	883	31	1		1	TXNDC3	7	37907312	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5667	37907312	121231351	3018	56849											
SFRP4	6424	broad.mit.edu	37	chr7	37947093	37947093	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagttagctcacactcttttCgggtttgttctcttctgggc	4	18	9	10	1	4	0	1	0	3	0	6	0	4	0	0	2	1	4	0	2	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:37947093C>T	uc003tfo.3	-	6	1415	c.1029G>A	c.(1027-1029)CCG>CCA	p.P343P		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	343					brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1						ACACTCTTTTCGGGTTTGTTC	0.507													55	90					0	0	1	0	0		T	37947093	T	T	37947093	2	4	89	1	0	0	0	0	0	0	0	1	14188	871	31	1		1	SFRP4	7	37947093	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	39781	37947093	121191570	3019	56850											
EPDR1	54749	broad.mit.edu	37	chr7	37988556	37988556	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggatcctcttgacattccTcaaaactccacctttgaaga	11	12	6	12	0	2	3	1	2	1	1	5	4	5	4	4	1	1	0	4	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:37988556T>C	uc003tfp.2	+	2	763	c.744T>C	c.(742-744)CCT>CCC	p.P248P	EPDR1_uc003tfq.2_Intron|EPDR1_uc010kxh.2_Silent_p.P67P	NM_017549	NP_060019	Q9UM22	EPDR1_HUMAN	ependymin related protein 1 precursor	128					cell-matrix adhesion	extracellular region	calcium ion binding			upper_aerodigestive_tract(1)	1						TTGACATTCCTCAAAACTCCA	0.512													35	72					0	0	1	0	0		C	37988556	C	C	37988556	2	2	89	1	0	0	0	0	0	0	0	1	5171	1538	54	3		3	EPDR1	7	37988556	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	41463	37988556	121150107	3020	56851											
AMPH	273	broad.mit.edu	37	chr7	38574563	38574563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagttctggacatattcttCgaactgttcgtcttttgtct	7	18	8	8	2	4	0	0	0	4	0	6	3	4	1	0	1	1	2	0	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:38574563C>T	uc003tgu.2	-	2	187	c.118G>A	c.(118-120)GAA>AAA	p.E40K	AMPH_uc003tgv.2_Missense_Mutation_p.E40K	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	40	BAR.|Potential.				endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						ACATATTCTTCGAACTGTTCG	0.338													19	48					0	0	1	0	0		T	38574563	T	T	38574563	3	4	89	1	0	0	0	0	1	0	0	0	588	893	31	1	2049	1	AMPH	7	38574563	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	586007	38574563	120564100	3021	56852											
VPS41	27072	broad.mit.edu	37	chr7	38791871	38791871	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatctgtttttcatggtaacGctgccccttatggtggtctc	5	16	10	10	1	3	0	1	0	2	0	4	1	3	0	2	3	2	3	2	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:38791871G>A	uc003tgy.2	-	22	1857	c.1831C>T	c.(1831-1833)CGT>TGT	p.R611C	VPS41_uc003tgz.2_Missense_Mutation_p.R586C|VPS41_uc010kxn.2_Missense_Mutation_p.R522C	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	611	Clathrin.				Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						TCATGGTAACGCTGCCCCTTA	0.408													36	85					0	0	1	0	0		A	38791871	A	A	38791871	3	1	89	1	0	0	0	0	1	0	0	0	17236	1087	38	1	765	1	VPS41	7	38791871	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	217308	38791871	120346792	3022	56853											
VPS41	27072	broad.mit.edu	37	chr7	38796580	38796580	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catagttcttgtcataggtgTacctggtaatacaaattttt	11	17	7	6	0	2	0	1	0	1	0	2	0	2	0	1	2	2	3	1	2	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:38796580T>C	uc003tgy.2	-	19	1579	c.1553A>G	c.(1552-1554)TAC>TGC	p.Y518C	VPS41_uc003tgz.2_Missense_Mutation_p.Y493C|VPS41_uc010kxn.2_Missense_Mutation_p.Y429C	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	518					Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						GTCATAGGTGTACCTGGTAAT	0.308													18	38					0	0	1	0	0		C	38796580	C	C	38796580	3	2	89	1	0	0	0	0	1	0	0	0	17236	1638	57	3	1055	3	VPS41	7	38796580	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4709	38796580	120342083	3023	56854											
CDK13	8621	broad.mit.edu	37	chr7	40132606	40132606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacaccacaacaggagtcttCgaaaccgttgggaggaattc	14	7	10	10	2	1	0	0	0	1	0	3	4	1	3	2	3	3	1	2	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:40132606C>T	uc003thh.3	+	13	3740	c.3458C>T	c.(3457-3459)TCG>TTG	p.S1153L	CDK13_uc003thi.3_Missense_Mutation_p.S1093L|CDK13_uc003thj.2_Missense_Mutation_p.S204L|CDK13_uc003thk.2_Missense_Mutation_p.S86L	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	1153					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						CAGGAGTCTTCGAAACCGTTG	0.478													71	150					0	0	1	0	0		T	40132606	T	T	40132606	3	4	89	1	0	0	0	0	1	0	0	0	3132	893	31	1	3508	1	CDK13	7	40132606	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1336026	40132606	119006057	3024	56855											
CDK13	8621	broad.mit.edu	37	chr7	40133992	40133992	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggatgaccccaaaagaGaaggtgggattgattatcaa	15	7	11	8	0	1	3	1	2	0	1	1	6	1	5	3	3	0	0	3	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:40133992G>T	uc003thh.3	+	14	4234	c.3952G>T	c.(3952-3954)GAA>TAA	p.E1318*	CDK13_uc003thi.3_Nonsense_Mutation_p.E1258*|CDK13_uc003thj.2_Nonsense_Mutation_p.E369*|CDK13_uc003thk.2_Nonsense_Mutation_p.E251*	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	1318					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						CCCCAAAAGAGAAGGTGGGAT	0.493													65	85					1.12612e-26	1.36447e-26	1	1	0		T	40133992	T	T	40133992	4	4	89	1	0	0	0	0	0	1	0	0	3132	943	33	5	4006	5	CDK13	7	40133992	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1386	40133992	119004671	3025	56856											
C7orf10	79783	broad.mit.edu	37	chr7	40228169	40228169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atattatctcagtgttaaccGaaataaaaaagtaagaatat	20	12	5	4	1	1	1	1	0	1	1	2	2	1	1	1	0	1	2	1	0	10	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:40228169G>A	uc003thn.1	+	4	347	c.302G>A	c.(301-303)CGA>CAA	p.R101Q	C7orf10_uc003thm.1_Missense_Mutation_p.R108Q|C7orf10_uc003tho.1_Missense_Mutation_p.R101Q	NM_024728	NP_079004	Q9HAC7	CG010_HUMAN	dermal papilla derived protein 13	108							transferase activity			ovary(2)	2						AGTGTTAACCGAAATAAAAAA	0.338													6	13					0	0	1	0	0		A	40228169	A	A	40228169	3	1	89	1	0	0	0	0	1	0	0	0	2379	1058	37	1	337	1	C7orf10	7	40228169	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	94177	40228169	118910494	3026	56857											
GLI3	2737	broad.mit.edu	37	chr7	42003980	42003980	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctagggaggtcagcaaaGaactcatgtccccgatagcc	11	6	11	13	2	2	1	2	0	0	1	3	3	3	2	4	2	3	2	4	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:42003980G>T	uc011kbh.1	-	15	4782	c.4691C>A	c.(4690-4692)TCT>TAT	p.S1564Y	GLI3_uc011kbg.1_Missense_Mutation_p.S1505Y	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1564					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GGTCAGCAAAGAACTCATGTC	0.517									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				14	26					0.000151284	0.000154703	1	1	0		T	42003980	T	T	42003980	3	4	89	1	0	0	0	0	1	0	0	0	6454	942	33	5	55	5	GLI3	7	42003980	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1775811	42003980	117134683	3027	56858											
GLI3	2737	broad.mit.edu	37	chr7	42004153	42004153	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatcgtctatgatggcatcGaagtcaatctgtaccccttc	9	12	7	13	2	3	1	1	1	2	0	6	2	3	1	3	1	1	2	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:42004153G>A	uc011kbh.1	-	15	4609	c.4518C>T	c.(4516-4518)TTC>TTT	p.F1506F	GLI3_uc011kbg.1_Silent_p.F1447F	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1506	Asp/Glu-rich (acidic).				negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						TGATGGCATCGAAGTCAATCT	0.552									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				17	49					0	0	1	0	0		A	42004153	A	A	42004153	2	1	89	1	0	0	0	0	0	0	0	1	6454	1049	37	1		1	GLI3	7	42004153	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	173	42004153	117134510	3028	56859											
GLI3	2737	broad.mit.edu	37	chr7	42004714	42004714	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgagccaggtacccctgTcccactgggtcctggttctg	4	11	13	13	0	1	1	0	1	1	0	3	1	3	1	5	4	2	2	5	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:42004714T>C	uc011kbh.1	-	15	4048	c.3957A>G	c.(3955-3957)GGA>GGG	p.G1319G	GLI3_uc011kbg.1_Silent_p.G1260G	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1319					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GGTACCCCTGTCCCACTGGGT	0.642									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				14	42					0	0	1	0	0		C	42004714	C	C	42004714	2	2	89	1	0	0	0	0	0	0	0	1	6454	1654	58	3		3	GLI3	7	42004714	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	561	42004714	117133949	3029	56860											
GLI3	2737	broad.mit.edu	37	chr7	42018306	42018306	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtccagccacctgcacacGaactccttcttctctccatg	8	10	5	18	1	2	0	0	0	2	0	6	1	5	0	5	0	3	1	5	0	1	2	rs142888674		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:42018306G>A	uc011kbh.1	-	11	1630	c.1539C>T	c.(1537-1539)TTC>TTT	p.F513F	GLI3_uc011kbg.1_Silent_p.F454F	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	513	C2H2-type 2.				negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						ACCTGCACACGAACTCCTTCT	0.448									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				23	43					0	0	1	0	0		A	42018306	A	A	42018306	2	1	89	1	0	0	0	0	0	0	0	1	6454	1049	37	1		1	GLI3	7	42018306	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13592	42018306	117120357	3030	56861											
C7orf25	79020	broad.mit.edu	37	chr7	42949774	42949774	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttactcttttgcacacatcGaccttaatttctgttggaaa	10	17	5	9	1	2	0	0	0	2	0	3	2	2	1	1	1	2	2	1	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:42949774G>A	uc003thw.2	-	2	1190	c.726C>T	c.(724-726)GTC>GTT	p.V242V	C7orf25_uc010kxq.2_Silent_p.V242V|C7orf25_uc003thx.3_Silent_p.V300V|C7orf25_uc010kxr.2_Silent_p.V300V	NM_024054	NP_076959	Q9BPX7	CG025_HUMAN	hypothetical protein LOC79020 b	242										skin(1)	1						TGCACACATCGACCTTAATTT	0.413													39	106					0	0	1	0	0		A	42949774	A	A	42949774	2	1	89	1	0	0	0	0	0	0	0	1	2383	1045	37	1		1	C7orf25	7	42949774	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	931468	42949774	116188889	3031	56862											
BLVRA	644	broad.mit.edu	37	chr7	43830923	43830923	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccagccaagaggtggaggtCgcctatatctgcagtgagag	10	8	14	9	1	1	2	0	1	1	2	3	4	2	3	3	3	2	1	3	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:43830923C>T	uc003tir.2	+	4	293	c.210C>T	c.(208-210)GTC>GTT	p.V70V	BLVRA_uc010kxv.2_Silent_p.V70V	NM_000712	NP_000703	P53004	BIEA_HUMAN	biliverdin reductase A precursor	70					heme catabolic process	cytosol	biliverdin reductase activity|zinc ion binding			ovary(1)	1					NADH(DB00157)	AGGTGGAGGTCGCCTATATCT	0.398													36	77					0	0	1	0	0		T	43830923	T	T	43830923	2	4	89	1	0	0	0	0	0	0	0	1	1452	871	31	1		1	BLVRA	7	43830923	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	881149	43830923	115307740	3032	56863											
BLVRA	644	broad.mit.edu	37	chr7	43840110	43840110	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaactcttgatggaggaattCgctttcctgaaaaaagaagt	14	11	10	6	1	1	3	0	2	1	1	3	6	2	5	1	2	1	1	1	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:43840110C>T	uc003tir.2	+	6	482	c.399C>T	c.(397-399)TTC>TTT	p.F133F	BLVRA_uc010kxv.2_Silent_p.F133F	NM_000712	NP_000703	P53004	BIEA_HUMAN	biliverdin reductase A precursor	133					heme catabolic process	cytosol	biliverdin reductase activity|zinc ion binding			ovary(1)	1					NADH(DB00157)	TGGAGGAATTCGCTTTCCTGA	0.483													18	45					0	0	1	0	0		T	43840110	T	T	43840110	2	4	89	1	0	0	0	0	0	0	0	1	1452	883	31	1		1	BLVRA	7	43840110	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9187	43840110	115298553	3033	56864											
BLVRA	644	broad.mit.edu	37	chr7	43846619	43846619	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggacctggtctaaaacgaAacagatatttaagcttccat	16	10	7	8	1	1	1	0	0	1	1	2	3	2	2	2	2	3	1	2	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:43846619A>C	uc003tir.2	+	8	759	c.676A>C	c.(676-678)AAC>CAC	p.N226H	BLVRA_uc010kxv.2_Missense_Mutation_p.N226H	NM_000712	NP_000703	P53004	BIEA_HUMAN	biliverdin reductase A precursor	226					heme catabolic process	cytosol	biliverdin reductase activity|zinc ion binding			ovary(1)	1					NADH(DB00157)	TCTAAAACGAAACAGATATTT	0.363													20	44					0	0	1	0	0		C	43846619	C	C	43846619	3	2	89	1	0	0	0	0	1	0	0	0	1452	14	1	5	702	5	BLVRA	7	43846619	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	6509	43846619	115292044	3034	56865											
URGCP	55665	broad.mit.edu	37	chr7	43921522	43921522	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacctccataacggaactcGcaatcatctccttccatttc	10	12	3	16	2	2	0	1	0	1	0	7	1	4	1	4	1	3	1	4	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:43921522G>A	uc003tiw.2	-	4	204	c.147C>T	c.(145-147)TGC>TGT	p.C49C	URGCP_uc003tiu.2_Silent_p.C6C|URGCP_uc003tiv.2_5'UTR|URGCP_uc003tix.2_Silent_p.C40C|URGCP_uc003tiy.2_Silent_p.C6C|URGCP_uc003tiz.2_Silent_p.C6C|URGCP_uc011kbj.1_Silent_p.C6C	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	49					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						aacggaactcgcaatcatctc	0.119													71	149					0	0	1	0	0		A	43921522	A	A	43921522	2	1	89	1	0	0	0	0	0	0	0	1	17052	1079	38	1		1	URGCP	7	43921522	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	74903	43921522	115217141	3035	56866											
AEBP1	165	broad.mit.edu	37	chr7	44150348	44150348	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattttgtgaccaccttcttCgtgggcttcagcaatgacag	8	13	10	10	1	2	2	1	2	1	0	3	3	2	2	2	1	1	2	2	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:44150348C>T	uc003tkb.2	+	12	1730	c.1425C>T	c.(1423-1425)TTC>TTT	p.F475F	AEBP1_uc003tkc.3_5'UTR|AEBP1_uc003tkd.2_5'Flank	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	475	Required for DNA-binding and interaction with NFKBIA (By similarity).|F5/8 type C.|Interaction with MAPK1 and MAPK3 (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCACCTTCTTCGTGGGCTTCA	0.582													60	120					0	0	1	0	0		T	44150348	T	T	44150348	2	4	89	1	0	0	0	0	0	0	0	1	349	883	31	1		1	AEBP1	7	44150348	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	228826	44150348	114988315	3036	56867											
AEBP1	165	broad.mit.edu	37	chr7	44153214	44153214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtggtggtgattactggcGaatcttgaacccgggtgagt	8	11	15	7	2	1	3	0	3	1	0	1	4	1	3	1	4	2	0	1	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:44153214G>A	uc003tkb.2	+	21	3136	c.2831G>A	c.(2830-2832)CGA>CAA	p.R944Q	AEBP1_uc003tkc.3_Missense_Mutation_p.R519Q|AEBP1_uc003tkd.2_Missense_Mutation_p.R194Q	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	944	Interaction with PTEN (By similarity).|Required for transcriptional repression (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GATTACTGGCGAATCTTGAAC	0.493													27	48					0	0	1	0	0		A	44153214	A	A	44153214	3	1	89	1	0	0	0	0	1	0	0	0	349	1058	37	1	2913	1	AEBP1	7	44153214	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2866	44153214	114985449	3037	56868											
GCK	2645	broad.mit.edu	37	chr7	44190669	44190669	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgcactcagagatgtagtcGaagagctggaagatgcacgc	13	7	13	8	2	1	3	1	0	0	3	2	6	1	4	0	1	3	4	0	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:44190669G>A	uc003tkl.2	-	4	839	c.369C>T	c.(367-369)TTC>TTT	p.F123F	GCK_uc003tkj.1_Silent_p.F122F|GCK_uc003tkk.1_Silent_p.F124F	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	123					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding	p.F124L(1)		skin(3)|lung(1)	4						AGATGTAGTCGAAGAGCTGGA	0.592													16	45					0	0	1	0	0		A	44190669	A	A	44190669	2	1	89	1	0	0	0	0	0	0	0	1	6308	1049	37	1		1	GCK	7	44190669	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	37455	44190669	114947994	3038	56869											
YKT6	10652	broad.mit.edu	37	chr7	44251851	44251851	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgtttttttccaaggcccgGaaacaaaactcatgctgtgc	10	13	8	10	1	1	0	1	0	0	0	2	1	2	1	2	2	4	2	2	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:44251851G>A	uc003tkm.2	+	7	724	c.567G>A	c.(565-567)CGG>CGA	p.R189R	YKT6_uc011kbv.1_Silent_p.R155R	NM_006555	NP_006546	O15498	YKT6_HUMAN	YKT6 v-SNARE protein	189	v-SNARE coiled-coil homology.				ER to Golgi vesicle-mediated transport|protein transport|retrograde transport, endosome to Golgi|vesicle docking involved in exocytosis|vesicle targeting	cytoplasmic vesicle membrane|cytosol|endoplasmic reticulum|endosome|Golgi membrane|integral to plasma membrane|mitochondrion|SNARE complex	protein-cysteine S-palmitoleyltransferase activity|SNAP receptor activity				0						CCAAGGCCCGGAAACAAAACT	0.542													74	145					0	0	1	0	0		A	44251851	A	A	44251851	2	1	89	1	0	0	0	0	0	0	0	1	17511	1161	41	4		4	YKT6	7	44251851	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	61182	44251851	114886812	3039	56870											
NPC1L1	29881	broad.mit.edu	37	chr7	44579499	44579499	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggagtcatagctctgcTcggcaaagctatgctggtag	9	10	13	9	1	2	0	1	0	1	0	3	1	2	1	0	3	5	7	0	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:44579499T>C	uc003tlb.2	-	2	553	c.497A>G	c.(496-498)GAG>GGG	p.E166G	NPC1L1_uc003tlc.2_Missense_Mutation_p.E166G|NPC1L1_uc011kbw.1_Missense_Mutation_p.E166G|NPC1L1_uc003tld.2_Missense_Mutation_p.E166G	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	166	Extracellular (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	ATAGCTCTGCTCGGCAAAGCT	0.617													23	32					0	0	1	0	0		C	44579499	C	C	44579499	3	2	89	1	0	0	0	0	1	0	0	0	10590	1551	54	3	3658	3	NPC1L1	7	44579499	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	327648	44579499	114559164	3040	56871											
DDX56	54606	broad.mit.edu	37	chr7	44609623	44609623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacactactacctgccagctCgatggatgtaggcctcaggg	9	8	11	13	1	1	0	1	0	0	0	2	2	1	1	3	3	4	2	3	3	3	3	rs144918436		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:44609623C>T	uc003tlg.2	-	8	1758	c.1115G>A	c.(1114-1116)CGA>CAA	p.R372Q	DDX56_uc003tle.2_RNA|DDX56_uc003tlf.2_Missense_Mutation_p.R308Q|DDX56_uc003tlh.2_RNA|DDX56_uc010kyg.2_Missense_Mutation_p.R332Q|DDX56_uc010kyh.1_RNA	NM_019082	NP_061955	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	372	Helicase C-terminal.				rRNA processing	nucleolus	ATP binding|ATP-dependent RNA helicase activity|identical protein binding|RNA binding			upper_aerodigestive_tract(1)	1						CCTGCCAGCTCGATGGATGTA	0.592													15	26					0	0	1	0	0		T	44609623	T	T	44609623	3	4	89	1	0	0	0	0	1	0	0	0	4377	884	31	1	556	1	DDX56	7	44609623	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30124	44609623	114529040	3041	56872											
TBRG4	9238	broad.mit.edu	37	chr7	45139956	45139956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctcagccaccgctttgcGcatcttgtccttgaggtagg	5	12	10	14	2	2	1	1	1	1	0	4	1	4	1	4	2	2	3	4	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:45139956G>A	uc003tmv.2	-	11	1990	c.1864C>T	c.(1864-1866)CGC>TGC	p.R622C	TBRG4_uc003tmu.2_Missense_Mutation_p.R447C|TBRG4_uc003tmw.2_Missense_Mutation_p.R512C|TBRG4_uc003tmx.2_Missense_Mutation_p.R512C|TBRG4_uc011kcd.1_Missense_Mutation_p.R633C	NM_004749	NP_004740	Q969Z0	TBRG4_HUMAN	cell cycle progression 2 protein isoform 1	622					apoptosis|cell cycle arrest|cellular respiration|G1 phase of mitotic cell cycle|positive regulation of cell proliferation	mitochondrion	ATP binding|protein binding|protein kinase activity				0						ACCGCTTTGCGCATCTTGTCC	0.592													16	22					0	0	1	0	0		A	45139956	A	A	45139956	3	1	89	1	0	0	0	0	1	0	0	0	15674	1087	38	1	35	1	TBRG4	7	45139956	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	530333	45139956	113998707	3042	56873											
ADCY1	107	broad.mit.edu	37	chr7	45662318	45662318	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaactcctcaatgagctcttCggcaagttcgatgaattagc	12	11	8	10	2	2	2	1	2	1	0	5	3	3	2	1	1	3	3	1	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:45662318C>T	uc003tne.3	+	4	1014	c.996C>T	c.(994-996)TTC>TTT	p.F332F	ADCY1_uc003tnd.2_Silent_p.F107F	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	332	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	ATGAGCTCTTCGGCAAGTTCG	0.488													10	22					0	0	1	0	0		T	45662318	T	T	45662318	2	4	89	1	0	0	0	0	0	0	0	1	292	883	31	1		1	ADCY1	7	45662318	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	522362	45662318	113476345	3043	56874											
ADCY1	107	broad.mit.edu	37	chr7	45688281	45688281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgaaggagaaccactgtCgccgcatcaagattctcggg	10	7	11	13	3	2	3	1	1	1	2	4	4	2	3	3	2	1	1	3	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:45688281C>T	uc003tne.3	+	5	1051	c.1033C>T	c.(1033-1035)CGC>TGC	p.R345C	ADCY1_uc003tnd.2_Missense_Mutation_p.R120C	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	345	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GAACCACTGTCGCCGCATCAA	0.592													19	48					0	0	1	0	0		T	45688281	T	T	45688281	3	4	89	1	0	0	0	0	1	0	0	0	292	884	31	1	1051	1	ADCY1	7	45688281	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	25963	45688281	113450382	3044	56875											
ADCY1	107	broad.mit.edu	37	chr7	45743055	45743055	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacctcctgccggcccacgtCgcccagcacttcctcatgtc	6	8	7	20	3	1	0	1	0	0	0	5	0	3	0	6	1	3	1	6	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:45743055C>T	uc003tne.3	+	15	2553	c.2535C>T	c.(2533-2535)GTC>GTT	p.V845V		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	845	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CGGCCCACGTCGCCCAGCACT	0.627													23	48					0	0	1	0	0		T	45743055	T	T	45743055	2	4	89	1	0	0	0	0	0	0	0	1	292	871	31	1		1	ADCY1	7	45743055	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	54774	45743055	113395608	3045	56876											
IGFBP1	3484	broad.mit.edu	37	chr7	45931546	45931546	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaggagccctgccgaataGaactctacagagtcgtagag	12	8	11	10	2	1	3	0	0	1	3	2	5	1	4	2	1	4	1	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:45931546G>T	uc003tnp.2	+	3	828	c.535G>T	c.(535-537)GAA>TAA	p.E179*	IGFBP1_uc003tno.3_Nonsense_Mutation_p.E179*|IGFBP1_uc010kyn.2_Intron	NM_000596	NP_000587	P08833	IBP1_HUMAN	insulin-like growth factor binding protein 1	179	Thyroglobulin type-1.					extracellular space	insulin-like growth factor binding			lung(1)	1						CTGCCGAATAGAACTCTACAG	0.398											OREG0018048	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	36					1.15088e-07	1.20949e-07	1	1	0		T	45931546	T	T	45931546	4	4	89	1	0	0	0	0	0	1	0	0	7594	943	33	5	545	5	IGFBP1	7	45931546	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	188491	45931546	113207117	3046	56877											
TNS3	64759	broad.mit.edu	37	chr7	47341845	47341845	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtcttgaacaaatttcacGatcacaagtttatcacctgg	12	13	7	9	1	4	1	3	1	1	0	4	2	4	1	1	1	1	1	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:47341845G>A	uc003tnv.2	-	23	3850	c.3483C>T	c.(3481-3483)ATC>ATT	p.I1161I	TNS3_uc003tnw.2_Silent_p.I1161I	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	1161						focal adhesion	protein binding			ovary(4)	4						CAAATTTCACGATCACAAGTT	0.448													17	50					0	0	1	0	0		A	47341845	A	A	47341845	2	1	89	1	0	0	0	0	0	0	0	1	16369	1048	37	1		1	TNS3	7	47341845	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1410299	47341845	111796818	3047	56878											
C7orf65	401335	broad.mit.edu	37	chr7	47698352	47698352	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacagctattcaccaaaGaggtaatatttgagttcagg	14	10	8	9	0	2	2	2	1	0	1	2	2	2	2	2	2	1	3	2	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:47698352G>T	uc010kyp.1	+	2	167	c.132G>T	c.(130-132)AAG>AAT	p.K44N		NM_001123065	NP_001116537	Q6ZTY9	CG065_HUMAN	hypothetical protein LOC401335	44											0						attcaccaaagaggtaatatt	0.1													12	24					2.80697e-09	3.01096e-09	1	1	0		T	47698352	T	T	47698352	3	4	89	1	0	0	0	0	1	0	0	0	2414	933	33	5	138	5	C7orf65	7	47698352	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	356507	47698352	111440311	3048	56879											
PKD1L1	168507	broad.mit.edu	37	chr7	47842892	47842892	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaatgccaggaagatagacGcattttaatgtgaagaggaa	16	9	12	4	1	0	5	0	2	0	3	0	7	0	7	1	2	1	1	1	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:47842892G>A	uc003tny.1	-	53	7878	c.7878C>T	c.(7876-7878)TGC>TGT	p.C2626C	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2626	Helical; (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GAAGATAGACGCATTTTAATG	0.502													18	47					0	0	1	0	0		A	47842892	A	A	47842892	2	1	89	1	0	0	0	0	0	0	0	1	11983	1079	38	1		1	PKD1L1	7	47842892	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	144540	47842892	111295771	3049	56880											
PKD1L1	168507	broad.mit.edu	37	chr7	47894612	47894612	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttatcccgaagtaatacaAatgtcgttttatttctccta	11	17	4	9	2	1	0	0	0	1	0	4	1	2	0	2	0	1	2	2	0	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:47894612A>C	uc003tny.1	-	30	4727	c.4727T>G	c.(4726-4728)TTT>TGT	p.F1576C		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	1576	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AAGTAATACAAATGTCGTTTT	0.348													21	51					0	0	1	0	0		C	47894612	C	C	47894612	3	2	89	1	0	0	0	0	1	0	0	0	11983	14	1	5	3934	5	PKD1L1	7	47894612	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	51720	47894612	111244051	3050	56881											
PKD1L1	168507	broad.mit.edu	37	chr7	47898276	47898276	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagtgtgacttaccaacaAtaaatctgagatgactgtaa	18	10	7	6	0	1	3	0	3	1	1	1	4	1	3	1	0	2	1	1	0	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:47898276A>G	uc003tny.1	-	27	4357	c.4357T>C	c.(4357-4359)TTG>CTG	p.L1453L		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	1453	Extracellular (Potential).|REJ.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CTTACCAACAATAAATCTGAG	0.383													30	66					0	0	1	0	0		G	47898276	G	G	47898276	2	3	89	1	0	0	0	0	0	0	0	1	11983	98	4	3		3	PKD1L1	7	47898276	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3664	47898276	111240387	3051	56882											
PKD1L1	168507	broad.mit.edu	37	chr7	47927693	47927693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catagcttgaagagagagttCgtcattccagttgacgaagg	12	10	12	7	2	1	4	1	2	0	2	3	6	2	4	1	1	1	3	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:47927693C>T	uc003tny.1	-	17	2731	c.2731G>A	c.(2731-2733)GAA>AAA	p.E911K		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	911	Extracellular (Potential).|REJ.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AGAGAGAGTTCGTCATTCCAG	0.393													21	48					0	0	1	0	0		T	47927693	T	T	47927693	3	4	89	1	0	0	0	0	1	0	0	0	11983	893	31	1	5982	1	PKD1L1	7	47927693	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	29417	47927693	111210970	3052	56883											
ABCA13	154664	broad.mit.edu	37	chr7	48269512	48269512	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtactgaatgtgaccatttcGacactgacatttctgcagca	11	12	8	10	1	1	3	0	3	1	0	2	4	1	3	1	0	3	3	1	0	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:48269512G>A	uc003toq.2	+	7	748	c.723G>A	c.(721-723)TCG>TCA	p.S241S	ABCA13_uc003top.2_3'UTR|ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	241					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TGACCATTTCGACACTGACAT	0.388													36	70					0	0	1	0	0		A	48269512	A	A	48269512	2	1	89	1	0	0	0	0	0	0	0	1	31	1045	37	1		1	ABCA13	7	48269512	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	341819	48269512	110869151	3053	56884											
ABCA13	154664	broad.mit.edu	37	chr7	48311639	48311639	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgccactgatgctcagaaActcttggaatttggcaacga	11	11	9	10	1	3	2	1	1	2	1	3	4	3	3	1	2	4	2	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:48311639A>C	uc003toq.2	+	17	2401	c.2376A>C	c.(2374-2376)AAA>AAC	p.K792N	ABCA13_uc010kyr.2_Missense_Mutation_p.K295N	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	792					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ATGCTCAGAAACTCTTGGAAT	0.383													15	42					0	0	1	0	0		C	48311639	C	C	48311639	3	2	89	1	0	0	0	0	1	0	0	0	31	40	2	5	2271	5	ABCA13	7	48311639	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	42127	48311639	110827024	3054	56885											
ABCA13	154664	broad.mit.edu	37	chr7	48311803	48311803	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcatttcaaaaggaaaaaGagctaaattggaaaacttct	18	10	8	5	0	2	1	1	0	1	1	2	3	2	3	0	3	2	2	0	3	8	4	rs117711958	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:48311803G>T	uc003toq.2	+	17	2565	c.2540G>T	c.(2539-2541)AGA>ATA	p.R847I	ABCA13_uc010kyr.2_Missense_Mutation_p.R350I	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	847					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AAAGGAAAAAGAGCTAAATTG	0.289													19	44					0.006122	0.00618162	1	1	0		T	48311803	T	T	48311803	3	4	89	1	0	0	0	0	1	0	0	0	31	942	33	5	2435	5	ABCA13	7	48311803	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	164	48311803	110826860	3055	56886											
ABCA13	154664	broad.mit.edu	37	chr7	48315973	48315973	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccttcaaataatgaattTcattaaccttatcttgaacc	14	15	3	9	0	3	3	2	3	1	0	3	3	3	3	3	0	2	0	3	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:48315973T>C	uc003toq.2	+	17	6735	c.6710T>C	c.(6709-6711)TTC>TCC	p.F2237S	ABCA13_uc010kyr.2_Missense_Mutation_p.F1740S	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2237					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ATAATGAATTTCATTAACCTT	0.328													5	18					0	0	1	0	0		C	48315973	C	C	48315973	3	2	89	1	0	0	0	0	1	0	0	0	31	1783	62	3	6605	3	ABCA13	7	48315973	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4170	48315973	110822690	3056	56887											
ABCA13	154664	broad.mit.edu	37	chr7	48318153	48318153	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttatacttgctaatctaacGgatttgcttttctttataaa	11	19	5	6	1	2	0	0	0	2	0	2	1	2	1	0	1	4	3	0	1	7	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:48318153G>A	uc003toq.2	+	18	7387	c.7362G>A	c.(7360-7362)ACG>ACA	p.T2454T	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2454					transport	integral to membrane	ATP binding|ATPase activity	p.S2454I(1)		ovary(5)|central_nervous_system(4)|skin(1)	10						CTAATCTAACGGATTTGCTTT	0.348													32	104					0	0	1	0	0		A	48318153	A	A	48318153	2	1	89	1	0	0	0	0	0	0	0	1	31	1103	39	1		1	ABCA13	7	48318153	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2180	48318153	110820510	3057	56888											
ZPBP	11055	broad.mit.edu	37	chr7	49977177	49977177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctattgcattgaaggcaatGaattccatcacgggggttat	11	12	11	7	1	1	2	1	2	0	0	2	2	2	2	1	3	1	4	1	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:49977177G>A	uc003tou.2	-	8	1073	c.1003C>T	c.(1003-1005)CAT>TAT	p.H335Y	ZPBP_uc011kci.1_Missense_Mutation_p.H261Y|ZPBP_uc010kyw.2_Missense_Mutation_p.H334Y	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	335					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					TGAAGGCAATGAATTCCATCA	0.328													51	81					0	0	1	0	0		A	49977177	A	A	49977177	3	1	89	1	0	0	0	0	1	0	0	0	18244	1290	45	4	56	4	ZPBP	7	49977177	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1659024	49977177	109161486	3058	56889											
ZPBP	11055	broad.mit.edu	37	chr7	50023074	50023074	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgcacgtctgccaagaatTtctacttgttgattaaaaaa	13	14	6	8	1	3	2	0	1	3	1	3	2	3	2	1	0	3	2	1	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:50023074T>G	uc003tou.2	-	7	895	c.825A>C	c.(823-825)GAA>GAC	p.E275D	ZPBP_uc011kci.1_Missense_Mutation_p.E201D|ZPBP_uc010kyw.2_Missense_Mutation_p.E274D	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	275					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					TGCCAAGAATTTCTACTTGTT	0.303													18	37					0	0	1	0	0		G	50023074	G	G	50023074	3	3	89	1	0	0	0	0	1	0	0	0	18244	1838	64	5	238	5	ZPBP	7	50023074	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	45897	50023074	109115589	3059	56890											
POM121L12	285877	broad.mit.edu	37	chr7	53103453	53103453	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaggccccgacgccctggCggctcccatgagcaggtcac	7	4	13	17	3	1	1	1	1	0	0	2	2	2	1	4	4	1	3	4	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:53103453C>A	uc003tpz.2	+	1	105	c.89C>A	c.(88-90)GCG>GAG	p.A30E		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	30											0						GACGCCCTGGCGGCTCCCATG	0.692													10	40					3.86212e-05	3.96572e-05	1	1	0		A	53103453	A	A	53103453	3	1	89	1	0	0	0	0	1	0	0	0	12260	768	27	5	91	5	POM121L12	7	53103453	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3080379	53103453	106035210	3060	56891											
EGFR	1956	broad.mit.edu	37	chr7	55221711	55221711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctcctccataggtctgccGcaaattccgagacgaagcca	10	8	8	15	3	2	1	0	0	2	1	5	3	4	1	5	1	2	1	5	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:55221711G>A	uc003tqk.2	+	7	1001	c.755G>A	c.(754-756)CGC>CAC	p.R252H	EGFR_uc003tqh.2_Missense_Mutation_p.R252H|EGFR_uc003tqi.2_Missense_Mutation_p.R252H|EGFR_uc003tqj.2_Missense_Mutation_p.R252H|EGFR_uc010kzg.1_Missense_Mutation_p.R207H|EGFR_uc011kco.1_Missense_Mutation_p.R199H|EGFR_uc011kcp.1_5'Flank|EGFR_uc011kcq.1_5'Flank	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	252	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)|p.R252C(1)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	TAGGTCTGCCGCAAATTCCGA	0.587		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			37	73					0	0	1	0	0		A	55221711	A	A	55221711	3	1	89	1	0	0	0	0	1	0	0	0	4973	1087	38	1	781	1	EGFR	7	55221711	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2118258	55221711	103916952	3061	56892											
SEPT14	346288	broad.mit.edu	37	chr7	55912390	55912390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaatgtgtctatcagtgtcGattttccaattccagtctcc	9	15	6	11	1	3	0	1	0	2	0	7	1	5	0	3	0	0	0	3	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:55912390G>A	uc003tqz.2	-	4	314	c.197C>T	c.(196-198)TCG>TTG	p.S66L		NM_207366	NP_997249	Q6ZU15	SEP14_HUMAN	septin 14	66	GTP (By similarity).				cell cycle|cell division	septin complex	GTP binding|protein binding				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TATCAGTGTCGATTTTCCAAT	0.358													15	28					0	0	1	0	0		A	55912390	A	A	55912390	3	1	89	1	0	0	0	0	1	0	0	0	14088	1059	37	1	1129	1	SEPT14	7	55912390	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	690679	55912390	103226273	3062	56893											
ZNF713	349075	broad.mit.edu	37	chr7	55990859	55990859	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttgatgtttcaggaatCactgacgtttcaggatgtgg	8	14	13	6	1	3	2	3	2	0	0	3	4	3	4	0	3	1	3	0	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:55990859C>A	uc003trc.1	+	2	91	c.53C>A	c.(52-54)TCA>TAA	p.S18*	ZNF713_uc003tra.1_Nonsense_Mutation_p.S31*|MRPS17_uc003trb.2_Nonsense_Mutation_p.S18*	NM_182633	NP_872439	Q8N859	ZN713_HUMAN	zinc finger protein 713	18					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TTTCAGGAATCACTGACGTTT	0.517													6	65					3.59834e-05	3.69903e-05	1	1	0		A	55990859	A	A	55990859	4	1	89	1	0	0	0	0	0	1	0	0	18142	838	29	5	59	5	ZNF713	7	55990859	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	78469	55990859	103147804	3063	56894											
GBAS	2631	broad.mit.edu	37	chr7	56045869	56045869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agaagacagctggctaaaatCcttatttgtccggaaagttg	13	11	10	7	1	0	2	0	0	0	2	2	3	2	3	2	2	1	3	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:56045869C>T	uc003tre.1	+	2	151	c.143C>T	c.(142-144)TCC>TTC	p.S48F	GBAS_uc003trf.1_Missense_Mutation_p.S48F	NM_001483	NP_001474	O75323	NIPS2_HUMAN	nipsnap homolog 2	48						integral to plasma membrane|membrane fraction|mitochondrion	protein binding			central_nervous_system(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TGGCTAAAATCCTTATTTGTC	0.408													33	93					0	0	1	0	0		T	56045869	T	T	56045869	3	4	89	1	0	0	0	0	1	0	0	0	6284	855	30	4	149	4	GBAS	7	56045869	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	55010	56045869	103092794	3064	56895											
ZNF479	90827	broad.mit.edu	37	chr7	57188256	57188256	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctctccagtatgaattCtcttgtggttagtaagtgct	7	17	9	8	0	3	1	0	1	3	0	6	1	3	1	1	1	1	4	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:57188256C>A	uc010kzo.2	-	5	1137	c.866G>T	c.(865-867)AGA>ATA	p.R289I		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	289	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			AGTATGAATTCTCTTGTGGTT	0.453													26	43					2.61193e-14	2.9448e-14	1	1	0		A	57188256	A	A	57188256	3	1	89	1	0	0	0	0	1	0	0	0	17958	913	32	5	712	5	ZNF479	7	57188256	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1142387	57188256	101950407	3065	56896											
ZNF716	441234	broad.mit.edu	37	chr7	57528892	57528892	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactggagagaaaccctacaGatgtgaggaatgtggcaaag	15	7	13	6	0	0	3	0	1	0	2	0	6	0	5	1	3	3	1	1	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:57528892G>T	uc011kdi.1	+	4	837	c.725G>T	c.(724-726)AGA>ATA	p.R242I		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						AAACCCTACAGATGTGAGGAA	0.403													17	14					1.99824e-07	2.09758e-07	1	1	0		T	57528892	T	T	57528892	3	4	89	1	0	0	0	0	1	0	0	0	18144	942	33	5	739	5	ZNF716	7	57528892	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	340636	57528892	101609771	3066	56897											
ZNF716	441234	broad.mit.edu	37	chr7	57529114	57529114	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacttactaaccacaagaGaattcatactggagagagac	18	7	7	9	0	1	3	1	0	0	3	1	6	1	3	1	1	4	0	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:57529114G>T	uc011kdi.1	+	4	1059	c.947G>T	c.(946-948)AGA>ATA	p.R316I		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						AACCACAAGAGAATTCATACT	0.408													15	32					1.62849e-17	1.88987e-17	1	1	0		T	57529114	T	T	57529114	3	4	89	1	0	0	0	0	1	0	0	0	18144	942	33	5	961	5	ZNF716	7	57529114	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	222	57529114	101609549	3067	56898											
ZNF716	441234	broad.mit.edu	37	chr7	57529466	57529466	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagataattcatactggagaGaaactctacaaatgtaaaga	20	9	7	5	0	2	3	1	0	1	3	2	5	2	4	0	1	3	1	0	1	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:57529466G>A	uc011kdi.1	+	4	1411	c.1299G>A	c.(1297-1299)GAG>GAA	p.E433E		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						ATACTGGAGAGAAACTCTACA	0.383													5	20					0	0	1	0	0		A	57529466	A	A	57529466	2	1	89	1	0	0	0	0	0	0	0	1	18144	933	33	4		4	ZNF716	7	57529466	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	352	57529466	101609197	3068	56899											
ZNF716	441234	broad.mit.edu	37	chr7	57529580	57529580	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgtgaagaatgtgaccaAacttttaagtggcattcaag	16	11	9	5	0	1	3	1	2	0	1	1	3	1	3	1	1	1	1	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:57529580A>C	uc011kdi.1	+	4	1525	c.1413A>C	c.(1411-1413)CAA>CAC	p.Q471H		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						AATGTGACCAAACTTTTAAGT	0.388													3	15					0	0	1	0	0		C	57529580	C	C	57529580	3	2	89	1	0	0	0	0	1	0	0	0	18144	11	1	5	1427	5	ZNF716	7	57529580	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	114	57529580	101609083	3069	56900											
ZNF680	340252	broad.mit.edu	37	chr7	63982024	63982024	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctccagtatgaatttTcttatgtctagtaaggtttg	8	20	7	6	0	3	1	0	1	3	0	5	1	4	1	1	1	0	3	1	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:63982024T>G	uc003tta.2	-	4	1281	c.1108A>C	c.(1108-1110)AAA>CAA	p.K370Q	ZNF680_uc010kzr.2_Missense_Mutation_p.K297Q	NM_178558	NP_848653	Q8NEM1	ZN680_HUMAN	zinc finger protein 680 isoform 1	370	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.118)|all_lung(88;0.243)				GTATGAATTTTCTTATGTCTA	0.353													16	33					0	0	1	0	0		G	63982024	G	G	63982024	3	3	89	1	0	0	0	0	1	0	0	0	18112	1792	62	5	488	5	ZNF680	7	63982024	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6452444	63982024	95156639	3070	56901											
ZNF107	51427	broad.mit.edu	37	chr7	64167547	64167547	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatatcctcaaaccttaatAaacaggagaaaattcatact	19	10	3	9	0	2	1	2	0	0	1	3	2	3	1	2	1	3	0	2	1	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:64167547A>G	uc003ttd.2	+	7	1651	c.865A>G	c.(865-867)AAA>GAA	p.K289E	ZNF107_uc003tte.2_Missense_Mutation_p.K289E	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	289	C2H2-type 8; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				AAACCTTAATAAACAGGAGAA	0.343													18	42					0	0	1	0	0		G	64167547	G	G	64167547	3	3	89	1	0	0	0	0	1	0	0	0	17740	363	13	3	871	3	ZNF107	7	64167547	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	185523	64167547	94971116	3071	56902											
ZNF107	51427	broad.mit.edu	37	chr7	64167657	64167657	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaaattctaatggaagaGaaaccctacaaatgtgaaga	21	7	8	5	0	1	4	0	1	1	3	1	6	1	5	1	1	2	0	1	1	9	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:64167657G>T	uc003ttd.2	+	7	1761	c.975G>T	c.(973-975)GAG>GAT	p.E325D	ZNF107_uc003tte.2_Missense_Mutation_p.E325D	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	325					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				TAATGGAAGAGAAACCCTACA	0.343													9	36					0.000274275	0.000279565	1	1	0		T	64167657	T	T	64167657	3	4	89	1	0	0	0	0	1	0	0	0	17740	933	33	5	981	5	ZNF107	7	64167657	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	110	64167657	94971006	3072	56903											
ZNF273	10793	broad.mit.edu	37	chr7	64389307	64389307	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccttactcgacataagaAaattcatactggagagaaac	19	8	6	8	1	1	2	1	0	0	2	2	5	1	3	1	1	4	0	1	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:64389307A>C	uc003tto.2	+	4	1677	c.1601A>C	c.(1600-1602)AAA>ACA	p.K534T	ZNF273_uc003ttl.2_Missense_Mutation_p.K469T|ZNF273_uc003ttn.2_Missense_Mutation_p.K469T	NM_021148	NP_066971	Q14593	ZN273_HUMAN	zinc finger protein 273	534	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(55;0.0295)|all_lung(88;0.0691)				CGACATAAGAAAATTCATACT	0.373													39	70					0	0	1	0	0		C	64389307	C	C	64389307	3	2	89	1	0	0	0	0	1	0	0	0	17833	14	1	5	1615	5	ZNF273	7	64389307	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	221650	64389307	94749356	3073	56904											
ZNF117	51351	broad.mit.edu	37	chr7	64439395	64439395	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctcttcagtatgaattCtcttatgtctaataaggtgt	9	19	7	6	0	4	1	1	1	3	0	6	1	4	1	0	1	0	2	0	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:64439395C>A	uc003ttr.2	-	4	1839	c.554G>T	c.(553-555)AGA>ATA	p.R185I		NM_015852	NP_056936	Q03924	ZN117_HUMAN	zinc finger protein 117	185	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Lung NSC(55;0.0295)|all_lung(88;0.0691)				AGTATGAATTCTCTTATGTCT	0.353													8	67					3.09899e-07	3.24682e-07	1	1	0		A	64439395	A	A	64439395	3	1	89	1	0	0	0	0	1	0	0	0	17742	913	32	5	901	5	ZNF117	7	64439395	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	50088	64439395	94699268	3074	56905											
ZNF92	168374	broad.mit.edu	37	chr7	64852845	64852845	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttagggatgtgaaaataGaattctctctagaggaatgg	14	12	11	4	0	2	3	0	1	2	2	3	5	2	5	0	3	0	0	0	3	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:64852845G>T	uc003ttz.2	+	2	177	c.34G>T	c.(34-36)GAA>TAA	p.E12*	ZNF92_uc003tua.2_Intron|ZNF92_uc010kzu.2_Nonsense_Mutation_p.E12*|ZNF92_uc003tub.2_Intron	NM_152626	NP_689839	Q03936	ZNF92_HUMAN	zinc finger protein 92 isoform 2	12	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(55;0.159)				TGTGAAAATAGAATTCTCTCT	0.353													38	85					1.08052e-11	1.18718e-11	1	1	0		T	64852845	T	T	64852845	4	4	89	1	0	0	0	0	0	1	0	0	18226	943	33	5	40	5	ZNF92	7	64852845	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	413450	64852845	94285818	3075	56906											
ZNF92	168374	broad.mit.edu	37	chr7	64864067	64864067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atacaaatgtgaagaatgtgGcaaagcctttaaccagttct	15	11	8	7	0	1	2	0	1	1	1	1	2	1	2	2	1	3	2	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:64864067G>A	uc003ttz.2	+	4	1183	c.1040G>A	c.(1039-1041)GGC>GAC	p.G347D	ZNF92_uc003tua.2_Missense_Mutation_p.G278D|ZNF92_uc010kzu.2_Missense_Mutation_p.G315D|ZNF92_uc003tub.2_Missense_Mutation_p.G271D	NM_152626	NP_689839	Q03936	ZNF92_HUMAN	zinc finger protein 92 isoform 2	347	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(55;0.159)				GAAGAATGTGGCAAAGCCTTT	0.348													13	36					0	0	1	0	0		A	64864067	A	A	64864067	3	1	89	1	0	0	0	0	1	0	0	0	18226	1203	42	2	1054	2	ZNF92	7	64864067	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11222	64864067	94274596	3076	56907											
ZNF92	168374	broad.mit.edu	37	chr7	64864785	64864785	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actaaagagaaactacaaacCtgaaagatgtgacaatgatt	20	8	7	6	0	0	5	0	3	0	2	0	6	0	5	1	0	3	0	1	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:64864785C>T	uc003ttz.2	+	4	1901	c.1758C>T	c.(1756-1758)ACC>ACT	p.T586T	ZNF92_uc003tua.2_Silent_p.T517T|ZNF92_uc010kzu.2_Silent_p.T554T|ZNF92_uc003tub.2_Silent_p.T510T	NM_152626	NP_689839	Q03936	ZNF92_HUMAN	zinc finger protein 92 isoform 2	586	C2H2-type 16; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(55;0.159)				AACTACAAACCTGAAAGATGT	0.338													13	48					0	0	1	0	0		T	64864785	T	T	64864785	2	4	89	1	0	0	0	0	0	0	0	1	18226	668	24	4		4	ZNF92	7	64864785	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	718	64864785	94273878	3077	56908											
GUSB	2990	broad.mit.edu	37	chr7	65444478	65444478	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaccgctgcagtccagcgTagttgaaaaagtcaaaatat	15	8	9	9	2	1	2	1	1	0	1	2	2	2	2	2	0	2	4	2	0	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:65444478T>G	uc003tun.2	-	4	708	c.632A>C	c.(631-633)TAC>TCC	p.Y211S	GUSB_uc011kdt.1_Intron|GUSB_uc010kzw.1_Missense_Mutation_p.T40P	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	211					glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0						CAGTCCAGCGTAGTTGAAAAA	0.537													31	60					0	0	1	0	0		G	65444478	G	G	65444478	3	3	89	1	0	0	0	0	1	0	0	0	6918	1638	57	5	1359	5	GUSB	7	65444478	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	579693	65444478	93694185	3078	56909											
AUTS2	26053	broad.mit.edu	37	chr7	70228040	70228040	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacagccaataccccagccGcagacggagccccaactccg	11	2	9	19	3	0	1	0	0	0	1	1	2	1	2	7	1	5	2	7	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:70228040G>A	uc003tvw.3	+	7	1670	c.927G>A	c.(925-927)CCG>CCA	p.P309P	AUTS2_uc003tvx.3_Silent_p.P309P	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	309										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		TACCCCAGCCGCAGACGGAGC	0.612													32	54					0	0	1	0	0		A	70228040	A	A	70228040	2	1	89	1	0	0	0	0	0	0	0	1	1226	1074	38	1		1	AUTS2	7	70228040	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4783562	70228040	88910623	3079	56910											
AUTS2	26053	broad.mit.edu	37	chr7	70252212	70252212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcacccaactcaatgttcGgccacaaggatggccccagt	11	6	9	15	1	1	0	1	0	0	0	2	1	1	1	4	3	2	2	4	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:70252212G>A	uc003tvw.3	+	18	3069	c.2326G>A	c.(2326-2328)GGC>AGC	p.G776S	AUTS2_uc003tvx.3_Missense_Mutation_p.G752S|AUTS2_uc011keg.1_Missense_Mutation_p.G228S	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	776										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CTCAATGTTCGGCCACAAGGA	0.493													21	33					0	0	1	0	0		A	70252212	A	A	70252212	3	1	89	1	0	0	0	0	1	0	0	0	1226	1116	39	1	2541	1	AUTS2	7	70252212	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24172	70252212	88886451	3080	56911											
WBSCR17	64409	broad.mit.edu	37	chr7	71177108	71177108	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcacaggtcagaggtggAccattaagaactccatcaag	13	7	11	10	0	2	2	2	0	0	2	3	3	3	3	2	3	2	2	2	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:71177108A>G	uc003tvy.2	+	11	1774	c.1774A>G	c.(1774-1776)ACC>GCC	p.T592A	WBSCR17_uc003tvz.2_Missense_Mutation_p.T291A	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	592	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TCAGAGGTGGACCATTAAGAA	0.637													22	45					0	0	1	0	0		G	71177108	G	G	71177108	3	3	89	1	0	0	0	0	1	0	0	0	17290	275	10	3	1816	3	WBSCR17	7	71177108	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	924896	71177108	87961555	3081	56912											
TYW1B	441250	broad.mit.edu	37	chr7	72081692	72081692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggaggcaattagagtgttCgtgttcacatgcaatttcat	11	13	10	7	1	2	1	2	0	0	1	3	2	2	2	0	2	1	4	0	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:72081692C>T	uc011kej.1	-	16	1909	c.1750G>A	c.(1750-1752)GAA>AAA	p.E584K	TYW1B_uc011keh.1_Missense_Mutation_p.E422K|TYW1B_uc011kei.1_Missense_Mutation_p.E210K	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform	584					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						TTAGAGTGTTCGTGTTCACAT	0.473													35	77					0	0	1	0	0		T	72081692	T	T	72081692	3	4	89	1	0	0	0	0	1	0	0	0	16845	893	31	1	385	1	TYW1B	7	72081692	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	904584	72081692	87056971	3082	56913											
BAZ1B	9031	broad.mit.edu	37	chr7	72863979	72863979	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacaaaacaggtggaaggcTttattacactcatcacacaa	17	8	7	9	0	2	1	2	0	0	1	2	2	2	2	0	3	2	1	0	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:72863979T>G	uc003tyc.2	-	15	3966	c.3621A>C	c.(3619-3621)AAA>AAC	p.K1207N		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	1207	PHD-type.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				GGTGGAAGGCTTTATTACACT	0.512													32	39					0	0	1	0	0		G	72863979	G	G	72863979	3	3	89	1	0	0	0	0	1	0	0	0	1331	1606	56	5	850	5	BAZ1B	7	72863979	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	782287	72863979	86274684	3083	56914											
MLXIPL	51085	broad.mit.edu	37	chr7	73008305	73008305	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagctggcgtagggagtTcaggacagctgggtgggaga	8	6	19	8	1	1	1	1	0	0	1	1	4	1	3	1	5	2	4	1	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:73008305T>C	uc003tyn.1	-	17	2497	c.2449A>G	c.(2449-2451)AAC>GAC	p.N817D	MLXIPL_uc003tyj.1_Missense_Mutation_p.N196D|MLXIPL_uc003tyk.1_Missense_Mutation_p.N796D|MLXIPL_uc003tyl.1_Missense_Mutation_p.N815D|MLXIPL_uc003tym.1_Missense_Mutation_p.N798D|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_3'UTR	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	817					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				CGTAGGGAGTTCAGGACAGCT	0.602													18	28					0	0	1	0	0		C	73008305	C	C	73008305	3	2	89	1	0	0	0	0	1	0	0	0	9655	1783	62	3	113	3	MLXIPL	7	73008305	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	144326	73008305	86130358	3084	56915											
WBSCR28	135886	broad.mit.edu	37	chr7	73279635	73279635	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgtggccatctggacaGatctgtttttgtcatgtctg	5	17	11	8	0	5	1	1	0	4	1	5	2	5	2	1	2	0	1	1	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:73279635G>T	uc003tzk.2	+	2	421	c.385G>T	c.(385-387)GAT>TAT	p.D129Y	RFC2_uc011kfa.1_Intron|WBSCR28_uc003tzl.2_Missense_Mutation_p.D28Y	NM_182504	NP_872310	Q6UE05	WBS28_HUMAN	hypothetical protein LOC135886	129						integral to membrane				breast(1)	1		Lung NSC(55;0.159)				CATCTGGACAGATCTGTTTTT	0.612													17	39					2.35188e-11	2.57851e-11	1	1	0		T	73279635	T	T	73279635	3	4	89	1	0	0	0	0	1	0	0	0	17293	942	33	5	391	5	WBSCR28	7	73279635	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	271330	73279635	85859028	3085	56916											
EIF4H	7458	broad.mit.edu	37	chr7	73604598	73604598	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggtagctctcgagaatCtagaggtggatgggattccc	10	10	14	7	1	2	2	0	0	2	2	4	5	3	4	1	4	1	2	1	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:73604598C>A	uc003uad.1	+	5	439	c.431C>A	c.(430-432)TCT>TAT	p.S144Y	RFC2_uc011kfa.1_Intron|EIF4H_uc011kfg.1_3'UTR|EIF4H_uc010lbm.2_Intron|EIF4H_uc003uae.1_Intron|EIF4H_uc003uaf.1_Intron|MIR590_hsa-mir-590|MI0003602_5'Flank	NM_022170	NP_071496	Q15056	IF4H_HUMAN	eukaryotic translation initiation factor 4H	144	HHV-1 Vhs binding site.				interspecies interaction between organisms|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0						TCTCGAGAATCTAGAGGTGGA	0.413													24	52					4.59853e-10	4.97375e-10	1	1	0		A	73604598	A	A	73604598	3	1	89	1	0	0	0	0	1	0	0	0	5047	913	32	5	449	5	EIF4H	7	73604598	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	324963	73604598	85534065	3086	56917											
GTF2IRD1	9569	broad.mit.edu	37	chr7	73960133	73960133	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagctgctcttcaacacaCgatacggtgagcaagaagtg	12	8	12	9	2	2	2	1	1	1	1	2	4	2	3	0	2	5	3	0	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:73960133C>T	uc003uaq.2	+	16	2119	c.1726C>T	c.(1726-1728)CGA>TGA	p.R576*	GTF2IRD1_uc010lbq.2_Nonsense_Mutation_p.R608*|GTF2IRD1_uc003uap.2_Nonsense_Mutation_p.R576*|GTF2IRD1_uc003uar.1_Nonsense_Mutation_p.R576*	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	576	GTF2I-like 3.					nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CTTCAACACACGATACGGTGA	0.622													14	22					0	0	1	0	0		T	73960133	T	T	73960133	4	4	89	1	0	0	0	0	0	1	0	0	6884	528	19	1	1784	1	GTF2IRD1	7	73960133	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	355535	73960133	85178530	3087	56918											
GTF2IRD1	9569	broad.mit.edu	37	chr7	74015485	74015485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taacccggattcagtggcatCggccaaccagatctcactcg	10	8	9	14	3	2	1	2	0	1	1	5	2	2	2	3	3	2	1	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:74015485C>T	uc003uaq.2	+	26	3182	c.2789C>T	c.(2788-2790)TCG>TTG	p.S930L	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.S947L|GTF2IRD1_uc003uap.2_Missense_Mutation_p.S915L|GTF2IRD1_uc003uar.1_Missense_Mutation_p.S915L	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	930	Ser-rich.			Missing: Cytoplasmic localization.		nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						TCAGTGGCATCGGCCAACCAG	0.463													4	12					0	0	1	0	0		T	74015485	T	T	74015485	3	4	89	1	0	0	0	0	1	0	0	0	6884	893	31	1	2887	1	GTF2IRD1	7	74015485	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	55352	74015485	85123178	3088	56919											
POM121C	100101267	broad.mit.edu	37	chr7	75052307	75052307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggttggaggtgccttggtgtCagtggctggtaccatggatg	5	12	18	6	0	1	0	1	0	0	0	1	2	1	2	2	7	2	3	2	7	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:75052307C>T	uc003udk.3	-	13	2113	c.1228G>A	c.(1228-1230)GAC>AAC	p.D410N		NM_001099415	NP_001092885	A8CG34	P121C_HUMAN	POM121 membrane glycoprotein (rat)-like	652	Pore side (Potential).				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						GCCTTGGTGTCAGTGGCTGGT	0.627													21	34					0	0	1	0	0		T	75052307	T	T	75052307	3	4	89	1	0	0	0	0	1	0	0	0	12259	826	29	4	1747	4	POM121C	7	75052307	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1036822	75052307	84086356	3089	56920											
CCDC146	57639	broad.mit.edu	37	chr7	76916866	76916866	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaaaactcagggctgcaAgcaggacacactgctcttag	13	6	10	12	0	2	0	1	0	1	0	2	1	2	1	0	2	5	5	0	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:76916866A>C	uc003uga.2	+	17	2514	c.2387A>C	c.(2386-2388)AAG>ACG	p.K796T	CCDC146_uc010ldp.2_Missense_Mutation_p.K510T|CCDC146_uc003ugc.2_Missense_Mutation_p.K133T	NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	796	Potential.									ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				CAGGGCTGCAAGCAGGACACA	0.522													11	40					0	0	1	0	0		C	76916866	C	C	76916866	3	2	89	1	0	0	0	0	1	0	0	0	2783	72	3	5	2449	5	CCDC146	7	76916866	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1864559	76916866	82221797	3090	56921											
CCDC146	57639	broad.mit.edu	37	chr7	76922474	76922474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaatggttgaaagtccttcGagatgaagaaatgcacgcct	14	9	11	7	2	0	5	0	2	0	3	2	6	1	5	2	1	1	2	2	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:76922474G>A	uc003uga.2	+	18	2748	c.2621G>A	c.(2620-2622)CGA>CAA	p.R874Q	CCDC146_uc010ldp.2_Missense_Mutation_p.R588Q|CCDC146_uc003ugc.2_Missense_Mutation_p.R211Q	NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	874										ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				AAAGTCCTTCGAGATGAAGAA	0.453													43	106					0	0	1	0	0		A	76922474	A	A	76922474	3	1	89	1	0	0	0	0	1	0	0	0	2783	1058	37	1	2687	1	CCDC146	7	76922474	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5608	76922474	82216189	3091	56922											
PTPN12	5782	broad.mit.edu	37	chr7	77268548	77268548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactgtaggttttggtaatcGatgtggaaaacccaaaggac	13	10	11	7	1	0	0	0	0	0	0	1	3	0	2	1	4	1	3	1	4	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:77268548G>A	uc003ugh.2	+	18	2385	c.2294G>A	c.(2293-2295)CGA>CAA	p.R765Q	PTPN12_uc011kgp.1_Missense_Mutation_p.R646Q|PTPN12_uc011kgq.1_Missense_Mutation_p.R635Q|PTPN12_uc010lds.2_Missense_Mutation_p.R497Q	NM_002835	NP_002826	Q05209	PTN12_HUMAN	protein tyrosine phosphatase, non-receptor type	765						soluble fraction	non-membrane spanning protein tyrosine phosphatase activity|SH3 domain binding			ovary(1)|breast(1)|pancreas(1)	3						TTTGGTAATCGATGTGGAAAA	0.388													19	45					0	0	1	0	0		A	77268548	A	A	77268548	3	1	89	1	0	0	0	0	1	0	0	0	12804	1058	37	1	2364	1	PTPN12	7	77268548	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	346074	77268548	81870115	3092	56923											
TMEM60	85025	broad.mit.edu	37	chr7	77423307	77423307	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagtctctcacaaaaaaGacattatatccgagttctgt	14	12	6	9	1	4	1	2	0	2	1	6	2	5	1	1	0	0	1	1	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:77423307G>T	uc003ugn.2	-	2	611	c.384C>A	c.(382-384)GTC>GTA	p.V128V		NM_032936	NP_116325	Q9H2L4	TMM60_HUMAN	transmembrane protein 60	128	Helical; (Potential).					integral to membrane					0						TCACAAAAAAGACATTATATC	0.383													30	64					2.2171e-23	2.65456e-23	1	1	0		T	77423307	T	T	77423307	2	4	89	1	0	0	0	0	0	0	0	1	16212	929	33	5		5	TMEM60	7	77423307	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	154759	77423307	81715356	3093	56924											
MAGI2	9863	broad.mit.edu	37	chr7	77789394	77789394	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagctgatgatgacaaagccGaagccctcattctctttgcg	10	10	10	11	2	2	3	1	3	1	0	3	5	2	3	2	0	4	1	2	0	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:77789394G>A	uc003ugx.2	-	16	3047	c.2793C>T	c.(2791-2793)TTC>TTT	p.F931F	MAGI2_uc003ugy.2_Silent_p.F917F|MAGI2_uc010ldx.1_Silent_p.F524F	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	931	PDZ 5.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TGACAAAGCCGAAGCCCTCAT	0.517													29	53					0	0	1	0	0		A	77789394	A	A	77789394	2	1	89	1	0	0	0	0	0	0	0	1	9209	1049	37	1		1	MAGI2	7	77789394	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	366087	77789394	81349269	3094	56925											
MAGI2	9863	broad.mit.edu	37	chr7	77789413	77789413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaagccctcattctctttgCggtgaatgaccacatcactg	9	11	8	13	2	3	2	2	2	1	0	4	3	3	2	2	1	2	0	2	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:77789413C>T	uc003ugx.2	-	16	3028	c.2774G>A	c.(2773-2775)CGC>CAC	p.R925H	MAGI2_uc003ugy.2_Missense_Mutation_p.R911H|MAGI2_uc010ldx.1_Missense_Mutation_p.R518H	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	925	PDZ 5.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				ATTCTCTTTGCGGTGAATGAC	0.532													22	51					0	0	1	0	0		T	77789413	T	T	77789413	3	4	89	1	0	0	0	0	1	0	0	0	9209	768	27	1	1621	1	MAGI2	7	77789413	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19	77789413	81349250	3095	56926											
MAGI2	9863	broad.mit.edu	37	chr7	77830508	77830508	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttttccatggagaaaagaAacctgtaataaagaaaacaa	21	8	7	5	0	0	3	0	0	0	3	1	4	1	3	2	1	2	2	2	1	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:77830508A>C	uc003ugx.2	-	11	2304	c.2050T>G	c.(2050-2052)TTC>GTC	p.F684V	MAGI2_uc003ugy.2_Missense_Mutation_p.F684V|MAGI2_uc010ldx.1_Missense_Mutation_p.F293V|MAGI2_uc010ldy.1_Missense_Mutation_p.F293V	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	684						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				GGAGAAAAGAAACCTGTAATA	0.264													15	39					0	0	1	0	0		C	77830508	C	C	77830508	3	2	89	1	0	0	0	0	1	0	0	0	9209	14	1	5	2365	5	MAGI2	7	77830508	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	41095	77830508	81308155	3096	56927											
SEMA3C	10512	broad.mit.edu	37	chr7	80418725	80418725	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaatacgaacaatcaaaggCcttttgtggattgggtagat	13	11	10	7	1	1	1	1	0	0	1	1	3	1	2	2	3	2	1	2	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:80418725C>T	uc003uhj.2	-	12	1813	c.1251G>A	c.(1249-1251)AGG>AGA	p.R417R	SEMA3C_uc011kgw.1_Silent_p.R435R	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	417	Sema.				immune response|response to drug	membrane	receptor activity			ovary(1)	1						CAATCAAAGGCCTTTTGTGGA	0.448													42	88					0	0	1	0	0		T	80418725	T	T	80418725	2	4	89	1	0	0	0	0	0	0	0	1	14051	738	26	2		2	SEMA3C	7	80418725	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2588217	80418725	78719938	3097	56928											
PCLO	27445	broad.mit.edu	37	chr7	82390067	82390067	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcacctttttttgggtaGaaatattcatcacatatatt	12	18	5	6	0	3	2	3	1	0	1	3	2	3	2	1	1	0	1	1	1	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:82390067G>T	uc003uhx.2	-	24	15465	c.15176C>A	c.(15175-15177)TCT>TAT	p.S5059Y		NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4982	C2 2.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTTTTGGGTAGAAATATTCAT	0.299													14	28					1.36491e-13	1.52772e-13	1	1	0		T	82390067	T	T	82390067	3	4	89	1	0	0	0	0	1	0	0	0	11602	942	33	5	260	5	PCLO	7	82390067	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1971342	82390067	76748596	3098	56929											
PCLO	27445	broad.mit.edu	37	chr7	82578855	82578855	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgttggactcagaggCttggggtcagacatagaacg	9	10	14	8	1	3	3	2	0	1	3	3	4	3	4	0	4	2	3	0	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:82578855C>T	uc003uhx.2	-	6	11338	c.11049G>A	c.(11047-11049)AAG>AAA	p.K3683K	PCLO_uc003uhv.2_Silent_p.K3683K|PCLO_uc010lec.2_Silent_p.K648K	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3614					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GACTCAGAGGCTTGGGGTCAG	0.473													86	173					0	0	1	0	0		T	82578855	T	T	82578855	2	4	89	1	0	0	0	0	0	0	0	1	11602	796	28	2		2	PCLO	7	82578855	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	188788	82578855	76559808	3099	56930											
PCLO	27445	broad.mit.edu	37	chr7	82579967	82579967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttatactggtagatctgccGaatcttttgctcctccagct	7	15	8	11	1	2	1	0	0	2	1	4	2	4	1	3	1	4	4	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:82579967G>A	uc003uhx.2	-	6	10226	c.9937C>T	c.(9937-9939)CGG>TGG	p.R3313W	PCLO_uc003uhv.2_Missense_Mutation_p.R3313W|PCLO_uc010lec.2_Missense_Mutation_p.R278W	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3244	Gln-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TAGATCTGCCGAATCTTTTGC	0.493													11	84					0	0	1	0	0		A	82579967	A	A	82579967	3	1	89	1	0	0	0	0	1	0	0	0	11602	1057	37	1	5588	1	PCLO	7	82579967	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1112	82579967	76558696	3100	56931											
PCLO	27445	broad.mit.edu	37	chr7	82583601	82583601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgatgaagaaatttcctcaGaatcttcaaatttagttatc	14	16	5	6	0	3	4	2	2	1	2	5	4	4	4	1	0	0	1	1	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:82583601G>A	uc003uhx.2	-	5	6957	c.6668C>T	c.(6667-6669)TCT>TTT	p.S2223F	PCLO_uc003uhv.2_Missense_Mutation_p.S2223F|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2154					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AATTTCCTCAGAATCTTCAAA	0.403													8	25					0	0	1	0	0		A	82583601	A	A	82583601	3	1	89	1	0	0	0	0	1	0	0	0	11602	942	33	4	8861	4	PCLO	7	82583601	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3634	82583601	76555062	3101	56932											
PCLO	27445	broad.mit.edu	37	chr7	82764042	82764042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtggaaattaaatttgatgCctggctgaagattgatgctc	12	13	11	5	0	0	4	0	3	0	1	1	5	0	5	1	2	2	2	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:82764042C>T	uc003uhx.2	-	3	3113	c.2824G>A	c.(2824-2826)GCA>ACA	p.A942T	PCLO_uc003uhv.2_Missense_Mutation_p.A942T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	888	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AAATTTGATGCCTGGCTGAAG	0.512													14	33					0	0	1	0	0		T	82764042	T	T	82764042	3	4	89	1	0	0	0	0	1	0	0	0	11602	739	26	2	12713	2	PCLO	7	82764042	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	180441	82764042	76374621	3102	56933											
PCLO	27445	broad.mit.edu	37	chr7	82764221	82764221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtttggccagcggtaggtCgtgggccagggggtgttggt	4	10	20	7	2	0	0	0	0	0	0	1	0	0	0	2	7	1	3	2	7	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:82764221C>T	uc003uhx.2	-	3	2934	c.2645G>A	c.(2644-2646)CGA>CAA	p.R882Q	PCLO_uc003uhv.2_Missense_Mutation_p.R882Q	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	828	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGCGGTAGGTCGTGGGCCAGG	0.517													91	227					0	0	1	0	0		T	82764221	T	T	82764221	3	4	89	1	0	0	0	0	1	0	0	0	11602	884	31	1	12892	1	PCLO	7	82764221	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	179	82764221	76374442	3103	56934											
SEMA3E	9723	broad.mit.edu	37	chr7	83032082	83032082	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacacatatagcatgccctcGaaaaatattactgaaaaata	19	9	5	8	1	0	1	0	1	0	0	1	3	0	1	1	0	3	1	1	0	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:83032082G>A	uc003uhy.1	-	10	1475	c.1009C>T	c.(1009-1011)CGA>TGA	p.R337*		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	337	Sema.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				GCATGCCCTCGAAAAATATTA	0.403													13	29					0	0	1	0	0		A	83032082	A	A	83032082	4	1	89	1	0	0	0	0	0	1	0	0	14053	1066	37	1	1350	1	SEMA3E	7	83032082	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	267861	83032082	76106581	3104	56935											
SEMA3A	10371	broad.mit.edu	37	chr7	83606510	83606510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatatcttgtcgtcttgtgCgtctgaagcaattacattta	9	18	7	7	2	3	1	0	1	3	0	4	1	3	1	0	0	3	1	0	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:83606510C>T	uc003uhz.2	-	15	1970	c.1655G>A	c.(1654-1656)CGC>CAC	p.R552H		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	552					axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						TCGTCTTGTGCGTCTGAAGCA	0.328													23	81					0	0	1	0	0		T	83606510	T	T	83606510	3	4	89	1	0	0	0	0	1	0	0	0	14049	768	27	1	672	1	SEMA3A	7	83606510	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	574428	83606510	75532153	3105	56936											
SEMA3A	10371	broad.mit.edu	37	chr7	83764139	83764139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccttgatattaaccaggtCgaatgaaaatatgtgatcct	14	13	7	7	1	0	3	0	3	0	0	3	4	2	3	3	1	1	0	3	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:83764139C>T	uc003uhz.2	-	2	556	c.241G>A	c.(241-243)GAC>AAC	p.D81N		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	81	Sema.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						TTAACCAGGTCGAATGAAAAT	0.358													30	49					0	0	1	0	0		T	83764139	T	T	83764139	3	4	89	1	0	0	0	0	1	0	0	0	14049	884	31	1	2138	1	SEMA3A	7	83764139	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	157629	83764139	75374524	3106	56937											
GRM3	2913	broad.mit.edu	37	chr7	86416107	86416107	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccagcctgtccgccagttCgaccgctacttccagagcct	6	9	8	18	3	0	1	0	0	0	1	4	2	3	1	7	0	3	2	7	0	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:86416107C>T	uc003uid.2	+	3	2098	c.999C>T	c.(997-999)TTC>TTT	p.F333F	GRM3_uc010lef.2_Silent_p.F331F|GRM3_uc010leg.2_Silent_p.F205F|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	333	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TCCGCCAGTTCGACCGCTACT	0.627													13	29					0	0	1	0	0		T	86416107	T	T	86416107	2	4	89	1	0	0	0	0	0	0	0	1	6814	883	31	1		1	GRM3	7	86416107	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2651968	86416107	72722556	3107	56938											
GRM3	2913	broad.mit.edu	37	chr7	86468223	86468223	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttggagatggaatggggCgatacaacgtgttcaatttc	10	13	12	6	2	1	1	1	0	0	1	2	4	1	2	0	4	2	1	0	4	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:86468223C>T	uc003uid.2	+	4	2492	c.1393C>T	c.(1393-1395)CGA>TGA	p.R465*	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Nonsense_Mutation_p.R337*|GRM3_uc010leh.2_Nonsense_Mutation_p.R57*	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	465	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TGGAATGGGGCGATACAACGT	0.383													16	27					0	0	1	0	0		T	86468223	T	T	86468223	4	4	89	1	0	0	0	0	0	1	0	0	6814	760	27	1	1403	1	GRM3	7	86468223	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	52116	86468223	72670440	3108	56939											
KIAA1324L	222223	broad.mit.edu	37	chr7	86521160	86521160	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagccgggagttcacactcTtttgagttagtcgtcattac	8	13	10	10	2	3	1	2	1	1	0	4	2	3	2	1	1	2	3	1	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:86521160T>G	uc011kha.1	-	21	3095	c.2910A>C	c.(2908-2910)AAA>AAC	p.K970N	KIAA1324L_uc003uif.1_Missense_Mutation_p.K730N|KIAA1324L_uc011kgz.1_Missense_Mutation_p.K856N|KIAA1324L_uc003uie.2_Missense_Mutation_p.K803N	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	970	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					GTTCACACTCTTTTGAGTTAG	0.318													24	35					0	0	1	0	0		G	86521160	G	G	86521160	3	3	89	1	0	0	0	0	1	0	0	0	8240	1606	56	5	187	5	KIAA1324L	7	86521160	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	52937	86521160	72617503	3109	56940											
CROT	54677	broad.mit.edu	37	chr7	87005144	87005144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcatctccttgccctttagGcacgagaatatctgattggt	9	14	8	10	1	3	2	1	1	2	1	4	3	3	2	2	2	1	1	2	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:87005144G>A	uc003uit.2	+	9	996	c.751G>A	c.(751-753)GCA>ACA	p.A251T	CROT_uc003uiu.2_Missense_Mutation_p.A279T	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	251					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	TGCCCTTTAGGCACGAGAATA	0.353													7	57					0	0	1	0	0		A	87005144	A	A	87005144	3	1	89	1	0	0	0	0	1	0	0	0	3897	1217	42	2	865	2	CROT	7	87005144	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	483984	87005144	72133519	3110	56941											
CROT	54677	broad.mit.edu	37	chr7	87020970	87020970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggccgtacagagactatgcGatcatgcacagttgaagcag	12	8	12	9	2	1	2	1	1	0	1	1	4	1	2	1	1	4	4	1	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:87020970G>A	uc003uit.2	+	14	1612	c.1367G>A	c.(1366-1368)CGA>CAA	p.R456Q	CROT_uc003uiu.2_Missense_Mutation_p.R484Q	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	456					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	GAGACTATGCGATCATGCACA	0.388													14	65					0	0	1	0	0		A	87020970	A	A	87020970	3	1	89	1	0	0	0	0	1	0	0	0	3897	1058	37	1	1501	1	CROT	7	87020970	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	15826	87020970	72117693	3111	56942											
ABCB4	5244	broad.mit.edu	37	chr7	87092105	87092105	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtttcctgcagtatcaacAaatttgtcagtcatctctcc	11	14	5	11	0	4	0	3	0	1	0	7	0	6	0	2	0	2	3	2	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:87092105A>C	uc003uiv.1	-	4	331	c.255T>G	c.(253-255)TTT>TTG	p.F85L	ABCB4_uc003uiw.1_Missense_Mutation_p.F85L|ABCB4_uc003uix.1_Missense_Mutation_p.F85L|ABCB4_uc003uiy.2_Missense_Mutation_p.F85L	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	85	Extracellular (By similarity).|ABC transmembrane type-1 1.				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CAGTATCAACAAATTTGTCAG	0.388													6	77					0	0	1	0	0		C	87092105	C	C	87092105	3	2	89	1	0	0	0	0	1	0	0	0	43	127	5	5	3705	5	ABCB4	7	87092105	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	71135	87092105	72046558	3112	56943											
ABCB1	5243	broad.mit.edu	37	chr7	87144576	87144576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccaaggggtcgtagaaccGctccaggagctggaccactg	9	6	14	12	2	0	1	0	0	0	1	2	3	1	3	4	4	3	3	4	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:87144576G>A	uc003uiz.1	-	26	3671	c.3253C>T	c.(3253-3255)CGG>TGG	p.R1085W	ABCB1_uc011khc.1_Missense_Mutation_p.R1021W	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	1085	Cytoplasmic (Potential).|ABC transporter 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity	p.R1085W(1)		ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	TCGTAGAACCGCTCCAGGAGC	0.527													23	49					0	0	1	0	0		A	87144576	A	A	87144576	3	1	89	1	0	0	0	0	1	0	0	0	40	1086	38	1	605	1	ABCB1	7	87144576	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	52471	87144576	71994087	3113	56944											
ABCB1	5243	broad.mit.edu	37	chr7	87150189	87150189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttttctattgcttcagtagCgatctgtaacagacagcacc	10	13	8	10	1	3	1	1	0	2	1	3	2	3	1	1	0	4	5	1	0	3	7	rs147487745		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:87150189C>T	uc003uiz.1	-	23	3107	c.2689G>A	c.(2689-2691)GCT>ACT	p.A897T	ABCB1_uc011khc.1_Missense_Mutation_p.A833T	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	897	ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	GCTTCAGTAGCGATCTGTAAC	0.368													22	36					0	0	1	0	0		T	87150189	T	T	87150189	3	4	89	1	0	0	0	0	1	0	0	0	40	768	27	1	1181	1	ABCB1	7	87150189	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5613	87150189	71988474	3114	56945											
ABCB1	5243	broad.mit.edu	37	chr7	87178674	87178674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcactgaccttatccagaGccacctgaaccactgcttcg	9	9	6	17	1	1	3	1	2	0	1	3	3	2	3	6	0	3	1	6	0	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:87178674G>A	uc003uiz.1	-	15	2133	c.1715C>T	c.(1714-1716)GCT>GTT	p.A572V	ABCB1_uc011khc.1_Missense_Mutation_p.A508V	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	572	ABC transporter 1.|Cytoplasmic (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	CTTATCCAGAGCCACCTGAAC	0.463													18	34					0	0	1	0	0		A	87178674	A	A	87178674	3	1	89	1	0	0	0	0	1	0	0	0	40	971	34	2	2187	2	ABCB1	7	87178674	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	28485	87178674	71959989	3115	56946											
RUNDC3B	154661	broad.mit.edu	37	chr7	87436797	87436797	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaatgctgttgccttggatAcgttgctttaccgaaaacac	10	13	8	10	2	1	0	1	0	0	0	1	2	1	1	2	1	6	4	2	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:87436797A>G	uc003ujb.2	+	10	1528	c.1117A>G	c.(1117-1119)ACG>GCG	p.T373A	RUNDC3B_uc011khd.1_Missense_Mutation_p.T356A|RUNDC3B_uc011khe.1_Missense_Mutation_p.T356A|RUNDC3B_uc003ujc.2_Intron|RUNDC3B_uc003ujd.2_Intron	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	373										skin(1)	1	Esophageal squamous(14;0.00164)					TGCCTTGGATACGTTGCTTTA	0.378													31	62					0	0	1	0	0		G	87436797	G	G	87436797	3	3	89	1	0	0	0	0	1	0	0	0	13770	391	14	3	1155	3	RUNDC3B	7	87436797	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	258123	87436797	71701866	3116	56947											
RUNDC3B	154661	broad.mit.edu	37	chr7	87459269	87459269	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtggcaagttacaagtctcTaacaagcttaaaatctaatg	16	11	7	7	0	2	0	0	0	2	0	3	0	2	0	0	1	3	3	0	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:87459269T>G	uc003ujb.2	+	12	1757	c.1346T>G	c.(1345-1347)CTA>CGA	p.L449R	RUNDC3B_uc011khe.1_Missense_Mutation_p.L432R|RUNDC3B_uc003ujc.2_Missense_Mutation_p.L383R|RUNDC3B_uc003ujd.2_Missense_Mutation_p.L305R	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	449										skin(1)	1	Esophageal squamous(14;0.00164)					TACAAGTCTCTAACAAGCTTA	0.373													27	74					0	0	1	0	0		G	87459269	G	G	87459269	3	3	89	1	0	0	0	0	1	0	0	0	13770	1522	53	5	1392	5	RUNDC3B	7	87459269	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	22472	87459269	71679394	3117	56948											
ADAM22	53616	broad.mit.edu	37	chr7	87759747	87759747	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtacataccaatacctatgcGaaatctgtggtgaacatggc	13	10	9	9	1	1	1	0	1	1	0	1	2	1	1	2	2	5	1	2	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:87759747G>A	uc003ujn.2	+	10	877	c.798G>A	c.(796-798)GCG>GCA	p.A266A	ADAM22_uc003ujj.1_Silent_p.A266A|ADAM22_uc003ujk.1_Silent_p.A266A|ADAM22_uc003ujl.1_Silent_p.A266A|ADAM22_uc003ujm.2_Silent_p.A266A|ADAM22_uc003ujo.2_Silent_p.A266A|ADAM22_uc003ujp.1_Silent_p.A318A	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	266	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			ATACCTATGCGAAATCTGTGG	0.353													25	74					0	0	1	0	0		A	87759747	A	A	87759747	2	1	89	1	0	0	0	0	0	0	0	1	244	1045	37	1		1	ADAM22	7	87759747	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	300478	87759747	71378916	3118	56949											
ADAM22	53616	broad.mit.edu	37	chr7	87811315	87811315	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaatcagaggcaaaagatTtagacctcggtctaattcaa	17	9	8	7	1	3	3	2	0	1	3	4	4	3	3	1	2	0	1	1	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:87811315T>G	uc003ujn.2	+	29	2631	c.2552T>G	c.(2551-2553)TTT>TGT	p.F851C	ADAM22_uc003ujk.1_Missense_Mutation_p.F851C|ADAM22_uc003ujl.1_Missense_Mutation_p.F815C|ADAM22_uc003ujm.2_Missense_Mutation_p.F815C|ADAM22_uc003ujo.2_Missense_Mutation_p.F815C|ADAM22_uc003ujp.1_Missense_Mutation_p.F903C	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	851	Cytoplasmic (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			GGCAAAAGATTTAGACCTCGG	0.383													27	56					0	0	1	0	0		G	87811315	G	G	87811315	3	3	89	1	0	0	0	0	1	0	0	0	244	1841	64	5	2666	5	ADAM22	7	87811315	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	51568	87811315	71327348	3119	56950											
SRI	6717	broad.mit.edu	37	chr7	87840206	87840206	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaaggatacatccagcatTgaaaccataagccggcaagt	16	7	9	9	1	0	1	0	1	0	0	1	2	1	2	3	2	4	3	3	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:87840206T>C	uc003ujq.1	-	4	292	c.240A>G	c.(238-240)TCA>TCG	p.S80S	SRI_uc011khg.1_Silent_p.S80S|SRI_uc003ujr.1_Silent_p.S65S|SRI_uc011khh.1_Silent_p.S65S|SRI_uc010lej.1_Silent_p.S80S	NM_003130	NP_003121	P30626	SORCN_HUMAN	sorcin isoform a	80	EF-hand 2.				heart development|intracellular sequestering of iron ion|muscle organ development|regulation of action potential|regulation of heart contraction|regulation of striated muscle contraction|signal transduction	sarcoplasmic reticulum membrane	calcium channel regulator activity|calcium ion binding|receptor binding			upper_aerodigestive_tract(1)	1	Esophageal squamous(14;0.00202)					CATCCAGCATTGAAACCATAA	0.294													39	34					0	0	1	0	0		C	87840206	C	C	87840206	2	2	89	1	0	0	0	0	0	0	0	1	15174	1799	63	3		3	SRI	7	87840206	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	28891	87840206	71298457	3120	56951											
STEAP4	79689	broad.mit.edu	37	chr7	87912071	87912071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaccaagccaagctgctttCggcaaagcatccagtggtca	11	8	9	13	1	1	0	1	0	0	0	3	0	2	0	3	2	5	4	3	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:87912071C>T	uc003ujs.2	-	3	974	c.869G>A	c.(868-870)CGA>CAA	p.R290Q	STEAP4_uc010lek.2_Intron|STEAP4_uc003ujt.2_Missense_Mutation_p.R290Q	NM_024636	NP_078912	Q687X5	STEA4_HUMAN	tumor necrosis factor, alpha-induced protein 9	290	Ferric oxidoreductase.				fat cell differentiation|ion transport|iron ion homeostasis	Golgi membrane|integral to membrane|plasma membrane	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	Esophageal squamous(14;0.00802)					AAGCTGCTTTCGGCAAAGCAT	0.473													23	44					0	0	1	0	0		T	87912071	T	T	87912071	3	4	89	1	0	0	0	0	1	0	0	0	15305	884	31	1	522	1	STEAP4	7	87912071	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	71865	87912071	71226592	3121	56952											
ZNF804B	219578	broad.mit.edu	37	chr7	88962747	88962747	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaactccagcaaggaattTtccccattaagaatggcaga	15	8	8	10	0	0	2	0	0	0	2	2	3	2	3	3	2	3	3	3	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:88962747T>A	uc011khi.1	+	4	989	c.451T>A	c.(451-453)TTC>ATC	p.F151I		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	151						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GCAAGGAATTTTCCCCATTAA	0.398										HNSCC(36;0.09)			21	53					0	0	1	0	0		A	88962747	A	A	88962747	3	1	89	1	0	0	0	0	1	0	0	0	18196	1841	64	5	465	5	ZNF804B	7	88962747	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1050676	88962747	70175916	3122	56953											
ZNF804B	219578	broad.mit.edu	37	chr7	88964416	88964416	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacagtcatgtttgagtaGatattcttcctctttggaca	9	16	7	9	0	3	2	1	1	2	1	5	3	5	3	2	1	0	2	2	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:88964416G>T	uc011khi.1	+	4	2658	c.2120G>T	c.(2119-2121)AGA>ATA	p.R707I		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	707						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TGTTTGAGTAGATATTCTTCC	0.408										HNSCC(36;0.09)			17	37					4.7546e-09	5.08881e-09	1	1	0		T	88964416	T	T	88964416	3	4	89	1	0	0	0	0	1	0	0	0	18196	942	33	5	2134	5	ZNF804B	7	88964416	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1669	88964416	70174247	3123	56954											
ZNF804B	219578	broad.mit.edu	37	chr7	88965794	88965794	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcctacagctacaagcccaGcagcatatgcagaagcaact	15	6	7	13	0	0	1	0	0	0	1	1	1	1	1	2	0	9	5	2	0	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:88965794G>A	uc011khi.1	+	4	4036	c.3498G>A	c.(3496-3498)CAG>CAA	p.Q1166Q		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1166						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TACAAGCCCAGCAGCATATGC	0.448										HNSCC(36;0.09)			29	66					0	0	1	0	0		A	88965794	A	A	88965794	2	1	89	1	0	0	0	0	0	0	0	1	18196	962	34	2		2	ZNF804B	7	88965794	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1378	88965794	70172869	3124	56955											
ZNF804B	219578	broad.mit.edu	37	chr7	88966008	88966008	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctattgctcatctacatcctCtttcacaggcacatttcagt	9	15	4	13	0	5	0	3	0	2	0	6	0	6	0	1	1	2	2	1	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:88966008C>A	uc011khi.1	+	4	4250	c.3712C>A	c.(3712-3714)CTT>ATT	p.L1238I		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1238						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TCTACATCCTCTTTCACAGGC	0.458										HNSCC(36;0.09)			54	122					2.84144e-21	3.36763e-21	1	1	0		A	88966008	A	A	88966008	3	1	89	1	0	0	0	0	1	0	0	0	18196	913	32	5	3726	5	ZNF804B	7	88966008	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	214	88966008	70172655	3125	56956											
STEAP1	26872	broad.mit.edu	37	chr7	89790273	89790273	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaattaaaatagctgctaTtatagcatctctgacttttc	12	15	5	9	0	1	1	0	1	1	0	3	1	1	1	1	0	3	3	1	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:89790273T>G	uc003ujx.2	+	3	439	c.239T>G	c.(238-240)ATT>AGT	p.I80S	STEAP1_uc010lem.2_Missense_Mutation_p.I80S	NM_012449	NP_036581	Q9UHE8	STEA1_HUMAN	six transmembrane epithelial antigen of the	80	Helical; (Potential).				electron transport chain|ion transport|iron ion homeostasis	cell-cell junction|endosome membrane|integral to plasma membrane	channel activity|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	all_hematologic(106;0.112)					ATAGCTGCTATTATAGCATCT	0.403													56	118					0	0	1	0	0		G	89790273	G	G	89790273	3	3	89	1	0	0	0	0	1	0	0	0	15302	1493	52	5	245	5	STEAP1	7	89790273	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	824265	89790273	69348390	3126	56957											
AKAP9	10142	broad.mit.edu	37	chr7	91632062	91632062	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacaacagaactcatggaaaAacttgaggtaaccaagcgag	18	6	9	8	1	1	2	1	1	0	1	1	4	1	3	1	2	6	1	1	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:91632062A>C	uc003ulg.2	+	8	3056	c.2831A>C	c.(2830-2832)AAA>ACA	p.K944T	AKAP9_uc003ule.2_Missense_Mutation_p.K956T|AKAP9_uc003ulf.2_Missense_Mutation_p.K944T|AKAP9_uc003uli.2_Missense_Mutation_p.K569T	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	956	Glu-rich.|Potential.			K -> N (in Ref. 3; BAA78718).	G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CTCATGGAAAAACTTGAGGTA	0.353			T	BRAF	papillary thyroid								35	47					0	0	1	0	0		C	91632062	C	C	91632062	3	2	89	1	0	0	0	0	1	0	0	0	459	14	1	5	2861	5	AKAP9	7	91632062	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1841789	91632062	67506601	3127	56958											
AKAP9	10142	broad.mit.edu	37	chr7	91672072	91672072	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagatgtgcctcctgagattTtgtctaatgaaaggtataca	13	13	9	6	0	1	3	0	2	1	2	2	4	2	3	2	1	2	1	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:91672072T>G	uc003ulg.2	+	20	5374	c.5149T>G	c.(5149-5151)TTG>GTG	p.L1717V	AKAP9_uc003ulf.2_Missense_Mutation_p.L1717V|AKAP9_uc003uli.2_Missense_Mutation_p.L1342V	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1729					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TCCTGAGATTTTGTCTAATGA	0.299			T	BRAF	papillary thyroid								29	63					0	0	1	0	0		G	91672072	G	G	91672072	3	3	89	1	0	0	0	0	1	0	0	0	459	1838	64	5	5227	5	AKAP9	7	91672072	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	40010	91672072	67466591	3128	56959											
AKAP9	10142	broad.mit.edu	37	chr7	91699510	91699510	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcttgtgagtgcagataCttttcaaaaggtgtggcatt	9	15	11	6	0	2	2	1	1	1	1	2	2	2	2	0	2	2	3	0	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:91699510C>A	uc003ulg.2	+	27	6722	c.6497C>A	c.(6496-6498)ACT>AAT	p.T2166N	AKAP9_uc003ulf.2_Intron|AKAP9_uc003uli.2_Missense_Mutation_p.T1789N|AKAP9_uc003ulj.2_Intron	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2178	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AGTGCAGATACTTTTCAAAAG	0.348			T	BRAF	papillary thyroid								36	92					6.90743e-12	7.60866e-12	1	1	0		A	91699510	A	A	91699510	3	1	89	1	0	0	0	0	1	0	0	0	459	565	20	5	6603	5	AKAP9	7	91699510	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27438	91699510	67439153	3129	56960											
AKAP9	10142	broad.mit.edu	37	chr7	91707053	91707053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgccataaaggaatctgatgCcatgtctactcaagaccaac	14	9	7	11	0	3	2	1	1	2	1	3	3	3	3	3	1	4	0	3	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:91707053C>T	uc003ulg.2	+	30	7034	c.6809C>T	c.(6808-6810)GCC>GTC	p.A2270V	AKAP9_uc003ulf.2_Missense_Mutation_p.A2262V|AKAP9_uc003uli.2_Missense_Mutation_p.A1893V|AKAP9_uc003ulj.2_Missense_Mutation_p.A40V	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2282	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GAATCTGATGCCATGTCTACT	0.343			T	BRAF	papillary thyroid								31	83					0	0	1	0	0		T	91707053	T	T	91707053	3	4	89	1	0	0	0	0	1	0	0	0	459	739	26	2	6927	2	AKAP9	7	91707053	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7543	91707053	67431610	3130	56961											
AKAP9	10142	broad.mit.edu	37	chr7	91708440	91708440	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggatcttgaaacccaaatAgaatgtttgatgagtgatca	15	11	10	5	0	2	5	1	4	1	1	2	6	2	6	1	1	1	1	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:91708440A>G	uc003ulg.2	+	31	7218	c.6993A>G	c.(6991-6993)ATA>ATG	p.I2331M	AKAP9_uc003ulf.2_Missense_Mutation_p.I2323M|AKAP9_uc003uli.2_Missense_Mutation_p.I1954M|AKAP9_uc003ulj.2_Missense_Mutation_p.I101M	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2343	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AAACCCAAATAGAATGTTTGA	0.289			T	BRAF	papillary thyroid								25	32					0	0	1	0	0		G	91708440	G	G	91708440	3	3	89	1	0	0	0	0	1	0	0	0	459	410	15	3	7115	3	AKAP9	7	91708440	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1387	91708440	67430223	3131	56962											
PEX1	5189	broad.mit.edu	37	chr7	92143246	92143246	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcctgactacggcatgcatTtctatatttagtctcttcct	8	17	5	11	1	2	1	0	1	2	0	5	1	4	1	2	1	2	2	2	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:92143246T>G	uc003uly.2	-	6	1371	c.1275A>C	c.(1273-1275)GAA>GAC	p.E425D	PEX1_uc011khr.1_Missense_Mutation_p.E217D|PEX1_uc010ley.2_Missense_Mutation_p.E425D|PEX1_uc011khs.1_Missense_Mutation_p.E103D|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	425					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			CGGCATGCATTTCTATATTTA	0.303													40	92					0	0	1	0	0		G	92143246	G	G	92143246	3	3	89	1	0	0	0	0	1	0	0	0	11754	1838	64	5	2652	5	PEX1	7	92143246	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	434806	92143246	66995417	3132	56963											
CDK6	1021	broad.mit.edu	37	chr7	92247479	92247479	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcctgcctgggaagggcAacatctctaggccagtcttc	10	8	11	12	0	2	0	0	0	2	0	4	1	2	1	3	3	3	1	3	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:92247479A>C	uc011khw.1	-	7	1153	c.741T>G	c.(739-741)GTT>GTG	p.V247V	CDK6_uc010lez.2_Silent_p.V247V	NM_001259	NP_001250	Q00534	CDK6_HUMAN	cyclin-dependent kinase 6	247	Protein kinase.				cell dedifferentiation|cell division|G1 phase of mitotic cell cycle|gliogenesis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|negative regulation of osteoblast differentiation|positive regulation of cell-matrix adhesion|positive regulation of fibroblast proliferation|regulation of erythrocyte differentiation|regulation of gene expression|response to virus	cyclin-dependent protein kinase holoenzyme complex|cytosol|nucleus|ruffle	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			central_nervous_system(1)|skin(1)	2	all_cancers(62;8.72e-12)|all_epithelial(64;3.65e-10)|Breast(17;0.000675)|all_lung(186;0.0392)|Lung NSC(181;0.053)|all_neural(327;0.219)|all_hematologic(106;0.237)		STAD - Stomach adenocarcinoma(4;6.16e-07)|GBM - Glioblastoma multiforme(5;1.2e-06)|all cancers(6;3.1e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			TGGGAAGGGCAACATCTCTAG	0.438			T	MLLT10	ALL								10	65					0	0	1	0	0		C	92247479	C	C	92247479	2	2	89	1	0	0	0	0	0	0	0	1	3151	117	5	5		5	CDK6	7	92247479	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	104233	92247479	66891184	3133	56964											
SAMD9L	219285	broad.mit.edu	37	chr7	92762803	92762803	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccaatgttttttcatatcGcaaatccttttctgctaaaa	12	17	3	9	1	2	0	1	0	1	0	4	0	3	0	2	0	2	3	2	0	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:92762803G>A	uc003umh.1	-	5	3698	c.2482C>T	c.(2482-2484)CGA>TGA	p.R828*	SAMD9L_uc003umj.1_Nonsense_Mutation_p.R828*|SAMD9L_uc003umi.1_Nonsense_Mutation_p.R828*|SAMD9L_uc010lfb.1_Nonsense_Mutation_p.R828*|SAMD9L_uc003umk.1_Nonsense_Mutation_p.R828*|SAMD9L_uc010lfc.1_Nonsense_Mutation_p.R828*|SAMD9L_uc010lfd.1_Nonsense_Mutation_p.R828*|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	828										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			TTTTCATATCGCAAATCCTTT	0.358													87	42					0	0	1	0	0		A	92762803	A	A	92762803	4	1	89	1	0	0	0	0	0	1	0	0	13852	1095	38	1	2276	1	SAMD9L	7	92762803	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	515324	92762803	66375860	3134	56965											
SAMD9L	219285	broad.mit.edu	37	chr7	92762825	92762825	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatccttttctgctaaaacGgaatggatggcattttgtag	12	14	9	6	1	1	0	0	0	1	0	2	2	2	2	1	3	2	3	1	3	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:92762825G>A	uc003umh.1	-	5	3676	c.2460C>T	c.(2458-2460)TCC>TCT	p.S820S	SAMD9L_uc003umj.1_Silent_p.S820S|SAMD9L_uc003umi.1_Silent_p.S820S|SAMD9L_uc010lfb.1_Silent_p.S820S|SAMD9L_uc003umk.1_Silent_p.S820S|SAMD9L_uc010lfc.1_Silent_p.S820S|SAMD9L_uc010lfd.1_Silent_p.S820S|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	820										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			CTGCTAAAACGGAATGGATGG	0.378													43	87					0	0	1	0	0		A	92762825	A	A	92762825	2	1	89	1	0	0	0	0	0	0	0	1	13852	1103	39	1		1	SAMD9L	7	92762825	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	22	92762825	66375838	3135	56966											
CCDC132	55610	broad.mit.edu	37	chr7	92923915	92923915	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgtggctacataaaaaaGaaattagaacatggacttac	18	9	8	6	1	0	2	0	0	0	2	1	4	0	3	0	2	3	1	0	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:92923915G>T	uc003umo.2	+	14	1262	c.1134G>T	c.(1132-1134)AAG>AAT	p.K378N	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.K348N|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Missense_Mutation_p.K98N	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	378											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			ACATAAAAAAGAAATTAGAAC	0.264													54	109					1.3268e-25	1.601e-25	1	1	0		T	92923915	T	T	92923915	3	4	89	1	0	0	0	0	1	0	0	0	2770	933	33	5	1230	5	CCDC132	7	92923915	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	161090	92923915	66214748	3136	56967											
COL1A2	1278	broad.mit.edu	37	chr7	94043236	94043236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtggaaaaggtgaacagggtCcccctggtcctccaggcttc	8	8	13	12	0	0	1	0	1	0	0	4	2	3	2	4	5	1	1	4	5	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:94043236C>T	uc003ung.1	+	28	2113	c.1642C>T	c.(1642-1644)CCC>TCC	p.P548S	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	548					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TGAACAGGGTCCCCCTGGTCC	0.448										HNSCC(75;0.22)			14	25					0	0	1	0	0		T	94043236	T	T	94043236	3	4	89	1	0	0	0	0	1	0	0	0	3681	855	30	4	1752	4	COL1A2	7	94043236	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1119321	94043236	65095427	3137	56968											
COL1A2	1278	broad.mit.edu	37	chr7	94057135	94057135	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcttactcctgaaggctCtagaaagaacccagctcgca	11	9	7	14	1	2	3	0	1	2	2	4	3	3	3	3	1	3	3	3	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:94057135C>A	uc003ung.1	+	49	3935	c.3464C>A	c.(3463-3465)TCT>TAT	p.S1155Y	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1155	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CCTGAAGGCTCTAGAAAGAAC	0.522										HNSCC(75;0.22)			21	43					1.96292e-10	2.12899e-10	1	1	0		A	94057135	A	A	94057135	3	1	89	1	0	0	0	0	1	0	0	0	3681	913	32	5	3658	5	COL1A2	7	94057135	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13899	94057135	65081528	3138	56969											
PEG10	23089	broad.mit.edu	37	chr7	94293682	94293682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaccaggtagatccaaccGagccggtgggaggtgcccgc	9	4	14	14	3	0	1	0	0	0	1	1	3	1	2	6	4	3	1	6	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:94293682G>A	uc011kie.1	+	2	1259	c.1042G>A	c.(1042-1044)GAG>AAG	p.E348K		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	272	Necessary for interaction with ALK1.				apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			AGATCCAACCGAGCCGGTGGG	0.622													6	10					0	0	1	0	0		A	94293682	A	A	94293682	3	1	89	1	0	0	0	0	1	0	0	0	11738	1059	37	1	1048	1	PEG10	7	94293682	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	236547	94293682	64844981	3139	56970											
PPP1R9A	55607	broad.mit.edu	37	chr7	94540365	94540365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catctaatcaacagactcccGacagcattgacaaagatggt	15	8	7	11	1	2	3	1	1	1	2	3	4	3	3	1	1	2	1	1	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:94540365G>A	uc003unp.2	+	2	1222	c.940G>A	c.(940-942)GAC>AAC	p.D314N	PPP1R9A_uc010lfj.2_Missense_Mutation_p.D314N|PPP1R9A_uc011kif.1_Missense_Mutation_p.D314N|PPP1R9A_uc003unq.2_Missense_Mutation_p.D314N|PPP1R9A_uc011kig.1_Missense_Mutation_p.D314N	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	314						cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			ACAGACTCCCGACAGCATTGA	0.473										HNSCC(28;0.073)			12	48					0	0	1	0	0		A	94540365	A	A	94540365	3	1	89	1	0	0	0	0	1	0	0	0	12400	1058	37	1	942	1	PPP1R9A	7	94540365	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	246683	94540365	64598298	3140	56971											
PON3	5446	broad.mit.edu	37	chr7	95001600	95001600	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagatccatcaagaagatTtttcctggttcatctggcgc	9	14	8	10	1	4	3	3	0	1	3	6	3	6	3	2	2	0	1	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:95001600T>G	uc003unt.2	-	4	277	c.252A>C	c.(250-252)AAA>AAC	p.K84N	PON1_uc011kih.1_Intron|PON3_uc011kii.1_Missense_Mutation_p.K132N	NM_000940	NP_000931	Q15166	PON3_HUMAN	paraoxonase 3	84					aromatic compound catabolic process|carboxylic acid catabolic process|response to external stimulus	extracellular space	aryldialkylphosphatase activity|arylesterase activity|metal ion binding|protein homodimerization activity			ovary(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0151)			TCAAGAAGATTTTTCCTGGTT	0.363													40	51					0	0	1	0	0		G	95001600	G	G	95001600	3	3	89	1	0	0	0	0	1	0	0	0	12269	1838	64	5	836	5	PON3	7	95001600	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	461235	95001600	64137063	3141	56972											
PDK4	5166	broad.mit.edu	37	chr7	95223071	95223071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccaccaaatccatcaggCtctgtatatacctgtaaaga	14	11	5	11	0	2	1	1	0	1	1	4	1	4	1	4	1	1	3	4	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:95223071C>T	uc003uoa.2	-	3	604	c.284G>A	c.(283-285)AGC>AAC	p.S95N	PDK4_uc003unz.2_5'Flank	NM_002612	NP_002603	Q16654	PDK4_HUMAN	pyruvate dehydrogenase kinase 4 precursor	95					glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity				0	all_cancers(62;1.06e-10)|all_epithelial(64;1.04e-09)|Lung NSC(181;0.128)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0151)			ATCCATCAGGCTCTGTATATA	0.318													26	58					0	0	1	0	0		T	95223071	T	T	95223071	3	4	89	1	0	0	0	0	1	0	0	0	11697	797	28	2	987	2	PDK4	7	95223071	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	221471	95223071	63915592	3142	56973											
PDK4	5166	broad.mit.edu	37	chr7	95224379	95224379	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggtatttactaattgggtCgggaggatatcaatttcctt	10	15	11	5	1	1	0	1	0	0	0	3	3	2	2	1	4	1	1	1	4	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:95224379C>T	uc003uoa.2	-	2	548	c.228G>A	c.(226-228)CCG>CCA	p.P76P	PDK4_uc003unz.2_5'Flank	NM_002612	NP_002603	Q16654	PDK4_HUMAN	pyruvate dehydrogenase kinase 4 precursor	76					glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity				0	all_cancers(62;1.06e-10)|all_epithelial(64;1.04e-09)|Lung NSC(181;0.128)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0151)			CTAATTGGGTCGGGAGGATAT	0.393													52	103					0	0	1	0	0		T	95224379	T	T	95224379	2	4	89	1	0	0	0	0	0	0	0	1	11697	871	31	1		1	PDK4	7	95224379	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1308	95224379	63914284	3143	56974											
ASNS	440	broad.mit.edu	37	chr7	97488685	97488685	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccacttttaaaaagggagtCgcggagtgcttcaatgtaac	12	11	10	8	2	1	0	1	0	0	0	3	2	2	2	1	2	2	2	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:97488685C>T	uc003uot.3	-	5	1019	c.513G>A	c.(511-513)GCG>GCA	p.A171A	ASNS_uc011kin.1_Silent_p.A88A|ASNS_uc003uou.3_Silent_p.A171A|ASNS_uc003uov.3_Silent_p.A171A|ASNS_uc011kio.1_Silent_p.A150A|ASNS_uc003uow.3_Silent_p.A150A|ASNS_uc003uox.3_Silent_p.A88A	NM_133436	NP_597680	P08243	ASNS_HUMAN	asparagine synthetase	171	Glutamine amidotransferase type-2.				cellular response to glucose starvation|glutamine metabolic process|negative regulation of apoptosis|positive regulation of mitotic cell cycle	cytosol|soluble fraction	asparagine synthase (glutamine-hydrolyzing) activity|ATP binding			ovary(1)	1	all_cancers(62;6.64e-09)|all_epithelial(64;1.58e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0342)|all_lung(186;0.0369)				Adenosine triphosphate(DB00171)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	AAAAGGGAGTCGCGGAGTGCT	0.368													20	48					0	0	1	0	0		T	97488685	T	T	97488685	2	4	89	1	0	0	0	0	0	0	0	1	1049	871	31	1		1	ASNS	7	97488685	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2264306	97488685	61649978	3144	56975											
ASNS	440	broad.mit.edu	37	chr7	97493736	97493736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgtttgctcaattcctcCtttgtcataaagatgaagga	12	15	7	7	0	2	2	2	1	0	1	4	3	4	3	2	1	1	2	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:97493736C>T	uc003uot.3	-	4	828	c.322G>A	c.(322-324)GGA>AGA	p.G108R	ASNS_uc011kin.1_Missense_Mutation_p.G25R|ASNS_uc003uou.3_Missense_Mutation_p.G108R|ASNS_uc003uov.3_Missense_Mutation_p.G108R|ASNS_uc011kio.1_Missense_Mutation_p.G87R|ASNS_uc003uow.3_Missense_Mutation_p.G87R|ASNS_uc003uox.3_Missense_Mutation_p.G25R	NM_133436	NP_597680	P08243	ASNS_HUMAN	asparagine synthetase	108	Glutamine amidotransferase type-2.				cellular response to glucose starvation|glutamine metabolic process|negative regulation of apoptosis|positive regulation of mitotic cell cycle	cytosol|soluble fraction	asparagine synthase (glutamine-hydrolyzing) activity|ATP binding			ovary(1)	1	all_cancers(62;6.64e-09)|all_epithelial(64;1.58e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0342)|all_lung(186;0.0369)				Adenosine triphosphate(DB00171)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TCAATTCCTCCTTTGTCATAA	0.373													15	36					0	0	1	0	0		T	97493736	T	T	97493736	3	4	89	1	0	0	0	0	1	0	0	0	1049	690	24	4	1403	4	ASNS	7	97493736	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5051	97493736	61644927	3145	56976											
TRRAP	8295	broad.mit.edu	37	chr7	98508728	98508728	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaggaaatggacagacatAcatccgtgtggccaactgcc	13	6	11	11	1	0	1	0	0	0	1	1	3	1	3	3	3	4	1	3	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:98508728A>G	uc003upp.2	+	17	2050	c.1841A>G	c.(1840-1842)TAC>TGC	p.Y614C	TRRAP_uc011kis.1_Missense_Mutation_p.Y614C|TRRAP_uc003upr.2_Missense_Mutation_p.Y306C	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	614					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GGACAGACATACATCCGTGTG	0.458													22	31					0	0	1	0	0		G	98508728	G	G	98508728	3	3	89	1	0	0	0	0	1	0	0	0	16627	391	14	3	1903	3	TRRAP	7	98508728	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1014992	98508728	60629935	3146	56977											
TRRAP	8295	broad.mit.edu	37	chr7	98591318	98591318	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtcttccctggaaggcatCgtcgatcagatggtctggtt	6	13	12	10	2	3	1	1	0	2	1	6	3	4	2	1	4	0	2	1	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:98591318C>T	uc003upp.2	+	65	10172	c.9963C>T	c.(9961-9963)ATC>ATT	p.I3321I	TRRAP_uc011kis.1_Silent_p.I3292I|TRRAP_uc003upr.2_Silent_p.I3027I	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3321					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TGGAAGGCATCGTCGATCAGA	0.547													31	44					0	0	1	0	0		T	98591318	T	T	98591318	2	4	89	1	0	0	0	0	0	0	0	1	16627	874	31	1		1	TRRAP	7	98591318	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	82590	98591318	60547345	3147	56978											
TRRAP	8295	broad.mit.edu	37	chr7	98601919	98601919	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accaagcaactccccaaattCttcctcatagaggaaaagtg	15	8	6	12	0	2	1	1	0	1	1	4	2	4	2	4	1	2	1	4	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:98601919C>T	uc003upp.2	+	67	10583	c.10374C>T	c.(10372-10374)TTC>TTT	p.F3458F	TRRAP_uc011kis.1_Silent_p.F3429F|TRRAP_uc003upr.2_Silent_p.F3164F	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3458					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TCCCCAAATTCTTCCTCATAG	0.443													36	88					0	0	1	0	0		T	98601919	T	T	98601919	2	4	89	1	0	0	0	0	0	0	0	1	16627	912	32	4		4	TRRAP	7	98601919	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10601	98601919	60536744	3148	56979											
TRRAP	8295	broad.mit.edu	37	chr7	98608819	98608819	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagctggctctgataggcTtcgcggaattcgtcctgcat	6	12	11	12	3	1	1	0	1	1	0	5	2	3	2	2	3	2	4	2	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:98608819T>G	uc003upp.2	+	70	11250	c.11041T>G	c.(11041-11043)TTC>GTC	p.F3681V	TRRAP_uc011kis.1_Missense_Mutation_p.F3652V|TRRAP_uc003upr.2_Missense_Mutation_p.F3387V|TRRAP_uc003ups.2_5'Flank	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3681	PI3K/PI4K.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TCTGATAGGCTTCGCGGAATT	0.542													59	97					0	0	1	0	0		G	98608819	G	G	98608819	3	3	89	1	0	0	0	0	1	0	0	0	16627	1609	56	5	11224	5	TRRAP	7	98608819	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6900	98608819	60529844	3149	56980											
SMURF1	57154	broad.mit.edu	37	chr7	98655153	98655153	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccacacgctaatggttatCgaatccgttttcccaacata	11	13	5	12	3	0	0	0	0	0	0	4	1	3	0	3	1	1	3	3	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:98655153C>T	uc003upu.1	-	4	545	c.225G>A	c.(223-225)TCG>TCA	p.S75S	SMURF1_uc003upv.1_Silent_p.S75S|SMURF1_uc003upt.2_Silent_p.S75S	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	75	C2.				BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			TAATGGTTATCGAATCCGTTT	0.348													12	33					0	0	1	0	0		T	98655153	T	T	98655153	2	4	89	1	0	0	0	0	0	0	0	1	14844	871	31	1		1	SMURF1	7	98655153	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	46334	98655153	60483510	3150	56981											
PDAP1	11333	broad.mit.edu	37	chr7	98995514	98995514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttccttcttccgggcaGcctcctcccgctgtttccgg	1	13	8	19	3	2	0	0	0	2	0	7	0	7	0	7	2	1	3	7	2	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:98995514G>A	uc003uqe.2	-	5	579	c.458C>T	c.(457-459)GCT>GTT	p.A153V		NM_014891	NP_055706	Q13442	HAP28_HUMAN	PDGFA associated protein 1	153					cell proliferation|signal transduction						0	all_cancers(62;3.49e-09)|all_epithelial(64;2.57e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)		Becaplermin(DB00102)	CTTCCGGGCAGCCTCCTCCCG	0.602													39	64					0	0	1	0	0		A	98995514	A	A	98995514	3	1	89	1	0	0	0	0	1	0	0	0	11632	971	34	2	95	2	PDAP1	7	98995514	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	340361	98995514	60143149	3151	56982											
BUD31	8896	broad.mit.edu	37	chr7	99015106	99015106	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacaaaaacctgattgcaaAatggaaaaagcaaggatatg	21	6	9	5	0	0	2	0	1	0	1	0	4	0	4	1	2	3	2	1	2	8	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:99015106A>C	uc003uqf.2	+	5	473	c.272A>C	c.(271-273)AAA>ACA	p.K91T	BUD31_uc011kiu.1_Missense_Mutation_p.K91T|BUD31_uc011kiv.1_Missense_Mutation_p.K91T|BUD31_uc003uqg.3_Missense_Mutation_p.K91T	NM_003910	NP_003901	P41223	BUD31_HUMAN	G10 protein	91					regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_cancers(62;1.76e-08)|all_epithelial(64;1.63e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			CTGATTGCAAAATGGAAAAAG	0.458													15	41					0	0	1	0	0		C	99015106	C	C	99015106	3	2	89	1	0	0	0	0	1	0	0	0	1577	14	1	5	282	5	BUD31	7	99015106	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	19592	99015106	60123557	3152	56983											
ZNF655	79027	broad.mit.edu	37	chr7	99171030	99171030	+	Missense_Mutation	SNP	G	T	T																															cacaaaatgcataggaaagaGaaatcgtatgaatgtaatga																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:99171030G>T	uc003urh.2	+	3	1692	c.1299G>T	c.(1297-1299)GAG>GAT	p.E433D	ZNF655_uc010lga.2_Missense_Mutation_p.E468D|ZNF655_uc010lgc.2_Missense_Mutation_p.E468D|ZNF655_uc003urj.2_Missense_Mutation_p.E433D|ZNF655_uc003urk.2_Missense_Mutation_p.E270D|ZNF655_uc010lgd.2_Missense_Mutation_p.E270D	NM_138494	NP_612503	Q8N720	ZN655_HUMAN	zinc finger protein 655 isoform a	433					G1 phase|regulation of mitotic cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_epithelial(64;3.19e-09)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					ATAGGAAAGAGAAATCGTATG	0.398													11	171					3.07112e-06	3.18826e-06	1	1	0		T	99171030	T	T	99171030	3	4	89	1	0	0	0	0	1	0	0	0	18093	933	33	5	1836	5	ZNF655	7	99171030	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	155924	99171030	59967633	3153	56984	104	2									
ZNF655	79027	broad.mit.edu	37	chr7	99171035	99171035	+	Missense_Mutation	SNP	C	T	T																															aatgcataggaaagagaaatCgtatgaatgtaatgagtatg																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:99171035C>T	uc003urh.2	+	3	1697	c.1304C>T	c.(1303-1305)TCG>TTG	p.S435L	ZNF655_uc010lga.2_Missense_Mutation_p.S470L|ZNF655_uc010lgc.2_Missense_Mutation_p.S470L|ZNF655_uc003urj.2_Missense_Mutation_p.S435L|ZNF655_uc003urk.2_Missense_Mutation_p.S272L|ZNF655_uc010lgd.2_Missense_Mutation_p.S272L	NM_138494	NP_612503	Q8N720	ZN655_HUMAN	zinc finger protein 655 isoform a	435					G1 phase|regulation of mitotic cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_epithelial(64;3.19e-09)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					AAAGAGAAATCGTATGAATGT	0.398													52	131					0	0	1	0	0		T	99171035	T	T	99171035	3	4	89	1	0	0	0	0	1	0	0	0	18093	893	31	1	1841	1	ZNF655	7	99171035	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5	99171035	59967628	3154	56985	104	2									
CYP3A7	1551	broad.mit.edu	37	chr7	99311124	99311124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagagtcttttgaattctgaGagtcaatcatcagctgaagg	12	12	10	7	0	5	4	3	3	2	2	5	5	5	4	0	1	1	1	0	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:99311124G>A	uc003uru.2	-	9	938	c.833C>T	c.(832-834)TCT>TTT	p.S278F	ZNF498_uc003urn.2_Intron|CYP3A5_uc003urs.2_Intron|CYP3A5_uc010lgg.2_Intron	NM_000765	NP_000756	P24462	CP3A7_HUMAN	cytochrome P450, family 3, subfamily A,	278					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)	1	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)					TGAATTCTGAGAGTCAATCAT	0.418													24	70					0	0	1	0	0		A	99311124	A	A	99311124	3	1	89	1	0	0	0	0	1	0	0	0	4184	942	33	4	698	4	CYP3A7	7	99311124	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	140089	99311124	59827539	3155	56986											
GAL3ST4	79690	broad.mit.edu	37	chr7	99757915	99757915	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggacatagagagcccagTccaggttgttccaggctcgg	9	8	14	10	1	0	1	0	0	0	1	3	3	2	2	3	4	1	3	3	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:99757915T>C	uc003utt.2	-	3	2114	c.1097A>G	c.(1096-1098)GAC>GGC	p.D366G	C7orf43_uc011kjj.1_5'Flank|C7orf43_uc003utr.2_5'Flank|C7orf43_uc003uts.2_5'Flank|GAL3ST4_uc003utu.2_Missense_Mutation_p.D366G|GAL3ST4_uc010lgq.2_Missense_Mutation_p.D304G	NM_024637	NP_078913	Q96RP7	G3ST4_HUMAN	galactose-3-O-sulfotransferase 4	366	Lumenal (Potential).				cell-cell signaling|oligosaccharide metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane|membrane fraction	3'-phosphoadenosine 5'-phosphosulfate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(3)	3	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GAGAGCCCAGTCCAGGTTGTT	0.637													48	74					0	0	1	0	0		C	99757915	C	C	99757915	3	2	89	1	0	0	0	0	1	0	0	0	6215	1667	58	3	367	3	GAL3ST4	7	99757915	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	446791	99757915	59380748	3156	56987											
GPC2	221914	broad.mit.edu	37	chr7	99768093	99768093	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgtccccctccagagccGctggcatcctcatctgcaag	6	9	9	17	1	2	1	1	0	1	1	5	1	5	1	5	1	3	4	5	1	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:99768093G>A	uc003utv.2	-	10	1668	c.1500C>T	c.(1498-1500)AGC>AGT	p.S500S	GAL3ST4_uc003utt.2_5'Flank|GAL3ST4_uc003utu.2_5'Flank|GAL3ST4_uc010lgq.2_5'Flank|GPC2_uc010lgr.2_RNA	NM_152742	NP_689955	Q8N158	GPC2_HUMAN	glypican 2 precursor	500						anchored to membrane|endoplasmic reticulum|extracellular space|plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			breast(1)|pancreas(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CTCCAGAGCCGCTGGCATCCT	0.388													8	18					0	0	1	0	0		A	99768093	A	A	99768093	2	1	89	1	0	0	0	0	0	0	0	1	6613	1078	38	1		1	GPC2	7	99768093	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	10178	99768093	59370570	3157	56988											
PCOLCE	5118	broad.mit.edu	37	chr7	100201741	100201741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggcctgcgcccctagtcGcccccggcaaccaggtgacc	5	5	11	20	4	0	1	0	1	0	0	2	1	1	1	8	3	2	1	8	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:100201741G>A	uc003uvo.2	+	3	562	c.364G>A	c.(364-366)GCC>ACC	p.A122T	uc011kjy.1_5'Flank|PCOLCE_uc011kkb.1_Missense_Mutation_p.A122T|PCOLCE_uc010lhb.1_Intron|PCOLCE_uc003uvp.1_5'Flank	NM_002593	NP_002584	Q15113	PCOC1_HUMAN	procollagen C-endopeptidase enhancer	122	CUB 1.				multicellular organismal development	extracellular space	collagen binding|heparin binding|peptidase activator activity				0	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					GCCCCTAGTCGCCCCCGGCAA	0.687													34	64					0	0	1	0	0		A	100201741	A	A	100201741	3	1	89	1	0	0	0	0	1	0	0	0	11613	1087	38	1	374	1	PCOLCE	7	100201741	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	433648	100201741	58936922	3158	56989											
PCOLCE	5118	broad.mit.edu	37	chr7	100203324	100203324	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcgctgaccttcgagaagtTtgacctggagccggacacct	8	8	12	13	4	0	3	0	2	0	1	1	6	0	5	4	2	1	2	4	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:100203324T>C	uc003uvo.2	+	5	812	c.614T>C	c.(613-615)TTT>TCT	p.F205S	uc011kjy.1_5'Flank|PCOLCE_uc010lhb.1_RNA|PCOLCE_uc003uvp.1_5'Flank	NM_002593	NP_002584	Q15113	PCOC1_HUMAN	procollagen C-endopeptidase enhancer	205	CUB 2.				multicellular organismal development	extracellular space	collagen binding|heparin binding|peptidase activator activity				0	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					TTCGAGAAGTTTGACCTGGAG	0.682													3	4					0	0	1	0	0		C	100203324	C	C	100203324	3	2	89	1	0	0	0	0	1	0	0	0	11613	1841	64	3	632	3	PCOLCE	7	100203324	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1583	100203324	58935339	3159	56990											
ZAN	7455	broad.mit.edu	37	chr7	100358106	100358106	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggagctgcagacggagttCggtttgcgggtgagatggga	7	9	20	5	3	0	2	0	1	0	2	1	6	0	5	0	5	3	4	0	5	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:100358106C>T	uc003uwj.2	+	19	3954	c.3789C>T	c.(3787-3789)TTC>TTT	p.F1263F	ZAN_uc003uwk.2_Silent_p.F1263F|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kkd.1_5'Flank	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1263	VWFD 1.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AGACGGAGTTCGGTTTGCGGG	0.587													25	44					0	0	1	0	0		T	100358106	T	T	100358106	2	4	89	1	0	0	0	0	0	0	0	1	17539	883	31	1		1	ZAN	7	100358106	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	154782	100358106	58780557	3160	56991											
ZAN	7455	broad.mit.edu	37	chr7	100385564	100385564	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttacctcacatttgacggcTtcagctaccgcttgcaaggc	8	11	9	13	2	2	1	2	1	0	0	2	1	2	1	2	2	4	5	2	2	3	5	rs112538235		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:100385564T>G	uc003uwj.2	+	39	7198	c.7033T>G	c.(7033-7035)TTC>GTC	p.F2345V	ZAN_uc003uwk.2_Missense_Mutation_p.F2345V|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.F395V	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2345	VWFD 4.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			ATTTGACGGCTTCAGCTACCG	0.498													20	34					0	0	1	0	0		G	100385564	G	G	100385564	3	3	89	1	0	0	0	0	1	0	0	0	17539	1609	56	5	7178	5	ZAN	7	100385564	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	27458	100385564	58753099	3161	56992											
ZAN	7455	broad.mit.edu	37	chr7	100388619	100388619	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtggcctgtgcggaaactaCgacaagaaccgcaagaatga	15	5	12	9	3	0	3	0	1	0	2	0	5	0	4	2	2	4	1	2	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:100388619C>T	uc003uwj.2	+	41	7578	c.7413C>T	c.(7411-7413)TAC>TAT	p.Y2471Y	ZAN_uc003uwk.2_Silent_p.Y2471Y|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Intron	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2471	VWFD 4.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GCGGAAACTACGACAAGAACC	0.577													7	16					0	0	1	0	0		T	100388619	T	T	100388619	2	4	89	1	0	0	0	0	0	0	0	1	17539	547	19	1		1	ZAN	7	100388619	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3055	100388619	58750044	3162	56993											
MUC17	140453	broad.mit.edu	37	chr7	100682994	100682994	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctgccagtggccagttCtgaggctagcaccgtttcaa	8	9	10	14	1	2	1	1	1	1	0	2	1	2	1	4	2	2	4	4	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:100682994C>A	uc003uxp.1	+	3	8350	c.8297C>A	c.(8296-8298)TCT>TAT	p.S2766Y	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2766	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|44.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GTGGCCAGTTCTGAGGCTAGC	0.493													123	319					3.58676e-45	4.45666e-45	1	1	0		A	100682994	A	A	100682994	3	1	89	1	0	0	0	0	1	0	0	0	9992	913	32	5	8307	5	MUC17	7	100682994	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	294375	100682994	58455669	3163	56994											
MUC17	140453	broad.mit.edu	37	chr7	100686614	100686614	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacttccactgaactaaacAcaccatcaacctccagtagt	15	9	3	14	0	1	1	1	1	0	0	3	1	3	1	4	0	4	1	4	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:100686614A>G	uc003uxp.1	+	3	11970	c.11917A>G	c.(11917-11919)ACA>GCA	p.T3973A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3973	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TGAACTAAACACACCATCAAC	0.448													13	144					0	0	1	0	0		G	100686614	G	G	100686614	3	3	89	1	0	0	0	0	1	0	0	0	9992	159	6	3	11927	3	MUC17	7	100686614	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3620	100686614	58452049	3164	56995											
RABL5	64792	broad.mit.edu	37	chr7	100958425	100958425	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaggctggctaggtcataAttgacatctcctccctgtct	8	13	9	11	0	3	2	1	2	2	0	5	2	4	2	2	3	0	2	2	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:100958425A>C	uc003uyl.2	-	5	651	c.548T>G	c.(547-549)ATT>AGT	p.I183S	RABL5_uc011kkk.1_Missense_Mutation_p.I106S|RABL5_uc011kkl.1_Missense_Mutation_p.I106S|RABL5_uc003uym.2_Missense_Mutation_p.I153S|RABL5_uc010lhw.2_RNA	NM_022777	NP_073614	Q9H7X7	RABL5_HUMAN	RAB, member RAS oncogene family-like 5 isoform	183							GTP binding				0	Lung NSC(181;0.215)					CTAGGTCATAATTGACATCTC	0.463											OREG0018221	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	53					0	0	1	0	0		C	100958425	C	C	100958425	3	2	89	1	0	0	0	0	1	0	0	0	12998	101	4	5	13	5	RABL5	7	100958425	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	271811	100958425	58180238	3165	56996											
RABL5	64792	broad.mit.edu	37	chr7	100962276	100962276	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtattcagtgatgtcagaaGattctgtcagaaagttggcc	11	13	11	6	0	4	4	3	1	1	3	4	4	4	4	1	1	0	2	1	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:100962276G>T	uc003uyl.2	-	2	180	c.77C>A	c.(76-78)TCT>TAT	p.S26Y	RABL5_uc011kkk.1_5'UTR|RABL5_uc011kkl.1_Intron|RABL5_uc003uym.2_Missense_Mutation_p.S26Y|RABL5_uc010lhw.2_RNA|RABL5_uc011kkm.1_Missense_Mutation_p.S26Y	NM_022777	NP_073614	Q9H7X7	RABL5_HUMAN	RAB, member RAS oncogene family-like 5 isoform	26							GTP binding				0	Lung NSC(181;0.215)					GATGTCAGAAGATTCTGTCAG	0.378													30	61					6.04164e-23	7.22422e-23	1	1	0		T	100962276	T	T	100962276	3	4	89	1	0	0	0	0	1	0	0	0	12998	942	33	5	496	5	RABL5	7	100962276	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3851	100962276	58176387	3166	56997											
CUX1	1523	broad.mit.edu	37	chr7	101925144	101925144	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcccaggggcgtctggttCtctccaacaagatggcgcgc	6	8	13	14	3	2	1	0	0	2	1	5	1	4	1	2	4	1	2	2	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:101925144C>A	uc003uyt.2	+	21	1853	c.1834C>A	c.(1834-1836)CTC>ATC	p.L612I	CUX1_uc011kkn.1_Missense_Mutation_p.L573I|CUX1_uc003uyw.2_Missense_Mutation_p.L566I|CUX1_uc003uyv.2_Missense_Mutation_p.L596I|CUX1_uc003uyu.2_Missense_Mutation_p.L610I|CUX1_uc003uyz.2_RNA	NM_001913	NP_001904	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform b	Error:Variant_position_missing_in_P39880_after_alignment					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						GCGTCTGGTTCTCTCCAACAA	0.652													16	33					2.35188e-11	2.57851e-11	1	1	0		A	101925144	A	A	101925144	3	1	89	1	0	0	0	0	1	0	0	0	4067	913	32	5	5286	5	CUX1	7	101925144	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	962868	101925144	57213519	3167	56998											
FBXL13	222235	broad.mit.edu	37	chr7	102517974	102517974	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggaaaagatgtttacaatAtatccaattccttgggcagt	15	12	8	6	0	0	1	0	0	0	1	2	2	2	2	2	2	1	2	2	2	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:102517974A>G	uc003vaq.2	-	16	2002	c.1575T>C	c.(1573-1575)TAT>TAC	p.Y525Y	FBXL13_uc010liq.1_Intron|FBXL13_uc010lir.1_Silent_p.Y525Y|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Silent_p.Y525Y	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	525	LRR 12.										0						TGTTTACAATATATCCAATTC	0.313													25	49					0	0	1	0	0		G	102517974	G	G	102517974	2	3	89	1	0	0	0	0	0	0	0	1	5723	456	16	3		3	FBXL13	7	102517974	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	592830	102517974	56620689	3168	56999											
DNAJC2	27000	broad.mit.edu	37	chr7	102953458	102953458	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgctattttttcccatCtttcaggtgtatttactggg	5	20	7	9	0	3	0	1	0	2	0	4	0	4	0	1	2	2	2	1	2	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:102953458C>A	uc003vbo.2	-	16	1978	c.1727G>T	c.(1726-1728)AGA>ATA	p.R576I	PMPCB_uc003vbl.2_3'UTR|PMPCB_uc003vbm.2_3'UTR|PMPCB_uc010liv.2_3'UTR|PMPCB_uc010liw.2_3'UTR|PMPCB_uc011kll.1_Intron|DNAJC2_uc003vbn.2_Missense_Mutation_p.R201I|DNAJC2_uc010lix.2_Missense_Mutation_p.R523I|DNAJC2_uc003vbp.2_Missense_Mutation_p.R201I	NM_014377	NP_055192	Q99543	DNJC2_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 2	576	SANT 2.				'de novo' cotranslational protein folding|chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane	chromatin binding|DNA binding|histone binding|Hsp70 protein binding|ubiquitin binding			kidney(1)	1						TTTTTCCCATCTTTCAGGTGT	0.403													50	118					4.86159e-25	5.85421e-25	1	1	0		A	102953458	A	A	102953458	3	1	89	1	0	0	0	0	1	0	0	0	4645	913	32	5	146	5	DNAJC2	7	102953458	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	435484	102953458	56185205	3169	57000											
DNAJC2	27000	broad.mit.edu	37	chr7	102967025	102967025	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacactggggtaaacacttcGaagaaattatcctttgcttc	13	12	7	9	1	0	1	0	0	0	1	3	2	1	1	1	2	3	2	1	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:102967025G>A	uc003vbo.2	-	5	788	c.537C>T	c.(535-537)TTC>TTT	p.F179F	PMPCB_uc011kll.1_Intron|DNAJC2_uc003vbn.2_5'UTR|DNAJC2_uc010lix.2_Silent_p.F179F|DNAJC2_uc003vbp.2_5'UTR|DNAJC2_uc003vbq.1_RNA	NM_014377	NP_055192	Q99543	DNJC2_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 2	179	ZRF1-UBD.				'de novo' cotranslational protein folding|chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane	chromatin binding|DNA binding|histone binding|Hsp70 protein binding|ubiquitin binding			kidney(1)	1						TAAACACTTCGAAGAAATTAT	0.378													20	46					0	0	1	0	0		A	102967025	A	A	102967025	2	1	89	1	0	0	0	0	0	0	0	1	4645	1049	37	1		1	DNAJC2	7	102967025	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13567	102967025	56171638	3170	57001											
DNAJC2	27000	broad.mit.edu	37	chr7	102967059	102967059	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcttcacttttagaaggaActgagttatcaaaagtagga	14	13	9	5	0	2	2	2	1	0	1	2	4	2	4	0	2	2	3	0	2	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:102967059A>G	uc003vbo.2	-	5	754	c.503T>C	c.(502-504)GTT>GCT	p.V168A	PMPCB_uc011kll.1_Intron|DNAJC2_uc003vbn.2_5'UTR|DNAJC2_uc010lix.2_Missense_Mutation_p.V168A|DNAJC2_uc003vbp.2_5'UTR|DNAJC2_uc003vbq.1_RNA	NM_014377	NP_055192	Q99543	DNJC2_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 2	168	ZRF1-UBD.				'de novo' cotranslational protein folding|chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane	chromatin binding|DNA binding|histone binding|Hsp70 protein binding|ubiquitin binding			kidney(1)	1						TTTAGAAGGAACTGAGTTATC	0.353													23	38					0	0	1	0	0		G	102967059	G	G	102967059	3	3	89	1	0	0	0	0	1	0	0	0	4645	43	2	3	1414	3	DNAJC2	7	102967059	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	34	102967059	56171604	3171	57002											
DNAJC2	27000	broad.mit.edu	37	chr7	102982306	102982306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggataactctttcttatcctCcagttcctgaaaagaggcag	11	12	8	10	0	2	2	0	1	2	1	5	3	5	3	3	2	1	2	3	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:102982306C>T	uc003vbo.2	-	2	411	c.160G>A	c.(160-162)GAG>AAG	p.E54K	DNAJC2_uc003vbn.2_5'UTR|DNAJC2_uc010lix.2_Missense_Mutation_p.E54K|DNAJC2_uc003vbp.2_5'UTR|DNAJC2_uc003vbq.1_RNA|DNAJC2_uc003vbr.1_Missense_Mutation_p.E54K	NM_014377	NP_055192	Q99543	DNJC2_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 2	54					'de novo' cotranslational protein folding|chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane	chromatin binding|DNA binding|histone binding|Hsp70 protein binding|ubiquitin binding			kidney(1)	1						TTCTTATCCTCCAGTTCCTGA	0.423													37	79					0	0	1	0	0		T	102982306	T	T	102982306	3	4	89	1	0	0	0	0	1	0	0	0	4645	864	30	4	1769	4	DNAJC2	7	102982306	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	15247	102982306	56156357	3172	57003											
SLC26A5	375611	broad.mit.edu	37	chr7	103061263	103061263	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttccttgaatttgtatgctgGcagccatttagttatgggta	8	17	10	6	0	0	1	0	1	0	0	1	1	1	1	2	2	2	5	2	2	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:103061263G>T	uc003vbz.2	-	4	450	c.214C>A	c.(214-216)CCA>ACA	p.P72T	SLC26A5_uc003vbt.1_Missense_Mutation_p.P72T|SLC26A5_uc003vbu.1_Missense_Mutation_p.P72T|SLC26A5_uc003vbv.1_Missense_Mutation_p.P72T|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Missense_Mutation_p.P72T|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_RNA	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	72	Cytoplasmic (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						TTGTATGCTGGCAGCCATTTA	0.373													36	70					1.06647e-15	1.21866e-15	1	1	0		T	103061263	T	T	103061263	3	4	89	1	0	0	0	0	1	0	0	0	14545	1203	42	5	2129	5	SLC26A5	7	103061263	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	78957	103061263	56077400	3173	57004											
RELN	5649	broad.mit.edu	37	chr7	103155842	103155842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggctgccaccagcggaagcGagtggcaatctctttagcat	9	9	12	11	2	1	0	0	0	1	0	2	2	1	1	2	3	4	3	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:103155842G>A	uc003vca.2	-	50	8069	c.7909C>T	c.(7909-7911)CGC>TGC	p.R2637C	RELN_uc010liz.2_Missense_Mutation_p.R2637C	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2637					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CAGCGGAAGCGAGTGGCAATC	0.498													20	38					0	0	1	0	0		A	103155842	A	A	103155842	3	1	89	1	0	0	0	0	1	0	0	0	13245	1058	37	1	2537	1	RELN	7	103155842	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	94579	103155842	55982821	3174	57005											
RELN	5649	broad.mit.edu	37	chr7	103179740	103179740	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgaaatcatcttccaagAccgtattaccagaaatattt	14	14	5	8	1	2	3	1	1	1	2	3	3	3	3	3	0	1	1	3	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:103179740A>C	uc003vca.2	-	45	7125	c.6965T>G	c.(6964-6966)GTC>GGC	p.V2322G	RELN_uc010liz.2_Missense_Mutation_p.V2322G	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2322					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		ATCTTCCAAGACCGTATTACC	0.403													28	38					0	0	1	0	0		C	103179740	C	C	103179740	3	2	89	1	0	0	0	0	1	0	0	0	13245	275	10	5	3501	5	RELN	7	103179740	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	23898	103179740	55958923	3175	57006											
RELN	5649	broad.mit.edu	37	chr7	103205762	103205762	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagacagtgatccgcttccAattctggaatctttccgagg	9	12	10	10	2	2	2	0	1	2	1	5	4	5	3	3	2	0	2	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:103205762A>C	uc003vca.2	-	34	5333	c.5173T>G	c.(5173-5175)TGG>GGG	p.W1725G	RELN_uc010liz.2_Missense_Mutation_p.W1725G	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1725					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		ATCCGCTTCCAATTCTGGAAT	0.443													27	64					0	0	1	0	0		C	103205762	C	C	103205762	3	2	89	1	0	0	0	0	1	0	0	0	13245	130	5	5	5337	5	RELN	7	103205762	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	26022	103205762	55932901	3176	57007											
RELN	5649	broad.mit.edu	37	chr7	103276722	103276722	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagatgtaattagctgacGccgcccatctttgttgaaaa	13	11	9	8	2	1	3	0	2	1	1	1	4	1	3	2	0	1	3	2	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:103276722G>A	uc003vca.2	-	18	2423	c.2263C>T	c.(2263-2265)CGT>TGT	p.R755C	RELN_uc010liz.2_Missense_Mutation_p.R755C	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	755					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		ATTAGCTGACGCCGCCCATCT	0.433													7	46					0	0	1	0	0		A	103276722	A	A	103276722	3	1	89	1	0	0	0	0	1	0	0	0	13245	1087	38	1	8311	1	RELN	7	103276722	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	70960	103276722	55861941	3177	57008											
MLL5	55904	broad.mit.edu	37	chr7	104731694	104731694	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattgatgatatagaagaaaAaactcctattagtaatgaag	19	12	7	3	0	0	5	0	3	0	2	1	5	1	5	1	0	1	1	1	0	11	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:104731694A>C	uc003vcm.2	+	15	2189	c.1655A>C	c.(1654-1656)AAA>ACA	p.K552T	MLL5_uc003vcl.2_Missense_Mutation_p.K552T|MLL5_uc010ljc.2_Missense_Mutation_p.K552T	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	552					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						ATAGAAGAAAAAACTCCTATT	0.333													13	33					0	0	1	0	0		C	104731694	C	C	104731694	3	2	89	1	0	0	0	0	1	0	0	0	9642	14	1	5	1705	5	MLL5	7	104731694	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1454972	104731694	54406969	3178	57009											
MLL5	55904	broad.mit.edu	37	chr7	104746336	104746336	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaagctctggaagaagaaAattcagcaattttacataga	19	9	7	6	0	2	3	1	0	1	3	2	4	2	4	0	1	4	2	0	1	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:104746336A>C	uc003vcm.2	+	19	3016	c.2482A>C	c.(2482-2484)AAT>CAT	p.N828H	MLL5_uc010ljc.2_Missense_Mutation_p.N828H|MLL5_uc010lje.1_RNA|MLL5_uc010ljf.1_5'Flank|MLL5_uc010ljg.2_5'Flank	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	828					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						GGAAGAAGAAAATTCAGCAAT	0.343													21	48					0	0	1	0	0		C	104746336	C	C	104746336	3	2	89	1	0	0	0	0	1	0	0	0	9642	14	1	5	2548	5	MLL5	7	104746336	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	14642	104746336	54392327	3179	57010											
MLL5	55904	broad.mit.edu	37	chr7	104750736	104750736	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttgaaaggactgcctcAacttcagtggaacaagtcag	12	11	9	9	0	4	1	3	1	1	0	4	3	4	3	1	2	3	0	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:104750736A>G	uc003vcm.2	+	24	4299	c.3765A>G	c.(3763-3765)TCA>TCG	p.S1255S	MLL5_uc010ljc.2_Silent_p.S1255S|MLL5_uc010lje.1_RNA|MLL5_uc010ljf.1_RNA|MLL5_uc010ljg.2_Intron|uc003vcp.1_5'Flank|MLL5_uc010ljh.1_Missense_Mutation_p.Q61R	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1255					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						GGACTGCCTCAACTTCAGTGG	0.383													34	73					0	0	1	0	0		G	104750736	G	G	104750736	2	3	89	1	0	0	0	0	0	0	0	1	9642	117	5	3		3	MLL5	7	104750736	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4400	104750736	54387927	3180	57011											
PUS7	54517	broad.mit.edu	37	chr7	105111185	105111185	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccatattttgaaagtcctcGaagcagctgcccttccacac	10	11	6	14	1	0	1	0	1	0	0	4	2	3	1	4	0	3	2	4	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:105111185G>A	uc003vcx.2	-	11	1567	c.1348C>T	c.(1348-1350)CGA>TGA	p.R450*	PUS7_uc010lji.2_Nonsense_Mutation_p.R456*|PUS7_uc003vcy.2_Nonsense_Mutation_p.R450*|PUS7_uc003vcz.1_Nonsense_Mutation_p.R450*	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog	450	TRUD.				pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						GAAAGTCCTCGAAGCAGCTGC	0.438													43	100					0	0	1	0	0		A	105111185	A	A	105111185	4	1	89	1	0	0	0	0	0	1	0	0	12858	1066	37	1	661	1	PUS7	7	105111185	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	360449	105111185	54027478	3181	57012											
RINT1	60561	broad.mit.edu	37	chr7	105187508	105187508	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttaaattctggcataaaAttctcaaggacaagcttaca	16	11	6	8	0	2	0	1	0	2	0	3	1	2	1	0	2	2	3	0	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:105187508A>C	uc003vda.1	+	5	898	c.667A>C	c.(667-669)ATT>CTT	p.I223L	RINT1_uc010ljj.1_Intron	NM_021930	NP_068749	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1	223	RINT1/TIP20.				cell cycle|G2/M transition DNA damage checkpoint|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane	protein binding			ovary(3)|central_nervous_system(1)	4						CTGGCATAAAATTCTCAAGGA	0.378													37	71					0	0	1	0	0		C	105187508	C	C	105187508	3	2	89	1	0	0	0	0	1	0	0	0	13401	101	4	5	685	5	RINT1	7	105187508	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	76323	105187508	53951155	3182	57013											
CDHR3	222256	broad.mit.edu	37	chr7	105662793	105662793	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactgatgacaacttgatgTctgacaggaagaaagcggag	15	8	12	6	1	1	5	0	4	1	1	1	7	1	7	0	2	3	0	0	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:105662793T>G	uc003vdl.3	+	14	2083	c.1975T>G	c.(1975-1977)TCT>GCT	p.S659A	CDHR3_uc003vdk.2_Intron|CDHR3_uc003vdm.3_Missense_Mutation_p.S646A|CDHR3_uc011klt.1_Missense_Mutation_p.S571A|CDHR3_uc003vdn.2_Intron	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	659	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						CAACTTGATGTCTGACAGGAA	0.483													66	104					0	0	1	0	0		G	105662793	G	G	105662793	3	3	89	1	0	0	0	0	1	0	0	0	3123	1667	58	5	2029	5	CDHR3	7	105662793	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	475285	105662793	53475870	3183	57014											
NAMPT	10135	broad.mit.edu	37	chr7	105902057	105902057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtaaggtattaatatctaCtccatccccttgaataactc	12	15	4	10	0	1	1	0	1	1	0	4	1	3	1	3	1	2	2	3	1	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:105902057C>T	uc003vdq.2	-	8	1374	c.1066G>A	c.(1066-1068)GTA>ATA	p.V356I	NAMPT_uc003vdr.1_Missense_Mutation_p.V356I	NM_005746	NP_005737	P43490	NAMPT_HUMAN	nicotinamide phosphoribosyltransferase	356					cell-cell signaling|NAD biosynthetic process|nicotinamide metabolic process|positive regulation of cell proliferation|positive regulation of nitric-oxide synthase biosynthetic process|signal transduction|water-soluble vitamin metabolic process	cytosol	cytokine activity|nicotinamide phosphoribosyltransferase activity|nicotinate phosphoribosyltransferase activity|nicotinate-nucleotide diphosphorylase (carboxylating) activity			large_intestine(1)	1						TTAATATCTACTCCATCCCCT	0.308													49	90					0	0	1	0	0		T	105902057	T	T	105902057	3	4	89	1	0	0	0	0	1	0	0	0	10167	565	20	4	425	4	NAMPT	7	105902057	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	239264	105902057	53236606	3184	57015											
PIK3CG	5294	broad.mit.edu	37	chr7	106520000	106520000	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taatggcctccaagaaaaaaCcactatggcttgagtttaaa	16	10	7	8	0	0	2	0	1	0	1	1	2	1	2	3	2	1	2	3	2	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:106520000C>A	uc003vdv.3	+	6	2513	c.2428C>A	c.(2428-2430)CCA>ACA	p.P810T	PIK3CG_uc003vdu.2_Missense_Mutation_p.P810T|PIK3CG_uc003vdw.2_Missense_Mutation_p.P810T	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	810					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						CAAGAAAAAACCACTATGGCT	0.388													28	57					7.26314e-15	8.22614e-15	1	1	0		A	106520000	A	A	106520000	3	1	89	1	0	0	0	0	1	0	0	0	11935	507	18	5	2446	5	PIK3CG	7	106520000	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	617943	106520000	52618663	3185	57016											
COG5	10466	broad.mit.edu	37	chr7	106938717	106938717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgactgtattgttgaagacGcttccataagtcattataaa	13	14	7	7	1	1	3	1	2	0	1	2	3	2	3	1	0	0	3	1	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:106938717G>A	uc003ved.2	-	12	1801	c.1276C>T	c.(1276-1278)CGT>TGT	p.R426C	COG5_uc003vec.2_Missense_Mutation_p.R426C|COG5_uc003vee.2_Missense_Mutation_p.R426C	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	426					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						TGTTGAAGACGCTTCCATAAG	0.378													33	60					0	0	1	0	0		A	106938717	A	A	106938717	3	1	89	1	0	0	0	0	1	0	0	0	3664	1087	38	1	1354	1	COG5	7	106938717	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	418717	106938717	52199946	3186	57017											
COG5	10466	broad.mit.edu	37	chr7	107002853	107002853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggggttggcatggtagatCgtccaggtccccctggttat	5	12	14	10	1	0	1	0	0	0	1	3	1	2	1	3	6	0	4	3	6	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:107002853C>T	uc003ved.2	-	9	1466	c.941G>A	c.(940-942)CGA>CAA	p.R314Q	COG5_uc003vec.2_Missense_Mutation_p.R314Q|COG5_uc003vee.2_Missense_Mutation_p.R314Q	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	314					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						CATGGTAGATCGTCCAGGTCC	0.378													18	20					0	0	1	0	0		T	107002853	T	T	107002853	3	4	89	1	0	0	0	0	1	0	0	0	3664	884	31	1	1701	1	COG5	7	107002853	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	64136	107002853	52135810	3187	57018											
SLC26A4	5172	broad.mit.edu	37	chr7	107314667	107314667	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctgagcatggcccccgaCgaacactttctcgtatccag	8	10	9	14	3	2	1	0	1	2	0	4	3	3	1	3	1	2	3	3	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:107314667C>T	uc003vep.2	+	5	698	c.474C>T	c.(472-474)GAC>GAT	p.D158D		NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	158	Extracellular (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						TGGCCCCCGACGAACACTTTC	0.433									Pendred_syndrome				43	91					0	0	1	0	0		T	107314667	T	T	107314667	2	4	89	1	0	0	0	0	0	0	0	1	14544	535	19	1		1	SLC26A4	7	107314667	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	311814	107314667	51823996	3188	57019											
SLC26A3	1811	broad.mit.edu	37	chr7	107408302	107408302	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaagaaaaatattgagcttTtcacttcaccatcaaaaaat	18	13	3	7	0	3	2	3	1	0	1	3	2	3	2	1	0	1	1	1	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:107408302T>G	uc003ver.2	-	19	2325	c.2114A>C	c.(2113-2115)AAA>ACA	p.K705T	SLC26A3_uc003ves.2_Missense_Mutation_p.K592T	NM_000111	NP_000102	P40879	S26A3_HUMAN	solute carrier family 26, member 3	705	Helical; (Potential).|STAS.				excretion	integral to membrane|membrane fraction	inorganic anion exchanger activity|secondary active sulfate transmembrane transporter activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(3)|skin(1)	4						TATTGAGCTTTTCACTTCACC	0.323													16	43					0	0	1	0	0		G	107408302	G	G	107408302	3	3	89	1	0	0	0	0	1	0	0	0	14543	1841	64	5	192	5	SLC26A3	7	107408302	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	93635	107408302	51730361	3189	57020											
ZNF277	11179	broad.mit.edu	37	chr7	111958290	111958290	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgataccaattttcatggCgtttgtatgttttgcaatga	11	17	8	5	1	1	2	1	2	0	0	1	2	1	2	1	1	2	4	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:111958290C>T	uc003vge.2	+	5	648	c.519C>T	c.(517-519)GGC>GGT	p.G173G	ZNF277_uc003vgd.2_Silent_p.G173G|ZNF277_uc003vgf.2_Silent_p.G95G|ZNF277_uc003vgg.2_5'UTR	NM_021994	NP_068834	Q9NRM2	ZN277_HUMAN	zinc finger protein (C2H2 type) 277	173						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(2)	4						ATTTTCATGGCGTTTGTATGT	0.343													21	38					0	0	1	0	0		T	111958290	T	T	111958290	2	4	89	1	0	0	0	0	0	0	0	1	17837	755	27	1		1	ZNF277	7	111958290	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4549988	111958290	47180373	3190	57021											
PPP1R3A	5506	broad.mit.edu	37	chr7	113518902	113518902	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcttagcaattattgcttTttctctagcagacatgcttt	9	18	6	8	0	1	1	0	0	1	1	2	1	1	1	0	0	5	5	0	0	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:113518902T>A	uc010ljy.1	-	4	2276	c.2245A>T	c.(2245-2247)AAA>TAA	p.K749*		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	749					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						ATTATTGCTTTTTCTCTAGCA	0.423													53	90					0	0	1	0	0		A	113518902	A	A	113518902	4	1	89	1	0	0	0	0	0	1	0	0	12393	1850	64	5	1127	5	PPP1R3A	7	113518902	Nonsense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1560612	113518902	45619761	3191	57022											
FOXP2	93986	broad.mit.edu	37	chr7	114271749	114271749	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagcacttcctgtccaatCgctgcctcaaggtacataca	10	9	8	14	1	1	0	1	0	0	0	4	0	3	0	3	2	4	4	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:114271749C>T	uc003vhb.2	+	6	1138	c.764C>T	c.(763-765)TCG>TTG	p.S255L	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Missense_Mutation_p.S280L|FOXP2_uc003vha.2_Missense_Mutation_p.S163L|FOXP2_uc011kmu.1_Missense_Mutation_p.S272L|FOXP2_uc011kmv.1_Missense_Mutation_p.S254L|FOXP2_uc010ljz.1_Missense_Mutation_p.S163L|FOXP2_uc003vgt.1_RNA|FOXP2_uc003vgv.1_Missense_Mutation_p.S255L|FOXP2_uc003vgx.2_Missense_Mutation_p.S255L|FOXP2_uc003vhd.2_Missense_Mutation_p.S255L|FOXP2_uc003vhc.2_Missense_Mutation_p.S280L	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	255	Gln-rich.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						CCTGTCCAATCGCTGCCTCAA	0.473													22	28					0	0	1	0	0		T	114271749	T	T	114271749	3	4	89	1	0	0	0	0	1	0	0	0	6041	893	31	1	916	1	FOXP2	7	114271749	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	752847	114271749	44866914	3192	57023											
FOXP2	93986	broad.mit.edu	37	chr7	114298150	114298150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtctagtgtcaccatgtcGaagaatatgttggagacatc	11	12	11	7	1	2	2	1	0	1	2	4	4	2	2	1	1	0	1	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:114298150G>A	uc003vhb.2	+	11	1670	c.1296G>A	c.(1294-1296)TCG>TCA	p.S432S	FOXP2_uc003vgu.2_Intron|FOXP2_uc003vgz.2_Silent_p.S457S|FOXP2_uc003vha.2_Silent_p.S340S|FOXP2_uc011kmu.1_Silent_p.S449S|FOXP2_uc011kmv.1_Silent_p.S431S|FOXP2_uc010ljz.1_Intron|FOXP2_uc003vhe.1_Silent_p.S2S	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	432					camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						TCACCATGTCGAAGAATATGT	0.488													45	68					0	0	1	0	0		A	114298150	A	A	114298150	2	1	89	1	0	0	0	0	0	0	0	1	6041	1045	37	1		1	FOXP2	7	114298150	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	26401	114298150	44840513	3193	57024											
TFEC	22797	broad.mit.edu	37	chr7	115590937	115590937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttgaactcacggatcattaGactttggaataagagtgcca	13	11	10	7	1	2	3	2	1	0	2	2	5	2	5	1	2	2	1	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:115590937G>A	uc003vhj.1	-	6	690	c.506C>T	c.(505-507)TCT>TTT	p.S169F	TFEC_uc003vhk.1_Missense_Mutation_p.S140F|TFEC_uc003vhl.3_Missense_Mutation_p.S140F|TFEC_uc011kmw.1_Missense_Mutation_p.S259F	NM_012252	NP_036384	O14948	TFEC_HUMAN	transcription factor EC isoform a	169	Helix-loop-helix motif.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			large_intestine(1)	1			STAD - Stomach adenocarcinoma(10;0.00878)			CGGATCATTAGACTTTGGAAT	0.323													17	45					0	0	1	0	0		A	115590937	A	A	115590937	3	1	89	1	0	0	0	0	1	0	0	0	15827	942	33	4	549	4	TFEC	7	115590937	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1292787	115590937	43547726	3194	57025											
TFEC	22797	broad.mit.edu	37	chr7	115590981	115590981	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttgattcggtaattaatAttataccttcttcttctttc	8	21	3	9	1	3	1	0	1	3	0	6	1	4	1	2	1	1	1	2	1	5	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:115590981A>G	uc003vhj.1	-	6	646	c.462T>C	c.(460-462)AAT>AAC	p.N154N	TFEC_uc003vhk.1_Silent_p.N125N|TFEC_uc003vhl.3_Silent_p.N125N|TFEC_uc011kmw.1_Silent_p.N244N	NM_012252	NP_036384	O14948	TFEC_HUMAN	transcription factor EC isoform a	154	Helix-loop-helix motif.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			large_intestine(1)	1			STAD - Stomach adenocarcinoma(10;0.00878)			GGTAATTAATATTATACCTTC	0.289													20	38					0	0	1	0	0		G	115590981	G	G	115590981	2	3	89	1	0	0	0	0	0	0	0	1	15827	446	16	3		3	TFEC	7	115590981	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	44	115590981	43547682	3195	57026											
ST7	7982	broad.mit.edu	37	chr7	116769862	116769862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcagaatgcaaagtatggcGaaatccactaaatttattta	16	12	7	6	1	0	1	0	0	0	1	1	2	1	1	1	1	2	3	1	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:116769862G>A	uc003vin.2	+	4	624	c.410G>A	c.(409-411)CGA>CAA	p.R137Q	ST7_uc011knl.1_Missense_Mutation_p.R137Q|ST7_uc003vio.2_Missense_Mutation_p.R137Q|ST7_uc003viq.2_Missense_Mutation_p.R91Q|ST7_uc011knm.1_Missense_Mutation_p.R94Q|ST7_uc003vir.2_Missense_Mutation_p.R85Q|ST7OT2_uc003viu.2_Intron|ST7_uc011knn.1_Missense_Mutation_p.R85Q|ST7OT2_uc003viw.2_Intron|ST7_uc003vix.1_5'UTR	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b	137						integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		AAAGTATGGCGAAATCCACTA	0.403													26	63					0	0	1	0	0		A	116769862	A	A	116769862	3	1	89	1	0	0	0	0	1	0	0	0	15254	1058	37	1	424	1	ST7	7	116769862	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1178881	116769862	42368801	3196	57027											
ST7	7982	broad.mit.edu	37	chr7	116770546	116770546	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttatttctcctttgcaggTatacttgggtgacaggacga	8	15	10	8	1	2	1	0	1	2	0	3	3	2	2	1	3	2	2	1	3	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:116770546T>C	uc003vin.2	+	5	665	c.451T>C	c.(451-453)TAT>CAT	p.Y151H	ST7_uc011knl.1_Missense_Mutation_p.Y151H|ST7_uc003vio.2_Missense_Mutation_p.Y151H|ST7_uc003viq.2_Missense_Mutation_p.Y105H|ST7_uc011knm.1_Missense_Mutation_p.Y108H|ST7_uc003vir.2_Missense_Mutation_p.Y99H|ST7OT2_uc003viu.2_Intron|ST7_uc011knn.1_Missense_Mutation_p.Y99H|ST7OT2_uc003viw.2_Intron|ST7_uc003vix.1_5'UTR	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b	151						integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		CCTTTGCAGGTATACTTGGGT	0.413													42	65					0	0	1	0	0		C	116770546	C	C	116770546	3	2	89	1	0	0	0	0	1	0	0	0	15254	1652	57	3	469	3	ST7	7	116770546	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	684	116770546	42368117	3197	57028											
ST7	7982	broad.mit.edu	37	chr7	116849924	116849924	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcaatagcatatgcattCtttcatcttgcacactggaa	13	12	7	9	0	3	0	1	0	2	0	3	2	3	1	0	1	4	4	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:116849924C>A	uc003vin.2	+	13	1552	c.1338C>A	c.(1336-1338)TTC>TTA	p.F446L	ST7_uc011knl.1_Missense_Mutation_p.F423L|ST7_uc003vio.2_Missense_Mutation_p.F423L|ST7_uc003viq.2_Missense_Mutation_p.F400L|ST7_uc011knm.1_Missense_Mutation_p.F403L|ST7_uc003vir.2_Missense_Mutation_p.F371L|ST7_uc011knn.1_Missense_Mutation_p.F394L|ST7OT3_uc003viy.1_RNA	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b	446						integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		CATATGCATTCTTTCATCTTG	0.373													21	46					6.44725e-10	6.96688e-10	1	1	0		A	116849924	A	A	116849924	3	1	89	1	0	0	0	0	1	0	0	0	15254	912	32	5	1388	5	ST7	7	116849924	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	79378	116849924	42288739	3198	57029											
WNT2	7472	broad.mit.edu	37	chr7	116960623	116960623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaggcaggagacttacttCggagtaggaccctgccaaaa	13	7	12	9	1	0	2	0	1	0	1	1	5	0	4	2	4	2	2	2	4	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:116960623C>T	uc003viz.2	-	2	608	c.308G>A	c.(307-309)CGA>CAA	p.R103Q	WNT2_uc003vja.2_Silent_p.P28P	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	103					atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		AGACTTACTTCGGAGTAGGAC	0.532													11	22					0	0	1	0	0		T	116960623	T	T	116960623	3	4	89	1	0	0	0	0	1	0	0	0	17412	884	31	1	790	1	WNT2	7	116960623	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	110699	116960623	42178040	3199	57030											
ASZ1	136991	broad.mit.edu	37	chr7	117066950	117066950	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcattgctttcttaaattTttctttcttttcttcaatgg	6	23	5	7	0	6	0	2	0	4	0	6	0	6	0	0	2	1	1	0	2	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:117066950T>G	uc003vjb.2	-	2	208	c.145A>C	c.(145-147)AAA>CAA	p.K49Q	ASZ1_uc011kno.1_Missense_Mutation_p.K49Q|ASZ1_uc011knp.1_5'UTR	NM_130768	NP_570124	Q8WWH4	ASZ1_HUMAN	ankyrin repeat, SAM and basic leucine zipper	49	ANK 1.				cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	signal transducer activity			central_nervous_system(2)|ovary(1)	3	Lung NSC(10;0.00156)|all_lung(10;0.00175)		STAD - Stomach adenocarcinoma(10;0.000512)			TTCTTAAATTTTTCTTTCTTT	0.338													47	121					0	0	1	0	0		G	117066950	G	G	117066950	3	3	89	1	0	0	0	0	1	0	0	0	1070	1850	64	5	1330	5	ASZ1	7	117066950	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	106327	117066950	42071713	3200	57031											
CFTR	1080	broad.mit.edu	37	chr7	117246794	117246794	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttctgcctcttaccatatTtgacttcatccaggtatgta	8	16	5	12	0	3	1	1	1	2	0	4	1	4	1	4	1	2	2	4	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:117246794T>C	uc003vjd.2	+	18	3107	c.2975T>C	c.(2974-2976)TTT>TCT	p.F992S	CFTR_uc011knq.1_Missense_Mutation_p.F398S	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	992	Helical; Name=9; (Potential).|ABC transmembrane type-1 2.				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	CTTACCATATTTGACTTCATC	0.279									Cystic_Fibrosis				76	109					0	0	1	0	0		C	117246794	C	C	117246794	3	2	89	1	0	0	0	0	1	0	0	0	3297	1841	64	3	3045	3	CFTR	7	117246794	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	179844	117246794	41891869	3201	57032											
CTTNBP2	83992	broad.mit.edu	37	chr7	117431919	117431919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaatctagctgcttggattCgtgggtttagacctggatgc	8	14	12	7	1	1	1	0	0	1	1	2	3	1	3	1	3	3	3	1	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:117431919C>T	uc003vjf.2	-	4	1423	c.1331G>A	c.(1330-1332)CGA>CAA	p.R444Q		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	444	Pro-rich.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		TGCTTGGATTCGTGGGTTTAG	0.478													91	185					0	0	1	0	0		T	117431919	T	T	117431919	3	4	89	1	0	0	0	0	1	0	0	0	4048	884	31	1	3740	1	CTTNBP2	7	117431919	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	185125	117431919	41706744	3202	57033											
KCND2	3751	broad.mit.edu	37	chr7	119915724	119915724	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagttatgttctacgcagaGaaggggtcttcggctagcaa	11	10	12	8	2	2	1	0	0	2	1	3	2	2	1	0	3	2	5	0	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:119915724G>T	uc003vjj.1	+	1	2003	c.1038G>T	c.(1036-1038)GAG>GAT	p.E346D		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	346					regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TCTACGCAGAGAAGGGGTCTT	0.498													45	71					4.01765e-15	4.56549e-15	1	1	0		T	119915724	T	T	119915724	3	4	89	1	0	0	0	0	1	0	0	0	8035	933	33	5	1040	5	KCND2	7	119915724	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2483805	119915724	39222939	3203	57034											
ING3	54556	broad.mit.edu	37	chr7	120593395	120593395	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaaagagtcagtgaattCtttatgaatgcaaagaaaaa	20	9	8	4	0	2	4	1	2	1	2	2	5	2	4	0	0	2	1	0	0	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:120593395C>A	uc003vjn.2	+	3	272	c.138C>A	c.(136-138)TTC>TTA	p.F46L	ING3_uc011knr.1_Missense_Mutation_p.F46L|ING3_uc003vjl.2_Missense_Mutation_p.F46L|ING3_uc003vjm.1_Missense_Mutation_p.F46L|ING3_uc003vjo.2_5'UTR|ING3_uc003vjp.2_Missense_Mutation_p.F46L|ING3_uc011kns.1_Missense_Mutation_p.F31L	NM_019071	NP_061944	Q9NXR8	ING3_HUMAN	inhibitor of growth family, member 3 isoform 1	46					histone H2A acetylation|histone H4 acetylation|positive regulation of apoptosis|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|Piccolo NuA4 histone acetyltransferase complex	zinc ion binding			ovary(1)	1	all_neural(327;0.117)					TCAGTGAATTCTTTATGAATG	0.289													45	69					2.24722e-20	2.65301e-20	1	1	0		A	120593395	A	A	120593395	3	1	89	1	0	0	0	0	1	0	0	0	7753	912	32	5	148	5	ING3	7	120593395	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	677671	120593395	38545268	3204	57035											
C7orf58	79974	broad.mit.edu	37	chr7	120704358	120704358	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattatgtcaaatagttagaAgattcccaggtaatctttcg	13	14	8	6	1	2	2	1	0	1	2	4	3	3	2	1	1	0	2	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:120704358A>C	uc003vjq.3	+	5	1054	c.607A>C	c.(607-609)AGA>CGA	p.R203R	C7orf58_uc003vjr.1_Silent_p.R203R|C7orf58_uc003vjs.3_Silent_p.R203R|C7orf58_uc003vjt.3_5'UTR	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	203						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					AATAGTTAGAAGATTCCCAGG	0.418													17	37					0	0	1	0	0		C	120704358	C	C	120704358	2	2	89	1	0	0	0	0	0	0	0	1	2408	64	3	5		5	C7orf58	7	120704358	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	110963	120704358	38434305	3205	57036											
C7orf58	79974	broad.mit.edu	37	chr7	120739989	120739989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttttttaggaatgaaacGacagtccttgctccacatga	11	15	7	8	1	0	2	0	2	0	0	2	4	2	3	2	1	2	1	2	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:120739989G>A	uc003vjq.3	+	7	1206	c.759G>A	c.(757-759)ACG>ACA	p.T253T	C7orf58_uc003vjr.1_Silent_p.T253T|C7orf58_uc003vjs.3_Silent_p.T253T|C7orf58_uc003vjt.3_Silent_p.T33T|C7orf58_uc010lkk.1_Silent_p.T33T	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	253						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					GGAATGAAACGACAGTCCTTG	0.378													18	45					0	0	1	0	0		A	120739989	A	A	120739989	2	1	89	1	0	0	0	0	0	0	0	1	2408	1045	37	1		1	C7orf58	7	120739989	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	35631	120739989	38398674	3206	57037											
C7orf58	79974	broad.mit.edu	37	chr7	120935617	120935617	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggcactgtaacaaattttCgatcgccatatcatgtcaga	14	11	7	9	2	2	1	2	0	0	1	4	2	2	1	1	1	1	2	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:120935617C>T	uc003vjq.3	+	23	3439	c.2992C>T	c.(2992-2994)CGA>TGA	p.R998*		NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	998						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					AACAAATTTTCGATCGCCATA	0.358													41	77					0	0	1	0	0		T	120935617	T	T	120935617	4	4	89	1	0	0	0	0	0	1	0	0	2408	876	31	1	3124	1	C7orf58	7	120935617	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	195628	120935617	38203046	3207	57038											
WNT16	51384	broad.mit.edu	37	chr7	120978940	120978940	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactgttggtttcaggctgtCgccaagttgatgtcagtaga	8	14	12	7	1	2	2	2	1	0	1	3	2	2	2	1	2	1	5	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:120978940C>T	uc003vjw.2	+	4	896	c.639C>T	c.(637-639)GTC>GTT	p.V213V	WNT16_uc003vjv.2_Silent_p.V203V|WNT16_uc010lkl.2_5'UTR	NM_057168	NP_476509	Q9UBV4	WNT16_HUMAN	wingless-type MMTV integration site family,	213					anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|keratinocyte differentiation|keratinocyte proliferation|negative regulation of cell death|optic cup formation involved in camera-type eye development|oxidative stress-induced premature senescence|positive regulation of gene expression|positive regulation of JNK cascade|positive regulation of phosphatidylinositol 3-kinase cascade|replicative senescence|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			lung(2)|ovary(2)|large_intestine(1)	5	all_neural(327;0.117)					TTCAGGCTGTCGCCAAGTTGA	0.388													17	24					0	0	1	0	0		T	120978940	T	T	120978940	2	4	89	1	0	0	0	0	0	0	0	1	17411	871	31	1		1	WNT16	7	120978940	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	43323	120978940	38159723	3208	57039											
PTPRZ1	5803	broad.mit.edu	37	chr7	121608065	121608065	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtaatagcccaaaacaatCtcctatcaatattgatgaag	17	11	5	8	0	2	2	1	2	1	0	3	2	2	2	2	0	2	1	2	0	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:121608065C>A	uc003vjy.2	+	3	580	c.185C>A	c.(184-186)TCT>TAT	p.S62Y	PTPRZ1_uc003vjz.2_Missense_Mutation_p.S62Y	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	62	Extracellular (Potential).|Alpha-carbonic anhydrase.				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						CCAAAACAATCTCCTATCAAT	0.303													22	71					8.04996e-18	9.36589e-18	1	1	0		A	121608065	A	A	121608065	3	1	89	1	0	0	0	0	1	0	0	0	12839	913	32	5	195	5	PTPRZ1	7	121608065	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	629125	121608065	37530598	3209	57040											
PTPRZ1	5803	broad.mit.edu	37	chr7	121651597	121651597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttcagtagtgaattgtttCgccatctgcatacagtttct	8	16	7	10	1	3	1	1	1	2	0	4	1	3	1	2	0	2	4	2	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:121651597C>T	uc003vjy.2	+	12	2892	c.2497C>T	c.(2497-2499)CGC>TGC	p.R833C	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	833	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						TGAATTGTTTCGCCATCTGCA	0.468													55	126					0	0	1	0	0		T	121651597	T	T	121651597	3	4	89	1	0	0	0	0	1	0	0	0	12839	884	31	1	2543	1	PTPRZ1	7	121651597	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	43532	121651597	37487066	3210	57041											
PTPRZ1	5803	broad.mit.edu	37	chr7	121653537	121653537	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcatactcactatctgaGaattctgaagaagataatag	16	12	6	7	0	4	4	2	2	3	3	5	5	4	4	0	0	1	0	0	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:121653537G>T	uc003vjy.2	+	12	4832	c.4437G>T	c.(4435-4437)GAG>GAT	p.E1479D	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1479	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						CACTATCTGAGAATTCTGAAG	0.398													26	59					6.32553e-13	7.03772e-13	1	1	0		T	121653537	T	T	121653537	3	4	89	1	0	0	0	0	1	0	0	0	12839	933	33	5	4483	5	PTPRZ1	7	121653537	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1940	121653537	37485126	3211	57042											
TAS2R16	50833	broad.mit.edu	37	chr7	122635462	122635462	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttaagttgcaaagtacaTaattcaaattaaaataggag	18	13	7	3	0	1	0	1	0	0	0	1	1	1	1	0	1	2	4	0	1	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:122635462T>C	uc003vkl.1	-	1	293	c.227A>G	c.(226-228)TAT>TGT	p.Y76C		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	76	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						GCAAAGTACATAATTCAAATT	0.393													32	54					0	0	1	0	0		C	122635462	C	C	122635462	3	2	89	1	0	0	0	0	1	0	0	0	15594	1406	49	3	652	3	TAS2R16	7	122635462	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	981925	122635462	36503201	3212	57043											
IQUB	154865	broad.mit.edu	37	chr7	123109296	123109296	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtttaagagttaacagcAcatccagcctctcatcttgg	10	13	8	10	0	2	1	1	0	2	1	4	1	3	1	2	1	3	3	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:123109296A>G	uc003vkn.2	-	9	2130	c.1553T>C	c.(1552-1554)GTG>GCG	p.V518A	IQUB_uc003vko.2_Missense_Mutation_p.V518A|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Missense_Mutation_p.V518A	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	518										ovary(3)|large_intestine(1)	4						AGTTAACAGCACATCCAGCCT	0.358													25	77					0	0	1	0	0		G	123109296	G	G	123109296	3	3	89	1	0	0	0	0	1	0	0	0	7836	159	6	3	842	3	IQUB	7	123109296	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	473834	123109296	36029367	3213	57044											
IQUB	154865	broad.mit.edu	37	chr7	123109360	123109360	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatagatattttgcagctCtctggctctgatggtgaact	8	16	9	8	0	2	3	0	2	2	1	3	3	2	3	0	2	3	3	0	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:123109360C>A	uc003vkn.2	-	9	2066	c.1489G>T	c.(1489-1491)GAG>TAG	p.E497*	IQUB_uc003vko.2_Nonsense_Mutation_p.E497*|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Nonsense_Mutation_p.E497*	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	497										ovary(3)|large_intestine(1)	4						TTTTGCAGCTCTCTGGCTCTG	0.358													39	65					1.32136e-16	1.52201e-16	1	1	0		A	123109360	A	A	123109360	4	1	89	1	0	0	0	0	0	1	0	0	7836	922	32	5	906	5	IQUB	7	123109360	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	64	123109360	36029303	3214	57045											
ASB15	142685	broad.mit.edu	37	chr7	123276892	123276892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcattgaagcatttgtgtCggttaaaaattcgaaggctt	11	15	10	5	2	1	1	1	1	0	0	3	2	1	1	0	2	1	4	0	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:123276892C>T	uc003vku.1	+	12	1916	c.1624C>T	c.(1624-1626)CGG>TGG	p.R542W	ASB15_uc003vkw.1_Missense_Mutation_p.R542W	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	542	SOCS box.				intracellular signal transduction					skin(2)|lung(1)	3						GCATTTGTGTCGGTTAAAAAT	0.378													37	63					0	0	1	0	0		T	123276892	T	T	123276892	3	4	89	1	0	0	0	0	1	0	0	0	1020	875	31	1	1658	1	ASB15	7	123276892	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	167532	123276892	35861771	3215	57046											
HYAL4	23553	broad.mit.edu	37	chr7	123509153	123509153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagacagtgaaaacattttgCgcttctccaaatttcgggtg	11	12	10	8	2	1	2	0	1	1	1	3	3	1	2	1	1	2	1	1	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:123509153C>T	uc003vlc.2	+	3	1464	c.826C>T	c.(826-828)CGC>TGC	p.R276C	HYAL4_uc011knz.1_Missense_Mutation_p.R276C	NM_012269	NP_036401	Q2M3T9	HYAL4_HUMAN	hyaluronoglucosaminidase 4	276	Extracellular (Potential).				fusion of sperm to egg plasma membrane|glycosaminoglycan catabolic process	integral to membrane	hyalurononglucosaminidase activity			skin(1)	1						AAACATTTTGCGCTTCTCCAA	0.458													24	61					0	0	1	0	0		T	123509153	T	T	123509153	3	4	89	1	0	0	0	0	1	0	0	0	7482	768	27	1	828	1	HYAL4	7	123509153	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	232261	123509153	35629510	3216	57047											
SPAM1	6677	broad.mit.edu	37	chr7	123599570	123599570	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctagacaattacatggaGactatactgaatccttacat	14	12	5	10	0	0	3	0	1	0	2	2	4	2	3	2	1	3	0	2	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:123599570G>T	uc003vld.2	+	6	1479	c.1077G>T	c.(1075-1077)GAG>GAT	p.E359D	SPAM1_uc003vle.2_Missense_Mutation_p.E359D|SPAM1_uc011koa.1_Missense_Mutation_p.E15D|SPAM1_uc003vlf.3_Missense_Mutation_p.E359D|SPAM1_uc010lku.2_Missense_Mutation_p.E359D	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	359					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	ATTACATGGAGACTATACTGA	0.363													19	39					8.10497e-08	8.54627e-08	1	1	0		T	123599570	T	T	123599570	3	4	89	1	0	0	0	0	1	0	0	0	15011	933	33	5	1087	5	SPAM1	7	123599570	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	90417	123599570	35539093	3217	57048											
POT1	25913	broad.mit.edu	37	chr7	124503537	124503537	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatatgagtagatgcccaaAcacgtaaggcttctaccatt	14	10	7	10	1	1	2	0	1	1	1	1	2	1	2	2	1	3	3	2	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:124503537A>G	uc003vlm.2	-	8	1014	c.413T>C	c.(412-414)GTT>GCT	p.V138A	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_Missense_Mutation_p.V7A|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	138					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						AGATGCCCAAACACGTAAGGC	0.433													45	86					0	0	1	0	0		G	124503537	G	G	124503537	3	3	89	1	0	0	0	0	1	0	0	0	12279	43	2	3	1539	3	POT1	7	124503537	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	903967	124503537	34635126	3218	57049											
POT1	25913	broad.mit.edu	37	chr7	124537223	124537223	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatatcatcttaccaaaGacattgattctgtagaaaaa	17	12	5	7	0	3	4	1	2	2	2	3	4	3	4	1	0	1	1	1	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:124537223G>T	uc003vlm.2	-	5	606	c.5C>A	c.(4-6)TCT>TAT	p.S2Y	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_5'UTR|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	2					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						TCTTACCAAAGACATTGATTC	0.299													15	44					0.000422831	0.000430665	1	1	0		T	124537223	T	T	124537223	3	4	89	1	0	0	0	0	1	0	0	0	12279	942	33	5	1959	5	POT1	7	124537223	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	33686	124537223	34601440	3219	57050											
GCC1	79571	broad.mit.edu	37	chr7	127222278	127222278	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtccctgatgttcttttcGatgtggctctgcagggctgc	3	15	13	10	1	2	1	0	1	2	0	4	2	3	1	1	3	2	4	1	3	0	3	rs141951933	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:127222278G>A	uc003vma.2	-	2	2536	c.2118C>T	c.(2116-2118)ATC>ATT	p.I706I		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	706	Potential.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						TGTTCTTTTCGATGTGGCTCT	0.592													53	84					0	0	1	0	0		A	127222278	A	A	127222278	2	1	89	1	0	0	0	0	0	0	0	1	6300	1048	37	1		1	GCC1	7	127222278	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2685055	127222278	31916385	3220	57051											
FSCN3	29999	broad.mit.edu	37	chr7	127235919	127235919	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatggagaaggaggcatgTtatatccacagggcacgcat	12	8	14	7	1	0	2	0	1	0	1	1	4	1	3	1	4	0	4	1	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:127235919T>C	uc003vmd.1	+	2	922	c.703T>C	c.(703-705)TTA>CTA	p.L235L	FSCN3_uc003vmc.1_Silent_p.L190L|FSCN3_uc011kog.1_RNA|FSCN3_uc011koh.1_Silent_p.L101L|FSCN3_uc010llc.1_Silent_p.L235L	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	235						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						AGGAGGCATGTTATATCCACA	0.572													33	58					0	0	1	0	0		C	127235919	C	C	127235919	2	2	89	1	0	0	0	0	0	0	0	1	6083	1722	60	3		3	FSCN3	7	127235919	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	13641	127235919	31902744	3221	57052											
SND1	27044	broad.mit.edu	37	chr7	127725811	127725811	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctgccaaaatacatgtCttctacattgactacggcaa	12	12	5	12	1	3	1	0	1	3	0	4	1	3	1	2	1	4	1	2	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:127725811C>A	uc003vmi.2	+	20	2509	c.2283C>A	c.(2281-2283)GTC>GTA	p.V761V	SND1_uc010lle.2_Silent_p.V414V	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	761	Tudor.				gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						AAATACATGTCTTCTACATTG	0.537													37	80					2.75727e-19	3.2379e-19	1	1	0		A	127725811	A	A	127725811	2	1	89	1	0	0	0	0	0	0	0	1	14869	900	32	5		5	SND1	7	127725811	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	489892	127725811	31412852	3222	57053											
IMPDH1	3614	broad.mit.edu	37	chr7	128034631	128034631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcccgagacaccctgcgCgatcttcactttatccccct	7	9	8	17	3	2	1	1	0	1	1	3	4	3	2	4	1	2	0	4	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:128034631C>T	uc011kol.1	-	12	1424	c.1318G>A	c.(1318-1320)GCG>ACG	p.A440T	IMPDH1_uc011kom.1_Missense_Mutation_p.A435T|IMPDH1_uc003vmt.2_Missense_Mutation_p.A415T|IMPDH1_uc003vmu.2_Missense_Mutation_p.A525T|IMPDH1_uc003vmw.2_Missense_Mutation_p.A515T|IMPDH1_uc011kon.1_Missense_Mutation_p.A492T|IMPDH1_uc003vmv.2_Missense_Mutation_p.A489T|IMPDH1_uc003vmx.2_Missense_Mutation_p.A448T|IMPDH1_uc003vmy.2_Missense_Mutation_p.A456T|uc011koo.1_5'Flank	NM_001142573	NP_001136045	P20839	IMDH1_HUMAN	inosine monophosphate dehydrogenase 1 isoform e	440					GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	DNA binding|IMP dehydrogenase activity|metal ion binding			skin(2)|lung(1)|central_nervous_system(1)	4					Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)|Ribavirin(DB00811)|Thioguanine(DB00352)	ACACCCTGCGCGATCTTCACT	0.587													26	38					0	0	1	0	0		T	128034631	T	T	128034631	3	4	89	1	0	0	0	0	1	0	0	0	7742	768	27	1	238	1	IMPDH1	7	128034631	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	308820	128034631	31104032	3223	57054											
FAM71F1	84691	broad.mit.edu	37	chr7	128366916	128366916	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggtggagaccaacaagAacagctcaggtaagggaggg	16	3	16	6	0	1	2	1	0	0	2	1	5	1	3	1	5	3	2	1	5	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:128366916A>C	uc003vno.1	+	5	897	c.844A>C	c.(844-846)AAC>CAC	p.N282H	FAM71F1_uc003vnm.1_RNA|FAM71F1_uc003vnn.1_Missense_Mutation_p.N181H|FAM71F1_uc010llp.1_RNA|FAM71F1_uc003vnp.1_Missense_Mutation_p.N280H	NM_032599	NP_115988	Q96KD3	F71F1_HUMAN	testes development-related NYD-SP18	282										skin(1)	1						GACCAACAAGAACAGCTCAGG	0.448													20	55					0	0	1	0	0		C	128366916	C	C	128366916	3	2	89	1	0	0	0	0	1	0	0	0	5626	246	9	5	862	5	FAM71F1	7	128366916	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	332285	128366916	30771747	3224	57055											
FLNC	2318	broad.mit.edu	37	chr7	128497188	128497188	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtgtgtcatcagagttCatcgtgaacaccctgaatgc	10	10	10	11	1	3	3	3	2	0	1	4	3	3	3	2	1	2	1	2	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:128497188C>A	uc003vnz.3	+	46	7787	c.7578C>A	c.(7576-7578)TTC>TTA	p.F2526L	FLNC_uc003voa.3_Missense_Mutation_p.F2493L	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2526	Interaction with INPPL1.|Filamin 23.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CATCAGAGTTCATCGTGAACA	0.632													71	144					2.97807e-44	3.69754e-44	1	1	0		A	128497188	A	A	128497188	3	1	89	1	0	0	0	0	1	0	0	0	5949	825	29	5	7760	5	FLNC	7	128497188	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	130272	128497188	30641475	3225	57056											
SMO	6608	broad.mit.edu	37	chr7	128845085	128845085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaacagttcaggccagtgCgaagtgcccttggttcggac	8	10	12	11	2	2	0	2	0	0	0	3	2	2	1	2	3	3	2	2	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:128845085C>T	uc003vor.2	+	3	859	c.579C>T	c.(577-579)TGC>TGT	p.C193C	SMO_uc003vos.2_5'Flank	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	193	Extracellular (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						CAGGCCAGTGCGAAGTGCCCT	0.577			Mis		skin basal cell 								19	23					0	0	1	0	0		T	128845085	T	T	128845085	2	4	89	1	0	0	0	0	0	0	0	1	14825	776	27	1		1	SMO	7	128845085	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	347897	128845085	30293578	3226	57057											
SMO	6608	broad.mit.edu	37	chr7	128849216	128849216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaccaggctgagtgggagCgcagcttccgggactatgtg	8	8	15	10	2	1	1	1	1	0	0	2	3	2	3	2	3	3	3	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:128849216C>T	uc003vor.2	+	8	1724	c.1444C>T	c.(1444-1446)CGC>TGC	p.R482C	SMO_uc003vos.2_Missense_Mutation_p.R157C	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	482	Extracellular (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						TGAGTGGGAGCGCAGCTTCCG	0.592			Mis		skin basal cell 								13	28					0	0	1	0	0		T	128849216	T	T	128849216	3	4	89	1	0	0	0	0	1	0	0	0	14825	768	27	1	1474	1	SMO	7	128849216	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4131	128849216	30289447	3227	57058											
NRF1	4899	broad.mit.edu	37	chr7	129297378	129297378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagatatactcaactccacaGcagctgatgaggtgacagct	13	8	9	11	0	1	4	1	3	0	1	2	4	2	4	1	1	5	3	1	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:129297378G>A	uc003voz.2	+	2	304	c.187G>A	c.(187-189)GCA>ACA	p.A63T	NRF1_uc003vpa.2_Missense_Mutation_p.A63T|NRF1_uc011kpa.1_5'UTR|NRF1_uc003vpb.2_Missense_Mutation_p.A63T	NM_005011	NP_005002	Q16656	NRF1_HUMAN	nuclear respiratory factor 1	63	Dimerization.|Asp/Glu-rich (acidic).				generation of precursor metabolites and energy|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						CAACTCCACAGCAGCTGATGA	0.408													33	64					0	0	1	0	0		A	129297378	A	A	129297378	3	1	89	1	0	0	0	0	1	0	0	0	10665	971	34	2	189	2	NRF1	7	129297378	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	448162	129297378	29841285	3228	57059											
KLHDC10	23008	broad.mit.edu	37	chr7	129770576	129770576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacacagggactcatcgaacGcttgaaatgaggatttctgg	12	9	11	9	2	2	2	1	2	1	0	3	5	2	4	0	3	1	1	0	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:129770576G>A	uc003vpj.1	+	10	1454	c.1319G>A	c.(1318-1320)CGC>CAC	p.R440H	KLHDC10_uc003vpk.1_Missense_Mutation_p.R411H|KLHDC10_uc010lmb.1_Missense_Mutation_p.R337H	NM_014997	NP_055812	Q6PID8	KLD10_HUMAN	kelch domain containing 10	440											0						CTCATCGAACGCTTGAAATGA	0.453													32	77					0	0	1	0	0		A	129770576	A	A	129770576	3	1	89	1	0	0	0	0	1	0	0	0	8371	1087	38	1	1357	1	KLHDC10	7	129770576	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	473198	129770576	29368087	3229	57060											
CPA2	1358	broad.mit.edu	37	chr7	129910557	129910557	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggacaaagagaatgaaGaaatgctttttaataggaga	17	11	11	2	0	0	4	0	1	0	3	0	7	0	5	0	2	1	2	0	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:129910557G>T	uc003vpq.2	+	4	332	c.313G>T	c.(313-315)GAA>TAA	p.E105*	CPA2_uc011kpc.1_Nonsense_Mutation_p.E105*	NM_001869	NP_001860	P48052	CBPA2_HUMAN	carboxypeptidase A2 (pancreatic) precursor	105					proteolysis|vacuolar protein catabolic process	extracellular region|vacuole	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					AGAGAATGAAGAAATGCTTTT	0.393													20	58					1.50039e-11	1.64695e-11	1	1	0		T	129910557	T	T	129910557	4	4	89	1	0	0	0	0	0	1	0	0	3793	943	33	5	327	5	CPA2	7	129910557	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	139981	129910557	29228106	3230	57061											
TSGA13	114960	broad.mit.edu	37	chr7	130356562	130356562	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctgagggtacattttcttCtgtgtcctcaaagcgtagac	9	13	10	9	1	3	2	1	1	2	1	4	2	4	2	1	1	3	3	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:130356562C>T	uc003vqi.2	-	7	1054	c.597G>A	c.(595-597)CAG>CAA	p.Q199Q	COPG2_uc003vqh.1_5'Flank|TSGA13_uc003vqj.2_Silent_p.Q199Q	NM_052933	NP_443165	Q96PP4	TSG13_HUMAN	testis specific, 13	199										ovary(2)	2	Melanoma(18;0.0435)					ACATTTTCTTCTGTGTCCTCA	0.413													53	98					0	0	1	0	0		T	130356562	T	T	130356562	2	4	89	1	0	0	0	0	0	0	0	1	16645	912	32	4		4	TSGA13	7	130356562	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	446005	130356562	28782101	3231	57062											
MKLN1	4289	broad.mit.edu	37	chr7	131084189	131084189	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttgattgaaaaggctgtaAatggtatgaaacttagattg	15	13	11	2	0	0	4	0	3	0	1	0	4	0	4	0	2	1	4	0	2	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:131084189A>C	uc011kpm.1	+	6	764	c.700A>C	c.(700-702)AAT>CAT	p.N234H	MKLN1_uc011kpl.1_Missense_Mutation_p.N211H|MKLN1_uc010lmh.2_Missense_Mutation_p.N234H|MKLN1_uc003vqs.2_Missense_Mutation_p.N27H	NM_013255	NP_037387	Q9UL63	MKLN1_HUMAN	muskelin 1, intracellular mediator containing	234	CTLH.				signal transduction	cytoplasm	protein binding			breast(1)	1	Melanoma(18;0.162)					AAAGGCTGTAAATGGTATGAA	0.348													55	93					0	0	1	0	0		C	131084189	C	C	131084189	3	2	89	1	0	0	0	0	1	0	0	0	9621	14	1	5	755	5	MKLN1	7	131084189	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	727627	131084189	28054474	3232	57063											
EXOC4	60412	broad.mit.edu	37	chr7	133502136	133502136	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagccaaacagtgtcctcttCgagagtttctcaccgtgtac	9	11	8	13	2	2	1	1	0	2	1	5	2	3	1	3	0	3	2	3	0	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:133502136C>T	uc003vrk.2	+	11	1608	c.1573C>T	c.(1573-1575)CGA>TGA	p.R525*	EXOC4_uc011kpo.1_Nonsense_Mutation_p.R424*|EXOC4_uc003vrl.2_Nonsense_Mutation_p.R135*|EXOC4_uc011kpp.1_Nonsense_Mutation_p.R57*	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	525					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				GTGTCCTCTTCGAGAGTTTCT	0.413													11	29					0	0	1	0	0		T	133502136	T	T	133502136	4	4	89	1	0	0	0	0	0	1	0	0	5314	876	31	1	1624	1	EXOC4	7	133502136	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2417947	133502136	25636527	3233	57064											
EXOC4	60412	broad.mit.edu	37	chr7	133749115	133749115	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtggaccagggtgtgaagtAcacggagctggagtacatcc	10	7	16	8	1	0	1	0	1	0	0	1	4	1	4	2	5	3	3	2	5	3	2	rs138103779		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:133749115A>G	uc003vrk.2	+	18	2794	c.2759A>G	c.(2758-2760)TAC>TGC	p.Y920C	EXOC4_uc011kpo.1_Missense_Mutation_p.Y819C|EXOC4_uc003vrl.2_Missense_Mutation_p.Y530C|EXOC4_uc011kpp.1_Missense_Mutation_p.Y452C|EXOC4_uc011kpq.1_Missense_Mutation_p.Y208C	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	920					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				GGTGTGAAGTACACGGAGCTG	0.572													26	41					0	0	1	0	0		G	133749115	G	G	133749115	3	3	89	1	0	0	0	0	1	0	0	0	5314	391	14	3	2838	3	EXOC4	7	133749115	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	246979	133749115	25389548	3234	57065											
LRGUK	136332	broad.mit.edu	37	chr7	133812199	133812199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcagatcccgaactggaGcccgatcgttacagtttcgc	8	9	12	12	4	0	1	0	0	0	1	3	4	1	2	2	2	3	3	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:133812199G>A	uc003vrm.1	+	1	95	c.79G>A	c.(79-81)GCC>ACC	p.A27T		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	27							ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						CCGAACTGGAGCCCGATCGTT	0.572													39	109					0	0	1	0	0		A	133812199	A	A	133812199	3	1	89	1	0	0	0	0	1	0	0	0	8961	971	34	2	81	2	LRGUK	7	133812199	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	63084	133812199	25326464	3235	57066											
LRGUK	136332	broad.mit.edu	37	chr7	133859329	133859329	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgagctgagagaaataGaatacattaaaaatttaccc	17	11	7	6	0	0	4	0	2	0	2	0	5	0	4	1	0	4	2	1	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:133859329G>T	uc003vrm.1	+	8	977	c.961G>T	c.(961-963)GAA>TAA	p.E321*		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	321	LRR 9.						ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						GAGAGAAATAGAATACATTAA	0.323													39	62					4.32679e-17	4.9986e-17	1	1	0		T	133859329	T	T	133859329	4	4	89	1	0	0	0	0	0	1	0	0	8961	943	33	5	991	5	LRGUK	7	133859329	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	47130	133859329	25279334	3236	57067											
LRGUK	136332	broad.mit.edu	37	chr7	133884125	133884125	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagagtggacctttatattAaaattaatcagaattttccg	14	14	6	7	1	1	2	1	0	0	2	2	3	2	3	3	1	0	0	3	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:133884125A>C	uc003vrm.1	+	14	1715	c.1699A>C	c.(1699-1701)AAA>CAA	p.K567Q		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	567	Guanylate kinase-like.						ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						CCTTTATATTAAAATTAATCA	0.333													57	101					0	0	1	0	0		C	133884125	C	C	133884125	3	2	89	1	0	0	0	0	1	0	0	0	8961	363	13	5	1753	5	LRGUK	7	133884125	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	24796	133884125	25254538	3237	57068											
SLC35B4	84912	broad.mit.edu	37	chr7	133979591	133979591	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccagacaggcctcagttCttcttgctgtccttctgagg	6	13	9	13	0	4	2	1	1	3	1	6	2	6	2	3	2	1	2	3	2	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:133979591C>A	uc003vrn.2	-	10	1314	c.990G>T	c.(988-990)AAG>AAT	p.K330N	SLC35B4_uc010lmk.2_Missense_Mutation_p.K194N|SLC35B4_uc010lml.1_Intron	NM_032826	NP_116215	Q969S0	S35B4_HUMAN	solute carrier family 35, member B4	330						Golgi membrane|integral to membrane	UDP-N-acetylglucosamine transmembrane transporter activity|UDP-xylose transmembrane transporter activity			skin(1)	1						GGCCTCAGTTCTTCTTGCTGT	0.527													12	45					1.02788e-11	1.1298e-11	1	1	0		A	133979591	A	A	133979591	3	1	89	1	0	0	0	0	1	0	0	0	14603	912	32	5	9	5	SLC35B4	7	133979591	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	95466	133979591	25159072	3238	57069											
BPGM	669	broad.mit.edu	37	chr7	134346766	134346766	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagagactccttccctattgGaatgaaaggattgctcccga	11	10	10	10	1	0	2	0	1	0	1	3	7	3	4	3	2	1	1	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:134346766G>T	uc003vrv.2	+	3	1048	c.507G>T	c.(505-507)TGG>TGT	p.W169C	BPGM_uc003vrw.2_Missense_Mutation_p.W169C|BPGM_uc003vrx.2_Missense_Mutation_p.W169C	NM_199186	NP_954655	P07738	PMGE_HUMAN	bisphosphoglycerate mutase	169					glycolysis|respiratory gaseous exchange		2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity|phosphoglycerate mutase activity				0						TTCCCTATTGGAATGAAAGGA	0.468													31	55					2.61193e-14	2.9448e-14	1	1	0		T	134346766	T	T	134346766	3	4	89	1	0	0	0	0	1	0	0	0	1491	1183	41	5	509	5	BPGM	7	134346766	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	367175	134346766	24791897	3239	57070											
CALD1	800	broad.mit.edu	37	chr7	134552495	134552495	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatcacaccatggatgattTtgagcgtcgcagagaactta	14	10	9	8	2	1	3	1	2	0	1	2	5	1	4	1	1	2	1	1	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:134552495T>G	uc003vrz.2	+	3	470	c.11T>G	c.(10-12)TTT>TGT	p.F4C	CALD1_uc003vry.2_Missense_Mutation_p.F4C|CALD1_uc003vsa.2_Missense_Mutation_p.F4C|CALD1_uc003vsb.2_Missense_Mutation_p.F4C|CALD1_uc010lmm.2_Missense_Mutation_p.F4C|CALD1_uc011kpt.1_5'UTR	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	4					cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						ATGGATGATTTTGAGCGTCGC	0.433													9	11					0	0	1	0	0		G	134552495	G	G	134552495	3	3	89	1	0	0	0	0	1	0	0	0	2584	1841	64	5	13	5	CALD1	7	134552495	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	205729	134552495	24586168	3240	57071											
CALD1	800	broad.mit.edu	37	chr7	134613557	134613557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggcagcccgggaacggCgccgccgagcccgacaggaa	10	0	17	14	6	0	0	0	0	0	0	0	5	0	3	4	5	3	1	4	5	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:134613557C>T	uc003vrz.2	+	4	583	c.124C>T	c.(124-126)CGC>TGC	p.R42C	CALD1_uc003vry.2_Missense_Mutation_p.R42C|CALD1_uc003vsa.2_Missense_Mutation_p.R42C|CALD1_uc003vsb.2_Missense_Mutation_p.R42C|CALD1_uc010lmm.2_Missense_Mutation_p.R42C|CALD1_uc011kpt.1_5'UTR|CALD1_uc003vsc.2_Missense_Mutation_p.R36C|CALD1_uc003vsd.2_Missense_Mutation_p.R36C|CALD1_uc011kpu.1_Missense_Mutation_p.R47C|CALD1_uc011kpv.1_5'UTR	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	42	Poly-Arg.|Myosin and calmodulin-binding (By similarity).				cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						CCGGGAACGGCGCCGCCGAGC	0.587													25	29					0	0	1	0	0		T	134613557	T	T	134613557	3	4	89	1	0	0	0	0	1	0	0	0	2584	768	27	1	187	1	CALD1	7	134613557	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	61062	134613557	24525106	3241	57072											
CALD1	800	broad.mit.edu	37	chr7	134618087	134618087	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaagaaagaagacaaggaAaaggaggaggaggaagagga	23	0	16	2	0	0	4	0	0	0	4	0	10	0	10	0	6	1	0	0	6	8	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:134618087A>C	uc003vrz.2	+	5	1026	c.567A>C	c.(565-567)GAA>GAC	p.E189D	CALD1_uc003vry.2_Missense_Mutation_p.E189D|CALD1_uc003vsa.2_Missense_Mutation_p.E189D|CALD1_uc003vsb.2_Missense_Mutation_p.E189D|CALD1_uc010lmm.2_Missense_Mutation_p.E189D|CALD1_uc011kpt.1_5'UTR|CALD1_uc003vsc.2_Missense_Mutation_p.E183D|CALD1_uc003vsd.2_Missense_Mutation_p.E183D|CALD1_uc011kpu.1_Missense_Mutation_p.E194D|CALD1_uc011kpv.1_Missense_Mutation_p.E53D|CALD1_uc003vse.2_Missense_Mutation_p.E53D	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	189	Poly-Glu.|Myosin and calmodulin-binding (By similarity).				cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						aagacaaggaaaaggaggagg	0.214													6	13					0	0	1	0	0		C	134618087	C	C	134618087	3	2	89	1	0	0	0	0	1	0	0	0	2584	11	1	5	634	5	CALD1	7	134618087	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4530	134618087	24520576	3242	57073											
C7orf49	78996	broad.mit.edu	37	chr7	134852550	134852550	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgcagtacacagtccttgtCgcagggagtctgaaaaaaag	14	8	11	8	1	1	1	0	1	1	0	3	2	2	2	1	1	2	3	1	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:134852550C>T	uc003vsl.2	-	3	414	c.147G>A	c.(145-147)GCG>GCA	p.A49A	C7orf49_uc003vsh.2_Intron|C7orf49_uc003vsj.2_Silent_p.A20A|C7orf49_uc003vsk.2_RNA|C7orf49_uc003vsm.2_RNA|C7orf49_uc003vsn.2_Silent_p.A48A|C7orf49_uc003vso.2_5'UTR	NM_024033	NP_076938	Q9BWK5	MRI_HUMAN	modulator of retrovirus infection	49						cytoplasm				large_intestine(1)|ovary(1)	2						CAGTCCTTGTCGCAGGGAGTC	0.483													13	39					0	0	1	0	0		T	134852550	T	T	134852550	2	4	89	1	0	0	0	0	0	0	0	1	2401	871	31	1		1	C7orf49	7	134852550	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	234463	134852550	24286113	3243	57074											
FAM180A	389558	broad.mit.edu	37	chr7	135418926	135418926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggagaggctggcgctgaGccggcggatgtctgggatgc	5	7	20	9	3	1	2	0	1	1	1	1	5	1	4	1	6	2	3	1	6	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:135418926G>A	uc003vtd.2	-	3	585	c.319C>T	c.(319-321)CTC>TTC	p.L107F	FAM180A_uc010lmt.2_RNA|FAM180A_uc010lmu.2_Missense_Mutation_p.L107F	NM_205855	NP_995327	Q6UWF9	F180A_HUMAN	hypothetical protein LOC389558 precursor	107						extracellular region				ovary(2)	2						CTGGCGCTGAGCCGGCGGATG	0.607													50	83					0	0	1	0	0		A	135418926	A	A	135418926	3	1	89	1	0	0	0	0	1	0	0	0	5518	971	34	2	206	2	FAM180A	7	135418926	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	566376	135418926	23719737	3244	57075											
CHRM2	1129	broad.mit.edu	37	chr7	136700761	136700761	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctccttcccgggaaaaGaaagtcaccaggacaatctt	12	8	7	14	1	2	1	1	0	1	1	5	3	5	3	5	2	0	0	5	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:136700761G>T	uc003vtf.1	+	4	1772	c.1149G>T	c.(1147-1149)AAG>AAT	p.K383N	CHRM2_uc003vtg.1_Missense_Mutation_p.K383N|CHRM2_uc003vtj.1_Missense_Mutation_p.K383N|CHRM2_uc003vtk.1_Missense_Mutation_p.K383N|CHRM2_uc003vtl.1_Missense_Mutation_p.K383N|CHRM2_uc003vtm.1_Missense_Mutation_p.K383N|CHRM2_uc003vti.1_Missense_Mutation_p.K383N|CHRM2_uc003vto.1_Missense_Mutation_p.K383N|CHRM2_uc003vtn.1_Missense_Mutation_p.K383N|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	383	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	CCCGGGAAAAGAAAGTCACCA	0.458													37	96					6.05902e-23	7.24288e-23	1	1	0		T	136700761	T	T	136700761	3	4	89	1	0	0	0	0	1	0	0	0	3380	933	33	5	1151	5	CHRM2	7	136700761	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1281835	136700761	22437902	3245	57076											
AKR1D1	6718	broad.mit.edu	37	chr7	137761318	137761318	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagtgatggaaacagcatTcccatcatcggacttggtac	12	10	9	10	1	1	1	1	1	0	0	3	3	2	3	1	3	3	2	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:137761318T>C	uc003vtz.2	+	1	123	c.54T>C	c.(52-54)ATT>ATC	p.I18I	AKR1D1_uc011kqb.1_Silent_p.I18I|AKR1D1_uc011kqc.1_Intron|AKR1D1_uc011kqd.1_Intron|AKR1D1_uc011kqe.1_Silent_p.I18I|AKR1D1_uc011kqf.1_Silent_p.I18I	NM_005989	NP_005980	P51857	AK1D1_HUMAN	aldo-keto reductase family 1, member D1	18					androgen metabolic process|bile acid biosynthetic process|bile acid catabolic process|C21-steroid hormone metabolic process|cholesterol catabolic process|digestion	cytosol	aldo-keto reductase (NADP) activity|delta4-3-oxosteroid 5beta-reductase activity|steroid binding			skin(1)	1						GAAACAGCATTCCCATCATCG	0.433													27	48					0	0	1	0	0		C	137761318	C	C	137761318	2	2	89	1	0	0	0	0	0	0	0	1	473	1771	62	3		3	AKR1D1	7	137761318	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1060557	137761318	21377345	3246	57077											
AKR1D1	6718	broad.mit.edu	37	chr7	137776597	137776597	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagctagattatgtggaTctttacatcattgaagtacc	11	14	7	9	0	2	2	1	1	1	1	3	3	3	3	2	1	3	2	2	1	5	6	rs146747335		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:137776597T>G	uc003vtz.2	+	3	414	c.345T>G	c.(343-345)GAT>GAG	p.D115E	AKR1D1_uc011kqb.1_Missense_Mutation_p.D115E|AKR1D1_uc011kqc.1_RNA|AKR1D1_uc011kqd.1_Intron|AKR1D1_uc011kqe.1_Missense_Mutation_p.D115E|AKR1D1_uc011kqf.1_Missense_Mutation_p.D115E|AKR1D1_uc010lmy.1_RNA	NM_005989	NP_005980	P51857	AK1D1_HUMAN	aldo-keto reductase family 1, member D1	115					androgen metabolic process|bile acid biosynthetic process|bile acid catabolic process|C21-steroid hormone metabolic process|cholesterol catabolic process|digestion	cytosol	aldo-keto reductase (NADP) activity|delta4-3-oxosteroid 5beta-reductase activity|steroid binding			skin(1)	1						ATTATGTGGATCTTTACATCA	0.493													37	68					0	0	1	0	0		G	137776597	G	G	137776597	3	3	89	1	0	0	0	0	1	0	0	0	473	1432	50	5	355	5	AKR1D1	7	137776597	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15279	137776597	21362066	3247	57078											
TRIM24	8805	broad.mit.edu	37	chr7	138223421	138223421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagccttgcaaaggaccatcGcatgaaacttatgcaacaac	15	7	8	11	1	0	1	0	1	0	0	1	3	0	2	2	1	6	3	2	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:138223421G>A	uc003vuc.2	+	7	1231	c.1016G>A	c.(1015-1017)CGC>CAC	p.R339H	TRIM24_uc003vub.2_Missense_Mutation_p.R339H	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	339	Potential.				cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						AAGGACCATCGCATGAAACTT	0.388													43	84					0	0	1	0	0		A	138223421	A	A	138223421	3	1	89	1	0	0	0	0	1	0	0	0	16524	1087	38	1	1042	1	TRIM24	7	138223421	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	446824	138223421	20915242	3248	57079											
ATP6V0A4	50617	broad.mit.edu	37	chr7	138413516	138413516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccttacctgggatttcCgatgactggctctaagaata	10	11	9	11	1	1	2	0	1	1	1	2	4	2	3	3	2	2	1	3	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:138413516C>T	uc003vuf.2	-	17	2238	c.2000G>A	c.(1999-2001)CGG>CAG	p.R667Q	ATP6V0A4_uc003vug.2_Missense_Mutation_p.R667Q|ATP6V0A4_uc003vuh.2_Missense_Mutation_p.R667Q	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	667	Cytoplasmic (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						CTGGGATTTCCGATGACTGGC	0.433													86	147					0	0	1	0	0		T	138413516	T	T	138413516	3	4	89	1	0	0	0	0	1	0	0	0	1171	652	23	1	542	1	ATP6V0A4	7	138413516	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	190095	138413516	20725147	3249	57080											
KIAA1549	57670	broad.mit.edu	37	chr7	138602923	138602923	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataggtctggaggggaaaagCgtattaaatacttgaggatc	14	10	13	4	1	1	1	0	1	1	0	2	4	1	4	0	5	2	1	0	5	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:138602923C>T	uc011kql.1	-	2	1498	c.1449G>A	c.(1447-1449)ACG>ACA	p.T483T	KIAA1549_uc003vuk.3_Silent_p.T433T|KIAA1549_uc011kqj.1_Silent_p.T483T	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	483						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						AGGGGAAAAGCGTATTAAATA	0.458			O	BRAF	pilocytic astrocytoma								18	21					0	0	1	0	0		T	138602923	T	T	138602923	2	4	89	1	0	0	0	0	0	0	0	1	8260	755	27	1		1	KIAA1549	7	138602923	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	189407	138602923	20535740	3250	57081											
KIAA1549	57670	broad.mit.edu	37	chr7	138603839	138603839	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctggtgggctgactgtgAtatactgtattggagaaacc	9	11	13	8	0	0	3	0	2	0	1	0	4	0	3	2	3	2	2	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:138603839A>G	uc011kql.1	-	2	582	c.533T>C	c.(532-534)ATC>ACC	p.I178T	KIAA1549_uc003vuk.3_Missense_Mutation_p.I128T|KIAA1549_uc011kqj.1_Missense_Mutation_p.I178T	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	178						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GCTGACTGTGATATACTGTAT	0.488			O	BRAF	pilocytic astrocytoma								52	94					0	0	1	0	0		G	138603839	G	G	138603839	3	3	89	1	0	0	0	0	1	0	0	0	8260	333	12	3	5395	3	KIAA1549	7	138603839	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	916	138603839	20534824	3251	57082											
TTC26	79989	broad.mit.edu	37	chr7	138824735	138824735	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatgtataaacaagctgaaGcagctggatttaaaggtaaa	17	9	11	4	0	0	1	0	1	0	0	0	3	0	3	0	3	4	5	0	3	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:138824735G>T	uc003vus.2	+	4	448	c.334G>T	c.(334-336)GCA>TCA	p.A112S	TTC26_uc003vuq.2_Missense_Mutation_p.A112S|TTC26_uc011kqm.1_Missense_Mutation_p.A112S|TTC26_uc003vur.3_Missense_Mutation_p.A112S|TTC26_uc011kqn.1_Missense_Mutation_p.A112S|TTC26_uc011kqo.1_Missense_Mutation_p.A81S|TTC26_uc011kqp.1_Missense_Mutation_p.A7S|TTC26_uc003vut.2_5'UTR|TTC26_uc011kqq.1_Missense_Mutation_p.A112S	NM_024926	NP_079202	A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26 isoform 1	112	TPR 2.						binding			ovary(1)	1						ACAAGCTGAAGCAGCTGGATT	0.338													30	64					8.58068e-18	9.97771e-18	1	1	0		T	138824735	T	T	138824735	3	4	89	1	0	0	0	0	1	0	0	0	16720	971	34	5	348	5	TTC26	7	138824735	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	220896	138824735	20313928	3252	57083											
UBN2	254048	broad.mit.edu	37	chr7	138954206	138954206	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctactcccaccttgaagcTtttgtgccatgcaataaaga	11	12	7	11	0	1	2	0	1	1	1	2	2	2	2	3	0	4	2	3	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:138954206T>G	uc011kqr.1	+	8	1533	c.1533T>G	c.(1531-1533)GCT>GCG	p.A511A	UBN2_uc003vuv.2_Silent_p.A234A	NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	511										ovary(1)|skin(1)	2						ACCTTGAAGCTTTTGTGCCAT	0.393													30	62					0	0	1	0	0		G	138954206	G	G	138954206	2	3	89	1	0	0	0	0	0	0	0	1	16919	1596	56	5		5	UBN2	7	138954206	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	129471	138954206	20184457	3253	57084											
UBN2	254048	broad.mit.edu	37	chr7	138954246	138954246	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacactagtaaaacgtctgAagaagttacatctcaatgtc	17	10	6	8	1	2	2	1	1	2	1	4	2	2	2	0	0	3	2	0	0	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:138954246A>C	uc011kqr.1	+	8	1573	c.1573A>C	c.(1573-1575)AAG>CAG	p.K525Q	UBN2_uc003vuv.2_Missense_Mutation_p.K248Q	NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	525										ovary(1)|skin(1)	2						AAAACGTCTGAAGAAGTTACA	0.408													12	63					0	0	1	0	0		C	138954246	C	C	138954246	3	2	89	1	0	0	0	0	1	0	0	0	16919	247	9	5	1603	5	UBN2	7	138954246	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	40	138954246	20184417	3254	57085											
SLC37A3	84255	broad.mit.edu	37	chr7	140045060	140045060	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggacttatcatttggaGaacctgtgagggaagacaca	13	10	12	6	0	1	4	1	2	0	2	1	7	1	6	1	3	1	0	1	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:140045060G>T	uc003vvo.2	-	12	1296	c.1130C>A	c.(1129-1131)TCT>TAT	p.S377Y	SLC37A3_uc003vvn.2_5'Flank|SLC37A3_uc003vvp.2_Intron|SLC37A3_uc010lnh.2_Intron	NM_207113	NP_996996	Q8NCC5	SPX3_HUMAN	solute carrier family 37 (glycerol-3-phosphate	377	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane				ovary(3)	3	Melanoma(164;0.0142)					ATCATTTGGAGAACCTGTGAG	0.498													11	33					0.000978159	0.000993685	1	1	0		T	140045060	T	T	140045060	3	4	89	1	0	0	0	0	1	0	0	0	14624	942	33	5	519	5	SLC37A3	7	140045060	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1090814	140045060	19093603	3255	57086											
BRAF	673	broad.mit.edu	37	chr7	140501256	140501256	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcagtggaacttctgtactAcaacgctggtgaaatttata	13	13	8	7	1	2	1	1	1	1	0	2	2	2	2	0	2	4	2	0	2	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:140501256A>G	uc003vwc.3	-	6	877	c.816T>C	c.(814-816)TGT>TGC	p.C272C		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	272	Phorbol-ester/DAG-type.	Zinc 2 (By similarity).			activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	CTTCTGTACTACAACGCTGGT	0.348		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				22	34					0	0	1	0	0		G	140501256	G	G	140501256	2	3	89	1	0	0	0	0	0	0	0	1	1499	389	14	3		3	BRAF	7	140501256	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	456196	140501256	18637407	3256	57087											
MRPS33	51650	broad.mit.edu	37	chr7	140706259	140706259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttgctgctcttttcccttCtcctttctttggtttctcct	0	24	4	13	0	4	0	0	0	4	0	7	0	5	0	3	1	2	3	3	1	0	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:140706259C>T	uc003vwd.3	-	3	448	c.292G>A	c.(292-294)GAA>AAA	p.E98K	MRPS33_uc003vwe.3_Missense_Mutation_p.E98K	NM_016071	NP_057155	Q9Y291	RT33_HUMAN	mitochondrial ribosomal protein S33	98					translation	mitochondrial small ribosomal subunit	structural constituent of ribosome				0	Melanoma(164;0.00956)					CTTTTCCCTTCTCCTTTCTTT	0.403													33	88					0	0	1	0	0		T	140706259	T	T	140706259	3	4	89	1	0	0	0	0	1	0	0	0	9860	922	32	4	32	4	MRPS33	7	140706259	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	205003	140706259	18432404	3257	57088											
OR9A4	130075	broad.mit.edu	37	chr7	141618771	141618771	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttttgctatattcttcttTttctacttggtgacattaat	7	23	4	7	0	3	1	0	1	3	0	3	1	3	1	0	1	2	1	0	1	4	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:141618771T>G	uc003vwu.1	+	1	96	c.96T>G	c.(94-96)TTT>TTG	p.F32L		NM_001001656	NP_001001656	Q8NGU2	OR9A4_HUMAN	olfactory receptor, family 9, subfamily A,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.0171)					TATTCTTCTTTTTCTACTTGG	0.403													72	180					0	0	1	0	0		G	141618771	G	G	141618771	3	3	89	1	0	0	0	0	1	0	0	0	11268	1838	64	5	98	5	OR9A4	7	141618771	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	912512	141618771	17519892	3258	57089											
MGAM	8972	broad.mit.edu	37	chr7	141705352	141705352	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcaagaaagaagctgaaaAaatttactactttggagatt	17	11	9	4	0	0	4	0	1	0	3	0	5	0	4	0	2	3	2	0	2	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:141705352A>C	uc003vwy.2	+	2	76	c.22A>C	c.(22-24)AAA>CAA	p.K8Q		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	8	Cytoplasmic (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GAAGCTGAAAAAATTTACTAC	0.279													4	8					0	0	1	0	0		C	141705352	C	C	141705352	3	2	89	1	0	0	0	0	1	0	0	0	9559	15	1	5	24	5	MGAM	7	141705352	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	86581	141705352	17433311	3259	57090											
EPHB6	2051	broad.mit.edu	37	chr7	142568100	142568100	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttgaccagctggtggctgCatttgacaagatgatccgca	9	12	11	9	1	0	4	0	3	0	1	1	4	1	4	2	2	2	4	2	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:142568100C>A	uc011kst.1	+	18	3528	c.2741C>A	c.(2740-2742)GCA>GAA	p.A914E	EPHB6_uc011ksu.1_Missense_Mutation_p.A914E|EPHB6_uc003wbs.2_Missense_Mutation_p.A622E|EPHB6_uc003wbt.2_Missense_Mutation_p.A388E|EPHB6_uc003wbu.2_Missense_Mutation_p.A622E|EPHB6_uc003wbv.2_Missense_Mutation_p.A298E	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	914	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					CTGGTGGCTGCATTTGACAAG	0.607													48	117					2.51966e-14	2.84312e-14	1	1	0		A	142568100	A	A	142568100	3	1	89	1	0	0	0	0	1	0	0	0	5186	710	25	5	2795	5	EPHB6	7	142568100	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	862748	142568100	16570563	3260	57091											
TRPV6	55503	broad.mit.edu	37	chr7	142583225	142583225	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacttgctccataggcagaGaattagccctttctccttgg	9	12	9	11	0	1	1	0	0	1	1	3	3	2	1	3	2	3	2	3	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:142583225G>T	uc003wbx.1	-	1	253	c.37C>A	c.(37-39)CTC>ATC	p.L13I		NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	13	Cytoplasmic (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					CATAGGCAGAGAATTAGCCCT	0.612													31	77					4.65686e-17	5.37613e-17	1	1	0		T	142583225	T	T	142583225	3	4	89	1	0	0	0	0	1	0	0	0	16626	942	33	5	2200	5	TRPV6	7	142583225	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	15125	142583225	16555438	3261	57092											
TRPV5	56302	broad.mit.edu	37	chr7	142611833	142611833	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaaatcccaagatgaccAcagccatcagccagcagaaa	17	3	8	13	0	1	3	1	1	0	2	2	3	2	3	4	1	3	2	4	1	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:142611833A>G	uc003wby.1	-	12	1760	c.1496T>C	c.(1495-1497)GTG>GCG	p.V499A		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	499	Helical; (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					CAAGATGACCACAGCCATCAG	0.468													5	29					0	0	1	0	0		G	142611833	G	G	142611833	3	3	89	1	0	0	0	0	1	0	0	0	16625	159	6	3	709	3	TRPV5	7	142611833	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	28608	142611833	16526830	3262	57093											
TRPV5	56302	broad.mit.edu	37	chr7	142622683	142622683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgagtgcggttgccaccacGaaacttaagggggcggtaga	11	7	15	8	3	0	2	0	1	0	1	0	3	0	2	2	4	3	2	2	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:142622683G>A	uc003wby.1	-	8	1327	c.1063C>T	c.(1063-1065)CGT>TGT	p.R355C	TRPV5_uc003wbz.2_Missense_Mutation_p.R355C	NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	355	Extracellular (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity	p.R355L(1)|p.R355H(1)		ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					TTGCCACCACGAAACTTAAGG	0.517													32	46					0	0	1	0	0		A	142622683	A	A	142622683	3	1	89	1	0	0	0	0	1	0	0	0	16625	1058	37	1	1158	1	TRPV5	7	142622683	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	10850	142622683	16515980	3263	57094											
TRPV5	56302	broad.mit.edu	37	chr7	142625919	142625919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtacatctggcaggcaaagGttttgttgggctggaggatg	8	12	16	5	0	1	0	0	0	1	0	1	2	1	2	0	6	1	6	0	6	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:142625919G>A	uc003wby.1	-	6	893	c.629C>T	c.(628-630)ACC>ATC	p.T210I	TRPV5_uc003wbz.2_Missense_Mutation_p.T210I	NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	210	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					GCAGGCAAAGGTTTTGTTGGG	0.572													31	64					0	0	1	0	0		A	142625919	A	A	142625919	3	1	89	1	0	0	0	0	1	0	0	0	16625	1261	44	4	1600	4	TRPV5	7	142625919	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3236	142625919	16512744	3264	57095											
TRPV5	56302	broad.mit.edu	37	chr7	142626165	142626165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatgctcaatgagcagccGcacgatctcctcgctgttca	8	10	8	15	3	3	1	2	1	1	0	6	2	4	1	3	0	3	5	3	0	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:142626165G>A	uc003wby.1	-	5	802	c.538C>T	c.(538-540)CGG>TGG	p.R180W	TRPV5_uc003wbz.2_Missense_Mutation_p.R180W	NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	180	ANK 4.|Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					ATGAGCAGCCGCACGATCTCC	0.612													16	24					0	0	1	0	0		A	142626165	A	A	142626165	3	1	89	1	0	0	0	0	1	0	0	0	16625	1086	38	1	1695	1	TRPV5	7	142626165	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	246	142626165	16512498	3265	57096											
CLCN1	1180	broad.mit.edu	37	chr7	143047729	143047729	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatggggaagctcaggggCgtcctggccctggaggaggt	7	6	19	9	1	1	0	1	0	0	0	2	3	2	3	2	8	2	2	2	8	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:143047729C>T	uc003wcr.1	+	22	2664	c.2577C>T	c.(2575-2577)GGC>GGT	p.G859G	CLCN1_uc011ktc.1_Silent_p.G471G	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	859	CBS 2.|Cytoplasmic (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					AGCTCAGGGGCGTCCTGGCCC	0.557													48	124					0	0	1	0	0		T	143047729	T	T	143047729	2	4	89	1	0	0	0	0	0	0	0	1	3465	755	27	1		1	CLCN1	7	143047729	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	421564	143047729	16090934	3266	57097											
ZYX	7791	broad.mit.edu	37	chr7	143087027	143087027	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgagactgtgcgagtggTcgccctggacaagaacttcc	10	8	13	10	2	0	3	0	1	0	3	2	6	1	4	2	2	2	0	2	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:143087027T>C	uc003wcw.2	+	9	1726	c.1571T>C	c.(1570-1572)GTC>GCC	p.V524A	ZYX_uc011ktd.1_Missense_Mutation_p.V367A|ZYX_uc003wcx.2_Missense_Mutation_p.V524A|ZYX_uc011kte.1_Missense_Mutation_p.V493A|ZYX_uc011ktf.1_Missense_Mutation_p.V367A	NM_001010972	NP_001010972	Q15942	ZYX_HUMAN	zyxin	524	LIM zinc-binding 3.				cell adhesion|cell-cell signaling|interspecies interaction between organisms|signal transduction	cell-cell adherens junction|cytoplasm|focal adhesion|integral to plasma membrane|nucleus|stress fiber	protein binding|zinc ion binding				0	Melanoma(164;0.205)					GTGCGAGTGGTCGCCCTGGAC	0.607													20	85					0	0	1	0	0		C	143087027	C	C	143087027	3	2	89	1	0	0	0	0	1	0	0	0	18279	1667	58	3	1601	3	ZYX	7	143087027	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	39298	143087027	16051636	3267	57098											
FAM115A	9747	broad.mit.edu	37	chr7	143573678	143573678	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaccattcataagggcctcGaaggcagcagagggagtcgc	12	5	13	11	2	1	1	1	0	0	1	3	3	1	2	2	3	1	2	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:143573678G>A	uc003wdo.1	-	2	157	c.24C>T	c.(22-24)TTC>TTT	p.F8F	FAM115A_uc011ktu.1_Intron|FAM115A_uc003wdp.1_Silent_p.F8F	NM_014719	NP_055534	Q9Y4C2	F115A_HUMAN	hypothetical protein LOC9747	8											0	Melanoma(164;0.0903)					TAAGGGCCTCGAAGGCAGCAG	0.468													36	36					0	0	1	0	0		A	143573678	A	A	143573678	2	1	89	1	0	0	0	0	0	0	0	1	5416	1049	37	1		1	FAM115A	7	143573678	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	486651	143573678	15564985	3268	57099											
OR2A2	442361	broad.mit.edu	37	chr7	143806743	143806743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggttggtccagcactggCgattctcctctgtggactct	5	12	11	13	1	3	0	0	0	3	0	5	2	4	1	3	4	1	2	3	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:143806743C>T	uc011ktz.1	+	1	68	c.68C>T	c.(67-69)GCG>GTG	p.A23V		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	23	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					CCAGCACTGGCGATTCTCCTC	0.512													50	70					0	0	1	0	0		T	143806743	T	T	143806743	3	4	89	1	0	0	0	0	1	0	0	0	10996	768	27	1	70	1	OR2A2	7	143806743	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	233065	143806743	15331920	3269	57100											
OR2A14	135941	broad.mit.edu	37	chr7	143826380	143826380	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaagcttcacacacccatgTacttcttcctctcacacctg	9	12	4	16	0	3	0	2	0	2	0	5	0	4	0	3	0	2	3	3	0	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:143826380T>C	uc011kua.1	+	1	175	c.175T>C	c.(175-177)TAC>CAC	p.Y59H		NM_001001659	NP_001001659	Q96R47	O2A14_HUMAN	olfactory receptor, family 2, subfamily A,	59	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					CACACCCATGTACTTCTTCCT	0.483													76	142					0	0	1	0	0		C	143826380	C	C	143826380	3	2	89	1	0	0	0	0	1	0	0	0	10995	1638	57	3	177	3	OR2A14	7	143826380	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	19637	143826380	15312283	3270	57101											
OR2A14	135941	broad.mit.edu	37	chr7	143826408	143826408	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctctcacacctggccattgTtgacatatcctatgcttcca	8	13	5	15	0	1	1	1	1	1	0	4	1	3	1	5	1	1	2	5	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:143826408T>C	uc011kua.1	+	1	203	c.203T>C	c.(202-204)GTT>GCT	p.V68A		NM_001001659	NP_001001659	Q96R47	O2A14_HUMAN	olfactory receptor, family 2, subfamily A,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					CTGGCCATTGTTGACATATCC	0.468													78	187					0	0	1	0	0		C	143826408	C	C	143826408	3	2	89	1	0	0	0	0	1	0	0	0	10995	1725	60	3	205	3	OR2A14	7	143826408	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	28	143826408	15312255	3271	57102											
NOBOX	135935	broad.mit.edu	37	chr7	144098471	144098471	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggagcgggctagagttCtgtctttgtggggagccctg	4	11	17	9	1	2	1	0	0	2	1	2	3	2	3	2	4	2	2	2	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:144098471C>A	uc011kue.1	-	4	512	c.512G>T	c.(511-513)AGA>ATA	p.R171I		NM_001080413	NP_001073882	O60393	NOBOX_HUMAN	NOBOX oogenesis homeobox	171					cell differentiation|oogenesis	nucleus	sequence-specific DNA binding			ovary(1)	1	Melanoma(164;0.14)					GGCTAGAGTTCTGTCTTTGTG	0.632													16	19					8.60227e-14	9.65208e-14	1	1	0		A	144098471	A	A	144098471	3	1	89	1	0	0	0	0	1	0	0	0	10531	913	32	5	1495	5	NOBOX	7	144098471	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	272063	144098471	15040192	3272	57103											
CNTNAP2	26047	broad.mit.edu	37	chr7	146997332	146997332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatgaagcatcagcagttcGaactaatagtccccttcaag	14	9	8	10	1	2	2	2	1	0	1	4	3	3	2	2	0	3	3	2	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:146997332G>A	uc003weu.1	+	9	1964	c.1448G>A	c.(1447-1449)CGA>CAA	p.R483Q		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	483	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TCAGCAGTTCGAACTAATAGT	0.423										HNSCC(39;0.1)			35	60					0	0	1	0	0		A	146997332	A	A	146997332	3	1	89	1	0	0	0	0	1	0	0	0	3650	1058	37	1	1482	1	CNTNAP2	7	146997332	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2898861	146997332	12141331	3273	57104											
CNTNAP2	26047	broad.mit.edu	37	chr7	147092811	147092811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgtaaatttatacgaagtgGcacaaaggaagccgggaagt	15	9	12	5	2	0	0	0	0	0	0	0	3	0	2	1	3	2	2	1	3	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:147092811G>A	uc003weu.1	+	10	2125	c.1609G>A	c.(1609-1611)GCA>ACA	p.A537T		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	537	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ATACGAAGTGGCACAAAGGAA	0.438										HNSCC(39;0.1)			62	138					0	0	1	0	0		A	147092811	A	A	147092811	3	1	89	1	0	0	0	0	1	0	0	0	3650	1203	42	2	1647	2	CNTNAP2	7	147092811	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	95479	147092811	12045852	3274	57105											
CNTNAP2	26047	broad.mit.edu	37	chr7	147600755	147600755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaatgtgcctgcggcatcGaacgcaactgcacagatccc	12	6	10	13	3	0	2	0	0	0	2	2	3	1	2	2	1	5	3	2	1	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:147600755G>A	uc003weu.1	+	14	2713	c.2197G>A	c.(2197-2199)GAA>AAA	p.E733K		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	733	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CTGCGGCATCGAACGCAACTG	0.572										HNSCC(39;0.1)			8	29					0	0	1	0	0		A	147600755	A	A	147600755	3	1	89	1	0	0	0	0	1	0	0	0	3650	1059	37	1	2251	1	CNTNAP2	7	147600755	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	507944	147600755	11537908	3275	57106											
CNTNAP2	26047	broad.mit.edu	37	chr7	147844725	147844725	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggccagcctacaggtggaCcggctaccgcagcagatccg	9	4	13	15	3	0	1	0	0	0	1	1	2	1	2	5	4	4	3	5	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:147844725C>T	uc003weu.1	+	17	3213	c.2697C>T	c.(2695-2697)GAC>GAT	p.D899D		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	899	Laminin G-like 3.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TACAGGTGGACCGGCTACCGC	0.562										HNSCC(39;0.1)			41	65					0	0	1	0	0		T	147844725	T	T	147844725	2	4	89	1	0	0	0	0	0	0	0	1	3650	506	18	4		4	CNTNAP2	7	147844725	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	243970	147844725	11293938	3276	57107											
EZH2	2146	broad.mit.edu	37	chr7	148504761	148504761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggatttccatttctctttCgatgccgacatacttcaggg	8	14	9	10	2	2	0	1	0	1	0	5	3	3	1	2	2	2	0	2	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:148504761C>T	uc003wfd.1	-	20	2384	c.2218G>A	c.(2218-2220)GAA>AAA	p.E740K	EZH2_uc011kug.1_Missense_Mutation_p.E689K|EZH2_uc003wfb.1_Missense_Mutation_p.E745K|EZH2_uc003wfc.1_Missense_Mutation_p.E701K|EZH2_uc011kuh.1_Missense_Mutation_p.E731K	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	740					negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			ATTTCTCTTTCGATGCCGACA	0.507			Mis		DLBCL								8	8					0	0	1	0	0		T	148504761	T	T	148504761	3	4	89	1	0	0	0	0	1	0	0	0	5342	893	31	1	26	1	EZH2	7	148504761	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	660036	148504761	10633902	3277	57108											
ZNF786	136051	broad.mit.edu	37	chr7	148768115	148768115	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccgctgtgcacgcgcaaGtgctccgtgagcttggattg	5	10	13	13	4	0	1	0	1	0	0	2	2	2	2	3	1	3	5	3	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:148768115G>T	uc003wfh.2	-	4	1886	c.1749C>A	c.(1747-1749)CAC>CAA	p.H583Q	ZNF786_uc011kuk.1_Missense_Mutation_p.H546Q|ZNF786_uc003wfi.2_Missense_Mutation_p.H497Q	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	583	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			GCACGCGCAAGTGCTCCGTGA	0.642													16	34					1.15088e-07	1.20949e-07	1	1	0		T	148768115	T	T	148768115	3	4	89	1	0	0	0	0	1	0	0	0	18183	1020	36	5	603	5	ZNF786	7	148768115	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	263354	148768115	10370548	3278	57109											
ZNF425	155054	broad.mit.edu	37	chr7	148800887	148800887	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cactcgggacactggaagggCctctctccactgtgcttata	8	10	10	13	1	1	0	0	0	1	0	4	2	2	2	2	3	1	1	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:148800887C>T	uc003wfj.2	-	4	2149	c.2076G>A	c.(2074-2076)AGG>AGA	p.R692R		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	692					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			ACTGGAAGGGCCTCTCTCCAC	0.562													48	70					0	0	1	0	0		T	148800887	T	T	148800887	2	4	89	1	0	0	0	0	0	0	0	1	17924	738	26	2		2	ZNF425	7	148800887	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	32772	148800887	10337776	3279	57110											
ZNF425	155054	broad.mit.edu	37	chr7	148801117	148801117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgaggcggaaagtcttctCgcattcaggacactggtagg	9	10	13	9	2	3	1	1	1	2	0	4	3	3	3	0	5	0	2	0	5	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:148801117C>T	uc003wfj.2	-	4	1919	c.1846G>A	c.(1846-1848)GAG>AAG	p.E616K		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	616	C2H2-type 15.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			AAAGTCTTCTCGCATTCAGGA	0.547													56	109					0	0	1	0	0		T	148801117	T	T	148801117	3	4	89	1	0	0	0	0	1	0	0	0	17924	893	31	1	416	1	ZNF425	7	148801117	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	230	148801117	10337546	3280	57111											
ZNF425	155054	broad.mit.edu	37	chr7	148815333	148815333	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagggaatcaagggtctcGtaattggtcttcatctcttg	8	13	10	10	1	5	0	2	0	3	0	7	1	5	1	1	3	0	1	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:148815333G>A	uc003wfj.2	-	2	199	c.126C>T	c.(124-126)TAC>TAT	p.Y42Y		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	42	KRAB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			CAAGGGTCTCGTAATTGGTCT	0.443													64	117					0	0	1	0	0		A	148815333	A	A	148815333	2	1	89	1	0	0	0	0	0	0	0	1	17924	1140	40	1		1	ZNF425	7	148815333	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14216	148815333	10323330	3281	57112											
ZNF212	7988	broad.mit.edu	37	chr7	148947428	148947428	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctacagagcctggaggggcGcacggggacagccgagaaga	11	2	18	10	3	0	3	0	0	0	3	0	6	0	5	2	5	3	2	2	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:148947428G>A	uc003wfp.2	+	2	299	c.203G>A	c.(202-204)CGC>CAC	p.R68H		NM_012256	NP_036388	Q9UDV6	ZN212_HUMAN	zinc finger protein 212	68					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)			CTGGAGGGGCGCACGGGGACA	0.642													43	70					0	0	1	0	0		A	148947428	A	A	148947428	3	1	89	1	0	0	0	0	1	0	0	0	17793	1087	38	1	209	1	ZNF212	7	148947428	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	132095	148947428	10191235	3282	57113											
ZNF212	7988	broad.mit.edu	37	chr7	148950967	148950967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggacacttcccgcccctacGaatgttctgagtgtgagatc	9	10	10	12	2	1	2	0	2	1	1	3	5	2	3	3	1	1	1	3	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:148950967G>A	uc003wfp.2	+	5	1045	c.949G>A	c.(949-951)GAA>AAA	p.E317K		NM_012256	NP_036388	Q9UDV6	ZN212_HUMAN	zinc finger protein 212	317	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)			CCGCCCCTACGAATGTTCTGA	0.567													26	52					0	0	1	0	0		A	148950967	A	A	148950967	3	1	89	1	0	0	0	0	1	0	0	0	17793	1059	37	1	967	1	ZNF212	7	148950967	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3539	148950967	10187696	3283	57114											
ZNF746	155061	broad.mit.edu	37	chr7	149172249	149172249	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgggttcaggcccactggCggtttacaccggaaattcca	8	9	11	13	3	1	0	1	0	0	0	3	1	2	1	3	5	1	2	3	5	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:149172249C>T	uc003wfw.2	-	7	1432	c.1161G>A	c.(1159-1161)CCG>CCA	p.P387P	ZNF746_uc010lpi.2_Silent_p.P388P	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2	387					negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GGCCCACTGGCGGTTTACACC	0.667													8	18					0	0	1	0	0		T	149172249	T	T	149172249	2	4	89	1	0	0	0	0	0	0	0	1	18154	755	27	1		1	ZNF746	7	149172249	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	221282	149172249	9966414	3284	57115											
SSPO	23145	broad.mit.edu	37	chr7	149498835	149498835	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatcattcagccaggaatctActtatgtggctcccttctct	8	15	6	12	0	4	0	2	0	2	0	6	1	5	1	2	2	2	1	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:149498835A>G	uc010lpk.2	+	51	7287	c.7287A>G	c.(7285-7287)CTA>CTG	p.L2429L		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2429					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCAGGAATCTACTTATGTGGC	0.597													14	19					0	0	1	0	0		G	149498835	G	G	149498835	2	3	89	1	0	0	0	0	0	0	0	1	15214	378	14	3		3	SSPO	7	149498835	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	326586	149498835	9639828	3285	57116											
GIMAP8	155038	broad.mit.edu	37	chr7	150174636	150174636	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agataacaaagcccttcggcGcatttttaaaaagtgtgggc	13	10	10	8	2	0	1	0	0	0	1	1	1	0	1	1	2	2	1	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:150174636G>A	uc003whj.2	+	5	2096	c.1766G>A	c.(1765-1767)CGC>CAC	p.R589H		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	589						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding	p.R589H(1)		skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		GCCCTTCGGCGCATTTTTAAA	0.458													36	75					0	0	1	0	0		A	150174636	A	A	150174636	3	1	89	1	0	0	0	0	1	0	0	0	6400	1087	38	1	1780	1	GIMAP8	7	150174636	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	675801	150174636	8964027	3286	57117											
AGAP3	116988	broad.mit.edu	37	chr7	150837140	150837140	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccccactccaaccggaagAagcaccggaggaaaaagagc	15	2	10	14	2	0	2	0	0	0	2	2	5	2	5	5	3	3	1	5	3	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:150837140A>C	uc003wjg.1	+	13	1744	c.1741A>C	c.(1741-1743)AAG>CAG	p.K581Q	AGAP3_uc003wje.1_Intron|AGAP3_uc003wjj.1_Missense_Mutation_p.K80Q|AGAP3_uc003wjk.1_5'UTR	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	545	PH.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3						CAACCGGAAGAAGCACCGGAG	0.562													3	12					0	0	1	0	0		C	150837140	C	C	150837140	3	2	89	1	0	0	0	0	1	0	0	0	369	247	9	5	1858	5	AGAP3	7	150837140	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	662504	150837140	8301523	3287	57118											
PRKAG2	51422	broad.mit.edu	37	chr7	151265922	151265922	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcaaggagtatacagcatcGaagaggctgtgggagaagtc	14	7	14	6	1	1	2	1	0	0	2	3	5	1	3	0	3	2	3	0	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:151265922G>A	uc003wkk.2	-	11	1724	c.1113C>T	c.(1111-1113)TTC>TTT	p.F371F	PRKAG2_uc003wki.2_Silent_p.F130F|PRKAG2_uc011kvl.1_Silent_p.F246F|PRKAG2_uc003wkj.2_Silent_p.F327F|PRKAG2_uc003wkl.2_Intron|PRKAG2_uc010lqe.1_RNA	NM_016203	NP_057287	Q9UGJ0	AAKG2_HUMAN	AMP-activated protein kinase gamma2 subunit	371	CBS 2.				ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)		ATACAGCATCGAAGAGGCTGT	0.403													27	64					0	0	1	0	0		A	151265922	A	A	151265922	2	1	89	1	0	0	0	0	0	0	0	1	12523	1049	37	1		1	PRKAG2	7	151265922	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	428782	151265922	7872741	3288	57119											
MLL3	58508	broad.mit.edu	37	chr7	151845714	151845714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacctccgtggaccacagaGcgcagttcaagtggacccac	11	5	11	14	2	1	2	1	0	0	2	2	4	2	4	4	2	1	2	4	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:151845714G>A	uc003wla.2	-	52	13517	c.13298C>T	c.(13297-13299)GCT>GTT	p.A4433V	MLL3_uc003wkz.2_Missense_Mutation_p.A3551V|MLL3_uc003wkx.2_Missense_Mutation_p.A591V|MLL3_uc003wky.2_Missense_Mutation_p.A1997V	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4433					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding	p.A4433T(1)		large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGACCACAGAGCGCAGTTCAA	0.488			N		medulloblastoma								39	87					0	0	1	0	0		A	151845714	A	A	151845714	3	1	89	1	0	0	0	0	1	0	0	0	9640	971	34	2	1469	2	MLL3	7	151845714	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	579792	151845714	7292949	3289	57120											
MLL3	58508	broad.mit.edu	37	chr7	151846058	151846058	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctcatctggcttggcctcGacttgggctgcttcaaaagc	7	11	11	12	1	3	0	2	0	1	0	4	1	3	0	1	3	3	4	1	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:151846058G>A	uc003wla.2	-	52	13173	c.12954C>T	c.(12952-12954)GTC>GTT	p.V4318V	MLL3_uc003wkz.2_Silent_p.V3436V|MLL3_uc003wkx.2_Silent_p.V476V|MLL3_uc003wky.2_Silent_p.V1882V	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4318					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GCTTGGCCTCGACTTGGGCTG	0.552			N		medulloblastoma								13	35					0	0	1	0	0		A	151846058	A	A	151846058	2	1	89	1	0	0	0	0	0	0	0	1	9640	1045	37	1		1	MLL3	7	151846058	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	344	151846058	7292605	3290	57121											
MLL3	58508	broad.mit.edu	37	chr7	151935840	151935840	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagctgcctgggtttaaaAatttcccgaccttctgaaat	11	12	9	9	1	1	1	0	1	1	0	2	3	2	2	3	2	2	2	3	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:151935840A>C	uc003wla.2	-	15	2823	c.2604T>G	c.(2602-2604)ATT>ATG	p.I868M	MLL3_uc003wkz.2_Translation_Start_Site	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	868					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TGGGTTTAAAAATTTCCCGAC	0.423			N		medulloblastoma								32	78					0	0	1	0	0		C	151935840	C	C	151935840	3	2	89	1	0	0	0	0	1	0	0	0	9640	10	1	5	12311	5	MLL3	7	151935840	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	89782	151935840	7202823	3291	57122											
XRCC2	7516	broad.mit.edu	37	chr7	152345946	152345946	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtcgagaggcatgagaaggTtcttctgatgagctcgaggc	9	9	15	8	3	2	4	0	3	2	2	4	7	2	4	0	3	1	3	0	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:152345946T>C	uc003wld.2	-	3	710	c.624A>G	c.(622-624)GAA>GAG	p.E208E		NM_005431	NP_005422	O43543	XRCC2_HUMAN	X-ray repair cross complementing protein 2	208					meiosis	nucleus	ATP binding|DNA binding|DNA-dependent ATPase activity			breast(1)|liver(1)	2		all_hematologic(28;0.0592)|Prostate(32;0.081)	OV - Ovarian serous cystadenocarcinoma(82;0.0423)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0429)		CATGAGAAGGTTCTTCTGATG	0.443								Homologous_recombination					74	141					0	0	1	0	0		C	152345946	C	C	152345946	2	2	89	1	0	0	0	0	0	0	0	1	17479	1722	60	3		3	XRCC2	7	152345946	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	410106	152345946	6792717	3292	57123											
DPP6	1804	broad.mit.edu	37	chr7	154681193	154681193	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatttccagcacacagcaGaactcattacacaactaatt	15	11	3	12	0	2	1	2	0	0	1	3	1	3	1	1	0	5	2	1	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:154681193G>T	uc003wlk.2	+	25	2533	c.2404G>T	c.(2404-2406)GAA>TAA	p.E802*	DPP6_uc003wli.2_Nonsense_Mutation_p.E738*|DPP6_uc003wlm.2_Nonsense_Mutation_p.E740*|DPP6_uc011kvq.1_Nonsense_Mutation_p.E695*	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	802	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			GCACACAGCAGAACTCATTAC	0.383													5	11					0.00198382	0.00200883	1	1	0		T	154681193	T	T	154681193	4	4	89	1	0	0	0	0	0	1	0	0	4736	943	33	5	2618	5	DPP6	7	154681193	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2335247	154681193	4457470	3293	57124											
DPP6	1804	broad.mit.edu	37	chr7	154684055	154684055	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgcagatttacccggaCgaaagccattactttaccag	11	11	7	12	2	0	1	0	0	0	1	1	3	1	2	4	1	5	1	4	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:154684055C>T	uc003wlk.2	+	26	2592	c.2463C>T	c.(2461-2463)GAC>GAT	p.D821D	DPP6_uc003wli.2_Silent_p.D757D|DPP6_uc003wlm.2_Silent_p.D759D|DPP6_uc011kvq.1_Silent_p.D714D	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	821	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			TTTACCCGGACGAAAGCCATT	0.512													22	64					0	0	1	0	0		T	154684055	T	T	154684055	2	4	89	1	0	0	0	0	0	0	0	1	4736	535	19	1		1	DPP6	7	154684055	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2862	154684055	4454608	3294	57125											
RBM33	155435	broad.mit.edu	37	chr7	155473530	155473530	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatagaatatgtggaagaGccagaggaggagcagcttta	16	7	13	5	0	0	3	0	0	0	3	0	6	0	6	1	3	3	2	1	3	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:155473530G>A	uc010lqk.1	+	5	863	c.495G>A	c.(493-495)GAG>GAA	p.E165E	RBM33_uc003wme.2_Silent_p.E165E	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	165	Glu-rich.						nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		ATGTGGAAGAGCCAGAGGAGG	0.418													17	35					0	0	1	0	0		A	155473530	A	A	155473530	2	1	89	1	0	0	0	0	0	0	0	1	13155	962	34	2		2	RBM33	7	155473530	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	789475	155473530	3665133	3295	57126											
RBM33	155435	broad.mit.edu	37	chr7	155530977	155530977	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagcctccaggtccggtgggGattctgcactttagccagcc	6	9	12	14	1	1	0	0	0	1	0	3	1	3	1	5	4	4	1	5	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:155530977G>A	uc010lqk.1	+	11	1985	c.1617G>A	c.(1615-1617)GGG>GGA	p.G539G	RBM33_uc011kvv.1_Silent_p.G348G	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	539	Pro-rich.						nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		GTCCGGTGGGGATTCTGCACT	0.612													42	74					0	0	1	0	0		A	155530977	A	A	155530977	2	1	89	1	0	0	0	0	0	0	0	1	13155	1161	41	4		4	RBM33	7	155530977	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	57447	155530977	3607686	3296	57127											
RBM33	155435	broad.mit.edu	37	chr7	155538228	155538228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggactgtcacgcacaggAcaaacagtggtggtggagac	14	5	14	8	1	1	1	1	0	0	1	1	4	1	3	0	5	1	1	0	5	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:155538228A>G	uc010lqk.1	+	14	3279	c.2911A>G	c.(2911-2913)ACA>GCA	p.T971A	RBM33_uc011kvv.1_Missense_Mutation_p.T780A|RBM33_uc003wmg.2_5'Flank	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	971							nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		CACGCACAGGACAAACAGTGG	0.582													5	12					0	0	1	0	0		G	155538228	G	G	155538228	3	3	89	1	0	0	0	0	1	0	0	0	13155	275	10	3	2965	3	RBM33	7	155538228	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	7251	155538228	3600435	3297	57128											
SHH	6469	broad.mit.edu	37	chr7	155599139	155599139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgcggccctcgtagtgcagaGactcctctgagtggtggcca	6	8	14	13	3	1	2	0	1	1	1	3	3	2	2	3	3	1	2	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:155599139G>A	uc003wmk.1	-	2	564	c.413C>T	c.(412-414)TCT>TTT	p.S138F	SHH_uc003wmh.1_RNA|SHH_uc003wmi.1_Missense_Mutation_p.S51F|SHH_uc003wmj.1_Missense_Mutation_p.S51F	NM_000193	NP_000184	Q15465	SHH_HUMAN	sonic hedgehog preproprotein	138					androgen metabolic process|axon guidance|branching involved in ureteric bud morphogenesis|CD4-positive or CD8-positive, alpha-beta T cell lineage commitment|embryonic digit morphogenesis|hindbrain development|intein-mediated protein splicing|lymphoid progenitor cell differentiation|metanephric mesenchymal cell proliferation involved in metanephros development|midbrain development|negative regulation of cell migration|negative regulation of kidney smooth muscle cell differentiation|negative regulation of ureter smooth muscle cell differentiation|negative thymic T cell selection|neural crest cell migration|neuroblast proliferation|patterning of blood vessels|positive regulation of alpha-beta T cell differentiation|positive regulation of immature T cell proliferation in thymus|positive regulation of kidney smooth muscle cell differentiation|positive regulation of mesenchymal cell proliferation involved in ureter development|positive regulation of T cell differentiation in thymus|positive regulation of ureter smooth muscle cell differentiation|positive thymic T cell selection|proteolysis|sclerotome development|stem cell development|thymus development|vasculogenesis|ventral midline development	cell surface|extracellular space|membrane raft|plasma membrane	calcium ion binding|laminin-1 binding|peptidase activity|signal transducer activity|zinc ion binding			central_nervous_system(3)|lung(1)	4	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00882)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GTAGTGCAGAGACTCCTCTGA	0.637													14	31					0	0	1	0	0		A	155599139	A	A	155599139	3	1	89	1	0	0	0	0	1	0	0	0	14304	942	33	4	983	4	SHH	7	155599139	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	60911	155599139	3539524	3298	57129											
SHH	6469	broad.mit.edu	37	chr7	155604547	155604547	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcctgtccgctccggtgttTtcttcatccttaaatatgat	7	16	7	11	2	2	1	1	1	1	0	5	1	5	1	4	1	1	2	4	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:155604547T>G	uc003wmk.1	-	1	421	c.270A>C	c.(268-270)GAA>GAC	p.E90D	SHH_uc003wmh.1_5'Flank|SHH_uc003wmi.1_5'Flank|SHH_uc003wmj.1_5'Flank	NM_000193	NP_000184	Q15465	SHH_HUMAN	sonic hedgehog preproprotein	90					androgen metabolic process|axon guidance|branching involved in ureteric bud morphogenesis|CD4-positive or CD8-positive, alpha-beta T cell lineage commitment|embryonic digit morphogenesis|hindbrain development|intein-mediated protein splicing|lymphoid progenitor cell differentiation|metanephric mesenchymal cell proliferation involved in metanephros development|midbrain development|negative regulation of cell migration|negative regulation of kidney smooth muscle cell differentiation|negative regulation of ureter smooth muscle cell differentiation|negative thymic T cell selection|neural crest cell migration|neuroblast proliferation|patterning of blood vessels|positive regulation of alpha-beta T cell differentiation|positive regulation of immature T cell proliferation in thymus|positive regulation of kidney smooth muscle cell differentiation|positive regulation of mesenchymal cell proliferation involved in ureter development|positive regulation of T cell differentiation in thymus|positive regulation of ureter smooth muscle cell differentiation|positive thymic T cell selection|proteolysis|sclerotome development|stem cell development|thymus development|vasculogenesis|ventral midline development	cell surface|extracellular space|membrane raft|plasma membrane	calcium ion binding|laminin-1 binding|peptidase activity|signal transducer activity|zinc ion binding			central_nervous_system(3)|lung(1)	4	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00882)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTCCGGTGTTTTCTTCATCCT	0.542													89	151					0	0	1	0	0		G	155604547	G	G	155604547	3	3	89	1	0	0	0	0	1	0	0	0	14304	1838	64	5	1130	5	SHH	7	155604547	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	5408	155604547	3534116	3299	57130											
RNF32	140545	broad.mit.edu	37	chr7	156437272	156437272	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttacatgatcttcaacttcGaaatctttcagttgcagatc	11	16	5	9	1	4	2	2	1	2	1	6	3	4	2	0	0	3	2	0	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:156437272G>A	uc003wmo.2	+	3	277	c.95G>A	c.(94-96)CGA>CAA	p.R32Q	RNF32_uc010lql.1_RNA|RNF32_uc010lqm.2_Missense_Mutation_p.R32Q|RNF32_uc003wmp.2_Missense_Mutation_p.R32Q|RNF32_uc003wmq.2_Missense_Mutation_p.R32Q|RNF32_uc003wmr.2_Missense_Mutation_p.R32Q|RNF32_uc003wms.2_Missense_Mutation_p.R32Q|RNF32_uc003wmu.2_RNA|RNF32_uc003wmt.2_Missense_Mutation_p.R32Q	NM_030936	NP_112198	Q9H0A6	RNF32_HUMAN	ring finger protein 32	32						aggresome|endosome	protein binding|zinc ion binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00291)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		CTTCAACTTCGAAATCTTTCA	0.328													24	52					0	0	1	0	0		A	156437272	A	A	156437272	3	1	89	1	0	0	0	0	1	0	0	0	13513	1058	37	1	101	1	RNF32	7	156437272	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	832725	156437272	2701391	3300	57131											
NOM1	64434	broad.mit.edu	37	chr7	156752741	156752741	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaaaagatattgaactgaTcttgttaatgctgaaaaacg	17	11	8	5	2	1	4	0	3	1	1	1	5	1	4	0	0	3	2	0	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:156752741T>C	uc003wmy.2	+	4	1520	c.1505T>C	c.(1504-1506)ATC>ACC	p.I502T	NOM1_uc010lqp.1_5'Flank	NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	502	MIF4G.				RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		ATTGAACTGATCTTGTTAATG	0.398													39	60					0	0	1	0	0		C	156752741	C	C	156752741	3	2	89	1	0	0	0	0	1	0	0	0	10549	1435	50	3	1519	3	NOM1	7	156752741	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	315469	156752741	2385922	3301	57132											
DNAJB6	10049	broad.mit.edu	37	chr7	157177652	157177652	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcatgggcaacttcaaatcGatatcaacttcaactaaaat	16	10	6	9	1	3	0	3	0	0	0	4	1	3	0	0	2	3	2	0	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:157177652G>A	uc003wnk.2	+	7	724	c.570G>A	c.(568-570)TCG>TCA	p.S190S	DNAJB6_uc003wnj.2_Silent_p.S190S|DNAJB6_uc003wnl.2_Silent_p.S177S|DNAJB6_uc011kvy.1_Silent_p.S141S|DNAJB6_uc011kvz.1_Intron|DNAJB6_uc010lqt.2_Silent_p.S190S	NM_058246	NP_490647	O75190	DNJB6_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 6	190	Interaction with KRT18.				intermediate filament organization|negative regulation of caspase activity|protein folding|response to unfolded protein	nucleus|perinuclear region of cytoplasm	ATPase activator activity|chaperone binding|heat shock protein binding|unfolded protein binding	p.S190S(1)		ovary(2)	2	all_neural(206;0.181)	all_epithelial(9;0.000606)|all_hematologic(28;0.00287)|Acute lymphoblastic leukemia(9;0.0647)|Ovarian(593;0.196)	OV - Ovarian serous cystadenocarcinoma(82;0.00399)	UCEC - Uterine corpus endometrioid carcinoma (81;0.172)		ACTTCAAATCGATATCAACTT	0.403													41	65					0	0	1	0	0		A	157177652	A	A	157177652	2	1	89	1	0	0	0	0	0	0	0	1	4630	1045	37	1		1	DNAJB6	7	157177652	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	424911	157177652	1961011	3302	57133											
PTPRN2	5799	broad.mit.edu	37	chr7	157341698	157341698	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccagggtcgctgcgataTcaatctctttagcacctgca	8	11	9	13	2	2	0	1	0	1	0	5	1	3	0	2	1	3	4	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:157341698T>C	uc003wno.2	-	22	3039	c.2918A>G	c.(2917-2919)GAT>GGT	p.D973G	PTPRN2_uc003wnp.2_Missense_Mutation_p.D956G|PTPRN2_uc003wnq.2_Missense_Mutation_p.D944G|PTPRN2_uc003wnr.2_Missense_Mutation_p.D935G|PTPRN2_uc011kwa.1_Missense_Mutation_p.D996G|PTPRN2_uc003wnn.2_RNA	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	973	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CGCTGCGATATCAATCTCTTT	0.532													33	50					0	0	1	0	0		C	157341698	C	C	157341698	3	2	89	1	0	0	0	0	1	0	0	0	12833	1435	50	3	137	3	PTPRN2	7	157341698	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	164046	157341698	1796965	3303	57134											
PTPRN2	5799	broad.mit.edu	37	chr7	157903532	157903532	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtacttactccacgtcagcGaacgcactgctgggcacctg	8	8	10	15	4	1	0	1	0	0	0	2	1	2	0	2	1	5	4	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:157903532G>A	uc003wno.2	-	10	1753	c.1632C>T	c.(1630-1632)TTC>TTT	p.F544F	PTPRN2_uc003wnp.2_Silent_p.F527F|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Silent_p.F506F|PTPRN2_uc011kwa.1_Silent_p.F567F	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	544	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CCACGTCAGCGAACGCACTGC	0.667													6	1					0	0	1	0	0		A	157903532	A	A	157903532	2	1	89	1	0	0	0	0	0	0	0	1	12833	1049	37	1		1	PTPRN2	7	157903532	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	561834	157903532	1235131	3304	57135											
NCAPG2	54892	broad.mit.edu	37	chr7	158437017	158437017	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccaaagtaatttccatgAatgtctttagttttctgtga	10	18	6	7	0	2	2	0	2	2	0	4	2	4	2	2	0	0	2	2	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:158437017A>C	uc003wnv.1	-	27	3489	c.3344T>G	c.(3343-3345)TTC>TGC	p.F1115C	NCAPG2_uc010lqu.1_Missense_Mutation_p.F860C|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.F1115C|NCAPG2_uc011kwe.1_Missense_Mutation_p.F1115C|NCAPG2_uc011kwc.1_Missense_Mutation_p.F569C|NCAPG2_uc011kwd.1_Missense_Mutation_p.F558C	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	1115					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		AATTTCCATGAATGTCTTTAG	0.353													44	107					0	0	1	0	0		C	158437017	C	C	158437017	3	2	89	1	0	0	0	0	1	0	0	0	10227	246	9	5	95	5	NCAPG2	7	158437017	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	533485	158437017	701646	3305	57136											
NCAPG2	54892	broad.mit.edu	37	chr7	158456966	158456966	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacaggcatttaagcaatgAcgaataacgtgaatcagctt	16	10	8	7	2	1	2	1	2	0	0	1	3	1	2	0	1	4	3	0	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:158456966A>G	uc003wnv.1	-	15	1870	c.1725T>C	c.(1723-1725)CGT>CGC	p.R575R	NCAPG2_uc010lqu.1_Silent_p.R367R|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Silent_p.R575R|NCAPG2_uc011kwe.1_Silent_p.R575R|NCAPG2_uc011kwc.1_Silent_p.R76R|NCAPG2_uc011kwd.1_Silent_p.R76R	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	575					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		TTAAGCAATGACGAATAACGT	0.398													32	81					0	0	1	0	0		G	158456966	G	G	158456966	2	3	89	1	0	0	0	0	0	0	0	1	10227	262	10	3		3	NCAPG2	7	158456966	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	19949	158456966	681697	3306	57137											
WDR60	55112	broad.mit.edu	37	chr7	158715184	158715184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcaaatacgtcctctgtGtgtgggatatttggcagcct	9	12	11	9	1	1	0	0	0	1	0	2	1	2	1	2	2	3	2	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr7:158715184G>A	uc003woe.3	+	16	2196	c.2038G>A	c.(2038-2040)GTG>ATG	p.V680M	WDR60_uc010lqv.2_Intron|WDR60_uc010lqw.2_Missense_Mutation_p.V312M	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	680										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		CGTCCTCTGTGTGTGGGATAT	0.547													15	22					0	0	1	0	0		A	158715184	A	A	158715184	3	1	89	1	0	0	0	0	1	0	0	0	17337	1377	48	4	2100	4	WDR60	7	158715184	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	258218	158715184	423479	3307	57138											
ARHGEF10	9639	broad.mit.edu	37	chr8	1842726	1842726	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaaatgataggcgatgtCttcgtggcttcggtaattaa	10	13	13	5	3	1	1	0	1	1	0	3	3	1	2	0	4	0	2	0	4	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:1842726C>A	uc003wpr.2	+	13	1606	c.1428C>A	c.(1426-1428)GTC>GTA	p.V476V	ARHGEF10_uc003wpq.1_Silent_p.V501V|ARHGEF10_uc003wps.2_Silent_p.V438V|ARHGEF10_uc003wpt.2_Silent_p.V352V|ARHGEF10_uc003wpv.2_Silent_p.V209V|ARHGEF10_uc010lre.2_Silent_p.V156V	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	501	DH.				centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TAGGCGATGTCTTCGTGGCTT	0.547													15	20					1.02788e-11	1.1298e-11	1	1	0		A	1842726	A	A	1842726	2	1	89	1	0	0	0	0	0	0	0	1	894	900	32	5		5	ARHGEF10	8	1842726	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08		1842726	144521296	3308	57139											
ARHGEF10	9639	broad.mit.edu	37	chr8	1904965	1904965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtcctgtcaaattcatcGtcctggccacggctctgcac	8	10	8	15	2	3	0	2	0	1	0	6	0	5	0	3	2	1	2	3	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:1904965G>A	uc003wpr.2	+	29	3749	c.3571G>A	c.(3571-3573)GTC>ATC	p.V1191I	ARHGEF10_uc003wps.2_Missense_Mutation_p.V1153I|ARHGEF10_uc010lre.2_Missense_Mutation_p.V842I	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	1216					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		CAAATTCATCGTCCTGGCCAC	0.517													21	31					0	0	1	0	0		A	1904965	A	A	1904965	3	1	89	1	0	0	0	0	1	0	0	0	894	1145	40	1	3681	1	ARHGEF10	8	1904965	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	62239	1904965	144459057	3309	57140											
MYOM2	9172	broad.mit.edu	37	chr8	2037977	2037977	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggcctgagcgaaccttcGgagataacgtcccccattca	10	8	9	14	3	1	2	1	1	0	1	3	4	2	2	4	2	3	0	4	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:2037977G>A	uc003wpx.3	+	15	1929	c.1791G>A	c.(1789-1791)TCG>TCA	p.S597S	MYOM2_uc011kwi.1_Silent_p.S22S	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	597	Fibronectin type-III 2.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		GCGAACCTTCGGAGATAACGT	0.562													24	21					0	0	1	0	0		A	2037977	A	A	2037977	2	1	89	1	0	0	0	0	0	0	0	1	10110	1103	39	1		1	MYOM2	8	2037977	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	133012	2037977	144326045	3310	57141											
CSMD1	64478	broad.mit.edu	37	chr8	2824263	2824263	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgccagggttgccacaggAcacggctgttaggcaaacaa	11	7	13	10	1	0	0	0	0	0	0	0	1	0	1	2	4	3	4	2	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:2824263A>G	uc011kwk.1	-	58	9322	c.8932T>C	c.(8932-8934)TCC>CCC	p.S2978P	CSMD1_uc011kwj.1_Missense_Mutation_p.S2307P|CSMD1_uc010lrg.2_Intron	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2978	Extracellular (Potential).|Sushi 23.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TTGCCACAGGACACGGCTGTT	0.502													9	8					0	0	1	0	0		G	2824263	G	G	2824263	3	3	89	1	0	0	0	0	1	0	0	0	3947	275	10	3	1817	3	CSMD1	8	2824263	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	786286	2824263	143539759	3311	57142											
CSMD1	64478	broad.mit.edu	37	chr8	3205548	3205548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcaaacagctggaagcttCgtgttctaaggtggatgccc	9	11	11	10	1	2	0	1	0	1	0	3	2	2	2	1	3	4	3	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:3205548C>T	uc011kwk.1	-	22	3833	c.3443G>A	c.(3442-3444)CGA>CAA	p.R1148Q	CSMD1_uc011kwj.1_Missense_Mutation_p.R540Q|CSMD1_uc003wqe.2_Missense_Mutation_p.R304Q	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1148	Extracellular (Potential).|CUB 7.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CTGGAAGCTTCGTGTTCTAAG	0.353													8	5					0	0	1	0	0		T	3205548	T	T	3205548	3	4	89	1	0	0	0	0	1	0	0	0	3947	884	31	1	7450	1	CSMD1	8	3205548	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	381285	3205548	143158474	3312	57143											
SGK223	157285	broad.mit.edu	37	chr8	8235348	8235348	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaggaaatgagggtttttCtttgtgcacagccttctcct	8	15	10	8	0	2	1	0	1	2	0	3	2	2	2	2	2	2	3	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:8235348C>A	uc003wsh.3	-	2	571	c.571G>T	c.(571-573)GAA>TAA	p.E191*		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	191							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GAGGGTTTTTCTTTGTGCACA	0.597													32	38					4.74835e-14	5.33807e-14	1	1	0		A	8235348	A	A	8235348	4	1	89	1	0	0	0	0	0	1	0	0	14235	922	32	5	3653	5	SGK223	8	8235348	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5029800	8235348	138128674	3313	57144											
PPP1R3B	79660	broad.mit.edu	37	chr8	8998978	8998978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgtctgcgaaggacacccGctttttcaccttcttctcct	5	15	7	14	2	4	0	1	0	3	0	5	2	4	1	3	1	1	2	3	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:8998978G>A	uc003wsn.3	-	2	349	c.184C>T	c.(184-186)CGG>TGG	p.R62W	PPP1R3B_uc003wso.3_Missense_Mutation_p.R61W	NM_024607	NP_078883	Q86XI6	PPR3B_HUMAN	protein phosphatase 1, regulatory (inhibitor)	62					glycogen metabolic process					ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(149;0.0717)|READ - Rectum adenocarcinoma(644;0.241)		AAGGACACCCGCTTTTTCACC	0.537													40	39					0	0	1	0	0		A	8998978	A	A	8998978	3	1	89	1	0	0	0	0	1	0	0	0	12394	1086	38	1	677	1	PPP1R3B	8	8998978	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	763630	8998978	137365044	3314	57145											
TNKS	8658	broad.mit.edu	37	chr8	9562212	9562212	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcgggctacaacagagttCgaatagttcagcttcttctt	10	12	9	10	2	3	1	1	0	2	1	4	2	3	1	0	1	4	4	0	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:9562212C>T	uc003wss.2	+	6	1152	c.1147C>T	c.(1147-1149)CGA>TGA	p.R383*	TNKS_uc011kwv.1_Nonsense_Mutation_p.R383*|TNKS_uc011kww.1_Nonsense_Mutation_p.R146*	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	383	ANK 4.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		CAACAGAGTTCGAATAGTTCA	0.393													21	38					0	0	1	0	0		T	9562212	T	T	9562212	4	4	89	1	0	0	0	0	0	1	0	0	16344	876	31	1	1169	1	TNKS	8	9562212	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	563234	9562212	136801810	3315	57146											
PRSS55	203074	broad.mit.edu	37	chr8	10396280	10396280	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtcccctgtcccatgtgTtgttcagagctattttgtac	5	17	8	11	0	2	1	1	0	1	1	4	1	4	1	3	0	2	4	3	0	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:10396280T>C	uc003wta.2	+	5	1051	c.1036T>C	c.(1036-1038)TTG>CTG	p.L346L	uc010lru.2_Intron|PRSS55_uc003wtb.2_Intron	NM_198464	NP_940866	Q6UWB4	PRS55_HUMAN	hypothetical protein LOC203074 precursor	346	Helical; (Potential).				proteolysis	integral to membrane	serine-type endopeptidase activity			ovary(1)	1						GTCCCATGTGTTGTTCAGAGC	0.537													67	82					0	0	1	0	0		C	10396280	C	C	10396280	2	2	89	1	0	0	0	0	0	0	0	1	12656	1722	60	3		3	PRSS55	8	10396280	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	834068	10396280	135967742	3316	57147											
RP1L1	94137	broad.mit.edu	37	chr8	10466733	10466733	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgaaggagaggggccccagGcccagggtccgctcagagaa	10	3	17	11	1	1	3	1	1	0	2	2	5	2	3	4	5	0	1	4	5	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:10466733G>A	uc003wtc.2	-	4	5104	c.4875C>T	c.(4873-4875)GGC>GGT	p.G1625G		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1625					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GGGGCCCCAGGCCCAGGGTCC	0.711													19	11					0	0	1	0	0		A	10466733	A	A	10466733	2	1	89	1	0	0	0	0	0	0	0	1	13558	1190	42	2		2	RP1L1	8	10466733	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	70453	10466733	135897289	3317	57148											
RP1L1	94137	broad.mit.edu	37	chr8	10469605	10469605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggtgtccttgcggtagtgaGaatgcctgggatggcctctc	5	11	16	9	1	1	1	0	1	1	1	3	3	2	2	3	4	2	1	3	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:10469605G>A	uc003wtc.2	-	4	2232	c.2003C>T	c.(2002-2004)TCT>TTT	p.S668F		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	668					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GCGGTAGTGAGAATGCCTGGG	0.652													33	36					0	0	1	0	0		A	10469605	A	A	10469605	3	1	89	1	0	0	0	0	1	0	0	0	13558	942	33	4	5203	4	RP1L1	8	10469605	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2872	10469605	135894417	3318	57149											
BLK	640	broad.mit.edu	37	chr8	11400775	11400775	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagccggacaaggaaaagccGatcaaagagaaggacaaggg	19	1	14	7	2	1	1	1	0	0	1	1	6	1	4	2	4	2	0	2	4	7	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:11400775G>A	uc003wty.2	+	2	623	c.42G>A	c.(40-42)CCG>CCA	p.P14P	BLK_uc003wtz.2_Intron	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	14					intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		AGGAAAAGCCGATCAAAGAGA	0.607													19	36					0	0	1	0	0		A	11400775	A	A	11400775	2	1	89	1	0	0	0	0	0	0	0	1	1445	1045	37	1		1	BLK	8	11400775	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	931170	11400775	134963247	3319	57150											
USP17L2	377630	broad.mit.edu	37	chr8	11994797	11994797	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgatctgtccgggtcgtCgaagagaggtttagcaggga	8	10	15	8	3	1	2	0	1	1	1	5	5	3	3	2	3	1	2	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:11994797C>T	uc003wvc.1	-	1	1473	c.1473G>A	c.(1471-1473)TCG>TCA	p.S491S	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	491					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3						TCCGGGTCGTCGAAGAGAGGT	0.517													14	8					0	0	1	0	0		T	11994797	T	T	11994797	2	4	89	1	0	0	0	0	0	0	0	1	17074	871	31	1		1	USP17L2	8	11994797	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	594022	11994797	134369225	3320	57151											
DLC1	10395	broad.mit.edu	37	chr8	12947955	12947955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgttcggtataggaattacGacatcggctcatttcctcgg	8	14	10	9	4	1	0	1	0	0	0	5	2	2	1	1	4	1	3	1	4	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:12947955G>A	uc003wwm.2	-	15	4324	c.3880C>T	c.(3880-3882)CGT>TGT	p.R1294C	DLC1_uc003wwk.1_Missense_Mutation_p.R857C|DLC1_uc003wwl.1_Missense_Mutation_p.R891C|DLC1_uc011kxx.1_Missense_Mutation_p.R783C	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1294					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding	p.R1294C(1)		ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TAGGAATTACGACATCGGCTC	0.512													25	31					0	0	1	0	0		A	12947955	A	A	12947955	3	1	89	1	0	0	0	0	1	0	0	0	4556	1058	37	1	722	1	DLC1	8	12947955	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	953158	12947955	133416067	3321	57152											
TUSC3	7991	broad.mit.edu	37	chr8	15588214	15588214	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggctcagtttgtggcaGaatcacacattattctggta	10	12	10	9	0	3	1	2	0	1	1	3	1	3	1	1	3	0	4	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:15588214G>T	uc003wwt.2	+	7	1048	c.838G>T	c.(838-840)GAA>TAA	p.E280*	TUSC3_uc003wws.2_Nonsense_Mutation_p.E280*|TUSC3_uc003wwu.2_Nonsense_Mutation_p.E280*|TUSC3_uc003wwv.2_Nonsense_Mutation_p.E280*|TUSC3_uc003www.2_Nonsense_Mutation_p.E280*|TUSC3_uc003wwx.2_Intron|TUSC3_uc003wwy.2_Intron	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	280	Helical; (Potential).				cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		GTTTGTGGCAGAATCACACAT	0.363													10	13					1.58986e-06	1.65575e-06	1	1	0		T	15588214	T	T	15588214	4	4	89	1	0	0	0	0	0	1	0	0	16804	943	33	5	864	5	TUSC3	8	15588214	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2640259	15588214	130775808	3322	57153											
MSR1	4481	broad.mit.edu	37	chr8	16026226	16026226	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctaaaatatgctggattCtcttctccatgttgctcatg	8	17	7	9	0	4	0	1	0	3	0	6	1	4	1	1	1	2	3	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:16026226C>A	uc003wwz.2	-	4	569	c.371G>T	c.(370-372)AGA>ATA	p.R124I	MSR1_uc010lsu.2_Missense_Mutation_p.R142I|MSR1_uc003wxa.2_Missense_Mutation_p.R124I|MSR1_uc003wxb.2_Missense_Mutation_p.R124I|MSR1_uc011kxz.1_Intron	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	124	Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		ATGCTGGATTCTCTTCTCCAT	0.378													66	87					8.3131e-28	1.0101e-27	1	1	0		A	16026226	A	A	16026226	3	1	89	1	0	0	0	0	1	0	0	0	9904	913	32	5	1060	5	MSR1	8	16026226	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	438012	16026226	130337796	3323	57154											
MSR1	4481	broad.mit.edu	37	chr8	16026290	16026290	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatttcctcttcgctgtCatttccttttcccgtgagac	4	18	5	14	2	3	1	2	1	2	1	8	2	6	1	3	0	0	1	3	0	0	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:16026290C>A	uc003wwz.2	-	4	505	c.307G>T	c.(307-309)GAC>TAC	p.D103Y	MSR1_uc010lsu.2_Missense_Mutation_p.D121Y|MSR1_uc003wxa.2_Missense_Mutation_p.D103Y|MSR1_uc003wxb.2_Missense_Mutation_p.D103Y|MSR1_uc011kxz.1_Intron	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	103	Spacer (Probable).|Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		TCTTCGCTGTCATTTCCTTTT	0.383													57	74					1.11015e-26	1.34552e-26	1	1	0		A	16026290	A	A	16026290	3	1	89	1	0	0	0	0	1	0	0	0	9904	826	29	5	1124	5	MSR1	8	16026290	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	64	16026290	130337732	3324	57155											
CNOT7	29883	broad.mit.edu	37	chr8	17094768	17094768	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacagaggaccactccagaAgtcataagaagttctgcaaa	16	7	8	10	0	3	3	2	0	1	3	4	4	4	4	2	1	1	2	2	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:17094768A>C	uc003wxf.1	-	4	594	c.426T>G	c.(424-426)ACT>ACG	p.T142T	CNOT7_uc003wxg.1_Silent_p.T142T|CNOT7_uc003wxh.1_Silent_p.T142T	NM_013354	NP_037486	Q9UIV1	CNOT7_HUMAN	CCR4-NOT transcription complex, subunit 7	142					carbohydrate metabolic process|nuclear-transcribed mRNA poly(A) tail shortening	CCR4-NOT complex|cytoplasmic mRNA processing body|cytosol	nucleic acid binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(1)	1				Colorectal(111;0.0523)|COAD - Colon adenocarcinoma(73;0.209)		CCACTCCAGAAGTCATAAGAA	0.403													61	57					0	0	1	0	0		C	17094768	C	C	17094768	2	2	89	1	0	0	0	0	0	0	0	1	3627	59	3	5		5	CNOT7	8	17094768	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1068478	17094768	129269254	3325	57156											
VPS37A	137492	broad.mit.edu	37	chr8	17142068	17142068	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataatattgcagaagacttCttggagggaaagatggaaat	16	10	12	3	0	1	3	0	0	1	3	1	7	1	6	0	3	1	1	0	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:17142068C>A	uc003wxj.2	+	10	1409	c.1056C>A	c.(1054-1056)TTC>TTA	p.F352L	VPS37A_uc003wxk.2_Missense_Mutation_p.F327L|VPS37A_uc003wxl.2_Missense_Mutation_p.F123L	NM_152415	NP_689628	Q8NEZ2	VP37A_HUMAN	hepatocellular carcinoma related protein 1	352	VPS37 C-terminal.				cellular membrane organization|endosome transport|protein transport	centrosome|late endosome membrane|nucleus					0				Colorectal(111;0.0553)|COAD - Colon adenocarcinoma(73;0.212)		CAGAAGACTTCTTGGAGGGAA	0.383													43	43					1.15505e-17	1.34158e-17	1	1	0		A	17142068	A	A	17142068	3	1	89	1	0	0	0	0	1	0	0	0	17231	912	32	5	1094	5	VPS37A	8	17142068	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	47300	17142068	129221954	3326	57157											
MTUS1	57509	broad.mit.edu	37	chr8	17613066	17613066	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatgaaatcactagaagacTtttcatgaccaaatacttca	17	12	4	8	0	3	4	3	2	0	2	3	4	3	4	1	0	1	0	1	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:17613066T>G	uc003wxv.2	-	2	725	c.251A>C	c.(250-252)AAG>ACG	p.K84T	MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Missense_Mutation_p.K84T|MTUS1_uc010lsz.2_Missense_Mutation_p.K84T	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	84						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		ACTAGAAGACTTTTCATGACC	0.383													47	48					0	0	1	0	0		G	17613066	G	G	17613066	3	3	89	1	0	0	0	0	1	0	0	0	9983	1609	56	5	3936	5	MTUS1	8	17613066	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	470998	17613066	128750956	3327	57158											
PSD3	23362	broad.mit.edu	37	chr8	18656857	18656857	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcacaggtaaggcaatggActccatctaaagaaagatac	16	8	9	8	0	1	2	0	0	1	2	2	3	2	3	1	3	2	3	1	3	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:18656857A>G	uc003wza.2	-	8	2133	c.2030T>C	c.(2029-2031)GTC>GCC	p.V677A	PSD3_uc003wyy.2_Missense_Mutation_p.V143A|PSD3_uc003wyz.2_5'UTR	NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	677	SEC7.				regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		AAGGCAATGGACTCCATCTAA	0.383													23	21					0	0	1	0	0		G	18656857	G	G	18656857	3	3	89	1	0	0	0	0	1	0	0	0	12670	275	10	3	1149	3	PSD3	8	18656857	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1043791	18656857	127707165	3328	57159											
SH2D4A	63898	broad.mit.edu	37	chr8	19218776	19218776	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaatagaagaagagagaacGaagcagatttgtaagagctg	19	6	12	4	1	0	6	0	0	0	6	0	8	0	6	0	0	3	3	0	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:19218776G>A	uc003wzb.2	+	6	993	c.657G>A	c.(655-657)ACG>ACA	p.T219T	SH2D4A_uc011kym.1_Silent_p.T174T|SH2D4A_uc003wzc.2_Silent_p.T219T	NM_022071	NP_071354	Q9H788	SH24A_HUMAN	SH2 domain containing 4A	219						cytoplasm|nucleus	protein binding				0				Colorectal(111;0.0732)		AAGAGAGAACGAAGCAGATTT	0.348													23	17					0	0	1	0	0		A	19218776	A	A	19218776	2	1	89	1	0	0	0	0	0	0	0	1	14260	1045	37	1		1	SH2D4A	8	19218776	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	561919	19218776	127145246	3329	57160											
LPL	4023	broad.mit.edu	37	chr8	19811702	19811702	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctcctgatgatgcagatTttgtagacgtcttacacaca	10	15	7	9	1	2	4	0	2	2	2	3	4	2	4	1	0	2	2	1	0	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:19811702T>G	uc003wzk.3	+	5	983	c.613T>G	c.(613-615)TTT>GTT	p.F205V		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor	205					fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	TGATGCAGATTTTGTAGACGT	0.483													52	43					0	0	1	0	0		G	19811702	G	G	19811702	3	3	89	1	0	0	0	0	1	0	0	0	8939	1841	64	5	631	5	LPL	8	19811702	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	592926	19811702	126552320	3330	57161											
LPL	4023	broad.mit.edu	37	chr8	19813404	19813404	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctccattcatctcttcatCgactctctgttgaatgaaga	9	14	6	12	2	4	3	2	2	2	1	8	4	5	3	1	0	0	2	1	0	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:19813404C>T	uc003wzk.3	+	6	1198	c.828C>T	c.(826-828)ATC>ATT	p.I276I		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor	276					fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	ATCTCTTCATCGACTCTCTGT	0.463													29	25					0	0	1	0	0		T	19813404	T	T	19813404	2	4	89	1	0	0	0	0	0	0	0	1	8939	874	31	1		1	LPL	8	19813404	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1702	19813404	126550618	3331	57162											
XPO7	23039	broad.mit.edu	37	chr8	21833868	21833868	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtggtaatttttacaggCttcaggaaagaatctaaact	14	14	8	5	0	2	1	1	0	1	1	2	2	2	2	0	3	2	2	0	3	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:21833868C>T	uc003xaa.3	+	7	701	c.599C>T	c.(598-600)GCT>GTT	p.A200V	XPO7_uc010lti.2_Missense_Mutation_p.A209V|XPO7_uc010ltj.1_RNA|XPO7_uc010ltk.2_Missense_Mutation_p.A201V	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	200					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		TTTTTACAGGCTTCAGGAAAG	0.438													66	80					0	0	1	0	0		T	21833868	T	T	21833868	3	4	89	1	0	0	0	0	1	0	0	0	17475	811	28	2	677	2	XPO7	8	21833868	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2020464	21833868	124530154	3332	57163											
XPO7	23039	broad.mit.edu	37	chr8	21848324	21848324	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttctttttttcaatagagCgagcacttttcatttttggg	7	21	7	6	1	3	1	2	0	1	1	3	2	3	1	0	1	2	1	0	1	2	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:21848324C>T	uc003xaa.3	+	18	2037	c.1935C>T	c.(1933-1935)AGC>AGT	p.S645S	XPO7_uc010lti.2_Silent_p.S654S|XPO7_uc010ltk.2_Silent_p.S646S	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	645					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		TTCAATAGAGCGAGCACTTTT	0.428													45	45					0	0	1	0	0		T	21848324	T	T	21848324	2	4	89	1	0	0	0	0	0	0	0	1	17475	767	27	1		1	XPO7	8	21848324	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14456	21848324	124515698	3333	57164											
LGI3	203190	broad.mit.edu	37	chr8	22006386	22006386	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctggtgaagcgcgtggTgttgggatcccagtggtaaa	8	9	16	8	2	0	1	0	1	0	0	1	2	1	2	2	4	2	2	2	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:22006386T>C	uc003xav.2	-	8	1223	c.934A>G	c.(934-936)ACC>GCC	p.T312A	LGI3_uc010ltu.2_Missense_Mutation_p.T288A	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	312					exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		AAGCGCGTGGTGTTGGGATCC	0.597													12	12					0	0	1	0	0		C	22006386	C	C	22006386	3	2	89	1	0	0	0	0	1	0	0	0	8769	1696	59	3	716	3	LGI3	8	22006386	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	158062	22006386	124357636	3334	57165											
PIWIL2	55124	broad.mit.edu	37	chr8	22172631	22172631	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaactgtaaattgggtggTgagctctggggagtggatat	10	13	15	3	0	1	1	0	1	1	0	1	3	1	3	0	5	2	2	0	5	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:22172631T>C	uc003xbn.2	+	18	2329	c.2181T>C	c.(2179-2181)GGT>GGC	p.G727G	PIWIL2_uc011kzf.1_Silent_p.G727G|PIWIL2_uc010ltv.2_Silent_p.G727G	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2	727	Piwi.				DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		AATTGGGTGGTGAGCTCTGGG	0.463													31	25					0	0	1	0	0		C	22172631	C	C	22172631	2	2	89	1	0	0	0	0	0	0	0	1	11977	1683	59	3		3	PIWIL2	8	22172631	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	166245	22172631	124191391	3335	57166											
ADAMDEC1	27299	broad.mit.edu	37	chr8	24254940	24254940	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgggaaacaaggcccaattCgaatctctagatcactcaaa	16	7	7	11	2	3	1	2	0	1	1	5	3	3	2	1	2	1	0	1	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:24254940C>T	uc003xdz.2	+	6	818	c.598C>T	c.(598-600)CGA>TGA	p.R200*	ADAMDEC1_uc010lub.2_Nonsense_Mutation_p.R121*|ADAMDEC1_uc011lab.1_Nonsense_Mutation_p.R121*	NM_014479	NP_055294	O15204	ADEC1_HUMAN	ADAM-like, decysin 1 isoform 1	200					integrin-mediated signaling pathway|negative regulation of cell adhesion|proteolysis	extracellular region|integral to membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)	2		Prostate(55;0.0181)		Colorectal(74;0.016)|COAD - Colon adenocarcinoma(73;0.0646)|BRCA - Breast invasive adenocarcinoma(99;0.168)		AGGCCCAATTCGAATCTCTAG	0.433													81	70					0	0	1	0	0		T	24254940	T	T	24254940	4	4	89	1	0	0	0	0	0	1	0	0	254	876	31	1	620	1	ADAMDEC1	8	24254940	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2082309	24254940	122109082	3336	57167											
DOCK5	80005	broad.mit.edu	37	chr8	25227129	25227129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagaagggggcagaggagacGaacaatacaaggttcttctg	14	7	14	6	1	2	3	0	0	2	3	2	5	2	3	0	4	2	2	0	4	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:25227129G>A	uc003xeg.2	+	34	3633	c.3496G>A	c.(3496-3498)GAA>AAA	p.E1166K	DOCK5_uc010luf.1_RNA|DOCK5_uc003xeh.1_Missense_Mutation_p.E880K|PPP2R2A_uc003xek.2_5'Flank|DOCK5_uc003xei.2_Missense_Mutation_p.E736K|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1166	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		CAGAGGAGACGAACAATACAA	0.428													7	5					0	0	1	0	0		A	25227129	A	A	25227129	3	1	89	1	0	0	0	0	1	0	0	0	4696	1059	37	1	3630	1	DOCK5	8	25227129	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	972189	25227129	121136893	3337	57168											
KCTD9	54793	broad.mit.edu	37	chr8	25296817	25296817	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataaattaatgccatcattTacaatgagctgtccatgacg	15	12	6	8	1	1	2	1	2	0	0	2	2	2	2	2	0	3	1	2	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:25296817T>C	uc003xeo.2	-	6	635	c.477A>G	c.(475-477)GTA>GTG	p.V159V	PPP2R2A_uc003xek.2_Intron	NM_017634	NP_060104	Q7L273	KCTD9_HUMAN	potassium channel tetramerisation domain	159	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		TGCCATCATTTACAATGAGCT	0.333													12	14					0	0	1	0	0		C	25296817	C	C	25296817	2	2	89	1	0	0	0	0	0	0	0	1	8132	1741	61	3		3	KCTD9	8	25296817	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	69688	25296817	121067205	3338	57169											
PTK2B	2185	broad.mit.edu	37	chr8	27300491	27300491	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccacagccttccaggaaccCccacccaaggtaagccaagc	12	3	7	19	0	0	0	0	0	0	0	1	1	1	1	7	2	4	1	7	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:27300491C>T	uc003xfn.1	+	27	2947	c.2139C>T	c.(2137-2139)CCC>CCT	p.P713P	PTK2B_uc003xfo.1_Silent_p.P713P|PTK2B_uc003xfp.1_Silent_p.P713P|PTK2B_uc003xfq.1_Silent_p.P713P|PTK2B_uc003xfr.1_Silent_p.P459P	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	713	Pro-rich.				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		TCCAGGAACCCCCACCCAAGG	0.542													30	16					0	0	1	0	0		T	27300491	T	T	27300491	2	4	89	1	0	0	0	0	0	0	0	1	12786	610	22	4		4	PTK2B	8	27300491	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2003674	27300491	119063531	3339	57170											
TEX15	56154	broad.mit.edu	37	chr8	30699651	30699651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatgcactctgatactggggGcaacatcgtagaaatactaa	14	10	9	8	1	1	2	0	1	1	1	2	2	1	2	0	2	4	3	0	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:30699651G>A	uc003xil.2	-	1	6883	c.6883C>T	c.(6883-6885)CCC>TCC	p.P2295S		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2295										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		GATACTGGGGGCAACATCGTA	0.348													23	17					0	0	1	0	0		A	30699651	A	A	30699651	3	1	89	1	0	0	0	0	1	0	0	0	15804	1203	42	2	1502	2	TEX15	8	30699651	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3399160	30699651	115664371	3340	57171											
TEX15	56154	broad.mit.edu	37	chr8	30701056	30701056	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagtactttttcttaagatTtccaggtcttctaaactatc	12	17	4	8	0	3	1	0	0	3	1	5	1	4	1	1	1	2	1	1	1	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:30701056T>G	uc003xil.2	-	1	5478	c.5478A>C	c.(5476-5478)GAA>GAC	p.E1826D		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1826										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TTCTTAAGATTTCCAGGTCTT	0.373													26	39					0	0	1	0	0		G	30701056	G	G	30701056	3	3	89	1	0	0	0	0	1	0	0	0	15804	1838	64	5	2907	5	TEX15	8	30701056	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1405	30701056	115662966	3341	57172											
TEX15	56154	broad.mit.edu	37	chr8	30703661	30703661	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattcgtccttgggataatGaagagaaacactcagatgag	15	10	10	6	1	1	4	1	2	0	2	3	6	2	5	1	1	1	0	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:30703661G>T	uc003xil.2	-	1	2873	c.2873C>A	c.(2872-2874)TCA>TAA	p.S958*		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	958										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TTGGGATAATGAAGAGAAACA	0.358													49	55					2.9001e-28	3.52487e-28	1	1	0		T	30703661	T	T	30703661	4	4	89	1	0	0	0	0	0	1	0	0	15804	1294	45	5	5512	5	TEX15	8	30703661	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2605	30703661	115660361	3342	57173											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37734802	37734802	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtcttgatctttgatttCtttttcttgtctttaaccac	7	21	5	8	0	5	2	0	2	5	0	5	2	5	2	1	1	1	0	1	1	2	8	rs143926211		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:37734802C>A	uc003xkm.1	-	2	683	c.639G>T	c.(637-639)AAG>AAT	p.K213N	RAB11FIP1_uc010lvz.1_Missense_Mutation_p.K61N|RAB11FIP1_uc003xkn.1_Missense_Mutation_p.K213N|RAB11FIP1_uc003xkp.1_Missense_Mutation_p.K61N	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	213	Poly-Lys.				protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			TCTTTGATTTCTTTTTCTTGT	0.473													67	72					6.8682e-38	8.49914e-38	1	1	0		A	37734802	A	A	37734802	3	1	89	1	0	0	0	0	1	0	0	0	12918	912	32	5	3232	5	RAB11FIP1	8	37734802	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7031141	37734802	108629220	3343	57174											
DDHD2	23259	broad.mit.edu	37	chr8	38090720	38090720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attcacagcagctggaagagGcatatagctctggtaggtga	12	9	13	7	0	2	2	1	1	1	1	2	3	2	3	0	4	3	5	0	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:38090720G>A	uc003xlb.2	+	2	585	c.208G>A	c.(208-210)GCA>ACA	p.A70T	DDHD2_uc003xla.2_Missense_Mutation_p.A70T|DDHD2_uc003xlc.2_Missense_Mutation_p.A70T|DDHD2_uc011lbl.1_5'UTR	NM_015214	NP_056029	O94830	DDHD2_HUMAN	DDHD domain containing 2 isoform 1	70	WWE.				lipid catabolic process	centrosome	hydrolase activity|metal ion binding			large_intestine(1)|ovary(1)	2	Colorectal(12;0.000442)	all_lung(54;0.0657)|Lung NSC(58;0.175)	BRCA - Breast invasive adenocarcinoma(5;3.76e-25)|COAD - Colon adenocarcinoma(9;0.0977)			GCTGGAAGAGGCATATAGCTC	0.378													33	27					0	0	1	0	0		A	38090720	A	A	38090720	3	1	89	1	0	0	0	0	1	0	0	0	4330	1203	42	2	210	2	DDHD2	8	38090720	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	355918	38090720	108273302	3344	57175											
ANK1	286	broad.mit.edu	37	chr8	41550298	41550298	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcatcttggcaaagatgacGaatttggccatgtagggcac	11	11	11	8	1	2	2	1	1	1	1	2	3	2	2	1	3	0	3	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:41550298G>A	uc003xok.2	-	31	3810	c.3726C>T	c.(3724-3726)TTC>TTT	p.F1242F	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Silent_p.F558F|ANK1_uc003xoi.2_Silent_p.F1242F|ANK1_uc003xoj.2_Silent_p.F1242F|ANK1_uc003xol.2_Silent_p.F1242F|ANK1_uc003xom.2_Silent_p.F1283F	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1242					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			CAAAGATGACGAATTTGGCCA	0.537													97	178					0	0	1	0	0		A	41550298	A	A	41550298	2	1	89	1	0	0	0	0	0	0	0	1	620	1049	37	1		1	ANK1	8	41550298	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3459578	41550298	104813724	3345	57176											
MYST3	7994	broad.mit.edu	37	chr8	41789996	41789996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcattcaaggtgttcatattCatggaattgacattataggc	12	14	9	6	0	3	1	3	1	0	0	3	2	3	2	0	3	0	2	0	3	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:41789996C>T	uc010lxb.2	-	18	6286	c.5742G>A	c.(5740-5742)ATG>ATA	p.M1914I	MYST3_uc010lxc.2_Missense_Mutation_p.M1914I|MYST3_uc003xon.3_Missense_Mutation_p.M1914I	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1914	Required for activation of RUNX1-2.|Met-rich.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			TGTTCATATTCATGGAATTGA	0.502													31	82					0	0	1	0	0		T	41789996	T	T	41789996	3	4	89	1	0	0	0	0	1	0	0	0	10122	826	29	4	276	4	MYST3	8	41789996	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	239698	41789996	104574026	3346	57177											
MYST3	7994	broad.mit.edu	37	chr8	41794925	41794925	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcctcctcttcttcatcGatctcaaacgtgggttctaa	7	16	5	13	2	6	0	2	0	5	0	10	1	8	0	2	1	1	1	2	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:41794925G>A	uc010lxb.2	-	17	3745	c.3201C>T	c.(3199-3201)ATC>ATT	p.I1067I	MYST3_uc010lxc.2_Silent_p.I1067I|MYST3_uc003xon.3_Silent_p.I1067I	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1067					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			CTTCTTCATCGATCTCAAACG	0.433													36	79					0	0	1	0	0		A	41794925	A	A	41794925	2	1	89	1	0	0	0	0	0	0	0	1	10122	1048	37	1		1	MYST3	8	41794925	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4929	41794925	104569097	3347	57178											
MYST3	7994	broad.mit.edu	37	chr8	41832248	41832248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcttgttcttggatatcacGaaataattccatatctttct	10	18	5	8	1	4	0	1	0	3	0	5	2	5	1	1	1	1	2	1	1	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:41832248G>A	uc010lxb.2	-	9	2000	c.1456C>T	c.(1456-1458)CGT>TGT	p.R486C	MYST3_uc010lxc.2_Missense_Mutation_p.R486C|MYST3_uc003xon.3_Missense_Mutation_p.R486C|MYST3_uc010lxd.2_Missense_Mutation_p.R486C	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	486	Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			TGGATATCACGAAATAATTCC	0.393													36	72					0	0	1	0	0		A	41832248	A	A	41832248	3	1	89	1	0	0	0	0	1	0	0	0	10122	1058	37	1	4598	1	MYST3	8	41832248	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	37323	41832248	104531774	3348	57179											
AP3M2	10947	broad.mit.edu	37	chr8	42023053	42023053	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgatggaaacttccgcctgCtgtcttaccatgtcagtgca	8	12	9	12	1	2	1	1	1	1	0	3	2	3	2	3	1	4	2	3	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:42023053C>T	uc003xop.2	+	7	1069	c.778C>T	c.(778-780)CTG>TTG	p.L260L	AP3M2_uc003xoo.2_Silent_p.L260L|AP3M2_uc010lxe.2_RNA|AP3M2_uc003xoq.1_Silent_p.L145L|AP3M2_uc003xor.1_Silent_p.L260L	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	260	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			CTTCCGCCTGCTGTCTTACCA	0.433													64	129					0	0	1	0	0		T	42023053	T	T	42023053	2	4	89	1	0	0	0	0	0	0	0	1	748	796	28	2		2	AP3M2	8	42023053	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	190805	42023053	104340969	3349	57180											
IKBKB	3551	broad.mit.edu	37	chr8	42129664	42129664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgcagacatgtggggcctggGaaatgaaagagcgccttggg	10	6	17	8	2	0	3	0	1	0	2	0	4	0	4	2	4	1	1	2	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:42129664G>A	uc003xow.1	+	2	223	c.46G>A	c.(46-48)GAA>AAA	p.E16K	IKBKB_uc003xov.2_Missense_Mutation_p.E16K|IKBKB_uc010lxh.1_Missense_Mutation_p.G5E|IKBKB_uc011lco.1_RNA|IKBKB_uc010lxj.1_5'UTR|IKBKB_uc003xox.1_5'UTR|IKBKB_uc011lcp.1_RNA|IKBKB_uc011lcq.1_Intron|IKBKB_uc010lxi.1_RNA|IKBKB_uc011lcr.1_5'UTR	NM_001556	NP_001547	O14920	IKKB_HUMAN	inhibitor of nuclear factor kappa B kinase beta	16	Protein kinase.				anti-apoptosis|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|membrane raft	ATP binding|identical protein binding|IkappaB kinase activity			breast(3)|ovary(2)|lung(1)|skin(1)	7	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;6.21e-12)|Lung NSC(13;1.04e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;1.37e-10)|Colorectal(10;0.00102)|OV - Ovarian serous cystadenocarcinoma(14;0.00168)|Lung(22;0.00467)|LUSC - Lung squamous cell carcinoma(45;0.024)|COAD - Colon adenocarcinoma(11;0.0264)		Arsenic trioxide(DB01169)|Auranofin(DB00995)	TGGGGCCTGGGAAATGAAAGA	0.542													37	98					0	0	1	0	0		A	42129664	A	A	42129664	3	1	89	1	0	0	0	0	1	0	0	0	7627	1175	41	4	48	4	IKBKB	8	42129664	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	106611	42129664	104234358	3350	57181											
CHRNB3	1142	broad.mit.edu	37	chr8	42587006	42587006	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggttgacctcattttgAtcaatgaaaatgtcgacaga	13	12	8	8	1	2	4	2	3	0	1	3	5	2	4	2	1	0	1	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:42587006A>C	uc003xpi.1	+	5	684	c.556A>C	c.(556-558)ATC>CTC	p.I186L		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	186	Extracellular (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			CCTCATTTTGATCAATGAAAA	0.478													16	71					0	0	1	0	0		C	42587006	C	C	42587006	3	2	89	1	0	0	0	0	1	0	0	0	3395	333	12	5	574	5	CHRNB3	8	42587006	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	457342	42587006	103777016	3351	57182											
CHRNA6	8973	broad.mit.edu	37	chr8	42612120	42612120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatcttatctgcaggaacgcGaagagtctcaatgccatcat	13	10	8	10	2	4	1	2	0	3	1	5	3	4	2	1	1	3	1	1	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:42612120G>A	uc003xpj.2	-	4	371	c.325C>T	c.(325-327)CGC>TGC	p.R109C	CHRNA6_uc011lcw.1_Missense_Mutation_p.R94C	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	109	Extracellular.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GCAGGAACGCGAAGAGTCTCA	0.383													50	85					0	0	1	0	0		A	42612120	A	A	42612120	3	1	89	1	0	0	0	0	1	0	0	0	3390	1058	37	1	1171	1	CHRNA6	8	42612120	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	25114	42612120	103751902	3352	57183											
CHRNA6	8973	broad.mit.edu	37	chr8	42620276	42620276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcggaaacgttttccacagGcctgatgaactggttgtaat	10	12	11	8	2	0	2	0	2	0	0	2	3	1	3	2	3	2	3	2	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:42620276G>A	uc003xpj.2	-	2	197	c.151C>T	c.(151-153)CCT>TCT	p.P51S	CHRNA6_uc011lcw.1_Missense_Mutation_p.P51S	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	51	Extracellular.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			TTTTCCACAGGCCTGATGAAC	0.537													56	103					0	0	1	0	0		A	42620276	A	A	42620276	3	1	89	1	0	0	0	0	1	0	0	0	3390	1203	42	2	1353	2	CHRNA6	8	42620276	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8156	42620276	103743746	3353	57184											
HOOK3	84376	broad.mit.edu	37	chr8	42761366	42761366	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaccgtggaagatttaacGaatggggttgtgatggccca	11	9	14	7	2	0	3	0	1	0	2	0	5	0	4	2	4	1	1	2	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:42761366G>A	uc003xpr.2	+	2	350	c.108G>A	c.(106-108)ACG>ACA	p.T36T	HOOK3_uc010lxq.1_Silent_p.T36T	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	36	Sufficient for interaction with microtubules.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			AAGATTTAACGAATGGGGTTG	0.408			T	RET	papillary thyroid								30	60					0	0	1	0	0		A	42761366	A	A	42761366	2	1	89	1	0	0	0	0	0	0	0	1	7300	1045	37	1		1	HOOK3	8	42761366	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	141090	42761366	103602656	3354	57185											
HOOK3	84376	broad.mit.edu	37	chr8	42828481	42828481	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatcaaagaaagcagataAactagattttgaatataagc	21	9	7	4	0	1	5	1	1	0	4	1	5	1	5	0	0	3	1	0	0	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:42828481A>C	uc003xpr.2	+	12	1414	c.1172A>C	c.(1171-1173)AAA>ACA	p.K391T	HOOK3_uc010lxq.1_Missense_Mutation_p.K391T	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	391	Potential.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			AAAGCAGATAAACTAGATTTT	0.313			T	RET	papillary thyroid								27	49					0	0	1	0	0		C	42828481	C	C	42828481	3	2	89	1	0	0	0	0	1	0	0	0	7300	14	1	5	1218	5	HOOK3	8	42828481	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	67115	42828481	103535541	3355	57186											
HOOK3	84376	broad.mit.edu	37	chr8	42865454	42865454	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtctcatctgcagccttaaAaattgaagaattacaagaag	16	11	7	7	0	2	3	1	1	2	2	3	3	2	3	1	0	3	1	1	0	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:42865454A>C	uc003xpr.2	+	19	1987	c.1745A>C	c.(1744-1746)AAA>ACA	p.K582T		NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	582	Potential.|Required for interaction with MSR1.|Required for association with Golgi.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			GCAGCCTTAAAAATTGAAGAA	0.209			T	RET	papillary thyroid								7	21					0	0	1	0	0		C	42865454	C	C	42865454	3	2	89	1	0	0	0	0	1	0	0	0	7300	14	1	5	1819	5	HOOK3	8	42865454	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	36973	42865454	103498568	3356	57187											
POTEA	340441	broad.mit.edu	37	chr8	43197428	43197428	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttttctctaattatgaGacttttacattgctcattga	9	20	5	7	0	2	2	1	2	1	1	3	3	2	2	0	0	3	2	0	0	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:43197428G>T	uc003xpz.1	+	11	1360	c.1317G>T	c.(1315-1317)GAG>GAT	p.E439D	POTEA_uc003xqa.1_Missense_Mutation_p.E393D	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	439										ovary(1)	1						CTAATTATGAGACTTTTACAT	0.358													25	54					7.87624e-14	8.83987e-14	1	1	0		T	43197428	T	T	43197428	3	4	89	1	0	0	0	0	1	0	0	0	12280	933	33	5	1359	5	POTEA	8	43197428	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	331974	43197428	103166594	3357	57188											
KIAA0146	23514	broad.mit.edu	37	chr8	48352951	48352951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaatgtgccatgcaagttgCcatgtgtgagcagttattgg	9	12	14	6	0	0	1	0	1	0	0	0	2	0	2	2	2	4	4	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:48352951C>T	uc003xqd.2	+	8	953	c.944C>T	c.(943-945)GCC>GTC	p.A315V	KIAA0146_uc011lcz.1_RNA|KIAA0146_uc011lda.1_Missense_Mutation_p.A4V|KIAA0146_uc011ldb.1_Missense_Mutation_p.A315V|KIAA0146_uc010lxs.2_5'UTR|KIAA0146_uc011ldc.1_Missense_Mutation_p.A245V|KIAA0146_uc011ldd.1_Missense_Mutation_p.A255V|KIAA0146_uc003xqe.2_5'UTR|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc011lde.1_Missense_Mutation_p.A4V|KIAA0146_uc010lxt.2_Missense_Mutation_p.A4V	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	315											0		Lung NSC(58;0.175)				ATGCAAGTTGCCATGTGTGAG	0.463													29	69					0	0	1	0	0		T	48352951	T	T	48352951	3	4	89	1	0	0	0	0	1	0	0	0	8173	739	26	2	974	2	KIAA0146	8	48352951	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5155523	48352951	98011071	3358	57189											
PRKDC	5591	broad.mit.edu	37	chr8	48769854	48769854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagtgcttcgcgtaagggcGaaagacctacaagaggatgt	12	7	13	9	3	0	2	0	0	0	2	1	4	0	3	2	2	2	2	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:48769854G>A	uc003xqi.2	-	50	6529	c.6472C>T	c.(6472-6474)CGC>TGC	p.R2158C	PRKDC_uc003xqj.2_Missense_Mutation_p.R2158C|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2158					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				GCGTAAGGGCGAAAGACCTAC	0.413								NHEJ					16	33					0	0	1	0	0		A	48769854	A	A	48769854	3	1	89	1	0	0	0	0	1	0	0	0	12543	1058	37	1	6066	1	PRKDC	8	48769854	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	416903	48769854	97594168	3359	57190											
PRKDC	5591	broad.mit.edu	37	chr8	48794568	48794568	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacttcttccagtgttgcaGaattgtagtcgcaagtttca	10	14	8	9	1	2	1	1	0	1	1	4	1	3	1	1	0	1	5	1	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:48794568G>T	uc003xqi.2	-	38	4924	c.4867C>A	c.(4867-4869)CTG>ATG	p.L1623M	PRKDC_uc003xqj.2_Missense_Mutation_p.L1623M|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1623					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CAGTGTTGCAGAATTGTAGTC	0.463								NHEJ					29	73					6.38683e-12	7.03806e-12	1	1	0		T	48794568	T	T	48794568	3	4	89	1	0	0	0	0	1	0	0	0	12543	933	33	5	7719	5	PRKDC	8	48794568	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24714	48794568	97569454	3360	57191											
PRKDC	5591	broad.mit.edu	37	chr8	48815210	48815210	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgaagcgcaaggctataaAgtcgcttgaaaagcgatttg	13	9	13	6	3	0	2	0	2	0	0	1	3	0	2	0	2	2	3	0	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:48815210A>C	uc003xqi.2	-	27	3245	c.3188T>G	c.(3187-3189)CTT>CGT	p.L1063R	PRKDC_uc003xqj.2_Missense_Mutation_p.L1063R|PRKDC_uc011ldh.1_Missense_Mutation_p.L1063R	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1063					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AAGGCTATAAAGTCGCTTGAA	0.433								NHEJ					9	26					0	0	1	0	0		C	48815210	C	C	48815210	3	2	89	1	0	0	0	0	1	0	0	0	12543	72	3	5	9437	5	PRKDC	8	48815210	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	20642	48815210	97548812	3361	57192											
EFCAB1	79645	broad.mit.edu	37	chr8	49642308	49642308	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgttatttcaaccaaatCtttaattccttcatcagggt	11	16	5	9	0	4	0	3	0	1	0	5	0	5	0	2	1	1	1	2	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:49642308C>A	uc003xqo.2	-	4	602	c.442G>T	c.(442-444)GAT>TAT	p.D148Y	EFCAB1_uc003xqn.3_Intron|EFCAB1_uc011ldj.1_Missense_Mutation_p.D96Y|EFCAB1_uc010lxx.2_RNA|EFCAB1_uc011ldk.1_RNA	NM_024593	NP_078869	Q9HAE3	EFCB1_HUMAN	EF-hand calcium binding domain 1 isoform a	148	EF-hand 3.						calcium ion binding				0		all_epithelial(80;0.0134)|Lung NSC(129;0.0207)|all_lung(136;0.0464)				TCAACCAAATCTTTAATTCCT	0.353													19	40					1.96292e-10	2.12899e-10	1	1	0		A	49642308	A	A	49642308	3	1	89	1	0	0	0	0	1	0	0	0	4939	913	32	5	205	5	EFCAB1	8	49642308	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	827098	49642308	96721714	3362	57193											
SNAI2	6591	broad.mit.edu	37	chr8	49832466	49832466	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcttacccgtgtgagttCtaatgtgtccttgaagcaac	8	15	8	10	1	2	2	0	2	2	0	4	2	3	2	2	0	3	2	2	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:49832466C>A	uc003xqp.2	-	2	778	c.614G>T	c.(613-615)AGA>ATA	p.R205I		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	205	C2H2-type 3.				canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				CGTGTGAGTTCTAATGTGTCC	0.483													41	77					1.15183e-24	1.38497e-24	1	1	0		A	49832466	A	A	49832466	3	1	89	1	0	0	0	0	1	0	0	0	14852	913	32	5	200	5	SNAI2	8	49832466	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	190158	49832466	96531556	3363	57194											
PXDNL	137902	broad.mit.edu	37	chr8	52252189	52252189	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagaaaacaaacctgctCtctgagtgctgtgatggttt	12	11	11	7	0	1	3	0	2	1	1	2	5	1	3	1	1	4	3	1	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:52252189C>A	uc003xqu.3	-	21	4242	c.4141G>T	c.(4141-4143)GAG>TAG	p.E1381*	PXDNL_uc003xqt.3_Intron	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1381					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CAAACCTGCTCTCTGAGTGCT	0.388													31	67					9.17885e-22	1.0907e-21	1	1	0		A	52252189	A	A	52252189	4	1	89	1	0	0	0	0	0	1	0	0	12873	922	32	5	262	5	PXDNL	8	52252189	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2419723	52252189	94111833	3364	57195											
PCMTD1	115294	broad.mit.edu	37	chr8	52744080	52744080	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaatgaaacagcaaggatAtttttactttcccaagtgtt	14	13	7	7	0	0	1	0	1	0	0	1	2	1	2	1	1	3	3	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:52744080A>G	uc003xqx.3	-	5	971	c.630T>C	c.(628-630)AAT>AAC	p.N210N	PCMTD1_uc011ldm.1_Silent_p.N80N|PCMTD1_uc003xqw.3_Silent_p.N210N|PCMTD1_uc011ldn.1_Silent_p.N22N|PCMTD1_uc010lya.2_Silent_p.N134N	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	210						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				CAGCAAGGATATTTTTACTTT	0.368													19	51					0	0	1	0	0		G	52744080	G	G	52744080	2	3	89	1	0	0	0	0	0	0	0	1	11605	446	16	3		3	PCMTD1	8	52744080	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	491891	52744080	93619942	3365	57196											
ST18	9705	broad.mit.edu	37	chr8	53055523	53055523	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgagatctcttgcatgaAgcttgggtttagggcttggt	6	17	13	5	0	1	2	0	2	1	1	2	3	1	2	0	3	2	4	0	3	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:53055523A>C	uc003xqz.2	-	12	2291	c.2135T>G	c.(2134-2136)CTT>CGT	p.L712R	ST18_uc011ldq.1_Missense_Mutation_p.L359R|ST18_uc011ldr.1_Missense_Mutation_p.L677R|ST18_uc011lds.1_Missense_Mutation_p.L617R|ST18_uc003xra.2_Missense_Mutation_p.L712R	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	712						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				TCTTGCATGAAGCTTGGGTTT	0.403													8	95					0	0	1	0	0		C	53055523	C	C	53055523	3	2	89	1	0	0	0	0	1	0	0	0	15237	72	3	5	1048	5	ST18	8	53055523	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	311443	53055523	93308499	3366	57197											
FAM150A	389658	broad.mit.edu	37	chr8	53454968	53454968	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctgtgaaatgctttatGaatttgtcttttaagttaga	11	19	7	4	0	1	3	0	2	1	1	1	3	1	3	1	0	2	2	1	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:53454968G>T	uc003xrd.2	-	2	433	c.228C>A	c.(226-228)TTC>TTA	p.F76L	FAM150A_uc011ldt.1_Missense_Mutation_p.F76L	NM_207413	NP_997296	Q6UXT8	F150A_HUMAN	hypothetical protein LOC389658 precursor	76						extracellular region					0		Lung NSC(129;0.0919)|all_epithelial(80;0.125)|all_lung(136;0.17)				AATGCTTTATGAATTTGTCTT	0.299													17	46					1.02788e-11	1.1298e-11	1	1	0		T	53454968	T	T	53454968	3	4	89	1	0	0	0	0	1	0	0	0	5467	1281	45	5	173	5	FAM150A	8	53454968	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	399445	53454968	92909054	3367	57198											
RB1CC1	9821	broad.mit.edu	37	chr8	53573751	53573751	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagagcttcaacaattttGactctttctaacagctctat	12	15	4	10	0	4	2	1	1	3	1	4	2	4	2	0	0	4	2	0	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:53573751G>T	uc003xre.3	-	10	2007	c.1449C>A	c.(1447-1449)GTC>GTA	p.V483V	RB1CC1_uc003xrf.3_Silent_p.V483V	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	483					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				CAACAATTTTGACTCTTTCTA	0.393													42	82					3.54561e-26	4.28591e-26	1	1	0		T	53573751	T	T	53573751	2	4	89	1	0	0	0	0	0	0	0	1	13124	1277	45	5		5	RB1CC1	8	53573751	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	118783	53573751	92790271	3368	57199											
RB1CC1	9821	broad.mit.edu	37	chr8	53596199	53596199	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttccatgtcattttctgtCgaaaaggtagttttaggaat	11	17	8	5	1	2	0	1	0	1	0	4	2	3	1	1	2	0	2	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:53596199C>T	uc003xre.3	-	5	837	c.279G>A	c.(277-279)TCG>TCA	p.S93S	RB1CC1_uc003xrf.3_Silent_p.S93S	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	93					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				CATTTTCTGTCGAAAAGGTAG	0.318													31	34					0	0	1	0	0		T	53596199	T	T	53596199	2	4	89	1	0	0	0	0	0	0	0	1	13124	871	31	1		1	RB1CC1	8	53596199	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	22448	53596199	92767823	3369	57200											
TCEA1	6917	broad.mit.edu	37	chr8	54899528	54899528	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatatacacacaaaggataTcttcttcaatttgagatcct	15	13	5	8	0	3	1	1	1	2	1	4	4	4	2	1	1	1	0	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:54899528T>C	uc003xru.2	-	6	846	c.523_splice	c.e6+1	p.A175_splice	TCEA1_uc003xrv.2_Splice_Site_p.A154_splice|TCEA1_uc011ldw.1_Intron|TCEA1_uc010lyg.2_5'Flank	NM_006756	NP_006747	P23193	TCEA1_HUMAN	transcription elongation factor A 1 isoform 1						positive regulation of viral transcription|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	nucleoplasm	DNA binding|translation elongation factor activity|zinc ion binding				0		Lung NSC(129;0.109)|all_epithelial(80;0.11)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;9.1e-07)|Epithelial(17;9.44e-05)|all cancers(17;0.000699)			ACAAAGGATATCTTCTTCAAT	0.189			T	PLAG1	salivary adenoma								5	8					0	0	1	0	0		C	54899528	C	C	54899528	5	2	89	1	0	0	0	0	0	0	1	0	15692	1449	50	3	401	3	TCEA1	8	54899528	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1303329	54899528	91464494	3370	57201											
RP1	6101	broad.mit.edu	37	chr8	55539553	55539553	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaatgatcataatactaaAagtcatatagctgctgaaaa	19	12	5	5	0	2	2	2	2	0	0	2	2	2	2	0	0	3	2	0	0	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:55539553A>C	uc003xsd.1	+	4	3259	c.3111A>C	c.(3109-3111)AAA>AAC	p.K1037N	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1037					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			ATAATACTAAAAGTCATATAG	0.388													70	132					0	0	1	0	0		C	55539553	C	C	55539553	3	2	89	1	0	0	0	0	1	0	0	0	13557	11	1	5	3121	5	RP1	8	55539553	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	640025	55539553	90824469	3371	57202											
RP1	6101	broad.mit.edu	37	chr8	55540960	55540960	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctagtaaaactttagaattGatagacatctctagtaagaa	17	12	7	5	0	1	4	0	1	1	3	2	4	1	4	0	0	1	3	0	0	9	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:55540960G>A	uc003xsd.1	+	4	4666	c.4518G>A	c.(4516-4518)TTG>TTA	p.L1506L	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1506					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CTTTAGAATTGATAGACATCT	0.343													8	76					0	0	1	0	0		A	55540960	A	A	55540960	2	1	89	1	0	0	0	0	0	0	0	1	13557	1281	45	4		4	RP1	8	55540960	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1407	55540960	90823062	3372	57203											
RP1	6101	broad.mit.edu	37	chr8	55542456	55542456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgacttgatgggtaaaagaaGaaaacaaaaaagaattaact	22	8	8	3	0	0	5	0	2	0	3	0	5	0	5	0	1	2	1	0	1	10	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:55542456G>A	uc003xsd.1	+	4	6162	c.6014G>A	c.(6013-6015)AGA>AAA	p.R2005K	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	2005					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GGTAAAAGAAGAAAACAAAAA	0.294													26	44					0	0	1	0	0		A	55542456	A	A	55542456	3	1	89	1	0	0	0	0	1	0	0	0	13557	942	33	4	6024	4	RP1	8	55542456	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1496	55542456	90821566	3373	57204											
CYP7A1	1581	broad.mit.edu	37	chr8	59409434	59409434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagggctggaaagactttgtCgaattgcttgaagttgtcaa	11	12	12	6	1	1	2	1	1	0	1	2	4	1	3	0	2	1	3	0	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:59409434C>T	uc003xtm.3	-	3	700	c.637G>A	c.(637-639)GAC>AAC	p.D213N		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	213					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				AAGACTTTGTCGAATTGCTTG	0.478									Neonatal_Giant_Cell_Hepatitis				39	73					0	0	1	0	0		T	59409434	T	T	59409434	3	4	89	1	0	0	0	0	1	0	0	0	4199	884	31	1	893	1	CYP7A1	8	59409434	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3866978	59409434	86954588	3374	57205											
SDCBP	6386	broad.mit.edu	37	chr8	59488523	59488523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtaactggtaatgatgttgGaattcgtagagcagaaatta	14	13	11	3	1	0	3	0	1	0	2	1	4	0	4	0	2	2	5	0	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:59488523G>A	uc003xtn.2	+	5	455	c.305G>A	c.(304-306)GGA>GAA	p.G102E	SDCBP_uc003xto.2_Missense_Mutation_p.G101E|SDCBP_uc003xtr.2_Missense_Mutation_p.G101E|SDCBP_uc003xtp.2_Missense_Mutation_p.G96E|SDCBP_uc003xtq.2_Missense_Mutation_p.G102E|SDCBP_uc003xts.2_Missense_Mutation_p.G108E|SDCBP_uc011led.1_Intron	NM_005625	NP_005616	O00560	SDCB1_HUMAN	syntenin isoform 1	102					actin cytoskeleton organization|axon guidance|positive regulation of phosphorylation|protein targeting to membrane|substrate-dependent cell migration, cell extension|synaptic transmission	cytoskeleton|cytosol|endoplasmic reticulum membrane|focal adhesion|interleukin-5 receptor complex|melanosome|nucleus	cytoskeletal adaptor activity|frizzled binding|interleukin-5 receptor binding|protein heterodimerization activity|protein N-terminus binding|syndecan binding				0		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				AATGATGTTGGAATTCGTAGA	0.363													50	96					0	0	1	0	0		A	59488523	A	A	59488523	3	1	89	1	0	0	0	0	1	0	0	0	13980	1174	41	4	319	4	SDCBP	8	59488523	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	79089	59488523	86875499	3375	57206											
CA8	767	broad.mit.edu	37	chr8	61121466	61121466	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacatgtgtcctcagccttcGaaattcttctatctgaaaat	12	14	5	10	1	4	1	1	1	3	0	6	2	5	1	2	0	2	0	2	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:61121466G>A	uc003xtz.1	-	8	999	c.751C>T	c.(751-753)CGA>TGA	p.R251*	CA8_uc003xua.1_Nonsense_Mutation_p.R251*	NM_004056	NP_004047	P35219	CAH8_HUMAN	carbonic anhydrase VIII	251					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0		all_cancers(86;0.172)|all_epithelial(80;0.0383)|all_lung(136;0.0413)|Lung NSC(129;0.0474)				CTCAGCCTTCGAAATTCTTCT	0.388													18	47					0	0	1	0	0		A	61121466	A	A	61121466	4	1	89	1	0	0	0	0	0	1	0	0	2526	1066	37	1	125	1	CA8	8	61121466	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1632943	61121466	85242556	3376	57207											
CHD7	55636	broad.mit.edu	37	chr8	61693639	61693639	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgaatgctcagctagtgaaGagtgatgattacctgccatc	11	10	10	10	1	1	4	1	3	0	1	2	5	1	4	3	0	4	2	3	0	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:61693639G>A	uc003xue.2	+	3	2223	c.1746G>A	c.(1744-1746)AAG>AAA	p.K582K		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	582					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity	p.556_871dup(1)		ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			AGCTAGTGAAGAGTGATGATT	0.448													5	11					0	0	1	0	0		A	61693639	A	A	61693639	2	1	89	1	0	0	0	0	0	0	0	1	3333	933	33	4		4	CHD7	8	61693639	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	572173	61693639	84670383	3377	57208											
CHD7	55636	broad.mit.edu	37	chr8	61769092	61769092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgaaagagctgccaagaggcGaaatctcatggagatggttg	13	7	14	7	2	1	3	1	0	1	3	2	6	1	3	1	3	2	2	1	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:61769092G>A	uc003xue.2	+	34	7730	c.7253G>A	c.(7252-7254)CGA>CAA	p.R2418Q		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2418	Potential.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GCCAAGAGGCGAAATCTCATG	0.483													13	29					0	0	1	0	0		A	61769092	A	A	61769092	3	1	89	1	0	0	0	0	1	0	0	0	3333	1058	37	1	7383	1	CHD7	8	61769092	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	75453	61769092	84594930	3378	57209											
ASPH	444	broad.mit.edu	37	chr8	62563669	62563669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgttcttttgcttcatcttCgatattctggggttctaaaa	7	20	7	7	1	5	0	1	0	4	0	6	1	5	0	0	2	1	3	0	2	3	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:62563669C>T	uc003xuj.2	-	5	699	c.430G>A	c.(430-432)GAA>AAA	p.E144K	ASPH_uc011leg.1_Missense_Mutation_p.E115K|ASPH_uc003xuo.2_Missense_Mutation_p.E144K|ASPH_uc011leh.1_Missense_Mutation_p.E130K|ASPH_uc003xul.2_Missense_Mutation_p.E130K|ASPH_uc011lei.1_Missense_Mutation_p.E130K|ASPH_uc011lej.1_Missense_Mutation_p.E130K|ASPH_uc003xun.2_Missense_Mutation_p.E144K|ASPH_uc011lek.1_Missense_Mutation_p.E144K|ASPH_uc003xum.2_Missense_Mutation_p.E144K	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	144	Glu-rich.|Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	GCTTCATCTTCGATATTCTGG	0.348													27	45					0	0	1	0	0		T	62563669	T	T	62563669	3	4	89	1	0	0	0	0	1	0	0	0	1054	893	31	1	1942	1	ASPH	8	62563669	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	794577	62563669	83800353	3379	57210											
ARMC1	55156	broad.mit.edu	37	chr8	66539626	66539626	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcatggtggaagtggaaGaattcatcttctatgccatg	11	12	10	8	0	4	1	2	0	2	1	4	3	4	3	1	3	1	0	1	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:66539626G>T	uc003xvl.2	-	2	243	c.8C>A	c.(7-9)TCT>TAT	p.S3Y	ARMC1_uc011leo.1_5'UTR	NM_018120	NP_060590	Q9NVT9	ARMC1_HUMAN	armadillo repeat-containing protein	3					metal ion transport		metal ion binding			skin(1)	1			Epithelial(68;0.103)|OV - Ovarian serous cystadenocarcinoma(28;0.235)			GGAAGTGGAAGAATTCATCTT	0.418													34	66					1.22384e-17	1.42067e-17	1	1	0		T	66539626	T	T	66539626	3	4	89	1	0	0	0	0	1	0	0	0	950	942	33	5	864	5	ARMC1	8	66539626	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3975957	66539626	79824396	3380	57211											
TRIM55	84675	broad.mit.edu	37	chr8	67047359	67047359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaaagactgccaggtggCtcccctcactcatgtgttcc	9	9	8	15	0	2	1	2	0	0	1	4	1	4	1	4	2	1	2	4	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:67047359C>T	uc003xvv.2	+	3	702	c.476C>T	c.(475-477)GCT>GTT	p.A159V	TRIM55_uc003xvu.2_Missense_Mutation_p.A159V|TRIM55_uc003xvw.2_Missense_Mutation_p.A159V|TRIM55_uc003xvx.2_Missense_Mutation_p.A159V	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	159						cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			TGCCAGGTGGCTCCCCTCACT	0.572													40	83					0	0	1	0	0		T	67047359	T	T	67047359	3	4	89	1	0	0	0	0	1	0	0	0	16555	797	28	2	486	2	TRIM55	8	67047359	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	507733	67047359	79316663	3381	57212											
RRS1	23212	broad.mit.edu	37	chr8	67341435	67341435	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcagagaagttgcaacgCatcacggtgcacaaggagct	13	5	14	9	2	1	1	1	0	0	1	1	4	1	2	0	3	4	6	0	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:67341435C>T	uc003xwa.2	+	1	173	c.69C>T	c.(67-69)CGC>CGT	p.R23R		NM_015169	NP_055984	Q15050	RRS1_HUMAN	homolog of yeast ribosome biogenesis regulatory	23					mitotic metaphase plate congression|ribosome biogenesis	condensed nuclear chromosome|nucleolus					0		Lung NSC(129;0.197)	Epithelial(68;0.0391)|all cancers(69;0.0898)|BRCA - Breast invasive adenocarcinoma(89;0.111)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			AGTTGCAACGCATCACGGTGC	0.677											OREG0018806	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	20					0	0	1	0	0		T	67341435	T	T	67341435	2	4	89	1	0	0	0	0	0	0	0	1	13717	697	25	2		2	RRS1	8	67341435	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	294076	67341435	79022587	3382	57213											
VCPIP1	80124	broad.mit.edu	37	chr8	67578876	67578876	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttcttgggtgcccccgtAaccccgagcagcgcgttccg	4	10	11	16	5	2	0	0	0	2	0	3	1	3	0	5	1	4	3	5	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:67578876A>G	uc003xwn.2	-	1	577	c.318T>C	c.(316-318)GTT>GTC	p.V106V	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	106					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			GTGCCCCCGTAACCCCGAGCA	0.587													5	54					0	0	1	0	0		G	67578876	G	G	67578876	2	3	89	1	0	0	0	0	0	0	0	1	17167	349	13	3		3	VCPIP1	8	67578876	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	237441	67578876	78785146	3383	57214											
C8orf44	56260	broad.mit.edu	37	chr8	67591956	67591956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttttgttctcattttgtagGtattagaattatttctgaat	9	22	7	3	0	2	2	1	1	2	1	3	2	2	2	0	1	0	4	0	1	6	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:67591956G>A	uc003xwo.1	+	3	400	c.247G>A	c.(247-249)GTA>ATA	p.V83I	SGK3_uc003xwp.2_5'UTR|C8orf44_uc003xwq.1_Missense_Mutation_p.V83I	NM_019607	NP_062553	Q96CB5	CH044_HUMAN	hypothetical protein LOC56260	83											0	Breast(64;0.186)		Epithelial(68;0.000959)|OV - Ovarian serous cystadenocarcinoma(28;0.00318)|all cancers(69;0.00363)|BRCA - Breast invasive adenocarcinoma(89;0.149)			CATTTTGTAGGTATTAGAATT	0.403													20	37					0	0	1	0	0		A	67591956	A	A	67591956	3	1	89	1	0	0	0	0	1	0	0	0	2432	1275	44	4	253	4	C8orf44	8	67591956	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13080	67591956	78772066	3384	57215											
COPS5	10987	broad.mit.edu	37	chr8	67974198	67974198	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgttggccagttcccaggTtttctgggccataccgctcc	4	13	11	13	1	1	0	0	0	1	0	3	0	3	0	5	3	1	5	5	3	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:67974198T>C	uc003xxe.2	-	1	365	c.34A>G	c.(34-36)ACC>GCC	p.T12A	CSPP1_uc003xxg.1_5'Flank|CSPP1_uc003xxh.1_5'Flank|CSPP1_uc003xxi.2_5'Flank|CSPP1_uc003xxj.2_5'Flank|COPS5_uc003xxd.2_5'UTR|COPS5_uc003xxf.2_Silent_p.K40K|COPS5_uc010lyv.1_Missense_Mutation_p.T12A	NM_006837	NP_006828	Q92905	CSN5_HUMAN	COP9 signalosome subunit 5	12					cullin deneddylation|transcription from RNA polymerase II promoter	eukaryotic translation initiation factor 3 complex|signalosome	metal ion binding|metallopeptidase activity|protein binding|transcription coactivator activity|translation initiation factor activity			ovary(1)|skin(1)	2	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00389)|OV - Ovarian serous cystadenocarcinoma(28;0.00691)|all cancers(69;0.0205)|BRCA - Breast invasive adenocarcinoma(89;0.153)			AGTTCCCAGGTTTTCTGGGCC	0.542													34	61					0	0	1	0	0		C	67974198	C	C	67974198	3	2	89	1	0	0	0	0	1	0	0	0	3739	1725	60	3	1002	3	COPS5	8	67974198	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	382242	67974198	78389824	3385	57216											
CSPP1	79848	broad.mit.edu	37	chr8	68007713	68007713	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccgacaactagatgatgaAatcgaattaaggaatagaag	19	8	9	5	2	0	4	0	2	0	2	1	7	0	5	1	1	2	0	1	1	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:68007713A>C	uc003xxi.2	+	8	832	c.801A>C	c.(799-801)GAA>GAC	p.E267D	CSPP1_uc003xxg.1_Missense_Mutation_p.E259D|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Missense_Mutation_p.E232D|CSPP1_uc003xxk.2_5'UTR	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	267	Potential.					centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			TAGATGATGAAATCGAATTAA	0.393													40	51					0	0	1	0	0		C	68007713	C	C	68007713	3	2	89	1	0	0	0	0	1	0	0	0	3965	11	1	5	831	5	CSPP1	8	68007713	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	33515	68007713	78356309	3386	57217											
CSPP1	79848	broad.mit.edu	37	chr8	68030586	68030586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgggtccaggaatactttcGatcccagtcttgcttattgt	8	15	9	9	1	1	0	0	0	1	0	4	2	3	1	2	2	2	1	2	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:68030586G>A	uc003xxi.2	+	14	1721	c.1690G>A	c.(1690-1692)GAT>AAT	p.D564N	CSPP1_uc003xxg.1_Missense_Mutation_p.D556N|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Missense_Mutation_p.D529N|CSPP1_uc003xxk.2_Missense_Mutation_p.D235N	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	564						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			GAATACTTTCGATCCCAGTCT	0.393													49	99					0	0	1	0	0		A	68030586	A	A	68030586	3	1	89	1	0	0	0	0	1	0	0	0	3965	1058	37	1	1744	1	CSPP1	8	68030586	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	22873	68030586	78333436	3387	57218											
ARFGEF1	10565	broad.mit.edu	37	chr8	68130137	68130137	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaaacagtttgtaccagatCgcgctaactgctcattgtct	10	13	7	11	2	2	1	1	0	1	1	3	1	2	1	1	0	4	4	1	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:68130137C>T	uc003xxo.1	-	32	4883	c.4493G>A	c.(4492-4494)CGA>CAA	p.R1498Q	ARFGEF1_uc003xxl.1_Missense_Mutation_p.R952Q|ARFGEF1_uc003xxn.1_Missense_Mutation_p.R481Q	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	1498					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			TGTACCAGATCGCGCTAACTG	0.368													32	58					0	0	1	0	0		T	68130137	T	T	68130137	3	4	89	1	0	0	0	0	1	0	0	0	852	884	31	1	1088	1	ARFGEF1	8	68130137	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	99551	68130137	78233885	3388	57219											
ARFGEF1	10565	broad.mit.edu	37	chr8	68208748	68208748	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtctgattgatgagatttTtgcttgctaagtagatattg	9	19	10	3	0	1	4	0	3	1	2	1	5	1	4	0	0	2	3	0	0	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:68208748T>G	uc003xxo.1	-	5	947	c.557A>C	c.(556-558)AAA>ACA	p.K186T		NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	186					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GATGAGATTTTTGCTTGCTAA	0.373													34	50					0	0	1	0	0		G	68208748	G	G	68208748	3	3	89	1	0	0	0	0	1	0	0	0	852	1841	64	5	5132	5	ARFGEF1	8	68208748	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	78611	68208748	78155274	3389	57220											
PREX2	80243	broad.mit.edu	37	chr8	68992692	68992692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtagtccttgaaaaaagcGaattcaaagatgaaccccta	16	9	7	9	1	1	3	1	2	0	1	2	4	2	3	3	0	2	1	3	0	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:68992692G>A	uc003xxv.1	+	16	1684	c.1657G>A	c.(1657-1659)GAA>AAA	p.E553K	PREX2_uc003xxu.1_Missense_Mutation_p.E553K|PREX2_uc011lez.1_Missense_Mutation_p.E488K	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	553	DEP 2.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TGAAAAAAGCGAATTCAAAGA	0.323													26	50					0	0	1	0	0		A	68992692	A	A	68992692	3	1	89	1	0	0	0	0	1	0	0	0	12499	1059	37	1	1719	1	PREX2	8	68992692	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	783944	68992692	77371330	3390	57221											
PREX2	80243	broad.mit.edu	37	chr8	69136820	69136820	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttcagaacacagcgaaGaatttgggagtcagagaccg	15	6	13	7	2	2	4	2	0	0	4	2	7	2	5	1	1	2	1	1	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:69136820G>T	uc003xxv.1	+	39	4761	c.4734G>T	c.(4732-4734)AAG>AAT	p.K1578N		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1578					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ACACAGCGAAGAATTTGGGAG	0.463													22	50					6.44725e-10	6.96688e-10	1	1	0		T	69136820	T	T	69136820	3	4	89	1	0	0	0	0	1	0	0	0	12499	933	33	5	5117	5	PREX2	8	69136820	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	144128	69136820	77227202	3391	57222											
C8orf34	116328	broad.mit.edu	37	chr8	69633596	69633596	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttaaaaataaaaatagAttccttgcctgggactgaag	15	14	7	5	0	0	2	0	1	0	1	1	3	1	3	2	1	1	0	2	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:69633596A>G	uc010lyz.2	+	10	1119	c.1070A>G	c.(1069-1071)GAT>GGT	p.D357G	C8orf34_uc003xyb.2_Missense_Mutation_p.D332G	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	357					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			ataaaaataGATTCCTTGCCT	0.299													15	29					0	0	1	0	0		G	69633596	G	G	69633596	3	3	89	1	0	0	0	0	1	0	0	0	2425	347	12	3	1029	3	C8orf34	8	69633596	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	496776	69633596	76730426	3392	57223											
SLCO5A1	81796	broad.mit.edu	37	chr8	70585235	70585235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttgcaggccagtctcttCgtggaattctccctgggtgc	4	15	11	11	1	2	0	0	0	2	0	5	1	2	1	2	3	2	1	2	3	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:70585235C>T	uc003xyl.2	-	10	3123	c.2416G>A	c.(2416-2418)GAA>AAA	p.E806K	SLCO5A1_uc010lzb.2_Missense_Mutation_p.E751K|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_3'UTR	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	806	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			CCAGTCTCTTCGTGGAATTCT	0.587													31	60					0	0	1	0	0		T	70585235	T	T	70585235	3	4	89	1	0	0	0	0	1	0	0	0	14756	893	31	1	134	1	SLCO5A1	8	70585235	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	951639	70585235	75778787	3393	57224											
NCOA2	10499	broad.mit.edu	37	chr8	71033568	71033568	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctcctgcttaatcataTccattccaggcagctggttt	7	14	6	14	0	1	0	1	0	0	0	5	0	5	0	4	2	2	4	4	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:71033568T>C	uc003xyn.1	-	22	4514	c.4352A>G	c.(4351-4353)GAT>GGT	p.D1451G	NCOA2_uc011lfb.1_Missense_Mutation_p.D539G	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	1451					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			CTTAATCATATCCATTCCAGG	0.433			T	RUNXBP2	AML								6	16					0	0	1	0	0		C	71033568	C	C	71033568	3	2	89	1	0	0	0	0	1	0	0	0	10248	1435	50	3	50	3	NCOA2	8	71033568	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	448333	71033568	75330454	3394	57225											
NCOA2	10499	broad.mit.edu	37	chr8	71068536	71068536	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaagagtctgtgcaaaatTttatgcttctccttgagcga	10	14	9	8	1	2	2	0	1	2	1	3	3	2	2	1	0	4	3	1	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:71068536T>G	uc003xyn.1	-	11	2226	c.2064A>C	c.(2062-2064)AAA>AAC	p.K688N		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	688					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TGTGCAAAATTTTATGCTTCT	0.522			T	RUNXBP2	AML								7	85					0	0	1	0	0		G	71068536	G	G	71068536	3	3	89	1	0	0	0	0	1	0	0	0	10248	1838	64	5	2382	5	NCOA2	8	71068536	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	34968	71068536	75295486	3395	57226											
NCOA2	10499	broad.mit.edu	37	chr8	71075749	71075749	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgatgagggaagaactggTctttccttcatgggaactct	9	13	11	8	0	4	3	1	2	3	1	5	5	5	5	1	3	2	0	1	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:71075749T>G	uc003xyn.1	-	8	945	c.783A>C	c.(781-783)AGA>AGC	p.R261S		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	261					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			GAAGAACTGGTCTTTCCTTCA	0.388			T	RUNXBP2	AML								17	36					0	0	1	0	0		G	71075749	G	G	71075749	3	3	89	1	0	0	0	0	1	0	0	0	10248	1664	58	5	3675	5	NCOA2	8	71075749	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	7213	71075749	75288273	3396	57227											
NCOA2	10499	broad.mit.edu	37	chr8	71082507	71082507	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaagatgctatatacactTttgttcatcagctcttcttg	9	17	6	9	0	4	1	2	0	2	1	4	1	4	1	0	0	4	4	0	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:71082507T>G	uc003xyn.1	-	6	633	c.471A>C	c.(469-471)AAA>AAC	p.K157N		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	157	PAS.				cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TATATACACTTTTGTTCATCA	0.438			T	RUNXBP2	AML								4	20					0	0	1	0	0		G	71082507	G	G	71082507	3	3	89	1	0	0	0	0	1	0	0	0	10248	1838	64	5	3995	5	NCOA2	8	71082507	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6758	71082507	75281515	3397	57228											
NCOA2	10499	broad.mit.edu	37	chr8	71126174	71126174	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaatttgcttcacagtttCttttaagattgcacatttgt	10	18	6	7	1	2	1	1	0	1	1	2	2	2	1	0	0	2	3	0	0	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:71126174C>A	uc003xyn.1	-	4	385	c.223G>T	c.(223-225)GAA>TAA	p.E75*		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	75	Basic motif.				cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TTCACAGTTTCTTTTAAGATT	0.313			T	RUNXBP2	AML								3	9					0.115264	0.115603	1	1	0		A	71126174	A	A	71126174	4	1	89	1	0	0	0	0	0	1	0	0	10248	922	32	5	4251	5	NCOA2	8	71126174	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	43667	71126174	75237848	3398	57229											
TRAM1	23471	broad.mit.edu	37	chr8	71495976	71495976	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaacagtcagtactgaaaGaattaaagtcagaagtcttc	17	9	7	8	0	3	3	2	1	1	2	4	3	3	3	1	0	2	1	1	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:71495976G>T	uc003xyo.1	-	9	969	c.799C>A	c.(799-801)CTT>ATT	p.L267I	TRAM1_uc011lfc.1_Missense_Mutation_p.L236I	NM_014294	NP_055109	Q15629	TRAM1_HUMAN	translocation associated membrane protein 1	267	Helical; (Potential).|TLC.				cotranslational protein targeting to membrane|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity			ovary(1)	1			Epithelial(68;0.00679)|all cancers(69;0.0324)|OV - Ovarian serous cystadenocarcinoma(28;0.0509)			AGTACTGAAAGAATTAAAGTC	0.388													54	87					2.01807e-28	2.45391e-28	1	1	0		T	71495976	T	T	71495976	3	4	89	1	0	0	0	0	1	0	0	0	16477	942	33	5	337	5	TRAM1	8	71495976	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	369802	71495976	74868046	3399	57230											
LACTB2	51110	broad.mit.edu	37	chr8	71553193	71553193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatttctcaaagttctcacGaaataatgtaagaatttgct	14	15	6	6	1	2	2	2	1	2	1	4	3	2	2	0	0	1	3	0	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:71553193G>A	uc011lfd.1	-	5	777	c.685C>T	c.(685-687)CGT>TGT	p.R229C	LACTB2_uc003xyp.2_Missense_Mutation_p.R229C	NM_016027	NP_057111	Q53H82	LACB2_HUMAN	lactamase, beta 2	229							hydrolase activity|metal ion binding			ovary(1)	1	Breast(64;0.0716)		Epithelial(68;0.00319)|all cancers(69;0.0175)|OV - Ovarian serous cystadenocarcinoma(28;0.0628)|BRCA - Breast invasive adenocarcinoma(89;0.166)			AAGTTCTCACGAAATAATGTA	0.294													19	27					0	0	1	0	0		A	71553193	A	A	71553193	3	1	89	1	0	0	0	0	1	0	0	0	8614	1058	37	1	193	1	LACTB2	8	71553193	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	57217	71553193	74810829	3400	57231											
EYA1	2138	broad.mit.edu	37	chr8	72246342	72246342	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattccttacctgaacctgaGaaattgtttaaagacccgtc	12	13	6	10	1	0	3	0	2	0	2	2	4	1	3	4	0	2	1	4	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:72246342G>T	uc003xys.3	-	3	479	c.192C>A	c.(190-192)TTC>TTA	p.F64L	EYA1_uc003xyr.3_Missense_Mutation_p.F64L|EYA1_uc003xyt.3_Missense_Mutation_p.F31L|EYA1_uc010lzf.2_5'UTR|EYA1_uc003xyu.2_Missense_Mutation_p.F64L|EYA1_uc011lfe.1_Missense_Mutation_p.F64L|EYA1_uc003xyv.2_5'UTR	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	64					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			CTGAACCTGAGAAATTGTTTA	0.323													28	51					3.69857e-22	4.4058e-22	1	1	0		T	72246342	T	T	72246342	3	4	89	1	0	0	0	0	1	0	0	0	5336	933	33	5	1646	5	EYA1	8	72246342	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	693149	72246342	74117680	3401	57232											
MSC	9242	broad.mit.edu	37	chr8	72756409	72756409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gatcactcaccgagcccgtgGacatcccgttgtcccccttg	6	9	9	17	3	2	0	2	0	0	0	4	3	4	1	5	1	1	1	5	1	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:72756409G>A	uc003xyx.1	-	1	323	c.5C>T	c.(4-6)TCC>TTC	p.S2F	uc011lff.1_Intron|uc003xyy.2_RNA	NM_005098	NP_005089	O60682	MUSC_HUMAN	musculin	2					transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Breast(64;0.176)		Epithelial(68;0.137)|BRCA - Breast invasive adenocarcinoma(89;0.203)			CGAGCCCGTGGACATCCCGTT	0.706													21	33					0	0	1	0	0		A	72756409	A	A	72756409	3	1	89	1	0	0	0	0	1	0	0	0	9886	1174	41	4	623	4	MSC	8	72756409	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	510067	72756409	73607613	3402	57233											
TRPA1	8989	broad.mit.edu	37	chr8	72973946	72973946	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatcatcagtttaacaatCtcagtggctccctgggtggc	9	12	10	10	0	3	0	3	0	1	0	5	1	4	0	1	3	1	2	1	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:72973946C>A	uc003xza.2	-	7	1033	c.858G>T	c.(856-858)GAG>GAT	p.E286D		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	286	Cytoplasmic (Potential).|ANK 7.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GTTTAACAATCTCAGTGGCTC	0.423													25	71					5.61819e-17	6.48411e-17	1	1	0		A	72973946	A	A	72973946	3	1	89	1	0	0	0	0	1	0	0	0	16603	912	32	5	2585	5	TRPA1	8	72973946	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	217537	72973946	73390076	3403	57234											
TRPA1	8989	broad.mit.edu	37	chr8	72983961	72983961	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaccttccaaagaggaatCtctggtgatcttctccatta	10	14	7	10	0	3	2	0	1	3	1	6	3	4	3	3	2	1	1	3	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:72983961C>A	uc003xza.2	-	2	428	c.253G>T	c.(253-255)GAT>TAT	p.D85Y		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	85	Cytoplasmic (Potential).|ANK 1.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AAAGAGGAATCTCTGGTGATC	0.353													19	41					9.7654e-05	0.000100048	1	1	0		A	72983961	A	A	72983961	3	1	89	1	0	0	0	0	1	0	0	0	16603	913	32	5	3210	5	TRPA1	8	72983961	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10015	72983961	73380061	3404	57235											
LY96	23643	broad.mit.edu	37	chr8	74922307	74922307	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatcttccaaagcgcaaaGaagttatttgccgaggatct	13	11	9	8	2	2	2	0	1	2	1	3	4	3	3	2	1	2	2	2	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:74922307G>T	uc003yad.2	+	3	365	c.274G>T	c.(274-276)GAA>TAA	p.E92*		NM_015364	NP_056179	Q9Y6Y9	LY96_HUMAN	MD-2 protein precursor	92					cellular defense response|detection of lipopolysaccharide|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	extracellular space|lipopolysaccharide receptor complex|plasma membrane	coreceptor activity|lipopolysaccharide receptor activity|protein binding				0	Breast(64;0.0311)		Epithelial(68;0.0208)|BRCA - Breast invasive adenocarcinoma(89;0.0499)|all cancers(69;0.0619)			AAAGCGCAAAGAAGTTATTTG	0.343													30	63					3.99451e-17	4.61668e-17	1	1	0		T	74922307	T	T	74922307	4	4	89	1	0	0	0	0	0	1	0	0	9120	943	33	5	284	5	LY96	8	74922307	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1938346	74922307	71441715	3405	57236											
JPH1	56704	broad.mit.edu	37	chr8	75233263	75233263	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgccccttgaaaccatgtGaccactccccccggtacatc	9	7	7	18	2	0	2	0	2	0	0	2	2	1	2	7	1	3	1	7	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:75233263G>T	uc003yae.2	-	1	300	c.260C>A	c.(259-261)TCA>TAA	p.S87*	JPH1_uc003yaf.2_Nonsense_Mutation_p.S87*|JPH1_uc003yag.1_Intron	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	87	Gly-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			GAAACCATGTGACCACTCCCC	0.677													17	45					1.15088e-07	1.20949e-07	1	1	0		T	75233263	T	T	75233263	4	4	89	1	0	0	0	0	0	1	0	0	7976	1294	45	5	1745	5	JPH1	8	75233263	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	310956	75233263	71130759	3406	57237											
ZFHX4	79776	broad.mit.edu	37	chr8	77617005	77617005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgtgttgcacagtttcCgtgtctatgatctccgacac	6	14	9	12	2	2	1	0	1	2	0	5	2	4	1	3	0	1	3	3	0	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:77617005C>T	uc003yav.2	+	2	1069	c.682C>T	c.(682-684)CGT>TGT	p.R228C	ZFHX4_uc003yat.1_Missense_Mutation_p.R228C|ZFHX4_uc003yau.1_Missense_Mutation_p.R228C|ZFHX4_uc003yaw.1_Missense_Mutation_p.R228C	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	228						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GCACAGTTTCCGTGTCTATGA	0.463										HNSCC(33;0.089)			15	41					0	0	1	0	0		T	77617005	T	T	77617005	3	4	89	1	0	0	0	0	1	0	0	0	17660	652	23	1	684	1	ZFHX4	8	77617005	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2383742	77617005	68747017	3407	57238											
ZFHX4	79776	broad.mit.edu	37	chr8	77617895	77617895	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaaaagggtacctcgtcCtcctcggcgactgtttctga	8	12	10	11	3	1	2	0	2	1	0	5	3	3	2	3	2	1	2	3	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:77617895C>A	uc003yav.2	+	2	1959	c.1572C>A	c.(1570-1572)TCC>TCA	p.S524S	ZFHX4_uc003yat.1_Silent_p.S524S|ZFHX4_uc003yau.1_Silent_p.S524S|ZFHX4_uc003yaw.1_Silent_p.S524S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	524	Poly-Ser.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GTACCTCGTCCTCCTCGGCGA	0.433										HNSCC(33;0.089)			13	32					1.49906e-05	1.54644e-05	1	1	0		A	77617895	A	A	77617895	2	1	89	1	0	0	0	0	0	0	0	1	17660	668	24	5		5	ZFHX4	8	77617895	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	890	77617895	68746127	3408	57239											
ZFHX4	79776	broad.mit.edu	37	chr8	77763421	77763421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcccagtatcatgcaattCgggctgcgacaatgtgtaac	11	11	9	10	2	1	0	1	0	0	0	3	1	2	0	1	1	3	4	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:77763421C>T	uc003yav.2	+	10	4516	c.4129C>T	c.(4129-4131)CGG>TGG	p.R1377W	ZFHX4_uc003yau.1_Missense_Mutation_p.R1422W|ZFHX4_uc003yaw.1_Missense_Mutation_p.R1377W	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1377						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCATGCAATTCGGGCTGCGAC	0.458										HNSCC(33;0.089)			13	25					0	0	1	0	0		T	77763421	T	T	77763421	3	4	89	1	0	0	0	0	1	0	0	0	17660	875	31	1	4298	1	ZFHX4	8	77763421	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	145526	77763421	68600601	3409	57240											
ZFHX4	79776	broad.mit.edu	37	chr8	77764977	77764977	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggcaaaagtggtgaaggCgaaaacactgacaaactaga	19	4	12	6	1	0	3	0	2	0	1	0	4	0	3	0	3	2	1	0	3	8	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:77764977C>T	uc003yav.2	+	10	6072	c.5685C>T	c.(5683-5685)GGC>GGT	p.G1895G	ZFHX4_uc003yau.1_Silent_p.G1940G|ZFHX4_uc003yaw.1_Silent_p.G1895G	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1895						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GTGGTGAAGGCGAAAACACTG	0.378										HNSCC(33;0.089)			19	48					0	0	1	0	0		T	77764977	T	T	77764977	2	4	89	1	0	0	0	0	0	0	0	1	17660	755	27	1		1	ZFHX4	8	77764977	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1556	77764977	68599045	3410	57241											
ZFHX4	79776	broad.mit.edu	37	chr8	77766413	77766413	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaagcagagtgacccctCtcccccttctcaaggcacca	10	6	7	18	0	2	2	1	1	2	1	4	2	2	2	6	1	1	2	6	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:77766413C>A	uc003yav.2	+	10	7508	c.7121C>A	c.(7120-7122)TCT>TAT	p.S2374Y	ZFHX4_uc003yau.1_Missense_Mutation_p.S2419Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.S2374Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2374	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AGTGACCCCTCTCCCCCTTCT	0.468										HNSCC(33;0.089)			9	18					5.4927e-09	5.87265e-09	1	1	0		A	77766413	A	A	77766413	3	1	89	1	0	0	0	0	1	0	0	0	17660	913	32	5	7290	5	ZFHX4	8	77766413	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1436	77766413	68597609	3411	57242											
FAM164A	51101	broad.mit.edu	37	chr8	79629691	79629691	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctgtagaatgggccaaatTttgctgtgaatgtggcattc	9	13	11	8	0	0	2	0	1	0	1	1	2	0	2	2	2	1	3	2	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:79629691T>C	uc003ybd.2	+	9	1043	c.941T>C	c.(940-942)TTT>TCT	p.F314S		NM_016010	NP_057094	Q96GY0	F164A_HUMAN	hypothetical protein LOC51101	314										ovary(1)	1						TGGGCCAAATTTTGCTGTGAA	0.368													45	124					0	0	1	0	0		C	79629691	C	C	79629691	3	2	89	1	0	0	0	0	1	0	0	0	5489	1841	64	3	975	3	FAM164A	8	79629691	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1863278	79629691	66734331	3412	57243											
STMN2	11075	broad.mit.edu	37	chr8	80567157	80567157	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagaagagggaacacgagCgagaagtccttcagaaggct	15	4	14	8	2	1	4	1	0	0	4	2	8	2	5	1	2	2	1	1	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:80567157C>T	uc003ybj.2	+	4	391	c.340C>T	c.(340-342)CGA>TGA	p.R114*	STMN2_uc010lzp.2_RNA|STMN2_uc011lfn.1_Intron	NM_007029	NP_008960	Q93045	STMN2_HUMAN	superiorcervical ganglia, neural specific 10	114	Potential.				intracellular signal transduction|negative regulation of microtubule depolymerization|negative regulation of microtubule polymerization|negative regulation of neuron projection development|neuron differentiation|positive regulation of microtubule depolymerization|positive regulation of neuron projection development	axon|growth cone|membrane|membrane fraction|perinuclear region of cytoplasm|soluble fraction	protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(9;8.34e-05)		Epithelial(68;0.0229)|all cancers(69;0.0874)			GGAACACGAGCGAGAAGTCCT	0.448													18	23					0	0	1	0	0		T	80567157	T	T	80567157	4	4	89	1	0	0	0	0	0	1	0	0	15334	760	27	1	354	1	STMN2	8	80567157	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	937466	80567157	65796865	3413	57244											
PAG1	55824	broad.mit.edu	37	chr8	81888912	81888912	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgttgagagtctgtatcGcttcataatcaggctctggc	7	14	10	10	1	5	1	2	1	3	1	6	2	5	1	0	2	0	4	0	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:81888912G>A	uc003ybz.2	-	9	1877	c.1166C>T	c.(1165-1167)GCG>GTG	p.A389V		NM_018440	NP_060910	Q9NWQ8	PAG1_HUMAN	phosphoprotein associated with glycosphingolipid	389	Cytoplasmic (Potential).				epidermal growth factor receptor signaling pathway|intracellular signal transduction|T cell receptor signaling pathway	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding|SH3/SH2 adaptor activity				0	Lung NSC(7;5.76e-06)|all_lung(9;2e-05)		BRCA - Breast invasive adenocarcinoma(6;0.0567)|Epithelial(68;0.0634)|all cancers(69;0.197)			AGTCTGTATCGCTTCATAATC	0.512													23	49					0	0	1	0	0		A	81888912	A	A	81888912	3	1	89	1	0	0	0	0	1	0	0	0	11407	1087	38	1	136	1	PAG1	8	81888912	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1321755	81888912	64475110	3414	57245											
ZFAND1	79752	broad.mit.edu	37	chr8	82615252	82615252	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaagcctggctagagaagcGgcaaagtctatggcctttcc	10	10	11	10	1	1	1	0	0	1	1	2	2	2	1	3	3	2	2	3	3	5	4	rs142017081	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:82615252G>A	uc003ycj.1	-	7	602	c.588C>T	c.(586-588)GCC>GCT	p.A196A	ZFAND1_uc010lzx.1_Silent_p.A189A|ZFAND1_uc003yck.1_Silent_p.A89A	NM_024699	NP_078975	Q8TCF1	ZFAN1_HUMAN	zinc finger, AN1-type domain 1	196							zinc ion binding			ovary(1)	1						CTAGAGAAGCGGCAAAGTCTA	0.343													7	16					0	0	1	0	0		A	82615252	A	A	82615252	2	1	89	1	0	0	0	0	0	0	0	1	17651	1103	39	1		1	ZFAND1	8	82615252	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	726340	82615252	63748770	3415	57246											
SNX16	64089	broad.mit.edu	37	chr8	82752105	82752105	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttctaactggcccttagaAgaatttgagcttgttgagac	10	14	9	8	0	2	4	0	2	2	3	2	5	2	4	1	1	2	2	1	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:82752105A>C	uc011lft.1	-	3	624	c.117T>G	c.(115-117)TCT>TCG	p.S39S	SNX16_uc003ycn.2_Silent_p.S39S|SNX16_uc003yco.2_Silent_p.S39S	NM_022133	NP_071416	P57768	SNX16_HUMAN	sorting nexin 16 isoform a	39					cell communication|early endosome to late endosome transport|endosome to lysosome transport|protein targeting to lysosome	early endosome membrane|extrinsic to endosome membrane|late endosome membrane|lysosome	identical protein binding|phosphatidylinositol binding			ovary(1)|pancreas(1)	2						GGCCCTTAGAAGAATTTGAGC	0.393													48	99					0	0	1	0	0		C	82752105	C	C	82752105	2	2	89	1	0	0	0	0	0	0	0	1	14912	59	3	5		5	SNX16	8	82752105	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	136853	82752105	63611917	3416	57247											
LRRCC1	85444	broad.mit.edu	37	chr8	86037034	86037034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcattctttacagttgtaatCgtaaaatgaaaccaccttac	14	14	4	9	1	2	1	1	1	1	0	3	1	2	1	2	0	3	3	2	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:86037034C>T	uc003ycw.2	+	8	1286	c.1132C>T	c.(1132-1134)CGT>TGT	p.R378C	LRRCC1_uc010lzz.1_RNA|LRRCC1_uc010maa.1_Missense_Mutation_p.R79C|LRRCC1_uc003ycx.2_Missense_Mutation_p.R285C|LRRCC1_uc003ycy.2_Missense_Mutation_p.R358C	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	378					cell division|mitosis	centriole|nucleus					0						CAGTTGTAATCGTAAAATGAA	0.289													28	75					0	0	1	0	0		T	86037034	T	T	86037034	3	4	89	1	0	0	0	0	1	0	0	0	9044	884	31	1	1162	1	LRRCC1	8	86037034	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3284929	86037034	60326988	3417	57248											
WWP1	11059	broad.mit.edu	37	chr8	87393047	87393047	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaaattacgaaaacagcaAaatccagtagttcttctaat	18	10	6	7	1	2	1	0	0	2	1	3	3	3	1	1	0	3	3	1	0	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:87393047A>C	uc003ydt.2	+	4	443	c.163A>C	c.(163-165)AAA>CAA	p.K55Q	WWP1_uc010mai.2_5'UTR	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	55	C2.				central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						GAAAACAGCAAAATCCAGTAG	0.348													22	40					0	0	1	0	0		C	87393047	C	C	87393047	3	2	89	1	0	0	0	0	1	0	0	0	17441	15	1	5	169	5	WWP1	8	87393047	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1356013	87393047	58970975	3418	57249											
WWP1	11059	broad.mit.edu	37	chr8	87410844	87410844	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttacatgaaaatggagaGccttcagcaaggacaactgc	14	7	10	10	0	1	2	1	1	0	1	1	4	1	3	2	2	5	1	2	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:87410844G>A	uc003ydt.2	+	7	796	c.516G>A	c.(514-516)GAG>GAA	p.E172E	WWP1_uc010mai.2_Missense_Mutation_p.S10N	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	172					central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						AAAATGGAGAGCCTTCAGCAA	0.328													31	70					0	0	1	0	0		A	87410844	A	A	87410844	2	1	89	1	0	0	0	0	0	0	0	1	17441	962	34	2		2	WWP1	8	87410844	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17797	87410844	58953178	3419	57250											
WWP1	11059	broad.mit.edu	37	chr8	87424021	87424021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagttctgcttttgaagcaGccaaatcaagacagccagat	13	10	9	9	0	2	3	1	1	1	2	2	3	2	3	2	0	4	4	2	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:87424021G>A	uc003ydt.2	+	9	1259	c.979G>A	c.(979-981)GCC>ACC	p.A327T	WWP1_uc010mai.2_Missense_Mutation_p.A103T	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	327					central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						TTTTGAAGCAGCCAAATCAAG	0.428													21	65					0	0	1	0	0		A	87424021	A	A	87424021	3	1	89	1	0	0	0	0	1	0	0	0	17441	971	34	2	1005	2	WWP1	8	87424021	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13177	87424021	58940001	3420	57251											
CPNE3	8895	broad.mit.edu	37	chr8	87541223	87541223	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaatccccaattttccaaGacatttattattgattacta	13	17	3	8	0	0	3	0	2	0	1	2	3	2	3	3	0	1	0	3	0	7	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:87541223G>T	uc003ydv.2	+	4	345	c.183G>T	c.(181-183)AAG>AAT	p.K61N		NM_003909	NP_003900	O75131	CPNE3_HUMAN	copine III	61	C2 1.				lipid metabolic process|vesicle-mediated transport	cytosol	calcium-dependent phospholipid binding|protein serine/threonine kinase activity|transporter activity			ovary(1)|skin(1)	2						AATTTTCCAAGACATTTATTA	0.363													26	76					4.47668e-21	5.30033e-21	1	1	0		T	87541223	T	T	87541223	3	4	89	1	0	0	0	0	1	0	0	0	3816	933	33	5	189	5	CPNE3	8	87541223	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	117202	87541223	58822799	3421	57252											
CNGB3	54714	broad.mit.edu	37	chr8	87641195	87641195	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcataccaagtccgaactcGcttttgcacaagtttaggaa	12	12	7	10	2	1	0	1	0	0	0	3	2	2	1	2	1	3	3	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:87641195G>A	uc003ydx.2	-	12	1478	c.1432C>T	c.(1432-1434)CGA>TGA	p.R478*	CNGB3_uc010maj.2_Nonsense_Mutation_p.R340*	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	478	Extracellular (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						GTCCGAACTCGCTTTTGCACA	0.428													66	130					0	0	1	0	0		A	87641195	A	A	87641195	4	1	89	1	0	0	0	0	0	1	0	0	3604	1095	38	1	1025	1	CNGB3	8	87641195	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	99972	87641195	58722827	3422	57253											
CNGB3	54714	broad.mit.edu	37	chr8	87656903	87656903	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtgatgattaaattcaaaAaatgaagtgtactatataga	19	12	8	2	0	1	4	1	3	0	1	1	4	1	4	0	1	1	1	0	1	10	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:87656903A>C	uc003ydx.2	-	9	1048	c.1002T>G	c.(1000-1002)TTT>TTG	p.F334L	CNGB3_uc010maj.2_Missense_Mutation_p.F196L	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	334	Extracellular (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						TAAATTCAAAAAATGAAGTGT	0.259													15	48					0	0	1	0	0		C	87656903	C	C	87656903	3	2	89	1	0	0	0	0	1	0	0	0	3604	11	1	5	1467	5	CNGB3	8	87656903	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	15708	87656903	58707119	3423	57254											
CNGB3	54714	broad.mit.edu	37	chr8	87679359	87679359	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagccacaggagatagagtcGatctggaaaaacagcaagtg	16	5	13	7	1	1	2	0	0	1	2	2	6	1	3	1	2	3	1	1	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:87679359G>A	uc003ydx.2	-	6	692	c.646C>T	c.(646-648)CGA>TGA	p.R216*	CNGB3_uc010maj.2_Nonsense_Mutation_p.R78*	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	216	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						AGATAGAGTCGATCTGGAAAA	0.453													11	33					0	0	1	0	0		A	87679359	A	A	87679359	4	1	89	1	0	0	0	0	0	1	0	0	3604	1066	37	1	1835	1	CNGB3	8	87679359	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	22456	87679359	58684663	3424	57255											
OSGIN2	734	broad.mit.edu	37	chr8	90937584	90937584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaatcctgtggaaatagatAcatatacctatgagtgtatt	14	14	8	5	0	0	2	0	1	0	1	1	3	1	3	2	1	2	2	2	1	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:90937584A>G	uc003yeg.2	+	6	1688	c.1342A>G	c.(1342-1344)ACA>GCA	p.T448A	OSGIN2_uc003yeh.2_Missense_Mutation_p.T492A	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	448					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			GGAAATAGATACATATACCTA	0.418													61	101					0	0	1	0	0		G	90937584	G	G	90937584	3	3	89	1	0	0	0	0	1	0	0	0	11309	391	14	3	1496	3	OSGIN2	8	90937584	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3258225	90937584	55426438	3425	57256											
CALB1	793	broad.mit.edu	37	chr8	91072475	91072475	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatccgacaaagccattaTgttcttcttgtatgttgtaa	10	16	6	9	1	2	0	0	0	2	0	4	1	4	0	3	0	1	4	3	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:91072475T>C	uc003yel.1	-	11	894	c.712A>G	c.(712-714)ATA>GTA	p.I238V	CALB1_uc011lge.1_Missense_Mutation_p.I181V	NM_004929	NP_004920	P05937	CALB1_HUMAN	calbindin 1	238						nucleus	calcium ion binding|vitamin D binding			pancreas(1)	1			BRCA - Breast invasive adenocarcinoma(11;0.00953)			AAAGCCATTATGTTCTTCTTG	0.398													73	120					0	0	1	0	0		C	91072475	C	C	91072475	3	2	89	1	0	0	0	0	1	0	0	0	2576	1464	51	3	77	3	CALB1	8	91072475	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	134891	91072475	55291547	3426	57257											
TMEM67	91147	broad.mit.edu	37	chr8	94807651	94807651	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgcagacagttgtgaaattCttggtgtactatgctggtga	9	15	12	5	0	1	3	0	2	1	1	1	3	1	3	0	2	3	4	0	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:94807651C>T	uc011lgk.1	+	17	1760	c.1689C>T	c.(1687-1689)TTC>TTT	p.F563F	TMEM67_uc010maw.2_Silent_p.F269F|TMEM67_uc003yga.3_Silent_p.F482F|TMEM67_uc011lgl.1_5'UTR	NM_153704	NP_714915	Q5HYA8	MKS3_HUMAN	meckelin isoform 1	563					cilium assembly|ER-associated protein catabolic process|negative regulation of centrosome duplication	centrosome|cilium membrane|cytoplasmic vesicle membrane|endoplasmic reticulum membrane|integral to membrane|microtubule basal body	unfolded protein binding			ovary(2)	2	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.00896)			TTGTGAAATTCTTGGTGTACT	0.353													47	88					0	0	1	0	0		T	94807651	T	T	94807651	2	4	89	1	0	0	0	0	0	0	0	1	16221	912	32	4		4	TMEM67	8	94807651	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3735176	94807651	51556371	3427	57258											
KIAA1429	25962	broad.mit.edu	37	chr8	95523529	95523529	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttcttttaacattaaagAccaagtattattggccagag	15	13	6	7	0	1	2	0	0	1	2	1	2	1	2	2	1	2	1	2	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:95523529A>G	uc003ygo.1	-	13	3287	c.3274T>C	c.(3274-3276)TCT>CCT	p.S1092P	KIAA1429_uc003ygp.2_Missense_Mutation_p.S1092P|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1092					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			AACATTAAAGACCAAGTATTA	0.353													17	23					0	0	1	0	0		G	95523529	G	G	95523529	3	3	89	1	0	0	0	0	1	0	0	0	8247	275	10	3	2266	3	KIAA1429	8	95523529	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	715878	95523529	50840493	3428	57259											
DPY19L4	286148	broad.mit.edu	37	chr8	95800258	95800258	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctgtagggttaaagattTattagacattgcaaatggcc	13	12	11	5	0	0	2	0	0	0	2	0	2	0	2	1	3	1	4	1	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:95800258T>G	uc003ygx.2	+	18	2109	c.1985T>G	c.(1984-1986)TTA>TGA	p.L662*		NM_181787	NP_861452	Q7Z388	D19L4_HUMAN	dpy-19-like 4	662						integral to membrane				ovary(2)	2	Breast(36;3.85e-06)					GTTAAAGATTTATTAGACATT	0.284													30	80					0	0	1	0	0		G	95800258	G	G	95800258	4	3	89	1	0	0	0	0	0	1	0	0	4749	1764	61	5	2055	5	DPY19L4	8	95800258	Nonsense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	276729	95800258	50563764	3429	57260											
GDF6	392255	broad.mit.edu	37	chr8	97172790	97172790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttgccttccttgcggcttCgcatgcccttggtggaaccc	3	13	10	15	2	1	0	0	0	1	0	3	1	2	1	4	3	4	2	4	3	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:97172790C>T	uc003yhp.2	-	1	231	c.131G>A	c.(130-132)CGA>CAA	p.R44Q		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	44					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					CTTGCGGCTTCGCATGCCCTT	0.657													37	78					0	0	1	0	0		T	97172790	T	T	97172790	3	4	89	1	0	0	0	0	1	0	0	0	6332	884	31	1	1244	1	GDF6	8	97172790	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1372532	97172790	49191232	3430	57261											
PTDSS1	9791	broad.mit.edu	37	chr8	97299345	97299345	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attggctagatccaaatcttCgatacgccacaagggaagca	14	8	9	10	2	1	1	0	0	1	1	3	3	2	2	2	2	2	2	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:97299345C>T	uc003yht.1	+	4	514	c.412C>T	c.(412-414)CGA>TGA	p.R138*	PTDSS1_uc003yhu.1_Intron	NM_014754	NP_055569	P48651	PTSS1_HUMAN	phosphatidylserine synthase 1	138					phosphatidylserine biosynthetic process	integral to membrane	transferase activity			ovary(1)	1	Breast(36;6.18e-05)				Phosphatidylserine(DB00144)	TCCAAATCTTCGATACGCCAC	0.443													72	127					0	0	1	0	0		T	97299345	T	T	97299345	4	4	89	1	0	0	0	0	0	1	0	0	12758	876	31	1	426	1	PTDSS1	8	97299345	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	126555	97299345	49064677	3431	57262											
PTDSS1	9791	broad.mit.edu	37	chr8	97345750	97345750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcttccaggagaaggaatCggcattccaagtcaaaagtc	14	9	9	9	1	2	1	1	0	1	1	6	3	4	2	2	3	0	1	2	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:97345750C>T	uc003yht.1	+	13	1480	c.1378C>T	c.(1378-1380)CGG>TGG	p.R460W	PTDSS1_uc003yhu.1_Missense_Mutation_p.R314W	NM_014754	NP_055569	P48651	PTSS1_HUMAN	phosphatidylserine synthase 1	460					phosphatidylserine biosynthetic process	integral to membrane	transferase activity			ovary(1)	1	Breast(36;6.18e-05)				Phosphatidylserine(DB00144)	GAGAAGGAATCGGCATTCCAA	0.488											OREG0018880	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	49	118					0	0	1	0	0		T	97345750	T	T	97345750	3	4	89	1	0	0	0	0	1	0	0	0	12758	875	31	1	1428	1	PTDSS1	8	97345750	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	46405	97345750	49018272	3432	57263											
POP1	10940	broad.mit.edu	37	chr8	99139972	99139972	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagggcacgtctcaggagAtccccaagtatataactggt	11	8	11	11	2	1	1	1	0	1	1	3	3	2	1	3	3	1	2	3	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:99139972A>C	uc003yij.3	+	3	392	c.292A>C	c.(292-294)ATC>CTC	p.I98L	POP1_uc011lgv.1_Missense_Mutation_p.I98L|POP1_uc003yik.2_Missense_Mutation_p.I98L	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	98					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			GTCTCAGGAGATCCCCAAGTA	0.483													30	53					0	0	1	0	0		C	99139972	C	C	99139972	3	2	89	1	0	0	0	0	1	0	0	0	12270	333	12	5	298	5	POP1	8	99139972	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1794222	99139972	47224050	3433	57264											
NIPAL2	79815	broad.mit.edu	37	chr8	99248398	99248398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaccgagtaagtctgaggCtctcaaattgtctttcagaa	11	13	8	9	1	4	2	2	1	3	1	5	3	4	2	1	1	1	2	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:99248398C>T	uc003yil.1	-	4	677	c.421G>A	c.(421-423)GCC>ACC	p.A141T	NIPAL2_uc011lgw.1_5'UTR|NIPAL2_uc003yim.1_Missense_Mutation_p.A141T	NM_024759	NP_079035	Q9H841	NPAL2_HUMAN	NIPA-like domain containing 2	141						integral to membrane					0						AAGTCTGAGGCTCTCAAATTG	0.303													17	50					0	0	1	0	0		T	99248398	T	T	99248398	3	4	89	1	0	0	0	0	1	0	0	0	10444	797	28	2	721	2	NIPAL2	8	99248398	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	108426	99248398	47115624	3434	57265											
VPS13B	157680	broad.mit.edu	37	chr8	100168882	100168882	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaacattcagtgccaatgTatgctgaacagttggtgcat	11	12	11	7	0	1	1	1	1	0	0	1	2	1	2	1	2	5	4	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:100168882T>C	uc003yiv.2	+	15	2230	c.2119T>C	c.(2119-2121)TAT>CAT	p.Y707H	VPS13B_uc003yiw.2_Missense_Mutation_p.Y707H|VPS13B_uc003yit.2_Missense_Mutation_p.Y707H|VPS13B_uc003yiu.1_Missense_Mutation_p.Y707H|VPS13B_uc003yix.1_Missense_Mutation_p.Y178H	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	707					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AGTGCCAATGTATGCTGAACA	0.388													55	100					0	0	1	0	0		C	100168882	C	C	100168882	3	2	89	1	0	0	0	0	1	0	0	0	17216	1638	57	3	2215	3	VPS13B	8	100168882	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	920484	100168882	46195140	3435	57266											
VPS13B	157680	broad.mit.edu	37	chr8	100493895	100493895	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagattcagaagagaggcaaTctcaacctatctccaacctc	15	8	6	12	0	3	3	2	0	2	3	6	4	3	3	3	1	2	1	3	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:100493895T>C	uc003yiv.2	+	25	3846	c.3735T>C	c.(3733-3735)AAT>AAC	p.N1245N	VPS13B_uc003yiw.2_Silent_p.N1245N|VPS13B_uc003yiu.1_Silent_p.N1245N|VPS13B_uc003yix.1_Silent_p.N715N	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1245					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AGAGAGGCAATCTCAACCTAT	0.438													9	170					0	0	1	0	0		C	100493895	C	C	100493895	2	2	89	1	0	0	0	0	0	0	0	1	17216	1432	50	3		3	VPS13B	8	100493895	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	325013	100493895	45870127	3436	57267											
VPS13B	157680	broad.mit.edu	37	chr8	100568703	100568703	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttgaacttaggaattcttCgagatcctggatcagaaatc	12	12	8	9	1	2	3	1	1	1	2	5	6	3	5	2	2	1	0	2	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:100568703C>T	uc003yiv.2	+	31	4957	c.4846C>T	c.(4846-4848)CGA>TGA	p.R1616*	VPS13B_uc003yiw.2_Nonsense_Mutation_p.R1591*	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1616					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AGGAATTCTTCGAGATCCTGG	0.358													12	39					0	0	1	0	0		T	100568703	T	T	100568703	4	4	89	1	0	0	0	0	0	1	0	0	17216	876	31	1	5158	1	VPS13B	8	100568703	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	74808	100568703	45795319	3437	57268											
RGS22	26166	broad.mit.edu	37	chr8	101016202	101016202	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaatgttcaaactccagtTtgttgttaagcagatcacta	13	13	8	7	0	2	1	2	0	0	1	3	2	3	2	1	1	2	5	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:101016202T>G	uc003yjb.1	-	17	2774	c.2579A>C	c.(2578-2580)AAA>ACA	p.K860T	RGS22_uc003yja.1_Missense_Mutation_p.K679T|RGS22_uc003yjc.1_Missense_Mutation_p.K848T|RGS22_uc011lgz.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	860	RGS 1.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			AAACTCCAGTTTGTTGTTAAG	0.353													26	51					0	0	1	0	0		G	101016202	G	G	101016202	3	3	89	1	0	0	0	0	1	0	0	0	13330	1841	64	5	1259	5	RGS22	8	101016202	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	447499	101016202	45347820	3438	57269											
SPAG1	6674	broad.mit.edu	37	chr8	101174630	101174630	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgttaaacatctggaaaAaattctttgcgtgctcaggt	13	13	9	6	1	3	1	1	0	2	1	3	2	3	2	0	2	3	2	0	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:101174630A>C	uc003yjh.1	+	2	208	c.122A>C	c.(121-123)AAA>ACA	p.K41T	SPAG1_uc003yjg.1_Missense_Mutation_p.K41T|SPAG1_uc003yji.1_Missense_Mutation_p.K41T	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	41					single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		CATCTGGAAAAAATTCTTTGC	0.299													13	16					0	0	1	0	0		C	101174630	C	C	101174630	3	2	89	1	0	0	0	0	1	0	0	0	15000	14	1	5	124	5	SPAG1	8	101174630	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	158428	101174630	45189392	3439	57270											
SPAG1	6674	broad.mit.edu	37	chr8	101178199	101178199	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaaattgatggtgatataAaggtatatagtaataccaat	20	12	7	2	0	0	2	0	2	0	0	0	2	0	2	1	2	1	2	1	2	12	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:101178199A>C	uc003yjh.1	+	3	384	c.298A>C	c.(298-300)AAG>CAG	p.K100Q	SPAG1_uc003yjg.1_Missense_Mutation_p.K100Q|SPAG1_uc003yji.1_Missense_Mutation_p.K100Q	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	100					single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		TGGTGATATAAAGGTATATAG	0.373													16	28					0	0	1	0	0		C	101178199	C	C	101178199	3	2	89	1	0	0	0	0	1	0	0	0	15000	15	1	5	304	5	SPAG1	8	101178199	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3569	101178199	45185823	3440	57271											
SPAG1	6674	broad.mit.edu	37	chr8	101196205	101196205	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgacgtggagaaggaatgTttaaaaattgatgaagatta	16	13	11	1	1	0	5	0	3	0	2	0	7	0	6	0	2	0	1	0	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:101196205T>C	uc003yjh.1	+	6	596	c.510T>C	c.(508-510)TGT>TGC	p.C170C	SPAG1_uc003yjg.1_Silent_p.C170C|SPAG1_uc003yji.1_Silent_p.C170C	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	170					single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		AGAAGGAATGTTTAAAAATTG	0.274													17	44					0	0	1	0	0		C	101196205	C	C	101196205	2	2	89	1	0	0	0	0	0	0	0	1	15000	1731	60	3		3	SPAG1	8	101196205	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	18006	101196205	45167817	3441	57272											
SPAG1	6674	broad.mit.edu	37	chr8	101243400	101243400	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagatgaaaaaacatttaaAgcccttaaggaagaaggaaa	22	7	8	4	0	0	3	0	1	0	2	0	5	0	5	1	2	2	0	1	2	10	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:101243400A>C	uc003yjh.1	+	15	1958	c.1872A>C	c.(1870-1872)AAA>AAC	p.K624N	SPAG1_uc003yji.1_Missense_Mutation_p.K624N	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	624	TPR 7.				single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		AAACATTTAAAGCCCTTAAGG	0.313													26	69					0	0	1	0	0		C	101243400	C	C	101243400	3	2	89	1	0	0	0	0	1	0	0	0	15000	69	3	5	1926	5	SPAG1	8	101243400	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	47195	101243400	45120622	3442	57273											
ANKRD46	157567	broad.mit.edu	37	chr8	101540171	101540171	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagattccagcaatcggatGacatctttatttactcctct	12	14	5	10	1	2	2	0	1	2	1	5	3	4	3	2	1	2	1	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:101540171G>T	uc003yjm.2	-	4	576	c.372C>A	c.(370-372)GTC>GTA	p.V124V	ANKRD46_uc003yjn.1_Silent_p.V124V|ANKRD46_uc003yjo.1_Silent_p.V124V|ANKRD46_uc003yjp.1_Silent_p.V124V	NM_198401	NP_940683	Q86W74	ANR46_HUMAN	ankyrin repeat domain 46	124	ANK 4.					integral to membrane					0	all_cancers(14;5.07e-05)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000353)|all_lung(17;0.000998)		Epithelial(11;2.61e-11)|all cancers(13;5.03e-09)|OV - Ovarian serous cystadenocarcinoma(57;4.49e-06)|STAD - Stomach adenocarcinoma(118;0.0957)			GCAATCGGATGACATCTTTAT	0.378													37	95					2.87052e-16	3.29392e-16	1	1	0		T	101540171	T	T	101540171	2	4	89	1	0	0	0	0	0	0	0	1	674	1277	45	5		5	ANKRD46	8	101540171	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	296771	101540171	44823851	3443	57274											
UBR5	51366	broad.mit.edu	37	chr8	103357626	103357626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaataaatgcaaaattacctCgagatgagcctagcctggaa	17	8	8	8	1	0	2	0	1	0	1	1	4	0	3	3	1	4	1	3	1	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:103357626C>T	uc003ykr.1	-	8	917	c.884G>A	c.(883-885)CGA>CAA	p.R295Q	UBR5_uc003yks.1_Missense_Mutation_p.R295Q	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	295					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			AAAATTACCTCGAGATGAGCC	0.353													6	8					0	0	1	0	0		T	103357626	T	T	103357626	3	4	89	1	0	0	0	0	1	0	0	0	16931	884	31	1	7723	1	UBR5	8	103357626	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1817455	103357626	43006396	3444	57275											
ODF1	4956	broad.mit.edu	37	chr8	103572953	103572953	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcggcagctgtgtcaagatCgagtctccttgctacccttg	6	12	10	13	2	2	1	1	0	1	1	5	2	2	1	2	1	3	3	2	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:103572953C>T	uc003ykt.2	+	2	702	c.594C>T	c.(592-594)ATC>ATT	p.I198I		NM_024410	NP_077721	Q14990	ODFP1_HUMAN	outer dense fiber of sperm tails 1	198					cell differentiation|multicellular organismal development|spermatogenesis	outer dense fiber	structural molecule activity			ovary(2)	2	all_cancers(14;2.76e-05)|all_epithelial(15;4.54e-08)|Lung NSC(17;4.08e-05)|all_lung(17;9.15e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000125)|STAD - Stomach adenocarcinoma(118;0.0826)			GTGTCAAGATCGAGTCTCCTT	0.338													11	47					0	0	1	0	0		T	103572953	T	T	103572953	2	4	89	1	0	0	0	0	0	0	0	1	10845	874	31	1		1	ODF1	8	103572953	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	215327	103572953	42791069	3445	57276											
RIMS2	9699	broad.mit.edu	37	chr8	104897838	104897838	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcacgctaccgaagtgatccGaatttggcccgttatccagt	9	11	9	12	4	1	1	1	1	0	0	3	3	3	1	4	1	1	2	4	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:104897838G>A	uc003yls.2	+	2	586	c.345G>A	c.(343-345)CCG>CCA	p.P115P	RIMS2_uc003ylp.2_Silent_p.P337P|RIMS2_uc003ylw.2_Silent_p.P145P|RIMS2_uc003ylq.2_Silent_p.P145P|RIMS2_uc003ylr.2_Silent_p.P145P	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	368					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GAAGTGATCCGAATTTGGCCC	0.468										HNSCC(12;0.0054)			24	32					0	0	1	0	0		A	104897838	A	A	104897838	2	1	89	1	0	0	0	0	0	0	0	1	13393	1045	37	1		1	RIMS2	8	104897838	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1324885	104897838	41466184	3446	57277											
RIMS2	9699	broad.mit.edu	37	chr8	105105866	105105866	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcccaggaggaaacaagaaAatcaggtaaggggatttcaa	17	5	12	7	1	2	1	2	0	0	1	2	4	2	4	1	5	1	1	1	5	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:105105866A>C	uc003yls.2	+	21	3130	c.2889A>C	c.(2887-2889)AAA>AAC	p.K963N	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Missense_Mutation_p.K1036N|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GAAACAAGAAAATCAGGTAAG	0.373										HNSCC(12;0.0054)			12	45					0	0	1	0	0		C	105105866	C	C	105105866	3	2	89	1	0	0	0	0	1	0	0	0	13393	29	1	5		5	RIMS2	8	105105866	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	208028	105105866	41258156	3447	57278											
RIMS2	9699	broad.mit.edu	37	chr8	105261818	105261818	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttccaagacactgccaggTaaaaacaaaagagatttttc	16	9	8	8	0	0	2	0	0	0	2	2	3	1	2	2	2	2	2	2	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:105261818T>C	uc003yls.2	+	26	3986	c.3745_splice	c.e26+2	p.A1249_splice	RIMS2_uc003ylp.2_Splice_Site_p.A1231_splice|RIMS2_uc003ylw.2_Splice_Site_p.A1238_splice|RIMS2_uc003ylq.2_Splice_Site_p.A1045_splice|RIMS2_uc003ylr.2_Splice_Site_p.A1070_splice	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2						intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CACTGCCAGGTAAAAACAAAA	0.378										HNSCC(12;0.0054)			26	16					0	0	1	0	0		C	105261818	C	C	105261818	5	2	89	1	0	0	0	0	0	0	1	0	13393	1652	57	3	3975	3	RIMS2	8	105261818	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	155952	105261818	41102204	3448	57279											
RIMS2	9699	broad.mit.edu	37	chr8	105263353	105263353	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacccctttaccagcagctaTtatctttcgaagagagtcca	12	11	6	12	1	1	1	0	0	1	1	3	3	2	1	4	0	4	2	4	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:105263353T>G	uc003yls.2	+	27	4088	c.3847T>G	c.(3847-3849)TTA>GTA	p.L1283V	RIMS2_uc003ylp.2_Missense_Mutation_p.L1265V|RIMS2_uc003ylw.2_Missense_Mutation_p.L1272V|RIMS2_uc003ylq.2_Missense_Mutation_p.L1079V|RIMS2_uc003ylr.2_Missense_Mutation_p.L1104V	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1327	C2 2.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CCAGCAGCTATTATCTTTCGA	0.363										HNSCC(12;0.0054)			11	27					0	0	1	0	0		G	105263353	G	G	105263353	3	3	89	1	0	0	0	0	1	0	0	0	13393	1490	52	5	4079	5	RIMS2	8	105263353	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1535	105263353	41100669	3449	57280											
LRP12	29967	broad.mit.edu	37	chr8	105503537	105503537	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatcatcagactccacggaAaacaaacttctgtgagtatg	14	10	8	9	1	3	2	2	1	1	1	4	3	4	3	1	1	2	2	1	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:105503537A>C	uc003yma.2	-	7	2039	c.1944T>G	c.(1942-1944)TTT>TTG	p.F648L	LRP12_uc003ymb.2_Missense_Mutation_p.F629L|LRP12_uc003ylz.2_Missense_Mutation_p.F54L	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	648	Cytoplasmic (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			ACTCCACGGAAAACAAACTTC	0.478													33	55					0	0	1	0	0		C	105503537	C	C	105503537	3	2	89	1	0	0	0	0	1	0	0	0	8972	11	1	5	639	5	LRP12	8	105503537	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	240184	105503537	40860485	3450	57281											
ANGPT1	284	broad.mit.edu	37	chr8	108359229	108359229	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctgagagaggaggctggTtcctatctccagcatggtag	9	10	14	8	0	2	2	0	1	2	1	4	4	3	3	2	4	1	4	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:108359229T>C	uc003ymn.2	-	2	862	c.394A>G	c.(394-396)ACC>GCC	p.T132A	ANGPT1_uc003ymo.2_Missense_Mutation_p.T132A	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	132					activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			AGGAGGCTGGTTCCTATCTCC	0.512													34	77					0	0	1	0	0		C	108359229	C	C	108359229	3	2	89	1	0	0	0	0	1	0	0	0	610	1725	60	3	1134	3	ANGPT1	8	108359229	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2855692	108359229	38004793	3451	57282											
ANGPT1	284	broad.mit.edu	37	chr8	108359247	108359247	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttcctatctccagcatggTagccgtgtggttctgaactg	6	13	12	10	1	2	1	0	1	2	0	4	1	3	1	3	3	3	4	3	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:108359247T>C	uc003ymn.2	-	2	844	c.376A>G	c.(376-378)ACC>GCC	p.T126A	ANGPT1_uc003ymo.2_Missense_Mutation_p.T126A	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	126					activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			TCCAGCATGGTAGCCGTGTGG	0.498													35	81					0	0	1	0	0		C	108359247	C	C	108359247	3	2	89	1	0	0	0	0	1	0	0	0	610	1638	57	3	1152	3	ANGPT1	8	108359247	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	18	108359247	38004775	3452	57283											
ANGPT1	284	broad.mit.edu	37	chr8	108509744	108509744	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctgcaccctatgtgagTcagaatggcagcgaggaaag	12	8	13	8	1	1	2	1	1	0	1	1	4	1	3	1	2	3	3	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:108509744T>C	uc003ymn.2	-	1	511	c.43A>G	c.(43-45)ACT>GCT	p.T15A	ANGPT1_uc003ymo.2_Missense_Mutation_p.T15A	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	15					activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			CCTATGTGAGTCAGAATGGCA	0.488													18	25					0	0	1	0	0		C	108509744	C	C	108509744	3	2	89	1	0	0	0	0	1	0	0	0	610	1667	58	3	1489	3	ANGPT1	8	108509744	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	150497	108509744	37854278	3453	57284											
NUDCD1	84955	broad.mit.edu	37	chr8	110255496	110255496	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatttggagcacaggcaaaAaattttttgtctctctttga	12	16	7	6	0	2	1	0	1	2	0	3	2	2	2	0	2	1	2	0	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:110255496A>C	uc003ynb.3	-	10	1605	c.1494T>G	c.(1492-1494)TTT>TTG	p.F498L	NUDCD1_uc003yna.2_Missense_Mutation_p.F469L|NUDCD1_uc010mcl.2_Missense_Mutation_p.F411L	NM_032869	NP_116258	Q96RS6	NUDC1_HUMAN	NudC domain containing 1 isoform 1	498										ovary(1)|breast(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;1.56e-12)			CACAGGCAAAAAATTTTTTGT	0.393													79	138					0	0	1	0	0		C	110255496	C	C	110255496	3	2	89	1	0	0	0	0	1	0	0	0	10741	11	1	5	261	5	NUDCD1	8	110255496	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1745752	110255496	36108526	3454	57285											
PKHD1L1	93035	broad.mit.edu	37	chr8	110448648	110448648	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatgaaacctgcaatgtgaTtgaaggggatttgaatagga	16	10	12	3	0	0	4	0	4	0	0	0	6	0	6	1	3	2	1	1	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:110448648T>G	uc003yne.2	+	30	3691	c.3587T>G	c.(3586-3588)ATT>AGT	p.I1196S		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1196	Extracellular (Potential).|IPT/TIG 5.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TGCAATGTGATTGAAGGGGAT	0.358										HNSCC(38;0.096)			13	54					0	0	1	0	0		G	110448648	G	G	110448648	3	3	89	1	0	0	0	0	1	0	0	0	11991	1493	52	5	3705	5	PKHD1L1	8	110448648	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	193152	110448648	35915374	3455	57286											
PKHD1L1	93035	broad.mit.edu	37	chr8	110477432	110477432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acaaggctggctttcgctggGaacatgaaatggtaatgatt	12	11	12	6	1	0	2	0	2	0	0	1	3	0	3	0	4	1	4	0	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:110477432G>A	uc003yne.2	+	49	8475	c.8371G>A	c.(8371-8373)GAA>AAA	p.E2791K		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2791	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CTTTCGCTGGGAACATGAAAT	0.383										HNSCC(38;0.096)			30	41					0	0	1	0	0		A	110477432	A	A	110477432	3	1	89	1	0	0	0	0	1	0	0	0	11991	1175	41	4	8565	4	PKHD1L1	8	110477432	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	28784	110477432	35886590	3456	57287											
PKHD1L1	93035	broad.mit.edu	37	chr8	110534550	110534550	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctccccagcccaagtgActctgggtggattaaggtaa	9	9	10	13	0	1	1	0	1	1	0	3	2	3	2	5	3	1	1	5	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:110534550A>G	uc003yne.2	+	74	12271	c.12167A>G	c.(12166-12168)GAC>GGC	p.D4056G		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	4056	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			AGCCCAAGTGACTCTGGGTGG	0.348										HNSCC(38;0.096)			23	41					0	0	1	0	0		G	110534550	G	G	110534550	3	3	89	1	0	0	0	0	1	0	0	0	11991	275	10	3	12461	3	PKHD1L1	8	110534550	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	57118	110534550	35829472	3457	57288											
SYBU	55638	broad.mit.edu	37	chr8	110590245	110590245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacatgtaccttccagaacGcctgaaacaatccaagtaat	16	8	6	11	1	0	3	0	1	0	2	2	3	2	3	4	0	3	2	4	0	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:110590245G>A	uc003ynj.3	-	6	899	c.736C>T	c.(736-738)CGT>TGT	p.R246C	SYBU_uc003yni.3_Missense_Mutation_p.R243C|SYBU_uc003ynk.3_Missense_Mutation_p.R127C|SYBU_uc010mco.2_Missense_Mutation_p.R245C|SYBU_uc003ynl.3_Missense_Mutation_p.R245C|SYBU_uc010mcp.2_Missense_Mutation_p.R246C|SYBU_uc010mcq.2_Missense_Mutation_p.R246C|SYBU_uc003yno.3_Missense_Mutation_p.R127C|SYBU_uc010mcr.2_Missense_Mutation_p.R246C|SYBU_uc003ynm.3_Missense_Mutation_p.R245C|SYBU_uc003ynn.3_Missense_Mutation_p.R245C|SYBU_uc010mcs.2_Missense_Mutation_p.R127C|SYBU_uc010mct.2_Missense_Mutation_p.R246C|SYBU_uc010mcu.2_Missense_Mutation_p.R245C|SYBU_uc003ynp.3_Missense_Mutation_p.R178C|SYBU_uc010mcv.2_Missense_Mutation_p.R246C|SYBU_uc003ynh.3_Missense_Mutation_p.R40C|SYBU_uc011lhw.1_Missense_Mutation_p.R116C	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	246	Sufficient for interaction with KIF5B.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						CTTCCAGAACGCCTGAAACAA	0.373													53	132					0	0	1	0	0		A	110590245	A	A	110590245	3	1	89	1	0	0	0	0	1	0	0	0	15452	1101	38	1	1263	1	SYBU	8	110590245	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	55695	110590245	35773777	3458	57289											
CSMD3	114788	broad.mit.edu	37	chr8	113516067	113516067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actaacagatccatcactccGaaaagccaaatgcattgtat	16	9	5	11	1	1	1	1	0	0	1	3	2	3	1	3	0	3	2	3	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:113516067G>A	uc003ynu.2	-	30	5194	c.5035C>T	c.(5035-5037)CGG>TGG	p.R1679W	CSMD3_uc003yns.2_Missense_Mutation_p.R951W|CSMD3_uc003ynt.2_Missense_Mutation_p.R1639W|CSMD3_uc011lhx.1_Missense_Mutation_p.R1575W	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1679	Extracellular (Potential).|CUB 9.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCATCACTCCGAAAAGCCAAA	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			33	80					0	0	1	0	0		A	113516067	A	A	113516067	3	1	89	1	0	0	0	0	1	0	0	0	3949	1057	37	1	6256	1	CSMD3	8	113516067	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2925822	113516067	32847955	3459	57290											
CSMD3	114788	broad.mit.edu	37	chr8	113933929	113933929	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaggtgatgctctttgcGccctgtaggacataatcttc	8	13	10	10	1	2	2	0	2	2	0	3	3	2	3	1	2	2	2	1	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:113933929G>A	uc003ynu.2	-	10	1719	c.1560C>T	c.(1558-1560)GGC>GGT	p.G520G	CSMD3_uc003ynt.2_Silent_p.G480G|CSMD3_uc011lhx.1_Silent_p.G416G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	520	Extracellular (Potential).|Sushi 2.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TGCTCTTTGCGCCCTGTAGGA	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			26	52					0	0	1	0	0		A	113933929	A	A	113933929	2	1	89	1	0	0	0	0	0	0	0	1	3949	1074	38	1		1	CSMD3	8	113933929	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	417862	113933929	32430093	3460	57291											
CSMD3	114788	broad.mit.edu	37	chr8	114186077	114186077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggatcttgtccccgacgtCgaatcttgtgccatataata	9	12	9	11	4	2	0	0	0	2	0	4	3	3	1	3	1	1	0	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:114186077C>T	uc003ynu.2	-	4	742	c.583G>A	c.(583-585)GAC>AAC	p.D195N	CSMD3_uc003ynt.2_Missense_Mutation_p.D155N|CSMD3_uc011lhx.1_Missense_Mutation_p.D195N|CSMD3_uc010mcx.1_Missense_Mutation_p.D195N	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	195	Extracellular (Potential).|Sushi 1.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TCCCCGACGTCGAATCTTGTG	0.458										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			46	54					0	0	1	0	0		T	114186077	T	T	114186077	3	4	89	1	0	0	0	0	1	0	0	0	3949	884	31	1	10812	1	CSMD3	8	114186077	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	252148	114186077	32177945	3461	57292											
TRPS1	7227	broad.mit.edu	37	chr8	116631976	116631976	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatttctgtctgtcacctCatcatgcggaaaggagggaa	11	11	10	9	1	5	0	3	0	2	0	5	3	5	3	1	3	1	0	1	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:116631976C>A	uc003ynz.2	-	2	769	c.310G>T	c.(310-312)GAG>TAG	p.E104*	TRPS1_uc011lhy.1_Nonsense_Mutation_p.E108*|TRPS1_uc003yny.2_Nonsense_Mutation_p.E117*|TRPS1_uc010mcy.2_Nonsense_Mutation_p.E104*	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	104					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TCTGTCACCTCATCATGCGGA	0.502									Langer-Giedion_syndrome				35	70					1.26612e-14	1.43161e-14	1	1	0		A	116631976	A	A	116631976	4	1	89	1	0	0	0	0	0	1	0	0	16619	835	29	5	3555	5	TRPS1	8	116631976	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2445899	116631976	29732046	3462	57293											
SLC30A8	169026	broad.mit.edu	37	chr8	118159295	118159295	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgccacagtggctccaaGcccacagaaaagggggcgaa	13	3	12	13	1	0	1	0	0	0	1	1	2	1	1	3	3	2	1	3	3	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:118159295G>A	uc003yoh.2	+	2	404	c.174G>A	c.(172-174)AAG>AAA	p.K58K	SLC30A8_uc010mcz.2_Silent_p.K9K|SLC30A8_uc011lia.1_Silent_p.K9K|SLC30A8_uc003yog.2_Silent_p.K9K	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	58	Cytoplasmic (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			GTGGCTCCAAGCCCACAGAAA	0.512													35	100					0	0	1	0	0		A	118159295	A	A	118159295	2	1	89	1	0	0	0	0	0	0	0	1	14586	962	34	2		2	SLC30A8	8	118159295	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1527319	118159295	28204727	3463	57294											
EXT1	2131	broad.mit.edu	37	chr8	118834767	118834767	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atactgtggtagtacgaacaAtcctccaggatgtttgttcc	10	13	9	9	1	0	0	0	0	0	0	3	2	3	1	3	2	3	4	3	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:118834767A>C	uc003yok.1	-	5	2127	c.1354T>G	c.(1354-1356)TTG>GTG	p.L452V		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	452	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			AGTACGAACAATCCTCCAGGA	0.368			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				33	72					0	0	1	0	0		C	118834767	C	C	118834767	3	2	89	1	0	0	0	0	1	0	0	0	5331	98	4	5	914	5	EXT1	8	118834767	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	675472	118834767	27529255	3464	57295											
EXT1	2131	broad.mit.edu	37	chr8	118834821	118834821	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgtgatatgtgcttgaataTtctgtcctgaataatctaga	12	15	8	6	1	2	4	0	3	2	1	3	4	3	4	1	0	1	1	1	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:118834821T>G	uc003yok.1	-	5	2073	c.1300A>C	c.(1300-1302)ATA>CTA	p.I434L		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	434	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			TGCTTGAATATTCTGTCCTGA	0.358			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				36	52					0	0	1	0	0		G	118834821	G	G	118834821	3	3	89	1	0	0	0	0	1	0	0	0	5331	1493	52	5	968	5	EXT1	8	118834821	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	54	118834821	27529201	3465	57296											
EXT1	2131	broad.mit.edu	37	chr8	119123272	119123272	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagcaggatgaaatagcgtTttttggcctgcatgtgtcct	9	13	12	7	1	0	2	0	1	0	1	1	3	1	3	2	2	3	3	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:119123272T>G	uc003yok.1	-	1	787	c.14A>C	c.(13-15)AAA>ACA	p.K5T		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	5	Cytoplasmic (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			GAAATAGCGTTTTTTGGCCTG	0.493			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				5	16					0	0	1	0	0		G	119123272	G	G	119123272	3	3	89	1	0	0	0	0	1	0	0	0	5331	1841	64	5	2270	5	EXT1	8	119123272	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	288451	119123272	27240750	3466	57297											
DSCC1	79075	broad.mit.edu	37	chr8	120865430	120865430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgcacagcacagcttgctCgtctttatcaccacgaatca	11	10	6	14	2	3	0	2	0	1	0	4	1	3	0	1	0	4	4	1	0	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:120865430C>T	uc003yov.2	-	2	343	c.208G>A	c.(208-210)GAG>AAG	p.E70K		NM_024094	NP_076999	Q9BVC3	DCC1_HUMAN	defective in sister chromatid cohesion 1	70					DNA replication|maintenance of mitotic sister chromatid cohesion|post-translational protein acetylation|regulation of DNA replication	chromatin|chromosome, centromeric region|nucleoplasm	DNA binding|protein binding			pancreas(1)	1	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			ACAGCTTGCTCGTCTTTATCA	0.383													36	40					0	0	1	0	0		T	120865430	T	T	120865430	3	4	89	1	0	0	0	0	1	0	0	0	4776	893	31	1	1005	1	DSCC1	8	120865430	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1742158	120865430	25498592	3467	57298											
COL14A1	7373	broad.mit.edu	37	chr8	121210070	121210070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcttgcacagtatagtggtGaccccagaatagaatggcac	12	9	11	9	0	1	3	0	1	1	2	1	3	1	3	2	2	1	3	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:121210070G>A	uc003yox.2	+	7	878	c.613G>A	c.(613-615)GAC>AAC	p.D205N	COL14A1_uc003yoy.2_5'UTR|COL14A1_uc010mde.1_Intron	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	205	VWFA 1.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			GTATAGTGGTGACCCCAGAAT	0.408													19	52					0	0	1	0	0		A	121210070	A	A	121210070	3	1	89	1	0	0	0	0	1	0	0	0	3674	1290	45	4	635	4	COL14A1	8	121210070	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	344640	121210070	25153952	3468	57299											
COL14A1	7373	broad.mit.edu	37	chr8	121216025	121216025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcatgtgtacaatgttgccGaattcgatctgatgcacaca	11	12	8	10	2	2	1	1	1	1	0	3	3	2	1	1	0	3	3	1	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:121216025G>A	uc003yox.2	+	9	1220	c.955G>A	c.(955-957)GAA>AAA	p.E319K	COL14A1_uc003yoy.2_5'UTR|COL14A1_uc010mde.1_5'UTR	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	319	VWFA 1.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			CAATGTTGCCGAATTCGATCT	0.468													19	29					0	0	1	0	0		A	121216025	A	A	121216025	3	1	89	1	0	0	0	0	1	0	0	0	3674	1059	37	1	985	1	COL14A1	8	121216025	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5955	121216025	25147997	3469	57300											
COL14A1	7373	broad.mit.edu	37	chr8	121296018	121296018	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttggggttattttagacaGtaagtatatttattgagatc	11	17	11	2	0	0	2	0	1	0	2	1	3	0	2	0	3	0	4	0	3	6	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:121296018G>A	uc003yox.2	+	32	4232	c.3967_splice	c.e32+1	p.N1323_splice	COL14A1_uc003yoz.2_Splice_Site_p.N288_splice	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor						cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			ATTTTAGACAGTAAGTATATT	0.353													17	57					0	0	1	0	0		A	121296018	A	A	121296018	5	1	89	1	0	0	0	0	0	0	1	0	3674	1043	36	4	4090	4	COL14A1	8	121296018	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	79993	121296018	25068004	3470	57301											
SNTB1	6641	broad.mit.edu	37	chr8	121823712	121823712	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttgccccccttgatgctgatCcccagcccgcccagctcctg	4	9	8	20	1	0	2	0	2	0	0	2	2	2	2	8	0	4	2	8	0	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:121823712C>T	uc010mdg.2	-	1	598	c.372G>A	c.(370-372)GGG>GGA	p.G124G	SNTB1_uc003ype.2_Silent_p.G124G	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	124	PH 1.|PDZ.				muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			TGATGCTGATCCCCAGCCCGC	0.637													14	29					0	0	1	0	0		T	121823712	T	T	121823712	2	4	89	1	0	0	0	0	0	0	0	1	14897	842	30	4		4	SNTB1	8	121823712	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	527694	121823712	24540310	3471	57302											
SNTB1	6641	broad.mit.edu	37	chr8	121823882	121823882	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccccggcgcccctgcagaAcgagccattggtggcggtcc	6	5	14	16	4	0	1	0	0	0	1	1	2	1	1	6	4	4	1	6	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:121823882A>G	uc010mdg.2	-	1	428	c.202T>C	c.(202-204)TTC>CTC	p.F68L	SNTB1_uc003ype.2_Missense_Mutation_p.F68L	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	68	PH 1.				muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			ccccTGCAGAACGAGCCATTG	0.438													7	14					0	0	1	0	0		G	121823882	G	G	121823882	3	3	89	1	0	0	0	0	1	0	0	0	14897	43	2	3	1442	3	SNTB1	8	121823882	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	170	121823882	24540140	3472	57303											
ZHX2	22882	broad.mit.edu	37	chr8	123964589	123964589	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgccacgatgatcaactCtttcaacaagtttccttacc	13	12	4	12	1	3	1	2	1	1	0	4	2	4	1	3	0	4	1	3	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:123964589C>A	uc003ypk.1	+	3	1406	c.839C>A	c.(838-840)TCT>TAT	p.S280Y		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	280	Required for interaction with NFYA.|Required for homodimerization.|Required for repressor activity.|Homeobox 1.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			ATGATCAACTCTTTCAACAAG	0.507													46	85					1.76056e-25	2.12345e-25	1	1	0		A	123964589	A	A	123964589	3	1	89	1	0	0	0	0	1	0	0	0	17701	913	32	5	841	5	ZHX2	8	123964589	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2140707	123964589	22399433	3473	57304											
DERL1	79139	broad.mit.edu	37	chr8	124027820	124027820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctcctactgggcagccagCggtacctggtgcagaaagac	9	7	12	13	1	1	2	0	0	1	2	2	2	1	2	3	3	5	3	3	3	3	2	rs141975370	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:124027820C>T	uc003ypl.2	-	8	909	c.623G>A	c.(622-624)CGC>CAC	p.R208H	DERL1_uc003ypm.2_Missense_Mutation_p.R188H|DERL1_uc011lif.1_Missense_Mutation_p.R108H|DERL1_uc003ypn.2_3'UTR	NM_024295	NP_077271	Q9BUN8	DERL1_HUMAN	Der1-like domain family, member 1 isoform a	208	Cytoplasmic (Potential).				endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|intracellular transport of viral proteins in host cell|retrograde protein transport, ER to cytosol	integral to endoplasmic reticulum membrane	MHC class I protein binding|receptor activity				0	Lung NSC(37;1.06e-09)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			GGGCAGCCAGCGGTACCTGGT	0.562													27	71					0	0	1	0	0		T	124027820	T	T	124027820	3	4	89	1	0	0	0	0	1	0	0	0	4452	768	27	1	136	1	DERL1	8	124027820	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	63231	124027820	22336202	3474	57305											
WDR67	93594	broad.mit.edu	37	chr8	124096519	124096519	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatacagcacaattatgggActtggatacctttcagagaa	14	11	9	7	0	1	2	1	1	0	1	1	5	1	4	1	2	3	1	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:124096519A>G	uc003ypp.1	+	4	548	c.458A>G	c.(457-459)GAC>GGC	p.D153G	WDR67_uc011lig.1_Missense_Mutation_p.D153G|WDR67_uc011lih.1_Missense_Mutation_p.D43G|WDR67_uc003ypq.1_RNA|WDR67_uc003ypo.1_Missense_Mutation_p.D153G	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	153	WD 2.					centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			CAATTATGGGACTTGGATACC	0.438													52	102					0	0	1	0	0		G	124096519	G	G	124096519	3	3	89	1	0	0	0	0	1	0	0	0	17344	275	10	3	472	3	WDR67	8	124096519	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	68699	124096519	22267503	3475	57306											
FBXO32	114907	broad.mit.edu	37	chr8	124546990	124546990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttctttctcttcttggCtgcaacatcatagttcaggc	6	16	7	12	0	5	0	2	0	3	0	7	0	6	0	1	2	2	3	1	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:124546990C>T	uc003yqr.2	-	2	373	c.181G>A	c.(181-183)GCC>ACC	p.A61T	FBXO32_uc003yqq.2_5'Flank|FBXO32_uc010mdk.2_Missense_Mutation_p.A61T	NM_058229	NP_478136	Q969P5	FBX32_HUMAN	F-box only protein 32 isoform 1	61										skin(3)|breast(2)|lung(1)	6	Lung NSC(37;1.13e-13)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			CTCTTCTTGGCTGCAACATCA	0.363													30	63					0	0	1	0	0		T	124546990	T	T	124546990	3	4	89	1	0	0	0	0	1	0	0	0	5756	797	28	2	918	2	FBXO32	8	124546990	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	450471	124546990	21817032	3476	57307											
FAM91A1	157769	broad.mit.edu	37	chr8	124811872	124811872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccaaaggtacaagacttcGaaaactgccagatatatttc	15	10	7	9	1	0	2	0	0	0	2	3	3	1	2	2	1	3	1	2	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:124811872G>A	uc003yqv.2	+	17	1734	c.1673G>A	c.(1672-1674)CGA>CAA	p.R558Q	FAM91A1_uc011lik.1_Missense_Mutation_p.R558Q|FAM91A1_uc011lil.1_Missense_Mutation_p.R316Q	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769	558										ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			ACAAGACTTCGAAAACTGCCA	0.388													63	117					0	0	1	0	0		A	124811872	A	A	124811872	3	1	89	1	0	0	0	0	1	0	0	0	5665	1058	37	1	1739	1	FAM91A1	8	124811872	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	264882	124811872	21552150	3477	57308											
FER1L6	654463	broad.mit.edu	37	chr8	125113491	125113491	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagagggagaacatcttCtctttagagaagatggagtg	14	9	12	6	0	2	4	0	0	2	4	3	7	2	5	1	2	1	0	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:125113491C>A	uc003yqw.2	+	38	5243	c.5037C>A	c.(5035-5037)TTC>TTA	p.F1679L	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1679	C2 6.|Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			AGAACATCTTCTCTTTAGAGA	0.498													18	47					9.16793e-09	9.77785e-09	1	1	0		A	125113491	A	A	125113491	3	1	89	1	0	0	0	0	1	0	0	0	5829	912	32	5	5183	5	FER1L6	8	125113491	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	301619	125113491	21250531	3478	57309											
TRMT12	55039	broad.mit.edu	37	chr8	125464172	125464172	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggaggcattttgcataTccaccaaaatgtggaatctt	11	13	9	8	0	1	0	0	0	1	0	2	2	2	2	2	3	2	3	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:125464172T>C	uc003yra.3	+	1	1125	c.1004T>C	c.(1003-1005)ATC>ACC	p.I335T		NM_017956	NP_060426	Q53H54	TYW2_HUMAN	homolog of yeast tRNA methyltransferase 12	335					tRNA processing		methyltransferase activity			upper_aerodigestive_tract(1)	1	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			ATTTTGCATATCCACCAAAAT	0.493													26	60					0	0	1	0	0		C	125464172	C	C	125464172	3	2	89	1	0	0	0	0	1	0	0	0	16590	1435	50	3	1006	3	TRMT12	8	125464172	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	350681	125464172	20899850	3479	57310											
NSMCE2	286053	broad.mit.edu	37	chr8	126194403	126194403	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attattggtagagaagaaatTtttggctttacagagcaaga	15	13	10	3	0	0	4	0	0	0	4	0	5	0	4	0	2	2	3	0	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:126194403T>G	uc003yrw.2	+	5	551	c.323T>G	c.(322-324)TTT>TGT	p.F108C	NSMCE2_uc003yrv.2_Missense_Mutation_p.F108C	NM_173685	NP_775956	Q96MF7	NSE2_HUMAN	non-SMC element 2, MMS21 homolog	108				F -> L (in Ref. 1; BAB71338).	DNA recombination|DNA repair	nucleus	ligase activity|zinc ion binding			breast(1)	1	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)			GAGAAGAAATTTTTGGCTTTA	0.299													58	89					0	0	1	0	0		G	126194403	G	G	126194403	3	3	89	1	0	0	0	0	1	0	0	0	10695	1841	64	5	333	5	NSMCE2	8	126194403	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	730231	126194403	20169619	3480	57311											
ASAP1	50807	broad.mit.edu	37	chr8	131073177	131073177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccaatttggggcttggggGccagttctgtgggctttggg	3	13	17	8	0	1	0	0	0	1	0	2	0	2	0	2	6	0	3	2	6	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:131073177G>A	uc003yta.1	-	27	2868	c.2840C>T	c.(2839-2841)GCC>GTC	p.A947V	ASAP1_uc003ysz.1_Missense_Mutation_p.A758V|ASAP1_uc011liw.1_Missense_Mutation_p.A940V	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	947	Pro-rich.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						GGGCTTGGGGGCCAGTTCTGT	0.577													55	112					0	0	1	0	0		A	131073177	A	A	131073177	3	1	89	1	0	0	0	0	1	0	0	0	1011	1203	42	2	561	2	ASAP1	8	131073177	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4878774	131073177	15290845	3481	57312											
EFR3A	23167	broad.mit.edu	37	chr8	132989322	132989322	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagaattcagataatgttgCtgagatctttgcttatggta	11	15	11	4	0	2	3	1	1	1	3	2	5	2	3	0	2	2	4	0	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:132989322C>A	uc003yte.2	+	12	1510	c.1309C>A	c.(1309-1311)CTG>ATG	p.L437M		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	437						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			GATAATGTTGCTGAGATCTTT	0.294													21	45					3.7963e-18	4.42695e-18	1	1	0		A	132989322	A	A	132989322	3	1	89	1	0	0	0	0	1	0	0	0	4964	796	28	5	1355	5	EFR3A	8	132989322	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1916145	132989322	13374700	3482	57313											
TG	7038	broad.mit.edu	37	chr8	133961170	133961170	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgatattgcgtcttggaGaccaggagttcatcaagagt	11	11	13	6	1	3	3	2	1	1	2	3	5	3	4	1	3	1	1	1	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:133961170G>T	uc003ytw.2	+	27	5424	c.5383G>T	c.(5383-5385)GAC>TAC	p.D1795Y	TG_uc010mdw.2_Missense_Mutation_p.D554Y|TG_uc011ljb.1_Missense_Mutation_p.D164Y	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1795	Type IIIB.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GCGTCTTGGAGACCAGGAGTT	0.468													35	71					9.85521e-28	1.19659e-27	1	1	0		T	133961170	T	T	133961170	3	4	89	1	0	0	0	0	1	0	0	0	15838	942	33	5	5489	5	TG	8	133961170	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	971848	133961170	12402852	3483	57314											
SLA	6503	broad.mit.edu	37	chr8	134063099	134063099	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctcccctcggcggaatatCggggggctgatgtcaggaga	7	9	15	10	3	2	2	1	1	1	1	5	4	2	3	2	6	0	1	2	6	2	2	rs143198289		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:134063099C>T	uc003ytz.2	-	4	955	c.123G>A	c.(121-123)CCG>CCA	p.P41P	TG_uc003ytw.2_Intron|TG_uc010mdw.2_Intron|TG_uc011ljb.1_Intron|TG_uc011ljc.1_Intron|SLA_uc011lje.1_Silent_p.P58P|SLA_uc011ljf.1_5'UTR|SLA_uc011ljg.1_Silent_p.P58P|SLA_uc010mdy.1_Silent_p.P41P|SLA_uc010mdz.1_Silent_p.P41P|SLA_uc010mea.2_RNA|SLA_uc011ljd.1_Silent_p.P81P	NM_001045556	NP_001039021	Q13239	SLAP1_HUMAN	Src-like-adaptor isoform a	41	SH3.					endosome	SH3/SH2 adaptor activity			lung(1)|liver(1)	2	all_epithelial(106;3.51e-21)|Lung NSC(106;4.24e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0279)|Breast(495;0.037)	BRCA - Breast invasive adenocarcinoma(115;0.000701)			GGCGGAATATCGGGGGGCTGA	0.527													18	44					0	0	1	0	0		T	134063099	T	T	134063099	2	4	89	1	0	0	0	0	0	0	0	1	14388	871	31	1		1	SLA	8	134063099	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	101929	134063099	12300923	3484	57315											
ST3GAL1	6482	broad.mit.edu	37	chr8	134474127	134474127	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggcatacctcatcgcaGacatgcattgagaagatgac	12	8	12	9	1	1	4	1	2	0	3	2	5	1	4	1	2	2	3	1	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:134474127G>T	uc003yuk.2	-	9	1669	c.840C>A	c.(838-840)GTC>GTA	p.V280V	ST3GAL1_uc003yum.2_Silent_p.V280V	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	280	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			CCTCATCGCAGACATGCATTG	0.597													52	100					1.46357e-32	1.79619e-32	1	1	0		T	134474127	T	T	134474127	2	4	89	1	0	0	0	0	0	0	0	1	15239	929	33	5		5	ST3GAL1	8	134474127	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	411028	134474127	11889895	3485	57316											
FAM135B	51059	broad.mit.edu	37	chr8	139163661	139163661	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggctgtccagagtaaaGgtctctgcagaagtcagatg	11	10	12	8	0	3	3	2	0	1	3	5	3	4	3	1	2	1	3	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:139163661G>A	uc003yuy.2	-	13	3228	c.3057C>T	c.(3055-3057)ACC>ACT	p.T1019T	FAM135B_uc003yux.2_Silent_p.T920T|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Silent_p.T581T|FAM135B_uc003yvb.2_Silent_p.T581T	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1019										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CCAGAGTAAAGGTCTCTGCAG	0.532										HNSCC(54;0.14)			24	52					0	0	1	0	0		A	139163661	A	A	139163661	2	1	89	1	0	0	0	0	0	0	0	1	5460	987	35	4		4	FAM135B	8	139163661	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4689534	139163661	7200361	3486	57317											
COL22A1	169044	broad.mit.edu	37	chr8	139701163	139701163	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcatattggtcttaccttCtcaccacgctccccatcttt	7	15	4	15	1	4	0	2	0	3	0	6	1	5	0	4	1	1	1	4	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:139701163C>A	uc003yvd.2	-	37	3306	c.2859G>T	c.(2857-2859)GAG>GAT	p.E953D	COL22A1_uc011ljo.1_Missense_Mutation_p.E253D	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	953	Pro-rich.|Gly-rich.|Collagen-like 8.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GTCTTACCTTCTCACCACGCT	0.512										HNSCC(7;0.00092)			19	71					2.37509e-13	2.65549e-13	1	1	0		A	139701163	A	A	139701163	3	1	89	1	0	0	0	0	1	0	0	0	3684	912	32	5	2137	5	COL22A1	8	139701163	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	537502	139701163	6662859	3487	57318											
PTK2	5747	broad.mit.edu	37	chr8	141749153	141749153	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actagctgaggtaaaacgtcGaaaattgattgactctggag	14	10	11	6	2	1	3	0	3	1	0	2	5	1	4	0	2	2	2	0	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:141749153G>A	uc003yvu.2	-	21	2019	c.1789C>T	c.(1789-1791)CGA>TGA	p.R597*	PTK2_uc003yvo.2_Nonsense_Mutation_p.R225*|PTK2_uc011ljq.1_Nonsense_Mutation_p.R292*|PTK2_uc003yvp.2_Nonsense_Mutation_p.R265*|PTK2_uc003yvq.2_Nonsense_Mutation_p.R123*|PTK2_uc003yvr.2_Nonsense_Mutation_p.R537*|PTK2_uc003yvs.2_Nonsense_Mutation_p.R597*|PTK2_uc003yvt.2_Nonsense_Mutation_p.R619*|PTK2_uc003yvv.2_Nonsense_Mutation_p.R497*|PTK2_uc011ljr.1_Nonsense_Mutation_p.R597*	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	597	Protein kinase.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			GTAAAACGTCGAAAATTGATT	0.284													20	43					0	0	1	0	0		A	141749153	A	A	141749153	4	1	89	1	0	0	0	0	0	1	0	0	12785	1066	37	1	1417	1	PTK2	8	141749153	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2047990	141749153	4614869	3488	57319											
DENND3	22898	broad.mit.edu	37	chr8	142154302	142154302	+	Missense_Mutation	SNP	G	T	T																															aagtggacagtcatataaaaGatttcgctgcgaagctgtct																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:142154302G>T	uc003yvy.2	+	5	717	c.439G>T	c.(439-441)GAT>TAT	p.D147Y	DENND3_uc010mep.2_Missense_Mutation_p.D160Y	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	147	DENN.									ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			TCATATAAAAGATTTCGCTGC	0.373													33	45					1.56442e-22	1.86546e-22	1	1	0		T	142154302	T	T	142154302	3	4	89	1	0	0	0	0	1	0	0	0	4438	942	33	5	453	5	DENND3	8	142154302	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	405149	142154302	4209720	3489	57320	105	2									
DENND3	22898	broad.mit.edu	37	chr8	142154308	142154308	+	Missense_Mutation	SNP	G	A	A																															acagtcatataaaagatttcGctgcgaagctgtctttaata																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:142154308G>A	uc003yvy.2	+	5	723	c.445G>A	c.(445-447)GCT>ACT	p.A149T	DENND3_uc010mep.2_Missense_Mutation_p.A162T	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	149	DENN.									ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			AAAAGATTTCGCTGCGAAGCT	0.368													23	53					0	0	1	0	0		A	142154308	A	A	142154308	3	1	89	1	0	0	0	0	1	0	0	0	4438	1087	38	1	459	1	DENND3	8	142154308	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6	142154308	4209714	3490	57321	105	2									
FLJ43860	389690	broad.mit.edu	37	chr8	142445254	142445254	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccagaggaagtggcgggcGctgaggcccctctcccaggc	6	5	16	14	2	1	2	0	1	1	1	3	3	2	3	4	5	0	1	4	5	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:142445254G>A	uc003ywi.2	-	29	3732	c.3651C>T	c.(3649-3651)AGC>AGT	p.S1217S	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	1217							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			AGTGGCGGGCGCTGAGGCCCC	0.672													14	11					0	0	1	0	0		A	142445254	A	A	142445254	2	1	89	1	0	0	0	0	0	0	0	1	5944	1078	38	1		1	FLJ43860	8	142445254	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	290946	142445254	3918768	3491	57322											
BAI1	575	broad.mit.edu	37	chr8	143614773	143614773	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagatcctcttcgctgtcttCgactcgctggagggcttcgt	4	13	11	13	4	2	1	0	0	2	1	7	3	3	2	1	2	0	3	1	2	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:143614773C>T	uc003ywm.2	+	24	3699	c.3516C>T	c.(3514-3516)TTC>TTT	p.F1172F		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1172	Helical; Name=7; (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					TCGCTGTCTTCGACTCGCTGG	0.672													8	22					0	0	1	0	0		T	143614773	T	T	143614773	2	4	89	1	0	0	0	0	0	0	0	1	1299	883	31	1		1	BAI1	8	143614773	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1169519	143614773	2749249	3492	57323											
GML	2765	broad.mit.edu	37	chr8	143921918	143921918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagccagtgccaccatgcGcgctcagtgtaagtatcatt	9	9	11	12	2	2	0	2	0	0	0	2	0	2	0	3	1	3	4	3	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:143921918G>A	uc003yxg.2	+	2	155	c.65G>A	c.(64-66)CGC>CAC	p.R22H		NM_002066	NP_002057	Q99445	GML_HUMAN	glycosylphosphatidylinositol anchored molecule	22					apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|negative regulation of cell proliferation	anchored to membrane|extrinsic to membrane|plasma membrane				central_nervous_system(2)	2	all_cancers(97;4.26e-11)|all_epithelial(106;1.85e-08)|Lung NSC(106;0.000274)|all_lung(105;0.000755)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					GCCACCATGCGCGCTCAGTGT	0.577													20	50					0	0	1	0	0		A	143921918	A	A	143921918	3	1	89	1	0	0	0	0	1	0	0	0	6507	1087	38	1	67	1	GML	8	143921918	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	307145	143921918	2442104	3493	57324											
CYP11B1	1584	broad.mit.edu	37	chr8	143958486	143958486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggacgtccagggtcaggCtcccccgggcgttctgcagc	4	7	15	15	3	2	0	1	0	1	0	4	1	4	1	3	4	2	4	3	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:143958486C>T	uc003yxi.2	-	3	555	c.548G>A	c.(547-549)AGC>AAC	p.S183N	CYP11B1_uc010mex.2_5'Flank|CYP11B1_uc003yxh.2_5'Flank|CYP11B1_uc003yxj.2_Missense_Mutation_p.S183N|CYP11B1_uc010mey.2_Missense_Mutation_p.S254N	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	183					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	CAGGGTCAGGCTCCCCCGGGC	0.632									Familial_Hyperaldosteronism_type_I				9	34					0	0	1	0	0		T	143958486	T	T	143958486	3	4	89	1	0	0	0	0	1	0	0	0	4148	797	28	2	991	2	CYP11B1	8	143958486	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	36568	143958486	2405536	3494	57325											
CYP11B1	1584	broad.mit.edu	37	chr8	143961148	143961148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctggggacccgggcggCtctcgtgcccagtgcctgtg	2	9	16	14	3	1	0	0	0	1	0	3	1	2	1	4	4	2	1	4	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:143961148C>T	uc003yxi.2	-	1	89	c.82G>A	c.(82-84)GCC>ACC	p.A28T	CYP11B1_uc003yxj.2_Missense_Mutation_p.A28T|CYP11B1_uc010mey.2_Missense_Mutation_p.A28T	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	28					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	ACCCGGGCGGCTCTCGTGCCC	0.652									Familial_Hyperaldosteronism_type_I				34	106					0	0	1	0	0		T	143961148	T	T	143961148	3	4	89	1	0	0	0	0	1	0	0	0	4148	797	28	2	1465	2	CYP11B1	8	143961148	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2662	143961148	2402874	3495	57326											
CYP11B2	1585	broad.mit.edu	37	chr8	143996630	143996630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcacatctgggttcagccGcaatcggttgaagcgccatt	9	9	11	12	3	2	1	1	1	1	0	3	1	2	1	2	2	3	4	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:143996630G>A	uc003yxk.1	-	3	430	c.427C>T	c.(427-429)CGG>TGG	p.R143W		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	143					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	GGGTTCAGCCGCAATCGGTTG	0.622									Familial_Hyperaldosteronism_type_I				13	17					0	0	1	0	0		A	143996630	A	A	143996630	3	1	89	1	0	0	0	0	1	0	0	0	4149	1086	38	1	1112	1	CYP11B2	8	143996630	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	35482	143996630	2367392	3496	57327											
CYP11B2	1585	broad.mit.edu	37	chr8	143999256	143999256	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcctttgccctgagtgccaTtccaatgctccctccaccct	5	12	6	18	0	0	1	0	1	0	0	3	1	3	1	7	0	4	1	7	0	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:143999256T>G	uc003yxk.1	-	1	4	c.1A>C	c.(1-3)ATG>CTG	p.M1L		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	1					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	CTGAGTGCCATTCCAATGCTC	0.602									Familial_Hyperaldosteronism_type_I				43	157					0	0	1	0	0		G	143999256	G	G	143999256	3	3	89	1	0	0	0	0	1	0	0	0	4149	1493	52	5	1546	5	CYP11B2	8	143999256	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2626	143999256	2364766	3497	57328											
LY6H	4062	broad.mit.edu	37	chr8	144240240	144240240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgctgggatcggtgattCggacactggcacacaccgtg	7	9	14	11	3	0	1	0	1	0	0	2	3	0	3	1	4	2	3	1	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:144240240C>T	uc011lka.1	-	3	333	c.167G>A	c.(166-168)CGA>CAA	p.R56Q	LY6H_uc011lkb.1_Missense_Mutation_p.R77Q|LY6H_uc003yxt.2_Missense_Mutation_p.R94Q|LY6H_uc011lkc.1_Missense_Mutation_p.R77Q	NM_002347	NP_002338	O94772	LY6H_HUMAN	lymphocyte antigen 6 complex, locus H isoform a	56	UPAR/Ly6.				nervous system development|organ morphogenesis	anchored to membrane|plasma membrane					0	all_cancers(97;6.49e-11)|all_epithelial(106;2.77e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					ATCGGTGATTCGGACACTGGC	0.602													36	75					0	0	1	0	0		T	144240240	T	T	144240240	3	4	89	1	0	0	0	0	1	0	0	0	9115	884	31	1	263	1	LY6H	8	144240240	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	240984	144240240	2123782	3498	57329											
RHPN1	114822	broad.mit.edu	37	chr8	144461522	144461522	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagaacttctcccatgcGccgagcccagacatgagcgc	10	5	12	14	3	1	3	0	1	1	2	2	5	1	3	3	1	4	0	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:144461522G>A	uc003yyb.2	+	8	922	c.789G>A	c.(787-789)GCG>GCA	p.A263A		NM_052924	NP_443156	Q8TCX5	RHPN1_HUMAN	rhophilin 1	263	BRO1.				signal transduction	intracellular				large_intestine(1)	1	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.156)			TCTCCCATGCGCCGAGCCCAG	0.652													11	10					0	0	1	0	0		A	144461522	A	A	144461522	2	1	89	1	0	0	0	0	0	0	0	1	13375	1074	38	1		1	RHPN1	8	144461522	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	221282	144461522	1902500	3499	57330											
C8orf73	642475	broad.mit.edu	37	chr8	144651955	144651955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccctgccaggtgaggagtCgctccaggatgacctcctcc	6	8	11	16	1	0	2	0	2	0	0	5	4	4	4	6	3	1	1	6	3	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:144651955C>T	uc010mff.2	-	8	1258	c.1214G>A	c.(1213-1215)CGA>CAA	p.R405Q	C8orf73_uc010mfg.1_Silent_p.A417A	NM_001100878	NP_001094348	A6NGR9	CH073_HUMAN	hypothetical protein LOC642475	405	Leu-rich.						binding			ovary(1)	1	all_cancers(97;6.49e-11)|all_epithelial(106;4.73e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.014)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GGTGAGGAGTCGCTCCAGGAT	0.692													7	13					0	0	1	0	0		T	144651955	T	T	144651955	3	4	89	1	0	0	0	0	1	0	0	0	2438	884	31	1	973	1	C8orf73	8	144651955	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	190433	144651955	1712067	3500	57331											
PYCRL	65263	broad.mit.edu	37	chr8	144690248	144690248	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacttgaaagtgacataggTtcctgtctgttggtgcactg	8	14	11	8	0	2	2	1	2	1	0	3	2	3	2	1	2	1	3	1	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:144690248T>C	uc003yyy.2	-	2	186	c.176A>G	c.(175-177)AAC>AGC	p.N59S	PYCRL_uc011lkm.1_Missense_Mutation_p.N59S|PYCRL_uc011lkn.1_RNA	NM_023078	NP_075566	Q53H96	P5CR3_HUMAN	pyrroline-5-carboxylate reductase-like	47					proline biosynthetic process		pyrroline-5-carboxylate reductase activity				0	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.17e-38)|Epithelial(56;7.17e-37)|all cancers(56;2.46e-32)|Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			GTGACATAGGTTCCTGTCTGT	0.512													19	39					0	0	1	0	0		C	144690248	C	C	144690248	3	2	89	1	0	0	0	0	1	0	0	0	12882	1725	60	3	704	3	PYCRL	8	144690248	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	38293	144690248	1673774	3501	57332											
EPPK1	83481	broad.mit.edu	37	chr8	144940819	144940819	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcgtcgtgctccgtcccgtTtccaggtcctggagcatttc	3	13	11	14	4	0	0	0	0	0	0	6	1	4	1	4	2	3	3	4	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:144940819T>C	uc003zaa.1	-	1	6616	c.6603A>G	c.(6601-6603)GAA>GAG	p.E2201E		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	2201						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TCCGTCCCGTTTCCAGGTCCT	0.592													83	139					0	0	1	0	0		C	144940819	C	C	144940819	2	2	89	1	0	0	0	0	0	0	0	1	5198	1838	64	3		3	EPPK1	8	144940819	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	250571	144940819	1423203	3502	57333											
HEATR7A	727957	broad.mit.edu	37	chr8	145223230	145223230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgctggacgccatcaccGataaggaccccctggtgcag	8	6	11	16	2	1	0	1	0	0	0	1	3	1	2	5	3	2	2	5	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr8:145223230G>A	uc003zbk.3	+	4	292	c.55G>A	c.(55-57)GAT>AAT	p.D19N	HEATR7A_uc003zbg.2_Missense_Mutation_p.D19N|HEATR7A_uc003zbh.3_Missense_Mutation_p.D19N|HEATR7A_uc003zbi.3_Missense_Mutation_p.D19N|HEATR7A_uc011lla.1_Missense_Mutation_p.D19N|HEATR7A_uc010mft.2_Missense_Mutation_p.D19N	NM_032450	NP_115826	Q8NDA8	HTR7A_HUMAN	HEAT repeat containing 7A isoform 1	19	HEAT 1.						binding				0						CGCCATCACCGATAAGGACCC	0.667													8	17					0	0	1	0	0		A	145223230	A	A	145223230	3	1	89	1	0	0	0	0	1	0	0	0	7050	1058	37	1	61	1	HEATR7A	8	145223230	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	282411	145223230	1140792	3503	57334											
C9orf66	157983	broad.mit.edu	37	chr9	214896	214896	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgcgcttggctgggcatgTtccgcggctactctgcggcg	2	12	15	12	5	1	0	0	0	1	0	2	0	2	0	1	4	3	5	1	4	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:214896T>G	uc003zge.3	-	1	998	c.501A>C	c.(499-501)GAA>GAC	p.E167D	DOCK8_uc011lls.1_5'UTR|DOCK8_uc003zgf.2_5'UTR	NM_152569	NP_689782	Q5T8R8	CI066_HUMAN	hypothetical protein LOC157983	167										central_nervous_system(1)	1	all_lung(41;0.218)	all_cancers(5;2.09e-12)|all_epithelial(5;6.16e-09)|all_lung(10;1.15e-08)|Lung NSC(10;1.91e-08)|Acute lymphoblastic leukemia(5;0.00457)|all_hematologic(5;0.0332)|Breast(48;0.0646)|Prostate(43;0.137)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCTGGGCATGTTCCGCGGCTA	0.687													6	14					0	0	1	0	0		G	214896	G	G	214896	3	3	89	1	0	0	0	0	1	0	0	0	2493	1722	60	5	390	5	C9orf66	9	214896	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08		214896	140998535	3504	57335											
DOCK8	81704	broad.mit.edu	37	chr9	336642	336642	+	Missense_Mutation	SNP	C	T	T																															tagaaggctttctgaaagagCcctctccttggaggaaaatg																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:336642C>T	uc003zgf.2	+	12	1458	c.1346C>T	c.(1345-1347)GCC>GTC	p.A449V	DOCK8_uc011lls.1_Missense_Mutation_p.A449V|DOCK8_uc010mgu.2_5'UTR|DOCK8_uc010mgv.2_Missense_Mutation_p.A381V|DOCK8_uc003zgg.2_Missense_Mutation_p.A381V|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	449	DHR-1.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		TCTGAAAGAGCCCTCTCCTTG	0.453													23	33					0	0	1	0	0		T	336642	T	T	336642	3	4	89	1	0	0	0	0	1	0	0	0	4699	739	26	2	1392	2	DOCK8	9	336642	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	121746	336642	140876789	3505	57336	106	2									
DOCK8	81704	broad.mit.edu	37	chr9	336644	336644	+	Missense_Mutation	SNP	C	A	A																															gaaggctttctgaaagagccCtctccttggaggaaaatggg																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:336644C>A	uc003zgf.2	+	12	1460	c.1348C>A	c.(1348-1350)CTC>ATC	p.L450I	DOCK8_uc011lls.1_Missense_Mutation_p.L450I|DOCK8_uc010mgu.2_5'UTR|DOCK8_uc010mgv.2_Missense_Mutation_p.L382I|DOCK8_uc003zgg.2_Missense_Mutation_p.L382I|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	450	DHR-1.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		TGAAAGAGCCCTCTCCTTGGA	0.453													24	34					6.44725e-10	6.96688e-10	1	1	0		A	336644	A	A	336644	3	1	89	1	0	0	0	0	1	0	0	0	4699	681	24	5	1394	5	DOCK8	9	336644	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2	336644	140876787	3506	57337	106	2									
KANK1	23189	broad.mit.edu	37	chr9	712098	712098	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagcgtgacagaggccatGcttggagtgatgactgaagc	10	8	15	8	1	1	5	1	4	0	1	1	6	1	6	1	2	3	1	1	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:712098G>T	uc003zgl.1	+	7	1981	c.1332G>T	c.(1330-1332)ATG>ATT	p.M444I	KANK1_uc003zgm.2_Missense_Mutation_p.M444I|KANK1_uc003zgn.1_Missense_Mutation_p.M444I|KANK1_uc003zgo.1_Missense_Mutation_p.M444I|KANK1_uc003zgp.1_Missense_Mutation_p.M444I|KANK1_uc003zgq.2_Missense_Mutation_p.M286I|KANK1_uc003zgr.1_Missense_Mutation_p.M286I|KANK1_uc003zgs.1_Missense_Mutation_p.M286I	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	444					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		CAGAGGCCATGCTTGGAGTGA	0.483													19	47					1.56452e-12	1.73502e-12	1	1	0		T	712098	T	T	712098	3	4	89	1	0	0	0	0	1	0	0	0	7992	1319	46	5	1338	5	KANK1	9	712098	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	375454	712098	140501333	3507	57338											
DMRT2	10655	broad.mit.edu	37	chr9	1053757	1053757	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgggaaacagaataatttCgagcgcaaagctgtgtacca	14	8	10	9	3	0	1	0	0	0	1	2	3	1	2	2	1	4	3	2	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:1053757C>T	uc003zha.2	+	3	761	c.561C>T	c.(559-561)TTC>TTT	p.F187F	DMRT2_uc003zgx.3_5'UTR|DMRT2_uc010mgz.2_5'UTR|DMRT2_uc003zgy.3_Silent_p.F31F|DMRT2_uc003zhb.3_Silent_p.F187F|DMRT2_uc011llt.1_Silent_p.F187F|DMRT2_uc011llu.1_Silent_p.F187F|DMRT2_uc011llv.1_Silent_p.F187F	NM_181872	NP_870987	Q9Y5R5	DMRT2_HUMAN	doublesex and mab-3 related transcription factor	187					male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0		all_lung(10;1.49e-09)|Lung NSC(10;1.86e-09)		Lung(218;0.0195)|GBM - Glioblastoma multiforme(50;0.0388)		AGAATAATTTCGAGCGCAAAG	0.448													32	58					0	0	1	0	0		T	1053757	T	T	1053757	2	4	89	1	0	0	0	0	0	0	0	1	4592	883	31	1		1	DMRT2	9	1053757	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	341659	1053757	140159674	3508	57339											
SMARCA2	6595	broad.mit.edu	37	chr9	2161877	2161877	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcagatgaacgctatcatCgatactgtgataaactacaa	17	9	7	8	2	1	3	1	2	0	1	2	4	1	3	0	0	5	2	0	0	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:2161877C>T	uc003zhc.2	+	28	4272	c.4173C>T	c.(4171-4173)ATC>ATT	p.I1391I	SMARCA2_uc003zhd.2_Silent_p.I1391I|SMARCA2_uc010mha.2_Silent_p.I1324I|SMARCA2_uc011llw.1_Silent_p.I95I|SMARCA2_uc003zhf.2_Silent_p.I55I|SMARCA2_uc011llx.1_Silent_p.I55I|SMARCA2_uc003zhe.2_Silent_p.I97I|SMARCA2_uc003zhg.2_Silent_p.I55I|SMARCA2_uc010mhb.2_Silent_p.I79I	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1391					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		ACGCTATCATCGATACTGTGA	0.488													19	34					0	0	1	0	0		T	2161877	T	T	2161877	2	4	89	1	0	0	0	0	0	0	0	1	14794	874	31	1		1	SMARCA2	9	2161877	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1108120	2161877	139051554	3509	57340											
RCL1	10171	broad.mit.edu	37	chr9	4793106	4793106	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcacatggcgactcaggcGcactccctcagctacgcagg	8	5	12	16	4	2	0	2	0	0	0	3	1	3	0	1	3	2	4	1	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:4793106G>A	uc003zis.2	+	1	273	c.15G>A	c.(13-15)GCG>GCA	p.A5A	RCL1_uc003zit.2_5'UTR|RCL1_uc010mhk.1_5'UTR	NM_005772	NP_005763	Q9Y2P8	RCL1_HUMAN	RNA terminal phosphate cyclase-like 1	5					ribosome biogenesis|RNA processing	nucleolus	RNA-3'-phosphate cyclase activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0206)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0244)		CGACTCAGGCGCACTCCCTCA	0.642													13	15					0	0	1	0	0		A	4793106	A	A	4793106	2	1	89	1	0	0	0	0	0	0	0	1	13203	1074	38	1		1	RCL1	9	4793106	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2631229	4793106	136420325	3510	57341											
JAK2	3717	broad.mit.edu	37	chr9	5022092	5022092	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaattctatgaagcaaatAgatccagttcttcaggtgta	13	12	8	8	0	3	2	1	1	2	1	4	2	4	2	2	1	1	3	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:5022092A>T	uc010mhm.2	+	2	218	c.105A>T	c.(103-105)ATA>ATT	p.I35I	JAK2_uc003ziw.2_Silent_p.I35I	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	35	Interaction with cytokine/interferon/growth hormone receptors (By similarity).				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		TGAAGCAAATAGATCCAGTTC	0.413		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				47	62					0	0	1	0	0		T	5022092	T	T	5022092	2	4	89	1	0	0	0	0	0	0	0	1	7954	410	15	5		5	JAK2	9	5022092	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	228986	5022092	136191339	3511	57342											
JAK2	3717	broad.mit.edu	37	chr9	5054708	5054708	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagaaacttgaaacttaagTatcttataaatctggaaact	17	12	5	7	0	2	2	0	1	2	1	2	3	2	3	1	1	3	1	1	1	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:5054708T>C	uc010mhm.2	+	6	873	c.760T>C	c.(760-762)TAT>CAT	p.Y254H	JAK2_uc003ziw.2_Missense_Mutation_p.Y254H	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	254	FERM.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		GAAACTTAAGTATCTTATAAA	0.388		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				37	76					0	0	1	0	0		C	5054708	C	C	5054708	3	2	89	1	0	0	0	0	1	0	0	0	7954	1638	57	3	778	3	JAK2	9	5054708	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	32616	5054708	136158723	3512	57343											
PDCD1LG2	80380	broad.mit.edu	37	chr9	5534983	5534983	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaagtgagggacgaaggAcagtaccaatgcataatcat	15	7	11	8	1	1	1	1	1	0	0	2	4	2	3	2	2	2	2	2	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:5534983A>G	uc003zjg.3	+	3	567	c.294A>G	c.(292-294)GGA>GGG	p.G98G	C9orf46_uc003zjd.2_Intron|PDCD1LG2_uc011lmc.1_Silent_p.G98G|PDCD1LG2_uc011lmd.1_Silent_p.G98G|PDCD1LG2_uc010mhp.1_Silent_p.G98G|PDCD1LG2_uc010mho.1_Silent_p.G98G	NM_025239	NP_079515	Q9BQ51	PD1L2_HUMAN	programmed cell death 1 ligand 2 precursor	98	Ig-like V-type.|Extracellular (Potential).				immune response|T cell costimulation	endomembrane system|extracellular region|integral to membrane|plasma membrane	receptor activity				0	all_hematologic(13;0.158)	Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000767)|Lung(218;0.112)		GGGACGAAGGACAGTACCAAT	0.517													20	42					0	0	1	0	0		G	5534983	G	G	5534983	2	3	89	1	0	0	0	0	0	0	0	1	11637	262	10	3		3	PDCD1LG2	9	5534983	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	480275	5534983	135678448	3513	57344											
KIAA1432	57589	broad.mit.edu	37	chr9	5689981	5689981	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaaatggatacatcttgtTttttcatattacatctacaa	13	16	5	7	0	3	0	1	0	2	0	3	1	3	1	0	2	3	2	0	2	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:5689981T>G	uc003zji.2	+	2	131	c.38T>G	c.(37-39)TTT>TGT	p.F13C	KIAA1432_uc003zjh.2_Missense_Mutation_p.F13C|KIAA1432_uc003zjl.3_Missense_Mutation_p.F13C	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	92	WD 1.					integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		TACATCTTGTTTTTTCATATT	0.299													29	66					0	0	1	0	0		G	5689981	G	G	5689981	3	3	89	1	0	0	0	0	1	0	0	0	8249	1841	64	5	44	5	KIAA1432	9	5689981	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	154998	5689981	135523450	3514	57345											
KIAA1432	57589	broad.mit.edu	37	chr9	5763584	5763584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggcccagtcctgtgccAcattaccttacttccctcat	6	14	5	16	0	2	0	1	0	1	0	4	0	4	0	5	1	3	0	5	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:5763584A>G	uc003zji.2	+	18	2413	c.2320A>G	c.(2320-2322)ACA>GCA	p.T774A	KIAA1432_uc003zjh.2_Missense_Mutation_p.T774A|KIAA1432_uc003zjl.3_Missense_Mutation_p.T737A|KIAA1432_uc003zjj.1_Missense_Mutation_p.T316A	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	853						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		GTCCTGTGCCACATTACCTTA	0.537													36	72					0	0	1	0	0		G	5763584	G	G	5763584	3	3	89	1	0	0	0	0	1	0	0	0	8249	159	6	3	2390	3	KIAA1432	9	5763584	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	73603	5763584	135449847	3515	57346											
KIAA1432	57589	broad.mit.edu	37	chr9	5772625	5772625	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagctccatggtggatggCgactggacaatggtggatga	10	9	16	6	1	0	1	0	1	0	0	1	5	1	4	1	6	1	2	1	6	2	1	rs138589800		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:5772625C>T	uc003zji.2	+	23	3534	c.3441C>T	c.(3439-3441)GGC>GGT	p.G1147G	KIAA1432_uc003zjl.3_Silent_p.G1110G|ERMP1_uc011lme.1_Intron	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	1226						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		TGGTGGATGGCGACTGGACAA	0.448													46	55					0	0	1	0	0		T	5772625	T	T	5772625	2	4	89	1	0	0	0	0	0	0	0	1	8249	755	27	1		1	KIAA1432	9	5772625	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9041	5772625	135440806	3516	57347											
KIAA2026	158358	broad.mit.edu	37	chr9	5920617	5920617	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgttggcactgtagttgaAatccctggtgaatggaactg	9	14	12	6	0	0	2	0	2	0	0	1	3	1	3	1	3	1	4	1	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:5920617A>C	uc003zjq.3	-	8	5595	c.5379T>G	c.(5377-5379)ATT>ATG	p.I1793M	KIAA2026_uc010mht.2_Missense_Mutation_p.I968M	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	1793										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		CTGTAGTTGAAATCCCTGGTG	0.408													168	303					0	0	1	0	0		C	5920617	C	C	5920617	3	2	89	1	0	0	0	0	1	0	0	0	8286	10	1	5	936	5	KIAA2026	9	5920617	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	147992	5920617	135292814	3517	57348											
RANBP6	26953	broad.mit.edu	37	chr9	6015379	6015379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaacccagaggacaaaaGccgtcgtagcagtgcggcag	13	4	12	12	3	1	1	1	0	0	1	2	2	1	2	2	2	4	3	2	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:6015379G>A	uc003zjr.2	-	1	240	c.229C>T	c.(229-231)CTT>TTT	p.L77F	RANBP6_uc011lmf.1_Intron|RANBP6_uc003zjs.2_Intron	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	77					protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		GAGGACAAAAGCCGTCGTAGC	0.458													35	79					0	0	1	0	0		A	6015379	A	A	6015379	3	1	89	1	0	0	0	0	1	0	0	0	13056	971	34	2	3092	2	RANBP6	9	6015379	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	94762	6015379	135198052	3518	57349											
IL33	90865	broad.mit.edu	37	chr9	6252976	6252976	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatatgttgaagacttgaaaAaagatgaaaagaaaggtaga	21	9	10	1	0	0	7	0	3	0	4	0	7	0	7	0	1	0	2	0	1	10	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:6252976A>C	uc003zjt.2	+	5	511	c.454A>C	c.(454-456)AAA>CAA	p.K152Q	IL33_uc011lmg.1_Intron|IL33_uc011lmh.1_Intron|IL33_uc003zju.1_Missense_Mutation_p.K152Q	NM_033439	NP_254274	O95760	IL33_HUMAN	interleukin 33 precursor	152					positive regulation of chemokine secretion|positive regulation of inflammatory response|positive regulation of macrophage activation|positive regulation of transcription from RNA polymerase II promoter	extracellular space	cytokine activity				0		Acute lymphoblastic leukemia(23;0.158)|Prostate(43;0.167)		GBM - Glioblastoma multiforme(50;0.0161)|Lung(218;0.105)		AGACTTGAAAAAAGATGAAAA	0.249													13	33					0	0	1	0	0		C	6252976	C	C	6252976	3	2	89	1	0	0	0	0	1	0	0	0	7709	15	1	5	468	5	IL33	9	6252976	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	237597	6252976	134960455	3519	57350											
GLDC	2731	broad.mit.edu	37	chr9	6553497	6553497	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgattgggcaaaaacggggcGagatgtttcttcctgtattt	9	14	12	6	2	1	2	0	1	1	1	2	3	2	2	1	3	1	3	1	3	3	5	rs149600380	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:6553497G>A	uc003zkc.2	-	20	2521	c.2328C>T	c.(2326-2328)CTC>CTT	p.L776L		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	776					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	AAAACGGGGCGAGATGTTTCT	0.478													26	62					0	0	1	0	0		A	6553497	A	A	6553497	2	1	89	1	0	0	0	0	0	0	0	1	6448	1045	37	1		1	GLDC	9	6553497	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	300521	6553497	134659934	3520	57351											
GLDC	2731	broad.mit.edu	37	chr9	6595109	6595109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacatggcagccatattcGccaagagggcctaaaagata	16	6	9	10	1	0	2	0	0	0	2	1	2	0	2	3	2	2	1	3	2	6	4	rs121964979		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:6595109G>A	uc003zkc.2	-	9	1359	c.1166C>T	c.(1165-1167)GCG>GTG	p.A389V		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	389					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	AGCCATATTCGCCAAGAGGGC	0.433													64	90					0	0	1	0	0		A	6595109	A	A	6595109	3	1	89	1	0	0	0	0	1	0	0	0	6448	1087	38	1	1964	1	GLDC	9	6595109	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	41612	6595109	134618322	3521	57352											
PTPRD	5789	broad.mit.edu	37	chr9	8317890	8317890	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctacgttgcatagtggTcaaagctgcccaggtactct	8	13	10	10	1	3	0	1	0	2	0	3	0	3	0	1	2	5	5	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:8317890T>C	uc003zkk.2	-	45	6434	c.5723A>G	c.(5722-5724)GAC>GGC	p.D1908G	PTPRD_uc003zkp.2_Missense_Mutation_p.D1502G|PTPRD_uc003zkq.2_Missense_Mutation_p.D1501G|PTPRD_uc003zkr.2_Missense_Mutation_p.D1492G|PTPRD_uc003zks.2_Missense_Mutation_p.D1501G|PTPRD_uc003zkl.2_Missense_Mutation_p.D1899G|PTPRD_uc003zkm.2_Missense_Mutation_p.D1895G|PTPRD_uc003zkn.2_Missense_Mutation_p.D1497G|PTPRD_uc003zko.2_Missense_Mutation_p.D1498G	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1908	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TGCATAGTGGTCAAAGCTGCC	0.478										TSP Lung(15;0.13)			48	129					0	0	1	0	0		C	8317890	C	C	8317890	3	2	89	1	0	0	0	0	1	0	0	0	12824	1667	58	3	19	3	PTPRD	9	8317890	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1722781	8317890	132895541	3522	57353											
C9orf150	286343	broad.mit.edu	37	chr9	12821683	12821683	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacttggaccaattcagtgAcagctccctcatagaggact	12	9	9	11	0	2	3	2	1	0	2	3	5	3	5	2	2	1	1	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:12821683A>G	uc003zkw.2	+	2	1314	c.611A>G	c.(610-612)GAC>GGC	p.D204G		NM_203403	NP_981948	Q8IV03	CI150_HUMAN	hypothetical protein LOC286343	207											0				GBM - Glioblastoma multiforme(1;1.64e-13)		CAATTCAGTGACAGCTCCCTC	0.502													76	145					0	0	1	0	0		G	12821683	G	G	12821683	3	3	89	1	0	0	0	0	1	0	0	0	2465	275	10	3	617	3	C9orf150	9	12821683	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4503793	12821683	128391748	3523	57354											
MPDZ	8777	broad.mit.edu	37	chr9	13168391	13168391	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggccaatgagagaatgTcttctcaacatagctcgtgc	11	10	10	10	1	3	2	2	1	2	1	5	3	3	2	1	1	3	1	1	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:13168391T>G	uc010mia.1	-	21	3285	c.3228A>C	c.(3226-3228)AGA>AGC	p.R1076S	MPDZ_uc011lmm.1_5'Flank|MPDZ_uc003zkz.3_5'UTR|MPDZ_uc010mhy.2_Missense_Mutation_p.R1076S|MPDZ_uc010mhz.2_Missense_Mutation_p.R1076S|MPDZ_uc011lmn.1_Missense_Mutation_p.R1076S|MPDZ_uc003zlb.3_Missense_Mutation_p.R1076S	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1076	PDZ 6.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		TGAGAGAATGTCTTCTCAACA	0.413													72	195					0	0	1	0	0		G	13168391	G	G	13168391	3	3	89	1	0	0	0	0	1	0	0	0	9740	1664	58	5	2997	5	MPDZ	9	13168391	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	346708	13168391	128045040	3524	57355											
ZDHHC21	340481	broad.mit.edu	37	chr9	14619044	14619044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaccacaggatcttccaacGagtgccaaaaacttctgaga	15	7	8	11	1	2	1	0	1	2	1	3	5	3	2	3	1	4	0	3	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:14619044G>A	uc003zli.2	-	10	1188	c.718C>T	c.(718-720)CGT>TGT	p.R240C	ZDHHC21_uc003zlg.1_Intron	NM_178566	NP_848661	Q8IVQ6	ZDH21_HUMAN	zinc finger, DHHC-type containing 21	240					nitric oxide metabolic process|regulation of nitric-oxide synthase activity	Golgi membrane|integral to membrane	palmitoyltransferase activity|zinc ion binding				0				GBM - Glioblastoma multiforme(50;4.31e-06)		ATCTTCCAACGAGTGCCAAAA	0.502													26	40					0	0	1	0	0		A	14619044	A	A	14619044	3	1	89	1	0	0	0	0	1	0	0	0	17637	1045	37	1	75	1	ZDHHC21	9	14619044	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1450653	14619044	126594387	3525	57356											
FREM1	158326	broad.mit.edu	37	chr9	14737488	14737488	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgaaccaaaacacagctcTttccaagcttggagcgttga	12	11	8	10	1	1	2	0	2	1	0	2	3	2	3	2	1	5	3	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:14737488T>G	uc003zlm.2	-	37	7036	c.6446A>C	c.(6445-6447)AAG>ACG	p.K2149T	FREM1_uc010mic.2_RNA|FREM1_uc003zlk.2_RNA|FREM1_uc003zll.2_Missense_Mutation_p.K685T	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	2149	C-type lectin.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		AACACAGCTCTTTCCAAGCTT	0.468													14	14					0	0	1	0	0		G	14737488	G	G	14737488	3	3	89	1	0	0	0	0	1	0	0	0	6058	1609	56	5	97	5	FREM1	9	14737488	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	118444	14737488	126475943	3526	57357											
FREM1	158326	broad.mit.edu	37	chr9	14748531	14748531	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctttccagatgaaaggaAccagaagtggtggatgagga	13	9	13	6	0	1	4	0	2	1	2	2	7	2	7	2	4	1	0	2	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:14748531A>G	uc003zlm.2	-	31	6254	c.5664T>C	c.(5662-5664)GGT>GGC	p.G1888G	FREM1_uc010mic.2_RNA|FREM1_uc003zlk.2_Intron|FREM1_uc003zll.2_Silent_p.G424G	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1888					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GATGAAAGGAACCAGAAGTGG	0.512													57	182					0	0	1	0	0		G	14748531	G	G	14748531	2	3	89	1	0	0	0	0	0	0	0	1	6058	30	2	3		3	FREM1	9	14748531	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	11043	14748531	126464900	3527	57358											
FREM1	158326	broad.mit.edu	37	chr9	14851533	14851533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacttccagaataaacacggCcatgaatgcagcctttggaa	14	8	8	11	1	0	2	0	1	0	1	1	3	1	3	3	2	3	1	3	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:14851533C>T	uc003zlm.2	-	6	1491	c.901G>A	c.(901-903)GCC>ACC	p.A301T	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	301	CSPG 1.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		ATAAACACGGCCATGAATGCA	0.453													41	101					0	0	1	0	0		T	14851533	T	T	14851533	3	4	89	1	0	0	0	0	1	0	0	0	6058	739	26	2	5816	2	FREM1	9	14851533	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	103002	14851533	126361898	3528	57359											
TTC39B	158219	broad.mit.edu	37	chr9	15192692	15192692	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaggatagaaagacattCtctgggttgaagaaaaaaag	18	8	11	4	0	1	4	0	1	1	3	2	5	1	5	0	2	1	2	0	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:15192692C>A	uc003zlr.1	-	9	749	c.628G>T	c.(628-630)GAA>TAA	p.E210*	TTC39B_uc003zlq.1_Nonsense_Mutation_p.E179*|TTC39B_uc011lmp.1_Nonsense_Mutation_p.E111*|TTC39B_uc010mie.1_Nonsense_Mutation_p.E208*|TTC39B_uc011lmq.1_Nonsense_Mutation_p.E210*|TTC39B_uc011lmr.1_Nonsense_Mutation_p.E141*|TTC39B_uc010mif.1_Nonsense_Mutation_p.E210*|TTC39B_uc003zls.1_Nonsense_Mutation_p.E111*|TTC39B_uc010mig.1_Nonsense_Mutation_p.E179*|TTC39B_uc011lms.1_RNA	NM_152574	NP_689787	Q5VTQ0	TT39B_HUMAN	tetratricopeptide repeat domain 39B	210							binding			ovary(1)	1						GAAAGACATTCTCTGGGTTGA	0.348													28	52					4.87955e-14	5.4818e-14	1	1	0		A	15192692	A	A	15192692	4	1	89	1	0	0	0	0	0	1	0	0	16734	927	32	5	1291	5	TTC39B	9	15192692	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	341159	15192692	126020739	3529	57360											
C9orf93	203238	broad.mit.edu	37	chr9	15571628	15571628	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcattttaaaggttgaaGattgcctcattggatgtaaa	13	15	8	5	0	2	2	2	1	1	1	3	3	2	3	1	2	1	2	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:15571628G>T	uc003zmd.2	+	3	363	c.48G>T	c.(46-48)AAG>AAT	p.K16N	C9orf93_uc010mih.1_Missense_Mutation_p.K16N|C9orf93_uc003zme.2_5'UTR|C9orf93_uc011lmu.1_Missense_Mutation_p.K16N|C9orf93_uc003zmc.2_Missense_Mutation_p.K16N	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	16											0				GBM - Glioblastoma multiforme(50;4.84e-07)		AAAGGTTGAAGATTGCCTCAT	0.279													26	59					6.32553e-13	7.03772e-13	1	1	0		T	15571628	T	T	15571628	3	4	89	1	0	0	0	0	1	0	0	0	2509	933	33	5	54	5	C9orf93	9	15571628	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	378936	15571628	125641803	3530	57361											
C9orf93	203238	broad.mit.edu	37	chr9	15678796	15678796	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaaataagaaactaaatGaagacatcgaggaacagaag	23	4	8	6	1	0	4	0	1	0	3	1	6	0	5	1	1	2	0	1	1	9	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:15678796G>T	uc003zmd.2	+	10	1432	c.1117G>T	c.(1117-1119)GAA>TAA	p.E373*	C9orf93_uc010mih.1_Nonsense_Mutation_p.E373*|C9orf93_uc003zme.2_Nonsense_Mutation_p.E280*|C9orf93_uc011lmu.1_Nonsense_Mutation_p.E373*	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	373	Glu-rich.|Potential.										0				GBM - Glioblastoma multiforme(50;4.84e-07)		GAAACTAAATGAAGACATCGA	0.313													22	37					6.44725e-10	6.96688e-10	1	1	0		T	15678796	T	T	15678796	4	4	89	1	0	0	0	0	0	1	0	0	2509	1291	45	5	1151	5	C9orf93	9	15678796	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	107168	15678796	125534635	3531	57362											
C9orf93	203238	broad.mit.edu	37	chr9	15678883	15678883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttgcagtgaattacaggaaGaactagtaatggtaaggata	16	10	12	3	0	0	2	0	1	0	1	0	4	0	4	0	3	3	4	0	3	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:15678883G>A	uc003zmd.2	+	10	1519	c.1204G>A	c.(1204-1206)GAA>AAA	p.E402K	C9orf93_uc010mih.1_Missense_Mutation_p.E402K|C9orf93_uc003zme.2_Missense_Mutation_p.E309K|C9orf93_uc011lmu.1_Missense_Mutation_p.E402K	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	402											0				GBM - Glioblastoma multiforme(50;4.84e-07)		ATTACAGGAAGAACTAGTAAT	0.338													20	38					0	0	1	0	0		A	15678883	A	A	15678883	3	1	89	1	0	0	0	0	1	0	0	0	2509	943	33	4	1238	4	C9orf93	9	15678883	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	87	15678883	125534548	3532	57363											
C9orf93	203238	broad.mit.edu	37	chr9	15874610	15874610	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacccaaactgcacctggaGacctttgcaatggaggggct	10	8	11	12	0	0	1	0	0	0	1	0	3	0	2	3	4	4	3	3	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:15874610G>T	uc003zmd.2	+	24	3864	c.3549G>T	c.(3547-3549)GAG>GAT	p.E1183D	C9orf93_uc003zme.2_Missense_Mutation_p.E1098D|C9orf93_uc011lmu.1_Missense_Mutation_p.E1191D|C9orf93_uc003zmf.1_Missense_Mutation_p.E491D	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	1183											0				GBM - Glioblastoma multiforme(50;4.84e-07)		TGCACCTGGAGACCTTTGCAA	0.473													46	83					5.48756e-27	6.65592e-27	1	1	0		T	15874610	T	T	15874610	3	4	89	1	0	0	0	0	1	0	0	0	2509	933	33	5	3639	5	C9orf93	9	15874610	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	195727	15874610	125338821	3533	57364											
CNTLN	54875	broad.mit.edu	37	chr9	17462966	17462966	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatgtgaagactttgaaatTtgaactcctagcaaaagaag	18	10	8	5	0	0	5	0	3	0	2	1	5	1	5	1	0	2	1	1	0	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:17462966T>G	uc003zmz.2	+	20	3382	c.3356T>G	c.(3355-3357)TTT>TGT	p.F1119C	CNTLN_uc003zmy.2_Missense_Mutation_p.F1120C|CNTLN_uc010mio.2_Missense_Mutation_p.F799C	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	1120	Potential.					centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		ACTTTGAAATTTGAACTCCTA	0.318													31	54					0	0	1	0	0		G	17462966	G	G	17462966	3	3	89	1	0	0	0	0	1	0	0	0	3642	1841	64	5	3467	5	CNTLN	9	17462966	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1588356	17462966	123750465	3534	57365											
SH3GL2	6456	broad.mit.edu	37	chr9	17786463	17786463	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctatcctcaggcagaggCgctgctggcagaggccatgc	8	6	15	12	1	1	2	1	0	0	2	2	2	2	2	2	5	2	5	2	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:17786463C>T	uc003zna.2	+	4	560	c.272C>T	c.(271-273)GCG>GTG	p.A91V	SH3GL2_uc011lmx.1_Missense_Mutation_p.A56V|SH3GL2_uc011lmy.1_Missense_Mutation_p.A44V	NM_003026	NP_003017	Q99962	SH3G2_HUMAN	SH3-domain GRB2-like 2	91	BAR.|Binds and tubulates liposomes (By similarity).				axon guidance|central nervous system development|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	cytosol|Golgi membrane|plasma membrane	identical protein binding|lipid binding			skin(1)	1				GBM - Glioblastoma multiforme(50;2.71e-10)|Lung(42;0.203)		CAGGCAGAGGCGCTGCTGGCA	0.493													41	53					0	0	1	0	0		T	17786463	T	T	17786463	3	4	89	1	0	0	0	0	1	0	0	0	14276	768	27	1	286	1	SH3GL2	9	17786463	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	323497	17786463	123426968	3535	57366											
HAUS6	54801	broad.mit.edu	37	chr9	19058433	19058433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacttcttccgggagagtttCgtgtaatatgccaaaatcat	12	13	8	8	2	2	1	1	0	1	1	4	2	3	1	2	1	2	2	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:19058433C>T	uc003znk.2	-	16	2585	c.2332G>A	c.(2332-2334)GAA>AAA	p.E778K	HAUS6_uc011lmz.1_Missense_Mutation_p.E498K|HAUS6_uc003znl.1_Missense_Mutation_p.E642K	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	778					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						GGGAGAGTTTCGTGTAATATG	0.358													24	34					0	0	1	0	0		T	19058433	T	T	19058433	3	4	89	1	0	0	0	0	1	0	0	0	6986	893	31	1	543	1	HAUS6	9	19058433	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1271970	19058433	122154998	3536	57367											
PLIN2	123	broad.mit.edu	37	chr9	19116286	19116286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgctgggtctcctggctgCtcttgtccatctctgcacct	3	14	9	15	1	3	0	0	0	3	0	7	0	4	0	3	2	2	4	3	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:19116286C>T	uc003zno.2	-	8	1453	c.1274G>A	c.(1273-1275)AGC>AAC	p.S425N	PLIN2_uc011lna.1_Missense_Mutation_p.S397N	NM_001122	NP_001113	Q99541	PLIN2_HUMAN	adipose differentiation-related protein	425					cellular lipid metabolic process	endoplasmic reticulum|extracellular region|lipid particle				ovary(2)	2						CTCCTGGCTGCTCTTGTCCAT	0.498													35	71					0	0	1	0	0		T	19116286	T	T	19116286	3	4	89	1	0	0	0	0	1	0	0	0	12109	797	28	2	43	2	PLIN2	9	19116286	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	57853	19116286	122097145	3537	57368											
DENND4C	55667	broad.mit.edu	37	chr9	19331982	19331982	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattctctttctaggaaataAaaacagctcataaattggcg	15	13	6	7	1	3	0	1	0	2	0	4	1	3	1	0	2	2	1	0	2	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:19331982A>C	uc003znq.2	+	13	1585	c.1552A>C	c.(1552-1554)AAA>CAA	p.K518Q	DENND4C_uc011lnc.1_Intron	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	518						integral to membrane				ovary(1)|skin(1)	2						CTAGGAAATAAAAACAGCTCA	0.338													15	43					0	0	1	0	0		C	19331982	C	C	19331982	3	2	89	1	0	0	0	0	1	0	0	0	4441	15	1	5	1602	5	DENND4C	9	19331982	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	215696	19331982	121881449	3538	57369											
DENND4C	55667	broad.mit.edu	37	chr9	19371815	19371815	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggaagagagaatattgatAttggtaagttggttaataaa	17	13	11	0	0	0	3	0	1	0	2	0	5	0	4	0	3	0	3	0	3	9	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:19371815A>T	uc003znq.2	+	27	4915	c.4882A>T	c.(4882-4884)ATT>TTT	p.I1628F	DENND4C_uc011lnc.1_Missense_Mutation_p.I958F|DENND4C_uc011lnd.1_Missense_Mutation_p.I916F|DENND4C_uc003znr.2_3'UTR|DENND4C_uc003zns.2_Intron	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	1628						integral to membrane				ovary(1)|skin(1)	2						GAATATTGATATTGGTAAGTT	0.244													32	53					0	0	1	0	0		T	19371815	T	T	19371815	3	4	89	1	0	0	0	0	1	0	0	0	4441	449	16	5	4988	5	DENND4C	9	19371815	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	39833	19371815	121841616	3539	57370											
KIAA1797	54914	broad.mit.edu	37	chr9	20720434	20720434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtgacaatgtagtggttcGaacagcctgctgtgaaggtc	10	10	13	8	1	0	2	0	2	0	0	2	3	0	2	1	2	3	3	1	2	4	2	rs143009945		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:20720434G>A	uc003zog.1	+	6	551	c.188G>A	c.(187-189)CGA>CAA	p.R63Q		NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	63						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		GTAGTGGTTCGAACAGCCTGC	0.468													52	127					0	0	1	0	0		A	20720434	A	A	20720434	3	1	89	1	0	0	0	0	1	0	0	0	8274	1058	37	1	198	1	KIAA1797	9	20720434	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1348619	20720434	120492997	3540	57371											
KIAA1797	54914	broad.mit.edu	37	chr9	20758164	20758164	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtttttgcagcagctgacAgcgtttttccagcagtgccc	6	13	11	11	1	0	1	0	1	0	0	1	1	1	1	2	0	6	6	2	0	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:20758164A>C	uc003zog.1	+	8	831	c.468A>C	c.(466-468)ACA>ACC	p.T156T		NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	156						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		AGCAGCTGACAGCGTTTTTCC	0.403													15	21					0	0	1	0	0		C	20758164	C	C	20758164	2	2	89	1	0	0	0	0	0	0	0	1	8274	175	7	5		5	KIAA1797	9	20758164	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	37730	20758164	120455267	3541	57372											
KIAA1797	54914	broad.mit.edu	37	chr9	20770060	20770060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgatacagacaacagaggcGatgatgtttattgaggaagt	14	11	12	4	1	0	5	0	3	0	2	0	7	0	6	0	2	2	1	0	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:20770060G>A	uc003zog.1	+	10	1092	c.729G>A	c.(727-729)GCG>GCA	p.A243A		NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	243						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		CAACAGAGGCGATGATGTTTA	0.328													56	83					0	0	1	0	0		A	20770060	A	A	20770060	2	1	89	1	0	0	0	0	0	0	0	1	8274	1045	37	1		1	KIAA1797	9	20770060	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11896	20770060	120443371	3542	57373											
KIAA1797	54914	broad.mit.edu	37	chr9	20907233	20907233	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatcgagcttatcatgccAttttacaggtaatgaaacca	14	12	7	8	1	1	2	1	2	0	0	2	3	1	2	2	1	4	2	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:20907233A>C	uc003zog.1	+	24	3073	c.2710A>C	c.(2710-2712)ATT>CTT	p.I904L	KIAA1797_uc003zoh.1_Missense_Mutation_p.I340L	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	904						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		TTATCATGCCATTTTACAGGT	0.338													9	153					0	0	1	0	0		C	20907233	C	C	20907233	3	2	89	1	0	0	0	0	1	0	0	0	8274	217	8	5	2792	5	KIAA1797	9	20907233	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	137173	20907233	120306198	3543	57374											
IFNA10	3446	broad.mit.edu	37	chr9	21206631	21206631	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagggctgtatttcctctCtattagataaagagtgattc	12	14	8	7	0	1	3	0	1	1	2	4	3	2	3	1	1	0	2	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:21206631C>A	uc003zoq.1	-	1	512	c.466G>T	c.(466-468)GAG>TAG	p.E156*	IFNA14_uc003zoo.1_Intron	NM_002171	NP_002162	P01566	IFN10_HUMAN	interferon, alpha 10 precursor	156					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.17)		TATTTCCTCTCTATTAGATAA	0.448													163	329					3.02213e-73	3.77341e-73	1	1	0		A	21206631	A	A	21206631	4	1	89	1	0	0	0	0	0	1	0	0	7548	922	32	5	107	5	IFNA10	9	21206631	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	299398	21206631	120006800	3544	57375											
IFNA16	3449	broad.mit.edu	37	chr9	21217072	21217072	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcatctcatggaaggcaGagatggcttgagccttctgg	9	10	14	8	0	3	2	2	1	2	1	4	5	3	4	1	5	1	2	1	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:21217072G>T	uc003zor.1	-	1	239	c.233C>A	c.(232-234)TCT>TAT	p.S78Y	IFNA14_uc003zoo.1_Intron	NM_002173	NP_002164	P05015	IFN16_HUMAN	interferon, alpha 16 precursor	78					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			skin(1)	1				Lung(24;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		ATGGAAGGCAGAGATGGCTTG	0.473													71	146					3.94839e-29	4.8097e-29	1	1	0		T	21217072	T	T	21217072	3	4	89	1	0	0	0	0	1	0	0	0	7551	942	33	5	340	5	IFNA16	9	21217072	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	10441	21217072	119996359	3545	57376											
KLHL9	55958	broad.mit.edu	37	chr9	21333694	21333694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcaagtgaaagaatgtgcGcttttcatttaatgatgcaa	14	13	8	6	1	2	3	2	2	0	1	2	3	2	3	0	0	2	2	0	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:21333694G>A	uc003zoy.2	-	1	1736	c.1165C>T	c.(1165-1167)CGC>TGC	p.R389C	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	389	Kelch 2.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		AAGAATGTGCGCTTTTCATTT	0.413													27	51					0	0	1	0	0		A	21333694	A	A	21333694	3	1	89	1	0	0	0	0	1	0	0	0	8412	1087	38	1	692	1	KLHL9	9	21333694	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	116622	21333694	119879737	3546	57377											
KLHL9	55958	broad.mit.edu	37	chr9	21334480	21334480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtaaaaagctagcagcttCaagtgtgtcctgaagattgt	12	13	10	6	0	1	2	1	1	0	1	2	2	2	2	1	0	3	4	1	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:21334480C>T	uc003zoy.2	-	1	950	c.379G>A	c.(379-381)GAA>AAA	p.E127K	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	127					cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		CTAGCAGCTTCAAGTGTGTCC	0.348													40	98					0	0	1	0	0		T	21334480	T	T	21334480	3	4	89	1	0	0	0	0	1	0	0	0	8412	835	29	4	1478	4	KLHL9	9	21334480	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	786	21334480	119878951	3547	57378											
IFNA2	3440	broad.mit.edu	37	chr9	21385197	21385197	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaaagagagattctcctCatctgtgccaggagcatcaa	14	8	10	9	0	4	3	2	0	2	3	5	6	4	4	2	1	2	1	2	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:21385197C>A	uc003zpb.2	-	1	200	c.132G>T	c.(130-132)ATG>ATT	p.M44I		NM_000605	NP_000596	P01563	IFNA2_HUMAN	interferon, alpha 2 precursor	44					blood coagulation|cell-cell signaling|induction of apoptosis|inflammatory response|negative regulation of interleukin-13 secretion|negative regulation of interleukin-5 secretion|negative regulation of T cell differentiation|negative regulation of T-helper 2 cell cytokine production|negative regulation of transcription, DNA-dependent|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			breast(1)	1				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.0173)	Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	AGATTCTCCTCATCTGTGCCA	0.532													50	137					2.46787e-29	3.00845e-29	1	1	0		A	21385197	A	A	21385197	3	1	89	1	0	0	0	0	1	0	0	0	7553	826	29	5	438	5	IFNA2	9	21385197	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	50717	21385197	119828234	3548	57379											
IFT74	80173	broad.mit.edu	37	chr9	27048155	27048155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaaatgcagaatataaatCgtatagaacagatatcctct	17	11	6	7	1	1	3	0	0	1	3	3	3	2	3	1	0	3	3	1	0	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:27048155C>T	uc010mja.2	+	16	1343	c.1216C>T	c.(1216-1218)CGT>TGT	p.R406C	IFT74_uc010mjb.2_Missense_Mutation_p.R406C|IFT74_uc003zqg.3_Missense_Mutation_p.R406C	NM_001099223	NP_001092693	Q96LB3	IFT74_HUMAN	coiled-coil domain containing 2 isoform a	406	Potential.					cytoplasmic membrane-bounded vesicle|intraflagellar transport particle B|microtubule-based flagellum				skin(1)	1		all_neural(11;2.36e-10)		Lung(218;1.4e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)		GAATATAAATCGTATAGAACA	0.328													23	44					0	0	1	0	0		T	27048155	T	T	27048155	3	4	89	1	0	0	0	0	1	0	0	0	7579	884	31	1	1343	1	IFT74	9	27048155	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5662958	27048155	114165276	3549	57380											
TEK	7010	broad.mit.edu	37	chr9	27202837	27202837	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcttcctcctcaaccagaAaacatcaagatttccaacat	14	11	3	13	0	3	2	2	0	1	2	6	2	6	2	4	0	3	1	4	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:27202837A>C	uc003zqi.3	+	13	2371	c.1929A>C	c.(1927-1929)GAA>GAC	p.E643D	TEK_uc011lno.1_Missense_Mutation_p.E600D|TEK_uc011lnp.1_Missense_Mutation_p.E496D|TEK_uc003zqj.1_Missense_Mutation_p.E577D	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	643	Extracellular (Potential).|Fibronectin type-III 3.				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		CTCAACCAGAAAACATCAAGA	0.343													39	73					0	0	1	0	0		C	27202837	C	C	27202837	3	2	89	1	0	0	0	0	1	0	0	0	15776	11	1	5	1979	5	TEK	9	27202837	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	154682	27202837	114010594	3550	57381											
LINGO2	158038	broad.mit.edu	37	chr9	27949023	27949023	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accactcccaggaatgtgaaGcagcccatagctgtagacac	13	6	9	13	0	0	2	0	1	0	1	1	3	1	3	3	1	3	3	3	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:27949023G>T	uc003zqu.1	-	2	1841	c.1647C>A	c.(1645-1647)TGC>TGA	p.C549*	LINGO2_uc010mjf.1_Nonsense_Mutation_p.C549*|LINGO2_uc003zqv.1_Nonsense_Mutation_p.C549*	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	549	Helical; (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		GGAATGTGAAGCAGCCCATAG	0.443													29	86					2.24059e-21	2.65706e-21	1	1	0		T	27949023	T	T	27949023	4	4	89	1	0	0	0	0	0	1	0	0	8832	963	34	5	177	5	LINGO2	9	27949023	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	746186	27949023	113264408	3551	57382											
LINGO2	158038	broad.mit.edu	37	chr9	27949138	27949138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtacataggggtcctgttcGcataaagaaaacgatctgaa	14	10	10	7	2	1	2	0	1	1	1	3	3	2	2	1	2	2	3	1	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:27949138G>A	uc003zqu.1	-	2	1726	c.1532C>T	c.(1531-1533)GCG>GTG	p.A511V	LINGO2_uc010mjf.1_Missense_Mutation_p.A511V|LINGO2_uc003zqv.1_Missense_Mutation_p.A511V	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	511	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		GGTCCTGTTCGCATAAAGAAA	0.453													48	104					0	0	1	0	0		A	27949138	A	A	27949138	3	1	89	1	0	0	0	0	1	0	0	0	8832	1087	38	1	292	1	LINGO2	9	27949138	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	115	27949138	113264293	3552	57383											
TAF1L	138474	broad.mit.edu	37	chr9	32630386	32630386	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggggctggaggcttaggtTtcccatcctcctcctcatca	5	12	10	14	0	2	0	2	0	0	0	6	1	6	1	4	5	0	3	4	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:32630386T>C	uc003zrg.1	-	1	5282	c.5192A>G	c.(5191-5193)AAA>AGA	p.K1731R		NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1731					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		AGGCTTAGGTTTCCCATCCTC	0.517													73	136					0	0	1	0	0		C	32630386	C	C	32630386	3	2	89	1	0	0	0	0	1	0	0	0	15548	1841	64	3	292	3	TAF1L	9	32630386	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4681248	32630386	108583045	3553	57384											
TAF1L	138474	broad.mit.edu	37	chr9	32630947	32630947	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtgatgaaatggccaaGaatctggaactgccatcatt	12	10	11	8	0	2	3	1	2	1	1	2	4	2	4	2	3	2	0	2	3	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:32630947G>T	uc003zrg.1	-	1	4721	c.4631C>A	c.(4630-4632)TCT>TAT	p.S1544Y	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1544	Bromo 2.				male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		AAATGGCCAAGAATCTGGAAC	0.398													35	88					3.11337e-16	3.5706e-16	1	1	0		T	32630947	T	T	32630947	3	4	89	1	0	0	0	0	1	0	0	0	15548	942	33	5	853	5	TAF1L	9	32630947	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	561	32630947	108582484	3554	57385											
TAF1L	138474	broad.mit.edu	37	chr9	32632206	32632206	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgttctgcaacatgttCtcaatgttctttcccatttc	6	20	4	11	0	4	0	1	0	4	0	7	0	5	0	1	0	2	4	1	0	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:32632206C>A	uc003zrg.1	-	1	3462	c.3372G>T	c.(3370-3372)GAG>GAT	p.E1124D	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1124					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		GCAACATGTTCTCAATGTTCT	0.468													18	53					4.96729e-08	5.24652e-08	1	1	0		A	32632206	A	A	32632206	3	1	89	1	0	0	0	0	1	0	0	0	15548	912	32	5	2112	5	TAF1L	9	32632206	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1259	32632206	108581225	3555	57386											
TAF1L	138474	broad.mit.edu	37	chr9	32633110	32633110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaaaacctgtagaaagtctCgaatatgcatattggccctt	14	12	7	8	1	1	1	0	0	1	1	2	2	1	1	2	1	2	2	2	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:32633110C>T	uc003zrg.1	-	1	2558	c.2468G>A	c.(2467-2469)CGA>CAA	p.R823Q	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	823					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TAGAAAGTCTCGAATATGCAT	0.423													57	89					0	0	1	0	0		T	32633110	T	T	32633110	3	4	89	1	0	0	0	0	1	0	0	0	15548	884	31	1	3016	1	TAF1L	9	32633110	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	904	32633110	108580321	3556	57387											
NOL6	65083	broad.mit.edu	37	chr9	33472254	33472254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatctcagtctcccgaaggcGattaagctcctcattggtag	9	11	10	11	2	3	0	2	0	2	0	6	3	4	0	2	2	1	2	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:33472254G>A	uc003zsz.2	-	2	312	c.211C>T	c.(211-213)CGC>TGC	p.R71C	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zta.2_Missense_Mutation_p.R71C|NOL6_uc010mjv.2_Missense_Mutation_p.R71C|NOL6_uc011lob.1_Missense_Mutation_p.R71C|NOL6_uc003ztb.1_Missense_Mutation_p.R71C	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	71					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		TCCCGAAGGCGATTAAGCTCC	0.537													32	48					0	0	1	0	0		A	33472254	A	A	33472254	3	1	89	1	0	0	0	0	1	0	0	0	10544	1058	37	1	3329	1	NOL6	9	33472254	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	839144	33472254	107741177	3557	57388											
UBAP2	55833	broad.mit.edu	37	chr9	33953403	33953403	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagccctgctgttgggaagtTtcaaaggagttggcttctga	9	12	13	7	0	2	1	1	1	1	0	2	3	2	3	1	3	2	5	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:33953403T>G	uc003ztq.1	-	12	1049	c.936A>C	c.(934-936)GAA>GAC	p.E312D	UBAP2_uc011loc.1_Missense_Mutation_p.E221D|UBAP2_uc011lod.1_Missense_Mutation_p.E45D|UBAP2_uc011loe.1_Missense_Mutation_p.E67D|UBAP2_uc011lof.1_Missense_Mutation_p.E237D|UBAP2_uc011log.1_Missense_Mutation_p.E258D|UBAP2_uc003ztr.2_Missense_Mutation_p.E184D|SNORD121A_uc010mjz.2_5'Flank	NM_018449	NP_060919	Q5T6F2	UBAP2_HUMAN	ubiquitin associated protein 2	312										ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)		GTTGGGAAGTTTCAAAGGAGT	0.507													28	39					0	0	1	0	0		G	33953403	G	G	33953403	3	3	89	1	0	0	0	0	1	0	0	0	16863	1838	64	5	2495	5	UBAP2	9	33953403	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	481149	33953403	107260028	3558	57389											
DCAF12	25853	broad.mit.edu	37	chr9	34107458	34107458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttctagaaggattcagctCgatggcatggataccacagc	11	10	11	9	1	2	1	1	0	1	1	3	4	2	3	1	3	3	3	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:34107458C>T	uc003ztt.2	-	3	781	c.439G>A	c.(439-441)GAG>AAG	p.E147K		NM_015397	NP_056212	Q5T6F0	DCA12_HUMAN	DDB1 and CUL4 associated factor 12	147	WD 1.					centrosome|CUL4 RING ubiquitin ligase complex					0						GGATTCAGCTCGATGGCATGG	0.537													31	71					0	0	1	0	0		T	34107458	T	T	34107458	3	4	89	1	0	0	0	0	1	0	0	0	4266	893	31	1	950	1	DCAF12	9	34107458	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	154055	34107458	107105973	3559	57390											
NUDT2	318	broad.mit.edu	37	chr9	34339065	34339065	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagagcatgtggcttgatcAtcttccgaagatgcctcatt	9	13	10	9	1	3	3	2	2	1	2	4	5	4	3	2	1	2	2	2	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:34339065A>C	uc003zub.2	+	4	386	c.28A>C	c.(28-30)ATC>CTC	p.I10L	NUDT2_uc003zuc.2_Missense_Mutation_p.I10L|NUDT2_uc003zud.2_Missense_Mutation_p.I10L	NM_001161	NP_001152	P50583	AP4A_HUMAN	nudix-type motif 2	10	Nudix hydrolase.				induction of apoptosis|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) activity|bis(5'-nucleosyl)-tetraphosphatase (symmetrical) activity|GTP binding				0			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		TGGCTTGATCATCTTCCGAAG	0.433													31	74					0	0	1	0	0		C	34339065	C	C	34339065	3	2	89	1	0	0	0	0	1	0	0	0	10756	217	8	5	30	5	NUDT2	9	34339065	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	231607	34339065	106874366	3560	57391											
CCL27	10850	broad.mit.edu	37	chr9	34662389	34662389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtagagctgagtacagcagGcagtgctgggtggcagtagg	9	7	19	6	0	0	2	0	1	0	1	0	2	0	2	0	5	4	8	0	5	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:34662389G>A	uc003zvm.1	-	2	154	c.95C>T	c.(94-96)GCC>GTC	p.A32V		NM_006664	NP_006655	Q9Y4X3	CCL27_HUMAN	small inducible cytokine A27 precursor	32					cell-cell signaling|chemotaxis|immune response	extracellular space	chemokine activity				0	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.173)		AGTACAGCAGGCAGTGCTGGG	0.572													19	31					0	0	1	0	0		A	34662389	A	A	34662389	3	1	89	1	0	0	0	0	1	0	0	0	2902	1203	42	2	251	2	CCL27	9	34662389	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	323324	34662389	106551042	3561	57392											
CCL19	6363	broad.mit.edu	37	chr9	34689961	34689961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgcagtctctggatgatgCgttctacccagggctggtct	5	13	12	11	1	4	1	0	1	4	0	5	2	4	2	1	3	3	3	1	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:34689961C>T	uc003zvn.2	-	3	380	c.242G>A	c.(241-243)CGC>CAC	p.R81H	CCL19_uc010mkf.2_Intron	NM_006274	NP_006265	Q99731	CCL19_HUMAN	small inducible cytokine A19 precursor	81					activation of JUN kinase activity|cell communication|cell maturation|establishment of T cell polarity|immune response|immunological synapse formation|inflammatory response|interleukin-12 secretion|myeloid dendritic cell chemotaxis|negative regulation of leukocyte apoptosis|positive regulation of Cdc42 GTPase activity|positive regulation of dendritic cell antigen processing and presentation|positive regulation of ERK1 and ERK2 cascade|positive regulation of glycoprotein biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of neutrophil chemotaxis|positive regulation of NF-kappaB import into nucleus|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of protein kinase B signaling cascade|positive regulation of receptor-mediated endocytosis|positive regulation of T cell proliferation|positive regulation of T-helper 1 cell differentiation|positive regulation of tumor necrosis factor production|regulation of cell projection assembly|release of sequestered calcium ion into cytosol|response to nitric oxide|response to prostaglandin E stimulus|response to virus|T cell costimulation	extracellular space	CCR10 chemokine receptor binding|CCR7 chemokine receptor binding|chemokine activity				0	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.173)		CTGGATGATGCGTTCTACCCA	0.627													20	44					0	0	1	0	0		T	34689961	T	T	34689961	3	4	89	1	0	0	0	0	1	0	0	0	2893	768	27	1	62	1	CCL19	9	34689961	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27572	34689961	106523470	3562	57393											
C9orf131	138724	broad.mit.edu	37	chr9	35044662	35044662	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcagtggagcaaagaaagaAccactgggccactgagctcc	13	4	13	11	0	0	3	0	1	0	2	1	4	1	4	3	3	3	3	3	3	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:35044662A>G	uc003zvw.2	+	2	2065	c.2036A>G	c.(2035-2037)AAC>AGC	p.N679S	C9orf131_uc003zvu.2_Missense_Mutation_p.N631S|C9orf131_uc003zvv.2_Missense_Mutation_p.N606S|C9orf131_uc003zvx.2_Missense_Mutation_p.N644S	NM_203299	NP_976044	Q5VYM1	CI131_HUMAN	hypothetical protein LOC138724 isoform A	679											0	all_epithelial(49;0.22)		LUSC - Lung squamous cell carcinoma(32;0.00117)|Lung(28;0.00309)			CAAAGAAAGAACCACTGGGCC	0.517													24	48					0	0	1	0	0		G	35044662	G	G	35044662	3	3	89	1	0	0	0	0	1	0	0	0	2460	43	2	3	2058	3	C9orf131	9	35044662	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	354701	35044662	106168769	3563	57394											
PIGO	84720	broad.mit.edu	37	chr9	35094318	35094318	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagcaccagggaaaaggtCtttccaggtatcatctccca	13	8	9	11	0	3	0	1	0	2	0	5	2	4	1	3	3	1	2	3	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:35094318C>A	uc003zwd.2	-	3	946	c.550G>T	c.(550-552)GAC>TAC	p.D184Y	PIGO_uc003zwc.1_Missense_Mutation_p.D184Y|PIGO_uc003zwe.2_Missense_Mutation_p.D184Y|PIGO_uc003zwf.2_Missense_Mutation_p.D184Y|PIGO_uc003zwg.1_5'UTR	NM_032634	NP_116023	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	184					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	transferase activity			large_intestine(1)|ovary(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GGGAAAAGGTCTTTCCAGGTA	0.493													18	42					3.99206e-14	4.49031e-14	1	1	0		A	35094318	A	A	35094318	3	1	89	1	0	0	0	0	1	0	0	0	11913	913	32	5	2755	5	PIGO	9	35094318	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	49656	35094318	106119113	3564	57395											
PIGO	84720	broad.mit.edu	37	chr9	35095206	35095206	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaacctgagatcggtagagCcgggcatggtggggctgaat	9	8	16	8	2	1	3	1	2	0	2	2	4	1	3	2	5	2	3	2	5	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:35095206C>T	uc003zwd.2	-	2	753	c.357G>A	c.(355-357)CGG>CGA	p.R119R	PIGO_uc003zwc.1_Silent_p.R119R|PIGO_uc003zwe.2_Silent_p.R119R|PIGO_uc003zwf.2_Silent_p.R119R|PIGO_uc003zwg.1_5'UTR	NM_032634	NP_116023	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	119					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	transferase activity			large_intestine(1)|ovary(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			ATCGGTAGAGCCGGGCATGGT	0.567													46	87					0	0	1	0	0		T	35095206	T	T	35095206	2	4	89	1	0	0	0	0	0	0	0	1	11913	726	26	2		2	PIGO	9	35095206	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	888	35095206	106118225	3565	57396											
KIAA1539	80256	broad.mit.edu	37	chr9	35108146	35108146	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtagaccccgggggatgtCgccccccctgctgggctgta	4	8	15	14	2	0	1	0	0	0	1	1	2	0	2	5	4	1	4	5	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:35108146C>T	uc003zwl.2	-	3	451	c.126G>A	c.(124-126)GCG>GCA	p.A42A	KIAA1539_uc003zwm.2_Silent_p.A42A|KIAA1539_uc003zwn.2_5'UTR|KIAA1539_uc003zwo.2_Silent_p.A42A|KIAA1539_uc003zwp.1_Silent_p.A42A|KIAA1539_uc010mkk.1_RNA	NM_025182	NP_079458	Q7L5A3	K1539_HUMAN	hypothetical protein LOC80256	42						nucleus				ovary(2)	2	all_epithelial(49;0.217)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			CGGGGGATGTCGCCCCCCCTG	0.657													5	19					0	0	1	0	0		T	35108146	T	T	35108146	2	4	89	1	0	0	0	0	0	0	0	1	8258	871	31	1		1	KIAA1539	9	35108146	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12940	35108146	106105285	3566	57397											
SPAG8	26206	broad.mit.edu	37	chr9	35808275	35808275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagggtgttcattcattccGcaaatgtttactgagtattc	10	15	8	8	1	2	1	2	1	0	0	4	1	3	1	1	1	1	4	1	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:35808275G>A	uc003zye.2	-	8	1516	c.1401C>T	c.(1399-1401)TGC>TGT	p.C467C	NPR2_uc003zyd.2_Intron|NPR2_uc010mlb.2_Intron	NM_172312	NP_758516	Q99932	SPAG8_HUMAN	sperm associated antigen 8 isoform 2	Error:Variant_position_missing_in_Q99932_after_alignment						acrosomal vesicle|membrane				ovary(1)	1	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			cattcattccgcaaatgttta	0.328													18	46					0	0	1	0	0		A	35808275	A	A	35808275	2	1	89	1	0	0	0	0	0	0	0	1	15009	1079	38	1		1	SPAG8	9	35808275	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	700129	35808275	105405156	3567	57398											
MELK	9833	broad.mit.edu	37	chr9	36665442	36665442	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataaattaaagaacaaagaAaatgtatatactcctaagtc	22	10	4	5	0	0	2	0	0	0	2	2	2	1	2	1	0	2	1	1	0	13	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:36665442A>C	uc003zzn.2	+	14	1410	c.1272A>C	c.(1270-1272)GAA>GAC	p.E424D	MELK_uc011lpm.1_Missense_Mutation_p.E293D|MELK_uc011lpn.1_Missense_Mutation_p.E383D|MELK_uc011lpo.1_Missense_Mutation_p.E230D|MELK_uc010mll.2_Missense_Mutation_p.E392D|MELK_uc011lpp.1_Missense_Mutation_p.E376D|MELK_uc010mlm.2_Missense_Mutation_p.E353D|MELK_uc011lpq.1_Missense_Mutation_p.E230D|MELK_uc011lpr.1_Missense_Mutation_p.E353D|MELK_uc011lps.1_Missense_Mutation_p.E344D	NM_014791	NP_055606	Q14680	MELK_HUMAN	maternal embryonic leucine zipper kinase	424						cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		Acute lymphoblastic leukemia(2;1.09e-08)|all_hematologic(2;8.15e-06)	STAD - Stomach adenocarcinoma(86;0.228)			AGAACAAAGAAAATGTATATA	0.358													8	89					0	0	1	0	0		C	36665442	C	C	36665442	3	2	89	1	0	0	0	0	1	0	0	0	9488	11	1	5	1322	5	MELK	9	36665442	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	857167	36665442	104547989	3568	57399											
ZCCHC7	84186	broad.mit.edu	37	chr9	37356833	37356833	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacttttatatttttcagtActcaagaaaaatggggttat	14	17	6	4	0	2	1	2	0	0	1	2	1	2	1	0	2	2	2	0	2	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:37356833A>G	uc003zzq.2	+	9	1373	c.1200A>G	c.(1198-1200)GTA>GTG	p.V400V	ZCCHC7_uc011lqh.1_Silent_p.V110V|ZCCHC7_uc011lqi.1_Silent_p.V399V|ZCCHC7_uc010mlt.2_Silent_p.V399V	NM_032226	NP_115602	Q8N3Z6	ZCHC7_HUMAN	zinc finger, CCHC domain containing 7	400							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.0137)		ATTTTTCAGTACTCAAGAAAA	0.393													19	43					0	0	1	0	0		G	37356833	G	G	37356833	2	3	89	1	0	0	0	0	0	0	0	1	17618	405	14	3		3	ZCCHC7	9	37356833	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	691391	37356833	103856598	3569	57400											
ZBTB5	9925	broad.mit.edu	37	chr9	37440877	37440877	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcattagctgagaactggTagagttttctgggatctgtg	9	14	12	6	0	3	2	1	1	2	2	3	4	3	3	0	2	2	3	0	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:37440877T>C	uc003zzx.2	-	2	1872	c.1672A>G	c.(1672-1674)ACC>GCC	p.T558A		NM_014872	NP_055687	O15062	ZBTB5_HUMAN	zinc finger and BTB domain containing 5	558					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(29;0.00733)|Lung(182;0.226)		TGAGAACTGGTAGAGTTTTCT	0.517													15	31					0	0	1	0	0		C	37440877	C	C	37440877	3	2	89	1	0	0	0	0	1	0	0	0	17576	1638	57	3	365	3	ZBTB5	9	37440877	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	84044	37440877	103772554	3570	57401											
ZBTB5	9925	broad.mit.edu	37	chr9	37442225	37442225	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccttaacaacagagttCaaatgcaggtgagaggctgc	13	8	11	9	0	1	2	1	1	0	2	1	3	1	2	1	2	5	3	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:37442225C>A	uc003zzx.2	-	2	524	c.324G>T	c.(322-324)TTG>TTT	p.L108F		NM_014872	NP_055687	O15062	ZBTB5_HUMAN	zinc finger and BTB domain containing 5	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(29;0.00733)|Lung(182;0.226)		CAACAGAGTTCAAATGCAGGT	0.522													50	75					2.43277e-16	2.79395e-16	1	1	0		A	37442225	A	A	37442225	3	1	89	1	0	0	0	0	1	0	0	0	17576	825	29	5	1713	5	ZBTB5	9	37442225	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1348	37442225	103771206	3571	57402											
POLR1E	64425	broad.mit.edu	37	chr9	37501836	37501836	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggacttgaagctcagtgaGaaaaggtgagcacaacagaa	17	5	13	6	0	1	4	1	3	0	2	1	6	1	5	0	2	3	2	0	2	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:37501836G>T	uc003zzz.1	+	10	1569	c.1281G>T	c.(1279-1281)GAG>GAT	p.E427D	POLR1E_uc003zzy.1_Missense_Mutation_p.E365D|POLR1E_uc011lqk.1_Missense_Mutation_p.E294D	NM_022490	NP_071935	Q9GZS1	RPA49_HUMAN	RNA polymerase I associated factor 53	427					rRNA transcription	cell junction|cytoplasm|nucleolus	DNA binding|DNA-directed RNA polymerase activity|protein binding				0				GBM - Glioblastoma multiforme(29;0.00851)|Lung(182;0.229)		AGCTCAGTGAGAAAAGGTGAG	0.463													18	34					3.32936e-07	3.48551e-07	1	1	0		T	37501836	T	T	37501836	3	4	89	1	0	0	0	0	1	0	0	0	12232	933	33	5	1137	5	POLR1E	9	37501836	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	59611	37501836	103711595	3572	57403											
FRMPD1	22844	broad.mit.edu	37	chr9	37740573	37740573	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtgctgctttggagacatTtggctgggcaccagaactga	9	10	14	8	0	0	3	0	1	0	2	0	5	0	3	1	3	3	4	1	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:37740573T>G	uc004aag.1	+	15	2092	c.2048T>G	c.(2047-2049)TTT>TGT	p.F683C	FRMPD1_uc004aah.1_Missense_Mutation_p.F683C|FRMPD1_uc011lqm.1_Missense_Mutation_p.F505C|FRMPD1_uc011lqn.1_Missense_Mutation_p.F552C	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	683						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		TTGGAGACATTTGGCTGGGCA	0.582													14	44					0	0	1	0	0		G	37740573	G	G	37740573	3	3	89	1	0	0	0	0	1	0	0	0	6071	1841	64	5	2102	5	FRMPD1	9	37740573	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	238737	37740573	103472858	3573	57404											
FRMPD1	22844	broad.mit.edu	37	chr9	37744622	37744622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccctggagagtgtagacGacgtgtgctactatgacagg	9	9	13	10	2	0	3	0	1	0	2	1	5	1	3	2	2	2	2	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:37744622G>A	uc004aag.1	+	16	2637	c.2593G>A	c.(2593-2595)GAC>AAC	p.D865N	FRMPD1_uc004aah.1_Missense_Mutation_p.D865N	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	865						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		GAGTGTAGACGACGTGTGCTA	0.577													25	41					0	0	1	0	0		A	37744622	A	A	37744622	3	1	89	1	0	0	0	0	1	0	0	0	6071	1058	37	1	2651	1	FRMPD1	9	37744622	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4049	37744622	103468809	3574	57405											
RG9MTD3	158234	broad.mit.edu	37	chr9	37769953	37769953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagttagacataacagaaGaagactgctttagtttattt	14	14	7	6	0	0	4	0	0	0	4	1	4	1	4	1	0	2	3	1	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:37769953G>A	uc004aai.2	+	6	666	c.589G>A	c.(589-591)GAA>AAA	p.E197K	RG9MTD3_uc011lqo.1_Missense_Mutation_p.E146K|RG9MTD3_uc011lqp.1_Missense_Mutation_p.E119K|RG9MTD3_uc011lqq.1_Missense_Mutation_p.E86K|RG9MTD3_uc004aaj.2_RNA|RG9MTD3_uc004aak.2_Missense_Mutation_p.E102K	NM_144964	NP_659401	Q6PF06	RG9D3_HUMAN	RNA (guanine-9-) methyltransferase domain	197							methyltransferase activity				0				GBM - Glioblastoma multiforme(29;0.00817)|Lung(182;0.226)		CATAACAGAAGAAGACTGCTT	0.313													74	127					0	0	1	0	0		A	37769953	A	A	37769953	3	1	89	1	0	0	0	0	1	0	0	0	13298	943	33	4	607	4	RG9MTD3	9	37769953	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	25331	37769953	103443478	3575	57406											
FAM75A3	727830	broad.mit.edu	37	chr9	40702862	40702862	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccccatcaccaggcccAatgaccacctcagtctcctc	9	7	4	21	0	3	1	2	1	1	0	6	1	4	1	8	1	0	0	8	1	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:40702862A>G	uc010mmj.2	+	4	548	c.519A>G	c.(517-519)CCA>CCG	p.P173P		NM_001083124	NP_001076593	Q5VYP0	F75A3_HUMAN	hypothetical protein LOC727830	173	Pro-rich.					integral to membrane				ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		CACCAGGCCCAATGACCACCT	0.592													41	142					0	0	1	0	0		G	40702862	G	G	40702862	2	3	89	1	0	0	0	0	0	0	0	1	5635	117	5	3		3	FAM75A3	9	40702862	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2932909	40702862	100510569	3576	57407											
FAM75A6	389730	broad.mit.edu	37	chr9	43627815	43627815	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgatgagttaaaggcgCacgaggttctggcagtctcc	9	9	14	9	2	2	2	0	2	2	0	3	4	2	3	1	4	0	4	1	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:43627815C>A	uc011lrb.1	-	4	901	c.872G>T	c.(871-873)TGC>TTC	p.C291F		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	291						integral to membrane					0						GTTAAAGGCGCACGAGGTTCT	0.562													109	220					2.55756e-57	3.18751e-57	1	1	0		A	43627815	A	A	43627815	3	1	89	1	0	0	0	0	1	0	0	0	5636	710	25	5	3163	5	FAM75A6	9	43627815	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2924953	43627815	97585616	3577	57408											
CBWD6	644019	broad.mit.edu	37	chr9	69205480	69205480	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggaccaatcgatttgttCtctcagtgtcatccttccag	8	14	8	11	1	3	1	2	1	1	0	7	3	5	2	3	1	0	1	3	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:69205480C>A	uc004afj.3	-	14	1164	c.1058G>T	c.(1057-1059)AGA>ATA	p.R353I	CBWD6_uc004afk.3_RNA|CBWD6_uc011lrf.1_RNA	NM_001085457	NP_001078926	Q4V339	CBWD6_HUMAN	COBW domain containing 6	353	CobW C-terminal.						ATP binding				0						TCGATTTGTTCTCTCAGTGTC	0.408													56	122					1.08241e-25	1.30648e-25	1	1	0		A	69205480	A	A	69205480	3	1	89	1	0	0	0	0	1	0	0	0	2719	913	32	5	137	5	CBWD6	9	69205480	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	25577665	69205480	72007951	3578	57409											
PGM5	5239	broad.mit.edu	37	chr9	71114209	71114209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagttcctccagtggtgtgCgggccaccctcagactgtac	6	10	11	14	1	2	1	2	0	0	1	4	1	4	1	4	2	2	2	4	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:71114209C>T	uc004agr.2	+	10	1775	c.1546C>T	c.(1546-1548)CGG>TGG	p.R516W		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	516					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						CAGTGGTGTGCGGGCCACCCT	0.572													45	65					0	0	1	0	0		T	71114209	T	T	71114209	3	4	89	1	0	0	0	0	1	0	0	0	11820	759	27	1	1584	1	PGM5	9	71114209	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1908729	71114209	70099222	3579	57410											
FAM122A	116224	broad.mit.edu	37	chr9	71395903	71395903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtgtcacctgcccaagcgGcttctccatttattccacta	7	13	6	15	1	2	0	1	0	1	0	4	0	3	0	4	1	2	1	4	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:71395903G>A	uc004agw.1	+	1	940	c.823G>A	c.(823-825)GCT>ACT	p.A275T	PIP5K1B_uc004agu.2_Intron|PIP5K1B_uc011lrq.1_Intron|PIP5K1B_uc004agv.2_Intron	NM_138333	NP_612206	Q96E09	F122A_HUMAN	hypothetical protein LOC116224	275											0						TGCCCAAGCGGCTTCTCCATT	0.478													117	221					0	0	1	0	0		A	71395903	A	A	71395903	3	1	89	1	0	0	0	0	1	0	0	0	5430	1203	42	2	825	2	FAM122A	9	71395903	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	281694	71395903	69817528	3580	57411											
APBA1	320	broad.mit.edu	37	chr9	72131279	72131279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgccttgtcgaggctctgcGagctcatgctctgcttcacc	4	12	10	15	2	4	0	2	0	2	0	5	2	4	0	2	1	5	4	2	1	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:72131279G>A	uc004ahh.2	-	2	1124	c.848C>T	c.(847-849)TCG>TTG	p.S283L		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	283	Munc-18-1 binding.				axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						GAGGCTCTGCGAGCTCATGCT	0.532													11	22					0	0	1	0	0		A	72131279	A	A	72131279	3	1	89	1	0	0	0	0	1	0	0	0	756	1059	37	1	1713	1	APBA1	9	72131279	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	735376	72131279	69082152	3581	57412											
SMC5	23137	broad.mit.edu	37	chr9	72893538	72893538	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggagaaagaaaaacagctCgaggtactttaaatagacaa	20	6	10	5	1	0	3	0	0	0	3	1	5	0	3	0	2	3	2	0	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:72893538C>T	uc004ahr.2	+	5	792	c.675C>T	c.(673-675)CTC>CTT	p.L225L		NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein	225	Potential.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						AAAAACAGCTCGAGGTACTTT	0.358													12	45					0	0	1	0	0		T	72893538	T	T	72893538	2	4	89	1	0	0	0	0	0	0	0	1	14811	871	31	1		1	SMC5	9	72893538	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	762259	72893538	68319893	3582	57413											
SMC5	23137	broad.mit.edu	37	chr9	72962937	72962937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtgtgctggtgaagttgatCtccatacagaaaatgaggta	13	11	12	5	0	1	4	0	3	1	1	2	4	1	4	1	2	2	3	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:72962937C>T	uc004ahr.2	+	22	2989	c.2872C>T	c.(2872-2874)CTC>TTC	p.L958F	SMC5_uc011lry.1_Missense_Mutation_p.L103F	NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein	958					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						TGAAGTTGATCTCCATACAGA	0.259													12	24					0	0	1	0	0		T	72962937	T	T	72962937	3	4	89	1	0	0	0	0	1	0	0	0	14811	913	32	4	2958	4	SMC5	9	72962937	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	69399	72962937	68250494	3583	57414											
SMC5	23137	broad.mit.edu	37	chr9	72965072	72965072	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcgaattagagtcaaatttCgaagtagtactcaactgcat	14	13	7	7	2	2	1	2	0	0	1	4	3	2	1	0	0	3	3	0	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:72965072C>T	uc004ahr.2	+	23	3049	c.2932C>T	c.(2932-2934)CGA>TGA	p.R978*	SMC5_uc011lry.1_Nonsense_Mutation_p.R123*	NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein	978					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						AGTCAAATTTCGAAGTAGTAC	0.323													40	52					0	0	1	0	0		T	72965072	T	T	72965072	4	4	89	1	0	0	0	0	0	1	0	0	14811	876	31	1	3022	1	SMC5	9	72965072	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2135	72965072	68248359	3584	57415											
TRPM3	80036	broad.mit.edu	37	chr9	73442905	73442905	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgagcttgctcatgggAttggacatggtctggtatgg	8	12	15	6	0	2	1	1	1	1	0	2	3	2	3	0	5	2	3	0	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:73442905A>C	uc004aid.2	-	6	1075	c.831T>G	c.(829-831)AAT>AAG	p.N277K	TRPM3_uc004ahu.2_Missense_Mutation_p.N107K|TRPM3_uc004ahv.2_Missense_Mutation_p.N107K|TRPM3_uc004ahw.2_Missense_Mutation_p.N124K|TRPM3_uc004ahx.2_Missense_Mutation_p.N124K|TRPM3_uc004ahy.2_Missense_Mutation_p.N124K|TRPM3_uc004ahz.2_Missense_Mutation_p.N124K|TRPM3_uc004aia.2_Missense_Mutation_p.N124K|TRPM3_uc004aib.2_Missense_Mutation_p.N124K|TRPM3_uc004aic.2_Missense_Mutation_p.N277K|TRPM3_uc010mor.2_Missense_Mutation_p.N277K|TRPM3_uc004aie.2_Missense_Mutation_p.N124K|TRPM3_uc004aif.2_Missense_Mutation_p.N124K|TRPM3_uc004aig.2_Missense_Mutation_p.N124K|TRPM3_uc004aii.2_Missense_Mutation_p.N279K	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	277	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						TGCTCATGGGATTGGACATGG	0.463													36	96					0	0	1	0	0		C	73442905	C	C	73442905	3	2	89	1	0	0	0	0	1	0	0	0	16613	330	12	5	4495	5	TRPM3	9	73442905	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	477833	73442905	67770526	3585	57416											
TMEM2	23670	broad.mit.edu	37	chr9	74349809	74349809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catggaatagtctgtgcttgCgaccacaatctggtctccag	9	11	10	11	1	3	0	0	0	3	0	4	2	3	1	2	2	2	1	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:74349809C>T	uc011lsa.1	-	6	1846	c.1306G>A	c.(1306-1308)GCA>ACA	p.A436T	TMEM2_uc010mos.2_Intron|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	436						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		TCTGTGCTTGCGACCACAATC	0.438													59	107					0	0	1	0	0		T	74349809	T	T	74349809	3	4	89	1	0	0	0	0	1	0	0	0	16146	768	27	1	2921	1	TMEM2	9	74349809	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	906904	74349809	66863622	3586	57417											
TMC1	117531	broad.mit.edu	37	chr9	75420302	75420302	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gataatatctcaacaggagtTtgtgaggctgacagtctctg	11	12	11	7	0	2	2	1	2	2	0	4	4	2	3	0	2	1	2	0	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:75420302T>G	uc004aiz.1	+	18	2111	c.1571T>G	c.(1570-1572)TTT>TGT	p.F524C	TMC1_uc010moz.1_Missense_Mutation_p.F482C|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Missense_Mutation_p.F378C|TMC1_uc010mpa.1_Missense_Mutation_p.F378C	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	524	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						CAACAGGAGTTTGTGAGGCTG	0.393													64	155					0	0	1	0	0		G	75420302	G	G	75420302	3	3	89	1	0	0	0	0	1	0	0	0	16009	1841	64	5	1625	5	TMC1	9	75420302	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1070493	75420302	65793129	3587	57418											
TRPM6	140803	broad.mit.edu	37	chr9	77362808	77362808	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacagaaaaacttactgtCaactccaattgaacttttca	17	12	3	9	0	2	2	2	1	0	1	3	2	3	2	1	0	5	0	1	0	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:77362808C>A	uc004ajl.1	-	31	5318	c.5080G>T	c.(5080-5082)GAC>TAC	p.D1694Y	TRPM6_uc004ajk.1_Missense_Mutation_p.D1689Y|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.D645Y|TRPM6_uc010mpd.1_Missense_Mutation_p.D527Y|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajj.1_Missense_Mutation_p.D650Y	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1694	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						AACTTACTGTCAACTCCAATT	0.284													24	80					3.28513e-13	3.66545e-13	1	1	0		A	77362808	A	A	77362808	3	1	89	1	0	0	0	0	1	0	0	0	16616	826	29	5	1024	5	TRPM6	9	77362808	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1942506	77362808	63850623	3588	57419											
TRPM6	140803	broad.mit.edu	37	chr9	77377203	77377203	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctaaacacaccagtttCatcaccttctgaaaatgccc	13	10	5	13	0	3	1	2	1	1	0	3	2	3	1	3	0	3	2	3	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:77377203C>A	uc004ajl.1	-	26	4622	c.4384G>T	c.(4384-4386)GAA>TAA	p.E1462*	TRPM6_uc004ajk.1_Nonsense_Mutation_p.E1457*|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajj.1_Nonsense_Mutation_p.E418*	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1462	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						ACACCAGTTTCATCACCTTCT	0.488													46	98					6.31075e-24	7.57142e-24	1	1	0		A	77377203	A	A	77377203	4	1	89	1	0	0	0	0	0	1	0	0	16616	835	29	5	1740	5	TRPM6	9	77377203	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14395	77377203	63836228	3589	57420											
VPS13A	23230	broad.mit.edu	37	chr9	79875040	79875040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttacctcttatttctttacGaatctcagataaaaaactac	14	15	3	9	1	3	1	1	0	3	1	4	2	3	1	1	0	4	1	1	0	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:79875040G>A	uc004akr.2	+	23	2587	c.2327G>A	c.(2326-2328)CGA>CAA	p.R776Q	VPS13A_uc004akp.3_Missense_Mutation_p.R776Q|VPS13A_uc004akq.3_Missense_Mutation_p.R776Q|VPS13A_uc004aks.2_Missense_Mutation_p.R776Q	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	776					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ATTTCTTTACGAATCTCAGAT	0.303													13	33					0	0	1	0	0		A	79875040	A	A	79875040	3	1	89	1	0	0	0	0	1	0	0	0	17215	1058	37	1	2417	1	VPS13A	9	79875040	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2497837	79875040	61338391	3590	57421											
VPS13A	23230	broad.mit.edu	37	chr9	79908403	79908403	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgaagtagtttttgtcacGaaatttctatattctatatt	12	20	5	4	1	3	1	1	1	2	0	3	2	3	1	0	0	0	2	0	0	7	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:79908403G>A	uc004akr.2	+	32	3746	c.3486G>A	c.(3484-3486)ACG>ACA	p.T1162T	VPS13A_uc004akp.3_Silent_p.T1162T|VPS13A_uc004akq.3_Silent_p.T1162T|VPS13A_uc004aks.2_Silent_p.T1123T|VPS13A_uc010mpo.1_5'UTR	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1162					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						TTTTTGTCACGAAATTTCTAT	0.279													16	44					0	0	1	0	0		A	79908403	A	A	79908403	2	1	89	1	0	0	0	0	0	0	0	1	17215	1045	37	1		1	VPS13A	9	79908403	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	33363	79908403	61305028	3591	57422											
VPS13A	23230	broad.mit.edu	37	chr9	79952328	79952328	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcattaatattgttccagaaAaagataatttaacatctcta	17	15	3	6	0	2	2	1	0	1	2	4	2	3	2	1	0	1	1	1	0	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:79952328A>C	uc004akr.2	+	47	6513	c.6253A>C	c.(6253-6255)AAA>CAA	p.K2085Q	VPS13A_uc004akp.3_Missense_Mutation_p.K2085Q|VPS13A_uc004akq.3_Missense_Mutation_p.K2085Q|VPS13A_uc004aks.2_Missense_Mutation_p.K2046Q|VPS13A_uc004akt.2_Missense_Mutation_p.K425Q	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2085					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						TGTTCCAGAAAAAGATAATTT	0.333													38	54					0	0	1	0	0		C	79952328	C	C	79952328	3	2	89	1	0	0	0	0	1	0	0	0	17215	15	1	5	6439	5	VPS13A	9	79952328	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	43925	79952328	61261103	3592	57423											
GNA14	9630	broad.mit.edu	37	chr9	80043929	80043929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccacttccgtctttccgatCgttggccaccaacatccacc	7	11	5	18	3	1	0	0	0	1	0	6	1	5	0	7	1	1	1	7	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:80043929C>T	uc004aku.2	-	5	1140	c.617G>A	c.(616-618)CGA>CAA	p.R206Q		NM_004297	NP_004288	O95837	GNA14_HUMAN	G alpha 14	206					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(2)	2						TCTTTCCGATCGTTGGCCACC	0.453													72	133					0	0	1	0	0		T	80043929	T	T	80043929	3	4	89	1	0	0	0	0	1	0	0	0	6517	884	31	1	462	1	GNA14	9	80043929	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	91601	80043929	61169502	3593	57424											
CEP78	84131	broad.mit.edu	37	chr9	80863264	80863264	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagaatggaaggagtgccaAatcagaggtatatcatgttt	14	10	11	6	0	2	2	2	0	0	2	2	4	2	4	2	3	1	2	2	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:80863264A>C	uc004akx.2	+	7	1226	c.950A>C	c.(949-951)AAA>ACA	p.K317T	CEP78_uc004aky.3_Missense_Mutation_p.K317T|CEP78_uc010mpp.2_Missense_Mutation_p.K317T|CEP78_uc011lsp.1_Missense_Mutation_p.K230T	NM_032171	NP_115547	Q5JTW2	CEP78_HUMAN	centrosomal protein 78kDa isoform b	317					G2/M transition of mitotic cell cycle	centrosome|cytosol				ovary(1)	1						AGGAGTGCCAAATCAGAGGTA	0.224													11	23					0	0	1	0	0		C	80863264	C	C	80863264	3	2	89	1	0	0	0	0	1	0	0	0	3265	14	1	5	976	5	CEP78	9	80863264	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	819335	80863264	60350167	3594	57425											
FLJ46321	389763	broad.mit.edu	37	chr9	84607583	84607583	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaattcatggaccgttaaAtatctctttggttgagggtc	10	14	11	6	1	2	2	1	1	1	1	4	4	2	3	1	3	0	2	1	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:84607583A>C	uc004amn.2	+	4	2245	c.2198A>C	c.(2197-2199)AAT>ACT	p.N733T		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	733						integral to membrane					0						GGACCGTTAAATATCTCTTTG	0.473													27	41					0	0	1	0	0		C	84607583	C	C	84607583	3	2	89	1	0	0	0	0	1	0	0	0	5946	101	4	5	2212	5	FLJ46321	9	84607583	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3744319	84607583	56605848	3595	57426											
FLJ46321	389763	broad.mit.edu	37	chr9	84608292	84608292	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgtagtcgaagcactttTcaaggagaaaagttgggaac	13	9	11	8	2	1	1	1	0	0	1	3	4	2	2	1	2	2	3	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:84608292T>C	uc004amn.2	+	4	2954	c.2907T>C	c.(2905-2907)TTT>TTC	p.F969F		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	969						integral to membrane					0						GAAGCACTTTTCAAGGAGAAA	0.527													61	125					0	0	1	0	0		C	84608292	C	C	84608292	2	2	89	1	0	0	0	0	0	0	0	1	5946	1780	62	3		3	FLJ46321	9	84608292	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	709	84608292	56605139	3596	57427											
RASEF	158158	broad.mit.edu	37	chr9	85630729	85630729	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacatgcctacctttcttagCtttttaatggtcacctgcag	8	15	6	12	0	2	0	1	0	1	0	2	0	2	0	3	1	4	2	3	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:85630729C>A	uc004amo.1	-	4	1017	c.756G>T	c.(754-756)AAG>AAT	p.K252N		NM_152573	NP_689786	Q8IZ41	RASEF_HUMAN	RAS and EF-hand domain containing	252	Potential.				protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3						CCTTTCTTAGCTTTTTAATGG	0.428													99	183					4.04957e-52	5.04319e-52	1	1	0		A	85630729	A	A	85630729	3	1	89	1	0	0	0	0	1	0	0	0	13093	796	28	5	1522	5	RASEF	9	85630729	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1022437	85630729	55582702	3597	57428											
C9orf64	84267	broad.mit.edu	37	chr9	86571085	86571085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtatggcaccaaccttcgtCgagggctctgttgacggcgg	7	9	14	11	4	1	1	0	1	1	0	3	2	1	1	2	4	1	4	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:86571085C>T	uc004anb.2	-	1	579	c.331G>A	c.(331-333)GAC>AAC	p.D111N	C9orf64_uc004anc.2_5'UTR	NM_032307	NP_115683	Q5T6V5	CI064_HUMAN	hypothetical protein LOC84267	111											0						CAACCTTCGTCGAGGGCTCTG	0.562													45	95					0	0	1	0	0		T	86571085	T	T	86571085	3	4	89	1	0	0	0	0	1	0	0	0	2492	884	31	1	710	1	C9orf64	9	86571085	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	940356	86571085	54642346	3598	57429											
RMI1	80010	broad.mit.edu	37	chr9	86617293	86617293	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttctaatgaaaatgattgTaatttacagagttgttcttt	13	19	6	3	0	2	3	0	2	2	1	2	3	2	3	0	0	1	3	0	0	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:86617293T>G	uc004anq.3	+	3	1800	c.1392T>G	c.(1390-1392)TGT>TGG	p.C464W	RMI1_uc004anr.3_Missense_Mutation_p.C464W|RMI1_uc004anp.3_Missense_Mutation_p.C464W|RMI1_uc004ans.3_Missense_Mutation_p.C464W	NM_024945	NP_079221	Q9H9A7	RMI1_HUMAN	RMI1, RecQ mediated genome instability 1,	464					DNA replication	nucleus					0						AAAATGATTGTAATTTACAGA	0.303													30	68					0	0	1	0	0		G	86617293	G	G	86617293	3	3	89	1	0	0	0	0	1	0	0	0	13420	1644	57	5	1394	5	RMI1	9	86617293	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	46208	86617293	54596138	3599	57430											
SLC28A3	64078	broad.mit.edu	37	chr9	86928299	86928299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgtttgtgtgctccctgCtttgcacagctctgcttctt	2	18	10	11	0	2	0	0	0	2	0	3	0	3	0	1	1	5	6	1	1	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:86928299C>T	uc010mpz.2	-	2	256	c.131G>A	c.(130-132)AGC>AAC	p.S44N	SLC28A3_uc011lsy.1_5'UTR|SLC28A3_uc004anu.1_Missense_Mutation_p.S44N|SLC28A3_uc010mqb.2_5'UTR	NM_022127	NP_071410	Q9HAS3	S28A3_HUMAN	concentrative Na+-nucleoside cotransporter	44	Cytoplasmic (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to membrane|plasma membrane	nucleoside binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|skin(1)	4						GTGCTCCCTGCTTTGCACAGC	0.448													22	42					0	0	1	0	0		T	86928299	T	T	86928299	3	4	89	1	0	0	0	0	1	0	0	0	14558	797	28	2	2012	2	SLC28A3	9	86928299	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	311006	86928299	54285132	3600	57431											
NTRK2	4915	broad.mit.edu	37	chr9	87339221	87339221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagatctcttgtgtggCggaaaatcttgtaggagaag	12	10	14	5	1	2	2	0	0	2	2	3	5	2	3	0	3	1	2	0	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:87339221C>T	uc004aoa.1	+	10	1741	c.803C>T	c.(802-804)GCG>GTG	p.A268V	NTRK2_uc004anv.1_Missense_Mutation_p.A268V|NTRK2_uc004any.1_Missense_Mutation_p.A268V|NTRK2_uc004anz.1_Missense_Mutation_p.A268V|NTRK2_uc011lsz.1_Missense_Mutation_p.A268V|NTRK2_uc011lta.1_Missense_Mutation_p.A268V|NTRK2_uc004aob.1_Missense_Mutation_p.A268V|NTRK2_uc011ltb.1_Missense_Mutation_p.A112V	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	neurotrophic tyrosine kinase, receptor, type 2	268	Extracellular (Potential).|Ig-like C2-type 1.				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16						TCTTGTGTGGCGGAAAATCTT	0.408										TSP Lung(25;0.17)			74	160					0	0	1	0	0		T	87339221	T	T	87339221	3	4	89	1	0	0	0	0	1	0	0	0	10726	768	27	1	829	1	NTRK2	9	87339221	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	410922	87339221	53874210	3601	57432											
GOLM1	51280	broad.mit.edu	37	chr9	88650485	88650485	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctcccggcctggctcctgCggcagcctgtccctctgagg	2	9	13	17	2	1	1	0	1	1	0	4	1	4	1	5	4	3	3	5	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:88650485C>T	uc004aol.2	-	8	1011	c.813G>A	c.(811-813)CCG>CCA	p.P271P	GOLM1_uc004aom.2_Silent_p.P271P	NM_016548	NP_057632	Q8NBJ4	GOLM1_HUMAN	golgi membrane protein 1	271	Lumenal (Potential).					Golgi apparatus|integral to plasma membrane					0						CTGGCTCCTGCGGCAGCCTGT	0.597											OREG0019278	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	74	212					0	0	1	0	0		T	88650485	T	T	88650485	2	4	89	1	0	0	0	0	0	0	0	1	6582	755	27	1		1	GOLM1	9	88650485	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1311264	88650485	52562946	3602	57433											
ZCCHC6	79670	broad.mit.edu	37	chr9	88924147	88924147	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttcatctatttgatcaaAaaaataaatattccagccat	17	13	3	8	0	3	1	2	1	1	0	4	1	4	1	2	0	1	1	2	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:88924147A>C	uc004aoq.2	-	21	3855	c.3640T>G	c.(3640-3642)TTT>GTT	p.F1214V	ZCCHC6_uc010mqe.2_Missense_Mutation_p.F114V|ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.F978V|ZCCHC6_uc004aou.2_Missense_Mutation_p.F1214V	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	1214					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						ATTTGATCAAAAAAATAAATA	0.259													20	38					0	0	1	0	0		C	88924147	C	C	88924147	3	2	89	1	0	0	0	0	1	0	0	0	17617	14	1	5	875	5	ZCCHC6	9	88924147	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	273662	88924147	52289284	3603	57434											
DAPK1	1612	broad.mit.edu	37	chr9	90264928	90264928	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtaacgtgaacatcaaGaaccgagaaggagagacgcc	15	4	13	9	3	1	4	1	1	0	3	1	7	1	5	2	2	3	2	2	2	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:90264928G>T	uc004apc.2	+	16	1659	c.1521G>T	c.(1519-1521)AAG>AAT	p.K507N	DAPK1_uc004ape.2_Missense_Mutation_p.K507N|DAPK1_uc004apd.2_Missense_Mutation_p.K507N|DAPK1_uc011ltg.1_Missense_Mutation_p.K507N|DAPK1_uc011lth.1_Missense_Mutation_p.K244N|DAPK1_uc004apf.1_Missense_Mutation_p.K61N	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	507					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						TGAACATCAAGAACCGAGAAG	0.577									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				34	39					5.91797e-21	7.00173e-21	1	1	0		T	90264928	T	T	90264928	3	4	89	1	0	0	0	0	1	0	0	0	4238	933	33	5	1579	5	DAPK1	9	90264928	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1340781	90264928	50948503	3604	57435											
C9orf79	286234	broad.mit.edu	37	chr9	90500035	90500035	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgatgaccttctcagaGccttttggaccacactcaac	9	9	8	15	1	2	2	2	1	1	1	3	4	2	3	4	2	2	0	4	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:90500035G>A	uc004app.3	+	4	668	c.633G>A	c.(631-633)GAG>GAA	p.E211E	C9orf79_uc004apo.1_Intron	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	211	Pro-rich.					integral to membrane				ovary(3)	3						CCTTCTCAGAGCCTTTTGGAC	0.597													45	114					0	0	1	0	0		A	90500035	A	A	90500035	2	1	89	1	0	0	0	0	0	0	0	1	2500	962	34	2		2	C9orf79	9	90500035	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	235107	90500035	50713396	3605	57436											
C9orf79	286234	broad.mit.edu	37	chr9	90501322	90501322	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatccaccaggagcagtcCtgtggccctcccagcagatt	8	7	10	16	0	0	1	0	0	0	1	3	2	3	2	6	2	2	2	6	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:90501322C>A	uc004app.3	+	4	1955	c.1920C>A	c.(1918-1920)TCC>TCA	p.S640S	C9orf79_uc004apo.1_Silent_p.S452S	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	640						integral to membrane				ovary(3)	3						AGGAGCAGTCCTGTGGCCCTC	0.637													19	46					5.03518e-11	5.49976e-11	1	1	0		A	90501322	A	A	90501322	2	1	89	1	0	0	0	0	0	0	0	1	2500	668	24	5		5	C9orf79	9	90501322	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1287	90501322	50712109	3606	57437											
FAM75C1	441452	broad.mit.edu	37	chr9	90537657	90537657	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcccaggaacccaaactgTcaaggctcatgcaagagcca	14	4	10	13	0	2	1	2	0	0	1	2	3	2	2	3	2	5	2	3	2	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:90537657T>C	uc010mqi.2	+	4	2864	c.2835T>C	c.(2833-2835)TGT>TGC	p.C945C	FAM75C1_uc004apq.3_Silent_p.C928C	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						ACCCAAACTGTCAAGGCTCAT	0.507													34	55					0	0	1	0	0		C	90537657	C	C	90537657	2	2	89	1	0	0	0	0	0	0	0	1	5637	1673	58	3		3	FAM75C1	9	90537657	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	36335	90537657	50675774	3607	57438											
SPIN1	10927	broad.mit.edu	37	chr9	91041483	91041483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccattcggaaagacacctgGccagcggtccagagctgatg	10	6	12	13	2	0	3	0	1	0	2	2	4	1	4	4	3	2	1	4	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:91041483G>A	uc010mqj.2	+	2	529	c.29G>A	c.(28-30)GGC>GAC	p.G10D	SPIN1_uc004apy.2_Missense_Mutation_p.G10D|SPIN1_uc004apz.2_Missense_Mutation_p.G10D|SPIN1_uc010mqk.2_Missense_Mutation_p.G10D	NM_006717	NP_006708	Q9Y657	SPIN1_HUMAN	spindlin	10					cell cycle|gamete generation|multicellular organismal development	nucleus	methylated histone residue binding				0						AAGACACCTGGCCAGCGGTCC	0.388													20	29					0	0	1	0	0		A	91041483	A	A	91041483	3	1	89	1	0	0	0	0	1	0	0	0	15077	1203	42	2	31	2	SPIN1	9	91041483	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	503826	91041483	50171948	3608	57439											
CKS2	1164	broad.mit.edu	37	chr9	91930195	91930195	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtctaggctgggttcattAcatgattcatgagccaggta	10	12	12	7	0	3	2	2	2	1	0	3	3	3	2	1	3	2	3	1	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:91930195A>G	uc004aqh.2	+	2	265	c.170A>G	c.(169-171)TAC>TGC	p.Y57C		NM_001827	NP_001818	P33552	CKS2_HUMAN	CDC28 protein kinase 2	57					cell division|cell proliferation|phosphatidylinositol-mediated signaling|regulation of cyclin-dependent protein kinase activity|spindle organization		cyclin-dependent protein kinase regulator activity				0						TGGGTTCATTACATGATTCAT	0.373													57	95					0	0	1	0	0		G	91930195	G	G	91930195	3	3	89	1	0	0	0	0	1	0	0	0	3456	391	14	3	176	3	CKS2	9	91930195	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	888712	91930195	49283236	3609	57440											
SEMA4D	10507	broad.mit.edu	37	chr9	91994492	91994492	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgggagcatttcagttcCgctgtgccaccgtgcttgaa	6	14	11	10	2	1	1	1	1	0	0	2	2	2	2	3	1	3	4	3	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:91994492C>T	uc004aqo.1	-	18	2288	c.1716G>A	c.(1714-1716)GCG>GCA	p.A572A	SEMA4D_uc011ltm.1_Intron|SEMA4D_uc011ltn.1_Intron|SEMA4D_uc011lto.1_Intron|SEMA4D_uc004aqp.1_Silent_p.A570A	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	572	Ig-like C2-type.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						ATTTCAGTTCCGCTGTGCCAC	0.488													67	121					0	0	1	0	0		T	91994492	T	T	91994492	2	4	89	1	0	0	0	0	0	0	0	1	14059	639	23	1		1	SEMA4D	9	91994492	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	64297	91994492	49218939	3610	57441											
NFIL3	4783	broad.mit.edu	37	chr9	94171887	94171887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcactgagaaaggagtaagaGaagaatgtaccatacttggg	16	7	13	5	0	0	3	0	1	0	3	0	6	0	4	1	2	2	3	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:94171887G>A	uc004arh.2	-	2	1525	c.1130C>T	c.(1129-1131)TCT>TTT	p.S377F		NM_005384	NP_005375	Q16649	NFIL3_HUMAN	nuclear factor, interleukin 3 regulated	377					circadian rhythm|immune response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						AGGAGTAAGAGAAGAATGTAC	0.408													74	152					0	0	1	0	0		A	94171887	A	A	94171887	3	1	89	1	0	0	0	0	1	0	0	0	10392	942	33	4	262	4	NFIL3	9	94171887	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2177395	94171887	47041544	3611	57442											
ROR2	4920	broad.mit.edu	37	chr9	94486891	94486891	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaagtctgagatcttcaCgttcagcttgtcgtacacta	9	12	8	12	2	4	1	2	1	2	1	5	2	4	1	1	0	2	3	1	0	3	5	rs148844963	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:94486891C>T	uc004arj.1	-	9	2084	c.1885G>A	c.(1885-1887)GTG>ATG	p.V629M	ROR2_uc004ari.1_Missense_Mutation_p.V489M	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	629	Cytoplasmic (Potential).|Protein kinase.				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						GAGATCTTCACGTTCAGCTTG	0.587													32	56					0	0	1	0	0		T	94486891	T	T	94486891	3	4	89	1	0	0	0	0	1	0	0	0	13552	536	19	1	950	1	ROR2	9	94486891	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	315004	94486891	46726540	3612	57443											
IARS	3376	broad.mit.edu	37	chr9	95025292	95025292	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaattacgttcttgaaaggCggttgtccaaagagggccgt	11	10	12	8	3	1	2	0	1	1	1	2	2	2	2	2	3	1	2	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:95025292C>T	uc004art.1	-	17	2003	c.1746G>A	c.(1744-1746)CCG>CCA	p.P582P	IARS_uc004ars.1_Silent_p.P427P|IARS_uc004aru.3_Silent_p.P582P|IARS_uc010mqr.2_Silent_p.P472P|IARS_uc010mqt.2_Intron	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	582					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	TCTTGAAAGGCGGTTGTCCAA	0.443													13	42					0	0	1	0	0		T	95025292	T	T	95025292	2	4	89	1	0	0	0	0	0	0	0	1	7489	755	27	1		1	IARS	9	95025292	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	538401	95025292	46188139	3613	57444											
OMD	4958	broad.mit.edu	37	chr9	95177490	95177490	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttctgctccttcttgttCtgggctctcatgagcattgt	3	17	8	13	0	4	1	1	1	4	0	6	1	5	1	2	1	2	4	2	1	0	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:95177490C>A	uc004asd.3	-	3	1579	c.1210G>T	c.(1210-1212)GAA>TAA	p.E404*	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron	NM_005014	NP_005005	Q99983	OMD_HUMAN	osteomodulin precursor	404	Asp/Glu-rich (acidic).				cell adhesion	proteinaceous extracellular matrix				ovary(2)	2						CCTTCTTGTTCTGGGCTCTCA	0.368			T	USP6	aneurysmal bone cysts								26	51					4.87955e-14	5.4818e-14	1	1	0		A	95177490	A	A	95177490	4	1	89	1	0	0	0	0	0	1	0	0	10884	922	32	5	59	5	OMD	9	95177490	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	152198	95177490	46035941	3614	57445											
ASPN	54829	broad.mit.edu	37	chr9	95222031	95222031	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccattttcgatatctgtgatTttgttgtttcctaggcccag	6	18	8	9	1	1	1	0	1	1	0	3	2	2	1	3	1	0	2	3	1	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:95222031T>G	uc004ase.1	-	7	1072	c.828A>C	c.(826-828)AAA>AAC	p.K276N	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ASPN_uc010mqy.1_Intron	NM_017680	NP_060150	Q9BXN1	ASPN_HUMAN	asporin precursor	276	LRR 7.				bone mineralization|negative regulation of tooth mineralization|negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	calcium ion binding				0						TATCTGTGATTTTGTTGTTTC	0.303													9	19					0	0	1	0	0		G	95222031	G	G	95222031	3	3	89	1	0	0	0	0	1	0	0	0	1058	1838	64	5	322	5	ASPN	9	95222031	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	44541	95222031	45991400	3615	57446											
ECM2	1842	broad.mit.edu	37	chr9	95263202	95263202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caagtattccaggcctggttCcatgtggccaaacacatagc	11	9	9	12	0	0	0	0	0	0	0	2	0	2	0	4	3	2	2	4	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:95263202C>T	uc004ash.2	-	9	1803	c.1738G>A	c.(1738-1740)GAA>AAA	p.E580K	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ECM2_uc004asf.3_Missense_Mutation_p.E558K|ECM2_uc011lty.1_Missense_Mutation_p.E580K|ECM2_uc004asg.2_Missense_Mutation_p.E558K|ECM2_uc010mqz.1_Missense_Mutation_p.E2K	NM_001393	NP_001384	O94769	ECM2_HUMAN	extracellular matrix protein 2 precursor	580					cell-matrix adhesion		integrin binding			ovary(1)|skin(1)	2						AGGCCTGGTTCCATGTGGCCA	0.488													43	96					0	0	1	0	0		T	95263202	T	T	95263202	3	4	89	1	0	0	0	0	1	0	0	0	4904	864	30	4	369	4	ECM2	9	95263202	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	41171	95263202	45950229	3616	57447											
FGD3	89846	broad.mit.edu	37	chr9	95738699	95738699	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctggctgcagcaggggAcggctctccagacataggcc	8	5	14	14	1	1	1	0	0	1	1	2	2	1	2	3	5	3	4	3	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:95738699A>G	uc004asw.2	+	3	789	c.161A>G	c.(160-162)GAC>GGC	p.D54G	FGD3_uc004asx.2_Missense_Mutation_p.D54G|FGD3_uc004asz.2_Missense_Mutation_p.D54G	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	54					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						GCAGCAGGGGACGGCTCTCCA	0.647													7	13					0	0	1	0	0		G	95738699	G	G	95738699	3	3	89	1	0	0	0	0	1	0	0	0	5848	275	10	3	163	3	FGD3	9	95738699	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	475497	95738699	45474732	3617	57448											
ZNF169	169841	broad.mit.edu	37	chr9	97062108	97062108	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctagcagagcctagaacaGaattccagccaagttttccc	12	9	7	13	0	1	3	0	0	1	3	3	3	3	3	4	0	4	2	4	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:97062108G>T	uc004aum.1	+	5	373	c.268G>T	c.(268-270)GAA>TAA	p.E90*		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	90						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				GCCTAGAACAGAATTCCAGCC	0.493													22	67					1.55469e-16	1.78953e-16	1	1	0		T	97062108	T	T	97062108	4	4	89	1	0	0	0	0	0	1	0	0	17767	943	33	5	282	5	ZNF169	9	97062108	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1323409	97062108	44151323	3618	57449											
HIATL1	84641	broad.mit.edu	37	chr9	97209126	97209126	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttgaagaaagttggaaaaGattctactgtcttactaatc	14	13	8	6	1	2	3	0	1	2	2	3	4	2	4	0	1	2	2	0	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:97209126G>T	uc004aur.2	+	7	1020	c.751G>T	c.(751-753)GAT>TAT	p.D251Y	HIATL1_uc011luh.1_Missense_Mutation_p.D186Y	NM_032558	NP_115947	Q5SR56	HIAL1_HUMAN	hippocampus abundant transcript-like 1	251	Extracellular (Potential).				transmembrane transport	integral to membrane|plasma membrane	protein binding|transporter activity			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				AGTTGGAAAAGATTCTACTGT	0.383													25	61					7.92952e-12	8.72397e-12	1	1	0		T	97209126	T	T	97209126	3	4	89	1	0	0	0	0	1	0	0	0	7114	942	33	5	777	5	HIATL1	9	97209126	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	147018	97209126	44004305	3619	57450											
C9orf102	375748	broad.mit.edu	37	chr9	98685559	98685559	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaggaaacacttatcaaaagGatatgtgatcaggtattttc	16	12	8	5	0	2	1	2	1	0	0	3	3	2	3	0	3	1	1	0	3	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:98685559G>A	uc004avt.3	+	9	1852	c.1464G>A	c.(1462-1464)AGG>AGA	p.R488R	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Silent_p.R190R|C9orf102_uc010mry.1_Silent_p.R190R|C9orf102_uc010mrz.2_Silent_p.R299R|C9orf102_uc004avu.2_5'UTR	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	488					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				TTATCAAAAGGATATGTGATC	0.323													34	73					0	0	1	0	0		A	98685559	A	A	98685559	2	1	89	1	0	0	0	0	0	0	0	1	2448	1165	41	4		4	C9orf102	9	98685559	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1476433	98685559	42527872	3620	57451											
CDC14B	8555	broad.mit.edu	37	chr9	99271994	99271994	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagcagatctggtggttCttttagtaatgcctgcactg	8	15	11	7	0	2	2	0	1	2	1	2	2	2	2	1	2	3	4	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:99271994C>A	uc004awj.2	-	13	1873	c.1421G>T	c.(1420-1422)AGA>ATA	p.R474I	CDC14B_uc004awk.2_Intron|CDC14B_uc004awl.2_RNA|CDC14B_uc004awi.2_Missense_Mutation_p.R437I	NM_033331	NP_201588	O60729	CC14B_HUMAN	CDC14 homolog B isoform 2	474					activation of anaphase-promoting complex activity|DNA repair|G2/M transition DNA damage checkpoint	nucleolus|nucleoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TCTGGTGGTTCTTTTAGTAAT	0.353													31	58					2.70662e-09	2.90636e-09	1	1	0		A	99271994	A	A	99271994	3	1	89	1	0	0	0	0	1	0	0	0	3060	913	32	5	83	5	CDC14B	9	99271994	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	586435	99271994	41941437	3621	57452											
CDC14B	8555	broad.mit.edu	37	chr9	99285665	99285665	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcccctttaacttctgacGaaaatagtccccttccagcc	9	11	5	16	1	1	1	0	1	1	0	3	2	3	1	6	0	3	0	6	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:99285665G>A	uc004awj.2	-	11	1575	c.1123C>T	c.(1123-1125)CGT>TGT	p.R375C	CDC14B_uc004awk.2_Missense_Mutation_p.R375C|CDC14B_uc004awl.2_RNA|CDC14B_uc004awi.2_Missense_Mutation_p.R338C	NM_033331	NP_201588	O60729	CC14B_HUMAN	CDC14 homolog B isoform 2	375	B.				activation of anaphase-promoting complex activity|DNA repair|G2/M transition DNA damage checkpoint	nucleolus|nucleoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				AACTTCTGACGAAAATAGTCC	0.428													51	98					0	0	1	0	0		A	99285665	A	A	99285665	3	1	89	1	0	0	0	0	1	0	0	0	3060	1058	37	1	389	1	CDC14B	9	99285665	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13671	99285665	41927766	3622	57453											
ZNF510	22869	broad.mit.edu	37	chr9	99521253	99521253	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctcccctgtgtgaattCtctgatgatcactaaggatt	8	16	8	9	0	3	3	1	3	2	0	5	4	3	4	2	1	0	1	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:99521253C>A	uc004awn.1	-	6	2048	c.1859G>T	c.(1858-1860)AGA>ATA	p.R620I	ZNF510_uc004awo.1_Missense_Mutation_p.R620I	NM_014930	NP_055745	Q9Y2H8	ZN510_HUMAN	zinc finger protein 510	620	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				TGTGTGAATTCTCTGATGATC	0.408													48	101					4.01344e-20	4.73134e-20	1	1	0		A	99521253	A	A	99521253	3	1	89	1	0	0	0	0	1	0	0	0	17979	913	32	5	196	5	ZNF510	9	99521253	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	235588	99521253	41692178	3623	57454											
ZNF782	158431	broad.mit.edu	37	chr9	99580766	99580766	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgacttcagtttgaaagcTttcccacattcatcacattt	10	15	4	12	0	3	2	3	2	0	0	4	2	4	2	2	0	1	2	2	0	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:99580766T>G	uc004awp.1	-	6	1820	c.1539A>C	c.(1537-1539)AAA>AAC	p.K513N	ZNF782_uc011lup.1_Missense_Mutation_p.K381N	NM_001001662	NP_001001662	Q6ZMW2	ZN782_HUMAN	zinc finger protein 782	513	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				GTTTGAAAGCTTTCCCACATT	0.433													101	138					0	0	1	0	0		G	99580766	G	G	99580766	3	3	89	1	0	0	0	0	1	0	0	0	18180	1606	56	5	564	5	ZNF782	9	99580766	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	59513	99580766	41632665	3624	57455											
ZNF782	158431	broad.mit.edu	37	chr9	99581316	99581316	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttatctgttgcatgagttCtctgatgcactgggagggtt	7	16	12	6	0	2	2	0	2	2	0	3	3	2	3	0	2	2	5	0	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:99581316C>A	uc004awp.1	-	6	1270	c.989G>T	c.(988-990)AGA>ATA	p.R330I	ZNF782_uc011lup.1_Missense_Mutation_p.R198I	NM_001001662	NP_001001662	Q6ZMW2	ZN782_HUMAN	zinc finger protein 782	330	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				TGCATGAGTTCTCTGATGCAC	0.398													62	164					6.75472e-32	8.2824e-32	1	1	0		A	99581316	A	A	99581316	3	1	89	1	0	0	0	0	1	0	0	0	18180	913	32	5	1114	5	ZNF782	9	99581316	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	550	99581316	41632115	3625	57456											
KIAA1529	57653	broad.mit.edu	37	chr9	100056271	100056271	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactttctgttcttctacaaCgtgctgctgggcctgggtgc	4	15	11	11	1	3	0	0	0	3	0	3	0	3	0	1	2	6	3	1	2	3	5	rs148564841		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:100056271C>T	uc011lut.1	+	11	902	c.129C>T	c.(127-129)AAC>AAT	p.N43N	KIAA1529_uc011lur.1_RNA|KIAA1529_uc004axe.1_Silent_p.N43N|KIAA1529_uc011lus.1_Intron|KIAA1529_uc010msm.1_RNA	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				TCTTCTACAACGTGCTGCTGG	0.542													59	101					0	0	1	0	0		T	100056271	T	T	100056271	2	4	89	1	0	0	0	0	0	0	0	1	8256	535	19	1		1	KIAA1529	9	100056271	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	474955	100056271	41157160	3626	57457											
TDRD7	23424	broad.mit.edu	37	chr9	100257990	100257990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaggcttctatggtgtttcGaaatcatgtggagaagaaac	12	11	13	5	1	2	2	1	0	1	2	3	5	2	3	0	4	1	2	0	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:100257990G>A	uc004axj.2	+	17	3347	c.3122G>A	c.(3121-3123)CGA>CAA	p.R1041Q	TDRD7_uc011lux.1_Missense_Mutation_p.R967Q|TDRD7_uc011luy.1_Missense_Mutation_p.R361Q	NM_014290	NP_055105	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	1041	Interacts with CDK17 (By similarity).|Interacts with CABLES1 (By similarity).				lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)				ATGGTGTTTCGAAATCATGTG	0.488													45	123					0	0	1	0	0		A	100257990	A	A	100257990	3	1	89	1	0	0	0	0	1	0	0	0	15760	1058	37	1	3184	1	TDRD7	9	100257990	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	201719	100257990	40955441	3627	57458											
TSTD2	158427	broad.mit.edu	37	chr9	100380144	100380144	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaggagcacctccccttcTtcactgccctggccactata	9	10	6	16	0	2	0	1	0	1	0	3	1	3	1	5	2	2	1	5	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:100380144T>G	uc004axn.2	-	4	986	c.498A>C	c.(496-498)GAA>GAC	p.E166D	TSTD2_uc004axo.2_5'UTR|TSTD2_uc004axp.1_5'UTR	NM_139246	NP_640339	Q5T7W7	TSTD2_HUMAN	thiosulfate sulfurtransferase (rhodanese)-like	166										ovary(2)	2						CCTCCCCTTCTTCACTGCCCT	0.493													25	45					0	0	1	0	0		G	100380144	G	G	100380144	3	3	89	1	0	0	0	0	1	0	0	0	16701	1606	56	5	1080	5	TSTD2	9	100380144	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	122154	100380144	40833287	3628	57459											
XPA	7507	broad.mit.edu	37	chr9	100449522	100449522	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctctgttttggttataagCttgtgtttatcatcagcatc	7	18	8	8	0	3	0	2	0	1	0	4	0	3	0	1	1	2	5	1	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:100449522C>T	uc004axr.3	-	4	528	c.411G>A	c.(409-411)AAG>AAA	p.K137K	XPA_uc004axs.3_RNA	NM_000380	NP_000371	P23025	XPA_HUMAN	xeroderma pigmentosum, complementation group A	137					nucleotide-excision repair, DNA damage removal	nucleoplasm	damaged DNA binding|metal ion binding|nucleotide binding|protein domain specific binding|protein homodimerization activity			breast(1)	1		Acute lymphoblastic leukemia(62;0.158)				TGGTTATAAGCTTGTGTTTAT	0.323			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		NER	Xeroderma_Pigmentosum				17	45					0	0	1	0	0		T	100449522	T	T	100449522	2	4	89	1	0	0	0	0	0	0	0	1	17466	796	28	2		2	XPA	9	100449522	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	69378	100449522	40763909	3629	57460											
HEMGN	55363	broad.mit.edu	37	chr9	100692644	100692644	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcagaatgaggtgtttCttggattgttttatgagagg	8	17	13	3	0	3	3	1	2	2	2	3	5	3	4	0	3	0	2	0	3	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:100692644C>A	uc004axy.2	-	3	1141	c.1033G>T	c.(1033-1035)GAA>TAA	p.E345*	HEMGN_uc004axz.2_Nonsense_Mutation_p.E345*	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	345					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TGAGGTGTTTCTTGGATTGTT	0.363													77	136					2.94884e-30	3.60443e-30	1	1	0		A	100692644	A	A	100692644	4	1	89	1	0	0	0	0	0	1	0	0	7066	922	32	5	429	5	HEMGN	9	100692644	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	243122	100692644	40520787	3630	57461											
HEMGN	55363	broad.mit.edu	37	chr9	100692828	100692828	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgatctgtttcattgtaTtcctctggttctgctggatt	4	20	8	9	0	4	1	1	1	3	0	5	2	5	2	2	2	1	4	2	2	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:100692828T>G	uc004axy.2	-	3	957	c.849A>C	c.(847-849)GAA>GAC	p.E283D	HEMGN_uc004axz.2_Missense_Mutation_p.E283D	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	283					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TTTCATTGTATTCCTCTGGTT	0.413													33	163					0	0	1	0	0		G	100692828	G	G	100692828	3	3	89	1	0	0	0	0	1	0	0	0	7066	1490	52	5	613	5	HEMGN	9	100692828	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	184	100692828	40520603	3631	57462											
NANS	54187	broad.mit.edu	37	chr9	100845151	100845151	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaagtctgtggtggccaaAgtgaaaattccggaaggcac	12	7	14	8	1	1	1	0	1	1	0	2	2	2	2	2	5	0	2	2	5	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:100845151A>C	uc004ayb.2	+	7	1536	c.894A>C	c.(892-894)AAA>AAC	p.K298N	NANS_uc004ayc.2_Missense_Mutation_p.K298N|TRIM14_uc004ayd.2_Intron|TRIM14_uc004ayf.1_Intron	NM_018946	NP_061819	Q9NR45	SIAS_HUMAN	N-acetylneuraminic acid phosphate synthase	298	AFP-like.				lipopolysaccharide biosynthetic process	cytoplasm	N-acetylneuraminate synthase activity|N-acylneuraminate cytidylyltransferase activity|N-acylneuraminate-9-phosphate synthase activity			skin(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TGGTGGCCAAAGTGAAAATTC	0.468													11	23					0	0	1	0	0		C	100845151	C	C	100845151	3	2	89	1	0	0	0	0	1	0	0	0	10173	69	3	5	916	5	NANS	9	100845151	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	152323	100845151	40368280	3632	57463											
GABBR2	9568	broad.mit.edu	37	chr9	101304324	101304324	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgtggttgcagcaaaagaaAgctgaaaaacacaaaagaga	20	4	11	6	1	0	3	0	1	0	2	0	4	0	3	0	1	4	4	0	1	7	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:101304324A>C	uc004ays.2	-	3	617	c.461T>G	c.(460-462)CTT>CGT	p.L154R		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	154	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	AGCAAAAGAAAGCTGAAAAAC	0.443													18	25					0	0	1	0	0		C	101304324	C	C	101304324	3	2	89	1	0	0	0	0	1	0	0	0	6170	86	3	5	2432	5	GABBR2	9	101304324	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	459173	101304324	39909107	3633	57464											
ANKS6	203286	broad.mit.edu	37	chr9	101536249	101536249	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccttcccgttgtgacgCgtccgggaccgatcagagct	5	10	12	14	5	2	2	1	1	1	1	4	4	4	3	4	1	2	2	4	1	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:101536249C>T	uc004ayu.2	-	9	1752	c.1731G>A	c.(1729-1731)ACG>ACA	p.T577T	ANKS6_uc004ayt.2_Silent_p.T276T|ANKS6_uc004ayv.1_Silent_p.T39T|ANKS6_uc004ayw.1_Silent_p.T159T|ANKS6_uc004ayx.1_RNA|ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	577										ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				CGTTGTGACGCGTCCGGGACC	0.632													20	35					0	0	1	0	0		T	101536249	T	T	101536249	2	4	89	1	0	0	0	0	0	0	0	1	692	755	27	1		1	ANKS6	9	101536249	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	231925	101536249	39677182	3634	57465											
COL15A1	1306	broad.mit.edu	37	chr9	101767207	101767207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataatgaagagcgtttagcaGcaacagcagcaggggaggcc	14	5	14	8	1	0	2	0	1	0	1	0	3	0	3	1	3	6	5	1	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:101767207G>A	uc004azb.1	+	9	1434	c.1228G>A	c.(1228-1230)GCA>ACA	p.A410T		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	410	Nonhelical region 1 (NC1).|4 X tandem repeats.|2.				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				GCGTTTAGCAGCAACAGCAGC	0.597													49	75					0	0	1	0	0		A	101767207	A	A	101767207	3	1	89	1	0	0	0	0	1	0	0	0	3675	971	34	2	1262	2	COL15A1	9	101767207	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	230958	101767207	39446224	3635	57466											
COL15A1	1306	broad.mit.edu	37	chr9	101801001	101801001	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttctcggacattcctgagCtggtggggcctccggttggt	4	13	14	10	2	1	1	0	1	1	0	4	2	3	2	3	6	1	2	3	6	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:101801001C>T	uc004azb.1	+	22	2667	c.2461C>T	c.(2461-2463)CTG>TTG	p.L821L		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	821	Nonhelical region 4 (NC4).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				CATTCCTGAGCTGGTGGGGCC	0.463													38	108					0	0	1	0	0		T	101801001	T	T	101801001	2	4	89	1	0	0	0	0	0	0	0	1	3675	796	28	2		2	COL15A1	9	101801001	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	33794	101801001	39412430	3636	57467											
INVS	27130	broad.mit.edu	37	chr9	102988353	102988353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttatttagggaaattatCgtttcatgaaactcttactt	11	20	5	5	1	2	1	1	1	1	0	3	2	2	2	0	1	2	1	0	1	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:102988353C>T	uc004bap.1	+	4	495	c.283C>T	c.(283-285)CGT>TGT	p.R95C	INVS_uc010mta.1_5'UTR|INVS_uc011lve.1_5'UTR|INVS_uc004bao.1_Missense_Mutation_p.R95C|INVS_uc004baq.1_5'UTR|INVS_uc004bar.1_5'UTR|INVS_uc010mtb.1_5'UTR	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	95	ANK 3.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				GGGAAATTATCGTTTCATGAA	0.333													11	17					0	0	1	0	0		T	102988353	T	T	102988353	3	4	89	1	0	0	0	0	1	0	0	0	7803	884	31	1	293	1	INVS	9	102988353	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1187352	102988353	38225078	3637	57468											
ZNF189	7743	broad.mit.edu	37	chr9	104170264	104170264	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaaaacaagagattgaaGaaattgaggaagaagtggaa	20	7	12	2	0	0	5	0	2	0	3	0	8	0	7	0	2	1	1	0	2	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:104170264G>T	uc004bbh.1	+	3	490	c.214G>T	c.(214-216)GAA>TAA	p.E72*	ZNF189_uc004bbg.1_Nonsense_Mutation_p.E30*|ZNF189_uc004bbi.1_Nonsense_Mutation_p.E58*|ZNF189_uc011lvk.1_Nonsense_Mutation_p.E57*	NM_003452	NP_003443	O75820	ZN189_HUMAN	zinc finger protein 189 isoform 1	72	KRAB.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|kidney(1)|central_nervous_system(1)	6		Acute lymphoblastic leukemia(62;0.0559)				AGAGATTGAAGAAATTGAGGA	0.363													13	23					0.000151284	0.000154703	1	1	0		T	104170264	T	T	104170264	4	4	89	1	0	0	0	0	0	1	0	0	17779	943	33	5	224	5	ZNF189	9	104170264	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1181911	104170264	37043167	3638	57469											
RNF20	56254	broad.mit.edu	37	chr9	104317003	104317003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atctaaggcaaagactcaagGatctggaagataaagagaag	19	6	11	5	0	3	3	1	0	2	3	3	6	3	5	0	3	0	1	0	3	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:104317003G>A	uc004bbn.2	+	15	2137	c.2047G>A	c.(2047-2049)GAT>AAT	p.D683N		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	683	Potential.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		AAGACTCAAGGATCTGGAAGA	0.368													17	29					0	0	1	0	0		A	104317003	A	A	104317003	3	1	89	1	0	0	0	0	1	0	0	0	13498	1174	41	4	2101	4	RNF20	9	104317003	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	146739	104317003	36896428	3639	57470											
CYLC2	1539	broad.mit.edu	37	chr9	105767051	105767051	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttctttaatgagaatttcTgagagaccatctgtttattt	10	18	7	6	1	3	3	0	2	3	2	3	5	3	3	1	0	0	2	1	0	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:105767051T>A	uc004bbs.2	+	4	325	c.255T>A	c.(253-255)TCT>TCA	p.S85S		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	85	31 X 3 AA repeats of K-K-X.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				TGAGAATTTCTGAGAGACCAT	0.393													30	33					0	0	1	0	0		A	105767051	A	A	105767051	2	1	89	1	0	0	0	0	0	0	0	1	4145	1567	55	5		5	CYLC2	9	105767051	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1450048	105767051	35446380	3640	57471											
CYLC2	1539	broad.mit.edu	37	chr9	105767610	105767610	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcaaggattcagccataGaattacaagctgtaaaagca	17	7	10	7	0	1	1	1	0	0	1	1	2	1	2	1	2	4	4	1	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:105767610G>T	uc004bbs.2	+	5	767	c.697G>T	c.(697-699)GAA>TAA	p.E233*		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	233	3 X approximate tandem repeats.|31 X 3 AA repeats of K-K-X.|3.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				TTCAGCCATAGAATTACAAGC	0.388													17	49					6.49762e-13	7.22526e-13	1	1	0		T	105767610	T	T	105767610	4	4	89	1	0	0	0	0	0	1	0	0	4145	943	33	5	715	5	CYLC2	9	105767610	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	559	105767610	35445821	3641	57472											
OR13C4	138804	broad.mit.edu	37	chr9	107288807	107288807	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcttcctgtggccgagttCgttcgcaagatggtgtagag	6	13	14	8	3	1	2	0	0	1	2	4	3	2	2	2	2	0	4	2	2	2	4	rs141274906	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:107288807C>T	uc011lvn.1	-	1	684	c.684G>A	c.(682-684)ACG>ACA	p.T228T		NM_001001919	NP_001001919	Q8NGS5	O13C4_HUMAN	olfactory receptor, family 13, subfamily C,	228	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGGCCGAGTTCGTTCGCAAGA	0.408													40	104					0	0	1	0	0		T	107288807	T	T	107288807	2	4	89	1	0	0	0	0	0	0	0	1	10955	871	31	1		1	OR13C4	9	107288807	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1521197	107288807	33924624	3642	57473											
OR13C5	138799	broad.mit.edu	37	chr9	107361671	107361671	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagaaaaaattccaccagAatggtgtggttttcccattc	12	13	7	9	0	1	2	1	0	0	2	4	2	3	2	3	2	0	1	3	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:107361671A>G	uc011lvp.1	-	1	24	c.24T>C	c.(22-24)ATT>ATC	p.I8I		NM_001004482	NP_001004482	Q8NGS8	O13C5_HUMAN	olfactory receptor, family 13, subfamily C,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4						ATTCCACCAGAATGGTGTGGT	0.383													37	92					0	0	1	0	0		G	107361671	G	G	107361671	2	3	89	1	0	0	0	0	0	0	0	1	10956	242	9	3		3	OR13C5	9	107361671	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	72864	107361671	33851760	3643	57474											
ABCA1	19	broad.mit.edu	37	chr9	107547710	107547710	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctgagaaacagagtagtcTtctatgtggagtcgcttttt	9	15	11	6	1	3	2	0	1	3	2	4	4	3	3	0	1	1	2	0	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:107547710T>G	uc004bcl.2	-	49	6925	c.6612A>C	c.(6610-6612)GAA>GAC	p.E2204D	NIPSNAP3B_uc004bcj.1_Intron	NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	2204					Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CAGAGTAGTCTTCTATGTGGA	0.473													18	48					0	0	1	0	0		G	107547710	G	G	107547710	3	3	89	1	0	0	0	0	1	0	0	0	28	1606	56	5	181	5	ABCA1	9	107547710	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	186039	107547710	33665721	3644	57475											
ABCA1	19	broad.mit.edu	37	chr9	107582240	107582240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttttgcttttcagcttgCttgatggcaaaccaacatcc	8	16	7	10	0	1	1	1	1	0	0	2	1	2	1	2	1	5	5	2	1	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:107582240C>T	uc004bcl.2	-	21	3384	c.3071G>A	c.(3070-3072)AGC>AAC	p.S1024N		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1024	ABC transporter 1.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TTTCAGCTTGCTTGATGGCAA	0.552													40	78					0	0	1	0	0		T	107582240	T	T	107582240	3	4	89	1	0	0	0	0	1	0	0	0	28	797	28	2	3834	2	ABCA1	9	107582240	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34530	107582240	33631191	3645	57476											
TMEM38B	55151	broad.mit.edu	37	chr9	108536166	108536166	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaccatgatgactacacaGacttctactatgacatttgc	14	12	5	10	0	1	4	0	3	1	1	1	4	1	4	1	0	4	0	1	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:108536166G>T	uc004bcu.1	+	6	798	c.681G>T	c.(679-681)CAG>CAT	p.Q227H	TMEM38B_uc010mtn.1_3'UTR	NM_018112	NP_060582	Q9NVV0	TM38B_HUMAN	transmembrane protein 38B	227	Helical; (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			ovary(1)|skin(1)	2						TGACTACACAGACTTCTACTA	0.348													28	85					1.39806e-14	1.58014e-14	1	1	0		T	108536166	T	T	108536166	3	4	89	1	0	0	0	0	1	0	0	0	16185	933	33	5	703	5	TMEM38B	9	108536166	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	953926	108536166	32677265	3646	57477											
ZNF462	58499	broad.mit.edu	37	chr9	109691051	109691051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgaagctgccagtccccctcGagcccgagatgaccactgaa	10	5	10	16	3	0	3	0	2	0	1	2	6	1	3	5	0	3	1	5	0	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:109691051G>A	uc004bcz.2	+	3	5147	c.4858G>A	c.(4858-4860)GAG>AAG	p.E1620K	ZNF462_uc010mto.2_Missense_Mutation_p.E1468K|ZNF462_uc004bda.2_Missense_Mutation_p.E1468K	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1620					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						AGTCCCCCTCGAGCCCGAGAT	0.542													39	93					0	0	1	0	0		A	109691051	A	A	109691051	3	1	89	1	0	0	0	0	1	0	0	0	17951	1059	37	1	4864	1	ZNF462	9	109691051	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1154885	109691051	31522380	3647	57478											
ACTL7A	10881	broad.mit.edu	37	chr9	111624759	111624759	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacgagttcagagccacaaGaacctactgaatcaaaggca	17	6	8	10	1	2	3	2	1	0	2	2	4	2	3	2	1	4	2	2	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:111624759G>T	uc004bdj.1	+	1	157	c.157G>T	c.(157-159)GAA>TAA	p.E53*		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	53						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						AGAGCCACAAGAACCTACTGA	0.607													25	50					2.12542e-12	2.35257e-12	1	1	0		T	111624759	T	T	111624759	4	4	89	1	0	0	0	0	0	1	0	0	200	943	33	5	159	5	ACTL7A	9	111624759	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1933708	111624759	29588672	3648	57479											
IKBKAP	8518	broad.mit.edu	37	chr9	111689701	111689701	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactccaactcataacagaGataccactggctacactccc	13	7	6	15	0	1	1	1	0	0	1	3	3	3	2	3	2	4	1	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:111689701G>T	uc004bdm.3	-	4	856	c.336C>A	c.(334-336)ATC>ATA	p.I112I	IKBKAP_uc011lwc.1_5'UTR|IKBKAP_uc010mtq.2_Intron	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	112					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						TCATAACAGAGATACCACTGG	0.433													39	65					1.48646e-12	1.65046e-12	1	1	0		T	111689701	T	T	111689701	2	4	89	1	0	0	0	0	0	0	0	1	7626	932	33	5		5	IKBKAP	9	111689701	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	64942	111689701	29523730	3649	57480											
CTNNAL1	8727	broad.mit.edu	37	chr9	111761501	111761501	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagagttttatcagacttTttggtattatctttatgatt	9	21	7	4	0	2	3	1	1	1	2	2	3	2	3	0	1	1	3	0	1	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:111761501T>G	uc004bdo.1	-	2	219	c.177A>C	c.(175-177)AAA>AAC	p.K59N	CTNNAL1_uc010mtt.1_Missense_Mutation_p.K59N|CTNNAL1_uc004bdp.1_Missense_Mutation_p.K59N	NM_003798	NP_003789	Q9UBT7	CTNL1_HUMAN	catenin, alpha-like 1	59					cell adhesion|Rho protein signal transduction	actin cytoskeleton|cytosol|plasma membrane	cadherin binding|structural molecule activity			ovary(1)	1				STAD - Stomach adenocarcinoma(157;0.0768)		TATCAGACTTTTTGGTATTAT	0.323													66	123					0	0	1	0	0		G	111761501	G	G	111761501	3	3	89	1	0	0	0	0	1	0	0	0	4018	1838	64	5	2099	5	CTNNAL1	9	111761501	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	71800	111761501	29451930	3650	57481											
C9orf5	23731	broad.mit.edu	37	chr9	111795637	111795637	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttggcgtgggaactgaattCgtgggactcactagcatggc	8	11	14	8	2	1	1	1	1	0	0	2	3	1	3	0	4	2	1	0	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:111795637C>T	uc004bdt.3	-	17	2576	c.2544G>A	c.(2542-2544)ACG>ACA	p.T848T	C9orf5_uc004bds.3_RNA|C9orf5_uc004bdr.3_Silent_p.T840T	NM_032012	NP_114401	Q9H330	CI005_HUMAN	hypothetical protein LOC23731	848						integral to membrane				central_nervous_system(1)	1		Myeloproliferative disorder(63;0.204)		OV - Ovarian serous cystadenocarcinoma(323;3.08e-05)|STAD - Stomach adenocarcinoma(157;0.0823)		GAACTGAATTCGTGGGACTCA	0.468													50	113					0	0	1	0	0		T	111795637	T	T	111795637	2	4	89	1	0	0	0	0	0	0	0	1	2489	871	31	1		1	C9orf5	9	111795637	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34136	111795637	29417794	3651	57482											
EPB41L4B	54566	broad.mit.edu	37	chr9	112018421	112018421	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaactaaattaccaaaaGaataagcctattttgttagc	19	11	4	7	0	0	1	0	0	0	1	0	1	0	1	2	0	4	1	2	0	11	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:112018421G>T	uc004bdz.1	-	9	1219	c.924C>A	c.(922-924)TTC>TTA	p.F308L	EPB41L4B_uc004bea.2_Missense_Mutation_p.F308L	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	308	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						ATTACCAAAAGAATAAGCCTA	0.363													34	79					2.42023e-17	2.79957e-17	1	1	0		T	112018421	T	T	112018421	3	4	89	1	0	0	0	0	1	0	0	0	5164	933	33	5	2002	5	EPB41L4B	9	112018421	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	222784	112018421	29195010	3652	57483											
SVEP1	79987	broad.mit.edu	37	chr9	113170530	113170530	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaggccttgcacatcaatGattccattggggatttcctc	9	12	9	11	0	1	1	1	1	0	0	4	2	3	2	3	3	1	2	3	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:113170530G>T	uc010mtz.2	-	38	7687	c.7350C>A	c.(7348-7350)ATC>ATA	p.I2450I	SVEP1_uc010mty.2_Silent_p.I376I	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	2450	Sushi 18.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GCACATCAATGATTCCATTGG	0.498													8	33					0.00307968	0.0031162	1	1	0		T	113170530	T	T	113170530	2	4	89	1	0	0	0	0	0	0	0	1	15445	1280	45	5		5	SVEP1	9	113170530	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1152109	113170530	28042901	3653	57484											
SVEP1	79987	broad.mit.edu	37	chr9	113198718	113198718	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttatggagcccacaaaaGactcagctgggctgaatccc	11	7	11	12	0	1	2	1	1	0	1	2	3	2	3	2	3	2	3	2	3	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:113198718G>T	uc010mtz.2	-	28	5043	c.4706C>A	c.(4705-4707)TCT>TAT	p.S1569Y		NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1569	Pentaxin.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GCCCACAAAAGACTCAGCTGG	0.473													20	54					0.000132079	0.000135131	1	1	0		T	113198718	T	T	113198718	3	4	89	1	0	0	0	0	1	0	0	0	15445	942	33	5	6093	5	SVEP1	9	113198718	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	28188	113198718	28014713	3654	57485											
SVEP1	79987	broad.mit.edu	37	chr9	113208196	113208196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtgttccatagttcatgtCgtcagaggatttcatccaga	9	14	10	8	1	3	2	3	0	0	2	6	3	5	3	2	2	0	2	2	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:113208196C>T	uc010mtz.2	-	26	4721	c.4384G>A	c.(4384-4386)GAC>AAC	p.D1462N	SVEP1_uc010mua.1_Missense_Mutation_p.D1462N	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1462	Pentaxin.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TAGTTCATGTCGTCAGAGGAT	0.458													40	67					0	0	1	0	0		T	113208196	T	T	113208196	3	4	89	1	0	0	0	0	1	0	0	0	15445	884	31	1	6423	1	SVEP1	9	113208196	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9478	113208196	28005235	3655	57486											
SVEP1	79987	broad.mit.edu	37	chr9	113221386	113221386	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgagaattttccttctggAcaaggaactgcagaggtaaa	13	9	11	8	2	1	2	0	0	1	2	2	5	2	4	1	3	2	2	1	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:113221386A>G	uc010mtz.2	-	19	3667	c.3330T>C	c.(3328-3330)TGT>TGC	p.C1110C	SVEP1_uc010mua.1_Silent_p.C1110C	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1110					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TTCCTTCTGGACAAGGAACTG	0.428													40	90					0	0	1	0	0		G	113221386	G	G	113221386	2	3	89	1	0	0	0	0	0	0	0	1	15445	273	10	3		3	SVEP1	9	113221386	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	13190	113221386	27992045	3656	57487											
LPAR1	1902	broad.mit.edu	37	chr9	113704061	113704061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaaaccgtaatgtgcctctCgattgcaatagccagtaagt	13	10	9	9	2	1	0	0	0	1	0	2	2	1	0	3	0	4	3	3	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:113704061C>T	uc004bfa.2	-	4	688	c.433G>A	c.(433-435)GAG>AAG	p.E145K	LPAR1_uc011lwm.1_Missense_Mutation_p.E146K|LPAR1_uc004bfb.2_Missense_Mutation_p.E145K|LPAR1_uc004bfc.2_Missense_Mutation_p.E145K|LPAR1_uc011lwn.1_Missense_Mutation_p.E127K|LPAR1_uc011lwo.1_Missense_Mutation_p.E146K|LPAR1_uc010mub.2_Missense_Mutation_p.E145K	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	145	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						ATGTGCCTCTCGATTGCAATA	0.537													54	92					0	0	1	0	0		T	113704061	T	T	113704061	3	4	89	1	0	0	0	0	1	0	0	0	8922	893	31	1	669	1	LPAR1	9	113704061	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	482675	113704061	27509370	3657	57488											
ZNF483	158399	broad.mit.edu	37	chr9	114304143	114304143	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaaagcccctttggacatAatttcaaagaaacttcagac	17	10	5	9	0	2	2	2	0	0	2	2	3	2	3	2	1	2	0	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:114304143A>G	uc004bff.2	+	6	1152	c.928A>G	c.(928-930)AAT>GAT	p.N310D	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	310					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						CTTTGGACATAATTTCAAAGA	0.378													92	162					0	0	1	0	0		G	114304143	G	G	114304143	3	3	89	1	0	0	0	0	1	0	0	0	17961	362	13	3	946	3	ZNF483	9	114304143	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	600082	114304143	26909288	3658	57489											
DNAJC25	548645	broad.mit.edu	37	chr9	114412194	114412194	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagagctctggatcaaggaGaattatgaggtgagtagtca	13	9	14	5	1	3	4	2	2	1	2	3	7	3	5	0	3	1	2	0	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:114412194G>T	uc004bfl.2	+	3	1007	c.951G>T	c.(949-951)GAG>GAT	p.E317D	DNAJC25-GNG10_uc004bfn.2_Intron|DNAJC25_uc004bfm.2_Missense_Mutation_p.E195D	NM_001015882	NP_001015882	Q9H1X3	DJC25_HUMAN	DnaJ (Hsp40) homolog, subfamily C , member 25	317					protein folding	integral to membrane	heat shock protein binding|unfolded protein binding				0						GGATCAAGGAGAATTATGAGG	0.373													17	26					2.23348e-06	2.32221e-06	1	1	0		T	114412194	T	T	114412194	3	4	89	1	0	0	0	0	1	0	0	0	4649	933	33	5	961	5	DNAJC25	9	114412194	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	108051	114412194	26801237	3659	57490											
C9orf84	158401	broad.mit.edu	37	chr9	114462248	114462248	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatacctttacatccagttCttcagagtttagcccaaatg	12	13	6	10	0	2	1	1	0	1	1	3	2	3	1	3	0	3	2	3	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:114462248C>A	uc004bfr.2	-	22	3112	c.2977G>T	c.(2977-2979)GAA>TAA	p.E993*	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Nonsense_Mutation_p.E954*|C9orf84_uc010mug.2_Nonsense_Mutation_p.E904*	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	993										ovary(2)	2						ACATCCAGTTCTTCAGAGTTT	0.318													42	79					1.15505e-17	1.34158e-17	1	1	0		A	114462248	A	A	114462248	4	1	89	1	0	0	0	0	0	1	0	0	2503	922	32	5	1377	5	C9orf84	9	114462248	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	50054	114462248	26751183	3660	57491											
UGCG	7357	broad.mit.edu	37	chr9	114687128	114687128	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagttgcaaagtatgatCttatatggatttgtgatagt	13	16	10	2	0	1	3	0	3	1	0	1	4	1	4	0	1	1	3	0	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:114687128C>A	uc004bft.2	+	4	705	c.415C>A	c.(415-417)CTT>ATT	p.L139I		NM_003358	NP_003349	Q16739	CEGT_HUMAN	ceramide glucosyltransferase	139	Cytoplasmic (Potential).				epidermis development|glucosylceramide biosynthetic process	Golgi membrane|integral to membrane|membrane fraction	ceramide glucosyltransferase activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(323;0.0433)	Miglustat(DB00419)	AAAGTATGATCTTATATGGAT	0.259													25	48					8.24728e-16	9.42941e-16	1	1	0		A	114687128	A	A	114687128	3	1	89	1	0	0	0	0	1	0	0	0	16965	913	32	5	429	5	UGCG	9	114687128	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	224880	114687128	26526303	3661	57492											
UGCG	7357	broad.mit.edu	37	chr9	114688676	114688676	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattgtagtaattccagataCgcttactgacatggtgaatc	13	13	8	7	1	0	3	0	2	0	1	2	3	1	3	1	1	2	3	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:114688676C>T	uc004bft.2	+	5	748	c.458C>T	c.(457-459)ACG>ATG	p.T153M		NM_003358	NP_003349	Q16739	CEGT_HUMAN	ceramide glucosyltransferase	153	Cytoplasmic (Potential).				epidermis development|glucosylceramide biosynthetic process	Golgi membrane|integral to membrane|membrane fraction	ceramide glucosyltransferase activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(323;0.0433)	Miglustat(DB00419)	ATTCCAGATACGCTTACTGAC	0.383													37	88					0	0	1	0	0		T	114688676	T	T	114688676	3	4	89	1	0	0	0	0	1	0	0	0	16965	536	19	1	476	1	UGCG	9	114688676	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1548	114688676	26524755	3662	57493											
KIAA1958	158405	broad.mit.edu	37	chr9	115421687	115421687	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgcaggtgtcggctttTccatcaccagcagcaccttc	9	10	9	13	1	1	1	1	0	0	1	4	1	2	1	3	2	3	4	3	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:115421687T>C	uc004bgf.1	+	4	1664	c.1489T>C	c.(1489-1491)TCC>CCC	p.S497P	KIAA1958_uc011lwx.1_Missense_Mutation_p.S525P	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	497										skin(1)	1						TGTCGGCTTTTCCATCACCAG	0.592													16	30					0	0	1	0	0		C	115421687	C	C	115421687	3	2	89	1	0	0	0	0	1	0	0	0	8280	1783	62	3	1499	3	KIAA1958	9	115421687	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	733011	115421687	25791744	3663	57494											
KIAA1958	158405	broad.mit.edu	37	chr9	115421766	115421766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgagtaaggcaggcatgtCgggcgcgcgttctcgcaaca	8	7	15	11	5	1	1	0	1	1	0	3	1	1	1	0	3	1	6	0	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:115421766C>T	uc004bgf.1	+	4	1743	c.1568C>T	c.(1567-1569)TCG>TTG	p.S523L	KIAA1958_uc011lwx.1_Missense_Mutation_p.S551L	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	523										skin(1)	1						GCAGGCATGTCGGGCGCGCGT	0.567													6	21					0	0	1	0	0		T	115421766	T	T	115421766	3	4	89	1	0	0	0	0	1	0	0	0	8280	893	31	1	1578	1	KIAA1958	9	115421766	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	79	115421766	25791665	3664	57495											
ZNF883	169834	broad.mit.edu	37	chr9	115759713	115759713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcagtaaggtgtgtacttCgactgaaggtttttccacat	9	15	10	7	1	1	1	1	1	0	0	3	2	2	1	1	2	1	4	1	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:115759713C>T	uc011lwy.1	-	5	2066	c.827G>A	c.(826-828)CGA>CAA	p.R276Q		NM_001101338	NP_001094808	P0CG24	ZN883_HUMAN	hypothetical protein LOC169834	276	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTGTGTACTTCGACTGAAGGT	0.378													56	125					0	0	1	0	0		T	115759713	T	T	115759713	3	4	89	1	0	0	0	0	1	0	0	0	18223	884	31	1	314	1	ZNF883	9	115759713	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	337947	115759713	25453718	3665	57496											
ZFP37	7539	broad.mit.edu	37	chr9	115805311	115805311	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgttgagtaaggccttcAatttgtttaaagcctttccc	9	16	8	8	0	1	2	1	2	0	0	2	2	2	2	3	1	1	3	3	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:115805311A>C	uc004bgm.1	-	4	1615	c.1587T>G	c.(1585-1587)ATT>ATG	p.I529M	ZFP37_uc011lwz.1_Missense_Mutation_p.I544M|ZFP37_uc011lxa.1_Missense_Mutation_p.I530M	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	529	C2H2-type 9.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TAAGGCCTTCAATTTGTTTAA	0.398													36	47					0	0	1	0	0		C	115805311	C	C	115805311	3	2	89	1	0	0	0	0	1	0	0	0	17673	126	5	5	309	5	ZFP37	9	115805311	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	45598	115805311	25408120	3666	57497											
ZFP37	7539	broad.mit.edu	37	chr9	115806243	115806243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgctttttgcctttccttgTatcagataagctatggttga	7	19	8	7	0	1	2	1	1	0	1	2	2	2	2	2	1	3	4	2	1	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:115806243T>C	uc004bgm.1	-	4	683	c.655A>G	c.(655-657)ACA>GCA	p.T219A	ZFP37_uc011lwz.1_Missense_Mutation_p.T234A|ZFP37_uc011lxa.1_Missense_Mutation_p.T220A	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	219						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CCTTTCCTTGTATCAGATAAG	0.343													11	212					0	0	1	0	0		C	115806243	C	C	115806243	3	2	89	1	0	0	0	0	1	0	0	0	17673	1638	57	3	1241	3	ZFP37	9	115806243	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	932	115806243	25407188	3667	57498											
FKBP15	23307	broad.mit.edu	37	chr9	115946040	115946040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgtcattacctctgatttCgttcaattagttcactaatc	9	17	4	11	1	4	1	3	1	1	0	6	1	4	1	2	0	1	2	2	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:115946040C>T	uc004bgs.2	-	18	1920	c.1802G>A	c.(1801-1803)CGA>CAA	p.R601Q	FKBP15_uc010muu.1_Missense_Mutation_p.R665Q|FKBP15_uc004bgr.2_Missense_Mutation_p.R48Q|FKBP15_uc011lxc.1_Missense_Mutation_p.R182Q|FKBP15_uc011lxd.1_Missense_Mutation_p.R533Q|FKBP15_uc010mut.1_Missense_Mutation_p.R469Q	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	601	Potential.				endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						CCTCTGATTTCGTTCAATTAG	0.373													29	68					0	0	1	0	0		T	115946040	T	T	115946040	3	4	89	1	0	0	0	0	1	0	0	0	5919	884	31	1	1901	1	FKBP15	9	115946040	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	139797	115946040	25267391	3668	57499											
PRPF4	9128	broad.mit.edu	37	chr9	116041260	116041260	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgaagagcatatcagcgagCgacaggcagaagtattggct	13	8	13	7	2	1	3	1	1	0	2	1	5	1	3	0	2	3	4	0	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:116041260C>T	uc004bgx.2	+	3	294	c.244C>T	c.(244-246)CGA>TGA	p.R82*	PRPF4_uc004bgy.2_Nonsense_Mutation_p.R81*	NM_004697	NP_004688	O43172	PRP4_HUMAN	PRP4 pre-mRNA processing factor 4 homolog	82				HISERQAEVLAEFERRKRARQINVST -> ISASDRQKYWL SLREGSEPGRSMFPP (in Ref. 3; AAC02261).		Cajal body|nuclear speck|spliceosomal complex|U4/U6 snRNP	protein binding			ovary(2)|pancreas(1)	3						TATCAGCGAGCGACAGGCAGA	0.418													44	69					0	0	1	0	0		T	116041260	T	T	116041260	4	4	89	1	0	0	0	0	0	1	0	0	12592	760	27	1	254	1	PRPF4	9	116041260	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	95220	116041260	25172171	3669	57500											
WDR31	114987	broad.mit.edu	37	chr9	116080896	116080896	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atactcacatattctgtttcGagtctgtcttaggtcccaca	9	15	6	11	1	4	0	1	0	3	0	6	1	5	0	1	1	1	1	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:116080896G>A	uc004bhe.2	-	10	1054	c.802C>T	c.(802-804)CGA>TGA	p.R268*	WDR31_uc004bhc.2_Nonsense_Mutation_p.R267*|WDR31_uc004bhd.2_Nonsense_Mutation_p.R143*|WDR31_uc004bhf.2_RNA	NM_001012361	NP_001012361	Q8NA23	WDR31_HUMAN	WD repeat domain 31 isoform 1	268											0						ATTCTGTTTCGAGTCTGTCTT	0.458													31	69					0	0	1	0	0		A	116080896	A	A	116080896	4	1	89	1	0	0	0	0	0	1	0	0	17312	1066	37	1	309	1	WDR31	9	116080896	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	39636	116080896	25132535	3670	57501											
WDR31	114987	broad.mit.edu	37	chr9	116094237	116094237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttgctgtttccccatcacGacacaaaacctaaacgaaac	14	9	4	14	2	1	0	1	0	0	0	2	2	2	0	3	0	4	2	3	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:116094237G>A	uc004bhe.2	-	3	318	c.66C>T	c.(64-66)GTC>GTT	p.V22V	WDR31_uc004bhc.2_Silent_p.V22V|WDR31_uc004bhd.2_5'UTR|WDR31_uc004bhf.2_Intron	NM_001012361	NP_001012361	Q8NA23	WDR31_HUMAN	WD repeat domain 31 isoform 1	22											0						TCCCCATCACGACACAAAACC	0.473													25	60					0	0	1	0	0		A	116094237	A	A	116094237	2	1	89	1	0	0	0	0	0	0	0	1	17312	1045	37	1		1	WDR31	9	116094237	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13341	116094237	25119194	3671	57502											
RGS3	5998	broad.mit.edu	37	chr9	116269874	116269874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgtgccactgcccccaccGaccccaactacatcatcctg	8	6	5	22	2	1	0	1	0	0	0	2	1	2	0	8	0	4	0	8	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:116269874G>A	uc004bhq.2	+	14	1602	c.1393G>A	c.(1393-1395)GAC>AAC	p.D465N	RGS3_uc004bhr.2_Missense_Mutation_p.D353N|RGS3_uc004bhs.2_Missense_Mutation_p.D355N|RGS3_uc004bht.2_Missense_Mutation_p.D184N|RGS3_uc010muy.2_Missense_Mutation_p.D184N|RGS3_uc004bhu.2_Missense_Mutation_p.D91N	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	465					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						TGCCCCCACCGACCCCAACTA	0.562													3	5					0	0	1	0	0		A	116269874	A	A	116269874	3	1	89	1	0	0	0	0	1	0	0	0	13331	1058	37	1	1584	1	RGS3	9	116269874	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	175637	116269874	24943557	3672	57503											
ZNF618	114991	broad.mit.edu	37	chr9	116812263	116812263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatctcttccagtactggtCgtgcgttacccaaaagcaca	10	11	8	12	2	1	1	0	1	1	0	4	1	2	1	2	1	4	3	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:116812263C>T	uc004bid.2	+	15	2780	c.2681C>T	c.(2680-2682)TCG>TTG	p.S894L	ZNF618_uc004bic.2_Missense_Mutation_p.S801L|ZNF618_uc011lxi.1_Missense_Mutation_p.S861L|ZNF618_uc011lxj.1_Missense_Mutation_p.S862L|ZNF618_uc010mvb.2_Missense_Mutation_p.S484L	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	894					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CAGTACTGGTCGTGCGTTACC	0.562													30	54					0	0	1	0	0		T	116812263	T	T	116812263	3	4	89	1	0	0	0	0	1	0	0	0	18067	893	31	1	2456	1	ZNF618	9	116812263	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	542389	116812263	24401168	3673	57504											
COL27A1	85301	broad.mit.edu	37	chr9	116930507	116930507	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctaccctgtgacgcaggtCgctcacaattactgtaccca	10	10	7	14	2	2	1	1	1	1	0	3	1	2	1	2	1	3	3	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:116930507C>T	uc011lxl.1	+	3	672	c.672C>T	c.(670-672)GTC>GTT	p.V224V	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Silent_p.V74V	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	224	Laminin G-like.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						TGACGCAGGTCGCTCACAATT	0.562													32	55					0	0	1	0	0		T	116930507	T	T	116930507	2	4	89	1	0	0	0	0	0	0	0	1	3688	871	31	1		1	COL27A1	9	116930507	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	118244	116930507	24282924	3674	57505											
DFNB31	25861	broad.mit.edu	37	chr9	117266526	117266526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gttgacgcgcagaatctggtCcccgacccgcagtccttcct	6	9	10	16	4	1	2	0	1	1	1	4	3	4	2	5	1	0	3	5	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:117266526C>T	uc004biz.3	-	1	1205	c.556G>A	c.(556-558)GAC>AAC	p.D186N	DFNB31_uc004biy.3_5'Flank|DFNB31_uc004bja.3_Missense_Mutation_p.D186N|DFNB31_uc004bjb.2_Missense_Mutation_p.D186N	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	186	PDZ 1.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						AGAATCTGGTCCCCGACCCGC	0.547													37	81					0	0	1	0	0		T	117266526	T	T	117266526	3	4	89	1	0	0	0	0	1	0	0	0	4461	855	30	4	2215	4	DFNB31	9	117266526	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	336019	117266526	23946905	3675	57506											
TNFSF8	944	broad.mit.edu	37	chr9	117666356	117666356	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaattgagagagattctggTatacgtgtttcgtttgcatt	10	16	11	4	2	1	3	0	1	1	3	2	5	1	3	0	1	2	4	0	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:117666356T>C	uc004bji.1	-	4	747	c.560A>G	c.(559-561)TAC>TGC	p.Y187C		NM_001244	NP_001235	P32971	TNFL8_HUMAN	tumor necrosis factor (ligand) superfamily,	187	Extracellular (Potential).				cell proliferation|cell-cell signaling|immune response|induction of apoptosis|signal transduction	extracellular space|integral to plasma membrane	cytokine activity|tumor necrosis factor receptor binding			lung(3)|skin(2)|ovary(1)	6						GAGATTCTGGTATACGTGTTT	0.428													54	102					0	0	1	0	0		C	117666356	C	C	117666356	3	2	89	1	0	0	0	0	1	0	0	0	16336	1638	57	3	148	3	TNFSF8	9	117666356	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	399830	117666356	23547075	3676	57507											
TNC	3371	broad.mit.edu	37	chr9	117825464	117825464	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtttcccatatctggaacCtcctctgcataaggacacag	11	10	8	12	0	2	0	0	0	2	0	4	2	4	2	3	3	2	2	3	3	3	3	rs149347382		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:117825464C>A	uc004bjj.3	-	13	4127	c.3765G>T	c.(3763-3765)GAG>GAT	p.E1255D	TNC_uc010mvf.2_Missense_Mutation_p.E1255D	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1255	Fibronectin type-III 8.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TATCTGGAACCTCCTCTGCAT	0.483													16	37					1.67942e-08	1.78672e-08	1	1	0		A	117825464	A	A	117825464	3	1	89	1	0	0	0	0	1	0	0	0	16295	680	24	5	2904	5	TNC	9	117825464	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	159108	117825464	23387967	3677	57508											
TNC	3371	broad.mit.edu	37	chr9	117840406	117840406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taggtcagctcaatgccatcGatctcagccaggggcttgaa	10	9	11	11	1	3	1	3	1	1	0	5	2	3	1	2	3	3	2	2	3	3	2	rs145321605	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:117840406G>A	uc004bjj.3	-	7	2852	c.2490C>T	c.(2488-2490)ATC>ATT	p.I830I	TNC_uc010mvf.2_Silent_p.I830I	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	830	Fibronectin type-III 3.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CAATGCCATCGATCTCAGCCA	0.557													28	49					0	0	1	0	0		A	117840406	A	A	117840406	2	1	89	1	0	0	0	0	0	0	0	1	16295	1048	37	1		1	TNC	9	117840406	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14942	117840406	23373025	3678	57509											
PAPPA	5069	broad.mit.edu	37	chr9	118974146	118974146	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtggtgacccagggccagGaaatgacacctgtggctttc	8	9	13	11	0	0	2	0	2	0	0	1	3	0	3	3	4	0	1	3	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:118974146G>T	uc004bjn.2	+	4	2234	c.1853G>T	c.(1852-1854)GGA>GTA	p.G618V	PAPPA_uc011lxp.1_Intron|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	618					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CCAGGGCCAGGAAATGACACC	0.532													110	232					2.28619e-77	2.85625e-77	1	1	0		T	118974146	T	T	118974146	3	4	89	1	0	0	0	0	1	0	0	0	11451	1174	41	5	1867	5	PAPPA	9	118974146	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1133740	118974146	22239285	3679	57510											
PAPPA	5069	broad.mit.edu	37	chr9	118997781	118997781	+	Missense_Mutation	SNP	C	T	T																															tgagcacctggagatcgatgCtgccatgttgacctccactg																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:118997781C>T	uc004bjn.2	+	7	2978	c.2597C>T	c.(2596-2598)GCT>GTT	p.A866V	PAPPA_uc011lxp.1_Missense_Mutation_p.A561V|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	866					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GAGATCGATGCTGCCATGTTG	0.562													29	33					0	0	1	0	0		T	118997781	T	T	118997781	3	4	89	1	0	0	0	0	1	0	0	0	11451	797	28	2	2623	2	PAPPA	9	118997781	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	23635	118997781	22215650	3680	57511	107	2									
PAPPA	5069	broad.mit.edu	37	chr9	118997789	118997789	+	Silent	SNP	T	C	C																															tggagatcgatgctgccatgTtgacctccactgcagacacc																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:118997789T>C	uc004bjn.2	+	7	2986	c.2605T>C	c.(2605-2607)TTG>CTG	p.L869L	PAPPA_uc011lxp.1_Silent_p.L564L|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	869					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						TGCTGCCATGTTGACCTCCAC	0.562													29	37					0	0	1	0	0		C	118997789	C	C	118997789	2	2	89	1	0	0	0	0	0	0	0	1	11451	1722	60	3		3	PAPPA	9	118997789	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	8	118997789	22215642	3681	57512	107	2									
ASTN2	23245	broad.mit.edu	37	chr9	119188144	119188144	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccctcaccggcccttggActccccgtacgtgtttcggg	3	10	10	18	4	1	0	1	0	0	0	4	1	3	1	6	3	1	2	6	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:119188144A>G	uc004bjs.1	-	23	4107	c.4006T>C	c.(4006-4008)TCC>CCC	p.S1336P	ASTN2_uc004bjr.1_Missense_Mutation_p.S1332P|ASTN2_uc004bjt.1_Missense_Mutation_p.S1285P|ASTN2_uc004bjp.1_Missense_Mutation_p.S429P|ASTN2_uc004bjq.1_Intron|ASTN2_uc011lxr.1_Missense_Mutation_p.S388P|ASTN2_uc011lxs.1_Intron|ASTN2_uc011lxt.1_Missense_Mutation_p.S388P|ASTN2_uc004bjo.1_Missense_Mutation_p.S117P	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	1336	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CGGCCCTTGGACTCCCCGTAC	0.602													24	52					0	0	1	0	0		G	119188144	G	G	119188144	3	3	89	1	0	0	0	0	1	0	0	0	1066	275	10	3	58	3	ASTN2	9	119188144	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	190355	119188144	22025287	3682	57513											
ASTN2	23245	broad.mit.edu	37	chr9	119625945	119625945	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgttccgagagcagtcacGaactggcccgaaggaagaca	13	6	12	10	3	1	2	1	0	0	2	2	6	2	3	2	2	2	2	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:119625945G>A	uc004bjs.1	-	11	2058	c.1957C>T	c.(1957-1959)CGT>TGT	p.R653C	ASTN2_uc004bjr.1_Missense_Mutation_p.R649C|ASTN2_uc004bjt.1_Missense_Mutation_p.R602C	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	653	Extracellular (Potential).|EGF-like 2.					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GAGCAGTCACGAACTGGCCCG	0.542													23	46					0	0	1	0	0		A	119625945	A	A	119625945	3	1	89	1	0	0	0	0	1	0	0	0	1066	1058	37	1	2346	1	ASTN2	9	119625945	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	437801	119625945	21587486	3683	57514											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123215733	123215733	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttattacatggaaaaacttaCtctgttggtaataccaggga	14	13	8	6	0	1	0	0	0	1	0	1	2	1	2	1	3	4	2	1	3	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:123215733C>T	uc004bkf.2	-	21	2974	c.2793_splice	c.e21+1	p.R931_splice	CDK5RAP2_uc004bke.2_Splice_Site_p.R216_splice|CDK5RAP2_uc004bkg.2_Splice_Site_p.R931_splice|CDK5RAP2_uc011lxw.1_Splice_Site_p.R196_splice|CDK5RAP2_uc011lxx.1_Splice_Site|CDK5RAP2_uc011lxy.1_Splice_Site|CDK5RAP2_uc011lxz.1_Splice_Site_p.R196_splice|CDK5RAP2_uc011lya.1_Splice_Site_p.R196_splice|CDK5RAP2_uc004bkh.1_Intron|CDK5RAP2_uc004bki.2_Splice_Site_p.R698_splice	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2						brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						GAAAAACTTACTCTGTTGGTA	0.433													31	53					0	0	1	0	0		T	123215733	T	T	123215733	5	4	89	1	0	0	0	0	0	0	1	0	3149	579	20	4	2959	4	CDK5RAP2	9	123215733	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3589788	123215733	17997698	3684	57515											
C5	727	broad.mit.edu	37	chr9	123725007	123725007	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagaaacccaacttcaaaGagttcaaatatccggaatcg	16	8	7	10	2	2	2	2	1	0	2	4	4	3	3	2	1	2	1	2	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:123725007G>T	uc004bkv.2	-	36	4476	c.4446C>A	c.(4444-4446)CTC>CTA	p.L1482L		NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	1482					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	CAACTTCAAAGAGTTCAAATA	0.368													50	125					2.74695e-27	3.3328e-27	1	1	0		T	123725007	T	T	123725007	2	4	89	1	0	0	0	0	0	0	0	1	2283	929	33	5		5	C5	9	123725007	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	509274	123725007	17488424	3685	57516											
C5	727	broad.mit.edu	37	chr9	123742403	123742403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagctgaaacaattgaacGaaactgtgggtgagttttat	15	11	10	5	1	0	3	0	3	0	0	0	4	0	3	0	1	4	2	0	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:123742403G>A	uc004bkv.2	-	28	3646	c.3616C>T	c.(3616-3618)CGT>TGT	p.R1206C		NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	1206					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	ACAATTGAACGAAACTGTGGG	0.333													24	72					0	0	1	0	0		A	123742403	A	A	123742403	3	1	89	1	0	0	0	0	1	0	0	0	2283	1058	37	1	1470	1	C5	9	123742403	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17396	123742403	17471028	3686	57517											
CEP110	11064	broad.mit.edu	37	chr9	123912533	123912533	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcctcctcctggatacatGatgtatactgtgcttcctga	7	14	9	11	0	0	2	0	2	0	0	3	3	3	3	4	1	4	2	4	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:123912533G>T	uc004bkx.1	+	23	3766	c.3735G>T	c.(3733-3735)ATG>ATT	p.M1245I	CEP110_uc004bky.1_Missense_Mutation_p.M849I|CEP110_uc004bla.1_Missense_Mutation_p.M693I|CEP110_uc010mvo.1_5'UTR|CEP110_uc004blb.1_5'Flank	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	1245	Pro-rich.				cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						CTGGATACATGATGTATACTG	0.512													36	73					6.90743e-12	7.60866e-12	1	1	0		T	123912533	T	T	123912533	3	4	89	1	0	0	0	0	1	0	0	0	3248	1290	45	5	3825	5	CEP110	9	123912533	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	170130	123912533	17300898	3687	57518											
CEP110	11064	broad.mit.edu	37	chr9	123927254	123927254	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagaagaaaatagcaaaatGgagcaatcaaacttagaaaa	23	5	8	5	0	1	3	1	0	0	3	1	4	1	4	0	1	3	3	0	1	11	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:123927254G>T	uc004bkx.1	+	33	5488	c.5457G>T	c.(5455-5457)ATG>ATT	p.M1819I	CEP110_uc004blb.1_Missense_Mutation_p.M488I|CEP110_uc010mvp.1_5'UTR	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	1819	Potential.				cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						ATAGCAAAATGGAGCAATCAA	0.403													26	44					3.6726e-16	4.20841e-16	1	1	0		T	123927254	T	T	123927254	3	4	89	1	0	0	0	0	1	0	0	0	3248	1348	47	5	5587	5	CEP110	9	123927254	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14721	123927254	17286177	3688	57519											
CEP110	11064	broad.mit.edu	37	chr9	123928390	123928390	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtcatttctttagaaaaaCgagaagcagtaaactcactg	16	11	7	7	1	3	2	2	0	1	2	3	3	3	2	0	0	3	2	0	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:123928390C>T	uc004bkx.1	+	34	5618	c.5587C>T	c.(5587-5589)CGA>TGA	p.R1863*	CEP110_uc004blb.1_Nonsense_Mutation_p.R532*|CEP110_uc010mvp.1_Translation_Start_Site	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	1863	Potential.				cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						TTTAGAAAAACGAGAAGCAGT	0.333													12	21					0	0	1	0	0		T	123928390	T	T	123928390	4	4	89	1	0	0	0	0	0	1	0	0	3248	528	19	1	5721	1	CEP110	9	123928390	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1136	123928390	17285041	3689	57520											
NDUFA8	4702	broad.mit.edu	37	chr9	124914534	124914534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agatttttacctaaagaagtCcaaagcacacttgttgacca	15	11	6	9	0	0	3	0	1	0	2	1	3	1	3	3	0	2	2	3	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:124914534C>T	uc004blv.2	-	2	347	c.205G>A	c.(205-207)GAC>AAC	p.D69N		NM_014222	NP_055037	P51970	NDUA8_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	69	CHCH 1.				mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			breast(1)	1					NADH(DB00157)	CTAAAGAAGTCCAAAGCACAC	0.408													20	42					0	0	1	0	0		T	124914534	T	T	124914534	3	4	89	1	0	0	0	0	1	0	0	0	10290	855	30	4	325	4	NDUFA8	9	124914534	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	986144	124914534	16298897	3690	57521											
MORN5	254956	broad.mit.edu	37	chr9	124936902	124936902	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaaccgctttctaagaaaCgcaggtaggtttcttccgac	11	10	10	10	3	2	1	0	0	2	1	3	3	3	2	2	3	2	4	2	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:124936902C>T	uc004blw.2	+	4	497	c.435C>T	c.(433-435)AAC>AAT	p.N145N	MORN5_uc011lyn.1_Silent_p.N145N|MORN5_uc011lyo.1_3'UTR	NM_198469	NP_940871	Q5VZ52	MORN5_HUMAN	MORN repeat containing 5	145											0						TTCTAAGAAACGCAGGTAGGT	0.448													29	59					0	0	1	0	0		T	124936902	T	T	124936902	2	4	89	1	0	0	0	0	0	0	0	1	9729	535	19	1		1	MORN5	9	124936902	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	22368	124936902	16276529	3691	57522											
LHX6	26468	broad.mit.edu	37	chr9	124976602	124976602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggacgtccgcgcgcgcttgGccggcttgggttgactgtcc	3	9	16	13	6	0	1	0	1	0	0	2	2	2	2	3	4	0	3	3	4	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:124976602G>A	uc010mvw.2	-	5	765	c.656C>T	c.(655-657)GCC>GTC	p.A219V	LHX6_uc004blx.3_Missense_Mutation_p.A248V|LHX6_uc004bly.3_Missense_Mutation_p.A248V	NM_014368	NP_055183	Q9UPM6	LHX6_HUMAN	LIM homeobox protein 6 isoform 1	219	Homeobox.				cell maturation|cerebral cortex GABAergic interneuron migration|cerebral cortex radially oriented cell migration|cerebral cortex tangential migration	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CGCGCGCTTGGCCGGCTTGGG	0.582													6	20					0	0	1	0	0		A	124976602	A	A	124976602	3	1	89	1	0	0	0	0	1	0	0	0	8791	1203	42	2	514	2	LHX6	9	124976602	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	39700	124976602	16236829	3692	57523											
RBM18	92400	broad.mit.edu	37	chr9	125009820	125009820	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacttgagcatgtgcccatcGcaccaccagcttcttggaca	9	10	8	14	1	1	1	0	1	1	0	2	2	1	2	3	1	4	3	3	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:125009820G>A	uc004bma.2	-	4	470	c.304C>T	c.(304-306)CGA>TGA	p.R102*	RBM18_uc004blz.2_RNA|RBM18_uc010mvy.2_RNA|RBM18_uc011lyp.1_Intron	NM_033117	NP_149108	Q96H35	RBM18_HUMAN	RNA binding motif protein 18	102	RRM.						nucleotide binding|RNA binding				0						TGTGCCCATCGCACCACCAGC	0.483													21	60					0	0	1	0	0		A	125009820	A	A	125009820	4	1	89	1	0	0	0	0	0	1	0	0	13145	1095	38	1	280	1	RBM18	9	125009820	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	33218	125009820	16203611	3693	57524											
OR1J2	26740	broad.mit.edu	37	chr9	125273593	125273593	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggctgtctttctgtgctgcGaacaccatcccccatgtctt	5	13	8	15	2	3	0	0	0	3	0	4	1	4	0	3	1	3	2	3	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:125273593G>A	uc004bmj.1	+	4	1368	c.513G>A	c.(511-513)GCG>GCA	p.A171A	OR1J2_uc011lyv.1_Silent_p.A171A	NM_054107	NP_473448	Q8NGS2	OR1J2_HUMAN	olfactory receptor, family 1, subfamily J,	171	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|pancreas(1)|breast(1)	5						TCTGTGCTGCGAACACCATCC	0.532													47	84					0	0	1	0	0		A	125273593	A	A	125273593	2	1	89	1	0	0	0	0	0	0	0	1	10979	1045	37	1		1	OR1J2	9	125273593	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	263773	125273593	15939838	3694	57525											
OR1N1	138883	broad.mit.edu	37	chr9	125288673	125288673	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgtgactgaagagcctCtttagggcccccttcatgtc	6	12	9	14	0	2	3	1	2	1	1	4	3	3	3	4	1	1	0	4	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:125288673C>A	uc004bmn.1	-	1	900	c.900G>T	c.(898-900)AAG>AAT	p.K300N		NM_012363	NP_036495	Q8NGS0	OR1N1_HUMAN	olfactory receptor, family 1, subfamily N,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)|breast(1)|skin(1)	3						TGAAGAGCCTCTTTAGGGCCC	0.333													18	42					7.41877e-09	7.92233e-09	1	1	0		A	125288673	A	A	125288673	3	1	89	1	0	0	0	0	1	0	0	0	10988	912	32	5	39	5	OR1N1	9	125288673	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	15080	125288673	15924758	3695	57526											
OR1L3	26735	broad.mit.edu	37	chr9	125437916	125437916	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaatcggctcaccttttgtAcatcaaatgttatccatcat	11	15	5	10	1	3	1	3	1	0	0	5	1	4	1	2	1	1	3	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:125437916A>G	uc011lzb.1	+	1	508	c.508A>G	c.(508-510)ACA>GCA	p.T170A		NM_001005234	NP_001005234	Q8NH93	OR1L3_HUMAN	olfactory receptor, family 1, subfamily L,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CACCTTTTGTACATCAAATGT	0.453													116	228					0	0	1	0	0		G	125437916	G	G	125437916	3	3	89	1	0	0	0	0	1	0	0	0	10983	391	14	3	510	3	OR1L3	9	125437916	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	149243	125437916	15775515	3696	57527											
OR1L4	254973	broad.mit.edu	37	chr9	125486541	125486541	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttctatcagagacaaaGattatctcttatgtgggctg	12	15	8	6	0	3	2	1	0	2	2	4	3	3	2	0	1	0	1	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:125486541G>T	uc004bmu.1	+	1	273	c.273G>T	c.(271-273)AAG>AAT	p.K91N		NM_001005235	NP_001005235	Q8NGR5	OR1L4_HUMAN	olfactory receptor, family 1, subfamily L,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CAGAGACAAAGATTATCTCTT	0.458													13	133					5.50884e-06	5.70595e-06	1	1	0		T	125486541	T	T	125486541	3	4	89	1	0	0	0	0	1	0	0	0	10984	933	33	5	275	5	OR1L4	9	125486541	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	48625	125486541	15726890	3697	57528											
OR1K1	392392	broad.mit.edu	37	chr9	125562444	125562444	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagggaatctcattcgttTtattgggactgacaacaagt	12	12	10	7	1	1	2	1	1	1	1	3	4	1	4	0	2	1	1	0	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:125562444T>G	uc011lze.1	+	1	43	c.43T>G	c.(43-45)TTA>GTA	p.L15V		NM_080859	NP_543135	Q8NGR3	OR1K1_HUMAN	olfactory receptor, family 1, subfamily K,	15	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTCATTCGTTTTATTGGGACT	0.522													16	33					0	0	1	0	0		G	125562444	G	G	125562444	3	3	89	1	0	0	0	0	1	0	0	0	10981	1838	64	5	45	5	OR1K1	9	125562444	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	75903	125562444	15650987	3698	57529											
ZBTB6	10773	broad.mit.edu	37	chr9	125674239	125674239	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaactcagtgtcattaatgTaaattgatacatcacaaaat	17	12	6	6	0	3	1	3	1	0	0	3	2	3	2	0	1	2	1	0	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:125674239T>C	uc004bnh.2	-	2	202	c.113A>G	c.(112-114)TAC>TGC	p.Y38C		NM_006626	NP_006617	Q15916	ZBTB6_HUMAN	zinc finger and BTB domain containing 6	38	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTCATTAATGTAAATTGATAC	0.383													52	102					0	0	1	0	0		C	125674239	C	C	125674239	3	2	89	1	0	0	0	0	1	0	0	0	17577	1638	57	3	1165	3	ZBTB6	9	125674239	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	111795	125674239	15539192	3699	57530											
ZBTB26	57684	broad.mit.edu	37	chr9	125682174	125682174	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taacattgaatctccataatTttcaaacttgaagtgaagga	16	13	6	6	0	2	3	1	3	1	0	3	4	2	4	1	1	2	0	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:125682174T>G	uc004bnj.2	-	2	252	c.40A>C	c.(40-42)AAT>CAT	p.N14H	ZBTB26_uc004bnk.2_Missense_Mutation_p.N14H	NM_020924	NP_065975	Q9HCK0	ZBT26_HUMAN	zinc finger and BTB domain containing 26	14					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTCCATAATTTTCAAACTTG	0.308													13	24					0	0	1	0	0		G	125682174	G	G	125682174	3	3	89	1	0	0	0	0	1	0	0	0	17558	1841	64	5	1289	5	ZBTB26	9	125682174	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	7935	125682174	15531257	3700	57531											
RABGAP1	23637	broad.mit.edu	37	chr9	125758389	125758389	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgataagaagattgtcatCtatgtgcagcaaacaactaa	17	11	7	6	0	2	3	1	1	1	2	2	3	2	3	0	0	4	2	0	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:125758389C>A	uc011lzh.1	+	7	1127	c.993C>A	c.(991-993)ATC>ATA	p.I331I	RABGAP1_uc004bnl.3_RNA	NM_012197	NP_036329	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	331					cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5						AGATTGTCATCTATGTGCAGC	0.328													32	80					8.16721e-17	9.41672e-17	1	1	0		A	125758389	A	A	125758389	2	1	89	1	0	0	0	0	0	0	0	1	12989	903	32	5		5	RABGAP1	9	125758389	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	76215	125758389	15455042	3701	57532											
RABGAP1	23637	broad.mit.edu	37	chr9	125861055	125861055	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagattaaaaaaaacagttCtatcattggtgactataagc	17	12	7	5	0	2	2	1	2	1	1	2	3	2	2	0	1	2	1	0	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:125861055C>A	uc011lzh.1	+	23	2929	c.2795C>A	c.(2794-2796)TCT>TAT	p.S932Y	RABGAP1_uc004bnl.3_RNA|RABGAP1_uc011lzj.1_Missense_Mutation_p.S271Y	NM_012197	NP_036329	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	932	Potential.				cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5						AAAAACAGTTCTATCATTGGT	0.438													24	42					9.57634e-11	1.04293e-10	1	1	0		A	125861055	A	A	125861055	3	1	89	1	0	0	0	0	1	0	0	0	12989	913	32	5	2881	5	RABGAP1	9	125861055	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	102666	125861055	15352376	3702	57533											
STRBP	55342	broad.mit.edu	37	chr9	125935984	125935984	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaataggaagattatctttgActgtatttaacagggtctct	12	15	9	5	0	2	2	0	1	2	1	3	4	2	3	0	2	1	1	0	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:125935984A>G	uc004bns.2	-	5	792	c.362T>C	c.(361-363)GTC>GCC	p.V121A	STRBP_uc004bnt.2_5'UTR|STRBP_uc004bnu.2_Missense_Mutation_p.V107A|STRBP_uc004bnv.2_Missense_Mutation_p.V121A	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	121	DZF.				multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2						ATTATCTTTGACTGTATTTAA	0.378													49	89					0	0	1	0	0		G	125935984	G	G	125935984	3	3	89	1	0	0	0	0	1	0	0	0	15352	275	10	3	1716	3	STRBP	9	125935984	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	74929	125935984	15277447	3703	57534											
LHX2	9355	broad.mit.edu	37	chr9	126777465	126777465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcctcggagatggtgatgCgcgctcgggacttggtttat	5	11	16	9	5	0	2	0	1	0	1	2	4	0	3	1	5	1	2	1	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:126777465C>T	uc004boe.1	+	3	1127	c.388C>T	c.(388-390)CGC>TGC	p.R130C	LHX2_uc010mwi.1_Missense_Mutation_p.R138C	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	130	LIM zinc-binding 2.					nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GATGGTGATGCGCGCTCGGGA	0.622													56	136					0	0	1	0	0		T	126777465	T	T	126777465	3	4	89	1	0	0	0	0	1	0	0	0	8787	768	27	1	398	1	LHX2	9	126777465	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	841481	126777465	14435966	3704	57535											
NR6A1	2649	broad.mit.edu	37	chr9	127289152	127289152	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagaggtagatgagccgctcGatcacctccatcccttcatc	9	10	8	14	2	2	3	2	1	0	2	6	4	4	3	4	1	1	2	4	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:127289152G>A	uc004bor.1	-	8	1285	c.1107C>T	c.(1105-1107)ATC>ATT	p.I369I	NR6A1_uc004boq.1_Silent_p.I364I|NR6A1_uc010mwq.1_Silent_p.I365I	NM_033334	NP_201591	Q15406	NR6A1_HUMAN	nuclear receptor subfamily 6, group A, member 1	369					cell proliferation|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	transcription factor complex	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						TGAGCCGCTCGATCACCTCCA	0.483													44	67					0	0	1	0	0		A	127289152	A	A	127289152	2	1	89	1	0	0	0	0	0	0	0	1	10656	1048	37	1		1	NR6A1	9	127289152	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	511687	127289152	13924279	3705	57536											
GOLGA1	2800	broad.mit.edu	37	chr9	127684102	127684102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcaactcctcctgggtacGactaagttctctggttcgtg	7	13	9	12	2	2	0	1	0	1	0	6	1	4	0	2	2	2	3	2	2	3	4	rs149867372		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:127684102G>A	uc004bpc.2	-	9	973	c.631C>T	c.(631-633)CGT>TGT	p.R211C	GOLGA1_uc010mws.2_RNA|GOLGA1_uc010mwt.1_Missense_Mutation_p.R186C	NM_002077	NP_002068	Q92805	GOGA1_HUMAN	golgin 97	211	Potential.					Golgi cisterna membrane				ovary(1)	1						TCCTGGGTACGACTAAGTTCT	0.418													74	137					0	0	1	0	0		A	127684102	A	A	127684102	3	1	89	1	0	0	0	0	1	0	0	0	6566	1058	37	1	1732	1	GOLGA1	9	127684102	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	394950	127684102	13529329	3706	57537											
GAPVD1	26130	broad.mit.edu	37	chr9	128086089	128086089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctctaggtccttcaaatcGctccaattcagtgtcctccc	7	14	5	15	1	3	0	2	0	1	0	9	0	7	0	4	1	0	1	4	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:128086089G>A	uc010mwx.2	+	11	2071	c.1745G>A	c.(1744-1746)CGC>CAC	p.R582H	GAPVD1_uc011lzs.1_Missense_Mutation_p.R582H|GAPVD1_uc004bpp.2_Missense_Mutation_p.R582H|GAPVD1_uc004bpq.2_Missense_Mutation_p.R582H|GAPVD1_uc004bpr.2_Missense_Mutation_p.R561H|GAPVD1_uc004bps.2_Missense_Mutation_p.R582H|GAPVD1_uc010mwy.1_Missense_Mutation_p.R441H	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	582					endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						CCTTCAAATCGCTCCAATTCA	0.418													35	51					0	0	1	0	0		A	128086089	A	A	128086089	3	1	89	1	0	0	0	0	1	0	0	0	6254	1087	38	1	1775	1	GAPVD1	9	128086089	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	401987	128086089	13127342	3707	57538											
ANGPTL2	23452	broad.mit.edu	37	chr9	129870556	129870556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgggagagctccaacGcgttgtcccgcttgcggatg	6	8	14	13	4	0	1	0	0	0	1	2	3	2	2	3	2	4	4	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:129870556G>A	uc004bqr.1	-	2	955	c.455C>T	c.(454-456)GCG>GTG	p.A152V	RALGPS1_uc004bqo.1_Intron|RALGPS1_uc011mab.1_Intron|RALGPS1_uc011mac.1_Intron|RALGPS1_uc004bqq.3_Intron|ANGPTL2_uc010mxg.1_Intron	NM_012098	NP_036230	Q9UKU9	ANGL2_HUMAN	angiopoietin-like 2 precursor	152	Potential.				multicellular organismal development|signal transduction	extracellular space	receptor binding				0						GAGCTCCAACGCGTTGTCCCG	0.597													18	34					0	0	1	0	0		A	129870556	A	A	129870556	3	1	89	1	0	0	0	0	1	0	0	0	614	1087	38	1	1042	1	ANGPTL2	9	129870556	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1784467	129870556	11342875	3708	57539											
RALGPS1	9649	broad.mit.edu	37	chr9	129974967	129974967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caccctcctgtactacggagCcaagtccttgcggggcacag	8	7	11	15	2	0	0	0	0	0	0	2	1	2	1	4	3	4	2	4	3	3	3	rs138132214		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:129974967C>T	uc004bqo.1	+	16	1682	c.1415C>T	c.(1414-1416)GCC>GTC	p.A472V	RALGPS1_uc011mac.1_Missense_Mutation_p.A430V|RALGPS1_uc004bqq.3_Missense_Mutation_p.A430V	NM_014636	NP_055451	Q5JS13	RGPS1_HUMAN	Ral GEF with PH domain and SH3 binding motif 1	472	Required for stimulation of nucleotide exchange by RALA.|PH.				small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity			ovary(1)	1						TACTACGGAGCCAAGTCCTTG	0.567													12	22					0	0	1	0	0		T	129974967	T	T	129974967	3	4	89	1	0	0	0	0	1	0	0	0	13042	739	26	2	1473	2	RALGPS1	9	129974967	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	104411	129974967	11238464	3709	57540											
SH2D3C	10044	broad.mit.edu	37	chr9	130536742	130536742	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaaagcccttgaacttgaaGaactctagcagaggggaagg	14	6	12	9	0	1	4	0	2	1	2	1	5	1	5	2	3	4	1	2	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:130536742G>A	uc004bsc.2	-	2	184	c.42C>T	c.(40-42)TTC>TTT	p.F14F	SH2D3C_uc004bsd.1_5'UTR	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a	14					JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						TGAACTTGAAGAACTCTAGCA	0.488													16	23					0	0	1	0	0		A	130536742	A	A	130536742	2	1	89	1	0	0	0	0	0	0	0	1	14259	933	33	4		4	SH2D3C	9	130536742	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	561775	130536742	10676689	3710	57541											
FPGS	2356	broad.mit.edu	37	chr9	130569902	130569902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtctcctctcttggcatcGaccacaccagcctcctgggg	6	9	10	16	1	2	0	0	0	2	0	6	2	3	0	5	3	1	1	5	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:130569902G>A	uc004bsg.1	+	8	729	c.679G>A	c.(679-681)GAC>AAC	p.D227N	FPGS_uc004bsh.1_Missense_Mutation_p.D44N|FPGS_uc011mal.1_Missense_Mutation_p.D201N|FPGS_uc004bsi.1_Missense_Mutation_p.D177N	NM_004957	NP_004948	Q05932	FOLC_HUMAN	folylpolyglutamate synthase isoform a precursor	227					folic acid metabolic process|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|one-carbon metabolic process	cytosol|mitochondrial matrix	ATP binding|tetrahydrofolylpolyglutamate synthase activity				0					L-Glutamic Acid(DB00142)	TCTTGGCATCGACCACACCAG	0.532													13	21					0	0	1	0	0		A	130569902	A	A	130569902	3	1	89	1	0	0	0	0	1	0	0	0	6050	1058	37	1	709	1	FPGS	9	130569902	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	33160	130569902	10643529	3711	57542											
SLC25A25	114789	broad.mit.edu	37	chr9	130860921	130860921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtactttgagtcgaaggggCtccctgccgagctgaagtcc	8	9	13	11	2	0	2	0	2	0	0	3	4	2	2	3	2	3	3	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:130860921C>T	uc004bte.2	+	1	105	c.76C>T	c.(76-78)CTC>TTC	p.L26F	SLC25A25_uc004btb.2_Intron|SLC25A25_uc004btc.2_Intron|SLC25A25_uc004btd.2_Intron|SLC25A25_uc004btf.2_5'UTR	NM_052901	NP_443133	Q6KCM7	SCMC2_HUMAN	solute carrier family 25, member 25 isoform a	26	Mitochondrial intermembrane (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding				0						GTCGAAGGGGCTCCCTGCCGA	0.597													42	94					0	0	1	0	0		T	130860921	T	T	130860921	3	4	89	1	0	0	0	0	1	0	0	0	14513	797	28	2	566	2	SLC25A25	9	130860921	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	291019	130860921	10352510	3712	57543											
SLC27A4	10999	broad.mit.edu	37	chr9	131107806	131107806	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcgcgcacgggcccttgtCtttggcagcgaaatggcctc	5	9	13	14	5	1	0	0	0	1	0	3	1	1	0	2	3	1	2	2	3	1	2	rs149776553		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:131107806C>A	uc004but.2	+	3	818	c.534C>A	c.(532-534)GTC>GTA	p.V178V	SLC27A4_uc004buu.2_Intron	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	178					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						GGGCCCTTGTCTTTGGCAGCG	0.647													5	15					3.59834e-05	3.69903e-05	1	1	0		A	131107806	A	A	131107806	2	1	89	1	0	0	0	0	0	0	0	1	14553	900	32	5		5	SLC27A4	9	131107806	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	246885	131107806	10105625	3713	57544											
ZER1	10444	broad.mit.edu	37	chr9	131503881	131503881	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgcagttgtcaggagttTcatctgtgatgttccacagg	7	14	11	9	1	4	1	2	1	2	0	6	2	5	2	1	2	0	4	1	2	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:131503881T>G	uc004bwa.1	-	11	2103	c.1670A>C	c.(1669-1671)GAA>GCA	p.E557A		NM_006336	NP_006327	Q7Z7L7	ZER1_HUMAN	zyg-11 homolog B (C. elegans)-like	557					ATP hydrolysis coupled proton transport|regulation of ubiquitin-protein ligase activity	Cul2-RING ubiquitin ligase complex|vacuolar proton-transporting V-type ATPase, V1 domain	protein binding|proton-transporting ATPase activity, rotational mechanism|ubiquitin-protein ligase activity			ovary(1)	1						GTCAGGAGTTTCATCTGTGAT	0.577													44	83					0	0	1	0	0		G	131503881	G	G	131503881	3	3	89	1	0	0	0	0	1	0	0	0	17650	1783	62	5	654	5	ZER1	9	131503881	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	396075	131503881	9709550	3714	57545											
TBC1D13	54662	broad.mit.edu	37	chr9	131565546	131565546	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgagctccccacacaaGaactctgtgccatcatccct	11	8	6	16	0	2	3	1	1	1	2	4	3	4	3	4	0	3	1	4	0	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:131565546G>T	uc010myj.2	+	8	684	c.561G>T	c.(559-561)AAG>AAT	p.K187N	TBC1D13_uc010myk.2_Intron|TBC1D13_uc010myl.2_Missense_Mutation_p.K6N	NM_018201	NP_060671	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	187	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0						CCCCACACAAGAACTCTGTGC	0.458													13	50					1.49906e-05	1.54644e-05	1	1	0		T	131565546	T	T	131565546	3	4	89	1	0	0	0	0	1	0	0	0	15627	933	33	5	591	5	TBC1D13	9	131565546	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	61665	131565546	9647885	3715	57546											
PHYHD1	254295	broad.mit.edu	37	chr9	131703788	131703788	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaacctctctgaccgctcGcgccaggcctacactttcca	8	8	7	18	3	1	2	0	1	1	1	4	2	2	2	5	1	2	1	5	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:131703788G>A	uc004bwo.2	+	12	1701	c.768G>A	c.(766-768)TCG>TCA	p.S256S	PHYHD1_uc004bwn.2_Missense_Mutation_p.R249H|PHYHD1_uc004bwm.2_RNA|PHYHD1_uc004bwp.2_Silent_p.S235S|NUP188_uc004bwq.1_5'UTR	NM_001100876	NP_001094346	Q5SRE7	PHYD1_HUMAN	phytanoyl-CoA dioxygenase domain containing 1	256							metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CTGACCGCTCGCGCCAGGCCT	0.617													36	61					0	0	1	0	0		A	131703788	A	A	131703788	2	1	89	1	0	0	0	0	0	0	0	1	11884	1087	38	1		1	PHYHD1	9	131703788	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	138242	131703788	9509643	3716	57547											
DOLK	22845	broad.mit.edu	37	chr9	131708138	131708138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctacagaaatgatctgcGcaaatatagatgtcatggtc	14	10	10	7	1	2	3	1	1	1	2	3	4	2	3	0	1	3	2	0	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:131708138G>A	uc004bwr.2	-	1	1875	c.1445C>T	c.(1444-1446)GCG>GTG	p.A482V	NUP188_uc004bws.1_5'Flank|NUP188_uc004bwq.1_Intron	NM_014908	NP_055723	Q9UPQ8	DOLK_HUMAN	dolichol kinase	482	Helical; (Potential).				dolichyl diphosphate biosynthetic process|dolichyl monophosphate biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to endoplasmic reticulum membrane|membrane fraction	dolichol kinase activity				0						AATGATCTGCGCAAATATAGA	0.488													57	93					0	0	1	0	0		A	131708138	A	A	131708138	3	1	89	1	0	0	0	0	1	0	0	0	4709	1087	38	1	175	1	DOLK	9	131708138	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4350	131708138	9505293	3717	57548											
DOLK	22845	broad.mit.edu	37	chr9	131708450	131708450	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaaggcttgatgcggaagTagcgcacatactccaggaag	13	6	12	10	2	0	1	0	1	0	0	1	3	1	3	2	3	3	3	2	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:131708450T>C	uc004bwr.2	-	1	1563	c.1133A>G	c.(1132-1134)TAC>TGC	p.Y378C	NUP188_uc004bws.1_5'Flank|NUP188_uc004bwq.1_Intron	NM_014908	NP_055723	Q9UPQ8	DOLK_HUMAN	dolichol kinase	378	Helical; (Potential).				dolichyl diphosphate biosynthetic process|dolichyl monophosphate biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to endoplasmic reticulum membrane|membrane fraction	dolichol kinase activity				0						GATGCGGAAGTAGCGCACATA	0.527													53	103					0	0	1	0	0		C	131708450	C	C	131708450	3	2	89	1	0	0	0	0	1	0	0	0	4709	1638	57	3	487	3	DOLK	9	131708450	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	312	131708450	9504981	3718	57549											
NUP188	23511	broad.mit.edu	37	chr9	131730975	131730975	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtggatgagactatggAtccttttgtagatcggattg	8	14	13	6	1	0	2	0	1	0	2	2	6	1	5	2	4	0	1	2	4	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:131730975A>G	uc004bws.1	+	9	798	c.776A>G	c.(775-777)GAT>GGT	p.D259G		NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	259					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						GAGACTATGGATCCTTTTGTA	0.428													52	85					0	0	1	0	0		G	131730975	G	G	131730975	3	3	89	1	0	0	0	0	1	0	0	0	10777	333	12	3	810	3	NUP188	9	131730975	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	22525	131730975	9482456	3719	57550											
NUP188	23511	broad.mit.edu	37	chr9	131747191	131747191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttccagtgcggaagggatGaatgctggagggtacggaaa	11	9	16	5	2	0	1	0	1	0	0	1	5	1	5	1	5	3	2	1	5	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:131747191G>A	uc004bws.1	+	20	1996	c.1974G>A	c.(1972-1974)ATG>ATA	p.M658I	NUP188_uc004bwu.2_Missense_Mutation_p.M1I	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	658					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						CGGAAGGGATGAATGCTGGAG	0.433											OREG0003924	type=REGULATORY REGION|Gene=NUP188|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	39	47					0	0	1	0	0		A	131747191	A	A	131747191	3	1	89	1	0	0	0	0	1	0	0	0	10777	1290	45	4	2052	4	NUP188	9	131747191	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16216	131747191	9466240	3720	57551											
NUP188	23511	broad.mit.edu	37	chr9	131761490	131761490	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaatccttggacccttgacGgagatcctggagggagtgct	9	9	14	9	1	0	2	0	1	0	1	2	7	2	5	3	4	1	1	3	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:131761490G>A	uc004bws.1	+	33	3577	c.3555G>A	c.(3553-3555)ACG>ACA	p.T1185T	NUP188_uc004bwu.2_Silent_p.T528T	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1185					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						GACCCTTGACGGAGATCCTGG	0.398											OREG0003925	type=REGULATORY REGION|Gene=AK025292|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	26	87					0	0	1	0	0		A	131761490	A	A	131761490	2	1	89	1	0	0	0	0	0	0	0	1	10777	1103	39	1		1	NUP188	9	131761490	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14299	131761490	9451941	3721	57552											
TOR1A	1861	broad.mit.edu	37	chr9	132584974	132584974	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgcgatgatcttgctgacGaaatttttgccggtgcctgt	6	15	11	9	3	2	2	0	2	2	0	2	4	2	2	2	1	4	1	2	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:132584974G>A	uc004byl.2	-	2	407	c.330C>T	c.(328-330)TTC>TTT	p.F110F	TOR1A_uc004bym.2_RNA|TOR1A_uc004byn.2_Silent_p.F110F	NM_000113	NP_000104	O14656	TOR1A_HUMAN	torsin A precursor	110					chaperone mediated protein folding requiring cofactor|response to unfolded protein	endoplasmic reticulum lumen|nuclear membrane	ATP binding|serine-type endopeptidase activity|unfolded protein binding			central_nervous_system(1)	1		Ovarian(14;0.00556)				TCTTGCTGACGAAATTTTTGC	0.468													73	114					0	0	1	0	0		A	132584974	A	A	132584974	2	1	89	1	0	0	0	0	0	0	0	1	16397	1049	37	1		1	TOR1A	9	132584974	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	823484	132584974	8628457	3722	57553											
USP20	10868	broad.mit.edu	37	chr9	132618599	132618599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacacagggaacctgtcagtCgtgtggggtcaccggaccaa	10	6	13	12	2	2	0	2	0	0	0	3	2	2	2	3	4	1	0	3	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:132618599C>T	uc004bys.2	+	4	306	c.95C>T	c.(94-96)TCG>TTG	p.S32L	USP20_uc004byr.2_Missense_Mutation_p.S32L|USP20_uc004byt.1_Missense_Mutation_p.S32L	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	32	UBP-type.				endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				ACCTGTCAGTCGTGTGGGGTC	0.587													57	131					0	0	1	0	0		T	132618599	T	T	132618599	3	4	89	1	0	0	0	0	1	0	0	0	17078	893	31	1	101	1	USP20	9	132618599	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	33625	132618599	8594832	3723	57554											
FNBP1	23048	broad.mit.edu	37	chr9	132658222	132658222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccatcgcctttgtcttcctCtatgacatacaatgtttctc	7	16	5	13	1	3	1	0	1	3	0	6	1	4	1	3	0	1	1	3	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:132658222C>T	uc004byw.1	-	16	1960	c.1741G>A	c.(1741-1743)GAG>AAG	p.E581K	FNBP1_uc011mbv.1_Missense_Mutation_p.E571K|FNBP1_uc011mbw.1_Missense_Mutation_p.E576K|FNBP1_uc004bza.2_Missense_Mutation_p.E515K|FNBP1_uc004byz.1_Missense_Mutation_p.E552K|FNBP1_uc004byv.1_5'Flank|FNBP1_uc011mbu.1_Missense_Mutation_p.E209K|FNBP1_uc004byx.1_Missense_Mutation_p.E497K|FNBP1_uc004byy.1_Missense_Mutation_p.E487K	NM_015033	NP_055848	Q96RU3	FNBP1_HUMAN	formin binding protein 1	581	Required for self-association and induction of membrane tubulation.|Interaction with FASLG.|SH3.|Interaction with PDE6G (By similarity).|Interaction with DNM1 and DNM3.|Required for interaction with TNKS.|Interaction with DNM2 and WASL.|Interaction with ARHGAP17, DAAM1, DIAPH1 and DIAPH2.				endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|lysosome|plasma membrane	identical protein binding|lipid binding				0		Ovarian(14;0.000536)		GBM - Glioblastoma multiforme(294;0.0378)		TTGTCTTCCTCTATGACATAC	0.428			T	MLL	AML								16	41					0	0	1	0	0		T	132658222	T	T	132658222	3	4	89	1	0	0	0	0	1	0	0	0	5979	922	32	4	120	4	FNBP1	9	132658222	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	39623	132658222	8555209	3724	57555											
FNBP1	23048	broad.mit.edu	37	chr9	132665242	132665242	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgggtctcccatctgaggaTtctttaggtagacatctttc	7	15	9	10	0	4	2	0	1	4	1	6	3	4	3	1	3	0	1	1	3	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:132665242T>C	uc004byw.1	-	13	1553	c.1334A>G	c.(1333-1335)AAT>AGT	p.N445S	FNBP1_uc011mbv.1_Missense_Mutation_p.N435S|FNBP1_uc011mbw.1_Missense_Mutation_p.N440S|FNBP1_uc004bza.2_Missense_Mutation_p.N379S|FNBP1_uc004byz.1_Missense_Mutation_p.N416S|FNBP1_uc011mbu.1_Missense_Mutation_p.N73S|FNBP1_uc004byx.1_Missense_Mutation_p.N361S|FNBP1_uc004byy.1_Missense_Mutation_p.N351S	NM_015033	NP_055848	Q96RU3	FNBP1_HUMAN	formin binding protein 1	445	Required for self-association and induction of membrane tubulation.|Interaction with RND2 (By similarity).|REM.				endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|lysosome|plasma membrane	identical protein binding|lipid binding				0		Ovarian(14;0.000536)		GBM - Glioblastoma multiforme(294;0.0378)		CATCTGAGGATTCTTTAGGTA	0.358			T	MLL	AML								6	5					0	0	1	0	0		C	132665242	C	C	132665242	3	2	89	1	0	0	0	0	1	0	0	0	5979	1493	52	3	539	3	FNBP1	9	132665242	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	7020	132665242	8548189	3725	57556											
GPR107	57720	broad.mit.edu	37	chr9	132866788	132866788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggactctctatttctggtCgacctgttgtgttgtggtgc	5	16	12	8	1	2	0	0	0	2	0	4	2	2	1	1	3	1	2	1	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:132866788C>T	uc004bze.2	+	13	1448	c.1221C>T	c.(1219-1221)GTC>GTT	p.V407V	GPR107_uc004bzb.2_Silent_p.V218V|GPR107_uc004bzc.3_RNA|GPR107_uc011mbx.1_Silent_p.V407V|GPR107_uc004bzd.2_Silent_p.V407V	NM_001136557	NP_001130029	Q5VW38	GP107_HUMAN	G protein-coupled receptor 107 isoform 1	407	Helical; Name=5; (Potential).					integral to membrane				upper_aerodigestive_tract(1)	1		Ovarian(14;0.000531)				TATTTCTGGTCGACCTGTTGT	0.532													10	31					0	0	1	0	0		T	132866788	T	T	132866788	2	4	89	1	0	0	0	0	0	0	0	1	6638	871	31	1		1	GPR107	9	132866788	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	201546	132866788	8346643	3726	57557											
LAMC3	10319	broad.mit.edu	37	chr9	133920995	133920995	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatggccactccaaggtgtgCgcgtccactgcccagttcca	7	9	10	15	2	0	0	0	0	0	0	3	0	3	0	5	2	2	1	5	2	2	2	rs143375693	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:133920995C>T	uc004caa.1	+	8	1565	c.1467C>T	c.(1465-1467)TGC>TGT	p.C489C		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	489	Laminin EGF-like 5; first part.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		CCAAGGTGTGCGCGTCCACTG	0.597													19	42					0	0	1	0	0		T	133920995	T	T	133920995	2	4	89	1	0	0	0	0	0	0	0	1	8632	776	27	1		1	LAMC3	9	133920995	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1054207	133920995	7292436	3727	57558											
UCK1	83549	broad.mit.edu	37	chr9	134401365	134401365	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acatcggcatacttctttgtCtgtaaggcacaagggggggt	9	11	13	8	1	2	0	0	0	2	0	3	0	2	0	0	5	1	3	0	5	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:134401365C>T	uc004cay.2	-	6	705	c.604_splice	c.e6-1	p.T202_splice	UCK1_uc010mzk.2_Splice_Site_p.T193_splice|UCK1_uc004cba.2_Splice_Site_p.D170_splice|UCK1_uc004caz.2_Splice_Site	NM_031432	NP_113620	Q9HA47	UCK1_HUMAN	uridine-cytidine kinase 1 isoform a						pyrimidine base metabolic process|pyrimidine nucleoside salvage	cytosol	ATP binding|phosphotransferase activity, alcohol group as acceptor|uridine kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;2.34e-05)|Epithelial(140;0.000219)		ACTTCTTTGTCTGTAAGGCAC	0.562													48	95					0	0	1	0	0		T	134401365	T	T	134401365	5	4	89	1	0	0	0	0	0	0	1	0	16949	927	32	4	238	4	UCK1	9	134401365	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	480370	134401365	6812066	3728	57559											
RAPGEF1	2889	broad.mit.edu	37	chr9	134497187	134497187	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggtgtcactcaccagcTgccgctgcttggggggtagg	6	8	17	10	1	2	0	2	0	0	0	2	1	2	1	2	6	3	4	2	6	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:134497187T>G	uc004cbc.2	-	11	1980	c.1850A>C	c.(1849-1851)CAG>CCG	p.Q617P	RAPGEF1_uc004cbb.2_Missense_Mutation_p.Q635P|RAPGEF1_uc010mzm.2_RNA|RAPGEF1_uc010mzn.2_Missense_Mutation_p.Q622P|RAPGEF1_uc004cbd.2_Missense_Mutation_p.Q622P|RAPGEF1_uc010mzs.1_Missense_Mutation_p.Q63P|RAPGEF1_uc010mzl.1_Missense_Mutation_p.Q63P|RAPGEF1_uc010mzo.1_Missense_Mutation_p.Q63P|RAPGEF1_uc010mzp.1_Missense_Mutation_p.Q63P|RAPGEF1_uc010mzq.1_Missense_Mutation_p.Q63P|RAPGEF1_uc010mzr.1_Missense_Mutation_p.Q63P	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	617	SH3-binding.				activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		ACTCACCAGCTGCCGCTGCTT	0.617													6	4					0	0	1	0	0		G	134497187	G	G	134497187	3	3	89	1	0	0	0	0	1	0	0	0	13068	1580	55	5	1439	5	RAPGEF1	9	134497187	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	95822	134497187	6716244	3729	57560											
NTNG2	84628	broad.mit.edu	37	chr9	135073374	135073374	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatccctacctatgcagcAacgagtgtgacgcctccaac	12	7	8	14	2	0	2	0	1	0	1	2	3	2	2	4	0	5	2	4	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:135073374A>G	uc004cbh.2	+	3	1011	c.235A>G	c.(235-237)AAC>GAC	p.N79D		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	79	Laminin N-terminal.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		CCTATGCAGCAACGAGTGTGA	0.657													11	38					0	0	1	0	0		G	135073374	G	G	135073374	3	3	89	1	0	0	0	0	1	0	0	0	10724	130	5	3	241	3	NTNG2	9	135073374	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	576187	135073374	6140057	3730	57561											
SETX	23064	broad.mit.edu	37	chr9	135150684	135150684	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaaatccttctgaatcatCgtcttctgggccttgtaatg	8	15	7	11	1	4	1	1	1	3	0	7	1	6	1	3	1	0	1	3	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:135150684C>T	uc004cbk.2	-	23	7242	c.7059G>A	c.(7057-7059)ACG>ACA	p.T2353T	SETX_uc004cbj.2_Silent_p.T1972T|SETX_uc010mzt.2_Silent_p.T1972T	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	2353					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		TCTGAATCATCGTCTTCTGGG	0.318													51	122					0	0	1	0	0		T	135150684	T	T	135150684	2	4	89	1	0	0	0	0	0	0	0	1	14166	871	31	1		1	SETX	9	135150684	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	77310	135150684	6062747	3731	57562											
SETX	23064	broad.mit.edu	37	chr9	135204697	135204697	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctttaaagagaaatctTcattcgatgtggacactttt	12	15	6	8	1	2	1	1	0	1	1	4	4	3	2	1	1	0	0	1	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:135204697T>G	uc004cbk.2	-	10	2471	c.2288A>C	c.(2287-2289)GAA>GCA	p.E763A	SETX_uc004cbj.2_Missense_Mutation_p.E382A|SETX_uc010mzt.2_Missense_Mutation_p.E382A	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	763					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		AGAGAAATCTTCATTCGATGT	0.363													62	98					0	0	1	0	0		G	135204697	G	G	135204697	3	3	89	1	0	0	0	0	1	0	0	0	14166	1783	62	5	5813	5	SETX	9	135204697	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	54013	135204697	6008734	3732	57563											
SETX	23064	broad.mit.edu	37	chr9	135221766	135221766	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcatctctccattattgtcTactatatataactcatcatc	11	16	3	11	0	4	0	2	0	2	0	7	0	5	0	1	1	2	1	1	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:135221766T>C	uc004cbk.2	-	4	453	c.270A>G	c.(268-270)GTA>GTG	p.V90V		NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	90					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		CATTATTGTCTACTATATATA	0.358													24	37					0	0	1	0	0		C	135221766	C	C	135221766	2	2	89	1	0	0	0	0	0	0	0	1	14166	1509	53	3		3	SETX	9	135221766	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	17069	135221766	5991665	3733	57564											
TTF1	7270	broad.mit.edu	37	chr9	135251430	135251430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcttcataataaaagatgtCtcgaaatgggaaaacttgct	15	12	8	6	1	3	1	1	0	2	1	4	3	3	2	0	1	2	1	0	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:135251430C>T	uc004cbl.2	-	11	2642	c.2590G>A	c.(2590-2592)GAC>AAC	p.D864N	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Missense_Mutation_p.D349N	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	864					negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		TAAAAGATGTCTCGAAATGGG	0.303													19	51					0	0	1	0	0		T	135251430	T	T	135251430	3	4	89	1	0	0	0	0	1	0	0	0	16744	913	32	4	131	4	TTF1	9	135251430	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	29664	135251430	5962001	3734	57565											
C9orf7	11094	broad.mit.edu	37	chr9	136330477	136330477	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttgttgctgtgtgaggcGcccttctgctgccagttcat	4	15	11	11	1	3	1	1	1	2	0	3	1	3	1	2	1	3	4	2	1	0	4	rs149884279		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:136330477G>A	uc011mdg.1	+	3	330	c.228G>A	c.(226-228)GCG>GCA	p.A76A	C9orf7_uc004cec.2_Intron|C9orf7_uc011mdh.1_Silent_p.A76A|C9orf7_uc011mdi.1_Intron|C9orf7_uc010nan.2_RNA	NM_017586	NP_060056	Q9UGQ2	FLOWR_HUMAN	hypothetical protein LOC11094 isoform a	76	Helical; (Potential).					integral to membrane					0				GBM - Glioblastoma multiforme(294;5.7e-39)|all cancers(34;1.83e-23)|OV - Ovarian serous cystadenocarcinoma(145;8.94e-08)|Epithelial(140;1.01e-06)		TGTGTGAGGCGCCCTTCTGCT	0.607													40	77					0	0	1	0	0		A	136330477	A	A	136330477	2	1	89	1	0	0	0	0	0	0	0	1	2496	1074	38	1		1	C9orf7	9	136330477	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1079047	136330477	4882954	3735	57566											
ADAMTSL2	9719	broad.mit.edu	37	chr9	136412278	136412278	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcccatggatgtctatgaGaccggaatcgagtacatcgt	10	9	12	10	4	1	1	0	1	1	1	3	5	1	3	2	3	1	1	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:136412278G>T	uc011mdl.1	+	9	1439	c.882G>T	c.(880-882)GAG>GAT	p.E294D	ADAMTSL2_uc004cei.2_Missense_Mutation_p.E294D	NM_001145320	NP_001138792	Q86TH1	ATL2_HUMAN	ADAMTS-like 2 precursor	294					negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;9.31e-08)|Epithelial(140;6.62e-07)|all cancers(34;7.74e-06)		ATGTCTATGAGACCGGAATCG	0.602													89	227					1.97602e-69	2.46611e-69	1	1	0		T	136412278	T	T	136412278	3	4	89	1	0	0	0	0	1	0	0	0	275	933	33	5	912	5	ADAMTSL2	9	136412278	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	81801	136412278	4801153	3736	57567											
DBH	1621	broad.mit.edu	37	chr9	136508639	136508639	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccacttcagcgggccctgCgactccaagatgaaacccga	10	5	9	17	3	1	2	1	1	0	1	2	4	2	2	5	1	3	0	5	1	2	1	rs78200745		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:136508639C>T	uc004cel.2	+	4	858	c.849C>T	c.(847-849)TGC>TGT	p.C283C		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	283	Intragranular (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	GCGGGCCCTGCGACTCCAAGA	0.662													23	64					0	0	1	0	0		T	136508639	T	T	136508639	2	4	89	1	0	0	0	0	0	0	0	1	4253	776	27	1		1	DBH	9	136508639	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	96361	136508639	4704792	3737	57568											
DBH	1621	broad.mit.edu	37	chr9	136509381	136509381	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggccttgccttcgggggTccagggtcctccagatatct	4	10	13	14	2	1	1	0	0	1	1	5	1	4	1	6	4	1	0	6	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:136509381T>C	uc004cel.2	+	5	972	c.963T>C	c.(961-963)GGT>GGC	p.G321G		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	321	Intragranular (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	CCTTCGGGGGTCCAGGGTCCT	0.607													13	89					0	0	1	0	0		C	136509381	C	C	136509381	2	2	89	1	0	0	0	0	0	0	0	1	4253	1654	58	3		3	DBH	9	136509381	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	742	136509381	4704050	3738	57569											
BRD3	8019	broad.mit.edu	37	chr9	136913345	136913345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catctccctgaggatgctgtCgcagtagcgtaggtgctccg	6	10	13	12	3	1	1	0	1	1	0	4	2	2	2	2	2	3	5	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:136913345C>T	uc004cew.2	-	6	1134	c.946G>A	c.(946-948)GAC>AAC	p.D316N	BRD3_uc004cex.2_Missense_Mutation_p.D316N	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	316						nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		AGGATGCTGTCGCAGTAGCGT	0.637			T	NUT|C15orf55	lethal midline carcinoma of young people								12	12					0	0	1	0	0		T	136913345	T	T	136913345	3	4	89	1	0	0	0	0	1	0	0	0	1506	884	31	1	1262	1	BRD3	9	136913345	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	403964	136913345	4300086	3739	57570											
COL5A1	1289	broad.mit.edu	37	chr9	137630640	137630640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtcccactggccaagtcgggGaccctggagaaagggtaaga	11	5	15	10	1	0	2	0	0	0	2	2	4	1	3	3	5	0	1	3	5	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:137630640G>A	uc004cfe.2	+	11	1862	c.1480G>A	c.(1480-1482)GAC>AAC	p.D494N		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	494	Interrupted collagenous region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		CCAAGTCGGGGACCCTGGAGA	0.572													9	74					0	0	1	0	0		A	137630640	A	A	137630640	3	1	89	1	0	0	0	0	1	0	0	0	3699	1174	41	4	1522	4	COL5A1	9	137630640	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	717295	137630640	3582791	3740	57571											
CAMSAP1	157922	broad.mit.edu	37	chr9	138706958	138706958	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcctccaatatggaattCttgtggggttcgttcacttt	6	17	9	9	1	2	0	1	0	1	0	4	1	3	1	2	3	1	2	2	3	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:138706958C>A	uc004cgr.3	-	16	4491	c.4491G>T	c.(4489-4491)AAG>AAT	p.K1497N	CAMSAP1_uc004cgq.3_Missense_Mutation_p.K1387N|CAMSAP1_uc010nbg.2_Missense_Mutation_p.K1219N	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1497	CKK.					cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		ATATGGAATTCTTGTGGGGTT	0.383													8	17					0.0477658	0.0479884	1	1	0		A	138706958	A	A	138706958	3	1	89	1	0	0	0	0	1	0	0	0	2614	912	32	5	325	5	CAMSAP1	9	138706958	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1076318	138706958	2506473	3741	57572											
SEC16A	9919	broad.mit.edu	37	chr9	139371654	139371654	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacctctgcactcctgttCatctcaggcccaggaggtgc	6	9	10	16	1	3	0	2	0	2	0	5	2	4	1	4	3	2	2	4	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:139371654C>A	uc004chx.2	-	3	723	c.414G>T	c.(412-414)ATG>ATT	p.M138I	SEC16A_uc004chv.3_5'Flank|SEC16A_uc004chw.2_Missense_Mutation_p.M138I|SEC16A_uc010nbn.2_Missense_Mutation_p.M138I|SEC16A_uc010nbo.1_Missense_Mutation_p.M138I	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		CACTCCTGTTCATCTCAGGCC	0.557													54	89					4.88482e-21	5.78106e-21	1	1	0		A	139371654	A	A	139371654	3	1	89	1	0	0	0	0	1	0	0	0	14011	826	29	5	6779	5	SEC16A	9	139371654	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	664696	139371654	1841777	3742	57573											
NOTCH1	4851	broad.mit.edu	37	chr9	139391777	139391777	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagccgttgggcgagcagagCgggggcgacagggtgggcgt	6	5	22	8	5	0	1	0	0	0	1	0	3	0	1	1	5	3	2	1	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:139391777C>T	uc004chz.2	-	34	6414	c.6414G>A	c.(6412-6414)CCG>CCA	p.P2138P		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2138	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GCGAGCAGAGCGGGGGCGACA	0.692			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			13	32					0	0	1	0	0		T	139391777	T	T	139391777	2	4	89	1	0	0	0	0	0	0	0	1	10566	755	27	1		1	NOTCH1	9	139391777	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	20123	139391777	1821654	3743	57574											
FAM69B	138311	broad.mit.edu	37	chr9	139617800	139617800	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctcttccacggctcttaCgggactttctacatgtgtga	7	13	10	11	2	3	1	0	1	3	0	4	3	4	2	1	2	3	2	1	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:139617800C>T	uc004cik.2	+	5	964	c.870C>T	c.(868-870)TAC>TAT	p.Y290Y	FAM69B_uc004cil.2_Silent_p.Y203Y|SNHG7_uc004cim.2_Intron	NM_152421	NP_689634	Q5VUD6	FA69B_HUMAN	hypothetical protein LOC138311	290	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.03e-05)|Epithelial(140;0.00013)		ACGGCTCTTACGGGACTTTCT	0.632													30	59					0	0	1	0	0		T	139617800	T	T	139617800	2	4	89	1	0	0	0	0	0	0	0	1	5617	547	19	1		1	FAM69B	9	139617800	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	226023	139617800	1595631	3744	57575											
LCN10	414332	broad.mit.edu	37	chr9	139637344	139637344	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accagcgccagcaccagcagCccctgcctcatcttcaccct	8	6	6	21	1	3	0	2	0	1	0	3	0	3	0	7	0	5	2	7	0	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:139637344C>T	uc010nbq.2	-	1	71	c.12G>A	c.(10-12)GGG>GGA	p.G4G	LCN10_uc004civ.2_Silent_p.G4G|LCN10_uc011med.1_RNA|LCN10_uc011mee.1_Silent_p.G4G|LCN10_uc011mef.1_RNA|LCN10_uc004ciw.2_RNA			Q6JVE6	LCN10_HUMAN	SubName: Full=LCN10 protein;	4					transport	extracellular region	binding			large_intestine(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.32e-06)|Epithelial(140;7.83e-05)		gcaccagcagcccctgcctca	0.408													20	31					0	0	1	0	0		T	139637344	T	T	139637344	2	4	89	1	0	0	0	0	0	0	0	1	8697	726	26	2		2	LCN10	9	139637344	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19544	139637344	1576087	3745	57576											
LCN15	389812	broad.mit.edu	37	chr9	139658209	139658209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcccaccttcaggtactcgGcatccacctggttacagccg	8	8	9	16	2	1	0	1	0	0	0	3	0	2	0	5	3	4	3	5	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:139658209G>A	uc004cjd.2	-	3	288	c.263C>T	c.(262-264)GCC>GTC	p.A88V		NM_203347	NP_976222	Q6UWW0	LCN15_HUMAN	lipocalin 15 precursor	88					lipid metabolic process	extracellular region	binding|transporter activity				0						CAGGTACTCGGCATCCACCTG	0.672													22	37					0	0	1	0	0		A	139658209	A	A	139658209	3	1	89	1	0	0	0	0	1	0	0	0	8699	1203	42	2	307	2	LCN15	9	139658209	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	20865	139658209	1555222	3746	57577											
NDOR1	27158	broad.mit.edu	37	chr9	140108241	140108241	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctccacaggttcaacttCgtggccaagaagctgcaccg	9	9	10	13	2	2	1	1	0	1	1	4	1	2	1	3	2	3	3	3	2	3	2	rs144473922		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:140108241C>T	uc004clw.2	+	4	432	c.321C>T	c.(319-321)TTC>TTT	p.F107F	NDOR1_uc004clx.2_Silent_p.F107F|NDOR1_uc011mes.1_Silent_p.F107F|NDOR1_uc004cly.2_Silent_p.F107F	NM_014434	NP_055249	Q9UHB4	NDOR1_HUMAN	NADPH dependent diflavin oxidoreductase 1	107	FMN (By similarity).|Flavodoxin-like.				cell death	cytosol|intermediate filament cytoskeleton|nucleus|perinuclear region of cytoplasm	flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding|oxidoreductase activity|protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GGTTCAACTTCGTGGCCAAGA	0.682													7	17					0	0	1	0	0		T	140108241	T	T	140108241	2	4	89	1	0	0	0	0	0	0	0	1	10268	883	31	1		1	NDOR1	9	140108241	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	450032	140108241	1105190	3747	57578											
FAM166A	401565	broad.mit.edu	37	chr9	140140191	140140191	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aacttgggtttggacatgggGgacagcacagagcaggggct	10	7	17	7	0	0	1	0	0	0	1	0	3	0	3	0	6	3	4	0	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:140140191G>A	uc004cmi.1	-	2	226	c.171C>T	c.(169-171)TCC>TCT	p.S57S		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	57										ovary(1)	1						TGGACATGGGGGACAGCACAG	0.617													23	38					0	0	1	0	0		A	140140191	A	A	140140191	2	1	89	1	0	0	0	0	0	0	0	1	5492	1219	43	4		4	FAM166A	9	140140191	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	31950	140140191	1073240	3748	57579											
EHMT1	79813	broad.mit.edu	37	chr9	140646849	140646849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaggaggaaggcggtgacGagtctgacctggtaatgccc	10	6	17	8	2	1	2	0	2	1	0	1	6	1	5	2	6	1	1	2	6	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:140646849G>A	uc011mfc.1	+	7	1274	c.1237G>A	c.(1237-1239)GAG>AAG	p.E413K	EHMT1_uc004coa.2_Missense_Mutation_p.E413K|EHMT1_uc004cob.1_Missense_Mutation_p.E382K	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	413					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		AGGCGGTGACGAGTCTGACCT	0.592													10	24					0	0	1	0	0		A	140646849	A	A	140646849	3	1	89	1	0	0	0	0	1	0	0	0	4989	1059	37	1	1263	1	EHMT1	9	140646849	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	506658	140646849	566582	3749	57580											
EHMT1	79813	broad.mit.edu	37	chr9	140671280	140671280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggccctggagggcagggccGacaccacaacgggcaggtac	9	2	16	14	3	0	0	0	0	0	0	0	2	0	1	3	6	2	3	3	6	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:140671280G>A	uc011mfc.1	+	12	2039	c.2002G>A	c.(2002-2004)GAC>AAC	p.D668N	EHMT1_uc004coa.2_Missense_Mutation_p.D668N|EHMT1_uc004cob.1_Missense_Mutation_p.D637N	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	668					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		GGGCAGGGCCGACACCACAAC	0.592													18	28					0	0	1	0	0		A	140671280	A	A	140671280	3	1	89	1	0	0	0	0	1	0	0	0	4989	1058	37	1	2048	1	EHMT1	9	140671280	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24431	140671280	542151	3750	57581											
CACNA1B	774	broad.mit.edu	37	chr9	140777318	140777318	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctggaacgtcatggacttCgtggtcgtcctcacagggta	7	10	14	10	3	2	0	2	0	0	0	5	2	3	2	1	5	1	2	1	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:140777318C>T	uc004cog.2	+	3	658	c.513C>T	c.(511-513)TTC>TTT	p.F171F	uc004cof.1_RNA	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	171	Helical; Name=S3 of repeat I; (Potential).|I.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TCATGGACTTCGTGGTCGTCC	0.607													51	236					0	0	1	0	0		T	140777318	T	T	140777318	2	4	89	1	0	0	0	0	0	0	0	1	2542	883	31	1		1	CACNA1B	9	140777318	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	106038	140777318	436113	3751	57582											
CACNA1B	774	broad.mit.edu	37	chr9	140954118	140954118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctctagaactatttcagaGatgcctggaatgtctttgac	10	15	8	8	0	3	3	1	1	2	2	4	5	3	4	1	1	2	0	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:140954118G>A	uc004cog.2	+	31	4742	c.4597G>A	c.(4597-4599)GAT>AAT	p.D1533N	CACNA1B_uc011mfd.1_Missense_Mutation_p.D1063N|CACNA1B_uc004coi.2_Missense_Mutation_p.D747N	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	1533	Cytoplasmic (Potential).|IV.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	CTATTTCAGAGATGCCTGGAA	0.433													22	77					0	0	1	0	0		A	140954118	A	A	140954118	3	1	89	1	0	0	0	0	1	0	0	0	2542	942	33	4	4719	4	CACNA1B	9	140954118	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	176800	140954118	259313	3752	57583											
CACNA1B	774	broad.mit.edu	37	chr9	140972701	140972701	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctccttcatcttcctgtgCtcctttctggtgagtcctgg	2	17	9	13	0	4	1	1	1	3	0	8	1	7	1	4	2	1	1	4	2	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:140972701C>T	uc004cog.2	+	35	5230	c.5085C>T	c.(5083-5085)TGC>TGT	p.C1695C	CACNA1B_uc004coi.2_Silent_p.C907C|CACNA1B_uc004cok.1_RNA|CACNA1B_uc010ncp.1_Silent_p.C50C	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	1695	Helical; Name=S6 of repeat IV; (Potential).|IV.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TCTTCCTGTGCTCCTTTCTGG	0.567													10	27					0	0	1	0	0		T	140972701	T	T	140972701	2	4	89	1	0	0	0	0	0	0	0	1	2542	805	28	2		2	CACNA1B	9	140972701	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	18583	140972701	240730	3753	57584											
CACNA1B	774	broad.mit.edu	37	chr9	141016245	141016245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgaggcctctgtccacGccctgcctgaggacactctc	7	8	10	16	1	2	2	0	2	2	0	4	3	3	3	4	2	1	0	4	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr9:141016245G>A	uc004cog.2	+	46	6959	c.6814G>A	c.(6814-6816)GCC>ACC	p.A2272T	CACNA1B_uc004coi.2_Missense_Mutation_p.A1484T	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	2272	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	CTCTGTCCACGCCCTGCCTGA	0.647													23	34					0	0	1	0	0		A	141016245	A	A	141016245	3	1	89	1	0	0	0	0	1	0	0	0	2542	1087	38	1	6996	1	CACNA1B	9	141016245	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	43544	141016245	197186	3754	57585											
ZMYND11	10771	broad.mit.edu	37	chr10	267147	267147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttgtaggactgggaaacaGaaaatcatgactggtattgt	13	13	11	4	0	1	2	1	1	0	1	1	4	1	4	0	3	1	2	0	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:267147G>A	uc010pzt.1	+	4	717	c.289G>A	c.(289-291)GAA>AAA	p.E97K	ZMYND11_uc001ifk.2_Missense_Mutation_p.E97K|ZMYND11_uc010pzu.1_Missense_Mutation_p.E97K|ZMYND11_uc010pzv.1_Intron|ZMYND11_uc010pzw.1_Intron|ZMYND11_uc001ifm.2_Intron|ZMYND11_uc010pzx.1_Missense_Mutation_p.E97K|ZMYND11_uc001ifn.2_Intron|ZMYND11_uc009xhg.2_Missense_Mutation_p.E80K|ZMYND11_uc009xhh.2_Intron|ZMYND11_uc010pzy.1_Intron	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	57					cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CTGGGAAACAGAAAATCATGA	0.348													46	111					0	0	1	0	0		A	267147	A	A	267147	3	1	89	1	0	0	0	0	1	0	0	0	17731	943	33	4	299	4	ZMYND11	10	267147	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08		267147	135267600	3755	57586											
ZMYND11	10771	broad.mit.edu	37	chr10	294869	294869	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgaaatggaagaagaaaaGagacaagctgtaaataaagc	21	6	10	4	0	1	4	0	1	1	3	1	6	1	5	0	1	2	2	0	1	10	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:294869G>A	uc010pzt.1	+	14	1955	c.1527G>A	c.(1525-1527)AAG>AAA	p.K509K	ZMYND11_uc001ifk.2_Silent_p.K508K|ZMYND11_uc010pzu.1_Silent_p.K509K|ZMYND11_uc010pzv.1_Silent_p.K454K|ZMYND11_uc010pzw.1_Silent_p.K424K|ZMYND11_uc001ifm.2_Silent_p.K455K|ZMYND11_uc010pzx.1_Silent_p.K509K|ZMYND11_uc001ifn.2_Silent_p.K455K|ZMYND11_uc009xhg.2_Silent_p.K492K|ZMYND11_uc009xhh.2_Silent_p.K383K|ZMYND11_uc010pzy.1_Silent_p.K361K	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	469	Interaction with human adenovirus E1A.				cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		AAGAAGAAAAGAGACAAGCTG	0.403													20	24					0	0	1	0	0		A	294869	A	A	294869	2	1	89	1	0	0	0	0	0	0	0	1	17731	933	33	4		4	ZMYND11	10	294869	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	27722	294869	135239878	3756	57587											
DIP2C	22982	broad.mit.edu	37	chr10	460034	460034	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctccggctttggttggttCggatccggttgttgaactaa	5	14	12	10	3	0	1	0	1	0	0	3	2	2	2	3	5	1	5	3	5	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:460034C>T	uc001ifp.2	-	8	966	c.876G>A	c.(874-876)CCG>CCA	p.P292P	DIP2C_uc009xhj.1_5'UTR	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	292						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		TTGGTTGGTTCGGATCCGGTT	0.527													20	50					0	0	1	0	0		T	460034	T	T	460034	2	4	89	1	0	0	0	0	0	0	0	1	4535	871	31	1		1	DIP2C	10	460034	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	165165	460034	135074713	3757	57588											
LARP4B	23185	broad.mit.edu	37	chr10	871710	871710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccccggaacttgcctgcttCgaggaggatactgtctgaga	8	9	13	11	2	1	1	0	1	1	1	2	6	1	4	3	3	4	1	3	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:871710C>T	uc001ifs.1	-	11	1267	c.1226G>A	c.(1225-1227)CGA>CAA	p.R409Q		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	409							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						TTGCCTGCTTCGAGGAGGATA	0.507													8	14					0	0	1	0	0		T	871710	T	T	871710	3	4	89	1	0	0	0	0	1	0	0	0	8647	884	31	1	1018	1	LARP4B	10	871710	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	411676	871710	134663037	3758	57589											
LARP4B	23185	broad.mit.edu	37	chr10	875374	875374	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccacgtctggggagtgAtcaggctgtacagggggaac	9	7	16	9	1	2	2	1	2	1	0	2	4	2	4	1	5	2	2	1	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:875374A>G	uc001ifs.1	-	10	1117	c.1076T>C	c.(1075-1077)ATC>ACC	p.I359T		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	359							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						CTGGGGAGTGATCAGGCTGTA	0.537													20	41					0	0	1	0	0		G	875374	G	G	875374	3	3	89	1	0	0	0	0	1	0	0	0	8647	333	12	3	1172	3	LARP4B	10	875374	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3664	875374	134659373	3759	57590											
LARP4B	23185	broad.mit.edu	37	chr10	910209	910209	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaaaccttagttgctggtAcctaggaagaaatgtaagat	14	11	10	6	0	0	3	0	1	0	2	0	4	0	4	2	2	3	4	2	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:910209A>G	uc001ifs.1	-	3	184	c.143T>C	c.(142-144)GTA>GCA	p.V48A		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	48							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						AGTTGCTGGTACCTAGGAAGA	0.428													24	46					0	0	1	0	0		G	910209	G	G	910209	3	3	89	1	0	0	0	0	1	0	0	0	8647	405	14	3	2133	3	LARP4B	10	910209	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	34835	910209	134624538	3760	57591											
GTPBP4	23560	broad.mit.edu	37	chr10	1058589	1058589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagggacccaggatgccgcGaactgctaagaaggcaagtt	13	5	13	10	2	0	1	0	0	0	1	0	4	0	3	2	3	3	3	2	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:1058589G>A	uc001ift.2	+	14	1600	c.1529G>A	c.(1528-1530)CGA>CAA	p.R510Q	GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Missense_Mutation_p.R394Q|GTPBP4_uc010qae.1_Missense_Mutation_p.R463Q	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	510					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		AGGATGCCGCGAACTGCTAAG	0.403													13	27					0	0	1	0	0		A	1058589	A	A	1058589	3	1	89	1	0	0	0	0	1	0	0	0	6898	1058	37	1	1583	1	GTPBP4	10	1058589	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	148380	1058589	134476158	3761	57592											
WDR37	22884	broad.mit.edu	37	chr10	1126003	1126003	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttagctgctgaaggacaagcGattgatggagcagagctgag	12	8	15	6	1	0	4	0	3	0	1	0	7	0	6	0	2	5	4	0	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:1126003G>A	uc001igf.1	+	4	461	c.288G>A	c.(286-288)GCG>GCA	p.A96A	WDR37_uc001ige.2_Silent_p.A96A|WDR37_uc009xhm.1_Silent_p.A96A|WDR37_uc009xhn.1_RNA|WDR37_uc001igg.1_RNA	NM_014023	NP_054742	Q9Y2I8	WDR37_HUMAN	WD repeat domain 37	96											0		all_epithelial(10;0.0449)|Colorectal(49;0.142)		Epithelial(11;0.134)		AAGGACAAGCGATTGATGGAG	0.378													21	42					0	0	1	0	0		A	1126003	A	A	1126003	2	1	89	1	0	0	0	0	0	0	0	1	17317	1045	37	1		1	WDR37	10	1126003	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	67414	1126003	134408744	3762	57593											
ADARB2	105	broad.mit.edu	37	chr10	1405799	1405799	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggtggggcctgtgccctcGaacgtgagcccgttcacctc	4	10	13	14	3	1	1	1	1	0	0	3	2	1	1	4	3	3	1	4	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:1405799G>A	uc009xhq.2	-	3	875	c.501C>T	c.(499-501)TTC>TTT	p.F167F		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	167	DRBM 1.				mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		CTGTGCCCTCGAACGTGAGCC	0.687													10	13					0	0	1	0	0		A	1405799	A	A	1405799	2	1	89	1	0	0	0	0	0	0	0	1	283	1049	37	1		1	ADARB2	10	1405799	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	279796	1405799	134128948	3763	57594											
AKR1C4	1109	broad.mit.edu	37	chr10	5242274	5242274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgaagcaagattgcagatgGcagtgtgaagagagaagaca	16	5	14	6	1	0	6	0	1	0	5	0	8	0	6	1	1	2	3	1	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:5242274G>A	uc001ihw.2	+	2	248	c.215G>A	c.(214-216)GGC>GAC	p.G72D		NM_001818	NP_001809	P17516	AK1C4_HUMAN	aldo-keto reductase family 1, member C4	72					androgen metabolic process|bile acid biosynthetic process	cytosol	aldo-keto reductase (NADP) activity|androsterone dehydrogenase (B-specific) activity|bile acid transmembrane transporter activity|chlordecone reductase activity|electron carrier activity			ovary(1)	1					NADH(DB00157)	ATTGCAGATGGCAGTGTGAAG	0.413													42	97					0	0	1	0	0		A	5242274	A	A	5242274	3	1	89	1	0	0	0	0	1	0	0	0	472	1203	42	2	221	2	AKR1C4	10	5242274	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3836475	5242274	130292473	3764	57595											
C10orf18	54906	broad.mit.edu	37	chr10	5784301	5784301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actctctgttggagactaacGaaatttccagggctcatgct	10	12	9	10	1	2	1	1	0	1	1	4	3	3	1	1	2	2	3	1	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:5784301G>A	uc001iij.2	+	14	3194	c.2569G>A	c.(2569-2571)GAA>AAA	p.E857K	C10orf18_uc001iik.2_Intron	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	857										ovary(1)|central_nervous_system(1)	2						GGAGACTAACGAAATTTCCAG	0.438													51	107					0	0	1	0	0		A	5784301	A	A	5784301	3	1	89	1	0	0	0	0	1	0	0	0	1599	1059	37	1	2611	1	C10orf18	10	5784301	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	542027	5784301	129750446	3765	57596											
C10orf18	54906	broad.mit.edu	37	chr10	5791054	5791054	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctgggttccaggcatggaGacgagcctccctcccgggca	7	6	14	14	2	0	1	0	0	0	1	3	3	3	1	4	4	2	4	4	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:5791054G>A	uc001iij.2	+	15	6295	c.5670G>A	c.(5668-5670)GAG>GAA	p.E1890E	C10orf18_uc001iik.2_Silent_p.E734E	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	1890										ovary(1)|central_nervous_system(1)	2						CAGGCATGGAGACGAGCCTCC	0.547													13	39					0	0	1	0	0		A	5791054	A	A	5791054	2	1	89	1	0	0	0	0	0	0	0	1	1599	933	33	4		4	C10orf18	10	5791054	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6753	5791054	129743693	3766	57597											
ANKRD16	54522	broad.mit.edu	37	chr10	5922312	5922312	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagctcccaaggataagaGagtctgaattgtacttgtat	12	12	10	7	0	2	2	1	1	1	1	3	4	3	3	1	1	2	3	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:5922312G>T	uc010qat.1	-	6	1420	c.877C>A	c.(877-879)CTC>ATC	p.L293I	ANKRD16_uc009xie.2_Intron|ANKRD16_uc009xif.2_Missense_Mutation_p.L293I|ANKRD16_uc001iiq.2_Intron	NM_019046	NP_061919	Q6P6B7	ANR16_HUMAN	ankyrin repeat domain 16 isoform a	293	ANK 8.										0						AAGGATAAGAGAGTCTGAATT	0.284													10	22					0.00621372	0.0062719	1	1	0		T	5922312	T	T	5922312	3	4	89	1	0	0	0	0	1	0	0	0	645	942	33	5	216	5	ANKRD16	10	5922312	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	131258	5922312	129612435	3767	57598											
SFMBT2	57713	broad.mit.edu	37	chr10	7326097	7326097	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaatgaggtctatagggcCtttccctcgcagaggctgtt	7	13	12	9	1	1	2	0	1	1	1	3	2	2	2	2	3	0	4	2	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:7326097C>A	uc009xio.1	-	6	632	c.541G>T	c.(541-543)GGC>TGC	p.G181C	SFMBT2_uc001ijn.1_Missense_Mutation_p.G181C|SFMBT2_uc010qay.1_Missense_Mutation_p.G181C	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	181	MBT 2.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						TCTATAGGGCCTTTCCCTCGC	0.373													41	65					4.92203e-23	5.88717e-23	1	1	0		A	7326097	A	A	7326097	3	1	89	1	0	0	0	0	1	0	0	0	14183	681	24	5	2207	5	SFMBT2	10	7326097	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1403785	7326097	128208650	3768	57599											
ITIH5	80760	broad.mit.edu	37	chr10	7682734	7682734	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacccattttcttctgtggtTttattccttttctcttttac	4	24	3	10	0	3	0	0	0	3	0	5	0	4	0	2	1	2	1	2	1	3	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:7682734T>G	uc001ijq.2	-	4	463	c.384A>C	c.(382-384)AAA>AAC	p.K128N	ITIH5_uc001ijr.1_Missense_Mutation_p.K128N	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	128	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CTTCTGTGGTTTTATTCCTTT	0.378													37	78					0	0	1	0	0		G	7682734	G	G	7682734	3	3	89	1	0	0	0	0	1	0	0	0	7923	1838	64	5	2625	5	ITIH5	10	7682734	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	356637	7682734	127852013	3769	57600											
ITIH2	3698	broad.mit.edu	37	chr10	7769791	7769791	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgatggagatccaacagtgGgcaagtgtcacttcaacctt	11	10	10	10	0	2	2	2	1	0	1	3	3	3	2	2	2	2	1	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:7769791G>T	uc001ijs.2	+	11	1441	c.1279G>T	c.(1279-1281)GGC>TGC	p.G427C		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	427	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						TCCAACAGTGGGCAAGTGTCA	0.448													14	29					6.31663e-08	6.6657e-08	1	1	0		T	7769791	T	T	7769791	3	4	89	1	0	0	0	0	1	0	0	0	7920	1246	43	5	1321	5	ITIH2	10	7769791	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	87057	7769791	127764956	3770	57601											
ITIH2	3698	broad.mit.edu	37	chr10	7785224	7785224	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttctgacccagaatcaggTaaaataaaaataaattatat	19	12	5	5	0	2	2	1	1	1	1	2	2	2	2	1	1	0	2	1	1	10	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:7785224T>C	uc001ijs.2	+	17	2371	c.2209_splice	c.e17+2	p.G737_splice		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide						hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						CAGAATCAGGtaaaataaaaa	0.333													50	114					0	0	1	0	0		C	7785224	C	C	7785224	5	2	89	1	0	0	0	0	0	0	1	0	7920	1652	57	3	2277	3	ITIH2	10	7785224	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15433	7785224	127749523	3771	57602											
KIN	22944	broad.mit.edu	37	chr10	7816807	7816807	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcaccttgacttggaagAtgttgctccggatgagctac	9	11	11	10	1	1	3	1	2	0	1	2	5	2	5	2	2	4	4	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:7816807A>T	uc001ijt.2	-	7	703	c.655T>A	c.(655-657)TCT>ACT	p.S219T	KIN_uc010qaz.1_RNA|KIN_uc009xip.2_Missense_Mutation_p.S219T|KIN_uc010qba.1_Missense_Mutation_p.S113T	NM_012311	NP_036443	O60870	KIN17_HUMAN	HsKin17 protein	219					DNA recombination|DNA repair|DNA replication|interspecies interaction between organisms|mRNA processing	cytoplasm|nuclear matrix	double-stranded DNA binding|RNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						GACTTGGAAGATGTTGCTCCG	0.308													36	68					0	0	1	0	0		T	7816807	T	T	7816807	3	4	89	1	0	0	0	0	1	0	0	0	8331	333	12	5	554	5	KIN	10	7816807	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	31583	7816807	127717940	3772	57603											
ATP5C1	509	broad.mit.edu	37	chr10	7838094	7838094	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttatcctcaggattcaagttCgaaatatggcaactttgaaa	14	13	7	7	1	2	1	2	1	0	0	4	3	3	2	1	2	1	2	1	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:7838094C>T	uc001iju.2	+	2	145	c.67C>T	c.(67-69)CGA>TGA	p.R23*	ATP5C1_uc010qbb.1_Nonsense_Mutation_p.R23*|ATP5C1_uc009xiq.1_Nonsense_Mutation_p.R23*|ATP5C1_uc010qbc.1_Intron|ATP5C1_uc001ijv.2_Nonsense_Mutation_p.R23*	NM_001001973	NP_001001973	P36542	ATPG_HUMAN	ATP synthase, H+ transporting, mitochondrial F1	23					oxidative phosphorylation|respiratory electron transport chain	mitochondrial matrix|mitochondrial proton-transporting ATP synthase complex, catalytic core F(1)	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						GATTCAAGTTCGAAATATGGC	0.224													8	28					0	0	1	0	0		T	7838094	T	T	7838094	4	4	89	1	0	0	0	0	0	1	0	0	1150	876	31	1	73	1	ATP5C1	10	7838094	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	21287	7838094	127696653	3773	57604											
ATP5C1	509	broad.mit.edu	37	chr10	7844253	7844253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagcatgagtatctatgacGatattgatgctgacgtgctg	11	12	11	7	2	1	4	0	4	1	0	1	5	1	4	0	0	3	4	0	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:7844253G>A	uc001iju.2	+	7	736	c.658G>A	c.(658-660)GAT>AAT	p.D220N	ATP5C1_uc009xiq.1_Missense_Mutation_p.D220N|ATP5C1_uc010qbc.1_Missense_Mutation_p.D171N|ATP5C1_uc001ijv.2_Missense_Mutation_p.D220N	NM_001001973	NP_001001973	P36542	ATPG_HUMAN	ATP synthase, H+ transporting, mitochondrial F1	220					oxidative phosphorylation|respiratory electron transport chain	mitochondrial matrix|mitochondrial proton-transporting ATP synthase complex, catalytic core F(1)	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						TATCTATGACGATATTGATGC	0.383													25	45					0	0	1	0	0		A	7844253	A	A	7844253	3	1	89	1	0	0	0	0	1	0	0	0	1150	1058	37	1	684	1	ATP5C1	10	7844253	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6159	7844253	127690494	3774	57605											
ATP5C1	509	broad.mit.edu	37	chr10	7844768	7844768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattcaaccgtacccgccaaGctgtcatcacaaaagagttg	13	8	7	13	2	3	1	3	0	0	1	3	1	3	1	3	0	3	3	3	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:7844768G>A	uc001iju.2	+	8	919	c.841G>A	c.(841-843)GCT>ACT	p.A281T	ATP5C1_uc009xiq.1_Missense_Mutation_p.A281T|ATP5C1_uc010qbc.1_Missense_Mutation_p.A232T|ATP5C1_uc001ijv.2_Missense_Mutation_p.A281T	NM_001001973	NP_001001973	P36542	ATPG_HUMAN	ATP synthase, H+ transporting, mitochondrial F1	281					oxidative phosphorylation|respiratory electron transport chain	mitochondrial matrix|mitochondrial proton-transporting ATP synthase complex, catalytic core F(1)	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						TACCCGCCAAGCTGTCATCAC	0.363													44	74					0	0	1	0	0		A	7844768	A	A	7844768	3	1	89	1	0	0	0	0	1	0	0	0	1150	971	34	2	871	2	ATP5C1	10	7844768	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	515	7844768	127689979	3775	57606											
TAF3	83860	broad.mit.edu	37	chr10	7866365	7866365	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgaactagaagactataTtcacaacattgagcctgtca	16	10	6	9	0	2	4	2	2	0	2	2	4	2	4	1	0	3	0	1	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:7866365T>C	uc010qbd.1	+	2	251	c.251T>C	c.(250-252)ATT>ACT	p.I84T		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	84					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						GAAGACTATATTCACAACATT	0.423													64	100					0	0	1	0	0		C	7866365	C	C	7866365	3	2	89	1	0	0	0	0	1	0	0	0	15550	1493	52	3	257	3	TAF3	10	7866365	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	21597	7866365	127668382	3776	57607											
GATA3	2625	broad.mit.edu	37	chr10	8115837	8115837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctcgtttaacccggccGccctctccagacacatgtcc	8	8	7	18	3	1	1	0	0	1	1	4	1	2	1	5	1	2	2	5	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:8115837G>A	uc001ika.2	+	6	1740	c.1183G>A	c.(1183-1185)GCC>ACC	p.A395T	GATA3_uc001ijz.2_Missense_Mutation_p.A396T	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	395					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding	p.A395fs*54(1)		breast(17)|ovary(3)|central_nervous_system(2)	22						TAACCCGGCCGCCCTCTCCAG	0.562			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						35	91					0	0	1	0	0		A	8115837	A	A	8115837	3	1	89	1	0	0	0	0	1	0	0	0	6270	1087	38	1	1204	1	GATA3	10	8115837	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	249472	8115837	127418910	3777	57608											
USP6NL	9712	broad.mit.edu	37	chr10	11504533	11504533	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatatggatatccagatggActggcatcttctgcggccgg	9	10	13	9	2	2	1	0	0	2	1	3	4	3	3	2	5	1	1	2	5	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:11504533A>G	uc001ikt.3	-	15	2715	c.2394T>C	c.(2392-2394)AGT>AGC	p.S798S	USP6NL_uc001iks.1_Silent_p.S815S	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	798						intracellular	Rab GTPase activator activity				0						ATCCAGATGGACTGGCATCTT	0.537													44	113					0	0	1	0	0		G	11504533	G	G	11504533	2	3	89	1	0	0	0	0	0	0	0	1	17113	272	10	3		3	USP6NL	10	11504533	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3388696	11504533	124030214	3778	57609											
CDC123	8872	broad.mit.edu	37	chr10	12280462	12280462	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctcctttacagttgtgtTcgatatatacagagacagta	11	16	7	7	1	1	1	0	0	1	1	3	3	1	1	1	0	2	3	1	0	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:12280462T>G	uc001ill.2	+	10	979	c.695T>G	c.(694-696)TTC>TGC	p.F232C	CDC123_uc001ilm.2_Missense_Mutation_p.F244C	NM_006023	NP_006014	O75794	CD123_HUMAN	cell division cycle 123	232					cell cycle arrest|cell division|positive regulation of cell proliferation|regulation of mitotic cell cycle	cytoplasm				central_nervous_system(1)	1						ACAGTTGTGTTCGATATATAC	0.303													13	24					0	0	1	0	0		G	12280462	G	G	12280462	3	3	89	1	0	0	0	0	1	0	0	0	3058	1783	62	5	733	5	CDC123	10	12280462	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	775929	12280462	123254285	3779	57610											
CCDC3	83643	broad.mit.edu	37	chr10	12940464	12940464	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccccgggcattgatgtgCggcagcgcgcccgccgccag	4	4	16	17	6	0	1	0	1	0	0	0	1	0	1	5	3	2	2	5	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:12940464C>T	uc001ilq.1	-	3	899	c.765G>A	c.(763-765)CCG>CCA	p.P255P	CCDC3_uc009xjb.1_RNA|CCDC3_uc001ilr.2_RNA|CCDC3_uc009xjc.1_RNA	NM_031455	NP_113643	Q9BQI4	CCDC3_HUMAN	coiled-coil domain containing 3 precursor	255						endoplasmic reticulum|extracellular region				ovary(1)	1		Ovarian(717;0.0822)	BRCA - Breast invasive adenocarcinoma(52;0.163)			CATTGATGTGCGGCAGCGCGC	0.672													14	43					0	0	1	0	0		T	12940464	T	T	12940464	2	4	89	1	0	0	0	0	0	0	0	1	2807	755	27	1		1	CCDC3	10	12940464	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	660002	12940464	122594283	3780	57611											
PHYH	5264	broad.mit.edu	37	chr10	13336491	13336491	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcctggaccttcgtgatCatcttctcacttggagcata	10	13	7	11	1	3	1	2	1	2	0	6	3	4	3	2	2	1	1	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:13336491C>A	uc001imf.2	-	4	439	c.351G>T	c.(349-351)ATG>ATT	p.M117I	PHYH_uc001ime.2_Missense_Mutation_p.M17I|PHYH_uc001img.2_Missense_Mutation_p.M98I	NM_006214	NP_006205	O14832	PAHX_HUMAN	phytanoyl-CoA 2-hydroxylase isoform a precursor	117					fatty acid alpha-oxidation|nervous system development	peroxisomal matrix	electron carrier activity|L-ascorbic acid binding|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|phytanoyl-CoA dioxygenase activity|protein binding				0		Ovarian(717;0.0448)			Antihemophilic Factor(DB00025)|Vitamin C(DB00126)	CCTTCGTGATCATCTTCTCAC	0.448													31	47					5.45727e-16	6.24559e-16	1	1	0		A	13336491	A	A	13336491	3	1	89	1	0	0	0	0	1	0	0	0	11883	826	29	5	689	5	PHYH	10	13336491	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	396027	13336491	122198256	3781	57612											
BEND7	222389	broad.mit.edu	37	chr10	13481494	13481494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtgcagggcccaccacaaGcacctgtggaatgaatgaat	13	6	11	11	0	0	2	0	2	0	0	0	3	0	3	3	2	2	2	3	2	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:13481494G>A	uc001imm.2	-	9	1382	c.1085C>T	c.(1084-1086)GCT>GTT	p.A362V	BEND7_uc001iml.2_RNA	NM_152751	NP_689964	Q8N7W2	BEND7_HUMAN	BEN domain containing 7 isoform 1	413							protein binding			ovary(1)|breast(1)	2						CCCACCACAAGCACCTGTGga	0.458													10	29					0	0	1	0	0		A	13481494	A	A	13481494	3	1	89	1	0	0	0	0	1	0	0	0	1404	971	34	2	325	2	BEND7	10	13481494	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	145003	13481494	122053253	3782	57613											
FRMD4A	55691	broad.mit.edu	37	chr10	13735997	13735997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtccccgtctcggtcaggtCgatggcgatctcactcaggc	5	9	12	15	5	4	0	3	0	2	0	8	2	5	0	2	4	0	0	2	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:13735997C>T	uc001ims.2	-	15	1370	c.1018G>A	c.(1018-1020)GAC>AAC	p.D340N	FRMD4A_uc009xjf.1_Missense_Mutation_p.D340N|FRMD4A_uc001imt.1_Missense_Mutation_p.D373N|FRMD4A_uc001imu.1_Missense_Mutation_p.D356N	NM_018027	NP_060497	Q9P2Q2	FRM4A_HUMAN	FERM domain containing 4A	340						cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3						TCGGTCAGGTCGATGGCGATC	0.577													25	50					0	0	1	0	0		T	13735997	T	T	13735997	3	4	89	1	0	0	0	0	1	0	0	0	6065	884	31	1	2141	1	FRMD4A	10	13735997	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	254503	13735997	121798750	3783	57614											
SUV39H2	79723	broad.mit.edu	37	chr10	14938972	14938972	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaagcataattatttatCtcaggtaaagaaaggcaaag	18	10	8	5	0	1	2	1	1	1	1	2	2	1	2	0	2	1	3	0	2	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:14938972C>A	uc001inh.2	+	2	181	c.125C>A	c.(124-126)TCT>TAT	p.S42Y	SUV39H2_uc001ing.2_Missense_Mutation_p.S102Y|SUV39H2_uc001ini.2_Missense_Mutation_p.S42Y|SUV39H2_uc001inj.2_Missense_Mutation_p.S42Y	NM_024670	NP_078946	Q9H5I1	SUV92_HUMAN	suppressor of variegation 3-9 homolog 2	102	Chromo.				cell cycle|cell differentiation|chromatin assembly or disassembly|chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin|chromosome, centromeric region|nucleus	histone methyltransferase activity (H3-K9 specific)|protein binding|zinc ion binding			breast(2)|ovary(1)	3						AATTATTTATCTCAGGTAAAG	0.368													30	59					3.73148e-12	4.12027e-12	1	1	0		A	14938972	A	A	14938972	3	1	89	1	0	0	0	0	1	0	0	0	15438	913	32	5	127	5	SUV39H2	10	14938972	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1202975	14938972	120595775	3784	57615											
DCLRE1C	64421	broad.mit.edu	37	chr10	14951273	14951273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaagtttccgggtatggaaCtttgtgccttaaaggtattg	11	14	11	5	1	0	0	0	0	0	0	1	1	1	1	2	3	2	3	2	3	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:14951273C>T	uc001inn.2	-	14	1298	c.1213G>A	c.(1213-1215)GTT>ATT	p.V405I	DCLRE1C_uc010qbx.1_Intron|DCLRE1C_uc001ink.2_Missense_Mutation_p.V58I|DCLRE1C_uc001inl.2_Missense_Mutation_p.V285I|DCLRE1C_uc009xji.2_Missense_Mutation_p.V290I|DCLRE1C_uc001inm.2_Missense_Mutation_p.V285I|DCLRE1C_uc001ino.2_Missense_Mutation_p.V290I|DCLRE1C_uc009xjh.2_RNA|DCLRE1C_uc001inp.2_Missense_Mutation_p.V285I|DCLRE1C_uc001inq.2_Missense_Mutation_p.V285I|DCLRE1C_uc001inr.2_Missense_Mutation_p.V290I	NM_001033855	NP_001029027	Q96SD1	DCR1C_HUMAN	artemis protein isoform a	405					DNA recombination	nucleus	5'-3' exonuclease activity|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)	1						GGGTATGGAACTTTGTGCCTT	0.443								Involved_in_tolerance_or_repair_of_DNA_crosslinks|NHEJ					21	43					0	0	1	0	0		T	14951273	T	T	14951273	3	4	89	1	0	0	0	0	1	0	0	0	4299	565	20	4	869	4	DCLRE1C	10	14951273	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12301	14951273	120583474	3785	57616											
ACBD7	414149	broad.mit.edu	37	chr10	15060107	15060107	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttgcaccaatctgaagTcccctgtgtacaagatagtt	10	12	7	12	0	1	2	0	1	1	1	3	2	3	2	4	0	2	3	4	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:15060107T>C	uc010qby.1	-	5	334	c.25A>G	c.(25-27)ACT>GCT	p.T9A				Q8N6N7	ACBD7_HUMAN	SubName: Full=cDNA FLJ52263, highly similar to Artemis protein (EC 3.1.-.-);	Error:Variant_position_missing_in_Q8N6N7_after_alignment							fatty-acyl-CoA binding				0						CAATCTGAAGTCCCCTGTGTA	0.388													48	89					0	0	1	0	0		C	15060107	C	C	15060107	3	2	89	1	0	0	0	0	1	0	0	0	127	1682	58	3		3	ACBD7	10	15060107	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	108834	15060107	120474640	3786	57617											
NMT2	9397	broad.mit.edu	37	chr10	15161473	15161473	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcgaactgatttgatatCttttggttccattggtctca	7	19	7	8	1	3	2	1	2	3	0	6	3	4	2	1	2	1	1	1	2	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:15161473C>A	uc001inz.1	-	9	1123	c.1039G>T	c.(1039-1041)GAT>TAT	p.D347Y	NMT2_uc001ioa.1_Missense_Mutation_p.D334Y|NMT2_uc009xjo.1_Missense_Mutation_p.D347Y|NMT2_uc010qbz.1_Missense_Mutation_p.D159Y	NM_004808	NP_004799	O60551	NMT2_HUMAN	N-myristoyltransferase 2	347					N-terminal protein myristoylation|protein lipoylation	Golgi apparatus|plasma membrane	glycylpeptide N-tetradecanoyltransferase activity			ovary(1)	1						GATTTGATATCTTTTGGTTCC	0.433													28	69					2.41591e-17	2.79654e-17	1	1	0		A	15161473	A	A	15161473	3	1	89	1	0	0	0	0	1	0	0	0	10523	913	32	5	473	5	NMT2	10	15161473	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	101366	15161473	120373274	3787	57618											
FAM171A1	221061	broad.mit.edu	37	chr10	15255460	15255460	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacctgccatccaaggagacGaaccacgcccgggggtgcgg	9	3	15	14	4	0	1	0	0	0	1	1	4	1	1	5	4	3	0	5	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:15255460G>A	uc001iob.2	-	8	2134	c.2127C>T	c.(2125-2127)TTC>TTT	p.F709F		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	709	Cytoplasmic (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						CCAAGGAGACGAACCACGCCC	0.557													31	94					0	0	1	0	0		A	15255460	A	A	15255460	2	1	89	1	0	0	0	0	0	0	0	1	5501	1049	37	1		1	FAM171A1	10	15255460	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	93987	15255460	120279287	3788	57619											
FAM171A1	221061	broad.mit.edu	37	chr10	15258059	15258059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccattcctcctaaaatggCcaaaagaaacaccgtgtgat	15	8	7	11	1	0	2	0	1	0	1	2	2	2	2	5	1	2	0	5	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:15258059C>T	uc001iob.2	-	7	929	c.922G>A	c.(922-924)GCC>ACC	p.A308T		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	308	Helical; (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						CCTAAAATGGCCAAAAGAAAC	0.363													18	34					0	0	1	0	0		T	15258059	T	T	15258059	3	4	89	1	0	0	0	0	1	0	0	0	5501	739	26	2	1758	2	FAM171A1	10	15258059	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2599	15258059	120276688	3789	57620											
ITGA8	8516	broad.mit.edu	37	chr10	15573138	15573138	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagggatgcaagagcataggGatcattttttctctgaaagt	12	12	11	6	0	2	2	1	1	1	1	3	4	2	4	0	2	2	2	0	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:15573138G>T	uc001ioc.1	-	28	2893	c.2893C>A	c.(2893-2895)CCC>ACC	p.P965T	ITGA8_uc010qcb.1_Missense_Mutation_p.P950T	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	965	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						AGAGCATAGGGATCATTTTTT	0.328													28	73					9.39395e-14	1.05303e-13	1	1	0		T	15573138	T	T	15573138	3	4	89	1	0	0	0	0	1	0	0	0	7898	1174	41	5	310	5	ITGA8	10	15573138	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	315079	15573138	119961609	3790	57621											
ITGA8	8516	broad.mit.edu	37	chr10	15600166	15600166	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagagtttcgcaaaaaggcGctgagctcaggggtgtcctc	9	9	14	9	2	1	2	1	1	0	1	4	2	2	2	1	3	1	5	1	3	3	2	rs142740699		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:15600166G>A	uc001ioc.1	-	26	2673	c.2673C>T	c.(2671-2673)AGC>AGT	p.S891S	ITGA8_uc010qcb.1_Silent_p.S876S	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	891	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						GCAAAAAGGCGCTGAGCTCAG	0.463													23	46					0	0	1	0	0		A	15600166	A	A	15600166	2	1	89	1	0	0	0	0	0	0	0	1	7898	1078	38	1		1	ITGA8	10	15600166	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	27028	15600166	119934581	3791	57622											
ITGA8	8516	broad.mit.edu	37	chr10	15628612	15628612	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccacctgcgctacagcagtGatgttgatttgcaggctcac	8	11	10	12	1	1	2	1	2	0	0	2	2	2	2	2	1	4	5	2	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:15628612G>A	uc001ioc.1	-	23	2343	c.2343C>T	c.(2341-2343)ATC>ATT	p.I781I	ITGA8_uc010qcb.1_Silent_p.I766I	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	781	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						CTACAGCAGTGATGTTGATTT	0.368													14	42					0	0	1	0	0		A	15628612	A	A	15628612	2	1	89	1	0	0	0	0	0	0	0	1	7898	1280	45	4		4	ITGA8	10	15628612	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	28446	15628612	119906135	3792	57623											
FAM188A	80013	broad.mit.edu	37	chr10	15821133	15821133	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caactgcagtcccttctacgTacatgacctgttgaacaaaa	13	10	6	12	1	1	2	0	2	1	0	2	2	2	2	2	0	5	3	2	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:15821133T>C	uc001iod.1	-	15	1417	c.1196A>G	c.(1195-1197)TAC>TGC	p.Y399C	FAM188A_uc001ioe.1_Missense_Mutation_p.Y226C	NM_024948	NP_079224	Q9H8M7	F188A_HUMAN	chromosome 10 open reading frame 97	399					apoptosis	nucleus	calcium ion binding			ovary(1)	1						CCCTTCTACGTACATGACCTG	0.403													21	37					0	0	1	0	0		C	15821133	C	C	15821133	3	2	89	1	0	0	0	0	1	0	0	0	5525	1638	57	3	145	3	FAM188A	10	15821133	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	192521	15821133	119713614	3793	57624											
PTER	9317	broad.mit.edu	37	chr10	16526545	16526545	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaagaacctatcgtgatGaaaaatttatattggattca	16	13	6	6	1	1	3	1	2	0	1	3	4	2	4	2	1	1	0	2	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:16526545G>T	uc001iog.1	+	3	369	c.162G>T	c.(160-162)ATG>ATT	p.M54I	PTER_uc001ioh.1_Missense_Mutation_p.M54I|PTER_uc001ioi.1_Missense_Mutation_p.M54I|PTER_uc009xjp.1_Missense_Mutation_p.M54I	NM_030664	NP_109589	Q96BW5	PTER_HUMAN	phosphotriesterase related	54					catabolic process		hydrolase activity, acting on ester bonds|zinc ion binding			ovary(2)	2						CTATCGTGATGAAAAATTTAT	0.423													36	50					1.06647e-15	1.21866e-15	1	1	0		T	16526545	T	T	16526545	3	4	89	1	0	0	0	0	1	0	0	0	12761	1290	45	5	164	5	PTER	10	16526545	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	705412	16526545	119008202	3794	57625											
PTER	9317	broad.mit.edu	37	chr10	16553255	16553255	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatggctaactttcaaataGgatggttgcttatgaattca	13	14	8	6	0	2	1	2	1	0	0	2	2	2	2	0	3	2	3	0	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:16553255G>A	uc001iog.1	+	6	1257	c.1050G>A	c.(1048-1050)TAG>TAA	p.*350*	PTER_uc001ioh.1_Silent_p.*350*|PTER_uc001ioi.1_Silent_p.*350*|PTER_uc009xjp.1_Silent_p.*303*	NM_030664	NP_109589	Q96BW5	PTER_HUMAN	phosphotriesterase related	350					catabolic process		hydrolase activity, acting on ester bonds|zinc ion binding			ovary(2)	2						CTTTCAAATAGGATGGTTGCT	0.373													35	75					0	0	1	0	0		A	16553255	A	A	16553255	2	1	89	1	0	0	0	0	0	0	0	1	12761	995	35	4		4	PTER	10	16553255	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	26710	16553255	118981492	3795	57626											
CUBN	8029	broad.mit.edu	37	chr10	16911750	16911750	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttggtgggcgcttggaaccGcagaatttgccaagaagggg	9	9	16	7	2	0	2	0	0	0	2	0	3	0	3	2	5	2	2	2	5	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:16911750G>A	uc001ioo.2	-	59	9391	c.9339C>T	c.(9337-9339)TGC>TGT	p.C3113C	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Silent_p.C469C	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3113	CUB 23.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GCTTGGAACCGCAGAATTTGC	0.478													45	80					0	0	1	0	0		A	16911750	A	A	16911750	2	1	89	1	0	0	0	0	0	0	0	1	4054	1079	38	1		1	CUBN	10	16911750	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	358495	16911750	118622997	3796	57627											
CUBN	8029	broad.mit.edu	37	chr10	17024530	17024530	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcaaagtcagtgaagttcaAgagaacacgatgatttctgt	15	11	9	6	1	4	3	3	2	1	1	4	5	4	3	0	0	1	1	0	0	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:17024530A>G	uc001ioo.2	-	31	4700	c.4648T>C	c.(4648-4650)TTG>CTG	p.L1550L		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1550	CUB 10.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GTGAAGTTCAAGAGAACACGA	0.418													29	54					0	0	1	0	0		G	17024530	G	G	17024530	2	3	89	1	0	0	0	0	0	0	0	1	4054	69	3	3		3	CUBN	10	17024530	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	112780	17024530	118510217	3797	57628											
CUBN	8029	broad.mit.edu	37	chr10	17145179	17145179	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacatcatgaacataaccaAcatccgggctcctgtagctg	13	9	7	12	1	1	1	1	1	0	0	3	1	3	1	3	1	5	3	3	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:17145179A>G	uc001ioo.2	-	13	1527	c.1475T>C	c.(1474-1476)GTT>GCT	p.V492A		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	492	CUB 1.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AACATAACCAACATCCGGGCT	0.388													30	33					0	0	1	0	0		G	17145179	G	G	17145179	3	3	89	1	0	0	0	0	1	0	0	0	4054	43	2	3	9616	3	CUBN	10	17145179	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	120649	17145179	118389568	3798	57629											
CUBN	8029	broad.mit.edu	37	chr10	17147483	17147483	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccatttagacaggggtgActtaggcaaatattactgag	12	12	11	6	0	0	3	0	2	0	1	1	3	1	3	1	3	1	1	1	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:17147483A>G	uc001ioo.2	-	11	1255	c.1203T>C	c.(1201-1203)AGT>AGC	p.S401S		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	401	EGF-like 6.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GACAGGGGTGACTTAGGCAAA	0.438													29	73					0	0	1	0	0		G	17147483	G	G	17147483	2	3	89	1	0	0	0	0	0	0	0	1	4054	272	10	3		3	CUBN	10	17147483	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2304	17147483	118387264	3799	57630											
TRDMT1	1787	broad.mit.edu	37	chr10	17201203	17201203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctttgcaataagaaaatatCgtagccttgaatttggaatg	14	13	9	5	1	0	2	0	1	0	1	1	3	0	3	1	1	2	3	1	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:17201203C>T	uc001iop.2	-	7	533	c.485G>A	c.(484-486)CGA>CAA	p.R162Q	TRDMT1_uc001ioq.2_Missense_Mutation_p.R138Q|TRDMT1_uc001ior.2_Missense_Mutation_p.R116Q|TRDMT1_uc001ios.2_Missense_Mutation_p.R91Q|TRDMT1_uc009xjt.2_Missense_Mutation_p.R81Q|TRDMT1_uc010qcc.1_Missense_Mutation_p.R91Q|TRDMT1_uc010qcd.1_Intron|TRDMT1_uc009xjs.1_Missense_Mutation_p.R79Q|TRDMT1_uc009xju.1_RNA	NM_004412	NP_004403	O14717	TRDMT_HUMAN	tRNA aspartic acid methyltransferase 1 isoform	162					tRNA processing	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|RNA binding			ovary(1)	1						AAGAAAATATCGTAGCCTTGA	0.353													39	75					0	0	1	0	0		T	17201203	T	T	17201203	3	4	89	1	0	0	0	0	1	0	0	0	16493	884	31	1	710	1	TRDMT1	10	17201203	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	53720	17201203	118333544	3800	57631											
VIM	7431	broad.mit.edu	37	chr10	17277206	17277206	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgcgtgaaatggaagaGaactttgccgttgaagctgc	12	9	13	7	2	0	4	0	2	0	2	0	6	0	5	1	1	5	2	1	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:17277206G>T	uc001iou.2	+	7	1460	c.1047G>T	c.(1045-1047)GAG>GAT	p.E349D	VIM_uc001iov.1_Missense_Mutation_p.E349D|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.E349D|VIM_uc001ioy.1_Intron|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.E307D|VIM_uc001ipc.1_Missense_Mutation_p.E349D	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	349	Rod.|Coil 2.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						AAATGGAAGAGAACTTTGCCG	0.483													24	69					5.35356e-11	5.83973e-11	1	1	0		T	17277206	T	T	17277206	3	4	89	1	0	0	0	0	1	0	0	0	17192	933	33	5	1069	5	VIM	10	17277206	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	76003	17277206	118257541	3801	57632											
ST8SIA6	338596	broad.mit.edu	37	chr10	17432535	17432535	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagagtagaacttaccctttCgttttgttagagaaagactc	13	13	8	7	1	0	4	0	0	0	4	2	5	0	4	1	0	2	3	1	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:17432535C>T	uc001ipd.2	-	3	285	c.285G>A	c.(283-285)ACG>ACA	p.T95T	ST8SIA6_uc010qce.1_RNA|uc001ipe.2_Intron|uc001ipf.1_Intron	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	95	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						CTTACCCTTTCGTTTTGTTAG	0.363													39	95					0	0	1	0	0		T	17432535	T	T	17432535	2	4	89	1	0	0	0	0	0	0	0	1	15261	871	31	1		1	ST8SIA6	10	17432535	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	155329	17432535	118102212	3802	57633											
MRC1	4360	broad.mit.edu	37	chr10	17891665	17891665	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcacagagatgagaaaaaAatccagagggatgctctgac	17	7	10	7	0	2	4	1	2	1	3	3	7	3	5	1	1	1	1	1	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:17891665A>C	uc001ipk.2	+	7	1249	c.1146A>C	c.(1144-1146)AAA>AAC	p.K382N		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	382	Extracellular (Potential).|C-type lectin 2.				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						ATGAGAAAAAAATCCAGAGGG	0.478													56	70					0	0	1	0	0		C	17891665	C	C	17891665	3	2	89	1	0	0	0	0	1	0	0	0	9774	11	1	5	1172	5	MRC1	10	17891665	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	459130	17891665	117643082	3803	57634											
MRC1	4360	broad.mit.edu	37	chr10	18138590	18138590	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcacagagatgagaaaaaAatccagagggatgctctgac	17	7	10	7	0	2	4	1	2	1	3	3	7	3	5	1	1	1	1	1	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:18138590A>C	uc001ipm.2	+	7	1249	c.1146A>C	c.(1144-1146)AAA>AAC	p.K382N		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	382	Extracellular (Potential).|C-type lectin 2.				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						ATGAGAAAAAAATCCAGAGGG	0.483													5	16					0	0	1	0	0		C	18138590	C	C	18138590	3	2	89	1	0	0	0	0	1	0	0	0	9774	11	1	5	5663	5	MRC1	10	18138590	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	246925	18138590	117396157	3804	57635											
SLC39A12	221074	broad.mit.edu	37	chr10	18280228	18280228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttgtatcaccaaatgAcaaggtatatttttaagttt	12	18	5	6	0	3	1	1	1	2	0	3	1	3	1	1	1	0	3	1	1	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:18280228A>G	uc001ipo.2	+	8	1691	c.1418A>G	c.(1417-1419)GAC>GGC	p.D473G	SLC39A12_uc001ipn.2_Missense_Mutation_p.D473G|SLC39A12_uc001ipp.2_Missense_Mutation_p.D473G|SLC39A12_uc010qck.1_Missense_Mutation_p.D339G	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	473	Extracellular (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						TCACCAAATGACAAGGTATAT	0.308													22	54					0	0	1	0	0		G	18280228	G	G	18280228	3	3	89	1	0	0	0	0	1	0	0	0	14640	275	10	3	1444	3	SLC39A12	10	18280228	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	141638	18280228	117254519	3805	57636											
NSUN6	221078	broad.mit.edu	37	chr10	18875000	18875000	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctactttgttgaagattTtatccagtgctataacttct	9	20	5	7	0	2	2	0	1	2	1	3	2	3	2	1	0	3	2	1	0	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:18875000T>G	uc010qcp.1	-	8	1218	c.800A>C	c.(799-801)AAA>ACA	p.K267T		NM_182543	NP_872349	Q8TEA1	NSUN6_HUMAN	NOL1/NOP2/Sun domain family, member 6	267							methyltransferase activity|RNA binding			ovary(2)	2						GTTGAAGATTTTATCCAGTGC	0.313													17	32					0	0	1	0	0		G	18875000	G	G	18875000	3	3	89	1	0	0	0	0	1	0	0	0	10701	1841	64	5	625	5	NSUN6	10	18875000	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	594772	18875000	116659747	3806	57637											
PLXDC2	84898	broad.mit.edu	37	chr10	20465940	20465940	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctagatgttcgaagaaGaacaatttatgaataccacc	15	13	6	7	1	1	4	0	1	1	3	2	5	1	4	2	0	2	1	2	0	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:20465940G>T	uc001iqg.1	+	8	1533	c.896G>T	c.(895-897)AGA>ATA	p.R299I	PLXDC2_uc001iqh.1_Missense_Mutation_p.R250I|PLXDC2_uc009xkc.1_RNA	NM_032812	NP_116201	Q6UX71	PXDC2_HUMAN	plexin domain containing 2 precursor	299	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4						GTTCGAAGAAGAACAATTTAT	0.318													33	77					6.04164e-23	7.22422e-23	1	1	0		T	20465940	T	T	20465940	3	4	89	1	0	0	0	0	1	0	0	0	12137	942	33	5	926	5	PLXDC2	10	20465940	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1590940	20465940	115068807	3807	57638											
NEBL	10529	broad.mit.edu	37	chr10	21098812	21098812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatggagccaggatctgtgCgccaaactttgaggtctttt	9	12	12	8	1	2	2	0	1	2	1	2	4	2	4	2	3	3	0	2	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:21098812C>T	uc001iqi.2	-	25	2931	c.2534G>A	c.(2533-2535)CGC>CAC	p.R845H	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	845	Linker.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						AGGATCTGTGCGCCAAACTTT	0.383													26	59					0	0	1	0	0		T	21098812	T	T	21098812	3	4	89	1	0	0	0	0	1	0	0	0	10322	768	27	1	526	1	NEBL	10	21098812	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	632872	21098812	114435935	3808	57639											
NEBL	10529	broad.mit.edu	37	chr10	21177096	21177096	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcatccgcttataaagaGaattagaaaggtcagcttta	14	11	9	7	1	1	2	1	0	0	2	2	3	2	2	1	2	1	3	1	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:21177096G>T	uc001iqi.2	-	4	696	c.299C>A	c.(298-300)TCT>TAT	p.S100Y	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	100	Nebulin 3.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						CTTATAAAGAGAATTAGAAAG	0.353													19	43					8.00594e-06	8.28612e-06	1	1	0		T	21177096	T	T	21177096	3	4	89	1	0	0	0	0	1	0	0	0	10322	942	33	5	2845	5	NEBL	10	21177096	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	78284	21177096	114357651	3809	57640											
MLLT10	8028	broad.mit.edu	37	chr10	21906051	21906051	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttttttagaaaaagagcaAacggggatctaataggtcat	15	12	9	5	1	3	2	1	0	2	2	3	3	3	3	0	3	2	1	0	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:21906051A>C	uc001iqs.2	+	8	962	c.614A>C	c.(613-615)AAA>ACA	p.K205T	MLLT10_uc001iqt.2_Missense_Mutation_p.K205T|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Missense_Mutation_p.K205T|MLLT10_uc001ira.2_5'UTR|MLLT10_uc001iqz.2_5'UTR	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	205	Self-association.|Interaction with FSTL3.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						AAAAAGAGCAAACGGGGATCT	0.254			T	MLL|PICALM|CDK6	AL								14	47					0	0	1	0	0		C	21906051	C	C	21906051	3	2	89	1	0	0	0	0	1	0	0	0	9644	14	1	5	640	5	MLLT10	10	21906051	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	728955	21906051	113628696	3810	57641											
DNAJC1	64215	broad.mit.edu	37	chr10	22171227	22171227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttacctgttttttctgtgttCggttcctgttttccaaccaa	5	20	6	10	1	1	0	0	0	1	0	4	0	3	0	4	1	2	4	4	1	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:22171227C>T	uc001irc.2	-	8	1249	c.962G>A	c.(961-963)CGA>CAA	p.R321Q	DNAJC1_uc001ird.2_Missense_Mutation_p.R207Q	NM_022365	NP_071760	Q96KC8	DNJC1_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 1	321	Cytoplasmic (By similarity).				negative regulation of proteolysis|regulation of protein secretion|regulation of transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	ATPase activator activity|DNA binding|heat shock protein binding|unfolded protein binding			lung(1)	1		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)				TTTCTGTGTTCGGTTCCTGTT	0.318													20	45					0	0	1	0	0		T	22171227	T	T	22171227	3	4	89	1	0	0	0	0	1	0	0	0	4634	884	31	1	722	1	DNAJC1	10	22171227	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	265176	22171227	113363520	3811	57642											
SPAG6	9576	broad.mit.edu	37	chr10	22680806	22680806	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactttgccagttctgctttCtttgtacatgtcaacagaaa	10	16	6	9	0	3	1	1	0	2	1	3	1	3	1	1	0	5	3	1	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:22680806C>A	uc001iri.2	+	8	1296	c.1154C>A	c.(1153-1155)TCT>TAT	p.S385Y	SPAG6_uc001irj.2_Missense_Mutation_p.S385Y|SPAG6_uc010qct.1_Missense_Mutation_p.S355Y|SPAG6_uc009xkh.2_Missense_Mutation_p.S363Y	NM_012443	NP_036575	O75602	SPAG6_HUMAN	sperm associated antigen 6 isoform 1	385	ARM 8.				cell projection organization|spermatid development	axoneme|cilium|cytoplasm|flagellum|microtubule	binding			breast(1)	1						GTTCTGCTTTCTTTGTACATG	0.398													13	30					0.0202918	0.020439	1	1	0		A	22680806	A	A	22680806	3	1	89	1	0	0	0	0	1	0	0	0	15007	913	32	5	1184	5	SPAG6	10	22680806	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	509579	22680806	112853941	3812	57643											
C10orf67	256815	broad.mit.edu	37	chr10	23611421	23611421	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctcaaacttcaactgaaGcaattgtttgaggaacccaa	14	10	7	10	0	2	2	2	2	0	0	3	3	3	3	2	1	4	2	2	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:23611421G>T	uc010qcx.1	-	3	442	c.376C>A	c.(376-378)CTT>ATT	p.L126I		NM_153714	NP_714925	Q8IYJ2	CJ067_HUMAN	hypothetical protein LOC256815	126											0						TTCAACTGAAGCAATTGTTTG	0.299													16	41					1.15088e-07	1.20949e-07	1	1	0		T	23611421	T	T	23611421	3	4	89	1	0	0	0	0	1	0	0	0	1615	971	34	5	193	5	C10orf67	10	23611421	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	930615	23611421	111923326	3813	57644											
KIAA1217	56243	broad.mit.edu	37	chr10	24832504	24832504	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgacaatgaggatccagtCgtgtgcctggacaagaaacc	13	7	11	10	1	0	3	0	2	0	1	2	5	1	5	3	2	2	0	3	2	3	0	rs113019857	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:24832504C>T	uc001iru.3	+	19	4708	c.4305C>T	c.(4303-4305)GTC>GTT	p.V1435V	KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron|KIAA1217_uc001irw.2_Intron|KIAA1217_uc001irz.2_Intron|KIAA1217_uc001irx.2_Silent_p.V1118V|KIAA1217_uc001iry.2_Intron|KIAA1217_uc001isa.1_Silent_p.V271V	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	1435					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						AGGATCCAGTCGTGTGCCTGG	0.453													33	53					0	0	1	0	0		T	24832504	T	T	24832504	2	4	89	1	0	0	0	0	0	0	0	1	8232	871	31	1		1	KIAA1217	10	24832504	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1221083	24832504	110702243	3814	57645											
ARHGAP21	57584	broad.mit.edu	37	chr10	24874037	24874037	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacactttagttaacgaaggTgcttctttctcattcttggc	9	16	7	9	1	3	0	1	0	3	0	4	1	3	0	0	2	3	2	0	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:24874037T>C	uc001isb.2	-	26	5668	c.5181A>G	c.(5179-5181)GCA>GCG	p.A1727A	ARHGAP21_uc010qdb.1_RNA	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	1726	Interaction with CTNNA1.				signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						TTAACGAAGGTGCTTCTTTCT	0.408													67	112					0	0	1	0	0		C	24874037	C	C	24874037	2	2	89	1	0	0	0	0	0	0	0	1	871	1683	59	3		3	ARHGAP21	10	24874037	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	41533	24874037	110660710	3815	57646											
THNSL1	79896	broad.mit.edu	37	chr10	25312156	25312156	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaaagtgaaaagagaatgCtccactttaaccgatgtcat	17	9	8	7	1	1	3	1	1	0	2	2	5	2	3	2	0	2	1	2	0	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:25312156C>T	uc001isi.3	+	3	333	c.4C>T	c.(4-6)CTC>TTC	p.L2F	ENKUR_uc001ish.1_Intron	NM_024838	NP_079114	Q8IYQ7	THNS1_HUMAN	threonine synthase-like 1	2					threonine biosynthetic process		ATP binding|pyridoxal phosphate binding|shikimate kinase activity|threonine synthase activity			pancreas(1)	1					L-Threonine(DB00156)|Pyridoxal Phosphate(DB00114)	AAAGAGAATGCTCCACTTTAA	0.328													13	39					0	0	1	0	0		T	25312156	T	T	25312156	3	4	89	1	0	0	0	0	1	0	0	0	15887	797	28	2	6	2	THNSL1	10	25312156	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	438119	25312156	110222591	3816	57647											
GPR158	57512	broad.mit.edu	37	chr10	25464659	25464659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaactgctccggccgctacGagttggcgggcctgccgggg	4	6	16	15	5	0	0	0	0	0	0	1	1	1	0	5	5	4	3	5	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:25464659G>A	uc001isj.2	+	1	370	c.310G>A	c.(310-312)GAG>AAG	p.E104K	LOC100128811_uc010qde.1_Missense_Mutation_p.S98L	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	104	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						CGGCCGCTACGAGTTGGCGGG	0.677													21	47					0	0	1	0	0		A	25464659	A	A	25464659	3	1	89	1	0	0	0	0	1	0	0	0	6678	1059	37	1	312	1	GPR158	10	25464659	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	152503	25464659	110070088	3817	57648											
GPR158	57512	broad.mit.edu	37	chr10	25509998	25509998	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggggtgtcatgaaagttgAcataaatcttcagaaagtgg	14	11	12	4	0	3	3	2	2	1	1	3	3	3	3	0	3	0	1	0	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:25509998A>G	uc001isj.2	+	2	980	c.920A>G	c.(919-921)GAC>GGC	p.D307G		NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	307	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						ATGAAAGTTGACATAAATCTT	0.333													20	45					0	0	1	0	0		G	25509998	G	G	25509998	3	3	89	1	0	0	0	0	1	0	0	0	6678	275	10	3	926	3	GPR158	10	25509998	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	45339	25509998	110024749	3818	57649											
GPR158	57512	broad.mit.edu	37	chr10	25861601	25861601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgaaggtgtttctttcacGaacggctcaacgaattccat	10	14	8	9	3	3	1	2	1	1	0	4	3	4	1	1	2	2	2	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:25861601G>A	uc001isj.2	+	7	1598	c.1538G>A	c.(1537-1539)CGA>CAA	p.R513Q		NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	513	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						TTTCTTTCACGAACGGCTCAA	0.383													39	84					0	0	1	0	0		A	25861601	A	A	25861601	3	1	89	1	0	0	0	0	1	0	0	0	6678	1058	37	1	1564	1	GPR158	10	25861601	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	351603	25861601	109673146	3819	57650											
MYO3A	53904	broad.mit.edu	37	chr10	26385323	26385323	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttccagtggagaaaaaaatTttcatattttttactacatt	14	18	4	5	0	1	1	1	0	0	1	2	2	2	1	1	1	2	0	1	1	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:26385323T>G	uc001isn.2	+	16	1936	c.1576T>G	c.(1576-1578)TTT>GTT	p.F526V	MYO3A_uc009xko.1_Missense_Mutation_p.F526V|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Missense_Mutation_p.F526V	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	526	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						AGAAAAAAATTTTCATATTTT	0.318													17	25					0	0	1	0	0		G	26385323	G	G	26385323	3	3	89	1	0	0	0	0	1	0	0	0	10094	1841	64	5	1630	5	MYO3A	10	26385323	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	523722	26385323	109149424	3820	57651											
MYO3A	53904	broad.mit.edu	37	chr10	26490219	26490219	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccaagaagaaaaacgaaGaccaaggaaagacaggtaat	23	3	9	6	1	0	4	0	0	0	4	1	6	1	5	2	2	1	1	2	2	9	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:26490219G>T	uc001isn.2	+	33	4931	c.4571G>T	c.(4570-4572)AGA>ATA	p.R1524I	MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1524					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GAAAAACGAAGACCAAGGAAA	0.249													5	13					2.7689e-08	2.93819e-08	1	1	0		T	26490219	T	T	26490219	3	4	89	1	0	0	0	0	1	0	0	0	10094	942	33	5	4693	5	MYO3A	10	26490219	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	104896	26490219	109044528	3821	57652											
ABI1	10006	broad.mit.edu	37	chr10	27066139	27066139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaaaataccaatctctcttCgtgccactttctccttatga	10	15	3	13	1	4	1	1	1	3	0	7	1	4	1	3	0	2	0	3	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:27066139C>T	uc001isx.2	-	3	484	c.317G>A	c.(316-318)CGA>CAA	p.R106Q	ABI1_uc001ite.2_Missense_Mutation_p.R106Q|ABI1_uc010qdh.1_Missense_Mutation_p.R106Q|ABI1_uc010qdi.1_Intron|ABI1_uc001isy.2_Missense_Mutation_p.R106Q|ABI1_uc001ita.2_Missense_Mutation_p.R106Q|ABI1_uc001isz.2_Missense_Mutation_p.R106Q|ABI1_uc001itb.2_Missense_Mutation_p.R123Q|ABI1_uc001itc.2_Missense_Mutation_p.R106Q|ABI1_uc010qdj.1_Missense_Mutation_p.R106Q|ABI1_uc001itd.2_Missense_Mutation_p.R106Q|ABI1_uc010qdk.1_Missense_Mutation_p.R106Q|ABI1_uc010qdg.1_5'UTR	NM_005470	NP_005461	Q8IZP0	ABI1_HUMAN	abl-interactor 1 isoform a	106	t-SNARE coiled-coil homology.				actin polymerization or depolymerization|cellular component movement|negative regulation of cell proliferation|peptidyl-tyrosine phosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	cell junction|cytoskeleton|cytosol|endoplasmic reticulum|filopodium|growth cone|lamellipodium|nucleus|soluble fraction|synapse|synaptosome	cytoskeletal protein binding			central_nervous_system(1)	1						AATCTCTCTTCGTGCCACTTT	0.323													12	29					0	0	1	0	0		T	27066139	T	T	27066139	3	4	89	1	0	0	0	0	1	0	0	0	88	884	31	1	1249	1	ABI1	10	27066139	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	575920	27066139	108468608	3822	57653											
ANKRD26	22852	broad.mit.edu	37	chr10	27323866	27323866	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttttgcacaatagcatgAaactggtcttggatattaat	13	15	8	5	0	1	1	0	1	1	0	1	2	1	2	0	2	3	3	0	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:27323866A>C	uc001ith.2	-	24	3682	c.3510T>G	c.(3508-3510)TTT>TTG	p.F1170L	ANKRD26_uc001itg.2_Missense_Mutation_p.F857L|ANKRD26_uc009xku.1_Missense_Mutation_p.F1171L	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1170	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						CAATAGCATGAAACTGGTCTT	0.363													56	128					0	0	1	0	0		C	27323866	C	C	27323866	3	2	89	1	0	0	0	0	1	0	0	0	654	243	9	5	1663	5	ANKRD26	10	27323866	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	257727	27323866	108210881	3823	57654											
ANKRD26	22852	broad.mit.edu	37	chr10	27335401	27335401	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagattctttcgaggtccgTttttctttttcagtgctctt	5	20	7	9	2	4	1	1	0	3	1	6	2	5	1	1	1	1	2	1	1	0	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:27335401T>C	uc001ith.2	-	18	2035	c.1863A>G	c.(1861-1863)AAA>AAG	p.K621K	ANKRD26_uc001itg.2_Silent_p.K308K|ANKRD26_uc009xku.1_Silent_p.K622K	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	621						centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TCGAGGTCCGTTTTTCTTTTT	0.378													19	43					0	0	1	0	0		C	27335401	C	C	27335401	2	2	89	1	0	0	0	0	0	0	0	1	654	1722	60	3		3	ANKRD26	10	27335401	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	11535	27335401	108199346	3824	57655											
ANKRD26	22852	broad.mit.edu	37	chr10	27356125	27356125	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacttcatcaacataagtcaAattgtcattatttgtttgct	12	17	4	8	0	4	0	4	0	0	0	4	0	4	0	0	0	2	2	0	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:27356125A>C	uc001ith.2	-	10	1340	c.1168T>G	c.(1168-1170)TTG>GTG	p.L390V	ANKRD26_uc001itg.2_Missense_Mutation_p.L109V|ANKRD26_uc009xku.1_Missense_Mutation_p.L390V	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	390						centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						ACATAAGTCAAATTGTCATTA	0.318													24	55					0	0	1	0	0		C	27356125	C	C	27356125	3	2	89	1	0	0	0	0	1	0	0	0	654	11	1	5	4064	5	ANKRD26	10	27356125	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	20724	27356125	108178622	3825	57656											
ANKRD26	22852	broad.mit.edu	37	chr10	27368089	27368089	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacccggtttgccagaaaGcctttagaacaaaaatatag	17	8	7	9	1	0	2	0	0	0	2	0	2	0	2	3	1	4	1	3	1	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:27368089G>T	uc001ith.2	-	7	914	c.742C>A	c.(742-744)CTT>ATT	p.L248I	ANKRD26_uc001itg.2_5'UTR|ANKRD26_uc009xku.1_Missense_Mutation_p.L248I	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	248						centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TTGCCAGAAAGCCTTTAGAAC	0.348													33	59					7.11191e-15	8.05931e-15	1	1	0		T	27368089	T	T	27368089	3	4	89	1	0	0	0	0	1	0	0	0	654	985	34	5	4502	5	ANKRD26	10	27368089	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11964	27368089	108166658	3826	57657											
YME1L1	10730	broad.mit.edu	37	chr10	27411786	27411786	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacccatccatttcagcaaGaagttgatttatggtctgcc	10	14	7	10	0	2	2	1	1	1	1	3	2	3	2	3	1	3	2	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:27411786G>T	uc001iti.2	-	12	1572	c.1390C>A	c.(1390-1392)CTT>ATT	p.L464I	YME1L1_uc001itj.2_Missense_Mutation_p.L407I|YME1L1_uc010qdl.1_Missense_Mutation_p.L374I|YME1L1_uc009xkv.2_Intron	NM_139312	NP_647473	Q96TA2	YMEL1_HUMAN	YME1-like 1 isoform 1	464					protein catabolic process|proteolysis	membrane|mitochondrion	ATP binding|metal ion binding|metalloendopeptidase activity|nucleoside-triphosphatase activity			ovary(1)	1						ATTTCAGCAAGAAGTTGATTT	0.343													27	52					3.28513e-13	3.66545e-13	1	1	0		T	27411786	T	T	27411786	3	4	89	1	0	0	0	0	1	0	0	0	17513	942	33	5	967	5	YME1L1	10	27411786	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	43697	27411786	108122961	3827	57658											
YME1L1	10730	broad.mit.edu	37	chr10	27411858	27411858	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcccaccaacagaatctaAttcatcaataaatataacac	18	10	1	12	0	3	1	2	0	1	1	4	1	4	1	2	0	2	0	2	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:27411858A>C	uc001iti.2	-	12	1500	c.1318T>G	c.(1318-1320)TTA>GTA	p.L440V	YME1L1_uc001itj.2_Missense_Mutation_p.L383V|YME1L1_uc010qdl.1_Missense_Mutation_p.L350V|YME1L1_uc009xkv.2_Intron	NM_139312	NP_647473	Q96TA2	YMEL1_HUMAN	YME1-like 1 isoform 1	440					protein catabolic process|proteolysis	membrane|mitochondrion	ATP binding|metal ion binding|metalloendopeptidase activity|nucleoside-triphosphatase activity			ovary(1)	1						ACAGAATCTAATTCATCAATA	0.353													7	91					0	0	1	0	0		C	27411858	C	C	27411858	3	2	89	1	0	0	0	0	1	0	0	0	17513	98	4	5	1039	5	YME1L1	10	27411858	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	72	27411858	108122889	3828	57659											
MASTL	84930	broad.mit.edu	37	chr10	27459259	27459259	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactccagtccttgtaaaaaAattatacagaataaaaaaac	21	9	4	7	0	0	1	0	0	0	1	2	2	2	1	2	0	2	1	2	0	11	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:27459259A>C	uc001itm.2	+	8	2010	c.1371A>C	c.(1369-1371)AAA>AAC	p.K457N	MASTL_uc001itl.2_Missense_Mutation_p.K457N|MASTL_uc009xkw.1_Missense_Mutation_p.K457N|MASTL_uc009xkx.1_RNA	NM_032844	NP_116233	Q96GX5	GWL_HUMAN	microtubule associated serine/threonine	457	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|mitosis|negative regulation of protein phosphatase type 2A activity|regulation of cell cycle|response to DNA damage stimulus	centrosome|cleavage furrow|nucleus	ATP binding|protein phosphatase 2A binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						CTTGTAAAAAAATTATACAGA	0.348													29	52					0	0	1	0	0		C	27459259	C	C	27459259	3	2	89	1	0	0	0	0	1	0	0	0	9346	11	1	5	1401	5	MASTL	10	27459259	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	47401	27459259	108075488	3829	57660											
PTCHD3	374308	broad.mit.edu	37	chr10	27687698	27687698	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactgcttatgatgtacaaaAcatatataaagactacaaaa	20	11	4	6	0	0	2	0	1	0	1	0	2	0	2	0	0	5	2	0	0	12	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:27687698A>G	uc001itu.2	-	4	1947	c.1829T>C	c.(1828-1830)GTT>GCT	p.V610A		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	610	Helical; (Potential).				spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GATGTACAAAACATATATAAA	0.368													30	51					0	0	1	0	0		G	27687698	G	G	27687698	3	3	89	1	0	0	0	0	1	0	0	0	12756	43	2	3	478	3	PTCHD3	10	27687698	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	228439	27687698	107847049	3830	57661											
PTCHD3	374308	broad.mit.edu	37	chr10	27702138	27702138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttaatgttggtaaattgatCgagcaaatgggtgagccact	12	12	11	6	1	0	2	0	2	0	0	1	3	0	2	1	2	2	3	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:27702138C>T	uc001itu.2	-	1	1160	c.1042G>A	c.(1042-1044)GAT>AAT	p.D348N		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	348					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GTAAATTGATCGAGCAAATGG	0.522													87	207					0	0	1	0	0		T	27702138	T	T	27702138	3	4	89	1	0	0	0	0	1	0	0	0	12756	884	31	1	1277	1	PTCHD3	10	27702138	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14440	27702138	107832609	3831	57662											
PTCHD3	374308	broad.mit.edu	37	chr10	27702944	27702944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtgcatcgtccagcatcGacggccgggggggtgcatcg	5	6	19	11	5	0	0	0	0	0	0	4	1	1	0	2	6	3	3	2	6	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:27702944G>A	uc001itu.2	-	1	354	c.236C>T	c.(235-237)TCG>TTG	p.S79L		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	79					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GTCCAGCATCGACGGCCGGGG	0.716													21	53					0	0	1	0	0		A	27702944	A	A	27702944	3	1	89	1	0	0	0	0	1	0	0	0	12756	1059	37	1	2083	1	PTCHD3	10	27702944	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	806	27702944	107831803	3832	57663											
MKX	283078	broad.mit.edu	37	chr10	28023641	28023641	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctttgatgaccgaattCtcacttttaatcacaggatg	10	13	7	11	2	2	2	2	2	1	0	3	4	2	3	2	1	0	1	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:28023641C>A	uc001ity.3	-	5	807	c.582G>T	c.(580-582)GAG>GAT	p.E194D	MKX_uc001itx.3_Missense_Mutation_p.E194D	NM_173576	NP_775847	Q8IYA7	MKX_HUMAN	mohawk homeobox	194					muscle organ development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGACCGAATTCTCACTTTTAA	0.488													30	66					5.45727e-16	6.24559e-16	1	1	0		A	28023641	A	A	28023641	3	1	89	1	0	0	0	0	1	0	0	0	9628	912	32	5	488	5	MKX	10	28023641	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	320697	28023641	107511106	3833	57664											
ARMC4	55130	broad.mit.edu	37	chr10	28196681	28196681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcagggaccacaacaaacGaactccatctaagcgatcaa	17	4	7	13	2	2	0	1	0	1	0	3	3	3	1	2	1	5	1	2	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:28196681G>A	uc009xky.2	-	17	2619	c.2521C>T	c.(2521-2523)CGT>TGT	p.R841C	ARMC4_uc010qds.1_Missense_Mutation_p.R366C|ARMC4_uc010qdt.1_Missense_Mutation_p.R533C|ARMC4_uc001itz.2_Missense_Mutation_p.R841C	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	841	ARM 6.						binding			ovary(4)|skin(2)	6						CACAACAAACGAACTCCATCT	0.423													15	51					0	0	1	0	0		A	28196681	A	A	28196681	3	1	89	1	0	0	0	0	1	0	0	0	954	1058	37	1	629	1	ARMC4	10	28196681	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	173040	28196681	107338066	3834	57665											
ARMC4	55130	broad.mit.edu	37	chr10	28274087	28274087	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttaatgcaattgagttttCtttcattgtattataatcag	12	20	5	4	0	3	1	2	1	1	0	3	1	3	1	0	0	1	3	0	0	5	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:28274087C>A	uc009xky.2	-	4	534	c.436G>T	c.(436-438)GAA>TAA	p.E146*	ARMC4_uc010qdt.1_5'Flank|ARMC4_uc001itz.2_Nonsense_Mutation_p.E146*	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	146							binding			ovary(4)|skin(2)	6						ATTGAGTTTTCTTTCATTGTA	0.323													9	18					1.76689e-08	1.87808e-08	1	1	0		A	28274087	A	A	28274087	4	1	89	1	0	0	0	0	0	1	0	0	954	922	32	5	2766	5	ARMC4	10	28274087	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	77406	28274087	107260660	3835	57666											
WAC	51322	broad.mit.edu	37	chr10	28900756	28900756	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctgatgcgtcatccccaAgatcatatgtttctccaaga	11	12	6	12	1	4	3	2	1	2	2	6	3	5	3	3	0	1	1	3	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:28900756A>C	uc001iuf.2	+	10	1427	c.1342A>C	c.(1342-1344)AGA>CGA	p.R448R	WAC_uc001iud.2_Silent_p.R403R|WAC_uc001iue.2_Silent_p.R138R|WAC_uc001iug.2_Silent_p.R345R|WAC_uc001iuh.2_Silent_p.R400R	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	448					cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						GTCATCCCCAAGATCATATGT	0.393													38	83					0	0	1	0	0		C	28900756	C	C	28900756	2	2	89	1	0	0	0	0	0	0	0	1	17273	64	3	5		5	WAC	10	28900756	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	626669	28900756	106633991	3836	57667											
WAC	51322	broad.mit.edu	37	chr10	28905110	28905110	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgttttctagtagccagaGaagtccatcacctggtccca	9	12	8	12	0	3	1	1	0	2	1	5	2	5	1	4	1	1	2	4	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:28905110G>T	uc001iuf.2	+	12	1650	c.1565G>T	c.(1564-1566)AGA>ATA	p.R522I	WAC_uc001iud.2_Missense_Mutation_p.R477I|WAC_uc001iue.2_Missense_Mutation_p.R212I|WAC_uc001iug.2_Missense_Mutation_p.R419I|WAC_uc001iuh.2_Missense_Mutation_p.R473I	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	522					cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						AGTAGCCAGAGAAGTCCATCA	0.363													38	92					9.14704e-12	1.00594e-11	1	1	0		T	28905110	T	T	28905110	3	4	89	1	0	0	0	0	1	0	0	0	17273	942	33	5	1611	5	WAC	10	28905110	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4354	28905110	106629637	3837	57668											
SVIL	6840	broad.mit.edu	37	chr10	29813568	29813568	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagtggaggaatcaggttCtccttgctcagcaagctctt	9	12	11	9	0	4	1	2	0	2	1	5	3	4	3	1	3	3	4	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:29813568C>A	uc001iut.1	-	14	3172	c.2419G>T	c.(2419-2421)GAA>TAA	p.E807*	SVIL_uc010qdw.1_5'Flank|SVIL_uc001iuu.1_Nonsense_Mutation_p.E381*	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	807					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				GAATCAGGTTCTCCTTGCTCA	0.458													54	109					1.86277e-20	2.20009e-20	1	1	0		A	29813568	A	A	29813568	4	1	89	1	0	0	0	0	0	1	0	0	15446	922	32	5	4325	5	SVIL	10	29813568	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	908458	29813568	105721179	3838	57669											
ZEB1	6935	broad.mit.edu	37	chr10	31809761	31809761	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaagaaaatccagtcgctAcaaacagttgtaaaagtgaa	21	7	7	6	1	0	2	0	1	0	1	2	2	1	2	1	0	2	3	1	0	9	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:31809761A>G	uc001ivs.3	+	7	1561	c.1498A>G	c.(1498-1500)ACA>GCA	p.T500A	ZEB1_uc001ivr.3_Missense_Mutation_p.T282A|ZEB1_uc010qee.1_Missense_Mutation_p.T282A|ZEB1_uc010qef.1_Missense_Mutation_p.T282A|ZEB1_uc009xlj.1_Missense_Mutation_p.T426A|ZEB1_uc010qeg.1_Missense_Mutation_p.T359A|ZEB1_uc009xlk.1_Missense_Mutation_p.T282A|ZEB1_uc001ivt.3_Missense_Mutation_p.T282A|ZEB1_uc001ivu.3_Missense_Mutation_p.T501A|ZEB1_uc001ivv.3_Missense_Mutation_p.T480A|ZEB1_uc010qeh.1_Missense_Mutation_p.T433A|ZEB1_uc009xlo.1_Missense_Mutation_p.T483A|ZEB1_uc009xlp.2_Missense_Mutation_p.T484A	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	500					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				TCCAGTCGCTACAAACAGTTG	0.373													34	77					0	0	1	0	0		G	31809761	G	G	31809761	3	3	89	1	0	0	0	0	1	0	0	0	17648	391	14	3	1538	3	ZEB1	10	31809761	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1996193	31809761	103724986	3839	57670											
KIF5B	3799	broad.mit.edu	37	chr10	32311856	32311856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctctcagtttgtgtgctttCtaactgcttgcaacgtttca	6	17	8	10	1	3	0	2	0	2	0	4	0	3	0	0	0	5	6	0	0	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:32311856C>T	uc001iwe.3	-	16	2304	c.1834G>A	c.(1834-1836)GAA>AAA	p.E612K		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	612					stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				TGTGTGCTTTCTAACTGCTTG	0.378													38	58					0	0	1	0	0		T	32311856	T	T	32311856	3	4	89	1	0	0	0	0	1	0	0	0	8322	922	32	4	1097	4	KIF5B	10	32311856	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	502095	32311856	103222891	3840	57671											
KIF5B	3799	broad.mit.edu	37	chr10	32327109	32327109	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acctttacatagggaactcgGtttttgtcttcatgaactga	10	15	8	8	1	2	2	1	2	1	0	3	3	2	3	1	2	3	1	1	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:32327109G>T	uc001iwe.3	-	6	950	c.480C>A	c.(478-480)AAC>AAA	p.N160K		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	160	Kinesin-motor.				stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				AGGGAACTCGGTTTTTGTCTT	0.259													15	52					4.7546e-09	5.08881e-09	1	1	0		T	32327109	T	T	32327109	3	4	89	1	0	0	0	0	1	0	0	0	8322	1252	44	5	2491	5	KIF5B	10	32327109	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	15253	32327109	103207638	3841	57672											
C10orf68	79741	broad.mit.edu	37	chr10	33000570	33000570	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgatgaagaatcaggtgaAaatcctatgcttaaacatca	17	10	7	7	0	2	4	2	3	0	1	3	4	3	4	1	1	2	1	1	1	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:33000570A>C	uc001iwn.3	+	7	875	c.402A>C	c.(400-402)GAA>GAC	p.E134D	C10orf68_uc001iwl.1_Missense_Mutation_p.E142D|C10orf68_uc001iwm.1_Missense_Mutation_p.E110D|C10orf68_uc010qei.1_Missense_Mutation_p.E61D	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	134										skin(2)|ovary(1)	3						AATCAGGTGAAAATCCTATGC	0.323													17	36					0	0	1	0	0		C	33000570	C	C	33000570	3	2	89	1	0	0	0	0	1	0	0	0	1616	11	1	5	420	5	C10orf68	10	33000570	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	673461	33000570	102534177	3842	57673											
C10orf68	79741	broad.mit.edu	37	chr10	33143334	33143334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcatttttttagggcattCgaaagttgttaccttaagcc	9	17	7	8	1	1	0	1	0	1	0	3	1	1	0	2	1	2	3	2	1	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:33143334C>T	uc001iwn.3	+	21	2230	c.1757C>T	c.(1756-1758)TCG>TTG	p.S586L	C10orf68_uc001iwl.1_Missense_Mutation_p.S545L|C10orf68_uc001iwm.1_Missense_Mutation_p.S590L|C10orf68_uc010qei.1_Missense_Mutation_p.S562L|C10orf68_uc001iwo.3_RNA	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	586										skin(2)|ovary(1)	3						TTAGGGCATTCGAAAGTTGTT	0.279													14	25					0	0	1	0	0		T	33143334	T	T	33143334	3	4	89	1	0	0	0	0	1	0	0	0	1616	893	31	1	1831	1	C10orf68	10	33143334	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	142764	33143334	102391413	3843	57674											
NRP1	8829	broad.mit.edu	37	chr10	33545355	33545355	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccgatgaggatcggattcGacctggtgttttctgtccac	6	12	12	11	3	1	1	0	1	1	0	4	5	2	3	3	3	0	1	3	3	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:33545355G>A	uc001iwx.3	-	5	1226	c.703C>T	c.(703-705)CGA>TGA	p.R235*	NRP1_uc001iwv.3_Nonsense_Mutation_p.R235*|NRP1_uc009xlz.2_Nonsense_Mutation_p.R235*|NRP1_uc001iww.3_Nonsense_Mutation_p.R54*|NRP1_uc001iwy.3_Nonsense_Mutation_p.R235*|NRP1_uc001iwz.2_Nonsense_Mutation_p.R235*|NRP1_uc001ixa.2_Nonsense_Mutation_p.R235*|NRP1_uc001ixb.1_Nonsense_Mutation_p.R235*|NRP1_uc001ixc.1_Nonsense_Mutation_p.R235*	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	235	Extracellular (Potential).|CUB 2.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	GATCGGATTCGACCTGGTGTT	0.488													35	80					0	0	1	0	0		A	33545355	A	A	33545355	4	1	89	1	0	0	0	0	0	1	0	0	10679	1066	37	1	2131	1	NRP1	10	33545355	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	402021	33545355	101989392	3844	57675											
CREM	1390	broad.mit.edu	37	chr10	35467886	35467886	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgattctcataaacgtagaGaaatcctttcacgaagaccc	14	11	6	10	2	2	3	2	1	1	2	4	5	3	3	2	0	1	1	2	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:35467886G>T	uc001iyb.2	+	4	400	c.238G>T	c.(238-240)GAA>TAA	p.E80*	CREM_uc001ixx.2_Nonsense_Mutation_p.E64*|CREM_uc001ixy.2_Intron|CREM_uc001ixz.2_Intron|CREM_uc001iya.2_Nonsense_Mutation_p.E80*|CREM_uc001iyc.2_Nonsense_Mutation_p.E64*|CREM_uc001iyd.2_Nonsense_Mutation_p.E80*|CREM_uc001iye.2_Nonsense_Mutation_p.E80*|CREM_uc001iyf.2_Nonsense_Mutation_p.E50*|CREM_uc001iyg.2_Nonsense_Mutation_p.E50*|CREM_uc001iyh.2_Nonsense_Mutation_p.E25*|CREM_uc001iyi.2_Nonsense_Mutation_p.E25*|CREM_uc001iyj.2_5'UTR|CREM_uc001iyk.2_5'UTR	NM_181571	NP_853549	Q03060	CREM_HUMAN	cAMP responsive element modulator isoform a	129	KID.				cell differentiation|multicellular organismal development|signal transduction|spermatogenesis	nucleus	cAMP response element binding protein binding|protein binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TAAACGTAGAGAAATCCTTTC	0.318													15	23					2.23348e-06	2.32221e-06	1	1	0		T	35467886	T	T	35467886	4	4	89	1	0	0	0	0	0	1	0	0	3871	943	33	5	337	5	CREM	10	35467886	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1922531	35467886	100066861	3845	57676											
CCNY	219771	broad.mit.edu	37	chr10	35842060	35842060	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgtgggatgaccaggcTgtatggaatgtggattactg	10	11	16	4	0	0	1	0	1	0	0	0	4	0	4	1	5	1	2	1	5	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:35842060T>C	uc001iyw.3	+	8	873	c.693T>C	c.(691-693)GCT>GCC	p.A231A	CCNY_uc001iyu.3_Silent_p.A177A|CCNY_uc001iyv.3_Silent_p.A177A|CCNY_uc001iyx.3_Silent_p.A177A|CCNY_uc009xmb.2_Silent_p.A206A|CCNY_uc010qet.1_Silent_p.A98A	NM_145012	NP_659449	Q8ND76	CCNY_HUMAN	cyclin Y isoform 1	231	Cyclin N-terminal.				cell division|G2/M transition of mitotic cell cycle|positive regulation of cyclin-dependent protein kinase activity|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	cyclin-dependent protein kinase regulator activity|protein kinase binding				0						ATGACCAGGCTGTATGGAATG	0.527													32	58					0	0	1	0	0		C	35842060	C	C	35842060	2	2	89	1	0	0	0	0	0	0	0	1	2939	1567	55	3		3	CCNY	10	35842060	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	374174	35842060	99692687	3846	57677											
ANKRD30A	91074	broad.mit.edu	37	chr10	37422915	37422915	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcttcagcaaaatgttgAcgtctttgctgcagatatat	10	15	8	8	1	3	2	1	1	2	1	3	2	3	2	0	0	3	5	0	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:37422915A>G	uc001iza.1	+	5	620	c.521A>G	c.(520-522)GAC>GGC	p.D174G		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	230	ANK 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						CAAAATGTTGACGTCTTTGCT	0.383													65	159					0	0	1	0	0		G	37422915	G	G	37422915	3	3	89	1	0	0	0	0	1	0	0	0	658	275	10	3	539	3	ANKRD30A	10	37422915	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1580855	37422915	98111832	3847	57678											
ANKRD30A	91074	broad.mit.edu	37	chr10	37454065	37454065	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacaaaaggactatgaagaAaattcttgggatactgaggt	18	9	10	4	0	1	3	0	2	1	1	1	5	1	5	0	3	2	0	0	3	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:37454065A>C	uc001iza.1	+	18	1977	c.1878A>C	c.(1876-1878)GAA>GAC	p.E626D		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	682						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						ACTATGAAGAAAATTCTTGGG	0.294													25	49					0	0	1	0	0		C	37454065	C	C	37454065	3	2	89	1	0	0	0	0	1	0	0	0	658	11	1	5	1948	5	ANKRD30A	10	37454065	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	31150	37454065	98080682	3848	57679											
ANKRD30A	91074	broad.mit.edu	37	chr10	37490200	37490200	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcacagaaggatgtgtgtgTacccaaggctacacatcaaa	14	9	9	9	0	2	1	2	0	0	1	2	2	2	2	1	2	2	2	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:37490200T>C	uc001iza.1	+	31	2747	c.2648T>C	c.(2647-2649)GTA>GCA	p.V883A		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	939						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GATGTGTGTGTACCCAAGGCT	0.303													32	73					0	0	1	0	0		C	37490200	C	C	37490200	3	2	89	1	0	0	0	0	1	0	0	0	658	1638	57	3	2770	3	ANKRD30A	10	37490200	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	36135	37490200	98044547	3849	57680											
ZNF248	57209	broad.mit.edu	37	chr10	38121547	38121547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgaaggttcttccacattCgttatatttacagactgtct	11	16	6	8	1	2	2	0	1	2	1	4	2	3	2	1	1	1	2	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:38121547C>T	uc001izd.1	-	6	1235	c.736G>A	c.(736-738)GAA>AAA	p.E246K	ZNF248_uc009xmc.2_Intron|ZNF248_uc001izb.2_Intron|ZNF248_uc001izc.2_Intron|ZNF248_uc010qeu.1_Missense_Mutation_p.E246K	NM_021045	NP_066383	Q8NDW4	ZN248_HUMAN	zinc finger protein 248	246	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTTCCACATTCGTTATATTTA	0.368													37	60					0	0	1	0	0		T	38121547	T	T	38121547	3	4	89	1	0	0	0	0	1	0	0	0	17818	893	31	1	1007	1	ZNF248	10	38121547	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	631347	38121547	97413200	3850	57681											
ZNF248	57209	broad.mit.edu	37	chr10	38121740	38121740	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctccaatagggattttCtcatgcctaatatcaaggag	11	14	7	9	0	3	0	2	0	2	0	6	2	4	2	2	2	1	0	2	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:38121740C>A	uc001izd.1	-	6	1042	c.543G>T	c.(541-543)GAG>GAT	p.E181D	ZNF248_uc009xmc.2_Intron|ZNF248_uc001izb.2_Intron|ZNF248_uc001izc.2_Intron|ZNF248_uc010qeu.1_Missense_Mutation_p.E181D	NM_021045	NP_066383	Q8NDW4	ZN248_HUMAN	zinc finger protein 248	181					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TAGGGATTTTCTCATGCCTAA	0.338													28	48					6.12954e-19	7.17843e-19	1	1	0		A	38121740	A	A	38121740	3	1	89	1	0	0	0	0	1	0	0	0	17818	912	32	5	1200	5	ZNF248	10	38121740	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	193	38121740	97413007	3851	57682											
BMS1	9790	broad.mit.edu	37	chr10	43316063	43316063	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accatcccactgtattatatCgaagaccacaatggaagaca	16	8	6	11	1	0	2	0	0	0	2	2	4	1	3	3	1	0	1	3	1	6	3	rs1044443		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:43316063C>T	uc001jaj.2	+	17	3235	c.2877C>T	c.(2875-2877)ATC>ATT	p.I959I		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	959					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						TGTATTATATCGAAGACCACA	0.423													24	62					0	0	1	0	0		T	43316063	T	T	43316063	2	4	89	1	0	0	0	0	0	0	0	1	1473	874	31	1		1	BMS1	10	43316063	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5194323	43316063	92218684	3852	57683											
RET	5979	broad.mit.edu	37	chr10	43608350	43608350	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcaccaagacctgcccCgacggccactgcgatgttgt	8	6	10	17	3	0	1	0	0	0	1	0	3	0	1	6	1	3	2	6	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:43608350C>T	uc001jal.2	+	9	1888	c.1698C>T	c.(1696-1698)CCC>CCT	p.P566P	RET_uc001jak.1_Silent_p.P566P|RET_uc010qez.1_Silent_p.P312P	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	566	Extracellular (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	AGACCTGCCCCGACGGCCACT	0.597		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				7	32					0	0	1	0	0		T	43608350	T	T	43608350	2	4	89	1	0	0	0	0	0	0	0	1	13260	639	23	1		1	RET	10	43608350	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	292287	43608350	91926397	3853	57684											
ZNF239	8187	broad.mit.edu	37	chr10	44052344	44052344	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttctctccagtgtggactCtgagatggatgcgaagatcc	8	11	12	10	1	2	2	0	1	2	2	5	6	4	4	2	2	1	1	2	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:44052344C>T	uc001jaw.3	-	2	1837	c.1184G>A	c.(1183-1185)AGA>AAA	p.R395K	ZNF239_uc001jax.3_Missense_Mutation_p.R395K|ZNF239_uc009xmj.2_Missense_Mutation_p.R395K|ZNF239_uc009xmk.2_Missense_Mutation_p.R395K	NM_005674	NP_005665	Q16600	ZN239_HUMAN	zinc finger protein 239	395	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|RNA binding|zinc ion binding				0						AGTGTGGACTCTGAGATGGAT	0.517													31	46					0	0	1	0	0		T	44052344	T	T	44052344	3	4	89	1	0	0	0	0	1	0	0	0	17816	913	32	4	196	4	ZNF239	10	44052344	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	443994	44052344	91482403	3854	57685											
ZNF239	8187	broad.mit.edu	37	chr10	44053445	44053445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctccccactgttgacaagggGaaatatctagttcaggctcc	10	10	9	12	0	2	1	1	1	1	0	4	2	4	2	3	3	0	3	3	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:44053445G>A	uc001jaw.3	-	2	736	c.83C>T	c.(82-84)TCC>TTC	p.S28F	ZNF239_uc001jax.3_Missense_Mutation_p.S28F|ZNF239_uc009xmj.2_Missense_Mutation_p.S28F|ZNF239_uc009xmk.2_Missense_Mutation_p.S28F	NM_005674	NP_005665	Q16600	ZN239_HUMAN	zinc finger protein 239	28					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|RNA binding|zinc ion binding				0						TTGACAAGGGGAAATATCTAG	0.443													31	66					0	0	1	0	0		A	44053445	A	A	44053445	3	1	89	1	0	0	0	0	1	0	0	0	17816	1174	41	4	1297	4	ZNF239	10	44053445	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1101	44053445	91481302	3855	57686											
ANUBL1	93550	broad.mit.edu	37	chr10	46121766	46121766	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgagaagaagaaggctgtAgcttcccaaactcaaaacat	17	7	8	9	0	1	3	1	1	0	3	2	4	2	3	1	1	3	3	1	1	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:46121766A>G	uc001jcp.3	-	7	1747	c.1505T>C	c.(1504-1506)CTA>CCA	p.L502P	ANUBL1_uc001jcl.3_Missense_Mutation_p.L22P|ANUBL1_uc001jcm.3_Missense_Mutation_p.L502P|ANUBL1_uc009xmu.2_Missense_Mutation_p.L428P|ANUBL1_uc001jcn.3_Missense_Mutation_p.L428P|ANUBL1_uc001jco.3_Intron	NM_001128324	NP_001121796	Q86XD8	ANUB1_HUMAN	AN1, ubiquitin-like, homolog	502							zinc ion binding				0						AGAAGGCTGTAGCTTCCCAAA	0.413													52	97					0	0	1	0	0		G	46121766	G	G	46121766	3	3	89	1	0	0	0	0	1	0	0	0	713	420	15	3	694	3	ANUBL1	10	46121766	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2068321	46121766	89412981	3856	57687											
GDF2	2658	broad.mit.edu	37	chr10	48414100	48414100	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgctgtggtcattggagaaGacaacaaagaagggcaggtt	13	8	14	6	0	1	3	1	0	0	3	1	4	1	3	0	4	2	3	0	4	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:48414100G>A	uc001jfa.1	-	2	931	c.768C>T	c.(766-768)GTC>GTT	p.V256V		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	256					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						CATTGGAGAAGACAACAAAGA	0.547													30	36					0	0	1	0	0		A	48414100	A	A	48414100	2	1	89	1	0	0	0	0	0	0	0	1	6329	929	33	4		4	GDF2	10	48414100	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2292334	48414100	87120647	3857	57688											
FRMPD2	143162	broad.mit.edu	37	chr10	49444554	49444554	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccggcagatgtagtgtcaTcggggcctctccagccaaca	8	8	11	14	2	2	1	1	0	1	1	5	1	3	1	4	3	2	2	4	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:49444554T>C	uc001jgi.2	-	9	1071	c.964A>G	c.(964-966)ATG>GTG	p.M322V	FRMPD2_uc001jgh.2_Missense_Mutation_p.M291V|FRMPD2_uc001jgj.2_Missense_Mutation_p.M300V	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	322					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		TGTAGTGTCATCGGGGCCTCT	0.557													25	62					0	0	1	0	0		C	49444554	C	C	49444554	3	2	89	1	0	0	0	0	1	0	0	0	6072	1435	50	3	3049	3	FRMPD2	10	49444554	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1030454	49444554	86090193	3858	57689											
SLC18A3	6572	broad.mit.edu	37	chr10	50819126	50819126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggctcagcccttcggcccCgctaccctacggagagcgaa	7	5	12	17	5	1	1	1	0	0	1	2	3	1	1	4	3	4	2	4	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:50819126C>T	uc001jhw.2	+	1	780	c.340C>T	c.(340-342)CGC>TGC	p.R114C	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	114	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CCTTCGGCCCCGCTACCCTAC	0.662													27	70					0	0	1	0	0		T	50819126	T	T	50819126	3	4	89	1	0	0	0	0	1	0	0	0	14452	652	23	1	342	1	SLC18A3	10	50819126	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1374572	50819126	84715621	3859	57690											
CHAT	1103	broad.mit.edu	37	chr10	50830170	50830170	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccagcctcatctctggtgtActcagctacaaggccctgct	7	10	9	15	0	3	0	2	0	1	0	4	0	3	0	3	2	5	3	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:50830170A>G	uc001jhz.2	+	5	879	c.726A>G	c.(724-726)GTA>GTG	p.V242V	CHAT_uc001jhv.1_Silent_p.V124V|CHAT_uc001jhx.1_Silent_p.V124V|CHAT_uc001jhy.1_Silent_p.V124V|CHAT_uc001jia.2_Silent_p.V124V|CHAT_uc010qgs.1_Silent_p.V124V	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	242					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	TCTCTGGTGTACTCAGCTACA	0.483													48	107					0	0	1	0	0		G	50830170	G	G	50830170	2	3	89	1	0	0	0	0	0	0	0	1	3316	378	14	3		3	CHAT	10	50830170	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	11044	50830170	84704577	3860	57691											
OGDHL	55753	broad.mit.edu	37	chr10	50953530	50953530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catctcattgtggccacgccGgcggtaacagacctgcagga	9	7	12	13	3	1	1	1	0	1	1	2	2	1	2	3	4	2	2	3	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:50953530G>A	uc001jie.2	-	12	1631	c.1489C>T	c.(1489-1491)CGG>TGG	p.R497W	OGDHL_uc009xog.2_Missense_Mutation_p.R524W|OGDHL_uc010qgt.1_Missense_Mutation_p.R440W|OGDHL_uc010qgu.1_Missense_Mutation_p.R288W|OGDHL_uc009xoh.2_Missense_Mutation_p.R288W	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	497					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						TGGCCACGCCGGCGGTAACAG	0.572													16	39					0	0	1	0	0		A	50953530	A	A	50953530	3	1	89	1	0	0	0	0	1	0	0	0	10859	1115	39	1	1591	1	OGDHL	10	50953530	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	123360	50953530	84581217	3861	57692											
MSMB	4477	broad.mit.edu	37	chr10	51562273	51562273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttttgtctcaatgacagtgTttctacacctgtgggttatg	7	17	10	7	0	2	1	1	1	2	0	3	1	2	1	1	1	1	3	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:51562273T>C	uc001jiq.2	+	4	250	c.218T>C	c.(217-219)GTT>GCT	p.V73A	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|MSMB_uc001jir.2_Missense_Mutation_p.F38L|NCOA4_uc009xon.2_5'Flank|NCOA4_uc010qhd.1_5'Flank|NCOA4_uc001jis.3_5'Flank|NCOA4_uc010qhe.1_5'Flank|NCOA4_uc010qhf.1_5'Flank	NM_002443	NP_002434	P08118	MSMB_HUMAN	beta-microseminoprotein isoform a precursor	73						extracellular space|nucleus				ovary(2)	2						AATGACAGTGTTTCTACACCT	0.498									Hereditary_Prostate_Cancer				95	187					0	0	1	0	0		C	51562273	C	C	51562273	3	2	89	1	0	0	0	0	1	0	0	0	9901	1725	60	3	232	3	MSMB	10	51562273	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	608743	51562273	83972474	3862	57693											
FAM21A	387680	broad.mit.edu	37	chr10	51829368	51829368	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggacccatgaaatcaagaAacaagtggacggactaattc	17	7	9	8	1	1	2	1	1	0	1	2	5	1	5	1	3	1	0	1	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:51829368A>C	uc001jjb.2	+	3	270	c.188A>C	c.(187-189)AAA>ACA	p.K63T	uc001jiz.1_5'Flank|FAM21A_uc001jja.1_5'UTR|FAM21A_uc010qhi.1_Missense_Mutation_p.K63T|FAM21A_uc010qhj.1_Missense_Mutation_p.K63T	NM_001005751	NP_001005751	Q641Q2	FA21A_HUMAN	hypothetical protein LOC387680	63					retrograde transport, endosome to Golgi	early endosome membrane|WASH complex				ovary(1)	1						GAAATCAAGAAACAAGTGGAC	0.378													53	110					0	0	1	0	0		C	51829368	C	C	51829368	3	2	89	1	0	0	0	0	1	0	0	0	5551	14	1	5	198	5	FAM21A	10	51829368	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	267095	51829368	83705379	3863	57694											
SGMS1	259230	broad.mit.edu	37	chr10	52103662	52103662	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcttgtgtgcttccaaatgGtgctccattttcagggtttc	5	18	9	9	0	2	0	1	0	1	0	5	0	4	0	2	2	2	3	2	2	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:52103662G>A	uc001jje.2	-	7	1167	c.213C>T	c.(211-213)CAC>CAT	p.H71H	SGMS1_uc010qhk.1_Intron|SGMS1_uc009xot.1_Intron|SGMS1_uc009xou.1_Silent_p.H71H|SGMS1_uc010qhl.1_RNA	NM_147156	NP_671512	Q86VZ5	SMS1_HUMAN	sphingomyelin synthase 1	77					apoptosis|cell growth|sphingomyelin biosynthetic process	endoplasmic reticulum|Golgi trans cisterna|integral to Golgi membrane|nucleus|plasma membrane	ceramide cholinephosphotransferase activity|kinase activity|sphingomyelin synthase activity			ovary(1)|kidney(1)	2						CTTCCAAATGGTGCTCCATTT	0.527													25	59					0	0	1	0	0		A	52103662	A	A	52103662	2	1	89	1	0	0	0	0	0	0	0	1	14239	1252	44	4		4	SGMS1	10	52103662	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	274294	52103662	83431085	3864	57695											
PRKG1	5592	broad.mit.edu	37	chr10	52912940	52912940	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataggtccaaggatcttataAaggaagctatccttgacaat	15	11	8	7	0	1	1	0	1	1	0	3	3	3	3	2	3	1	1	2	3	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:52912940A>C	uc001jjm.2	+	2	477	c.283A>C	c.(283-285)AAG>CAG	p.K95Q	PRKG1_uc001jjn.2_Missense_Mutation_p.K110Q|PRKG1_uc001jjo.2_Missense_Mutation_p.K110Q|PRKG1_uc010qhp.1_Missense_Mutation_p.K95Q	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	95	Dimerization.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		GGATCTTATAAAGGAAGCTAT	0.458													52	101					0	0	1	0	0		C	52912940	C	C	52912940	3	2	89	1	0	0	0	0	1	0	0	0	12544	15	1	5	604	5	PRKG1	10	52912940	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	809278	52912940	82621807	3865	57696											
CSTF2T	23283	broad.mit.edu	37	chr10	53458833	53458833	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattttgaagtaacatgttTcgagcttcctggtggctgtt	7	16	12	6	1	0	1	0	1	0	0	2	3	1	2	1	3	2	5	1	3	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:53458833T>G	uc001jjp.2	-	1	523	c.477A>C	c.(475-477)CGA>CGC	p.R159R	PRKG1_uc001jjm.2_Intron|PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron	NM_015235	NP_056050	Q9H0L4	CSTFT_HUMAN	cleavage stimulation factor, 3' pre-RNA, subunit	159					mRNA processing	nucleus	nucleotide binding|RNA binding			ovary(1)	1				COAD - Colon adenocarcinoma(2;0.00736)|Colorectal(2;0.00898)|all cancers(4;0.0188)|GBM - Glioblastoma multiforme(4;0.0778)|Epithelial(53;0.122)		GTAACATGTTTCGAGCTTCCT	0.468													72	146					0	0	1	0	0		G	53458833	G	G	53458833	2	3	89	1	0	0	0	0	0	0	0	1	3988	1770	62	5		5	CSTF2T	10	53458833	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	545893	53458833	82075914	3866	57697											
PCDH15	65217	broad.mit.edu	37	chr10	55566762	55566762	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgcaatatatatattgccGttgatattactgtggatact	11	17	8	5	1	0	1	0	1	0	0	0	2	0	2	1	1	4	2	1	1	8	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:55566762G>A	uc010qhq.1	-	36	5021	c.4626C>T	c.(4624-4626)AAC>AAT	p.N1542N	PCDH15_uc010qhr.1_Silent_p.N1537N	NM_001142771	NP_001136243	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD3-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ATATATTGCCGTTGATATTAC	0.478										HNSCC(58;0.16)			27	74					0	0	1	0	0		A	55566762	A	A	55566762	2	1	89	1	0	0	0	0	0	0	0	1	11530	1136	40	1		1	PCDH15	10	55566762	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2107929	55566762	79967985	3867	57698											
PCDH15	65217	broad.mit.edu	37	chr10	55569095	55569095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatcttcttcctcaaggcgtCtctgccactcttcaccctca	6	14	4	17	1	7	0	3	0	4	0	9	0	8	0	3	1	1	0	3	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:55569095C>T	uc010qhs.1	-	37	5125	c.4730G>A	c.(4729-4731)AGA>AAA	p.R1577K	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qht.1_Missense_Mutation_p.R1570K|PCDH15_uc010qhu.1_3'UTR	NM_001142769	NP_001136241	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CTCAAGGCGTCTCTGCCACTC	0.433										HNSCC(58;0.16)			32	51					0	0	1	0	0		T	55569095	T	T	55569095	3	4	89	1	0	0	0	0	1	0	0	0	11530	913	32	4	1201	4	PCDH15	10	55569095	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2333	55569095	79965652	3868	57699											
PCDH15	65217	broad.mit.edu	37	chr10	55569225	55569225	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctcagctgctggtggttTttcgatagttacaactactt	8	15	10	8	1	1	0	1	0	0	0	2	1	1	0	0	3	5	5	0	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:55569225T>G	uc010qhs.1	-	37	4995	c.4600A>C	c.(4600-4602)AAA>CAA	p.K1534Q	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qht.1_Missense_Mutation_p.K1527Q|PCDH15_uc010qhu.1_3'UTR	NM_001142769	NP_001136241	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GCTGGTGGTTTTTCGATAGTT	0.373										HNSCC(58;0.16)			77	140					0	0	1	0	0		G	55569225	G	G	55569225	3	3	89	1	0	0	0	0	1	0	0	0	11530	1850	64	5	1331	5	PCDH15	10	55569225	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	130	55569225	79965522	3869	57700											
PCDH15	65217	broad.mit.edu	37	chr10	55582450	55582450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgatttgagttccacagttCttgaaacagttggcaaagtg	11	13	10	7	0	1	3	0	3	1	0	2	3	2	3	1	1	1	4	1	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:55582450C>T	uc001jju.1	-	33	5431	c.5036G>A	c.(5035-5037)AGA>AAA	p.R1679K	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.R1676K|PCDH15_uc010qhw.1_Missense_Mutation_p.R1639K|PCDH15_uc010qhx.1_Missense_Mutation_p.R1610K|PCDH15_uc010qhy.1_Missense_Mutation_p.R1686K|PCDH15_uc010qhz.1_Missense_Mutation_p.R1681K|PCDH15_uc010qia.1_Missense_Mutation_p.R1659K|PCDH15_uc010qib.1_Missense_Mutation_p.R1656K	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1679	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TTCCACAGTTCTTGAAACAGT	0.418										HNSCC(58;0.16)			40	90					0	0	1	0	0		T	55582450	T	T	55582450	3	4	89	1	0	0	0	0	1	0	0	0	11530	913	32	4	2441	4	PCDH15	10	55582450	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13225	55582450	79952297	3870	57701											
PCDH15	65217	broad.mit.edu	37	chr10	55700682	55700682	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgattaatggcagcagcaGaaattacaccaaccatggtc	14	10	8	9	0	0	2	0	1	0	1	1	2	0	2	2	2	4	3	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:55700682G>T	uc001jju.1	-	24	3571	c.3176C>A	c.(3175-3177)TCT>TAT	p.S1059Y	PCDH15_uc010qhq.1_Missense_Mutation_p.S1064Y|PCDH15_uc010qhr.1_Missense_Mutation_p.S1059Y|PCDH15_uc010qhs.1_Missense_Mutation_p.S1071Y|PCDH15_uc010qht.1_Missense_Mutation_p.S1066Y|PCDH15_uc010qhu.1_Missense_Mutation_p.S1059Y|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.S1059Y|PCDH15_uc010qhw.1_Missense_Mutation_p.S1022Y|PCDH15_uc010qhx.1_Missense_Mutation_p.S988Y|PCDH15_uc010qhy.1_Missense_Mutation_p.S1064Y|PCDH15_uc010qhz.1_Missense_Mutation_p.S1059Y|PCDH15_uc010qia.1_Missense_Mutation_p.S1037Y|PCDH15_uc010qib.1_Missense_Mutation_p.S1037Y	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1059	Cadherin 10.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GGCAGCAGCAGAAATTACACC	0.368										HNSCC(58;0.16)			17	47					3.51602e-12	3.88498e-12	1	1	0		T	55700682	T	T	55700682	3	4	89	1	0	0	0	0	1	0	0	0	11530	942	33	5	4350	5	PCDH15	10	55700682	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	118232	55700682	79834065	3871	57702											
BICC1	80114	broad.mit.edu	37	chr10	60548181	60548181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatctgcccgagttagaattCgggtaactatttattacttt	11	16	7	7	2	1	1	0	0	1	1	2	2	1	1	1	1	3	2	1	1	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:60548181C>T	uc001jki.1	+	6	598	c.598C>T	c.(598-600)CGG>TGG	p.R200W		NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	200					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						AGTTAGAATTCGGGTAACTAT	0.303													12	38					0	0	1	0	0		T	60548181	T	T	60548181	3	4	89	1	0	0	0	0	1	0	0	0	1428	875	31	1	620	1	BICC1	10	60548181	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4847499	60548181	74986566	3872	57703											
PHYHIPL	84457	broad.mit.edu	37	chr10	61005148	61005148	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaattctaaggataataaaTttttgacctgtacagaagaa	18	13	6	4	0	1	3	0	1	1	2	1	4	1	4	1	1	1	1	1	1	9	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:61005148T>G	uc001jkk.3	+	5	1194	c.928T>G	c.(928-930)TTT>GTT	p.F310V	PHYHIPL_uc001jkl.3_Missense_Mutation_p.F264V|PHYHIPL_uc001jkm.3_Missense_Mutation_p.F284V	NM_032439	NP_115815	Q96FC7	PHIPL_HUMAN	phytanoyl-CoA 2-hydroxylase interacting	310											0						GGATAATAAATTTTTGACCTG	0.413													36	62					0	0	1	0	0		G	61005148	G	G	61005148	3	3	89	1	0	0	0	0	1	0	0	0	11886	1493	52	5	978	5	PHYHIPL	10	61005148	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	456967	61005148	74529599	3873	57704											
PHYHIPL	84457	broad.mit.edu	37	chr10	61005308	61005308	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctactgcaaatgcaaagaAagatcccagctgcaaaacct	16	7	7	11	0	1	2	0	0	1	2	2	2	2	2	2	0	6	4	2	0	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:61005308A>C	uc001jkk.3	+	5	1354	c.1088A>C	c.(1087-1089)AAA>ACA	p.K363T	PHYHIPL_uc001jkl.3_Missense_Mutation_p.K317T|PHYHIPL_uc001jkm.3_Missense_Mutation_p.K337T	NM_032439	NP_115815	Q96FC7	PHIPL_HUMAN	phytanoyl-CoA 2-hydroxylase interacting	363											0						AATGCAAAGAAAGATCCCAGC	0.448													35	83					0	0	1	0	0		C	61005308	C	C	61005308	3	2	89	1	0	0	0	0	1	0	0	0	11886	14	1	5	1138	5	PHYHIPL	10	61005308	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	160	61005308	74529439	3874	57705											
FAM13C	220965	broad.mit.edu	37	chr10	61011369	61011369	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaactgttcttcaaattCtcttaaggctttccgcagtc	12	14	5	10	1	3	0	1	0	2	0	6	0	4	0	1	1	1	3	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:61011369C>A	uc001jkn.2	-	14	1734	c.1600G>T	c.(1600-1602)GAA>TAA	p.E534*	FAM13C_uc001jko.2_Nonsense_Mutation_p.E436*|FAM13C_uc010qid.1_Nonsense_Mutation_p.E450*|FAM13C_uc010qie.1_Nonsense_Mutation_p.E451*|FAM13C_uc010qif.1_Nonsense_Mutation_p.E556*	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	534										ovary(2)	2						TCTTCAAATTCTCTTAAGGCT	0.388													54	143					2.82306e-37	3.49133e-37	1	1	0		A	61011369	A	A	61011369	4	1	89	1	0	0	0	0	0	1	0	0	5465	922	32	5	165	5	FAM13C	10	61011369	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6061	61011369	74523378	3875	57706											
FAM13C	220965	broad.mit.edu	37	chr10	61062583	61062583	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttaagtcctgccgagttTcaaaagcatcctttggcgaa	11	12	8	10	2	1	0	1	0	0	0	3	2	3	0	3	1	2	2	3	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:61062583T>G	uc001jkn.2	-	6	619	c.485A>C	c.(484-486)GAA>GCA	p.E162A	FAM13C_uc001jko.2_Missense_Mutation_p.E162A|FAM13C_uc010qid.1_Missense_Mutation_p.E79A|FAM13C_uc010qie.1_Missense_Mutation_p.E79A|FAM13C_uc010qif.1_Missense_Mutation_p.E184A|FAM13C_uc001jkp.2_Missense_Mutation_p.E79A	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	162										ovary(2)	2						CTGCCGAGTTTCAAAAGCATC	0.343													33	72					0	0	1	0	0		G	61062583	G	G	61062583	3	3	89	1	0	0	0	0	1	0	0	0	5465	1783	62	5	1312	5	FAM13C	10	61062583	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	51214	61062583	74472164	3876	57707											
CCDC6	8030	broad.mit.edu	37	chr10	61554295	61554295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gggaattgtaataagacattCcagctctagtcagtgaagtt	13	12	10	6	0	2	2	1	1	1	1	3	3	3	3	1	1	1	3	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:61554295C>T	uc001jks.3	-	8	1802	c.1166G>A	c.(1165-1167)GGA>GAA	p.G389E		NM_005436	NP_005427	Q16204	CCDC6_HUMAN	coiled-coil domain containing 6	389						cytoplasm|cytoskeleton	SH3 domain binding|structural constituent of cytoskeleton			ovary(3)|breast(1)	4				Kidney(211;0.0597)		ATAAGACATTCCAGCTCTAGT	0.433													32	65					0	0	1	0	0		T	61554295	T	T	61554295	3	4	89	1	0	0	0	0	1	0	0	0	2833	855	30	4	266	4	CCDC6	10	61554295	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	491712	61554295	73980452	3877	57708											
ANK3	288	broad.mit.edu	37	chr10	61831943	61831943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcgttctctctcagtcacaGacataaattcattcttttga	10	16	5	10	1	5	2	3	1	3	1	7	2	5	2	0	0	1	1	0	0	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:61831943G>A	uc001jky.2	-	37	8888	c.8696C>T	c.(8695-8697)TCT>TTT	p.S2899F	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2899					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CTCAGTCACAGACATAAATTC	0.353													22	57					0	0	1	0	0		A	61831943	A	A	61831943	3	1	89	1	0	0	0	0	1	0	0	0	622	942	33	4	4778	4	ANK3	10	61831943	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	277648	61831943	73702804	3878	57709											
ANK3	288	broad.mit.edu	37	chr10	61832027	61832027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcatgaacaagtacatgcGaaagtttttctttctgagac	13	13	7	8	1	3	2	1	2	2	1	3	4	3	2	0	0	3	2	0	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:61832027G>A	uc001jky.2	-	37	8804	c.8612C>T	c.(8611-8613)TCG>TTG	p.S2871L	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2871					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						AAGTACATGCGAAAGTTTTTC	0.398													43	65					0	0	1	0	0		A	61832027	A	A	61832027	3	1	89	1	0	0	0	0	1	0	0	0	622	1059	37	1	4862	1	ANK3	10	61832027	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	84	61832027	73702720	3879	57710											
ANK3	288	broad.mit.edu	37	chr10	61844546	61844546	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgtacagttgcgtggctaaCcccacagtttctaaaacttg	10	12	8	11	1	1	0	0	0	1	0	1	0	1	0	2	1	4	4	2	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:61844546C>T	uc001jky.2	-	32	4080	c.3888G>A	c.(3886-3888)GGG>GGA	p.G1296G	ANK3_uc001jkw.2_Silent_p.G430G|ANK3_uc009xpa.2_Silent_p.G430G|ANK3_uc001jkx.2_Silent_p.G474G|ANK3_uc010qih.1_Silent_p.G1297G|ANK3_uc001jkz.3_Silent_p.G1290G|ANK3_uc001jla.1_Silent_p.G362G|ANK3_uc001jlb.1_Silent_p.G814G|ANK3_uc001jkv.2_5'Flank	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1296					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GCGTGGCTAACCCCACAGTTT	0.373													25	69					0	0	1	0	0		T	61844546	T	T	61844546	2	4	89	1	0	0	0	0	0	0	0	1	622	494	18	4		4	ANK3	10	61844546	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12519	61844546	73690201	3880	57711											
JMJD1C	221037	broad.mit.edu	37	chr10	64973807	64973807	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaactgtaaaatgctcatttTtatcaatgataagaggactc	16	13	6	6	0	2	2	2	1	0	1	3	3	2	3	0	1	2	2	0	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:64973807T>G	uc001jmn.2	-	8	2420	c.2120A>C	c.(2119-2121)AAA>ACA	p.K707T	JMJD1C_uc001jml.2_Missense_Mutation_p.K488T|JMJD1C_uc001jmm.2_Missense_Mutation_p.K419T|JMJD1C_uc010qiq.1_Missense_Mutation_p.K525T|JMJD1C_uc009xpi.2_Missense_Mutation_p.K525T|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmp.1_Missense_Mutation_p.K419T	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	707					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					ATGCTCATTTTTATCAATGAT	0.368													43	61					0	0	1	0	0		G	64973807	G	G	64973807	3	3	89	1	0	0	0	0	1	0	0	0	7966	1841	64	5	5578	5	JMJD1C	10	64973807	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3129261	64973807	70560940	3881	57712											
SIRT1	23411	broad.mit.edu	37	chr10	69648688	69648688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatgattggcacagatcctcGaacaattcttaaagatttat	14	14	6	7	1	1	3	0	1	1	2	3	4	2	3	1	1	1	1	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:69648688G>A	uc001jnd.2	+	3	649	c.596G>A	c.(595-597)CGA>CAA	p.R199Q	SIRT1_uc010qis.1_Intron|SIRT1_uc009xpp.2_Missense_Mutation_p.R7Q|SIRT1_uc001jne.2_5'Flank	NM_012238	NP_036370	Q96EB6	SIRT1_HUMAN	sirtuin 1 isoform a	199	Interaction with HIST1H1E.				apoptosis|cell aging|cellular response to hydrogen peroxide|cellular response to starvation|chromatin silencing at rDNA|DNA repair|DNA replication|establishment of chromatin silencing|histone H3 deacetylation|interspecies interaction between organisms|maintenance of chromatin silencing|muscle organ development|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of fat cell differentiation|negative regulation of helicase activity|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine acetylation|peptidyl-lysine deacetylation|positive regulation of anti-apoptosis|positive regulation of chromatin silencing|positive regulation of DNA repair|regulation of apoptosis|regulation of cell proliferation|regulation of endodeoxyribonuclease activity|regulation of protein import into nucleus, translocation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|rRNA processing|transcription, DNA-dependent|triglyceride mobilization|white fat cell differentiation	chromatin silencing complex|cytoplasm|nuclear euchromatin|nuclear heterochromatin|nuclear inner membrane|nucleolus|PML body|rDNA heterochromatin	bHLH transcription factor binding|histone binding|HLH domain binding|identical protein binding|mitogen-activated protein kinase binding|NAD+ binding|NAD-dependent histone deacetylase activity (H3-K9 specific)|p53 binding|protein C-terminus binding|transcription corepressor activity|zinc ion binding				0						ACAGATCCTCGAACAATTCTT	0.368													29	78					0	0	1	0	0		A	69648688	A	A	69648688	3	1	89	1	0	0	0	0	1	0	0	0	14362	1058	37	1	606	1	SIRT1	10	69648688	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4674881	69648688	65886059	3882	57713											
HERC4	26091	broad.mit.edu	37	chr10	69700806	69700806	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccacaatggtacaattataAattgctaagccacagataac	17	10	5	9	0	0	1	0	0	0	1	1	1	1	1	2	1	4	2	2	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:69700806A>C	uc001jng.3	-	21	2729	c.2418T>G	c.(2416-2418)ATT>ATG	p.I806M	HERC4_uc009xpq.2_Missense_Mutation_p.I339M|HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Missense_Mutation_p.I798M|HERC4_uc009xpr.2_Intron|HERC4_uc001jni.3_Missense_Mutation_p.I542M	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	806	HECT.				cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						TACAATTATAAATTGCTAAGC	0.328													33	75					0	0	1	0	0		C	69700806	C	C	69700806	3	2	89	1	0	0	0	0	1	0	0	0	7076	10	1	5	779	5	HERC4	10	69700806	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	52118	69700806	65833941	3883	57714											
HERC4	26091	broad.mit.edu	37	chr10	69793738	69793738	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccattttcatcattaagAcctagctgaccaaacttgtt	12	14	4	11	0	2	2	2	1	0	1	2	2	2	2	3	0	3	2	3	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:69793738A>G	uc001jng.3	-	6	980	c.669T>C	c.(667-669)GGT>GGC	p.G223G	HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Silent_p.G223G|HERC4_uc009xpr.2_Silent_p.G223G|HERC4_uc001jni.3_5'UTR|HERC4_uc001jnj.2_Silent_p.G223G	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	223	RCC1 5.				cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						CATCATTAAGACCTAGCTGAC	0.403													27	43					0	0	1	0	0		G	69793738	G	G	69793738	2	3	89	1	0	0	0	0	0	0	0	1	7076	262	10	3		3	HERC4	10	69793738	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	92932	69793738	65741009	3884	57715											
MYPN	84665	broad.mit.edu	37	chr10	69905258	69905258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcttctgactcagaaggcGaccctaacaaggaagagatg	13	8	10	10	1	3	3	1	1	2	2	3	6	3	4	1	2	1	0	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:69905258G>A	uc001jnm.3	+	5	1290	c.1105G>A	c.(1105-1107)GAC>AAC	p.D369N	MYPN_uc001jnl.1_Missense_Mutation_p.D369N|MYPN_uc001jnn.3_Missense_Mutation_p.D94N|MYPN_uc001jno.3_Missense_Mutation_p.D369N|MYPN_uc001jnp.1_Missense_Mutation_p.D369N|MYPN_uc009xps.2_Missense_Mutation_p.D369N|MYPN_uc009xpt.2_Missense_Mutation_p.D369N|MYPN_uc010qit.1_Missense_Mutation_p.D75N|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	369	Interaction with CARP.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						CTCAGAAGGCGACCCTAACAA	0.343													33	64					0	0	1	0	0		A	69905258	A	A	69905258	3	1	89	1	0	0	0	0	1	0	0	0	10116	1058	37	1	1115	1	MYPN	10	69905258	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	111520	69905258	65629489	3885	57716											
MYPN	84665	broad.mit.edu	37	chr10	69948801	69948801	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtattgctcccatctttgAcaagagactcaagcacttcc	10	12	7	12	0	2	2	1	1	1	1	4	3	4	2	2	0	2	3	2	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:69948801A>G	uc001jnm.3	+	14	3028	c.2843A>G	c.(2842-2844)GAC>GGC	p.D948G	MYPN_uc001jnn.3_Missense_Mutation_p.D673G|MYPN_uc001jno.3_Missense_Mutation_p.D948G|MYPN_uc009xpt.2_Missense_Mutation_p.D948G|MYPN_uc010qit.1_Missense_Mutation_p.D654G|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	948	Ig-like 3.|Interaction with ACTN.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						CCCATCTTTGACAAGAGACTC	0.453													24	56					0	0	1	0	0		G	69948801	G	G	69948801	3	3	89	1	0	0	0	0	1	0	0	0	10116	275	10	3	2889	3	MYPN	10	69948801	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	43543	69948801	65585946	3886	57717											
HNRNPH3	3189	broad.mit.edu	37	chr10	70099299	70099299	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttttcgtgcaactgaaaAtgacattgctaatgtgagta	12	13	9	7	1	0	3	0	3	0	0	1	3	0	3	1	0	3	3	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:70099299A>C	uc001jnw.3	+	6	855	c.626A>C	c.(625-627)AAT>ACT	p.N209T	HNRNPH3_uc001jnx.3_Missense_Mutation_p.N194T|HNRNPH3_uc009xpu.2_Missense_Mutation_p.N78T|HNRNPH3_uc010qiv.1_Missense_Mutation_p.N101T|HNRNPH3_uc001jny.3_Missense_Mutation_p.N160T	NM_012207	NP_036339	P31942	HNRH3_HUMAN	heterogeneous nuclear ribonucleoprotein H3	209	Gly-rich.|RRM 2.				nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|protein binding|RNA binding			ovary(2)	2						GCAACTGAAAATGACATTGCT	0.368													15	34					0	0	1	0	0		C	70099299	C	C	70099299	3	2	89	1	0	0	0	0	1	0	0	0	7284	101	4	5	644	5	HNRNPH3	10	70099299	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	150498	70099299	65435448	3887	57718											
DNA2	1763	broad.mit.edu	37	chr10	70182635	70182635	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttattcccatacatgttgTtgcaactataagctaaaaac	14	14	5	8	0	0	0	0	0	0	0	1	0	1	0	1	0	5	5	1	0	8	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:70182635T>G	uc001jof.2	-	15	2479	c.2479A>C	c.(2479-2481)ACA>CCA	p.T827P	DNA2_uc001jog.1_Intron|DNA2_uc001joh.1_RNA	NM_001080449	NP_001073918	P51530	DNA2L_HUMAN	DNA replication helicase 2 homolog	741					base-excision repair|DNA replication, removal of RNA primer|mitochondrial DNA repair|mitochondrial DNA replication|positive regulation of DNA replication|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	mitochondrial nucleoid|nucleoplasm	5'-flap endonuclease activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|site-specific endodeoxyribonuclease activity, specific for altered base				0						ATACATGTTGTTGCAACTATA	0.303													13	21					0	0	1	0	0		G	70182635	G	G	70182635	3	3	89	1	0	0	0	0	1	0	0	0	4602	1725	60	5	989	5	DNA2	10	70182635	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	83336	70182635	65352112	3888	57719											
TET1	80312	broad.mit.edu	37	chr10	70446447	70446447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacaaacaacagtaagccttCgtcactgccaaccttaggtg	14	8	7	12	1	1	0	1	0	0	0	2	0	1	0	3	1	6	1	3	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:70446447C>T	uc001jok.3	+	11	5892	c.5387C>T	c.(5386-5388)TCG>TTG	p.S1796L		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1796					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						AGTAAGCCTTCGTCACTGCCA	0.428													27	40					0	0	1	0	0		T	70446447	T	T	70446447	3	4	89	1	0	0	0	0	1	0	0	0	15794	893	31	1	5425	1	TET1	10	70446447	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	263812	70446447	65088300	3889	57720											
TET1	80312	broad.mit.edu	37	chr10	70451273	70451273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctgttgagcaccccaaccGtaatcatccaacccgcctct	9	9	5	18	2	2	1	1	1	1	0	4	1	4	1	7	0	3	3	7	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:70451273G>A	uc001jok.3	+	12	6618	c.6113G>A	c.(6112-6114)CGT>CAT	p.R2038H		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	2038					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						CACCCCAACCGTAATCATCCA	0.498													22	52					0	0	1	0	0		A	70451273	A	A	70451273	3	1	89	1	0	0	0	0	1	0	0	0	15794	1145	40	1	6155	1	TET1	10	70451273	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4826	70451273	65083474	3890	57721											
CCAR1	55749	broad.mit.edu	37	chr10	70525798	70525798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtctttgagtgtcctattgGactacagattagaggataat	11	15	10	5	0	1	3	0	1	1	2	2	5	2	5	1	2	1	0	1	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:70525798G>A	uc001joo.2	+	17	2379	c.2260G>A	c.(2260-2262)GAC>AAC	p.D754N	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Missense_Mutation_p.D559N|CCAR1_uc009xpx.1_Missense_Mutation_p.D728N|CCAR1_uc001jon.1_Missense_Mutation_p.D700N|CCAR1_uc010qiz.1_Missense_Mutation_p.D739N|CCAR1_uc010qja.1_Missense_Mutation_p.D739N|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	754	Glu-rich.				apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						TGTCCTATTGGACTACAGATT	0.274													27	53					0	0	1	0	0		A	70525798	A	A	70525798	3	1	89	1	0	0	0	0	1	0	0	0	2733	1174	41	4	2322	4	CCAR1	10	70525798	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	74525	70525798	65008949	3891	57722											
CCAR1	55749	broad.mit.edu	37	chr10	70550991	70550991	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagaatgaagacaaagatCaaaaatccaaggagaatggt	22	6	9	4	0	1	5	1	1	0	4	2	6	2	5	1	2	0	0	1	2	9	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:70550991C>A	uc001joo.2	+	25	3540	c.3421C>A	c.(3421-3423)CAA>AAA	p.Q1141K	CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	1141					apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						AGACAAAGATCAAAAATCCAA	0.264													37	51					5.20837e-25	6.26994e-25	1	1	0		A	70550991	A	A	70550991	3	1	89	1	0	0	0	0	1	0	0	0	2733	827	29	5	3515	5	CCAR1	10	70550991	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	25193	70550991	64983756	3892	57723											
STOX1	219736	broad.mit.edu	37	chr10	70644481	70644481	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agataaagaaaaaggcaagaAgtttggttttagtctcttat	16	13	9	3	0	1	3	0	0	1	3	2	3	1	3	0	2	0	3	0	2	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:70644481A>C	uc001jos.2	+	3	1016	c.929A>C	c.(928-930)AAG>ACG	p.K310T	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Missense_Mutation_p.K200T	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	310						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						AAAGGCAAGAAGTTTGGTTTT	0.458													47	86					0	0	1	0	0		C	70644481	C	C	70644481	3	2	89	1	0	0	0	0	1	0	0	0	15344	72	3	5	939	5	STOX1	10	70644481	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	93490	70644481	64890266	3893	57724											
STOX1	219736	broad.mit.edu	37	chr10	70645601	70645601	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcgtgaaccctttaagacaAgctgcaagacaagacaaaga	17	5	10	9	1	0	5	0	1	0	4	0	5	0	5	1	1	3	2	1	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:70645601A>C	uc001jos.2	+	3	2136	c.2049A>C	c.(2047-2049)CAA>CAC	p.Q683H	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Missense_Mutation_p.Q573H	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	683						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						CTTTAAGACAAGCTGCAAGAC	0.413													55	121					0	0	1	0	0		C	70645601	C	C	70645601	3	2	89	1	0	0	0	0	1	0	0	0	15344	69	3	5	2059	5	STOX1	10	70645601	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1120	70645601	64889146	3894	57725											
KIAA1279	26128	broad.mit.edu	37	chr10	70776080	70776080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcatcctgaggccgcccagGaaatagaagttgagctagaa	14	6	12	9	1	0	4	0	2	0	2	1	5	1	5	3	2	2	3	3	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:70776080G>A	uc001joy.2	+	7	1870	c.1774G>A	c.(1774-1776)GAA>AAA	p.E592K		NM_015634	NP_056449	Q96EK5	KBP_HUMAN	KIF1 binding protein	592					cell differentiation|mitochondrial transport|nervous system development	mitochondrion	kinesin binding			ovary(1)	1						GGCCGCCCAGGAAATAGAAGT	0.398													23	47					0	0	1	0	0		A	70776080	A	A	70776080	3	1	89	1	0	0	0	0	1	0	0	0	8237	1175	41	4	1800	4	KIAA1279	10	70776080	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	130479	70776080	64758667	3895	57726											
VPS26A	9559	broad.mit.edu	37	chr10	70922222	70922222	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttattagtaagaataaaaatAcaacatatggagttacagct	19	12	6	4	0	0	1	0	0	0	1	0	2	0	2	0	1	4	3	0	1	11	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:70922222A>G	uc001jpb.2	+	6	738	c.612A>G	c.(610-612)ATA>ATG	p.I204M	VPS26A_uc001jpc.2_Missense_Mutation_p.I204M|VPS26A_uc009xqa.2_Missense_Mutation_p.I197M|VPS26A_uc001jpd.2_Missense_Mutation_p.I93M	NM_004896	NP_004887	O75436	VP26A_HUMAN	vacuolar protein sorting 26 A isoform 1	204					retrograde transport, endosome to Golgi|vacuolar transport	cytosol|endosome membrane|retromer complex|vesicle	protein binding|protein transporter activity				0						GAATAAAAATACAACATATGG	0.264													17	23					0	0	1	0	0		G	70922222	G	G	70922222	3	3	89	1	0	0	0	0	1	0	0	0	17223	381	14	3	634	3	VPS26A	10	70922222	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	146142	70922222	64612525	3896	57727											
HK1	3098	broad.mit.edu	37	chr10	71144127	71144127	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggatcttggaggaaccAatttccgtgtgctgctggtg	6	12	13	10	1	1	0	0	0	1	0	2	3	2	3	3	4	3	2	3	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:71144127A>C	uc001jpl.3	+	11	1710	c.1609A>C	c.(1609-1611)AAT>CAT	p.N537H	HK1_uc001jpg.3_Missense_Mutation_p.N525H|HK1_uc001jph.3_Missense_Mutation_p.N541H|HK1_uc001jpi.3_Missense_Mutation_p.N541H|HK1_uc001jpj.3_Missense_Mutation_p.N572H|HK1_uc001jpk.3_Missense_Mutation_p.N536H|HK1_uc009xqd.2_Missense_Mutation_p.N415H	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	537	Catalytic.|ATP 2.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						TGGAGGAACCAATTTCCGTGT	0.463													66	102					0	0	1	0	0		C	71144127	C	C	71144127	3	2	89	1	0	0	0	0	1	0	0	0	7206	130	5	5	1829	5	HK1	10	71144127	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	221905	71144127	64390620	3897	57728											
HK1	3098	broad.mit.edu	37	chr10	71152041	71152041	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacagactggtggacgaataTtccctaaatgctgggaaaca	14	8	11	8	1	0	1	0	0	0	1	1	5	1	3	1	3	2	1	1	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:71152041T>C	uc001jpl.3	+	15	2297	c.2196T>C	c.(2194-2196)TAT>TAC	p.Y732Y	HK1_uc001jpg.3_Silent_p.Y720Y|HK1_uc001jph.3_Silent_p.Y736Y|HK1_uc001jpi.3_Silent_p.Y736Y|HK1_uc001jpj.3_Silent_p.Y767Y|HK1_uc001jpk.3_Silent_p.Y731Y	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	732	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						TGGACGAATATTCCCTAAATG	0.562											OREG0020217	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	52					0	0	1	0	0		C	71152041	C	C	71152041	2	2	89	1	0	0	0	0	0	0	0	1	7206	1500	52	3		3	HK1	10	71152041	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	7914	71152041	64382706	3898	57729											
COL13A1	1305	broad.mit.edu	37	chr10	71657243	71657243	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaactaggagtgcctaagcAgcatgccagcagctctgcgc	11	6	11	13	1	1	0	0	0	1	0	1	1	1	1	2	1	8	4	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:71657243A>C	uc001jpr.1	+	12	1206	c.670A>C	c.(670-672)AGC>CGC	p.S224R	COL13A1_uc001jqj.1_Missense_Mutation_p.S224R|COL13A1_uc001jps.1_Missense_Mutation_p.S195R|COL13A1_uc001jpt.1_Intron|COL13A1_uc001jpu.1_Intron|COL13A1_uc001jpv.1_Missense_Mutation_p.S224R|COL13A1_uc001jpx.1_Missense_Mutation_p.S224R|COL13A1_uc001jpw.1_Intron|COL13A1_uc001jpy.1_Intron|COL13A1_uc001jpz.1_Intron|COL13A1_uc001jqa.1_Missense_Mutation_p.S186R|COL13A1_uc001jqc.1_Missense_Mutation_p.S224R|COL13A1_uc001jqb.1_Missense_Mutation_p.S195R|COL13A1_uc001jql.2_Missense_Mutation_p.S224R|COL13A1_uc001jqd.1_Missense_Mutation_p.S212R|COL13A1_uc001jqe.1_Missense_Mutation_p.S207R|COL13A1_uc001jqf.1_Intron|COL13A1_uc001jqg.1_Missense_Mutation_p.S224R|COL13A1_uc001jqh.1_Missense_Mutation_p.S224R|COL13A1_uc001jqi.1_Missense_Mutation_p.S224R|COL13A1_uc010qjf.1_Intron|COL13A1_uc001jqk.1_Missense_Mutation_p.S84R	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	224	Extracellular (Potential).|Nonhelical region 2 (NC2).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	GTGCCTAAGCAGCATGCCAGC	0.607													11	24					0	0	1	0	0		C	71657243	C	C	71657243	3	2	89	1	0	0	0	0	1	0	0	0	3673	188	7	5	720	5	COL13A1	10	71657243	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	505202	71657243	63877504	3899	57730											
ADAMTS14	140766	broad.mit.edu	37	chr10	72517751	72517751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggagagggcatccagcagCggcaggtggtgtgcaggacc	8	5	19	9	1	0	1	0	0	0	1	1	3	1	2	2	6	3	4	2	6	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:72517751C>T	uc001jrh.2	+	20	2971	c.2971C>T	c.(2971-2973)CGG>TGG	p.R991W	ADAMTS14_uc001jrg.2_Missense_Mutation_p.R994W	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	991	TSP type-1 4.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						CATCCAGCAGCGGCAGGTGGT	0.652													46	60					0	0	1	0	0		T	72517751	T	T	72517751	3	4	89	1	0	0	0	0	1	0	0	0	259	759	27	1	3058	1	ADAMTS14	10	72517751	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	860508	72517751	63016996	3900	57731											
ADAMTS14	140766	broad.mit.edu	37	chr10	72520350	72520350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagcctcctggaaagccaaCgggatcagaggaccatcagc	13	4	12	12	1	2	2	2	0	0	2	3	5	3	5	4	3	4	0	4	3	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:72520350C>T	uc001jrh.2	+	22	3413	c.3413C>T	c.(3412-3414)ACG>ATG	p.T1138M	ADAMTS14_uc001jrg.2_Missense_Mutation_p.T1141M	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1138	Pro-rich.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						GGAAAGCCAACGGGATCAGAG	0.577													21	67					0	0	1	0	0		T	72520350	T	T	72520350	3	4	89	1	0	0	0	0	1	0	0	0	259	536	19	1	3508	1	ADAMTS14	10	72520350	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2599	72520350	63014397	3901	57732											
SLC29A3	55315	broad.mit.edu	37	chr10	73122094	73122094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagggttcgtgctcctccGgacctgcctcatccccctct	3	10	8	20	2	2	0	1	0	1	0	6	1	5	1	7	2	2	2	7	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:73122094G>A	uc001jrr.3	+	6	1214	c.1157G>A	c.(1156-1158)CGG>CAG	p.R386Q	SLC29A3_uc001jrs.3_3'UTR|SLC29A3_uc010qjq.1_Missense_Mutation_p.R240Q|SLC29A3_uc001jrt.3_Missense_Mutation_p.R180Q|SLC29A3_uc001jru.3_Missense_Mutation_p.R198Q	NM_018344	NP_060814	Q9BZD2	S29A3_HUMAN	solute carrier family 29 (nucleoside	386	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to membrane|late endosome membrane|lysosomal membrane	nucleoside transmembrane transporter activity				0						GTGCTCCTCCGGACCTGCCTC	0.622													54	132					0	0	1	0	0		A	73122094	A	A	73122094	3	1	89	1	0	0	0	0	1	0	0	0	14561	1116	39	1	1183	1	SLC29A3	10	73122094	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	601744	73122094	62412653	3902	57733											
CDH23	64072	broad.mit.edu	37	chr10	73466770	73466770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactgcacggacaacgacGtgggcctcaatgcagagctc	11	6	12	12	3	1	2	1	1	0	1	2	4	1	3	1	2	5	3	1	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:73466770G>A	uc001jrx.3	+	25	3447	c.3070G>A	c.(3070-3072)GTG>ATG	p.V1024M	CDH23_uc001jry.2_Missense_Mutation_p.V640M|CDH23_uc001jrz.2_Missense_Mutation_p.V640M	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1024	Cadherin 10.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GGACAACGACGTGGGCCTCAA	0.657													5	9					0	0	1	0	0		A	73466770	A	A	73466770	3	1	89	1	0	0	0	0	1	0	0	0	3111	1145	40	1	3395	1	CDH23	10	73466770	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	344676	73466770	62067977	3903	57734											
CHST3	9469	broad.mit.edu	37	chr10	73767275	73767275	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcaacatcttctacctcttCgagccgctgtggcacatcga	8	10	9	14	3	3	0	0	0	3	0	5	2	3	0	2	2	3	3	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:73767275C>T	uc001jsn.2	+	3	926	c.486C>T	c.(484-486)TTC>TTT	p.F162F		NM_004273	NP_004264	Q7LGC8	CHST3_HUMAN	chondroitin 6-sulfotransferase 3	162	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity				0						TCTACCTCTTCGAGCCGCTGT	0.687													10	15					0	0	1	0	0		T	73767275	T	T	73767275	2	4	89	1	0	0	0	0	0	0	0	1	3408	883	31	1		1	CHST3	10	73767275	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	300505	73767275	61767472	3904	57735											
SPOCK2	9806	broad.mit.edu	37	chr10	73830147	73830147	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcttgcagatggagtCtttgtttccatggagtttca	7	14	13	7	0	2	1	1	0	1	1	3	3	3	3	1	3	1	5	1	3	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:73830147C>A	uc001jso.1	-	5	842	c.397G>T	c.(397-399)GAC>TAC	p.D133Y	SPOCK2_uc001jsp.2_Missense_Mutation_p.D133Y	NM_014767	NP_055582	Q92563	TICN2_HUMAN	sparc/osteonectin, cwcv and kazal-like domains	133	Kazal-like.				extracellular matrix organization|regulation of cell differentiation|signal transduction|synapse assembly	proteinaceous extracellular matrix	calcium ion binding				0						CAGATGGAGTCTTTGTTTCCA	0.597													14	34					4.93089e-13	5.49801e-13	1	1	0		A	73830147	A	A	73830147	3	1	89	1	0	0	0	0	1	0	0	0	15105	913	32	5	905	5	SPOCK2	10	73830147	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	62872	73830147	61704600	3905	57736											
PLA2G12B	84647	broad.mit.edu	37	chr10	74714364	74714364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctgaataggactcctccGtgtcagggctcgtgtcgctc	6	11	12	12	3	2	1	1	1	1	0	7	2	4	2	2	2	0	2	2	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:74714364G>A	uc001jtf.1	-	1	147	c.80C>T	c.(79-81)ACG>ATG	p.T27M	PLA2G12B_uc009xqt.1_Translation_Start_Site|PLA2G12B_uc010qjz.1_Missense_Mutation_p.T27M	NM_032562	NP_115951	Q9BX93	PG12B_HUMAN	phospholipase A2, group XIIB precursor	27					lipid catabolic process	extracellular region	calcium ion binding|phospholipase A2 activity			ovary(1)	1	Prostate(51;0.0198)					GGACTCCTCCGTGTCAGGGCT	0.582													51	120					0	0	1	0	0		A	74714364	A	A	74714364	3	1	89	1	0	0	0	0	1	0	0	0	12010	1145	40	1	523	1	PLA2G12B	10	74714364	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	884217	74714364	60820383	3906	57737											
P4HA1	5033	broad.mit.edu	37	chr10	74813221	74813221	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatctatggtagaaatctcGccttcatccagttgccttag	9	15	7	10	1	3	1	1	0	2	1	5	1	4	1	3	1	1	2	3	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:74813221G>A	uc010qka.1	-	7	925	c.591C>T	c.(589-591)GGC>GGT	p.G197G	P4HA1_uc001jtg.2_Silent_p.G197G|P4HA1_uc001jth.2_Silent_p.G197G|P4HA1_uc010qkb.1_Silent_p.G197G|P4HA1_uc001jti.2_RNA	NM_001142595	NP_001136067	P13674	P4HA1_HUMAN	prolyl 4-hydroxylase, alpha I subunit isoform 2	197						endoplasmic reticulum lumen|mitochondrion	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			ovary(1)	1	Prostate(51;0.0198)				Hydralazine(DB01275)|L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	TAGAAATCTCGCCTTCATCCA	0.448													62	89					0	0	1	0	0		A	74813221	A	A	74813221	2	1	89	1	0	0	0	0	0	0	0	1	11375	1074	38	1		1	P4HA1	10	74813221	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	98857	74813221	60721526	3907	57738											
TTC18	118491	broad.mit.edu	37	chr10	75035326	75035326	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggcctccttgagggcataAcagctcatgtgcaagcactc	9	8	12	12	0	1	1	1	1	0	0	3	1	2	1	2	3	4	4	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:75035326A>C	uc009xrc.2	-	23	2882	c.2761T>G	c.(2761-2763)TTA>GTA	p.L921V	TTC18_uc001jty.2_Missense_Mutation_p.L921V|TTC18_uc001jtv.3_Missense_Mutation_p.L25V|TTC18_uc001jtw.3_Missense_Mutation_p.L25V|TTC18_uc001jtx.2_Missense_Mutation_p.L302V	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18	921							binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					TGAGGGCATAACAGCTCATGT	0.438													45	122					0	0	1	0	0		C	75035326	C	C	75035326	3	2	89	1	0	0	0	0	1	0	0	0	16711	40	2	5	628	5	TTC18	10	75035326	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	222105	75035326	60499421	3908	57739											
AGAP5	729092	broad.mit.edu	37	chr10	75435151	75435151	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatacgtcgtggcttcaaAgtgccatgtttggccagtgg	7	12	12	10	2	2	0	2	0	0	0	3	0	2	0	2	3	2	2	2	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:75435151A>C	uc009xri.2	-	8	1308	c.1267T>G	c.(1267-1269)TTT>GTT	p.F423V	AGAP5_uc001juu.3_Missense_Mutation_p.F384V	NM_001144000	NP_001137472	A6NIR3	AGAP5_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	423	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						GTGGCTTCAAAGTGCCATGTT	0.522													92	175					0	0	1	0	0		C	75435151	C	C	75435151	3	2	89	1	0	0	0	0	1	0	0	0	371	72	3	5	797	5	AGAP5	10	75435151	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	399825	75435151	60099596	3909	57740											
KIAA0913	23053	broad.mit.edu	37	chr10	75558819	75558819	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcagctaagggtgggggCgtgtaccctgaagtgttgtt	7	10	18	6	1	0	1	0	1	0	0	0	2	0	1	1	4	2	5	1	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:75558819C>T	uc009xrl.2	+	21	4253	c.4221C>T	c.(4219-4221)GGC>GGT	p.G1407G	KIAA0913_uc001jve.2_Silent_p.G1412G|KIAA0913_uc001jvf.2_Intron|KIAA0913_uc001jvh.2_RNA|KIAA0913_uc001jvi.2_Silent_p.G842G|KIAA0913_uc010qkr.1_Silent_p.G830G|KIAA0913_uc001jvj.2_Silent_p.G830G|KIAA0913_uc009xrn.1_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	1407							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					AGGGTGGGGGCGTGTACCCTG	0.562													9	19					0	0	1	0	0		T	75558819	T	T	75558819	2	4	89	1	0	0	0	0	0	0	0	1	8216	755	27	1		1	KIAA0913	10	75558819	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	123668	75558819	59975928	3910	57741											
MYST4	23522	broad.mit.edu	37	chr10	76784845	76784845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acaactcagatgaagagaggCcaatgccacagctggagcct	14	5	11	11	0	1	3	1	1	0	2	1	5	1	4	3	2	4	1	3	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:76784845C>T	uc001jwn.1	+	17	3995	c.3502C>T	c.(3502-3504)CCA>TCA	p.P1168S	MYST4_uc001jwo.1_Missense_Mutation_p.P876S|MYST4_uc001jwp.1_Missense_Mutation_p.P985S	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1168					histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					TGAAGAGAGGCCAATGCCACA	0.493			T	CREBBP	AML								25	44					0	0	1	0	0		T	76784845	T	T	76784845	3	4	89	1	0	0	0	0	1	0	0	0	10123	739	26	2	3560	2	MYST4	10	76784845	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1226026	76784845	58749902	3911	57742											
MYST4	23522	broad.mit.edu	37	chr10	76788342	76788342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggccaaaaggaacaaagCgcggtctatctaagtggagg	13	7	14	7	2	2	0	0	0	2	0	2	2	2	2	1	5	2	0	1	5	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:76788342C>T	uc001jwn.1	+	18	4253	c.3760C>T	c.(3760-3762)CGC>TGC	p.R1254C	MYST4_uc001jwo.1_Missense_Mutation_p.R962C|MYST4_uc001jwp.1_Missense_Mutation_p.R1071C	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1254					histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					AGGAACAAAGCGCGGTCTATC	0.443			T	CREBBP	AML								36	76					0	0	1	0	0		T	76788342	T	T	76788342	3	4	89	1	0	0	0	0	1	0	0	0	10123	768	27	1	3822	1	MYST4	10	76788342	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3497	76788342	58746405	3912	57743											
KCNMA1	3778	broad.mit.edu	37	chr10	78651404	78651404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttttcctcagcaatcagaGcctccagctccggcgtggct	6	10	10	15	3	2	1	2	0	0	1	5	1	5	1	4	2	3	4	4	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:78651404G>A	uc001jxn.2	-	26	3398	c.3221C>T	c.(3220-3222)GCT>GTT	p.A1074V	KCNMA1_uc001jxj.2_Missense_Mutation_p.A1020V|KCNMA1_uc001jxk.1_Missense_Mutation_p.A692V|KCNMA1_uc009xrt.1_Missense_Mutation_p.A865V|KCNMA1_uc001jxl.1_Missense_Mutation_p.A699V|KCNMA1_uc001jxo.2_Missense_Mutation_p.A1057V|KCNMA1_uc001jxm.2_Missense_Mutation_p.A1016V|KCNMA1_uc001jxq.2_Missense_Mutation_p.A1046V|uc001jxp.2_Intron	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1074	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	AGCAATCAGAGCCTCCAGCTC	0.587													29	37					0	0	1	0	0		A	78651404	A	A	78651404	3	1	89	1	0	0	0	0	1	0	0	0	8089	971	34	2	530	2	KCNMA1	10	78651404	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1863062	78651404	56883343	3913	57744											
KCNMA1	3778	broad.mit.edu	37	chr10	79397114	79397114	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggcccccgaagaaagtcAccatggaggaggccaggaaa	15	2	14	10	1	1	2	1	0	0	2	1	6	1	5	4	5	0	0	4	5	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:79397114A>G	uc001jxn.2	-	1	464	c.287T>C	c.(286-288)GTG>GCG	p.V96A	KCNMA1_uc001jxj.2_Missense_Mutation_p.V96A|KCNMA1_uc001jxo.2_Missense_Mutation_p.V96A|KCNMA1_uc001jxm.2_Missense_Mutation_p.V96A|KCNMA1_uc001jxq.2_Missense_Mutation_p.V96A|KCNMA1_uc001jxs.3_Missense_Mutation_p.V96A|KCNMA1_uc001jxt.3_Missense_Mutation_p.V96A	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	96	Helical; Name=Segment S0; (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	GAAGAAAGTCACCATGGAGGA	0.602													8	28					0	0	1	0	0		G	79397114	G	G	79397114	3	3	89	1	0	0	0	0	1	0	0	0	8089	159	6	3	3707	3	KCNMA1	10	79397114	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	745710	79397114	56137633	3914	57745											
POLR3A	11128	broad.mit.edu	37	chr10	79779000	79779000	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgaaccagtttcctcaaGaaattgatgtttgctttgtt	9	19	7	6	0	1	3	1	2	0	1	2	3	2	3	2	0	2	4	2	0	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:79779000G>T	uc001jzn.2	-	9	1303	c.1209C>A	c.(1207-1209)TTC>TTA	p.F403L		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	403					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			GTTTCCTCAAGAAATTGATGT	0.388													21	43					1.10513e-12	1.22773e-12	1	1	0		T	79779000	T	T	79779000	3	4	89	1	0	0	0	0	1	0	0	0	12247	933	33	5	3055	5	POLR3A	10	79779000	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	381886	79779000	55755747	3915	57746											
SFTPD	6441	broad.mit.edu	37	chr10	81706344	81706344	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgttctgtgggagtaggtCttcatttctgcttccaggta	6	17	11	7	0	4	0	1	0	3	0	5	1	5	1	1	3	1	4	1	3	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:81706344C>A	uc001kbh.2	-	2	115	c.72G>T	c.(70-72)AAG>AAT	p.K24N	MBL1P_uc001kbf.2_Intron	NM_003019	NP_003010	P35247	SFTPD_HUMAN	pulmonary surfactant-associated protein D	24					cell junction assembly|innate immune response|lung alveolus development|macrophage chemotaxis|negative regulation of interleukin-2 biosynthetic process|negative regulation of T cell proliferation|positive regulation of phagocytosis|reactive oxygen species metabolic process|receptor-mediated endocytosis|respiratory gaseous exchange|surfactant homeostasis	collagen|endocytic vesicle|extracellular space|lysosome	bacterial cell surface binding|protein binding|sugar binding			skin(1)	1	Breast(12;0.000615)|Prostate(51;0.0095)|all_epithelial(25;0.027)		Epithelial(14;0.0244)|all cancers(16;0.0558)|Colorectal(32;0.109)			GGGAGTAGGTCTTCATTTCTG	0.572													22	20					3.5997e-14	4.05566e-14	1	1	0		A	81706344	A	A	81706344	3	1	89	1	0	0	0	0	1	0	0	0	14218	912	32	5	1083	5	SFTPD	10	81706344	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1927344	81706344	53828403	3916	57747											
NRG3	10718	broad.mit.edu	37	chr10	84118498	84118498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgctttccctgacagataCgacgacatattccacagagc	11	10	8	12	2	0	3	0	1	0	2	2	5	2	3	2	0	3	1	2	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:84118498C>T	uc001kco.2	+	2	854	c.827C>T	c.(826-828)ACG>ATG	p.T276M	NRG3_uc010qlz.1_Missense_Mutation_p.T276M|NRG3_uc001kcp.2_Missense_Mutation_p.T55M|NRG3_uc001kcq.2_Translation_Start_Site	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	276	Ser/Thr-rich.|Extracellular (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity	p.T276R(1)		lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		CTGACAGATACGACGACATAT	0.517													28	53					0	0	1	0	0		T	84118498	T	T	84118498	3	4	89	1	0	0	0	0	1	0	0	0	10668	536	19	1	1001	1	NRG3	10	84118498	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2412154	84118498	51416249	3917	57748											
NRG3	10718	broad.mit.edu	37	chr10	84745345	84745345	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgaaatacaaagagactCtgcattgaccaagtgacttg	17	9	8	7	0	1	4	0	3	1	1	1	5	1	4	1	0	2	1	1	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:84745345C>A	uc001kco.2	+	9	2102	c.2075C>A	c.(2074-2076)TCT>TAT	p.S692Y	NRG3_uc010qlz.1_Missense_Mutation_p.S691Y|NRG3_uc001kcp.2_Missense_Mutation_p.S495Y|NRG3_uc001kcq.2_Missense_Mutation_p.S342Y|NRG3_uc001kcr.2_Missense_Mutation_p.S366Y	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	716	Cytoplasmic (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		CAAAGAGACTCTGCATTGACC	0.403													30	86					2.68265e-12	2.96656e-12	1	1	0		A	84745345	A	A	84745345	3	1	89	1	0	0	0	0	1	0	0	0	10668	913	32	5	2353	5	NRG3	10	84745345	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	626847	84745345	50789402	3918	57749											
GHITM	27069	broad.mit.edu	37	chr10	85902490	85902490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggcagcattggaaccatCgatggaaaaaatatttaaaa	19	8	9	5	1	0	1	0	0	0	1	1	4	0	3	1	3	2	2	1	3	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:85902490C>T	uc001kcs.1	+	3	413	c.209C>T	c.(208-210)TCG>TTG	p.S70L	GHITM_uc010qma.1_Nonsense_Mutation_p.R26*|GHITM_uc010qmb.1_5'UTR	NM_014394	NP_055209	Q9H3K2	GHITM_HUMAN	growth hormone inducible transmembrane protein	70	Mitochondrial matrix (Potential).				apoptosis	integral to membrane|mitochondrial inner membrane					0						TTGGAACCATCGATGGAAAAA	0.294													17	32					0	0	1	0	0		T	85902490	T	T	85902490	3	4	89	1	0	0	0	0	1	0	0	0	6385	893	31	1	215	1	GHITM	10	85902490	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1157145	85902490	49632257	3919	57750											
RGR	5995	broad.mit.edu	37	chr10	86012656	86012656	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgtctctctggtgctcttCgtgtggctgtcttctgcctt	0	17	11	13	2	5	0	0	0	5	0	7	0	5	0	2	2	2	2	2	2	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:86012656C>T	uc001kdc.1	+	4	440	c.402C>T	c.(400-402)TTC>TTT	p.F134F	RGR_uc001kdd.1_Silent_p.F138F|RGR_uc001kde.1_Silent_p.F134F	NM_001012720	NP_001012738	P47804	RGR_HUMAN	retinal G-protein coupled receptor isoform 2	134	Helical; Name=4; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity|protein binding			ovary(1)	1						TGGTGCTCTTCGTGTGGCTGT	0.587													24	85					0	0	1	0	0		T	86012656	T	T	86012656	2	4	89	1	0	0	0	0	0	0	0	1	13316	883	31	1		1	RGR	10	86012656	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	110166	86012656	49522091	3920	57751											
LIPJ	142910	broad.mit.edu	37	chr10	90356076	90356076	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatcaaagatagctgaaaGaatcaaaatattttttgctt	17	15	5	4	0	2	3	2	1	0	2	2	3	2	3	0	0	2	2	0	0	9	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:90356076G>T	uc001kff.2	+	7	793	c.479G>T	c.(478-480)AGA>ATA	p.R160I		NM_001010939	NP_001010939	Q5W064	LIPJ_HUMAN	lipase, family member J	160					lipid catabolic process		hydrolase activity			ovary(1)	1		all_cancers(4;2.79e-10)|Prostate(4;1.68e-15)|all_epithelial(4;1.43e-09)|Colorectal(252;0.0381)|Breast(4;0.141)|Melanoma(5;0.2)|all_hematologic(4;0.222)		Colorectal(12;1.02e-05)|COAD - Colon adenocarcinoma(12;1.54e-05)		ATAGCTGAAAGAATCAAAATA	0.264													13	23					2.27111e-07	2.38128e-07	1	1	0		T	90356076	T	T	90356076	3	4	89	1	0	0	0	0	1	0	0	0	8843	942	33	5	497	5	LIPJ	10	90356076	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4343420	90356076	45178671	3921	57752											
LIPF	8513	broad.mit.edu	37	chr10	90427119	90427119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gactacacatggtttgtttgGaaaattacatcctggaagcc	12	12	9	8	0	0	0	0	0	0	0	1	3	1	2	2	3	3	2	2	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:90427119G>A	uc001kfg.1	+	2	231	c.65G>A	c.(64-66)GGA>GAA	p.G22E	LIPF_uc009xtk.2_Missense_Mutation_p.G22E|LIPF_uc001kfh.1_Missense_Mutation_p.G32E|LIPF_uc010qmt.1_Missense_Mutation_p.G32E|LIPF_uc010qmu.1_Missense_Mutation_p.G22E	NM_004190	NP_004181	P07098	LIPG_HUMAN	lipase, gastric precursor	22					lipid catabolic process|triglyceride metabolic process	extracellular region	lipid binding|triglyceride lipase activity				0		Colorectal(252;0.0161)		Colorectal(12;3.91e-05)|COAD - Colon adenocarcinoma(12;5.43e-05)		GGTTTGTTTGGAAAATTACAT	0.368													24	47					0	0	1	0	0		A	90427119	A	A	90427119	3	1	89	1	0	0	0	0	1	0	0	0	8839	1174	41	4	67	4	LIPF	10	90427119	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	71043	90427119	45107628	3922	57753											
ANKRD22	118932	broad.mit.edu	37	chr10	90582738	90582738	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaattcaatctgggaaaatTttaatctccgtgcaatatcc	13	15	5	8	1	3	0	1	0	2	0	5	1	4	1	2	1	1	1	2	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:90582738T>G	uc001kfj.3	-	6	904	c.536A>C	c.(535-537)AAA>ACA	p.K179T		NM_144590	NP_653191	Q5VYY1	ANR22_HUMAN	ankyrin repeat domain 22	179											0		Colorectal(252;0.0163)		Colorectal(12;6.29e-05)|COAD - Colon adenocarcinoma(12;7.69e-05)		CTGGGAAAATTTTAATCTCCG	0.398													58	119					0	0	1	0	0		G	90582738	G	G	90582738	3	3	89	1	0	0	0	0	1	0	0	0	651	1841	64	5	43	5	ANKRD22	10	90582738	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	155619	90582738	44952009	3923	57754											
IFIT2	3433	broad.mit.edu	37	chr10	91066464	91066464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggtgtaacagatgttcttCgcagtgcagccaagttttat	10	13	10	8	1	1	1	0	0	1	1	2	1	1	1	1	1	3	5	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:91066464C>T	uc009xts.2	+	2	926	c.751C>T	c.(751-753)CGC>TGC	p.R251C	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron	NM_001547	NP_001538	P09913	IFIT2_HUMAN	interferon-induced protein with	251	TPR 4.				negative regulation of protein binding|response to virus|type I interferon-mediated signaling pathway		protein binding			ovary(1)|skin(1)	2		Colorectal(252;0.0161)				AGATGTTCTTCGCAGTGCAGC	0.433													34	71					0	0	1	0	0		T	91066464	T	T	91066464	3	4	89	1	0	0	0	0	1	0	0	0	7539	884	31	1	757	1	IFIT2	10	91066464	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	483726	91066464	44468283	3924	57755											
IFIT3	3437	broad.mit.edu	37	chr10	91099660	91099660	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccacaaaatgcaccaaaTtattggtatcttcaaggatt	14	13	5	9	0	2	0	1	0	1	0	3	1	3	1	2	2	1	2	2	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:91099660T>G	uc001kgf.2	+	2	1477	c.1248T>G	c.(1246-1248)AAT>AAG	p.N416K	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron|IFIT3_uc001kgg.2_Missense_Mutation_p.N416K	NM_001549	NP_001540	O14879	IFIT3_HUMAN	interferon-induced protein with	416	TPR 7.				type I interferon-mediated signaling pathway		protein binding			central_nervous_system(1)	1						ATGCACCAAATTATTGGTATC	0.418													21	59					0	0	1	0	0		G	91099660	G	G	91099660	3	3	89	1	0	0	0	0	1	0	0	0	7540	1490	52	5	1263	5	IFIT3	10	91099660	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	33196	91099660	44435087	3925	57756											
KIF20B	9585	broad.mit.edu	37	chr10	91484801	91484801	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actctgcttcaagaacgagaGatattagaagaaaatgctga	17	9	9	6	1	2	5	1	1	1	4	2	7	2	5	0	0	3	2	0	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:91484801G>A	uc001kgs.1	+	15	1959	c.1887G>A	c.(1885-1887)GAG>GAA	p.E629E	KIF20B_uc001kgr.1_Silent_p.E629E|KIF20B_uc001kgt.1_5'UTR	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	629					cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						AAGAACGAGAGATATTAGAAG	0.358													31	57					0	0	1	0	0		A	91484801	A	A	91484801	2	1	89	1	0	0	0	0	0	0	0	1	8303	933	33	4		4	KIF20B	10	91484801	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	385141	91484801	44049946	3926	57757											
KIF20B	9585	broad.mit.edu	37	chr10	91498280	91498280	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaactcaagctgaaagaaGaaatcacacagttaacaaat	21	6	7	7	0	2	3	2	1	0	2	2	4	2	4	0	1	3	2	0	1	7	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:91498280G>T	uc001kgs.1	+	20	3754	c.3682G>T	c.(3682-3684)GAA>TAA	p.E1228*	KIF20B_uc001kgr.1_Nonsense_Mutation_p.E1188*|KIF20B_uc001kgt.1_Nonsense_Mutation_p.E439*|KIF20B_uc009xtw.1_RNA	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	1228					cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						GCTGAAAGAAGAAATCACACA	0.303													24	59					1.96895e-08	2.09068e-08	1	1	0		T	91498280	T	T	91498280	4	4	89	1	0	0	0	0	0	1	0	0	8303	943	33	5	3636	5	KIF20B	10	91498280	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13479	91498280	44036467	3927	57758											
KIF20B	9585	broad.mit.edu	37	chr10	91528597	91528597	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagaaggaacactacagAaatttggagacttcttacaa	20	8	7	6	0	1	3	0	0	1	3	1	5	1	4	0	2	3	0	0	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:91528597A>C	uc001kgs.1	+	31	5266	c.5194A>C	c.(5194-5196)AAA>CAA	p.K1732Q	KIF20B_uc001kgr.1_Missense_Mutation_p.K1692Q|KIF20B_uc001kgt.1_Missense_Mutation_p.K943Q|KIF20B_uc009xtw.1_RNA	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	1732	Interaction with PIN1.				cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						AACACTACAGAAATTTGGAGA	0.343													30	57					0	0	1	0	0		C	91528597	C	C	91528597	3	2	89	1	0	0	0	0	1	0	0	0	8303	247	9	5	5192	5	KIF20B	10	91528597	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	30317	91528597	44006150	3928	57759											
ANKRD1	27063	broad.mit.edu	37	chr10	92675935	92675935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagaaggaataccttatctCgggcgctaatttttgctcct	10	13	9	9	2	1	1	0	0	1	1	3	3	2	2	2	2	2	2	2	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:92675935C>T	uc001khe.1	-	6	892	c.644G>A	c.(643-645)CGA>CAA	p.R215Q		NM_014391	NP_055206	Q15327	ANKR1_HUMAN	cardiac ankyrin repeat protein	215					cellular lipid metabolic process|defense response|signal transduction		DNA binding				0		Colorectal(252;0.0475)				TACCTTATCTCGGGCGCTAAT	0.313													16	39					0	0	1	0	0		T	92675935	T	T	92675935	3	4	89	1	0	0	0	0	1	0	0	0	637	884	31	1	331	1	ANKRD1	10	92675935	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1147338	92675935	42858812	3929	57760											
BTAF1	9044	broad.mit.edu	37	chr10	93786976	93786976	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaattcaagatgaacatagcGaatactgttattagccaaga	18	10	7	6	1	1	3	1	1	0	2	1	4	1	3	1	0	4	1	1	0	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:93786976G>A	uc001khr.2	+	37	5423	c.5325G>A	c.(5323-5325)GCG>GCA	p.A1775A		NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	1775	Helicase C-terminal.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				TGAACATAGCGAATACTGTTA	0.368													58	103					0	0	1	0	0		A	93786976	A	A	93786976	2	1	89	1	0	0	0	0	0	0	0	1	1539	1045	37	1		1	BTAF1	10	93786976	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1111041	93786976	41747771	3930	57761											
IDE	3416	broad.mit.edu	37	chr10	94215362	94215362	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctggtgcttgtgacaaatTtatgtcattttgacatggga	9	15	12	5	0	1	2	1	2	0	0	1	3	1	3	0	3	1	2	0	3	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:94215362T>G	uc001kia.2	-	24	3011	c.2935A>C	c.(2935-2937)AAT>CAT	p.N979H	IDE_uc010qnp.1_Missense_Mutation_p.N424H|IDE_uc001khz.2_Missense_Mutation_p.N424H	NM_004969	NP_004960	P14735	IDE_HUMAN	insulin-degrading enzyme isoform 1 precursor	979					beta-amyloid metabolic process|bradykinin catabolic process|interspecies interaction between organisms|sex differentiation	cell surface|extracellular space|soluble fraction	ATP binding|metalloendopeptidase activity|protein homodimerization activity|signal transducer activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3					Bacitracin(DB00626)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TGTGACAAATTTATGTCATTT	0.328													24	59					0	0	1	0	0		G	94215362	G	G	94215362	3	3	89	1	0	0	0	0	1	0	0	0	7509	1841	64	5	132	5	IDE	10	94215362	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	428386	94215362	41319385	3931	57762											
HHEX	3087	broad.mit.edu	37	chr10	94452231	94452231	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcgagctggagaagaaattCgagacgcagaaatatctctc	15	8	10	8	3	1	4	0	0	1	4	5	7	1	4	0	1	1	2	0	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:94452231C>T	uc001kid.2	+	2	531	c.468C>T	c.(466-468)TTC>TTT	p.F156F		NM_002729	NP_002720	Q03014	HHEX_HUMAN	hematopoietically expressed homeobox	156	Homeobox.				anterior/posterior pattern formation|B cell differentiation|cell cycle|DNA conformation change|negative regulation of angiogenesis|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|negative regulation of vascular endothelial growth factor receptor signaling pathway|poly(A)+ mRNA export from nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|protein localization to nucleus|Wnt receptor signaling pathway	cytoplasm|nucleus|protein-DNA complex	DNA bending activity|eukaryotic initiation factor 4E binding|protein homodimerization activity|repressing transcription factor binding|sequence-specific DNA binding|TBP-class protein binding|transcription regulatory region DNA binding			ovary(1)	1						AGAAGAAATTCGAGACGCAGA	0.597													26	42					0	0	1	0	0		T	94452231	T	T	94452231	2	4	89	1	0	0	0	0	0	0	0	1	7107	883	31	1		1	HHEX	10	94452231	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	236869	94452231	41082516	3932	57763											
CYP26C1	340665	broad.mit.edu	37	chr10	94824234	94824234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagagccgggtgatgccctcGacctaatcattcacagtgca	10	8	10	13	2	2	2	2	1	0	1	3	3	2	2	3	1	3	1	3	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:94824234G>A	uc010qns.1	+	4	802	c.802G>A	c.(802-804)GAC>AAC	p.D268N	CYP26C1_uc009xud.2_Intron	NM_183374	NP_899230	Q6V0L0	CP26C_HUMAN	cytochrome P450, family 26, subfamily C,	268					anterior/posterior pattern formation|central nervous system development|negative regulation of retinoic acid receptor signaling pathway|neural crest cell development|organelle fusion|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			central_nervous_system(1)	1		Colorectal(252;0.122)				TGATGCCCTCGACCTAATCAT	0.602													17	57					0	0	1	0	0		A	94824234	A	A	94824234	3	1	89	1	0	0	0	0	1	0	0	0	4160	1058	37	1	816	1	CYP26C1	10	94824234	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	372003	94824234	40710513	3933	57764											
CYP26A1	1592	broad.mit.edu	37	chr10	94836943	94836943	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatatttacagtggagcTggccaggcattgtgactggc	11	10	12	8	0	0	1	0	1	0	0	0	2	0	2	1	4	2	2	1	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:94836943T>C	uc001kil.2	+	7	1421	c.1376T>C	c.(1375-1377)CTG>CCG	p.L459P	CYP26A1_uc001kik.1_Missense_Mutation_p.L390P|CYP26A1_uc001kim.1_Missense_Mutation_p.L357P	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	459					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				ACAGTGGAGCTGGCCAGGCAT	0.463													24	49					0	0	1	0	0		C	94836943	C	C	94836943	3	2	89	1	0	0	0	0	1	0	0	0	4158	1580	55	3	1402	3	CYP26A1	10	94836943	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	12709	94836943	40697804	3934	57765											
MYOF	26509	broad.mit.edu	37	chr10	95161176	95161176	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattaaatcagtacatactCtgggggatgtcctcagctcg	11	11	10	9	1	3	1	2	0	1	1	5	2	4	2	1	2	3	2	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:95161176C>A	uc001kin.2	-	12	1239	c.1116G>T	c.(1114-1116)CAG>CAT	p.Q372H	MYOF_uc001kio.2_Missense_Mutation_p.Q372H|MYOF_uc001kip.3_Missense_Mutation_p.Q372H|MYOF_uc009xuf.2_Missense_Mutation_p.Q354H	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	372	Cytoplasmic (Potential).|C2 3.				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						AGTACATACTCTGGGGGATGT	0.423													33	82					9.85521e-28	1.19659e-27	1	1	0		A	95161176	A	A	95161176	3	1	89	1	0	0	0	0	1	0	0	0	10107	927	32	5	5241	5	MYOF	10	95161176	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	324233	95161176	40373571	3935	57766											
GPR120	338557	broad.mit.edu	37	chr10	95335855	95335855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttgtaactaggaaatttCgatttgcacactgatttggc	10	17	8	6	1	0	1	0	1	0	0	1	3	0	2	0	2	2	2	0	2	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:95335855C>T	uc010qnt.1	+	2	631	c.575C>T	c.(574-576)TCG>TTG	p.S192L	GPR120_uc010qnu.1_Missense_Mutation_p.S192L	NM_181745	NP_859529	Q5NUL3	O3FA1_HUMAN	G protein-coupled receptor 120	192	Extracellular (Potential).				negative regulation of cytokine secretion|negative regulation of inflammatory response|regulation of glucose transport	integral to membrane|plasma membrane	fatty acid binding				0		Colorectal(252;0.122)				TAGGAAATTTCGATTTGCACA	0.438													44	105					0	0	1	0	0		T	95335855	T	T	95335855	3	4	89	1	0	0	0	0	1	0	0	0	6651	893	31	1	581	1	GPR120	10	95335855	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	174679	95335855	40198892	3936	57767											
LGI1	9211	broad.mit.edu	37	chr10	95556817	95556817	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggctctcacatctataagCgagacagttttgcaaataaa	14	11	8	8	1	2	1	1	0	2	1	3	2	2	1	0	1	2	3	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:95556817C>T	uc001kjc.3	+	8	1267	c.931C>T	c.(931-933)CGA>TGA	p.R311*	LGI1_uc010qnv.1_Nonsense_Mutation_p.R263*|LGI1_uc001kjd.3_Intron|LGI1_uc009xui.2_RNA|LGI1_uc001kje.2_Intron	NM_005097	NP_005088	O95970	LGI1_HUMAN	leucine-rich, glioma inactivated 1 precursor	311	EAR 2.				axon guidance|cell proliferation|positive regulation of cell growth|positive regulation of synaptic transmission	cell junction|extracellular space|synapse	receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4		Colorectal(252;0.124)				CATCTATAAGCGAGACAGTTT	0.378													31	68					0	0	1	0	0		T	95556817	T	T	95556817	4	4	89	1	0	0	0	0	0	1	0	0	8767	760	27	1	961	1	LGI1	10	95556817	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	220962	95556817	39977930	3937	57768											
PLCE1	51196	broad.mit.edu	37	chr10	95791016	95791016	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctggaagcaacttgccaaaGattctctcaatagcgaggga	13	9	10	9	1	3	1	1	0	2	1	4	4	3	3	1	2	4	1	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:95791016G>A	uc001kjk.2	+	2	847	c.213G>A	c.(211-213)AAG>AAA	p.K71K	PLCE1_uc010qnx.1_Silent_p.K71K	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	71					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				ACTTGCCAAAGATTCTCTCAA	0.388													6	98					0	0	1	0	0		A	95791016	A	A	95791016	2	1	89	1	0	0	0	0	0	0	0	1	12053	933	33	4		4	PLCE1	10	95791016	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	234199	95791016	39743731	3938	57769											
NOC3L	64318	broad.mit.edu	37	chr10	96097537	96097537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaatgctaaatattaccttCgactcaactctggtttgagt	11	14	7	9	1	2	1	1	1	1	0	3	2	2	1	1	1	3	3	1	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:96097537C>T	uc001kjq.1	-	19	2274	c.2186G>A	c.(2185-2187)CGA>CAA	p.R729Q		NM_022451	NP_071896	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog	729						nuclear speck|nucleolus	binding			ovary(1)	1		Colorectal(252;0.0897)				ATATTACCTTCGACTCAACTC	0.418													31	64					0	0	1	0	0		T	96097537	T	T	96097537	3	4	89	1	0	0	0	0	1	0	0	0	10533	884	31	1	228	1	NOC3L	10	96097537	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	306521	96097537	39437210	3939	57770											
NOC3L	64318	broad.mit.edu	37	chr10	96099593	96099593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttgatgaaggcaagagctCgctgctgagaaacttgcttt	10	12	12	7	1	0	4	0	3	0	2	1	5	0	4	0	1	4	6	0	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:96099593C>T	uc001kjq.1	-	17	1953	c.1865G>A	c.(1864-1866)CGA>CAA	p.R622Q		NM_022451	NP_071896	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog	622						nuclear speck|nucleolus	binding			ovary(1)	1		Colorectal(252;0.0897)				GGCAAGAGCTCGCTGCTGAGA	0.418													15	59					0	0	1	0	0		T	96099593	T	T	96099593	3	4	89	1	0	0	0	0	1	0	0	0	10533	884	31	1	557	1	NOC3L	10	96099593	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2056	96099593	39435154	3940	57771											
CYP2C8	1558	broad.mit.edu	37	chr10	96796963	96796963	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcagtagtattgaggttCtttaaatcatcaacagattt	13	15	7	6	0	3	2	2	1	1	1	3	2	3	2	0	1	2	4	0	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:96796963C>A	uc001kkb.2	-	9	1490	c.1395G>T	c.(1393-1395)AAG>AAT	p.K465N	CYP2C8_uc001kkc.2_RNA|CYP2C8_uc010qoa.1_Missense_Mutation_p.K395N|CYP2C8_uc010qob.1_Missense_Mutation_p.K379N|CYP2C8_uc010qoc.1_Missense_Mutation_p.K363N	NM_000770	NP_000761	P10632	CP2C8_HUMAN	cytochrome P450, family 2, subfamily C,	465					exogenous drug catabolic process|organic acid metabolic process|oxidative demethylation|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|electron carrier activity|heme binding|oxygen binding				0		Colorectal(252;0.0397)		all cancers(201;6.21e-05)	Aminophenazone(DB01424)|Amiodarone(DB01118)|Amodiaquine(DB00613)|Benzphetamine(DB00865)|Carbamazepine(DB00564)|Cerivastatin(DB00439)|Diclofenac(DB00586)|Fluvastatin(DB01095)|Fosphenytoin(DB01320)|Gemfibrozil(DB01241)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Lovastatin(DB00227)|Midazolam(DB00683)|Montelukast(DB00471)|Nicardipine(DB00622)|Paclitaxel(DB01229)|Phenytoin(DB00252)|Pioglitazone(DB01132)|Repaglinide(DB00912)|Rifampin(DB01045)|Rosiglitazone(DB00412)|Simvastatin(DB00641)|Sitagliptin(DB01261)|Tolbutamide(DB01124)|Torasemide(DB00214)|Tretinoin(DB00755)|Trimethoprim(DB00440)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zopiclone(DB01198)	TATTGAGGTTCTTTAAATCAT	0.418													14	26					1.5842e-08	1.6863e-08	1	1	0		A	96796963	A	A	96796963	3	1	89	1	0	0	0	0	1	0	0	0	4170	912	32	5	81	5	CYP2C8	10	96796963	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	697370	96796963	38737784	3941	57772											
CYP2C8	1558	broad.mit.edu	37	chr10	96829106	96829106	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagctctgtctccagagTgaaaagagaagcataaaaga	17	7	9	8	0	2	4	0	1	2	3	3	5	2	4	1	0	3	2	1	0	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:96829106T>G	uc001kkb.2	-	1	149	c.54A>C	c.(52-54)TCA>TCC	p.S18S	CYP2C8_uc001kkc.2_RNA|CYP2C8_uc010qoa.1_5'UTR|CYP2C8_uc010qob.1_5'UTR|CYP2C8_uc010qoc.1_5'UTR|CYP2C8_uc010qod.1_5'UTR	NM_000770	NP_000761	P10632	CP2C8_HUMAN	cytochrome P450, family 2, subfamily C,	18					exogenous drug catabolic process|organic acid metabolic process|oxidative demethylation|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|electron carrier activity|heme binding|oxygen binding				0		Colorectal(252;0.0397)		all cancers(201;6.21e-05)	Aminophenazone(DB01424)|Amiodarone(DB01118)|Amodiaquine(DB00613)|Benzphetamine(DB00865)|Carbamazepine(DB00564)|Cerivastatin(DB00439)|Diclofenac(DB00586)|Fluvastatin(DB01095)|Fosphenytoin(DB01320)|Gemfibrozil(DB01241)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Lovastatin(DB00227)|Midazolam(DB00683)|Montelukast(DB00471)|Nicardipine(DB00622)|Paclitaxel(DB01229)|Phenytoin(DB00252)|Pioglitazone(DB01132)|Repaglinide(DB00912)|Rifampin(DB01045)|Rosiglitazone(DB00412)|Simvastatin(DB00641)|Sitagliptin(DB01261)|Tolbutamide(DB01124)|Torasemide(DB00214)|Tretinoin(DB00755)|Trimethoprim(DB00440)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zopiclone(DB01198)	GTCTCCAGAGTGAAAAGAGAA	0.453													33	53					0	0	1	0	0		G	96829106	G	G	96829106	2	3	89	1	0	0	0	0	0	0	0	1	4170	1683	59	5		5	CYP2C8	10	96829106	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	32143	96829106	38705641	3942	57773											
ZNF518A	9849	broad.mit.edu	37	chr10	97916956	97916956	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaacatttatatgcaaaaGaaaaactggaaaaagacaaa	25	6	6	4	0	0	3	0	0	0	3	0	4	0	4	0	1	3	1	0	1	11	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:97916956G>T	uc001klp.2	+	6	1734	c.877G>T	c.(877-879)GAA>TAA	p.E293*	ZNF518A_uc001klo.1_Intron|ZNF518A_uc001klq.2_Nonsense_Mutation_p.E293*|ZNF518A_uc001klr.2_Nonsense_Mutation_p.E293*	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	293					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		ATATGCAAAAGAAAAACTGGA	0.343													9	17					1.12685e-05	1.16379e-05	1	1	0		T	97916956	T	T	97916956	4	4	89	1	0	0	0	0	0	1	0	0	17987	943	33	5	879	5	ZNF518A	10	97916956	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1087850	97916956	37617791	3943	57774											
ZNF518A	9849	broad.mit.edu	37	chr10	97918860	97918860	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttaaattcagaacaaaaAaaaactataattgttcagac	20	12	3	6	0	2	2	2	0	0	2	2	2	2	2	0	0	2	1	0	0	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:97918860A>C	uc001klp.2	+	6	3638	c.2781A>C	c.(2779-2781)AAA>AAC	p.K927N	ZNF518A_uc001klo.1_Missense_Mutation_p.K397N|ZNF518A_uc001klq.2_Missense_Mutation_p.K927N|ZNF518A_uc001klr.2_Missense_Mutation_p.K927N	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	927					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		CAGAACAAAAAAAAACTATAA	0.348													21	56					0	0	1	0	0		C	97918860	C	C	97918860	3	2	89	1	0	0	0	0	1	0	0	0	17987	11	1	5	2783	5	ZNF518A	10	97918860	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1904	97918860	37615887	3944	57775											
TM9SF3	56889	broad.mit.edu	37	chr10	98321841	98321841	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaacctatttcaagttttTtataggtccaaagatagtaa	16	15	5	5	0	1	1	1	0	0	1	2	1	2	1	2	1	1	2	2	1	9	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:98321841T>G	uc001kmm.3	-	4	693	c.476A>C	c.(475-477)AAA>ACA	p.K159T	TM9SF3_uc010qot.1_Missense_Mutation_p.K159T	NM_020123	NP_064508	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3 precursor	159						integral to membrane	binding				0		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		TTCAAGTTTTTTATAGGTCCA	0.308													15	24					0	0	1	0	0		G	98321841	G	G	98321841	3	3	89	1	0	0	0	0	1	0	0	0	16004	1841	64	5	1341	5	TM9SF3	10	98321841	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	402981	98321841	37212906	3945	57776											
PIK3AP1	118788	broad.mit.edu	37	chr10	98376434	98376434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgcttctctctctgtcttCgggtgatgctgtctcttagc	2	19	9	11	1	4	1	0	1	4	0	8	1	4	1	0	1	3	2	0	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:98376434C>T	uc001kmq.2	-	13	2104	c.1976G>A	c.(1975-1977)CGA>CAA	p.R659Q	PIK3AP1_uc001kmo.2_Missense_Mutation_p.R258Q|PIK3AP1_uc001kmp.2_Missense_Mutation_p.R481Q	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	659	Potential.					cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		TCTCTGTCTTCGGGTGATGCT	0.423													35	83					0	0	1	0	0		T	98376434	T	T	98376434	3	4	89	1	0	0	0	0	1	0	0	0	11927	884	31	1	461	1	PIK3AP1	10	98376434	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	54593	98376434	37158313	3946	57777											
PIK3AP1	118788	broad.mit.edu	37	chr10	98408569	98408569	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggttcttcagtccatacttCgcagcaaaatgcaacagggt	12	10	9	10	1	2	0	1	0	1	0	4	0	3	0	1	2	4	4	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:98408569C>T	uc001kmq.2	-	7	1160	c.1032G>A	c.(1030-1032)GCG>GCA	p.A344A	PIK3AP1_uc001kmp.2_Silent_p.A166A	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	344						cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		GTCCATACTTCGCAGCAAAAT	0.512													8	31					0	0	1	0	0		T	98408569	T	T	98408569	2	4	89	1	0	0	0	0	0	0	0	1	11927	871	31	1		1	PIK3AP1	10	98408569	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	32135	98408569	37126178	3947	57778											
LCOR	84458	broad.mit.edu	37	chr10	98715594	98715594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagatgaaattaatgaggtCggaggggccagatgtttctg	13	10	14	4	1	1	4	0	2	1	2	2	5	1	5	1	4	0	1	1	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:98715594C>T	uc001kms.1	+	8	1738	c.1217C>T	c.(1216-1218)TCG>TTG	p.S406L	LCOR_uc001kmr.2_Intron|C10orf12_uc009xvg.1_Intron|LCOR_uc001kmt.1_Missense_Mutation_p.S406L|LCOR_uc001kmu.1_Missense_Mutation_p.S406L	NM_032440	NP_115816	Q96JN0	LCOR_HUMAN	ligand dependent nuclear receptor corepressor	406						nucleus	DNA binding			ovary(3)	3		Colorectal(252;0.162)		Epithelial(162;4.43e-09)|all cancers(201;2.96e-07)		TTAATGAGGTCGGAGGGGCCA	0.423													19	46					0	0	1	0	0		T	98715594	T	T	98715594	3	4	89	1	0	0	0	0	1	0	0	0	8705	893	31	1	1227	1	LCOR	10	98715594	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	307025	98715594	36819153	3948	57779											
C10orf12	26148	broad.mit.edu	37	chr10	98743206	98743206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtgaatgaggtagacaacGaaaacacccagcagaaagat	18	5	10	8	1	0	5	0	2	0	3	0	6	0	5	1	1	3	2	1	1	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:98743206G>A	uc001kmv.2	+	1	2166	c.2059G>A	c.(2059-2061)GAA>AAA	p.E687K		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	687										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		GGTAGACAACGAAAACACCCA	0.502													31	68					0	0	1	0	0		A	98743206	A	A	98743206	3	1	89	1	0	0	0	0	1	0	0	0	1592	1059	37	1	2061	1	C10orf12	10	98743206	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	27612	98743206	36791541	3949	57780											
C10orf12	26148	broad.mit.edu	37	chr10	98744567	98744567	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaaccccccaaaaagacGtctttgaaagagaataaagt	18	6	7	10	1	1	3	0	1	1	2	1	4	1	3	4	0	2	0	4	0	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:98744567G>A	uc001kmv.2	+	1	3527	c.3420G>A	c.(3418-3420)ACG>ACA	p.T1140T		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	1140										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		CCAAAAAGACGTCTTTGAAAG	0.498													26	52					0	0	1	0	0		A	98744567	A	A	98744567	2	1	89	1	0	0	0	0	0	0	0	1	1592	1132	40	1		1	C10orf12	10	98744567	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1361	98744567	36790180	3950	57781											
SLIT1	6585	broad.mit.edu	37	chr10	98764578	98764578	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattgtcctctgccgtggaGacctgatgggcagtggcact	6	10	13	12	1	1	2	0	1	1	1	2	3	2	2	4	3	1	2	4	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:98764578G>T	uc001kmw.2	-	33	3834	c.3582C>A	c.(3580-3582)GTC>GTA	p.V1194V		NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	1194	Laminin G-like.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		CTGCCGTGGAGACCTGATGGG	0.592													16	34					1.5739e-10	1.71181e-10	1	1	0		T	98764578	T	T	98764578	2	4	89	1	0	0	0	0	0	0	0	1	14764	929	33	5		5	SLIT1	10	98764578	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	20011	98764578	36770169	3951	57782											
MMS19	64210	broad.mit.edu	37	chr10	99223673	99223673	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtatagctgtctggtggaaAtaccagcaactctcagggtc	10	10	12	9	0	2	0	1	0	2	0	4	1	2	1	1	4	4	3	1	4	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:99223673A>C	uc001kns.3	-	19	2079	c.1854T>G	c.(1852-1854)TAT>TAG	p.Y618*	MMS19_uc001knq.2_5'Flank|MMS19_uc009xvs.2_Nonsense_Mutation_p.Y203*|MMS19_uc009xvt.2_Nonsense_Mutation_p.Y362*|MMS19_uc001knr.2_Nonsense_Mutation_p.Y459*|MMS19_uc010qox.1_Nonsense_Mutation_p.Y596*|MMS19_uc001knt.2_Nonsense_Mutation_p.Y618*|MMS19_uc001knu.1_RNA	NM_022362	NP_071757	Q96T76	MMS19_HUMAN	MMS19 nucleotide excision repair homolog	618					chromosome segregation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|response to hormone stimulus|transcription, DNA-dependent|two-component signal transduction system (phosphorelay)	cytoplasm|holo TFIIH complex|MMXD complex	estrogen receptor binding|protein binding, bridging|receptor signaling complex scaffold activity|transcription coactivator activity				0		Colorectal(252;0.0846)		Epithelial(162;3.33e-10)|all cancers(201;2.74e-08)		TCTGGTGGAAATACCAGCAAC	0.517								Direct_reversal_of_damage|NER			OREG0020414	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	10					0	0	1	0	0		C	99223673	C	C	99223673	4	2	89	1	0	0	0	0	0	1	0	0	9690	108	4	5	1290	5	MMS19	10	99223673	Nonsense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	459095	99223673	36311074	3952	57783											
MMS19	64210	broad.mit.edu	37	chr10	99225597	99225597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagatgctgcagcagcagaGgcagtgtctccttgacgatg	10	8	14	9	1	1	3	0	1	1	2	2	5	1	3	1	1	4	5	1	1	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:99225597G>A	uc001kns.3	-	18	1946	c.1721C>T	c.(1720-1722)CCT>CTT	p.P574L	MMS19_uc009xvs.2_Missense_Mutation_p.P159L|MMS19_uc009xvt.2_Missense_Mutation_p.P318L|MMS19_uc001knr.2_Missense_Mutation_p.P415L|MMS19_uc010qox.1_Missense_Mutation_p.P552L|MMS19_uc001knt.2_Missense_Mutation_p.P574L|MMS19_uc001knu.1_RNA	NM_022362	NP_071757	Q96T76	MMS19_HUMAN	MMS19 nucleotide excision repair homolog	574					chromosome segregation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|response to hormone stimulus|transcription, DNA-dependent|two-component signal transduction system (phosphorelay)	cytoplasm|holo TFIIH complex|MMXD complex	estrogen receptor binding|protein binding, bridging|receptor signaling complex scaffold activity|transcription coactivator activity				0		Colorectal(252;0.0846)		Epithelial(162;3.33e-10)|all cancers(201;2.74e-08)		CAGCAGCAGAGGCAGTGTCTC	0.517								Direct_reversal_of_damage|NER					36	97					0	0	1	0	0		A	99225597	A	A	99225597	3	1	89	1	0	0	0	0	1	0	0	0	9690	1000	35	4	1427	4	MMS19	10	99225597	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1924	99225597	36309150	3953	57784											
CRTAC1	55118	broad.mit.edu	37	chr10	99655723	99655723	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccagcatcccgtctccgtcGaagtcggtcaccacaccccc	7	7	7	20	4	2	0	1	0	1	0	7	1	4	0	6	1	1	1	6	1	1	0	rs145632263		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:99655723G>A	uc001kou.1	-	10	1592	c.1236C>T	c.(1234-1236)TTC>TTT	p.F412F	CRTAC1_uc001kov.2_Silent_p.F401F|CRTAC1_uc001kot.1_Silent_p.F202F	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	412	FG-GAP 4; atypical.					proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		CGTCTCCGTCGAAGTCGGTCA	0.572													17	46					0	0	1	0	0		A	99655723	A	A	99655723	2	1	89	1	0	0	0	0	0	0	0	1	3899	1049	37	1		1	CRTAC1	10	99655723	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	430126	99655723	35879024	3954	57785											
C10orf28	27291	broad.mit.edu	37	chr10	99991421	99991421	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatttcatactgaagacctTctacgggttttctgcagtta	10	15	8	8	1	3	2	1	1	2	1	3	3	3	2	1	1	3	3	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:99991421T>C	uc001kow.3	+	5	2233	c.1938T>C	c.(1936-1938)CTT>CTC	p.L646L	C10orf28_uc001kox.3_Silent_p.L660L|C10orf28_uc001koy.3_Silent_p.L646L|C10orf28_uc009xvx.2_Silent_p.L646L|C10orf28_uc009xvy.2_Silent_p.L52L|C10orf28_uc001koz.3_RNA	NM_014472	NP_055287	Q4KMY3	Q4KMY3_HUMAN	growth inhibition and differentiation related	646							nucleotide binding			large_intestine(1)|skin(1)	2		Colorectal(252;0.234)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)		CTGAAGACCTTCTACGGGTTT	0.368													42	68					0	0	1	0	0		C	99991421	C	C	99991421	2	2	89	1	0	0	0	0	0	0	0	1	1604	1770	62	3		3	C10orf28	10	99991421	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	335698	99991421	35543326	3955	57786											
HPS1	3257	broad.mit.edu	37	chr10	100190928	100190928	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggagtgcacgagcaggaAggcatgcagggcctcctcgc	8	6	15	12	2	0	0	0	0	0	0	2	3	1	2	2	4	3	4	2	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:100190928A>C	uc010qpf.1	-	7	874	c.628T>G	c.(628-630)TTC>GTC	p.F210V	HPS1_uc001kpi.1_Missense_Mutation_p.F210V|HPS1_uc001kpj.1_Missense_Mutation_p.F150V|HPS1_uc001kpk.1_Intron|HPS1_uc009xwb.2_RNA|HPS1_uc010qph.1_Missense_Mutation_p.F210V|HPS1_uc001kpl.2_Missense_Mutation_p.F210V	NM_000195	NP_000186	Q92902	HPS1_HUMAN	Hermansky-Pudlak syndrome 1 protein isoform a	210					lysosome organization|response to stimulus|visual perception	cytoplasmic membrane-bounded vesicle|integral to plasma membrane|lysosome|membrane fraction|soluble fraction	protein dimerization activity			skin(1)	1		Colorectal(252;0.234)		Epithelial(162;3.87e-12)|all cancers(201;5.63e-10)		ACGAGCAGGAAGGCATGCAGG	0.627									Hermansky-Pudlak_syndrome				6	24					0	0	1	0	0		C	100190928	C	C	100190928	3	2	89	1	0	0	0	0	1	0	0	0	7355	72	3	5	1568	5	HPS1	10	100190928	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	199507	100190928	35343819	3956	57787											
SLC25A28	81894	broad.mit.edu	37	chr10	101373638	101373638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagggcctccaacacattgCgatagcgggcagctgggtca	10	6	14	11	2	1	1	1	0	0	1	2	2	2	1	2	3	4	2	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:101373638C>T	uc001kpx.2	-	2	464	c.335G>A	c.(334-336)CGC>CAC	p.R112H	SLC25A28_uc001kpy.2_5'UTR|SLC25A28_uc009xwk.1_Missense_Mutation_p.R112H	NM_031212	NP_112489	Q96A46	MFRN2_HUMAN	solute carrier family 25, member 28	112	Solcar 1.				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Colorectal(252;0.234)		Epithelial(162;2.57e-10)|all cancers(201;2.01e-08)		CAACACATTGCGATAGCGGGC	0.587													8	24					0	0	1	0	0		T	101373638	T	T	101373638	3	4	89	1	0	0	0	0	1	0	0	0	14516	768	27	1	771	1	SLC25A28	10	101373638	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1182710	101373638	34161109	3957	57788											
DNMBP	23268	broad.mit.edu	37	chr10	101716155	101716155	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcagatgaccgaggggaGaagtgggtgcttcagaaata	14	7	15	5	1	2	4	2	1	0	3	2	6	2	4	1	3	1	1	1	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:101716155G>T	uc001kqj.2	-	4	1168	c.1076C>A	c.(1075-1077)TCT>TAT	p.S359Y	NCRNA00093_uc001kqk.1_Intron	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	359					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		ACCGAGGGGAGAAGTGGGTGC	0.532													35	52					7.11191e-15	8.05931e-15	1	1	0		T	101716155	T	T	101716155	3	4	89	1	0	0	0	0	1	0	0	0	4680	942	33	5	3713	5	DNMBP	10	101716155	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	342517	101716155	33818592	3958	57789											
FAM178A	55719	broad.mit.edu	37	chr10	102676415	102676415	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggacagagcagtttgaaagGaaactatcctcaccaaaaga	17	6	10	8	0	1	3	1	1	0	2	2	5	2	5	2	2	2	2	2	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:102676415G>A	uc001krt.3	+	3	815	c.273G>A	c.(271-273)AGG>AGA	p.R91R	FAM178A_uc001krr.1_Silent_p.R91R|FAM178A_uc001krs.2_Silent_p.R91R|FAM178A_uc001kru.1_Silent_p.R27R	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	91											0						AGTTTGAAAGGAAACTATCCT	0.393													14	47					0	0	1	0	0		A	102676415	A	A	102676415	2	1	89	1	0	0	0	0	0	0	0	1	5514	1165	41	4		4	FAM178A	10	102676415	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	960260	102676415	32858332	3959	57790											
FAM178A	55719	broad.mit.edu	37	chr10	102698458	102698458	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatctttgtttcccctggaGaatcttcagccagactttaa	10	14	7	10	0	3	3	1	0	2	3	4	4	4	3	3	1	1	1	3	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:102698458G>T	uc001krt.3	+	11	3161	c.2619G>T	c.(2617-2619)GAG>GAT	p.E873D	FAM178A_uc001krs.2_Missense_Mutation_p.E873D	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	873											0						TTCCCCTGGAGAATCTTCAGC	0.363													44	119					8.48111e-28	1.03021e-27	1	1	0		T	102698458	T	T	102698458	3	4	89	1	0	0	0	0	1	0	0	0	5514	933	33	5	2661	5	FAM178A	10	102698458	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	22043	102698458	32836289	3960	57791											
BTRC	8945	broad.mit.edu	37	chr10	103294454	103294454	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaggtgaaatgctaaacacGttgattcaccattgtgaagc	14	10	9	8	1	1	3	1	3	0	0	1	3	1	3	1	1	3	2	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:103294454G>A	uc001kta.2	+	10	1247	c.1134G>A	c.(1132-1134)ACG>ACA	p.T378T	BTRC_uc001ktb.2_Silent_p.T342T|BTRC_uc001ktc.2_Silent_p.T352T	NM_033637	NP_378663	Q9Y297	FBW1A_HUMAN	beta-transducin repeat containing protein	378	WD 2.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|positive regulation of proteolysis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|viral reproduction|Wnt receptor signaling pathway	cytosol|nucleus|SCF ubiquitin ligase complex				ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;1.05e-08)|all cancers(201;6.59e-07)		TGCTAAACACGTTGATTCACC	0.413													14	164					0	0	1	0	0		A	103294454	A	A	103294454	2	1	89	1	0	0	0	0	0	0	0	1	1572	1132	40	1		1	BTRC	10	103294454	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	595996	103294454	32240293	3961	57792											
POLL	27343	broad.mit.edu	37	chr10	103340084	103340084	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtgagtgatgagcacgtcGacatcaccacaggtcgcctt	9	8	13	11	3	1	3	1	3	0	0	3	4	1	3	2	2	1	1	2	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:103340084G>A	uc001ktg.1	-	7	2050	c.1284C>T	c.(1282-1284)GTC>GTT	p.V428V	DPCD_uc010qpz.1_Intron|POLL_uc001ktd.1_Silent_p.V101V|POLL_uc001kte.1_Silent_p.V120V|POLL_uc001kth.1_Silent_p.V153V|POLL_uc001kti.1_Silent_p.V428V|POLL_uc001ktj.1_Silent_p.V428V|POLL_uc001ktf.2_Silent_p.V336V|POLL_uc001ktk.1_Silent_p.V167V|POLL_uc010qqa.1_Silent_p.V167V|POLL_uc010qqb.1_RNA|POLL_uc001ktm.2_Silent_p.V428V|POLL_uc001ktl.2_Silent_p.V340V|POLL_uc010qqc.1_Silent_p.V120V	NM_013274	NP_037406	Q9UGP5	DPOLL_HUMAN	DNA-directed DNA polymerase lambda	428	Involved in primer binding (By similarity).				DNA replication|nucleotide-excision repair|somatic hypermutation of immunoglobulin genes	nucleus	DNA binding|DNA-directed DNA polymerase activity|lyase activity|metal ion binding				0		Colorectal(252;0.234)		Epithelial(162;1.55e-08)|all cancers(201;6.64e-07)		TGAGCACGTCGACATCACCAC	0.582								DNA_polymerases_(catalytic_subunits)					48	71					0	0	1	0	0		A	103340084	A	A	103340084	2	1	89	1	0	0	0	0	0	0	0	1	12224	1045	37	1		1	POLL	10	103340084	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	45630	103340084	32194663	3962	57793											
HPS6	79803	broad.mit.edu	37	chr10	103826086	103826086	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcctgctgttgcttgacttCgggggcactgtgagcctatt	4	13	14	10	1	0	2	0	2	0	0	1	2	0	2	2	3	3	4	2	3	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:103826086C>T	uc001kuj.2	+	1	940	c.855C>T	c.(853-855)TTC>TTT	p.F285F		NM_024747	NP_079023	Q86YV9	HPS6_HUMAN	Hermansky-Pudlak syndrome-6	285						cytosol|early endosome membrane|endoplasmic reticulum|microsome					0		Colorectal(252;0.122)		Epithelial(162;5.93e-08)|all cancers(201;1.03e-06)		TGCTTGACTTCGGGGGCACTG	0.677									Hermansky-Pudlak_syndrome				34	50					0	0	1	0	0		T	103826086	T	T	103826086	2	4	89	1	0	0	0	0	0	0	0	1	7359	883	31	1		1	HPS6	10	103826086	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	486002	103826086	31708661	3963	57794											
PSD	5662	broad.mit.edu	37	chr10	104164427	104164427	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggaaggggggcgcagaGaacatagcggctactacatt	11	6	16	8	2	0	1	0	0	0	1	0	3	0	2	0	5	4	3	0	5	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:104164427G>T	uc001kvg.1	-	15	3140	c.2613C>A	c.(2611-2613)TTC>TTA	p.F871L	PSD_uc001kve.1_Missense_Mutation_p.F79L|PSD_uc001kvf.1_Missense_Mutation_p.F240L|PSD_uc001kvh.1_Missense_Mutation_p.F492L|PSD_uc009xxd.1_Missense_Mutation_p.F871L	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	871					regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		GGGGCGCAGAGAACATAGCGG	0.617													60	129					8.33888e-18	9.69929e-18	1	1	0		T	104164427	T	T	104164427	3	4	89	1	0	0	0	0	1	0	0	0	12668	933	33	5	473	5	PSD	10	104164427	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	338341	104164427	31370320	3964	57795											
SUFU	51684	broad.mit.edu	37	chr10	104268934	104268934	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttttttgcaggttgggtgGcccagaccccttggactatg	5	14	13	9	0	0	1	0	0	0	1	0	2	0	2	3	4	1	3	3	4	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:104268934G>T	uc001kvy.1	+	2	337	c.191G>T	c.(190-192)GGC>GTC	p.G64V	SUFU_uc001kvw.1_Missense_Mutation_p.G64V|SUFU_uc001kvx.2_Missense_Mutation_p.G64V	NM_016169	NP_057253	Q9UMX1	SUFU_HUMAN	suppressor of fused	64					negative regulation of transcription from RNA polymerase II promoter|proteolysis|skeletal system development	cytoplasm|nucleus	identical protein binding|protein binding|signal transducer activity|transcription corepressor activity|transcription factor binding			central_nervous_system(4)|skin(2)|breast(1)	7		Colorectal(252;0.207)		Epithelial(162;1.36e-08)|all cancers(201;3.81e-07)|BRCA - Breast invasive adenocarcinoma(275;0.242)		AGGTTGGGTGGCCCAGACCCC	0.318			D|F|S		medulloblastoma	medulloblastoma			Medulloblastoma_associated_with_Germline_SUFU_Mutation				41	67					6.48837e-15	7.35576e-15	1	1	0		T	104268934	T	T	104268934	3	4	89	1	0	0	0	0	1	0	0	0	15393	1203	42	5	197	5	SUFU	10	104268934	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	104507	104268934	31265813	3965	57796											
C10orf26	54838	broad.mit.edu	37	chr10	104569765	104569765	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caacatgaaatcaacctgatCgcttaccgagaagcccacaa	16	6	6	13	2	1	3	1	2	0	1	2	4	1	3	3	0	4	1	3	0	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:104569765C>T	uc001kwe.3	+	3	506	c.246C>T	c.(244-246)ATC>ATT	p.I82I	C10orf26_uc001kwf.3_Silent_p.I103I|C10orf26_uc009xxg.1_RNA	NM_017787	NP_060257	Q9NX94	OPA1L_HUMAN	hypothetical protein LOC54838 isoform 2	82						integral to membrane				central_nervous_system(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;6.14e-09)|all cancers(201;1.66e-07)|BRCA - Breast invasive adenocarcinoma(275;0.224)		TCAACCTGATCGCTTACCGAG	0.567													40	119					0	0	1	0	0		T	104569765	T	T	104569765	2	4	89	1	0	0	0	0	0	0	0	1	1602	874	31	1		1	C10orf26	10	104569765	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	300831	104569765	30964982	3966	57797											
NT5C2	22978	broad.mit.edu	37	chr10	104852955	104852955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggaatcaccaaaaaagttCgccacccttgccgtttcttt	11	11	6	13	2	2	0	1	0	1	0	3	1	2	1	4	1	1	2	4	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:104852955C>T	uc001kwo.2	-	15	1286	c.1100G>A	c.(1099-1101)CGA>CAA	p.R367Q	NT5C2_uc010qqp.1_Missense_Mutation_p.R338Q|NT5C2_uc001kwq.2_Missense_Mutation_p.R367Q|NT5C2_uc001kwp.2_Missense_Mutation_p.R214Q	NM_012229	NP_036361	P49902	5NTC_HUMAN	5'-nucleotidase, cytosolic II	367					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|metal ion binding|nucleotide binding|protein binding				0		all_hematologic(284;0.176)|Colorectal(252;0.178)		Epithelial(162;1.33e-08)|all cancers(201;1.04e-07)|BRCA - Breast invasive adenocarcinoma(275;0.159)	Adenosine triphosphate(DB00171)|Ribavirin(DB00811)	CAAAAAAGTTCGCCACCCTTG	0.393													32	86					0	0	1	0	0		T	104852955	T	T	104852955	3	4	89	1	0	0	0	0	1	0	0	0	10706	884	31	1	605	1	NT5C2	10	104852955	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	283190	104852955	30681792	3967	57798											
NT5C2	22978	broad.mit.edu	37	chr10	104854130	104854130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccacctgacgcagtactgtgCcttctccaaaaaagagtggt	11	9	9	12	1	1	2	0	1	1	1	2	2	1	2	4	1	2	2	4	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:104854130C>T	uc001kwo.2	-	13	1082	c.896G>A	c.(895-897)GGC>GAC	p.G299D	NT5C2_uc010qqp.1_Missense_Mutation_p.G270D|NT5C2_uc001kwq.2_Missense_Mutation_p.G299D|NT5C2_uc001kwp.2_Missense_Mutation_p.G146D	NM_012229	NP_036361	P49902	5NTC_HUMAN	5'-nucleotidase, cytosolic II	299					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|metal ion binding|nucleotide binding|protein binding				0		all_hematologic(284;0.176)|Colorectal(252;0.178)		Epithelial(162;1.33e-08)|all cancers(201;1.04e-07)|BRCA - Breast invasive adenocarcinoma(275;0.159)	Adenosine triphosphate(DB00171)|Ribavirin(DB00811)	CAGTACTGTGCCTTCTCCAAA	0.478													7	30					0	0	1	0	0		T	104854130	T	T	104854130	3	4	89	1	0	0	0	0	1	0	0	0	10706	739	26	2	817	2	NT5C2	10	104854130	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1175	104854130	30680617	3968	57799											
LOC729020	729020	broad.mit.edu	37	chr10	105005926	105005926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgtggtagaaagccttcGaaagcagctaggccaggacc	11	6	12	12	1	0	1	0	0	0	1	1	3	0	2	4	3	3	3	4	3	4	3	rs61746133	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:105005926G>A	uc009xxi.2	+	1	283	c.173G>A	c.(172-174)CGA>CAA	p.R58Q	uc001kwr.2_Intron	NM_001143909	NP_001137381	Q2QD12	Q2QD12_HUMAN	rcRPE protein	58					carbohydrate metabolic process		ribulose-phosphate 3-epimerase activity				0						GAAAGCCTTCGAAAGCAGCTA	0.498													75	183					0	0	1	0	0		A	105005926	A	A	105005926	3	1	89	1	0	0	0	0	1	0	0	0	8906	1058	37	1	175	1	LOC729020	10	105005926	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	151796	105005926	30528821	3969	57800											
PDCD11	22984	broad.mit.edu	37	chr10	105172967	105172967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctggacgcccactcacccGactctcttgccagaaccttg	7	8	8	18	2	2	1	1	0	1	1	3	3	2	2	5	1	2	0	5	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:105172967G>A	uc001kwy.1	+	9	1160	c.1073G>A	c.(1072-1074)CGA>CAA	p.R358Q		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	358					mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		CCACTCACCCGACTCTCTTGC	0.572													30	69					0	0	1	0	0		A	105172967	A	A	105172967	3	1	89	1	0	0	0	0	1	0	0	0	11636	1058	37	1	1103	1	PDCD11	10	105172967	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	167041	105172967	30361780	3970	57801											
PDCD11	22984	broad.mit.edu	37	chr10	105198554	105198554	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtccatccagccacacggTgtgttctttcggtgagtgag	6	11	14	10	2	1	2	0	2	1	0	4	2	3	2	3	3	1	1	3	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:105198554T>C	uc001kwy.1	+	27	4101	c.4014T>C	c.(4012-4014)GGT>GGC	p.G1338G		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1338	S1 motif 12.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		AGCCACACGGTGTGTTCTTTC	0.547													28	63					0	0	1	0	0		C	105198554	C	C	105198554	2	2	89	1	0	0	0	0	0	0	0	1	11636	1683	59	3		3	PDCD11	10	105198554	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	25587	105198554	30336193	3971	57802											
PDCD11	22984	broad.mit.edu	37	chr10	105205159	105205159	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttgagcgggtcattcaTctgagcttggcccccaagag	8	11	11	11	1	4	3	2	2	2	1	4	3	4	3	2	2	2	1	2	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:105205159T>C	uc001kwy.1	+	36	5556	c.5469T>C	c.(5467-5469)CAT>CAC	p.H1823H		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1823	HAT 4.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		GGGTCATTCATCTGAGCTTGG	0.537													10	128					0	0	1	0	0		C	105205159	C	C	105205159	2	2	89	1	0	0	0	0	0	0	0	1	11636	1432	50	3		3	PDCD11	10	105205159	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6605	105205159	30329588	3972	57803											
C10orf79	80217	broad.mit.edu	37	chr10	105900722	105900722	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaagaagaatttggattgTcaaattcaactggaatctca	15	14	7	5	0	3	2	3	0	1	2	4	4	3	4	0	2	1	0	0	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:105900722T>C	uc001kxw.2	-	34	4425	c.4309A>G	c.(4309-4311)ACA>GCA	p.T1437A	C10orf79_uc009xxq.2_Missense_Mutation_p.T716A	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1437											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		ATTTGGATTGTCAAATTCAAC	0.318													10	31					0	0	1	0	0		C	105900722	C	C	105900722	3	2	89	1	0	0	0	0	1	0	0	0	1621	1667	58	3	708	3	C10orf79	10	105900722	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	695563	105900722	29634025	3973	57804											
C10orf79	80217	broad.mit.edu	37	chr10	105921768	105921768	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaactcctcccatcatgTccatcagagctcggagtctt	9	10	7	15	1	3	2	2	0	1	2	7	3	6	3	4	1	2	1	4	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:105921768T>C	uc001kxw.2	-	26	3481	c.3365A>G	c.(3364-3366)GAC>GGC	p.D1122G	C10orf79_uc009xxq.2_Missense_Mutation_p.D430G	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1122											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TCCCATCATGTCCATCAGAGC	0.473													125	248					0	0	1	0	0		C	105921768	C	C	105921768	3	2	89	1	0	0	0	0	1	0	0	0	1621	1667	58	3	1684	3	C10orf79	10	105921768	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	21046	105921768	29612979	3974	57805											
C10orf79	80217	broad.mit.edu	37	chr10	105944863	105944863	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctcattgactgaatcccAtgaccctggtgagaatgact	11	12	8	10	0	1	5	1	5	1	1	3	6	2	5	2	1	0	0	2	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:105944863A>G	uc001kxw.2	-	16	2168	c.2052T>C	c.(2050-2052)CAT>CAC	p.H684H	C10orf79_uc009xxq.2_5'UTR|C10orf79_uc001kxx.3_Silent_p.H685H	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	684	WD 9.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		ACTGAATCCCATGACCCTGGT	0.403													40	68					0	0	1	0	0		G	105944863	G	G	105944863	2	3	89	1	0	0	0	0	0	0	0	1	1621	214	8	3		3	C10orf79	10	105944863	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	23095	105944863	29589884	3975	57806											
CCDC147	159686	broad.mit.edu	37	chr10	106128305	106128305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaaaaccaacagaaggCgttggagctcaaagtaaaca	18	4	10	9	1	1	1	1	0	0	1	1	3	1	3	2	3	4	3	2	3	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:106128305C>T	uc001kyh.2	+	6	1051	c.917C>T	c.(916-918)GCG>GTG	p.A306V		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	306	Potential.									ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		CAACAGAAGGCGTTGGAGCTC	0.463													17	54					0	0	1	0	0		T	106128305	T	T	106128305	3	4	89	1	0	0	0	0	1	0	0	0	2784	768	27	1	939	1	CCDC147	10	106128305	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	183442	106128305	29406442	3976	57807											
CCDC147	159686	broad.mit.edu	37	chr10	106160654	106160654	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtatggctaatgttgaaGaactcaggtaatagattata	15	12	11	3	0	1	3	1	1	0	2	1	4	1	4	0	3	1	4	0	3	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:106160654G>T	uc001kyh.2	+	13	2166	c.2032G>T	c.(2032-2034)GAA>TAA	p.E678*		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	678	Potential.									ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		TAATGTTGAAGAACTCAGGTA	0.468													27	35					4.87955e-14	5.4818e-14	1	1	0		T	106160654	T	T	106160654	4	4	89	1	0	0	0	0	0	1	0	0	2784	943	33	5	2082	5	CCDC147	10	106160654	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	32349	106160654	29374093	3977	57808											
CCDC147	159686	broad.mit.edu	37	chr10	106209871	106209871	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatgaagtacagagcaaaGaatataaatatgaggtagag	19	9	11	2	0	0	5	0	2	0	3	0	5	0	5	0	1	2	4	0	1	10	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:106209871G>T	uc001kyh.2	+	17	2553	c.2419G>T	c.(2419-2421)GAA>TAA	p.E807*		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	807	Potential.									ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		ACAGAGCAAAGAATATAAATA	0.313													44	92					2.35958e-20	2.78446e-20	1	1	0		T	106209871	T	T	106209871	4	4	89	1	0	0	0	0	0	1	0	0	2784	943	33	5	2485	5	CCDC147	10	106209871	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	49217	106209871	29324876	3978	57809											
SORCS3	22986	broad.mit.edu	37	chr10	106737154	106737155	+	Missense_Mutation	DNP	CG	TA	TA																															gatcagctcagacgaaggggCgacctatcagaagtatcggc																								rs139171852		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:106737154_106737155CG>TA	uc001kyi.1	+	4	1084_1085	c.857_858CG>TA	c.(856-858)GCG>GTA	p.A286V		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	286	BNR 2.|Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GACGAAGGGGCGACCTATCAGA	0.47													15	43					0	0	1	0	0		TA	106737155	TA	TA	106737154	3	4	89	1	0	0	0	0	1	0	0	0	14957	768	27	1	871	1	SORCS3	10	106737154	Missense_Mutation	DNP	CG	TCGA-BR-8680-01A-11D-2394-08	527283	106737154	28797593	3979	57810											
SORCS3	22986	broad.mit.edu	37	chr10	106899200	106899200	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacgtgtcttatcgaagaGaggcctttgctcagataaag	12	11	10	8	2	2	2	1	0	1	2	3	4	2	2	1	1	2	1	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:106899200G>T	uc001kyi.1	+	8	1485	c.1258G>T	c.(1258-1260)GAG>TAG	p.E420*		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	420	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		TTATCGAAGAGAGGCCTTTGC	0.507													34	87					3.11337e-16	3.5706e-16	1	1	0		T	106899200	T	T	106899200	4	4	89	1	0	0	0	0	0	1	0	0	14957	943	33	5	1288	5	SORCS3	10	106899200	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	162046	106899200	28635547	3980	57811											
SMNDC1	10285	broad.mit.edu	37	chr10	112058499	112058499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgtctgaacttgcaagcGtctcagaaggttgagttgac	11	11	11	8	1	2	4	1	3	2	1	3	4	2	4	0	1	4	3	0	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:112058499G>A	uc001kzc.3	-	3	372	c.170C>T	c.(169-171)ACG>ATG	p.T57M	SMNDC1_uc001kzb.2_Translation_Start_Site	NM_005871	NP_005862	O75940	SPF30_HUMAN	survival motor neuron domain containing 1	57					apoptosis|induction of apoptosis|mRNA processing|RNA splicing, via transesterification reactions	Cajal body|cytoplasm|nuclear speck|spliceosomal complex	protein binding|RNA binding			skin(1)	1		Breast(234;0.174)		Epithelial(162;6.86e-05)|all cancers(201;0.00149)|BRCA - Breast invasive adenocarcinoma(275;0.119)		ACTTGCAAGCGTCTCAGAAGG	0.368													26	36					0	0	1	0	0		A	112058499	A	A	112058499	3	1	89	1	0	0	0	0	1	0	0	0	14824	1145	40	1	562	1	SMNDC1	10	112058499	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5159299	112058499	23476248	3981	57812											
TECTB	6975	broad.mit.edu	37	chr10	114053507	114053507	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccaaagaatgccaagttCtccatcaagaaagaagctcc	15	8	6	12	0	2	3	1	0	1	3	5	3	4	3	4	0	2	2	4	0	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:114053507C>A	uc001kzr.1	+	5	495	c.495C>A	c.(493-495)TTC>TTA	p.F165L		NM_058222	NP_478129	Q96PL2	TECTB_HUMAN	tectorin beta precursor	165	ZP.					anchored to membrane|plasma membrane|proteinaceous extracellular matrix					0		Colorectal(252;0.198)		Epithelial(162;0.0143)|all cancers(201;0.0242)		ATGCCAAGTTCTCCATCAAGA	0.478													21	63					2.89027e-11	3.162e-11	1	1	0		A	114053507	A	A	114053507	3	1	89	1	0	0	0	0	1	0	0	0	15773	912	32	5	513	5	TECTB	10	114053507	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1995008	114053507	21481240	3982	57813											
ACSL5	51703	broad.mit.edu	37	chr10	114186031	114186031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagtcatccttagtaggaGtggtggttcctgacacagat	10	12	11	8	0	1	2	1	1	0	1	3	3	3	3	2	3	0	2	2	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:114186031G>A	uc001kzs.2	+	19	1894	c.1753G>A	c.(1753-1755)GTG>ATG	p.V585M	ACSL5_uc001kzt.2_Missense_Mutation_p.V585M|ACSL5_uc001kzu.2_Missense_Mutation_p.V641M|ACSL5_uc009xxz.2_Missense_Mutation_p.V585M|ACSL5_uc010qrj.1_Missense_Mutation_p.V367M	NM_203379	NP_976313	Q9ULC5	ACSL5_HUMAN	acyl-CoA synthetase long-chain family member 5	585	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(2)|skin(1)	3		Colorectal(252;0.117)|Breast(234;0.222)		Epithelial(162;0.0343)|all cancers(201;0.137)		CTTAGTAGGAGTGGTGGTTCC	0.448													27	61					0	0	1	0	0		A	114186031	A	A	114186031	3	1	89	1	0	0	0	0	1	0	0	0	180	1029	36	4	1995	4	ACSL5	10	114186031	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	132524	114186031	21348716	3983	57814											
ACSL5	51703	broad.mit.edu	37	chr10	114186112	114186112	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttgaggaactgtgccaaAaccaagtaagtcttgcctag	12	10	9	10	0	1	1	0	1	1	0	1	2	1	2	4	1	4	1	4	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:114186112A>C	uc001kzs.2	+	19	1975	c.1834A>C	c.(1834-1836)AAC>CAC	p.N612H	ACSL5_uc001kzt.2_Missense_Mutation_p.N612H|ACSL5_uc001kzu.2_Missense_Mutation_p.N668H|ACSL5_uc009xxz.2_Missense_Mutation_p.N612H|ACSL5_uc010qrj.1_Missense_Mutation_p.N394H	NM_203379	NP_976313	Q9ULC5	ACSL5_HUMAN	acyl-CoA synthetase long-chain family member 5	612	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(2)|skin(1)	3		Colorectal(252;0.117)|Breast(234;0.222)		Epithelial(162;0.0343)|all cancers(201;0.137)		ACTGTGCCAAAACCAAGTAAG	0.517													26	44					0	0	1	0	0		C	114186112	C	C	114186112	3	2	89	1	0	0	0	0	1	0	0	0	180	14	1	5	2076	5	ACSL5	10	114186112	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	81	114186112	21348635	3984	57815											
VTI1A	143187	broad.mit.edu	37	chr10	114224397	114224397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagctacaaacaagaaatggGaaaactcgaaacagattttg	20	7	8	6	1	0	2	0	0	0	2	1	4	0	3	0	1	5	1	0	1	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:114224397G>A	uc001kzy.2	+	3	621	c.245G>A	c.(244-246)GGA>GAA	p.G82E	VTI1A_uc001kzz.2_Missense_Mutation_p.G82E	NM_145206	NP_660207	Q96AJ9	VTI1A_HUMAN	SNARE Vti1a-beta protein	82	Potential.				intracellular protein transport|retrograde transport, endosome to Golgi	SNARE complex	protein transporter activity|SNAP receptor activity			ovary(1)	1		Colorectal(252;0.0314)|Breast(234;0.183)		Epithelial(162;0.0126)|all cancers(201;0.0487)		CAAGAAATGGGAAAACTCGAA	0.393													18	28					0	0	1	0	0		A	114224397	A	A	114224397	3	1	89	1	0	0	0	0	1	0	0	0	17261	1174	41	4	255	4	VTI1A	10	114224397	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	38285	114224397	21310350	3985	57816											
TCF7L2	6934	broad.mit.edu	37	chr10	114920412	114920412	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaagtgtcgggcactgttCgggcttgaccgacagacttt	9	10	13	9	3	0	3	0	1	0	2	2	4	0	3	1	2	0	3	1	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:114920412C>T	uc001lae.3	+	13	1860	c.1353C>T	c.(1351-1353)TTC>TTT	p.F451F	TCF7L2_uc001lac.3_Intron|TCF7L2_uc010qrk.1_Intron|TCF7L2_uc010qrl.1_Silent_p.F428F|TCF7L2_uc010qrm.1_Intron|TCF7L2_uc010qrn.1_Intron|TCF7L2_uc001lad.3_Intron|TCF7L2_uc001lag.3_Intron|TCF7L2_uc001laf.3_Intron|TCF7L2_uc010qro.1_Intron|TCF7L2_uc001lah.2_Missense_Mutation_p.R475W|TCF7L2_uc010qrp.1_Intron|TCF7L2_uc010qrq.1_Intron|TCF7L2_uc010qrr.1_Silent_p.F383F|TCF7L2_uc010qrs.1_Intron|TCF7L2_uc010qrt.1_Silent_p.F339F|TCF7L2_uc010qru.1_Intron|TCF7L2_uc010qrv.1_Intron|TCF7L2_uc010qrw.1_Intron|TCF7L2_uc010qrx.1_Intron	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	468	Promoter-specific activation domain.				anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		GGGCACTGTTCGGGCTTGACC	0.458													5	2					0	0	1	0	0		T	114920412	T	T	114920412	2	4	89	1	0	0	0	0	0	0	0	1	15723	883	31	1		1	TCF7L2	10	114920412	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	696015	114920412	20614335	3986	57817											
TCF7L2	6934	broad.mit.edu	37	chr10	114925333	114925333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagaaaaaaaaagtgcgttCgctacatacaaggtgaaggc	17	6	12	6	2	0	2	0	1	0	1	1	3	0	2	0	3	3	2	0	3	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:114925333C>T	uc001lae.3	+	14	1918	c.1411C>T	c.(1411-1413)CGC>TGC	p.R471C	TCF7L2_uc001lac.3_Missense_Mutation_p.R465C|TCF7L2_uc010qrk.1_Silent_p.F440F|TCF7L2_uc010qrl.1_Missense_Mutation_p.R448C|TCF7L2_uc010qrm.1_Silent_p.F446F|TCF7L2_uc010qrn.1_Silent_p.F389F|TCF7L2_uc001lad.3_Silent_p.F436F|TCF7L2_uc001lag.3_Silent_p.F470F|TCF7L2_uc001laf.3_Missense_Mutation_p.R448C|TCF7L2_uc010qro.1_Silent_p.F423F|TCF7L2_uc001lah.2_3'UTR|TCF7L2_uc010qrp.1_3'UTR|TCF7L2_uc010qrq.1_3'UTR|TCF7L2_uc010qrr.1_Missense_Mutation_p.R403C|TCF7L2_uc010qrs.1_Missense_Mutation_p.R359C|TCF7L2_uc010qrt.1_Missense_Mutation_p.R359C|TCF7L2_uc010qru.1_Silent_p.F362F|TCF7L2_uc010qrv.1_3'UTR|TCF7L2_uc010qrw.1_3'UTR|TCF7L2_uc010qrx.1_3'UTR	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	488	Promoter-specific activation domain.				anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding	p.R465C(1)		large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		AAAGTGCGTTCGCTACATACA	0.532													59	132					0	0	1	0	0		T	114925333	T	T	114925333	3	4	89	1	0	0	0	0	1	0	0	0	15723	884	31	1	1742	1	TCF7L2	10	114925333	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4921	114925333	20609414	3987	57818											
NRAP	4892	broad.mit.edu	37	chr10	115380377	115380377	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacctcgctaatgagttCtcctgccttcttcgcctgct	4	15	6	16	2	3	1	1	1	3	0	7	1	3	1	4	0	2	3	4	0	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:115380377C>A	uc001laj.2	-	25	3024	c.2860G>T	c.(2860-2862)GAA>TAA	p.E954*	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Nonsense_Mutation_p.E919*|NRAP_uc001lal.3_Nonsense_Mutation_p.E954*	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	954	Nebulin 24.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		CTAATGAGTTCTCCTGCCTTC	0.493													44	99					2.95478e-19	3.46784e-19	1	1	0		A	115380377	A	A	115380377	4	1	89	1	0	0	0	0	0	1	0	0	10657	922	32	5	2404	5	NRAP	10	115380377	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	455044	115380377	20154370	3988	57819											
NHLRC2	374354	broad.mit.edu	37	chr10	115661480	115661480	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagtggaaatgaagagaatCgaaacaatgcctatcctcac	17	7	9	8	1	1	2	1	1	0	1	3	6	2	3	2	1	2	0	2	1	7	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:115661480C>T	uc001lax.1	+	7	1407	c.1195C>T	c.(1195-1197)CGA>TGA	p.R399*	NHLRC2_uc001lay.1_RNA	NM_198514	NP_940916	Q8NBF2	NHLC2_HUMAN	NHL repeat containing 2	399					cell redox homeostasis					ovary(1)	1				Epithelial(162;0.017)|all cancers(201;0.0187)		TGAAGAGAATCGAAACAATGC	0.448													58	112					0	0	1	0	0		T	115661480	T	T	115661480	4	4	89	1	0	0	0	0	0	1	0	0	10425	876	31	1	1221	1	NHLRC2	10	115661480	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	281103	115661480	19873267	3989	57820											
NHLRC2	374354	broad.mit.edu	37	chr10	115662299	115662299	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaacacccccttggagtaAcatgggacaaaaaaaggaat	17	7	8	9	0	1	0	1	0	0	0	1	3	1	3	2	3	2	1	2	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:115662299A>G	uc001lax.1	+	8	1653	c.1441A>G	c.(1441-1443)ACA>GCA	p.T481A	NHLRC2_uc001lay.1_RNA	NM_198514	NP_940916	Q8NBF2	NHLC2_HUMAN	NHL repeat containing 2	481	NHL 5.				cell redox homeostasis					ovary(1)	1				Epithelial(162;0.017)|all cancers(201;0.0187)		CCTTGGAGTAACATGGGACAA	0.343													44	91					0	0	1	0	0		G	115662299	G	G	115662299	3	3	89	1	0	0	0	0	1	0	0	0	10425	43	2	3	1471	3	NHLRC2	10	115662299	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	819	115662299	19872448	3990	57821											
C10orf118	55088	broad.mit.edu	37	chr10	115887281	115887281	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcctccataaattctatctTttcatttttccgggcatgtg	7	18	6	10	1	3	0	1	0	2	0	6	0	6	0	3	1	0	1	3	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:115887281T>G	uc001lbb.1	-	14	2984	c.2332A>C	c.(2332-2334)AAG>CAG	p.K778Q	C10orf118_uc009xyd.1_Missense_Mutation_p.K376Q|C10orf118_uc001lbc.1_Missense_Mutation_p.K778Q|C10orf118_uc009xye.1_Intron	NM_018017	NP_060487	Q7Z3E2	CJ118_HUMAN	CTCL tumor antigen L14-2	778	Potential.									ovary(2)	2		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0161)|all cancers(201;0.0397)		AATTCTATCTTTTCATTTTTC	0.378													34	61					0	0	1	0	0		G	115887281	G	G	115887281	3	3	89	1	0	0	0	0	1	0	0	0	1590	1850	64	5	376	5	C10orf118	10	115887281	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	224982	115887281	19647466	3991	57822											
TRUB1	142940	broad.mit.edu	37	chr10	116734914	116734914	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccaatgtgctagagctgAcccgaaccaaacagggacca	13	5	11	12	1	0	2	0	1	0	1	0	4	0	3	4	1	5	2	4	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:116734914A>G	uc001lcd.2	+	8	887	c.826A>G	c.(826-828)ACC>GCC	p.T276A	TRUB1_uc010qsl.1_Missense_Mutation_p.T178A	NM_139169	NP_631908	Q8WWH5	TRUB1_HUMAN	TruB pseudouridine (psi) synthase homolog 1	276					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding				0		Colorectal(252;0.09)|Breast(234;0.174)|Lung NSC(174;0.245)		Epithelial(162;0.00879)|all cancers(201;0.0243)		GCTAGAGCTGACCCGAACCAA	0.408													21	167					0	0	1	0	0		G	116734914	G	G	116734914	3	3	89	1	0	0	0	0	1	0	0	0	16628	275	10	3	856	3	TRUB1	10	116734914	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	847633	116734914	18799833	3992	57823											
ATRNL1	26033	broad.mit.edu	37	chr10	117024726	117024726	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatagagatgtcaacagaTttggacactctgcagtagtc	12	12	9	8	0	3	2	2	0	1	2	4	4	3	3	0	1	2	2	0	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:117024726T>G	uc001lcg.2	+	11	2130	c.1744T>G	c.(1744-1746)TTT>GTT	p.F582V		NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	582	Kelch 5.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		TGTCAACAGATTTGGACACTC	0.289													42	104					0	0	1	0	0		G	117024726	G	G	117024726	3	3	89	1	0	0	0	0	1	0	0	0	1208	1493	52	5	1786	5	ATRNL1	10	117024726	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	289812	117024726	18510021	3993	57824											
GFRA1	2674	broad.mit.edu	37	chr10	117849401	117849401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggctgccacacggtcacatCggagccattgccaaaggctt	9	8	11	13	2	1	0	1	0	0	0	2	1	1	1	3	4	3	2	3	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:117849401C>T	uc001lcj.2	-	9	1746	c.1048G>A	c.(1048-1050)GAT>AAT	p.D350N	GFRA1_uc001lci.2_Missense_Mutation_p.D345N|GFRA1_uc009xyr.2_Missense_Mutation_p.D345N	NM_005264	NP_005255	P56159	GFRA1_HUMAN	GDNF family receptor alpha 1 isoform a	350					axon guidance	anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity			ovary(1)|pancreas(1)	2		Lung NSC(174;0.21)		all cancers(201;0.0337)		ACGGTCACATCGGAGCCATTG	0.522													16	34					0	0	1	0	0		T	117849401	T	T	117849401	3	4	89	1	0	0	0	0	1	0	0	0	6362	884	31	1	361	1	GFRA1	10	117849401	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	824675	117849401	17685346	3994	57825											
PNLIPRP3	119548	broad.mit.edu	37	chr10	118236226	118236226	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagatgttaacgttggaaAcattacaagtgttcagttca	13	13	9	6	1	2	1	2	0	0	1	2	2	2	2	0	1	4	5	0	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:118236226A>G	uc001lcl.3	+	11	1336	c.1235A>G	c.(1234-1236)AAC>AGC	p.N412S		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	412	PLAT.				lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		AACGTTGGAAACATTACAAGT	0.358													35	65					0	0	1	0	0		G	118236226	G	G	118236226	3	3	89	1	0	0	0	0	1	0	0	0	12171	43	2	3	1277	3	PNLIPRP3	10	118236226	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	386825	118236226	17298521	3995	57826											
PNLIP	5406	broad.mit.edu	37	chr10	118306875	118306875	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtcaggaattacggaaaGacccctccatatattgcctt	12	11	8	10	1	1	1	1	0	0	1	2	3	2	3	4	3	2	0	4	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:118306875G>T	uc001lcm.2	+	3	159	c.116G>T	c.(115-117)AGA>ATA	p.R39I		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	39					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	ATTACGGAAAGACCCCTCCAT	0.433													35	64					2.09667e-21	2.48674e-21	1	1	0		T	118306875	T	T	118306875	3	4	89	1	0	0	0	0	1	0	0	0	12168	942	33	5	122	5	PNLIP	10	118306875	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	70649	118306875	17227872	3996	57827											
PNLIPRP1	5407	broad.mit.edu	37	chr10	118354250	118354250	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccaacaccagaaactgttCgaggtggaggaggtgaactg	12	6	13	10	1	0	2	0	1	0	1	1	5	0	4	3	4	3	1	3	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:118354250C>T	uc001lco.1	+	5	357	c.339C>T	c.(337-339)TTC>TTT	p.F113F	PNLIPRP1_uc001lcp.2_Silent_p.F113F|PNLIPRP1_uc009xys.1_RNA	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	113					lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		AGAAACTGTTCGAGGTGGAGG	0.577													36	66					0	0	1	0	0		T	118354250	T	T	118354250	2	4	89	1	0	0	0	0	0	0	0	1	12169	883	31	1		1	PNLIPRP1	10	118354250	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	47375	118354250	17180497	3997	57828											
PNLIPRP2	5408	broad.mit.edu	37	chr10	118383524	118383524	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgggcaggaacccttcagCgacctgtaaaattacttccc	11	9	8	13	1	1	0	1	0	0	0	2	2	2	1	3	2	3	2	3	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:118383524C>T	uc001lcq.2	+	5	144	c.121C>T	c.(121-123)CGA>TGA	p.R41*	PNLIPRP2_uc009xyu.1_RNA|PNLIPRP2_uc009xyv.1_RNA	NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2	40					galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		AACCCTTCAGCGACCTGTAAA	0.473													26	44					0	0	1	0	0		T	118383524	T	T	118383524	4	4	89	1	0	0	0	0	0	1	0	0	12170	767	27	1	130	1	PNLIPRP2	10	118383524	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	29274	118383524	17151223	3998	57829											
HSPA12A	259217	broad.mit.edu	37	chr10	118460485	118460485	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcttcatcttgaacttcTccaggtacagccactgcttg	8	12	8	13	0	3	1	1	1	2	0	4	1	3	1	2	1	5	4	2	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:118460485T>G	uc001lct.2	-	4	515	c.410A>C	c.(409-411)GAG>GCG	p.E137A	HSPA12A_uc001lcu.2_Missense_Mutation_p.E54A	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	137							ATP binding			ovary(1)	1				all cancers(201;0.0158)		CTTGAACTTCTCCAGGTACAG	0.592													39	93					0	0	1	0	0		G	118460485	G	G	118460485	3	3	89	1	0	0	0	0	1	0	0	0	7420	1551	54	5	1653	5	HSPA12A	10	118460485	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	76961	118460485	17074262	3999	57830											
KIAA1598	57698	broad.mit.edu	37	chr10	118661437	118661437	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaacactggcatggatttGgactctgaggtggctaatat	10	11	11	9	0	1	1	0	1	1	0	1	3	1	3	1	5	1	2	1	5	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:118661437G>A	uc009xyw.2	-	16	2010	c.1512C>T	c.(1510-1512)TCC>TCT	p.S504S	KIAA1598_uc001lcz.3_Intron|KIAA1598_uc010qso.1_Silent_p.S444S|KIAA1598_uc010qsp.1_Silent_p.S504S|KIAA1598_uc010qsq.1_Silent_p.S444S|KIAA1598_uc001lcy.3_Silent_p.S474S	NM_001127211	NP_001120683	A0MZ66	SHOT1_HUMAN	shootin1 isoform a	504					axon guidance	axon					0				all cancers(201;0.00494)		GCATGGATTTGGACTCTGAGG	0.418													10	18					0	0	1	0	0		A	118661437	A	A	118661437	2	1	89	1	0	0	0	0	0	0	0	1	8262	1335	47	4		4	KIAA1598	10	118661437	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	200952	118661437	16873310	4000	57831											
KCNK18	338567	broad.mit.edu	37	chr10	118960684	118960684	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccagtggtggaagacagaAaacaggatctccaggggcat	13	6	13	9	0	1	2	0	0	1	2	3	4	2	4	2	5	1	1	2	5	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:118960684A>C	uc010qsr.1	+	2	238	c.238A>C	c.(238-240)AAA>CAA	p.K80Q		NM_181840	NP_862823	Q7Z418	KCNKI_HUMAN	potassium channel, subfamily K, member 18	80						integral to membrane|plasma membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;0.19)		all cancers(201;0.0211)		GGAAGACAGAAAACAGGATCT	0.522													71	139					0	0	1	0	0		C	118960684	C	C	118960684	3	2	89	1	0	0	0	0	1	0	0	0	8081	15	1	5	244	5	KCNK18	10	118960684	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	299247	118960684	16574063	4001	57832											
SLC18A2	6571	broad.mit.edu	37	chr10	119014811	119014811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccccccttcgggagtgtgCtctatgagtttgtggggaag	5	11	15	10	1	1	1	0	1	1	0	2	3	1	3	3	3	1	2	3	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:119014811C>T	uc001ldd.1	+	7	755	c.724C>T	c.(724-726)CTC>TTC	p.L242F	SLC18A2_uc009xyy.1_Missense_Mutation_p.L39F	NM_003054	NP_003045	Q05940	VMAT2_HUMAN	solute carrier family 18 (vesicular monoamine),	242	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted monoamine transport vesicle membrane|integral to plasma membrane|membrane fraction	monoamine transmembrane transporter activity				0		Colorectal(252;0.19)		all cancers(201;0.029)	Alseroxylon(DB00386)|Reserpine(DB00206)|Tetrabenazine(DB04844)	CGGGAGTGTGCTCTATGAGTT	0.602													17	50					0	0	1	0	0		T	119014811	T	T	119014811	3	4	89	1	0	0	0	0	1	0	0	0	14451	797	28	2	746	2	SLC18A2	10	119014811	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	54127	119014811	16519936	4002	57833											
PDZD8	118987	broad.mit.edu	37	chr10	119043112	119043112	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aactcctgatcaatttcattCtgtagcttatccaacatgaa	13	14	4	10	0	3	2	2	2	1	0	5	2	5	2	2	0	3	2	2	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:119043112C>T	uc001lde.1	-	5	3331	c.3132G>A	c.(3130-3132)CAG>CAA	p.Q1044Q		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	1044	Potential.				intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		CAATTTCATTCTGTAGCTTAT	0.388													50	91					0	0	1	0	0		T	119043112	T	T	119043112	2	4	89	1	0	0	0	0	0	0	0	1	11724	912	32	4		4	PDZD8	10	119043112	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28301	119043112	16491635	4003	57834											
PDZD8	118987	broad.mit.edu	37	chr10	119044160	119044160	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaacaggatgctctggttCttgtccattttcctagctta	9	15	7	10	0	2	0	0	0	2	0	4	1	4	1	2	2	3	3	2	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:119044160C>A	uc001lde.1	-	5	2283	c.2084G>T	c.(2083-2085)AGA>ATA	p.R695I		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	695					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		TGCTCTGGTTCTTGTCCATTT	0.433													31	78					2.65835e-16	3.05131e-16	1	1	0		A	119044160	A	A	119044160	3	1	89	1	0	0	0	0	1	0	0	0	11724	913	32	5	1384	5	PDZD8	10	119044160	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1048	119044160	16490587	4004	57835											
PDZD8	118987	broad.mit.edu	37	chr10	119044314	119044314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgcttaggtgcagctgcatCgtctatggcatccacatttt	7	15	9	10	1	1	0	0	0	1	0	3	0	2	0	1	2	4	5	1	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:119044314C>T	uc001lde.1	-	5	2129	c.1930G>A	c.(1930-1932)GAT>AAT	p.D644N		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	644					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		GCAGCTGCATCGTCTATGGCA	0.458													35	59					0	0	1	0	0		T	119044314	T	T	119044314	3	4	89	1	0	0	0	0	1	0	0	0	11724	884	31	1	1538	1	PDZD8	10	119044314	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	154	119044314	16490433	4005	57836											
C10orf46	143384	broad.mit.edu	37	chr10	120460905	120460905	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctctgttaagcttggtttCgatgtaaaacttattctgaa	10	17	8	6	1	2	1	0	1	2	0	4	2	2	1	0	1	2	4	0	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:120460905C>T	uc001lds.1	-	5	1193	c.709G>A	c.(709-711)GAA>AAA	p.E237K	C10orf46_uc010qst.1_RNA	NM_153810	NP_722517	Q86Y37	CJ046_HUMAN	chromosome 10 open reading frame 46	237					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding				0		Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0131)		AGCTTGGTTTCGATGTAAAAC	0.299													35	47					0	0	1	0	0		T	120460905	T	T	120460905	3	4	89	1	0	0	0	0	1	0	0	0	1607	893	31	1	420	1	C10orf46	10	120460905	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1416591	120460905	15073842	4006	57837											
EIF3A	8661	broad.mit.edu	37	chr10	120825078	120825078	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctaaaaggactctagtagAcattctatggagaacaaagt	16	9	10	6	0	2	2	0	0	2	2	2	4	2	3	0	3	1	2	0	3	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:120825078A>G	uc001ldu.2	-	7	1101	c.955T>C	c.(955-957)TCT>CCT	p.S319P	EIF3A_uc010qsu.1_Missense_Mutation_p.S285P	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	319					formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		ACTCTAGTAGACATTCTATGG	0.383													36	72					0	0	1	0	0		G	120825078	G	G	120825078	3	3	89	1	0	0	0	0	1	0	0	0	5018	275	10	3	3257	3	EIF3A	10	120825078	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	364173	120825078	14709669	4007	57838											
SFXN4	119559	broad.mit.edu	37	chr10	120923675	120923675	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacatttgtaggatctaataAttctgtccattgaagaaatc	14	14	6	7	0	2	2	0	1	2	1	4	3	3	3	1	1	0	1	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:120923675A>C	uc001leb.2	-	2	190	c.145T>G	c.(145-147)TTA>GTA	p.L49V	SFXN4_uc001ldz.2_5'UTR|SFXN4_uc001lea.2_RNA	NM_213649	NP_998814	Q6P4A7	SFXN4_HUMAN	sideroflexin 4	49					iron ion homeostasis	integral to membrane|mitochondrial membrane	cation transmembrane transporter activity			ovary(1)	1		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0261)		GGATCTAATAATTCTGTCCAT	0.328													60	63					0	0	1	0	0		C	120923675	C	C	120923675	3	2	89	1	0	0	0	0	1	0	0	0	14222	98	4	5	920	5	SFXN4	10	120923675	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	98597	120923675	14611072	4008	57839											
BAG3	9531	broad.mit.edu	37	chr10	121436099	121436099	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattcaagtgatccgcaaaGaggtggattctaaacctgtt	13	11	9	8	1	2	2	1	1	1	1	3	3	3	3	2	2	1	2	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:121436099G>T	uc001lem.2	+	4	1339	c.1033G>T	c.(1033-1035)GAG>TAG	p.E345*	BAG3_uc001lel.2_Nonsense_Mutation_p.E344*	NM_004281	NP_004272	O95817	BAG3_HUMAN	BCL2-associated athanogene 3	345					anti-apoptosis|apoptosis|protein folding	cytosol				ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)		GATCCGCAAAGAGGTGGATTC	0.542													81	108					4.00405e-42	4.96687e-42	1	1	0		T	121436099	T	T	121436099	4	4	89	1	0	0	0	0	0	1	0	0	1289	943	33	5	1047	5	BAG3	10	121436099	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	512424	121436099	14098648	4009	57840											
INPP5F	22876	broad.mit.edu	37	chr10	121565919	121565919	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggaagggatttttcgtgTtaattgtatggactgcctgg	8	14	14	5	1	0	0	0	0	0	0	1	3	0	3	1	4	1	3	1	4	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:121565919T>C	uc001leo.2	+	12	1533	c.1367T>C	c.(1366-1368)GTT>GCT	p.V456A		NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	456	SAC.						phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		ATTTTTCGTGTTAATTGTATG	0.378													8	22					0	0	1	0	0		C	121565919	C	C	121565919	3	2	89	1	0	0	0	0	1	0	0	0	7774	1725	60	3	1413	3	INPP5F	10	121565919	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	129820	121565919	13968828	4010	57841											
FGFR2	2263	broad.mit.edu	37	chr10	123274722	123274722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttggtcgtgttcttcattCggcacaggatgactgttacc	6	15	10	10	2	3	1	1	1	2	0	5	2	3	2	1	3	1	3	1	3	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:123274722C>T	uc010qtk.1	-	9	1843	c.1196G>A	c.(1195-1197)CGA>CAA	p.R399Q	FGFR2_uc010qtg.1_Missense_Mutation_p.R287Q|FGFR2_uc010qth.1_Missense_Mutation_p.R284Q|FGFR2_uc010qti.1_Missense_Mutation_p.R310Q|FGFR2_uc010qtj.1_Missense_Mutation_p.R400Q|FGFR2_uc010qtl.1_Intron|FGFR2_uc010qtm.1_Missense_Mutation_p.R284Q|FGFR2_uc001lfl.3_Missense_Mutation_p.R400Q|FGFR2_uc001lfm.2_Missense_Mutation_p.R311Q|FGFR2_uc001lfn.3_RNA|FGFR2_uc001lfg.3_Missense_Mutation_p.R9Q	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	399	Cytoplasmic (Potential).				angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of mesenchymal cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding			endometrium(44)|skin(28)|lung(11)|ovary(4)|cervix(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|soft_tissue(1)|central_nervous_system(1)	96		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Palifermin(DB00039)	GTTCTTCATTCGGCACAGGAT	0.507		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				36	84					0	0	1	0	0		T	123274722	T	T	123274722	3	4	89	1	0	0	0	0	1	0	0	0	5880	884	31	1	1413	1	FGFR2	10	123274722	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1708803	123274722	12260025	4011	57842											
TACC2	10579	broad.mit.edu	37	chr10	123845456	123845456	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaaagcagcaggctccGgagaaacctggagaagctac	14	3	13	11	1	0	2	0	0	0	2	1	5	1	3	3	4	5	4	3	4	4	1	rs145035433	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:123845456G>A	uc001lfv.2	+	4	3801	c.3441G>A	c.(3439-3441)CCG>CCA	p.P1147P	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Silent_p.P1147P|TACC2_uc010qtv.1_Silent_p.P1147P	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1147						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				AGCAGGCTCCGGAGAAACCTG	0.592													20	39					0	0	1	0	0		A	123845456	A	A	123845456	2	1	89	1	0	0	0	0	0	0	0	1	15527	1103	39	1		1	TACC2	10	123845456	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	570734	123845456	11689291	4012	57843											
TACC2	10579	broad.mit.edu	37	chr10	123997519	123997519	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcagaatggaaagataaatAtgaagaaagcaggcgggaag	19	5	13	4	1	1	4	1	1	0	3	1	6	1	6	0	3	1	1	0	3	8	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:123997519A>G	uc001lfv.2	+	18	8675	c.8315A>G	c.(8314-8316)TAT>TGT	p.Y2772C	TACC2_uc001lfw.2_Missense_Mutation_p.Y918C|TACC2_uc009xzx.2_Missense_Mutation_p.Y2650C|TACC2_uc010qtv.1_Missense_Mutation_p.Y2699C|TACC2_uc001lfx.2_Missense_Mutation_p.Y399C|TACC2_uc001lfy.2_Missense_Mutation_p.Y395C|TACC2_uc001lfz.2_Missense_Mutation_p.Y850C|TACC2_uc001lga.2_Missense_Mutation_p.Y820C|TACC2_uc009xzy.2_Missense_Mutation_p.Y832C|TACC2_uc001lgb.2_Missense_Mutation_p.Y730C	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	2772	Potential.					microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				AAAGATAAATATGAAGAAAGC	0.458													19	31					0	0	1	0	0		G	123997519	G	G	123997519	3	3	89	1	0	0	0	0	1	0	0	0	15527	449	16	3	8453	3	TACC2	10	123997519	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	152063	123997519	11537228	4013	57844											
TACC2	10579	broad.mit.edu	37	chr10	124009084	124009084	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgctgagattgctcaggttCgaggcaaggcccagcaggag	10	7	15	9	1	1	1	1	1	0	1	2	4	1	2	1	4	3	5	1	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:124009084C>T	uc001lfv.2	+	22	9046	c.8686C>T	c.(8686-8688)CGA>TGA	p.R2896*	TACC2_uc001lfw.2_Nonsense_Mutation_p.R1042*|TACC2_uc009xzx.2_Nonsense_Mutation_p.R2774*|TACC2_uc010qtv.1_Nonsense_Mutation_p.R2823*|TACC2_uc001lfx.2_Nonsense_Mutation_p.R523*|TACC2_uc001lfy.2_Nonsense_Mutation_p.R519*|TACC2_uc001lfz.2_Nonsense_Mutation_p.R974*|TACC2_uc001lga.2_Nonsense_Mutation_p.R944*|TACC2_uc009xzy.2_Nonsense_Mutation_p.R956*|TACC2_uc001lgb.2_Nonsense_Mutation_p.R854*	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	2896	Potential.			R -> Q (in Ref. 3; AAO62629/AAO62630).		microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				TGCTCAGGTTCGAGGCAAGGC	0.597													18	30					0	0	1	0	0		T	124009084	T	T	124009084	4	4	89	1	0	0	0	0	0	1	0	0	15527	876	31	1	8840	1	TACC2	10	124009084	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11565	124009084	11525663	4014	57845											
BTBD16	118663	broad.mit.edu	37	chr10	124043396	124043396	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaaatccagaagtttttCtttgagaatttcaagaacaa	16	13	5	7	0	3	3	2	1	1	3	4	4	4	3	1	0	1	1	1	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:124043396C>A	uc001lgc.1	+	4	449	c.198C>A	c.(196-198)TTC>TTA	p.F66L	BTBD16_uc001lgd.1_Missense_Mutation_p.F65L	NM_144587	NP_653188	Q32M84	BTBDG_HUMAN	BTB (POZ) domain containing 16	66										skin(1)	1		all_neural(114;0.107)|Lung NSC(174;0.175)|all_lung(145;0.222)|Breast(234;0.238)				AGAAGTTTTTCTTTGAGAATT	0.373													25	39					1.77063e-15	2.01907e-15	1	1	0		A	124043396	A	A	124043396	3	1	89	1	0	0	0	0	1	0	0	0	1544	912	32	5	208	5	BTBD16	10	124043396	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34312	124043396	11491351	4015	57846											
HTRA1	5654	broad.mit.edu	37	chr10	124271569	124271569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aattgaagtaattcctgataCcccagcagaagcgtgagttg	13	10	10	8	1	0	4	0	3	0	1	1	4	1	4	3	0	3	3	3	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:124271569C>T	uc001lgj.2	+	8	1390	c.1262C>T	c.(1261-1263)ACC>ATC	p.T421I		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	421	PDZ.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				ATTCCTGATACCCCAGCAGAA	0.493													14	67					0	0	1	0	0		T	124271569	T	T	124271569	3	4	89	1	0	0	0	0	1	0	0	0	7469	507	18	4	1292	4	HTRA1	10	124271569	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	228173	124271569	11263178	4016	57847											
CUZD1	50624	broad.mit.edu	37	chr10	124594392	124594392	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagtatagtcttttcaaaTgaattggattcaaaaagagc	16	13	7	5	0	4	2	3	1	1	1	4	3	4	3	0	1	1	1	0	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:124594392T>C	uc001lgq.2	-	7	1544	c.1212A>G	c.(1210-1212)TCA>TCG	p.S404S	CUZD1_uc001lgp.2_Silent_p.S123S|CUZD1_uc009yad.2_Silent_p.S123S|CUZD1_uc009yaf.2_Silent_p.S38S|CUZD1_uc001lgr.2_Silent_p.S123S|CUZD1_uc010qty.1_Silent_p.S123S|CUZD1_uc009yae.2_Silent_p.S123S|CUZD1_uc001lgs.2_Silent_p.S404S|CUZD1_uc010qtz.1_Silent_p.S404S	NM_022034	NP_071317	Q86UP6	CUZD1_HUMAN	CUB and zona pellucida-like domains 1 precursor	404	Extracellular (Potential).|ZP.				cell cycle|cell division|cell proliferation|substrate-dependent cell migration, cell attachment to substrate|trypsinogen activation	integral to membrane|transport vesicle membrane|zymogen granule membrane				ovary(1)|skin(1)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.126)|COAD - Colon adenocarcinoma(40;0.141)		TCTTTTCAAATGAATTGGATT	0.348													16	30					0	0	1	0	0		C	124594392	C	C	124594392	2	2	89	1	0	0	0	0	0	0	0	1	4069	1451	51	3		3	CUZD1	10	124594392	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	322823	124594392	10940355	4017	57848											
C10orf88	80007	broad.mit.edu	37	chr10	124692137	124692137	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttccatatttttagaaaGaatcttttccaagtaggagc	13	14	7	7	0	1	2	0	0	1	2	3	3	3	3	2	1	1	2	2	1	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:124692137G>T	uc001lgw.2	-	6	1369	c.1144C>A	c.(1144-1146)CTT>ATT	p.L382I	C10orf88_uc001lgx.2_Missense_Mutation_p.L284I	NM_024942	NP_079218	Q9H8K7	CJ088_HUMAN	hypothetical protein LOC80007	382											0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)		TTTTTAGAAAGAATCTTTTCC	0.303													11	24					0.00010058	0.000102942	1	1	0		T	124692137	T	T	124692137	3	4	89	1	0	0	0	0	1	0	0	0	1625	942	33	5	197	5	C10orf88	10	124692137	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	97745	124692137	10842610	4018	57849											
ACADSB	36	broad.mit.edu	37	chr10	124812651	124812651	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaagattaccctgtggaGaaatacttccgagatgcaaa	16	8	8	9	1	0	3	0	0	0	3	1	5	1	3	3	1	3	1	3	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:124812651G>T	uc001lhb.2	+	10	1320	c.1203G>T	c.(1201-1203)GAG>GAT	p.E401D	ACADSB_uc010qub.1_Missense_Mutation_p.E299D	NM_001609	NP_001600	P45954	ACDSB_HUMAN	acyl-Coenzyme A dehydrogenase, short/branched	401					branched chain family amino acid catabolic process|fatty acid metabolic process	mitochondrial matrix	flavin adenine dinucleotide binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.0811)|COAD - Colon adenocarcinoma(40;0.0835)	L-Isoleucine(DB00167)	ACCCTGTGGAGAAATACTTCC	0.363													27	39					1.42536e-11	1.56543e-11	1	1	0		T	124812651	T	T	124812651	3	4	89	1	0	0	0	0	1	0	0	0	115	933	33	5	1241	5	ACADSB	10	124812651	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	120514	124812651	10722096	4019	57850											
C10orf137	26098	broad.mit.edu	37	chr10	127422070	127422070	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcacagaatattttatcatTtttgaaatctaattgtacca	14	17	4	6	0	2	2	1	1	1	1	2	2	2	2	1	0	2	2	1	0	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:127422070T>G	uc001liq.1	+	10	1519	c.1226T>G	c.(1225-1227)TTT>TGT	p.F409C	C10orf137_uc001lin.2_Missense_Mutation_p.F375C|C10orf137_uc001lio.1_Missense_Mutation_p.F375C|C10orf137_uc001lip.1_Missense_Mutation_p.F113C|C10orf137_uc001lir.2_5'Flank	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	409					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				ATTTTATCATTTTTGAAATCT	0.284													23	22					0	0	1	0	0		G	127422070	G	G	127422070	3	3	89	1	0	0	0	0	1	0	0	0	1597	1841	64	5	1158	5	C10orf137	10	127422070	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2609419	127422070	8112677	4020	57851											
C10orf137	26098	broad.mit.edu	37	chr10	127431743	127431743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgacttgaaaagccaaaatCcagaacactatgtacaagta	18	8	7	8	0	0	3	0	2	0	1	1	3	1	3	2	0	3	2	2	0	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:127431743C>T	uc001liq.1	+	18	2781	c.2488C>T	c.(2488-2490)CCA>TCA	p.P830S	C10orf137_uc001lin.2_Missense_Mutation_p.P796S|C10orf137_uc001lio.1_Missense_Mutation_p.P796S|C10orf137_uc001lip.1_Missense_Mutation_p.P534S|C10orf137_uc001lis.1_Missense_Mutation_p.P156S	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	830					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				AAGCCAAAATCCAGAACACTA	0.353													18	45					0	0	1	0	0		T	127431743	T	T	127431743	3	4	89	1	0	0	0	0	1	0	0	0	1597	855	30	4	2452	4	C10orf137	10	127431743	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9673	127431743	8103004	4021	57852											
MMP21	118856	broad.mit.edu	37	chr10	127459031	127459031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catagcgtgtcctattgtttCgattttcataaagccagtac	10	15	7	9	2	1	0	1	0	0	0	3	1	2	0	2	0	3	2	2	0	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:127459031C>T	uc001liu.2	-	5	1109	c.1109G>A	c.(1108-1110)CGA>CAA	p.R370Q		NM_147191	NP_671724	Q8N119	MMP21_HUMAN	matrix metalloproteinase 21 preproprotein	370	Hemopexin-like 1.				proteolysis	extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				CCTATTGTTTCGATTTTCATA	0.448													41	96					0	0	1	0	0		T	127459031	T	T	127459031	3	4	89	1	0	0	0	0	1	0	0	0	9678	884	31	1	612	1	MMP21	10	127459031	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27288	127459031	8075716	4022	57853											
MKI67	4288	broad.mit.edu	37	chr10	129899683	129899683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccctttctgattctgcatgaGaaccttcgcactcttctgcc	6	14	6	15	1	4	2	0	2	4	1	5	3	4	2	3	0	3	2	3	0	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:129899683G>A	uc001lke.2	-	14	9739	c.9544C>T	c.(9544-9546)CTC>TTC	p.L3182F	MKI67_uc001lkf.2_Missense_Mutation_p.L2822F	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	3182					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TTCTGCATGAGAACCTTCGCA	0.502													48	131					0	0	1	0	0		A	129899683	A	A	129899683	3	1	89	1	0	0	0	0	1	0	0	0	9616	942	33	4	234	4	MKI67	10	129899683	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2440652	129899683	5635064	4023	57854											
MKI67	4288	broad.mit.edu	37	chr10	129901203	129901203	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgtctcccacgggttctacTttaggggcccgaagaactct	8	10	10	13	3	3	1	0	0	3	1	4	2	3	1	2	3	2	1	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:129901203T>G	uc001lke.2	-	13	9096	c.8901A>C	c.(8899-8901)AAA>AAC	p.K2967N	MKI67_uc001lkf.2_Missense_Mutation_p.K2607N|MKI67_uc009yav.1_Missense_Mutation_p.K2542N|MKI67_uc009yaw.1_Missense_Mutation_p.K2117N	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2967					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				CGGGTTCTACTTTAGGGGCCC	0.502													73	71					0	0	1	0	0		G	129901203	G	G	129901203	3	3	89	1	0	0	0	0	1	0	0	0	9616	1606	56	5	881	5	MKI67	10	129901203	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1520	129901203	5633544	4024	57855											
MKI67	4288	broad.mit.edu	37	chr10	129904177	129904177	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgcaggatacttctgtgAttttgtcatcggtcattgat	8	18	9	6	1	3	2	2	2	1	0	4	3	3	3	0	2	2	1	0	2	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:129904177A>C	uc001lke.2	-	13	6122	c.5927T>G	c.(5926-5928)ATC>AGC	p.I1976S	MKI67_uc001lkf.2_Missense_Mutation_p.I1616S|MKI67_uc009yav.1_Missense_Mutation_p.I1551S|MKI67_uc009yaw.1_Missense_Mutation_p.I1126S	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1976	16 X 122 AA approximate repeats.|9.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TACTTCTGTGATTTTGTCATC	0.468													102	181					0	0	1	0	0		C	129904177	C	C	129904177	3	2	89	1	0	0	0	0	1	0	0	0	9616	333	12	5	3855	5	MKI67	10	129904177	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2974	129904177	5630570	4025	57856											
MKI67	4288	broad.mit.edu	37	chr10	129905488	129905488	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactgctggtttgggtgtgTgcatggctttgcctgctgat	3	17	14	7	0	0	1	0	1	0	0	0	1	0	1	1	3	5	5	1	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:129905488T>C	uc001lke.2	-	13	4811	c.4616A>G	c.(4615-4617)CAC>CGC	p.H1539R	MKI67_uc001lkf.2_Missense_Mutation_p.H1179R|MKI67_uc009yav.1_Missense_Mutation_p.H1114R|MKI67_uc009yaw.1_Missense_Mutation_p.H689R	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1539	5.|16 X 122 AA approximate repeats.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TTTGGGTGTGTGCATGGCTTT	0.483													30	328					0	0	1	0	0		C	129905488	C	C	129905488	3	2	89	1	0	0	0	0	1	0	0	0	9616	1696	59	3	5166	3	MKI67	10	129905488	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1311	129905488	5629259	4026	57857											
MKI67	4288	broad.mit.edu	37	chr10	129907415	129907415	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcactcaacaatttctgtatTtgtttcttcactcttacttt	8	20	3	10	0	5	0	2	0	3	0	5	0	5	0	0	0	2	3	0	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:129907415T>C	uc001lke.2	-	13	2884	c.2689A>G	c.(2689-2691)AAT>GAT	p.N897D	MKI67_uc001lkf.2_Missense_Mutation_p.N537D|MKI67_uc009yav.1_Missense_Mutation_p.N472D|MKI67_uc009yaw.1_Missense_Mutation_p.N47D	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	897					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				ATTTCTGTATTTGTTTCTTCA	0.398													57	101					0	0	1	0	0		C	129907415	C	C	129907415	3	2	89	1	0	0	0	0	1	0	0	0	9616	1841	64	3	7093	3	MKI67	10	129907415	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1927	129907415	5627332	4027	57858											
MGMT	4255	broad.mit.edu	37	chr10	131557541	131557541	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgatttcttaccagcaatTagcagccctggcaggcaacc	11	9	9	12	0	1	1	0	1	1	0	1	1	1	1	3	2	5	4	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:131557541T>C	uc001lkh.2	+	4	469	c.443T>C	c.(442-444)TTA>TCA	p.L148S		NM_002412	NP_002403	P16455	MGMT_HUMAN	O-6-methylguanine-DNA methyltransferase	117										ovary(1)|breast(1)	2		all_cancers(35;9.44e-09)|all_epithelial(44;6.98e-08)|Lung NSC(174;0.0157)|all_lung(145;0.0201)|all_neural(114;0.0732)|Colorectal(57;0.0792)|Breast(234;0.167)		OV - Ovarian serous cystadenocarcinoma(35;0.00291)		TACCAGCAATTAGCAGCCCTG	0.527								Direct_reversal_of_damage					43	86					0	0	1	0	0		C	131557541	C	C	131557541	3	2	89	1	0	0	0	0	1	0	0	0	9575	1764	61	3	457	3	MGMT	10	131557541	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1650126	131557541	3977206	4028	57859											
EBF3	253738	broad.mit.edu	37	chr10	131760461	131760461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcattgaatctatgaggcGaacatacagatcttgctctg	11	12	10	8	1	4	3	1	2	3	1	4	4	4	3	0	2	3	1	0	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:131760461G>A	uc001lki.1	-	4	444	c.385C>T	c.(385-387)CGC>TGC	p.R129C	EBF3_uc010qur.1_3'UTR	NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	129					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		TCTATGAGGCGAACATACAGA	0.502													28	49					0	0	1	0	0		A	131760461	A	A	131760461	3	1	89	1	0	0	0	0	1	0	0	0	4888	1058	37	1	1322	1	EBF3	10	131760461	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	202920	131760461	3774286	4029	57860											
GLRX3	10539	broad.mit.edu	37	chr10	131943557	131943557	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatggcagagttagctaaaGaactccctcaagtttcattt	12	14	7	8	0	2	2	2	0	0	2	3	2	3	2	1	1	2	4	1	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:131943557G>T	uc001lkm.1	+	2	197	c.175G>T	c.(175-177)GAA>TAA	p.E59*	GLRX3_uc001lkn.1_Nonsense_Mutation_p.E59*|GLRX3_uc001lko.2_RNA	NM_006541	NP_006532	O76003	GLRX3_HUMAN	glutaredoxin 3	59	Thioredoxin.				cell redox homeostasis|negative regulation of cardiac muscle hypertrophy|regulation of the force of heart contraction	cell cortex	electron carrier activity|iron-sulfur cluster binding|metal ion binding|protein disulfide oxidoreductase activity				0		all_cancers(35;9.59e-07)|all_epithelial(44;1.48e-06)|Lung NSC(174;0.00566)|all_lung(145;0.00949)|Colorectal(57;0.142)|all_neural(114;0.16)|Breast(234;0.173)|Glioma(114;0.222)		OV - Ovarian serous cystadenocarcinoma(35;0.00218)		GTTAGCTAAAGAACTCCCTCA	0.358													19	43					1.33834e-09	1.43956e-09	1	1	0		T	131943557	T	T	131943557	4	4	89	1	0	0	0	0	0	1	0	0	6476	943	33	5	181	5	GLRX3	10	131943557	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	183096	131943557	3591190	4030	57861											
TCERG1L	256536	broad.mit.edu	37	chr10	132965127	132965127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcaggagggcgggccactCggccccgctctgtccttgta	4	7	16	14	3	1	0	0	0	1	0	3	1	2	1	4	5	0	3	4	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:132965127C>T	uc001lkp.2	-	5	964	c.878G>A	c.(877-879)CGA>CAA	p.R293Q	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	293										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		GCGGGCCACTCGGCCCCGCTC	0.512													4	35					0	0	1	0	0		T	132965127	T	T	132965127	3	4	89	1	0	0	0	0	1	0	0	0	15711	884	31	1	914	1	TCERG1L	10	132965127	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1021570	132965127	2569620	4031	57862											
PPP2R2D	55844	broad.mit.edu	37	chr10	133758887	133758887	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgcaccagtgcaacgtgttCgtctacagcagtagcaaagg	11	7	11	12	3	1	0	0	0	1	0	2	0	1	0	2	1	5	6	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:133758887C>T	uc001lks.2	+	5	888	c.645C>T	c.(643-645)TTC>TTT	p.F215F	PPP2R2D_uc001lkr.2_Silent_p.F21F|PPP2R2D_uc001lkt.2_Silent_p.F21F|PPP2R2D_uc009yay.2_Silent_p.F83F	NM_018461	NP_060931	Q66LE6	2ABD_HUMAN	protein phosphatase 2, regulatory subunit B,	248	WD 4.				cell division|exit from mitosis|mitosis|signal transduction	cytoplasm|protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			skin(1)	1		all_cancers(35;2.16e-12)|all_epithelial(44;2.77e-09)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Colorectal(31;0.0124)|Breast(234;0.023)|all_neural(114;0.0299)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.86e-05)|Epithelial(32;8.82e-05)|all cancers(32;0.000106)|BRCA - Breast invasive adenocarcinoma(275;0.21)		GCAACGTGTTCGTCTACAGCA	0.542													38	66					0	0	1	0	0		T	133758887	T	T	133758887	2	4	89	1	0	0	0	0	0	0	0	1	12409	883	31	1		1	PPP2R2D	10	133758887	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	793760	133758887	1775860	4032	57863											
BNIP3	664	broad.mit.edu	37	chr10	133784192	133784192	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagagatggaaggaaaacTttcagaaattctgcagagaa	18	7	11	5	0	2	3	1	0	1	3	2	7	2	5	0	2	3	2	0	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:133784192T>G	uc001lkv.1	-	5	615	c.489A>C	c.(487-489)AAA>AAC	p.K163N	BNIP3_uc001lku.1_5'Flank|BNIP3_uc010qut.1_Missense_Mutation_p.K163N	NM_004052	NP_004043	Q12983	BNIP3_HUMAN	BCL2/adenovirus E1B 19kD-interacting protein 3	163					cellular response to cobalt ion|cellular response to hypoxia|cellular response to mechanical stimulus|chromatin remodeling|defense response to virus|DNA fragmentation involved in apoptotic nuclear change|induction of apoptosis|interspecies interaction between organisms|mitochondrial fragmentation involved in apoptosis|negative regulation of membrane potential|negative regulation of mitochondrial fusion|negative regulation of survival gene product expression|neuron apoptosis|positive regulation of mitochondrial fission|positive regulation of protein complex disassembly|positive regulation of release of cytochrome c from mitochondria|reactive oxygen species metabolic process|regulation of mitochondrial membrane permeability	dendrite|integral to mitochondrial outer membrane|nuclear envelope|nucleoplasm	GTPase binding|protein heterodimerization activity|protein homodimerization activity			lung(1)|skin(1)	2		all_cancers(35;4e-11)|all_epithelial(44;5.07e-08)|Ovarian(717;2.61e-05)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Breast(234;0.023)|all_neural(114;0.0299)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)		Epithelial(32;1.59e-12)|all cancers(32;3.75e-11)|OV - Ovarian serous cystadenocarcinoma(35;2.57e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		GAAGGAAAACTTTCAGAAATT	0.522													21	32					0	0	1	0	0		G	133784192	G	G	133784192	3	3	89	1	0	0	0	0	1	0	0	0	1479	1606	56	5	103	5	BNIP3	10	133784192	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	25305	133784192	1750555	4033	57864											
DPYSL4	10570	broad.mit.edu	37	chr10	134016247	134016247	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggaggacgggaagatgtTtgtcaccccgggggcgggcc	6	6	19	10	3	1	1	1	0	0	1	1	4	1	4	3	6	0	2	3	6	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:134016247T>G	uc009ybb.2	+	12	1533	c.1379T>G	c.(1378-1380)TTT>TGT	p.F460C		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	460					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		GGGAAGATGTTTGTCACCCCG	0.617													30	49					0	0	1	0	0		G	134016247	G	G	134016247	3	3	89	1	0	0	0	0	1	0	0	0	4755	1841	64	5	1425	5	DPYSL4	10	134016247	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	232055	134016247	1518500	4034	57865											
LRRC27	80313	broad.mit.edu	37	chr10	134161693	134161693	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcggactcctcagagaactgGcccagcgaggaggagatcag	11	4	15	11	2	2	2	2	0	0	2	3	7	3	4	2	4	2	0	2	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:134161693G>T	uc010quw.1	+	6	954	c.759G>T	c.(757-759)TGG>TGT	p.W253C	LRRC27_uc001llf.2_Missense_Mutation_p.W253C|LRRC27_uc010quv.1_Missense_Mutation_p.W253C|LRRC27_uc001llg.2_RNA|LRRC27_uc001lli.2_Missense_Mutation_p.W253C|LRRC27_uc001llj.2_Missense_Mutation_p.W191C|LRRC27_uc001llk.3_Missense_Mutation_p.W126C	NM_030626	NP_085129	Q9C0I9	LRC27_HUMAN	leucine rich repeat containing 27 isoform a	253										ovary(1)	1		all_cancers(35;6.28e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;9.12e-05)|Epithelial(32;0.000116)|all cancers(32;0.000145)|BRCA - Breast invasive adenocarcinoma(275;0.218)		CAGAGAACTGGCCCAGCGAGG	0.557													25	54					3.7963e-18	4.42695e-18	1	1	0		T	134161693	T	T	134161693	3	4	89	1	0	0	0	0	1	0	0	0	8999	1212	42	5	777	5	LRRC27	10	134161693	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	145446	134161693	1373054	4035	57866											
KNDC1	85442	broad.mit.edu	37	chr10	135009295	135009295	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggccaggcgcagtgccccGgagcggccgtccgcggctga	5	4	17	15	6	0	1	0	1	0	0	1	2	1	2	5	5	2	2	5	5	0	0	rs148476238	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:135009295G>A	uc001llz.1	+	10	1705	c.1704G>A	c.(1702-1704)CCG>CCA	p.P568P	KNDC1_uc001lma.1_Silent_p.P503P|KNDC1_uc001lmb.1_5'Flank	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	568	KIND 2.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		GCAGTGCCCCGGAGCGGCCGT	0.687													3	10					0	0	1	0	0		A	135009295	A	A	135009295	2	1	89	1	0	0	0	0	0	0	0	1	8442	1103	39	1		1	KNDC1	10	135009295	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	847602	135009295	525452	4036	57867											
KNDC1	85442	broad.mit.edu	37	chr10	135015105	135015105	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcactgtcacggggaaacttCgaggtggggtttcggcctca	7	9	15	10	3	2	0	2	0	0	0	4	2	2	1	1	6	1	2	1	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:135015105C>T	uc001llz.1	+	17	3091	c.3090C>T	c.(3088-3090)TTC>TTT	p.F1030F	KNDC1_uc001lma.1_Silent_p.F965F|KNDC1_uc001lmb.1_Silent_p.F442F	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1030					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		GGGGAAACTTCGAGGTGGGGT	0.657													33	70					0	0	1	0	0		T	135015105	T	T	135015105	2	4	89	1	0	0	0	0	0	0	0	1	8442	883	31	1		1	KNDC1	10	135015105	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5810	135015105	519642	4037	57868											
CYP2E1	1571	broad.mit.edu	37	chr10	135347293	135347293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagagcgcttgtacacaatgGacggtatcaccgtgactgtg	10	9	12	10	3	1	2	1	1	0	1	1	3	1	3	1	2	2	3	1	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr10:135347293G>A	uc001lnj.1	+	6	892	c.859G>A	c.(859-861)GAC>AAC	p.D287N	CYP2E1_uc001lnk.1_Missense_Mutation_p.D150N|CYP2E1_uc009ybl.1_Missense_Mutation_p.D88N|CYP2E1_uc009ybm.1_Intron|CYP2E1_uc001lnl.1_Missense_Mutation_p.D88N	NM_000773	NP_000764	P05181	CP2E1_HUMAN	cytochrome P450, family 2, subfamily E,	287					drug metabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|enzyme binding|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen|oxygen binding			central_nervous_system(3)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)	Acetaminophen(DB00316)|Chlorzoxazone(DB00356)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Dacarbazine(DB00851)|Dapsone(DB00250)|Enflurane(DB00228)|Eszopiclone(DB00402)|Ethanol(DB00898)|Ethosuximide(DB00593)|Fomepizole(DB01213)|Glutathione(DB00143)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Isoniazid(DB00951)|Menadione(DB00170)|Mephenytoin(DB00532)|Methoxyflurane(DB01028)|Midazolam(DB00683)|Mitoxantrone(DB01204)|Nicotine(DB00184)|Nifedipine(DB01115)|Nitrofurantoin(DB00698)|Orphenadrine(DB01173)|Phenelzine(DB00780)|Quinidine(DB00908)|S-Adenosylmethionine(DB00118)|Sevoflurane(DB01236)|Theophylline(DB00277)|Tolbutamide(DB01124)	GTACACAATGGACGGTATCAC	0.542									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				33	79					0	0	1	0	0		A	135347293	A	A	135347293	3	1	89	1	0	0	0	0	1	0	0	0	4173	1174	41	4	881	4	CYP2E1	10	135347293	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	332188	135347293	187454	4038	57869											
SCGB1C1	147199	broad.mit.edu	37	chr11	193746	193746	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggacaacgatgagtttttCatggacttcctgcaaacact	12	11	9	9	1	1	1	1	1	0	0	2	5	2	3	1	2	3	2	1	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:193746C>A	uc001loa.1	+	2	110	c.90C>A	c.(88-90)TTC>TTA	p.F30L		NM_145651	NP_663626	Q8TD33	SG1C1_HUMAN	secretoglobin, family 1C, member 1 precursor	30						extracellular region	binding			skin(1)	1		all_cancers(49;1.58e-09)|all_epithelial(84;2.71e-06)|Breast(177;0.000162)|Ovarian(85;0.000626)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;3.95e-27)|Epithelial(43;2.66e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.55e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		ATGAGTTTTTCATGGACTTCC	0.557													7	77					0.00198382	0.00200883	1	1	0		A	193746	A	A	193746	3	1	89	1	0	0	0	0	1	0	0	0	13920	825	29	5	96	5	SCGB1C1	11	193746	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08		193746	134812770	4039	57870											
ATHL1	80162	broad.mit.edu	37	chr11	294327	294327	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggggatctccagagtgagCgtctccggcatcttctacca	7	10	11	13	3	4	2	0	1	4	1	7	3	4	3	3	3	2	1	3	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:294327C>T	uc010qvu.1	+	13	1984	c.1869C>T	c.(1867-1869)AGC>AGT	p.S623S	ATHL1_uc001lor.3_Silent_p.S375S|ATHL1_uc001lou.3_Silent_p.S198S|ATHL1_uc001lov.3_Silent_p.S84S	NM_025092	NP_079368	Q32M88	ATHL1_HUMAN	ATH1, acid trehalase-like 1	623					carbohydrate metabolic process		hydrolase activity, acting on glycosyl bonds			liver(1)|central_nervous_system(1)|skin(1)	3		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.38e-28)|Epithelial(43;3.25e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0327)|LUSC - Lung squamous cell carcinoma(625;0.122)		CCAGAGTGAGCGTCTCCGGCA	0.617													30	89					0	0	1	0	0		T	294327	T	T	294327	2	4	89	1	0	0	0	0	0	0	0	1	1105	767	27	1		1	ATHL1	11	294327	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	100581	294327	134712189	4040	57871											
B4GALNT4	338707	broad.mit.edu	37	chr11	380147	380147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggtaccagtacctgagacGaaccgggaacttcgagcgct	11	6	12	12	4	0	1	0	1	0	1	1	5	0	2	3	2	5	3	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:380147G>A	uc001lpb.2	+	17	2669	c.2660G>A	c.(2659-2661)CGA>CAA	p.R887Q		NM_178537	NP_848632	Q76KP1	B4GN4_HUMAN	beta	887	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			pancreas(1)	1		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TACCTGAGACGAACCGGGAAC	0.687													8	17					0	0	1	0	0		A	380147	A	A	380147	3	1	89	1	0	0	0	0	1	0	0	0	1270	1058	37	1	2726	1	B4GALNT4	11	380147	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	85820	380147	134626369	4041	57872											
LRRC56	115399	broad.mit.edu	37	chr11	554059	554059	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccccgcggtggtcgacagAcctgcagtccagggggcgtc	5	6	15	15	4	0	1	0	0	0	1	4	2	2	1	4	4	1	1	4	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:554059A>G	uc010qvz.1	+	14	1917	c.1412A>G	c.(1411-1413)GAC>GGC	p.D471G		NM_198075	NP_932341	Q8IYG6	LRC56_HUMAN	leucine rich repeat containing 56	471										skin(1)	1		all_cancers(49;2.16e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;7.63e-28)|Epithelial(43;7.29e-27)|OV - Ovarian serous cystadenocarcinoma(40;7.15e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGGTCGACAGACCTGCAGTCC	0.692													30	78					0	0	1	0	0		G	554059	G	G	554059	3	3	89	1	0	0	0	0	1	0	0	0	9030	275	10	3	1454	3	LRRC56	11	554059	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	173912	554059	134452457	4042	57873											
MUC6	4588	broad.mit.edu	37	chr11	1016585	1016585	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgaatgagctgtgggtttgGctggtcccactggtggtcac	5	12	15	9	0	1	2	1	2	0	0	2	2	2	2	1	5	1	3	1	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:1016585G>T	uc001lsw.2	-	31	6267	c.6216C>A	c.(6214-6216)AGC>AGA	p.S2072R		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2072	Ser-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGTGGGTTTGGCTGGTCCCAC	0.572													82	141					8.6838e-40	1.07605e-39	1	1	0		T	1016585	T	T	1016585	3	4	89	1	0	0	0	0	1	0	0	0	9998	1194	42	5	1115	5	MUC6	11	1016585	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	462526	1016585	133989931	4043	57874											
MUC6	4588	broad.mit.edu	37	chr11	1026380	1026380	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggtaggagacccccgaGaactcacatgggcactcctc	10	5	11	15	1	1	2	1	0	0	2	3	4	2	2	4	3	1	2	4	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:1026380G>T	uc001lsw.2	-	20	2544	c.2493C>A	c.(2491-2493)TTC>TTA	p.F831L		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	831					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGACCCCCGAGAACTCACATG	0.647													6	20					3.59834e-05	3.69903e-05	1	1	0		T	1026380	T	T	1026380	3	4	89	1	0	0	0	0	1	0	0	0	9998	933	33	5	4882	5	MUC6	11	1026380	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9795	1026380	133980136	4044	57875											
MUC6	4588	broad.mit.edu	37	chr11	1027310	1027310	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggactgctcggccaggatgAacttgtaaccctccagtatg	9	10	11	11	1	0	1	0	1	0	0	2	3	1	3	3	3	3	3	3	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:1027310A>G	uc001lsw.2	-	17	2240	c.2189T>C	c.(2188-2190)TTC>TCC	p.F730S		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	730					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGCCAGGATGAACTTGTAACC	0.657													72	83					0	0	1	0	0		G	1027310	G	G	1027310	3	3	89	1	0	0	0	0	1	0	0	0	9998	246	9	3	5198	3	MUC6	11	1027310	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	930	1027310	133979206	4045	57876											
MUC6	4588	broad.mit.edu	37	chr11	1027763	1027763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtacgtagtcgcccagggCggcacagatgtggggaaagg	9	6	18	8	3	0	1	0	0	0	1	1	2	0	2	1	5	1	3	1	5	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:1027763C>T	uc001lsw.2	-	16	1954	c.1903G>A	c.(1903-1905)GCC>ACC	p.A635T		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	635					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TCGCCCAGGGCGGCACAGATG	0.652													5	18					0	0	1	0	0		T	1027763	T	T	1027763	3	4	89	1	0	0	0	0	1	0	0	0	9998	768	27	1	5488	1	MUC6	11	1027763	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	453	1027763	133978753	4046	57877											
MUC5B	727897	broad.mit.edu	37	chr11	1268507	1268507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccccagcagtccccacaCggtgcgcacagcctggactt	7	5	10	19	2	0	0	0	0	0	0	1	1	1	1	6	2	3	2	6	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:1268507C>T	uc009ycr.1	+	50	12107	c.11981C>T	c.(11980-11982)ACG>ATG	p.T3994M	MUC5B_uc001ltb.2_Missense_Mutation_p.T3469M	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3466	7 X Cys-rich subdomain repeats.|Thr-rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		AGTCCCCACACGGTGCGCACA	0.677													28	61					0	0	1	0	0		T	1268507	T	T	1268507	3	4	89	1	0	0	0	0	1	0	0	0	9997	536	19	1	10528	1	MUC5B	11	1268507	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	240744	1268507	133738009	4047	57878											
MUC5B	727897	broad.mit.edu	37	chr11	1271226	1271226	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaccacgaaggccaccacGacaagggccaccagttccac	12	3	9	17	2	0	1	0	1	0	0	1	3	1	1	6	2	0	1	6	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:1271226G>A	uc009ycr.1	+	51	14661	c.14535G>A	c.(14533-14535)ACG>ACA	p.T4845T	MUC5B_uc001ltb.2_Silent_p.T4375T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4372	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		AGGCCACCACGACAAGGGCCA	0.632													56	101					0	0	1	0	0		A	1271226	A	A	1271226	2	1	89	1	0	0	0	0	0	0	0	1	9997	1045	37	1		1	MUC5B	11	1271226	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2719	1271226	133735290	4048	57879											
TOLLIP	54472	broad.mit.edu	37	chr11	1311585	1311585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacaccgcgtagcccaggcGcagtcggcagtaggggtcca	8	5	15	13	4	0	0	0	0	0	0	2	0	1	0	3	4	2	5	3	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:1311585G>A	uc001lte.2	-	3	349	c.238C>T	c.(238-240)CGC>TGC	p.R80C	TOLLIP_uc001ltd.2_Missense_Mutation_p.R11C|TOLLIP_uc009ycu.2_Intron|TOLLIP_uc001ltf.2_Missense_Mutation_p.R30C	NM_019009	NP_061882	Q9H0E2	TOLIP_HUMAN	toll interacting protein	80	C2.				cell-cell signaling|inflammatory response|innate immune response|intracellular signal transduction|leukocyte activation|phosphorylation	cytosol|interleukin-1 receptor complex|interleukin-18 receptor complex	kinase binding|signal transducer activity|Toll-like receptor binding				0		all_cancers(49;7.62e-05)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0256)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		BRCA - Breast invasive adenocarcinoma(625;0.00152)|Lung(200;0.09)|LUSC - Lung squamous cell carcinoma(625;0.107)		TAGCCCAGGCGCAGTCGGCAG	0.597													13	30					0	0	1	0	0		A	1311585	A	A	1311585	3	1	89	1	0	0	0	0	1	0	0	0	16375	1087	38	1	602	1	TOLLIP	11	1311585	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	40359	1311585	133694931	4049	57880											
DUSP8	1850	broad.mit.edu	37	chr11	1578801	1578801	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacgggcgcctgtccttcacGaacctgcgggggaggaggct	6	6	17	12	4	1	0	1	0	0	0	2	4	2	2	3	5	2	1	3	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:1578801G>A	uc001lts.2	-	7	953	c.825C>T	c.(823-825)TTC>TTT	p.F275F		NM_004420	NP_004411	Q13202	DUS8_HUMAN	dual specificity phosphatase 8	275	Tyrosine-protein phosphatase.				inactivation of MAPK activity	cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		all_epithelial(84;0.000134)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000621)|Lung(200;0.0687)|LUSC - Lung squamous cell carcinoma(625;0.0825)		TGTCCTTCACGAACCTGCGGG	0.711													4	9					0	0	1	0	0		A	1578801	A	A	1578801	2	1	89	1	0	0	0	0	0	0	0	1	4837	1049	37	1		1	DUSP8	11	1578801	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	267216	1578801	133427715	4050	57881											
KCNQ1	3784	broad.mit.edu	37	chr11	2609948	2609948	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgttttttttaggtaaaGaaaaaaaagttcaagctgga	15	15	8	3	0	2	1	1	0	1	1	2	2	2	2	0	2	1	4	0	2	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:2609948G>T	uc001lwn.2	+	10	1365	c.1257G>T	c.(1255-1257)AAG>AAT	p.K419N	KCNQ1_uc009ydp.1_Missense_Mutation_p.K203N|KCNQ1_uc001lwo.2_Missense_Mutation_p.K292N	NM_000218	NP_000209	P51787	KCNQ1_HUMAN	potassium voltage-gated channel, KQT-like	419	Cytoplasmic (Potential).				blood circulation|membrane depolarization|muscle contraction|sensory perception of sound		delayed rectifier potassium channel activity|protein binding			ovary(1)	1		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)	TTTAGGTAAAGAAAAAAAAGT	0.562													5	18					0.00116845	0.00118508	1	1	0		T	2609948	T	T	2609948	3	4	89	1	0	0	0	0	1	0	0	0	8098	933	33	5	1304	5	KCNQ1	11	2609948	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1031147	2609948	132396568	4051	57882											
CARS	833	broad.mit.edu	37	chr11	3039178	3039178	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatatctttcacatttaagaAaaactcctgaagttagaaaa	18	12	5	6	0	2	3	1	1	1	2	3	4	3	3	1	0	1	1	1	0	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:3039178A>G	uc001lxh.2	-	14	1461	c.1387T>C	c.(1387-1389)TTC>CTC	p.F463L	CARS_uc001lxe.2_Missense_Mutation_p.F453L|CARS_uc001lxf.2_Missense_Mutation_p.F546L|CARS_uc001lxg.2_Missense_Mutation_p.F463L|CARS_uc010qxo.1_Missense_Mutation_p.F546L|CARS_uc010qxp.1_Missense_Mutation_p.F476L	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	463					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	ACATTTAAGAAAAACTCCTGA	0.373			T	ALK	ALCL								14	28					0	0	1	0	0		G	3039178	G	G	3039178	3	3	89	1	0	0	0	0	1	0	0	0	2660	14	1	3	903	3	CARS	11	3039178	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	429230	3039178	131967338	4052	57883											
NUP98	4928	broad.mit.edu	37	chr11	3716702	3716702	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttccagccaacagagcaaAgatgcgcagtctctcatcct	11	10	7	13	1	2	2	1	0	1	2	5	2	4	2	3	0	4	2	3	0	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:3716702A>G	uc001lyh.2	-	26	4435	c.4144T>C	c.(4144-4146)TTT>CTT	p.F1382L	NUP98_uc001lyi.2_Missense_Mutation_p.F1382L|NUP98_uc001lyg.2_Missense_Mutation_p.F347L	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1399					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		AACAGAGCAAAGATGCGCAGT	0.483			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								77	183					0	0	1	0	0		G	3716702	G	G	3716702	3	3	89	1	0	0	0	0	1	0	0	0	10792	72	3	3	1290	3	NUP98	11	3716702	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	677524	3716702	131289814	4053	57884											
OR52M1	119772	broad.mit.edu	37	chr11	4567211	4567211	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattgctgtttcttccctgaTtcaccgatttggtcagtgtg	5	17	9	10	1	3	1	2	1	1	0	4	2	4	1	2	1	1	2	2	1	0	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:4567211T>C	uc010qyf.1	+	1	791	c.791T>C	c.(790-792)ATT>ACT	p.I264T		NM_001004137	NP_001004137	Q8NGK5	O52M1_HUMAN	olfactory receptor, family 52, subfamily M,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCTTCCCTGATTCACCGATTT	0.498													36	72					0	0	1	0	0		C	4567211	C	C	4567211	3	2	89	1	0	0	0	0	1	0	0	0	11145	1493	52	3	793	3	OR52M1	11	4567211	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	850509	4567211	130439305	4054	57885											
C11orf40	143501	broad.mit.edu	37	chr11	4593454	4593454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagaagctggtgtttcattgCtcccacaggtagaggggctg	8	11	14	8	0	1	2	1	0	0	2	2	2	2	2	1	4	2	5	1	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:4593454C>T	uc010qyg.1	-	3	379	c.379G>A	c.(379-381)GCA>ACA	p.A127T		NM_144663	NP_653264	Q8WZ69	CK040_HUMAN	hypothetical protein LOC143501	127										ovary(2)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;4.28e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		TGTTTCATTGCTCCCACAGGT	0.438													17	58					0	0	1	0	0		T	4593454	T	T	4593454	3	4	89	1	0	0	0	0	1	0	0	0	1642	797	28	2	281	2	C11orf40	11	4593454	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	26243	4593454	130413062	4055	57886											
OR52I2	143502	broad.mit.edu	37	chr11	4608256	4608256	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatcatagccctgttaggaAacaccatcatcgtgactgca	13	9	7	12	1	2	1	2	1	0	0	3	2	2	2	2	1	3	2	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:4608256A>G	uc010qyh.1	+	1	214	c.214A>G	c.(214-216)AAC>GAC	p.N72D		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	72	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		CCTGTTAGGAAACACCATCAT	0.507													74	184					0	0	1	0	0		G	4608256	G	G	4608256	3	3	89	1	0	0	0	0	1	0	0	0	11140	14	1	3	216	3	OR52I2	11	4608256	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	14802	4608256	130398260	4056	57887											
TRIM68	55128	broad.mit.edu	37	chr11	4621672	4621672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtagaaagaaatgtcatggGcctcataatccacgaagatt	15	10	9	7	1	2	3	2	0	0	3	3	4	3	3	2	1	0	1	2	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:4621672G>A	uc001lzf.1	-	7	1530	c.1292C>T	c.(1291-1293)GCC>GTC	p.A431V	TRIM68_uc001lzg.1_Missense_Mutation_p.A208V|TRIM68_uc010qyj.1_RNA	NM_018073	NP_060543	Q6AZZ1	TRI68_HUMAN	ring finger protein 137	431	B30.2/SPRY.				protein autoubiquitination|regulation of androgen receptor signaling pathway	Golgi apparatus|nucleolus|perinuclear region of cytoplasm	androgen receptor binding|histone acetyltransferase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;9.49e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		AATGTCATGGGCCTCATAATC	0.552													22	63					0	0	1	0	0		A	4621672	A	A	4621672	3	1	89	1	0	0	0	0	1	0	0	0	16567	1203	42	2	169	2	TRIM68	11	4621672	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13416	4621672	130384844	4057	57888											
OR51F1	256892	broad.mit.edu	37	chr11	4790838	4790838	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgaatccatgaagaaaaaAcatctggacaatgcagctat	18	8	8	7	0	1	3	0	2	1	1	2	4	2	4	1	1	3	2	1	1	7	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:4790838A>G	uc010qyl.1	-	1	310	c.310T>C	c.(310-312)TTT>CTT	p.F104L		NM_001004752	NP_001004752	A6NLW9	A6NLW9_HUMAN	olfactory receptor, family 51, subfamily F,	104						integral to membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.87e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0045)|LUSC - Lung squamous cell carcinoma(625;0.192)		TGAAGAAAAAACATCTGGACA	0.443													27	39					0	0	1	0	0		G	4790838	G	G	4790838	3	3	89	1	0	0	0	0	1	0	0	0	11115	43	2	3	631	3	OR51F1	11	4790838	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	169166	4790838	130215678	4058	57889											
OR51S1	119692	broad.mit.edu	37	chr11	4870013	4870013	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attacaccattggtgaggagCgctgggtagtggagaggtcg	9	9	17	6	2	0	2	0	1	0	1	1	4	0	3	1	5	2	2	1	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:4870013C>T	uc010qyo.1	-	1	426	c.426G>A	c.(424-426)GCG>GCA	p.A142A		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	142	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		TGGTGAGGAGCGCTGGGTAGT	0.532													49	96					0	0	1	0	0		T	4870013	T	T	4870013	2	4	89	1	0	0	0	0	0	0	0	1	11124	755	27	1		1	OR51S1	11	4870013	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	79175	4870013	130136503	4059	57890											
OR51T1	401665	broad.mit.edu	37	chr11	4904076	4904076	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaatccaagggttcatgggGttttaatgtgaggggtctta	9	13	13	6	0	2	1	1	1	1	0	3	1	3	1	2	5	0	2	2	5	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:4904076G>A	uc010qyp.1	+	1	1028	c.1028G>A	c.(1027-1029)GGT>GAT	p.G343D		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	316	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGTTCATGGGGTTTTAATGTG	0.473													21	44					0	0	1	0	0		A	4904076	A	A	4904076	3	1	89	1	0	0	0	0	1	0	0	0	11125	1261	44	4	1030	4	OR51T1	11	4904076	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	34063	4904076	130102440	4060	57891											
OR52A5	390054	broad.mit.edu	37	chr11	5153774	5153774	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaataagatacatggcagaGaaaggaatcccaatccaaca	19	5	7	10	0	0	2	0	0	0	2	2	4	2	3	3	2	2	1	3	2	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5153774G>T	uc010qyx.1	-	1	99	c.99C>A	c.(97-99)TTC>TTA	p.F33L		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	33	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		ACATGGCAGAGAAAGGAATCC	0.403													25	68					6.12954e-19	7.17843e-19	1	1	0		T	5153774	T	T	5153774	3	4	89	1	0	0	0	0	1	0	0	0	11129	933	33	5	854	5	OR52A5	11	5153774	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	249698	5153774	129852742	4061	57892											
OR52A1	23538	broad.mit.edu	37	chr11	5173501	5173501	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaatgagataaatggcacaGaatggaatcccaatccagca	17	6	9	9	0	0	2	0	1	0	2	2	4	2	3	2	2	1	3	2	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5173501G>A	uc010qyy.1	-	1	99	c.99C>T	c.(97-99)TTC>TTT	p.F33F		NM_012375	NP_036507	Q9UKL2	O52A1_HUMAN	olfactory receptor, family 52, subfamily A,	33	Helical; Name=1; (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.00106)|Breast(177;0.0155)|all_neural(188;0.0189)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAATGGCACAGAATGGAATCC	0.453													23	41					0	0	1	0	0		A	5173501	A	A	5173501	2	1	89	1	0	0	0	0	0	0	0	1	11127	933	33	4		4	OR52A1	11	5173501	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	19727	5173501	129833015	4062	57893											
HBG2	3048	broad.mit.edu	37	chr11	5275593	5275593	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcaaaggtgcccttgaGatcatccaggtgctttatgg	8	11	13	9	0	1	1	1	1	0	1	2	2	2	1	2	4	2	2	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5275593G>T	uc001mai.1	-	2	681	c.244C>A	c.(244-246)CTC>ATC	p.L82I	HBG2_uc001mak.1_RNA|HBG2_uc001maj.1_Missense_Mutation_p.L82I	NM_000559	NP_000550	P69892	HBG2_HUMAN	A-gamma globin	82					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTGCCCTTGAGATCATCCAGG	0.527													12	198					4.3838e-07	4.58765e-07	1	1	0		T	5275593	T	T	5275593	3	4	89	1	0	0	0	0	1	0	0	0	6999	942	33	5	207	5	HBG2	11	5275593	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	102092	5275593	129730923	4063	57894											
OR51B4	79339	broad.mit.edu	37	chr11	5322320	5322320	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttgatgctataaatgataGgattcacgaatggaggaaag	15	11	11	4	1	2	2	1	2	1	0	2	6	2	5	0	3	1	1	0	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5322320G>T	uc010qza.1	-	1	857	c.857C>A	c.(856-858)CCT>CAT	p.P286H	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033179	NP_149419	Q9Y5P0	O51B4_HUMAN	olfactory receptor, family 51, subfamily B,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATAAATGATAGGATTCACGAA	0.423													25	50					9.80776e-20	1.15405e-19	1	1	0		T	5322320	T	T	5322320	3	4	89	1	0	0	0	0	1	0	0	0	11109	1000	35	5	78	5	OR51B4	11	5322320	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	46727	5322320	129684196	4064	57895											
OR51B5	282763	broad.mit.edu	37	chr11	5364321	5364321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caaatcccctcatcagaactCccagcccaatcttcactact	12	9	2	18	0	4	1	3	0	1	1	6	1	6	1	4	0	3	0	4	0	4	2	rs148591287	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5364321C>T	uc001map.1	-	1	434	c.434G>A	c.(433-435)GGA>GAA	p.G145E	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Missense_Mutation_p.G145E	NM_001005567	NP_001005567	Q9H339	O51B5_HUMAN	olfactory receptor, family 51, subfamily B,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.05e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CATCAGAACTCCCAGCCCAAT	0.443													29	66					0	0	1	0	0		T	5364321	T	T	5364321	3	4	89	1	0	0	0	0	1	0	0	0	11110	855	30	4	508	4	OR51B5	11	5364321	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	42001	5364321	129642195	4065	57896											
OR51B6	390058	broad.mit.edu	37	chr11	5373216	5373216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattatgccaatagttgttcGcctacactggtttccctact	8	15	6	12	1	0	0	0	0	0	0	2	0	1	0	3	1	3	3	3	1	5	7	rs112049705		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5373216G>A	uc010qzb.1	+	1	479	c.479G>A	c.(478-480)CGC>CAC	p.R160H	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	160	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATAGTTGTTCGCCTACACTGG	0.478													35	70					0	0	1	0	0		A	5373216	A	A	5373216	3	1	89	1	0	0	0	0	1	0	0	0	11111	1087	38	1	481	1	OR51B6	11	5373216	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8895	5373216	129633300	4066	57897											
OR51B6	390058	broad.mit.edu	37	chr11	5373534	5373534	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcataggtttggaaagcatgTtcctcatgtcgttcacatca	10	14	8	9	1	4	0	4	0	0	0	6	1	5	1	1	2	1	4	1	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5373534T>C	uc010qzb.1	+	1	797	c.797T>C	c.(796-798)GTT>GCT	p.V266A	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	266	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGAAAGCATGTTCCTCATGTC	0.408													60	99					0	0	1	0	0		C	5373534	C	C	5373534	3	2	89	1	0	0	0	0	1	0	0	0	11111	1725	60	3	799	3	OR51B6	11	5373534	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	318	5373534	129632982	4067	57898											
OR51M1	390059	broad.mit.edu	37	chr11	5410951	5410951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatagtatctactttggagCgtgtcaaatccagatgttct	10	14	8	9	1	3	1	1	0	2	1	4	2	4	2	2	1	2	2	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5410951C>T	uc010qzc.1	+	1	323	c.323C>T	c.(322-324)GCG>GTG	p.A108V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004756	NP_001004756	B2RNI9	B2RNI9_HUMAN	olfactory receptor, family 51, subfamily M,	108						integral to membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.98e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TACTTTGGAGCGTGTCAAATC	0.522													66	109					0	0	1	0	0		T	5410951	T	T	5410951	3	4	89	1	0	0	0	0	1	0	0	0	11122	768	27	1	325	1	OR51M1	11	5410951	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	37417	5410951	129595565	4068	57899											
OR51M1	390059	broad.mit.edu	37	chr11	5411514	5411514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaatgtctacctttttgtgCctcccatgcttaacccaatc	8	14	4	15	0	1	0	0	0	1	0	3	0	2	0	5	0	4	1	5	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5411514C>T	uc010qzc.1	+	1	886	c.886C>T	c.(886-888)CCT>TCT	p.P296S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004756	NP_001004756	B2RNI9	B2RNI9_HUMAN	olfactory receptor, family 51, subfamily M,	296						integral to membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.98e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCTTTTTGTGCCTCCCATGCT	0.468													9	29					0	0	1	0	0		T	5411514	T	T	5411514	3	4	89	1	0	0	0	0	1	0	0	0	11122	739	26	2	888	2	OR51M1	11	5411514	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	563	5411514	129595002	4069	57900											
UBQLN3	50613	broad.mit.edu	37	chr11	5529786	5529786	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttataatacccagaaagtTtggaaacctatttctaatgt	14	14	5	8	0	1	1	0	0	1	1	1	2	1	2	3	1	2	1	3	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5529786T>G	uc001may.1	-	2	1089	c.1003A>C	c.(1003-1005)AAC>CAC	p.N335H	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	335										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCCAGAAAGTTTGGAAACCTA	0.507													16	54					0	0	1	0	0		G	5529786	G	G	5529786	3	3	89	1	0	0	0	0	1	0	0	0	16924	1841	64	5	968	5	UBQLN3	11	5529786	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	118272	5529786	129476730	4070	57901											
TRIM6-TRIM34	445372	broad.mit.edu	37	chr11	5631384	5631384	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctttctaggagtgagttCtggaccctgaggaagccaga	9	10	13	9	0	2	3	0	2	2	1	3	6	3	6	3	3	1	1	3	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5631384C>A	uc001mbf.2	+	6	1111	c.867C>A	c.(865-867)TTC>TTA	p.F289L	HBG2_uc001mak.1_Intron|TRIM6_uc009yeo.1_Missense_Mutation_p.F235L|TRIM6_uc010qzj.1_Missense_Mutation_p.F86L|TRIM6_uc001mbc.1_Missense_Mutation_p.F261L|TRIM6_uc001mbe.2_Missense_Mutation_p.F86L|TRIM6_uc010qzk.1_Missense_Mutation_p.F86L|TRIM6_uc010qzl.1_Missense_Mutation_p.F86L|TRIM6_uc001mbd.2_Missense_Mutation_p.F289L|TRIM6_uc001mbg.1_Missense_Mutation_p.F86L|TRIM6_uc009yep.1_Missense_Mutation_p.F86L	NM_001003819	NP_001003819	B2RNG4	B2RNG4_HUMAN	tripartite motif-containing 6 and tripartite	289						intracellular	zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;1.01e-08)|BRCA - Breast invasive adenocarcinoma(625;0.145)		GGAGTGAGTTCTGGACCCTGA	0.522													30	43					1.39806e-14	1.58014e-14	1	1	0		A	5631384	A	A	5631384	3	1	89	1	0	0	0	0	1	0	0	0	16560	912	32	5	889	5	TRIM6-TRIM34	11	5631384	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	101598	5631384	129375132	4071	57902											
TRIM5	85363	broad.mit.edu	37	chr11	5701382	5701382	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaggtcacctcctcctttAcattaaccaggattccagaa	11	10	7	13	0	1	1	1	0	0	1	4	2	4	2	5	3	2	1	5	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5701382A>G	uc001mbm.1	-	2	283	c.26T>C	c.(25-27)GTA>GCA	p.V9A	TRIM5_uc001mbq.1_Missense_Mutation_p.V9A|TRIM5_uc001mbl.1_RNA|TRIM5_uc001mbn.2_Missense_Mutation_p.V9A|TRIM5_uc001mbo.2_Missense_Mutation_p.V9A|TRIM5_uc001mbp.2_Missense_Mutation_p.V9A	NM_033034	NP_149023	Q9C035	TRIM5_HUMAN	tripartite motif protein TRIM5 isoform alpha	9					interspecies interaction between organisms|protein trimerization|response to virus	cytoplasm|cytoplasmic mRNA processing body	ligase activity|protein binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)|Lung NSC(207;0.138)|all_lung(207;0.221)		Epithelial(150;7.21e-09)|BRCA - Breast invasive adenocarcinoma(625;0.139)		CTCCTCCTTTACATTAACCAG	0.552													21	61					0	0	1	0	0		G	5701382	G	G	5701382	3	3	89	1	0	0	0	0	1	0	0	0	16551	391	14	3	1722	3	TRIM5	11	5701382	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	69998	5701382	129305134	4072	57903											
TRIM22	10346	broad.mit.edu	37	chr11	5730393	5730393	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagaattcaaatccatgtGatttttctgcttttggtgtc	9	19	7	6	0	2	2	1	1	1	1	4	2	3	2	1	1	1	1	1	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5730393G>T	uc001mbr.2	+	8	1289	c.1012G>T	c.(1012-1014)GAT>TAT	p.D338Y	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|TRIM22_uc009yes.2_Missense_Mutation_p.D334Y|TRIM22_uc010qzm.1_Missense_Mutation_p.D166Y|TRIM22_uc009yeu.2_Missense_Mutation_p.D149Y|OR56B1_uc001mbs.1_Intron|OR56B1_uc009yev.1_Intron	NM_006074	NP_006065	Q8IYM9	TRI22_HUMAN	tripartite motif-containing 22	338	B30.2/SPRY.				immune response|interspecies interaction between organisms|protein trimerization|response to virus	Cajal body|Golgi apparatus|nuclear speck	ligase activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)		AAATCCATGTGATTTTTCTGC	0.443													31	96					7.68411e-24	9.21644e-24	1	1	0		T	5730393	T	T	5730393	3	4	89	1	0	0	0	0	1	0	0	0	16522	1290	45	5	1038	5	TRIM22	11	5730393	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	29011	5730393	129276123	4073	57904											
OR52N1	79473	broad.mit.edu	37	chr11	5809177	5809177	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccatacacaatagggttCattgtgggaggcattagtag	12	10	11	8	0	1	0	1	0	0	0	1	1	1	1	2	3	1	3	2	3	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5809177C>A	uc010qzo.1	-	1	870	c.870G>T	c.(868-870)ATG>ATT	p.M290I	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001913	NP_001001913	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N,	290	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.05e-11)|LUSC - Lung squamous cell carcinoma(625;0.112)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.195)		CAATAGGGTTCATTGTGGGAG	0.398													57	25					6.60958e-23	7.89986e-23	1	1	0		A	5809177	A	A	5809177	3	1	89	1	0	0	0	0	1	0	0	0	11146	826	29	5	95	5	OR52N1	11	5809177	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	78784	5809177	129197339	4074	57905											
OR52E8	390079	broad.mit.edu	37	chr11	5878752	5878752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtagtacataggctcatggaGactctgctcagtctggatca	10	11	11	9	0	5	1	3	0	2	1	5	3	5	2	0	3	2	4	0	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5878752G>A	uc010qzr.1	-	1	181	c.181C>T	c.(181-183)CTC>TTC	p.L61F	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	61	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGCTCATGGAGACTCTGCTCA	0.468													36	129					0	0	1	0	0		A	5878752	A	A	5878752	3	1	89	1	0	0	0	0	1	0	0	0	11137	942	33	4	774	4	OR52E8	11	5878752	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	69575	5878752	129127764	4075	57906											
OR52E4	390081	broad.mit.edu	37	chr11	5905807	5905807	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaacctccaagagatcagCtttgggggatgccttcttca	9	12	9	11	0	4	1	3	0	1	1	5	3	5	2	3	2	3	1	3	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5905807C>A	uc010qzs.1	+	1	285	c.285C>A	c.(283-285)AGC>AGA	p.S95R	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	95	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAGAGATCAGCTTTGGGGGAT	0.458													42	89					1.47197e-15	1.68038e-15	1	1	0		A	5905807	A	A	5905807	3	1	89	1	0	0	0	0	1	0	0	0	11135	796	28	5	287	5	OR52E4	11	5905807	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27055	5905807	129100709	4076	57907											
OR52E4	390081	broad.mit.edu	37	chr11	5906275	5906275	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgtctgtgttatgctgtgCttttacacaccagcattttt	7	18	7	9	0	1	0	0	0	1	0	1	0	1	0	1	0	4	4	1	0	2	5	rs149421594		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:5906275C>A	uc010qzs.1	+	1	753	c.753C>A	c.(751-753)TGC>TGA	p.C251*	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	251	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTATGCTGTGCTTTTACACAC	0.418													33	92					4.65686e-17	5.37613e-17	1	1	0		A	5906275	A	A	5906275	4	1	89	1	0	0	0	0	0	1	0	0	11135	805	28	5	755	5	OR52E4	11	5906275	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	468	5906275	129100241	4077	57908											
OR56A1	120796	broad.mit.edu	37	chr11	6048000	6048000	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctccctctctgcagtaacTtctgaattccctgttttatc	7	16	4	14	0	2	1	0	1	2	0	6	1	4	1	3	0	2	3	3	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6048000T>G	uc010qzw.1	-	1	935	c.935A>C	c.(934-936)AAG>ACG	p.K312T		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTGCAGTAACTTCTGAATTCC	0.433													27	33					0	0	1	0	0		G	6048000	G	G	6048000	3	3	89	1	0	0	0	0	1	0	0	0	11152	1609	56	5	25	5	OR56A1	11	6048000	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	141725	6048000	128958516	4078	57909											
CNGA4	1262	broad.mit.edu	37	chr11	6261346	6261346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaagggtaggatctcgagtCgctacgttcgcacctggagt	9	9	13	10	4	1	0	0	0	1	0	4	3	1	2	1	3	1	4	1	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6261346C>T	uc001mco.2	+	4	429	c.322C>T	c.(322-324)CGC>TGC	p.R108C	CNGA4_uc010raa.1_Intron|CNGA4_uc001mcn.2_Missense_Mutation_p.R68C	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	108	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GATCTCGAGTCGCTACGTTCG	0.607													57	113					0	0	1	0	0		T	6261346	T	T	6261346	3	4	89	1	0	0	0	0	1	0	0	0	3602	884	31	1	336	1	CNGA4	11	6261346	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	213346	6261346	128745170	4079	57910											
CCKBR	887	broad.mit.edu	37	chr11	6290930	6290930	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccattagaatcactctttaCgcagtgatcttcctgatgag	10	13	8	10	1	3	4	1	3	2	1	4	4	4	4	2	0	1	1	2	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6290930C>T	uc001mcp.2	+	2	376	c.183C>T	c.(181-183)TAC>TAT	p.Y61Y	CCKBR_uc001mcq.2_Translation_Start_Site|CCKBR_uc001mcr.2_Silent_p.Y61Y|CCKBR_uc001mcs.2_Silent_p.Y61Y	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	61	Helical; Name=1; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	TCACTCTTTACGCAGTGATCT	0.532													35	76					0	0	1	0	0		T	6290930	T	T	6290930	2	4	89	1	0	0	0	0	0	0	0	1	2884	547	19	1		1	CCKBR	11	6290930	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	29584	6290930	128715586	4080	57911											
CCKBR	887	broad.mit.edu	37	chr11	6291065	6291065	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacctcctgctggctgtggcTtgcatgcccttcaccctcct	3	12	9	17	0	1	0	1	0	0	0	3	1	3	0	5	2	3	4	5	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6291065T>G	uc001mcp.2	+	2	511	c.318T>G	c.(316-318)GCT>GCG	p.A106A	CCKBR_uc001mcq.2_Silent_p.A34A|CCKBR_uc001mcr.2_Silent_p.A106A|CCKBR_uc001mcs.2_Silent_p.A106A	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	106	Helical; Name=2; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	TGGCTGTGGCTTGCATGCCCT	0.592													29	80					0	0	1	0	0		G	6291065	G	G	6291065	2	3	89	1	0	0	0	0	0	0	0	1	2884	1596	56	5		5	CCKBR	11	6291065	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	135	6291065	128715451	4081	57912											
SMPD1	6609	broad.mit.edu	37	chr11	6412632	6412632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaggaacccaatgtggctCgcgtgggctccgtggccatc	8	7	14	12	3	0	1	0	0	0	1	3	2	1	2	3	4	1	2	3	4	3	0	rs140202512	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6412632C>T	uc001mcw.2	+	2	511	c.337C>T	c.(337-339)CGC>TGC	p.R113C	SMPD1_uc001mcv.1_RNA|SMPD1_uc009yex.2_RNA|SMPD1_uc001mcx.2_Missense_Mutation_p.R113C|SMPD1_uc009yew.2_Missense_Mutation_p.R112C	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	111	Saposin B-type.				cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)	CAATGTGGCTCGCGTGGGCTC	0.592													13	38					0	0	1	0	0		T	6412632	T	T	6412632	3	4	89	1	0	0	0	0	1	0	0	0	14829	884	31	1	343	1	SMPD1	11	6412632	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	121567	6412632	128593884	4082	57913											
SMPD1	6609	broad.mit.edu	37	chr11	6414487	6414487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccccataccccggtctccGcctcatctctctcaatatga	7	12	4	18	2	4	1	2	1	3	0	8	1	5	1	6	1	1	0	6	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6414487G>A	uc001mcw.2	+	3	1307	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	SMPD1_uc001mcv.1_RNA|SMPD1_uc009yex.2_Intron|SMPD1_uc001mcx.2_Intron|SMPD1_uc009yew.2_Missense_Mutation_p.R377H	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	376			R -> H (in NPDB; also found in a patient with an intermediate form).|R -> L (in NPDB).		cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)	CCCGGTCTCCGCCTCATCTCT	0.517													14	21					0	0	1	0	0		A	6414487	A	A	6414487	3	1	89	1	0	0	0	0	1	0	0	0	14829	1087	38	1	1183	1	SMPD1	11	6414487	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1855	6414487	128592029	4083	57914											
ARFIP2	23647	broad.mit.edu	37	chr11	6500092	6500092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggacactctcatacttgCgcttcgtctcacgcagcaac	9	9	8	15	3	2	0	2	0	2	0	5	1	2	1	0	1	4	4	0	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6500092C>T	uc001mdk.2	-	5	550	c.413G>A	c.(412-414)CGC>CAC	p.R138H	ARFIP2_uc001mdl.2_Missense_Mutation_p.R138H|ARFIP2_uc010ral.1_Missense_Mutation_p.R100H|ARFIP2_uc010ram.1_Missense_Mutation_p.R44H|ARFIP2_uc010ran.1_Missense_Mutation_p.R171H|ARFIP2_uc001mdm.2_RNA|FXC1_uc001mdn.3_5'Flank|FXC1_uc001mdo.3_5'Flank	NM_012402	NP_036534	P53365	ARFP2_HUMAN	ADP-ribosylation factor interacting protein 2	138	AH.				actin cytoskeleton organization|cellular component movement|lamellipodium assembly|ruffle organization|small GTPase mediated signal transduction	cell cortex|plasma membrane|ruffle	GTP binding|GTP-dependent protein binding|Rac GTPase binding				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;3.41e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CTCATACTTGCGCTTCGTCTC	0.572													12	33					0	0	1	0	0		T	6500092	T	T	6500092	3	4	89	1	0	0	0	0	1	0	0	0	855	768	27	1	628	1	ARFIP2	11	6500092	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	85605	6500092	128506424	4084	57915											
DNHD1	144132	broad.mit.edu	37	chr11	6540971	6540971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaagctgaagcaagcagagGcctggtggctgcagctggga	11	5	17	8	0	0	3	0	1	0	2	0	4	0	4	1	4	5	6	1	4	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6540971G>A	uc001mdw.3	+	8	2098	c.1534G>A	c.(1534-1536)GCC>ACC	p.A512T	DNHD1_uc001mdp.2_Missense_Mutation_p.A512T|DNHD1_uc001mdq.2_Missense_Mutation_p.A201T	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	512					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GCAAGCAGAGGCCTGGTGGCT	0.517													20	52					0	0	1	0	0		A	6540971	A	A	6540971	3	1	89	1	0	0	0	0	1	0	0	0	4674	1203	42	2	1556	2	DNHD1	11	6540971	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	40879	6540971	128465545	4085	57916											
DNHD1	144132	broad.mit.edu	37	chr11	6588290	6588290	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtattgtgggcaccctatCgacctgtggtttggcatgga	6	13	14	8	1	0	0	0	0	0	0	1	2	0	1	2	5	0	4	2	5	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6588290C>T	uc001mdw.3	+	36	12115	c.11551C>T	c.(11551-11553)CGA>TGA	p.R3851*	DNHD1_uc001mea.3_Nonsense_Mutation_p.R120*|DNHD1_uc001meb.2_Nonsense_Mutation_p.R119*|DNHD1_uc001mec.2_Nonsense_Mutation_p.R119*|DNHD1_uc010rao.1_Nonsense_Mutation_p.R109*|DNHD1_uc009yfg.2_5'Flank	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	3851					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GGCACCCTATCGACCTGTGGT	0.522													35	63					0	0	1	0	0		T	6588290	T	T	6588290	4	4	89	1	0	0	0	0	0	1	0	0	4674	876	31	1	11694	1	DNHD1	11	6588290	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	47319	6588290	128418226	4086	57917											
DNHD1	144132	broad.mit.edu	37	chr11	6591310	6591310	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtcttagcaatccccgtgCtgccatgcaagagctggctg	9	9	11	12	1	1	1	0	0	1	1	2	1	2	1	3	1	5	5	3	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6591310C>G	uc001mdw.3	+	40	13499	c.12935C>G	c.(12934-12936)GCT>GGT	p.A4312G	DNHD1_uc001mea.3_Missense_Mutation_p.A581G|DNHD1_uc001meb.2_Missense_Mutation_p.A580G|DNHD1_uc001mec.2_Missense_Mutation_p.A580G|DNHD1_uc010rao.1_Missense_Mutation_p.A570G|DNHD1_uc009yfg.2_5'UTR	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	4312					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		AATCCCCGTGCTGCCATGCAA	0.552													18	68					0	0	1	0	0		G	6591310	G	G	6591310	3	3	89	1	0	0	0	0	1	0	0	0	4674	797	28	5	13094	5	DNHD1	11	6591310	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3020	6591310	128415206	4087	57918											
OR2AG2	338755	broad.mit.edu	37	chr11	6789862	6789862	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagtaggaggtcctcagcGctacccattgtcagtgccag	8	8	12	13	1	2	0	2	0	0	0	3	1	3	1	4	2	3	2	4	2	2	3	rs145583606	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6789862G>A	uc001meq.1	-	1	327	c.327C>T	c.(325-327)AGC>AGT	p.S109S		NM_001004490	NP_001004490	A6NM03	O2AG2_HUMAN	olfactory receptor, family 2, subfamily AG,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GGTCCTCAGCGCTACCCATTG	0.522													26	68					0	0	1	0	0		A	6789862	A	A	6789862	2	1	89	1	0	0	0	0	0	0	0	1	11004	1078	38	1		1	OR2AG2	11	6789862	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	198552	6789862	128216654	4088	57919											
OR6A2	8590	broad.mit.edu	37	chr11	6816380	6816380	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagaggttgagcaatggaGagacatcacagaaaaagtgg	17	6	14	4	0	1	4	1	2	0	3	1	7	1	5	0	3	1	2	0	3	3	1	rs143570851	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6816380G>T	uc001mes.1	-	1	760	c.560C>A	c.(559-561)TCT>TAT	p.S187Y		NM_003696	NP_003687	O95222	OR6A2_HUMAN	olfactory receptor, family 6, subfamily A,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GAGCAATGGAGAGACATCACA	0.463													55	89					1.70205e-38	2.10718e-38	1	1	0		T	6816380	T	T	6816380	3	4	89	1	0	0	0	0	1	0	0	0	11205	942	33	5	427	5	OR6A2	11	6816380	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	26518	6816380	128190136	4089	57920											
OR10A5	144124	broad.mit.edu	37	chr11	6867289	6867289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggcatatgaccgctatgtgGccatctgcagtcccttgcac	7	11	10	13	1	1	1	0	1	1	0	2	1	2	1	3	2	2	4	3	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6867289G>A	uc001met.1	+	1	376	c.376G>A	c.(376-378)GCC>ACC	p.A126T		NM_178168	NP_835462	Q9H207	O10A5_HUMAN	olfactory receptor, family 10, subfamily A,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CCGCTATGTGGCCATCTGCAG	0.522													59	118					0	0	1	0	0		A	6867289	A	A	6867289	3	1	89	1	0	0	0	0	1	0	0	0	10912	1203	42	2	378	2	OR10A5	11	6867289	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	50909	6867289	128139227	4090	57921											
ZNF215	7762	broad.mit.edu	37	chr11	6977697	6977697	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaatgtaaggaatgtagtAaagccttcaacaggagttca	16	10	9	6	0	3	0	3	0	0	0	3	2	3	2	1	2	2	4	1	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:6977697A>G	uc001mey.2	+	7	2077	c.1489A>G	c.(1489-1491)AAA>GAA	p.K497E	ZNF215_uc010raw.1_3'UTR|ZNF215_uc010rax.1_Missense_Mutation_p.K259E|ZNF215_uc001mez.1_Intron	NM_013250	NP_037382	Q9UL58	ZN215_HUMAN	zinc finger protein 215	497	C2H2-type 4.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;6.33e-08)|BRCA - Breast invasive adenocarcinoma(625;0.134)		GGAATGTAGTAAAGCCTTCAA	0.373													26	66					0	0	1	0	0		G	6977697	G	G	6977697	3	3	89	1	0	0	0	0	1	0	0	0	17796	363	13	3	1507	3	ZNF215	11	6977697	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	110408	6977697	128028819	4091	57922											
ZNF214	7761	broad.mit.edu	37	chr11	7021924	7021924	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatcacactcaattttataGaatttctcttctgtgtggac	10	18	5	8	0	4	1	2	0	2	1	5	2	4	2	0	1	0	0	0	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:7021924G>T	uc001mfa.2	-	3	1293	c.990C>A	c.(988-990)TTC>TTA	p.F330L	ZNF214_uc010ray.1_Missense_Mutation_p.F330L|ZNF214_uc009yfh.1_Missense_Mutation_p.F330L	NM_013249	NP_037381	Q9UL59	ZN214_HUMAN	zinc finger protein 214	330	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				Epithelial(150;3.87e-08)|BRCA - Breast invasive adenocarcinoma(625;0.081)		CAATTTTATAGAATTTCTCTT	0.383													32	70					5.90632e-09	6.31323e-09	1	1	0		T	7021924	T	T	7021924	3	4	89	1	0	0	0	0	1	0	0	0	17795	933	33	5	834	5	ZNF214	11	7021924	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	44227	7021924	127984592	4092	57923											
NLRP14	338323	broad.mit.edu	37	chr11	7063729	7063729	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatggaattgcagagaaaGatagaaaactgttggaacac	18	8	10	5	0	1	3	1	0	0	3	1	6	1	5	0	2	3	2	0	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:7063729G>T	uc001mfb.1	+	4	795	c.472G>T	c.(472-474)GAT>TAT	p.D158Y		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	158					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		TGCAGAGAAAGATAGAAAACT	0.428													26	66					6.12954e-19	7.17843e-19	1	1	0		T	7063729	T	T	7063729	3	4	89	1	0	0	0	0	1	0	0	0	10495	942	33	5	482	5	NLRP14	11	7063729	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	41805	7063729	127942787	4093	57924											
SYT9	143425	broad.mit.edu	37	chr11	7439350	7439350	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtccatagcagtcatggActatgaccggtgagatacct	10	11	10	10	1	1	2	1	2	0	1	2	4	2	3	3	2	2	1	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:7439350A>G	uc001mfe.2	+	5	1565	c.1328A>G	c.(1327-1329)GAC>GGC	p.D443G	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_RNA	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	443	Cytoplasmic (Potential).|C2 2.					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		GCAGTCATGGACTATGACCGG	0.502													36	56					0	0	1	0	0		G	7439350	G	G	7439350	3	3	89	1	0	0	0	0	1	0	0	0	15506	275	10	3	1346	3	SYT9	11	7439350	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	375621	7439350	127567166	4094	57925											
OR10A6	390093	broad.mit.edu	37	chr11	7949332	7949332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctcttcatctcactatttCgcaaactgtagataagcaga	12	12	5	12	1	3	2	2	0	2	2	5	2	3	2	1	0	2	3	1	0	4	5	rs143603778		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:7949332C>T	uc010rbh.1	-	1	878	c.878G>A	c.(877-879)CGA>CAA	p.R293Q		NM_001004461	NP_001004461	Q8NH74	O10A6_HUMAN	olfactory receptor, family 10, subfamily A,	293	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2				Epithelial(150;1.38e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CTCACTATTTCGCAAACTGTA	0.418													38	70					0	0	1	0	0		T	7949332	T	T	7949332	3	4	89	1	0	0	0	0	1	0	0	0	10913	884	31	1	69	1	OR10A6	11	7949332	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	509982	7949332	127057184	4095	57926											
OR10A6	390093	broad.mit.edu	37	chr11	7949936	7949936	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaacagcccccaaaagaaaTtgtagttttttcagtagaga	17	10	7	7	0	1	2	1	0	0	2	1	3	1	2	2	0	2	3	2	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:7949936T>G	uc010rbh.1	-	1	274	c.274A>C	c.(274-276)ATT>CTT	p.I92L		NM_001004461	NP_001004461	Q8NH74	O10A6_HUMAN	olfactory receptor, family 10, subfamily A,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2				Epithelial(150;1.38e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CCAAAAGAAATTGTAGTTTTT	0.433													68	125					0	0	1	0	0		G	7949936	G	G	7949936	3	3	89	1	0	0	0	0	1	0	0	0	10913	1493	52	5	673	5	OR10A6	11	7949936	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	604	7949936	127056580	4096	57927											
STK33	65975	broad.mit.edu	37	chr11	8496386	8496386	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacatacacaaagtacatCtttctgagaagcagatgaac	17	8	8	8	0	2	3	0	2	2	2	2	5	2	4	0	1	5	2	0	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:8496386C>A	uc001mgi.1	-	1	986	c.67G>T	c.(67-69)GAT>TAT	p.D23Y	STK33_uc001mgj.1_Missense_Mutation_p.D23Y|STK33_uc001mgk.1_Missense_Mutation_p.D23Y|STK33_uc010rbn.1_Intron|STK33_uc001mgl.3_Intron|STK33_uc009yfp.2_Intron	NM_030906	NP_112168	Q9BYT3	STK33_HUMAN	serine/threonine kinase 33	23						Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|pancreas(1)|central_nervous_system(1)|skin(1)	7				Epithelial(150;2.13e-06)|BRCA - Breast invasive adenocarcinoma(625;0.239)		CAAAGTACATCTTTCTGAGAA	0.383													52	117					4.6707e-30	5.70484e-30	1	1	0		A	8496386	A	A	8496386	3	1	89	1	0	0	0	0	1	0	0	0	15325	913	32	5	1525	5	STK33	11	8496386	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	546450	8496386	126510130	4097	57928											
ST5	6764	broad.mit.edu	37	chr11	8715670	8715670	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttgtggagaaacttcatTttgttgcctgtgggccagag	7	15	12	7	0	2	2	1	0	1	2	2	3	2	2	2	2	2	1	2	2	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:8715670T>G	uc001mgt.2	-	20	3573	c.3387A>C	c.(3385-3387)AAA>AAC	p.K1129N	ST5_uc009yfr.2_Missense_Mutation_p.K709N|ST5_uc001mgu.2_Missense_Mutation_p.K709N|ST5_uc001mgv.2_Missense_Mutation_p.K1129N|ST5_uc010rbp.1_Missense_Mutation_p.K642N	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	1129					positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		GAAACTTCATTTTGTTGCCTG	0.542													19	62					0	0	1	0	0		G	8715670	G	G	8715670	3	3	89	1	0	0	0	0	1	0	0	0	15245	1838	64	5	30	5	ST5	11	8715670	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	219284	8715670	126290846	4098	57929											
ST5	6764	broad.mit.edu	37	chr11	8724176	8724176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcagtgaggcaaagattCggatgagctggcgcacactg	11	6	15	9	2	0	3	0	2	0	1	1	4	0	4	0	3	2	5	0	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:8724176C>T	uc001mgt.2	-	14	2849	c.2663G>A	c.(2662-2664)CGA>CAA	p.R888Q	ST5_uc009yfr.2_Missense_Mutation_p.R468Q|ST5_uc001mgu.2_Missense_Mutation_p.R468Q|ST5_uc001mgv.2_Missense_Mutation_p.R888Q|ST5_uc010rbp.1_Missense_Mutation_p.R401Q|ST5_uc009yfs.2_RNA	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	888	DENN.				positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		GGCAAAGATTCGGATGAGCTG	0.597													33	59					0	0	1	0	0		T	8724176	T	T	8724176	3	4	89	1	0	0	0	0	1	0	0	0	15245	884	31	1	778	1	ST5	11	8724176	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8506	8724176	126282340	4099	57930											
ST5	6764	broad.mit.edu	37	chr11	8739286	8739286	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgatgtcagggctgagttAcctgtgtgggcgggctgttg	4	11	18	8	2	1	1	1	1	0	0	1	2	1	1	2	3	1	4	2	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:8739286A>G	uc001mgt.2	-	5	1815	c.1629_splice	c.e5+1	p.Q543_splice	ST5_uc009yfr.2_Splice_Site_p.Q123_splice|ST5_uc001mgu.2_Splice_Site_p.Q123_splice|ST5_uc001mgv.2_Splice_Site_p.Q543_splice|ST5_uc010rbq.1_Splice_Site|ST5_uc010rbp.1_Splice_Site_p.Q56_splice	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1						positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		GGGCTGAGTTACCTGTGTGGG	0.572													14	34					0	0	1	0	0		G	8739286	G	G	8739286	5	3	89	1	0	0	0	0	0	0	1	0	15245	405	14	3	1846	3	ST5	11	8739286	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	15110	8739286	126267230	4100	57931											
NRIP3	56675	broad.mit.edu	37	chr11	9007350	9007350	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgagatgccggggtagaGaaagcttttctccttcatgc	8	13	11	9	1	2	2	1	1	1	2	3	4	2	2	2	2	3	2	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:9007350G>T	uc001mhg.2	-	4	584	c.470C>A	c.(469-471)TCT>TAT	p.S157Y	NRIP3_uc010rbu.1_Intron	NM_020645	NP_065696	Q9NQ35	NRIP3_HUMAN	nuclear receptor interacting protein 3	157					proteolysis		aspartic-type endopeptidase activity				0				Epithelial(150;4.77e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0241)		CCGGGGTAGAGAAAGCTTTTC	0.512													44	80					3.54909e-21	4.20329e-21	1	1	0		T	9007350	T	T	9007350	3	4	89	1	0	0	0	0	1	0	0	0	10673	942	33	5	271	5	NRIP3	11	9007350	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	268064	9007350	125999166	4101	57932											
SCUBE2	57758	broad.mit.edu	37	chr11	9051490	9051490	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtagtatttcctgggcaaGaaacacaattattttttcca	12	15	6	8	1	0	1	0	0	0	1	3	1	2	1	2	1	1	3	2	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:9051490G>T	uc001mhh.1	-	18	2437	c.2357C>A	c.(2356-2358)TCT>TAT	p.S786Y	SCUBE2_uc001mhi.1_Missense_Mutation_p.S758Y|SCUBE2_uc001mhj.1_Missense_Mutation_p.S660Y	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	786						extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		TCCTGGGCAAGAAACACAATT	0.428													48	121					1.62263e-30	1.98456e-30	1	1	0		T	9051490	T	T	9051490	3	4	89	1	0	0	0	0	1	0	0	0	13970	942	33	5	662	5	SCUBE2	11	9051490	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	44140	9051490	125955026	4102	57933											
DENND5A	23258	broad.mit.edu	37	chr11	9166618	9166618	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatacagcccagagttatCatggccaatctggacagtag	12	8	11	10	0	2	1	1	0	1	1	2	2	2	2	2	3	2	3	2	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:9166618C>A	uc001mhl.2	-	18	3301	c.3046G>T	c.(3046-3048)GAT>TAT	p.D1016Y	DENND5A_uc001mhk.2_Missense_Mutation_p.D359Y|DENND5A_uc010rbw.1_Missense_Mutation_p.D1016Y	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	1016	PLAT.									liver(1)	1						CCAGAGTTATCATGGCCAATC	0.443													34	104					2.47316e-13	2.76362e-13	1	1	0		A	9166618	A	A	9166618	3	1	89	1	0	0	0	0	1	0	0	0	4442	826	29	5	841	5	DENND5A	11	9166618	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	115128	9166618	125839898	4103	57934											
ZNF143	7702	broad.mit.edu	37	chr11	9522663	9522663	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggccctttaagtgtcccttCgaaggctgcggtcggtcctt	5	12	12	12	3	0	0	0	0	0	0	4	1	2	0	3	4	1	1	3	4	2	4	rs147334022		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:9522663C>T	uc001mhr.2	+	11	1111	c.993C>T	c.(991-993)TTC>TTT	p.F331F	ZNF143_uc009yfu.2_Silent_p.F330F|ZNF143_uc010rby.1_Silent_p.F300F	NM_003442	NP_003433	P52747	ZN143_HUMAN	zinc finger protein 143	331	C2H2-type 4.				regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding|zinc ion binding				0				all cancers(16;4.12e-09)|Epithelial(150;2.29e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0212)		AGTGTCCCTTCGAAGGCTGCG	0.403													30	81					0	0	1	0	0		T	9522663	T	T	9522663	2	4	89	1	0	0	0	0	0	0	0	1	17757	883	31	1		1	ZNF143	11	9522663	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	356045	9522663	125483853	4104	57935											
CTR9	9646	broad.mit.edu	37	chr11	10789639	10789639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaaaagcgtcatcaagatCgtgctctggccatctacaaa	14	8	9	10	2	4	1	2	0	2	1	5	2	4	2	1	2	3	1	1	2	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:10789639C>T	uc001mja.2	+	15	2040	c.1891C>T	c.(1891-1893)CGT>TGT	p.R631C		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	631	TPR 13.				histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		TCATCAAGATCGTGCTCTGGC	0.358													25	58					0	0	1	0	0		T	10789639	T	T	10789639	3	4	89	1	0	0	0	0	1	0	0	0	4027	884	31	1	1949	1	CTR9	11	10789639	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1266976	10789639	124216877	4105	57936											
USP47	55031	broad.mit.edu	37	chr11	11971915	11971915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttatcacatttgtaggtttCgtctaaggaaaaaaacatgg	14	13	8	6	1	2	0	1	0	1	0	3	1	2	1	0	3	1	2	0	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:11971915C>T	uc001mjs.2	+	24	4232	c.3469C>T	c.(3469-3471)CGT>TGT	p.R1157C	USP47_uc001mjr.2_Missense_Mutation_p.R1089C|USP47_uc009ygi.2_5'UTR	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	1177					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		TTGTAGGTTTCGTCTAAGGAA	0.308													17	34					0	0	1	0	0		T	11971915	T	T	11971915	3	4	89	1	0	0	0	0	1	0	0	0	17104	884	31	1	3355	1	USP47	11	11971915	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1182276	11971915	123034601	4106	57937											
USP47	55031	broad.mit.edu	37	chr11	11971986	11971986	+	Translation_Start_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catatttatgaagaagatatTaatatttccagcaactggga	16	13	7	5	0	0	3	0	1	0	2	1	4	1	4	1	1	2	1	1	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:11971986T>G	uc009ygi.2	+	1	76	c.-127T>G	c.(-129--125)ATTAA>ATGAA		USP47_uc001mjr.2_Missense_Mutation_p.I1112M|USP47_uc001mjs.2_Missense_Mutation_p.I1180M			Q96K76	UBP47_HUMAN	RecName: Full=Ubiquitin carboxyl-terminal hydrolase 47;          EC=3.1.2.15; AltName: Full=Ubiquitin thioesterase 47; AltName: Full=Ubiquitin-specific-processing protease 47; AltName: Full=Deubiquitinating enzyme 47;						base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		AAGAAGATATTAATATTTCCA	0.318													36	64					0	0	1	0	0		G	11971986	G	G	11971986	1	3	89	1	0	0	0	0	0	0	0	0	17104	1742	61	5		5	USP47	11	11971986	Translation_Start_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	71	11971986	123034530	4107	57938											
MICAL2	9645	broad.mit.edu	37	chr11	12231140	12231140	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatggccgcaggaacacccTggaaggtgaagactcttctt	10	8	12	11	2	2	2	0	1	2	1	2	5	2	4	2	4	1	1	2	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:12231140T>C	uc001mjz.2	+	6	974	c.686T>C	c.(685-687)CTG>CCG	p.L229P	MICAL2_uc010rch.1_Missense_Mutation_p.L229P|MICAL2_uc001mka.2_Missense_Mutation_p.L229P|MICAL2_uc010rci.1_Missense_Mutation_p.L229P|MICAL2_uc001mkb.2_Missense_Mutation_p.L229P|MICAL2_uc001mkc.2_Missense_Mutation_p.L229P|MICAL2_uc001mkd.2_Missense_Mutation_p.L58P	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	229						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		AGGAACACCCTGGAAGGTGAA	0.527													19	61					0	0	1	0	0		C	12231140	C	C	12231140	3	2	89	1	0	0	0	0	1	0	0	0	9588	1580	55	3	700	3	MICAL2	11	12231140	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	259154	12231140	122775376	4108	57939											
MICALCL	84953	broad.mit.edu	37	chr11	12315174	12315174	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcctcccaccccaaactttCggaggcgagccgtagcccaa	9	6	9	17	3	0	0	0	0	0	0	3	2	2	1	6	2	3	1	6	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:12315174C>T	uc001mkg.1	+	3	487	c.196C>T	c.(196-198)CGG>TGG	p.R66W		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	66	Interaction with MAPK1 (By similarity).				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		CCCAAACTTTCGGAGGCGAGC	0.552													51	153					0	0	1	0	0		T	12315174	T	T	12315174	3	4	89	1	0	0	0	0	1	0	0	0	9590	875	31	1	202	1	MICALCL	11	12315174	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	84034	12315174	122691342	4109	57940											
PARVA	55742	broad.mit.edu	37	chr11	12535563	12535563	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacactcatcactttcgtgaAcaagcacctgaataaactga	15	9	6	11	1	2	3	2	3	0	0	3	4	2	3	1	0	3	1	1	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:12535563A>G	uc001mki.2	+	10	867	c.818A>G	c.(817-819)AAC>AGC	p.N273S		NM_018222	NP_060692	Q9NVD7	PARVA_HUMAN	parvin, alpha	273	CH 2.				cell adhesion|cell junction assembly|cilium morphogenesis	actin cytoskeleton|cytosol|focal adhesion	actin binding			breast(3)	3				Epithelial(150;0.00624)		ACTTTCGTGAACAAGCACCTG	0.572													15	27					0	0	1	0	0		G	12535563	G	G	12535563	3	3	89	1	0	0	0	0	1	0	0	0	11487	43	2	3	856	3	PARVA	11	12535563	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	220389	12535563	122470953	4110	57941											
ARNTL	406	broad.mit.edu	37	chr11	13380010	13380010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcagattgaaaagcggcGtcgggataaaatgaacagtt	15	8	12	6	3	1	3	1	2	0	1	2	4	1	4	0	2	2	1	0	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:13380010G>A	uc001mkr.2	+	8	659	c.251G>A	c.(250-252)CGT>CAT	p.R84H	ARNTL_uc001mko.2_Missense_Mutation_p.R41H|ARNTL_uc001mkp.2_Missense_Mutation_p.R84H|ARNTL_uc001mkq.2_Missense_Mutation_p.R84H|ARNTL_uc001mks.2_Missense_Mutation_p.R41H|ARNTL_uc001mkt.2_Missense_Mutation_p.R84H|ARNTL_uc001mku.2_RNA|ARNTL_uc009ygm.1_Missense_Mutation_p.R41H|ARNTL_uc001mkv.1_Missense_Mutation_p.R41H|ARNTL_uc001mkw.2_Missense_Mutation_p.R41H|ARNTL_uc001mkx.2_Missense_Mutation_p.R82H	NM_001178	NP_001169	O00327	BMAL1_HUMAN	aryl hydrocarbon receptor nuclear	84	Basic motif.				circadian rhythm|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	aryl hydrocarbon receptor binding|DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0				Epithelial(150;0.0243)		GAAAAGCGGCGTCGGGATAAA	0.353													57	135					0	0	1	0	0		A	13380010	A	A	13380010	3	1	89	1	0	0	0	0	1	0	0	0	968	1145	40	1	280	1	ARNTL	11	13380010	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	844447	13380010	121626506	4111	57942											
RRAS2	22800	broad.mit.edu	37	chr11	14300968	14300968	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacattcctgctcttgaaatTtcctgtaagataaaaaattc	14	14	5	8	0	1	2	0	1	1	1	4	3	3	2	2	0	1	2	2	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:14300968T>G	uc001mlf.3	-	6	843	c.530A>C	c.(529-531)AAA>ACA	p.K177T	RRAS2_uc009ygq.2_Missense_Mutation_p.K100T|RRAS2_uc010rco.1_Missense_Mutation_p.K183T	NM_012250	NP_036382	P62070	RRAS2_HUMAN	related RAS viral (r-ras) oncogene homolog 2	177						endoplasmic reticulum|plasma membrane	GTP binding|GTPase activity|protein binding			breast(1)	1				Epithelial(150;0.203)		CTCTTGAAATTTCCTGTAAGA	0.333													33	68					0	0	1	0	0		G	14300968	G	G	14300968	3	3	89	1	0	0	0	0	1	0	0	0	13702	1841	64	5	88	5	RRAS2	11	14300968	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	920958	14300968	120705548	4112	57943											
COPB1	1315	broad.mit.edu	37	chr11	14490365	14490365	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agttgcatgaaggaaatgggGtcatcaggctgtactgtcac	11	10	13	7	0	3	1	3	1	0	0	3	2	3	2	0	4	2	4	0	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:14490365G>A	uc001mli.2	-	16	2314	c.2007C>T	c.(2005-2007)GAC>GAT	p.D669D	COPB1_uc001mlg.2_Silent_p.D669D|COPB1_uc001mlh.2_Silent_p.D669D	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	669					COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						AGGAAATGGGGTCATCAGGCT	0.383													70	148					0	0	1	0	0		A	14490365	A	A	14490365	2	1	89	1	0	0	0	0	0	0	0	1	3731	1252	44	4		4	COPB1	11	14490365	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	189397	14490365	120516151	4113	57944											
PDE3B	5140	broad.mit.edu	37	chr11	14880774	14880774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaaagcattttgattttctCgcagaattcaatgccaaggt	14	13	7	7	1	2	2	1	1	1	1	3	2	2	2	1	1	2	2	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:14880774C>T	uc001mln.2	+	13	3059	c.2706C>T	c.(2704-2706)CTC>CTT	p.L902L	PDE3B_uc010rcr.1_Silent_p.L851L	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	902	Catalytic (By similarity).				cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						TTGATTTTCTCGCAGAATTCA	0.308													18	37					0	0	1	0	0		T	14880774	T	T	14880774	2	4	89	1	0	0	0	0	0	0	0	1	11657	871	31	1		1	PDE3B	11	14880774	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	390409	14880774	120125742	4114	57945											
PDE3B	5140	broad.mit.edu	37	chr11	14891108	14891108	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatcgtagaggaagaagaaAaatgtaaagctgatgggaat	20	7	12	2	1	0	4	0	1	0	3	1	6	0	6	0	2	1	3	0	2	9	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:14891108A>C	uc001mln.2	+	16	3594	c.3241A>C	c.(3241-3243)AAA>CAA	p.K1081Q	PDE3B_uc010rcr.1_Missense_Mutation_p.K1030Q	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	1081					cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						GGAAGAAGAAAAATGTAAAGC	0.428													20	81					0	0	1	0	0		C	14891108	C	C	14891108	3	2	89	1	0	0	0	0	1	0	0	0	11657	15	1	5	3303	5	PDE3B	11	14891108	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	10334	14891108	120115408	4115	57946											
CYP2R1	120227	broad.mit.edu	37	chr11	14901790	14901790	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgagaaaattaggttttCtttggagaaagtagatgatg	14	13	11	3	0	1	4	0	2	1	3	1	6	1	4	0	2	0	2	0	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:14901790C>A	uc001mlr.2	-	3	892	c.892G>T	c.(892-894)GAA>TAA	p.E298*	CYP2R1_uc001mlo.2_Nonsense_Mutation_p.E65*|CYP2R1_uc001mlp.2_Nonsense_Mutation_p.E181*|CYP2R1_uc001mlq.2_RNA|CYP2R1_uc001mls.1_Nonsense_Mutation_p.E243*	NM_024514	NP_078790	Q6VVX0	CP2R1_HUMAN	cytochrome P450, family 2, subfamily R,	298					hormone biosynthetic process|vitamin D metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholestanetriol 26-monooxygenase activity|electron carrier activity|heme binding|vitamin D3 25-hydroxylase activity			ovary(1)|central_nervous_system(1)	2					Cholecalciferol(DB00169)|Ergocalciferol(DB00153)	ATTAGGTTTTCTTTGGAGAAA	0.403													23	62					3.5997e-14	4.05566e-14	1	1	0		A	14901790	A	A	14901790	4	1	89	1	0	0	0	0	0	1	0	0	4176	922	32	5	625	5	CYP2R1	11	14901790	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10682	14901790	120104726	4116	57947											
CYP2R1	120227	broad.mit.edu	37	chr11	14907379	14907379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtctgtctgcaaaaatttCgctttgatgaacaaggcatt	11	14	9	7	1	2	2	0	2	2	0	3	2	2	2	0	2	2	3	0	2	4	3	rs61744571		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:14907379C>T	uc001mlr.2	-	2	310	c.310G>A	c.(310-312)GAA>AAA	p.E104K	CYP2R1_uc001mlo.2_Missense_Mutation_p.R7Q|CYP2R1_uc001mlp.2_5'UTR|CYP2R1_uc001mlq.2_RNA|CYP2R1_uc001mls.1_Missense_Mutation_p.E49K	NM_024514	NP_078790	Q6VVX0	CP2R1_HUMAN	cytochrome P450, family 2, subfamily R,	104					hormone biosynthetic process|vitamin D metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholestanetriol 26-monooxygenase activity|electron carrier activity|heme binding|vitamin D3 25-hydroxylase activity			ovary(1)|central_nervous_system(1)	2					Cholecalciferol(DB00169)|Ergocalciferol(DB00153)	GCAAAAATTTCGCTTTGATGA	0.348													29	56					0	0	1	0	0		T	14907379	T	T	14907379	3	4	89	1	0	0	0	0	1	0	0	0	4176	893	31	1	1211	1	CYP2R1	11	14907379	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5589	14907379	120099137	4117	57948											
SOX6	55553	broad.mit.edu	37	chr11	16119153	16119153	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttttttcttctggcacttAcctggagctgtaaagggctg	7	16	10	8	0	2	0	0	0	2	0	2	1	2	1	1	3	2	4	1	3	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:16119153A>G	uc001mme.2	-	8	1050	c.1017_splice	c.e8+1	p.Q339_splice	SOX6_uc001mmd.2_Splice_Site_p.Q329_splice|SOX6_uc001mmf.2_Splice_Site_p.Q326_splice|SOX6_uc001mmg.2_Splice_Site_p.Q326_splice	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4						muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						TCTGGCACTTACCTGGAGCTG	0.428													13	29					0	0	1	0	0		G	16119153	G	G	16119153	5	3	89	1	0	0	0	0	0	0	1	0	14980	405	14	3	1584	3	SOX6	11	16119153	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1211774	16119153	118887363	4118	57949											
SOX6	55553	broad.mit.edu	37	chr11	16208354	16208354	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctgttggcgagcaaggTccatttgctgccgttgtttc	4	15	12	10	2	0	0	0	0	0	0	2	1	1	0	2	2	4	6	2	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:16208354T>C	uc001mme.2	-	5	755	c.722A>G	c.(721-723)GAC>GGC	p.D241G	SOX6_uc001mmd.2_Missense_Mutation_p.D231G|SOX6_uc001mmf.2_Missense_Mutation_p.D228G|SOX6_uc001mmg.2_Missense_Mutation_p.D228G	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	228	Potential.|Gln-rich.				muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						GCGAGCAAGGTCCATTTGCTG	0.493													46	125					0	0	1	0	0		C	16208354	C	C	16208354	3	2	89	1	0	0	0	0	1	0	0	0	14980	1667	58	3	1893	3	SOX6	11	16208354	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	89201	16208354	118798162	4119	57950											
PLEKHA7	144100	broad.mit.edu	37	chr11	16824525	16824525	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactgacacgtactttgttCtctttaagggctcgtatctt	9	16	7	9	2	2	1	0	1	2	0	4	1	2	1	0	1	2	4	0	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:16824525C>A	uc001mmo.2	-	15	2166	c.2151G>T	c.(2149-2151)GAG>GAT	p.E717D	PLEKHA7_uc010rcu.1_Missense_Mutation_p.E717D|PLEKHA7_uc010rcv.1_Missense_Mutation_p.E291D|PLEKHA7_uc001mmn.2_Missense_Mutation_p.E425D	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	717	Potential.				epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3						GTACTTTGTTCTCTTTAAGGG	0.448													39	69					3.76604e-16	4.31307e-16	1	1	0		A	16824525	A	A	16824525	3	1	89	1	0	0	0	0	1	0	0	0	12080	912	32	5	1250	5	PLEKHA7	11	16824525	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	616171	16824525	118181991	4120	57951											
PLEKHA7	144100	broad.mit.edu	37	chr11	16863173	16863173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcatgtcctcctgggtgtCggcactgaagtagtaggtcc	6	12	13	10	1	1	1	1	1	0	0	5	1	4	1	3	3	0	4	3	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:16863173C>T	uc001mmo.2	-	9	808	c.793G>A	c.(793-795)GAC>AAC	p.D265N	PLEKHA7_uc010rcu.1_Missense_Mutation_p.D265N	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	265	PH.				epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3						TCCTGGGTGTCGGCACTGAAG	0.587													31	71					0	0	1	0	0		T	16863173	T	T	16863173	3	4	89	1	0	0	0	0	1	0	0	0	12080	884	31	1	2632	1	PLEKHA7	11	16863173	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	38648	16863173	118143343	4121	57952											
PLEKHA7	144100	broad.mit.edu	37	chr11	16892681	16892681	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattcactattttctggagaAaactgtcccgtcacaggatg	12	12	8	9	1	3	1	2	0	1	1	4	3	4	2	1	2	1	0	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:16892681A>G	uc001mmo.2	-	4	285	c.270T>C	c.(268-270)TTT>TTC	p.F90F	PLEKHA7_uc010rcu.1_Silent_p.F90F	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	90					epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3						TTTCTGGAGAAAACTGTCCCG	0.413													15	34					0	0	1	0	0		G	16892681	G	G	16892681	2	3	89	1	0	0	0	0	0	0	0	1	12080	11	1	3		3	PLEKHA7	11	16892681	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	29508	16892681	118113835	4122	57953											
PIK3C2A	5286	broad.mit.edu	37	chr11	17139172	17139172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagagcacccaaaacatgttCgtatcgggtactaaactgta	14	9	9	9	2	0	1	0	0	0	1	2	2	0	1	1	1	4	5	1	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:17139172C>T	uc001mmq.3	-	18	3148	c.3082G>A	c.(3082-3084)GAA>AAA	p.E1028K	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Missense_Mutation_p.E648K|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	1028					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	AAAACATGTTCGTATCGGGTA	0.378													34	59					0	0	1	0	0		T	17139172	T	T	17139172	3	4	89	1	0	0	0	0	1	0	0	0	11928	893	31	1	2038	1	PIK3C2A	11	17139172	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	246491	17139172	117867344	4123	57954											
PIK3C2A	5286	broad.mit.edu	37	chr11	17177086	17177086	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttactttgtaatggatcGacaaaaagctgccatctcct	11	13	6	11	1	1	0	0	0	1	0	4	2	2	1	3	1	3	2	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:17177086G>A	uc001mmq.3	-	2	1222	c.1156C>T	c.(1156-1158)CGA>TGA	p.R386*	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Nonsense_Mutation_p.R6*|PIK3C2A_uc001mmr.3_RNA|PIK3C2A_uc010rcx.1_Nonsense_Mutation_p.R386*|PIK3C2A_uc009ygv.1_Nonsense_Mutation_p.R386*	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	386					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	GTAATGGATCGACAAAAAGCT	0.303													20	52					0	0	1	0	0		A	17177086	A	A	17177086	4	1	89	1	0	0	0	0	0	1	0	0	11928	1066	37	1	4028	1	PIK3C2A	11	17177086	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	37914	17177086	117829430	4124	57955											
PIK3C2A	5286	broad.mit.edu	37	chr11	17190351	17190351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagatgacaatttgctgtcGatctctcttcaagaagaaca	14	11	7	9	1	3	4	1	1	2	3	5	5	3	4	0	0	2	1	0	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:17190351G>A	uc001mmq.3	-	1	1004	c.938C>T	c.(937-939)TCG>TTG	p.S313L	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Intron|PIK3C2A_uc001mmr.3_RNA|PIK3C2A_uc010rcx.1_Missense_Mutation_p.S313L|PIK3C2A_uc009ygv.1_Missense_Mutation_p.S313L	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	313					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	ATTTGCTGTCGATCTCTCTTC	0.393													28	109					0	0	1	0	0		A	17190351	A	A	17190351	3	1	89	1	0	0	0	0	1	0	0	0	11928	1059	37	1	4250	1	PIK3C2A	11	17190351	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13265	17190351	117816165	4125	57956											
TPH1	7166	broad.mit.edu	37	chr11	18042653	18042653	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctttcaggatctgaataCtccgtgtatatggattatac	10	16	8	7	1	3	1	1	1	2	0	4	3	4	3	1	2	2	1	1	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:18042653C>T	uc001mnp.2	-	10	1246	c.1220G>A	c.(1219-1221)AGT>AAT	p.S407N	TPH1_uc009yhe.2_RNA	NM_004179	NP_004170	P17752	TPH1_HUMAN	tryptophan hydroxylase 1	407					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity				0					L-Tryptophan(DB00150)|Tetrahydrobiopterin(DB00360)	GATCTGAATACTCCGTGTATA	0.403													63	60					0	0	1	0	0		T	18042653	T	T	18042653	3	4	89	1	0	0	0	0	1	0	0	0	16427	565	20	4	118	4	TPH1	11	18042653	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	852302	18042653	116963863	4126	57957											
TPH1	7166	broad.mit.edu	37	chr11	18057677	18057677	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactcgatatgtaacagatTcacatgcttctcctgtgtaa	11	13	8	9	1	2	1	1	0	1	1	4	3	2	2	1	1	2	3	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:18057677T>C	uc001mnp.2	-	2	156	c.130A>G	c.(130-132)AAT>GAT	p.N44D	TPH1_uc009yhe.2_RNA	NM_004179	NP_004170	P17752	TPH1_HUMAN	tryptophan hydroxylase 1	44	ACT.				aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity				0					L-Tryptophan(DB00150)|Tetrahydrobiopterin(DB00360)	TGTAACAGATTCACATGCTTC	0.338													10	34					0	0	1	0	0		C	18057677	C	C	18057677	3	2	89	1	0	0	0	0	1	0	0	0	16427	1783	62	3	1240	3	TPH1	11	18057677	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15024	18057677	116948839	4127	57958											
MRGPRX3	117195	broad.mit.edu	37	chr11	18159568	18159568	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaccccatcatttacttCttcgtgggctcctttaggca	7	13	7	14	1	2	0	1	0	1	0	4	0	3	0	4	2	2	2	4	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:18159568C>A	uc001mnu.2	+	3	1180	c.819C>A	c.(817-819)TTC>TTA	p.F273L		NM_054031	NP_473372	Q96LB0	MRGX3_HUMAN	MAS-related GPR, member X3	273	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						TCATTTACTTCTTCGTGGGCT	0.507													31	63					5.60225e-13	6.24063e-13	1	1	0		A	18159568	A	A	18159568	3	1	89	1	0	0	0	0	1	0	0	0	9786	912	32	5	821	5	MRGPRX3	11	18159568	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	101891	18159568	116846948	4128	57959											
SAA2	6289	broad.mit.edu	37	chr11	18267004	18267004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatttattggcagcctgatCggccagcgagtcctccgcac	7	9	10	15	3	0	1	0	1	0	0	3	2	2	1	5	2	2	2	5	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:18267004C>T	uc001mnz.3	-	4	326	c.289G>A	c.(289-291)GAT>AAT	p.D97N	SAA2_uc009yhj.2_Intron	NM_030754	NP_110381	P02735	SAA_HUMAN	serum amyloid A2 isoform a	97				ADQAAN -> SEATVK (in Ref. 11; AA sequence).	acute-phase response|elevation of cytosolic calcium ion concentration|innate immune response|lymphocyte chemotaxis|macrophage chemotaxis|negative regulation of inflammatory response|neutrophil chemotaxis|platelet activation|positive regulation of cell adhesion|positive regulation of interleukin-1 secretion	high-density lipoprotein particle	G-protein-coupled receptor binding				0					Human Serum Albumin(DB00062)|Serum albumin iodonated(DB00064)	GCAGCCTGATCGGCCAGCGAG	0.557													26	48					0	0	1	0	0		T	18267004	T	T	18267004	3	4	89	1	0	0	0	0	1	0	0	0	13824	884	31	1	109	1	SAA2	11	18267004	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	107436	18267004	116739512	4129	57960											
HPS5	11234	broad.mit.edu	37	chr11	18309169	18309169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacaaagttgtatgatatccGatggcaaaatggatggaaag	16	9	12	4	1	0	1	0	1	0	0	1	5	1	3	1	3	0	3	1	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:18309169G>A	uc001mod.1	-	18	2908	c.2630C>T	c.(2629-2631)TCG>TTG	p.S877L	HPS5_uc001moe.1_Missense_Mutation_p.S763L|HPS5_uc001mof.1_Missense_Mutation_p.S763L	NM_181507	NP_852608	Q9UPZ3	HPS5_HUMAN	Hermansky-Pudlak syndrome 5 isoform a	877						cytosol				ovary(1)|pancreas(1)|skin(1)	3						TATGATATCCGATGGCAAAAT	0.403									Hermansky-Pudlak_syndrome				24	60					0	0	1	0	0		A	18309169	A	A	18309169	3	1	89	1	0	0	0	0	1	0	0	0	7358	1059	37	1	783	1	HPS5	11	18309169	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	42165	18309169	116697347	4130	57961											
LDHA	3939	broad.mit.edu	37	chr11	18421014	18421014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgctcttgttgatgtcatcGaagacaaattgaagggagag	12	12	12	5	1	2	4	1	2	1	2	3	6	2	4	0	1	1	2	0	1	3	4	rs144856598		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:18421014G>A	uc001mok.3	+	3	435	c.163G>A	c.(163-165)GAA>AAA	p.E55K	LDHA_uc010rdc.1_Missense_Mutation_p.E55K|LDHA_uc009yhn.2_Missense_Mutation_p.E55K|LDHA_uc009yho.2_Intron|LDHA_uc001mol.3_Missense_Mutation_p.E55K|LDHA_uc010rdd.1_Missense_Mutation_p.E84K	NM_005566	NP_005557	P00338	LDHA_HUMAN	lactate dehydrogenase A isoform 1	55	NAD.				glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity|protein binding			central_nervous_system(3)	3					NADH(DB00157)	TGATGTCATCGAAGACAAATT	0.378													41	79					0	0	1	0	0		A	18421014	A	A	18421014	3	1	89	1	0	0	0	0	1	0	0	0	8714	1059	37	1	260	1	LDHA	11	18421014	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	111845	18421014	116585502	4131	57962											
TSG101	7251	broad.mit.edu	37	chr11	18536371	18536371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagtagccataggcatattgGaatattgtatgtattacctg	12	14	9	6	0	0	0	0	0	0	0	0	1	0	1	2	2	2	4	2	2	8	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:18536371G>A	uc001mor.2	-	4	337	c.211C>T	c.(211-213)CCA>TCA	p.P71S	TSG101_uc001mos.1_Missense_Mutation_p.P19S|TSG101_uc009yhs.1_Intron	NM_006292	NP_006283	Q99816	TS101_HUMAN	tumor susceptibility gene 101	71	UEV.				cell division|cellular membrane organization|endosome transport|interspecies interaction between organisms|non-lytic virus budding|protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	early endosome|late endosome membrane|multivesicular body|nucleolus|plasma membrane	calcium-dependent protein binding|DNA binding|transcription corepressor activity|ubiquitin binding|ubiquitin protein ligase binding				0						AGGCATATTGGAATATTGTAT	0.313													50	142					0	0	1	0	0		A	18536371	A	A	18536371	3	1	89	1	0	0	0	0	1	0	0	0	16642	1174	41	4	989	4	TSG101	11	18536371	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	115357	18536371	116470145	4132	57963											
TMEM86A	144110	broad.mit.edu	37	chr11	18723139	18723139	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtctgctgatgtttgctgtGacccacatgttctacgcctc	5	14	10	12	1	2	2	0	2	2	0	3	2	2	2	2	1	3	4	2	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:18723139G>A	uc001moz.1	+	3	389	c.306G>A	c.(304-306)GTG>GTA	p.V102V		NM_153347	NP_699178	Q8N2M4	TM86A_HUMAN	transmembrane protein 86A	102	Helical; (Potential).					integral to membrane				ovary(1)	1						TGTTTGCTGTGACCCACATGT	0.587													37	81					0	0	1	0	0		A	18723139	A	A	18723139	2	1	89	1	0	0	0	0	0	0	0	1	16233	1277	45	4		4	TMEM86A	11	18723139	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	186768	18723139	116283377	4133	57964											
SLC6A5	9152	broad.mit.edu	37	chr11	20668389	20668389	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatttgcaggcttgcaaaGattctgtgaagatatagaga	13	13	10	5	0	2	4	0	1	2	3	2	5	2	4	0	1	2	3	0	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:20668389G>T	uc001mqd.2	+	14	2252	c.1979G>T	c.(1978-1980)AGA>ATA	p.R660I	SLC6A5_uc009yic.2_Missense_Mutation_p.R425I	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	660					synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	GGCTTGCAAAGATTCTGTGAA	0.473													7	40					2.7689e-08	2.93819e-08	1	1	0		T	20668389	T	T	20668389	3	4	89	1	0	0	0	0	1	0	0	0	14712	942	33	5	2033	5	SLC6A5	11	20668389	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1945250	20668389	114338127	4134	57965											
SLC6A5	9152	broad.mit.edu	37	chr11	20673936	20673936	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatggctaatgctcgcctgTtccgtcatctggatcccaat	7	12	10	12	2	2	0	1	0	1	0	5	2	4	2	3	3	1	3	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:20673936T>C	uc001mqd.2	+	15	2445	c.2172T>C	c.(2170-2172)TGT>TGC	p.C724C	SLC6A5_uc009yic.2_Silent_p.C489C	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	724	Helical; Name=12; (Potential).				synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	TGCTCGCCTGTTCCGTCATCT	0.463													49	97					0	0	1	0	0		C	20673936	C	C	20673936	2	2	89	1	0	0	0	0	0	0	0	1	14712	1731	60	3		3	SLC6A5	11	20673936	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	5547	20673936	114332580	4135	57966											
NELL1	4745	broad.mit.edu	37	chr11	21135211	21135211	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccttcctgggttatatcgCtgtgactgtgtcccaggata	8	13	10	10	1	0	1	0	1	0	0	3	2	2	2	3	2	1	2	3	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:21135211C>T	uc001mqe.2	+	13	1530	c.1377C>T	c.(1375-1377)CGC>CGT	p.R459R	NELL1_uc001mqf.2_Silent_p.R459R|NELL1_uc009yid.2_Silent_p.R487R|NELL1_uc010rdo.1_Silent_p.R402R|NELL1_uc010rdp.1_Silent_p.R219R	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	459	EGF-like 2; calcium-binding (Potential).				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						GGTTATATCGCTGTGACTGTG	0.403													46	68					0	0	1	0	0		T	21135211	T	T	21135211	2	4	89	1	0	0	0	0	0	0	0	1	10352	784	28	2		2	NELL1	11	21135211	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	461275	21135211	113871305	4136	57967											
NELL1	4745	broad.mit.edu	37	chr11	21135236	21135236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgtgtcccaggatacattCgtgtggatgacttctcttgt	7	15	10	9	1	1	1	0	1	1	0	4	3	2	3	1	2	1	0	1	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:21135236C>T	uc001mqe.2	+	13	1555	c.1402C>T	c.(1402-1404)CGT>TGT	p.R468C	NELL1_uc001mqf.2_Missense_Mutation_p.R468C|NELL1_uc009yid.2_Missense_Mutation_p.R496C|NELL1_uc010rdo.1_Missense_Mutation_p.R411C|NELL1_uc010rdp.1_Missense_Mutation_p.R228C	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	468	EGF-like 2; calcium-binding (Potential).				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						AGGATACATTCGTGTGGATGA	0.403													49	67					0	0	1	0	0		T	21135236	T	T	21135236	3	4	89	1	0	0	0	0	1	0	0	0	10352	884	31	1	1452	1	NELL1	11	21135236	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	25	21135236	113871280	4137	57968											
ANO5	203859	broad.mit.edu	37	chr11	22291982	22291982	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttttctatgagtacttaGaaacaggtaatttttaacca	13	15	7	6	0	1	2	0	1	1	1	1	2	1	2	1	2	3	3	1	2	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:22291982G>T	uc001mqi.2	+	18	2340	c.2023G>T	c.(2023-2025)GAA>TAA	p.E675*	ANO5_uc001mqj.2_Nonsense_Mutation_p.E674*	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	675	Extracellular (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						TGAGTACTTAGAAACAGGTAA	0.373													43	106					2.47872e-24	2.97694e-24	1	1	0		T	22291982	T	T	22291982	4	4	89	1	0	0	0	0	0	1	0	0	700	943	33	5	2093	5	ANO5	11	22291982	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1156746	22291982	112714534	4138	57969											
SLC17A6	57084	broad.mit.edu	37	chr11	22396342	22396342	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacacttagtaatgacaatTattgtgcctattgggggaca	12	12	9	8	0	0	1	0	1	0	0	0	2	0	2	2	2	1	1	2	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:22396342T>G	uc001mqk.2	+	9	1496	c.1083T>G	c.(1081-1083)ATT>ATG	p.I361M		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	361	Helical; (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						TAATGACAATTATTGTGCCTA	0.368													79	153					0	0	1	0	0		G	22396342	G	G	22396342	3	3	89	1	0	0	0	0	1	0	0	0	14446	1742	61	5	1117	5	SLC17A6	11	22396342	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	104360	22396342	112610174	4139	57970											
SLC5A12	159963	broad.mit.edu	37	chr11	26700347	26700347	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggagatcgagtaccaggtAtcagctattccaggtctgtg	10	11	12	8	1	2	1	1	0	1	1	4	3	3	1	2	3	2	3	2	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:26700347A>G	uc001mra.2	-	13	1804	c.1491T>C	c.(1489-1491)GAT>GAC	p.D497D	SLC5A12_uc001mrb.2_RNA	NM_178498	NP_848593	Q1EHB4	SC5AC_HUMAN	solute carrier family 5 (sodium/glucose	497	Extracellular (Potential).				sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(1)|skin(1)	2						AGTACCAGGTATCAGCTATTC	0.458													27	53					0	0	1	0	0		G	26700347	G	G	26700347	2	3	89	1	0	0	0	0	0	0	0	1	14689	446	16	3		3	SLC5A12	11	26700347	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4304005	26700347	108306169	4140	57971											
FIBIN	387758	broad.mit.edu	37	chr11	27016106	27016106	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagttcttctgcatgagtttCttctgccacctgtgtcaagg	7	15	9	10	0	5	1	1	1	4	0	5	1	5	1	2	1	2	3	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:27016106C>T	uc001mrd.2	+	1	479	c.33C>T	c.(31-33)TTC>TTT	p.F11F		NM_203371	NP_976249	Q8TAL6	FIBIN_HUMAN	fin bud initiation factor homolog precursor	11						extracellular region|Golgi apparatus					0						GCATGAGTTTCTTCTGCCACC	0.532													17	66					0	0	1	0	0		T	27016106	T	T	27016106	2	4	89	1	0	0	0	0	0	0	0	1	5899	912	32	4		4	FIBIN	11	27016106	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	315759	27016106	107990410	4141	57972											
BDNF	627	broad.mit.edu	37	chr11	27679427	27679427	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtctatccttatgaatcGccagccaattctctttttgc	8	16	6	11	1	2	1	0	1	2	0	5	1	3	1	3	0	2	0	3	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:27679427G>A	uc010rdu.1	-	2	1536	c.685C>T	c.(685-687)CGA>TGA	p.R229*	BDNFOS_uc001mrm.2_Intron|BDNFOS_uc009yij.2_Intron|BDNFOS_uc009yik.2_Intron|BDNFOS_uc009yil.2_Intron|BDNFOS_uc001mrp.2_Intron|BDNFOS_uc009yim.2_Intron|BDNFOS_uc009yin.2_Intron|BDNFOS_uc009yio.2_Intron|BDNFOS_uc009yip.2_Intron|BDNFOS_uc001mrn.2_Intron|BDNFOS_uc009yiq.2_Intron|BDNFOS_uc001mro.2_Intron|BDNFOS_uc009yir.2_Intron|BDNFOS_uc009yis.2_Intron|BDNFOS_uc009yit.2_Intron|BDNFOS_uc009yiu.2_Intron|BDNFOS_uc009yiv.2_Intron|BDNFOS_uc009yiw.2_Intron|BDNFOS_uc009yix.2_Intron|BDNFOS_uc009yiy.2_Intron|BDNFOS_uc009yiz.2_Intron|BDNFOS_uc001mrq.3_Intron|BDNFOS_uc001mrr.3_Intron|BDNFOS_uc009yja.2_Intron|BDNFOS_uc009yjb.2_Intron|BDNF_uc010rdv.1_Nonsense_Mutation_p.R229*|BDNF_uc001mrt.2_Nonsense_Mutation_p.R244*|BDNF_uc010rdw.1_Nonsense_Mutation_p.R229*|BDNF_uc009yjd.2_Nonsense_Mutation_p.R229*|BDNF_uc001mru.2_Nonsense_Mutation_p.R229*|BDNF_uc010rdx.1_Nonsense_Mutation_p.R229*|BDNF_uc010rdy.1_Nonsense_Mutation_p.R229*|BDNF_uc009yjg.2_Nonsense_Mutation_p.R229*|BDNF_uc009yje.2_Nonsense_Mutation_p.R311*|BDNF_uc009yjf.2_Nonsense_Mutation_p.R258*|BDNF_uc001mrv.2_Nonsense_Mutation_p.R229*|BDNF_uc001mrw.3_Nonsense_Mutation_p.R229*|BDNF_uc001mrx.2_Nonsense_Mutation_p.R229*|BDNF_uc001mry.3_Nonsense_Mutation_p.R229*|BDNF_uc001mrz.3_Nonsense_Mutation_p.R229*|BDNF_uc001msa.2_Nonsense_Mutation_p.R237*	NM_001143816	NP_001137288	P23560	BDNF_HUMAN	brain-derived neurotrophic factor isoform a	229						extracellular region	growth factor activity				0						CTTATGAATCGCCAGCCAATT	0.423													47	110					0	0	1	0	0		A	27679427	A	A	27679427	4	1	89	1	0	0	0	0	0	1	0	0	1395	1095	38	1	62	1	BDNF	11	27679427	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	663321	27679427	107327089	4142	57973											
KCNA4	3739	broad.mit.edu	37	chr11	30032364	30032364	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctcctttgcacacagaGattccttaactccttcttcc	7	15	3	16	0	2	1	0	0	2	1	7	2	6	1	5	0	2	1	5	0	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:30032364G>T	uc001msk.2	-	2	3014	c.1862C>A	c.(1861-1863)TCT>TAT	p.S621Y		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	621						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGCACACAGAGATTCCTTAAC	0.453													33	78					1.62565e-12	1.80183e-12	1	1	0		T	30032364	T	T	30032364	3	4	89	1	0	0	0	0	1	0	0	0	8021	942	33	5	103	5	KCNA4	11	30032364	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2352937	30032364	104974152	4143	57974											
MPPED2	744	broad.mit.edu	37	chr11	30439133	30439133	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttccacttgtccagcagaGactgacctctgggtaggtta	8	11	12	10	0	1	2	0	1	1	1	3	3	3	2	3	3	1	4	3	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:30439133G>T	uc001msr.2	-	4	704	c.584C>A	c.(583-585)TCT>TAT	p.S195Y	MPPED2_uc001msq.3_Missense_Mutation_p.S195Y|MPPED2_uc009yji.2_Missense_Mutation_p.S69Y	NM_001584	NP_001575	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2	195					nervous system development		hydrolase activity|metal ion binding			skin(1)	1						GTCCAGCAGAGACTGACCTCT	0.527													12	41					2.27111e-07	2.38128e-07	1	1	0		T	30439133	T	T	30439133	3	4	89	1	0	0	0	0	1	0	0	0	9760	942	33	5	384	5	MPPED2	11	30439133	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	406769	30439133	104567383	4144	57975											
ELP4	26610	broad.mit.edu	37	chr11	31625328	31625328	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagcagattggaccagtatCatcttcaagatttggtcact	11	14	8	8	0	4	2	3	0	1	2	4	3	4	3	1	2	1	2	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:31625328C>A	uc001mtb.2	+	5	562	c.527C>A	c.(526-528)TCA>TAA	p.S176*	ELP4_uc001mta.1_RNA|ELP4_uc001mtc.2_Nonsense_Mutation_p.S176*|ELP4_uc010rdz.1_Nonsense_Mutation_p.S177*	NM_019040	NP_061913	Q96EB1	ELP4_HUMAN	elongation protein 4 homolog	176					histone acetylation|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|Elongator holoenzyme complex|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|prostate(1)	3	Lung SC(675;0.225)					GGACCAGTATCATCTTCAAGA	0.323													42	84					1.15505e-17	1.34158e-17	1	1	0		A	31625328	A	A	31625328	4	1	89	1	0	0	0	0	0	1	0	0	5090	838	29	5	545	5	ELP4	11	31625328	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1186195	31625328	103381188	4145	57976											
ELP4	26610	broad.mit.edu	37	chr11	31648659	31648659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacttcttttaccaacagttCtttgacccctggctacacaa	10	13	4	14	0	2	1	0	1	2	0	2	1	2	1	3	1	3	2	3	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:31648659C>T	uc001mtb.2	+	6	691	c.656C>T	c.(655-657)TCT>TTT	p.S219F	ELP4_uc001mta.1_RNA|ELP4_uc001mtc.2_Missense_Mutation_p.S219F|ELP4_uc010rdz.1_Missense_Mutation_p.S220F	NM_019040	NP_061913	Q96EB1	ELP4_HUMAN	elongation protein 4 homolog	219					histone acetylation|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|Elongator holoenzyme complex|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|prostate(1)	3	Lung SC(675;0.225)					ACCAACAGTTCTTTGACCCCT	0.328													20	55					0	0	1	0	0		T	31648659	T	T	31648659	3	4	89	1	0	0	0	0	1	0	0	0	5090	913	32	4	678	4	ELP4	11	31648659	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	23331	31648659	103357857	4146	57977											
WT1	7490	broad.mit.edu	37	chr11	32439194	32439194	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggatgtcatttggtataaAttgtcactgttagaaaaaca	14	14	9	4	0	2	1	2	0	0	1	2	2	2	2	0	2	1	2	0	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:32439194A>C	uc001mtn.1	-	4	1075	c.879T>G	c.(877-879)AAT>AAG	p.N293K	WT1_uc001mtl.1_Missense_Mutation_p.N81K|WT1_uc001mtm.1_Missense_Mutation_p.N81K|WT1_uc001mto.1_Missense_Mutation_p.N293K|WT1_uc001mtp.1_Missense_Mutation_p.N293K|WT1_uc001mtq.1_Missense_Mutation_p.N293K|WT1_uc009yjs.1_RNA	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D	225					adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding		EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			TTTGGTATAAATTGTCACTGT	0.353			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				26	33					0	0	1	0	0		C	32439194	C	C	32439194	3	2	89	1	0	0	0	0	1	0	0	0	17434	98	4	5	702	5	WT1	11	32439194	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	790535	32439194	102567322	4147	57978											
WT1	7490	broad.mit.edu	37	chr11	32449551	32449551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggctgccggtgcagctgtCggtgggggtgtggcagccat	3	9	19	10	2	0	0	0	0	0	0	1	0	0	0	2	6	4	4	2	6	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:32449551C>T	uc001mtn.1	-	3	1019	c.823G>A	c.(823-825)GAC>AAC	p.D275N	WT1_uc001mtl.1_Missense_Mutation_p.D63N|WT1_uc001mtm.1_Missense_Mutation_p.D63N|WT1_uc001mto.1_Missense_Mutation_p.D275N|WT1_uc001mtp.1_Missense_Mutation_p.D275N|WT1_uc001mtq.1_Missense_Mutation_p.D275N|WT1_uc009yjs.1_RNA	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D	207					adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding		EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			GTGCAGCTGTCGGTGGGGGTG	0.677			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				8	16					0	0	1	0	0		T	32449551	T	T	32449551	3	4	89	1	0	0	0	0	1	0	0	0	17434	884	31	1	762	1	WT1	11	32449551	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10357	32449551	102556965	4148	57979											
CCDC73	493860	broad.mit.edu	37	chr11	32635173	32635173	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaattcatgtatactggagtTttctcagtttttttatctga	10	20	6	5	0	3	1	2	1	2	0	4	2	3	2	0	1	1	3	0	1	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:32635173T>G	uc001mtv.2	-	16	2735	c.2691A>C	c.(2689-2691)AAA>AAC	p.K897N		NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	897										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					ATACTGGAGTTTTCTCAGTTT	0.388													61	122					0	0	1	0	0		G	32635173	G	G	32635173	3	3	89	1	0	0	0	0	1	0	0	0	2849	1838	64	5	560	5	CCDC73	11	32635173	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	185622	32635173	102371343	4149	57980											
CCDC73	493860	broad.mit.edu	37	chr11	32636375	32636375	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaggtttgtccttgactaaTtacttctttatctaaggaga	10	16	8	7	1	2	2	0	1	2	1	3	4	3	2	1	2	1	1	1	2	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:32636375T>G	uc001mtv.2	-	16	1533	c.1489A>C	c.(1489-1491)ATT>CTT	p.I497L		NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	497										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					CCTTGACTAATTACTTCTTTA	0.333													22	57					0	0	1	0	0		G	32636375	G	G	32636375	3	3	89	1	0	0	0	0	1	0	0	0	2849	1493	52	5	1762	5	CCDC73	11	32636375	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1202	32636375	102370141	4150	57981											
CCDC73	493860	broad.mit.edu	37	chr11	32657256	32657256	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttacctgaaactttttgtCttcctcaaatgttttttgat	8	22	4	7	0	2	2	1	2	1	0	3	2	3	2	2	0	2	1	2	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:32657256C>G	uc001mtv.2	-	14	1215	c.1171G>C	c.(1171-1173)GAC>CAC	p.D391H	CCDC73_uc001mtw.1_Missense_Mutation_p.D381H	NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	391										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					AACTTTTTGTCTTCCTCAAAT	0.249													10	20					0	0	1	0	0		G	32657256	G	G	32657256	3	3	89	1	0	0	0	0	1	0	0	0	2849	913	32	5	2088	5	CCDC73	11	32657256	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	20881	32657256	102349260	4151	57982											
CCDC73	493860	broad.mit.edu	37	chr11	32676471	32676471	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctcccatcttatattgAcatgtgactttggactttat	8	19	5	9	0	3	2	0	2	3	0	4	3	3	3	1	1	0	0	1	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:32676471A>G	uc001mtv.2	-	10	737	c.693T>C	c.(691-693)TGT>TGC	p.C231C	CCDC73_uc001mtw.1_Silent_p.C231C	NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	231										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					TCTTATATTGACATGTGACTT	0.279													16	23					0	0	1	0	0		G	32676471	G	G	32676471	2	3	89	1	0	0	0	0	0	0	0	1	2849	273	10	3		3	CCDC73	11	32676471	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	19215	32676471	102330045	4152	57983											
QSER1	79832	broad.mit.edu	37	chr11	32954327	32954327	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtataaaacattgactttttCtgggtcatctcagactgtaa	12	15	7	7	0	3	2	2	1	2	1	4	2	3	2	0	1	1	2	0	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:32954327C>A	uc001mty.2	+	4	1403	c.1136C>A	c.(1135-1137)TCT>TAT	p.S379Y	QSER1_uc001mtz.1_Intron|QSER1_uc001mua.2_5'Flank	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	379	Ser-rich.									ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					TTGACTTTTTCTGGGTCATCT	0.378													46	97					2.51966e-14	2.84312e-14	1	1	0		A	32954327	A	A	32954327	3	1	89	1	0	0	0	0	1	0	0	0	12907	913	32	5	1142	5	QSER1	11	32954327	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	277856	32954327	102052189	4153	57984											
QSER1	79832	broad.mit.edu	37	chr11	32976960	32976960	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttgctgctacaaatagtgTaagtaaaatgcatgtttaca	15	14	7	5	0	0	0	0	0	0	0	0	0	0	0	0	0	5	6	0	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:32976960T>C	uc001mty.2	+	6	4497	c.4230_splice	c.e6+2	p.S1410_splice	QSER1_uc001mtz.1_Splice_Site_p.S1171_splice|QSER1_uc001mua.2_Splice_Site_p.S915_splice	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1											ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					ACAAATAGTGTAAGTAAAATG	0.284													10	31					0	0	1	0	0		C	32976960	C	C	32976960	5	2	89	1	0	0	0	0	0	0	1	0	12907	1652	57	3	4246	3	QSER1	11	32976960	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	22633	32976960	102029556	4154	57985											
TCP11L1	55346	broad.mit.edu	37	chr11	33094125	33094125	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcagagagagctggaggAagttgctattaaatttgctc	12	12	12	5	0	1	2	1	0	0	2	2	5	1	4	0	2	3	5	0	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:33094125A>G	uc001mud.2	+	10	1833	c.1433A>G	c.(1432-1434)GAA>GGA	p.E478G	TCP11L1_uc009yju.2_Missense_Mutation_p.E293G|TCP11L1_uc010rei.1_Missense_Mutation_p.E478G|TCP11L1_uc001mue.2_Missense_Mutation_p.E478G|TCP11L1_uc001muf.1_RNA	NM_018393	NP_060863	Q9NUJ3	T11L1_HUMAN	t-complex 11 (mouse) like 1	478											0						GAGCTGGAGGAAGTTGCTATT	0.498													45	120					0	0	1	0	0		G	33094125	G	G	33094125	3	3	89	1	0	0	0	0	1	0	0	0	15739	246	9	3	1467	3	TCP11L1	11	33094125	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	117165	33094125	101912391	4155	57986											
HIPK3	10114	broad.mit.edu	37	chr11	33308184	33308184	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatagacctcgaggacacaActtttcattgcagacaagtg	14	10	8	9	1	1	2	1	0	0	2	2	4	1	3	1	1	2	1	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:33308184A>G	uc001mul.1	+	2	494	c.224A>G	c.(223-225)AAC>AGC	p.N75S	HIPK3_uc001mum.1_Missense_Mutation_p.N75S|HIPK3_uc009yjv.1_Missense_Mutation_p.N75S	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	75					anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						CGAGGACACAACTTTTCATTG	0.453													39	83					0	0	1	0	0		G	33308184	G	G	33308184	3	3	89	1	0	0	0	0	1	0	0	0	7134	43	2	3	226	3	HIPK3	11	33308184	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	214059	33308184	101698332	4156	57987											
HIPK3	10114	broad.mit.edu	37	chr11	33308552	33308552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctccatgaaaaatacttacGaagtccttgattttcttggt	11	15	7	8	1	1	2	0	2	1	0	3	3	3	2	2	1	2	1	2	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:33308552G>A	uc001mul.1	+	2	862	c.592G>A	c.(592-594)GAA>AAA	p.E198K	HIPK3_uc001mum.1_Missense_Mutation_p.E198K|HIPK3_uc009yjv.1_Missense_Mutation_p.E198K	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	198	Protein kinase.				anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						AAATACTTACGAAGTCCTTGA	0.393													31	45					0	0	1	0	0		A	33308552	A	A	33308552	3	1	89	1	0	0	0	0	1	0	0	0	7134	1059	37	1	594	1	HIPK3	11	33308552	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	368	33308552	101697964	4157	57988											
HIPK3	10114	broad.mit.edu	37	chr11	33375100	33375100	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtccaacaaaactcagccagTatccatatatgtgaaaaaca	18	8	5	10	0	1	1	1	1	0	0	3	1	3	1	3	0	4	1	3	0	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:33375100T>C	uc001mul.1	+	17	3904	c.3634T>C	c.(3634-3636)TAT>CAT	p.Y1212H	HIPK3_uc001mum.1_Missense_Mutation_p.Y1191H|HIPK3_uc009yjv.1_Missense_Mutation_p.Y1191H	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	1212					anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						ACTCAGCCAGTATCCATATAT	0.358													6	84					0	0	1	0	0		C	33375100	C	C	33375100	3	2	89	1	0	0	0	0	1	0	0	0	7134	1638	57	3	3696	3	HIPK3	11	33375100	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	66548	33375100	101631416	4158	57989											
CAPRIN1	4076	broad.mit.edu	37	chr11	34098105	34098105	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attagctatttactattaaaAggttgaatgaacagtatgaa	17	14	7	3	0	0	3	0	3	0	0	0	3	0	3	0	1	3	3	0	1	10	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:34098105A>C	uc001mvh.1	+	6	795	c.606_splice	c.e6-2	p.R202_splice	CAPRIN1_uc001mvg.2_Splice_Site_p.R202_splice|CAPRIN1_uc001mvi.2_Splice_Site_p.R202_splice|CAPRIN1_uc001mvj.1_Splice_Site_p.R121_splice	NM_005898	NP_005889	Q14444	CAPR1_HUMAN	membrane component chromosome 11 surface marker						negative regulation of translation|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis	cytoplasmic mRNA processing body|cytosol|dendrite|integral to plasma membrane|stress granule	protein binding|RNA binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.00045)|all_hematologic(20;0.0016)				TACTATTAAAAGGTTGAATGA	0.388													42	80					0	0	1	0	0		C	34098105	C	C	34098105	5	2	89	1	0	0	0	0	0	0	1	0	2638	86	3	5	622	5	CAPRIN1	11	34098105	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	723005	34098105	100908411	4159	57990											
NAT10	55226	broad.mit.edu	37	chr11	34163346	34163346	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcatggagcccacgatgaaGaccctcagtgacgacctagt	11	7	11	12	2	2	3	2	2	0	1	2	6	2	4	3	1	1	0	3	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:34163346G>A	uc001mvk.2	+	26	3037	c.2793G>A	c.(2791-2793)AAG>AAA	p.K931K	NAT10_uc010ren.1_Silent_p.K859K	NM_024662	NP_078938	Q9H0A0	NAT10_HUMAN	N-acetyltransferase 10 isoform a	931	Required for localization to the nucleolus and midbody.					nucleolus	ATP binding|N-acetyltransferase activity|protein binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0119)|all_hematologic(20;0.0231)				CCACGATGAAGACCCTCAGTG	0.507													16	37					0	0	1	0	0		A	34163346	A	A	34163346	2	1	89	1	0	0	0	0	0	0	0	1	10192	933	33	4		4	NAT10	11	34163346	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	65241	34163346	100843170	4160	57991											
ABTB2	25841	broad.mit.edu	37	chr11	34184328	34184328	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctttagcctgctgtggctgCgtcaggagcttcctcaggac	5	11	13	12	1	2	0	2	0	0	0	3	2	3	2	2	3	4	4	2	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:34184328C>T	uc001mvl.1	-	10	1685	c.1455G>A	c.(1453-1455)ACG>ACA	p.T485T		NM_145804	NP_665803	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing	485							DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)				GCTGTGGCTGCGTCAGGAGCT	0.642													10	24					0	0	1	0	0		T	34184328	T	T	34184328	2	4	89	1	0	0	0	0	0	0	0	1	103	755	27	1		1	ABTB2	11	34184328	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	20982	34184328	100822188	4161	57992											
EHF	26298	broad.mit.edu	37	chr11	34670605	34670605	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccagtccacacacaatgTcattgtcaagactgaacaaa	15	9	6	11	0	2	2	2	1	0	1	4	2	4	2	2	0	1	1	2	0	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:34670605T>C	uc001mvr.1	+	4	494	c.383T>C	c.(382-384)GTC>GCC	p.V128A	EHF_uc009yke.1_Missense_Mutation_p.V128A|EHF_uc009ykf.1_Missense_Mutation_p.V131A	NM_012153	NP_036285	Q9NZC4	EHF_HUMAN	ets homologous factor	128					cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)			ACACACAATGTCATTGTCAAG	0.532													60	123					0	0	1	0	0		C	34670605	C	C	34670605	3	2	89	1	0	0	0	0	1	0	0	0	4987	1667	58	3	393	3	EHF	11	34670605	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	486277	34670605	100335911	4162	57993											
EHF	26298	broad.mit.edu	37	chr11	34680177	34680177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaagaccgatctgagggCgtcttcaggttcttgaaatc	9	11	13	8	2	4	3	1	2	3	1	5	5	4	4	1	3	0	1	1	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:34680177C>T	uc001mvr.1	+	8	816	c.705C>T	c.(703-705)GGC>GGT	p.G235G	EHF_uc009yke.1_Silent_p.G212G|EHF_uc009ykf.1_Silent_p.G238G	NM_012153	NP_036285	Q9NZC4	EHF_HUMAN	ets homologous factor	235	ETS.				cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)			GATCTGAGGGCGTCTTCAGGT	0.488													43	74					0	0	1	0	0		T	34680177	T	T	34680177	2	4	89	1	0	0	0	0	0	0	0	1	4987	755	27	1		1	EHF	11	34680177	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9572	34680177	100326339	4163	57994											
FJX1	24147	broad.mit.edu	37	chr11	35641111	35641111	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccggctcgtaagcaacctCttcagcctgcagtgggaccc	8	7	11	15	2	2	0	1	0	1	0	3	2	2	1	4	2	4	4	4	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:35641111C>A	uc001mwh.2	+	1	1377	c.927C>A	c.(925-927)CTC>CTA	p.L309L		NM_014344	NP_055159	Q86VR8	FJX1_HUMAN	four jointed box 1 precursor	309						extracellular space					0	all_cancers(35;0.177)|all_lung(20;0.0238)|Lung NSC(22;0.0494)|all_epithelial(35;0.0739)	all_hematologic(20;0.107)				TAAGCAACCTCTTCAGCCTGC	0.627													10	28					5.16669e-11	5.64189e-11	1	1	0		A	35641111	A	A	35641111	2	1	89	1	0	0	0	0	0	0	0	1	5915	900	32	5		5	FJX1	11	35641111	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	960934	35641111	99365405	4164	57995											
FJX1	24147	broad.mit.edu	37	chr11	35641181	35641181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcaccgcggtccgggcgggGcgctggtctttctggacaat	4	9	16	12	5	2	0	0	0	2	0	3	1	3	1	2	6	1	2	2	6	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:35641181G>A	uc001mwh.2	+	1	1447	c.997G>A	c.(997-999)GCG>ACG	p.A333T		NM_014344	NP_055159	Q86VR8	FJX1_HUMAN	four jointed box 1 precursor	333						extracellular space					0	all_cancers(35;0.177)|all_lung(20;0.0238)|Lung NSC(22;0.0494)|all_epithelial(35;0.0739)	all_hematologic(20;0.107)				TCCGGGCGGGGCGCTGGTCTT	0.642													12	25					0	0	1	0	0		A	35641181	A	A	35641181	3	1	89	1	0	0	0	0	1	0	0	0	5915	1203	42	2	999	2	FJX1	11	35641181	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	70	35641181	99365335	4165	57996											
PRR5L	79899	broad.mit.edu	37	chr11	36467895	36467895	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccctgctgggcttccgaGacctagtcttgctgaaggtg	5	12	12	12	1	2	2	0	1	2	1	4	3	3	2	3	2	2	3	3	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:36467895G>T	uc001mwo.3	+	7	879	c.490G>T	c.(490-492)GAC>TAC	p.D164Y	PRR5L_uc001mwp.2_Missense_Mutation_p.D164Y|PRR5L_uc009ykk.2_Intron|PRR5L_uc010rfc.1_Missense_Mutation_p.D164Y	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	164										ovary(1)	1						GGGCTTCCGAGACCTAGTCTT	0.602													27	41					1.08312e-15	1.23716e-15	1	1	0		T	36467895	T	T	36467895	3	4	89	1	0	0	0	0	1	0	0	0	12624	942	33	5	518	5	PRR5L	11	36467895	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	826714	36467895	98538621	4166	57997											
ACCSL	390110	broad.mit.edu	37	chr11	44070029	44070029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catctctgtcttttatcagtCgagcttccaggactacaatg	9	14	7	11	1	3	0	1	0	2	0	6	2	4	1	1	1	2	1	1	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:44070029C>T	uc001mxw.1	+	1	499	c.443C>T	c.(442-444)TCG>TTG	p.S148L	ACCSL_uc009ykr.2_5'UTR	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	148							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						TTTTATCAGTCGAGCTTCCAG	0.502													30	81					0	0	1	0	0		T	44070029	T	T	44070029	3	4	89	1	0	0	0	0	1	0	0	0	134	893	31	1	445	1	ACCSL	11	44070029	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7602134	44070029	90936487	4167	57998											
SYT13	57586	broad.mit.edu	37	chr11	45267974	45267974	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gactggttagagtggaggttCttggctttaatcagcaccac	9	12	12	8	0	2	1	1	0	1	1	2	3	2	2	1	4	1	4	1	4	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:45267974C>T	uc001myq.2	-	5	1062	c.936G>A	c.(934-936)AAG>AAA	p.K312K	SYT13_uc009yku.1_Silent_p.K168K	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	312	C2 2.|Cytoplasmic (Potential).					transport vesicle				ovary(1)	1						AGTGGAGGTTCTTGGCTTTAA	0.582													20	44					0	0	1	0	0		T	45267974	T	T	45267974	2	4	89	1	0	0	0	0	0	0	0	1	15494	912	32	4		4	SYT13	11	45267974	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1197945	45267974	89738542	4168	57999											
CHST1	8534	broad.mit.edu	37	chr11	45671749	45671749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcggaaggtctcgctgcgcGaagccagaatgccgcggggg	7	4	18	12	7	1	1	0	0	1	1	2	3	1	2	2	4	3	1	2	4	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:45671749G>A	uc001mys.1	-	4	1396	c.725C>T	c.(724-726)TCG>TTG	p.S242L		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	242	Lumenal (Potential).|PAPS (By similarity).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CTCGCTGCGCGAAGCCAGAAT	0.662													37	52					0	0	1	0	0		A	45671749	A	A	45671749	3	1	89	1	0	0	0	0	1	0	0	0	3400	1059	37	1	514	1	CHST1	11	45671749	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	403775	45671749	89334767	4169	58000											
KIAA0652	9776	broad.mit.edu	37	chr11	46665897	46665897	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggacaagtttattaaatTttttgccctcaaggtaatgt	11	16	7	7	0	1	0	1	0	0	0	1	1	1	1	2	2	1	2	2	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:46665897T>G	uc009yld.2	+	3	740	c.56T>G	c.(55-57)TTT>TGT	p.F19C	KIAA0652_uc001nda.2_Missense_Mutation_p.F19C|KIAA0652_uc001ndb.2_Missense_Mutation_p.F19C|KIAA0652_uc001ncz.2_Missense_Mutation_p.F19C|KIAA0652_uc001ndc.2_Missense_Mutation_p.F19C|KIAA0652_uc010rgv.1_Intron	NM_001142673	NP_001136145	O75143	ATG13_HUMAN	autophagy-related protein 13 isoform 1	19					autophagic vacuole assembly	cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding				0				GBM - Glioblastoma multiforme(35;0.226)		TTTATTAAATTTTTTGCCCTC	0.363													31	59					0	0	1	0	0		G	46665897	G	G	46665897	3	3	89	1	0	0	0	0	1	0	0	0	8204	1841	64	5	58	5	KIAA0652	11	46665897	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	994148	46665897	88340619	4170	58001											
CKAP5	9793	broad.mit.edu	37	chr11	46776615	46776615	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgtctcaggacctcatcGatctgataacaaaaatttca	13	12	5	11	1	4	1	3	1	2	0	7	3	5	2	2	1	1	0	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:46776615G>A	uc001ndi.1	-	36	4802	c.4692C>T	c.(4690-4692)ATC>ATT	p.I1564I	CKAP5_uc009ylg.1_Silent_p.I1450I|CKAP5_uc001ndj.1_Intron|CKAP5_uc001ndh.1_Silent_p.I493I	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	1564					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						GGACCTCATCGATCTGATAAC	0.363													13	31					0	0	1	0	0		A	46776615	A	A	46776615	2	1	89	1	0	0	0	0	0	0	0	1	3448	1048	37	1		1	CKAP5	11	46776615	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	110718	46776615	88229901	4171	58002											
CKAP5	9793	broad.mit.edu	37	chr11	46804892	46804892	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgactgatttttgggattCttttgtgagaaagccattga	9	17	10	5	0	2	4	0	4	2	1	2	6	2	5	1	1	1	0	1	1	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:46804892C>A	uc001ndi.1	-	18	2291	c.2181G>T	c.(2179-2181)AAG>AAT	p.K727N	CKAP5_uc009ylg.1_Missense_Mutation_p.K613N|CKAP5_uc001ndj.1_Missense_Mutation_p.K727N	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	727					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						TTTTGGGATTCTTTTGTGAGA	0.353													19	30					1.50039e-11	1.64695e-11	1	1	0		A	46804892	A	A	46804892	3	1	89	1	0	0	0	0	1	0	0	0	3448	912	32	5	4025	5	CKAP5	11	46804892	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28277	46804892	88201624	4172	58003											
MADD	8567	broad.mit.edu	37	chr11	47348331	47348331	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaaaaagtgcaatacagttCgaggcgtctttgtcctggag	11	12	11	7	2	1	0	0	0	1	0	3	2	2	1	1	2	2	2	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:47348331C>T	uc001ner.1	+	34	4956	c.4765C>T	c.(4765-4767)CGA>TGA	p.R1589*	MADD_uc001neq.2_Nonsense_Mutation_p.R1530*|MADD_uc001nev.1_Intron|MADD_uc001nes.1_Nonsense_Mutation_p.R1507*|MADD_uc001net.1_Nonsense_Mutation_p.R1550*|MADD_uc009yln.1_Nonsense_Mutation_p.R1483*|MADD_uc001neu.1_Nonsense_Mutation_p.R1487*|MADD_uc001nex.2_Intron|MADD_uc001nez.2_Nonsense_Mutation_p.R1486*|MADD_uc001new.2_Nonsense_Mutation_p.R1529*	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	1589					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		CAATACAGTTCGAGGCGTCTT	0.517													28	53					0	0	1	0	0		T	47348331	T	T	47348331	4	4	89	1	0	0	0	0	0	1	0	0	9170	876	31	1	4895	1	MADD	11	47348331	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	543439	47348331	87658185	4173	58004											
SPI1	6688	broad.mit.edu	37	chr11	47397271	47397271	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtcatagggcaccaggtCttctgatggctgctgagaga	8	10	14	9	1	3	3	1	2	2	1	3	4	3	3	1	3	1	3	1	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:47397271C>A	uc001nfc.1	-	2	278	c.55G>T	c.(55-57)GAC>TAC	p.D19Y	SPI1_uc001nfb.1_Missense_Mutation_p.D20Y|SLC39A13_uc001nfd.2_Intron|SPI1_uc009ylp.1_Missense_Mutation_p.D13Y	NM_003120	NP_003111	P17947	SPI1_HUMAN	hematopoietic transcription factor PU.1 isoform	19					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of erythrocyte differentiation	nucleus	protein binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)	2				Lung(87;0.0967)		GGCACCAGGTCTTCTGATGGC	0.612													11	71					6.40141e-05	6.56571e-05	1	1	0		A	47397271	A	A	47397271	3	1	89	1	0	0	0	0	1	0	0	0	15074	913	32	5	773	5	SPI1	11	47397271	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	48940	47397271	87609245	4174	58005											
OR4C12	283093	broad.mit.edu	37	chr11	50003388	50003388	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaagatctcaagatgatcAcataggataccaccaagata	18	9	6	8	0	2	4	2	1	1	3	3	5	2	5	2	1	1	0	2	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:50003388A>G	uc010ria.1	-	1	650	c.650T>C	c.(649-651)GTG>GCG	p.V217A		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	217	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						CAAGATGATCACATAGGATAC	0.393													24	78					0	0	1	0	0		G	50003388	G	G	50003388	3	3	89	1	0	0	0	0	1	0	0	0	11065	159	6	3	283	3	OR4C12	11	50003388	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2606117	50003388	85003128	4175	58006											
OR4A16	81327	broad.mit.edu	37	chr11	55111601	55111601	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagttaagtatagttagaAaaagagtatctcccacactg	18	10	7	6	0	1	2	0	0	1	2	2	2	1	2	1	0	0	4	1	0	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55111601A>C	uc010rie.1	+	1	925	c.925A>C	c.(925-927)AAA>CAA	p.K309Q		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	309	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						TATAGTTAGAAAAAGAGTATC	0.343													11	23					0	0	1	0	0		C	55111601	C	C	55111601	3	2	89	1	0	0	0	0	1	0	0	0	11060	15	1	5	927	5	OR4A16	11	55111601	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	5108213	55111601	79894915	4176	58007											
OR4C15	81309	broad.mit.edu	37	chr11	55321977	55321977	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agctttgtaactgagtttgtCctcctgggactttcacagaa	9	14	9	9	0	1	2	1	1	0	1	3	3	3	3	2	1	2	3	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55321977C>G	uc010rig.1	+	1	195	c.195C>G	c.(193-195)GTC>GTG	p.V65V		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CTGAGTTTGTCCTCCTGGGAC	0.383										HNSCC(20;0.049)			44	119					0	0	1	0	0		G	55321977	G	G	55321977	2	3	89	1	0	0	0	0	0	0	0	1	11067	842	30	5		5	OR4C15	11	55321977	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	210376	55321977	79684539	4177	58008											
OR4S2	219431	broad.mit.edu	37	chr11	55418468	55418468	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgttttgtggtgttttCtttcttctacataatcattc	6	23	6	6	0	4	0	1	0	3	0	5	0	4	0	0	1	1	3	0	1	2	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55418468C>A	uc001nhs.1	+	1	89	c.89C>A	c.(88-90)TCT>TAT	p.S30Y		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				GTGGTGTTTTCTTTCTTCTAC	0.388													39	80					2.52637e-11	2.7687e-11	1	1	0		A	55418468	A	A	55418468	3	1	89	1	0	0	0	0	1	0	0	0	11102	913	32	5	91	5	OR4S2	11	55418468	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	96491	55418468	79588048	4178	58009											
OR4C6	219432	broad.mit.edu	37	chr11	55433046	55433046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactacacgatcatcatgaGtccacgggtgtgctgcctaa	10	9	10	12	2	2	1	2	1	0	0	3	2	3	1	2	1	3	2	2	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55433046G>A	uc001nht.3	+	3	669	c.404G>A	c.(403-405)AGT>AAT	p.S135N	OR4C6_uc010rik.1_Missense_Mutation_p.S135N	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						ATCATCATGAGTCCACGGGTG	0.517													33	97					0	0	1	0	0		A	55433046	A	A	55433046	3	1	89	1	0	0	0	0	1	0	0	0	11071	1029	36	4	406	4	OR4C6	11	55433046	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14578	55433046	79573470	4179	58010											
OR5D13	390142	broad.mit.edu	37	chr11	55541018	55541018	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctttctggttttcttgttCgtctacacagtcactgtagt	5	19	7	10	1	5	0	1	0	4	0	6	0	5	0	0	1	1	3	0	1	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55541018C>T	uc010ril.1	+	1	105	c.105C>T	c.(103-105)TTC>TTT	p.F35F		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				TTTTCTTGTTCGTCTACACAG	0.398													49	115					0	0	1	0	0		T	55541018	T	T	55541018	2	4	89	1	0	0	0	0	0	0	0	1	11173	883	31	1		1	OR5D13	11	55541018	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	107972	55541018	79465498	4180	58011											
OR5D13	390142	broad.mit.edu	37	chr11	55541337	55541337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccactattatgtctcagaagCtctgtgctcttctggtggct	6	15	9	11	0	4	1	1	0	4	1	5	1	4	1	1	2	2	3	1	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55541337C>T	uc010ril.1	+	1	424	c.424C>T	c.(424-426)CTC>TTC	p.L142F		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				GTCTCAGAAGCTCTGTGCTCT	0.428													71	173					0	0	1	0	0		T	55541337	T	T	55541337	3	4	89	1	0	0	0	0	1	0	0	0	11173	797	28	2	426	2	OR5D13	11	55541337	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	319	55541337	79465179	4181	58012											
OR5D14	219436	broad.mit.edu	37	chr11	55563579	55563579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaccacttcttttgtgagtAtactgctctcatctctgtgt	7	17	6	11	0	3	1	1	1	3	0	5	1	3	1	1	0	3	2	1	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55563579A>G	uc010rim.1	+	1	548	c.548A>G	c.(547-549)TAT>TGT	p.Y183C		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				TTTTGTGAGTATACTGCTCTC	0.458													68	178					0	0	1	0	0		G	55563579	G	G	55563579	3	3	89	1	0	0	0	0	1	0	0	0	11174	449	16	3	550	3	OR5D14	11	55563579	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	22242	55563579	79442937	4182	58013											
OR5L1	219437	broad.mit.edu	37	chr11	55579859	55579859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agctctcagaaaagtgatggGctccaaaattcactcctagg	13	9	9	10	0	2	2	2	1	1	1	5	2	4	2	2	2	1	2	2	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55579859G>A	uc001nhw.1	+	1	917	c.917G>A	c.(916-918)GGC>GAC	p.G306D		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	306	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				AAAGTGATGGGCTCCAAAATT	0.473													14	28					0	0	1	0	0		A	55579859	A	A	55579859	3	1	89	1	0	0	0	0	1	0	0	0	11189	1203	42	2	919	2	OR5L1	11	55579859	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16280	55579859	79426657	4183	58014											
OR5L2	26338	broad.mit.edu	37	chr11	55595592	55595592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaataaggatgtgaacaaaGctctcagaaaagtgatgggc	17	7	12	5	0	1	3	1	2	1	1	2	5	1	4	0	2	2	1	0	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55595592G>A	uc001nhy.1	+	1	898	c.898G>A	c.(898-900)GCT>ACT	p.A300T		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				TGTGAACAAAGCTCTCAGAAA	0.463										HNSCC(27;0.073)			16	41					0	0	1	0	0		A	55595592	A	A	55595592	3	1	89	1	0	0	0	0	1	0	0	0	11190	971	34	2	900	2	OR5L2	11	55595592	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	15733	55595592	79410924	4184	58015											
OR5D16	390144	broad.mit.edu	37	chr11	55606387	55606387	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatagtgatcatcaaaattAacccaaaattgcataccccc	16	10	4	11	0	2	2	2	2	0	0	2	2	2	2	3	0	3	1	3	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55606387A>C	uc010rio.1	+	1	160	c.160A>C	c.(160-162)AAC>CAC	p.N54H		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				CATCAAAATTAACCCAAAATT	0.433													62	150					0	0	1	0	0		C	55606387	C	C	55606387	3	2	89	1	0	0	0	0	1	0	0	0	11175	362	13	5	162	5	OR5D16	11	55606387	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	10795	55606387	79400129	4185	58016											
OR5D16	390144	broad.mit.edu	37	chr11	55606573	55606573	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagtgactgaattaattCtatttgcggtgatggcctat	9	17	10	5	1	1	3	0	3	1	0	1	3	1	3	1	2	1	1	1	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55606573C>A	uc010rio.1	+	1	346	c.346C>A	c.(346-348)CTA>ATA	p.L116I		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				TGAATTAATTCTATTTGCGGT	0.438													66	117					1.84395e-34	2.27221e-34	1	1	0		A	55606573	A	A	55606573	3	1	89	1	0	0	0	0	1	0	0	0	11175	912	32	5	348	5	OR5D16	11	55606573	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	186	55606573	79399943	4186	58017											
SPRYD5	84767	broad.mit.edu	37	chr11	55658701	55658701	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggatgtgaccctcaagatGatcccgatatcactggaaaa	13	10	9	9	1	2	3	2	2	0	1	3	6	3	5	2	2	0	0	2	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55658701G>T	uc010rip.1	+	7	1044	c.952G>T	c.(952-954)GAT>TAT	p.D318Y	SPRYD5_uc010riq.1_Missense_Mutation_p.D175Y	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	318	B30.2/SPRY.					intracellular	zinc ion binding				0		all_epithelial(135;0.226)				CCCTCAAGATGATCCCGATAT	0.428													47	101					2.01807e-28	2.45391e-28	1	1	0		T	55658701	T	T	55658701	3	4	89	1	0	0	0	0	1	0	0	0	15136	1290	45	5	974	5	SPRYD5	11	55658701	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	52128	55658701	79347815	4187	58018											
OR5W2	390148	broad.mit.edu	37	chr11	55681666	55681666	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctagacatgttgactgtataGagcagggggttgatgatggc	10	11	15	5	0	0	5	0	3	0	2	0	5	0	5	0	3	1	4	0	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55681666G>A	uc010rir.1	-	1	393	c.393C>T	c.(391-393)CTC>CTT	p.L131L		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGACTGTATAGAGCAGGGGGT	0.463													30	61					0	0	1	0	0		A	55681666	A	A	55681666	2	1	89	1	0	0	0	0	0	0	0	1	11204	929	33	4		4	OR5W2	11	55681666	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	22965	55681666	79324850	4188	58019											
OR10AG1	282770	broad.mit.edu	37	chr11	55735572	55735572	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggttcatcactagaggaTactgcaaaggcttacaaata	14	11	9	7	0	2	1	2	0	0	1	2	2	2	2	0	3	3	3	0	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55735572T>C	uc010rit.1	-	1	368	c.368A>G	c.(367-369)TAT>TGT	p.Y123C		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	123	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					CACTAGAGGATACTGCAAAGG	0.433													31	60					0	0	1	0	0		C	55735572	C	C	55735572	3	2	89	1	0	0	0	0	1	0	0	0	10916	1406	49	3	540	3	OR10AG1	11	55735572	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	53906	55735572	79270944	4189	58020											
OR10AG1	282770	broad.mit.edu	37	chr11	55735927	55735927	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatcagaaaaccccaaaaGaacaaattccattattgtag	20	9	4	8	0	1	2	1	0	0	2	2	2	2	2	3	0	2	1	3	0	10	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55735927G>T	uc010rit.1	-	1	13	c.13C>A	c.(13-15)CTT>ATT	p.L5I		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	5	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					AACCCCAAAAGAACAAATTCC	0.313													22	44					2.21704e-12	2.45332e-12	1	1	0		T	55735927	T	T	55735927	3	4	89	1	0	0	0	0	1	0	0	0	10916	942	33	5	895	5	OR10AG1	11	55735927	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	355	55735927	79270589	4190	58021											
OR5AS1	219447	broad.mit.edu	37	chr11	55798656	55798656	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcaccttattctatggagcGctcctgtttatgtacttaca	8	16	7	10	1	2	0	1	0	1	0	3	1	3	1	2	1	3	3	2	1	5	7	rs146891393	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55798656G>A	uc010riw.1	+	1	762	c.762G>A	c.(760-762)GCG>GCA	p.A254A		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					TCTATGGAGCGCTCCTGTTTA	0.448													31	77					0	0	1	0	0		A	55798656	A	A	55798656	2	1	89	1	0	0	0	0	0	0	0	1	11165	1074	38	1		1	OR5AS1	11	55798656	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	62729	55798656	79207860	4191	58022											
OR8H2	390151	broad.mit.edu	37	chr11	55873182	55873182	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatcctatgtgttcattCtctttaccatcctgaaaatt	9	17	4	11	0	2	1	1	1	1	0	5	1	4	1	3	0	2	2	3	0	4	6	rs150100978		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55873182C>A	uc010riy.1	+	1	664	c.664C>A	c.(664-666)CTC>ATC	p.L222I		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					TGTGTTCATTCTCTTTACCAT	0.403										HNSCC(53;0.14)			47	114					1.51926e-22	1.8124e-22	1	1	0		A	55873182	A	A	55873182	3	1	89	1	0	0	0	0	1	0	0	0	11257	913	32	5	666	5	OR8H2	11	55873182	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	74526	55873182	79133334	4192	58023											
OR8J3	81168	broad.mit.edu	37	chr11	55904703	55904703	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagcaataagacacagaGaatatacaaggtgaaaccac	21	4	9	7	0	0	4	0	1	0	3	0	6	0	4	1	1	3	1	1	1	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55904703G>T	uc010riz.1	-	1	492	c.492C>A	c.(490-492)TTC>TTA	p.F164L		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	164	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					AAGACACAGAGAATATACAAG	0.413													27	55					3.28513e-13	3.66545e-13	1	1	0		T	55904703	T	T	55904703	3	4	89	1	0	0	0	0	1	0	0	0	11261	933	33	5	457	5	OR8J3	11	55904703	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	31521	55904703	79101813	4193	58024											
OR8K5	219453	broad.mit.edu	37	chr11	55927518	55927518	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagcacatgcataataggaAatagtatttcgatccacaac	16	9	7	9	1	0	0	0	0	0	0	2	2	1	1	1	1	3	4	1	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:55927518A>C	uc010rja.1	-	1	276	c.276T>G	c.(274-276)ATT>ATG	p.I92M		NM_001004058	NP_001004058	Q8NH50	OR8K5_HUMAN	olfactory receptor, family 8, subfamily K,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(21;0.00693)	Lung NSC(402;0.197)|all_epithelial(135;0.236)				CATAATAGGAAATAGTATTTC	0.403													47	86					0	0	1	0	0		C	55927518	C	C	55927518	3	2	89	1	0	0	0	0	1	0	0	0	11264	10	1	5	650	5	OR8K5	11	55927518	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	22815	55927518	79078998	4194	58025											
OR5T3	390154	broad.mit.edu	37	chr11	56020510	56020510	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctcacctaactggagtgAcaatttatcatggaacaatt	13	12	7	9	0	2	1	2	1	1	0	3	3	2	3	1	2	2	1	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:56020510A>G	uc010rjd.1	+	1	835	c.835A>G	c.(835-837)ACA>GCA	p.T279A		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	279	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					AACTGGAGTGACAATTTATCA	0.398													48	115					0	0	1	0	0		G	56020510	G	G	56020510	3	3	89	1	0	0	0	0	1	0	0	0	11202	275	10	3	837	3	OR5T3	11	56020510	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	92992	56020510	78986006	4195	58026											
OR5T1	390155	broad.mit.edu	37	chr11	56043234	56043234	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgtgcaagtcttcctattTttattatttttagcaatcta	10	20	5	6	0	2	0	0	0	2	0	3	1	3	0	1	0	2	2	1	0	7	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:56043234T>G	uc001nio.1	+	1	120	c.120T>G	c.(118-120)TTT>TTG	p.F40L		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TCTTCCTATTTTTATTATTTT	0.328													27	80					0	0	1	0	0		G	56043234	G	G	56043234	3	3	89	1	0	0	0	0	1	0	0	0	11200	1838	64	5	122	5	OR5T1	11	56043234	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	22724	56043234	78963282	4196	58027											
OR8K1	390157	broad.mit.edu	37	chr11	56114034	56114034	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaagttatttaaactgtccTtctgtggctcaaacataatc	12	16	5	8	0	2	0	1	0	1	0	4	0	3	0	1	1	2	2	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:56114034T>G	uc010rjg.1	+	1	520	c.520T>G	c.(520-522)TTC>GTC	p.F174V		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	174	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					TAAACTGTCCTTCTGTGGCTC	0.353										HNSCC(65;0.19)			65	109					0	0	1	0	0		G	56114034	G	G	56114034	3	3	89	1	0	0	0	0	1	0	0	0	11262	1609	56	5	522	5	OR8K1	11	56114034	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	70800	56114034	78892482	4197	58028											
OR5R1	219479	broad.mit.edu	37	chr11	56185686	56185686	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagaatgaatacagtgacaTaaatgatattaacttcagcc	17	11	6	7	0	2	4	2	3	0	1	2	4	2	4	1	0	3	0	1	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:56185686T>C	uc010rji.1	-	1	23	c.23A>G	c.(22-24)TAT>TGT	p.Y8C		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TACAGTGACATAAATGATATT	0.408													32	88					0	0	1	0	0		C	56185686	C	C	56185686	3	2	89	1	0	0	0	0	1	0	0	0	11199	1406	49	3	953	3	OR5R1	11	56185686	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	71652	56185686	78820830	4198	58029											
OR5R1	219479	broad.mit.edu	37	chr11	56185699	56185699	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgacataaatgatattaaCttcagccatttatcctaaca	16	13	4	8	0	1	2	1	2	0	0	2	2	2	2	2	0	3	0	2	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:56185699C>A	uc010rji.1	-	1	10	c.10G>T	c.(10-12)GTT>TTT	p.V4F		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	4	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					ATGATATTAACTTCAGCCATT	0.388													29	85					7.26314e-15	8.22614e-15	1	1	0		A	56185699	A	A	56185699	3	1	89	1	0	0	0	0	1	0	0	0	11199	565	20	5	966	5	OR5R1	11	56185699	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13	56185699	78820817	4199	58030											
OR5M9	390162	broad.mit.edu	37	chr11	56230298	56230298	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataacaatcattgtgatttCtttgatgtgcactctcccac	11	15	5	10	0	3	2	1	2	2	0	4	2	3	2	1	0	2	1	1	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:56230298C>A	uc010rjj.1	-	1	580	c.580G>T	c.(580-582)GAA>TAA	p.E194*		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	194	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					ATTGTGATTTCTTTGATGTGC	0.433													10	41					1.58986e-06	1.65575e-06	1	1	0		A	56230298	A	A	56230298	4	1	89	1	0	0	0	0	0	1	0	0	11196	922	32	5	354	5	OR5M9	11	56230298	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44599	56230298	78776218	4200	58031											
OR5M8	219484	broad.mit.edu	37	chr11	56258583	56258583	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggataggaaatgcttttCttctctgaaaggaaaatctc	13	12	9	7	0	3	1	0	1	3	0	5	4	3	4	0	3	1	2	0	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:56258583C>A	uc001nix.1	-	1	264	c.264G>T	c.(262-264)AAG>AAT	p.K88N		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					AAATGCTTTTCTTCTCTGAAA	0.458													43	73					1.48646e-12	1.65046e-12	1	1	0		A	56258583	A	A	56258583	3	1	89	1	0	0	0	0	1	0	0	0	11195	912	32	5	675	5	OR5M8	11	56258583	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28285	56258583	78747933	4201	58032											
OR5M11	219487	broad.mit.edu	37	chr11	56310494	56310494	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatacgatattagtcgacatCtgcggggttgcatttgatgt	9	14	12	6	3	1	1	0	1	1	0	2	4	1	1	0	2	3	2	0	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:56310494C>A	uc010rjl.1	-	1	240	c.240G>T	c.(238-240)CAG>CAT	p.Q80H		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	80	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TAGTCGACATCTGCGGGGTTG	0.433													19	66					9.7654e-05	0.000100048	1	1	0		A	56310494	A	A	56310494	3	1	89	1	0	0	0	0	1	0	0	0	11193	912	32	5	680	5	OR5M11	11	56310494	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	51911	56310494	78696022	4202	58033											
OR5AR1	219493	broad.mit.edu	37	chr11	56432021	56432021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tatcatccccatgttaaatcCcttgatctacagtttgcgga	10	14	6	11	1	2	1	1	1	1	0	4	2	4	2	3	1	2	2	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:56432021C>T	uc010rjm.1	+	1	860	c.860C>T	c.(859-861)CCC>CTC	p.P287L		NM_001004730	NP_001004730	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR,	287	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGTTAAATCCCTTGATCTAC	0.403													11	26					0	0	1	0	0		T	56432021	T	T	56432021	3	4	89	1	0	0	0	0	1	0	0	0	11164	623	22	4	862	4	OR5AR1	11	56432021	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	121527	56432021	78574495	4203	58034											
APLNR	187	broad.mit.edu	37	chr11	57003635	57003635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catgaggaagaggtcaaagtCacagggccagtgcagcaggc	13	4	15	9	0	2	2	2	1	0	1	2	3	2	3	1	4	2	2	1	4	2	0	rs143772778		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:57003635C>T	uc001njo.2	-	1	1293	c.844G>A	c.(844-846)GAC>AAC	p.D282N	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	282	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						AGGTCAAAGTCACAGGGCCAG	0.572													12	35					0	0	1	0	0		T	57003635	T	T	57003635	3	4	89	1	0	0	0	0	1	0	0	0	777	826	29	4	302	4	APLNR	11	57003635	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	571614	57003635	78002881	4204	58035											
SSRP1	6749	broad.mit.edu	37	chr11	57099296	57099296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggacgtagatgaagccccGctccagcgggtagagcagtc	9	6	15	11	3	0	3	0	1	0	2	2	4	1	4	3	2	3	4	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:57099296G>A	uc001njt.2	-	9	1336	c.1069C>T	c.(1069-1071)CGG>TGG	p.R357W		NM_003146	NP_003137	Q08945	SSRP1_HUMAN	structure specific recognition protein 1	357					DNA repair|DNA replication|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|cytoplasm|nucleoplasm	DNA binding|protein binding			ovary(2)	2						ATGAAGCCCCGCTCCAGCGGG	0.562													6	30					0	0	1	0	0		A	57099296	A	A	57099296	3	1	89	1	0	0	0	0	1	0	0	0	15219	1086	38	1	1096	1	SSRP1	11	57099296	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	95661	57099296	77907220	4205	58036											
ZDHHC5	25921	broad.mit.edu	37	chr11	57456029	57456029	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccgagctcccctttacaaAacagtggagataaagggcat	13	9	9	10	1	0	1	0	0	0	1	2	3	2	1	3	2	3	2	3	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:57456029A>C	uc001nkx.1	+	4	1532	c.276A>C	c.(274-276)AAA>AAC	p.K92N	ZDHHC5_uc001nky.1_Missense_Mutation_p.K39N|ZDHHC5_uc001nkz.1_5'UTR	NM_015457	NP_056272	Q9C0B5	ZDHC5_HUMAN	zinc finger, DHHC domain containing 5	92						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)	1						CCCTTTACAAAACAGTGGAGA	0.443													28	40					0	0	1	0	0		C	57456029	C	C	57456029	3	2	89	1	0	0	0	0	1	0	0	0	17643	11	1	5	286	5	ZDHHC5	11	57456029	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	356733	57456029	77550487	4206	58037											
CTNND1	1500	broad.mit.edu	37	chr11	57576003	57576003	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggatgctcgcaacaaaGaattaattggtgaggagttg	12	11	13	5	1	0	2	0	1	0	1	1	4	0	4	0	3	2	3	0	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:57576003G>T	uc001nmc.3	+	14	2804	c.2233G>T	c.(2233-2235)GAA>TAA	p.E745*	CTNND1_uc001nlh.1_Nonsense_Mutation_p.E745*|CTNND1_uc001nlu.3_Nonsense_Mutation_p.E638*|CTNND1_uc001nlt.3_Nonsense_Mutation_p.E638*|CTNND1_uc001nls.3_Nonsense_Mutation_p.E638*|CTNND1_uc001nlw.3_Nonsense_Mutation_p.E638*|CTNND1_uc001nmf.3_Nonsense_Mutation_p.E745*|CTNND1_uc001nmd.3_Nonsense_Mutation_p.E691*|CTNND1_uc001nlk.3_Nonsense_Mutation_p.E691*|CTNND1_uc001nme.3_Nonsense_Mutation_p.E739*|CTNND1_uc001nll.3_Nonsense_Mutation_p.E685*|CTNND1_uc001nmg.3_Nonsense_Mutation_p.E685*|CTNND1_uc001nlj.3_Nonsense_Mutation_p.E685*|CTNND1_uc001nlr.3_Nonsense_Mutation_p.E685*|CTNND1_uc001nlp.3_Nonsense_Mutation_p.E685*|CTNND1_uc001nlx.3_Nonsense_Mutation_p.E422*|CTNND1_uc001nlz.3_Nonsense_Mutation_p.E422*|CTNND1_uc009ymn.2_Nonsense_Mutation_p.E416*|CTNND1_uc001nlm.3_Nonsense_Mutation_p.E739*|CTNND1_uc001nly.3_Nonsense_Mutation_p.E416*|CTNND1_uc001nmb.3_Nonsense_Mutation_p.E416*|CTNND1_uc001nma.3_Nonsense_Mutation_p.E416*|CTNND1_uc001nmi.3_Nonsense_Mutation_p.E644*|CTNND1_uc001nmh.3_Nonsense_Mutation_p.E739*|CTNND1_uc001nlq.3_Nonsense_Mutation_p.E644*|CTNND1_uc001nln.3_Nonsense_Mutation_p.E739*|CTNND1_uc001nli.3_Nonsense_Mutation_p.E739*|CTNND1_uc001nlo.3_Nonsense_Mutation_p.E638*|CTNND1_uc001nlv.3_Nonsense_Mutation_p.E638*	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	745	ARM 9.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				TCGCAACAAAGAATTAATTGG	0.408													24	45					1.22574e-08	1.30575e-08	1	1	0		T	57576003	T	T	57576003	4	4	89	1	0	0	0	0	0	1	0	0	4022	943	33	5	2279	5	CTNND1	11	57576003	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	119974	57576003	77430513	4207	58038											
OR9I1	219954	broad.mit.edu	37	chr11	57886886	57886886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagcccatgagaatgaattCggttactctggtgagattat	13	12	10	6	1	1	3	0	3	1	2	2	5	1	3	1	2	2	1	1	2	5	3	rs145179217		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:57886886C>T	uc001nml.1	-	1	31	c.31G>A	c.(31-33)GAA>AAA	p.E11K	OR9Q1_uc001nmj.2_Intron	NM_001005211	NP_001005211	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Breast(21;0.0589)				AGAATGAATTCGGTTACTCTG	0.428													26	49					0	0	1	0	0		T	57886886	T	T	57886886	3	4	89	1	0	0	0	0	1	0	0	0	11272	893	31	1	917	1	OR9I1	11	57886886	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	310883	57886886	77119630	4208	58039											
OR9Q1	219956	broad.mit.edu	37	chr11	57947716	57947716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtaactcagatcagtcttCggagaagaatcgggtagtgt	12	10	13	6	2	3	3	2	0	1	3	5	4	3	3	0	3	1	2	0	3	4	3	rs142831243		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:57947716C>T	uc001nmj.2	+	3	1116	c.800C>T	c.(799-801)TCG>TTG	p.S267L		NM_001005212	NP_001005212	Q8NGQ5	OR9Q1_HUMAN	olfactory receptor, family 9, subfamily Q,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.222)				GATCAGTCTTCGGAGAAGAAT	0.512													53	81					0	0	1	0	0		T	57947716	T	T	57947716	3	4	89	1	0	0	0	0	1	0	0	0	11274	893	31	1	802	1	OR9Q1	11	57947716	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	60830	57947716	77058800	4209	58040											
OR10W1	81341	broad.mit.edu	37	chr11	58035240	58035240	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaatgagaatgttcccagTgatgatcaaaccataaacca	17	8	6	10	0	1	3	1	3	0	1	2	4	2	3	3	0	2	1	3	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:58035240T>C	uc001nmq.1	-	1	493	c.91A>G	c.(91-93)ACT>GCT	p.T31A		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	31	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				ATGTTCCCAGTGATGATCAAA	0.463													29	60					0	0	1	0	0		C	58035240	C	C	58035240	3	2	89	1	0	0	0	0	1	0	0	0	10940	1696	59	3	830	3	OR10W1	11	58035240	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	87524	58035240	76971276	4210	58041											
OR5B12	390191	broad.mit.edu	37	chr11	58207072	58207072	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagttgtctgaacatgagaGagtcaagagaggaggagcat	14	8	15	4	0	2	4	1	2	1	2	2	8	2	6	0	2	2	3	0	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:58207072G>T	uc010rkh.1	-	1	553	c.553C>A	c.(553-555)CTC>ATC	p.L185I		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GAACATGAGAGAGTCAAGAGA	0.403													21	47					4.96729e-08	5.24652e-08	1	1	0		T	58207072	T	T	58207072	3	4	89	1	0	0	0	0	1	0	0	0	11167	942	33	5	395	5	OR5B12	11	58207072	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	171832	58207072	76799444	4211	58042											
OR5B12	390191	broad.mit.edu	37	chr11	58207297	58207297	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattgatgccaggaggaaacTttctgcagtgataaaggcta	13	10	11	7	0	1	2	0	2	1	0	1	4	1	4	1	3	3	2	1	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:58207297T>A	uc010rkh.1	-	1	328	c.328A>T	c.(328-330)AGT>TGT	p.S110C		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AGGAGGAAACTTTCTGCAGTG	0.448													38	64					0	0	1	0	0		A	58207297	A	A	58207297	3	1	89	1	0	0	0	0	1	0	0	0	11167	1609	56	5	620	5	OR5B12	11	58207297	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	225	58207297	76799219	4212	58043											
ZFP91	80829	broad.mit.edu	37	chr11	58377501	58377501	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagaaccaaatacagaccAacttgattatggtacagtgc	15	9	8	9	0	1	3	1	1	0	2	1	3	1	3	2	1	5	1	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:58377501A>G	uc001nmx.3	+	3	737	c.569A>G	c.(568-570)CAA>CGA	p.Q190R	ZFP91_uc001nmy.3_Missense_Mutation_p.Q190R|ZFP91-CNTF_uc010rkm.1_RNA	NM_053023	NP_444251	Q96JP5	ZFP91_HUMAN	zinc finger protein 91	190					activation of NF-kappaB-inducing kinase activity|protein K63-linked ubiquitination	nucleus	nucleic acid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				AATACAGACCAACTTGATTAT	0.398													5	61					0	0	1	0	0		G	58377501	G	G	58377501	3	3	89	1	0	0	0	0	1	0	0	0	17680	130	5	3	579	3	ZFP91	11	58377501	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	170204	58377501	76629015	4213	58044											
GLYAT	10249	broad.mit.edu	37	chr11	58477342	58477342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cattgctgtagtctacatgaGaatagacaggaaacccaagt	15	9	9	8	0	1	2	0	1	1	2	1	4	1	3	1	1	3	2	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:58477342G>A	uc001nnb.2	-	6	943	c.788C>T	c.(787-789)TCT>TTT	p.S263F		NM_201648	NP_964011	Q6IB77	GLYAT_HUMAN	glycine-N-acyltransferase isoform a	263					acyl-CoA metabolic process|response to toxin|xenobiotic metabolic process	mitochondrial matrix	glycine N-acyltransferase activity|glycine N-benzoyltransferase activity				0		Breast(21;0.0044)|all_epithelial(135;0.0157)			Glycine(DB00145)	GTCTACATGAGAATAGACAGG	0.483													24	73					0	0	1	0	0		A	58477342	A	A	58477342	3	1	89	1	0	0	0	0	1	0	0	0	6494	942	33	4	106	4	GLYAT	11	58477342	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	99841	58477342	76529174	4214	58045											
GLYATL2	219970	broad.mit.edu	37	chr11	58604789	58604789	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgattacattggagtatgAcaggacttcctctaatttgt	10	15	9	7	0	1	2	0	2	1	0	2	4	2	4	1	2	1	2	1	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:58604789A>G	uc001nnd.3	-	4	399	c.268T>C	c.(268-270)TCA>CCA	p.S90P	GLYATL2_uc009ymq.2_Missense_Mutation_p.S90P	NM_145016	NP_659453	Q8WU03	GLYL2_HUMAN	glycine-N-acyltransferase-like 2	90						mitochondrion	glycine N-acyltransferase activity			ovary(1)|skin(1)	2		Breast(21;0.0044)|all_epithelial(135;0.0216)			Glycine(DB00145)	TTGGAGTATGACAGGACTTCC	0.388													51	86					0	0	1	0	0		G	58604789	G	G	58604789	3	3	89	1	0	0	0	0	1	0	0	0	6496	275	10	3	628	3	GLYATL2	11	58604789	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	127447	58604789	76401727	4215	58046											
FAM111A	63901	broad.mit.edu	37	chr11	58920482	58920482	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtcctgaaactgaaggaAaatggacaacaagtacctat	16	8	9	8	0	0	2	0	2	0	0	1	4	1	4	2	2	3	2	2	2	8	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:58920482A>C	uc010rkp.1	+	5	1568	c.1341A>C	c.(1339-1341)GAA>GAC	p.E447D	FAM111A_uc010rkq.1_Missense_Mutation_p.E447D|FAM111A_uc010rkr.1_Missense_Mutation_p.E447D|FAM111A_uc001nno.2_Missense_Mutation_p.E447D|FAM111A_uc001nnp.2_Missense_Mutation_p.E447D|FAM111A_uc001nnq.2_Missense_Mutation_p.E447D	NM_001142521	NP_001135993	Q96PZ2	F111A_HUMAN	hypothetical protein LOC63901	447					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_epithelial(135;0.139)				AACTGAAGGAAAATGGACAAC	0.363													41	75					0	0	1	0	0		C	58920482	C	C	58920482	3	2	89	1	0	0	0	0	1	0	0	0	5410	11	1	5	1347	5	FAM111A	11	58920482	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	315693	58920482	76086034	4216	58047											
FAM111A	63901	broad.mit.edu	37	chr11	58920784	58920784	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctcccctgtgtttgattCaaaaggttcattggtggcca	7	13	11	10	1	2	1	2	1	0	0	3	1	3	1	3	4	0	3	3	4	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:58920784C>A	uc010rkp.1	+	5	1870	c.1643C>A	c.(1642-1644)TCA>TAA	p.S548*	FAM111A_uc010rkq.1_Nonsense_Mutation_p.S548*|FAM111A_uc010rkr.1_Nonsense_Mutation_p.S548*|FAM111A_uc001nno.2_Nonsense_Mutation_p.S548*|FAM111A_uc001nnp.2_Nonsense_Mutation_p.S548*|FAM111A_uc001nnq.2_Nonsense_Mutation_p.S548*	NM_001142521	NP_001135993	Q96PZ2	F111A_HUMAN	hypothetical protein LOC63901	548					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_epithelial(135;0.139)				GTGTTTGATTCAAAAGGTTCA	0.418													48	132					2.68985e-26	3.25244e-26	1	1	0		A	58920784	A	A	58920784	4	1	89	1	0	0	0	0	0	1	0	0	5410	838	29	5	1649	5	FAM111A	11	58920784	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	302	58920784	76085732	4217	58048											
MPEG1	219972	broad.mit.edu	37	chr11	58979109	58979109	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtagccagaggggcaggaGaaatcaccagtgagtggatt	13	6	16	6	0	1	3	1	1	0	2	1	6	1	4	2	4	1	2	2	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:58979109G>T	uc001nnu.3	-	1	1386	c.1230C>A	c.(1228-1230)TTC>TTA	p.F410L		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	410	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				AGGGGCAGGAGAAATCACCAG	0.537													8	80					0.000157383	0.000160819	1	1	0		T	58979109	T	T	58979109	3	4	89	1	0	0	0	0	1	0	0	0	9741	933	33	5	924	5	MPEG1	11	58979109	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	58325	58979109	76027407	4218	58049											
MPEG1	219972	broad.mit.edu	37	chr11	58979454	58979454	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaccaggtggttggtgatAccctgctgccaggcctggag	6	8	15	12	0	0	1	0	1	0	0	0	2	0	2	5	5	3	2	5	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:58979454A>G	uc001nnu.3	-	1	1041	c.885T>C	c.(883-885)GGT>GGC	p.G295G		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	295	MACPF.|Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				GGTTGGTGATACCCTGCTGCC	0.582													9	11					0	0	1	0	0		G	58979454	G	G	58979454	2	3	89	1	0	0	0	0	0	0	0	1	9741	378	14	3		3	MPEG1	11	58979454	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	345	58979454	76027062	4219	58050											
OR4D11	219986	broad.mit.edu	37	chr11	59271687	59271687	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	actaccctgtggtttatcttCctgcttgtgtcctacacagt	6	16	7	12	0	1	0	0	0	1	0	3	0	3	0	3	1	3	2	3	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:59271687C>T	uc001noa.1	+	1	639	c.639C>T	c.(637-639)TTC>TTT	p.F213F		NM_001004706	NP_001004706	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D,	213	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GGTTTATCTTCCTGCTTGTGT	0.517													64	128					0	0	1	0	0		T	59271687	T	T	59271687	2	4	89	1	0	0	0	0	0	0	0	1	11074	854	30	4		4	OR4D11	11	59271687	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	292233	59271687	75734829	4220	58051											
OR4D9	390199	broad.mit.edu	37	chr11	59282741	59282741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttctctctctgtgatggCgtttgaccgctatatagcca	6	17	8	10	2	2	2	0	2	2	0	4	2	2	2	2	1	1	2	2	1	3	6	rs139740267		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:59282741C>T	uc010rkv.1	+	1	356	c.356C>T	c.(355-357)GCG>GTG	p.A119V		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCTGTGATGGCGTTTGACCGC	0.527													46	64					0	0	1	0	0		T	59282741	T	T	59282741	3	4	89	1	0	0	0	0	1	0	0	0	11078	768	27	1	358	1	OR4D9	11	59282741	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11054	59282741	75723775	4221	58052											
OR4D9	390199	broad.mit.edu	37	chr11	59282896	59282896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccactccctttctgtggaCccaatgttcttgacactttc	6	15	5	15	0	2	1	0	1	2	0	5	2	4	2	3	1	0	1	3	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:59282896C>T	uc010rkv.1	+	1	511	c.511C>T	c.(511-513)CCC>TCC	p.P171S		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	171	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTTCTGTGGACCCAATGTTCT	0.532													48	114					0	0	1	0	0		T	59282896	T	T	59282896	3	4	89	1	0	0	0	0	1	0	0	0	11078	507	18	4	513	4	OR4D9	11	59282896	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	155	59282896	75723620	4222	58053											
MRPL16	54948	broad.mit.edu	37	chr11	59575228	59575228	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcagtggaaggtccccgTatgtcacttaaatttttagg	9	14	10	8	1	2	0	2	0	0	0	3	1	3	1	2	3	0	2	2	3	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:59575228T>C	uc001noh.2	-	3	430	c.216A>G	c.(214-216)ATA>ATG	p.I72M		NM_017840	NP_060310	Q9NX20	RM16_HUMAN	mitochondrial ribosomal protein L16 precursor	72							rRNA binding			central_nervous_system(1)	1						AAGGTCCCCGTATGTCACTTA	0.413													111	183					0	0	1	0	0		C	59575228	C	C	59575228	3	2	89	1	0	0	0	0	1	0	0	0	9799	1628	57	3	547	3	MRPL16	11	59575228	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	292332	59575228	75431288	4223	58054											
GIF	2694	broad.mit.edu	37	chr11	59603299	59603299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttgaacataggatttttgCgctgtgcttcctctaggaca	9	14	9	9	1	1	1	0	1	1	0	2	3	2	3	1	2	3	2	1	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:59603299C>T	uc001noi.2	-	7	1103	c.1055G>A	c.(1054-1056)CGC>CAC	p.R352H		NM_005142	NP_005133	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	352					cobalamin metabolic process|cobalamin transport|cobalt ion transport	apical plasma membrane|endosome|extracellular space|microvillus	cobalamin binding			ovary(1)|liver(1)	2						AGGATTTTTGCGCTGTGCTTC	0.408													70	87					0	0	1	0	0		T	59603299	T	T	59603299	3	4	89	1	0	0	0	0	1	0	0	0	6391	768	27	1	210	1	GIF	11	59603299	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28071	59603299	75403217	4224	58055											
MS4A7	58475	broad.mit.edu	37	chr11	60156897	60156897	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcaaatgcagtgagttCtgttactgcaggagcaggcc	10	9	12	10	0	2	1	1	1	1	0	2	3	2	2	2	2	4	5	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:60156897C>A	uc001npe.2	+	5	519	c.374C>A	c.(373-375)TCT>TAT	p.S125Y	MS4A7_uc001npf.2_Missense_Mutation_p.S125Y|MS4A7_uc001npg.2_Missense_Mutation_p.S80Y|MS4A7_uc001nph.2_Missense_Mutation_p.S80Y|MS4A14_uc001npi.2_Intron|MS4A7_uc009ymx.1_Missense_Mutation_p.S80Y	NM_206939	NP_996822	Q9GZW8	MS4A7_HUMAN	membrane-spanning 4-domains, subfamily A, member	125	Helical; (Potential).					integral to membrane	receptor activity			ovary(1)|central_nervous_system(1)	2						GCAGTGAGTTCTGTTACTGCA	0.493													9	43					9.70103e-10	1.04594e-09	1	1	0		A	60156897	A	A	60156897	3	1	89	1	0	0	0	0	1	0	0	0	9884	913	32	5	388	5	MS4A7	11	60156897	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	553598	60156897	74849619	4225	58056											
MS4A7	58475	broad.mit.edu	37	chr11	60157046	60157046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatatgaaatcaaagattgtCtcctgaccagtgtcagttta	13	14	7	7	0	3	3	2	2	1	1	4	3	3	3	2	0	0	1	2	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:60157046C>T	uc001npe.2	+	5	668	c.523C>T	c.(523-525)CTC>TTC	p.L175F	MS4A7_uc001npf.2_Missense_Mutation_p.L175F|MS4A7_uc001npg.2_Missense_Mutation_p.L130F|MS4A7_uc001nph.2_Missense_Mutation_p.L130F|MS4A14_uc001npi.2_Intron|MS4A7_uc009ymx.1_Missense_Mutation_p.L130F	NM_206939	NP_996822	Q9GZW8	MS4A7_HUMAN	membrane-spanning 4-domains, subfamily A, member	175	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|central_nervous_system(1)	2						CAAAGATTGTCTCCTGACCAG	0.413													21	60					0	0	1	0	0		T	60157046	T	T	60157046	3	4	89	1	0	0	0	0	1	0	0	0	9884	913	32	4	537	4	MS4A7	11	60157046	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	149	60157046	74849470	4226	58057											
MS4A14	84689	broad.mit.edu	37	chr11	60164039	60164039	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttcccttactagagttCtgccatagaatcatggagtc	9	14	7	11	0	3	2	1	0	2	2	5	3	4	3	2	1	2	1	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:60164039C>A	uc001npj.2	+	1	553	c.-12C>A	c.(-14--10)TTCTG>TTATG		MS4A14_uc001npi.2_Intron|MS4A14_uc001npn.2_Translation_Start_Site|MS4A14_uc001npk.2_Translation_Start_Site|MS4A14_uc001npl.2_Translation_Start_Site|MS4A14_uc001npm.2_Translation_Start_Site	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member							integral to membrane	receptor activity			breast(1)	1						TACTAGAGTTCTGCCATAGAA	0.468													20	22					3.51602e-12	3.88498e-12	1	1	0		A	60164039	A	A	60164039	1	1	89	1	0	0	0	0	0	0	0	0	9876	928	32	5		5	MS4A14	11	60164039	Translation_Start_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6993	60164039	74842477	4227	58058											
MS4A13	503497	broad.mit.edu	37	chr11	60296873	60296873	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcacgtattttactgttCttctacggtttggaattttc	7	20	7	7	2	3	0	1	0	2	0	4	1	3	1	0	2	2	4	0	2	5	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:60296873C>A	uc001nps.2	+	6	665	c.342C>A	c.(340-342)TTC>TTA	p.F114L	MS4A13_uc009ync.2_Missense_Mutation_p.F74L|MS4A13_uc009ynd.2_Missense_Mutation_p.F55L	NM_001012417	NP_001012417	Q5J8X5	M4A13_HUMAN	membrane-spanning 4-domains, subfamily A, member	114	Helical; (Potential).					integral to membrane					0						TTTTACTGTTCTTCTACGGTT	0.358													19	49					1.96292e-10	2.12899e-10	1	1	0		A	60296873	A	A	60296873	3	1	89	1	0	0	0	0	1	0	0	0	9875	912	32	5	356	5	MS4A13	11	60296873	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	132834	60296873	74709643	4228	58059											
MS4A13	503497	broad.mit.edu	37	chr11	60309995	60309995	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttactttttttccagtttCgaagacaaaatgatcttaca	12	16	6	7	1	1	2	0	1	1	1	3	3	2	2	1	1	2	2	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:60309995C>T	uc001nps.2	+	7	729	c.406C>T	c.(406-408)CGA>TGA	p.R136*	MS4A13_uc009ync.2_Nonsense_Mutation_p.R96*|MS4A13_uc009ynd.2_Nonsense_Mutation_p.R77*	NM_001012417	NP_001012417	Q5J8X5	M4A13_HUMAN	membrane-spanning 4-domains, subfamily A, member	136						integral to membrane					0						TTTCCAGTTTCGAAGACAAAA	0.318													9	17					0	0	1	0	0		T	60309995	T	T	60309995	4	4	89	1	0	0	0	0	0	1	0	0	9875	876	31	1	424	1	MS4A13	11	60309995	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13122	60309995	74696521	4229	58060											
MS4A10	341116	broad.mit.edu	37	chr11	60559761	60559761	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcatttcagggatcttggcGataacaatgaagaccttttc	11	13	8	9	1	3	2	2	1	1	1	4	4	3	3	1	2	1	0	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:60559761G>A	uc001npz.1	+	4	423	c.327G>A	c.(325-327)GCG>GCA	p.A109A		NM_206893	NP_996776	Q96PG2	M4A10_HUMAN	membrane-spanning 4-domains, subfamily A, member	109	Helical; (Potential).					integral to membrane	receptor activity			ovary(1)|skin(1)	2						GGATCTTGGCGATAACAATGA	0.453													36	101					0	0	1	0	0		A	60559761	A	A	60559761	2	1	89	1	0	0	0	0	0	0	0	1	9873	1045	37	1		1	MS4A10	11	60559761	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	249766	60559761	74446755	4230	58061											
PRPF19	27339	broad.mit.edu	37	chr11	60665619	60665619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttaaagttcttaagcttgCgcagatcccagagcttgaca	11	12	8	10	1	2	3	0	1	2	2	3	3	3	3	1	0	3	4	1	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:60665619C>T	uc001nqf.2	-	14	1472	c.1265G>A	c.(1264-1266)CGC>CAC	p.R422H		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	422	WD 5.				DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						CTTAAGCTTGCGCAGATCCCA	0.522													32	55					0	0	1	0	0		T	60665619	T	T	60665619	3	4	89	1	0	0	0	0	1	0	0	0	12586	768	27	1	261	1	PRPF19	11	60665619	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	105858	60665619	74340897	4231	58062											
SLC15A3	51296	broad.mit.edu	37	chr11	60708685	60708685	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgcaccgcagcagtaaaggGtcgatcaagcggtccttcag	10	8	12	11	3	2	0	2	0	0	0	4	1	3	0	2	2	3	4	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:60708685G>C	uc001nqn.2	-	5	1419	c.1185C>G	c.(1183-1185)GAC>GAG	p.D395E	SLC15A3_uc001nqo.2_Intron	NM_016582	NP_057666	Q8IY34	S15A3_HUMAN	solute carrier family 15, member 3	395					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0						GCAGTAAAGGGTCGATCAAGC	0.572													10	13					0	0	1	0	0		C	60708685	C	C	60708685	3	2	89	1	0	0	0	0	1	0	0	0	14425	1252	44	5	576	5	SLC15A3	11	60708685	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	43066	60708685	74297831	4232	58063											
VWCE	220001	broad.mit.edu	37	chr11	61032439	61032439	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctcacctggcacgtgcAccgggtgcagggttcatcat	7	8	12	14	2	3	0	3	0	0	0	3	0	3	0	3	3	3	5	3	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:61032439A>G	uc001nra.2	-	18	2407	c.2128T>C	c.(2128-2130)TGC>CGC	p.C710R	VWCE_uc001nrb.2_RNA	NM_152718	NP_689931	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains	710	VWFC 6.					extracellular region	calcium ion binding			ovary(1)	1						TGGCACGTGCACCGGGTGCAG	0.607													28	55					0	0	1	0	0		G	61032439	G	G	61032439	3	3	89	1	0	0	0	0	1	0	0	0	17271	159	6	3	751	3	VWCE	11	61032439	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	323754	61032439	73974077	4233	58064											
CYBASC3	220002	broad.mit.edu	37	chr11	61118518	61118518	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagatgaagccagaaggAtgtagagcaccagcagccca	15	4	11	11	0	0	4	0	1	0	3	1	5	1	5	4	1	4	3	4	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:61118518A>G	uc001nrf.3	-	4	826	c.650T>C	c.(649-651)ATC>ACC	p.I217T	CYBASC3_uc010rlh.1_Missense_Mutation_p.I234T|CYBASC3_uc001nrg.2_Missense_Mutation_p.I217T|CYBASC3_uc009ynn.2_RNA|CYBASC3_uc001nrh.2_Missense_Mutation_p.I217T|CYBASC3_uc001nri.2_RNA	NM_001161452	NP_001154924	Q8NBI2	CYAC3_HUMAN	cytochrome b, ascorbate dependent 3 isoform 2	217	Cytochrome b561.|Helical; Name=6; (Potential).				electron transport chain|transport	integral to membrane|late endosome membrane|lysosomal membrane	metal ion binding|oxidoreductase activity				0						AGCCAGAAGGATGTAGAGCAC	0.607													13	28					0	0	1	0	0		G	61118518	G	G	61118518	3	3	89	1	0	0	0	0	1	0	0	0	4135	333	12	3	86	3	CYBASC3	11	61118518	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	86079	61118518	73887998	4234	58065											
C11orf66	220004	broad.mit.edu	37	chr11	61253289	61253289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatttcttgcagaagaaatCgatcggcgcaaaggagggga	14	7	14	6	3	1	3	0	0	1	3	3	6	1	5	0	4	1	2	0	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:61253289C>T	uc001nru.1	+	7	718	c.593C>T	c.(592-594)TCG>TTG	p.S198L	C11orf66_uc009ynq.1_Missense_Mutation_p.S198L	NM_145017	NP_659454	Q7Z5V6	CK066_HUMAN	IIIG9 protein	198										ovary(1)	1						CAGAAGAAATCGATCGGCGCA	0.592													25	63					0	0	1	0	0		T	61253289	T	T	61253289	3	4	89	1	0	0	0	0	1	0	0	0	1659	893	31	1	615	1	C11orf66	11	61253289	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	134771	61253289	73753227	4235	58066											
C11orf10	746	broad.mit.edu	37	chr11	61558069	61558069	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtatatctgctcatggcctcGagctcctagaggagggaaag	10	9	13	9	1	2	1	1	0	1	1	4	4	3	3	2	3	2	3	2	3	4	3	rs141028687		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:61558069G>A	uc001nsf.2	-	2	64	c.9C>T	c.(7-9)CTC>CTT	p.L3L	FEN1_uc001nsg.2_5'Flank	NM_014206	NP_055021	P61165	CK010_HUMAN	hypothetical protein LOC746	3						integral to membrane				breast(1)	1						TCATGGCCTCGAGCTCCTAGA	0.537													11	19					0	0	1	0	0		A	61558069	A	A	61558069	2	1	89	1	0	0	0	0	0	0	0	1	1633	1045	37	1		1	C11orf10	11	61558069	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	304780	61558069	73448447	4236	58067											
FADS3	3995	broad.mit.edu	37	chr11	61645986	61645986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtccctccccacccacctCgacggatgactcccccagga	8	5	7	21	3	0	1	0	1	0	0	4	4	3	3	7	2	0	0	7	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:61645986C>T	uc001nsm.2	-	5	898	c.745G>A	c.(745-747)GAG>AAG	p.E249K	FADS3_uc001nsn.2_Missense_Mutation_p.E125K	NM_021727	NP_068373	Q9Y5Q0	FADS3_HUMAN	fatty acid desaturase 3	249	Cytoplasmic (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|membrane fraction	heme binding|oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water			ovary(1)|pancreas(1)	2						CCACCCACCTCGACGGATGAC	0.642													24	83					0	0	1	0	0		T	61645986	T	T	61645986	3	4	89	1	0	0	0	0	1	0	0	0	5378	893	31	1	624	1	FADS3	11	61645986	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	87917	61645986	73360530	4237	58068											
INCENP	3619	broad.mit.edu	37	chr11	61919280	61919280	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccagtactaccacccaccGaaccttctggagctctttgg	9	9	7	16	1	2	0	0	0	2	0	2	2	2	1	5	2	4	2	5	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:61919280G>A	uc001nsw.1	+	19	2791	c.2589G>A	c.(2587-2589)CCG>CCA	p.P863P	INCENP_uc001nsx.1_Silent_p.P859P|INCENP_uc001nsy.1_Silent_p.P277P	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	863					chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						ACCACCCACCGAACCTTCTGG	0.567													29	72					0	0	1	0	0		A	61919280	A	A	61919280	2	1	89	1	0	0	0	0	0	0	0	1	7749	1045	37	1		1	INCENP	11	61919280	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	273294	61919280	73087236	4238	58069											
MTA2	9219	broad.mit.edu	37	chr11	62362466	62362466	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccatacccagatctttgacGatagttgccaggggcagccg	9	8	11	13	2	1	2	0	1	1	1	1	3	1	2	4	2	3	2	4	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:62362466G>A	uc001ntq.1	-	15	1941	c.1560C>T	c.(1558-1560)ATC>ATT	p.I520I	MTA2_uc010rlx.1_Silent_p.I347I	NM_004739	NP_004730	O94776	MTA2_HUMAN	metastasis-associated protein 2	520					chromatin assembly or disassembly	NuRD complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GATCTTTGACGATAGTTGCCA	0.527													70	153					0	0	1	0	0		A	62362466	A	A	62362466	2	1	89	1	0	0	0	0	0	0	0	1	9927	1048	37	1		1	MTA2	11	62362466	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	443186	62362466	72644050	4239	58070											
GANAB	23193	broad.mit.edu	37	chr11	62402472	62402472	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcacgaccagagacagaaagCctgggaaacatatcaaaaga	19	4	9	9	1	2	3	2	0	0	3	2	6	2	4	2	1	2	0	2	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:62402472C>T	uc001nub.2	-	5	414	c.381G>A	c.(379-381)CGG>CGA	p.R127R	GANAB_uc001nua.2_Silent_p.R127R|GANAB_uc001nuc.2_Silent_p.R30R|GANAB_uc010rma.1_Silent_p.R13R|GANAB_uc010rmb.1_Silent_p.R13R	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2	127					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5						AGACAGAAAGCCTGGGAAACA	0.453													38	47					0	0	1	0	0		T	62402472	T	T	62402472	2	4	89	1	0	0	0	0	0	0	0	1	6248	753	26	2		2	GANAB	11	62402472	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	40006	62402472	72604044	4240	58071											
METTL12	751071	broad.mit.edu	37	chr11	62433962	62433962	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccccaccttcgactggttCtttggatacgacgaagtcca	8	11	9	13	3	1	0	0	0	1	0	4	4	3	1	4	2	1	1	4	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:62433962C>A	uc001nug.1	+	3	421	c.162C>A	c.(160-162)TTC>TTA	p.F54L	C11orf48_uc001nue.2_Intron|C11orf48_uc001nuf.2_Intron|METTL12_uc001nuh.2_Missense_Mutation_p.S96Y|METTL12_uc010rmc.1_RNA	NM_001043229	NP_001036694	A8MUP2	MTL12_HUMAN	methyltransferase like 12 precursor	54						mitochondrion	methyltransferase activity				0						TCGACTGGTTCTTTGGATACG	0.617													34	76					3.86903e-22	4.60818e-22	1	1	0		A	62433962	A	A	62433962	3	1	89	1	0	0	0	0	1	0	0	0	9514	912	32	5	168	5	METTL12	11	62433962	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	31490	62433962	72572554	4241	58072											
HNRNPUL2	221092	broad.mit.edu	37	chr11	62484514	62484514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacgcttgtttcggttgtttCggcgatttgtccgcttctcg	2	18	11	10	6	1	0	0	0	1	0	5	1	2	0	1	2	1	5	1	2	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:62484514C>T	uc001nuw.2	-	11	2121	c.1928G>A	c.(1927-1929)CGA>CAA	p.R643Q	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	643					cell killing	nucleus	ATP binding|nucleic acid binding				0						TCGGTTGTTTCGGCGATTTGT	0.567													27	49					0	0	1	0	0		T	62484514	T	T	62484514	3	4	89	1	0	0	0	0	1	0	0	0	7291	884	31	1	331	1	HNRNPUL2	11	62484514	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	50552	62484514	72522002	4242	58073											
NXF1	10482	broad.mit.edu	37	chr11	62564692	62564692	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagactcttcaagttttCtgttccaaaatagcttccct	10	14	5	12	0	3	1	1	0	2	1	5	2	5	1	3	0	1	3	3	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:62564692C>A	uc001nvf.1	-	13	1277	c.1141G>T	c.(1141-1143)GAA>TAA	p.E381*	NXF1_uc001nvg.1_3'UTR|NXF1_uc009yog.1_Nonsense_Mutation_p.E424*	NM_006362	NP_006353	Q9UBU9	NXF1_HUMAN	nuclear RNA export factor 1 isoform 1	381					gene expression|interspecies interaction between organisms	cytosol|nuclear speck	nucleotide binding|protein binding			skin(3)	3						TTCAAGTTTTCTGTTCCAAAA	0.498													23	38					2.21704e-12	2.45332e-12	1	1	0		A	62564692	A	A	62564692	4	1	89	1	0	0	0	0	0	1	0	0	10801	922	32	5	754	5	NXF1	11	62564692	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	80178	62564692	72441824	4243	58074											
STX5	6811	broad.mit.edu	37	chr11	62594857	62594857	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaatgtgttgctaaggtCtttcccaatgcgcctgcaaa	10	11	10	10	1	1	0	0	0	1	0	2	0	2	0	2	2	3	4	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:62594857C>A	uc001nvh.2	-	4	464	c.310G>T	c.(310-312)GAC>TAC	p.D104Y	STX5_uc010rmi.1_Missense_Mutation_p.D8Y|STX5_uc009yoh.2_RNA|STX5_uc001nvi.2_Missense_Mutation_p.D50Y|STX5_uc010rmj.1_Missense_Mutation_p.D104Y|STX5_uc001nvj.2_5'UTR	NM_003164	NP_003155	Q13190	STX5_HUMAN	syntaxin 5	104	Cytoplasmic (Potential).				intracellular protein transport|retrograde transport, endosome to Golgi|vesicle targeting	ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|nucleus|SNARE complex	protein N-terminus binding|SNAP receptor activity			ovary(1)|breast(1)	2						TTGCTAAGGTCTTTCCCAATG	0.493													48	135					3.2641e-12	3.60906e-12	1	1	0		A	62594857	A	A	62594857	3	1	89	1	0	0	0	0	1	0	0	0	15373	913	32	5	789	5	STX5	11	62594857	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30165	62594857	72411659	4244	58075											
SLC22A9	114571	broad.mit.edu	37	chr11	63137605	63137605	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagactgtttttctctcaaTctttgctgttgctacatacc	7	18	5	11	0	4	1	2	0	2	1	5	1	4	1	1	0	4	4	1	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:63137605T>G	uc001nww.2	+	1	345	c.77T>G	c.(76-78)ATC>AGC	p.I26S	SLC22A9_uc001nwx.2_RNA	NM_080866	NP_543142	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion/cation	26	Helical; (Potential).				transmembrane transport	integral to membrane				breast(2)|large_intestine(1)	3						TTTCTCTCAATCTTTGCTGTT	0.483													47	124					0	0	1	0	0		G	63137605	G	G	63137605	3	3	89	1	0	0	0	0	1	0	0	0	14486	1435	50	5	79	5	SLC22A9	11	63137605	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	542748	63137605	71868911	4245	58076											
RARRES3	5920	broad.mit.edu	37	chr11	63313629	63313629	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgctttgcaggtggaaaaGgccaaggttgaagttggtgt	9	12	15	5	0	0	1	0	1	0	0	0	2	0	2	1	5	2	4	1	5	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:63313629G>A	uc001nxf.3	+	4	464	c.396G>A	c.(394-396)AAG>AAA	p.K132K		NM_004585	NP_004576	Q9UL19	TIG3_HUMAN	retinoic acid receptor responder (tazarotene	132					lipid catabolic process|negative regulation of cell proliferation		hydrolase activity			ovary(1)	1						AGGTGGAAAAGGCCAAGGTTG	0.542													88	141					0	0	1	0	0		A	63313629	A	A	63313629	2	1	89	1	0	0	0	0	0	0	0	1	13082	991	35	4		4	RARRES3	11	63313629	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	176024	63313629	71692887	4246	58077											
RTN3	10313	broad.mit.edu	37	chr11	63487738	63487738	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttcaaaagtacccgatacGaatgtctccttagaagatgt	13	12	8	8	2	2	2	1	0	1	2	3	4	2	2	2	0	2	2	2	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:63487738G>A	uc001nxq.2	+	3	1951	c.1764G>A	c.(1762-1764)ACG>ACA	p.T588T	RTN3_uc001nxo.2_Intron|RTN3_uc001nxm.2_Intron|RTN3_uc001nxn.2_Silent_p.T569T|RTN3_uc001nxp.2_Intron|RTN3_uc009yov.2_Silent_p.T476T|RTN3_uc010rmt.1_Intron|RTN3_uc010rmu.1_Intron	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	588					apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						TACCCGATACGAATGTCTCCT	0.428													46	96					0	0	1	0	0		A	63487738	A	A	63487738	2	1	89	1	0	0	0	0	0	0	0	1	13752	1045	37	1		1	RTN3	11	63487738	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	174109	63487738	71518778	4247	58078											
MARK2	2011	broad.mit.edu	37	chr11	63667549	63667549	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctctatacactggtcagCggatccctgccttttgatgg	7	13	9	12	1	2	1	1	1	1	0	4	2	4	2	3	3	3	0	3	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:63667549C>T	uc001nxw.2	+	8	1314	c.735C>T	c.(733-735)AGC>AGT	p.S245S	MARK2_uc001nxx.2_Silent_p.S245S|MARK2_uc001nxy.2_Silent_p.S245S|MARK2_uc001nxv.3_Silent_p.S245S|MARK2_uc001nxz.3_Silent_p.S212S|MARK2_uc009yoy.2_Silent_p.S212S	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	245	Protein kinase.				cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						CACTGGTCAGCGGATCCCTGC	0.512													78	136					0	0	1	0	0		T	63667549	T	T	63667549	2	4	89	1	0	0	0	0	0	0	0	1	9331	767	27	1		1	MARK2	11	63667549	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	179811	63667549	71338967	4248	58079											
STIP1	10963	broad.mit.edu	37	chr11	63961954	63961954	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctttatttggacagagaGaaaattcatgaaccctttca	13	14	6	8	0	2	3	2	1	0	2	3	5	3	4	2	1	1	0	2	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:63961954G>T	uc001nyk.1	+	4	512	c.365G>T	c.(364-366)AGA>ATA	p.R122I	STIP1_uc001nyj.2_Missense_Mutation_p.R122I|STIP1_uc010rnb.1_Missense_Mutation_p.R98I	NM_006819	NP_006810	P31948	STIP1_HUMAN	stress-induced-phosphoprotein 1	122					axon guidance|response to stress	Golgi apparatus|nucleus				ovary(2)|liver(1)	3						TGGACAGAGAGAAAATTCATG	0.443													21	60					1.85244e-09	1.99202e-09	1	1	0		T	63961954	T	T	63961954	3	4	89	1	0	0	0	0	1	0	0	0	15310	942	33	5	379	5	STIP1	11	63961954	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	294405	63961954	71044562	4249	58080											
PLCB3	5331	broad.mit.edu	37	chr11	64029069	64029069	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taagagaggaacaaatgcttCgagatgtcgtcctttgtgga	12	11	12	6	2	0	2	0	0	0	2	3	6	1	4	1	2	2	1	1	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:64029069C>T	uc001nzb.2	+	16	1845	c.1845C>T	c.(1843-1845)TTC>TTT	p.F615F	PLCB3_uc009ypg.1_Silent_p.F615F|PLCB3_uc009yph.1_Silent_p.F548F|PLCB3_uc009ypi.2_Silent_p.F615F	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	615	PI-PLC Y-box.				intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						ACAAATGCTTCGAGATGTCGT	0.592													35	53					0	0	1	0	0		T	64029069	T	T	64029069	2	4	89	1	0	0	0	0	0	0	0	1	12048	883	31	1		1	PLCB3	11	64029069	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	67115	64029069	70977447	4250	58081											
NRXN2	9379	broad.mit.edu	37	chr11	64398002	64398002	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctcgtcgatggtaatgTcgtccgtgcccacgttaaag	7	11	13	10	5	0	0	0	0	0	0	4	1	1	0	2	2	1	3	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:64398002T>C	uc001oap.2	-	4	1002	c.491A>G	c.(490-492)GAC>GGC	p.D164G	NRXN2_uc001oar.2_Missense_Mutation_p.D1210G|NRXN2_uc001oas.2_Missense_Mutation_p.D1170G|NRXN2_uc001oaq.2_Missense_Mutation_p.D877G	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	164	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						GATGGTAATGTCGTCCGTGCC	0.607													23	41					0	0	1	0	0		C	64398002	C	C	64398002	3	2	89	1	0	0	0	0	1	0	0	0	10685	1667	58	3	1529	3	NRXN2	11	64398002	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	368933	64398002	70608514	4251	58082											
SF1	7536	broad.mit.edu	37	chr11	64536783	64536783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attctggtcctctggagtctCgataccctgcttcaggatgt	6	14	10	11	1	4	0	1	0	3	0	6	3	5	2	2	3	2	1	2	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:64536783C>T	uc001obb.1	-	7	1068	c.691G>A	c.(691-693)GAG>AAG	p.E231K	SF1_uc010rnm.1_5'Flank|SF1_uc010rnn.1_Missense_Mutation_p.E205K|SF1_uc001oaz.1_Missense_Mutation_p.E356K|SF1_uc001oba.1_Missense_Mutation_p.E231K|SF1_uc001obc.1_Missense_Mutation_p.E231K|SF1_uc001obd.1_Missense_Mutation_p.E231K|SF1_uc001obe.1_Missense_Mutation_p.E116K|SF1_uc010rno.1_Missense_Mutation_p.E116K	NM_004630	NP_004621	Q15637	SF01_HUMAN	splicing factor 1 isoform 1	231					nuclear mRNA 3'-splice site recognition|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ribosome|spliceosomal complex	protein binding|RNA binding|transcription corepressor activity|zinc ion binding			ovary(1)|breast(1)|skin(1)	3						TCTGGAGTCTCGATACCCTGC	0.488													39	72					0	0	1	0	0		T	64536783	T	T	64536783	3	4	89	1	0	0	0	0	1	0	0	0	14170	893	31	1	1394	1	SF1	11	64536783	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	138781	64536783	70469733	4252	58083											
ZNHIT2	741	broad.mit.edu	37	chr11	64883942	64883942	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctcctcaatgagagttCttggggcaggtggcacgggg	7	8	18	8	1	2	1	1	1	1	1	3	3	3	2	1	7	1	4	1	7	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:64883942C>A	uc001ocw.2	-	1	1229	c.1184G>T	c.(1183-1185)AGA>ATA	p.R395I	uc009yqb.1_5'UTR	NM_014205	NP_055020	Q9UHR6	ZNHI2_HUMAN	zinc finger, HIT domain containing 2	395							metal ion binding			breast(1)	1						AATGAGAGTTCTTGGGGCAGG	0.597													56	86					1.80625e-27	2.19245e-27	1	1	0		A	64883942	A	A	64883942	3	1	89	1	0	0	0	0	1	0	0	0	18232	913	32	5	31	5	ZNHIT2	11	64883942	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	347159	64883942	70122574	4253	58084											
POLA2	23649	broad.mit.edu	37	chr11	65046230	65046230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcccagaaatacaactcacGaagtaaccgaggagaagtgg	16	5	10	10	2	1	2	1	0	0	2	2	5	2	2	2	2	3	1	2	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:65046230G>A	uc001odj.2	+	6	833	c.491G>A	c.(490-492)CGA>CAA	p.R164Q	POLA2_uc009yqf.1_Missense_Mutation_p.R164Q|POLA2_uc010rod.1_5'UTR|POLA2_uc001odk.2_5'Flank	NM_002689	NP_002680	Q14181	DPOA2_HUMAN	DNA-directed DNA polymerase alpha 2	164					DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	nucleoplasm	DNA binding				0					Dacarbazine(DB00851)	TACAACTCACGAAGTAACCGA	0.448													53	127					0	0	1	0	0		A	65046230	A	A	65046230	3	1	89	1	0	0	0	0	1	0	0	0	12207	1058	37	1	513	1	POLA2	11	65046230	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	162288	65046230	69960286	4254	58085											
DPF2	5977	broad.mit.edu	37	chr11	65109022	65109022	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtttcctgtgaccaacagtCgagcgcgaaaggtacaggat	12	8	12	9	3	0	1	0	1	0	0	2	4	1	2	2	2	3	2	2	2	3	2	rs139955640		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:65109022C>T	uc001odm.2	+	4	466	c.454C>T	c.(454-456)CGA>TGA	p.R152*	DPF2_uc001odn.2_Nonsense_Mutation_p.R152*|DPF2_uc010roe.1_Nonsense_Mutation_p.R152*	NM_006268	NP_006259	Q92785	REQU_HUMAN	D4, zinc and double PHD fingers family 2	152					apoptosis|induction of apoptosis by extracellular signals|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						GACCAACAGTCGAGCGCGAAA	0.552													15	59					0	0	1	0	0		T	65109022	T	T	65109022	4	4	89	1	0	0	0	0	0	1	0	0	4723	876	31	1	468	1	DPF2	11	65109022	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	62792	65109022	69897494	4255	58086											
EHBP1L1	254102	broad.mit.edu	37	chr11	65350612	65350612	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatattggggacccaagaGatagcatctaggagttcagg	13	8	14	6	0	2	2	1	0	1	2	2	6	2	4	1	4	1	2	1	4	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:65350612G>T	uc001oeo.3	+	9	2734	c.2469G>T	c.(2467-2469)GAG>GAT	p.E823D	EHBP1L1_uc001oep.1_Intron	NM_001099409	NP_001092879	Q8N3D4	EH1L1_HUMAN	tangerin	823	Glu-rich.									central_nervous_system(1)	1						GGACCCAAGAGATAGCATCTA	0.567													19	34					2.94398e-08	3.12196e-08	1	1	0		T	65350612	T	T	65350612	3	4	89	1	0	0	0	0	1	0	0	0	4982	933	33	5	2503	5	EHBP1L1	11	65350612	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	241590	65350612	69655904	4256	58087											
MAP3K11	4296	broad.mit.edu	37	chr11	65380788	65380788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctcatcggggtcctggCgagctgccttcacagccacc	5	9	11	16	2	2	0	2	0	0	0	5	1	4	0	5	3	3	1	5	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:65380788C>T	uc001oew.2	-	1	933	c.440G>A	c.(439-441)CGC>CAC	p.R147H	MAP3K11_uc010rol.1_5'Flank|PCNXL3_uc001oey.2_5'Flank	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	147	Protein kinase.				activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						GGGGTCCTGGCGAGCTGCCTT	0.632													33	48					0	0	1	0	0		T	65380788	T	T	65380788	3	4	89	1	0	0	0	0	1	0	0	0	9263	768	27	1	2143	1	MAP3K11	11	65380788	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30176	65380788	69625728	4257	58088											
SART1	9092	broad.mit.edu	37	chr11	65745317	65745317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaggacggctacaaacccGacgttaagatcgaatacgtg	15	6	11	9	5	0	2	0	0	0	2	1	5	0	3	1	2	3	2	1	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:65745317G>A	uc001ogl.2	+	17	2211	c.2119G>A	c.(2119-2121)GAC>AAC	p.D707N		NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	707					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1						CTACAAACCCGACGTTAAGAT	0.602													10	18					0	0	1	0	0		A	65745317	A	A	65745317	3	1	89	1	0	0	0	0	1	0	0	0	13871	1058	37	1	2185	1	SART1	11	65745317	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	364529	65745317	69261199	4258	58089											
SF3B2	10992	broad.mit.edu	37	chr11	65826323	65826323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaccggaagcgtaggaaccGaaagaagaagaaaaagcccc	20	1	11	9	3	0	3	0	0	0	3	0	6	0	5	4	2	4	1	4	2	9	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:65826323G>A	uc001ogy.1	+	10	1029	c.989G>A	c.(988-990)CGA>CAA	p.R330Q		NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	330					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						CGTAGGAACCGAAAGAAGAAG	0.587													18	49					0	0	1	0	0		A	65826323	A	A	65826323	3	1	89	1	0	0	0	0	1	0	0	0	14176	1058	37	1	1027	1	SF3B2	11	65826323	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	81006	65826323	69180193	4259	58090											
SF3B2	10992	broad.mit.edu	37	chr11	65830545	65830545	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggatgagactgggaaaccGctctatggggacgtgtttgg	8	10	17	6	2	1	1	0	1	1	1	1	5	1	4	1	5	1	2	1	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:65830545G>A	uc001ogy.1	+	17	2083	c.2043G>A	c.(2041-2043)CCG>CCA	p.P681P		NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	681					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						CTGGGAAACCGCTCTATGGGG	0.478													26	70					0	0	1	0	0		A	65830545	A	A	65830545	2	1	89	1	0	0	0	0	0	0	0	1	14176	1074	38	1		1	SF3B2	11	65830545	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4222	65830545	69175971	4260	58091											
SLC29A2	3177	broad.mit.edu	37	chr11	66136541	66136541	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtgctcacagttgatgaaGcagacggaggccatggtgat	11	8	15	7	1	1	4	1	3	0	1	1	5	1	5	1	4	2	3	1	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:66136541G>A	uc001oht.2	-	4	634	c.405C>T	c.(403-405)TGC>TGT	p.C135C	SLC29A2_uc001ohs.2_Silent_p.C15C|SLC29A2_uc010rpb.1_RNA|SLC29A2_uc009yrf.2_Silent_p.C15C|SLC29A2_uc001ohu.2_Silent_p.C135C|SLC29A2_uc001ohv.2_Silent_p.C135C|uc001ohw.1_RNA	NM_001532	NP_001523	Q14542	S29A2_HUMAN	solute carrier family 29 (nucleoside	135	Helical; (Potential).				cell proliferation|nucleobase, nucleoside and nucleotide metabolic process	basolateral plasma membrane|integral to plasma membrane|nuclear membrane|nucleolus	nucleoside transmembrane transporter activity			ovary(1)	1						AGTTGATGAAGCAGACGGAGG	0.582													3	6					0	0	1	0	0		A	66136541	A	A	66136541	2	1	89	1	0	0	0	0	0	0	0	1	14560	963	34	2		2	SLC29A2	11	66136541	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	305996	66136541	68869975	4261	58092											
NPAS4	266743	broad.mit.edu	37	chr11	66192494	66192494	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggaagagacgcccgtggaAgacatcttcatggatctctc	10	9	11	11	2	3	2	1	0	2	2	5	6	3	5	1	3	0	0	1	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:66192494A>C	uc001ohx.1	+	7	2309	c.2133A>C	c.(2131-2133)GAA>GAC	p.E711D	NPAS4_uc010rpc.1_Missense_Mutation_p.E501D	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	711					transcription, DNA-dependent		DNA binding|signal transducer activity				0						CGCCCGTGGAAGACATCTTCA	0.602													22	126					0	0	1	0	0		C	66192494	C	C	66192494	3	2	89	1	0	0	0	0	1	0	0	0	10584	69	3	5	2159	5	NPAS4	11	66192494	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	55953	66192494	68814022	4262	58093											
CTSF	8722	broad.mit.edu	37	chr11	66334775	66334775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttcttgaagattgaagcCatcttcacaggcaagtcctg	12	11	9	9	0	3	3	1	2	2	1	4	3	4	3	2	1	1	2	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:66334775C>T	uc001oip.2	-	4	639	c.549G>A	c.(547-549)ATG>ATA	p.M183I		NM_003793	NP_003784	Q9UBX1	CATF_HUMAN	cathepsin F precursor	183					proteolysis	lysosome	cysteine-type endopeptidase activity				0						AGATTGAAGCCATCTTCACAG	0.512													39	100					0	0	1	0	0		T	66334775	T	T	66334775	3	4	89	1	0	0	0	0	1	0	0	0	4037	594	21	4	945	4	CTSF	11	66334775	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	142281	66334775	68671741	4263	58094											
SPTBN2	6712	broad.mit.edu	37	chr11	66482842	66482842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctccaggcagtggatccGcatgcggccctttgtaggct	5	11	13	12	2	1	0	0	0	1	0	3	1	2	1	3	4	1	5	3	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:66482842G>A	uc001ojd.2	-	4	406	c.334C>T	c.(334-336)CGG>TGG	p.R112W		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	112	CH 1.|Actin-binding.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CAGTGGATCCGCATGCGGCCC	0.582													19	24					0	0	1	0	0		A	66482842	A	A	66482842	3	1	89	1	0	0	0	0	1	0	0	0	15145	1086	38	1	6974	1	SPTBN2	11	66482842	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	148067	66482842	68523674	4264	58095											
SYT12	91683	broad.mit.edu	37	chr11	66807670	66807670	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcagatcgtgggcatttCtcgggtaagtggggctcagg	7	9	17	8	3	2	1	1	0	1	1	4	2	2	1	0	5	1	4	0	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:66807670C>A	uc009yrl.2	+	4	847	c.617C>A	c.(616-618)TCT>TAT	p.S206Y	SYT12_uc001oju.2_Missense_Mutation_p.S206Y	NM_177963	NP_808878	Q8IV01	SYT12_HUMAN	synaptotagmin XII	206	C2 1.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane				ovary(1)	1						GTGGGCATTTCTCGGGTAAGT	0.662													21	37					1.96895e-08	2.09068e-08	1	1	0		A	66807670	A	A	66807670	3	1	89	1	0	0	0	0	1	0	0	0	15493	913	32	5	627	5	SYT12	11	66807670	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	324828	66807670	68198846	4265	58096											
CARNS1	57571	broad.mit.edu	37	chr11	67187257	67187257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggccccggcctggccgtgcGaatctgtgctgtggtgtgtc	2	10	16	13	4	1	0	0	0	1	0	2	1	1	0	4	4	2	1	4	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:67187257G>A	uc009yrp.2	+	6	1144	c.692G>A	c.(691-693)CGA>CAA	p.R231Q	PPP1CA_uc001okx.1_Intron|CARNS1_uc010rpr.1_Missense_Mutation_p.R354Q|CARNS1_uc001olc.3_Missense_Mutation_p.R370Q	NM_020811	NP_065862	A5YM72	CRNS1_HUMAN	ATP-grasp domain containing 1	231					carnosine biosynthetic process		ATP binding|carnosine synthase activity|metal ion binding				0						CTGGCCGTGCGAATCTGTGCT	0.657													8	12					0	0	1	0	0		A	67187257	A	A	67187257	3	1	89	1	0	0	0	0	1	0	0	0	2659	1058	37	1	1083	1	CARNS1	11	67187257	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	379587	67187257	67819259	4266	58097											
SUV420H1	51111	broad.mit.edu	37	chr11	67926444	67926444	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctccagccgcttgcaatGatttctcaattttatctttg	7	18	6	10	1	2	1	1	1	2	0	4	1	3	1	2	0	3	3	2	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:67926444G>T	uc001onm.1	-	11	1625	c.1369C>A	c.(1369-1371)CAT>AAT	p.H457N	SUV420H1_uc009yse.1_Missense_Mutation_p.H43N|SUV420H1_uc001onn.1_Missense_Mutation_p.H285N|SUV420H1_uc009ysf.2_Missense_Mutation_p.H217N	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	457					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						CGCTTGCAATGATTTCTCAAT	0.363													37	62					1.57351e-24	1.89089e-24	1	1	0		T	67926444	T	T	67926444	3	4	89	1	0	0	0	0	1	0	0	0	15439	1290	45	5	1292	5	SUV420H1	11	67926444	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	739187	67926444	67080072	4267	58098											
MTL5	9633	broad.mit.edu	37	chr11	68478501	68478501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caatgcatttgcaaatagaaGaacacataatttgggcctgg	15	10	9	7	0	0	2	0	0	0	2	0	2	0	2	1	2	3	2	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:68478501G>A	uc001ooc.2	-	9	1315	c.1175C>T	c.(1174-1176)TCT>TTT	p.S392F		NM_004923	NP_004914	Q9Y4I5	MTL5_HUMAN	metallothionein-like 5, testis-specific isoform	392	CXC 2.				cell differentiation|cellular metal ion homeostasis|multicellular organismal development|response to metal ion|spermatogenesis	cytoplasm|nucleus|soluble fraction	metal ion binding			ovary(2)|breast(1)	3	Esophageal squamous(3;4.37e-12)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.185)			GCAAATAGAAGAACACATAAT	0.343													14	38					0	0	1	0	0		A	68478501	A	A	68478501	3	1	89	1	0	0	0	0	1	0	0	0	9954	942	33	4	359	4	MTL5	11	68478501	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	552057	68478501	66528015	4268	58099											
MTL5	9633	broad.mit.edu	37	chr11	68512569	68512569	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgtgccccctttcaatTggcatatcacctaaaatgaa	11	14	6	10	0	2	1	2	1	0	0	2	1	2	1	3	1	1	1	3	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:68512569T>C	uc001ooc.2	-	4	781	c.641A>G	c.(640-642)CAA>CGA	p.Q214R	MTL5_uc001ood.1_Missense_Mutation_p.Q214R|MTL5_uc009ysi.1_Missense_Mutation_p.Q214R	NM_004923	NP_004914	Q9Y4I5	MTL5_HUMAN	metallothionein-like 5, testis-specific isoform	214					cell differentiation|cellular metal ion homeostasis|multicellular organismal development|response to metal ion|spermatogenesis	cytoplasm|nucleus|soluble fraction	metal ion binding			ovary(2)|breast(1)	3	Esophageal squamous(3;4.37e-12)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.185)			CCCTTTCAATTGGCATATCAC	0.303													22	56					0	0	1	0	0		C	68512569	C	C	68512569	3	2	89	1	0	0	0	0	1	0	0	0	9954	1812	63	3	917	3	MTL5	11	68512569	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	34068	68512569	66493947	4269	58100											
CPT1A	1374	broad.mit.edu	37	chr11	68579981	68579981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtacatcgttgtcatcaCgcccaccaccacgataagcc	10	7	8	16	4	2	0	2	0	0	0	3	1	2	0	4	1	2	2	4	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:68579981C>T	uc001oog.3	-	3	375	c.205G>A	c.(205-207)GTG>ATG	p.V69M	CPT1A_uc001oof.3_Missense_Mutation_p.V69M|CPT1A_uc009ysj.2_Missense_Mutation_p.V69M	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	69	Helical; (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	GTTGTCATCACGCCCACCACC	0.537													24	61					0	0	1	0	0		T	68579981	T	T	68579981	3	4	89	1	0	0	0	0	1	0	0	0	3834	536	19	1	2224	1	CPT1A	11	68579981	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	67412	68579981	66426535	4270	58101											
MRPL21	219927	broad.mit.edu	37	chr11	68663994	68663994	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtctcaccttctccagtcGaattctctctccacacgcaa	8	12	5	16	2	4	0	1	0	4	0	9	1	4	0	3	1	0	1	3	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:68663994G>A	uc001ooi.2	-	4	410	c.385C>T	c.(385-387)CGA>TGA	p.R129*	MRPL21_uc001ooh.2_Nonsense_Mutation_p.R44*|MRPL21_uc010rqe.1_Nonsense_Mutation_p.R129*	NM_181514	NP_852615	Q7Z2W9	RM21_HUMAN	mitochondrial ribosomal protein L21 isoform d	129					translation	mitochondrion|ribosome	RNA binding|structural constituent of ribosome				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TTCTCCAGTCGAATTCTCTCT	0.537													42	107					0	0	1	0	0		A	68663994	A	A	68663994	4	1	89	1	0	0	0	0	0	1	0	0	9805	1066	37	1	248	1	MRPL21	11	68663994	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	84013	68663994	66342522	4271	58102											
IGHMBP2	3508	broad.mit.edu	37	chr11	68676003	68676003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagttttctcccttggcagaGccctgattgctctaaagaag	9	13	9	10	0	2	3	0	1	2	2	3	3	2	3	2	1	2	3	2	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:68676003G>A	uc001ook.1	+	4	553	c.451G>A	c.(451-453)GCC>ACC	p.A151T	IGHMBP2_uc001ooj.1_RNA	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	151					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CCTTGGCAGAGCCCTGATTGC	0.522													24	38					0	0	1	0	0		A	68676003	A	A	68676003	3	1	89	1	0	0	0	0	1	0	0	0	7607	985	34	2	465	2	IGHMBP2	11	68676003	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12009	68676003	66330513	4272	58103											
MRGPRD	116512	broad.mit.edu	37	chr11	68747543	68747543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtctccccaccttccagctCgggctcctcgcgaagcgcct	4	8	9	20	5	1	0	0	0	1	0	6	1	3	0	6	1	2	2	6	1	1	1	rs140472736		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:68747543C>T	uc010rqf.1	-	1	913	c.913G>A	c.(913-915)GAG>AAG	p.E305K		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	305	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CCTTCCAGCTCGGGCTCCTCG	0.677													32	74					0	0	1	0	0		T	68747543	T	T	68747543	3	4	89	1	0	0	0	0	1	0	0	0	9781	893	31	1	55	1	MRGPRD	11	68747543	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	71540	68747543	66258973	4273	58104											
MYEOV	26579	broad.mit.edu	37	chr11	69063584	69063584	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactctgcatgaccctggcaGaatcgagctgccctgactat	9	9	9	14	1	1	3	0	2	1	1	2	4	1	3	2	1	3	3	2	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:69063584G>T	uc001oov.2	+	3	1117	c.667G>T	c.(667-669)GAA>TAA	p.E223*	MYEOV_uc001oox.2_Intron|MYEOV_uc009ysl.2_Nonsense_Mutation_p.E223*|MYEOV_uc001oow.2_Nonsense_Mutation_p.E165*	NM_138768	NP_620123	Q96EZ4	MYEOV_HUMAN	myeloma overexpressed	223											0	all_lung(4;2.21e-19)|Lung NSC(4;6.13e-19)|Melanoma(5;0.00128)		LUSC - Lung squamous cell carcinoma(11;3.33e-11)|STAD - Stomach adenocarcinoma(18;0.00654)|LUAD - Lung adenocarcinoma(13;0.0713)	Kidney(183;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.00361)|LUSC - Lung squamous cell carcinoma(976;0.0153)		GACCCTGGCAGAATCGAGCTG	0.637													32	44					3.99451e-17	4.61668e-17	1	1	0		T	69063584	T	T	69063584	4	4	89	1	0	0	0	0	0	1	0	0	10043	943	33	5	673	5	MYEOV	11	69063584	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	316041	69063584	65942932	4274	58105											
ANO1	55107	broad.mit.edu	37	chr11	69978067	69978067	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaatatcaccatgtgcccGctttgcgacaagacctgcag	11	8	8	14	2	1	1	1	0	0	1	1	2	1	1	3	0	3	2	3	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:69978067G>A	uc001opj.2	+	11	1445	c.1140G>A	c.(1138-1140)CCG>CCA	p.P380P	ANO1_uc001opk.1_Silent_p.P352P|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Silent_p.P115P	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	380	Extracellular (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						CCATGTGCCCGCTTTGCGACA	0.602													14	10					0	0	1	0	0		A	69978067	A	A	69978067	2	1	89	1	0	0	0	0	0	0	0	1	695	1074	38	1		1	ANO1	11	69978067	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	914483	69978067	65028449	4275	58106											
ANO1	55107	broad.mit.edu	37	chr11	70031744	70031744	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaaaacaagtacgacatCtccaaggacttctgggccgt	12	8	10	11	3	2	0	0	0	2	0	4	3	2	2	2	3	2	1	2	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:70031744C>A	uc001opj.2	+	25	2942	c.2637C>A	c.(2635-2637)ATC>ATA	p.I879I	ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Silent_p.I588I|ANO1_uc010rql.1_Silent_p.I53I	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	879	Extracellular (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						AGTACGACATCTCCAAGGACT	0.587													25	46					1.75199e-13	1.95935e-13	1	1	0		A	70031744	A	A	70031744	2	1	89	1	0	0	0	0	0	0	0	1	695	903	32	5		5	ANO1	11	70031744	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	53677	70031744	64974772	4276	58107											
ANO1	55107	broad.mit.edu	37	chr11	70031792	70031792	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccggctggcgtttgtcatCgtcttccaggtgcggtgggt	2	12	16	11	4	2	0	1	0	1	0	4	0	3	0	2	5	1	2	2	5	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:70031792C>T	uc001opj.2	+	25	2990	c.2685C>T	c.(2683-2685)ATC>ATT	p.I895I	ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Silent_p.I604I|ANO1_uc010rql.1_Silent_p.I69I	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	895	Helical; (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						CGTTTGTCATCGTCTTCCAGG	0.557													20	34					0	0	1	0	0		T	70031792	T	T	70031792	2	4	89	1	0	0	0	0	0	0	0	1	695	874	31	1		1	ANO1	11	70031792	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	48	70031792	64974724	4277	58108											
PPFIA1	8500	broad.mit.edu	37	chr11	70221149	70221149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggccttagatgaaaccttcGacttcagtgcactggcactg	9	11	10	11	1	1	2	1	1	0	1	2	3	1	2	2	2	2	2	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:70221149G>A	uc001opo.2	+	24	3463	c.3265G>A	c.(3265-3267)GAC>AAC	p.D1089N	PPFIA1_uc001opn.1_Missense_Mutation_p.D1089N|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opr.2_Missense_Mutation_p.D228N|PPFIA1_uc001ops.2_Missense_Mutation_p.D128N|uc001opt.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	1089	SAM 3.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			TGAAACCTTCGACTTCAGTGC	0.488													11	39					0	0	1	0	0		A	70221149	A	A	70221149	3	1	89	1	0	0	0	0	1	0	0	0	12328	1058	37	1	3355	1	PPFIA1	11	70221149	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	189357	70221149	64785367	4278	58109											
DHCR7	1717	broad.mit.edu	37	chr11	71150111	71150111	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcatgtagttgtaaaaGaaattgcctgtgaatttgct	12	14	8	7	0	1	2	1	1	0	1	1	2	1	2	2	0	2	4	2	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:71150111G>T	uc001oqk.2	-	7	895	c.645C>A	c.(643-645)TTC>TTA	p.F215L	DHCR7_uc001oql.2_Missense_Mutation_p.F215L	NM_001163817	NP_001157289	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	215					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|nuclear outer membrane	7-dehydrocholesterol reductase activity|protein binding			ovary(1)|liver(1)	2					NADH(DB00157)	AGTTGTAAAAGAAATTGCCTG	0.443									Smith-Lemli-Opitz_syndrome				11	30					1.08611e-07	1.14333e-07	1	1	0		T	71150111	T	T	71150111	3	4	89	1	0	0	0	0	1	0	0	0	4483	933	33	5	794	5	DHCR7	11	71150111	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	928962	71150111	63856405	4279	58110											
KRTAP5-8	57830	broad.mit.edu	37	chr11	71249203	71249203	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgtgtgcccatctgctgCtgcaagcccgtgtgctgctg	3	12	13	13	1	1	0	0	0	1	0	1	0	1	0	2	0	8	6	2	0	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:71249203C>T	uc001oqr.1	+	1	133	c.102C>T	c.(100-102)TGC>TGT	p.C34C		NM_021046	NP_066384	O75690	KRA58_HUMAN	keratin associated protein 5-8	34	2.|9 X 4 AA repeats of C-C-X-P.					extracellular region|keratin filament	structural constituent of epidermis				0						CCATCTGCTGCTGCAAGCCCG	0.687													74	198					0	0	1	0	0		T	71249203	T	T	71249203	2	4	89	1	0	0	0	0	0	0	0	1	8583	805	28	2		2	KRTAP5-8	11	71249203	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	99092	71249203	63757313	4280	58111											
NUMA1	4926	broad.mit.edu	37	chr11	71720125	71720125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagccgttcagcttcagctCgcagctctttgttttccttc	4	15	7	15	2	3	0	2	0	1	0	6	0	4	0	3	0	4	6	3	0	0	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:71720125C>T	uc001orl.1	-	19	5118	c.4946G>A	c.(4945-4947)CGA>CAA	p.R1649Q	NUMA1_uc001orj.2_5'Flank|NUMA1_uc009ysw.1_Missense_Mutation_p.R1198Q|NUMA1_uc001ork.1_Missense_Mutation_p.R513Q|NUMA1_uc001orm.1_Missense_Mutation_p.R1635Q|NUMA1_uc001orn.2_Missense_Mutation_p.R1212Q	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1649	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						AGCTTCAGCTCGCAGCTCTTT	0.577			T	RARA	APL								16	31					0	0	1	0	0		T	71720125	T	T	71720125	3	4	89	1	0	0	0	0	1	0	0	0	10769	884	31	1	1437	1	NUMA1	11	71720125	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	470922	71720125	63286391	4281	58112											
NUMA1	4926	broad.mit.edu	37	chr11	71726580	71726580	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgggctgtctcaacacaggCctggagttcctccaccttcc	6	9	10	16	1	1	0	1	0	1	0	5	1	4	1	5	3	1	2	5	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:71726580C>T	uc001orl.1	-	15	2141	c.1969G>A	c.(1969-1971)GCC>ACC	p.A657T	NUMA1_uc009ysw.1_Missense_Mutation_p.A220T|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.A657T|NUMA1_uc001orn.2_Missense_Mutation_p.A220T|NUMA1_uc009ysx.1_Missense_Mutation_p.A657T|NUMA1_uc001oro.1_Missense_Mutation_p.A657T	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	657	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						TCAACACAGGCCTGGAGTTCC	0.602			T	RARA	APL								27	57					0	0	1	0	0		T	71726580	T	T	71726580	3	4	89	1	0	0	0	0	1	0	0	0	10769	739	26	2	4430	2	NUMA1	11	71726580	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6455	71726580	63279936	4282	58113											
FOLR3	2352	broad.mit.edu	37	chr11	71847003	71847003	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctggcaggaatagatggAcatggcctggcagatgatgc	10	9	14	8	0	1	3	0	1	1	2	2	5	1	5	1	5	1	2	1	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:71847003A>G	uc001ory.1	+	2	55	c.5A>G	c.(4-6)GAC>GGC	p.D2G	FOLR3_uc001orx.1_Missense_Mutation_p.D2G			P41439	FOLR3_HUMAN	SubName: Full=FOLR3 protein; Flags: Fragment;	Error:Variant_position_missing_in_P41439_after_alignment					folic acid transport	extracellular region|extrinsic to membrane|membrane fraction	folic acid binding|receptor activity				0					Folic Acid(DB00158)	GAATAGATGGACATGGCCTGG	0.602													60	139					0	0	1	0	0		G	71847003	G	G	71847003	3	3	89	1	0	0	0	0	1	0	0	0	5997	275	10	3	7	3	FOLR3	11	71847003	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	120423	71847003	63159513	4283	58114											
PDE2A	5138	broad.mit.edu	37	chr11	72290417	72290417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgcatcagatccagcatgCgctgatagtcctgaggcgag	9	7	12	13	3	1	3	1	2	0	1	3	4	3	3	3	1	2	3	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:72290417C>T	uc010rrc.1	-	27	2510	c.2267G>A	c.(2266-2268)CGC>CAC	p.R756H	PDE2A_uc001oso.2_Missense_Mutation_p.R735H|PDE2A_uc010rra.1_Missense_Mutation_p.R749H|PDE2A_uc001osn.2_Missense_Mutation_p.R500H|PDE2A_uc010rrb.1_Missense_Mutation_p.R747H|PDE2A_uc010rrd.1_Missense_Mutation_p.R641H	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	756	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	ATCCAGCATGCGCTGATAGTC	0.592													12	31					0	0	1	0	0		T	72290417	T	T	72290417	3	4	89	1	0	0	0	0	1	0	0	0	11655	768	27	1	578	1	PDE2A	11	72290417	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	443414	72290417	62716099	4284	58115											
PAAF1	80227	broad.mit.edu	37	chr11	73602177	73602177	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagcattcatatttcatgTccaaaggaaaatgcatcttc	16	12	5	8	0	3	0	2	0	1	0	5	1	4	1	1	1	2	2	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:73602177T>C	uc001ouk.1	+	4	247	c.213T>C	c.(211-213)TGT>TGC	p.C71C	PAAF1_uc001oul.1_Silent_p.C54C|PAAF1_uc009ytx.1_RNA|PAAF1_uc001oum.1_Silent_p.C54C	NM_025155	NP_079431	Q9BRP4	PAAF1_HUMAN	proteasomal ATPase-associated factor 1	71					interspecies interaction between organisms	proteasome complex	protein binding			ovary(1)|skin(1)	2	Breast(11;7.42e-05)					ATATTTCATGTCCAAAGGAAA	0.289													8	31					0	0	1	0	0		C	73602177	C	C	73602177	2	2	89	1	0	0	0	0	0	0	0	1	11381	1673	58	3		3	PAAF1	11	73602177	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1311760	73602177	61404339	4285	58116											
C2CD3	26005	broad.mit.edu	37	chr11	73814566	73814566	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaagttctggtagtgccttAtttggacttgtaggagcaca	9	15	11	6	0	1	0	0	0	1	0	1	2	1	2	1	3	2	4	1	3	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:73814566A>T	uc001ouu.2	-	14	2417	c.2190T>A	c.(2188-2190)AAT>AAA	p.N730K		NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	730						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					GTAGTGCCTTATTTGGACTTG	0.383													26	72					0	0	1	0	0		T	73814566	T	T	73814566	3	4	89	1	0	0	0	0	1	0	0	0	2157	446	16	5	3773	5	C2CD3	11	73814566	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	212389	73814566	61191950	4286	58117											
RNF169	254225	broad.mit.edu	37	chr11	74521240	74521240	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatttttagctgagagaagaAaagttacaagaggaaaaacc	19	9	9	4	0	0	4	0	1	0	3	0	6	0	5	1	1	3	2	1	1	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:74521240A>C	uc001ovl.3	+	3	601	c.588A>C	c.(586-588)GAA>GAC	p.E196D	XRRA1_uc001ovm.2_Intron	NM_001098638	NP_001092108	Q8NCN4	RN169_HUMAN	ring finger protein 169	196							zinc ion binding			ovary(1)	1						TGAGAGAAGAAAAGTTACAAG	0.323													21	60					0	0	1	0	0		C	74521240	C	C	74521240	3	2	89	1	0	0	0	0	1	0	0	0	13485	11	1	5	598	5	RNF169	11	74521240	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	706674	74521240	60485276	4287	58118											
XRRA1	143570	broad.mit.edu	37	chr11	74563045	74563045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcactatacctcgtgtatggGccaccagagggttgttatga	9	11	12	9	1	0	2	0	1	0	1	1	2	0	2	3	2	1	4	3	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:74563045G>A	uc009yub.2	-	13	1561	c.1229C>T	c.(1228-1230)GCC>GTC	p.A410V	XRRA1_uc001ovm.2_RNA|XRRA1_uc001ovn.2_Missense_Mutation_p.A33V|XRRA1_uc001ovo.2_Intron|XRRA1_uc001ovq.3_Intron|XRRA1_uc001ovp.3_Missense_Mutation_p.A135V|XRRA1_uc001ovr.2_Missense_Mutation_p.A33V|XRRA1_uc001ovs.1_Intron	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	410					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						TCGTGTATGGGCCACCAGAGG	0.547													31	46					0	0	1	0	0		A	74563045	A	A	74563045	3	1	89	1	0	0	0	0	1	0	0	0	17487	1203	42	2	1177	2	XRRA1	11	74563045	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	41805	74563045	60443471	4288	58119											
XRRA1	143570	broad.mit.edu	37	chr11	74641361	74641361	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacctagaggcagcaggttTtctgaggcattgatataaat	12	13	10	6	0	1	3	0	2	1	1	1	3	1	3	1	3	2	4	1	3	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:74641361T>G	uc009yub.2	-	6	716	c.384A>C	c.(382-384)GAA>GAC	p.E128D	XRRA1_uc001ovm.2_RNA|XRRA1_uc001ovo.2_5'UTR|XRRA1_uc001ovq.3_Missense_Mutation_p.E128D|XRRA1_uc001ovp.3_5'UTR|XRRA1_uc001ovr.2_5'UTR	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	128					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						GCAGCAGGTTTTCTGAGGCAT	0.393													3	8					0	0	1	0	0		G	74641361	G	G	74641361	3	3	89	1	0	0	0	0	1	0	0	0	17487	1838	64	5	2050	5	XRRA1	11	74641361	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	78316	74641361	60365155	4289	58120											
SLCO2B1	11309	broad.mit.edu	37	chr11	74913973	74913973	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaaagaagacaagactttGgctgtgggcatccagttcat	14	9	11	7	0	1	4	1	0	0	4	2	4	2	4	1	2	0	3	1	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:74913973G>A	uc001owb.2	+	12	2178	c.1791G>A	c.(1789-1791)TTG>TTA	p.L597L	SLCO2B1_uc010rrq.1_Silent_p.L342L|SLCO2B1_uc010rrr.1_Silent_p.L453L|SLCO2B1_uc010rrs.1_Silent_p.L481L|SLCO2B1_uc001owc.2_Silent_p.L370L|SLCO2B1_uc001owd.2_Silent_p.L575L	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	597	Helical; Name=11; (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	ACAAGACTTTGGCTGTGGGCA	0.468													50	92					0	0	1	0	0		A	74913973	A	A	74913973	2	1	89	1	0	0	0	0	0	0	0	1	14752	1339	47	4		4	SLCO2B1	11	74913973	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	272612	74913973	60092543	4290	58121											
MOGAT2	80168	broad.mit.edu	37	chr11	75439872	75439872	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctccttcggggagaatGacctatttgaccagattccc	8	13	8	12	1	2	4	0	2	2	2	5	5	3	4	4	2	0	0	4	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:75439872G>T	uc010rru.1	+	5	688	c.688G>T	c.(688-690)GAC>TAC	p.D230Y	MOGAT2_uc001oww.1_3'UTR|MOGAT2_uc010rrv.1_Missense_Mutation_p.D148Y	NM_025098	NP_079374	Q3SYC2	MOGT2_HUMAN	monoacylglycerol O-acyltransferase 2	230					glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			ovary(2)	2	Ovarian(111;0.103)					CGGGGAGAATGACCTATTTGA	0.537													33	59					1.60099e-16	1.84126e-16	1	1	0		T	75439872	T	T	75439872	3	4	89	1	0	0	0	0	1	0	0	0	9713	1290	45	5	706	5	MOGAT2	11	75439872	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	525899	75439872	59566644	4291	58122											
ACER3	55331	broad.mit.edu	37	chr11	76726121	76726121	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtatatttttattgggatttTtattttggaatatagataac	12	21	7	1	0	0	1	0	0	0	1	0	3	0	3	0	2	1	1	0	2	8	14			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:76726121T>G	uc009yum.1	+	8	663	c.559T>G	c.(559-561)TTA>GTA	p.L187V	ACER3_uc010rsg.1_Missense_Mutation_p.L145V|ACER3_uc009yul.1_RNA|ACER3_uc001oxu.2_RNA|ACER3_uc009yun.1_Missense_Mutation_p.L145V|ACER3_uc009yuo.1_Missense_Mutation_p.L92V|ACER3_uc010rsh.1_Missense_Mutation_p.L150V|ACER3_uc010rsi.1_Missense_Mutation_p.L92V|ACER3_uc010rsj.1_Missense_Mutation_p.L92V	NM_018367	NP_060837	Q9NUN7	ACER3_HUMAN	phytoceramidase, alkaline	187	Helical; (Potential).				ceramide metabolic process|phytosphingosine biosynthetic process|positive regulation of cell proliferation|sphingosine biosynthetic process	integral to endoplasmic reticulum membrane|integral to Golgi membrane	phytoceramidase activity				0						ATTGGGATTTTTATTTTGGAA	0.303													15	38					0	0	1	0	0		G	76726121	G	G	76726121	3	3	89	1	0	0	0	0	1	0	0	0	140	1838	64	5	589	5	ACER3	11	76726121	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1286249	76726121	58280395	4292	58123											
MYO7A	4647	broad.mit.edu	37	chr11	76900472	76900472	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggggctggattctcgtgtCtctctgcgtgggctgtttcg	1	14	15	11	4	3	0	0	0	3	0	6	1	3	1	1	4	1	3	1	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:76900472C>A	uc001oyb.2	+	28	3859	c.3587C>A	c.(3586-3588)TCT>TAT	p.S1196Y	MYO7A_uc010rsm.1_Missense_Mutation_p.S1185Y|MYO7A_uc001oyc.2_Missense_Mutation_p.S1196Y|MYO7A_uc009yus.1_RNA|MYO7A_uc009yut.1_Missense_Mutation_p.S407Y	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	1196	MyTH4 1.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						ATTCTCGTGTCTCTCTGCGTG	0.627													25	44					3.28513e-13	3.66545e-13	1	1	0		A	76900472	A	A	76900472	3	1	89	1	0	0	0	0	1	0	0	0	10100	913	32	5	3727	5	MYO7A	11	76900472	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	174351	76900472	58106044	4293	58124											
PAK1	5058	broad.mit.edu	37	chr11	77090406	77090406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgatatttgatgtctgaaGcaagcgggcccactgctctg	9	11	12	9	1	2	3	0	3	2	0	2	3	2	3	1	1	3	2	1	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:77090406G>A	uc001oyh.3	-	4	852	c.319C>T	c.(319-321)CTT>TTT	p.L107F	PAK1_uc010rso.1_Missense_Mutation_p.L9F|PAK1_uc001oyg.3_Missense_Mutation_p.L107F|PAK1_uc001oyi.1_Missense_Mutation_p.L107F	NM_002576	NP_002567	Q13153	PAK1_HUMAN	p21-activated kinase 1 isoform 2	107	Autoregulatory region.			L->F: Constitutively active.	apoptosis|axon guidance|cytoskeleton organization|ER-nucleus signaling pathway|positive regulation of JUN kinase activity|positive regulation of peptidyl-serine phosphorylation|protein autophosphorylation|T cell costimulation|T cell receptor signaling pathway	cytosol|focal adhesion|Golgi apparatus	ATP binding|collagen binding|protein binding|protein serine/threonine kinase activity			skin(2)|stomach(1)|lung(1)	4	all_cancers(14;1.75e-18)					GATGTCTGAAGCAAGCGGGCC	0.488													25	65					0	0	1	0	0		A	77090406	A	A	77090406	3	1	89	1	0	0	0	0	1	0	0	0	11418	971	34	2	1419	2	PAK1	11	77090406	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	189934	77090406	57916110	4294	58125											
RSF1	51773	broad.mit.edu	37	chr11	77412131	77412131	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttctgaggcagtggtttCttcttcaggaaccaacttat	9	16	8	8	0	4	1	1	1	3	0	4	2	4	2	1	3	2	2	1	3	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:77412131C>A	uc001oyn.2	-	6	2263	c.2143G>T	c.(2143-2145)GAA>TAA	p.E715*	RSF1_uc001oym.2_Nonsense_Mutation_p.E463*	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	715					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			GCAGTGGTTTCTTCTTCAGGA	0.413													43	73					1.57019e-19	1.84548e-19	1	1	0		A	77412131	A	A	77412131	4	1	89	1	0	0	0	0	0	1	0	0	13724	922	32	5	2226	5	RSF1	11	77412131	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	321725	77412131	57594385	4295	58126											
RSF1	51773	broad.mit.edu	37	chr11	77412799	77412799	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcatacttgttatgacaGaatttaaggactctgttcca	11	17	6	7	0	2	2	1	1	1	1	3	3	3	3	1	1	1	2	1	1	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:77412799G>T	uc001oyn.2	-	6	1595	c.1475C>A	c.(1474-1476)TCT>TAT	p.S492Y	RSF1_uc001oym.2_Missense_Mutation_p.S240Y	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	492					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			TGTTATGACAGAATTTAAGGA	0.393													54	112					2.47907e-22	2.95525e-22	1	1	0		T	77412799	T	T	77412799	3	4	89	1	0	0	0	0	1	0	0	0	13724	942	33	5	2894	5	RSF1	11	77412799	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	668	77412799	57593717	4296	58127											
KCTD14	65987	broad.mit.edu	37	chr11	77727688	77727688	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaaaatggaattcgtttCttttggtggggtacgtcagg	8	16	13	4	2	2	0	1	0	1	0	3	1	2	1	0	5	1	3	0	5	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:77727688C>A	uc001oyw.3	-	2	744	c.719G>T	c.(718-720)AGA>ATA	p.R240I		NM_023930	NP_076419	Q9BQ13	KCD14_HUMAN	potassium channel tetramerisation domain	240						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1e-24)			GAATTCGTTTCTTTTGGTGGG	0.453													27	46					3.01185e-09	3.22946e-09	1	1	0		A	77727688	A	A	77727688	3	1	89	1	0	0	0	0	1	0	0	0	8117	913	32	5	52	5	KCTD14	11	77727688	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	314889	77727688	57278828	4297	58128											
USP35	57558	broad.mit.edu	37	chr11	77911746	77911746	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctctggtcaaggaggactcGaactcggggaccagctgcct	8	8	13	12	2	2	0	1	0	1	0	5	4	2	3	2	5	3	1	2	5	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:77911746G>A	uc009yva.1	+	6	1335	c.1089G>A	c.(1087-1089)TCG>TCA	p.S363S	USP35_uc001oze.2_Silent_p.S119S|USP35_uc001ozc.2_Intron|USP35_uc010rsp.1_Intron|USP35_uc001ozd.2_5'UTR|USP35_uc001ozf.2_Silent_p.S94S	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	363					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			AGGAGGACTCGAACTCGGGGA	0.647													25	28					0	0	1	0	0		A	77911746	A	A	77911746	2	1	89	1	0	0	0	0	0	0	0	1	17092	1045	37	1		1	USP35	11	77911746	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	184058	77911746	57094770	4298	58129											
USP35	57558	broad.mit.edu	37	chr11	77920554	77920554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactcaagcagtccagctcGccctctccgcccgaggagcc	9	5	9	18	3	2	0	1	0	1	0	5	2	3	1	5	1	4	2	5	1	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:77920554G>A	uc009yva.1	+	10	1899	c.1653G>A	c.(1651-1653)TCG>TCA	p.S551S	USP35_uc001oze.2_Silent_p.S307S|USP35_uc001ozc.2_Silent_p.S119S|USP35_uc010rsp.1_5'UTR|USP35_uc001ozd.2_Silent_p.S162S|USP35_uc001ozf.2_Silent_p.S282S	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	551					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			AGTCCAGCTCGCCCTCTCCGC	0.572													20	40					0	0	1	0	0		A	77920554	A	A	77920554	2	1	89	1	0	0	0	0	0	0	0	1	17092	1074	38	1		1	USP35	11	77920554	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8808	77920554	57085962	4299	58130											
ODZ4	26011	broad.mit.edu	37	chr11	78369748	78369748	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatgcaaacttcttggtCtttggagcctgctggcagct	6	13	12	10	0	2	0	0	0	2	0	2	2	2	2	1	4	5	4	1	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:78369748C>A	uc001ozl.3	-	34	8128	c.7665G>T	c.(7663-7665)AAG>AAT	p.K2555N	ODZ4_uc001ozk.3_Missense_Mutation_p.K780N|ODZ4_uc009yvb.1_Intron	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2555	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						ACTTCTTGGTCTTTGGAGCCT	0.522													21	31					8.10497e-08	8.54627e-08	1	1	0		A	78369748	A	A	78369748	3	1	89	1	0	0	0	0	1	0	0	0	10856	912	32	5	648	5	ODZ4	11	78369748	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	449194	78369748	56636768	4300	58131											
ODZ4	26011	broad.mit.edu	37	chr11	78412982	78412982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttccggataaaccgaattCggatgttcccaaggtcggcc	9	10	10	12	4	1	0	0	0	1	0	5	3	3	2	4	4	1	1	4	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:78412982C>T	uc001ozl.3	-	28	5139	c.4676G>A	c.(4675-4677)CGA>CAA	p.R1559Q	ODZ4_uc009yvb.1_Missense_Mutation_p.R143Q	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1559	NHL 5.|Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						AAACCGAATTCGGATGTTCCC	0.493													14	54					0	0	1	0	0		T	78412982	T	T	78412982	3	4	89	1	0	0	0	0	1	0	0	0	10856	884	31	1	3661	1	ODZ4	11	78412982	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	43234	78412982	56593534	4301	58132											
ODZ4	26011	broad.mit.edu	37	chr11	78413045	78413045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acacagccaaggaagatgggGtatttaactttgcatccttg	12	11	10	8	0	0	1	0	0	0	1	1	2	1	2	2	3	3	2	2	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:78413045G>A	uc001ozl.3	-	28	5076	c.4613C>T	c.(4612-4614)ACC>ATC	p.T1538I	ODZ4_uc009yvb.1_Missense_Mutation_p.T122I	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1538	NHL 5.|Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						GGAAGATGGGGTATTTAACTT	0.502													17	25					0	0	1	0	0		A	78413045	A	A	78413045	3	1	89	1	0	0	0	0	1	0	0	0	10856	1261	44	4	3724	4	ODZ4	11	78413045	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	63	78413045	56593471	4302	58133											
ODZ4	26011	broad.mit.edu	37	chr11	78440647	78440647	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggctgctcaggtagctcagCctcatcttgcagccagagat	8	9	11	13	1	4	1	3	0	1	1	4	2	4	1	2	2	5	5	2	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:78440647C>T	uc001ozl.3	-	22	3643	c.3180G>A	c.(3178-3180)AGG>AGA	p.R1060R		NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1060	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						GGTAGCTCAGCCTCATCTTGC	0.567													27	53					0	0	1	0	0		T	78440647	T	T	78440647	2	4	89	1	0	0	0	0	0	0	0	1	10856	738	26	2		2	ODZ4	11	78440647	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27602	78440647	56565869	4303	58134											
PCF11	51585	broad.mit.edu	37	chr11	82878277	82878277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaaagcagcaacagcatcGattaagtgtagatgccaatc	15	7	8	11	1	0	1	0	0	0	1	2	2	0	1	2	0	5	4	2	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:82878277G>A	uc001ozx.3	+	6	2273	c.1928G>A	c.(1927-1929)CGA>CAA	p.R643Q	PCF11_uc010rsu.1_Missense_Mutation_p.R643Q	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	643					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						CAACAGCATCGATTAAGTGTA	0.403													40	64					0	0	1	0	0		A	82878277	A	A	82878277	3	1	89	1	0	0	0	0	1	0	0	0	11592	1058	37	1	1950	1	PCF11	11	82878277	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4437630	82878277	52128239	4304	58135											
ANKRD42	338699	broad.mit.edu	37	chr11	82936079	82936079	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgagtatgaaggaaaaGacctagaggatcaggaaagt	16	6	15	4	0	1	4	1	2	0	2	1	7	1	7	1	4	0	2	1	4	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:82936079G>T	uc001ozz.1	+	6	1107	c.685G>T	c.(685-687)GAC>TAC	p.D229Y	ANKRD42_uc010rsv.1_Missense_Mutation_p.D257Y|ANKRD42_uc001paa.2_Missense_Mutation_p.D257Y|ANKRD42_uc001pab.1_Missense_Mutation_p.D256Y	NM_182603	NP_872409	Q8N9B4	ANR42_HUMAN	ankyrin repeat domain 42	229	ANK 6.									skin(1)	1						TGAAGGAAAAGACCTAGAGGA	0.303													18	53					3.32936e-07	3.48551e-07	1	1	0		T	82936079	T	T	82936079	3	4	89	1	0	0	0	0	1	0	0	0	670	942	33	5	707	5	ANKRD42	11	82936079	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	57802	82936079	52070437	4305	58136											
DLG2	1740	broad.mit.edu	37	chr11	84996399	84996399	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaatgtcacctcataaaaTtcttggatatctgtaaagaa	16	12	6	7	0	4	1	2	0	2	1	4	2	4	2	1	1	1	2	1	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:84996399T>G	uc001pak.2	-	4	363	c.51A>C	c.(49-51)GAA>GAC	p.E17D		NM_001142699	NP_001136171	Q15700	DLG2_HUMAN	chapsyn-110 isoform 1	Error:Variant_position_missing_in_Q15700_after_alignment						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				CCTCATAAAATTCTTGGATAT	0.328													19	67					0	0	1	0	0		G	84996399	G	G	84996399	3	3	89	1	0	0	0	0	1	0	0	0	4561	1490	52	5	3181	5	DLG2	11	84996399	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2060320	84996399	50010117	4306	58137											
TMEM126A	84233	broad.mit.edu	37	chr11	85365183	85365183	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatagcaaacagtctttttCgacgcatcttgaatgtgaca	12	13	7	9	2	3	2	1	2	2	0	4	3	3	2	0	0	2	2	0	0	3	4	rs121434508	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:85365183C>T	uc001par.2	+	3	259	c.163C>T	c.(163-165)CGA>TGA	p.R55*		NM_032273	NP_115649	Q9H061	T126A_HUMAN	transmembrane protein 126A	55						integral to membrane|mitochondrion				ovary(2)	2		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				CAGTCTTTTTCGACGCATCTT	0.408													59	135					0	0	1	0	0		T	85365183	T	T	85365183	4	4	89	1	0	0	0	0	0	1	0	0	16063	876	31	1	169	1	TMEM126A	11	85365183	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	368784	85365183	49641333	4307	58138											
TMEM135	65084	broad.mit.edu	37	chr11	86947710	86947710	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgcatcacagctgccatgTacatgttctttttcaggtat	8	17	7	9	0	3	0	2	0	1	0	3	0	3	0	1	1	4	5	1	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:86947710T>C	uc001pch.2	+	6	516	c.493T>C	c.(493-495)TAC>CAC	p.Y165H	TMEM135_uc010rtt.1_Missense_Mutation_p.Y26H|TMEM135_uc001pci.2_Missense_Mutation_p.Y143H	NM_022918	NP_075069	Q86UB9	TM135_HUMAN	transmembrane protein 135	165	Helical; (Potential).					integral to membrane					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				AGCTGCCATGTACATGTTCTT	0.333													19	43					0	0	1	0	0		C	86947710	C	C	86947710	3	2	89	1	0	0	0	0	1	0	0	0	16076	1638	57	3	515	3	TMEM135	11	86947710	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1582527	86947710	48058806	4308	58139											
GRM5	2915	broad.mit.edu	37	chr11	88300351	88300351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgtggtgaaggcgctgcGcacgtttctctctggtttgg	5	13	15	8	3	2	2	0	1	2	1	3	2	2	2	0	4	1	4	0	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:88300351G>A	uc001pcq.2	-	7	2700	c.2500C>T	c.(2500-2502)CGC>TGC	p.R834C	GRM5_uc009yvm.2_Missense_Mutation_p.R834C	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	834	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	AAGGCGCTGCGCACGTTTCTC	0.572													40	47					0	0	1	0	0		A	88300351	A	A	88300351	3	1	89	1	0	0	0	0	1	0	0	0	6816	1087	38	1	1150	1	GRM5	11	88300351	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1352641	88300351	46706165	4309	58140											
TYR	7299	broad.mit.edu	37	chr11	88911375	88911375	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgtggccttccgtcttttAtaataggacctgccagtgct	6	14	10	11	2	1	0	0	0	1	0	3	1	2	1	4	2	2	1	4	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:88911375A>G	uc001pcs.2	+	1	336	c.254A>G	c.(253-255)TAT>TGT	p.Y85C		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	85	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	TCCGTCTTTTATAATAGGACC	0.507									Oculocutaneous_Albinism				17	33					0	0	1	0	0		G	88911375	G	G	88911375	3	3	89	1	0	0	0	0	1	0	0	0	16839	449	16	3	256	3	TYR	11	88911375	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	611024	88911375	46095141	4310	58141											
FOLH1B	219595	broad.mit.edu	37	chr11	89405123	89405123	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtattgaccctcagagtggaGcagctgttgttcatgaaact	10	12	11	8	0	2	3	2	2	0	1	2	4	2	4	1	1	3	5	1	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:89405123G>T	uc001pda.2	+	5	776	c.250G>T	c.(250-252)GCA>TCA	p.A84S		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	84					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TCAGAGTGGAGCAGCTGTTGT	0.373													33	64					8.11767e-34	9.98797e-34	1	1	0		T	89405123	T	T	89405123	3	4	89	1	0	0	0	0	1	0	0	0	5994	971	34	5	260	5	FOLH1B	11	89405123	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	493748	89405123	45601393	4311	58142											
TRIM49	57093	broad.mit.edu	37	chr11	89537423	89537423	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctggcaagagaagccatcTtcttcaaatgaatgttggtt	11	14	9	7	0	4	2	1	1	3	1	4	3	4	2	1	2	1	3	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:89537423T>C	uc001pdb.2	-	3	544	c.215A>G	c.(214-216)AAG>AGG	p.K72R		NM_020358	NP_065091	P0CI25	TRI49_HUMAN	ring finger protein 18	72						intracellular	zinc ion binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				AGAAGCCATCTTCTTCAAATG	0.443													17	65					0	0	1	0	0		C	89537423	C	C	89537423	3	2	89	1	0	0	0	0	1	0	0	0	16550	1609	56	3	1167	3	TRIM49	11	89537423	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	132300	89537423	45469093	4312	58143											
FAT3	120114	broad.mit.edu	37	chr11	92086173	92086173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggagcgaatggagagatcGaatctgtttccattgtggct	10	12	13	6	2	1	1	0	0	1	1	3	6	2	3	1	3	1	2	1	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:92086173G>A	uc001pdj.3	+	1	912	c.895G>A	c.(895-897)GAA>AAA	p.E299K		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	299	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TGGAGAGATCGAATCTGTTTC	0.433										TCGA Ovarian(4;0.039)			27	39					0	0	1	0	0		A	92086173	A	A	92086173	3	1	89	1	0	0	0	0	1	0	0	0	5705	1059	37	1	897	1	FAT3	11	92086173	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2548750	92086173	42920343	4313	58144											
FAT3	120114	broad.mit.edu	37	chr11	92086393	92086393	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccccacaagagacactgTccccattagatttgaaaaag	16	7	6	12	0	0	3	0	1	0	2	1	4	1	3	4	0	1	0	4	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:92086393T>C	uc001pdj.3	+	1	1132	c.1115T>C	c.(1114-1116)GTC>GCC	p.V372A		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	372	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGAGACACTGTCCCCATTAGA	0.413										TCGA Ovarian(4;0.039)			17	18					0	0	1	0	0		C	92086393	C	C	92086393	3	2	89	1	0	0	0	0	1	0	0	0	5705	1667	58	3	1117	3	FAT3	11	92086393	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	220	92086393	42920123	4314	58145											
FAT3	120114	broad.mit.edu	37	chr11	92087946	92087946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggaatcgtttatgtagccGaccagttggaccgggaatcc	9	10	12	10	3	0	0	0	0	0	0	2	4	1	3	4	3	1	3	4	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:92087946G>A	uc001pdj.3	+	1	2685	c.2668G>A	c.(2668-2670)GAC>AAC	p.D890N		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	890	Cadherin 8.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TTATGTAGCCGACCAGTTGGA	0.433										TCGA Ovarian(4;0.039)			39	83					0	0	1	0	0		A	92087946	A	A	92087946	3	1	89	1	0	0	0	0	1	0	0	0	5705	1058	37	1	2670	1	FAT3	11	92087946	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1553	92087946	42918570	4315	58146											
FAT3	120114	broad.mit.edu	37	chr11	92507255	92507255	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagaagggtgttgggacaaTtgtcatcgcaaaacctttgg	12	10	13	6	1	1	1	1	0	0	1	2	3	1	2	1	3	1	2	1	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:92507255T>C	uc001pdj.3	+	6	4261	c.4244T>C	c.(4243-4245)ATT>ACT	p.I1415T		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1415	Cadherin 13.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GTTGGGACAATTGTCATCGCA	0.423										TCGA Ovarian(4;0.039)			22	27					0	0	1	0	0		C	92507255	C	C	92507255	3	2	89	1	0	0	0	0	1	0	0	0	5705	1493	52	3	4266	3	FAT3	11	92507255	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	419309	92507255	42499261	4316	58147											
FAT3	120114	broad.mit.edu	37	chr11	92532760	92532760	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagcccttttatacagcatCtgtcaatgaagacatcagaa	15	11	6	9	0	3	3	2	1	1	2	3	3	3	3	1	0	3	1	1	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:92532760C>A	uc001pdj.3	+	9	6598	c.6581C>A	c.(6580-6582)TCT>TAT	p.S2194Y		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2194	Cadherin 20.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TATACAGCATCTGTCAATGAA	0.438										TCGA Ovarian(4;0.039)			12	30					0.00185496	0.00188044	1	1	0		A	92532760	A	A	92532760	3	1	89	1	0	0	0	0	1	0	0	0	5705	913	32	5	6615	5	FAT3	11	92532760	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	25505	92532760	42473756	4317	58148											
FAT3	120114	broad.mit.edu	37	chr11	92577811	92577811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgagcaaggcttgtcactcGattcccacgcgctcatgacc	8	9	10	14	3	2	2	2	2	0	0	4	3	3	2	2	1	1	3	2	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:92577811G>A	uc001pdj.3	+	18	11295	c.11278G>A	c.(11278-11280)GAT>AAT	p.D3760N	FAT3_uc001pdi.3_Missense_Mutation_p.D200N	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3760	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CTTGTCACTCGATTCCCACGC	0.532										TCGA Ovarian(4;0.039)			8	10					0	0	1	0	0		A	92577811	A	A	92577811	3	1	89	1	0	0	0	0	1	0	0	0	5705	1058	37	1	11348	1	FAT3	11	92577811	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	45051	92577811	42428705	4318	58149											
HEPHL1	341208	broad.mit.edu	37	chr11	93800819	93800819	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagggcatcggactgatgtCgtcaacctgttcccagccac	9	8	11	13	2	1	2	1	1	0	1	4	3	2	3	3	2	2	2	3	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:93800819C>T	uc001pep.2	+	5	1123	c.966C>T	c.(964-966)GTC>GTT	p.V322V	uc001pen.1_RNA	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	322	Plastocyanin-like 2.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				GGACTGATGTCGTCAACCTGT	0.478													41	124					0	0	1	0	0		T	93800819	T	T	93800819	2	4	89	1	0	0	0	0	0	0	0	1	7071	871	31	1		1	HEPHL1	11	93800819	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1223008	93800819	41205697	4319	58150											
AMOTL1	154810	broad.mit.edu	37	chr11	94554964	94554964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaacttcagggttactacGacaatgccgacaagctccac	13	7	9	12	2	1	0	1	0	0	0	2	3	2	1	2	2	5	2	2	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:94554964G>A	uc001pfb.2	+	4	1560	c.1390G>A	c.(1390-1392)GAC>AAC	p.D464N	AMOTL1_uc001pfc.2_Missense_Mutation_p.D414N	NM_130847	NP_570899	Q8IY63	AMOL1_HUMAN	angiomotin like 1	464	Potential.					cytoplasm|tight junction	identical protein binding			ovary(1)|breast(1)	2		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				GGGTTACTACGACAATGCCGA	0.522													28	73					0	0	1	0	0		A	94554964	A	A	94554964	3	1	89	1	0	0	0	0	1	0	0	0	583	1058	37	1	1404	1	AMOTL1	11	94554964	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	754145	94554964	40451552	4320	58151											
FAM76B	143684	broad.mit.edu	37	chr11	95512015	95512015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttttctaaaatggtctggtCtctctgctgtaagagacgct	8	16	9	8	1	4	1	0	0	4	1	5	2	4	1	0	2	1	3	0	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:95512015C>T	uc001pfn.2	-	8	1111	c.799G>A	c.(799-801)GAC>AAC	p.D267N	FAM76B_uc001pfm.2_RNA	NM_144664	NP_653265	Q5HYJ3	FA76B_HUMAN	hypothetical protein LOC143684	267	Potential.										0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				ATGGTCTGGTCTCTCTGCTGT	0.358													17	41					0	0	1	0	0		T	95512015	T	T	95512015	3	4	89	1	0	0	0	0	1	0	0	0	5639	913	32	4	232	4	FAM76B	11	95512015	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	957051	95512015	39494501	4321	58152											
FAM76B	143684	broad.mit.edu	37	chr11	95512122	95512122	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgactgatttatagagctaCtaaaaagaaaaaagtaaaac	21	9	6	5	0	0	4	0	2	0	2	0	4	0	4	0	0	3	2	0	0	11	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:95512122C>T	uc001pfn.2	-	8	1005	c.693_splice	c.e8-1	p.S231_splice	FAM76B_uc001pfm.2_Splice_Site	NM_144664	NP_653265	Q5HYJ3	FA76B_HUMAN	hypothetical protein LOC143684												0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TATAGAGCTACTAAAAAGAAA	0.338													18	27					0	0	1	0	0		T	95512122	T	T	95512122	5	4	89	1	0	0	0	0	0	0	1	0	5639	579	20	4	339	4	FAM76B	11	95512122	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	107	95512122	39494394	4322	58153											
FAM76B	143684	broad.mit.edu	37	chr11	95516362	95516362	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggctcttcctttgttCtttcgtcttctgtaaaactc	5	18	5	13	1	4	0	0	0	4	0	8	0	6	0	2	1	1	3	2	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:95516362C>A	uc001pfn.2	-	5	742	c.430G>T	c.(430-432)GAA>TAA	p.E144*	FAM76B_uc001pfm.2_RNA	NM_144664	NP_653265	Q5HYJ3	FA76B_HUMAN	hypothetical protein LOC143684	144											0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TTCCTTTGTTCTTTCGTCTTC	0.313													15	32					4.14922e-12	4.57968e-12	1	1	0		A	95516362	A	A	95516362	4	1	89	1	0	0	0	0	0	1	0	0	5639	922	32	5	613	5	FAM76B	11	95516362	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4240	95516362	39490154	4323	58154											
PGR	5241	broad.mit.edu	37	chr11	100922293	100922293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcatcaatatgtaagtttCgaaaacctacaaaacaaatt	18	11	5	7	1	2	0	2	0	0	0	3	1	2	0	1	1	3	2	1	1	9	5	rs149186732	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:100922293C>T	uc001pgh.2	-	5	2962	c.2219G>A	c.(2218-2220)CGA>CAA	p.R740Q	PGR_uc001pgg.2_Missense_Mutation_p.R121Q|PGR_uc001pgi.2_Missense_Mutation_p.R638Q|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	740	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding	p.R740Q(1)		lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	ATGTAAGTTTCGAAAACCTAC	0.328													28	61					0	0	1	0	0		T	100922293	T	T	100922293	3	4	89	1	0	0	0	0	1	0	0	0	11824	884	31	1	598	1	PGR	11	100922293	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5405931	100922293	34084223	4324	58155											
KIAA1377	57562	broad.mit.edu	37	chr11	101832555	101832555	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggctacagagcatgaagaAatatatttaacacttaataa	19	10	7	5	0	0	3	0	1	0	2	0	4	0	3	0	1	3	2	0	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:101832555A>C	uc001pgm.2	+	6	1059	c.789A>C	c.(787-789)GAA>GAC	p.E263D	KIAA1377_uc001pgn.2_Missense_Mutation_p.E219D|KIAA1377_uc010run.1_Missense_Mutation_p.E64D|KIAA1377_uc009yxa.1_Missense_Mutation_p.E64D	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	263							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		AGCATGAAGAAATATATTTAA	0.368													15	47					0	0	1	0	0		C	101832555	C	C	101832555	3	2	89	1	0	0	0	0	1	0	0	0	8243	11	1	5	811	5	KIAA1377	11	101832555	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	910262	101832555	33173961	4325	58156											
KIAA1377	57562	broad.mit.edu	37	chr11	101863564	101863564	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaatactttacaaataatAccacttctggtaagtatttg	17	14	4	6	0	1	0	0	0	1	0	1	0	1	0	1	1	3	2	1	1	9	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:101863564A>G	uc001pgm.2	+	10	3570	c.3300A>G	c.(3298-3300)ATA>ATG	p.I1100M	KIAA1377_uc001pgn.2_Missense_Mutation_p.I1056M|KIAA1377_uc010run.1_Missense_Mutation_p.I901M	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	1100							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		TACAAATAATACCACTTCTGG	0.269													12	25					0	0	1	0	0		G	101863564	G	G	101863564	3	3	89	1	0	0	0	0	1	0	0	0	8243	381	14	3	3338	3	KIAA1377	11	101863564	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	31009	101863564	33142952	4326	58157											
MMP8	4317	broad.mit.edu	37	chr11	102589167	102589167	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagatggcctgaatgccatcGatgtcatcttgagggagtga	10	11	13	7	1	2	4	1	3	1	1	3	6	2	5	2	2	1	0	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:102589167G>A	uc001phe.2	-	5	861	c.762C>T	c.(760-762)ATC>ATT	p.I254I	MMP8_uc010rut.1_Silent_p.I189I|MMP8_uc010ruu.1_Silent_p.I231I	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	254					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		GAATGCCATCGATGTCATCTT	0.483													5	25					0	0	1	0	0		A	102589167	A	A	102589167	2	1	89	1	0	0	0	0	0	0	0	1	9686	1048	37	1		1	MMP8	11	102589167	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	725603	102589167	32417349	4327	58158											
MMP8	4317	broad.mit.edu	37	chr11	102592161	102592161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgttggtccatgtttcttcgGcatcaaaatgagcatctcct	8	15	8	10	1	3	1	1	1	2	0	6	1	4	1	2	2	1	4	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:102592161G>A	uc001phe.2	-	4	692	c.593C>T	c.(592-594)GCC>GTC	p.A198V	MMP8_uc010rut.1_Missense_Mutation_p.A133V|MMP8_uc010ruu.1_Missense_Mutation_p.A175V	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	198					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		TGTTTCTTCGGCATCAAAATG	0.408													11	54					0	0	1	0	0		A	102592161	A	A	102592161	3	1	89	1	0	0	0	0	1	0	0	0	9686	1203	42	2	838	2	MMP8	11	102592161	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2994	102592161	32414355	4328	58159											
MMP10	4319	broad.mit.edu	37	chr11	102650413	102650413	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatttttttaacaatgagatTactgtcctttcttctaaact	11	19	4	7	0	2	1	0	1	2	1	3	3	3	1	1	0	3	0	1	0	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:102650413T>C	uc001phg.1	-	2	191	c.169A>G	c.(169-171)AAT>GAT	p.N57D		NM_002425	NP_002416	P09238	MMP10_HUMAN	matrix metalloproteinase 10 preproprotein	57					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			kidney(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_epithelial(12;0.00961)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0303)|Lung(13;0.0828)|all cancers(10;0.116)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0145)		ACAATGAGATTACTGTCCTTT	0.403													19	43					0	0	1	0	0		C	102650413	C	C	102650413	3	2	89	1	0	0	0	0	1	0	0	0	9667	1754	61	3	1297	3	MMP10	11	102650413	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	58252	102650413	32356103	4329	58160											
DYNC2H1	79659	broad.mit.edu	37	chr11	102986023	102986023	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatttgaaacaattgcaaGagtatgtgattcataaatgg	16	14	8	3	0	1	3	1	2	0	1	1	3	1	3	0	1	2	2	0	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:102986023G>T	uc001pho.2	+	4	764	c.620G>T	c.(619-621)AGA>ATA	p.R207I	DYNC2H1_uc001phn.1_Missense_Mutation_p.R207I|DYNC2H1_uc009yxe.1_Missense_Mutation_p.R207I	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	207	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		ACAATTGCAAGAGTATGTGAT	0.308													5	3					0.014758	0.0148705	1	1	0		T	102986023	T	T	102986023	3	4	89	1	0	0	0	0	1	0	0	0	4852	956	33	5	634	5	DYNC2H1	11	102986023	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	335610	102986023	32020493	4330	58161											
DYNC2H1	79659	broad.mit.edu	37	chr11	103070011	103070011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagacattttacttttccacGaagtcttggagtatatgtct	10	17	7	7	1	2	1	0	0	2	1	3	3	3	2	1	1	1	1	1	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:103070011G>A	uc001pho.2	+	49	8038	c.7894G>A	c.(7894-7896)GAA>AAA	p.E2632K	DYNC2H1_uc001phn.1_Missense_Mutation_p.E2632K|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2632	AAA 4 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		ACTTTTCCACGAAGTCTTGGA	0.358													13	16					0	0	1	0	0		A	103070011	A	A	103070011	3	1	89	1	0	0	0	0	1	0	0	0	4852	1059	37	1	8088	1	DYNC2H1	11	103070011	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	83988	103070011	31936505	4331	58162											
DYNC2H1	79659	broad.mit.edu	37	chr11	103086472	103086472	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtatctaaactaaatgAagctaaagctcttgtggatg	13	13	10	5	0	2	1	0	1	2	0	2	2	2	2	0	2	3	3	0	2	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:103086472A>C	uc001pho.2	+	55	8861	c.8717A>C	c.(8716-8718)GAA>GCA	p.E2906A	DYNC2H1_uc001phn.1_Missense_Mutation_p.E2906A|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2906	Potential.|Stalk (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AAACTAAATGAAGCTAAAGCT	0.343													10	11					0	0	1	0	0		C	103086472	C	C	103086472	3	2	89	1	0	0	0	0	1	0	0	0	4852	246	9	5	8935	5	DYNC2H1	11	103086472	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	16461	103086472	31920044	4332	58163											
CASP4	837	broad.mit.edu	37	chr11	104817810	104817810	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actagaaaagagacacttacCttccgaaatacttcctctag	15	10	5	11	1	1	2	0	0	1	2	3	4	3	2	3	0	2	0	3	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:104817810C>T	uc001pid.1	-	7	1108	c.1035G>A	c.(1033-1035)AAG>AAA	p.K345K	CASP4_uc001pib.1_Silent_p.K289K|CASP4_uc009yxg.1_Silent_p.K254K	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor	345					apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		AGACACTTACCTTCCGAAATA	0.388													32	103					0	0	1	0	0		T	104817810	T	T	104817810	2	4	89	1	0	0	0	0	0	0	0	1	2676	695	24	4		4	CASP4	11	104817810	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1731338	104817810	30188706	4333	58164											
CARD18	59082	broad.mit.edu	37	chr11	105009778	105009778	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacccactgaatggataaaaAttcttctctttttacgcaag	13	13	5	10	1	2	1	0	1	2	0	3	2	2	2	1	1	1	1	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:105009778A>C	uc001pis.2	-	1	35	c.29T>G	c.(28-30)ATT>AGT	p.I10S		NM_021571	NP_067546	P57730	CAR18_HUMAN	ICEBERG caspase-1 inhibitor	12	CARD.				inflammatory response|regulation of apoptosis	intracellular	cysteine-type endopeptidase inhibitor activity			ovary(1)|central_nervous_system(1)	2						ATGGATAAAAATTCTTCTCTT	0.393													20	61					0	0	1	0	0		C	105009778	C	C	105009778	3	2	89	1	0	0	0	0	1	0	0	0	2652	101	4	5	241	5	CARD18	11	105009778	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	191968	105009778	29996738	4334	58165											
GRIA4	2893	broad.mit.edu	37	chr11	105732782	105732782	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaagctattatggaaaaaGcaggacaaaatggttggcat	16	9	10	6	0	0	0	0	0	0	0	1	2	1	2	1	4	2	4	1	4	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:105732782G>A	uc001pix.2	+	5	966	c.520G>A	c.(520-522)GCA>ACA	p.A174T	GRIA4_uc001piu.1_Missense_Mutation_p.A174T|GRIA4_uc001piw.2_Missense_Mutation_p.A174T|GRIA4_uc001piv.2_Missense_Mutation_p.A174T|GRIA4_uc009yxk.1_Missense_Mutation_p.A174T	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	174	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	TATGGAAAAAGCAGGACAAAA	0.368													31	60					0	0	1	0	0		A	105732782	A	A	105732782	3	1	89	1	0	0	0	0	1	0	0	0	6786	971	34	2	534	2	GRIA4	11	105732782	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	723004	105732782	29273734	4335	58166											
GUCY1A2	2977	broad.mit.edu	37	chr11	106810861	106810861	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgaaagcatatattaaaGaactcttcaccaaatctttt	16	14	3	8	0	4	2	2	1	2	1	4	2	4	2	1	0	2	1	1	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:106810861G>T	uc001pjg.1	-	4	921	c.531C>A	c.(529-531)TTC>TTA	p.F177L	GUCY1A2_uc010rvo.1_Missense_Mutation_p.F177L|GUCY1A2_uc009yxn.1_Missense_Mutation_p.F177L	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	177					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		ATATATTAAAGAACTCTTCAC	0.338													30	73					2.65835e-16	3.05131e-16	1	1	0		T	106810861	T	T	106810861	3	4	89	1	0	0	0	0	1	0	0	0	6909	933	33	5	1687	5	GUCY1A2	11	106810861	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1078079	106810861	28195655	4336	58167											
GUCY1A2	2977	broad.mit.edu	37	chr11	106888540	106888540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggttgacccgcctccggCgctgcaccctcctggccccg	3	6	11	21	4	0	1	0	1	0	0	2	1	2	1	8	3	1	3	8	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:106888540C>T	uc001pjg.1	-	1	632	c.242G>A	c.(241-243)CGC>CAC	p.R81H	GUCY1A2_uc010rvo.1_Missense_Mutation_p.R81H|GUCY1A2_uc009yxn.1_Missense_Mutation_p.R81H	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	81					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CCGCCTCCGGCGCTGCACCCT	0.493													5	6					0	0	1	0	0		T	106888540	T	T	106888540	3	4	89	1	0	0	0	0	1	0	0	0	6909	768	27	1	1988	1	GUCY1A2	11	106888540	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	77679	106888540	28117976	4337	58168											
CUL5	8065	broad.mit.edu	37	chr11	107969212	107969212	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagaaaggatgagagaaGaagagaatgaaggaatagtt	20	6	13	2	0	0	6	0	2	0	4	0	10	0	8	0	2	1	1	0	2	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:107969212G>T	uc001pjv.2	+	18	2771	c.2104G>T	c.(2104-2106)GAA>TAA	p.E702*	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	702					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		GATGAGAGAAGAAGAGAATGA	0.313													37	59					3.78316e-11	4.13718e-11	1	1	0		T	107969212	T	T	107969212	4	4	89	1	0	0	0	0	0	1	0	0	4062	943	33	5	2174	5	CUL5	11	107969212	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1080672	107969212	27037304	4338	58169											
ATM	472	broad.mit.edu	37	chr11	108114687	108114687	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttttttaagaattgttCtctgtgtacttcaggctcta	7	22	6	6	0	3	1	1	0	2	1	4	1	3	1	0	1	1	3	0	1	4	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:108114687C>A	uc001pkb.1	+	6	889	c.504C>A	c.(502-504)TTC>TTA	p.F168L	ATM_uc009yxr.1_Missense_Mutation_p.F168L	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	168					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding	p.F168_V170>L(1)		haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		aaGAATTGTTCTCTGTGTACT	0.274			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			3	7					0.115264	0.115603	1	1	0		A	108114687	A	A	108114687	3	1	89	1	0	0	0	0	1	0	0	0	1110	912	32	5	522	5	ATM	11	108114687	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	145475	108114687	26891829	4339	58170											
ATM	472	broad.mit.edu	37	chr11	108138042	108138042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagtgttagtgatgcaaacGaacctggagagagccaaagt	14	8	13	6	1	0	2	0	1	0	1	0	5	0	3	2	1	4	3	2	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:108138042G>A	uc001pkb.1	+	17	2996	c.2611G>A	c.(2611-2613)GAA>AAA	p.E871K	ATM_uc009yxr.1_Missense_Mutation_p.E871K|ATM_uc009yxs.1_5'Flank	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	871					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TGATGCAAACGAACCTGGAGA	0.363			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			22	37					0	0	1	0	0		A	108138042	A	A	108138042	3	1	89	1	0	0	0	0	1	0	0	0	1110	1059	37	1	2673	1	ATM	11	108138042	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23355	108138042	26868474	4340	58171											
ATM	472	broad.mit.edu	37	chr11	108203492	108203492	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgttttttattaataggatCgaacagaggctgcaaataga	14	14	9	4	1	0	2	0	0	0	2	1	4	0	3	0	2	2	3	0	2	6	7	rs138941496	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:108203492C>T	uc001pkb.1	+	53	8177	c.7792C>T	c.(7792-7794)CGA>TGA	p.R2598*	ATM_uc009yxr.1_Nonsense_Mutation_p.R2598*|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Nonsense_Mutation_p.R1250*|ATM_uc001pkg.1_Nonsense_Mutation_p.R955*	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2598					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TTAATAGGATCGAACAGAGGC	0.323			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			9	26					0	0	1	0	0		T	108203492	T	T	108203492	4	4	89	1	0	0	0	0	0	1	0	0	1110	876	31	1	7998	1	ATM	11	108203492	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	65450	108203492	26803024	4341	58172											
ATM	472	broad.mit.edu	37	chr11	108213967	108213967	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtggttcccctctctcagCgaagtggtgttcttgaatgg	6	13	13	9	1	3	1	1	1	2	0	5	2	4	1	2	4	1	2	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:108213967C>T	uc001pkb.1	+	57	8672	c.8287C>T	c.(8287-8289)CGA>TGA	p.R2763*	ATM_uc009yxr.1_Nonsense_Mutation_p.R2763*|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Nonsense_Mutation_p.R1415*	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2763	PI3K/PI4K.				cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		CCTCTCTCAGCGAAGTGGTGT	0.393			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			41	147					0	0	1	0	0		T	108213967	T	T	108213967	4	4	89	1	0	0	0	0	0	1	0	0	1110	760	27	1	8509	1	ATM	11	108213967	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10475	108213967	26792549	4342	58173											
ATM	472	broad.mit.edu	37	chr11	108216486	108216486	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggaggtgcaaaaaaagtCttttgaagagaaatatgaag	20	8	11	2	0	1	3	0	2	1	1	1	5	1	4	0	2	1	1	0	2	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:108216486C>A	uc001pkb.1	+	58	8820	c.8435C>A	c.(8434-8436)TCT>TAT	p.S2812Y	ATM_uc009yxr.1_Missense_Mutation_p.S2812Y|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.S1464Y	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2812	PI3K/PI4K.				cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		CAAAAAAAGTCTTTTGAAGAG	0.259			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			57	88					7.89702e-26	9.53743e-26	1	1	0		A	108216486	A	A	108216486	3	1	89	1	0	0	0	0	1	0	0	0	1110	913	32	5	8661	5	ATM	11	108216486	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2519	108216486	26790030	4343	58174											
ATM	472	broad.mit.edu	37	chr11	108216533	108216533	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgtttgccaaaattttCaaccagttttccgttacttc	9	17	6	9	1	1	0	1	0	0	0	3	1	2	1	3	1	3	3	3	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:108216533C>A	uc001pkb.1	+	58	8867	c.8482C>A	c.(8482-8484)CAA>AAA	p.Q2828K	ATM_uc009yxr.1_Missense_Mutation_p.Q2828K|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.Q1480K	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2828	PI3K/PI4K.				cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		CCAAAATTTTCAACCAGTTTT	0.328			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			54	151					5.5144e-22	6.56027e-22	1	1	0		A	108216533	A	A	108216533	3	1	89	1	0	0	0	0	1	0	0	0	1110	827	29	5	8708	5	ATM	11	108216533	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	47	108216533	26789983	4344	58175											
DDX10	1662	broad.mit.edu	37	chr11	108593962	108593962	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggataatgatactggtaatGaagaacaggaagaagaagaa	21	6	12	2	0	0	6	0	2	0	4	0	8	0	8	0	3	2	1	0	3	9	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:108593962G>T	uc001pkm.2	+	13	1803	c.1738G>T	c.(1738-1740)GAA>TAA	p.E580*	DDX10_uc001pkl.1_Nonsense_Mutation_p.E580*	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	580							ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		TACTGGTAATgaagaacagga	0.348			T	NUP98	AML*								16	33					1.15088e-07	1.20949e-07	1	1	0		T	108593962	T	T	108593962	4	4	89	1	0	0	0	0	0	1	0	0	4345	1291	45	5	1788	5	DDX10	11	108593962	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	377429	108593962	26412554	4345	58176											
ZC3H12C	85463	broad.mit.edu	37	chr11	110007958	110007958	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatcaatgatattttgggaGaacttgtcaaacttggaaat	15	14	8	4	0	2	2	2	1	0	1	2	4	2	3	0	2	2	0	0	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:110007958G>T	uc009yxw.2	+	2	643	c.592G>T	c.(592-594)GAA>TAA	p.E198*	ZC3H12C_uc010rwc.1_Nonsense_Mutation_p.E199*|ZC3H12C_uc010rwd.1_Nonsense_Mutation_p.E199*|ZC3H12C_uc001pkr.3_Nonsense_Mutation_p.E167*|ZC3H12C_uc001pkq.2_Nonsense_Mutation_p.E167*	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	198							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		TATTTTGGGAGAACTTGTCAA	0.368													12	38					3.07112e-06	3.18826e-06	1	1	0		T	110007958	T	T	110007958	4	4	89	1	0	0	0	0	0	1	0	0	17588	943	33	5	598	5	ZC3H12C	11	110007958	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1413996	110007958	24998558	4346	58177											
ZC3H12C	85463	broad.mit.edu	37	chr11	110035304	110035304	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatccaagcataaggacacaAgtctaccaagacctagaaga	18	5	8	10	0	1	3	0	0	1	3	2	5	2	4	3	1	2	1	3	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:110035304A>C	uc009yxw.2	+	6	1545	c.1494A>C	c.(1492-1494)CAA>CAC	p.Q498H	ZC3H12C_uc010rwc.1_Missense_Mutation_p.Q499H|ZC3H12C_uc010rwd.1_Missense_Mutation_p.Q499H|ZC3H12C_uc001pkr.3_Missense_Mutation_p.Q467H	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	498							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		TAAGGACACAAGTCTACCAAG	0.443													31	57					0	0	1	0	0		C	110035304	C	C	110035304	3	2	89	1	0	0	0	0	1	0	0	0	17588	69	3	5	1516	5	ZC3H12C	11	110035304	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	27346	110035304	24971212	4347	58178											
FDX1	2230	broad.mit.edu	37	chr11	110333089	110333089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccatacagatcacggttggGctgccaaatctgtttgacaa	11	11	9	10	1	2	2	1	1	1	1	3	2	3	2	2	2	2	3	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:110333089G>A	uc001pkx.2	+	4	703	c.452G>A	c.(451-453)GGC>GAC	p.G151D		NM_004109	NP_004100	P10109	ADX_HUMAN	ferredoxin 1 precursor	151	2Fe-2S ferredoxin-type.				electron transport chain|transport	mitochondrial matrix	2 iron, 2 sulfur cluster binding|electron carrier activity|iron ion binding				0		all_cancers(61;1.59e-12)|all_epithelial(67;8.38e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.01e-06)|BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|all cancers(92;5.27e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0384)|Colorectal(284;0.228)	Mitotane(DB00648)	TCACGGTTGGGCTGCCAAATC	0.408													19	29					0	0	1	0	0		A	110333089	A	A	110333089	3	1	89	1	0	0	0	0	1	0	0	0	5818	1203	42	2	466	2	FDX1	11	110333089	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	297785	110333089	24673427	4348	58179											
ARHGAP20	57569	broad.mit.edu	37	chr11	110451042	110451042	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctctccatgcaagagAccagcttcacagctggtttt	8	12	7	14	0	2	1	1	0	1	1	5	2	4	1	4	1	3	4	4	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:110451042A>C	uc001pkz.1	-	16	2913	c.2628T>G	c.(2626-2628)GGT>GGG	p.G876G	ARHGAP20_uc001pky.1_Silent_p.G853G|ARHGAP20_uc009yyb.1_Silent_p.G840G|ARHGAP20_uc001pla.1_Silent_p.G840G|ARHGAP20_uc001plb.2_Silent_p.G419G	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	876					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		CATGCAAGAGACCAGCTTCAC	0.468													59	106					0	0	1	0	0		C	110451042	C	C	110451042	2	2	89	1	0	0	0	0	0	0	0	1	870	262	10	5		5	ARHGAP20	11	110451042	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	117953	110451042	24555474	4349	58180											
C11orf88	399949	broad.mit.edu	37	chr11	111404477	111404477	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttctttaaacaggctaaaAcaagagaagagattctccaa	17	10	6	8	0	2	2	0	0	2	2	3	4	2	2	1	1	2	1	1	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:111404477A>G	uc001pln.3	+	4	346	c.346A>G	c.(346-348)ACA>GCA	p.T116A	C11orf88_uc009yyd.2_Missense_Mutation_p.T143A|C11orf88_uc001plo.1_Missense_Mutation_p.T143A	NM_001100388	NP_001093858	Q6PI97	CK088_HUMAN	hypothetical protein LOC399949 isoform 2	116											0						ACAGGCTAAAACAAGAGAAGA	0.363													23	55					0	0	1	0	0		G	111404477	G	G	111404477	3	3	89	1	0	0	0	0	1	0	0	0	1673	43	2	3	445	3	C11orf88	11	111404477	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	953435	111404477	23602039	4350	58181											
PPP2R1B	5519	broad.mit.edu	37	chr11	111624289	111624289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgacatgttgattggtatCggatactaattcctaaaata	13	16	7	5	1	0	2	0	2	0	0	2	3	1	3	1	2	1	2	1	2	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:111624289C>T	uc001plx.1	-	9	1126	c.1042G>A	c.(1042-1044)GAT>AAT	p.D348N	PPP2R1B_uc001plw.1_Missense_Mutation_p.D348N|PPP2R1B_uc010rwi.1_Missense_Mutation_p.D284N|PPP2R1B_uc010rwj.1_Missense_Mutation_p.D187N|PPP2R1B_uc010rwk.1_Intron|PPP2R1B_uc010rwl.1_Missense_Mutation_p.D221N	NM_002716	NP_002707	P30154	2AAB_HUMAN	beta isoform of regulatory subunit A, protein	348	HEAT 9.						protein binding				0		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|Epithelial(105;2.36e-06)|all cancers(92;3.78e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0761)		TGATTGGTATCGGATACTAAT	0.294													13	24					0	0	1	0	0		T	111624289	T	T	111624289	3	4	89	1	0	0	0	0	1	0	0	0	12405	884	31	1	1014	1	PPP2R1B	11	111624289	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	219812	111624289	23382227	4351	58182											
FDXACB1	91893	broad.mit.edu	37	chr11	111746444	111746444	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagaggaagtctggtacttcGatgacatcctgaacatgcac	12	9	11	9	1	1	3	0	2	1	1	3	6	2	4	1	2	3	2	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:111746444G>A	uc001pmc.3	-	5	1374	c.1077C>T	c.(1075-1077)ATC>ATT	p.I359I	ALG9_uc010rwo.1_Intron|FDXACB1_uc009yyi.2_Silent_p.I210I	NM_138378	NP_612387	Q9BRP7	FDXA1_HUMAN	ferredoxin-fold anticodon binding domain	359					phenylalanyl-tRNA aminoacylation|tRNA processing		ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0						CTGGTACTTCGATGACATCCT	0.473													63	95					0	0	1	0	0		A	111746444	A	A	111746444	2	1	89	1	0	0	0	0	0	0	0	1	5820	1048	37	1		1	FDXACB1	11	111746444	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	122155	111746444	23260072	4352	58183											
BCO2	83875	broad.mit.edu	37	chr11	112064319	112064319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccaacagtgctaaaaaccGaattgtgatctcagaatttg	14	10	9	8	1	1	2	1	1	1	1	2	3	1	2	2	1	3	1	2	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:112064319G>A	uc001pnf.2	+	3	533	c.416G>A	c.(415-417)CGA>CAA	p.R139Q	BCO2_uc001pne.1_5'UTR|BCO2_uc001png.2_Missense_Mutation_p.R139Q|BCO2_uc001pnh.2_Missense_Mutation_p.R105Q|BCO2_uc010rwt.1_Missense_Mutation_p.R34Q|BCO2_uc009yyn.2_Missense_Mutation_p.R105Q|BCO2_uc001pni.2_Missense_Mutation_p.R105Q	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	139					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GCTAAAAACCGAATTGTGATC	0.463													17	33					0	0	1	0	0		A	112064319	A	A	112064319	3	1	89	1	0	0	0	0	1	0	0	0	1386	1058	37	1	426	1	BCO2	11	112064319	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	317875	112064319	22942197	4353	58184											
TTC12	54970	broad.mit.edu	37	chr11	113233147	113233147	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggtgttctgagccggAccctttcttcctctctgaaa	5	14	9	13	1	3	2	0	2	3	0	5	3	4	3	3	2	2	2	3	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:113233147A>G	uc001pnu.2	+	19	1744	c.1639A>G	c.(1639-1641)ACC>GCC	p.T547A	TTC12_uc001pnv.2_Missense_Mutation_p.T553A|TTC12_uc001pnw.2_RNA|TTC12_uc001pnx.2_Missense_Mutation_p.T397A	NM_017868	NP_060338	Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12	547							binding			pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4		all_cancers(61;2.73e-16)|all_epithelial(67;8.64e-10)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.183)|Renal(330;0.187)		BRCA - Breast invasive adenocarcinoma(274;5.3e-06)|Epithelial(105;8.37e-05)|all cancers(92;0.000694)		TCTGAGCCGGACCCTTTCTTC	0.423													26	72					0	0	1	0	0		G	113233147	G	G	113233147	3	3	89	1	0	0	0	0	1	0	0	0	16705	275	10	3	1709	3	TTC12	11	113233147	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1168828	113233147	21773369	4354	58185											
ZW10	9183	broad.mit.edu	37	chr11	113614686	113614686	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtggtactgagtattggatActttctgtacttccagtttg	7	17	10	7	1	1	1	0	1	1	0	2	2	2	2	1	2	3	4	1	2	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:113614686A>C	uc001poe.2	-	10	1386	c.1349T>G	c.(1348-1350)GTA>GGA	p.V450G	ZW10_uc009yyv.2_RNA	NM_004724	NP_004715	O43264	ZW10_HUMAN	centromere/kinetochore protein zw10	450					cell division|ER to Golgi vesicle-mediated transport|establishment of mitotic spindle orientation|meiosis|mitotic cell cycle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|protein complex assembly|protein localization to kinetochore|protein transport|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|endoplasmic reticulum membrane|kinetochore microtubule|nucleus|spindle pole	centromeric DNA binding|protein binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.84e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000237)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.94e-06)|Epithelial(105;0.000103)|all cancers(92;0.000786)		AGTATTGGATACTTTCTGTAC	0.388													29	62					0	0	1	0	0		C	113614686	C	C	113614686	3	2	89	1	0	0	0	0	1	0	0	0	18272	391	14	5	1018	5	ZW10	11	113614686	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	381539	113614686	21391830	4355	58186											
CLDN25	644672	broad.mit.edu	37	chr11	113650908	113650908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttggaggcatccgcttcaGccactaccctccttccagtc	6	11	7	17	1	1	0	1	0	0	0	5	1	4	1	5	2	2	2	5	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:113650908G>A	uc009yyw.1	+	1	391	c.391G>A	c.(391-393)GCC>ACC	p.A131T		NM_001101389	NP_001094859	C9JDP6	CLD25_HUMAN	claudin 25	131	Helical; (Potential).					integral to membrane|tight junction	structural molecule activity				0						ATCCGCTTCAGCCACTACCCT	0.552													40	54					0	0	1	0	0		A	113650908	A	A	113650908	3	1	89	1	0	0	0	0	1	0	0	0	3488	971	34	2	393	2	CLDN25	11	113650908	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	36222	113650908	21355608	4356	58187											
USP28	57646	broad.mit.edu	37	chr11	113670038	113670038	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctacataggtcatagggaGaattgggtcgaattgttgga	11	11	15	4	1	1	1	1	0	0	1	2	4	1	2	0	5	1	2	0	5	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:113670038G>T	uc001poh.2	-	25	3191	c.3158C>A	c.(3157-3159)TCT>TAT	p.S1053Y	USP28_uc001pog.2_Missense_Mutation_p.S729Y|USP28_uc010rwy.1_Missense_Mutation_p.S896Y|USP28_uc001poi.2_Missense_Mutation_p.S376Y	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	1053					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		GTCATAGGGAGAATTGGGTCG	0.463													38	71					4.65686e-17	5.37613e-17	1	1	0		T	113670038	T	T	113670038	3	4	89	1	0	0	0	0	1	0	0	0	17084	942	33	5	79	5	USP28	11	113670038	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	19130	113670038	21336478	4357	58188											
HTR3A	3359	broad.mit.edu	37	chr11	113846067	113846067	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgctgctgtgggtccagcAggcgctgctcgccttgctcc	3	11	13	14	2	0	0	0	0	0	0	3	0	2	0	3	2	5	6	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:113846067A>C	uc010rxb.1	+	1	271	c.38A>C	c.(37-39)CAG>CCG	p.Q13P	HTR3A_uc010rxa.1_Missense_Mutation_p.Q13P|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_5'Flank	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	7					digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	TGGGTCCAGCAGGCGCTGCTC	0.627													8	24					0	0	1	0	0		C	113846067	C	C	113846067	3	2	89	1	0	0	0	0	1	0	0	0	7460	188	7	5	40	5	HTR3A	11	113846067	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	176029	113846067	21160449	4358	58189											
REXO2	25996	broad.mit.edu	37	chr11	114320615	114320615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagagcttcagttttaccGaaataacatcttcaagaaaa	18	10	5	8	1	3	2	2	0	1	2	3	3	3	2	1	0	3	2	1	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:114320615G>A	uc001poy.2	+	7	775	c.632G>A	c.(631-633)CGA>CAA	p.R211Q	REXO2_uc001poz.2_3'UTR	NM_015523	NP_056338	Q9Y3B8	ORN_HUMAN	small fragment nuclease precursor	211					nucleotide metabolic process	mitochondrion|nucleus	3'-5' exonuclease activity|nucleic acid binding				0		all_cancers(61;5.06e-12)|all_epithelial(67;5.3e-06)|all_hematologic(158;7.68e-05)|Acute lymphoblastic leukemia(157;0.000966)|Melanoma(852;0.00153)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.0818)|Prostate(24;0.104)		BRCA - Breast invasive adenocarcinoma(274;2.65e-06)|Epithelial(105;6.09e-05)|all cancers(92;0.000494)		CAGTTTTACCGAAATAACATC	0.358													48	72					0	0	1	0	0		A	114320615	A	A	114320615	3	1	89	1	0	0	0	0	1	0	0	0	13267	1058	37	1	658	1	REXO2	11	114320615	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	474548	114320615	20685901	4359	58190											
CADM1	23705	broad.mit.edu	37	chr11	115085387	115085387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctatgtttgaagcttcacagCggtatgtaccattatctgtt	9	16	8	8	1	2	1	1	1	1	0	2	1	2	1	1	1	3	5	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:115085387C>T	uc001ppi.3	-	7	1064	c.935G>A	c.(934-936)CGC>CAC	p.R312H	CADM1_uc001ppf.3_Missense_Mutation_p.R312H|CADM1_uc001ppk.3_Missense_Mutation_p.R312H|CADM1_uc001ppj.3_Missense_Mutation_p.R312H|CADM1_uc001ppl.2_Missense_Mutation_p.R312H|CADM1_uc001pph.3_Missense_Mutation_p.R64H	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	312	Ig-like C2-type 2.|Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		AGCTTCACAGCGGTATGTACC	0.433													37	69					0	0	1	0	0		T	115085387	T	T	115085387	3	4	89	1	0	0	0	0	1	0	0	0	2569	768	27	1	409	1	CADM1	11	115085387	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	764772	115085387	19921129	4360	58191											
ZNF259	8882	broad.mit.edu	37	chr11	116653694	116653694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaacttgcccccgaggactgCcattcccagttcaaattcta	10	10	7	14	1	2	0	1	0	1	0	3	3	3	1	4	1	3	1	4	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:116653694C>T	uc001ppp.2	-	11	1066	c.1033G>A	c.(1033-1035)GCA>ACA	p.A345T	ZNF259_uc009yzd.2_Missense_Mutation_p.A345T|ZNF259_uc001ppq.2_Missense_Mutation_p.A275T	NM_003904	NP_003895	O75312	ZPR1_HUMAN	zinc finger protein 259	345					cell proliferation|signal transduction	cytoplasm|nucleolus					0	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.61e-06)|all cancers(92;0.000139)|OV - Ovarian serous cystadenocarcinoma(223;0.153)		CCGAGGACTGCCATTCCCAGT	0.473													24	57					0	0	1	0	0		T	116653694	T	T	116653694	3	4	89	1	0	0	0	0	1	0	0	0	17826	739	26	2	362	2	ZNF259	11	116653694	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1568307	116653694	18352822	4361	58192											
APOA5	116519	broad.mit.edu	37	chr11	116661297	116661297	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcggggctggcgggggcGtgcggagccacactgcggtg	3	4	22	12	7	0	0	0	0	0	0	0	1	0	1	1	7	3	1	1	7	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:116661297G>A	uc001ppr.2	-	3	656	c.648C>T	c.(646-648)CAC>CAT	p.H216H	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Silent_p.H216H|APOA5_uc009yzf.2_Silent_p.H216H|APOA5_uc009yzg.2_Silent_p.H242H	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	216					acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		TGGCGGGGGCGTGCGGAGCCA	0.697													6	18					0	0	1	0	0		A	116661297	A	A	116661297	2	1	89	1	0	0	0	0	0	0	0	1	784	1136	40	1		1	APOA5	11	116661297	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7603	116661297	18345219	4362	58193											
APOA4	337	broad.mit.edu	37	chr11	116692535	116692535	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcggtggcaaagggcaccAgcttcttctgcaggtcacct	7	9	12	13	1	3	0	1	0	2	0	4	0	3	0	2	4	2	5	2	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:116692535A>C	uc001pps.1	-	3	343	c.239T>G	c.(238-240)CTG>CGG	p.L80R		NM_000482	NP_000473			apolipoprotein A-IV precursor												0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		aaagggcaccagcttcttctg	0.199													35	71					0	0	1	0	0		C	116692535	C	C	116692535	3	2	89	1	0	0	0	0	1	0	0	0	783	188	7	5	955	5	APOA4	11	116692535	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	31238	116692535	18313981	4363	58194											
SIDT2	51092	broad.mit.edu	37	chr11	117066741	117066741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttgctgacactggatgacGacctggatactgtgcagcgg	8	10	14	9	2	0	2	0	2	0	0	0	5	0	4	1	3	4	3	1	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:117066741G>A	uc001pqh.1	+	26	2499	c.2458G>A	c.(2458-2460)GAC>AAC	p.D820N	SIDT2_uc001pqi.1_Missense_Mutation_p.D817N|SIDT2_uc001pqj.1_Missense_Mutation_p.D132N|uc001pqk.1_RNA	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	820	Extracellular (Potential).					integral to membrane|lysosomal membrane					0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		ACTGGATGACGACCTGGATAC	0.602													34	95					0	0	1	0	0		A	117066741	A	A	117066741	3	1	89	1	0	0	0	0	1	0	0	0	14328	1058	37	1	2560	1	SIDT2	11	117066741	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	374206	117066741	17939775	4364	58195											
CEP164	22897	broad.mit.edu	37	chr11	117278689	117278689	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccatgcggaaaggccacAacctgctgaagaagaaagag	15	3	13	10	2	0	4	0	1	0	3	0	5	0	5	3	3	3	1	3	3	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:117278689A>C	uc001prc.2	+	28	3697	c.3550A>C	c.(3550-3552)AAC>CAC	p.N1184H	CEP164_uc001prb.2_Missense_Mutation_p.N1187H|CEP164_uc001prf.2_Intron|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Missense_Mutation_p.N617H	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	1184	Potential.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		GAAAGGCCACAACCTGCTGAA	0.502													7	13					0	0	1	0	0		C	117278689	C	C	117278689	3	2	89	1	0	0	0	0	1	0	0	0	3252	130	5	5	3652	5	CEP164	11	117278689	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	211948	117278689	17727827	4365	58196											
DSCAML1	57453	broad.mit.edu	37	chr11	117307845	117307845	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttgcgactcactgccatcGtagtccagggtggcgaactg	7	9	12	13	3	1	0	1	0	0	0	3	2	2	0	3	2	3	1	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:117307845G>A	uc001prh.1	-	26	4895	c.4893C>T	c.(4891-4893)TAC>TAT	p.Y1631Y		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1571	Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CACTGCCATCGTAGTCCAGGG	0.592													17	51					0	0	1	0	0		A	117307845	A	A	117307845	2	1	89	1	0	0	0	0	0	0	0	1	4775	1140	40	1		1	DSCAML1	11	117307845	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	29156	117307845	17698671	4366	58197											
DSCAML1	57453	broad.mit.edu	37	chr11	117375680	117375680	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgggtggggggtagccgTccaccgagcagttgagcaca	7	7	16	11	2	0	1	0	1	0	0	1	2	1	1	4	4	3	4	4	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:117375680T>C	uc001prh.1	-	10	2323	c.2321A>G	c.(2320-2322)GAC>GGC	p.D774G		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	714	Extracellular (Potential).|Ig-like C2-type 8.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GGGGTAGCCGTCCACCGAGCA	0.602													15	53					0	0	1	0	0		C	117375680	C	C	117375680	3	2	89	1	0	0	0	0	1	0	0	0	4775	1667	58	3	4116	3	DSCAML1	11	117375680	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	67835	117375680	17630836	4367	58198											
DSCAML1	57453	broad.mit.edu	37	chr11	117387316	117387316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctcaaacaccacctggCggtggttgtctggcagcagc	8	9	11	13	1	2	0	1	0	2	0	3	0	2	0	2	4	3	3	2	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:117387316C>T	uc001prh.1	-	8	1831	c.1829G>A	c.(1828-1830)CGC>CAC	p.R610H		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	550	Extracellular (Potential).|Ig-like C2-type 6.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity	p.R610L(1)		ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CACCACCTGGCGGTGGTTGTC	0.592													9	32					0	0	1	0	0		T	117387316	T	T	117387316	3	4	89	1	0	0	0	0	1	0	0	0	4775	768	27	1	4616	1	DSCAML1	11	117387316	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11636	117387316	17619200	4368	58199											
TMPRSS13	84000	broad.mit.edu	37	chr11	117779398	117779398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcctcatcggtgtaattgCtgttgatgatgatctcggca	7	14	10	10	2	2	3	1	3	1	0	5	3	3	3	2	2	1	4	2	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:117779398C>T	uc001prs.1	-	9	1304	c.1211G>A	c.(1210-1212)AGC>AAC	p.S404N	TMPRSS13_uc009yzr.1_Missense_Mutation_p.S83N|TMPRSS13_uc001prt.1_Missense_Mutation_p.S83N|TMPRSS13_uc001pru.1_Missense_Mutation_p.S404N	NM_001077263	NP_001070731	Q9BYE2	TMPSD_HUMAN	transmembrane protease, serine 13	399	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			pancreas(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.00106)		GGTGTAATTGCTGTTGATGAT	0.607													6	8					0	0	1	0	0		T	117779398	T	T	117779398	3	4	89	1	0	0	0	0	1	0	0	0	16270	797	28	2	512	2	TMPRSS13	11	117779398	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	392082	117779398	17227118	4369	58200											
SCN2B	6327	broad.mit.edu	37	chr11	118039303	118039303	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagcccaggactcaccatCtcctcagagcagttgttgca	9	10	8	14	0	4	1	3	0	1	1	5	2	4	2	3	1	3	4	3	1	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:118039303C>A	uc001psf.2	-	2	425	c.234G>T	c.(232-234)GAG>GAT	p.E78D		NM_004588	NP_004579	O60939	SCN2B_HUMAN	sodium channel, voltage-gated, type II, beta	78	Ig-like C2-type.|Extracellular (Potential).				synaptic transmission	voltage-gated sodium channel complex	voltage-gated sodium channel activity				0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.19e-05)|Epithelial(105;0.00117)		GACTCACCATCTCCTCAGAGC	0.627													36	92					5.71845e-15	6.48651e-15	1	1	0		A	118039303	A	A	118039303	3	1	89	1	0	0	0	0	1	0	0	0	13942	912	32	5	425	5	SCN2B	11	118039303	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	259905	118039303	16967213	4370	58201											
AMICA1	120425	broad.mit.edu	37	chr11	118074145	118074145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagccaaatgttagatacttCgaggctcttccgggctgaca	10	10	10	11	2	1	2	0	1	1	1	3	3	2	2	2	2	2	3	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:118074145C>T	uc001psk.2	-	6	944	c.770G>A	c.(769-771)CGA>CAA	p.R257Q	AMICA1_uc001psg.2_Missense_Mutation_p.R67Q|AMICA1_uc001psh.2_Missense_Mutation_p.R218Q|AMICA1_uc009yzw.1_RNA|AMICA1_uc001psi.2_Missense_Mutation_p.R247Q|AMICA1_uc001psj.2_Missense_Mutation_p.R246Q|AMICA1_uc010rxw.1_Missense_Mutation_p.R218Q|AMICA1_uc010rxx.1_Missense_Mutation_p.R257Q|AMICA1_uc001psl.1_Missense_Mutation_p.R213Q	NM_001098526	NP_001091996	Q86YT9	JAML1_HUMAN	adhesion molecule, interacts with CXADR antigen	257	Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	cell junction|integral to membrane				ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		TTAGATACTTCGAGGCTCTTC	0.418													75	181					0	0	1	0	0		T	118074145	T	T	118074145	3	4	89	1	0	0	0	0	1	0	0	0	574	884	31	1	434	1	AMICA1	11	118074145	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34842	118074145	16932371	4371	58202											
MLL	4297	broad.mit.edu	37	chr11	118352757	118352757	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaagaaaagaagttcccaAaaccactcctagtgagccca	16	5	7	13	0	0	3	0	1	0	2	2	3	2	3	5	0	2	1	5	0	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:118352757A>C	uc001pta.2	+	7	3985	c.3962A>C	c.(3961-3963)AAA>ACA	p.K1321T	MLL_uc001ptb.2_Missense_Mutation_p.K1321T|MLL_uc001pte.1_RNA|MLL_uc009zab.1_Missense_Mutation_p.K47Q	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1321					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GAAGTTCCCAAAACCACTCCT	0.522			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								27	34					0	0	1	0	0		C	118352757	C	C	118352757	3	2	89	1	0	0	0	0	1	0	0	0	9638	14	1	5	3988	5	MLL	11	118352757	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	278612	118352757	16653759	4372	58203											
ARCN1	372	broad.mit.edu	37	chr11	118452034	118452034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagtttgtggaaatgacccGaactcggattgagggcttat	11	11	12	7	2	0	2	0	2	0	0	1	5	0	4	1	3	1	2	1	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:118452034G>A	uc001ptq.2	+	2	238	c.77G>A	c.(76-78)CGA>CAA	p.R26Q	ARCN1_uc009zah.2_Missense_Mutation_p.R26Q|ARCN1_uc010ryg.1_Intron|ARCN1_uc009zag.2_Missense_Mutation_p.R67Q	NM_001655	NP_001646	P48444	COPD_HUMAN	archain isoform 1	26					COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	clathrin adaptor complex|COPI vesicle coat|cytosol					0	all_hematologic(175;0.0349)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		GAAATGACCCGAACTCGGATT	0.443													50	111					0	0	1	0	0		A	118452034	A	A	118452034	3	1	89	1	0	0	0	0	1	0	0	0	842	1058	37	1	83	1	ARCN1	11	118452034	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	99277	118452034	16554482	4373	58204											
PHLDB1	23187	broad.mit.edu	37	chr11	118498939	118498939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtccatctctgtcccggcGagctctctccccgctgccca	5	9	8	19	3	2	0	0	0	2	0	7	1	5	0	5	1	2	2	5	1	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:118498939G>A	uc001ptr.1	+	7	1753	c.1400G>A	c.(1399-1401)CGA>CAA	p.R467Q	PHLDB1_uc001pts.2_Missense_Mutation_p.R467Q|PHLDB1_uc001ptt.2_Missense_Mutation_p.R467Q|PHLDB1_uc001ptu.1_Intron|PHLDB1_uc001ptv.1_Missense_Mutation_p.R267Q|PHLDB1_uc001ptw.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	467											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CTGTCCCGGCGAGCTCTCTCC	0.687													32	92					0	0	1	0	0		A	118498939	A	A	118498939	3	1	89	1	0	0	0	0	1	0	0	0	11870	1058	37	1	1418	1	PHLDB1	11	118498939	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	46905	118498939	16507577	4374	58205											
TREH	11181	broad.mit.edu	37	chr11	118529423	118529423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcctcccccaccgggctgtCcaccgttgctgacgtcatac	5	9	8	19	3	1	1	1	1	0	0	4	1	4	1	6	1	2	3	6	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:118529423C>T	uc001pty.1	-	14	1610	c.1565G>A	c.(1564-1566)GGA>GAA	p.G522E	TREH_uc009zaj.1_Missense_Mutation_p.G491E|TREH_uc001ptz.1_Missense_Mutation_p.G399E	NM_007180	NP_009111	O43280	TREA_HUMAN	trehalase precursor	522					polysaccharide digestion|trehalose catabolic process	anchored to plasma membrane	alpha,alpha-trehalase activity			pancreas(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.16e-05)		ACCGGGCTGTCCACCGTTGCT	0.612													3	8					0	0	1	0	0		T	118529423	T	T	118529423	3	4	89	1	0	0	0	0	1	0	0	0	16495	855	30	4	193	4	TREH	11	118529423	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30484	118529423	16477093	4375	58206											
BCL9L	283149	broad.mit.edu	37	chr11	118771988	118771988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgccactgctgttctgggCccgaacccgggccatctcct	5	8	10	18	3	2	0	0	0	2	0	3	1	2	0	5	2	2	2	5	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:118771988C>T	uc001pug.2	-	6	3429	c.2464G>A	c.(2464-2466)GCC>ACC	p.A822T	BCL9L_uc009zal.2_Missense_Mutation_p.A817T	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	822	Met-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		CTGTTCTGGGCCCGAACCCGG	0.657													17	34					0	0	1	0	0		T	118771988	T	T	118771988	3	4	89	1	0	0	0	0	1	0	0	0	1383	739	26	2	2047	2	BCL9L	11	118771988	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	242565	118771988	16234528	4376	58207											
SLC37A4	2542	broad.mit.edu	37	chr11	118895938	118895938	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatggcgtgggaggtgccAcacaagttgggaggggcact	10	6	17	8	1	0	0	0	0	0	0	0	2	0	2	1	6	1	2	1	6	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:118895938A>G	uc010rys.1	-	10	1843	c.1086T>C	c.(1084-1086)TGT>TGC	p.C362C	SLC37A4_uc009zam.2_RNA|SLC37A4_uc009zan.2_RNA|SLC37A4_uc010ryr.1_Silent_p.C384C|SLC37A4_uc010ryt.1_Silent_p.C289C|SLC37A4_uc001pus.2_Silent_p.C362C	NM_001164277	NP_001157749	O43826	G6PT1_HUMAN	solute carrier family 37 (glucose-6-phosphate	362					glucose homeostasis|glucose metabolic process	endoplasmic reticulum membrane|integral to endoplasmic reticulum membrane|integral to membrane	glucose-6-phosphate transmembrane transporter activity|glucose-6-phosphate transmembrane transporter activity			large_intestine(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.58e-05)		GGGAGGTGCCACACAAGTTGG	0.527									Glycogen_Storage_Disease_type_Ib				11	27					0	0	1	0	0		G	118895938	G	G	118895938	2	3	89	1	0	0	0	0	0	0	0	1	14625	157	6	3		3	SLC37A4	11	118895938	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	123950	118895938	16110578	4377	58208											
DPAGT1	1798	broad.mit.edu	37	chr11	118967732	118967732	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatcatagaagagtcgaacGagctgatatcgaatggagaa	17	7	11	6	3	1	4	1	1	0	3	3	8	1	4	0	1	2	1	0	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:118967732G>A	uc001pvi.2	-	9	1623	c.1203C>T	c.(1201-1203)CTC>CTT	p.L401L	H2AFX_uc001pvg.2_5'Flank|H2AFX_uc001pvh.1_5'Flank|DPAGT1_uc001pvj.2_Silent_p.L294L|DPAGT1_uc009zaq.2_RNA|DPAGT1_uc001pvk.2_Silent_p.L229L|DPAGT1_uc010ryz.1_Silent_p.L401L|DPAGT1_uc001pvm.1_3'UTR|DPAGT1_uc010rza.1_Silent_p.L320L	NM_001382	NP_001373	Q9H3H5	GPT_HUMAN	UDP-N-acetylglucosamine-dolichyl-phosphate	401	Lumenal (Potential).				dolichol biosynthetic process|dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|protein oligomerization	integral to endoplasmic reticulum membrane|microsome	phospho-N-acetylmuramoyl-pentapeptide-transferase activity|transferase activity, transferring glycosyl groups|UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosaminephosphotransferase activity			breast(2)|ovary(1)	3	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.55e-05)		AGAGTCGAACGAGCTGATATC	0.493													18	26					0	0	1	0	0		A	118967732	A	A	118967732	2	1	89	1	0	0	0	0	0	0	0	1	4716	1045	37	1		1	DPAGT1	11	118967732	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	71794	118967732	16038784	4378	58209											
MFRP	83552	broad.mit.edu	37	chr11	119216216	119216216	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatgctgagggcttcgatCttgagctgtattgcatggtc	6	15	12	8	1	2	2	0	2	2	0	4	3	2	2	0	2	3	5	0	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:119216216C>A	uc001pwj.2	-	5	715	c.555G>T	c.(553-555)AAG>AAT	p.K185N	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Missense_Mutation_p.K185N	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		GGGCTTCGATCTTGAGCTGTA	0.577													15	43					1.3612e-06	1.41942e-06	1	1	0		A	119216216	A	A	119216216	3	1	89	1	0	0	0	0	1	0	0	0	9544	912	32	5	1220	5	MFRP	11	119216216	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	248484	119216216	15790300	4379	58210											
ARHGEF12	23365	broad.mit.edu	37	chr11	120292551	120292551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagtacagacaggtgatcGaatcatcaaggtaaggaata	16	8	12	5	1	2	2	2	1	0	1	3	5	2	4	0	4	1	2	0	4	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:120292551G>A	uc001pxl.1	+	6	345	c.338G>A	c.(337-339)CGA>CAA	p.R113Q	ARHGEF12_uc009zat.2_Missense_Mutation_p.R94Q|ARHGEF12_uc010rzn.1_Missense_Mutation_p.R10Q|ARHGEF12_uc009zau.1_Missense_Mutation_p.R10Q	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	113	PDZ.				apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		ACAGGTGATCGAATCATCAAG	0.338			T	MLL	AML								30	68					0	0	1	0	0		A	120292551	A	A	120292551	3	1	89	1	0	0	0	0	1	0	0	0	897	1058	37	1	360	1	ARHGEF12	11	120292551	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1076335	120292551	14713965	4380	58211											
ARHGEF12	23365	broad.mit.edu	37	chr11	120350997	120350997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgattatgaccccagagatGcctaccatggagccagaagg	13	7	11	10	0	0	4	0	2	0	2	0	6	0	5	5	2	3	0	5	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:120350997G>A	uc001pxl.1	+	38	4102	c.4095G>A	c.(4093-4095)ATG>ATA	p.M1365I	ARHGEF12_uc009zat.2_Missense_Mutation_p.M1346I|ARHGEF12_uc009zau.1_Missense_Mutation_p.M1262I	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	1365					apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		CCCCAGAGATGCCTACCATGG	0.493			T	MLL	AML								44	82					0	0	1	0	0		A	120350997	A	A	120350997	3	1	89	1	0	0	0	0	1	0	0	0	897	1319	46	2	4245	2	ARHGEF12	11	120350997	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	58446	120350997	14655519	4381	58212											
TECTA	7007	broad.mit.edu	37	chr11	121000423	121000423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatcgaaacaaaaacagtaCgacagtggagtccaagggcg	16	6	11	8	3	0	0	0	0	0	0	2	3	1	1	1	2	3	1	1	2	6	2	rs111759871	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:121000423C>T	uc010rzo.1	+	9	2444	c.2444C>T	c.(2443-2445)ACG>ATG	p.T815M		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	815	VWFD 2.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		AAAAACAGTACGACAGTGGAG	0.453													61	97					0	0	1	0	0		T	121000423	T	T	121000423	3	4	89	1	0	0	0	0	1	0	0	0	15772	536	19	1	2478	1	TECTA	11	121000423	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	649426	121000423	14006093	4382	58213											
SC5DL	6309	broad.mit.edu	37	chr11	121174120	121174120	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgttgcagattactatttTtttacaccatacgtgtatcc	9	17	6	9	2	0	1	0	0	0	1	1	1	1	1	2	0	4	3	2	0	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:121174120T>G	uc001pxu.2	+	2	184	c.36T>G	c.(34-36)TTT>TTG	p.F12L	SC5DL_uc001pxs.1_Missense_Mutation_p.F12L|SC5DL_uc001pxt.2_Missense_Mutation_p.F12L|SC5DL_uc001pxv.2_Missense_Mutation_p.F12L	NM_006918	NP_008849	O75845	SC5D_HUMAN	sterol-C5-desaturase	12					fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	C-5 sterol desaturase activity|iron ion binding|lathosterol oxidase activity			ovary(1)	1		Breast(109;0.00328)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)	OV - Ovarian serous cystadenocarcinoma(1;0.0334)	BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.144)		ATTACTATTTTTTTACACCAT	0.388													36	88					0	0	1	0	0		G	121174120	G	G	121174120	3	3	89	1	0	0	0	0	1	0	0	0	13891	1838	64	5	38	5	SC5DL	11	121174120	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	173697	121174120	13832396	4383	58214											
SORL1	6653	broad.mit.edu	37	chr11	121429396	121429396	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctggtgtctgaggatgtGaagtggcccaatggcatctc	8	10	13	10	0	2	2	0	2	2	0	3	3	2	3	2	4	0	1	2	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:121429396G>T	uc001pxx.2	+	20	2840	c.2760G>T	c.(2758-2760)GTG>GTT	p.V920V		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	920	Extracellular (Potential).|LDL-receptor class B 3.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		CTGAGGATGTGAAGTGGCCCA	0.547													37	124					3.76114e-14	4.23289e-14	1	1	0		T	121429396	T	T	121429396	2	4	89	1	0	0	0	0	0	0	0	1	14959	1277	45	5		5	SORL1	11	121429396	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	255276	121429396	13577120	4384	58215											
SORL1	6653	broad.mit.edu	37	chr11	121478832	121478832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggctgcggtgactagtcGtggaataggaaactggagcg	9	8	18	6	3	0	1	0	1	0	0	1	4	0	4	0	6	3	1	0	6	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:121478832G>A	uc001pxx.2	+	38	5266	c.5186G>A	c.(5185-5187)CGT>CAT	p.R1729H	SORL1_uc010rzp.1_Missense_Mutation_p.R575H|SORL1_uc010rzq.1_Missense_Mutation_p.R344H	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1729	Extracellular (Potential).|Fibronectin type-III 2.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		GTGACTAGTCGTGGAATAGGA	0.363													19	42					0	0	1	0	0		A	121478832	A	A	121478832	3	1	89	1	0	0	0	0	1	0	0	0	14959	1145	40	1	5336	1	SORL1	11	121478832	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	49436	121478832	13527684	4385	58216											
SORL1	6653	broad.mit.edu	37	chr11	121491794	121491794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtatgcagttgcagtcaaaGatctcataagaaagactgac	15	10	9	7	0	2	4	2	1	1	3	3	4	2	4	0	0	2	4	0	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:121491794G>A	uc001pxx.2	+	44	5991	c.5911G>A	c.(5911-5913)GAT>AAT	p.D1971N	SORL1_uc010rzp.1_Missense_Mutation_p.D817N|SORL1_uc010rzq.1_Missense_Mutation_p.D586N	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1971	Extracellular (Potential).|Fibronectin type-III 5.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		TGCAGTCAAAGATCTCATAAG	0.398													16	39					0	0	1	0	0		A	121491794	A	A	121491794	3	1	89	1	0	0	0	0	1	0	0	0	14959	942	33	4	6085	4	SORL1	11	121491794	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12962	121491794	13514722	4386	58217											
ASAM	79827	broad.mit.edu	37	chr11	122944366	122944366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgacagtgtccgctggctgCgtgaggcactatttgctgtg	5	13	14	9	2	0	2	0	2	0	0	1	2	1	2	1	2	2	4	1	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:122944366C>T	uc001pyt.2	-	7	1297	c.938G>A	c.(937-939)CGC>CAC	p.R313H		NM_024769	NP_079045	Q9H6B4	CLMP_HUMAN	adipocyte-specific adhesion molecule precursor	313	Ser-rich.|Cytoplasmic (Potential).					integral to membrane|tight junction					0		Breast(109;0.0025)|Lung NSC(97;0.0179)|all_lung(97;0.0182)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.73e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)		CCGCTGGCTGCGTGAGGCACT	0.602													49	96					0	0	1	0	0		T	122944366	T	T	122944366	3	4	89	1	0	0	0	0	1	0	0	0	1010	768	27	1	187	1	ASAM	11	122944366	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1452572	122944366	12062150	4387	58218											
GRAMD1B	57476	broad.mit.edu	37	chr11	123477453	123477453	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttcactggacttcaatgAcaatgaggacatccccactg	11	9	7	14	0	2	2	2	2	0	0	3	4	3	4	3	2	0	0	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:123477453A>G	uc001pyx.2	+	10	1360	c.1031A>G	c.(1030-1032)GAC>GGC	p.D344G	GRAMD1B_uc001pyw.2_Missense_Mutation_p.D351G|GRAMD1B_uc010rzw.1_Missense_Mutation_p.D304G|GRAMD1B_uc010rzx.1_Missense_Mutation_p.D304G|GRAMD1B_uc009zbe.1_Missense_Mutation_p.D340G|GRAMD1B_uc001pyy.2_5'Flank	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	344						integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		GACTTCAATGACAATGAGGAC	0.517													8	21					0	0	1	0	0		G	123477453	G	G	123477453	3	3	89	1	0	0	0	0	1	0	0	0	6764	275	10	3	1069	3	GRAMD1B	11	123477453	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	533087	123477453	11529063	4388	58219											
OR8D4	338662	broad.mit.edu	37	chr11	123778058	123778058	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgatgaaacttttaagaaGaaaaatatctttatctccag	16	14	5	6	0	3	4	0	2	3	2	4	4	3	4	1	0	1	0	1	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:123778058G>T	uc010saa.1	+	1	920	c.920G>T	c.(919-921)AGA>ATA	p.R307I		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	307	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		CTTTTAAGAAGAAAAATATCT	0.274													16	37					2.32078e-09	2.49434e-09	1	1	0		T	123778058	T	T	123778058	3	4	89	1	0	0	0	0	1	0	0	0	11252	942	33	5	922	5	OR8D4	11	123778058	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	300605	123778058	11228458	4389	58220											
OR8B12	219858	broad.mit.edu	37	chr11	124413406	124413406	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaggtgagagttcagccCaatcagggttatcaagccca	11	8	12	10	0	3	1	3	1	0	1	3	2	3	1	2	2	3	3	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:124413406C>A	uc010sam.1	-	1	145	c.145G>T	c.(145-147)GGG>TGG	p.G49W		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	49	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		GAGTTCAGCCCAATCAGGGTT	0.498													31	65					2.49534e-26	3.01769e-26	1	1	0		A	124413406	A	A	124413406	3	1	89	1	0	0	0	0	1	0	0	0	11245	594	21	5	789	5	OR8B12	11	124413406	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	635348	124413406	10593110	4390	58221											
PANX3	116337	broad.mit.edu	37	chr11	124489454	124489454	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggctgacatcactgtccAttttccagattgttagcctc	8	13	8	12	0	1	2	1	1	0	1	4	2	3	2	3	1	1	3	3	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:124489454A>G	uc001qah.2	+	4	802	c.802A>G	c.(802-804)ATT>GTT	p.I268V		NM_052959	NP_443191	Q96QZ0	PANX3_HUMAN	pannexin 3	268	Helical; (Potential).				protein hexamerization	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0219)		ATCACTGTCCATTTTCCAGAT	0.468													23	52					0	0	1	0	0		G	124489454	G	G	124489454	3	3	89	1	0	0	0	0	1	0	0	0	11441	217	8	3	816	3	PANX3	11	124489454	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	76048	124489454	10517062	4391	58222											
HEPACAM	220296	broad.mit.edu	37	chr11	124793897	124793897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaccaacacctgtggcctcGaaatgggcactgagccgcag	10	5	11	15	2	0	1	0	1	0	0	1	2	0	1	5	2	2	2	5	2	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:124793897G>A	uc001qbk.2	-	3	843	c.437C>T	c.(436-438)TCG>TTG	p.S146L	HEPACAM_uc009zbj.2_5'Flank|HEPACAM_uc001qbl.1_Missense_Mutation_p.S146L	NM_152722	NP_689935	Q14CZ8	HECAM_HUMAN	hepatocyte cell adhesion molecule precursor	146	Extracellular (Potential).				cell adhesion|cell cycle arrest|regulation of growth	cytoplasm|integral to membrane				pancreas(1)	1	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.54e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		CTGTGGCCTCGAAATGGGCAC	0.552													3	20					0	0	1	0	0		A	124793897	A	A	124793897	3	1	89	1	0	0	0	0	1	0	0	0	7068	1059	37	1	833	1	HEPACAM	11	124793897	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	304443	124793897	10212619	4392	58223											
CCDC15	80071	broad.mit.edu	37	chr11	124858023	124858023	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaccaagattttctaccaaAatatcaggtaaaatagagca	18	9	7	7	0	2	2	1	0	1	2	2	3	2	3	2	2	2	2	2	2	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:124858023A>C	uc001qbm.3	+	8	2160	c.1901A>C	c.(1900-1902)AAA>ACA	p.K634T		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	634						centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		TTTCTACCAAAATATCAGGTA	0.378													32	66					0	0	1	0	0		C	124858023	C	C	124858023	3	2	89	1	0	0	0	0	1	0	0	0	2787	14	1	5	1927	5	CCDC15	11	124858023	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	64126	124858023	10148493	4393	58224											
CCDC15	80071	broad.mit.edu	37	chr11	124863121	124863121	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggagattgcaagaggaaaTactcctggagtgcccttggt	10	10	14	7	0	0	2	0	0	0	2	1	5	1	4	2	4	3	1	2	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:124863121T>C	uc001qbm.3	+	11	2455	c.2196T>C	c.(2194-2196)AAT>AAC	p.N732N		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	732						centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		CAAGAGGAAATACTCCTGGAG	0.358													4	17					0	0	1	0	0		C	124863121	C	C	124863121	2	2	89	1	0	0	0	0	0	0	0	1	2787	1403	49	3		3	CCDC15	11	124863121	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	5098	124863121	10143395	4394	58225											
CCDC15	80071	broad.mit.edu	37	chr11	124908850	124908850	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacgagcccaaatccaggaGaaaatgcagctgtataatat	16	9	8	8	1	0	1	0	0	0	1	1	3	1	1	2	1	4	3	2	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:124908850G>T	uc001qbm.3	+	15	2878	c.2619G>T	c.(2617-2619)GAG>GAT	p.E873D		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	873	Potential.					centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		AAATCCAGGAGAAAATGCAGC	0.363													40	104					1.57019e-19	1.84548e-19	1	1	0		T	124908850	T	T	124908850	3	4	89	1	0	0	0	0	1	0	0	0	2787	933	33	5	2673	5	CCDC15	11	124908850	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	45729	124908850	10097666	4395	58226											
PKNOX2	63876	broad.mit.edu	37	chr11	125301169	125301169	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcattggatgggacagaaGaagaggatgaggatgagatg	15	7	16	3	0	1	5	1	2	0	4	1	10	1	9	0	4	0	0	0	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:125301169G>T	uc001qbu.2	+	13	1614	c.1300G>T	c.(1300-1302)GAA>TAA	p.E434*	PKNOX2_uc010saz.1_Nonsense_Mutation_p.E405*|PKNOX2_uc010sba.1_Nonsense_Mutation_p.E405*|PKNOX2_uc010sbb.1_Nonsense_Mutation_p.E370*|PKNOX2_uc001qbv.2_Nonsense_Mutation_p.E199*	NM_022062	NP_071345	Q96KN3	PKNX2_HUMAN	PBX/knotted 1 homeobox 2	434	Asp/Glu-rich (acidic).					nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(109;0.00234)|all_lung(97;0.0191)|Lung NSC(97;0.0196)|Medulloblastoma(222;0.0447)|all_neural(223;0.116)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.117)		TGGGACAgaagaagaggatga	0.398													9	22					0.000274275	0.000279565	1	1	0		T	125301169	T	T	125301169	4	4	89	1	0	0	0	0	0	1	0	0	12002	943	33	5	1338	5	PKNOX2	11	125301169	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	392319	125301169	9705347	4396	58227											
EI24	9538	broad.mit.edu	37	chr11	125451124	125451124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggaattgaaatgcaccagCggttgtctaacatagaaagg	15	9	11	6	1	1	2	0	1	1	1	1	3	1	3	1	3	3	2	1	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:125451124C>T	uc001qca.2	+	9	933	c.691C>T	c.(691-693)CGG>TGG	p.R231W	EI24_uc001qcb.2_Intron|EI24_uc010sbd.1_RNA|EI24_uc009zbl.2_Missense_Mutation_p.R231W|EI24_uc001qcc.2_RNA|EI24_uc010sbe.1_Missense_Mutation_p.R217W|EI24_uc010sbf.1_RNA	NM_004879	NP_004870	O14681	EI24_HUMAN	etoposide induced 2.4 isoform 1	231					apoptosis|autophagy|induction of apoptosis|negative regulation of cell growth	endoplasmic reticulum membrane|integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.64e-07)|OV - Ovarian serous cystadenocarcinoma(99;0.0975)		AATGCACCAGCGGTTGTCTAA	0.363													13	21					0	0	1	0	0		T	125451124	T	T	125451124	3	4	89	1	0	0	0	0	1	0	0	0	4991	759	27	1	721	1	EI24	11	125451124	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	149955	125451124	9555392	4397	58228											
STT3A	3703	broad.mit.edu	37	chr11	125488282	125488282	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctagatatcaacaagtttCtttggatggtccggattgga	10	14	10	7	1	2	1	1	0	1	1	4	4	4	4	2	4	1	1	2	4	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:125488282C>A	uc001qcd.2	+	16	1899	c.1789C>A	c.(1789-1791)CTT>ATT	p.L597I	STT3A_uc001qce.2_Missense_Mutation_p.L597I|STT3A_uc010sbg.1_Missense_Mutation_p.L505I|STT3A_uc009zbn.2_Missense_Mutation_p.L319I	NM_152713	NP_689926	P46977	STT3A_HUMAN	integral membrane protein 1	597	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity				0	all_hematologic(175;0.228)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0996)		CAACAAGTTTCTTTGGATGGT	0.408													16	32					4.7546e-09	5.08881e-09	1	1	0		A	125488282	A	A	125488282	3	1	89	1	0	0	0	0	1	0	0	0	15358	913	32	5	1847	5	STT3A	11	125488282	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	37158	125488282	9518234	4398	58229											
CHEK1	1111	broad.mit.edu	37	chr11	125497713	125497713	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtagtggaggagagcttTttgacagaataggtatggaa	13	11	14	3	0	0	3	0	1	0	2	0	6	0	5	0	4	1	3	0	4	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:125497713T>G	uc009zbo.2	+	3	1169	c.277T>G	c.(277-279)TTT>GTT	p.F93V	CHEK1_uc010sbh.1_Intron|CHEK1_uc010sbi.1_Missense_Mutation_p.F93V|CHEK1_uc001qcf.3_Missense_Mutation_p.F93V|CHEK1_uc009zbp.2_Missense_Mutation_p.F93V|CHEK1_uc001qcg.3_Missense_Mutation_p.F93V|CHEK1_uc009zbq.2_Missense_Mutation_p.F93V|CHEK1_uc001qci.1_RNA	NM_001114122	NP_001107594	O14757	CHK1_HUMAN	checkpoint kinase 1	93	Protein kinase.				cellular response to mechanical stimulus|DNA repair|DNA replication|gamete generation|negative regulation of cell proliferation|reciprocal meiotic recombination|regulation of cyclin-dependent protein kinase activity|replicative senescence	condensed nuclear chromosome|microtubule organizing center|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|skin(1)	6	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0748)		AGGAGAGCTTTTTGACAGAAT	0.279								Other_conserved_DNA_damage_response_genes					20	64					0	0	1	0	0		G	125497713	G	G	125497713	3	3	89	1	0	0	0	0	1	0	0	0	3337	1841	64	5	283	5	CHEK1	11	125497713	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	9431	125497713	9508803	4399	58230											
CHEK1	1111	broad.mit.edu	37	chr11	125505412	125505412	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaacccttggaaaaaaatCgattctgctcctctaggtaa	13	11	6	11	1	3	0	1	0	2	0	5	2	4	1	2	2	2	2	2	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:125505412C>T	uc009zbo.2	+	7	1594	c.702C>T	c.(700-702)ATC>ATT	p.I234I	CHEK1_uc010sbh.1_Silent_p.I250I|CHEK1_uc010sbi.1_Silent_p.I234I|CHEK1_uc001qcf.3_Silent_p.I234I|CHEK1_uc009zbp.2_Silent_p.I234I|CHEK1_uc001qcg.3_Silent_p.I234I|CHEK1_uc009zbq.2_Silent_p.I234I|CHEK1_uc001qci.1_RNA	NM_001114122	NP_001107594	O14757	CHK1_HUMAN	checkpoint kinase 1	234	Protein kinase.				cellular response to mechanical stimulus|DNA repair|DNA replication|gamete generation|negative regulation of cell proliferation|reciprocal meiotic recombination|regulation of cyclin-dependent protein kinase activity|replicative senescence	condensed nuclear chromosome|microtubule organizing center|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|skin(1)	6	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0748)		GGAAAAAAATCGATTCTGCTC	0.358								Other_conserved_DNA_damage_response_genes					54	141					0	0	1	0	0		T	125505412	T	T	125505412	2	4	89	1	0	0	0	0	0	0	0	1	3337	874	31	1		1	CHEK1	11	125505412	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7699	125505412	9501104	4400	58231											
PATE1	160065	broad.mit.edu	37	chr11	125617607	125617607	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccaagtgatagaaattgTtcagtgtaggatgtgccacc	11	11	12	7	0	1	2	1	1	0	1	1	3	1	3	3	2	1	2	3	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:125617607T>G	uc001qct.2	+	4	149	c.137T>G	c.(136-138)GTT>GGT	p.V46G	PATE1_uc009zbr.2_Missense_Mutation_p.V34G	NM_138294	NP_612151	Q8WXA2	PATE1_HUMAN	expressed in prostate and testis precursor	46						extracellular region					0						ATAGAAATTGTTCAGTGTAGG	0.498													30	60					0	0	1	0	0		G	125617607	G	G	125617607	3	3	89	1	0	0	0	0	1	0	0	0	11492	1725	60	5	151	5	PATE1	11	125617607	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	112195	125617607	9388909	4401	58232											
PUS3	83480	broad.mit.edu	37	chr11	125763722	125763722	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtcaacacagaccctcttCgttggtgtctccaaattagt	9	13	8	11	1	3	1	1	0	2	1	5	1	3	1	2	1	1	1	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:125763722C>T	uc001qcy.2	-	4	1502	c.1404G>A	c.(1402-1404)ACG>ACA	p.T468T	HYLS1_uc009zbv.2_Intron|HYLS1_uc001qcx.3_Intron	NM_031307	NP_112597	Q9BZE2	PUS3_HUMAN	pseudouridylate synthase 3	468						nucleus	RNA binding			ovary(1)	1	all_hematologic(175;0.177)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.131)|all_lung(97;0.139)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.043)		AGACCCTCTTCGTTGGTGTCT	0.403													59	105					0	0	1	0	0		T	125763722	T	T	125763722	2	4	89	1	0	0	0	0	0	0	0	1	12857	871	31	1		1	PUS3	11	125763722	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	146115	125763722	9242794	4402	58233											
PUS3	83480	broad.mit.edu	37	chr11	125763900	125763900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatgaggggcttatatgtgCgcatcttcactccttctaca	8	13	8	12	1	3	1	1	1	2	0	4	1	4	1	2	2	2	2	2	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:125763900C>T	uc001qcy.2	-	4	1324	c.1226G>A	c.(1225-1227)CGC>CAC	p.R409H	HYLS1_uc009zbv.2_Intron|HYLS1_uc001qcx.3_Intron	NM_031307	NP_112597	Q9BZE2	PUS3_HUMAN	pseudouridylate synthase 3	409						nucleus	RNA binding			ovary(1)	1	all_hematologic(175;0.177)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.131)|all_lung(97;0.139)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.043)		CTTATATGTGCGCATCTTCAC	0.473													58	123					0	0	1	0	0		T	125763900	T	T	125763900	3	4	89	1	0	0	0	0	1	0	0	0	12857	768	27	1	223	1	PUS3	11	125763900	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	178	125763900	9242616	4403	58234											
HYLS1	219844	broad.mit.edu	37	chr11	125769653	125769653	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgatcaggatctctgggaCttaagacaaaggctgatgaa	15	9	11	6	0	2	4	1	3	1	1	3	6	2	6	0	3	0	1	0	3	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:125769653C>A	uc009zbv.2	+	4	924	c.390C>A	c.(388-390)GAC>GAA	p.D130E	HYLS1_uc001qcx.3_Missense_Mutation_p.D130E|PUS3_uc001qcy.2_Intron	NM_145014	NP_659451	Q96M11	HYLS1_HUMAN	hydrolethalus syndrome 1	130						centrosome|nucleus				upper_aerodigestive_tract(1)	1	all_hematologic(175;0.177)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.131)|all_lung(97;0.139)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)		ATCTCTGGGACTTAAGACAAA	0.393													41	57					1.47197e-15	1.68038e-15	1	1	0		A	125769653	A	A	125769653	3	1	89	1	0	0	0	0	1	0	0	0	7485	564	20	5	392	5	HYLS1	11	125769653	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5753	125769653	9236863	4404	58235											
DDX25	29118	broad.mit.edu	37	chr11	125792754	125792754	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgctgaagacatggatgAaattgaaaagattgactatt	17	10	9	5	1	0	6	0	4	0	2	0	7	0	7	0	1	1	1	0	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:125792754A>C	uc001qcz.3	+	12	1571	c.1430A>C	c.(1429-1431)GAA>GCA	p.E477A		NM_013264	NP_037396	Q9UHL0	DDX25_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 25	477	Helicase C-terminal.				mRNA export from nucleus|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|nucleus	ATP binding|ATP-dependent RNA helicase activity|RNA binding			ovary(1)	1	all_hematologic(175;0.177)	Breast(109;0.0021)|all_lung(97;0.0203)|Lung NSC(97;0.0203)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.14e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.046)		GACATGGATGAAATTGAAAAG	0.343											OREG0021479	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	10					0	0	1	0	0		C	125792754	C	C	125792754	3	2	89	1	0	0	0	0	1	0	0	0	4355	246	9	5	1476	5	DDX25	11	125792754	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	23101	125792754	9213762	4405	58236											
RPUSD4	84881	broad.mit.edu	37	chr11	126074205	126074205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccaaaagacaagtgaactCgaagctgatgttttattcct	14	12	7	8	1	0	3	0	2	0	1	3	4	2	3	2	0	2	2	2	0	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:126074205C>T	uc001qde.2	-	6	869	c.815G>A	c.(814-816)CGA>CAA	p.R272Q	RPUSD4_uc010sbl.1_Missense_Mutation_p.R79Q|RPUSD4_uc009zbz.2_Missense_Mutation_p.R241Q|RPUSD4_uc009zby.2_RNA	NM_032795	NP_116184	Q96CM3	RUSD4_HUMAN	RNA pseudouridylate synthase domain containing 4	272					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			breast(1)	1	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0761)		CAAGTGAACTCGAAGCTGATG	0.363													24	49					0	0	1	0	0		T	126074205	T	T	126074205	3	4	89	1	0	0	0	0	1	0	0	0	13694	884	31	1	326	1	RPUSD4	11	126074205	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	281451	126074205	8932311	4406	58237											
FAM118B	79607	broad.mit.edu	37	chr11	126104933	126104933	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccaggcctctgatatagacGagatttttggattcttcaac	10	13	9	9	1	3	3	1	1	2	2	3	5	3	4	2	2	1	0	2	2	3	6	rs142027987	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:126104933G>A	uc001qdf.2	+	3	220	c.37G>A	c.(37-39)GAG>AAG	p.E13K	FAM118B_uc009zca.2_Missense_Mutation_p.E17K|FAM118B_uc001qdg.2_Missense_Mutation_p.E13K	NM_024556	NP_078832	Q9BPY3	F118B_HUMAN	hypothetical protein LOC79607	13											0	all_hematologic(175;0.145)	Breast(109;0.00156)|Lung NSC(97;0.00948)|all_lung(97;0.0101)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0784)		TGATATAGACGAGATTTTTGG	0.403													11	27					0	0	1	0	0		A	126104933	A	A	126104933	3	1	89	1	0	0	0	0	1	0	0	0	5423	1059	37	1	39	1	FAM118B	11	126104933	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	30728	126104933	8901583	4407	58238											
ARHGAP32	9743	broad.mit.edu	37	chr11	128844756	128844756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggctgggatatgaagcagcCctccttcctcctcactctca	7	10	9	15	0	2	1	2	1	1	0	6	2	5	2	4	2	2	2	4	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:128844756C>T	uc009zcp.2	-	20	2294	c.2294G>A	c.(2293-2295)GGG>GAG	p.G765E	ARHGAP32_uc009zcq.1_Missense_Mutation_p.G725E|ARHGAP32_uc009zco.2_5'UTR|ARHGAP32_uc001qez.2_Missense_Mutation_p.G416E	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	765					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						ATGAAGCAGCCCTCCTTCCTC	0.488													26	44					0	0	1	0	0		T	128844756	T	T	128844756	3	4	89	1	0	0	0	0	1	0	0	0	881	623	22	4	3981	4	ARHGAP32	11	128844756	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2739823	128844756	6161760	4408	58239											
ARHGAP32	9743	broad.mit.edu	37	chr11	128936648	128936648	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggactgtccttcagggtgTcagaacggggaagttctgag	8	10	15	8	1	3	2	2	1	1	1	4	4	4	4	1	4	1	1	1	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:128936648T>C	uc009zcp.2	-	6	605	c.605A>G	c.(604-606)GAC>GGC	p.D202G	ARHGAP32_uc009zcq.1_Missense_Mutation_p.D162G|ARHGAP32_uc001qfb.2_5'UTR	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	202	PX; atypical.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						CTTCAGGGTGTCAGAACGGGG	0.368													10	27					0	0	1	0	0		C	128936648	C	C	128936648	3	2	89	1	0	0	0	0	1	0	0	0	881	1667	58	3	5726	3	ARHGAP32	11	128936648	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	91892	128936648	6069868	4409	58240											
ADAMTS8	11095	broad.mit.edu	37	chr11	130284622	130284622	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcagtggcggaaatccggcCcaaagatctgcctgcactgc	9	6	13	13	2	1	1	0	0	1	1	2	2	2	2	3	4	3	2	3	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:130284622C>A	uc001qgg.3	-	5	1728	c.1370G>T	c.(1369-1371)GGG>GTG	p.G457V	ADAMTS8_uc001qgf.2_5'Flank	NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	457	Disintegrin.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		GAAATCCGGCCCAAAGATCTG	0.662													24	60					5.35356e-11	5.83973e-11	1	1	0		A	130284622	A	A	130284622	3	1	89	1	0	0	0	0	1	0	0	0	272	623	22	5	1319	5	ADAMTS8	11	130284622	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1347974	130284622	4721894	4410	58241											
ADAMTS15	170689	broad.mit.edu	37	chr11	130319043	130319043	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactcatttttcagatcacaGcatttcaggaggacttttac	11	14	7	9	0	4	1	4	0	0	1	4	4	4	3	0	2	2	1	0	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:130319043G>T	uc010scd.1	+	1	175	c.175G>T	c.(175-177)GCA>TCA	p.A59S		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	59					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		TCAGATCACAGCATTTCAGGA	0.602													35	65					4.11147e-13	4.58684e-13	1	1	0		T	130319043	T	T	130319043	3	4	89	1	0	0	0	0	1	0	0	0	260	971	34	5	177	5	ADAMTS15	11	130319043	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	34421	130319043	4687473	4411	58242											
NCAPD3	23310	broad.mit.edu	37	chr11	134079276	134079276	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagaagccttaaaaaattCtttaaaaggtgaaagatggc	17	9	10	5	0	1	3	0	1	1	2	1	3	1	3	1	3	1	1	1	3	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:134079276C>A	uc001qhd.1	-	5	1269	c.663G>T	c.(661-663)AAG>AAT	p.K221N	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	221					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		TTAAAAAATTCTTTAAAAGGT	0.353													20	37					1.56452e-12	1.73502e-12	1	1	0		A	134079276	A	A	134079276	3	1	89	1	0	0	0	0	1	0	0	0	10225	912	32	5	3957	5	NCAPD3	11	134079276	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3760233	134079276	927240	4412	58243											
VPS26B	112936	broad.mit.edu	37	chr11	134095105	134095105	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggccgagcacaagacggAggacgggaagaaggagaaat	15	1	18	7	4	0	3	0	0	0	3	0	8	0	6	1	5	1	1	1	5	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr11:134095105A>G	uc001qhe.2	+	1	545	c.89A>G	c.(88-90)GAG>GGG	p.E30G	NCAPD3_uc001qhd.1_5'Flank|NCAPD3_uc010scm.1_5'Flank|NCAPD3_uc009zda.1_5'Flank|NCAPD3_uc010scn.1_5'Flank	NM_052875	NP_443107	Q4G0F5	VP26B_HUMAN	vacuolar protein sorting 26 homolog B	30					protein transport|vacuolar transport	cytosol|retromer complex					0	all_hematologic(175;0.127)	all_cancers(12;1.1e-21)|all_epithelial(12;3.77e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;2.43e-10)|all cancers(11;2.94e-09)|BRCA - Breast invasive adenocarcinoma(10;9.57e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00164)|Lung(977;0.216)		CACAAGACGGAGGACGGGAAG	0.597													18	22					0	0	1	0	0		G	134095105	G	G	134095105	3	3	89	1	0	0	0	0	1	0	0	0	17224	304	11	3	91	3	VPS26B	11	134095105	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	15829	134095105	911411	4413	58244											
SLC6A13	6540	broad.mit.edu	37	chr12	331772	331772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgtacccaatcatgtcttCgatgttgtcgtagaagcgct	8	13	9	11	3	2	1	1	0	1	1	4	2	2	1	2	0	2	4	2	0	4	4	rs142374546	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:331772C>T	uc001qic.1	-	13	1494	c.1441G>A	c.(1441-1443)GAA>AAA	p.E481K	SLC6A13_uc009zdj.1_Missense_Mutation_p.E471K|SLC6A13_uc010sdl.1_Missense_Mutation_p.E389K	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	481					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			ATCATGTCTTCGATGTTGTCG	0.483													9	15					0	0	1	0	0		T	331772	T	T	331772	3	4	89	1	0	0	0	0	1	0	0	0	14701	893	31	1	379	1	SLC6A13	12	331772	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08		331772	133520123	4414	58245											
SLC6A13	6540	broad.mit.edu	37	chr12	335650	335650	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggccacaaagctggtgccGctgttgaggaagcagagggc	9	5	16	11	2	0	2	0	1	0	1	0	3	0	3	3	4	3	4	3	4	2	1	rs149831603	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:335650G>A	uc001qic.1	-	9	1019	c.966C>T	c.(964-966)AGC>AGT	p.S322S	SLC6A13_uc009zdj.1_Silent_p.S312S|SLC6A13_uc010sdl.1_Silent_p.S230S	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	322	Helical; Name=7; (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			AGCTGGTGCCGCTGTTGAGGA	0.617													17	33					0	0	1	0	0		A	335650	A	A	335650	2	1	89	1	0	0	0	0	0	0	0	1	14701	1078	38	1		1	SLC6A13	12	335650	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3878	335650	133516245	4415	58246											
KDM5A	5927	broad.mit.edu	37	chr12	430229	430229	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggacaaaggccttcaattCttccactgtcagtttggtcc	8	14	8	11	0	3	0	2	0	1	0	5	1	5	1	3	3	0	1	3	3	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:430229C>A	uc001qif.1	-	18	2836	c.2473G>T	c.(2473-2475)GAA>TAA	p.E825*	KDM5A_uc001qie.1_Nonsense_Mutation_p.E825*|KDM5A_uc010sdn.1_Nonsense_Mutation_p.E784*	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	825					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						GCCTTCAATTCTTCCACTGTC	0.398			T 	NUP98	AML								50	113					3.16986e-14	3.57286e-14	1	1	0		A	430229	A	A	430229	4	1	89	1	0	0	0	0	0	1	0	0	8149	922	32	5	2643	5	KDM5A	12	430229	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	94579	430229	133421666	4416	58247											
KDM5A	5927	broad.mit.edu	37	chr12	432777	432777	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggatacctaagacatttCttctgcatggggcaggggca	9	12	12	8	0	2	1	0	0	2	1	2	2	2	2	1	5	2	3	1	5	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:432777C>A	uc001qif.1	-	15	2502	c.2139G>T	c.(2137-2139)AAG>AAT	p.K713N	KDM5A_uc001qie.1_Missense_Mutation_p.K713N|KDM5A_uc010sdn.1_Missense_Mutation_p.K672N|KDM5A_uc010sdo.1_Missense_Mutation_p.K332N	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	713					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						TAAGACATTTCTTCTGCATGG	0.378			T 	NUP98	AML								35	92					6.70999e-13	7.4604e-13	1	1	0		A	432777	A	A	432777	3	1	89	1	0	0	0	0	1	0	0	0	8149	912	32	5	2989	5	KDM5A	12	432777	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2548	432777	133419118	4417	58248											
B4GALNT3	283358	broad.mit.edu	37	chr12	665919	665919	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaaggcctggtctgggAcccacacaaccgtaggagac	10	5	12	14	1	1	1	0	0	1	1	1	3	1	2	4	4	2	2	4	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:665919A>G	uc001qii.1	+	15	2267	c.2267A>G	c.(2266-2268)GAC>GGC	p.D756G	B4GALNT3_uc001qik.1_Missense_Mutation_p.D305G	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	756	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			CTGGTCTGGGACCCACACAAC	0.647													11	27					0	0	1	0	0		G	665919	G	G	665919	3	3	89	1	0	0	0	0	1	0	0	0	1269	275	10	3	2325	3	B4GALNT3	12	665919	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	233142	665919	133185976	4418	58249											
WNK1	65125	broad.mit.edu	37	chr12	862916	862916	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgccgccacactatggAcaaggacagccgtggggcgg	8	3	16	14	5	0	0	0	0	0	0	0	2	0	2	4	5	1	0	4	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:862916A>G	uc001qio.3	+	1	692	c.185A>G	c.(184-186)GAC>GGC	p.D62G	WNK1_uc001qin.2_Missense_Mutation_p.D62G|WNK1_uc001qip.3_Missense_Mutation_p.D62G	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	62					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CACACTATGGACAAGGACAGC	0.667													14	38					0	0	1	0	0		G	862916	G	G	862916	3	3	89	1	0	0	0	0	1	0	0	0	17403	275	10	3	187	3	WNK1	12	862916	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	196997	862916	132988979	4419	58250											
ERC1	23085	broad.mit.edu	37	chr12	1289715	1289715	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacatttagattgaaaatCttcaagagcagcttagagac	15	12	8	6	0	2	4	1	1	1	3	2	5	2	4	0	0	3	3	0	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:1289715C>A	uc001qjb.2	+	9	1988	c.1747C>A	c.(1747-1749)CTT>ATT	p.L583I	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.L555I|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.L583I|ERC1_uc010sdv.1_Missense_Mutation_p.L331I|ERC1_uc009zdp.2_Missense_Mutation_p.L223I	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	583	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding	p.L583I(1)		ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			GATTGAAAATCTTCAAGAGCA	0.368													14	31					9.05144e-12	9.95561e-12	1	1	0		A	1289715	A	A	1289715	3	1	89	1	0	0	0	0	1	0	0	0	5218	913	32	5	1777	5	ERC1	12	1289715	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	426799	1289715	132562180	4420	58251											
DCP1B	196513	broad.mit.edu	37	chr12	2058449	2058449	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgcgaacaccatgggggAcataagcagagacggagctg	12	6	15	8	2	0	1	0	0	0	1	0	5	0	3	1	3	4	2	1	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:2058449A>G	uc001qjx.1	-	8	1656	c.1576T>C	c.(1576-1578)TCC>CCC	p.S526P	DCP1B_uc010sdy.1_Missense_Mutation_p.S424P	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	526					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			ACCATGGGGGACATAAGCAGA	0.617													14	37					0	0	1	0	0		G	2058449	G	G	2058449	3	3	89	1	0	0	0	0	1	0	0	0	4302	275	10	3	285	3	DCP1B	12	2058449	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	768734	2058449	131793446	4421	58252											
CACNA1C	775	broad.mit.edu	37	chr12	2224703	2224703	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggcctgcatcagcattgtCgaatggaaatatcctttgtt	10	13	10	8	1	1	0	1	0	0	0	3	2	2	1	2	2	2	3	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:2224703C>T	uc009zdu.1	+	2	676	c.363C>T	c.(361-363)GTC>GTT	p.V121V	CACNA1C_uc009zdv.1_Silent_p.V121V|CACNA1C_uc001qkb.2_Silent_p.V121V|CACNA1C_uc001qkc.2_Silent_p.V121V|CACNA1C_uc001qke.2_Silent_p.V121V|CACNA1C_uc001qkf.2_Silent_p.V121V|CACNA1C_uc001qjz.2_Silent_p.V121V|CACNA1C_uc001qkd.2_Silent_p.V121V|CACNA1C_uc001qkg.2_Silent_p.V121V|CACNA1C_uc009zdw.1_Silent_p.V121V|CACNA1C_uc001qkh.2_Silent_p.V121V|CACNA1C_uc001qkl.2_Silent_p.V121V|CACNA1C_uc001qkn.2_Silent_p.V121V|CACNA1C_uc001qko.2_Silent_p.V121V|CACNA1C_uc001qkp.2_Silent_p.V121V|CACNA1C_uc001qkr.2_Silent_p.V121V|CACNA1C_uc001qku.2_Silent_p.V121V|CACNA1C_uc001qkq.2_Silent_p.V121V|CACNA1C_uc001qks.2_Silent_p.V121V|CACNA1C_uc001qkt.2_Silent_p.V121V	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	121	Cytoplasmic (Potential).|I.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	TCAGCATTGTCGAATGGAAAT	0.647													23	43					0	0	1	0	0		T	2224703	T	T	2224703	2	4	89	1	0	0	0	0	0	0	0	1	2543	871	31	1		1	CACNA1C	12	2224703	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	166254	2224703	131627192	4422	58253											
CACNA1C	775	broad.mit.edu	37	chr12	2602492	2602492	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactttgacaactttgccttCgccatgctcacggtgttcca	8	13	7	13	2	1	1	1	1	0	0	3	1	2	1	3	1	4	2	3	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:2602492C>T	uc009zdu.1	+	7	1366	c.1053C>T	c.(1051-1053)TTC>TTT	p.F351F	CACNA1C_uc009zdv.1_Silent_p.F348F|CACNA1C_uc001qkb.2_Silent_p.F351F|CACNA1C_uc001qkc.2_Silent_p.F351F|CACNA1C_uc001qke.2_Silent_p.F351F|CACNA1C_uc001qkf.2_Silent_p.F351F|CACNA1C_uc001qjz.2_Silent_p.F351F|CACNA1C_uc001qkd.2_Silent_p.F351F|CACNA1C_uc001qkg.2_Silent_p.F351F|CACNA1C_uc009zdw.1_Silent_p.F351F|CACNA1C_uc001qkh.2_Silent_p.F351F|CACNA1C_uc001qkl.2_Silent_p.F351F|CACNA1C_uc001qkn.2_Silent_p.F351F|CACNA1C_uc001qko.2_Silent_p.F351F|CACNA1C_uc001qkp.2_Silent_p.F351F|CACNA1C_uc001qkr.2_Silent_p.F351F|CACNA1C_uc001qku.2_Silent_p.F351F|CACNA1C_uc001qkq.2_Silent_p.F351F|CACNA1C_uc001qks.2_Silent_p.F351F|CACNA1C_uc001qkt.2_Silent_p.F351F|CACNA1C_uc001qka.1_5'UTR|CACNA1C_uc001qki.1_Silent_p.F87F|CACNA1C_uc001qkj.1_Silent_p.F87F|CACNA1C_uc001qkk.1_Silent_p.F87F|CACNA1C_uc001qkm.1_Silent_p.F87F	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	351	I.|Extracellular (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	ACTTTGCCTTCGCCATGCTCA	0.617													85	133					0	0	1	0	0		T	2602492	T	T	2602492	2	4	89	1	0	0	0	0	0	0	0	1	2543	883	31	1		1	CACNA1C	12	2602492	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	377789	2602492	131249403	4423	58254											
TEAD4	7004	broad.mit.edu	37	chr12	3149557	3149557	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accaacagagacacacaggaGaccttgctgtgcattgccta	13	7	9	12	0	0	2	0	0	0	2	0	4	0	2	3	1	4	2	3	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:3149557G>A	uc010sej.1	+	13	1492	c.1215G>A	c.(1213-1215)GAG>GAA	p.E405E	TEAD4_uc010sek.1_Silent_p.E362E|TEAD4_uc001qln.2_Silent_p.E277E	NM_003213	NP_003204	Q15561	TEAD4_HUMAN	TEA domain family member 4 isoform 1	406					hippo signaling cascade|muscle organ development|skeletal system development		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(42;0.211)		OV - Ovarian serous cystadenocarcinoma(31;0.000563)|COAD - Colon adenocarcinoma(12;0.0831)			ACACACAGGAGACCTTGCTGT	0.547													20	41					0	0	1	0	0		A	3149557	A	A	3149557	2	1	89	1	0	0	0	0	0	0	0	1	15766	933	33	4		4	TEAD4	12	3149557	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	547065	3149557	130702338	4424	58255											
DYRK4	8798	broad.mit.edu	37	chr12	4716511	4716511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgctgggtctgccgccaGccggcttcattcagacagcc	6	8	13	14	2	3	1	2	0	1	1	3	1	3	1	4	3	4	2	4	3	0	2	rs139849675		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:4716511G>A	uc001qmx.2	+	10	1133	c.973G>A	c.(973-975)GCC>ACC	p.A325T	DYRK4_uc009zeh.1_Missense_Mutation_p.A440T|DYRK4_uc001qmy.1_Missense_Mutation_p.A325T|DYRK4_uc001qmz.1_Missense_Mutation_p.A39T|DYRK4_uc001qna.1_Intron|DYRK4_uc010ser.1_Intron	NM_003845	NP_003836	Q9NR20	DYRK4_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	325	Protein kinase.					Golgi apparatus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)|skin(1)	3			Colorectal(7;0.103)			TCTGCCGCCAGCCGGCTTCAT	0.502													25	52					0	0	1	0	0		A	4716511	A	A	4716511	3	1	89	1	0	0	0	0	1	0	0	0	4864	971	34	2	1003	2	DYRK4	12	4716511	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1566954	4716511	129135384	4425	58256											
AKAP3	10566	broad.mit.edu	37	chr12	4737890	4737890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgattctccgggtttgaaccGaacatcttggaactctgctg	8	13	10	10	2	3	2	0	2	3	0	4	4	3	3	2	2	4	2	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:4737890G>A	uc001qnb.3	-	4	407	c.178C>T	c.(178-180)CGG>TGG	p.R60W		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	60					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						GGTTTGAACCGAACATCTTGG	0.502													27	44					0	0	1	0	0		A	4737890	A	A	4737890	3	1	89	1	0	0	0	0	1	0	0	0	452	1057	37	1	2391	1	AKAP3	12	4737890	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21379	4737890	129114005	4426	58257											
GALNT8	26290	broad.mit.edu	37	chr12	4855352	4855352	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggctgctaacaggcacttCctgggagagatcgggtctct	7	10	13	11	1	1	1	0	0	1	1	4	3	2	2	1	4	2	3	1	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:4855352C>A	uc001qne.1	+	6	1193	c.1101C>A	c.(1099-1101)TTC>TTA	p.F367L		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	367	Lumenal (Potential).|Catalytic subdomain B.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						ACAGGCACTTCCTGGGAGAGA	0.532													24	84					4.72057e-08	4.99044e-08	1	1	0		A	4855352	A	A	4855352	3	1	89	1	0	0	0	0	1	0	0	0	6234	854	30	5	1123	5	GALNT8	12	4855352	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	117462	4855352	128996543	4427	58258											
KCNA1	3736	broad.mit.edu	37	chr12	5021705	5021705	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgacaattggaggcaagatCgtgggctccttgtgtgccat	8	11	14	8	1	0	2	0	1	0	1	2	3	1	3	2	3	1	2	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:5021705C>T	uc001qnh.2	+	2	2266	c.1161C>T	c.(1159-1161)ATC>ATT	p.I387I		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	387	Helical; Name=Segment S6; (Potential).				synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	GAGGCAAGATCGTGGGCTCCT	0.527													127	279					0	0	1	0	0		T	5021705	T	T	5021705	2	4	89	1	0	0	0	0	0	0	0	1	8017	874	31	1		1	KCNA1	12	5021705	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	166353	5021705	128830190	4428	58259											
KCNA5	3741	broad.mit.edu	37	chr12	5154543	5154543	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtccgggtgttccgcatCttcaagctctcccgccactc	4	11	9	17	3	3	0	1	0	2	0	7	0	5	0	4	2	1	3	4	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:5154543C>A	uc001qni.2	+	1	1459	c.1230C>A	c.(1228-1230)ATC>ATA	p.I410I		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	410	Helical; Voltage-sensor; Name=Segment S4; (Potential).					Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						TGTTCCGCATCTTCAAGCTCT	0.642													13	33					2.94398e-08	3.12196e-08	1	1	0		A	5154543	A	A	5154543	2	1	89	1	0	0	0	0	0	0	0	1	8022	903	32	5		5	KCNA5	12	5154543	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	132838	5154543	128697352	4429	58260											
VWF	7450	broad.mit.edu	37	chr12	6058967	6058967	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttacctggcagtagtggatAtccacctctacttcagactt	9	13	7	12	0	2	1	1	0	1	1	3	2	3	2	3	2	2	2	3	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:6058967A>G	uc001qnn.1	-	51	8488	c.8238T>C	c.(8236-8238)GAT>GAC	p.D2746D	VWF_uc010set.1_3'UTR	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2746	CTCK.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	AGTAGTGGATATCCACCTCTA	0.527													33	76					0	0	1	0	0		G	6058967	G	G	6058967	2	3	89	1	0	0	0	0	0	0	0	1	17272	446	16	3		3	VWF	12	6058967	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	904424	6058967	127792928	4430	58261											
VWF	7450	broad.mit.edu	37	chr12	6132884	6132884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggtgtcgcagaagcaggCgcagtccccaatggactcac	11	6	12	12	2	1	1	1	0	0	1	3	2	2	2	2	3	1	3	2	3	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:6132884C>T	uc001qnn.1	-	25	3542	c.3292G>A	c.(3292-3294)GCC>ACC	p.A1098T	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1098					blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CAGAAGCAGGCGCAGTCCCCA	0.607													11	30					0	0	1	0	0		T	6132884	T	T	6132884	3	4	89	1	0	0	0	0	1	0	0	0	17272	768	27	1	5261	1	VWF	12	6132884	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	73917	6132884	127719011	4431	58262											
VWF	7450	broad.mit.edu	37	chr12	6181527	6181527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtctcgagagagggaggtgCcgggagggtagcgctttccg	7	7	19	8	4	1	1	0	0	1	1	3	5	2	3	2	4	2	2	2	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:6181527C>T	uc001qnn.1	-	9	1329	c.1079G>A	c.(1078-1080)GGC>GAC	p.G360D	VWF_uc010set.1_Missense_Mutation_p.G360D	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	360					blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	GAGGGAGGTGCCGGGAGGGTA	0.647													21	36					0	0	1	0	0		T	6181527	T	T	6181527	3	4	89	1	0	0	0	0	1	0	0	0	17272	739	26	2	7538	2	VWF	12	6181527	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	48643	6181527	127670368	4432	58263											
CD9	928	broad.mit.edu	37	chr12	6334636	6334636	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attggactatggctccgattCgactctcagaccaagagcat	11	10	9	11	2	1	2	1	0	1	2	4	5	2	3	2	2	1	2	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:6334636C>T	uc001qnp.1	+	3	555	c.111C>T	c.(109-111)TTC>TTT	p.F37F	CD9_uc010seu.1_Silent_p.F37F|CD9_uc010sev.1_Silent_p.F37F|CD9_uc001qnq.1_Silent_p.F37F	NM_001769	NP_001760	P21926	CD9_HUMAN	CD9 antigen	37	Extracellular (Potential).				cell adhesion|cellular component movement|fusion of sperm to egg plasma membrane|paranodal junction assembly|platelet activation|platelet degranulation	integral to plasma membrane|platelet alpha granule membrane				ovary(1)	1						GGCTCCGATTCGACTCTCAGA	0.488													26	67					0	0	1	0	0		T	6334636	T	T	6334636	2	4	89	1	0	0	0	0	0	0	0	1	3049	883	31	1		1	CD9	12	6334636	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	153109	6334636	127517259	4433	58264											
CHD4	1108	broad.mit.edu	37	chr12	6692411	6692411	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgacctgtttacggattCtttttcctttgcccagattt	6	19	7	9	1	1	2	0	1	1	1	2	3	2	3	3	1	2	2	3	1	1	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:6692411C>A	uc001qpo.2	-	26	4177	c.4013G>T	c.(4012-4014)AGA>ATA	p.R1338I	CHD4_uc001qpn.2_Missense_Mutation_p.R1331I|CHD4_uc001qpp.2_Missense_Mutation_p.R1335I|uc001qpq.1_3'UTR|SCARNA11_uc001qpr.1_5'Flank	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1338					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TTTACGGATTCTTTTTCCTTT	0.552													81	149					8.87156e-34	1.09139e-33	1	1	0		A	6692411	A	A	6692411	3	1	89	1	0	0	0	0	1	0	0	0	3330	913	32	5	1785	5	CHD4	12	6692411	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	357775	6692411	127159484	4434	58265											
ACRBP	84519	broad.mit.edu	37	chr12	6749577	6749577	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggagtcttgtgggaggtgtCgcattgttgccgctgcaggc	4	11	18	8	2	1	0	0	0	1	0	2	2	1	2	1	4	2	4	1	4	0	3	rs150031699		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:6749577C>T	uc001qpu.1	-	7	1237	c.1189G>A	c.(1189-1191)GAC>AAC	p.D397N	LPAR5_uc010sff.1_5'Flank|ACRBP_uc001qpt.1_5'Flank|ACRBP_uc010sfg.1_Missense_Mutation_p.D364N	NM_032489	NP_115878	Q8NEB7	ACRBP_HUMAN	proacrosin binding protein sp32 precursor	397						acrosomal vesicle|extracellular region				central_nervous_system(1)	1						TGGGAGGTGTCGCATTGTTGC	0.617													12	30					0	0	1	0	0		T	6749577	T	T	6749577	3	4	89	1	0	0	0	0	1	0	0	0	170	884	31	1	458	1	ACRBP	12	6749577	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	57166	6749577	127102318	4435	58266											
CD4	920	broad.mit.edu	37	chr12	6925323	6925323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaagctgacgggcagtggcGagctgtggtggcaggcggag	9	5	20	7	3	0	1	0	1	0	0	0	3	0	2	0	6	2	4	0	6	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:6925323G>A	uc001qqv.1	+	6	954	c.709G>A	c.(709-711)GAG>AAG	p.E237K	CD4_uc009zez.1_3'UTR|CD4_uc009zfa.1_RNA|CD4_uc009zfb.1_RNA|CD4_uc010sfj.1_5'UTR|CD4_uc009zfc.1_Missense_Mutation_p.E58K|CD4_uc010sfk.1_5'UTR|CD4_uc010sfl.1_5'UTR|CD4_uc010sfm.1_5'UTR	NM_000616	NP_000607	P01730	CD4_HUMAN	CD4 antigen precursor	237	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|entry into host cell|immune response|induction by virus of host cell-cell fusion|initiation of viral infection|maintenance of protein location in cell|positive regulation of interleukin-2 biosynthetic process|positive regulation of protein kinase activity|protein palmitoleylation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|T cell selection|transmembrane receptor protein tyrosine kinase signaling pathway	early endosome|endoplasmic reticulum membrane|integral to membrane|T cell receptor complex	coreceptor activity|extracellular matrix structural constituent|glycoprotein binding|MHC class II protein binding|protein homodimerization activity|protein kinase binding|transmembrane receptor activity|zinc ion binding				0		Myeloproliferative disorder(1001;0.0122)				GGGCAGTGGCGAGCTGTGGTG	0.537													49	86					0	0	1	0	0		A	6925323	A	A	6925323	3	1	89	1	0	0	0	0	1	0	0	0	3017	1059	37	1	727	1	CD4	12	6925323	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	175746	6925323	126926572	4436	58267											
C12orf57	113246	broad.mit.edu	37	chr12	7053657	7053657	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggtcctcgcggaggtgaTccaggcgttctccgccccgg	4	8	15	14	5	1	1	0	1	1	0	5	2	3	2	5	5	0	1	5	5	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:7053657T>C	uc001qrz.2	+	2	153	c.71T>C	c.(70-72)ATC>ACC	p.I24T	C12orf57_uc009zfj.1_Missense_Mutation_p.I48T|PTPN6_uc001qsa.1_5'Flank|PTPN6_uc010sfr.1_5'Flank	NM_138425	NP_612434	Q99622	C10_HUMAN	C10 protein	24											0						GCGGAGGTGATCCAGGCGTTC	0.652											OREG0021642	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	17					0	0	1	0	0		C	7053657	C	C	7053657	3	2	89	1	0	0	0	0	1	0	0	0	1704	1435	50	3	77	3	C12orf57	12	7053657	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	128334	7053657	126798238	4437	58268											
CLSTN3	9746	broad.mit.edu	37	chr12	7295598	7295598	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggctggactatagggatttCgagagcctgggcaaaggcat	10	8	16	7	1	0	1	0	0	0	1	1	4	0	3	1	5	1	3	1	5	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:7295598C>T	uc001qsr.2	+	11	1952	c.1674C>T	c.(1672-1674)TTC>TTT	p.F558F	CLSTN3_uc001qss.2_Silent_p.F570F	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	558	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						ATAGGGATTTCGAGAGCCTGG	0.612													19	33					0	0	1	0	0		T	7295598	T	T	7295598	2	4	89	1	0	0	0	0	0	0	0	1	3566	883	31	1		1	CLSTN3	12	7295598	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	241941	7295598	126556297	4438	58269											
ACSM4	341392	broad.mit.edu	37	chr12	7475867	7475867	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagaaaggccaagaaattaAaccaggttcaatggggaaag	18	6	11	6	0	2	2	2	0	0	2	2	3	2	3	2	4	1	1	2	4	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:7475867A>C	uc001qsx.1	+	8	1163	c.1163A>C	c.(1162-1164)AAA>ACA	p.K388T		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	388					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						CAAGAAATTAAACCAGGTTCA	0.383													8	11					0	0	1	0	0		C	7475867	C	C	7475867	3	2	89	1	0	0	0	0	1	0	0	0	186	14	1	5	1193	5	ACSM4	12	7475867	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	180269	7475867	126376028	4439	58270											
CD163L1	283316	broad.mit.edu	37	chr12	7556295	7556295	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgacgactgccaaagacgCtgaacggacatcctagctgc	12	5	10	14	4	0	2	0	1	0	1	1	5	1	3	2	1	4	2	2	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:7556295C>G	uc001qsy.2	-	6	1270	c.1244G>C	c.(1243-1245)AGC>ACC	p.S415T	CD163L1_uc010sge.1_Missense_Mutation_p.S425T	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	415	SRCR 4.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						GCCAAAGACGCTGAACGGACA	0.463													62	133					0	0	1	0	0		G	7556295	G	G	7556295	3	3	89	1	0	0	0	0	1	0	0	0	2971	797	28	5	3173	5	CD163L1	12	7556295	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	80428	7556295	126295600	4440	58271											
SLC2A14	144195	broad.mit.edu	37	chr12	7972091	7972091	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttacctttaataacaaaGaaacagtcatgagcgtggaa	17	9	7	8	1	1	2	1	1	0	1	1	3	1	3	1	1	4	0	1	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:7972091G>T	uc001qtk.2	-	14	1920	c.1127C>A	c.(1126-1128)TCT>TAT	p.S376Y	SLC2A14_uc001qtl.2_Missense_Mutation_p.S353Y|SLC2A14_uc001qtm.2_Missense_Mutation_p.S353Y|SLC2A14_uc010sgg.1_Missense_Mutation_p.S267Y|SLC2A14_uc001qtn.2_Missense_Mutation_p.S376Y|SLC2A14_uc001qto.2_Missense_Mutation_p.S11Y|SLC2A14_uc010sgh.1_Missense_Mutation_p.S391Y	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14	376	Helical; Name=9; (Potential).			SL -> PC (in Ref. 2; AAQ63763).	cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		TAATAACAAAGAAACAGTCAT	0.448													42	80					1.00776e-21	1.1968e-21	1	1	0		T	7972091	T	T	7972091	3	4	89	1	0	0	0	0	1	0	0	0	14568	942	33	5	447	5	SLC2A14	12	7972091	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	415796	7972091	125879804	4441	58272											
SLC2A3	6515	broad.mit.edu	37	chr12	8075568	8075568	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccaatttcaaagaaggctAcaaagaccaagatagcccca	17	6	7	11	0	1	3	1	0	0	3	2	3	2	3	4	1	2	1	4	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:8075568A>G	uc001qtr.2	-	9	1383	c.1121T>C	c.(1120-1122)GTA>GCA	p.V374A		NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	374	Helical; Name=10; (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		AAAGAAGGCTACAAAGACCAA	0.493													16	33					0	0	1	0	0		G	8075568	G	G	8075568	3	3	89	1	0	0	0	0	1	0	0	0	14570	391	14	3	377	3	SLC2A3	12	8075568	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	103477	8075568	125776327	4442	58273											
FOXJ2	55810	broad.mit.edu	37	chr12	8200530	8200530	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaacaactactacatgtaTcagcagcagcagccaccgcc	13	6	7	15	2	1	0	1	0	0	0	2	1	1	0	3	0	8	4	3	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:8200530T>C	uc001qtu.2	+	7	1955	c.870T>C	c.(868-870)TAT>TAC	p.Y290Y	FOXJ2_uc001qtt.1_Silent_p.Y290Y	NM_018416	NP_060886	Q9P0K8	FOXJ2_HUMAN	forkhead box J2	290					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	nucleolus|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				Kidney(36;0.0944)		ACTACATGTATcagcagcagc	0.428													19	28					0	0	1	0	0		C	8200530	C	C	8200530	2	2	89	1	0	0	0	0	0	0	0	1	6026	1442	50	3		3	FOXJ2	12	8200530	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	124962	8200530	125651365	4443	58274											
C3AR1	719	broad.mit.edu	37	chr12	8211843	8211843	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattgtaataatcctggaaAccttgtggtagctcagactc	13	12	8	8	0	1	1	1	0	0	1	3	2	2	2	2	2	2	3	2	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:8211843A>G	uc001qtv.1	-	2	1031	c.939T>C	c.(937-939)GGT>GGC	p.G313G		NM_004054	NP_004045	Q16581	C3AR_HUMAN	complement component 3a receptor 1	313	Extracellular (Potential).				blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)		AATCCTGGAAACCTTGTGGTA	0.468													31	85					0	0	1	0	0		G	8211843	G	G	8211843	2	3	89	1	0	0	0	0	0	0	0	1	2208	30	2	3		3	C3AR1	12	8211843	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	11313	8211843	125640052	4444	58275											
NECAP1	25977	broad.mit.edu	37	chr12	8248234	8248234	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattctcctgctcctgtcacGacaccagcaccaactccagt	9	9	6	17	1	2	0	1	0	1	0	5	2	4	0	5	0	3	2	5	0	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:8248234G>A	uc001qtx.2	+	7	792	c.714G>A	c.(712-714)ACG>ACA	p.T238T	NECAP1_uc001qty.2_Silent_p.T96T	NM_015509	NP_056324	Q8NC96	NECP1_HUMAN	NECAP endocytosis associated 1	238					endocytosis|protein transport	clathrin coated vesicle membrane|plasma membrane				ovary(1)	1				Kidney(36;0.0915)		CTCCTGTCACGACACCAGCAC	0.388													41	82					0	0	1	0	0		A	8248234	A	A	8248234	2	1	89	1	0	0	0	0	0	0	0	1	10326	1045	37	1		1	NECAP1	12	8248234	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	36391	8248234	125603661	4445	58276											
FAM90A1	55138	broad.mit.edu	37	chr12	8374624	8374624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgtccgttttccagtctccGaaagagcactctgagaggct	8	10	11	12	3	2	2	0	1	2	2	5	4	4	2	3	1	1	3	3	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:8374624G>A	uc001qui.2	-	7	1748	c.1189C>T	c.(1189-1191)CGG>TGG	p.R397W	FAM90A1_uc001quh.2_Missense_Mutation_p.R397W	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	397							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		TCCAGTCTCCGAAAGAGCACT	0.632													13	39					0	0	1	0	0		A	8374624	A	A	8374624	3	1	89	1	0	0	0	0	1	0	0	0	5664	1057	37	1	209	1	FAM90A1	12	8374624	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	126390	8374624	125477271	4446	58277											
CLEC6A	93978	broad.mit.edu	37	chr12	8628798	8628798	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacaaggtaataataattgGcaatggattgataagacacc	17	9	8	7	0	0	2	0	1	0	1	0	3	0	3	2	3	0	2	2	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:8628798G>A	uc001qum.1	+	5	564	c.447G>A	c.(445-447)TGG>TGA	p.W149*		NM_001007033	NP_001007034	Q6EIG7	CLC6A_HUMAN	dectin-2	149	Extracellular (Potential).|C-type lectin.				defense response to fungus|innate immune response|positive regulation of cytokine secretion|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	sugar binding			breast(1)	1	Lung SC(5;0.184)					ataataattggcaatggattg	0.119													33	79					0	0	1	0	0		A	8628798	A	A	8628798	4	1	89	1	0	0	0	0	0	1	0	0	3523	1212	42	2	465	2	CLEC6A	12	8628798	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	254174	8628798	125223097	4447	58278											
CLEC4E	26253	broad.mit.edu	37	chr12	8691820	8691820	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactattatacctgatccAtaattgtagcaggagagctc	12	11	10	8	0	0	2	0	1	0	1	2	4	1	3	2	2	3	3	2	2	5	6	rs150324510		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:8691820A>G	uc001quo.1	-	3	378	c.213T>C	c.(211-213)TAT>TAC	p.Y71Y		NM_014358	NP_055173	Q9ULY5	CLC4E_HUMAN	C-type lectin domain family 4, member E	71	Extracellular (Potential).					integral to membrane	sugar binding			central_nervous_system(1)	1	Lung SC(5;0.184)					TACCTGATCCATAATTGTAGC	0.383													50	89					0	0	1	0	0		G	8691820	G	G	8691820	2	3	89	1	0	0	0	0	0	0	0	1	3518	224	8	3		3	CLEC4E	12	8691820	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	63022	8691820	125160075	4448	58279											
A2ML1	144568	broad.mit.edu	37	chr12	9008114	9008114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctcacaggaaaggtggCatctgaatctgtctccctgg	9	10	11	11	0	4	1	1	1	4	0	6	2	4	2	1	4	0	2	1	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:9008114C>T	uc001quz.3	+	23	2872	c.2774C>T	c.(2773-2775)GCA>GTA	p.A925V	A2ML1_uc001qva.1_Missense_Mutation_p.A505V|A2ML1_uc010sgm.1_Missense_Mutation_p.A425V	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	769						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						GGAAAGGTGGCATCTGAATCT	0.443													28	65					0	0	1	0	0		T	9008114	T	T	9008114	3	4	89	1	0	0	0	0	1	0	0	0	5	710	25	2	2864	2	A2ML1	12	9008114	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	316294	9008114	124843781	4449	58280											
A2M	2	broad.mit.edu	37	chr12	9243800	9243800	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggaaagagatccttacccgGatgcatttgggaaggtagtt	12	10	13	6	1	0	1	0	0	0	1	1	5	1	4	2	4	2	3	2	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:9243800G>A	uc001qvk.1	-	19	2579	c.2466C>T	c.(2464-2466)ATC>ATT	p.I822I	A2M_uc009zgk.1_Silent_p.I672I	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	822					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	TCCTTACCCGGATGCATTTGG	0.428													31	65					0	0	1	0	0		A	9243800	A	A	9243800	2	1	89	1	0	0	0	0	0	0	0	1	4	1164	41	4		4	A2M	12	9243800	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	235686	9243800	124608095	4450	58281											
A2M	2	broad.mit.edu	37	chr12	9261990	9261990	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactgttacttgtacttcaaActtgggaagaactgttgatt	11	15	8	7	0	1	2	1	1	0	1	1	3	1	3	0	1	4	3	0	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:9261990A>G	uc001qvk.1	-	7	798	c.685T>C	c.(685-687)TTT>CTT	p.F229L	A2M_uc009zgk.1_Missense_Mutation_p.F79L	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	229					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	TGTACTTCAAACTTGGGAAGA	0.373													8	23					0	0	1	0	0		G	9261990	G	G	9261990	3	3	89	1	0	0	0	0	1	0	0	0	4	43	2	3	3859	3	A2M	12	9261990	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	18190	9261990	124589905	4451	58282											
PZP	5858	broad.mit.edu	37	chr12	9303273	9303273	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcatagactttaacaattgCtggcttcaagtctcctactg	11	14	6	10	0	3	1	2	0	1	1	4	1	3	1	1	1	3	2	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:9303273C>A	uc001qvl.2	-	34	4380	c.4351G>T	c.(4351-4353)GCA>TCA	p.A1451S	PZP_uc009zgl.2_Missense_Mutation_p.A1237S	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						TTAACAATTGCTGGCTTCAAG	0.398													31	53					3.73148e-12	4.12027e-12	1	1	0		A	9303273	A	A	9303273	3	1	89	1	0	0	0	0	1	0	0	0	12894	797	28	5	109	5	PZP	12	9303273	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	41283	9303273	124548622	4452	58283											
PZP	5858	broad.mit.edu	37	chr12	9318693	9318693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtctcaggaaaatagcttCgcaccgtttcagggactggc	11	9	11	10	2	2	0	2	0	1	0	4	2	2	2	1	3	1	3	1	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:9318693C>T	uc001qvl.2	-	18	2242	c.2213G>A	c.(2212-2214)CGA>CAA	p.R738Q	PZP_uc009zgl.2_Missense_Mutation_p.R607Q|PZP_uc010sgo.1_RNA|PZP_uc009zgm.1_Missense_Mutation_p.R70Q	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						AAAATAGCTTCGCACCGTTTC	0.448													51	128					0	0	1	0	0		T	9318693	T	T	9318693	3	4	89	1	0	0	0	0	1	0	0	0	12894	884	31	1	2311	1	PZP	12	9318693	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	15420	9318693	124533202	4453	58284											
CLEC12A	160364	broad.mit.edu	37	chr12	10131996	10131996	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacaaaacatcagtgaagaGctccagagaaatatttctct	16	10	6	9	0	2	3	1	1	1	2	4	4	3	3	1	0	3	1	1	0	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:10131996G>A	uc001qwr.3	+	3	440	c.252G>A	c.(250-252)GAG>GAA	p.E84E	CLEC12A_uc001qwq.2_Silent_p.E94E|CLEC12A_uc001qws.3_Silent_p.E51E|CLEC12A_uc001qwt.2_Silent_p.E13E	NM_138337	NP_612210	Q5QGZ9	CL12A_HUMAN	myeloid inhibitory C-type lectin-like receptor	84	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity|sugar binding			skin(1)	1						TCAGTGAAGAGCTCCAGAGAA	0.328													9	28					0	0	1	0	0		A	10131996	A	A	10131996	2	1	89	1	0	0	0	0	0	0	0	1	3500	962	34	2		2	CLEC12A	12	10131996	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	813303	10131996	123719899	4454	58285											
CLEC1B	51266	broad.mit.edu	37	chr12	10145803	10145803	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacacattaaataatgtttgTtctcacagaaggtagggtgc	13	12	9	7	0	1	1	1	0	1	1	2	1	1	1	0	2	1	3	0	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:10145803T>C	uc001qwu.2	-	6	829	c.629A>G	c.(628-630)AAC>AGC	p.N210S	CLEC1B_uc009zhd.2_Missense_Mutation_p.N177S	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform	210	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0						ATAATGTTTGTTCTCACAGAA	0.393													78	142					0	0	1	0	0		C	10145803	C	C	10145803	3	2	89	1	0	0	0	0	1	0	0	0	3509	1725	60	3	64	3	CLEC1B	12	10145803	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	13807	10145803	123706092	4455	58286											
CLEC1B	51266	broad.mit.edu	37	chr12	10145850	10145850	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccattatgaaaataagcacaAttcatatttccttttccatc	14	15	2	10	0	1	1	1	1	0	0	4	1	3	1	3	0	1	1	3	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:10145850A>C	uc001qwu.2	-	6	782	c.582T>G	c.(580-582)AAT>AAG	p.N194K	CLEC1B_uc009zhd.2_Missense_Mutation_p.N161K	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform	194	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0						AATAAGCACAATTCATATTTC	0.373													37	86					0	0	1	0	0		C	10145850	C	C	10145850	3	2	89	1	0	0	0	0	1	0	0	0	3509	98	4	5	111	5	CLEC1B	12	10145850	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	47	10145850	123706045	4456	58287											
CLEC1A	51267	broad.mit.edu	37	chr12	10233922	10233922	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatattctggacttgaagaGattgcaactcttgggacgta	11	14	10	6	1	2	2	0	1	2	1	2	5	2	4	0	2	2	2	0	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:10233922G>T	uc001qxb.2	-	3	389	c.305C>A	c.(304-306)TCT>TAT	p.S102Y	CLEC1A_uc009zhf.2_Missense_Mutation_p.S14Y|CLEC1A_uc001qxc.2_Missense_Mutation_p.S14Y|CLEC1A_uc001qxd.2_Missense_Mutation_p.S59Y|CLEC1A_uc010sgx.1_Intron	NM_016511	NP_057595	Q8NC01	CLC1A_HUMAN	C-type lectin-like receptor-1	102	Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane|intracellular	sugar binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2						GACTTGAAGAGATTGCAACTC	0.423													35	77					5.8336e-16	6.67442e-16	1	1	0		T	10233922	T	T	10233922	3	4	89	1	0	0	0	0	1	0	0	0	3508	942	33	5	553	5	CLEC1A	12	10233922	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	88072	10233922	123617973	4457	58288											
CLEC7A	64581	broad.mit.edu	37	chr12	10282621	10282621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctggtattgctttgagagtCgaagtgtaattgagtatatc	10	15	11	5	1	0	2	0	2	0	1	2	4	0	2	1	1	1	4	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:10282621C>T	uc001qxg.2	-	1	248	c.61G>A	c.(61-63)GAC>AAC	p.D21N	CLEC7A_uc001qxe.3_RNA|CLEC7A_uc001qxf.2_Missense_Mutation_p.D21N|CLEC7A_uc001qxh.2_Missense_Mutation_p.D21N|CLEC7A_uc001qxi.2_Missense_Mutation_p.D21N|CLEC7A_uc001qxj.2_Missense_Mutation_p.D21N|CLEC7A_uc009zhg.1_RNA|CLEC7A_uc001qxk.1_RNA|CLEC7A_uc001qxl.1_Missense_Mutation_p.D21N|CLEC7A_uc010sgy.1_Missense_Mutation_p.D21N|CLEC7A_uc001qxm.1_Missense_Mutation_p.D21N|CLEC7A_uc001qxn.2_Missense_Mutation_p.D21N	NM_197947	NP_922938	Q9BXN2	CLC7A_HUMAN	dendritic cell-associated C-type lectin 1	21	Cytoplasmic (Potential).				carbohydrate mediated signaling|defense response to protozoan|inflammatory response|innate immune response|phagocytosis, recognition|T cell activation	cytoplasm|integral to membrane	metal ion binding|MHC protein binding|sugar binding			central_nervous_system(1)	1						CTTTGAGAGTCGAAGTGTAAT	0.358													8	35					0	0	1	0	0		T	10282621	T	T	10282621	3	4	89	1	0	0	0	0	1	0	0	0	3524	884	31	1	742	1	CLEC7A	12	10282621	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	48699	10282621	123569274	4458	58289											
C12orf59	120939	broad.mit.edu	37	chr12	10339104	10339104	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtctgagccgccagcaaAatggggaagatgggggccca	10	5	16	10	1	1	2	0	1	1	1	1	3	1	3	3	4	2	2	3	4	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:10339104A>C	uc001qxr.2	+	4	840	c.223A>C	c.(223-225)AAT>CAT	p.N75H	C12orf59_uc001qxq.2_Missense_Mutation_p.N55H			Q4KMG9	CL059_HUMAN	RecName: Full=Uncharacterized protein C12orf59; Flags: Precursor;	75						integral to membrane				ovary(1)	1						CCGCCAGCAAAATGGGGAAGA	0.567													34	60					0	0	1	0	0		C	10339104	C	C	10339104	3	2	89	1	0	0	0	0	1	0	0	0	1705	14	1	5	173	5	C12orf59	12	10339104	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	56483	10339104	123512791	4459	58290											
GABARAPL1	23710	broad.mit.edu	37	chr12	10374410	10374410	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatgaggaagactattttCtgtatgtggcctacagtgat	11	14	10	6	0	2	3	1	2	1	1	2	4	2	4	1	2	1	1	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:10374410C>A	uc001qxs.2	+	4	553	c.313C>A	c.(313-315)CTG>ATG	p.L105M	GABARAPL1_uc001qxt.2_RNA|GABARAPL1_uc001qxu.2_RNA	NM_031412	NP_113600	Q9H0R8	GBRL1_HUMAN	GABA(A) receptor-associated protein like 1	105						autophagic vacuole|endoplasmic reticulum|Golgi apparatus|membrane|microtubule	beta-tubulin binding|GABA receptor binding				0						AGACTATTTTCTGTATGTGGC	0.368													20	43					1.96895e-08	2.09068e-08	1	1	0		A	10374410	A	A	10374410	3	1	89	1	0	0	0	0	1	0	0	0	6167	912	32	5	327	5	GABARAPL1	12	10374410	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	35306	10374410	123477485	4460	58291											
TAS2R8	50836	broad.mit.edu	37	chr12	10958754	10958754	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtgacccaaggggtagaGaattgctgcaatctctccaa	12	9	11	9	0	1	3	0	2	1	1	3	4	2	3	2	2	2	3	2	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:10958754G>T	uc010shh.1	-	1	826	c.826C>A	c.(826-828)CTC>ATC	p.L276I		NM_023918	NP_076407	Q9NYW2	TA2R8_HUMAN	taste receptor, type 2, member 8	276	Helical; Name=7; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			ovary(2)	2						AAGGGGTAGAGAATTGCTGCA	0.333													20	46					4.96729e-08	5.24652e-08	1	1	0		T	10958754	T	T	10958754	3	4	89	1	0	0	0	0	1	0	0	0	15612	942	33	5	106	5	TAS2R8	12	10958754	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	584344	10958754	122893141	4461	58292											
PRR4	11272	broad.mit.edu	37	chr12	10999769	10999769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggggtagagagagttgacGgtgtcctcgtcggggtggtc	5	10	19	7	4	0	3	0	1	0	2	5	4	1	3	1	6	0	2	1	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:10999769G>A	uc001qyz.3	-	3	337	c.298C>T	c.(298-300)CGT>TGT	p.R100C	PRR4_uc009zhp.2_Missense_Mutation_p.R113C|PRH1_uc001qzb.3_RNA|PRR4_uc001qza.3_Intron	NM_007244	NP_009175	Q16378	PROL4_HUMAN	proline rich 4 (lacrimal) isoform 2	100					visual perception	extracellular space					0						GAGAGTTGACGGTGTCCTCGT	0.557													70	142					0	0	1	0	0		A	10999769	A	A	10999769	3	1	89	1	0	0	0	0	1	0	0	0	12621	1116	39	1	110	1	PRR4	12	10999769	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	41015	10999769	122852126	4462	58293											
PRB2	653247	broad.mit.edu	37	chr12	11546911	11546911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggggtgctccttgtggatttCctggagaacaaagagagaag	11	9	15	6	0	0	3	0	0	0	3	2	6	2	4	2	4	2	1	2	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:11546911C>T	uc010shk.1	-	3	136	c.101G>A	c.(100-102)GGA>GAA	p.G34E		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			TTGTGGATTTCCTGGAGAACA	0.483													51	98					0	0	1	0	0		T	11546911	T	T	11546911	3	4	89	1	0	0	0	0	1	0	0	0	12465	869	30	4	1153	4	PRB2	12	11546911	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	547142	11546911	122304984	4463	58294											
DUSP16	80824	broad.mit.edu	37	chr12	12630251	12630251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcctccacgctcccacttCgatgcagtggagataaaagg	10	9	10	12	2	0	1	0	0	0	1	4	3	3	1	3	2	1	2	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:12630251C>T	uc001rao.1	-	7	2146	c.1514G>A	c.(1513-1515)CGA>CAA	p.R505Q	DUSP16_uc001ram.1_5'Flank|DUSP16_uc001ran.1_Missense_Mutation_p.R357Q	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	505					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		GCTCCCACTTCGATGCAGTGG	0.592													28	75					0	0	1	0	0		T	12630251	T	T	12630251	3	4	89	1	0	0	0	0	1	0	0	0	4822	884	31	1	487	1	DUSP16	12	12630251	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1083340	12630251	121221644	4464	58295											
GSG1	83445	broad.mit.edu	37	chr12	13237933	13237933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgcagctcggagtagaagtCgactccctcagagacagagt	11	6	12	12	3	1	3	1	0	0	3	4	6	2	4	2	1	1	3	2	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:13237933C>T	uc001rbn.2	-	7	1164	c.991G>A	c.(991-993)GAC>AAC	p.D331N	GSG1_uc001rbj.2_Missense_Mutation_p.D295N|GSG1_uc001rbk.2_3'UTR|GSG1_uc001rbl.2_Missense_Mutation_p.D267N|GSG1_uc001rbm.2_Missense_Mutation_p.D244N|GSG1_uc001rbo.2_3'UTR|GSG1_uc001rbp.2_Missense_Mutation_p.D308N|GSG1_uc001rbq.1_3'UTR	NM_001080555	NP_001074024	Q2KHT4	GSG1_HUMAN	germ cell associated 1 isoform 4	318						endoplasmic reticulum membrane|integral to membrane					0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		GAGTAGAAGTCGACTCCCTCA	0.547													2	1					0	0	1	0	0		T	13237933	T	T	13237933	3	4	89	1	0	0	0	0	1	0	0	0	6836	884	31	1	101	1	GSG1	12	13237933	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	607682	13237933	120613962	4465	58296											
ATF7IP	55729	broad.mit.edu	37	chr12	14577784	14577784	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatagaaccaagtagcaataAagatgatgattttcttgaaa	18	12	7	4	0	1	5	0	3	1	2	1	5	1	5	1	0	2	2	1	0	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:14577784A>C	uc001rbw.2	+	2	1093	c.935A>C	c.(934-936)AAA>ACA	p.K312T	ATF7IP_uc010shs.1_Missense_Mutation_p.K312T|ATF7IP_uc001rbu.2_Missense_Mutation_p.K312T|ATF7IP_uc001rbv.1_Missense_Mutation_p.K312T|ATF7IP_uc001rbx.2_Missense_Mutation_p.K312T|ATF7IP_uc010sht.1_Missense_Mutation_p.K312T|ATF7IP_uc001rby.3_Missense_Mutation_p.K312T|ATF7IP_uc001rbz.1_Missense_Mutation_p.K312T|ATF7IP_uc001rca.2_Missense_Mutation_p.K312T|ATF7IP_uc001rcb.2_5'Flank	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	312					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						AGTAGCAATAAAGATGATGAT	0.323													39	58					0	0	1	0	0		C	14577784	C	C	14577784	3	2	89	1	0	0	0	0	1	0	0	0	1088	14	1	5	937	5	ATF7IP	12	14577784	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1339851	14577784	119274111	4466	58297											
C12orf60	144608	broad.mit.edu	37	chr12	14976593	14976593	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatttctgtgtttaagaaaGccagtgacaagtagggatgc	13	12	11	5	0	1	2	0	1	1	1	1	3	1	3	1	1	2	2	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:14976593G>T	uc001rcj.3	+	2	928	c.724G>T	c.(724-726)GCC>TCC	p.A242S		NM_175874	NP_787070	Q5U649	CL060_HUMAN	hypothetical protein LOC144608	242										ovary(1)|central_nervous_system(1)	2						GTTTAAGAAAGCCAGTGACAA	0.348													8	40					2.17888e-05	2.24492e-05	1	1	0		T	14976593	T	T	14976593	3	4	89	1	0	0	0	0	1	0	0	0	1706	971	34	5	726	5	C12orf60	12	14976593	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	398809	14976593	118875302	4467	58298											
ART4	420	broad.mit.edu	37	chr12	14995923	14995923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctcagaaccctctgtgggtCtctgcaggccagagaggagc	8	7	13	13	0	3	2	1	0	2	2	4	4	3	3	3	3	3	1	3	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:14995923C>T	uc001rcl.1	-	1	491	c.125G>A	c.(124-126)AGA>AAA	p.R42K	ART4_uc009zid.1_RNA|ART4_uc009zie.1_RNA|ART4_uc001rcm.1_Missense_Mutation_p.R42K	NM_021071	NP_066549	Q93070	NAR4_HUMAN	ADP-ribosyltransferase 4 precursor	42					arginine metabolic process|protein ADP-ribosylation	anchored to membrane|plasma membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity				0						CTCTGTGGGTCTCTGCAGGCC	0.537													11	14					0	0	1	0	0		T	14995923	T	T	14995923	3	4	89	1	0	0	0	0	1	0	0	0	1000	913	32	4	831	4	ART4	12	14995923	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19330	14995923	118855972	4468	58299											
ERP27	121506	broad.mit.edu	37	chr12	15073929	15073929	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaaacggctcaatttggtGgcatcaatgctttcaatgtc	11	13	9	8	1	3	1	3	1	0	0	4	1	3	1	0	3	2	3	0	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:15073929G>A	uc001rco.2	-	4	408	c.387C>T	c.(385-387)GCC>GCT	p.A129A		NM_152321	NP_689534	Q96DN0	ERP27_HUMAN	endoplasmic reticulum protein 27 kDa precursor	129	Thioredoxin.					endoplasmic reticulum lumen				breast(1)	1						TCAATTTGGTGGCATCAATGC	0.398													33	63					0	0	1	0	0		A	15073929	A	A	15073929	2	1	89	1	0	0	0	0	0	0	0	1	5249	1335	47	4		4	ERP27	12	15073929	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	78006	15073929	118777966	4469	58300											
ERP27	121506	broad.mit.edu	37	chr12	15087795	15087795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccacccaacttaccaggcGaaagaggcagatggtgttcc	12	6	10	13	1	0	2	0	0	0	2	1	3	1	2	4	3	2	2	4	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:15087795G>A	uc001rco.2	-	3	349	c.328C>T	c.(328-330)CGC>TGC	p.R110C		NM_152321	NP_689534	Q96DN0	ERP27_HUMAN	endoplasmic reticulum protein 27 kDa precursor	110	Thioredoxin.					endoplasmic reticulum lumen				breast(1)	1						CTTACCAGGCGAAAGAGGCAG	0.468													32	67					0	0	1	0	0		A	15087795	A	A	15087795	3	1	89	1	0	0	0	0	1	0	0	0	5249	1058	37	1	513	1	ERP27	12	15087795	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13866	15087795	118764100	4470	58301											
ARHGDIB	397	broad.mit.edu	37	chr12	15103555	15103555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttcctgcagctctttcaggGacttctgtggtggaggctta	5	15	12	9	0	3	0	1	0	2	0	4	2	4	2	1	4	2	3	1	4	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:15103555G>A	uc001rcq.1	-	2	196	c.92C>T	c.(91-93)TCC>TTC	p.S31F	ARHGDIB_uc001rcp.1_5'Flank	NM_001175	NP_001166	P52566	GDIR2_HUMAN	Rho GDP dissociation inhibitor (GDI) beta	31					actin cytoskeleton organization|cellular component movement|immune response|multicellular organismal development|negative regulation of cell adhesion|regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytoplasmic membrane-bounded vesicle|cytoskeleton|cytosol	GTPase activator activity|Rho GDP-dissociation inhibitor activity				0						CTCTTTCAGGGACTTCTGTGG	0.463													37	89					0	0	1	0	0		A	15103555	A	A	15103555	3	1	89	1	0	0	0	0	1	0	0	0	891	1174	41	4	533	4	ARHGDIB	12	15103555	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	15760	15103555	118748340	4471	58302											
EPS8	2059	broad.mit.edu	37	chr12	15793747	15793747	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagtctccacttgcatttcGaactttccaccattgcttcc	8	14	5	14	1	1	1	0	0	1	1	5	2	3	1	4	0	3	2	4	0	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:15793747G>A	uc009zif.2	-	17	1805	c.1711C>T	c.(1711-1713)CGA>TGA	p.R571*	EPS8_uc001rdb.2_Nonsense_Mutation_p.R571*|EPS8_uc009zig.2_Nonsense_Mutation_p.R311*|EPS8_uc010shv.1_Nonsense_Mutation_p.R311*	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	571	SH3.				cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		CTTGCATTTCGAACTTTCCAC	0.393													42	73					0	0	1	0	0		A	15793747	A	A	15793747	4	1	89	1	0	0	0	0	0	1	0	0	5202	1066	37	1	777	1	EPS8	12	15793747	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	690192	15793747	118058148	4472	58303											
PIK3C2G	5288	broad.mit.edu	37	chr12	18552625	18552625	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaaaagatatttatggtTttatcgcttctactgcaata	15	15	6	5	1	1	2	0	0	1	2	2	2	1	2	0	1	2	3	0	1	9	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:18552625T>G	uc001rdt.2	+	15	2152	c.2036T>G	c.(2035-2037)TTT>TGT	p.F679C	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.F720C|PIK3C2G_uc010sic.1_Missense_Mutation_p.F498C	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	679					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				TATTTATGGTTTTATCGCTTC	0.373													27	57					0	0	1	0	0		G	18552625	G	G	18552625	3	3	89	1	0	0	0	0	1	0	0	0	11930	1841	64	5	2090	5	PIK3C2G	12	18552625	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2758878	18552625	115299270	4473	58304											
SLCO1B3	28234	broad.mit.edu	37	chr12	21033812	21033812	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taattcagtggcatctcatgTagatgtaccactttcttatt	10	17	6	8	0	3	1	2	0	2	1	4	1	3	1	1	1	1	3	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:21033812T>C	uc001rek.2	+	11	1481	c.1355T>C	c.(1354-1356)GTA>GCA	p.V452A	SLCO1B3_uc001rel.2_Missense_Mutation_p.V452A|SLCO1B3_uc010sil.1_Missense_Mutation_p.V452A|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Missense_Mutation_p.V277A	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	452	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					GCATCTCATGTAGATGTACCA	0.274													40	82					0	0	1	0	0		C	21033812	C	C	21033812	3	2	89	1	0	0	0	0	1	0	0	0	14749	1638	57	3	1393	3	SLCO1B3	12	21033812	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2481187	21033812	112818083	4474	58305											
SLCO1B1	10599	broad.mit.edu	37	chr12	21355460	21355460	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatttttgcaagtggaatgTttttaggaggatatatcatt	11	18	9	3	0	1	0	1	0	0	0	1	3	1	3	0	3	1	2	0	3	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:21355460T>C	uc001req.3	+	10	1275	c.1171T>C	c.(1171-1173)TTT>CTT	p.F391L		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	391	Helical; Name=8; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	AAGTGGAATGTTTTTAGGAGG	0.294													16	33					0	0	1	0	0		C	21355460	C	C	21355460	3	2	89	1	0	0	0	0	1	0	0	0	14748	1725	60	3	1205	3	SLCO1B1	12	21355460	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	321648	21355460	112496435	4475	58306											
SLCO1B1	10599	broad.mit.edu	37	chr12	21392082	21392082	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttaaataaaaataaacatTttgtcccttctgctggggca	13	13	6	9	0	1	0	0	0	1	0	2	0	2	0	2	2	2	2	2	2	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:21392082T>G	uc001req.3	+	15	2139	c.2035T>G	c.(2035-2037)TTT>GTT	p.F679V		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	679	Cytoplasmic (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	AAATAAACATTTTGTCCCTTC	0.358													41	82					0	0	1	0	0		G	21392082	G	G	21392082	3	3	89	1	0	0	0	0	1	0	0	0	14748	1841	64	5	2089	5	SLCO1B1	12	21392082	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	36622	21392082	112459813	4476	58307											
PYROXD1	79912	broad.mit.edu	37	chr12	21602535	21602535	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcaatcagcacgtatataaGaaactctgtctgtgtgctgg	11	11	11	8	1	3	1	1	0	2	1	3	1	3	1	0	2	3	4	0	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:21602535G>A	uc001rew.2	+	4	451	c.324G>A	c.(322-324)AAG>AAA	p.K108K	PYROXD1_uc009ziq.2_5'UTR|PYROXD1_uc009zir.2_Intron	NM_024854	NP_079130	Q8WU10	PYRD1_HUMAN	pyridine nucleotide-disulphide oxidoreductase	108							oxidoreductase activity			ovary(1)	1						ACGTATATAAGAAACtctgtc	0.264													15	18					0	0	1	0	0		A	21602535	A	A	21602535	2	1	89	1	0	0	0	0	0	0	0	1	12891	933	33	4		4	PYROXD1	12	21602535	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	210453	21602535	112249360	4477	58308											
LDHB	3945	broad.mit.edu	37	chr12	21807557	21807557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttattgtttggaactgttgCctcttcttccgcaactggtg	5	17	9	10	1	2	0	0	0	2	0	3	1	3	1	2	2	3	3	2	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:21807557C>T	uc001rfc.2	-	1	67	c.49G>A	c.(49-51)GCA>ACA	p.A17T	LDHB_uc001rfd.2_Missense_Mutation_p.A17T|LDHB_uc001rfe.2_Missense_Mutation_p.A17T	NM_002300	NP_002291	P07195	LDHB_HUMAN	L-lactate dehydrogenase B	17					glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity			breast(2)|ovary(1)	3					NADH(DB00157)	GGAACTGTTGCCTCTTCTTCC	0.408													37	99					0	0	1	0	0		T	21807557	T	T	21807557	3	4	89	1	0	0	0	0	1	0	0	0	8717	739	26	2	983	2	LDHB	12	21807557	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	205022	21807557	112044338	4478	58309											
CMAS	55907	broad.mit.edu	37	chr12	22214262	22214262	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaggaaataaaacttttggTttgcaatattgatggatgtc	14	15	9	3	0	0	1	0	1	0	0	1	3	0	3	0	3	2	2	0	3	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:22214262T>A	uc001rfm.2	+	6	915	c.836T>A	c.(835-837)GTT>GAT	p.V279D	CMAS_uc001rfn.2_Intron	NM_018686	NP_061156	Q8NFW8	NEUA_HUMAN	cytidine monophospho-N-acetylneuraminic acid	279					lipopolysaccharide biosynthetic process	nucleus	N-acylneuraminate cytidylyltransferase activity			ovary(1)|pancreas(1)|skin(1)	3						AAACTTTTGGTTTGCAATATT	0.338													37	83					0	0	1	0	0		A	22214262	A	A	22214262	3	1	89	1	0	0	0	0	1	0	0	0	3578	1725	60	5	858	5	CMAS	12	22214262	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	406705	22214262	111637633	4479	58310											
KIAA0528	9847	broad.mit.edu	37	chr12	22676481	22676481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccagactcgccctccagatCgaaacactgtaagtacccca	12	6	6	17	2	0	2	0	0	0	2	3	3	1	2	5	0	2	2	5	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:22676481C>T	uc001rfq.2	-	7	907	c.679G>A	c.(679-681)GAT>AAT	p.D227N	KIAA0528_uc010sir.1_Missense_Mutation_p.D29N|KIAA0528_uc010sis.1_Missense_Mutation_p.D227N|KIAA0528_uc010sit.1_Missense_Mutation_p.D227N|KIAA0528_uc010siu.1_Missense_Mutation_p.D227N|KIAA0528_uc001rfr.2_Missense_Mutation_p.D227N|KIAA0528_uc009ziy.1_Missense_Mutation_p.D227N	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	227							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						CCCTCCAGATCGAAACACTGT	0.468													43	66					0	0	1	0	0		T	22676481	T	T	22676481	3	4	89	1	0	0	0	0	1	0	0	0	8198	884	31	1	2399	1	KIAA0528	12	22676481	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	462219	22676481	111175414	4480	58311											
SOX5	6660	broad.mit.edu	37	chr12	24048769	24048769	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggagtcctatggccacaagtCtcttgcgtcagcagagaaac	11	8	11	11	1	2	1	1	0	1	1	4	3	3	2	2	2	3	1	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:24048769C>T	uc001rfw.2	-	2	330	c.228G>A	c.(226-228)GAG>GAA	p.E76E	SOX5_uc001rfx.2_Silent_p.E63E|SOX5_uc001rfy.2_Silent_p.E63E|SOX5_uc010siv.1_Silent_p.E63E|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Intron|SOX5_uc001rga.2_Intron	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	76					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						GGCCACAAGTCTCTTGCGTCA	0.483													85	206					0	0	1	0	0		T	24048769	T	T	24048769	2	4	89	1	0	0	0	0	0	0	0	1	14979	912	32	4		4	SOX5	12	24048769	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1372288	24048769	109803126	4481	58312											
BCAT1	586	broad.mit.edu	37	chr12	24995140	24995140	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgcttcacattgggcaaaAagagatgagccgtaattcct	13	10	9	9	1	1	2	1	1	0	1	2	3	2	2	2	1	2	3	2	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:24995140A>C	uc001rgd.3	-	7	1135	c.693T>G	c.(691-693)CTT>CTG	p.L231L	BCAT1_uc001rgc.2_Silent_p.L230L|BCAT1_uc010six.1_Silent_p.L243L|BCAT1_uc010siy.1_Silent_p.L194L|BCAT1_uc001rge.3_Silent_p.L170L	NM_005504	NP_005495	P54687	BCAT1_HUMAN	branched chain aminotransferase 1, cytosolic	231					branched chain family amino acid biosynthetic process|branched chain family amino acid catabolic process|cell proliferation|G1/S transition of mitotic cell cycle	cytosol	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			lung(1)|breast(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Ovarian(17;0.107)|Colorectal(261;0.196)				Gabapentin(DB00996)|L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|L-Valine(DB00161)|Pyridoxal Phosphate(DB00114)	ATTGGGCAAAAAGAGATGAGC	0.438													16	40					0	0	1	0	0		C	24995140	C	C	24995140	2	2	89	1	0	0	0	0	0	0	0	1	1355	1	1	5		5	BCAT1	12	24995140	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	946371	24995140	108856755	4482	58313											
C12orf77	196415	broad.mit.edu	37	chr12	25148944	25148944	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgctgtccagcgtctgcacGttcccttgtttgctcccagt	4	14	9	14	2	1	0	0	0	1	0	4	0	4	0	3	0	4	5	3	0	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:25148944G>A	uc001rgf.2	-	3	409	c.204C>T	c.(202-204)AAC>AAT	p.N68N		NM_001101339	NP_001094809	C9JDV5	CL097_HUMAN	hypothetical protein LOC196415	68											0						GCGTCTGCACGTTCCCTTGTT	0.458													15	32					0	0	1	0	0		A	25148944	A	A	25148944	2	1	89	1	0	0	0	0	0	0	0	1	1719	1136	40	1		1	C12orf77	12	25148944	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	153804	25148944	108702951	4483	58314											
CASC1	55259	broad.mit.edu	37	chr12	25264706	25264706	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaaagattcattcttgcCttattgtttataataacata	13	18	5	5	0	2	1	1	0	1	1	2	2	2	2	1	1	2	1	1	1	6	11	rs141209520		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:25264706C>A	uc001rgl.2	-	13	1843	c.1761G>T	c.(1759-1761)AAG>AAT	p.K587N	CASC1_uc001rgk.2_Missense_Mutation_p.K593N|CASC1_uc001rgm.3_Missense_Mutation_p.K651N|CASC1_uc001rgj.2_Missense_Mutation_p.K547N|CASC1_uc010sje.1_Missense_Mutation_p.K528N|CASC1_uc010sjf.1_Missense_Mutation_p.K475N	NM_001082973	NP_001076442	Q6TDU7	CASC1_HUMAN	cancer susceptibility candidate 1 isoform b	587										ovary(2)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Melanoma(3;0.0301)|Colorectal(261;0.11)		OV - Ovarian serous cystadenocarcinoma(3;7.42e-20)|Epithelial(3;7.58e-16)|all cancers(3;1.07e-13)			TCATTCTTGCCTTATTGTTTA	0.264													15	32					1.02788e-11	1.1298e-11	1	1	0		A	25264706	A	A	25264706	3	1	89	1	0	0	0	0	1	0	0	0	2663	695	24	5	401	5	CASC1	12	25264706	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	115762	25264706	108587189	4484	58315											
CASC1	55259	broad.mit.edu	37	chr12	25297436	25297436	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctacattcttaacatcatCtttgacaagctcagttactg	11	16	4	10	0	5	1	2	1	3	0	5	1	5	1	0	0	4	2	0	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:25297436C>A	uc001rgl.2	-	8	929	c.847G>T	c.(847-849)GAT>TAT	p.D283Y	CASC1_uc001rgk.2_Missense_Mutation_p.D289Y|CASC1_uc001rgm.3_Missense_Mutation_p.D347Y|CASC1_uc001rgj.2_Missense_Mutation_p.D243Y|CASC1_uc010sje.1_Missense_Mutation_p.D224Y|CASC1_uc010sjf.1_Missense_Mutation_p.D171Y|CASC1_uc010sjg.1_Missense_Mutation_p.D283Y	NM_001082973	NP_001076442	Q6TDU7	CASC1_HUMAN	cancer susceptibility candidate 1 isoform b	283										ovary(2)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Melanoma(3;0.0301)|Colorectal(261;0.11)		OV - Ovarian serous cystadenocarcinoma(3;7.42e-20)|Epithelial(3;7.58e-16)|all cancers(3;1.07e-13)			TTAACATCATCTTTGACAAGC	0.403													55	108					6.9144e-35	8.52411e-35	1	1	0		A	25297436	A	A	25297436	3	1	89	1	0	0	0	0	1	0	0	0	2663	913	32	5	1335	5	CASC1	12	25297436	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	32730	25297436	108554459	4485	58316											
KRAS	3845	broad.mit.edu	37	chr12	25378562	25378562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttacctgtcttgtctttgCtgatgtttcaataaaaggaa	11	16	7	7	0	3	1	1	1	2	0	3	2	3	2	1	1	2	2	1	1	5	5	rs121913527		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:25378562C>T	uc001rgp.1	-	4	617	c.436G>A	c.(436-438)GCA>ACA	p.A146T	KRAS_uc001rgq.1_Missense_Mutation_p.A146T	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	146			A -> T (in a colorectal cancer sample; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.A146T(46)|p.A146V(12)|p.A146P(3)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CTTGTCTTTGCTGATGTTTCA	0.323	A146T(LS1034_LARGE_INTESTINE)|A146T(AMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|A146T(NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			29	71					0	0	1	0	0		T	25378562	T	T	25378562	3	4	89	1	0	0	0	0	1	0	0	0	8454	797	28	2	262	2	KRAS	12	25378562	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	81126	25378562	108473333	4486	58317											
BHLHE41	79365	broad.mit.edu	37	chr12	26276620	26276620	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttaaggcggttaaagcttTtaagtgtttcaaagttaatt	12	16	10	3	1	1	0	1	0	0	0	1	0	1	0	0	3	1	5	0	3	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:26276620T>G	uc001rhb.2	-	4	580	c.289A>C	c.(289-291)AAA>CAA	p.K97Q		NM_030762	NP_110389	Q9C0J9	BHE41_HUMAN	basic helix-loop-helix domain containing, class	97	Helix-loop-helix motif.				cell differentiation|cell proliferation|organ morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GTTAAAGCTTTTAAGTGTTTC	0.443											OREG0021711	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	50	94					0	0	1	0	0		G	26276620	G	G	26276620	3	3	89	1	0	0	0	0	1	0	0	0	1425	1850	64	5	1167	5	BHLHE41	12	26276620	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	898058	26276620	107575275	4487	58318											
ITPR2	3709	broad.mit.edu	37	chr12	26596550	26596550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggatccgatcctggtttgaGcatctgctgcaacagtttat	8	14	10	9	1	1	1	0	1	1	0	3	3	3	2	2	2	4	5	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:26596550G>A	uc001rhg.2	-	46	6793	c.6376C>T	c.(6376-6378)CTC>TTC	p.L2126F	ITPR2_uc009zjg.1_Missense_Mutation_p.L277F	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	2126	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					CCTGGTTTGAGCATCTGCTGC	0.408													20	39					0	0	1	0	0		A	26596550	A	A	26596550	3	1	89	1	0	0	0	0	1	0	0	0	7937	971	34	2	1777	2	ITPR2	12	26596550	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	319930	26596550	107255345	4488	58319											
ITPR2	3709	broad.mit.edu	37	chr12	26752221	26752221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacaactctctcgctaatttCgttgcacagatggtaattgt	10	15	7	9	2	1	1	0	0	1	1	4	1	1	1	0	1	3	4	0	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:26752221C>T	uc001rhg.2	-	30	4276	c.3859G>A	c.(3859-3861)GAA>AAA	p.E1287K		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1287	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					TCGCTAATTTCGTTGCACAGA	0.438													59	139					0	0	1	0	0		T	26752221	T	T	26752221	3	4	89	1	0	0	0	0	1	0	0	0	7937	893	31	1	4358	1	ITPR2	12	26752221	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	155671	26752221	107099674	4489	58320											
ITPR2	3709	broad.mit.edu	37	chr12	26775334	26775334	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttgaactggatttttttCttttctataaaaccaaaaac	15	16	4	6	0	2	1	0	1	2	0	2	2	2	2	1	1	3	1	1	1	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:26775334C>A	uc001rhg.2	-	25	3544	c.3127G>T	c.(3127-3129)GAA>TAA	p.E1043*		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1043	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					GGATTTTTTTCTTTTCTATAA	0.373													9	25					0.00621372	0.0062719	1	1	0		A	26775334	A	A	26775334	4	1	89	1	0	0	0	0	0	1	0	0	7937	922	32	5	5110	5	ITPR2	12	26775334	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	23113	26775334	107076561	4490	58321											
ITPR2	3709	broad.mit.edu	37	chr12	26811002	26811002	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataaatttacagatgagttCttgagttacagggatagcag	14	12	10	5	0	1	3	0	2	1	1	1	4	1	4	0	1	3	3	0	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:26811002C>A	uc001rhg.2	-	17	2365	c.1948G>T	c.(1948-1950)GAA>TAA	p.E650*		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	650	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					CAGATGAGTTCTTGAGTTACA	0.343													20	47					2.39187e-15	2.72483e-15	1	1	0		A	26811002	A	A	26811002	4	1	89	1	0	0	0	0	0	1	0	0	7937	922	32	5	6321	5	ITPR2	12	26811002	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	35668	26811002	107040893	4491	58322											
C12orf11	55726	broad.mit.edu	37	chr12	27064188	27064188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggttctggggaatcaggcGaatcttttataatctcagct	10	13	11	7	1	4	0	2	0	3	0	5	3	4	1	0	4	1	2	0	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:27064188G>A	uc001rhk.3	-	15	2405	c.1868C>T	c.(1867-1869)TCG>TTG	p.S623L	C12orf11_uc001rhj.3_Missense_Mutation_p.S191L|C12orf11_uc010sjk.1_Missense_Mutation_p.S522L	NM_018164	NP_060634	Q9NVM9	M89BB_HUMAN	hypothetical protein LOC55726	623					cell division|mitosis|regulation of mitotic cell cycle		protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	Colorectal(261;0.0847)					GGAATCAGGCGAATCTTTTAT	0.363													40	85					0	0	1	0	0		A	27064188	A	A	27064188	3	1	89	1	0	0	0	0	1	0	0	0	1678	1059	37	1	264	1	C12orf11	12	27064188	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	253186	27064188	106787707	4492	58323											
ARNTL2	56938	broad.mit.edu	37	chr12	27521247	27521247	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctgtggtttccagccgCgtgagtccagggacaagacc	7	8	13	13	2	0	2	0	1	0	1	3	3	3	3	5	2	1	2	5	2	1	1	rs140915764	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:27521247C>T	uc001rht.1	+	2	102	c.84C>T	c.(82-84)CGC>CGT	p.R28R	ARNTL2_uc001rhw.2_Silent_p.R39R|ARNTL2_uc010sjp.1_Silent_p.R39R|ARNTL2_uc001rhu.1_Silent_p.R28R|ARNTL2_uc009zji.1_Silent_p.R28R|ARNTL2_uc001rhv.1_Silent_p.R28R	NM_020183	NP_064568	Q8WYA1	BMAL2_HUMAN	aryl hydrocarbon receptor nuclear	28					circadian rhythm|entrainment of circadian clock|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|skin(1)	2	Colorectal(261;0.0847)|Lung SC(9;0.184)					TTTCCAGCCGCGTGAGTCCAG	0.463													26	48					0	0	1	0	0		T	27521247	T	T	27521247	2	4	89	1	0	0	0	0	0	0	0	1	969	755	27	1		1	ARNTL2	12	27521247	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	457059	27521247	106330648	4493	58324											
ARNTL2	56938	broad.mit.edu	37	chr12	27533205	27533205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcatagccaaactgaaaagCggaggagagataaaatgaat	19	6	10	6	1	1	3	1	2	0	1	1	6	1	5	1	2	3	0	1	2	7	2	rs140062821		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:27533205C>T	uc001rht.1	+	5	370	c.352C>T	c.(352-354)CGG>TGG	p.R118W	ARNTL2_uc001rhw.2_Missense_Mutation_p.R81W|ARNTL2_uc010sjp.1_Missense_Mutation_p.R81W|ARNTL2_uc001rhu.1_Missense_Mutation_p.R104W|ARNTL2_uc009zji.1_Missense_Mutation_p.R84W|ARNTL2_uc001rhv.1_Missense_Mutation_p.R70W	NM_020183	NP_064568	Q8WYA1	BMAL2_HUMAN	aryl hydrocarbon receptor nuclear	118	Basic motif.				circadian rhythm|entrainment of circadian clock|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|skin(1)	2	Colorectal(261;0.0847)|Lung SC(9;0.184)					AACTGAAAAGCGGAGGAGAGA	0.448													27	58					0	0	1	0	0		T	27533205	T	T	27533205	3	4	89	1	0	0	0	0	1	0	0	0	969	759	27	1	370	1	ARNTL2	12	27533205	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11958	27533205	106318690	4494	58325											
PPFIBP1	8496	broad.mit.edu	37	chr12	27813821	27813821	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgatgttattttcagacatCgaagtacaaaaaatgaaaaa	19	12	6	4	1	1	3	1	2	0	1	2	4	1	3	0	0	1	2	0	0	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:27813821C>T	uc001ric.1	+	11	1286	c.909C>T	c.(907-909)ATC>ATT	p.I303I	PPFIBP1_uc010sjr.1_Silent_p.I131I|PPFIBP1_uc001rib.1_Silent_p.I283I|PPFIBP1_uc001ria.2_Silent_p.I272I|PPFIBP1_uc001rid.1_Silent_p.I150I	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	303	Potential.				cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					TTTCAGACATCGAAGTACAAA	0.328													20	35					0	0	1	0	0		T	27813821	T	T	27813821	2	4	89	1	0	0	0	0	0	0	0	1	12332	874	31	1		1	PPFIBP1	12	27813821	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	280616	27813821	106038074	4495	58326											
PTHLH	5744	broad.mit.edu	37	chr12	28116612	28116612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcagctgtgtggatttctgCgatcagatggtgaaggaaga	10	12	14	5	1	3	3	2	1	1	2	3	6	3	5	0	3	2	1	0	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:28116612C>T	uc001rik.2	-	3	496	c.193G>A	c.(193-195)GCA>ACA	p.A65T	PTHLH_uc001ril.2_Missense_Mutation_p.A65T|PTHLH_uc001rim.2_Missense_Mutation_p.A65T|PTHLH_uc001rin.2_Missense_Mutation_p.A65T	NM_198966	NP_945317	P12272	PTHR_HUMAN	parathyroid hormone-like hormone isoform 1	65	Important for receptor binding.				activation of adenylate cyclase activity by G-protein signaling pathway|cAMP metabolic process|cell-cell signaling|epidermis development|female pregnancy|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation	cytoplasm|extracellular space|nucleus	hormone activity|peptide hormone receptor binding			breast(1)	1	Lung SC(9;0.184)					TGGATTTCTGCGATCAGATGG	0.507													60	145					0	0	1	0	0		T	28116612	T	T	28116612	3	4	89	1	0	0	0	0	1	0	0	0	12784	768	27	1	352	1	PTHLH	12	28116612	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	302791	28116612	105735283	4496	58327											
IPO8	10526	broad.mit.edu	37	chr12	30837302	30837302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatttgctggcgatcgttttCgtgaatgttgaatggaaata	10	16	11	4	3	0	2	0	2	0	0	2	4	0	3	0	2	1	3	0	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:30837302C>T	uc001rjd.2	-	3	426	c.256G>A	c.(256-258)GAA>AAA	p.E86K		NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	86	Importin N-terminal.				intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					CGATCGTTTTCGTGAATGTTG	0.413													55	107					0	0	1	0	0		T	30837302	T	T	30837302	3	4	89	1	0	0	0	0	1	0	0	0	7814	893	31	1	2949	1	IPO8	12	30837302	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2720690	30837302	103014593	4497	58328											
CAPRIN2	65981	broad.mit.edu	37	chr12	30869579	30869579	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttttatttcttgttcttttCgtggaggcagaggtgcatta	6	19	10	6	1	2	1	0	0	2	1	3	2	2	2	0	3	1	3	0	3	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:30869579C>T	uc001rji.1	-	14	3078	c.2327G>A	c.(2326-2328)CGA>CAA	p.R776Q	CAPRIN2_uc001rjf.1_Missense_Mutation_p.R573Q|CAPRIN2_uc001rjg.1_Missense_Mutation_p.R443Q|CAPRIN2_uc001rjh.1_Missense_Mutation_p.R727Q|CAPRIN2_uc001rjj.1_Missense_Mutation_p.R443Q|CAPRIN2_uc001rjk.3_Missense_Mutation_p.R776Q|CAPRIN2_uc001rjl.3_Missense_Mutation_p.R741Q|CAPRIN2_uc001rjm.1_Missense_Mutation_p.R408Q	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	776					negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					TTGTTCTTTTCGTGGAGGCAG	0.418													64	142					0	0	1	0	0		T	30869579	T	T	30869579	3	4	89	1	0	0	0	0	1	0	0	0	2639	884	31	1	1076	1	CAPRIN2	12	30869579	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	32277	30869579	102982316	4498	58329											
AMN1	196394	broad.mit.edu	37	chr12	31850304	31850304	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaaaattacctctaatttCttcgcacaaggtccactaac	13	14	3	11	1	2	0	0	0	2	0	4	0	3	0	2	1	2	1	2	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:31850304C>A	uc001rkq.3	-	5	748	c.582G>T	c.(580-582)AAG>AAT	p.K194N	AMN1_uc001rko.3_Missense_Mutation_p.K176N|AMN1_uc010skc.1_Missense_Mutation_p.K176N|AMN1_uc001rkp.3_Missense_Mutation_p.K176N|AMN1_uc009zjs.2_RNA|AMN1_uc009zjt.1_RNA	NM_001113402	NP_001106873	Q8IY45	AMN1_HUMAN	antagonist of mitotic exit network 1 homolog	194											0	all_cancers(9;7.41e-12)|all_epithelial(9;1.18e-11)|all_lung(12;1.14e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.162)		OV - Ovarian serous cystadenocarcinoma(6;0.0014)			CCTCTAATTTCTTCGCACAAG	0.338													26	55					2.50493e-22	2.98478e-22	1	1	0		A	31850304	A	A	31850304	3	1	89	1	0	0	0	0	1	0	0	0	581	912	32	5	206	5	AMN1	12	31850304	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	980725	31850304	102001591	4499	58330											
FGD4	121512	broad.mit.edu	37	chr12	32735043	32735043	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagggaaatgatacagataAgactcagggtgcacagactt	15	7	12	7	0	1	4	1	1	0	3	1	5	1	5	0	2	2	2	0	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:32735043A>C	uc001rkz.2	+	4	719	c.242A>C	c.(241-243)AAG>ACG	p.K81T	FGD4_uc001rlc.2_Missense_Mutation_p.K166T|FGD4_uc001rky.2_5'UTR|FGD4_uc001rla.2_5'UTR|FGD4_uc010ske.1_Missense_Mutation_p.K193T|FGD4_uc001rlb.1_RNA|FGD4_uc001rkx.3_Missense_Mutation_p.K81T	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	81	Actin filament-binding (By similarity).				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					GATACAGATAAGACTCAGGGT	0.498													55	66					0	0	1	0	0		C	32735043	C	C	32735043	3	2	89	1	0	0	0	0	1	0	0	0	5849	72	3	5	248	5	FGD4	12	32735043	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	884739	32735043	101116852	4500	58331											
SYT10	341359	broad.mit.edu	37	chr12	33559799	33559799	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcaaacaaattatcaagAatcacttccccaatcatgtc	16	11	2	12	0	4	1	4	0	0	1	6	1	5	1	2	0	1	0	2	0	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:33559799A>C	uc001rll.1	-	3	1299	c.1002T>G	c.(1000-1002)ATT>ATG	p.I334M	SYT10_uc009zju.1_Missense_Mutation_p.I144M	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	334	Cytoplasmic (Potential).|C2 1.					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					AATTATCAAGAATCACTTCCC	0.363													34	70					0	0	1	0	0		C	33559799	C	C	33559799	3	2	89	1	0	0	0	0	1	0	0	0	15491	242	9	5	589	5	SYT10	12	33559799	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	824756	33559799	100292096	4501	58332											
KIF21A	55605	broad.mit.edu	37	chr12	39703566	39703566	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attccatactttacaagtacGatctaaaacaaacacataaa	20	10	2	9	1	1	0	0	0	1	0	2	1	2	0	1	0	5	1	1	0	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:39703566G>A	uc001rly.2	-	33	4245	c.4099C>T	c.(4099-4101)CGT>TGT	p.R1367C	KIF21A_uc001rlv.2_Missense_Mutation_p.R312C|KIF21A_uc001rlw.2_Missense_Mutation_p.R637C|KIF21A_uc001rlx.2_Missense_Mutation_p.R1354C|KIF21A_uc001rlz.2_Missense_Mutation_p.R1314C|KIF21A_uc010skl.1_Missense_Mutation_p.R1330C|KIF21A_uc001rlt.2_5'UTR|KIF21A_uc001rlu.2_5'UTR	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	1367	WD 1.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TTACAAGTACGATCTAAAACA	0.323													12	21					0	0	1	0	0		A	39703566	A	A	39703566	3	1	89	1	0	0	0	0	1	0	0	0	8304	1058	37	1	949	1	KIF21A	12	39703566	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6143767	39703566	94148329	4502	58333											
ABCD2	225	broad.mit.edu	37	chr12	39998622	39998622	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttagctccattcttgctatgGctttcagattcttgaatgac	8	17	7	9	0	3	3	1	2	2	1	4	3	4	3	1	1	2	3	1	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:39998622G>A	uc001rmb.2	-	4	1773	c.1347C>T	c.(1345-1347)AGC>AGT	p.S449S		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	449					fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						TCTTGCTATGGCTTTCAGATT	0.353													35	91					0	0	1	0	0		A	39998622	A	A	39998622	2	1	89	1	0	0	0	0	0	0	0	1	61	1194	42	2		2	ABCD2	12	39998622	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	295056	39998622	93853273	4503	58334											
C12orf40	283461	broad.mit.edu	37	chr12	40076662	40076662	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgtattaaacatagatgaGcaaaggataaagaaaacatt	22	9	7	3	0	0	3	0	1	0	2	0	4	0	4	0	1	3	2	0	1	10	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:40076662G>A	uc001rmc.2	+	8	1103	c.936G>A	c.(934-936)GAG>GAA	p.E312E	C12orf40_uc009zjv.1_RNA	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	312										ovary(6)	6						ACATAGATGAGCAAAGGATAA	0.328													29	68					0	0	1	0	0		A	40076662	A	A	40076662	2	1	89	1	0	0	0	0	0	0	0	1	1689	962	34	2		2	C12orf40	12	40076662	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	78040	40076662	93775233	4504	58335											
LRRK2	120892	broad.mit.edu	37	chr12	40645114	40645114	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagggggaagaagataaaTtgttttggctggaagcctgt	12	11	15	3	0	0	3	0	1	0	2	0	5	0	5	1	4	1	2	1	4	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:40645114T>C	uc001rmg.3	+	9	1160	c.1039T>C	c.(1039-1041)TTG>CTG	p.L347L	LRRK2_uc001rmh.1_5'Flank	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	347	Potential.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				AGAAGATAAATTGTTTTGGCT	0.323											OREG0003829	type=REGULATORY REGION|Gene=LRRK2|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	16	21					0	0	1	0	0		C	40645114	C	C	40645114	2	2	89	1	0	0	0	0	0	0	0	1	9051	1490	52	3		3	LRRK2	12	40645114	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	568452	40645114	93206781	4505	58336											
LRRK2	120892	broad.mit.edu	37	chr12	40681202	40681202	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagatatcagatgaaaagTgctgtggaagaaggaacagc	17	7	12	5	0	2	4	2	1	0	3	2	6	2	6	0	2	3	1	0	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:40681202T>C	uc001rmg.3	+	20	2671	c.2550T>C	c.(2548-2550)AGT>AGC	p.S850S	LRRK2_uc001rmh.1_Silent_p.S472S	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	850					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				AGATGAAAAGTGCTGTGGAAG	0.373													33	33					0	0	1	0	0		C	40681202	C	C	40681202	2	2	89	1	0	0	0	0	0	0	0	1	9051	1693	59	3		3	LRRK2	12	40681202	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	36088	40681202	93170693	4506	58337											
LRRK2	120892	broad.mit.edu	37	chr12	40715849	40715849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttagaacgagcacttcGcccaaacagaatgtattggc	12	12	8	9	2	0	2	0	0	0	2	1	3	0	2	1	1	3	2	1	1	5	6	rs145364431		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:40715849G>A	uc001rmg.3	+	36	5304	c.5183G>A	c.(5182-5184)CGC>CAC	p.R1728H	LRRK2_uc009zjw.2_Missense_Mutation_p.R566H|LRRK2_uc001rmi.2_Missense_Mutation_p.R561H	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1728			R -> L (in PARK8).|R -> H (in PARK8).		activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CGAGCACTTCGCCCAAACAGA	0.378													21	36					0	0	1	0	0		A	40715849	A	A	40715849	3	1	89	1	0	0	0	0	1	0	0	0	9051	1087	38	1	5325	1	LRRK2	12	40715849	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	34647	40715849	93136046	4507	58338											
CNTN1	1272	broad.mit.edu	37	chr12	41316077	41316077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gatggagaatgaataatgggGacgttgatctcacaagtgat	14	10	13	4	1	1	4	1	3	1	1	2	7	1	5	0	3	0	1	0	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:41316077G>A	uc001rmm.1	+	5	360	c.247G>A	c.(247-249)GAC>AAC	p.D83N	CNTN1_uc009zjy.1_Missense_Mutation_p.D83N|CNTN1_uc001rmn.1_Missense_Mutation_p.D72N|CNTN1_uc001rmo.2_Missense_Mutation_p.D83N	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	83	Ig-like C2-type 1.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				GAATAATGGGGACGTTGATCT	0.388													27	57					0	0	1	0	0		A	41316077	A	A	41316077	3	1	89	1	0	0	0	0	1	0	0	0	3643	1174	41	4	261	4	CNTN1	12	41316077	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	600228	41316077	92535818	4508	58339											
CNTN1	1272	broad.mit.edu	37	chr12	41327516	41327516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtcctgttccggatatccGatggcggaaggttctagaac	10	10	12	9	3	1	1	0	0	1	1	4	4	4	3	3	4	1	2	3	4	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:41327516G>A	uc001rmm.1	+	9	934	c.821G>A	c.(820-822)CGA>CAA	p.R274Q	CNTN1_uc009zjy.1_Missense_Mutation_p.R274Q|CNTN1_uc001rmn.1_Missense_Mutation_p.R263Q|CNTN1_uc001rmo.2_Missense_Mutation_p.R274Q	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	274	Ig-like C2-type 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				CCGGATATCCGATGGCGGAAG	0.373													34	84					0	0	1	0	0		A	41327516	A	A	41327516	3	1	89	1	0	0	0	0	1	0	0	0	3643	1058	37	1	851	1	CNTN1	12	41327516	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11439	41327516	92524379	4509	58340											
PDZRN4	29951	broad.mit.edu	37	chr12	41967456	41967456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggccaaagagcagcgccgtCgccgtgagttcatgatgcga	9	6	15	11	5	1	3	1	2	0	1	2	4	1	3	3	1	3	2	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:41967456C>T	uc010skn.1	+	10	2346	c.2278C>T	c.(2278-2280)CGC>TGC	p.R760C	PDZRN4_uc001rmq.3_Missense_Mutation_p.R701C|PDZRN4_uc009zjz.2_Missense_Mutation_p.R699C|PDZRN4_uc001rmr.2_Missense_Mutation_p.R586C	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	959	Poly-Arg.						ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				GCAGCGCCGTCGCCGTGAGTT	0.537													22	53					0	0	1	0	0		T	41967456	T	T	41967456	3	4	89	1	0	0	0	0	1	0	0	0	11729	884	31	1	2986	1	PDZRN4	12	41967456	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	639940	41967456	91884439	4510	58341											
GXYLT1	283464	broad.mit.edu	37	chr12	42512847	42512847	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgatcttcagcaaaaatatgGaattgaagaggtttgatgct	14	13	10	4	0	2	4	1	3	1	1	2	5	2	5	0	2	2	3	0	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:42512847G>A	uc001rms.3	-	3	666	c.441C>T	c.(439-441)TTC>TTT	p.F147F	GXYLT1_uc001rmt.3_Silent_p.F116F	NM_173601	NP_775872	Q4G148	GXLT1_HUMAN	glycosyltransferase 8 domain containing 3	147	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						CAAAAATATGGAATTGAAGAG	0.348													19	56					0	0	1	0	0		A	42512847	A	A	42512847	2	1	89	1	0	0	0	0	0	0	0	1	6919	1165	41	4		4	GXYLT1	12	42512847	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	545391	42512847	91339048	4511	58342											
PPHLN1	51535	broad.mit.edu	37	chr12	42836453	42836453	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcggccagagtctgcaggAcagacttggcagcaggtacc	9	6	14	12	1	1	2	0	0	1	2	2	3	1	3	2	4	3	5	2	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:42836453A>G	uc001rng.1	+	11	1140	c.1035A>G	c.(1033-1035)GGA>GGG	p.G345G	PPHLN1_uc010skr.1_Silent_p.G290G|PPHLN1_uc010sks.1_Silent_p.G271G|PPHLN1_uc010skt.1_Silent_p.G225G|PPHLN1_uc001rni.1_Silent_p.G290G|PPHLN1_uc001rnh.1_RNA|PPHLN1_uc010sku.1_Intron	NM_016488	NP_057572	Q8NEY8	PPHLN_HUMAN	periphilin 1 isoform 1	345					keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)		agtctgcaggacagacttggc	0.01													72	177					0	0	1	0	0		G	42836453	G	G	42836453	2	3	89	1	0	0	0	0	0	0	0	1	12334	262	10	3		3	PPHLN1	12	42836453	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	323606	42836453	91015442	4512	58343											
PRICKLE1	144165	broad.mit.edu	37	chr12	42854435	42854435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgcagagaatacaatgatgGccttggcttgttttctccat	9	15	9	8	0	1	2	0	1	1	1	2	3	1	2	2	2	2	3	2	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:42854435G>A	uc010skv.1	-	8	1959	c.1672C>T	c.(1672-1674)CCA>TCA	p.P558S	PRICKLE1_uc001rnl.2_Missense_Mutation_p.P558S|PRICKLE1_uc010skw.1_Missense_Mutation_p.P558S|PRICKLE1_uc001rnm.2_Missense_Mutation_p.P558S|PRICKLE1_uc001rnk.1_5'Flank	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	558					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		TACAATGATGGCCTTGGCTTG	0.418													7	96					0	0	1	0	0		A	42854435	A	A	42854435	3	1	89	1	0	0	0	0	1	0	0	0	12508	1203	42	2	827	2	PRICKLE1	12	42854435	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17982	42854435	90997460	4513	58344											
ADAMTS20	80070	broad.mit.edu	37	chr12	43771280	43771280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gataaactataggccgaagtCgatggagcttatgtttctta	12	13	10	6	2	1	0	0	0	1	0	2	4	1	1	1	2	2	2	1	2	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:43771280C>T	uc010skx.1	-	32	4883	c.4883G>A	c.(4882-4884)CGA>CAA	p.R1628Q		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1628	TSP type-1 14.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		AGGCCGAAGTCGATGGAGCTT	0.408													9	33					0	0	1	0	0		T	43771280	T	T	43771280	3	4	89	1	0	0	0	0	1	0	0	0	266	884	31	1	880	1	ADAMTS20	12	43771280	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	916845	43771280	90080615	4514	58345											
ADAMTS20	80070	broad.mit.edu	37	chr12	43777440	43777440	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtaagagatatggttgaaGaattatagactatttcattc	15	15	8	3	0	1	4	1	1	0	3	2	5	1	4	0	1	0	2	0	1	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:43777440G>T	uc010skx.1	-	31	4718	c.4718C>A	c.(4717-4719)TCT>TAT	p.S1573Y		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1573	TSP type-1 13.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TATGGTTGAAGAATTATAGAC	0.373													15	25					4.93089e-13	5.49801e-13	1	1	0		T	43777440	T	T	43777440	3	4	89	1	0	0	0	0	1	0	0	0	266	942	33	5	1049	5	ADAMTS20	12	43777440	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6160	43777440	90074455	4515	58346											
ADAMTS20	80070	broad.mit.edu	37	chr12	43840416	43840416	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accataatgagaactgttgaAgacacctgttattgtcttgc	12	13	8	8	0	1	3	0	2	1	2	1	4	1	3	2	0	2	2	2	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:43840416A>C	uc010skx.1	-	15	2179	c.2179T>G	c.(2179-2181)TTC>GTC	p.F727V		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	727	Spacer.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		GAACTGTTGAAGACACCTGTT	0.383													15	28					0	0	1	0	0		C	43840416	C	C	43840416	3	2	89	1	0	0	0	0	1	0	0	0	266	72	3	5	3652	5	ADAMTS20	12	43840416	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	62976	43840416	90011479	4516	58347											
ADAMTS20	80070	broad.mit.edu	37	chr12	43847773	43847773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacatgttcttgaacaagaaCtgtaaggttcccatggtccc	11	11	8	11	0	1	2	0	1	1	1	3	2	3	2	2	2	2	3	2	2	4	4	rs147849669		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:43847773C>T	uc010skx.1	-	12	1697	c.1697G>A	c.(1696-1698)AGT>AAT	p.S566N		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	566	TSP type-1 1.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TGAACAAGAACTGTAAGGTTC	0.403													6	26					0	0	1	0	0		T	43847773	T	T	43847773	3	4	89	1	0	0	0	0	1	0	0	0	266	565	20	4	4146	4	ADAMTS20	12	43847773	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7357	43847773	90004122	4517	58348											
NELL2	4753	broad.mit.edu	37	chr12	44913847	44913847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagaggacccggtgaagcGaaccacattcatttcgtcca	12	7	9	13	3	1	2	1	1	0	1	3	4	2	3	4	2	2	0	4	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:44913847G>A	uc001rog.2	-	19	2936	c.2341C>T	c.(2341-2343)CGC>TGC	p.R781C	NELL2_uc001rof.3_Missense_Mutation_p.R780C|NELL2_uc001roh.2_Missense_Mutation_p.R781C|NELL2_uc009zkd.2_Missense_Mutation_p.R733C|NELL2_uc010skz.1_Missense_Mutation_p.R831C|NELL2_uc010sla.1_Missense_Mutation_p.R804C	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	781	VWFC 5.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		CCGGTGAAGCGAACCACATTC	0.502													25	51					0	0	1	0	0		A	44913847	A	A	44913847	3	1	89	1	0	0	0	0	1	0	0	0	10353	1058	37	1	117	1	NELL2	12	44913847	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1066074	44913847	88938048	4518	58349											
NELL2	4753	broad.mit.edu	37	chr12	44915858	44915858	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtttccccattttgatggagGcactgactactaagccttgg	8	13	10	10	0	0	2	0	2	0	0	1	3	1	3	3	3	2	2	3	3	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:44915858G>A	uc001rog.2	-	18	2695	c.2100C>T	c.(2098-2100)TGC>TGT	p.C700C	NELL2_uc001rof.3_Silent_p.C699C|NELL2_uc001roh.2_Silent_p.C700C|NELL2_uc009zkd.2_Silent_p.C652C|NELL2_uc010skz.1_Silent_p.C750C|NELL2_uc010sla.1_Silent_p.C723C	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	700	VWFC 4.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		TTTGATGGAGGCACTGACTAC	0.458													23	55					0	0	1	0	0		A	44915858	A	A	44915858	2	1	89	1	0	0	0	0	0	0	0	1	10353	1195	42	2		2	NELL2	12	44915858	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2011	44915858	88936037	4519	58350											
NELL2	4753	broad.mit.edu	37	chr12	44917221	44917221	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatccaaattgaagcaaatGgtatcattggcacagctgtg	13	10	9	9	0	1	1	1	1	0	0	2	1	2	1	2	2	2	4	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:44917221G>T	uc001rog.2	-	17	2446	c.1851C>A	c.(1849-1851)ACC>ACA	p.T617T	NELL2_uc001rof.3_Silent_p.T616T|NELL2_uc001roh.2_Silent_p.T617T|NELL2_uc009zkd.2_Silent_p.T569T|NELL2_uc010skz.1_Silent_p.T667T|NELL2_uc010sla.1_Silent_p.T640T|NELL2_uc001roi.1_Silent_p.T617T	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	617	EGF-like 6; calcium-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		TGAAGCAAATGGTATCATTGG	0.433													37	80					1.60099e-16	1.84126e-16	1	1	0		T	44917221	T	T	44917221	2	4	89	1	0	0	0	0	0	0	0	1	10353	1335	47	5		5	NELL2	12	44917221	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1363	44917221	88934674	4520	58351											
NELL2	4753	broad.mit.edu	37	chr12	45173782	45173782	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctgacttcattccgatggCcactactttccagttccagg	7	13	8	13	1	2	1	1	1	1	0	5	2	5	1	4	2	1	1	4	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:45173782C>T	uc001rog.2	-	4	954	c.359G>A	c.(358-360)GGC>GAC	p.G120D	NELL2_uc001rof.3_Missense_Mutation_p.G119D|NELL2_uc001roh.2_Missense_Mutation_p.G120D|NELL2_uc009zkd.2_Missense_Mutation_p.G119D|NELL2_uc010skz.1_Missense_Mutation_p.G170D|NELL2_uc010sla.1_Missense_Mutation_p.G143D|NELL2_uc001roi.1_Missense_Mutation_p.G120D|NELL2_uc010slb.1_Missense_Mutation_p.G119D|NELL2_uc001roj.2_Missense_Mutation_p.G120D	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	120	TSP N-terminal.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		ATTCCGATGGCCACTACTTTC	0.423													38	88					0	0	1	0	0		T	45173782	T	T	45173782	3	4	89	1	0	0	0	0	1	0	0	0	10353	739	26	2	2159	2	NELL2	12	45173782	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	256561	45173782	88678113	4521	58352											
ANO6	196527	broad.mit.edu	37	chr12	45740823	45740823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggaaaagacaagcatacGaatctaaccttatctgtcat	17	9	7	8	1	3	2	1	0	2	2	3	4	3	3	1	1	3	1	1	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:45740823G>A	uc001roo.2	+	4	633	c.298G>A	c.(298-300)GAA>AAA	p.E100K	ANO6_uc010sld.1_Missense_Mutation_p.E100K|ANO6_uc010sle.1_Missense_Mutation_p.E100K|ANO6_uc010slf.1_Missense_Mutation_p.E121K|ANO6_uc010slg.1_Missense_Mutation_p.E82K	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	100	Cytoplasmic (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						ACAAGCATACGAATCTAACCT	0.393													19	35					0	0	1	0	0		A	45740823	A	A	45740823	3	1	89	1	0	0	0	0	1	0	0	0	701	1059	37	1	332	1	ANO6	12	45740823	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	567041	45740823	88111072	4522	58353											
SFRS2IP	9169	broad.mit.edu	37	chr12	46320292	46320292	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggttagatacccaaccagaAccaaagtttttattccaaga	15	10	6	10	1	0	3	0	0	0	3	1	3	1	3	4	1	3	2	4	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:46320292A>G	uc001rox.2	-	11	3479	c.3192T>C	c.(3190-3192)GGT>GGC	p.G1064G	SFRS2IP_uc001row.2_Silent_p.G749G|SFRS2IP_uc001roy.1_Silent_p.G1138G	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	1064					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		CCCAACCAGAACCAAAGTTTT	0.413													32	68					0	0	1	0	0		G	46320292	G	G	46320292	2	3	89	1	0	0	0	0	0	0	0	1	14202	30	2	3		3	SFRS2IP	12	46320292	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	579469	46320292	87531603	4523	58354											
SFRS2IP	9169	broad.mit.edu	37	chr12	46320408	46320408	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccagagtttattttttCtgttatccaattgggacagt	9	16	9	7	0	1	1	0	0	1	1	2	2	2	2	2	2	0	2	2	2	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:46320408C>A	uc001rox.2	-	11	3363	c.3076G>T	c.(3076-3078)GAA>TAA	p.E1026*	SFRS2IP_uc001row.2_Nonsense_Mutation_p.E711*|SFRS2IP_uc001roy.1_Nonsense_Mutation_p.E1100*	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	1026					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		TTTATTTTTTCTGTTATCCAA	0.338													70	171					2.26907e-38	2.80873e-38	1	1	0		A	46320408	A	A	46320408	4	1	89	1	0	0	0	0	0	1	0	0	14202	922	32	5	1335	5	SFRS2IP	12	46320408	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	116	46320408	87531487	4524	58355											
SFRS2IP	9169	broad.mit.edu	37	chr12	46326965	46326965	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacaattccagttcatgtCtcttctgcctaatcaatgca	11	14	5	11	0	4	1	2	1	2	0	6	1	5	1	2	0	2	2	2	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:46326965C>A	uc001rox.2	-	9	970	c.683G>T	c.(682-684)AGA>ATA	p.R228I	SFRS2IP_uc001roy.1_Missense_Mutation_p.R302I	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	228					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		CAGTTCATGTCTCTTCTGCCT	0.323													21	57					1.04121e-07	1.09748e-07	1	1	0		A	46326965	A	A	46326965	3	1	89	1	0	0	0	0	1	0	0	0	14202	913	32	5	3736	5	SFRS2IP	12	46326965	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6557	46326965	87524930	4525	58356											
SLC38A4	55089	broad.mit.edu	37	chr12	47178396	47178396	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccaaatgccttttctcctAatttttcataaatcaaagac	14	15	2	10	0	3	1	2	0	1	1	5	1	4	1	3	0	1	0	3	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:47178396A>G	uc001rpi.2	-	7	821	c.422T>C	c.(421-423)TTA>TCA	p.L141S	SLC38A4_uc001rpj.2_Missense_Mutation_p.L141S|SLC38A4_uc009zkl.2_Missense_Mutation_p.L141S	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	141	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Lung SC(27;0.192)|Renal(347;0.236)					CTTTTCTCCTAATTTTTCATA	0.333													33	55					0	0	1	0	0		G	47178396	G	G	47178396	3	3	89	1	0	0	0	0	1	0	0	0	14631	372	13	3	1265	3	SLC38A4	12	47178396	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	851431	47178396	86673499	4526	58357											
FAM113B	91523	broad.mit.edu	37	chr12	47629778	47629778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcccaccccagcgcttgcCgctgctcccgctcctgtccc	2	9	8	22	3	0	0	0	0	0	0	4	0	4	0	7	0	3	5	7	0	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:47629778C>T	uc001rpn.2	+	4	1663	c.932C>T	c.(931-933)CCG>CTG	p.P311L	FAM113B_uc001rpq.2_Missense_Mutation_p.P311L	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	311	Pro-rich.						hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					cagcgcttgccgctgctcccg	0.249													27	52					0	0	1	0	0		T	47629778	T	T	47629778	3	4	89	1	0	0	0	0	1	0	0	0	5413	652	23	1	934	1	FAM113B	12	47629778	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	451382	47629778	86222117	4527	58358											
RPAP3	79657	broad.mit.edu	37	chr12	48096524	48096524	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatccttttgtttaatgtCtttttcccagttttctaaat	8	22	3	8	0	2	0	0	0	2	0	4	0	4	0	2	0	0	2	2	0	4	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:48096524C>A	uc001rpr.2	-	2	216	c.100G>T	c.(100-102)GAC>TAC	p.D34Y	RPAP3_uc010slk.1_Intron|RPAP3_uc001rps.2_Missense_Mutation_p.D34Y	NM_024604	NP_078880	Q9H6T3	RPAP3_HUMAN	RNA polymerase II associated protein 3 isoform	34	TPR 1.						binding			ovary(1)	1	Lung SC(27;0.192)					TGTTTAATGTCTTTTTCCCAG	0.308													17	35					6.94344e-10	7.49515e-10	1	1	0		A	48096524	A	A	48096524	3	1	89	1	0	0	0	0	1	0	0	0	13568	913	32	5	1961	5	RPAP3	12	48096524	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	466746	48096524	85755371	4528	58359											
COL2A1	1280	broad.mit.edu	37	chr12	48380929	48380929	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggccccgtggcccagggaAgccaggagcaccagcaatgc	10	2	15	14	1	0	0	0	0	0	0	0	2	0	2	5	4	4	2	5	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:48380929A>C	uc001rqu.2	-	21	1478	c.1297T>G	c.(1297-1299)TTC>GTC	p.F433V	COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.F364V	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	433	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	GGCCCAGGGAAGCCAGGAGCA	0.642													29	42					0	0	1	0	0		C	48380929	C	C	48380929	3	2	89	1	0	0	0	0	1	0	0	0	3690	72	3	5	3302	5	COL2A1	12	48380929	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	284405	48380929	85470966	4529	58360											
OR8S1	341568	broad.mit.edu	37	chr12	48919915	48919915	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctagctgtaaacatggtCttttgtgaagccaaaatcat	12	13	7	9	0	2	1	1	1	1	0	3	1	3	1	2	1	3	2	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:48919915C>A	uc010slu.1	+	1	501	c.501C>A	c.(499-501)GTC>GTA	p.V167V		NM_001005203	NP_001005203	Q8NH09	OR8S1_HUMAN	olfactory receptor, family 8, subfamily S,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TAAACATGGTCTTTTGTGAAG	0.498													27	90					7.92952e-12	8.72397e-12	1	1	0		A	48919915	A	A	48919915	2	1	89	1	0	0	0	0	0	0	0	1	11265	900	32	5		5	OR8S1	12	48919915	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	538986	48919915	84931980	4530	58361											
CCNT1	904	broad.mit.edu	37	chr12	49087086	49087086	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgggccctttatccagtttCgaatgagggacacgagtttt	8	13	12	8	2	0	1	0	1	0	0	2	4	1	2	2	2	0	2	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:49087086C>T	uc001rse.1	-	9	2234	c.1911G>A	c.(1909-1911)TCG>TCA	p.S637S	LOC144438_uc001rsd.3_5'Flank|CCNT1_uc009zkz.1_Silent_p.S352S	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	637					cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						TATCCAGTTTCGAATGAGGGA	0.512													27	54					0	0	1	0	0		T	49087086	T	T	49087086	2	4	89	1	0	0	0	0	0	0	0	1	2937	871	31	1		1	CCNT1	12	49087086	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	167171	49087086	84764809	4531	58362											
CCNT1	904	broad.mit.edu	37	chr12	49099624	49099624	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgatgacatgttccaatTttttgggctgctcctccact	6	16	7	12	0	0	2	0	2	0	0	3	2	3	2	4	1	1	3	4	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:49099624T>G	uc001rse.1	-	3	622	c.299A>C	c.(298-300)AAA>ACA	p.K100T	CCNT1_uc009zkz.1_5'UTR	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	100					cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						ATGTTCCAATTTTTTGGGCTG	0.388													30	48					0	0	1	0	0		G	49099624	G	G	49099624	3	3	89	1	0	0	0	0	1	0	0	0	2937	1841	64	5	1909	5	CCNT1	12	49099624	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	12538	49099624	84752271	4532	58363											
CCDC65	85478	broad.mit.edu	37	chr12	49298822	49298822	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgggaagtcaagaccagaGaacttcataaggacattgag	15	8	11	7	1	2	3	2	1	0	2	3	6	2	5	1	2	1	0	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:49298822G>T	uc001rso.2	+	2	453	c.226G>T	c.(226-228)GAA>TAA	p.E76*		NM_033124	NP_149115	Q8IXS2	CCD65_HUMAN	coiled-coil domain containing 65	76										ovary(1)|skin(1)	2						CAAGACCAGAGAACTTCATAA	0.458													36	76					2.09667e-21	2.48674e-21	1	1	0		T	49298822	T	T	49298822	4	4	89	1	0	0	0	0	0	1	0	0	2840	943	33	5	232	5	CCDC65	12	49298822	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	199198	49298822	84553073	4533	58364											
LMBR1L	55716	broad.mit.edu	37	chr12	49494202	49494202	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaagacaggaagtgctgaGcttaggaccaggagacagac	15	4	15	7	0	0	5	0	1	0	4	0	9	0	7	1	3	2	2	1	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:49494202G>A	uc001rth.3	-	15	1551	c.1209C>T	c.(1207-1209)AGC>AGT	p.S403S	LMBR1L_uc001rtg.3_Silent_p.S398S|LMBR1L_uc001rti.3_Silent_p.S383S	NM_018113	NP_060583	Q6UX01	LMBRL_HUMAN	lipocalin-interacting membrane receptor	403	Helical; (Potential).				endocytosis	integral to membrane|plasma membrane	receptor activity			pancreas(1)	1						GAAGTGCTGAGCTTAGGACCA	0.428													16	147					0	0	1	0	0		A	49494202	A	A	49494202	2	1	89	1	0	0	0	0	0	0	0	1	8858	962	34	2		2	LMBR1L	12	49494202	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	195380	49494202	84357693	4534	58365											
MCRS1	10445	broad.mit.edu	37	chr12	49959911	49959911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaaggcctgggaggaggctCgcttctgccctgccagtgac	6	7	14	14	1	1	1	0	1	1	0	2	3	1	3	4	4	2	2	4	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:49959911C>T	uc001ruk.1	-	3	289	c.98G>A	c.(97-99)CGA>CAA	p.R33Q	MCRS1_uc001rui.1_Missense_Mutation_p.R46Q|MCRS1_uc001ruj.1_Missense_Mutation_p.R20Q|MCRS1_uc001rul.1_Missense_Mutation_p.R33Q|MCRS1_uc009zlj.1_Intron|MCRS1_uc001rum.1_Missense_Mutation_p.R20Q|MCRS1_uc001run.1_Missense_Mutation_p.R33Q	NM_006337	NP_006328	Q96EZ8	MCRS1_HUMAN	microspherule protein 1 isoform 1	33	Ser-rich.				DNA recombination|DNA repair|protein modification process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|MLL1 complex|nucleolus	protein binding			large_intestine(1)	1						GGAGGAGGCTCGCTTCTGCCC	0.582													44	70					0	0	1	0	0		T	49959911	T	T	49959911	3	4	89	1	0	0	0	0	1	0	0	0	9417	884	31	1	1342	1	MCRS1	12	49959911	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	465709	49959911	83891984	4535	58366											
PRPF40B	25766	broad.mit.edu	37	chr12	50028234	50028234	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaaggaactgctgagggAcaaggtgctggagtggggct	10	8	17	6	0	1	1	1	1	0	0	1	4	1	4	0	6	3	3	0	6	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:50028234A>G	uc001rur.1	+	10	930	c.866A>G	c.(865-867)GAC>GGC	p.D289G	PRPF40B_uc001rup.1_Missense_Mutation_p.D311G|PRPF40B_uc001ruq.1_Missense_Mutation_p.D283G|PRPF40B_uc001rus.1_Missense_Mutation_p.D232G	NM_001031698	NP_001026868	Q6NWY9	PR40B_HUMAN	Huntingtin interacting protein C isoform 1	289	FF 1.				mRNA processing|RNA splicing	nuclear speck				skin(2)|ovary(1)|pancreas(1)|kidney(1)	5						CTGCTGAGGGACAAGGTGCTG	0.612													39	58					0	0	1	0	0		G	50028234	G	G	50028234	3	3	89	1	0	0	0	0	1	0	0	0	12594	275	10	3	904	3	PRPF40B	12	50028234	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	68323	50028234	83823661	4536	58367											
NCKAP5L	57701	broad.mit.edu	37	chr12	50196943	50196943	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgggcaagtgccgagttCtctgcctgcaggagtgaggg	6	8	17	10	1	1	1	0	1	1	0	2	3	1	2	3	3	3	3	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:50196943C>A	uc009zlk.2	-	4	331	c.129G>T	c.(127-129)GAG>GAT	p.E43D		NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	39	Potential.									central_nervous_system(1)	1						GTGCCGAGTTCTCTGCCTGCA	0.572													17	46					1.01871e-10	1.10886e-10	1	1	0		A	50196943	A	A	50196943	3	1	89	1	0	0	0	0	1	0	0	0	10243	912	32	5	3915	5	NCKAP5L	12	50196943	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	168709	50196943	83654952	4537	58368											
AQP5	362	broad.mit.edu	37	chr12	50357924	50357924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccgctcttttggccctgCggtggtcatgaatcggttca	5	12	12	12	3	3	1	2	1	1	0	4	1	3	1	2	4	2	2	2	4	1	3	rs117761535	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:50357924C>T	uc001rvo.2	+	3	1100	c.578C>T	c.(577-579)GCG>GTG	p.A193V		NM_001651	NP_001642	P55064	AQP5_HUMAN	aquaporin 5	193	Extracellular (Potential).				carbon dioxide transport|excretion|odontogenesis|pancreatic juice secretion	apical plasma membrane|integral to plasma membrane	protein binding|water channel activity				0						TTTGGCCCTGCGGTGGTCATG	0.612													23	50					0	0	1	0	0		T	50357924	T	T	50357924	3	4	89	1	0	0	0	0	1	0	0	0	829	768	27	1	588	1	AQP5	12	50357924	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	160981	50357924	83493971	4538	58369											
LARP4	113251	broad.mit.edu	37	chr12	50860866	50860866	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaactcgttttggagaataGgatgtctgatgttgttaaag	11	15	12	3	1	1	3	0	2	1	1	2	5	1	4	0	2	1	3	0	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:50860866G>T	uc001rwp.1	+	13	1652	c.1508G>T	c.(1507-1509)AGG>ATG	p.R503M	LARP4_uc001rwo.1_Missense_Mutation_p.R509M|LARP4_uc001rwq.1_Missense_Mutation_p.R432M|LARP4_uc001rwr.1_Missense_Mutation_p.R432M|LARP4_uc001rws.1_Missense_Mutation_p.R502M|LARP4_uc009zlr.1_Missense_Mutation_p.R322M|LARP4_uc001rwt.1_Missense_Mutation_p.R94M	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a	503							nucleotide binding|RNA binding			ovary(1)	1						TTGGAGAATAGGATGTCTGAT	0.393													32	49					1.88708e-17	2.18811e-17	1	1	0		T	50860866	T	T	50860866	3	4	89	1	0	0	0	0	1	0	0	0	8646	1000	35	5	1562	5	LARP4	12	50860866	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	502942	50860866	82991029	4539	58370											
DIP2B	57609	broad.mit.edu	37	chr12	51069154	51069154	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctacaaaaatccagcagcTtctgaacactctgaaacgac	16	8	5	12	1	3	2	0	2	3	0	4	3	4	2	1	0	5	2	1	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:51069154T>G	uc001rwv.2	+	7	995	c.839T>G	c.(838-840)CTT>CGT	p.L280R	DIP2B_uc001rwu.2_Missense_Mutation_p.L280R|DIP2B_uc009zls.1_Missense_Mutation_p.L162R	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	280						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						ATCCAGCAGCTTCTGAACACT	0.363													31	57					0	0	1	0	0		G	51069154	G	G	51069154	3	3	89	1	0	0	0	0	1	0	0	0	4534	1609	56	5	865	5	DIP2B	12	51069154	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	208288	51069154	82782741	4540	58371											
DIP2B	57609	broad.mit.edu	37	chr12	51133264	51133264	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagactcttcaagctgatCatttcaacactcgcctcagc	10	10	7	14	2	5	2	4	1	1	1	6	3	5	2	1	0	3	1	1	0	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:51133264C>A	uc001rwv.2	+	36	4405	c.4249C>A	c.(4249-4251)CAT>AAT	p.H1417N	DIP2B_uc009zlt.2_Missense_Mutation_p.H847N	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1417						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						TCAAGCTGATCATTTCAACAC	0.517													21	82					2.37509e-13	2.65549e-13	1	1	0		A	51133264	A	A	51133264	3	1	89	1	0	0	0	0	1	0	0	0	4534	826	29	5	4391	5	DIP2B	12	51133264	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	64110	51133264	82718631	4541	58372											
DAZAP2	9802	broad.mit.edu	37	chr12	51636389	51636389	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcccaaactttcaggcacTtttcaaatttaataaggaac	14	12	6	9	0	2	0	2	0	0	0	2	1	2	1	1	2	3	1	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:51636389T>C	uc010snd.1	+	4	761	c.577T>C	c.(577-579)TTT>CTT	p.F193L	DAZAP2_uc001ryb.2_3'UTR|DAZAP2_uc010snc.1_3'UTR|DAZAP2_uc010sne.1_3'UTR|DAZAP2_uc010snf.1_Intron	NM_001136266	NP_001129738	Q15038	DAZP2_HUMAN	DAZ associated protein 2 isoform c	Error:Variant_position_missing_in_Q15038_after_alignment							WW domain binding				0						TTTCAGGCACTTTTCAAATTT	0.408													6	10					0	0	1	0	0		C	51636389	C	C	51636389	3	2	89	1	0	0	0	0	1	0	0	0	4248	1609	56	3	668	3	DAZAP2	12	51636389	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	503125	51636389	82215506	4542	58373											
ANKRD33	341405	broad.mit.edu	37	chr12	52284396	52284396	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacagcagtggaccctgtTcggggcaagacggccctgga	8	6	15	12	2	0	2	0	1	0	1	1	4	0	4	2	5	1	3	2	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:52284396T>C	uc001rzf.3	+	5	870	c.291T>C	c.(289-291)GTT>GTC	p.V97V	ANKRD33_uc001rzh.3_3'UTR|ANKRD33_uc001rzd.2_Silent_p.V222V|ANKRD33_uc001rze.2_Silent_p.V118V|ANKRD33_uc001rzg.3_Silent_p.V24V|ANKRD33_uc001rzi.3_Silent_p.V97V	NM_001130015	NP_001123487	Q7Z3H0	ANR33_HUMAN	ankyrin repeat domain 33 isoform 1	97											0				BRCA - Breast invasive adenocarcinoma(357;0.0969)		TGGACCCTGTTCGGGGCAAGA	0.612													18	19					0	0	1	0	0		C	52284396	C	C	52284396	2	2	89	1	0	0	0	0	0	0	0	1	661	1770	62	3		3	ANKRD33	12	52284396	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	648007	52284396	81567499	4543	58374											
KRT7	3855	broad.mit.edu	37	chr12	52636852	52636852	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacgacctccggaatacccgGaatgagatttcagagatgaa	14	7	11	9	3	1	3	1	2	0	2	2	9	2	5	3	2	1	0	3	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:52636852G>A	uc001saa.1	+	6	1042	c.915G>A	c.(913-915)CGG>CGA	p.R305R	KRT7_uc009zmf.1_Silent_p.R305R	NM_005556	NP_005547	P08729	K2C7_HUMAN	keratin 7	305	Rod.|Coil 2.				cytoskeleton organization|DNA replication|interphase|interspecies interaction between organisms|regulation of translation	Golgi apparatus|keratin filament|nucleus	protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.105)		GGAATACCCGGAATGAGATTT	0.577													22	47					0	0	1	0	0		A	52636852	A	A	52636852	2	1	89	1	0	0	0	0	0	0	0	1	8499	1161	41	4		4	KRT7	12	52636852	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	352456	52636852	81215043	4544	58375											
KRT82	3888	broad.mit.edu	37	chr12	52799669	52799669	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accttgttgatgaaagatgcGaaacggttgttgaggcactt	11	12	12	6	2	0	4	0	3	0	1	0	5	0	4	1	2	2	4	1	2	2	5	rs149898957		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:52799669G>A	uc001sai.1	-	1	508	c.393C>T	c.(391-393)TTC>TTT	p.F131F		NM_033033	NP_149022	Q9NSB4	KRT82_HUMAN	keratin 82	131	Coil 1A.|Rod.					keratin filament	protein binding|structural constituent of epidermis			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.193)		TGAAAGATGCGAAACGGTTGT	0.567													138	275					0	0	1	0	0		A	52799669	A	A	52799669	2	1	89	1	0	0	0	0	0	0	0	1	8512	1049	37	1		1	KRT82	12	52799669	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	162817	52799669	81052226	4545	58376											
KRT6B	3854	broad.mit.edu	37	chr12	52843820	52843820	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagagtcacaaattcattCtctgctgctgtgcgcttgtt	7	16	8	10	1	4	1	3	0	1	1	5	1	4	1	0	0	3	4	0	0	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:52843820C>A	uc001sak.2	-	3	840	c.792G>T	c.(790-792)GAG>GAT	p.E264D		NM_005555	NP_005546	P04259	K2C6B_HUMAN	keratin 6B	264	Coil 1B.|Rod.				ectoderm development	keratin filament	structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.083)		CAAATTCATTCTCTGCTGCTG	0.473													14	159					0.000219431	0.000224109	1	1	0		A	52843820	A	A	52843820	3	1	89	1	0	0	0	0	1	0	0	0	8497	912	32	5	930	5	KRT6B	12	52843820	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44151	52843820	81008075	4546	58377											
KRT6C	286887	broad.mit.edu	37	chr12	52862857	52862857	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcagcactttagtgcttgtAgctcttcctgctggaggagg	6	12	14	9	0	1	0	0	0	1	0	2	2	2	2	1	4	4	6	1	4	2	5	rs147501308		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:52862857A>G	uc001sal.3	-	9	1732	c.1684T>C	c.(1684-1686)TAC>CAC	p.Y562H		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C	562	Tail.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)		TAGTGCTTGTAGCTCTTCCTG	0.607													33	62					0	0	1	0	0		G	52862857	G	G	52862857	3	3	89	1	0	0	0	0	1	0	0	0	8498	420	15	3	14	3	KRT6C	12	52862857	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	19037	52862857	80989038	4547	58378											
KRT6C	286887	broad.mit.edu	37	chr12	52865480	52865480	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagagtcacaaattcattCtctgctgctgtgcgcttgtt	7	16	8	10	1	4	1	3	0	1	1	5	1	4	1	0	0	3	4	0	0	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:52865480C>A	uc001sal.3	-	3	840	c.792G>T	c.(790-792)GAG>GAT	p.E264D		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C	264	Coil 1B.|Rod.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)		CAAATTCATTCTCTGCTGCTG	0.473													32	118					4.67007e-22	5.55902e-22	1	1	0		A	52865480	A	A	52865480	3	1	89	1	0	0	0	0	1	0	0	0	8498	912	32	5	930	5	KRT6C	12	52865480	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2623	52865480	80986415	4548	58379											
KRT72	140807	broad.mit.edu	37	chr12	52994829	52994829	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accttgtcgatgaaggaggcGaacttgttgtttagcgcctt	8	13	12	8	3	0	1	0	1	0	0	1	4	0	2	2	2	2	2	2	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:52994829G>A	uc001sar.2	-	1	494	c.408C>T	c.(406-408)TTC>TTT	p.F136F	KRT72_uc001saq.2_Silent_p.F136F|KRT72_uc010sns.1_Silent_p.F136F|KRT72_uc010snt.1_5'UTR	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	136	Coil 1A.|Rod.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		TGAAGGAGGCGAACTTGTTGT	0.537													45	82					0	0	1	0	0		A	52994829	A	A	52994829	2	1	89	1	0	0	0	0	0	0	0	1	8501	1049	37	1		1	KRT72	12	52994829	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	129349	52994829	80857066	4549	58380											
KRT1	3848	broad.mit.edu	37	chr12	53074020	53074020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccaccacctcctccactgCggcgtgtggagctgctggtg	4	9	12	16	2	0	0	0	0	0	0	3	1	3	1	5	3	3	2	5	3	0	0	rs34787940	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:53074020C>T	uc001sau.1	-	1	172	c.113G>A	c.(112-114)CGC>CAC	p.R38H	KRT1_uc001sav.1_Missense_Mutation_p.R38H	NM_006121	NP_006112	P04264	K2C1_HUMAN	keratin 1	38	Head.|Gly/Phe/Ser-rich.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding			ovary(1)|skin(1)	2						TCCTCCACTGCGGCGTGTGGA	0.453													25	36					0	0	1	0	0		T	53074020	T	T	53074020	3	4	89	1	0	0	0	0	1	0	0	0	8463	768	27	1	1857	1	KRT1	12	53074020	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	79191	53074020	80777875	4550	58381											
KRT76	51350	broad.mit.edu	37	chr12	53170559	53170559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacttgcccaatctgggggtCgatctccacattgaggggct	7	11	12	11	1	2	1	0	1	2	0	4	2	2	1	2	4	2	1	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:53170559C>T	uc001sax.2	-	1	571	c.517G>A	c.(517-519)GAC>AAC	p.D173N		NM_015848	NP_056932	Q01546	K22O_HUMAN	keratin 76	173	Head.				cytoskeleton organization	keratin filament	structural molecule activity			breast(1)|skin(1)	2						ATCTGGGGGTCGATCTCCACA	0.502													23	49					0	0	1	0	0		T	53170559	T	T	53170559	3	4	89	1	0	0	0	0	1	0	0	0	8505	884	31	1	1435	1	KRT76	12	53170559	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	96539	53170559	80681336	4551	58382											
KRT4	3851	broad.mit.edu	37	chr12	53202570	53202570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgtccaggtccaggttgCggttgttgtccatggaaagg	6	12	15	8	1	0	0	0	0	0	0	3	1	3	1	3	5	2	4	3	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:53202570C>T	uc001saz.2	-	5	1392	c.1121G>A	c.(1120-1122)CGC>CAC	p.R374H		NM_002272	NP_002263	B4DRS2	B4DRS2_HUMAN	keratin 4	300						keratin filament	structural molecule activity			ovary(4)|skin(2)	6						GTCCAGGTTGCGGTTGTTGTC	0.592													40	71					0	0	1	0	0		T	53202570	T	T	53202570	3	4	89	1	0	0	0	0	1	0	0	0	8493	768	27	1	683	1	KRT4	12	53202570	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	32011	53202570	80649325	4552	58383											
CSAD	51380	broad.mit.edu	37	chr12	53564258	53564258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtgccaagtcccagaaacGcagctcccttctggatggag	9	7	12	13	2	1	1	0	0	1	1	3	3	3	3	3	3	3	2	3	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:53564258G>A	uc001sby.2	-	8	722	c.596C>T	c.(595-597)GCG>GTG	p.A199V	CSAD_uc001sbw.2_Missense_Mutation_p.A52V|CSAD_uc009zmt.2_5'UTR|CSAD_uc010snx.1_Missense_Mutation_p.A226V|CSAD_uc001sbz.2_Missense_Mutation_p.A199V|CSAD_uc009zmu.2_Missense_Mutation_p.A52V|CSAD_uc001sca.3_RNA	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	199					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	TCCCAGAAACGCAGCTCCCTT	0.552									Hereditary_Prostate_Cancer				26	62					0	0	1	0	0		A	53564258	A	A	53564258	3	1	89	1	0	0	0	0	1	0	0	0	3928	1087	38	1	921	1	CSAD	12	53564258	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	361688	53564258	80287637	4553	58384											
ESPL1	9700	broad.mit.edu	37	chr12	53680078	53680078	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtctggatctgctgcaggtCgtgctgaagggctgtcctga	5	11	16	9	1	2	2	0	2	2	0	4	3	3	3	1	4	3	4	1	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:53680078C>T	uc001sck.2	+	18	3649	c.3558C>T	c.(3556-3558)GTC>GTT	p.V1186V	ESPL1_uc001scj.2_Silent_p.V861V|ESPL1_uc010soe.1_Intron	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1186					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						TGCTGCAGGTCGTGCTGAAGG	0.617													34	80					0	0	1	0	0		T	53680078	T	T	53680078	2	4	89	1	0	0	0	0	0	0	0	1	5261	871	31	1		1	ESPL1	12	53680078	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	115820	53680078	80171817	4554	58385											
MAP3K12	7786	broad.mit.edu	37	chr12	53880773	53880773	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggagtaggctttgccaaTcatggtccagacagggcgca	10	8	14	9	1	1	1	1	0	0	1	2	2	2	2	2	4	1	3	2	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:53880773T>C	uc001sdm.1	-	3	402	c.304A>G	c.(304-306)ATT>GTT	p.I102V	MAP3K12_uc001sdn.1_Missense_Mutation_p.I135V	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	102					histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						GCTTTGCCAATCATGGTCCAG	0.602													28	58					0	0	1	0	0		C	53880773	C	C	53880773	3	2	89	1	0	0	0	0	1	0	0	0	9264	1435	50	3	2327	3	MAP3K12	12	53880773	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	200695	53880773	79971122	4555	58386											
HOXC12	3228	broad.mit.edu	37	chr12	54350167	54350167	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaagcgcaagccctattcGaagttgcaactggcagagct	13	7	11	10	2	0	2	0	0	0	2	1	3	0	2	1	1	5	5	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:54350167G>A	uc010soq.1	+	2	666	c.666G>A	c.(664-666)TCG>TCA	p.S222S		NM_173860	NP_776272	P31275	HXC12_HUMAN	homeobox C12	222	Homeobox.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						AGCCCTATTCGAAGTTGCAAC	0.582													64	110					0	0	1	0	0		A	54350167	A	A	54350167	2	1	89	1	0	0	0	0	0	0	0	1	7327	1045	37	1		1	HOXC12	12	54350167	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	469394	54350167	79501728	4556	58387											
HOXC6	3223	broad.mit.edu	37	chr12	54423519	54423519	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaactggagaaggaatttCacttcaatcgctacctaacg	13	10	9	9	2	2	1	2	0	0	1	3	4	2	3	1	3	3	1	1	3	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:54423519C>A	uc001sev.2	+	2	593	c.481C>A	c.(481-483)CAC>AAC	p.H161N	HOXC6_uc001ses.2_Missense_Mutation_p.H79N|HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron	NM_004503	NP_004494	P09630	HXC6_HUMAN	homeobox C6 isoform 1	161	Homeobox.				regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|upper_aerodigestive_tract(1)	3						GAAGGAATTTCACTTCAATCG	0.602													42	113					1.15183e-24	1.38497e-24	1	1	0		A	54423519	A	A	54423519	3	1	89	1	0	0	0	0	1	0	0	0	7331	826	29	5	487	5	HOXC6	12	54423519	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	73352	54423519	79428376	4557	58388											
HOXC5	3222	broad.mit.edu	37	chr12	54428171	54428171	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgccgcaggcgcatagagatCgccaacaacttgtgtctcaa	11	7	10	13	4	1	1	1	0	1	1	3	2	1	1	2	1	2	2	2	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:54428171C>T	uc001sew.2	+	2	639	c.564C>T	c.(562-564)ATC>ATT	p.I188I	HOXC5_uc001set.2_RNA|HOXC4_uc001seu.2_Intron	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	188	Homeobox.				regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GCATAGAGATCGCCAACAACT	0.498													45	72					0	0	1	0	0		T	54428171	T	T	54428171	2	4	89	1	0	0	0	0	0	0	0	1	7330	874	31	1		1	HOXC5	12	54428171	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4652	54428171	79423724	4558	58389											
OR6C3	254786	broad.mit.edu	37	chr12	55725556	55725556	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgaccttcagattgtgatTtttctctttttatttatcac	7	21	4	9	0	3	3	2	2	1	1	4	3	3	3	2	0	0	0	2	0	2	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:55725556T>G	uc010spj.1	+	1	72	c.72T>G	c.(70-72)ATT>ATG	p.I24M		NM_054104	NP_473445	Q9NZP0	OR6C3_HUMAN	olfactory receptor, family 6, subfamily C,	24	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AGATTGTGATTTTTCTCTTTT	0.418													46	97					0	0	1	0	0		G	55725556	G	G	55725556	3	3	89	1	0	0	0	0	1	0	0	0	11211	1829	64	5	74	5	OR6C3	12	55725556	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1297385	55725556	78126339	4559	58390											
OR6C70	390327	broad.mit.edu	37	chr12	55863404	55863404	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatgtcacaaatgaaatgAtcaatgatatttgaagcaca	19	10	7	5	0	2	4	2	4	0	0	2	5	2	4	0	0	1	1	0	0	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:55863404A>G	uc010spn.1	-	1	519	c.519T>C	c.(517-519)GAT>GAC	p.D173D		NM_001005499	NP_001005499	A6NIJ9	O6C70_HUMAN	olfactory receptor, family 6, subfamily C,	173	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AAATGAAATGATCAATGATAT	0.358													45	96					0	0	1	0	0		G	55863404	G	G	55863404	2	3	89	1	0	0	0	0	0	0	0	1	11216	330	12	3		3	OR6C70	12	55863404	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	137848	55863404	77988491	4560	58391											
OR6C68	403284	broad.mit.edu	37	chr12	55886733	55886733	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataccatgctcagacacatCattaattgagcagatggttg	14	11	8	8	0	2	3	2	1	0	2	2	3	2	3	1	1	3	3	1	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:55886733C>A	uc010spo.1	+	1	587	c.587C>A	c.(586-588)TCA>TAA	p.S196*		NM_001005519	NP_001005519	A6NDL8	O6C68_HUMAN	olfactory receptor, family 6, subfamily C,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TCAGACACATCATTAATTGAG	0.353													20	39					1.33834e-09	1.43956e-09	1	1	0		A	55886733	A	A	55886733	4	1	89	1	0	0	0	0	0	1	0	0	11215	838	29	5	589	5	OR6C68	12	55886733	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	23329	55886733	77965162	4561	58392											
DNAJC14	85406	broad.mit.edu	37	chr12	56215887	56215887	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgaggagctgcaaagaagttCccattgggcatctgccctgg	9	9	13	10	0	1	2	0	1	1	1	2	3	2	3	2	3	3	4	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:56215887C>T	uc001shx.1	-	7	2187	c.1983G>A	c.(1981-1983)GGG>GGA	p.G661G	DNAJC14_uc001shu.1_Silent_p.G661G|DNAJC14_uc009zob.1_Silent_p.G661G	NM_032364	NP_115740	Q6Y2X3	DJC14_HUMAN	dopamine receptor interacting protein	661					protein folding|protein transport	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|unfolded protein binding			ovary(3)|large_intestine(1)	4						CAAAGAAGTTCCCATTGGGCA	0.562													24	48					0	0	1	0	0		T	56215887	T	T	56215887	2	4	89	1	0	0	0	0	0	0	0	1	4639	842	30	4		4	DNAJC14	12	56215887	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	329154	56215887	77636008	4562	58393											
MMP19	4327	broad.mit.edu	37	chr12	56231717	56231717	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaagggcagacactcggaAcaaggggcccggtcctgaat	12	4	13	12	2	0	2	0	1	0	1	2	3	1	3	3	5	1	1	3	5	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:56231717A>G	uc001sib.2	-	7	1091	c.970T>C	c.(970-972)TTC>CTC	p.F324L	MMP19_uc001sia.2_Missense_Mutation_p.F38L|MMP19_uc001sid.2_RNA|MMP19_uc010spw.1_Missense_Mutation_p.V277A	NM_002429	NP_002420	Q99542	MMP19_HUMAN	matrix metalloproteinase 19 isoform rasi-1	324	Hemopexin-like 1.				angiogenesis|cell differentiation|collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)	1						GACACTCGGAACAAGGGGCCC	0.552													27	61					0	0	1	0	0		G	56231717	G	G	56231717	3	3	89	1	0	0	0	0	1	0	0	0	9675	43	2	3	568	3	MMP19	12	56231717	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	15830	56231717	77620178	4563	58394											
SILV	6490	broad.mit.edu	37	chr12	56349139	56349139	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacctgcccaaggcctgctTcttgacctgtgagaagaatc	10	9	10	12	0	1	3	0	2	1	2	2	5	1	3	4	1	3	1	4	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:56349139T>G	uc001sip.2	-	10	1800	c.1769A>C	c.(1768-1770)GAA>GCA	p.E590A	SILV_uc001siq.2_Missense_Mutation_p.E597A|SILV_uc010spx.1_Missense_Mutation_p.E504A|SILV_uc001sir.2_Missense_Mutation_p.E590A	NM_006928	NP_008859	P40967	PMEL_HUMAN	silver homolog	590	Lumenal (Potential).				melanin biosynthetic process|melanosome organization	endoplasmic reticulum membrane|extracellular region|Golgi apparatus|integral to membrane|melanosome|multivesicular body membrane|plasma membrane	protein binding				0						AAGGCCTGCTTCTTGACCTGT	0.532													72	125					0	0	1	0	0		G	56349139	G	G	56349139	3	3	89	1	0	0	0	0	1	0	0	0	14347	1783	62	5	224	5	SILV	12	56349139	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	117422	56349139	77502756	4564	58395											
SILV	6490	broad.mit.edu	37	chr12	56349922	56349922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacggaaaaggaaccatatCgatacagaacacaatccagg	18	5	9	9	2	0	2	0	1	0	1	2	5	1	4	2	3	3	0	2	3	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:56349922C>T	uc001sip.2	-	7	1467	c.1436G>A	c.(1435-1437)CGA>CAA	p.R479Q	SILV_uc001siq.2_Missense_Mutation_p.R479Q|SILV_uc010spx.1_Missense_Mutation_p.R393Q|SILV_uc001sir.2_Missense_Mutation_p.R479Q	NM_006928	NP_008859	P40967	PMEL_HUMAN	silver homolog	479	Lumenal (Potential).				melanin biosynthetic process|melanosome organization	endoplasmic reticulum membrane|extracellular region|Golgi apparatus|integral to membrane|melanosome|multivesicular body membrane|plasma membrane	protein binding				0						GGAACCATATCGATACAGAAC	0.557											OREG0021914	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	70					0	0	1	0	0		T	56349922	T	T	56349922	3	4	89	1	0	0	0	0	1	0	0	0	14347	884	31	1	569	1	SILV	12	56349922	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	783	56349922	77501973	4565	58396											
ESYT1	23344	broad.mit.edu	37	chr12	56526515	56526515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccccaggtgatggtacacGaggtcccagggcaggagatt	9	8	14	10	1	0	2	0	1	0	1	2	4	2	2	3	5	1	2	3	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:56526515G>A	uc001sjq.2	+	10	1224	c.1174G>A	c.(1174-1176)GAG>AAG	p.E392K	ESYT1_uc001sjr.2_Missense_Mutation_p.E392K	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	392	C2 1.					integral to membrane				ovary(4)|skin(1)	5						GATGGTACACGAGGTCCCAGG	0.527													19	43					0	0	1	0	0		A	56526515	A	A	56526515	3	1	89	1	0	0	0	0	1	0	0	0	5272	1059	37	1	1212	1	ESYT1	12	56526515	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	176593	56526515	77325380	4566	58397											
ANKRD52	283373	broad.mit.edu	37	chr12	56648032	56648032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtagcaggcgatgtgcaaaGctgtgtttccaaaagcattg	11	10	13	7	1	0	0	0	0	0	0	1	1	1	0	1	2	4	6	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:56648032G>A	uc001skm.3	-	8	815	c.725C>T	c.(724-726)GCT>GTT	p.A242V	ANKRD52_uc001skn.1_RNA	NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	242	ANK 8.						protein binding			ovary(2)	2						GATGTGCAAAGCTGTGTTTCC	0.507													69	170					0	0	1	0	0		A	56648032	A	A	56648032	3	1	89	1	0	0	0	0	1	0	0	0	678	971	34	2	2589	2	ANKRD52	12	56648032	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	121517	56648032	77203863	4567	58398											
CS	1431	broad.mit.edu	37	chr12	56693974	56693974	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagccgggcggccgcagtAagtaaagccatggcgggcga	11	3	17	10	5	0	1	0	0	0	1	0	2	0	1	3	4	2	3	3	4	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:56693974A>C	uc001sks.1	-	1	202	c.12T>G	c.(10-12)CTT>CTG	p.L4L	CS_uc010sql.1_5'UTR|CS_uc001skr.1_5'UTR|CS_uc001skt.1_5'UTR	NM_004077	NP_004068	O75390	CISY_HUMAN	citrate synthase precursor	4					cellular carbohydrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	citrate (Si)-synthase activity				0		Myeloproliferative disorder(1001;0.000374)		BRCA - Breast invasive adenocarcinoma(357;6.17e-07)		CGGCCGCAGTAAGTAAAGCCA	0.706													3	4					0	0	1	0	0		C	56693974	C	C	56693974	2	2	89	1	0	0	0	0	0	0	0	1	3927	349	13	5		5	CS	12	56693974	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	45942	56693974	77157921	4568	58399											
STAT2	6773	broad.mit.edu	37	chr12	56740662	56740662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctgacgattcactgaagCgcagtagaaaggtgccagac	12	8	11	10	2	2	4	1	2	1	2	2	5	2	4	1	1	2	2	1	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:56740662C>T	uc001slc.2	-	20	1880	c.1802G>A	c.(1801-1803)CGC>CAC	p.R601H	STAT2_uc001slb.2_Missense_Mutation_p.R143H|STAT2_uc001sld.2_Missense_Mutation_p.R597H	NM_005419	NP_005410	P52630	STAT2_HUMAN	signal transducer and activator of transcription	601	SH2.				interspecies interaction between organisms|JAK-STAT cascade|regulation of transcription from RNA polymerase II promoter|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	cytosol|nucleoplasm|plasma membrane	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						TTCACTGAAGCGCAGTAGAAA	0.587													32	68					0	0	1	0	0		T	56740662	T	T	56740662	3	4	89	1	0	0	0	0	1	0	0	0	15290	768	27	1	773	1	STAT2	12	56740662	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	46688	56740662	77111233	4569	58400											
APOF	319	broad.mit.edu	37	chr12	56755504	56755504	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgtcgggagggagcgcccGacccttcctgtgctttgctg	3	11	14	13	3	1	0	0	0	1	0	3	3	2	2	3	2	3	2	3	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:56755504G>A	uc001sle.1	-	2	540	c.486C>T	c.(484-486)GTC>GTT	p.V162V		NM_001638	NP_001629	Q13790	APOF_HUMAN	apolipoprotein F precursor	162					cholesterol metabolic process	high-density lipoprotein particle|low-density lipoprotein particle	cholesterol binding|lipid transporter activity|receptor binding				0						GGGAGCGCCCGACCCTTCCTG	0.587													4	25					0	0	1	0	0		A	56755504	A	A	56755504	2	1	89	1	0	0	0	0	0	0	0	1	803	1045	37	1		1	APOF	12	56755504	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14842	56755504	77096391	4570	58401											
BAZ2A	11176	broad.mit.edu	37	chr12	57000092	57000092	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttgtttccgcttatttCtggcctgtaaaccataaggg	7	16	8	10	1	2	0	0	0	2	0	4	0	3	0	3	2	1	3	3	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:57000092C>A	uc001slq.1	-	12	2398	c.2204G>T	c.(2203-2205)AGA>ATA	p.R735I	BAZ2A_uc001slp.1_Missense_Mutation_p.R733I|BAZ2A_uc009zov.1_5'Flank|BAZ2A_uc009zow.1_Missense_Mutation_p.R703I	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	735	Lys-rich.|Potential.				chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						CCGCTTATTTCTGGCCTGTAA	0.438													24	29					3.08376e-08	3.26638e-08	1	1	0		A	57000092	A	A	57000092	3	1	89	1	0	0	0	0	1	0	0	0	1332	913	32	5	3585	5	BAZ2A	12	57000092	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	244588	57000092	76851803	4571	58402											
HSD17B6	8630	broad.mit.edu	37	chr12	57167906	57167906	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttaccaagatggagagcatCgctgcagctactcagtgggt	10	9	13	9	1	1	2	1	0	0	2	2	3	1	2	1	2	5	5	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:57167906C>T	uc001smg.1	+	2	380	c.270C>T	c.(268-270)ATC>ATT	p.I90I		NM_003725	NP_003716	O14756	H17B6_HUMAN	hydroxysteroid (17-beta) dehydrogenase 6	90					androgen biosynthetic process|androgen catabolic process	early endosome membrane|endoplasmic reticulum|microsome	binding|electron carrier activity|estradiol 17-beta-dehydrogenase activity|retinol dehydrogenase activity|testosterone 17-beta-dehydrogenase (NAD+) activity			upper_aerodigestive_tract(1)|pancreas(1)	2					Succinic acid(DB00139)	TGGAGAGCATCGCTGCAGCTA	0.512													23	62					0	0	1	0	0		T	57167906	T	T	57167906	2	4	89	1	0	0	0	0	0	0	0	1	7403	874	31	1		1	HSD17B6	12	57167906	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	167814	57167906	76683989	4572	58403											
HSD17B6	8630	broad.mit.edu	37	chr12	57180939	57180939	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgaaggaagggctgttgaAttgtagcacaaacctgaacc	14	8	11	8	0	0	3	0	3	0	0	0	4	0	4	2	2	3	4	2	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:57180939A>C	uc001smg.1	+	5	877	c.767A>C	c.(766-768)AAT>ACT	p.N256T		NM_003725	NP_003716	O14756	H17B6_HUMAN	hydroxysteroid (17-beta) dehydrogenase 6	256					androgen biosynthetic process|androgen catabolic process	early endosome membrane|endoplasmic reticulum|microsome	binding|electron carrier activity|estradiol 17-beta-dehydrogenase activity|retinol dehydrogenase activity|testosterone 17-beta-dehydrogenase (NAD+) activity			upper_aerodigestive_tract(1)|pancreas(1)	2					Succinic acid(DB00139)	GGGCTGTTGAATTGTAGCACA	0.403													35	61					0	0	1	0	0		C	57180939	C	C	57180939	3	2	89	1	0	0	0	0	1	0	0	0	7403	101	4	5	781	5	HSD17B6	12	57180939	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	13033	57180939	76670956	4573	58404											
MYO1A	4640	broad.mit.edu	37	chr12	57441820	57441820	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtcttgatatttggcaatGaactctggcccatagatggg	10	13	11	7	0	2	3	0	2	2	1	2	3	2	3	1	3	1	1	1	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:57441820G>T	uc001smw.3	-	3	426	c.183C>A	c.(181-183)TTC>TTA	p.F61L	MYO1A_uc010sqz.1_5'Flank|MYO1A_uc009zpd.2_Missense_Mutation_p.F61L	NM_005379	NP_005370	Q9UBC5	MYO1A_HUMAN	myosin IA	61	Myosin head-like.				sensory perception of sound|vesicle localization	brush border|cortical actin cytoskeleton|filamentous actin|lateral plasma membrane|microvillus|myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|urinary_tract(1)	7						ATTTGGCAATGAACTCTGGCC	0.498													20	44					2.89027e-11	3.162e-11	1	1	0		T	57441820	T	T	57441820	3	4	89	1	0	0	0	0	1	0	0	0	10086	1281	45	5	3052	5	MYO1A	12	57441820	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	260881	57441820	76410075	4574	58405											
PIP4K2C	79837	broad.mit.edu	37	chr12	57993209	57993209	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagtgtcccgggaagccagCgataaggaaaaggtgatagt	13	7	14	7	2	0	1	0	1	0	0	1	4	1	3	2	3	2	0	2	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:57993209C>T	uc001sou.2	+	6	818	c.687C>T	c.(685-687)AGC>AGT	p.S229S	PIP4K2C_uc001sot.2_Silent_p.S229S|PIP4K2C_uc010srs.1_Silent_p.S211S|PIP4K2C_uc010srt.1_Silent_p.S181S	NM_001146258	NP_001139730	Q8TBX8	PI42C_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	229	PIPK.					cytoplasm|membrane	1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|identical protein binding			central_nervous_system(2)|lung(1)	3	Melanoma(17;0.122)					GGGAAGCCAGCGATAAGGAAA	0.502													20	43					0	0	1	0	0		T	57993209	T	T	57993209	2	4	89	1	0	0	0	0	0	0	0	1	11957	767	27	1		1	PIP4K2C	12	57993209	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	551389	57993209	75858686	4575	58406											
GEFT	115557	broad.mit.edu	37	chr12	58005727	58005727	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcctgtccccgtgtgatccGaaaagtgctggcaaaatgcg	9	9	12	11	3	0	1	0	1	0	0	2	2	2	1	4	1	3	2	4	1	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:58005727G>A	uc001spb.2	+	1	510	c.50G>A	c.(49-51)CGA>CAA	p.R17Q	GEFT_uc009zpy.2_Intron|GEFT_uc001soz.1_Intron|GEFT_uc001spa.2_5'UTR|GEFT_uc001spd.2_5'Flank	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	17					regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					CGTGTGATCCGAAAAGTGCTG	0.537													5	21					0	0	1	0	0		A	58005727	A	A	58005727	3	1	89	1	0	0	0	0	1	0	0	0	6343	1058	37	1	274	1	GEFT	12	58005727	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12518	58005727	75846168	4576	58407											
GEFT	115557	broad.mit.edu	37	chr12	58010244	58010244	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgtcacccaaaggggAggtggccagagccctcttgc	7	7	14	13	0	2	1	1	0	1	1	2	2	2	2	3	4	3	2	3	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:58010244A>G	uc001spb.2	+	14	2058	c.1598A>G	c.(1597-1599)GAG>GGG	p.E533G	GEFT_uc009zpy.2_Missense_Mutation_p.E572G|GEFT_uc001spa.2_Missense_Mutation_p.E427G|uc001spc.2_Intron|GEFT_uc001spd.2_Missense_Mutation_p.E238G	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	533					regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					CCCAAAGGGGAGGTGGCCAGA	0.562													13	38					0	0	1	0	0		G	58010244	G	G	58010244	3	3	89	1	0	0	0	0	1	0	0	0	6343	304	11	3	1874	3	GEFT	12	58010244	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4517	58010244	75841651	4577	58408											
SLC26A10	65012	broad.mit.edu	37	chr12	58015518	58015518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcctcggagcagtccggccGaactgaccatctccgcgctc	6	7	11	17	5	1	1	0	1	1	0	5	3	2	2	5	2	3	2	5	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:58015518G>A	uc001spe.2	+	4	912	c.601G>A	c.(601-603)GAA>AAA	p.E201K	SLC26A10_uc001spf.2_RNA|SLC26A10_uc009zpz.1_5'Flank	NM_133489	NP_597996	Q8NG04	S2610_HUMAN	solute carrier family 26, member 10	201						integral to membrane	antiporter activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(17;0.122)					CAGTCCGGCCGAACTGACCAT	0.687											OREG0021948	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	13					0	0	1	0	0		A	58015518	A	A	58015518	3	1	89	1	0	0	0	0	1	0	0	0	14540	1059	37	1	615	1	SLC26A10	12	58015518	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5274	58015518	75836377	4578	58409											
B4GALNT1	2583	broad.mit.edu	37	chr12	58024083	58024083	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtcacttcccctgccacGtcccaggtgcctagggaggc	6	7	11	17	1	1	0	1	0	0	0	3	1	3	1	6	3	2	0	6	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:58024083G>A	uc001spg.1	-	6	996	c.564C>T	c.(562-564)GAC>GAT	p.D188D	B4GALNT1_uc010sru.1_Silent_p.D133D|B4GALNT1_uc010srv.1_Silent_p.D188D|B4GALNT1_uc001sph.2_Silent_p.D188D|B4GALNT1_uc001spi.2_Silent_p.D188D	NM_001478	NP_001469	Q00973	B4GN1_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 1	188	Lumenal (Potential).				lipid glycosylation	integral to Golgi membrane|membrane fraction	(N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase activity				0	Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			CCCCTGCCACGTCCCAGGTGC	0.592													9	34					0	0	1	0	0		A	58024083	A	A	58024083	2	1	89	1	0	0	0	0	0	0	0	1	1267	1136	40	1		1	B4GALNT1	12	58024083	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8565	58024083	75827812	4579	58410											
CYP27B1	1594	broad.mit.edu	37	chr12	58159172	58159172	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcgcctcagacgccgcAcaaggtcgcagactacgttg	8	6	13	14	5	1	2	1	0	0	2	2	2	1	2	2	2	1	4	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:58159172A>G	uc001spz.1	-	3	649	c.497T>C	c.(496-498)GTG>GCG	p.V166A	CYP27B1_uc001sqa.1_5'UTR|CYP27B1_uc001sqb.1_Silent_p.C46C|CYP27B1_uc001sqc.1_Silent_p.C46C	NM_000785	NP_000776	O15528	CP27B_HUMAN	cytochrome P450, family 27, subfamily B,	166					bone mineralization|calcium ion homeostasis|calcium ion transport|decidualization|G1 to G0 transition|hormone biosynthetic process|negative regulation of calcidiol 1-monooxygenase activity|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of keratinocyte differentiation|positive regulation of vitamin D 24-hydroxylase activity|positive regulation of vitamin D receptor signaling pathway|regulation of bone mineralization|response to estrogen stimulus|response to interferon-gamma|response to lipopolysaccharide|response to tumor necrosis factor|response to vitamin D|vitamin D biosynthetic process|xenobiotic metabolic process	mitochondrial outer membrane	calcidiol 1-monooxygenase activity|electron carrier activity|heme binding			central_nervous_system(3)	3	all_cancers(7;8.09e-80)|Lung NSC(6;2.26e-27)|all_lung(6;1.99e-25)|all_epithelial(6;3.62e-18)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)		GBM - Glioblastoma multiforme(5;1.97e-113)|all cancers(5;1.54e-78)|BRCA - Breast invasive adenocarcinoma(9;0.0294)		Calcidiol(DB00146)|Calcitriol(DB00136)|Ergocalciferol(DB00153)	CAGACGCCGCACAAGGTCGCA	0.682											OREG0021953	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	7					0	0	1	0	0		G	58159172	G	G	58159172	3	3	89	1	0	0	0	0	1	0	0	0	4162	159	6	3	1057	3	CYP27B1	12	58159172	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	135089	58159172	75692723	4580	58411											
SLC16A7	9194	broad.mit.edu	37	chr12	60169004	60169004	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgcaaactccaaatatattCgacctcgaattcagtacttc	13	13	4	11	2	1	0	1	0	0	0	5	2	2	0	2	0	3	2	2	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:60169004C>T	uc001sqs.2	+	5	1227	c.928C>T	c.(928-930)CGA>TGA	p.R310*	SLC16A7_uc001sqt.2_Nonsense_Mutation_p.R310*|SLC16A7_uc001squ.2_Nonsense_Mutation_p.R310*|SLC16A7_uc009zqi.2_Nonsense_Mutation_p.R211*|SLC16A7_uc010ssi.1_Nonsense_Mutation_p.R211*	NM_004731	NP_004722	O60669	MOT2_HUMAN	solute carrier family 16, member 7	310	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	pyruvate secondary active transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(3;0.0303)	Pyruvic acid(DB00119)	CAAATATATTCGACCTCGAAT	0.413													52	96					0	0	1	0	0		T	60169004	T	T	60169004	4	4	89	1	0	0	0	0	0	1	0	0	14438	876	31	1	938	1	SLC16A7	12	60169004	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2009832	60169004	73682891	4581	58412											
MON2	23041	broad.mit.edu	37	chr12	62902072	62902072	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttgcaaatagcaccaaGaatttagtttcctcctcaaa	13	13	4	11	0	1	1	1	0	0	1	4	1	4	1	4	0	2	3	4	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:62902072G>T	uc001sre.2	+	8	1187	c.796G>T	c.(796-798)GAA>TAA	p.E266*	MON2_uc009zqj.2_Nonsense_Mutation_p.E266*|MON2_uc010ssl.1_Nonsense_Mutation_p.E194*|MON2_uc010ssm.1_Nonsense_Mutation_p.E266*|MON2_uc010ssn.1_Nonsense_Mutation_p.E266*|MON2_uc001srf.2_Nonsense_Mutation_p.E29*|MON2_uc001srd.1_Nonsense_Mutation_p.E158*	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	266					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		ATAGCACCAAGAATTTAGTTT	0.333													42	69					1.22674e-20	1.44972e-20	1	1	0		T	62902072	T	T	62902072	4	4	89	1	0	0	0	0	0	1	0	0	9718	943	33	5	826	5	MON2	12	62902072	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2733068	62902072	70949823	4582	58413											
PPM1H	57460	broad.mit.edu	37	chr12	63042363	63042363	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatatccgccatcctctgTccttcagcacaccccgggca	8	9	7	17	2	2	1	1	0	1	1	5	1	5	1	6	1	1	2	6	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:63042363T>C	uc001srk.3	-	10	1600	c.1451A>G	c.(1450-1452)GAC>GGC	p.D484G		NM_020700	NP_065751	Q9ULR3	PPM1H_HUMAN	protein phosphatase 1H (PP2C domain containing)	484	PP2C-like.						phosphoprotein phosphatase activity			lung(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;0.000443)|BRCA - Breast invasive adenocarcinoma(9;0.209)	GBM - Glioblastoma multiforme(28;0.0126)		CCATCCTCTGTCCTTCAGCAC	0.502													24	43					0	0	1	0	0		C	63042363	C	C	63042363	3	2	89	1	0	0	0	0	1	0	0	0	12363	1667	58	3	97	3	PPM1H	12	63042363	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	140291	63042363	70809532	4583	58414											
MSRB3	253827	broad.mit.edu	37	chr12	65720710	65720710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcactcaggagaaagggaccGaaaggtaaggtgagctttaa	15	7	13	6	1	2	2	2	1	0	1	2	5	2	3	1	4	1	2	1	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:65720710G>A	uc001ssn.2	+	2	263	c.202G>A	c.(202-204)GAA>AAA	p.E68K	MSRB3_uc001ssm.2_Missense_Mutation_p.E61K|MSRB3_uc009zqp.2_Missense_Mutation_p.E61K	NM_198080	NP_932346	Q8IXL7	MSRB3_HUMAN	methionine sulfoxide reductase B3 isoform 1	68					protein repair	endoplasmic reticulum|mitochondrion	peptide-methionine-(S)-S-oxide reductase activity|protein-methionine-R-oxide reductase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.131)		GAAAGGGACCGAAAGGTAAGG	0.448													12	18					0	0	1	0	0		A	65720710	A	A	65720710	3	1	89	1	0	0	0	0	1	0	0	0	9907	1059	37	1	288	1	MSRB3	12	65720710	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2678347	65720710	68131185	4584	58415											
MSRB3	253827	broad.mit.edu	37	chr12	65857005	65857005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaaagatactgcataaattCggctgccttgtcttttacac	12	13	7	9	1	1	1	0	0	1	1	2	2	1	1	1	1	4	2	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:65857005C>T	uc001ssn.2	+	6	543	c.482C>T	c.(481-483)TCG>TTG	p.S161L	MSRB3_uc001ssm.2_Missense_Mutation_p.S154L|MSRB3_uc009zqp.2_Missense_Mutation_p.S154L	NM_198080	NP_932346	Q8IXL7	MSRB3_HUMAN	methionine sulfoxide reductase B3 isoform 1	161					protein repair	endoplasmic reticulum|mitochondrion	peptide-methionine-(S)-S-oxide reductase activity|protein-methionine-R-oxide reductase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.131)		TGCATAAATTCGGCTGCCTTG	0.547													34	62					0	0	1	0	0		T	65857005	T	T	65857005	3	4	89	1	0	0	0	0	1	0	0	0	9907	893	31	1	584	1	MSRB3	12	65857005	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	136295	65857005	67994890	4585	58416											
HELB	92797	broad.mit.edu	37	chr12	66712497	66712497	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattacccatctcaattcaaGataagacatttatttttgtc	13	16	3	9	0	2	2	2	0	1	2	4	2	2	2	1	0	1	0	1	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:66712497G>T	uc001sti.2	+	7	2108	c.2080G>T	c.(2080-2082)GAT>TAT	p.D694Y	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	694					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		CTCAATTCAAGATAAGACATT	0.338													36	77					9.04072e-19	1.05817e-18	1	1	0		T	66712497	T	T	66712497	3	4	89	1	0	0	0	0	1	0	0	0	7061	942	33	5	2106	5	HELB	12	66712497	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	855492	66712497	67139398	4586	58417											
GRIP1	23426	broad.mit.edu	37	chr12	66742845	66742845	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaaattaccaccgtggCtaggctgctggaaaaaagca	13	8	9	11	1	1	0	0	0	1	0	2	1	1	1	3	3	3	4	3	3	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:66742845C>A	uc001stk.2	-	24	3426	c.3185G>T	c.(3184-3186)AGC>ATC	p.S1062I	GRIP1_uc001stj.2_Missense_Mutation_p.S829I	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	1114					androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		ACCACCGTGGCTAGGCTGCTG	0.413													73	165					5.29152e-50	6.58287e-50	1	1	0		A	66742845	A	A	66742845	3	1	89	1	0	0	0	0	1	0	0	0	6803	797	28	5	49	5	GRIP1	12	66742845	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30348	66742845	67109050	4587	58418											
DYRK2	8445	broad.mit.edu	37	chr12	68050891	68050891	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctgaattccagattggCggcagtaagcacacaatgaa	13	9	10	9	1	1	3	0	2	1	1	2	3	2	3	1	2	1	3	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:68050891C>T	uc001str.3	+	3	606	c.204C>T	c.(202-204)GGC>GGT	p.G68G	DYRK2_uc001sts.3_5'UTR	NM_006482	NP_006473	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	68					apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|positive regulation of glycogen biosynthetic process|smoothened signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|manganese ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(1)|central_nervous_system(1)	4			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		TCCAGATTGGCGGCAGTAAGC	0.468													19	27					0	0	1	0	0		T	68050891	T	T	68050891	2	4	89	1	0	0	0	0	0	0	0	1	4862	755	27	1		1	DYRK2	12	68050891	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1308046	68050891	65801004	4588	58419											
IL26	55801	broad.mit.edu	37	chr12	68619407	68619407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgctttgatatagagagCgtcaacagcttgggacaatg	11	11	12	7	1	1	2	1	1	0	1	1	4	1	3	0	1	5	3	0	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:68619407C>T	uc001stx.1	-	1	165	c.130G>A	c.(130-132)GCT>ACT	p.A44T		NM_018402	NP_060872	Q9NPH9	IL26_HUMAN	interleukin 26 precursor	44					cell-cell signaling|negative regulation of epithelial cell proliferation|positive regulation of cytokine secretion|positive regulation of ERK1 and ERK2 cascade|positive regulation of JAK-STAT cascade|positive regulation of protein kinase B signaling cascade|positive regulation of stress-activated MAPK cascade|positive regulation of transcription from RNA polymerase II promoter	cytosol|extracellular space|soluble fraction	cytokine activity				0			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000515)		ATATAGAGAGCGTCAACAGCT	0.433													78	178					0	0	1	0	0		T	68619407	T	T	68619407	3	4	89	1	0	0	0	0	1	0	0	0	7695	768	27	1	405	1	IL26	12	68619407	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	568516	68619407	65232488	4589	58420											
MDM1	56890	broad.mit.edu	37	chr12	68696398	68696398	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattaaaaccaaaataattAccattgtgctgaaactctgg	18	11	5	7	0	1	1	0	1	1	0	1	1	1	1	2	1	4	1	2	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:68696398A>G	uc001stz.2	-	12	2108	c.1972_splice	c.e12+1	p.V658_splice	MDM1_uc010stc.1_Splice_Site_p.V623_splice|MDM1_uc009zqv.1_Splice_Site_p.V378_splice	NM_017440	NP_059136	Q8TC05	MDM1_HUMAN	mouse Mdm1 nuclear protein homolog isoform 1							nucleus				ovary(3)|skin(2)	5			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000174)		CAAAATAATTACCATTGTGCT	0.368													23	33					0	0	1	0	0		G	68696398	G	G	68696398	5	3	89	1	0	0	0	0	0	0	1	0	9430	405	14	3	182	3	MDM1	12	68696398	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	76991	68696398	65155497	4590	58421											
NUP107	57122	broad.mit.edu	37	chr12	69128606	69128606	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatgaacacaaagaaaagaAatatgaagtaagttaaatat	23	9	6	3	0	1	4	1	2	0	2	1	4	1	4	0	0	1	2	0	0	11	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:69128606A>C	uc001suf.2	+	25	2496	c.2381A>C	c.(2380-2382)AAA>ACA	p.K794T	NUP107_uc001sug.2_Missense_Mutation_p.K553T|NUP107_uc010stj.1_Missense_Mutation_p.K765T	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	794					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			AAAGAAAAGAAATATGAAGTA	0.338													15	31					0	0	1	0	0		C	69128606	C	C	69128606	3	2	89	1	0	0	0	0	1	0	0	0	10772	14	1	5	2479	5	NUP107	12	69128606	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	432208	69128606	64723289	4591	58422											
CNOT2	4848	broad.mit.edu	37	chr12	70723256	70723256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaatacccctcagttaaatCgcagcttatcacaaggcact	14	9	5	13	1	2	0	2	0	0	0	3	0	2	0	2	1	2	4	2	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:70723256C>T	uc001svv.2	+	5	871	c.292C>T	c.(292-294)CGC>TGC	p.R98C	CNOT2_uc009zro.2_Missense_Mutation_p.R98C|CNOT2_uc009zrp.2_Missense_Mutation_p.R78C|CNOT2_uc009zrq.2_Missense_Mutation_p.R98C	NM_014515	NP_055330	Q9NZN8	CNOT2_HUMAN	CCR4-NOT transcription complex, subunit 2	98					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	protein binding|RNA polymerase II transcription cofactor activity				0	Renal(347;0.236)		GBM - Glioblastoma multiforme(1;4.77e-09)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			TCAGTTAAATCGCAGCTTATC	0.463													24	65					0	0	1	0	0		T	70723256	T	T	70723256	3	4	89	1	0	0	0	0	1	0	0	0	3622	884	31	1	306	1	CNOT2	12	70723256	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1594650	70723256	63128639	4592	58423											
PTPRB	5787	broad.mit.edu	37	chr12	70925842	70925842	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccatgtgaaccctgtgAagtcttaggtcgtgcactgc	8	11	12	10	1	1	2	0	2	1	0	2	3	1	3	2	2	3	1	2	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:70925842A>G	uc001swb.3	-	30	5853	c.5823T>C	c.(5821-5823)CTT>CTC	p.L1941L	uc001svz.2_Intron|PTPRB_uc010sto.1_Silent_p.L1851L|PTPRB_uc010stp.1_Silent_p.L1851L|PTPRB_uc001swc.3_Silent_p.L2159L|PTPRB_uc001swa.3_Silent_p.L2071L	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1941	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			GAACCCTGTGAAGTCTTAGGT	0.478													26	35					0	0	1	0	0		G	70925842	G	G	70925842	2	3	89	1	0	0	0	0	0	0	0	1	12821	233	9	3		3	PTPRB	12	70925842	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	202586	70925842	62926053	4593	58424											
PTPRB	5787	broad.mit.edu	37	chr12	70986133	70986133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacagtaacttgataaagtCgaccggggactaactcttta	13	11	9	8	2	1	2	0	2	1	0	2	4	1	3	1	2	2	1	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:70986133C>T	uc001swb.3	-	5	1085	c.1055G>A	c.(1054-1056)CGA>CAA	p.R352Q	PTPRB_uc010sto.1_Missense_Mutation_p.R352Q|PTPRB_uc010stp.1_Missense_Mutation_p.R352Q|PTPRB_uc001swc.3_Missense_Mutation_p.R570Q|PTPRB_uc001swa.3_Missense_Mutation_p.R570Q|PTPRB_uc001swd.3_Missense_Mutation_p.R569Q|PTPRB_uc009zrr.1_Missense_Mutation_p.R449Q|PTPRB_uc001swe.2_Missense_Mutation_p.R570Q	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	352	Fibronectin type-III 4.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			TTGATAAAGTCGACCGGGGAC	0.458													26	68					0	0	1	0	0		T	70986133	T	T	70986133	3	4	89	1	0	0	0	0	1	0	0	0	12821	884	31	1	5050	1	PTPRB	12	70986133	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	60291	70986133	62865762	4594	58425											
PTPRB	5787	broad.mit.edu	37	chr12	71002899	71002899	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagagaaataatcctgaagTtatagatggttcctgcttgt	12	13	9	7	0	0	3	0	1	0	2	2	4	2	3	3	1	1	3	3	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:71002899T>G	uc001swb.3	-	2	305	c.275A>C	c.(274-276)AAC>ACC	p.N92T	PTPRB_uc010sto.1_Missense_Mutation_p.N92T|PTPRB_uc010stp.1_Missense_Mutation_p.N92T|PTPRB_uc001swc.3_Missense_Mutation_p.N310T|PTPRB_uc001swa.3_Missense_Mutation_p.N310T|PTPRB_uc001swd.3_Missense_Mutation_p.N309T|PTPRB_uc009zrr.1_Missense_Mutation_p.N189T|PTPRB_uc001swe.2_Missense_Mutation_p.N310T	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	92	Fibronectin type-III 1.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			AATCCTGAAGTTATAGATGGT	0.498													44	75					0	0	1	0	0		G	71002899	G	G	71002899	3	3	89	1	0	0	0	0	1	0	0	0	12821	1725	60	5	5842	5	PTPRB	12	71002899	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	16766	71002899	62848996	4595	58426											
PTPRR	5801	broad.mit.edu	37	chr12	71056292	71056292	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacctttaagacaaggtttcGaatggtgtagttatcacatt	12	15	8	6	1	1	1	1	0	0	1	2	2	1	1	1	2	1	3	1	2	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:71056292G>A	uc001swi.1	-	11	2007	c.1591C>T	c.(1591-1593)CGA>TGA	p.R531*	PTPRR_uc001swf.1_RNA|PTPRR_uc001swg.1_RNA|PTPRR_uc001swh.1_Nonsense_Mutation_p.R286*|PTPRR_uc009zrs.2_Nonsense_Mutation_p.R380*|PTPRR_uc010stq.1_Nonsense_Mutation_p.R419*|PTPRR_uc010str.1_Nonsense_Mutation_p.R380*	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	531	Tyrosine-protein phosphatase.|Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		ACAAGGTTTCGAATGGTGTAG	0.353													22	40					0	0	1	0	0		A	71056292	A	A	71056292	4	1	89	1	0	0	0	0	0	1	0	0	12835	1066	37	1	398	1	PTPRR	12	71056292	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	53393	71056292	62795603	4596	58427											
PTPRR	5801	broad.mit.edu	37	chr12	71286586	71286586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaattgacaatctggtggCgtttgcttacttgagcttcg	7	15	11	8	2	1	3	0	3	1	0	2	3	1	3	0	2	3	3	0	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:71286586C>T	uc001swi.1	-	2	646	c.230G>A	c.(229-231)CGC>CAC	p.R77H		NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	77	Extracellular (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		AATCTGGTGGCGTTTGCTTAC	0.448													69	133					0	0	1	0	0		T	71286586	T	T	71286586	3	4	89	1	0	0	0	0	1	0	0	0	12835	768	27	1	1795	1	PTPRR	12	71286586	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	230294	71286586	62565309	4597	58428											
ZFC3H1	196441	broad.mit.edu	37	chr12	72029233	72029233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgcacttacctcagcagttCgtcttgcttctttaatcatg	7	17	6	11	1	4	0	2	0	2	0	5	0	4	0	1	0	4	4	1	0	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:72029233C>T	uc001swo.2	-	10	2587	c.2228G>A	c.(2227-2229)CGA>CAA	p.R743Q		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	743					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						CTCAGCAGTTCGTCTTGCTTC	0.333													47	88					0	0	1	0	0		T	72029233	T	T	72029233	3	4	89	1	0	0	0	0	1	0	0	0	17658	884	31	1	3845	1	ZFC3H1	12	72029233	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	742647	72029233	61822662	4598	58429											
TBC1D15	64786	broad.mit.edu	37	chr12	72266715	72266715	+	Missense_Mutation	SNP	G	A	A																															atttctttctctaggatgccGaagtaatagtggactggaga																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:72266715G>A	uc001swu.2	+	3	211	c.202G>A	c.(202-204)GAA>AAA	p.E68K	TBC1D15_uc009zrv.2_5'UTR|TBC1D15_uc010stt.1_Missense_Mutation_p.E54K|TBC1D15_uc001swv.2_Missense_Mutation_p.E68K|TBC1D15_uc001sww.2_5'UTR	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	46							protein binding|Rab GTPase activator activity				0						CTAGGATGCCGAAGTAATAGT	0.308													48	124					0	0	1	0	0		A	72266715	A	A	72266715	3	1	89	1	0	0	0	0	1	0	0	0	15629	1059	37	1	270	1	TBC1D15	12	72266715	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	237482	72266715	61585180	4599	58430	108	2									
TBC1D15	64786	broad.mit.edu	37	chr12	72266725	72266725	+	Missense_Mutation	SNP	T	C	C																															ctaggatgccgaagtaatagTggactggagaccattggatg																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:72266725T>C	uc001swu.2	+	3	221	c.212T>C	c.(211-213)GTG>GCG	p.V71A	TBC1D15_uc009zrv.2_5'UTR|TBC1D15_uc010stt.1_Missense_Mutation_p.V57A|TBC1D15_uc001swv.2_Missense_Mutation_p.V71A|TBC1D15_uc001sww.2_5'UTR	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	49							protein binding|Rab GTPase activator activity				0						GAAGTAATAGTGGACTGGAGA	0.299													48	123					0	0	1	0	0		C	72266725	C	C	72266725	3	2	89	1	0	0	0	0	1	0	0	0	15629	1696	59	3	280	3	TBC1D15	12	72266725	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	10	72266725	61585170	4600	58431	108	2									
TPH2	121278	broad.mit.edu	37	chr12	72372774	72372774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggtggctggatacctgaGcccacgagactttctggcag	7	8	14	12	2	1	2	0	1	1	1	1	4	1	3	3	4	2	2	3	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:72372774G>A	uc009zrw.1	+	7	989	c.848G>A	c.(847-849)AGC>AAC	p.S283N	TPH2_uc001swy.2_Missense_Mutation_p.S193N	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	283					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	GGATACCTGAGCCCACGAGAC	0.532													59	112					0	0	1	0	0		A	72372774	A	A	72372774	3	1	89	1	0	0	0	0	1	0	0	0	16428	971	34	2	874	2	TPH2	12	72372774	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	106049	72372774	61479121	4601	58432											
GLIPR1L1	256710	broad.mit.edu	37	chr12	75737646	75737646	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagacatgccattacggcTtggtataatgaaacccaatt	14	10	7	10	1	0	2	0	1	0	1	0	2	0	2	3	2	3	2	3	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:75737646T>G	uc001sxo.2	+	2	394	c.348T>G	c.(346-348)GCT>GCG	p.A116A	CAPS2_uc001sxm.3_Intron|CAPS2_uc009zsa.2_Intron|GLIPR1L1_uc001sxn.2_Silent_p.A116A	NM_152779	NP_689992	Q6UWM5	GPRL1_HUMAN	GLI pathogenesis-related 1 like 1	116						extracellular region					0						CCATTACGGCTTGGTATAATG	0.338													22	34					0	0	1	0	0		G	75737646	G	G	75737646	2	3	89	1	0	0	0	0	0	0	0	1	6457	1596	56	5		5	GLIPR1L1	12	75737646	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3364872	75737646	58114249	4602	58433											
KRR1	11103	broad.mit.edu	37	chr12	75897739	75897739	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attctttcttaacagtttttTtctttggttccttgcgttta	5	24	5	7	1	3	0	0	0	3	0	4	0	4	0	1	1	2	3	1	1	2	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:75897739T>C	uc001sxt.2	-	7	817	c.776A>G	c.(775-777)AAA>AGA	p.K259R	KRR1_uc009zsc.2_Intron	NM_007043	NP_008974	Q13601	KRR1_HUMAN	HIV-1 rev binding protein 2	259	Lys-rich.				rRNA processing	nucleolus|ribonucleoprotein complex	RNA binding			ovary(1)|pancreas(1)	2						AACAGTTTTTTTCTTTGGTTC	0.353													44	109					0	0	1	0	0		C	75897739	C	C	75897739	3	2	89	1	0	0	0	0	1	0	0	0	8462	1841	64	3	385	3	KRR1	12	75897739	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	160093	75897739	57954156	4603	58434											
KRR1	11103	broad.mit.edu	37	chr12	75902105	75902105	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacactctttcaagtaagcTtccctgtattttgggaacaa	12	13	6	10	0	2	0	1	0	1	0	3	1	3	1	1	1	3	3	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:75902105T>G	uc001sxt.2	-	2	248	c.207A>C	c.(205-207)GAA>GAC	p.E69D	KRR1_uc009zsc.2_Missense_Mutation_p.E69D|KRR1_uc010stx.1_Missense_Mutation_p.E69D	NM_007043	NP_008974	Q13601	KRR1_HUMAN	HIV-1 rev binding protein 2	69				E -> G (in Ref. 1; AAH16778).	rRNA processing	nucleolus|ribonucleoprotein complex	RNA binding			ovary(1)|pancreas(1)	2						TCAAGTAAGCTTCCCTGTATT	0.403													22	43					0	0	1	0	0		G	75902105	G	G	75902105	3	3	89	1	0	0	0	0	1	0	0	0	8462	1606	56	5	974	5	KRR1	12	75902105	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4366	75902105	57949790	4604	58435											
PHLDA1	22822	broad.mit.edu	37	chr12	76424776	76424776	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccacagtgaagtacatgTacttgcccttgcgctccaca	10	10	7	14	1	1	1	1	1	0	0	2	1	2	1	3	0	4	3	3	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:76424776T>C	uc001sxu.2	-	1	781	c.746A>G	c.(745-747)TAC>TGC	p.Y249C		NM_007350	NP_031376	Q8WV24	PHLA1_HUMAN	pleckstrin homology-like domain, family A,	249	PH.				apoptosis	cytoplasmic vesicle membrane|nucleolus|plasma membrane	protein binding				0		Colorectal(145;0.09)				GAAGTACATGTACTTGCCCTT	0.602													26	47					0	0	1	0	0		C	76424776	C	C	76424776	3	2	89	1	0	0	0	0	1	0	0	0	11867	1638	57	3	463	3	PHLDA1	12	76424776	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	522671	76424776	57427119	4605	58436											
ZDHHC17	23390	broad.mit.edu	37	chr12	77235880	77235880	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaacagaagagcaaaaGaaaaaggtagcaaaatacca	25	2	8	6	0	0	3	0	0	0	3	0	3	0	3	1	1	5	4	1	1	11	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:77235880G>T	uc001syk.1	+	11	1423	c.1260G>T	c.(1258-1260)AAG>AAT	p.K420N		NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	420	Cytoplasmic (Potential).				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						AAGAGCAAAAGAAAAAGGTAG	0.348													11	20					5.50884e-06	5.70595e-06	1	1	0		T	77235880	T	T	77235880	3	4	89	1	0	0	0	0	1	0	0	0	17632	933	33	5	1302	5	ZDHHC17	12	77235880	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	811104	77235880	56616015	4606	58437											
ZDHHC17	23390	broad.mit.edu	37	chr12	77244667	77244667	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttatagacttctttgaatttCgatgctgtggcctctttcgt	6	19	8	8	2	2	2	0	1	2	1	4	3	2	2	1	1	1	1	1	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:77244667C>T	uc001syk.1	+	17	1964	c.1801C>T	c.(1801-1803)CGA>TGA	p.R601*		NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	601	Cytoplasmic (Potential).				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						CTTTGAATTTCGATGCTGTGG	0.403													49	95					0	0	1	0	0		T	77244667	T	T	77244667	4	4	89	1	0	0	0	0	0	1	0	0	17632	876	31	1	1867	1	ZDHHC17	12	77244667	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8787	77244667	56607228	4607	58438											
E2F7	144455	broad.mit.edu	37	chr12	77439830	77439830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggactcacaagagggacagtCgggttcagagaaatccagta	14	6	13	8	1	2	2	2	0	0	2	4	5	3	4	1	3	0	2	1	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:77439830C>T	uc001sym.3	-	5	1053	c.817G>A	c.(817-819)GAC>AAC	p.D273N	E2F7_uc001syn.2_Missense_Mutation_p.D273N	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	273					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						GAGGGACAGTCGGGTTCAGAG	0.438													36	63					0	0	1	0	0		T	77439830	T	T	77439830	3	4	89	1	0	0	0	0	1	0	0	0	4878	884	31	1	1954	1	E2F7	12	77439830	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	195163	77439830	56412065	4608	58439											
NAV3	89795	broad.mit.edu	37	chr12	78388626	78388626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtctaatcacagtggaattGcaaccagtcaaaaaaagcct	17	8	7	9	0	3	0	2	0	1	0	3	1	3	1	2	1	3	1	2	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:78388626G>A	uc001syp.2	+	6	888	c.715G>A	c.(715-717)GCA>ACA	p.A239T	NAV3_uc001syo.2_Missense_Mutation_p.A239T	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	239						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CAGTGGAATTGCAACCAGTCA	0.343										HNSCC(70;0.22)			26	63					0	0	1	0	0		A	78388626	A	A	78388626	3	1	89	1	0	0	0	0	1	0	0	0	10203	1319	46	2	737	2	NAV3	12	78388626	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	948796	78388626	55463269	4609	58440											
NAV3	89795	broad.mit.edu	37	chr12	78513721	78513721	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atattgcctcacccacatttCgaaggtaaggatgtataaaa	15	11	7	8	1	1	0	1	0	0	0	2	2	1	1	2	2	1	2	2	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:78513721C>T	uc001syp.2	+	15	3918	c.3745C>T	c.(3745-3747)CGA>TGA	p.R1249*	NAV3_uc001syo.2_Nonsense_Mutation_p.R1249*|NAV3_uc010sub.1_Nonsense_Mutation_p.R749*|NAV3_uc009zsf.2_Nonsense_Mutation_p.R257*	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1249	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						ACCCACATTTCGAAGGTAAGG	0.353										HNSCC(70;0.22)			21	38					0	0	1	0	0		T	78513721	T	T	78513721	4	4	89	1	0	0	0	0	0	1	0	0	10203	876	31	1	3803	1	NAV3	12	78513721	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	125095	78513721	55338174	4610	58441											
NAV3	89795	broad.mit.edu	37	chr12	78598740	78598740	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaaacgcacaccatgggAagatccttcaaagtgggtgc	12	7	13	9	1	1	1	1	0	0	1	2	3	2	3	2	3	2	1	2	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:78598740A>G	uc001syp.2	+	39	7033	c.6860A>G	c.(6859-6861)GAA>GGA	p.E2287G	NAV3_uc001syo.2_Missense_Mutation_p.E2265G|NAV3_uc010sub.1_Missense_Mutation_p.E1744G|NAV3_uc009zsf.2_Missense_Mutation_p.E1096G	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2287						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						ACACCATGGGAAGATCCTTCA	0.463										HNSCC(70;0.22)			25	45					0	0	1	0	0		G	78598740	G	G	78598740	3	3	89	1	0	0	0	0	1	0	0	0	10203	246	9	3	6944	3	NAV3	12	78598740	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	85019	78598740	55253155	4611	58442											
LIN7A	8825	broad.mit.edu	37	chr12	81239585	81239585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacccctccaggaattatgCgagagatataaatgggggaa	14	7	11	9	1	0	1	0	0	0	1	1	5	1	3	4	3	1	0	4	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:81239585C>T	uc001szj.1	-	4	600	c.407G>A	c.(406-408)CGC>CAC	p.R136H	LIN7A_uc001szk.1_RNA	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	136	PDZ.				exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						AGGAATTATGCGAGAGATATA	0.468													31	57					0	0	1	0	0		T	81239585	T	T	81239585	3	4	89	1	0	0	0	0	1	0	0	0	8827	768	27	1	302	1	LIN7A	12	81239585	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2640845	81239585	52612310	4612	58443											
C12orf26	84190	broad.mit.edu	37	chr12	82792980	82792980	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttttgaaaattccttttCtcttataaaccttttgccta	9	20	4	8	0	1	1	0	1	1	0	3	1	2	1	3	0	2	1	3	0	6	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:82792980C>A	uc001szq.2	+	4	959	c.938C>A	c.(937-939)TCT>TAT	p.S313Y		NM_032230	NP_115606	Q8N6Q8	CL026_HUMAN	hypothetical protein LOC84190	313											0						AATTCCTTTTCTCTTATAAAC	0.343													26	52					2.79863e-10	3.03339e-10	1	1	0		A	82792980	A	A	82792980	3	1	89	1	0	0	0	0	1	0	0	0	1682	913	32	5	952	5	C12orf26	12	82792980	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1553395	82792980	51058915	4613	58444											
SLC6A15	55117	broad.mit.edu	37	chr12	85264417	85264417	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtcatcgcttctgtaaaGgcaataaaagctaagccggt	12	11	10	8	2	2	0	1	0	1	0	3	0	2	0	1	2	2	4	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:85264417G>A	uc001szv.2	-	9	1828	c.1335C>T	c.(1333-1335)GCC>GCT	p.A445A	SLC6A15_uc010sul.1_Silent_p.A338A|SLC6A15_uc001szw.1_Silent_p.A153A	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	445	Extracellular (Potential).				cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						CTTCTGTAAAGGCAATAAAAG	0.413													39	74					0	0	1	0	0		A	85264417	A	A	85264417	2	1	89	1	0	0	0	0	0	0	0	1	14703	987	35	4		4	SLC6A15	12	85264417	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2471437	85264417	48587478	4614	58445											
TSPAN19	144448	broad.mit.edu	37	chr12	85411330	85411330	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcctgaattttctttgtTcttattctttatccagtctg	5	22	5	9	0	4	1	0	1	4	0	6	1	6	1	2	0	0	1	2	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:85411330T>C	uc009zsj.2	-	7	600	c.499A>G	c.(499-501)AAC>GAC	p.N167D		NM_001100917	NP_001094387	P0C672	TSN19_HUMAN	tetraspanin 19	167						integral to membrane				ovary(1)	1						TTTTCTTTGTTCTTATTCTTT	0.338													8	10					0	0	1	0	0		C	85411330	C	C	85411330	3	2	89	1	0	0	0	0	1	0	0	0	16669	1783	62	3	259	3	TSPAN19	12	85411330	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	146913	85411330	48440565	4615	58446											
LRRIQ1	84125	broad.mit.edu	37	chr12	85492191	85492191	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggaccacaatcagttaatTaatacaaaaggtctttgtga	15	13	7	6	0	2	1	1	1	1	0	2	2	2	2	1	2	1	1	1	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:85492191T>G	uc001tac.2	+	12	3057	c.2946T>G	c.(2944-2946)ATT>ATG	p.I982M	LRRIQ1_uc001tab.1_Missense_Mutation_p.I982M	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	982	LRR 5.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		ATCAGTTAATTAATACAAAAG	0.348													26	50					0	0	1	0	0		G	85492191	G	G	85492191	3	3	89	1	0	0	0	0	1	0	0	0	9047	1742	61	5	2988	5	LRRIQ1	12	85492191	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	80861	85492191	48359704	4616	58447											
NTS	4922	broad.mit.edu	37	chr12	86276065	86276065	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggaagaagtcataaagaGaaaaattccttatattctga	20	10	7	4	0	2	3	1	1	1	2	3	5	3	4	1	1	0	0	1	1	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:86276065G>T	uc001tag.2	+	4	532	c.425G>T	c.(424-426)AGA>ATA	p.R142I		NM_006183	NP_006174	P30990	NEUT_HUMAN	neurotensin/neuromedin N preproprotein	142					regulation of blood vessel size|signal transduction	extracellular region|soluble fraction|transport vesicle	neuropeptide hormone activity				0						GTCATAAAGAGAAAAATTCCT	0.323													60	120					5.19286e-32	6.36825e-32	1	1	0		T	86276065	T	T	86276065	3	4	89	1	0	0	0	0	1	0	0	0	10728	942	33	5	439	5	NTS	12	86276065	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	783874	86276065	47575830	4617	58448											
MGAT4C	25834	broad.mit.edu	37	chr12	86373668	86373668	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaaggcatttcttgataaAacattaataaaaaatgggcc	18	10	6	7	0	1	1	0	1	1	0	1	1	1	1	1	2	1	1	1	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:86373668A>C	uc001tai.3	-	8	2086	c.836T>G	c.(835-837)TTT>TGT	p.F279C	MGAT4C_uc001tal.3_Missense_Mutation_p.F279C|MGAT4C_uc001taj.3_Missense_Mutation_p.F279C|MGAT4C_uc001tak.3_Missense_Mutation_p.F279C|MGAT4C_uc010sum.1_Missense_Mutation_p.F303C|MGAT4C_uc001tah.3_Missense_Mutation_p.F279C	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	279	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						TTCTTGATAAAACATTAATAA	0.388													32	60					0	0	1	0	0		C	86373668	C	C	86373668	3	2	89	1	0	0	0	0	1	0	0	0	9565	14	1	5	604	5	MGAT4C	12	86373668	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	97603	86373668	47478227	4618	58449											
MGAT4C	25834	broad.mit.edu	37	chr12	86383216	86383216	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgtacaagttcataaaaaGgagaaaaatgacaagaactc	22	7	7	5	0	1	3	1	1	0	2	2	4	1	3	0	1	2	2	0	1	10	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:86383216G>T	uc001tai.3	-	6	1359	c.109C>A	c.(109-111)CTT>ATT	p.L37I	MGAT4C_uc001tal.3_Missense_Mutation_p.L37I|MGAT4C_uc001taj.3_Missense_Mutation_p.L37I|MGAT4C_uc001tak.3_Missense_Mutation_p.L37I|MGAT4C_uc010sum.1_Missense_Mutation_p.L61I|MGAT4C_uc001tah.3_Missense_Mutation_p.L37I	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	37	Helical; Signal-anchor for type II membrane protein; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						TTCATAAAAAGGAGAAAAATG	0.313													11	21					1.58986e-06	1.65575e-06	1	1	0		T	86383216	T	T	86383216	3	4	89	1	0	0	0	0	1	0	0	0	9565	1000	35	5	1339	5	MGAT4C	12	86383216	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9548	86383216	47468679	4619	58450											
C12orf50	160419	broad.mit.edu	37	chr12	88420349	88420349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatcttcacacaaccaagagGctgagtttcccagaagcatg	13	8	9	11	0	2	3	1	1	1	2	3	4	3	3	2	1	2	3	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:88420349G>A	uc001tam.1	-	3	217	c.49C>T	c.(49-51)CCT>TCT	p.P17S	C12orf50_uc001tan.2_Missense_Mutation_p.P71S	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	17										skin(2)|ovary(1)	3						CAACCAAGAGGCTGAGTTTCC	0.368													18	49					0	0	1	0	0		A	88420349	A	A	88420349	3	1	89	1	0	0	0	0	1	0	0	0	1698	1203	42	2	1239	2	C12orf50	12	88420349	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2037133	88420349	45431546	4620	58451											
CEP290	80184	broad.mit.edu	37	chr12	88482952	88482952	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcattatcttaagtttgtCattttgtagttgaatcattg	9	21	7	4	0	3	1	2	1	1	0	3	1	3	1	0	0	1	4	0	0	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:88482952C>A	uc001tar.2	-	31	4230	c.3886G>T	c.(3886-3888)GAC>TAC	p.D1296Y	CEP290_uc001taq.2_Missense_Mutation_p.D356Y	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1296	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						TTAAGTTTGTCATTTTGTAGT	0.358													12	21					1.08611e-07	1.14333e-07	1	1	0		A	88482952	A	A	88482952	3	1	89	1	0	0	0	0	1	0	0	0	3256	826	29	5	3649	5	CEP290	12	88482952	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	62603	88482952	45368943	4621	58452											
DUSP6	1848	broad.mit.edu	37	chr12	89745792	89745792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgccatttccgacgcgaaggGcacgggtctgagcgtatcta	8	8	13	12	6	2	1	0	1	2	0	3	3	3	1	2	2	1	2	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:89745792G>A	uc001tay.2	-	1	505	c.25C>T	c.(25-27)CCC>TCC	p.P9S	DUSP6_uc001taz.2_Missense_Mutation_p.P9S	NM_001946	NP_001937	Q16828	DUS6_HUMAN	dual specificity phosphatase 6 isoform a	9					dorsal/ventral pattern formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|nerve growth factor receptor signaling pathway|positive regulation of apoptosis|regulation of endodermal cell fate specification|regulation of fibroblast growth factor receptor signaling pathway|regulation of heart growth|response to nitrosative stress|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0						GACGCGAAGGGCACGGGTCTG	0.687													28	62					0	0	1	0	0		A	89745792	A	A	89745792	3	1	89	1	0	0	0	0	1	0	0	0	4835	1203	42	2	1132	2	DUSP6	12	89745792	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1262840	89745792	44106103	4622	58453											
POC1B	282809	broad.mit.edu	37	chr12	89864189	89864189	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttctaagaggtccagaatCttaagggtaccatctgaaga	13	10	9	9	0	3	4	0	1	3	3	4	4	4	4	3	2	1	1	3	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:89864189C>T	uc001tbc.2	-	7	864	c.759G>A	c.(757-759)AAG>AAA	p.K253K	POC1B_uc001tba.2_Silent_p.K211K|POC1B_uc001tbb.2_Silent_p.K123K|POC1B_uc010sun.1_RNA|POC1B_uc009zsp.2_RNA|POC1B_uc009zsq.2_Intron	NM_172240	NP_758440	Q8TC44	POC1B_HUMAN	WD repeat domain 51B	253	WD 6.				cell projection organization	centriole|microtubule basal body				ovary(1)	1						GGTCCAGAATCTTAAGGGTAC	0.348													33	55					0	0	1	0	0		T	89864189	T	T	89864189	2	4	89	1	0	0	0	0	0	0	0	1	12195	912	32	4		4	POC1B	12	89864189	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	118397	89864189	43987706	4623	58454											
ATP2B1	490	broad.mit.edu	37	chr12	90004246	90004246	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatgatcttgcaagtactcGaagttttggccaaatcttgt	11	14	9	7	1	2	2	0	1	2	1	3	3	2	2	1	1	2	3	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:90004246G>A	uc001tbh.2	-	13	2468	c.2287C>T	c.(2287-2289)CGA>TGA	p.R763*	ATP2B1_uc001tbg.2_Nonsense_Mutation_p.R763*|ATP2B1_uc001tbf.2_Nonsense_Mutation_p.R433*	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	763	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						GCAAGTACTCGAAGTTTTGGC	0.323													64	125					0	0	1	0	0		A	90004246	A	A	90004246	4	1	89	1	0	0	0	0	0	1	0	0	1140	1066	37	1	1565	1	ATP2B1	12	90004246	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	140057	90004246	43847649	4624	58455											
LUM	4060	broad.mit.edu	37	chr12	91502039	91502039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattccactatcagccagttCgttgtgagataaacgcagat	12	12	8	9	2	1	2	1	1	0	2	3	3	2	2	2	0	2	3	2	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:91502039C>T	uc001tbm.2	-	2	1107	c.718G>A	c.(718-720)GAA>AAA	p.E240K	LUM_uc001tbn.2_RNA	NM_002345	NP_002336	P51884	LUM_HUMAN	lumican precursor	240	LRR 8.				collagen fibril organization|visual perception	extracellular space|fibrillar collagen	collagen binding|extracellular matrix structural constituent			central_nervous_system(2)	2						TCAGCCAGTTCGTTGTGAGAT	0.388													74	109					0	0	1	0	0		T	91502039	T	T	91502039	3	4	89	1	0	0	0	0	1	0	0	0	9103	893	31	1	306	1	LUM	12	91502039	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1497793	91502039	42349856	4625	58456											
PLEKHG7	440107	broad.mit.edu	37	chr12	93162759	93162759	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtaatatctttttctagTctttgggctgagaaatgctt	8	20	8	5	0	3	1	0	1	3	1	3	2	3	1	0	1	1	3	0	1	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:93162759T>G	uc001tcj.2	+	11	1165	c.935T>G	c.(934-936)GTC>GGC	p.V312G		NM_001004330	NP_001004330	Q6ZR37	PKHG7_HUMAN	pleckstrin homology domain containing, family G	312	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1						CTTTTTCTAGTCTTTGGGCTG	0.328													8	18					0	0	1	0	0		G	93162759	G	G	93162759	3	3	89	1	0	0	0	0	1	0	0	0	12094	1681	58	5	973	5	PLEKHG7	12	93162759	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1660720	93162759	40689136	4626	58457											
EEA1	8411	broad.mit.edu	37	chr12	93170682	93170682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttttgtacttcattgtcttCggcccactttctattcaacg	6	18	6	11	2	4	0	2	0	2	0	5	0	4	0	1	1	2	2	1	1	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:93170682C>T	uc001tck.2	-	28	4316	c.4051G>A	c.(4051-4053)GAA>AAA	p.E1351K		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	1351					early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						TCATTGTCTTCGGCCCACTTT	0.323													48	108					0	0	1	0	0		T	93170682	T	T	93170682	3	4	89	1	0	0	0	0	1	0	0	0	4927	893	31	1	192	1	EEA1	12	93170682	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7923	93170682	40681213	4627	58458											
EEA1	8411	broad.mit.edu	37	chr12	93181715	93181715	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattgaagctgtttgaaagtTtcctgacttttttcatagtt	9	19	8	5	0	1	3	1	3	0	0	2	4	2	3	1	0	1	4	1	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:93181715T>G	uc001tck.2	-	22	3343	c.3078A>C	c.(3076-3078)GAA>GAC	p.E1026D		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	1026	Gln/Glu/Lys-rich.|Potential.				early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						GTTTGAAAGTTTCCTGACTTT	0.378													16	32					0	0	1	0	0		G	93181715	G	G	93181715	3	3	89	1	0	0	0	0	1	0	0	0	4927	1838	64	5	1189	5	EEA1	12	93181715	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	11033	93181715	40670180	4628	58459											
PLXNC1	10154	broad.mit.edu	37	chr12	94641876	94641876	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacacagaactggaagtgaaAattcaagtatgtttcttttc	14	13	8	6	0	2	2	1	1	1	1	3	4	2	3	0	1	1	2	0	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:94641876A>C	uc001tdc.2	+	13	2835	c.2586A>C	c.(2584-2586)AAA>AAC	p.K862N		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	862	Extracellular (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						TGGAAGTGAAAATTCAAGTAT	0.488													20	52					0	0	1	0	0		C	94641876	C	C	94641876	3	2	89	1	0	0	0	0	1	0	0	0	12145	11	1	5	2636	5	PLXNC1	12	94641876	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1460161	94641876	39210019	4629	58460											
PLXNC1	10154	broad.mit.edu	37	chr12	94649056	94649056	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaaacattttgctctgaGaactttcttccctgaggtaa	11	14	6	10	0	2	2	0	2	2	1	3	3	3	2	1	1	4	2	1	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:94649056G>T	uc001tdc.2	+	17	3320	c.3071G>T	c.(3070-3072)AGA>ATA	p.R1024I	PLXNC1_uc010sut.1_Missense_Mutation_p.R71I	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1024	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						TTTGCTCTGAGAACTTTCTTC	0.398													21	50					2.89027e-11	3.162e-11	1	1	0		T	94649056	T	T	94649056	3	4	89	1	0	0	0	0	1	0	0	0	12145	942	33	5	3137	5	PLXNC1	12	94649056	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7180	94649056	39202839	4630	58461											
PLXNC1	10154	broad.mit.edu	37	chr12	94673390	94673390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attcttaagcaaaaatggctCtccttatggacttcagctta	12	14	6	9	0	3	0	1	0	2	0	4	1	3	1	1	2	2	3	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:94673390C>T	uc001tdc.2	+	22	3989	c.3740C>T	c.(3739-3741)TCT>TTT	p.S1247F	PLXNC1_uc010sut.1_Missense_Mutation_p.S294F|PLXNC1_uc009zsv.2_5'UTR	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1247	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						AAAAATGGCTCTCCTTATGGA	0.413													18	45					0	0	1	0	0		T	94673390	T	T	94673390	3	4	89	1	0	0	0	0	1	0	0	0	12145	913	32	4	3826	4	PLXNC1	12	94673390	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	24334	94673390	39178505	4631	58462											
FGD6	55785	broad.mit.edu	37	chr12	95478317	95478317	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctttgaatacataaaataAcatgtttttgtgcagtaact	14	16	6	5	0	0	1	0	1	0	0	0	1	0	1	0	0	5	4	0	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:95478317A>G	uc001tdp.3	-	20	4437	c.4213T>C	c.(4213-4215)TTA>CTA	p.L1405L	FGD6_uc009zsx.2_Silent_p.L538L	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	1405	PH 2.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						ACATAAAATAACATGTTTTTG	0.343													29	59					0	0	1	0	0		G	95478317	G	G	95478317	2	3	89	1	0	0	0	0	0	0	0	1	5851	40	2	3		3	FGD6	12	95478317	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	804927	95478317	38373578	4632	58463											
FGD6	55785	broad.mit.edu	37	chr12	95479665	95479665	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagccactcatagaagaaTcctctgtgtttgctgatacc	11	12	8	10	0	2	3	1	1	1	2	3	3	3	3	3	0	3	3	3	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:95479665T>C	uc001tdp.3	-	19	4222	c.3998A>G	c.(3997-3999)GAT>GGT	p.D1333G	FGD6_uc009zsx.2_Missense_Mutation_p.D466G|FGD6_uc001tdq.1_Missense_Mutation_p.D369G	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	1333	PH 2.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						CATAGAAGAATCCTCTGTGTT	0.333													46	95					0	0	1	0	0		C	95479665	C	C	95479665	3	2	89	1	0	0	0	0	1	0	0	0	5851	1435	50	3	306	3	FGD6	12	95479665	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1348	95479665	38372230	4633	58464											
FGD6	55785	broad.mit.edu	37	chr12	95603582	95603582	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggttttttggggacaattCgtagagaattttcctctttt	8	18	10	5	1	1	1	0	0	1	1	3	4	2	2	1	3	0	2	1	3	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:95603582C>T	uc001tdp.3	-	2	1702	c.1478G>A	c.(1477-1479)CGA>CAA	p.R493Q	FGD6_uc009zsx.2_Intron	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	493					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						GGGGACAATTCGTAGAGAATT	0.403													48	92					0	0	1	0	0		T	95603582	T	T	95603582	3	4	89	1	0	0	0	0	1	0	0	0	5851	884	31	1	2894	1	FGD6	12	95603582	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	123917	95603582	38248313	4634	58465											
FGD6	55785	broad.mit.edu	37	chr12	95603952	95603952	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacctgttcctgcttacAcaaaacattctgatgcagaa	13	11	5	12	0	1	2	0	1	1	1	3	2	3	2	3	0	4	3	3	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:95603952A>G	uc001tdp.3	-	2	1332	c.1108T>C	c.(1108-1110)TGT>CGT	p.C370R	FGD6_uc009zsx.2_Intron	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	370					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						TCCTGCTTACACAAAACATTC	0.373													7	102					0	0	1	0	0		G	95603952	G	G	95603952	3	3	89	1	0	0	0	0	1	0	0	0	5851	159	6	3	3264	3	FGD6	12	95603952	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	370	95603952	38247943	4635	58466											
FGD6	55785	broad.mit.edu	37	chr12	95604098	95604098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcgtaacagacgagcagttCgtgtctttctgggcttggga	7	11	15	8	3	2	1	0	0	2	1	3	3	2	2	0	3	2	4	0	3	1	4	rs148149725		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:95604098C>T	uc001tdp.3	-	2	1186	c.962G>A	c.(961-963)CGA>CAA	p.R321Q	FGD6_uc009zsx.2_Intron	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	321					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						ACGAGCAGTTCGTGTCTTTCT	0.423													44	110					0	0	1	0	0		T	95604098	T	T	95604098	3	4	89	1	0	0	0	0	1	0	0	0	5851	884	31	1	3410	1	FGD6	12	95604098	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	146	95604098	38247797	4636	58467											
METAP2	10988	broad.mit.edu	37	chr12	95906667	95906667	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcacattacatgaaaaatTttgatgttggacatgtgcca	13	14	8	6	0	1	2	1	2	0	0	1	3	1	3	1	1	2	2	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:95906667T>G	uc001tec.2	+	10	1293	c.1159T>G	c.(1159-1161)TTT>GTT	p.F387V	METAP2_uc010suv.1_Missense_Mutation_p.F364V|METAP2_uc009ztd.2_Missense_Mutation_p.F351V|METAP2_uc001ted.2_Missense_Mutation_p.F386V|METAP2_uc001tef.2_Missense_Mutation_p.F364V|METAP2_uc001tee.2_RNA	NM_006838	NP_006829	P50579	AMPM2_HUMAN	methionyl aminopeptidase 2	387					N-terminal protein amino acid modification|peptidyl-methionine modification|protein processing|proteolysis	cytoplasm	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0					L-Methionine(DB00134)	CATGAAAAATTTTGATGTTGG	0.343													15	38					0	0	1	0	0		G	95906667	G	G	95906667	3	3	89	1	0	0	0	0	1	0	0	0	9505	1841	64	5	1197	5	METAP2	12	95906667	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	302569	95906667	37945228	4637	58468											
CCDC38	120935	broad.mit.edu	37	chr12	96312688	96312689	+	Missense_Mutation	DNP	AG	CT	CT																															ccatttcattttctttgacaAgaaagagatctctgaaaaag																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:96312688_96312689AG>CT	uc001tek.1	-	3	337_338	c.103_104CT>AG	c.(103-105)CTT>AGT	p.L35S		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	35										skin(1)	1						TTCTTTGACAAGAAAGAGATCT	0.327													28	41					0	0	1	0	0		CT	96312689	CT	CT	96312688	3	2	89	1	0	0	0	0	1	0	0	0	2813	72	3	5	1643	5	CCDC38	12	96312688	Missense_Mutation	DNP	AG	TCGA-BR-8680-01A-11D-2394-08	406021	96312688	37539207	4638	58469											
CDK17	5128	broad.mit.edu	37	chr12	96692758	96692758	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatatactgttgcatatgTaccctataaaatatattttt	13	20	3	5	0	0	0	0	0	0	0	0	0	0	0	1	0	3	3	1	0	10	13			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:96692758T>C	uc001tep.1	-	7	1093	c.604A>G	c.(604-606)ACA>GCA	p.T202A	CDK17_uc009ztk.2_Missense_Mutation_p.T202A|CDK17_uc010svb.1_Missense_Mutation_p.T149A	NM_002595	NP_002586	Q00537	CDK17_HUMAN	PCTAIRE protein kinase 2	202	Protein kinase.|ATP (By similarity).						ATP binding|cyclin-dependent protein kinase activity			ovary(3)|lung(2)|kidney(1)|central_nervous_system(1)	7						GTTGCATATGTACCCTATAAA	0.333													16	41					0	0	1	0	0		C	96692758	C	C	96692758	3	2	89	1	0	0	0	0	1	0	0	0	3136	1638	57	3	1049	3	CDK17	12	96692758	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	380070	96692758	37159137	4639	58470											
C12orf63	374467	broad.mit.edu	37	chr12	97051678	97051678	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctattgaagacaaaggaGaattcagtgttccaagctgt	14	10	10	7	0	1	3	1	1	0	2	2	4	2	3	2	1	2	2	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:97051678G>T	uc001tet.1	+	4	472	c.394G>T	c.(394-396)GAA>TAA	p.E132*		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	132										skin(6)|ovary(1)	7						AGACAAAGGAGAATTCAGTGT	0.323													48	173					6.34439e-16	7.25681e-16	1	1	0		T	97051678	T	T	97051678	4	4	89	1	0	0	0	0	0	1	0	0	1709	943	33	5	404	5	C12orf63	12	97051678	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	358920	97051678	36800217	4640	58471											
C12orf63	374467	broad.mit.edu	37	chr12	97093822	97093822	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaattttctatggaaaaaAcatgccttgtccaatacctg	14	12	5	10	0	1	0	0	0	1	0	2	1	2	1	4	1	3	0	4	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:97093822A>G	uc001tet.1	+	13	1778	c.1700A>G	c.(1699-1701)AAC>AGC	p.N567S		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	567										skin(6)|ovary(1)	7						TATGGAAAAAACATGCCTTGT	0.343													30	62					0	0	1	0	0		G	97093822	G	G	97093822	3	3	89	1	0	0	0	0	1	0	0	0	1709	43	2	3	1746	3	C12orf63	12	97093822	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	42144	97093822	36758073	4641	58472											
C12orf63	374467	broad.mit.edu	37	chr12	97136242	97136242	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaataaagatgacagtgAgtttttagatcctatttccc	14	14	7	6	0	0	5	0	3	0	2	2	5	2	5	2	0	0	1	2	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:97136242A>C	uc001tet.1	+	19	2450	c.2372A>C	c.(2371-2373)GAG>GCG	p.E791A		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	791										skin(6)|ovary(1)	7						GATGACAGTGAGTTTTTAGAT	0.348													4	24					0	0	1	0	0		C	97136242	C	C	97136242	3	2	89	1	0	0	0	0	1	0	0	0	1709	304	11	5	2442	5	C12orf63	12	97136242	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	42420	97136242	36715653	4642	58473											
NEDD1	121441	broad.mit.edu	37	chr12	97345812	97345812	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacgagaagaaaacaaaaGattacgggcccacttttgaa	18	7	8	8	2	0	4	0	1	0	3	0	5	0	4	1	1	3	0	1	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:97345812G>T	uc001teu.3	+	16	2303	c.1964G>T	c.(1963-1965)AGA>ATA	p.R655I	NEDD1_uc001tev.3_Missense_Mutation_p.R655I|NEDD1_uc010svc.1_Missense_Mutation_p.R566I|NEDD1_uc001tew.2_Missense_Mutation_p.R662I|NEDD1_uc001tex.2_Missense_Mutation_p.R566I	NM_152905	NP_690869	Q8NHV4	NEDD1_HUMAN	neural precursor cell expressed, developmentally	655					cell division|G2/M transition of mitotic cell cycle|mitosis	cytosol					0						GAAAACAAAAGATTACGGGCC	0.348													20	43					3.51602e-12	3.88498e-12	1	1	0		T	97345812	T	T	97345812	3	4	89	1	0	0	0	0	1	0	0	0	10328	942	33	5	2043	5	NEDD1	12	97345812	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	209570	97345812	36506083	4643	58474											
SLC25A3	5250	broad.mit.edu	37	chr12	98992403	98992403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatggaagctgctaaggttcGaattcaaacccagccaggtt	12	10	10	9	1	1	0	1	0	0	0	2	2	1	1	2	3	4	4	2	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:98992403G>A	uc001tfo.2	+	5	686	c.566G>A	c.(565-567)CGA>CAA	p.R189Q	SLC25A3_uc001tfm.2_Missense_Mutation_p.R188Q|SLC25A3_uc001tfn.2_Missense_Mutation_p.R188Q|SLC25A3_uc001tfp.2_Missense_Mutation_p.R188Q|SLC25A3_uc001tfq.2_Missense_Mutation_p.R58Q|SLC25A3_uc001tfr.2_Missense_Mutation_p.R189Q|SLC25A3_uc001tfs.2_Missense_Mutation_p.R145Q|SLC25A3_uc009ztn.2_Missense_Mutation_p.R188Q|SLC25A3_uc001tft.2_Missense_Mutation_p.R188Q|SNORA53_uc001tfu.1_5'Flank	NM_005888	NP_005879	Q00325	MPCP_HUMAN	solute carrier family 25 member 3 isoform a	189	Solcar 2.|Mitochondrial matrix (Potential).				generation of precursor metabolites and energy	integral to plasma membrane|mitochondrial inner membrane	phosphate carrier activity|symporter activity				0		Lung NSC(355;4.08e-05)|Breast(359;0.00191)|Colorectal(145;0.00205)|Myeloproliferative disorder(1001;0.0255)		GBM - Glioblastoma multiforme(134;1.36e-23)|BRCA - Breast invasive adenocarcinoma(302;0.000115)		GCTAAGGTTCGAATTCAAACC	0.438													31	40					0	0	1	0	0		A	98992403	A	A	98992403	3	1	89	1	0	0	0	0	1	0	0	0	14518	1058	37	1	706	1	SLC25A3	12	98992403	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1646591	98992403	34859492	4644	58475											
APAF1	317	broad.mit.edu	37	chr12	99080609	99080609	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgcagattttcaccagaTgataagcttttggctagttg	10	14	9	8	0	1	3	1	1	0	2	1	3	1	3	1	1	2	4	1	1	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:99080609T>G	uc001tfz.2	+	16	2839	c.2262T>G	c.(2260-2262)GAT>GAG	p.D754E	APAF1_uc001tfy.2_Missense_Mutation_p.D743E|APAF1_uc001tga.2_Missense_Mutation_p.D743E|APAF1_uc001tgb.2_Missense_Mutation_p.D754E|APAF1_uc001tgc.2_Intron|APAF1_uc009zto.2_Missense_Mutation_p.D163E	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	754	WD 4.				activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	TTTCACCAGATGATAAGCTTT	0.323													6	64					0	0	1	0	0		G	99080609	G	G	99080609	3	3	89	1	0	0	0	0	1	0	0	0	755	1461	51	5	2320	5	APAF1	12	99080609	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	88206	99080609	34771286	4645	58476											
APAF1	317	broad.mit.edu	37	chr12	99093197	99093197	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattcaaagctttgggatgcGacatcagcaaatgagaggaa	16	8	11	6	1	2	1	2	1	0	1	2	5	2	3	0	2	3	2	0	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:99093197G>A	uc001tfz.2	+	17	2893	c.2316G>A	c.(2314-2316)GCG>GCA	p.A772A	APAF1_uc001tfy.2_Silent_p.A761A|APAF1_uc001tga.2_Silent_p.A761A|APAF1_uc001tgb.2_Silent_p.A772A|APAF1_uc001tgc.2_Intron|APAF1_uc009zto.2_Silent_p.A181A	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	772	WD 4.				activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	TTTGGGATGCGACATCAGCAA	0.328													16	40					0	0	1	0	0		A	99093197	A	A	99093197	2	1	89	1	0	0	0	0	0	0	0	1	755	1045	37	1		1	APAF1	12	99093197	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12588	99093197	34758698	4646	58477											
SCYL2	55681	broad.mit.edu	37	chr12	100711646	100711646	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccctcctgatgagataaaGaacagtgttctacccatggt	12	10	8	11	0	1	3	0	2	1	2	2	4	2	3	4	1	2	1	4	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:100711646G>T	uc001thn.2	+	10	1388	c.1338G>T	c.(1336-1338)AAG>AAT	p.K446N	SCYL2_uc009ztw.1_Missense_Mutation_p.K273N|SCYL2_uc001thm.1_Missense_Mutation_p.K446N	NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein	446	HEAT.				endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						ATGAGATAAAGAACAGTGTTC	0.343													33	49					1.26612e-14	1.43161e-14	1	1	0		T	100711646	T	T	100711646	3	4	89	1	0	0	0	0	1	0	0	0	13973	933	33	5	1372	5	SCYL2	12	100711646	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1618449	100711646	33140249	4647	58478											
SCYL2	55681	broad.mit.edu	37	chr12	100732689	100732689	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtctgcccttaataatctCtttggccctcagaaacccaa	11	12	5	13	0	3	1	1	0	2	1	4	1	3	1	3	1	2	0	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:100732689C>A	uc001thn.2	+	18	2579	c.2529C>A	c.(2527-2529)CTC>CTA	p.L843L		NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein	843	Necessary for interaction with AP2 complex and clathrin, interaction with clathrin is necessary for its targeting to the TGN and endosomal membranes.				endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						TTAATAATCTCTTTGGCCCTC	0.448													109	199					1.43872e-54	1.79282e-54	1	1	0		A	100732689	A	A	100732689	2	1	89	1	0	0	0	0	0	0	0	1	13973	900	32	5		5	SCYL2	12	100732689	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	21043	100732689	33119206	4648	58479											
SLC17A8	246213	broad.mit.edu	37	chr12	100806591	100806591	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctggtggttggcttttcGcataccaaaggggtggctat	6	13	13	9	1	0	0	0	0	0	0	2	0	1	0	2	6	1	4	2	6	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:100806591G>A	uc010svi.1	+	10	1543	c.1230G>A	c.(1228-1230)TCG>TCA	p.S410S	SLC17A8_uc009ztx.2_Silent_p.S360S	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	410	Helical; (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						TTGGCTTTTCGCATACCAAAG	0.448													41	105					0	0	1	0	0		A	100806591	A	A	100806591	2	1	89	1	0	0	0	0	0	0	0	1	14448	1074	38	1		1	SLC17A8	12	100806591	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	73902	100806591	33045304	4649	58480											
GAS2L3	283431	broad.mit.edu	37	chr12	101017768	101017768	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaggcataacgaagaaaccGcaggctccttcaaacaatgc	17	5	8	11	2	1	1	1	0	0	1	2	2	2	1	2	2	4	3	2	2	6	2	rs61748062	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:101017768G>A	uc001thu.2	+	10	1411	c.1185G>A	c.(1183-1185)CCG>CCA	p.P395P	GAS2L3_uc009zty.2_Silent_p.P395P|GAS2L3_uc001thv.2_Silent_p.P291P	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	395					cell cycle arrest					skin(1)	1						CGAAGAAACCGCAGGCTCCTT	0.418													50	100					0	0	1	0	0		A	101017768	A	A	101017768	2	1	89	1	0	0	0	0	0	0	0	1	6263	1074	38	1		1	GAS2L3	12	101017768	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	211177	101017768	32834127	4650	58481											
ANO4	121601	broad.mit.edu	37	chr12	101381342	101381342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataaacaaataagcaggtttCggagatggttacctaagaag	17	9	10	5	1	0	2	0	0	0	2	1	3	0	2	1	3	3	3	1	3	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:101381342C>T	uc010svm.1	+	8	1200	c.628C>T	c.(628-630)CGG>TGG	p.R210W	ANO4_uc010svl.1_RNA|ANO4_uc001thw.2_Missense_Mutation_p.R175W|ANO4_uc001thx.2_Missense_Mutation_p.R210W	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	210	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						AAGCAGGTTTCGGAGATGGTT	0.507										HNSCC(74;0.22)	OREG0022059	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	120	257					0	0	1	0	0		T	101381342	T	T	101381342	3	4	89	1	0	0	0	0	1	0	0	0	699	875	31	1	545	1	ANO4	12	101381342	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	363574	101381342	32470553	4651	58482											
MYBPC1	4604	broad.mit.edu	37	chr12	102036355	102036355	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgcgcagagaggagaagaAgagcgcaggtgagcgctccc	12	3	16	10	3	0	5	0	1	0	4	1	7	1	5	1	2	3	3	1	2	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:102036355A>C	uc001tii.2	+	9	851	c.749A>C	c.(748-750)AAG>ACG	p.K250T	MYBPC1_uc001tif.1_Missense_Mutation_p.K263T|MYBPC1_uc001tig.2_Missense_Mutation_p.K275T|MYBPC1_uc010svq.1_Missense_Mutation_p.K237T|MYBPC1_uc001tih.2_Missense_Mutation_p.K275T|MYBPC1_uc001tij.2_Missense_Mutation_p.K250T|MYBPC1_uc010svr.1_Missense_Mutation_p.K250T|MYBPC1_uc010svs.1_Missense_Mutation_p.K250T|MYBPC1_uc010svt.1_Missense_Mutation_p.K238T|MYBPC1_uc010svu.1_Missense_Mutation_p.K231T|MYBPC1_uc001tik.2_Missense_Mutation_p.K224T	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	250					cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						GAGGAGAAGAAGAGCGCAGGT	0.632													4	18					0	0	1	0	0		C	102036355	C	C	102036355	3	2	89	1	0	0	0	0	1	0	0	0	10029	72	3	5	866	5	MYBPC1	12	102036355	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	655013	102036355	31815540	4652	58483											
MYBPC1	4604	broad.mit.edu	37	chr12	102055019	102055019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgggagcctcctgcctacGacggaggctctccaatccta	8	8	10	15	2	1	0	0	0	1	0	4	3	3	2	5	3	3	1	5	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:102055019G>A	uc001tii.2	+	18	2038	c.1936G>A	c.(1936-1938)GAC>AAC	p.D646N	MYBPC1_uc001tig.2_Missense_Mutation_p.D671N|MYBPC1_uc010svq.1_Missense_Mutation_p.D633N|MYBPC1_uc001tih.2_Missense_Mutation_p.D671N|MYBPC1_uc001tij.2_Missense_Mutation_p.D646N|MYBPC1_uc010svr.1_Missense_Mutation_p.D646N|MYBPC1_uc010svs.1_Missense_Mutation_p.D646N|MYBPC1_uc010svt.1_Missense_Mutation_p.D634N|MYBPC1_uc010svu.1_Missense_Mutation_p.D627N|MYBPC1_uc001tik.2_Missense_Mutation_p.D620N	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	646	Fibronectin type-III 1.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						TCCTGCCTACGACGGAGGCTC	0.498													16	19					0	0	1	0	0		A	102055019	A	A	102055019	3	1	89	1	0	0	0	0	1	0	0	0	10029	1058	37	1	2089	1	MYBPC1	12	102055019	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	18664	102055019	31796876	4653	58484											
DRAM1	55332	broad.mit.edu	37	chr12	102313940	102313940	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatggacagtggcctttggTtttattttctacttcctaac	8	17	8	8	0	1	0	0	0	1	0	2	2	2	1	2	3	2	1	2	3	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:102313940T>C	uc001tix.2	+	6	1096	c.633T>C	c.(631-633)GGT>GGC	p.G211G	DRAM1_uc010svv.1_Intron	NM_018370	NP_060840	Q8N682	DRAM1_HUMAN	DNA-damage regulated autophagy modulator 1	211	Helical; (Potential).				apoptosis|autophagy	integral to membrane|lysosomal membrane				ovary(1)	1						TGGCCTTTGGTTTTATTTTCT	0.333													30	50					0	0	1	0	0		C	102313940	C	C	102313940	2	2	89	1	0	0	0	0	0	0	0	1	4759	1712	60	3		3	DRAM1	12	102313940	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	258921	102313940	31537955	4654	58485											
PAH	5053	broad.mit.edu	37	chr12	103240677	103240677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagagaagggacttactgtgGcgagcttttcaatgtattca	11	12	12	6	1	2	1	2	0	0	1	2	5	2	2	0	2	2	2	0	2	4	5	rs62514958		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:103240677G>A	uc001tjq.1	-	10	1437	c.965C>T	c.(964-966)GCC>GTC	p.A322V		NM_000277	NP_000268	P00439	PH4H_HUMAN	phenylalanine hydroxylase	322			A -> T (in PKU; haplotype 1).|A -> G (in PKU; haplotype 12).		catecholamine biosynthetic process|L-phenylalanine catabolic process|neurotransmitter biosynthetic process	cytosol	phenylalanine 4-monooxygenase activity			ovary(4)	4					Epinephrine(DB00668)|L-Phenylalanine(DB00120)|Levodopa(DB01235)|Norepinephrine(DB00368)|Tetrahydrobiopterin(DB00360)	ACTTACTGTGGCGAGCTTTTC	0.493													23	48					0	0	1	0	0		A	103240677	A	A	103240677	3	1	89	1	0	0	0	0	1	0	0	0	11413	1203	42	2	413	2	PAH	12	103240677	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	926737	103240677	30611218	4655	58486											
STAB2	55576	broad.mit.edu	37	chr12	103984697	103984697	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagatgtgataggaagtCtcttcttacaattaggaccg	14	11	10	6	1	2	3	0	1	2	2	3	5	2	5	1	2	1	0	1	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:103984697C>A	uc001tjw.2	+	2	290	c.104C>A	c.(103-105)TCT>TAT	p.S35Y		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	35	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GATAGGAAGTCTCTTCTTACA	0.433													39	72					7.04047e-22	8.37091e-22	1	1	0		A	103984697	A	A	103984697	3	1	89	1	0	0	0	0	1	0	0	0	15263	913	32	5	110	5	STAB2	12	103984697	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	744020	103984697	29867198	4656	58487											
STAB2	55576	broad.mit.edu	37	chr12	104049338	104049338	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacatgaaggacggcactctCgattacctcctttctccaga	11	10	7	13	2	2	2	0	1	2	1	5	4	3	3	3	2	2	1	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:104049338C>T	uc001tjw.2	+	15	1899	c.1713C>T	c.(1711-1713)CTC>CTT	p.L571L		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	571	Extracellular (Potential).|FAS1 2.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						ACGGCACTCTCGATTACCTCC	0.453													24	42					0	0	1	0	0		T	104049338	T	T	104049338	2	4	89	1	0	0	0	0	0	0	0	1	15263	871	31	1		1	STAB2	12	104049338	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	64641	104049338	29802557	4657	58488											
STAB2	55576	broad.mit.edu	37	chr12	104089398	104089398	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggctggaacagatgcctgActattccatcttccggggct	7	10	12	12	2	1	2	0	1	1	1	3	3	3	3	3	4	2	2	3	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:104089398A>G	uc001tjw.2	+	32	3632	c.3446A>G	c.(3445-3447)GAC>GGC	p.D1149G		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1149	Extracellular (Potential).|FAS1 4.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CAGATGCCTGACTATTCCATC	0.507													29	81					0	0	1	0	0		G	104089398	G	G	104089398	3	3	89	1	0	0	0	0	1	0	0	0	15263	275	10	3	3572	3	STAB2	12	104089398	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	40060	104089398	29762497	4658	58489											
STAB2	55576	broad.mit.edu	37	chr12	104098388	104098388	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccattcggaactaaatCtctagtaagtactttgtctg	10	14	7	10	1	2	0	0	0	2	0	4	1	2	1	1	1	3	2	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:104098388C>A	uc001tjw.2	+	36	4082	c.3896C>A	c.(3895-3897)TCT>TAT	p.S1299Y		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1299	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GGAACTAAATCTCTAGTAAGT	0.368													11	30					6.40141e-05	6.56571e-05	1	1	0		A	104098388	A	A	104098388	3	1	89	1	0	0	0	0	1	0	0	0	15263	913	32	5	4038	5	STAB2	12	104098388	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8990	104098388	29753507	4659	58490											
STAB2	55576	broad.mit.edu	37	chr12	104136216	104136216	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accagatgccccgtgtaataAccggggtgtctgccttgatc	8	10	11	12	2	1	2	0	1	1	1	2	2	1	2	5	2	3	1	5	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:104136216A>G	uc001tjw.2	+	56	6101	c.5915A>G	c.(5914-5916)AAC>AGC	p.N1972S	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1972	Extracellular (Potential).|Laminin EGF-like 2.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CCGTGTAATAACCGGGGTGTC	0.562													44	103					0	0	1	0	0		G	104136216	G	G	104136216	3	3	89	1	0	0	0	0	1	0	0	0	15263	43	2	3	6137	3	STAB2	12	104136216	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	37828	104136216	29715679	4660	58491											
HSP90B1	7184	broad.mit.edu	37	chr12	104326616	104326616	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttagattttcctgagaGaactgatttcaaatgcttct	11	16	6	8	0	2	4	1	2	1	2	3	5	3	4	2	0	2	1	2	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:104326616G>T	uc001tkb.1	+	4	412	c.307G>T	c.(307-309)GAA>TAA	p.E103*	HSP90B1_uc010swg.1_Intron|HSP90B1_uc009zui.1_Nonsense_Mutation_p.E103*|LOC253724_uc010swf.1_5'Flank|LOC253724_uc009zuh.2_5'Flank	NM_003299	NP_003290	P14625	ENPL_HUMAN	heat shock protein 90kDa beta, member 1	103					actin rod assembly|anti-apoptosis|cellular response to ATP|ER-associated protein catabolic process|protein folding|protein transport|regulation of phosphoprotein phosphatase activity|response to hypoxia|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|melanosome|microsome|midbody|perinuclear region of cytoplasm	ATP binding|calcium ion binding|low-density lipoprotein particle receptor binding|protein phosphatase binding|RNA binding|unfolded protein binding|virion binding			ovary(2)|skin(1)	3					Rifabutin(DB00615)	TTTCCTGAGAGAACTGATTTC	0.343													50	107					7.36392e-32	9.02667e-32	1	1	0		T	104326616	T	T	104326616	4	4	89	1	0	0	0	0	0	1	0	0	7419	943	33	5	321	5	HSP90B1	12	104326616	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	190400	104326616	29525279	4661	58492											
EID3	493861	broad.mit.edu	37	chr12	104697977	104697977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaccagagaagcagccctcGacgcccggtttcttgttatg	9	9	11	12	3	1	1	0	0	1	1	2	4	1	1	3	1	3	3	3	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:104697977G>A	uc001tkw.2	+	1	429	c.265G>A	c.(265-267)GAC>AAC	p.D89N	TXNRD1_uc010swk.1_Intron|TXNRD1_uc010swl.1_Intron|TXNRD1_uc010swm.1_Intron|TXNRD1_uc010swn.1_Intron|TXNRD1_uc010swo.1_Intron|TXNRD1_uc010swp.1_Intron|TXNRD1_uc010swq.1_Intron|TXNRD1_uc001tku.2_Intron|TXNRD1_uc001tko.1_Intron|TXNRD1_uc001tkp.1_Intron|TXNRD1_uc001tkv.1_Intron	NM_001008394	NP_001008395	Q8N140	EID3_HUMAN	EP300 interacting inhibitor of differentiation	89					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus					0						AGCAGCCCTCGACGCCCGGTT	0.483													47	85					0	0	1	0	0		A	104697977	A	A	104697977	3	1	89	1	0	0	0	0	1	0	0	0	4995	1058	37	1	267	1	EID3	12	104697977	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	371361	104697977	29153918	4662	58493											
ALDH1L2	160428	broad.mit.edu	37	chr12	105462629	105462629	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcagcccagaaaacagaAaacccagctttcttatctcc	14	9	4	14	0	4	2	2	0	2	2	5	2	4	2	3	0	4	1	3	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:105462629A>C	uc001tlc.2	-	4	589	c.462T>G	c.(460-462)TTT>TTG	p.F154L	ALDH1L2_uc009zuo.2_5'Flank|ALDH1L2_uc009zup.2_RNA	NM_001034173	NP_001029345	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	154	GART.				10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1						AGAAAACAGAAAACCCAGCTT	0.363													26	61					0	0	1	0	0		C	105462629	C	C	105462629	3	2	89	1	0	0	0	0	1	0	0	0	495	11	1	5	2389	5	ALDH1L2	12	105462629	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	764652	105462629	28389266	4663	58494											
KIAA1033	23325	broad.mit.edu	37	chr12	105543428	105543428	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtttttgaaaaagaagttCtatatatttagccaatttat	15	17	5	4	0	1	2	0	1	1	1	1	2	1	2	1	0	1	2	1	0	9	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:105543428C>A	uc001tld.2	+	25	2637	c.2550C>A	c.(2548-2550)TTC>TTA	p.F850L	KIAA1033_uc010swr.1_Missense_Mutation_p.F851L|KIAA1033_uc010sws.1_Missense_Mutation_p.F662L	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	850					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						AAAAGAAGTTCTATATATTTA	0.199													20	54					1.56452e-12	1.73502e-12	1	1	0		A	105543428	A	A	105543428	3	1	89	1	0	0	0	0	1	0	0	0	8222	912	32	5	2648	5	KIAA1033	12	105543428	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	80799	105543428	28308467	4664	58495											
NUAK1	9891	broad.mit.edu	37	chr12	106460770	106460770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctgcagagacgcagctgCggatgcgctggcgggcaggg	6	7	18	10	4	1	1	0	0	1	1	1	3	1	2	0	4	4	5	0	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:106460770C>T	uc001tlj.1	-	7	3176	c.1796G>A	c.(1795-1797)CGC>CAC	p.R599H		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	599							ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						GACGCAGCTGCGGATGCGCTG	0.617													21	38					0	0	1	0	0		T	106460770	T	T	106460770	3	4	89	1	0	0	0	0	1	0	0	0	10731	768	27	1	193	1	NUAK1	12	106460770	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	917342	106460770	27391125	4665	58496											
NUAK1	9891	broad.mit.edu	37	chr12	106461428	106461428	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcactgcatcctgaccagActgagcaaagtcattctctt	11	10	8	12	0	2	3	1	2	1	1	4	3	3	3	2	1	2	3	2	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:106461428A>C	uc001tlj.1	-	7	2518	c.1138T>G	c.(1138-1140)TCT>GCT	p.S380A		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	380							ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						TCCTGACCAGACTGAGCAAAG	0.537													26	79					0	0	1	0	0		C	106461428	C	C	106461428	3	2	89	1	0	0	0	0	1	0	0	0	10731	275	10	5	851	5	NUAK1	12	106461428	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	658	106461428	27390467	4666	58497											
MTERFD3	80298	broad.mit.edu	37	chr12	107372416	107372416	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcatgctaagaaaggtctgTattttggaggtgatcgcatc	11	12	12	6	1	1	2	0	1	1	1	3	3	1	3	0	3	2	4	0	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:107372416T>C	uc001tme.1	-	2	1896	c.77A>G	c.(76-78)TAC>TGC	p.Y26C	MTERFD3_uc001tmf.1_Missense_Mutation_p.Y26C|MTERFD3_uc001tmg.1_Missense_Mutation_p.Y26C|MTERFD3_uc001tmh.1_Missense_Mutation_p.Y26C	NM_025198	NP_079474	Q49AM1	MTER3_HUMAN	transcription termination factor-like protein	26					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	transcription regulatory region DNA binding				0						GAAAGGTCTGTATTTTGGAGG	0.418													26	60					0	0	1	0	0		C	107372416	C	C	107372416	3	2	89	1	0	0	0	0	1	0	0	0	9939	1638	57	3	1084	3	MTERFD3	12	107372416	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	910988	107372416	26479479	4667	58498											
CRY1	1407	broad.mit.edu	37	chr12	107395696	107395696	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatcttttataagttagAggcggttgtccaccattgag	10	14	11	6	1	1	2	0	1	1	1	2	3	2	3	2	3	0	2	2	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:107395696A>G	uc001tmi.3	-	4	1300	c.441T>C	c.(439-441)CCT>CCC	p.P147P		NM_004075	NP_004066	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	147	DNA photolyase.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			ovary(3)	3						TATAAGTTAGAGGCGGTTGTC	0.353													36	81					0	0	1	0	0		G	107395696	G	G	107395696	2	3	89	1	0	0	0	0	0	0	0	1	3906	291	11	3		3	CRY1	12	107395696	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	23280	107395696	26456199	4668	58499											
PRDM4	11108	broad.mit.edu	37	chr12	108128239	108128239	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcatgagaattgagatgcttCtttaagtgatttgttctcaa	11	17	8	5	0	3	3	2	3	2	2	4	5	3	3	0	0	1	2	0	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:108128239C>T	uc001tmp.2	-	12	2591	c.2154G>A	c.(2152-2154)AAG>AAA	p.K718K	PRDM4_uc010sww.1_Silent_p.K125K|PRDM4_uc001tmq.2_RNA	NM_012406	NP_036538	Q9UKN5	PRDM4_HUMAN	PR domain containing 4	718	C2H2-type 5.				cell proliferation|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						TGAGATGCTTCTTTAAGTGAT	0.393													67	143					0	0	1	0	0		T	108128239	T	T	108128239	2	4	89	1	0	0	0	0	0	0	0	1	12481	912	32	4		4	PRDM4	12	108128239	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	732543	108128239	25723656	4669	58500											
WSCD2	9671	broad.mit.edu	37	chr12	108626627	108626627	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattgaattggccacaggcTtctacactggcagctactac	10	11	8	12	0	2	1	1	1	1	0	2	1	2	1	1	3	4	3	1	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:108626627T>G	uc001tms.2	+	7	1843	c.1099T>G	c.(1099-1101)TTC>GTC	p.F367V	WSCD2_uc001tmt.2_Missense_Mutation_p.F367V|WSCD2_uc001tmu.2_Missense_Mutation_p.F115V	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	367						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						GGCCACAGGCTTCTACACTGG	0.582													21	39					0	0	1	0	0		G	108626627	G	G	108626627	3	3	89	1	0	0	0	0	1	0	0	0	17433	1609	56	5	1121	5	WSCD2	12	108626627	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	498388	108626627	25225268	4670	58501											
DAO	1610	broad.mit.edu	37	chr12	109283296	109283296	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggaagctgacccccagaGagctggatatgttcccagat	10	9	11	11	1	0	3	0	1	0	2	2	6	1	5	3	2	2	3	3	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:109283296G>T	uc001tnr.3	+	4	514	c.361G>T	c.(361-363)GAG>TAG	p.E121*	DAO_uc001tnq.3_Intron|DAO_uc009zvb.2_RNA|DAO_uc001tns.3_RNA	NM_001917	NP_001908	P14920	OXDA_HUMAN	D-amino-acid oxidase	121					glyoxylate metabolic process	peroxisomal matrix	binding|D-amino-acid oxidase activity			ovary(1)|skin(1)	2						GACCCCCAGAGAGCTGGATAT	0.542													28	54					4.66903e-05	4.79367e-05	1	1	0		T	109283296	T	T	109283296	4	4	89	1	0	0	0	0	0	1	0	0	4234	943	33	5	371	5	DAO	12	109283296	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	656669	109283296	24568599	4671	58502											
ACACB	32	broad.mit.edu	37	chr12	109613808	109613808	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcccagaagatgtttatgAcaagggttgcgtgaaagacg	12	10	13	6	2	0	5	0	2	0	3	1	5	1	5	1	1	1	2	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:109613808A>G	uc001tob.2	+	8	1408	c.1289A>G	c.(1288-1290)GAC>GGC	p.D430G	ACACB_uc001toc.2_Missense_Mutation_p.D430G	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	430	Biotin carboxylation.|ATP-grasp.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GATGTTTATGACAAGGGTTGC	0.527													26	86					0	0	1	0	0		G	109613808	G	G	109613808	3	3	89	1	0	0	0	0	1	0	0	0	107	275	10	3	1315	3	ACACB	12	109613808	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	330512	109613808	24238087	4672	58503											
ACACB	32	broad.mit.edu	37	chr12	109613968	109613968	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcacccaggcagcagaaaGaattggttttccattgatga	12	11	10	8	0	0	4	0	2	0	2	1	4	1	4	2	2	2	4	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:109613968G>T	uc001tob.2	+	9	1456	c.1337G>T	c.(1336-1338)AGA>ATA	p.R446I	ACACB_uc001toc.2_Missense_Mutation_p.R446I	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	446	Biotin carboxylation.|ATP-grasp.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GCAGCAGAAAGAATTGGTTTT	0.527													126	285					6.82392e-85	8.52808e-85	1	1	0		T	109613968	T	T	109613968	3	4	89	1	0	0	0	0	1	0	0	0	107	942	33	5	1367	5	ACACB	12	109613968	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	160	109613968	24237927	4673	58504											
ACACB	32	broad.mit.edu	37	chr12	109684234	109684234	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccacgtggcttgggtggAcccagaagacccccacaaag	10	6	12	13	1	0	2	0	0	0	2	1	3	1	3	4	3	0	2	4	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:109684234A>G	uc001tob.2	+	39	5671	c.5552A>G	c.(5551-5553)GAC>GGC	p.D1851G	ACACB_uc001toc.2_Missense_Mutation_p.D1851G|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.D517G	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1851	Carboxyltransferase.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GCTTGGGTGGACCCAGAAGAC	0.552													28	62					0	0	1	0	0		G	109684234	G	G	109684234	3	3	89	1	0	0	0	0	1	0	0	0	107	275	10	3	5702	3	ACACB	12	109684234	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	70266	109684234	24167661	4674	58505											
FOXN4	121643	broad.mit.edu	37	chr12	109719237	109719237	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagcgaagtccatgatgctCgggtcgagggcatccacctc	9	7	13	12	3	0	2	0	1	0	1	5	4	2	2	3	2	2	2	3	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:109719237C>T	uc001toe.3	-	9	1374	c.1269G>A	c.(1267-1269)CCG>CCA	p.P423P	FOXN4_uc009zvg.2_Silent_p.P220P|FOXN4_uc001tof.3_Silent_p.P243P	NM_213596	NP_998761	Q96NZ1	FOXN4_HUMAN	forkhead box N4	423					axon extension|embryo development|organ development|pattern specification process|regulation of heart contraction|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|lung(1)	2						CCATGATGCTCGGGTCGAGGG	0.627													25	66					0	0	1	0	0		T	109719237	T	T	109719237	2	4	89	1	0	0	0	0	0	0	0	1	6036	871	31	1		1	FOXN4	12	109719237	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	35003	109719237	24132658	4675	58506											
TRPV4	59341	broad.mit.edu	37	chr12	110252352	110252352	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagggtggactccagcagatCgatggggttgggcaccccct	7	8	15	11	1	0	1	0	0	0	1	2	3	1	2	3	5	1	3	3	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:110252352C>T	uc001tpj.1	-	1	345	c.250G>A	c.(250-252)GAT>AAT	p.D84N	TRPV4_uc001tpg.1_Missense_Mutation_p.D50N|TRPV4_uc001tph.1_Missense_Mutation_p.D84N|TRPV4_uc001tpi.1_Missense_Mutation_p.D84N|TRPV4_uc001tpk.1_Missense_Mutation_p.D84N|TRPV4_uc001tpl.1_Missense_Mutation_p.D84N	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	84	Cytoplasmic (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						TCCAGCAGATCGATGGGGTTG	0.617													11	34					0	0	1	0	0		T	110252352	T	T	110252352	3	4	89	1	0	0	0	0	1	0	0	0	16624	884	31	1	2425	1	TRPV4	12	110252352	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	533115	110252352	23599543	4676	58507											
ANKRD13A	88455	broad.mit.edu	37	chr12	110461908	110461908	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagaagttgttaatggttaCgaagcaaaggtaaaaggaaa	18	8	12	3	1	0	1	0	0	0	1	0	3	0	2	0	3	2	6	0	3	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:110461908C>T	uc001tpx.2	+	7	1051	c.792C>T	c.(790-792)TAC>TAT	p.Y264Y	ANKRD13A_uc009zvl.1_Intron|ANKRD13A_uc010sxw.1_Silent_p.Y264Y|ANKRD13A_uc001tpy.2_5'Flank	NM_033121	NP_149112	Q8IZ07	AN13A_HUMAN	ankyrin repeat domain 13	264											0						TTAATGGTTACGAAGCAAAGG	0.343													44	122					0	0	1	0	0		T	110461908	T	T	110461908	2	4	89	1	0	0	0	0	0	0	0	1	641	547	19	1		1	ANKRD13A	12	110461908	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	209556	110461908	23389987	4677	58508											
ATP2A2	488	broad.mit.edu	37	chr12	110780120	110780120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgcggtggctaaaaccGcctctgagatggtcctggcg	7	8	14	12	3	1	1	0	1	1	1	2	2	2	1	3	4	2	2	3	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:110780120G>A	uc001tqk.3	+	15	2748	c.2185G>A	c.(2185-2187)GCC>ACC	p.A729T	ATP2A2_uc001tql.3_Missense_Mutation_p.A729T|ATP2A2_uc010sxy.1_Missense_Mutation_p.A702T	NM_170665	NP_733765	P16615	AT2A2_HUMAN	ATPase, Ca++ transporting, slow twitch 2 isoform	729	Cytoplasmic (By similarity).				ATP biosynthetic process|cell adhesion|epidermis development|platelet activation|sarcoplasmic reticulum calcium ion transport	integral to plasma membrane|microsome|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|protein C-terminus binding|S100 alpha binding			ovary(3)|skin(1)	4						GGCTAAAACCGCCTCTGAGAT	0.547													33	73					0	0	1	0	0		A	110780120	A	A	110780120	3	1	89	1	0	0	0	0	1	0	0	0	1138	1087	38	1	2243	1	ATP2A2	12	110780120	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	318212	110780120	23071775	4678	58509											
MYL2	4633	broad.mit.edu	37	chr12	111352028	111352028	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattgtgaggaacacagtaAagttaattggacccggagcc	14	8	11	8	1	0	1	0	1	0	0	0	4	0	4	2	3	2	2	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:111352028A>C	uc001try.3	-	4	307	c.236T>G	c.(235-237)TTT>TGT	p.F79C	MYL2_uc001trx.3_Missense_Mutation_p.F60C	NM_000432	NP_000423	P10916	MLRV_HUMAN	slow cardiac myosin regulatory light chain 2	79					cardiac myofibril assembly|heart contraction|muscle filament sliding|negative regulation of cell growth|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	cytosol|myosin complex|sarcomere	actin monomer binding|calcium ion binding|myosin heavy chain binding|structural constituent of muscle			ovary(1)	1						GAACACAGTAAAGTTAATTGG	0.398													34	48					0	0	1	0	0		C	111352028	C	C	111352028	3	2	89	1	0	0	0	0	1	0	0	0	10065	14	1	5	280	5	MYL2	12	111352028	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	571908	111352028	22499867	4679	58510											
MYL2	4633	broad.mit.edu	37	chr12	111356915	111356915	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagctgcacccacctccttaAattcctggatttgggtctgt	7	14	8	12	0	1	0	0	0	1	0	3	1	3	1	4	2	2	2	4	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:111356915A>C	uc001try.3	-	2	157	c.86T>G	c.(85-87)TTT>TGT	p.F29C	MYL2_uc001trx.3_Missense_Mutation_p.F10C	NM_000432	NP_000423	P10916	MLRV_HUMAN	slow cardiac myosin regulatory light chain 2	29	EF-hand 1.				cardiac myofibril assembly|heart contraction|muscle filament sliding|negative regulation of cell growth|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	cytosol|myosin complex|sarcomere	actin monomer binding|calcium ion binding|myosin heavy chain binding|structural constituent of muscle			ovary(1)	1						CACCTCCTTAAATTCCTGGAT	0.512													28	24					0	0	1	0	0		C	111356915	C	C	111356915	3	2	89	1	0	0	0	0	1	0	0	0	10065	14	1	5	438	5	MYL2	12	111356915	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4887	111356915	22494980	4680	58511											
CUX2	23316	broad.mit.edu	37	chr12	111749952	111749952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagacaggctcagacgacgCcatcaagagcattctagagc	13	6	11	11	2	3	4	2	1	1	4	3	6	3	4	1	1	2	2	1	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:111749952C>T	uc001tsa.1	+	16	2102	c.1949C>T	c.(1948-1950)GCC>GTC	p.A650V		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	650						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						TCAGACGACGCCATCAAGAGC	0.617													6	16					0	0	1	0	0		T	111749952	T	T	111749952	3	4	89	1	0	0	0	0	1	0	0	0	4068	739	26	2	2011	2	CUX2	12	111749952	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	393037	111749952	22101943	4681	58512											
C12orf51	283450	broad.mit.edu	37	chr12	112667668	112667668	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaattgtggaatgtacatcAgtgctctagacagaacctaa	14	10	8	9	0	2	2	1	0	1	2	2	3	2	3	2	1	3	2	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:112667668A>C	uc009zwc.2	-	34	5105	c.5087T>G	c.(5086-5088)CTG>CGG	p.L1696R	C12orf51_uc001ttr.1_5'Flank	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						AATGTACATCAGTGCTCTAGA	0.453													13	35					0	0	1	0	0		C	112667668	C	C	112667668	3	2	89	1	0	0	0	0	1	0	0	0	1699	188	7	5	7047	5	C12orf51	12	112667668	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	917716	112667668	21184227	4682	58513											
C12orf51	283450	broad.mit.edu	37	chr12	112721041	112721041	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatgcttttggcagattcGccctcttttctcattagaat	8	18	6	9	1	2	2	1	0	2	2	4	2	2	2	1	1	1	2	1	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:112721041G>A	uc009zwc.2	-	2	237	c.219C>T	c.(217-219)GGC>GGT	p.G73G		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TGGCAGATTCGCCCTCTTTTC	0.428													17	28					0	0	1	0	0		A	112721041	A	A	112721041	2	1	89	1	0	0	0	0	0	0	0	1	1699	1074	38	1		1	C12orf51	12	112721041	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	53373	112721041	21130854	4683	58514											
PTPN11	5781	broad.mit.edu	37	chr12	112939971	112939971	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaagaggaaagggcacgaAtatacaaatattaagtattc	19	8	9	5	1	0	1	0	0	0	1	1	3	0	2	0	2	2	3	0	2	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:112939971A>C	uc001ttx.2	+	14	2003	c.1623A>C	c.(1621-1623)GAA>GAC	p.E541D		NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	545					axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding			haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						AAGGGCACGAATATACAAATA	0.448			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				38	77					0	0	1	0	0		C	112939971	C	C	112939971	3	2	89	1	0	0	0	0	1	0	0	0	12803	98	4	5	1677	5	PTPN11	12	112939971	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	218930	112939971	20911924	4684	58515											
OAS1	4938	broad.mit.edu	37	chr12	113346601	113346601	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcggggagggggtggagttCgatgtgctgcctgcctttga	4	11	18	8	2	0	1	0	1	0	0	2	4	0	3	2	5	3	2	2	5	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:113346601C>T	uc001tud.2	+	2	547	c.441C>T	c.(439-441)TTC>TTT	p.F147F	OAS1_uc010syn.1_Silent_p.F146F|OAS1_uc010syo.1_Silent_p.F146F|OAS1_uc001tub.2_Silent_p.F147F|OAS1_uc001tuc.2_Silent_p.F147F|OAS1_uc009zwf.2_Silent_p.F146F	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	147	Necessary for binding to dsRNA.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						GGGTGGAGTTCGATGTGCTGC	0.567													36	82					0	0	1	0	0		T	113346601	T	T	113346601	2	4	89	1	0	0	0	0	0	0	0	1	10818	883	31	1		1	OAS1	12	113346601	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	406630	113346601	20505294	4685	58516											
OAS3	4940	broad.mit.edu	37	chr12	113384669	113384669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcctagccgaaggcctccGaactgtcctgggcctgatcc	7	7	11	16	2	0	1	0	1	0	0	3	3	3	1	7	2	3	0	7	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:113384669G>A	uc001tug.2	+	4	845	c.758G>A	c.(757-759)CGA>CAA	p.R253Q		NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	253	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						GAAGGCCTCCGAACTGTCCTG	0.577													17	28					0	0	1	0	0		A	113384669	A	A	113384669	3	1	89	1	0	0	0	0	1	0	0	0	10820	1058	37	1	772	1	OAS3	12	113384669	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	38068	113384669	20467226	4686	58517											
OAS2	4939	broad.mit.edu	37	chr12	113416560	113416560	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacgtcctgcaggaacccgaAcagttccccctggtgcaggg	8	6	13	14	2	0	0	0	0	0	0	2	3	2	1	4	3	4	3	4	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:113416560A>G	uc001tuj.2	+	1	287	c.147A>G	c.(145-147)GAA>GAG	p.E49E	OAS2_uc001tuh.2_Silent_p.E49E|OAS2_uc001tui.1_Silent_p.E49E	NM_016817	NP_058197	P29728	OAS2_HUMAN	2'-5'-oligoadenylate synthetase 2 isoform 1	49	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|membrane|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(1)	1						AGGAACCCGAACAGTTCCCCC	0.572													10	39					0	0	1	0	0		G	113416560	G	G	113416560	2	3	89	1	0	0	0	0	0	0	0	1	10819	40	2	3		3	OAS2	12	113416560	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	31891	113416560	20435335	4687	58518											
PLBD2	196463	broad.mit.edu	37	chr12	113812324	113812324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggcctggaggacagctacGaaggccgtgtgagcttccca	10	6	14	11	2	0	1	0	1	0	0	1	4	1	3	3	4	3	2	3	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:113812324G>A	uc001tve.2	+	4	624	c.589G>A	c.(589-591)GAA>AAA	p.E197K	PLBD2_uc001tvf.2_Missense_Mutation_p.E197K	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	197					lipid catabolic process	lysosomal lumen	hydrolase activity				0						GGACAGCTACGAAGGCCGTGT	0.547													6	7					0	0	1	0	0		A	113812324	A	A	113812324	3	1	89	1	0	0	0	0	1	0	0	0	12045	1059	37	1	603	1	PLBD2	12	113812324	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	395764	113812324	20039571	4688	58519											
TBX5	6910	broad.mit.edu	37	chr12	114832669	114832669	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgatgtgtaatctaggCtggtatttgtgcatggaatt	9	16	11	5	1	2	0	1	0	1	0	2	2	2	1	0	3	1	4	0	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:114832669C>T	uc001tvo.2	-	6	1035	c.540G>A	c.(538-540)CAG>CAA	p.Q180Q	TBX5_uc001tvp.2_Silent_p.Q180Q|TBX5_uc001tvq.2_Silent_p.Q130Q|TBX5_uc010syv.1_Silent_p.Q180Q	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	180	T-box.				cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		GTAATCTAGGCTGGTATTTGT	0.363													67	173					0	0	1	0	0		T	114832669	T	T	114832669	2	4	89	1	0	0	0	0	0	0	0	1	15686	796	28	2		2	TBX5	12	114832669	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1020345	114832669	19019226	4689	58520											
MED13L	23389	broad.mit.edu	37	chr12	116425055	116425055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcagggacaacagcatacGaaccacatcctgggaggaga	14	4	12	11	1	0	1	0	0	0	1	1	5	1	3	2	3	5	2	2	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:116425055G>A	uc001tvw.2	-	18	4028	c.3973C>T	c.(3973-3975)CGT>TGT	p.R1325C		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1325					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		AACAGCATACGAACCACATCC	0.552													24	30					0	0	1	0	0		A	116425055	A	A	116425055	3	1	89	1	0	0	0	0	1	0	0	0	9449	1058	37	1	2715	1	MED13L	12	116425055	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1592386	116425055	17426840	4690	58521											
C12orf49	79794	broad.mit.edu	37	chr12	117158242	117158242	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accagcaaatccttcctctcGcaaacgtagcctgaaagtca	13	8	6	14	2	2	1	1	1	1	0	5	1	4	1	4	0	3	3	4	0	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:117158242G>A	uc001tvz.1	-	3	417	c.279C>T	c.(277-279)TGC>TGT	p.C93C	C12orf49_uc009zwm.1_Silent_p.C63C	NM_024738	NP_079014	Q9H741	CL049_HUMAN	hypothetical protein LOC79794 precursor	93						extracellular region				ovary(1)	1	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0281)		CCTTCCTCTCGCAAACGTAGC	0.532													55	117					0	0	1	0	0		A	117158242	A	A	117158242	2	1	89	1	0	0	0	0	0	0	0	1	1696	1079	38	1		1	C12orf49	12	117158242	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	733187	117158242	16693653	4691	58522											
NOS1	4842	broad.mit.edu	37	chr12	117685282	117685282	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacagcgtgtccgaaggcGcaaaagtgagggtatgctcg	10	7	14	10	4	0	1	0	1	0	0	3	2	2	1	2	2	2	3	2	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:117685282G>A	uc001twm.1	-	18	3380	c.2694C>T	c.(2692-2694)TGC>TGT	p.C898C		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	898	FMN (By similarity).|Flavodoxin-like.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GTCCGAAGGCGCAAAAGTGAG	0.557													17	41					0	0	1	0	0		A	117685282	A	A	117685282	2	1	89	1	0	0	0	0	0	0	0	1	10560	1079	38	1		1	NOS1	12	117685282	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	527040	117685282	16166613	4692	58523											
NOS1	4842	broad.mit.edu	37	chr12	117691546	117691546	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagacgctgttgaatcGgaccttgtagctcctgccaa	9	9	13	10	2	0	2	0	1	0	1	2	5	1	4	3	3	2	4	3	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:117691546G>A	uc001twm.1	-	17	3231	c.2545C>T	c.(2545-2547)CGA>TGA	p.R849*	NOS1_uc001twn.1_Nonsense_Mutation_p.R53*	NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	849	Flavodoxin-like.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CTGTTGAATCGGACCTTGTAG	0.542													33	67					0	0	1	0	0		A	117691546	A	A	117691546	4	1	89	1	0	0	0	0	0	1	0	0	10560	1124	39	1	1811	1	NOS1	12	117691546	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6264	117691546	16160349	4693	58524											
NOS1	4842	broad.mit.edu	37	chr12	117723132	117723132	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtgcagtcacgggcatcGaatacctggaagaggcacag	11	6	15	9	2	1	1	1	0	0	1	2	3	1	2	1	4	2	3	1	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:117723132G>A	uc001twm.1	-	7	1982	c.1296C>T	c.(1294-1296)TTC>TTT	p.F432F		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	432					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CACGGGCATCGAATACCTGGA	0.552													8	18					0	0	1	0	0		A	117723132	A	A	117723132	2	1	89	1	0	0	0	0	0	0	0	1	10560	1049	37	1		1	NOS1	12	117723132	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	31586	117723132	16128763	4694	58525											
RFC5	5985	broad.mit.edu	37	chr12	118467596	118467596	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgactttccatcttcagttCgaatacatttattgaccaaa	12	16	4	9	1	2	2	1	2	1	0	4	3	3	2	2	0	1	1	2	0	4	8	rs141299152		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:118467596C>T	uc001twq.2	+	10	1017	c.892C>T	c.(892-894)CGA>TGA	p.R298*	RFC5_uc010syx.1_Nonsense_Mutation_p.R277*|RFC5_uc010syy.1_Nonsense_Mutation_p.R277*|RFC5_uc010syz.1_Nonsense_Mutation_p.R213*|RFC5_uc009zwr.2_Nonsense_Mutation_p.R295*	NM_007370	NP_031396	P40937	RFC5_HUMAN	replication factor C 5 isoform 1	298					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ATCTTCAGTTCGAATACATTT	0.363													45	109					0	0	1	0	0		T	118467596	T	T	118467596	4	4	89	1	0	0	0	0	0	1	0	0	13273	876	31	1	936	1	RFC5	12	118467596	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	744464	118467596	15384299	4695	58526											
SUDS3	64426	broad.mit.edu	37	chr12	118828948	118828948	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactgaacaagtggaacgAaattacattaaagaaaagaa	22	6	8	5	1	0	4	0	1	0	3	0	6	0	5	0	1	3	0	0	1	10	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:118828948A>C	uc001twz.2	+	6	517	c.378A>C	c.(376-378)CGA>CGC	p.R126R		NM_022491	NP_071936	Q9H7L9	SDS3_HUMAN	suppressor of defective silencing 3	126	Potential.				chromatin modification|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	Sin3 complex	histone deacetylase binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AAGTGGAACGAAATTACATTA	0.448													9	89					0	0	1	0	0		C	118828948	C	C	118828948	2	2	89	1	0	0	0	0	0	0	0	1	15392	233	9	5		5	SUDS3	12	118828948	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	361352	118828948	15022947	4696	58527											
CCDC60	160777	broad.mit.edu	37	chr12	119943093	119943093	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaaccaagccagatgaaGaacctctgtatatgagtaag	15	9	8	9	0	2	4	1	2	1	2	2	4	2	4	3	0	3	2	3	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:119943093G>T	uc001txe.2	+	7	1333	c.868G>T	c.(868-870)GAA>TAA	p.E290*	uc001txf.2_Intron	NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60	290										ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		GCCAGATGAAGAACCTCTGTA	0.502													55	110					6.9144e-35	8.52411e-35	1	1	0		T	119943093	T	T	119943093	4	4	89	1	0	0	0	0	0	1	0	0	2834	943	33	5	894	5	CCDC60	12	119943093	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1114145	119943093	13908802	4697	58528											
CIT	11113	broad.mit.edu	37	chr12	120204980	120204980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcctcccgatgtttctcttCgagctcctagacacaaaaga	10	10	8	13	2	1	2	0	0	1	2	5	4	3	2	3	1	1	2	3	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:120204980C>T	uc001txi.1	-	18	2142	c.2089G>A	c.(2089-2091)GAA>AAA	p.E697K	CIT_uc001txh.1_Missense_Mutation_p.E231K|CIT_uc001txj.1_Missense_Mutation_p.E739K	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	697	Potential.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		TGTTTCTCTTCGAGCTCCTAG	0.473													45	102					0	0	1	0	0		T	120204980	T	T	120204980	3	4	89	1	0	0	0	0	1	0	0	0	3441	893	31	1	4114	1	CIT	12	120204980	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	261887	120204980	13646915	4698	58529											
MSI1	4440	broad.mit.edu	37	chr12	120795629	120795629	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaactcaccattttgttgTtgatttcatgaaaatgaatt	12	16	5	8	0	2	3	2	3	0	0	2	3	2	3	2	0	1	2	2	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:120795629T>C	uc001tye.1	-	8	588	c.524A>G	c.(523-525)AAC>AGC	p.N175S		NM_002442	NP_002433	O43347	MSI1H_HUMAN	musashi 1	175	RRM 2.				nervous system development	cytoplasm|nucleus	nucleotide binding			central_nervous_system(2)|breast(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CATTTTGTTGTTGATTTCATG	0.254													13	25					0	0	1	0	0		C	120795629	C	C	120795629	3	2	89	1	0	0	0	0	1	0	0	0	9893	1725	60	3	592	3	MSI1	12	120795629	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	590649	120795629	13056266	4699	58530											
OASL	8638	broad.mit.edu	37	chr12	121458569	121458569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttggggttgatggcatagGcgtagctcccaccatcagga	8	10	14	9	1	1	1	1	1	0	0	2	2	2	2	2	5	1	5	2	5	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:121458569G>A	uc001tzj.1	-	6	1346	c.1340C>T	c.(1339-1341)GCC>GTC	p.A447V	OASL_uc001tzk.1_3'UTR	NM_003733	NP_003724	Q15646	OASL_HUMAN	2'-5'-oligoadenylate synthetase-like isoform a	447	Ubiquitin-like 2.				interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoplasm|nucleolus	ATP binding|DNA binding|double-stranded RNA binding|thyroid hormone receptor binding|transferase activity			skin(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GATGGCATAGGCGTAGCTCCC	0.532													38	76					0	0	1	0	0		A	121458569	A	A	121458569	3	1	89	1	0	0	0	0	1	0	0	0	10821	1203	42	2	208	2	OASL	12	121458569	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	662940	121458569	12393326	4700	58531											
P2RX4	5025	broad.mit.edu	37	chr12	121666569	121666569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccactacttacctcaagtCgtgcatttatgatgctaaaa	13	12	5	11	1	1	1	1	1	0	0	2	1	1	1	2	0	4	2	2	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:121666569C>T	uc001tzr.2	+	7	951	c.647C>T	c.(646-648)TCG>TTG	p.S216L	P2RX4_uc010szr.1_RNA|P2RX4_uc010szs.1_RNA|P2RX4_uc009zxc.2_Missense_Mutation_p.S189L|P2RX4_uc001tzs.2_Missense_Mutation_p.S232L|P2RX4_uc009zxb.2_RNA|P2RX4_uc010szt.1_Missense_Mutation_p.S115L	NM_002560	NP_002551	Q99571	P2RX4_HUMAN	purinergic receptor P2X4	216	Extracellular (Potential).				endothelial cell activation|negative regulation of cardiac muscle hypertrophy|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|regulation of apoptosis|regulation of blood pressure|regulation of sodium ion transport|relaxation of cardiac muscle|response to ATP|response to fluid shear stress|sensory perception of pain|tissue homeostasis	cell junction|perinuclear region of cytoplasm	cadherin binding|copper ion binding|extracellular ATP-gated cation channel activity|protein homodimerization activity|purinergic nucleotide receptor activity|receptor binding|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TACCTCAAGTCGTGCATTTAT	0.473													45	84					0	0	1	0	0		T	121666569	T	T	121666569	3	4	89	1	0	0	0	0	1	0	0	0	11361	893	31	1	673	1	P2RX4	12	121666569	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	208000	121666569	12185326	4701	58532											
P2RX4	5025	broad.mit.edu	37	chr12	121666584	121666584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagtcgtgcatttatgatgCtaaaacagatcccttctgcc	11	12	7	11	1	1	2	0	1	1	1	3	2	2	2	2	0	4	2	2	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:121666584C>T	uc001tzr.2	+	7	966	c.662C>T	c.(661-663)GCT>GTT	p.A221V	P2RX4_uc010szr.1_RNA|P2RX4_uc010szs.1_RNA|P2RX4_uc009zxc.2_Missense_Mutation_p.A194V|P2RX4_uc001tzs.2_Missense_Mutation_p.A237V|P2RX4_uc009zxb.2_RNA|P2RX4_uc010szt.1_Missense_Mutation_p.A120V	NM_002560	NP_002551	Q99571	P2RX4_HUMAN	purinergic receptor P2X4	221	Extracellular (Potential).				endothelial cell activation|negative regulation of cardiac muscle hypertrophy|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|regulation of apoptosis|regulation of blood pressure|regulation of sodium ion transport|relaxation of cardiac muscle|response to ATP|response to fluid shear stress|sensory perception of pain|tissue homeostasis	cell junction|perinuclear region of cytoplasm	cadherin binding|copper ion binding|extracellular ATP-gated cation channel activity|protein homodimerization activity|purinergic nucleotide receptor activity|receptor binding|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ATTTATGATGCTAAAACAGAT	0.498													39	79					0	0	1	0	0		T	121666584	T	T	121666584	3	4	89	1	0	0	0	0	1	0	0	0	11361	797	28	2	688	2	P2RX4	12	121666584	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	15	121666584	12185311	4702	58533											
MORN3	283385	broad.mit.edu	37	chr12	122097145	122097145	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtagactctcctgcacttTcctgtctgttggtcaggaag	7	13	11	10	0	3	1	1	0	2	1	5	3	4	2	2	2	1	3	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:122097145T>C	uc001uax.2	-	2	426	c.255A>G	c.(253-255)GGA>GGG	p.G85G	MORN3_uc001uay.2_RNA	NM_173855	NP_776254	Q6PF18	MORN3_HUMAN	MORN repeat containing 3	85											0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000409)|Epithelial(86;0.00145)		TCCTGCACTTTCCTGTCTGTT	0.483													32	64					0	0	1	0	0		C	122097145	C	C	122097145	2	2	89	1	0	0	0	0	0	0	0	1	9727	1770	62	3		3	MORN3	12	122097145	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	430561	122097145	11754750	4703	58534											
LRRC43	254050	broad.mit.edu	37	chr12	122685454	122685454	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcggcgtggtccgcacattGacatctgacaggctgacgtt	7	11	12	11	4	1	3	0	3	1	0	3	3	2	3	1	3	0	3	1	3	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:122685454G>A	uc009zxm.2	+	10	1807	c.1782G>A	c.(1780-1782)TTG>TTA	p.L594L	LRRC43_uc001ubw.3_Silent_p.L409L|LRRC43_uc009zxn.2_Silent_p.L355L|B3GNT4_uc001ubx.2_5'Flank|B3GNT4_uc001uby.2_5'Flank	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	594											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		TCCGCACATTGACATCTGACA	0.682													26	53					0	0	1	0	0		A	122685454	A	A	122685454	2	1	89	1	0	0	0	0	0	0	0	1	9019	1281	45	4		4	LRRC43	12	122685454	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	588309	122685454	11166441	4704	58535											
VPS33A	65082	broad.mit.edu	37	chr12	122748207	122748207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacatcagctgccggcaaacGatttcctttaagtgtgaaca	12	10	8	11	2	1	1	1	1	0	0	2	2	2	1	2	1	4	2	2	1	3	3	rs150472752		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:122748207G>A	uc001ucd.2	-	3	321	c.208C>T	c.(208-210)CGT>TGT	p.R70C	VPS33A_uc001ucc.2_RNA|VPS33A_uc001uce.2_Missense_Mutation_p.R70C	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	70					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		GCCGGCAAACGATTTCCTTTA	0.373													21	45					0	0	1	0	0		A	122748207	A	A	122748207	3	1	89	1	0	0	0	0	1	0	0	0	17227	1058	37	1	1626	1	VPS33A	12	122748207	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	62753	122748207	11103688	4705	58536											
CLIP1	6249	broad.mit.edu	37	chr12	122757586	122757586	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgtgtcgtggagatcaaAgcagtcacaaatgtcacaga	13	9	10	9	1	4	2	3	0	1	2	5	3	4	2	0	1	1	1	0	1	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:122757586A>C	uc001ucg.1	-	25	4259	c.4153T>G	c.(4153-4155)TTT>GTT	p.F1385V	CLIP1_uc001uch.1_Missense_Mutation_p.F1374V|CLIP1_uc001uci.1_Missense_Mutation_p.F1339V|CLIP1_uc001ucf.1_Missense_Mutation_p.F44V	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	1385					mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		TGGAGATCAAAGCAGTCACAA	0.473													15	55					0	0	1	0	0		C	122757586	C	C	122757586	3	2	89	1	0	0	0	0	1	0	0	0	3535	72	3	5	167	5	CLIP1	12	122757586	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	9379	122757586	11094309	4706	58537											
RSRC2	65117	broad.mit.edu	37	chr12	123001843	123001843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgatcttgagcgggaacgaGacctgatccgccgttttctt	7	13	11	10	4	2	4	0	3	2	1	3	6	3	5	3	1	2	1	3	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:123001843G>A	uc001ucr.2	-	5	679	c.533C>T	c.(532-534)TCT>TTT	p.S178F	RSRC2_uc001uco.2_5'UTR|RSRC2_uc001ucp.2_Missense_Mutation_p.S119F|RSRC2_uc001ucq.2_5'UTR|RSRC2_uc001ucs.2_5'UTR|RSRC2_uc001uct.2_Missense_Mutation_p.S130F|RSRC2_uc001ucu.2_Missense_Mutation_p.S178F	NM_023012	NP_075388	Q7L4I2	RSRC2_HUMAN	arginine/serine-rich coiled-coil 2 isoform a	178	Ser-rich.									ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.14e-05)|Epithelial(86;0.000183)|BRCA - Breast invasive adenocarcinoma(302;0.201)		GCGGGAACGAGACCTGATCCG	0.488													49	86					0	0	1	0	0		A	123001843	A	A	123001843	3	1	89	1	0	0	0	0	1	0	0	0	13740	942	33	4	795	4	RSRC2	12	123001843	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	244257	123001843	10850052	4707	58538											
KNTC1	9735	broad.mit.edu	37	chr12	123075984	123075984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgcccagtggggcattcGtcttggtaaacttggtgtga	7	13	14	7	1	1	2	0	2	1	0	2	2	1	2	1	4	2	2	1	4	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:123075984G>A	uc001ucv.2	+	42	4392	c.4229G>A	c.(4228-4230)CGT>CAT	p.R1410H	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	1410					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		tGGGGCATTCGTCTTGGTAAA	0.294													63	125					0	0	1	0	0		A	123075984	A	A	123075984	3	1	89	1	0	0	0	0	1	0	0	0	8444	1145	40	1	4391	1	KNTC1	12	123075984	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	74141	123075984	10775911	4708	58539											
KNTC1	9735	broad.mit.edu	37	chr12	123097759	123097759	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatagaatctctctttaaaaAacccattgaagaagtgaagt	17	12	6	6	0	2	4	0	2	2	2	3	4	2	4	1	0	1	0	1	0	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:123097759A>C	uc001ucv.2	+	54	5886	c.5723A>C	c.(5722-5724)AAA>ACA	p.K1908T	KNTC1_uc010taf.1_Missense_Mutation_p.K833T	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	1908					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		CTCTTTAAAAAACCCATTGAA	0.343													38	62					0	0	1	0	0		C	123097759	C	C	123097759	3	2	89	1	0	0	0	0	1	0	0	0	8444	14	1	5	5933	5	KNTC1	12	123097759	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	21775	123097759	10754136	4709	58540											
GPR109A	338442	broad.mit.edu	37	chr12	123186857	123186857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagctcgacgctcgtgctgCggttattatctggctcacct	5	13	11	12	4	2	1	1	1	1	0	4	2	2	1	1	2	3	5	1	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:123186857C>T	uc001ucx.1	-	1	1048	c.974G>A	c.(973-975)CGC>CAC	p.R325H	GPR81_uc001ucw.1_Intron	NM_177551	NP_808219	Q8TDS4	HCAR2_HUMAN	G protein-coupled receptor 109A	325	Cytoplasmic (Potential).				negative regulation of lipid catabolic process|neutrophil apoptosis|positive regulation of adiponectin secretion|positive regulation of neutrophil apoptosis	integral to membrane|plasma membrane	nicotinic acid receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	GCTCGTGCTGCGGTTATTATC	0.557													19	152					0	0	1	0	0		T	123186857	T	T	123186857	3	4	89	1	0	0	0	0	1	0	0	0	6640	768	27	1	121	1	GPR109A	12	123186857	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	89098	123186857	10665038	4710	58541											
GPR109B	8843	broad.mit.edu	37	chr12	123200148	123200148	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaacagcccaactgtttCtccagagatgctggttcttg	9	12	9	11	0	2	1	0	0	2	1	3	2	2	1	2	1	5	4	2	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:123200148C>A	uc001ucy.3	-	1	1292	c.1137G>T	c.(1135-1137)GAG>GAT	p.E379D	GPR81_uc001ucw.1_Intron	NM_006018	NP_006009	P49019	HCAR3_HUMAN	G protein-coupled receptor 109B	379	Cytoplasmic (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	CCAACTGTTTCTCCAGAGATG	0.498													57	126					1.81848e-46	2.26089e-46	1	1	0		A	123200148	A	A	123200148	3	1	89	1	0	0	0	0	1	0	0	0	6641	912	32	5	30	5	GPR109B	12	123200148	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13291	123200148	10651747	4711	58542											
GPR109B	8843	broad.mit.edu	37	chr12	123200311	123200311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagctcgacgctcgtgctgCggttattatctggctcacct	5	13	11	12	4	2	1	1	1	1	0	4	2	2	1	1	2	3	5	1	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:123200311C>T	uc001ucy.3	-	1	1129	c.974G>A	c.(973-975)CGC>CAC	p.R325H	GPR81_uc001ucw.1_Intron	NM_006018	NP_006009	P49019	HCAR3_HUMAN	G protein-coupled receptor 109B	325	Cytoplasmic (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	GCTCGTGCTGCGGTTATTATC	0.552													11	30					0	0	1	0	0		T	123200311	T	T	123200311	3	4	89	1	0	0	0	0	1	0	0	0	6641	768	27	1	193	1	GPR109B	12	123200311	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	163	123200311	10651584	4712	58543											
HIP1R	9026	broad.mit.edu	37	chr12	123333139	123333139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtcctccacaaggtccttcGagacgggcaccccaatgtga	9	7	10	15	3	0	2	0	1	0	1	4	3	3	2	5	2	0	1	5	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:123333139G>A	uc001udj.1	+	3	343	c.284G>A	c.(283-285)CGA>CAA	p.R95Q	HIP1R_uc001udg.1_Missense_Mutation_p.R83Q|HIP1R_uc001udi.1_Missense_Mutation_p.R95Q|HIP1R_uc001udh.2_Missense_Mutation_p.R95Q	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	95	ENTH.				receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		AAGGTCCTTCGAGACGGGCAC	0.647													28	40					0	0	1	0	0		A	123333139	A	A	123333139	3	1	89	1	0	0	0	0	1	0	0	0	7131	1058	37	1	294	1	HIP1R	12	123333139	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	132828	123333139	10518756	4713	58544											
MPHOSPH9	10198	broad.mit.edu	37	chr12	123649915	123649915	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttttccctcatcaagttCttttaaagctctcatgatcg	9	18	4	10	1	4	1	3	1	2	0	7	1	5	1	1	0	1	2	1	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:123649915C>A	uc001uel.2	-	14	2352	c.2245G>T	c.(2245-2247)GAA>TAA	p.E749*	MPHOSPH9_uc010tal.1_Nonsense_Mutation_p.E203*|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Nonsense_Mutation_p.E203*	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	749					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		TCATCAAGTTCTTTTAAAGCT	0.378													45	85					1.06522e-23	1.27633e-23	1	1	0		A	123649915	A	A	123649915	4	1	89	1	0	0	0	0	0	1	0	0	9746	922	32	5	878	5	MPHOSPH9	12	123649915	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	316776	123649915	10201980	4714	58545											
RILPL1	353116	broad.mit.edu	37	chr12	123984017	123984017	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtccttggcgcggatcTcgtcgcgttgtttgtccacc	2	13	11	15	5	1	0	0	0	1	0	5	1	3	1	4	2	0	2	4	2	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:123984017T>G	uc001ufe.2	-	3	763	c.527A>C	c.(526-528)GAG>GCG	p.E176A	RILPL1_uc001ufd.2_Missense_Mutation_p.E25A|RILPL1_uc010tas.1_Missense_Mutation_p.E176A	NM_178314	NP_847884	Q5EBL4	RIPL1_HUMAN	Rab interacting lysosomal protein-like 1	176	Potential.				neuroprotection	cytosol					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.00067)|all cancers(50;0.00836)|BRCA - Breast invasive adenocarcinoma(302;0.197)		GGCGCGGATCTCGTCGCGTTG	0.617													31	43					0	0	1	0	0		G	123984017	G	G	123984017	3	3	89	1	0	0	0	0	1	0	0	0	13386	1551	54	5	704	5	RILPL1	12	123984017	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	334102	123984017	9867878	4715	58546											
TMED2	10959	broad.mit.edu	37	chr12	124074954	124074954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgatgacagctgtaaagcacGaacaggaatacatggaagtc	16	6	11	8	2	0	1	0	1	0	0	1	5	0	3	0	2	4	3	0	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:124074954G>A	uc001ufg.2	+	3	547	c.439G>A	c.(439-441)GAA>AAA	p.E147K		NM_006815	NP_006806	Q15363	TMED2_HUMAN	coated vesicle membrane protein precursor	147	Lumenal (Potential).				protein transport|vesicle-mediated transport	COPI coated vesicle membrane|ER-Golgi intermediate compartment|integral to membrane|microsome|zymogen granule membrane	protein binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000138)|Epithelial(86;0.000613)|all cancers(50;0.00745)		TGTAAAGCACGAACAGGAATA	0.433													14	26					0	0	1	0	0		A	124074954	A	A	124074954	3	1	89	1	0	0	0	0	1	0	0	0	16029	1059	37	1	449	1	TMED2	12	124074954	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	90937	124074954	9776941	4716	58547											
DNAH10	196385	broad.mit.edu	37	chr12	124257443	124257443	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgtacccctcttcccgaGgagttcctggaccaaaacgt	8	10	8	15	2	2	0	0	0	2	0	4	3	4	2	5	2	2	2	5	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:124257443G>T	uc001uft.3	+	4	301	c.276G>T	c.(274-276)GAG>GAT	p.E92D		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	92	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		CTCTTCCCGAGGAGTTCCTGG	0.463													56	85					8.4772e-36	1.04649e-35	1	1	0		T	124257443	T	T	124257443	3	4	89	1	0	0	0	0	1	0	0	0	4604	991	35	5	290	5	DNAH10	12	124257443	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	182489	124257443	9594452	4717	58548											
DNAH10	196385	broad.mit.edu	37	chr12	124323173	124323173	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttcttcttcatttctgaCgatgagttgcttagcattct	7	18	8	8	1	5	2	1	2	4	0	5	3	5	2	0	1	2	4	0	1	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:124323173C>T	uc001uft.3	+	28	4744	c.4719C>T	c.(4717-4719)GAC>GAT	p.D1573D		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1573	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TCATTTCTGACGATGAGTTGC	0.527													43	90					0	0	1	0	0		T	124323173	T	T	124323173	2	4	89	1	0	0	0	0	0	0	0	1	4604	535	19	1		1	DNAH10	12	124323173	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	65730	124323173	9528722	4718	58549											
DNAH10	196385	broad.mit.edu	37	chr12	124330340	124330340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatgccgctaagcaaaaacGacaggaaaaaatacaacact	20	4	6	11	2	0	0	0	0	0	0	0	2	0	1	2	1	5	2	2	1	8	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:124330340G>A	uc001uft.3	+	30	5225	c.5200G>A	c.(5200-5202)GAC>AAC	p.D1734N		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1734	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		AAGCAAAAACGACAGGAAAAA	0.473													30	85					0	0	1	0	0		A	124330340	A	A	124330340	3	1	89	1	0	0	0	0	1	0	0	0	4604	1058	37	1	5318	1	DNAH10	12	124330340	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7167	124330340	9521555	4719	58550											
DNAH10	196385	broad.mit.edu	37	chr12	124333363	124333363	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaatcgatgcttctgtgctCtccgtgatctcctcccagat	6	13	8	14	3	3	2	0	1	3	1	7	4	4	2	3	0	2	2	3	0	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:124333363C>A	uc001uft.3	+	33	5707	c.5682C>A	c.(5680-5682)CTC>CTA	p.L1894L		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1894	AAA 1 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		CTTCTGTGCTCTCCGTGATCT	0.542													11	26					1.58986e-06	1.65575e-06	1	1	0		A	124333363	A	A	124333363	2	1	89	1	0	0	0	0	0	0	0	1	4604	900	32	5		5	DNAH10	12	124333363	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3023	124333363	9518532	4720	58551											
DNAH10	196385	broad.mit.edu	37	chr12	124345647	124345647	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggacccaaccacccgaGactggacagatggggtgttg	9	7	13	12	1	0	2	0	0	0	2	1	5	1	4	4	4	1	1	4	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:124345647G>T	uc001uft.3	+	38	6509	c.6484G>T	c.(6484-6486)GAC>TAC	p.D2162Y		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2162	AAA 2 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		AACCACCCGAGACTGGACAGA	0.488													6	41					0.00116845	0.00118508	1	1	0		T	124345647	T	T	124345647	3	4	89	1	0	0	0	0	1	0	0	0	4604	942	33	5	6634	5	DNAH10	12	124345647	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12284	124345647	9506248	4721	58552											
DNAH10	196385	broad.mit.edu	37	chr12	124377783	124377783	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtcttccttttccaggaaTtgtacctgcgcttttttctg	5	19	7	10	1	2	0	0	0	2	0	4	1	4	1	3	1	2	2	3	1	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:124377783T>G	uc001uft.3	+	52	8670	c.8645T>G	c.(8644-8646)ATT>AGT	p.I2882S		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2882	AAA 4 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TTTCCAGGAATTGTACCTGCG	0.512													16	18					0	0	1	0	0		G	124377783	G	G	124377783	3	3	89	1	0	0	0	0	1	0	0	0	4604	1493	52	5	8851	5	DNAH10	12	124377783	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	32136	124377783	9474112	4722	58553											
DNAH10	196385	broad.mit.edu	37	chr12	124377848	124377848	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcagattggacaggaagctCtgaagcaaggcatggggccg	11	6	16	8	1	2	2	1	1	1	1	2	4	2	4	1	5	2	3	1	5	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:124377848C>T	uc001uft.3	+	52	8735	c.8710C>T	c.(8710-8712)CTG>TTG	p.L2904L		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2904	AAA 4 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		ACAGGAAGCTCTGAAGCAAGG	0.502													28	40					0	0	1	0	0		T	124377848	T	T	124377848	2	4	89	1	0	0	0	0	0	0	0	1	4604	912	32	4		4	DNAH10	12	124377848	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	65	124377848	9474047	4723	58554											
NCOR2	9612	broad.mit.edu	37	chr12	124870323	124870323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgctgctgcaagatctcatCgaggttctgcctcttcttgt	5	15	10	11	1	4	1	1	0	4	1	6	2	4	1	1	1	4	4	1	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:124870323C>T	uc010tba.1	-	17	2104	c.1987G>A	c.(1987-1989)GAT>AAT	p.D663N	NCOR2_uc010tay.1_Missense_Mutation_p.D663N|NCOR2_uc010taz.1_Missense_Mutation_p.D663N|NCOR2_uc010tbb.1_Missense_Mutation_p.D663N|NCOR2_uc010tbc.1_Missense_Mutation_p.D662N|NCOR2_uc001ugj.1_Missense_Mutation_p.D663N	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	663					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		AAGATCTCATCGAGGTTCTGC	0.592													52	87					0	0	1	0	0		T	124870323	T	T	124870323	3	4	89	1	0	0	0	0	1	0	0	0	10255	884	31	1	5705	1	NCOR2	12	124870323	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	492475	124870323	8981572	4724	58555											
AACS	65985	broad.mit.edu	37	chr12	125613907	125613907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtctggggagagagcggcGagctggtgtgtactaagccg	7	7	19	8	4	1	1	0	0	1	1	1	4	1	2	1	5	4	2	1	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:125613907G>A	uc001uhc.2	+	14	1656	c.1450G>A	c.(1450-1452)GAG>AAG	p.E484K	AACS_uc001uhd.2_Missense_Mutation_p.E484K|AACS_uc009zyh.2_Intron|AACS_uc009zyi.2_Missense_Mutation_p.E82K	NM_023928	NP_076417	Q86V21	AACS_HUMAN	acetoacetyl-CoA synthetase	484					fatty acid metabolic process	cytosol	acetoacetate-CoA ligase activity|ATP binding			ovary(1)|liver(1)|central_nervous_system(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;9.82e-05)|Epithelial(86;0.000642)|all cancers(50;0.00843)		AGAGAGCGGCGAGCTGGTGTG	0.527													69	133					0	0	1	0	0		A	125613907	A	A	125613907	3	1	89	1	0	0	0	0	1	0	0	0	9	1059	37	1	1504	1	AACS	12	125613907	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	743584	125613907	8237988	4725	58556											
AACS	65985	broad.mit.edu	37	chr12	125626770	125626770	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatccctgagctgcagggcTtctgagtcagactggctggc	7	9	13	12	0	2	3	1	2	1	1	3	3	3	3	1	3	2	4	1	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:125626770T>G	uc001uhc.2	+	18	2220	c.2014T>G	c.(2014-2016)TTC>GTC	p.F672V	AACS_uc001uhd.2_3'UTR|AACS_uc009zyh.2_RNA|AACS_uc009zyi.2_Missense_Mutation_p.F270V	NM_023928	NP_076417	Q86V21	AACS_HUMAN	acetoacetyl-CoA synthetase	672					fatty acid metabolic process	cytosol	acetoacetate-CoA ligase activity|ATP binding			ovary(1)|liver(1)|central_nervous_system(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;9.82e-05)|Epithelial(86;0.000642)|all cancers(50;0.00843)		GCTGCAGGGCTTCTGAGTCAG	0.527													23	54					0	0	1	0	0		G	125626770	G	G	125626770	3	3	89	1	0	0	0	0	1	0	0	0	9	1609	56	5	2084	5	AACS	12	125626770	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	12863	125626770	8225125	4726	58557											
FZD10	11211	broad.mit.edu	37	chr12	130648529	130648529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtggggccacgaggccatcGaagccaacagcagctacttc	11	5	12	13	2	0	0	0	0	0	0	2	2	0	0	3	3	5	2	3	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:130648529G>A	uc001uii.2	+	1	1498	c.1042G>A	c.(1042-1044)GAA>AAA	p.E348K	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	348	Cytoplasmic (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		CGAGGCCATCGAAGCCAACAG	0.657													26	34					0	0	1	0	0		A	130648529	A	A	130648529	3	1	89	1	0	0	0	0	1	0	0	0	6143	1059	37	1	1044	1	FZD10	12	130648529	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5021759	130648529	3203366	4727	58558											
STX2	2054	broad.mit.edu	37	chr12	131297517	131297517	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttaccctttaacttggctcGaattttattcgcagttttct	7	19	5	10	2	1	0	0	0	1	0	3	1	1	0	1	1	2	3	1	1	4	9	rs146831527		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:131297517G>A	uc001uio.2	-	4	432	c.265C>T	c.(265-267)CGA>TGA	p.R89*	STX2_uc001uip.2_Nonsense_Mutation_p.R89*|STX2_uc010tbj.1_Nonsense_Mutation_p.R89*	NM_194356	NP_919337	P32856	STX2_HUMAN	syntaxin 2 isoform 2	89	Potential.|Cytoplasmic (Potential).			R -> A (in Ref. 1; BAA03436).	acrosome reaction|ectoderm development|intracellular protein transport|organ morphogenesis|signal transduction	basolateral plasma membrane|integral to membrane|microsome|soluble fraction	calcium-dependent protein binding|SNAP receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.79e-06)|all cancers(50;5.27e-05)|Epithelial(86;5.29e-05)		AACTTGGCTCGAATTTTATTC	0.244													31	59					0	0	1	0	0		A	131297517	A	A	131297517	4	1	89	1	0	0	0	0	0	1	0	0	15370	1066	37	1	711	1	STX2	12	131297517	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	648988	131297517	2554378	4728	58559											
RAN	5901	broad.mit.edu	37	chr12	131359262	131359262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaatccattgtcttccaccGaaagaagaatcttcaggtgt	13	11	8	9	1	3	2	1	0	2	2	5	4	5	2	3	1	0	0	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:131359262G>A	uc001uir.2	+	5	484	c.419G>A	c.(418-420)CGA>CAA	p.R140Q	RAN_uc010tbk.1_Missense_Mutation_p.R52Q|RAN_uc010tbl.1_Missense_Mutation_p.R52Q|RAN_uc001uis.2_Missense_Mutation_p.R160Q	NM_006325	NP_006316	P62826	RAN_HUMAN	ras-related nuclear protein	140					androgen receptor signaling pathway|cell division|DNA metabolic process|mitosis|mitotic spindle organization|positive regulation of transcription, DNA-dependent|protein export from nucleus|RNA export from nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|melanosome|nuclear pore|nucleoplasm	androgen receptor binding|chromatin binding|GTP binding|GTPase activity|transcription coactivator activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	Lung NSC(355;7.46e-07)|all_epithelial(31;7.36e-06)		OV - Ovarian serous cystadenocarcinoma(86;9.18e-49)|Epithelial(86;1.42e-45)|all cancers(50;6.28e-40)		GTCTTCCACCGAAAGAAGAAT	0.378													23	61					0	0	1	0	0		A	131359262	A	A	131359262	3	1	89	1	0	0	0	0	1	0	0	0	13049	1058	37	1	433	1	RAN	12	131359262	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	61745	131359262	2492633	4729	58560											
PUS1	80324	broad.mit.edu	37	chr12	132416843	132416843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtccttccagcgctgcGcccggacagacaaggtgggt	9	7	13	12	3	0	1	0	0	0	1	2	2	2	2	3	3	2	1	3	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:132416843G>A	uc001ujf.2	+	3	906	c.427G>A	c.(427-429)GCC>ACC	p.A143T	PUS1_uc001ujg.2_Missense_Mutation_p.A115T|PUS1_uc001ujh.2_Missense_Mutation_p.A115T|PUS1_uc001uji.2_Missense_Mutation_p.A90T	NM_025215	NP_079491	Q9Y606	TRUA_HUMAN	pseudouridine synthase 1 isoform 1	143						mitochondrion	pseudouridine synthase activity|pseudouridylate synthase activity|RNA binding			breast(1)|central_nervous_system(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.05e-08)|Epithelial(86;2.51e-07)|all cancers(50;2.94e-07)		CCAGCGCTGCGCCCGGACAGA	0.562													22	33					0	0	1	0	0		A	132416843	A	A	132416843	3	1	89	1	0	0	0	0	1	0	0	0	12855	1087	38	1	437	1	PUS1	12	132416843	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1057581	132416843	1435052	4730	58561											
EP400	57634	broad.mit.edu	37	chr12	132464278	132464278	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctggtagcaggggccggaAgcacagtagagacggacctg	10	4	17	10	2	0	1	0	0	0	1	0	4	0	3	3	5	2	4	3	5	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:132464278A>C	uc001ujn.2	+	2	1410	c.1375A>C	c.(1375-1377)AGC>CGC	p.S459R	EP400_uc001ujl.2_Missense_Mutation_p.S458R|EP400_uc001ujm.2_Missense_Mutation_p.S459R|EP400_uc001ujj.1_Missense_Mutation_p.S458R|EP400_uc001ujk.2_Missense_Mutation_p.S495R	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	495					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		AGGGGCCGGAAGCACAGTAGA	0.557													7	25					0	0	1	0	0		C	132464278	C	C	132464278	3	2	89	1	0	0	0	0	1	0	0	0	5157	72	3	5	1378	5	EP400	12	132464278	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	47435	132464278	1387617	4731	58562											
EP400	57634	broad.mit.edu	37	chr12	132510285	132510285	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtctcaggcgggcgctgtGcacggcgccctgggaagcaa	6	6	17	12	4	1	0	1	0	1	0	2	1	1	1	1	4	2	3	1	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:132510285G>A	uc001ujn.2	+	24	4985	c.4950G>A	c.(4948-4950)GTG>GTA	p.V1650V	EP400_uc001ujl.2_Silent_p.V1649V|EP400_uc001ujm.2_Silent_p.V1569V	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1686					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CGGGCGCTGTGCACGGCGCCC	0.697													8	17					0	0	1	0	0		A	132510285	A	A	132510285	2	1	89	1	0	0	0	0	0	0	0	1	5157	1306	46	2		2	EP400	12	132510285	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	46007	132510285	1341610	4732	58563											
POLE	5426	broad.mit.edu	37	chr12	133209378	133209378	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtggtacacggccacgatgTacgctgtggagaggcacaca	11	6	14	10	3	0	1	0	0	0	1	0	3	0	1	1	4	2	4	1	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:133209378T>C	uc001uks.1	-	44	6052	c.6008A>G	c.(6007-6009)TAC>TGC	p.Y2003C	POLE_uc001ukq.1_Missense_Mutation_p.Y213C|POLE_uc001ukr.1_Missense_Mutation_p.Y807C|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	2003					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		GGCCACGATGTACGCTGTGGA	0.637								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					20	48					0	0	1	0	0		C	133209378	C	C	133209378	3	2	89	1	0	0	0	0	1	0	0	0	12215	1638	57	3	876	3	POLE	12	133209378	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	699093	133209378	642517	4733	58564											
POLE	5426	broad.mit.edu	37	chr12	133250289	133250289	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaggtaactgtccctcttcaCccacctggaaggagaatgag	12	8	10	11	0	2	2	1	1	1	1	3	4	3	3	3	3	1	1	3	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:133250289C>A	uc001uks.1	-	13	1275	c.1231G>T	c.(1231-1233)GTG>TTG	p.V411L	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Missense_Mutation_p.V384L	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	411					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		TCCCTCTTCACCCACCTGGAA	0.557								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					70	147					1.43675e-24	1.72731e-24	1	1	0		A	133250289	A	A	133250289	3	1	89	1	0	0	0	0	1	0	0	0	12215	507	18	5	5777	5	POLE	12	133250289	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	40911	133250289	601606	4734	58565											
ANKLE2	23141	broad.mit.edu	37	chr12	133311027	133311027	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctcctgtttcttgttgaGcctttttgcctatttcctgc	2	21	7	11	0	2	1	0	1	2	0	4	1	3	1	4	0	3	3	4	0	1	8	rs143880331	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:133311027G>T	uc001ukx.2	-	10	1902	c.1835C>A	c.(1834-1836)GCT>GAT	p.A612D	ANKLE2_uc009zyw.1_5'UTR|ANKLE2_uc001uky.3_Missense_Mutation_p.A550D	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	612						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		TTCTTGTTGAGCCTTTTTGCC	0.527													35	89					1.62565e-12	1.80183e-12	1	1	0		T	133311027	T	T	133311027	3	4	89	1	0	0	0	0	1	0	0	0	633	971	34	5	997	5	ANKLE2	12	133311027	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	60738	133311027	540868	4735	58566											
ZNF268	10795	broad.mit.edu	37	chr12	133764590	133764590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggcagaagcagaagagtCgcagaatagagaaagtccta	17	4	12	8	1	0	5	0	0	0	5	2	6	1	5	2	1	1	3	2	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr12:133764590C>T	uc010tcf.1	+	3	496	c.166C>T	c.(166-168)CGC>TGC	p.R56C	ZNF268_uc010tbv.1_5'UTR|ZNF268_uc010tbw.1_5'UTR|ZNF268_uc010tbx.1_Intron|ZNF268_uc010tby.1_Intron|ZNF268_uc010tbz.1_5'UTR|ZNF268_uc010tca.1_Intron|ZNF268_uc010tcb.1_5'UTR|ZNF268_uc010tcc.1_Intron|ZNF268_uc010tcd.1_5'UTR|ZNF268_uc010tce.1_Intron|ZNF268_uc010tcg.1_5'UTR|ZNF268_uc010tch.1_Missense_Mutation_p.R56C	NM_003415	NP_003406	Q14587	ZN268_HUMAN	zinc finger protein 268 isoform a	56						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.000215)|all_epithelial(31;0.096)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		GCAGAAGAGTCGCAGAATAGA	0.488													3	11					0	0	1	0	0		T	133764590	T	T	133764590	3	4	89	1	0	0	0	0	1	0	0	0	17832	884	31	1	172	1	ZNF268	12	133764590	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	453563	133764590	87305	4736	58567											
TPTE2	93492	broad.mit.edu	37	chr13	20000636	20000636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacattaattaatattttgtCtgtttcaatgtcatgcaata	13	19	4	5	0	3	0	2	0	1	0	3	0	3	0	0	0	2	2	0	0	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:20000636C>T	uc001umd.2	-	19	1535	c.1324G>A	c.(1324-1326)GAC>AAC	p.D442N	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Missense_Mutation_p.D331N|TPTE2_uc001ume.2_Missense_Mutation_p.D365N|TPTE2_uc009zzm.2_Missense_Mutation_p.D113N|TPTE2_uc010tcm.1_RNA|TPTE2_uc010tcl.1_Missense_Mutation_p.D113N	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	442	C2 tensin-type.					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		AATATTTTGTCTGTTTCAATG	0.343													25	80					0	0	1	0	0		T	20000636	T	T	20000636	3	4	89	1	0	0	0	0	1	0	0	0	16457	913	32	4	256	4	TPTE2	13	20000636	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08		20000636	95169242	4737	58568											
MPHOSPH8	54737	broad.mit.edu	37	chr13	20240591	20240591	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaagaggaaattcagacatCgtacgactcgtaattgaatg	17	9	9	6	3	1	3	1	1	0	2	3	5	1	4	0	1	1	2	0	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:20240591C>T	uc001umh.2	+	10	2055	c.2046C>T	c.(2044-2046)ATC>ATT	p.I682I	MPHOSPH8_uc001umg.2_Silent_p.I682I	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	682	ANK 3.				cell cycle	cytoplasm|nucleus					0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		ATTCAGACATCGTACGACTCG	0.438													68	115					0	0	1	0	0		T	20240591	T	T	20240591	2	4	89	1	0	0	0	0	0	0	0	1	9745	874	31	1		1	MPHOSPH8	13	20240591	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	239955	20240591	94929287	4738	58569											
PSPC1	55269	broad.mit.edu	37	chr13	20277378	20277378	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacttcctctaccaaagccAccaggaccaccactcacagg	12	6	6	17	0	2	1	1	1	1	0	3	2	3	2	6	2	2	0	6	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:20277378A>G	uc001uml.2	-	9	1695	c.1509T>C	c.(1507-1509)GGT>GGC	p.G503G	PSPC1_uc001umj.1_Intron|PSPC1_uc001umk.1_Intron	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	503	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		TACCAAAGCCACCAGGACCAC	0.473													18	58					0	0	1	0	0		G	20277378	G	G	20277378	2	3	89	1	0	0	0	0	0	0	0	1	12738	146	6	3		3	PSPC1	13	20277378	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	36787	20277378	94892500	4739	58570											
PSPC1	55269	broad.mit.edu	37	chr13	20279843	20279843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattggagttcccatatttgCggctccttctggtcccatgg	5	14	10	12	1	1	0	0	0	1	0	4	1	4	1	3	4	1	2	3	4	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:20279843C>T	uc001uml.2	-	8	1531	c.1345G>A	c.(1345-1347)GCA>ACA	p.A449T	PSPC1_uc001umj.1_Intron|PSPC1_uc001umk.1_Intron	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	449	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		CCCATATTTGCGGCTCCTTCT	0.443													10	49					0	0	1	0	0		T	20279843	T	T	20279843	3	4	89	1	0	0	0	0	1	0	0	0	12738	768	27	1	234	1	PSPC1	13	20279843	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2465	20279843	94890035	4740	58571											
PSPC1	55269	broad.mit.edu	37	chr13	20304443	20304443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcctcctgttctctgtgtCggatcatttcttcctcacgc	3	17	7	14	2	4	0	2	0	2	0	9	1	7	1	3	1	0	2	3	1	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:20304443C>T	uc001uml.2	-	6	1280	c.1094G>A	c.(1093-1095)CGA>CAA	p.R365Q	PSPC1_uc001umj.1_RNA|PSPC1_uc001umk.1_RNA	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	365	Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		TTCTCTGTGTCGGATCATTTC	0.393													20	244					0	0	1	0	0		T	20304443	T	T	20304443	3	4	89	1	0	0	0	0	1	0	0	0	12738	884	31	1	493	1	PSPC1	13	20304443	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	24600	20304443	94865435	4741	58572											
PSPC1	55269	broad.mit.edu	37	chr13	20356882	20356882	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgcgcacttgcttcaggtTtcctcttaacatcatcttac	9	15	5	12	1	4	0	2	0	2	0	5	0	5	0	1	1	4	3	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:20356882T>G	uc001uml.2	-	1	202	c.16A>C	c.(16-18)AAC>CAC	p.N6H	PSPC1_uc001umj.1_RNA|PSPC1_uc001umk.1_RNA	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	6					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		TGCTTCAGGTTTCCTCTTAAC	0.552													24	67					0	0	1	0	0		G	20356882	G	G	20356882	3	3	89	1	0	0	0	0	1	0	0	0	12738	1841	64	5	1591	5	PSPC1	13	20356882	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	52439	20356882	94812996	4742	58573											
ZMYM2	7750	broad.mit.edu	37	chr13	20567921	20567921	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acggactgcagtcaagtaatTttggtgttaatatacaaaca	15	12	8	6	1	1	0	1	0	0	0	1	1	1	1	0	2	3	3	0	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:20567921T>G	uc001umr.2	+	4	1007	c.709T>G	c.(709-711)TTT>GTT	p.F237V	ZMYM2_uc001umq.2_Intron|ZMYM2_uc001ums.2_Missense_Mutation_p.F237V|ZMYM2_uc001umt.2_Missense_Mutation_p.F237V|ZMYM2_uc009zzn.1_Intron	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	237					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		GTCAAGTAATTTTGGTGTTAA	0.403													74	130					0	0	1	0	0		G	20567921	G	G	20567921	3	3	89	1	0	0	0	0	1	0	0	0	17725	1841	64	5	711	5	ZMYM2	13	20567921	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	211039	20567921	94601957	4743	58574											
GJA3	2700	broad.mit.edu	37	chr13	20716951	20716951	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggcgatgaagcccacctcGaacagcgtcttgaagatgat	11	7	11	12	4	1	4	0	3	1	1	2	6	1	4	3	1	3	0	3	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:20716951G>A	uc001umx.1	-	2	649	c.477C>T	c.(475-477)TTC>TTT	p.F159F		NM_021954	NP_068773	Q9Y6H8	CXA3_HUMAN	connexin 46	159	Helical; (Potential).				cell-cell signaling|visual perception	connexon complex|integral to membrane		p.F159F(1)		pancreas(1)	1		all_cancers(29;1.4e-21)|all_epithelial(30;8.75e-19)|all_lung(29;1.28e-17)|Lung SC(185;0.0257)|Ovarian(182;0.0822)		all cancers(112;0.000554)|Epithelial(112;0.000872)|OV - Ovarian serous cystadenocarcinoma(117;0.0105)|Lung(94;0.0251)|LUSC - Lung squamous cell carcinoma(192;0.0784)		AGCCCACCTCGAACAGCGTCT	0.652													15	36					0	0	1	0	0		A	20716951	A	A	20716951	2	1	89	1	0	0	0	0	0	0	0	1	6417	1049	37	1		1	GJA3	13	20716951	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	149030	20716951	94452927	4744	58575											
GJB6	10804	broad.mit.edu	37	chr13	20797280	20797280	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctctatgtctttgaaatCattcctcttctctcctcgcc	5	17	4	15	1	5	1	1	1	4	0	10	1	8	1	4	0	0	0	4	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:20797280C>A	uc001umz.3	-	3	893	c.340G>T	c.(340-342)GAT>TAT	p.D114Y	GJB6_uc001unc.3_Missense_Mutation_p.D114Y|GJB6_uc001una.3_Missense_Mutation_p.D114Y|GJB6_uc001und.3_Missense_Mutation_p.D114Y|GJB6_uc001unb.3_Missense_Mutation_p.D114Y	NM_006783	NP_006774	O95452	CXB6_HUMAN	gap junction protein, beta 6	114	Cytoplasmic (Potential).				cell communication|sensory perception of sound	connexon complex|integral to membrane|intracellular membrane-bounded organelle				ovary(1)	1		all_cancers(29;2.04e-22)|all_epithelial(30;1.19e-19)|all_lung(29;2.27e-18)|Lung SC(185;0.0257)|Ovarian(182;0.0822)		all cancers(112;2.17e-05)|Epithelial(112;0.00075)|OV - Ovarian serous cystadenocarcinoma(117;0.00978)|Lung(94;0.0238)|GBM - Glioblastoma multiforme(144;0.0323)|LUSC - Lung squamous cell carcinoma(192;0.0744)		TCTTTGAAATCATTCCTCTTC	0.512													26	46					1.2476e-16	1.43726e-16	1	1	0		A	20797280	A	A	20797280	3	1	89	1	0	0	0	0	1	0	0	0	6427	826	29	5	449	5	GJB6	13	20797280	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	80329	20797280	94372598	4745	58576											
GJB6	10804	broad.mit.edu	37	chr13	20797414	20797414	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggatgtgggacaccgggAaaaagtggtcatagcacaca	13	5	14	9	2	1	0	1	0	0	0	1	3	1	3	2	4	1	1	2	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:20797414A>G	uc001umz.3	-	3	759	c.206T>C	c.(205-207)TTC>TCC	p.F69S	GJB6_uc001unc.3_Missense_Mutation_p.F69S|GJB6_uc001una.3_Missense_Mutation_p.F69S|GJB6_uc001und.3_Missense_Mutation_p.F69S|GJB6_uc001unb.3_Missense_Mutation_p.F69S	NM_006783	NP_006774	O95452	CXB6_HUMAN	gap junction protein, beta 6	69	Extracellular (Potential).				cell communication|sensory perception of sound	connexon complex|integral to membrane|intracellular membrane-bounded organelle				ovary(1)	1		all_cancers(29;2.04e-22)|all_epithelial(30;1.19e-19)|all_lung(29;2.27e-18)|Lung SC(185;0.0257)|Ovarian(182;0.0822)		all cancers(112;2.17e-05)|Epithelial(112;0.00075)|OV - Ovarian serous cystadenocarcinoma(117;0.00978)|Lung(94;0.0238)|GBM - Glioblastoma multiforme(144;0.0323)|LUSC - Lung squamous cell carcinoma(192;0.0744)		GGACACCGGGAAAAAGTGGTC	0.592													27	52					0	0	1	0	0		G	20797414	G	G	20797414	3	3	89	1	0	0	0	0	1	0	0	0	6427	246	9	3	583	3	GJB6	13	20797414	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	134	20797414	94372464	4746	58577											
LATS2	26524	broad.mit.edu	37	chr13	21557416	21557416	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacccagtgcagaggccgAaatctgtgagtttaatgtga	12	10	12	7	1	1	4	0	3	1	1	1	5	1	4	2	1	2	2	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:21557416A>G	uc009zzs.2	-	5	2794	c.2429T>C	c.(2428-2430)TTC>TCC	p.F810S	LATS2_uc001unr.3_Missense_Mutation_p.F810S	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	810	Protein kinase.				cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		GCAGAGGCCGAAATCTGTGAG	0.443													33	67					0	0	1	0	0		G	21557416	G	G	21557416	3	3	89	1	0	0	0	0	1	0	0	0	8663	246	9	3	853	3	LATS2	13	21557416	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	760002	21557416	93612462	4747	58578											
SACS	26278	broad.mit.edu	37	chr13	23906234	23906234	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctacttttataatgtggCgcatcgtcaaacactaagat	13	14	6	8	2	2	1	1	0	1	1	3	1	2	1	0	1	2	1	0	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23906234C>T	uc001uon.2	-	10	12370	c.11781G>A	c.(11779-11781)GCG>GCA	p.A3927A	SACS_uc001uoo.2_Silent_p.A3780A|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3927					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TATAATGTGGCGCATCGTCAA	0.443													62	117					0	0	1	0	0		T	23906234	T	T	23906234	2	4	89	1	0	0	0	0	0	0	0	1	13829	755	27	1		1	SACS	13	23906234	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2348818	23906234	91263644	4748	58579			1	22		12	12	9431	N	T_G_C_A	1.093209e-05
SACS	26278	broad.mit.edu	37	chr13	23906297	23906297	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctggcttgggaggtaaagCgcaaggtctcgtacattctc	8	11	12	10	2	2	0	0	0	2	0	5	1	3	1	1	4	2	4	1	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23906297C>T	uc001uon.2	-	10	12307	c.11718G>A	c.(11716-11718)GCG>GCA	p.A3906A	SACS_uc001uoo.2_Silent_p.A3759A|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3906					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GGAGGTAAAGCGCAAGGTCTC	0.438													75	124					0	0	1	0	0		T	23906297	T	T	23906297	2	4	89	1	0	0	0	0	0	0	0	1	13829	755	27	1		1	SACS	13	23906297	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	63	23906297	91263581	4749	58580			1	22		12	12	9431	N	T_G_C_A	1.093209e-05
SACS	26278	broad.mit.edu	37	chr13	23906840	23906840	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcaagctgttcttgtggAccaaggtcactaccttcttg	7	15	9	10	0	4	0	2	0	2	0	4	1	4	1	2	2	2	3	2	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23906840A>G	uc001uon.2	-	10	11764	c.11175T>C	c.(11173-11175)GGT>GGC	p.G3725G	SACS_uc001uoo.2_Silent_p.G3578G|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3725					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GTTCTTGTGGACCAAGGTCAC	0.388													53	106					0	0	1	0	0		G	23906840	G	G	23906840	2	3	89	1	0	0	0	0	0	0	0	1	13829	262	10	3		3	SACS	13	23906840	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	543	23906840	91263038	4750	58581			1	22		12	12	9431	N	T_G_C_A	1.093209e-05
SACS	26278	broad.mit.edu	37	chr13	23907108	23907108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccagataacaaatccattCgttcttggaatatatgatgc	13	14	6	8	1	1	2	0	1	1	1	4	3	3	3	2	1	2	1	2	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23907108C>T	uc001uon.2	-	10	11496	c.10907G>A	c.(10906-10908)CGA>CAA	p.R3636Q	SACS_uc001uoo.2_Missense_Mutation_p.R3489Q|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3636			R -> Q (in SACS; associated with T-3652).		cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CAAATCCATTCGTTCTTGGAA	0.373													20	41					0	0	1	0	0		T	23907108	T	T	23907108	3	4	89	1	0	0	0	0	1	0	0	0	13829	884	31	1	2836	1	SACS	13	23907108	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	268	23907108	91262770	4751	58582			1	22		12	12	9431	N	T_G_C_A	1.093209e-05
SACS	26278	broad.mit.edu	37	chr13	23907994	23907994	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaggaacaaatgcactgtCtttggaacagattttgttca	14	12	8	7	0	2	1	1	0	1	1	2	3	2	3	0	2	3	2	0	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23907994C>A	uc001uon.2	-	10	10610	c.10021G>T	c.(10021-10023)GAC>TAC	p.D3341Y	SACS_uc001uoo.2_Missense_Mutation_p.D3194Y|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3341					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AATGCACTGTCTTTGGAACAG	0.393													38	75					5.71845e-15	6.48651e-15	1	1	0		A	23907994	A	A	23907994	3	1	89	1	0	0	0	0	1	0	0	0	13829	913	32	5	3722	5	SACS	13	23907994	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	886	23907994	91261884	4752	58583			1	22		12	12	9431	N	T_G_C_A	1.093209e-05
SACS	26278	broad.mit.edu	37	chr13	23908017	23908017	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaacagattttgttcaaaGcaagctgaatacagccagct	14	10	9	8	0	1	2	1	1	0	1	1	3	1	3	1	1	6	4	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23908017G>T	uc001uon.2	-	10	10587	c.9998C>A	c.(9997-9999)GCT>GAT	p.A3333D	SACS_uc001uoo.2_Missense_Mutation_p.A3186D|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3333					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TTTGTTCAAAGCAAGCTGAAT	0.413													34	79					3.76114e-14	4.23289e-14	1	1	0		T	23908017	T	T	23908017	3	4	89	1	0	0	0	0	1	0	0	0	13829	971	34	5	3745	5	SACS	13	23908017	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23	23908017	91261861	4753	58584			1	22		12	12	9431	N	T_G_C_A	1.093209e-05
SACS	26278	broad.mit.edu	37	chr13	23909908	23909908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttgccatttctgcattacGaagaggaaatctgaacattg	12	14	8	7	1	2	2	0	1	2	1	2	4	2	3	1	1	4	1	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23909908G>A	uc001uon.2	-	10	8696	c.8107C>T	c.(8107-8109)CGT>TGT	p.R2703C	SACS_uc001uoo.2_Missense_Mutation_p.R2556C|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2703			R -> C (in SACS).		cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TCTGCATTACGAAGAGGAAAT	0.413													29	59					0	0	1	0	0		A	23909908	A	A	23909908	3	1	89	1	0	0	0	0	1	0	0	0	13829	1058	37	1	5636	1	SACS	13	23909908	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1891	23909908	91259970	4754	58585			1	22		12	12	9431	N	T_G_C_A	1.093209e-05
SACS	26278	broad.mit.edu	37	chr13	23911396	23911396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gattgtttgatattttgcagCaaaatcctttgctctaggat	10	17	8	6	0	1	1	0	1	1	0	2	3	2	2	1	1	3	4	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23911396C>T	uc001uon.2	-	10	7208	c.6619G>A	c.(6619-6621)GCT>ACT	p.A2207T	SACS_uc001uoo.2_Missense_Mutation_p.A2060T|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2207					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TATTTTGCAGCAAAATCCTTT	0.368													22	39					0	0	1	0	0		T	23911396	T	T	23911396	3	4	89	1	0	0	0	0	1	0	0	0	13829	710	25	2	7124	2	SACS	13	23911396	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1488	23911396	91258482	4755	58586			1	22		12	12	9431	N	T_G_C_A	1.093209e-05
SACS	26278	broad.mit.edu	37	chr13	23911438	23911438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttatttttagtttctcatCgataagactcaataagatac	13	16	4	8	1	2	2	2	0	1	2	4	3	2	2	1	0	1	1	1	0	6	8	rs149278134		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23911438C>T	uc001uon.2	-	10	7166	c.6577G>A	c.(6577-6579)GAT>AAT	p.D2193N	SACS_uc001uoo.2_Missense_Mutation_p.D2046N|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2193					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AGTTTCTCATCGATAAGACTC	0.373													16	40					0	0	1	0	0		T	23911438	T	T	23911438	3	4	89	1	0	0	0	0	1	0	0	0	13829	884	31	1	7166	1	SACS	13	23911438	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	42	23911438	91258440	4756	58587			1	22		12	12	9431	N	T_G_C_A	1.093209e-05
SACS	26278	broad.mit.edu	37	chr13	23913082	23913082	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgagttctaaaggacagtcGgaaaagggttccattatagc	13	11	11	6	1	1	1	0	1	1	0	3	3	2	3	1	3	1	2	1	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23913082G>A	uc001uon.2	-	10	5522	c.4933C>T	c.(4933-4935)CGA>TGA	p.R1645*	SACS_uc001uoo.2_Nonsense_Mutation_p.R1498*|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1645					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AAGGACAGTCGGAAAAGGGTT	0.363													42	70					0	0	1	0	0		A	23913082	A	A	23913082	4	1	89	1	0	0	0	0	0	1	0	0	13829	1124	39	1	8810	1	SACS	13	23913082	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1644	23913082	91256796	4757	58588			1	22		12	12	9431	N	T_G_C_A	1.093209e-05
SACS	26278	broad.mit.edu	37	chr13	23915457	23915457	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtatagatgcatctaattttTtaaggacaaaccctccaagt	14	13	6	8	0	1	1	0	0	1	1	2	2	2	2	2	1	2	2	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23915457T>G	uc001uon.2	-	10	3147	c.2558A>C	c.(2557-2559)AAA>ACA	p.K853T	SACS_uc001uoo.2_Missense_Mutation_p.K706T|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	853					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		ATCTAATTTTTTAAGGACAAA	0.358													30	74					0	0	1	0	0		G	23915457	G	G	23915457	3	3	89	1	0	0	0	0	1	0	0	0	13829	1841	64	5	11185	5	SACS	13	23915457	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2375	23915457	91254421	4758	58589			1	22		12	12	9431	N	T_G_C_A	1.093209e-05
SACS	26278	broad.mit.edu	37	chr13	23915664	23915664	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaatgtatataaagatttTtccaaaccatcttaagccat	18	13	3	7	0	1	1	0	0	1	1	2	1	2	1	3	0	2	1	3	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23915664T>G	uc001uon.2	-	10	2940	c.2351A>C	c.(2350-2352)AAA>ACA	p.K784T	SACS_uc001uoo.2_Missense_Mutation_p.K637T|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Missense_Mutation_p.K637T	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	784					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		ATAAAGATTTTTCCAAACCAT	0.368													37	43					0	0	1	0	0		G	23915664	G	G	23915664	3	3	89	1	0	0	0	0	1	0	0	0	13829	1841	64	5	11392	5	SACS	13	23915664	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	207	23915664	91254214	4759	58590			1	22		12	12	9431	N	T_G_C_A	1.093209e-05
SACS	26278	broad.mit.edu	37	chr13	23929574	23929574	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccacactgttacacaccaAccaagatgttttctgtgcat	12	11	5	13	0	1	1	0	0	1	1	1	1	1	1	3	0	3	3	3	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:23929574A>G	uc001uon.2	-	8	1766	c.1177T>C	c.(1177-1179)TTG>CTG	p.L393L	SACS_uc001uoo.2_Silent_p.L246L|SACS_uc001uop.1_Silent_p.L180L|SACS_uc001uoq.1_Silent_p.L246L	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	393					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TTACACACCAACCAAGATGTT	0.398													34	77					0	0	1	0	0		G	23929574	G	G	23929574	2	3	89	1	0	0	0	0	0	0	0	1	13829	40	2	3		3	SACS	13	23929574	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	13910	23929574	91240304	4760	58591											
MIPEP	4285	broad.mit.edu	37	chr13	24415537	24415537	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctctgcatataatgaaatCcccaacagtctgttaagcaa	14	11	6	10	0	2	1	0	1	2	0	3	1	3	1	2	0	4	4	2	0	6	3	rs150114409		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:24415537C>A	uc001uox.3	-	11	1297	c.1197G>T	c.(1195-1197)GGG>GGT	p.G399G		NM_005932	NP_005923	Q99797	MIPEP_HUMAN	mitochondrial intermediate peptidase precursor	399					protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)		ATAATGAAATCCCCAACAGTC	0.473													30	54					3.73148e-12	4.12027e-12	1	1	0		A	24415537	A	A	24415537	2	1	89	1	0	0	0	0	0	0	0	1	9610	842	30	5		5	MIPEP	13	24415537	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	485963	24415537	90754341	4761	58592											
C1QTNF9B	387911	broad.mit.edu	37	chr13	24465742	24465742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtatcataatggttgaattCattatacaggatcttatcaa	14	16	6	5	0	4	1	3	1	1	0	4	2	4	2	0	2	1	2	0	2	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:24465742C>T	uc010tcw.1	-	3	688	c.688G>A	c.(688-690)GAA>AAA	p.E230K	MIPEP_uc001uox.3_5'Flank|PCOTH_uc001uoy.2_Intron|PCOTH_uc009zzx.2_Intron|C1QTNF9B_uc010tcv.1_Intron|C1QTNF9B_uc001uoz.1_Intron|C1QTNF9B_uc010tcx.1_Missense_Mutation_p.E230K	NM_001007537	NP_001007538	B2RNN3	C1T9B_HUMAN	C1q and tumor necrosis factor related protein 9B	230	C1q.					collagen					0						TGGTTGAATTCATTATACAGG	0.428													54	107					0	0	1	0	0		T	24465742	T	T	24465742	3	4	89	1	0	0	0	0	1	0	0	0	1974	835	29	4	316	4	C1QTNF9B	13	24465742	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	50205	24465742	90704136	4762	58593											
PARP4	143	broad.mit.edu	37	chr13	25008639	25008639	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaaagcacaggatactgTcatcttttgtatcacatttt	12	14	6	9	0	3	1	2	0	1	1	3	2	3	2	1	1	2	2	1	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:25008639T>C	uc001upl.2	-	31	4746	c.4640A>G	c.(4639-4641)GAC>GGC	p.D1547G		NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	1547					cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		CAGGATACTGTCATCTTTTGT	0.403													20	67					0	0	1	0	0		C	25008639	C	C	25008639	3	2	89	1	0	0	0	0	1	0	0	0	11482	1667	58	3	550	3	PARP4	13	25008639	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	542897	25008639	90161239	4763	58594											
PARP4	143	broad.mit.edu	37	chr13	25008671	25008671	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacattttatttgtaaaaaGcagctgtcttgaagtacttc	12	16	6	7	0	2	1	1	1	1	0	3	1	2	1	0	0	3	4	0	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:25008671G>A	uc001upl.2	-	31	4714	c.4608C>T	c.(4606-4608)TGC>TGT	p.C1536C		NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	1536					cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		TTTGTAAAAAGCAGCTGTCTT	0.393													26	69					0	0	1	0	0		A	25008671	A	A	25008671	2	1	89	1	0	0	0	0	0	0	0	1	11482	963	34	2		2	PARP4	13	25008671	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	32	25008671	90161207	4764	58595											
PARP4	143	broad.mit.edu	37	chr13	25067745	25067745	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaacttacatcgttgaggcTaatcctgttcactggcttga	9	13	8	11	1	1	2	1	2	0	0	3	2	2	2	2	2	2	4	2	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:25067745T>G	uc001upl.2	-	8	974	c.868A>C	c.(868-870)AGC>CGC	p.S290R	PARP4_uc010tdc.1_Missense_Mutation_p.S290R	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	290	PARP alpha-helical.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		TCGTTGAGGCTAATCCTGTTC	0.493													23	41					0	0	1	0	0		G	25067745	G	G	25067745	3	3	89	1	0	0	0	0	1	0	0	0	11482	1522	53	5	4414	5	PARP4	13	25067745	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	59074	25067745	90102133	4765	58596											
ATP12A	479	broad.mit.edu	37	chr13	25284622	25284622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtaccagagggaatacctaGaatggacgggctacacggct	12	6	14	9	2	0	2	0	0	0	2	0	4	0	4	2	5	3	3	2	5	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:25284622G>A	uc001upp.2	+	20	2975	c.2788G>A	c.(2788-2790)GAA>AAA	p.E930K	ATP12A_uc010aaa.2_Missense_Mutation_p.E936K	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	930	Lumenal (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	GGAATACCTAGAATGGACGGG	0.363													25	65					0	0	1	0	0		A	25284622	A	A	25284622	3	1	89	1	0	0	0	0	1	0	0	0	1123	943	33	4	2884	4	ATP12A	13	25284622	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	216877	25284622	89885256	4766	58597											
RNF17	56163	broad.mit.edu	37	chr13	25353856	25353856	+	Missense_Mutation	SNP	A	C	C																															cattgaatacagcacaccatAgtttcgaacagttaagcatt																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:25353856A>C	uc001upr.2	+	5	522	c.481A>C	c.(481-483)AGT>CGT	p.S161R	RNF17_uc010tdd.1_Missense_Mutation_p.S20R|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.S161R|RNF17_uc001ups.2_Missense_Mutation_p.S100R|RNF17_uc001upq.1_Missense_Mutation_p.S161R	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	161					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		AGCACACCATAGTTTCGAACA	0.353													29	65					0	0	1	0	0		C	25353856	C	C	25353856	3	2	89	1	0	0	0	0	1	0	0	0	13486	420	15	5	499	5	RNF17	13	25353856	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	69234	25353856	89816022	4767	58598	109	2									
RNF17	56163	broad.mit.edu	37	chr13	25353861	25353861	+	Silent	SNP	C	T	T																															aatacagcacaccatagtttCgaacagttaagcattgctgg																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:25353861C>T	uc001upr.2	+	5	527	c.486C>T	c.(484-486)TTC>TTT	p.F162F	RNF17_uc010tdd.1_Silent_p.F21F|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Silent_p.F162F|RNF17_uc001ups.2_Silent_p.F101F|RNF17_uc001upq.1_Silent_p.F162F	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	162					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		ACCATAGTTTCGAACAGTTAA	0.348													32	55					0	0	1	0	0		T	25353861	T	T	25353861	2	4	89	1	0	0	0	0	0	0	0	1	13486	883	31	1		1	RNF17	13	25353861	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5	25353861	89816017	4768	58599	109	2									
RNF17	56163	broad.mit.edu	37	chr13	25406069	25406069	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccaaagaagctaaagaaaAatttgaagaaaaggctcaag	21	6	9	5	0	1	4	1	1	0	3	2	4	2	4	1	1	1	2	1	1	10	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:25406069A>C	uc001upr.2	+	18	2476	c.2435A>C	c.(2434-2436)AAA>ACA	p.K812T	RNF17_uc010tdd.1_Missense_Mutation_p.K671T|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.K812T|RNF17_uc001ups.2_Missense_Mutation_p.K751T|RNF17_uc010aac.2_Missense_Mutation_p.K10T	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	812					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		GCTAAAGAAAAATTTGAAGAA	0.284													23	37					0	0	1	0	0		C	25406069	C	C	25406069	3	2	89	1	0	0	0	0	1	0	0	0	13486	14	1	5	2505	5	RNF17	13	25406069	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	52208	25406069	89763809	4769	58600											
RNF17	56163	broad.mit.edu	37	chr13	25444782	25444782	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacacagatgatagtggagTcagcggggaatcagaatccg	13	7	14	7	2	2	4	2	2	0	2	3	6	3	6	1	3	1	0	1	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:25444782T>C	uc001upr.2	+	32	4393	c.4352T>C	c.(4351-4353)GTC>GCC	p.V1451A	RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.V1447A|RNF17_uc001ups.2_Missense_Mutation_p.V1390A|RNF17_uc010aac.2_Missense_Mutation_p.V643A|RNF17_uc010aad.2_Missense_Mutation_p.V461A	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	1451					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		GATAGTGGAGTCAGCGGGGAA	0.438													28	57					0	0	1	0	0		C	25444782	C	C	25444782	3	2	89	1	0	0	0	0	1	0	0	0	13486	1667	58	3	4478	3	RNF17	13	25444782	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	38713	25444782	89725096	4770	58601											
MTMR6	9107	broad.mit.edu	37	chr13	25826043	25826043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactgtaaatctgtgagattCggaactgtagagaggattta	14	12	11	4	1	1	2	0	1	1	2	2	6	1	4	0	2	2	2	0	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:25826043C>T	uc001uqf.3	-	12	1745	c.1426G>A	c.(1426-1428)GAA>AAA	p.E476K	MTMR6_uc001uqe.1_Missense_Mutation_p.E476K	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	476	Myotubularin phosphatase.					cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		CTGTGAGATTCGGAACTGTAG	0.328													74	138					0	0	1	0	0		T	25826043	T	T	25826043	3	4	89	1	0	0	0	0	1	0	0	0	9965	893	31	1	451	1	MTMR6	13	25826043	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	381261	25826043	89343835	4771	58602											
ATP8A2	51761	broad.mit.edu	37	chr13	26343251	26343251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgaaggccatcaccctcGccatcggagacggcgccaac	9	4	13	15	4	1	2	1	1	0	1	3	3	1	2	4	4	1	0	4	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:26343251G>A	uc001uqk.2	+	26	2594	c.2452G>A	c.(2452-2454)GCC>ACC	p.A818T	ATP8A2_uc010tdi.1_Missense_Mutation_p.A778T|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.A368T	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	778	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		CATCACCCTCGCCATCGGAGA	0.557													20	60					0	0	1	0	0		A	26343251	A	A	26343251	3	1	89	1	0	0	0	0	1	0	0	0	1194	1087	38	1	2554	1	ATP8A2	13	26343251	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	517208	26343251	88826627	4772	58603											
RNF6	6049	broad.mit.edu	37	chr13	26789090	26789090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgaattggtgaacggcttCgactattggaagtagatcgt	10	13	12	6	3	1	3	0	2	1	1	3	5	1	4	0	3	1	2	0	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:26789090C>T	uc001uqo.2	-	5	1220	c.929G>A	c.(928-930)CGA>CAA	p.R310Q	RNF6_uc001uqn.1_Intron|RNF6_uc010aak.2_Missense_Mutation_p.R310Q|RNF6_uc001uqp.2_Missense_Mutation_p.R310Q|RNF6_uc001uqq.2_Missense_Mutation_p.R310Q|RNF6_uc010tdk.1_Intron	NM_183044	NP_898865	Q9Y252	RNF6_HUMAN	ring finger protein 6	310	Arg-rich.				negative regulation of axon extension|positive regulation of transcription, DNA-dependent|protein K27-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|regulation of androgen receptor signaling pathway|ubiquitin-dependent protein catabolic process	axon|cytoplasm|PML body	androgen receptor binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.00893)|Epithelial(112;0.0481)|OV - Ovarian serous cystadenocarcinoma(117;0.148)|GBM - Glioblastoma multiforme(144;0.23)|Lung(94;0.245)		TGAACGGCTTCGACTATTGGA	0.418													69	155					0	0	1	0	0		T	26789090	T	T	26789090	3	4	89	1	0	0	0	0	1	0	0	0	13523	884	31	1	1132	1	RNF6	13	26789090	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	445839	26789090	88380788	4773	58604											
RPL21	6144	broad.mit.edu	37	chr13	27830372	27830372	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtattgagcacattaagcaCtctaagagccgagatagctt	13	10	9	9	2	1	3	0	1	1	2	1	4	1	3	1	0	4	4	1	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:27830372C>T	uc001ura.2	+	5	337	c.294C>T	c.(292-294)CAC>CAT	p.H98H	RPL21_uc001uqz.1_Silent_p.H56H	NM_000982	NP_000973	P46778	RL21_HUMAN	ribosomal protein L21	98					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	RNA binding|structural constituent of ribosome				0		Lung SC(185;0.0156)	Colorectal(13;0.00042)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.0287)|OV - Ovarian serous cystadenocarcinoma(117;0.118)|Epithelial(112;0.139)|GBM - Glioblastoma multiforme(144;0.21)		ACATTAAGCACTCTAAGAGCC	0.403													6	10					0	0	1	0	0		T	27830372	T	T	27830372	2	4	89	1	0	0	0	0	0	0	0	1	13592	564	20	4		4	RPL21	13	27830372	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1041282	27830372	87339506	4774	58605											
LNX2	222484	broad.mit.edu	37	chr13	28155573	28155573	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacaacttaaaatgaagtcTtttccggtccaacggacaga	14	9	8	10	2	1	2	0	1	1	1	3	3	3	3	2	2	2	1	2	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:28155573T>A	uc001url.3	-	2	577	c.268A>T	c.(268-270)AGA>TGA	p.R90*	LNX2_uc001urm.1_Nonsense_Mutation_p.R90*	NM_153371	NP_699202	Q8N448	LNX2_HUMAN	ligand of numb-protein X 2	90							zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	6		Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.113)|all cancers(112;0.127)|Epithelial(112;0.248)		AAATGAAGTCTTTTCCGGTCC	0.383													28	32					0	0	1	0	0		A	28155573	A	A	28155573	4	1	89	1	0	0	0	0	0	1	0	0	8883	1617	56	5	1840	5	LNX2	13	28155573	Nonsense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	325201	28155573	87014305	4775	58606											
FLT1	2321	broad.mit.edu	37	chr13	29001999	29001999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttacgtccttgataattaacGagtagccacgagtcaaatag	14	11	8	8	3	1	1	1	1	0	0	2	3	2	1	2	0	3	1	2	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:29001999G>A	uc001usb.3	-	9	1451	c.1166C>T	c.(1165-1167)TCG>TTG	p.S389L	FLT1_uc010aar.1_Missense_Mutation_p.S389L|FLT1_uc001usc.3_Missense_Mutation_p.S389L|FLT1_uc010tdp.1_Missense_Mutation_p.S389L	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	389	Ig-like C2-type 4.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	GATAATTAACGAGTAGCCACG	0.408													52	75					0	0	1	0	0		A	29001999	A	A	29001999	3	1	89	1	0	0	0	0	1	0	0	0	5955	1059	37	1	3201	1	FLT1	13	29001999	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	846426	29001999	86167879	4776	58607											
FLT1	2321	broad.mit.edu	37	chr13	29041260	29041260	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaccatttatgggctgcTtcccccctgcaatcacagat	11	10	7	13	0	1	2	1	0	0	2	2	2	2	2	4	1	2	3	4	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:29041260T>G	uc001usb.3	-	3	453	c.168A>C	c.(166-168)GAA>GAC	p.E56D	FLT1_uc010aar.1_Missense_Mutation_p.E56D|FLT1_uc001usc.3_Missense_Mutation_p.E56D|FLT1_uc010tdp.1_Missense_Mutation_p.E56D|FLT1_uc001usd.2_Missense_Mutation_p.E56D	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	56	Ig-like C2-type 1.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	TATGGGCTGCTTCCCCCCTGC	0.448													32	77					0	0	1	0	0		G	29041260	G	G	29041260	3	3	89	1	0	0	0	0	1	0	0	0	5955	1606	56	5	4223	5	FLT1	13	29041260	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	39261	29041260	86128618	4777	58608											
MTUS2	23281	broad.mit.edu	37	chr13	29608080	29608080	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctatgctcattatgaagTccctccaactttctatcggt	8	15	5	13	1	2	1	1	1	1	0	6	1	5	1	3	1	2	1	3	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:29608080T>C	uc001usl.3	+	2	2352	c.2294T>C	c.(2293-2295)GTC>GCC	p.V765A		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	755	Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						CATTATGAAGTCCCTCCAACT	0.448													16	35					0	0	1	0	0		C	29608080	C	C	29608080	3	2	89	1	0	0	0	0	1	0	0	0	9984	1667	58	3	2300	3	MTUS2	13	29608080	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	566820	29608080	85561798	4778	58609											
MTUS2	23281	broad.mit.edu	37	chr13	30077268	30077268	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtccgattaaactctcGcccacatctcccgtttaccg	9	10	5	17	4	2	0	0	0	2	0	5	1	3	0	5	0	2	1	5	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:30077268G>A	uc001usl.3	+	14	4123	c.4065G>A	c.(4063-4065)TCG>TCA	p.S1355S	MTUS2_uc001usm.3_Silent_p.S324S|MTUS2_uc010aau.2_Silent_p.S234S|MTUS2_uc010tdq.1_Silent_p.S107S	NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	1345						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						TTAAACTCTCGCCCACATCTC	0.587													24	46					0	0	1	0	0		A	30077268	A	A	30077268	2	1	89	1	0	0	0	0	0	0	0	1	9984	1074	38	1		1	MTUS2	13	30077268	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	469188	30077268	85092610	4779	58610											
UBL3	5412	broad.mit.edu	37	chr13	30346289	30346289	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtagaaatcgtccttgataAataagtcgtagaatatttgg	14	14	9	4	2	0	3	0	1	0	2	3	3	1	3	1	1	0	2	1	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:30346289A>C	uc001usp.2	-	3	1328	c.183T>G	c.(181-183)ATT>ATG	p.I61M		NM_007106	NP_009037	O95164	UBL3_HUMAN	ubiquitin-like 3 precursor	61	Ubiquitin-like.					intracellular|plasma membrane					0		Lung SC(185;0.0281)		all cancers(112;0.0598)|GBM - Glioblastoma multiforme(144;0.142)|OV - Ovarian serous cystadenocarcinoma(117;0.147)		GTCCTTGATAAATAAGTCGTA	0.388													29	76					0	0	1	0	0		C	30346289	C	C	30346289	3	2	89	1	0	0	0	0	1	0	0	0	16912	10	1	5	182	5	UBL3	13	30346289	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	269021	30346289	84823589	4780	58611											
KATNAL1	84056	broad.mit.edu	37	chr13	30857759	30857759	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taataccatcttacctgttgCcatttgcctttgatagctgg	8	16	7	10	0	1	1	0	1	1	0	1	1	1	1	4	1	5	2	4	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:30857759C>T	uc001uss.2	-	2	257	c.156G>A	c.(154-156)TGG>TGA	p.W52*	KATNAL1_uc001ust.2_Nonsense_Mutation_p.W52*	NM_001014380	NP_001014402	Q9BW62	KATL1_HUMAN	katanin p60 subunit A-like 1	52						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity				0		Lung SC(185;0.0257)		all cancers(112;0.114)|OV - Ovarian serous cystadenocarcinoma(117;0.213)		TTACCTGTTGCCATTTGCCTT	0.388													47	98					0	0	1	0	0		T	30857759	T	T	30857759	4	4	89	1	0	0	0	0	0	1	0	0	8001	740	26	2	1356	2	KATNAL1	13	30857759	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	511470	30857759	84312119	4781	58612											
C13orf33	84935	broad.mit.edu	37	chr13	31495898	31495898	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtccagaaaagaaggagacGattaagttatttctggaaaa	18	9	10	4	1	1	3	0	0	1	3	2	6	2	4	1	2	0	1	1	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:31495898G>A	uc001uth.3	+	4	1043	c.702G>A	c.(700-702)ACG>ACA	p.T234T	uc001utg.1_Intron	NM_032849	NP_116238	Q5VYS4	CM033_HUMAN	hypothetical protein LOC84935	234											0		Lung SC(185;0.0281)		all cancers(112;0.00914)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.0559)|GBM - Glioblastoma multiforme(144;0.244)		AGAAGGAGACGATTAAGTTAT	0.353													23	44					0	0	1	0	0		A	31495898	A	A	31495898	2	1	89	1	0	0	0	0	0	0	0	1	1730	1045	37	1		1	C13orf33	13	31495898	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	638139	31495898	83673980	4782	58613											
FRY	10129	broad.mit.edu	37	chr13	32721440	32721440	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaaagatcccaagatggctCgagttgcactggaatctctc	12	9	9	11	1	1	2	0	0	1	2	5	4	2	3	1	2	1	3	1	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:32721440C>T	uc001utx.2	+	12	1697	c.1201C>T	c.(1201-1203)CGA>TGA	p.R401*	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	401					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CAAGATGGCTCGAGTTGCACT	0.408													23	28					0	0	1	0	0		T	32721440	T	T	32721440	4	4	89	1	0	0	0	0	0	1	0	0	6077	876	31	1	1247	1	FRY	13	32721440	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1225542	32721440	82448438	4783	58614											
FRY	10129	broad.mit.edu	37	chr13	32768298	32768298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggttcatcaacttggctgcGaagttgttgtcttgctactg	7	15	11	8	1	3	0	2	0	1	0	3	1	3	0	0	2	4	5	0	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:32768298G>A	uc001utx.2	+	29	4106	c.3610G>A	c.(3610-3612)GAA>AAA	p.E1204K	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1204					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		ACTTGGCTGCGAAGTTGTTGT	0.378													40	71					0	0	1	0	0		A	32768298	A	A	32768298	3	1	89	1	0	0	0	0	1	0	0	0	6077	1059	37	1	3724	1	FRY	13	32768298	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	46858	32768298	82401580	4784	58615											
FRY	10129	broad.mit.edu	37	chr13	32776594	32776594	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgctgccacccctctacagCgtgtcacttgccctcttgtc	4	11	7	19	2	3	0	1	0	2	0	4	0	3	0	5	0	4	1	5	0	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:32776594C>T	uc001utx.2	+	31	4444	c.3948C>T	c.(3946-3948)AGC>AGT	p.S1316S	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1316					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CCCTCTACAGCGTGTCACTTG	0.502													26	61					0	0	1	0	0		T	32776594	T	T	32776594	2	4	89	1	0	0	0	0	0	0	0	1	6077	767	27	1		1	FRY	13	32776594	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8296	32776594	82393284	4785	58616											
FRY	10129	broad.mit.edu	37	chr13	32802781	32802781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaacaagctcattgagtttCtcacgaccaggtaataaggg	14	9	9	9	1	2	1	2	1	1	0	3	2	2	1	1	2	2	3	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:32802781C>T	uc001utx.2	+	40	5891	c.5395C>T	c.(5395-5397)CTC>TTC	p.L1799F	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1799					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CATTGAGTTTCTCACGACCAG	0.493													24	60					0	0	1	0	0		T	32802781	T	T	32802781	3	4	89	1	0	0	0	0	1	0	0	0	6077	913	32	4	5553	4	FRY	13	32802781	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	26187	32802781	82367097	4786	58617											
FRY	10129	broad.mit.edu	37	chr13	32805401	32805401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagctcactaattttctaCgtcacgttgtatctgtattt	10	17	5	9	2	4	0	2	0	2	0	4	0	4	0	0	0	3	4	0	0	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:32805401C>T	uc001utx.2	+	41	5987	c.5491C>T	c.(5491-5493)CGT>TGT	p.R1831C	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1831					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		TAATTTTCTACGTCACGTTGT	0.373													50	66					0	0	1	0	0		T	32805401	T	T	32805401	3	4	89	1	0	0	0	0	1	0	0	0	6077	536	19	1	5653	1	FRY	13	32805401	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2620	32805401	82364477	4787	58618											
FRY	10129	broad.mit.edu	37	chr13	32821606	32821606	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcttccaaggaattacctggGaaaaccctggacttccactt	11	10	8	12	0	0	0	0	0	0	0	2	3	2	3	4	3	2	1	4	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:32821606G>A	uc001utx.2	+	48	7471	c.6975G>A	c.(6973-6975)GGG>GGA	p.G2325G	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2325					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		AATTACCTGGGAAAACCCTGG	0.408													27	68					0	0	1	0	0		A	32821606	A	A	32821606	2	1	89	1	0	0	0	0	0	0	0	1	6077	1161	41	4		4	FRY	13	32821606	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16205	32821606	82348272	4788	58619											
BRCA2	675	broad.mit.edu	37	chr13	32907018	32907018	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaacagtggtaaataagaGagatgaagagcagcatcttg	17	7	13	4	0	1	4	0	1	1	3	1	6	1	5	0	2	3	3	0	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:32907018G>T	uc001uub.1	+	10	1630	c.1403G>T	c.(1402-1404)AGA>ATA	p.R468I	BRCA2_uc001uua.1_Missense_Mutation_p.R345I	NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	468					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		GTAAATAAGAGAGATGAAGAG	0.388			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			39	74					2.40579e-17	2.7868e-17	1	1	0		T	32907018	T	T	32907018	3	4	89	1	0	0	0	0	1	0	0	0	1502	942	33	5	1437	5	BRCA2	13	32907018	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	85412	32907018	82262860	4789	58620											
BRCA2	675	broad.mit.edu	37	chr13	32914522	32914522	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatagtaccaagcaagtCttttccaaagtattgtttaa	15	13	7	6	0	1	1	0	0	1	1	2	2	2	1	2	0	2	4	2	0	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:32914522C>A	uc001uub.1	+	11	6257	c.6030C>A	c.(6028-6030)GTC>GTA	p.V2010V		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2010					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		CCAAGCAAGTCTTTTCCAAAG	0.353			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			34	72					3.11337e-16	3.5706e-16	1	1	0		A	32914522	A	A	32914522	2	1	89	1	0	0	0	0	0	0	0	1	1502	900	32	5		5	BRCA2	13	32914522	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7504	32914522	82255356	4790	58621											
BRCA2	675	broad.mit.edu	37	chr13	32929345	32929345	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaaataagattaatgacaAtgagattcatcagtttaaca	20	12	5	4	0	2	3	2	2	0	2	2	4	2	3	0	0	1	1	0	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:32929345A>C	uc001uub.1	+	14	7582	c.7355A>C	c.(7354-7356)AAT>ACT	p.N2452T		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2452	Interaction with FANCD2.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		ATTAATGACAATGAGATTCAT	0.333			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			22	34					0	0	1	0	0		C	32929345	C	C	32929345	3	2	89	1	0	0	0	0	1	0	0	0	1502	101	4	5	7405	5	BRCA2	13	32929345	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	14823	32929345	82240533	4791	58622											
N4BP2L2	10443	broad.mit.edu	37	chr13	33017991	33017991	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctttaggatctttatttTtccatcttttttctttatat	6	26	3	6	0	4	0	0	0	4	0	5	1	5	1	1	1	0	0	1	1	4	12			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:33017991T>G	uc010abe.1	-	7	705	c.683A>C	c.(682-684)AAA>ACA	p.K228T	N4BP2L2_uc001uug.2_Missense_Mutation_p.K111T|N4BP2L2_uc010abd.1_Missense_Mutation_p.K141T|N4BP2L2_uc001uuh.2_Missense_Mutation_p.K59T|N4BP2L2_uc001uuj.2_Intron|N4BP2L2_uc010tdz.1_Missense_Mutation_p.K213T	NM_033111	NP_149102	Q92802	N42L2_HUMAN	phosphonoformate immuno-associated protein 5	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment											0		Lung SC(185;0.0262)		all cancers(112;9.5e-07)|Epithelial(112;5.07e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00196)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.243)		ATCTTTATTTTTCCATCTTTT	0.333													9	11					0	0	1	0	0		G	33017991	G	G	33017991	3	3	89	1	0	0	0	0	1	0	0	0	10130	1841	64	5	1587	5	N4BP2L2	13	33017991	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	88646	33017991	82151887	4792	58623											
PDS5B	23047	broad.mit.edu	37	chr13	33275569	33275569	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcacatagataccgaatCtatcaggtatttgtatataa	14	14	7	6	1	2	1	1	0	1	1	2	2	2	1	1	1	2	3	1	1	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:33275569C>A	uc010abf.2	+	17	2008	c.1850C>A	c.(1849-1851)TCT>TAT	p.S617Y	PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	617					cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		GATACCGAATCTATCAGGTAT	0.388													23	35					2.32416e-17	2.69338e-17	1	1	0		A	33275569	A	A	33275569	3	1	89	1	0	0	0	0	1	0	0	0	11711	913	32	5	1912	5	PDS5B	13	33275569	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	257578	33275569	81894309	4793	58624											
KL	9365	broad.mit.edu	37	chr13	33590981	33590981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctacaacaacgtcttccgcGacacggaggcgctgcgcgag	9	5	13	14	7	1	0	0	0	1	0	2	3	2	1	1	2	4	2	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:33590981G>A	uc001uus.2	+	1	411	c.403G>A	c.(403-405)GAC>AAC	p.D135N	KL_uc001uur.1_Intron	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	135	Glycosyl hydrolase-1 1.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		CGTCTTCCGCGACACGGAGGC	0.706													9	23					0	0	1	0	0		A	33590981	A	A	33590981	3	1	89	1	0	0	0	0	1	0	0	0	8347	1058	37	1	405	1	KL	13	33590981	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	315412	33590981	81578897	4794	58625											
KL	9365	broad.mit.edu	37	chr13	33628183	33628183	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaaaggaactgctgactttTttgctctttgctttggaccc	7	16	8	10	0	2	1	1	1	1	0	2	3	2	3	1	2	4	3	1	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:33628183T>G	uc001uus.2	+	2	1107	c.1099T>G	c.(1099-1101)TTT>GTT	p.F367V	KL_uc001uur.1_Missense_Mutation_p.F60V	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	367	Glycosyl hydrolase-1 1.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		TGCTGACTTTTTTGCTCTTTG	0.428													112	222					0	0	1	0	0		G	33628183	G	G	33628183	3	3	89	1	0	0	0	0	1	0	0	0	8347	1841	64	5	1105	5	KL	13	33628183	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	37202	33628183	81541695	4795	58626											
STARD13	90627	broad.mit.edu	37	chr13	33701653	33701653	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggccggccggggctggtgCgacagctggaaactgttcca	6	6	18	11	3	0	0	0	0	0	0	1	2	1	1	3	7	3	3	3	7	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:33701653C>T	uc001uuw.2	-	6	1905	c.1779G>A	c.(1777-1779)TCG>TCA	p.S593S	STARD13_uc001uuu.2_Silent_p.S585S|STARD13_uc001uuv.2_Silent_p.S475S|STARD13_uc001uux.2_Silent_p.S558S|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Silent_p.S578S	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	593					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		GGGGCTGGTGCGACAGCTGGA	0.627													4	3					0	0	1	0	0		T	33701653	T	T	33701653	2	4	89	1	0	0	0	0	0	0	0	1	15281	755	27	1		1	STARD13	13	33701653	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	73470	33701653	81468225	4796	58627											
NBEA	26960	broad.mit.edu	37	chr13	35692599	35692599	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataccagcatttgatcaaaGaaatggaataaggtatgatt	17	11	9	4	0	1	3	1	2	0	1	1	5	1	4	1	2	2	2	1	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:35692599G>T	uc001uvb.2	+	17	2437	c.2231G>T	c.(2230-2232)AGA>ATA	p.R744I		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	744						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TTTGATCAAAGAAATGGAATA	0.338													7	10					8.12818e-05	8.32951e-05	1	1	0		T	35692599	T	T	35692599	3	4	89	1	0	0	0	0	1	0	0	0	10205	942	33	5	2293	5	NBEA	13	35692599	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1990946	35692599	79477279	4797	58628											
MAB21L1	4081	broad.mit.edu	37	chr13	36049800	36049800	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctatctcggattctcagtTtcacttcgctggtgtctgcc	5	15	8	13	2	4	0	2	0	3	0	7	1	4	1	2	2	1	2	2	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:36049800T>G	uc001uvc.2	-	1	1033	c.476A>C	c.(475-477)AAA>ACA	p.K159T	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	159					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		GATTCTCAGTTTCACTTCGCT	0.562													23	46					0	0	1	0	0		G	36049800	G	G	36049800	3	3	89	1	0	0	0	0	1	0	0	0	9159	1841	64	5	607	5	MAB21L1	13	36049800	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	357201	36049800	79120078	4798	58629											
NBEA	26960	broad.mit.edu	37	chr13	36180562	36180562	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcatttttattcctgataGgaactaattccagagttcta	11	17	5	8	0	2	2	1	1	1	1	4	3	4	3	2	1	1	1	2	1	5	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:36180562G>A	uc001uvb.2	+	48	7503	c.7297_splice	c.e48-1	p.E2433_splice	NBEA_uc010abi.2_Splice_Site_p.E1089_splice|NBEA_uc010tee.1_Splice_Site_p.E226_splice|NBEA_uc010tef.1_Splice_Site_p.E226_splice|NBEA_uc010teg.1_Splice_Site_p.E226_splice|NBEA_uc001uvd.2_Splice_Site	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin							cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		ATTCCTGATAGGAACTAATTC	0.279													3	6					0	0	1	0	0		A	36180562	A	A	36180562	5	1	89	1	0	0	0	0	0	0	1	0	10205	1014	35	4	7486	4	NBEA	13	36180562	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	130762	36180562	78989316	4799	58630											
NBEA	26960	broad.mit.edu	37	chr13	36202263	36202263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccaacttcatcagtggatcGaccttatatttggctataag	11	13	8	9	1	2	0	2	0	0	0	3	2	2	1	2	2	1	1	2	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:36202263G>A	uc001uvb.2	+	49	7701	c.7495G>A	c.(7495-7497)GAC>AAC	p.D2499N	NBEA_uc010abi.2_Missense_Mutation_p.D1155N|NBEA_uc010tee.1_Missense_Mutation_p.D292N|NBEA_uc010tef.1_Missense_Mutation_p.D292N|NBEA_uc010teg.1_Missense_Mutation_p.D292N|NBEA_uc001uvd.2_Missense_Mutation_p.D56N	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2499	BEACH.					cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TCAGTGGATCGACCTTATATT	0.403													9	18					0	0	1	0	0		A	36202263	A	A	36202263	3	1	89	1	0	0	0	0	1	0	0	0	10205	1058	37	1	7689	1	NBEA	13	36202263	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21701	36202263	78967615	4800	58631											
C13orf36	400120	broad.mit.edu	37	chr13	37269387	37269387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttagcgtttctgcttctgCttttaatcattgccctccag	5	19	6	11	1	3	0	1	0	2	0	4	0	4	0	2	0	4	3	2	0	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:37269387C>T	uc001uvt.3	+	2	618	c.172C>T	c.(172-174)CTT>TTT	p.L58F		NM_203451	NP_982276	A2A2V5	CM036_HUMAN	hypothetical protein LOC400120	58	Helical; (Potential).					integral to membrane				skin(1)	1						TCTGCTTCTGCTTTTAATCAT	0.483													44	124					0	0	1	0	0		T	37269387	T	T	37269387	3	4	89	1	0	0	0	0	1	0	0	0	1733	797	28	2	174	2	C13orf36	13	37269387	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1067124	37269387	77900491	4801	58632											
ALG5	29880	broad.mit.edu	37	chr13	37539735	37539735	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgttcaacgtgtagagatgaAaacgtccgtgaagctgcttc	11	10	11	9	4	1	3	1	2	0	1	3	4	2	3	1	0	4	4	1	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:37539735A>C	uc001uvy.2	-	8	817	c.750T>G	c.(748-750)TTT>TTG	p.F250L	ALG5_uc010teq.1_Missense_Mutation_p.F220L|ALG5_uc010ter.1_RNA	NM_013338	NP_037470	Q9Y673	ALG5_HUMAN	dolichyl-phosphate beta-glucosyltransferase	250	Lumenal (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate beta-glucosyltransferase activity|oligosaccharyl transferase activity				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)		all cancers(112;5.79e-07)|Epithelial(112;1.81e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00785)|BRCA - Breast invasive adenocarcinoma(63;0.0127)|GBM - Glioblastoma multiforme(144;0.0472)		GTAGAGATGAAAACGTCCGTG	0.448													42	83					0	0	1	0	0		C	37539735	C	C	37539735	3	2	89	1	0	0	0	0	1	0	0	0	521	11	1	5	236	5	ALG5	13	37539735	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	270348	37539735	77630143	4802	58633											
TRPC4	7223	broad.mit.edu	37	chr13	38211598	38211598	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcaaaaaggctgaaattCtttttcttgtccttgctatt	12	17	5	7	0	3	1	1	1	2	0	4	1	4	1	1	1	1	2	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:38211598C>A	uc001uws.2	-	11	2611	c.2376G>T	c.(2374-2376)AAG>AAT	p.K792N	TRPC4_uc010abv.2_Missense_Mutation_p.K372N|TRPC4_uc001uwt.2_Intron|TRPC4_uc010tey.1_Intron|TRPC4_uc010abw.2_Missense_Mutation_p.K619N|TRPC4_uc010abx.2_Missense_Mutation_p.K797N|TRPC4_uc010aby.2_Intron	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	792	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		GGCTGAAATTCTTTTTCTTGT	0.428													39	73					4.40281e-34	5.42128e-34	1	1	0		A	38211598	A	A	38211598	3	1	89	1	0	0	0	0	1	0	0	0	16606	912	32	5	561	5	TRPC4	13	38211598	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	671863	38211598	76958280	4803	58634											
TRPC4	7223	broad.mit.edu	37	chr13	38213186	38213186	+	Missense_Mutation	SNP	C	A	A																															aaaatggttaccttaaagttCtcttcggtcaggccttcttc																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:38213186C>A	uc001uws.2	-	10	2437	c.2202G>T	c.(2200-2202)GAG>GAT	p.E734D	TRPC4_uc010abv.2_Missense_Mutation_p.E314D|TRPC4_uc001uwt.2_Missense_Mutation_p.E734D|TRPC4_uc010tey.1_Intron|TRPC4_uc010abw.2_Missense_Mutation_p.E561D|TRPC4_uc010abx.2_Missense_Mutation_p.E739D|TRPC4_uc010aby.2_Missense_Mutation_p.E669D	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	734	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		CCTTAAAGTTCTCTTCGGTCA	0.413													66	144					2.40041e-21	2.84617e-21	1	1	0		A	38213186	A	A	38213186	3	1	89	1	0	0	0	0	1	0	0	0	16606	912	32	5	739	5	TRPC4	13	38213186	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1588	38213186	76956692	4804	58635	110	2									
TRPC4	7223	broad.mit.edu	37	chr13	38213191	38213191	+	Missense_Mutation	SNP	C	T	T																															ggttaccttaaagttctcttCggtcaggccttcttcagttt																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:38213191C>T	uc001uws.2	-	10	2432	c.2197G>A	c.(2197-2199)GAA>AAA	p.E733K	TRPC4_uc010abv.2_Missense_Mutation_p.E313K|TRPC4_uc001uwt.2_Missense_Mutation_p.E733K|TRPC4_uc010tey.1_Intron|TRPC4_uc010abw.2_Missense_Mutation_p.E560K|TRPC4_uc010abx.2_Missense_Mutation_p.E738K|TRPC4_uc010aby.2_Missense_Mutation_p.E668K	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	733	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		AAGTTCTCTTCGGTCAGGCCT	0.403													72	149					0	0	1	0	0		T	38213191	T	T	38213191	3	4	89	1	0	0	0	0	1	0	0	0	16606	893	31	1	744	1	TRPC4	13	38213191	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5	38213191	76956687	4805	58636	110	2									
FREM2	341640	broad.mit.edu	37	chr13	39262086	39262086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagcaatgccctggacgCgcggagcctggagttcgcct	7	6	14	14	4	0	0	0	0	0	0	1	4	0	3	4	3	3	2	4	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:39262086C>T	uc001uwv.2	+	1	914	c.605C>T	c.(604-606)GCG>GTG	p.A202V		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	202	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GCCCTGGACGCGCGGAGCCTG	0.647													7	11					0	0	1	0	0		T	39262086	T	T	39262086	3	4	89	1	0	0	0	0	1	0	0	0	6059	768	27	1	607	1	FREM2	13	39262086	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1048895	39262086	75907792	4806	58637											
FREM2	341640	broad.mit.edu	37	chr13	39262102	39262102	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacgcgcggagcctggagttCgccttccagcccgagacaga	8	5	14	14	5	0	2	0	0	0	2	2	6	1	4	4	2	2	1	4	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:39262102C>T	uc001uwv.2	+	1	930	c.621C>T	c.(619-621)TTC>TTT	p.F207F		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	207	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GCCTGGAGTTCGCCTTCCAGC	0.652													7	15					0	0	1	0	0		T	39262102	T	T	39262102	2	4	89	1	0	0	0	0	0	0	0	1	6059	883	31	1		1	FREM2	13	39262102	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	16	39262102	75907776	4807	58638											
FREM2	341640	broad.mit.edu	37	chr13	39265671	39265671	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggacctaattaaatttgAtgtgactgatggaataaatc	14	13	9	5	1	0	3	0	3	0	0	2	5	0	5	1	2	0	0	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:39265671A>G	uc001uwv.2	+	1	4499	c.4190A>G	c.(4189-4191)GAT>GGT	p.D1397G		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1397	Extracellular (Potential).|CSPG 9.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		ATTAAATTTGATGTGACTGAT	0.418													72	118					0	0	1	0	0		G	39265671	G	G	39265671	3	3	89	1	0	0	0	0	1	0	0	0	6059	333	12	3	4192	3	FREM2	13	39265671	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3569	39265671	75904207	4808	58639											
NHLRC3	387921	broad.mit.edu	37	chr13	39621836	39621836	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgatgggaagtacttgAttgtggcccagctgaatctt	8	13	11	9	0	1	3	0	3	1	0	2	4	2	4	2	2	2	2	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:39621836A>G	uc001uxc.2	+	7	1139	c.817A>G	c.(817-819)ATT>GTT	p.I273V	NHLRC3_uc001uxd.2_Missense_Mutation_p.I206V|NHLRC3_uc001uxe.2_Missense_Mutation_p.I76V	NM_001012754	NP_001012772	Q5JS37	NHLC3_HUMAN	NHL repeat containing 3 isoform a	273						extracellular region				skin(1)	1		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;2.37e-08)|Epithelial(112;3.14e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00101)|BRCA - Breast invasive adenocarcinoma(63;0.00335)|GBM - Glioblastoma multiforme(144;0.0128)		GAAGTACTTGATTGTGGCCCA	0.418													24	49					0	0	1	0	0		G	39621836	G	G	39621836	3	3	89	1	0	0	0	0	1	0	0	0	10426	333	12	3	843	3	NHLRC3	13	39621836	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	356165	39621836	75548042	4809	58640											
LHFP	10186	broad.mit.edu	37	chr13	40175113	40175113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatggtgcagatcctccattCtgcgctggggatgccctgga	6	11	13	11	1	1	1	0	0	1	1	3	3	3	3	3	4	3	2	3	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:40175113C>T	uc001uxf.2	-	2	752	c.241G>A	c.(241-243)GAA>AAA	p.E81K		NM_005780	NP_005771	Q9Y693	LHFP_HUMAN	lipoma HMGIC fusion partner precursor	81						integral to membrane	DNA binding		HMGA2/LHFP(2)	soft_tissue(2)|lung(1)|breast(1)	4		Lung NSC(96;3.55e-06)|Breast(139;0.00408)|Ovarian(182;0.0107)|Prostate(109;0.0118)|Lung SC(185;0.0719)|Hepatocellular(188;0.114)		OV - Ovarian serous cystadenocarcinoma(117;6.48e-46)|Epithelial(112;8.43e-42)|all cancers(112;1.42e-36)|GBM - Glioblastoma multiforme(144;0.00187)|BRCA - Breast invasive adenocarcinoma(63;0.00886)|KIRC - Kidney renal clear cell carcinoma(186;0.048)|Kidney(163;0.0601)|LUSC - Lung squamous cell carcinoma(192;0.105)		ATCCTCCATTCTGCGCTGGGG	0.597			T	HMGA2	lipoma								54	116					0	0	1	0	0		T	40175113	T	T	40175113	3	4	89	1	0	0	0	0	1	0	0	0	8779	922	32	4	373	4	LHFP	13	40175113	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	553277	40175113	74994765	4810	58641											
FOXO1	2308	broad.mit.edu	37	chr13	41134849	41134849	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctcttagcaaatttactgTtgttgtccatggatgcagct	8	15	10	8	0	1	0	0	0	1	0	2	1	2	1	1	2	4	6	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:41134849T>C	uc001uxl.3	-	2	1164	c.779A>G	c.(778-780)AAC>AGC	p.N260S	FOXO1_uc010acc.1_Missense_Mutation_p.N75S	NM_002015	NP_002006	Q12778	FOXO1_HUMAN	forkhead box O1	260					anti-apoptosis|blood vessel development|embryo development|endocrine pancreas development|insulin receptor signaling pathway|negative regulation of stress-activated MAPK cascade|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|response to DNA damage stimulus|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding		PAX3/FOXO1(749)|PAX7/FOXO1(197)	soft_tissue(946)|lung(1)|central_nervous_system(1)	948		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)		AAATTTACTGTTGTTGTCCAT	0.517													38	90					0	0	1	0	0		C	41134849	C	C	41134849	3	2	89	1	0	0	0	0	1	0	0	0	6037	1725	60	3	1192	3	FOXO1	13	41134849	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	959736	41134849	74035029	4811	58642											
FOXO1	2308	broad.mit.edu	37	chr13	41134955	41134955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttccttcattctgcacacGaatgaacttgctgtgtaggg	9	13	10	9	1	2	1	1	1	1	0	3	2	3	1	1	1	3	4	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:41134955G>A	uc001uxl.3	-	2	1058	c.673C>T	c.(673-675)CGT>TGT	p.R225C	FOXO1_uc010acc.1_Missense_Mutation_p.R40C	NM_002015	NP_002006	Q12778	FOXO1_HUMAN	forkhead box O1	225	Fork-head.				anti-apoptosis|blood vessel development|embryo development|endocrine pancreas development|insulin receptor signaling pathway|negative regulation of stress-activated MAPK cascade|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|response to DNA damage stimulus|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding		PAX3/FOXO1(749)|PAX7/FOXO1(197)	soft_tissue(946)|lung(1)|central_nervous_system(1)	948		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)		TTCTGCACACGAATGAACTTG	0.428													19	58					0	0	1	0	0		A	41134955	A	A	41134955	3	1	89	1	0	0	0	0	1	0	0	0	6037	1058	37	1	1298	1	FOXO1	13	41134955	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	106	41134955	74034923	4812	58643											
KBTBD6	89890	broad.mit.edu	37	chr13	41705387	41705387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccctcacgacacagcaagcGatctgcaagttgctgccaac	11	6	9	15	2	2	0	1	0	1	0	2	2	2	0	2	0	6	4	2	0	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:41705387G>A	uc001uxu.1	-	1	1550	c.1261C>T	c.(1261-1263)CGC>TGC	p.R421C	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.R355C|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	421	Kelch 1.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		CACAGCAAGCGATCTGCAAGT	0.488													54	95					0	0	1	0	0		A	41705387	A	A	41705387	3	1	89	1	0	0	0	0	1	0	0	0	8013	1058	37	1	767	1	KBTBD6	13	41705387	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	570432	41705387	73464491	4813	58644											
MTRF1	9617	broad.mit.edu	37	chr13	41808045	41808045	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggggatgtggacaagTctgacggcactatcagtttt	8	12	13	8	1	2	1	1	1	1	0	2	3	2	3	1	4	0	2	1	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:41808045T>G	uc001uxx.2	-	9	1439	c.969A>C	c.(967-969)AGA>AGC	p.R323S	MTRF1_uc001uxy.2_Missense_Mutation_p.R323S|MTRF1_uc001uxz.2_Missense_Mutation_p.R159S|MTRF1_uc010tff.1_Missense_Mutation_p.R336S|MTRF1_uc001uyc.1_Missense_Mutation_p.R323S|uc001uxv.1_Intron	NM_004294	NP_004285	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	323					regulation of translational termination	mitochondrion	translation release factor activity, codon specific				0		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)		TGTGGACAAGTCTGACGGCAC	0.443													32	104					0	0	1	0	0		G	41808045	G	G	41808045	3	3	89	1	0	0	0	0	1	0	0	0	9977	1664	58	5	384	5	MTRF1	13	41808045	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	102658	41808045	73361833	4814	58645											
NAA16	79612	broad.mit.edu	37	chr13	41893022	41893022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtttgttcgtaaaggacttCgtaatgatgtcaagagtcat	12	14	10	5	2	2	2	2	1	0	1	4	3	2	3	0	1	0	4	0	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:41893022C>T	uc001uyf.2	+	3	544	c.220C>T	c.(220-222)CGT>TGT	p.R74C	NAA16_uc010tfg.1_RNA|NAA16_uc001uye.3_Missense_Mutation_p.R74C|NAA16_uc001uyd.3_Missense_Mutation_p.R74C	NM_024561	NP_078837	Q6N069	NAA16_HUMAN	NMDA receptor regulated 1-like protein isoform	74	TPR 1.				N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent	cytoplasm|transcription factor complex	binding			central_nervous_system(1)	1						TAAAGGACTTCGTAATGATGT	0.289													17	45					0	0	1	0	0		T	41893022	T	T	41893022	3	4	89	1	0	0	0	0	1	0	0	0	10137	884	31	1	230	1	NAA16	13	41893022	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	84977	41893022	73276856	4815	58646											
NAA16	79612	broad.mit.edu	37	chr13	41932600	41932600	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttattctatatgaaagcaaaAatttacaaggtaaaatctga	19	13	5	4	0	2	2	0	2	2	0	2	2	2	2	0	1	2	2	0	1	10	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:41932600A>C	uc001uyf.2	+	11	1572	c.1248A>C	c.(1246-1248)AAA>AAC	p.K416N	NAA16_uc010tfg.1_RNA|NAA16_uc001uye.3_Missense_Mutation_p.K416N|NAA16_uc001uyd.3_3'UTR	NM_024561	NP_078837	Q6N069	NAA16_HUMAN	NMDA receptor regulated 1-like protein isoform	416	TPR 6.				N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent	cytoplasm|transcription factor complex	binding			central_nervous_system(1)	1						TGAAAGCAAAAATTTACAAGG	0.308													12	33					0	0	1	0	0		C	41932600	C	C	41932600	3	2	89	1	0	0	0	0	1	0	0	0	10137	11	1	5	1290	5	NAA16	13	41932600	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	39578	41932600	73237278	4816	58647											
KIAA0564	23078	broad.mit.edu	37	chr13	42277525	42277525	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattgtccagtagcccatgaAcgtttgttctggcagagtca	10	12	10	9	1	2	2	1	1	1	1	3	2	3	2	2	1	2	4	2	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:42277525A>G	uc001uyj.2	-	27	3209	c.3139T>C	c.(3139-3141)TTC>CTC	p.F1047L		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1047						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		TAGCCCATGAACGTTTGTTCT	0.373													21	38					0	0	1	0	0		G	42277525	G	G	42277525	3	3	89	1	0	0	0	0	1	0	0	0	8201	43	2	3	2654	3	KIAA0564	13	42277525	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	344925	42277525	72892353	4817	58648											
KIAA0564	23078	broad.mit.edu	37	chr13	42293761	42293761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacactggtaggctttgctcCgataggtatcccgtatttgt	7	14	10	10	2	0	0	0	0	0	0	2	1	2	0	2	3	1	5	2	3	4	6	rs148181998		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:42293761C>T	uc001uyj.2	-	26	3152	c.3082G>A	c.(3082-3084)GGA>AGA	p.G1028R	KIAA0564_uc001uyk.2_Missense_Mutation_p.G1028R	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1028						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		GGCTTTGCTCCGATAGGTATC	0.388													29	44					0	0	1	0	0		T	42293761	T	T	42293761	3	4	89	1	0	0	0	0	1	0	0	0	8201	661	23	1	2719	1	KIAA0564	13	42293761	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	16236	42293761	72876117	4818	58649											
KIAA0564	23078	broad.mit.edu	37	chr13	42460062	42460062	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttattttacttaccaagatTtgaaccgcagctgctaaact	12	15	5	9	1	0	2	0	1	0	1	0	2	0	2	2	0	6	3	2	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:42460062T>G	uc001uyj.2	-	8	1039	c.969A>C	c.(967-969)CAA>CAC	p.Q323H	KIAA0564_uc001uyk.2_Missense_Mutation_p.Q323H	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	323						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		TTACCAAGATTTGAACCGCAG	0.353													11	18					0	0	1	0	0		G	42460062	G	G	42460062	3	3	89	1	0	0	0	0	1	0	0	0	8201	1838	64	5	4904	5	KIAA0564	13	42460062	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	166301	42460062	72709816	4819	58650											
ENOX1	55068	broad.mit.edu	37	chr13	43896586	43896586	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcagacatttccatttCttcttcgcggcggatgccca	8	13	7	13	3	4	1	2	0	2	1	6	2	5	2	2	2	1	0	2	2	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:43896586C>A	uc001uza.3	-	11	1495	c.1195G>T	c.(1195-1197)GAA>TAA	p.E399*	ENOX1_uc001uzb.3_Nonsense_Mutation_p.E399*|ENOX1_uc001uzc.3_Nonsense_Mutation_p.E399*|ENOX1_uc001uyz.3_Nonsense_Mutation_p.E8*|ENOX1_uc010tfm.1_Nonsense_Mutation_p.E212*	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	399					electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		ATTTCCATTTCTTCTTCGCGG	0.473													38	65					3.21399e-22	3.82912e-22	1	1	0		A	43896586	A	A	43896586	4	1	89	1	0	0	0	0	0	1	0	0	5134	922	32	5	764	5	ENOX1	13	43896586	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1436524	43896586	71273292	4820	58651											
CCDC122	160857	broad.mit.edu	37	chr13	44411430	44411430	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatgttactcttgcattcCaatgcattttcttaattcgg	9	17	6	9	1	2	0	0	0	2	0	4	0	3	0	1	1	3	4	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:44411430C>A	uc010acf.2	-	7	1067	c.808G>T	c.(808-810)GGA>TGA	p.G270*		NM_144974	NP_659411	Q5T0U0	CC122_HUMAN	coiled-coil domain containing 122	270											0		Lung NSC(96;7.5e-06)|Breast(139;0.00765)|Hepatocellular(98;0.00826)|Prostate(109;0.0143)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000767)|BRCA - Breast invasive adenocarcinoma(63;0.128)		TCTTGCATTCCAATGCATTTT	0.368													20	51					2.27731e-05	2.34574e-05	1	1	0		A	44411430	A	A	44411430	4	1	89	1	0	0	0	0	0	1	0	0	2761	603	21	5	17	5	CCDC122	13	44411430	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	514844	44411430	70758448	4821	58652											
TSC22D1	8848	broad.mit.edu	37	chr13	45149181	45149181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	actcacaccagcagcactagGaatattgcttgtacttatat	13	12	6	10	0	1	0	1	0	0	0	1	1	1	1	1	1	4	4	1	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:45149181G>A	uc001uzn.3	-	1	1521	c.1030C>T	c.(1030-1032)CCT>TCT	p.P344S	TSC22D1_uc001uzo.1_Missense_Mutation_p.P344S	NM_183422	NP_904358	Q15714	T22D1_HUMAN	TSC22 domain family, member 1 isoform 1	344					transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(4;8.74e-08)|Acute lymphoblastic leukemia(4;1.78e-07)|Lung NSC(96;2.21e-05)|Breast(139;0.000625)|Prostate(109;0.000947)|Hepatocellular(98;0.0202)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000522)|BRCA - Breast invasive adenocarcinoma(63;0.118)		GCAGCACTAGGAATATTGCTT	0.403													23	62					0	0	1	0	0		A	45149181	A	A	45149181	3	1	89	1	0	0	0	0	1	0	0	0	16633	1174	41	4	2332	4	TSC22D1	13	45149181	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	737751	45149181	70020697	4822	58653											
KCTD4	386618	broad.mit.edu	37	chr13	45768256	45768256	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaatccttgtgaacgatcGtggttatctgttatttccaa	9	17	7	8	2	1	1	0	1	1	0	4	2	3	1	2	1	1	2	2	1	5	5	rs34555048	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:45768256G>A	uc001uzx.3	-	2	851	c.447C>T	c.(445-447)CAC>CAT	p.H149H	GTF2F2_uc001uzv.2_Intron|GTF2F2_uc001uzw.2_Intron	NM_198404	NP_940686	Q8WVF5	KCTD4_HUMAN	potassium channel tetramerisation domain	149						voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		Lung NSC(96;6.55e-05)|Breast(139;0.00378)|Prostate(109;0.00438)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000249)|BRCA - Breast invasive adenocarcinoma(63;0.207)		GTGAACGATCGTGGTTATCTG	0.423													47	105					0	0	1	0	0		A	45768256	A	A	45768256	2	1	89	1	0	0	0	0	0	0	0	1	8127	1136	40	1		1	KCTD4	13	45768256	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	619075	45768256	69401622	4823	58654											
TPT1	7178	broad.mit.edu	37	chr13	45914178	45914178	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaggcttcttttgtgaaacTtgtttcctgcaggtgatggt	6	17	12	6	0	1	2	0	2	1	0	2	2	2	2	1	3	2	4	1	3	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:45914178T>G	uc001uzy.1	-	3	337	c.244A>C	c.(244-246)AGT>CGT	p.S82R	TPT1_uc001uzz.1_Missense_Mutation_p.S48R|SNORA31_uc001vaa.1_5'Flank|TPT1_uc010tfp.1_3'UTR|LOC100190939_uc010tfr.1_5'Flank|LOC100190939_uc001vac.2_5'Flank	NM_003295	NP_003286	P13693	TCTP_HUMAN	tumor protein, translationally-controlled 1	82					anti-apoptosis|response to virus	extracellular space|multivesicular body	calcium ion binding|protein binding				0		Lung NSC(96;0.00227)|Prostate(109;0.00578)|Breast(56;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000232)		TTTGTGAAACTTGTTTCCTGC	0.443													28	54					0	0	1	0	0		G	45914178	G	G	45914178	3	3	89	1	0	0	0	0	1	0	0	0	16455	1609	56	5	290	5	TPT1	13	45914178	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	145922	45914178	69255700	4824	58655											
ZC3H13	23091	broad.mit.edu	37	chr13	46559794	46559794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctccgatcccgaccatctCgaggttctctgtcatctctg	5	13	7	16	3	5	0	1	0	4	0	10	3	6	0	3	1	0	1	3	1	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:46559794C>T	uc010tfw.1	-	9	1364	c.1358G>A	c.(1357-1359)CGA>CAA	p.R453Q	ZC3H13_uc001vas.1_Missense_Mutation_p.R453Q|ZC3H13_uc001vat.1_Missense_Mutation_p.R453Q	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	453	Arg/Ser-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		CCGACCATCTCGAGGTTCTCT	0.493													58	112					0	0	1	0	0		T	46559794	T	T	46559794	3	4	89	1	0	0	0	0	1	0	0	0	17590	884	31	1	3368	1	ZC3H13	13	46559794	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	645616	46559794	68610084	4825	58656											
ZC3H13	23091	broad.mit.edu	37	chr13	46563119	46563119	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataagatggtgaaggagttCtttttcgacgaggagaagga	13	10	15	3	2	1	3	0	1	1	2	2	9	1	5	0	4	0	1	0	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:46563119C>A	uc010tfw.1	-	8	1064	c.1058G>T	c.(1057-1059)AGA>ATA	p.R353I	ZC3H13_uc001vas.1_Missense_Mutation_p.R353I|ZC3H13_uc001vat.1_Missense_Mutation_p.R353I	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	353	Arg/Ser-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		TGAAGGAGTTCTTTTTCGACG	0.453													22	28					8.10497e-08	8.54627e-08	1	1	0		A	46563119	A	A	46563119	3	1	89	1	0	0	0	0	1	0	0	0	17590	913	32	5	3672	5	ZC3H13	13	46563119	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3325	46563119	68606759	4826	58657											
CPB2	1361	broad.mit.edu	37	chr13	46638872	46638872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacggttctttctccacattCgattctacataaacaaaata	15	13	3	10	2	3	0	0	0	3	0	5	1	3	0	1	1	3	1	1	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:46638872C>T	uc001vaw.2	-	8	774	c.707G>A	c.(706-708)CGA>CAA	p.R236Q	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Missense_Mutation_p.R199Q	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	236					blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		TCTCCACATTCGATTCTACAT	0.428													21	29					0	0	1	0	0		T	46638872	T	T	46638872	3	4	89	1	0	0	0	0	1	0	0	0	3800	884	31	1	580	1	CPB2	13	46638872	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	75753	46638872	68531006	4827	58658											
CPB2	1361	broad.mit.edu	37	chr13	46653021	46653021	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcctctcagttataaattCtatccaagaatagatctagc	14	13	5	9	0	3	2	1	0	3	2	5	2	4	2	2	0	2	1	2	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:46653021C>A	uc001vaw.2	-	5	467	c.400G>T	c.(400-402)GAA>TAA	p.E134*	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Nonsense_Mutation_p.E134*	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	134					blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		GTTATAAATTCTATCCAAGAA	0.398													18	38					2.94398e-08	3.12196e-08	1	1	0		A	46653021	A	A	46653021	4	1	89	1	0	0	0	0	0	1	0	0	3800	922	32	5	899	5	CPB2	13	46653021	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14149	46653021	68516857	4828	58659											
LCP1	3936	broad.mit.edu	37	chr13	46733037	46733037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaggttttctgtaatttctCgtactctatacccaggcaaa	10	15	6	10	1	4	0	1	0	3	0	5	0	4	0	1	2	2	4	1	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:46733037C>T	uc001vaz.3	-	3	278	c.152G>A	c.(151-153)CGA>CAA	p.R51Q	LCP1_uc001vba.3_Missense_Mutation_p.R51Q	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	51	EF-hand 2.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		TGTAATTTCTCGTACTCTATA	0.428			T	BCL6	NHL 								67	137					0	0	1	0	0		T	46733037	T	T	46733037	3	4	89	1	0	0	0	0	1	0	0	0	8707	884	31	1	1787	1	LCP1	13	46733037	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	80016	46733037	68436841	4829	58660											
LRCH1	23143	broad.mit.edu	37	chr13	47266769	47266769	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgccatcgccttagcccCgttaaaggtctgagaataaa	11	10	9	11	3	1	1	0	1	1	1	3	2	1	1	4	1	2	1	4	1	6	3	rs139197416	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:47266769C>T	uc001vbj.2	+	8	1349	c.1113C>T	c.(1111-1113)CCC>CCT	p.P371P	LRCH1_uc010acp.2_Silent_p.P371P|LRCH1_uc001vbk.2_Silent_p.P371P|LRCH1_uc001vbl.3_Silent_p.P371P	NM_015116	NP_055931	Q9Y2L9	LRCH1_HUMAN	leucine-rich repeats and calponin homology (CH)	371										ovary(1)|central_nervous_system(1)	2		all_lung(13;5.61e-07)|Lung NSC(96;0.000117)|Breast(56;0.000141)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000123)		GCCTTAGCCCCGTTAAAGGTC	0.398													23	35					0	0	1	0	0		T	47266769	T	T	47266769	2	4	89	1	0	0	0	0	0	0	0	1	8950	639	23	1		1	LRCH1	13	47266769	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	533732	47266769	67903109	4830	58661											
LRCH1	23143	broad.mit.edu	37	chr13	47297460	47297460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagagctggtggaacaacttCgtgaggtacccaagaaatat	15	8	11	7	1	0	3	0	1	0	2	1	4	0	4	1	3	4	2	1	3	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:47297460C>T	uc001vbj.2	+	16	1995	c.1759C>T	c.(1759-1761)CGT>TGT	p.R587C	LRCH1_uc001vbk.2_Missense_Mutation_p.R622C|LRCH1_uc001vbl.3_Missense_Mutation_p.R587C	NM_015116	NP_055931	Q9Y2L9	LRCH1_HUMAN	leucine-rich repeats and calponin homology (CH)	587	CH.									ovary(1)|central_nervous_system(1)	2		all_lung(13;5.61e-07)|Lung NSC(96;0.000117)|Breast(56;0.000141)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000123)		GGAACAACTTCGTGAGGTACC	0.318													15	33					0	0	1	0	0		T	47297460	T	T	47297460	3	4	89	1	0	0	0	0	1	0	0	0	8950	884	31	1	1930	1	LRCH1	13	47297460	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30691	47297460	67872418	4831	58662											
LRCH1	23143	broad.mit.edu	37	chr13	47315828	47315828	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttggattttcgtcacattCgaaagactgttgacactctg	10	14	9	8	2	2	2	1	1	1	1	4	4	2	3	0	1	0	2	0	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:47315828C>T	uc001vbj.2	+	19	2268	c.2032C>T	c.(2032-2034)CGA>TGA	p.R678*	LRCH1_uc001vbk.2_Nonsense_Mutation_p.R713*|LRCH1_uc001vbl.3_Intron	NM_015116	NP_055931	Q9Y2L9	LRCH1_HUMAN	leucine-rich repeats and calponin homology (CH)	678	CH.									ovary(1)|central_nervous_system(1)	2		all_lung(13;5.61e-07)|Lung NSC(96;0.000117)|Breast(56;0.000141)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000123)		TCGTCACATTCGAAAGACTGT	0.512													184	383					0	0	1	0	0		T	47315828	T	T	47315828	4	4	89	1	0	0	0	0	0	1	0	0	8950	876	31	1	2215	1	LRCH1	13	47315828	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	18368	47315828	67854050	4832	58663											
NUDT15	55270	broad.mit.edu	37	chr13	48615235	48615235	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagaaccaaagaatgtagAgcctgaaaaaaatgaaagta	21	7	8	5	0	1	5	1	2	0	3	1	5	1	5	2	0	2	2	2	0	9	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:48615235A>C	uc001vbw.1	+	2	518	c.338A>C	c.(337-339)GAG>GCG	p.E113A	NUDT15_uc001vbv.2_Missense_Mutation_p.E113A	NM_018283	NP_060753	Q9NV35	NUD15_HUMAN	nudix-type motif 15	113	Interaction with PCNA.|Nudix hydrolase.						hydrolase activity|metal ion binding				0		all_cancers(8;3.75e-25)|all_epithelial(8;1.78e-13)|all_lung(13;2.85e-06)|Breast(56;0.000141)|all_hematologic(8;0.000219)|Lung NSC(96;0.000226)|Prostate(109;0.00132)|Acute lymphoblastic leukemia(8;0.0167)|Myeloproliferative disorder(33;0.039)|Hepatocellular(98;0.0556)|Lung SC(185;0.102)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(144;4.83e-07)		AAGAATGTAGAGCCTGAAAAA	0.328													10	18					0	0	1	0	0		C	48615235	C	C	48615235	3	2	89	1	0	0	0	0	1	0	0	0	10750	304	11	5	344	5	NUDT15	13	48615235	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1299407	48615235	66554643	4833	58664											
ITM2B	9445	broad.mit.edu	37	chr13	48830320	48830320	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactctctatagccagatgAcgtgtactactgtggaataa	14	11	8	8	1	1	2	0	1	1	1	2	3	1	3	1	1	4	1	1	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:48830320A>G	uc001vbz.3	+	3	477	c.254A>G	c.(253-255)GAC>GGC	p.D85G		NM_021999	NP_068839	Q9Y287	ITM2B_HUMAN	integral membrane protein 2B	85	Lumenal (Potential).				nervous system development	Golgi membrane|integral to membrane|nucleus|plasma membrane	beta-amyloid binding				0		all_cancers(8;2.2e-31)|all_epithelial(8;6.77e-15)|all_lung(13;9.67e-07)|all_hematologic(8;9.72e-06)|Lung NSC(96;8.3e-05)|Breast(56;0.000141)|Acute lymphoblastic leukemia(8;0.00045)|Prostate(109;0.000669)|Myeloproliferative disorder(33;0.039)|Hepatocellular(98;0.0556)|Lung SC(185;0.102)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(144;1.97e-06)		TAGCCAGATGACGTGTACTAC	0.388													15	43					0	0	1	0	0		G	48830320	G	G	48830320	3	3	89	1	0	0	0	0	1	0	0	0	7929	275	10	3	264	3	ITM2B	13	48830320	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	215085	48830320	66339558	4834	58665											
CYSLTR2	57105	broad.mit.edu	37	chr13	49281629	49281629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgttatctgctgatcattCgggttctgttaaaagtggag	8	16	11	6	1	4	1	1	1	3	0	5	2	4	2	0	2	1	4	0	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:49281629C>T	uc010acx.1	+	6	1359	c.676C>T	c.(676-678)CGG>TGG	p.R226W	CYSLTR2_uc010acy.1_Missense_Mutation_p.R226W|CYSLTR2_uc010acz.1_Missense_Mutation_p.R226W|CYSLTR2_uc010ada.1_Missense_Mutation_p.R226W|CYSLTR2_uc010adb.1_Missense_Mutation_p.R226W|CYSLTR2_uc010adc.1_Missense_Mutation_p.R226W|CYSLTR2_uc010add.1_Missense_Mutation_p.R226W|CYSLTR2_uc010acw.1_Missense_Mutation_p.R226W|CYSLTR2_uc001vck.2_Missense_Mutation_p.R226W	NM_020377	NP_065110	Q9NS75	CLTR2_HUMAN	cysteinyl leukotriene receptor 2	226	Cytoplasmic (Potential).				immune response	integral to membrane|plasma membrane				lung(2)	2		all_cancers(8;1.66e-53)|all_epithelial(8;1.96e-19)|all_lung(13;9.94e-09)|all_hematologic(8;7.13e-07)|Lung NSC(96;1.72e-06)|Breast(56;1.53e-05)|Acute lymphoblastic leukemia(8;6.86e-05)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0416)|Lung SC(185;0.0787)		GBM - Glioblastoma multiforme(99;1.19e-09)	Nedocromil(DB00716)	GCTGATCATTCGGGTTCTGTT	0.478													49	117					0	0	1	0	0		T	49281629	T	T	49281629	3	4	89	1	0	0	0	0	1	0	0	0	4205	875	31	1	678	1	CYSLTR2	13	49281629	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	451309	49281629	65888249	4835	58666											
FNDC3A	22862	broad.mit.edu	37	chr13	49775978	49775978	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatgtcatacatacaaagtAcaaagacttaatgagtcaac	18	9	5	9	0	2	2	2	1	0	1	2	2	2	2	1	0	4	1	1	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:49775978A>G	uc001vcm.2	+	24	3335	c.3030A>G	c.(3028-3030)GTA>GTG	p.V1010V	FNDC3A_uc001vcn.2_Silent_p.V1010V|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcq.2_Silent_p.V954V	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	1010	Fibronectin type-III 8.					Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		CATACAAAGTACAAAGACTTA	0.338													39	60					0	0	1	0	0		G	49775978	G	G	49775978	2	3	89	1	0	0	0	0	0	0	0	1	5983	378	14	3		3	FNDC3A	13	49775978	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	494349	49775978	65393900	4836	58667											
CAB39L	81617	broad.mit.edu	37	chr13	49925041	49925041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtaaggcaatctgtggggCttcatatctaaagcgtaaac	13	10	10	8	2	3	0	1	0	2	0	3	0	3	0	0	3	2	4	0	3	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:49925041C>T	uc001vcw.2	-	5	901	c.403G>A	c.(403-405)GCC>ACC	p.A135T	CAB39L_uc001vcx.2_Missense_Mutation_p.A135T|CAB39L_uc010adf.2_Missense_Mutation_p.A132T	NM_030925	NP_112187	Q9H9S4	CB39L_HUMAN	calcium binding protein 39-like	135					cell cycle arrest|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol	protein binding				0		Lung NSC(96;2.11e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.66e-09)|COAD - Colon adenocarcinoma(199;0.226)		ATCTGTGGGGCTTCATATCTA	0.338													23	56					0	0	1	0	0		T	49925041	T	T	49925041	3	4	89	1	0	0	0	0	1	0	0	0	2529	797	28	2	630	2	CAB39L	13	49925041	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	149063	49925041	65244837	4837	58668											
RCBTB1	55213	broad.mit.edu	37	chr13	50123608	50123608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttacccacagacaggaggCgccacgagacggcgggagtg	10	4	15	12	4	1	2	0	0	1	2	1	5	1	4	2	4	1	0	2	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:50123608C>T	uc001vde.1	-	9	1292	c.1031G>A	c.(1030-1032)CGC>CAC	p.R344H		NM_018191	NP_060661	Q8NDN9	RCBT1_HUMAN	regulator of chromosome condensation (RCC1) and	344	RCC1 6.				cell cycle|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(1)	1		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)		AGACAGGAGGCGCCACGAGAC	0.597													16	32					0	0	1	0	0		T	50123608	T	T	50123608	3	4	89	1	0	0	0	0	1	0	0	0	13196	768	27	1	584	1	RCBTB1	13	50123608	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	198567	50123608	65046270	4838	58669											
TRIM13	10206	broad.mit.edu	37	chr13	50587166	50587166	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgactaaaacagccgatTtcatagaacaatcagttttt	15	13	5	8	1	3	2	2	1	1	1	3	3	3	2	1	0	3	1	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:50587166T>G	uc001vdq.1	+	3	1403	c.1090T>G	c.(1090-1092)TTC>GTC	p.F364V	DLEU2_uc001vdn.1_Intron|DLEU2_uc001vdo.1_Intron|KCNRG_uc001vdt.2_5'Flank|KCNRG_uc001vdu.2_5'Flank|TRIM13_uc001vdp.1_Missense_Mutation_p.F367V|TRIM13_uc001vdr.1_Missense_Mutation_p.F364V|TRIM13_uc001vds.1_Missense_Mutation_p.F364V	NM_052811	NP_434698	O60858	TRI13_HUMAN	ret finger protein 2 isoform 1	364					anatomical structure morphogenesis|ER-associated protein catabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination	cytoplasm|endoplasmic reticulum membrane|integral to membrane	protein binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(7;3.41e-06)|Lung NSC(96;3.08e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.53e-10)|COAD - Colon adenocarcinoma(199;0.205)		AACAGCCGATTTCATAGAACA	0.373													65	118					0	0	1	0	0		G	50587166	G	G	50587166	3	3	89	1	0	0	0	0	1	0	0	0	16514	1841	64	5	1105	5	TRIM13	13	50587166	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	463558	50587166	64582712	4839	58670											
CCDC70	83446	broad.mit.edu	37	chr13	52439685	52439685	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcgcgaagagatgaaaatTtttcgtgaaaaaatagagga	17	11	10	3	3	0	4	0	2	0	2	2	7	0	5	0	1	0	0	0	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:52439685T>G	uc001vfu.3	+	2	467	c.171T>G	c.(169-171)ATT>ATG	p.I57M	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	57						extracellular region|plasma membrane					0		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)		AGATGAAAATTTTTCGTGAAA	0.502													42	75					0	0	1	0	0		G	52439685	G	G	52439685	3	3	89	1	0	0	0	0	1	0	0	0	2846	1829	64	5	173	5	CCDC70	13	52439685	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1852519	52439685	62730193	4840	58671											
ATP7B	540	broad.mit.edu	37	chr13	52511798	52511798	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcagcacctctgcaaaGactttgttgatgccaaccta	12	9	9	11	0	1	2	0	1	1	1	1	3	1	2	3	1	4	4	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:52511798G>T	uc001vfw.2	-	18	3874	c.3717C>A	c.(3715-3717)GTC>GTA	p.V1239V	ATP7B_uc010adv.2_Silent_p.V809V|ATP7B_uc001vfx.2_Silent_p.V1032V|ATP7B_uc001vfy.2_Silent_p.V1128V|ATP7B_uc010tgt.1_Silent_p.V1174V|ATP7B_uc010tgu.1_Silent_p.V1191V|ATP7B_uc010tgv.1_Silent_p.V1161V|ATP7B_uc001vfv.2_Silent_p.V511V|ATP7B_uc010tgs.1_Silent_p.V450V	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	1239	Cytoplasmic (Potential).		V -> G (in WD).		ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		CCTCTGCAAAGACTTTGTTGA	0.517									Wilson_disease				38	71					1.58521e-26	1.91845e-26	1	1	0		T	52511798	T	T	52511798	2	4	89	1	0	0	0	0	0	0	0	1	1192	929	33	5		5	ATP7B	13	52511798	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	72113	52511798	62658080	4841	58672											
ATP7B	540	broad.mit.edu	37	chr13	52518371	52518371	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcaggagcacccgcatGaccctggggacgccatgggt	8	4	14	15	2	0	1	0	1	0	0	0	3	0	3	4	4	2	3	4	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:52518371G>T	uc001vfw.2	-	14	3274	c.3117C>A	c.(3115-3117)GTC>GTA	p.V1039V	ATP7B_uc010adv.2_Silent_p.V609V|ATP7B_uc001vfx.2_Silent_p.V832V|ATP7B_uc001vfy.2_Silent_p.V928V|ATP7B_uc010tgt.1_Silent_p.V974V|ATP7B_uc010tgu.1_Silent_p.V991V|ATP7B_uc010tgv.1_Silent_p.V961V|ATP7B_uc001vfv.2_Silent_p.V311V|ATP7B_uc010tgs.1_Intron	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	1039	Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		GCACCCGCATGACCCTGGGGA	0.577									Wilson_disease				14	30					1.52009e-12	1.68689e-12	1	1	0		T	52518371	T	T	52518371	2	4	89	1	0	0	0	0	0	0	0	1	1192	1277	45	5		5	ATP7B	13	52518371	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6573	52518371	62651507	4842	58673											
NEK5	341676	broad.mit.edu	37	chr13	52684696	52684696	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttagtcctagagaaatctgTacaaaccaaccgaggatcta	15	10	7	9	1	2	1	0	0	2	1	3	4	3	2	3	1	3	1	3	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:52684696T>C	uc001vge.2	-	6	470	c.330A>G	c.(328-330)GTA>GTG	p.V110V	NEK5_uc001vgf.2_Silent_p.V110V	NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	110	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		GAGAAATCTGTACAAACCAAC	0.388													12	22					0	0	1	0	0		C	52684696	C	C	52684696	2	2	89	1	0	0	0	0	0	0	0	1	10346	1625	57	3		3	NEK5	13	52684696	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	166325	52684696	62485182	4843	58674											
CKAP2	26586	broad.mit.edu	37	chr13	53035861	53035861	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagctttatctagtgtcaaAaccagttcttctcaaggtat	12	14	6	9	0	4	0	2	0	3	0	5	0	4	0	1	1	2	3	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:53035861A>C	uc001vgv.2	+	4	1100	c.903A>C	c.(901-903)AAA>AAC	p.K301N	CKAP2_uc001vgt.2_Missense_Mutation_p.K300N|CKAP2_uc001vgu.2_Missense_Mutation_p.K300N|CKAP2_uc010tha.1_Missense_Mutation_p.K252N	NM_001098525	NP_001091995	Q8WWK9	CKAP2_HUMAN	cytoskeleton associated protein 2 isoform 2	301					apoptosis|cell cycle	centrosome|microtubule|spindle pole				ovary(1)|skin(1)	2		Breast(56;0.000207)|Lung NSC(96;0.00212)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.6e-08)		CTAGTGTCAAAACCAGTTCTT	0.363													41	78					0	0	1	0	0		C	53035861	C	C	53035861	3	2	89	1	0	0	0	0	1	0	0	0	3445	11	1	5	917	5	CKAP2	13	53035861	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	351165	53035861	62134017	4844	58675											
DIAPH3	81624	broad.mit.edu	37	chr13	60565365	60565365	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatccctctgctctagtttCtttaactgtgctccacacca	8	15	4	14	0	3	0	0	0	3	0	5	0	5	0	3	0	3	3	3	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:60565365C>A	uc001vht.2	-	12	1507	c.1288G>T	c.(1288-1290)GAA>TAA	p.E430*	DIAPH3_uc001vhu.2_Nonsense_Mutation_p.E167*|DIAPH3_uc001vhv.2_Nonsense_Mutation_p.E8*	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	430	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		GCTCTAGTTTCTTTAACTGTG	0.303													26	79					1.77063e-15	2.01907e-15	1	1	0		A	60565365	A	A	60565365	4	1	89	1	0	0	0	0	0	1	0	0	4526	922	32	5	2381	5	DIAPH3	13	60565365	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7529504	60565365	54604513	4845	58676											
DIAPH3	81624	broad.mit.edu	37	chr13	60590074	60590074	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatcagggcttttagacaCtgtatgactttatgttgatt	9	18	8	6	0	2	3	2	2	0	1	2	3	2	3	0	1	0	3	0	1	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:60590074C>T	uc001vht.2	-	7	963	c.744G>A	c.(742-744)CAG>CAA	p.Q248Q	DIAPH3_uc001vhu.2_5'Flank|DIAPH3_uc001vhw.1_Silent_p.Q237Q|DIAPH3_uc010aed.1_Silent_p.Q202Q|DIAPH3_uc010aee.1_Silent_p.Q178Q|uc001vhx.2_Intron|uc001vhy.2_Intron	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	248	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		CTTTTAGACACTGTATGACTT	0.313													8	26					0	0	1	0	0		T	60590074	T	T	60590074	2	4	89	1	0	0	0	0	0	0	0	1	4526	564	20	4		4	DIAPH3	13	60590074	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	24709	60590074	54579804	4846	58677											
TDRD3	81550	broad.mit.edu	37	chr13	61103068	61103068	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattgaaaaacattttaatgTaaatactgattatcagaatc	19	14	4	4	0	1	3	1	2	0	1	2	3	1	3	0	0	2	1	0	0	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:61103068T>C	uc001via.2	+	11	2218	c.1430T>C	c.(1429-1431)GTA>GCA	p.V477A	TDRD3_uc010aef.2_Missense_Mutation_p.V302A|TDRD3_uc001vhz.3_Missense_Mutation_p.V477A|TDRD3_uc010aeg.2_Missense_Mutation_p.V570A|TDRD3_uc001vib.3_Missense_Mutation_p.V476A	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	477					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		CATTTTAATGTAAATACTGAT	0.308													13	22					0	0	1	0	0		C	61103068	C	C	61103068	3	2	89	1	0	0	0	0	1	0	0	0	15757	1638	57	3	1751	3	TDRD3	13	61103068	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	512994	61103068	54066810	4847	58678											
TDRD3	81550	broad.mit.edu	37	chr13	61103094	61103094	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgattatcagaatccagttCgaagtaatagtttcattggt	12	15	8	6	1	2	2	2	1	0	1	4	3	3	2	1	1	0	3	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:61103094C>T	uc001via.2	+	11	2244	c.1456C>T	c.(1456-1458)CGA>TGA	p.R486*	TDRD3_uc010aef.2_Nonsense_Mutation_p.R311*|TDRD3_uc001vhz.3_Nonsense_Mutation_p.R486*|TDRD3_uc010aeg.2_Nonsense_Mutation_p.R579*|TDRD3_uc001vib.3_Nonsense_Mutation_p.R485*	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	486					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		GAATCCAGTTCGAAGTAATAG	0.338													16	24					0	0	1	0	0		T	61103094	T	T	61103094	4	4	89	1	0	0	0	0	0	1	0	0	15757	876	31	1	1777	1	TDRD3	13	61103094	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	26	61103094	54066784	4848	58679											
PCDH20	64881	broad.mit.edu	37	chr13	61986425	61986425	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagtgtatctgtacttttCtttctcttctcggtccagct	5	18	7	11	1	4	0	0	0	4	0	7	1	5	0	1	1	2	3	1	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:61986425C>A	uc001vid.3	-	2	2171	c.1807G>T	c.(1807-1809)GAA>TAA	p.E603*	PCDH20_uc010thj.1_Nonsense_Mutation_p.E603*	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	576	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		CTGTACTTTTCTTTCTCTTCT	0.443													33	56					1.62565e-12	1.80183e-12	1	1	0		A	61986425	A	A	61986425	4	1	89	1	0	0	0	0	0	1	0	0	11534	922	32	5	1052	5	PCDH20	13	61986425	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	883331	61986425	53183453	4849	58680											
PCDH9	5101	broad.mit.edu	37	chr13	67800785	67800785	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctccagcatctgcatctgtCactgtgattacccccacagt	8	12	6	15	0	4	1	1	1	3	0	5	1	4	1	3	0	3	2	3	0	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:67800785C>T	uc001vik.2	-	2	2480	c.1788G>A	c.(1786-1788)GTG>GTA	p.V596V	PCDH9_uc001vil.2_Silent_p.V596V|PCDH9_uc010thl.1_Silent_p.V596V|PCDH9_uc001vin.3_Silent_p.V596V	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	596	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		CTGCATCTGTCACTGTGATTA	0.373													52	132					0	0	1	0	0		T	67800785	T	T	67800785	2	4	89	1	0	0	0	0	0	0	0	1	11537	813	29	4		4	PCDH9	13	67800785	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5814360	67800785	47369093	4850	58681											
PCDH9	5101	broad.mit.edu	37	chr13	67802424	67802424	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggcagcattgatgtgaGaaatgttcagatcctttggt	9	14	12	6	0	1	3	1	2	0	2	2	4	2	3	1	2	1	3	1	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:67802424G>T	uc001vik.2	-	2	841	c.149C>A	c.(148-150)TCT>TAT	p.S50Y	PCDH9_uc001vil.2_Missense_Mutation_p.S50Y|PCDH9_uc010thl.1_Missense_Mutation_p.S50Y|PCDH9_uc001vin.3_Missense_Mutation_p.S50Y	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	50	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		ATTGATGTGAGAAATGTTCAG	0.473													27	74					2.12542e-12	2.35257e-12	1	1	0		T	67802424	T	T	67802424	3	4	89	1	0	0	0	0	1	0	0	0	11537	942	33	5	3580	5	PCDH9	13	67802424	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1639	67802424	47367454	4851	58682											
DACH1	1602	broad.mit.edu	37	chr13	72204778	72204778	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggcttctaatttgatttTtttcaccttcattgcttcag	7	20	5	9	0	4	1	3	1	1	0	4	1	4	1	1	1	1	2	1	1	1	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:72204778T>G	uc010thn.1	-	4	1459	c.1036A>C	c.(1036-1038)AAA>CAA	p.K346Q	DACH1_uc010tho.1_Missense_Mutation_p.K346Q|DACH1_uc010thp.1_Intron	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	346	Interaction with SIX6 and HDAC3 (By similarity).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		AATTTGATTTTTTTCACCTTC	0.269													98	141					0	0	1	0	0		G	72204778	G	G	72204778	3	3	89	1	0	0	0	0	1	0	0	0	4223	1850	64	5	1120	5	DACH1	13	72204778	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4402354	72204778	42965100	4852	58683											
DACH1	1602	broad.mit.edu	37	chr13	72440841	72440841	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgccagaggaggaagcagAcgtggagattgggggttgag	10	6	21	4	1	0	4	0	1	0	3	0	7	0	6	1	6	2	2	1	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:72440841A>G	uc010thn.1	-	1	490	c.67T>C	c.(67-69)TCT>CCT	p.S23P	DACH1_uc010tho.1_Missense_Mutation_p.S23P|DACH1_uc010thp.1_Missense_Mutation_p.S23P	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	23					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		GAGGAAGCAGACGTGGAGATT	0.632													9	16					0	0	1	0	0		G	72440841	G	G	72440841	3	3	89	1	0	0	0	0	1	0	0	0	4223	275	10	3	2103	3	DACH1	13	72440841	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	236063	72440841	42729037	4853	58684											
DIS3	22894	broad.mit.edu	37	chr13	73347916	73347916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctggtttctatgcgaattCgagggattctcttatcagca	8	15	10	8	2	4	0	1	0	3	0	6	3	4	1	0	2	2	2	0	2	3	5	rs139907646	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:73347916C>T	uc001vix.3	-	8	1519	c.1145G>A	c.(1144-1146)CGA>CAA	p.R382Q	DIS3_uc001viy.3_Missense_Mutation_p.R352Q|DIS3_uc001viz.2_RNA	NM_014953	NP_055768	Q9Y2L1	RRP44_HUMAN	DIS3 mitotic control isoform a	382					CUT catabolic process|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA catabolic process|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|nucleoplasm	3'-5'-exoribonuclease activity|endonuclease activity|guanyl-nucleotide exchange factor activity|protein binding|RNA binding			central_nervous_system(1)	1		Breast(118;0.0074)|Acute lymphoblastic leukemia(28;0.0195)		GBM - Glioblastoma multiforme(99;0.000181)		TATGCGAATTCGAGGGATTCT	0.383										Multiple Myeloma(4;0.011)			24	60					0	0	1	0	0		T	73347916	T	T	73347916	3	4	89	1	0	0	0	0	1	0	0	0	4541	884	31	1	1787	1	DIS3	13	73347916	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	907075	73347916	41821962	4854	58685											
PIBF1	10464	broad.mit.edu	37	chr13	73547748	73547748	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacttaaataaagaaaagTcagctttactacagacgaag	19	8	7	7	1	1	2	1	0	0	2	1	3	1	2	0	0	4	2	0	0	10	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:73547748T>C	uc001vjc.2	+	16	2289	c.1984T>C	c.(1984-1986)TCA>CCA	p.S662P	PIBF1_uc001vjb.2_Missense_Mutation_p.S662P|PIBF1_uc010aep.2_Missense_Mutation_p.S121P	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	662						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		TAAAGAAAAGTCAGCTTTACT	0.244													35	67					0	0	1	0	0		C	73547748	C	C	73547748	3	2	89	1	0	0	0	0	1	0	0	0	11898	1667	58	3	2042	3	PIBF1	13	73547748	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	199832	73547748	41622130	4855	58686											
COMMD6	170622	broad.mit.edu	37	chr13	76104344	76104344	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcaacgtaaggatacttaAgagatctgcaagtgtctgag	13	10	11	7	1	2	2	0	1	2	1	2	4	2	3	0	1	4	3	0	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:76104344A>C	uc001vjo.1	-	3	163	c.113T>G	c.(112-114)CTT>CGT	p.L38R	COMMD6_uc001vjn.1_Missense_Mutation_p.L38R|COMMD6_uc010aet.1_RNA|COMMD6_uc001vjp.1_RNA	NM_203495	NP_987091	Q7Z4G1	COMD6_HUMAN	COMM domain containing 6 isoform b	38	COMM.					cytoplasm|nucleus	protein binding				0		Breast(118;0.0979)|Prostate(6;0.122)		GBM - Glioblastoma multiforme(99;0.0104)		AGGATACTTAAGAGATCTGCA	0.388													38	72					0	0	1	0	0		C	76104344	C	C	76104344	3	2	89	1	0	0	0	0	1	0	0	0	3723	72	3	5	195	5	COMMD6	13	76104344	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2556596	76104344	39065534	4856	58687											
LMO7	4008	broad.mit.edu	37	chr13	76393550	76393550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accttgcaaaatggaaagatCgtcgaaaaagttacacttca	17	9	7	8	2	1	1	1	0	0	1	3	3	1	2	1	1	2	2	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:76393550C>T	uc001vjv.2	+	10	2147	c.1387C>T	c.(1387-1389)CGT>TGT	p.R463C	LMO7_uc010thv.1_Missense_Mutation_p.R414C|LMO7_uc001vjt.1_Missense_Mutation_p.R362C|LMO7_uc010thw.1_Missense_Mutation_p.R313C|LMO7_uc001vjw.1_Missense_Mutation_p.R369C	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	748						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		ATGGAAAGATCGTCGAAAAAG	0.408													30	53					0	0	1	0	0		T	76393550	T	T	76393550	3	4	89	1	0	0	0	0	1	0	0	0	8872	884	31	1	2296	1	LMO7	13	76393550	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	289206	76393550	38776328	4857	58688											
MYCBP2	23077	broad.mit.edu	37	chr13	77751940	77751940	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctcctccatagacagaGaaaccaaccacaactattcc	15	6	3	17	0	0	2	0	0	0	2	3	3	3	2	7	0	3	0	7	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:77751940G>T	uc001vkf.2	-	36	5260	c.5169C>A	c.(5167-5169)TTC>TTA	p.F1723L	MYCBP2_uc010aev.2_Missense_Mutation_p.F1127L	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1723					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CATAGACAGAGAAACCAACCA	0.408													33	46					3.90053e-15	4.43362e-15	1	1	0		T	77751940	T	T	77751940	3	4	89	1	0	0	0	0	1	0	0	0	10036	933	33	5	8949	5	MYCBP2	13	77751940	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1358390	77751940	37417938	4858	58689											
MYCBP2	23077	broad.mit.edu	37	chr13	77817210	77817210	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctcttccttcctctaaTctgtgccttctgattacacg	6	17	4	14	1	4	1	0	1	4	0	6	1	6	1	4	0	3	0	4	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:77817210T>G	uc001vkf.2	-	18	2590	c.2499A>C	c.(2497-2499)AGA>AGC	p.R833S	MYCBP2_uc010aev.2_Missense_Mutation_p.R237S	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	833					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CTTCCTCTAATCTGTGCCTTC	0.423													28	67					0	0	1	0	0		G	77817210	G	G	77817210	3	3	89	1	0	0	0	0	1	0	0	0	10036	1432	50	5	11691	5	MYCBP2	13	77817210	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	65270	77817210	37352668	4859	58690											
SCEL	8796	broad.mit.edu	37	chr13	78178498	78178498	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttttcaaagaaaaaaaGaccttgatgggcttattaaa	16	13	6	6	0	1	3	1	1	0	2	2	3	2	3	2	1	0	1	2	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:78178498G>T	uc001vki.2	+	19	1275	c.1105G>T	c.(1105-1107)GAC>TAC	p.D369Y	SCEL_uc001vkj.2_Missense_Mutation_p.D349Y|SCEL_uc010thx.1_Intron	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	369	16 X approximate tandem repeats.|7.				embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		AAGAAAAAAAGACCTTGATGG	0.313													44	72					4.67007e-22	5.55902e-22	1	1	0		T	78178498	T	T	78178498	3	4	89	1	0	0	0	0	1	0	0	0	13913	942	33	5	1175	5	SCEL	13	78178498	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	361288	78178498	36991380	4860	58691											
SCEL	8796	broad.mit.edu	37	chr13	78188041	78188041	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttagcagtgaacaaggtCttgatgaacatattaatgtc	13	14	9	5	0	1	3	0	3	1	0	2	3	1	3	0	1	3	2	0	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:78188041C>A	uc001vki.2	+	24	1572	c.1402C>A	c.(1402-1404)CTT>ATT	p.L468I	SCEL_uc001vkj.2_Missense_Mutation_p.L448I|SCEL_uc010thx.1_Missense_Mutation_p.L426I	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	468	16 X approximate tandem repeats.|12.				embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		TGAACAAGGTCTTGATGAACA	0.353													33	76					2.47316e-13	2.76362e-13	1	1	0		A	78188041	A	A	78188041	3	1	89	1	0	0	0	0	1	0	0	0	13913	913	32	5	1492	5	SCEL	13	78188041	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9543	78188041	36981837	4861	58692											
EDNRB	1910	broad.mit.edu	37	chr13	78472431	78472431	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttttcctccaaggactgTttttcttcaaatgactggca	8	16	7	10	0	2	1	1	1	1	0	4	2	4	2	2	2	1	3	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:78472431T>C	uc001vko.2	-	7	1491	c.1233A>G	c.(1231-1233)AAA>AAG	p.K411K	EDNRB_uc001vkq.1_Silent_p.K411K|uc001vkn.1_Intron|EDNRB_uc010aez.1_Intron|EDNRB_uc001vkp.1_Silent_p.K494K	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	411	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	CCAAGGACTGTTTTTCTTCAA	0.393													18	43					0	0	1	0	0		C	78472431	C	C	78472431	2	2	89	1	0	0	0	0	0	0	0	1	4926	1722	60	3		3	EDNRB	13	78472431	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	284390	78472431	36697447	4862	58693											
SLITRK1	114798	broad.mit.edu	37	chr13	84453915	84453915	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtacagctgagggcagatCtcgtcattggagaggagcat	10	8	15	8	2	2	3	1	1	1	2	3	5	2	4	0	3	3	4	0	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:84453915C>A	uc001vlk.2	-	1	2614	c.1728G>T	c.(1726-1728)GAG>GAT	p.E576D		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	576	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GAGGGCAGATCTCGTCATTGG	0.547													16	27					1.15088e-07	1.20949e-07	1	1	0		A	84453915	A	A	84453915	3	1	89	1	0	0	0	0	1	0	0	0	14767	912	32	5	366	5	SLITRK1	13	84453915	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5981484	84453915	30715963	4863	58694			2	23	60538251	6	6	1595	N	T_G_C	3.190415e-05
SLITRK1	114798	broad.mit.edu	37	chr13	84453995	84453995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggtcgctcatcagcacttCggaacccaagcgttctgccc	8	8	10	15	3	3	0	2	0	1	0	5	2	3	1	2	2	4	3	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:84453995C>T	uc001vlk.2	-	1	2534	c.1648G>A	c.(1648-1650)GAA>AAA	p.E550K		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	550	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		ATCAGCACTTCGGAACCCAAG	0.532													6	42					0	0	1	0	0		T	84453995	T	T	84453995	3	4	89	1	0	0	0	0	1	0	0	0	14767	893	31	1	446	1	SLITRK1	13	84453995	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	80	84453995	30715883	4864	58695			2	23	60538251	6	6	1595	N	T_G_C	3.190415e-05
SLITRK1	114798	broad.mit.edu	37	chr13	84454115	84454115	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtccagcacccctgccaccgGgaggtacatgaagtaattgt	10	8	11	12	1	0	1	0	1	0	0	1	2	1	2	5	2	3	3	5	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:84454115G>T	uc001vlk.2	-	1	2414	c.1528C>A	c.(1528-1530)CCG>ACG	p.P510T		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	510	Extracellular (Potential).|LRR 12.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CCTGCCACCGGGAGGTACATG	0.547													20	42					4.96729e-08	5.24652e-08	1	1	0		T	84454115	T	T	84454115	3	4	89	1	0	0	0	0	1	0	0	0	14767	1232	43	5	566	5	SLITRK1	13	84454115	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	120	84454115	30715763	4865	58696			2	23	60538251	6	6	1595	N	T_G_C	3.190415e-05
SLITRK1	114798	broad.mit.edu	37	chr13	84454919	84454919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcagtctggtgggggcttCgcagaccactcggccgatca	6	8	14	13	3	2	1	1	0	1	1	4	2	2	1	2	4	1	3	2	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:84454919C>T	uc001vlk.2	-	1	1610	c.724G>A	c.(724-726)GAA>AAA	p.E242K		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	242	Extracellular (Potential).|LRRCT 1.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GTGGGGGCTTCGCAGACCACT	0.547													28	46					0	0	1	0	0		T	84454919	T	T	84454919	3	4	89	1	0	0	0	0	1	0	0	0	14767	893	31	1	1370	1	SLITRK1	13	84454919	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	804	84454919	30714959	4866	58697			2	23	60538251	6	6	1595	N	T_G_C	3.190415e-05
SLITRK1	114798	broad.mit.edu	37	chr13	84455355	84455355	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaaagcccccggaacgatTtcatgcaagccattgttttc	12	10	8	11	2	1	1	1	0	0	1	2	3	1	2	3	1	4	2	3	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:84455355T>G	uc001vlk.2	-	1	1174	c.288A>C	c.(286-288)GAA>GAC	p.E96D		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	96	Extracellular (Potential).|LRR 2.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CCGGAACGATTTCATGCAAGC	0.453													43	80					0	0	1	0	0		G	84455355	G	G	84455355	3	3	89	1	0	0	0	0	1	0	0	0	14767	1838	64	5	1806	5	SLITRK1	13	84455355	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	436	84455355	30714523	4867	58698			2	23	60538251	6	6	1595	N	T_G_C	3.190415e-05
SLITRK1	114798	broad.mit.edu	37	chr13	84455509	84455509	+	Frame_Shift_Del	DEL	T	-	-																															gctgcagacttgtgaagcccTttttttcacagtctacgtgt																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:84455509delT	uc001vlk.2	-	1	1020	c.134delA	c.(133-135)AAGfs	p.K45fs		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	45	LRRNT.|Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		TGTGAAGCCCTTTTTTTCACA	0.463													44	94	---	---	---	---						.	-	84455509	-	-	84455509	7	5	89	1	0	1	0	1	0	0	0	0	14767	1609	56	0	1960	0	SLITRK1	13	84455509	Frame_Shift_Del	DEL	T	TCGA-BR-8680-01A-11D-2394-08	154	84455509	30714369	4868	58699			2	23	60538251	6	6	1595	N	T_G_C	3.190415e-05
SLITRK5	26050	broad.mit.edu	37	chr13	88328019	88328019	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acattgagaccggggctttcCatgggctacggggtttgagg	7	10	16	8	2	0	2	0	2	0	1	1	3	1	2	2	6	1	3	2	6	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:88328019C>A	uc001vln.2	+	2	595	c.376C>A	c.(376-378)CAT>AAT	p.H126N	SLITRK5_uc010tic.1_Intron	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	126	LRR 2.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CGGGGCTTTCCATGGGCTACG	0.448													62	106					1.55088e-19	1.82331e-19	1	1	0		A	88328019	A	A	88328019	3	1	89	1	0	0	0	0	1	0	0	0	14771	594	21	5	378	5	SLITRK5	13	88328019	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3872510	88328019	26841859	4869	58700											
SLITRK5	26050	broad.mit.edu	37	chr13	88328996	88328996	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcgatgatccaggaccgCgctttcggggatctcaccaa	9	9	10	13	4	2	1	1	1	2	0	6	4	3	3	3	3	0	1	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:88328996C>T	uc001vln.2	+	2	1572	c.1353C>T	c.(1351-1353)CGC>CGT	p.R451R	SLITRK5_uc010tic.1_Silent_p.R210R	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	451	Extracellular (Potential).|LRR 8.					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					TCCAGGACCGCGCTTTCGGGG	0.597													25	49					0	0	1	0	0		T	88328996	T	T	88328996	2	4	89	1	0	0	0	0	0	0	0	1	14771	755	27	1		1	SLITRK5	13	88328996	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	977	88328996	26840882	4870	58701											
SLITRK5	26050	broad.mit.edu	37	chr13	88329437	88329437	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtaaggcgcccaaaaaattCgctgagaccgacatgcgctc	12	7	10	12	4	0	1	0	1	0	1	2	3	0	1	2	1	1	3	2	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:88329437C>T	uc001vln.2	+	2	2013	c.1794C>T	c.(1792-1794)TTC>TTT	p.F598F	SLITRK5_uc010tic.1_Silent_p.F357F	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	598	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CCAAAAAATTCGCTGAGACCG	0.547													50	136					0	0	1	0	0		T	88329437	T	T	88329437	2	4	89	1	0	0	0	0	0	0	0	1	14771	883	31	1		1	SLITRK5	13	88329437	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	441	88329437	26840441	4871	58702											
GPC6	10082	broad.mit.edu	37	chr13	94958302	94958302	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccgctcagctcctgaaaaTtttaatacacgtttcaggcc	10	11	7	13	2	2	1	2	1	0	0	3	1	3	1	3	1	2	3	3	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:94958302T>G	uc001vlt.2	+	6	1709	c.1077T>G	c.(1075-1077)AAT>AAG	p.N359K	GPC6_uc010tig.1_Missense_Mutation_p.N359K	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	359						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				CTCCTGAAAATTTTAATACAC	0.483													59	132					0	0	1	0	0		G	94958302	G	G	94958302	3	3	89	1	0	0	0	0	1	0	0	0	6617	1490	52	5	1099	5	GPC6	13	94958302	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6628865	94958302	20211576	4872	58703											
DCT	1638	broad.mit.edu	37	chr13	95114332	95114332	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagagacaggcaatctcgTatgtcttttaaggttggcaa	11	12	12	6	1	2	1	0	0	2	1	3	3	2	2	0	4	0	4	0	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:95114332T>C	uc001vlv.3	-	5	1402	c.975A>G	c.(973-975)ATA>ATG	p.I325M	DCT_uc010afh.2_Missense_Mutation_p.I325M	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	325	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		GGCAATCTCGTATGTCTTTTA	0.468													19	38					0	0	1	0	0		C	95114332	C	C	95114332	3	2	89	1	0	0	0	0	1	0	0	0	4307	1628	57	3	707	3	DCT	13	95114332	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	156030	95114332	20055546	4873	58704											
ABCC4	10257	broad.mit.edu	37	chr13	95840745	95840745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgaccacagctaacaattCgccaggtctgacagtaaagg	13	6	10	12	2	1	1	0	1	1	0	2	2	1	1	3	2	2	2	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:95840745C>T	uc001vmd.3	-	10	1434	c.1315G>A	c.(1315-1317)GAA>AAA	p.E439K	ABCC4_uc010afk.2_Missense_Mutation_p.E439K|ABCC4_uc001vme.2_Missense_Mutation_p.E439K|ABCC4_uc010tih.1_Missense_Mutation_p.E364K|ABCC4_uc001vmf.2_Missense_Mutation_p.E396K|ABCC4_uc010afl.1_Missense_Mutation_p.E396K|ABCC4_uc010afm.1_Missense_Mutation_p.E452K	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	439	ABC transporter 1.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	GCTAACAATTCGCCAGGTCTG	0.453													27	77					0	0	1	0	0		T	95840745	T	T	95840745	3	4	89	1	0	0	0	0	1	0	0	0	55	893	31	1	2799	1	ABCC4	13	95840745	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	726413	95840745	19329133	4874	58705											
CLDN10	9071	broad.mit.edu	37	chr13	96212483	96212483	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaatgaagtgtaccaaagtCggaggctccgataaagccaa	15	6	12	8	2	0	1	0	1	0	0	2	4	1	3	3	3	2	2	3	3	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:96212483C>T	uc001vmh.2	+	2	379	c.318C>T	c.(316-318)GTC>GTT	p.V106V	CLDN10_uc001vmg.2_Silent_p.V104V|CLDN10_uc010tii.1_Silent_p.V85V	NM_006984	NP_008915	P78369	CLD10_HUMAN	claudin 10 isoform b	106	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.18)			GTACCAAAGTCGGAGGCTCCG	0.423													40	60					0	0	1	0	0		T	96212483	T	T	96212483	2	4	89	1	0	0	0	0	0	0	0	1	3475	871	31	1		1	CLDN10	13	96212483	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	371738	96212483	18957395	4875	58706											
DZIP1	22873	broad.mit.edu	37	chr13	96293613	96293613	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatcatcttcttccggcgtTtgcactcttccttgagcgtc	5	15	8	13	3	4	2	1	1	3	1	7	2	6	2	2	1	2	2	2	1	0	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:96293613T>G	uc001vmk.2	-	5	1385	c.533A>C	c.(532-534)AAA>ACA	p.K178T	DZIP1_uc001vml.2_Missense_Mutation_p.K178T|DZIP1_uc001vmn.2_Missense_Mutation_p.K167T	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	178					germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			CTTCCGGCGTTTGCACTCTTC	0.582													26	25					0	0	1	0	0		G	96293613	G	G	96293613	3	3	89	1	0	0	0	0	1	0	0	0	4869	1841	64	5	2146	5	DZIP1	13	96293613	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	81130	96293613	18876265	4876	58707											
RNF113B	140432	broad.mit.edu	37	chr13	98828929	98828929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcaggctggtaatcccagcGcacagtggcgcgcagatgcc	8	6	14	13	3	1	1	1	0	0	1	2	1	2	1	2	3	2	4	2	3	1	1	rs114102979	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:98828929G>A	uc001vnk.2	-	1	593	c.562C>T	c.(562-564)CGC>TGC	p.R188C	FARP1_uc001vnh.2_Intron|FARP1_uc001vni.2_Intron|FARP1_uc001vnj.2_Intron	NM_178861	NP_849192	Q8IZP6	R113B_HUMAN	ring finger protein 113B	188							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.13)			TAATCCCAGCGCACAGTGGCG	0.602													35	52					0	0	1	0	0		A	98828929	A	A	98828929	3	1	89	1	0	0	0	0	1	0	0	0	13453	1087	38	1	414	1	RNF113B	13	98828929	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2535316	98828929	16340949	4877	58708											
STK24	8428	broad.mit.edu	37	chr13	99115970	99115970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaatcctcggagctcgagtCgtcatggctctgctcggcct	5	10	13	13	4	2	0	1	0	1	0	7	3	3	2	2	4	2	3	2	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:99115970C>T	uc001vnm.1	-	7	1175	c.940G>A	c.(940-942)GAC>AAC	p.D314N	STK24_uc001vnn.1_Missense_Mutation_p.D302N|STK24_uc010tim.1_Missense_Mutation_p.D283N	NM_003576	NP_003567	Q9Y6E0	STK24_HUMAN	serine/threonine kinase 24 isoform a	314					cellular component disassembly involved in apoptosis|signal transduction	cytosol|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			GAGCTCGAGTCGTCATGGCTC	0.527													22	42					0	0	1	0	0		T	99115970	T	T	99115970	3	4	89	1	0	0	0	0	1	0	0	0	15318	884	31	1	411	1	STK24	13	99115970	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	287041	99115970	16053908	4878	58709											
SLC15A1	6564	broad.mit.edu	37	chr13	99358407	99358407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgagacattgggccaagtGtcaccatctctccaggaaga	11	9	10	11	0	2	2	1	1	1	2	4	4	3	3	3	2	0	0	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:99358407G>A	uc001vno.2	-	16	1327	c.1250C>T	c.(1249-1251)ACA>ATA	p.T417I		NM_005073	NP_005064	P46059	S15A1_HUMAN	solute carrier family 15 (oligopeptide	417	Extracellular (Potential).				digestion|protein transport	integral to plasma membrane|membrane fraction	peptide:hydrogen symporter activity			ovary(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Cefadroxil(DB01140)|Ceftibuten(DB01415)|Cyclacillin(DB01000)	TGGGCCAAGTGTCACCATCTC	0.373													31	55					0	0	1	0	0		A	99358407	A	A	99358407	3	1	89	1	0	0	0	0	1	0	0	0	14423	1377	48	4	908	4	SLC15A1	13	99358407	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	242437	99358407	15811471	4879	58710											
DOCK9	23348	broad.mit.edu	37	chr13	99505740	99505740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtcaagtttatcacagcGaaccacggaatttcccaatg	12	10	8	11	2	2	0	2	0	0	0	3	2	3	1	2	2	2	1	2	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:99505740G>A	uc001vnt.2	-	35	3926	c.3871C>T	c.(3871-3873)CGC>TGC	p.R1291C	DOCK9_uc001vnw.2_Missense_Mutation_p.R1290C|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.R1291C|DOCK9_uc010tip.1_5'UTR|DOCK9_uc010tiq.1_Missense_Mutation_p.R269C	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1291					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TTATCACAGCGAACCACGGAA	0.373													95	150					0	0	1	0	0		A	99505740	A	A	99505740	3	1	89	1	0	0	0	0	1	0	0	0	4700	1058	37	1	2422	1	DOCK9	13	99505740	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	147333	99505740	15664138	4880	58711											
DOCK9	23348	broad.mit.edu	37	chr13	99532212	99532212	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgatcagtacatcaaagaaAaaccatgagtactaaaagaa	21	8	6	6	0	2	4	2	2	0	2	2	4	2	4	1	0	3	2	1	0	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:99532212A>C	uc001vnt.2	-	27	2941	c.2886T>G	c.(2884-2886)TTT>TTG	p.F962L	DOCK9_uc001vnw.2_Missense_Mutation_p.F961L|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.F962L|DOCK9_uc010tis.1_Missense_Mutation_p.F961L|DOCK9_uc010tit.1_Missense_Mutation_p.F962L|DOCK9_uc010afu.1_Missense_Mutation_p.F808L	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	962					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CATCAAAGAAAAACCATGAGT	0.259													23	39					0	0	1	0	0		C	99532212	C	C	99532212	3	2	89	1	0	0	0	0	1	0	0	0	4700	11	1	5	3504	5	DOCK9	13	99532212	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	26472	99532212	15637666	4881	58712											
TM9SF2	9375	broad.mit.edu	37	chr13	100191723	100191723	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaacatacccatatagataAaccagactgctcagggcccc	15	6	6	14	0	1	2	1	0	0	2	1	2	1	2	4	1	4	1	4	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:100191723A>C	uc001voj.1	+	7	873	c.740A>C	c.(739-741)AAA>ACA	p.K247T	TM9SF2_uc010afz.1_Intron	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor	247	Lumenal (Potential).				transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)					CATATAGATAAACCAGACTGC	0.398													48	132					0	0	1	0	0		C	100191723	C	C	100191723	3	2	89	1	0	0	0	0	1	0	0	0	16003	14	1	5	766	5	TM9SF2	13	100191723	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	659511	100191723	14978155	4882	58713											
TM9SF2	9375	broad.mit.edu	37	chr13	100201466	100201466	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttttattaacatcatttCtttgtcctgggtaagtgaat	10	19	7	5	0	2	1	1	1	1	0	3	1	3	1	1	1	1	2	1	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:100201466C>A	uc001voj.1	+	12	1451	c.1318C>A	c.(1318-1320)CTT>ATT	p.L440I	TM9SF2_uc010afz.1_Missense_Mutation_p.L275I	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor	440	Helical; (Potential).				transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)					AACATCATTTCTTTGTCCTGG	0.318													32	60					1.07637e-12	1.19625e-12	1	1	0		A	100201466	A	A	100201466	3	1	89	1	0	0	0	0	1	0	0	0	16003	913	32	5	1364	5	TM9SF2	13	100201466	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9743	100201466	14968412	4883	58714											
NALCN	259232	broad.mit.edu	37	chr13	101712261	101712261	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggttcagaaaccggctcAgctcttgctgctgactctct	6	11	11	13	2	4	2	2	1	2	1	5	2	4	2	1	2	4	5	1	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:101712261A>C	uc001vox.1	-	42	5003	c.4814T>G	c.(4813-4815)CTG>CGG	p.L1605R		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1605	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AAACCGGCTCAGCTCTTGCTG	0.527													29	37					0	0	1	0	0		C	101712261	C	C	101712261	3	2	89	1	0	0	0	0	1	0	0	0	10166	188	7	5	414	5	NALCN	13	101712261	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1510795	101712261	13457617	4884	58715											
NALCN	259232	broad.mit.edu	37	chr13	101735209	101735209	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgacattgttgccaaaggtAcggtcaccgggtcctcgacg	8	9	12	12	4	1	1	1	1	0	0	3	2	2	1	3	3	2	2	3	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:101735209A>G	uc001vox.1	-	33	3905	c.3716T>C	c.(3715-3717)GTA>GCA	p.V1239A		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1239	Helical; Name=S2 of repeat IV; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TGCCAAAGGTACGGTCACCGG	0.517													38	77					0	0	1	0	0		G	101735209	G	G	101735209	3	3	89	1	0	0	0	0	1	0	0	0	10166	391	14	3	1548	3	NALCN	13	101735209	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	22948	101735209	13434669	4885	58716											
NALCN	259232	broad.mit.edu	37	chr13	101742314	101742314	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaattaaagttccgaggattCgccctgcgattccaatacag	13	10	8	10	3	0	0	0	0	0	0	3	3	2	1	3	1	2	1	3	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:101742314C>T	uc001vox.1	-	29	3462	c.3273G>A	c.(3271-3273)GCG>GCA	p.A1091A		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1091	Extracellular (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TCCGAGGATTCGCCCTGCGAT	0.448													93	215					0	0	1	0	0		T	101742314	T	T	101742314	2	4	89	1	0	0	0	0	0	0	0	1	10166	871	31	1		1	NALCN	13	101742314	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7105	101742314	13427564	4886	58717											
NALCN	259232	broad.mit.edu	37	chr13	101755555	101755555	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaagccgctgaaaagttCtcgaacaactttcctcatct	11	12	6	12	2	3	2	1	2	2	0	5	3	4	2	2	0	3	2	2	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:101755555C>A	uc001vox.1	-	26	3214	c.3025G>T	c.(3025-3027)GAA>TAA	p.E1009*		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1009	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CTGAAAAGTTCTCGAACAACT	0.453													49	112					3.86361e-14	4.34762e-14	1	1	0		A	101755555	A	A	101755555	4	1	89	1	0	0	0	0	0	1	0	0	10166	922	32	5	2267	5	NALCN	13	101755555	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13241	101755555	13414323	4887	58718											
NALCN	259232	broad.mit.edu	37	chr13	101797193	101797193	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaaatttttcaaagattcGcaggcgtaaagggagctttt	12	13	11	5	2	1	1	1	0	0	1	2	3	1	3	0	3	1	3	0	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:101797193G>A	uc001vox.1	-	16	2083	c.1894C>T	c.(1894-1896)CGA>TGA	p.R632*	NALCN_uc001voy.2_Nonsense_Mutation_p.R347*	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	632	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TCAAAGATTCGCAGGCGTAAA	0.353													64	147					0	0	1	0	0		A	101797193	A	A	101797193	4	1	89	1	0	0	0	0	0	1	0	0	10166	1095	38	1	3438	1	NALCN	13	101797193	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	41638	101797193	13372685	4888	58719											
ITGBL1	9358	broad.mit.edu	37	chr13	102105271	102105271	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgttcctcaaagcttctcGccatctctgaggtaagtttg	7	14	9	11	1	3	1	1	1	2	0	6	1	4	1	2	1	1	5	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:102105271G>A	uc001vpb.2	+	1	306	c.87G>A	c.(85-87)TCG>TCA	p.S29S	ITGBL1_uc010agb.2_Silent_p.S29S|ITGBL1_uc001vpc.3_5'UTR	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	29					cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AAAGCTTCTCGCCATCTCTGA	0.547													7	93					0	0	1	0	0		A	102105271	A	A	102105271	2	1	89	1	0	0	0	0	0	0	0	1	7918	1074	38	1		1	ITGBL1	13	102105271	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	308078	102105271	13064607	4889	58720											
ITGBL1	9358	broad.mit.edu	37	chr13	102359183	102359183	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccaacatccgcggaagTgtaacatgacggaagaacaa	15	6	10	10	3	1	2	0	1	1	1	2	4	2	4	2	2	4	1	2	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:102359183T>G	uc001vpb.2	+	9	1429	c.1210T>G	c.(1210-1212)TGT>GGT	p.C404G	ITGBL1_uc010agb.2_Missense_Mutation_p.C355G|ITGBL1_uc001vpc.3_Missense_Mutation_p.C263G	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	404	VIII.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TCCGCGGAAGTGTAACATGAC	0.517													43	71					0	0	1	0	0		G	102359183	G	G	102359183	3	3	89	1	0	0	0	0	1	0	0	0	7918	1696	59	5	1244	5	ITGBL1	13	102359183	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	253912	102359183	12810695	4890	58721											
TPP2	7174	broad.mit.edu	37	chr13	103295587	103295587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttagaagtgacagtgtgttCgtgttcttctgaggtgtcag	7	16	13	5	1	3	3	1	2	2	1	4	3	3	3	0	1	0	2	0	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:103295587C>T	uc001vpi.3	+	17	2139	c.2036C>T	c.(2035-2037)TCG>TTG	p.S679L		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	679					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					ACAGTGTGTTCGTGTTCTTCT	0.363													15	31					0	0	1	0	0		T	103295587	T	T	103295587	3	4	89	1	0	0	0	0	1	0	0	0	16438	893	31	1	2102	1	TPP2	13	103295587	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	936404	103295587	11874291	4891	58722											
ERCC5	2073	broad.mit.edu	37	chr13	103459815	103459815	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcatacacgggaaaaaatTtatgccatctgttcggacta	14	11	7	9	2	2	0	1	0	1	0	3	2	2	2	1	2	2	1	1	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:103459815T>G	uc001vpu.1	+	1	320	c.198T>G	c.(196-198)ATT>ATG	p.I66M	BIVM_uc001vps.2_Missense_Mutation_p.I66M|BIVM_uc010agc.2_Intron|BIVM_uc001vpt.2_Missense_Mutation_p.I66M	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	Error:Variant_position_missing_in_P28715_after_alignment					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					GGGAAAAAATTTATGCCATCT	0.468			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				40	75					0	0	1	0	0		G	103459815	G	G	103459815	3	3	89	1	0	0	0	0	1	0	0	0	5224	1829	64	5		5	ERCC5	13	103459815	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	164228	103459815	11710063	4892	58723											
ERCC5	2073	broad.mit.edu	37	chr13	103506186	103506186	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttctgaaaacatttttgaAaagacaagccatcaaaactg	17	10	6	8	0	2	3	1	2	1	1	2	3	2	3	1	0	3	1	1	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:103506186A>G	uc001vpw.2	+	3	787	c.344A>G	c.(343-345)AAA>AGA	p.K115R	ERCC5_uc001vpu.1_Missense_Mutation_p.K569R|ERCC5_uc010tjb.1_Missense_Mutation_p.K115R|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Intron	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	115					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					ACATTTTTGAAAAGACAAGCC	0.373			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				18	32					0	0	1	0	0		G	103506186	G	G	103506186	3	3	89	1	0	0	0	0	1	0	0	0	5224	14	1	3	354	3	ERCC5	13	103506186	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	46371	103506186	11663692	4893	58724											
ERCC5	2073	broad.mit.edu	37	chr13	103508441	103508441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagaatggcaagaaagaatGaatcaaaaacaagcattaca	24	5	7	5	0	1	4	1	1	0	3	1	4	1	4	0	1	3	2	0	1	10	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:103508441G>A	uc001vpw.2	+	5	950	c.507G>A	c.(505-507)ATG>ATA	p.M169I	ERCC5_uc001vpu.1_Missense_Mutation_p.M623I|ERCC5_uc010tjb.1_Missense_Mutation_p.M169I|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Missense_Mutation_p.M1I	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	169					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AAGAAAGAATGAATCAAAAAC	0.279			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				31	58					0	0	1	0	0		A	103508441	A	A	103508441	3	1	89	1	0	0	0	0	1	0	0	0	5224	1290	45	4	525	4	ERCC5	13	103508441	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2255	103508441	11661437	4894	58725											
ERCC5	2073	broad.mit.edu	37	chr13	103513933	103513933	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccagcatatagaacatgTccaaaaggaaatgaatcagc	19	6	8	8	0	1	2	1	1	0	1	2	4	2	3	2	1	4	1	2	1	8	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:103513933T>C	uc001vpw.2	+	7	1192	c.749T>C	c.(748-750)GTC>GCC	p.V250A	ERCC5_uc001vpu.1_Missense_Mutation_p.V704A|ERCC5_uc010tjb.1_Missense_Mutation_p.V250A|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Missense_Mutation_p.V82A	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	250					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					ATAGAACATGTCCAAAAGGAA	0.408			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				28	87					0	0	1	0	0		C	103513933	C	C	103513933	3	2	89	1	0	0	0	0	1	0	0	0	5224	1667	58	3	775	3	ERCC5	13	103513933	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	5492	103513933	11655945	4895	58726											
ERCC5	2073	broad.mit.edu	37	chr13	103524621	103524621	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaccaaagtgaaaaaaaaaTtacggacattgcaactcacc	20	6	5	10	1	1	1	1	1	0	0	1	2	1	2	2	1	3	1	2	1	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:103524621T>A	uc001vpw.2	+	13	3195	c.2752T>A	c.(2752-2754)TTA>ATA	p.L918I	ERCC5_uc001vpu.1_Missense_Mutation_p.L1372I|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Missense_Mutation_p.L750I	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	918					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					GAAAAAAAAATTACGGACATT	0.438			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				20	44					0	0	1	0	0		A	103524621	A	A	103524621	3	1	89	1	0	0	0	0	1	0	0	0	5224	1490	52	5	2802	5	ERCC5	13	103524621	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	10688	103524621	11645257	4896	58727											
DAOA	267012	broad.mit.edu	37	chr13	106124904	106124904	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaaggagacagaagaaGgaagagagacggtaacaagg	20	1	15	5	1	0	5	0	0	0	5	0	8	0	6	0	4	2	2	0	4	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:106124904G>T	uc001vqb.2	+	3	425	c.151G>T	c.(151-153)GGA>TGA	p.G51*	DAOA_uc010tjf.1_Translation_Start_Site|DAOA_uc001vpz.2_RNA|DAOA_uc010agd.2_RNA|DAOA_uc010tjg.1_Translation_Start_Site|DAOA_uc001vqc.2_RNA|DAOA_uc001vqe.2_RNA	NM_172370	NP_758958	P59103	DAOA_HUMAN	D-amino acid oxidase activator isoform 1	51						Golgi apparatus					0	Lung NSC(43;0.01)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					GACAGAAGAAGGAAGAGAGAC	0.383													16	46					6.94344e-10	7.49515e-10	1	1	0		T	106124904	T	T	106124904	4	4	89	1	0	0	0	0	0	1	0	0	4235	1001	35	5	161	5	DAOA	13	106124904	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2600283	106124904	9044974	4897	58728											
ARGLU1	55082	broad.mit.edu	37	chr13	107196385	107196385	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggacagttttggcctggActtccccttgcccaggataa	9	10	11	11	0	0	0	0	0	0	0	1	4	1	3	4	4	1	1	4	4	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:107196385A>G	uc001vqk.3	-	4	1028	c.781T>C	c.(781-783)TCC>CCC	p.S261P		NM_018011	NP_060481	Q9NWB6	ARGL1_HUMAN	arginine and glutamate rich 1	261											0	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					TTTGGCCTGGACTTCCCCTTG	0.284													8	31					0	0	1	0	0		G	107196385	G	G	107196385	3	3	89	1	0	0	0	0	1	0	0	0	860	275	10	3	44	3	ARGLU1	13	107196385	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1071481	107196385	7973493	4898	58729											
FAM155A	728215	broad.mit.edu	37	chr13	107863091	107863091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactgggaacagagccaggCtttgtagacaatctgaaaaa	16	8	10	7	0	1	3	0	1	1	2	1	4	1	4	1	2	3	2	1	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:107863091C>T	uc001vql.2	-	2	1444	c.928G>A	c.(928-930)GCC>ACC	p.A310T		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	310						integral to membrane	binding			skin(1)	1						CAGAGCCAGGCTTTGTAGACA	0.428											OREG0022506	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	47					0	0	1	0	0		T	107863091	T	T	107863091	3	4	89	1	0	0	0	0	1	0	0	0	5476	797	28	2	456	2	FAM155A	13	107863091	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	666706	107863091	7306787	4899	58730											
TNFSF13B	10673	broad.mit.edu	37	chr13	108955863	108955863	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaggaagaaggtccatgTctttggggatgaattgagtc	11	11	14	5	0	2	4	1	2	1	2	4	6	3	6	1	4	0	0	1	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:108955863T>C	uc001vqr.2	+	5	923	c.656T>C	c.(655-657)GTC>GCC	p.V219A	TNFSF13B_uc010agj.2_Missense_Mutation_p.V200A	NM_006573	NP_006564	Q9Y275	TN13B_HUMAN	tumor necrosis factor superfamily, member 13b	219	Extracellular (Potential).				cell proliferation|immune response|signal transduction	extracellular space|integral to membrane|plasma membrane|soluble fraction	cytokine activity|tumor necrosis factor receptor binding				0	all_lung(23;0.000396)|all_neural(89;0.00256)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00902)|Lung SC(71;0.104)		all cancers(43;0.184)|BRCA - Breast invasive adenocarcinoma(86;0.19)			AAGGTCCATGTCTTTGGGGAT	0.373													42	91					0	0	1	0	0		C	108955863	C	C	108955863	3	2	89	1	0	0	0	0	1	0	0	0	16331	1667	58	3	674	3	TNFSF13B	13	108955863	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1092772	108955863	6214015	4900	58731											
MYO16	23026	broad.mit.edu	37	chr13	109753197	109753197	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcagctgccgagcgatgtCgacttgttctccagcagtgt	7	11	12	11	3	2	0	1	0	1	0	4	3	2	0	2	0	4	3	2	0	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:109753197C>T	uc001vqt.1	+	28	3460	c.3334C>T	c.(3334-3336)CGA>TGA	p.R1112*	MYO16_uc010agk.1_Nonsense_Mutation_p.R1134*|MYO16_uc010tjh.1_Nonsense_Mutation_p.R624*	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1112	Myosin head-like 2.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			CGAGCGATGTCGACTTGTTCT	0.438													17	48					0	0	1	0	0		T	109753197	T	T	109753197	4	4	89	1	0	0	0	0	0	1	0	0	10082	876	31	1	3440	1	MYO16	13	109753197	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	797334	109753197	5416681	4901	58732											
COL4A1	1282	broad.mit.edu	37	chr13	110831355	110831355	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctggagaccccacggaGcctggcaatccaggaggtcc	9	5	12	15	1	0	1	0	0	0	1	3	4	3	3	6	5	1	1	6	5	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:110831355G>A	uc001vqw.3	-	31	2495	c.2373C>T	c.(2371-2373)GGC>GGT	p.G791G	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	791	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			ACCCCACGGAGCCTGGCAATC	0.607													6	15					0	0	1	0	0		A	110831355	A	A	110831355	2	1	89	1	0	0	0	0	0	0	0	1	3692	958	34	2		2	COL4A1	13	110831355	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1078158	110831355	4338523	4902	58733											
CARS2	79587	broad.mit.edu	37	chr13	111335429	111335429	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actggaccagggaccacgccGaccaatttgccatacttgtc	10	8	9	14	2	0	0	0	0	0	0	1	3	0	2	5	2	2	0	5	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:111335429G>A	uc001vrd.2	-	6	664	c.624C>T	c.(622-624)GTC>GTT	p.V208V	CARS2_uc010tjm.1_RNA	NM_024537	NP_078813	Q9HA77	SYCM_HUMAN	cysteinyl-tRNA synthetase 2, mitochondrial	208				LVGVVPGPVGEPADSDK -> IGRRGPWSSPETSGLLTS (in Ref. 4; BAB93499).	cysteinyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|cysteine-tRNA ligase activity|metal ion binding				0	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.163)		L-Cysteine(DB00151)	GGACCACGCCGACCAATTTGC	0.527													31	66					0	0	1	0	0		A	111335429	A	A	111335429	2	1	89	1	0	0	0	0	0	0	0	1	2661	1045	37	1		1	CARS2	13	111335429	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	504074	111335429	3834449	4903	58734											
CARS2	79587	broad.mit.edu	37	chr13	111340140	111340140	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattatctgaggaatattttCggttaccctcaggtacaccg	11	13	8	9	2	2	1	1	1	1	0	3	2	2	2	2	3	2	2	2	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:111340140C>T	uc001vrd.2	-	5	539	c.499G>A	c.(499-501)GAA>AAA	p.E167K	CARS2_uc010tjm.1_RNA	NM_024537	NP_078813	Q9HA77	SYCM_HUMAN	cysteinyl-tRNA synthetase 2, mitochondrial	167					cysteinyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|cysteine-tRNA ligase activity|metal ion binding				0	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.163)		L-Cysteine(DB00151)	GGAATATTTTCGGTTACCCTC	0.453													77	139					0	0	1	0	0		T	111340140	T	T	111340140	3	4	89	1	0	0	0	0	1	0	0	0	2661	893	31	1	1239	1	CARS2	13	111340140	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4711	111340140	3829738	4904	58735											
ING1	3621	broad.mit.edu	37	chr13	111372025	111372025	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctccaaggccaaggcggagCgagaggcgtcccctgccgac	8	3	15	15	4	0	1	0	0	0	1	2	4	2	2	5	4	2	1	5	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:111372025C>T	uc001vri.2	+	2	1447	c.1015C>T	c.(1015-1017)CGA>TGA	p.R339*	ING1_uc001vrf.2_Nonsense_Mutation_p.R152*|ING1_uc001vrg.2_Nonsense_Mutation_p.R127*|ING1_uc001vrh.2_Nonsense_Mutation_p.R196*	NM_005537	NP_005528	Q9UK53	ING1_HUMAN	inhibitor of growth family, member 1 isoform D	339					cell cycle|negative regulation of cell growth|negative regulation of cell proliferation	nucleus	zinc ion binding			ovary(1)	1	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.188)			CAAGGCGGAGCGAGAGGCGTC	0.627													20	44					0	0	1	0	0		T	111372025	T	T	111372025	4	4	89	1	0	0	0	0	0	1	0	0	7751	760	27	1	1169	1	ING1	13	111372025	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	31885	111372025	3797853	4905	58736											
ANKRD10	55608	broad.mit.edu	37	chr13	111532320	111532320	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggggctaatccactgctAattccgttagttcctgtcaa	8	13	8	12	1	1	0	1	0	0	0	4	0	4	0	4	2	1	4	4	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:111532320A>G	uc001vrn.2	-	6	1062	c.927T>C	c.(925-927)ATT>ATC	p.I309I	ANKRD10_uc001vrm.2_Silent_p.I46I|ANKRD10_uc001vrl.2_RNA	NM_017664	NP_060134	Q9NXR5	ANR10_HUMAN	ankyrin repeat domain 10	309										central_nervous_system(1)	1	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		all cancers(43;0.0882)|BRCA - Breast invasive adenocarcinoma(86;0.188)|Lung(89;0.208)			ATCCACTGCTAATTCCGTTAG	0.542													49	53					0	0	1	0	0		G	111532320	G	G	111532320	2	3	89	1	0	0	0	0	0	0	0	1	638	358	13	3		3	ANKRD10	13	111532320	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	160295	111532320	3637558	4906	58737											
ANKRD10	55608	broad.mit.edu	37	chr13	111532435	111532435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccatttgtcaatgtattcGatacggagctactgtttttc	9	17	7	8	2	1	0	1	0	0	0	4	2	2	1	1	1	3	3	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:111532435G>A	uc001vrn.2	-	6	947	c.812C>T	c.(811-813)TCG>TTG	p.S271L	ANKRD10_uc001vrm.2_Missense_Mutation_p.S8L|ANKRD10_uc001vrl.2_RNA	NM_017664	NP_060134	Q9NXR5	ANR10_HUMAN	ankyrin repeat domain 10	271										central_nervous_system(1)	1	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		all cancers(43;0.0882)|BRCA - Breast invasive adenocarcinoma(86;0.188)|Lung(89;0.208)			CAATGTATTCGATACGGAGCT	0.443													16	35					0	0	1	0	0		A	111532435	A	A	111532435	3	1	89	1	0	0	0	0	1	0	0	0	638	1059	37	1	454	1	ANKRD10	13	111532435	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	115	111532435	3637443	4907	58738											
ARHGEF7	8874	broad.mit.edu	37	chr13	111935539	111935539	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgcagacagcaagcccgcGccgctgacgcccgcctacca	9	2	10	20	6	0	2	0	1	0	1	0	2	0	2	5	0	3	3	5	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:111935539G>A	uc001vrs.2	+	17	2092	c.1842G>A	c.(1840-1842)GCG>GCA	p.A614A	ARHGEF7_uc001vrr.2_Silent_p.A593A|ARHGEF7_uc001vrt.2_Silent_p.A564A|ARHGEF7_uc010tjn.1_RNA|ARHGEF7_uc001vru.1_Silent_p.A436A|ARHGEF7_uc001vrv.3_Silent_p.A436A|ARHGEF7_uc001vrw.3_Silent_p.A436A|ARHGEF7_uc001vrx.3_Silent_p.A436A|ARHGEF7_uc010tjo.1_Silent_p.A511A|ARHGEF7_uc010tjp.1_Silent_p.A358A|ARHGEF7_uc001vry.1_Silent_p.A30A|uc001vrz.1_5'Flank	NM_001113511	NP_001106983	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform c	614					apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			GCAAGCCCGCGCCGCTGACGC	0.682													6	4					0	0	1	0	0		A	111935539	A	A	111935539	2	1	89	1	0	0	0	0	0	0	0	1	911	1074	38	1		1	ARHGEF7	13	111935539	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	403104	111935539	3234339	4908	58739											
TUBGCP3	10426	broad.mit.edu	37	chr13	113170831	113170831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtattccatccgcttcGccctccagaggaagttaaat	10	11	9	11	2	0	1	0	0	0	1	4	3	3	3	4	2	0	3	4	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:113170831G>A	uc001vse.1	-	17	2196	c.2009C>T	c.(2008-2010)GCG>GTG	p.A670V	TUBGCP3_uc010tjq.1_Missense_Mutation_p.A660V|TUBGCP3_uc001vsf.2_Missense_Mutation_p.A670V	NM_006322	NP_006313	Q96CW5	GCP3_HUMAN	tubulin, gamma complex associated protein 3	670					G2/M transition of mitotic cell cycle|microtubule nucleation|single fertilization	centriole|cytosol|polar microtubule	gamma-tubulin binding|structural constituent of cytoskeleton			central_nervous_system(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)					CATCCGCTTCGCCCTCCAGAG	0.493													18	42					0	0	1	0	0		A	113170831	A	A	113170831	3	1	89	1	0	0	0	0	1	0	0	0	16793	1087	38	1	738	1	TUBGCP3	13	113170831	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1235292	113170831	1999047	4909	58740											
ATP11A	23250	broad.mit.edu	37	chr13	113512583	113512583	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacattaggatctctgagctCgtgcagtacttcttctataa	10	15	7	9	1	3	1	0	1	3	0	5	2	3	2	0	1	4	3	0	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:113512583C>T	uc001vsi.3	+	22	2734	c.2646C>T	c.(2644-2646)CTC>CTT	p.L882L	ATP11A_uc001vsj.3_Silent_p.L882L|ATP11A_uc001vsm.1_Silent_p.L758L|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	882	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				TCTCTGAGCTCGTGCAGTACT	0.507													22	41					0	0	1	0	0		T	113512583	T	T	113512583	2	4	89	1	0	0	0	0	0	0	0	1	1120	871	31	1		1	ATP11A	13	113512583	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	341752	113512583	1657295	4910	58741											
ATP11A	23250	broad.mit.edu	37	chr13	113527971	113527971	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacgttgtcttttcgcttCtctggggaggagtgatctgg	4	16	13	8	2	4	1	0	1	4	0	6	3	4	3	0	4	1	2	0	4	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:113527971C>A	uc001vsi.3	+	27	3230	c.3142C>A	c.(3142-3144)CTC>ATC	p.L1048I	ATP11A_uc001vsj.3_Missense_Mutation_p.L1048I|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	1048	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				CTTTTCGCTTCTCTGGGGAGG	0.383											OREG0003854	type=REGULATORY REGION|Gene=ATP11A|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	16	30					1.15088e-07	1.20949e-07	1	1	0		A	113527971	A	A	113527971	3	1	89	1	0	0	0	0	1	0	0	0	1120	913	32	5	3248	5	ATP11A	13	113527971	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	15388	113527971	1641907	4911	58742											
F7	2155	broad.mit.edu	37	chr13	113772894	113772894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtgcccctctgcctgcccGaacggacgttctctgagagg	5	9	13	14	3	2	1	0	1	2	1	3	4	2	2	4	3	4	1	4	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:113772894G>A	uc001vsv.2	+	9	1024	c.973G>A	c.(973-975)GAA>AAA	p.E325K	F7_uc001vsw.2_Missense_Mutation_p.E303K|F7_uc010tjt.1_Missense_Mutation_p.E256K	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	325	Peptidase S1.		E -> K (in FA7D).		anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	CTGCCTGCCCGAACGGACGTT	0.677													29	41					0	0	1	0	0		A	113772894	A	A	113772894	3	1	89	1	0	0	0	0	1	0	0	0	5357	1059	37	1	1007	1	F7	13	113772894	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	244923	113772894	1396984	4912	58743											
FAM70B	348013	broad.mit.edu	37	chr13	114469097	114469097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccccacagaagggctttCgaggaggaagaagacgtcgc	11	5	13	12	3	0	3	0	0	0	3	3	6	1	5	3	3	0	1	3	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:114469097C>T	uc001vuh.2	+	2	83	c.56C>T	c.(55-57)TCG>TTG	p.S19L	FAM70B_uc010tkh.1_Missense_Mutation_p.S19L	NM_182614	NP_872420	Q8WV15	FA70B_HUMAN	family with sequence similarity 70, member B	19						integral to membrane					0	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.123)|all_epithelial(44;0.133)	all cancers(43;0.181)			GAAGGGCTTTCGAGGAGGAAG	0.637													44	74					0	0	1	0	0		T	114469097	T	T	114469097	3	4	89	1	0	0	0	0	1	0	0	0	5620	893	31	1	62	1	FAM70B	13	114469097	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	696203	114469097	700781	4913	58744											
CDC16	8881	broad.mit.edu	37	chr13	115030682	115030682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatgcttggtcattgcatcGaaatgtacattggtgattct	10	15	9	7	1	2	1	1	1	1	0	3	2	2	1	0	2	3	3	0	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:115030682G>A	uc001vuk.1	+	17	1768	c.1570G>A	c.(1570-1572)GAA>AAA	p.E524K	CDC16_uc001vul.1_Missense_Mutation_p.E524K|CDC16_uc001vum.1_Missense_Mutation_p.E430K|CDC16_uc001vun.1_Missense_Mutation_p.E523K|CDC16_uc001vuo.1_Missense_Mutation_p.E472K	NM_003903	NP_003894	Q13042	CDC16_HUMAN	anaphase-promoting complex, subunit 6	524					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cell proliferation|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	binding				0	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)			TCATTGCATCGAAATGTACAT	0.333													52	98					0	0	1	0	0		A	115030682	A	A	115030682	3	1	89	1	0	0	0	0	1	0	0	0	3061	1059	37	1	1636	1	CDC16	13	115030682	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	561585	115030682	139196	4914	58745											
UPF3A	65110	broad.mit.edu	37	chr13	115070354	115070354	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctgcaaggcagaaggtTcggggactggtcctgagaag	10	7	17	7	1	1	2	0	1	1	2	3	5	2	4	1	6	1	3	1	6	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr13:115070354T>G	uc001vup.2	+	10	1430	c.1393T>G	c.(1393-1395)TCG>GCG	p.S465A	UPF3A_uc001vuq.2_Missense_Mutation_p.S432A|UPF3A_uc001vus.2_RNA|UPF3A_uc001vur.2_RNA|UPF3A_uc001vut.2_Missense_Mutation_p.S264A|UPF3A_uc001vuu.2_Silent_p.V118V	NM_023011	NP_075387	Q9H1J1	REN3A_HUMAN	UPF3 regulator of nonsense transcripts homolog A	465					mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation	cytoplasm|nucleus|plasma membrane	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			skin(1)	1	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)	OV - Ovarian serous cystadenocarcinoma(48;0.195)|Epithelial(10;0.2)		GGCAGAAGGTTCGGGGACTGG	0.597													22	36					0	0	1	0	0		G	115070354	G	G	115070354	3	3	89	1	0	0	0	0	1	0	0	0	17031	1783	62	5	1431	5	UPF3A	13	115070354	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	39672	115070354	99524	4915	58746											
OR4Q3	441669	broad.mit.edu	37	chr14	20215602	20215602	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgatgaaaaaagaacaaGattctaatgtgacagaattt	18	11	8	4	0	1	6	0	3	1	3	1	6	1	6	0	0	1	1	0	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:20215602G>T	uc010tkt.1	+	1	16	c.16G>T	c.(16-18)GAT>TAT	p.D6Y		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AAAAGAACAAGATTCTAATGT	0.318													27	52					5.77227e-19	6.76681e-19	1	1	0		T	20215602	T	T	20215602	3	4	89	1	0	0	0	0	1	0	0	0	11100	942	33	5	18	5	OR4Q3	14	20215602	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08		20215602	87133938	4916	58747											
OR4K2	390431	broad.mit.edu	37	chr14	20344641	20344641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctttcaatcattgatatgtCtcttgcttctttcgccaccc	6	18	4	13	1	5	1	2	1	3	0	7	1	5	1	2	0	1	1	2	0	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:20344641C>T	uc001vwh.1	+	1	215	c.215C>T	c.(214-216)TCT>TTT	p.S72F		NM_001005501	NP_001005501	Q8NGD2	OR4K2_HUMAN	olfactory receptor, family 4, subfamily K,	72	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATTGATATGTCTCTTGCTTCT	0.423													96	180					0	0	1	0	0		T	20344641	T	T	20344641	3	4	89	1	0	0	0	0	1	0	0	0	11091	913	32	4	217	4	OR4K2	14	20344641	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	129039	20344641	87004899	4917	58748											
OR4K5	79317	broad.mit.edu	37	chr14	20388847	20388847	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaactccagcttttctatTtttgtttcttctctgtgttg	7	21	5	8	0	3	0	0	0	3	0	5	0	4	0	1	0	2	3	1	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:20388847T>C	uc010tkw.1	+	1	82	c.82T>C	c.(82-84)TTT>CTT	p.F28L		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	28	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GCTTTTCTATTTTTGTTTCTT	0.408													41	86					0	0	1	0	0		C	20388847	C	C	20388847	3	2	89	1	0	0	0	0	1	0	0	0	11092	1841	64	3	84	3	OR4K5	14	20388847	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	44206	20388847	86960693	4918	58749											
OR4K1	79544	broad.mit.edu	37	chr14	20403995	20403995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttgactcccatttgaactCtcctatgtacttcttgctca	7	18	4	12	0	3	2	1	2	2	0	5	2	4	2	2	0	3	2	2	0	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:20403995C>T	uc001vwj.1	+	1	170	c.170C>T	c.(169-171)TCT>TTT	p.S57F		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	57	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		CATTTGAACTCTCCTATGTAC	0.363													61	146					0	0	1	0	0		T	20403995	T	T	20403995	3	4	89	1	0	0	0	0	1	0	0	0	11086	913	32	4	172	4	OR4K1	14	20403995	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	15148	20403995	86945545	4919	58750											
OR4K15	81127	broad.mit.edu	37	chr14	20444053	20444053	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcctgcctggcccagattTtctttgttcatctcttcact	5	17	6	13	0	4	1	2	0	2	1	5	1	4	1	3	1	2	1	3	1	0	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:20444053T>A	uc010tkx.1	+	1	376	c.376T>A	c.(376-378)TTC>ATC	p.F126I		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	126	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.F126Y(1)		ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GGCCCAGATTTTCTTTGTTCA	0.438													66	126					0	0	1	0	0		A	20444053	A	A	20444053	3	1	89	1	0	0	0	0	1	0	0	0	11089	1841	64	5	378	5	OR4K15	14	20444053	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	40058	20444053	86905487	4920	58751											
OR4K17	390436	broad.mit.edu	37	chr14	20586157	20586157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taccatttgctgtgaacttgCccttttgtggtcccaatgtg	6	16	9	10	0	0	1	0	1	0	0	1	1	1	1	3	1	4	1	3	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:20586157C>T	uc001vwo.1	+	1	592	c.592C>T	c.(592-594)CCC>TCC	p.P198S		NM_001004715	NP_001004715	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		TGTGAACTTGCCCTTTTGTGG	0.428													63	119					0	0	1	0	0		T	20586157	T	T	20586157	3	4	89	1	0	0	0	0	1	0	0	0	11090	739	26	2	594	2	OR4K17	14	20586157	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	142104	20586157	86763383	4921	58752											
OR11H6	122748	broad.mit.edu	37	chr14	20692668	20692668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcccacctaatggtggtgtCtctattctatggaaccctta	8	14	8	11	0	2	0	0	0	2	0	4	1	3	1	3	3	1	0	3	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:20692668C>T	uc010tlc.1	+	1	800	c.800C>T	c.(799-801)TCT>TTT	p.S267F		NM_001004480	NP_001004480	Q8NGC7	O11H6_HUMAN	olfactory receptor, family 11, subfamily H,	267	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(95;0.00108)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0143)		ATGGTGGTGTCTCTATTCTAT	0.478													35	62					0	0	1	0	0		T	20692668	T	T	20692668	3	4	89	1	0	0	0	0	1	0	0	0	10948	913	32	4	802	4	OR11H6	14	20692668	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	106511	20692668	86656872	4922	58753											
TTC5	91875	broad.mit.edu	37	chr14	20767028	20767028	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagagaagtaaagggaaagAtatgaattcccaagaatatc	19	8	10	4	0	0	4	0	1	0	3	2	6	1	5	1	1	0	2	1	1	10	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:20767028A>G	uc001vwt.2	-	5	624	c.567T>C	c.(565-567)TAT>TAC	p.Y189Y	TTC5_uc001vwu.2_Silent_p.Y46Y	NM_138376	NP_612385	Q8N0Z6	TTC5_HUMAN	tetratricopeptide repeat domain 5	189	TPR 3.				DNA repair	cytoplasm|nucleus	binding			ovary(1)	1	all_cancers(95;0.00092)		Epithelial(56;1.1e-06)|all cancers(55;8.07e-06)	GBM - Glioblastoma multiforme(265;0.0106)		AAAGGGAAAGATATGAATTCC	0.408													18	37					0	0	1	0	0		G	20767028	G	G	20767028	2	3	89	1	0	0	0	0	0	0	0	1	16737	340	12	3		3	TTC5	14	20767028	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	74360	20767028	86582512	4923	58754											
PARP2	10038	broad.mit.edu	37	chr14	20825671	20825671	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcccagttctgcccacttCgtcaccctgtaagtactcag	7	11	7	16	1	3	0	2	0	1	0	5	0	4	0	3	0	2	4	3	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:20825671C>T	uc001vxc.2	+	15	1612	c.1584C>T	c.(1582-1584)TTC>TTT	p.F528F	PARP2_uc001vxd.2_Silent_p.F515F|PARP2_uc001vxb.1_Silent_p.F528F	NM_005484	NP_005475	Q9UGN5	PARP2_HUMAN	poly (ADP-ribose) polymerase family, member 2	528	PARP catalytic.				protein ADP-ribosylation	nucleolus|nucleoplasm	DNA binding|NAD+ ADP-ribosyltransferase activity			ovary(1)|pancreas(1)	2	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;5.34e-07)|all cancers(55;3.7e-06)	GBM - Glioblastoma multiforme(265;0.00888)|READ - Rectum adenocarcinoma(17;0.0649)		CTGCCCACTTCGTCACCCTGT	0.488								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					22	64					0	0	1	0	0		T	20825671	T	T	20825671	2	4	89	1	0	0	0	0	0	0	0	1	11480	883	31	1		1	PARP2	14	20825671	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	58643	20825671	86523869	4924	58755											
TEP1	7011	broad.mit.edu	37	chr14	20848099	20848099	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtcatacctgccaagttCtcaggtccaacaggtaaact	12	11	7	11	0	2	0	2	0	1	0	4	0	3	0	3	2	4	2	3	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:20848099C>A	uc001vxe.2	-	35	5157	c.5117G>T	c.(5116-5118)AGA>ATA	p.R1706I	TEP1_uc010ahk.2_Missense_Mutation_p.R1049I|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.R1598I|TEP1_uc010tlh.1_Missense_Mutation_p.R44I	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1706	WD 2.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		CTGCCAAGTTCTCAGGTCCAA	0.522													21	25					4.63292e-17	5.35151e-17	1	1	0		A	20848099	A	A	20848099	3	1	89	1	0	0	0	0	1	0	0	0	15784	913	32	5	2850	5	TEP1	14	20848099	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	22428	20848099	86501441	4925	58756											
TEP1	7011	broad.mit.edu	37	chr14	20854649	20854649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgacgccccagcggaggtCgattccgtgaaggctgatac	9	7	14	11	4	0	3	0	3	0	0	2	5	1	4	3	3	2	1	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:20854649C>T	uc001vxe.2	-	19	2858	c.2818G>A	c.(2818-2820)GAC>AAC	p.D940N	TEP1_uc010ahk.2_Missense_Mutation_p.D290N|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.D832N	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	940					telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		CAGCGGAGGTCGATTCCGTGA	0.652													15	32					0	0	1	0	0		T	20854649	T	T	20854649	3	4	89	1	0	0	0	0	1	0	0	0	15784	884	31	1	5213	1	TEP1	14	20854649	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6550	20854649	86494891	4926	58757											
RNASE4	6038	broad.mit.edu	37	chr14	21167907	21167907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcagatatcgggccatagCgagcactagacgtgttgtca	10	9	12	10	3	1	2	1	0	0	2	2	3	1	2	1	1	3	3	1	1	3	4	rs143629764	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:21167907C>T	uc001vxy.3	+	2	940	c.377C>T	c.(376-378)GCG>GTG	p.A126V	RNASE4_uc001vxx.3_RNA|RNASE4_uc001vya.2_Missense_Mutation_p.A126V	NM_002937	NP_002928	P34096	RNAS4_HUMAN	ribonuclease, RNase A family, 4 precursor	126					mRNA cleavage	extracellular region	nucleic acid binding|pancreatic ribonuclease activity			central_nervous_system(1)	1	all_cancers(95;0.00304)		Epithelial(56;5.13e-07)|all cancers(55;4.73e-06)	GBM - Glioblastoma multiforme(265;0.0133)		CGGGCCATAGCGAGCACTAGA	0.532													48	132					0	0	1	0	0		T	21167907	T	T	21167907	3	4	89	1	0	0	0	0	1	0	0	0	13431	768	27	1	379	1	RNASE4	14	21167907	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	313258	21167907	86181633	4927	58758											
EDDM3A	10876	broad.mit.edu	37	chr14	21216071	21216071	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtcactgggagaagtacaAcaataggtacacagagagca	16	6	12	7	0	1	2	1	0	0	2	1	4	1	2	0	2	4	3	0	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:21216071A>G	uc001vyb.2	+	2	399	c.332A>G	c.(331-333)AAC>AGC	p.N111S	EDDM3A_uc001vyc.2_Missense_Mutation_p.N111S	NM_006683	NP_006674	Q14507	EP3A_HUMAN	human epididymis-specific 3 alpha precursor	111					sperm displacement	extracellular space					0						GAGAAGTACAACAATAGGTAC	0.453													31	54					0	0	1	0	0		G	21216071	G	G	21216071	3	3	89	1	0	0	0	0	1	0	0	0	4915	43	2	3	334	3	EDDM3A	14	21216071	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	48164	21216071	86133469	4928	58759											
METT11D1	64745	broad.mit.edu	37	chr14	21458737	21458737	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgggctaggcatcttgagaAaaaattcctggaaaacccag	15	7	10	9	1	1	1	0	1	1	1	2	3	2	2	2	3	1	2	2	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:21458737A>C	uc001vyn.2	+	3	541	c.344A>C	c.(343-345)AAA>ACA	p.K115T	METT11D1_uc010tlk.1_Missense_Mutation_p.K115T|METT11D1_uc001vym.2_Missense_Mutation_p.K115T|METT11D1_uc001vyo.2_Missense_Mutation_p.K115T|METT11D1_uc001vyp.2_5'UTR|METT11D1_uc001vyq.2_5'UTR	NM_022734	NP_073571	Q9H7H0	MET17_HUMAN	methyltransferase 11 domain containing 1 isoform	115					translation	mitochondrion|ribosome	copper ion binding|methyltransferase activity				0	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0191)		CATCTTGAGAAAAAATTCCTG	0.403											OREG0022561	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	35					0	0	1	0	0		C	21458737	C	C	21458737	3	2	89	1	0	0	0	0	1	0	0	0	9509	14	1	5	354	5	METT11D1	14	21458737	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	242666	21458737	85890803	4929	58760											
RNASE7	84659	broad.mit.edu	37	chr14	21511513	21511513	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagcatccgaactgcaggtAcaaagagaagcgacagaaca	18	3	11	9	2	0	2	0	0	0	2	1	6	1	2	1	1	6	3	1	1	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:21511513A>T	uc001vzk.3	+	2	619	c.362A>T	c.(361-363)TAC>TTC	p.Y121F	NDRG2_uc010tll.1_Intron|RNASE7_uc001vzl.2_RNA	NM_032572	NP_115961	Q9H1E1	RNAS7_HUMAN	ribonuclease, RNase A family, 7 precursor	121					defense response to bacterium|innate immune response	extracellular region	nucleic acid binding|pancreatic ribonuclease activity			ovary(1)	1	all_cancers(95;0.000759)		OV - Ovarian serous cystadenocarcinoma(11;3.42e-11)|Epithelial(56;5.57e-09)|all cancers(55;2.36e-08)	GBM - Glioblastoma multiforme(265;0.0191)		AACTGCAGGTACAAAGAGAAG	0.522													22	129					0	0	1	0	0		T	21511513	T	T	21511513	3	4	89	1	0	0	0	0	1	0	0	0	13433	391	14	5	364	5	RNASE7	14	21511513	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	52776	21511513	85838027	4930	58761											
FLJ10357	55701	broad.mit.edu	37	chr14	21541393	21541393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcttgccaaggtccagcagGaagcctgtgtgagtggccgt	7	9	15	10	1	0	1	0	1	0	0	1	2	1	2	4	3	4	2	4	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:21541393G>A	uc001vzp.2	+	2	222	c.193G>A	c.(193-195)GAA>AAA	p.E65K	NDRG2_uc010tll.1_5'Flank|FLJ10357_uc001vzn.1_Missense_Mutation_p.E65K|FLJ10357_uc001vzo.1_Intron|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_5'UTR	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	65					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		GGTCCAGCAGGAAGCCTGTGT	0.572													8	12					0	0	1	0	0		A	21541393	A	A	21541393	3	1	89	1	0	0	0	0	1	0	0	0	5940	1175	41	4	199	4	FLJ10357	14	21541393	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	29880	21541393	85808147	4931	58762											
RPGRIP1	57096	broad.mit.edu	37	chr14	21756217	21756217	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctggtgctaccagcctcaAaaggtaacttctacgcctga	10	10	8	13	1	3	1	1	1	2	0	3	1	3	1	3	2	5	2	3	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:21756217A>G	uc001wag.2	+	1	82	c.82A>G	c.(82-84)AAA>GAA	p.K28E		NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	28					response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		ACCAGCCTCAAAAGGTAACTT	0.458													36	83					0	0	1	0	0		G	21756217	G	G	21756217	3	3	89	1	0	0	0	0	1	0	0	0	13574	15	1	3	84	3	RPGRIP1	14	21756217	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	214824	21756217	85593323	4932	58763											
RPGRIP1	57096	broad.mit.edu	37	chr14	21792917	21792917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgaactgcacatccaccagGccttcctgacatctgccgcc	8	9	7	17	1	1	2	0	2	1	0	3	2	3	2	6	1	3	1	6	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:21792917G>A	uc001wag.2	+	14	1903	c.1903G>A	c.(1903-1905)GCC>ACC	p.A635T	RPGRIP1_uc001wah.2_Missense_Mutation_p.A277T|RPGRIP1_uc001wai.2_Intron|RPGRIP1_uc001waj.1_Missense_Mutation_p.A100T|RPGRIP1_uc001wak.2_Missense_Mutation_p.A110T|RPGRIP1_uc010aim.2_Missense_Mutation_p.A18T|RPGRIP1_uc001wal.2_Intron|RPGRIP1_uc001wam.2_5'UTR	NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	635			A -> G (in a patient with normal tension glaucoma and a patient with primary open angle glaucoma; affects the interaction with NPHP4).		response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		CATCCACCAGGCCTTCCTGAC	0.483													46	100					0	0	1	0	0		A	21792917	A	A	21792917	3	1	89	1	0	0	0	0	1	0	0	0	13574	1203	42	2	1957	2	RPGRIP1	14	21792917	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	36700	21792917	85556623	4933	58764											
CHD8	57680	broad.mit.edu	37	chr14	21882509	21882509	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttggttttgaagcgctttAatttttgatgtatcctctta	7	22	7	5	1	1	2	0	2	1	0	2	2	2	2	1	1	1	3	1	1	4	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:21882509A>C	uc001was.1	-	9	1350	c.1256T>G	c.(1255-1257)TTA>TGA	p.L419*	CHD8_uc001war.1_Nonsense_Mutation_p.L315*	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	698	Chromo 1.				ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		GAAGCGCTTTAATTTTTGATG	0.403													3	2					0	0	1	0	0		C	21882509	C	C	21882509	4	2	89	1	0	0	0	0	0	1	0	0	3334	372	13	5	5772	5	CHD8	14	21882509	Nonsense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	89592	21882509	85467031	4934	58765											
SALL2	6297	broad.mit.edu	37	chr14	21992741	21992741	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttggcacagaagcggcatTtgtgccttccaccaggcttc	7	11	10	13	1	0	1	0	0	0	1	2	1	1	1	3	3	2	3	3	3	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:21992741T>G	uc001wbe.2	-	2	1403	c.1121A>C	c.(1120-1122)AAA>ACA	p.K374T	SALL2_uc010tly.1_Missense_Mutation_p.K372T|SALL2_uc010tlz.1_Missense_Mutation_p.K237T|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Missense_Mutation_p.K239T|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	374	C2H2-type 1.						DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		GAAGCGGCATTTGTGCCTTCC	0.562													27	46					0	0	1	0	0		G	21992741	G	G	21992741	3	3	89	1	0	0	0	0	1	0	0	0	13836	1841	64	5	1906	5	SALL2	14	21992741	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	110232	21992741	85356799	4935	58766											
OR10G3	26533	broad.mit.edu	37	chr14	22038511	22038511	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatattgccaggtacctgTcataggccattagggtgtag	10	11	12	8	0	1	0	1	0	0	0	1	1	1	0	3	3	2	2	3	3	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:22038511T>C	uc010tmb.1	-	1	365	c.365A>G	c.(364-366)GAC>GGC	p.D122G		NM_001005465	NP_001005465	Q8NGC4	O10G3_HUMAN	olfactory receptor, family 10, subfamily G,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|central_nervous_system(1)	2	all_cancers(95;0.000987)			GBM - Glioblastoma multiforme(265;0.0139)		CAGGTACCTGTCATAGGCCAT	0.547													33	52					0	0	1	0	0		C	22038511	C	C	22038511	3	2	89	1	0	0	0	0	1	0	0	0	10919	1667	58	3	579	3	OR10G3	14	22038511	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	45770	22038511	85311029	4936	58767											
MMP14	4323	broad.mit.edu	37	chr14	23314568	23314568	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagggtcattcatgggcagCgatgaaggtgagaggggcaa	12	6	18	5	1	2	3	2	2	0	2	2	5	2	3	0	5	1	2	0	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:23314568C>T	uc001whc.2	+	9	1644	c.1410C>T	c.(1408-1410)AGC>AGT	p.S470S		NM_004995	NP_004986	P50281	MMP14_HUMAN	matrix metalloproteinase 14 preproprotein	470	Hemopexin-like 4.|Extracellular (Potential).					extracellular matrix|integral to plasma membrane|melanosome	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0	all_cancers(95;9.47e-05)			GBM - Glioblastoma multiforme(265;0.00551)		TCATGGGCAGCGATGAAGGTG	0.562													11	22					0	0	1	0	0		T	23314568	T	T	23314568	2	4	89	1	0	0	0	0	0	0	0	1	9671	767	27	1		1	MMP14	14	23314568	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1276057	23314568	84034972	4937	58768											
PSMB11	122706	broad.mit.edu	37	chr14	23512164	23512164	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgcagtgatgcctgtgtgCtgtacgtggagttacagaag	9	10	14	8	2	0	2	0	1	0	1	0	3	0	3	1	1	4	4	1	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:23512164C>A	uc010ake.1	+	1	789	c.730C>A	c.(730-732)CTG>ATG	p.L244M		NM_001099780	NP_001093250	A5LHX3	PSB11_HUMAN	proteasome beta 11 subunit precursor	244					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00643)		TGCCTGTGTGCTGTACGTGGA	0.602													15	32					7.93312e-07	8.28085e-07	1	1	0		A	23512164	A	A	23512164	3	1	89	1	0	0	0	0	1	0	0	0	12698	796	28	5	732	5	PSMB11	14	23512164	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	197596	23512164	83837376	4938	58769											
ACIN1	22985	broad.mit.edu	37	chr14	23551042	23551042	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcagaaattgaggagcttTttcctattgaatgaaaaaga	15	13	8	5	0	1	5	1	3	0	2	2	6	2	6	1	1	1	1	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:23551042T>G	uc001wit.3	-	5	942	c.614A>C	c.(613-615)AAA>ACA	p.K205T	ACIN1_uc001wis.3_5'Flank|ACIN1_uc010akg.2_Missense_Mutation_p.K205T|ACIN1_uc010tnj.1_Missense_Mutation_p.K165T	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	205	Glu-rich.				apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		TGAGGAGCTTTTTCCTATTGA	0.368													26	72					0	0	1	0	0		G	23551042	G	G	23551042	3	3	89	1	0	0	0	0	1	0	0	0	142	1841	64	5	3618	5	ACIN1	14	23551042	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	38878	23551042	83798498	4939	58770											
HOMEZ	57594	broad.mit.edu	37	chr14	23745818	23745818	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgctccactgccaggtgTcatcagggactcctttaatt	9	12	9	11	0	2	0	2	0	0	0	4	2	4	1	3	2	2	1	3	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:23745818T>C	uc001wja.2	-	2	767	c.619A>G	c.(619-621)ACA>GCA	p.T207A	HOMEZ_uc001wjb.2_Missense_Mutation_p.T209A	NM_020834	NP_065885	Q8IX15	HOMEZ_HUMAN	homeodomain leucine zipper protein	207						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		CTGCCAGGTGTCATCAGGGAC	0.537													47	101					0	0	1	0	0		C	23745818	C	C	23745818	3	2	89	1	0	0	0	0	1	0	0	0	7297	1667	58	3	1037	3	HOMEZ	14	23745818	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	194776	23745818	83603722	4940	58771											
MYH6	4624	broad.mit.edu	37	chr14	23863388	23863388	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcgtctctttgatgcgcccGaactcttccttcatggtggc	5	13	10	13	3	3	1	1	1	2	0	5	2	4	1	2	2	3	0	2	2	1	3	rs148596692		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:23863388G>A	uc001wjv.2	-	21	2641	c.2574C>T	c.(2572-2574)TTC>TTT	p.F858F		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	858	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TGATGCGCCCGAACTCTTCCT	0.572													54	85					0	0	1	0	0		A	23863388	A	A	23863388	2	1	89	1	0	0	0	0	0	0	0	1	10056	1049	37	1		1	MYH6	14	23863388	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	117570	23863388	83486152	4941	58772											
MYH6	4624	broad.mit.edu	37	chr14	23869930	23869930	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caactcacgtcgaagatctcGaagccagcgatgtccaggac	12	6	10	13	4	2	1	1	0	1	1	5	5	3	2	2	1	3	0	2	1	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:23869930G>A	uc001wjv.2	-	13	1465	c.1398C>T	c.(1396-1398)TTC>TTT	p.F466F	MYH6_uc010akp.1_Silent_p.F466F	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	466	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CGAAGATCTCGAAGCCAGCGA	0.438													27	55					0	0	1	0	0		A	23869930	A	A	23869930	2	1	89	1	0	0	0	0	0	0	0	1	10056	1049	37	1		1	MYH6	14	23869930	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6542	23869930	83479610	4942	58773											
MYH6	4624	broad.mit.edu	37	chr14	23876239	23876239	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgccctactcaccttcccaTtctcggtttcagcaatgacc	8	12	5	16	1	3	1	2	1	1	0	5	1	4	1	4	1	3	2	4	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:23876239T>G	uc001wjv.2	-	3	261	c.194A>C	c.(193-195)AAT>ACT	p.N65T	MYH6_uc010akp.1_Missense_Mutation_p.N65T	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	65	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CACCTTCCCATTCTCGGTTTC	0.572													120	282					0	0	1	0	0		G	23876239	G	G	23876239	3	3	89	1	0	0	0	0	1	0	0	0	10056	1493	52	5	5773	5	MYH6	14	23876239	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	6309	23876239	83473301	4943	58774											
MYH7	4625	broad.mit.edu	37	chr14	23885495	23885495	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctgggcccggaggatCttgccctcctcgtgctccag	4	9	12	16	2	1	0	0	0	1	0	5	2	4	2	5	3	3	2	5	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:23885495C>A	uc001wjx.2	-	34	4777	c.4671G>T	c.(4669-4671)AAG>AAT	p.K1557N		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1557	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CCCGGAGGATCTTGCCCTCCT	0.637													52	98					4.88482e-21	5.78106e-21	1	1	0		A	23885495	A	A	23885495	3	1	89	1	0	0	0	0	1	0	0	0	10057	912	32	5	1164	5	MYH7	14	23885495	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9256	23885495	83464045	4944	58775											
MYH7	4625	broad.mit.edu	37	chr14	23893979	23893979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagcccaggagcctcaccGcctgcacttggagctgcagg	8	6	13	14	1	1	0	1	0	0	0	1	2	1	2	4	3	5	4	4	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:23893979G>A	uc001wjx.2	-	22	2784	c.2678C>T	c.(2677-2679)GCG>GTG	p.A893V		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	893	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		GAGCCTCACCGCCTGCACTTG	0.597													45	26					0	0	1	0	0		A	23893979	A	A	23893979	3	1	89	1	0	0	0	0	1	0	0	0	10057	1101	38	1	3205	1	MYH7	14	23893979	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8484	23893979	83455561	4945	58776											
NGDN	25983	broad.mit.edu	37	chr14	23946730	23946730	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatcagaatcctattaagAagcggaagaagatacctcag	17	7	10	7	1	2	4	2	0	0	4	3	6	3	6	2	2	2	0	2	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:23946730A>C	uc001wjy.2	+	10	916	c.889A>C	c.(889-891)AAG>CAG	p.K297Q	NGDN_uc001wjz.2_Missense_Mutation_p.K297Q|NGDN_uc001wka.2_RNA	NM_001042635	NP_001036100	Q8NEJ9	NGDN_HUMAN	neuroguidin isoform 1	297					regulation of translation	axon|cytoplasm|dendrite|filopodium|nucleus					0	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		TCCTATTAAGAAGCGGAAGAA	0.473													13	35					0	0	1	0	0		C	23946730	C	C	23946730	3	2	89	1	0	0	0	0	1	0	0	0	10412	247	9	5	927	5	NGDN	14	23946730	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	52751	23946730	83402810	4946	58777											
AP1G2	8906	broad.mit.edu	37	chr14	24033302	24033302	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agacattccaccacagtgggCcgatgccgctgcacagcact	10	6	10	15	2	0	1	0	0	0	1	1	2	1	1	4	1	3	3	4	1	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:24033302C>T	uc001wkl.2	-	11	1381	c.1044G>A	c.(1042-1044)CGG>CGA	p.R348R	AP1G2_uc001wkj.2_5'UTR|AP1G2_uc001wkk.3_Silent_p.R276R|AP1G2_uc001wkn.2_5'UTR|uc001wko.1_Intron|AP1G2_uc001wkp.1_RNA|AP1G2_uc010tnp.1_Silent_p.R348R	NM_003917	NP_003908	O75843	AP1G2_HUMAN	adaptor-related protein complex 1, gamma 2	348					interspecies interaction between organisms|intracellular protein transport|vesicle-mediated transport	AP-1 adaptor complex|endosome membrane	protein binding|protein transporter activity			ovary(1)	1	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)		CCACAGTGGGCCGATGCCGCT	0.587													15	26					0	0	1	0	0		T	24033302	T	T	24033302	2	4	89	1	0	0	0	0	0	0	0	1	733	726	26	2		2	AP1G2	14	24033302	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	86572	24033302	83316238	4947	58778											
AP1G2	8906	broad.mit.edu	37	chr14	24034396	24034396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccaggatccgaagcagacGaagtatctggacctgaggtt	11	7	13	10	2	1	2	0	1	1	1	2	6	2	4	3	3	1	3	3	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:24034396G>A	uc001wkl.2	-	8	1091	c.754C>T	c.(754-756)CGT>TGT	p.R252C	AP1G2_uc001wkj.2_5'UTR|AP1G2_uc001wkk.3_Missense_Mutation_p.R180C|AP1G2_uc001wkn.2_5'UTR|uc001wko.1_Intron|AP1G2_uc001wkp.1_5'Flank|AP1G2_uc010tnp.1_Missense_Mutation_p.R252C|AP1G2_uc010aks.2_3'UTR|AP1G2_uc010akt.2_3'UTR|AP1G2_uc010tnq.1_RNA	NM_003917	NP_003908	O75843	AP1G2_HUMAN	adaptor-related protein complex 1, gamma 2	252					interspecies interaction between organisms|intracellular protein transport|vesicle-mediated transport	AP-1 adaptor complex|endosome membrane	protein binding|protein transporter activity			ovary(1)	1	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)		CGAAGCAGACGAAGTATCTGG	0.557													14	26					0	0	1	0	0		A	24034396	A	A	24034396	3	1	89	1	0	0	0	0	1	0	0	0	733	1058	37	1	1663	1	AP1G2	14	24034396	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1094	24034396	83315144	4948	58779											
LRRC16B	90668	broad.mit.edu	37	chr14	24537875	24537875	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagaaggaggggaccctCttcccagagaggacacttcc	11	5	14	11	0	1	2	0	0	1	2	3	8	3	5	3	5	0	0	3	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:24537875C>A	uc001wlj.2	+	37	3922	c.3765C>A	c.(3763-3765)CTC>CTA	p.L1255L	LRRC16B_uc001wlk.2_Silent_p.L308L|CPNE6_uc010tnv.1_5'Flank|CPNE6_uc001wlm.2_5'Flank|CPNE6_uc001wll.2_5'Flank	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	1255										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		AGGGGACCCTCTTCCCAGAGA	0.597													27	37					4.72057e-08	4.99044e-08	1	1	0		A	24537875	A	A	24537875	2	1	89	1	0	0	0	0	0	0	0	1	8990	900	32	5		5	LRRC16B	14	24537875	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	503479	24537875	82811665	4949	58780											
GZMB	3002	broad.mit.edu	37	chr14	25100413	25100413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacacacaagagggcctccaGagtccccctgtgaatagaga	13	6	10	12	0	0	4	0	1	0	3	2	5	2	4	4	1	1	0	4	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:25100413G>A	uc001wps.2	-	5	674	c.608C>T	c.(607-609)TCT>TTT	p.S203F	GZMB_uc010ama.2_Missense_Mutation_p.S191F|GZMB_uc010amb.2_RNA	NM_004131	NP_004122	P10144	GRAB_HUMAN	granzyme B precursor	203	Peptidase S1.	Charge relay system.			activation of pro-apoptotic gene products|cleavage of lamin|cytolysis|induction of apoptosis by intracellular signals	cytosol|immunological synapse|nucleus	protein binding|serine-type endopeptidase activity				0				GBM - Glioblastoma multiforme(265;0.028)		AGGGCCTCCAGAGTCCCCCTG	0.547													14	55					0	0	1	0	0		A	25100413	A	A	25100413	3	1	89	1	0	0	0	0	1	0	0	0	6932	942	33	4	139	4	GZMB	14	25100413	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	562538	25100413	82249127	4950	58781											
NOVA1	4857	broad.mit.edu	37	chr14	26949193	26949194	+	Missense_Mutation	DNP	CG	TA	TA																															aaacactcacttgtttgatgCgatctggattaacggtggtc																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:26949193_26949194CG>TA	uc001wpy.2	-	3	754_755	c.436_437CG>TA	c.(436-438)CGC>TAC	p.R146Y	NOVA1_uc001wpz.2_Missense_Mutation_p.R146Y|NOVA1_uc001wqa.2_Missense_Mutation_p.R24Y|NOVA1_uc001wqb.2_Missense_Mutation_p.R146Y	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	149					locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		TTGTTTGATGCGATCTGGATTA	0.386													61	104					0	0	1	0	0		TA	26949194	TA	TA	26949193	3	4	89	1	0	0	0	0	1	0	0	0	10573	768	27	1	1129	1	NOVA1	14	26949193	Missense_Mutation	DNP	CG	TCGA-BR-8680-01A-11D-2394-08	1848780	26949193	80400347	4951	58782											
PRKD1	5587	broad.mit.edu	37	chr14	30068276	30068276	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctagcaacacattttctggtTtgaggtcacagtgaacgata	12	12	9	8	1	2	2	1	2	1	0	2	3	2	2	0	2	3	2	0	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:30068276T>C	uc001wqh.2	-	15	2304	c.2123A>G	c.(2122-2124)AAA>AGA	p.K708R		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	708	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		ATTTTCTGGTTTGAGGTCACA	0.398													45	86					0	0	1	0	0		C	30068276	C	C	30068276	3	2	89	1	0	0	0	0	1	0	0	0	12540	1841	64	3	631	3	PRKD1	14	30068276	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3119083	30068276	77281264	4952	58783											
PRKD1	5587	broad.mit.edu	37	chr14	30107713	30107713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctccattaatggtcacttCgccaaggcagttgtttggta	9	13	9	10	1	1	0	1	0	0	0	3	0	2	0	3	3	0	4	3	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:30107713C>T	uc001wqh.2	-	6	1148	c.967G>A	c.(967-969)GAA>AAA	p.E323K		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	323					cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		ATGGTCACTTCGCCAAGGCAG	0.393													6	91					0	0	1	0	0		T	30107713	T	T	30107713	3	4	89	1	0	0	0	0	1	0	0	0	12540	893	31	1	1823	1	PRKD1	14	30107713	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	39437	30107713	77241827	4953	58784											
G2E3	55632	broad.mit.edu	37	chr14	31085717	31085717	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagactagaaaaggaagaaAgttctcattacattggacat	18	10	8	5	0	1	3	1	0	1	3	2	5	1	5	0	2	1	1	0	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:31085717A>C	uc001wqk.2	+	15	2252	c.2098A>C	c.(2098-2100)AGT>CGT	p.S700R	G2E3_uc010tpf.1_Missense_Mutation_p.S654R|G2E3_uc001wql.1_Missense_Mutation_p.S212R	NM_017769	NP_060239	Q7L622	G2E3_HUMAN	G2/M-phase specific E3 ubiquitin ligase	700					apoptosis|multicellular organismal development|protein modification process	Golgi apparatus|nucleolus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						AAAGGAAGAAAGTTCTCATTA	0.303													26	39					0	0	1	0	0		C	31085717	C	C	31085717	3	2	89	1	0	0	0	0	1	0	0	0	6154	72	3	5	2152	5	G2E3	14	31085717	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	978004	31085717	76263823	4954	58785											
HECTD1	25831	broad.mit.edu	37	chr14	31581680	31581680	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctagtttcaaatggtattaGaaaaggacatttgctggtta	13	15	9	4	0	2	1	1	0	1	1	2	2	2	2	0	3	1	4	0	3	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:31581680G>A	uc001wrc.1	-	35	6709	c.6220C>T	c.(6220-6222)CTA>TTA	p.L2074L	HECTD1_uc001wra.1_Silent_p.L200L|HECTD1_uc001wrb.1_Silent_p.L200L	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	2074	K-box.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		AATGGTATTAGAAAAGGACAT	0.378													12	31					0	0	1	0	0		A	31581680	A	A	31581680	2	1	89	1	0	0	0	0	0	0	0	1	7055	933	33	4		4	HECTD1	14	31581680	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	495963	31581680	75767860	4955	58786											
HECTD1	25831	broad.mit.edu	37	chr14	31583209	31583209	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtaggttatcaagtcattCtttggtaattcatcagtgcc	10	15	9	7	0	5	0	4	0	1	0	5	0	5	0	1	3	1	3	1	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:31583209C>A	uc001wrc.1	-	32	6219	c.5730G>T	c.(5728-5730)AAG>AAT	p.K1910N	HECTD1_uc001wra.1_Missense_Mutation_p.K36N|HECTD1_uc001wrb.1_Missense_Mutation_p.K36N|HECTD1_uc001wrd.1_Missense_Mutation_p.K1378N	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1910					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		TCAAGTCATTCTTTGGTAATT	0.408													13	39					5.50884e-06	5.70595e-06	1	1	0		A	31583209	A	A	31583209	3	1	89	1	0	0	0	0	1	0	0	0	7055	912	32	5	2150	5	HECTD1	14	31583209	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1529	31583209	75766331	4956	58787											
HECTD1	25831	broad.mit.edu	37	chr14	31590701	31590701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgacgttgcagggatgggCgtctcagaatctaaaataaa	13	9	11	8	3	2	1	1	0	2	1	4	3	2	2	0	2	1	2	0	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:31590701C>T	uc001wrc.1	-	28	5615	c.5126G>A	c.(5125-5127)CGC>CAC	p.R1709H	HECTD1_uc001wra.1_5'UTR|HECTD1_uc001wrb.1_5'UTR|HECTD1_uc001wrd.1_Missense_Mutation_p.R1177H	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1709					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		CAGGGATGGGCGTCTCAGAAT	0.488													17	48					0	0	1	0	0		T	31590701	T	T	31590701	3	4	89	1	0	0	0	0	1	0	0	0	7055	768	27	1	2770	1	HECTD1	14	31590701	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7492	31590701	75758839	4957	58788											
HECTD1	25831	broad.mit.edu	37	chr14	31641112	31641112	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcagcataatgtaatgaTgatgacctttgacctctatt	12	14	7	8	0	1	4	0	4	1	0	1	4	1	4	2	0	2	3	2	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:31641112T>C	uc001wrc.1	-	8	1776	c.1287A>G	c.(1285-1287)TCA>TCG	p.S429S		NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	429	ANK 2.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		AATGTAATGATGATGACCTTT	0.294													11	28					0	0	1	0	0		C	31641112	C	C	31641112	2	2	89	1	0	0	0	0	0	0	0	1	7055	1451	51	3		3	HECTD1	14	31641112	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	50411	31641112	75708428	4958	58789											
HEATR5A	25938	broad.mit.edu	37	chr14	31816982	31816982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagaagtgctgtcctgcGccaaagtataaaggattcca	13	8	11	9	1	0	1	0	0	0	1	2	3	2	2	3	2	2	2	3	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:31816982G>A	uc001wrf.3	-	13	2038	c.1961C>T	c.(1960-1962)GCG>GTG	p.A654V	HEATR5A_uc010ami.2_Missense_Mutation_p.A552V|HEATR5A_uc001wrg.1_Missense_Mutation_p.A536V|HEATR5A_uc010tpk.1_Missense_Mutation_p.A947V	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	941							binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		GCTGTCCTGCGCCAAAGTATA	0.408													12	37					0	0	1	0	0		A	31816982	A	A	31816982	3	1	89	1	0	0	0	0	1	0	0	0	7047	1087	38	1	3372	1	HEATR5A	14	31816982	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	175870	31816982	75532558	4959	58790											
HEATR5A	25938	broad.mit.edu	37	chr14	31827881	31827881	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcgcatacaaccccaaaGagcttggatgcagaactaat	15	7	9	10	1	0	3	0	1	0	2	0	4	0	4	2	1	6	3	2	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:31827881G>T	uc001wrf.3	-	10	1571	c.1494C>A	c.(1492-1494)CTC>CTA	p.L498L	HEATR5A_uc010ami.2_Silent_p.L396L|HEATR5A_uc001wrg.1_Silent_p.L380L|HEATR5A_uc010tpk.1_Silent_p.L791L	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	785							binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		CAACCCCAAAGAGCTTGGATG	0.408													89	227					5.00475e-40	6.2035e-40	1	1	0		T	31827881	T	T	31827881	2	4	89	1	0	0	0	0	0	0	0	1	7047	929	33	5		5	HEATR5A	14	31827881	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	10899	31827881	75521659	4960	58791											
AKAP6	9472	broad.mit.edu	37	chr14	33016131	33016131	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccattctgccactaaaTcagctttaattcagaaactg	14	11	6	10	0	3	2	2	0	1	2	3	2	3	2	2	0	4	1	2	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:33016131T>G	uc001wrq.2	+	4	2442	c.2272T>G	c.(2272-2274)TCA>GCA	p.S758A	AKAP6_uc010aml.2_Missense_Mutation_p.S755A	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	758					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TGCCACTAAATCAGCTTTAAT	0.403													34	84					0	0	1	0	0		G	33016131	G	G	33016131	3	3	89	1	0	0	0	0	1	0	0	0	455	1435	50	5	2282	5	AKAP6	14	33016131	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1188250	33016131	74333409	4961	58792											
AKAP6	9472	broad.mit.edu	37	chr14	33293854	33293854	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaaatctaaagttcaaGacctctccttgaaggcaaat	15	9	6	11	0	3	2	1	1	2	1	4	2	3	2	3	1	1	2	3	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:33293854G>T	uc001wrq.2	+	13	7005	c.6835G>T	c.(6835-6837)GAC>TAC	p.D2279Y		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	2279					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TAAAGTTCAAGACCTCTCCTT	0.428													41	64					4.32679e-17	4.9986e-17	1	1	0		T	33293854	T	T	33293854	3	4	89	1	0	0	0	0	1	0	0	0	455	942	33	5	6881	5	AKAP6	14	33293854	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	277723	33293854	74055686	4962	58793											
NPAS3	64067	broad.mit.edu	37	chr14	33684409	33684409	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacaagcattgagaaaggaGaaatcccgagatgctgctcg	14	8	11	8	2	0	3	0	1	0	3	2	6	1	3	1	1	4	3	1	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:33684409G>T	uc001wru.2	+	3	226	c.162G>T	c.(160-162)GAG>GAT	p.E54D	NPAS3_uc001wrs.2_Missense_Mutation_p.E24D|NPAS3_uc001wrt.2_Missense_Mutation_p.E24D|NPAS3_uc001wrv.2_Missense_Mutation_p.E24D|NPAS3_uc001wrw.2_5'UTR	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	54	Basic motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		TGAGAAAGGAGAAATCCCGAG	0.433													19	57					2.35188e-11	2.57851e-11	1	1	0		T	33684409	T	T	33684409	3	4	89	1	0	0	0	0	1	0	0	0	10583	933	33	5	172	5	NPAS3	14	33684409	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	390555	33684409	73665131	4963	58794											
BAZ1A	11177	broad.mit.edu	37	chr14	35222877	35222877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttgtattcaaagcagttcGaaaacattaactcaatgtca	15	12	7	7	1	3	0	3	0	0	0	4	1	3	0	0	1	3	4	0	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:35222877G>A	uc001wsk.2	-	27	5076	c.4508C>T	c.(4507-4509)TCG>TTG	p.S1503L	BAZ1A_uc001wsl.2_Missense_Mutation_p.S1471L	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1503	Bromo.				chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		AAAGCAGTTCGAAAACATTAA	0.333													23	28					0	0	1	0	0		A	35222877	A	A	35222877	3	1	89	1	0	0	0	0	1	0	0	0	1330	1059	37	1	166	1	BAZ1A	14	35222877	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1538468	35222877	72126663	4964	58795											
SRP54	6729	broad.mit.edu	37	chr14	35482598	35482598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgcctccattgggcaggCttgtgaagcccaggctaagg	8	8	15	10	0	0	1	0	1	0	0	1	2	1	2	3	5	2	3	3	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:35482598C>T	uc001wso.2	+	9	1034	c.683C>T	c.(682-684)GCT>GTT	p.A228V	SRP54_uc010tpp.1_Missense_Mutation_p.A179V|SRP54_uc010tpq.1_Missense_Mutation_p.A164V	NM_003136	NP_003127	P61011	SRP54_HUMAN	signal recognition particle 54kDa isoform 1	228	G-domain.				GTP catabolic process|response to drug|SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition|SRP-dependent cotranslational protein targeting to membrane, translocation	cytosol|nuclear speck|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|drug binding|endoplasmic reticulum signal peptide binding|GDP binding|GTP binding|nucleoside-triphosphatase activity|ribonucleoprotein binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;2.48e-05)|Lung(238;3.13e-05)|Epithelial(34;0.0314)|all cancers(34;0.0797)|BRCA - Breast invasive adenocarcinoma(188;0.243)	GBM - Glioblastoma multiforme(112;0.0396)		ATTGGGCAGGCTTGTGAAGCC	0.383													21	60					0	0	1	0	0		T	35482598	T	T	35482598	3	4	89	1	0	0	0	0	1	0	0	0	15180	797	28	2	713	2	SRP54	14	35482598	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	259721	35482598	71866942	4965	58796											
RALGAPA1	253959	broad.mit.edu	37	chr14	36074888	36074888	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttgtccttcagcaacataAaatactgcaatcttgtgtgt	11	15	6	9	0	3	0	1	0	2	0	4	0	4	0	1	0	4	2	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:36074888A>G	uc001wti.2	-	35	5830	c.5439T>C	c.(5437-5439)TTT>TTC	p.F1813F	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Silent_p.F1813F|RALGAPA1_uc010tpv.1_Silent_p.F1826F|RALGAPA1_uc010tpw.1_Silent_p.F1860F	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1813	Minimal domain that binds to TCF3/E12 (By similarity).|Rap-GAP.				activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						CAGCAACATAAAATACTGCAA	0.353													37	68					0	0	1	0	0		G	36074888	G	G	36074888	2	3	89	1	0	0	0	0	0	0	0	1	13038	11	1	3		3	RALGAPA1	14	36074888	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	592290	36074888	71274652	4966	58797											
RALGAPA1	253959	broad.mit.edu	37	chr14	36096544	36096544	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaagtgagattccagttctCtgtaagcattcaggactagt	11	14	9	7	0	2	1	1	1	1	1	4	3	3	2	1	1	1	3	1	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:36096544C>T	uc001wti.2	-	33	5482	c.5091G>A	c.(5089-5091)CAG>CAA	p.Q1697Q	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Silent_p.Q1697Q|RALGAPA1_uc010tpv.1_Silent_p.Q1710Q|RALGAPA1_uc010tpw.1_Silent_p.Q1744Q	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1697	Minimal domain that binds to TCF3/E12 (By similarity).				activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						TTCCAGTTCTCTGTAAGCATT	0.368													34	80					0	0	1	0	0		T	36096544	T	T	36096544	2	4	89	1	0	0	0	0	0	0	0	1	13038	912	32	4		4	RALGAPA1	14	36096544	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	21656	36096544	71252996	4967	58798											
RALGAPA1	253959	broad.mit.edu	37	chr14	36123671	36123671	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaagctacgtgggctactgTtttattagtaaactgcaata	13	13	8	7	1	0	0	0	0	0	0	0	0	0	0	0	1	5	5	0	1	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:36123671T>C	uc001wti.2	-	29	4382	c.3991A>G	c.(3991-3993)ACA>GCA	p.T1331A	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Missense_Mutation_p.T1331A|RALGAPA1_uc010tpv.1_Missense_Mutation_p.T1344A|RALGAPA1_uc010tpw.1_Missense_Mutation_p.T1378A	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1331	Minimal domain that binds to TCF3/E12 (By similarity).				activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						TGGGCTACTGTTTTATTAGTA	0.294													21	23					0	0	1	0	0		C	36123671	C	C	36123671	3	2	89	1	0	0	0	0	1	0	0	0	13038	1725	60	3	2320	3	RALGAPA1	14	36123671	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	27127	36123671	71225869	4968	58799											
PAX9	5083	broad.mit.edu	37	chr14	37145483	37145483	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaccccagcccaagtgtcGccttacatgacctacagtgc	9	8	7	17	1	0	1	0	1	0	0	1	1	0	1	6	0	5	0	6	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:37145483G>A	uc001wty.3	+	5	1569	c.852G>A	c.(850-852)TCG>TCA	p.S284S	PAX9_uc010amq.2_RNA	NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	284					multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		CCCAAGTGTCGCCTTACATGA	0.537													46	127					0	0	1	0	0		A	37145483	A	A	37145483	2	1	89	1	0	0	0	0	0	0	0	1	11505	1074	38	1		1	PAX9	14	37145483	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1021812	37145483	70204057	4969	58800											
SLC25A21	89874	broad.mit.edu	37	chr14	37283144	37283144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttccatttggaaaatcattCgaaagctgtctaccaagctt	12	13	6	10	1	2	0	1	0	1	0	4	2	3	1	2	1	3	2	2	1	5	5	rs147035536	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:37283144C>T	uc001wtz.1	-	3	492	c.182G>A	c.(181-183)CGA>CAA	p.R61Q		NM_030631	NP_085134	Q9BQT8	ODC_HUMAN	solute carrier family 25 (mitochondrial	61	Solcar 1.				lysine catabolic process	integral to membrane|mitochondrial inner membrane	alpha-ketoglutarate transmembrane transporter activity|binding			skin(1)	1	Esophageal squamous(585;0.164)|Breast(36;0.179)|Hepatocellular(127;0.213)		Lung(8;2.16e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.0112)|all cancers(34;0.0274)|LUSC - Lung squamous cell carcinoma(13;0.149)	GBM - Glioblastoma multiforme(112;0.00204)		GAAAATCATTCGAAAGCTGTC	0.313													24	53					0	0	1	0	0		T	37283144	T	T	37283144	3	4	89	1	0	0	0	0	1	0	0	0	14509	884	31	1	754	1	SLC25A21	14	37283144	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	137661	37283144	70066396	4970	58801											
MIPOL1	145282	broad.mit.edu	37	chr14	37736309	37736309	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggccagggcagagatcaacGaattttcagatcatcagttc	12	10	10	9	1	4	2	4	0	0	2	5	4	4	2	1	2	1	2	1	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:37736309G>A	uc001wuc.2	+	5	689	c.186G>A	c.(184-186)ACG>ACA	p.T62T	MIPOL1_uc010amr.2_RNA|MIPOL1_uc001wub.3_Silent_p.T31T|MIPOL1_uc001wud.2_Silent_p.T62T|MIPOL1_uc010ams.2_Silent_p.T62T|MIPOL1_uc001wue.2_Silent_p.T31T|MIPOL1_uc010amt.2_Intron	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	62										ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		AGAGATCAACGAATTTTCAGA	0.368													27	73					0	0	1	0	0		A	37736309	A	A	37736309	2	1	89	1	0	0	0	0	0	0	0	1	9611	1045	37	1		1	MIPOL1	14	37736309	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	453165	37736309	69613231	4971	58802											
MIPOL1	145282	broad.mit.edu	37	chr14	37737950	37737950	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagataaagagaagacaatAgcatttcttctaaaagaatt	19	11	6	5	0	3	4	1	0	2	4	3	5	3	4	0	0	1	1	0	0	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:37737950A>C	uc001wuc.2	+	6	842	c.339A>C	c.(337-339)ATA>ATC	p.I113I	MIPOL1_uc010amr.2_RNA|MIPOL1_uc001wub.3_Silent_p.I82I|MIPOL1_uc001wud.2_Silent_p.I113I|MIPOL1_uc010ams.2_Silent_p.I113I|MIPOL1_uc001wue.2_Silent_p.I82I|MIPOL1_uc010amt.2_Intron	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	113	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		AGAAGACAATAGCATTTCTTC	0.308													75	109					0	0	1	0	0		C	37737950	C	C	37737950	2	2	89	1	0	0	0	0	0	0	0	1	9611	410	15	5		5	MIPOL1	14	37737950	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1641	37737950	69611590	4972	58803											
CLEC14A	161198	broad.mit.edu	37	chr14	38724535	38724535	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtttgtcccagcgagcgccGatttcgtccgcgatgcaagt	7	10	12	12	6	0	0	0	0	0	0	3	3	2	0	3	0	3	2	3	0	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:38724535G>A	uc001wum.1	-	1	1040	c.693C>T	c.(691-693)ATC>ATT	p.I231I		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	231	Extracellular (Potential).					integral to membrane	sugar binding			ovary(3)|skin(1)	4	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00439)		AGCGAGCGCCGATTTCGTCCG	0.632													83	172					0	0	1	0	0		A	38724535	A	A	38724535	2	1	89	1	0	0	0	0	0	0	0	1	3502	1048	37	1		1	CLEC14A	14	38724535	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	986585	38724535	68625005	4973	58804											
SEC23A	10484	broad.mit.edu	37	chr14	39556144	39556144	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttattacctgttggaaggAggtggctgctgtacctgagg	8	13	14	6	0	0	1	0	1	0	0	0	3	0	3	2	5	3	4	2	5	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:39556144A>G	uc001wup.1	-	6	895	c.672T>C	c.(670-672)CCT>CCC	p.P224P	SEC23A_uc010tqa.1_Silent_p.P86P|SEC23A_uc010tqb.1_Silent_p.P195P|SEC23A_uc010tqc.1_Silent_p.P86P	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	224					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		TGTTGGAAGGAGGTGGCTGCT	0.388													24	50					0	0	1	0	0		G	39556144	G	G	39556144	2	3	89	1	0	0	0	0	0	0	0	1	14016	291	11	3		3	SEC23A	14	39556144	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	831609	39556144	67793396	4974	58805											
MIA2	117153	broad.mit.edu	37	chr14	39716573	39716573	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgagaatgacctagaGgaattaaataatggtgagcc	17	8	12	4	0	0	5	0	3	0	3	0	8	0	6	2	2	1	0	2	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:39716573G>A	uc001wux.2	+	4	989	c.795G>A	c.(793-795)GAG>GAA	p.E265E	MIA2_uc010amy.1_Silent_p.E196E	NM_054024	NP_473365	Q96PC5	MIA2_HUMAN	melanoma inhibitory activity 2	265						extracellular region				ovary(1)|breast(1)	2	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0216)		ATGACCTAGAGGAATTAAATA	0.388													33	69					0	0	1	0	0		A	39716573	A	A	39716573	2	1	89	1	0	0	0	0	0	0	0	1	9582	991	35	4		4	MIA2	14	39716573	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	160429	39716573	67632967	4975	58806											
MIA2	117153	broad.mit.edu	37	chr14	39716613	39716613	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaacagaacatcagcaaGaatctgaatcagaaattgat	19	8	6	8	0	4	5	3	2	1	3	4	5	4	5	0	0	3	1	0	0	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:39716613G>T	uc001wux.2	+	4	1029	c.835G>T	c.(835-837)GAA>TAA	p.E279*	MIA2_uc010amy.1_Nonsense_Mutation_p.E210*	NM_054024	NP_473365	Q96PC5	MIA2_HUMAN	melanoma inhibitory activity 2	279						extracellular region				ovary(1)|breast(1)	2	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0216)		ACATCAGCAAGAATCTGAATC	0.413													41	75					2.24893e-16	2.58354e-16	1	1	0		T	39716613	T	T	39716613	4	4	89	1	0	0	0	0	0	1	0	0	9582	943	33	5	849	5	MIA2	14	39716613	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	40	39716613	67632927	4976	58807											
FBXO33	254170	broad.mit.edu	37	chr14	39870682	39870682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgaaagctggtgctctttCgtgacagggctttccaatgc	7	11	11	12	2	1	1	0	1	1	0	3	2	2	1	2	2	3	3	2	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:39870682C>T	uc001wvk.2	-	3	1432	c.1094G>A	c.(1093-1095)CGA>CAA	p.R365Q		NM_203301	NP_976046	Q7Z6M2	FBX33_HUMAN	F-box protein 33	365											0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00121)|Epithelial(34;0.169)	GBM - Glioblastoma multiforme(112;0.0425)		GGTGCTCTTTCGTGACAGGGC	0.418													36	71					0	0	1	0	0		T	39870682	T	T	39870682	3	4	89	1	0	0	0	0	1	0	0	0	5757	884	31	1	581	1	FBXO33	14	39870682	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	154069	39870682	67478858	4977	58808											
FBXO33	254170	broad.mit.edu	37	chr14	39870866	39870866	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagtgcagattcacaaatcGctccagttcaactgcagtaa	13	10	8	10	1	2	2	2	1	0	1	4	2	3	2	1	0	3	5	1	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:39870866G>A	uc001wvk.2	-	3	1248	c.910C>T	c.(910-912)CGA>TGA	p.R304*		NM_203301	NP_976046	Q7Z6M2	FBX33_HUMAN	F-box protein 33	304											0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00121)|Epithelial(34;0.169)	GBM - Glioblastoma multiforme(112;0.0425)		TTCACAAATCGCTCCAGTTCA	0.433													45	90					0	0	1	0	0		A	39870866	A	A	39870866	4	1	89	1	0	0	0	0	0	1	0	0	5757	1095	38	1	765	1	FBXO33	14	39870866	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	184	39870866	67478674	4978	58809											
FAM179B	23116	broad.mit.edu	37	chr14	45431763	45431763	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcattatgagaggagagaaaAactactacttccgtggagct	14	9	11	7	1	0	2	0	1	0	2	1	6	1	4	1	2	4	2	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:45431763A>C	uc001wvv.2	+	1	348	c.139A>C	c.(139-141)AAC>CAC	p.N47H	FAM179B_uc001wvw.2_Missense_Mutation_p.N47H|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvq.2_5'Flank|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Missense_Mutation_p.N47H|FAM179B_uc001wvu.2_Missense_Mutation_p.N47H	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	47							binding			skin(2)|upper_aerodigestive_tract(1)	3						AGGAGAGAAAAACTACTACTT	0.592													18	31					0	0	1	0	0		C	45431763	C	C	45431763	3	2	89	1	0	0	0	0	1	0	0	0	5517	14	1	5	141	5	FAM179B	14	45431763	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	5560897	45431763	61917777	4979	58810											
FAM179B	23116	broad.mit.edu	37	chr14	45432816	45432816	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcttgttggcttcattagtTtgctatataatttgttagac	8	20	8	5	0	2	1	1	0	1	1	2	1	2	1	0	1	1	5	0	1	5	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:45432816T>C	uc001wvv.2	+	1	1401	c.1192T>C	c.(1192-1194)TTG>CTG	p.L398L	FAM179B_uc001wvw.2_Silent_p.L398L|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvq.2_5'Flank|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Silent_p.L398L|FAM179B_uc001wvu.2_Silent_p.L398L	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	398	HEAT 2.						binding			skin(2)|upper_aerodigestive_tract(1)	3						CTTCATTAGTTTGCTATATAA	0.433													38	87					0	0	1	0	0		C	45432816	C	C	45432816	2	2	89	1	0	0	0	0	0	0	0	1	5517	1838	64	3		3	FAM179B	14	45432816	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1053	45432816	61916724	4980	58811											
FAM179B	23116	broad.mit.edu	37	chr14	45433587	45433587	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtattaagtgcaggaaaaGgaaaaaataaattaccatgg	19	8	11	3	0	0	0	0	0	0	0	0	2	0	2	1	4	2	2	1	4	10	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:45433587G>T	uc001wvv.2	+	1	2172	c.1963G>T	c.(1963-1965)GGA>TGA	p.G655*	FAM179B_uc001wvw.2_Nonsense_Mutation_p.G655*|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Nonsense_Mutation_p.G655*|FAM179B_uc001wvu.2_Nonsense_Mutation_p.G655*	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	655							binding			skin(2)|upper_aerodigestive_tract(1)	3						TGCAGGAAAAGGAAAAAATAA	0.433													23	42					6.44725e-10	6.96688e-10	1	1	0		T	45433587	T	T	45433587	4	4	89	1	0	0	0	0	0	1	0	0	5517	1001	35	5	1965	5	FAM179B	14	45433587	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	771	45433587	61915953	4981	58812											
FKBP3	2287	broad.mit.edu	37	chr14	45587237	45587237	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaaaaggatacttggcaTcaggctgtcctttctttccg	10	12	10	9	1	2	0	1	0	1	0	4	2	4	2	2	4	1	2	2	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:45587237T>C	uc010tqf.1	-	6	687	c.614A>G	c.(613-615)GAT>GGT	p.D205G		NM_002013	NP_002004	Q00688	FKBP3_HUMAN	FK506 binding protein 3, 25kDa	205	PPIase FKBP-type.				protein folding	membrane|nucleus	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|receptor activity				0						ATACTTGGCATCAGGCTGTCC	0.408													46	94					0	0	1	0	0		C	45587237	C	C	45587237	3	2	89	1	0	0	0	0	1	0	0	0	5923	1435	50	3	68	3	FKBP3	14	45587237	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	153650	45587237	61762303	4982	58813											
FANCM	57697	broad.mit.edu	37	chr14	45606351	45606351	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacctcaggtcatggtaaaTgacctttctagaggagcttg	11	11	10	9	0	3	2	2	1	1	1	3	3	3	3	2	3	1	2	2	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:45606351T>C	uc001wwd.3	+	2	687	c.588T>C	c.(586-588)AAT>AAC	p.N196N	FANCM_uc001wwc.2_Silent_p.N196N|FANCM_uc010anf.2_Silent_p.N196N|FKBP3_uc010tqf.1_5'Flank	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	196	Helicase ATP-binding.				DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						TCATGGTAAATGACCTTTCTA	0.403								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				20	49					0	0	1	0	0		C	45606351	C	C	45606351	2	2	89	1	0	0	0	0	0	0	0	1	5685	1461	51	3		3	FANCM	14	45606351	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	19114	45606351	61743189	4983	58814											
FANCM	57697	broad.mit.edu	37	chr14	45618133	45618133	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacatattctcatgaaagaAaagttgaaaagcttattgtt	16	14	7	4	0	1	4	1	3	1	1	2	4	1	4	0	0	1	3	0	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:45618133A>C	uc001wwd.3	+	4	952	c.853A>C	c.(853-855)AAA>CAA	p.K285Q	FANCM_uc001wwc.2_Missense_Mutation_p.K285Q|FANCM_uc010anf.2_Missense_Mutation_p.K259Q	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	285					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						TCATGAAAGAAAAGTTGAAAA	0.363								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				21	33					0	0	1	0	0		C	45618133	C	C	45618133	3	2	89	1	0	0	0	0	1	0	0	0	5685	15	1	5	867	5	FANCM	14	45618133	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	11782	45618133	61731407	4984	58815											
FANCM	57697	broad.mit.edu	37	chr14	45645419	45645419	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctttcacccttgaacagTaaaagcgaatctttacctgt	12	13	6	10	1	3	1	1	1	2	0	3	2	3	1	2	0	3	1	2	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:45645419T>C	uc001wwd.3	+	14	3561	c.3462T>C	c.(3460-3462)AGT>AGC	p.S1154S	FANCM_uc010anf.2_Silent_p.S1128S|FANCM_uc001wwe.3_Silent_p.S690S|FANCM_uc010ang.2_Silent_p.S368S	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1154					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						CCTTGAACAGTAAAAGCGAAT	0.383								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				62	114					0	0	1	0	0		C	45645419	C	C	45645419	2	2	89	1	0	0	0	0	0	0	0	1	5685	1635	57	3		3	FANCM	14	45645419	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	27286	45645419	61704121	4985	58816											
RPL10L	140801	broad.mit.edu	37	chr14	47120402	47120402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccaccatgtcttcaaattCgtcagcattaaacttcgtga	11	12	7	11	2	3	1	2	1	1	0	5	1	3	1	2	1	2	1	2	1	3	4	rs61745038	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:47120402C>T	uc001wwg.2	-	1	627	c.538G>A	c.(538-540)GAA>AAA	p.E180K		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	180					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						TCTTCAAATTCGTCAGCATTA	0.517													41	82					0	0	1	0	0		T	47120402	T	T	47120402	3	4	89	1	0	0	0	0	1	0	0	0	13581	893	31	1	110	1	RPL10L	14	47120402	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1474983	47120402	60229138	4986	58817											
MDGA2	161357	broad.mit.edu	37	chr14	47342659	47342659	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgttgtccatacatgtgaTaaaagaagctgaaacaatat	17	12	7	5	0	0	3	0	2	0	1	1	3	1	3	1	0	3	2	1	0	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:47342659T>C	uc001wwj.3	-	14	2718	c.2522A>G	c.(2521-2523)TAT>TGT	p.Y841C	MDGA2_uc001wwh.3_Missense_Mutation_p.Y43C|MDGA2_uc001wwi.3_Missense_Mutation_p.Y612C|MDGA2_uc010ani.2_Missense_Mutation_p.Y401C	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	841	MAM.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						ATACATGTGATAAAAGAAGCT	0.368													38	73					0	0	1	0	0		C	47342659	C	C	47342659	3	2	89	1	0	0	0	0	1	0	0	0	9425	1406	49	3	364	3	MDGA2	14	47342659	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	222257	47342659	60006881	4987	58818											
MDGA2	161357	broad.mit.edu	37	chr14	47343401	47343401	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaatccacaatgaaattCtcctgttggtaaattttaat	14	16	4	7	0	2	1	1	1	1	0	4	1	3	1	2	1	0	2	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:47343401C>A	uc001wwj.3	-	13	2429	c.2233G>T	c.(2233-2235)GAA>TAA	p.E745*	MDGA2_uc001wwh.3_5'UTR|MDGA2_uc001wwi.3_Nonsense_Mutation_p.E516*|MDGA2_uc010ani.2_Nonsense_Mutation_p.E305*	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	745					spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CAATGAAATTCTCCTGTTGGt	0.239													20	32					2.4624e-09	2.64481e-09	1	1	0		A	47343401	A	A	47343401	4	1	89	1	0	0	0	0	0	1	0	0	9425	922	32	5	657	5	MDGA2	14	47343401	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	742	47343401	60006139	4988	58819											
MDGA2	161357	broad.mit.edu	37	chr14	47600940	47600940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttattggacagtctaaacGacaccatcttatcaggaata	14	13	6	8	1	3	0	1	0	2	0	3	3	3	2	1	2	1	0	1	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:47600940G>A	uc001wwj.3	-	5	891	c.695C>T	c.(694-696)TCG>TTG	p.S232L	MDGA2_uc001wwi.3_Missense_Mutation_p.S3L|MDGA2_uc010ani.2_5'UTR	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	232	Ig-like 2.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CAGTCTAAACGACACCATCTT	0.313													36	73					0	0	1	0	0		A	47600940	A	A	47600940	3	1	89	1	0	0	0	0	1	0	0	0	9425	1059	37	1	2227	1	MDGA2	14	47600940	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	257539	47600940	59748600	4989	58820											
C14orf104	55172	broad.mit.edu	37	chr14	50100024	50100024	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctccaaagaatcgttgtttAcaccataataccactctctc	12	12	3	14	1	1	1	0	0	1	1	5	1	2	1	4	0	2	2	4	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:50100024A>G	uc001wws.3	-	1	1925	c.1844T>C	c.(1843-1845)GTA>GCA	p.V615A	SDCCAG1_uc010anj.1_Intron|C14orf104_uc001wwt.3_Missense_Mutation_p.V615A	NM_018139	NP_060609	Q9NVR5	KTU_HUMAN	kintoun isoform 1	615					axonemal dynein complex assembly|ciliary cell motility|flagellar cell motility	cytoplasm					0	all_epithelial(31;0.0021)|Breast(41;0.0124)					ATCGTTGTTTACACCATAATA	0.358									Kartagener_syndrome				13	37					0	0	1	0	0		G	50100024	G	G	50100024	3	3	89	1	0	0	0	0	1	0	0	0	1739	391	14	3	681	3	C14orf104	14	50100024	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2499084	50100024	57249516	4990	58821											
ATL1	51062	broad.mit.edu	37	chr14	51099045	51099045	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctactgaacaatcagaaaaGaaaaaaatgtaatgcaaatt	22	9	5	5	0	2	3	1	1	1	2	2	3	2	3	0	0	3	2	0	0	10	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:51099045G>T	uc001wyf.3	+	13	1906	c.1665G>T	c.(1663-1665)AAG>AAT	p.K555N	ATL1_uc001wyd.3_Missense_Mutation_p.K550N|ATL1_uc001wye.3_Missense_Mutation_p.K550N	NM_015915	NP_056999	Q8WXF7	ATLA1_HUMAN	atlastin GTPase 1 isoform a	555	Cytoplasmic.|Sufficient for membrane association.				axonogenesis|cell death|endoplasmic reticulum organization|protein homooligomerization	axon|endoplasmic reticulum membrane|Golgi cis cisterna|Golgi membrane|integral to membrane|microsome	GTP binding|GTPase activity|identical protein binding			skin(3)|central_nervous_system(1)	4						AATCAGAAAAGAAAAAAATGT	0.363													12	35					6.40141e-05	6.56571e-05	1	1	0		T	51099045	T	T	51099045	3	4	89	1	0	0	0	0	1	0	0	0	1107	933	33	5	1719	5	ATL1	14	51099045	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	999021	51099045	56250495	4991	58822											
NIN	51199	broad.mit.edu	37	chr14	51239123	51239123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccaggcaggagaagacccGaaagccaatggtacttgtca	14	6	11	10	1	1	2	1	0	0	2	2	4	2	2	3	3	2	2	3	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:51239123G>A	uc001wym.2	-	9	1068	c.877C>T	c.(877-879)CGG>TGG	p.R293W	NIN_uc001wyi.2_Missense_Mutation_p.R293W|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.R293W|NIN_uc010tqp.1_Missense_Mutation_p.R299W|NIN_uc001wyo.2_Missense_Mutation_p.R293W|NIN_uc001wyp.1_Missense_Mutation_p.R255W	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	293					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					GAGAAGACCCGAAAGCCAATG	0.517			T	PDGFRB	MPD								21	53					0	0	1	0	0		A	51239123	A	A	51239123	3	1	89	1	0	0	0	0	1	0	0	0	10436	1057	37	1	5764	1	NIN	14	51239123	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	140078	51239123	56110417	4992	58823											
ABHD12B	145447	broad.mit.edu	37	chr14	51345491	51345491	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttcttgtggatttaaaGaaaccagagttaaagattcc	14	13	7	7	0	1	3	0	0	1	3	2	4	2	4	3	1	1	1	3	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:51345491G>T	uc001wys.2	+	3	276	c.261G>T	c.(259-261)AAG>AAT	p.K87N	ABHD12B_uc001wyq.2_5'UTR|ABHD12B_uc001wyr.2_Intron|ABHD12B_uc010any.2_RNA	NM_181533	NP_853511	Q7Z5M8	AB12B_HUMAN	abhydrolase domain containing 12B isoform b	87							hydrolase activity			breast(1)	1	all_epithelial(31;0.00481)|Breast(41;0.148)					TGGATTTAAAGAAACCAGAGT	0.413													31	58					1.88708e-17	2.18811e-17	1	1	0		T	51345491	T	T	51345491	3	4	89	1	0	0	0	0	1	0	0	0	77	957	33	5		5	ABHD12B	14	51345491	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	106368	51345491	56004049	4993	58824											
TRIM9	114088	broad.mit.edu	37	chr14	51475949	51475949	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcttatgagggcgtcagaAatctaatcagataaagagga	15	10	10	6	1	4	4	2	1	2	3	4	5	4	5	0	2	0	0	0	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:51475949A>C	uc001wyx.3	-	5	1920	c.1155T>G	c.(1153-1155)ATT>ATG	p.I385M	TRIM9_uc001wyy.2_Missense_Mutation_p.I385M|TRIM9_uc001wyz.3_Missense_Mutation_p.I385M	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	385	COS.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					GGGCGTCAGAAATCTAATCAG	0.493													26	52					0	0	1	0	0		C	51475949	C	C	51475949	3	2	89	1	0	0	0	0	1	0	0	0	16575	10	1	5	1051	5	TRIM9	14	51475949	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	130458	51475949	55873591	4994	58825											
FRMD6	122786	broad.mit.edu	37	chr14	52174833	52174833	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggactacatcctgaagcAcattccaaacatgcacaaag	17	6	7	11	0	0	1	0	1	0	0	2	3	2	2	2	1	4	2	2	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:52174833A>G	uc001wzd.2	+	7	881	c.596A>G	c.(595-597)CAC>CGC	p.H199R	FRMD6_uc001wzb.2_Missense_Mutation_p.H191R|FRMD6_uc001wzc.2_Missense_Mutation_p.H191R|FRMD6_uc001wze.2_Missense_Mutation_p.H122R	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	199	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					ATCCTGAAGCACATTCCAAAC	0.458													14	52					0	0	1	0	0		G	52174833	G	G	52174833	3	3	89	1	0	0	0	0	1	0	0	0	6068	159	6	3	594	3	FRMD6	14	52174833	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	698884	52174833	55174707	4995	58826											
PTGER2	5732	broad.mit.edu	37	chr14	52793970	52793970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatgaatgaaacctcttcccGaaaggaaaaatgggacctcc	15	8	8	10	1	1	2	0	2	1	0	3	5	3	4	4	2	1	0	4	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:52793970G>A	uc001wzr.2	+	2	1126	c.875G>A	c.(874-876)CGA>CAA	p.R292Q		NM_000956	NP_000947	P43116	PE2R2_HUMAN	prostaglandin E receptor 2 (subtype EP2), 53kDa	292	Extracellular (Potential).					integral to plasma membrane	prostaglandin E receptor activity			lung(1)|breast(1)	2	Breast(41;0.0639)|all_epithelial(31;0.0729)				Alprostadil(DB00770)|Iloprost(DB01088)	ACCTCTTCCCGAAAGGAAAAA	0.393													22	44					0	0	1	0	0		A	52793970	A	A	52793970	3	1	89	1	0	0	0	0	1	0	0	0	12766	1058	37	1	881	1	PTGER2	14	52793970	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	619137	52793970	54555570	4996	58827											
FERMT2	10979	broad.mit.edu	37	chr14	53331516	53331516	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttctgcaactggaatcagGagtttaatgttaaatttttg	11	16	8	6	0	2	0	1	0	1	0	2	2	2	2	1	2	2	3	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:53331516G>T	uc001xad.2	-	11	1384	c.1329C>A	c.(1327-1329)CTC>CTA	p.L443L	FERMT2_uc001xac.2_Silent_p.L443L|FERMT2_uc001xae.2_Silent_p.L443L|FERMT2_uc001xaf.2_Silent_p.L443L	NM_006832	NP_006823	Q96AC1	FERM2_HUMAN	fermitin family homolog 2 isoform 1	443	FERM.|PH.				actin cytoskeleton organization|cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytosol|focal adhesion|stress fiber	binding				0	Breast(41;0.0342)					CTGGAATCAGGAGTTTAATGT	0.308													48	146					4.25531e-23	5.09196e-23	1	1	0		T	53331516	T	T	53331516	2	4	89	1	0	0	0	0	0	0	0	1	5832	1161	41	5		5	FERMT2	14	53331516	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	537546	53331516	54018024	4997	58828											
GMFB	2764	broad.mit.edu	37	chr14	54950455	54950455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcttttccactaaatcttCggcaacatcacaaacaacca	15	9	3	14	1	2	0	1	0	1	0	4	0	3	0	2	1	4	2	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:54950455C>T	uc010tqz.1	-	2	133	c.34G>A	c.(34-36)GAA>AAA	p.E12K	GMFB_uc001xaw.1_RNA	NM_004124	NP_004115	P60983	GMFB_HUMAN	glia maturation factor, beta	12	ADF-H.				nervous system development|protein phosphorylation	intracellular	actin binding|enzyme activator activity|growth factor activity|protein kinase inhibitor activity|signal transducer activity				0						ACTAAATCTTCGGCAACATCA	0.338													20	39					0	0	1	0	0		T	54950455	T	T	54950455	3	4	89	1	0	0	0	0	1	0	0	0	6504	893	31	1	418	1	GMFB	14	54950455	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1618939	54950455	52399085	4998	58829											
WDHD1	11169	broad.mit.edu	37	chr14	55455824	55455824	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctattgtataattcaaagtgTttgataagtgtgttgcatgg	11	17	10	3	0	1	1	1	1	0	0	1	1	1	1	0	1	1	4	0	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:55455824T>G	uc001xbm.1	-	13	1526	c.1448A>C	c.(1447-1449)AAC>ACC	p.N483T	WDHD1_uc010aom.1_Intron|WDHD1_uc001xbn.1_Missense_Mutation_p.N360T	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	483						cytoplasm|nucleoplasm	DNA binding			skin(1)	1						ATTCAAAGTGTTTGATAAGTG	0.373													9	152					0	0	1	0	0		G	55455824	G	G	55455824	3	3	89	1	0	0	0	0	1	0	0	0	17297	1725	60	5	1997	5	WDHD1	14	55455824	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	505369	55455824	51893716	4999	58830											
KTN1	3895	broad.mit.edu	37	chr14	56078947	56078947	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagaaagcagaaaagaaaAagaataaaaagaaagaaatc	30	2	7	2	0	0	6	0	0	0	6	1	6	0	6	0	0	1	1	0	0	13	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:56078947A>C	uc001xcb.2	+	3	483	c.181A>C	c.(181-183)AAG>CAG	p.K61Q	KTN1_uc001xce.2_Missense_Mutation_p.K61Q|KTN1_uc001xcc.2_Missense_Mutation_p.K61Q|KTN1_uc001xcd.2_Missense_Mutation_p.K61Q|KTN1_uc010trb.1_Missense_Mutation_p.K61Q|KTN1_uc001xcf.1_Missense_Mutation_p.K61Q	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	61	Lumenal (Potential).				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						agaaaagaaaaagaataaaaa	0.279			T	RET	papillary thryoid								15	35					0	0	1	0	0		C	56078947	C	C	56078947	3	2	89	1	0	0	0	0	1	0	0	0	8601	15	1	5	183	5	KTN1	14	56078947	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	623123	56078947	51270593	5000	58831											
KTN1	3895	broad.mit.edu	37	chr14	56099965	56099965	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattttagtttcagcaagttCgtgagcagatggaggcagag	12	11	13	5	1	1	3	1	1	0	2	2	4	1	4	0	2	2	5	0	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:56099965C>T	uc001xcb.2	+	9	1536	c.1234C>T	c.(1234-1236)CGT>TGT	p.R412C	KTN1_uc001xce.2_Missense_Mutation_p.R412C|KTN1_uc001xcc.2_Missense_Mutation_p.R412C|KTN1_uc001xcd.2_Missense_Mutation_p.R412C|KTN1_uc010trb.1_Missense_Mutation_p.R412C|KTN1_uc001xcf.1_Missense_Mutation_p.R412C	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	412	Lumenal (Potential).|Potential.				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						TCAGCAAGTTCGTGAGCAGAT	0.328			T	RET	papillary thryoid								19	25					0	0	1	0	0		T	56099965	T	T	56099965	3	4	89	1	0	0	0	0	1	0	0	0	8601	884	31	1	1260	1	KTN1	14	56099965	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	21018	56099965	51249575	5001	58832											
KTN1	3895	broad.mit.edu	37	chr14	56117309	56117309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaacaggaaataaaggCtctaaaagaagaaataggaa	22	7	9	3	0	1	3	0	1	1	2	1	5	1	5	0	3	1	1	0	3	10	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:56117309C>T	uc001xcb.2	+	25	2821	c.2519C>T	c.(2518-2520)GCT>GTT	p.A840V	KTN1_uc001xce.2_Missense_Mutation_p.A840V|KTN1_uc001xcc.2_Missense_Mutation_p.A840V|KTN1_uc001xcd.2_Intron|KTN1_uc010trb.1_Missense_Mutation_p.A840V|KTN1_uc001xcf.1_Intron|KTN1_uc010aoq.2_Missense_Mutation_p.A135V	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	840	Lumenal (Potential).|Potential.				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						GAAATAAAGGCTCTAAAAGAA	0.348			T	RET	papillary thryoid								25	57					0	0	1	0	0		T	56117309	T	T	56117309	3	4	89	1	0	0	0	0	1	0	0	0	8601	797	28	2	2609	2	KTN1	14	56117309	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	17344	56117309	51232231	5002	58833											
KTN1	3895	broad.mit.edu	37	chr14	56137449	56137449	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttttctcgtccacagagTtatggtgaatggttgcatgg	9	14	11	7	1	1	2	0	1	1	1	3	2	2	2	1	3	2	3	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:56137449T>G	uc001xcb.2	+	36	3572	c.3270T>G	c.(3268-3270)AGT>AGG	p.S1090R	KTN1_uc001xce.2_Missense_Mutation_p.S1061R|KTN1_uc001xcc.2_Missense_Mutation_p.S1090R|KTN1_uc001xcd.2_Missense_Mutation_p.S1067R|KTN1_uc010trb.1_Missense_Mutation_p.S1090R|KTN1_uc001xcf.1_Missense_Mutation_p.S1067R|KTN1_uc010aoq.2_Missense_Mutation_p.S356R|KTN1_uc010trc.1_Missense_Mutation_p.S95R|KTN1_uc001xcg.2_Missense_Mutation_p.S51R	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	1090	Lumenal (Potential).|Potential.				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						GTCCACAGAGTTATGGTGAAT	0.313			T	RET	papillary thryoid								25	39					0	0	1	0	0		G	56137449	G	G	56137449	3	3	89	1	0	0	0	0	1	0	0	0	8601	1722	60	5	3404	5	KTN1	14	56137449	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	20140	56137449	51212091	5003	58834											
C14orf101	54916	broad.mit.edu	37	chr14	57083995	57083995	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcaaatttagatatttcaAaaccacttttcatgggtgtg	13	14	8	6	0	2	1	2	0	0	1	2	2	2	1	1	1	2	1	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:57083995A>C	uc001xcm.2	+	9	1158	c.1036A>C	c.(1036-1038)AAA>CAA	p.K346Q	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xcl.1_RNA|C14orf101_uc001xcn.2_Intron|C14orf101_uc010trf.1_5'UTR|C14orf101_uc001xco.2_5'UTR	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	346						integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		AGATATTTCAAAACCACTTTT	0.323													25	56					0	0	1	0	0		C	57083995	C	C	57083995	3	2	89	1	0	0	0	0	1	0	0	0	1737	15	1	5	1070	5	C14orf101	14	57083995	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	946546	57083995	50265545	5004	58835											
C14orf101	54916	broad.mit.edu	37	chr14	57092214	57092214	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctagtggaatggtcacaTttaatctttatcattttctt	10	19	5	7	0	4	0	2	0	2	0	4	1	4	1	1	2	1	0	1	2	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:57092214T>C	uc001xcm.2	+	12	1635	c.1513T>C	c.(1513-1515)TTT>CTT	p.F505L	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xcl.1_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_Missense_Mutation_p.F38L|C14orf101_uc001xco.2_Missense_Mutation_p.F38L	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	505						integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		AATGGTCACATTTAATCTTTA	0.348													28	56					0	0	1	0	0		C	57092214	C	C	57092214	3	2	89	1	0	0	0	0	1	0	0	0	1737	1493	52	3	1559	3	C14orf101	14	57092214	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	8219	57092214	50257326	5005	58836											
EXOC5	10640	broad.mit.edu	37	chr14	57675371	57675371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagatctataatcagcacGaagttgtacgaaggagtgaa	15	8	12	6	2	2	2	1	1	1	1	2	5	2	3	0	2	2	4	0	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:57675371G>A	uc001xct.2	-	18	2334	c.2083C>T	c.(2083-2085)CGT>TGT	p.R695C	EXOC5_uc001xcs.2_Missense_Mutation_p.R374C|EXOC5_uc010trg.1_Missense_Mutation_p.R640C|EXOC5_uc010trh.1_Missense_Mutation_p.R630C	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	695					exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						TAATCAGCACGAAGTTGTACG	0.413													47	140					0	0	1	0	0		A	57675371	A	A	57675371	3	1	89	1	0	0	0	0	1	0	0	0	5315	1058	37	1	47	1	EXOC5	14	57675371	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	583157	57675371	49674169	5006	58837											
ARID4A	5926	broad.mit.edu	37	chr14	58814545	58814545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgaacctgaggaaaatatCgattcaaacagtgaaagtga	18	8	10	5	1	1	4	1	4	0	0	2	6	1	5	1	1	2	0	1	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:58814545C>T	uc001xdp.2	+	15	1607	c.1353C>T	c.(1351-1353)ATC>ATT	p.I451I	ARID4A_uc001xdo.2_Silent_p.I451I|ARID4A_uc001xdq.2_Silent_p.I451I|ARID4A_uc010apg.1_Silent_p.I129I	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	451					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						AGGAAAATATCGATTCAAACA	0.313													26	64					0	0	1	0	0		T	58814545	T	T	58814545	2	4	89	1	0	0	0	0	0	0	0	1	919	874	31	1		1	ARID4A	14	58814545	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1139174	58814545	48534995	5007	58838											
ARID4A	5926	broad.mit.edu	37	chr14	58831856	58831856	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttagtcaagatgagtctCgaagcgtaaaaagtgagagt	14	10	11	6	2	3	3	1	2	2	2	4	5	3	3	0	0	1	1	0	0	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:58831856C>T	uc001xdp.2	+	20	3303	c.3049C>T	c.(3049-3051)CGA>TGA	p.R1017*	ARID4A_uc001xdo.2_Nonsense_Mutation_p.R1017*|ARID4A_uc001xdq.2_Nonsense_Mutation_p.R1017*|ARID4A_uc010apg.1_Nonsense_Mutation_p.R695*	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	1017					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						AGATGAGTCTCGAAGCGTAAA	0.408													61	121					0	0	1	0	0		T	58831856	T	T	58831856	4	4	89	1	0	0	0	0	0	1	0	0	919	876	31	1	3123	1	ARID4A	14	58831856	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	17311	58831856	48517684	5008	58839											
KIAA0586	9786	broad.mit.edu	37	chr14	58932632	58932632	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggattctaaaatgaaacaTtctgttcctgtgttacctca	12	15	6	8	0	3	1	1	1	2	0	4	2	4	2	2	1	2	2	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:58932632T>G	uc001xdv.3	+	14	2184	c.1911T>G	c.(1909-1911)CAT>CAG	p.H637Q	KIAA0586_uc010trr.1_Missense_Mutation_p.H754Q|KIAA0586_uc001xdt.3_Missense_Mutation_p.H669Q|KIAA0586_uc001xdu.3_Missense_Mutation_p.H698Q|KIAA0586_uc010trs.1_Missense_Mutation_p.H628Q|KIAA0586_uc010trt.1_Missense_Mutation_p.H573Q|KIAA0586_uc010tru.1_Missense_Mutation_p.H573Q	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	637										ovary(1)	1						AAATGAAACATTCTGTTCCTG	0.378													36	81					0	0	1	0	0		G	58932632	G	G	58932632	3	3	89	1	0	0	0	0	1	0	0	0	8202	1490	52	5	1965	5	KIAA0586	14	58932632	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	100776	58932632	48416908	5009	58840											
GPR135	64582	broad.mit.edu	37	chr14	59930948	59930948	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacgatcatgatgaggaCggtggtggccgtgcgcacct	9	7	16	9	4	1	3	1	2	0	1	1	6	1	4	2	4	1	1	2	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:59930948C>T	uc010apj.2	-	1	1112	c.997G>A	c.(997-999)GTC>ATC	p.V333I	GPR135_uc001xed.2_RNA	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	333	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		ATGATGAGGACGGTGGTGGCC	0.687													9	31					0	0	1	0	0		T	59930948	T	T	59930948	3	4	89	1	0	0	0	0	1	0	0	0	6659	536	19	1	491	1	GPR135	14	59930948	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	998316	59930948	47418592	5010	58841											
JKAMP	51528	broad.mit.edu	37	chr14	59965469	59965469	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accattgtatttatctattaCgcattctgcttggtattaat	10	19	5	7	1	2	0	0	0	2	0	2	0	2	0	1	1	2	4	1	1	6	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:59965469C>T	uc001xei.3	+	5	1027	c.525C>T	c.(523-525)TAC>TAT	p.Y175Y	JKAMP_uc001xef.3_Silent_p.Y161Y|JKAMP_uc001xeh.3_Silent_p.Y155Y|JKAMP_uc001xeg.3_Silent_p.Y169Y|JKAMP_uc010try.1_Silent_p.Y98Y|JKAMP_uc001xej.3_Silent_p.Y98Y	NM_001098625	NP_001092095	Q9P055	JKAMP_HUMAN	JNK1-associated membrane protein isoform 2	176	Helical; (Potential).				ER-associated protein catabolic process|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ubiquitin protein ligase binding			breast(1)	1						TTATCTATTACGCATTCTGCT	0.289													6	15					0	0	1	0	0		T	59965469	T	T	59965469	2	4	89	1	0	0	0	0	0	0	0	1	7965	547	19	1		1	JKAMP	14	59965469	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34521	59965469	47384071	5011	58842											
RTN1	6252	broad.mit.edu	37	chr14	60063484	60063484	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcagcatgcctcttagcGcctgggattttagcctgaat	8	13	9	11	1	2	1	1	1	1	0	2	2	2	2	3	1	5	1	3	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:60063484G>A	uc001xen.1	-	9	2519	c.2310C>T	c.(2308-2310)GGC>GGT	p.G770G	RTN1_uc001xem.1_Silent_p.G350G|RTN1_uc001xek.1_Silent_p.G202G|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Silent_p.G187G	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	770	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		GCCTCTTAGCGCCTGGGATTT	0.393													32	88					0	0	1	0	0		A	60063484	A	A	60063484	2	1	89	1	0	0	0	0	0	0	0	1	13750	1074	38	1		1	RTN1	14	60063484	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	98015	60063484	47286056	5012	58843											
DHRS7	51635	broad.mit.edu	37	chr14	60619866	60619866	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcacagagaacgctgggAcattccaccattgttgacca	12	8	9	12	1	0	2	0	1	0	1	1	4	1	3	3	1	2	3	3	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:60619866A>G	uc001xes.2	-	4	608	c.424T>C	c.(424-426)TCC>CCC	p.S142P	C14orf135_uc001xeq.2_Intron|DHRS7_uc001xet.2_Missense_Mutation_p.S92P|DHRS7_uc001xeu.2_Missense_Mutation_p.S142P	NM_016029	NP_057113	Q9Y394	DHRS7_HUMAN	dehydrogenase/reductase (SDR family) member 7	142							binding|oxidoreductase activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.121)		GAACGCTGGGACATTCCACCA	0.433													32	85					0	0	1	0	0		G	60619866	G	G	60619866	3	3	89	1	0	0	0	0	1	0	0	0	4501	275	10	3	611	3	DHRS7	14	60619866	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	556382	60619866	46729674	5013	58844											
C14orf39	317761	broad.mit.edu	37	chr14	60921733	60921733	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattacctgatctgatgagaTttctgtatcaaatacagaag	14	14	7	6	0	3	4	1	3	2	2	3	5	3	4	1	0	2	1	1	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:60921733T>C	uc001xez.3	-	16	1599	c.1489A>G	c.(1489-1491)ATC>GTC	p.I497V	C14orf39_uc010apo.2_Missense_Mutation_p.I208V	NM_174978	NP_777638	Q08AQ4	Q08AQ4_HUMAN	hypothetical protein LOC317761	497										ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)		TCTGATGAGATTTCTGTATCA	0.299													32	62					0	0	1	0	0		C	60921733	C	C	60921733	3	2	89	1	0	0	0	0	1	0	0	0	1775	1493	52	3	286	3	C14orf39	14	60921733	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	301867	60921733	46427807	5014	58845											
C14orf39	317761	broad.mit.edu	37	chr14	60950485	60950485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctgttgcatttatagtttCgtgtatcctacaaatagtta	11	18	6	6	1	1	0	0	0	1	0	3	0	2	0	1	0	2	5	1	0	7	9	rs147511742		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:60950485C>T	uc001xez.3	-	4	267	c.157G>A	c.(157-159)GAA>AAA	p.E53K	C14orf39_uc010apo.2_Intron	NM_174978	NP_777638	Q08AQ4	Q08AQ4_HUMAN	hypothetical protein LOC317761	53										ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)		TTTATAGTTTCGTGTATCCTA	0.274													13	32					0	0	1	0	0		T	60950485	T	T	60950485	3	4	89	1	0	0	0	0	1	0	0	0	1775	893	31	1	1666	1	C14orf39	14	60950485	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28752	60950485	46399055	5015	58846											
SIX4	51804	broad.mit.edu	37	chr14	61180839	61180839	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggagcaagagagctcaaGaaaacctttccttgctggac	12	8	11	10	0	1	2	1	0	0	2	2	5	2	4	2	2	4	3	2	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:61180839G>T	uc001xfc.2	-	3	1632	c.1632C>A	c.(1630-1632)TTC>TTA	p.F544L		NM_017420	NP_059116	Q9UIU6	SIX4_HUMAN	sine oculis homeobox homolog 4	544						nucleus				breast(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0275)		GAGAGCTCAAGAAAACCTTTC	0.433													17	42					6.49762e-13	7.22526e-13	1	1	0		T	61180839	T	T	61180839	3	4	89	1	0	0	0	0	1	0	0	0	14374	933	33	5	717	5	SIX4	14	61180839	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	230354	61180839	46168701	5016	58847											
HIF1A	3091	broad.mit.edu	37	chr14	62207347	62207347	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacccattttctactcaggTatatgaacttatttgtttta	11	18	5	7	0	2	1	1	1	1	0	2	2	2	1	1	1	3	2	1	1	7	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:62207347T>C	uc001xfq.2	+	11	2063	c.1659_splice	c.e11+2	p.Q553_splice	HIF1A_uc001xfr.2_Splice_Site_p.Q553_splice|HIF1A_uc001xfs.2_Splice_Site_p.Q554_splice	NM_001530	NP_001521	Q16665	HIF1A_HUMAN	hypoxia-inducible factor 1, alpha subunit						cellular response to hypoxia|collagen metabolic process|connective tissue replacement involved in inflammatory response wound healing|elastin metabolic process|epithelial to mesenchymal transition|oxygen homeostasis|positive regulation of chemokine production|positive regulation of epithelial cell migration|positive regulation of hormone biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|regulation of transforming growth factor-beta2 production	cytoplasm|nucleolus|transcription factor complex	histone acetyltransferase binding|Hsp90 protein binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			kidney(3)|lung(1)	4				OV - Ovarian serous cystadenocarcinoma(108;1.62e-09)|BRCA - Breast invasive adenocarcinoma(234;0.189)		TCTACTCAGGTATATGAACTT	0.289													18	53					0	0	1	0	0		C	62207347	C	C	62207347	5	2	89	1	0	0	0	0	0	0	1	0	7119	1652	57	3	1703	3	HIF1A	14	62207347	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1026508	62207347	45142193	5017	58848											
HIF1A	3091	broad.mit.edu	37	chr14	62207893	62207893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctaacgtgttatctgtcGctttgagtcaaaggtattta	9	15	9	8	2	2	1	1	1	1	0	3	1	2	1	1	1	1	3	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:62207893G>A	uc001xfq.2	+	12	2484	c.2080G>A	c.(2080-2082)GCT>ACT	p.A694T	HIF1A_uc001xfr.2_Missense_Mutation_p.A694T|HIF1A_uc001xfs.2_Missense_Mutation_p.A695T	NM_001530	NP_001521	Q16665	HIF1A_HUMAN	hypoxia-inducible factor 1, alpha subunit	694	ID.				cellular response to hypoxia|collagen metabolic process|connective tissue replacement involved in inflammatory response wound healing|elastin metabolic process|epithelial to mesenchymal transition|oxygen homeostasis|positive regulation of chemokine production|positive regulation of epithelial cell migration|positive regulation of hormone biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|regulation of transforming growth factor-beta2 production	cytoplasm|nucleolus|transcription factor complex	histone acetyltransferase binding|Hsp90 protein binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			kidney(3)|lung(1)	4				OV - Ovarian serous cystadenocarcinoma(108;1.62e-09)|BRCA - Breast invasive adenocarcinoma(234;0.189)		GTTATCTGTCGCTTTGAGTCA	0.338													21	53					0	0	1	0	0		A	62207893	A	A	62207893	3	1	89	1	0	0	0	0	1	0	0	0	7119	1087	38	1	2126	1	HIF1A	14	62207893	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	546	62207893	45141647	5018	58849											
SYT16	83851	broad.mit.edu	37	chr14	62567180	62567180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgttgcaagacgtccattCggcgtggtcagcccaatcct	7	9	10	15	4	1	1	1	0	0	1	4	1	3	1	4	2	2	2	4	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:62567180C>T	uc001xfu.1	+	6	1890	c.1693C>T	c.(1693-1695)CGG>TGG	p.R565W	SYT16_uc010tse.1_Missense_Mutation_p.R123W	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	565	C2 2.									central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		GACGTCCATTCGGCGTGGTCA	0.458													7	18					0	0	1	0	0		T	62567180	T	T	62567180	3	4	89	1	0	0	0	0	1	0	0	0	15497	875	31	1	1715	1	SYT16	14	62567180	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	359287	62567180	44782360	5019	58850											
RHOJ	57381	broad.mit.edu	37	chr14	63671620	63671620	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagggaactgacagcagctgCggctgcaggggcaacgacga	11	3	17	10	3	0	1	0	1	0	0	0	5	0	2	0	4	6	5	0	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:63671620C>T	uc001xgb.1	+	1	476	c.33C>T	c.(31-33)TGC>TGT	p.C11C		NM_020663	NP_065714	Q9H4E5	RHOJ_HUMAN	ras homolog gene family, member J precursor	11					actin cytoskeleton organization|regulation of cell shape|regulation of small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.00326)|all cancers(60;0.031)|BRCA - Breast invasive adenocarcinoma(234;0.119)		ACAGCAGCTGCGGCTGCAGGG	0.567													12	29					0	0	1	0	0		T	63671620	T	T	63671620	2	4	89	1	0	0	0	0	0	0	0	1	13366	776	27	1		1	RHOJ	14	63671620	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1104440	63671620	43677920	5020	58851											
PPP2R5E	5529	broad.mit.edu	37	chr14	64006376	64006376	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtctactttatccactgAtggaggagtagttggtgctg	7	14	12	8	1	1	1	0	1	1	0	3	3	3	3	2	3	2	3	2	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:64006376A>G	uc001xgd.1	-	2	618	c.28T>C	c.(28-30)TCA>CCA	p.S10P	PPP2R5E_uc001xge.2_Missense_Mutation_p.S10P|PPP2R5E_uc010tsh.1_Missense_Mutation_p.S10P|PPP2R5E_uc001xgf.1_RNA|PPP2R5E_uc001xgg.3_Missense_Mutation_p.S10P	NM_006246	NP_006237	Q16537	2A5E_HUMAN	epsilon isoform of regulatory subunit B56,	10					signal transduction	cytoplasm|intracellular membrane-bounded organelle|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00197)|all cancers(60;0.0153)|BRCA - Breast invasive adenocarcinoma(234;0.128)		TTATCCACTGATGGAGGAGTA	0.443													17	68					0	0	1	0	0		G	64006376	G	G	64006376	3	3	89	1	0	0	0	0	1	0	0	0	12418	333	12	3	1427	3	PPP2R5E	14	64006376	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	334756	64006376	43343164	5021	58852											
SYNE2	23224	broad.mit.edu	37	chr14	64408676	64408676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgacattcctaagaaaccGatcagtaagtataaattttt	15	14	5	7	1	1	2	1	1	0	1	2	3	2	2	2	0	1	2	2	0	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:64408676G>A	uc001xgm.2	+	5	541	c.311G>A	c.(310-312)CGA>CAA	p.R104Q	SYNE2_uc001xgk.2_Missense_Mutation_p.R104Q|SYNE2_uc001xgl.2_Missense_Mutation_p.R104Q	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	104	CH 1.|Cytoplasmic (Potential).|Actin-binding.				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CTAAGAAACCGATCAGTAAGT	0.338													18	45					0	0	1	0	0		A	64408676	A	A	64408676	3	1	89	1	0	0	0	0	1	0	0	0	15471	1058	37	1	325	1	SYNE2	14	64408676	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	402300	64408676	42940864	5022	58853											
SYNE2	23224	broad.mit.edu	37	chr14	64453263	64453263	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactcattggacaagtggaAatctgggaggcagaagccaa	16	6	12	7	0	2	1	1	0	1	1	2	4	2	4	1	4	2	1	1	4	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:64453263A>C	uc001xgm.2	+	19	2471	c.2241A>C	c.(2239-2241)GAA>GAC	p.E747D	SYNE2_uc001xgl.2_Missense_Mutation_p.E747D	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	747	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GACAAGTGGAAATCTGGGAGG	0.383													50	65					0	0	1	0	0		C	64453263	C	C	64453263	3	2	89	1	0	0	0	0	1	0	0	0	15471	11	1	5	2311	5	SYNE2	14	64453263	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	44587	64453263	42896277	5023	58854											
SYNE2	23224	broad.mit.edu	37	chr14	64460662	64460662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgtctttagaagaaaagaGtagagatgtctgtgccaaat	15	11	11	4	0	2	4	0	0	2	4	2	6	2	4	1	0	1	1	1	0	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:64460662G>A	uc001xgm.2	+	22	2986	c.2756G>A	c.(2755-2757)AGT>AAT	p.S919N	SYNE2_uc001xgl.2_Missense_Mutation_p.S919N	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	919	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GAAGAAAAGAGTAGAGATGTC	0.264													35	91					0	0	1	0	0		A	64460662	A	A	64460662	3	1	89	1	0	0	0	0	1	0	0	0	15471	1029	36	4	2838	4	SYNE2	14	64460662	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7399	64460662	42888878	5024	58855											
SYNE2	23224	broad.mit.edu	37	chr14	64461803	64461803	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatatgttcaacaactaaaAatagatattgaaaaaggaaa	22	11	5	3	0	1	2	1	1	0	1	1	3	1	3	0	1	2	1	0	1	12	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:64461803A>C	uc001xgm.2	+	23	3053	c.2823A>C	c.(2821-2823)AAA>AAC	p.K941N	SYNE2_uc001xgl.2_Missense_Mutation_p.K941N	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	941	Potential.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AACAACTAAAAATAGATATTG	0.269													18	18					0	0	1	0	0		C	64461803	C	C	64461803	3	2	89	1	0	0	0	0	1	0	0	0	15471	11	1	5	2909	5	SYNE2	14	64461803	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1141	64461803	42887737	5025	58856											
SYNE2	23224	broad.mit.edu	37	chr14	64461861	64461861	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaacttgaaaagcaaataAataaagaaaagaaacttatc	25	8	4	4	0	0	3	0	1	0	2	1	3	0	3	0	0	3	1	0	0	13	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:64461861A>C	uc001xgm.2	+	23	3111	c.2881A>C	c.(2881-2883)AAT>CAT	p.N961H	SYNE2_uc001xgl.2_Missense_Mutation_p.N961H	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	961	Potential.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AAAGCAAATAAATAAAGAAAA	0.299													4	47					0	0	1	0	0		C	64461861	C	C	64461861	3	2	89	1	0	0	0	0	1	0	0	0	15471	14	1	5	2967	5	SYNE2	14	64461861	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	58	64461861	42887679	5026	58857											
SYNE2	23224	broad.mit.edu	37	chr14	64473812	64473812	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagatgaatatgaagaagaGaagagacatttacaagaaat	21	8	9	3	0	0	7	0	2	0	5	0	9	0	7	0	0	1	0	0	0	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:64473812G>T	uc001xgm.2	+	31	4679	c.4449G>T	c.(4447-4449)GAG>GAT	p.E1483D	SYNE2_uc001xgl.2_Missense_Mutation_p.E1483D	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	1483	Potential.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		ATGAAGAAGAGAAGAGACATT	0.348													50	112					6.14515e-18	7.15987e-18	1	1	0		T	64473812	T	T	64473812	3	4	89	1	0	0	0	0	1	0	0	0	15471	933	33	5	4567	5	SYNE2	14	64473812	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11951	64473812	42875728	5027	58858											
SYNE2	23224	broad.mit.edu	37	chr14	64542723	64542723	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaatattatggaaaaactgCgaatcaagtattccgaaatg	18	10	8	5	2	1	1	1	0	0	1	2	4	2	2	1	1	2	1	1	1	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:64542723C>T	uc001xgm.2	+	54	11157	c.10927C>T	c.(10927-10929)CGA>TGA	p.R3643*	SYNE2_uc001xgl.2_Nonsense_Mutation_p.R3643*|SYNE2_uc010apy.2_Nonsense_Mutation_p.R5*|SYNE2_uc010apw.1_Nonsense_Mutation_p.R349*|SYNE2_uc010apx.1_Nonsense_Mutation_p.R35*	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3643	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GGAAAAACTGCGAATCAAGTA	0.388													20	45					0	0	1	0	0		T	64542723	T	T	64542723	4	4	89	1	0	0	0	0	0	1	0	0	15471	760	27	1	11137	1	SYNE2	14	64542723	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	68911	64542723	42806817	5028	58859											
SYNE2	23224	broad.mit.edu	37	chr14	64588782	64588782	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcatcaaattcatagaatTtaatgctaagaaaatgtggc	16	14	6	5	0	3	2	3	0	0	2	3	2	3	2	0	1	1	1	0	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:64588782T>G	uc001xgm.2	+	69	13441	c.13211T>G	c.(13210-13212)TTT>TGT	p.F4404C	SYNE2_uc001xgl.2_Missense_Mutation_p.F4404C|SYNE2_uc010apy.2_Missense_Mutation_p.F789C|SYNE2_uc010apz.1_Missense_Mutation_p.F296C	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	4404	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TTCATAGAATTTAATGCTAAG	0.343													48	74					0	0	1	0	0		G	64588782	G	G	64588782	3	3	89	1	0	0	0	0	1	0	0	0	15471	1841	64	5	13481	5	SYNE2	14	64588782	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	46059	64588782	42760758	5029	58860											
ESR2	2100	broad.mit.edu	37	chr14	64727353	64727353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgtccagcagcagctcccGcactcggggcgcgtggccgc	4	4	16	17	6	0	0	0	0	0	0	3	0	2	0	3	4	3	4	3	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:64727353G>A	uc001xha.1	-	5	1234	c.766C>T	c.(766-768)CGG>TGG	p.R256W	ESR2_uc001xgu.2_Missense_Mutation_p.R256W|ESR2_uc001xgv.2_Missense_Mutation_p.R256W|ESR2_uc001xgw.2_RNA|ESR2_uc001xgx.2_Missense_Mutation_p.R256W|ESR2_uc001xgy.1_Missense_Mutation_p.R256W|ESR2_uc001xgz.1_Missense_Mutation_p.R256W|ESR2_uc010aqb.1_RNA|ESR2_uc010aqc.1_Missense_Mutation_p.R256W|ESR2_uc010aqd.1_RNA	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1	256	Steroid-binding.				cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	AGCAGCTCCCGCACTCGGGGC	0.682													19	50					0	0	1	0	0		A	64727353	A	A	64727353	3	1	89	1	0	0	0	0	1	0	0	0	5265	1086	38	1	932	1	ESR2	14	64727353	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	138571	64727353	42622187	5030	58861											
MTHFD1	4522	broad.mit.edu	37	chr14	64915014	64915014	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgtttggaattccagtagTagtggccgtgaatgcattca	11	13	11	6	1	1	1	1	1	0	0	2	2	2	2	2	2	1	4	2	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:64915014T>G	uc001xhb.2	+	23	2645	c.2258T>G	c.(2257-2259)GTA>GGA	p.V753G	MTHFD1_uc010aqf.2_Missense_Mutation_p.V809G	NM_005956	NP_005947	P11586	C1TC_HUMAN	methylenetetrahydrofolate dehydrogenase 1	753	Formyltetrahydrofolate synthetase.				folic acid metabolic process|folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process	cytosol|mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|methylenetetrahydrofolate dehydrogenase|protein binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(108;8.7e-12)|all cancers(60;3.29e-11)|BRCA - Breast invasive adenocarcinoma(234;0.0488)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	ATTCCAGTAGTAGTGGCCGTG	0.393													6	63					0	0	1	0	0		G	64915014	G	G	64915014	3	3	89	1	0	0	0	0	1	0	0	0	9945	1638	57	5	2348	5	MTHFD1	14	64915014	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	187661	64915014	42434526	5031	58862											
C14orf50	145376	broad.mit.edu	37	chr14	65054078	65054078	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaaagaaacgcatgacttTtgttcagttcaggtatgacc	13	11	10	7	1	2	3	2	2	0	1	2	4	2	4	1	2	1	4	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:65054078T>C	uc001xhl.1	+	10	974	c.878T>C	c.(877-879)TTT>TCT	p.F293S	C14orf50_uc001xhm.1_Missense_Mutation_p.F23S	NM_172365	NP_758953	Q96LQ0	CN050_HUMAN	hypothetical protein LOC145376	293										skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00382)|all cancers(60;0.00427)|BRCA - Breast invasive adenocarcinoma(234;0.0488)		CGCATGACTTTTGTTCAGTTC	0.328													18	38					0	0	1	0	0		C	65054078	C	C	65054078	3	2	89	1	0	0	0	0	1	0	0	0	1780	1841	64	3	916	3	C14orf50	14	65054078	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	139064	65054078	42295462	5032	58863											
PLEKHG3	26030	broad.mit.edu	37	chr14	65198128	65198128	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggcccgacctgaccacctAcggggagcttgtcctggagg	6	6	16	13	2	0	1	0	1	0	0	1	4	1	3	5	6	2	1	5	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:65198128A>G	uc001xho.1	+	8	1168	c.899A>G	c.(898-900)TAC>TGC	p.Y300C	PLEKHG3_uc001xhn.1_Missense_Mutation_p.Y244C|PLEKHG3_uc001xhp.2_Missense_Mutation_p.Y300C|PLEKHG3_uc010aqh.1_5'UTR	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	300	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		CTGACCACCTACGGGGAGCTT	0.572													23	48					0	0	1	0	0		G	65198128	G	G	65198128	3	3	89	1	0	0	0	0	1	0	0	0	12089	391	14	3	749	3	PLEKHG3	14	65198128	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	144050	65198128	42151412	5033	58864											
RAB15	376267	broad.mit.edu	37	chr14	65417720	65417720	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaagcatttgccttcccAtctggccctcgccttgcctt	4	13	8	16	1	1	0	0	0	1	0	3	1	2	1	5	2	3	1	5	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:65417720A>G	uc001xhz.2	-	4	477	c.396T>C	c.(394-396)GAT>GAC	p.D132D	FNTB_uc010tsl.1_Intron|FNTB_uc010tsm.1_Intron|RAB15_uc010aqk.2_RNA	NM_198686	NP_941959	P59190	RAB15_HUMAN	RAB15, member RAS onocogene family	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)	1				all cancers(60;0.00136)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.0102)		TTGCCTTCCCATCTGGCCCTC	0.587													26	54					0	0	1	0	0		G	65417720	G	G	65417720	2	3	89	1	0	0	0	0	0	0	0	1	12926	214	8	3		3	RAB15	14	65417720	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	219592	65417720	41931820	5034	58865											
PLEKHH1	57475	broad.mit.edu	37	chr14	68040045	68040045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggggagccaggtgaagaCgtggaagaggcgctggtttg	10	7	19	5	2	0	3	0	1	0	2	0	5	0	5	1	6	1	2	1	6	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:68040045C>T	uc001xjl.1	+	12	1923	c.1781C>T	c.(1780-1782)ACG>ATG	p.T594M	PLEKHH1_uc010tsw.1_Missense_Mutation_p.T162M|PLEKHH1_uc001xjm.1_Missense_Mutation_p.T109M|PLEKHH1_uc001xjn.1_Missense_Mutation_p.T109M	NM_020715	NP_065766	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H	594	PH 1.					cytoskeleton	binding				0				all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)		CAGGTGAAGACGTGGAAGAGG	0.557													11	58					0	0	1	0	0		T	68040045	T	T	68040045	3	4	89	1	0	0	0	0	1	0	0	0	12095	536	19	1	1823	1	PLEKHH1	14	68040045	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2622325	68040045	39309495	5035	58866											
PIGH	5283	broad.mit.edu	37	chr14	68060613	68060613	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatcttcacaaaatggagAtaaccaagcagacctaagag	18	7	7	9	0	3	3	2	0	1	3	3	4	3	3	2	1	2	1	2	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:68060613A>G	uc001xjr.1	-	2	334	c.237T>C	c.(235-237)TAT>TAC	p.Y79Y	PIGH_uc010tsy.1_Silent_p.Y79Y	NM_004569	NP_004560	Q14442	PIGH_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	79					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|mitochondrion|nucleolus	phosphatidylinositol N-acetylglucosaminyltransferase activity			ovary(1)	1				all cancers(60;0.000592)|OV - Ovarian serous cystadenocarcinoma(108;0.00395)|BRCA - Breast invasive adenocarcinoma(234;0.00933)		CAAAATGGAGATAACCAAGCA	0.433													15	36					0	0	1	0	0		G	68060613	G	G	68060613	2	3	89	1	0	0	0	0	0	0	0	1	11908	340	12	3		3	PIGH	14	68060613	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	20568	68060613	39288927	5036	58867											
SFRS5	6430	broad.mit.edu	37	chr14	70235601	70235601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttagtagtcgcagacctcGaaatgatagacggtatgtga	12	12	11	6	3	0	4	0	2	0	2	2	5	0	4	1	1	0	3	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:70235601G>A	uc001xll.2	+	5	1735	c.284G>A	c.(283-285)CGA>CAA	p.R95Q	SFRS5_uc001xlm.2_RNA|SFRS5_uc001xln.1_Missense_Mutation_p.R95Q|SFRS5_uc001xlo.2_Missense_Mutation_p.R95Q|SFRS5_uc001xlp.2_Missense_Mutation_p.R95Q|SFRS5_uc001xlq.2_Missense_Mutation_p.R92Q	NM_006925	NP_008856	Q13243	SRSF5_HUMAN	splicing factor, arginine/serine-rich 5	95					mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|protein binding|RNA binding				0				all cancers(60;0.00144)|BRCA - Breast invasive adenocarcinoma(234;0.0132)|OV - Ovarian serous cystadenocarcinoma(108;0.0154)		CGCAGACCTCGAAATGATAGA	0.448													24	48					0	0	1	0	0		A	70235601	A	A	70235601	3	1	89	1	0	0	0	0	1	0	0	0	14205	1058	37	1	294	1	SFRS5	14	70235601	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2174988	70235601	37113939	5037	58868											
SLC10A1	6554	broad.mit.edu	37	chr14	70252992	70252992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggagaggcatcatgccaaggGcacagaaggtggagcaggtg	12	4	18	7	0	1	2	1	0	0	2	1	4	1	3	1	6	2	3	1	6	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:70252992G>A	uc001xlr.2	-	2	523	c.389C>T	c.(388-390)GCC>GTC	p.A130V		NM_003049	NP_003040	Q14973	NTCP_HUMAN	solute carrier family 10, member 1	130	Helical; (Potential).				bile acid metabolic process|organic anion transport	integral to plasma membrane	bile acid:sodium symporter activity			ovary(1)	1				all cancers(60;0.00228)|BRCA - Breast invasive adenocarcinoma(234;0.0137)|OV - Ovarian serous cystadenocarcinoma(108;0.0226)		CATGCCAAGGGCACAGAAGGT	0.488													23	65					0	0	1	0	0		A	70252992	A	A	70252992	3	1	89	1	0	0	0	0	1	0	0	0	14398	1203	42	2	676	2	SLC10A1	14	70252992	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17391	70252992	37096548	5038	58869											
SLC8A3	6547	broad.mit.edu	37	chr14	70633946	70633946	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagaacatgggtcaaagaaGaccttggaaataaagtcctc	17	8	9	7	0	1	3	1	0	0	3	3	4	2	4	2	2	1	0	2	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:70633946G>T	uc001xly.2	-	2	1948	c.1194C>A	c.(1192-1194)GTC>GTA	p.V398V	SLC8A3_uc001xlw.2_Silent_p.V398V|SLC8A3_uc001xlx.2_Silent_p.V398V|SLC8A3_uc001xlz.2_Silent_p.V398V|SLC8A3_uc010ara.2_RNA	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	398	Calx-beta 1.|Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		GGTCAAAGAAGACCTTGGAAA	0.512													66	130					1.17253e-29	1.43107e-29	1	1	0		T	70633946	T	T	70633946	2	4	89	1	0	0	0	0	0	0	0	1	14733	929	33	5		5	SLC8A3	14	70633946	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	380954	70633946	36715594	5039	58870											
ADAM21	8747	broad.mit.edu	37	chr14	70924659	70924659	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttatgaaattgaacccaTcaggcactctgccacatttg	12	11	6	12	0	2	2	1	2	1	0	2	2	2	2	2	1	2	1	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:70924659T>G	uc001xmd.2	+	1	443	c.443T>G	c.(442-444)ATC>AGC	p.I148S		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	148					proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		ATTGAACCCATCAGGCACTCT	0.443													10	33					0	0	1	0	0		G	70924659	G	G	70924659	3	3	89	1	0	0	0	0	1	0	0	0	243	1435	50	5	445	5	ADAM21	14	70924659	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	290713	70924659	36424881	5040	58871											
ADAM20	8748	broad.mit.edu	37	chr14	70989418	70989418	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacgcaactttcccatcacaTttaatccttccatgttgttc	10	15	3	13	1	1	0	1	0	0	0	5	0	4	0	3	0	2	3	3	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:70989418T>G	uc001xme.2	-	2	2452	c.2207A>C	c.(2206-2208)AAT>ACT	p.N736T		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	686	Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		TCCCATCACATTTAATCCTTC	0.428													42	125					0	0	1	0	0		G	70989418	G	G	70989418	3	3	89	1	0	0	0	0	1	0	0	0	242	1493	52	5	127	5	ADAM20	14	70989418	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	64759	70989418	36360122	5041	58872											
PCNX	22990	broad.mit.edu	37	chr14	71443701	71443701	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcgtcttgtctccaatgActccttcatctctattcagc	6	17	4	14	1	5	1	2	1	3	0	9	1	6	1	2	0	1	0	2	0	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:71443701A>G	uc001xmo.2	+	6	1093	c.647A>G	c.(646-648)GAC>GGC	p.D216G	PCNX_uc001xmn.3_Missense_Mutation_p.D216G|PCNX_uc010are.1_Missense_Mutation_p.D216G	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	216						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		GTCTCCAATGACTCCTTCATC	0.418													34	63					0	0	1	0	0		G	71443701	G	G	71443701	3	3	89	1	0	0	0	0	1	0	0	0	11610	275	10	3	669	3	PCNX	14	71443701	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	454283	71443701	35905839	5042	58873											
PCNX	22990	broad.mit.edu	37	chr14	71455316	71455316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgaggaggcagtgtcatttCgccgtgaacgcagcacattt	9	9	13	10	4	1	1	1	1	0	0	2	3	1	2	1	2	2	3	1	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:71455316C>T	uc001xmo.2	+	7	2790	c.2344C>T	c.(2344-2346)CGC>TGC	p.R782C	PCNX_uc001xmn.3_Missense_Mutation_p.R782C|PCNX_uc010are.1_Intron	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	782						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		AGTGTCATTTCGCCGTGAACG	0.557													51	113					0	0	1	0	0		T	71455316	T	T	71455316	3	4	89	1	0	0	0	0	1	0	0	0	11610	884	31	1	2370	1	PCNX	14	71455316	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11615	71455316	35894224	5043	58874											
PCNX	22990	broad.mit.edu	37	chr14	71555976	71555976	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttccgtatttcttcaattCgagatgaatggatctttgct	9	18	7	7	2	3	2	1	1	2	1	5	4	4	3	1	1	1	2	1	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:71555976C>T	uc001xmo.2	+	30	5952	c.5506C>T	c.(5506-5508)CGA>TGA	p.R1836*	PCNX_uc010are.1_Nonsense_Mutation_p.R1725*|PCNX_uc010arf.1_Nonsense_Mutation_p.R624*	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1836						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		TTCTTCAATTCGAGATGAATG	0.358													38	78					0	0	1	0	0		T	71555976	T	T	71555976	4	4	89	1	0	0	0	0	0	1	0	0	11610	876	31	1	5624	1	PCNX	14	71555976	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	100660	71555976	35793564	5044	58875											
RGS6	9628	broad.mit.edu	37	chr14	72818878	72818878	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagtcaagagctttctcTccaaaatccccagtgtcgtc	11	10	7	13	1	2	1	1	0	1	1	7	2	4	1	3	0	2	1	3	0	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:72818878T>G	uc001xna.3	+	3	683	c.160T>G	c.(160-162)TCC>GCC	p.S54A	RGS6_uc010ttn.1_Missense_Mutation_p.S54A|RGS6_uc001xmx.3_Missense_Mutation_p.S54A|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.S54A	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	54	DEP.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		GAGCTTTCTCTCCAAAATCCC	0.448													11	28					0	0	1	0	0		G	72818878	G	G	72818878	3	3	89	1	0	0	0	0	1	0	0	0	13334	1551	54	5	166	5	RGS6	14	72818878	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1262902	72818878	34530662	5045	58876											
RGS6	9628	broad.mit.edu	37	chr14	72941367	72941367	+	Missense_Mutation	SNP	G	A	A																															cacaacagaaatggatatccGaaaatgtcgacgtttgaaga																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:72941367G>A	uc001xna.3	+	10	1176	c.653G>A	c.(652-654)CGA>CAA	p.R218Q	RGS6_uc010ttn.1_Missense_Mutation_p.R218Q|RGS6_uc001xmx.3_Missense_Mutation_p.R218Q|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.R218Q|RGS6_uc010ttp.1_Missense_Mutation_p.R149Q|RGS6_uc001xmz.1_Missense_Mutation_p.R79Q	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	218					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		ATGGATATCCGAAAATGTCGA	0.363													18	37					0	0	1	0	0		A	72941367	A	A	72941367	3	1	89	1	0	0	0	0	1	0	0	0	13334	1058	37	1	687	1	RGS6	14	72941367	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	122489	72941367	34408173	5046	58877	111	2									
RGS6	9628	broad.mit.edu	37	chr14	72941375	72941375	+	Nonsense_Mutation	SNP	C	T	T																															aaatggatatccgaaaatgtCgacgtttgaagaatccacaa																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:72941375C>T	uc001xna.3	+	10	1184	c.661C>T	c.(661-663)CGA>TGA	p.R221*	RGS6_uc010ttn.1_Nonsense_Mutation_p.R221*|RGS6_uc001xmx.3_Nonsense_Mutation_p.R221*|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Nonsense_Mutation_p.R221*|RGS6_uc010ttp.1_Nonsense_Mutation_p.R152*|RGS6_uc001xmz.1_Nonsense_Mutation_p.R82*	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	221					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		CCGAAAATGTCGACGTTTGAA	0.343													16	36					0	0	1	0	0		T	72941375	T	T	72941375	4	4	89	1	0	0	0	0	0	1	0	0	13334	876	31	1	695	1	RGS6	14	72941375	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8	72941375	34408165	5047	58878	111	2									
DCAF4	26094	broad.mit.edu	37	chr14	73413857	73413857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttcctcaccaggtgaattCggtgtgctgggcctcgctga	5	11	13	12	2	1	2	1	2	0	0	4	2	2	2	3	3	1	3	3	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:73413857C>T	uc001xng.2	+	8	906	c.686C>T	c.(685-687)TCG>TTG	p.S229L	DCAF4_uc001xnj.2_Missense_Mutation_p.S229L|DCAF4_uc010ttr.1_Missense_Mutation_p.S207L|DCAF4_uc001xnh.2_Missense_Mutation_p.S129L|DCAF4_uc010tts.1_Missense_Mutation_p.S168L|DCAF4_uc010ttt.1_Missense_Mutation_p.S14L|DCAF4_uc001xni.2_Intron|DCAF4_uc001xnk.2_Missense_Mutation_p.S229L	NM_015604	NP_056419	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4 isoform 1	229						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)|skin(1)	3						CAGGTGAATTCGGTGTGCTGG	0.507													36	79					0	0	1	0	0		T	73413857	T	T	73413857	3	4	89	1	0	0	0	0	1	0	0	0	4273	893	31	1	712	1	DCAF4	14	73413857	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	472482	73413857	33935683	5048	58879											
ZFYVE1	53349	broad.mit.edu	37	chr14	73464805	73464805	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaggagcccttccgtatcGatcactgctactttgtgaac	8	11	8	14	2	1	1	1	1	0	0	3	3	2	2	3	1	4	2	3	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:73464805G>A	uc001xnm.2	-	3	1342	c.702C>T	c.(700-702)ATC>ATT	p.I234I	ZFYVE1_uc010arj.2_Silent_p.I234I	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	234						endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		CTTCCGTATCGATCACTGCTA	0.542													22	38					0	0	1	0	0		A	73464805	A	A	73464805	2	1	89	1	0	0	0	0	0	0	0	1	17688	1048	37	1		1	ZFYVE1	14	73464805	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	50948	73464805	33884735	5049	58880											
RBM25	58517	broad.mit.edu	37	chr14	73563732	73563732	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagttttaattcgtgaatActccagtgagctaaatgccc	12	13	8	8	1	0	3	0	3	0	0	2	3	1	3	2	0	3	2	2	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:73563732A>C	uc001xno.2	+	7	861	c.653A>C	c.(652-654)TAC>TCC	p.Y218S	RBM25_uc001xnn.3_Missense_Mutation_p.Y218S|RBM25_uc010ttu.1_Missense_Mutation_p.Y218S|RBM25_uc001xnp.2_Missense_Mutation_p.Y13S	NM_021239	NP_067062	P49756	RBM25_HUMAN	RNA binding motif protein 25	218					apoptosis|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|RNA splicing	cytoplasm|nuclear speck	mRNA binding|nucleotide binding|protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)		ATTCGTGAATACTCCAGTGAG	0.418													40	67					0	0	1	0	0		C	73563732	C	C	73563732	3	2	89	1	0	0	0	0	1	0	0	0	13150	391	14	5	675	5	RBM25	14	73563732	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	98927	73563732	33785808	5050	58881											
PSEN1	5663	broad.mit.edu	37	chr14	73685857	73685857	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagggtttgtgccttacaTtattactccttgccattttc	7	17	6	11	0	0	0	0	0	0	0	2	0	1	0	3	1	4	1	3	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:73685857T>G	uc001xnr.2	+	12	1548	c.1264T>G	c.(1264-1266)TTA>GTA	p.L422V	PSEN1_uc001xnv.2_Missense_Mutation_p.L418V|PSEN1_uc010ark.2_Missense_Mutation_p.L418V|PSEN1_uc001xnu.2_RNA	NM_000021	NP_000012	P49768	PSN1_HUMAN	presenilin 1 isoform I-467	422	Required for interaction with CTNNB1.|Poly-Leu.|Helical; (Potential).				amyloid precursor protein catabolic process|anti-apoptosis|beta-amyloid metabolic process|cell-cell adhesion|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|smooth endoplasmic reticulum calcium ion homeostasis	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|gamma-secretase complex|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum|smooth endoplasmic reticulum|Z disc	aspartic-type endopeptidase activity|beta-catenin binding|cadherin binding|calcium channel activity|PDZ domain binding			breast(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.075)		GTGCCTTACATTATTACTCCT	0.398													73	138					0	0	1	0	0		G	73685857	G	G	73685857	3	3	89	1	0	0	0	0	1	0	0	0	12672	1490	52	5	1302	5	PSEN1	14	73685857	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	122125	73685857	33663683	5051	58882											
PAPLN	89932	broad.mit.edu	37	chr14	73732141	73732141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaggccagcggatccggatGacctgccgtgccgaaggctt	7	6	14	14	4	0	1	0	1	0	0	1	4	1	3	6	4	3	1	6	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:73732141G>A	uc010ttx.1	+	22	3352	c.3189G>A	c.(3187-3189)ATG>ATA	p.M1063I	PAPLN_uc001xnw.3_Missense_Mutation_p.M1036I|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.M1047I|PAPLN_uc010arm.2_Missense_Mutation_p.M262I|PAPLN_uc010arn.2_Missense_Mutation_p.M263I	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	1063	Ig-like C2-type 2.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GGATCCGGATGACCTGCCGTG	0.632													27	66					0	0	1	0	0		A	73732141	A	A	73732141	3	1	89	1	0	0	0	0	1	0	0	0	11447	1290	45	4	3190	4	PAPLN	14	73732141	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	46284	73732141	33617399	5052	58883											
C14orf43	91748	broad.mit.edu	37	chr14	74186171	74186171	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagacccaggggcgttggActcgtggctccggaggatga	7	6	18	10	3	0	2	0	1	0	1	2	5	1	5	2	7	0	3	2	7	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:74186171A>G	uc001xot.2	-	12	3754	c.2971T>C	c.(2971-2973)TCC>CCC	p.S991P	C14orf43_uc001xos.2_Missense_Mutation_p.S256P|C14orf43_uc001xou.2_Missense_Mutation_p.S991P|C14orf43_uc010tud.1_Missense_Mutation_p.S991P|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	991					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		GGGGCGTTGGACTCGTGGCTC	0.532													9	14					0	0	1	0	0		G	74186171	G	G	74186171	3	3	89	1	0	0	0	0	1	0	0	0	1777	275	10	3	170	3	C14orf43	14	74186171	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	454030	74186171	33163369	5053	58884											
FAM161B	145483	broad.mit.edu	37	chr14	74404367	74404367	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttcatttcctccagttCtttcttatattctttcgctc	4	21	3	13	1	4	0	1	0	3	0	8	0	6	0	2	0	1	3	2	0	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:74404367C>A	uc001xpd.1	-	7	1709	c.1603G>T	c.(1603-1605)GAA>TAA	p.E535*		NM_152445	NP_689658			hypothetical protein LOC145483											ovary(1)	1						TCCTCCAGTTCTTTCTTATAT	0.358													57	92					4.10029e-35	5.05791e-35	1	1	0		A	74404367	A	A	74404367	4	1	89	1	0	0	0	0	0	1	0	0	5484	922	32	5	352	5	FAM161B	14	74404367	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	218196	74404367	32945173	5054	58885											
FAM161B	145483	broad.mit.edu	37	chr14	74404379	74404379	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagttctttcttatattCtttcgctcttttacggtcat	5	21	4	11	2	5	0	1	0	4	0	7	0	6	0	1	1	1	2	1	1	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:74404379C>A	uc001xpd.1	-	7	1697	c.1591G>T	c.(1591-1593)GAA>TAA	p.E531*		NM_152445	NP_689658			hypothetical protein LOC145483											ovary(1)	1						TTCTTATATTCTTTCGCTCTT	0.358													40	93					2.35958e-20	2.78446e-20	1	1	0		A	74404379	A	A	74404379	4	1	89	1	0	0	0	0	0	1	0	0	5484	922	32	5	364	5	FAM161B	14	74404379	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12	74404379	32945161	5055	58886											
YLPM1	56252	broad.mit.edu	37	chr14	75266073	75266073	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaagaaagaaatcgagAgcatgggtatgatcgagatt	17	7	14	3	2	0	6	0	1	0	5	2	10	0	6	0	1	1	2	0	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:75266073A>G	uc001xqj.3	+	5	4197	c.4073A>G	c.(4072-4074)GAG>GGG	p.E1358G	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1163	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		AGAAATCGAGAGCATGGGTAT	0.473													69	157					0	0	1	0	0		G	75266073	G	G	75266073	3	3	89	1	0	0	0	0	1	0	0	0	17512	304	11	3	4091	3	YLPM1	14	75266073	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	861694	75266073	32083467	5056	58887											
PROX2	283571	broad.mit.edu	37	chr14	75329808	75329808	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtggatccaatagtacctTttgtaataccgagtccacag	11	12	9	9	1	0	0	0	0	0	0	2	2	2	1	4	2	2	2	4	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:75329808T>G	uc001xqr.1	-	1	730	c.730A>C	c.(730-732)AAG>CAG	p.K244Q	PROX2_uc001xqq.1_Missense_Mutation_p.K170Q	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2	244					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		AATAGTACCTTTTGTAATACC	0.572													28	38					0	0	1	0	0		G	75329808	G	G	75329808	3	3	89	1	0	0	0	0	1	0	0	0	12583	1850	64	5	1064	5	PROX2	14	75329808	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	63735	75329808	32019732	5057	58888											
PROX2	283571	broad.mit.edu	37	chr14	75330161	75330161	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacacgagggccccccttcCtgttgccctggtcccaggca	5	8	10	18	1	1	0	1	0	0	0	3	1	3	0	6	3	1	2	6	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:75330161C>A	uc001xqr.1	-	1	377	c.377G>T	c.(376-378)AGG>ATG	p.R126M	PROX2_uc001xqq.1_Missense_Mutation_p.R52M	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2	126					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		GCCCCCCTTCCTGTTGCCCTG	0.597													10	16					1.58986e-06	1.65575e-06	1	1	0		A	75330161	A	A	75330161	3	1	89	1	0	0	0	0	1	0	0	0	12583	681	24	5	1417	5	PROX2	14	75330161	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	353	75330161	32019379	5058	58889											
MLH3	27030	broad.mit.edu	37	chr14	75513607	75513607	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaaataacatacaaaaatCttgtgttaacacactgcaca	18	11	4	8	0	1	0	0	0	1	0	1	0	1	0	0	0	4	3	0	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:75513607C>A	uc001xrd.1	-	2	2968	c.2752G>T	c.(2752-2754)GAT>TAT	p.D918Y	MLH3_uc001xre.1_Missense_Mutation_p.D918Y|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	918					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		ATACAAAAATCTTGTGTTAAC	0.348								MMR					71	131					1.77791e-30	2.17416e-30	1	1	0		A	75513607	A	A	75513607	3	1	89	1	0	0	0	0	1	0	0	0	9636	913	32	5	1657	5	MLH3	14	75513607	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	183446	75513607	31835933	5059	58890											
FAM164C	79696	broad.mit.edu	37	chr14	75537991	75537991	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctgaggggaaagctgAagaagacagaggaggaactc	14	6	14	7	0	1	5	0	2	1	3	3	8	1	8	1	4	2	1	1	4	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:75537991A>C	uc001xri.2	+	2	888	c.715A>C	c.(715-717)AAG>CAG	p.K239Q	FAM164C_uc001xrh.2_Missense_Mutation_p.K239Q	NM_001042430	NP_001035895	Q53FD0	F164C_HUMAN	chromosome 14 open reading frame 140 isoform b	239	Potential.									ovary(1)	1						GGGAAAGCTGAAGAAGACAGA	0.502													35	45					0	0	1	0	0		C	75537991	C	C	75537991	3	2	89	1	0	0	0	0	1	0	0	0	5490	247	9	5	717	5	FAM164C	14	75537991	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	24384	75537991	31811549	5060	58891											
FOS	2353	broad.mit.edu	37	chr14	75747600	75747600	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccgacctgcctgcaagAtccctgatgacctgggcttc	7	9	9	16	1	1	3	1	2	0	1	3	4	2	3	5	1	2	2	5	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:75747600A>G	uc001xrn.2	+	4	821	c.616A>G	c.(616-618)ATC>GTC	p.I206V	FOS_uc010tva.1_Missense_Mutation_p.I170V|FOS_uc010asi.2_Missense_Mutation_p.I92V|FOS_uc001xro.2_Missense_Mutation_p.I58V	NM_005252	NP_005243	P01100	FOS_HUMAN	v-fos FBJ murine osteosarcoma viral oncogene	206					cellular response to reactive oxygen species|DNA methylation|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|SMAD protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter|transforming growth factor beta receptor signaling pathway		protein dimerization activity|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(2)|ovary(1)	3		all_lung(585;0.0138)|all_epithelial(191;0.0263)|all_neural(303;0.112)		BRCA - Breast invasive adenocarcinoma(234;0.0117)		TGCCTGCAAGATCCCTGATGA	0.557													41	104					0	0	1	0	0		G	75747600	G	G	75747600	3	3	89	1	0	0	0	0	1	0	0	0	5999	333	12	3	630	3	FOS	14	75747600	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	209609	75747600	31601940	5061	58892											
TTLL5	23093	broad.mit.edu	37	chr14	76330084	76330084	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaggctacaggggtggTcccccagcacaagtatcacc	10	5	11	15	0	1	0	1	0	0	0	2	0	2	0	4	4	3	3	4	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:76330084T>C	uc001xrx.2	+	29	3606	c.3401T>C	c.(3400-3402)GTC>GCC	p.V1134A	TTLL5_uc010ask.1_Missense_Mutation_p.V1149A|TTLL5_uc001xrz.2_Missense_Mutation_p.V709A|TTLL5_uc001xsa.2_Missense_Mutation_p.V208A	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	1134					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		ACAGGGGTGGTCCCCCAGCAC	0.532													28	88					0	0	1	0	0		C	76330084	C	C	76330084	3	2	89	1	0	0	0	0	1	0	0	0	16756	1667	58	3	3511	3	TTLL5	14	76330084	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	582484	76330084	31019456	5062	58893											
C14orf179	112752	broad.mit.edu	37	chr14	76549621	76549621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtgctcgcgccggagcacGaagtccgggaggtacagtgg	9	5	17	10	5	0	0	0	0	0	0	2	3	1	2	2	4	3	3	2	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:76549621G>A	uc010asm.1	+	8	530	c.496G>A	c.(496-498)GAA>AAA	p.E166K	C14orf179_uc001xsg.2_Missense_Mutation_p.E171K|C14orf179_uc010tve.1_RNA	NM_001102564	NP_001096034	Q96FT9	IFT43_HUMAN	hypothetical protein LOC112752 isoform 2	166					cilium morphogenesis|intraflagellar retrograde transport						0				BRCA - Breast invasive adenocarcinoma(234;0.0199)		GCCGGAGCACGAAGTCCGGGA	0.592													10	30					0	0	1	0	0		A	76549621	A	A	76549621	3	1	89	1	0	0	0	0	1	0	0	0	1765	1059	37	1	625	1	C14orf179	14	76549621	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	219537	76549621	30799919	5063	58894											
ESRRB	2103	broad.mit.edu	37	chr14	76905998	76905998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaacgccatccccaagcGcctgtgcctcgtgtgcgggg	5	7	13	16	4	1	0	1	0	0	0	3	0	2	0	5	2	4	1	5	2	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:76905998G>A	uc001xsq.1	+	2	369	c.302G>A	c.(301-303)CGC>CAC	p.R101H	ESRRB_uc001xsr.2_Missense_Mutation_p.R101H|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	101						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		ATCCCCAAGCGCCTGTGCCTC	0.622													18	43					0	0	1	0	0		A	76905998	A	A	76905998	3	1	89	1	0	0	0	0	1	0	0	0	5269	1087	38	1	304	1	ESRRB	14	76905998	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	356377	76905998	30443542	5064	58895											
VASH1	22846	broad.mit.edu	37	chr14	77236322	77236322	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatccccataccgagtgTgcctacgttccagccgtcta	8	9	8	16	3	1	1	0	0	1	1	3	2	3	1	7	0	4	1	7	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:77236322T>G	uc001xst.2	+	2	1256	c.326T>G	c.(325-327)GTG>GGG	p.V109G	VASH1_uc001xss.2_Missense_Mutation_p.V109G	NM_014909	NP_055724	Q7L8A9	VASH1_HUMAN	vasohibin 1	109					cell cycle arrest|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of endothelial cell proliferation	endoplasmic reticulum|extracellular space					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0283)		ATACCGAGTGTGCCTACGTTC	0.587													31	97					0	0	1	0	0		G	77236322	G	G	77236322	3	3	89	1	0	0	0	0	1	0	0	0	17151	1696	59	5	332	5	VASH1	14	77236322	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	330324	77236322	30113218	5065	58896											
KIAA1737	85457	broad.mit.edu	37	chr14	77580408	77580408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggcagagcaaacataggcGctttcagaataccctagtag	13	7	11	10	2	1	2	1	0	0	2	1	2	1	2	1	2	3	4	1	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:77580408G>A	uc001xtd.2	+	4	1126	c.947G>A	c.(946-948)CGC>CAC	p.R316H	KIAA1737_uc001xtc.1_Missense_Mutation_p.R218H	NM_033426	NP_219494	Q9C0C6	K1737_HUMAN	KIAA1737 protein	316											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		AAACATAGGCGCTTTCAGAAT	0.473													21	52					0	0	1	0	0		A	77580408	A	A	77580408	3	1	89	1	0	0	0	0	1	0	0	0	8271	1087	38	1	957	1	KIAA1737	14	77580408	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	344086	77580408	29769132	5066	58897											
POMT2	29954	broad.mit.edu	37	chr14	77746389	77746389	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaagcagatagactcggAaatctgtgtcattgacccct	11	10	9	11	1	2	3	1	1	1	2	3	4	2	4	3	1	2	1	3	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:77746389A>G	uc001xti.2	-	17	1961	c.1760T>C	c.(1759-1761)TTC>TCC	p.F587S	POMT2_uc001xth.1_Missense_Mutation_p.F285S	NM_013382	NP_037514	Q9UKY4	POMT2_HUMAN	protein-O-mannosyltransferase 2	587					protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)		ATAGACTCGGAAATCTGTGTC	0.607													7	54					0	0	1	0	0		G	77746389	G	G	77746389	3	3	89	1	0	0	0	0	1	0	0	0	12265	246	9	3	512	3	POMT2	14	77746389	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	165981	77746389	29603151	5067	58898											
C14orf174	161394	broad.mit.edu	37	chr14	77844125	77844125	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggagagtttttcaaagatTtggaggcccctatggatgaa	11	12	13	5	0	1	3	1	1	0	2	1	6	1	5	2	4	0	1	2	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:77844125T>G	uc001xtq.1	+	1	364	c.364T>G	c.(364-366)TTG>GTG	p.L122V	TMED8_uc010ast.1_5'Flank|TMED8_uc001xto.1_5'Flank	NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	122											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		TTTCAAAGATTTGGAGGCCCC	0.468													78	143					0	0	1	0	0		G	77844125	G	G	77844125	3	3	89	1	0	0	0	0	1	0	0	0	1762	1838	64	5	366	5	C14orf174	14	77844125	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	97736	77844125	29505415	5068	58899											
C14orf156	81892	broad.mit.edu	37	chr14	78177209	78177209	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagaacactttgcacagttCggccatgtcagaaggtgcat	13	9	10	9	1	1	2	1	0	0	2	2	2	1	2	1	2	3	3	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:78177209C>T	uc001xue.3	+	2	156	c.126C>T	c.(124-126)TTC>TTT	p.F42F	ALKBH1_uc001xuc.1_5'Flank|ALKBH1_uc001xud.1_5'Flank	NM_031210	NP_112487	Q9GZT3	SLIRP_HUMAN	SRA stem-loop-interacting RNA-binding protein	42	RRM.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	nucleotide binding|RNA binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0276)		TTGCACAGTTCGGCCATGTCA	0.269													28	66					0	0	1	0	0		T	78177209	T	T	78177209	2	4	89	1	0	0	0	0	0	0	0	1	1757	883	31	1		1	C14orf156	14	78177209	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	333084	78177209	29172331	5069	58900											
SNW1	22938	broad.mit.edu	37	chr14	78198843	78198843	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaaccttccgatcagcaatGtagagggcttctgccaattt	10	11	8	12	1	2	1	1	0	1	1	3	2	3	1	4	1	3	3	4	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:78198843G>T	uc001xuf.2	-	9	903	c.876C>A	c.(874-876)TAC>TAA	p.Y292*	SNW1_uc010tvm.1_Nonsense_Mutation_p.Y217*|SNW1_uc010asu.2_Nonsense_Mutation_p.Y130*|SNW1_uc010tvn.1_Nonsense_Mutation_p.Y292*	NM_012245	NP_036377	Q13573	SNW1_HUMAN	SKI-interacting protein	292	SNW.				negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|regulation of transcription from RNA polymerase II promoter	catalytic step 2 spliceosome|nucleoplasm	Notch binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		GATCAGCAATGTAGAGGGCTT	0.358													30	72					4.74835e-14	5.33807e-14	1	1	0		T	78198843	T	T	78198843	4	4	89	1	0	0	0	0	0	1	0	0	14904	1372	48	5	758	5	SNW1	14	78198843	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21634	78198843	29150697	5070	58901											
NRXN3	9369	broad.mit.edu	37	chr14	78709752	78709752	+	RNA	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccaacaagcaggtgaatGacagcagctggcacttcctc	11	8	10	12	0	0	2	0	2	0	0	3	2	2	2	2	2	4	4	2	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:78709752G>T	uc001xum.1	+	2		c.1109G>T						Q9Y4C0	NRX3A_HUMAN	Homo sapiens mRNA for KIAA0743 protein, partial cds.						axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GCAGGTGAATGACAGCAGCTG	0.642													7	5					8.12818e-05	8.32951e-05	1	1	0		T	78709752	T	T	78709752	1	4	89	0	1	0	0	0	0	0	0	0	10686	1305	45	5		5	NRXN3	14	78709752	RNA	SNP	G	TCGA-BR-8680-01A-11D-2394-08	510909	78709752	28639788	5071	58902											
NRXN3	9369	broad.mit.edu	37	chr14	79454449	79454449	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcttcacctgtgattgttCtatgacctcttattctggaa	7	16	9	9	0	4	2	1	2	3	0	4	3	4	3	2	2	0	2	2	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:79454449C>A	uc001xun.2	+	12	2599	c.2108C>A	c.(2107-2109)TCT>TAT	p.S703Y	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.S828Y	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1076	EGF-like 3.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		TGTGATTGTTCTATGACCTCT	0.443													35	81					6.97489e-18	8.11623e-18	1	1	0		A	79454449	A	A	79454449	3	1	89	1	0	0	0	0	1	0	0	0	10686	913	32	5	2146	5	NRXN3	14	79454449	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	744697	79454449	27895091	5072	58903											
C14orf145	145508	broad.mit.edu	37	chr14	81259399	81259399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattctggatctccttaagtCgatccaacatctgcagttgc	9	13	8	11	1	3	0	0	0	3	0	6	3	4	1	2	1	3	2	2	1	2	3	rs138323270		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:81259399C>T	uc001xux.2	-	13	1436	c.1265G>A	c.(1264-1266)CGA>CAA	p.R422Q	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	422	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		CTCCTTAAGTCGATCCAACAT	0.453													29	66					0	0	1	0	0		T	81259399	T	T	81259399	3	4	89	1	0	0	0	0	1	0	0	0	1752	884	31	1	2067	1	C14orf145	14	81259399	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1804950	81259399	26090141	5073	58904											
TSHR	7253	broad.mit.edu	37	chr14	81606118	81606118	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacctggactcttaagaaacTtccactttccttgagtttcc	9	14	5	13	0	1	2	0	1	1	1	4	3	4	3	4	1	1	1	4	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:81606118T>C	uc001xvd.1	+	9	944	c.788T>C	c.(787-789)CTT>CCT	p.L263P		NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	263	Extracellular (Potential).|LRR 7.				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	CTTAAGAAACTTCCACTTTCC	0.488			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						24	50					0	0	1	0	0		C	81606118	C	C	81606118	3	2	89	1	0	0	0	0	1	0	0	0	16648	1609	56	3	959	3	TSHR	14	81606118	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	346719	81606118	25743422	5074	58905											
FLRT2	23768	broad.mit.edu	37	chr14	86088405	86088405	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgggcttcctgtggacttgCaagagctgagagtggatgaa	9	11	15	6	0	0	3	0	2	0	2	1	6	1	5	1	3	2	3	1	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:86088405C>A	uc001xvr.2	+	2	1314	c.547C>A	c.(547-549)CAA>AAA	p.Q183K	FLRT2_uc010atd.2_Missense_Mutation_p.Q183K	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	183	Extracellular (Potential).|LRR 6.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		TGTGGACTTGCAAGAGCTGAG	0.507													21	43					1.96292e-10	2.12899e-10	1	1	0		A	86088405	A	A	86088405	3	1	89	1	0	0	0	0	1	0	0	0	5953	711	25	5	549	5	FLRT2	14	86088405	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4482287	86088405	21261135	5075	58906											
GALC	2581	broad.mit.edu	37	chr14	88416242	88416242	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggatgtttttccaagttTggtataccatacctgtagct	8	17	8	8	1	0	0	0	0	0	0	2	1	1	1	3	2	3	5	3	2	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:88416242T>C	uc001xvt.2	-	12	1684	c.1285A>G	c.(1285-1287)AAA>GAA	p.K429E	GALC_uc010tvw.1_RNA|GALC_uc010tvx.1_Missense_Mutation_p.K403E|GALC_uc010tvy.1_Missense_Mutation_p.K406E|GALC_uc010tvz.1_Missense_Mutation_p.K373E	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	429					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0						TTTCCAAGTTTGGTATACCAT	0.328													32	71					0	0	1	0	0		C	88416242	C	C	88416242	3	2	89	1	0	0	0	0	1	0	0	0	6216	1821	63	3	796	3	GALC	14	88416242	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2327837	88416242	18933298	5076	58907											
PTPN21	11099	broad.mit.edu	37	chr14	88945316	88945316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcccagagagaaggtccGacaccggccttttcttcaga	9	10	9	13	2	3	3	1	0	2	3	5	5	5	3	4	2	0	0	4	2	1	4	rs147166836	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:88945316G>A	uc001xwv.3	-	13	2790	c.2459C>T	c.(2458-2460)TCG>TTG	p.S820L	PTPN21_uc010twc.1_Missense_Mutation_p.S616L	NM_007039	NP_008970	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type	820						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			ovary(3)|skin(1)	4						GAGAAGGTCCGACACCGGCCT	0.662													35	67					0	0	1	0	0		A	88945316	A	A	88945316	3	1	89	1	0	0	0	0	1	0	0	0	12811	1059	37	1	1093	1	PTPN21	14	88945316	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	529074	88945316	18404224	5077	58908											
EML5	161436	broad.mit.edu	37	chr14	89087177	89087177	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactagtaaaatgataaattCtccatttttcattccaatag	15	15	3	8	0	2	1	1	1	1	0	4	1	3	1	2	0	0	1	2	0	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:89087177C>A	uc001xxg.2	-	39	5482	c.5296G>T	c.(5296-5298)GAA>TAA	p.E1766*	EML5_uc001xxf.2_Nonsense_Mutation_p.E553*|EML5_uc001xxd.2_5'Flank|EML5_uc001xxe.2_Nonsense_Mutation_p.E115*	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	1758	WD 26.					cytoplasm|microtubule				ovary(3)	3						ATGATAAATTCTCCATTTTTC	0.388													6	13					0.00198382	0.00200883	1	1	0		A	89087177	A	A	89087177	4	1	89	1	0	0	0	0	0	1	0	0	5108	922	32	5	661	5	EML5	14	89087177	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	141861	89087177	18262363	5078	58909											
TDP1	55775	broad.mit.edu	37	chr14	90429695	90429695	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcccaaaaggcagaaaagCggttcccaggaggacctcgg	12	4	12	13	2	0	1	0	0	0	1	3	3	2	3	4	5	1	2	4	5	4	1	rs143839052	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:90429695C>T	uc001xxy.2	+	3	536	c.237C>T	c.(235-237)AGC>AGT	p.S79S	TDP1_uc010atm.2_RNA|TDP1_uc001xxz.2_Silent_p.S79S|TDP1_uc010atn.2_Silent_p.S79S|TDP1_uc001xya.2_5'UTR|TDP1_uc001xyb.2_RNA|TDP1_uc010ato.2_Silent_p.S79S|TDP1_uc001xyc.1_Silent_p.S79S	NM_018319	NP_060789	Q9NUW8	TYDP1_HUMAN	tyrosyl-DNA phosphodiesterase 1	79					cell death|double-strand break repair|single strand break repair	cytoplasm|nucleus	3'-tyrosyl-DNA phosphodiesterase activity|double-stranded DNA binding|exonuclease activity|protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(154;0.185)		COAD - Colon adenocarcinoma(157;0.23)		GGCAGAAAAGCGGTTCCCAGG	0.498								Repair_of_DNA-protein_crosslinks					42	102					0	0	1	0	0		T	90429695	T	T	90429695	2	4	89	1	0	0	0	0	0	0	0	1	15753	767	27	1		1	TDP1	14	90429695	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1342518	90429695	16919845	5079	58910											
KCNK13	56659	broad.mit.edu	37	chr14	90651298	90651298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attctcagggggggtgggagCctttgcaatcatgaacaaca	11	9	13	8	0	2	1	2	1	1	0	3	2	2	2	1	4	4	1	1	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:90651298C>T	uc001xye.1	+	2	1620	c.1178C>T	c.(1177-1179)GCC>GTC	p.A393V		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	393	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				GGGGTGGGAGCCTTTGCAATC	0.577													10	21					0	0	1	0	0		T	90651298	T	T	90651298	3	4	89	1	0	0	0	0	1	0	0	0	8077	739	26	2	1184	2	KCNK13	14	90651298	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	221603	90651298	16698242	5080	58911											
CCDC88C	440193	broad.mit.edu	37	chr14	91760555	91760555	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggtactgctccttgttCtccatgttctgctccagaag	6	15	8	12	0	3	1	1	0	2	1	6	1	5	1	3	1	3	5	3	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:91760555C>A	uc010aty.2	-	23	4173	c.4074G>T	c.(4072-4074)GAG>GAT	p.E1358D		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	1358	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				GCTCCTTGTTCTCCATGTTCT	0.547													65	123					5.10652e-33	6.27364e-33	1	1	0		A	91760555	A	A	91760555	3	1	89	1	0	0	0	0	1	0	0	0	2868	912	32	5	2044	5	CCDC88C	14	91760555	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1109257	91760555	15588985	5081	58912											
CCDC88C	440193	broad.mit.edu	37	chr14	91779779	91779779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcagcgcctggcgctcaGcctccagctcgcccagctca	5	5	11	20	4	2	0	2	0	0	0	4	0	3	0	5	1	4	4	5	1	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:91779779G>A	uc010aty.2	-	15	2480	c.2381C>T	c.(2380-2382)GCT>GTT	p.A794V		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	794	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				CTGGCGCTCAGCCTCCAGCTC	0.677													13	29					0	0	1	0	0		A	91779779	A	A	91779779	3	1	89	1	0	0	0	0	1	0	0	0	2868	971	34	2	3769	2	CCDC88C	14	91779779	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	19224	91779779	15569761	5082	58913											
CATSPERB	79820	broad.mit.edu	37	chr14	92088254	92088254	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactacagtcttctctataTctgtatcttcaaacaaggcc	11	13	5	12	0	5	0	1	0	4	0	6	0	5	0	1	1	2	2	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:92088254T>G	uc001xzs.1	-	19	2098	c.1958A>C	c.(1957-1959)GAT>GCT	p.D653A	CATSPERB_uc010aub.1_Missense_Mutation_p.D175A	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	653					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				CTTCTCTATATCTGTATCTTC	0.393													17	24					0	0	1	0	0		G	92088254	G	G	92088254	3	3	89	1	0	0	0	0	1	0	0	0	2694	1435	50	5	1428	5	CATSPERB	14	92088254	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	308475	92088254	15261286	5083	58914											
CATSPERB	79820	broad.mit.edu	37	chr14	92139258	92139258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accacgctcttggtcaacaaGaaatgttagcacagttggaa	14	9	9	9	1	2	1	1	0	1	1	2	2	2	2	1	2	2	4	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:92139258G>A	uc001xzs.1	-	13	1221	c.1081C>T	c.(1081-1083)CTT>TTT	p.L361F	CATSPERB_uc010aub.1_5'Flank	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	361					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				TGGTCAACAAGAAATGTTAGC	0.358													55	117					0	0	1	0	0		A	92139258	A	A	92139258	3	1	89	1	0	0	0	0	1	0	0	0	2694	942	33	4	2329	4	CATSPERB	14	92139258	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	51004	92139258	15210282	5084	58915											
TRIP11	9321	broad.mit.edu	37	chr14	92491676	92491676	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttttgttgaagttgatttCggtaacttgtagattgctgc	7	19	10	5	1	0	3	0	2	0	1	1	3	0	3	0	1	3	5	0	1	3	9	rs148084609		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:92491676C>T	uc001xzy.2	-	3	1078	c.290G>A	c.(289-291)CGA>CAA	p.R97Q		NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	97	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		AAGTTGATTTCGGTAACTTGT	0.294			T	PDGFRB	AML								8	31					0	0	1	0	0		T	92491676	T	T	92491676	3	4	89	1	0	0	0	0	1	0	0	0	16581	884	31	1	5725	1	TRIP11	14	92491676	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	352418	92491676	14857864	5085	58916											
ATXN3	4287	broad.mit.edu	37	chr14	92530710	92530710	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttctgacagtttctaaaGacatggtcacagctgcctga	11	12	8	10	0	3	3	1	2	2	1	3	3	3	3	1	1	2	2	1	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:92530710G>T	uc001yac.3	-	11	1109	c.1040C>A	c.(1039-1041)TCT>TAT	p.S347Y	ATXN3_uc010aug.2_Missense_Mutation_p.S332Y|ATXN3_uc001yad.3_Missense_Mutation_p.S292Y|ATXN3_uc010auh.2_Missense_Mutation_p.S281Y|ATXN3_uc001yae.3_Missense_Mutation_p.S249Y	NM_004993	NP_004984	P54252	ATX3_HUMAN	ataxin 3 reference isoform	Error:Variant_position_missing_in_P54252_after_alignment					cell death|nervous system development|nucleotide-excision repair|regulation of transcription, DNA-dependent|synaptic transmission|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleoplasm	cysteine-type peptidase activity|protein binding				0		all_cancers(154;0.0768)		COAD - Colon adenocarcinoma(157;0.224)		AGTTTCTAAAGACATGGTCAC	0.318													38	79					8.01111e-26	9.67379e-26	1	1	0		T	92530710	T	T	92530710	3	4	89	1	0	0	0	0	1	0	0	0	1214	942	33	5	49	5	ATXN3	14	92530710	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	39034	92530710	14818830	5086	58917											
CPSF2	53981	broad.mit.edu	37	chr14	92609458	92609458	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttctgacttggcccgtgtAcctagccctaaagttgtact	7	14	8	12	1	1	1	0	1	1	0	1	1	1	1	3	1	3	3	3	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:92609458A>G	uc001yah.1	+	9	1197	c.960A>G	c.(958-960)GTA>GTG	p.V320V		NM_017437	NP_059133	Q9P2I0	CPSF2_HUMAN	cleavage and polyadenylation specific factor 2	320					histone mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	hydrolase activity|protein binding|RNA binding			ovary(2)	2		all_cancers(154;0.0766)		COAD - Colon adenocarcinoma(157;0.222)		TGGCCCGTGTACCTAGCCCTA	0.418													33	43					0	0	1	0	0		G	92609458	G	G	92609458	2	3	89	1	0	0	0	0	0	0	0	1	3828	378	14	3		3	CPSF2	14	92609458	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	78748	92609458	14740082	5087	58918											
GOLGA5	9950	broad.mit.edu	37	chr14	93263988	93263988	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatttcatcagcagctgataAcattcgaaatcaaaaagcca	17	10	5	9	1	3	1	3	1	0	0	4	2	3	1	1	0	4	2	1	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:93263988A>C	uc001yaz.1	+	2	388	c.206A>C	c.(205-207)AAC>ACC	p.N69T		NM_005113	NP_005104	Q8TBA6	GOGA5_HUMAN	Golgi autoantigen, golgin subfamily a, 5	69	Cytoplasmic (Potential).				Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		GCAGCTGATAACATTCGAAAT	0.388			T	RET	papillary thyroid								32	77					0	0	1	0	0		C	93263988	C	C	93263988	3	2	89	1	0	0	0	0	1	0	0	0	6571	43	2	5	208	5	GOLGA5	14	93263988	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	654530	93263988	14085552	5088	58919											
GOLGA5	9950	broad.mit.edu	37	chr14	93301978	93301978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggaatgtacggaaaagttCgcaaagctgctagttcaatt	14	10	10	7	2	1	0	1	0	0	0	2	2	1	2	0	2	3	6	0	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:93301978C>T	uc001yaz.1	+	11	2202	c.2020C>T	c.(2020-2022)CGC>TGC	p.R674C	GOLGA5_uc001yba.1_Missense_Mutation_p.R71C	NM_005113	NP_005104	Q8TBA6	GOGA5_HUMAN	Golgi autoantigen, golgin subfamily a, 5	674	Cytoplasmic (Potential).				Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		CGGAAAAGTTCGCAAAGCTGC	0.383			T	RET	papillary thyroid								10	33					0	0	1	0	0		T	93301978	T	T	93301978	3	4	89	1	0	0	0	0	1	0	0	0	6571	884	31	1	2058	1	GOLGA5	14	93301978	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	37990	93301978	14047562	5089	58920											
GOLGA5	9950	broad.mit.edu	37	chr14	93303754	93303754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgcctgggaatttttctccGaagataccccatagcgcgag	9	10	10	12	4	1	1	0	0	1	1	3	4	1	2	4	1	2	0	4	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:93303754G>A	uc001yaz.1	+	12	2257	c.2075G>A	c.(2074-2076)CGA>CAA	p.R692Q	GOLGA5_uc001yba.1_Intron	NM_005113	NP_005104	Q8TBA6	GOGA5_HUMAN	Golgi autoantigen, golgin subfamily a, 5	692	Cytoplasmic (Potential).				Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		ATTTTTCTCCGAAGATACCCC	0.348			T	RET	papillary thyroid								83	190					0	0	1	0	0		A	93303754	A	A	93303754	3	1	89	1	0	0	0	0	1	0	0	0	6571	1058	37	1	2117	1	GOLGA5	14	93303754	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1776	93303754	14045786	5090	58921											
C14orf142	84520	broad.mit.edu	37	chr14	93673210	93673210	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagccgccgccacccggTgctgcacttccccctgtacc	4	7	10	20	3	0	0	0	0	0	0	1	1	1	1	7	2	4	3	7	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:93673210T>C	uc001ybl.1	-	1	250	c.173A>G	c.(172-174)CAC>CGC	p.H58R	UBR7_uc001ybm.3_5'Flank|UBR7_uc001ybn.3_5'Flank|UBR7_uc010auq.2_5'Flank	NM_032490	NP_115879	Q9BXV9	CN142_HUMAN	hypothetical protein LOC84520	58											0		all_cancers(154;0.00528)|Acute lymphoblastic leukemia(33;0.0497)|all_epithelial(191;0.125)|all_neural(303;0.13)		Epithelial(152;0.177)|all cancers(159;0.198)|COAD - Colon adenocarcinoma(157;0.203)		CGCCACCCGGTGCTGCACTTC	0.642											OREG0022885	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	40					0	0	1	0	0		C	93673210	C	C	93673210	3	2	89	1	0	0	0	0	1	0	0	0	1750	1696	59	3	137	3	C14orf142	14	93673210	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	369456	93673210	13676330	5091	58922											
C14orf142	84520	broad.mit.edu	37	chr14	93673258	93673258	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaataattccgttaccatgTccttcatctgggccacgcca	9	11	7	14	3	2	0	1	0	1	0	4	1	4	0	5	1	1	1	5	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:93673258T>C	uc001ybl.1	-	1	202	c.125A>G	c.(124-126)GAC>GGC	p.D42G	UBR7_uc001ybm.3_5'Flank|UBR7_uc001ybn.3_5'Flank|UBR7_uc010auq.2_5'Flank	NM_032490	NP_115879	Q9BXV9	CN142_HUMAN	hypothetical protein LOC84520	42											0		all_cancers(154;0.00528)|Acute lymphoblastic leukemia(33;0.0497)|all_epithelial(191;0.125)|all_neural(303;0.13)		Epithelial(152;0.177)|all cancers(159;0.198)|COAD - Colon adenocarcinoma(157;0.203)		CGTTACCATGTCCTTCATCTG	0.642											OREG0022885	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	43					0	0	1	0	0		C	93673258	C	C	93673258	3	2	89	1	0	0	0	0	1	0	0	0	1750	1667	58	3	185	3	C14orf142	14	93673258	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	48	93673258	13676282	5092	58923											
UBR7	55148	broad.mit.edu	37	chr14	93686640	93686640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattcctgacagatgaatacGacacagttctggcttatgaa	13	12	8	8	1	1	4	0	3	1	1	2	5	2	4	1	1	1	2	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:93686640G>A	uc001ybm.3	+	9	1242	c.1006G>A	c.(1006-1008)GAC>AAC	p.D336N	UBR7_uc001ybn.3_Missense_Mutation_p.D260N|UBR7_uc010auq.2_Missense_Mutation_p.D185N	NM_175748	NP_786924	Q8N806	UBR7_HUMAN	ubiquitin protein ligase E3 component n-recognin	336							ubiquitin-protein ligase activity|zinc ion binding				0						AGATGAATACGACACAGTTCT	0.403													40	95					0	0	1	0	0		A	93686640	A	A	93686640	3	1	89	1	0	0	0	0	1	0	0	0	16932	1058	37	1	1040	1	UBR7	14	93686640	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13382	93686640	13662900	5093	58924											
KIAA1409	57578	broad.mit.edu	37	chr14	94071295	94071295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagctctcggtgggacacccGaacagacgccaggtgggtac	9	5	14	13	3	1	1	0	0	1	1	2	3	1	2	2	4	3	2	2	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:94071295G>A	uc001ybv.1	+	24	3360	c.3277G>A	c.(3277-3279)GAA>AAA	p.E1093K	KIAA1409_uc001ybs.1_Intron	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TGGGACACCCGAACAGACGCC	0.478													8	12					0	0	1	0	0		A	94071295	A	A	94071295	3	1	89	1	0	0	0	0	1	0	0	0	8246	1073	37	1		1	KIAA1409	14	94071295	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	384655	94071295	13278245	5094	58925											
KIAA1409	57578	broad.mit.edu	37	chr14	94088081	94088081	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctctttcaaacaaaaatCtcttgatatagggaatgcag	15	11	7	8	1	3	1	1	1	2	0	4	2	3	2	0	1	2	2	0	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:94088081C>A	uc001ybv.1	+	28	4120	c.4037C>A	c.(4036-4038)TCT>TAT	p.S1346Y	KIAA1409_uc001ybs.1_Missense_Mutation_p.S1324Y	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1501						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		AAACAAAAATCTCTTGATATA	0.433													29	74					7.01153e-11	7.64216e-11	1	1	0		A	94088081	A	A	94088081	3	1	89	1	0	0	0	0	1	0	0	0	8246	913	32	5	4077	5	KIAA1409	14	94088081	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	16786	94088081	13261459	5095	58926											
FAM181A	90050	broad.mit.edu	37	chr14	94394942	94394942	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggtgctgaggaacccctAcagggaggaatgtcttgcta	11	8	14	8	0	1	1	0	1	1	0	1	5	1	4	2	4	4	2	2	4	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:94394942A>G	uc001ybz.1	+	3	804	c.497A>G	c.(496-498)TAC>TGC	p.Y166C	C14orf86_uc001yby.2_5'Flank|FAM181A_uc010aus.1_Missense_Mutation_p.Y104C|FAM181A_uc001yca.1_Missense_Mutation_p.Y104C	NM_138344	NP_612353	Q8N9Y4	F181A_HUMAN	hypothetical protein LOC90050	166											0						AGGAACCCCTACAGGGAGGAA	0.647													10	29					0	0	1	0	0		G	94394942	G	G	94394942	3	3	89	1	0	0	0	0	1	0	0	0	5519	391	14	3	503	3	FAM181A	14	94394942	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	306861	94394942	12954598	5096	58927											
ASB2	51676	broad.mit.edu	37	chr14	94405676	94405676	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgatataggcgtcgatgttCgcgccgtggtccagcagcag	7	8	15	11	6	0	0	0	0	0	0	3	2	1	0	2	2	2	3	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:94405676C>T	uc001ycc.1	-	6	1740	c.1251G>A	c.(1249-1251)GCG>GCA	p.A417A	ASB2_uc001ycb.1_Silent_p.A111A|ASB2_uc001ycd.2_Silent_p.A465A|ASB2_uc001yce.1_Silent_p.A363A	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	417	ANK 11.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		CGTCGATGTTCGCGCCGTGGT	0.652													18	44					0	0	1	0	0		T	94405676	T	T	94405676	2	4	89	1	0	0	0	0	0	0	0	1	1024	871	31	1		1	ASB2	14	94405676	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10734	94405676	12943864	5097	58928											
PPP4R4	57718	broad.mit.edu	37	chr14	94707088	94707091	+	Frame_Shift_Del	DEL	TTTC	-	-																															agcagatgaatcaattcttaTttctttatctttccatttag																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:94707088_94707091delTTTC	uc001ycs.1	+	9	1086_1089	c.932_935delTTTC	c.(931-936)ATTTCTfs	p.I311fs		NM_058237	NP_478144	Q6NUP7	PP4R4_HUMAN	HEAT-like repeat-containing protein isoform 1	311_312						cytoplasm|protein serine/threonine phosphatase complex	protein binding			skin(3)|upper_aerodigestive_tract(1)	4						TCAATTCTTATTTCTTTATCTTTC	0.279													12	20	---	---	---	---						.	-	94707091	-	-	94707088	7	5	89	1	0	1	0	1	0	0	0	0	12427	1493	52	0	1039	0	PPP4R4	14	94707088	Frame_Shift_Del	DEL	TTTC	TCGA-BR-8680-01A-11D-2394-08	301412	94707088	12642452	5098	58929											
SERPINA11	256394	broad.mit.edu	37	chr14	94914614	94914614	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatctgtgaagttggcagaAaaagcaaaagctccataaag	18	7	10	6	0	1	2	0	1	1	1	2	3	2	2	1	1	2	4	1	1	8	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:94914614A>C	uc001ydd.1	-	2	558	c.498T>G	c.(496-498)TTT>TTG	p.F166L		NM_001080451	NP_001073920	Q86U17	SPA11_HUMAN	serpin peptidase inhibitor, clade A (alpha-1	166					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			kidney(1)	1				COAD - Colon adenocarcinoma(157;0.211)		AGTTGGCAGAAAAAGCAAAAG	0.463													71	112					0	0	1	0	0		C	94914614	C	C	94914614	3	2	89	1	0	0	0	0	1	0	0	0	14113	11	1	5	786	5	SERPINA11	14	94914614	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	207526	94914614	12434926	5099	58930											
SERPINA9	327657	broad.mit.edu	37	chr14	94929505	94929505	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttatttgtaatcatcatcagGaaggtcctattgaaggagac	13	13	9	6	0	3	2	3	1	0	1	4	4	4	3	1	3	0	1	1	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:94929505G>A	uc001ydf.2	-	5	1394	c.1233C>T	c.(1231-1233)TTC>TTT	p.F411F	SERPINA9_uc001yde.2_Silent_p.F311F|SERPINA9_uc010avc.2_Silent_p.F262F|SERPINA9_uc001ydg.2_Silent_p.F375F	NM_175739	NP_783866	Q86WD7	SPA9_HUMAN	serine (or cysteine) proteinase inhibitor, clade	393					regulation of proteolysis	cytoplasm|extracellular region|membrane	serine-type endopeptidase inhibitor activity			lung(1)|central_nervous_system(1)	2		all_cancers(154;0.0691)|all_epithelial(191;0.233)		Epithelial(152;0.144)|COAD - Colon adenocarcinoma(157;0.224)|all cancers(159;0.24)		TCATCATCAGGAAGGTCCTAT	0.473													44	63					0	0	1	0	0		A	94929505	A	A	94929505	2	1	89	1	0	0	0	0	0	0	0	1	14120	1165	41	4		4	SERPINA9	14	94929505	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14891	94929505	12420035	5100	58931											
SERPINA12	145264	broad.mit.edu	37	chr14	94964562	94964562	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccagcttcttgagcagcTtaaagcctaagtccatgttc	10	11	9	11	0	1	1	0	1	1	0	3	1	2	1	3	1	4	4	3	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:94964562T>G	uc001ydj.2	-	3	969	c.173A>C	c.(172-174)AAG>ACG	p.K58T		NM_173850	NP_776249	Q8IW75	SPA12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	58					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			central_nervous_system(2)|ovary(1)|lung(1)	4				COAD - Colon adenocarcinoma(157;0.235)		CTTGAGCAGCTTAAAGCCTAA	0.507													73	104					0	0	1	0	0		G	94964562	G	G	94964562	3	3	89	1	0	0	0	0	1	0	0	0	14114	1609	56	5	1087	5	SERPINA12	14	94964562	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	35057	94964562	12384978	5101	58932											
SERPINA4	5267	broad.mit.edu	37	chr14	95033396	95033396	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtccgggtgcccatgatgCtgcaggaccaggagcatcac	9	6	13	13	1	1	1	1	1	0	0	2	3	2	3	3	3	4	3	3	3	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:95033396C>T	uc001ydk.2	+	3	805	c.739C>T	c.(739-741)CTG>TTG	p.L247L	SERPINA4_uc010avd.2_Silent_p.L284L|SERPINA4_uc001ydl.2_Silent_p.L247L	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	247					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		GCCCATGATGCTGCAGGACCA	0.498													20	56					0	0	1	0	0		T	95033396	T	T	95033396	2	4	89	1	0	0	0	0	0	0	0	1	14116	796	28	2		2	SERPINA4	14	95033396	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	68834	95033396	12316144	5102	58933											
CLMN	79789	broad.mit.edu	37	chr14	95660901	95660901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagacctatgagtatgtcgtCgaaggtaaatgctggagtca	13	10	12	6	2	1	2	1	1	0	1	3	4	1	3	1	2	1	3	1	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:95660901C>T	uc001yef.2	-	11	2857	c.2741G>A	c.(2740-2742)CGA>CAA	p.R914Q		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	914						integral to membrane	actin binding				0				Epithelial(152;0.193)		AGTATGTCGTCGAAGGTAAAT	0.468													21	49					0	0	1	0	0		T	95660901	T	T	95660901	3	4	89	1	0	0	0	0	1	0	0	0	3545	884	31	1	279	1	CLMN	14	95660901	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	627505	95660901	11688639	5103	58934											
C14orf49	161176	broad.mit.edu	37	chr14	95903210	95903210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgtagaagttctcattgCgatgattctaaccagcttgg	10	13	10	8	1	2	2	1	1	2	1	3	3	2	2	1	1	4	4	1	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:95903210C>T	uc001yei.3	-	14	2500	c.2485G>A	c.(2485-2487)GCA>ACA	p.A829T	C14orf49_uc010avi.2_Missense_Mutation_p.A824T	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	829	Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		GTTCTCATTGCGATGATTCTA	0.498													37	63					0	0	1	0	0		T	95903210	T	T	95903210	3	4	89	1	0	0	0	0	1	0	0	0	1779	768	27	1	458	1	C14orf49	14	95903210	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	242309	95903210	11446330	5104	58935											
GLRX5	51218	broad.mit.edu	37	chr14	96010292	96010292	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctccataggcattaaaGactattccaactggcccacc	11	11	5	14	0	1	1	0	0	1	1	3	1	2	1	4	2	1	1	4	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:96010292G>T	uc001yem.1	+	2	408	c.304G>T	c.(304-306)GAC>TAC	p.D102Y		NM_016417	NP_057501	Q86SX6	GLRX5_HUMAN	glutaredoxin 5	102	Glutaredoxin.				cell redox homeostasis|hemopoiesis	mitochondrion	2 iron, 2 sulfur cluster binding|electron carrier activity|metal ion binding|protein disulfide oxidoreductase activity				0		all_cancers(154;0.135)		Epithelial(152;0.133)|COAD - Colon adenocarcinoma(157;0.21)|all cancers(159;0.212)		AGGCATTAAAGACTATTCCAA	0.418													15	112					9.16793e-09	9.77785e-09	1	1	0		T	96010292	T	T	96010292	3	4	89	1	0	0	0	0	1	0	0	0	6477	942	33	5	310	5	GLRX5	14	96010292	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	107082	96010292	11339248	5105	58936											
BDKRB1	623	broad.mit.edu	37	chr14	96730670	96730670	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcctcctaccactggctgcGatcgtcttcttcaactacca	7	13	5	16	2	3	0	1	0	2	0	6	1	5	0	4	1	4	1	4	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:96730670G>A	uc001yfh.2	+	3	859	c.651G>A	c.(649-651)GCG>GCA	p.A217A	BDKRB1_uc010avn.2_Silent_p.A217A	NM_000710	NP_000701	P46663	BKRB1_HUMAN	bradykinin receptor B1	217	Helical; Name=5; (Potential).				elevation of cytosolic calcium ion concentration	endoplasmic reticulum|integral to plasma membrane	bradykinin receptor activity			ovary(3)	3		all_cancers(154;0.0677)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.208)|Epithelial(152;0.226)		CACTGGCTGCGATCGTCTTCT	0.582													28	63					0	0	1	0	0		A	96730670	A	A	96730670	2	1	89	1	0	0	0	0	0	0	0	1	1393	1045	37	1		1	BDKRB1	14	96730670	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	720378	96730670	10618870	5106	58937											
PAPOLA	10914	broad.mit.edu	37	chr14	97010496	97010496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctttgcagggaagaatttCgcacgatgtgggtgattggg	8	13	15	5	2	1	2	0	1	1	1	2	4	1	3	0	3	1	2	0	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:97010496C>T	uc001yfq.2	+	15	1510	c.1300C>T	c.(1300-1302)CGC>TGC	p.R434C	PAPOLA_uc001yfr.2_Missense_Mutation_p.R434C|PAPOLA_uc010twv.1_Missense_Mutation_p.R434C|PAPOLA_uc010avp.2_Missense_Mutation_p.R184C	NM_032632	NP_116021	P51003	PAPOA_HUMAN	poly(A) polymerase alpha	434					mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cytoplasm|nucleoplasm	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|RNA binding				0		all_cancers(154;0.0555)|all_epithelial(191;0.149)|Melanoma(154;0.155)		COAD - Colon adenocarcinoma(157;0.213)		GGAAGAATTTCGCACGATGTG	0.378													27	51					0	0	1	0	0		T	97010496	T	T	97010496	3	4	89	1	0	0	0	0	1	0	0	0	11448	884	31	1	1358	1	PAPOLA	14	97010496	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	279826	97010496	10339044	5107	58938											
DYNC1H1	1778	broad.mit.edu	37	chr14	102481480	102481480	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtacaggacttgaaatacgcGaccttggccacagtgtcgcg	10	8	12	11	4	0	1	0	1	0	0	1	3	0	2	2	2	2	1	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:102481480G>A	uc001yks.2	+	35	7217	c.7053G>A	c.(7051-7053)GCG>GCA	p.A2351A	DYNC1H1_uc001ykt.1_5'UTR	NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2351	AAA 2 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						TGAAATACGCGACCTTGGCCA	0.473													41	65					0	0	1	0	0		A	102481480	A	A	102481480	2	1	89	1	0	0	0	0	0	0	0	1	4847	1045	37	1		1	DYNC1H1	14	102481480	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5470984	102481480	4868060	5108	58939											
WDR20	91833	broad.mit.edu	37	chr14	102676053	102676053	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggaacgcccctgtgtcctCgaatggaagatgttcccttg	7	11	12	11	2	0	1	0	0	0	1	3	4	2	3	4	2	1	1	4	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:102676053C>T	uc001ykz.2	+	3	1595	c.1546C>T	c.(1546-1548)CGA>TGA	p.R516*	WDR20_uc001yky.1_Nonsense_Mutation_p.R259*|WDR20_uc001yla.2_Nonsense_Mutation_p.R392*|WDR20_uc001ylb.2_Nonsense_Mutation_p.R455*|WDR20_uc010txu.1_Nonsense_Mutation_p.R547*|WDR20_uc001ylc.2_Intron|WDR20_uc001yld.2_Nonsense_Mutation_p.R516*|WDR20_uc001yle.2_Nonsense_Mutation_p.R455*|WDR20_uc001ylf.2_Nonsense_Mutation_p.R528*	NM_144574	NP_653175	Q8TBZ3	WDR20_HUMAN	WD repeat domain 20 isoform 2	516											0						CCTGTGTCCTCGAATGGAAGA	0.433											OREG0022939	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	75					0	0	1	0	0		T	102676053	T	T	102676053	4	4	89	1	0	0	0	0	0	1	0	0	17306	876	31	1	1573	1	WDR20	14	102676053	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	194573	102676053	4673487	5109	58940											
ANKRD9	122416	broad.mit.edu	37	chr14	102973383	102973383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaccagcacctgcatggCgcgcgcgaagagcgagggcg	8	3	18	12	6	0	2	0	1	0	1	0	4	0	2	2	3	3	2	2	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:102973383C>T	uc001ylx.1	-	2	1240	c.844G>A	c.(844-846)GCC>ACC	p.A282T	ANKRD9_uc001yly.1_Missense_Mutation_p.A282T|ANKRD9_uc001ylz.1_Missense_Mutation_p.A282T|ANKRD9_uc001yma.1_Missense_Mutation_p.A282T|ANKRD9_uc010awm.1_Missense_Mutation_p.A282T	NM_152326	NP_689539	Q96BM1	ANKR9_HUMAN	ankyrin repeat domain 9	282										pancreas(1)	1						ACCTGCATGGCGCGCGCGAAG	0.726													5	10					0	0	1	0	0		T	102973383	T	T	102973383	3	4	89	1	0	0	0	0	1	0	0	0	687	768	27	1	113	1	ANKRD9	14	102973383	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	297330	102973383	4376157	5110	58941											
TRAF3	7187	broad.mit.edu	37	chr14	103341991	103341991	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataattgctgcaagagagaaAttctggctcttcagatctat	13	13	8	7	0	4	3	1	0	3	3	4	4	4	3	0	1	2	3	0	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:103341991A>C	uc001ymc.1	+	5	681	c.328A>C	c.(328-330)ATT>CTT	p.I110L	TRAF3_uc001yme.1_Missense_Mutation_p.I110L|TRAF3_uc001ymd.1_Missense_Mutation_p.I110L|TRAF3_uc010txy.1_Missense_Mutation_p.I110L	NM_145725	NP_663777	Q13114	TRAF3_HUMAN	TNF receptor-associated factor 3 isoform 1	110					apoptosis|induction of apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|regulation of defense response to virus|regulation of interferon-beta production|regulation of proteolysis|toll-like receptor signaling pathway|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|endosome|internal side of plasma membrane|mitochondrion	signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(154;7.87e-06)|all_epithelial(191;0.0024)		Epithelial(152;9.92e-24)|all cancers(159;2.23e-21)|OV - Ovarian serous cystadenocarcinoma(161;7.85e-12)|Colorectal(3;0.0971)		CAAGAGAGAAATTCTGGCTCT	0.408													54	104					0	0	1	0	0		C	103341991	C	C	103341991	3	2	89	1	0	0	0	0	1	0	0	0	16465	101	4	5	338	5	TRAF3	14	103341991	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	368608	103341991	4007549	5111	58942											
CDC42BPB	9578	broad.mit.edu	37	chr14	103447311	103447311	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtctctggatgaggtccttCgcttcttcagatacatccgt	7	14	9	11	2	3	2	1	1	2	1	7	3	5	3	2	2	1	1	2	2	1	4	rs34469943	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:103447311C>T	uc001ymi.1	-	8	1171	c.939G>A	c.(937-939)GCG>GCA	p.A313A		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	313	Protein kinase.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TGAGGTCCTTCGCTTCTTCAG	0.493													32	67					0	0	1	0	0		T	103447311	T	T	103447311	2	4	89	1	0	0	0	0	0	0	0	1	3076	871	31	1		1	CDC42BPB	14	103447311	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	105320	103447311	3902229	5112	58943											
CDC42BPB	9578	broad.mit.edu	37	chr14	103474857	103474857	+	Missense_Mutation	SNP	A	C	C																															ttgaggattttcattgcataAattcgttcagtattcttcat																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:103474857A>C	uc001ymi.1	-	3	535	c.303T>G	c.(301-303)ATT>ATG	p.I101M		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	101	Protein kinase.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TCATTGCATAAATTCGTTCAG	0.433													28	31					0	0	1	0	0		C	103474857	C	C	103474857	3	2	89	1	0	0	0	0	1	0	0	0	3076	10	1	5	4972	5	CDC42BPB	14	103474857	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	27546	103474857	3874683	5113	58944	112	2									
CDC42BPB	9578	broad.mit.edu	37	chr14	103474861	103474861	+	Missense_Mutation	SNP	C	T	T																															ggattttcattgcataaattCgttcagtattcttcattttg																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:103474861C>T	uc001ymi.1	-	3	531	c.299G>A	c.(298-300)CGA>CAA	p.R100Q		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	100	Protein kinase.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TGCATAAATTCGTTCAGTATT	0.433													13	45					0	0	1	0	0		T	103474861	T	T	103474861	3	4	89	1	0	0	0	0	1	0	0	0	3076	884	31	1	4976	1	CDC42BPB	14	103474861	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4	103474861	3874679	5114	58945	112	2									
EIF5	1983	broad.mit.edu	37	chr14	103803470	103803470	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcatgtcaatccaaagaaGcaaacaataggtaattcttg	17	9	7	8	0	2	1	1	0	1	1	3	1	3	1	1	1	3	3	1	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:103803470G>A	uc001ymq.2	+	6	867	c.345G>A	c.(343-345)AAG>AAA	p.K115K	EIF5_uc001ymr.2_Silent_p.K115K|EIF5_uc001yms.2_Silent_p.K115K|EIF5_uc001ymt.2_Silent_p.K115K|EIF5_uc001ymu.2_Silent_p.K115K|SNORA28_uc001ymv.1_5'Flank	NM_001969	NP_001960	P55010	IF5_HUMAN	eukaryotic translation initiation factor 5	115					regulation of translational initiation|RNA metabolic process	cytosol	GTP binding|GTPase activity|translation initiation factor activity			pancreas(1)|breast(1)|skin(1)	3		Melanoma(154;0.155)	Epithelial(46;0.182)			ATCCAAAGAAGCAAACAATAG	0.373													23	48					0	0	1	0	0		A	103803470	A	A	103803470	2	1	89	1	0	0	0	0	0	0	0	1	5048	962	34	2		2	EIF5	14	103803470	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	328609	103803470	3546070	5115	58946											
MARK3	4140	broad.mit.edu	37	chr14	103871548	103871548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagactgttgaaaacaatcGgcaaggggaattttgcaaaa	17	8	10	6	1	0	2	0	1	0	1	1	3	0	3	0	3	2	3	0	3	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:103871548G>A	uc001ymz.3	+	2	853	c.187G>A	c.(187-189)GGC>AGC	p.G63S	MARK3_uc001ymx.3_Missense_Mutation_p.G63S|MARK3_uc001ymw.3_Missense_Mutation_p.G63S|MARK3_uc001yna.3_Missense_Mutation_p.G63S|MARK3_uc001ymy.3_Missense_Mutation_p.G63S|MARK3_uc010awp.2_Missense_Mutation_p.G63S	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	63	ATP (By similarity).|Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			GAAAACAATCGGCAAGGGGAA	0.438													24	37					0	0	1	0	0		A	103871548	A	A	103871548	3	1	89	1	0	0	0	0	1	0	0	0	9332	1116	39	1	193	1	MARK3	14	103871548	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	68078	103871548	3477992	5116	58947											
XRCC3	7517	broad.mit.edu	37	chr14	104174984	104174984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgtaaaacctcctttaccGatttcagtttggctgaaata	12	14	7	8	1	1	1	1	1	0	0	2	2	2	1	3	1	2	3	3	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:104174984G>A	uc001yny.3	-	5	448	c.68C>T	c.(67-69)TCG>TTG	p.S23L	XRCC3_uc001ynx.3_Missense_Mutation_p.S23L|XRCC3_uc001ynz.3_Missense_Mutation_p.S23L|XRCC3_uc001yoa.3_Missense_Mutation_p.S23L|XRCC3_uc001yob.1_RNA	NM_005432	NP_005423	O43542	XRCC3_HUMAN	X-ray repair cross complementing protein 3	23					DNA recombination|DNA repair	mitochondrion|nucleus|perinuclear region of cytoplasm	ATP binding|DNA binding|DNA-dependent ATPase activity				0		Melanoma(154;0.155)|all_epithelial(191;0.19)		Epithelial(152;0.239)		CTCCTTTACCGATTTCAGTTT	0.468								Direct_reversal_of_damage|Homologous_recombination					22	42					0	0	1	0	0		A	104174984	A	A	104174984	3	1	89	1	0	0	0	0	1	0	0	0	17480	1059	37	1	996	1	XRCC3	14	104174984	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	303436	104174984	3174556	5117	58948											
TDRD9	122402	broad.mit.edu	37	chr14	104484456	104484456	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattcctccctatggatttCtttactataaacaactacag	13	14	3	11	0	1	0	0	0	1	0	3	1	3	1	2	1	4	0	2	1	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:104484456C>A	uc001yom.3	+	23	2389	c.2359C>A	c.(2359-2361)CTT>ATT	p.L787I	TDRD9_uc001yon.3_Missense_Mutation_p.L525I	NM_153046	NP_694591	Q8NDG6	TDRD9_HUMAN	tudor domain containing 9	787					cell differentiation|DNA methylation involved in gamete generation|fertilization|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	nucleus|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0768)				CTATGGATTTCTTTACTATAA	0.323													7	8					1	1	1	1	0		A	104484456	A	A	104484456	3	1	89	1	0	0	0	0	1	0	0	0	15761	913	32	5	2449	5	TDRD9	14	104484456	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	309472	104484456	2865084	5118	58949											
ASPG	374569	broad.mit.edu	37	chr14	104570738	104570738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgacctgctgcaggagctgcGggtggccaccgagcgcggcc	5	4	17	15	5	0	0	0	0	0	0	0	3	0	1	4	4	5	3	4	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:104570738G>A	uc001yoq.1	+	8	911	c.851G>A	c.(850-852)CGG>CAG	p.R284Q	ASPG_uc001yoo.1_Missense_Mutation_p.R312Q|ASPG_uc001yop.1_Missense_Mutation_p.R284Q|ASPG_uc001yor.1_Missense_Mutation_p.R284Q	NM_001080464	NP_001073933	Q86U10	LPP60_HUMAN	60 kDa lysophospholipase	284	Asparaginase.				lipid catabolic process		1-alkyl-2-acetylglycerophosphocholine esterase activity|asparaginase activity|lysophospholipase activity				0						CAGGAGCTGCGGGTGGCCACC	0.647													14	31					0	0	1	0	0		A	104570738	A	A	104570738	3	1	89	1	0	0	0	0	1	0	0	0	1053	1116	39	1	881	1	ASPG	14	104570738	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	86282	104570738	2778802	5119	58950											
KIAA0284	283638	broad.mit.edu	37	chr14	105360682	105360682	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagccaggatcaacgccgaGaacgaggtgcccatcctgaa	13	4	12	12	3	1	2	1	1	0	1	2	6	2	3	4	2	4	0	4	2	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:105360682G>A	uc010axb.2	+	17	4556	c.4332G>A	c.(4330-4332)GAG>GAA	p.E1444E	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Silent_p.E1374E|KIAA0284_uc001yps.2_Silent_p.E1385E|KIAA0284_uc001ypt.2_Silent_p.E112E	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	1479						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		TCAACGCCGAGAACGAGGTGC	0.632													26	44					0	0	1	0	0		A	105360682	A	A	105360682	2	1	89	1	0	0	0	0	0	0	0	1	8182	933	33	4		4	KIAA0284	14	105360682	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	789944	105360682	1988858	5120	58951											
AHNAK2	113146	broad.mit.edu	37	chr14	105410777	105410777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catggaggggagactcacatCggcttccaccttgggtgcag	8	8	14	11	1	1	1	1	0	0	1	3	3	2	2	2	5	1	2	2	5	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr14:105410777C>T	uc010axc.1	-	7	11131	c.11011G>A	c.(11011-11013)GAT>AAT	p.D3671N	AHNAK2_uc001ypx.2_Missense_Mutation_p.D3571N	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3671						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			AGACTCACATCGGCTTCCACC	0.582													77	172					0	0	1	0	0		T	105410777	T	T	105410777	3	4	89	1	0	0	0	0	1	0	0	0	415	884	31	1	6380	1	AHNAK2	14	105410777	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	50095	105410777	1938763	5121	58952											
OR4M2	390538	broad.mit.edu	37	chr15	22369069	22369069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaggtggctctcattgttcGacttcctttctgtgggccca	5	14	10	12	1	2	0	1	0	2	0	5	1	3	0	2	3	0	2	2	3	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:22369069G>A	uc010tzu.1	+	1	494	c.494G>A	c.(493-495)CGA>CAA	p.R165Q	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CTCATTGTTCGACTTCCTTTC	0.498													69	394					0	0	1	0	0		A	22369069	A	A	22369069	3	1	89	1	0	0	0	0	1	0	0	0	11095	1058	37	1	496	1	OR4M2	15	22369069	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08		22369069	80162323	5122	58953											
OR4N4	283694	broad.mit.edu	37	chr15	22382966	22382966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggtggtcctcatcctccGcttgcctttttgtggcccaa	4	13	9	15	1	1	0	1	0	0	0	4	0	4	0	6	3	1	1	6	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:22382966G>A	uc001yuc.1	+	7	1475	c.494G>A	c.(493-495)CGC>CAC	p.R165H	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.R165H	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CTCATCCTCCGCTTGCCTTTT	0.512													33	129					0	0	1	0	0		A	22382966	A	A	22382966	3	1	89	1	0	0	0	0	1	0	0	0	11097	1087	38	1	496	1	OR4N4	15	22382966	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13897	22382966	80148426	5123	58954											
TUBGCP5	114791	broad.mit.edu	37	chr15	22867565	22867565	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagtaagacagcagattCatcgcatgttcctcttaaga	14	10	7	10	1	2	3	1	0	1	3	4	3	3	3	2	0	2	4	2	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:22867565C>A	uc001yur.3	+	19	2771	c.2641C>A	c.(2641-2643)CAT>AAT	p.H881N	TUBGCP5_uc001yuq.2_Missense_Mutation_p.H881N	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	881					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		ACAGCAGATTCATCGCATGTT	0.443													44	61					9.39024e-22	1.11566e-21	1	1	0		A	22867565	A	A	22867565	3	1	89	1	0	0	0	0	1	0	0	0	16795	826	29	5	2715	5	TUBGCP5	15	22867565	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	484599	22867565	79663827	5124	58955											
NIPA2	81614	broad.mit.edu	37	chr15	23014503	23014503	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgcaaacgcatacgcagcGaagttggccacctcaccagc	11	5	11	14	3	1	0	1	0	0	0	1	1	1	0	3	2	5	4	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:23014503G>A	uc001yux.2	-	6	835	c.222C>T	c.(220-222)TTC>TTT	p.F74F	NIPA2_uc001yuy.2_Silent_p.F74F|NIPA2_uc001yuz.2_Silent_p.F74F|NIPA2_uc001yva.2_Silent_p.F55F|NIPA2_uc001yvb.2_Silent_p.F74F|NIPA2_uc010ayb.2_Silent_p.F55F	NM_030922	NP_112184	Q8N8Q9	NIPA2_HUMAN	non imprinted in Prader-Willi/Angelman syndrome	74	Helical; (Potential).					early endosome|integral to membrane|plasma membrane				haematopoietic_and_lymphoid_tissue(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;1.48e-06)|Epithelial(43;1.44e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000353)		CATACGCAGCGAAGTTGGCCA	0.468													7	19					0	0	1	0	0		A	23014503	A	A	23014503	2	1	89	1	0	0	0	0	0	0	0	1	10442	1049	37	1		1	NIPA2	15	23014503	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	146938	23014503	79516889	5125	58956											
SNRPN	6638	broad.mit.edu	37	chr15	25222096	25222096	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagggcagctggtagaggaGtaccagctggtgtgccaatt	9	9	16	7	0	0	1	0	0	0	1	0	2	0	2	2	4	4	6	2	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:25222096G>T	uc001ywp.1	+	10	1230	c.340G>T	c.(340-342)GTA>TTA	p.V114L	SNRPN_uc001ywq.1_Missense_Mutation_p.V114L|SNRPN_uc001ywr.1_Missense_Mutation_p.V114L|SNRPN_uc001yws.1_Missense_Mutation_p.V114L|SNRPN_uc001ywt.1_Missense_Mutation_p.V114L|SNRPN_uc001ywv.1_Missense_Mutation_p.V117L|SNRPN_uc001yww.1_Missense_Mutation_p.V114L|SNRPN_uc001ywx.1_Missense_Mutation_p.V114L|SNRPN_uc001ywz.1_Intron|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	114					RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		TGGTAGAGGAGTACCAGCTGG	0.587									Prader-Willi_syndrome				24	53					2.89027e-11	3.162e-11	1	1	0		T	25222096	T	T	25222096	3	4	89	1	0	0	0	0	1	0	0	0	14895	1029	36	5	354	5	SNRPN	15	25222096	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2207593	25222096	77309296	5126	58957											
ATP10A	57194	broad.mit.edu	37	chr15	25961884	25961884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccagaacttgcctttgttCgtggctgatccggggacgtg	5	12	13	11	3	0	2	0	1	0	1	3	3	2	3	3	3	2	2	3	3	1	3	rs138618267	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:25961884C>T	uc010ayu.2	-	9	1875	c.1769G>A	c.(1768-1770)CGA>CAA	p.R590Q		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	590	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TGCCTTTGTTCGTGGCTGATC	0.592													38	77					0	0	1	0	0		T	25961884	T	T	25961884	3	4	89	1	0	0	0	0	1	0	0	0	1117	884	31	1	2782	1	ATP10A	15	25961884	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	739788	25961884	76569508	5127	58958											
GABRB3	2562	broad.mit.edu	37	chr15	26866631	26866631	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagggatcccagaataggcGagccttttatctctccaata	12	10	9	10	1	1	2	0	0	1	2	4	4	3	3	3	2	1	0	3	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:26866631G>A	uc001zaz.2	-	4	433	c.291C>T	c.(289-291)CTC>CTT	p.L97L	GABRB3_uc010uae.1_Silent_p.L12L|GABRB3_uc001zba.2_Silent_p.L97L|GABRB3_uc001zbb.2_Silent_p.L153L|GABRB3_uc001zbc.2_RNA	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	97	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	CAGAATAGGCGAGCCTTTTAT	0.428													28	68					0	0	1	0	0		A	26866631	A	A	26866631	2	1	89	1	0	0	0	0	0	0	0	1	6182	1045	37	1		1	GABRB3	15	26866631	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	904747	26866631	75664761	5128	58959											
GABRA5	2558	broad.mit.edu	37	chr15	27114458	27114458	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttctcttttgtatttcCatgaacttatccagtcactt	7	19	3	12	0	2	1	1	1	1	0	6	1	5	1	3	0	1	1	3	0	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:27114458C>A	uc001zbd.1	+	4	402	c.63C>A	c.(61-63)TCC>TCA	p.S21S	GABRB3_uc001zbb.2_Intron	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	21					gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TTTGTATTTCCATGAACTTAT	0.388													29	67					4.02929e-09	4.31984e-09	1	1	0		A	27114458	A	A	27114458	2	1	89	1	0	0	0	0	0	0	0	1	6178	581	21	5		5	GABRA5	15	27114458	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	247827	27114458	75416934	5129	58960											
GABRA5	2558	broad.mit.edu	37	chr15	27128679	27128679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctgctgcggctggaggacGacggcaccctgctctacacc	7	6	13	15	3	1	0	0	0	1	0	1	3	1	2	2	4	5	5	2	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:27128679G>A	uc001zbd.1	+	7	811	c.472G>A	c.(472-474)GAC>AAC	p.D158N	GABRB3_uc001zbb.2_Intron	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	158	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GCTGGAGGACGACGGCACCCT	0.537													15	14					0	0	1	0	0		A	27128679	A	A	27128679	3	1	89	1	0	0	0	0	1	0	0	0	6178	1058	37	1	486	1	GABRA5	15	27128679	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14221	27128679	75402713	5130	58961											
GABRG3	2567	broad.mit.edu	37	chr15	27222237	27222237	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcccaagacaccgacgtgActcttattctcaacaagttg	13	10	6	12	2	2	2	1	1	2	1	4	3	3	2	2	0	1	1	2	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:27222237A>G	uc001zbg.1	+	2	308	c.142A>G	c.(142-144)ACT>GCT	p.T48A	GABRG3_uc001zbf.2_Missense_Mutation_p.T48A	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	48	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		CACCGACGTGACTCTTATTCT	0.383													41	71					0	0	1	0	0		G	27222237	G	G	27222237	3	3	89	1	0	0	0	0	1	0	0	0	6187	275	10	3	148	3	GABRG3	15	27222237	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	93558	27222237	75309155	5131	58962											
OCA2	4948	broad.mit.edu	37	chr15	28200318	28200318	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtacctttttttggagttCttggatattggtctcccaat	6	18	10	7	0	2	0	0	0	2	0	3	2	2	2	2	4	1	2	2	4	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:28200318C>A	uc001zbh.3	-	17	1938	c.1828G>T	c.(1828-1830)GAA>TAA	p.E610*	OCA2_uc010ayv.2_Nonsense_Mutation_p.E586*	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	610	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		TTTTGGAGTTCTTGGATATTG	0.453									Oculocutaneous_Albinism				46	111					5.73435e-26	6.92654e-26	1	1	0		A	28200318	A	A	28200318	4	1	89	1	0	0	0	0	0	1	0	0	10834	922	32	5	720	5	OCA2	15	28200318	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	978081	28200318	74331074	5132	58963											
HERC2	8924	broad.mit.edu	37	chr15	28377829	28377829	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagctggtcctcactgtcGctgtgccccagccggccgta	4	10	11	16	3	2	0	2	0	0	0	4	0	3	0	5	2	3	3	5	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:28377829G>A	uc001zbj.2	-	80	12484	c.12378C>T	c.(12376-12378)AGC>AGT	p.S4126S		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4126	RCC1 16.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CCTCACTGTCGCTGTGCCCCA	0.667													39	61					0	0	1	0	0		A	28377829	A	A	28377829	2	1	89	1	0	0	0	0	0	0	0	1	7074	1078	38	1		1	HERC2	15	28377829	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	177511	28377829	74153563	5133	58964											
HERC2	8924	broad.mit.edu	37	chr15	28386977	28386977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgtctgccattaattcacGaattttcttagccacctaaa	11	14	5	11	1	3	0	1	0	2	0	3	1	3	0	3	0	2	1	3	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:28386977G>A	uc001zbj.2	-	77	11822	c.11716C>T	c.(11716-11718)CGT>TGT	p.R3906C		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3906					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ATTAATTCACGAATTTTCTTA	0.353													79	148					0	0	1	0	0		A	28386977	A	A	28386977	3	1	89	1	0	0	0	0	1	0	0	0	7074	1058	37	1	2856	1	HERC2	15	28386977	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9148	28386977	74144415	5134	58965											
HERC2	8924	broad.mit.edu	37	chr15	28408287	28408287	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagcaccgcggagagcacatCcctgcccctgtccccggccc	7	4	10	20	3	0	1	0	0	0	1	2	2	2	1	7	2	3	2	7	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:28408287C>T	uc001zbj.2	-	69	10805	c.10699G>A	c.(10699-10701)GAT>AAT	p.D3567N		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3567					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GAGAGCACATCCCTGCCCCTG	0.637													29	71					0	0	1	0	0		T	28408287	T	T	28408287	3	4	89	1	0	0	0	0	1	0	0	0	7074	855	30	4	3905	4	HERC2	15	28408287	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	21310	28408287	74123105	5135	58966											
HERC2	8924	broad.mit.edu	37	chr15	28446651	28446651	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcatcattactcaagaaaTcagctcgttttttgtacgtc	12	15	5	9	2	4	1	4	0	0	1	6	1	4	1	0	0	3	3	0	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:28446651T>C	uc001zbj.2	-	48	7773	c.7667A>G	c.(7666-7668)GAT>GGT	p.D2556G	HERC2_uc001zbk.1_Missense_Mutation_p.D91G	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2556					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ACTCAAGAAATCAGCTCGTTT	0.358													24	61					0	0	1	0	0		C	28446651	C	C	28446651	3	2	89	1	0	0	0	0	1	0	0	0	7074	1435	50	3	7021	3	HERC2	15	28446651	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	38364	28446651	74084741	5136	58967											
HERC2	8924	broad.mit.edu	37	chr15	28459021	28459021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcataacttgaccgcccaggCgcaggcgaccatcgatgcct	9	6	11	15	4	0	1	0	1	0	0	1	3	0	1	4	2	2	2	4	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:28459021C>T	uc001zbj.2	-	42	6759	c.6653G>A	c.(6652-6654)CGC>CAC	p.R2218H		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2218					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ACCGCCCAGGCGCAGGCGACC	0.582													14	34					0	0	1	0	0		T	28459021	T	T	28459021	3	4	89	1	0	0	0	0	1	0	0	0	7074	768	27	1	8059	1	HERC2	15	28459021	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12370	28459021	74072371	5137	58968											
HERC2	8924	broad.mit.edu	37	chr15	28501325	28501325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgcagcacggcctgggCggccgactgcacggtgctca	6	6	14	15	4	2	0	1	0	1	0	2	1	2	0	2	4	4	4	2	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:28501325C>T	uc001zbj.2	-	18	2762	c.2656G>A	c.(2656-2658)GCC>ACC	p.A886T	HERC2_uc001zbl.1_Missense_Mutation_p.A581T	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	886					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ACGGCCTGGGCGGCCGACTGC	0.701													11	22					0	0	1	0	0		T	28501325	T	T	28501325	3	4	89	1	0	0	0	0	1	0	0	0	7074	768	27	1	12152	1	HERC2	15	28501325	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	42304	28501325	74030067	5138	58969											
HERC2	8924	broad.mit.edu	37	chr15	28538116	28538116	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcttcttcatcttttttCtctttgtcattcagatcttc	4	24	3	10	0	8	1	3	0	5	1	10	1	8	1	0	0	0	1	0	0	0	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:28538116C>A	uc001zbj.2	-	4	346	c.240G>T	c.(238-240)GAG>GAT	p.E80D	HERC2_uc001zbl.1_5'UTR	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	80					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CATCTTTTTTCTCTTTGTCAT	0.388													21	45					4.96729e-08	5.24652e-08	1	1	0		A	28538116	A	A	28538116	3	1	89	1	0	0	0	0	1	0	0	0	7074	912	32	5	14624	5	HERC2	15	28538116	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	36791	28538116	73993276	5139	58970											
APBA2	321	broad.mit.edu	37	chr15	29406145	29406145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtgggccaccgcatcatcGagatcaacgggcagagcgtg	9	6	15	11	4	2	2	2	0	0	2	3	3	2	2	2	2	2	2	2	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:29406145G>A	uc001zck.2	+	13	2311	c.2104G>A	c.(2104-2106)GAG>AAG	p.E702K	APBA2_uc010uat.1_Missense_Mutation_p.E690K|APBA2_uc001zcl.2_Missense_Mutation_p.E690K	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	702	PDZ 2.				nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		CCGCATCATCGAGATCAACGG	0.602													28	60					0	0	1	0	0		A	29406145	A	A	29406145	3	1	89	1	0	0	0	0	1	0	0	0	757	1059	37	1	2146	1	APBA2	15	29406145	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	868029	29406145	73125247	5140	58971											
TJP1	7082	broad.mit.edu	37	chr15	30008950	30008950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagtatgacagctgttttCgataatattcttcatcttct	11	17	5	8	1	4	1	1	1	3	0	5	2	4	1	0	0	1	3	0	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:30008950C>T	uc001zcr.2	-	23	4542	c.4067G>A	c.(4066-4068)CGA>CAA	p.R1356Q	TJP1_uc010azl.2_Missense_Mutation_p.R1344Q|TJP1_uc001zcq.2_Missense_Mutation_p.R1280Q|TJP1_uc001zcs.2_Missense_Mutation_p.R1276Q	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	1356					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		CAGCTGTTTTCGATAATATTC	0.453													20	66					0	0	1	0	0		T	30008950	T	T	30008950	3	4	89	1	0	0	0	0	1	0	0	0	15954	884	31	1	1203	1	TJP1	15	30008950	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	602805	30008950	72522442	5141	58972											
TJP1	7082	broad.mit.edu	37	chr15	30034875	30034875	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgtttgtttctcatttCtttcaactgtaacttcttcc	7	20	5	9	0	4	0	2	0	3	0	6	0	5	0	1	1	2	3	1	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:30034875C>A	uc001zcr.2	-	9	1596	c.1121G>T	c.(1120-1122)AGA>ATA	p.R374I	TJP1_uc010azl.2_Missense_Mutation_p.R362I|TJP1_uc001zcq.2_Missense_Mutation_p.R378I|TJP1_uc001zcs.2_Missense_Mutation_p.R374I	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	374					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		TTTCTCATTTCTTTCAACTGT	0.378													42	80					9.85521e-28	1.19659e-27	1	1	0		A	30034875	A	A	30034875	3	1	89	1	0	0	0	0	1	0	0	0	15954	913	32	5	4205	5	TJP1	15	30034875	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	25925	30034875	72496517	5142	58973											
TRPM1	4308	broad.mit.edu	37	chr15	31294611	31294611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaggggataggaaatagtgCcttctatatttgtcgtttcc	9	14	10	8	1	1	0	0	0	1	0	3	2	2	2	3	3	1	1	3	3	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:31294611C>T	uc001zfm.2	-	27	4354	c.4226G>A	c.(4225-4227)GGC>GAC	p.G1409D	TRPM1_uc010azy.2_Missense_Mutation_p.G1316D|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1409	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		GGAAATAGTGCCTTCTATATT	0.378													47	89					0	0	1	0	0		T	31294611	T	T	31294611	3	4	89	1	0	0	0	0	1	0	0	0	16611	739	26	2	589	2	TRPM1	15	31294611	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1259736	31294611	71236781	5143	58974											
TRPM1	4308	broad.mit.edu	37	chr15	31319267	31319267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtcataatcagctgatatCgctggaacttccacacctgg	11	11	8	11	1	2	1	2	1	0	0	4	2	3	2	2	2	2	2	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:31319267C>T	uc001zfm.2	-	25	3409	c.3281G>A	c.(3280-3282)CGA>CAA	p.R1094Q	TRPM1_uc010azy.2_Missense_Mutation_p.R1001Q|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1094	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		CAGCTGATATCGCTGGAACTT	0.393													28	59					0	0	1	0	0		T	31319267	T	T	31319267	3	4	89	1	0	0	0	0	1	0	0	0	16611	884	31	1	1542	1	TRPM1	15	31319267	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	24656	31319267	71212125	5144	58975											
TRPM1	4308	broad.mit.edu	37	chr15	31339355	31339355	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgtaaagggtccgaaagtTtttccgagtgtagttgcagc	9	13	13	6	2	0	0	0	0	0	0	2	2	2	0	2	1	2	6	2	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:31339355T>G	uc001zfm.2	-	14	1785	c.1657A>C	c.(1657-1659)AAC>CAC	p.N553H	TRPM1_uc010azy.2_Missense_Mutation_p.N460H|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	553	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		GTCCGAAAGTTTTTCCGAGTG	0.522													11	98					0	0	1	0	0		G	31339355	G	G	31339355	3	3	89	1	0	0	0	0	1	0	0	0	16611	1841	64	5	3210	5	TRPM1	15	31339355	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	20088	31339355	71192037	5145	58976											
TRPM1	4308	broad.mit.edu	37	chr15	31352771	31352771	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggggcccaaagacaaaGatctggcttcgtgctatgtc	10	9	12	10	1	1	2	0	0	1	2	3	2	1	2	1	3	1	2	1	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:31352771G>T	uc001zfm.2	-	10	1301	c.1173C>A	c.(1171-1173)ATC>ATA	p.I391I	TRPM1_uc010azy.2_Silent_p.I298I|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	391	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		CAAAGACAAAGATCTGGCTTC	0.468													13	25					5.50884e-06	5.70595e-06	1	1	0		T	31352771	T	T	31352771	2	4	89	1	0	0	0	0	0	0	0	1	16611	932	33	5		5	TRPM1	15	31352771	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13416	31352771	71178621	5146	58977											
FMN1	342184	broad.mit.edu	37	chr15	33194156	33194156	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctttctgtgcaaggaggTgataccctcagaaaagacag	13	9	10	9	0	2	3	1	1	1	2	2	4	2	4	2	2	3	1	2	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:33194156T>G	uc001zhf.3	-	9	2794	c.2794A>C	c.(2794-2796)ACC>CCC	p.T932P		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	1155	FH2.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		TGCAAGGAGGTGATACCCTCA	0.383													18	48					0	0	1	0	0		G	33194156	G	G	33194156	3	3	89	1	0	0	0	0	1	0	0	0	5963	1696	59	5	832	5	FMN1	15	33194156	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1841385	33194156	69337236	5147	58978											
RYR3	6263	broad.mit.edu	37	chr15	33831637	33831637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcgatgacctcatcctcGtcagcgtgtcctctgaaaga	8	11	10	12	3	3	3	2	2	1	1	6	4	5	3	3	1	1	0	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:33831637G>A	uc001zhi.2	+	6	590	c.520G>A	c.(520-522)GTC>ATC	p.V174I	RYR3_uc010bar.2_Missense_Mutation_p.V174I	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	174	MIR 2.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CCTCATCCTCGTCAGCGTGTC	0.433													5	12					0	0	1	0	0		A	33831637	A	A	33831637	3	1	89	1	0	0	0	0	1	0	0	0	13795	1145	40	1	542	1	RYR3	15	33831637	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	637481	33831637	68699755	5148	58979											
RYR3	6263	broad.mit.edu	37	chr15	33905384	33905384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctgttctttcctcaccagGccggatacccagagctgtgg	6	11	10	14	1	2	1	1	0	1	1	4	2	4	2	5	3	2	2	5	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:33905384G>A	uc001zhi.2	+	19	2235	c.2165G>A	c.(2164-2166)GGC>GAC	p.G722D	RYR3_uc010bar.2_Missense_Mutation_p.G722D	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	722	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TCCTCACCAGGCCGGATACCC	0.597													6	13					0	0	1	0	0		A	33905384	A	A	33905384	3	1	89	1	0	0	0	0	1	0	0	0	13795	1217	42	2	2239	2	RYR3	15	33905384	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	73747	33905384	68626008	5149	58980											
RYR3	6263	broad.mit.edu	37	chr15	33920748	33920748	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagctttggggaatgaataAaatagaacttggctggactt	13	12	12	4	0	0	3	0	2	0	1	0	5	0	5	0	4	2	2	0	4	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:33920748A>C	uc001zhi.2	+	21	2721	c.2651A>C	c.(2650-2652)AAA>ACA	p.K884T	RYR3_uc010bar.2_Missense_Mutation_p.K884T	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	884	4 X approximate repeats.|1.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGAATGAATAAAATAGAACTT	0.473													21	42					0	0	1	0	0		C	33920748	C	C	33920748	3	2	89	1	0	0	0	0	1	0	0	0	13795	14	1	5	2733	5	RYR3	15	33920748	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	15364	33920748	68610644	5150	58981											
RYR3	6263	broad.mit.edu	37	chr15	34072456	34072456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctggcctcgctggcagctgCcataccagtggcattcctgg	5	10	12	14	1	1	0	0	0	1	0	3	0	2	0	4	4	3	4	4	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:34072456C>T	uc001zhi.2	+	65	9252	c.9182C>T	c.(9181-9183)GCC>GTC	p.A3061V	RYR3_uc010bar.2_Missense_Mutation_p.A3061V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3061	Helical; Name=M''; (Potential).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CTGGCAGCTGCCATACCAGTG	0.567													13	29					0	0	1	0	0		T	34072456	T	T	34072456	3	4	89	1	0	0	0	0	1	0	0	0	13795	739	26	2	9440	2	RYR3	15	34072456	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	151708	34072456	68458936	5151	58982											
RYR3	6263	broad.mit.edu	37	chr15	34113011	34113011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagacaaggaaaaaacattcGaagtaagttctcatgaagaa	21	7	8	5	1	1	3	1	1	1	2	3	5	1	4	0	1	1	2	0	1	9	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:34113011G>A	uc001zhi.2	+	78	10883	c.10813G>A	c.(10813-10815)GAA>AAA	p.E3605K	RYR3_uc010bar.2_Missense_Mutation_p.E3600K	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3605					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AAAAACATTCGAAGTAAGTTC	0.433													5	11					0	0	1	0	0		A	34113011	A	A	34113011	3	1	89	1	0	0	0	0	1	0	0	0	13795	1059	37	1	11123	1	RYR3	15	34113011	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	40555	34113011	68418381	5152	58983											
RYR3	6263	broad.mit.edu	37	chr15	34130137	34130137	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgtagaccggttccatgagCcagccaaggacatagggttt	10	10	12	9	1	0	2	0	1	0	1	1	3	1	3	4	3	2	3	4	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:34130137C>T	uc001zhi.2	+	89	12026	c.11956C>T	c.(11956-11958)CCA>TCA	p.P3986S	RYR3_uc010bar.2_Missense_Mutation_p.P3981S	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3986					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GTTCCATGAGCCAGCCAAGGA	0.453													41	105					0	0	1	0	0		T	34130137	T	T	34130137	3	4	89	1	0	0	0	0	1	0	0	0	13795	739	26	2	12310	2	RYR3	15	34130137	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	17126	34130137	68401255	5153	58984											
RYR3	6263	broad.mit.edu	37	chr15	34146651	34146651	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagttgtttttactgacaacGtaagtactgcacctggaaaa	13	12	9	7	1	0	1	0	1	0	0	0	3	0	2	1	1	4	5	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:34146651G>A	uc001zhi.2	+	97	13930	c.13860_splice	c.e97+1	p.N4620_splice	RYR3_uc010bar.2_Splice_Site_p.N4615_splice	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3						cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TACTGACAACGTAAGTACTGC	0.403													3	5					0	0	1	0	0		A	34146651	A	A	34146651	5	1	89	1	0	0	0	0	0	0	1	0	13795	1159	40	1	14247	1	RYR3	15	34146651	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16514	34146651	68384741	5154	58985											
C15orf29	79768	broad.mit.edu	37	chr15	34445233	34445233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgcgatagatcactttacGaagtttatctgggcttttca	9	16	8	8	2	4	1	2	0	2	1	4	3	4	1	0	1	2	2	0	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:34445233G>A	uc001zhp.2	-	4	356	c.196C>T	c.(196-198)CGT>TGT	p.R66C	C15orf29_uc010ubz.1_5'UTR|C15orf29_uc010uca.1_Missense_Mutation_p.R66C	NM_024713	NP_078989	Q9H079	CO029_HUMAN	hypothetical protein LOC79768	66						nucleolus				ovary(1)	1		all_lung(180;1.86e-06)		all cancers(64;5.49e-18)|GBM - Glioblastoma multiforme(113;8.91e-07)|BRCA - Breast invasive adenocarcinoma(123;0.026)|Lung(196;0.229)		ATCACTTTACGAAGTTTATCT	0.348													45	86					0	0	1	0	0		A	34445233	A	A	34445233	3	1	89	1	0	0	0	0	1	0	0	0	1792	1058	37	1	746	1	C15orf29	15	34445233	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	298582	34445233	68086159	5155	58986											
SLC12A6	9990	broad.mit.edu	37	chr15	34628879	34628879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtggtttctggaggatgCattttgttctttttaagaac	7	18	12	4	0	2	1	0	0	2	1	2	3	2	3	0	4	2	3	0	4	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:34628879C>T	uc001zhw.2	-	1	167	c.3G>A	c.(1-3)ATG>ATA	p.M1I	SLC12A6_uc001zhx.2_Missense_Mutation_p.M1I|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Intron|SLC12A6_uc001zib.2_Intron|SLC12A6_uc001zic.2_Missense_Mutation_p.M1I|SLC12A6_uc010bau.2_Missense_Mutation_p.M1I|SLC12A6_uc001zid.2_Intron	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	1	Cytoplasmic (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	CTGGAGGATGCATTTTGTTCT	0.433													19	43					0	0	1	0	0		T	34628879	T	T	34628879	3	4	89	1	0	0	0	0	1	0	0	0	14412	710	25	2	3671	2	SLC12A6	15	34628879	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	183646	34628879	67902513	5156	58987											
GOLGA8A	23015	broad.mit.edu	37	chr15	34678852	34678852	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgatggtgtcattcagtcGactgatttttatggacctcg	7	17	10	7	2	2	2	2	2	0	0	4	4	2	3	1	2	0	0	1	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:34678852G>A	uc001zii.2	-	3	368	c.259C>T	c.(259-261)CGA>TGA	p.R87*	GOLGA8A_uc001zih.2_5'Flank	NM_181077	NP_851422	A7E2F4	GOG8A_HUMAN	golgi autoantigen, golgin subfamily a, 8A	115	Potential.					Golgi cisterna membrane					0		all_lung(180;2.78e-08)		all cancers(64;8.27e-19)|GBM - Glioblastoma multiforme(113;6.98e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		TCATTCAGTCGACTGATTTTT	0.567													17	88					0	0	1	0	0		A	34678852	A	A	34678852	4	1	89	1	0	0	0	0	0	1	0	0	6578	1066	37	1	1608	1	GOLGA8A	15	34678852	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	49973	34678852	67852540	5157	58988											
AQR	9716	broad.mit.edu	37	chr15	35236561	35236561	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgaaaattcaccatcagtTtcagctaatgccgccttcaa	13	11	6	11	1	4	1	4	1	0	0	4	1	4	1	3	0	2	2	3	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:35236561T>G	uc001ziv.2	-	6	580	c.399A>C	c.(397-399)GAA>GAC	p.E133D		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	133						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		CACCATCAGTTTCAGCTAATG	0.318													87	195					0	0	1	0	0		G	35236561	G	G	35236561	3	3	89	1	0	0	0	0	1	0	0	0	835	1838	64	5	4178	5	AQR	15	35236561	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	557709	35236561	67294831	5158	58989											
SPRED1	161742	broad.mit.edu	37	chr15	38617009	38617009	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggggcagatgacttacAagtaagtaatggcttggaag	14	9	14	4	0	0	3	0	2	0	1	0	4	0	4	0	4	1	4	0	4	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:38617009A>C	uc001zka.3	+	4	757	c.422A>C	c.(421-423)CAA>CCA	p.Q141P		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	141					inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		GATGACTTACAAGTAAGTAAT	0.313									Legius_syndrome				12	19					0	0	1	0	0		C	38617009	C	C	38617009	3	2	89	1	0	0	0	0	1	0	0	0	15117	144	5	5	436	5	SPRED1	15	38617009	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3380448	38617009	63914383	5159	58990											
C15orf54	400360	broad.mit.edu	37	chr15	39544598	39544598	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaatcatccaacagatgTccctttcaaataagttggag	15	11	6	9	0	3	1	3	0	0	1	5	2	5	2	2	1	1	1	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:39544598T>C	uc001zkg.2	+	2	630	c.262T>C	c.(262-264)TCC>CCC	p.S88P		NM_207445	NP_997328	Q8N8G6	CO054_HUMAN	hypothetical protein LOC400360	88											0		all_cancers(109;5.39e-14)|all_epithelial(112;3.14e-12)|Lung NSC(122;9.74e-10)|all_lung(180;2.23e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;1.19e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0706)		CCAACAGATGTCCCTTTCAAA	0.433													53	96					0	0	1	0	0		C	39544598	C	C	39544598	3	2	89	1	0	0	0	0	1	0	0	0	1805	1667	58	3	264	3	C15orf54	15	39544598	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	927589	39544598	62986794	5160	58991											
THBS1	7057	broad.mit.edu	37	chr15	39882122	39882122	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcgagtgcaagcctggCtacgctggcaatggcatcat	8	8	13	12	3	1	0	1	0	0	0	1	1	1	0	1	3	4	6	1	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:39882122C>T	uc001zkh.2	+	13	2222	c.2043C>T	c.(2041-2043)GGC>GGT	p.G681G	THBS1_uc010bbi.2_Silent_p.G153G	NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	681	EGF-like 3.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	GCAAGCCTGGCTACGCTGGCA	0.592													14	30					0	0	1	0	0		T	39882122	T	T	39882122	2	4	89	1	0	0	0	0	0	0	0	1	15878	784	28	2		2	THBS1	15	39882122	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	337524	39882122	62649270	5161	58992											
FSIP1	161835	broad.mit.edu	37	chr15	40057945	40057945	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattcttttaatttgggttCatctatattgtgttgaaagt	10	21	7	3	0	3	1	1	1	2	0	3	1	3	1	0	1	0	2	0	1	5	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:40057945C>A	uc001zki.2	-	4	531	c.313G>T	c.(313-315)GAA>TAA	p.E105*		NM_152597	NP_689810	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1	105	Potential.									ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		AATTTGGGTTCATCTATATTG	0.254													5	29					0.00116845	0.00118508	1	1	0		A	40057945	A	A	40057945	4	1	89	1	0	0	0	0	0	1	0	0	6088	835	29	5	1468	5	FSIP1	15	40057945	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	175823	40057945	62473447	5162	58993											
EIF2AK4	440275	broad.mit.edu	37	chr15	40280268	40280268	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagactctggaggctttttCgagagattctggatggatta	9	14	12	6	1	3	2	1	0	2	2	4	7	3	5	0	4	0	1	0	4	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:40280268C>T	uc001zkm.1	+	15	2538	c.2488C>T	c.(2488-2490)CGA>TGA	p.R830*	EIF2AK4_uc010bbj.1_Nonsense_Mutation_p.R531*	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	830	Protein kinase 2.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		GAGGCTTTTTCGAGAGATTCT	0.378													31	100					0	0	1	0	0		T	40280268	T	T	40280268	4	4	89	1	0	0	0	0	0	1	0	0	5005	876	31	1	2546	1	EIF2AK4	15	40280268	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	222323	40280268	62251124	5163	58994											
BUB1B	701	broad.mit.edu	37	chr15	40462836	40462836	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagcactacaaggagaaaAacgatattatagtgatcctc	18	8	8	7	1	0	3	0	1	0	2	2	5	1	3	1	1	3	1	1	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:40462836A>C	uc001zkx.3	+	4	550	c.338A>C	c.(337-339)AAA>ACA	p.K113T		NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	113	BUB1 N-terminal.|Nuclear localization signal (Potential).				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		CAAGGAGAAAAACGATATTAT	0.363			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				22	60					0	0	1	0	0		C	40462836	C	C	40462836	3	2	89	1	0	0	0	0	1	0	0	0	1574	14	1	5	352	5	BUB1B	15	40462836	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	182568	40462836	62068556	5164	58995											
BUB1B	701	broad.mit.edu	37	chr15	40504751	40504751	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atatcaacctcaagttaaagGaacgtttaaatgaagatttt	17	13	6	5	1	2	2	2	1	0	1	2	3	2	3	1	1	2	2	1	1	9	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:40504751G>T	uc001zkx.3	+	19	2649	c.2437G>T	c.(2437-2439)GAA>TAA	p.E813*		NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	813	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		CAAGTTAAAGGAACGTTTAAA	0.323			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				26	43					1.66031e-10	1.80435e-10	1	1	0		T	40504751	T	T	40504751	4	4	89	1	0	0	0	0	0	1	0	0	1574	1175	41	5	2511	5	BUB1B	15	40504751	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	41915	40504751	62026641	5165	58996											
PAK6	56924	broad.mit.edu	37	chr15	40564537	40564537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcagccctctgaccacttCggataccagcagcccccaga	9	7	7	18	1	2	2	1	1	1	1	3	3	2	3	5	1	4	1	5	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:40564537C>T	uc010bbl.2	+	6	1411	c.971C>T	c.(970-972)TCG>TTG	p.S324L	PAK6_uc010bbm.2_Missense_Mutation_p.S324L|PAK6_uc001zky.3_Missense_Mutation_p.S324L|PAK6_uc010bbn.2_Missense_Mutation_p.S324L|PAK6_uc001zlb.2_Missense_Mutation_p.S324L	NM_001128628	NP_001122100	Q9NQU5	PAK6_HUMAN	p21-activated kinase 6	324	Linker.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(5)|large_intestine(1)|ovary(1)|skin(1)	8		all_cancers(109;1.13e-18)|all_epithelial(112;1.62e-15)|Lung NSC(122;5.67e-11)|all_lung(180;1.41e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0823)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.51e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0544)		CTGACCACTTCGGATACCAGC	0.697													34	69					0	0	1	0	0		T	40564537	T	T	40564537	3	4	89	1	0	0	0	0	1	0	0	0	11423	893	31	1	981	1	PAK6	15	40564537	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	59786	40564537	61966855	5166	58997											
C15orf23	90417	broad.mit.edu	37	chr15	40684192	40684192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagctgaagctttttaacGaaacagccaaaaagcagatg	17	7	10	7	1	0	2	0	1	0	1	0	4	0	3	1	1	6	3	1	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:40684192G>A	uc001zll.2	+	8	905	c.790G>A	c.(790-792)GAA>AAA	p.E264K	C15orf23_uc010ucp.1_Missense_Mutation_p.E264K|C15orf23_uc001zlo.2_3'UTR|C15orf23_uc001zlm.2_RNA|C15orf23_uc001zln.2_RNA	NM_033286	NP_150628	Q9Y448	T4AF1_HUMAN	TRAF4 associated factor 1 isoform a	264	Potential.					nucleus	protein binding			ovary(1)|skin(1)	2		all_cancers(109;2.34e-14)|all_epithelial(112;9.21e-12)|Lung NSC(122;2.95e-09)|all_lung(180;6.03e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.39e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0798)		GCTTTTTAACGAAACAGCCAA	0.403													49	107					0	0	1	0	0		A	40684192	A	A	40684192	3	1	89	1	0	0	0	0	1	0	0	0	1788	1059	37	1	820	1	C15orf23	15	40684192	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	119655	40684192	61847200	5167	58998											
CASC5	57082	broad.mit.edu	37	chr15	40913959	40913959	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaatagataatcaaattttTaaacaagatcaatcaaatgt	20	12	4	5	0	3	2	3	0	0	2	3	2	3	2	0	0	1	1	0	0	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:40913959T>A	uc010bbs.1	+	11	1736	c.1575T>A	c.(1573-1575)TTT>TTA	p.F525L	CASC5_uc010ucq.1_Missense_Mutation_p.F349L|CASC5_uc001zme.2_Missense_Mutation_p.F499L|CASC5_uc010bbt.1_Missense_Mutation_p.F499L	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	525	Interaction with BUB1 and BUB1B.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		ATCAAATTTTTAAACAAGATC	0.368													25	53					0	0	1	0	0		A	40913959	A	A	40913959	3	1	89	1	0	0	0	0	1	0	0	0	2666	1751	61	5	1613	5	CASC5	15	40913959	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	229767	40913959	61617433	5168	58999											
CASC5	57082	broad.mit.edu	37	chr15	40914552	40914552	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggaacaatctttgttttCtaccacaaagccattatttt	12	16	5	8	0	2	0	0	0	2	0	2	1	2	1	2	1	3	1	2	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:40914552C>A	uc010bbs.1	+	11	2329	c.2168C>A	c.(2167-2169)TCT>TAT	p.S723Y	CASC5_uc010ucq.1_Missense_Mutation_p.S547Y|CASC5_uc001zme.2_Missense_Mutation_p.S697Y|CASC5_uc010bbt.1_Missense_Mutation_p.S697Y	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	723	Interaction with BUB1 and BUB1B.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		TCTTTGTTTTCTACCACAAAG	0.343													16	40					0.0242445	0.0243994	1	1	0		A	40914552	A	A	40914552	3	1	89	1	0	0	0	0	1	0	0	0	2666	913	32	5	2206	5	CASC5	15	40914552	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	593	40914552	61616840	5169	59000											
CASC5	57082	broad.mit.edu	37	chr15	40916289	40916289	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcaagttgaaagctgtcAgttaaataatagagatagaa	18	9	10	4	1	1	3	1	1	0	2	1	4	1	3	0	0	2	4	0	0	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:40916289A>G	uc010bbs.1	+	11	4066	c.3905A>G	c.(3904-3906)CAG>CGG	p.Q1302R	CASC5_uc010ucq.1_Missense_Mutation_p.Q1126R|CASC5_uc001zme.2_Missense_Mutation_p.Q1276R|CASC5_uc010bbt.1_Missense_Mutation_p.Q1276R	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	1302					acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		GAAAGCTGTCAGTTAAATAAT	0.363													38	98					0	0	1	0	0		G	40916289	G	G	40916289	3	3	89	1	0	0	0	0	1	0	0	0	2666	188	7	3	3943	3	CASC5	15	40916289	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1737	40916289	61615103	5170	59001											
FAM82A2	55177	broad.mit.edu	37	chr15	41043667	41043667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaacgtggctcccgaggaggCcgtgaagtagacagagctgg	10	5	17	9	3	0	3	0	1	0	2	1	6	1	4	2	4	2	3	2	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:41043667C>T	uc001zmo.1	-	4	625	c.481G>A	c.(481-483)GCC>ACC	p.A161T	FAM82A2_uc001zmp.1_Missense_Mutation_p.A161T|FAM82A2_uc001zmq.1_Missense_Mutation_p.A161T	NM_018145	NP_060615	Q96TC7	RMD3_HUMAN	family with sequence similarity 82, member A2	161					apoptosis|cell differentiation	integral to membrane|microtubule|mitochondrial membrane|nucleus|spindle pole	protein binding				0						CCCGAGGAGGCCGTGAAGTAG	0.557													61	115					0	0	1	0	0		T	41043667	T	T	41043667	3	4	89	1	0	0	0	0	1	0	0	0	5645	739	26	2	971	2	FAM82A2	15	41043667	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	127378	41043667	61487725	5171	59002											
INO80	54617	broad.mit.edu	37	chr15	41387799	41387799	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctgctttatctcttacCtttagccactttctgctttt	5	19	3	14	0	2	0	0	0	2	0	3	0	2	0	3	0	4	2	3	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:41387799C>T	uc001zni.2	-	4	594	c.381G>A	c.(379-381)AAG>AAA	p.K127K	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	127	Assembles INO80 complex module with putative regulatory components INO80E, INO80F, UCHL5, NFRKB, MCRS1 and IN80D.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						TATCTCTTACCTTTAGCCACT	0.308													26	41					0	0	1	0	0		T	41387799	T	T	41387799	2	4	89	1	0	0	0	0	0	0	0	1	7762	695	24	4		4	INO80	15	41387799	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	344132	41387799	61143593	5172	59003											
CHP	11261	broad.mit.edu	37	chr15	41554990	41554990	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccgtggattcatgcgaacTttggctcatttccgccccat	6	14	8	13	3	2	0	2	0	0	0	4	2	4	1	4	2	2	1	4	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:41554990T>G	uc001znl.2	+	4	402	c.258T>G	c.(256-258)ACT>ACG	p.T86T		NM_007236	NP_009167	Q99653	CHP1_HUMAN	calcium binding protein P22	86	EF-hand 2.				potassium ion transport|small GTPase mediated signal transduction		potassium channel regulator activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;5.87e-16)|Lung NSC(122;8.86e-12)|all_lung(180;2.47e-10)|Melanoma(134;0.0574)|Colorectal(260;0.0946)|Ovarian(310;0.143)		GBM - Glioblastoma multiforme(113;1.68e-06)|LUSC - Lung squamous cell carcinoma(244;0.008)|Lung(196;0.00802)|BRCA - Breast invasive adenocarcinoma(123;0.169)		TCATGCGAACTTTGGCTCATT	0.423													69	111					0	0	1	0	0		G	41554990	G	G	41554990	2	3	89	1	0	0	0	0	0	0	0	1	3369	1596	56	5		5	CHP	15	41554990	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	167191	41554990	60976402	5173	59004											
LTK	4058	broad.mit.edu	37	chr15	41797252	41797252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagcaggcagttccgggCggcaatatccctacagagta	10	7	12	12	2	1	1	1	0	0	1	3	1	3	1	2	3	2	6	2	3	4	4	rs145997165		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:41797252C>T	uc001zoa.3	-	16	2114	c.1936G>A	c.(1936-1938)GCC>ACC	p.A646T	LTK_uc001zob.3_Missense_Mutation_p.A585T|LTK_uc010ucx.1_Missense_Mutation_p.A516T|LTK_uc010bcg.2_Missense_Mutation_p.A344T	NM_002344	NP_002335	P29376	LTK_HUMAN	leukocyte receptor tyrosine kinase isoform 1	646	Protein kinase.|Cytoplasmic (Potential).				apoptosis|cell proliferation|phosphatidylinositol 3-kinase cascade|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|central_nervous_system(1)	7		all_cancers(109;1.89e-19)|all_epithelial(112;2.28e-16)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.172)		OV - Ovarian serous cystadenocarcinoma(18;2.1e-17)|GBM - Glioblastoma multiforme(113;1.34e-06)|Colorectal(105;0.0148)|BRCA - Breast invasive adenocarcinoma(123;0.113)		CAGTTCCGGGCGGCAATATCC	0.527										TSP Lung(18;0.14)			9	17					0	0	1	0	0		T	41797252	T	T	41797252	3	4	89	1	0	0	0	0	1	0	0	0	9098	768	27	1	678	1	LTK	15	41797252	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	242262	41797252	60734140	5174	59005											
MGA	23269	broad.mit.edu	37	chr15	42021440	42021440	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgagttcgagtatatgagCgaaaaaaagaggaccagaga	17	6	12	6	3	0	3	0	1	0	2	2	8	0	4	1	1	1	2	1	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:42021440C>T	uc010ucy.1	+	11	3917	c.3736C>T	c.(3736-3738)CGA>TGA	p.R1246*	MGA_uc010ucz.1_Nonsense_Mutation_p.R1246*	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1246						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		AGTATATGAGCGAAAAAAAGA	0.408													13	29					0	0	1	0	0		T	42021440	T	T	42021440	4	4	89	1	0	0	0	0	0	1	0	0	9558	760	27	1	3774	1	MGA	15	42021440	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	224188	42021440	60509952	5175	59006											
PLA2G4F	255189	broad.mit.edu	37	chr15	42442027	42442027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagaggtcaaagccaaggcGtaggtctaggtccccggagc	11	5	15	10	2	2	1	1	0	1	1	3	3	3	2	3	5	2	1	3	5	4	2	rs144191503		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:42442027G>A	uc001zoz.2	-	11	1006	c.943C>T	c.(943-945)CGC>TGC	p.R315C	PLA2G4F_uc001zoy.2_5'Flank|PLA2G4F_uc010bcr.2_Missense_Mutation_p.R66C|PLA2G4F_uc001zpa.2_Missense_Mutation_p.R66C|PLA2G4F_uc010bcs.2_Missense_Mutation_p.R102C	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	315	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		AAGCCAAGGCGTAGGTCTAGG	0.637													18	46					0	0	1	0	0		A	42442027	A	A	42442027	3	1	89	1	0	0	0	0	1	0	0	0	12025	1145	40	1	1646	1	PLA2G4F	15	42442027	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	420587	42442027	60089365	5176	59007											
PLA2G4F	255189	broad.mit.edu	37	chr15	42442820	42442820	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcacctgcacagctgccaGcagctccatcagctccacgt	9	7	7	18	1	2	0	2	0	0	0	4	0	4	0	4	0	6	5	4	0	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:42442820G>A	uc001zoz.2	-	8	820	c.757C>T	c.(757-759)CTG>TTG	p.L253L	PLA2G4F_uc001zoy.2_5'Flank|PLA2G4F_uc010bcr.2_Silent_p.L4L|PLA2G4F_uc001zpa.2_Silent_p.L4L|PLA2G4F_uc010bcs.2_Silent_p.L40L	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	253					phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		ACAGCTGCCAGCAGCTCCATC	0.632													9	19					0	0	1	0	0		A	42442820	A	A	42442820	2	1	89	1	0	0	0	0	0	0	0	1	12025	962	34	2		2	PLA2G4F	15	42442820	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	793	42442820	60088572	5177	59008											
CAPN3	825	broad.mit.edu	37	chr15	42691806	42691806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgtctgtgaacgagggccGctgggtacggggttgctctg	5	10	18	8	3	2	1	0	1	2	0	2	2	2	1	1	4	3	4	1	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:42691806G>A	uc001zpn.1	+	10	1616	c.1310G>A	c.(1309-1311)CGC>CAC	p.R437H	CAPN3_uc001zpk.1_Missense_Mutation_p.R210H|CAPN3_uc001zpl.1_Missense_Mutation_p.R350H|CAPN3_uc010udf.1_Missense_Mutation_p.R350H|CAPN3_uc010udg.1_Missense_Mutation_p.R302H|CAPN3_uc001zpo.1_Missense_Mutation_p.R437H|CAPN3_uc001zpp.1_Missense_Mutation_p.R389H|CAPN3_uc001zpq.1_5'Flank	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	437	Domain III.		R -> C (in LGMD2A).		muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)		AACGAGGGCCGCTGGGTACGG	0.567													12	23					0	0	1	0	0		A	42691806	A	A	42691806	3	1	89	1	0	0	0	0	1	0	0	0	2631	1087	38	1	1400	1	CAPN3	15	42691806	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	248986	42691806	59839586	5178	59009											
TTBK2	146057	broad.mit.edu	37	chr15	43044235	43044235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgaggaaagaactgagacGaagttgagctattgacctga	14	7	13	7	2	0	5	0	4	0	2	0	9	0	6	2	1	2	2	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:43044235G>A	uc001zqo.2	-	14	3648	c.3209C>T	c.(3208-3210)TCG>TTG	p.S1070L	TTBK2_uc010bcy.2_Missense_Mutation_p.S1001L	NM_173500	NP_775771	Q6IQ55	TTBK2_HUMAN	tau tubulin kinase 2	1070					cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)		GAACTGAGACGAAGTTGAGCT	0.498													55	112					0	0	1	0	0		A	43044235	A	A	43044235	3	1	89	1	0	0	0	0	1	0	0	0	16703	1059	37	1	533	1	TTBK2	15	43044235	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	352429	43044235	59487157	5179	59010											
TTBK2	146057	broad.mit.edu	37	chr15	43044613	43044613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgtgctaaaacagggattCggctgtgtctagttacaaag	11	12	11	7	1	1	0	0	0	1	0	2	1	1	1	0	2	3	3	0	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:43044613C>T	uc001zqo.2	-	14	3270	c.2831G>A	c.(2830-2832)CGA>CAA	p.R944Q	TTBK2_uc010bcy.2_Missense_Mutation_p.R875Q	NM_173500	NP_775771	Q6IQ55	TTBK2_HUMAN	tau tubulin kinase 2	944					cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)		AACAGGGATTCGGCTGTGTCT	0.433													41	99					0	0	1	0	0		T	43044613	T	T	43044613	3	4	89	1	0	0	0	0	1	0	0	0	16703	884	31	1	911	1	TTBK2	15	43044613	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	378	43044613	59486779	5180	59011											
EPB42	2038	broad.mit.edu	37	chr15	43508531	43508531	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacggactggagcgcggaagTacaggatgatggtgaagggc	11	5	18	7	3	0	2	0	2	0	0	0	6	0	6	0	6	2	1	0	6	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:43508531T>C	uc001zra.3	-	2	431	c.131A>G	c.(130-132)TAC>TGC	p.Y44C	EPB42_uc010bde.2_5'UTR|EPB42_uc001zrb.3_Missense_Mutation_p.Y74C|EPB42_uc010udm.1_Missense_Mutation_p.Y44C	NM_001114134	NP_001107606	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2 isoform 2	44					erythrocyte maturation|peptide cross-linking|regulation of cell shape	cytoplasm|cytoskeleton|plasma membrane	ATP binding|protein binding|protein-glutamine gamma-glutamyltransferase activity|structural constituent of cytoskeleton			ovary(2)	2		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		AGCGCGGAAGTACAGGATGAT	0.582													30	52					0	0	1	0	0		C	43508531	C	C	43508531	3	2	89	1	0	0	0	0	1	0	0	0	5166	1638	57	3	1992	3	EPB42	15	43508531	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	463918	43508531	59022861	5181	59012											
TGM7	116179	broad.mit.edu	37	chr15	43584953	43584953	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaaagttcccagcgggtaAgtcacactgtgaccttggcc	10	9	11	11	1	1	2	1	2	0	0	2	2	2	2	3	2	1	2	3	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:43584953A>C	uc001zrf.1	-	3	398	c.393T>G	c.(391-393)ACT>ACG	p.T131T		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	131					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	CCAGCGGGTAAGTCACACTGT	0.483													73	125					0	0	1	0	0		C	43584953	C	C	43584953	2	2	89	1	0	0	0	0	0	0	0	1	15860	59	3	5		5	TGM7	15	43584953	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	76422	43584953	58946439	5182	59013											
LCMT2	9836	broad.mit.edu	37	chr15	43620802	43620802	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggcacatatgttgtgtcaAtctgatactcagagctcaat	12	13	8	8	0	4	2	3	1	1	1	4	2	4	2	0	1	2	3	0	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:43620802A>C	uc001zrg.2	-	1	2090	c.1886T>G	c.(1885-1887)ATT>AGT	p.I629S	LCMT2_uc010udn.1_Missense_Mutation_p.I208S|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	629					tRNA processing		methyltransferase activity|protein binding				0		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.1e-07)	L-Leucine(DB00149)	TGTTGTGTCAATCTGATACTC	0.458													31	76					0	0	1	0	0		C	43620802	C	C	43620802	3	2	89	1	0	0	0	0	1	0	0	0	8695	101	4	5	178	5	LCMT2	15	43620802	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	35849	43620802	58910590	5183	59014											
CKMT1A	548596	broad.mit.edu	37	chr15	43988539	43988539	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaagagagtgtttgaaaGattctgccgaggcctcaaag	13	9	12	7	1	2	4	1	2	1	2	2	6	2	4	2	1	1	1	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:43988539G>T	uc001zsn.2	+	7	1246	c.854G>T	c.(853-855)AGA>ATA	p.R285I	CKMT1A_uc010uea.1_Missense_Mutation_p.R316I|CKMT1A_uc010ueb.1_RNA|CKMT1A_uc010bdo.2_Missense_Mutation_p.R126I|CKMT1A_uc001zso.3_Missense_Mutation_p.R285I	NM_001015001	NP_001015001	P12532	KCRU_HUMAN	creatine kinase, mitochondrial 1A precursor	285	Phosphagen kinase C-terminal.				creatine metabolic process	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)	Creatine(DB00148)	GTGTTTGAAAGATTCTGCCGA	0.433													23	94					1.15183e-24	1.38497e-24	1	1	0		T	43988539	T	T	43988539	3	4	89	1	0	0	0	0	1	0	0	0	3452	942	33	5	876	5	CKMT1A	15	43988539	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	367737	43988539	58542853	5184	59015											
CTDSPL2	51496	broad.mit.edu	37	chr15	44811443	44811443	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatattcttggaagagatCtttcaaaaactataataatt	18	15	4	4	0	3	1	1	0	2	1	3	3	3	2	0	1	1	0	0	1	9	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:44811443C>A	uc001ztr.2	+	11	1605	c.1189C>A	c.(1189-1191)CTT>ATT	p.L397I	CTDSPL2_uc001zts.2_Missense_Mutation_p.L397I|CTDSPL2_uc001ztt.2_Missense_Mutation_p.L397I|CTDSPL2_uc010bdv.2_Missense_Mutation_p.L325I	NM_016396	NP_057480	Q05D32	CTSL2_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	397	FCP1 homology.						phosphoprotein phosphatase activity				0		all_cancers(109;4.36e-14)|all_epithelial(112;9.8e-12)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.0122)		all cancers(107;1.02e-20)|GBM - Glioblastoma multiforme(94;1.49e-06)|COAD - Colon adenocarcinoma(120;0.0857)|Colorectal(105;0.0905)		TGGAAGAGATCTTTCAAAAAC	0.308													27	41					2.65835e-16	3.05131e-16	1	1	0		A	44811443	A	A	44811443	3	1	89	1	0	0	0	0	1	0	0	0	4009	913	32	5	1227	5	CTDSPL2	15	44811443	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	822904	44811443	57719949	5185	59016											
SPG11	80208	broad.mit.edu	37	chr15	44944095	44944095	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaacctccagtttggagttCtttattgtttcattcaatga	10	17	7	7	0	3	1	2	1	1	0	4	3	4	2	2	1	1	3	2	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:44944095C>T	uc001ztx.2	-	6	1081	c.1050G>A	c.(1048-1050)AAG>AAA	p.K350K	SPG11_uc010ueh.1_Silent_p.K350K|SPG11_uc010uei.1_Silent_p.K350K|SPG11_uc001zua.1_Silent_p.K350K	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	350	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		GTTTGGAGTTCTTTATTGTTT	0.403													21	30					0	0	1	0	0		T	44944095	T	T	44944095	2	4	89	1	0	0	0	0	0	0	0	1	15066	912	32	4		4	SPG11	15	44944095	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	132652	44944095	57587297	5186	59017											
TRIM69	140691	broad.mit.edu	37	chr15	45059668	45059668	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcagagaatccatcattCggaagggcagctgtcctcta	10	11	10	10	1	3	1	2	0	1	1	6	3	5	2	2	2	1	2	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:45059668C>A	uc001zuf.2	+	8	2096	c.1201C>A	c.(1201-1203)CGG>AGG	p.R401R	TRIM69_uc001zui.1_Silent_p.R197R|TRIM69_uc010bdy.1_Silent_p.R180R|TRIM69_uc001zug.1_Silent_p.R401R|TRIM69_uc001zuh.1_Silent_p.R242R	NM_182985	NP_892030	Q86WT6	TRI69_HUMAN	tripartite motif-containing 69 isoform a	401	B30.2/SPRY.				apoptosis	nuclear speck	zinc ion binding				0		all_cancers(109;2.47e-13)|all_epithelial(112;2.84e-11)|Lung NSC(122;2.23e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;5.5e-19)|GBM - Glioblastoma multiforme(94;1.07e-06)|Colorectal(105;0.138)|COAD - Colon adenocarcinoma(120;0.141)		ATCCATCATTCGGAAGGGCAG	0.458													36	71					2.09667e-21	2.48674e-21	1	1	0		A	45059668	A	A	45059668	2	1	89	1	0	0	0	0	0	0	0	1	16568	875	31	5		5	TRIM69	15	45059668	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	115573	45059668	57471724	5187	59018											
SORD	6652	broad.mit.edu	37	chr15	45365719	45365719	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtgaccccagtgaccaGaatccctgatgttaatgggc	11	9	11	10	0	0	4	0	3	0	1	1	4	1	4	4	1	0	1	4	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:45365719G>T	uc001zul.3	+	9	1206	c.1065G>T	c.(1063-1065)CAG>CAT	p.Q355H	SORD_uc001zum.3_3'UTR|SORD_uc010bdz.2_Missense_Mutation_p.Q276H	NM_003104	NP_003095	Q00796	DHSO_HUMAN	sorbitol dehydrogenase	355					fructose biosynthetic process|glucose metabolic process|L-xylitol catabolic process|sorbitol catabolic process|sperm motility	cilium|extracellular space|flagellum|membrane fraction|mitochondrial membrane|soluble fraction	L-iditol 2-dehydrogenase activity|NAD binding|sugar binding|zinc ion binding				0		all_cancers(109;3.43e-12)|all_epithelial(112;2.33e-10)|Lung NSC(122;6.01e-07)|all_lung(180;4.38e-06)|Melanoma(134;0.0122)		all cancers(107;1.6e-18)|GBM - Glioblastoma multiforme(94;4.95e-07)|COAD - Colon adenocarcinoma(120;0.0704)|Colorectal(133;0.0706)	NADH(DB00157)	CCAGTGACCAGAATCCCTGAT	0.498													17	34					6.38683e-12	7.03806e-12	1	1	0		T	45365719	T	T	45365719	3	4	89	1	0	0	0	0	1	0	0	0	14958	933	33	5	1099	5	SORD	15	45365719	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	306051	45365719	57165673	5188	59019											
DUOX1	53905	broad.mit.edu	37	chr15	45428767	45428767	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccagcatctcctcagagttCgtggcggcctctgagcagtt	6	10	11	14	2	3	2	1	1	2	1	5	2	3	2	3	2	2	4	3	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:45428767C>T	uc001zus.1	+	10	1312	c.966C>T	c.(964-966)TTC>TTT	p.F322F	DUOX1_uc001zut.1_Silent_p.F322F|DUOX1_uc010bee.1_5'UTR	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	322	Peroxidase-like; mediates peroxidase activity.|Extracellular (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		CCTCAGAGTTCGTGGCGGCCT	0.577													39	77					0	0	1	0	0		T	45428767	T	T	45428767	2	4	89	1	0	0	0	0	0	0	0	1	4806	883	31	1		1	DUOX1	15	45428767	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	63048	45428767	57102625	5189	59020											
DUOX1	53905	broad.mit.edu	37	chr15	45443388	45443388	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagttgacacctcagagaCtgcagtgccccatggacaca	11	7	10	13	0	1	3	1	2	0	1	1	5	1	4	3	1	2	2	3	1	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:45443388C>T	uc001zus.1	+	24	3302	c.2956C>T	c.(2956-2958)CTG>TTG	p.L986L	DUOX1_uc001zut.1_Silent_p.L986L|DUOX1_uc010bee.1_Silent_p.L366L|DUOX1_uc001zuu.2_Silent_p.L128L	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	986	Cytoplasmic (Potential).|Interaction with TXNDC11 (By similarity).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		ACCTCAGAGACTGCAGTGCCC	0.537													46	75					0	0	1	0	0		T	45443388	T	T	45443388	2	4	89	1	0	0	0	0	0	0	0	1	4806	564	20	4		4	DUOX1	15	45443388	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14621	45443388	57088004	5190	59021											
GATM	2628	broad.mit.edu	37	chr15	45656125	45656125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttcaaacatcttttgaattgGaacttcattggcatccacca	12	14	5	10	0	3	1	2	1	1	0	4	2	4	2	2	2	2	1	2	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:45656125G>A	uc001zvc.2	-	8	1461	c.1132C>T	c.(1132-1134)CCA>TCA	p.P378S	GATM_uc001zvb.2_Missense_Mutation_p.P249S|GATM_uc010uev.1_Missense_Mutation_p.P431S	NM_001482	NP_001473	P50440	GATM_HUMAN	L-arginine:glycine amidinotransferase precursor	378					creatine biosynthetic process	mitochondrial inner membrane|mitochondrial intermembrane space	glycine amidinotransferase activity|protein binding				0		all_cancers(109;1.25e-09)|all_epithelial(112;5.56e-08)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;4.87e-16)|GBM - Glioblastoma multiforme(94;1.97e-06)	Creatine(DB00148)|Glycine(DB00145)|L-Ornithine(DB00129)	TTTTGAATTGGAACTTCATTG	0.353													28	42					0	0	1	0	0		A	45656125	A	A	45656125	3	1	89	1	0	0	0	0	1	0	0	0	6278	1174	41	4	147	4	GATM	15	45656125	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	212737	45656125	56875267	5191	59022											
SPATA5L1	79029	broad.mit.edu	37	chr15	45707949	45707949	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggacttaagacaatagaGagaagaggaagtaaatcaag	19	7	12	3	0	1	4	1	0	0	4	1	7	1	6	0	2	0	2	0	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:45707949G>T	uc001zve.2	+	5	1918	c.1809G>T	c.(1807-1809)GAG>GAT	p.E603D	SPATA5L1_uc001zvf.2_RNA	NM_024063	NP_076968	Q9BVQ7	SPA5L_HUMAN	spermatogenesis associated 5-like 1	603						cytoplasm	ATP binding|nucleoside-triphosphatase activity			ovary(3)|skin(1)	4		Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;7.31e-17)|GBM - Glioblastoma multiforme(94;6.28e-07)		AGACAATAGAGAGAAGAGGAA	0.408													13	31					4.36969e-10	4.72811e-10	1	1	0		T	45707949	T	T	45707949	3	4	89	1	0	0	0	0	1	0	0	0	15037	933	33	5	1827	5	SPATA5L1	15	45707949	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	51824	45707949	56823443	5192	59023											
SEMA6D	80031	broad.mit.edu	37	chr15	48053386	48053386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgatcaagacaacaggatcGagaaaactgtgctatgaaag	17	6	11	7	2	1	3	1	1	0	2	2	6	1	4	0	1	3	1	0	1	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:48053386G>A	uc010bek.2	+	5	674	c.314G>A	c.(313-315)CGA>CAA	p.R105Q	SEMA6D_uc001zvw.2_Missense_Mutation_p.R105Q|SEMA6D_uc001zvx.1_Missense_Mutation_p.R105Q|SEMA6D_uc001zvy.2_Missense_Mutation_p.R105Q|SEMA6D_uc001zvz.2_Missense_Mutation_p.R105Q|SEMA6D_uc001zwa.2_Missense_Mutation_p.R105Q|SEMA6D_uc001zwb.2_Missense_Mutation_p.R105Q|SEMA6D_uc001zwc.2_Missense_Mutation_p.R105Q	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	105	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		CAACAGGATCGAGAAAACTGT	0.408													19	44					0	0	1	0	0		A	48053386	A	A	48053386	3	1	89	1	0	0	0	0	1	0	0	0	14067	1058	37	1	328	1	SEMA6D	15	48053386	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2345437	48053386	54478006	5193	59024											
SLC12A1	6557	broad.mit.edu	37	chr15	48580336	48580336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taaaaagaaacaagaaaaagGcacaattgatgtttggtggt	19	9	10	3	0	0	3	0	1	0	2	0	3	0	3	0	3	1	2	0	3	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:48580336G>A	uc001zwn.3	+	22	2942	c.2726G>A	c.(2725-2727)GGC>GAC	p.G909D	SLC12A1_uc001zwq.3_Missense_Mutation_p.G680D|SLC12A1_uc001zwr.3_Missense_Mutation_p.G636D	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	909	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	CAAGAAAAAGGCACAATTGAT	0.378													11	9					0	0	1	0	0		A	48580336	A	A	48580336	3	1	89	1	0	0	0	0	1	0	0	0	14407	1203	42	2	2908	2	SLC12A1	15	48580336	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	526950	48580336	53951056	5194	59025											
FBN1	2200	broad.mit.edu	37	chr15	48703309	48703309	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttataaagtggagtactacTgatttgtaatgaataggttc	13	16	9	3	0	0	2	0	2	0	0	1	3	0	3	0	2	2	3	0	2	8	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:48703309T>G	uc001zwx.1	-	66	8822	c.8494A>C	c.(8494-8496)AGT>CGT	p.S2832R	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2832					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GGAGTACTACTGATTTGTAAT	0.373													24	67					0	0	1	0	0		G	48703309	G	G	48703309	3	3	89	1	0	0	0	0	1	0	0	0	5716	1580	55	5	125	5	FBN1	15	48703309	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	122973	48703309	53828083	5195	59026											
FBN1	2200	broad.mit.edu	37	chr15	48703477	48703477	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaaggagttctaggattcGaaccttgttactgacgtggg	9	12	14	6	2	1	1	0	1	1	0	2	5	1	4	1	4	2	2	1	4	4	5	rs137854466		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:48703477G>A	uc001zwx.1	-	66	8654	c.8326C>T	c.(8326-8328)CGA>TGA	p.R2776*	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2776					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		TCTAGGATTCGAACCTTGTTA	0.413													51	95					0	0	1	0	0		A	48703477	A	A	48703477	4	1	89	1	0	0	0	0	0	1	0	0	5716	1066	37	1	293	1	FBN1	15	48703477	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	168	48703477	53827915	5196	59027											
FBN1	2200	broad.mit.edu	37	chr15	48776091	48776091	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactctccagggatatttgtGcactgaccaccatcacagat	11	11	7	12	0	2	2	1	1	1	1	3	3	2	3	3	1	2	1	3	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:48776091G>A	uc001zwx.1	-	31	4090	c.3762C>T	c.(3760-3762)TGC>TGT	p.C1254C		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1254	EGF-like 20; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GGATATTTGTGCACTGACCAC	0.403													22	55					0	0	1	0	0		A	48776091	A	A	48776091	2	1	89	1	0	0	0	0	0	0	0	1	5716	1311	46	2		2	FBN1	15	48776091	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	72614	48776091	53755301	5197	59028											
COPS2	9318	broad.mit.edu	37	chr15	49436464	49436464	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatttgtttcagtgctttaAatccccattctcctttttca	7	20	3	11	0	4	0	3	0	1	0	6	0	5	0	3	0	1	2	3	0	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:49436464A>C	uc001zxf.2	-	3	285	c.206T>G	c.(205-207)TTT>TGT	p.F69C	COPS2_uc001zxh.2_Missense_Mutation_p.F69C|COPS2_uc010ufa.1_Intron	NM_004236	NP_004227	P61201	CSN2_HUMAN	COP9 constitutive photomorphogenic homolog	69					cullin deneddylation|transcription from RNA polymerase II promoter	cytoplasm|signalosome	protein binding|signal transducer activity			lung(1)	1		all_lung(180;0.0428)		all cancers(107;1.34e-07)|GBM - Glioblastoma multiforme(94;3.02e-05)		CAGTGCTTTAAATCCCCATTC	0.294													22	52					0	0	1	0	0		C	49436464	C	C	49436464	3	2	89	1	0	0	0	0	1	0	0	0	3736	14	1	5	1190	5	COPS2	15	49436464	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	660373	49436464	53094928	5198	59029											
C15orf33	196951	broad.mit.edu	37	chr15	49663591	49663591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatctttataatattgaagtCgatacctaaaacagaaaata	20	12	4	5	1	1	2	0	1	1	1	2	3	1	2	1	0	2	0	1	0	11	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:49663591C>T	uc001zxl.2	-	12	1312	c.1018G>A	c.(1018-1020)GAC>AAC	p.D340N		NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	340										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)		ATATTGAAGTCGATACCTAAA	0.333													61	93					0	0	1	0	0		T	49663591	T	T	49663591	3	4	89	1	0	0	0	0	1	0	0	0	1794	884	31	1	528	1	C15orf33	15	49663591	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	227127	49663591	52867801	5199	59030											
FGF7	2252	broad.mit.edu	37	chr15	49716732	49716732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacagtggtacctgaggatcGataaaagaggcaaagtaaaa	18	6	11	6	1	0	2	0	1	0	1	1	4	0	3	1	3	1	3	1	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:49716732G>A	uc001zxn.2	+	2	767	c.238G>A	c.(238-240)GAT>AAT	p.D80N	C15orf33_uc001zxl.2_Intron|C15orf33_uc001zxm.2_Intron	NM_002009	NP_002000	P21781	FGF7_HUMAN	fibroblast growth factor 7 precursor	80					actin cytoskeleton reorganization|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|mesenchymal cell proliferation|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|protein localization at cell surface|secretion by lung epithelial cell involved in lung growth		chemoattractant activity|growth factor activity				0		all_lung(180;0.00391)		all cancers(107;3.61e-08)|GBM - Glioblastoma multiforme(94;4.06e-05)	Palifermin(DB00039)	CCTGAGGATCGATAAAAGAGG	0.403													26	47					0	0	1	0	0		A	49716732	A	A	49716732	3	1	89	1	0	0	0	0	1	0	0	0	5871	1058	37	1	240	1	FGF7	15	49716732	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	53141	49716732	52814660	5200	59031											
C15orf33	196951	broad.mit.edu	37	chr15	49869835	49869835	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttaagtacctctatattCttctctgtctccatttcatc	8	20	2	11	0	5	0	1	0	4	0	8	0	5	0	2	0	1	1	2	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:49869835C>A	uc001zxl.2	-	6	726	c.432G>T	c.(430-432)AAG>AAT	p.K144N	C15orf33_uc001zxm.2_Missense_Mutation_p.K144N	NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	144										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)		CCTCTATATTCTTCTCTGTCT	0.259													14	16					1.05317e-09	1.13491e-09	1	1	0		A	49869835	A	A	49869835	3	1	89	1	0	0	0	0	1	0	0	0	1794	912	32	5	1138	5	C15orf33	15	49869835	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	153103	49869835	52661557	5201	59032											
SLC27A2	11001	broad.mit.edu	37	chr15	50489750	50489750	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttaaaaaagatgatgtgTccatctattatgtgagcaga	14	12	9	6	0	1	4	0	2	1	2	2	4	2	4	2	0	1	1	2	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:50489750T>C	uc001zxw.2	+	2	764	c.532T>C	c.(532-534)TCC>CCC	p.S178P	SLC27A2_uc010bes.2_Missense_Mutation_p.S178P|SLC27A2_uc001zxx.2_5'UTR	NM_003645	NP_003636	O14975	S27A2_HUMAN	solute carrier family 27 (fatty acid	178	Lumenal (Potential).				bile acid biosynthetic process|fatty acid alpha-oxidation	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity|phytanate-CoA ligase activity|pristanate-CoA ligase activity			ovary(1)|skin(1)	2		all_lung(180;0.00177)		all cancers(107;1.16e-06)|GBM - Glioblastoma multiforme(94;0.000113)		AGATGATGTGTCCATCTATTA	0.363													24	66					0	0	1	0	0		C	50489750	C	C	50489750	3	2	89	1	0	0	0	0	1	0	0	0	14551	1667	58	3	538	3	SLC27A2	15	50489750	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	619915	50489750	52041642	5202	59033											
USP50	373509	broad.mit.edu	37	chr15	50838687	50838687	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacaggacgtggtagatatcGaagtcatctgcagggagaga	13	7	14	7	2	2	2	1	0	1	2	3	6	2	4	0	3	1	2	0	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:50838687G>A	uc001zyq.3	-	1	216	c.36C>T	c.(34-36)TTC>TTT	p.F12F		NM_203494	NP_987090	E9PP86	E9PP86_HUMAN	ubiquitin specific protease 50	12					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			lung(1)|breast(1)	2				all cancers(107;0.000519)|GBM - Glioblastoma multiforme(94;0.00288)		GGTAGATATCGAAGTCATCTG	0.468													40	71					0	0	1	0	0		A	50838687	A	A	50838687	2	1	89	1	0	0	0	0	0	0	0	1	17108	1049	37	1		1	USP50	15	50838687	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	348937	50838687	51692705	5203	59034											
TRPM7	54822	broad.mit.edu	37	chr15	50853889	50853889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaatattataacatcagacGaacagaattagttgattctg	16	14	6	5	1	2	3	1	1	1	2	2	4	2	3	0	0	2	1	0	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:50853889G>A	uc001zyt.3	-	39	5848	c.5584C>T	c.(5584-5586)CGT>TGT	p.R1862C	TRPM7_uc001zyr.2_Missense_Mutation_p.R299C	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	1862	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		AACATCAGACGAACAGAATTA	0.363													17	34					0	0	1	0	0		A	50853889	A	A	50853889	3	1	89	1	0	0	0	0	1	0	0	0	16617	1058	37	1	17	1	TRPM7	15	50853889	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	15202	50853889	51677503	5204	59035											
TRPM7	54822	broad.mit.edu	37	chr15	50878618	50878618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatgaacaggaatggaagttCtgtgacagtcagtaaatcca	16	9	10	6	0	2	2	1	2	1	0	3	4	3	4	1	2	1	2	1	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:50878618C>T	uc001zyt.3	-	28	4721	c.4457G>A	c.(4456-4458)AGA>AAA	p.R1486K	TRPM7_uc010bew.1_Missense_Mutation_p.R1486K	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	1486	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		AATGGAAGTTCTGTGACAGTC	0.313													15	19					0	0	1	0	0		T	50878618	T	T	50878618	3	4	89	1	0	0	0	0	1	0	0	0	16617	913	32	4	1188	4	TRPM7	15	50878618	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	24729	50878618	51652774	5205	59036											
TRPM7	54822	broad.mit.edu	37	chr15	50906354	50906354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagactattatatattaatCgaaaacgtttcctagtatag	16	14	5	6	2	0	1	0	0	0	1	2	2	1	1	1	0	1	2	1	0	11	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:50906354C>T	uc001zyt.3	-	14	1865	c.1601G>A	c.(1600-1602)CGA>CAA	p.R534Q	TRPM7_uc010bew.1_Missense_Mutation_p.R534Q|TRPM7_uc001zyu.2_Missense_Mutation_p.R92Q	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	534	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		ATATATTAATCGAAAACGTTT	0.323													28	62					0	0	1	0	0		T	50906354	T	T	50906354	3	4	89	1	0	0	0	0	1	0	0	0	16617	884	31	1	4100	1	TRPM7	15	50906354	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27736	50906354	51625038	5206	59037											
DMXL2	23312	broad.mit.edu	37	chr15	51755589	51755589	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatacctcactctgctttCttttcttagtgaaaatatat	13	17	3	8	0	4	1	1	1	3	0	4	1	4	1	1	0	2	1	1	0	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:51755589C>A	uc002abf.2	-	33	8135	c.7910G>T	c.(7909-7911)AGA>ATA	p.R2637I	DMXL2_uc002abd.2_Missense_Mutation_p.R708I|DMXL2_uc010ufy.1_Missense_Mutation_p.R2638I|DMXL2_uc010bfa.2_Missense_Mutation_p.R2001I	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	2637						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		ACTCTGCTTTCTTTTCTTAGT	0.303													20	75					1.33834e-09	1.43956e-09	1	1	0		A	51755589	A	A	51755589	3	1	89	1	0	0	0	0	1	0	0	0	4601	913	32	5	1244	5	DMXL2	15	51755589	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	849235	51755589	50775803	5207	59038											
DMXL2	23312	broad.mit.edu	37	chr15	51763435	51763435	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttacctttgcaacaaaataAtcccacatactaagttcggg	14	11	5	11	1	0	0	0	0	0	0	2	0	1	0	2	1	4	2	2	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:51763435A>C	uc002abf.2	-	29	7599	c.7374T>G	c.(7372-7374)GAT>GAG	p.D2458E	DMXL2_uc002abd.2_Missense_Mutation_p.D529E|DMXL2_uc010ufy.1_Missense_Mutation_p.D2459E|DMXL2_uc010bfa.2_Missense_Mutation_p.D1822E	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	2458						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		CAACAAAATAATCCCACATAC	0.408													30	68					0	0	1	0	0		C	51763435	C	C	51763435	3	2	89	1	0	0	0	0	1	0	0	0	4601	98	4	5	1796	5	DMXL2	15	51763435	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	7846	51763435	50767957	5208	59039											
DMXL2	23312	broad.mit.edu	37	chr15	51791197	51791197	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttttcctacggtgactgtTtcctttgctgtactgccact	4	18	7	12	1	1	1	0	1	1	0	3	1	3	1	3	1	4	3	3	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:51791197T>G	uc002abf.2	-	18	4449	c.4224A>C	c.(4222-4224)GAA>GAC	p.E1408D	DMXL2_uc010ufy.1_Missense_Mutation_p.E1408D|DMXL2_uc010bfa.2_Intron	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	1408						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		CGGTGACTGTTTCCTTTGCTG	0.418													89	194					0	0	1	0	0		G	51791197	G	G	51791197	3	3	89	1	0	0	0	0	1	0	0	0	4601	1838	64	5	4993	5	DMXL2	15	51791197	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	27762	51791197	50740195	5209	59040											
DMXL2	23312	broad.mit.edu	37	chr15	51828437	51828437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtatgtaaagagttaattCgagccaattctgatactcct	13	13	8	7	1	1	2	0	1	1	1	3	3	2	2	2	1	2	3	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:51828437C>T	uc002abf.2	-	12	2465	c.2240G>A	c.(2239-2241)CGA>CAA	p.R747Q	DMXL2_uc010ufy.1_Missense_Mutation_p.R747Q|DMXL2_uc010bfa.2_Missense_Mutation_p.R747Q	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	747						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		AGAGTTAATTCGAGCCAATTC	0.408													76	136					0	0	1	0	0		T	51828437	T	T	51828437	3	4	89	1	0	0	0	0	1	0	0	0	4601	884	31	1	7001	1	DMXL2	15	51828437	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	37240	51828437	50702955	5210	59041											
TMOD2	29767	broad.mit.edu	37	chr15	52069169	52069169	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgctcaacaatccaaagttCgatgaagaaacagccaacaa	18	7	6	10	1	1	2	1	1	0	1	3	3	2	2	2	0	5	2	2	0	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:52069169C>T	uc002abk.2	+	5	668	c.447C>T	c.(445-447)TTC>TTT	p.F149F	TMOD2_uc002abl.3_Silent_p.F149F|TMOD2_uc010bfb.2_Silent_p.F105F	NM_014548	NP_055363	Q9NZR1	TMOD2_HUMAN	neuronal tropomodulin isoform a	149					nervous system development	cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(2)	2				all cancers(107;0.00435)		ATCCAAAGTTCGATGAAGAAA	0.413													21	42					0	0	1	0	0		T	52069169	T	T	52069169	2	4	89	1	0	0	0	0	0	0	0	1	16259	883	31	1		1	TMOD2	15	52069169	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	240732	52069169	50462223	5211	59042											
TMOD3	29766	broad.mit.edu	37	chr15	52161468	52161468	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagacatcaaagtccaccAcagggccatttgatagagag	15	6	9	11	0	1	3	1	1	0	2	2	4	2	3	4	1	0	0	4	1	2	2	rs151135583		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:52161468A>G	uc002abm.2	+	3	400	c.181A>G	c.(181-183)ACA>GCA	p.T61A		NM_014547	NP_055362	Q9NYL9	TMOD3_HUMAN	tropomodulin 3 (ubiquitous)	61						cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(1)	1				all cancers(107;0.00194)		AAAGTCCACCACAGGGCCATT	0.453													29	67					0	0	1	0	0		G	52161468	G	G	52161468	3	3	89	1	0	0	0	0	1	0	0	0	16260	159	6	3	187	3	TMOD3	15	52161468	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	92299	52161468	50369924	5212	59043											
MYO5C	55930	broad.mit.edu	37	chr15	52539151	52539151	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcatttggcttgatgcatcGaacgtagtggggcgtcgtcg	7	12	14	8	5	1	1	1	1	0	0	4	2	1	1	0	3	2	3	0	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:52539151G>A	uc010bff.2	-	16	2079	c.1942C>T	c.(1942-1944)CGA>TGA	p.R648*	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	648	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		TTGATGCATCGAACGTAGTGG	0.468													23	72					0	0	1	0	0		A	52539151	A	A	52539151	4	1	89	1	0	0	0	0	0	1	0	0	10098	1066	37	1	3390	1	MYO5C	15	52539151	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	377683	52539151	49992241	5213	59044											
WDR72	256764	broad.mit.edu	37	chr15	53991950	53991950	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataaaatttcaacttacctgTttcaatttcccagatataaa	16	15	2	8	0	2	1	2	0	0	1	3	1	3	1	2	0	2	1	2	0	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:53991950T>C	uc002acj.2	-	13	1804	c.1762A>G	c.(1762-1764)ACA>GCA	p.T588A	WDR72_uc010bfi.1_Missense_Mutation_p.T588A	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	588	WD 8.									lung(1)|skin(1)	2				all cancers(107;0.0511)		AACTTACCTGTTTCAATTTCC	0.363													48	84					0	0	1	0	0		C	53991950	C	C	53991950	3	2	89	1	0	0	0	0	1	0	0	0	17348	1725	60	3	1578	3	WDR72	15	53991950	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1452799	53991950	48539442	5214	59045											
UNC13C	440279	broad.mit.edu	37	chr15	54306969	54306969	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgaaactgaaaacacagaAactgtggatagtggaatgag	18	7	11	5	0	0	4	0	3	0	1	0	6	0	6	0	2	3	0	0	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:54306969A>G	uc002ack.2	+	1	1869	c.1869A>G	c.(1867-1869)GAA>GAG	p.E623E		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	623					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AAAACACAGAAACTGTGGATA	0.468													38	93					0	0	1	0	0		G	54306969	G	G	54306969	2	3	89	1	0	0	0	0	0	0	0	1	17012	11	1	3		3	UNC13C	15	54306969	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	315019	54306969	48224423	5215	59046											
UNC13C	440279	broad.mit.edu	37	chr15	54307519	54307519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgcagagggctaaatcaGccttggaagtagtatggaac	13	8	12	8	0	1	1	1	0	0	1	1	3	1	3	1	3	3	4	1	3	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:54307519G>A	uc002ack.2	+	1	2419	c.2419G>A	c.(2419-2421)GCC>ACC	p.A807T		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	807					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GGCTAAATCAGCCTTGGAAGT	0.438													19	27					0	0	1	0	0		A	54307519	A	A	54307519	3	1	89	1	0	0	0	0	1	0	0	0	17012	971	34	2	2421	2	UNC13C	15	54307519	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	550	54307519	48223873	5216	59047											
UNC13C	440279	broad.mit.edu	37	chr15	54556537	54556537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgcagtttacaaaggcggCcaaacagagtgtactggatg	12	9	13	7	1	0	1	0	0	0	1	0	2	0	2	1	3	4	3	1	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:54556537C>T	uc002ack.2	+	7	3620	c.3620C>T	c.(3619-3621)GCC>GTC	p.A1207V	UNC13C_uc002acl.2_Missense_Mutation_p.A37V	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1207	C2 1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ACAAAGGCGGCCAAACAGAGT	0.348													6	13					0	0	1	0	0		T	54556537	T	T	54556537	3	4	89	1	0	0	0	0	1	0	0	0	17012	739	26	2	3646	2	UNC13C	15	54556537	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	249018	54556537	47974855	5217	59048											
UNC13C	440279	broad.mit.edu	37	chr15	54707232	54707232	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgaaattatgtggactCtttttgctctggatatgaaa	10	15	10	6	1	2	1	0	1	2	0	2	4	2	3	1	2	2	1	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:54707232C>A	uc002ack.2	+	17	4900	c.4900C>A	c.(4900-4902)CTT>ATT	p.L1634I	UNC13C_uc002acl.2_Missense_Mutation_p.L464I	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1634					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TATGTGGACTCTTTTTGCTCT	0.323													11	30					3.07112e-06	3.18826e-06	1	1	0		A	54707232	A	A	54707232	3	1	89	1	0	0	0	0	1	0	0	0	17012	913	32	5	4966	5	UNC13C	15	54707232	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	150695	54707232	47824160	5218	59049											
UNC13C	440279	broad.mit.edu	37	chr15	54914612	54914612	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggagatcataaagtcactgTaaaaggtatacttctggtct	13	12	10	6	0	4	1	2	0	2	1	4	2	4	1	0	3	1	2	0	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:54914612T>C	uc002ack.2	+	29	6194	c.6194T>C	c.(6193-6195)GTA>GCA	p.V2065A	UNC13C_uc002acm.2_5'UTR	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	2065	C2 2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AAAGTCACTGTAAAAGGTATA	0.403													20	43					0	0	1	0	0		C	54914612	C	C	54914612	3	2	89	1	0	0	0	0	1	0	0	0	17012	1638	57	3	6308	3	UNC13C	15	54914612	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	207380	54914612	47616780	5219	59050											
CCPG1	9236	broad.mit.edu	37	chr15	55651945	55651945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgatgaactgatcaagttCgttccagtgacaaaaagtat	15	12	8	6	1	1	4	1	4	0	0	3	4	2	4	1	0	1	3	1	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:55651945C>T	uc002acv.1	-	8	2191	c.2026G>A	c.(2026-2028)GAA>AAA	p.E676K	CCPG1_uc002acy.2_Missense_Mutation_p.E676K|CCPG1_uc002acu.1_Missense_Mutation_p.E532K|CCPG1_uc002acw.1_Missense_Mutation_p.E401K|CCPG1_uc002acx.2_Intron|CCPG1_uc010bfk.1_Missense_Mutation_p.E676K|CCPG1_uc002acz.1_Missense_Mutation_p.E676K	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2	676	Lumenal (Potential).				cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		TGATCAAGTTCGTTCCAGTGA	0.328													23	44					0	0	1	0	0		T	55651945	T	T	55651945	3	4	89	1	0	0	0	0	1	0	0	0	2941	893	31	1	251	1	CCPG1	15	55651945	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	737333	55651945	46879447	5220	59051											
DYX1C1	161582	broad.mit.edu	37	chr15	55759140	55759140	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttaccttttggagcaaGatttctagatgccaaatttc	11	16	6	8	0	1	2	0	0	1	2	2	3	1	3	2	1	3	1	2	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:55759140G>T	uc002adc.2	-	5	993	c.625C>A	c.(625-627)CTT>ATT	p.L209I	CCPG1_uc002acy.2_5'UTR|DYX1C1_uc010ugh.1_RNA|DYX1C1_uc010ugi.1_Intron|DYX1C1_uc002adb.2_Missense_Mutation_p.L209I|DYX1C1_uc002add.2_Missense_Mutation_p.L209I	NM_130810	NP_570722	Q8WXU2	DYXC1_HUMAN	dyslexia susceptibility 1 candidate 1 isoform a	209					neuron migration|regulation of estrogen receptor signaling pathway|regulation of proteasomal protein catabolic process	cytoplasm|nucleus	estrogen receptor binding			skin(1)	1				all cancers(107;0.0118)|GBM - Glioblastoma multiforme(80;0.171)		TTTGGAGCAAGATTTCTAGAT	0.209													18	57					5.35267e-07	5.59727e-07	1	1	0		T	55759140	T	T	55759140	3	4	89	1	0	0	0	0	1	0	0	0	4868	942	33	5	764	5	DYX1C1	15	55759140	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	107195	55759140	46772252	5221	59052											
PYGO1	26108	broad.mit.edu	37	chr15	55839078	55839078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	attaaaacccatgcccagagGattctgaggaaatgggtgtg	13	9	12	7	0	1	2	0	1	1	1	1	4	1	4	2	3	2	0	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:55839078G>A	uc010bfl.1	-	3	459	c.403C>T	c.(403-405)CCT>TCT	p.P135S	PYGO1_uc002adf.1_Missense_Mutation_p.P135S	NM_015617	NP_056432	Q9Y3Y4	PYGO1_HUMAN	pygopus homolog 1	135	Pro-rich.				Wnt receptor signaling pathway	nucleus	zinc ion binding			ovary(1)|skin(1)	2				all cancers(107;0.0131)|GBM - Glioblastoma multiforme(80;0.18)		ATGCCCAGAGGATTCTGAGGA	0.438													43	68					0	0	1	0	0		A	55839078	A	A	55839078	3	1	89	1	0	0	0	0	1	0	0	0	12888	1174	41	4	860	4	PYGO1	15	55839078	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	79938	55839078	46692314	5222	59053											
PRTG	283659	broad.mit.edu	37	chr15	55930813	55930813	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagctgatccacatgtaatcGaacggcaaattcgtatttgg	13	11	9	8	3	0	1	0	1	0	0	3	2	1	1	1	2	2	4	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:55930813G>A	uc002adg.2	-	14	2434	c.2386C>T	c.(2386-2388)CGA>TGA	p.R796*		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	796	Fibronectin type-III 4.				multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		ACATGTAATCGAACGGCAAAT	0.393													13	30					0	0	1	0	0		A	55930813	A	A	55930813	4	1	89	1	0	0	0	0	0	1	0	0	12660	1066	37	1	1094	1	PRTG	15	55930813	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	91735	55930813	46600579	5223	59054											
PRTG	283659	broad.mit.edu	37	chr15	55965788	55965788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcaccacttggccccgccGatatttggctgggattggca	7	9	12	13	2	0	0	0	0	0	0	0	2	0	1	4	4	1	3	4	4	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:55965788G>A	uc002adg.2	-	10	1681	c.1633C>T	c.(1633-1635)CGG>TGG	p.R545W	PRTG_uc002adh.2_Missense_Mutation_p.R47W	NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	545	Fibronectin type-III 2.				multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		TGGCCCCGCCGATATTTGGCT	0.498													38	103					0	0	1	0	0		A	55965788	A	A	55965788	3	1	89	1	0	0	0	0	1	0	0	0	12660	1057	37	1	1863	1	PRTG	15	55965788	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	34975	55965788	46565604	5224	59055											
PRTG	283659	broad.mit.edu	37	chr15	55974623	55974623	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggctacagtggcagcaatAcaacgataatttccagaatc	14	9	9	9	1	0	1	0	0	0	1	2	2	1	1	1	2	4	3	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:55974623A>T	uc002adg.2	-	4	663	c.615T>A	c.(613-615)TGT>TGA	p.C205*		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	205	Ig-like 2.				multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		TGGCAGCAATACAACGATAAT	0.423													33	55					0	0	1	0	0		T	55974623	T	T	55974623	4	4	89	1	0	0	0	0	0	1	0	0	12660	389	14	5	2905	5	PRTG	15	55974623	Nonsense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	8835	55974623	46556769	5225	59056											
NEDD4	4734	broad.mit.edu	37	chr15	56132713	56132713	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaaatgggcggatgaaaaAaccttgcaaaaaaccaaata	21	6	8	6	1	0	1	0	1	0	0	0	2	0	2	2	2	3	2	2	2	10	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:56132713A>C	uc002adj.2	-	17	3520	c.3220T>G	c.(3220-3222)TTT>GTT	p.F1074V	NEDD4_uc002adl.2_Missense_Mutation_p.F655V|NEDD4_uc002adi.2_Missense_Mutation_p.F1002V|NEDD4_uc010ugj.1_Missense_Mutation_p.F1058V|NEDD4_uc010bfm.2_Missense_Mutation_p.F1057V|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	1074	HECT.				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		CGGATGAAAAAACCTTGCAAA	0.318													24	43					0	0	1	0	0		C	56132713	C	C	56132713	3	2	89	1	0	0	0	0	1	0	0	0	10329	14	1	5	775	5	NEDD4	15	56132713	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	158090	56132713	46398679	5226	59057											
NEDD4	4734	broad.mit.edu	37	chr15	56152638	56152638	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggctcacggctgaattTccaaaaatggtgagtctggc	9	10	13	9	1	2	2	1	2	1	0	3	2	3	2	1	5	0	3	1	5	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:56152638T>C	uc002adj.2	-	7	2484	c.2184A>G	c.(2182-2184)GGA>GGG	p.G728G	NEDD4_uc002adl.2_Silent_p.G309G|NEDD4_uc002adi.2_Silent_p.G656G|NEDD4_uc010ugj.1_Silent_p.G712G|NEDD4_uc010bfm.2_Silent_p.G711G|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	728	Mediates interaction with TNIK (By similarity).				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		CGGCTGAATTTCCAAAAATGG	0.418													25	59					0	0	1	0	0		C	56152638	C	C	56152638	2	2	89	1	0	0	0	0	0	0	0	1	10329	1770	62	3		3	NEDD4	15	56152638	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	19925	56152638	46378754	5227	59058											
NEDD4	4734	broad.mit.edu	37	chr15	56208417	56208417	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgctgtcagaaggtaagtTtccacccaaaaaagtatcat	14	10	9	8	0	2	1	2	0	0	1	3	1	3	1	2	2	1	4	2	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:56208417T>G	uc002adj.2	-	1	913	c.613A>C	c.(613-615)AAC>CAC	p.N205H	NEDD4_uc002adl.2_Intron|NEDD4_uc002adi.2_Missense_Mutation_p.N205H|NEDD4_uc010ugj.1_Missense_Mutation_p.N205H|NEDD4_uc010bfm.2_Missense_Mutation_p.N205H|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	205	Ser-rich.				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		GAAGGTAAGTTTCCACCCAAA	0.383													34	54					0	0	1	0	0		G	56208417	G	G	56208417	3	3	89	1	0	0	0	0	1	0	0	0	10329	1841	64	5	3446	5	NEDD4	15	56208417	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	55779	56208417	46322975	5228	59059											
RFX7	64864	broad.mit.edu	37	chr15	56388113	56388113	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcagcatttcattacagcGacttttacatttggtcctct	8	16	7	10	1	2	0	1	0	1	0	3	1	3	0	1	2	4	2	1	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:56388113G>A	uc010bfn.2	-	9	1813	c.1813C>T	c.(1813-1815)CGC>TGC	p.R605C	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Missense_Mutation_p.R419C	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	508					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						TCATTACAGCGACTTTTACAT	0.423													10	23					0	0	1	0	0		A	56388113	A	A	56388113	3	1	89	1	0	0	0	0	1	0	0	0	13293	1058	37	1	2573	1	RFX7	15	56388113	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	179696	56388113	46143279	5229	59060											
ZNF280D	54816	broad.mit.edu	37	chr15	56981268	56981268	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttcaaaggatccaaaaGattgaaatgaatgttgcact	16	13	7	5	0	1	3	1	2	0	1	2	4	2	4	1	1	1	2	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:56981268G>T	uc002adu.2	-	9	968	c.751C>A	c.(751-753)CTT>ATT	p.L251I	ZNF280D_uc002adv.2_Missense_Mutation_p.L238I|ZNF280D_uc010bfq.2_Missense_Mutation_p.L251I|ZNF280D_uc002adw.1_Missense_Mutation_p.L279I|ZNF280D_uc010bfr.1_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	251					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		GGATCCAAAAGATTGAAATGA	0.284													18	65					2.4624e-09	2.64481e-09	1	1	0		T	56981268	T	T	56981268	3	4	89	1	0	0	0	0	1	0	0	0	17842	942	33	5	2244	5	ZNF280D	15	56981268	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	593155	56981268	45550124	5230	59061											
ZNF280D	54816	broad.mit.edu	37	chr15	56981585	56981585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttgctccagaaacactttCgctgggtttaggcttctttg	7	16	9	9	1	1	1	0	0	1	1	3	1	2	1	1	2	2	4	1	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:56981585C>T	uc002adu.2	-	8	800	c.583G>A	c.(583-585)GAA>AAA	p.E195K	ZNF280D_uc002adv.2_Missense_Mutation_p.E182K|ZNF280D_uc010bfq.2_Missense_Mutation_p.E195K|ZNF280D_uc002adw.1_Missense_Mutation_p.E223K|ZNF280D_uc010bfr.1_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	195					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		GAAACACTTTCGCTGGGTTTA	0.343													26	34					0	0	1	0	0		T	56981585	T	T	56981585	3	4	89	1	0	0	0	0	1	0	0	0	17842	893	31	1	2416	1	ZNF280D	15	56981585	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	317	56981585	45549807	5231	59062											
CGNL1	84952	broad.mit.edu	37	chr15	57730212	57730212	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaccatggagctgtatttCggtgaatatcaacatgtgca	12	12	10	7	1	1	2	1	2	0	0	2	3	1	3	1	2	4	3	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:57730212C>T	uc002aeg.2	+	2	91	c.15C>T	c.(13-15)TTC>TTT	p.F5F	CGNL1_uc010bfw.2_Silent_p.F5F	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	5	Head.					myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		AGCTGTATTTCGGTGAATATC	0.438													158	254					0	0	1	0	0		T	57730212	T	T	57730212	2	4	89	1	0	0	0	0	0	0	0	1	3307	883	31	1		1	CGNL1	15	57730212	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	748627	57730212	44801180	5232	59063											
ALDH1A2	8854	broad.mit.edu	37	chr15	58253409	58253409	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttagtaaagacagctgctacGagtccaaagtctgagttatt	13	12	9	7	1	1	2	0	1	1	1	2	3	2	2	1	0	3	4	1	0	6	5	rs147700854		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:58253409G>A	uc002aex.2	-	11	1393	c.1335C>T	c.(1333-1335)CTC>CTT	p.L445L	ALDH1A2_uc002aey.2_Silent_p.L407L|ALDH1A2_uc010ugv.1_Silent_p.L424L|ALDH1A2_uc010ugw.1_Silent_p.L416L|ALDH1A2_uc002aew.2_Silent_p.L349L	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	445					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	CAGCTGCTACGAGTCCAAAGT	0.408													20	51					0	0	1	0	0		A	58253409	A	A	58253409	2	1	89	1	0	0	0	0	0	0	0	1	491	1045	37	1		1	ALDH1A2	15	58253409	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	523197	58253409	44277983	5233	59064											
ALDH1A2	8854	broad.mit.edu	37	chr15	58284967	58284967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagctattgctgccccagccGttggcccatatcctggcaaa	9	9	9	14	1	0	0	0	0	0	0	1	0	1	0	5	2	4	4	5	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:58284967G>A	uc002aex.2	-	7	792	c.734C>T	c.(733-735)ACG>ATG	p.T245M	ALDH1A2_uc002aey.2_Intron|ALDH1A2_uc010ugv.1_Missense_Mutation_p.T224M|ALDH1A2_uc010ugw.1_Missense_Mutation_p.T216M|ALDH1A2_uc002aew.2_Missense_Mutation_p.T149M	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	245					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	TGCCCCAGCCGTTGGCCCATA	0.488													36	83					0	0	1	0	0		A	58284967	A	A	58284967	3	1	89	1	0	0	0	0	1	0	0	0	491	1145	40	1	850	1	ALDH1A2	15	58284967	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	31558	58284967	44246425	5234	59065											
RNF111	54778	broad.mit.edu	37	chr15	59347967	59347967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccacaggagccacggaaccGcagtaggatttctactgtta	11	8	11	11	2	1	0	0	0	1	0	1	3	1	3	3	3	3	3	3	3	4	4	rs139679728		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:59347967G>A	uc002afv.2	+	4	1373	c.1094G>A	c.(1093-1095)CGC>CAC	p.R365H	RNF111_uc002afs.2_Missense_Mutation_p.R365H|RNF111_uc002aft.2_Missense_Mutation_p.R365H|RNF111_uc002afu.2_Missense_Mutation_p.R365H|RNF111_uc002afw.2_Missense_Mutation_p.R365H	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	365	Ser-rich.|Interaction with AXIN1.				multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		CCACGGAACCGCAGTAGGATT	0.478													14	28					0	0	1	0	0		A	59347967	A	A	59347967	3	1	89	1	0	0	0	0	1	0	0	0	13450	1087	38	1	1104	1	RNF111	15	59347967	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1063000	59347967	43183425	5235	59066											
LDHAL6B	92483	broad.mit.edu	37	chr15	59499489	59499489	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacgatggatcttcaacatgGcagccctttcacgaaaatgc	12	9	9	11	2	3	0	2	0	1	0	3	4	3	1	1	2	3	1	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:59499489G>A	uc002agb.2	+	1	448	c.350G>A	c.(349-351)GGC>GAC	p.G117D	MYO1E_uc002aga.2_Intron	NM_033195	NP_149972	Q9BYZ2	LDH6B_HUMAN	lactate dehydrogenase A-like 6B	117					glycolysis	cytoplasm	L-lactate dehydrogenase activity|protein binding				0					NADH(DB00157)	CTTCAACATGGCAGCCCTTTC	0.428													36	106					0	0	1	0	0		A	59499489	A	A	59499489	3	1	89	1	0	0	0	0	1	0	0	0	8716	1203	42	2	352	2	LDHAL6B	15	59499489	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	151522	59499489	43031903	5236	59067											
LDHAL6B	92483	broad.mit.edu	37	chr15	59499969	59499969	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagatcctgagcaatggaAaaatgtccacaaagaagtga	19	7	9	6	0	0	4	0	2	0	2	2	5	2	5	2	1	1	1	2	1	7	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:59499969A>G	uc002agb.2	+	1	928	c.830A>G	c.(829-831)AAA>AGA	p.K277R	MYO1E_uc002aga.2_Intron	NM_033195	NP_149972	Q9BYZ2	LDH6B_HUMAN	lactate dehydrogenase A-like 6B	277					glycolysis	cytoplasm	L-lactate dehydrogenase activity|protein binding				0					NADH(DB00157)	GAGCAATGGAAAAATGTCCAC	0.418													31	44					0	0	1	0	0		G	59499969	G	G	59499969	3	3	89	1	0	0	0	0	1	0	0	0	8716	14	1	3	832	3	LDHAL6B	15	59499969	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	480	59499969	43031423	5237	59068											
MYO1E	4643	broad.mit.edu	37	chr15	59501008	59501008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaccgcatgcatcgtggCgcacacgtcatccaggatgc	9	6	10	16	4	1	0	1	0	0	0	3	1	2	1	3	2	2	3	3	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:59501008C>T	uc002aga.2	-	14	1774	c.1402G>A	c.(1402-1404)GCC>ACC	p.A468T		NM_004998	NP_004989	Q12965	MYO1E_HUMAN	myosin IE	468	Myosin head-like.				actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)		TGCATCGTGGCGCACACGTCA	0.537													32	61					0	0	1	0	0		T	59501008	T	T	59501008	3	4	89	1	0	0	0	0	1	0	0	0	10090	768	27	1	1984	1	MYO1E	15	59501008	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1039	59501008	43030384	5238	59069											
FAM81A	145773	broad.mit.edu	37	chr15	59752247	59752247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatgagaaaaccaccgccGccctcgtagagcacgccttt	10	6	9	16	4	0	2	0	1	0	2	1	3	0	2	6	0	2	2	6	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:59752247G>A	uc002agc.2	+	3	323	c.136G>A	c.(136-138)GCC>ACC	p.A46T	FAM81A_uc010uha.1_Missense_Mutation_p.A46T	NM_152450	NP_689663	Q8TBF8	FA81A_HUMAN	hypothetical protein LOC145773	46										ovary(1)	1						AACCACCGCCGCCCTCGTAGA	0.537													23	46					0	0	1	0	0		A	59752247	A	A	59752247	3	1	89	1	0	0	0	0	1	0	0	0	5642	1087	38	1	142	1	FAM81A	15	59752247	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	251239	59752247	42779145	5239	59070											
RORA	6095	broad.mit.edu	37	chr15	60803545	60803545	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgattccattgatatcaaGacctgactggtctggggaag	10	13	11	7	0	2	4	1	3	1	1	3	5	3	5	2	3	0	0	2	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:60803545G>T	uc002agv.2	-	6	955	c.799C>A	c.(799-801)CTT>ATT	p.L267I	uc002ags.1_Intron|RORA_uc002agt.3_Missense_Mutation_p.L179I|RORA_uc002agw.2_Missense_Mutation_p.L259I|RORA_uc002agx.2_Missense_Mutation_p.L234I	NM_134260	NP_599022	P35398	RORA_HUMAN	RAR-related orphan receptor A isoform b	267	Hinge.				positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			large_intestine(1)|ovary(1)	2						TTGATATCAAGACCTGACTGG	0.522													35	53					6.29468e-14	7.06965e-14	1	1	0		T	60803545	T	T	60803545	3	4	89	1	0	0	0	0	1	0	0	0	13553	942	33	5	899	5	RORA	15	60803545	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1051298	60803545	41727847	5240	59071											
VPS13C	54832	broad.mit.edu	37	chr15	62146720	62146720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcatcaatttttgctgctgtCtcgttgactgtgcatcctca	6	17	7	11	1	4	1	3	1	1	0	6	1	5	1	1	0	3	4	1	0	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:62146720C>T	uc002agz.2	-	85	11272	c.11198G>A	c.(11197-11199)AGA>AAA	p.R3733K	VPS13C_uc002aha.2_Missense_Mutation_p.R3690K	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	3733					protein localization					ovary(2)	2						TTGCTGCTGTCTCGTTGACTG	0.408													71	141					0	0	1	0	0		T	62146720	T	T	62146720	3	4	89	1	0	0	0	0	1	0	0	0	17217	913	32	4	67	4	VPS13C	15	62146720	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1343175	62146720	40384672	5241	59072											
VPS13C	54832	broad.mit.edu	37	chr15	62155716	62155716	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagtctctccttccaacttTttgatatgattctgaaaagg	11	16	6	8	0	2	3	0	3	2	0	5	3	4	3	2	1	1	0	2	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:62155716T>G	uc002agz.2	-	82	10949	c.10875A>C	c.(10873-10875)AAA>AAC	p.K3625N	VPS13C_uc002aha.2_Missense_Mutation_p.K3582N	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	3625					protein localization					ovary(2)	2						CTTCCAACTTTTTGATATGAT	0.343													25	54					0	0	1	0	0		G	62155716	G	G	62155716	3	3	89	1	0	0	0	0	1	0	0	0	17217	1838	64	5	402	5	VPS13C	15	62155716	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	8996	62155716	40375676	5242	59073											
VPS13C	54832	broad.mit.edu	37	chr15	62202485	62202485	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtttgcctgacaaacttTctggccaaaatggaaggcac	14	9	9	9	0	1	1	0	1	1	0	1	2	1	2	2	3	2	2	2	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:62202485T>G	uc002agz.2	-	64	8809	c.8735A>C	c.(8734-8736)GAA>GCA	p.E2912A	VPS13C_uc002aha.2_Missense_Mutation_p.E2869A|VPS13C_uc002ahb.1_Missense_Mutation_p.E2912A|VPS13C_uc002ahc.1_Missense_Mutation_p.E2869A|VPS13C_uc002ahd.1_Missense_Mutation_p.E289A	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2912					protein localization					ovary(2)	2						TGACAAACTTTCTGGCCAAAA	0.333													21	49					0	0	1	0	0		G	62202485	G	G	62202485	3	3	89	1	0	0	0	0	1	0	0	0	17217	1783	62	5	2642	5	VPS13C	15	62202485	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	46769	62202485	40328907	5243	59074											
VPS13C	54832	broad.mit.edu	37	chr15	62214690	62214690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaataataaaggtacagttCgatgtccaaggccacattct	14	10	7	10	1	1	0	0	0	1	0	3	1	2	0	3	2	1	2	3	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:62214690C>T	uc002agz.2	-	54	6955	c.6881G>A	c.(6880-6882)CGA>CAA	p.R2294Q	VPS13C_uc002aha.2_Missense_Mutation_p.R2251Q|VPS13C_uc002ahb.1_Missense_Mutation_p.R2294Q|VPS13C_uc002ahc.1_Missense_Mutation_p.R2251Q	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2294					protein localization					ovary(2)	2						AGGTACAGTTCGATGTCCAAG	0.393													68	141					0	0	1	0	0		T	62214690	T	T	62214690	3	4	89	1	0	0	0	0	1	0	0	0	17217	884	31	1	4536	1	VPS13C	15	62214690	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12205	62214690	40316702	5244	59075											
VPS13C	54832	broad.mit.edu	37	chr15	62243142	62243142	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctagaaatgaaactagttAcctttgtcagtaacattttc	13	15	5	8	0	1	2	1	1	0	1	3	2	2	2	2	0	3	2	2	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:62243142A>G	uc002agz.2	-	40	4610	c.4536_splice	c.e40+1	p.K1512_splice	VPS13C_uc002aha.2_Splice_Site_p.K1469_splice|VPS13C_uc002ahb.1_Splice_Site_p.K1512_splice|VPS13C_uc002ahc.1_Splice_Site_p.K1469_splice	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A						protein localization					ovary(2)	2						GAAACTAGTTACCTTTGTCAG	0.303													16	23					0	0	1	0	0		G	62243142	G	G	62243142	5	3	89	1	0	0	0	0	0	0	1	0	17217	405	14	3	6935	3	VPS13C	15	62243142	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	28452	62243142	40288250	5245	59076											
VPS13C	54832	broad.mit.edu	37	chr15	62325718	62325718	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgcaaggatttttcttCttttacagcatcatacttaa	11	17	4	9	0	3	0	1	0	2	0	4	1	4	1	1	1	4	2	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:62325718C>A	uc002agz.2	-	5	381	c.307G>T	c.(307-309)GAA>TAA	p.E103*	VPS13C_uc002aha.2_Nonsense_Mutation_p.E103*|VPS13C_uc002ahb.1_Nonsense_Mutation_p.E103*|VPS13C_uc002ahc.1_Nonsense_Mutation_p.E103*	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	103					protein localization					ovary(2)	2						GATTTTTCTTCTTTTACAGCA	0.299													11	18					0.00010058	0.000102942	1	1	0		A	62325718	A	A	62325718	4	1	89	1	0	0	0	0	0	1	0	0	17217	922	32	5	11306	5	VPS13C	15	62325718	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	82576	62325718	40205674	5246	59077											
VPS13C	54832	broad.mit.edu	37	chr15	62327210	62327210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagggtcgcaacaactgcttCtccataaaggttcttccaag	11	10	8	12	1	2	0	0	0	2	0	5	0	3	0	2	2	3	3	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:62327210C>T	uc002agz.2	-	4	303	c.229G>A	c.(229-231)GAA>AAA	p.E77K	VPS13C_uc002aha.2_Missense_Mutation_p.E77K|VPS13C_uc002ahb.1_Missense_Mutation_p.E77K|VPS13C_uc002ahc.1_Missense_Mutation_p.E77K	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	77					protein localization					ovary(2)	2						ACAACTGCTTCTCCATAAAGG	0.328													30	79					0	0	1	0	0		T	62327210	T	T	62327210	3	4	89	1	0	0	0	0	1	0	0	0	17217	922	32	4	11388	4	VPS13C	15	62327210	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1492	62327210	40204182	5247	59078											
TLN2	83660	broad.mit.edu	37	chr15	63029190	63029190	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgccatgttagattctgctCgagacgtgatggagggctcc	8	11	13	9	2	1	3	0	1	1	2	3	5	2	4	2	2	2	3	2	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:63029190C>T	uc002alb.3	+	26	3472	c.3472C>T	c.(3472-3474)CGA>TGA	p.R1158*		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1158	Ala-rich.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						AGATTCTGCTCGAGACGTGAT	0.612													14	30					0	0	1	0	0		T	63029190	T	T	63029190	4	4	89	1	0	0	0	0	0	1	0	0	15973	876	31	1	3574	1	TLN2	15	63029190	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	701980	63029190	39502202	5248	59079											
TPM1	7168	broad.mit.edu	37	chr15	63353934	63353934	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgccgagcttgaagaaGaattgaaaactgtgacgaac	16	8	11	6	2	0	5	0	3	0	2	0	7	0	5	1	0	4	1	1	0	7	2	rs1131003		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:63353934G>T	uc002alg.2	+	6	777	c.586G>T	c.(586-588)GAA>TAA	p.E196*	TPM1_uc002alh.2_Intron|TPM1_uc010bgn.2_Intron|TPM1_uc002ali.2_Nonsense_Mutation_p.E196*|TPM1_uc002alj.2_Nonsense_Mutation_p.E196*|TPM1_uc002alk.2_Intron|TPM1_uc002all.2_Intron|TPM1_uc002alm.2_Nonsense_Mutation_p.E238*|TPM1_uc010uie.1_Nonsense_Mutation_p.E196*|TPM1_uc002alp.2_Nonsense_Mutation_p.E196*|TPM1_uc010uif.1_Intron|TPM1_uc002alr.2_Intron|TPM1_uc002als.2_Nonsense_Mutation_p.E160*|TPM1_uc010uig.1_Nonsense_Mutation_p.E160*|TPM1_uc002alt.2_Intron|TPM1_uc010bgp.2_Intron	NM_001018005	NP_001018005	P09493	TPM1_HUMAN	tropomyosin 1 alpha chain isoform 1	196	By similarity.				cardiac muscle contraction|cellular component movement|cellular response to reactive oxygen species|muscle filament sliding|negative regulation of cell migration|positive regulation of ATPase activity|positive regulation of cell adhesion|positive regulation of heart rate by epinephrine|positive regulation of stress fiber assembly|regulation of muscle contraction|ruffle organization|sarcomere organization|ventricular cardiac muscle tissue morphogenesis|wound healing	bleb|cytosol|muscle thin filament tropomyosin|ruffle membrane|stress fiber	actin binding|structural constituent of cytoskeleton|structural constituent of muscle				0						GCTTGAAGAAGAATTGAAAAC	0.493													20	43					3.62473e-10	3.92412e-10	1	1	0		T	63353934	T	T	63353934	4	4	89	1	0	0	0	0	0	1	0	0	16431	943	33	5	954	5	TPM1	15	63353934	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	324744	63353934	39177458	5249	59080											
APH1B	83464	broad.mit.edu	37	chr15	63571506	63571506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctatatccaagaaatgttccGatttgcatattataaactct	14	15	4	8	1	1	1	0	0	1	1	3	2	3	1	2	0	2	2	2	0	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:63571506G>A	uc002ama.2	+	2	334	c.260G>A	c.(259-261)CGA>CAA	p.R87Q	APH1B_uc002amb.2_Missense_Mutation_p.R87Q|APH1B_uc010bgq.2_Missense_Mutation_p.R33Q|APH1B_uc010bgr.2_Missense_Mutation_p.R33Q	NM_031301	NP_112591	Q8WW43	APH1B_HUMAN	presenilin stabilization factor-like isoform 1	87	Helical; Name=3; (Potential).				apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	integral to membrane|plasma membrane|transport vesicle	peptidase activity|protein binding				0						GAAATGTTCCGATTTGCATAT	0.338													23	56					0	0	1	0	0		A	63571506	A	A	63571506	3	1	89	1	0	0	0	0	1	0	0	0	772	1058	37	1	266	1	APH1B	15	63571506	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	217572	63571506	38959886	5250	59081											
HERC1	8925	broad.mit.edu	37	chr15	63967065	63967065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcagatgttaggcctgttCgcatatctaaagcggattca	11	12	9	9	2	3	1	2	0	1	1	4	2	3	2	1	2	1	3	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:63967065C>T	uc002amp.2	-	38	7470	c.7322G>A	c.(7321-7323)CGA>CAA	p.R2441Q		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	2441					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TAGGCCTGTTCGCATATCTAA	0.428													51	94					0	0	1	0	0		T	63967065	T	T	63967065	3	4	89	1	0	0	0	0	1	0	0	0	7073	884	31	1	7427	1	HERC1	15	63967065	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	395559	63967065	38564327	5251	59082											
HERC1	8925	broad.mit.edu	37	chr15	63986349	63986349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgggactcagtttatcagCataggtcctatgtgaaataa	12	14	9	6	0	2	1	2	1	0	0	3	2	3	2	1	2	1	2	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:63986349C>T	uc002amp.2	-	30	5636	c.5488G>A	c.(5488-5490)GCT>ACT	p.A1830T		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	1830					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						AGTTTATCAGCATAGGTCCTA	0.388													7	14					0	0	1	0	0		T	63986349	T	T	63986349	3	4	89	1	0	0	0	0	1	0	0	0	7073	710	25	2	9293	2	HERC1	15	63986349	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19284	63986349	38545043	5252	59083											
HERC1	8925	broad.mit.edu	37	chr15	64010809	64010809	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgaccttgtttgaataagTtcaaggttcttgcaagcaag	12	13	10	6	0	2	2	1	2	1	0	2	3	2	2	1	1	2	5	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:64010809T>G	uc002amp.2	-	21	4090	c.3942A>C	c.(3940-3942)GAA>GAC	p.E1314D	HERC1_uc010uil.1_Intron	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	1314					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TTTGAATAAGTTCAAGGTTCT	0.363													5	10					0	0	1	0	0		G	64010809	G	G	64010809	3	3	89	1	0	0	0	0	1	0	0	0	7073	1722	60	5	10875	5	HERC1	15	64010809	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	24460	64010809	38520583	5253	59084											
TRIP4	9325	broad.mit.edu	37	chr15	64687596	64687596	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttttttctatctttaaaGaaattttagatgggcagaaa	13	19	6	3	0	2	3	0	0	2	3	2	3	2	3	0	1	0	1	0	1	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:64687596G>T	uc002anm.2	+	3	315	c.272_splice	c.e3-1	p.E91_splice		NM_016213	NP_057297	Q15650	TRIP4_HUMAN	thyroid hormone receptor interactor 4						positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ligand-dependent nuclear receptor binding|transcription coactivator activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3						TATCTTTAAAGAAATTTTAGA	0.368													17	23					6.94344e-10	7.49515e-10	1	1	0		T	64687596	T	T	64687596	5	4	89	1	0	0	0	0	0	0	1	0	16584	956	33	5	281	5	TRIP4	15	64687596	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	676787	64687596	37843796	5254	59085											
ZNF609	23060	broad.mit.edu	37	chr15	64966811	64966811	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaagcaaattcagcacaaaAggcctctgtaagaaaaagtt	18	8	7	8	0	3	1	2	0	1	1	3	1	3	1	1	1	2	4	1	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:64966811A>C	uc002ann.2	+	4	1758	c.1758A>C	c.(1756-1758)AAA>AAC	p.K586N		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	586						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						TCAGCACAAAAGGCCTCTGTA	0.502													34	60					0	0	1	0	0		C	64966811	C	C	64966811	3	2	89	1	0	0	0	0	1	0	0	0	18060	69	3	5	1772	5	ZNF609	15	64966811	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	279215	64966811	37564581	5255	59086											
ANKDD1A	348094	broad.mit.edu	37	chr15	65223053	65223053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccttcatctggctgctggtCggggccatatggctgtgctg	3	12	14	12	1	2	0	1	0	1	0	3	0	2	0	2	5	2	4	2	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:65223053C>T	uc002aoa.2	+	7	633	c.604C>T	c.(604-606)CGG>TGG	p.R202W	ANKDD1A_uc002anx.1_Missense_Mutation_p.R198W|ANKDD1A_uc002any.2_Missense_Mutation_p.R111W|ANKDD1A_uc002anz.2_Missense_Mutation_p.R111W|ANKDD1A_uc002aob.2_Missense_Mutation_p.R67W|ANKDD1A_uc002aoc.2_RNA|ANKDD1A_uc010bha.2_Missense_Mutation_p.R111W	NM_182703	NP_874362	Q495B1	AKD1A_HUMAN	ankyrin repeat and death domain containing 1A	202	ANK 6.				signal transduction					ovary(1)	1						GGCTGCTGGTCGGGGCCATAT	0.602													14	19					0	0	1	0	0		T	65223053	T	T	65223053	3	4	89	1	0	0	0	0	1	0	0	0	624	875	31	1	630	1	ANKDD1A	15	65223053	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	256242	65223053	37308339	5256	59087											
ANKDD1A	348094	broad.mit.edu	37	chr15	65226337	65226337	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgcctgtttccttctagaAaaacctaagctgccttcact	10	13	6	12	0	2	1	1	0	1	1	3	2	3	1	4	0	4	2	4	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:65226337A>C	uc002aoa.2	+	9	799	c.770A>C	c.(769-771)AAA>ACA	p.K257T	ANKDD1A_uc002aoc.2_RNA|ANKDD1A_uc010bha.2_Missense_Mutation_p.K166T	NM_182703	NP_874362	Q495B1	AKD1A_HUMAN	ankyrin repeat and death domain containing 1A	257	ANK 8.				signal transduction					ovary(1)	1						TCCTTCTAGAAAAACCTAAGC	0.408													28	71					0	0	1	0	0		C	65226337	C	C	65226337	3	2	89	1	0	0	0	0	1	0	0	0	624	28	1	5	804	5	ANKDD1A	15	65226337	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3284	65226337	37305055	5257	59088											
SPG21	51324	broad.mit.edu	37	chr15	65268842	65268842	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtaaatggtctaaaagttTtctgaatccatcacagaact	14	14	6	7	0	3	2	1	1	2	1	4	2	4	2	1	1	1	2	1	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:65268842T>G	uc002aod.2	-	4	370	c.277A>C	c.(277-279)AAA>CAA	p.K93Q	SPG21_uc002aoe.2_Missense_Mutation_p.K93Q|SPG21_uc010bhb.2_Intron|SPG21_uc010bhc.2_5'UTR	NM_001127889	NP_001121361	Q9NZD8	SPG21_HUMAN	spastic paraplegia 21 isoform a	93					cell death	cytosol|endosome membrane|trans-Golgi network transport vesicle	CD4 receptor binding				0						TCTAAAAGTTTTCTGAATCCA	0.219													26	38					0	0	1	0	0		G	65268842	G	G	65268842	3	3	89	1	0	0	0	0	1	0	0	0	15068	1850	64	5	673	5	SPG21	15	65268842	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	42505	65268842	37262550	5258	59089											
CLPX	10845	broad.mit.edu	37	chr15	65450097	65450097	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacataccttgttgtgctttTtccacattataattggcatc	10	17	5	9	0	0	0	0	0	0	0	2	0	1	0	2	1	3	3	2	1	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:65450097T>G	uc002aom.2	-	8	1116	c.1044A>C	c.(1042-1044)GAA>GAC	p.E348D	CLPX_uc010uiu.1_RNA|CLPX_uc010bhg.1_Missense_Mutation_p.E348D	NM_006660	NP_006651	O76031	CLPX_HUMAN	ClpX caseinolytic protease X homolog precursor	348					protein folding|proteolysis involved in cellular protein catabolic process	mitochondrial endopeptidase Clp complex|mitochondrial inner membrane|mitochondrial nucleoid	ATP binding|ATPase activity|metal ion binding|peptidase activator activity|unfolded protein binding				0						GTTGTGCTTTTTCCACATTAT	0.363													40	84					0	0	1	0	0		G	65450097	G	G	65450097	3	3	89	1	0	0	0	0	1	0	0	0	3559	1838	64	5	885	5	CLPX	15	65450097	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	181255	65450097	37081295	5259	59090											
CILP	8483	broad.mit.edu	37	chr15	65489827	65489827	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagtccagctcatagggtCatcttcgttgaaggggactg	8	12	12	9	1	4	1	3	1	1	0	6	2	5	2	1	3	1	2	1	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:65489827C>A	uc002aon.2	-	9	2978	c.2797G>T	c.(2797-2799)GAC>TAC	p.D933Y		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	933					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						CTCATAGGGTCATCTTCGTTG	0.537													33	92					1.04352e-10	1.13571e-10	1	1	0		A	65489827	A	A	65489827	3	1	89	1	0	0	0	0	1	0	0	0	3432	826	29	5	761	5	CILP	15	65489827	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	39730	65489827	37041565	5260	59091											
CILP	8483	broad.mit.edu	37	chr15	65490661	65490661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagaacatgccatacgtccGaagggggaaagtgtctcctt	12	8	12	9	2	1	1	0	0	1	1	3	4	2	2	3	2	3	0	3	2	4	2	rs142003410	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:65490661G>A	uc002aon.2	-	9	2144	c.1963C>T	c.(1963-1965)CGG>TGG	p.R655W		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	655					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						CCATACGTCCGAAGGGGGAAA	0.532													39	105					0	0	1	0	0		A	65490661	A	A	65490661	3	1	89	1	0	0	0	0	1	0	0	0	3432	1057	37	1	1595	1	CILP	15	65490661	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	834	65490661	37040731	5261	59092											
DENND4A	10260	broad.mit.edu	37	chr15	65962360	65962360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatatcattaccttccaggtCgtcttaaatctcttatttct	10	18	3	10	1	4	0	1	0	3	0	7	0	5	0	2	1	1	0	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:65962360C>T	uc002aph.2	-	25	4877	c.4499G>A	c.(4498-4500)CGA>CAA	p.R1500Q	DENND4A_uc002api.2_Missense_Mutation_p.R1543Q	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	1500					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CCTTCCAGGTCGTCTTAAATC	0.353													7	30					0	0	1	0	0		T	65962360	T	T	65962360	3	4	89	1	0	0	0	0	1	0	0	0	4439	884	31	1	1124	1	DENND4A	15	65962360	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	471699	65962360	36569032	5262	59093											
DENND4A	10260	broad.mit.edu	37	chr15	65962413	65962413	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtaagaagatattgccacaGaatgggcatgtagtattgag	14	10	13	4	0	0	4	0	1	0	3	0	4	0	4	1	2	1	4	1	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:65962413G>A	uc002aph.2	-	25	4824	c.4446C>T	c.(4444-4446)TTC>TTT	p.F1482F	DENND4A_uc002api.2_Silent_p.F1525F	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	1482					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						TATTGCCACAGAATGGGCATG	0.383													9	19					0	0	1	0	0		A	65962413	A	A	65962413	2	1	89	1	0	0	0	0	0	0	0	1	4439	933	33	4		4	DENND4A	15	65962413	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	53	65962413	36568979	5263	59094											
DENND4A	10260	broad.mit.edu	37	chr15	65968830	65968830	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattcggctgagatcaattCtcttagtccctgaagtagca	10	14	8	9	1	2	2	1	2	1	1	5	3	3	2	1	1	1	3	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:65968830C>A	uc002aph.2	-	23	4568	c.4190G>T	c.(4189-4191)AGA>ATA	p.R1397I	DENND4A_uc002api.2_Missense_Mutation_p.R1440I	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	1397					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						GAGATCAATTCTCTTAGTCCC	0.418													11	28					2.27111e-07	2.38128e-07	1	1	0		A	65968830	A	A	65968830	3	1	89	1	0	0	0	0	1	0	0	0	4439	913	32	5	1441	5	DENND4A	15	65968830	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6417	65968830	36562562	5264	59095											
DENND4A	10260	broad.mit.edu	37	chr15	65983414	65983414	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttttgatacatctgttTcactgtctaagtcttctaag	8	18	6	9	0	5	1	1	1	4	0	5	1	5	1	0	0	2	2	0	0	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:65983414T>G	uc002aph.2	-	22	3764	c.3386A>C	c.(3385-3387)GAA>GCA	p.E1129A	DENND4A_uc002api.2_Missense_Mutation_p.E1172A|DENND4A_uc002apj.3_Missense_Mutation_p.E1129A	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	1129					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						TACATCTGTTTCACTGTCTAA	0.353													13	18					0	0	1	0	0		G	65983414	G	G	65983414	3	3	89	1	0	0	0	0	1	0	0	0	4439	1783	62	5	2249	5	DENND4A	15	65983414	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	14584	65983414	36547978	5265	59096											
DENND4A	10260	broad.mit.edu	37	chr15	66044740	66044740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgttattgagattcttgtCgactttgcagaacgtgtgtg	8	16	11	6	2	1	2	0	1	1	2	2	4	1	2	0	0	2	2	0	0	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:66044740C>T	uc002aph.2	-	4	916	c.538G>A	c.(538-540)GAC>AAC	p.D180N	DENND4A_uc002api.2_Missense_Mutation_p.D180N|DENND4A_uc002apj.3_Missense_Mutation_p.D180N|DENND4A_uc010ujj.1_Missense_Mutation_p.D180N	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	180	MABP.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						AGATTCTTGTCGACTTTGCAG	0.358													21	42					0	0	1	0	0		T	66044740	T	T	66044740	3	4	89	1	0	0	0	0	1	0	0	0	4439	884	31	1	5302	1	DENND4A	15	66044740	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	61326	66044740	36486652	5266	59097											
MEGF11	84465	broad.mit.edu	37	chr15	66416290	66416290	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgcatcgtgtgtaataGatctgatcgaaggggtgtgc	8	13	14	6	2	2	2	0	1	2	1	4	3	2	2	0	2	2	2	0	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:66416290G>T	uc002apm.2	-	3	288	c.147C>A	c.(145-147)ATC>ATA	p.I49I	MEGF11_uc002apl.2_Missense_Mutation_p.S8Y|MEGF11_uc002apn.1_Silent_p.I49I	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	49	EMI.					basolateral plasma membrane|integral to membrane				pancreas(1)	1						GTGTGTAATAGATCTGATCGA	0.527													19	63					1.64113e-05	1.69216e-05	1	1	0		T	66416290	T	T	66416290	2	4	89	1	0	0	0	0	0	0	0	1	9479	932	33	5		5	MEGF11	15	66416290	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	371550	66416290	36115102	5267	59098											
ZWILCH	55055	broad.mit.edu	37	chr15	66811286	66811286	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaagattaatctgccagtTactgcccttcctcccctttg	7	15	6	13	0	1	2	0	1	1	1	3	2	3	2	5	0	3	1	5	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:66811286T>G	uc002aqb.2	+	5	636	c.390T>G	c.(388-390)GTT>GTG	p.V130V	RPL4_uc002apx.2_Intron|ZWILCH_uc010bhu.1_Silent_p.V16V|ZWILCH_uc002aqa.2_Silent_p.V16V|ZWILCH_uc010bhv.2_Silent_p.V16V	NM_017975	NP_060445	Q9H900	ZWILC_HUMAN	Zwilch	130					cell division|mitotic cell cycle checkpoint|mitotic prometaphase	condensed chromosome kinetochore|cytosol	protein binding			ovary(1)	1						ATCTGCCAGTTACTGCCCTTC	0.408													6	88					0	0	1	0	0		G	66811286	G	G	66811286	2	3	89	1	0	0	0	0	0	0	0	1	18273	1741	61	5		5	ZWILCH	15	66811286	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	394996	66811286	35720106	5268	59099											
LCTL	197021	broad.mit.edu	37	chr15	66850086	66850086	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtccttcatgacttgggggTagtcaccggcataaatgggg	9	10	14	8	1	2	1	2	1	0	0	3	1	3	1	2	5	0	2	2	5	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:66850086T>C	uc002aqc.2	-	8	1028	c.896A>G	c.(895-897)TAC>TGC	p.Y299C	LCTL_uc002aqd.3_Missense_Mutation_p.Y126C|LCTL_uc010bhw.2_5'UTR	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	299	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						GACTTGGGGGTAGTCACCGGC	0.493													68	115					0	0	1	0	0		C	66850086	C	C	66850086	3	2	89	1	0	0	0	0	1	0	0	0	8710	1638	57	3	831	3	LCTL	15	66850086	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	38800	66850086	35681306	5269	59100											
IQCH	64799	broad.mit.edu	37	chr15	67629323	67629323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattatctagataaaggtttCgaagttaatcaaagggtcta	15	14	8	4	1	3	1	1	0	2	1	4	2	3	1	0	2	0	2	0	2	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:67629323C>T	uc002aqo.1	+	5	445	c.398C>T	c.(397-399)TCG>TTG	p.S133L	IQCH_uc010ujv.1_Intron|IQCH_uc002aqn.1_Intron|IQCH_uc002aqq.1_Intron|IQCH_uc002aqp.1_Intron	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	133										skin(3)|ovary(1)	4				Colorectal(3;0.0856)		ATAAAGGTTTCGAAGTTAATC	0.343													16	46					0	0	1	0	0		T	67629323	T	T	67629323	3	4	89	1	0	0	0	0	1	0	0	0	7827	893	31	1	544	1	IQCH	15	67629323	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	779237	67629323	34902069	5270	59101											
FEM1B	10116	broad.mit.edu	37	chr15	68583466	68583466	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatctgaaatactgcttaaAactcaaatgaagatgagtct	16	12	7	6	0	3	4	1	3	2	1	3	4	3	4	0	0	3	2	0	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:68583466A>C	uc002arg.2	+	2	2385	c.1770A>C	c.(1768-1770)AAA>AAC	p.K590N	FEM1B_uc002arh.2_Missense_Mutation_p.K510N	NM_015322	NP_056137	Q9UK73	FEM1B_HUMAN	fem-1 homolog b	590					apoptosis|induction of apoptosis|regulation of DNA damage checkpoint|regulation of ubiquitin-protein ligase activity	cytoplasm|nucleus	death receptor binding|ubiquitin-protein ligase activity				0						TACTGCTTAAAACTCAAATGA	0.448													13	39					0	0	1	0	0		C	68583466	C	C	68583466	3	2	89	1	0	0	0	0	1	0	0	0	5824	11	1	5	1776	5	FEM1B	15	68583466	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	954143	68583466	33947926	5271	59102											
NOX5	79400	broad.mit.edu	37	chr15	69339194	69339194	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttggagaaacacaaattCtgtaacatcaaggtgagagg	15	10	10	6	0	2	2	1	1	1	2	2	4	2	2	0	3	2	1	0	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:69339194C>A	uc002ars.1	+	11	1700	c.1680C>A	c.(1678-1680)TTC>TTA	p.F560L	NOX5_uc002arp.1_Missense_Mutation_p.F542L|NOX5_uc002arq.1_Missense_Mutation_p.F514L|NOX5_uc010bid.1_Missense_Mutation_p.F525L|NOX5_uc002arr.1_Missense_Mutation_p.F532L|NOX5_uc010bie.1_Missense_Mutation_p.F360L|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	560	FAD-binding FR-type.|Cytoplasmic (Potential).|C-terminal catalytic region.				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						AACACAAATTCTGTAACATCA	0.473													22	61					1.28384e-07	1.34871e-07	1	1	0		A	69339194	A	A	69339194	3	1	89	1	0	0	0	0	1	0	0	0	10578	912	32	5	1755	5	NOX5	15	69339194	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	755728	69339194	33192198	5272	59103											
TLE3	7090	broad.mit.edu	37	chr15	70344723	70344723	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaggctcaccgcagtaggcGaacttgagggagagcacgca	12	4	14	11	3	1	2	1	1	0	1	1	4	1	2	1	3	2	5	1	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:70344723G>A	uc002asm.2	-	18	3243	c.2124C>T	c.(2122-2124)TTC>TTT	p.F708F	TLE3_uc002ask.2_Silent_p.F635F|TLE3_uc002asl.2_Silent_p.F708F|TLE3_uc010ukd.1_Silent_p.F698F|TLE3_uc010bik.1_Silent_p.F289F|TLE3_uc010bil.1_Silent_p.F705F|TLE3_uc002asn.2_Silent_p.F696F|TLE3_uc002asp.2_Silent_p.F700F|TLE3_uc002aso.2_Silent_p.F703F	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	708	WD 6.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						CGCAGTAGGCGAACTTGAGGG	0.632													15	44					0	0	1	0	0		A	70344723	A	A	70344723	2	1	89	1	0	0	0	0	0	0	0	1	15965	1049	37	1		1	TLE3	15	70344723	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1005529	70344723	32186669	5273	59104											
UACA	55075	broad.mit.edu	37	chr15	70960067	70960067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaagctgacaattggggCgtattttaccttaatgcatt	11	14	8	8	1	1	1	1	1	0	0	1	1	1	1	1	2	3	3	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:70960067C>T	uc002asr.2	-	16	3060	c.2956G>A	c.(2956-2958)GCC>ACC	p.A986T	UACA_uc010uke.1_Missense_Mutation_p.A877T|UACA_uc002asq.2_Missense_Mutation_p.A973T|UACA_uc010bin.1_Missense_Mutation_p.A961T	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	986	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						ACAATTGGGGCGTATTTTACC	0.408													35	113					0	0	1	0	0		T	70960067	T	T	70960067	3	4	89	1	0	0	0	0	1	0	0	0	16850	768	27	1	1310	1	UACA	15	70960067	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	615344	70960067	31571325	5274	59105											
UACA	55075	broad.mit.edu	37	chr15	70960325	70960325	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttcattcttatcttttaTttttacaaattcctgattta	10	24	1	6	0	3	1	1	1	2	0	4	1	4	1	1	0	1	0	1	0	6	12			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:70960325T>C	uc002asr.2	-	16	2802	c.2698A>G	c.(2698-2700)ATA>GTA	p.I900V	UACA_uc010uke.1_Missense_Mutation_p.I791V|UACA_uc002asq.2_Missense_Mutation_p.I887V|UACA_uc010bin.1_Missense_Mutation_p.I875V	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	900	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						TTATCTTTTATTTTTACAAAT	0.323													22	28					0	0	1	0	0		C	70960325	C	C	70960325	3	2	89	1	0	0	0	0	1	0	0	0	16850	1493	52	3	1568	3	UACA	15	70960325	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	258	70960325	31571067	5275	59106											
PKM2	5315	broad.mit.edu	37	chr15	72492905	72492905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcacagggaagatgccacGgtacaggtgggcctgacgag	11	4	16	10	2	0	2	0	1	0	1	0	4	0	3	2	4	3	2	2	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:72492905G>A	uc002atx.1	-	10	1640	c.1399C>T	c.(1399-1401)CGT>TGT	p.R467C	GRAMD2_uc002atq.2_5'Flank|GRAMD2_uc010bis.2_5'Flank|PKM2_uc002atr.1_5'UTR|PKM2_uc002ats.1_Missense_Mutation_p.R134C|PKM2_uc002att.1_Missense_Mutation_p.R233C|PKM2_uc002atu.1_Missense_Mutation_p.R233C|PKM2_uc010bit.1_Missense_Mutation_p.R472C|PKM2_uc010uki.1_Missense_Mutation_p.R541C|PKM2_uc002atv.1_Missense_Mutation_p.R502C|PKM2_uc002atw.1_Missense_Mutation_p.R467C|PKM2_uc002aty.1_Missense_Mutation_p.R467C|PKM2_uc010ukj.1_Missense_Mutation_p.R452C|PKM2_uc010ukk.1_Missense_Mutation_p.R393C|PKM2_uc010biu.1_Missense_Mutation_p.R488C	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	467	Interaction with POU5F1.				glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	AAGATGCCACGGTACAGGTGG	0.617													26	62					0	0	1	0	0		A	72492905	A	A	72492905	3	1	89	1	0	0	0	0	1	0	0	0	11996	1116	39	1	204	1	PKM2	15	72492905	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1532580	72492905	30038487	5276	59107											
PKM2	5315	broad.mit.edu	37	chr15	72511433	72511433	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggcttcactatggggcttCgacatggctgctgaggtcct	5	11	13	12	2	1	1	1	1	0	0	3	2	2	1	2	5	1	4	2	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:72511433C>T	uc002atx.1	-	2	247	c.6G>A	c.(4-6)TCG>TCA	p.S2S	PKM2_uc010bit.1_Silent_p.S7S|PKM2_uc010uki.1_Silent_p.S76S|PKM2_uc002atv.1_Silent_p.S37S|PKM2_uc002atw.1_Silent_p.S2S|PKM2_uc002aty.1_Silent_p.S2S|PKM2_uc010ukj.1_Missense_Mutation_p.R18Q|PKM2_uc010ukk.1_Silent_p.S2S|PKM2_uc010biu.1_Silent_p.S23S|PKM2_uc002atz.1_RNA	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	2					glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	TATGGGGCTTCGACATGGCTG	0.532													38	90					0	0	1	0	0		T	72511433	T	T	72511433	2	4	89	1	0	0	0	0	0	0	0	1	11996	871	31	1		1	PKM2	15	72511433	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	18528	72511433	30019959	5277	59108											
BBS4	585	broad.mit.edu	37	chr15	72987519	72987519	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacttatttcatttcagaGaactcaatttcctgtatcta	12	17	3	9	0	4	1	3	0	1	1	5	2	5	1	1	0	2	1	1	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:72987519G>T	uc002avb.2	+	2	69	c.26G>T	c.(25-27)AGA>ATA	p.R9I	BBS4_uc010ukv.1_5'UTR|BBS4_uc002avc.2_Intron|BBS4_uc002avd.2_Missense_Mutation_p.R17I	NM_033028	NP_149017	Q96RK4	BBS4_HUMAN	Bardet-Biedl syndrome 4	9	Required for localization to centrosomes.				adult behavior|brain morphogenesis|cell cycle cytokinesis|centrosome organization|cerebral cortex development|convergent extension involved in gastrulation|dendrite development|fat cell differentiation|heart looping|hippocampus development|intracellular transport|maintenance of protein location in nucleus|melanosome transport|microtubule anchoring at centrosome|neural tube closure|nonmotile primary cilium assembly|photoreceptor cell maintenance|pigment granule aggregation in cell center|positive regulation of flagellum assembly|regulation of cilium beat frequency involved in ciliary motility|regulation of cytokinesis|regulation of lipid metabolic process|retina homeostasis|retinal rod cell development|sensory perception of smell|sensory processing|spermatid development|striatum development	BBSome|centriolar satellite|centriole|cilium membrane|microtubule basal body|motile cilium|nonmotile primary cilium|nucleus|pericentriolar material	alpha-tubulin binding|beta-tubulin binding|dynactin binding|microtubule motor activity				0						TCATTTCAGAGAACTCAATTT	0.353									Bardet-Biedl_syndrome				16	58					1.15088e-07	1.20949e-07	1	1	0		T	72987519	T	T	72987519	3	4	89	1	0	0	0	0	1	0	0	0	1340	956	33	5	32	5	BBS4	15	72987519	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	476086	72987519	29543873	5278	59109											
NPTN	27020	broad.mit.edu	37	chr15	73866030	73866030	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcccgttctccttcttgcgCcatatccagtctgggtgggg	4	13	11	13	2	3	0	0	0	3	0	6	0	5	0	4	3	1	1	4	3	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:73866030C>T	uc002avs.2	-	5	1010	c.813G>A	c.(811-813)TGG>TGA	p.W271*	NPTN_uc010bjc.2_Nonsense_Mutation_p.W271*|NPTN_uc002avt.2_Nonsense_Mutation_p.W155*|NPTN_uc002avr.2_Nonsense_Mutation_p.W155*|NPTN_uc010ula.1_Nonsense_Mutation_p.W66*	NM_012428	NP_036560	Q9Y639	NPTN_HUMAN	neuroplastin isoform b precursor	271	Ig-like 3.|Extracellular (Potential).				elevation of cytosolic calcium ion concentration|homophilic cell adhesion|long-term synaptic potentiation|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of long-term neuronal synaptic plasticity|positive regulation of neuron projection development|positive regulation of protein phosphorylation	integral to membrane|plasma membrane|presynaptic membrane	cell adhesion molecule binding|type 1 fibroblast growth factor receptor binding				0						CCTTCTTGCGCCATATCCAGT	0.552													29	76					0	0	1	0	0		T	73866030	T	T	73866030	4	4	89	1	0	0	0	0	0	1	0	0	10620	740	26	2	399	2	NPTN	15	73866030	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	878511	73866030	28665362	5279	59110											
C15orf59	388135	broad.mit.edu	37	chr15	74032415	74032415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcggctggtcagtggagagCgccgtgacttgtagggggct	5	8	20	8	3	1	2	1	1	0	1	1	3	1	2	1	6	1	3	1	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:74032415C>T	uc002avy.2	-	2	1070	c.725G>A	c.(724-726)CGC>CAC	p.R242H		NM_001039614	NP_001034703	Q2T9L4	CO059_HUMAN	hypothetical protein LOC388135	242										pancreas(1)	1						CAGTGGAGAGCGCCGTGACTT	0.572													23	41					0	0	1	0	0		T	74032415	T	T	74032415	3	4	89	1	0	0	0	0	1	0	0	0	1810	768	27	1	160	1	C15orf59	15	74032415	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	166385	74032415	28498977	5280	59111											
LOXL1	4016	broad.mit.edu	37	chr15	74241881	74241881	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaacattcactacacaggtCgctacgtttctgcaacaaac	13	9	6	13	2	2	0	1	0	1	0	3	0	2	0	0	1	6	4	0	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:74241881C>T	uc002awc.1	+	6	2020	c.1684C>T	c.(1684-1686)CGC>TGC	p.R562C	LOXL1_uc002awd.1_RNA	NM_005576	NP_005567	Q08397	LOXL1_HUMAN	lysyl oxidase-like 1 preproprotein	562	Lysyl-oxidase like.				protein deamination	extracellular space	copper ion binding				0						CTACACAGGTCGCTACGTTTC	0.502													25	53					0	0	1	0	0		T	74241881	T	T	74241881	3	4	89	1	0	0	0	0	1	0	0	0	8917	884	31	1	1706	1	LOXL1	15	74241881	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	209466	74241881	28289511	5281	59112											
PML	5371	broad.mit.edu	37	chr15	74290724	74290724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggcccctagcagagctgcGcaaccagtcggtgcgtgagt	7	6	14	14	4	0	2	0	1	0	1	1	2	0	2	4	2	5	3	4	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:74290724G>A	uc002awv.2	+	2	649	c.509G>A	c.(508-510)CGC>CAC	p.R170H	PML_uc002awm.2_Missense_Mutation_p.R170H|PML_uc002awl.2_Missense_Mutation_p.R170H|PML_uc002awj.1_Missense_Mutation_p.R170H|PML_uc002awk.2_Missense_Mutation_p.R170H|PML_uc002awn.2_Missense_Mutation_p.R170H|PML_uc002awo.2_Missense_Mutation_p.R170H|PML_uc002awp.2_Missense_Mutation_p.R170H|PML_uc002awq.2_Missense_Mutation_p.R170H|PML_uc002awr.2_Missense_Mutation_p.R170H|PML_uc002aws.2_Missense_Mutation_p.R170H|PML_uc002awt.2_Missense_Mutation_p.R170H|PML_uc002awu.2_Missense_Mutation_p.R170H|PML_uc010ule.1_Intron|PML_uc002aww.1_Missense_Mutation_p.R85H	NM_033238	NP_150241	P29590	PML_HUMAN	promyelocytic leukemia protein isoform 1	170					cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction resulting in induction of apoptosis|endoplasmic reticulum calcium ion homeostasis|induction of apoptosis|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|maintenance of protein location in nucleus|negative regulation of angiogenesis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of mitotic cell cycle|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of telomerase activity|negative regulation of telomere maintenance via telomerase|negative regulation of transcription, DNA-dependent|negative regulation of translation in response to oxidative stress|PML body organization|PML body organization|positive regulation of defense response to virus by host|positive regulation of histone deacetylation|protein complex assembly|protein stabilization|protein targeting|regulation of calcium ion transport into cytosol|regulation of protein phosphorylation|response to hypoxia|response to virus|transcription, DNA-dependent	cytoplasm|cytosol|early endosome membrane|extrinsic to endoplasmic reticulum membrane|insoluble fraction|nuclear matrix|nuclear membrane|nucleolus|nucleus|PML body	cobalt ion binding|DNA binding|protein binding|protein binding|protein heterodimerization activity|protein homodimerization activity|SUMO binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding|zinc ion binding			central_nervous_system(2)|kidney(2)|breast(1)	5						GCAGAGCTGCGCAACCAGTCG	0.617			T	RARA|PAX5	APL|ALL								23	44					0	0	1	0	0		A	74290724	A	A	74290724	3	1	89	1	0	0	0	0	1	0	0	0	12154	1087	38	1	515	1	PML	15	74290724	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	48843	74290724	28240668	5282	59113											
CYP1A1	1543	broad.mit.edu	37	chr15	75014767	75014767	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagagccaaccacctccccGaaattattattcaggttgac	12	9	6	14	1	1	2	1	1	0	1	2	3	2	2	6	1	2	1	6	1	4	4	rs144413202	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:75014767G>A	uc002ayp.3	-	2	794	c.672C>T	c.(670-672)TTC>TTT	p.F224F	CYP1A1_uc010bjv.2_Intron|CYP1A1_uc010bjw.2_Intron|CYP1A1_uc010bju.2_5'UTR|CYP1A1_uc010bjx.2_Intron|CYP1A1_uc002ayq.3_Silent_p.F224F|CYP1A1_uc010bjy.2_Silent_p.F224F|CYP1A1_uc010bjz.1_5'UTR	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	224					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	CCACCTCCCCGAAATTATTAT	0.493									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				30	68					0	0	1	0	0		A	75014767	A	A	75014767	2	1	89	1	0	0	0	0	0	0	0	1	4152	1049	37	1		1	CYP1A1	15	75014767	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	724043	75014767	27516625	5283	59114											
C15orf39	56905	broad.mit.edu	37	chr15	75500865	75500865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctcagctgcagcgcttcGatcgcacccaccggtgcccc	5	8	10	18	4	1	0	1	0	1	0	4	1	1	0	4	1	4	4	4	1	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:75500865G>A	uc002azp.3	+	2	2796	c.2476G>A	c.(2476-2478)GAT>AAT	p.D826N	C15orf39_uc002azq.3_Missense_Mutation_p.D826N|C15orf39_uc002azr.3_Missense_Mutation_p.D224N	NM_015492	NP_056307	Q6ZRI6	CO039_HUMAN	hypothetical protein LOC56905	826											0						GCAGCGCTTCGATCGCACCCA	0.687													3	9					0	0	1	0	0		A	75500865	A	A	75500865	3	1	89	1	0	0	0	0	1	0	0	0	1796	1058	37	1	2478	1	C15orf39	15	75500865	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	486098	75500865	27030527	5284	59115											
GOLGA6C	653641	broad.mit.edu	37	chr15	75562507	75562507	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaccccccggtacagcagatCgtgcagctgtctcctgtcat	8	9	9	15	2	2	1	1	0	1	1	4	1	2	1	4	1	5	4	4	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:75562507C>T	uc002azs.1	+	18	2090	c.2013C>T	c.(2011-2013)ATC>ATT	p.I671I	uc002azu.1_5'Flank|uc010ulz.1_5'Flank	NM_001145224	NP_001138696	A6NDK9	GOG6C_HUMAN	golgi autoantigen, golgin subfamily a, 6D	683										ovary(1)	1						TACAGCAGATCGTGCAGCTGT	0.592													37	73					0	0	1	0	0		T	75562507	T	T	75562507	2	4	89	1	0	0	0	0	0	0	0	1	6574	874	31	1		1	GOLGA6C	15	75562507	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	61642	75562507	26968885	5285	59116											
SIN3A	25942	broad.mit.edu	37	chr15	75664355	75664355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactgtgccgtatttgacacGatacttgttaatgctcacaa	11	14	7	9	2	1	1	1	1	0	0	1	2	1	1	1	0	4	3	1	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:75664355G>A	uc002bai.2	-	21	4046	c.3787C>T	c.(3787-3789)CGT>TGT	p.R1263C	SIN3A_uc002baj.2_Missense_Mutation_p.R1263C|SIN3A_uc010uml.1_Missense_Mutation_p.R1263C	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	1263					blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						TATTTGACACGATACTTGTTA	0.532													32	69					0	0	1	0	0		A	75664355	A	A	75664355	3	1	89	1	0	0	0	0	1	0	0	0	14350	1058	37	1	38	1	SIN3A	15	75664355	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	101848	75664355	26867037	5286	59117											
SNUPN	10073	broad.mit.edu	37	chr15	75893539	75893539	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggagtgcaagggaagttCtttagccccacaaatttaaa	13	10	10	8	1	1	0	0	0	1	0	2	2	1	2	2	2	2	2	2	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:75893539C>A	uc002ban.2	-	8	789	c.699G>T	c.(697-699)AAG>AAT	p.K233N	SNUPN_uc002bao.2_Missense_Mutation_p.K233N|SNUPN_uc002bap.2_Missense_Mutation_p.K275N|SNUPN_uc002baq.2_Missense_Mutation_p.K233N|SNUPN_uc002bar.2_Missense_Mutation_p.K233N|SNUPN_uc002bas.2_Missense_Mutation_p.K233N	NM_005701	NP_005692	O95149	SPN1_HUMAN	snurportin 1	233	Necessary for binding to the m3G-cap structure.				ncRNA metabolic process|protein import into nucleus|spliceosomal snRNP assembly	cytosol|nuclear pore	protein transporter activity|RNA cap binding			pancreas(1)	1						AAGGGAAGTTCTTTAGCCCCA	0.363													40	70					1.38162e-09	1.48592e-09	1	1	0		A	75893539	A	A	75893539	3	1	89	1	0	0	0	0	1	0	0	0	14902	912	32	5	391	5	SNUPN	15	75893539	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	229184	75893539	26637853	5287	59118											
SNX33	257364	broad.mit.edu	37	chr15	75941999	75941999	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggccgtaacctcaaccgtTtctcatgctttgtgcgttct	5	15	9	12	3	3	0	2	0	2	0	4	0	3	0	3	1	4	4	3	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:75941999T>C	uc002bau.2	+	1	652	c.556T>C	c.(556-558)TTC>CTC	p.F186L	IMP3_uc002bat.2_5'Flank|SNX33_uc002bav.2_5'Flank	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	186					cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1						CCTCAACCGTTTCTCATGCTT	0.597													32	79					0	0	1	0	0		C	75941999	C	C	75941999	3	2	89	1	0	0	0	0	1	0	0	0	14928	1841	64	3	558	3	SNX33	15	75941999	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	48460	75941999	26589393	5288	59119											
CSPG4	1464	broad.mit.edu	37	chr15	75969500	75969500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggtgcccccaccgccgtggGcatacactagctgccctgca	6	6	12	17	2	0	0	0	0	0	0	0	0	0	0	5	2	5	3	5	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:75969500G>A	uc002baw.2	-	10	5453	c.5360C>T	c.(5359-5361)GCC>GTC	p.A1787V		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1787	Extracellular (Potential).|Cysteine-containing.|CSPG 12.|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						ACCGCCGTGGGCATACACTAG	0.692													5	4					0	0	1	0	0		A	75969500	A	A	75969500	3	1	89	1	0	0	0	0	1	0	0	0	3963	1203	42	2	1612	2	CSPG4	15	75969500	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	27501	75969500	26561892	5289	59120											
SGK269	79834	broad.mit.edu	37	chr15	77425509	77425509	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagccatgaaaaggtcttcGcatttaacagccagtttctt	11	12	7	11	1	2	1	0	1	2	0	3	1	2	1	3	1	3	2	3	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:77425509G>A	uc002bcm.2	-	5	4223	c.3915C>T	c.(3913-3915)TGC>TGT	p.C1305C		NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	1305					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		AAAGGTCTTCGCATTTAACAG	0.483													58	85					0	0	1	0	0		A	77425509	A	A	77425509	2	1	89	1	0	0	0	0	0	0	0	1	14236	1079	38	1		1	SGK269	15	77425509	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1456009	77425509	25105883	5290	59121											
SGK269	79834	broad.mit.edu	37	chr15	77471135	77471135	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtctattttacatacctgAgaatctttttaggaatctgt	11	17	6	7	0	3	1	0	1	3	1	3	3	3	2	1	1	2	0	1	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:77471135A>C	uc002bcm.2	-	3	3442	c.3134T>G	c.(3133-3135)CTC>CGC	p.L1045R	SGK269_uc002bcn.2_Missense_Mutation_p.L1045R	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	1045					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		TACATACCTGAGAATCTTTTT	0.363													21	37					0	0	1	0	0		C	77471135	C	C	77471135	3	2	89	1	0	0	0	0	1	0	0	0	14236	304	11	5	2122	5	SGK269	15	77471135	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	45626	77471135	25060257	5291	59122											
SH2D7	646892	broad.mit.edu	37	chr15	78390311	78390311	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attttgtcatcaaccagcttCgaaaccggcgttacatcatc	11	12	6	12	3	3	0	3	0	0	0	5	1	3	0	2	1	4	2	2	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:78390311C>T	uc010blb.1	+	3	307	c.307C>T	c.(307-309)CGA>TGA	p.R103*		NM_001101404	NP_001094874	A6NKC9	SH2D7_HUMAN	SH2 domain containing 7	103	SH2.										0						CAACCAGCTTCGAAACCGGCG	0.582													25	37					0	0	1	0	0		T	78390311	T	T	78390311	4	4	89	1	0	0	0	0	0	1	0	0	14264	876	31	1	317	1	SH2D7	15	78390311	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	919176	78390311	24141081	5292	59123											
DNAJA4	55466	broad.mit.edu	37	chr15	78562971	78562971	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcttcacccatggacatcTttgacatgttctttggtggt	6	17	8	10	0	4	1	1	1	3	0	5	2	4	2	1	3	0	1	1	3	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:78562971T>G	uc002bdj.1	+	2	382	c.265T>G	c.(265-267)TTT>GTT	p.F89V	DNAJA4_uc002bdi.2_Missense_Mutation_p.F118V|DNAJA4_uc002bdk.2_Missense_Mutation_p.F62V|DNAJA4_uc002bdl.2_Missense_Mutation_p.F4V	NM_001130182	NP_001123654	Q8WW22	DNJA4_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 4	89	Gly-rich.				protein folding|response to heat	membrane	ATP binding|heat shock protein binding|metal ion binding|unfolded protein binding			skin(1)	1						CATGGACATCTTTGACATGTT	0.433													62	98					0	0	1	0	0		G	78562971	G	G	78562971	3	3	89	1	0	0	0	0	1	0	0	0	4620	1609	56	5	417	5	DNAJA4	15	78562971	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	172660	78562971	23968421	5293	59124											
DNAJA4	55466	broad.mit.edu	37	chr15	78568044	78568044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gataaaaacattggacaatcGaattcttgttattacatcca	16	13	5	7	1	1	0	0	0	1	0	3	3	2	1	1	1	2	1	1	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:78568044G>A	uc002bdj.1	+	5	968	c.851G>A	c.(850-852)CGA>CAA	p.R284Q	DNAJA4_uc002bdi.2_Missense_Mutation_p.R313Q|DNAJA4_uc002bdk.2_Missense_Mutation_p.R257Q|DNAJA4_uc002bdm.1_Missense_Mutation_p.R68Q	NM_001130182	NP_001123654	Q8WW22	DNJA4_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 4	284					protein folding|response to heat	membrane	ATP binding|heat shock protein binding|metal ion binding|unfolded protein binding			skin(1)	1						TTGGACAATCGAATTCTTGTT	0.363													16	21					0	0	1	0	0		A	78568044	A	A	78568044	3	1	89	1	0	0	0	0	1	0	0	0	4620	1058	37	1	1015	1	DNAJA4	15	78568044	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5073	78568044	23963348	5294	59125											
IREB2	3658	broad.mit.edu	37	chr15	78770698	78770698	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaaagctgtgaaattgtttCgaaatgaccagaattcttca	14	14	7	6	1	2	3	1	2	1	1	3	4	2	3	1	0	1	2	1	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:78770698C>T	uc002bdr.2	+	10	1417	c.1255C>T	c.(1255-1257)CGA>TGA	p.R419*	IREB2_uc010unb.1_Nonsense_Mutation_p.R169*	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	419							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		GAAATTGTTTCGAAATGACCA	0.353													25	54					0	0	1	0	0		T	78770698	T	T	78770698	4	4	89	1	0	0	0	0	0	1	0	0	7842	876	31	1	1293	1	IREB2	15	78770698	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	202654	78770698	23760694	5295	59126											
ADAMTS7	11173	broad.mit.edu	37	chr15	79059228	79059228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctcgtggctggaggagcCgctgcctgagccttcagggc	5	7	17	12	2	1	1	1	1	0	0	2	4	1	3	3	4	4	3	3	4	0	1	rs141015964		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:79059228C>T	uc002bej.3	-	19	3236	c.3025G>A	c.(3025-3027)GGC>AGC	p.G1009S	ADAMTS7_uc010und.1_3'UTR	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1009					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						CTGGAGGAGCCGCTGCCTGAG	0.677													12	29					0	0	1	0	0		T	79059228	T	T	79059228	3	4	89	1	0	0	0	0	1	0	0	0	271	652	23	1	2059	1	ADAMTS7	15	79059228	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	288530	79059228	23472164	5296	59127											
MORF4L1	10933	broad.mit.edu	37	chr15	79172918	79172918	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattacagtggttggaataAaaagtgagtattagatctta	16	13	9	3	0	1	2	0	1	1	1	1	3	1	3	0	2	1	2	0	2	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:79172918A>C	uc002bel.2	+	3	340	c.152A>C	c.(151-153)AAA>ACA	p.K51T	MORF4L1_uc010bli.1_Missense_Mutation_p.K51T|MORF4L1_uc010blj.1_Missense_Mutation_p.K51T|MORF4L1_uc002bem.2_Missense_Mutation_p.K51T|MORF4L1_uc010une.1_5'UTR	NM_206839	NP_996670	Q9UBU8	MO4L1_HUMAN	MORF-related gene 15 isoform 2	51	Interaction with MYST1.				double-strand break repair via homologous recombination|histone deacetylation|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|Sin3 complex	protein N-terminus binding				0						GGTTGGAATAAAAAGTGAGTA	0.299													12	31					0	0	1	0	0		C	79172918	C	C	79172918	3	2	89	1	0	0	0	0	1	0	0	0	9724	14	1	5	162	5	MORF4L1	15	79172918	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	113690	79172918	23358474	5297	59128											
RASGRF1	5923	broad.mit.edu	37	chr15	79307749	79307749	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcatcggatgttatccacAcactggaatcagagagagga	13	9	11	8	1	1	2	1	0	0	2	3	6	2	5	1	3	1	2	1	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:79307749A>C	uc002beq.2	-	13	2121	c.1746T>G	c.(1744-1746)TGT>TGG	p.C582W	RASGRF1_uc002bep.2_Missense_Mutation_p.C582W|RASGRF1_uc010blm.1_Missense_Mutation_p.C504W|RASGRF1_uc002ber.3_Missense_Mutation_p.C582W|RASGRF1_uc010unh.1_5'UTR	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	582	PH 2.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						TGTTATCCACACACTGGAATC	0.512													16	37					0	0	1	0	0		C	79307749	C	C	79307749	3	2	89	1	0	0	0	0	1	0	0	0	13097	157	6	5	2139	5	RASGRF1	15	79307749	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	134831	79307749	23223643	5298	59129											
RASGRF1	5923	broad.mit.edu	37	chr15	79323837	79323837	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggagctcatggagggtcagGatgtacctggggatctgcgg	8	8	18	7	1	3	0	2	0	1	0	3	4	3	4	1	7	3	2	1	7	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:79323837G>A	uc002beq.2	-	8	1542	c.1167C>T	c.(1165-1167)ATC>ATT	p.I389I	RASGRF1_uc002bep.2_Silent_p.I389I|RASGRF1_uc010blm.1_Silent_p.I311I|RASGRF1_uc002ber.3_Silent_p.I389I	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	389	DH.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						GGAGGGTCAGGATGTACCTGG	0.582													6	15					0	0	1	0	0		A	79323837	A	A	79323837	2	1	89	1	0	0	0	0	0	0	0	1	13097	1164	41	4		4	RASGRF1	15	79323837	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16088	79323837	23207555	5299	59130											
RASGRF1	5923	broad.mit.edu	37	chr15	79339308	79339308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatggtcttccacttccGccggcacagccagccccgca	7	7	10	17	3	1	1	0	1	1	0	3	2	3	1	6	2	2	2	6	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:79339308G>A	uc002beq.2	-	5	1033	c.658C>T	c.(658-660)CGG>TGG	p.R220W	RASGRF1_uc002bep.2_Missense_Mutation_p.R220W|RASGRF1_uc010blm.1_Missense_Mutation_p.R142W|RASGRF1_uc002ber.3_Missense_Mutation_p.R220W	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	220	IQ.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						TTCCACTTCCGCCGGCACAGC	0.582													25	42					0	0	1	0	0		A	79339308	A	A	79339308	3	1	89	1	0	0	0	0	1	0	0	0	13097	1086	38	1	3259	1	RASGRF1	15	79339308	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	15471	79339308	23192084	5300	59131											
KIAA1024	23251	broad.mit.edu	37	chr15	79748821	79748821	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcccacgggccgccagaAggtacgcaagaaggaggcat	11	3	15	12	3	0	2	0	0	0	2	0	3	0	3	3	4	2	4	3	4	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:79748821A>C	uc002bew.1	+	2	407	c.332A>C	c.(331-333)AAG>ACG	p.K111T	KIAA1024_uc010unk.1_Missense_Mutation_p.K111T	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	111						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						GGCCGCCAGAAGGTACGCAAG	0.522													38	57					0	0	1	0	0		C	79748821	C	C	79748821	3	2	89	1	0	0	0	0	1	0	0	0	8221	72	3	5	334	5	KIAA1024	15	79748821	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	409513	79748821	22782571	5301	59132											
KIAA1024	23251	broad.mit.edu	37	chr15	79749039	79749039	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgttgggagttagcaaaGaggtgaaaaaccgcgccgct	11	8	13	9	3	0	2	0	1	0	1	1	3	1	3	3	2	2	4	3	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:79749039G>T	uc002bew.1	+	2	625	c.550G>T	c.(550-552)GAG>TAG	p.E184*	KIAA1024_uc010unk.1_Nonsense_Mutation_p.E184*	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	184						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						AGTTAGCAAAGAGGTGAAAAA	0.592													24	51					3.08376e-08	3.26638e-08	1	1	0		T	79749039	T	T	79749039	4	4	89	1	0	0	0	0	0	1	0	0	8221	943	33	5	552	5	KIAA1024	15	79749039	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	218	79749039	22782353	5302	59133											
KIAA1199	57214	broad.mit.edu	37	chr15	81188291	81188291	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggataatgtacagtcatggaAacctggagataccctggtca	13	9	11	8	0	2	1	2	0	0	1	2	4	2	3	2	4	3	1	2	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:81188291A>C	uc002bfw.1	+	11	1561	c.1301A>C	c.(1300-1302)AAA>ACA	p.K434T	KIAA1199_uc010unn.1_Missense_Mutation_p.K434T	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	434										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CAGTCATGGAAACCTGGAGAT	0.502													28	57					0	0	1	0	0		C	81188291	C	C	81188291	3	2	89	1	0	0	0	0	1	0	0	0	8229	14	1	5	1339	5	KIAA1199	15	81188291	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1439252	81188291	21343101	5303	59134											
KIAA1199	57214	broad.mit.edu	37	chr15	81241258	81241258	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgtggtgaagaagaagaAgttgtgaggacagctgccgc	11	7	15	8	1	0	5	0	2	0	3	0	6	0	6	2	2	2	2	2	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:81241258A>C	uc002bfw.1	+	29	4339	c.4079A>C	c.(4078-4080)AAG>ACG	p.K1360T	KIAA1199_uc010unn.1_Missense_Mutation_p.K1360T|MESDC2_uc002bfx.2_Intron|MESDC2_uc010uno.1_Intron	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	1360										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						AAGAAGAAGAAGTTGTGAGGA	0.582													43	96					0	0	1	0	0		C	81241258	C	C	81241258	3	2	89	1	0	0	0	0	1	0	0	0	8229	72	3	5	4189	5	KIAA1199	15	81241258	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	52967	81241258	21290134	5304	59135											
MESDC1	59274	broad.mit.edu	37	chr15	81294772	81294772	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgacctgctgctgctgTcgagcgaggcgcggcccgtg	3	8	17	13	5	0	1	0	1	0	0	1	3	0	1	2	3	4	4	2	3	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:81294772T>C	uc002bfz.2	+	1	1478	c.160T>C	c.(160-162)TCG>CCG	p.S54P		NM_022566	NP_072088	Q9H1K6	MESD1_HUMAN	mesoderm development candidate 1	54											0						GCTGCTGCTGTCGAGCGAGGC	0.701													8	15					0	0	1	0	0		C	81294772	C	C	81294772	3	2	89	1	0	0	0	0	1	0	0	0	9498	1667	58	3	162	3	MESDC1	15	81294772	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	53514	81294772	21236620	5305	59136											
TMC3	342125	broad.mit.edu	37	chr15	81625178	81625178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cccgacggaggtctatcaggGagcgtgggggaagagaccgt	9	5	18	9	4	2	1	1	0	1	1	2	6	2	4	2	5	1	0	2	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:81625178G>A	uc002bgo.1	-	22	2885	c.2885C>T	c.(2884-2886)TCC>TTC	p.S962F	TMC3_uc010blr.1_RNA	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	962	Cytoplasmic (Potential).					integral to membrane				ovary(1)|liver(1)	2						GTCTATCAGGGAGCGTGGGGG	0.607													11	21					0	0	1	0	0		A	81625178	A	A	81625178	3	1	89	1	0	0	0	0	1	0	0	0	16011	1174	41	4	421	4	TMC3	15	81625178	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	330406	81625178	20906214	5306	59137											
MEX3B	84206	broad.mit.edu	37	chr15	82336352	82336352	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccaagcgagctggagctgtCgttgcggtagctagagaaag	10	7	16	8	3	0	1	0	0	0	1	1	4	0	2	1	2	5	5	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:82336352C>T	uc002bgq.1	-	2	1174	c.859G>A	c.(859-861)GAC>AAC	p.D287N		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	287					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						CTGGAGCTGTCGTTGCGGTAG	0.682													22	47					0	0	1	0	0		T	82336352	T	T	82336352	3	4	89	1	0	0	0	0	1	0	0	0	9528	884	31	1	854	1	MEX3B	15	82336352	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	711174	82336352	20195040	5307	59138											
EFTUD1	79631	broad.mit.edu	37	chr15	82444040	82444040	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttccaccagaacaggtttCattttcctcctgtccctctt	7	16	4	14	0	2	1	1	0	1	1	6	1	6	1	5	1	1	1	5	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:82444040C>A	uc002bgt.1	-	18	2924	c.2755G>T	c.(2755-2757)GAA>TAA	p.E919*	EFTUD1_uc002bgs.1_Nonsense_Mutation_p.E290*|EFTUD1_uc002bgu.1_Nonsense_Mutation_p.E868*	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	919					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						GAACAGGTTTCATTTTCCTCC	0.453													49	97					1.4374e-25	1.73394e-25	1	1	0		A	82444040	A	A	82444040	4	1	89	1	0	0	0	0	0	1	0	0	4966	835	29	5	619	5	EFTUD1	15	82444040	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	107688	82444040	20087352	5308	59139											
EFTUD1	79631	broad.mit.edu	37	chr15	82444245	82444245	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaagctttgtcagctggAcctgtccatactgagttctg	7	15	10	9	0	2	2	1	2	1	0	3	3	3	3	2	1	3	3	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:82444245A>G	uc002bgt.1	-	18	2719	c.2550T>C	c.(2548-2550)GGT>GGC	p.G850G	EFTUD1_uc002bgs.1_Silent_p.G221G|EFTUD1_uc002bgu.1_Silent_p.G799G	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	850					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						TGTCAGCTGGACCTGTCCATA	0.453													24	47					0	0	1	0	0		G	82444245	G	G	82444245	2	3	89	1	0	0	0	0	0	0	0	1	4966	262	10	3		3	EFTUD1	15	82444245	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	205	82444245	20087147	5309	59140											
AP3B2	8120	broad.mit.edu	37	chr15	83358164	83358164	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggcctccagcttgagaGaatccttgttggtgtccagc	7	12	11	11	0	1	2	1	1	0	1	4	3	4	2	4	2	2	2	4	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:83358164G>T	uc010uoh.1	-	2	332	c.155C>A	c.(154-156)TCT>TAT	p.S52Y	AP3B2_uc010uoi.1_Missense_Mutation_p.S52Y|AP3B2_uc010uoj.1_Missense_Mutation_p.S52Y|AP3B2_uc010uok.1_Missense_Mutation_p.S52Y	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	52					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			CAGCTTGAGAGAATCCTTGTT	0.582													11	24					4.36969e-10	4.72811e-10	1	1	0		T	83358164	T	T	83358164	3	4	89	1	0	0	0	0	1	0	0	0	745	942	33	5	3117	5	AP3B2	15	83358164	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	913919	83358164	19173228	5310	59141											
HOMER2	9455	broad.mit.edu	37	chr15	83561463	83561463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgtccacactgatgatccGatagctgttccttgtgacat	8	13	8	12	2	0	3	0	3	0	0	4	4	4	3	4	0	1	2	4	0	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:83561463G>A	uc002bjg.2	-	2	322	c.136C>T	c.(136-138)CGG>TGG	p.R46W	HOMER2_uc002bjh.2_Missense_Mutation_p.R46W|HOMER2_uc002bjj.2_Missense_Mutation_p.R46W|HOMER2_uc002bji.2_Missense_Mutation_p.R46W	NM_199330	NP_955362	Q9NSB8	HOME2_HUMAN	homer 2 isoform 2	46	WH1.				metabotropic glutamate receptor signaling pathway	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane					0						CTGATGATCCGATAGCTGTTC	0.502													66	135					0	0	1	0	0		A	83561463	A	A	83561463	3	1	89	1	0	0	0	0	1	0	0	0	7295	1057	37	1	960	1	HOMER2	15	83561463	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	203299	83561463	18969929	5311	59142											
BTBD1	53339	broad.mit.edu	37	chr15	83698921	83698921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtcccactgtaaccccagCggctttctacttgctggaat	7	12	8	14	2	1	0	0	0	1	0	3	1	2	1	3	2	4	3	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:83698921C>T	uc002bjn.2	-	5	1225	c.1022G>A	c.(1021-1023)CGC>CAC	p.R341H	BTBD1_uc002bjo.2_Missense_Mutation_p.R341H	NM_025238	NP_079514	Q9H0C5	BTBD1_HUMAN	BTB (POZ) domain containing 1 isoform 1	341						cytoplasmic mRNA processing body|protein complex	protein binding			ovary(1)|central_nervous_system(1)	2				all cancers(203;0.000186)		GTAACCCCAGCGGCTTTCTAC	0.478													140	309					0	0	1	0	0		T	83698921	T	T	83698921	3	4	89	1	0	0	0	0	1	0	0	0	1540	768	27	1	442	1	BTBD1	15	83698921	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	137458	83698921	18832471	5312	59143											
BNC1	646	broad.mit.edu	37	chr15	83926276	83926276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtttcgactgcgaacagacGaaaacatggtgttgcagcct	11	10	11	9	3	0	1	0	0	0	1	1	4	0	1	1	1	5	3	1	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:83926276G>A	uc002bjt.1	-	5	2991	c.2903C>T	c.(2902-2904)TCG>TTG	p.S968L	BNC1_uc010uos.1_Missense_Mutation_p.S956L	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	968	C2H2-type 6.				epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						GCGAACAGACGAAAACATGGT	0.498													55	110					0	0	1	0	0		A	83926276	A	A	83926276	3	1	89	1	0	0	0	0	1	0	0	0	1475	1059	37	1	85	1	BNC1	15	83926276	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	227355	83926276	18605116	5313	59144											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84442274	84442274	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgctttttaacatctaGacctcaagaaacactcgttc	11	15	5	10	1	2	2	1	0	1	2	4	2	2	2	1	0	3	3	1	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:84442274G>T	uc002bjz.3	+	4	414	c.190_splice	c.e4-1	p.T64_splice	ADAMTSL3_uc002bjy.1_Splice_Site_p.T64_splice|ADAMTSL3_uc010bmt.1_Splice_Site_p.T64_splice|ADAMTSL3_uc010bmu.1_Splice_Site_p.T64_splice	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor							proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			TTAACATCTAGACCTCAAGAA	0.438													20	31					1.64113e-05	1.69216e-05	1	1	0		T	84442274	T	T	84442274	5	4	89	1	0	0	0	0	0	0	1	0	276	956	33	5	199	5	ADAMTSL3	15	84442274	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	515998	84442274	18089118	5314	59145											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84527579	84527579	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagaattacagtgaaaggAcctgcccacctctgtaagta	13	9	10	9	0	1	2	0	2	1	1	1	4	1	3	3	1	2	2	3	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:84527579A>G	uc002bjz.3	+	8	1013	c.789A>G	c.(787-789)GGA>GGG	p.G263G	ADAMTSL3_uc002bjy.1_Silent_p.G263G|ADAMTSL3_uc010bmt.1_Silent_p.G263G|ADAMTSL3_uc010bmu.1_Silent_p.G263G	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	263						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding	p.G263*(1)		ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			CAGTGAAAGGACCTGCCCACC	0.313													37	73					0	0	1	0	0		G	84527579	G	G	84527579	2	3	89	1	0	0	0	0	0	0	0	1	276	262	10	3		3	ADAMTSL3	15	84527579	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	85305	84527579	18003813	5315	59146											
SEC11A	23478	broad.mit.edu	37	chr15	85230953	85230953	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgtatgggatcttcaactcGatttgttagaaagagaagat	13	13	10	5	2	2	3	1	0	1	3	4	6	2	4	0	1	1	2	0	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:85230953G>A	uc002blb.1	-	3	582	c.214C>T	c.(214-216)CGA>TGA	p.R72*	SEC11A_uc002blc.1_Nonsense_Mutation_p.R46*	NM_014300	NP_055115	P67812	SC11A_HUMAN	SEC11-like 1	72	Lumenal (Potential).				energy reserve metabolic process|regulation of insulin secretion|signal peptide processing	endoplasmic reticulum membrane|integral to membrane|microsome	protein binding|serine-type peptidase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(143;0.199)			TCTTCAACTCGATTTGTTAGA	0.373													33	51					0	0	1	0	0		A	85230953	A	A	85230953	4	1	89	1	0	0	0	0	0	1	0	0	14003	1066	37	1	341	1	SEC11A	15	85230953	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	703374	85230953	17300439	5316	59147											
SLC28A1	9154	broad.mit.edu	37	chr15	85478326	85478326	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaaggtggtcgccaacatCgctgccaacctgattgcgtt	8	10	12	11	3	0	2	0	2	0	0	2	2	0	2	3	2	4	2	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:85478326C>T	uc002blg.2	+	14	1486	c.1284C>T	c.(1282-1284)ATC>ATT	p.I428I	SLC28A1_uc010bnb.2_Silent_p.I428I|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Silent_p.I428I|SLC28A1_uc010upg.1_Silent_p.I428I	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	428	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			TCGCCAACATCGCTGCCAACC	0.552													38	60					0	0	1	0	0		T	85478326	T	T	85478326	2	4	89	1	0	0	0	0	0	0	0	1	14556	874	31	1		1	SLC28A1	15	85478326	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	247373	85478326	17053066	5317	59148											
AKAP13	11214	broad.mit.edu	37	chr15	86124509	86124509	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctggatgttggagtgaaGaacactcaatcccagggaaa	13	8	11	9	0	2	2	1	1	1	1	3	5	3	5	2	3	1	1	2	3	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:86124509G>T	uc002blv.1	+	7	3380	c.3210G>T	c.(3208-3210)AAG>AAT	p.K1070N	AKAP13_uc002blt.1_Missense_Mutation_p.K1070N|AKAP13_uc002blu.1_Missense_Mutation_p.K1070N|AKAP13_uc010bne.1_5'Flank	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1070					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TTGGAGTGAAGAACACTCAAT	0.517													17	49					3.45872e-05	3.55908e-05	1	1	0		T	86124509	T	T	86124509	3	4	89	1	0	0	0	0	1	0	0	0	449	933	33	5	3232	5	AKAP13	15	86124509	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	646183	86124509	16406883	5318	59149											
AGBL1	123624	broad.mit.edu	37	chr15	86697732	86697732	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattctggccaggaagaacCtatcccatggccagaatctc	11	9	9	12	0	2	3	0	1	2	2	4	4	3	4	4	3	1	0	4	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:86697732C>A	uc002blz.1	+	3	276	c.196C>A	c.(196-198)CTA>ATA	p.L66I		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	66					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						CAGGAAGAACCTATCCCATGG	0.468													4	32					0.150653	0.151022	1	1	0		A	86697732	A	A	86697732	3	1	89	1	0	0	0	0	1	0	0	0	375	680	24	5	202	5	AGBL1	15	86697732	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	573223	86697732	15833660	5319	59150											
AGBL1	123624	broad.mit.edu	37	chr15	86807892	86807892	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttgtcaaagtaatagataAgcttctgcagacacatctga	15	11	8	7	0	3	3	1	1	2	2	3	3	3	3	0	0	2	4	0	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:86807892A>C	uc002blz.1	+	10	1432	c.1352A>C	c.(1351-1353)AAG>ACG	p.K451T	AGBL1_uc002bma.1_Missense_Mutation_p.K182T|AGBL1_uc002bmb.1_Missense_Mutation_p.K145T	NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	451					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						GTAATAGATAAGCTTCTGCAG	0.453													53	114					0	0	1	0	0		C	86807892	C	C	86807892	3	2	89	1	0	0	0	0	1	0	0	0	375	72	3	5	1386	5	AGBL1	15	86807892	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	110160	86807892	15723500	5320	59151											
NTRK3	4916	broad.mit.edu	37	chr15	88420315	88420315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttggggcagactcggggccGctccaaaacacgaccttggg	8	7	14	12	3	0	1	0	0	0	1	2	2	1	1	3	5	1	2	3	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:88420315G>A	uc002bme.1	-	19	2533	c.2371C>T	c.(2371-2373)CGG>TGG	p.R791W	NTRK3_uc002bmh.2_Missense_Mutation_p.R769W|NTRK3_uc002bmf.1_Missense_Mutation_p.R777W	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	791	Cytoplasmic (Potential).|Protein kinase.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			ACTCGGGGCCGCTCCAAAACA	0.527			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			20	30					0	0	1	0	0		A	88420315	A	A	88420315	3	1	89	1	0	0	0	0	1	0	0	0	10727	1086	38	1	152	1	NTRK3	15	88420315	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1612423	88420315	14111077	5321	59152											
NTRK3	4916	broad.mit.edu	37	chr15	88472566	88472566	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtacaccatacccgaggcGatctgactggcaatgtggag	11	7	13	10	2	1	1	0	1	1	0	1	4	1	2	2	4	2	2	2	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:88472566G>A	uc002bme.1	-	16	2151	c.1989C>T	c.(1987-1989)ATC>ATT	p.I663I	NTRK3_uc002bmh.2_Silent_p.I655I|NTRK3_uc002bmf.1_Silent_p.I663I|NTRK3_uc010upl.1_Silent_p.I565I|NTRK3_uc010bnh.1_Silent_p.I655I	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	663	Cytoplasmic (Potential).|Protein kinase.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			TACCCGAGGCGATCTGACTGG	0.602			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			26	40					0	0	1	0	0		A	88472566	A	A	88472566	2	1	89	1	0	0	0	0	0	0	0	1	10727	1048	37	1		1	NTRK3	15	88472566	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	52251	88472566	14058826	5322	59153											
NTRK3	4916	broad.mit.edu	37	chr15	88679173	88679173	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcattgctcatgcccaccacGttctctgcaatgcacgtcag	8	10	8	15	2	3	0	2	0	1	0	4	0	3	0	2	0	4	5	2	0	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:88679173G>A	uc002bme.1	-	8	1026	c.864C>T	c.(862-864)AAC>AAT	p.N288N	NTRK3_uc002bmh.2_Silent_p.N288N|NTRK3_uc002bmf.1_Silent_p.N288N|NTRK3_uc010upl.1_Silent_p.N190N|NTRK3_uc010bnh.1_Silent_p.N288N|NTRK3_uc002bmg.2_Silent_p.N288N	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	288	Ig-like C2-type 1.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			TGCCCACCACGTTCTCTGCAA	0.522			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			32	44					0	0	1	0	0		A	88679173	A	A	88679173	2	1	89	1	0	0	0	0	0	0	0	1	10727	1136	40	1		1	NTRK3	15	88679173	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	206607	88679173	13852219	5323	59154											
ACAN	176	broad.mit.edu	37	chr15	89403618	89403618	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcaaggagacagagggAcacgtcatatgcctgtgccc	11	6	12	12	1	1	2	1	0	0	2	1	4	1	3	3	2	3	1	3	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:89403618A>G	uc010upo.1	+	13	7268	c.6894A>G	c.(6892-6894)GGA>GGG	p.G2298G	ACAN_uc010upp.1_Intron|ACAN_uc002bna.2_Intron	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	2298					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			AGACAGAGGGACACGTCATAT	0.627													12	13					0	0	1	0	0		G	89403618	G	G	89403618	2	3	89	1	0	0	0	0	0	0	0	1	117	262	10	3		3	ACAN	15	89403618	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	724445	89403618	13127774	5324	59155											
FANCI	55215	broad.mit.edu	37	chr15	89807192	89807192	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaaaaagcattgagcatgTtctccaagatgaatcttcaa	15	11	8	7	0	3	3	1	2	2	1	4	4	3	4	1	1	2	3	1	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:89807192T>C	uc010bnp.1	+	8	694	c.604T>C	c.(604-606)TTC>CTC	p.F202L	FANCI_uc002bnm.1_Missense_Mutation_p.F202L|FANCI_uc002bnn.1_RNA|FANCI_uc002bno.2_Missense_Mutation_p.F202L|FANCI_uc002bnp.1_Missense_Mutation_p.F23L	NM_001113378	NP_001106849	Q9NVI1	FANCI_HUMAN	Fanconi anemia, complementation group I isoform	202					cell cycle|DNA repair	nucleoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					ATTGAGCATGTTCTCCAAGAT	0.418								Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				42	81					0	0	1	0	0		C	89807192	C	C	89807192	3	2	89	1	0	0	0	0	1	0	0	0	5683	1725	60	3	630	3	FANCI	15	89807192	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	403574	89807192	12724200	5325	59156											
FANCI	55215	broad.mit.edu	37	chr15	89849327	89849327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctgcttacatttttccacGagctggtgcagacagctctg	7	13	9	12	1	2	1	0	0	2	1	3	2	3	1	1	1	5	4	1	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:89849327G>A	uc010bnp.1	+	32	3529	c.3439G>A	c.(3439-3441)GAG>AAG	p.E1147K	FANCI_uc002bnm.1_Missense_Mutation_p.E1087K|FANCI_uc002bnn.1_Intron|FANCI_uc002bnp.1_Missense_Mutation_p.E907K|FANCI_uc002bnq.1_Missense_Mutation_p.E560K	NM_001113378	NP_001106849	Q9NVI1	FANCI_HUMAN	Fanconi anemia, complementation group I isoform	1147					cell cycle|DNA repair	nucleoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					ATTTTTCCACGAGCTGGTGCA	0.473								Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				41	81					0	0	1	0	0		A	89849327	A	A	89849327	3	1	89	1	0	0	0	0	1	0	0	0	5683	1059	37	1	3561	1	FANCI	15	89849327	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	42135	89849327	12682065	5326	59157											
POLG	5428	broad.mit.edu	37	chr15	89860719	89860719	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgactgcactgaaaaaggcGactgactggggcaagtcatt	12	8	12	9	2	1	2	1	2	0	0	2	4	1	2	0	3	1	2	0	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:89860719G>A	uc002bns.3	-	22	3813	c.3531C>T	c.(3529-3531)GTC>GTT	p.V1177V	POLG_uc002bnr.3_Silent_p.V1177V	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	1177					base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			TGAAAAAGGCGACTGACTGGG	0.507								DNA_polymerases_(catalytic_subunits)					29	59					0	0	1	0	0		A	89860719	A	A	89860719	2	1	89	1	0	0	0	0	0	0	0	1	12219	1045	37	1		1	POLG	15	89860719	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11392	89860719	12670673	5327	59158											
PEX11A	8800	broad.mit.edu	37	chr15	90226989	90226989	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagtagtggtgagcagccctCgttcgccatttctctttgtt	5	16	10	10	2	1	1	0	1	1	0	4	1	1	1	2	1	2	4	2	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:90226989C>T	uc002boi.2	-	3	458	c.363G>A	c.(361-363)ACG>ACA	p.T121T	PEX11A_uc010upy.1_RNA	NM_003847	NP_003838	O75192	PX11A_HUMAN	peroxisomal biogenesis factor 11 alpha	121	Lumenal (Potential).				cellular lipid metabolic process|peroxisome fission|signal transduction	integral to peroxisomal membrane					0	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			GAGCAGCCCTCGTTCGCCATT	0.493													53	109					0	0	1	0	0		T	90226989	T	T	90226989	2	4	89	1	0	0	0	0	0	0	0	1	11756	871	31	1		1	PEX11A	15	90226989	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	366270	90226989	12304403	5328	59159											
PEX11A	8800	broad.mit.edu	37	chr15	90227003	90227003	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctcgttcgccatttctCtttgttgatgccagaggtga	6	14	10	11	2	1	3	0	2	1	1	4	3	1	3	3	1	2	2	3	1	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:90227003C>A	uc002boi.2	-	3	444	c.349G>T	c.(349-351)GAG>TAG	p.E117*	PEX11A_uc010upy.1_RNA	NM_003847	NP_003838	O75192	PX11A_HUMAN	peroxisomal biogenesis factor 11 alpha	117	Lumenal (Potential).				cellular lipid metabolic process|peroxisome fission|signal transduction	integral to peroxisomal membrane					0	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			CGCCATTTCTCTTTGTTGATG	0.478													50	98					3.76525e-18	4.39261e-18	1	1	0		A	90227003	A	A	90227003	4	1	89	1	0	0	0	0	0	1	0	0	11756	922	32	5	398	5	PEX11A	15	90227003	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14	90227003	12304389	5329	59160											
WDR93	56964	broad.mit.edu	37	chr15	90255298	90255298	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtataaagatggagatCtctcaaggaggggactttgc	12	10	12	7	0	2	2	1	0	1	2	3	5	2	4	1	4	1	1	1	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:90255298C>A	uc002boj.2	+	5	704	c.603C>A	c.(601-603)ATC>ATA	p.I201I	WDR93_uc010bnr.2_Silent_p.I201I	NM_020212	NP_064597	Q6P2C0	WDR93_HUMAN	WD repeat domain 93	201					electron transport chain	mitochondrial inner membrane	oxidoreductase activity, acting on NADH or NADPH			ovary(2)	2	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			AGATGGAGATCTCTCAAGGAG	0.403													16	35					7.07596e-05	7.25576e-05	1	1	0		A	90255298	A	A	90255298	2	1	89	1	0	0	0	0	0	0	0	1	17366	903	32	5		5	WDR93	15	90255298	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28295	90255298	12276094	5330	59161											
ANPEP	290	broad.mit.edu	37	chr15	90340835	90340835	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatagacctcggagcggtCaaacatgagcttgaagtagc	12	7	12	10	2	1	3	1	2	0	1	2	4	1	4	2	2	4	2	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:90340835C>A	uc002bop.3	-	15	2420	c.2128G>T	c.(2128-2130)GAC>TAC	p.D710Y		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	710	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	TCGGAGCGGTCAAACATGAGC	0.547													48	122					1.35964e-18	1.59048e-18	1	1	0		A	90340835	A	A	90340835	3	1	89	1	0	0	0	0	1	0	0	0	710	826	29	5	803	5	ANPEP	15	90340835	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	85537	90340835	12190557	5331	59162											
SEMA4B	10509	broad.mit.edu	37	chr15	90770845	90770845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacctttgcagcgcgtcttCggttgtgtccccgtcttttg	2	15	12	12	4	2	0	0	0	2	0	4	1	3	1	3	2	2	2	3	2	0	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:90770845C>T	uc002boy.2	+	14	2028	c.1745C>T	c.(1744-1746)TCG>TTG	p.S582L	SEMA4B_uc002boz.2_Missense_Mutation_p.S582L|SEMA4B_uc010uqd.1_Missense_Mutation_p.S420L|SEMA4B_uc002bpa.2_Missense_Mutation_p.S420L|SEMA4B_uc010bnv.1_Missense_Mutation_p.S220L	NM_020210	NP_064595			semaphorin 4B precursor											ovary(1)|breast(1)|kidney(1)	3	Melanoma(11;0.00551)|Lung NSC(78;0.0125)|all_lung(78;0.0272)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.217)			AGCGCGTCTTCGGTTGTGTCC	0.607													9	21					0	0	1	0	0		T	90770845	T	T	90770845	3	4	89	1	0	0	0	0	1	0	0	0	14057	893	31	1	1795	1	SEMA4B	15	90770845	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	430010	90770845	11760547	5332	59163											
TTLL13	440307	broad.mit.edu	37	chr15	90799398	90799398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggacttccagtcctacggtCgtcagcgaaaagcccgcaca	10	6	11	14	4	1	0	1	0	0	0	4	2	3	1	3	2	3	1	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:90799398C>T	uc002bpd.1	+	6	862	c.574C>T	c.(574-576)CGT>TGT	p.R192C	TTLL13_uc002bpe.1_Intron	NM_001029964	NP_001025135	A6NNM8	TTL13_HUMAN	tubulin tyrosine ligase-like family, member 13	192	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0	Melanoma(11;0.00551)|Lung NSC(78;0.0178)|all_lung(78;0.0378)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|BRCA - Breast invasive adenocarcinoma(143;0.0323)|Kidney(142;0.0514)			GTCCTACGGTCGTCAGCGAAA	0.562													36	80					0	0	1	0	0		T	90799398	T	T	90799398	3	4	89	1	0	0	0	0	1	0	0	0	16752	884	31	1	592	1	TTLL13	15	90799398	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28553	90799398	11731994	5333	59164											
IQGAP1	8826	broad.mit.edu	37	chr15	91034623	91034623	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgatgccaaaacacctgAcaagatgaaaaagtcaaaat	19	6	7	9	1	1	4	1	3	0	1	1	4	1	4	3	0	2	0	3	0	7	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:91034623A>C	uc002bpl.1	+	34	4408	c.4307A>C	c.(4306-4308)GAC>GCC	p.D1436A	IQGAP1_uc010uqg.1_Missense_Mutation_p.D57A	NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1436	C2.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			AAAACACCTGACAAGATGAAA	0.423													29	58					0	0	1	0	0		C	91034623	C	C	91034623	3	2	89	1	0	0	0	0	1	0	0	0	7830	275	10	5	4441	5	IQGAP1	15	91034623	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	235225	91034623	11496769	5334	59165											
SLCO3A1	28232	broad.mit.edu	37	chr15	92669380	92669380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctgccctgggggccattCggatggccatgctcgtcaac	5	10	13	13	2	2	0	1	0	1	0	4	1	2	1	3	4	3	1	3	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:92669380C>T	uc002bqx.2	+	6	1465	c.1264C>T	c.(1264-1266)CGG>TGG	p.R422W	SLCO3A1_uc002bqy.2_Missense_Mutation_p.R422W|SLCO3A1_uc010boc.1_RNA|SLCO3A1_uc002bqz.1_Missense_Mutation_p.R364W	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,	422	Helical; Name=9; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			GGGGGCCATTCGGATGGCCAT	0.582													23	62					0	0	1	0	0		T	92669380	T	T	92669380	3	4	89	1	0	0	0	0	1	0	0	0	14753	875	31	1	1286	1	SLCO3A1	15	92669380	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1634757	92669380	9862012	5335	59166											
SPATA8	145946	broad.mit.edu	37	chr15	97327401	97327401	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacctcgtcgcgacatttCtcagaagccatgacatgtcc	11	9	8	13	3	1	3	1	1	1	2	5	4	2	3	3	0	2	0	3	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:97327401C>A	uc002bue.2	+	2	318	c.108C>A	c.(106-108)TTC>TTA	p.F36L	uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8	36										ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			CGCGACATTTCTCAGAAGCCA	0.577													37	59					1.49673e-21	1.77673e-21	1	1	0		A	97327401	A	A	97327401	3	1	89	1	0	0	0	0	1	0	0	0	15040	912	32	5	114	5	SPATA8	15	97327401	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4658021	97327401	5203991	5336	59167											
FAM169B	283777	broad.mit.edu	37	chr15	99023939	99023939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtcatcatcatccaaatttCtctccaatcttccaaaaata	14	14	1	12	0	5	0	3	0	2	0	9	0	8	0	3	0	0	0	3	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:99023939C>T	uc002buk.1	-	4	324	c.74G>A	c.(73-75)AGA>AAA	p.R25K		NM_182562	NP_872368	Q8N8A8	F169B_HUMAN	hypothetical protein LOC283777	25											0						ATCCAAATTTCTCTCCAATCT	0.393													23	74					0	0	1	0	0		T	99023939	T	T	99023939	3	4	89	1	0	0	0	0	1	0	0	0	5499	913	32	4	520	4	FAM169B	15	99023939	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1696538	99023939	3507453	5337	59168											
IGF1R	3480	broad.mit.edu	37	chr15	99456496	99456496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagtgagatcttgtacattCgcaccaatgcttcaggtatc	11	12	9	9	1	2	2	1	1	1	2	4	3	2	2	1	1	2	4	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:99456496C>T	uc002bul.2	+	8	1863	c.1813C>T	c.(1813-1815)CGC>TGC	p.R605C	IGF1R_uc010urq.1_Missense_Mutation_p.R605C|IGF1R_uc010bon.2_Missense_Mutation_p.R605C|IGF1R_uc010urr.1_Missense_Mutation_p.R55C	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	605	Fibronectin type-III 1.				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	CTTGTACATTCGCACCAATGC	0.537													33	82					0	0	1	0	0		T	99456496	T	T	99456496	3	4	89	1	0	0	0	0	1	0	0	0	7587	884	31	1	1843	1	IGF1R	15	99456496	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	432557	99456496	3074896	5338	59169											
SYNM	23336	broad.mit.edu	37	chr15	99671359	99671359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaaattaaaataccccacGaattccacacctccatgaag	18	7	4	12	1	0	2	0	1	0	1	2	3	2	2	5	0	1	0	5	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:99671359G>A	uc002bup.2	+	6	2914	c.2794G>A	c.(2794-2796)GAA>AAA	p.E932K	SYNM_uc002buo.2_Missense_Mutation_p.E932K|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	932	Tail.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						AATACCCCACGAATTCCACAC	0.547													7	7					0	0	1	0	0		A	99671359	A	A	99671359	3	1	89	1	0	0	0	0	1	0	0	0	15480	1059	37	1	2807	1	SYNM	15	99671359	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	214863	99671359	2860033	5339	59170											
ADAMTS17	170691	broad.mit.edu	37	chr15	100533305	100533305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcctgagtagtcctcgcagGcctcctcggctctcggcctc	4	9	11	17	3	1	1	0	1	1	0	7	1	3	1	5	3	1	3	5	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:100533305G>A	uc002bvv.1	-	20	2976	c.2897C>T	c.(2896-2898)GCC>GTC	p.A966V		NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	966	TSP type-1 4.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		GTCCTCGCAGGCCTCCTCGGC	0.622													26	74					0	0	1	0	0		A	100533305	A	A	100533305	3	1	89	1	0	0	0	0	1	0	0	0	262	1203	42	2	402	2	ADAMTS17	15	100533305	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	861946	100533305	1998087	5340	59171											
ADAMTS17	170691	broad.mit.edu	37	chr15	100672288	100672288	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacatgctccaggcgccccAcgggctccagtctccgtcca	6	6	10	19	3	1	0	0	0	1	0	5	0	4	0	6	2	1	3	6	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:100672288A>G	uc002bvv.1	-	12	1724	c.1645T>C	c.(1645-1647)TGG>CGG	p.W549R	ADAMTS17_uc002bvx.1_Missense_Mutation_p.W306R	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	549	TSP type-1 1.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		CAGGCGCCCCACGGGCTCCAG	0.672											OREG0023513	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	34					0	0	1	0	0		G	100672288	G	G	100672288	3	3	89	1	0	0	0	0	1	0	0	0	262	159	6	3	1686	3	ADAMTS17	15	100672288	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	138983	100672288	1859104	5341	59172											
ALDH1A3	220	broad.mit.edu	37	chr15	101432808	101432808	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagatactttgcagggTgggcagacaaaatccagggc	11	7	12	11	0	1	2	1	0	0	2	2	2	2	2	2	3	2	2	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:101432808T>C	uc002bwn.3	+	4	543	c.439T>C	c.(439-441)TGG>CGG	p.W147R	ALDH1A3_uc010bpb.2_Intron	NM_000693	NP_000684	P47895	AL1A3_HUMAN	aldehyde dehydrogenase 1A3	147					retinal metabolic process	cytoplasm	aldehyde dehydrogenase|protein homodimerization activity			central_nervous_system(2)|lung(1)|pancreas(1)	4	Lung NSC(78;0.00144)|all_lung(78;0.0018)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)		NADH(DB00157)|Vitamin A(DB00162)	CTTTGCAGGGTGGGCAGACAA	0.478													33	77					0	0	1	0	0		C	101432808	C	C	101432808	3	2	89	1	0	0	0	0	1	0	0	0	492	1696	59	3	453	3	ALDH1A3	15	101432808	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	760520	101432808	1098584	5342	59173											
CHSY1	22856	broad.mit.edu	37	chr15	101775542	101775542	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggggctcgctgctgttcaaActcctcaggaagttctccag	8	10	11	12	1	3	0	2	0	1	0	6	1	4	1	2	3	2	5	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:101775542A>C	uc002bwt.1	-	3	1044	c.561T>G	c.(559-561)AGT>AGG	p.S187R		NM_014918	NP_055733	Q86X52	CHSS1_HUMAN	chondroitin sulfate synthase 1	187	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity				0	Lung NSC(78;0.00217)|all_lung(78;0.00271)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGCTGTTCAAACTCCTCAGGA	0.517													44	57					0	0	1	0	0		C	101775542	C	C	101775542	3	2	89	1	0	0	0	0	1	0	0	0	3415	40	2	5	1855	5	CHSY1	15	101775542	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	342734	101775542	755850	5343	59174											
OR4F6	390648	broad.mit.edu	37	chr15	102346172	102346172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagctcccaagatgatttatGaccttttcaggaagcacaag	13	10	8	10	0	1	3	1	2	0	1	2	4	2	4	2	1	2	2	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:102346172G>A	uc010utr.1	+	1	250	c.250G>A	c.(250-252)GAC>AAC	p.D84N		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	84	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			GATGATTTATGACCTTTTCAG	0.473													93	215					0	0	1	0	0		A	102346172	A	A	102346172	3	1	89	1	0	0	0	0	1	0	0	0	11085	1290	45	4	252	4	OR4F6	15	102346172	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	570630	102346172	185220	5344	59175											
OR4F6	390648	broad.mit.edu	37	chr15	102346599	102346599	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttattttggtgactgttcAgaaaaaatcttcaggtggta	11	16	9	5	0	3	2	2	1	1	1	3	2	3	2	0	3	0	2	0	3	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:102346599A>C	uc010utr.1	+	1	677	c.677A>C	c.(676-678)CAG>CCG	p.Q226P		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	226	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			GTGACTGTTCAGAAAAAATCT	0.348													39	90					0	0	1	0	0		C	102346599	C	C	102346599	3	2	89	1	0	0	0	0	1	0	0	0	11085	188	7	5	679	5	OR4F6	15	102346599	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	427	102346599	184793	5345	59176											
OR4F6	390648	broad.mit.edu	37	chr15	102346821	102346821	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatggtggcaatgagaaGacgatgctctcagtttgtga	11	11	14	5	1	1	4	1	3	1	2	2	7	1	4	0	2	1	3	0	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr15:102346821G>T	uc010utr.1	+	1	899	c.899G>T	c.(898-900)AGA>ATA	p.R300I		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			GCAATGAGAAGACGATGCTCT	0.313													5	24					1.23904e-05	1.27901e-05	1	1	0		T	102346821	T	T	102346821	3	4	89	1	0	0	0	0	1	0	0	0	11085	942	33	5	901	5	OR4F6	15	102346821	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	222	102346821	184571	5346	59177											
RAB11FIP3	9727	broad.mit.edu	37	chr16	570496	570496	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagcagaacgaggagctgaAcgggcagatcattaccctca	13	5	13	10	2	2	3	2	1	0	2	2	6	2	5	1	3	5	3	1	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:570496A>G	uc002chf.2	+	13	2393	c.2054A>G	c.(2053-2055)AAC>AGC	p.N685S	RAB11FIP3_uc010uuf.1_Missense_Mutation_p.N389S|RAB11FIP3_uc010uug.1_Missense_Mutation_p.N420S	NM_014700	NP_055515	O75154	RFIP3_HUMAN	rab11-family interacting protein 3 isoform 1	685	Potential.				cell cycle|cytokinesis|endocytic recycling|protein transport	centrosome|cleavage furrow|midbody|recycling endosome membrane	ADP-ribosylation factor binding|calcium ion binding|protein homodimerization activity|Rab GTPase binding				0		Hepatocellular(16;0.0218)				GAGGAGCTGAACGGGCAGATC	0.597													38	77					0	0	1	0	0		G	570496	G	G	570496	3	3	89	1	0	0	0	0	1	0	0	0	12920	43	2	3	2123	3	RAB11FIP3	16	570496	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08		570496	89784257	5347	59178											
MSLNL	401827	broad.mit.edu	37	chr16	823249	823249	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactcaagctctgcacagtcGtagtgcaccaggaagaggtc	11	7	12	11	1	2	1	1	0	1	1	4	3	2	2	1	2	3	4	1	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:823249G>A	uc002cjz.1	-	10	2019	c.2019C>T	c.(2017-2019)TAC>TAT	p.Y673Y		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	322	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						CTGCACAGTCGTAGTGCACCA	0.637													18	54					0	0	1	0	0		A	823249	A	A	823249	2	1	89	1	0	0	0	0	0	0	0	1	9900	1140	40	1		1	MSLNL	16	823249	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	252753	823249	89531504	5348	59179											
MSLNL	401827	broad.mit.edu	37	chr16	832053	832053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gccaagggcagtgggtccagGactagctggagaggcgtgac	9	5	18	9	1	0	2	0	1	0	1	1	4	1	3	2	5	1	2	2	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:832053G>A	uc002cjz.1	-	2	70	c.70C>T	c.(70-72)CCT>TCT	p.P24S		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	504	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						GTGGGTCCAGGACTAGCTGGA	0.682													3	8					0	0	1	0	0		A	832053	A	A	832053	3	1	89	1	0	0	0	0	1	0	0	0	9900	1174	41	4	3151	4	MSLNL	16	832053	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8804	832053	89522700	5349	59180											
SSTR5	6755	broad.mit.edu	37	chr16	1129228	1129228	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcatgacgctggacggCgtcaaccagttcaccagtgt	8	9	12	12	3	3	1	3	1	0	0	3	2	3	2	2	3	1	2	2	3	1	1	rs35742768	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:1129228C>T	uc002ckq.2	+	1	448	c.360C>T	c.(358-360)GGC>GGT	p.G120G	LOC146336_uc002cko.2_5'Flank|LOC146336_uc002ckp.1_5'Flank	NM_001053	NP_001044	P35346	SSR5_HUMAN	somatostatin receptor 5	120	Helical; Name=3; (Potential).				negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			lung(1)	1		Hepatocellular(780;0.00369)			Octreotide(DB00104)	CGCTGGACGGCGTCAACCAGT	0.677													15	34					0	0	1	0	0		T	1129228	T	T	1129228	2	4	89	1	0	0	0	0	0	0	0	1	15226	755	27	1		1	SSTR5	16	1129228	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	297175	1129228	89225525	5350	59181											
C1QTNF8	390664	broad.mit.edu	37	chr16	1143888	1143888	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggagctgtgcaggccctcGcgccggcccacggagaaggc	6	4	16	15	5	0	1	0	0	0	1	2	3	0	2	3	5	2	2	3	5	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:1143888G>A	uc010uuw.1	-	4	646	c.372C>T	c.(370-372)CGC>CGT	p.R124R		NM_207419	NP_997302	P60827	C1QT8_HUMAN	C1q and tumor necrosis factor related protein 8	124	C1q.					collagen				skin(1)	1		Hepatocellular(780;0.00369)				GCAGGCCCTCGCGCCGGCCCA	0.761													8	14					0	0	1	0	0		A	1143888	A	A	1143888	2	1	89	1	0	0	0	0	0	0	0	1	1972	1074	38	1		1	C1QTNF8	16	1143888	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14660	1143888	89210865	5351	59182											
CACNA1H	8912	broad.mit.edu	37	chr16	1270018	1270018	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttggaagggaagattgAcagccctagggacaccctgg	10	8	13	10	0	0	2	0	1	0	1	1	5	1	5	3	4	1	0	3	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:1270018A>G	uc002cks.2	+	35	6334	c.6086A>G	c.(6085-6087)GAC>GGC	p.D2029G	CACNA1H_uc002ckt.2_Missense_Mutation_p.D2023G|CACNA1H_uc002cku.2_Missense_Mutation_p.D724G|CACNA1H_uc010brj.2_Missense_Mutation_p.D740G|CACNA1H_uc002ckv.2_Missense_Mutation_p.D718G	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	2029	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	GGGAAGATTGACAGCCCTAGG	0.662													3	9					0	0	1	0	0		G	1270018	G	G	1270018	3	3	89	1	0	0	0	0	1	0	0	0	2548	275	10	3	6220	3	CACNA1H	16	1270018	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	126130	1270018	89084735	5352	59183											
GNPTG	84572	broad.mit.edu	37	chr16	1412835	1412835	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggttggtaggctcataaaGaactctcaaaggagatcaaa	15	9	11	6	0	3	2	3	0	1	2	4	3	3	2	0	4	1	3	0	4	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:1412835G>T	uc002clm.2	+	10	786	c.751G>T	c.(751-753)GAA>TAA	p.E251*		NM_032520	NP_115909	Q9UJJ9	GNPTG_HUMAN	N-acetylglucosamine-1-phosphotransferase, gamma	251						extracellular region|Golgi apparatus	protein binding			central_nervous_system(1)	1		Hepatocellular(780;0.0893)				GGCTCATAAAGAACTCTCAAA	0.567													58	99					1.45723e-30	1.78306e-30	1	1	0		T	1412835	T	T	1412835	4	4	89	1	0	0	0	0	0	1	0	0	6561	943	33	5	789	5	GNPTG	16	1412835	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	142817	1412835	88941918	5353	59184											
SPSB3	90864	broad.mit.edu	37	chr16	1828538	1828538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcacagtcacagaaggactCgccggtcacgggcaccgcac	11	3	12	15	4	2	1	2	0	0	1	3	2	2	2	2	3	1	3	2	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:1828538C>T	uc002cmr.2	-	2	235	c.202G>A	c.(202-204)GAG>AAG	p.E68K	SPSB3_uc002cms.2_5'UTR|SPSB3_uc002cmt.2_5'UTR|SPSB3_uc002cmu.2_Missense_Mutation_p.E68K|SPSB3_uc002cmv.2_5'UTR|SPSB3_uc010uvm.1_Missense_Mutation_p.E123K	NM_080861	NP_543137	Q6PJ21	SPSB3_HUMAN	splA/ryanodine receptor domain and SOCS box	68					intracellular signal transduction						0						CAGAAGGACTCGCCGGTCACG	0.677													18	43					0	0	1	0	0		T	1828538	T	T	1828538	3	4	89	1	0	0	0	0	1	0	0	0	15139	893	31	1	885	1	SPSB3	16	1828538	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	415703	1828538	88526215	5354	59185											
NUBP2	10101	broad.mit.edu	37	chr16	1836838	1836838	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagggctgtgcaccagtgCgaccgcggctgggcacccgt	5	5	17	14	4	0	0	0	0	0	0	0	1	0	0	3	4	2	5	3	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:1836838C>T	uc002cmw.3	+	3	305	c.216C>T	c.(214-216)TGC>TGT	p.C72C	NUBP2_uc002cmx.3_Intron|NUBP2_uc010brx.2_Silent_p.C12C	NM_012225	NP_036357	Q9Y5Y2	NUBP2_HUMAN	nucleotide binding protein 2 (MinD homolog, E.	72						microtubule organizing center|nucleus	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding|protein binding				0						TGCACCAGTGCGACCGCGGCT	0.677													18	33					0	0	1	0	0		T	1836838	T	T	1836838	2	4	89	1	0	0	0	0	0	0	0	1	10735	776	27	1		1	NUBP2	16	1836838	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8300	1836838	88517915	5355	59186											
RPL3L	6123	broad.mit.edu	37	chr16	1994856	1994856	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctacaagtctcccgaggtCtccggcgtttccttctccag	5	11	9	16	3	3	0	0	0	3	0	7	1	4	0	5	2	1	1	5	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:1994856C>A	uc002cnh.2	-	10	1253	c.1206G>T	c.(1204-1206)GAG>GAT	p.E402D	SEPX1_uc010uvs.1_5'Flank	NM_005061	NP_005052	Q92901	RL3L_HUMAN	ribosomal protein L3-like	402					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	RNA binding|structural constituent of ribosome				0						CTCCCGAGGTCTCCGGCGTTT	0.607													74	137					1.25742e-37	1.55578e-37	1	1	0		A	1994856	A	A	1994856	3	1	89	1	0	0	0	0	1	0	0	0	13619	912	32	5	21	5	RPL3L	16	1994856	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	158018	1994856	88359897	5356	59187											
PKD1	5310	broad.mit.edu	37	chr16	2159869	2159869	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggggaagctatgggtggTaaatggctcggaggtctccc	7	10	17	7	1	1	0	0	0	1	0	3	2	1	2	1	7	1	3	1	7	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:2159869T>C	uc002cos.1	-	15	5508	c.5299A>G	c.(5299-5301)ACC>GCC	p.T1767A	PKD1_uc002cot.1_Missense_Mutation_p.T1767A	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1767	PKD 13.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CTATGGGTGGTAAATGGCTCG	0.627													13	39					0	0	1	0	0		C	2159869	C	C	2159869	3	2	89	1	0	0	0	0	1	0	0	0	11982	1638	57	3	7740	3	PKD1	16	2159869	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	165013	2159869	88194884	5357	59188											
CASKIN1	57524	broad.mit.edu	37	chr16	2239124	2239124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccggggctccagcagcgccGcacacatattgctgctgagg	7	6	14	14	3	0	1	0	1	0	0	1	1	1	1	3	3	4	5	3	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:2239124G>A	uc010bsg.1	-	6	553	c.521C>T	c.(520-522)GCG>GTG	p.A174V		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	174	ANK 4.				signal transduction	cytoplasm				skin(2)	2						CAGCAGCGCCGCACACATATT	0.657													24	28					0	0	1	0	0		A	2239124	A	A	2239124	3	1	89	1	0	0	0	0	1	0	0	0	2669	1087	38	1	3834	1	CASKIN1	16	2239124	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	79255	2239124	88115629	5358	59189											
C16orf79	283870	broad.mit.edu	37	chr16	2260149	2260149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcccgtcgaacagcaccGcccagctgtggttgctctga	6	9	11	15	3	2	1	0	1	2	0	3	2	2	1	3	1	5	4	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:2260149G>A	uc010bsh.2	-	3	491	c.314C>T	c.(313-315)GCG>GTG	p.A105V	C16orf79_uc002cpi.1_Missense_Mutation_p.A105V	NM_182563	NP_872369	Q6PL45	CP079_HUMAN	hypothetical protein LOC283870	105	BRICHOS.					integral to membrane				central_nervous_system(1)	1						GAACAGCACCGCCCAGCTGTG	0.706													9	15					0	0	1	0	0		A	2260149	A	A	2260149	3	1	89	1	0	0	0	0	1	0	0	0	1839	1087	38	1	388	1	C16orf79	16	2260149	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21025	2260149	88094604	5359	59190											
ABCA3	21	broad.mit.edu	37	chr16	2349486	2349486	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtccctcgtacaggttgagGttcaggtctctgacggccgc	5	11	13	12	3	2	2	1	2	1	0	5	2	3	2	2	4	1	3	2	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:2349486G>A	uc002cpy.1	-	14	2371	c.1659C>T	c.(1657-1659)AAC>AAT	p.N553N	ABCA3_uc010bsk.1_Silent_p.N495N|ABCA3_uc010bsl.1_Silent_p.N553N	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	553	ABC transporter 1.				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				ACAGGTTGAGGTTCAGGTCTC	0.652													58	124					0	0	1	0	0		A	2349486	A	A	2349486	2	1	89	1	0	0	0	0	0	0	0	1	33	1252	44	4		4	ABCA3	16	2349486	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	89337	2349486	88005267	5360	59191											
ABCA3	21	broad.mit.edu	37	chr16	2367685	2367685	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggtcatgaaggaggcggcGatgaggaggaagaggaagaa	15	3	20	3	2	1	4	1	2	0	2	1	9	1	8	0	7	0	0	0	7	4	0	rs35161127	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:2367685G>A	uc002cpy.1	-	9	1666	c.954C>T	c.(952-954)ATC>ATT	p.I318I	ABCA3_uc010bsk.1_Silent_p.I318I|ABCA3_uc010bsl.1_Silent_p.I318I	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	318	Helical; (Potential).				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				AGGAGGCGGCGATGAGGAGGA	0.627													27	68					0	0	1	0	0		A	2367685	A	A	2367685	2	1	89	1	0	0	0	0	0	0	0	1	33	1048	37	1		1	ABCA3	16	2367685	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	18199	2367685	87987068	5361	59192											
ABCA3	21	broad.mit.edu	37	chr16	2369629	2369629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcacgggcaatggtgaGcgcggtgtaggtgaagctga	10	6	18	7	3	0	3	0	3	0	0	0	4	0	3	0	4	3	4	0	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:2369629G>A	uc002cpy.1	-	8	1538	c.826C>T	c.(826-828)CTC>TTC	p.L276F	ABCA3_uc010bsk.1_Missense_Mutation_p.L276F|ABCA3_uc010bsl.1_Missense_Mutation_p.L276F	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	276	Helical; (Potential).				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				GCAATGGTGAGCGCGGTGTAG	0.622													24	67					0	0	1	0	0		A	2369629	A	A	2369629	3	1	89	1	0	0	0	0	1	0	0	0	33	971	34	2	4392	2	ABCA3	16	2369629	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1944	2369629	87985124	5362	59193											
CCNF	899	broad.mit.edu	37	chr16	2481197	2481197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaataaggaggaggccccGaaacctgaccatcttgagtc	14	6	11	10	1	1	3	0	2	1	1	2	6	1	5	4	3	1	0	4	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:2481197G>A	uc002cqd.1	+	2	171	c.83G>A	c.(82-84)CGA>CAA	p.R28Q	CCNF_uc002cqe.1_5'UTR	NM_001761	NP_001752	P41002	CCNF_HUMAN	cyclin F	28	Nuclear localization signal 1.				cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)				AGGAGGCCCCGAAACCTGACC	0.488													24	74					0	0	1	0	0		A	2481197	A	A	2481197	3	1	89	1	0	0	0	0	1	0	0	0	2925	1058	37	1	89	1	CCNF	16	2481197	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	111568	2481197	87873556	5363	59194											
CCNF	899	broad.mit.edu	37	chr16	2503465	2503465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtgacacaagacagccccGaccccccgactttcctcagc	10	5	8	18	2	1	2	1	1	0	1	2	5	2	2	6	0	2	0	6	0	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:2503465G>A	uc002cqd.1	+	15	1730	c.1642G>A	c.(1642-1644)GAC>AAC	p.D548N	CCNF_uc002cqe.1_Missense_Mutation_p.D240N	NM_001761	NP_001752	P41002	CCNF_HUMAN	cyclin F	548					cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)				AGACAGCCCCGACCCCCCGAC	0.617													25	46					0	0	1	0	0		A	2503465	A	A	2503465	3	1	89	1	0	0	0	0	1	0	0	0	2925	1058	37	1	1700	1	CCNF	16	2503465	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	22268	2503465	87851288	5364	59195											
PDPK1	5170	broad.mit.edu	37	chr16	2627488	2627488	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagctgctcacggagaagTccgcctgtaagaggtaacca	12	6	12	11	2	1	3	1	0	0	3	2	4	2	3	3	2	3	4	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:2627488T>G	uc002cqs.2	+	7	916	c.772T>G	c.(772-774)TCC>GCC	p.S258A	PDPK1_uc002cqt.2_Missense_Mutation_p.S131A|PDPK1_uc010bsn.2_Missense_Mutation_p.S258A|PDPK1_uc002cqu.2_Missense_Mutation_p.S231A|PDPK1_uc002cqv.1_Missense_Mutation_p.S231A	NM_002613	NP_002604	O15530	PDPK1_HUMAN	3-phosphoinositide dependent protein kinase-1	258	Protein kinase.				actin cytoskeleton organization|activation of protein kinase B activity|insulin receptor signaling pathway|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|peptidyl-threonine phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|synaptic transmission|T cell costimulation|T cell receptor signaling pathway	cytosol|nucleoplasm|plasma membrane	3-phosphoinositide-dependent protein kinase activity|ATP binding			central_nervous_system(2)|ovary(1)	3		Ovarian(90;0.17)			Celecoxib(DB00482)	CACGGAGAAGTCCGCCTGTAA	0.483													7	13					0	0	1	0	0		G	2627488	G	G	2627488	3	3	89	1	0	0	0	0	1	0	0	0	11706	1667	58	5	798	5	PDPK1	16	2627488	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	124023	2627488	87727265	5365	59196											
SRRM2	23524	broad.mit.edu	37	chr16	2812791	2812791	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaatgaagaaatctcgcatTtcttcaaggcggagcaggtc	13	9	11	8	2	3	2	1	1	2	1	5	4	3	3	0	3	1	2	0	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:2812791T>G	uc002crk.2	+	11	2811	c.2262T>G	c.(2260-2262)ATT>ATG	p.I754M	SRRM2_uc002crj.1_Missense_Mutation_p.I658M|SRRM2_uc002crl.1_Missense_Mutation_p.I754M|SRRM2_uc010bsu.1_Missense_Mutation_p.I658M	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	754	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						AATCTCGCATTTCTTCAAGGC	0.488													66	139					0	0	1	0	0		G	2812791	G	G	2812791	3	3	89	1	0	0	0	0	1	0	0	0	15194	1829	64	5	2300	5	SRRM2	16	2812791	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	185303	2812791	87541962	5366	59197											
SRRM2	23524	broad.mit.edu	37	chr16	2817372	2817372	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcggtggcaccttcggcTgtgaacctggctgaccctcg	6	8	13	14	3	0	2	0	2	0	0	2	2	0	2	3	4	2	3	3	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:2817372T>C	uc002crk.2	+	11	7392	c.6843T>C	c.(6841-6843)GCT>GCC	p.A2281A	SRRM2_uc002crj.1_Silent_p.A2185A|SRRM2_uc002crl.1_Silent_p.A2281A|SRRM2_uc010bsu.1_Silent_p.A2185A	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2281	Ala-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CACCTTCGGCTGTGAACCTGG	0.632													101	152					0	0	1	0	0		C	2817372	C	C	2817372	2	2	89	1	0	0	0	0	0	0	0	1	15194	1567	55	3		3	SRRM2	16	2817372	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4581	2817372	87537381	5367	59198											
CLDN6	9074	broad.mit.edu	37	chr16	3065372	3065372	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccacgtcagacgtaattCttggtagggtactcagaggg	9	10	12	10	2	3	2	2	0	1	2	4	2	4	2	2	3	1	3	2	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:3065372C>A	uc002csu.3	-	2	711	c.651G>T	c.(649-651)AAG>AAT	p.K217N		NM_021195	NP_067018	P56747	CLD6_HUMAN	claudin 6	217	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						AGACGTAATTCTTGGTAGGGT	0.617													40	63					6.2361e-21	7.37493e-21	1	1	0		A	3065372	A	A	3065372	3	1	89	1	0	0	0	0	1	0	0	0	3492	912	32	5	15	5	CLDN6	16	3065372	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	248000	3065372	87289381	5368	59199											
ZNF263	10127	broad.mit.edu	37	chr16	3340119	3340119	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacctcgtcattcacgaaaGaactcatgagagagagagac	16	6	9	10	2	3	4	3	1	0	4	4	8	3	4	1	0	1	0	1	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:3340119G>T	uc002cuq.2	+	6	1945	c.1613G>T	c.(1612-1614)AGA>ATA	p.R538I	ZNF263_uc010uww.1_Missense_Mutation_p.R186I|ZNF263_uc002cur.2_Missense_Mutation_p.R186I	NM_005741	NP_005732	O14978	ZN263_HUMAN	zinc finger protein 263	538	C2H2-type 5.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(3)|ovary(1)	4						ATTCACGAAAGAACTCATGAG	0.507													19	40					1.67942e-08	1.78672e-08	1	1	0		T	3340119	T	T	3340119	3	4	89	1	0	0	0	0	1	0	0	0	17828	942	33	5	1635	5	ZNF263	16	3340119	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	274747	3340119	87014634	5369	59200											
TIGD7	91151	broad.mit.edu	37	chr16	3349373	3349373	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctataatccccatgttctaaGccttgaaaatcatattcagg	13	13	5	10	0	3	1	2	1	1	0	4	1	4	1	3	1	1	1	3	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:3349373G>A	uc002cus.2	-	1	2028	c.1242C>T	c.(1240-1242)GGC>GGT	p.G414G	ZNF263_uc002cur.2_3'UTR	NM_033208	NP_149985	Q6NT04	TIGD7_HUMAN	tigger transposable element derived 7	414					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						CATGTTCTAAGCCTTGAAAAT	0.353													91	172					0	0	1	0	0		A	3349373	A	A	3349373	2	1	89	1	0	0	0	0	0	0	0	1	15926	958	34	2		2	TIGD7	16	3349373	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9254	3349373	87005380	5370	59201											
TIGD7	91151	broad.mit.edu	37	chr16	3349597	3349597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcttccatctatacagccGtttgcagctcaagatcacac	10	12	6	13	1	3	1	2	0	1	1	4	1	4	1	2	0	5	4	2	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:3349597G>A	uc002cus.2	-	1	1804	c.1018C>T	c.(1018-1020)CGG>TGG	p.R340W	ZNF263_uc002cur.2_3'UTR	NM_033208	NP_149985	Q6NT04	TIGD7_HUMAN	tigger transposable element derived 7	340	DDE.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						CTATACAGCCGTTTGCAGCTC	0.274													24	53					0	0	1	0	0		A	3349597	A	A	3349597	3	1	89	1	0	0	0	0	1	0	0	0	15926	1144	40	1	635	1	TIGD7	16	3349597	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	224	3349597	87005156	5371	59202											
ZNF597	146434	broad.mit.edu	37	chr16	3486471	3486471	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttatgagtaatgagatgcaAattcgacttgaaagttttcc	13	14	8	6	1	0	3	0	3	0	1	2	5	1	3	1	0	1	3	1	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:3486471A>G	uc002cvd.2	-	4	1412	c.1228T>C	c.(1228-1230)TTG>CTG	p.L410L		NM_152457	NP_689670	Q96LX8	ZN597_HUMAN	zinc finger protein 597	410	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGAGATGCAAATTCGACTTG	0.378													17	36					0	0	1	0	0		G	3486471	G	G	3486471	2	3	89	1	0	0	0	0	0	0	0	1	18052	11	1	3		3	ZNF597	16	3486471	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	136874	3486471	86868282	5372	59203											
BTBD12	84464	broad.mit.edu	37	chr16	3644567	3644567	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgggttattgaccatggCgccaaagtcagcaaccagca	11	8	12	10	1	1	1	1	1	0	0	1	1	1	1	3	2	3	3	3	2	3	2	rs115866745	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:3644567C>T	uc002cvp.2	-	10	2674	c.2047G>A	c.(2047-2049)GCC>ACC	p.A683T		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	683					DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TTGACCATGGCGCCAAAGTCA	0.592								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				13	37					0	0	1	0	0		T	3644567	T	T	3644567	3	4	89	1	0	0	0	0	1	0	0	0	1543	768	27	1	3481	1	BTBD12	16	3644567	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	158096	3644567	86710186	5373	59204											
TRAP1	10131	broad.mit.edu	37	chr16	3713498	3713498	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtctccacagagatcagcttCttcttgtcaaactcacgaag	11	11	7	12	1	6	1	3	0	3	1	7	3	6	1	1	0	2	1	1	0	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:3713498C>T	uc002cvt.3	-	14	1724	c.1635G>A	c.(1633-1635)AAG>AAA	p.K545K	TRAP1_uc002cvs.2_Silent_p.K336K|TRAP1_uc010uxf.1_Silent_p.K492K|uc002cvu.2_RNA	NM_016292	NP_057376	Q12931	TRAP1_HUMAN	TNF receptor-associated protein 1 precursor	545					cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)				AGATCAGCTTCTTCTTGTCAA	0.552													40	72					0	0	1	0	0		T	3713498	T	T	3713498	2	4	89	1	0	0	0	0	0	0	0	1	16481	912	32	4		4	TRAP1	16	3713498	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	68931	3713498	86641255	5374	59205											
CREBBP	1387	broad.mit.edu	37	chr16	3807913	3807913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatagactcgggatgtcttgCgattatagagccaggcattg	10	12	12	7	2	1	2	0	0	1	2	2	4	1	3	1	2	2	1	1	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:3807913C>T	uc002cvv.2	-	18	3710	c.3506G>A	c.(3505-3507)CGC>CAC	p.R1169H	CREBBP_uc002cvw.2_Missense_Mutation_p.R1131H	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1169	Bromo.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GGATGTCTTGCGATTATAGAG	0.512			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				33	45					0	0	1	0	0		T	3807913	T	T	3807913	3	4	89	1	0	0	0	0	1	0	0	0	3864	768	27	1	3878	1	CREBBP	16	3807913	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	94415	3807913	86546840	5375	59206											
CREBBP	1387	broad.mit.edu	37	chr16	3900321	3900321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccatgcctcctgcctgtgCggtgttcagtcccgcgtgac	3	10	13	15	3	1	1	1	1	0	0	3	1	3	1	5	2	3	1	5	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:3900321C>T	uc002cvv.2	-	2	979	c.775G>A	c.(775-777)GCA>ACA	p.A259T	CREBBP_uc002cvw.2_Missense_Mutation_p.A259T	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	259	Interaction with SRCAP.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		CCTGCCTGTGCGGTGTTCAGT	0.577			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				33	73					0	0	1	0	0		T	3900321	T	T	3900321	3	4	89	1	0	0	0	0	1	0	0	0	3864	768	27	1	6673	1	CREBBP	16	3900321	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	92408	3900321	86454432	5376	59207											
ADCY9	115	broad.mit.edu	37	chr16	4015871	4015871	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctatggctttgccaaatcGacccctttcttcggctttga	6	15	7	13	2	2	1	0	1	2	0	4	2	2	1	3	2	1	2	3	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:4015871G>T	uc002cvx.2	-	11	4506	c.3967C>A	c.(3967-3969)CGA>AGA	p.R1323R		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	1323	Cytoplasmic (Potential).			QHQLSISPDIRVQVDGSIGRSPTDEIANLVPSVQYVDKTSL GSDSSTQAKDAHLSPKRPWKEPVKAEERGRFGKAIEKDDCD ETGIEEANELTKLNVSKSV -> APAVHLPRHPRPGGWQHR TVSHRRDCQPGAFCPVCGQDISGF (in Ref. 1; AAC24201).	activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						TTGCCAAATCGACCCCTTTCT	0.537													35	73					4.34311e-12	4.79046e-12	1	1	0		T	4015871	T	T	4015871	2	4	89	1	0	0	0	0	0	0	0	1	301	1066	37	5		5	ADCY9	16	4015871	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	115550	4015871	86338882	5377	59208											
ADCY9	115	broad.mit.edu	37	chr16	4016451	4016451	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcaggtgctcctgcgggtgGctgccgtcctgggcctgcgc	1	9	17	14	3	0	0	0	0	0	0	2	0	2	0	4	4	5	3	4	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:4016451G>A	uc002cvx.2	-	11	3926	c.3387C>T	c.(3385-3387)AGC>AGT	p.S1129S		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	1129	Guanylate cyclase 2.|Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						CCTGCGGGTGGCTGCCGTCCT	0.587													32	55					0	0	1	0	0		A	4016451	A	A	4016451	2	1	89	1	0	0	0	0	0	0	0	1	301	1194	42	2		2	ADCY9	16	4016451	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	580	4016451	86338302	5378	59209											
GLIS2	84662	broad.mit.edu	37	chr16	4383520	4383520	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctccagtgcccagtgcctcGgtaaggaggggtgagagttc	7	8	15	11	1	0	1	0	1	0	1	3	3	1	2	4	4	2	2	4	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:4383520G>A	uc002cwc.1	+	2	402	c.345G>A	c.(343-345)TCG>TCA	p.S115S		NM_032575	NP_115964	Q9BZE0	GLIS2_HUMAN	GLIS family zinc finger 2	115	Transcription activation (By similarity).|Interaction with CTNND1 (By similarity).				cell differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development	cytoplasm|nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|transcription regulatory region DNA binding|zinc ion binding				0						CCAGTGCCTCGGTAAGGAGGG	0.453													15	17					0	0	1	0	0		A	4383520	A	A	4383520	2	1	89	1	0	0	0	0	0	0	0	1	6461	1130	39	1		1	GLIS2	16	4383520	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	367069	4383520	85971233	5379	59210											
NAGPA	51172	broad.mit.edu	37	chr16	5081783	5081783	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacactctgtggcttggctCtcgttgatgtagatgcttcc	5	15	10	11	1	3	2	1	1	2	1	5	2	4	2	1	2	1	5	1	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:5081783C>A	uc002cyg.2	-	3	666	c.645G>T	c.(643-645)GAG>GAT	p.E215D	ALG1_uc002cyj.2_5'Flank|NAGPA_uc010buc.2_5'Flank|NAGPA_uc002cyf.2_Missense_Mutation_p.E73D|NAGPA_uc002cyh.2_RNA|NAGPA_uc002cyi.2_Intron|NAGPA_uc010uxx.1_3'UTR	NM_016256	NP_057340	Q9UK23	NAGPA_HUMAN	N-acetylglucosamine-1-phosphodiester	215	Lumenal (Potential).				carbohydrate metabolic process|lysosome organization|protein modification process|protein targeting to lysosome	Golgi cisterna membrane|integral to membrane	N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase activity				0					N-Acetyl-D-glucosamine(DB00141)	TGGCTTGGCTCTCGTTGATGT	0.572													31	222					2.14196e-07	2.24787e-07	1	1	0		A	5081783	A	A	5081783	3	1	89	1	0	0	0	0	1	0	0	0	10162	912	32	5	934	5	NAGPA	16	5081783	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	698263	5081783	85272970	5380	59211											
C16orf89	146556	broad.mit.edu	37	chr16	5105290	5105290	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtttctgccagctgagAatggcctccagccaccggag	7	9	12	13	1	1	1	0	1	1	1	2	3	2	2	5	2	4	3	5	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:5105290A>C	uc010bud.2	-	6	1027	c.939T>G	c.(937-939)ATT>ATG	p.I313M	ALG1_uc002cyj.2_Intron|C16orf89_uc002cyk.3_Missense_Mutation_p.I313M	NM_152459	NP_689672	Q6UX73	CP089_HUMAN	hypothetical protein LOC146556 isoform 1	275						extracellular region				ovary(1)|skin(1)	2						GCCAGCTGAGAATGGCCTCCA	0.637													12	16					0	0	1	0	0		C	5105290	C	C	5105290	3	2	89	1	0	0	0	0	1	0	0	0	1845	242	9	5	530	5	C16orf89	16	5105290	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	23507	5105290	85249463	5381	59212											
A2BP1	54715	broad.mit.edu	37	chr16	7759064	7759064	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttcctttcagttacggAcgagtttatgctgccgaccc	7	15	8	11	3	1	0	1	0	0	0	2	3	2	1	3	1	3	3	3	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:7759064A>G	uc002cys.2	+	15	1990	c.1002A>G	c.(1000-1002)GGA>GGG	p.G334G	A2BP1_uc002cyt.2_Silent_p.G307G|A2BP1_uc010uxz.1_Silent_p.G377G|A2BP1_uc010uya.1_Missense_Mutation_p.D309G|A2BP1_uc010uyb.1_Silent_p.G334G|A2BP1_uc002cyw.2_Missense_Mutation_p.D373G|A2BP1_uc002cyy.2_Silent_p.G355G|A2BP1_uc002cyx.2_Silent_p.G355G|A2BP1_uc010uyc.1_Silent_p.G328G	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	334					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		TCAGTTACGGACGAGTTTATG	0.458													23	60					0	0	1	0	0		G	7759064	G	G	7759064	2	3	89	1	0	0	0	0	0	0	0	1	3	275	10	3		3	A2BP1	16	7759064	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2653774	7759064	82595689	5382	59213											
USP7	7874	broad.mit.edu	37	chr16	8988445	8988445	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcaaatttacttcatacTcgtcttcatttatgtactgg	9	19	4	9	1	4	0	3	0	1	0	5	0	4	0	0	1	3	1	0	1	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:8988445T>G	uc002czl.2	-	30	3363	c.3164A>C	c.(3163-3165)GAG>GCG	p.E1055A	USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.E956A|USP7_uc002czk.2_Missense_Mutation_p.E1039A	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	1055					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TACTTCATACTCGTCTTCATT	0.423													28	36					0	0	1	0	0		G	8988445	G	G	8988445	3	3	89	1	0	0	0	0	1	0	0	0	17114	1551	54	5	152	5	USP7	16	8988445	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1229381	8988445	81366308	5383	59214											
USP7	7874	broad.mit.edu	37	chr16	9000408	9000408	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgttttttgcaaaaattCatcaagtggtaactgctctg	11	16	7	7	0	4	0	2	0	2	0	4	0	4	0	0	1	3	4	0	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:9000408C>A	uc002czl.2	-	13	1502	c.1303G>T	c.(1303-1305)GAA>TAA	p.E435*	USP7_uc010uyk.1_Nonsense_Mutation_p.E336*|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Nonsense_Mutation_p.E336*|USP7_uc002czk.2_Nonsense_Mutation_p.E419*|USP7_uc010uyl.1_RNA	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	435					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TGCAAAAATTCATCAAGTGGT	0.318													17	38					4.7546e-09	5.08881e-09	1	1	0		A	9000408	A	A	9000408	4	1	89	1	0	0	0	0	0	1	0	0	17114	835	29	5	2081	5	USP7	16	9000408	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11963	9000408	81354345	5384	59215											
C16orf72	29035	broad.mit.edu	37	chr16	9196898	9196898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattcagattggctatcagcGacgcaataaggatgtgttgg	12	11	12	6	2	2	1	2	0	0	1	2	3	2	2	0	3	1	3	0	3	4	5	rs137974792	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:9196898G>A	uc002czm.2	+	3	730	c.365G>A	c.(364-366)CGA>CAA	p.R122Q		NM_014117	NP_054836	Q14CZ0	CP072_HUMAN	hypothetical protein LOC29035	122								p.R122Q(1)		large_intestine(1)	1						GGCTATCAGCGACGCAATAAG	0.393													33	65					0	0	1	0	0		A	9196898	A	A	9196898	3	1	89	1	0	0	0	0	1	0	0	0	1834	1058	37	1	375	1	C16orf72	16	9196898	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	196490	9196898	81157855	5385	59216											
GRIN2A	2903	broad.mit.edu	37	chr16	9916169	9916169	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctactcctttctgattaaatTtggtcatgtactgatgcatg	9	17	7	8	0	2	2	1	2	1	0	3	2	3	2	1	1	3	2	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:9916169T>G	uc002czo.3	-	10	2668	c.2120A>C	c.(2119-2121)AAA>ACA	p.K707T	GRIN2A_uc010uym.1_Missense_Mutation_p.K707T|GRIN2A_uc010uyn.1_Missense_Mutation_p.K550T|GRIN2A_uc002czr.3_Missense_Mutation_p.K707T	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	707	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CTGATTAAATTTGGTCATGTA	0.463													41	66					0	0	1	0	0		G	9916169	G	G	9916169	3	3	89	1	0	0	0	0	1	0	0	0	6795	1841	64	5	2290	5	GRIN2A	16	9916169	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	719271	9916169	80438584	5386	59217											
NUBP1	4682	broad.mit.edu	37	chr16	10861865	10861865	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccagattccccagccacgTtagcctacagaagtataatt	12	9	6	14	1	0	2	0	0	0	2	1	2	1	2	6	0	3	2	6	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:10861865T>C	uc002daa.1	+	10	903	c.880T>C	c.(880-882)TTA>CTA	p.L294L	FAM18A_uc010uyr.1_Intron|FAM18A_uc010uys.1_Intron|FAM18A_uc010uyt.1_Intron|FAM18A_uc010bun.2_Intron|FAM18A_uc010uyu.1_Intron|FAM18A_uc002dad.3_Intron|FAM18A_uc010buo.1_3'UTR|FAM18A_uc002daf.1_RNA|NUBP1_uc002dab.1_Silent_p.L283L|FAM18A_uc002dae.1_3'UTR	NM_002484	NP_002475	P53384	NUBP1_HUMAN	nucleotide binding protein 1	294					cell growth|cellular iron ion homeostasis|iron-sulfur cluster assembly	cytosol	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding|nucleoside-triphosphatase activity|protein binding			ovary(1)|skin(1)	2						CCCAGCCACGTTAGCCTACAG	0.443													38	69					0	0	1	0	0		C	10861865	C	C	10861865	2	2	89	1	0	0	0	0	0	0	0	1	10734	1722	60	3		3	NUBP1	16	10861865	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	945696	10861865	79492888	5387	59218											
CIITA	4261	broad.mit.edu	37	chr16	10998602	10998602	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgcttctccatctccagaGcacaagacgtcccccaccca	9	7	5	20	1	2	2	0	0	2	2	5	2	3	2	6	0	2	2	6	0	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:10998602G>A	uc002dai.3	+	10	1072	c.939G>A	c.(937-939)GAG>GAA	p.E313E	CIITA_uc002daj.3_Silent_p.E314E|CIITA_uc002dak.3_Silent_p.E264E|CIITA_uc002dag.2_Silent_p.E313E|CIITA_uc002dah.2_Silent_p.E265E|CIITA_uc010bup.1_Silent_p.E313E	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	313					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						CATCTCCAGAGCACAAGACGT	0.602			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								63	99					0	0	1	0	0		A	10998602	A	A	10998602	2	1	89	1	0	0	0	0	0	0	0	1	3431	985	34	2		2	CIITA	16	10998602	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	136737	10998602	79356151	5388	59219											
CIITA	4261	broad.mit.edu	37	chr16	11000864	11000864	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacggcttcgaggagctggaAgcgcaagatggcttcctgca	9	7	15	10	3	0	1	0	0	0	1	2	5	1	3	1	4	3	5	1	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:11000864A>C	uc002dai.3	+	11	1648	c.1515A>C	c.(1513-1515)GAA>GAC	p.E505D	CIITA_uc002daj.3_Missense_Mutation_p.E506D|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Missense_Mutation_p.E505D|CIITA_uc002dah.2_Missense_Mutation_p.E457D|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	505	NACHT.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						AGGAGCTGGAAGCGCAAGATG	0.647			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								41	73					0	0	1	0	0		C	11000864	C	C	11000864	3	2	89	1	0	0	0	0	1	0	0	0	3431	69	3	5	1557	5	CIITA	16	11000864	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2262	11000864	79353889	5389	59220											
CLEC16A	23274	broad.mit.edu	37	chr16	11071150	11071150	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgcactatctcaatgAcatcctgatcatcaactgtg	11	11	5	14	0	3	2	3	2	1	0	5	2	4	2	3	0	2	1	3	0	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:11071150A>G	uc002dao.2	+	8	1027	c.797A>G	c.(796-798)GAC>GGC	p.D266G	CLEC16A_uc002dan.3_Missense_Mutation_p.D264G	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	266										ovary(1)|central_nervous_system(1)	2						TATCTCAATGACATCCTGATC	0.537													20	56					0	0	1	0	0		G	11071150	G	G	11071150	3	3	89	1	0	0	0	0	1	0	0	0	3503	275	10	3	823	3	CLEC16A	16	11071150	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	70286	11071150	79283603	5390	59221											
C16orf75	116028	broad.mit.edu	37	chr16	11444642	11444642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagatttacacaggaatattCcttagagtatgttggaactg	14	13	9	5	0	0	2	0	0	0	2	1	4	1	4	1	2	2	2	1	2	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:11444642C>T	uc002daw.1	+	2	457	c.439C>T	c.(439-441)CCT>TCT	p.P147S	C16orf75_uc002daq.1_RNA	NM_152308	NP_689521	Q96E14	RMI2_HUMAN	RecQ-mediated genome instability protein 2	147					DNA replication	nucleus	DNA binding				0						CAGGAATATTCCTTAGAGTAT	0.398			T	CIITA	PMBL|Hodgkin Lymphona|								32	39					0	0	1	0	0		T	11444642	T	T	11444642	3	4	89	1	0	0	0	0	1	0	0	0	1837	855	30	4	445	4	C16orf75	16	11444642	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	373492	11444642	78910111	5391	59222											
ZC3H7A	29066	broad.mit.edu	37	chr16	11862354	11862354	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaaactacctggtccatTcatctgcaagaaaaataaga	19	8	5	9	0	2	2	1	0	1	2	3	2	3	2	2	1	4	1	2	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:11862354T>C	uc002dbk.2	-	11	1375	c.1177A>G	c.(1177-1179)AAT>GAT	p.N393D	ZC3H7A_uc002dbj.2_5'Flank|ZC3H7A_uc002dbl.2_Missense_Mutation_p.N393D|ZC3H7A_uc002dbm.1_Missense_Mutation_p.N303D	NM_014153	NP_054872	Q8IWR0	Z3H7A_HUMAN	zinc finger CCCH-type containing 7A	393						nucleus	nucleic acid binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						CCTGGTCCATTCATCTGCAAG	0.328													23	41					0	0	1	0	0		C	11862354	C	C	11862354	3	2	89	1	0	0	0	0	1	0	0	0	17597	1783	62	3	1786	3	ZC3H7A	16	11862354	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	417712	11862354	78492399	5392	59223											
RSL1D1	26156	broad.mit.edu	37	chr16	11931697	11931697	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattttttgggggtgtgggAagcttttctcacagatttac	7	16	11	7	0	1	1	1	0	1	1	2	2	1	2	1	3	2	1	1	3	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:11931697A>G	uc002dbp.1	-	9	1493	c.1420T>C	c.(1420-1422)TCC>CCC	p.S474P	RSL1D1_uc010buv.1_Missense_Mutation_p.S473P|RSL1D1_uc010uyw.1_Missense_Mutation_p.S254P	NM_015659	NP_056474	O76021	RL1D1_HUMAN	ribosomal L1 domain containing 1	474					regulation of protein localization|translation	large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						GGGGTGTGGGAAGCTTTTCTC	0.343													84	167					0	0	1	0	0		G	11931697	G	G	11931697	3	3	89	1	0	0	0	0	1	0	0	0	13725	246	9	3	56	3	RSL1D1	16	11931697	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	69343	11931697	78423056	5393	59224											
SNX29	92017	broad.mit.edu	37	chr16	12293490	12293490	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcaaagtccaactgaagaAatatgtaggagctgtccaga	15	8	10	8	0	1	3	1	1	0	2	3	4	3	4	2	1	2	3	2	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:12293490A>C	uc002dby.3	+	7	529	c.473A>C	c.(472-474)AAA>ACA	p.K158T	SNX29_uc010uyx.1_Missense_Mutation_p.K185T	NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	158	Potential.				cell communication		phosphatidylinositol binding			ovary(1)	1						CAACTGAAGAAATATGTAGGA	0.478													6	15					0	0	1	0	0		C	12293490	C	C	12293490	3	2	89	1	0	0	0	0	1	0	0	0	14923	14	1	5	495	5	SNX29	16	12293490	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	361793	12293490	78061263	5394	59225											
CPPED1	55313	broad.mit.edu	37	chr16	12758897	12758897	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcatccaatggcagatGacaccaccatgtcgaggttc	10	8	11	12	1	0	2	0	1	0	1	3	3	1	2	3	3	0	4	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:12758897G>T	uc002dca.3	-	4	902	c.791C>A	c.(790-792)TCA>TAA	p.S264*	CPPED1_uc002dcb.3_Nonsense_Mutation_p.S122*|CPPED1_uc002dbz.3_RNA	NM_018340	NP_060810	Q9BRF8	CPPED_HUMAN	calcineurin-like phosphoesterase domain	264							hydrolase activity|metal ion binding				0						AATGGCAGATGACACCACCAT	0.547													32	53					3.80469e-20	4.48655e-20	1	1	0		T	12758897	T	T	12758897	4	4	89	1	0	0	0	0	0	1	0	0	3825	1294	45	5	157	5	CPPED1	16	12758897	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	465407	12758897	77595856	5395	59226											
CPPED1	55313	broad.mit.edu	37	chr16	12798748	12798748	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgacccagaagctgaagtAgtcatctccccaagtccggc	10	6	9	16	2	2	2	1	1	1	1	4	3	3	2	5	1	1	2	5	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:12798748A>G	uc002dca.3	-	3	559	c.448T>C	c.(448-450)TAC>CAC	p.Y150H	CPPED1_uc002dcb.3_Intron|CPPED1_uc002dbz.3_RNA	NM_018340	NP_060810	Q9BRF8	CPPED_HUMAN	calcineurin-like phosphoesterase domain	150							hydrolase activity|metal ion binding				0						AAGCTGAAGTAGTCATCTCCC	0.612													33	50					0	0	1	0	0		G	12798748	G	G	12798748	3	3	89	1	0	0	0	0	1	0	0	0	3825	420	15	3	504	3	CPPED1	16	12798748	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	39851	12798748	77556005	5396	59227											
ERCC4	2072	broad.mit.edu	37	chr16	14029335	14029335	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtcgaggaaggatatcgtCgagaaataagcagtagccca	15	7	12	7	3	0	1	0	0	0	1	3	5	0	3	1	2	2	2	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:14029335C>T	uc002dce.2	+	8	1555	c.1546C>T	c.(1546-1548)CGA>TGA	p.R516*	ERCC4_uc010uyz.1_Nonsense_Mutation_p.R66*	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	516					double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						AGGATATCGTCGAGAAATAAG	0.413			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				26	52					0	0	1	0	0		T	14029335	T	T	14029335	4	4	89	1	0	0	0	0	0	1	0	0	5223	876	31	1	1576	1	ERCC4	16	14029335	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1230587	14029335	76325418	5397	59228											
MKL2	57496	broad.mit.edu	37	chr16	14307444	14307444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agattcggagtcgaccagatCgttctgaacttgtcaggatg	10	11	12	8	3	2	3	1	1	1	2	5	6	2	5	1	2	1	1	1	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:14307444C>T	uc010uza.1	+	6	474	c.319C>T	c.(319-321)CGT>TGT	p.R107C	MKL2_uc002dcg.2_Missense_Mutation_p.R107C|MKL2_uc002dch.2_Missense_Mutation_p.R96C|MKL2_uc010uzb.1_Missense_Mutation_p.R56C	NM_014048	NP_054767	Q9ULH7	MKL2_HUMAN	megakaryoblastic leukemia 2 protein	96	RPEL 2.				cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5						TCGACCAGATCGTTCTGAACT	0.294													33	64					0	0	1	0	0		T	14307444	T	T	14307444	3	4	89	1	0	0	0	0	1	0	0	0	9620	884	31	1	333	1	MKL2	16	14307444	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	278109	14307444	76047309	5398	59229											
PARN	5073	broad.mit.edu	37	chr16	14711452	14711452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacccataatcttaccatttCgaaaaactttattaaaatca	17	14	1	9	1	2	0	1	0	1	0	3	1	2	0	2	0	3	0	2	0	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:14711452C>T	uc010uzd.1	-	6	525	c.383G>A	c.(382-384)CGA>CAA	p.R128Q	PARN_uc010uzc.1_Missense_Mutation_p.R67Q|PARN_uc010uze.1_Missense_Mutation_p.R82Q|PARN_uc010uzf.1_Intron|PARN_uc010uzg.1_RNA	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation	128					female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2						CTTACCATTTCGAAAAACTTT	0.363													13	26					0	0	1	0	0		T	14711452	T	T	14711452	3	4	89	1	0	0	0	0	1	0	0	0	11472	884	31	1	1612	1	PARN	16	14711452	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	404008	14711452	75643301	5399	59230											
BFAR	51283	broad.mit.edu	37	chr16	14755907	14755907	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacagctctggggaggacatCgtcaccaagcttctggtagg	9	8	14	10	1	3	0	1	0	2	0	4	3	3	2	1	5	2	3	1	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:14755907C>T	uc002dco.2	+	6	1223	c.942C>T	c.(940-942)ATC>ATT	p.I314I	BFAR_uc002dcp.2_Silent_p.I189I|BFAR_uc010uzh.1_Silent_p.I186I	NM_016561	NP_057645	Q9NZS9	BFAR_HUMAN	bifunctional apoptosis regulator	314	Lumenal (Potential).				anti-apoptosis|apoptosis	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	structural molecule activity|zinc ion binding			ovary(1)|skin(1)	2						GGGAGGACATCGTCACCAAGC	0.498													74	119					0	0	1	0	0		T	14755907	T	T	14755907	2	4	89	1	0	0	0	0	0	0	0	1	1415	874	31	1		1	BFAR	16	14755907	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44455	14755907	75598846	5400	59231											
NOMO1	23420	broad.mit.edu	37	chr16	14983060	14983060	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cataaacacatcaccttgatTtttaatcccacggtaagtaa	15	12	4	10	1	1	1	1	1	0	0	2	1	2	1	2	1	1	2	2	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:14983060T>G	uc002dcv.2	+	29	3498	c.3432T>G	c.(3430-3432)ATT>ATG	p.I1144M		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor	1144	Extracellular (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						TCACCTTGATTTTTAATCCCA	0.318													98	154					0	0	1	0	0		G	14983060	G	G	14983060	3	3	89	1	0	0	0	0	1	0	0	0	10550	1829	64	5	3546	5	NOMO1	16	14983060	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	227153	14983060	75371693	5401	59232											
NDE1	54820	broad.mit.edu	37	chr16	15781232	15781232	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgcttttctcttcgccagCgccacgatcatgtctctcga	5	14	7	15	4	4	0	1	0	3	0	8	2	4	0	2	0	2	1	2	0	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:15781232C>T	uc002ddt.1	+	4	430	c.387C>T	c.(385-387)CGC>CGT	p.R129R	NDE1_uc010uzy.1_Silent_p.R129R|NDE1_uc002dds.2_Silent_p.R129R|NDE1_uc002ddu.1_Silent_p.S66S	NM_017668	NP_060138	Q9NXR1	NDE1_HUMAN	nuclear distribution gene E homolog 1	129	Interaction with PAFAH1B1 (By similarity).|Potential.				cell differentiation|cell division|centrosome duplication|establishment of chromosome localization|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|mitotic prometaphase|nervous system development	cleavage furrow|condensed chromosome kinetochore|cytosol|microtubule|spindle pole centrosome	microtubule binding			ovary(1)	1						TCTTCGCCAGCGCCACGATCA	0.458													27	42					0	0	1	0	0		T	15781232	T	T	15781232	2	4	89	1	0	0	0	0	0	0	0	1	10262	782	27	1		1	NDE1	16	15781232	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	798172	15781232	74573521	5402	59233											
MYH11	4629	broad.mit.edu	37	chr16	15835523	15835523	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaggttcttctcctcggTcagctgcacgcaggtggtgg	5	11	14	11	2	3	0	1	0	2	0	5	0	3	0	1	5	3	5	1	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:15835523T>C	uc002ddy.2	-	22	2763	c.2656A>G	c.(2656-2658)ACC>GCC	p.T886A	MYH11_uc002ddv.2_Missense_Mutation_p.T893A|MYH11_uc002ddw.2_Missense_Mutation_p.T886A|MYH11_uc002ddx.2_Missense_Mutation_p.T893A|MYH11_uc010bvg.2_Missense_Mutation_p.T718A	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	886	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						TTCTCCTCGGTCAGCTGCACG	0.637			T	CBFB	AML								45	114					0	0	1	0	0		C	15835523	C	C	15835523	3	2	89	1	0	0	0	0	1	0	0	0	10049	1667	58	3	3377	3	MYH11	16	15835523	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	54291	15835523	74519230	5403	59234											
MYH11	4629	broad.mit.edu	37	chr16	15880505	15880505	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtgatacttgtgtctttCttgcccttgtgggaggaggc	5	14	13	9	1	2	1	0	1	2	0	2	3	2	3	2	3	2	0	2	3	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:15880505C>A	uc002ddy.2	-	5	722	c.615G>T	c.(613-615)AAG>AAT	p.K205N	MYH11_uc002ddv.2_Missense_Mutation_p.K205N|MYH11_uc002ddw.2_Missense_Mutation_p.K205N|MYH11_uc002ddx.2_Missense_Mutation_p.K205N|MYH11_uc010bvg.2_Nonsense_Mutation_p.E31*|MYH11_uc002deb.3_Missense_Mutation_p.K205N	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	205	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						TTGTGTCTTTCTTGCCCTTGT	0.537			T	CBFB	AML								14	21					3.27435e-08	3.46512e-08	1	1	0		A	15880505	A	A	15880505	3	1	89	1	0	0	0	0	1	0	0	0	10049	912	32	5	5511	5	MYH11	16	15880505	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44982	15880505	74474248	5404	59235											
ARL6IP1	23204	broad.mit.edu	37	chr16	18810043	18810043	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaacaccaaagaaaccacAcccatgatggcaggtggaaa	19	3	9	10	0	0	3	0	1	0	2	0	4	0	4	3	3	2	1	3	3	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:18810043A>G	uc002dfl.1	-	2	219	c.150T>C	c.(148-150)GGT>GGC	p.G50G	ARL6IP1_uc010van.1_Silent_p.G21G|ARL6IP1_uc010bvz.1_RNA	NM_015161	NP_055976	Q15041	AR6P1_HUMAN	ADP-ribosylation factor-like 6 interacting	50	Helical; (Potential).					integral to membrane	protein binding				0						AAGAAACCACACCCATGATGG	0.428													43	113					0	0	1	0	0		G	18810043	G	G	18810043	2	3	89	1	0	0	0	0	0	0	0	1	943	146	6	3		3	ARL6IP1	16	18810043	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2929538	18810043	71544710	5405	59236											
SMG1	23049	broad.mit.edu	37	chr16	18841653	18841653	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcatcaactgaaccatttCtcggttggattaattcaccg	10	15	6	10	2	4	1	3	1	1	0	5	2	4	2	2	2	2	1	2	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:18841653C>A	uc002dfm.2	-	52	9194	c.8831G>T	c.(8830-8832)AGA>ATA	p.R2944I	SMG1_uc010bwb.2_Missense_Mutation_p.R2804I|SMG1_uc010bwa.2_Missense_Mutation_p.R1675I	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2944					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TGAACCATTTCTCGGTTGGAT	0.408													22	36					6.21321e-17	7.16882e-17	1	1	0		A	18841653	A	A	18841653	3	1	89	1	0	0	0	0	1	0	0	0	14820	913	32	5	2202	5	SMG1	16	18841653	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	31610	18841653	71513100	5406	59237											
SMG1	23049	broad.mit.edu	37	chr16	18856860	18856860	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttatcctgaaaccattttTcatgaggtgtttctgcagga	10	15	9	7	0	2	2	1	2	1	0	3	3	3	3	2	2	2	3	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:18856860T>C	uc002dfm.2	-	39	6473	c.6110A>G	c.(6109-6111)GAA>GGA	p.E2037G	SMG1_uc010bwb.2_Missense_Mutation_p.E1897G|SMG1_uc010bwa.2_Missense_Mutation_p.E768G|SMG1_uc002dfo.3_Missense_Mutation_p.E335G	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2037					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						AAACCATTTTTCATGAGGTGT	0.468													27	66					0	0	1	0	0		C	18856860	C	C	18856860	3	2	89	1	0	0	0	0	1	0	0	0	14820	1783	62	3	4975	3	SMG1	16	18856860	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15207	18856860	71497893	5407	59238											
SMG1	23049	broad.mit.edu	37	chr16	18880520	18880520	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcttcccatatggcccactgCcaaaggacagcatctgtctt	9	10	8	14	0	2	0	0	0	2	0	3	1	3	1	3	2	2	2	3	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:18880520C>T	uc002dfm.2	-	20	3102	c.2739G>A	c.(2737-2739)TGG>TGA	p.W913*	SMG1_uc010bwb.2_Nonsense_Mutation_p.W773*	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	913	Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TGGCCCACTGCCAAAGGACAG	0.478													27	62					0	0	1	0	0		T	18880520	T	T	18880520	4	4	89	1	0	0	0	0	0	1	0	0	14820	740	26	2	8422	2	SMG1	16	18880520	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	23660	18880520	71474233	5408	59239											
C16orf88	400506	broad.mit.edu	37	chr16	19725601	19725601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acttatggggatgtattccgGagcctcaactttgactggct	8	13	11	9	1	1	1	1	1	0	0	2	3	2	3	2	4	2	2	2	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:19725601G>A	uc002dgq.2	-	2	772	c.757C>T	c.(757-759)CCG>TCG	p.P253S	IQCK_uc002dgr.2_5'Flank|IQCK_uc002dgs.2_5'Flank	NM_001012991	NP_001013009	Q1ED39	CP088_HUMAN	hypothetical protein LOC400506	253	Lys-rich.					nucleolus					0						ATGTATTCCGGAGCCTCAACT	0.532													39	69					0	0	1	0	0		A	19725601	A	A	19725601	3	1	89	1	0	0	0	0	1	0	0	0	1844	1174	41	4	635	4	C16orf88	16	19725601	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	845081	19725601	70629152	5409	59240											
C16orf88	400506	broad.mit.edu	37	chr16	19726316	19726316	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actttcttcttctttttcttCtctgggagcccaaggtctac	5	18	6	12	0	6	0	0	0	6	0	7	1	6	1	1	2	2	0	1	2	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:19726316C>T	uc002dgq.2	-	2	57	c.42G>A	c.(40-42)GAG>GAA	p.E14E	IQCK_uc002dgr.2_5'Flank|IQCK_uc002dgs.2_5'Flank|IQCK_uc010vat.1_5'Flank|IQCK_uc010bwc.2_5'Flank|IQCK_uc010vau.1_5'Flank	NM_001012991	NP_001013009	Q1ED39	CP088_HUMAN	hypothetical protein LOC400506	14						nucleolus					0						TCTTTTTCTTCTCTGGGAGCC	0.383													29	86					0	0	1	0	0		T	19726316	T	T	19726316	2	4	89	1	0	0	0	0	0	0	0	1	1844	912	32	4		4	C16orf88	16	19726316	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	715	19726316	70628437	5410	59241											
GPRC5B	51704	broad.mit.edu	37	chr16	19883861	19883861	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccaaagaggcccagggTccccaggaggaacagaaagt	14	2	13	12	0	0	2	0	0	0	2	1	4	1	4	4	4	2	0	4	4	3	0	rs11544191		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:19883861T>C	uc002dgt.2	-	2	415	c.307A>G	c.(307-309)ACC>GCC	p.T103A	GPRC5B_uc010vav.1_Missense_Mutation_p.T129A	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	103	Helical; Name=2; (Potential).									lung(1)|breast(1)|skin(1)	3						AGGCCCAGGGTCCCCAGGAGG	0.602													14	26					0	0	1	0	0		C	19883861	C	C	19883861	3	2	89	1	0	0	0	0	1	0	0	0	6741	1667	58	3	916	3	GPRC5B	16	19883861	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	157545	19883861	70470892	5411	59242											
PDILT	204474	broad.mit.edu	37	chr16	20380850	20380850	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagctgcggccaaatttCttgaggctttcgtaggttat	9	13	12	7	2	1	1	0	1	1	0	2	2	1	2	1	4	2	4	1	4	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20380850C>A	uc002dhc.1	-	8	1303	c.1080G>T	c.(1078-1080)AAG>AAT	p.K360N		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	360					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						GGCCAAATTTCTTGAGGCTTT	0.438													57	112					1.27862e-28	1.55661e-28	1	1	0		A	20380850	A	A	20380850	3	1	89	1	0	0	0	0	1	0	0	0	11693	912	32	5	694	5	PDILT	16	20380850	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	496989	20380850	69973903	5412	59243											
PDILT	204474	broad.mit.edu	37	chr16	20384348	20384348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgacctcagtgttgtattCgatcacaaaatctgtaaggt	12	13	8	8	1	3	1	2	1	1	0	4	2	3	1	1	1	0	3	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20384348C>T	uc002dhc.1	-	6	1001	c.778G>A	c.(778-780)GAA>AAA	p.E260K		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	260					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						GTGTTGTATTCGATCACAAAA	0.443													65	111					0	0	1	0	0		T	20384348	T	T	20384348	3	4	89	1	0	0	0	0	1	0	0	0	11693	893	31	1	1004	1	PDILT	16	20384348	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3498	20384348	69970405	5413	59244											
ACSM2A	123876	broad.mit.edu	37	chr16	20476902	20476902	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggggaaggaattaatgTggaatttcagagaactgagt	15	9	15	2	0	1	2	1	1	0	1	1	7	1	6	0	5	1	0	0	5	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20476902T>C	uc010bwe.2	+	4	480	c.241T>C	c.(241-243)TGG>CGG	p.W81R	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Missense_Mutation_p.W2R|ACSM2A_uc002dhf.3_Missense_Mutation_p.W81R|ACSM2A_uc002dhg.3_Missense_Mutation_p.W81R|ACSM2A_uc010vay.1_Missense_Mutation_p.W2R	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	81					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						GGAATTAATGTGGAATTTCAG	0.587													22	45					0	0	1	0	0		C	20476902	C	C	20476902	3	2	89	1	0	0	0	0	1	0	0	0	183	1696	59	3	247	3	ACSM2A	16	20476902	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	92554	20476902	69877851	5414	59245											
ACSM2B	348158	broad.mit.edu	37	chr16	20559486	20559486	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctccagcgaggcagttCtgtagatgggggaacttgta	8	10	13	10	1	1	1	0	0	1	1	3	3	3	2	3	3	2	4	3	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20559486C>A	uc002dhj.3	-	9	1206	c.996G>T	c.(994-996)CAG>CAT	p.Q332H	ACSM2B_uc002dhk.3_Missense_Mutation_p.Q332H|ACSM2B_uc010bwf.1_Missense_Mutation_p.Q332H	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	332					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						CGAGGCAGTTCTGTAGATGGG	0.517													76	169					1.7488e-33	2.14946e-33	1	1	0		A	20559486	A	A	20559486	3	1	89	1	0	0	0	0	1	0	0	0	184	912	32	5	765	5	ACSM2B	16	20559486	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	82584	20559486	69795267	5415	59246											
ACSM1	116285	broad.mit.edu	37	chr16	20696520	20696520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttgcatcactgacctgttCgcatgcagcccacagccacc	8	9	7	17	1	2	1	1	1	1	0	3	1	2	1	4	0	4	4	4	0	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20696520C>T	uc002dhm.1	-	2	466	c.398G>A	c.(397-399)CGA>CAA	p.R133Q	ACSM1_uc002dhn.1_RNA|ACSM1_uc010bwg.1_Missense_Mutation_p.R133Q	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	133					benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						CTGACCTGTTCGCATGCAGCC	0.577													29	57					0	0	1	0	0		T	20696520	T	T	20696520	3	4	89	1	0	0	0	0	1	0	0	0	182	884	31	1	1383	1	ACSM1	16	20696520	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	137034	20696520	69658233	5416	59247											
ACSM1	116285	broad.mit.edu	37	chr16	20696700	20696700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccattcacccaccaaaaaGctggatttggacctctcttg	10	10	8	13	0	2	0	1	0	1	0	3	2	2	2	4	3	1	1	4	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20696700G>A	uc002dhm.1	-	2	286	c.218C>T	c.(217-219)GCT>GTT	p.A73V	ACSM1_uc002dhn.1_RNA|ACSM1_uc010bwg.1_Missense_Mutation_p.A73V	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	73					benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						CCACCAAAAAGCTGGATTTGG	0.468													51	110					0	0	1	0	0		A	20696700	A	A	20696700	3	1	89	1	0	0	0	0	1	0	0	0	182	971	34	2	1563	2	ACSM1	16	20696700	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	180	20696700	69658053	5417	59248											
ACSM3	6296	broad.mit.edu	37	chr16	20781488	20781488	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaatttctccaactatgaAtccatgaaacaggacttcaa	16	10	5	10	0	2	3	1	2	1	1	4	4	3	4	2	1	2	0	2	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20781488A>C	uc002dhr.2	+	2	319	c.132A>C	c.(130-132)GAA>GAC	p.E44D	ACSM3_uc002dhq.2_Missense_Mutation_p.E44D|ACSM3_uc010vba.1_Missense_Mutation_p.E36D	NM_005622	NP_005613	Q53FZ2	ACSM3_HUMAN	SA hypertension-associated homolog isoform 1	44					regulation of blood pressure	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			ovary(1)	1						CCAACTATGAATCCATGAAAC	0.438													27	76					0	0	1	0	0		C	20781488	C	C	20781488	3	2	89	1	0	0	0	0	1	0	0	0	185	98	4	5	134	5	ACSM3	16	20781488	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	84788	20781488	69573265	5418	59249											
LOC81691	81691	broad.mit.edu	37	chr16	20851123	20851123	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccctgtttcccttcagcaTtgttcagttctcttttaagg	5	17	6	13	0	3	0	2	0	1	0	5	0	4	0	3	1	1	4	3	1	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20851123T>G	uc002dhv.2	+	14	1693	c.1430T>G	c.(1429-1431)ATT>AGT	p.I477S	ERI2_uc002dht.3_Intron|LOC81691_uc002dhx.2_Missense_Mutation_p.I477S|LOC81691_uc002dhw.2_Missense_Mutation_p.I220S|LOC81691_uc002dhy.3_Missense_Mutation_p.I477S	NM_030941	NP_112203	Q96IC2	REXON_HUMAN	exonuclease NEF-sp isoform 1	477						nucleolus	exonuclease activity|nucleotide binding|RNA binding			ovary(1)|kidney(1)	2						CCCTTCAGCATTGTTCAGTTC	0.448													87	197					0	0	1	0	0		G	20851123	G	G	20851123	3	3	89	1	0	0	0	0	1	0	0	0	8908	1493	52	5	1480	5	LOC81691	16	20851123	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	69635	20851123	69503630	5419	59250											
LOC81691	81691	broad.mit.edu	37	chr16	20851723	20851723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaattgcaatctcagggCtctgaagaggctgtttaaaa	15	10	9	7	0	2	2	1	1	2	1	3	2	2	2	0	2	1	4	0	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20851723C>T	uc002dhv.2	+	15	1822	c.1559C>T	c.(1558-1560)GCT>GTT	p.A520V	ERI2_uc002dht.3_Intron|LOC81691_uc002dhx.2_Missense_Mutation_p.A520V|LOC81691_uc002dhw.2_Missense_Mutation_p.A263V|LOC81691_uc002dhy.3_Missense_Mutation_p.A520V	NM_030941	NP_112203	Q96IC2	REXON_HUMAN	exonuclease NEF-sp isoform 1	520	RRM 1.					nucleolus	exonuclease activity|nucleotide binding|RNA binding			ovary(1)|kidney(1)	2						AATCTCAGGGCTCTGAAGAGG	0.408													47	83					0	0	1	0	0		T	20851723	T	T	20851723	3	4	89	1	0	0	0	0	1	0	0	0	8908	797	28	2	1613	2	LOC81691	16	20851723	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	600	20851723	69503030	5420	59251											
DNAH3	55567	broad.mit.edu	37	chr16	20974776	20974776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttgtcaggccgcaaacatCgaaggatcaccatcttctcc	10	11	7	13	2	4	0	2	0	2	0	6	2	4	1	3	2	1	1	3	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20974776C>T	uc010vbe.1	-	53	10430	c.10430G>A	c.(10429-10431)CGA>CAA	p.R3477Q	DNAH3_uc010vbd.1_Missense_Mutation_p.R912Q	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3477					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CCGCAAACATCGAAGGATCAC	0.527													24	42					0	0	1	0	0		T	20974776	T	T	20974776	3	4	89	1	0	0	0	0	1	0	0	0	4609	884	31	1	1959	1	DNAH3	16	20974776	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	123053	20974776	69379977	5421	59252											
DNAH3	55567	broad.mit.edu	37	chr16	20975792	20975792	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccttgagcaagataggttcGatagaagcatccagctcttc	11	10	10	10	1	1	3	0	1	1	2	4	4	2	3	2	1	3	4	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20975792G>A	uc010vbe.1	-	53	9414	c.9414C>T	c.(9412-9414)ATC>ATT	p.I3138I	DNAH3_uc010vbd.1_Silent_p.I573I	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3138	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		AGATAGGTTCGATAGAAGCAT	0.428													72	154					0	0	1	0	0		A	20975792	A	A	20975792	2	1	89	1	0	0	0	0	0	0	0	1	4609	1048	37	1		1	DNAH3	16	20975792	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1016	20975792	69378961	5422	59253											
DNAH3	55567	broad.mit.edu	37	chr16	20976341	20976341	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggagcagatttcaatgttTtcctccaagtcctttttctt	7	18	7	9	0	2	1	1	0	1	1	5	2	5	2	3	1	1	2	3	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20976341T>G	uc010vbe.1	-	53	8865	c.8865A>C	c.(8863-8865)GAA>GAC	p.E2955D	DNAH3_uc010vbd.1_Missense_Mutation_p.E390D	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2955	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TTTCAATGTTTTCCTCCAAGT	0.512													76	141					0	0	1	0	0		G	20976341	G	G	20976341	3	3	89	1	0	0	0	0	1	0	0	0	4609	1838	64	5	3524	5	DNAH3	16	20976341	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	549	20976341	69378412	5423	59254											
DNAH3	55567	broad.mit.edu	37	chr16	20976706	20976706	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaatttcagatccccaaGaatctttttggatacccccc	12	11	5	13	0	2	3	1	0	1	3	3	4	3	4	5	1	1	0	5	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20976706G>T	uc010vbe.1	-	53	8500	c.8500C>A	c.(8500-8502)CTT>ATT	p.L2834I	DNAH3_uc010vbd.1_Missense_Mutation_p.L269I	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2834	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		AGATCCCCAAGAATCTTTTTG	0.403													40	82					1.59932e-28	1.94589e-28	1	1	0		T	20976706	T	T	20976706	3	4	89	1	0	0	0	0	1	0	0	0	4609	942	33	5	3889	5	DNAH3	16	20976706	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	365	20976706	69378047	5424	59255											
DNAH3	55567	broad.mit.edu	37	chr16	20996988	20996988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatctccaaagaagaggcttCgaatgttatcatcgactatc	14	11	7	9	2	2	2	1	0	1	2	6	4	2	2	1	1	0	2	1	1	6	3	rs150141933		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20996988C>T	uc010vbe.1	-	48	7076	c.7076G>A	c.(7075-7077)CGA>CAA	p.R2359Q	DNAH3_uc010vbd.1_5'Flank	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2359					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GAAGAGGCTTCGAATGTTATC	0.453													52	109					0	0	1	0	0		T	20996988	T	T	20996988	3	4	89	1	0	0	0	0	1	0	0	0	4609	884	31	1	5333	1	DNAH3	16	20996988	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	20282	20996988	69357765	5425	59256											
DNAH3	55567	broad.mit.edu	37	chr16	20999312	20999312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgaagtgccagtcaacaatcGaactgaaaatcttggttaaa	16	9	8	8	2	2	1	1	1	1	0	3	3	2	1	1	1	3	1	1	1	8	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:20999312G>A	uc010vbe.1	-	45	6677	c.6677C>T	c.(6676-6678)TCG>TTG	p.S2226L	DNAH3_uc010vbd.1_5'Flank	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2226	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GTCAACAATCGAACTGAAAAT	0.428													34	65					0	0	1	0	0		A	20999312	A	A	20999312	3	1	89	1	0	0	0	0	1	0	0	0	4609	1059	37	1	5744	1	DNAH3	16	20999312	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2324	20999312	69355441	5426	59257											
DNAH3	55567	broad.mit.edu	37	chr16	21136675	21136675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgaggtaaaaagctgggCgcaggtggggatccacctgt	9	7	16	9	2	0	1	0	1	0	0	1	2	1	2	3	5	1	3	3	5	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:21136675C>T	uc010vbe.1	-	9	1225	c.1225G>A	c.(1225-1227)GCC>ACC	p.A409T	DNAH3_uc002die.2_Missense_Mutation_p.A380T	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	409	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		AAAAGCTGGGCGCAGGTGGGG	0.522													24	52					0	0	1	0	0		T	21136675	T	T	21136675	3	4	89	1	0	0	0	0	1	0	0	0	4609	768	27	1	11340	1	DNAH3	16	21136675	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	137363	21136675	69218078	5427	59258											
ZP2	7783	broad.mit.edu	37	chr16	21210159	21210159	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgggaggctgactgtcattTtctctgcttcagtggcccct	4	14	11	12	0	3	1	2	1	1	0	4	2	3	2	2	3	1	2	2	3	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:21210159T>C	uc002dii.2	-	17	1952	c.1952A>G	c.(1951-1953)AAA>AGA	p.K651R	ZP2_uc010bwn.1_Missense_Mutation_p.K681R	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	651	Extracellular (Potential).				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		GACTGTCATTTTCTCTGCTTC	0.488													12	29					0	0	1	0	0		C	21210159	C	C	21210159	3	2	89	1	0	0	0	0	1	0	0	0	18241	1841	64	3	297	3	ZP2	16	21210159	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	73484	21210159	69144594	5428	59259											
ZP2	7783	broad.mit.edu	37	chr16	21213314	21213314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtccagagagcatgtatttCgttttcatagacgactttat	10	15	8	8	3	1	2	1	0	0	2	3	4	2	2	1	0	1	3	1	0	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:21213314C>T	uc002dii.2	-	12	1318	c.1318G>A	c.(1318-1320)GAA>AAA	p.E440K	ZP2_uc010bwn.1_Missense_Mutation_p.E479K	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	440	Extracellular (Potential).|ZP.				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		GCATGTATTTCGTTTTCATAG	0.393													34	77					0	0	1	0	0		T	21213314	T	T	21213314	3	4	89	1	0	0	0	0	1	0	0	0	18241	893	31	1	951	1	ZP2	16	21213314	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3155	21213314	69141439	5429	59260											
OTOA	146183	broad.mit.edu	37	chr16	21698929	21698929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagccagacatcacagagCggctccctcgggacctgcgc	8	5	11	17	3	1	2	1	0	0	2	4	3	3	3	4	2	3	1	4	2	0	0	rs148114778		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:21698929C>T	uc002djh.2	+	7	596	c.595C>T	c.(595-597)CGG>TGG	p.R199W	uc002diq.3_Intron|OTOA_uc010vbj.1_Missense_Mutation_p.R120W	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	199					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		CATCACAGAGCGGCTCCCTCG	0.473													19	56					0	0	1	0	0		T	21698929	T	T	21698929	3	4	89	1	0	0	0	0	1	0	0	0	11321	759	27	1	655	1	OTOA	16	21698929	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	485615	21698929	68655824	5430	59261											
UQCRC2	7385	broad.mit.edu	37	chr16	21994445	21994445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttctggccagaagtcaatgGcagcaagtggaaatttggga	12	10	13	6	0	2	1	1	0	1	1	2	3	2	3	1	4	1	2	1	4	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:21994445G>A	uc002djx.2	+	14	1451	c.1315G>A	c.(1315-1317)GCA>ACA	p.A439T	UQCRC2_uc002djy.2_Nonsense_Mutation_p.W387*|UQCRC2_uc010bxa.2_RNA	NM_003366	NP_003357	P22695	QCR2_HUMAN	ubiquinol-cytochrome c reductase core protein II	439					aerobic respiration|oxidative phosphorylation|proteolysis|respiratory electron transport chain|transport		metalloendopeptidase activity|zinc ion binding			large_intestine(2)	2				GBM - Glioblastoma multiforme(48;0.0264)		GAAGTCAATGGCAGCAAGTGG	0.388													15	76					0	0	1	0	0		A	21994445	A	A	21994445	3	1	89	1	0	0	0	0	1	0	0	0	17046	1203	42	2	1369	2	UQCRC2	16	21994445	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	295516	21994445	68360308	5431	59262											
VWA3A	146177	broad.mit.edu	37	chr16	22142928	22142928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggccctgaacctgcggtgtCggggcagcaggaacgttctc	6	7	16	12	3	1	1	0	1	1	0	3	2	1	2	2	5	4	3	2	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:22142928C>T	uc010vbq.1	+	19	1846	c.1750C>T	c.(1750-1752)CGG>TGG	p.R584W	VWA3A_uc010bxd.2_RNA|VWA3A_uc010bxc.2_Missense_Mutation_p.R592W	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	584	VWFA 1.					extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		CCTGCGGTGTCGGGGCAGCAG	0.587													9	16					0	0	1	0	0		T	22142928	T	T	22142928	3	4	89	1	0	0	0	0	1	0	0	0	17266	875	31	1	1824	1	VWA3A	16	22142928	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	148483	22142928	68211825	5432	59263											
VWA3A	146177	broad.mit.edu	37	chr16	22149750	22149750	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagttcagccctcccgaaaGaaaaaccaaagacacttcag	17	5	7	12	1	2	2	2	0	0	2	3	4	3	2	3	0	2	1	3	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:22149750G>T	uc010vbq.1	+	22	2305	c.2209G>T	c.(2209-2211)GAA>TAA	p.E737*	VWA3A_uc010bxd.2_RNA|VWA3A_uc010bxc.2_Nonsense_Mutation_p.E745*	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	737						extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		CCTCCCGAAAGAAAAACCAAA	0.567													7	12					1.6384e-10	1.78173e-10	1	1	0		T	22149750	T	T	22149750	4	4	89	1	0	0	0	0	0	1	0	0	17266	943	33	5	2295	5	VWA3A	16	22149750	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6822	22149750	68205003	5433	59264											
VWA3A	146177	broad.mit.edu	37	chr16	22151506	22151506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccctgacagagagaagaGccccccgctgaaatctctga	12	6	10	13	1	1	7	0	4	1	3	2	8	1	7	4	0	1	1	4	0	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:22151506G>A	uc010vbq.1	+	23	2420	c.2324G>A	c.(2323-2325)AGC>AAC	p.S775N	VWA3A_uc010bxd.2_RNA	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	775						extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		AGAGAGAAGAGCCCCCCGCTG	0.532													20	24					0	0	1	0	0		A	22151506	A	A	22151506	3	1	89	1	0	0	0	0	1	0	0	0	17266	971	34	2	2414	2	VWA3A	16	22151506	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1756	22151506	68203247	5434	59265											
CDR2	1039	broad.mit.edu	37	chr16	22361162	22361162	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtagaagttccacttgcttCgtcagatactgtaagagaag	12	11	10	8	2	1	3	1	0	0	3	3	4	2	3	1	0	2	4	1	0	5	6	rs145559710		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:22361162C>T	uc002dkn.2	-	3	509	c.201G>A	c.(199-201)ACG>ACA	p.T67T		NM_001802	NP_001793	Q01850	CDR2_HUMAN	cerebellar degeneration-related protein 2	67	Potential.					nucleus	protein binding			skin(1)	1				GBM - Glioblastoma multiforme(48;0.0188)		CCACTTGCTTCGTCAGATACT	0.343													49	83					0	0	1	0	0		T	22361162	T	T	22361162	2	4	89	1	0	0	0	0	0	0	0	1	3175	871	31	1		1	CDR2	16	22361162	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	209656	22361162	67993591	5435	59266											
HS3ST2	9956	broad.mit.edu	37	chr16	22926592	22926592	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgctagctcagattcacttCgtcagtggcgagcgactcat	8	10	10	13	4	4	1	4	0	0	1	5	3	4	1	1	1	2	2	1	1	1	3	rs144169281		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:22926592C>T	uc002dli.2	+	2	885	c.813C>T	c.(811-813)TTC>TTT	p.F271F	HS3ST2_uc002dlj.2_RNA	NM_006043	NP_006034	Q9Y278	HS3S2_HUMAN	heparan sulfate D-glucosaminyl	271	Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 2 activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(48;0.0299)		AGATTCACTTCGTCAGTGGCG	0.582													59	127					0	0	1	0	0		T	22926592	T	T	22926592	2	4	89	1	0	0	0	0	0	0	0	1	7380	883	31	1		1	HS3ST2	16	22926592	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	565430	22926592	67428161	5436	59267											
USP31	57478	broad.mit.edu	37	chr16	23080168	23080168	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaggggcaggggatgaatgCcgtccactgcccctggaaga	9	5	16	11	1	0	2	0	1	0	1	1	4	1	4	4	5	2	2	4	5	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:23080168C>T	uc002dll.2	-	16	3258	c.3258G>A	c.(3256-3258)CGG>CGA	p.R1086R	USP31_uc002dlk.2_Silent_p.R358R|USP31_uc010vca.1_Silent_p.R389R|USP31_uc010bxm.2_Silent_p.R374R	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	1086	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		GGGATGAATGCCGTCCACTGC	0.547													38	87					0	0	1	0	0		T	23080168	T	T	23080168	2	4	89	1	0	0	0	0	0	0	0	1	17088	726	26	2		2	USP31	16	23080168	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	153576	23080168	67274585	5437	59268											
USP31	57478	broad.mit.edu	37	chr16	23091492	23091492	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttcatgcgcctgtctccttCctgttgcaagaagaaaaaca	11	12	7	11	1	2	2	1	0	1	2	4	2	3	2	3	0	3	2	3	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:23091492C>A	uc002dll.2	-	13	1951	c.1951G>T	c.(1951-1953)GAA>TAA	p.E651*	USP31_uc010bxm.2_5'UTR	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	651					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		CTGTCTCCTTCCTGTTGCAAG	0.478													22	41					7.45023e-12	8.20436e-12	1	1	0		A	23091492	A	A	23091492	4	1	89	1	0	0	0	0	0	1	0	0	17088	869	30	5	2123	5	USP31	16	23091492	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11324	23091492	67263261	5438	59269											
SCNN1B	6338	broad.mit.edu	37	chr16	23391835	23391835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtttggggagatcatcatcGactttgtgtggatcaccatc	9	13	11	8	1	3	1	3	0	0	1	5	4	3	2	1	3	0	1	1	3	0	2	rs112069765		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:23391835G>A	uc002dln.2	+	13	1812	c.1636G>A	c.(1636-1638)GAC>AAC	p.D546N		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	546	Cytoplasmic (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	GATCATCATCGACTTTGTGTG	0.617													86	138					0	0	1	0	0		A	23391835	A	A	23391835	3	1	89	1	0	0	0	0	1	0	0	0	13953	1058	37	1	1682	1	SCNN1B	16	23391835	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	300343	23391835	66962918	5439	59270											
UBFD1	56061	broad.mit.edu	37	chr16	23569435	23569435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccccggcccagccccctgggGaccccgcagcccaggcctcg	4	2	12	23	3	0	0	0	0	0	0	1	1	0	1	9	4	2	1	9	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:23569435G>A	uc002dlv.2	+	2	392	c.190G>A	c.(190-192)GAC>AAC	p.D64N	EARS2_uc002dls.3_5'Flank|EARS2_uc002dlt.3_5'Flank|EARS2_uc002dlu.2_5'Flank	NM_019116	NP_061989	O14562	UBFD1_HUMAN	ubiquitin-binding protein homolog	64											0				GBM - Glioblastoma multiforme(48;0.0331)		GCCCCCTGGGGACCCCGCAGC	0.627													6	10					0	0	1	0	0		A	23569435	A	A	23569435	3	1	89	1	0	0	0	0	1	0	0	0	16910	1174	41	4	196	4	UBFD1	16	23569435	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	177600	23569435	66785318	5440	59271											
PLK1	5347	broad.mit.edu	37	chr16	23690463	23690463	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgccaagtgcttcgagatCtcggacgcggacaccaagga	10	8	12	11	4	1	1	0	0	1	1	3	5	1	4	2	3	2	1	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:23690463C>T	uc002dlz.1	+	1	263	c.210C>T	c.(208-210)ATC>ATT	p.I70I		NM_005030	NP_005021	P53350	PLK1_HUMAN	polo-like kinase 1	70	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G2/M transition DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic prophase|negative regulation of cyclin-dependent protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|protein localization to chromatin|protein ubiquitination|regulation of mitotic anaphase|regulation of protein binding	centrosome|condensed nuclear chromosome outer kinetochore|cytosol|nucleoplasm|spindle microtubule|spindle midzone|spindle pole	anaphase-promoting complex binding|ATP binding|polo kinase kinase activity|protein kinase binding			lung(1)|skin(1)	2				GBM - Glioblastoma multiforme(48;0.0156)		GCTTCGAGATCTCGGACGCGG	0.602													7	17					0	0	1	0	0		T	23690463	T	T	23690463	2	4	89	1	0	0	0	0	0	0	0	1	12113	903	32	4		4	PLK1	16	23690463	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	121028	23690463	66664290	5441	59272											
RBBP6	5930	broad.mit.edu	37	chr16	24552030	24552030	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccacatctccctctgcgActtaaagaagcagattatgg	11	10	8	12	1	2	2	0	0	2	2	4	3	3	2	2	1	2	2	2	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:24552030A>C	uc002dmh.2	+	1	1123	c.83A>C	c.(82-84)GAC>GCC	p.D28A	RBBP6_uc010vcb.1_Intron|RBBP6_uc002dmg.2_Missense_Mutation_p.D28A|RBBP6_uc002dmi.2_Missense_Mutation_p.D28A|RBBP6_uc010bxr.2_Missense_Mutation_p.D28A	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	28	DWNN.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		TCCCTCTGCGACTTAAAGAAG	0.493													33	69					0	0	1	0	0		C	24552030	C	C	24552030	3	2	89	1	0	0	0	0	1	0	0	0	13128	275	10	5	85	5	RBBP6	16	24552030	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	861567	24552030	65802723	5442	59273											
RBBP6	5930	broad.mit.edu	37	chr16	24578677	24578677	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggtatagtgtccctccTccagggtttcctccagctcc	4	12	10	15	0	0	0	0	0	0	0	6	0	6	0	6	2	1	4	6	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:24578677T>C	uc002dmh.2	+	15	2843	c.1803T>C	c.(1801-1803)CCT>CCC	p.P601P	RBBP6_uc010vcb.1_Silent_p.P468P|RBBP6_uc002dmi.2_Silent_p.P601P|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Silent_p.P468P	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	601					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		GTGTCCCTCCTCCAGGGTTTC	0.363													126	223					0	0	1	0	0		C	24578677	C	C	24578677	2	2	89	1	0	0	0	0	0	0	0	1	13128	1538	54	3		3	RBBP6	16	24578677	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	26647	24578677	65776076	5443	59274											
TNRC6A	27327	broad.mit.edu	37	chr16	24802647	24802647	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaacttggtaaaactagttCtttcacttggggaaacaaca	14	11	8	8	1	2	0	1	0	1	0	2	2	2	1	0	3	4	2	0	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:24802647C>A	uc002dmm.2	+	6	2798	c.2684C>A	c.(2683-2685)TCT>TAT	p.S895Y	TNRC6A_uc010bxs.2_Missense_Mutation_p.S642Y|TNRC6A_uc010vcc.1_Missense_Mutation_p.S642Y|TNRC6A_uc002dmn.2_Missense_Mutation_p.S642Y|TNRC6A_uc002dmo.2_Missense_Mutation_p.S642Y	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	895	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		AAAACTAGTTCTTTCACTTGG	0.453													35	63					2.42023e-17	2.79957e-17	1	1	0		A	24802647	A	A	24802647	3	1	89	1	0	0	0	0	1	0	0	0	16365	913	32	5	2706	5	TNRC6A	16	24802647	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	223970	24802647	65552106	5444	59275											
TNRC6A	27327	broad.mit.edu	37	chr16	24803039	24803039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacatgtggaacaaaaacGtcccaaatggcaacagccgt	16	6	9	10	2	0	1	0	1	0	0	1	2	1	2	2	2	5	1	2	2	6	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:24803039G>A	uc002dmm.2	+	6	3190	c.3076G>A	c.(3076-3078)GTC>ATC	p.V1026I	TNRC6A_uc010bxs.2_Missense_Mutation_p.V773I|TNRC6A_uc010vcc.1_Missense_Mutation_p.V773I|TNRC6A_uc002dmn.2_Missense_Mutation_p.V773I|TNRC6A_uc002dmo.2_Missense_Mutation_p.V773I	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1026	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		GAACAAAAACGTCCCAAATGG	0.463													25	38					0	0	1	0	0		A	24803039	A	A	24803039	3	1	89	1	0	0	0	0	1	0	0	0	16365	1145	40	1	3098	1	TNRC6A	16	24803039	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	392	24803039	65551714	5445	59276											
IL21R	50615	broad.mit.edu	37	chr16	27460524	27460524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttcaccagccccggggacGaaggacccccccggagctac	9	3	11	18	3	1	0	1	0	0	0	1	4	1	3	6	4	3	1	6	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:27460524G>A	uc002doq.1	+	9	1770	c.1537G>A	c.(1537-1539)GAA>AAA	p.E513K	IL21R_uc002dor.1_Missense_Mutation_p.E513K|IL21R_uc002dos.1_Missense_Mutation_p.E513K|uc002dot.2_RNA	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	513	Cytoplasmic (Potential).				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						CCCCGGGGACGAAGGACCCCC	0.637			T	BCL6	NHL								20	53					0	0	1	0	0		A	27460524	A	A	27460524	3	1	89	1	0	0	0	0	1	0	0	0	7687	1059	37	1	1567	1	IL21R	16	27460524	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2657485	27460524	62894229	5446	59277											
KIAA0556	23247	broad.mit.edu	37	chr16	27772749	27772749	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggccttcagctgaattTcactgcctcctggggagact	7	11	11	12	0	2	2	2	1	0	1	3	3	3	2	3	3	3	2	3	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:27772749T>C	uc002dow.2	+	19	3671	c.3647T>C	c.(3646-3648)TTC>TCC	p.F1216S		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	1216										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						CAGCTGAATTTCACTGCCTCC	0.567													20	50					0	0	1	0	0		C	27772749	C	C	27772749	3	2	89	1	0	0	0	0	1	0	0	0	8199	1783	62	3	3721	3	KIAA0556	16	27772749	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	312225	27772749	62582004	5447	59278											
GSG1L	146395	broad.mit.edu	37	chr16	27818854	27818854	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctaagtgaaagtcctcctcGctcccgtccctcttctccat	6	13	5	17	2	3	1	0	1	3	0	9	1	7	1	5	0	0	1	5	0	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:27818854G>A	uc002doz.2	-	6	937	c.852C>T	c.(850-852)AGC>AGT	p.S284S	GSG1L_uc010bya.1_Silent_p.S233S|GSG1L_uc010bxz.1_Silent_p.S147S|GSG1L_uc002doy.2_Silent_p.S129S	NM_001109763	NP_001103233	Q6UXU4	GSG1L_HUMAN	GSG1-like isoform 1	284						integral to membrane				ovary(1)	1						AGTCCTCCTCGCTCCCGTCCC	0.498													17	25					0	0	1	0	0		A	27818854	A	A	27818854	2	1	89	1	0	0	0	0	0	0	0	1	6837	1078	38	1		1	GSG1L	16	27818854	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	46105	27818854	62535899	5448	59279											
CD19	930	broad.mit.edu	37	chr16	28946860	28946860	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgttcccttgtgggcattCttcatcttcaaagaggtgag	7	15	11	8	0	4	2	2	1	2	1	5	2	5	2	1	2	0	2	1	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:28946860C>A	uc002drs.2	+	5	993	c.931C>A	c.(931-933)CTT>ATT	p.L311I	uc010vct.1_Intron|CD19_uc010byo.1_Missense_Mutation_p.L311I	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	311	Helical; (Potential).				cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						TGTGGGCATTCTTCATCTTCA	0.532													13	36					4.3838e-07	4.58765e-07	1	1	0		A	28946860	A	A	28946860	3	1	89	1	0	0	0	0	1	0	0	0	2976	913	32	5	949	5	CD19	16	28946860	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1128006	28946860	61407893	5449	59280											
CD19	930	broad.mit.edu	37	chr16	28947495	28947495	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtcctgaggaggaaaaGaaagcgaatgactgacccca	14	5	12	10	1	0	4	0	3	0	1	1	7	1	6	4	3	1	0	4	3	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:28947495G>T	uc002drs.2	+	6	1030	c.968G>T	c.(967-969)AGA>ATA	p.R323I	uc010vct.1_Intron|CD19_uc010byo.1_Missense_Mutation_p.R323I	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	323	Cytoplasmic (Potential).				cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						AGGAGGAAAAGAAAGCGAATG	0.522													22	39					2.70639e-06	2.81248e-06	1	1	0		T	28947495	T	T	28947495	3	4	89	1	0	0	0	0	1	0	0	0	2976	942	33	5	990	5	CD19	16	28947495	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	635	28947495	61407258	5450	59281											
C16orf54	283897	broad.mit.edu	37	chr16	29755699	29755699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcaggatccgggctccctgGccgctgcctcctggcctggg	2	8	14	17	2	1	0	1	0	0	0	4	1	4	1	6	5	1	2	6	5	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:29755699G>A	uc002dtp.2	-	2	683	c.574C>T	c.(574-576)CCA>TCA	p.P192S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|uc002dtq.1_5'Flank	NM_175900	NP_787096	Q6UWD8	CP054_HUMAN	hypothetical protein LOC283897	192						integral to membrane					0						GGGCTCCCTGGCCGCTGCCTC	0.692													5	8					0	0	1	0	0		A	29755699	A	A	29755699	3	1	89	1	0	0	0	0	1	0	0	0	1822	1203	42	2	104	2	C16orf54	16	29755699	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	808204	29755699	60599054	5451	59282											
PRRT2	112476	broad.mit.edu	37	chr16	29825012	29825012	+	Frame_Shift_Del	DEL	G	-	-																															aaaaatcccccccagccaatGgggcccccccccgagtgctg																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:29825012delG	uc002due.3	+	2	938	c.637delG	c.(637-639)GGGfs	p.G213fs	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|uc002duc.1_5'Flank|PRRT2_uc002dud.2_Frame_Shift_Del_p.G213fs|PRRT2_uc002duf.1_Frame_Shift_Del_p.G213fs|C16orf53_uc002dug.3_5'Flank	NM_145239	NP_660282	Q7Z6L0	PRRT2_HUMAN	proline-rich transmembrane protein 2	213	Extracellular (Potential).|Pro-rich.				response to biotic stimulus	integral to membrane					0						CCCAGCCAATGGGGCCCCCCC	0.642													7	16	---	---	---	---						.	-	29825012	-	-	29825012	7	5	89	1	0	1	0	1	0	0	0	0	12632	1348	47	0	639	0	PRRT2	16	29825012	Frame_Shift_Del	DEL	G	TCGA-BR-8680-01A-11D-2394-08	69313	29825012	60529741	5452	59283											
TAOK2	9344	broad.mit.edu	37	chr16	29994826	29994826	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctatctccctctagggCtctgacaacctatatgatga	9	13	6	13	0	4	3	0	3	4	0	5	3	4	3	3	1	1	1	3	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:29994826C>T	uc002dva.1	+	13	2046	c.1263C>T	c.(1261-1263)GGC>GGT	p.G421G	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Silent_p.G421G|TAOK2_uc002dvc.1_Silent_p.G421G|TAOK2_uc010bzm.1_Silent_p.G428G|TAOK2_uc002dvd.1_Silent_p.G248G	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	421					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CCCTCTAGGGCTCTGACAACC	0.592													157	261					0	0	1	0	0		T	29994826	T	T	29994826	2	4	89	1	0	0	0	0	0	0	0	1	15573	784	28	2		2	TAOK2	16	29994826	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	169814	29994826	60359927	5453	59284											
ITGAL	3683	broad.mit.edu	37	chr16	30522424	30522424	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcagccactaccatcatccCcatcctgtaccccatcaaca	11	8	2	20	0	3	0	3	0	0	0	5	0	5	0	7	0	4	1	7	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:30522424C>A	uc002dyi.3	+	24	2929	c.2753C>A	c.(2752-2754)CCC>CAC	p.P918H	ITGAL_uc002dyj.3_Missense_Mutation_p.P834H|ITGAL_uc010vev.1_Missense_Mutation_p.P152H	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	918	Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	ACCATCATCCCCATCCTGTAC	0.582													34	91					1.836e-18	2.1465e-18	1	1	0		A	30522424	A	A	30522424	3	1	89	1	0	0	0	0	1	0	0	0	7902	623	22	5	2847	5	ITGAL	16	30522424	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	527598	30522424	59832329	5454	59285											
SRCAP	10847	broad.mit.edu	37	chr16	30731499	30731499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcggatagacatgggtcGatttgaccttattggcctgg	8	11	14	8	2	0	2	0	1	0	1	1	4	0	3	2	4	1	1	2	4	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:30731499G>A	uc002dze.1	+	19	3219	c.2834G>A	c.(2833-2835)CGA>CAA	p.R945Q	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.R802Q|SRCAP_uc010bzz.1_Missense_Mutation_p.R515Q	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	945					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			GACATGGGTCGATTTGACCTT	0.363													106	243					0	0	1	0	0		A	30731499	A	A	30731499	3	1	89	1	0	0	0	0	1	0	0	0	15160	1058	37	1	2900	1	SRCAP	16	30731499	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	209075	30731499	59623254	5455	59286											
ITGAM	3684	broad.mit.edu	37	chr16	31277142	31277142	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccccgcagtccccgtggaGgccgtgaacatgtccctggg	5	7	14	15	3	0	1	0	1	0	0	3	2	3	2	6	3	1	1	6	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:31277142G>A	uc002ebq.2	+	4	347	c.249G>A	c.(247-249)GAG>GAA	p.E83E	ITGAM_uc002ebr.2_Silent_p.E83E	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	83	FG-GAP 2.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						TCCCCGTGGAGGCCGTGAACA	0.657													19	21					0	0	1	0	0		A	31277142	A	A	31277142	2	1	89	1	0	0	0	0	0	0	0	1	7903	991	35	4		4	ITGAM	16	31277142	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	545643	31277142	59077611	5456	59287											
ITGAM	3684	broad.mit.edu	37	chr16	31282341	31282341	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtagcatcatcccacatgActttcggcggatgaaggagt	10	10	12	9	2	1	2	1	2	0	0	3	4	2	4	1	4	1	2	1	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:31282341A>C	uc002ebq.2	+	6	592	c.494A>C	c.(493-495)GAC>GCC	p.D165A	ITGAM_uc002ebr.2_Missense_Mutation_p.D165A	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	165	VWFA.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						ATCCCACATGACTTTCGGCGG	0.478													78	138					0	0	1	0	0		C	31282341	C	C	31282341	3	2	89	1	0	0	0	0	1	0	0	0	7903	275	10	5	516	5	ITGAM	16	31282341	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	5199	31282341	59072412	5457	59288											
ITGAX	3687	broad.mit.edu	37	chr16	31382767	31382767	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcagaccctggtacagTccaacatctgcctttacatt	10	11	7	13	0	1	2	0	1	1	1	2	2	2	2	3	1	5	2	3	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:31382767T>C	uc002ebu.1	+	16	2021	c.1954T>C	c.(1954-1956)TCC>CCC	p.S652P	ITGAX_uc002ebt.2_Missense_Mutation_p.S652P	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	652	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CCTGGTACAGTCCAACATCTG	0.587													24	43					0	0	1	0	0		C	31382767	C	C	31382767	3	2	89	1	0	0	0	0	1	0	0	0	7905	1667	58	3	2016	3	ITGAX	16	31382767	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	100426	31382767	58971986	5458	59289											
ITGAX	3687	broad.mit.edu	37	chr16	31391336	31391336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgctcctcagagaaaatcGcacccccagcatctgacttc	10	8	8	15	1	2	2	1	1	1	1	5	3	3	2	3	1	2	3	3	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:31391336G>A	uc002ebu.1	+	26	3077	c.3010G>A	c.(3010-3012)GCA>ACA	p.A1004T	ITGAX_uc002ebt.2_Missense_Mutation_p.A1004T	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	1004	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						AGAGAAAATCGCACCCCCAGC	0.577													26	47					0	0	1	0	0		A	31391336	A	A	31391336	3	1	89	1	0	0	0	0	1	0	0	0	7905	1087	38	1	3112	1	ITGAX	16	31391336	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8569	31391336	58963417	5459	59290											
ITGAD	3681	broad.mit.edu	37	chr16	31405651	31405651	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcagagcgtggtgcagttCggtggatctcggtaggcccc	5	8	18	10	3	1	1	0	0	1	1	3	2	1	2	2	6	2	4	2	6	1	2	rs140142659	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:31405651C>T	uc002ebv.1	+	2	175	c.126C>T	c.(124-126)TTC>TTT	p.F42F	ITGAD_uc010vfl.1_Silent_p.F42F|ITGAD_uc010cap.1_Silent_p.F42F	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	42	Extracellular (Potential).|FG-GAP 1.				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						TGGTGCAGTTCGGTGGATCTC	0.587													12	32					0	0	1	0	0		T	31405651	T	T	31405651	2	4	89	1	0	0	0	0	0	0	0	1	7900	883	31	1		1	ITGAD	16	31405651	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14315	31405651	58949102	5460	59291											
C16orf58	64755	broad.mit.edu	37	chr16	31504366	31504366	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagctgctgcagctcaaaGacactgtgggggagaggaca	12	5	14	10	0	1	2	1	0	0	2	1	4	1	3	1	3	4	4	1	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:31504366G>T	uc002eci.1	-	10	1032	c.1020C>A	c.(1018-1020)GTC>GTA	p.V340V	C16orf58_uc002ech.1_Silent_p.V78V	NM_022744	NP_073581	Q96GQ5	CP058_HUMAN	hypothetical protein LOC64755	340						integral to membrane				ovary(1)|breast(1)	2						GCAGCTCAAAGACACTGTGGG	0.577													10	23					0.0581538	0.0584033	1	1	0		T	31504366	T	T	31504366	2	4	89	1	0	0	0	0	0	0	0	1	1825	929	33	5		5	C16orf58	16	31504366	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	98715	31504366	58850387	5461	59292											
AHSP	51327	broad.mit.edu	37	chr16	31539893	31539894	+	Missense_Mutation	DNP	GA	TG	TG																															caggggagccccaagagcgaGacaaggctctgcaggagctt																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:31539893_31539894GA>TG	uc002ecj.2	+	3	275_276	c.190_191GA>TG	c.(190-192)GAC>TGC	p.D64C		NM_016633	NP_057717	Q9NZD4	AHSP_HUMAN	erythroid associated factor	64					hemoglobin metabolic process|hemopoiesis|protein folding|protein stabilization	hemoglobin complex	hemoglobin binding|unfolded protein binding				0						CCAAGAGCGAGACAAGGCTCTG	0.545													18	55					0	0	1	0	0		TG	31539894	TG	TG	31539893	3	4	89	1	0	0	0	0	1	0	0	0	421	942	33	5	196	5	AHSP	16	31539893	Missense_Mutation	DNP	GA	TCGA-BR-8680-01A-11D-2394-08	35527	31539893	58814860	5462	59293											
ZNF267	10308	broad.mit.edu	37	chr16	31927273	31927273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaccttattcgacatcatcGaattcatactggagaaaaac	16	10	5	10	2	2	1	2	0	0	1	4	4	2	1	1	1	2	0	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:31927273G>A	uc002ecs.3	+	4	1912	c.1703G>A	c.(1702-1704)CGA>CAA	p.R568Q		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	568	C2H2-type 9.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						CGACATCATCGAATTCATACT	0.388													23	43					0	0	1	0	0		A	31927273	A	A	31927273	3	1	89	1	0	0	0	0	1	0	0	0	17831	1058	37	1	1717	1	ZNF267	16	31927273	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	387380	31927273	58427480	5463	59294											
SHCBP1	79801	broad.mit.edu	37	chr16	46633805	46633805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgagattttaatatcagcaCcagtgcagtccacaaaagtg	14	10	8	9	0	1	1	1	1	0	1	2	2	2	1	2	0	2	2	2	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:46633805C>T	uc002eec.3	-	9	1323	c.1283G>A	c.(1282-1284)GGT>GAT	p.G428D		NM_024745	NP_079021	Q8NEM2	SHCBP_HUMAN	SHC SH2-domain binding protein 1	428	PbH1 1.									ovary(1)|breast(1)	2		all_cancers(37;0.00404)|all_epithelial(9;0.00527)|all_lung(18;0.0413)|Lung NSC(13;0.213)				AATATCAGCACCAGTGCAGTC	0.393													23	30					0	0	1	0	0		T	46633805	T	T	46633805	3	4	89	1	0	0	0	0	1	0	0	0	14299	507	18	4	755	4	SHCBP1	16	46633805	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14706532	46633805	43720948	5464	59295											
MYLK3	91807	broad.mit.edu	37	chr16	46766221	46766221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctgctcaggctcagggtttCccgcccctgggcttttgccc	2	11	11	17	1	2	0	2	0	0	0	3	0	3	0	5	3	2	4	5	3	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:46766221C>T	uc002eei.3	-	4	1477	c.1361G>A	c.(1360-1362)GGA>GAA	p.G454E	MYLK3_uc010vge.1_Missense_Mutation_p.G113E|MYLK3_uc002eej.1_Missense_Mutation_p.G113E	NM_182493	NP_872299	Q32MK0	MYLK3_HUMAN	myosin light chain kinase 3	454					cardiac myofibril assembly|cellular response to interleukin-1|positive regulation of sarcomere organization|regulation of vascular permeability involved in acute inflammatory response|sarcomere organization|sarcomerogenesis	cytosol	ATP binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			stomach(2)|skin(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	7		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				CTCAGGGTTTCCCGCCCCTGG	0.672													25	57					0	0	1	0	0		T	46766221	T	T	46766221	3	4	89	1	0	0	0	0	1	0	0	0	10076	855	30	4	1138	4	MYLK3	16	46766221	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	132416	46766221	43588532	5465	59296											
NETO2	81831	broad.mit.edu	37	chr16	47162324	47162324	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatgaatctccctgttgaTctaattaatggagggctttt	10	15	8	8	0	2	2	0	2	2	0	3	3	2	3	1	2	0	2	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:47162324T>C	uc002eer.1	-	4	778	c.393A>G	c.(391-393)AGA>AGG	p.R131R	NETO2_uc010vgf.1_5'UTR|NETO2_uc002ees.1_Silent_p.R131R	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	131	Extracellular (Potential).|CUB 1.					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				TCCCTGTTGATCTAATTAATG	0.398										HNSCC(25;0.065)			52	97					0	0	1	0	0		C	47162324	C	C	47162324	2	2	89	1	0	0	0	0	0	0	0	1	10359	1432	50	3		3	NETO2	16	47162324	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	396103	47162324	43192429	5466	59297											
NETO2	81831	broad.mit.edu	37	chr16	47163219	47163219	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgacctccattgctggttcGaacccaaatgccacactggg	10	9	9	13	1	0	1	0	1	0	0	2	2	1	1	4	2	3	2	4	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:47163219G>A	uc002eer.1	-	3	533	c.148C>T	c.(148-150)CGA>TGA	p.R50*	NETO2_uc010vgf.1_5'Flank|NETO2_uc002ees.1_Nonsense_Mutation_p.R50*	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	50	Extracellular (Potential).|CUB 1.					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				TTGCTGGTTCGAACCCAAATG	0.398										HNSCC(25;0.065)			55	113					0	0	1	0	0		A	47163219	A	A	47163219	4	1	89	1	0	0	0	0	0	1	0	0	10359	1066	37	1	1457	1	NETO2	16	47163219	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	895	47163219	43191534	5467	59298											
PHKB	5257	broad.mit.edu	37	chr16	47723014	47723014	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagacaagccagccttggActtgtatcagctgtcaccta	10	9	10	12	1	2	1	2	0	0	1	2	3	2	2	3	2	3	2	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:47723014A>T	uc002eev.3	+	27	2745	c.2693A>T	c.(2692-2694)GAC>GTC	p.D898V	PHKB_uc002eeu.3_Missense_Mutation_p.D891V|PHKB_uc002eew.3_Missense_Mutation_p.D139V	NM_000293	NP_000284	Q93100	KPBB_HUMAN	phosphorylase kinase, beta isoform a	898					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				CCAGCCTTGGACTTGTATCAG	0.463													28	76					0	0	1	0	0		T	47723014	T	T	47723014	3	4	89	1	0	0	0	0	1	0	0	0	11864	275	10	5	2953	5	PHKB	16	47723014	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	559795	47723014	42631739	5468	59299											
ABCC12	94160	broad.mit.edu	37	chr16	48122497	48122497	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgactgtctgcccacttTgtatgttcaagttcaggctg	6	14	9	12	1	3	0	2	0	1	0	4	1	4	0	2	1	1	4	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:48122497T>G	uc002efc.1	-	24	3780	c.3434A>C	c.(3433-3435)CAA>CCA	p.Q1145P	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1145	ABC transporter 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CTGCCCACTTTGTATGTTCAA	0.488													30	56					0	0	1	0	0		G	48122497	G	G	48122497	3	3	89	1	0	0	0	0	1	0	0	0	52	1812	63	5	669	5	ABCC12	16	48122497	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	399483	48122497	42232256	5469	59300											
ABCC12	94160	broad.mit.edu	37	chr16	48167666	48167666	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacgatggctatggtggAcacgatgggggccagggcag	9	5	18	9	2	0	0	0	0	0	0	0	3	0	1	1	6	1	3	1	6	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:48167666A>G	uc002efc.1	-	7	1406	c.1060T>C	c.(1060-1062)TCC>CCC	p.S354P	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.S354P|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	354	ABC transmembrane type-1 1.|Helical; (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				GCTATGGTGGACACGATGGGG	0.498													22	46					0	0	1	0	0		G	48167666	G	G	48167666	3	3	89	1	0	0	0	0	1	0	0	0	52	275	10	3	3111	3	ABCC12	16	48167666	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	45169	48167666	42187087	5470	59301											
ABCC11	85320	broad.mit.edu	37	chr16	48226615	48226615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatggttccattgctctctCggctgctattggtcttcaag	5	15	9	12	1	3	0	1	0	2	0	6	0	4	0	2	3	2	4	2	3	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:48226615C>T	uc002eff.1	-	19	2872	c.2522G>A	c.(2521-2523)CGA>CAA	p.R841Q	ABCC11_uc002efg.1_Missense_Mutation_p.R841Q|ABCC11_uc002efh.1_Missense_Mutation_p.R841Q|ABCC11_uc010vgk.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	841	ABC transmembrane type-1 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				ATTGCTCTCTCGGCTGCTATT	0.562									Cerumen_Type				32	56					0	0	1	0	0		T	48226615	T	T	48226615	3	4	89	1	0	0	0	0	1	0	0	0	51	884	31	1	1670	1	ABCC11	16	48226615	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	58949	48226615	42128138	5471	59302											
ABCC11	85320	broad.mit.edu	37	chr16	48249223	48249223	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgacctcagatgtgtgatgCtgagccttcacagccattct	8	12	9	12	0	3	4	2	3	1	1	3	4	3	4	3	0	3	1	3	0	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:48249223C>T	uc002eff.1	-	7	1334	c.984G>A	c.(982-984)CAG>CAA	p.Q328Q	ABCC11_uc002efg.1_Silent_p.Q328Q|ABCC11_uc002efh.1_Silent_p.Q328Q|ABCC11_uc010vgk.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	328	ABC transmembrane type-1 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				ATGTGTGATGCTGAGCCTTCA	0.473									Cerumen_Type				37	65					0	0	1	0	0		T	48249223	T	T	48249223	2	4	89	1	0	0	0	0	0	0	0	1	51	796	28	2		2	ABCC11	16	48249223	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	22608	48249223	42105530	5472	59303											
ABCC11	85320	broad.mit.edu	37	chr16	48265757	48265757	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataagtcctgaaaccatgtCatcgcctatgtcgatgccac	12	10	7	12	2	1	1	1	1	0	0	4	2	2	1	4	0	2	0	4	0	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:48265757C>A	uc002eff.1	-	1	426	c.76G>T	c.(76-78)GAC>TAC	p.D26Y	ABCC11_uc002efg.1_Missense_Mutation_p.D26Y|ABCC11_uc002efh.1_Missense_Mutation_p.D26Y|ABCC11_uc010vgl.1_Missense_Mutation_p.D26Y	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	26	Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				GAAACCATGTCATCGCCTATG	0.448									Cerumen_Type				61	106					1.40369e-38	1.73832e-38	1	1	0		A	48265757	A	A	48265757	3	1	89	1	0	0	0	0	1	0	0	0	51	826	29	5	4188	5	ABCC11	16	48265757	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	16534	48265757	42088996	5473	59304											
LONP2	83752	broad.mit.edu	37	chr16	48381506	48381506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgttcgtggaggcgagtcGaatggatggcgagggccagt	8	8	18	7	4	0	0	0	0	0	0	2	5	0	2	1	5	0	1	1	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:48381506G>A	uc002efi.1	+	13	2116	c.2027G>A	c.(2026-2028)CGA>CAA	p.R676Q	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Missense_Mutation_p.R632Q	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	676					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						GAGGCGAGTCGAATGGATGGC	0.557													37	68					0	0	1	0	0		A	48381506	A	A	48381506	3	1	89	1	0	0	0	0	1	0	0	0	8911	1058	37	1	2077	1	LONP2	16	48381506	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	115749	48381506	41973247	5474	59305											
ZNF423	23090	broad.mit.edu	37	chr16	49671572	49671572	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgggagacgcggatgtgCtcctgcaggctattgatgtc	7	10	15	9	2	0	2	0	1	0	1	2	4	1	3	1	3	2	3	1	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:49671572C>T	uc002efs.2	-	5	1789	c.1491G>A	c.(1489-1491)GAG>GAA	p.E497E	ZNF423_uc010vgn.1_Silent_p.E380E	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	497	C2H2-type 11.			E->A: Abolishes the ability to bind promoter of BMP target genes; when associated with A-420; A-426; A-452; A- 458; A-491; A-528; A-534; A-574 and A- 581.	cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				CGCGGATGTGCTCCTGCAGGC	0.547													26	57					0	0	1	0	0		T	49671572	T	T	49671572	2	4	89	1	0	0	0	0	0	0	0	1	17923	796	28	2		2	ZNF423	16	49671572	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1290066	49671572	40683181	5475	59306											
ZNF423	23090	broad.mit.edu	37	chr16	49671995	49671995	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccagtacagggtcgggActgacactgtggttgctgga	7	9	15	10	1	0	1	0	1	0	0	1	3	0	3	1	4	3	3	1	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:49671995A>C	uc002efs.2	-	5	1366	c.1068T>G	c.(1066-1068)AGT>AGG	p.S356R	ZNF423_uc010vgn.1_Missense_Mutation_p.S239R	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	356					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				CAGGGTCGGGACTGACACTGT	0.647													9	26					0	0	1	0	0		C	49671995	C	C	49671995	3	2	89	1	0	0	0	0	1	0	0	0	17923	272	10	5	2806	5	ZNF423	16	49671995	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	423	49671995	40682758	5476	59307											
ZNF423	23090	broad.mit.edu	37	chr16	49764857	49764857	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacggctggttttctgatcGcactctggctctccttctag	4	14	10	13	2	4	1	0	1	4	0	6	1	4	1	1	3	0	5	1	3	1	4	rs139517505		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:49764857G>A	uc002efs.2	-	4	400	c.102C>T	c.(100-102)TGC>TGT	p.C34C		NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	34					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				TTTTCTGATCGCACTCTGGCT	0.493													84	115					0	0	1	0	0		A	49764857	A	A	49764857	2	1	89	1	0	0	0	0	0	0	0	1	17923	1079	38	1		1	ZNF423	16	49764857	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	92862	49764857	40589896	5477	59308											
HEATR3	55027	broad.mit.edu	37	chr16	50104153	50104153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaagatcagaacagaaattCtattgagaacatagccaatg	20	8	7	6	0	2	4	1	1	1	4	2	5	2	4	1	0	3	0	1	0	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:50104153C>T	uc002efw.2	+	4	626	c.464C>T	c.(463-465)TCT>TTT	p.S155F	HEATR3_uc002efx.2_Missense_Mutation_p.S69F	NM_182922	NP_891552	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3	155							binding			ovary(1)|skin(1)	2						AACAGAAATTCTATTGAGAAC	0.428													22	46					0	0	1	0	0		T	50104153	T	T	50104153	3	4	89	1	0	0	0	0	1	0	0	0	7045	913	32	4	478	4	HEATR3	16	50104153	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	339296	50104153	40250600	5478	59309											
HEATR3	55027	broad.mit.edu	37	chr16	50112911	50112911	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagtcagaaggaaaactttCgtttcagatttacttccggt	12	13	9	7	2	2	3	2	0	0	3	4	4	3	4	1	2	2	1	1	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:50112911C>T	uc002efw.2	+	7	1185	c.1023C>T	c.(1021-1023)TTC>TTT	p.F341F	HEATR3_uc002efx.2_Silent_p.F255F	NM_182922	NP_891552	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3	341							binding			ovary(1)|skin(1)	2						GGAAAACTTTCGTTTCAGATT	0.353													36	79					0	0	1	0	0		T	50112911	T	T	50112911	2	4	89	1	0	0	0	0	0	0	0	1	7045	883	31	1		1	HEATR3	16	50112911	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8758	50112911	40241842	5479	59310											
BRD7	29117	broad.mit.edu	37	chr16	50384079	50384079	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagcacttggatcttttCtgtaaagatatgcaaaagac	16	11	8	6	0	2	3	0	0	2	3	2	4	2	4	0	1	2	3	0	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:50384079C>A	uc002egf.1	-	6	514	c.447_splice	c.e6-1	p.R149_splice	BRD7_uc002ege.1_Splice_Site_p.R149_splice	NM_013263	NP_037395	Q9NPI1	BRD7_HUMAN	bromodomain containing 7						cell cycle|negative regulation of cell proliferation|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of histone acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleus	histone acetyl-lysine binding|p53 binding|transcription coactivator activity|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding				0		all_cancers(37;0.0127)				TGGATCTTTTCTGTAAAGATA	0.348													23	34					2.98393e-07	3.12828e-07	1	1	0		A	50384079	A	A	50384079	5	1	89	1	0	0	0	0	0	0	1	0	1508	927	32	5	1564	5	BRD7	16	50384079	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	271168	50384079	39970674	5480	59311											
SNX20	124460	broad.mit.edu	37	chr16	50709814	50709814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcatgctggagttggagCtcaggccactgtgtgtgtct	5	13	15	8	0	3	0	2	0	1	0	3	2	3	2	1	4	2	3	1	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:50709814C>T	uc002egk.2	-	3	322	c.149G>A	c.(148-150)AGC>AAC	p.S50N	SNX20_uc010vgp.1_Missense_Mutation_p.S50N|SNX20_uc002egi.3_Missense_Mutation_p.S50N	NM_182854	NP_878274	Q7Z614	SNX20_HUMAN	sorting nexin 20 isoform 1	50					cell communication|protein transport	endosome membrane|nucleus|plasma membrane	phosphatidylinositol binding|protein binding			ovary(1)	1						GGAGTTGGAGCTCAGGCCACT	0.562													18	36					0	0	1	0	0		T	50709814	T	T	50709814	3	4	89	1	0	0	0	0	1	0	0	0	14917	797	28	2	952	2	SNX20	16	50709814	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	325735	50709814	39644939	5481	59312											
NOD2	64127	broad.mit.edu	37	chr16	50759457	50759457	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcgcagaaggactgaaGaaaaattcaagtttgaaaat	17	10	8	6	1	2	4	1	2	1	2	4	5	2	5	0	1	0	2	0	1	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:50759457G>T	uc002egm.1	+	10	3045	c.2940G>T	c.(2938-2940)AAG>AAT	p.K980N	NOD2_uc010vgq.1_Missense_Mutation_p.K25N	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	980					activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				AAGGACTGAAGAAAAATTCAA	0.423													14	60					2.32078e-09	2.49434e-09	1	1	0		T	50759457	T	T	50759457	3	4	89	1	0	0	0	0	1	0	0	0	10536	933	33	5	2978	5	NOD2	16	50759457	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	49643	50759457	39595296	5482	59313											
CYLD	1540	broad.mit.edu	37	chr16	50784016	50784016	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtgaaagtacagctgaGatctggggaagaaaaatttc	14	10	11	6	0	1	3	0	2	1	2	3	5	2	4	1	2	2	2	1	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:50784016G>T	uc002egp.1	+	4	822	c.407G>T	c.(406-408)AGA>ATA	p.R136I	CYLD_uc002egn.1_Missense_Mutation_p.R136I|CYLD_uc002ego.2_Missense_Mutation_p.R136I|CYLD_uc010cbs.1_Missense_Mutation_p.R136I|CYLD_uc002egq.1_Missense_Mutation_p.R136I|CYLD_uc002egr.1_Missense_Mutation_p.R136I|CYLD_uc002egs.1_Missense_Mutation_p.R136I	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	136	Interaction with TRIP.				cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				GTACAGCTGAGATCTGGGGAA	0.448			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				50	95					2.56175e-15	2.9151e-15	1	1	0		T	50784016	T	T	50784016	3	4	89	1	0	0	0	0	1	0	0	0	4146	942	33	5	409	5	CYLD	16	50784016	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24559	50784016	39570737	5483	59314											
SALL1	6299	broad.mit.edu	37	chr16	51173150	51173150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgtttttaaatttaccccGgtctctaaaagggaagagga	13	12	10	6	1	1	1	0	0	1	1	2	3	1	3	2	3	1	1	2	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:51173150G>A	uc010vgs.1	-	2	3014	c.2983C>T	c.(2983-2985)CGG>TGG	p.R995W	SALL1_uc010vgr.1_Missense_Mutation_p.R898W|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	995					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			AATTTACCCCGGTCTCTAAAA	0.433													28	69					0	0	1	0	0		A	51173150	A	A	51173150	3	1	89	1	0	0	0	0	1	0	0	0	13835	1115	39	1	999	1	SALL1	16	51173150	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	389134	51173150	39181603	5484	59315											
SALL1	6299	broad.mit.edu	37	chr16	51175943	51175943	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattgatttttagtacagtTcttcttgtggagcagaagat	11	17	9	4	0	2	3	0	1	2	2	2	4	2	4	0	1	2	3	0	1	4	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:51175943T>C	uc010vgs.1	-	2	221	c.190A>G	c.(190-192)AAC>GAC	p.N64D	SALL1_uc010vgr.1_5'UTR|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	64					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TTAGTACAGTTCTTCTTGTGG	0.488													27	132					0	0	1	0	0		C	51175943	C	C	51175943	3	2	89	1	0	0	0	0	1	0	0	0	13835	1783	62	3	3792	3	SALL1	16	51175943	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2793	51175943	39178810	5485	59316											
CHD9	80205	broad.mit.edu	37	chr16	53190731	53190731	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagcacacttccacaagTgtagcagtcatcaagaagga	14	8	8	11	0	3	1	3	0	0	1	4	2	4	2	1	1	2	3	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:53190731T>C	uc002ehb.2	+	1	894	c.730T>C	c.(730-732)TGT>CGT	p.C244R	CHD9_uc002egy.2_Missense_Mutation_p.C244R|CHD9_uc002egz.1_Missense_Mutation_p.C244R|CHD9_uc002eha.1_Missense_Mutation_p.C244R|CHD9_uc002ehc.2_Missense_Mutation_p.C244R	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	244	Ser-rich.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				CTTCCACAAGTGTAGCAGTCA	0.373													40	97					0	0	1	0	0		C	53190731	C	C	53190731	3	2	89	1	0	0	0	0	1	0	0	0	3335	1696	59	3	732	3	CHD9	16	53190731	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2014788	53190731	37164022	5486	59317											
CHD9	80205	broad.mit.edu	37	chr16	53302013	53302013	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actccaactgaagatggacaGacacgagagctacagaatca	17	5	9	10	1	1	5	1	1	0	4	2	7	2	6	1	1	3	1	1	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:53302013G>A	uc002ehb.2	+	21	4856	c.4692G>A	c.(4690-4692)CAG>CAA	p.Q1564Q	CHD9_uc002egy.2_Silent_p.Q1564Q|CHD9_uc002ehc.2_Silent_p.Q1564Q|CHD9_uc002ehf.2_Silent_p.Q678Q|CHD9_uc010cbw.2_5'UTR|CHD9_uc002ehd.2_Silent_p.Q1090Q	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	1564					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				AAGATGGACAGACACGAGAGC	0.338													8	17					0	0	1	0	0		A	53302013	A	A	53302013	2	1	89	1	0	0	0	0	0	0	0	1	3335	933	33	4		4	CHD9	16	53302013	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	111282	53302013	37052740	5487	59318											
RBL2	5934	broad.mit.edu	37	chr16	53504328	53504328	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatggagggataacattctTccctgtccaagtcaatgttg	12	12	9	8	0	2	0	1	0	1	0	4	2	4	2	2	2	1	1	2	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:53504328T>G	uc002ehi.3	+	16	2397	c.2279T>G	c.(2278-2280)TTC>TGC	p.F760C	RBL2_uc002ehj.2_Missense_Mutation_p.F470C|RBL2_uc010vgw.1_Intron	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	760	Spacer.|Pocket; binds E1A.				cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						ATAACATTCTTCCCTGTCCAA	0.493													16	52					0	0	1	0	0		G	53504328	G	G	53504328	3	3	89	1	0	0	0	0	1	0	0	0	13135	1783	62	5	2341	5	RBL2	16	53504328	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	202315	53504328	36850425	5488	59319											
AKTIP	64400	broad.mit.edu	37	chr16	53529195	53529195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taatgcagagcgataagatgGctgcacatagacgcctggta	13	8	12	8	2	0	3	0	0	0	3	0	4	0	3	1	2	3	4	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:53529195G>A	uc002ehk.2	-	4	503	c.292C>T	c.(292-294)CCA>TCA	p.P98S	AKTIP_uc002ehl.2_Missense_Mutation_p.P98S|AKTIP_uc002ehm.2_Missense_Mutation_p.P98S|AKTIP_uc010vgx.1_Missense_Mutation_p.P98S	NM_001012398	NP_001012398	Q9H8T0	AKTIP_HUMAN	AKT interacting protein	98					apoptosis|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|positive regulation of protein binding|positive regulation of protein phosphorylation|protein transport	FHF complex|plasma membrane	acid-amino acid ligase activity|protein binding				0		all_cancers(37;0.14)				CGATAAGATGGCTGCACATAG	0.383													15	32					0	0	1	0	0		A	53529195	A	A	53529195	3	1	89	1	0	0	0	0	1	0	0	0	482	1203	42	2	614	2	AKTIP	16	53529195	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24867	53529195	36825558	5489	59320											
RPGRIP1L	23322	broad.mit.edu	37	chr16	53686692	53686692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagttcaaaatcatagaaaGcataggtacagaaagtgaca	19	8	9	5	0	2	3	2	1	0	2	2	3	2	3	0	1	2	4	0	1	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:53686692G>A	uc002ehp.2	-	15	1971	c.1907C>T	c.(1906-1908)GCT>GTT	p.A636V	RPGRIP1L_uc002eho.3_Missense_Mutation_p.A636V|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.A636V|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.A636V|RPGRIP1L_uc010vgz.1_Missense_Mutation_p.A636V	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	636	C2 1.				negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				ATCATAGAAAGCATAGGTACA	0.368													32	66					0	0	1	0	0		A	53686692	A	A	53686692	3	1	89	1	0	0	0	0	1	0	0	0	13575	971	34	2	2092	2	RPGRIP1L	16	53686692	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	157497	53686692	36668061	5490	59321											
IRX6	79190	broad.mit.edu	37	chr16	55363164	55363164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggactaccgctgaactgtgCgccgtgcccgcggaggagcg	6	5	17	13	6	0	1	0	1	0	0	0	4	0	4	3	3	5	1	3	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:55363164C>T	uc002ehy.2	+	5	1807	c.1274C>T	c.(1273-1275)GCG>GTG	p.A425V	IRX6_uc002ehx.2_Missense_Mutation_p.A425V	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	425						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						CTGAACTGTGCGCCGTGCCCG	0.617													39	75					0	0	1	0	0		T	55363164	T	T	55363164	3	4	89	1	0	0	0	0	1	0	0	0	7864	768	27	1	1292	1	IRX6	16	55363164	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1676472	55363164	34991589	5491	59322											
LPCAT2	54947	broad.mit.edu	37	chr16	55562474	55562474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttaccttctatggtatctcGaaatgagaatgcacaagtcc	12	12	8	9	1	2	1	0	1	2	1	4	3	3	1	2	1	2	3	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:55562474G>A	uc002eie.3	+	3	678	c.497G>A	c.(496-498)CGA>CAA	p.R166Q		NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	166	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						ATGGTATCTCGAAATGAGAAT	0.378													43	90					0	0	1	0	0		A	55562474	A	A	55562474	3	1	89	1	0	0	0	0	1	0	0	0	8929	1058	37	1	507	1	LPCAT2	16	55562474	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	199310	55562474	34792279	5492	59323											
SLC6A2	6530	broad.mit.edu	37	chr16	55731866	55731866	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgacttccaggtcctgaagCgacaccggaaactcttcaca	12	8	8	13	2	2	2	1	2	1	0	4	4	4	3	3	2	2	0	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:55731866C>T	uc002eif.2	+	10	1429	c.1318C>T	c.(1318-1320)CGA>TGA	p.R440*	SLC6A2_uc010ccd.2_Nonsense_Mutation_p.R440*|SLC6A2_uc002eig.2_Nonsense_Mutation_p.R440*|SLC6A2_uc002eih.2_Nonsense_Mutation_p.R440*|SLC6A2_uc002eii.2_Nonsense_Mutation_p.R335*|SLC6A2_uc002eij.2_Nonsense_Mutation_p.R154*	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	440					synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	GGTCCTGAAGCGACACCGGAA	0.582													28	79					0	0	1	0	0		T	55731866	T	T	55731866	4	4	89	1	0	0	0	0	0	1	0	0	14708	760	27	1	1443	1	SLC6A2	16	55731866	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	169392	55731866	34622887	5493	59324											
CES1	1066	broad.mit.edu	37	chr16	55844493	55844493	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acatctgctatcaagtccagGaacaggtctttctttttgac	10	14	7	10	0	4	1	1	1	3	0	5	2	5	2	1	2	2	1	1	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:55844493G>T	uc002eim.2	-	11	1359	c.1251C>A	c.(1249-1251)TTC>TTA	p.F417L	CES1_uc010ccf.2_Missense_Mutation_p.F92L|CES1_uc002eil.2_Missense_Mutation_p.F418L|CES1_uc002ein.2_Missense_Mutation_p.F416L	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	417				F -> I (in Ref. 19; AAA83932).	response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	TCAAGTCCAGGAACAGGTCTT	0.473													42	237					1.22674e-20	1.44972e-20	1	1	0		T	55844493	T	T	55844493	3	4	89	1	0	0	0	0	1	0	0	0	3272	1165	41	5	468	5	CES1	16	55844493	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	112627	55844493	34510260	5494	59325											
CES1	1066	broad.mit.edu	37	chr16	55855305	55855305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagacactttctcctcccGctgactctccaaagatggtc	9	10	7	15	1	2	3	0	1	2	2	6	4	3	3	3	1	0	1	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:55855305G>A	uc002eim.2	-	5	773	c.665C>T	c.(664-666)GCG>GTG	p.A222V	CES1_uc002eil.2_Missense_Mutation_p.A223V|CES1_uc002ein.2_Missense_Mutation_p.A222V	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	222					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	TTCTCCTCCCGCTGACTCTCC	0.567													18	92					0	0	1	0	0		A	55855305	A	A	55855305	3	1	89	1	0	0	0	0	1	0	0	0	3272	1087	38	1	1078	1	CES1	16	55855305	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	10812	55855305	34499448	5495	59326											
CES7	221223	broad.mit.edu	37	chr16	55886932	55886932	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggtgcaaatactgaggCgggatgtgctgtaaaaatat	15	9	12	5	1	0	1	0	1	0	0	0	2	0	2	0	3	3	3	0	3	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:55886932C>T	uc002eip.2	-	10	1283	c.1134G>A	c.(1132-1134)CCG>CCA	p.P378P	CES7_uc002eio.2_Silent_p.P378P|CES7_uc002eiq.2_Silent_p.P139P|CES7_uc002eir.2_Silent_p.P272P	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	378						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		AATACTGAGGCGGGATGTGCT	0.383													21	51					0	0	1	0	0		T	55886932	T	T	55886932	2	4	89	1	0	0	0	0	0	0	0	1	3275	755	27	1		1	CES7	16	55886932	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	31627	55886932	34467821	5496	59327											
CES7	221223	broad.mit.edu	37	chr16	55903558	55903558	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcctagccggtactggacGaccacaaccagcacgtcctc	10	7	8	16	3	0	0	0	0	0	0	3	2	2	1	5	2	4	2	5	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:55903558G>A	uc002eip.2	-	4	665	c.516C>T	c.(514-516)GTC>GTT	p.V172V	CES7_uc002eio.2_Silent_p.V172V|CES7_uc002eiq.2_5'UTR|CES7_uc002eir.2_Silent_p.V66V	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	172						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		GGTACTGGACGACCACAACCA	0.547													10	26					0	0	1	0	0		A	55903558	A	A	55903558	2	1	89	1	0	0	0	0	0	0	0	1	3275	1045	37	1		1	CES7	16	55903558	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16626	55903558	34451195	5497	59328											
BBS2	583	broad.mit.edu	37	chr16	56534811	56534811	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagtgcagatccacagggAcatctttgggaggcacaata	13	8	11	9	0	2	1	1	0	1	1	3	3	3	3	1	3	1	2	1	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:56534811A>G	uc002ejd.2	-	11	1586	c.1352T>C	c.(1351-1353)GTC>GCC	p.V451A	BBS2_uc010ccg.2_3'UTR	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein	451					adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						ATCCACAGGGACATCTTTGGG	0.488									Bardet-Biedl_syndrome				27	59					0	0	1	0	0		G	56534811	G	G	56534811	3	3	89	1	0	0	0	0	1	0	0	0	1339	275	10	3	841	3	BBS2	16	56534811	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	631253	56534811	33819942	5498	59329											
MT1G	4495	broad.mit.edu	37	chr16	56700816	56700816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcagcagctgcacttctccGatgcccctttgcagatgcag	7	9	10	15	2	1	1	0	0	1	1	2	2	1	1	3	0	6	6	3	0	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:56700816G>A	uc002eju.1	-	3	233	c.161C>T	c.(160-162)TCG>TTG	p.S54L	MT1G_uc002ejv.1_RNA|MT1H_uc002ejw.2_5'Flank	NM_005950	NP_005941	P13640	MT1G_HUMAN	metallothionein 1G	55	Alpha.						metal ion binding|protein binding				0						GCACTTCTCCGATGCCCCTTT	0.552													59	93					0	0	1	0	0		A	56700816	A	A	56700816	3	1	89	1	0	0	0	0	1	0	0	0	9919	1059	37	1	28	1	MT1G	16	56700816	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	166005	56700816	33653937	5499	59330											
GPR114	221188	broad.mit.edu	37	chr16	57608945	57608945	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggccttggccttcttttCttttggcgtcttcctgctgc	0	18	10	13	1	3	0	0	0	3	0	4	0	4	0	3	3	2	1	3	3	0	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:57608945C>A	uc002elx.3	+	11	1512	c.1427C>A	c.(1426-1428)TCT>TAT	p.S476Y	GPR114_uc010vhr.1_Missense_Mutation_p.L437I|GPR114_uc002ely.2_Missense_Mutation_p.S476Y	NM_153837	NP_722579	Q8IZF4	GP114_HUMAN	G protein-coupled receptor 114 precursor	476	Helical; Name=6; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)	1						GCCTTCTTTTCTTTTGGCGTC	0.617													15	20					1.3612e-06	1.41942e-06	1	1	0		A	57608945	A	A	57608945	3	1	89	1	0	0	0	0	1	0	0	0	6646	913	32	5	1465	5	GPR114	16	57608945	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	908129	57608945	32745808	5500	59331											
GPR56	9289	broad.mit.edu	37	chr16	57684226	57684226	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccagtcgctgctgcagacGacactgttcctgctgagtct	6	10	10	15	2	1	2	0	1	1	1	3	3	2	2	3	0	3	5	3	0	0	1	rs142223451		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:57684226G>A	uc002emb.2	+	3	319	c.27G>A	c.(25-27)ACG>ACA	p.T9T	GPR56_uc002elz.1_Silent_p.T9T|GPR56_uc002ema.1_5'UTR|GPR56_uc002emc.2_Silent_p.T9T|GPR56_uc002emf.2_Silent_p.T9T|GPR56_uc010vhs.1_Silent_p.T9T|GPR56_uc002emd.2_Silent_p.T9T|GPR56_uc002eme.2_Silent_p.T9T|GPR56_uc010vht.1_Silent_p.T9T|GPR56_uc002emg.3_Silent_p.T9T|GPR56_uc010vhu.1_5'UTR	NM_005682	NP_005673	Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56 isoform a	9					brain development|cell adhesion|cell-cell signaling|neuropeptide signaling pathway	integral to plasma membrane	G-protein coupled receptor activity				0						TGCTGCAGACGACACTGTTCC	0.572													26	63					0	0	1	0	0		A	57684226	A	A	57684226	2	1	89	1	0	0	0	0	0	0	0	1	6715	1045	37	1		1	GPR56	16	57684226	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	75281	57684226	32670527	5501	59332											
CCDC135	84229	broad.mit.edu	37	chr16	57735979	57735979	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgtcaacggctacggctcGctggacctgtgccacatgga	7	8	13	13	4	1	0	1	0	0	0	2	2	1	2	2	4	4	3	2	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:57735979G>A	uc002emi.2	+	5	725	c.636G>A	c.(634-636)TCG>TCA	p.S212S	CCDC135_uc002emj.2_Silent_p.S212S|CCDC135_uc002emk.2_Intron	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	212						cytoplasm				central_nervous_system(1)	1						GCTACGGCTCGCTGGACCTGT	0.582													40	61					0	0	1	0	0		A	57735979	A	A	57735979	2	1	89	1	0	0	0	0	0	0	0	1	2772	1074	38	1		1	CCDC135	16	57735979	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	51753	57735979	32618774	5502	59333											
CCDC135	84229	broad.mit.edu	37	chr16	57741461	57741461	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaagcgcgaggtgcctgaGaacttcttcatcgacccatt	9	9	12	11	3	2	1	1	1	1	1	3	5	2	2	2	2	3	0	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:57741461G>T	uc002emi.2	+	7	1037	c.948G>T	c.(946-948)GAG>GAT	p.E316D	CCDC135_uc002emj.2_Missense_Mutation_p.E316D|CCDC135_uc002emk.2_Missense_Mutation_p.E251D	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	316						cytoplasm				central_nervous_system(1)	1						AGGTGCCTGAGAACTTCTTCA	0.577													13	38					5.50884e-06	5.70595e-06	1	1	0		T	57741461	T	T	57741461	3	4	89	1	0	0	0	0	1	0	0	0	2772	933	33	5	970	5	CCDC135	16	57741461	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5482	57741461	32613292	5503	59334											
CCDC135	84229	broad.mit.edu	37	chr16	57762317	57762317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacaggagcgcatgatgcacGaagagcacctgcggcaggtg	11	5	15	10	3	0	2	0	1	0	1	0	4	0	3	1	3	5	4	1	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:57762317G>A	uc002emi.2	+	16	2301	c.2212G>A	c.(2212-2214)GAA>AAA	p.E738K	CCDC135_uc002emj.2_Missense_Mutation_p.E738K|CCDC135_uc002emk.2_Missense_Mutation_p.E673K	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	738						cytoplasm				central_nervous_system(1)	1						CATGATGCACGAAGAGCACCT	0.607													51	69					0	0	1	0	0		A	57762317	A	A	57762317	3	1	89	1	0	0	0	0	1	0	0	0	2772	1059	37	1	2270	1	CCDC135	16	57762317	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	20856	57762317	32592436	5504	59335											
CCDC135	84229	broad.mit.edu	37	chr16	57764845	57764845	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccctatgaccacaggaGacccaggagctgcaaaagaa	14	5	10	12	0	1	3	0	1	1	2	1	5	1	4	3	2	3	2	3	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:57764845G>T	uc002emi.2	+	17	2483	c.2394G>T	c.(2392-2394)GAG>GAT	p.E798D	CCDC135_uc002emj.2_Missense_Mutation_p.E798D|CCDC135_uc002emk.2_Missense_Mutation_p.E733D	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	798	Potential.					cytoplasm				central_nervous_system(1)	1						GACCACAGGAGACCCAGGAGC	0.567													13	73					9.31168e-06	9.63026e-06	1	1	0		T	57764845	T	T	57764845	3	4	89	1	0	0	0	0	1	0	0	0	2772	933	33	5	2456	5	CCDC135	16	57764845	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2528	57764845	32589908	5505	59336											
KATNB1	10300	broad.mit.edu	37	chr16	57789257	57789257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggtgtccatcccacgcagGccgtgaagatcccccagcag	8	6	12	15	2	0	2	0	1	0	1	3	2	3	2	5	2	1	2	5	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:57789257G>A	uc002eml.1	+	16	1791	c.1417G>A	c.(1417-1419)GCC>ACC	p.A473T		NM_005886	NP_005877	Q9BVA0	KTNB1_HUMAN	katanin p80 subunit B 1	473	Interaction with KATNA1 and NDEL1 (By similarity).				cell division|mitosis|negative regulation of microtubule depolymerization|positive regulation of microtubule depolymerization|protein targeting	katanin complex|microtubule|spindle pole	microtubule binding|protein heterodimerization activity				0		all_neural(199;0.223)				TCCCACGCAGGCCGTGAAGAT	0.642													19	50					0	0	1	0	0		A	57789257	A	A	57789257	3	1	89	1	0	0	0	0	1	0	0	0	8003	1217	42	2	1475	2	KATNB1	16	57789257	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24412	57789257	32565496	5506	59337											
C16orf80	29105	broad.mit.edu	37	chr16	58150852	58150852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttttgatgtggccattccGtacctacaagaaagaaaatt	13	13	7	8	1	1	3	0	1	1	2	2	3	2	3	3	1	2	1	3	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:58150852G>A	uc002enb.1	-	2	365	c.88C>T	c.(88-90)CGG>TGG	p.R30W		NM_013242	NP_037374	Q9Y6A4	CP080_HUMAN	transcription factor IIB	30					multicellular organismal development						0						TGGCCATTCCGTACCTACAAG	0.423													14	43					0	0	1	0	0		A	58150852	A	A	58150852	3	1	89	1	0	0	0	0	1	0	0	0	1840	1144	40	1	513	1	C16orf80	16	58150852	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	361595	58150852	32203901	5507	59338											
CSNK2A2	1459	broad.mit.edu	37	chr16	58220746	58220746	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaacctctcgttttatcttCtttttcttcactggcttaaa	7	21	3	10	1	5	0	1	0	4	0	6	0	5	0	1	1	1	2	1	1	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:58220746C>A	uc002enc.2	-	3	373	c.231G>T	c.(229-231)AAG>AAT	p.K77N		NM_001896	NP_001887	P19784	CSK22_HUMAN	casein kinase 2, alpha prime polypeptide	77	Protein kinase.				axon guidance|Wnt receptor signaling pathway	cytosol|nucleus	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						GTTTTATCTTCTTTTTCTTCA	0.363													37	78					1.69901e-12	1.88238e-12	1	1	0		A	58220746	A	A	58220746	3	1	89	1	0	0	0	0	1	0	0	0	3961	912	32	5	857	5	CSNK2A2	16	58220746	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	69894	58220746	32134007	5508	59339											
PRSS54	221191	broad.mit.edu	37	chr16	58320087	58320087	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttacttatacccactataacGacaatgtccttcctggagag	12	12	6	11	1	0	1	0	0	0	1	2	3	2	1	3	1	3	0	3	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:58320087G>A	uc002enf.2	-	5	671	c.276C>T	c.(274-276)GTC>GTT	p.V92V	PRSS54_uc002eng.2_Silent_p.V92V|PRSS54_uc010vie.1_5'UTR	NM_001080492	NP_001073961	Q6PEW0	PRS54_HUMAN	plasma kallikrein-like protein 4 precursor	92	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CCACTATAACGACAATGTCCT	0.353													45	98					0	0	1	0	0		A	58320087	A	A	58320087	2	1	89	1	0	0	0	0	0	0	0	1	12655	1045	37	1		1	PRSS54	16	58320087	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	99341	58320087	32034666	5509	59340											
NDRG4	65009	broad.mit.edu	37	chr16	58538160	58538160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggacaacaggtgggggCgtcgcagtttcctcaggggt	6	8	16	11	2	1	0	1	0	0	0	3	1	2	1	2	6	1	2	2	6	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:58538160C>T	uc002eno.2	+	3	336	c.230C>T	c.(229-231)GCG>GTG	p.A77V	NDRG4_uc002enk.2_Missense_Mutation_p.A109V|NDRG4_uc002enm.2_Missense_Mutation_p.A129V|NDRG4_uc010vif.1_Missense_Mutation_p.A109V|NDRG4_uc010cdk.2_Missense_Mutation_p.A95V|NDRG4_uc010vig.1_Missense_Mutation_p.A107V|NDRG4_uc010vih.1_Missense_Mutation_p.A22V|NDRG4_uc010vii.1_Missense_Mutation_p.A95V|NDRG4_uc002enp.2_Missense_Mutation_p.A77V|NDRG4_uc002enq.1_5'Flank	NM_022910	NP_075061	Q9ULP0	NDRG4_HUMAN	NDRG family member 4 isoform 1	77					cell differentiation|cell growth|multicellular organismal development|response to stress	cytoplasm				skin(1)	1						CAGGTGGGGGCGTCGCAGTTT	0.592													53	91					0	0	1	0	0		T	58538160	T	T	58538160	3	4	89	1	0	0	0	0	1	0	0	0	10273	768	27	1	404	1	NDRG4	16	58538160	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	218073	58538160	31816593	5510	59341											
CNOT1	23019	broad.mit.edu	37	chr16	58581097	58581097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaatctactcaccacactaCgaatgctagattctaagact	16	10	4	11	1	3	2	1	0	2	2	3	3	3	2	1	0	3	1	1	0	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:58581097C>T	uc002env.2	-	27	4036	c.3743G>A	c.(3742-3744)CGT>CAT	p.R1248H	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.R1243H|CNOT1_uc002enx.2_Missense_Mutation_p.R1248H|CNOT1_uc010vik.1_Missense_Mutation_p.R205H	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1248					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		CACCACACTACGAATGCTAGA	0.338													60	118					0	0	1	0	0		T	58581097	T	T	58581097	3	4	89	1	0	0	0	0	1	0	0	0	3620	536	19	1	3701	1	CNOT1	16	58581097	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	42937	58581097	31773656	5511	59342											
CNOT1	23019	broad.mit.edu	37	chr16	58610407	58610407	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caagtattcgagacaatttgGcctgatcatactgctcccct	10	12	7	12	1	1	2	1	1	0	1	3	3	2	2	3	1	2	2	3	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:58610407G>T	uc002env.2	-	14	1957	c.1664C>A	c.(1663-1665)GCC>GAC	p.A555D	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.A555D|CNOT1_uc002enx.2_Missense_Mutation_p.A555D|CNOT1_uc002enz.1_5'UTR	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	555					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		AGACAATTTGGCCTGATCATA	0.418													24	53					5.45024e-15	6.18484e-15	1	1	0		T	58610407	T	T	58610407	3	4	89	1	0	0	0	0	1	0	0	0	3620	1203	42	5	5832	5	CNOT1	16	58610407	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	29310	58610407	31744346	5512	59343											
CDH8	1006	broad.mit.edu	37	chr16	61687875	61687875	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaaagttgcaatgtcaaaAgcctctgtgtcctcctcccc	9	12	7	13	0	2	0	1	0	1	0	5	0	5	0	5	0	2	3	5	0	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:61687875A>C	uc002eog.1	-	12	2289	c.2037T>G	c.(2035-2037)GCT>GCG	p.A679A		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	679	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		CAATGTCAAAAGCCTCTGTGT	0.398													59	127					0	0	1	0	0		C	61687875	C	C	61687875	2	2	89	1	0	0	0	0	0	0	0	1	3119	59	3	5		5	CDH8	16	61687875	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3077468	61687875	28666878	5513	59344											
CDH8	1006	broad.mit.edu	37	chr16	61747770	61747770	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttcttgatggtgaaattCggattgttgaccatttctgg	7	19	10	5	1	2	3	0	3	2	0	3	4	2	4	1	3	0	1	1	3	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:61747770C>T	uc002eog.1	-	10	1881	c.1629G>A	c.(1627-1629)CCG>CCA	p.P543P		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	543	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TGGTGAAATTCGGATTGTTGA	0.333													17	40					0	0	1	0	0		T	61747770	T	T	61747770	2	4	89	1	0	0	0	0	0	0	0	1	3119	871	31	1		1	CDH8	16	61747770	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	59895	61747770	28606983	5514	59345											
CDH8	1006	broad.mit.edu	37	chr16	61935262	61935262	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttttcctcccggtcaagtCtttttatagcatggatatct	7	17	6	11	1	3	0	1	0	2	0	5	1	5	1	3	2	1	1	3	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:61935262C>A	uc002eog.1	-	3	620	c.368G>T	c.(367-369)AGA>ATA	p.R123I		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	123	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		CCGGTCAAGTCTTTTTATAGC	0.413													48	58					8.04919e-23	9.61489e-23	1	1	0		A	61935262	A	A	61935262	3	1	89	1	0	0	0	0	1	0	0	0	3119	913	32	5	2071	5	CDH8	16	61935262	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	187492	61935262	28419491	5515	59346											
DYNC1LI2	1783	broad.mit.edu	37	chr16	66764102	66764102	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgtaaaatagctattttCttttcattgtcccagcctgc	9	17	5	10	0	3	0	2	0	1	0	4	0	4	0	2	0	3	2	2	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:66764102C>A	uc002eqb.1	-	8	985	c.954G>T	c.(952-954)AAG>AAT	p.K318N	DYNC1LI2_uc010vis.1_Missense_Mutation_p.K241N	NM_006141	NP_006132	O43237	DC1L2_HUMAN	dynein, cytoplasmic, light intermediate	318					transport	centrosome|cytoplasmic dynein complex|microtubule	ATP binding|motor activity			central_nervous_system(3)|skin(1)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0907)|Epithelial(162;0.212)		TAGCTATTTTCTTTTCATTGT	0.423													11	41					1.08611e-07	1.14333e-07	1	1	0		A	66764102	A	A	66764102	3	1	89	1	0	0	0	0	1	0	0	0	4851	912	32	5	548	5	DYNC1LI2	16	66764102	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4828840	66764102	23590651	5516	59347											
NAE1	8883	broad.mit.edu	37	chr16	66842448	66842448	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatctaccctgttgtttatGaaatctatcaacagcccgta	12	14	5	10	1	3	1	1	1	2	0	3	1	3	1	2	0	3	3	2	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:66842448G>T	uc002eqf.2	-	17	1383	c.1306C>A	c.(1306-1308)CAT>AAT	p.H436N	NAE1_uc002eqe.2_Missense_Mutation_p.H430N|NAE1_uc002eqg.2_Missense_Mutation_p.H347N|NAE1_uc010cdv.2_Missense_Mutation_p.H439N	NM_003905	NP_003896	Q13564	ULA1_HUMAN	NEDD8 activating enzyme E1 subunit 1 isoform a	436					apoptosis|cell cycle|DNA replication|mitotic cell cycle DNA replication checkpoint|protein neddylation|signal transduction	cytoplasm|insoluble fraction|plasma membrane	catalytic activity|protein heterodimerization activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0914)|Epithelial(162;0.214)	Adenosine triphosphate(DB00171)	TGTTGTTTATGAAATCTATCA	0.303													54	113					1.14385e-22	1.36596e-22	1	1	0		T	66842448	T	T	66842448	3	4	89	1	0	0	0	0	1	0	0	0	10157	1290	45	5	314	5	NAE1	16	66842448	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	78346	66842448	23512305	5517	59348											
NAE1	8883	broad.mit.edu	37	chr16	66844292	66844292	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacagagtaattttaattCtttctctgaaatggactctg	11	17	6	7	0	3	2	0	1	3	1	4	3	3	3	0	1	1	1	0	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:66844292C>A	uc002eqf.2	-	15	1212	c.1135G>T	c.(1135-1137)GAA>TAA	p.E379*	NAE1_uc002eqe.2_Nonsense_Mutation_p.E373*|NAE1_uc002eqg.2_Nonsense_Mutation_p.E290*|NAE1_uc010cdv.2_Nonsense_Mutation_p.E382*	NM_003905	NP_003896	Q13564	ULA1_HUMAN	NEDD8 activating enzyme E1 subunit 1 isoform a	379					apoptosis|cell cycle|DNA replication|mitotic cell cycle DNA replication checkpoint|protein neddylation|signal transduction	cytoplasm|insoluble fraction|plasma membrane	catalytic activity|protein heterodimerization activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0914)|Epithelial(162;0.214)	Adenosine triphosphate(DB00171)	AATTTTAATTCTTTCTCTGAA	0.363													37	65					5.71845e-15	6.48651e-15	1	1	0		A	66844292	A	A	66844292	4	1	89	1	0	0	0	0	0	1	0	0	10157	922	32	5	493	5	NAE1	16	66844292	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1844	66844292	23510461	5518	59349											
PDP2	57546	broad.mit.edu	37	chr16	66918406	66918406	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacagaggaagatgatttTcacttgcaactcagccctga	13	10	8	10	0	3	4	3	2	0	2	3	5	3	5	1	1	4	1	1	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:66918406T>G	uc002eqk.1	+	2	381	c.219T>G	c.(217-219)TTT>TTG	p.F73L		NM_020786	NP_065837	Q9P2J9	PDP2_HUMAN	pyruvate dehydrogenase phosphatase isoenzyme 2	73					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity|metal ion binding			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		AAGATGATTTTCACTTGCAAC	0.493													43	88					0	0	1	0	0		G	66918406	G	G	66918406	3	3	89	1	0	0	0	0	1	0	0	0	11705	1780	62	5	221	5	PDP2	16	66918406	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	74114	66918406	23436347	5519	59350											
CDH16	1014	broad.mit.edu	37	chr16	66943282	66943282	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccacgttgcagcgacacacGatcactgaggggagagggga	11	5	15	10	3	1	2	1	1	0	1	2	6	2	3	1	4	2	2	1	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:66943282G>A	uc002eql.2	-	17	2353	c.2280C>T	c.(2278-2280)ATC>ATT	p.I760I	CDH16_uc010cdy.2_Silent_p.I738I|CDH16_uc002eqm.2_Silent_p.I663I	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	760	Extracellular (Potential).|Ectodomain G.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		AGCGACACACGATCACTgagg	0.507													5	16					0	0	1	0	0		A	66943282	A	A	66943282	2	1	89	1	0	0	0	0	0	0	0	1	3104	1048	37	1		1	CDH16	16	66943282	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24876	66943282	23411471	5520	59351											
CDH16	1014	broad.mit.edu	37	chr16	66946441	66946441	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaggggcgtgatcattgAtatctgtgactgcgacttcg	8	12	12	9	3	3	3	2	3	1	0	4	4	3	3	0	2	1	0	0	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:66946441A>G	uc002eql.2	-	11	1398	c.1325T>C	c.(1324-1326)ATC>ACC	p.I442T	CDH16_uc010cdy.2_Missense_Mutation_p.I442T|CDH16_uc002eqm.2_Missense_Mutation_p.I345T	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	442	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		GTGATCATTGATATCTGTGAC	0.592													20	42					0	0	1	0	0		G	66946441	G	G	66946441	3	3	89	1	0	0	0	0	1	0	0	0	3104	333	12	3	1196	3	CDH16	16	66946441	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3159	66946441	23408312	5521	59352											
CDH16	1014	broad.mit.edu	37	chr16	66949216	66949216	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggctcaggatgtggaatcGaagatccgagttggctgtgc	8	10	15	8	2	1	1	1	0	0	1	3	5	2	3	1	4	1	3	1	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:66949216G>A	uc002eql.2	-	6	563	c.490C>T	c.(490-492)CGA>TGA	p.R164*	CDH16_uc010cdy.2_Nonsense_Mutation_p.R164*|CDH16_uc002eqm.2_Intron	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	164	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		ATGTGGAATCGAAGATCCGAG	0.617													17	45					0	0	1	0	0		A	66949216	A	A	66949216	4	1	89	1	0	0	0	0	0	1	0	0	3104	1066	37	1	2051	1	CDH16	16	66949216	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2775	66949216	23405537	5522	59353											
CES3	23491	broad.mit.edu	37	chr16	66998542	66998542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtcctgtccccagtggCtgcagggctgttccacagag	6	8	13	14	0	0	1	0	0	0	1	3	1	3	1	5	3	1	4	5	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:66998542C>T	uc002eqt.2	+	6	804	c.731C>T	c.(730-732)GCT>GTT	p.A244V	CES3_uc010cdz.2_Missense_Mutation_p.A244V|CES3_uc010cea.2_RNA|CES3_uc010viw.1_5'Flank	NM_024922	NP_079198	Q6UWW8	EST3_HUMAN	carboxylesterase 3 precursor	244						endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity			ovary(3)|central_nervous_system(2)	5		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0488)|Epithelial(162;0.127)		TCCCCAGTGGCTGCAGGGCTG	0.617													47	89					0	0	1	0	0		T	66998542	T	T	66998542	3	4	89	1	0	0	0	0	1	0	0	0	3274	797	28	2	753	2	CES3	16	66998542	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	49326	66998542	23356211	5523	59354											
B3GNT9	84752	broad.mit.edu	37	chr16	67183690	67183690	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagatttcccacgttcacGaacacatctgcgtcgccctt	9	10	8	14	4	2	1	1	0	1	1	4	3	3	1	2	1	2	1	2	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:67183690G>A	uc002erf.2	-	2	1020	c.699C>T	c.(697-699)TTC>TTT	p.F233F	uc002erg.1_Silent_p.T31T	NM_033309	NP_171608	Q6UX72	B3GN9_HUMAN	UDP-GlcNAc:betaGal	233	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0						CCACGTTCACGAACACATCTG	0.587													12	16					0	0	1	0	0		A	67183690	A	A	67183690	2	1	89	1	0	0	0	0	0	0	0	1	1265	1049	37	1		1	B3GNT9	16	67183690	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	185148	67183690	23171063	5524	59355											
SLC9A5	6553	broad.mit.edu	37	chr16	67298957	67298957	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcagaaggatggtgtggcGaatgctgaggctacaaatgg	11	8	15	7	1	1	2	1	1	0	1	1	4	1	3	1	5	2	2	1	5	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:67298957G>A	uc002esm.2	+	14	2091	c.2028G>A	c.(2026-2028)GCG>GCA	p.A676A	SLC9A5_uc010cee.2_Silent_p.A381A|SLC9A5_uc010vji.1_Silent_p.A180A	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	676					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		ATGGTGTGGCGAATGCTGAGG	0.567													28	52					0	0	1	0	0		A	67298957	A	A	67298957	2	1	89	1	0	0	0	0	0	0	0	1	14742	1045	37	1		1	SLC9A5	16	67298957	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	115267	67298957	23055796	5525	59356											
CTCF	10664	broad.mit.edu	37	chr16	67645910	67645910	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacgtgtccacggcgttcaAatttggatcgtcacatgaaa	12	10	9	10	4	2	1	2	1	0	0	4	2	3	2	1	2	0	1	1	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:67645910A>C	uc002etl.2	+	4	1128	c.838A>C	c.(838-840)AAT>CAT	p.N280H	CTCF_uc010cek.2_Intron	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor	280	C2H2-type 1.				chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)		ACGGCGTTCAAATTTGGATCG	0.458													13	115					0	0	1	0	0		C	67645910	C	C	67645910	3	2	89	1	0	0	0	0	1	0	0	0	4003	14	1	5	844	5	CTCF	16	67645910	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	346953	67645910	22708843	5526	59357											
RLTPR	146206	broad.mit.edu	37	chr16	67681466	67681466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacactcaagctctgggctgCgggagctcagcctcgcgggg	6	6	16	13	3	3	0	2	0	1	0	4	2	3	1	1	4	4	3	1	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:67681466C>T	uc002etn.2	+	11	952	c.832C>T	c.(832-834)CGG>TGG	p.R278W	RLTPR_uc010cel.1_Missense_Mutation_p.R278W|RLTPR_uc010vjr.1_Missense_Mutation_p.R278W	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	278	LRR 4.									breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		CTCTGGGCTGCGGGAGCTCAG	0.662													6	13					0	0	1	0	0		T	67681466	T	T	67681466	3	4	89	1	0	0	0	0	1	0	0	0	13419	759	27	1	874	1	RLTPR	16	67681466	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	35556	67681466	22673287	5527	59358											
THAP11	57215	broad.mit.edu	37	chr16	67876716	67876716	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgctgcgcggcgtcaatGagcgcaaagtagcgcgcaga	9	5	14	13	7	1	2	1	1	0	1	2	2	2	2	1	1	3	4	1	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:67876716G>T	uc002euo.2	+	1	504	c.259G>T	c.(259-261)GAG>TAG	p.E87*	CENPT_uc002eun.3_Intron	NM_020457	NP_065190	Q96EK4	THA11_HUMAN	THAP domain containing 11	87					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|identical protein binding|metal ion binding				0		Acute lymphoblastic leukemia(13;0.000299)|all_hematologic(13;0.0184)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)		CGGCGTCAATGAGCGCAAAGT	0.428													9	14					5.4927e-09	5.87265e-09	1	1	0		T	67876716	T	T	67876716	4	4	89	1	0	0	0	0	0	1	0	0	15868	1291	45	5	261	5	THAP11	16	67876716	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	195250	67876716	22478037	5528	59359											
DUS2L	54920	broad.mit.edu	37	chr16	68107995	68107995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcttgtgccagatgctacGagaacagctggagtcgcccc	8	8	12	13	2	0	2	0	0	0	2	1	4	0	3	3	1	6	3	3	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:68107995G>A	uc002evi.2	+	13	1018	c.869G>A	c.(868-870)CGA>CAA	p.R290Q	DUS2L_uc002evj.2_Missense_Mutation_p.R290Q|DUS2L_uc010vkk.1_Missense_Mutation_p.R255Q|DUS2L_uc010cez.2_Missense_Mutation_p.R203Q	NM_017803	NP_060273	Q9NX74	DUS2L_HUMAN	dihydrouridine synthase 2-like, SMM1 homolog	290					tRNA processing	endoplasmic reticulum	double-stranded RNA binding|flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0131)|Epithelial(162;0.0564)		CAGATGCTACGAGAACAGCTG	0.522													20	37					0	0	1	0	0		A	68107995	A	A	68107995	3	1	89	1	0	0	0	0	1	0	0	0	4812	1058	37	1	911	1	DUS2L	16	68107995	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	231279	68107995	22246758	5529	59360											
NFATC3	4775	broad.mit.edu	37	chr16	68156942	68156942	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtatcctttaaagaaaGattcatgtggtgatcagttt	12	15	8	6	0	3	3	3	1	0	2	4	3	4	3	1	1	0	2	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:68156942G>T	uc002evo.1	+	2	1366	c.1156G>T	c.(1156-1158)GAT>TAT	p.D386Y	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Missense_Mutation_p.D386Y|NFATC3_uc002evm.1_Missense_Mutation_p.D386Y|NFATC3_uc002evn.1_Missense_Mutation_p.D386Y|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	386					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		TTTAAAGAAAGATTCATGTGG	0.448													45	110					4.44401e-20	5.23441e-20	1	1	0		T	68156942	T	T	68156942	3	4	89	1	0	0	0	0	1	0	0	0	10383	942	33	5	1162	5	NFATC3	16	68156942	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	48947	68156942	22197811	5530	59361											
PRMT7	54496	broad.mit.edu	37	chr16	68381545	68381545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccctctaggtgtttacagtCgagagttcagcagcttctca	8	13	9	11	1	3	1	2	0	2	1	6	2	4	1	1	1	3	4	1	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:68381545C>T	uc002evy.1	+	13	1563	c.1287C>T	c.(1285-1287)GTC>GTT	p.V429V	PRMT7_uc002evx.1_Intron|PRMT7_uc010vlg.1_Silent_p.V379V|PRMT7_uc002evz.1_Intron	NM_019023	NP_061896	Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	429					cell differentiation|DNA methylation involved in gamete generation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	[myelin basic protein]-arginine N-methyltransferase activity|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N monomethyltransferase activity|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		TGTTTACAGTCGAGAGTTCAG	0.408													22	33					0	0	1	0	0		T	68381545	T	T	68381545	2	4	89	1	0	0	0	0	0	0	0	1	12563	871	31	1		1	PRMT7	16	68381545	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	224603	68381545	21973208	5531	59362											
PRMT7	54496	broad.mit.edu	37	chr16	68387404	68387404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcacaggacctgtggCggatccggagcccctgtggt	5	9	13	14	2	1	0	1	0	0	0	3	3	3	3	5	5	1	0	5	5	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:68387404C>T	uc002evy.1	+	16	1861	c.1585C>T	c.(1585-1587)CGG>TGG	p.R529W	PRMT7_uc010vlg.1_Missense_Mutation_p.R479W|PRMT7_uc002evz.1_Missense_Mutation_p.R301W|PRMT7_uc010cfd.1_Missense_Mutation_p.R21W	NM_019023	NP_061896	Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	529					cell differentiation|DNA methylation involved in gamete generation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	[myelin basic protein]-arginine N-methyltransferase activity|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N monomethyltransferase activity|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		GGACCTGTGGCGGATCCGGAG	0.612													19	53					0	0	1	0	0		T	68387404	T	T	68387404	3	4	89	1	0	0	0	0	1	0	0	0	12563	759	27	1	1639	1	PRMT7	16	68387404	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5859	68387404	21967349	5532	59363											
SMPD3	55512	broad.mit.edu	37	chr16	68404923	68404923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagccgtagaccccgacgtCgtacaggatgtactcgaagt	10	7	12	12	5	0	1	0	0	0	1	2	4	0	2	3	1	3	4	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:68404923C>T	uc002ewa.2	-	3	1584	c.1162G>A	c.(1162-1164)GAC>AAC	p.D388N	SMPD3_uc010cfe.2_Missense_Mutation_p.D388N|SMPD3_uc010vlh.1_Missense_Mutation_p.D388N	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	388	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	ACCCCGACGTCGTACAGGATG	0.587													10	27					0	0	1	0	0		T	68404923	T	T	68404923	3	4	89	1	0	0	0	0	1	0	0	0	14831	884	31	1	833	1	SMPD3	16	68404923	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	17519	68404923	21949830	5533	59364											
ZFP90	146198	broad.mit.edu	37	chr16	68597611	68597611	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaatgctcataccggagaGaaaccctatcagtgtagtct	13	9	10	9	1	3	2	2	0	1	2	3	5	3	3	2	1	3	2	2	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:68597611G>T	uc010cff.2	+	5	1213	c.921G>T	c.(919-921)GAG>GAT	p.E307D	ZFP90_uc002ewb.2_Missense_Mutation_p.R113I|ZFP90_uc002ewc.2_Missense_Mutation_p.R113I|ZFP90_uc002ewd.2_Missense_Mutation_p.E307D|ZFP90_uc002ewe.2_Missense_Mutation_p.E307D	NM_133458	NP_597715	Q8TF47	ZFP90_HUMAN	zinc finger protein 90	307					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00233)|Epithelial(162;0.0184)|all cancers(182;0.0946)		ATACCGGAGAGAAACCCTATC	0.488													34	55					1.30293e-26	1.57754e-26	1	1	0		T	68597611	T	T	68597611	3	4	89	1	0	0	0	0	1	0	0	0	17679	933	33	5	935	5	ZFP90	16	68597611	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	192688	68597611	21757142	5534	59365											
CDH3	1001	broad.mit.edu	37	chr16	68712487	68712487	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcccccctgagggtgtcttCgctgtagagaaggagacagg	9	7	15	10	1	1	3	0	1	1	2	2	5	1	3	3	3	1	2	3	3	2	2	rs140049723		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:68712487C>T	uc002ewf.2	+	5	1606	c.474C>T	c.(472-474)TTC>TTT	p.F158F	CDH3_uc010vli.1_Silent_p.F103F	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	158	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		AGGGTGTCTTCGCTGTAGAGA	0.498													49	89					0	0	1	0	0		T	68712487	T	T	68712487	2	4	89	1	0	0	0	0	0	0	0	1	3114	883	31	1		1	CDH3	16	68712487	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	114876	68712487	21642266	5535	59366											
PDPR	55066	broad.mit.edu	37	chr16	70177526	70177526	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacgagggtggagggtatgaAaatgactgcagcatagcacg	14	6	15	6	2	0	2	0	2	0	0	0	4	0	3	0	3	4	4	0	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:70177526A>C	uc002eyf.1	+	14	2676	c.1719A>C	c.(1717-1719)GAA>GAC	p.E573D	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.E473D|PDPR_uc002eyg.1_Missense_Mutation_p.E301D|PDPR_uc002eyh.2_5'Flank|PDPR_uc010vls.1_5'Flank	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	573					glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		GAGGGTATGAAAATGACTGCA	0.527													7	27					0	0	1	0	0		C	70177526	C	C	70177526	3	2	89	1	0	0	0	0	1	0	0	0	11708	11	1	5	1765	5	PDPR	16	70177526	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1465039	70177526	20177227	5536	59367											
SF3B3	23450	broad.mit.edu	37	chr16	70572358	70572358	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactttggagacagatgaaGatatggtaagtagaccatgg	14	10	12	5	0	1	5	1	1	0	4	1	6	1	5	1	3	0	2	1	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:70572358G>T	uc002ezf.2	+	7	1169	c.958G>T	c.(958-960)GAT>TAT	p.D320Y		NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3	320					protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				GACAGATGAAGATATGGTAAG	0.373													51	84					4.44712e-29	5.41642e-29	1	1	0		T	70572358	T	T	70572358	3	4	89	1	0	0	0	0	1	0	0	0	14177	942	33	5	980	5	SF3B3	16	70572358	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	394832	70572358	19782395	5537	59368											
IL34	146433	broad.mit.edu	37	chr16	70688478	70688478	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtggccttggggaatgaGcctttggagatgtggccctt	5	11	17	8	1	0	2	0	1	0	1	0	4	0	3	3	6	1	0	3	6	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:70688478G>A	uc002ezh.1	+	2	449	c.66G>A	c.(64-66)GAG>GAA	p.E22E	IL34_uc002ezi.1_Silent_p.E22E	NM_152456	NP_689669	Q6ZMJ4	IL34_HUMAN	interleukin 34 precursor	22					positive regulation of cell proliferation|positive regulation of protein phosphorylation	extracellular space	cytokine activity|growth factor activity|macrophage colony-stimulating factor receptor binding			central_nervous_system(1)|skin(1)	2						TGGGGAATGAGCCTTTGGAGA	0.557											OREG0023916	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	59					0	0	1	0	0		A	70688478	A	A	70688478	2	1	89	1	0	0	0	0	0	0	0	1	7710	962	34	2		2	IL34	16	70688478	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	116120	70688478	19666275	5538	59369											
HYDIN	54768	broad.mit.edu	37	chr16	70993581	70993581	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcccatgaatgataatggcGatgcctttccggttcttggc	7	13	11	10	2	1	2	0	2	1	0	3	3	3	2	3	3	1	1	3	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:70993581G>A	uc002ezr.2	-	39	6236	c.6108C>T	c.(6106-6108)ATC>ATT	p.I2036I		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	2037										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TGATAATGGCGATGCCTTTCC	0.532													18	40					0	0	1	0	0		A	70993581	A	A	70993581	2	1	89	1	0	0	0	0	0	0	0	1	7483	1048	37	1		1	HYDIN	16	70993581	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	305103	70993581	19361172	5539	59370											
HYDIN	54768	broad.mit.edu	37	chr16	71025987	71025987	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttacttaacaaaatcattTaaatccatctcgggggactc	14	12	5	10	1	2	0	1	0	1	0	5	1	3	1	1	2	2	0	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:71025987T>C	uc002ezr.2	-	24	3899	c.3771A>G	c.(3769-3771)TTA>TTG	p.L1257L		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	1257										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CAAAATCATTTAAATCCATCT	0.448													24	52					0	0	1	0	0		C	71025987	C	C	71025987	2	2	89	1	0	0	0	0	0	0	0	1	7483	1751	61	3		3	HYDIN	16	71025987	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	32406	71025987	19328766	5540	59371											
HYDIN	54768	broad.mit.edu	37	chr16	71209538	71209538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctctggagtaaagaggattCggaatatggaaggcactcca	13	8	12	8	1	1	1	0	0	1	1	3	5	2	5	2	5	0	2	2	5	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:71209538C>T	uc002ezr.2	-	5	616	c.488G>A	c.(487-489)CGA>CAA	p.R163Q	HYDIN_uc010cfz.1_5'UTR|HYDIN_uc002ezv.2_Missense_Mutation_p.R163Q|HYDIN_uc010vmc.1_Missense_Mutation_p.R180Q|HYDIN_uc010vmd.1_Missense_Mutation_p.R190Q|HYDIN_uc002ezw.3_Missense_Mutation_p.R180Q	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	163										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				AAAGAGGATTCGGAATATGGA	0.423													28	51					0	0	1	0	0		T	71209538	T	T	71209538	3	4	89	1	0	0	0	0	1	0	0	0	7483	884	31	1	15214	1	HYDIN	16	71209538	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	183551	71209538	19145215	5541	59372											
HYDIN	54768	broad.mit.edu	37	chr16	71212926	71212926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggaaagggctggaataatgCctgatccaggtcaattcctg	11	10	12	8	0	1	1	1	1	0	0	3	3	3	3	3	4	1	1	3	4	4	2	rs143424105		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:71212926C>T	uc002ezr.2	-	4	414	c.286G>A	c.(286-288)GCA>ACA	p.A96T	HYDIN_uc010cfz.1_5'UTR|HYDIN_uc002ezv.2_Missense_Mutation_p.A96T|HYDIN_uc010vmc.1_Missense_Mutation_p.A113T|HYDIN_uc010vmd.1_Missense_Mutation_p.A123T|HYDIN_uc002ezw.3_Missense_Mutation_p.A113T	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	96										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TGGAATAATGCCTGATCCAGG	0.363													24	58					0	0	1	0	0		T	71212926	T	T	71212926	3	4	89	1	0	0	0	0	1	0	0	0	7483	739	26	2	15420	2	HYDIN	16	71212926	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3388	71212926	19141827	5542	59373											
FTSJD1	55783	broad.mit.edu	37	chr16	71318614	71318614	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttgaaatttttgcataaAatattgtatagcacaatccc	15	14	5	7	0	0	1	0	1	0	0	1	1	1	1	1	0	2	4	1	0	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:71318614A>C	uc010cga.2	-	3	1616	c.1210T>G	c.(1210-1212)TTT>GTT	p.F404V	FTSJD1_uc002ezy.3_Missense_Mutation_p.F404V|FTSJD1_uc002ezz.3_Missense_Mutation_p.F404V	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	404						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						TTTTGCATAAAATATTGTATA	0.328													13	23					0	0	1	0	0		C	71318614	C	C	71318614	3	2	89	1	0	0	0	0	1	0	0	0	6104	14	1	5	1106	5	FTSJD1	16	71318614	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	105688	71318614	19036139	5543	59374											
CALB2	794	broad.mit.edu	37	chr16	71408706	71408706	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcatgcagaagtatgataAaaactcagatgggaaaatcg	17	9	10	5	1	2	3	2	1	0	2	3	4	2	4	0	1	2	3	0	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:71408706A>C	uc002faa.3	+	3	300	c.230A>C	c.(229-231)AAA>ACA	p.K77T	CALB2_uc010vme.1_RNA|CALB2_uc002fac.3_Missense_Mutation_p.K77T	NM_001740	NP_001731	P22676	CALB2_HUMAN	calbindin 2 isoform 1	77	EF-hand 2.|2; possibly ancestral (Probable).						calcium ion binding				0		Ovarian(137;0.125)				AAGTATGATAAAAACTCAGAT	0.502													17	28					0	0	1	0	0		C	71408706	C	C	71408706	3	2	89	1	0	0	0	0	1	0	0	0	2577	14	1	5	240	5	CALB2	16	71408706	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	90092	71408706	18946047	5544	59375											
CALB2	794	broad.mit.edu	37	chr16	71423745	71423745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaggacctggagattgtgCtctgcagcgagccccccatg	8	7	13	13	1	1	1	0	0	1	1	1	4	1	2	4	2	4	3	4	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:71423745C>T	uc002faa.3	+	11	863	c.793C>T	c.(793-795)CTC>TTC	p.L265F	CALB2_uc010vme.1_RNA|CALB2_uc002fac.3_3'UTR	NM_001740	NP_001731	P22676	CALB2_HUMAN	calbindin 2 isoform 1	265	EF-hand 6.						calcium ion binding				0		Ovarian(137;0.125)				GGAGATTGTGCTCTGCAGCGA	0.562													39	84					0	0	1	0	0		T	71423745	T	T	71423745	3	4	89	1	0	0	0	0	1	0	0	0	2577	797	28	2	835	2	CALB2	16	71423745	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	15039	71423745	18931008	5545	59376											
TAT	6898	broad.mit.edu	37	chr16	71606212	71606212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagttgtttcaggtcaatttCccaagatttctctggctgga	8	15	9	9	0	3	1	2	0	1	1	5	2	4	2	1	3	0	3	1	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:71606212C>T	uc002fap.2	-	6	682	c.583G>A	c.(583-585)GAA>AAA	p.E195K		NM_000353	NP_000344	P17735	ATTY_HUMAN	tyrosine aminotransferase	195					2-oxoglutarate metabolic process|glutamate metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	1-aminocyclopropane-1-carboxylate synthase activity|L-tyrosine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(2)	2		Ovarian(137;0.125)		Kidney(780;0.0157)	L-Glutamic Acid(DB00142)|L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Pyridoxal Phosphate(DB00114)	AGGTCAATTTCCCAAGATTTC	0.408													27	53					0	0	1	0	0		T	71606212	T	T	71606212	3	4	89	1	0	0	0	0	1	0	0	0	15615	864	30	4	809	4	TAT	16	71606212	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	182467	71606212	18748541	5546	59377											
AP1G1	164	broad.mit.edu	37	chr16	71805084	71805084	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttctcattcaataaattTtttgttgctggtaaaaacat	12	19	4	6	0	3	0	2	0	2	0	4	0	3	0	0	1	2	3	0	1	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:71805084T>G	uc010cgg.2	-	5	854	c.540A>C	c.(538-540)AAA>AAC	p.K180N	AP1G1_uc002fba.2_Missense_Mutation_p.K180N|AP1G1_uc002fbb.2_Missense_Mutation_p.K203N|AP1G1_uc010vmg.1_RNA|AP1G1_uc010vmh.1_Missense_Mutation_p.K262N	NM_001128	NP_001119	O43747	AP1G1_HUMAN	adaptor-related protein complex 1, gamma 1	180					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|recycling endosome	kinesin binding|protein transporter activity			ovary(2)	2		Ovarian(137;0.125)				TCAATAAATTTTTTGTTGCTG	0.343													24	30					0	0	1	0	0		G	71805084	G	G	71805084	3	3	89	1	0	0	0	0	1	0	0	0	732	1838	64	5	2017	5	AP1G1	16	71805084	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	198872	71805084	18549669	5547	59378											
DHODH	1723	broad.mit.edu	37	chr16	72045994	72045994	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggggggaggaggacttCtcttcgcctcctacctgatg	5	11	13	12	1	1	1	0	1	1	0	5	4	3	4	4	5	1	0	4	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:72045994C>A	uc002fbp.2	+	2	88	c.67C>A	c.(67-69)CTC>ATC	p.L23I	DHODH_uc010cgk.2_RNA	NM_001361	NP_001352	Q02127	PYRD_HUMAN	dihydroorotate dehydrogenase precursor	23	Helical; (By similarity).				'de novo' pyrimidine base biosynthetic process|pyrimidine nucleoside biosynthetic process|UMP biosynthetic process	integral to membrane|mitochondrial inner membrane	dihydroorotate oxidase activity				0		Ovarian(137;0.125)			Atovaquone(DB01117)|Leflunomide(DB01097)	AGGAGGACTTCTCTTCGCCTC	0.612													37	98					2.40579e-17	2.7868e-17	1	1	0		A	72045994	A	A	72045994	3	1	89	1	0	0	0	0	1	0	0	0	4490	913	32	5	73	5	DHODH	16	72045994	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	240910	72045994	18308759	5548	59379											
HP	3240	broad.mit.edu	37	chr16	72093038	72093038	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacaccttaaacaatgagaaGcagtggataaataaggctgt	17	9	9	6	0	0	1	0	1	0	1	0	3	0	2	1	2	3	2	1	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:72093038G>A	uc002fbr.3	+	6	437	c.393G>A	c.(391-393)AAG>AAA	p.K131K	TXNL4B_uc010cgl.2_Intron|HP_uc010cgm.2_Silent_p.K72K|HP_uc002fbt.3_Intron|HP_uc002fbu.1_5'UTR|HP_uc002fbv.3_Silent_p.K42K|HP_uc002fbw.3_5'UTR|HP_uc002fbx.3_5'UTR	NM_005143	NP_005134	P00738	HPT_HUMAN	haptoglobin isoform 1 preproprotein	131	Sushi 2.				cellular iron ion homeostasis|defense response|negative regulation of hydrogen peroxide catabolic process|negative regulation of oxidoreductase activity|positive regulation of cell death|proteolysis|response to hydrogen peroxide	extracellular region|haptoglobin-hemoglobin complex	hemoglobin binding|serine-type endopeptidase activity				0		Renal(780;9.67e-05)|Ovarian(137;0.00327)|Hepatocellular(780;0.114)		BRCA - Breast invasive adenocarcinoma(221;0.00015)|Kidney(780;0.000529)		ACAATGAGAAGCAGTGGATAA	0.483													27	51					0	0	1	0	0		A	72093038	A	A	72093038	2	1	89	1	0	0	0	0	0	0	0	1	7343	962	34	2		2	HP	16	72093038	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	47044	72093038	18261715	5549	59380											
ZFHX3	463	broad.mit.edu	37	chr16	72829629	72829629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttgttcgaatgtatctatCatttgtaagctcacgccgct	8	15	8	10	3	3	0	2	0	1	0	4	1	3	0	1	0	1	6	1	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:72829629C>T	uc002fck.2	-	9	7625	c.6952G>A	c.(6952-6954)GAT>AAT	p.D2318N	ZFHX3_uc002fcl.2_Missense_Mutation_p.D1404N	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2318					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ATGTATCTATCATTTGTAAGC	0.458													81	113					0	0	1	0	0		T	72829629	T	T	72829629	3	4	89	1	0	0	0	0	1	0	0	0	17659	826	29	4	4167	4	ZFHX3	16	72829629	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	736591	72829629	17525124	5550	59381											
GABARAPL2	11345	broad.mit.edu	37	chr16	75611253	75611253	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctacagcggagagaacActtttggcttctgagggcca	9	9	13	10	1	1	2	0	1	1	1	1	4	1	3	2	4	3	1	2	4	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:75611253A>C	uc002fen.2	+	4	476	c.340A>C	c.(340-342)ACT>CCT	p.T114P	GABARAPL2_uc010cgy.2_RNA	NM_007285	NP_009216	P60520	GBRL2_HUMAN	GABA(A) receptor-associated protein-like 2	114					autophagy|intra-Golgi vesicle-mediated transport|positive regulation of ATPase activity|protein transport	autophagic vacuole membrane|cytosol|Golgi membrane|membrane fraction	ATPase binding|beta-tubulin binding|GABA receptor binding|microtubule binding|SNARE binding			ovary(1)	1						CGGAGAGAACACTTTTGGCTT	0.423													25	71					0	0	1	0	0		C	75611253	C	C	75611253	3	2	89	1	0	0	0	0	1	0	0	0	6168	159	6	5	354	5	GABARAPL2	16	75611253	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2781624	75611253	14743500	5551	59382											
CNTNAP4	85445	broad.mit.edu	37	chr16	76350318	76350318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctcctggcagatgactgtGatgatcctcttgtgtctgcc	5	14	10	12	0	2	4	0	3	2	1	5	4	5	4	4	1	1	1	4	1	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:76350318G>A	uc002feu.1	+	4	479	c.94G>A	c.(94-96)GAT>AAT	p.D32N	CNTNAP4_uc002fev.1_5'UTR|CNTNAP4_uc010chb.1_Missense_Mutation_p.D7N|CNTNAP4_uc002fex.1_Missense_Mutation_p.D35N|CNTNAP4_uc002few.2_Missense_Mutation_p.D7N	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	32	Extracellular (Potential).|F5/8 type C.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						AGATGACTGTGATGATCCTCT	0.473													6	26					0	0	1	0	0		A	76350318	A	A	76350318	3	1	89	1	0	0	0	0	1	0	0	0	3652	1290	45	4	113	4	CNTNAP4	16	76350318	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	739065	76350318	14004435	5552	59383											
CNTNAP4	85445	broad.mit.edu	37	chr16	76461353	76461353	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcccttttcttttagggttTttcaggaaatgcaaatgcag	9	17	8	7	0	2	0	1	0	1	0	3	1	3	1	1	2	2	3	1	2	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:76461353T>G	uc002feu.1	+	6	780	c.395T>G	c.(394-396)TTT>TGT	p.F132C	CNTNAP4_uc002fev.1_Missense_Mutation_p.F44C|CNTNAP4_uc010chb.1_Missense_Mutation_p.F107C|CNTNAP4_uc002fex.1_Missense_Mutation_p.F135C|CNTNAP4_uc002few.2_Missense_Mutation_p.F107C	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	132	Extracellular (Potential).|F5/8 type C.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TTTTAGGGTTTTTCAGGAAAT	0.408													41	111					0	0	1	0	0		G	76461353	G	G	76461353	3	3	89	1	0	0	0	0	1	0	0	0	3652	1841	64	5	422	5	CNTNAP4	16	76461353	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	111035	76461353	13893400	5553	59384											
ADAMTS18	170692	broad.mit.edu	37	chr16	77334283	77334283	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccaagctatccctggatTtttgccttgcatcagaatct	8	15	6	12	0	2	1	1	0	1	1	4	2	4	2	3	1	3	2	3	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:77334283T>C	uc002ffc.3	-	17	2970	c.2551A>G	c.(2551-2553)AAT>GAT	p.N851D	ADAMTS18_uc010chc.1_Missense_Mutation_p.N439D|ADAMTS18_uc002ffe.1_Missense_Mutation_p.N547D	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	851	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						ATCCCTGGATTTTTGCCTTGC	0.428													34	59					0	0	1	0	0		C	77334283	C	C	77334283	3	2	89	1	0	0	0	0	1	0	0	0	263	1841	64	3	1142	3	ADAMTS18	16	77334283	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	872930	77334283	13020470	5554	59385											
ADAMTS18	170692	broad.mit.edu	37	chr16	77396073	77396073	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaagatggcatgatcatgtCtcttgccattctttccaatg	9	15	8	9	0	3	2	1	1	2	1	5	2	4	2	2	1	1	2	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:77396073C>A	uc002ffc.3	-	7	1564	c.1145G>T	c.(1144-1146)AGA>ATA	p.R382I	ADAMTS18_uc010chc.1_5'UTR|ADAMTS18_uc002ffe.1_Missense_Mutation_p.R78I|ADAMTS18_uc010vni.1_Intron	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	382	Peptidase M12B.		R -> K (in a colorectal cancer sample; somatic mutation).		proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding	p.R382K(1)		large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						ATGATCATGTCTCTTGCCATT	0.413													19	43					1.96292e-10	2.12899e-10	1	1	0		A	77396073	A	A	77396073	3	1	89	1	0	0	0	0	1	0	0	0	263	913	32	5	2588	5	ADAMTS18	16	77396073	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	61790	77396073	12958680	5555	59386											
CLEC3A	10143	broad.mit.edu	37	chr16	78064634	78064634	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagcctaacggtggcaagCgagaaaactgtgtcctgttc	11	8	11	11	2	0	1	0	0	0	1	2	2	1	1	2	2	4	2	2	2	4	2	rs149998795		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:78064634C>T	uc002ffh.3	+	3	571	c.490C>T	c.(490-492)CGA>TGA	p.R164*		NM_005752	NP_005743	O75596	CLC3A_HUMAN	C-type lectin domain family 3 member A	164	C-type lectin.				skeletal system development	extracellular region	sugar binding				0						CGGTGGCAAGCGAGAAAACTG	0.532													38	78					0	0	1	0	0		T	78064634	T	T	78064634	4	4	89	1	0	0	0	0	0	1	0	0	3513	760	27	1	500	1	CLEC3A	16	78064634	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	668561	78064634	12290119	5556	59387											
CDYL2	124359	broad.mit.edu	37	chr16	80718445	80718445	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctacaaaccgagcccgttCtccgccagtgtagcgtgatt	9	9	10	13	4	1	1	0	1	1	0	2	2	1	1	4	0	5	3	4	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:80718445C>A	uc002ffs.2	-	2	711	c.606G>T	c.(604-606)GAG>GAT	p.E202D		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	202						nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						CGAGCCCGTTCTCCGCCAGTG	0.512													28	56					4.22769e-11	4.62085e-11	1	1	0		A	80718445	A	A	80718445	3	1	89	1	0	0	0	0	1	0	0	0	3189	912	32	5	938	5	CDYL2	16	80718445	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2653811	80718445	9636308	5557	59388											
CENPN	55839	broad.mit.edu	37	chr16	81053750	81053750	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagaatgcagtctggattCgaattgcctggggaacacag	12	8	14	7	1	1	1	0	0	1	1	2	5	1	3	1	4	3	1	1	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:81053750C>T	uc002ffx.2	+	6	1190	c.400C>T	c.(400-402)CGA>TGA	p.R134*	CENPN_uc002ffw.3_Nonsense_Mutation_p.R134*|CENPN_uc010vnl.1_Nonsense_Mutation_p.R134*|CENPN_uc010vnm.1_Nonsense_Mutation_p.R114*|CENPN_uc002ffy.3_Nonsense_Mutation_p.R134*	NM_001100624	NP_001094094	Q96H22	CENPN_HUMAN	centromere protein N isoform 2	134					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm					0						AGTCTGGATTCGAATTGCCTG	0.433													13	35					0	0	1	0	0		T	81053750	T	T	81053750	4	4	89	1	0	0	0	0	0	1	0	0	3241	876	31	1	418	1	CENPN	16	81053750	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	335305	81053750	9301003	5558	59389											
ATMIN	23300	broad.mit.edu	37	chr16	81077066	81077066	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtctttgtgcctacagcCgactcctcagcccagcctgt	5	11	8	17	1	2	0	1	0	1	0	3	1	3	0	6	0	5	0	6	0	1	2	rs148070606		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:81077066C>T	uc002ffz.1	+	4	981	c.963C>T	c.(961-963)GCC>GCT	p.A321A	ATMIN_uc002fga.2_Silent_p.A163A|ATMIN_uc010vnn.1_Silent_p.A92A|ATMIN_uc002fgb.1_Silent_p.A163A	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	321	Required for formation of RAD51 foci.				response to DNA damage stimulus	nucleus	zinc ion binding				0						TGCCTACAGCCGACTCCTCAG	0.527													58	88					0	0	1	0	0		T	81077066	T	T	81077066	2	4	89	1	0	0	0	0	0	0	0	1	1111	639	23	1		1	ATMIN	16	81077066	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	23316	81077066	9277687	5559	59390											
C16orf46	123775	broad.mit.edu	37	chr16	81097524	81097524	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttcattattttcagcatTttctaagtcagtctcatttt	10	21	3	7	0	5	0	4	0	2	0	6	0	5	0	0	0	1	1	0	0	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:81097524T>G	uc002fgc.3	-	3	296	c.37A>C	c.(37-39)AAT>CAT	p.N13H	C16orf46_uc010chf.2_Missense_Mutation_p.N13H|C16orf46_uc010vno.1_Intron	NM_152337	NP_689550	Q6P387	CP046_HUMAN	chromosome 16 open reading frame 46 isoform 2	13											0						TTTTCAGCATTTTCTAAGTCA	0.323													31	68					0	0	1	0	0		G	81097524	G	G	81097524	3	3	89	1	0	0	0	0	1	0	0	0	1818	1841	64	5	1186	5	C16orf46	16	81097524	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	20458	81097524	9257229	5560	59391											
PKD1L2	114780	broad.mit.edu	37	chr16	81213297	81213297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgggactgcagaaacgagCtgttcaacagcaacgtggag	12	5	13	11	3	1	1	1	0	0	1	1	4	1	3	1	2	6	4	1	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:81213297C>T	uc002fgh.1	-	13	2213	c.2213G>A	c.(2212-2214)AGC>AAC	p.S738N	PKD1L2_uc002fgg.1_RNA|PKD1L2_uc002fgi.2_Missense_Mutation_p.S53N|PKD1L2_uc002fgj.2_Missense_Mutation_p.S738N|PKD1L2_uc002fgk.1_5'Flank|PKD1L2_uc002fgl.1_Missense_Mutation_p.S53N	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	738	REJ.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CAGAAACGAGCTGTTCAACAG	0.547													23	40					0	0	1	0	0		T	81213297	T	T	81213297	3	4	89	1	0	0	0	0	1	0	0	0	11984	797	28	2	5359	2	PKD1L2	16	81213297	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	115773	81213297	9141456	5561	59392											
CMIP	80790	broad.mit.edu	37	chr16	81685954	81685954	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccccactggaaatcgtctcGaaactgctctcagaggtaaa	12	8	9	12	2	2	1	1	0	2	1	5	3	2	2	2	2	2	2	2	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:81685954G>A	uc002fgp.2	+	4	696	c.624G>A	c.(622-624)TCG>TCA	p.S208S	CMIP_uc002fgq.1_Silent_p.S114S|CMIP_uc010vnq.1_Silent_p.S21S|CMIP_uc002fgr.1_Silent_p.S55S	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	174						cytoplasm|nucleus					0						AAATCGTCTCGAAACTGCTCT	0.582													5	59					0	0	1	0	0		A	81685954	A	A	81685954	2	1	89	1	0	0	0	0	0	0	0	1	3581	1045	37	1		1	CMIP	16	81685954	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	472657	81685954	8668799	5562	59393											
PLCG2	5336	broad.mit.edu	37	chr16	81934292	81934292	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggccaaggccttcaaggaAgtatttggcgacctgctgtt	9	11	12	9	1	1	0	1	0	0	0	1	2	1	1	3	4	1	3	3	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:81934292A>C	uc002fgt.2	+	14	1421	c.1269A>C	c.(1267-1269)GAA>GAC	p.E423D	PLCG2_uc010chg.1_Missense_Mutation_p.E423D	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	423	PI-PLC X-box.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						CCTTCAAGGAAGTATTTGGCG	0.607													16	24					0	0	1	0	0		C	81934292	C	C	81934292	3	2	89	1	0	0	0	0	1	0	0	0	12055	69	3	5	1319	5	PLCG2	16	81934292	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	248338	81934292	8420461	5563	59394											
PLCG2	5336	broad.mit.edu	37	chr16	81944184	81944184	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggagggcgggaccctgaAatactacttgactgacaacc	12	7	11	11	1	0	3	0	3	0	0	0	5	0	5	2	3	3	0	2	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:81944184A>C	uc002fgt.2	+	18	1945	c.1793A>C	c.(1792-1794)AAA>ACA	p.K598T	PLCG2_uc010chg.1_Missense_Mutation_p.K598T	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	598	SH2 1.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						GGGACCCTGAAATACTACTTG	0.647													30	173					0	0	1	0	0		C	81944184	C	C	81944184	3	2	89	1	0	0	0	0	1	0	0	0	12055	14	1	5	1859	5	PLCG2	16	81944184	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	9892	81944184	8410569	5564	59395											
NECAB2	54550	broad.mit.edu	37	chr16	84031879	84031879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgagtttctggactctctgCgccagtatctgcgggggacc	5	10	14	12	3	3	0	0	0	3	0	4	3	3	2	2	3	2	2	2	3	1	2	rs141800256		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:84031879C>T	uc002fhd.2	+	10	936	c.919C>T	c.(919-921)CGC>TGC	p.R307C	NECAB2_uc002fhe.2_Missense_Mutation_p.R224C	NM_019065	NP_061938	Q7Z6G3	NECA2_HUMAN	neuronal calcium-binding protein 2	307	ABM.				antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity|protein binding			ovary(2)	2						GGACTCTCTGCGCCAGTATCT	0.662													14	30					0	0	1	0	0		T	84031879	T	T	84031879	3	4	89	1	0	0	0	0	1	0	0	0	10324	768	27	1	957	1	NECAB2	16	84031879	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2087695	84031879	6322874	5565	59396											
HSDL1	83693	broad.mit.edu	37	chr16	84164808	84164808	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtaaaagtcacagatgAcagtgatgctttttctggcc	10	12	11	8	0	2	3	1	2	1	1	2	3	2	3	1	2	1	3	1	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:84164808A>G	uc002fhk.2	-	3	303	c.119T>C	c.(118-120)GTC>GCC	p.V40A	HSDL1_uc010vnv.1_Missense_Mutation_p.V40A	NM_031463	NP_113651	Q3SXM5	HSDL1_HUMAN	hydroxysteroid dehydrogenase like 1 isoform a	40	Required for mitochondria translocation.					mitochondrion	oxidoreductase activity|protein binding				0						GTCACAGATGACAGTGATGCT	0.498													40	111					0	0	1	0	0		G	84164808	G	G	84164808	3	3	89	1	0	0	0	0	1	0	0	0	7409	275	10	3	889	3	HSDL1	16	84164808	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	132929	84164808	6189945	5566	59397											
USP10	9100	broad.mit.edu	37	chr16	84792352	84792352	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatgtaaccctaatccataAaccagtgtcgttgcaacccc	13	9	6	13	1	0	0	0	0	0	0	2	1	1	0	5	0	4	3	5	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:84792352A>C	uc002fii.2	+	5	1365	c.1223A>C	c.(1222-1224)AAA>ACA	p.K408T	USP10_uc010voe.1_Missense_Mutation_p.K412T|USP10_uc010vof.1_5'UTR|USP10_uc002fij.2_Intron	NM_005153	NP_005144	Q14694	UBP10_HUMAN	ubiquitin specific protease 10	408					DNA damage response, signal transduction by p53 class mediator|DNA repair|protein deubiquitination|ubiquitin-dependent protein catabolic process	early endosome|intermediate filament cytoskeleton|nucleus	cystic fibrosis transmembrane conductance regulator binding|p53 binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						CTAATCCATAAACCAGTGTCG	0.438													43	75					0	0	1	0	0		C	84792352	C	C	84792352	3	2	89	1	0	0	0	0	1	0	0	0	17067	14	1	5	1241	5	USP10	16	84792352	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	627544	84792352	5562401	5567	59398											
CRISPLD2	83716	broad.mit.edu	37	chr16	84879404	84879404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgcagacctgggatgacGaactggagaagtctgctgca	10	8	13	10	1	1	3	0	1	1	2	2	6	2	4	2	2	4	3	2	2	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:84879404G>A	uc010voh.1	+	3	480	c.253G>A	c.(253-255)GAA>AAA	p.E85K	CRISPLD2_uc010vog.1_Missense_Mutation_p.E85K|CRISPLD2_uc002fio.2_Missense_Mutation_p.E85K|CRISPLD2_uc002fil.2_Missense_Mutation_p.E85K|CRISPLD2_uc002fim.2_Missense_Mutation_p.E85K|CRISPLD2_uc002fin.3_Missense_Mutation_p.E85K	NM_031476	NP_113664	Q9H0B8	CRLD2_HUMAN	cysteine-rich secretory protein LCCL domain	85						extracellular region|transport vesicle					0						CTGGGATGACGAACTGGAGAA	0.617													32	55					0	0	1	0	0		A	84879404	A	A	84879404	3	1	89	1	0	0	0	0	1	0	0	0	3886	1059	37	1	259	1	CRISPLD2	16	84879404	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	87052	84879404	5475349	5568	59399											
JPH3	57338	broad.mit.edu	37	chr16	87723916	87723916	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgccccgaggaccggggcttCggggtgcagagactgcggtc	5	5	18	13	5	0	1	0	0	0	1	2	4	0	2	3	6	2	2	3	6	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:87723916C>T	uc002fkd.2	+	4	2204	c.1950C>T	c.(1948-1950)TTC>TTT	p.F650F	JPH3_uc010vou.1_RNA	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	650	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		ACCGGGGCTTCGGGGTGCAGA	0.692													3	5					0	0	1	0	0		T	87723916	T	T	87723916	2	4	89	1	0	0	0	0	0	0	0	1	7978	883	31	1		1	JPH3	16	87723916	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2844512	87723916	2630837	5569	59400											
SLC7A5	8140	broad.mit.edu	37	chr16	87902728	87902728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgagctccgcgtagcagaGcgcgcccacgatggagaaga	10	3	15	13	6	0	3	0	0	0	3	1	6	1	3	3	1	3	3	3	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:87902728G>A	uc002fkm.2	-	1	373	c.301C>T	c.(301-303)CTC>TTC	p.L101F		NM_003486	NP_003477	Q01650	LAT1_HUMAN	solute carrier family 7 (cationic amino acid	101	Helical; (Potential).				blood coagulation|cell differentiation|cellular amino acid metabolic process|ion transport|leukocyte migration|nervous system development	apical plasma membrane|cytosol|integral to membrane	neutral amino acid transmembrane transporter activity|peptide antigen binding				0				BRCA - Breast invasive adenocarcinoma(80;0.049)		GCGTAGCAGAGCGCGCCCACG	0.687													29	30					0	0	1	0	0		A	87902728	A	A	87902728	3	1	89	1	0	0	0	0	1	0	0	0	14725	971	34	2	1262	2	SLC7A5	16	87902728	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	178812	87902728	2452025	5570	59401											
CBFA2T3	863	broad.mit.edu	37	chr16	88958361	88958361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcttggaatgaaactcctCgatcgtcaatgtcgagttct	11	12	9	9	3	2	1	1	1	1	0	6	4	3	2	1	1	2	2	1	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:88958361C>T	uc002fmm.1	-	5	826	c.640G>A	c.(640-642)GAG>AAG	p.E214K	CBFA2T3_uc002fml.1_Missense_Mutation_p.E128K|CBFA2T3_uc010cif.1_Missense_Mutation_p.E153K|CBFA2T3_uc002fmn.1_Missense_Mutation_p.E189K	NM_005187	NP_005178	O75081	MTG16_HUMAN	myeloid translocation gene on chromosome 16	214	TAFH.|Mediates localization to the nucleus (By similarity).|Mediates interaction with PDE7A (in isoform 2).				cell proliferation|granulocyte differentiation	Golgi membrane|nucleolus|nucleoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(3)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(80;0.0275)		TGAAACTCCTCGATCGTCAAT	0.597			T	RUNX1	AML								7	26					0	0	1	0	0		T	88958361	T	T	88958361	3	4	89	1	0	0	0	0	1	0	0	0	2701	893	31	1	1353	1	CBFA2T3	16	88958361	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1055633	88958361	1396392	5571	59402											
CBFA2T3	863	broad.mit.edu	37	chr16	88958681	88958681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaccagtgtgcgcacgcGctccccaatctctggggaga	8	6	12	15	3	1	1	0	0	1	1	3	2	2	1	3	2	2	3	3	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:88958681G>A	uc002fmm.1	-	4	778	c.592C>T	c.(592-594)CGC>TGC	p.R198C	CBFA2T3_uc002fml.1_Missense_Mutation_p.R112C|CBFA2T3_uc010cif.1_Missense_Mutation_p.R137C|CBFA2T3_uc002fmn.1_Missense_Mutation_p.R173C	NM_005187	NP_005178	O75081	MTG16_HUMAN	myeloid translocation gene on chromosome 16	198	TAFH.|Mediates localization to the nucleus (By similarity).|Mediates interaction with PDE7A (in isoform 2).				cell proliferation|granulocyte differentiation	Golgi membrane|nucleolus|nucleoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(3)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(80;0.0275)		GTGCGCACGCGCTCCCCAATC	0.647			T	RUNX1	AML								16	40					0	0	1	0	0		A	88958681	A	A	88958681	3	1	89	1	0	0	0	0	1	0	0	0	2701	1087	38	1	1405	1	CBFA2T3	16	88958681	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	320	88958681	1396072	5572	59403											
CDH15	1013	broad.mit.edu	37	chr16	89250017	89250017	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaccccacggacctggagaTtgtagttgtggatcagaatg	10	9	14	8	1	1	2	1	0	0	2	1	6	1	5	3	4	0	2	3	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:89250017T>G	uc002fmt.2	+	4	496	c.419T>G	c.(418-420)ATT>AGT	p.I140S	CDH15_uc010cij.1_Missense_Mutation_p.I140S	NM_004933	NP_004924	P55291	CAD15_HUMAN	cadherin 15 preproprotein	140	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	calcium ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0261)		GACCTGGAGATTGTAGTTGTG	0.612													13	19					0	0	1	0	0		G	89250017	G	G	89250017	3	3	89	1	0	0	0	0	1	0	0	0	3103	1493	52	5	433	5	CDH15	16	89250017	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	291336	89250017	1104736	5573	59404											
ANKRD11	29123	broad.mit.edu	37	chr16	89348754	89348754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaactccgtaagcatccGcctccaggaagtccttttcg	11	9	8	13	3	0	1	0	0	0	1	5	2	4	2	5	1	2	2	5	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:89348754G>A	uc002fmx.1	-	9	4657	c.4196C>T	c.(4195-4197)GCG>GTG	p.A1399V	ANKRD11_uc002fmy.1_Missense_Mutation_p.A1399V|ANKRD11_uc002fnc.1_Missense_Mutation_p.A1399V|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Missense_Mutation_p.A1356V	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1399	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		GTAAGCATCCGCCTCCAGGAA	0.443													50	95					0	0	1	0	0		A	89348754	A	A	89348754	3	1	89	1	0	0	0	0	1	0	0	0	639	1087	38	1	3815	1	ANKRD11	16	89348754	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	98737	89348754	1005999	5574	59405											
C16orf7	9605	broad.mit.edu	37	chr16	89776282	89776282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagctgtgtttaggccttCgaaggccagaagggtcagcg	8	8	16	9	2	1	1	1	0	0	1	2	2	1	1	2	4	2	3	2	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:89776282C>T	uc002fom.1	-	11	1416	c.1291G>A	c.(1291-1293)GAA>AAA	p.E431K	C16orf7_uc002fol.1_Missense_Mutation_p.E361K|uc002fon.1_5'Flank	NM_004913	NP_004904	Q9Y2B5	CP007_HUMAN	chromosome 16 open reading frame 7	431					ATP synthesis coupled proton transport		GTPase activator activity|transporter activity				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		TTTAGGCCTTCGAAGGCCAGA	0.617													50	96					0	0	1	0	0		T	89776282	T	T	89776282	3	4	89	1	0	0	0	0	1	0	0	0	1831	893	31	1	624	1	C16orf7	16	89776282	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	427528	89776282	578471	5575	59406											
DEF8	54849	broad.mit.edu	37	chr16	90016033	90016033	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtcacgccgcgggcaggAcgcgggaggccaggtccgtg	5	4	20	12	6	1	0	1	0	0	0	2	2	2	2	3	6	0	1	3	6	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr16:90016033A>G	uc002fpn.1	+	2	249	c.160A>G	c.(160-162)ACG>GCG	p.T54A	DEF8_uc002fpl.2_Intron|DEF8_uc002fpm.2_Intron|DEF8_uc002fpo.1_Intron|DEF8_uc002fpp.1_Intron|DEF8_uc010vpq.1_Intron|DEF8_uc010vpr.1_Intron	NM_207514	NP_997397	Q6ZN54	DEFI8_HUMAN	differentially expressed in FDCP 8 isoform 1	54					intracellular signal transduction		zinc ion binding			central_nervous_system(1)	1		all_cancers(9;7.59e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.0019)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0274)		CGCGGGCAGGACGCGGGAGGC	0.672													21	39					0	0	1	0	0		G	90016033	G	G	90016033	3	3	89	1	0	0	0	0	1	0	0	0	4390	275	10	3	162	3	DEF8	16	90016033	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	239751	90016033	338720	5576	59407											
NXN	64359	broad.mit.edu	37	chr17	708413	708413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaactcccggcagtcctcgtCgttcagcacctccacccgcc	6	7	8	20	4	1	0	1	0	0	0	6	1	4	0	6	1	2	3	6	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:708413C>T	uc002fsa.2	-	6	987	c.895G>A	c.(895-897)GAC>AAC	p.D299N	NXN_uc010vqd.1_Intron|NXN_uc002frz.2_Missense_Mutation_p.D50N|NXN_uc010vqe.1_Missense_Mutation_p.D191N	NM_022463	NP_071908	Q6DKJ4	NXN_HUMAN	nucleoredoxin	299	Thioredoxin.				cell differentiation|cell redox homeostasis|multicellular organismal development|Wnt receptor signaling pathway	cytosol|nucleus	protein-disulfide reductase activity			ovary(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (25;0.0237)		CAGTCCTCGTCGTTCAGCACC	0.682													10	13					0	0	1	0	0		T	708413	T	T	708413	3	4	89	1	0	0	0	0	1	0	0	0	10806	884	31	1	424	1	NXN	17	708413	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08		708413	80486797	5577	59408											
HIC1	3090	broad.mit.edu	37	chr17	1960258	1960258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccgcctggctgacggcgcaGaggcggctgcggccgcggcc	3	3	19	16	7	0	2	0	1	0	1	0	2	0	2	4	6	1	3	4	6	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:1960258G>A	uc010cjy.2	+	2	331	c.331G>A	c.(331-333)GAG>AAG	p.E111K	HIC1_uc002fty.3_Missense_Mutation_p.E92K|HIC1_uc002ftz.3_Missense_Mutation_p.E92K	NM_001098202	NP_001091672	Q14526	HIC1_HUMAN	hypermethylated in cancer 1 isoform 2	111	Poly-Ala.				multicellular organismal development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)	1				READ - Rectum adenocarcinoma(1115;0.236)		TGACGGCGCAGAGGCGGCTGC	0.721													4	17					0	0	1	0	0		A	1960258	A	A	1960258	3	1	89	1	0	0	0	0	1	0	0	0	7117	943	33	4	337	4	HIC1	17	1960258	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1251845	1960258	79234952	5578	59409											
SMG6	23293	broad.mit.edu	37	chr17	2201202	2201202	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccgaatctgttctgggttCtcaacattcggatccttgac	7	15	8	11	2	3	1	1	1	3	0	7	3	5	2	2	2	1	2	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:2201202C>T	uc002fub.1	-	3	2050	c.1995G>A	c.(1993-1995)GAG>GAA	p.E665E		NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	665					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						GTTCTGGGTTCTCAACATTCG	0.423													42	87					0	0	1	0	0		T	2201202	T	T	2201202	2	4	89	1	0	0	0	0	0	0	0	1	14822	912	32	4		4	SMG6	17	2201202	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	240944	2201202	78994008	5579	59410											
TSR1	55720	broad.mit.edu	37	chr17	2239404	2239404	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgagttcttttctcaccTtcttgcttagggttttcagt	4	20	8	9	0	4	1	2	1	3	0	5	1	4	1	1	1	2	4	1	1	1	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:2239404T>G	uc002fuj.2	-	2	1085	c.128A>C	c.(127-129)AAG>ACG	p.K43T	SGSM2_uc002fum.3_5'Flank|SGSM2_uc010vqw.1_5'Flank|SGSM2_uc002fun.3_5'Flank	NM_018128	NP_060598	Q2NL82	TSR1_HUMAN	TSR1, 20S rRNA accumulation	43					ribosome assembly	nucleolus	protein binding			ovary(1)	1						TTTTCTCACCTTCTTGCTTAG	0.567													10	83					0	0	1	0	0		G	2239404	G	G	2239404	3	3	89	1	0	0	0	0	1	0	0	0	16690	1609	56	5	2342	5	TSR1	17	2239404	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	38202	2239404	78955806	5580	59411											
PAFAH1B1	5048	broad.mit.edu	37	chr17	2570370	2570370	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagaaacgagacccaaaaGaatggattccccgtccgcca	14	5	9	13	3	1	3	1	0	0	3	3	5	3	4	5	1	1	0	5	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:2570370G>T	uc002fuw.3	+	5	845	c.277G>T	c.(277-279)GAA>TAA	p.E93*	PAFAH1B1_uc010ckb.1_RNA	NM_000430	NP_000421	P43034	LIS1_HUMAN	platelet-activating factor acetylhydrolase,	93	Interaction with NDEL1 (By similarity).|Interaction with dynein and dynactin.			E -> G (in Ref. 3; AAL34973).	acrosome assembly|actin cytoskeleton organization|adult locomotory behavior|brain morphogenesis|corpus callosum morphogenesis|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|hippocampus development|layer formation in cerebral cortex|learning or memory|lipid catabolic process|microtubule organizing center organization|mitotic prometaphase|neuroblast proliferation|neuromuscular process controlling balance|neuron migration|platelet activating factor metabolic process|regulation of Rho GTPase activity|retrograde axon cargo transport|synaptic transmission|vesicle transport along microtubule	astral microtubule|cell cortex|centrosome|cytosol|kinetochore|motile primary cilium|nuclear membrane|perinuclear region of cytoplasm	dynactin binding|heparin binding|microtubule binding|phospholipase binding|phosphoprotein binding|protein homodimerization activity			skin(1)	1						AGACCCAAAAGAATGGATTCC	0.428													28	51					4.22769e-11	4.62085e-11	1	1	0		T	2570370	T	T	2570370	4	4	89	1	0	0	0	0	0	1	0	0	11403	943	33	5	291	5	PAFAH1B1	17	2570370	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	330966	2570370	78624840	5581	59412											
OR1G1	8390	broad.mit.edu	37	chr17	3030537	3030537	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcatcacaaataacatgaaAaaatacaactgtagtagaca	22	7	5	7	0	1	2	1	1	0	1	1	2	1	2	0	0	4	3	0	0	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:3030537A>C	uc002fvc.1	-	1	309	c.309T>G	c.(307-309)TTT>TTG	p.F103L		NM_003555	NP_003546	P47890	OR1G1_HUMAN	olfactory receptor, family 1, subfamily G,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATAACATGAAAAAATACAACT	0.473													34	55					0	0	1	0	0		C	3030537	C	C	3030537	3	2	89	1	0	0	0	0	1	0	0	0	10976	11	1	5	636	5	OR1G1	17	3030537	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	460167	3030537	78164673	5582	59413											
OR1A2	26189	broad.mit.edu	37	chr17	3101260	3101260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcttattgctgggtcttggGtgattggaaacaccagtgct	7	14	13	7	0	1	1	0	1	1	0	1	2	1	2	1	3	4	3	1	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:3101260G>A	uc002fvd.1	+	1	448	c.448G>A	c.(448-450)GTG>ATG	p.V150M		NM_012352	NP_036484	Q9Y585	OR1A2_HUMAN	olfactory receptor, family 1, subfamily A,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TGGGTCTTGGGTGATTGGAAA	0.493													54	72					0	0	1	0	0		A	3101260	A	A	3101260	3	1	89	1	0	0	0	0	1	0	0	0	10969	1261	44	4	450	4	OR1A2	17	3101260	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	70723	3101260	78093950	5583	59414											
OR3A1	4994	broad.mit.edu	37	chr17	3195189	3195189	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctctacagagcgaattcGcaggactgcagctgccacgt	9	7	11	14	3	1	1	0	0	1	1	2	3	1	2	2	1	5	3	2	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:3195189G>A	uc002fvh.1	-	1	688	c.688C>T	c.(688-690)CGA>TGA	p.R230*		NM_002550	NP_002541	P47881	OR3A1_HUMAN	olfactory receptor, family 3, subfamily A,	230	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.R230*(1)		kidney(2)|central_nervous_system(1)	3						GAGCGAATTCGCAGGACTGCA	0.483													40	79					0	0	1	0	0		A	3195189	A	A	3195189	4	1	89	1	0	0	0	0	0	1	0	0	11056	1095	38	1	263	1	OR3A1	17	3195189	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	93929	3195189	78000021	5584	59415											
OR3A1	4994	broad.mit.edu	37	chr17	3195809	3195809	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactggctgcagccctggcGcctccagcaagcccagcagg	8	4	12	17	1	0	0	0	0	0	0	1	0	1	0	4	3	6	4	4	3	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:3195809G>A	uc002fvh.1	-	1	68	c.68C>T	c.(67-69)GCG>GTG	p.A23V		NM_002550	NP_002541	P47881	OR3A1_HUMAN	olfactory receptor, family 3, subfamily A,	23	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(2)|central_nervous_system(1)	3						CAGCCCTGGCGCCTCCAGCAA	0.567													35	60					0	0	1	0	0		A	3195809	A	A	3195809	3	1	89	1	0	0	0	0	1	0	0	0	11056	1087	38	1	883	1	OR3A1	17	3195809	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	620	3195809	77999401	5585	59416											
TRPV3	162514	broad.mit.edu	37	chr17	3436055	3436055	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgcagtaggatcatgtcgtAcatgcgcttcacaaagtcat	11	10	9	11	3	3	0	3	0	0	0	4	1	3	1	1	1	2	4	1	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:3436055A>G	uc002fvt.1	-	8	1283	c.961T>C	c.(961-963)TAC>CAC	p.Y321H	TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Missense_Mutation_p.Y305H|TRPV3_uc010vri.1_Missense_Mutation_p.Y276H|TRPV3_uc010vrj.1_Missense_Mutation_p.Y305H|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Missense_Mutation_p.Y305H|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Missense_Mutation_p.Y321H|TRPV3_uc002fvu.2_Missense_Mutation_p.Y321H|TRPV3_uc010vrn.1_5'Flank	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	321	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	ATCATGTCGTACATGCGCTTC	0.602													22	42					0	0	1	0	0		G	3436055	G	G	3436055	3	3	89	1	0	0	0	0	1	0	0	0	16623	391	14	3	1455	3	TRPV3	17	3436055	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	240246	3436055	77759155	5586	59417											
TRPV3	162514	broad.mit.edu	37	chr17	3436154	3436154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgagtcccgcgaggtgatgtCcgtctgctcgtgctccatca	5	11	12	13	4	2	2	1	2	1	0	6	3	5	2	3	1	2	2	3	1	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:3436154C>T	uc002fvt.1	-	8	1184	c.862G>A	c.(862-864)GAC>AAC	p.D288N	TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Missense_Mutation_p.D272N|TRPV3_uc010vri.1_Missense_Mutation_p.D243N|TRPV3_uc010vrj.1_Missense_Mutation_p.D272N|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Missense_Mutation_p.D272N|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Missense_Mutation_p.D288N|TRPV3_uc002fvu.2_Missense_Mutation_p.D288N|TRPV3_uc010vrn.1_5'Flank	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	288	ANK 2.|Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	GAGGTGATGTCCGTCTGCTCG	0.607													18	50					0	0	1	0	0		T	3436154	T	T	3436154	3	4	89	1	0	0	0	0	1	0	0	0	16623	855	30	4	1554	4	TRPV3	17	3436154	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	99	3436154	77759056	5587	59418											
P2RX5	5026	broad.mit.edu	37	chr17	3593419	3593419	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttatgaaaatggtgaagtCttcggcctccttcaggaatg	10	13	10	8	1	2	2	1	2	1	0	4	3	3	3	2	3	0	0	2	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:3593419C>A	uc002fwi.2	-	6	843	c.559G>T	c.(559-561)GAC>TAC	p.D187Y	P2RX5_uc002fwd.2_RNA|P2RX5_uc002fwh.1_Missense_Mutation_p.D187Y|P2RX5_uc010vrx.1_Missense_Mutation_p.D127Y|P2RX5_uc002fwj.2_Missense_Mutation_p.D163Y|P2RX5_uc002fwk.2_Missense_Mutation_p.D187Y|P2RX5_uc002fwl.2_Missense_Mutation_p.D163Y	NM_002561	NP_002552	Q93086	P2RX5_HUMAN	purinergic receptor P2X5 isoform A	187	Extracellular (Potential).				nervous system development|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						ATGGTGAAGTCTTCGGCCTCC	0.587													71	164					2.42712e-22	2.89376e-22	1	1	0		A	3593419	A	A	3593419	3	1	89	1	0	0	0	0	1	0	0	0	11362	913	32	5	737	5	P2RX5	17	3593419	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	157265	3593419	77601791	5588	59419											
P2RX5	5026	broad.mit.edu	37	chr17	3595070	3595070	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacgtcttggtaacccttCtttatcaggaacacccatct	9	13	6	13	2	4	0	1	0	3	0	5	2	4	1	2	2	2	1	2	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:3595070C>A	uc002fwi.2	-	2	440	c.156G>T	c.(154-156)AAG>AAT	p.K52N	P2RX5_uc002fwd.2_RNA|P2RX5_uc002fwh.1_Missense_Mutation_p.K52N|P2RX5_uc010vrx.1_Missense_Mutation_p.K16N|P2RX5_uc002fwj.2_Missense_Mutation_p.K52N|P2RX5_uc002fwk.2_Missense_Mutation_p.K52N|P2RX5_uc002fwl.2_Missense_Mutation_p.K52N|P2RX5_uc002fwm.1_Missense_Mutation_p.K52N	NM_002561	NP_002552	Q93086	P2RX5_HUMAN	purinergic receptor P2X5 isoform A	52	Extracellular (Potential).				nervous system development|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						GGTAACCCTTCTTTATCAGGA	0.602													53	111					3.53049e-34	4.34848e-34	1	1	0		A	3595070	A	A	3595070	3	1	89	1	0	0	0	0	1	0	0	0	11362	912	32	5	1160	5	P2RX5	17	3595070	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1651	3595070	77600140	5589	59420											
C17orf85	55421	broad.mit.edu	37	chr17	3721585	3721585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcaactgagattccacttCgtcagcatacatagtcattt	11	15	5	10	1	3	1	3	1	0	1	5	2	4	1	1	0	3	1	1	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:3721585C>T	uc010ckl.1	-	10	1305	c.1282G>A	c.(1282-1284)GAA>AAA	p.E428K	C17orf85_uc002fwr.2_Missense_Mutation_p.E138K|C17orf85_uc002fwq.2_Missense_Mutation_p.E148K	NM_001114118	NP_001107590	Q53F19	CQ085_HUMAN	ELG protein isoform a	428							nucleotide binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (3;0.0725)		GATTCCACTTCGTCAGCATAC	0.323													25	58					0	0	1	0	0		T	3721585	T	T	3721585	3	4	89	1	0	0	0	0	1	0	0	0	1891	893	31	1	596	1	C17orf85	17	3721585	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	126515	3721585	77473625	5590	59421											
C17orf85	55421	broad.mit.edu	37	chr17	3724565	3724565	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgtcgatgtttatacgaCgtcaagccaacgtcatcccc	11	10	8	12	4	2	0	2	0	0	0	4	3	3	0	3	0	3	1	3	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:3724565C>T	uc010ckl.1	-	9	1001	c.978G>A	c.(976-978)ACG>ACA	p.T326T	C17orf85_uc002fwr.2_Silent_p.T36T|C17orf85_uc002fwq.2_Silent_p.T46T	NM_001114118	NP_001107590	Q53F19	CQ085_HUMAN	ELG protein isoform a	326							nucleotide binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (3;0.0725)		GTTTATACGACGTCAAGCCAA	0.433													19	39					0	0	1	0	0		T	3724565	T	T	3724565	2	4	89	1	0	0	0	0	0	0	0	1	1891	523	19	1		1	C17orf85	17	3724565	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2980	3724565	77470645	5591	59422											
ZZEF1	23140	broad.mit.edu	37	chr17	3922983	3922983	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttctgaacctccaggaaGaaataatcggtctttttcat	11	14	6	10	1	4	2	1	1	3	1	6	3	5	3	2	2	1	0	2	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:3922983G>T	uc002fxe.2	-	46	7549	c.7485C>A	c.(7483-7485)TTC>TTA	p.F2495L	ZZEF1_uc002fxg.1_5'Flank	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	2495							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CCTCCAGGAAGAAATAATCGG	0.562													37	62					4.14481e-20	4.8834e-20	1	1	0		T	3922983	T	T	3922983	3	4	89	1	0	0	0	0	1	0	0	0	18280	933	33	5	1440	5	ZZEF1	17	3922983	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	198418	3922983	77272227	5592	59423											
ANKFY1	51479	broad.mit.edu	37	chr17	4071204	4071204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaagacgtccgcagtgacGactgtggaagcaaagaaagg	16	4	14	7	3	0	4	0	1	0	3	1	6	1	5	1	2	1	2	1	2	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:4071204G>A	uc002fxn.2	-	25	3622	c.3505C>T	c.(3505-3507)CGT>TGT	p.R1169C	ANKFY1_uc002fxo.2_Missense_Mutation_p.R1128C|ANKFY1_uc002fxp.2_Missense_Mutation_p.R1126C|ANKFY1_uc010ckp.2_Missense_Mutation_p.R1069C	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	1127	FYVE-type.					endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						CCGCAGTGACGACTGTGGAAG	0.512													25	42					0	0	1	0	0		A	4071204	A	A	4071204	3	1	89	1	0	0	0	0	1	0	0	0	626	1072	37	1	134	1	ANKFY1	17	4071204	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	148221	4071204	77124006	5593	59424											
ANKFY1	51479	broad.mit.edu	37	chr17	4085508	4085508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgtcctccagattgtttgCcaatgcaagccacagcgggg	9	9	12	11	1	0	1	0	0	0	1	2	2	2	1	4	2	4	2	4	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:4085508C>T	uc002fxq.1	-	15	2127	c.2089G>A	c.(2089-2091)GCA>ACA	p.A697T	ANKFY1_uc002fxn.2_Missense_Mutation_p.A739T|ANKFY1_uc002fxo.2_Missense_Mutation_p.A698T|ANKFY1_uc002fxp.2_Missense_Mutation_p.A696T|ANKFY1_uc010ckp.2_Missense_Mutation_p.A639T	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	697	ANK 11.					endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						AGATTGTTTGCCAATGCAAGC	0.527													52	104					0	0	1	0	0		T	4085508	T	T	4085508	3	4	89	1	0	0	0	0	1	0	0	0	626	739	26	2	1464	2	ANKFY1	17	4085508	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14304	4085508	77109702	5594	59425											
SPNS3	201305	broad.mit.edu	37	chr17	4337402	4337402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtggagggcctacgtggCtgccgccgtcctctgctaca	4	8	13	16	4	1	0	0	0	1	0	2	1	2	1	5	3	4	2	5	3	2	2	rs34349047	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:4337402C>T	uc002fxt.2	+	1	184	c.140C>T	c.(139-141)GCT>GTT	p.A47V	SPNS3_uc002fxu.2_5'UTR	NM_182538	NP_872344	Q6ZMD2	SPNS3_HUMAN	spinster homolog 3	47					lipid transport|transmembrane transport	integral to membrane				large_intestine(1)	1						GCCTACGTGGCTGCCGCCGTC	0.642													31	57					0	0	1	0	0		T	4337402	T	T	4337402	3	4	89	1	0	0	0	0	1	0	0	0	15101	797	28	2	142	2	SPNS3	17	4337402	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	251894	4337402	76857808	5595	59426											
PELP1	27043	broad.mit.edu	37	chr17	4578449	4578449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggacctggggaagcaggCggccgatcaggatcccaaag	11	4	16	10	2	1	1	1	1	0	0	2	5	2	4	3	6	1	1	3	6	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:4578449C>T	uc002fyi.3	-	11	1425	c.1199G>A	c.(1198-1200)CGC>CAC	p.R400H	PELP1_uc010vsf.1_Missense_Mutation_p.R253H	NM_014389	NP_055204	Q8IZL8	PELP1_HUMAN	proline, glutamic acid and leucine rich protein	400					transcription, DNA-dependent	cytoplasm|MLL1 complex	protein binding			ovary(1)|central_nervous_system(1)	2						GGGAAGCAGGCGGCCGATCAG	0.602													12	18					0	0	1	0	0		T	4578449	T	T	4578449	3	4	89	1	0	0	0	0	1	0	0	0	11744	768	27	1	2221	1	PELP1	17	4578449	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	241047	4578449	76616761	5596	59427											
CXCL16	58191	broad.mit.edu	37	chr17	4638447	4638447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcacataggaaagggctgCggtgaggatgaagatgatgg	13	6	17	5	1	0	4	0	3	0	1	0	6	0	6	0	5	2	2	0	5	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:4638447C>T	uc002fyr.3	-	4	1247	c.715G>A	c.(715-717)GCA>ACA	p.A239T	CXCL16_uc002fyq.3_Missense_Mutation_p.A81T|CXCL16_uc002fys.3_Missense_Mutation_p.A239T	NM_022059	NP_071342	Q9H2A7	CXL16_HUMAN	chemokine (C-X-C motif) ligand 16	220	Helical; (Potential).				lymphocyte chemotaxis|positive regulation of cell growth|positive regulation of cell migration|receptor-mediated endocytosis|response to interferon-gamma|response to tumor necrosis factor	extracellular space|integral to membrane|plasma membrane	chemokine activity|low-density lipoprotein receptor activity|scavenger receptor activity				0						GAAAGGGCTGCGGTGAGGATG	0.592													10	29					0	0	1	0	0		T	4638447	T	T	4638447	3	4	89	1	0	0	0	0	1	0	0	0	4086	768	27	1	114	1	CXCL16	17	4638447	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	59998	4638447	76556763	5597	59428											
SLC25A11	8402	broad.mit.edu	37	chr17	4841845	4841845	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accctcttcccgggtgattcGaatcagggcgttaaacacat	10	10	9	12	3	2	1	1	1	1	0	4	2	3	1	2	2	1	1	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:4841845G>A	uc002fzo.1	-	4	621	c.508C>T	c.(508-510)CGA>TGA	p.R170*	SLC25A11_uc002fzp.1_Nonsense_Mutation_p.R166*|RNF167_uc002fzq.2_5'Flank|RNF167_uc002fzr.2_5'Flank|RNF167_uc002fzs.2_5'Flank|RNF167_uc002fzt.2_5'Flank|RNF167_uc002fzu.2_5'Flank|RNF167_uc002fzv.2_5'Flank|RNF167_uc002fzw.1_5'Flank|RNF167_uc002fzx.2_5'Flank	NM_003562	NP_003553	Q02978	M2OM_HUMAN	solute carrier family 25 member 11 isoform 1	170	Solcar 2.				gluconeogenesis	integral to plasma membrane|mitochondrial inner membrane	oxoglutarate:malate antiporter activity				0						CGGGTGATTCGAATCAGGGCG	0.567													57	106					0	0	1	0	0		A	4841845	A	A	4841845	4	1	89	1	0	0	0	0	0	1	0	0	14498	1066	37	1	456	1	SLC25A11	17	4841845	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	203398	4841845	76353365	5598	59429											
KIF1C	10749	broad.mit.edu	37	chr17	4927223	4927223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgaaggtcccaccatccccGcaggaactccctggatggag	9	5	11	16	2	0	0	0	0	0	0	3	4	3	3	6	4	1	1	6	4	2	0	rs139120839		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:4927223G>A	uc002gan.1	+	23	3415	c.3089G>A	c.(3088-3090)CGC>CAC	p.R1030H		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	1030	Pro-rich.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						CACCATCCCCGCAGGAACTCC	0.672													21	39					0	0	1	0	0		A	4927223	A	A	4927223	3	1	89	1	0	0	0	0	1	0	0	0	8301	1087	38	1	3171	1	KIF1C	17	4927223	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	85378	4927223	76267987	5599	59430											
ZNF594	84622	broad.mit.edu	37	chr17	5085969	5085969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgtttgaggaaagctgtgCgccaaatgaagagcttccca	12	9	12	8	1	0	3	0	2	0	1	1	5	1	4	2	1	3	3	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:5085969C>T	uc010cla.1	-	2	1739	c.1583G>A	c.(1582-1584)CGC>CAC	p.R528H		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	528	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						GAAAGCTGTGCGCCAAATGAA	0.458													48	112					0	0	1	0	0		T	5085969	T	T	5085969	3	4	89	1	0	0	0	0	1	0	0	0	18049	768	27	1	844	1	ZNF594	17	5085969	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	158746	5085969	76109241	5600	59431											
ZNF594	84622	broad.mit.edu	37	chr17	5086896	5086896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttgagcttcccttaaaaGccttcccacactctttgcac	8	13	6	14	0	1	1	0	1	1	0	3	1	3	1	3	1	3	3	3	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:5086896G>A	uc010cla.1	-	2	812	c.656C>T	c.(655-657)GCT>GTT	p.A219V		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	219	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						TCCCTTAAAAGCCTTCCCACA	0.448													44	107					0	0	1	0	0		A	5086896	A	A	5086896	3	1	89	1	0	0	0	0	1	0	0	0	18049	971	34	2	1771	2	ZNF594	17	5086896	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	927	5086896	76108314	5601	59432											
NLRP1	22861	broad.mit.edu	37	chr17	5434015	5434015	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cggtaggagccagctacaggGaagtgaactctgggaagaag	13	5	16	7	1	1	2	0	1	1	1	1	5	1	5	1	4	4	2	1	4	6	2	rs35985646		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:5434015G>A	uc002gci.2	-	12	3861	c.3306C>T	c.(3304-3306)TTC>TTT	p.F1102F	NLRP1_uc002gcg.1_Silent_p.F1106F|NLRP1_uc002gck.2_Silent_p.F1102F|NLRP1_uc002gcj.2_Silent_p.F1072F|NLRP1_uc002gcl.2_Silent_p.F1072F|NLRP1_uc002gch.3_Silent_p.F1102F|NLRP1_uc010clh.2_Silent_p.F1102F	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1102					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				CAGCTACAGGGAAGTGAACTC	0.368													15	43					0	0	1	0	0		A	5434015	A	A	5434015	2	1	89	1	0	0	0	0	0	0	0	1	10490	1165	41	4		4	NLRP1	17	5434015	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	347119	5434015	75761195	5602	59433											
NLRP1	22861	broad.mit.edu	37	chr17	5442742	5442742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagggccttaccccaggcGtatgagtttgcaggcaggat	9	8	13	11	1	0	1	0	1	0	0	0	2	0	2	3	4	2	4	3	4	2	3	rs139267837	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:5442742G>A	uc002gci.2	-	7	3418	c.2863C>T	c.(2863-2865)CGC>TGC	p.R955C	NLRP1_uc002gcg.1_Missense_Mutation_p.R955C|NLRP1_uc002gck.2_Missense_Mutation_p.R955C|NLRP1_uc002gcj.2_Missense_Mutation_p.R955C|NLRP1_uc002gcl.2_Missense_Mutation_p.R955C|NLRP1_uc002gch.3_Missense_Mutation_p.R955C|NLRP1_uc010clh.2_Missense_Mutation_p.R955C	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	955	LRR 6.				defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				TACCCCAGGCGTATGAGTTTG	0.532													19	37					0	0	1	0	0		A	5442742	A	A	5442742	3	1	89	1	0	0	0	0	1	0	0	0	10490	1145	40	1	1677	1	NLRP1	17	5442742	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8727	5442742	75752468	5603	59434											
PITPNM3	83394	broad.mit.edu	37	chr17	6387538	6387538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccgaagcccagcctacctCgctgtcttcgtggatctcga	6	10	9	16	4	2	0	0	0	2	0	6	3	3	1	4	1	3	1	4	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:6387538C>T	uc002gdd.3	-	5	500	c.349G>A	c.(349-351)GAG>AAG	p.E117K	PITPNM3_uc010cln.2_Missense_Mutation_p.E81K|PITPNM3_uc002gdc.3_5'Flank	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	117					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		CAGCCTACCTCGCTGTCTTCG	0.443													57	103					0	0	1	0	0		T	6387538	T	T	6387538	3	4	89	1	0	0	0	0	1	0	0	0	11971	893	31	1	2639	1	PITPNM3	17	6387538	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	944796	6387538	74807672	5604	59435											
KIAA0753	9851	broad.mit.edu	37	chr17	6531586	6531586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggatcatgggtgggtggcGaatttggcacagtaagatct	9	10	15	7	2	2	1	1	0	1	1	2	3	2	2	1	5	0	2	1	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:6531586G>A	uc002gde.3	-	3	928	c.569C>T	c.(568-570)TCG>TTG	p.S190L	KIAA0753_uc010clo.2_5'UTR|KIAA0753_uc010vte.1_5'UTR	NM_014804	NP_055619	Q2KHM9	K0753_HUMAN	hypothetical protein LOC9851	190						centrosome					0				COAD - Colon adenocarcinoma(228;0.157)		GGTGGGTGGCGAATTTGGCAC	0.498													38	92					0	0	1	0	0		A	6531586	A	A	6531586	3	1	89	1	0	0	0	0	1	0	0	0	8207	1059	37	1	2402	1	KIAA0753	17	6531586	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	144048	6531586	74663624	5605	59436											
XAF1	54739	broad.mit.edu	37	chr17	6661423	6661423	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtagtaaaagacatgtagtCtctgccaacttcaccctcca	12	11	6	12	0	2	1	1	0	1	1	4	1	3	1	3	0	2	3	3	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:6661423C>T	uc002gdn.2	+	2	290	c.48C>T	c.(46-48)GTC>GTT	p.V16V	XAF1_uc010clr.1_Silent_p.V16V|XAF1_uc002gdm.1_5'UTR|XAF1_uc002gdo.2_Silent_p.V16V|XAF1_uc002gdp.2_5'UTR|XAF1_uc002gdq.2_5'UTR|XAF1_uc002gdr.2_5'UTR	NM_017523	NP_059993	Q6GPH4	XAF1_HUMAN	XIAP associated factor 1 isoform 1	16					apoptosis|type I interferon-mediated signaling pathway	mitochondrion|nucleus	zinc ion binding				0						GACATGTAGTCTCTGCCAACT	0.478													59	124					0	0	1	0	0		T	6661423	T	T	6661423	2	4	89	1	0	0	0	0	0	0	0	1	17445	900	32	4		4	XAF1	17	6661423	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	129837	6661423	74533787	5606	59437											
POLR2A	5430	broad.mit.edu	37	chr17	7414556	7414556	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaggtggtggacaagaTggatgatgatgtcttcctgc	10	10	16	5	0	1	4	0	2	1	2	2	7	2	7	1	5	1	0	1	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:7414556T>C	uc002ghf.3	+	23	4070	c.3836T>C	c.(3835-3837)ATG>ACG	p.M1279T		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1279					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				GTGGACAAGATGGATGATGAT	0.557													11	52					0	0	1	0	0		C	7414556	C	C	7414556	3	2	89	1	0	0	0	0	1	0	0	0	12233	1464	51	3	3926	3	POLR2A	17	7414556	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	753133	7414556	73780654	5607	59438											
POLR2A	5430	broad.mit.edu	37	chr17	7415517	7415517	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgcacacggtgagagtgAccccatgaagggggtctctg	9	6	15	11	2	1	3	0	3	1	1	2	4	1	3	3	3	1	1	3	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:7415517A>G	uc002ghf.3	+	26	4580	c.4346A>G	c.(4345-4347)GAC>GGC	p.D1449G		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1449				D -> Y (in Ref. 2; CAA52862).	mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				GGTGAGAGTGACCCCATGAAG	0.592													13	35					0	0	1	0	0		G	7415517	G	G	7415517	3	3	89	1	0	0	0	0	1	0	0	0	12233	275	10	3	4448	3	POLR2A	17	7415517	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	961	7415517	73779693	5608	59439											
EIF4A1	1973	broad.mit.edu	37	chr17	7480012	7480012	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaaccggagatacctgtgTgagtaattcggttctccaat	10	13	9	9	2	1	2	0	1	1	1	3	3	1	2	3	2	2	2	3	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:7480012T>C	uc002gho.1	+	13	1839	c.514_splice	c.e13+2	p.S172_splice	EIF4A1_uc002ghr.1_Splice_Site_p.S172_splice|EIF4A1_uc002ghq.1_Splice_Site_p.S172_splice|EIF4A1_uc002ghp.1_Splice_Site_p.S172_splice|SNORD10_uc002ght.2_5'Flank|SNORA67_uc010cml.1_5'Flank|CD68_uc002ghv.2_5'Flank|CD68_uc002ghu.2_5'Flank	NM_001416	NP_001407	P60842	IF4A1_HUMAN	eukaryotic translation initiation factor 4A						nuclear-transcribed mRNA poly(A) tail shortening	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA cap binding|translation initiation factor activity			ovary(1)	1						GATACCTGTGTGAGTAATTCG	0.522													38	66					0	0	1	0	0		C	7480012	C	C	7480012	5	2	89	1	0	0	0	0	0	0	1	0	5032	1710	59	3	534	3	EIF4A1	17	7480012	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	64495	7480012	73715198	5609	59440											
ATP1B2	482	broad.mit.edu	37	chr17	7557412	7557412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaagaatgatgtctgccGccctggacgctattacgaac	12	8	9	12	3	1	2	0	1	1	1	1	4	1	3	3	1	3	1	3	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:7557412G>A	uc002gif.1	+	4	972	c.389G>A	c.(388-390)CGC>CAC	p.R130H		NM_001678	NP_001669	P14415	AT1B2_HUMAN	Na+/K+ -ATPase beta 2 subunit	130	Extracellular (Potential).				ATP biosynthetic process|blood coagulation|leukocyte migration	integral to membrane|plasma membrane	protein binding|sodium:potassium-exchanging ATPase activity	p.0?(2)|p.?(1)		central_nervous_system(1)|pancreas(1)	2		all_cancers(10;0.000178)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;2.55e-06)|READ - Rectum adenocarcinoma(115;0.168)		GATGTCTGCCGCCCTGGACGC	0.547													89	184					0	0	1	0	0		A	7557412	A	A	7557412	3	1	89	1	0	0	0	0	1	0	0	0	1134	1087	38	1	403	1	ATP1B2	17	7557412	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	77400	7557412	73637798	5610	59441											
WRAP53	55135	broad.mit.edu	37	chr17	7604072	7604072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtataggtccctgtccttcGaatggtggaaggtgatacca	9	12	12	8	1	0	1	0	1	0	0	3	3	2	2	3	4	1	1	3	4	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:7604072G>A	uc010vuh.1	+	5	811	c.656G>A	c.(655-657)CGA>CAA	p.R219Q	WRAP53_uc010vui.1_Missense_Mutation_p.R219Q|WRAP53_uc002gip.2_Missense_Mutation_p.R219Q|WRAP53_uc002gir.2_Missense_Mutation_p.R219Q|WRAP53_uc002giq.2_RNA|WRAP53_uc010cnl.2_Missense_Mutation_p.R186Q|WRAP53_uc010vuj.1_5'UTR	NM_001143990	NP_001137462	Q9BUR4	WAP53_HUMAN	WD repeat domain 79 isoform 2	219					positive regulation of telomerase activity|telomere formation via telomerase	Cajal body|cytoplasm|telomerase holoenzyme complex	protein binding|RNA binding				0						CCTGTCCTTCGAATGGTGGAA	0.537													56	129					0	0	1	0	0		A	7604072	A	A	7604072	3	1	89	1	0	0	0	0	1	0	0	0	17426	1058	37	1	670	1	WRAP53	17	7604072	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	46660	7604072	73591138	5611	59442											
DNAH2	146754	broad.mit.edu	37	chr17	7660464	7660464	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagcggctgctgtttgagAcgccccattacgtggtgaac	7	9	15	10	3	0	2	0	2	0	1	0	4	0	3	2	3	4	3	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:7660464A>G	uc002giu.1	+	12	1974	c.1960A>G	c.(1960-1962)ACG>GCG	p.T654A		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	654	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GCTGTTTGAGACGCCCCATTA	0.552													92	213					0	0	1	0	0		G	7660464	G	G	7660464	3	3	89	1	0	0	0	0	1	0	0	0	4608	275	10	3	2006	3	DNAH2	17	7660464	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	56392	7660464	73534746	5612	59443											
DNAH2	146754	broad.mit.edu	37	chr17	7662770	7662770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtggatgctgtacatgattCggctggaccgcatgatggag	9	10	15	7	2	0	2	0	2	0	0	1	5	0	5	1	4	2	4	1	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:7662770C>T	uc002giu.1	+	15	2493	c.2479C>T	c.(2479-2481)CGG>TGG	p.R827W		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	827	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GTACATGATTCGGCTGGACCG	0.522													30	54					0	0	1	0	0		T	7662770	T	T	7662770	3	4	89	1	0	0	0	0	1	0	0	0	4608	875	31	1	2537	1	DNAH2	17	7662770	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2306	7662770	73532440	5613	59444											
CHD3	1107	broad.mit.edu	37	chr17	7809005	7809005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgcctccactgctggcccGagtcgggggcaacattgagg	7	7	14	13	2	0	1	0	1	0	0	2	2	1	1	3	4	3	2	3	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:7809005G>A	uc002gje.2	+	27	4355	c.4205G>A	c.(4204-4206)CGA>CAA	p.R1402Q	CHD3_uc002gjd.2_Missense_Mutation_p.R1461Q|CHD3_uc002gjf.2_Missense_Mutation_p.R1402Q|CHD3_uc002gjh.2_5'UTR|SCARNA21_uc002gji.1_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1402					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				CTGCTGGCCCGAGTCGGGGGC	0.577													14	34					0	0	1	0	0		A	7809005	A	A	7809005	3	1	89	1	0	0	0	0	1	0	0	0	3329	1058	37	1	4592	1	CHD3	17	7809005	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	146235	7809005	73386205	5614	59445											
ALOX15B	247	broad.mit.edu	37	chr17	7950271	7950271	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgagttgatacagaggaAcatgaagcagctgaactatt	14	10	10	7	0	1	5	0	4	1	1	1	6	1	6	0	1	5	3	0	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:7950271A>G	uc002gju.2	+	10	1450	c.1334A>G	c.(1333-1335)AAC>AGC	p.N445S	ALOX15B_uc002gjv.2_Missense_Mutation_p.N416S|ALOX15B_uc002gjw.2_Missense_Mutation_p.N416S|ALOX15B_uc010vun.1_Missense_Mutation_p.N445S|ALOX15B_uc010cnp.2_Missense_Mutation_p.N251S	NM_001141	NP_001132	O15296	LX15B_HUMAN	arachidonate 15-lipoxygenase, second type	445	Lipoxygenase.				induction of apoptosis|leukotriene biosynthetic process|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of growth|prostate gland development|regulation of epithelial cell differentiation	cytoplasm	arachidonate 15-lipoxygenase activity|iron ion binding|lipoxygenase activity			ovary(1)	1						ATACAGAGGAACATGAAGCAG	0.522													30	56					0	0	1	0	0		G	7950271	G	G	7950271	3	3	89	1	0	0	0	0	1	0	0	0	539	43	2	3	1372	3	ALOX15B	17	7950271	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	141266	7950271	73244939	5615	59446											
ALOX12B	242	broad.mit.edu	37	chr17	7980465	7980465	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccagtcccactcagaaTcactgggcaggaagatgggg	11	5	14	11	0	2	2	2	0	0	2	3	3	3	3	2	4	1	2	2	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:7980465T>C	uc002gjy.1	-	9	1379	c.1118A>G	c.(1117-1119)GAT>GGT	p.D373G	uc010cnq.1_5'Flank	NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	373	Lipoxygenase.				epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						CCACTCAGAATCACTGGGCAG	0.582										Multiple Myeloma(8;0.094)			10	16					0	0	1	0	0		C	7980465	C	C	7980465	3	2	89	1	0	0	0	0	1	0	0	0	537	1435	50	3	1015	3	ALOX12B	17	7980465	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	30194	7980465	73214745	5616	59447											
ALOXE3	59344	broad.mit.edu	37	chr17	8021304	8021304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacacacaggcggtacactGccatgatgggaaggaggaag	13	5	14	9	1	1	1	1	1	0	0	1	4	1	4	1	5	2	1	1	5	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:8021304G>A	uc010cnr.2	-	2	375	c.5C>T	c.(4-6)GCA>GTA	p.A2V	ALOXE3_uc002gka.2_Missense_Mutation_p.A158V|ALOXE3_uc010vuo.1_Missense_Mutation_p.A134V|ALOXE3_uc010vup.1_RNA	NM_021628	NP_067641	Q9BYJ1	LOXE3_HUMAN	arachidonate lipoxygenase 3 isoform 2	2	PLAT.				leukotriene biosynthetic process		iron ion binding|lipoxygenase activity			skin(3)|lung(1)|central_nervous_system(1)	5						GCGGTACACTGCCATGATGGG	0.647													5	13					0	0	1	0	0		A	8021304	A	A	8021304	3	1	89	1	0	0	0	0	1	0	0	0	542	1319	46	2	2190	2	ALOXE3	17	8021304	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	40839	8021304	73173906	5617	59448											
HES7	84667	broad.mit.edu	37	chr17	8026394	8026394	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcagcctcagctcttccagGctgcggttgatgcggtcccg	5	9	13	14	3	2	1	1	1	1	0	4	1	4	1	3	3	5	4	3	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:8026394G>C	uc002gkc.2	-	2	93	c.93C>G	c.(91-93)AGC>AGG	p.S31R	HES7_uc002gkb.1_Missense_Mutation_p.S31R	NM_032580	NP_115969	Q9BYE0	HES7_HUMAN	hairy and enhancer of split 7 isoform 2	31	Helix-loop-helix motif.				mesoderm development|transcription, DNA-dependent	nucleus	DNA binding				0						GCTCTTCCAGGCTGCGGTTGA	0.667													5	12					0	0	1	0	0		C	8026394	C	C	8026394	3	2	89	1	0	0	0	0	1	0	0	0	7087	1194	42	5	611	5	HES7	17	8026394	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5090	8026394	73168816	5618	59449											
PER1	5187	broad.mit.edu	37	chr17	8053326	8053326	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggccagtgcgtactgcagCgtggccagggtcccagagcg	7	5	16	13	3	0	1	0	0	0	1	1	1	1	1	3	3	5	2	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:8053326C>T	uc002gkd.2	-	4	730	c.492G>A	c.(490-492)ACG>ACA	p.T164T	PER1_uc010vuq.1_RNA|PER1_uc010vur.1_Silent_p.T148T|PER1_uc010vus.1_Silent_p.T164T	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	164					circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						CGTACTGCAGCGTGGCCAGGG	0.642			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					24	224					0	0	1	0	0		T	8053326	T	T	8053326	2	4	89	1	0	0	0	0	0	0	0	1	11748	755	27	1		1	PER1	17	8053326	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	26932	8053326	73141884	5619	59450											
C17orf68	80169	broad.mit.edu	37	chr17	8139580	8139580	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acatgctggcgctgaccacgGatcttggacactcgcagttc	8	9	11	13	3	1	1	0	1	1	0	3	3	1	3	1	3	1	4	1	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:8139580G>A	uc002gkq.3	-	6	932	c.873C>T	c.(871-873)ATC>ATT	p.I291I	C17orf68_uc010cnv.2_RNA	NM_025099	NP_079375	Q2NKJ3	CTC1_HUMAN	alpha accessory factor 132	291					positive regulation of DNA replication|telomere maintenance	Stn1-Ten1 complex	protein binding|single-stranded DNA binding				0						GCTGACCACGGATCTTGGACA	0.587													15	50					0	0	1	0	0		A	8139580	A	A	8139580	2	1	89	1	0	0	0	0	0	0	0	1	1879	1164	41	4		4	C17orf68	17	8139580	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	86254	8139580	73055630	5620	59451											
MYH10	4628	broad.mit.edu	37	chr17	8409702	8409702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgagctcatcaatctgcGcctgcagctctgcgatctgg	6	11	11	13	2	5	1	2	1	3	0	5	2	5	1	1	1	5	4	1	1	1	1	rs150206681	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:8409702G>A	uc002gll.2	-	25	3323	c.3227C>T	c.(3226-3228)GCG>GTG	p.A1076V	MYH10_uc002glm.2_Missense_Mutation_p.A1107V|MYH10_uc010cnx.2_Missense_Mutation_p.A1085V	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1076	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						ATCAATCTGCGCCTGCAGCTC	0.592													28	57					0	0	1	0	0		A	8409702	A	A	8409702	3	1	89	1	0	0	0	0	1	0	0	0	10048	1087	38	1	2771	1	MYH10	17	8409702	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	270122	8409702	72785508	5621	59452											
CCDC42	146849	broad.mit.edu	37	chr17	8644901	8644901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgccaccatctcctgcttgCgcttggtcagctcctgcatg	4	11	10	16	2	2	0	1	0	1	0	4	0	3	0	4	1	4	4	4	1	0	2	rs142451736		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:8644901C>T	uc002gln.2	-	4	610	c.383G>A	c.(382-384)CGC>CAC	p.R128H	CCDC42_uc002glo.2_Missense_Mutation_p.R128H	NM_144681	NP_653282	Q96M95	CCD42_HUMAN	coiled-coil domain containing 42 isoform 1	128	Potential.									ovary(1)	1						CTCCTGCTTGCGCTTGGTCAG	0.592													44	65					0	0	1	0	0		T	8644901	T	T	8644901	3	4	89	1	0	0	0	0	1	0	0	0	2817	768	27	1	583	1	CCDC42	17	8644901	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	235199	8644901	72550309	5622	59453											
MFSD6L	162387	broad.mit.edu	37	chr17	8701241	8701241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgagaaacccatgaccagctCgccgctcccatggtccttca	9	7	8	17	3	1	2	1	1	0	1	4	3	3	2	5	1	2	2	5	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:8701241C>T	uc002glp.1	-	1	1346	c.1198G>A	c.(1198-1200)GAG>AAG	p.E400K		NM_152599	NP_689812	Q8IWD5	MFS6L_HUMAN	major facilitator superfamily domain containing	400	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						ATGACCAGCTCGCCGCTCCCA	0.547													50	66					0	0	1	0	0		T	8701241	T	T	8701241	3	4	89	1	0	0	0	0	1	0	0	0	9554	893	31	1	566	1	MFSD6L	17	8701241	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	56340	8701241	72493969	5623	59454											
NTN1	9423	broad.mit.edu	37	chr17	9066163	9066163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgcatgcccggcgctgccGcttcaacatggagctctaca	7	8	10	16	3	2	0	1	0	1	0	2	1	2	1	3	2	6	4	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:9066163G>A	uc002glw.3	+	3	1159	c.1052G>A	c.(1051-1053)CGC>CAC	p.R351H		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	351	Laminin EGF-like 2.		R -> H (in a neuroblastoma sample).		apoptosis|axon guidance		protein binding				0						CGGCGCTGCCGCTTCAACATG	0.647													41	88					0	0	1	0	0		A	9066163	A	A	9066163	3	1	89	1	0	0	0	0	1	0	0	0	10719	1087	38	1	1058	1	NTN1	17	9066163	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	364922	9066163	72129047	5624	59455											
STX8	9482	broad.mit.edu	37	chr17	9471774	9471774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcaatttgacaagtagaatCgtatgtggagaacctgcacc	13	9	11	8	1	0	3	0	1	0	2	1	4	0	3	2	2	2	4	2	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:9471774C>T	uc002glx.2	-	2	181	c.31G>A	c.(31-33)GAT>AAT	p.D11N		NM_004853	NP_004844	Q9UNK0	STX8_HUMAN	syntaxin 8	11	Cytoplasmic (Potential).				transport	endoplasmic reticulum|integral to plasma membrane				central_nervous_system(1)	1						CAAGTAGAATCGTATGTGGAG	0.269													15	21					0	0	1	0	0		T	9471774	T	T	9471774	3	4	89	1	0	0	0	0	1	0	0	0	15376	884	31	1	707	1	STX8	17	9471774	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	405611	9471774	71723436	5625	59456											
WDR16	146845	broad.mit.edu	37	chr17	9536289	9536289	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgctcacaggatcggcgTcaccgccatcgccaccacca	10	5	8	18	4	2	0	2	0	0	0	4	1	2	1	5	2	1	1	5	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:9536289T>C	uc002gly.2	+	10	1328	c.1259T>C	c.(1258-1260)GTC>GCC	p.V420A	WDR16_uc002glz.2_Missense_Mutation_p.V352A|WDR16_uc010coc.2_Missense_Mutation_p.V430A	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	420	WD 7.					cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						AGGATCGGCGTCACCGCCATC	0.507													27	81					0	0	1	0	0		C	9536289	C	C	9536289	3	2	89	1	0	0	0	0	1	0	0	0	17302	1667	58	3	1297	3	WDR16	17	9536289	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	64515	9536289	71658921	5626	59457											
GAS7	8522	broad.mit.edu	37	chr17	9830036	9830036	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcacttcttcatgtctttCttgaagttctcacggaagtt	7	17	7	10	2	5	1	2	1	4	0	7	2	5	2	0	1	0	3	0	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:9830036C>A	uc002gmg.1	-	10	1097	c.936G>T	c.(934-936)AAG>AAT	p.K312N	GAS7_uc010vvc.1_Missense_Mutation_p.K126N|GAS7_uc002gmh.1_Missense_Mutation_p.K172N|GAS7_uc010vvd.1_Missense_Mutation_p.K264N|GAS7_uc002gmi.2_Missense_Mutation_p.K248N|GAS7_uc002gmj.1_Missense_Mutation_p.K252N|GAS7_uc010coh.1_Missense_Mutation_p.K252N	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	312	Potential.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						TCATGTCTTTCTTGAAGTTCT	0.577			T	MLL	AML*								24	71					1.5548e-18	1.818e-18	1	1	0		A	9830036	A	A	9830036	3	1	89	1	0	0	0	0	1	0	0	0	6265	912	32	5	514	5	GAS7	17	9830036	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	293747	9830036	71365174	5627	59458											
MYH13	8735	broad.mit.edu	37	chr17	10210275	10210275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catccgtgatggccttcttgGccttctcctctgcgttcctg	2	15	9	15	2	3	1	0	1	3	0	6	1	5	1	5	2	1	1	5	2	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10210275G>A	uc002gmk.1	-	36	5366	c.5276C>T	c.(5275-5277)GCC>GTC	p.A1759V		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1759	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GGCCTTCTTGGCCTTCTCCTC	0.473													27	54					0	0	1	0	0		A	10210275	A	A	10210275	3	1	89	1	0	0	0	0	1	0	0	0	10050	1203	42	2	564	2	MYH13	17	10210275	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	380239	10210275	70984935	5628	59459											
MYH13	8735	broad.mit.edu	37	chr17	10227375	10227375	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcttctccttttcaactttCgtcaaggtcagctccaggtc	6	15	7	13	1	4	0	3	0	1	0	8	0	5	0	2	2	3	2	2	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10227375C>T	uc002gmk.1	-	23	2988	c.2898G>A	c.(2896-2898)ACG>ACA	p.T966T	MYH13_uc010vve.1_Silent_p.T64T	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	966	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TTTCAACTTTCGTCAAGGTCA	0.463													19	34					0	0	1	0	0		T	10227375	T	T	10227375	2	4	89	1	0	0	0	0	0	0	0	1	10050	871	31	1		1	MYH13	17	10227375	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	17100	10227375	70967835	5629	59460											
MYH8	4626	broad.mit.edu	37	chr17	10297697	10297697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagcaggttggctctgcGctccacaattgccagctgtt	6	11	11	13	1	1	0	0	0	1	0	2	0	2	0	2	2	5	7	2	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10297697G>A	uc002gmm.2	-	35	5130	c.5035C>T	c.(5035-5037)CGC>TGC	p.R1679C	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1679	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TTGGCTCTGCGCTCCACAATT	0.557									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				25	66					0	0	1	0	0		A	10297697	A	A	10297697	3	1	89	1	0	0	0	0	1	0	0	0	10059	1087	38	1	802	1	MYH8	17	10297697	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	70322	10297697	70897513	5630	59461											
MYH8	4626	broad.mit.edu	37	chr17	10312471	10312471	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttcttagcacctttcttCgcgctgctatctgaggtaaa	7	17	7	10	2	3	1	0	1	3	0	4	1	3	1	1	1	2	4	1	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10312471C>T	uc002gmm.2	-	17	2003	c.1908G>A	c.(1906-1908)GCG>GCA	p.A636A	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	636	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						CACCTTTCTTCGCGCTGCTAT	0.348									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				15	51					0	0	1	0	0		T	10312471	T	T	10312471	2	4	89	1	0	0	0	0	0	0	0	1	10059	871	31	1		1	MYH8	17	10312471	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14774	10312471	70882739	5631	59462											
MYH4	4622	broad.mit.edu	37	chr17	10357945	10357945	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttctagttctttccttTttgcctctgtcttagccagc	3	21	5	12	0	5	0	0	0	5	0	6	0	6	0	3	0	3	1	3	0	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10357945T>G	uc002gmn.2	-	22	2729	c.2618A>C	c.(2617-2619)AAA>ACA	p.K873T	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	873	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TTCTTTCCTTTTTGCCTCTGT	0.418													46	98					0	0	1	0	0		G	10357945	G	G	10357945	3	3	89	1	0	0	0	0	1	0	0	0	10055	1841	64	5	3277	5	MYH4	17	10357945	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	45474	10357945	70837265	5632	59463											
MYH1	4619	broad.mit.edu	37	chr17	10402034	10402034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgttggccttggacattgCtctctgtagctcggccttgg	4	14	12	11	1	1	0	0	0	1	0	3	1	1	1	2	4	2	4	2	4	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10402034C>T	uc002gmo.2	-	30	4184	c.4090G>A	c.(4090-4092)GCA>ACA	p.A1364T	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1364	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TTGGACATTGCTCTCTGTAGC	0.587													68	95					0	0	1	0	0		T	10402034	T	T	10402034	3	4	89	1	0	0	0	0	1	0	0	0	10047	797	28	2	1773	2	MYH1	17	10402034	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44089	10402034	70793176	5633	59464											
MYH1	4619	broad.mit.edu	37	chr17	10405120	10405120	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttgttgtttgtcattttCtatatccattgtggattctt	7	22	7	5	0	3	0	1	0	2	0	4	1	4	1	1	1	0	3	1	1	3	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10405120C>A	uc002gmo.2	-	25	3314	c.3220G>T	c.(3220-3222)GAA>TAA	p.E1074*	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1074	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TTGTCATTTTCTATATCCATT	0.343													14	26					3.27435e-08	3.46512e-08	1	1	0		A	10405120	A	A	10405120	4	1	89	1	0	0	0	0	0	1	0	0	10047	922	32	5	2663	5	MYH1	17	10405120	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3086	10405120	70790090	5634	59465											
MYH2	4620	broad.mit.edu	37	chr17	10428901	10428901	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctcaagctcagcatgcgtTtcctcacatttctgtttcca	7	14	6	14	1	4	0	3	0	1	0	6	0	6	0	3	0	3	4	3	0	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10428901T>G	uc010coi.2	-	32	4532	c.4404A>C	c.(4402-4404)GAA>GAC	p.E1468D	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.E1468D|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1468	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CAGCATGCGTTTCCTCACATT	0.473													33	56					0	0	1	0	0		G	10428901	G	G	10428901	3	3	89	1	0	0	0	0	1	0	0	0	10053	1838	64	5	1457	5	MYH2	17	10428901	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	23781	10428901	70766309	5635	59466											
MYH2	4620	broad.mit.edu	37	chr17	10429120	10429120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagccgctgcttcgtcttttCgagggaagcacatttggcgt	6	12	12	11	4	1	0	0	0	1	0	3	2	1	1	1	2	3	3	1	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10429120C>T	uc010coi.2	-	31	4389	c.4261G>A	c.(4261-4263)GAA>AAA	p.E1421K	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.E1421K|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1421	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TTCGTCTTTTCGAGGGAAGCA	0.512													36	73					0	0	1	0	0		T	10429120	T	T	10429120	3	4	89	1	0	0	0	0	1	0	0	0	10053	893	31	1	1604	1	MYH2	17	10429120	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	219	10429120	70766090	5636	59467											
MYH2	4620	broad.mit.edu	37	chr17	10447032	10447032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtccaagagacttacaaagCgagaggagttgtcattcctc	12	10	10	9	1	1	2	1	0	0	2	4	5	3	3	2	1	2	1	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10447032C>T	uc010coi.2	-	8	865	c.737G>A	c.(736-738)CGC>CAC	p.R246H	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.R246H|MYH2_uc010coj.2_Missense_Mutation_p.R246H	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	246	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						ACTTACAAAGCGAGAGGAGTT	0.443													27	62					0	0	1	0	0		T	10447032	T	T	10447032	3	4	89	1	0	0	0	0	1	0	0	0	10053	768	27	1	5220	1	MYH2	17	10447032	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	17912	10447032	70748178	5637	59468											
MYH2	4620	broad.mit.edu	37	chr17	10447416	10447416	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaagcataaaatctacttaCgtgatcaggattgactgatt	15	12	8	6	1	2	3	1	3	1	0	2	5	2	4	0	1	3	1	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10447416C>T	uc010coi.2	-	6	661	c.533_splice	c.e6+1	p.T178_splice	uc002gml.1_Intron|MYH2_uc002gmp.3_Splice_Site_p.T178_splice|MYH2_uc010coj.2_Splice_Site_p.T178_splice	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa						muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						AATCTACTTACGTGATCAGGA	0.343													19	46					0	0	1	0	0		T	10447416	T	T	10447416	5	4	89	1	0	0	0	0	0	0	1	0	10053	550	19	1	5431	1	MYH2	17	10447416	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	384	10447416	70747794	5638	59469											
MYH3	4621	broad.mit.edu	37	chr17	10541674	10541674	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccagctcccgggcatagtCgctgcgctgtttctctgtct	3	13	10	15	3	2	0	0	0	2	0	6	0	4	0	2	1	2	5	2	1	1	2	rs138631084		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10541674C>T	uc002gmq.1	-	26	3492	c.3415G>A	c.(3415-3417)GAC>AAC	p.D1139N		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1139	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CGGGCATAGTCGCTGCGCTGT	0.647													16	41					0	0	1	0	0		T	10541674	T	T	10541674	3	4	89	1	0	0	0	0	1	0	0	0	10054	884	31	1	2467	1	MYH3	17	10541674	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	94258	10541674	70653536	5639	59470											
MYH3	4621	broad.mit.edu	37	chr17	10549159	10549159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcccaggatgtcaatggCgctctggcatggaaagggca	11	6	15	9	1	2	0	1	0	1	0	2	3	2	2	1	5	1	3	1	5	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10549159C>T	uc002gmq.1	-	11	1083	c.1006G>A	c.(1006-1008)GCC>ACC	p.A336T		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	336	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						ATGTCAATGGCGCTCTGGCAT	0.557											OREG0024181	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	71					0	0	1	0	0		T	10549159	T	T	10549159	3	4	89	1	0	0	0	0	1	0	0	0	10054	768	27	1	4936	1	MYH3	17	10549159	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7485	10549159	70646051	5640	59471											
MYH3	4621	broad.mit.edu	37	chr17	10550506	10550506	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgacttcctcacctatgagCtcaggcttcttgttagaaag	9	13	9	10	0	3	3	2	2	1	1	4	3	4	3	2	1	1	3	2	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:10550506C>T	uc002gmq.1	-	9	968	c.891G>A	c.(889-891)GAG>GAA	p.E297E		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	297	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CACCTATGAGCTCAGGCTTCT	0.448													36	75					0	0	1	0	0		T	10550506	T	T	10550506	2	4	89	1	0	0	0	0	0	0	0	1	10054	796	28	2		2	MYH3	17	10550506	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1347	10550506	70644704	5641	59472											
DNAH9	1770	broad.mit.edu	37	chr17	11622691	11622691	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccctgcacctgaccatgAgtggggctcccgcaggacct	7	7	12	15	1	0	2	0	2	0	0	2	3	2	3	5	3	1	3	5	3	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:11622691A>G	uc002gne.2	+	27	5661	c.5593A>G	c.(5593-5595)AGT>GGT	p.S1865G	DNAH9_uc010coo.2_Missense_Mutation_p.S1159G	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1865	AAA 1 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CCTGACCATGAGTGGGGCTCC	0.607													28	45					0	0	1	0	0		G	11622691	G	G	11622691	3	3	89	1	0	0	0	0	1	0	0	0	4614	304	11	3	5699	3	DNAH9	17	11622691	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1072185	11622691	69572519	5642	59473											
DNAH9	1770	broad.mit.edu	37	chr17	11660968	11660968	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccaacttaaccattttgttCgacaagtatcttccaacctg	11	13	5	12	1	1	0	0	0	1	0	3	1	2	0	4	0	3	2	4	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:11660968C>T	uc002gne.2	+	35	7022	c.6954C>T	c.(6952-6954)TTC>TTT	p.F2318F	DNAH9_uc010coo.2_Silent_p.F1612F	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2318	AAA 2 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CCATTTTGTTCGACAAGTATC	0.473													16	59					0	0	1	0	0		T	11660968	T	T	11660968	2	4	89	1	0	0	0	0	0	0	0	1	4614	883	31	1		1	DNAH9	17	11660968	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	38277	11660968	69534242	5643	59474											
DNAH9	1770	broad.mit.edu	37	chr17	11806042	11806042	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaatttcccaggtacttTcatcaatggaagaattctct	12	14	6	9	0	3	2	2	1	1	1	5	3	4	3	1	2	1	1	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:11806042T>G	uc002gne.2	+	60	11481	c.11413T>G	c.(11413-11415)TCA>GCA	p.S3805A	DNAH9_uc010coo.2_Missense_Mutation_p.S3099A|DNAH9_uc002gnf.2_Missense_Mutation_p.S117A|DNAH9_uc010vvh.1_Missense_Mutation_p.S158A	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3805					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CCAGGTACTTTCATCAATGGA	0.438													46	67					0	0	1	0	0		G	11806042	G	G	11806042	3	3	89	1	0	0	0	0	1	0	0	0	4614	1783	62	5	11651	5	DNAH9	17	11806042	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	145074	11806042	69389168	5644	59475											
DNAH9	1770	broad.mit.edu	37	chr17	11837235	11837235	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgctacctgtttggagagatCatgtatggaggccatatcac	10	11	11	9	1	2	1	2	0	0	1	2	4	2	3	2	3	1	3	2	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:11837235C>T	uc002gne.2	+	65	12404	c.12336C>T	c.(12334-12336)ATC>ATT	p.I4112I	DNAH9_uc010coo.2_Silent_p.I3330I|DNAH9_uc002gnf.2_Silent_p.I424I	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	4112					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TTGGAGAGATCATGTATGGAG	0.498													29	59					0	0	1	0	0		T	11837235	T	T	11837235	2	4	89	1	0	0	0	0	0	0	0	1	4614	816	29	4		4	DNAH9	17	11837235	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	31193	11837235	69357975	5645	59476											
DNAH9	1770	broad.mit.edu	37	chr17	11840674	11840674	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccttgattttcagtacatCgatgctgagctgcccccaga	8	11	9	13	1	1	3	1	2	0	1	2	4	1	3	3	0	4	3	3	0	1	4	rs143953217	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:11840674C>T	uc002gne.2	+	66	12563	c.12495C>T	c.(12493-12495)ATC>ATT	p.I4165I	DNAH9_uc010coo.2_Silent_p.I3383I|DNAH9_uc002gnf.2_Silent_p.I477I	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	4165					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TTCAGTACATCGATGCTGAGC	0.547													47	90					0	0	1	0	0		T	11840674	T	T	11840674	2	4	89	1	0	0	0	0	0	0	0	1	4614	874	31	1		1	DNAH9	17	11840674	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3439	11840674	69354536	5646	59477											
ZNF18	7566	broad.mit.edu	37	chr17	11881837	11881837	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttctcagaaatcctttCttgaggagacagctgttccc	8	15	8	10	0	2	3	1	1	2	2	5	4	4	3	2	1	1	3	2	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:11881837C>A	uc002gng.1	-	9	1692	c.1087G>T	c.(1087-1089)GAA>TAA	p.E363*	ZNF18_uc002gnh.1_Nonsense_Mutation_p.E363*|ZNF18_uc002gni.1_Nonsense_Mutation_p.E362*	NM_144680	NP_653281	P17022	ZNF18_HUMAN	zinc finger protein 18	363					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)	1				Colorectal(4;3.33e-05)|COAD - Colon adenocarcinoma(4;0.000494)|READ - Rectum adenocarcinoma(10;0.233)		GAAATCCTTTCTTGAGGAGAC	0.488													79	140					6.86016e-32	8.41042e-32	1	1	0		A	11881837	A	A	11881837	4	1	89	1	0	0	0	0	0	1	0	0	17772	922	32	5	566	5	ZNF18	17	11881837	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	41163	11881837	69313373	5647	59478											
CDRT1	374286	broad.mit.edu	37	chr17	15522795	15522795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcacaacgaaaataggggGcattcttgagccttgattcc	11	11	9	10	1	2	2	1	2	2	0	4	3	3	2	2	2	2	1	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:15522795G>A	uc002gov.3	-	1	224	c.32C>T	c.(31-33)GCC>GTC	p.A11V	TRIM16_uc002gor.1_Intron	NM_006382	NP_006373	O95170	CDRT1_HUMAN	CMT1A duplicated region transcript 1	11											0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(2;1.36e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0541)		AAAATAGGGGGCATTCTTGAG	0.493													97	341					0	0	1	0	0		A	15522795	A	A	15522795	3	1	89	1	0	0	0	0	1	0	0	0	3177	1203	42	2	2274	2	CDRT1	17	15522795	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3640958	15522795	65672415	5648	59479											
ZNF286A	57335	broad.mit.edu	37	chr17	15620583	15620583	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcagacatcaaagagtTcacactgaagagcaaccctg	15	7	7	12	0	4	4	4	1	0	3	4	4	4	4	1	0	2	2	1	0	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:15620583T>G	uc010cot.2	+	6	1941	c.1545T>G	c.(1543-1545)GTT>GTG	p.V515V	ZNF286A_uc002goz.3_Silent_p.V403V|ZNF286A_uc010vwa.1_Silent_p.V515V|ZNF286A_uc002gpa.2_Silent_p.V515V	NM_001130842	NP_001124314	Q9HBT8	Z286A_HUMAN	zinc finger protein 286	515	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(1115;0.0222)|BRCA - Breast invasive adenocarcinoma(8;0.0781)		ATCAAAGAGTTCACACTGAAG	0.383													17	19					0	0	1	0	0		G	15620583	G	G	15620583	2	3	89	1	0	0	0	0	0	0	0	1	17848	1770	62	5		5	ZNF286A	17	15620583	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	97788	15620583	65574627	5649	59480											
TTC19	54902	broad.mit.edu	37	chr17	15928385	15928385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgtgcttagacgcctgtgCtcgctaccttctgttctcca	5	14	8	14	2	2	1	0	0	2	1	4	1	2	1	3	0	3	4	3	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:15928385C>T	uc002gph.1	+	8	1112	c.1094C>T	c.(1093-1095)GCT>GTT	p.A365V	TTC19_uc010cox.1_RNA|TTC19_uc002gpk.3_Missense_Mutation_p.A7V|TTC19_uc002gpj.2_Missense_Mutation_p.A7V	NM_017775	NP_060245	Q6DKK2	TTC19_HUMAN	tetratricopeptide repeat domain 19	244	TPR 3.				cell cycle|cytokinesis|mitochondrial respiratory chain complex III assembly	centrosome|midbody|mitochondrial inner membrane	protein binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		GACGCCTGTGCTCGCTACCTT	0.468													32	56					0	0	1	0	0		T	15928385	T	T	15928385	3	4	89	1	0	0	0	0	1	0	0	0	16712	797	28	2	1124	2	TTC19	17	15928385	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	307802	15928385	65266825	5650	59481											
NCOR1	9611	broad.mit.edu	37	chr17	15971356	15971356	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accccaggcactggagacttCgctgggatactttccctctg	7	10	10	14	1	1	1	0	0	1	1	3	3	2	2	3	3	1	2	3	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:15971356C>T	uc002gpo.2	-	32	4833	c.4593G>A	c.(4591-4593)GCG>GCA	p.A1531A	NCOR1_uc002gpn.2_Silent_p.A1547A|NCOR1_uc002gpm.2_Silent_p.A52A|NCOR1_uc010vwb.1_Silent_p.A115A|NCOR1_uc010coy.2_Silent_p.A439A|NCOR1_uc010vwc.1_Silent_p.A342A	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1531	Interaction with ETO.|Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CTGGAGACTTCGCTGGGATAC	0.522													25	35					0	0	1	0	0		T	15971356	T	T	15971356	2	4	89	1	0	0	0	0	0	0	0	1	10254	871	31	1		1	NCOR1	17	15971356	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	42971	15971356	65223854	5651	59482											
NCOR1	9611	broad.mit.edu	37	chr17	16041478	16041478	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaccatgtcttaccttcctCtccaagtatgatgcaattag	12	13	5	11	0	2	1	0	1	2	0	4	1	3	1	4	0	3	2	4	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:16041478C>T	uc002gpo.2	-	13	1641	c.1401G>A	c.(1399-1401)GAG>GAA	p.E467E	NCOR1_uc002gpn.2_Silent_p.E467E|NCOR1_uc002gpp.1_Silent_p.E358E|NCOR1_uc002gpr.2_Silent_p.E358E|NCOR1_uc002gps.1_Silent_p.E476E|NCOR1_uc010coz.1_Silent_p.E283E|NCOR1_uc010cpb.1_Silent_p.E476E|NCOR1_uc010cpa.1_Silent_p.E467E	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	467	SANT 1.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		TTACCTTCCTCTCCAAGTATG	0.358													11	38					0	0	1	0	0		T	16041478	T	T	16041478	2	4	89	1	0	0	0	0	0	0	0	1	10254	912	32	4		4	NCOR1	17	16041478	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	70122	16041478	65153732	5652	59483											
TRPV2	51393	broad.mit.edu	37	chr17	16327012	16327012	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcctctgccctaccgtgcaGcttgaggacatccgcaacct	7	8	9	17	3	1	1	0	1	1	0	2	2	2	2	5	1	5	3	5	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:16327012G>A	uc002gpy.2	+	5	1222	c.855G>A	c.(853-855)CAG>CAA	p.Q285Q	TRPV2_uc002gpz.2_Intron	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	285	Cytoplasmic (Potential).|Required for interaction with SLC50A1 (By similarity).|ANK 5.				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CTACCGTGCAGCTTGAGGACA	0.602													40	76					0	0	1	0	0		A	16327012	A	A	16327012	2	1	89	1	0	0	0	0	0	0	0	1	16622	962	34	2		2	TRPV2	17	16327012	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	285534	16327012	64868198	5653	59484											
ZNF287	57336	broad.mit.edu	37	chr17	16455532	16455532	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagggtttttctccattatGaatcctctgatgttgagtaa	11	16	8	6	0	2	3	0	3	2	0	4	3	3	3	2	1	0	3	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:16455532G>T	uc002gqi.2	-	6	2377	c.1924C>A	c.(1924-1926)CAT>AAT	p.H642N		NM_020653	NP_065704	Q9HBT7	ZN287_HUMAN	zinc finger protein 287	635	C2H2-type 10.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.083)		TCTCCATTATGAATCCTCTGA	0.393													26	52					9.86323e-18	1.14658e-17	1	1	0		T	16455532	T	T	16455532	3	4	89	1	0	0	0	0	1	0	0	0	17850	1290	45	5	365	5	ZNF287	17	16455532	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	128520	16455532	64739678	5654	59485											
ZNF287	57336	broad.mit.edu	37	chr17	16467135	16467135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacatctttgaatgtcatcGattcctaaaatatcaaatgt	14	14	4	9	1	3	1	2	1	1	0	5	2	4	1	2	0	0	0	2	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:16467135G>A	uc002gqi.2	-	4	959	c.506C>T	c.(505-507)TCG>TTG	p.S169L		NM_020653	NP_065704	Q9HBT7	ZN287_HUMAN	zinc finger protein 287	162					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.083)		GAATGTCATCGATTCCTAAAA	0.413													23	45					0	0	1	0	0		A	16467135	A	A	16467135	3	1	89	1	0	0	0	0	1	0	0	0	17850	1059	37	1	1791	1	ZNF287	17	16467135	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11603	16467135	64728075	5655	59486											
ZNF624	57547	broad.mit.edu	37	chr17	16525654	16525654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgatgtacagtaaggctcGaactactcctgaaggctttt	10	14	9	8	1	0	2	0	2	0	0	2	3	1	2	1	2	3	4	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:16525654G>A	uc010cpi.1	-	6	2629	c.2546C>T	c.(2545-2547)TCG>TTG	p.S849L		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	849	C2H2-type 21.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		AGTAAGGCTCGAACTACTCCT	0.363													52	102					0	0	1	0	0		A	16525654	A	A	16525654	3	1	89	1	0	0	0	0	1	0	0	0	18073	1059	37	1	55	1	ZNF624	17	16525654	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	58519	16525654	64669556	5656	59487											
CCDC144A	9720	broad.mit.edu	37	chr17	16638008	16638008	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctttcttacttagatttCtcataggcatcagaaagaaa	13	15	5	8	0	3	3	2	0	2	3	5	3	4	3	1	1	1	1	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:16638008C>A	uc002gqk.1	+	12	2499	c.2423C>A	c.(2422-2424)TCT>TAT	p.S808Y	CCDC144A_uc002gql.1_Missense_Mutation_p.S278Y|LOC162632_uc010cpj.1_RNA	NM_014695	NP_055510	A2RUR9	C144A_HUMAN	coiled-coil domain containing 144A	808	Potential.										0						ACTTAGATTTCTCATAGGCAT	0.313													3	5					0.115264	0.115603	1	1	0		A	16638008	A	A	16638008	3	1	89	1	0	0	0	0	1	0	0	0	2780	913	32	5	2469	5	CCDC144A	17	16638008	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	112354	16638008	64557202	5657	59488											
RASD1	51655	broad.mit.edu	37	chr17	17398896	17398896	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacgttctccttggttttgTtcttgaggcaagacttggtg	5	16	11	9	1	2	2	0	1	2	1	3	2	2	2	2	3	0	4	2	3	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:17398896T>C	uc002gri.2	-	2	601	c.389A>G	c.(388-390)AAC>AGC	p.N130S		NM_016084	NP_057168	Q9Y272	RASD1_HUMAN	RAS, dexamethasone-induced 1 precursor	130					G-protein coupled receptor protein signaling pathway|small GTPase mediated signal transduction	nucleus|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity				0						CTTGGTTTTGTTCTTGAGGCA	0.592													7	12					0	0	1	0	0		C	17398896	C	C	17398896	3	2	89	1	0	0	0	0	1	0	0	0	13091	1725	60	3	460	3	RASD1	17	17398896	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	760888	17398896	63796314	5658	59489											
DRG2	1819	broad.mit.edu	37	chr17	18003967	18003967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtgcagctcatcctgcacGaatacagtatccttccctga	9	11	8	13	1	1	1	1	1	0	0	4	2	4	1	3	1	4	4	3	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:18003967G>A	uc002gsh.1	+	7	680	c.625G>A	c.(625-627)GAA>AAA	p.E209K	DRG2_uc002gsi.1_RNA|DRG2_uc002gsj.1_Missense_Mutation_p.E209K	NM_001388	NP_001379	P55039	DRG2_HUMAN	developmentally regulated GTP binding protein 2	209					signal transduction		GTP binding			ovary(1)	1	all_neural(463;0.228)					CATCCTGCACGAATACAGTAT	0.567													9	17					0	0	1	0	0		A	18003967	A	A	18003967	3	1	89	1	0	0	0	0	1	0	0	0	4768	1059	37	1	651	1	DRG2	17	18003967	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	605071	18003967	63191243	5659	59490											
MYO15A	51168	broad.mit.edu	37	chr17	18027810	18027810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacacagatgcactccatccGcaacctgccatccatgcggt	10	7	7	17	2	0	1	0	0	0	1	3	1	3	1	5	1	4	2	5	1	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:18027810G>A	uc010vxh.1	+	3	3961	c.3623G>A	c.(3622-3624)CGC>CAC	p.R1208H		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1208	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CACTCCATCCGCAACCTGCCA	0.642													9	26					0	0	1	0	0		A	18027810	A	A	18027810	3	1	89	1	0	0	0	0	1	0	0	0	10081	1087	38	1	3629	1	MYO15A	17	18027810	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23843	18027810	63167400	5660	59491											
MYO15A	51168	broad.mit.edu	37	chr17	18036584	18036584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagcgatgcagatgactttCgccggctcctggctgccatg	7	9	13	12	3	0	3	0	1	0	2	2	4	1	3	3	2	3	3	3	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:18036584C>T	uc010vxh.1	+	11	4704	c.4366C>T	c.(4366-4368)CGC>TGC	p.R1456C		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1456	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					AGATGACTTTCGCCGGCTCCT	0.617													18	42					0	0	1	0	0		T	18036584	T	T	18036584	3	4	89	1	0	0	0	0	1	0	0	0	10081	884	31	1	4404	1	MYO15A	17	18036584	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8774	18036584	63158626	5661	59492											
ZNF286B	729288	broad.mit.edu	37	chr17	18565271	18565271	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggttgctcttcagtgtgAactctttgatgtctgatgag	7	15	12	7	0	4	4	1	4	3	0	4	4	4	4	0	1	2	2	0	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:18565271A>C	uc010vyd.1	-	5	1799	c.1548T>G	c.(1546-1548)GTT>GTG	p.V516V		NM_001145045	NP_001138517	P0CG31	Z286B_HUMAN	zinc finger protein 286B	516	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTCAGTGTGAACTCTTTGAT	0.378													8	96					0	0	1	0	0		C	18565271	C	C	18565271	2	2	89	1	0	0	0	0	0	0	0	1	17849	233	9	5		5	ZNF286B	17	18565271	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	528687	18565271	62629939	5662	59493											
FBXW10	10517	broad.mit.edu	37	chr17	18653227	18653227	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccatccacctctccaagtAcattctaagtatgctggggt	9	11	8	13	0	2	0	0	0	2	0	4	0	3	0	4	2	2	3	4	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:18653227A>G	uc002guk.2	+	3	1095	c.863A>G	c.(862-864)TAC>TGC	p.Y288C	FBXW10_uc002guj.2_Missense_Mutation_p.Y288C|FBXW10_uc002gul.2_Missense_Mutation_p.Y288C|FBXW10_uc010cqh.1_Missense_Mutation_p.Y288C	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	288	F-box.									ovary(1)	1						CTCTCCAAGTACATTCTAAGT	0.493													32	136					0	0	1	0	0		G	18653227	G	G	18653227	3	3	89	1	0	0	0	0	1	0	0	0	5777	391	14	3	873	3	FBXW10	17	18653227	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	87956	18653227	62541983	5663	59494											
FBXW10	10517	broad.mit.edu	37	chr17	18668094	18668094	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtttgcacacgaatcttCggtggtcaccaggggactat	8	10	14	9	2	2	0	1	0	1	0	3	2	2	1	1	6	1	2	1	6	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:18668094C>T	uc002guk.2	+	8	1705	c.1473C>T	c.(1471-1473)TTC>TTT	p.F491F	FBXW10_uc002guj.2_Silent_p.F491F|FBXW10_uc002gul.2_Silent_p.F520F|FBXW10_uc010cqh.1_Silent_p.F491F	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	491										ovary(1)	1						CACGAATCTTCGGTGGTCACC	0.493													20	64					0	0	1	0	0		T	18668094	T	T	18668094	2	4	89	1	0	0	0	0	0	0	0	1	5777	883	31	1		1	FBXW10	17	18668094	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14867	18668094	62527116	5664	59495											
FBXW10	10517	broad.mit.edu	37	chr17	18681858	18681858	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactgcccagtcacccaaaGaaaaagtcttggaaaatccc	17	6	6	12	0	2	1	1	0	1	1	3	2	3	2	3	1	2	0	3	1	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:18681858G>T	uc002guk.2	+	14	2638	c.2406G>T	c.(2404-2406)AAG>AAT	p.K802N	FBXW10_uc002guj.2_Missense_Mutation_p.K801N|FBXW10_uc002gul.2_Missense_Mutation_p.K811N|FBXW10_uc010cqh.1_Missense_Mutation_p.K749N|FAM18B_uc002gum.2_5'Flank	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	802										ovary(1)	1						GTCACCCAAAGAAAAAGTCTT	0.418													16	33					1.87028e-06	1.9473e-06	1	1	0		T	18681858	T	T	18681858	3	4	89	1	0	0	0	0	1	0	0	0	5777	933	33	5	2457	5	FBXW10	17	18681858	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13764	18681858	62513352	5665	59496											
PRPSAP2	5636	broad.mit.edu	37	chr17	18785924	18785924	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttacaccagaaggaaatTcagggcttcttcaatattcc	13	12	7	9	0	3	1	2	0	1	1	4	3	4	2	2	2	1	1	2	2	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:18785924T>C	uc002gup.1	+	7	667	c.456T>C	c.(454-456)ATT>ATC	p.I152I	PRPSAP2_uc002guo.1_Silent_p.I66I|PRPSAP2_uc010vyi.1_Silent_p.I100I|PRPSAP2_uc010vyj.1_Silent_p.I66I|PRPSAP2_uc010vyk.1_Silent_p.I140I	NM_002767	NP_002758	O60256	KPRB_HUMAN	phosphoribosyl pyrophosphate	152					nucleotide biosynthetic process		enzyme inhibitor activity|magnesium ion binding|ribose phosphate diphosphokinase activity			skin(1)	1						AGAAGGAAATTCAGGGCTTCT	0.289													114	228					0	0	1	0	0		C	18785924	C	C	18785924	2	2	89	1	0	0	0	0	0	0	0	1	12604	1771	62	3		3	PRPSAP2	17	18785924	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	104066	18785924	62409286	5666	59497											
SLC5A10	125206	broad.mit.edu	37	chr17	18862465	18862465	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagattggagcctccctcttCgccagcagcgagggctctgg	6	8	13	14	2	2	1	0	0	2	1	4	3	3	2	3	3	3	2	3	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:18862465C>T	uc002guu.1	+	3	242	c.201C>T	c.(199-201)TTC>TTT	p.F67F	SLC5A10_uc002gur.1_Silent_p.F11F|SLC5A10_uc002gut.1_Silent_p.F67F|SLC5A10_uc002guv.1_Silent_p.F67F|SLC5A10_uc010vyl.1_Silent_p.F67F	NM_001042450	NP_001035915	A0PJK1	SC5AA_HUMAN	solute carrier family 5 (sodium/glucose	67	Cytoplasmic (Potential).				sodium ion transport|transmembrane transport	integral to membrane	transporter activity			ovary(1)	1						CCTCCCTCTTCGCCAGCAGCG	0.627													11	26					0	0	1	0	0		T	18862465	T	T	18862465	2	4	89	1	0	0	0	0	0	0	0	1	14687	883	31	1		1	SLC5A10	17	18862465	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	76541	18862465	62332745	5667	59498											
EPN2	22905	broad.mit.edu	37	chr17	19186779	19186779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagtacattgaccgagatgGcaaggaccagggcatcaatg	13	6	12	10	1	1	2	1	1	0	1	1	4	1	3	3	3	1	3	3	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:19186779G>A	uc002gvd.3	+	3	795	c.347G>A	c.(346-348)GGC>GAC	p.G116D	EPN2_uc002gvc.2_Missense_Mutation_p.G116D|EPN2_uc010vyn.1_Missense_Mutation_p.G116D|EPN2_uc010cql.1_Intron|EPN2_uc002gve.3_Missense_Mutation_p.G116D|EPN2_uc002gvf.3_Intron|EPN2_uc010vyo.1_Intron|EPN2_uc002gvg.1_Missense_Mutation_p.G116D|EPN2_uc010vyp.1_Missense_Mutation_p.G116D|EPN2_uc010vyq.1_Missense_Mutation_p.G116D|EPN2_uc002gvh.1_Missense_Mutation_p.G116D	NM_014964	NP_055779	O95208	EPN2_HUMAN	epsin 2 isoform b	116	ENTH.				endocytosis		lipid binding			skin(1)	1	all_cancers(12;3.11e-05)|all_epithelial(12;0.00121)|Hepatocellular(7;0.00345)|Breast(13;0.143)					GACCGAGATGGCAAGGACCAG	0.562													35	55					0	0	1	0	0		A	19186779	A	A	19186779	3	1	89	1	0	0	0	0	1	0	0	0	5194	1203	42	2	349	2	EPN2	17	19186779	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	324314	19186779	62008431	5668	59499											
RNF112	7732	broad.mit.edu	37	chr17	19316718	19316718	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttcttgctggggaaagaaggGaagaaggtgaggggggaagt	12	7	20	2	0	1	3	0	1	1	2	1	6	1	6	0	7	1	1	0	7	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:19316718G>A	uc010vyw.1	+	5	913	c.714G>A	c.(712-714)GGG>GGA	p.G238G	RNF112_uc010vyu.1_3'UTR|RNF112_uc010vyv.1_Silent_p.G238G|RNF112_uc010vyx.1_Silent_p.G121G	NM_007148	NP_009079	Q7Z5V9	Q7Z5V9_HUMAN	ring finger protein 112	238							GTP binding|GTPase activity|zinc ion binding			ovary(2)	2						GGAAAGAAGGGAAGAAGGTGA	0.622													10	15					0	0	1	0	0		A	19316718	A	A	19316718	2	1	89	1	0	0	0	0	0	0	0	1	13451	1161	41	4		4	RNF112	17	19316718	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	129939	19316718	61878492	5669	59500											
SLC47A1	55244	broad.mit.edu	37	chr17	19451350	19451350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgatcctgcagcggagtgCgctcgtcctgctcctctgct	3	11	12	15	4	1	1	0	1	1	0	5	2	4	2	3	1	5	4	3	1	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:19451350C>T	uc002gvy.1	+	4	445	c.359C>T	c.(358-360)GCG>GTG	p.A120V	SLC47A1_uc010vyy.1_RNA|SLC47A1_uc002gvx.2_Missense_Mutation_p.A120V|SLC47A1_uc010vyz.1_Missense_Mutation_p.A97V|SLC47A1_uc010cqp.1_Missense_Mutation_p.A120V|SLC47A1_uc010cqq.1_5'UTR	NM_018242	NP_060712	Q96FL8	S47A1_HUMAN	solute carrier family 47, member 1	120	Cytoplasmic (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.49e-05)|all_epithelial(12;0.00263)|Hepatocellular(7;0.00345)					CAGCGGAGTGCGCTCGTCCTG	0.602													30	50					0	0	1	0	0		T	19451350	T	T	19451350	3	4	89	1	0	0	0	0	1	0	0	0	14672	768	27	1	373	1	SLC47A1	17	19451350	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	134632	19451350	61743860	5670	59501											
ALDH3A1	218	broad.mit.edu	37	chr17	19641726	19641726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggcggtgagagaaagtctcGaagctcttcttgccatggta	9	10	13	9	3	3	2	0	1	3	1	4	4	3	2	1	3	2	2	1	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:19641726G>A	uc010cqu.2	-	9	1587	c.1257C>T	c.(1255-1257)TTC>TTT	p.F419F	ALDH3A1_uc010vzd.1_Silent_p.F419F|ALDH3A1_uc002gwj.2_Silent_p.F419F|ALDH3A1_uc010cqv.2_Silent_p.F418F|ALDH3A1_uc002gwk.2_Silent_p.F536F|ALDH3A1_uc002gwl.1_Silent_p.F346F	NM_001135168	NP_001128640	P30838	AL3A1_HUMAN	aldehyde dehydrogenase 3A1	419					cellular aldehyde metabolic process	cytosol|endoplasmic reticulum	alcohol dehydrogenase (NADP+) activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(1)|pancreas(1)	2	all_cancers(12;4.01e-05)|all_epithelial(12;0.00301)|Breast(13;0.186)			Colorectal(15;0.0829)	NADH(DB00157)	AGAAAGTCTCGAAGCTCTTCT	0.612													46	88					0	0	1	0	0		A	19641726	A	A	19641726	2	1	89	1	0	0	0	0	0	0	0	1	497	1049	37	1		1	ALDH3A1	17	19641726	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	190376	19641726	61553484	5671	59502											
AKAP10	11216	broad.mit.edu	37	chr17	19839708	19839708	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaatcgtacaacatcatcaAatccaagaggatgtgtggct	14	10	8	9	1	2	1	2	0	0	1	4	2	3	2	1	2	2	2	1	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:19839708A>C	uc002gwo.2	-	9	1495	c.1358T>G	c.(1357-1359)TTT>TGT	p.F453C	AKAP10_uc002gwp.1_Missense_Mutation_p.F453C|AKAP10_uc010cqw.1_Missense_Mutation_p.F453C	NM_007202	NP_009133	O43572	AKA10_HUMAN	A-kinase anchor protein 10 precursor	453	RGS 2.				blood coagulation|protein localization	cytosol|mitochondrion|plasma membrane	signal transducer activity			skin(1)	1	all_cancers(12;2.08e-05)|all_epithelial(12;0.00158)|Breast(13;0.165)					AACATCATCAAATCCAAGAGG	0.433													17	22					0	0	1	0	0		C	19839708	C	C	19839708	3	2	89	1	0	0	0	0	1	0	0	0	446	14	1	5	658	5	AKAP10	17	19839708	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	197982	19839708	61355502	5672	59503											
LGALS9B	284194	broad.mit.edu	37	chr17	20354903	20354903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacagcattctcatcaaaaCgggggttcatgtggaaggcg	11	8	12	10	2	3	0	3	0	1	0	4	1	3	1	1	4	2	2	1	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:20354903C>T	uc002gxa.1	-	10	880	c.815G>A	c.(814-816)CGT>CAT	p.R272H	LGALS9B_uc002gwz.1_Missense_Mutation_p.R271H|LGALS9B_uc010vzh.1_Missense_Mutation_p.R184H	NM_001042685	NP_001036150	Q3B8N2	LEG9B_HUMAN	galectin-9 like	272	Galectin 2.						sugar binding			skin(1)	1						CTCATCAAAACGGGGGTTCAT	0.572													31	72					0	0	1	0	0		T	20354903	T	T	20354903	3	4	89	1	0	0	0	0	1	0	0	0	8765	536	19	1	263	1	LGALS9B	17	20354903	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	515195	20354903	60840307	5673	59504											
DHRS7B	25979	broad.mit.edu	37	chr17	21094443	21094443	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctccagggccagaaaaGagcggaaatccaagaactcc	14	4	11	12	1	0	3	0	0	0	3	3	4	3	4	5	3	2	0	5	3	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:21094443G>T	uc002gyo.2	+	7	982	c.955G>T	c.(955-957)GAG>TAG	p.E319*		NM_015510	NP_056325	Q6IAN0	DRS7B_HUMAN	dehydrogenase/reductase (SDR family) member 7B	319	Peroxisomal (Potential).					integral to membrane|peroxisomal membrane	binding|oxidoreductase activity			pancreas(1)	1						GGCCAGAAAAGAGCGGAAATC	0.527													32	93					1.88708e-17	2.18811e-17	1	1	0		T	21094443	T	T	21094443	4	4	89	1	0	0	0	0	0	1	0	0	4502	943	33	5	981	5	DHRS7B	17	21094443	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	739540	21094443	60100767	5674	59505											
TMEM11	8834	broad.mit.edu	37	chr17	21101654	21101654	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatcatacggcatagagttCgtaaatcttctttacacagt	14	13	6	8	2	3	1	1	0	2	1	4	1	3	1	0	1	2	3	0	1	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:21101654C>T	uc002gyp.2	-	2	1005	c.562G>A	c.(562-564)GAA>AAA	p.E188K	TMEM11_uc002gyq.2_3'UTR	NM_003876	NP_003867	P17152	TMM11_HUMAN	transmembrane protein 11	188					mitochondrion organization	integral to mitochondrial inner membrane|integral to plasma membrane	protein binding				0						GCATAGAGTTCGTAAATCTTC	0.532													51	111					0	0	1	0	0		T	21101654	T	T	21101654	3	4	89	1	0	0	0	0	1	0	0	0	16051	893	31	1	20	1	TMEM11	17	21101654	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7211	21101654	60093556	5675	59506											
KCNJ12	3768	broad.mit.edu	37	chr17	21319340	21319340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgtggaggcccatgtgcGcgcgcagctcatcaagccgc	7	7	13	14	4	2	0	2	0	0	0	2	1	2	1	2	2	3	2	2	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:21319340G>A	uc002gyv.1	+	3	1391	c.686G>A	c.(685-687)CGC>CAC	p.R229H		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	229	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GCCCATGTGCGCGCGCAGCTC	0.642										Prostate(3;0.18)			8	75					0	0	1	0	0		A	21319340	A	A	21319340	3	1	89	1	0	0	0	0	1	0	0	0	8062	1087	38	1	688	1	KCNJ12	17	21319340	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	217686	21319340	59875870	5676	59507											
POLDIP2	26073	broad.mit.edu	37	chr17	26676190	26676190	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggataacactggttccTgtaaaggtttaggcaaaatg	12	12	10	7	0	0	0	0	0	0	0	1	1	1	1	2	4	1	4	2	4	6	6	rs113989645		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:26676190T>G	uc002haz.2	-	13	1045	c.913_splice	c.e13-1	p.E305_splice	POLDIP2_uc010wag.1_Splice_Site	NM_015584	NP_056399	Q9Y2S7	PDIP2_HUMAN	DNA polymerase delta interacting protein 2							mitochondrial nucleoid|nucleus					0	all_lung(13;0.000354)|Lung NSC(42;0.00115)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		CACTGGTTCCTGTAAAGGTTT	0.552													11	20					0	0	1	0	0		G	26676190	G	G	26676190	5	3	89	1	0	0	0	0	0	0	1	0	12213	1594	55	5	203	5	POLDIP2	17	26676190	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	5356850	26676190	54519020	5677	59508											
SARM1	23098	broad.mit.edu	37	chr17	26715444	26715444	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagctggaagcaggcaagttCgaggacaaactcatccagag	15	5	12	9	1	1	1	1	0	0	1	3	4	2	3	1	3	3	4	1	3	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:26715444C>T	uc010crl.1	+	10	1876	c.1809C>T	c.(1807-1809)TTC>TTT	p.F603F	SARM1_uc010waj.1_RNA|SARM1_uc002hbe.1_Silent_p.F147F	NM_015077	NP_055892	Q6SZW1	SARM1_HUMAN	sterile alpha and TIR motif containing 1	603	TIR.				innate immune response	cytoplasm|intrinsic to membrane	binding|transmembrane receptor activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		CAGGCAAGTTCGAGGACAAAC	0.527													59	75					0	0	1	0	0		T	26715444	T	T	26715444	2	4	89	1	0	0	0	0	0	0	0	1	13867	883	31	1		1	SARM1	17	26715444	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	39254	26715444	54479766	5678	59509											
SLC46A1	113235	broad.mit.edu	37	chr17	26731978	26731978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaatggatcggtggtgaCggaacgtgaagagccgggtg	10	6	19	6	4	0	3	0	2	0	1	1	6	0	6	1	6	2	0	1	6	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:26731978C>T	uc002hbf.1	-	2	833	c.737G>A	c.(736-738)CGT>CAT	p.R246H	SLC46A1_uc002hbg.1_Missense_Mutation_p.R246H|SLC46A1_uc010wak.1_Missense_Mutation_p.R246H	NM_080669	NP_542400	Q96NT5	PCFT_HUMAN	proton-coupled folate transporter	246					cellular iron ion homeostasis|folic acid metabolic process	apical plasma membrane|cytoplasm|integral to membrane	folic acid binding|folic acid transporter activity|heme transporter activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Folic Acid(DB00158)	TCGGTGGTGACGGAACGTGAA	0.542													46	93					0	0	1	0	0		T	26731978	T	T	26731978	3	4	89	1	0	0	0	0	1	0	0	0	14669	536	19	1	659	1	SLC46A1	17	26731978	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	16534	26731978	54463232	5679	59510											
RAB34	83871	broad.mit.edu	37	chr17	27041904	27041904	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccacacggaagaagaattCtcggacattctcacctgaca	13	8	8	12	2	2	3	1	1	2	2	4	5	2	5	2	2	1	0	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:27041904C>A	uc002hce.2	-	9	1243	c.619G>T	c.(619-621)GAA>TAA	p.E207*	RAB34_uc002hcg.2_Nonsense_Mutation_p.E199*|RAB34_uc002hcf.2_Nonsense_Mutation_p.E208*|RAB34_uc010was.1_Nonsense_Mutation_p.E264*|RAB34_uc010wat.1_Nonsense_Mutation_p.E256*|RAB34_uc002hch.2_Nonsense_Mutation_p.E207*|RAB34_uc010wau.1_Nonsense_Mutation_p.E185*|RAB34_uc010wav.1_Intron	NM_031934	NP_114140	Q9BZG1	RAB34_HUMAN	Ras-related protein RAB34 isoform 1	207					protein transport|small GTPase mediated signal transduction	Golgi apparatus	GTP binding				0	Lung NSC(42;0.00431)					AAGAAGAATTCTCGGACATTC	0.577													26	66					4.59853e-10	4.97375e-10	1	1	0		A	27041904	A	A	27041904	4	1	89	1	0	0	0	0	0	1	0	0	12949	922	32	5	232	5	RAB34	17	27041904	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	309926	27041904	54153306	5680	59511											
PHF12	57649	broad.mit.edu	37	chr17	27239795	27239795	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgtcttcacaatgatgccGacggtgtggttctgaaggcc	7	12	12	10	2	4	2	1	2	3	0	4	3	4	2	2	3	1	1	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:27239795G>A	uc002hdg.1	-	9	2324	c.1794C>T	c.(1792-1794)GTC>GTT	p.V598V	PHF12_uc010wbb.1_Silent_p.V580V|PHF12_uc002hdi.1_Silent_p.V594V|PHF12_uc002hdj.1_Silent_p.V598V|PHF12_uc010crw.1_Silent_p.V301V|PHF12_uc002hdh.1_Silent_p.V381V	NM_001033561	NP_001028733	Q96QT6	PHF12_HUMAN	PHD finger protein 12 isoform 1	598	Interaction with SIN3A.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	protein binding|zinc ion binding			ovary(1)	1	all_cancers(5;1.95e-14)|all_epithelial(6;5e-18)|Lung NSC(42;0.01)		Epithelial(11;1.64e-05)|all cancers(11;7.47e-05)|BRCA - Breast invasive adenocarcinoma(11;9.79e-05)			CAATGATGCCGACGGTGTGGT	0.637													24	59					0	0	1	0	0		A	27239795	A	A	27239795	2	1	89	1	0	0	0	0	0	0	0	1	11842	1045	37	1		1	PHF12	17	27239795	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	197891	27239795	53955415	5681	59512											
MYO18A	399687	broad.mit.edu	37	chr17	27493497	27493497	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagagtgctctgagggcgtCgaggtttctgaggcgctctc	5	10	16	10	3	3	3	0	2	3	1	5	4	3	3	0	3	1	4	0	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:27493497C>T	uc002hdt.1	-	2	620	c.462G>A	c.(460-462)TCG>TCA	p.S154S	MYO18A_uc010csa.1_Silent_p.S154S|MYO18A_uc002hdu.1_Silent_p.S154S	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	154					anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CTGAGGGCGTCGAGGTTTCTG	0.617													10	22					0	0	1	0	0		T	27493497	T	T	27493497	2	4	89	1	0	0	0	0	0	0	0	1	10083	871	31	1		1	MYO18A	17	27493497	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	253702	27493497	53701713	5682	59513											
CRYBA1	1411	broad.mit.edu	37	chr17	27581350	27581350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcgcagatccaatcgattCgccgaatccaacagtagctg	11	9	8	13	4	0	1	0	0	0	1	5	3	2	1	3	0	2	3	3	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:27581350C>T	uc002hdw.2	+	6	638	c.631C>T	c.(631-633)CGC>TGC	p.R211C		NM_005208	NP_005199	P05813	CRBA1_HUMAN	crystallin, beta A3	211	Beta/gamma crystallin 'Greek key' 4.				visual perception	soluble fraction	structural constituent of eye lens				0			BRCA - Breast invasive adenocarcinoma(11;3.3e-05)|Colorectal(6;0.0178)|COAD - Colon adenocarcinoma(6;0.0551)			CCAATCGATTCGCCGAATCCA	0.438													58	105					0	0	1	0	0		T	27581350	T	T	27581350	3	4	89	1	0	0	0	0	1	0	0	0	3910	884	31	1	653	1	CRYBA1	17	27581350	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	87853	27581350	53613860	5683	59514											
EFCAB5	374786	broad.mit.edu	37	chr17	28405430	28405430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgaggaattctgccaggCggaaatggctgcaccaaatc	11	8	12	10	1	2	1	0	1	2	0	3	3	2	3	2	4	2	2	2	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:28405430C>T	uc002het.2	+	15	3127	c.2935C>T	c.(2935-2937)CGG>TGG	p.R979W	EFCAB5_uc010cse.2_Missense_Mutation_p.R734W|EFCAB5_uc010csf.2_Intron	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	979							calcium ion binding			ovary(1)|skin(1)	2						TTCTGCCAGGCGGAAATGGCT	0.493													33	63					0	0	1	0	0		T	28405430	T	T	28405430	3	4	89	1	0	0	0	0	1	0	0	0	4944	759	27	1	3160	1	EFCAB5	17	28405430	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	824080	28405430	52789780	5684	59515											
SLC6A4	6532	broad.mit.edu	37	chr17	28545146	28545146	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacttacgtgtaaaattCttcagcaggggacgtggaat	11	11	12	7	2	2	0	1	0	1	0	2	2	2	2	0	3	3	3	0	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:28545146C>A	uc002hey.3	-	5	1232	c.688G>T	c.(688-690)GAA>TAA	p.E230*		NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	230	Extracellular (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	GTGTAAAATTCTTCAGCAGGG	0.552													22	39					1.1804e-14	1.33524e-14	1	1	0		A	28545146	A	A	28545146	4	1	89	1	0	0	0	0	0	1	0	0	14711	922	32	5	1248	5	SLC6A4	17	28545146	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	139716	28545146	52650064	5685	59516											
CPD	1362	broad.mit.edu	37	chr17	28769342	28769342	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttaggaggaatgcaggactgGaactatttacaaacaaattg	16	10	10	5	0	0	0	0	0	0	0	0	4	0	4	0	4	4	1	0	4	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:28769342G>A	uc002hfb.1	+	10	2262	c.2247G>A	c.(2245-2247)TGG>TGA	p.W749*	CPD_uc010wbo.1_Nonsense_Mutation_p.W502*|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	749	Extracellular (Potential).|Carboxypeptidase-like 2.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						TGCAGGACTGGAACTATTTAC	0.353													34	69					0	0	1	0	0		A	28769342	A	A	28769342	4	1	89	1	0	0	0	0	0	1	0	0	3801	1183	41	4	2285	4	CPD	17	28769342	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	224196	28769342	52425868	5686	59517											
NF1	4763	broad.mit.edu	37	chr17	29541481	29541481	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttttagagtcttacatttAaagaaaaagtaacaagcctt	16	14	6	5	0	1	2	0	0	1	2	1	2	1	2	1	0	3	2	1	0	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:29541481A>C	uc002hgg.2	+	13	1738	c.1405A>C	c.(1405-1407)AAA>CAA	p.K469Q	NF1_uc002hge.1_Missense_Mutation_p.K469Q|NF1_uc002hgf.1_Missense_Mutation_p.K469Q|NF1_uc002hgh.2_Missense_Mutation_p.K469Q|NF1_uc010csn.1_Missense_Mutation_p.K329Q	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	469					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TCTTACATTTAAAGAAAAAGT	0.299			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			20	29					0	0	1	0	0		C	29541481	C	C	29541481	3	2	89	1	0	0	0	0	1	0	0	0	10375	363	13	5	1455	5	NF1	17	29541481	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	772139	29541481	51653729	5687	59518											
NF1	4763	broad.mit.edu	37	chr17	29685995	29685995	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatttgttgcaggttttggtTttaatggcttgtggcggttt	4	20	14	3	1	0	0	0	0	0	0	0	1	0	0	0	5	1	6	0	5	1	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:29685995T>G	uc002hgg.2	+	56	8455	c.8122T>G	c.(8122-8124)TTT>GTT	p.F2708V	NF1_uc002hgh.2_Missense_Mutation_p.F2687V|NF1_uc010cso.2_Missense_Mutation_p.F896V|NF1_uc010wbt.1_Missense_Mutation_p.F186V|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2708					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		AGGTTTTGGTTTTAATGGCTT	0.294			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			12	30					0	0	1	0	0		G	29685995	G	G	29685995	3	3	89	1	0	0	0	0	1	0	0	0	10375	1841	64	5	8405	5	NF1	17	29685995	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	144514	29685995	51509215	5688	59519											
RAB11FIP4	84440	broad.mit.edu	37	chr17	29854863	29854863	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttctcctttcgccagggtGcagcagttggaggaagaaaa	10	10	12	9	1	1	1	0	0	1	1	3	3	1	3	2	3	2	3	2	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:29854863G>A	uc002hgn.1	+	11	1507	c.1278G>A	c.(1276-1278)GTG>GTA	p.V426V	RAB11FIP4_uc002hgo.2_Silent_p.V324V	NM_032932	NP_116321	Q86YS3	RFIP4_HUMAN	RAB11 family interacting protein 4 (class II)	426	Potential.|Necessary for interaction with RAB11A, subcellular location, homo- or heterooligomerization.				cytokinesis|interspecies interaction between organisms|protein transport	cleavage furrow|endocytic vesicle|midbody|recycling endosome membrane	ADP-ribosylation factor binding|calcium ion binding|protein homodimerization activity|Rab GTPase binding			skin(1)	1		all_cancers(10;3.62e-13)|all_epithelial(10;0.000387)|all_lung(9;0.0132)|Breast(31;0.014)|all_hematologic(16;0.015)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0259)|Ovarian(249;0.0423)|Lung NSC(157;0.066)				TCGCCAGGGTGCAGCAGTTGG	0.493													4	10					0	0	1	0	0		A	29854863	A	A	29854863	2	1	89	1	0	0	0	0	0	0	0	1	12921	1306	46	2		2	RAB11FIP4	17	29854863	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	168868	29854863	51340347	5689	59520											
UTP6	55813	broad.mit.edu	37	chr17	30192440	30192440	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcataatattctcttatgttCgccatattgcaggattcctg	9	17	6	9	1	2	0	1	0	1	0	5	1	3	1	2	1	1	2	2	1	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:30192440C>T	uc002hgr.2	-	18	1664	c.1581G>A	c.(1579-1581)GCG>GCA	p.A527A	UTP6_uc002hgq.2_Silent_p.A343A|UTP6_uc010cst.2_Silent_p.A376A	NM_018428	NP_060898	Q9NYH9	UTP6_HUMAN	hepatocellular carcinoma-associated antigen 66	527	HAT 5.				rRNA processing	nucleolus	binding			ovary(1)	1		all_hematologic(16;0.0149)|Ovarian(249;0.021)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|Breast(31;0.231)				CTCTTATGTTCGCCATATTGC	0.303													24	52					0	0	1	0	0		T	30192440	T	T	30192440	2	4	89	1	0	0	0	0	0	0	0	1	17128	871	31	1		1	UTP6	17	30192440	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	337577	30192440	51002770	5690	59521											
SUZ12	23512	broad.mit.edu	37	chr17	30303573	30303573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttccagccagaagaaaacGaaatcgtgaggatggggaaa	16	5	13	7	2	0	3	0	1	0	2	2	6	1	5	2	3	2	1	2	3	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:30303573G>A	uc002hgs.2	+	8	1079	c.857G>A	c.(856-858)CGA>CAA	p.R286Q	SUZ12_uc002hgt.2_Missense_Mutation_p.R263Q	NM_015355	NP_056170	Q15022	SUZ12_HUMAN	joined to JAZF1	286					negative regulation of cell differentiation|transcription, DNA-dependent	ESC/E(Z) complex	histone methyltransferase activity|methylated histone residue binding|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.041)|Ovarian(249;0.182)|Breast(31;0.231)				AGAAGAAAACGAAATCGTGAG	0.348			T	JAZF1	endometrial stromal tumours								29	46					0	0	1	0	0		A	30303573	A	A	30303573	3	1	89	1	0	0	0	0	1	0	0	0	15441	1058	37	1	887	1	SUZ12	17	30303573	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	111133	30303573	50891637	5691	59522											
C17orf75	64149	broad.mit.edu	37	chr17	30661574	30661574	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggccatgcacaaagaaGtcatggtgccttcatgaata	13	10	9	9	0	3	2	3	1	0	1	3	2	3	2	2	2	2	1	2	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:30661574G>T	uc002hhg.2	-	8	816	c.785C>A	c.(784-786)ACT>AAT	p.T262N		NM_022344	NP_071739	Q9HAS0	NJMU_HUMAN	hypothetical protein LOC64149	262					spermatogenesis					ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			GCACAAAGAAGTCATGGTGCC	0.498													21	16					1.00905e-13	1.13002e-13	1	1	0		T	30661574	T	T	30661574	3	4	89	1	0	0	0	0	1	0	0	0	1883	1029	36	5	417	5	C17orf75	17	30661574	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	358001	30661574	50533636	5692	59523											
ZNF207	7756	broad.mit.edu	37	chr17	30678857	30678857	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccttattcagcaccaaaaaGcaaagcattttaaatgccat	16	11	4	10	0	1	0	1	0	0	0	2	0	2	0	3	0	4	3	3	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:30678857G>T	uc002hhh.3	+	2	242	c.94G>T	c.(94-96)GCA>TCA	p.A32S	ZNF207_uc002hhj.3_Missense_Mutation_p.A32S|ZNF207_uc002hhi.3_Missense_Mutation_p.A32S|ZNF207_uc010csz.2_Missense_Mutation_p.A35S|ZNF207_uc002hhk.1_Missense_Mutation_p.A32S	NM_003457	NP_003448	O43670	ZN207_HUMAN	zinc finger protein 207 isoform a	32	C2H2-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			GCACCAAAAAGCAAAGCATTT	0.353													25	93					1.55469e-16	1.78953e-16	1	1	0		T	30678857	T	T	30678857	3	4	89	1	0	0	0	0	1	0	0	0	17790	971	34	5	100	5	ZNF207	17	30678857	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17283	30678857	50516353	5693	59524											
MYO1D	4642	broad.mit.edu	37	chr17	31092067	31092067	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccattctcaataagaggCgtgtcaccatctactacaaa	13	11	6	11	1	3	1	2	0	2	1	4	1	3	1	2	1	3	0	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:31092067C>T	uc002hho.1	-	8	876	c.864G>A	c.(862-864)ACG>ACA	p.T288T	MYO1D_uc002hhp.1_Silent_p.T288T|MYO1D_uc010wcb.1_Silent_p.T288T	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	288	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			CAATAAGAGGCGTGTCACCAT	0.343													16	51					0	0	1	0	0		T	31092067	T	T	31092067	2	4	89	1	0	0	0	0	0	0	0	1	10089	755	27	1		1	MYO1D	17	31092067	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	413210	31092067	50103143	5694	59525											
TMEM132E	124842	broad.mit.edu	37	chr17	32953302	32953302	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccaacagctctctgcagcGctccgagcccttcgtggtgt	5	9	11	16	4	1	0	0	0	1	0	4	1	2	0	3	1	5	3	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:32953302G>A	uc002hif.2	+	2	552	c.224G>A	c.(223-225)CGC>CAC	p.R75H		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	75	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		TCTCTGCAGCGCTCCGAGCCC	0.697													4	10					0	0	1	0	0		A	32953302	A	A	32953302	3	1	89	1	0	0	0	0	1	0	0	0	16073	1087	38	1	230	1	TMEM132E	17	32953302	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1861235	32953302	48241908	5695	59526											
UNC45B	146862	broad.mit.edu	37	chr17	33513399	33513399	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accggggcctggtcattgccTacaacctactggcagccgat	8	8	11	14	2	1	0	1	0	0	0	1	1	1	0	5	4	5	1	5	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:33513399T>C	uc002hja.2	+	20	2714	c.2617T>C	c.(2617-2619)TAC>CAC	p.Y873H	UNC45B_uc002hjb.2_Missense_Mutation_p.Y871H|UNC45B_uc002hjc.2_Missense_Mutation_p.Y871H|UNC45B_uc010cto.2_Missense_Mutation_p.Y792H	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	873					cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				GGTCATTGCCTACAACCTACT	0.587													25	57					0	0	1	0	0		C	33513399	C	C	33513399	3	2	89	1	0	0	0	0	1	0	0	0	17015	1522	53	3	2691	3	UNC45B	17	33513399	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	560097	33513399	47681811	5696	59527											
AMAC1	146861	broad.mit.edu	37	chr17	33521053	33521053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagttcccagaagggggtCgccacgcagtttaagtagca	11	7	14	9	2	0	1	0	0	0	1	2	2	1	2	2	3	1	5	2	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:33521053C>T	uc002hjd.2	-	1	360	c.274G>A	c.(274-276)GAC>AAC	p.D92N		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	92	DUF6 1.					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		AGAAGGGGGTCGCCACGCAGT	0.582													64	130					0	0	1	0	0		T	33521053	T	T	33521053	3	4	89	1	0	0	0	0	1	0	0	0	559	884	31	1	746	1	AMAC1	17	33521053	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7654	33521053	47674157	5697	59528											
SLFN11	91607	broad.mit.edu	37	chr17	33689883	33689883	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagaagggatttactctgAtcatgcaagcatagccatag	14	9	10	8	0	2	2	1	1	1	1	2	3	2	3	1	1	5	3	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:33689883A>G	uc010ctp.2	-	4	1386	c.944T>C	c.(943-945)ATC>ACC	p.I315T	SLFN11_uc010ctq.2_Missense_Mutation_p.I315T|SLFN11_uc002hjh.3_Missense_Mutation_p.I315T|SLFN11_uc002hjg.3_Missense_Mutation_p.I315T|SLFN11_uc010ctr.2_Missense_Mutation_p.I315T	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	315						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		ATTTACTCTGATCATGCAAGC	0.463													61	113					0	0	1	0	0		G	33689883	G	G	33689883	3	3	89	1	0	0	0	0	1	0	0	0	14758	333	12	3	1777	3	SLFN11	17	33689883	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	168830	33689883	47505327	5698	59529											
SLFN12	55106	broad.mit.edu	37	chr17	33738393	33738393	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagatttaaacatctttttAtcattcttctgaaagcaatc	14	16	3	8	0	4	2	1	1	3	1	5	2	4	2	0	0	2	1	0	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:33738393A>G	uc002hji.3	-	4	2078	c.1701T>C	c.(1699-1701)GAT>GAC	p.D567D	SLFN12_uc002hjj.3_Silent_p.D567D|SLFN12_uc010cts.2_Silent_p.D567D	NM_018042	NP_060512	Q8IYM2	SLN12_HUMAN	schlafen family member 12	567							ATP binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		ACATCTTTTTATCATTCTTCT	0.333													33	54					0	0	1	0	0		G	33738393	G	G	33738393	2	3	89	1	0	0	0	0	0	0	0	1	14759	446	16	3		3	SLFN12	17	33738393	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	48510	33738393	47456817	5699	59530											
PEX12	5193	broad.mit.edu	37	chr17	33903184	33903184	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctttcttcagagctgagtTtatcttctcactaacactgt	9	16	6	10	0	4	2	2	1	3	1	5	2	4	2	0	0	3	3	0	0	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:33903184T>G	uc002hjp.2	-	3	1313	c.697A>C	c.(697-699)AAC>CAC	p.N233H		NM_000286	NP_000277	O00623	PEX12_HUMAN	peroxisomal biogenesis factor 12	233	Peroxisomal matrix (Potential).				protein import into peroxisome matrix	integral to peroxisomal membrane	protein C-terminus binding|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		AGAGCTGAGTTTATCTTCTCA	0.408													28	65					0	0	1	0	0		G	33903184	G	G	33903184	3	3	89	1	0	0	0	0	1	0	0	0	11759	1841	64	5	386	5	PEX12	17	33903184	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	164791	33903184	47292026	5700	59531											
CCL4L2	388372	broad.mit.edu	37	chr17	34539886	34539886	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctccttgttctacggatTccaaaccaaaagaggcaagc	12	9	8	12	1	1	1	0	0	1	1	3	2	3	2	3	2	4	3	3	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:34539886T>G	uc010cuj.2	+	3	270	c.194T>G	c.(193-195)TTC>TGC	p.F65C	CCL4L2_uc002hlh.1_Intron|CCL4L2_uc002hlj.1_Intron|CCL4L2_uc002hli.1_RNA|CCL4L2_uc010cuk.1_RNA	NM_207007	NP_996890	Q8NHW4	CC4L_HUMAN	chemokine (C-C motif) ligand 4-like 2 precursor	65					chemotaxis|immune response|inflammatory response	extracellular space	chemokine activity				0		Breast(25;0.102)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TTCTACGGATTCCAAACCAAA	0.383													30	9					0	0	1	0	0		G	34539886	G	G	34539886	3	3	89	1	0	0	0	0	1	0	0	0	2907	1783	62	5	204	5	CCL4L2	17	34539886	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	636702	34539886	46655324	5701	59532											
MYO19	80179	broad.mit.edu	37	chr17	34863332	34863332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatgaatgaccactccaggCcctcaactgcgtattcctcc	9	10	7	15	1	1	3	1	3	0	0	4	3	4	3	5	1	2	1	5	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:34863332C>T	uc010wcy.1	-	17	2365	c.1373G>A	c.(1372-1374)GGC>GAC	p.G458D	MYO19_uc002hmw.2_Intron|MYO19_uc010cuu.2_RNA|MYO19_uc010wcz.1_RNA	NM_001163735	NP_001157207	Q96H55	MYO19_HUMAN	myosin XIX isoform 2	458	Myosin head-like.					mitochondrial outer membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)	1		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		CCACTCCAGGCCCTCAACTGC	0.557													19	55					0	0	1	0	0		T	34863332	T	T	34863332	3	4	89	1	0	0	0	0	1	0	0	0	10085	739	26	2	1583	2	MYO19	17	34863332	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	323446	34863332	46331878	5702	59533											
LHX1	3975	broad.mit.edu	37	chr17	35299591	35299591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcttccgcagtccgcgccGgatgcggccgctggtggacc	3	8	14	16	6	1	0	0	0	1	0	3	2	3	2	5	4	1	2	5	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:35299591G>A	uc002hnh.1	+	4	1766	c.770G>A	c.(769-771)CGG>CAG	p.R257Q		NM_005568	NP_005559	P48742	LHX1_HUMAN	LIM homeobox protein 1	257					cerebellar Purkinje cell differentiation|cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation|cervix development|comma-shaped body morphogenesis|dorsal/ventral pattern formation|ectoderm formation|embryonic pattern specification|embryonic retina morphogenesis in camera-type eye|embryonic viscerocranium morphogenesis|endoderm formation|forebrain regionalization|head development|motor axon guidance|negative regulation of transcription, DNA-dependent|nephric duct morphogenesis|nephron tubule epithelial cell differentiation|neuron migration|oviduct epithelium development|paramesonephric duct development|positive regulation of anterior head development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of embryonic development|positive regulation of gastrulation|positive regulation of transcription, DNA-dependent|post-embryonic development|primitive streak formation|renal vesicle morphogenesis|retina layer formation|S-shaped body morphogenesis|spinal cord association neuron differentiation|transcription from RNA polymerase II promoter|ureteric bud development|uterine epithelium development|vagina development	nucleus|protein complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(25;0.00607)				AGTCCGCGCCGGATGCGGCCG	0.711													5	4					0	0	1	0	0		A	35299591	A	A	35299591	3	1	89	1	0	0	0	0	1	0	0	0	8786	1116	39	1	784	1	LHX1	17	35299591	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	436259	35299591	45895619	5703	59534											
AATF	26574	broad.mit.edu	37	chr17	35378259	35378259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttgcaatccagaagttacGaagcaaaatccacaaaaaag	19	6	7	9	1	0	1	0	0	0	1	2	2	2	1	2	0	3	4	2	0	9	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:35378259G>A	uc002hni.2	+	10	1744	c.1493G>A	c.(1492-1494)CGA>CAA	p.R498Q	AATF_uc002hnj.2_RNA	NM_012138	NP_036270	Q9NY61	AATF_HUMAN	apoptosis antagonizing transcription factor	498					anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of superoxide anion generation|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to DNA damage stimulus	centrosome|focal adhesion|nucleolus	leucine zipper domain binding|sequence-specific DNA binding transcription factor activity				0		Breast(25;0.00607)				CAGAAGTTACGAAGCAAAATC	0.343													7	23					0	0	1	0	0		A	35378259	A	A	35378259	3	1	89	1	0	0	0	0	1	0	0	0	25	1058	37	1	1531	1	AATF	17	35378259	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	78668	35378259	45816951	5704	59535											
ACACA	31	broad.mit.edu	37	chr17	35550339	35550339	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccttgctcggaatgtaaaAaatttagggaattctctctg	11	14	8	8	1	2	0	0	0	2	0	5	2	3	2	1	2	1	2	1	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:35550339A>C	uc002hnm.2	-	36	4256	c.4065T>G	c.(4063-4065)TTT>TTG	p.F1355L	ACACA_uc002hnk.2_Missense_Mutation_p.F1277L|ACACA_uc002hnl.2_Missense_Mutation_p.F1297L|ACACA_uc002hnn.2_Missense_Mutation_p.F1355L|ACACA_uc002hno.2_Missense_Mutation_p.F1392L|ACACA_uc010cuy.2_Missense_Mutation_p.F49L	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1355					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	GGAATGTAAAAAATTTAGGGA	0.338													20	36					0	0	1	0	0		C	35550339	C	C	35550339	3	2	89	1	0	0	0	0	1	0	0	0	106	11	1	5	3059	5	ACACA	17	35550339	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	172080	35550339	45644871	5705	59536											
SYNRG	11276	broad.mit.edu	37	chr17	35913722	35913722	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcttttgctcagatgaaatAgagctattactgaaagccat	13	12	9	7	0	1	4	1	2	0	2	1	4	1	4	1	1	4	3	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:35913722A>C	uc002hoa.2	-	14	2186	c.2103T>G	c.(2101-2103)TCT>TCG	p.S701S	SYNRG_uc010wde.1_Silent_p.S623S|SYNRG_uc010wdf.1_Silent_p.S623S|SYNRG_uc002hoc.2_Silent_p.S622S|SYNRG_uc002hoe.2_Silent_p.S623S|SYNRG_uc002hod.2_Silent_p.S623S|SYNRG_uc010wdg.1_Silent_p.S540S|SYNRG_uc002hob.2_Silent_p.S701S|SYNRG_uc002hof.2_Silent_p.S413S|SYNRG_uc010cvd.1_Silent_p.S501S	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	701	Interaction with A1P1G1 and A1P1G2.				endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						CAGATGAAATAGAGCTATTAC	0.453													34	57					0	0	1	0	0		C	35913722	C	C	35913722	2	2	89	1	0	0	0	0	0	0	0	1	15485	407	15	5		5	SYNRG	17	35913722	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	363383	35913722	45281488	5706	59537											
GPR179	440435	broad.mit.edu	37	chr17	36484565	36484565	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccaagctgtgacatcttcGatttccgattttccaggcat	8	14	7	12	2	1	1	0	1	1	0	5	3	4	1	3	1	1	2	3	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:36484565G>A	uc002hpz.2	-	11	4908	c.4887C>T	c.(4885-4887)ATC>ATT	p.I1629I		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	1629	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				TGACATCTTCGATTTCCGATT	0.512													54	89					0	0	1	0	0		A	36484565	A	A	36484565	2	1	89	1	0	0	0	0	0	0	0	1	6689	1048	37	1		1	GPR179	17	36484565	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	570843	36484565	44710645	5707	59538											
GPR179	440435	broad.mit.edu	37	chr17	36485203	36485203	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcctcccggtttctgttCtttccaaaaggttgctttcc	4	17	7	13	1	3	0	0	0	3	0	7	0	6	0	4	2	1	4	4	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:36485203C>A	uc002hpz.2	-	11	4270	c.4249G>T	c.(4249-4251)GAA>TAA	p.E1417*		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	1417	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				GGTTTCTGTTCTTTCCAAAAG	0.537													41	79					1.04594e-18	1.2237e-18	1	1	0		A	36485203	A	A	36485203	4	1	89	1	0	0	0	0	0	1	0	0	6689	922	32	5	2858	5	GPR179	17	36485203	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	638	36485203	44710007	5708	59539											
FBXO47	494188	broad.mit.edu	37	chr17	37101317	37101317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaaaaagcagaatcacttCgatgtgtccaatgatcaagg	16	8	8	9	1	2	2	2	1	0	1	4	3	3	2	2	1	1	1	2	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:37101317C>T	uc002hrc.2	-	7	889	c.689G>A	c.(688-690)CGA>CAA	p.R230Q		NM_001008777	NP_001008777	Q5MNV8	FBX47_HUMAN	F-box protein 47	230											0						AGAATCACTTCGATGTGTCCA	0.388													31	59					0	0	1	0	0		T	37101317	T	T	37101317	3	4	89	1	0	0	0	0	1	0	0	0	5770	884	31	1	689	1	FBXO47	17	37101317	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	616114	37101317	44093893	5709	59540											
FBXL20	84961	broad.mit.edu	37	chr17	37455249	37455249	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttatgtttttaccttaatGcattgtctcccactccaaga	10	16	5	10	0	1	1	0	0	1	1	3	1	2	1	3	0	2	3	3	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:37455249G>T	uc010wed.1	-	5	544	c.323C>A	c.(322-324)GCA>GAA	p.A108E	FBXL20_uc002hrt.2_Missense_Mutation_p.A108E|FBXL20_uc010cvu.2_Missense_Mutation_p.A108E	NM_032875	NP_116264	Q96IG2	FXL20_HUMAN	F-box and leucine-rich repeat protein 20	108	LRR 2.					cytoplasm				ovary(1)	1			LUAD - Lung adenocarcinoma(14;0.146)			TTACCTTAATGCATTGTCTCC	0.388													40	67					6.5261e-18	7.59833e-18	1	1	0		T	37455249	T	T	37455249	3	4	89	1	0	0	0	0	1	0	0	0	5731	1319	46	5	1031	5	FBXL20	17	37455249	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	353932	37455249	43739961	5710	59541											
MED1	5469	broad.mit.edu	37	chr17	37565245	37565245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atactgactgtgagaggaagGcttgcccaccatcactgttc	10	10	10	11	0	1	2	1	2	0	1	2	4	1	3	2	2	2	2	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:37565245G>A	uc002hrv.3	-	17	3441	c.3229C>T	c.(3229-3231)CCT>TCT	p.P1077S	MED1_uc010wee.1_Missense_Mutation_p.P905S|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1077					androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		TGAGAGGAAGGCTTGCCCACC	0.517										HNSCC(31;0.082)			34	88					0	0	1	0	0		A	37565245	A	A	37565245	3	1	89	1	0	0	0	0	1	0	0	0	9443	1203	42	2	1520	2	MED1	17	37565245	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	109996	37565245	43629965	5711	59542											
CDK12	51755	broad.mit.edu	37	chr17	37650863	37650863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcgtgaaatcaaaatccttCgtcagttaatccaccgaagt	13	12	6	10	3	2	1	2	1	0	0	6	2	4	1	3	0	0	1	3	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:37650863C>T	uc010cvv.2	+	5	2921	c.2335C>T	c.(2335-2337)CGT>TGT	p.R779C	CDK12_uc010wef.1_Missense_Mutation_p.R778C|CDK12_uc002hrw.3_Missense_Mutation_p.R779C	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	779	Protein kinase.				mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						CAAAATCCTTCGTCAGTTAat	0.279										TCGA Ovarian(9;0.13)			6	28					0	0	1	0	0		T	37650863	T	T	37650863	3	4	89	1	0	0	0	0	1	0	0	0	3131	884	31	1	2353	1	CDK12	17	37650863	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	85618	37650863	43544347	5712	59543											
GSDMB	55876	broad.mit.edu	37	chr17	38068679	38068679	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcctgaaattgttatttCtttgggtaatctcactatca	10	17	6	8	0	3	1	2	1	2	0	4	1	3	1	1	1	1	2	1	1	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:38068679C>A	uc010cwj.2	-	2	312	c.307G>T	c.(307-309)GAA>TAA	p.E103*	GSDMB_uc010cwk.2_RNA|GSDMB_uc010cwl.2_RNA|GSDMB_uc010cwm.2_RNA|GSDMB_uc002htg.2_Nonsense_Mutation_p.E103*|GSDMB_uc002hth.2_Nonsense_Mutation_p.E103*|GSDMB_uc010wem.1_Nonsense_Mutation_p.E103*	NM_001042471	NP_001035936	Q8TAX9	GSDMB_HUMAN	gasdermin B isoform 1	103						cytoplasm				breast(1)|pancreas(1)	2						ATTGTTATTTCTTTGGGTAAT	0.423													22	55					2.27731e-05	2.34574e-05	1	1	0		A	38068679	A	A	38068679	4	1	89	1	0	0	0	0	0	1	0	0	6833	922	32	5	979	5	GSDMB	17	38068679	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	417816	38068679	43126531	5713	59544											
THRA	7067	broad.mit.edu	37	chr17	38249572	38249572	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcagtgaggcggactccccGagctcctctgaggaggaacc	9	5	14	13	2	1	2	0	2	1	0	3	6	3	5	4	4	3	2	4	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:38249572G>A	uc002htw.2	+	10	1893	c.1410G>A	c.(1408-1410)CCG>CCA	p.P470P	THRA_uc002htx.2_Silent_p.P431P|NR1D1_uc002htz.1_Intron|NR1D1_uc010cwq.1_Intron	NM_003250	NP_003241	P10827	THA_HUMAN	thyroid hormone receptor, alpha isoform 2	470					negative regulation of RNA polymerase II transcriptional preinitiation complex assembly|negative regulation of transcription initiation, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription from RNA polymerase II promoter	cytosol|nucleoplasm	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|TBP-class protein binding|thyroid hormone binding|thyroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding				0	Colorectal(19;0.000442)	Myeloproliferative disorder(1115;0.0255)			Levothyroxine(DB00451)|Liothyronine(DB00279)	CGGACTCCCCGAGCTCCTCTG	0.652													12	27					0	0	1	0	0		A	38249572	A	A	38249572	2	1	89	1	0	0	0	0	0	0	0	1	15898	1045	37	1		1	THRA	17	38249572	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	180893	38249572	42945638	5714	59545											
CCR7	1236	broad.mit.edu	37	chr17	38711747	38711747	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggcaaagatgagcttgcaAaagtggacaccgaagaccca	16	5	11	9	1	0	3	0	1	0	2	0	5	0	4	2	2	2	3	2	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:38711747A>C	uc002huw.2	-	3	447	c.384T>G	c.(382-384)TTT>TTG	p.F128L		NM_001838	NP_001829	P32248	CCR7_HUMAN	chemokine (C-C motif) receptor 7 precursor	128	Extracellular (Potential).				cell maturation|immunological synapse formation|inflammatory response|interleukin-12 secretion|lymphocyte migration into lymph node|positive regulation of dendritic cell antigen processing and presentation|positive regulation of glycoprotein biosynthetic process|positive regulation of humoral immune response|positive regulation of hypersensitivity|positive regulation of interleukin-12 production|positive regulation of neutrophil chemotaxis|regulation of interferon-gamma production|regulation of interleukin-1 beta secretion|T cell costimulation	integral to membrane|intracellular	C-C chemokine receptor activity|chemokine (C-C motif) ligand 19 binding|chemokine (C-C motif) ligand 21 binding			breast(1)	1		Breast(137;0.000496)				TGAGCTTGCAAAAGTGGACAC	0.562													6	38					0	0	1	0	0		C	38711747	C	C	38711747	3	2	89	1	0	0	0	0	1	0	0	0	2949	11	1	5	756	5	CCR7	17	38711747	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	462175	38711747	42483463	5715	59546											
KRT25	147183	broad.mit.edu	37	chr17	38907471	38907471	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgctctgcaagggcttcGtactcagctcgcatgttgtt	5	15	10	11	2	3	0	1	0	2	0	5	0	3	0	0	1	4	8	0	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:38907471G>A	uc002hve.2	-	4	838	c.777C>T	c.(775-777)TAC>TAT	p.Y259Y		NM_181534	NP_853512	Q7Z3Z0	K1C25_HUMAN	keratin 25	259	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity			ovary(2)	2		Breast(137;0.00526)				CAAGGGCTTCGTACTCAGCTC	0.572													27	54					0	0	1	0	0		A	38907471	A	A	38907471	2	1	89	1	0	0	0	0	0	0	0	1	8478	1140	40	1		1	KRT25	17	38907471	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	195724	38907471	42287739	5716	59547											
KRT26	353288	broad.mit.edu	37	chr17	38926007	38926007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggcgattcctacgtaccAcagccatgagggactgaagt	12	8	11	10	2	0	2	0	2	0	0	1	4	1	3	3	2	3	1	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:38926007A>G	uc002hvf.2	-	5	1014	c.968T>C	c.(967-969)GTG>GCG	p.V323A		NM_181539	NP_853517	Q7Z3Y9	K1C26_HUMAN	keratin 26	323	Rod.|Coil 2.					intermediate filament	structural molecule activity				0		Breast(137;0.00526)				CCTACGTACCACAGCCATGAG	0.393													36	73					0	0	1	0	0		G	38926007	G	G	38926007	3	3	89	1	0	0	0	0	1	0	0	0	8479	173	6	3	454	3	KRT26	17	38926007	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	18536	38926007	42269203	5717	59548											
KRT27	342574	broad.mit.edu	37	chr17	38938569	38938569	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccccgcccagacctccGccatagcctcctgcagatga	7	7	7	20	2	0	3	0	1	0	2	3	3	3	3	8	0	2	1	8	0	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:38938569G>A	uc002hvg.2	-	1	218	c.177C>T	c.(175-177)GGC>GGT	p.G59G		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	59	Head.|Gly-rich.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				CCAGACCTCCGCCATAGCCTC	0.597													36	53					0	0	1	0	0		A	38938569	A	A	38938569	2	1	89	1	0	0	0	0	0	0	0	1	8480	1074	38	1		1	KRT27	17	38938569	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12562	38938569	42256641	5718	59549											
KRT37	8688	broad.mit.edu	37	chr17	39580043	39580043	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtcatcagcagccagcttCgcgttgtcaatttgtacaat	11	12	8	10	2	3	0	3	0	0	0	4	0	3	0	1	0	4	4	1	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:39580043C>T	uc002hwp.1	-	2	593	c.546G>A	c.(544-546)GCG>GCA	p.A182A	uc002hwo.1_RNA	NM_003770	NP_003761	O76014	KRT37_HUMAN	keratin 37	182	Rod.|Coil 1B.					intermediate filament	structural molecule activity			skin(1)	1		Breast(137;0.000496)				CAGCCAGCTTCGCGTTGTCAA	0.328													26	44					0	0	1	0	0		T	39580043	T	T	39580043	2	4	89	1	0	0	0	0	0	0	0	1	8490	871	31	1		1	KRT37	17	39580043	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	641474	39580043	41615167	5719	59550											
KRT35	3886	broad.mit.edu	37	chr17	39633950	39633950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggccagctgggagctatagCgggcctccgtctctgccagg	5	7	16	13	2	1	0	0	0	1	0	3	1	2	1	4	4	4	2	4	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:39633950C>T	uc002hws.2	-	6	1083	c.1040G>A	c.(1039-1041)CGC>CAC	p.R347H		NM_002280	NP_002271	Q92764	KRT35_HUMAN	keratin 35	347	Rod.|Coil 2.				anatomical structure morphogenesis	intermediate filament	protein binding|structural molecule activity			ovary(1)|skin(1)	2		Breast(137;0.000286)				GGAGCTATAGCGGGCCTCCGT	0.592													16	37					0	0	1	0	0		T	39633950	T	T	39633950	3	4	89	1	0	0	0	0	1	0	0	0	8488	768	27	1	335	1	KRT35	17	39633950	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	53907	39633950	41561260	5720	59551											
KRT35	3886	broad.mit.edu	37	chr17	39634617	39634617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgccttggggctcaccatgCtgtgctgagcctgcagctca	5	10	12	14	0	2	1	2	1	0	0	2	1	2	1	3	2	6	5	3	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:39634617C>T	uc002hws.2	-	5	1038	c.995G>A	c.(994-996)AGC>AAC	p.S332N		NM_002280	NP_002271	Q92764	KRT35_HUMAN	keratin 35	332	Rod.|Coil 2.				anatomical structure morphogenesis	intermediate filament	protein binding|structural molecule activity			ovary(1)|skin(1)	2		Breast(137;0.000286)				GCTCACCATGCTGTGCTGAGC	0.617													10	33					0	0	1	0	0		T	39634617	T	T	39634617	3	4	89	1	0	0	0	0	1	0	0	0	8488	797	28	2	384	2	KRT35	17	39634617	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	667	39634617	41560593	5721	59552											
KRT13	3860	broad.mit.edu	37	chr17	39661466	39661466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggtaggaagccaggcggtCgttgaggttctgcatggtga	8	9	17	7	2	1	2	0	2	1	0	2	3	1	3	1	6	2	4	1	6	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:39661466C>T	uc002hwu.1	-	1	400	c.337G>A	c.(337-339)GAC>AAC	p.D113N	KRT13_uc002hwv.1_Missense_Mutation_p.D113N|KRT13_uc002hww.2_Missense_Mutation_p.D6N|KRT13_uc010wfr.1_Missense_Mutation_p.D6N|KRT13_uc010cxo.2_Missense_Mutation_p.D113N|KRT13_uc002hwx.1_Missense_Mutation_p.D101N	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	113	Coil 1A.|Rod.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				GCCAGGCGGTCGTTGAGGTTC	0.438													34	78					0	0	1	0	0		T	39661466	T	T	39661466	3	4	89	1	0	0	0	0	1	0	0	0	8466	884	31	1	1071	1	KRT13	17	39661466	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	26849	39661466	41533744	5722	59553											
ACLY	47	broad.mit.edu	37	chr17	40065299	40065299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtagaaattgaagaggcCggagataaaactggccagaa	16	6	12	7	2	0	5	0	1	0	4	1	6	0	5	2	3	1	1	2	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:40065299C>T	uc002hyg.2	-	6	722	c.559G>A	c.(559-561)GGC>AGC	p.G187S	ACLY_uc002hyh.2_Missense_Mutation_p.G187S|ACLY_uc002hyi.2_Missense_Mutation_p.G241S|ACLY_uc010wfx.1_Missense_Mutation_p.G241S|ACLY_uc010wfy.1_Intron	NM_001096	NP_001087	P53396	ACLY_HUMAN	ATP citrate lyase isoform 1	187					ATP catabolic process|cellular carbohydrate metabolic process|citrate metabolic process|coenzyme A metabolic process|energy reserve metabolic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	citrate lyase complex|cytosol|nucleus	ATP binding|ATP citrate synthase activity|citrate (pro-3S)-lyase activity|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			ovary(2)|central_nervous_system(1)	3		Breast(137;0.000143)				TTGAAGAGGCCGGAGATAAAA	0.577													13	12					0	0	1	0	0		T	40065299	T	T	40065299	3	4	89	1	0	0	0	0	1	0	0	0	143	652	23	1	2842	1	ACLY	17	40065299	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	403833	40065299	41129911	5723	59554											
RAB5C	5878	broad.mit.edu	37	chr17	40278791	40278791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctattgccatgaagatttCgttcacgttcattgcagtct	9	15	7	10	2	3	2	2	1	1	1	4	2	3	2	2	0	2	3	2	0	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:40278791C>T	uc002hyz.2	-	6	834	c.517G>A	c.(517-519)GAA>AAA	p.E173K	RAB5C_uc002hza.2_Missense_Mutation_p.E173K|RAB5C_uc010cxx.2_Missense_Mutation_p.E206K|RAB5C_uc010cxy.2_Missense_Mutation_p.E85K	NM_201434	NP_958842	P51148	RAB5C_HUMAN	RAB5C, member RAS oncogene family isoform a	173					protein transport|small GTPase mediated signal transduction	early endosome membrane|melanosome|plasma membrane	GTP binding|GTPase activity|protein binding			large_intestine(1)|skin(1)	2		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)		ATGAAGATTTCGTTCACGTTC	0.527													41	88					0	0	1	0	0		T	40278791	T	T	40278791	3	4	89	1	0	0	0	0	1	0	0	0	12975	893	31	1	141	1	RAB5C	17	40278791	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	213492	40278791	40916419	5724	59555											
KCNH4	23415	broad.mit.edu	37	chr17	40330965	40330965	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtgcgaccgtagcctgtGagctcgcagaagccgtcgga	7	7	15	12	6	0	2	0	1	0	1	3	4	0	3	3	2	4	3	3	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:40330965G>T	uc002hzb.2	-	2	489	c.156C>A	c.(154-156)CTC>CTA	p.L52L		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	52	Cytoplasmic (Potential).|PAS.				regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	two-component sensor activity|voltage-gated potassium channel activity			large_intestine(1)	1		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		CGTAGCCTGTGAGCTCGCAGA	0.612													21	38					2.4624e-09	2.64481e-09	1	1	0		T	40330965	T	T	40330965	2	4	89	1	0	0	0	0	0	0	0	1	8050	1277	45	5		5	KCNH4	17	40330965	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	52174	40330965	40864245	5725	59556											
HCRT	3060	broad.mit.edu	37	chr17	40336439	40336439	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaggcggcaagagcaagtCttttgacgacagcagtcggg	11	7	15	8	3	1	3	0	1	1	2	2	4	1	3	0	3	2	3	0	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:40336439C>A	uc002hzc.1	-	2	216	c.129G>T	c.(127-129)AAG>AAT	p.K43N		NM_001524	NP_001515	O43612	OREX_HUMAN	orexin precursor	43					neuropeptide signaling pathway	cell junction|extracellular region|rough endoplasmic reticulum|synaptic vesicle					0		all_cancers(22;1.39e-06)|all_epithelial(22;9.98e-06)|Breast(137;0.000143)|Ovarian(249;0.0221)|Myeloproliferative disorder(1115;0.0255)|Colorectal(1115;0.069)		BRCA - Breast invasive adenocarcinoma(366;0.124)		AAGAGCAAGTCTTTTGACGAC	0.622													10	9					3.07112e-06	3.18826e-06	1	1	0		A	40336439	A	A	40336439	3	1	89	1	0	0	0	0	1	0	0	0	7016	912	32	5	270	5	HCRT	17	40336439	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5474	40336439	40858771	5726	59557											
STAT5B	6777	broad.mit.edu	37	chr17	40354820	40354820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttcacgtatccatcaacaGctttagctgccaagggaaga	12	9	9	11	1	2	1	2	0	0	1	3	2	3	2	2	1	4	4	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:40354820G>A	uc002hzh.2	-	17	2253	c.2084C>T	c.(2083-2085)GCT>GTT	p.A695V		NM_012448	NP_036580	P51692	STA5B_HUMAN	signal transducer and activator of transcription	695					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|JAK-STAT cascade involved in growth hormone signaling pathway|oxaloacetate metabolic process|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|glucocorticoid receptor binding|sequence-specific DNA binding transcription factor activity			ovary(3)|lung(2)|skin(1)	6		all_cancers(22;4.15e-07)|all_epithelial(22;2.83e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.135)	Dasatinib(DB01254)	TCCATCAACAGCTTTAGCTGC	0.453													54	82					0	0	1	0	0		A	40354820	A	A	40354820	3	1	89	1	0	0	0	0	1	0	0	0	15294	971	34	2	291	2	STAT5B	17	40354820	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	18381	40354820	40840390	5727	59558											
STAT5A	6776	broad.mit.edu	37	chr17	40456604	40456604	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagtccgtgacagaggaGaagttcacagtcctgtttga	11	9	13	8	1	1	5	1	2	0	3	3	6	3	5	2	1	0	3	2	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:40456604G>T	uc002hzj.1	+	12	1956	c.1314G>T	c.(1312-1314)GAG>GAT	p.E438D	STAT5A_uc010cya.1_Missense_Mutation_p.E438D|STAT5A_uc010cyb.1_Missense_Mutation_p.E438D|STAT5A_uc010cyc.1_Missense_Mutation_p.E408D|STAT5A_uc010cyd.1_5'Flank|STAT5A_uc010cye.1_5'Flank	NM_003152	NP_003143	P42229	STA5A_HUMAN	signal transducer and activator of transcription	438					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|oxaloacetate metabolic process|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_cancers(22;1.56e-06)|all_epithelial(22;3.17e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)		TGACAGAGGAGAAGTTCACAG	0.602													27	52					2.79863e-10	3.03339e-10	1	1	0		T	40456604	T	T	40456604	3	4	89	1	0	0	0	0	1	0	0	0	15293	933	33	5	1352	5	STAT5A	17	40456604	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	101784	40456604	40738606	5728	59559											
CNTNAP1	8506	broad.mit.edu	37	chr17	40839829	40839829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagtgcccggtttcccacGccgtggccgcctggcagtct	4	9	12	16	4	2	0	1	0	1	0	3	0	3	0	5	3	1	2	5	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:40839829G>A	uc002iay.2	+	8	1352	c.1136G>A	c.(1135-1137)CGC>CAC	p.R379H	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	379	Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		GGTTTCCCACGCCGTGGCCGC	0.637													45	82					0	0	1	0	0		A	40839829	A	A	40839829	3	1	89	1	0	0	0	0	1	0	0	0	3649	1087	38	1	1166	1	CNTNAP1	17	40839829	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	383225	40839829	40355381	5729	59560											
BRCA1	672	broad.mit.edu	37	chr17	41244869	41244869	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacttttggactttgtttCtttaaggacccagagtgggc	7	15	12	7	0	1	2	0	1	1	1	1	4	1	4	1	3	0	1	1	3	1	6	rs80357891		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:41244869C>A	uc002icq.2	-	10	2911	c.2679G>T	c.(2677-2679)AAG>AAT	p.K893N	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.K822N|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.K846N|BRCA1_uc002ict.2_Missense_Mutation_p.K893N|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.K893N|BRCA1_uc002ide.1_Missense_Mutation_p.K724N|BRCA1_uc010cyy.1_Missense_Mutation_p.K893N|BRCA1_uc010whs.1_Missense_Mutation_p.K893N|BRCA1_uc010cyz.2_Missense_Mutation_p.K846N|BRCA1_uc010cza.2_Missense_Mutation_p.K867N|BRCA1_uc010wht.1_Missense_Mutation_p.K597N	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	893					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		GACTTTGTTTCTTTAAGGACC	0.393			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			50	74					2.13384e-23	2.55524e-23	1	1	0		A	41244869	A	A	41244869	3	1	89	1	0	0	0	0	1	0	0	0	1501	912	32	5	3038	5	BRCA1	17	41244869	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	405040	41244869	39950341	5730	59561											
MEOX1	4222	broad.mit.edu	37	chr17	41720906	41720906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatctcatatctgcggagccGagtcaggtagttatgatggg	10	11	13	7	2	3	1	2	1	2	0	4	3	3	2	1	3	2	2	1	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:41720906G>A	uc002idz.2	-	2	621	c.592C>T	c.(592-594)CGG>TGG	p.R198W	MEOX1_uc002iea.2_Intron|MEOX1_uc002ieb.2_Missense_Mutation_p.R83W	NM_004527	NP_004518	P50221	MEOX1_HUMAN	mesenchyme homeobox 1 isoform 1	198	Homeobox.					nucleus	sequence-specific DNA binding				0		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.0753)		CTGCGGAGCCGAGTCAGGTAG	0.522													5	13					0	0	1	0	0		A	41720906	A	A	41720906	3	1	89	1	0	0	0	0	1	0	0	0	9491	1057	37	1	180	1	MEOX1	17	41720906	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	476037	41720906	39474304	5731	59562											
CD300LG	146894	broad.mit.edu	37	chr17	41925966	41925966	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagaggaaatcagcgggttCgaaggggacactgtgtccct	10	7	14	10	2	1	1	1	0	0	1	3	4	2	3	2	4	1	1	2	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:41925966C>T	uc002iem.2	+	2	125	c.84C>T	c.(82-84)TTC>TTT	p.F28F	CD300LG_uc002iek.1_Silent_p.F28F|CD300LG_uc002iel.1_Silent_p.F28F|CD300LG_uc010czk.2_Silent_p.F28F|CD300LG_uc010wil.1_Silent_p.F28F|CD300LG_uc010czl.2_Silent_p.F28F	NM_145273	NP_660316	Q6UXG3	CLM9_HUMAN	CD300 molecule-like family member g precursor	28	Extracellular (Potential).|Ig-like V-type.					apical plasma membrane|basolateral plasma membrane|integral to membrane|multivesicular body membrane	receptor activity				0		Breast(137;0.0199)		BRCA - Breast invasive adenocarcinoma(366;0.115)		TCAGCGGGTTCGAAGGGGACA	0.567													40	70					0	0	1	0	0		T	41925966	T	T	41925966	2	4	89	1	0	0	0	0	0	0	0	1	3005	883	31	1		1	CD300LG	17	41925966	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	205060	41925966	39269244	5732	59563											
ITGA2B	3674	broad.mit.edu	37	chr17	42452077	42452077	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaccgcataggggagggAggacacgttgaaccatgcgt	10	5	17	9	3	0	1	0	1	0	0	0	4	0	4	2	5	2	3	2	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:42452077A>G	uc002igt.1	-	28	2925	c.2893T>C	c.(2893-2895)TCC>CCC	p.S965P	ITGA2B_uc002igu.1_3'UTR	NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	965	Extracellular (Potential).				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	TAGGGGAGGGAGGACACGTTG	0.612													14	37					0	0	1	0	0		G	42452077	G	G	42452077	3	3	89	1	0	0	0	0	1	0	0	0	7892	304	11	3	238	3	ITGA2B	17	42452077	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	526111	42452077	38743133	5733	59564											
FZD2	2535	broad.mit.edu	37	chr17	42635315	42635315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaggtgcagtgctcgcccGaactgcgcttcttcctgtgc	5	11	12	13	3	1	1	0	1	1	0	3	2	2	1	2	1	5	3	2	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:42635315G>A	uc002igx.1	+	1	391	c.259G>A	c.(259-261)GAA>AAA	p.E87K		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	87	FZ.|Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		GTGCTCGCCCGAACTGCGCTT	0.642													50	86					0	0	1	0	0		A	42635315	A	A	42635315	3	1	89	1	0	0	0	0	1	0	0	0	6144	1059	37	1	261	1	FZD2	17	42635315	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	183238	42635315	38559895	5734	59565											
C17orf104	284071	broad.mit.edu	37	chr17	42745389	42745389	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccattcagttgttccactgTtggattcctatgacttactt	7	17	7	10	0	1	1	1	1	0	0	3	2	3	2	3	1	1	3	3	1	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:42745389T>G	uc010czv.2	+	5	2110	c.2110T>G	c.(2110-2112)TTG>GTG	p.L704V	C17orf104_uc002igy.1_Missense_Mutation_p.L538V|C17orf104_uc002igz.3_Missense_Mutation_p.L538V|C17orf104_uc010wja.1_RNA|C17orf104_uc002iha.2_Missense_Mutation_p.L538V	NM_001145080	NP_001138552	A2RUB1	CQ104_HUMAN	hypothetical protein LOC284071	704										central_nervous_system(1)	1						TGTTCCACTGTTGGATTCCTA	0.383													13	25					0	0	1	0	0		G	42745389	G	G	42745389	3	3	89	1	0	0	0	0	1	0	0	0	1854	1722	60	5	2128	5	C17orf104	17	42745389	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	110074	42745389	38449821	5735	59566											
ADAM11	4185	broad.mit.edu	37	chr17	42850282	42850282	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatgtggagctaattgtgAtcaacgaccaccagctggtg	11	10	12	8	1	1	1	1	1	0	0	1	3	1	2	2	2	3	3	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:42850282A>G	uc002ihh.2	+	9	736	c.736A>G	c.(736-738)ATC>GTC	p.I246V	ADAM11_uc010wjd.1_Missense_Mutation_p.I46V	NM_002390	NP_002381	O75078	ADA11_HUMAN	ADAM metallopeptidase domain 11 preproprotein	246	Extracellular (Potential).|Peptidase M12B.				integrin-mediated signaling pathway|proteolysis	integral to membrane|plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			pancreas(1)	1		Prostate(33;0.0959)				GCTAATTGTGATCAACGACCA	0.612													27	42					0	0	1	0	0		G	42850282	G	G	42850282	3	3	89	1	0	0	0	0	1	0	0	0	235	333	12	3	770	3	ADAM11	17	42850282	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	104893	42850282	38344928	5736	59567											
GJC1	10052	broad.mit.edu	37	chr17	42882006	42882006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccaggattaaatccagaCggaggtcttcccatcccctg	9	8	9	15	2	1	1	0	0	1	1	4	3	4	3	6	3	0	0	6	3	2	2	rs146820007		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:42882006C>T	uc002ihj.2	-	2	1691	c.1180G>A	c.(1180-1182)GTC>ATC	p.V394I	GJC1_uc002ihk.2_Missense_Mutation_p.V394I|GJC1_uc002ihl.2_Missense_Mutation_p.V394I|GJC1_uc010czx.2_Missense_Mutation_p.V394I|GJC1_uc010czy.1_Missense_Mutation_p.V255I	NM_005497	NP_005488	P36383	CXG1_HUMAN	connexin 45	394	Cytoplasmic (Potential).				cellular membrane organization|gap junction assembly|muscle contraction|synaptic transmission|transport	connexon complex|integral to membrane					0		Prostate(33;0.0959)				TAAATCCAGACGGAGGTCTTC	0.488													52	102					0	0	1	0	0		T	42882006	T	T	42882006	3	4	89	1	0	0	0	0	1	0	0	0	6429	536	19	1	14	1	GJC1	17	42882006	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	31724	42882006	38313204	5737	59568											
HIGD1B	51751	broad.mit.edu	37	chr17	42926632	42926632	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccacaggcttaggaggCtgcttggtggtagcagcata	8	9	14	10	0	0	0	0	0	0	0	0	1	0	1	1	5	4	6	1	5	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:42926632C>T	uc002ihm.2	+	2	353	c.111C>T	c.(109-111)GGC>GGT	p.G37G		NM_016438	NP_057522	Q9P298	HIG1B_HUMAN	HIG1 hypoxia inducible domain family, member 1B	37	HIG1.|Helical; (Potential).					integral to membrane					0		Prostate(33;0.109)				GCTTAGGAGGCTGCTTGGTGG	0.582													33	38					0	0	1	0	0		T	42926632	T	T	42926632	2	4	89	1	0	0	0	0	0	0	0	1	7123	784	28	2		2	HIGD1B	17	42926632	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44626	42926632	38268578	5738	59569											
GFAP	2670	broad.mit.edu	37	chr17	42992513	42992513	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagctcagcctggtagacGtctgccagcttggtgggctc	5	9	14	13	2	2	1	1	0	1	1	3	1	2	1	2	3	4	5	2	3	1	2	rs115282391	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:42992513G>A	uc002ihq.2	-	1	402	c.342C>T	c.(340-342)GAC>GAT	p.D114D	GFAP_uc002ihr.2_Silent_p.D114D|GFAP_uc010wjg.1_RNA	NM_002055	NP_002046	P14136	GFAP_HUMAN	glial fibrillary acidic protein isoform 1	114	Linker 1.|Rod.					cytoplasm|intermediate filament	structural constituent of cytoskeleton			ovary(1)|pancreas(1)	2		Prostate(33;0.0959)				CCTGGTAGACGTCTGCCAGCT	0.627													32	50					0	0	1	0	0		A	42992513	A	A	42992513	2	1	89	1	0	0	0	0	0	0	0	1	6352	1136	40	1		1	GFAP	17	42992513	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	65881	42992513	38202697	5739	59570											
KIF18B	146909	broad.mit.edu	37	chr17	43012671	43012671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgcttctcctgctggcGggcctccaggcgcctgtaca	5	9	13	14	2	1	0	0	0	1	0	3	1	2	0	4	3	3	3	4	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:43012671G>A	uc010wji.1	-	3	528	c.427C>T	c.(427-429)CGC>TGC	p.R143C	KIF18B_uc002iht.2_Missense_Mutation_p.R143C|KIF18B_uc010wjh.1_Missense_Mutation_p.R143C	NM_001080443	NP_001073912			kinesin family member 18B											ovary(2)	2		Prostate(33;0.155)				TCCTGCTGGCGGGCCTCCAGG	0.662													14	26					0	0	1	0	0		A	43012671	A	A	43012671	3	1	89	1	0	0	0	0	1	0	0	0	8297	1116	39	1	2195	1	KIF18B	17	43012671	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	20158	43012671	38182539	5740	59571											
C17orf46	124783	broad.mit.edu	37	chr17	43332645	43332645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcagtggtgctctggcttCgcgtggtttctctggcaggg	2	15	15	9	2	3	0	1	0	2	0	5	0	3	0	0	5	1	4	0	5	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:43332645C>T	uc002iis.1	-	4	1000	c.904G>A	c.(904-906)GAA>AAA	p.E302K	LOC100133991_uc010dah.2_Intron|C17orf46_uc010wjk.1_Missense_Mutation_p.E281K	NM_152343	NP_689556	Q96LK8	CQ046_HUMAN	hypothetical protein LOC124783	302										large_intestine(1)|ovary(1)	2						GCTCTGGCTTCGCGTGGTTTC	0.557													76	115					0	0	1	0	0		T	43332645	T	T	43332645	3	4	89	1	0	0	0	0	1	0	0	0	1860	893	31	1	258	1	C17orf46	17	43332645	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	319974	43332645	37862565	5741	59572											
CRHR1	1394	broad.mit.edu	37	chr17	43907879	43907879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacctgcacacagccatcGtgctcacctactccactgac	9	8	6	18	1	1	1	1	1	0	0	3	1	2	1	4	0	5	3	4	0	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:43907879G>A	uc010dap.2	+	8	1004	c.739G>A	c.(739-741)GTG>ATG	p.V247M	CRHR1_uc010wjx.1_Missense_Mutation_p.V43M|CRHR1_uc002ijp.2_Missense_Mutation_p.V117M|CRHR1_uc002ijm.2_Missense_Mutation_p.V218M|CRHR1_uc002ijn.2_Missense_Mutation_p.V178M|CRHR1_uc010dar.2_Missense_Mutation_p.V218M|CRHR1_uc010dao.2_Missense_Mutation_p.V117M|CRHR1_uc010daq.2_Missense_Mutation_p.V43M	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	247	Cytoplasmic (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		CACAGCCATCGTGCTCACCTA	0.617													53	107					0	0	1	0	0		A	43907879	A	A	43907879	3	1	89	1	0	0	0	0	1	0	0	0	3874	1145	40	1	769	1	CRHR1	17	43907879	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	575234	43907879	37287331	5742	59573											
C17orf57	124989	broad.mit.edu	37	chr17	45455139	45455139	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgtatttagaaaacttCtgtgaagctatcagtaaact	13	16	7	5	0	2	2	1	1	1	1	2	2	2	2	0	0	3	3	0	0	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:45455139C>A	uc002iln.2	+	13	1791	c.1380C>A	c.(1378-1380)TTC>TTA	p.F460L	C17orf57_uc002ilm.2_Missense_Mutation_p.F364L|C17orf57_uc010daz.1_Missense_Mutation_p.F412L	NM_152347	NP_689560	Q8IY85	CQ057_HUMAN	hypothetical protein LOC124989	460							calcium ion binding			breast(1)|central_nervous_system(1)|skin(1)	3						TAGAAAACTTCTGTGAAGCTA	0.294													23	14					3.01185e-09	3.22946e-09	1	1	0		A	45455139	A	A	45455139	3	1	89	1	0	0	0	0	1	0	0	0	1868	912	32	5	1418	5	C17orf57	17	45455139	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1547260	45455139	35740071	5743	59574											
KPNB1	3837	broad.mit.edu	37	chr17	45734311	45734311	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttgtgcagagatcccagTaaaccagtggccagaactca	12	8	10	11	0	1	2	1	0	0	2	2	3	2	2	3	1	4	3	3	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:45734311T>C	uc002ilt.1	+	4	704	c.368T>C	c.(367-369)GTA>GCA	p.V123A	KPNB1_uc010wkw.1_5'UTR|KPNB1_uc010wkx.1_5'UTR	NM_002265	NP_002256	Q14974	IMB1_HUMAN	karyopherin beta 1	123					DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|protein import into nucleus, translocation|ribosomal protein import into nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein domain specific binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						GAGATCCCAGTAAACCAGTGG	0.493													19	40					0	0	1	0	0		C	45734311	C	C	45734311	3	2	89	1	0	0	0	0	1	0	0	0	8451	1638	57	3	382	3	KPNB1	17	45734311	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	279172	45734311	35460899	5744	59575											
TBX21	30009	broad.mit.edu	37	chr17	45822165	45822165	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccgcctggacccaactgTcaattccttgggggagatca	8	9	10	14	1	2	1	2	0	0	1	4	3	4	2	5	3	1	0	5	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:45822165T>C	uc002ilv.1	+	6	1252	c.1041T>C	c.(1039-1041)TGT>TGC	p.C347C		NM_013351	NP_037483	Q9UL17	TBX21_HUMAN	T-box 21	347					lymphocyte migration|multicellular organismal development|positive regulation of transcription, DNA-dependent|response to virus	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						GACCCAACTGTCAATTCCTTG	0.537													62	95					0	0	1	0	0		C	45822165	C	C	45822165	2	2	89	1	0	0	0	0	0	0	0	1	15682	1673	58	3		3	TBX21	17	45822165	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	87854	45822165	35373045	5745	59576											
CDK5RAP3	80279	broad.mit.edu	37	chr17	46058857	46058857	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccctgtgaacctgatgggaAcctctctgtgacaccctccg	7	9	10	15	1	1	3	0	3	1	0	3	4	2	4	5	1	2	0	5	1	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:46058857A>G	uc002imr.2	+	14	1594	c.1510A>G	c.(1510-1512)ACC>GCC	p.T504A	CDK5RAP3_uc010wlc.1_Missense_Mutation_p.T524A|CDK5RAP3_uc002imq.1_Intron|CDK5RAP3_uc002imu.2_Missense_Mutation_p.T348A|CDK5RAP3_uc002ims.2_Missense_Mutation_p.T417A|CDK5RAP3_uc002imv.2_Missense_Mutation_p.T348A|CDK5RAP3_uc002imw.2_Missense_Mutation_p.T346A|CDK5RAP3_uc002imx.2_Missense_Mutation_p.T279A	NM_176096	NP_788276	Q96JB5	CK5P3_HUMAN	CDK5 regulatory subunit associated protein 3	504					brain development|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation		neuronal Cdc2-like kinase binding				0						CCTGATGGGAACCTCTCTGTG	0.552													34	59					0	0	1	0	0		G	46058857	G	G	46058857	3	3	89	1	0	0	0	0	1	0	0	0	3150	43	2	3	1564	3	CDK5RAP3	17	46058857	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	236692	46058857	35136353	5746	59577											
IGF2BP1	10642	broad.mit.edu	37	chr17	47123723	47123723	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaaatcatcggacatttCtatgccagtcaggtacatat	13	12	8	8	1	3	1	2	1	1	0	4	2	3	2	1	2	2	1	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:47123723C>A	uc002iom.2	+	14	1963	c.1629C>A	c.(1627-1629)TTC>TTA	p.F543L	IGF2BP1_uc010dbj.2_Missense_Mutation_p.F404L	NM_006546	NP_006537	Q9NZI8	IF2B1_HUMAN	insulin-like growth factor 2 mRNA binding	543	Necessary for interaction with ELAVL4 and binding to TAU mRNA (By similarity).|KH 4.				CRD-mediated mRNA stabilization|negative regulation of translation|regulation of mRNA stability involved in response to stress	CRD-mediated mRNA stability complex|cytosol|dendritic spine|lamellipodium|nucleus|plasma membrane|stress granule	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			kidney(1)	1						TCGGACATTTCTATGCCAGTC	0.522													27	27					2.44723e-14	2.76215e-14	1	1	0		A	47123723	A	A	47123723	3	1	89	1	0	0	0	0	1	0	0	0	7589	912	32	5	1683	5	IGF2BP1	17	47123723	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1064866	47123723	34071487	5747	59578											
B4GALNT2	124872	broad.mit.edu	37	chr17	47243530	47243530	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcaccaccaaatacgttCtctgggtggacgatgatttt	10	12	10	9	2	2	1	1	1	1	0	3	3	2	2	2	3	1	1	2	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:47243530C>A	uc002ion.2	+	9	1248	c.1189C>A	c.(1189-1191)CTC>ATC	p.L397I	B4GALNT2_uc010wlt.1_Missense_Mutation_p.L311I|B4GALNT2_uc010wlu.1_Missense_Mutation_p.L337I	NM_153446	NP_703147	Q8NHY0	B4GN2_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 2	397	Lumenal (Potential).				lipid glycosylation|negative regulation of cell-cell adhesion|UDP-N-acetylgalactosamine metabolic process	integral to Golgi membrane	acetylgalactosaminyltransferase activity			large_intestine(1)|ovary(1)	2			all cancers(6;0.000316)			CAAATACGTTCTCTGGGTGGA	0.468													27	69					4.59853e-10	4.97375e-10	1	1	0		A	47243530	A	A	47243530	3	1	89	1	0	0	0	0	1	0	0	0	1268	913	32	5	1241	5	B4GALNT2	17	47243530	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	119807	47243530	33951680	5748	59579											
ZNF652	22834	broad.mit.edu	37	chr17	47388809	47388809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtacttgtactgaaacctttCgtcacagttctgcattggat	9	15	8	9	1	2	1	1	1	1	0	3	2	2	2	1	1	4	4	1	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:47388809C>T	uc002iov.3	-	5	1638	c.1174G>A	c.(1174-1176)GAA>AAA	p.E392K	ZNF652_uc002iow.2_Missense_Mutation_p.E392K|ZNF652_uc002iou.3_RNA	NM_001145365	NP_001138837	Q9Y2D9	ZN652_HUMAN	zinc finger protein 652	392	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_cancers(4;6.81e-14)|Breast(4;4.97e-29)|all_epithelial(4;1.53e-17)		BRCA - Breast invasive adenocarcinoma(1;3.1e-14)|Epithelial(5;2.92e-06)|all cancers(6;3.15e-05)			TGAAACCTTTCGTCACAGTTC	0.443													71	145					0	0	1	0	0		T	47388809	T	T	47388809	3	4	89	1	0	0	0	0	1	0	0	0	18090	893	31	1	654	1	ZNF652	17	47388809	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	145279	47388809	33806401	5749	59580											
SLC35B1	10237	broad.mit.edu	37	chr17	47785121	47785121	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaggatcccatagtaaaaAtagcagacaaagacacccag	18	5	8	10	0	0	2	0	0	0	2	1	3	1	3	2	1	2	3	2	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:47785121A>C	uc002iph.1	-	1	162	c.75T>G	c.(73-75)TAT>TAG	p.Y25*	SLC35B1_uc002ipi.1_5'UTR|SLC35B1_uc002ipj.1_Intron|SLC35B1_uc010wly.1_Nonsense_Mutation_p.Y25*	NM_005827	NP_005818	P78383	S35B1_HUMAN	solute carrier family 35, member B1	25	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome	UDP-galactose transmembrane transporter activity				0						CATAGTAAAAATAGCAGACAA	0.637											OREG0024545	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	25					0	0	1	0	0		C	47785121	C	C	47785121	4	2	89	1	0	0	0	0	0	1	0	0	14600	108	4	5	929	5	SLC35B1	17	47785121	Nonsense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	396312	47785121	33410089	5750	59581											
MYST2	11143	broad.mit.edu	37	chr17	47869397	47869398	+	Splice_Site	INS	-	A	A																															taagccagagttctcaaggtINSaaaaaaaccttcatttttcc																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:47869397_47869398insA	uc002ipm.2	+	2	289	c.163_splice	c.e2+2	p.D55_splice	MYST2_uc002ipl.1_Splice_Site_p.D55_splice|MYST2_uc010wma.1_Splice_Site_p.G55_splice|MYST2_uc010wmb.1_Splice_Site_p.D55_splice|MYST2_uc010wmc.1_Splice_Site_p.G55_splice|MYST2_uc010wmd.1_Splice_Site|MYST2_uc010wme.1_Splice_Site	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2						DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						GTTCTCAAGGTAAAAAAACCTT	0.495													14	29	---	---	---	---						.	A	47869398	A	A	47869397	8	5	89	1	0	1	1	0	0	0	1	0	10121	1652	57	0	171	0	MYST2	17	47869397	Splice_Site	INS	-	TCGA-BR-8680-01A-11D-2394-08	84276	47869397	33325813	5751	59582											
MYST2	11143	broad.mit.edu	37	chr17	47874139	47874139	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgttcgaaatctgcagtCttttggcactgaggagcctg	7	13	11	10	1	2	1	0	1	2	0	4	3	3	2	2	2	2	3	2	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:47874139C>A	uc002ipm.2	+	3	317	c.191C>A	c.(190-192)TCT>TAT	p.S64Y	MYST2_uc002ipl.1_Missense_Mutation_p.S64Y|MYST2_uc010wma.1_Intron|MYST2_uc010wmb.1_Missense_Mutation_p.S64Y|MYST2_uc010wmc.1_Intron|MYST2_uc010wmd.1_5'UTR|MYST2_uc010wme.1_5'UTR	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2	64					DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						AATCTGCAGTCTTTTGGCACT	0.418													55	101					1.46156e-29	1.78357e-29	1	1	0		A	47874139	A	A	47874139	3	1	89	1	0	0	0	0	1	0	0	0	10121	913	32	5	201	5	MYST2	17	47874139	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4742	47874139	33321071	5752	59583											
MYST2	11143	broad.mit.edu	37	chr17	47893237	47893237	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcgagtatgacttggatCttttccgaagagcacaagcc	12	9	10	10	2	1	2	0	1	1	1	2	5	2	3	2	1	3	2	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:47893237C>A	uc002ipm.2	+	8	1051	c.925C>A	c.(925-927)CTT>ATT	p.L309I	MYST2_uc002ipl.1_Missense_Mutation_p.L279I|MYST2_uc010wma.1_Missense_Mutation_p.L170I|MYST2_uc010wmb.1_Missense_Mutation_p.L199I|MYST2_uc010wmc.1_Missense_Mutation_p.L140I|MYST2_uc010wmd.1_Missense_Mutation_p.L153I|MYST2_uc010wme.1_Missense_Mutation_p.L123I|MYST2_uc010wmf.1_5'UTR|MYST2_uc010wmg.1_5'UTR	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2	309					DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						TGACTTGGATCTTTTCCGAAG	0.468													33	48					9.65963e-10	1.04203e-09	1	1	0		A	47893237	A	A	47893237	3	1	89	1	0	0	0	0	1	0	0	0	10121	913	32	5	955	5	MYST2	17	47893237	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19098	47893237	33301973	5753	59584											
DLX3	1747	broad.mit.edu	37	chr17	48070831	48070831	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcgccaggtactgggccTtctggaagcggcgctgcagg	6	6	17	12	3	1	0	0	0	1	0	1	1	1	1	2	5	4	4	2	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:48070831T>G	uc002ipy.2	-	2	675	c.449A>C	c.(448-450)AAG>ACG	p.K150T		NM_005220	NP_005211	O60479	DLX3_HUMAN	distal-less homeobox 3	150	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GTACTGGGCCTTCTGGAAGCG	0.687													7	19					0	0	1	0	0		G	48070831	G	G	48070831	3	3	89	1	0	0	0	0	1	0	0	0	4578	1609	56	5	422	5	DLX3	17	48070831	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	177594	48070831	33124379	5754	59585											
ACSF2	80221	broad.mit.edu	37	chr17	48538054	48538054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagttccagagaggtggatCgcatggtctccacgcccatc	9	8	11	13	2	1	1	0	0	1	1	5	3	2	2	3	3	0	2	3	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:48538054C>T	uc002iqu.2	+	2	249	c.145C>T	c.(145-147)CGC>TGC	p.R49C	ACSF2_uc010wml.1_Missense_Mutation_p.R49C|ACSF2_uc010wmm.1_Missense_Mutation_p.R74C|ACSF2_uc010wmn.1_Missense_Mutation_p.R49C|ACSF2_uc010wmo.1_Intron	NM_025149	NP_079425	Q96CM8	ACSF2_HUMAN	acyl-CoA synthetase family member 2 precursor	49					fatty acid metabolic process	mitochondrion	ATP binding|ligase activity				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			AGAGGTGGATCGCATGGTCTC	0.587													10	20					0	0	1	0	0		T	48538054	T	T	48538054	3	4	89	1	0	0	0	0	1	0	0	0	175	884	31	1	151	1	ACSF2	17	48538054	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	467223	48538054	32657156	5755	59586											
ACSF2	80221	broad.mit.edu	37	chr17	48551589	48551589	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcaagattccgaagtacatCgtgtttgtcacaaactaccc	12	12	6	11	2	2	1	2	0	0	1	4	2	3	1	2	0	3	2	2	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:48551589C>T	uc002iqu.2	+	15	1862	c.1758C>T	c.(1756-1758)ATC>ATT	p.I586I	ACSF2_uc010wml.1_Silent_p.I543I|ACSF2_uc010wmm.1_Silent_p.I611I|ACSF2_uc010wmn.1_Silent_p.I573I|ACSF2_uc010wmo.1_Silent_p.I426I|ACSF2_uc010dbt.1_Silent_p.I90I	NM_025149	NP_079425	Q96CM8	ACSF2_HUMAN	acyl-CoA synthetase family member 2 precursor	586					fatty acid metabolic process	mitochondrion	ATP binding|ligase activity				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			CGAAGTACATCGTGTTTGTCA	0.592													21	153					0	0	1	0	0		T	48551589	T	T	48551589	2	4	89	1	0	0	0	0	0	0	0	1	175	874	31	1		1	ACSF2	17	48551589	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13535	48551589	32643621	5756	59587											
ANKRD40	91369	broad.mit.edu	37	chr17	48773432	48773432	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggatgcagcatttctgaacaGaaaattattttcacttatca	14	14	6	7	0	3	2	2	1	1	1	3	3	3	3	0	1	3	2	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:48773432G>A	uc002iso.2	-	5	1288	c.1033C>T	c.(1033-1035)CTG>TTG	p.L345L		NM_052855	NP_443087	Q6AI12	ANR40_HUMAN	ankyrin repeat domain 40	345											0			BRCA - Breast invasive adenocarcinoma(22;2.03e-09)			TTTCTGAACAGAAAATTATTT	0.388													42	65					0	0	1	0	0		A	48773432	A	A	48773432	2	1	89	1	0	0	0	0	0	0	0	1	669	933	33	4		4	ANKRD40	17	48773432	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	221843	48773432	32421778	5757	59588											
MBTD1	54799	broad.mit.edu	37	chr17	49280149	49280149	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggcaccagaagtcatctgTtctatcttcgctttcttcat	8	16	6	11	1	6	1	2	0	4	1	7	1	6	1	1	1	0	3	1	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:49280149T>C	uc002itr.3	-	10	1320	c.976A>G	c.(976-978)ACA>GCA	p.T326A	MBTD1_uc002itp.3_Missense_Mutation_p.T162A|MBTD1_uc002itq.3_Missense_Mutation_p.T326A	NM_017643	NP_060113	Q05BQ5	MBTD1_HUMAN	mbt domain containing 1	326	MBT 2.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(22;1.54e-08)			AAGTCATCTGTTCTATCTTCG	0.423													91	129					0	0	1	0	0		C	49280149	C	C	49280149	3	2	89	1	0	0	0	0	1	0	0	0	9378	1725	60	3	942	3	MBTD1	17	49280149	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	506717	49280149	31915061	5758	59589											
TMEM100	55273	broad.mit.edu	37	chr17	53798220	53798220	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtaagccaccgcggtgAccacgatgccggcgatgaag	10	5	14	12	5	0	2	0	2	0	0	0	4	0	2	4	2	3	2	4	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:53798220A>G	uc002iuj.3	-	2	523	c.212T>C	c.(211-213)GTC>GCC	p.V71A	TMEM100_uc002iuk.3_Missense_Mutation_p.V71A	NM_018286	NP_060756	Q9NV29	TM100_HUMAN	transmembrane protein 100	71	Helical; (Potential).					integral to membrane					0						CACCGCGGTGACCACGATGCC	0.527													39	104					0	0	1	0	0		G	53798220	G	G	53798220	3	3	89	1	0	0	0	0	1	0	0	0	16040	275	10	3	196	3	TMEM100	17	53798220	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	4518071	53798220	27396990	5759	59590											
COIL	8161	broad.mit.edu	37	chr17	55038341	55038341	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagctggcggcgggtaatCaaattgaagccgtagcctaa	11	8	14	8	3	1	1	1	1	0	0	1	1	1	1	2	4	3	4	2	4	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:55038341C>A	uc002iuu.2	-	1	71	c.40G>T	c.(40-42)GAT>TAT	p.D14Y		NM_004645	NP_004636	P38432	COIL_HUMAN	coilin	14						Cajal body|nucleolus	protein C-terminus binding			ovary(1)	1	Breast(9;6.15e-08)					GGCGGGTAATCAAATTGAAGC	0.587											OREG0024594	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	47					1.08611e-07	1.14333e-07	1	1	0		A	55038341	A	A	55038341	3	1	89	1	0	0	0	0	1	0	0	0	3668	826	29	5	1718	5	COIL	17	55038341	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1240121	55038341	26156869	5760	59591											
DYNLL2	140735	broad.mit.edu	37	chr17	56166549	56166549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggcattgtatcgtgggccGaaattttggcagctacgtca	8	12	12	9	3	1	0	1	0	0	0	2	1	1	0	1	3	2	4	1	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:56166549G>A	uc010wnn.1	+	3	453	c.179G>A	c.(178-180)CGA>CAA	p.R60Q		NM_080677	NP_542408	Q96FJ2	DYL2_HUMAN	dynein, light chain, LC8-type 2	60					activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals|microtubule-based process|transport	centrosome|cytosol|dynein complex|microtubule|myosin complex|plasma membrane	motor activity				0						ATCGTGGGCCGAAATTTTGGC	0.433													40	78					0	0	1	0	0		A	56166549	A	A	56166549	3	1	89	1	0	0	0	0	1	0	0	0	4855	1058	37	1	185	1	DYNLL2	17	56166549	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1128208	56166549	25028661	5761	59592											
OR4D1	26689	broad.mit.edu	37	chr17	56232801	56232801	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caagacgatctcctaccaggGctgcatggcccagatcttct	9	9	9	14	1	3	2	0	0	3	2	4	3	3	2	3	2	2	2	3	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:56232801G>A	uc010wno.1	+	1	287	c.287G>A	c.(286-288)GGC>GAC	p.G96D	MSX2P1_uc002ivn.2_5'Flank	NM_012374	NP_036506	Q15615	OR4D1_HUMAN	olfactory receptor, family 4, subfamily D,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TCCTACCAGGGCTGCATGGCC	0.522													53	86					0	0	1	0	0		A	56232801	A	A	56232801	3	1	89	1	0	0	0	0	1	0	0	0	11072	1203	42	2	289	2	OR4D1	17	56232801	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	66252	56232801	24962409	5762	59593											
OR4D2	124538	broad.mit.edu	37	chr17	56247046	56247046	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaacctcacgtgggtatcAgactttgtcttcctggggct	6	12	13	10	1	3	1	2	0	1	1	4	2	4	2	2	4	1	2	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:56247046A>C	uc010wnp.1	+	1	30	c.30A>C	c.(28-30)TCA>TCC	p.S10S		NM_001004707	NP_001004707	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						CGTGGGTATCAGACTTTGTCT	0.468													52	121					0	0	1	0	0		C	56247046	C	C	56247046	2	2	89	1	0	0	0	0	0	0	0	1	11075	175	7	5		5	OR4D2	17	56247046	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	14245	56247046	24948164	5763	59594											
MPO	4353	broad.mit.edu	37	chr17	56348199	56348199	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcgctgctgcatgctgaAcacaccctcgttctcccacc	6	10	7	18	2	1	1	0	1	1	0	4	1	1	1	3	0	4	5	3	0	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:56348199A>G	uc002ivu.1	-	12	2233	c.2056T>C	c.(2056-2058)TTC>CTC	p.F686L		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	686					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	TGCATGCTGAACACACCCTCG	0.567													7	46					0	0	1	0	0		G	56348199	G	G	56348199	3	3	89	1	0	0	0	0	1	0	0	0	9750	43	2	3	185	3	MPO	17	56348199	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	101153	56348199	24847011	5764	59595											
MTMR4	9110	broad.mit.edu	37	chr17	56586131	56586131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaagaggtcttcaggcttgGcaggtcttgctgtggctcgg	6	11	15	9	1	3	1	1	0	2	1	4	1	3	1	0	6	1	4	0	6	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:56586131G>A	uc002iwj.2	-	6	475	c.365C>T	c.(364-366)GCC>GTC	p.A122V		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	122						cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TTCAGGCTTGGCAGGTCTTGC	0.592													23	34					0	0	1	0	0		A	56586131	A	A	56586131	3	1	89	1	0	0	0	0	1	0	0	0	9964	1203	42	2	3278	2	MTMR4	17	56586131	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	237932	56586131	24609079	5765	59596											
SEPT4	5414	broad.mit.edu	37	chr17	56598158	56598158	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctggatctgtccctggtggGacagcagggatggggaagtc	7	9	17	8	0	2	0	0	0	2	0	4	4	3	4	1	6	1	1	1	6	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:56598158G>A	uc002iwm.1	-	11	1451	c.1323C>T	c.(1321-1323)GTC>GTT	p.V441V	MTMR4_uc002iwj.2_5'Flank|SEPT4_uc002iwk.1_Silent_p.V294V|SEPT4_uc010wnw.1_Silent_p.V294V|SEPT4_uc002iwl.1_Silent_p.V294V|SEPT4_uc002iwn.1_Silent_p.V342V|SEPT4_uc002iwo.1_Silent_p.V422V|SEPT4_uc002iwp.1_3'UTR|SEPT4_uc010wnx.1_Silent_p.V456V|SEPT4_uc010wny.1_Silent_p.V433V|SEPT4_uc010dcy.1_3'UTR	NM_004574	NP_004565	O43236	SEPT4_HUMAN	septin 4 isoform 1	441					apoptosis|cell cycle|cytokinesis|regulation of apoptosis	cytoskeleton|mitochondrion|nucleus	GTP binding|GTPase activity|protein binding|structural molecule activity				0	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TCCCTGGTGGGACAGCAGGGA	0.527											OREG0024614	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	62	133					0	0	1	0	0		A	56598158	A	A	56598158	2	1	89	1	0	0	0	0	0	0	0	1	14091	1161	41	4		4	SEPT4	17	56598158	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12027	56598158	24597052	5766	59597											
C17orf47	284083	broad.mit.edu	37	chr17	56620179	56620179	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttaaaaccggacaataaaaGatctagggaaggagagcact	18	7	10	6	1	1	2	0	0	1	2	1	5	1	4	1	3	2	1	1	3	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:56620179G>A	uc002iwq.1	-	1	1505	c.1369C>T	c.(1369-1371)CTT>TTT	p.L457F	SEPT4_uc010wnx.1_5'Flank|SEPT4_uc010wny.1_5'Flank	NM_001038704	NP_001033793	Q8NEP4	CQ047_HUMAN	hypothetical protein LOC284083	457										breast(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GACAATAAAAGATCTAGGGAA	0.478													61	162					0	0	1	0	0		A	56620179	A	A	56620179	3	1	89	1	0	0	0	0	1	0	0	0	1861	942	33	4	351	4	C17orf47	17	56620179	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	22021	56620179	24575031	5767	59598											
PPM1E	22843	broad.mit.edu	37	chr17	57043102	57043102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtcttcagcaaactacacGagatttgctgcagctgggtg	9	11	11	10	1	2	1	1	0	1	1	2	2	2	1	0	1	6	4	0	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:57043102G>A	uc002iwx.2	+	3	758	c.631G>A	c.(631-633)GAG>AAG	p.E211K	PPM1E_uc010ddd.2_Intron	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	220					protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			CAAACTACACGAGATTTGCTG	0.458													125	193					0	0	1	0	0		A	57043102	A	A	57043102	3	1	89	1	0	0	0	0	1	0	0	0	12360	1059	37	1	641	1	PPM1E	17	57043102	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	422923	57043102	24152108	5768	59599											
C17orf71	55181	broad.mit.edu	37	chr17	57288596	57288596	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaactttcctttcacattgAcagcagcagttccagttctt	10	14	5	12	0	2	1	1	1	1	0	4	1	4	1	2	0	3	4	2	0	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:57288596A>G	uc002ixi.2	+	1	1226	c.1184A>G	c.(1183-1185)GAC>GGC	p.D395G		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	395					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					TTTCACATTGACAGCAGCAGT	0.512													37	68					0	0	1	0	0		G	57288596	G	G	57288596	3	3	89	1	0	0	0	0	1	0	0	0	1881	275	10	3	1186	3	C17orf71	17	57288596	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	245494	57288596	23906614	5769	59600											
C17orf71	55181	broad.mit.edu	37	chr17	57288693	57288693	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttctaagcaagaaaggtttCgatgacagtgtgggcaggaa	13	9	14	5	1	1	2	0	1	1	1	2	4	1	3	0	3	1	4	0	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:57288693C>T	uc002ixi.2	+	1	1323	c.1281C>T	c.(1279-1281)TTC>TTT	p.F427F		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	427					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					AGAAAGGTTTCGATGACAGTG	0.473													29	60					0	0	1	0	0		T	57288693	T	T	57288693	2	4	89	1	0	0	0	0	0	0	0	1	1881	883	31	1		1	C17orf71	17	57288693	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	97	57288693	23906517	5770	59601											
GDPD1	284161	broad.mit.edu	37	chr17	57344492	57344492	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttgccctttgtgcccattCgagaacagttttttgaaatc	8	16	7	10	1	1	2	0	1	1	1	3	3	1	2	2	0	3	1	2	0	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:57344492C>T	uc002ixk.1	+	7	804	c.667C>T	c.(667-669)CGA>TGA	p.R223*	GDPD1_uc002ixj.2_Nonsense_Mutation_p.R223*	NM_182569	NP_872375	Q8N9F7	GDPD1_HUMAN	glycerophosphodiester phosphodiesterase domain	223	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	cytoplasm|integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					TGTGCCCATTCGAGAACAGTT	0.358													44	54					0	0	1	0	0		T	57344492	T	T	57344492	4	4	89	1	0	0	0	0	0	1	0	0	6338	876	31	1	693	1	GDPD1	17	57344492	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	55799	57344492	23850718	5771	59602											
CLTC	1213	broad.mit.edu	37	chr17	57760277	57760277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttattctaggtctgcttcGcctgtgtagatgggaaagaa	9	14	12	6	1	2	2	0	0	2	2	3	3	2	3	1	2	1	3	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:57760277G>A	uc002ixq.1	+	24	4218	c.3775G>A	c.(3775-3777)GCC>ACC	p.A1259T	CLTC_uc002ixp.2_Missense_Mutation_p.A1259T|CLTC_uc002ixr.1_Missense_Mutation_p.A1263T	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	1259	Heavy chain arm.|Proximal segment.|Involved in binding clathrin light chain (By similarity).				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					GGTCTGCTTCGCCTGTGTAGA	0.343			T	ALK|TFE3	ALCL|renal 								33	63					0	0	1	0	0		A	57760277	A	A	57760277	3	1	89	1	0	0	0	0	1	0	0	0	3569	1087	38	1	3869	1	CLTC	17	57760277	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	415785	57760277	23434933	5772	59603											
PTRH2	51651	broad.mit.edu	37	chr17	57775206	57775206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctgtgtgtgtcttgctcGtcttgcttttggggagcatc	3	18	12	8	1	3	0	0	0	3	0	5	1	3	1	0	2	3	3	0	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:57775206G>A	uc002ixt.2	-	2	259	c.134C>T	c.(133-135)ACG>ATG	p.T45M	PTRH2_uc002ixs.2_RNA	NM_016077	NP_057161	Q9Y3E5	PTH2_HUMAN	Bcl-2 inhibitor of transcription precursor	45					apoptosis|translation	mitochondrion	aminoacyl-tRNA hydrolase activity				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TGTCTTGCTCGTCTTGCTTTT	0.507													29	56					0	0	1	0	0		A	57775206	A	A	57775206	3	1	89	1	0	0	0	0	1	0	0	0	12842	1145	40	1	409	1	PTRH2	17	57775206	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14929	57775206	23420004	5773	59604											
TUBD1	51174	broad.mit.edu	37	chr17	57955475	57955475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacaaatacctagtggatttCgtctgtagtgaaatgagctt	12	13	10	6	1	1	2	0	2	1	0	2	4	1	3	1	1	2	2	1	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:57955475C>T	uc002ixw.1	-	5	1036	c.758G>A	c.(757-759)CGA>CAA	p.R253Q	TUBD1_uc010ddf.1_Missense_Mutation_p.R253Q|TUBD1_uc010ddg.1_Missense_Mutation_p.R218Q|TUBD1_uc010ddh.1_Missense_Mutation_p.R134Q|TUBD1_uc010wok.1_Missense_Mutation_p.R253Q|TUBD1_uc002ixx.1_Missense_Mutation_p.R253Q|TUBD1_uc010wol.1_Missense_Mutation_p.R37Q|TUBD1_uc010ddi.1_Intron	NM_016261	NP_057345	Q9UJT1	TBD_HUMAN	delta-tubulin	253					cell differentiation|microtubule-based movement|multicellular organismal development|protein polymerization|spermatogenesis	centriole|microtubule|nucleus	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1	all_cancers(5;3.18e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;9.34e-13)|all cancers(12;1.91e-11)			TAGTGGATTTCGTCTGTAGTG	0.408													24	46					0	0	1	0	0		T	57955475	T	T	57955475	3	4	89	1	0	0	0	0	1	0	0	0	16788	884	31	1	623	1	TUBD1	17	57955475	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	180269	57955475	23239735	5774	59605											
HEATR6	63897	broad.mit.edu	37	chr17	58143671	58143671	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaccagtagccataaaGaacttttttttctatcgatt	12	15	6	8	1	1	2	0	1	1	1	2	3	1	2	2	0	3	2	2	0	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:58143671G>T	uc002iyk.1	-	9	1332	c.1315C>A	c.(1315-1317)CTT>ATT	p.L439I	HEATR6_uc010ddk.1_5'UTR|HEATR6_uc010wos.1_Missense_Mutation_p.L271I	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	439							binding			ovary(1)|skin(1)	2	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			TAGCCATAAAGAACTTTTTTT	0.388													24	41					1.10923e-09	1.19438e-09	1	1	0		T	58143671	T	T	58143671	3	4	89	1	0	0	0	0	1	0	0	0	7049	942	33	5	2278	5	HEATR6	17	58143671	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	188196	58143671	23051539	5775	59606											
USP32	84669	broad.mit.edu	37	chr17	58258686	58258686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catataataaaccacttaccGaaattgcatatagattataa	19	12	3	7	1	0	1	0	0	0	1	0	2	0	1	2	0	3	1	2	0	10	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:58258686G>A	uc002iyo.1	-	32	4833	c.4547C>T	c.(4546-4548)TCG>TTG	p.S1516L	USP32_uc002iyn.1_Missense_Mutation_p.S1186L	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	1516					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			ACCACTTACCGAAATTGCATA	0.363													33	62					0	0	1	0	0		A	58258686	A	A	58258686	3	1	89	1	0	0	0	0	1	0	0	0	17089	1072	37	1	279	1	USP32	17	58258686	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	115015	58258686	22936524	5776	59607											
USP32	84669	broad.mit.edu	37	chr17	58260766	58260766	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatttgacaattttctgtgAttttatccaccgaccattta	12	17	4	8	1	1	2	0	2	1	0	2	3	2	2	3	0	0	0	3	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:58260766A>G	uc002iyo.1	-	31	4169	c.3883T>C	c.(3883-3885)TCA>CCA	p.S1295P	USP32_uc002iyn.1_Missense_Mutation_p.S965P	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	1295					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			ATTTTCTGTGATTTTATCCAC	0.398													27	67					0	0	1	0	0		G	58260766	G	G	58260766	3	3	89	1	0	0	0	0	1	0	0	0	17089	333	12	3	947	3	USP32	17	58260766	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2080	58260766	22934444	5777	59608											
USP32	84669	broad.mit.edu	37	chr17	58346875	58346875	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacaggatatctccttaaaAtctatgtgattgtcacgatt	12	14	6	9	1	3	1	1	1	2	0	4	3	3	2	2	1	0	0	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:58346875A>C	uc002iyo.1	-	7	1033	c.747T>G	c.(745-747)GAT>GAG	p.D249E	USP32_uc010wov.1_Missense_Mutation_p.D249E	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	249	EF-hand 2.|1 (Potential).				protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			TCTCCTTAAAATCTATGTGAT	0.363													21	40					0	0	1	0	0		C	58346875	C	C	58346875	3	2	89	1	0	0	0	0	1	0	0	0	17089	98	4	5	4179	5	USP32	17	58346875	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	86109	58346875	22848335	5778	59609											
PPM1D	8493	broad.mit.edu	37	chr17	58740750	58740750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgatgaagaagcatagacGaaatggcttaagtcgaagta	16	8	11	6	2	0	4	0	2	0	2	1	6	0	4	1	1	1	3	1	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:58740750G>A	uc002iyt.1	+	6	1877	c.1655G>A	c.(1654-1656)CGA>CAA	p.R552Q	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	552					negative regulation of cell proliferation|protein dephosphorylation|response to radiation	nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein binding|protein serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)			AAGCATAGACGAAATGGCTTA	0.468											OREG0031485	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	33	70					0	0	1	0	0		A	58740750	A	A	58740750	3	1	89	1	0	0	0	0	1	0	0	0	12359	1058	37	1	1677	1	PPM1D	17	58740750	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	393875	58740750	22454460	5779	59610											
TBX2	6909	broad.mit.edu	37	chr17	59479294	59479294	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgaagctgaccaacaacatCtctgacaagcacggcttcgt	12	8	8	13	2	1	3	0	3	1	0	3	3	1	3	1	1	4	3	1	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:59479294C>T	uc010wox.1	+	2	926	c.645C>T	c.(643-645)ATC>ATT	p.I215I	TBX2_uc002ize.2_Silent_p.I205I|TBX2_uc002izg.2_Silent_p.I61I	NM_005994	NP_005985	Q13207	TBX2_HUMAN	T-box 2	215	T-box.				cell aging|positive regulation of cell proliferation		sequence-specific DNA binding				0						CCAACAACATCTCTGACAAGC	0.612													23	42					0	0	1	0	0		T	59479294	T	T	59479294	2	4	89	1	0	0	0	0	0	0	0	1	15680	903	32	4		4	TBX2	17	59479294	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	738544	59479294	21715916	5780	59611											
C17orf82	388407	broad.mit.edu	37	chr17	59489455	59489455	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctccccctccttcgctgTccttggccccgaggtgcgga	2	11	10	18	3	0	0	0	0	0	0	5	2	4	1	7	3	1	1	7	3	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:59489455T>C	uc002izh.1	+	1	344	c.119T>C	c.(118-120)GTC>GCC	p.V40A		NM_203425	NP_982249	Q86X59	CQ082_HUMAN	hypothetical protein LOC388407	40											0						TCCTTCGCTGTCCTTGGCCCC	0.697											OREG0024630	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	26					0	0	1	0	0		C	59489455	C	C	59489455	3	2	89	1	0	0	0	0	1	0	0	0	1890	1667	58	3	121	3	C17orf82	17	59489455	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	10161	59489455	21705755	5781	59612											
BRIP1	83990	broad.mit.edu	37	chr17	59763410	59763410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcctgtatattggttctgtCctttatggatacattaagaa	10	17	8	6	0	1	1	0	0	1	1	3	2	3	2	2	2	1	2	2	2	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:59763410C>T	uc002izk.1	-	19	2833	c.2692G>A	c.(2692-2694)GAC>AAC	p.D898N	BRIP1_uc002izl.1_Missense_Mutation_p.D279N	NM_032043	NP_114432	Q9BX63	FANCJ_HUMAN	BRCA1 interacting protein C-terminal helicase 1	898	Interaction with BRCA1.				DNA damage checkpoint|double-strand break repair|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(1)	1						TTGGTTCTGTCCTTTATGGAT	0.398			F|N|Mis			AML|leukemia|breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				58	121					0	0	1	0	0		T	59763410	T	T	59763410	3	4	89	1	0	0	0	0	1	0	0	0	1517	855	30	4	1065	4	BRIP1	17	59763410	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	273955	59763410	21431800	5782	59613											
INTS2	57508	broad.mit.edu	37	chr17	59945352	59945352	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcataaaaaaagcatacCgcttagcctgtgttaaaact	15	11	7	8	1	0	0	0	0	0	0	0	0	0	0	2	1	4	4	2	1	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:59945352C>T	uc002izn.2	-	24	3363	c.3287G>A	c.(3286-3288)CGG>CAG	p.R1096Q	INTS2_uc002izm.2_Missense_Mutation_p.R1088Q	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	1096					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						AAAAGCATACCGCTTAGCCTG	0.338													11	27					0	0	1	0	0		T	59945352	T	T	59945352	3	4	89	1	0	0	0	0	1	0	0	0	7794	652	23	1	335	1	INTS2	17	59945352	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	181942	59945352	21249858	5783	59614											
MED13	9969	broad.mit.edu	37	chr17	60038340	60038340	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacagtatcccacaaaaaGaacattatatttctgtccag	17	11	4	9	0	1	1	0	0	1	1	3	1	3	1	2	0	2	1	2	0	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:60038340G>T	uc002izo.2	-	23	5445	c.5368C>A	c.(5368-5370)CTT>ATT	p.L1790I		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	1790					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						CCCACAAAAAGAACATTATAT	0.373													27	52					1.33986e-20	1.58318e-20	1	1	0		T	60038340	T	T	60038340	3	4	89	1	0	0	0	0	1	0	0	0	9448	942	33	5	1188	5	MED13	17	60038340	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	92988	60038340	21156870	5784	59615											
MED13	9969	broad.mit.edu	37	chr17	60042387	60042387	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttcagacacatcaggatgCggctgagtgggaagtgaaga	12	8	14	7	1	2	4	2	2	0	2	2	6	2	6	0	3	1	1	0	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:60042387C>T	uc002izo.2	-	20	4901	c.4824G>A	c.(4822-4824)CCG>CCA	p.P1608P		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	1608					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						CATCAGGATGCGGCTGAGTGG	0.363													14	37					0	0	1	0	0		T	60042387	T	T	60042387	2	4	89	1	0	0	0	0	0	0	0	1	9448	755	27	1		1	MED13	17	60042387	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4047	60042387	21152823	5785	59616											
EFCAB3	146779	broad.mit.edu	37	chr17	60484019	60484019	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaggatttatttaaatttCttgaagagctcaagagtaag	17	13	8	3	0	2	3	1	1	1	2	2	4	2	4	0	1	1	2	0	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:60484019C>A	uc002izu.1	+	7	745	c.667C>A	c.(667-669)CTT>ATT	p.L223I	EFCAB3_uc010wpc.1_Missense_Mutation_p.L275I	NM_173503	NP_775774	Q8N7B9	EFCB3_HUMAN	EF-hand calcium binding domain 3 isoform b	223							calcium ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(2;2.27e-11)			ATTTAAATTTCTTGAAGAGCT	0.393													14	28					0.000308642	0.000314477	1	1	0		A	60484019	A	A	60484019	3	1	89	1	0	0	0	0	1	0	0	0	4941	913	32	5	857	5	EFCAB3	17	60484019	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	441632	60484019	20711191	5786	59617											
MRC2	9902	broad.mit.edu	37	chr17	60741967	60741967	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcctggaggcccagggCgggcaggtcagagtcacccc	6	4	17	14	1	2	1	2	0	0	1	2	2	2	2	4	6	1	2	4	6	0	0	rs146205886		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:60741967C>T	uc002jad.2	+	2	579	c.177C>T	c.(175-177)GGC>GGT	p.G59G	MRC2_uc002jac.2_Silent_p.G59G	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	59	Extracellular (Potential).|Ricin B-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						AGGCCCAGGGCGGGCAGGTCA	0.617													34	83					0	0	1	0	0		T	60741967	T	T	60741967	2	4	89	1	0	0	0	0	0	0	0	1	9776	755	27	1		1	MRC2	17	60741967	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	257948	60741967	20453243	5787	59618											
TANC2	26115	broad.mit.edu	37	chr17	61278268	61278268	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggactgcagctatggggCtgttactagtccaacctcta	10	10	10	11	0	1	0	0	0	1	0	2	1	2	1	2	3	4	4	2	3	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:61278268C>T	uc002jal.3	+	5	520	c.497C>T	c.(496-498)GCT>GTT	p.A166V	TANC2_uc010wpe.1_Missense_Mutation_p.A76V	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	166							binding			ovary(2)	2						AGCTATGGGGCTGTTACTAGT	0.458													45	103					0	0	1	0	0		T	61278268	T	T	61278268	3	4	89	1	0	0	0	0	1	0	0	0	15570	797	28	2	515	2	TANC2	17	61278268	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	536301	61278268	19916942	5788	59619											
TANC2	26115	broad.mit.edu	37	chr17	61466084	61466084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtctttccatggcactggCgtctttacgaaatctctaca	9	13	8	11	2	3	0	0	0	3	0	5	1	4	0	1	3	2	1	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:61466084C>T	uc002jal.3	+	14	2581	c.2558C>T	c.(2557-2559)GCG>GTG	p.A853V	TANC2_uc010wpe.1_Missense_Mutation_p.A763V|TANC2_uc002jan.1_Missense_Mutation_p.A4V|TANC2_uc002jao.3_5'Flank|TANC2_uc002jam.1_Missense_Mutation_p.A220V	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	853	ANK 1.						binding			ovary(2)	2						ATGGCACTGGCGTCTTTACGA	0.333													6	8					0	0	1	0	0		T	61466084	T	T	61466084	3	4	89	1	0	0	0	0	1	0	0	0	15570	768	27	1	2612	1	TANC2	17	61466084	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	187816	61466084	19729126	5789	59620											
TACO1	51204	broad.mit.edu	37	chr17	61684818	61684818	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgaagaagaaaggaacgtTtttaaagtaagcatgaaaac	20	8	10	3	1	0	4	0	2	0	2	0	6	0	5	0	1	3	3	0	1	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:61684818T>G	uc002jbd.2	+	4	887	c.687T>G	c.(685-687)GTT>GTG	p.V229V		NM_016360	NP_057444	Q9BSH4	TACO1_HUMAN	translational activator of mitochondrially	229					regulation of translation	mitochondrion					0						AAAGGAACGTTTTTAAAGTAA	0.488													18	56					0	0	1	0	0		G	61684818	G	G	61684818	2	3	89	1	0	0	0	0	0	0	0	1	15529	1828	64	5		5	TACO1	17	61684818	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	218734	61684818	19510392	5790	59621											
FTSJ3	117246	broad.mit.edu	37	chr17	61902505	61902505	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagaatttactgtcaaccTtgtcaggggccaggaatcct	12	10	9	10	0	2	1	2	0	0	1	3	2	3	2	3	3	2	0	3	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:61902505T>G	uc002jbz.2	-	7	692	c.614A>C	c.(613-615)AAG>ACG	p.K205T	FTSJ3_uc002jca.2_Missense_Mutation_p.K205T|PSMC5_uc002jcb.2_5'Flank|PSMC5_uc010ddy.2_5'Flank|PSMC5_uc010ddz.2_5'Flank|PSMC5_uc002jcc.2_5'Flank|PSMC5_uc002jcd.2_5'Flank	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	205					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						ACTGTCAACCTTGTCAGGGGC	0.428													25	54					0	0	1	0	0		G	61902505	G	G	61902505	3	3	89	1	0	0	0	0	1	0	0	0	6103	1609	56	5	1985	5	FTSJ3	17	61902505	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	217687	61902505	19292705	5791	59622											
LRRC37A3	374819	broad.mit.edu	37	chr17	62892249	62892249	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtctcctgctgggtcggaGaagattcgacctccctagaa	8	9	13	11	2	1	3	0	0	1	3	5	5	2	3	3	3	1	1	3	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:62892249G>T	uc002jey.2	-	3	1658	c.1127C>A	c.(1126-1128)TCT>TAT	p.S376Y	LRRC37A3_uc010wqg.1_Intron|LRRC37A3_uc010wqf.1_Intron	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	376	Extracellular (Potential).					integral to membrane					0						CTGGGTCGGAGAAGATTCGAC	0.517													95	333					3.19965e-69	3.99261e-69	1	1	0		T	62892249	T	T	62892249	3	4	89	1	0	0	0	0	1	0	0	0	9011	942	33	5	3825	5	LRRC37A3	17	62892249	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	989744	62892249	18302961	5792	59623											
RGS9	8787	broad.mit.edu	37	chr17	63206625	63206625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctccaccctcccttttatgCggcgtcacctgcgctccagc	4	10	8	19	3	1	0	1	0	0	0	4	0	4	0	5	1	3	2	5	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:63206625C>T	uc002jfe.2	+	17	1419	c.1309C>T	c.(1309-1311)CGG>TGG	p.R437W	RGS9_uc010dem.2_Missense_Mutation_p.R434W|RGS9_uc002jfd.2_Missense_Mutation_p.R434W|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Missense_Mutation_p.R208W	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	437					intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						CCCTTTTATGCGGCGTCACCT	0.572													44	94					0	0	1	0	0		T	63206625	T	T	63206625	3	4	89	1	0	0	0	0	1	0	0	0	13338	759	27	1	1375	1	RGS9	17	63206625	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	314376	63206625	17988585	5793	59624											
CCDC46	201134	broad.mit.edu	37	chr17	63685267	63685267	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttcctgtgactccaattCtttgtgttgtaattttttct	5	22	6	8	0	2	1	0	1	2	0	4	1	4	1	2	0	0	3	2	0	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:63685267C>A	uc002jfl.2	-	24	2896	c.2677G>T	c.(2677-2679)GAA>TAA	p.E893*	CCDC46_uc010deo.2_Nonsense_Mutation_p.E564*|CCDC46_uc002jfm.2_Nonsense_Mutation_p.E893*|CCDC46_uc010dep.2_Nonsense_Mutation_p.E851*|CCDC46_uc002jfk.2_Nonsense_Mutation_p.E149*	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	893	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			GACTCCAATTCTTTGTGTTGT	0.323													27	40					6.38683e-12	7.03806e-12	1	1	0		A	63685267	A	A	63685267	4	1	89	1	0	0	0	0	0	1	0	0	2820	922	32	5	206	5	CCDC46	17	63685267	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	478642	63685267	17509943	5794	59625											
APOH	350	broad.mit.edu	37	chr17	64210746	64210746	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtacaccacagtggctttTttcacaggtactttacaaga	11	13	8	9	0	1	1	1	0	0	1	1	1	1	1	1	3	3	3	1	3	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:64210746T>G	uc002jfn.3	-	7	866	c.807A>C	c.(805-807)AAA>AAC	p.K269N		NM_000042	NP_000033	P02749	APOH_HUMAN	apolipoprotein H precursor	269	Sushi-like.				blood coagulation, intrinsic pathway|negative regulation of angiogenesis|negative regulation of blood coagulation|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of myeloid cell apoptosis|negative regulation of smooth muscle cell apoptosis|plasminogen activation|positive regulation of lipoprotein lipase activity|triglyceride metabolic process|triglyceride transport	cell surface|chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	eukaryotic cell surface binding|glycoprotein binding|heparin binding|lipoprotein lipase activator activity|phospholipid binding				0			BRCA - Breast invasive adenocarcinoma(6;9.74e-08)			CAGTGGCTTTTTTCACAGGTA	0.353													49	74					0	0	1	0	0		G	64210746	G	G	64210746	3	3	89	1	0	0	0	0	1	0	0	0	804	1838	64	5	238	5	APOH	17	64210746	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	525479	64210746	16984464	5795	59626											
PRKCA	5578	broad.mit.edu	37	chr17	64641554	64641554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgtccccagcctctgcGgaatggatcacactgagaag	11	8	10	12	1	3	1	2	1	1	1	4	4	4	3	3	2	2	0	3	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:64641554G>A	uc002jfp.1	+	5	498	c.454G>A	c.(454-456)GGA>AGA	p.G152R	PRKCA_uc002jfo.1_Missense_Mutation_p.G23R	NM_002737	NP_002728	P17252	KPCA_HUMAN	protein kinase C, alpha	152					activation of phospholipase C activity|energy reserve metabolic process|induction of apoptosis by extracellular signals|intracellular signal transduction|mRNA metabolic process|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of blood vessel endothelial cell migration|regulation of insulin secretion|response to interleukin-1|synaptic transmission	cytosol|endoplasmic reticulum|membrane fraction|nucleoplasm|plasma membrane	ATP binding|enzyme binding|histone kinase activity (H3-T6 specific)|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(1)|stomach(1)|lung(1)|breast(1)|ovary(1)	9			BRCA - Breast invasive adenocarcinoma(6;4.68e-09)		Phosphatidylserine(DB00144)|Vitamin E(DB00163)	CAGCCTCTGCGGAATGGATCA	0.522													38	48					0	0	1	0	0		A	64641554	A	A	64641554	3	1	89	1	0	0	0	0	1	0	0	0	12529	1117	39	1	472	1	PRKCA	17	64641554	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	430808	64641554	16553656	5796	59627											
CACNG5	27091	broad.mit.edu	37	chr17	64881136	64881136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgtacctgtttatgaagCggtacaccgcggaggacatg	9	10	13	9	3	0	1	0	1	0	0	0	3	0	3	2	3	3	3	2	3	4	4	rs142426129	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:64881136C>T	uc010wqi.1	+	6	844	c.607C>T	c.(607-609)CGG>TGG	p.R203W	CACNG5_uc010wqj.1_Missense_Mutation_p.R203W	NM_145811	NP_665810	Q9UF02	CCG5_HUMAN	voltage-dependent calcium channel gamma-5	203				SAGVMSVYLFMKRYTAEDMYRPHPGFYRPRLSNCSDYSGQF LHPDAWVRGRSPSDISSEASLQMNSNYPALLKCPDYDQMSS SPC -> VKPVTLSMDRLGLGTAPLSRGEWGWGRRDIPQPF WTPDHPLYFPSSSQNVSLSYLSGSPPARMSPGPCSCPHVHF PPHSSCVLCRPQPREMRQAPAASPSSAVFSL (in Ref. 1; AAF03089).	regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|postsynaptic density|postsynaptic membrane	voltage-gated calcium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(6;1.61e-08)			GTTTATGAAGCGGTACACCGC	0.612													21	60					0	0	1	0	0		T	64881136	T	T	64881136	3	4	89	1	0	0	0	0	1	0	0	0	2563	759	27	1	942	1	CACNG5	17	64881136	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	239582	64881136	16314074	5797	59628											
HELZ	9931	broad.mit.edu	37	chr17	65132142	65132142	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaccacagcaaccagggaTtgtgctcttgtgatggcagt	9	9	11	12	0	1	1	0	1	1	0	1	2	1	2	3	2	3	3	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:65132142T>G	uc010wqk.1	-	23	3316	c.3129A>C	c.(3127-3129)CAA>CAC	p.Q1043H	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.Q1042H	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					CAACCAGGGATTGTGCTCTTG	0.398													22	27					0	0	1	0	0		G	65132142	G	G	65132142	3	3	89	1	0	0	0	0	1	0	0	0	7065	1490	52	5	2746	5	HELZ	17	65132142	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	251006	65132142	16063068	5798	59629											
BPTF	2186	broad.mit.edu	37	chr17	65899998	65899998	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagaaacgatgcagcaagcGacatgggtaaaatacacatt	18	6	10	7	2	0	1	0	0	0	1	0	4	0	1	0	1	5	3	0	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:65899998G>A	uc002jgf.2	+	8	2698	c.2637G>A	c.(2635-2637)GCG>GCA	p.A879A	BPTF_uc002jge.2_Silent_p.A1005A|BPTF_uc010wqm.1_Silent_p.A942A	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1005	Potential.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TGCAGCAAGCGACATGGGTAA	0.249													21	46					0	0	1	0	0		A	65899998	A	A	65899998	2	1	89	1	0	0	0	0	0	0	0	1	1498	1045	37	1		1	BPTF	17	65899998	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	767856	65899998	15295212	5799	59630											
BPTF	2186	broad.mit.edu	37	chr17	65908574	65908574	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcagcatcttgtccagaaaGcaattcagttaatcaggtag	13	11	8	9	0	4	1	3	0	1	1	5	1	5	1	1	1	2	4	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:65908574G>T	uc002jgf.2	+	11	4635	c.4574G>T	c.(4573-4575)AGC>ATC	p.S1525I	BPTF_uc002jge.2_Missense_Mutation_p.S1651I	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1651					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TGTCCAGAAAGCAATTCAGTT	0.418													38	64					8.69298e-16	9.93761e-16	1	1	0		T	65908574	T	T	65908574	3	4	89	1	0	0	0	0	1	0	0	0	1498	971	34	5	5002	5	BPTF	17	65908574	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8576	65908574	15286636	5800	59631											
KPNA2	3838	broad.mit.edu	37	chr17	66033597	66033597	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacttctccgctgcaggaaAaccgcaacaaccaggtaaaa	15	6	7	13	2	1	0	0	0	1	0	2	1	1	1	3	2	5	4	3	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:66033597A>C	uc002jgk.2	+	3	331	c.199A>C	c.(199-201)AAC>CAC	p.N67H	KPNA2_uc002jgl.2_Missense_Mutation_p.N67H	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	67					DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			GCTGCAGGAAAACCGCAACAA	0.388													35	74					0	0	1	0	0		C	66033597	C	C	66033597	3	2	89	1	0	0	0	0	1	0	0	0	8446	14	1	5	205	5	KPNA2	17	66033597	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	125023	66033597	15161613	5801	59632											
KPNA2	3838	broad.mit.edu	37	chr17	66038403	66038403	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccatcccagcattcattTctctgttggcatctccccat	6	14	6	15	0	3	0	1	0	2	0	6	0	4	0	4	1	2	3	4	1	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:66038403T>C	uc002jgk.2	+	5	637	c.505T>C	c.(505-507)TCT>CCT	p.S169P	KPNA2_uc002jgl.2_Missense_Mutation_p.S169P	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	169	NLS binding site (major) (By similarity).|ARM 3.				DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			AGCATTCATTTCTCTGTTGGC	0.463													164	326					0	0	1	0	0		C	66038403	C	C	66038403	3	2	89	1	0	0	0	0	1	0	0	0	8446	1783	62	3	519	3	KPNA2	17	66038403	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4806	66038403	15156807	5802	59633											
AMZ2	51321	broad.mit.edu	37	chr17	66251928	66251928	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctccaaccacttggaaGaagctgaccggcgccctcta	11	6	10	14	2	1	2	0	1	1	1	2	3	2	3	4	3	2	2	4	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:66251928G>T	uc002jgs.1	+	7	955	c.838G>T	c.(838-840)GAA>TAA	p.E280*	AMZ2_uc002jgr.1_Nonsense_Mutation_p.E280*|AMZ2_uc002jgt.1_Nonsense_Mutation_p.E280*|AMZ2_uc002jgu.1_Nonsense_Mutation_p.E280*|AMZ2_uc002jgv.1_Nonsense_Mutation_p.E280*|AMZ2_uc002jgw.1_Nonsense_Mutation_p.E222*|AMZ2_uc002jgy.1_Nonsense_Mutation_p.E280*	NM_001033572	NP_001028744	Q86W34	AMZ2_HUMAN	archaemetzincins-2 isoform 1	280							metallopeptidase activity|zinc ion binding				0	all_cancers(12;1.12e-09)		BRCA - Breast invasive adenocarcinoma(8;3.17e-08)|LUSC - Lung squamous cell carcinoma(166;0.24)			CCACTTGGAAGAAGCTGACCG	0.493													27	61					4.87955e-14	5.4818e-14	1	1	0		T	66251928	T	T	66251928	4	4	89	1	0	0	0	0	0	1	0	0	597	943	33	5	856	5	AMZ2	17	66251928	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	213525	66251928	14943282	5803	59634											
SLC16A6	9120	broad.mit.edu	37	chr17	66267060	66267060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagaagacatcttctcaatgCccacgacatcatcctcagca	13	8	5	15	1	4	2	3	0	2	2	6	3	5	2	2	0	2	1	2	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:66267060C>T	uc002jgz.1	-	5	1429	c.1241G>A	c.(1240-1242)GGC>GAC	p.G414D	ARSG_uc002jhc.2_Intron|SLC16A6_uc002jha.1_Missense_Mutation_p.G414D	NM_004694	NP_004685	O15403	MOT7_HUMAN	solute carrier family 16, member 6	414	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity				0	all_cancers(12;1.24e-09)		BRCA - Breast invasive adenocarcinoma(8;3.17e-08)|LUSC - Lung squamous cell carcinoma(166;0.24)		Pyruvic acid(DB00119)	CTTCTCAATGCCCACGACATC	0.458													26	86					0	0	1	0	0		T	66267060	T	T	66267060	3	4	89	1	0	0	0	0	1	0	0	0	14437	739	26	2	338	2	SLC16A6	17	66267060	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	15132	66267060	14928150	5804	59635											
ABCA8	10351	broad.mit.edu	37	chr17	66913584	66913584	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcccttgggagagaaataCtttcctgtctgaaaaagaag	13	11	9	8	0	1	3	0	1	1	2	3	5	3	4	2	1	1	0	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:66913584C>A	uc002jhp.2	-	15	2115	c.1936G>T	c.(1936-1938)GTA>TTA	p.V646L	ABCA8_uc002jhq.2_Missense_Mutation_p.V686L|ABCA8_uc010wqq.1_Missense_Mutation_p.V686L|ABCA8_uc010wqr.1_Missense_Mutation_p.V625L|ABCA8_uc002jhr.2_Missense_Mutation_p.V686L	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	646	ABC transporter 1.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					GAGAGAAATACTTTCCTGTCT	0.378													53	96					1.63038e-21	1.9351e-21	1	1	0		A	66913584	A	A	66913584	3	1	89	1	0	0	0	0	1	0	0	0	38	565	20	5	2905	5	ABCA8	17	66913584	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	646524	66913584	14281626	5805	59636											
ABCA8	10351	broad.mit.edu	37	chr17	66925729	66925729	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatccatacaggagaaagagGctgaagactaccatgaagcc	17	5	10	9	0	0	5	0	2	0	3	1	6	1	5	3	2	3	1	3	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:66925729G>A	uc002jhp.2	-	7	1091	c.912C>T	c.(910-912)AGC>AGT	p.S304S	ABCA8_uc002jhq.2_Silent_p.S304S|ABCA8_uc010wqq.1_Silent_p.S304S|ABCA8_uc010wqr.1_Silent_p.S243S|ABCA8_uc002jhr.2_Silent_p.S304S	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	304	Helical; (Potential).					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					GGAGAAAGAGGCTGAAGACTA	0.378													31	43					0	0	1	0	0		A	66925729	A	A	66925729	2	1	89	1	0	0	0	0	0	0	0	1	38	1194	42	2		2	ABCA8	17	66925729	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12145	66925729	14269481	5806	59637											
ABCA9	10350	broad.mit.edu	37	chr17	67016572	67016572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttctttaactttaggaagcGaacttttgctattgcacaga	11	16	7	7	1	1	1	0	0	1	1	1	3	1	2	0	1	5	2	0	1	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:67016572G>A	uc002jhu.2	-	19	2700	c.2557C>T	c.(2557-2559)CGC>TGC	p.R853C	ABCA9_uc010dez.2_Missense_Mutation_p.R853C	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	853					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					TTTAGGAAGCGAACTTTTGCT	0.398													83	55					0	0	1	0	0		A	67016572	A	A	67016572	3	1	89	1	0	0	0	0	1	0	0	0	39	1058	37	1	2401	1	ABCA9	17	67016572	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	90843	67016572	14178638	5807	59638											
ABCA6	23460	broad.mit.edu	37	chr17	67083602	67083602	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggcttagcatctctactTtggggggaaattctatggag	8	15	12	6	0	2	0	0	0	2	0	3	2	2	2	0	5	2	2	0	5	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:67083602T>G	uc002jhw.1	-	29	3886	c.3711A>C	c.(3709-3711)CAA>CAC	p.Q1237H		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	1237					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					CATCTCTACTTTGGGGGGAAA	0.368													27	208					0	0	1	0	0		G	67083602	G	G	67083602	3	3	89	1	0	0	0	0	1	0	0	0	36	1838	64	5	1186	5	ABCA6	17	67083602	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	67030	67083602	14111608	5808	59639											
ABCA6	23460	broad.mit.edu	37	chr17	67084326	67084326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctgaaaacaggatcttttCgcattcttttctttccacat	10	16	4	11	1	3	1	0	1	3	0	5	2	4	2	2	1	1	1	2	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:67084326C>T	uc002jhw.1	-	28	3855	c.3680G>A	c.(3679-3681)CGA>CAA	p.R1227Q		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	1227					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					AGGATCTTTTCGCATTCTTTT	0.318													8	36					0	0	1	0	0		T	67084326	T	T	67084326	3	4	89	1	0	0	0	0	1	0	0	0	36	884	31	1	1221	1	ABCA6	17	67084326	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	724	67084326	14110884	5809	59640											
ABCA6	23460	broad.mit.edu	37	chr17	67101676	67101676	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagagagaaaatacaattcGtttttaaattcccaatcgat	16	12	7	6	2	0	2	0	0	0	2	3	5	1	2	1	1	1	1	1	1	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:67101676G>A	uc002jhw.1	-	20	2842	c.2667C>T	c.(2665-2667)AAC>AAT	p.N889N	ABCA6_uc002jhx.1_3'UTR	NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	889					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					AATACAATTCGTTTTTAAATT	0.328													14	29					0	0	1	0	0		A	67101676	A	A	67101676	2	1	89	1	0	0	0	0	0	0	0	1	36	1136	40	1		1	ABCA6	17	67101676	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	17350	67101676	14093534	5810	59641											
ABCA6	23460	broad.mit.edu	37	chr17	67103843	67103843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaaatggctttaccttgttCgatagttgactgtccttcca	9	15	7	10	1	0	1	0	1	0	0	3	2	2	1	3	1	1	3	3	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:67103843C>T	uc002jhw.1	-	18	2558	c.2383G>A	c.(2383-2385)GAA>AAA	p.E795K	ABCA6_uc002jhx.1_Missense_Mutation_p.E248K	NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	795					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					TTACCTTGTTCGATAGTTGAC	0.353													23	41					0	0	1	0	0		T	67103843	T	T	67103843	3	4	89	1	0	0	0	0	1	0	0	0	36	893	31	1	2558	1	ABCA6	17	67103843	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2167	67103843	14091367	5811	59642											
ABCA6	23460	broad.mit.edu	37	chr17	67119483	67119483	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataaccttagcattagtccTttggtgttggaaacaagatg	13	13	9	6	0	0	1	0	0	0	1	1	2	1	2	2	2	3	2	2	2	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:67119483T>G	uc002jhw.1	-	10	1508	c.1333A>C	c.(1333-1335)AGG>CGG	p.R445R		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	445					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					GCATTAGTCCTTTGGTGTTGG	0.368													10	28					0	0	1	0	0		G	67119483	G	G	67119483	2	3	89	1	0	0	0	0	0	0	0	1	36	1608	56	5		5	ABCA6	17	67119483	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15640	67119483	14075727	5812	59643											
ABCA6	23460	broad.mit.edu	37	chr17	67130778	67130778	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacttttcaatcaagcacttActtctataatggcagtatta	14	15	4	8	0	3	0	2	0	1	0	3	0	3	0	0	1	3	3	0	1	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:67130778A>G	uc002jhw.1	-	5	739	c.564_splice	c.e5+1	p.E188_splice		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6						transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					TCAAGCACTTACTTCTATAAT	0.303													30	40					0	0	1	0	0		G	67130778	G	G	67130778	5	3	89	1	0	0	0	0	0	0	1	0	36	405	14	3	4427	3	ABCA6	17	67130778	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	11295	67130778	14064432	5813	59644											
ABCA10	10349	broad.mit.edu	37	chr17	67187325	67187325	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagtaagttacctggaaatTtgttcgttttttccaaaggc	11	15	8	7	1	0	0	0	0	0	0	2	1	1	1	2	2	1	4	2	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:67187325T>G	uc010dfa.1	-	18	2882	c.2003A>C	c.(2002-2004)AAA>ACA	p.K668T	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_Missense_Mutation_p.K269T	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	668					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					ACCTGGAAATTTGTTCGTTTT	0.343													7	26					0	0	1	0	0		G	67187325	G	G	67187325	3	3	89	1	0	0	0	0	1	0	0	0	29	1841	64	5	2720	5	ABCA10	17	67187325	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	56547	67187325	14007885	5814	59645											
ABCA5	23461	broad.mit.edu	37	chr17	67246653	67246653	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaaaatatactgaatttCtctttgaaggcggtctactt	11	15	9	6	1	2	2	0	2	2	0	3	3	2	3	0	3	2	0	0	3	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:67246653C>A	uc002jif.2	-	35	5863	c.4645G>T	c.(4645-4647)GAA>TAA	p.E1549*	ABCA5_uc002jib.2_Nonsense_Mutation_p.E515*|ABCA5_uc002jic.2_Nonsense_Mutation_p.E772*|ABCA5_uc002jid.2_Nonsense_Mutation_p.E466*|ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Nonsense_Mutation_p.E1549*	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	1549					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					TACTGAATTTCTCTTTGAAGG	0.308													15	32					4.14922e-12	4.57968e-12	1	1	0		A	67246653	A	A	67246653	4	1	89	1	0	0	0	0	0	1	0	0	35	922	32	5	299	5	ABCA5	17	67246653	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	59328	67246653	13948557	5815	59646											
ABCA5	23461	broad.mit.edu	37	chr17	67305533	67305533	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agactggatgttaacatttcTttttcatttgtatattcttc	9	21	5	6	0	3	1	1	0	2	1	4	2	3	2	0	1	1	2	0	1	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:67305533T>G	uc002jif.2	-	3	1557	c.339A>C	c.(337-339)AAA>AAC	p.K113N	ABCA5_uc002jig.2_Missense_Mutation_p.K113N|ABCA5_uc002jih.2_Missense_Mutation_p.K113N|ABCA5_uc010dfe.2_Missense_Mutation_p.K113N	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	113					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					TTAACATTTCTTTTTCATTTG	0.318													31	56					0	0	1	0	0		G	67305533	G	G	67305533	3	3	89	1	0	0	0	0	1	0	0	0	35	1606	56	5	4733	5	ABCA5	17	67305533	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	58880	67305533	13889677	5816	59647											
COG1	9382	broad.mit.edu	37	chr17	71197534	71197534	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgttctgccctggattCtaagctgaaggttaaactag	9	14	9	9	0	3	1	0	1	3	0	3	2	3	2	1	2	3	3	1	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:71197534C>A	uc002jjg.2	+	7	1604	c.1568C>A	c.(1567-1569)TCT>TAT	p.S523Y	COG1_uc002jjh.2_Missense_Mutation_p.S523Y|COG1_uc002jjf.1_Missense_Mutation_p.S523Y	NM_018714	NP_061184	Q8WTW3	COG1_HUMAN	component of oligomeric golgi complex 1	523					Golgi organization|intra-Golgi vesicle-mediated transport|protein transport	Golgi membrane|Golgi transport complex	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			GCCCTGGATTCTAAGCTGAAG	0.537													52	123					3.76525e-18	4.39261e-18	1	1	0		A	71197534	A	A	71197534	3	1	89	1	0	0	0	0	1	0	0	0	3660	913	32	5	1594	5	COG1	17	71197534	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3892001	71197534	9997676	5817	59648											
C17orf80	55028	broad.mit.edu	37	chr17	71232871	71232871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttatctctggagcccaaatCtgatagtcagttccaagcat	11	12	8	10	0	3	1	1	1	2	0	5	2	4	2	2	1	2	3	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:71232871C>T	uc002jjm.3	+	3	1444	c.1250C>T	c.(1249-1251)TCT>TTT	p.S417F	C17orf80_uc010wqu.1_Missense_Mutation_p.S417F|C17orf80_uc010dfj.2_Missense_Mutation_p.S417F|C17orf80_uc002jjk.1_Missense_Mutation_p.S417F|C17orf80_uc002jjl.3_Missense_Mutation_p.S417F	NM_017941	NP_060411	Q9BSJ5	CQ080_HUMAN	lung cancer-related protein 8 isoform a	417	Extracellular (Potential).					integral to membrane				skin(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			GAGCCCAAATCTGATAGTCAG	0.498													30	48					0	0	1	0	0		T	71232871	T	T	71232871	3	4	89	1	0	0	0	0	1	0	0	0	1888	913	32	4	1252	4	C17orf80	17	71232871	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	35337	71232871	9962339	5818	59649											
GPRC5C	55890	broad.mit.edu	37	chr17	72436249	72436249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgcctgtgtggtgaagcccGacttctccacctgtgcctct	4	13	10	14	1	2	1	0	1	2	0	3	2	2	1	5	1	3	0	5	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:72436249G>A	uc002jks.2	+	1	373	c.334G>A	c.(334-336)GAC>AAC	p.D112N	GPRC5C_uc002jkp.2_Missense_Mutation_p.D157N|GPRC5C_uc002jkq.2_Intron|GPRC5C_uc002jkr.2_Missense_Mutation_p.D124N|GPRC5C_uc002jkt.2_Missense_Mutation_p.D112N|GPRC5C_uc002jku.2_5'Flank	NM_018653	NP_061123	Q9NQ84	GPC5C_HUMAN	G protein-coupled receptor family C, group 5,	112	Extracellular (Potential).					cytoplasmic vesicle membrane|integral to plasma membrane	G-protein coupled receptor activity|protein binding			ovary(2)|prostate(1)|central_nervous_system(1)|pancreas(1)	5						GGTGAAGCCCGACTTCTCCAC	0.597													52	79					0	0	1	0	0		A	72436249	A	A	72436249	3	1	89	1	0	0	0	0	1	0	0	0	6742	1058	37	1	483	1	GPRC5C	17	72436249	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1203378	72436249	8758961	5819	59650											
CD300LB	124599	broad.mit.edu	37	chr17	72521955	72521955	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcaatcccacaccagtaaAcatctgcgtcatctcgcctg	10	11	5	15	2	4	0	2	0	2	0	6	0	5	0	3	0	2	1	3	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:72521955A>G	uc002jkx.2	-	2	426	c.413T>C	c.(412-414)GTT>GCT	p.V138A	CD300LB_uc010wqz.1_Missense_Mutation_p.V138A	NM_174892	NP_777552	A8K4G0	CLM7_HUMAN	CD300 molecule-like family member b	101	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)	1						ACACCAGTAAACATCTGCGTC	0.512													60	127					0	0	1	0	0		G	72521955	G	G	72521955	3	3	89	1	0	0	0	0	1	0	0	0	3002	43	2	3	315	3	CD300LB	17	72521955	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	85706	72521955	8673255	5820	59651											
C17orf77	146723	broad.mit.edu	37	chr17	72588512	72588512	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttacatattaggagaaaaGaggtgtcattctttgaaaag	15	14	9	3	0	2	3	1	1	1	2	2	4	2	3	0	2	1	0	0	2	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:72588512G>A	uc002jla.1	+	3	689	c.327G>A	c.(325-327)AAG>AAA	p.K109K	CD300LD_uc002jkz.2_5'Flank	NM_152460	NP_689673	Q96MU5	CQ077_HUMAN	hypothetical protein LOC146723	109						extracellular region					0						TAGGAGAAAAGAGGTGTCATT	0.428													46	88					0	0	1	0	0		A	72588512	A	A	72588512	2	1	89	1	0	0	0	0	0	0	0	1	1885	933	33	4		4	C17orf77	17	72588512	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	66557	72588512	8606698	5821	59652											
RAB37	326624	broad.mit.edu	37	chr17	72737009	72737009	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagccaccgtcggcataGacttcagggtgaggtggctg	8	9	14	10	2	2	2	2	1	0	1	3	2	2	2	2	4	1	2	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:72737009G>T	uc002jlk.2	+	2	252	c.196G>T	c.(196-198)GAC>TAC	p.D66Y	RAB37_uc002jlc.2_Intron|RAB37_uc010dfu.2_Intron|RAB37_uc002jld.2_Intron|RAB37_uc010wrb.1_Missense_Mutation_p.D34Y|RAB37_uc010wrc.1_Missense_Mutation_p.D71Y|RAB37_uc010wrd.1_Intron|RAB37_uc010wre.1_Intron|RAB37_uc002jll.3_RNA	NM_001006638	NP_001006639	Q96AX2	RAB37_HUMAN	RAB37, member RAS oncogene family isoform 2	66	Effector region (By similarity).				protein transport|small GTPase mediated signal transduction	ER-Golgi intermediate compartment	GTP binding			ovary(1)	1						CGTCGGCATAGACTTCAGGGT	0.602													36	70					1.21669e-08	1.29713e-08	1	1	0		T	72737009	T	T	72737009	3	4	89	1	0	0	0	0	1	0	0	0	12952	942	33	5	505	5	RAB37	17	72737009	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	148497	72737009	8458201	5822	59653											
OTOP3	347741	broad.mit.edu	37	chr17	72939782	72939782	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactccatgcaccgagagatCgaagctgagcttggcatcct	10	8	11	12	2	0	2	0	1	0	1	3	6	2	2	3	1	3	4	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:72939782C>T	uc010wrr.1	+	5	768	c.768C>T	c.(766-768)ATC>ATT	p.I256I	OTOP3_uc010wrq.1_Silent_p.I238I	NM_178233	NP_839947	Q7RTS5	OTOP3_HUMAN	otopetrin 3	256						integral to membrane|intracellular	zinc ion binding			ovary(1)	1	all_lung(278;0.151)|Lung NSC(278;0.185)					ACCGAGAGATCGAAGCTGAGC	0.473													20	35					0	0	1	0	0		T	72939782	T	T	72939782	2	4	89	1	0	0	0	0	0	0	0	1	11326	874	31	1		1	OTOP3	17	72939782	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	202773	72939782	8255428	5823	59654											
C17orf28	283987	broad.mit.edu	37	chr17	72947703	72947703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacagcttcacgtcggtgtCgtaccagacaggggggtcca	10	7	13	11	3	1	1	1	0	0	1	4	1	2	1	2	4	3	2	2	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:72947703C>T	uc002jmj.3	-	19	2478	c.2329G>A	c.(2329-2331)GAC>AAC	p.D777N	C17orf28_uc002jmi.2_Missense_Mutation_p.D179N|C17orf28_uc010wrs.1_Missense_Mutation_p.D576N	NM_030630	NP_085133	Q8IV36	CQ028_HUMAN	hypothetical protein LOC283987	777						integral to membrane|plasma membrane	protein binding				0	all_lung(278;0.151)|Lung NSC(278;0.185)					ACGTCGGTGTCGTACCAGACA	0.622													7	10					0	0	1	0	0		T	72947703	T	T	72947703	3	4	89	1	0	0	0	0	1	0	0	0	1856	884	31	1	41	1	C17orf28	17	72947703	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7921	72947703	8247507	5824	59655											
ACOX1	51	broad.mit.edu	37	chr17	73944437	73944437	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtcacatcctgaaaatcAaatgcatcaaccaaagcaac	18	7	5	11	0	3	1	3	1	0	0	4	1	4	1	2	0	4	2	2	0	6	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:73944437A>G	uc002jqf.2	-	13	2120	c.1830T>C	c.(1828-1830)TTT>TTC	p.F610F	ACOX1_uc010wsq.1_Silent_p.F572F|ACOX1_uc002jqe.2_Silent_p.F610F|ACOX1_uc010wsr.1_Silent_p.F542F	NM_007292	NP_009223	Q15067	ACOX1_HUMAN	acyl-Coenzyme A oxidase 1 isoform b	610					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1						CCTGAAAATCAAATGCATCAA	0.453													42	87					0	0	1	0	0		G	73944437	G	G	73944437	2	3	89	1	0	0	0	0	0	0	0	1	158	127	5	3		3	ACOX1	17	73944437	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	996734	73944437	7250773	5825	59656											
ACOX1	51	broad.mit.edu	37	chr17	73951988	73951988	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagcatttccccttagtgatGagctgggcaagaactattgc	10	12	10	9	0	0	3	0	2	0	1	1	3	1	3	2	1	4	3	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:73951988G>A	uc002jqf.2	-	5	869	c.579C>T	c.(577-579)CTC>CTT	p.L193L	ACOX1_uc010wsq.1_Silent_p.L155L|ACOX1_uc002jqe.2_Silent_p.L193L|ACOX1_uc010wsr.1_Silent_p.L125L	NM_007292	NP_009223	Q15067	ACOX1_HUMAN	acyl-Coenzyme A oxidase 1 isoform b	193					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1						CCTTAGTGATGAGCTGGGCAA	0.418													73	136					0	0	1	0	0		A	73951988	A	A	73951988	2	1	89	1	0	0	0	0	0	0	0	1	158	1277	45	4		4	ACOX1	17	73951988	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7551	73951988	7243222	5826	59657											
EXOC7	23265	broad.mit.edu	37	chr17	74090528	74090528	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttcttggtaggtgtgtCtttcctcttgttggggatag	3	18	14	6	0	3	0	0	0	3	0	4	1	4	1	1	5	0	3	1	5	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:74090528C>A	uc002jqs.2	-	6	870	c.775G>T	c.(775-777)GAC>TAC	p.D259Y	EXOC7_uc010dgv.1_Missense_Mutation_p.D206Y|EXOC7_uc002jqq.2_Missense_Mutation_p.D259Y|EXOC7_uc010wsw.1_Missense_Mutation_p.D259Y|EXOC7_uc010wsx.1_Missense_Mutation_p.D259Y|EXOC7_uc002jqr.2_Missense_Mutation_p.D259Y|EXOC7_uc010wsv.1_Missense_Mutation_p.D218Y|EXOC7_uc002jqu.2_Missense_Mutation_p.D259Y	NM_001145297	NP_001138769	Q9UPT5	EXOC7_HUMAN	exocyst complex component 7 isoform 4	259					exocytosis|protein transport	centriolar satellite|cytosol|exocyst|plasma membrane	protein binding				0			LUSC - Lung squamous cell carcinoma(166;0.187)			GTAGGTGTGTCTTTCCTCTTG	0.562													32	67					2.20262e-25	2.65585e-25	1	1	0		A	74090528	A	A	74090528	3	1	89	1	0	0	0	0	1	0	0	0	5318	913	32	5	1492	5	EXOC7	17	74090528	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	138540	74090528	7104682	5827	59658											
MFSD11	79157	broad.mit.edu	37	chr17	74772498	74772498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttcagcaaagaagttGccattctctgcagttttctg	8	17	7	9	0	4	1	1	0	3	1	5	1	4	1	1	0	3	4	1	0	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:74772498G>A	uc002jta.2	+	13	2033	c.1060G>A	c.(1060-1062)GCC>ACC	p.A354T	MFSD11_uc002jtb.2_Missense_Mutation_p.A354T|MFSD11_uc010dha.2_Missense_Mutation_p.A302T|MFSD11_uc002jtc.2_Missense_Mutation_p.A354T|MFSD11_uc002jtd.3_Missense_Mutation_p.A354T|MFSD11_uc010dhb.2_Missense_Mutation_p.A302T|MFSD11_uc002jte.2_Missense_Mutation_p.A354T	NM_024311	NP_077287	O43934	MFS11_HUMAN	major facilitator superfamily domain containing	354						integral to membrane				ovary(1)	1						CAAAGAAGTTGCCATTCTCTG	0.413													44	94					0	0	1	0	0		A	74772498	A	A	74772498	3	1	89	1	0	0	0	0	1	0	0	0	9547	1319	46	2	1106	2	MFSD11	17	74772498	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	681970	74772498	6422712	5828	59659											
DNAH17	8632	broad.mit.edu	37	chr17	76548826	76548826	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgctcaataacttgacaTcaattgcttccagttctgac	11	12	6	12	1	3	2	2	2	1	0	4	2	4	2	1	0	3	3	1	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:76548826T>C	uc002jvv.1	-	11	1452	c.1346A>G	c.(1345-1347)GAT>GGT	p.D449G						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			TAACTTGACATCAATTGCTTC	0.428													67	152					0	0	1	0	0		C	76548826	C	C	76548826	3	2	89	1	0	0	0	0	1	0	0	0	4607	1435	50	3	11416	3	DNAH17	17	76548826	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1776328	76548826	4646384	5829	59660											
DNAH17	8632	broad.mit.edu	37	chr17	76554208	76554208	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctcattataccagccaacGatgagctccaggttgcccac	11	8	7	15	1	1	1	1	1	0	0	2	2	2	1	5	1	5	2	5	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:76554208G>A	uc002jvv.1	-	10	1372	c.1266C>T	c.(1264-1266)ATC>ATT	p.I422I						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			ACCAGCCAACGATGAGCTCCA	0.433													7	16					0	0	1	0	0		A	76554208	A	A	76554208	2	1	89	1	0	0	0	0	0	0	0	1	4607	1048	37	1		1	DNAH17	17	76554208	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5382	76554208	4641002	5830	59661											
USP36	57602	broad.mit.edu	37	chr17	76832327	76832327	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggctggctcgaactcgAttttctgtaaaaggaccttc	8	13	10	10	2	1	0	0	0	1	0	4	3	1	1	1	3	2	4	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:76832327A>G	uc002jvz.1	-	3	444	c.119T>C	c.(118-120)ATC>ACC	p.I40T	USP36_uc002jwa.1_Missense_Mutation_p.I40T|USP36_uc002jwd.1_Missense_Mutation_p.I40T	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	40					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			CTCGAACTCGATTTTCTGTAA	0.537													11	38					0	0	1	0	0		G	76832327	G	G	76832327	3	3	89	1	0	0	0	0	1	0	0	0	17093	333	12	3	3324	3	USP36	17	76832327	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	278119	76832327	4362883	5831	59662											
TBC1D16	125058	broad.mit.edu	37	chr17	77922709	77922709	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattgtcttccccccggaaGaactggttgttccgatctgt	6	13	11	11	2	2	1	0	0	2	1	4	4	4	3	4	3	1	2	4	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:77922709G>T	uc002jxj.2	-	8	1619	c.1503C>A	c.(1501-1503)TTC>TTA	p.F501L	TBC1D16_uc002jxh.2_Missense_Mutation_p.F139L|TBC1D16_uc002jxi.2_Missense_Mutation_p.F126L|TBC1D16_uc002jxk.1_Missense_Mutation_p.F139L	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	501	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			CCCCCCGGAAGAACTGGTTGT	0.572													45	75					1.23103e-26	1.49092e-26	1	1	0		T	77922709	T	T	77922709	3	4	89	1	0	0	0	0	1	0	0	0	15630	933	33	5	820	5	TBC1D16	17	77922709	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1090382	77922709	3272501	5832	59663											
CARD14	79092	broad.mit.edu	37	chr17	78162210	78162210	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaggagctgcagcgagccaAcatggtttcctcctgtgagc	8	8	13	12	1	0	1	0	1	0	0	2	3	2	2	3	2	6	4	3	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:78162210A>G	uc002jxw.1	+	5	905	c.710A>G	c.(709-711)AAC>AGC	p.N237S	CARD14_uc002jxt.1_RNA|CARD14_uc002jxv.2_Missense_Mutation_p.N237S|CARD14_uc010wud.1_RNA|CARD14_uc002jxx.2_5'UTR|CARD14_uc010dhu.1_Missense_Mutation_p.N35S	NM_024110	NP_077015	Q9BXL6	CAR14_HUMAN	caspase recruitment domain protein 14 isoform 1	237	Potential.				activation of NF-kappaB-inducing kinase activity|positive regulation of protein phosphorylation|regulation of apoptosis	aggresome|cytoplasm|plasma membrane	CARD domain binding			ovary(4)|skin(1)	5	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			CAGCGAGCCAACATGGTTTCC	0.607													10	26					0	0	1	0	0		G	78162210	G	G	78162210	3	3	89	1	0	0	0	0	1	0	0	0	2649	43	2	3	724	3	CARD14	17	78162210	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	239501	78162210	3033000	5833	59664											
RNF213	57674	broad.mit.edu	37	chr17	78321073	78321073	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccttccccgcaagacattGcacaggctgtccttaggaac	10	8	9	14	1	0	1	0	0	0	1	2	2	2	2	4	2	3	3	4	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:78321073G>T	uc002jyh.1	+	4	3380	c.3157G>T	c.(3157-3159)GCA>TCA	p.A1053S		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GCAAGACATTGCACAGGCTGT	0.498													9	29					2.80697e-09	3.01096e-09	1	1	0		T	78321073	T	T	78321073	3	4	89	1	0	0	0	0	1	0	0	0	13502	1319	46	5	9367	5	RNF213	17	78321073	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	158863	78321073	2874137	5834	59665											
RNF213	57674	broad.mit.edu	37	chr17	78354771	78354771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggctctgcttctgggagCgtcccagagttcccaggtat	5	12	12	12	1	2	1	0	0	2	1	4	2	4	2	2	3	2	4	2	3	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:78354771C>T	uc002jyh.1	+	31	8223	c.8000C>T	c.(7999-8001)GCG>GTG	p.A2667V	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.A1049V	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			CTTCTGGGAGCGTCCCAGAGT	0.562													96	198					0	0	1	0	0		T	78354771	T	T	78354771	3	4	89	1	0	0	0	0	1	0	0	0	13502	768	27	1	14318	1	RNF213	17	78354771	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	33698	78354771	2840439	5835	59666											
RNF213	57674	broad.mit.edu	37	chr17	78360622	78360622	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagagaccgtgcaggagttCgatctggagaagattcagcg	12	7	15	7	3	2	4	1	0	1	4	3	8	2	5	1	2	2	2	1	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:78360622C>T	uc002jyh.1	+	38	9295	c.9072C>T	c.(9070-9072)TTC>TTT	p.F3024F	uc002jyi.1_Intron|RNF213_uc010dhx.1_5'UTR	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TGCAGGAGTTCGATCTGGAGA	0.582													10	26					0	0	1	0	0		T	78360622	T	T	78360622	2	4	89	1	0	0	0	0	0	0	0	1	13502	883	31	1		1	RNF213	17	78360622	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5851	78360622	2834588	5836	59667											
RPTOR	57521	broad.mit.edu	37	chr17	78796935	78796935	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctagtctgtttcgaaatTttttattggcggaaaggatt	9	17	11	4	2	1	0	0	0	1	0	2	3	1	2	0	4	0	2	0	4	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:78796935T>G	uc002jyt.1	+	9	1853	c.1048T>G	c.(1048-1050)TTT>GTT	p.F350V	RPTOR_uc002jys.2_Missense_Mutation_p.F350V|RPTOR_uc010wuf.1_Missense_Mutation_p.F165V|RPTOR_uc010wug.1_Missense_Mutation_p.F350V	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	350					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						GTTTCGAAATTTTTTATTGGC	0.483													10	125					0	0	1	0	0		G	78796935	G	G	78796935	3	3	89	1	0	0	0	0	1	0	0	0	13690	1841	64	5	1082	5	RPTOR	17	78796935	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	436313	78796935	2398275	5837	59668											
AATK	9625	broad.mit.edu	37	chr17	79095489	79095489	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgccaggccctgggcagaGcatagatgagggaggccggg	8	4	20	9	1	0	3	0	1	0	2	0	4	0	4	3	6	2	2	3	6	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:79095489G>A	uc010dia.2	-	11	2327	c.2247C>T	c.(2245-2247)TGC>TGT	p.C749C	AATK_uc010dhz.2_RNA	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	749	Pro-rich.					integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CCTGGGCAGAGCATAGATGAG	0.692													4	8					0	0	1	0	0		A	79095489	A	A	79095489	2	1	89	1	0	0	0	0	0	0	0	1	26	963	34	2		2	AATK	17	79095489	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	298554	79095489	2099721	5838	59669											
AATK	9625	broad.mit.edu	37	chr17	79096523	79096523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcaaactcctcctctgcttCggtggcgcccttggcacaca	6	11	8	16	2	2	0	1	0	1	0	5	0	4	0	3	3	2	2	3	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:79096523C>T	uc010dia.2	-	11	1293	c.1213G>A	c.(1213-1215)GAA>AAA	p.E405K	AATK_uc010dhz.2_5'Flank	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	405						integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			TCCTCTGCTTCGGTGGCGCCC	0.498													3	6					0	0	1	0	0		T	79096523	T	T	79096523	3	4	89	1	0	0	0	0	1	0	0	0	26	893	31	1	2927	1	AATK	17	79096523	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1034	79096523	2098687	5839	59670											
TSPAN10	83882	broad.mit.edu	37	chr17	79615131	79615131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggctgcgcgcgaacctggCtgcctcgggcggctacgcaa	5	6	16	14	6	0	0	0	0	0	0	1	1	0	0	2	4	4	4	2	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:79615131C>T	uc010die.2	+	4	965	c.875C>T	c.(874-876)GCT>GTT	p.A292V	TSPAN10_uc010did.1_RNA	NM_031945	NP_114151	Q9H1Z9	TSN10_HUMAN	tetraspanin 10	292	Helical; (Potential).					integral to membrane				ovary(1)	1	all_neural(118;0.0878)|all_lung(278;0.175)|Lung NSC(278;0.192)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GCGAACCTGGCTGCCTCGGGC	0.761													4	4					0	0	1	0	0		T	79615131	T	T	79615131	3	4	89	1	0	0	0	0	1	0	0	0	16660	797	28	2	885	2	TSPAN10	17	79615131	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	518608	79615131	1580079	5840	59671											
C17orf90	339229	broad.mit.edu	37	chr17	79632445	79632445	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcaggtggcagcgatgccTtgggcggcctggtgccgtcc	3	8	17	13	3	1	0	1	0	0	0	2	1	2	0	4	5	3	2	4	5	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:79632445T>G	uc002kba.2	-	2	241	c.230A>C	c.(229-231)AAG>ACG	p.K77T	C17orf90_uc002kbb.2_3'UTR|CCDC137_uc002kbc.3_5'Flank|CCDC137_uc002kbd.2_5'Flank	NM_001039842	NP_001034931	Q5BKU9	CQ090_HUMAN	hypothetical protein LOC339229	77											0	all_neural(118;0.0878)|all_lung(278;0.23)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			CAGCGATGCCTTGGGCGGCCT	0.662													22	45					0	0	1	0	0		G	79632445	G	G	79632445	3	3	89	1	0	0	0	0	1	0	0	0	1894	1609	56	5	217	5	C17orf90	17	79632445	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	17314	79632445	1562765	5841	59672											
SIRT7	51547	broad.mit.edu	37	chr17	79873485	79873485	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggccatgcctggcccgcttAcctaacgcttctccctttct	5	12	7	17	2	2	0	0	0	2	0	3	0	2	0	5	2	3	2	5	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:79873485A>G	uc002kcj.1	-	4	440	c.407_splice	c.e4+1	p.S136_splice	SIRT7_uc002kck.1_Splice_Site|SIRT7_uc002kcl.1_Splice_Site_p.S54_splice	NM_016538	NP_057622	Q9NRC8	SIRT7_HUMAN	sirtuin 7						chromatin silencing|positive regulation of transcription on exit from mitosis|protein deacetylation|rRNA transcription	cytoplasm|nucleolus organizer region	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ binding|protein binding|zinc ion binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0165)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			TGGCCCGCTTACCTAACGCTT	0.592													12	21					0	0	1	0	0		G	79873485	G	G	79873485	5	3	89	1	0	0	0	0	0	0	1	0	14368	405	14	3	821	3	SIRT7	17	79873485	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	241040	79873485	1321725	5842	59673											
NOTUM	147111	broad.mit.edu	37	chr17	79911050	79911050	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagcccttgaggggggtCttgctggccttgtggctgtc	2	11	18	10	0	1	1	0	1	1	0	2	1	1	1	2	6	2	3	2	6	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:79911050C>A	uc010wvg.1	-	11	1550	c.1278G>T	c.(1276-1278)AAG>AAT	p.K426N		NM_178493	NP_848588	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog precursor	426						extracellular region	hydrolase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			TGAGGGGGGTCTTGCTGGCCT	0.672													9	26					3.09899e-07	3.24682e-07	1	1	0		A	79911050	A	A	79911050	3	1	89	1	0	0	0	0	1	0	0	0	10571	912	32	5	216	5	NOTUM	17	79911050	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	37565	79911050	1284160	5843	59674											
NARF	26502	broad.mit.edu	37	chr17	80443437	80443437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgttacgctttgctgcaGcctatggctttcgaaacatc	7	14	10	10	2	0	0	0	0	0	0	2	1	0	0	1	2	5	5	1	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:80443437G>A	uc002kfg.3	+	10	1176	c.1036G>A	c.(1036-1038)GCC>ACC	p.A346T	NARF_uc002kff.3_Missense_Mutation_p.A287T|NARF_uc010dit.2_Missense_Mutation_p.A392T|NARF_uc002kfj.3_Missense_Mutation_p.A298T|NARF_uc002kfi.3_RNA|NARF_uc002kfh.3_Missense_Mutation_p.A392T|NARF_uc002kfk.2_RNA	NM_012336	NP_036468	Q9UHQ1	NARF_HUMAN	nuclear prelamin A recognition factor isoform a	346						lamin filament	lamin binding			skin(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			CTTTGCTGCAGCCTATGGCTT	0.478													52	88					0	0	1	0	0		A	80443437	A	A	80443437	3	1	89	1	0	0	0	0	1	0	0	0	10185	971	34	2	1216	2	NARF	17	80443437	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	532387	80443437	751773	5844	59675											
ZNF750	79755	broad.mit.edu	37	chr17	80790171	80790171	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcctgctctgatactaaagTaatcgagtttttacaaagac	14	13	6	8	1	1	2	0	1	1	1	3	3	2	2	1	0	3	3	1	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr17:80790171T>C	uc002kga.2	-	2	471	c.160A>G	c.(160-162)ACT>GCT	p.T54A	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	54						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GATACTAAAGTAATCGAGTTT	0.433													35	70					0	0	1	0	0		C	80790171	C	C	80790171	3	2	89	1	0	0	0	0	1	0	0	0	18157	1638	57	3	2019	3	ZNF750	17	80790171	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	346734	80790171	405039	5845	59676											
COLEC12	81035	broad.mit.edu	37	chr18	346509	346509	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtttggtaagggtatctgtGcaagtggtcctgacttcatt	7	16	12	6	0	2	1	1	1	1	0	3	1	3	1	1	3	1	4	1	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:346509G>A	uc002kkm.2	-	5	1328	c.1113C>T	c.(1111-1113)TGC>TGT	p.C371C		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	371	Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				GGGTATCTGTGCAAGTGGTCC	0.448													25	54					0	0	1	0	0		A	346509	A	A	346509	2	1	89	1	0	0	0	0	0	0	0	1	3715	1311	46	2		2	COLEC12	18	346509	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08		346509	77730739	5846	59677											
COLEC12	81035	broad.mit.edu	37	chr18	347104	347104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgacatagccattatacGcctggagggttttgtttaca	9	14	10	8	2	0	1	0	1	0	0	1	2	0	2	2	2	3	2	2	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:347104G>A	uc002kkm.2	-	5	733	c.518C>T	c.(517-519)GCG>GTG	p.A173V		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	173	Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				GCCATTATACGCCTGGAGGGT	0.473													51	92					0	0	1	0	0		A	347104	A	A	347104	3	1	89	1	0	0	0	0	1	0	0	0	3715	1087	38	1	1734	1	COLEC12	18	347104	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	595	347104	77730144	5847	59678											
COLEC12	81035	broad.mit.edu	37	chr18	348100	348100	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactttccactgctgtgagcTtgtcatcataggtttggcga	7	14	10	10	1	2	1	2	1	0	0	3	2	3	1	1	2	2	3	1	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:348100T>G	uc002kkm.2	-	4	460	c.245A>C	c.(244-246)AAG>ACG	p.K82T		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	82	Potential.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				TGCTGTGAGCTTGTCATCATA	0.388													15	46					0	0	1	0	0		G	348100	G	G	348100	3	3	89	1	0	0	0	0	1	0	0	0	3715	1609	56	5	2011	5	COLEC12	18	348100	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	996	348100	77729148	5848	59679											
ENOSF1	55556	broad.mit.edu	37	chr18	674310	674310	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttggggctgagcacttaatTttcttgagcaggaaggagtt	9	13	14	5	0	1	2	0	2	1	0	1	4	1	4	0	4	2	5	0	4	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:674310T>G	uc002kku.3	-	16	1402	c.1327A>C	c.(1327-1329)AAT>CAT	p.N443H	ENOSF1_uc002kkt.3_Missense_Mutation_p.N361H|ENOSF1_uc010dke.2_RNA|ENOSF1_uc010dkf.2_Missense_Mutation_p.N450H|ENOSF1_uc002kkv.3_Missense_Mutation_p.N430H|ENOSF1_uc002kkw.3_Missense_Mutation_p.N262H|ENOSF1_uc002kkx.3_Missense_Mutation_p.N367H	NM_017512	NP_059982	Q7L5Y1	ENOF1_HUMAN	enolase superfamily 1 isoform rTS beta	443					cellular amino acid catabolic process	mitochondrion	isomerase activity|metal ion binding			ovary(1)	1						AGCACTTAATTTTCTTGAGCA	0.373													104	208					0	0	1	0	0		G	674310	G	G	674310	3	3	89	1	0	0	0	0	1	0	0	0	5133	1841	64	5	8	5	ENOSF1	18	674310	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	326210	674310	77402938	5849	59680											
ADCYAP1	116	broad.mit.edu	37	chr18	909593	909593	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtcctagggaagaggtataAacaaagggttaaaaacaaag	19	6	11	5	1	0	1	0	0	0	1	1	2	1	2	1	3	2	2	1	3	10	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:909593A>C	uc010dkg.2	+	5	607	c.488A>C	c.(487-489)AAA>ACA	p.K163T	ADCYAP1_uc010dkh.2_Missense_Mutation_p.K163T	NM_001099733	NP_001093203	P18509	PACA_HUMAN	adenylate cyclase activating polypeptide	163					activation of adenylate cyclase activity|cell-cell signaling|female pregnancy|nerve growth factor receptor signaling pathway|regulation of G-protein coupled receptor protein signaling pathway	extracellular region|soluble fraction	neuropeptide hormone activity|peptide hormone receptor binding				0						AAGAGGTATAAACAAAGGGTT	0.493													75	169					0	0	1	0	0		C	909593	C	C	909593	3	2	89	1	0	0	0	0	1	0	0	0	302	14	1	5	502	5	ADCYAP1	18	909593	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	235283	909593	77167655	5850	59681											
NDC80	10403	broad.mit.edu	37	chr18	2577854	2577854	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattcattcagcagtgtattCgacaactctgtgaggtactt	10	14	8	9	1	3	1	2	1	1	0	4	2	3	1	0	1	3	3	0	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:2577854C>T	uc002kli.2	+	4	471	c.289C>T	c.(289-291)CGA>TGA	p.R97*		NM_006101	NP_006092	O14777	NDC80_HUMAN	kinetochore associated 2	97	Interaction with the N-terminus of CDCA1.|Nuclear localization.				attachment of spindle microtubules to kinetochore|cell division|establishment of mitotic spindle orientation|mitotic prometaphase|mitotic sister chromatid segregation|mitotic spindle organization|phosphatidylinositol-mediated signaling	condensed nuclear chromosome outer kinetochore|cytosol|Ndc80 complex	protein binding			ovary(1)	1						GCAGTGTATTCGACAACTCTG	0.363													41	73					0	0	1	0	0		T	2577854	T	T	2577854	4	4	89	1	0	0	0	0	0	1	0	0	10261	876	31	1	299	1	NDC80	18	2577854	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1668261	2577854	75499394	5851	59682											
NDC80	10403	broad.mit.edu	37	chr18	2577969	2577969	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcataaaaattattgtagtTtcttacagaaaatggttatg	15	17	6	3	0	2	1	1	0	1	1	2	1	2	1	0	1	1	3	0	1	9	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:2577969T>G	uc002kli.2	+	5	487	c.305T>G	c.(304-306)TTT>TGT	p.F102C		NM_006101	NP_006092	O14777	NDC80_HUMAN	kinetochore associated 2	102	Interaction with the N-terminus of CDCA1.|Nuclear localization.				attachment of spindle microtubules to kinetochore|cell division|establishment of mitotic spindle orientation|mitotic prometaphase|mitotic sister chromatid segregation|mitotic spindle organization|phosphatidylinositol-mediated signaling	condensed nuclear chromosome outer kinetochore|cytosol|Ndc80 complex	protein binding			ovary(1)	1						TTATTGTAGTTTCTTACAGAA	0.318													33	77					0	0	1	0	0		G	2577969	G	G	2577969	3	3	89	1	0	0	0	0	1	0	0	0	10261	1855	64	5	319	5	NDC80	18	2577969	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	115	2577969	75499279	5852	59683											
SMCHD1	23347	broad.mit.edu	37	chr18	2667021	2667021	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attatgccagtgaaggacaaAatcctttgcgtaagtatccc	13	11	8	9	1	0	1	0	1	0	0	2	2	2	2	3	1	2	2	3	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:2667021A>C	uc002klm.3	+	3	604	c.415A>C	c.(415-417)AAT>CAT	p.N139H		NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	139					chromosome organization		ATP binding				0						TGAAGGACAAAATCCTTTGCG	0.358													9	8					0	0	1	0	0		C	2667021	C	C	2667021	3	2	89	1	0	0	0	0	1	0	0	0	14813	14	1	5	425	5	SMCHD1	18	2667021	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	89052	2667021	75410227	5853	59684											
SMCHD1	23347	broad.mit.edu	37	chr18	2771569	2771569	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gattaaaagaggcccaattgCgaaatgaactaaaaatacat	20	8	7	6	1	0	2	0	1	0	1	0	4	0	2	1	1	3	0	1	1	9	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:2771569C>T	uc002klm.3	+	40	5194	c.5005C>T	c.(5005-5007)CGA>TGA	p.R1669*	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	1669					chromosome organization		ATP binding				0						GGCCCAATTGCGAAATGAACT	0.303													25	51					0	0	1	0	0		T	2771569	T	T	2771569	4	4	89	1	0	0	0	0	0	1	0	0	14813	760	27	1	5163	1	SMCHD1	18	2771569	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	104548	2771569	75305679	5854	59685											
EMILIN2	84034	broad.mit.edu	37	chr18	2891625	2891625	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacagtctctggaagaccgTctggggagcgttctcctaca	9	10	11	11	2	3	1	0	0	3	1	5	3	3	3	2	3	3	1	2	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:2891625T>C	uc002kln.2	+	4	1659	c.1500T>C	c.(1498-1500)CGT>CGC	p.R500R		NM_032048	NP_114437	Q9BXX0	EMIL2_HUMAN	elastin microfibril interfacer 2 precursor	500					cell adhesion	collagen	extracellular matrix constituent conferring elasticity|protein binding			skin(2)|ovary(1)	3				READ - Rectum adenocarcinoma(2;0.1)		TGGAAGACCGTCTGGGGAGCG	0.532													39	79					0	0	1	0	0		C	2891625	C	C	2891625	2	2	89	1	0	0	0	0	0	0	0	1	5102	1654	58	3		3	EMILIN2	18	2891625	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	120056	2891625	75185623	5855	59686											
EPB41L3	23136	broad.mit.edu	37	chr18	5415967	5415967	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagacagcagaaagaaaaaGatgaagaggaaacagggcac	21	1	13	6	0	0	6	0	1	0	5	0	7	0	7	0	2	2	3	0	2	5	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:5415967G>T	uc002kmt.1	-	13	2003	c.1917C>A	c.(1915-1917)ATC>ATA	p.I639I	EPB41L3_uc010wzh.1_Intron|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Intron|EPB41L3_uc010wzf.1_Intron|EPB41L3_uc010wzg.1_Intron|EPB41L3_uc010dkr.2_Intron	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	639	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GAAAGAAAAAGATGAAGAGGA	0.562													24	62					1.22574e-08	1.30575e-08	1	1	0		T	5415967	T	T	5415967	2	4	89	1	0	0	0	0	0	0	0	1	5162	932	33	5		5	EPB41L3	18	5415967	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2524342	5415967	72661281	5856	59687											
TMEM200C	645369	broad.mit.edu	37	chr18	5890224	5890224	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgtgctttccagttcttcTtctacccctatggcatgaga	6	15	7	13	0	3	1	0	1	3	1	4	2	4	1	4	1	2	3	4	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:5890224T>G	uc002kmx.1	-	1	1880	c.1839A>C	c.(1837-1839)GAA>GAC	p.E613D		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	613						integral to membrane					0						CCAGTTCTTCTTCTACCCCTA	0.507													42	65					0	0	1	0	0		G	5890224	G	G	5890224	3	3	89	1	0	0	0	0	1	0	0	0	16150	1606	56	5	30	5	TMEM200C	18	5890224	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	474257	5890224	72187024	5857	59688											
ARHGAP28	79822	broad.mit.edu	37	chr18	6889954	6889954	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgaatgagtctgtggaacaTttctacagtgatggcaccaa	12	10	10	9	1	2	2	0	2	2	0	2	4	2	3	2	2	2	1	2	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:6889954T>G	uc010wzi.1	+	12	1311	c.1073T>G	c.(1072-1074)ATT>AGT	p.I358S	ARHGAP28_uc002knc.2_Missense_Mutation_p.I483S|ARHGAP28_uc002knd.2_Missense_Mutation_p.I376S|ARHGAP28_uc002kne.2_Missense_Mutation_p.I376S|ARHGAP28_uc002knf.2_Missense_Mutation_p.I367S			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	358					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				CTGTGGAACATTTCTACAGTG	0.398													14	146					0	0	1	0	0		G	6889954	G	G	6889954	3	3	89	1	0	0	0	0	1	0	0	0	877	1493	52	5	1169	5	ARHGAP28	18	6889954	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	999730	6889954	71187294	5858	59689											
LAMA1	284217	broad.mit.edu	37	chr18	6943388	6943388	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgccagcaccattgttgAcatggaacaagacctaaaag	14	8	8	11	0	0	2	0	1	0	1	1	3	1	3	4	1	3	2	4	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:6943388A>G	uc002knm.2	-	62	8952	c.8858T>C	c.(8857-8859)GTC>GCC	p.V2953A	LAMA1_uc002knk.2_Missense_Mutation_p.V283A|LAMA1_uc002knl.2_Missense_Mutation_p.V406A|LAMA1_uc010wzj.1_Missense_Mutation_p.V2429A	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2953	Laminin G-like 5.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACCATTGTTGACATGGAACAA	0.408													40	60					0	0	1	0	0		G	6943388	G	G	6943388	3	3	89	1	0	0	0	0	1	0	0	0	8621	275	10	3	377	3	LAMA1	18	6943388	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	53434	6943388	71133860	5859	59690											
LAMA1	284217	broad.mit.edu	37	chr18	6956679	6956679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcttgctgtcctctgcatCgggagccagcttaggccttt	5	12	12	12	1	1	0	0	0	1	0	3	2	2	1	3	2	5	4	3	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:6956679C>T	uc002knm.2	-	56	8144	c.8050G>A	c.(8050-8052)GAT>AAT	p.D2684N	LAMA1_uc002knk.2_5'Flank|LAMA1_uc002knl.2_Missense_Mutation_p.D137N|LAMA1_uc010wzj.1_Missense_Mutation_p.D2160N	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2684					axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCCTCTGCATCGGGAGCCAGC	0.547													29	59					0	0	1	0	0		T	6956679	T	T	6956679	3	4	89	1	0	0	0	0	1	0	0	0	8621	884	31	1	1209	1	LAMA1	18	6956679	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13291	6956679	71120569	5860	59691											
LAMA1	284217	broad.mit.edu	37	chr18	6959410	6959410	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgtgggagcgtgcaggaGagcttttctcaggcctgtcc	6	9	14	12	2	1	1	1	0	1	1	3	3	2	2	3	3	3	2	3	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:6959410G>T	uc002knm.2	-	54	7802	c.7708C>A	c.(7708-7710)CTC>ATC	p.L2570I	LAMA1_uc002knk.2_5'Flank|LAMA1_uc002knl.2_Missense_Mutation_p.L23I|LAMA1_uc010wzj.1_Missense_Mutation_p.L2046I	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2570	Laminin G-like 3.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCGTGCAGGAGAGCTTTTCTC	0.557													43	80					4.01765e-15	4.56549e-15	1	1	0		T	6959410	T	T	6959410	3	4	89	1	0	0	0	0	1	0	0	0	8621	942	33	5	1559	5	LAMA1	18	6959410	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2731	6959410	71117838	5861	59692											
LAMA1	284217	broad.mit.edu	37	chr18	6986331	6986331	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcctgaatttgtgacaaTaaatcttcagcagccctgat	11	15	6	9	0	2	3	1	3	1	0	3	3	3	3	2	0	2	1	2	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:6986331T>C	uc002knm.2	-	37	5278	c.5184A>G	c.(5182-5184)TTA>TTG	p.L1728L	LAMA1_uc010wzj.1_Silent_p.L1204L	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1728	Domain II and I.|Potential.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTTGTGACAATAAATCTTCAG	0.358													21	63					0	0	1	0	0		C	6986331	C	C	6986331	2	2	89	1	0	0	0	0	0	0	0	1	8621	1403	49	3		3	LAMA1	18	6986331	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	26921	6986331	71090917	5862	59693											
PTPRM	5797	broad.mit.edu	37	chr18	7888319	7888319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatatctggagacccaacaCgtacatggaacagggcagaa	16	6	10	9	1	1	2	0	0	1	2	1	4	1	3	1	3	3	2	1	3	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:7888319C>T	uc002knn.3	+	3	915	c.412C>T	c.(412-414)CGT>TGT	p.R138C	PTPRM_uc010dkv.2_Missense_Mutation_p.R138C	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	138	MAM.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				AGACCCAACACGTACATGGAA	0.428													30	69					0	0	1	0	0		T	7888319	T	T	7888319	3	4	89	1	0	0	0	0	1	0	0	0	12831	536	19	1	422	1	PTPRM	18	7888319	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	901988	7888319	70188929	5863	59694											
PTPRM	5797	broad.mit.edu	37	chr18	8085834	8085834	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcacagctaagggttttgggCctccagcaacaaaccagttc	11	8	10	12	0	0	0	0	0	0	0	2	0	1	0	3	2	4	5	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:8085834C>T	uc002knn.3	+	10	2220	c.1717C>T	c.(1717-1719)CCT>TCT	p.P573S	PTPRM_uc010dkv.2_Missense_Mutation_p.P573S|PTPRM_uc010wzl.1_Missense_Mutation_p.P360S	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	573	Fibronectin type-III 3.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				GGGTTTTGGGCCTCCAGCAAC	0.428													31	70					0	0	1	0	0		T	8085834	T	T	8085834	3	4	89	1	0	0	0	0	1	0	0	0	12831	739	26	2	1755	2	PTPRM	18	8085834	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	197515	8085834	69991414	5864	59695											
PTPRM	5797	broad.mit.edu	37	chr18	8113723	8113723	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccctataaaagctacaGaatttatttccaagctgcta	13	13	4	11	0	1	1	0	0	1	1	3	1	2	1	3	0	4	3	3	0	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:8113723G>T	uc002knn.3	+	12	2599	c.2096G>T	c.(2095-2097)AGA>ATA	p.R699I	PTPRM_uc010dkv.2_Missense_Mutation_p.R699I|PTPRM_uc010wzl.1_Missense_Mutation_p.R486I	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	699	Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				AAAAGCTACAGAATTTATTTC	0.403													57	140					1.78197e-24	2.14076e-24	1	1	0		T	8113723	T	T	8113723	3	4	89	1	0	0	0	0	1	0	0	0	12831	942	33	5	2142	5	PTPRM	18	8113723	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	27889	8113723	69963525	5865	59696											
PTPRM	5797	broad.mit.edu	37	chr18	8387085	8387085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtagccccaagatggatatCggatggtgcagcaattccag	11	8	12	10	2	0	1	0	0	0	1	2	3	1	3	3	3	3	3	3	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:8387085C>T	uc002knn.3	+	29	4524	c.4021C>T	c.(4021-4023)CGG>TGG	p.R1341W	PTPRM_uc010dkv.2_Missense_Mutation_p.R1354W|PTPRM_uc010wzl.1_Missense_Mutation_p.R1128W	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1341	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				AGATGGATATCGGATGGTGCA	0.502													23	79					0	0	1	0	0		T	8387085	T	T	8387085	3	4	89	1	0	0	0	0	1	0	0	0	12831	875	31	1	4182	1	PTPRM	18	8387085	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	273362	8387085	69690163	5866	59697											
RAB12	201475	broad.mit.edu	37	chr18	8638257	8638257	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaccacatgtccgatgctgTtgatttcctactttggagac	9	13	9	10	1	0	3	0	1	0	2	2	5	2	3	3	1	2	2	3	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:8638257T>C	uc002knp.2	+	6	1015	c.732T>C	c.(730-732)TGT>TGC	p.C244C		NM_001025300	NP_001020471	Q6IQ22	RAB12_HUMAN	RAB12, member RAS oncogene family	244					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding				0						TCCGATGCTGTTGATTTCCTA	0.418													11	27					0	0	1	0	0		C	8638257	C	C	8638257	2	2	89	1	0	0	0	0	0	0	0	1	12923	1731	60	3		3	RAB12	18	8638257	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	251172	8638257	69438991	5867	59698											
ANKRD12	23253	broad.mit.edu	37	chr18	9255701	9255701	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagacattgaaaaacaagaAaagcatataaaggaaagtaa	25	6	7	3	0	0	3	0	1	0	2	0	4	0	4	0	1	2	2	0	1	11	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:9255701A>C	uc002knv.2	+	9	2693	c.2436A>C	c.(2434-2436)GAA>GAC	p.E812D	ANKRD12_uc002knw.2_Missense_Mutation_p.E789D|ANKRD12_uc002knx.2_Missense_Mutation_p.E789D|ANKRD12_uc010dkx.1_Missense_Mutation_p.E519D	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	812						nucleus				ovary(2)|central_nervous_system(1)	3						AAAAACAAGAAAAGCATATAA	0.323													28	45					0	0	1	0	0		C	9255701	C	C	9255701	3	2	89	1	0	0	0	0	1	0	0	0	640	11	1	5	2466	5	ANKRD12	18	9255701	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	617444	9255701	68821547	5868	59699											
APCDD1	147495	broad.mit.edu	37	chr18	10488027	10488027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgctgcattggaacatcCgcagatagaagttttagaaa	13	11	9	8	1	1	3	0	0	1	3	2	4	2	4	1	1	3	4	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:10488027C>T	uc002kom.3	+	5	1891	c.1537C>T	c.(1537-1539)CGC>TGC	p.R513C		NM_153000	NP_694545	Q8J025	APCD1_HUMAN	adenomatosis polyposis coli down-regulated 1	513	Cytoplasmic (Potential).				hair follicle development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to plasma membrane	Wnt-protein binding				0				READ - Rectum adenocarcinoma(15;0.08)		TTGGAACATCCGCAGATAGAA	0.478													31	39					0	0	1	0	0		T	10488027	T	T	10488027	3	4	89	1	0	0	0	0	1	0	0	0	765	652	23	1	1555	1	APCDD1	18	10488027	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1232326	10488027	67589221	5869	59700											
FAM38B	63895	broad.mit.edu	37	chr18	10671566	10671566	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttgatcattgtctctggTgagcgatataggaatattaa	12	15	9	5	1	2	2	1	2	1	0	3	4	2	3	0	2	1	0	0	2	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:10671566T>C	uc002kor.3	-	14	2228	c.2088A>G	c.(2086-2088)TCA>TCG	p.S696S	FAM38B_uc002koq.2_Silent_p.S531S	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2739						integral to membrane	ion channel activity			ovary(1)	1						TTGTCTCTGGTGAGCGATATA	0.323													19	38					0	0	1	0	0		C	10671566	C	C	10671566	2	2	89	1	0	0	0	0	0	0	0	1	5569	1683	59	3		3	FAM38B	18	10671566	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	183539	10671566	67405682	5870	59701											
SPIRE1	56907	broad.mit.edu	37	chr18	12479831	12479831	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctccattcaccatagatGactccacaagattctttgta	13	12	4	12	0	2	3	1	1	1	2	4	3	4	3	4	0	1	1	4	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:12479831G>T	uc002kre.2	-	10	1318	c.1271C>A	c.(1270-1272)TCA>TAA	p.S424*	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Nonsense_Mutation_p.S290*|SPIRE1_uc010wzx.1_Nonsense_Mutation_p.S213*|SPIRE1_uc010wzy.1_Nonsense_Mutation_p.S410*	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	424						cytoskeleton|perinuclear region of cytoplasm	actin binding				0						CACCATAGATGACTCCACAAG	0.448													27	70					1.62565e-12	1.80183e-12	1	1	0		T	12479831	T	T	12479831	4	4	89	1	0	0	0	0	0	1	0	0	15096	1294	45	5	1031	5	SPIRE1	18	12479831	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1808265	12479831	65597417	5871	59702											
PTPN2	5771	broad.mit.edu	37	chr18	12817275	12817275	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattctctcactttaaacaaGaaattgagaaatgaagctgg	16	11	8	6	0	2	3	1	2	1	2	3	5	2	3	0	1	2	1	0	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:12817275G>T	uc002krp.2	-	6	779	c.585C>A	c.(583-585)TTC>TTA	p.F195L	PTPN2_uc002krl.2_Missense_Mutation_p.F195L|PTPN2_uc002krn.2_Missense_Mutation_p.F218L|PTPN2_uc002kro.2_Missense_Mutation_p.F195L|PTPN2_uc002krm.2_Missense_Mutation_p.F195L	NM_002828	NP_002819	P17706	PTN2_HUMAN	protein tyrosine phosphatase, non-receptor type	195	Tyrosine-protein phosphatase.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway	endoplasmic reticulum|nucleoplasm	protein binding			skin(2)	2		Lung NSC(161;8.94e-06)				CTTTAAACAAGAAATTGAGAA	0.468													47	73					4.18559e-23	5.00925e-23	1	1	0		T	12817275	T	T	12817275	3	4	89	1	0	0	0	0	1	0	0	0	12808	933	33	5	704	5	PTPN2	18	12817275	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	337444	12817275	65259973	5872	59703											
CEP192	55125	broad.mit.edu	37	chr18	13069153	13069153	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttacctttgaaaaatgctggGaacattgaagtttatttgga	13	15	9	4	0	0	2	0	2	0	0	0	4	0	4	1	2	3	2	1	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:13069153G>A	uc010xac.1	+	26	5108	c.5028G>A	c.(5026-5028)GGG>GGA	p.G1676G	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Silent_p.G1201G|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Silent_p.G98G|CEP192_uc002krw.2_5'Flank	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1676										ovary(4)|pancreas(1)	5						AAAATGCTGGGAACATTGAAG	0.448													40	80					0	0	1	0	0		A	13069153	A	A	13069153	2	1	89	1	0	0	0	0	0	0	0	1	3254	1161	41	4		4	CEP192	18	13069153	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	251878	13069153	65008095	5873	59704											
C18orf19	125228	broad.mit.edu	37	chr18	13666620	13666620	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagatactccttgacgggTggcggcgtggacatgtagcc	7	9	15	10	3	0	2	0	1	0	1	1	3	1	3	2	4	3	2	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:13666620T>G	uc010dlh.2	-	5	1110	c.678A>C	c.(676-678)CCA>CCC	p.P226P	C18orf19_uc010dlg.2_3'UTR|C18orf19_uc010dli.2_Silent_p.P226P|C18orf19_uc002ksj.3_Silent_p.P226P|C18orf19_uc010dlj.2_RNA	NM_001098801	NP_001092271	Q96ND0	CR019_HUMAN	hypothetical protein LOC125228	226	DUF1279.					integral to membrane				breast(2)	2						CCTTGACGGGTGGCGGCGTGG	0.468													10	31					0	0	1	0	0		G	13666620	G	G	13666620	2	3	89	1	0	0	0	0	0	0	0	1	1899	1683	59	5		5	C18orf19	18	13666620	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	597467	13666620	64410628	5874	59705											
RNMT	8731	broad.mit.edu	37	chr18	13734563	13734563	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcgtattttttacctaaGaaactttaataattggatga	15	16	6	4	1	0	2	0	1	0	1	1	3	0	3	1	1	2	1	1	1	7	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:13734563G>T	uc002ksk.1	+	3	585	c.518G>T	c.(517-519)AGA>ATA	p.R173I	RNMT_uc002ksl.1_Missense_Mutation_p.R173I|RNMT_uc002ksm.1_Missense_Mutation_p.R173I|RNMT_uc010dlk.2_Missense_Mutation_p.R173I|RNMT_uc010xae.1_RNA	NM_003799	NP_003790	O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	173					mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	mRNA (guanine-N7-)-methyltransferase activity|RNA binding				0						TTTTACCTAAGAAACTTTAAT	0.363													25	51					7.92952e-12	8.72397e-12	1	1	0		T	13734563	T	T	13734563	3	4	89	1	0	0	0	0	1	0	0	0	13531	942	33	5	524	5	RNMT	18	13734563	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	67943	13734563	64342685	5875	59706											
POTEC	388468	broad.mit.edu	37	chr18	14511935	14511935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aattagcatggcaatttcttCctgcaacatgctgttttcac	10	15	6	10	0	2	0	1	0	1	0	3	0	3	0	1	1	4	5	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:14511935C>T	uc010dln.2	-	11	2045	c.1591G>A	c.(1591-1593)GAA>AAA	p.E531K	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	531	Potential.									skin(3)	3						GCAATTTCTTCCTGCAACATG	0.358													25	56					0	0	1	0	0		T	14511935	T	T	14511935	3	4	89	1	0	0	0	0	1	0	0	0	12281	864	30	4	41	4	POTEC	18	14511935	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	777372	14511935	63565313	5876	59707											
POTEC	388468	broad.mit.edu	37	chr18	14534909	14534909	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataaccataccttccatatCtatcaagtgcatttaaatta	16	14	2	9	0	2	0	1	0	1	0	3	0	3	0	3	0	3	1	3	0	9	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:14534909C>A	uc010dln.2	-	4	1362	c.908G>T	c.(907-909)AGA>ATA	p.R303I	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	303										skin(3)	3						CCTTCCATATCTATCAAGTGC	0.303													9	75					5.50884e-06	5.70595e-06	1	1	0		A	14534909	A	A	14534909	3	1	89	1	0	0	0	0	1	0	0	0	12281	913	32	5	752	5	POTEC	18	14534909	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	22974	14534909	63542339	5877	59708											
POTEC	388468	broad.mit.edu	37	chr18	14534929	14534929	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatcaagtgcatttaaattAgcttttttcttgattaaaaa	14	18	4	5	0	2	1	1	1	1	0	2	1	2	1	0	0	2	2	0	0	8	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:14534929A>C	uc010dln.2	-	4	1342	c.888T>G	c.(886-888)GCT>GCG	p.A296A	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	296	ANK 5.									skin(3)	3						CATTTAAATTAGCTTTTTTCT	0.308													13	95					0	0	1	0	0		C	14534929	C	C	14534929	2	2	89	1	0	0	0	0	0	0	0	1	12281	407	15	5		5	POTEC	18	14534929	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	20	14534929	63542319	5878	59709											
ROCK1	6093	broad.mit.edu	37	chr18	18622574	18622574	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccgaccaccagtcacattCtcttccataataaccatcac	14	9	2	16	1	3	0	2	0	1	0	5	1	4	0	5	0	2	0	5	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:18622574C>A	uc002kte.2	-	7	1713	c.772G>T	c.(772-774)GAA>TAA	p.E258*		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	258	Protein kinase.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					CAGTCACATTCTCTTCCATAA	0.393													47	81					7.88023e-25	9.47942e-25	1	1	0		A	18622574	A	A	18622574	4	1	89	1	0	0	0	0	0	1	0	0	13542	922	32	5	3400	5	ROCK1	18	18622574	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4087645	18622574	59454674	5879	59710											
ROCK1	6093	broad.mit.edu	37	chr18	18629740	18629740	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attctcattaaaataacctaCcaattgaacttctccaaatg	16	13	2	10	0	2	1	1	1	2	0	4	1	2	1	3	0	3	0	3	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:18629740C>T	uc002kte.2	-	3	1217	c.276_splice	c.e3+1	p.L92_splice		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein						actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					AAATAACCTACCAATTGAACT	0.274													21	46					0	0	1	0	0		T	18629740	T	T	18629740	5	4	89	1	0	0	0	0	0	0	1	0	13542	521	18	4	3911	4	ROCK1	18	18629740	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7166	18629740	59447508	5880	59711											
ESCO1	114799	broad.mit.edu	37	chr18	19144267	19144267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttaggcaaagaatgatttCgtggtgtctcccttaaaaaa	14	12	8	7	1	1	2	0	1	1	1	3	2	1	2	1	2	0	1	1	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:19144267C>T	uc002kth.1	-	7	2652	c.1718G>A	c.(1717-1719)CGA>CAA	p.R573Q	ESCO1_uc002kti.1_RNA	NM_052911	NP_443143	Q5FWF5	ESCO1_HUMAN	establishment of cohesion 1 homolog 1	573					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding				0						AGAATGATTTCGTGGTGTCTC	0.289													8	18					0	0	1	0	0		T	19144267	T	T	19144267	3	4	89	1	0	0	0	0	1	0	0	0	5256	884	31	1	828	1	ESCO1	18	19144267	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	514527	19144267	58932981	5881	59712											
ESCO1	114799	broad.mit.edu	37	chr18	19153793	19153793	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtctcttccaattttatttCtgtgggcttttcttccttta	4	22	6	9	0	3	0	0	0	3	0	6	0	5	0	2	2	0	1	2	2	3	9	rs149446864		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:19153793C>T	uc002kth.1	-	4	1946	c.1012G>A	c.(1012-1014)GAA>AAA	p.E338K	ESCO1_uc002kti.1_RNA	NM_052911	NP_443143	Q5FWF5	ESCO1_HUMAN	establishment of cohesion 1 homolog 1	338					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding				0						AATTTTATTTCTGTGGGCTTT	0.358													31	107					0	0	1	0	0		T	19153793	T	T	19153793	3	4	89	1	0	0	0	0	1	0	0	0	5256	922	32	4	1546	4	ESCO1	18	19153793	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9526	19153793	58923455	5882	59713											
ABHD3	171586	broad.mit.edu	37	chr18	19284546	19284546	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccacccccgagccgaaGaaccccacccggacttggtg	10	3	10	18	3	0	1	0	0	0	1	0	4	0	2	7	2	3	0	7	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:19284546G>T	uc002ktl.2	-	1	221	c.81C>A	c.(79-81)TTC>TTA	p.F27L	ABHD3_uc002ktm.2_Missense_Mutation_p.F27L|ABHD3_uc010xao.1_RNA|MIB1_uc002ktp.2_5'Flank|ABHD3_uc002kto.2_Missense_Mutation_p.F27L	NM_138340	NP_612213	Q8WU67	ABHD3_HUMAN	alpha/beta hydrolase domain containing protein	27	Helical; Signal-anchor for type II membrane protein; (Potential).					integral to membrane	carboxylesterase activity			central_nervous_system(1)	1						CCGAGCCGAAGAACCCCACCC	0.657													3	11					0.00909568	0.00917068	1	1	0		T	19284546	T	T	19284546	3	4	89	1	0	0	0	0	1	0	0	0	83	933	33	5	1184	5	ABHD3	18	19284546	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	130753	19284546	58792702	5883	59714											
MIB1	57534	broad.mit.edu	37	chr18	19371466	19371466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtttgttatgacctggaacGaattaaacttctacaaagag	15	12	8	6	1	1	2	0	1	1	1	1	4	1	3	1	1	3	2	1	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:19371466G>A	uc002ktq.2	+	7	1040	c.1040G>A	c.(1039-1041)CGA>CAA	p.R347Q	MIB1_uc002ktp.2_5'UTR	NM_020774	NP_065825	Q86YT6	MIB1_HUMAN	mindbomb homolog 1	347					Notch signaling pathway	centrosome|nuclear membrane|plasma membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(4)	4			STAD - Stomach adenocarcinoma(5;0.212)			GACCTGGAACGAATTAAACTT	0.428													46	83					0	0	1	0	0		A	19371466	A	A	19371466	3	1	89	1	0	0	0	0	1	0	0	0	9584	1058	37	1	1066	1	MIB1	18	19371466	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	86920	19371466	58705782	5884	59715											
CTAGE1	64693	broad.mit.edu	37	chr18	19996468	19996468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtttctttcagcagtccaaGctgccgaccaattatcatgt	9	13	8	11	1	3	0	2	0	1	0	4	1	4	0	3	1	3	3	3	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:19996468G>A	uc002ktv.1	-	1	1411	c.1307C>T	c.(1306-1308)GCT>GTT	p.A436V		NM_172241	NP_758441	Q96RT6	CTGE2_HUMAN	cutaneous T-cell lymphoma-associated antigen 1	436						integral to membrane				ovary(1)	1	all_cancers(21;0.000361)|all_epithelial(16;9.61e-06)|Colorectal(14;0.0533)|Lung NSC(20;0.0605)|Ovarian(2;0.116)|all_lung(20;0.135)					AGCAGTCCAAGCTGCCGACCA	0.299													34	79					0	0	1	0	0		A	19996468	A	A	19996468	3	1	89	1	0	0	0	0	1	0	0	0	3995	971	34	2	934	2	CTAGE1	18	19996468	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	625002	19996468	58080780	5885	59716											
C18orf8	29919	broad.mit.edu	37	chr18	21095901	21095901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgtactgccccgagagcGccgtgatcttgctgtctacc	7	10	10	14	3	2	2	0	1	2	1	2	3	2	2	4	0	5	2	4	0	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:21095901G>A	uc010xax.1	+	6	611	c.490G>A	c.(490-492)GCC>ACC	p.A164T	C18orf8_uc010xau.1_Missense_Mutation_p.A7T|C18orf8_uc010xav.1_Missense_Mutation_p.A116T|C18orf8_uc010xaw.1_Missense_Mutation_p.A7T|C18orf8_uc002kul.2_RNA	NM_013326	NP_037458	Q96DM3	MIC1_HUMAN	colon cancer-associated protein Mic1	164										ovary(1)	1	all_cancers(21;0.000122)|all_epithelial(16;8.08e-07)|Lung NSC(20;0.00206)|all_lung(20;0.00659)|Colorectal(14;0.0202)|Ovarian(20;0.127)					CCCCGAGAGCGCCGTGATCTT	0.478											OREG0024894	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	48	98					0	0	1	0	0		A	21095901	A	A	21095901	3	1	89	1	0	0	0	0	1	0	0	0	1910	1087	38	1	512	1	C18orf8	18	21095901	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1099433	21095901	56981347	5886	59717											
LAMA3	3909	broad.mit.edu	37	chr18	21404477	21404477	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttttgcagacccattttCaatcacaccaggaatatggg	11	12	9	9	0	2	1	2	0	0	1	2	2	2	2	2	3	1	2	2	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:21404477C>A	uc002kuq.2	+	21	2605	c.2519C>A	c.(2518-2520)TCA>TAA	p.S840*	LAMA3_uc002kur.2_Nonsense_Mutation_p.S840*	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	840	Domain IV 1 (domain IV B).				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GACCCATTTTCAATCACACCA	0.468													35	87					3.11337e-16	3.5706e-16	1	1	0		A	21404477	A	A	21404477	4	1	89	1	0	0	0	0	0	1	0	0	8623	838	29	5	2601	5	LAMA3	18	21404477	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	308576	21404477	56672771	5887	59718											
LAMA3	3909	broad.mit.edu	37	chr18	21461926	21461926	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcacaacaccgcgggagaGcactgtgaacgctgccagga	12	3	13	13	3	0	2	0	1	0	1	0	4	0	3	2	2	5	3	2	2	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:21461926G>T	uc002kuq.2	+	40	5225	c.5139G>T	c.(5137-5139)GAG>GAT	p.E1713D	LAMA3_uc002kur.2_Missense_Mutation_p.E1713D|LAMA3_uc002kus.3_Missense_Mutation_p.E104D|LAMA3_uc002kut.3_Missense_Mutation_p.E104D	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1713	Domain III A.|Laminin EGF-like 13.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCGCGGGAGAGCACTGTGAAC	0.542													8	18					0.0477658	0.0479884	1	1	0		T	21461926	T	T	21461926	3	4	89	1	0	0	0	0	1	0	0	0	8623	962	34	5	5472	5	LAMA3	18	21461926	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	57449	21461926	56615322	5888	59719											
ZNF521	25925	broad.mit.edu	37	chr18	22805217	22805217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaggctgccccacaaatgtCgcagccgtacataggctcag	10	7	11	13	2	1	0	1	0	0	0	2	0	1	0	3	2	3	5	3	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:22805217C>T	uc002kvk.2	-	4	2912	c.2665G>A	c.(2665-2667)GAC>AAC	p.D889N	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.D889N|ZNF521_uc002kvl.2_Missense_Mutation_p.D669N	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	889	C2H2-type 21; degenerate.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					CCACAAATGTCGCAGCCGTAC	0.522			T	PAX5	ALL								36	56					0	0	1	0	0		T	22805217	T	T	22805217	3	4	89	1	0	0	0	0	1	0	0	0	17990	884	31	1	1290	1	ZNF521	18	22805217	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1343291	22805217	55272031	5889	59720											
TAF4B	6875	broad.mit.edu	37	chr18	23895348	23895348	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattggagctctacaaaagaGaattttagacattggtaagt	15	13	9	4	0	1	2	0	0	1	2	1	4	1	3	0	2	2	2	0	2	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:23895348G>T	uc002kvu.3	+	10	2477	c.1988G>T	c.(1987-1989)AGA>ATA	p.R663I	TAF4B_uc002kvs.3_RNA|TAF4B_uc002kvt.3_Missense_Mutation_p.R668I	NM_005640	NP_005631	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding	663	Histone-fold.				transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			CTACAAAAGAGAATTTTAGAC	0.358													21	35					1.55795e-14	1.75964e-14	1	1	0		T	23895348	T	T	23895348	3	4	89	1	0	0	0	0	1	0	0	0	15552	942	33	5	2026	5	TAF4B	18	23895348	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1090131	23895348	54181900	5890	59721											
CHST9	83539	broad.mit.edu	37	chr18	24722665	24722665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtgttacctgtatgttgttCttcaatccagacttgcaaat	9	17	7	8	0	2	1	1	0	1	1	3	1	3	1	2	0	2	5	2	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:24722665C>T	uc002kwd.2	-	1	307	c.109G>A	c.(109-111)GAA>AAA	p.E37K	C18orf16_uc010xbm.1_Intron|CHST9_uc002kwe.2_Missense_Mutation_p.E37K	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	37	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					GTATGTTGTTCTTCAATCCAG	0.328													27	51					0	0	1	0	0		T	24722665	T	T	24722665	3	4	89	1	0	0	0	0	1	0	0	0	3414	922	32	4	1242	4	CHST9	18	24722665	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	827317	24722665	53354583	5891	59722											
DSC2	1824	broad.mit.edu	37	chr18	28669436	28669436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctcacgatctacaggaCgagtacaatacaagtttcca	14	9	7	11	2	2	0	1	0	1	0	3	3	3	1	1	1	4	3	1	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:28669436C>T	uc002kwl.3	-	5	1050	c.596G>A	c.(595-597)CGT>CAT	p.R199H	DSC2_uc002kwk.3_Missense_Mutation_p.R199H	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	199	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			ATCTACAGGACGAGTACAATA	0.383													39	63					0	0	1	0	0		T	28669436	T	T	28669436	3	4	89	1	0	0	0	0	1	0	0	0	4772	536	19	1	2197	1	DSC2	18	28669436	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3946771	28669436	49407812	5892	59723											
DSG1	1828	broad.mit.edu	37	chr18	28925982	28925982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaatgagtatggtggcagaGaaatgcaagatctgggagga	15	7	15	4	0	1	3	0	1	1	2	1	6	1	5	0	4	1	3	0	4	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:28925982G>A	uc002kwp.2	+	14	2133	c.1921G>A	c.(1921-1923)GAA>AAA	p.E641K	DSG1_uc010xbp.1_5'UTR	NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	641	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			TGGTGGCAGAGAAATGCAAGA	0.353													26	35					0	0	1	0	0		A	28925982	A	A	28925982	3	1	89	1	0	0	0	0	1	0	0	0	4782	943	33	4	1975	4	DSG1	18	28925982	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	256546	28925982	49151266	5893	59724											
DSG4	147409	broad.mit.edu	37	chr18	28971169	28971169	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatttccccaccttagagaaAacttcagtaagtttgtattc	13	14	5	9	0	1	1	1	0	0	1	3	2	2	1	3	0	1	3	3	0	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:28971169A>C	uc002kwq.2	+	7	948	c.813A>C	c.(811-813)AAA>AAC	p.K271N	DSG4_uc002kwr.2_Missense_Mutation_p.K271N	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	271	Cadherin 3.|Extracellular (Potential).		Missing (in LAH1).		homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			CCTTAGAGAAAACTTCAGTAA	0.403													27	58					0	0	1	0	0		C	28971169	C	C	28971169	3	2	89	1	0	0	0	0	1	0	0	0	4785	11	1	5	839	5	DSG4	18	28971169	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	45187	28971169	49106079	5894	59725											
DSG2	1829	broad.mit.edu	37	chr18	29122786	29122786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagctgctgttgcactgaacGaagaattcttaagaaattat	14	12	8	7	1	1	3	0	1	1	2	1	4	1	3	0	0	4	4	0	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:29122786G>A	uc002kwu.3	+	14	2493	c.2305G>A	c.(2305-2307)GAA>AAA	p.E769K	uc002kwv.3_Intron	NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	769	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			TGCACTGAACGAAGAATTCTT	0.478													25	51					0	0	1	0	0		A	29122786	A	A	29122786	3	1	89	1	0	0	0	0	1	0	0	0	4783	1059	37	1	2359	1	DSG2	18	29122786	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	151617	29122786	48954462	5895	59726											
MCART2	147407	broad.mit.edu	37	chr18	29340392	29340392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggattccacgatacaaatttCgaaatccatcccttctcaac	13	11	4	13	2	1	0	1	0	1	0	6	3	4	1	3	1	2	0	3	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:29340392C>T	uc002kxa.2	-	1	452	c.233G>A	c.(232-234)CGA>CAA	p.R78Q		NM_001034172	NP_001029344	Q3SY17	MCAR2_HUMAN	mitochondrial carrier triple repeat 2	78	Solcar 1.				transport	integral to membrane|mitochondrial inner membrane				skin(1)	1			OV - Ovarian serous cystadenocarcinoma(10;0.0539)			ATACAAATTTCGAAATCCATC	0.463													43	97					0	0	1	0	0		T	29340392	T	T	29340392	3	4	89	1	0	0	0	0	1	0	0	0	9388	884	31	1	664	1	MCART2	18	29340392	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	217606	29340392	48736856	5896	59727											
RNF138	51444	broad.mit.edu	37	chr18	29693732	29693732	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctatcgcatgagacatCattacaaatcttgtaagaag	16	12	6	7	1	3	2	1	1	2	2	4	3	3	2	0	0	1	2	0	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:29693732C>A	uc002kxg.2	+	4	740	c.301C>A	c.(301-303)CAT>AAT	p.H101N	RNF138_uc002kxh.2_Intron	NM_016271	NP_057355	Q8WVD3	RN138_HUMAN	ring finger protein 138 isoform 1	101					Wnt receptor signaling pathway	intracellular	ligase activity|protein kinase binding|zinc ion binding				0						CATGAGACATCATTACAAATC	0.294													16	42					1.99824e-07	2.09758e-07	1	1	0		A	29693732	A	A	29693732	3	1	89	1	0	0	0	0	1	0	0	0	13466	826	29	5	311	5	RNF138	18	29693732	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	353340	29693732	48383516	5897	59728											
C18orf34	374864	broad.mit.edu	37	chr18	30554590	30554590	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctggctgaagaggaccAccagtttgaagtgctcctgc	9	10	11	11	0	2	3	1	2	1	1	3	4	3	4	3	2	2	3	3	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:30554590A>G	uc002kxn.2	-	21	2586	c.2444T>C	c.(2443-2445)GTG>GCG	p.V815A	C18orf34_uc010xbq.1_RNA|C18orf34_uc010dme.1_Missense_Mutation_p.V279A|C18orf34_uc010xbr.1_Missense_Mutation_p.V839A|C18orf34_uc010dmf.1_Missense_Mutation_p.V135A|C18orf34_uc002kxo.2_Missense_Mutation_p.V777A|C18orf34_uc002kxp.2_Missense_Mutation_p.V815A	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	815										ovary(1)	1						GAAGAGGACCACCAGTTTGAA	0.507													21	55					0	0	1	0	0		G	30554590	G	G	30554590	3	3	89	1	0	0	0	0	1	0	0	0	1905	159	6	3	167	3	C18orf34	18	30554590	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	860858	30554590	47522658	5898	59729											
ASXL3	80816	broad.mit.edu	37	chr18	31323516	31323516	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctttttaataaaaattCtgtccctgtatctgtttgca	10	18	5	8	0	2	0	0	0	2	0	3	0	3	0	1	0	2	4	1	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:31323516C>A	uc010dmg.1	+	12	3759	c.3704C>A	c.(3703-3705)TCT>TAT	p.S1235Y	ASXL3_uc002kxq.2_Missense_Mutation_p.S942Y	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1235	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						AATAAAAATTCTGTCCCTGTA	0.373													25	43					4.26978e-12	4.71084e-12	1	1	0		A	31323516	A	A	31323516	3	1	89	1	0	0	0	0	1	0	0	0	1069	913	32	5	3750	5	ASXL3	18	31323516	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	768926	31323516	46753732	5899	59730											
NOL4	8715	broad.mit.edu	37	chr18	31599432	31599432	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcactcaggttcagtggCtgttcatcttgctccagccc	5	13	9	14	0	5	0	4	0	1	0	6	0	6	0	2	2	2	4	2	2	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:31599432C>T	uc010dmi.2	-	6	1135	c.906G>A	c.(904-906)CAG>CAA	p.Q302Q	NOL4_uc010xbs.1_Silent_p.Q17Q|NOL4_uc002kxr.3_Silent_p.Q138Q|NOL4_uc010xbt.1_Silent_p.Q228Q|NOL4_uc010dmh.2_Silent_p.Q228Q|NOL4_uc010xbu.1_Silent_p.Q302Q|NOL4_uc002kxt.3_Silent_p.Q302Q|NOL4_uc010xbv.1_Silent_p.Q51Q|NOL4_uc010xbw.1_Silent_p.Q188Q	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	302						nucleolus	RNA binding			ovary(3)	3						GGTTCAGTGGCTGTTCATCTT	0.483													21	68					0	0	1	0	0		T	31599432	T	T	31599432	2	4	89	1	0	0	0	0	0	0	0	1	10543	796	28	2		2	NOL4	18	31599432	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	275916	31599432	46477816	5900	59731											
DTNA	1837	broad.mit.edu	37	chr18	32431887	32431887	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctgagctagaaaacaaGaacaggtgagactttgtaga	16	9	11	5	0	0	5	0	2	0	4	0	6	0	5	0	1	4	3	0	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:32431887G>T	uc010dmn.1	+	14	1447	c.1446G>T	c.(1444-1446)AAG>AAT	p.K482N	DTNA_uc010xbx.1_Missense_Mutation_p.K232N|DTNA_uc002kxv.3_Missense_Mutation_p.K425N|DTNA_uc002kxw.2_Missense_Mutation_p.K425N|DTNA_uc010dmj.2_Missense_Mutation_p.K422N|DTNA_uc002kxz.2_Missense_Mutation_p.K422N|DTNA_uc002kxy.2_Missense_Mutation_p.K422N|DTNA_uc010dml.2_Missense_Mutation_p.K422N|DTNA_uc002kyb.3_Missense_Mutation_p.K479N|DTNA_uc010dmm.2_Missense_Mutation_p.K482N|DTNA_uc010xby.1_Missense_Mutation_p.K172N|DTNA_uc010dmo.2_Missense_Mutation_p.K104N|DTNA_uc002kyd.3_Missense_Mutation_p.K104N|DTNA_uc010xbz.1_Missense_Mutation_p.K191N|DTNA_uc010xca.1_Missense_Mutation_p.K134N|DTNA_uc002kye.2_Missense_Mutation_p.K130N	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	482	Potential.				neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						TAGAAAACAAGAACAGGTGAG	0.453													11	35					0.000673444	0.000684558	1	1	0		T	32431887	T	T	32431887	3	4	89	1	0	0	0	0	1	0	0	0	4794	933	33	5	1535	5	DTNA	18	32431887	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	832455	32431887	45645361	5901	59732											
ZNF397OS	100101467	broad.mit.edu	37	chr18	32833515	32833515	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcttctctccagtgtgaaTtctctggtgctgggtgaggg	5	13	15	8	0	2	2	0	2	2	0	5	2	3	2	1	4	1	2	1	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:32833515T>G	uc002kym.2	-	4	1612	c.1384A>C	c.(1384-1386)ATT>CTT	p.I462L	ZNF397_uc010dmq.2_Intron|ZNF397_uc010dmr.2_Intron|ZNF397_uc002kyj.2_Intron|ZNF397OS_uc002kyl.2_Missense_Mutation_p.E49D|ZNF397OS_uc010xce.1_Missense_Mutation_p.I462L	NM_001112734	NP_001106205	Q86W11	ZSC30_HUMAN	zinc finger protein 397 opposite strand	462	C2H2-type 6.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCAGTGTGAATTCTCTGGTGC	0.408													29	62					0	0	1	0	0		G	32833515	G	G	32833515	3	3	89	1	0	0	0	0	1	0	0	0	17909	1493	52	5	104	5	ZNF397OS	18	32833515	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	401628	32833515	45243733	5902	59733											
ZNF397	84307	broad.mit.edu	37	chr18	32837896	32837896	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctctccattacagatttTtcctgaagaacacatcgtca	11	14	4	12	1	3	3	1	1	2	2	7	3	4	3	2	0	2	0	2	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:32837896T>C	uc002kyj.2	+	6	957	c.822T>C	c.(820-822)TTT>TTC	p.F274F	ZNF397_uc010dmq.2_Silent_p.F244F|ZNF397_uc010dmr.2_RNA|ZNF397OS_uc002kym.2_Intron|ZNF397OS_uc010xce.1_Intron	NM_032347	NP_115723	Q8NF99	ZN397_HUMAN	zinc finger protein 397 isoform 2	Error:Variant_position_missing_in_Q8NF99_after_alignment					viral reproduction	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ttacagatttttcctgaagaa	0.08													61	93					0	0	1	0	0		C	32837896	C	C	32837896	2	2	89	1	0	0	0	0	0	0	0	1	17908	1838	64	3		3	ZNF397	18	32837896	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4381	32837896	45239352	5903	59734											
SLC39A6	25800	broad.mit.edu	37	chr18	33689577	33689577	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagaaatttatacgaaacacGattttatgttcaaatatgga	17	14	6	4	2	1	1	1	0	0	1	1	4	1	2	0	1	2	1	0	1	8	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:33689577G>A	uc010dmy.2	-	10	2537	c.2247C>T	c.(2245-2247)ATC>ATT	p.I749I		NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	749	Extracellular (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						TACGAAACACGATTTTATGTT	0.348													44	62					0	0	1	0	0		A	33689577	A	A	33689577	2	1	89	1	0	0	0	0	0	0	0	1	14647	1048	37	1		1	SLC39A6	18	33689577	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	851681	33689577	44387671	5904	59735											
SLC39A6	25800	broad.mit.edu	37	chr18	33706546	33706546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtctgggcaaagagcttttCgcttatttttaccagaagca	10	13	10	8	1	1	2	0	0	1	2	2	2	1	2	1	2	3	4	1	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:33706546C>T	uc010dmy.2	-	2	715	c.425G>A	c.(424-426)CGA>CAA	p.R142Q	SLC39A6_uc002kzj.2_Intron	NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	142	Extracellular (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						AAGAGCTTTTCGCTTATTTTT	0.294													19	66					0	0	1	0	0		T	33706546	T	T	33706546	3	4	89	1	0	0	0	0	1	0	0	0	14647	884	31	1	1890	1	SLC39A6	18	33706546	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	16969	33706546	44370702	5905	59736											
ELP2	55250	broad.mit.edu	37	chr18	33726217	33726217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctgttattgtacaggttcGagtaggtgaagtaggtggga	9	13	16	3	1	1	1	0	1	1	0	2	3	1	2	0	4	1	5	0	4	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:33726217G>A	uc002kzk.1	+	11	1008	c.998G>A	c.(997-999)CGA>CAA	p.R333Q	ELP2_uc010xcg.1_Missense_Mutation_p.R398Q|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Missense_Mutation_p.R307Q|ELP2_uc010xch.1_Intron|ELP2_uc002kzn.1_Intron|ELP2_uc002kzo.1_Missense_Mutation_p.R263Q	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	333					regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						GTACAGGTTCGAGTAGGTGAA	0.398													84	144					0	0	1	0	0		A	33726217	A	A	33726217	3	1	89	1	0	0	0	0	1	0	0	0	5088	1058	37	1	1040	1	ELP2	18	33726217	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	19671	33726217	44351031	5906	59737											
MOCOS	55034	broad.mit.edu	37	chr18	33840070	33840070	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttcgtgccaatattattAtcaatggaaaaagggctttt	12	16	8	5	1	1	0	1	0	0	0	2	1	1	1	1	2	1	2	1	2	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:33840070A>C	uc002kzq.3	+	13	2364	c.2341A>C	c.(2341-2343)ATC>CTC	p.I781L		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	781	MOSC.				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	CAATATTATTATCAATGGAAA	0.383													72	136					0	0	1	0	0		C	33840070	C	C	33840070	3	2	89	1	0	0	0	0	1	0	0	0	9707	449	16	5	2391	5	MOCOS	18	33840070	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	113853	33840070	44237178	5907	59738											
C18orf10	25941	broad.mit.edu	37	chr18	34376819	34376819	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggatttagaagtggaggaAgtggagggaccggagggtcc	11	6	20	4	1	0	1	0	0	0	1	1	8	1	7	2	7	0	0	2	7	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:34376819A>C	uc002kzw.1	-	7	1280	c.852T>G	c.(850-852)ACT>ACG	p.T284T	C18orf10_uc002kzv.1_Intron|C18orf10_uc010xci.1_Silent_p.T249T|C18orf10_uc002kzx.1_Silent_p.T241T	NM_015476	NP_056291	Q68CL5	TPGS2_HUMAN	tubulin polyglutamylase complex subunit 2	284						cytoplasm|microtubule				skin(1)	1						AAGTGGAGGAAGTGGAGGGAC	0.562													30	60					0	0	1	0	0		C	34376819	C	C	34376819	2	2	89	1	0	0	0	0	0	0	0	1	1898	59	3	5		5	C18orf10	18	34376819	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	536749	34376819	43700429	5908	59739											
CELF4	56853	broad.mit.edu	37	chr18	34854414	34854414	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaccagactggacgaggCtccctgcggccggggcggcg	6	3	17	15	5	0	1	0	0	0	1	1	4	1	2	4	6	1	1	4	6	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:34854414C>A	uc002lae.2	-	6	1057	c.661G>T	c.(661-663)GCC>TCC	p.A221S	CELF4_uc010dnd.1_Missense_Mutation_p.A220S|CELF4_uc002lag.2_Missense_Mutation_p.A211S|CELF4_uc002laf.2_Missense_Mutation_p.A216S|CELF4_uc002lai.2_Missense_Mutation_p.A206S|CELF4_uc002lah.1_5'Flank|CELF4_uc002laj.1_Missense_Mutation_p.S56I	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	221	Sufficient for RNA-binding and MSE- dependent splicing activity.|RRM 2.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						CTGGACGAGGCTCCCTGCGGC	0.701													38	71					7.91308e-09	8.44832e-09	1	1	0		A	34854414	A	A	34854414	3	1	89	1	0	0	0	0	1	0	0	0	3221	797	28	5	827	5	CELF4	18	34854414	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	477595	34854414	43222834	5909	59740											
PIK3C3	5289	broad.mit.edu	37	chr18	39537548	39537548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttcagaggaagcttggaaGggaagagagaacaaaagagt	17	6	14	4	0	1	4	1	0	0	4	1	8	1	7	0	3	2	1	0	3	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:39537548G>A	uc002lap.2	+	2	140	c.82G>A	c.(82-84)GGG>AGG	p.G28R	PIK3C3_uc010xcl.1_Intron|PIK3C3_uc002lao.2_Missense_Mutation_p.G28R	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	28					cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						AAGCTTGGAAGGGAAGAGAGA	0.363										TSP Lung(28;0.18)			21	39					0	0	1	0	0		A	39537548	A	A	39537548	3	1	89	1	0	0	0	0	1	0	0	0	11931	1000	35	4	88	4	PIK3C3	18	39537548	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4683134	39537548	38539700	5910	59741											
PIK3C3	5289	broad.mit.edu	37	chr18	39593453	39593453	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccaggctctcaaatatgaAaattttgatgatataaagaa	17	12	7	5	0	1	4	1	3	1	1	3	4	2	4	1	1	0	1	1	1	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:39593453A>C	uc002lap.2	+	11	1276	c.1218A>C	c.(1216-1218)GAA>GAC	p.E406D	PIK3C3_uc010xcl.1_Missense_Mutation_p.E343D	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	406					cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						TCAAATATGAAAATTTTGATG	0.303										TSP Lung(28;0.18)			48	88					0	0	1	0	0		C	39593453	C	C	39593453	3	2	89	1	0	0	0	0	1	0	0	0	11931	11	1	5	1260	5	PIK3C3	18	39593453	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	55905	39593453	38483795	5911	59742											
SETBP1	26040	broad.mit.edu	37	chr18	42532601	42532601	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acctcagttccacacaaactCccacgtaaagatgtccggtg	12	8	7	14	2	1	1	1	0	0	1	4	1	4	1	4	1	1	2	4	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:42532601C>A	uc010dni.2	+	4	3592	c.3296C>A	c.(3295-3297)TCC>TAC	p.S1099Y		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1099						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		CACACAAACTCCCACGTAAAG	0.542									Schinzel-Giedion_syndrome				23	51					1.10923e-09	1.19438e-09	1	1	0		A	42532601	A	A	42532601	3	1	89	1	0	0	0	0	1	0	0	0	14154	855	30	5	3499	5	SETBP1	18	42532601	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2939148	42532601	35544647	5912	59743											
KIAA1632	57724	broad.mit.edu	37	chr18	43459029	43459029	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacaggtcatttctaagtCaatcagccttttcacaaggt	13	12	6	10	0	5	0	4	0	1	0	5	0	5	0	1	2	2	0	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:43459029C>A	uc002lbm.2	-	33	5918	c.5818G>T	c.(5818-5820)GAC>TAC	p.D1940Y	KIAA1632_uc010xcq.1_Missense_Mutation_p.D494Y|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.D815Y	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1940					autophagy						0						ATTTCTAAGTCAATCAGCCTT	0.418													34	66					1.03484e-13	1.15859e-13	1	1	0		A	43459029	A	A	43459029	3	1	89	1	0	0	0	0	1	0	0	0	8265	826	29	5	1969	5	KIAA1632	18	43459029	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	926428	43459029	34618219	5913	59744											
KIAA1632	57724	broad.mit.edu	37	chr18	43502362	43502362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccaatgggcatgcccgCtttcacagccttcaagagag	11	7	10	13	1	2	1	2	0	0	1	2	2	2	1	3	1	3	2	3	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:43502362C>T	uc002lbm.2	-	16	3143	c.3043G>A	c.(3043-3045)GCG>ACG	p.A1015T	KIAA1632_uc002lbo.1_Missense_Mutation_p.A1015T	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1015					autophagy						0						GGCATGCCCGCTTTCACAGCC	0.507													19	50					0	0	1	0	0		T	43502362	T	T	43502362	3	4	89	1	0	0	0	0	1	0	0	0	8265	797	28	2	4812	2	KIAA1632	18	43502362	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	43333	43502362	34574886	5914	59745											
KIAA1632	57724	broad.mit.edu	37	chr18	43519684	43519684	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttggttatggctcacatActgtgcccaatggtcactta	8	13	9	11	0	2	0	2	0	0	0	2	0	2	0	2	3	2	2	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:43519684A>G	uc002lbm.2	-	10	2081	c.1981T>C	c.(1981-1983)TAT>CAT	p.Y661H	KIAA1632_uc002lbo.1_Missense_Mutation_p.Y661H	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	661					autophagy						0						TGGCTCACATACTGTGCCCAA	0.418													18	29					0	0	1	0	0		G	43519684	G	G	43519684	3	3	89	1	0	0	0	0	1	0	0	0	8265	391	14	3	5898	3	KIAA1632	18	43519684	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	17322	43519684	34557564	5915	59746											
TCEB3B	51224	broad.mit.edu	37	chr18	44561339	44561339	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtcctgaagagcctccccGaagcgctgtcgggaagcgct	7	7	14	13	4	0	2	0	1	0	1	3	4	2	3	4	2	3	2	4	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:44561339G>A	uc002lcr.1	-	1	650	c.297C>T	c.(295-297)TTC>TTT	p.F99F	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	99					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GAGCCTCCCCGAAGCGCTGTC	0.657													25	47					0	0	1	0	0		A	44561339	A	A	44561339	2	1	89	1	0	0	0	0	0	0	0	1	15707	1049	37	1		1	TCEB3B	18	44561339	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1041655	44561339	33515909	5916	59747											
HDHD2	84064	broad.mit.edu	37	chr18	44662730	44662730	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttaagagcttcctgtgcGcctggcacagctgcatcttc	6	13	9	13	1	1	1	0	0	1	1	3	1	2	1	2	1	4	4	2	1	1	4	rs147000827		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:44662730G>A	uc002lcs.2	-	2	214	c.81C>T	c.(79-81)GGC>GGT	p.G27G	HDHD2_uc002lct.2_5'UTR	NM_032124	NP_115500	Q9H0R4	HDHD2_HUMAN	haloacid dehalogenase-like hydrolase domain	27							hydrolase activity				0						CTTCCTGTGCGCCTGGCACAG	0.463													23	39					0	0	1	0	0		A	44662730	A	A	44662730	2	1	89	1	0	0	0	0	0	0	0	1	7039	1074	38	1		1	HDHD2	18	44662730	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	101391	44662730	33414518	5917	59748											
RPL17	6139	broad.mit.edu	37	chr18	47014895	47014895	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttaatgctgaatttactcCcgtgccataagtttttgttt	8	20	6	7	1	0	1	0	1	0	0	1	1	1	1	2	0	3	3	2	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:47014895C>T	uc002ldo.2	-	6	818	c.549G>A	c.(547-549)CGG>CGA	p.R183R	C18orf32_uc002ldk.1_5'Flank|C18orf32_uc002ldl.2_5'Flank|C18orf32_uc002ldm.1_Intron|RPL17_uc002ldn.2_Silent_p.R145R|RPL17_uc002ldp.2_Silent_p.R183R|RPL17_uc002ldq.2_Silent_p.R183R|RPL17_uc010xdg.1_Silent_p.R145R	NM_001035006	NP_001030178	P18621	RL17_HUMAN	ribosomal protein L17	183					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|large ribosomal subunit	structural constituent of ribosome				0						GAATTTACTCCCGTGCCATAA	0.328													6	21					0	0	1	0	0		T	47014895	T	T	47014895	2	4	89	1	0	0	0	0	0	0	0	1	13588	610	22	4		4	RPL17	18	47014895	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2352165	47014895	31062353	5918	59749											
MAPK4	5596	broad.mit.edu	37	chr18	48241532	48241532	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aataactacaccaaagccatCgacatgtgggccgccggctg	12	6	10	13	3	0	0	0	0	0	0	1	1	0	0	4	2	3	1	4	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:48241532C>T	uc002lev.2	+	3	1630	c.630C>T	c.(628-630)ATC>ATT	p.I210I	MAPK4_uc010xdm.1_5'UTR|MAPK4_uc010doz.2_Silent_p.I210I	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	210	Protein kinase.				cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		CCAAAGCCATCGACATGTGGG	0.517													20	40					0	0	1	0	0		T	48241532	T	T	48241532	2	4	89	1	0	0	0	0	0	0	0	1	9298	874	31	1		1	MAPK4	18	48241532	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1226637	48241532	29835716	5919	59750											
DCC	1630	broad.mit.edu	37	chr18	50451736	50451736	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcctctgcagagctcacagtCttgggtaagttagtggctgg	7	11	14	9	0	3	1	1	0	2	1	3	1	3	1	1	3	2	5	1	3	2	3	rs147124029		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:50451736C>T	uc002lfe.1	+	5	1568	c.981C>T	c.(979-981)GTC>GTT	p.V327V	DCC_uc010xdr.1_Silent_p.V175V	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	327	Extracellular (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AGCTCACAGTCTTGGGTAAGT	0.373													62	54					0	0	1	0	0		T	50451736	T	T	50451736	2	4	89	1	0	0	0	0	0	0	0	1	4285	900	32	4		4	DCC	18	50451736	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2210204	50451736	27625512	5920	59751											
POLI	11201	broad.mit.edu	37	chr18	51820532	51820532	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaataagtcaaggacctaaaGaacctcaaggattccacttt	16	9	7	9	0	2	1	2	0	0	1	3	4	3	3	3	2	1	0	3	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:51820532G>T	uc002lfj.3	+	10	1986	c.1918G>T	c.(1918-1920)GAA>TAA	p.E640*	POLI_uc010xds.1_Nonsense_Mutation_p.E561*|POLI_uc002lfk.3_Nonsense_Mutation_p.E537*|POLI_uc010dpg.2_Nonsense_Mutation_p.E236*	NM_007195	NP_009126	Q9UNA4	POLI_HUMAN	DNA polymerase iota	640					DNA repair|DNA replication	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding|protein binding			ovary(2)|kidney(1)	3				Colorectal(16;0.0234)|READ - Rectum adenocarcinoma(59;0.197)		AGGACCTAAAGAACCTCAAGG	0.348								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					15	11					1.49906e-05	1.54644e-05	1	1	0		T	51820532	T	T	51820532	4	4	89	1	0	0	0	0	0	1	0	0	12222	943	33	5	1956	5	POLI	18	51820532	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1368796	51820532	26256716	5921	59752											
STARD6	147323	broad.mit.edu	37	chr18	51851142	51851142	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttttgcattgaggatgaAgtttactaagttggaaggca	12	14	11	4	0	1	2	0	2	1	0	1	4	1	4	0	3	2	4	0	3	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:51851142A>C	uc010xdt.1	-	6	583	c.583T>G	c.(583-585)TTC>GTC	p.F195V		NM_139171	NP_631910	P59095	STAR6_HUMAN	START domain containing protein 6	195	START.				lipid transport		lipid binding			ovary(1)	1				Colorectal(16;0.021)|READ - Rectum adenocarcinoma(59;0.188)		TTGAGGATGAAGTTTACTAAG	0.373													38	27					0	0	1	0	0		C	51851142	C	C	51851142	3	2	89	1	0	0	0	0	1	0	0	0	15286	72	3	5	82	5	STARD6	18	51851142	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	30610	51851142	26226106	5922	59753											
C18orf54	162681	broad.mit.edu	37	chr18	51886948	51886948	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactttgaagaagccatggcGaaatcaaagacaaaacatag	19	6	8	8	1	1	3	1	1	0	2	1	4	1	3	1	1	2	0	1	1	7	2	rs139710634	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:51886948G>A	uc002lfn.3	+	2	122	c.6G>A	c.(4-6)GCG>GCA	p.A2A	C18orf54_uc002lfo.3_Silent_p.A2A	NM_173529	NP_775800	Q8IYD9	CR054_HUMAN	hypothetical protein LOC162681 precursor	2						extracellular region				ovary(1)|skin(1)	2				Colorectal(16;0.0206)|READ - Rectum adenocarcinoma(59;0.186)		AAGCCATGGCGAAATCAAAGA	0.378													37	30					0	0	1	0	0		A	51886948	A	A	51886948	2	1	89	1	0	0	0	0	0	0	0	1	1907	1045	37	1		1	C18orf54	18	51886948	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	35806	51886948	26190300	5923	59754											
NARS	4677	broad.mit.edu	37	chr18	55282941	55282941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcttcttccaggttcttttCtcttcgtaaactatcttctg	5	20	5	11	1	5	0	0	0	5	0	8	0	6	0	1	1	2	3	1	1	3	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:55282941C>T	uc002lgs.2	-	4	502	c.274G>A	c.(274-276)GAA>AAA	p.E92K	NARS_uc002lgt.2_Missense_Mutation_p.E91K|NARS_uc010xea.1_5'UTR|NARS_uc010xeb.1_RNA|NARS_uc010xec.1_Missense_Mutation_p.E92K|NARS_uc010xed.1_Missense_Mutation_p.E59K	NM_004539	NP_004530	O43776	SYNC_HUMAN	asparaginyl-tRNA synthetase	92					asparaginyl-tRNA aminoacylation	cytosol|soluble fraction	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding				0		Colorectal(73;0.227)			L-Asparagine(DB00174)	AGGTTCTTTTCTCTTCGTAAA	0.368													30	41					0	0	1	0	0		T	55282941	T	T	55282941	3	4	89	1	0	0	0	0	1	0	0	0	10188	922	32	4	1416	4	NARS	18	55282941	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3395993	55282941	22794307	5924	59755											
ATP8B1	5205	broad.mit.edu	37	chr18	55336558	55336558	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaaaactcacaattaagtCtttttcaatctcctcatata	14	15	2	10	0	5	0	3	0	2	0	6	0	5	0	1	0	1	1	1	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:55336558C>A	uc002lgw.2	-	17	2089	c.2089G>T	c.(2089-2091)GAC>TAC	p.D697Y	uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	697	Cytoplasmic (Potential).		Missing (in PFIC1).		ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				ACAATTAAGTCTTTTTCAATC	0.313									Byler_disease				17	28					4.75885e-15	5.40475e-15	1	1	0		A	55336558	A	A	55336558	3	1	89	1	0	0	0	0	1	0	0	0	1195	913	32	5	1710	5	ATP8B1	18	55336558	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	53617	55336558	22740690	5925	59756											
ALPK2	115701	broad.mit.edu	37	chr18	56204821	56204821	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaagtctcagacacttgTgtctgaaaaaagacttccag	14	10	8	9	0	2	4	1	2	2	2	4	4	3	4	1	0	0	0	1	0	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:56204821T>C	uc002lhj.3	-	5	2812	c.2598A>G	c.(2596-2598)ACA>ACG	p.T866T	ALPK2_uc002lhk.1_Silent_p.T197T	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	866							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						CAGACACTTGTGTCTGAAAAA	0.408													21	23					0	0	1	0	0		C	56204821	C	C	56204821	2	2	89	1	0	0	0	0	0	0	0	1	545	1683	59	3		3	ALPK2	18	56204821	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	868263	56204821	21872427	5926	59757											
LMAN1	3998	broad.mit.edu	37	chr18	57013239	57013239	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgctcaaattcctcctgAtacttttctttttccttttc	7	20	3	11	0	2	1	1	1	1	0	6	1	5	1	3	0	2	1	3	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:57013239A>C	uc002lhz.2	-	8	899	c.867T>G	c.(865-867)TAT>TAG	p.Y289*		NM_005570	NP_005561	P49257	LMAN1_HUMAN	lectin, mannose-binding, 1 precursor	289	Lumenal (Potential).				blood coagulation|ER to Golgi vesicle-mediated transport|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	mannose binding|metal ion binding|unfolded protein binding			skin(1)	1		Colorectal(73;0.0946)			Antihemophilic Factor(DB00025)	ATTCCTCCTGATACTTTTCTT	0.373													36	25					0	0	1	0	0		C	57013239	C	C	57013239	4	2	89	1	0	0	0	0	0	1	0	0	8853	340	12	5	689	5	LMAN1	18	57013239	Nonsense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	808418	57013239	21064009	5927	59758											
KIAA1468	57614	broad.mit.edu	37	chr18	59895681	59895681	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagttcagacaagggaaaaaAcacagacatccatctttcaa	18	8	6	9	0	3	2	2	0	1	2	4	3	4	3	1	1	1	1	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:59895681A>G	uc002lil.2	+	8	1513	c.1298A>G	c.(1297-1299)AAC>AGC	p.N433S	KIAA1468_uc002lik.1_Missense_Mutation_p.N433S|KIAA1468_uc010xel.1_Missense_Mutation_p.N433S|KIAA1468_uc002lim.2_Missense_Mutation_p.N77S	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	433							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				AAGGGAAAAAACACAGACATC	0.433													30	42					0	0	1	0	0		G	59895681	G	G	59895681	3	3	89	1	0	0	0	0	1	0	0	0	8252	43	2	3	1328	3	KIAA1468	18	59895681	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2882442	59895681	18181567	5928	59759											
KDSR	2531	broad.mit.edu	37	chr18	61022741	61022741	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctcttacttgttttatgAcattctctacttggttatag	9	19	5	8	0	2	1	0	1	2	0	3	1	2	1	1	1	3	2	1	1	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:61022741A>G	uc010dpw.2	-	4	466	c.311T>C	c.(310-312)GTC>GCC	p.V104A	KDSR_uc010xem.1_Missense_Mutation_p.V104A	NM_002035	NP_002026	Q06136	KDSR_HUMAN	3-ketodihydrosphingosine reductase precursor	104	Cytoplasmic (Potential).				3-keto-sphinganine metabolic process	endoplasmic reticulum membrane|extracellular space|integral to membrane	3-dehydrosphinganine reductase activity|binding			skin(1)	1						TTGTTTTATGACATTCTCTAC	0.363													11	24					0	0	1	0	0		G	61022741	G	G	61022741	3	3	89	1	0	0	0	0	1	0	0	0	8156	275	10	3	715	3	KDSR	18	61022741	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1127060	61022741	17054507	5929	59760											
SERPINB13	5275	broad.mit.edu	37	chr18	61261591	61261591	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtttcttcatttgcagaaAaaatcaaggacttgttccca	12	14	6	9	0	3	1	2	0	1	1	4	2	4	2	1	1	1	3	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:61261591A>C	uc002ljc.2	+	6	643	c.475A>C	c.(475-477)AAA>CAA	p.K159Q	SERPINB13_uc002ljd.2_Missense_Mutation_p.K23Q|SERPINB13_uc010xep.1_Missense_Mutation_p.K168Q|SERPINB13_uc010xeq.1_5'UTR|SERPINB13_uc010xer.1_5'UTR	NM_012397	NP_036529	Q9UIV8	SPB13_HUMAN	serine (or cysteine) proteinase inhibitor, clade	159					regulation of proteolysis|response to UV	cytoplasm|extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)	1						ATTTGCAGAAAAAATCAAGGA	0.373													14	18					0	0	1	0	0		C	61261591	C	C	61261591	3	2	89	1	0	0	0	0	1	0	0	0	14125	15	1	5	493	5	SERPINB13	18	61261591	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	238850	61261591	16815657	5930	59761											
SERPINB2	5055	broad.mit.edu	37	chr18	61558832	61558832	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaggggcagcaccgaaGaccagatggccaaggtgagt	11	4	15	11	1	0	3	0	1	0	2	1	4	1	3	4	4	1	3	4	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:61558832G>T	uc010xeu.1	+	3	487	c.154G>T	c.(154-156)GAC>TAC	p.D52Y	SERPINB2_uc002ljo.2_Missense_Mutation_p.D52Y|SERPINB2_uc010dqh.2_5'UTR	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	52					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	CAGCACCGAAGACCAGATGGC	0.527													18	11					0.000958276	0.000973728	1	1	0		T	61558832	T	T	61558832	3	4	89	1	0	0	0	0	1	0	0	0	14126	942	33	5	156	5	SERPINB2	18	61558832	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	297241	61558832	16518416	5931	59762											
SERPINB2	5055	broad.mit.edu	37	chr18	61570322	61570322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccaatttctcagggatgtCggagaggaatgacctgtttc	9	11	13	8	1	1	2	1	1	1	1	4	5	1	4	2	4	0	1	2	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:61570322C>T	uc010xeu.1	+	9	1364	c.1031C>T	c.(1030-1032)TCG>TTG	p.S344L	SERPINB2_uc002ljo.2_Missense_Mutation_p.S344L|SERPINB2_uc010dqh.2_Missense_Mutation_p.S274L|SERPINB2_uc002ljp.1_Intron|SERPINB2_uc002ljq.1_Intron	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	344					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	TCAGGGATGTCGGAGAGGAAT	0.502													28	30					0	0	1	0	0		T	61570322	T	T	61570322	3	4	89	1	0	0	0	0	1	0	0	0	14126	893	31	1	1057	1	SERPINB2	18	61570322	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11490	61570322	16506926	5932	59763											
SERPINB10	5273	broad.mit.edu	37	chr18	61582874	61582874	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccttgaccatagtgtatTtgggcgccaaaggtaccact	9	12	9	11	1	0	1	0	1	0	0	1	1	1	1	4	2	1	2	4	2	4	6	rs138905204		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:61582874T>G	uc010xev.1	+	2	220	c.130T>G	c.(130-132)TTG>GTG	p.L44V	SERPINB2_uc002ljp.1_Missense_Mutation_p.L185V|SERPINB2_uc002ljq.1_Missense_Mutation_p.L158V|SERPINB10_uc010xew.1_Missense_Mutation_p.L44V	NM_005024	NP_005015	P48595	SPB10_HUMAN	serine (or cysteine) proteinase inhibitor, clade	44						cytoplasm|nucleus	serine-type endopeptidase inhibitor activity			lung(1)|kidney(1)|skin(1)	3		Esophageal squamous(42;0.131)				CATAGTGTATTTGGGCGCCAA	0.443													30	26					0	0	1	0	0		G	61582874	G	G	61582874	3	3	89	1	0	0	0	0	1	0	0	0	14122	1838	64	5	132	5	SERPINB10	18	61582874	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	12552	61582874	16494374	5933	59764											
CDH7	1005	broad.mit.edu	37	chr18	63430218	63430218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggaggtcccggaccaagcGcagctgggtgtggaatcagt	9	6	17	9	2	1	0	1	0	0	0	2	3	2	3	2	5	2	2	2	5	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:63430218G>A	uc002ljz.2	+	2	465	c.140G>A	c.(139-141)CGC>CAC	p.R47H	CDH7_uc002lka.2_Missense_Mutation_p.R47H|CDH7_uc002lkb.2_Missense_Mutation_p.R47H	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	47	Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				CGGACCAAGCGCAGCTGGGTG	0.473													5	33					0	0	1	0	0		A	63430218	A	A	63430218	3	1	89	1	0	0	0	0	1	0	0	0	3118	1087	38	1	142	1	CDH7	18	63430218	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1847344	63430218	14647030	5934	59765											
CDH19	28513	broad.mit.edu	37	chr18	64176344	64176344	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctcccactgtcaccacaGtcacagacatggatggtaag	11	8	10	12	0	2	1	2	0	0	1	3	2	3	2	2	2	1	2	2	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:64176344G>A	uc002lkc.1	-	11	1854	c.1716C>T	c.(1714-1716)GAC>GAT	p.D572D	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Intron	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	572	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				TGTCACCACAGTCACAGACAT	0.453													64	54					0	0	1	0	0		A	64176344	A	A	64176344	2	1	89	1	0	0	0	0	0	0	0	1	3107	1020	36	4		4	CDH19	18	64176344	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	746126	64176344	13900904	5935	59766											
DSEL	92126	broad.mit.edu	37	chr18	65179358	65179358	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcctctgtccttgtccattTtgcacaaatgggctgactac	8	13	8	12	0	1	1	0	1	1	0	3	1	3	1	3	1	3	2	3	1	2	4	rs112650435		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:65179358T>C	uc002lke.1	-	2	3742	c.2518A>G	c.(2518-2520)AAA>GAA	p.K840E		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	830						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				CTTGTCCATTTTGCACAAATG	0.423													83	73					0	0	1	0	0		C	65179358	C	C	65179358	3	2	89	1	0	0	0	0	1	0	0	0	4781	1850	64	3	1154	3	DSEL	18	65179358	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1003014	65179358	12897890	5936	59767											
DSEL	92126	broad.mit.edu	37	chr18	65181050	65181050	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaccatcaacaatatgatTcaatagaaacattgtctttt	17	13	4	7	0	3	3	2	1	1	2	3	3	3	3	1	0	3	0	1	0	7	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:65181050T>C	uc002lke.1	-	2	2050	c.826A>G	c.(826-828)AAT>GAT	p.N276D		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	266						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				ACAATATGATTCAATAGAAAC	0.418													43	36					0	0	1	0	0		C	65181050	C	C	65181050	3	2	89	1	0	0	0	0	1	0	0	0	4781	1783	62	3	2846	3	DSEL	18	65181050	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1692	65181050	12896198	5937	59768											
SOCS6	9306	broad.mit.edu	37	chr18	67993118	67993118	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaacgtgccagatggttCttttcttgttcgggacagtt	8	14	11	8	2	2	1	0	0	2	1	3	2	2	2	1	2	3	4	1	2	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:67993118C>A	uc002lkr.1	+	2	1530	c.1214C>A	c.(1213-1215)TCT>TAT	p.S405Y	SOCS6_uc010dqq.2_Missense_Mutation_p.S405Y	NM_004232	NP_004223	O14544	SOCS6_HUMAN	suppressor of cytokine signaling 6	405	SH2.				defense response|JAK-STAT cascade|negative regulation of signal transduction|regulation of growth	cytoplasm				large_intestine(1)|lung(1)	2		Esophageal squamous(42;0.129)|Colorectal(73;0.152)				CCAGATGGTTCTTTTCTTGTT	0.468													40	29					7.53189e-24	9.03518e-24	1	1	0		A	67993118	A	A	67993118	3	1	89	1	0	0	0	0	1	0	0	0	14943	913	32	5	1216	5	SOCS6	18	67993118	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2812068	67993118	10084130	5938	59769											
CNDP1	84735	broad.mit.edu	37	chr18	72229308	72229308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttatggacgaggagcgaccGacaacaaaggccctgtcttg	11	8	12	10	3	1	0	0	0	1	0	1	5	1	2	2	3	2	0	2	3	3	3	rs146707393	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:72229308G>A	uc002llq.2	+	5	704	c.493G>A	c.(493-495)GAC>AAC	p.D165N	uc002llr.2_5'Flank	NM_032649	NP_116038	Q96KN2	CNDP1_HUMAN	carnosinase 1 precursor	165		Zinc 1 (By similarity).|Zinc 2 (By similarity).		D->A: Loss of activity.	proteolysis	extracellular region	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity|tripeptidase activity				0		Esophageal squamous(42;0.129)|Prostate(75;0.157)|Melanoma(33;0.211)		BRCA - Breast invasive adenocarcinoma(31;0.109)		AGGAGCGACCGACAACAAAGG	0.507													30	34					0	0	1	0	0		A	72229308	A	A	72229308	3	1	89	1	0	0	0	0	1	0	0	0	3596	1058	37	1	511	1	CNDP1	18	72229308	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4236190	72229308	5847940	5939	59770											
ZNF236	7776	broad.mit.edu	37	chr18	74627729	74627729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttttgtgaggagggtttccGaactacagtgcattgtaaaa	11	13	12	5	1	0	1	0	1	0	0	1	3	1	2	1	2	3	4	1	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:74627729G>A	uc002lmi.2	+	19	3380	c.3182G>A	c.(3181-3183)CGA>CAA	p.R1061Q	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1061	C2H2-type 21.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GAGGGTTTCCGAACTACAGTG	0.493													17	22					0	0	1	0	0		A	74627729	A	A	74627729	3	1	89	1	0	0	0	0	1	0	0	0	17814	1058	37	1	3256	1	ZNF236	18	74627729	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2398421	74627729	3449519	5940	59771											
SALL3	27164	broad.mit.edu	37	chr18	76753496	76753496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcatcccctacggcatgtCgctgccccccgagaagcccg	6	5	12	18	4	0	1	0	0	0	1	2	2	1	1	6	2	3	3	6	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:76753496C>T	uc002lmt.2	+	2	1505	c.1505C>T	c.(1504-1506)TCG>TTG	p.S502L	SALL3_uc010dra.2_Missense_Mutation_p.S109L	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	502					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		TACGGCATGTCGCTGCCCCCC	0.667													13	9					0	0	1	0	0		T	76753496	T	T	76753496	3	4	89	1	0	0	0	0	1	0	0	0	13837	893	31	1	1511	1	SALL3	18	76753496	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2125767	76753496	1323752	5941	59772											
NFATC1	4772	broad.mit.edu	37	chr18	77211696	77211696	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccagcgctcagctcaggagCtgcctctggtggagaagcag	8	6	14	13	1	3	1	2	0	1	1	3	3	3	2	2	3	5	4	2	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:77211696C>T	uc010xfg.1	+	6	2236	c.1783C>T	c.(1783-1785)CTG>TTG	p.L595L	NFATC1_uc002lnc.1_Silent_p.L595L|NFATC1_uc010xff.1_Silent_p.S566S|NFATC1_uc002lnd.2_Silent_p.L595L|NFATC1_uc002lne.2_Silent_p.L123L|NFATC1_uc010xfh.1_Silent_p.L595L|NFATC1_uc010xfi.1_Silent_p.L582L|NFATC1_uc010xfj.1_Silent_p.L123L|NFATC1_uc002lnf.2_Silent_p.L582L|NFATC1_uc002lng.2_Silent_p.L582L|NFATC1_uc010xfk.1_Silent_p.L582L	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	595					intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		AGCTCAGGAGCTGCCTCTGGT	0.637													12	16					0	0	1	0	0		T	77211696	T	T	77211696	2	4	89	1	0	0	0	0	0	0	0	1	10380	796	28	2		2	NFATC1	18	77211696	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	458200	77211696	865552	5942	59773											
NFATC1	4772	broad.mit.edu	37	chr18	77246279	77246279	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaacagaacccactgatgaTtatgagcctgctccaacctg	14	8	7	12	0	0	4	0	3	0	1	1	4	1	4	4	0	5	1	4	0	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:77246279T>G	uc010xfg.1	+	9	2577	c.2124T>G	c.(2122-2124)GAT>GAG	p.D708E	NFATC1_uc002lnd.2_Missense_Mutation_p.D708E|NFATC1_uc002lne.2_Missense_Mutation_p.D236E|NFATC1_uc010xfh.1_Intron|NFATC1_uc010xfj.1_Missense_Mutation_p.D236E|NFATC1_uc002lnf.2_Missense_Mutation_p.D695E|NFATC1_uc002lng.2_Missense_Mutation_p.D695E|NFATC1_uc010xfk.1_Intron	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	708	Trans-activation domain B (TAD-B).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CCACTGATGATTATGAGCCTG	0.488													79	78					0	0	1	0	0		G	77246279	G	G	77246279	3	3	89	1	0	0	0	0	1	0	0	0	10380	1490	52	5	2309	5	NFATC1	18	77246279	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	34583	77246279	830969	5943	59774											
CTDP1	9150	broad.mit.edu	37	chr18	77456022	77456022	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggtgccgctgtccacggcGaccgtgtccatggtgcacag	6	7	14	14	4	0	0	0	0	0	0	2	1	2	0	4	3	2	2	4	3	0	0	rs147215606		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:77456022G>A	uc002lnh.1	+	3	591	c.444G>A	c.(442-444)GCG>GCA	p.A148A	CTDP1_uc002lni.1_Silent_p.A148A|CTDP1_uc010drd.1_Silent_p.A148A	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	148					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		TGTCCACGGCGACCGTGTCCA	0.622													11	15					0	0	1	0	0		A	77456022	A	A	77456022	2	1	89	1	0	0	0	0	0	0	0	1	4005	1045	37	1		1	CTDP1	18	77456022	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	209743	77456022	621226	5944	59775											
KCNG2	26251	broad.mit.edu	37	chr18	77623869	77623869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actacgacgtgagccgcgacGagttcttcttcgaccgcagc	8	8	11	14	7	2	1	0	1	2	0	3	5	2	1	2	0	3	2	2	0	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr18:77623869G>A	uc010xfl.1	+	1	202	c.202G>A	c.(202-204)GAG>AAG	p.E68K		NM_012283	NP_036415	Q9UJ96	KCNG2_HUMAN	potassium voltage-gated channel, subfamily G,	68	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of heart contraction|regulation of insulin secretion	voltage-gated potassium channel complex	delayed rectifier potassium channel activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;6.92e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0244)		GAGCCGCGACGAGTTCTTCTT	0.731													4	10					0	0	1	0	0		A	77623869	A	A	77623869	3	1	89	1	0	0	0	0	1	0	0	0	8044	1059	37	1	204	1	KCNG2	18	77623869	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	167847	77623869	453379	5945	59776											
HCN2	610	broad.mit.edu	37	chr19	603624	603624	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcatcaccttcttcaaggAtgagaccactgccccgtgga	9	8	11	13	1	3	1	2	1	1	1	3	4	3	3	4	3	1	1	4	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:603624A>G	uc002lpe.2	+	2	766	c.713A>G	c.(712-714)GAT>GGT	p.D238G		NM_001194	NP_001185	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic	238	Extracellular (Potential).				cell-cell signaling|muscle contraction	voltage-gated potassium channel complex	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTCTTCAAGGATGAGACCACT	0.567													8	28					0	0	1	0	0		G	603624	G	G	603624	3	3	89	1	0	0	0	0	1	0	0	0	7013	333	12	3	719	3	HCN2	19	603624	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08		603624	58525359	5946	59777											
ABCA7	10347	broad.mit.edu	37	chr19	1053340	1053340	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacaggcactcctcagcTgctggccctggtacagcact	8	7	9	17	0	1	0	1	0	0	0	2	0	2	0	3	3	4	5	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:1053340T>G	uc002lqw.3	+	24	3464	c.3233T>G	c.(3232-3234)CTG>CGG	p.L1078R	ABCA7_uc010dsb.1_Missense_Mutation_p.L940R	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	1078					phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACTCCTCAGCTGCTGGCCCTG	0.682													10	13					0	0	1	0	0		G	1053340	G	G	1053340	3	3	89	1	0	0	0	0	1	0	0	0	37	1580	55	5	3323	5	ABCA7	19	1053340	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	449716	1053340	58075643	5947	59778											
APC2	10297	broad.mit.edu	37	chr19	1453554	1453554	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgggccctccaaggacagCtttggggagctgagccgggc	6	6	16	13	2	0	1	0	1	0	0	2	3	2	3	4	5	3	2	4	5	1	1	rs61735595		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:1453554C>A	uc002lsr.1	+	4	565	c.357C>A	c.(355-357)AGC>AGA	p.S119R	APC2_uc002lss.1_5'UTR|APC2_uc002lst.1_Missense_Mutation_p.S119R|APC2_uc002lsu.1_Missense_Mutation_p.S119R	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	119					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAAGGACAGCTTTGGGGAGC	0.701													8	16					0.0381472	0.0383344	1	1	0		A	1453554	A	A	1453554	3	1	89	1	0	0	0	0	1	0	0	0	764	796	28	5	367	5	APC2	19	1453554	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	400214	1453554	57675429	5948	59779											
APC2	10297	broad.mit.edu	37	chr19	1466116	1466116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgacgggtactgcccacGcgaacatatgctgccctgcc	8	6	11	16	4	0	0	0	0	0	0	0	2	0	0	3	1	7	2	3	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:1466116G>A	uc002lsr.1	+	15	3024	c.2816G>A	c.(2815-2817)CGC>CAC	p.R939H	APC2_uc002lss.1_Missense_Mutation_p.R521H|APC2_uc002lst.1_Missense_Mutation_p.R939H|APC2_uc002lsu.1_Missense_Mutation_p.R938H|C19orf25_uc010xgn.1_Intron	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	939					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TACTGCCCACGCGAACATATG	0.721													6	7					0	0	1	0	0		A	1466116	A	A	1466116	3	1	89	1	0	0	0	0	1	0	0	0	764	1087	38	1	2870	1	APC2	19	1466116	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12562	1466116	57662867	5949	59780											
ATP8B3	148229	broad.mit.edu	37	chr19	1800271	1800271	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcacaggatgaacatggAcatcgggatggtgacgctga	12	7	14	8	2	1	3	1	3	0	0	2	7	1	6	0	4	1	1	0	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:1800271A>G	uc002ltw.2	-	13	1564	c.1330T>C	c.(1330-1332)TCC>CCC	p.S444P	ATP8B3_uc002ltv.2_Missense_Mutation_p.S397P|ATP8B3_uc002ltx.2_RNA|ATP8B3_uc002lty.1_Missense_Mutation_p.S192P|ATP8B3_uc002ltz.1_Missense_Mutation_p.S391P	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	444	Helical; (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATGAACATGGACATCGGGATG	0.642													13	38					0	0	1	0	0		G	1800271	G	G	1800271	3	3	89	1	0	0	0	0	1	0	0	0	1197	275	10	3	2670	3	ATP8B3	19	1800271	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	334155	1800271	57328712	5950	59781											
TMPRSS9	360200	broad.mit.edu	37	chr19	2413960	2413960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcagcacccccaccaaatCgatgcaggccctcagtaccg	10	5	9	17	2	2	0	2	0	0	0	3	1	2	0	5	2	3	3	5	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:2413960C>T	uc010xgx.1	+	9	1415	c.1415C>T	c.(1414-1416)TCG>TTG	p.S472L	TMPRSS9_uc002lvv.1_Missense_Mutation_p.S506L	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	472	Extracellular (Potential).				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCACCAAATCGATGCAGGCC	0.607													10	9					0	0	1	0	0		T	2413960	T	T	2413960	3	4	89	1	0	0	0	0	1	0	0	0	16278	893	31	1	1449	1	TMPRSS9	19	2413960	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	613689	2413960	56715023	5951	59782											
ZNF57	126295	broad.mit.edu	37	chr19	2916112	2916112	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagccaatgggtcagtttCtctgcaggatatgtacgggc	10	11	12	8	1	2	0	1	0	1	0	3	1	2	1	1	3	3	3	1	3	5	4	rs143620899	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:2916112C>A	uc002lwr.2	+	3	315	c.167C>A	c.(166-168)TCT>TAT	p.S56Y	ZNF57_uc010xha.1_Missense_Mutation_p.S24Y	NM_173480	NP_775751	Q68EA5	ZNF57_HUMAN	zinc finger protein 57	56	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.00161)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGTCAGTTTCTCTGCAGGAT	0.358													26	58					7.41945e-09	7.92233e-09	1	1	0		A	2916112	A	A	2916112	3	1	89	1	0	0	0	0	1	0	0	0	18026	913	32	5	177	5	ZNF57	19	2916112	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	502152	2916112	56212871	5952	59783											
ZNF57	126295	broad.mit.edu	37	chr19	2917762	2917762	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtcctcaacgtttagagaAcatgtgagaattcacacgca	13	10	9	9	2	2	2	2	1	0	2	3	4	3	2	1	1	2	2	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:2917762A>G	uc002lwr.2	+	4	1291	c.1143A>G	c.(1141-1143)GAA>GAG	p.E381E	ZNF57_uc010xha.1_Silent_p.E349E	NM_173480	NP_775751	Q68EA5	ZNF57_HUMAN	zinc finger protein 57	381	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.00161)|STAD - Stomach adenocarcinoma(1328;0.18)		CGTTTAGAGAACATGTGAGAA	0.448													35	74					0	0	1	0	0		G	2917762	G	G	2917762	2	3	89	1	0	0	0	0	0	0	0	1	18026	40	2	3		3	ZNF57	19	2917762	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1650	2917762	56211221	5953	59784											
TLE6	79816	broad.mit.edu	37	chr19	2989114	2989114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggccagatgccttgcccGggcagtcaaagagactcgcc	10	5	13	13	2	1	3	1	0	0	3	2	4	1	3	4	2	2	1	4	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:2989114G>A	uc002lwu.2	+	11	827	c.427G>A	c.(427-429)GGG>AGG	p.G143R	TLE6_uc002lwt.2_Missense_Mutation_p.G266R|TLE6_uc010dtg.2_Missense_Mutation_p.G266R|TLE6_uc002lwv.2_Missense_Mutation_p.G47R	NM_024760	NP_079036	Q9H808	TLE6_HUMAN	transducin-like enhancer of split 6 isoform 2	143					regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGCCTTGCCCGGGCAGTCAAA	0.612													30	51					0	0	1	0	0		A	2989114	A	A	2989114	3	1	89	1	0	0	0	0	1	0	0	0	15967	1116	39	1	838	1	TLE6	19	2989114	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	71352	2989114	56139869	5954	59785											
GNA15	2769	broad.mit.edu	37	chr19	3155824	3155824	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctcggttccctgtaggatCgtggacgtcgggggccagaa	7	8	15	11	4	0	1	0	0	0	1	4	3	1	3	3	5	0	2	3	5	2	2	rs140382547		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:3155824C>T	uc002lxf.2	+	5	876	c.618C>T	c.(616-618)ATC>ATT	p.I206I		NM_002068	NP_002059	P30679	GNA15_HUMAN	guanine nucleotide binding protein (G protein),	206					activation of phospholipase C activity by dopamine receptor signaling pathway|activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			skin(2)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.04e-05)|OV - Ovarian serous cystadenocarcinoma(105;5.08e-113)|Epithelial(107;6.19e-111)|all cancers(105;6.19e-103)|BRCA - Breast invasive adenocarcinoma(158;0.00145)|STAD - Stomach adenocarcinoma(1328;0.184)		CCTGTAGGATCGTGGACGTCG	0.557													25	48					0	0	1	0	0		T	3155824	T	T	3155824	2	4	89	1	0	0	0	0	0	0	0	1	6518	874	31	1		1	GNA15	19	3155824	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	166710	3155824	55973159	5955	59786											
MATK	4145	broad.mit.edu	37	chr19	3779599	3779599	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggagacgcaccaggtTctcgtgttgcatcttcctgg	6	10	12	13	2	2	1	0	0	2	1	4	2	3	1	3	3	1	4	3	3	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:3779599T>C	uc002lyt.2	-	10	1259	c.859A>G	c.(859-861)AAC>GAC	p.N287D	MATK_uc002lyv.2_Missense_Mutation_p.N288D|MATK_uc002lyu.2_Missense_Mutation_p.N246D|MATK_uc010dtq.2_Missense_Mutation_p.N287D	NM_139355	NP_647612	P42679	MATK_HUMAN	megakaryocyte-associated tyrosine kinase isoform	287	Protein kinase.				cell proliferation|mesoderm development|positive regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(2)|ovary(1)|lung(1)|large_intestine(1)	5		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCACCAGGTTCTCGTGTTGC	0.706													8	17					0	0	1	0	0		C	3779599	C	C	3779599	3	2	89	1	0	0	0	0	1	0	0	0	9350	1783	62	3	684	3	MATK	19	3779599	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	623775	3779599	55349384	5956	59787											
FSD1	79187	broad.mit.edu	37	chr19	4310278	4310278	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctctctctaggctgccaaGcaaatcaaagatgggtaaga	13	9	9	10	0	3	2	1	0	2	2	5	2	4	2	2	2	2	3	2	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:4310278G>A	uc002lzy.2	+	5	507	c.354G>A	c.(352-354)AAG>AAA	p.K118K	FSD1_uc010xie.1_Silent_p.K105K|FSD1_uc010xif.1_Missense_Mutation_p.A102T|FSD1_uc002lzz.2_Silent_p.K118K|FSD1_uc002maa.2_5'Flank	NM_024333	NP_077309	Q9BTV5	FSD1_HUMAN	fibronectin type III and SPRY domain containing	118	COS.				cell division|mitosis	cleavage furrow|microtubule|microtubule organizing center|nucleus				skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.034)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGCTGCCAAGCAAATCAAAG	0.388													88	236					0	0	1	0	0		A	4310278	A	A	4310278	2	1	89	1	0	0	0	0	0	0	0	1	6084	962	34	2		2	FSD1	19	4310278	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	530679	4310278	54818705	5957	59788											
SEMA6B	10501	broad.mit.edu	37	chr19	4557207	4557207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagctccgtggacgtgggggGctccagctctacgcggtaga	6	7	16	12	4	1	1	0	0	1	1	3	2	3	2	2	5	3	4	2	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:4557207G>A	uc010duc.1	-	3	312	c.274C>T	c.(274-276)CCC>TCC	p.P92S	SEMA6B_uc010dud.2_Missense_Mutation_p.P92S|SEMA6B_uc010xih.1_Missense_Mutation_p.P92S	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	92	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		GACGTGGGGGGCTCCAGCTCT	0.682													15	17					0	0	1	0	0		A	4557207	A	A	4557207	3	1	89	1	0	0	0	0	1	0	0	0	14065	1203	42	2	2448	2	SEMA6B	19	4557207	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	246929	4557207	54571776	5958	59789											
PLIN3	10226	broad.mit.edu	37	chr19	4859985	4859985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataggctgcggacaccatgtCgcaggtggagctgatcagag	10	7	15	9	2	1	2	1	1	0	1	2	4	1	4	1	4	2	3	1	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:4859985C>T	uc002mbj.2	-	3	295	c.118G>A	c.(118-120)GAC>AAC	p.D40N	PLIN3_uc002mbk.2_Missense_Mutation_p.D40N|PLIN3_uc002mbl.3_Missense_Mutation_p.D40N	NM_005817	NP_005808	O60664	PLIN3_HUMAN	mannose 6 phosphate receptor binding protein 1	40					vesicle-mediated transport	endosome membrane|Golgi apparatus|lipid particle	protein binding				0					Galsulfase(DB01279)|Idursulfase(DB01271)	GACACCATGTCGCAGGTGGAG	0.622													5	44					0	0	1	0	0		T	4859985	T	T	4859985	3	4	89	1	0	0	0	0	1	0	0	0	12110	884	31	1	1210	1	PLIN3	19	4859985	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	302778	4859985	54268998	5959	59790											
ARRDC5	645432	broad.mit.edu	37	chr19	4891415	4891415	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtatgtgggcatacagggcGaatacgaccgtcttgatgca	10	10	13	8	3	1	1	0	1	1	0	1	3	1	1	1	2	3	3	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:4891415G>A	uc002mbm.2	-	3	672	c.672C>T	c.(670-672)TTC>TTT	p.F224F		NM_001080523	NP_001073992	A6NEK1	ARRD5_HUMAN	arrestin domain containing 5	224					signal transduction						0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0257)		CATACAGGGCGAATACGACCG	0.562													12	34					0	0	1	0	0		A	4891415	A	A	4891415	2	1	89	1	0	0	0	0	0	0	0	1	987	1049	37	1		1	ARRDC5	19	4891415	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	31430	4891415	54237568	5960	59791											
RANBP3	8498	broad.mit.edu	37	chr19	5917945	5917945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgcgcagggccaggatgCggtggtgcagggctgcatac	6	6	19	10	2	0	0	0	0	0	0	0	1	0	1	1	6	5	5	1	6	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:5917945C>T	uc002mdw.2	-	16	1747	c.1520G>A	c.(1519-1521)CGC>CAC	p.R507H	RANBP3_uc002mdv.2_Missense_Mutation_p.R226H|RANBP3_uc002mdx.2_Missense_Mutation_p.R502H|RANBP3_uc002mdy.2_Missense_Mutation_p.R439H|RANBP3_uc002mdz.2_Missense_Mutation_p.R434H|RANBP3_uc010duq.2_Missense_Mutation_p.R412H|RANBP3_uc002mea.2_Missense_Mutation_p.R374H|RANBP3_uc010xix.1_Missense_Mutation_p.R379H	NM_007322	NP_015561	Q9H6Z4	RANB3_HUMAN	RAN binding protein 3 isoform RANBP3-d	507	RanBD1.				intracellular transport|protein transport	cytoplasm|nucleus	Ran GTPase binding			breast(1)	1						GGCCAGGATGCGGTGGTGCAG	0.682													29	56					0	0	1	0	0		T	5917945	T	T	5917945	3	4	89	1	0	0	0	0	1	0	0	0	13054	768	27	1	191	1	RANBP3	19	5917945	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1026530	5917945	53211038	5961	59792											
RFX2	5990	broad.mit.edu	37	chr19	5997113	5997113	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctctccggtggcctccgcGacgcggtgctccaccaggta	4	8	13	16	5	1	0	0	0	1	0	5	1	4	0	5	4	1	2	5	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:5997113G>A	uc002meb.2	-	16	2240	c.1971C>T	c.(1969-1971)GTC>GTT	p.V657V	RFX2_uc002mec.2_Silent_p.V632V	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	657					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						TGGCCTCCGCGACGCGGTGCT	0.692													34	53					0	0	1	0	0		A	5997113	A	A	5997113	2	1	89	1	0	0	0	0	0	0	0	1	13288	1045	37	1		1	RFX2	19	5997113	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	79168	5997113	53131870	5962	59793											
RFX2	5990	broad.mit.edu	37	chr19	6016224	6016224	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtagtggttgtaaagaGaacttctggggagactcaca	13	9	14	5	0	2	2	1	0	1	2	2	5	2	2	0	4	1	3	0	4	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:6016224G>T	uc002meb.2	-	7	925	c.656C>A	c.(655-657)TCT>TAT	p.S219Y	RFX2_uc002mec.2_Missense_Mutation_p.S194Y	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	219	RFX-type winged-helix.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						GTTGTAAAGAGAACTTCTGGG	0.512													24	48					2.41591e-17	2.79654e-17	1	1	0		T	6016224	T	T	6016224	3	4	89	1	0	0	0	0	1	0	0	0	13288	942	33	5	1563	5	RFX2	19	6016224	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	19111	6016224	53112759	5963	59794											
ACSBG2	81616	broad.mit.edu	37	chr19	6165951	6165951	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcatcgagagccagaaggcGaatcaatgcgcagtgctcat	12	7	12	10	3	3	2	3	0	0	2	4	4	3	2	1	1	3	2	1	1	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:6165951G>A	uc002mef.1	+	7	890	c.663G>A	c.(661-663)GCG>GCA	p.A221A	ACSBG2_uc002mee.1_Silent_p.A34A|ACSBG2_uc002meg.1_Silent_p.A221A|ACSBG2_uc002meh.1_Silent_p.A221A|ACSBG2_uc002mei.1_Silent_p.A171A|ACSBG2_uc010xiz.1_Silent_p.A221A	NM_030924	NP_112186	Q5FVE4	ACBG2_HUMAN	bubblegum-related acyl-CoA synthetase 2	221					cell differentiation|fatty acid metabolic process|multicellular organismal development|spermatogenesis	membrane|microsome|mitochondrion	acyl-CoA thioesterase activity|ATP binding|long-chain fatty acid-CoA ligase activity			ovary(1)	1						GCCAGAAGGCGAATCAATGCG	0.527											OREG0025194	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	71					0	0	1	0	0		A	6165951	A	A	6165951	2	1	89	1	0	0	0	0	0	0	0	1	174	1045	37	1		1	ACSBG2	19	6165951	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	149727	6165951	52963032	5964	59795											
C3	718	broad.mit.edu	37	chr19	6684608	6684608	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttatggtgaccttgaggtcGaatttattacaggtgagttg	9	16	12	4	1	0	3	0	3	0	0	1	4	0	3	1	3	1	1	1	3	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:6684608G>A	uc002mfm.2	-	32	4145	c.4083C>T	c.(4081-4083)TTC>TTT	p.F1361F	C3_uc002mfl.2_Silent_p.F97F	NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	1361					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		CCTTGAGGTCGAATTTATTAC	0.483													49	95					0	0	1	0	0		A	6684608	A	A	6684608	2	1	89	1	0	0	0	0	0	0	0	1	2207	1049	37	1		1	C3	19	6684608	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	518657	6684608	52444375	5965	59796											
C3	718	broad.mit.edu	37	chr19	6707489	6707489	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcccacctttgtccattcGcttctccgtgagctgcacgg	4	12	9	16	3	1	1	0	1	1	0	5	1	3	1	4	1	2	4	4	1	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:6707489G>A	uc002mfm.2	-	16	2097	c.2035C>T	c.(2035-2037)CGA>TGA	p.R679*		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	679					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TTGTCCATTCGCTTCTCCGTG	0.682													37	68					0	0	1	0	0		A	6707489	A	A	6707489	4	1	89	1	0	0	0	0	0	1	0	0	2207	1095	38	1	3060	1	C3	19	6707489	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	22881	6707489	52421494	5966	59797											
C3	718	broad.mit.edu	37	chr19	6711129	6711129	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggtaattgttggagttgcCcacggtgctgtagggcagag	8	10	16	7	1	0	1	0	0	0	1	0	2	0	2	1	4	2	6	1	4	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:6711129C>A	uc002mfm.2	-	12	1410	c.1348G>T	c.(1348-1350)GGC>TGC	p.G450C		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	450					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TTGGAGTTGCCCACGGTGCTG	0.607													41	77					1.465e-08	1.56044e-08	1	1	0		A	6711129	A	A	6711129	3	1	89	1	0	0	0	0	1	0	0	0	2207	623	22	5	3763	5	C3	19	6711129	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3640	6711129	52417854	5967	59798											
C3	718	broad.mit.edu	37	chr19	6712386	6712386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgccacggggactcggtagGctggagagccatcagggttc	7	7	16	11	2	1	1	1	0	0	1	3	3	1	2	2	6	2	3	2	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:6712386G>A	uc002mfm.2	-	11	1213	c.1151C>T	c.(1150-1152)GCC>GTC	p.A384V		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	384					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		GACTCGGTAGGCTGGAGAGCC	0.632													12	42					0	0	1	0	0		A	6712386	A	A	6712386	3	1	89	1	0	0	0	0	1	0	0	0	2207	1203	42	2	3964	2	C3	19	6712386	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1257	6712386	52416597	5968	59799											
EMR1	2015	broad.mit.edu	37	chr19	6904062	6904062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagatattgatgagtgccGccaagatccatcaacctgtg	11	10	10	10	1	1	4	1	2	0	2	2	4	2	4	4	0	3	1	4	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:6904062G>A	uc002mfw.2	+	8	856	c.818G>A	c.(817-819)CGC>CAC	p.R273H	EMR1_uc010dvc.2_Missense_Mutation_p.R273H|EMR1_uc010dvb.2_Missense_Mutation_p.R221H|EMR1_uc010xji.1_Missense_Mutation_p.R132H|EMR1_uc010xjj.1_Intron	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	273	Extracellular (Potential).|EGF-like 6; calcium-binding (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					GATGAGTGCCGCCAAGATCCA	0.473													31	62					0	0	1	0	0		A	6904062	A	A	6904062	3	1	89	1	0	0	0	0	1	0	0	0	5112	1087	38	1	848	1	EMR1	19	6904062	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	191676	6904062	52224921	5969	59800											
EMR1	2015	broad.mit.edu	37	chr19	6908736	6908736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaataaataacatcttcagcGttctggacaaagtgtgtgaa	16	11	8	6	1	3	1	1	1	2	0	3	2	3	2	0	1	2	1	0	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:6908736G>A	uc002mfw.2	+	10	1113	c.1075G>A	c.(1075-1077)GTT>ATT	p.V359I	EMR1_uc010dvc.2_Missense_Mutation_p.V359I|EMR1_uc010dvb.2_Missense_Mutation_p.V307I|EMR1_uc010xji.1_Missense_Mutation_p.V218I|EMR1_uc010xjj.1_Missense_Mutation_p.V182I	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	359	Ser/Thr-rich.|Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					CATCTTCAGCGTTCTGGACAA	0.383													25	83					0	0	1	0	0		A	6908736	A	A	6908736	3	1	89	1	0	0	0	0	1	0	0	0	5112	1145	40	1	1113	1	EMR1	19	6908736	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4674	6908736	52220247	5970	59801											
ZNF557	79230	broad.mit.edu	37	chr19	7081448	7081448	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagaagagagaggaattCtctcaggtacctgtccaggt	12	9	12	8	0	2	4	1	1	1	3	4	6	3	5	2	3	1	1	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:7081448C>A	uc002mgb.2	+	6	789	c.304C>A	c.(304-306)CTC>ATC	p.L102I	ZNF557_uc002mga.2_Missense_Mutation_p.L109I|ZNF557_uc002mgc.2_Missense_Mutation_p.L109I	NM_001044388	NP_001037853	Q8N988	ZN557_HUMAN	zinc finger protein 557 isoform b	102	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2				Lung(535;0.179)		GAGAGGAATTCTCTCAGGTAC	0.458													13	21					2.27111e-07	2.38128e-07	1	1	0		A	7081448	A	A	7081448	3	1	89	1	0	0	0	0	1	0	0	0	18013	913	32	5	339	5	ZNF557	19	7081448	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	172712	7081448	52047535	5971	59802											
PEX11G	92960	broad.mit.edu	37	chr19	7550752	7550752	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggccatattgcttagtgTagacaaacatggccaggtca	12	9	10	10	0	1	1	1	0	0	1	1	1	1	1	3	3	2	2	3	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:7550752T>C	uc002mgk.1	-	2	230	c.221A>G	c.(220-222)TAC>TGC	p.Y74C	PEX11G_uc002mgl.1_Missense_Mutation_p.Y4C	NM_080662	NP_542393	Q96HA9	PX11C_HUMAN	peroxisomal biogenesis factor 11 gamma	74	Cytoplasmic (Potential).					integral to membrane|peroxisomal membrane					0						TTGCTTAGTGTAGACAAACAT	0.527													36	87					0	0	1	0	0		C	7550752	C	C	7550752	3	2	89	1	0	0	0	0	1	0	0	0	11758	1638	57	3	520	3	PEX11G	19	7550752	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	469304	7550752	51578231	5972	59803											
XAB2	56949	broad.mit.edu	37	chr19	7687232	7687232	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaccttgaagctctcctcGaagtacttgtgctcctccag	7	12	7	15	1	2	1	1	1	1	0	6	2	4	1	4	0	3	3	4	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:7687232G>A	uc002mgx.2	-	12	1628	c.1602C>T	c.(1600-1602)TTC>TTT	p.F534F		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	534	HAT 11.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						AGCTCTCCTCGAAGTACTTGT	0.547								Direct_reversal_of_damage|NER					60	121					0	0	1	0	0		A	7687232	A	A	7687232	2	1	89	1	0	0	0	0	0	0	0	1	17444	1049	37	1		1	XAB2	19	7687232	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	136480	7687232	51441751	5973	59804											
XAB2	56949	broad.mit.edu	37	chr19	7689248	7689248	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcgatcatgctctcctcGaactgggcgtagctgtcaaa	9	9	11	12	3	3	0	2	0	1	0	5	2	3	0	1	1	4	4	1	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:7689248G>A	uc002mgx.2	-	7	932	c.906C>T	c.(904-906)TTC>TTT	p.F302F		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	302	HAT 8.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						TGCTCTCCTCGAACTGGGCGT	0.657								Direct_reversal_of_damage|NER					31	52					0	0	1	0	0		A	7689248	A	A	7689248	2	1	89	1	0	0	0	0	0	0	0	1	17444	1049	37	1		1	XAB2	19	7689248	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2016	7689248	51439735	5974	59805											
XAB2	56949	broad.mit.edu	37	chr19	7693137	7693137	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagccagcatttgacagaGaattggttccgcatgatttc	11	11	10	9	2	0	3	0	2	0	1	2	5	1	3	2	1	2	3	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:7693137G>T	uc002mgx.2	-	2	125	c.99C>A	c.(97-99)TTC>TTA	p.F33L	uc010dvi.1_5'Flank	NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	33	HAT 1.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						ATTTGACAGAGAATTGGTTCC	0.577								Direct_reversal_of_damage|NER					26	41					5.35047e-06	5.55034e-06	1	1	0		T	7693137	T	T	7693137	3	4	89	1	0	0	0	0	1	0	0	0	17444	933	33	5	2540	5	XAB2	19	7693137	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3889	7693137	51435846	5975	59806											
CLEC4M	10332	broad.mit.edu	37	chr19	7831062	7831062	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagcagcagcaaatctaTcaagaactgaccgatttgaa	16	8	7	10	1	2	3	1	2	1	1	3	4	3	3	2	0	4	3	2	0	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:7831062T>G	uc002mih.2	+	5	802	c.684T>G	c.(682-684)TAT>TAG	p.Y228*	CLEC4M_uc010xjv.1_Nonsense_Mutation_p.Y223*|CLEC4M_uc002mhy.2_Nonsense_Mutation_p.Y195*|CLEC4M_uc010xjw.1_Intron|CLEC4M_uc010dvt.2_Nonsense_Mutation_p.Y205*|CLEC4M_uc010dvs.2_Nonsense_Mutation_p.Y227*|CLEC4M_uc010xjx.1_Nonsense_Mutation_p.Y200*|CLEC4M_uc002mhz.2_Intron|CLEC4M_uc002mic.2_Nonsense_Mutation_p.Y223*|CLEC4M_uc002mia.2_Intron	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	251	Extracellular (Probable).|7.|7 X approximate tandem repeats.				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						AGCAAATCTATCAAGAACTGA	0.478													50	83					0	0	1	0	0		G	7831062	G	G	7831062	4	3	89	1	0	0	0	0	0	1	0	0	3521	1442	50	5	788	5	CLEC4M	19	7831062	Nonsense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	137925	7831062	51297921	5976	59807											
TIMM44	10469	broad.mit.edu	37	chr19	7999114	7999114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagatcacttttactgacttCgtgaaggctctactgagaca	11	12	9	9	1	2	4	1	3	1	2	3	6	2	4	0	1	2	1	0	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:7999114C>T	uc002miz.2	-	5	405	c.403G>A	c.(403-405)GAA>AAA	p.E135K	TIMM44_uc002mja.2_5'UTR|TIMM44_uc010dvx.1_RNA	NM_006351	NP_006342	O43615	TIM44_HUMAN	translocase of inner mitochondrial membrane 44	135					protein targeting to mitochondrion	mitochondrial inner membrane presequence translocase complex|mitochondrial matrix	ATP binding|P-P-bond-hydrolysis-driven protein transmembrane transporter activity			ovary(1)	1						TTACTGACTTCGTGAAGGCTC	0.627													34	60					0	0	1	0	0		T	7999114	T	T	7999114	3	4	89	1	0	0	0	0	1	0	0	0	15937	893	31	1	991	1	TIMM44	19	7999114	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	168052	7999114	51129869	5977	59808											
FBN3	84467	broad.mit.edu	37	chr19	8161429	8161429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccatggctacagacattcGggatctcccgacactcattc	10	9	7	15	2	2	1	1	0	1	1	5	3	2	2	2	2	1	1	2	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:8161429G>A	uc002mjf.2	-	43	5459	c.5438C>T	c.(5437-5439)CCG>CTG	p.P1813L		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1813	EGF-like 28.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						ACAGACATTCGGGATCTCCCG	0.577													14	27					0	0	1	0	0		A	8161429	A	A	8161429	3	1	89	1	0	0	0	0	1	0	0	0	5718	1116	39	1	3075	1	FBN3	19	8161429	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	162315	8161429	50967554	5978	59809											
FBN3	84467	broad.mit.edu	37	chr19	8196634	8196634	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctaccgccagcccccccagGcactggcagcggaaggagcc	8	2	12	19	2	0	0	0	0	0	0	0	2	0	2	7	4	4	2	7	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:8196634G>A	uc002mjf.2	-	14	1815	c.1794C>T	c.(1792-1794)TGC>TGT	p.C598C		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	598	EGF-like 7; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GCCCCCCCAGGCACTGGCAGC	0.682													20	24					0	0	1	0	0		A	8196634	A	A	8196634	2	1	89	1	0	0	0	0	0	0	0	1	5718	1195	42	2		2	FBN3	19	8196634	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	35205	8196634	50932349	5979	59810											
MYO1F	4542	broad.mit.edu	37	chr19	8612995	8612995	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagttgatgcaaaactgctcGaagccatttttctgcagaag	13	11	9	8	1	1	2	0	1	1	1	2	3	1	2	1	0	5	4	1	0	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:8612995G>A	uc002mkg.2	-	12	1308	c.1194C>T	c.(1192-1194)TTC>TTT	p.F398F	MYO1F_uc002mkh.2_Nonsense_Mutation_p.R400*	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	398	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						AAAACTGCTCGAAGCCATTTT	0.542													64	130					0	0	1	0	0		A	8612995	A	A	8612995	2	1	89	1	0	0	0	0	0	0	0	1	10091	1049	37	1		1	MYO1F	19	8612995	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	416361	8612995	50515988	5980	59811											
OR2Z1	284383	broad.mit.edu	37	chr19	8841415	8841415	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggatgtgaatcagtcggtgGcctcagacttcattctggtg	7	12	14	8	1	4	2	3	1	1	1	5	3	4	3	1	4	0	0	1	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:8841415G>A	uc010xkg.1	+	1	25	c.25G>A	c.(25-27)GCC>ACC	p.A9T		NM_001004699	NP_001004699	Q8NG97	OR2Z1_HUMAN	olfactory receptor, family 2, subfamily Z,	9	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2						TCAGTCGGTGGCCTCAGACTT	0.478													28	45					0	0	1	0	0		A	8841415	A	A	8841415	3	1	89	1	0	0	0	0	1	0	0	0	11055	1203	42	2	27	2	OR2Z1	19	8841415	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	228420	8841415	50287568	5981	59812											
MUC16	94025	broad.mit.edu	37	chr19	9010990	9010990	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctggtgggggccacagaGctccgatgggtgaaacctgc	7	7	16	11	1	0	2	0	1	0	1	1	3	1	2	3	4	4	2	3	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9010990G>A	uc002mkp.2	-	37	39132	c.38928C>T	c.(38926-38928)AGC>AGT	p.S12976S	MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGGCCACAGAGCTCCGATGGG	0.522													46	104					0	0	1	0	0		A	9010990	A	A	9010990	2	1	89	1	0	0	0	0	0	0	0	1	9991	962	34	2		2	MUC16	19	9010990	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	169575	9010990	50117993	5982	59813											
MUC16	94025	broad.mit.edu	37	chr19	9014190	9014190	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtgttgggcgcagaggTctgatgggtgaaacctgcgt	6	10	18	7	2	1	3	0	2	1	1	1	3	1	3	1	4	2	3	1	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9014190T>G	uc002mkp.2	-	32	38662	c.38458A>C	c.(38458-38460)ACC>CCC	p.T12820P	MUC16_uc010xki.1_5'Flank	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12822	Extracellular (Potential).			Missing (in Ref. 3; AAK74120).	cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGCGCAGAGGTCTGATGGGTG	0.532													28	55					0	0	1	0	0		G	9014190	G	G	9014190	3	3	89	1	0	0	0	0	1	0	0	0	9991	1667	58	5	5277	5	MUC16	19	9014190	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3200	9014190	50114793	5983	59814											
MUC16	94025	broad.mit.edu	37	chr19	9024886	9024886	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcttcaatgtcattggTcagtttgcttagctcccagt	7	15	8	11	0	4	0	3	0	1	0	5	0	5	0	1	1	3	4	1	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9024886T>C	uc002mkp.2	-	16	37180	c.36976A>G	c.(36976-36978)ACC>GCC	p.T12326A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12328	SEA 2.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATGTCATTGGTCAGTTTGCTT	0.557													69	137					0	0	1	0	0		C	9024886	C	C	9024886	3	2	89	1	0	0	0	0	1	0	0	0	9991	1667	58	3	6823	3	MUC16	19	9024886	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	10696	9024886	50104097	5984	59815											
MUC16	94025	broad.mit.edu	37	chr19	9028387	9028387	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgccgtggctgagctatcCttctctggcctgggtaagaa	7	11	12	11	1	1	2	0	1	1	1	3	2	2	2	3	3	2	3	3	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9028387C>A	uc002mkp.2	-	11	36609	c.36405G>T	c.(36403-36405)AAG>AAT	p.K12135N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12137	SEA 1.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGAGCTATCCTTCTCTGGCC	0.532													46	88					1.00776e-21	1.1968e-21	1	1	0		A	9028387	A	A	9028387	3	1	89	1	0	0	0	0	1	0	0	0	9991	680	24	5	7414	5	MUC16	19	9028387	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3501	9028387	50100596	5985	59816											
MUC16	94025	broad.mit.edu	37	chr19	9045784	9045784	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttaggtggtgttggcatCtctgatggtatcaaggtcat	7	16	13	5	0	3	1	2	1	1	0	4	1	3	1	0	5	0	4	0	5	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9045784C>A	uc002mkp.2	-	5	36051	c.35847G>T	c.(35845-35847)GAG>GAT	p.E11949D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11951	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGTTGGCATCTCTGATGGTA	0.468													35	93					1.22384e-17	1.42067e-17	1	1	0		A	9045784	A	A	9045784	3	1	89	1	0	0	0	0	1	0	0	0	9991	912	32	5	7996	5	MUC16	19	9045784	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	17397	9045784	50083199	5986	59817											
MUC16	94025	broad.mit.edu	37	chr19	9046149	9046149	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaactctgctggttccagTtacaagtagggtgaagagag	12	10	12	7	0	2	2	1	1	1	1	3	3	3	2	1	2	3	4	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9046149T>C	uc002mkp.2	-	5	35686	c.35482A>G	c.(35482-35484)ACT>GCT	p.T11828A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11830	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGGTTCCAGTTACAAGTAGG	0.498													14	50					0	0	1	0	0		C	9046149	C	C	9046149	3	2	89	1	0	0	0	0	1	0	0	0	9991	1725	60	3	8361	3	MUC16	19	9046149	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	365	9046149	50082834	5987	59818											
MUC16	94025	broad.mit.edu	37	chr19	9049699	9049699	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctagttcactaggtgaGatatttgttggaatggctga	10	14	12	5	0	2	2	1	2	1	1	2	4	2	3	0	3	0	4	0	3	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9049699G>T	uc002mkp.2	-	5	32136	c.31932C>A	c.(31930-31932)ATC>ATA	p.I10644I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10646	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CACTAGGTGAGATATTTGTTG	0.473													33	68					2.68265e-12	2.96656e-12	1	1	0		T	9049699	T	T	9049699	2	4	89	1	0	0	0	0	0	0	0	1	9991	932	33	5		5	MUC16	19	9049699	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3550	9049699	50079284	5988	59819											
MUC16	94025	broad.mit.edu	37	chr19	9056340	9056340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgtccttcagtagtgctgCtctctgtcccaagactggtg	6	12	11	12	1	2	1	1	0	1	1	5	1	4	1	2	1	3	3	2	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9056340C>T	uc002mkp.2	-	3	31310	c.31106G>A	c.(31105-31107)AGC>AAC	p.S10369N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10371	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGTAGTGCTGCTCTCTGTCCC	0.483													41	83					0	0	1	0	0		T	9056340	T	T	9056340	3	4	89	1	0	0	0	0	1	0	0	0	9991	797	28	2	12745	2	MUC16	19	9056340	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6641	9056340	50072643	5989	59820											
MUC16	94025	broad.mit.edu	37	chr19	9056704	9056704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agacatagtaaacctggattCtgggaaggaggttatcccag	13	9	12	7	0	1	1	0	0	1	1	2	4	2	4	2	4	1	2	2	4	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9056704C>T	uc002mkp.2	-	3	30946	c.30742G>A	c.(30742-30744)GAA>AAA	p.E10248K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10250	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AACCTGGATTCTGGGAAGGAG	0.458													32	43					0	0	1	0	0		T	9056704	T	T	9056704	3	4	89	1	0	0	0	0	1	0	0	0	9991	922	32	4	13109	4	MUC16	19	9056704	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	364	9056704	50072279	5990	59821											
MUC16	94025	broad.mit.edu	37	chr19	9058293	9058293	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagttgtttccacaaagcgaGggctcgtccatgacagactt	10	11	10	10	2	0	2	0	1	0	1	3	3	2	2	2	1	1	3	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9058293G>T	uc002mkp.2	-	3	29357	c.29153C>A	c.(29152-29154)CCT>CAT	p.P9718H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9720	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CACAAAGCGAGGGCTCGTCCA	0.478													15	38					6.72482e-11	7.33162e-11	1	1	0		T	9058293	T	T	9058293	3	4	89	1	0	0	0	0	1	0	0	0	9991	1000	35	5	14698	5	MUC16	19	9058293	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1589	9058293	50070690	5991	59822											
MUC16	94025	broad.mit.edu	37	chr19	9062990	9062990	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgacttctgtcctggagacTtcagcagtggcaccagtggg	7	10	14	10	0	2	2	1	1	1	1	3	3	3	2	2	3	1	2	2	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9062990T>G	uc002mkp.2	-	3	24660	c.24456A>C	c.(24454-24456)GAA>GAC	p.E8152D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8154	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCCTGGAGACTTCAGCAGTGG	0.542													45	80					0	0	1	0	0		G	9062990	G	G	9062990	3	3	89	1	0	0	0	0	1	0	0	0	9991	1606	56	5	19395	5	MUC16	19	9062990	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4697	9062990	50065993	5992	59823											
MUC16	94025	broad.mit.edu	37	chr19	9067439	9067439	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacttttctctgtggatacGatggggtcctgggaggtgct	5	13	15	8	1	1	0	0	0	1	0	3	3	2	2	1	5	2	2	1	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9067439G>A	uc002mkp.2	-	3	20211	c.20007C>T	c.(20005-20007)ATC>ATT	p.I6669I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6671	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGTGGATACGATGGGGTCCT	0.512													37	101					0	0	1	0	0		A	9067439	A	A	9067439	2	1	89	1	0	0	0	0	0	0	0	1	9991	1048	37	1		1	MUC16	19	9067439	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4449	9067439	50061544	5993	59824											
MUC16	94025	broad.mit.edu	37	chr19	9068735	9068735	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgctcttgcaatgtggaAgttacaggagaaggtgaggt	10	11	15	5	0	1	2	0	1	1	1	1	4	1	3	0	4	3	3	0	4	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9068735A>C	uc002mkp.2	-	3	18915	c.18711T>G	c.(18709-18711)ACT>ACG	p.T6237T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6239	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCAATGTGGAAGTTACAGGAG	0.483													39	58					0	0	1	0	0		C	9068735	C	C	9068735	2	2	89	1	0	0	0	0	0	0	0	1	9991	59	3	5		5	MUC16	19	9068735	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1296	9068735	50060248	5994	59825											
MUC16	94025	broad.mit.edu	37	chr19	9068878	9068878	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtttctgaatctacaaaatCctgagttctggctgatggag	10	14	10	7	0	3	3	0	3	3	0	4	4	4	4	1	2	1	3	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9068878C>A	uc002mkp.2	-	3	18772	c.18568G>T	c.(18568-18570)GAT>TAT	p.D6190Y		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6192	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTACAAAATCCTGAGTTCTG	0.473													30	60					1.68575e-08	1.7923e-08	1	1	0		A	9068878	A	A	9068878	3	1	89	1	0	0	0	0	1	0	0	0	9991	855	30	5	25283	5	MUC16	19	9068878	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	143	9068878	50060105	5995	59826											
MUC16	94025	broad.mit.edu	37	chr19	9069874	9069874	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggttggtgatggccatttCtgtggatcctgttacaaaag	8	15	12	6	0	1	1	0	1	1	0	2	2	2	2	2	4	1	2	2	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9069874C>A	uc002mkp.2	-	3	17776	c.17572G>T	c.(17572-17574)GAA>TAA	p.E5858*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5860	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATGGCCATTTCTGTGGATCCT	0.493													68	97					3.07281e-33	3.77625e-33	1	1	0		A	9069874	A	A	9069874	4	1	89	1	0	0	0	0	0	1	0	0	9991	922	32	5	26279	5	MUC16	19	9069874	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	996	9069874	50059109	5996	59827											
MUC16	94025	broad.mit.edu	37	chr19	9070332	9070332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgcatggcttctgtgtgcGcagtgtctttgtaagtggtc	5	15	13	8	1	2	0	0	0	2	0	3	0	2	0	0	2	2	4	0	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9070332G>A	uc002mkp.2	-	3	17318	c.17114C>T	c.(17113-17115)GCG>GTG	p.A5705V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5707	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTCTGTGTGCGCAGTGTCTTT	0.502													31	66					0	0	1	0	0		A	9070332	A	A	9070332	3	1	89	1	0	0	0	0	1	0	0	0	9991	1087	38	1	26737	1	MUC16	19	9070332	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	458	9070332	50058651	5997	59828											
MUC16	94025	broad.mit.edu	37	chr19	9084370	9084370	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattttctccggaggcagtgTcagtgctgaccatggtgctg	6	12	14	9	1	2	1	1	1	1	0	3	3	2	2	2	3	2	3	2	3	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9084370T>C	uc002mkp.2	-	1	7649	c.7445A>G	c.(7444-7446)GAC>GGC	p.D2482G		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2482	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGAGGCAGTGTCAGTGCTGAC	0.502											OREG0006611	type=TRANSCRIPTION FACTOR BINDING SITE|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	21	40					0	0	1	0	0		C	9084370	C	C	9084370	3	2	89	1	0	0	0	0	1	0	0	0	9991	1667	58	3	36414	3	MUC16	19	9084370	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	14038	9084370	50044613	5998	59829											
MUC16	94025	broad.mit.edu	37	chr19	9086216	9086216	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggctctagtgacaccagTattcaatgacctgtcagtgg	10	10	12	9	0	3	2	2	2	1	0	3	3	3	3	2	3	0	2	2	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9086216T>C	uc002mkp.2	-	1	5803	c.5599A>G	c.(5599-5601)ACT>GCT	p.T1867A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1867	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGACACCAGTATTCAATGAC	0.502													13	39					0	0	1	0	0		C	9086216	C	C	9086216	3	2	89	1	0	0	0	0	1	0	0	0	9991	1638	57	3	38260	3	MUC16	19	9086216	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1846	9086216	50042767	5999	59830											
OR7G1	125962	broad.mit.edu	37	chr19	9226198	9226198	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcttggatgttcactaggAtctttgggactgtggttgtg	6	15	15	5	0	2	0	1	0	1	0	2	4	2	3	0	4	1	3	0	4	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9226198A>G	uc002mks.1	-	1	242	c.242T>C	c.(241-243)ATC>ACC	p.I81T		NM_001005192	NP_001005192	Q8NGA0	OR7G1_HUMAN	olfactory receptor, family 7, subfamily G,	81	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						GTTCACTAGGATCTTTGGGAC	0.463													56	167					0	0	1	0	0		G	9226198	G	G	9226198	3	3	89	1	0	0	0	0	1	0	0	0	11241	333	12	3	767	3	OR7G1	19	9226198	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	139982	9226198	49902785	6000	59831											
OR7G1	125962	broad.mit.edu	37	chr19	9226251	9226251	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtaaaggagagattaaaGagaaggaagtacatgggggt	17	7	15	2	0	1	2	1	0	0	2	1	6	1	4	0	4	1	2	0	4	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9226251G>T	uc002mks.1	-	1	189	c.189C>A	c.(187-189)CTC>CTA	p.L63L		NM_001005192	NP_001005192	Q8NGA0	OR7G1_HUMAN	olfactory receptor, family 7, subfamily G,	63	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						AGAGATTAAAGAGAAGGAAGT	0.483													71	139					2.02627e-32	2.48566e-32	1	1	0		T	9226251	T	T	9226251	2	4	89	1	0	0	0	0	0	0	0	1	11241	929	33	5		5	OR7G1	19	9226251	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	53	9226251	49902732	6001	59832											
OR7D2	162998	broad.mit.edu	37	chr19	9296766	9296766	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcctcacacaggtctatttCtccatgttttttcctattct	6	19	4	12	0	4	0	1	0	3	0	6	0	5	0	3	1	1	1	3	1	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9296766C>T	uc002mkz.1	+	1	497	c.309C>T	c.(307-309)TTC>TTT	p.F103F		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	103	Helical; Name=3; (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						AGGTCTATTTCTCCATGTTTT	0.493													56	119					0	0	1	0	0		T	9296766	T	T	9296766	2	4	89	1	0	0	0	0	0	0	0	1	11238	912	32	4		4	OR7D2	19	9296766	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	70515	9296766	49832217	6002	59833											
OR7E24	26648	broad.mit.edu	37	chr19	9362082	9362082	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcctgactcagatgtctttTtttgtcctttttgcatgtat	5	21	7	8	0	2	2	1	1	1	1	3	2	3	2	2	0	2	2	2	0	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9362082T>G	uc002mlb.1	+	1	363	c.363T>G	c.(361-363)TTT>TTG	p.F121L		NM_001079935	NP_001073404	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E,	121	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AGATGTCTTTTTTTGTCCTTT	0.493													14	49					0	0	1	0	0		G	9362082	G	G	9362082	3	3	89	1	0	0	0	0	1	0	0	0	11240	1838	64	5	365	5	OR7E24	19	9362082	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	65316	9362082	49766901	6003	59834											
OR7E24	26648	broad.mit.edu	37	chr19	9362171	9362171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtcaccccctgcactaccGaatcatcatgaacccacgcc	10	7	5	19	2	3	1	3	1	0	0	3	2	3	1	5	0	3	1	5	0	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9362171G>A	uc002mlb.1	+	1	452	c.452G>A	c.(451-453)CGA>CAA	p.R151Q		NM_001079935	NP_001073404	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E,	151	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CTGCACTACCGAATCATCATG	0.438													19	23					0	0	1	0	0		A	9362171	A	A	9362171	3	1	89	1	0	0	0	0	1	0	0	0	11240	1058	37	1	454	1	OR7E24	19	9362171	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	89	9362171	49766812	6004	59835											
ZNF699	374879	broad.mit.edu	37	chr19	9406606	9406606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgtgagttcttaggtgttCggtgagggatgaggaacgac	8	11	17	5	2	1	3	0	3	1	0	2	6	1	5	0	4	1	3	0	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9406606C>T	uc002mlc.1	-	5	1474	c.1474G>A	c.(1474-1476)GAA>AAA	p.E492K		NM_198535	NP_940937	Q32M78	ZN699_HUMAN	zinc finger protein 699	492	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTAGGTGTTCGGTGAGGGAT	0.448													25	41					0	0	1	0	0		T	9406606	T	T	9406606	3	4	89	1	0	0	0	0	1	0	0	0	18126	893	31	1	458	1	ZNF699	19	9406606	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44435	9406606	49722377	6005	59836											
ZNF699	374879	broad.mit.edu	37	chr19	9407394	9407394	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caagaaaatggaaggccttcCcacattccttgcactgatag	13	9	8	11	0	0	2	0	1	0	1	2	3	2	3	3	2	1	1	3	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9407394C>A	uc002mlc.1	-	5	686	c.686G>T	c.(685-687)GGG>GTG	p.G229V		NM_198535	NP_940937	Q32M78	ZN699_HUMAN	zinc finger protein 699	229	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAAGGCCTTCCCACATTCCTT	0.453													60	129					6.20943e-19	7.27097e-19	1	1	0		A	9407394	A	A	9407394	3	1	89	1	0	0	0	0	1	0	0	0	18126	623	22	5	1246	5	ZNF699	19	9407394	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	788	9407394	49721589	6006	59837											
ZNF559	84527	broad.mit.edu	37	chr19	9452436	9452436	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaagccttgagtgaacaCtcatgccttaagactcacag	15	8	8	10	0	2	3	2	2	0	1	2	4	2	3	2	0	3	0	2	0	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9452436C>T	uc002mlg.2	+	7	956	c.309C>T	c.(307-309)CAC>CAT	p.H103H	ZNF559_uc002mlf.2_5'UTR|ZNF559_uc010dwl.1_5'UTR|ZNF559_uc010xkn.1_Silent_p.H95H|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Silent_p.H167H|ZNF559_uc010dwk.1_5'UTR|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	103	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGAGTGAACACTCATGCCTTA	0.363													29	61					0	0	1	0	0		T	9452436	T	T	9452436	2	4	89	1	0	0	0	0	0	0	0	1	18015	564	20	4		4	ZNF559	19	9452436	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	45042	9452436	49676547	6007	59838											
ZNF560	147741	broad.mit.edu	37	chr19	9577259	9577259	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggcttctctctagtgtgtTttcaaatgtgcaatacgagc	9	14	10	8	1	3	0	1	0	2	0	4	1	3	0	0	1	3	3	0	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9577259T>G	uc002mlp.1	-	10	2574	c.2364A>C	c.(2362-2364)AAA>AAC	p.K788N	ZNF560_uc010dwr.1_Missense_Mutation_p.K682N	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	788	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						TCTAGTGTGTTTTCAAATGTG	0.398													39	79					0	0	1	0	0		G	9577259	G	G	9577259	3	3	89	1	0	0	0	0	1	0	0	0	18016	1838	64	5	12	5	ZNF560	19	9577259	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	124823	9577259	49551724	6008	59839											
ZNF560	147741	broad.mit.edu	37	chr19	9577542	9577542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgaaagcacatggaatttCgaaaggaatttccacatgcg	15	9	9	8	2	0	1	0	1	0	0	2	4	1	3	1	2	2	1	1	2	4	2	rs148650284		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9577542C>T	uc002mlp.1	-	10	2291	c.2081G>A	c.(2080-2082)CGA>CAA	p.R694Q	ZNF560_uc010dwr.1_Missense_Mutation_p.R588Q	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	694					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						CATGGAATTTCGAAAGGAATT	0.378													67	133					0	0	1	0	0		T	9577542	T	T	9577542	3	4	89	1	0	0	0	0	1	0	0	0	18016	884	31	1	295	1	ZNF560	19	9577542	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	283	9577542	49551441	6009	59840											
ZNF560	147741	broad.mit.edu	37	chr19	9577768	9577768	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctccagtgtgtcttcgtaAatgtttagtaagatctgagc	10	15	9	7	1	3	2	0	1	3	1	5	2	3	2	1	0	1	3	1	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9577768A>C	uc002mlp.1	-	10	2065	c.1855T>G	c.(1855-1857)TTA>GTA	p.L619V	ZNF560_uc010dwr.1_Missense_Mutation_p.L513V	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	619	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						TGTCTTCGTAAATGTTTAGTA	0.398													63	141					0	0	1	0	0		C	9577768	C	C	9577768	3	2	89	1	0	0	0	0	1	0	0	0	18016	11	1	5	521	5	ZNF560	19	9577768	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	226	9577768	49551215	6010	59841											
ZNF121	7675	broad.mit.edu	37	chr19	9676675	9676675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgtaggctttcccacattCgttacatatatagggtttct	9	17	7	8	1	1	0	0	0	1	0	3	0	2	0	1	2	1	4	1	2	5	9	rs142394580	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9676675C>T	uc010xkp.1	-	4	1346	c.1114G>A	c.(1114-1116)GAA>AAA	p.E372K	ZNF121_uc010dwt.2_Missense_Mutation_p.E372K|ZNF121_uc010xkq.1_Missense_Mutation_p.E372K	NM_001008727	NP_001008727	P58317	ZN121_HUMAN	zinc finger protein 121	372	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTCCCACATTCGTTACATATA	0.338													14	38					0	0	1	0	0		T	9676675	T	T	9676675	3	4	89	1	0	0	0	0	1	0	0	0	17744	893	31	1	62	1	ZNF121	19	9676675	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	98907	9676675	49452308	6011	59842											
ZNF562	54811	broad.mit.edu	37	chr19	9764135	9764135	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttagtcttttcggatttCtttccagtatgaactgctac	7	19	6	9	1	3	1	0	1	3	0	5	2	4	2	1	1	3	2	1	1	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9764135C>A	uc010xks.1	-	6	934	c.771G>T	c.(769-771)AAG>AAT	p.K257N	ZNF562_uc002mly.2_Missense_Mutation_p.K257N|ZNF562_uc002mlx.2_Missense_Mutation_p.K185N|ZNF562_uc010xkt.1_Missense_Mutation_p.K220N|ZNF562_uc010xku.1_Missense_Mutation_p.K188N|ZNF562_uc010xkv.1_Missense_Mutation_p.K256N|ZNF562_uc010xkw.1_Missense_Mutation_p.K141N	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	257					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTCGGATTTCTTTCCAGTAT	0.388													32	62					3.90053e-15	4.43362e-15	1	1	0		A	9764135	A	A	9764135	3	1	89	1	0	0	0	0	1	0	0	0	18018	912	32	5	513	5	ZNF562	19	9764135	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	87460	9764135	49364848	6012	59843											
ZNF846	162993	broad.mit.edu	37	chr19	9868330	9868330	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacatgcataaggcttttCtcctgtgtgcgttcgcatgt	6	17	9	9	2	1	0	0	0	1	0	3	0	1	0	1	1	3	4	1	1	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9868330C>A	uc002mmb.1	-	6	1954	c.1423G>T	c.(1423-1425)GAA>TAA	p.E475*	ZNF846_uc010xky.1_Intron|ZNF846_uc010xkz.1_Intron|ZNF846_uc010dww.2_Intron|ZNF846_uc002mmc.1_Nonsense_Mutation_p.E346*	NM_001077624	NP_001071092	Q147U1	ZN846_HUMAN	zinc finger protein 846	475					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TAAGGCTTTTCTCCTGTGTGC	0.428													44	82					1.41504e-22	1.68905e-22	1	1	0		A	9868330	A	A	9868330	4	1	89	1	0	0	0	0	0	1	0	0	18217	922	32	5	182	5	ZNF846	19	9868330	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	104195	9868330	49260653	6013	59844											
ZNF846	162993	broad.mit.edu	37	chr19	9869139	9869139	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgactgattaagaaaagttCtccaacagtctttgcattca	14	13	6	8	0	3	3	1	2	2	1	4	3	3	3	1	0	2	2	1	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:9869139C>A	uc002mmb.1	-	6	1145	c.614G>T	c.(613-615)AGA>ATA	p.R205I	ZNF846_uc010xky.1_RNA|ZNF846_uc010xkz.1_RNA|ZNF846_uc010dww.2_Missense_Mutation_p.R76I|ZNF846_uc002mmc.1_Missense_Mutation_p.R76I	NM_001077624	NP_001071092	Q147U1	ZN846_HUMAN	zinc finger protein 846	205	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAGAAAAGTTCTCCAACAGTC	0.358													7	103					8.12818e-05	8.32951e-05	1	1	0		A	9869139	A	A	9869139	3	1	89	1	0	0	0	0	1	0	0	0	18217	913	32	5	991	5	ZNF846	19	9869139	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	809	9869139	49259844	6014	59845											
COL5A3	50509	broad.mit.edu	37	chr19	10071116	10071116	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagacggggcccagttCaaacccaaacttttggttcg	11	8	11	11	2	1	1	1	0	0	1	2	2	1	1	2	3	3	3	2	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:10071116C>A	uc002mmq.1	-	67	5295	c.5209G>T	c.(5209-5211)GAA>TAA	p.E1737*		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1737	Fibrillar collagen NC1.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			GGGCCCAGTTCAAACCCAAAC	0.577													25	59					5.35356e-11	5.83973e-11	1	1	0		A	10071116	A	A	10071116	4	1	89	1	0	0	0	0	0	1	0	0	3701	835	29	5	32	5	COL5A3	19	10071116	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	201977	10071116	49057867	6015	59846											
RDH8	50700	broad.mit.edu	37	chr19	10127761	10127761	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgagggacctggggaaGaaggagacactggaggcagc	13	3	17	8	0	0	3	0	1	0	2	0	7	0	6	2	6	1	1	2	6	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:10127761G>T	uc002mmr.2	+	2	381	c.132G>T	c.(130-132)AAG>AAT	p.K44N		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	44					estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	ACCTGGGGAAGAAGGAGACAC	0.642													7	17					1.06961e-07	1.12684e-07	1	1	0		T	10127761	T	T	10127761	3	4	89	1	0	0	0	0	1	0	0	0	13221	933	33	5	138	5	RDH8	19	10127761	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	56645	10127761	49001222	6016	59847											
DNMT1	1786	broad.mit.edu	37	chr19	10259675	10259675	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtccccctccagcagggActcgggatccatgcctccct	5	8	10	18	2	0	0	0	0	0	0	6	2	4	2	6	2	2	1	6	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:10259675A>G	uc002mng.2	-	26	2737	c.2557T>C	c.(2557-2559)TCC>CCC	p.S853P	DNMT1_uc010xlc.1_Missense_Mutation_p.S869P|DNMT1_uc002mnh.2_Missense_Mutation_p.S748P|DNMT1_uc010xld.1_Missense_Mutation_p.S853P	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	853	BAH 1.				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	TCCAGCAGGGACTCGGGATCC	0.393													20	37					0	0	1	0	0		G	10259675	G	G	10259675	3	3	89	1	0	0	0	0	1	0	0	0	4681	275	10	3	2353	3	DNMT1	19	10259675	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	131914	10259675	48869308	6017	59848											
DNMT1	1786	broad.mit.edu	37	chr19	10267136	10267136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagagttcgatattcttctCgatgaggccggtgtcgatgg	8	12	14	7	4	2	2	0	1	2	1	5	6	2	2	1	3	0	1	1	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:10267136C>T	uc002mng.2	-	17	1462	c.1282G>A	c.(1282-1284)GAG>AAG	p.E428K	DNMT1_uc010xlc.1_Missense_Mutation_p.E444K|DNMT1_uc002mnh.2_Missense_Mutation_p.E323K|DNMT1_uc010xld.1_Missense_Mutation_p.E428K	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	428	DNA replication foci-targeting sequence (By similarity).|Homodimerization.|Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	ATATTCTTCTCGATGAGGCCG	0.483													25	66					0	0	1	0	0		T	10267136	T	T	10267136	3	4	89	1	0	0	0	0	1	0	0	0	4681	893	31	1	3664	1	DNMT1	19	10267136	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	7461	10267136	48861847	6018	59849											
PDE4A	5141	broad.mit.edu	37	chr19	10561292	10561292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgcaggcggtccccgctgGgcggccccacccctgtctgc	2	7	13	19	3	2	0	0	0	2	0	3	0	3	0	6	4	2	2	6	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:10561292G>A	uc002moj.2	+	5	742	c.634G>A	c.(634-636)GGC>AGC	p.G212S	PDE4A_uc002mok.2_Missense_Mutation_p.G186S|PDE4A_uc002mol.2_Missense_Mutation_p.G151S|PDE4A_uc002mom.2_5'Flank|PDE4A_uc002mon.2_5'Flank	NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1	212					signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)	GTCCCCGCTGGGCGGCCCCAC	0.652													6	10					0	0	1	0	0		A	10561292	A	A	10561292	3	1	89	1	0	0	0	0	1	0	0	0	11658	1232	43	4	1039	4	PDE4A	19	10561292	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	294156	10561292	48567691	6019	59850											
KEAP1	9817	broad.mit.edu	37	chr19	10610561	10610561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagggtgtagctgaaggtgCggttgccatgctgggagggc	6	8	19	8	1	0	1	0	1	0	0	0	2	0	2	2	5	4	4	2	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:10610561C>T	uc002moq.1	-	2	305	c.149G>A	c.(148-150)CGC>CAC	p.R50H	KEAP1_uc002mor.1_Missense_Mutation_p.R50H	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	50					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			GCTGAAGGTGCGGTTGCCATG	0.632													66	103					0	0	1	0	0		T	10610561	T	T	10610561	3	4	89	1	0	0	0	0	1	0	0	0	8157	768	27	1	1745	1	KEAP1	19	10610561	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	49269	10610561	48518422	6020	59851											
DNM2	1785	broad.mit.edu	37	chr19	10886518	10886518	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctcattctggctgtcacGcccgccaacatggacctggc	7	8	10	16	2	3	0	2	0	1	0	3	1	3	1	4	3	2	1	4	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:10886518G>A	uc002mps.1	+	4	689	c.525G>A	c.(523-525)ACG>ACA	p.T175T	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Silent_p.T175T|DNM2_uc002mpv.1_Silent_p.T175T|DNM2_uc002mpu.1_Silent_p.T175T|DNM2_uc010dxl.1_Silent_p.T175T	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	175					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			TGGCTGTCACGCCCGCCAACA	0.607													50	95					0	0	1	0	0		A	10886518	A	A	10886518	2	1	89	1	0	0	0	0	0	0	0	1	4678	1074	38	1		1	DNM2	19	10886518	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	275957	10886518	48242465	6021	59852											
DNM2	1785	broad.mit.edu	37	chr19	10908128	10908128	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgtaaaactcaaagagccGagtttgaagtgtgttgatct	13	13	10	5	1	2	3	1	2	1	1	2	4	2	3	1	0	2	3	1	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:10908128G>A	uc002mps.1	+	10	1433	c.1269G>A	c.(1267-1269)CCG>CCA	p.P423P	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Intron|DNM2_uc002mpv.1_Silent_p.P423P|DNM2_uc002mpu.1_Intron|DNM2_uc010dxl.1_Intron|DNM2_uc002mpw.2_Silent_p.P156P	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	423					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			TCAAAGAGCCGAGTTTGAAGT	0.507													21	46					0	0	1	0	0		A	10908128	A	A	10908128	2	1	89	1	0	0	0	0	0	0	0	1	4678	1045	37	1		1	DNM2	19	10908128	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21610	10908128	48220855	6022	59853											
DOCK6	57572	broad.mit.edu	37	chr19	11352862	11352862	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggattttcaggagccggaGaaatgtcgatcttgagctgg	9	10	16	6	2	2	2	1	1	1	1	3	6	2	4	1	5	2	1	1	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:11352862G>T	uc002mqs.3	-	14	1543	c.1502C>A	c.(1501-1503)TCT>TAT	p.S501Y		NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	501					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						AGGAGCCGGAGAAATGTCGAT	0.612													6	10					0.0215528	0.0216931	1	1	0		T	11352862	T	T	11352862	3	4	89	1	0	0	0	0	1	0	0	0	4697	942	33	5	4781	5	DOCK6	19	11352862	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	444734	11352862	47776121	6023	59854											
RGL3	57139	broad.mit.edu	37	chr19	11516087	11516087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcaaggaggagaagttccGcagttctcggcagcgctgcc	8	6	15	12	4	1	1	0	0	1	1	3	3	2	2	2	3	2	6	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:11516087G>A	uc002mrp.2	-	8	1076	c.1012C>T	c.(1012-1014)CGG>TGG	p.R338W	RGL3_uc002mrn.2_Missense_Mutation_p.R102W|RGL3_uc002mrm.2_Missense_Mutation_p.R102W|RGL3_uc002mro.2_Missense_Mutation_p.R338W	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	338	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						GAGAAGTTCCGCAGTTCTCGG	0.567													4	13					0	0	1	0	0		A	11516087	A	A	11516087	3	1	89	1	0	0	0	0	1	0	0	0	13303	1086	38	1	1186	1	RGL3	19	11516087	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	163225	11516087	47612896	6024	59855											
ZNF627	199692	broad.mit.edu	37	chr19	11728369	11728369	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgatttccccagttcatttCgaatccatgaaaggacccac	11	12	6	12	1	1	2	1	2	0	0	4	4	3	3	4	1	0	1	4	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:11728369C>T	uc002msk.2	+	4	1259	c.1051C>T	c.(1051-1053)CGA>TGA	p.R351*	ZNF627_uc010dyf.2_Nonsense_Mutation_p.R241*	NM_145295	NP_660338	Q7L945	ZN627_HUMAN	zinc finger protein 627	351	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CAGTTCATTTCGAATCCATGA	0.413													23	47					0	0	1	0	0		T	11728369	T	T	11728369	4	4	89	1	0	0	0	0	0	1	0	0	18076	876	31	1	1065	1	ZNF627	19	11728369	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	212282	11728369	47400614	6025	59856											
ZNF627	199692	broad.mit.edu	37	chr19	11728453	11728453	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagttgttccagttcgtttCgaaaacatgaaagaattcac	13	13	7	8	2	2	2	2	1	0	1	5	3	3	2	1	0	1	4	1	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:11728453C>T	uc002msk.2	+	4	1343	c.1135C>T	c.(1135-1137)CGA>TGA	p.R379*	ZNF627_uc010dyf.2_Nonsense_Mutation_p.R269*	NM_145295	NP_660338	Q7L945	ZN627_HUMAN	zinc finger protein 627	379	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CAGTTCGTTTCGAAAACATGA	0.418													25	54					0	0	1	0	0		T	11728453	T	T	11728453	4	4	89	1	0	0	0	0	0	1	0	0	18076	876	31	1	1149	1	ZNF627	19	11728453	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	84	11728453	47400530	6026	59857											
ZNF441	126068	broad.mit.edu	37	chr19	11891955	11891955	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccttcaaatacatgaaaGaattcacactggggagagac	16	9	8	8	0	2	3	2	1	0	2	2	5	2	4	1	2	2	0	1	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:11891955G>T	uc010dyj.2	+	4	1510	c.1316G>T	c.(1315-1317)AGA>ATA	p.R439I	ZNF441_uc002msn.3_Missense_Mutation_p.R395I	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	439	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATACATGAAAGAATTCACACT	0.378													26	43					1.1804e-14	1.33524e-14	1	1	0		T	11891955	T	T	11891955	3	4	89	1	0	0	0	0	1	0	0	0	17939	942	33	5	1330	5	ZNF441	19	11891955	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	163502	11891955	47237028	6027	59858											
ZNF441	126068	broad.mit.edu	37	chr19	11891986	11891986	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggagagaccctataaatgTaaacaatgcggaaaagcctt	16	7	11	7	1	0	1	0	0	0	1	0	4	0	3	2	3	3	1	2	3	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:11891986T>C	uc010dyj.2	+	4	1541	c.1347T>C	c.(1345-1347)TGT>TGC	p.C449C	ZNF441_uc002msn.3_Silent_p.C405C	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	449	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCTATAAATGTAAACAATGCG	0.383													28	57					0	0	1	0	0		C	11891986	C	C	11891986	2	2	89	1	0	0	0	0	0	0	0	1	17939	1644	57	3		3	ZNF441	19	11891986	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	31	11891986	47236997	6028	59859											
ZNF441	126068	broad.mit.edu	37	chr19	11892539	11892539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagttacttacgaatacacGaaagagttcatactggagag	16	9	9	7	2	1	2	1	0	0	2	1	5	1	2	0	1	4	2	0	1	7	5	rs77835227	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:11892539G>A	uc010dyj.2	+	4	2094	c.1900G>A	c.(1900-1902)GAA>AAA	p.E634K	ZNF441_uc002msn.3_Missense_Mutation_p.E590K	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	634	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ACGAATACACGAAAGAGTTCA	0.408													23	47					0	0	1	0	0		A	11892539	A	A	11892539	3	1	89	1	0	0	0	0	1	0	0	0	17939	1059	37	1	1914	1	ZNF441	19	11892539	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	553	11892539	47236444	6029	59860											
ZNF491	126069	broad.mit.edu	37	chr19	11916972	11916972	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caccaaccacataagtgtcaGaaatttttagagaagccata	17	9	6	9	0	1	2	1	0	0	2	1	3	1	2	3	0	2	0	3	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:11916972G>A	uc002mso.1	+	3	489	c.204G>A	c.(202-204)CAG>CAA	p.Q68Q		NM_152356	NP_689569	Q8N8L2	ZN491_HUMAN	zinc finger protein 491	68					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ATAAGTGTCAGAAATTTTTAG	0.398													30	61					0	0	1	0	0		A	11916972	A	A	11916972	2	1	89	1	0	0	0	0	0	0	0	1	17967	933	33	4		4	ZNF491	19	11916972	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24433	11916972	47212011	6030	59861											
ZNF491	126069	broad.mit.edu	37	chr19	11917544	11917544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctcgccttataagctttcGaagacacatgagaatgcaca	14	10	7	10	2	1	2	0	1	1	2	3	4	1	2	1	0	2	2	1	0	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:11917544G>A	uc002mso.1	+	3	1061	c.776G>A	c.(775-777)CGA>CAA	p.R259Q		NM_152356	NP_689569	Q8N8L2	ZN491_HUMAN	zinc finger protein 491	259	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ATAAGCTTTCGAAGACACATG	0.408													29	66					0	0	1	0	0		A	11917544	A	A	11917544	3	1	89	1	0	0	0	0	1	0	0	0	17967	1058	37	1	778	1	ZNF491	19	11917544	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	572	11917544	47211439	6031	59862											
ZNF440	126070	broad.mit.edu	37	chr19	11942676	11942676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acactggagagaaaccatgtGaatgtaaacagtgtggtaaa	17	8	11	5	0	0	2	0	1	0	1	0	4	0	3	1	2	2	2	1	2	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:11942676G>A	uc002msp.1	+	4	841	c.685G>A	c.(685-687)GAA>AAA	p.E229K		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	229	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAAACCATGTGAATGTAAACA	0.373													40	73					0	0	1	0	0		A	11942676	A	A	11942676	3	1	89	1	0	0	0	0	1	0	0	0	17938	1291	45	4	699	4	ZNF440	19	11942676	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	25132	11942676	47186307	6032	59863											
ZNF439	90594	broad.mit.edu	37	chr19	11976850	11976850	+	Translation_Start_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaaaaataaaaaaaaaaaTtgctttatggaagaaagtaa	26	8	5	2	0	0	1	0	0	0	1	0	2	0	2	0	1	1	2	0	1	13	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:11976850T>A	uc002mss.2	+	1	7	c.-121T>A	c.(-123--119)AATTG>AAATG		ZNF439_uc002msr.2_Intron	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						aaaaaaaaaaTTGCTTTATGG	0.209													4	18					0	0	1	0	0		A	11976850	A	A	11976850	1	1	89	1	0	0	0	0	0	0	0	0	17936	1508	52	5		5	ZNF439	19	11976850	Translation_Start_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	34174	11976850	47152133	6033	59864											
ZNF439	90594	broad.mit.edu	37	chr19	11978700	11978700	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaaagccttatgaatgTcaggaatgtgggaaagcatt	15	9	13	4	0	1	2	1	1	0	1	1	5	1	4	1	3	2	1	1	3	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:11978700T>C	uc002mss.2	+	3	944	c.816T>C	c.(814-816)TGT>TGC	p.C272C	ZNF439_uc002msr.2_Silent_p.C136C	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	272	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CTTATGAATGTCAGGAATGTG	0.393													35	71					0	0	1	0	0		C	11978700	C	C	11978700	2	2	89	1	0	0	0	0	0	0	0	1	17936	1673	58	3		3	ZNF439	19	11978700	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1850	11978700	47150283	6034	59865											
ZNF700	90592	broad.mit.edu	37	chr19	12060493	12060493	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagatgttgcaattcccttCgatatcatgaaaggactcac	12	12	7	10	1	3	2	3	1	0	1	5	4	4	3	1	1	1	2	1	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12060493C>T	uc002msu.2	+	4	1780	c.1654C>T	c.(1654-1656)CGA>TGA	p.R552*	ZNF700_uc010xme.1_Nonsense_Mutation_p.R570*|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	552	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CAATTCCCTTCGATATCATGA	0.433													37	68					0	0	1	0	0		T	12060493	T	T	12060493	4	4	89	1	0	0	0	0	0	1	0	0	18129	876	31	1	1668	1	ZNF700	19	12060493	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	81793	12060493	47068490	6035	59866											
ZNF433	163059	broad.mit.edu	37	chr19	12125892	12125892	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgaggcacatccaaaagacTtcccacactgcttacattca	13	8	6	14	1	1	1	1	0	0	1	3	2	3	1	2	1	2	2	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12125892T>G	uc002msy.1	-	4	1961	c.1790A>C	c.(1789-1791)AAG>ACG	p.K597T	uc002msx.1_Intron|ZNF433_uc002msz.1_Missense_Mutation_p.K562T	NM_001080411	NP_001073880	Q8N7K0	ZN433_HUMAN	zinc finger protein 433	597	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCCAAAAGACTTCCCACACTG	0.468													39	71					0	0	1	0	0		G	12125892	G	G	12125892	3	3	89	1	0	0	0	0	1	0	0	0	17932	1609	56	5	235	5	ZNF433	19	12125892	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	65399	12125892	47003091	6036	59867											
ZNF878	729747	broad.mit.edu	37	chr19	12155208	12155208	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttacattcataaggtttCtctccagtgtgagtcttttc	7	20	6	8	0	3	1	1	1	2	0	6	1	4	1	1	1	1	1	1	1	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12155208C>A	uc002mta.1	-	5	1149	c.1149G>T	c.(1147-1149)GAG>GAT	p.E383D		NM_001080404	NP_001073873	C9JN71	ZN878_HUMAN	zinc finger protein 878	336					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						CATAAGGTTTCTCTCCAGTGT	0.388													28	68					9.39395e-14	1.05303e-13	1	1	0		A	12155208	A	A	12155208	3	1	89	1	0	0	0	0	1	0	0	0	18221	912	32	5	591	5	ZNF878	19	12155208	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	29316	12155208	46973775	6037	59868											
ZNF878	729747	broad.mit.edu	37	chr19	12155980	12155980	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcaaaacttctccatgcTgatgactttctttactttca	9	17	5	10	0	4	2	2	2	2	0	5	2	4	2	1	0	3	1	1	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12155980T>G	uc002mta.1	-	5	377	c.377A>C	c.(376-378)CAG>CCG	p.Q126P		NM_001080404	NP_001073873	C9JN71	ZN878_HUMAN	zinc finger protein 878	79	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						TTCTCCATGCTGATGACTTTC	0.383													6	16					0	0	1	0	0		G	12155980	G	G	12155980	3	3	89	1	0	0	0	0	1	0	0	0	18221	1580	55	5	1363	5	ZNF878	19	12155980	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	772	12155980	46973003	6038	59869											
ZNF844	284391	broad.mit.edu	37	chr19	12187077	12187077	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccagttcgttttgaagAcatgaaagaactcacactgg	12	11	8	10	1	2	4	1	2	1	2	4	4	2	4	1	1	1	2	1	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12187077A>G	uc002mtb.2	+	4	1285	c.1142A>G	c.(1141-1143)GAC>GGC	p.D381G	ZNF844_uc010dym.1_Missense_Mutation_p.D224G	NM_001136501	NP_001129973	Q08AG5	ZN844_HUMAN	zinc finger protein 844	381					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGTTTTGAAGACATGAAAGAA	0.383													5	12					0	0	1	0	0		G	12187077	G	G	12187077	3	3	89	1	0	0	0	0	1	0	0	0	18215	275	10	3	1156	3	ZNF844	19	12187077	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	31097	12187077	46941906	6039	59870											
ZNF20	7568	broad.mit.edu	37	chr19	12243483	12243483	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccacattgcttgcattgAtagggtttctctccagtgtg	6	16	10	9	0	1	1	0	1	1	0	3	1	2	1	2	1	3	3	2	1	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12243483A>C	uc002mtf.1	-	4	1661	c.1518T>G	c.(1516-1518)TAT>TAG	p.Y506*	ZNF20_uc002mte.1_Nonsense_Mutation_p.Y471*|ZNF20_uc002mtg.1_Nonsense_Mutation_p.Y506*	NM_021143	NP_066966	P17024	ZNF20_HUMAN	zinc finger protein 20	506	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCTTGCATTGATAGGGTTTCT	0.398													28	198					0	0	1	0	0		C	12243483	C	C	12243483	4	2	89	1	0	0	0	0	0	1	0	0	17786	340	12	5	84	5	ZNF20	19	12243483	Nonsense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	56406	12243483	46885500	6040	59871											
ZNF625	90589	broad.mit.edu	37	chr19	12256532	12256532	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttctttcatgtattcgaagGctaccagaatgactaaaggc	12	12	9	8	1	2	2	1	1	1	1	3	3	2	2	1	2	1	3	1	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12256532G>A	uc002mth.2	-	4	851	c.501C>T	c.(499-501)AGC>AGT	p.S167S	ZNF20_uc002mtg.1_Intron|ZNF625_uc010dyn.1_RNA|ZNF625_uc010dyo.1_Silent_p.S201S	NM_145233	NP_660276	Q96I27	ZN625_HUMAN	zinc finger protein 625	167	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTATTCGAAGGCTACCAGAAT	0.413													41	80					0	0	1	0	0		A	12256532	A	A	12256532	2	1	89	1	0	0	0	0	0	0	0	1	18074	1194	42	2		2	ZNF625	19	12256532	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13049	12256532	46872451	6041	59872											
ZNF44	51710	broad.mit.edu	37	chr19	12384420	12384420	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctctccagtgtgagttCtttcatgcatacgtaataaa	10	16	7	8	1	3	1	1	1	2	0	5	1	4	1	1	0	2	4	1	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12384420C>A	uc010xmj.1	-	5	999	c.794G>T	c.(793-795)AGA>ATA	p.R265I	ZNF44_uc002mtl.2_Intron|ZNF44_uc010dyr.1_Intron|ZNF44_uc010xmi.1_RNA|ZNF44_uc002mtn.3_RNA|ZNF44_uc010dys.2_Missense_Mutation_p.R217I	NM_001164276	NP_001157748	P15621	ZNF44_HUMAN	zinc finger protein 44 isoform 1	265	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		Renal(1328;0.157)		GBM - Glioblastoma multiforme(1328;0.0164)|Lung(535;0.179)		AGTGTGAGTTCTTTCATGCAT	0.393													54	121					5.13769e-22	6.11477e-22	1	1	0		A	12384420	A	A	12384420	3	1	89	1	0	0	0	0	1	0	0	0	17937	913	32	5	1201	5	ZNF44	19	12384420	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	127888	12384420	46744563	6042	59873											
ZNF799	90576	broad.mit.edu	37	chr19	12491521	12491521	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgaagggaagtggaagcActgaaggctttcccacattg	11	10	12	8	0	0	2	0	2	0	0	1	4	1	4	1	3	1	2	1	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12491521A>G	uc002mts.3	-	4	1021	c.555T>C	c.(553-555)AGT>AGC	p.S185S				Q96GE5	ZN799_HUMAN	Homo sapiens cDNA clone IMAGE:30340957, **** WARNING: chimeric clone ****.	291	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						AAGTGGAAGCACTGAAGGCTT	0.433													46	86					0	0	1	0	0		G	12491521	G	G	12491521	2	3	89	1	0	0	0	0	0	0	0	1	18191	174	6	3		3	ZNF799	19	12491521	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	107101	12491521	46637462	6043	59874											
ZNF799	90576	broad.mit.edu	37	chr19	12491744	12491744	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctctccagagtgagttCtttcatgcatacgaaataaa	12	14	7	8	1	3	2	1	1	2	1	5	3	4	2	1	0	2	3	1	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12491744C>A	uc002mts.3	-	4	798	c.332G>T	c.(331-333)AGA>ATA	p.R111I				Q96GE5	ZN799_HUMAN	Homo sapiens cDNA clone IMAGE:30340957, **** WARNING: chimeric clone ****.	217	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						AGAGTGAGTTCTTTCATGCAT	0.393													48	81					3.77016e-25	4.54193e-25	1	1	0		A	12491744	A	A	12491744	3	1	89	1	0	0	0	0	1	0	0	0	18191	928	32	5		5	ZNF799	19	12491744	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	223	12491744	46637239	6044	59875											
ZNF799	90576	broad.mit.edu	37	chr19	12502322	12502322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgagttgtttcgtgtcttCgaagggaagtggaagcactg	8	13	15	5	2	1	1	0	1	1	0	3	4	1	3	0	2	1	3	0	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12502322C>T	uc010dyt.2	-	4	1040	c.890G>A	c.(889-891)CGA>CAA	p.R297Q	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	297	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						TTCGTGTCTTCGAAGGGAAGT	0.423													67	122					0	0	1	0	0		T	12502322	T	T	12502322	3	4	89	1	0	0	0	0	1	0	0	0	18191	884	31	1	1045	1	ZNF799	19	12502322	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10578	12502322	46626661	6045	59876											
ZNF709	163051	broad.mit.edu	37	chr19	12575681	12575681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgcattatcatatgtcttCgatagcttggaagagaaatg	12	14	10	5	1	2	1	1	0	1	1	3	4	2	2	0	1	2	2	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12575681C>T	uc002mtv.3	-	4	1216	c.1055G>A	c.(1054-1056)CGA>CAA	p.R352Q	ZNF709_uc002mtw.3_Missense_Mutation_p.R320Q|ZNF709_uc002mtx.3_Missense_Mutation_p.R352Q	NM_152601	NP_689814	Q8N972	ZN709_HUMAN	zinc finger protein 709 isoform a	352	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CATATGTCTTCGATAGCTTGG	0.368													56	110					0	0	1	0	0		T	12575681	T	T	12575681	3	4	89	1	0	0	0	0	1	0	0	0	18138	884	31	1	874	1	ZNF709	19	12575681	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	73359	12575681	46553302	6046	59877											
ZNF564	163050	broad.mit.edu	37	chr19	12637684	12637684	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctctccagtgtgagttCtttcgtgtatttgaaatgaa	8	18	9	6	1	2	3	0	3	2	0	5	3	3	3	1	0	0	3	1	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12637684C>A	uc002mty.2	-	4	1448	c.1238G>T	c.(1237-1239)AGA>ATA	p.R413I	ZNF709_uc002mtx.3_Intron	NM_144976	NP_659413	Q8TBZ8	ZN564_HUMAN	zinc finger protein 564	413	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGTGTGAGTTCTTTCGTGTAT	0.408													78	145					8.07507e-42	1.00138e-41	1	1	0		A	12637684	A	A	12637684	3	1	89	1	0	0	0	0	1	0	0	0	18020	913	32	5	427	5	ZNF564	19	12637684	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	62003	12637684	46491299	6047	59878											
ZNF490	57474	broad.mit.edu	37	chr19	12691588	12691588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatgggttctttcatggattCgaaagtgagtggaataaaga	13	13	12	3	1	2	2	1	1	1	1	3	5	2	4	0	3	0	1	0	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12691588C>T	uc002mtz.2	-	5	1430	c.1301G>A	c.(1300-1302)CGA>CAA	p.R434Q		NM_020714	NP_065765	Q9ULM2	ZN490_HUMAN	zinc finger protein 490	434	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTCATGGATTCGAAAGTGAGT	0.413													47	83					0	0	1	0	0		T	12691588	T	T	12691588	3	4	89	1	0	0	0	0	1	0	0	0	17966	884	31	1	292	1	ZNF490	19	12691588	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	53904	12691588	46437395	6048	59879											
ZNF490	57474	broad.mit.edu	37	chr19	12692305	12692305	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcccacattctttgcatTtatgtggcttctctccatat	6	20	4	11	0	2	0	0	0	2	0	5	0	4	0	2	1	1	2	2	1	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:12692305T>G	uc002mtz.2	-	5	713	c.584A>C	c.(583-585)AAA>ACA	p.K195T		NM_020714	NP_065765	Q9ULM2	ZN490_HUMAN	zinc finger protein 490	195	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTCTTTGCATTTATGTGGCTT	0.443													42	86					0	0	1	0	0		G	12692305	G	G	12692305	3	3	89	1	0	0	0	0	1	0	0	0	17966	1841	64	5	1009	5	ZNF490	19	12692305	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	717	12692305	46436678	6049	59880											
RAD23A	5886	broad.mit.edu	37	chr19	13060204	13060204	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagcagctgggccaggaGaaccctcagcttttacaggt	9	8	11	13	0	1	1	1	0	0	1	2	2	2	1	3	3	5	3	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:13060204G>T	uc002mvw.1	+	7	904	c.795G>T	c.(793-795)GAG>GAT	p.E265D	RAD23A_uc002mvx.1_Missense_Mutation_p.E264D|RAD23A_uc002mvz.1_Missense_Mutation_p.E264D|RAD23A_uc002mwa.1_Missense_Mutation_p.E265D|RAD23A_uc002mvy.1_Missense_Mutation_p.E99D|RAD23A_uc010xmw.1_Missense_Mutation_p.E100D	NM_005053	NP_005044	P54725	RD23A_HUMAN	UV excision repair protein RAD23 homolog A	265					interspecies interaction between organisms|nucleotide-excision repair|positive regulation of viral genome replication|proteasomal ubiquitin-dependent protein catabolic process|regulation of proteasomal ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	damaged DNA binding|polyubiquitin binding|single-stranded DNA binding			central_nervous_system(1)	1						TGGGCCAGGAGAACCCTCAGC	0.612								NER					24	63					1.9806e-07	2.07987e-07	1	1	0		T	13060204	T	T	13060204	3	4	89	1	0	0	0	0	1	0	0	0	13007	933	33	5	821	5	RAD23A	19	13060204	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	367899	13060204	46068779	6050	59881											
TRMT1	55621	broad.mit.edu	37	chr19	13221113	13221113	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggctgtgcaggacgattCtcagggcctgggggtggggg	5	7	20	9	1	1	0	1	0	1	0	2	2	1	1	2	7	1	2	2	7	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:13221113C>A	uc002mwj.2	-	7	1128	c.878G>T	c.(877-879)AGA>ATA	p.R293I	TRMT1_uc010xmy.1_5'Flank|TRMT1_uc002mwk.2_Missense_Mutation_p.R293I|TRMT1_uc002mwl.3_Missense_Mutation_p.R293I|TRMT1_uc010xmz.1_Missense_Mutation_p.R79I	NM_017722	NP_060192	Q9NXH9	TRM1_HUMAN	tRNA methyltransferase 1 isoform 1	293							RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.08e-22)	GBM - Glioblastoma multiforme(1328;0.0356)		CAGGACGATTCTCAGGGCCTG	0.552													5	12					0.0215528	0.0216931	1	1	0		A	13221113	A	A	13221113	3	1	89	1	0	0	0	0	1	0	0	0	16587	913	32	5	1141	5	TRMT1	19	13221113	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	160909	13221113	45907870	6051	59882											
CACNA1A	773	broad.mit.edu	37	chr19	13372361	13372361	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgaagatgaacatgaataGcatgtagacgatgaggatgt	15	8	14	4	2	0	5	0	3	0	2	0	8	0	6	0	2	2	2	0	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:13372361G>A	uc010dze.2	-	26	4392	c.4156C>T	c.(4156-4158)CTA>TTA	p.L1386L	CACNA1A_uc010xnd.1_Silent_p.L91L|CACNA1A_uc002mwx.3_Silent_p.L91L|CACNA1A_uc010dzc.2_Silent_p.L911L|CACNA1A_uc002mwy.3_Silent_p.L1385L|CACNA1A_uc010xne.1_Silent_p.L914L	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1386	III.|Helical; Name=S5 of repeat III; (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	AACATGAATAGCATGTAGACG	0.493													11	5					0	0	1	0	0		A	13372361	A	A	13372361	2	1	89	1	0	0	0	0	0	0	0	1	2541	962	34	2		2	CACNA1A	19	13372361	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	151248	13372361	45756622	6052	59883											
CACNA1A	773	broad.mit.edu	37	chr19	13373570	13373570	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctttggcagccgcttgAtggttttaagaggtcgtagc	7	13	14	7	2	0	3	0	2	0	1	1	3	0	3	1	3	3	5	1	3	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:13373570A>G	uc010dze.2	-	25	4306	c.4070T>C	c.(4069-4071)ATC>ACC	p.I1357T	CACNA1A_uc010xnd.1_Missense_Mutation_p.I62T|CACNA1A_uc002mwx.3_Missense_Mutation_p.I62T|CACNA1A_uc010dzc.2_Missense_Mutation_p.I882T|CACNA1A_uc002mwy.3_Missense_Mutation_p.I1356T|CACNA1A_uc010xne.1_Missense_Mutation_p.I885T	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1357	III.|Helical; Name=S4 of repeat III; (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	CAGCCGCTTGATGGTTTTAAG	0.433											OREG0025294	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	20					0	0	1	0	0		G	13373570	G	G	13373570	3	3	89	1	0	0	0	0	1	0	0	0	2541	333	12	3	3647	3	CACNA1A	19	13373570	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1209	13373570	45755413	6053	59884											
CACNA1A	773	broad.mit.edu	37	chr19	13409910	13409910	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctggccgaggcgctggTccacggtgggctcggccgcc	2	6	18	15	5	0	0	0	0	0	0	2	1	1	0	4	6	1	4	4	6	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:13409910T>C	uc010dze.2	-	19	2776	c.2540A>G	c.(2539-2541)GAC>GGC	p.D847G	CACNA1A_uc010dzc.2_Missense_Mutation_p.D372G|CACNA1A_uc002mwy.3_Missense_Mutation_p.D846G|CACNA1A_uc010xne.1_Missense_Mutation_p.D375G	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	847	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	GAGGCGCTGGTCCACGGTGGG	0.701													13	20					0	0	1	0	0		C	13409910	C	C	13409910	3	2	89	1	0	0	0	0	1	0	0	0	2541	1667	58	3	5201	3	CACNA1A	19	13409910	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	36340	13409910	45719073	6054	59885											
CACNA1A	773	broad.mit.edu	37	chr19	13470614	13470614	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactcaccctgaatgtcatCtacaaaagggaaggggagaa	16	6	11	8	0	3	3	2	1	1	2	3	5	3	4	1	3	1	0	1	3	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:13470614C>A	uc010dze.2	-	6	1021	c.785_splice	c.e6-1	p.D262_splice	CACNA1A_uc002mwy.3_Splice_Site_p.D262_splice	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3						cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	TGAATGTCATCTACAAAAGGG	0.537													4	0					1	1	1	1	0		A	13470614	A	A	13470614	5	1	89	1	0	0	0	0	0	0	1	0	2541	927	32	5	7018	5	CACNA1A	19	13470614	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	60704	13470614	45658369	6055	59886											
ZSWIM4	65249	broad.mit.edu	37	chr19	13928150	13928150	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcgtctggaggaggagaCacttaccctttacccaggta	9	10	11	11	1	1	1	0	0	1	1	2	4	1	3	2	4	2	1	2	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:13928150C>A	uc002mxh.1	+	7	1490	c.1301C>A	c.(1300-1302)ACA>AAA	p.T434K	ZSWIM4_uc010xng.1_Missense_Mutation_p.T357K	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	434							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			GAGGAGGAGACACTTACCCTT	0.632													31	60					2.85442e-18	3.33381e-18	1	1	0		A	13928150	A	A	13928150	3	1	89	1	0	0	0	0	1	0	0	0	18268	478	17	5	1327	5	ZSWIM4	19	13928150	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	457536	13928150	45200833	6056	59887											
LPHN1	22859	broad.mit.edu	37	chr19	14267940	14267940	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatagtgcagcaggccggcGaagatggggcaggcaatctg	12	5	16	8	2	1	1	0	0	1	1	1	2	1	1	1	5	2	4	1	5	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:14267940G>A	uc010xnn.1	-	16	3074	c.2778C>T	c.(2776-2778)TTC>TTT	p.F926F	LPHN1_uc010xno.1_Silent_p.F921F|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	926	Helical; Name=3; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						GCAGGCCGGCGAAGATGGGGC	0.647													14	34					0	0	1	0	0		A	14267940	A	A	14267940	2	1	89	1	0	0	0	0	0	0	0	1	8933	1049	37	1		1	LPHN1	19	14267940	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	339790	14267940	44861043	6057	59888											
EMR3	84658	broad.mit.edu	37	chr19	14765862	14765862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcagtttctagaactttcGattccacatcccggagaata	12	11	8	10	2	1	2	0	0	1	2	4	4	3	2	2	2	1	2	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:14765862G>A	uc002mzi.3	-	6	657	c.509C>T	c.(508-510)TCG>TTG	p.S170L	EMR3_uc010dzp.2_Missense_Mutation_p.S118L|EMR3_uc010xnv.1_Intron	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	170	Extracellular (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						TAGAACTTTCGATTCCACATC	0.413													32	78					0	0	1	0	0		A	14765862	A	A	14765862	3	1	89	1	0	0	0	0	1	0	0	0	5114	1059	37	1	1493	1	EMR3	19	14765862	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	497922	14765862	44363121	6058	59889											
ZNF333	84449	broad.mit.edu	37	chr19	14829800	14829800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaccctgaagagtcacatgcGaactcacactggagagaagc	15	5	10	11	1	2	3	2	1	0	2	2	6	2	4	1	1	4	0	1	1	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:14829800G>A	uc002mzn.2	+	12	1795	c.1661G>A	c.(1660-1662)CGA>CAA	p.R554Q	ZNF333_uc002mzk.3_Missense_Mutation_p.R445Q	NM_032433	NP_115809	Q96JL9	ZN333_HUMAN	zinc finger protein 333	554	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AGTCACATGCGAACTCACACT	0.537													29	44					0	0	1	0	0		A	14829800	A	A	14829800	3	1	89	1	0	0	0	0	1	0	0	0	17875	1058	37	1	1703	1	ZNF333	19	14829800	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	63938	14829800	44299183	6059	59890											
OR7A10	390892	broad.mit.edu	37	chr19	14951778	14951778	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctattgctttcctctgaaGaatgttttcatagcaccctt	8	18	5	10	0	3	2	1	1	2	1	4	2	4	2	2	0	2	3	2	0	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:14951778G>T	uc002mzx.1	-	1	912	c.912C>A	c.(910-912)TTC>TTA	p.F304L		NM_001005190	NP_001005190	O76100	OR7AA_HUMAN	olfactory receptor, family 7, subfamily A,	304	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					TTCCTCTGAAGAATGTTTTCA	0.443													15	51					1.5739e-10	1.71181e-10	1	1	0		T	14951778	T	T	14951778	3	4	89	1	0	0	0	0	1	0	0	0	11233	933	33	5	21	5	OR7A10	19	14951778	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	121978	14951778	44177205	6060	59891											
SLC1A6	6511	broad.mit.edu	37	chr19	15063790	15063790	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtcttccgtgggcaagccGaccgacgtaagcacaatgac	11	7	11	12	4	1	1	0	1	1	0	2	3	2	1	3	1	2	3	3	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:15063790G>A	uc002naa.1	-	8	1457	c.1449C>T	c.(1447-1449)GTC>GTT	p.V483V	SLC1A6_uc010dzu.1_Silent_p.V405V|SLC1A6_uc010xod.1_Silent_p.V419V	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	483	Helical; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	TGGGCAAGCCGACCGACGTAA	0.572													55	90					0	0	1	0	0		A	15063790	A	A	15063790	2	1	89	1	0	0	0	0	0	0	0	1	14461	1045	37	1		1	SLC1A6	19	15063790	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	112012	15063790	44065193	6061	59892											
SLC1A6	6511	broad.mit.edu	37	chr19	15083562	15083562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaatgaaggcgtttcggCgcaggaagcgcagcacgtgc	10	5	16	10	5	0	2	0	1	0	1	1	3	0	3	0	3	3	5	0	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:15083562C>T	uc002naa.1	-	1	169	c.161G>A	c.(160-162)CGC>CAC	p.R54H	SLC1A6_uc010dzu.1_Missense_Mutation_p.R54H|SLC1A6_uc010xod.1_Silent_p.A58A|SLC1A6_uc002nab.2_Missense_Mutation_p.R54H|SLC1A6_uc002nac.2_Missense_Mutation_p.R54H|SLC1A6_uc002nad.1_Missense_Mutation_p.R54H	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	54	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	GGCGTTTCGGCGCAGGAAGCG	0.657													13	27					0	0	1	0	0		T	15083562	T	T	15083562	3	4	89	1	0	0	0	0	1	0	0	0	14461	768	27	1	1569	1	SLC1A6	19	15083562	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19772	15083562	44045421	6062	59893											
CCDC105	126402	broad.mit.edu	37	chr19	15132651	15132651	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttcacctggagaccgcaGaaaagctggacagacccctg	13	5	11	12	1	1	3	1	0	0	3	1	5	1	4	4	2	1	3	4	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:15132651G>T	uc002nae.2	+	6	1270	c.1171G>T	c.(1171-1173)GAA>TAA	p.E391*		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	391					microtubule cytoskeleton organization	microtubule				ovary(1)	1						GGAGACCGCAGAAAAGCTGGA	0.647													30	70					2.81731e-10	3.05284e-10	1	1	0		T	15132651	T	T	15132651	4	4	89	1	0	0	0	0	0	1	0	0	2743	943	33	5	1193	5	CCDC105	19	15132651	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	49089	15132651	43996332	6063	59894											
CASP14	23581	broad.mit.edu	37	chr19	15164409	15164409	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtttcggcagctgagattCgaaagcaccatgaaaagaga	15	8	11	7	2	0	3	0	2	0	2	2	6	0	3	1	1	2	4	1	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:15164409C>T	uc010dzv.1	+	3	452	c.144C>T	c.(142-144)TTC>TTT	p.F48F	CASP14_uc002naf.2_Silent_p.F48F	NM_012114	NP_036246	P31944	CASPE_HUMAN	caspase 14 precursor	48					apoptosis|cell differentiation|epidermis development|proteolysis	cytoplasm|nucleus	cysteine-type endopeptidase activity			skin(2)|ovary(1)|lung(1)	4						AGCTGAGATTCGAAAGCACCA	0.557													47	85					0	0	1	0	0		T	15164409	T	T	15164409	2	4	89	1	0	0	0	0	0	0	0	1	2673	883	31	1		1	CASP14	19	15164409	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	31758	15164409	43964574	6064	59895											
OR1I1	126370	broad.mit.edu	37	chr19	15198197	15198197	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtatgccttccacctgttCgggaccatggacagctttct	7	13	9	12	1	1	0	0	0	1	0	3	2	2	2	4	2	2	3	4	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:15198197C>T	uc010xoe.1	+	1	321	c.321C>T	c.(319-321)TTC>TTT	p.F107F		NM_001004713	NP_001004713	O60431	OR1I1_HUMAN	olfactory receptor, family 1, subfamily I,	107	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3						TCCACCTGTTCGGGACCATGG	0.582													14	48					0	0	1	0	0		T	15198197	T	T	15198197	2	4	89	1	0	0	0	0	0	0	0	1	10977	883	31	1		1	OR1I1	19	15198197	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	33788	15198197	43930786	6065	59896											
ILVBL	10994	broad.mit.edu	37	chr19	15226687	15226687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgacgaatgtatcaaattCgatgaggctgtagccaaaag	14	10	10	7	2	2	2	1	2	1	0	3	4	2	2	1	1	1	3	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:15226687C>T	uc002nam.2	-	14	1709	c.1588G>A	c.(1588-1590)GAA>AAA	p.E530K	ILVBL_uc010xof.1_Missense_Mutation_p.E171K|ILVBL_uc010dzw.2_Missense_Mutation_p.E423K	NM_006844	NP_006835	A1L0T0	ILVBL_HUMAN	ilvB (bacterial acetolactate synthase)-like	530	Thiamine pyrophosphate binding (By similarity).					integral to membrane	magnesium ion binding|thiamine pyrophosphate binding|transferase activity			ovary(2)	2						GTATCAAATTCGATGAGGCTG	0.587													14	65					0	0	1	0	0		T	15226687	T	T	15226687	3	4	89	1	0	0	0	0	1	0	0	0	7731	893	31	1	322	1	ILVBL	19	15226687	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28490	15226687	43902296	6066	59897											
AKAP8L	26993	broad.mit.edu	37	chr19	15510111	15510111	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggtggagggaagctggttAcctttccaccatgcggtctc	6	10	15	10	1	1	0	0	0	1	0	3	2	2	2	3	6	3	2	3	6	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:15510111A>G	uc002naw.1	-	9	1256	c.1157_splice	c.e9+1	p.R386_splice	AKAP8L_uc002nax.1_Splice_Site|AKAP8L_uc010xoh.1_Splice_Site_p.R325_splice	NM_014371	NP_055186	Q9ULX6	AKP8L_HUMAN	A kinase (PRKA) anchor protein 8-like							cytoplasm|nuclear matrix	DEAD/H-box RNA helicase binding|DNA binding|zinc ion binding			ovary(1)	1						GAAGCTGGTTACCTTTCCACC	0.627													10	37					0	0	1	0	0		G	15510111	G	G	15510111	5	3	89	1	0	0	0	0	0	0	1	0	458	405	14	3	805	3	AKAP8L	19	15510111	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	283424	15510111	43618872	6067	59898											
CYP4F22	126410	broad.mit.edu	37	chr19	15658949	15658949	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcagctgccctttacaacTatgtgcattaaggagagcct	11	11	8	11	0	1	1	1	0	0	1	1	2	1	1	2	1	6	2	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:15658949T>G	uc002nbh.3	+	11	1334	c.1167T>G	c.(1165-1167)ACT>ACG	p.T389T		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	389						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						CCTTTACAACTATGTGCATTA	0.522													14	171					0	0	1	0	0		G	15658949	G	G	15658949	2	3	89	1	0	0	0	0	0	0	0	1	4192	1509	53	5		5	CYP4F22	19	15658949	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	148838	15658949	43470034	6068	59899											
CYP4F3	4051	broad.mit.edu	37	chr19	15758136	15758136	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgtgaacatcatgcatgTgagttatttgaagccaaggt	12	12	12	5	0	1	3	1	3	0	0	1	4	1	3	1	1	3	2	1	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:15758136T>C	uc002nbj.2	+	5	575	c.525_splice	c.e5+2	p.H175_splice	CYP4F3_uc010xok.1_Splice_Site_p.H175_splice|CYP4F3_uc010xol.1_Splice_Site_p.H175_splice|CYP4F3_uc010xom.1_Splice_Site_p.H26_splice|CYP4F3_uc002nbk.2_Splice_Site_p.H175_splice|CYP4F3_uc010xon.1_5'Flank	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,						leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						ATCATGCATGTGAGTTATTTG	0.383													43	104					0	0	1	0	0		C	15758136	C	C	15758136	5	2	89	1	0	0	0	0	0	0	1	0	4193	1710	59	3	541	3	CYP4F3	19	15758136	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	99187	15758136	43370847	6069	59900											
OR10H2	26538	broad.mit.edu	37	chr19	15839024	15839024	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgagcgcagcctccacacGcccatgtacctcttcctgtg	7	8	9	17	3	1	0	0	0	1	0	3	1	3	0	5	0	4	2	5	0	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:15839024G>A	uc002nbm.2	+	1	191	c.171G>A	c.(169-171)ACG>ACA	p.T57T		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					GCCTCCACACGCCCATGTACC	0.612													59	100					0	0	1	0	0		A	15839024	A	A	15839024	2	1	89	1	0	0	0	0	0	0	0	1	10925	1074	38	1		1	OR10H2	19	15839024	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	80888	15839024	43289959	6070	59901											
OR10H5	284433	broad.mit.edu	37	chr19	15905629	15905629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcactatggctttgcctcCgtcatttacctgaagcccaa	8	12	8	13	1	1	1	1	1	0	0	2	1	2	1	4	1	4	2	4	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:15905629C>T	uc010xos.1	+	1	771	c.771C>T	c.(769-771)TCC>TCT	p.S257S		NM_001004466	NP_001004466	Q8NGA6	O10H5_HUMAN	olfactory receptor, family 10, subfamily H,	257	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GCTTTGCCTCCGTCATTTACC	0.567													25	44					0	0	1	0	0		T	15905629	T	T	15905629	2	4	89	1	0	0	0	0	0	0	0	1	10928	639	23	1		1	OR10H5	19	15905629	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	66605	15905629	43223354	6071	59902											
CYP4F2	8529	broad.mit.edu	37	chr19	15990222	15990222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgttctctgggtcaaagCgaaaggggtcgtagacctgg	9	10	15	7	2	2	2	1	1	1	1	4	3	2	2	1	4	1	2	1	4	3	2	rs138971789		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:15990222C>T	uc002nbs.1	-	12	1381	c.1331G>A	c.(1330-1332)CGC>CAC	p.R444H	CYP4F2_uc010xot.1_Missense_Mutation_p.R295H	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	444					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						TGGGTCAAAGCGAAAGGGGTC	0.577													67	144					0	0	1	0	0		T	15990222	T	T	15990222	3	4	89	1	0	0	0	0	1	0	0	0	4191	768	27	1	239	1	CYP4F2	19	15990222	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	84593	15990222	43138761	6072	59903											
CYP4F11	57834	broad.mit.edu	37	chr19	16045053	16045053	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaaaaccagttctgttTcgggggttgaggaaaacact	11	10	10	10	1	1	1	0	1	1	0	3	2	2	2	3	3	2	3	3	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:16045053T>C	uc002nbu.2	-	2	202	c.166A>G	c.(166-168)AAA>GAA	p.K56E	CYP4F11_uc010eab.1_Missense_Mutation_p.K56E|CYP4F11_uc002nbt.2_Missense_Mutation_p.K56E	NM_001128932	NP_001122404	Q9HBI6	CP4FB_HUMAN	cytochrome P450 family 4 subfamily F polypeptide	56					inflammatory response|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)	1						CAGTTCTGTTTCGGGGGTTGA	0.617													36	52					0	0	1	0	0		C	16045053	C	C	16045053	3	2	89	1	0	0	0	0	1	0	0	0	4189	1792	62	3	1456	3	CYP4F11	19	16045053	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	54831	16045053	43083930	6073	59904											
RAB8A	4218	broad.mit.edu	37	chr19	16240385	16240385	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttttcactctcgccagaGatatcaaagcaaaaatggac	15	10	6	10	1	3	1	2	0	1	1	4	3	3	2	1	1	1	1	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:16240385G>T	uc002ndn.3	+	7	724	c.502G>T	c.(502-504)GAT>TAT	p.D168Y	RAB8A_uc010xpc.1_Missense_Mutation_p.R161I|RAB8A_uc002ndo.3_Missense_Mutation_p.R46I	NM_005370	NP_005361	P61006	RAB8A_HUMAN	mel transforming oncogene	168					cilium assembly|Golgi vesicle fusion to target membrane|protein transport|small GTPase mediated signal transduction|vesicle docking involved in exocytosis	Golgi apparatus|nonmotile primary cilium|perinuclear region of cytoplasm|plasma membrane	GTP binding|protein binding			skin(1)	1						TCTCGCCAGAGATATCAAAGC	0.527													70	146					4.14589e-37	5.12652e-37	1	1	0		T	16240385	T	T	16240385	3	4	89	1	0	0	0	0	1	0	0	0	12981	942	33	5	528	5	RAB8A	19	16240385	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	195332	16240385	42888598	6074	59905											
EPS15L1	58513	broad.mit.edu	37	chr19	16514555	16514555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaagtacctggttgatttCgtcttgcgttgacttcaggg	6	15	13	7	2	2	3	1	3	1	0	3	3	2	3	1	2	2	3	1	2	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:16514555C>T	uc002ndz.1	-	15	1621	c.1615G>A	c.(1615-1617)GAA>AAA	p.E539K	EPS15L1_uc002ndx.2_Missense_Mutation_p.E539K|EPS15L1_uc002ndy.2_RNA|EPS15L1_uc010xpe.1_Missense_Mutation_p.E429K|EPS15L1_uc010xpf.1_Missense_Mutation_p.E442K|EPS15L1_uc002nea.1_Missense_Mutation_p.E539K|EPS15L1_uc010eah.1_Missense_Mutation_p.E539K|EPS15L1_uc002neb.1_Missense_Mutation_p.E385K|EPS15L1_uc002nec.1_Missense_Mutation_p.E539K	NM_021235	NP_067058	Q9UBC2	EP15R_HUMAN	epidermal growth factor receptor pathway	539					endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|nucleus|plasma membrane	calcium ion binding			ovary(3)|skin(2)	5						TGGTTGATTTCGTCTTGCGTT	0.582													38	88					0	0	1	0	0		T	16514555	T	T	16514555	3	4	89	1	0	0	0	0	1	0	0	0	5201	893	31	1	1015	1	EPS15L1	19	16514555	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	274170	16514555	42614428	6075	59906											
CALR3	125972	broad.mit.edu	37	chr19	16594840	16594840	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtcgtactctatgctgccGgattcaattgactgaccatc	9	12	8	12	2	2	2	1	2	1	0	4	3	2	3	2	1	3	2	2	1	3	4	rs149108772		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:16594840G>A	uc002ned.2	-	5	642	c.579C>T	c.(577-579)TCC>TCT	p.S193S	MED26_uc002nee.2_Intron	NM_145046	NP_659483	Q96L12	CALR3_HUMAN	calreticulin 3 precursor	193	4 X approximate repeats.|N-domain.|1-1.				protein folding	endoplasmic reticulum lumen	calcium ion binding|sugar binding|unfolded protein binding				0						CTATGCTGCCGGATTCAATTG	0.428													13	31					0	0	1	0	0		A	16594840	A	A	16594840	2	1	89	1	0	0	0	0	0	0	0	1	2596	1103	39	1		1	CALR3	19	16594840	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	80285	16594840	42534143	6076	59907											
CALR3	125972	broad.mit.edu	37	chr19	16601326	16601326	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttttccctttattgctgaaCggtttgaagcgtgcagagat	8	15	11	7	2	0	3	0	2	0	1	1	4	1	3	1	1	4	4	1	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:16601326C>T	uc002ned.2	-	3	312	c.249G>A	c.(247-249)CCG>CCA	p.P83P	MED26_uc002nee.2_Intron	NM_145046	NP_659483	Q96L12	CALR3_HUMAN	calreticulin 3 precursor	83	N-domain.				protein folding	endoplasmic reticulum lumen	calcium ion binding|sugar binding|unfolded protein binding				0						TATTGCTGAACGGTTTGAAGC	0.453													43	81					0	0	1	0	0		T	16601326	T	T	16601326	2	4	89	1	0	0	0	0	0	0	0	1	2596	523	19	1		1	CALR3	19	16601326	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6486	16601326	42527657	6077	59908											
CPAMD8	27151	broad.mit.edu	37	chr19	17010303	17010303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctcatcaaagtagaagaGcactcggcgtccagccactt	12	8	8	13	2	2	2	2	0	0	2	4	2	3	2	3	1	3	2	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17010303G>A	uc002nfb.2	-	37	5004	c.4972C>T	c.(4972-4974)CTC>TTC	p.L1658F	CPAMD8_uc010xpj.1_5'Flank|CPAMD8_uc002nfd.1_Missense_Mutation_p.L123F	NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1611						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						AAGTAGAAGAGCACTCGGCGT	0.577													9	33					0	0	1	0	0		A	17010303	A	A	17010303	3	1	89	1	0	0	0	0	1	0	0	0	3798	971	34	2	850	2	CPAMD8	19	17010303	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	408977	17010303	42118680	6078	59909											
CPAMD8	27151	broad.mit.edu	37	chr19	17091335	17091335	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaaggtgtgttaaacgaatCggtttctccagggcaggggc	10	9	15	7	2	1	0	0	0	1	0	3	2	1	0	1	5	1	3	1	5	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17091335C>T	uc002nfb.2	-	14	1730	c.1698G>A	c.(1696-1698)CCG>CCA	p.P566P		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	519						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						TTAAACGAATCGGTTTCTCCA	0.592													34	53					0	0	1	0	0		T	17091335	T	T	17091335	2	4	89	1	0	0	0	0	0	0	0	1	3798	871	31	1		1	CPAMD8	19	17091335	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	81032	17091335	42037648	6079	59910											
CPAMD8	27151	broad.mit.edu	37	chr19	17091474	17091474	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggacatgtggacttcacaGaaaaataggcttcttcccca	13	9	9	10	0	2	1	1	0	1	1	3	3	3	3	2	3	0	1	2	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17091474G>T	uc002nfb.2	-	14	1591	c.1559C>A	c.(1558-1560)TCT>TAT	p.S520Y		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	473						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						GGACTTCACAGAAAAATAGGC	0.572													25	47					0.00395357	0.00399947	1	1	0		T	17091474	T	T	17091474	3	4	89	1	0	0	0	0	1	0	0	0	3798	942	33	5	4355	5	CPAMD8	19	17091474	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	139	17091474	42037509	6080	59911											
CPAMD8	27151	broad.mit.edu	37	chr19	17119328	17119328	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttaccgcagcagaacggCtttaagtgtctccactctat	11	11	7	12	2	2	1	0	0	2	1	3	1	2	1	2	1	4	3	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17119328C>T	uc002nfb.2	-	7	719	c.687G>A	c.(685-687)AAG>AAA	p.K229K		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	182						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						AGCAGAACGGCTTTAAGTGTC	0.562													19	38					0	0	1	0	0		T	17119328	T	T	17119328	2	4	89	1	0	0	0	0	0	0	0	1	3798	796	28	2		2	CPAMD8	19	17119328	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27854	17119328	42009655	6081	59912											
MYO9B	4650	broad.mit.edu	37	chr19	17298844	17298844	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcagggtacagcgccaagtAcacgttccaggtaggccaca	11	6	12	12	2	1	0	1	0	0	0	2	0	2	0	3	3	3	4	3	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17298844A>G	uc010eak.2	+	19	2830	c.2678A>G	c.(2677-2679)TAC>TGC	p.Y893C	MYO9B_uc002nfi.2_Missense_Mutation_p.Y893C|MYO9B_uc002nfj.1_Missense_Mutation_p.Y893C	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	893	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						AGCGCCAAGTACACGTTCCAG	0.567													3	2					0	0	1	0	0		G	17298844	G	G	17298844	3	3	89	1	0	0	0	0	1	0	0	0	10103	391	14	3	2748	3	MYO9B	19	17298844	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	179516	17298844	41830139	6082	59913											
MYO9B	4650	broad.mit.edu	37	chr19	17308628	17308628	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcacctccttctccacgagCgacgtctccaagctcctccc	6	8	6	21	4	2	0	0	0	2	0	7	2	5	0	6	0	2	2	6	0	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17308628C>T	uc010eak.2	+	23	4226	c.4074C>T	c.(4072-4074)AGC>AGT	p.S1358S	MYO9B_uc002nfi.2_Silent_p.S1358S|MYO9B_uc002nfj.1_Silent_p.S1358S|MYO9B_uc002nfl.1_5'Flank	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	1358	Tail.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						TCTCCACGAGCGACGTCTCCA	0.388													24	65					0	0	1	0	0		T	17308628	T	T	17308628	2	4	89	1	0	0	0	0	0	0	0	1	10103	767	27	1		1	MYO9B	19	17308628	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9784	17308628	41820355	6083	59914											
FAM129C	199786	broad.mit.edu	37	chr19	17641676	17641676	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctcaggagccgaccggaagCcagttgctacgcagcaaagt	11	5	12	13	3	1	0	1	0	0	0	1	3	1	2	4	2	5	4	4	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17641676C>T	uc010xpr.1	+	3	399	c.261C>T	c.(259-261)AGC>AGT	p.S87S	FAM129C_uc010xpq.1_Silent_p.S87S|FAM129C_uc010xps.1_Silent_p.S56S|FAM129C_uc010xpt.1_Intron	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	87											0						CGACCGGAAGCCAGTTGCTAC	0.632													14	30					0	0	1	0	0		T	17641676	T	T	17641676	2	4	89	1	0	0	0	0	0	0	0	1	5449	738	26	2		2	FAM129C	19	17641676	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	333048	17641676	41487307	6084	59915											
FAM129C	199786	broad.mit.edu	37	chr19	17651357	17651357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgactgtcccaccgcctgcGccagagcccctcaggcacgc	6	4	10	21	4	1	1	1	0	0	1	2	2	2	1	7	1	2	1	7	1	0	0	rs150439084		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17651357G>A	uc010xpr.1	+	10	1367	c.1229G>A	c.(1228-1230)CGC>CAC	p.R410H	FAM129C_uc010xpq.1_Missense_Mutation_p.R410H|FAM129C_uc002ngy.3_Missense_Mutation_p.R136H|FAM129C_uc010xpu.1_Missense_Mutation_p.R136H|FAM129C_uc002ngz.3_RNA|FAM129C_uc010eaw.2_Missense_Mutation_p.R136H|FAM129C_uc002nhb.2_Missense_Mutation_p.R9H	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	410											0						CACCGCCTGCGCCAGAGCCCC	0.672													7	10					0	0	1	0	0		A	17651357	A	A	17651357	3	1	89	1	0	0	0	0	1	0	0	0	5449	1087	38	1	1267	1	FAM129C	19	17651357	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9681	17651357	41477626	6085	59916											
FAM129C	199786	broad.mit.edu	37	chr19	17654405	17654405	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctctgcatctttttacctTttgtgctgagccaactcgag	6	16	8	11	1	2	1	0	1	2	0	4	2	2	1	2	0	5	2	2	0	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17654405T>G	uc010xpr.1	+	13	1750	c.1612T>G	c.(1612-1614)TTT>GTT	p.F538V	FAM129C_uc010xpq.1_Missense_Mutation_p.F538V|FAM129C_uc002ngy.3_Missense_Mutation_p.F264V|FAM129C_uc010xpu.1_Missense_Mutation_p.F264V|FAM129C_uc002ngz.3_RNA|FAM129C_uc010eaw.2_Intron|FAM129C_uc002nhb.2_Missense_Mutation_p.F167V	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	538											0						CTTTTTACCTTTTGTGCTGAG	0.532													18	23					0	0	1	0	0		G	17654405	G	G	17654405	3	3	89	1	0	0	0	0	1	0	0	0	5449	1841	64	5	1662	5	FAM129C	19	17654405	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3048	17654405	41474578	6086	59917											
UNC13A	23025	broad.mit.edu	37	chr19	17758153	17758153	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccttcatctgctgcgtgtgCgccgtcttggtcaccgcgaa	4	11	12	14	5	4	0	2	0	2	0	4	1	4	0	3	1	3	1	3	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17758153C>T	uc002nhd.2	-	17	2229	c.2229G>A	c.(2227-2229)GCG>GCA	p.A743A		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	655				A -> T (in Ref. 3).	exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						GCTGCGTGTGCGCCGTCTTGG	0.617													9	15					0	0	1	0	0		T	17758153	T	T	17758153	2	4	89	1	0	0	0	0	0	0	0	1	17010	755	27	1		1	UNC13A	19	17758153	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	103748	17758153	41370830	6087	59918											
JAK3	3718	broad.mit.edu	37	chr19	17951088	17951088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtcctgggggctgcggCggagaacataggagccagga	11	4	17	9	2	0	1	0	0	0	1	1	4	1	3	2	6	3	1	2	6	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17951088C>T	uc002nhn.3	-	9	1305	c.1205G>A	c.(1204-1206)CGC>CAC	p.R402H	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Missense_Mutation_p.R402H|JAK3_uc010xpx.1_Missense_Mutation_p.R402H	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	402	SH2; atypical.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						GGGGCTGCGGCGGAGAACATA	0.483		2	Mis		acute megakaryocytic leukemia|								14	25					0	0	1	0	0		T	17951088	T	T	17951088	3	4	89	1	0	0	0	0	1	0	0	0	7955	768	27	1	2233	1	JAK3	19	17951088	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	192935	17951088	41177895	6088	59919											
JAK3	3718	broad.mit.edu	37	chr19	17955206	17955206	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgagggatcaggggcgtCtcttcacttggaggtgccat	6	10	15	10	2	3	1	2	1	1	0	4	3	3	3	1	5	1	1	1	5	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17955206C>A	uc002nhn.3	-	2	121	c.21G>T	c.(19-21)GAG>GAT	p.E7D	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Missense_Mutation_p.E7D|JAK3_uc010xpx.1_Missense_Mutation_p.E7D|JAK3_uc010xpy.1_Missense_Mutation_p.E7D	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	7	Interaction with cytokine/interferon/growth hormone receptors (By similarity).				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						TCAGGGGCGTCTCTTCACTTG	0.652		2	Mis		acute megakaryocytic leukemia|								4	10					0.000602214	0.000612381	1	1	0		A	17955206	A	A	17955206	3	1	89	1	0	0	0	0	1	0	0	0	7955	912	32	5	3445	5	JAK3	19	17955206	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4118	17955206	41173777	6089	59920											
SLC5A5	6528	broad.mit.edu	37	chr19	17983487	17983487	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcaccagcacctacgaggTaccggacagaggcccggggg	9	3	14	15	3	1	1	1	0	0	1	1	3	1	2	5	5	3	2	5	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:17983487T>C	uc002nhr.3	+	1	704	c.357_splice	c.e1+2	p.E119_splice		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide						cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						ACCTACGAGGTACCGGACAGA	0.677													10	18					0	0	1	0	0		C	17983487	C	C	17983487	5	2	89	1	0	0	0	0	0	0	1	0	14693	1652	57	3	361	3	SLC5A5	19	17983487	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	28281	17983487	41145496	6090	59921											
MAST3	23031	broad.mit.edu	37	chr19	18239715	18239715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcacggaggaagccatgcGaaagcgactttgagaccatc	13	6	12	10	3	1	1	1	1	0	1	2	6	1	3	2	2	3	0	2	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:18239715G>A	uc002nhz.3	+	12	1090	c.1090G>A	c.(1090-1092)GAA>AAA	p.E364K		NM_015016	NP_055831	O60307	MAST3_HUMAN	microtubule associated serine/threonine kinase	364							ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			large_intestine(2)|ovary(2)|stomach(1)	5						GAAGCCATGCGAAAGCGACTT	0.592													32	59					0	0	1	0	0		A	18239715	A	A	18239715	3	1	89	1	0	0	0	0	1	0	0	0	9344	1059	37	1	1136	1	MAST3	19	18239715	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	256228	18239715	40889268	6091	59922											
MAST3	23031	broad.mit.edu	37	chr19	18248128	18248128	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccgacacaaagccgagttCgtgccccagctcgaagctga	10	6	10	15	4	0	1	0	1	0	0	3	4	1	1	4	0	4	3	4	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:18248128C>T	uc002nhz.3	+	18	1965	c.1965C>T	c.(1963-1965)TTC>TTT	p.F655F		NM_015016	NP_055831	O60307	MAST3_HUMAN	microtubule associated serine/threonine kinase	655	AGC-kinase C-terminal.						ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			large_intestine(2)|ovary(2)|stomach(1)	5						AAGCCGAGTTCGTGCCCCAGC	0.627													31	66					0	0	1	0	0		T	18248128	T	T	18248128	2	4	89	1	0	0	0	0	0	0	0	1	9344	883	31	1		1	MAST3	19	18248128	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8413	18248128	40880855	6092	59923											
PIK3R2	5296	broad.mit.edu	37	chr19	18277075	18277075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagcaaggaatacctggagCgcttccggcgtgagggcaac	10	5	15	11	3	0	1	0	1	0	0	1	3	1	3	2	4	4	4	2	4	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:18277075C>T	uc002nia.1	+	12	2034	c.1522C>T	c.(1522-1524)CGC>TGC	p.R508C	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	508					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						ATACCTGGAGCGCTTCCGGCG	0.507													22	48					0	0	1	0	0		T	18277075	T	T	18277075	3	4	89	1	0	0	0	0	1	0	0	0	11938	768	27	1	1564	1	PIK3R2	19	18277075	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28947	18277075	40851908	6093	59924											
SFRS14	10147	broad.mit.edu	37	chr19	19120788	19120788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtccaactgggtctggCgggcagtccttggcagcatc	7	8	15	11	1	1	0	0	0	1	0	4	1	3	0	2	5	2	3	2	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:19120788C>T	uc002nkx.2	-	5	2360	c.2214G>A	c.(2212-2214)CCG>CCA	p.P738P	SFRS14_uc002nkz.1_Silent_p.P752P|SFRS14_uc002nla.1_Silent_p.P738P|SFRS14_uc002nlb.2_Silent_p.P738P|SFRS14_uc010xqk.1_Silent_p.P507P	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	738	Pro/Ser-rich.				mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			CTGGGTCTGGCGGGCAGTCCT	0.612													51	123					0	0	1	0	0		T	19120788	T	T	19120788	2	4	89	1	0	0	0	0	0	0	0	1	14195	755	27	1		1	SFRS14	19	19120788	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	843713	19120788	40008195	6094	59925											
NCAN	1463	broad.mit.edu	37	chr19	19360650	19360650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatcaccaccacaaatcccGcaaggagcgcagaaaacaca	17	2	7	15	2	1	1	1	0	0	1	2	2	2	2	3	1	2	3	3	1	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:19360650G>A	uc002nlz.2	+	15	3995	c.3896G>A	c.(3895-3897)CGC>CAC	p.R1299H	NCAN_uc002nma.2_Missense_Mutation_p.A55T	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	1299					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			cacAAATCCCGCAAGGAGCGC	0.413													20	35					0	0	1	0	0		A	19360650	A	A	19360650	3	1	89	1	0	0	0	0	1	0	0	0	10223	1087	38	1	3950	1	NCAN	19	19360650	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	239862	19360650	39768333	6095	59926											
ZNF101	94039	broad.mit.edu	37	chr19	19790703	19790703	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccttcacagacatgaaaGaactcatagtggaggaaaac	16	8	8	9	0	2	3	2	1	0	2	3	5	3	5	1	2	2	0	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:19790703G>T	uc002nni.1	+	4	1015	c.905G>T	c.(904-906)AGA>ATA	p.R302I	ZNF101_uc010ecg.1_Missense_Mutation_p.R182I|ZNF101_uc002nnj.1_Missense_Mutation_p.R182I	NM_033204	NP_149981	Q8IZC7	ZN101_HUMAN	zinc finger protein 101	302	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						AGACATGAAAGAACTCATAGT	0.448													17	34					2.94398e-08	3.12196e-08	1	1	0		T	19790703	T	T	19790703	3	4	89	1	0	0	0	0	1	0	0	0	17739	942	33	5	919	5	ZNF101	19	19790703	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	430053	19790703	39338280	6096	59927											
ZNF506	440515	broad.mit.edu	37	chr19	19905446	19905446	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttctgtctaatatgaattTtcttatgtttattaagggct	9	21	7	4	0	3	1	0	1	3	0	3	1	3	1	0	1	0	3	0	1	6	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:19905446T>G	uc010eci.2	-	4	1398	c.1250A>C	c.(1249-1251)AAA>ACA	p.K417T	ZNF506_uc002nog.2_Intron|ZNF506_uc002noh.3_Missense_Mutation_p.K385T	NM_001099269	NP_001092739	Q5JVG8	ZN506_HUMAN	zinc finger protein 506 isoform 1	417	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding				0						AATATGAATTTTCTTATGTTT	0.338													25	50					0	0	1	0	0		G	19905446	G	G	19905446	3	3	89	1	0	0	0	0	1	0	0	0	17977	1841	64	5	88	5	ZNF506	19	19905446	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	114743	19905446	39223537	6097	59928											
ZNF253	56242	broad.mit.edu	37	chr19	20003051	20003051	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaccttactatacataagaGaattcatacaggagagaaac	19	9	6	7	0	1	2	1	0	0	2	1	5	1	3	1	1	5	0	1	1	8	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:20003051G>T	uc002noj.2	+	4	1087	c.995G>T	c.(994-996)AGA>ATA	p.R332I	ZNF253_uc002nok.2_Missense_Mutation_p.R256I|ZNF253_uc002nol.2_RNA	NM_021047	NP_066385	O75346	ZN253_HUMAN	zinc finger protein 253	332	C2H2-type 6.			Missing (in Ref. 1; AAC26844).	negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATACATAAGAGAATTCATACA	0.388													7	36					0.000157383	0.000160819	1	1	0		T	20003051	T	T	20003051	3	4	89	1	0	0	0	0	1	0	0	0	17822	942	33	5	1009	5	ZNF253	19	20003051	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	97605	20003051	39125932	6098	59929											
ZNF90	7643	broad.mit.edu	37	chr19	20229335	20229335	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcaaagccttcaagctCtcctcaatccttagtacaca	11	11	6	13	0	3	0	2	0	1	0	5	0	4	0	3	1	3	3	3	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:20229335C>A	uc002nor.2	+	4	1111	c.972C>A	c.(970-972)CTC>CTA	p.L324L	ZNF90_uc002nos.1_Intron|ZNF90_uc002not.1_Intron	NM_007138	NP_009069	Q03938	ZNF90_HUMAN	zinc finger protein 90	324	C2H2-type 6.					Golgi apparatus|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CCTTCAAGCTCTCCTCAATCC	0.413													9	21					0.0581538	0.0584033	1	1	0		A	20229335	A	A	20229335	2	1	89	1	0	0	0	0	0	0	0	1	18224	900	32	5		5	ZNF90	19	20229335	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	226284	20229335	38899648	6099	59930											
ZNF486	90649	broad.mit.edu	37	chr19	20308761	20308761	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgaagaatgtggcaaagcGtatactacatcctcaaatct	14	11	8	8	1	2	2	1	1	1	1	3	2	3	2	1	1	3	2	1	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:20308761G>A	uc002nou.2	+	4	1299	c.1242G>A	c.(1240-1242)GCG>GCA	p.A414A		NM_052852	NP_443084	Q96H40	ZN486_HUMAN	zinc finger protein 486	414	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GTGGCAAAGCGTATACTACAT	0.403													18	26					0	0	1	0	0		A	20308761	A	A	20308761	2	1	89	1	0	0	0	0	0	0	0	1	17964	1132	40	1		1	ZNF486	19	20308761	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	79426	20308761	38820222	6100	59931											
ZNF737	100129842	broad.mit.edu	37	chr19	20727843	20727843	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctctccagtatgaattCtcttatgtgtagtaaggtgt	8	18	9	6	0	2	1	0	1	2	0	5	1	3	1	1	1	0	4	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:20727843C>A	uc002npa.2	-	4	1346	c.1166G>T	c.(1165-1167)AGA>ATA	p.R389I		NM_001159293	NP_001152765	C9JHM3	C9JHM3_HUMAN	zinc finger protein 737	389					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						AGTATGAATTCTCTTATGTGT	0.403													29	51					4.31634e-10	4.67161e-10	1	1	0		A	20727843	A	A	20727843	3	1	89	1	0	0	0	0	1	0	0	0	18151	913	32	5	448	5	ZNF737	19	20727843	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	419082	20727843	38401140	6101	59932											
ZNF626	199777	broad.mit.edu	37	chr19	20808104	20808104	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtttccctccagtatgaatTttcttatgtgtagtaagagt	9	17	9	6	0	1	2	0	1	1	1	3	2	3	2	2	1	0	4	2	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:20808104T>C	uc002npb.1	-	4	729	c.579A>G	c.(577-579)AAA>AAG	p.K193K	ZNF626_uc002npc.1_Silent_p.K117K	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	193	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CAGTATGAATTTTCTTATGTG	0.368													15	40					0	0	1	0	0		C	20808104	C	C	20808104	2	2	89	1	0	0	0	0	0	0	0	1	18075	1838	64	3		3	ZNF626	19	20808104	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	80261	20808104	38320879	6102	59933											
ZNF85	7639	broad.mit.edu	37	chr19	21116931	21116931	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagaaatgtgatgttagaGaactacagaaacctggtctt	15	12	9	5	0	1	4	0	1	1	3	1	5	1	4	1	1	3	1	1	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:21116931G>T	uc002npg.3	+	2	232	c.105G>T	c.(103-105)GAG>GAT	p.E35D	ZNF85_uc002npf.2_RNA|ZNF85_uc002nph.1_RNA|ZNF85_uc010ecn.2_Missense_Mutation_p.E3D|ZNF85_uc010eco.2_5'Flank|ZNF85_uc002npi.2_5'Flank	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	35	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						TGATGTTAGAGAACTACAGAA	0.383													59	147					1.64573e-32	2.01945e-32	1	1	0		T	21116931	T	T	21116931	3	4	89	1	0	0	0	0	1	0	0	0	18218	933	33	5	111	5	ZNF85	19	21116931	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	308827	21116931	38012052	6103	59934											
ZNF85	7639	broad.mit.edu	37	chr19	21132056	21132056	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaccagtcctcaaaccttAttaaacataagaaaattcat	18	12	2	9	0	2	1	2	0	0	1	3	1	3	1	3	0	3	0	3	0	8	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:21132056A>G	uc002npg.3	+	4	863	c.736A>G	c.(736-738)ATT>GTT	p.I246V	ZNF85_uc010ecn.2_Missense_Mutation_p.I181V|ZNF85_uc010eco.2_Missense_Mutation_p.I194V|ZNF85_uc002npi.2_Missense_Mutation_p.I187V	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	246	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						CTCAAACCTTATTAAACATAA	0.358													14	37					0	0	1	0	0		G	21132056	G	G	21132056	3	3	89	1	0	0	0	0	1	0	0	0	18218	449	16	3	750	3	ZNF85	19	21132056	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	15125	21132056	37996927	6104	59935											
ZNF100	163227	broad.mit.edu	37	chr19	21910150	21910150	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggttaaaagctttgccacAttctgtacatttgtagggtt	9	15	9	8	1	1	0	0	0	1	0	1	0	1	0	2	2	3	5	2	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:21910150A>G	uc002nqi.2	-	5	1163	c.964T>C	c.(964-966)TGT>CGT	p.C322R	ZNF100_uc002nqh.2_Missense_Mutation_p.C258R	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	322	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCTTTGCCACATTCTGTACAT	0.393													23	62					0	0	1	0	0		G	21910150	G	G	21910150	3	3	89	1	0	0	0	0	1	0	0	0	17738	217	8	3	668	3	ZNF100	19	21910150	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	778094	21910150	37218833	6105	59936											
ZNF43	7594	broad.mit.edu	37	chr19	21992154	21992154	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acattcttcacatgtgtaggGtttctctccagtattaattc	9	17	6	9	0	3	0	1	0	2	0	6	0	4	0	1	1	0	3	1	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:21992154G>T	uc002nqj.2	-	4	815	c.685C>A	c.(685-687)CCC>ACC	p.P229T	ZNF43_uc010ecv.2_Missense_Mutation_p.P223T|ZNF43_uc002nql.2_Missense_Mutation_p.P223T|ZNF43_uc002nqm.2_Missense_Mutation_p.P223T|ZNF43_uc002nqk.2_Missense_Mutation_p.P159T	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	229					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		CATGTGTAGGGTTTCTCTCCA	0.338													15	40					0.000219431	0.000224109	1	1	0		T	21992154	T	T	21992154	3	4	89	1	0	0	0	0	1	0	0	0	17928	1261	44	5	1748	5	ZNF43	19	21992154	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	82004	21992154	37136829	6106	59937											
ZNF208	7757	broad.mit.edu	37	chr19	22155034	22155034	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagcatgagttttcttatgTttactaaagactgacaacca	13	13	6	9	0	1	3	0	2	1	1	1	3	1	3	2	0	3	3	2	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22155034T>C	uc002nqp.2	-	5	2651	c.2502A>G	c.(2500-2502)AAA>AAG	p.K834K	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTTTCTTATGTTTACTAAAGA	0.373													13	37					0	0	1	0	0		C	22155034	C	C	22155034	2	2	89	1	0	0	0	0	0	0	0	1	17791	1722	60	3		3	ZNF208	19	22155034	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	162880	22155034	36973949	6107	59938											
ZNF208	7757	broad.mit.edu	37	chr19	22155446	22155446	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctcatcagtatgaattCtcttatgtttaataaggatt	11	19	6	5	0	3	1	2	1	2	0	5	2	3	2	0	1	0	3	0	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22155446C>A	uc002nqp.2	-	5	2239	c.2090G>T	c.(2089-2091)AGA>ATA	p.R697I	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				AGTATGAATTCTCTTATGTTT	0.353													23	40					7.87624e-14	8.83987e-14	1	1	0		A	22155446	A	A	22155446	3	1	89	1	0	0	0	0	1	0	0	0	17791	913	32	5	1456	5	ZNF208	19	22155446	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	412	22155446	36973537	6108	59939											
ZNF208	7757	broad.mit.edu	37	chr19	22155637	22155637	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgtttagtaaggactgaGaatgtactaaagcttttgcc	12	15	9	5	0	0	1	0	1	0	1	0	3	0	2	1	1	3	4	1	1	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22155637G>T	uc002nqp.2	-	5	2048	c.1899C>A	c.(1897-1899)TTC>TTA	p.F633L	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TAAGGACTGAGAATGTACTAA	0.383													29	76					1.2476e-16	1.43726e-16	1	1	0		T	22155637	T	T	22155637	3	4	89	1	0	0	0	0	1	0	0	0	17791	933	33	5	1647	5	ZNF208	19	22155637	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	191	22155637	36973346	6109	59940											
ZNF208	7757	broad.mit.edu	37	chr19	22155698	22155698	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctctccagtatgaattCtcttatgttccataaggttt	8	19	6	8	0	2	1	0	1	2	0	6	1	4	1	2	1	0	4	2	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22155698C>A	uc002nqp.2	-	5	1987	c.1838G>T	c.(1837-1839)AGA>ATA	p.R613I	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				AGTATGAATTCTCTTATGTTC	0.368													20	51					3.08376e-08	3.26638e-08	1	1	0		A	22155698	A	A	22155698	3	1	89	1	0	0	0	0	1	0	0	0	17791	913	32	5	1708	5	ZNF208	19	22155698	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	61	22155698	36973285	6110	59941											
ZNF208	7757	broad.mit.edu	37	chr19	22156833	22156833	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagggcttctctccagcatGaattgccttatgtgtaataa	10	14	9	8	0	1	1	0	1	1	0	3	1	2	1	2	1	2	4	2	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22156833G>T	uc002nqp.2	-	4	1152	c.1003C>A	c.(1003-1005)CAT>AAT	p.H335N	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TCTCCAGCATGAATTGCCTTA	0.393													21	46					5.26018e-13	5.86357e-13	1	1	0		T	22156833	T	T	22156833	3	4	89	1	0	0	0	0	1	0	0	0	17791	1290	45	5	2843	5	ZNF208	19	22156833	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1135	22156833	36972150	6111	59942											
ZNF257	113835	broad.mit.edu	37	chr19	22270960	22270960	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataatggacttaaccaatgTctgataactacccagagcaa	16	10	6	9	0	1	2	0	1	1	1	1	3	1	3	2	1	4	1	2	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22270960T>C	uc010ecx.2	+	4	577	c.408T>C	c.(406-408)TGT>TGC	p.C136C	ZNF257_uc010ecy.2_Silent_p.C104C	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	136					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTAACCAATGTCTGATAACTA	0.313													21	45					0	0	1	0	0		C	22270960	C	C	22270960	2	2	89	1	0	0	0	0	0	0	0	1	17825	1673	58	3		3	ZNF257	19	22270960	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	114127	22270960	36858023	6112	59943											
ZNF257	113835	broad.mit.edu	37	chr19	22271240	22271240	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactggagagaaaccctacAaatgtgaagagtgtggaaaa	18	7	11	5	0	0	3	0	1	0	2	0	6	0	5	1	2	3	0	1	2	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22271240A>C	uc010ecx.2	+	4	857	c.688A>C	c.(688-690)AAA>CAA	p.K230Q	ZNF257_uc010ecy.2_Missense_Mutation_p.K198Q	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	230	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				GAAACCCTACAAATGTGAAGA	0.408													10	41					0	0	1	0	0		C	22271240	C	C	22271240	3	2	89	1	0	0	0	0	1	0	0	0	17825	131	5	5	702	5	ZNF257	19	22271240	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	280	22271240	36857743	6113	59944											
ZNF257	113835	broad.mit.edu	37	chr19	22271522	22271522	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgaagagtgtggcaaaGcctttaaccagtcctcagcc	12	9	10	10	0	1	2	1	1	0	1	2	2	2	2	4	1	3	1	4	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22271522G>T	uc010ecx.2	+	4	1139	c.970G>T	c.(970-972)GCC>TCC	p.A324S	ZNF257_uc010ecy.2_Missense_Mutation_p.A292S	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	324	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				GTGTGGCAAAGCCTTTAACCA	0.433													9	70					1.11149e-13	1.24424e-13	1	1	0		T	22271522	T	T	22271522	3	4	89	1	0	0	0	0	1	0	0	0	17825	971	34	5	984	5	ZNF257	19	22271522	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	282	22271522	36857461	6114	59945											
ZNF676	163223	broad.mit.edu	37	chr19	22363281	22363281	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctctccagtatgaattCtcttatgttccatgagcttt	7	19	6	9	0	2	2	0	2	2	0	6	2	4	2	2	0	1	4	2	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22363281C>A	uc002nqs.1	-	3	1556	c.1238G>T	c.(1237-1239)AGA>ATA	p.R413I		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	413	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				AGTATGAATTCTCTTATGTTC	0.428													32	82					6.00712e-18	7.00105e-18	1	1	0		A	22363281	A	A	22363281	3	1	89	1	0	0	0	0	1	0	0	0	18108	913	32	5	532	5	ZNF676	19	22363281	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	91759	22363281	36765702	6115	59946											
ZNF676	163223	broad.mit.edu	37	chr19	22364161	22364161	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaacatttatgaaagacgtTtgcatatttgccacattgaa	14	14	7	6	1	0	4	0	3	0	1	0	4	0	4	1	0	3	2	1	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22364161T>G	uc002nqs.1	-	3	676	c.358A>C	c.(358-360)AAC>CAC	p.N120H		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	120					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				TGAAAGACGTTTGCATATTTG	0.333													46	77					0	0	1	0	0		G	22364161	G	G	22364161	3	3	89	1	0	0	0	0	1	0	0	0	18108	1841	64	5	1412	5	ZNF676	19	22364161	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	880	22364161	36764822	6116	59947											
ZNF98	148198	broad.mit.edu	37	chr19	22575671	22575671	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcttttacagtattttctTaactgtaaattttcacgtcc	10	19	4	8	1	2	0	1	0	1	0	3	0	3	0	1	0	3	3	1	0	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22575671T>G	uc002nqt.2	-	4	488	c.366A>C	c.(364-366)TTA>TTC	p.L122F		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	122					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				AGTATTTTCTTAACTGTAAAT	0.333													6	19					0	0	1	0	0		G	22575671	G	G	22575671	3	3	89	1	0	0	0	0	1	0	0	0	18228	1751	61	5	1356	5	ZNF98	19	22575671	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	211510	22575671	36553312	6117	59948											
ZNF98	148198	broad.mit.edu	37	chr19	22605014	22605014	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccatttctaggcttccaaGgggtcctggcatcttagctg	7	12	10	12	0	2	0	0	0	2	0	4	0	4	0	3	4	1	3	3	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22605014G>T	uc002nqt.2	-	1	135	c.13C>A	c.(13-15)CTT>ATT	p.L5I		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	5					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				AGGCTTCCAAGGGGTCCTGGC	0.602													55	108					3.76628e-20	4.44189e-20	1	1	0		T	22605014	T	T	22605014	3	4	89	1	0	0	0	0	1	0	0	0	18228	1000	35	5	1721	5	ZNF98	19	22605014	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	29343	22605014	36523969	6118	59949											
ZNF492	57615	broad.mit.edu	37	chr19	22836210	22836210	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataggaatgtgatgttagaGaactacagaaacctggtctt	14	12	10	5	0	1	3	0	1	1	2	1	5	1	4	1	2	3	1	1	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22836210G>T	uc002nqw.3	+	2	253	c.9G>T	c.(7-9)GAG>GAT	p.E3D		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	3	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				TGATGTTAGAGAACTACAGAA	0.383													50	123					1.83081e-24	2.19912e-24	1	1	0		T	22836210	T	T	22836210	3	4	89	1	0	0	0	0	1	0	0	0	17968	933	33	5	11	5	ZNF492	19	22836210	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	231196	22836210	36292773	6119	59950											
ZNF99	7652	broad.mit.edu	37	chr19	22939805	22939805	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgtttcctaagggctgaGaaattgctaaaagctttgcc	11	14	9	7	0	0	1	0	1	0	1	1	2	1	1	2	1	3	4	2	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22939805G>T	uc010xrh.1	-	6	2526	c.2526C>A	c.(2524-2526)TTC>TTA	p.F842L		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				TAAGGGCTGAGAAATTGCTAA	0.348													28	47					6.32553e-13	7.03772e-13	1	1	0		T	22939805	T	T	22939805	3	4	89	1	0	0	0	0	1	0	0	0	18229	933	33	5	594	5	ZNF99	19	22939805	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	103595	22939805	36189178	6120	59951											
ZNF99	7652	broad.mit.edu	37	chr19	22941589	22941589	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaattgctaaaagctttgccGcattcttcatatttgtaggg	11	15	8	7	1	2	0	1	0	1	0	2	0	2	0	1	1	3	4	1	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22941589G>A	uc010xrh.1	-	5	849	c.849C>T	c.(847-849)TGC>TGT	p.C283C		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				AAGCTTTGCCGCATTCTTCAT	0.363													32	63					0	0	1	0	0		A	22941589	A	A	22941589	2	1	89	1	0	0	0	0	0	0	0	1	18229	1079	38	1		1	ZNF99	19	22941589	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1784	22941589	36187394	6121	59952											
ZNF99	7652	broad.mit.edu	37	chr19	22942430	22942430	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatattatttcttggaaaGaatcttttatgctctgatct	11	19	5	6	0	5	2	1	1	4	1	5	3	5	3	0	1	1	1	0	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:22942430G>T	uc010xrh.1	-	4	344	c.344C>A	c.(343-345)TCT>TAT	p.S115Y		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				TTCTTGGAAAGAATCTTTTAT	0.318													10	24					2.17888e-05	2.24492e-05	1	1	0		T	22942430	T	T	22942430	3	4	89	1	0	0	0	0	1	0	0	0	18229	942	33	5	2784	5	ZNF99	19	22942430	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	841	22942430	36186553	6122	59953											
ZNF91	7644	broad.mit.edu	37	chr19	23543666	23543666	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctctccagcatgtattatTttatgtttagtaagggttga	9	19	8	5	0	1	1	0	1	1	0	3	1	2	1	1	1	1	5	1	1	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:23543666T>G	uc002nre.2	-	4	2228	c.2115A>C	c.(2113-2115)AAA>AAC	p.K705N	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.K673N	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	705	C2H2-type 20.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				CATGTATTATTTTATGTTTAG	0.328													23	53					0	0	1	0	0		G	23543666	G	G	23543666	3	3	89	1	0	0	0	0	1	0	0	0	18225	1838	64	5	1464	5	ZNF91	19	23543666	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	601236	23543666	35585317	6123	59954											
ZNF91	7644	broad.mit.edu	37	chr19	23544521	23544521	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaacttatgtatagtaagAtttgaagatcgattaaaagc	18	13	7	3	1	0	3	0	1	0	2	1	4	0	3	0	0	2	2	0	0	9	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:23544521A>T	uc002nre.2	-	4	1373	c.1260T>A	c.(1258-1260)AAT>AAA	p.N420K	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.N388K	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	420	C2H2-type 10.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				GTATAGTAAGATTTGAAGATC	0.338													14	29					0	0	1	0	0		T	23544521	T	T	23544521	3	4	89	1	0	0	0	0	1	0	0	0	18225	330	12	5	2319	5	ZNF91	19	23544521	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	855	23544521	35584462	6124	59955											
ZNF91	7644	broad.mit.edu	37	chr19	23545151	23545151	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcacattctttacatttAcaggacttctctgtaatata	11	19	3	8	0	3	0	1	0	2	0	4	1	3	1	0	1	2	1	0	1	5	11			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:23545151A>G	uc002nre.2	-	4	743	c.630T>C	c.(628-630)TGT>TGC	p.C210C	ZNF91_uc010xrj.1_Silent_p.C178C	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	210	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				CTTTACATTTACAGGACTTCT	0.328													26	49					0	0	1	0	0		G	23545151	G	G	23545151	2	3	89	1	0	0	0	0	0	0	0	1	18225	389	14	3		3	ZNF91	19	23545151	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	630	23545151	35583832	6125	59956											
ZNF91	7644	broad.mit.edu	37	chr19	23545287	23545287	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctgtttgaatttaaaaatTtatagaagactttcaaatat	16	17	5	3	0	2	3	1	1	1	2	2	3	2	3	0	0	0	1	0	0	9	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:23545287T>G	uc002nre.2	-	4	607	c.494A>C	c.(493-495)AAA>ACA	p.K165T	ZNF91_uc010xrj.1_Missense_Mutation_p.K133T	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	165	C2H2-type 1; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				ATTTAAAAATTTATAGAAGAC	0.323													28	63					0	0	1	0	0		G	23545287	G	G	23545287	3	3	89	1	0	0	0	0	1	0	0	0	18225	1841	64	5	3085	5	ZNF91	19	23545287	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	136	23545287	35583696	6126	59957											
ZNF675	171392	broad.mit.edu	37	chr19	23836488	23836488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttctctccagtgtgaattCtcttatgtgtagtaagggct	7	17	10	7	0	2	1	0	1	2	0	5	1	3	1	1	1	0	4	1	1	4	5	rs139009438		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:23836488C>T	uc002nri.2	-	4	1429	c.1247G>A	c.(1246-1248)AGA>AAA	p.R416K		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	416	C2H2-type 10.				bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				AGTGTGAATTCTCTTATGTGT	0.378													18	41					0	0	1	0	0		T	23836488	T	T	23836488	3	4	89	1	0	0	0	0	1	0	0	0	18107	913	32	4	463	4	ZNF675	19	23836488	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	291201	23836488	35292495	6127	59958											
ZNF681	148213	broad.mit.edu	37	chr19	23927763	23927763	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagtcttcacatttgtagaAatttactctagtacaaatta	15	15	4	7	0	3	1	1	0	2	1	3	1	3	1	0	0	2	2	0	0	7	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:23927763A>C	uc002nrk.3	-	4	731	c.589T>G	c.(589-591)TTC>GTC	p.F197V	ZNF681_uc002nrl.3_Missense_Mutation_p.F128V|ZNF681_uc002nrj.3_Missense_Mutation_p.F128V	NM_138286	NP_612143	Q96N22	ZN681_HUMAN	zinc finger protein 681	197					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				CATTTGTAGAAATTTACTCTA	0.279													7	13					0	0	1	0	0		C	23927763	C	C	23927763	3	2	89	1	0	0	0	0	1	0	0	0	18113	14	1	5	1352	5	ZNF681	19	23927763	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	91275	23927763	35201220	6128	59959											
ZNF681	148213	broad.mit.edu	37	chr19	23927902	23927902	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatttgaaaatttatgaaaGattttcatatatttatcaca	18	17	3	3	0	2	3	2	2	0	1	2	3	2	3	0	0	0	0	0	0	8	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:23927902G>T	uc002nrk.3	-	4	592	c.450C>A	c.(448-450)ATC>ATA	p.I150I	ZNF681_uc002nrl.3_Silent_p.I81I|ZNF681_uc002nrj.3_Silent_p.I81I	NM_138286	NP_612143	Q96N22	ZN681_HUMAN	zinc finger protein 681	150	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				ATTTATGAAAGATTTTCATAT	0.284													7	18					0.00198382	0.00200883	1	1	0		T	23927902	T	T	23927902	2	4	89	1	0	0	0	0	0	0	0	1	18113	932	33	5		5	ZNF681	19	23927902	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	139	23927902	35201081	6129	59960											
ZNF507	22847	broad.mit.edu	37	chr19	32873490	32873490	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacaaggctattaacgacgcGatttcacaaagtggcaggta	15	8	10	8	3	1	0	1	0	0	0	1	2	1	0	0	3	2	3	0	3	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:32873490G>A	uc002nte.2	+	6	2750	c.2478G>A	c.(2476-2478)GCG>GCA	p.A826A	ZNF507_uc002ntd.2_Silent_p.A826A	NM_001136156	NP_001129628	Q8TCN5	ZN507_HUMAN	zinc finger protein 507	826					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|kidney(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(110;0.162)					TTAACGACGCGATTTCACAAA	0.398													58	133					0	0	1	0	0		A	32873490	A	A	32873490	2	1	89	1	0	0	0	0	0	0	0	1	17978	1045	37	1		1	ZNF507	19	32873490	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8945588	32873490	26255493	6130	59961											
RGS9BP	388531	broad.mit.edu	37	chr19	33167820	33167820	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccctggccgccatccttttCggcgccgtgctgctggcggc	1	9	14	17	5	0	0	0	0	0	0	2	0	1	0	5	4	2	2	5	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:33167820C>T	uc002ntp.1	+	1	1508	c.651C>T	c.(649-651)TTC>TTT	p.F217F	ANKRD27_uc002ntn.1_5'Flank|ANKRD27_uc002nto.1_5'Flank	NM_207391	NP_997274	Q6ZS82	R9BP_HUMAN	RGS9 anchor protein	217	Helical; Anchor for type IV membrane protein; (Potential).				negative regulation of signal transduction	integral to membrane				central_nervous_system(1)	1	Esophageal squamous(110;0.137)					CCATCCTTTTCGGCGCCGTGC	0.726													4	11					0	0	1	0	0		T	33167820	T	T	33167820	2	4	89	1	0	0	0	0	0	0	0	1	13339	883	31	1		1	RGS9BP	19	33167820	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	294330	33167820	25961163	6131	59962											
GPATCH1	55094	broad.mit.edu	37	chr19	33617545	33617545	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaagcaaaagaataaaaaaCcagagaaaagtagtagctcc	22	4	8	7	0	0	2	0	0	0	2	1	3	1	2	2	0	3	5	2	0	11	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:33617545C>A	uc002nug.1	+	19	2985	c.2671C>A	c.(2671-2673)CCA>ACA	p.P891T	GPATCH1_uc002nuh.1_Missense_Mutation_p.P268T	NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	891						catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					GAATAAAAAACCAGAGAAAAG	0.468											OREG0025410	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	41					1.55795e-14	1.75964e-14	1	1	0		A	33617545	A	A	33617545	3	1	89	1	0	0	0	0	1	0	0	0	6605	507	18	5	2745	5	GPATCH1	19	33617545	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	449725	33617545	25511438	6132	59963											
LSR	51599	broad.mit.edu	37	chr19	35757270	35757270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcctcacagtgtatgccGccggcaaagcagccacctca	9	7	10	15	2	2	0	2	0	0	0	3	0	3	0	5	1	3	3	5	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:35757270G>A	uc002nyl.2	+	6	1154	c.931G>A	c.(931-933)GCC>ACC	p.A311T	LSR_uc002nym.2_Missense_Mutation_p.A292T|LSR_uc002nyn.2_Missense_Mutation_p.A243T|LSR_uc002nyo.2_Missense_Mutation_p.A292T|LSR_uc010xsr.1_Missense_Mutation_p.A203T|LSR_uc002nyp.2_Missense_Mutation_p.A274T|USF2_uc010xss.1_5'Flank|USF2_uc002nyq.1_5'Flank|USF2_uc002nyr.1_5'Flank|USF2_uc002nys.1_5'Flank|USF2_uc002nyt.1_5'Flank	NM_205834	NP_991403	Q86X29	LSR_HUMAN	lipolysis stimulated lipoprotein receptor	311	Cytoplasmic (Potential).				embryo development|liver development	chylomicron|integral to membrane|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle	receptor activity				0	all_lung(56;3.91e-09)|Lung NSC(56;5.64e-09)|Esophageal squamous(110;0.162)		Epithelial(14;1.33e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.29e-18)|all cancers(14;7.11e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			AGTGTATGCCGCCGGCAAAGC	0.622													94	36					0	0	1	0	0		A	35757270	A	A	35757270	3	1	89	1	0	0	0	0	1	0	0	0	9082	1087	38	1	953	1	LSR	19	35757270	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2139725	35757270	23371713	6133	59964											
CD22	933	broad.mit.edu	37	chr19	35832350	35832350	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaagcagccaccccaaaGaagtccagttcttctgggag	11	8	9	13	0	3	1	1	0	3	1	5	2	4	2	4	1	2	2	4	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:35832350G>T	uc010edt.2	+	8	1689	c.1612G>T	c.(1612-1614)GAA>TAA	p.E538*	CD22_uc010xst.1_Nonsense_Mutation_p.E366*|CD22_uc010edu.2_Nonsense_Mutation_p.E450*|CD22_uc010edv.2_Nonsense_Mutation_p.E538*|CD22_uc002nzb.3_Nonsense_Mutation_p.E361*|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	538	Extracellular (Potential).|Ig-like C2-type 5.				cell adhesion		protein binding|sugar binding			ovary(5)|lung(3)|breast(1)	9	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.83e-19)|OV - Ovarian serous cystadenocarcinoma(14;3.19e-18)|all cancers(14;3.41e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)		OspA lipoprotein(DB00045)	CCACCCCAAAGAAGTCCAGTT	0.527													57	24					1.93748e-29	2.36329e-29	1	1	0		T	35832350	T	T	35832350	4	4	89	1	0	0	0	0	0	1	0	0	2988	943	33	5	1638	5	CD22	19	35832350	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	75080	35832350	23296633	6134	59965											
UPK1A	11045	broad.mit.edu	37	chr19	36168723	36168723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctgcccagggctgcttcGaacacatcggccacgccatc	7	6	9	19	3	0	0	0	0	0	0	3	1	0	0	5	2	3	2	5	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:36168723G>A	uc002oaw.2	+	6	658	c.658G>A	c.(658-660)GAA>AAA	p.E220K	UPK1A_uc010eeh.2_Silent_p.S252S	NM_007000	NP_008931	O00322	UPK1A_HUMAN	uroplakin 1A	220	Extracellular (Potential).				epithelial cell differentiation|protein oligomerization	endoplasmic reticulum|integral to membrane	monosaccharide binding|protein homodimerization activity				0	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGGCTGCTTCGAACACATCGG	0.537													6	29					0	0	1	0	0		A	36168723	A	A	36168723	3	1	89	1	0	0	0	0	1	0	0	0	17033	1059	37	1	680	1	UPK1A	19	36168723	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	336373	36168723	22960260	6135	59966											
ZBTB32	27033	broad.mit.edu	37	chr19	36207046	36207046	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccccacaggcgcacttgcaAcctgtgcgggtcatgaggac	8	7	12	14	2	1	1	1	1	0	0	2	2	2	2	3	3	3	2	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:36207046A>G	uc002oay.2	+	5	1246	c.1036A>G	c.(1036-1038)ACC>GCC	p.T346A	ZBTB32_uc002oaz.2_RNA|MLL4_uc010eei.2_5'Flank	NM_014383	NP_055198	Q9Y2Y4	ZBT32_HUMAN	zinc finger and BTB domain containing 32	346					DNA repair|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleoplasm	DNA binding|protein binding|transcription corepressor activity|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CGCACTTGCAACCTGTGCGGG	0.642													13	18					0	0	1	0	0		G	36207046	G	G	36207046	3	3	89	1	0	0	0	0	1	0	0	0	17560	43	2	3	1050	3	ZBTB32	19	36207046	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	38323	36207046	22921937	6136	59967											
PSENEN	55851	broad.mit.edu	37	chr19	36236861	36236861	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgagtgtccaatgaggaGaaattgaacctgtgccggaa	13	7	14	7	2	0	3	0	2	0	1	1	7	1	4	3	2	3	0	3	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:36236861G>T	uc002obi.1	+	2	234	c.30G>T	c.(28-30)GAG>GAT	p.E10D	TMEM149_uc010eej.2_5'Flank|U2AF1L4_uc002obh.1_5'Flank|U2AF1L4_uc002obe.2_5'Flank|U2AF1L4_uc002obf.2_5'Flank|U2AF1L4_uc002obg.2_5'Flank|PSENEN_uc002obj.1_Missense_Mutation_p.E10D|PSENEN_uc002obk.1_RNA|LIN37_uc002obm.2_5'Flank	NM_172341	NP_758844	Q9NZ42	PEN2_HUMAN	presenilin enhancer 2	10	Lumenal (Potential).			E->S: Induces a N-linked glycosylation on N-8.	amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to plasma membrane	aspartic-type endopeptidase activity|protein binding			ovary(2)	2	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCAATGAGGAGAAATTGAACC	0.448													67	25					1.26778e-28	1.54387e-28	1	1	0		T	36236861	T	T	36236861	3	4	89	1	0	0	0	0	1	0	0	0	12674	933	33	5	32	5	PSENEN	19	36236861	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	29815	36236861	22892122	6137	59968											
LIN37	55957	broad.mit.edu	37	chr19	36243362	36243362	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggatgaggaagctgggaaAacaccctcagacacccacaa	15	4	10	12	0	1	2	1	1	0	1	1	5	1	5	2	3	2	1	2	3	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:36243362A>C	uc002obm.2	+	3	252	c.138A>C	c.(136-138)AAA>AAC	p.K46N	PSENEN_uc002obk.1_RNA|uc002obl.2_RNA	NM_019104	NP_061977	Q96GY3	LIN37_HUMAN	lin-37 homolog	46							protein binding				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AAGCTGGGAAAACACCCTCAG	0.532													23	5					0	0	1	0	0		C	36243362	C	C	36243362	3	2	89	1	0	0	0	0	1	0	0	0	8824	11	1	5	148	5	LIN37	19	36243362	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	6501	36243362	22885621	6138	59969											
LIN37	55957	broad.mit.edu	37	chr19	36245009	36245009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggagatgcctgcagatcccGcatcccatctccactgcagc	8	7	9	17	2	1	2	0	0	1	2	4	3	3	2	4	1	4	3	4	1	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:36245009G>A	uc002obm.2	+	8	650	c.536G>A	c.(535-537)CGC>CAC	p.R179H	uc002obl.2_5'Flank	NM_019104	NP_061977	Q96GY3	LIN37_HUMAN	lin-37 homolog	179	Pro-rich.						protein binding				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGCAGATCCCGCATCCCATCT	0.632													48	22					0	0	1	0	0		A	36245009	A	A	36245009	3	1	89	1	0	0	0	0	1	0	0	0	8824	1087	38	1	562	1	LIN37	19	36245009	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1647	36245009	22883974	6139	59970											
PRODH2	58510	broad.mit.edu	37	chr19	36304052	36304052	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctacttaatcacttttgtgGcaattgcttcctcttaaaat	10	17	5	9	0	2	0	1	0	1	0	3	0	3	0	1	1	2	3	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:36304052G>A	uc002obx.1	-	1	150	c.132C>T	c.(130-132)TGC>TGT	p.C44C		NM_021232	NP_067055	Q9UF12	PROD2_HUMAN	kidney and liver proline oxidase 1	44					glutamate biosynthetic process|proline catabolic process		proline dehydrogenase activity			ovary(2)	2	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			cacttttgtggcaattgcttc	0.055													66	34					0	0	1	0	0		A	36304052	A	A	36304052	2	1	89	1	0	0	0	0	0	0	0	1	12571	1195	42	2		2	PRODH2	19	36304052	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	59043	36304052	22824931	6140	59971											
NPHS1	4868	broad.mit.edu	37	chr19	36341894	36341894	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgatgtcaggtgctggcttCgcgtccccagacacacagtt	7	10	12	12	2	1	2	1	1	0	1	3	2	2	2	2	2	1	3	2	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:36341894C>T	uc002oby.2	-	4	495	c.495G>A	c.(493-495)GCG>GCA	p.A165A		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	165	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GTGCTGGCTTCGCGTCCCCAG	0.607													16	35					0	0	1	0	0		T	36341894	T	T	36341894	2	4	89	1	0	0	0	0	0	0	0	1	10601	871	31	1		1	NPHS1	19	36341894	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	37842	36341894	22787089	6141	59972											
ZFP82	284406	broad.mit.edu	37	chr19	36896524	36896524	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacaactttccaaggctCttttccttgctccaatgagg	8	13	6	14	0	2	1	1	1	1	0	5	1	5	1	4	2	2	2	4	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:36896524C>A	uc002ody.1	-	4	422	c.187G>T	c.(187-189)GAG>TAG	p.E63*		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	63	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						TTCCAAGGCTCTTTTCCTTGC	0.418													16	42					3.99206e-14	4.49031e-14	1	1	0		A	36896524	A	A	36896524	4	1	89	1	0	0	0	0	0	1	0	0	17678	922	32	5	1419	5	ZFP82	19	36896524	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	554630	36896524	22232459	6142	59973											
ZNF461	92283	broad.mit.edu	37	chr19	37130848	37130848	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attgatctctcaggactatgGcttttaaattcttccatgtt	9	18	6	8	0	3	1	1	1	2	0	5	2	4	2	1	2	0	2	1	2	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37130848G>A	uc002oem.2	-	6	627	c.399C>T	c.(397-399)AGC>AGT	p.S133S	ZNF461_uc002oen.2_Silent_p.S102S|ZNF461_uc010xtj.1_Silent_p.S110S	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	133					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			CAGGACTATGGCTTTTAAATT	0.408													72	157					0	0	1	0	0		A	37130848	A	A	37130848	2	1	89	1	0	0	0	0	0	0	0	1	17950	1194	42	2		2	ZNF461	19	37130848	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	234324	37130848	21998135	6143	59974											
ZNF790	388536	broad.mit.edu	37	chr19	37309846	37309846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtatgaattttctgatgtCgattaaactctgagccatga	12	14	8	7	1	2	4	0	4	2	0	3	5	2	4	1	0	2	1	1	0	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37309846C>T	uc002oew.2	-	5	1519	c.1400G>A	c.(1399-1401)CGA>CAA	p.R467Q	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	467	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TTTCTGATGTCGATTAAACTC	0.368													72	35					0	0	1	0	0		T	37309846	T	T	37309846	3	4	89	1	0	0	0	0	1	0	0	0	18187	884	31	1	514	1	ZNF790	19	37309846	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	178998	37309846	21819137	6144	59975											
ZNF790	388536	broad.mit.edu	37	chr19	37310341	37310341	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttcaccagtatgaattCtctgatgtcgagtaagatct	10	16	8	7	1	3	3	1	2	2	1	5	4	3	3	1	0	0	3	1	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37310341C>A	uc002oew.2	-	5	1024	c.905G>T	c.(904-906)AGA>ATA	p.R302I	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	302	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AGTATGAATTCTCTGATGTCG	0.383													52	22					2.27781e-18	2.66151e-18	1	1	0		A	37310341	A	A	37310341	3	1	89	1	0	0	0	0	1	0	0	0	18187	913	32	5	1009	5	ZNF790	19	37310341	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	495	37310341	21818642	6145	59976											
ZNF345	25850	broad.mit.edu	37	chr19	37368393	37368393	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcaaaccttactcaacatCggcggattcatactggtgag	11	11	9	10	2	3	1	3	1	0	0	4	2	3	2	1	3	4	1	1	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37368393C>T	uc002oex.2	+	3	1039	c.661C>T	c.(661-663)CGG>TGG	p.R221W	ZNF345_uc002oey.3_Missense_Mutation_p.R221W|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	221	C2H2-type 6.				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TACTCAACATCGGCGGATTCA	0.448													26	76					0	0	1	0	0		T	37368393	T	T	37368393	3	4	89	1	0	0	0	0	1	0	0	0	17884	875	31	1	663	1	ZNF345	19	37368393	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	58052	37368393	21760590	6146	59977											
ZNF345	25850	broad.mit.edu	37	chr19	37369178	37369178	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cataatggtaagaaactctgCgaattggaaactataaattg	17	11	8	5	1	1	1	0	0	1	1	1	3	1	2	0	2	3	1	0	2	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37369178C>T	uc002oex.2	+	3	1824	c.1446C>T	c.(1444-1446)TGC>TGT	p.C482C	ZNF345_uc002oey.3_Silent_p.C482C|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	482					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGAAACTCTGCGAATTGGAAA	0.343													37	85					0	0	1	0	0		T	37369178	T	T	37369178	2	4	89	1	0	0	0	0	0	0	0	1	17884	776	27	1		1	ZNF345	19	37369178	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	785	37369178	21759805	6147	59978											
ZNF829	374899	broad.mit.edu	37	chr19	37382420	37382420	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtatgaattccctcatggcGaatgaggtcagagcgactac	12	9	11	9	2	2	3	2	2	0	1	3	5	3	3	1	2	2	1	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37382420G>A	uc002ofa.1	-	6	1635	c.1273C>T	c.(1273-1275)CGC>TGC	p.R425C	ZNF345_uc002oez.2_Intron	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	425	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CCCTCATGGCGAATGAGGTCA	0.378													64	18					0	0	1	0	0		A	37382420	A	A	37382420	3	1	89	1	0	0	0	0	1	0	0	0	18207	1058	37	1	29	1	ZNF829	19	37382420	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13242	37382420	21746563	6148	59979											
ZNF829	374899	broad.mit.edu	37	chr19	37382971	37382971	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttccacattccttacatTcatagggtttctcaccagtg	8	16	5	12	0	2	0	2	0	1	0	5	0	4	0	3	1	1	1	3	1	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37382971T>G	uc002ofa.1	-	6	1084	c.722A>C	c.(721-723)GAA>GCA	p.E241A	ZNF345_uc002oez.2_Intron	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	241	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTCCTTACATTCATAGGGTTT	0.368													31	54					0	0	1	0	0		G	37382971	G	G	37382971	3	3	89	1	0	0	0	0	1	0	0	0	18207	1783	62	5	580	5	ZNF829	19	37382971	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	551	37382971	21746012	6149	59980											
ZNF829	374899	broad.mit.edu	37	chr19	37399357	37399357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacatccctgaacatcaccGgcccctgaaacaacaaacat	17	5	4	15	1	1	2	1	2	0	0	2	2	2	2	4	1	5	0	4	1	5	0	rs76856236	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37399357G>A	uc002ofa.1	-	4	463	c.101C>T	c.(100-102)CCG>CTG	p.P34L	ZNF345_uc002oez.2_Intron|ZNF829_uc002ofb.2_Missense_Mutation_p.P34L	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	34					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAACATCACCGGCCCCTGAAA	0.428													82	41					0	0	1	0	0		A	37399357	A	A	37399357	3	1	89	1	0	0	0	0	1	0	0	0	18207	1116	39	1	1209	1	ZNF829	19	37399357	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16386	37399357	21729626	6150	59981											
ZNF568	374900	broad.mit.edu	37	chr19	37440603	37440603	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgactgtgactcacttgataAgggtttggaacataatttag	12	14	10	5	0	1	3	1	3	0	0	1	4	1	4	0	2	1	1	0	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37440603A>C	uc002ofc.2	+	7	1063	c.548A>C	c.(547-549)AAG>ACG	p.K183T	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Missense_Mutation_p.K107T|ZNF568_uc010efe.2_Missense_Mutation_p.K107T|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	183					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCACTTGATAAGGGTTTGGAA	0.348													101	42					0	0	1	0	0		C	37440603	C	C	37440603	3	2	89	1	0	0	0	0	1	0	0	0	18024	72	3	5	566	5	ZNF568	19	37440603	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	41246	37440603	21688380	6151	59982											
ZNF568	374900	broad.mit.edu	37	chr19	37441368	37441368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccctaaccgtacatatgcGaaatcatacagctgagaaac	16	8	6	11	2	1	1	1	1	0	1	2	3	2	1	2	0	6	2	2	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37441368G>A	uc002ofc.2	+	7	1828	c.1313G>A	c.(1312-1314)CGA>CAA	p.R438Q	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Missense_Mutation_p.R362Q|ZNF568_uc010efe.2_Missense_Mutation_p.R362Q|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	438	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTACATATGCGAAATCATACA	0.393													42	75					0	0	1	0	0		A	37441368	A	A	37441368	3	1	89	1	0	0	0	0	1	0	0	0	18024	1058	37	1	1331	1	ZNF568	19	37441368	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	765	37441368	21687615	6152	59983											
ZNF568	374900	broad.mit.edu	37	chr19	37441536	37441536	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacctcattcgacaccagaGaattcatacgggtgagaaac	16	7	8	10	2	2	2	2	1	0	2	3	5	2	2	2	1	3	0	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37441536G>T	uc002ofc.2	+	7	1996	c.1481G>T	c.(1480-1482)AGA>ATA	p.R494I	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Missense_Mutation_p.R418I|ZNF568_uc010efe.2_Missense_Mutation_p.R418I|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	494	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CGACACCAGAGAATTCATACG	0.393													72	28					2.51111e-31	3.07626e-31	1	1	0		T	37441536	T	T	37441536	3	4	89	1	0	0	0	0	1	0	0	0	18024	942	33	5	1499	5	ZNF568	19	37441536	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	168	37441536	21687447	6153	59984											
ZNF585B	92285	broad.mit.edu	37	chr19	37676966	37676966	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaacatatataagatttCtctcctgtatgagttttctg	10	18	7	6	0	2	2	0	1	2	1	4	3	3	3	1	1	1	2	1	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37676966C>A	uc002ofq.2	-	5	1727	c.1473G>T	c.(1471-1473)GAG>GAT	p.E491D	uc002ofp.1_5'Flank|ZNF585B_uc002ofr.1_Missense_Mutation_p.E305D	NM_152279	NP_689492	Q52M93	Z585B_HUMAN	zinc finger protein 585B	491					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TATAAGATTTCTCTCCTGTAT	0.413													75	39					5.14759e-42	6.38442e-42	1	1	0		A	37676966	A	A	37676966	3	1	89	1	0	0	0	0	1	0	0	0	18043	912	32	5	840	5	ZNF585B	19	37676966	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	235430	37676966	21452017	6154	59985											
ZNF383	163087	broad.mit.edu	37	chr19	37734483	37734483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaattcacactggtgaaaagCcctataactgtaaggaatgt	15	10	9	7	0	1	1	1	1	0	0	1	3	1	2	1	2	2	1	1	2	7	4	rs149725989		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37734483C>T	uc002oft.1	+	8	1925	c.1345C>T	c.(1345-1347)CCC>TCC	p.P449S	ZNF383_uc002ofs.1_Missense_Mutation_p.P384S|ZNF383_uc002ofu.1_Missense_Mutation_p.P449S	NM_152604	NP_689817	Q8NA42	ZN383_HUMAN	zinc finger protein 383	449					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TGGTGAAAAGCCCTATAACTG	0.363													38	75					0	0	1	0	0		T	37734483	T	T	37734483	3	4	89	1	0	0	0	0	1	0	0	0	17899	739	26	2	1359	2	ZNF383	19	37734483	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	57517	37734483	21394500	6155	59986											
ZNF527	84503	broad.mit.edu	37	chr19	37870123	37870123	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagagatgtcatgttggaGaactacaggaacttggtatg	13	11	12	5	0	1	2	1	0	0	2	1	5	1	3	0	3	4	2	0	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37870123G>T	uc010efk.1	+	3	246	c.135G>T	c.(133-135)GAG>GAT	p.E45D	ZNF527_uc002ogf.3_Missense_Mutation_p.E45D|ZNF527_uc010xtq.1_RNA|ZNF527_uc002oge.2_Missense_Mutation_p.E45D	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	45	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCATGTTGGAGAACTACAGGA	0.438													70	40					3.20846e-33	3.94236e-33	1	1	0		T	37870123	T	T	37870123	3	4	89	1	0	0	0	0	1	0	0	0	17993	933	33	5	141	5	ZNF527	19	37870123	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	135640	37870123	21258860	6156	59987											
ZNF527	84503	broad.mit.edu	37	chr19	37880588	37880588	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcttaatcaacatcaaaGaattcatactggagagaaac	19	10	5	7	0	4	2	3	0	1	2	4	4	4	3	0	1	3	0	0	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37880588G>T	uc010efk.1	+	5	1748	c.1637G>T	c.(1636-1638)AGA>ATA	p.R546I	ZNF527_uc002ogf.3_Missense_Mutation_p.R514I|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	546	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CAACATCAAAGAATTCATACT	0.403													66	37					5.82089e-37	7.19661e-37	1	1	0		T	37880588	T	T	37880588	3	4	89	1	0	0	0	0	1	0	0	0	17993	942	33	5	1651	5	ZNF527	19	37880588	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	10465	37880588	21248395	6157	59988											
ZNF569	148266	broad.mit.edu	37	chr19	37903657	37903657	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttccacatttactacagtCgaagggtttctcacctgtat	9	16	6	10	1	1	0	1	0	1	0	4	1	2	0	2	1	2	2	2	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37903657C>T	uc002ogi.2	-	6	2461	c.1903G>A	c.(1903-1905)GAC>AAC	p.D635N	ZNF569_uc002ogh.2_Missense_Mutation_p.D476N|ZNF569_uc002ogj.2_Missense_Mutation_p.D659N	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	635	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTACTACAGTCGAAGGGTTTC	0.403													56	104					0	0	1	0	0		T	37903657	T	T	37903657	3	4	89	1	0	0	0	0	1	0	0	0	18025	884	31	1	161	1	ZNF569	19	37903657	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	23069	37903657	21225326	6158	59989											
ZNF569	148266	broad.mit.edu	37	chr19	37904545	37904545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catatgaagagcaagggatgCaattcgagggaaggctttac	14	8	13	6	1	0	2	0	1	0	1	1	5	0	4	0	3	3	3	0	3	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37904545C>T	uc002ogi.2	-	6	1573	c.1015G>A	c.(1015-1017)GCA>ACA	p.A339T	ZNF569_uc002ogh.2_Missense_Mutation_p.A180T|ZNF569_uc002ogj.2_Missense_Mutation_p.A363T	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	339	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GCAAGGGATGCAATTCGAGGG	0.393													54	108					0	0	1	0	0		T	37904545	T	T	37904545	3	4	89	1	0	0	0	0	1	0	0	0	18025	710	25	2	1049	2	ZNF569	19	37904545	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	888	37904545	21224438	6159	59990											
ZNF570	148268	broad.mit.edu	37	chr19	37966812	37966812	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accttcagagatgtggctgtAgacttctcccaagaggaatg	11	10	11	9	0	2	3	1	0	1	3	3	5	2	4	2	2	0	2	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37966812A>C	uc002ogk.1	+	3	592	c.63A>C	c.(61-63)GTA>GTC	p.V21V	ZNF570_uc010efl.1_Silent_p.V77V|ZNF570_uc010xtr.1_5'UTR	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	21	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ATGTGGCTGTAGACTTCTCCC	0.318													24	93					0	0	1	0	0		C	37966812	C	C	37966812	2	2	89	1	0	0	0	0	0	0	0	1	18027	407	15	5		5	ZNF570	19	37966812	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	62267	37966812	21162171	6160	59991											
ZNF570	148268	broad.mit.edu	37	chr19	37975024	37975024	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaacaagaatataaatCttggggaagttttcatcaga	17	10	10	4	0	3	3	2	0	1	3	3	6	3	4	0	2	1	1	0	2	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:37975024C>A	uc002ogk.1	+	5	1029	c.500C>A	c.(499-501)TCT>TAT	p.S167Y	ZNF570_uc010efl.1_Missense_Mutation_p.S223Y|ZNF570_uc010xtr.1_5'UTR	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	167					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAATATAAATCTTGGGGAAGT	0.368													78	143					4.00405e-42	4.96687e-42	1	1	0		A	37975024	A	A	37975024	3	1	89	1	0	0	0	0	1	0	0	0	18027	913	32	5	514	5	ZNF570	19	37975024	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8212	37975024	21153959	6161	59992											
ZNF571	51276	broad.mit.edu	37	chr19	38056098	38056098	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctctccggtatgaattCtttgatgttgaataagatta	10	17	8	6	1	2	4	0	3	2	1	4	4	3	4	1	1	0	3	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:38056098C>A	uc002ogt.2	-	4	1333	c.1232G>T	c.(1231-1233)AGA>ATA	p.R411I	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Missense_Mutation_p.R411I	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	411	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GGTATGAATTCTTTGATGTTG	0.373													36	18					8.53417e-09	9.10905e-09	1	1	0		A	38056098	A	A	38056098	3	1	89	1	0	0	0	0	1	0	0	0	18028	913	32	5	601	5	ZNF571	19	38056098	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	81074	38056098	21072885	6162	59993											
ZFP30	22835	broad.mit.edu	37	chr19	38126696	38126696	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcctctaactctaaaggctTtcccacattctttacattca	10	15	3	13	0	4	0	1	0	3	0	6	0	6	0	2	1	2	1	2	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:38126696T>G	uc002ogv.1	-	6	1262	c.746A>C	c.(745-747)AAA>ACA	p.K249T	ZFP30_uc002ogw.1_Missense_Mutation_p.K249T|ZFP30_uc002ogx.1_Missense_Mutation_p.K249T|ZFP30_uc010xtt.1_Missense_Mutation_p.K248T	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog	249	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCTAAAGGCTTTCCCACATTC	0.403													26	62					0	0	1	0	0		G	38126696	G	G	38126696	3	3	89	1	0	0	0	0	1	0	0	0	17669	1841	64	5	817	5	ZFP30	19	38126696	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	70598	38126696	21002287	6163	59994											
ZNF573	126231	broad.mit.edu	37	chr19	38229502	38229502	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctcaccagtatgaattCtctcatgttgaacaaggttt	10	16	7	8	0	3	2	2	2	2	0	5	2	3	2	1	1	1	4	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:38229502C>A	uc002ohe.2	-	4	1911	c.1889G>T	c.(1888-1890)AGA>ATA	p.R630I	ZNF573_uc010efs.2_Missense_Mutation_p.R543I|ZNF573_uc002ohd.2_Missense_Mutation_p.R628I|ZNF573_uc002ohf.2_Missense_Mutation_p.R572I|ZNF573_uc002ohg.2_Missense_Mutation_p.R542I	NM_152360	NP_689573	Q86YE8	ZN573_HUMAN	zinc finger protein 573	610	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)|Lung(45;0.0813)|LUSC - Lung squamous cell carcinoma(53;0.146)			AGTATGAATTCTCTCATGTTG	0.413													65	124					2.93687e-30	3.59034e-30	1	1	0		A	38229502	A	A	38229502	3	1	89	1	0	0	0	0	1	0	0	0	18030	913	32	5	112	5	ZNF573	19	38229502	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	102806	38229502	20899481	6164	59995											
SIPA1L3	23094	broad.mit.edu	37	chr19	38610322	38610322	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtggaaatcgactgcattTtgggaatttccaatgagttt	10	14	12	5	1	0	1	0	1	0	0	2	4	1	3	1	3	1	2	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:38610322T>C	uc002ohk.2	+	9	3177	c.2668T>C	c.(2668-2670)TTG>CTG	p.L890L		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	890					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CGACTGCATTTTGGGAATTTC	0.587													53	84					0	0	1	0	0		C	38610322	C	C	38610322	2	2	89	1	0	0	0	0	0	0	0	1	14356	1838	64	3		3	SIPA1L3	19	38610322	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	380820	38610322	20518661	6165	59996											
FAM98C	147965	broad.mit.edu	37	chr19	38899392	38899392	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctcataaactctcaggTgcttatgggcaacgttccag	12	11	8	10	1	2	0	2	0	2	0	5	0	3	0	1	2	3	3	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:38899392T>C	uc002oin.1	+	8	939	c.920T>C	c.(919-921)GTG>GCG	p.V307A	FAM98C_uc002oio.1_Missense_Mutation_p.V225A|FAM98C_uc010xtz.1_Silent_p.G173G	NM_174905	NP_777565	Q17RN3	FA98C_HUMAN	hypothetical protein LOC147965	307										skin(1)	1	all_cancers(60;3.95e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			AACTCTCAGGTGCTTATGGGC	0.557													70	33					0	0	1	0	0		C	38899392	C	C	38899392	3	2	89	1	0	0	0	0	1	0	0	0	5672	1710	59	3	950	3	FAM98C	19	38899392	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	289070	38899392	20229591	6166	59997											
RYR1	6261	broad.mit.edu	37	chr19	38959681	38959681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtcgttggctgtatgatcGacctcacagagaacaccatt	11	11	9	10	2	1	2	1	1	0	1	3	4	1	2	2	1	1	3	2	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:38959681G>A	uc002oit.2	+	26	3587	c.3457G>A	c.(3457-3459)GAC>AAC	p.D1153N	RYR1_uc002oiu.2_Missense_Mutation_p.D1153N	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1153	6 X approximate repeats.|Cytoplasmic.|B30.2/SPRY 2.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CTGTATGATCGACCTCACAGA	0.582													55	20					0	0	1	0	0		A	38959681	A	A	38959681	3	1	89	1	0	0	0	0	1	0	0	0	13793	1058	37	1	3559	1	RYR1	19	38959681	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	60289	38959681	20169302	6167	59998											
IL29	282618	broad.mit.edu	37	chr19	39789108	39789108	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagacctcaaatatgtggcCgatgggaacctgtgtctgag	10	9	13	9	2	2	2	1	1	1	1	2	5	2	3	3	2	1	0	3	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:39789108C>T	uc002okv.2	+	5	652	c.555C>T	c.(553-555)GCC>GCT	p.A185A		NM_172140	NP_742152	Q8IU54	IL29_HUMAN	interleukin 29 precursor	185					defense response to virus|negative regulation of cell proliferation|negative regulation of interleukin-13 production|negative regulation of interleukin-5 production|negative regulation of memory T cell differentiation|negative regulation of transcription, DNA-dependent|negative regulation of type 2 immune response|positive regulation of immune response|positive regulation of interferon-gamma production|positive regulation of MHC class I biosynthetic process|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of STAT protein	extracellular space|interleukin-28 receptor complex	cytokine activity|interleukin-28 receptor binding				0	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			AATATGTGGCCGATGGGAACC	0.557													106	59					0	0	1	0	0		T	39789108	T	T	39789108	2	4	89	1	0	0	0	0	0	0	0	1	7701	639	23	1		1	IL29	19	39789108	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	829427	39789108	19339875	6168	59999											
LRFN1	57622	broad.mit.edu	37	chr19	39804604	39804604	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcatcaacggaactgttgTactgaacctggtacatgcgt	11	11	10	9	2	2	1	2	1	0	0	2	2	2	2	1	2	6	3	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:39804604T>C	uc002okw.2	-	1	1373	c.1373A>G	c.(1372-1374)TAC>TGC	p.Y458C		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	458	Fibronectin type-III.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane				ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			GGAACTGTTGTACTGAACCTG	0.657													10	56					0	0	1	0	0		C	39804604	C	C	39804604	3	2	89	1	0	0	0	0	1	0	0	0	8955	1638	57	3	950	3	LRFN1	19	39804604	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	15496	39804604	19324379	6169	60000											
PLEKHG2	64857	broad.mit.edu	37	chr19	39911616	39911616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggccctctgtgattcGccgaggccgcaggcagtctg	4	9	14	14	3	2	1	0	1	2	0	4	2	3	1	4	3	0	2	4	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:39911616G>A	uc010xuz.1	+	14	1752	c.1427G>A	c.(1426-1428)CGC>CAC	p.R476H	PLEKHG2_uc010xuy.1_Missense_Mutation_p.R417H|PLEKHG2_uc002olj.2_Missense_Mutation_p.R476H|PLEKHG2_uc010xva.1_Intron	NM_022835	NP_073746	Q9H7P9	PKHG2_HUMAN	common-site lymphoma/leukemia guanine nucleotide	476					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			skin(2)|pancreas(1)|breast(1)	4	all_cancers(60;3.08e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;6.57e-07)|Ovarian(47;0.0569)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			TCTGTGATTCGCCGAGGCCGC	0.672													18	55					0	0	1	0	0		A	39911616	A	A	39911616	3	1	89	1	0	0	0	0	1	0	0	0	12088	1087	38	1	1477	1	PLEKHG2	19	39911616	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	107012	39911616	19217367	6170	60001											
FCGBP	8857	broad.mit.edu	37	chr19	40392521	40392521	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctggagaggagcccacaGaactcctccttctgatactt	9	9	11	12	0	1	3	0	1	1	2	3	5	3	4	3	3	3	1	3	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:40392521G>T	uc002omp.3	-	16	7991	c.7983C>A	c.(7981-7983)TTC>TTA	p.F2661L		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	2661	VWFD 6.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GGAGCCCACAGAACTCCTCCT	0.632													18	114					6.94344e-10	7.49515e-10	1	1	0		T	40392521	T	T	40392521	3	4	89	1	0	0	0	0	1	0	0	0	5792	933	33	5	8318	5	FCGBP	19	40392521	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	480905	40392521	18736462	6171	60002											
ZNF546	339327	broad.mit.edu	37	chr19	40521315	40521315	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacttacattacatcaaaGaattcacactggtgagcttc	13	12	6	10	1	2	2	2	1	0	1	4	3	2	2	0	1	3	1	0	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:40521315G>T	uc002oms.2	+	7	2394	c.2138G>T	c.(2137-2139)AGA>ATA	p.R713I	ZNF546_uc002omt.2_Missense_Mutation_p.R687I	NM_178544	NP_848639	Q86UE3	ZN546_HUMAN	zinc finger protein 546	713	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TTACATCAAAGAATTCACACT	0.388													25	70					3.08376e-08	3.26638e-08	1	1	0		T	40521315	T	T	40521315	3	4	89	1	0	0	0	0	1	0	0	0	18003	942	33	5	2156	5	ZNF546	19	40521315	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	128794	40521315	18607668	6172	60003											
ZNF780B	163131	broad.mit.edu	37	chr19	40540394	40540394	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaagttgtaggtgaagtCtaaaagccttcccacactcc	13	9	9	10	0	1	2	0	1	1	1	3	3	3	2	3	1	1	2	3	1	5	4	rs1831061		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:40540394C>A	uc002omu.2	-	5	2437	c.2372G>T	c.(2371-2373)AGA>ATA	p.R791I	ZNF780B_uc002omv.2_Missense_Mutation_p.R643I	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	791	C2H2-type 23; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TAGGTGAAGTCTAAAAGCCTT	0.423													68	26					2.02796e-37	2.50876e-37	1	1	0		A	40540394	A	A	40540394	3	1	89	1	0	0	0	0	1	0	0	0	18178	913	32	5	133	5	ZNF780B	19	40540394	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19079	40540394	18588589	6173	60004											
ZNF780B	163131	broad.mit.edu	37	chr19	40540950	40540950	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcttctcaccagtatgaaAtttctgatgtcgaataaggt	11	13	10	7	1	2	2	1	2	2	0	4	3	2	2	1	2	0	2	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:40540950A>C	uc002omu.2	-	5	1881	c.1816T>G	c.(1816-1818)TTT>GTT	p.F606V	ZNF780B_uc002omv.2_Missense_Mutation_p.F458V	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	606	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					CCAGTATGAAATTTCTGATGT	0.408													56	106					0	0	1	0	0		C	40540950	C	C	40540950	3	2	89	1	0	0	0	0	1	0	0	0	18178	101	4	5	689	5	ZNF780B	19	40540950	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	556	40540950	18588033	6174	60005											
ZNF780B	163131	broad.mit.edu	37	chr19	40541040	40541040	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttccggtatgaatacttcGatgttgattaagatttgaac	11	16	8	6	2	0	4	0	3	0	1	2	5	1	4	1	1	2	2	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:40541040G>A	uc002omu.2	-	5	1791	c.1726C>T	c.(1726-1728)CGA>TGA	p.R576*	ZNF780B_uc002omv.2_Nonsense_Mutation_p.R428*	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	576	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TGAATACTTCGATGTTGATTA	0.378													48	114					0	0	1	0	0		A	40541040	A	A	40541040	4	1	89	1	0	0	0	0	0	1	0	0	18178	1066	37	1	779	1	ZNF780B	19	40541040	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	90	40541040	18587943	6175	60006											
ZNF780B	163131	broad.mit.edu	37	chr19	40541891	40541891	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattttttgatgctgaataAgatttgaaccacgattaaag	15	14	8	4	1	0	4	0	3	0	1	0	6	0	4	1	0	2	1	1	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:40541891A>C	uc002omu.2	-	5	940	c.875T>G	c.(874-876)CTT>CGT	p.L292R	ZNF780B_uc002omv.2_Missense_Mutation_p.L144R	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	292	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					ATGCTGAATAAGATTTGAACC	0.378													97	49					0	0	1	0	0		C	40541891	C	C	40541891	3	2	89	1	0	0	0	0	1	0	0	0	18178	72	3	5	1630	5	ZNF780B	19	40541891	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	851	40541891	18587092	6176	60007											
SPTBN4	57731	broad.mit.edu	37	chr19	41063123	41063123	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcatgggcacacgggcccaGctgctggccgcctctcggga	5	6	14	16	3	2	0	1	0	1	0	3	1	2	1	3	4	2	3	3	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:41063123G>T	uc002ony.2	+	26	5570	c.5484G>T	c.(5482-5484)CAG>CAT	p.Q1828H	SPTBN4_uc002onx.2_Missense_Mutation_p.Q1828H|SPTBN4_uc002onz.2_Missense_Mutation_p.Q1828H|SPTBN4_uc010egx.2_Missense_Mutation_p.Q571H|SPTBN4_uc002ooa.2_Missense_Mutation_p.Q504H	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1828	Spectrin 15.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CACGGGCCCAGCTGCTGGCCG	0.647													25	39					3.73808e-20	4.40927e-20	1	1	0		T	41063123	T	T	41063123	3	4	89	1	0	0	0	0	1	0	0	0	15146	962	34	5	5582	5	SPTBN4	19	41063123	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	521232	41063123	18065860	6177	60008											
CYP2A13	1553	broad.mit.edu	37	chr19	41597723	41597723	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaagggctggaggacttCatcgccaagaaggtggagca	11	6	15	9	1	1	1	1	0	0	1	2	4	1	4	1	5	2	3	1	5	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:41597723C>A	uc002opt.2	+	5	750	c.741C>A	c.(739-741)TTC>TTA	p.F247L		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	247					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	TGGAGGACTTCATCGCCAAGA	0.557													34	58					3.03874e-20	3.58487e-20	1	1	0		A	41597723	A	A	41597723	3	1	89	1	0	0	0	0	1	0	0	0	4164	825	29	5	759	5	CYP2A13	19	41597723	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	534600	41597723	17531260	6178	60009											
CYP2F1	1572	broad.mit.edu	37	chr19	41631482	41631482	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagttcaaccccgagcatTttttggatgccaatcagtcc	10	11	9	11	1	2	0	2	0	0	0	3	3	3	2	4	2	3	2	4	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:41631482T>G	uc002opu.1	+	9	1293	c.1237T>G	c.(1237-1239)TTT>GTT	p.F413V	CYP2F1_uc010xvw.1_Intron|CYP2F1_uc010xvv.1_3'UTR|CYP2F1_uc002opv.1_RNA	NM_000774	NP_000765	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F,	413					naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0						CCCCGAGCATTTTTTGGATGC	0.547													26	52					0	0	1	0	0		G	41631482	G	G	41631482	3	3	89	1	0	0	0	0	1	0	0	0	4174	1841	64	5	1267	5	CYP2F1	19	41631482	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	33759	41631482	17497501	6179	60010											
CYP2S1	29785	broad.mit.edu	37	chr19	41700500	41700500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctacctgggaccgtggcggCctgtggtggtcctggttggg	2	11	18	10	2	1	0	0	0	1	0	2	1	2	1	4	7	1	1	4	7	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:41700500C>T	uc002opw.2	+	2	284	c.229C>T	c.(229-231)CCT>TCT	p.P77S	CYP2F1_uc010xvw.1_Intron|CYP2S1_uc010xvx.1_5'UTR	NM_030622	NP_085125	Q96SQ9	CP2S1_HUMAN	cytochrome P450, family 2, subfamily S,	77					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity			skin(1)	1						ACCGTGGCGGCCTGTGGTGGT	0.637													53	18					0	0	1	0	0		T	41700500	T	T	41700500	3	4	89	1	0	0	0	0	1	0	0	0	4177	739	26	2	235	2	CYP2S1	19	41700500	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	69018	41700500	17428483	6180	60011											
ARHGEF1	9138	broad.mit.edu	37	chr19	42396120	42396120	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgtctgcatgccgacatgCtgggctcactgggccccaag	6	8	13	14	1	2	0	1	0	1	0	2	1	2	0	3	2	3	4	3	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:42396120C>T	uc002orx.2	+	5	359	c.250C>T	c.(250-252)CTG>TTG	p.L84L	ARHGEF1_uc002orw.1_Silent_p.L84L|ARHGEF1_uc002ory.2_Intron|ARHGEF1_uc002orz.2_5'UTR|ARHGEF1_uc002osa.2_Silent_p.L99L|ARHGEF1_uc002osb.2_Intron	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	84	RGSL.				cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		TGCCGACATGCTGGGCTCACT	0.542													28	46					0	0	1	0	0		T	42396120	T	T	42396120	2	4	89	1	0	0	0	0	0	0	0	1	893	796	28	2		2	ARHGEF1	19	42396120	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	695620	42396120	16732863	6181	60012											
PAFAH1B3	5050	broad.mit.edu	37	chr19	42806432	42806432	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcctgcaccggcgtgggCttgctggctgggttctcctc	2	11	14	14	3	1	0	0	0	1	0	4	0	2	0	3	4	2	5	3	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:42806432C>T	uc002otg.2	-	1	365	c.30G>A	c.(28-30)AAG>AAA	p.K10K	PAFAH1B3_uc010xwi.1_Silent_p.K10K|PAFAH1B3_uc010xwj.1_Silent_p.K10K|PRR19_uc002oth.1_5'UTR|PRR19_uc002oti.2_5'UTR	NM_002573	NP_002564	Q15102	PA1B3_HUMAN	platelet-activating factor acetylhydrolase,	10					lipid catabolic process|nervous system development	cytoplasm	1-alkyl-2-acetylglycerophosphocholine esterase activity|protein binding				0		Prostate(69;0.0704)				CCGGCGTGGGCTTGCTGGCTG	0.687													9	3					0	0	1	0	0		T	42806432	T	T	42806432	2	4	89	1	0	0	0	0	0	0	0	1	11405	796	28	2		2	PAFAH1B3	19	42806432	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	410312	42806432	16322551	6182	60013											
LIPE	3991	broad.mit.edu	37	chr19	42912401	42912401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgaggcctgtctcgttgCgtttgtagtgctccccgaag	5	12	12	12	3	1	1	0	1	1	0	3	2	2	1	3	1	2	4	3	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:42912401C>T	uc002otr.2	-	3	1770	c.1493G>A	c.(1492-1494)CGC>CAC	p.R498H	uc010eif.1_Intron|LIPE_uc002ots.1_Missense_Mutation_p.R243H	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	498					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				TGTCTCGTTGCGTTTGTAGTG	0.632													57	113					0	0	1	0	0		T	42912401	T	T	42912401	3	4	89	1	0	0	0	0	1	0	0	0	8838	768	27	1	1769	1	LIPE	19	42912401	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	105969	42912401	16216582	6183	60014											
CEACAM8	1088	broad.mit.edu	37	chr19	43087468	43087468	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctagctgagaggccaggaGaacttccttgtactaaagca	12	9	10	10	0	1	2	0	1	1	2	2	4	2	2	2	2	4	3	2	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:43087468G>T	uc002oud.2	-	5	1082	c.980C>A	c.(979-981)TCT>TAT	p.S327Y	uc010eif.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron	NM_001816	NP_001807	P31997	CEAM8_HUMAN	carcinoembryonic antigen-related cell adhesion	327					immune response	anchored to membrane|extracellular space|integral to plasma membrane				ovary(1)	1		Prostate(69;0.00899)				GAGGCCAGGAGAACTTCCTTG	0.473													20	52					1.22574e-08	1.30575e-08	1	1	0		T	43087468	T	T	43087468	3	4	89	1	0	0	0	0	1	0	0	0	3201	942	33	5	73	5	CEACAM8	19	43087468	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	175067	43087468	16041515	6184	60015											
PSG1	5669	broad.mit.edu	37	chr19	43375919	43375919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaacagaagatactcacGgaggagattcagggtgactg	14	6	15	6	1	2	4	2	1	0	3	2	8	2	6	0	4	2	0	0	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:43375919G>A	uc002ovb.2	-	3	847	c.709C>T	c.(709-711)CCG>TCG	p.P237S	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Missense_Mutation_p.P237S|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_RNA|PSG1_uc002our.1_Missense_Mutation_p.P237S|PSG1_uc010eio.1_Missense_Mutation_p.P237S|PSG1_uc002oux.1_Missense_Mutation_p.P166S|PSG1_uc002ouy.1_Missense_Mutation_p.H237Y|PSG1_uc002ouz.1_Missense_Mutation_p.P237S|PSG1_uc002ova.1_Intron|PSG1_uc002ovc.2_Intron|PSG1_uc002ovd.1_Missense_Mutation_p.P237S	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	237					female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				AGATACTCACGGAGGAGATTC	0.537													324	143					0	0	1	0	0		A	43375919	A	A	43375919	3	1	89	1	0	0	0	0	1	0	0	0	12675	1130	39	1	619	1	PSG1	19	43375919	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	288451	43375919	15753064	6185	60016											
PSG2	5670	broad.mit.edu	37	chr19	43576027	43576027	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgccggtgggttagagttCgcgaagcaagacaagtagag	11	8	16	6	3	0	3	0	0	0	3	1	4	0	3	1	2	2	4	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:43576027C>T	uc002ovr.2	-	4	882	c.789G>A	c.(787-789)GCG>GCA	p.A263A	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Silent_p.A263A|PSG2_uc010eiq.1_Silent_p.A263A|PSG2_uc002ovs.3_Silent_p.A263A|PSG2_uc002ovt.3_Silent_p.A263A	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	263	Ig-like C2-type 2.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				GGTTAGAGTTCGCGAAGCAAG	0.443													214	91					0	0	1	0	0		T	43576027	T	T	43576027	2	4	89	1	0	0	0	0	0	0	0	1	12677	871	31	1		1	PSG2	19	43576027	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	200108	43576027	15552956	6186	60017											
PSG5	5673	broad.mit.edu	37	chr19	43689144	43689144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgtaatgtaatggtagaggtCcatcagttgtcctttgtacc	9	15	10	7	0	1	1	1	0	0	1	3	1	3	1	3	2	1	5	3	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:43689144C>T	uc002ovu.2	-	2	351	c.220G>A	c.(220-222)GAC>AAC	p.D74N	PSG6_uc010xwk.1_Intron|PSG5_uc010eir.2_Missense_Mutation_p.D2N|PSG5_uc002ovx.2_Missense_Mutation_p.D74N|PSG5_uc002ovv.2_Missense_Mutation_p.D74N|PSG5_uc002ovw.2_Missense_Mutation_p.D74N	NM_002781	NP_002772	Q15238	PSG5_HUMAN	pregnancy specific beta-1-glycoprotein 5	74	Ig-like V-type.				female pregnancy	extracellular region				skin(3)	3		Prostate(69;0.00899)				TGGTAGAGGTCCATCAGTTGT	0.433													138	262					0	0	1	0	0		T	43689144	T	T	43689144	3	4	89	1	0	0	0	0	1	0	0	0	12680	855	30	4	803	4	PSG5	19	43689144	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	113117	43689144	15439839	6187	60018											
PSG4	5672	broad.mit.edu	37	chr19	43699426	43699426	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagggcttggacagctttgCtgtgtggataacagagagaa	11	10	15	5	0	0	2	0	0	0	2	0	5	0	4	0	3	3	4	0	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:43699426C>T	uc002ovy.2	-	4	812	c.710_splice	c.e4-1	p.P237_splice	PSG6_uc010xwk.1_Intron|PSG4_uc002owa.2_Splice_Site|PSG4_uc002owb.2_Splice_Site_p.P144_splice|PSG4_uc002ovz.2_Intron	NM_002780	NP_002771	Q00888	PSG4_HUMAN	pregnancy specific beta-1-glycoprotein 4 isoform						defense response|female pregnancy	extracellular region				ovary(1)	1		Prostate(69;0.00682)				GACAGCTTTGCTGTGTGGATA	0.468													156	73					0	0	1	0	0		T	43699426	T	T	43699426	5	4	89	1	0	0	0	0	0	0	1	0	12679	811	28	2	562	2	PSG4	19	43699426	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	10282	43699426	15429557	6188	60019											
ZNF221	7638	broad.mit.edu	37	chr19	44470846	44470846	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaccatataattgtaaaGaatgtgggaagaccttcaga	18	9	9	5	0	1	4	1	0	0	4	1	5	1	5	2	1	1	1	2	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:44470846G>T	uc002oxx.2	+	6	1520	c.1192G>T	c.(1192-1194)GAA>TAA	p.E398*	ZNF221_uc010ejb.1_Nonsense_Mutation_p.E398*|ZNF221_uc010xws.1_Nonsense_Mutation_p.E398*	NM_013359	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	398	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Prostate(69;0.0352)				TAATTGTAAAGAATGTGGGAA	0.413													42	79					6.5261e-18	7.59833e-18	1	1	0		T	44470846	T	T	44470846	4	4	89	1	0	0	0	0	0	1	0	0	17800	943	33	5	1206	5	ZNF221	19	44470846	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	771420	44470846	14658137	6189	60020											
ZNF223	7766	broad.mit.edu	37	chr19	44570416	44570416	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctataatgcacacaggacaGaaaccttccaattgtgggaa	15	9	8	9	0	1	1	0	0	1	1	2	3	2	3	2	2	2	1	2	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:44570416G>T	uc002oyf.1	+	5	688	c.435G>T	c.(433-435)CAG>CAT	p.Q145H	ZNF284_uc010ejd.2_RNA	NM_013361	NP_037493	Q9UK11	ZN223_HUMAN	zinc finger protein 223	145					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0352)				ACACAGGACAGAAACCTTCCA	0.458													57	132					1.10885e-35	1.36864e-35	1	1	0		T	44570416	T	T	44570416	3	4	89	1	0	0	0	0	1	0	0	0	17802	933	33	5	449	5	ZNF223	19	44570416	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	99570	44570416	14558567	6190	60021											
ZNF224	7767	broad.mit.edu	37	chr19	44611252	44611252	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatggttcacacggcagaGaaaccattccgatgtgatac	12	9	9	11	2	1	2	1	1	0	1	3	4	3	2	3	2	2	2	3	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:44611252G>T	uc002oyh.1	+	6	1241	c.939G>T	c.(937-939)GAG>GAT	p.E313D	uc002oyi.2_RNA	NM_013398	NP_037530	Q9NZL3	ZN224_HUMAN	zinc finger protein 224	313					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				ACACGGCAGAGAAACCATTCC	0.433													141	81					1.14977e-51	1.43101e-51	1	1	0		T	44611252	T	T	44611252	3	4	89	1	0	0	0	0	1	0	0	0	17803	933	33	5	953	5	ZNF224	19	44611252	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	40836	44611252	14517731	6191	60022											
ZNF225	7768	broad.mit.edu	37	chr19	44636406	44636406	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaatgtgaagagtgtgggAagggcttcaacagtaagttt	14	10	13	4	0	1	2	1	1	0	1	1	3	1	3	0	2	1	3	0	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:44636406A>C	uc002oyj.1	+	5	1882	c.1639A>C	c.(1639-1641)AAG>CAG	p.K547Q	ZNF225_uc010eje.1_Missense_Mutation_p.K464Q|ZNF225_uc010ejf.1_Missense_Mutation_p.K547Q	NM_013362	NP_037494	Q9UK10	ZN225_HUMAN	zinc finger protein 225	547	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				AGAGTGTGGGAAGGGCTTCAA	0.438													46	98					0	0	1	0	0		C	44636406	C	C	44636406	3	2	89	1	0	0	0	0	1	0	0	0	17804	247	9	5	1653	5	ZNF225	19	44636406	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	25154	44636406	14492577	6192	60023											
ZNF226	7769	broad.mit.edu	37	chr19	44681081	44681081	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagaaggcccacagtataGagaaaccttttaagtgtgag	15	9	10	7	0	1	3	1	1	0	2	1	4	1	3	2	1	1	1	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:44681081G>T	uc002oyp.2	+	6	1810	c.1666G>T	c.(1666-1668)GAG>TAG	p.E556*	ZNF226_uc002oyq.2_Nonsense_Mutation_p.E439*|ZNF226_uc002oyr.2_Nonsense_Mutation_p.E439*|ZNF226_uc010ejg.2_3'UTR|ZNF226_uc002oys.2_Nonsense_Mutation_p.E556*|ZNF226_uc002oyt.2_Nonsense_Mutation_p.E556*	NM_001032373	NP_001027545	Q9NYT6	ZN226_HUMAN	zinc finger protein 226 isoform a	556					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				CCACAGTATAGAGAAACCTTT	0.453													65	124					6.2918e-36	7.76943e-36	1	1	0		T	44681081	T	T	44681081	4	4	89	1	0	0	0	0	0	1	0	0	17805	943	33	5	1734	5	ZNF226	19	44681081	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	44675	44681081	14447902	6193	60024											
ZNF226	7769	broad.mit.edu	37	chr19	44681178	44681178	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacgggtgagaaaccatacaAatgtgaagagtgtggcaagg	15	7	14	5	1	0	3	0	2	0	2	0	4	0	3	1	3	3	1	1	3	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:44681178A>C	uc002oyp.2	+	6	1907	c.1763A>C	c.(1762-1764)AAA>ACA	p.K588T	ZNF226_uc002oyq.2_Missense_Mutation_p.K471T|ZNF226_uc002oyr.2_Missense_Mutation_p.K471T|ZNF226_uc010ejg.2_3'UTR|ZNF226_uc002oys.2_Missense_Mutation_p.K588T|ZNF226_uc002oyt.2_Missense_Mutation_p.K588T	NM_001032373	NP_001027545	Q9NYT6	ZN226_HUMAN	zinc finger protein 226 isoform a	588	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				AAACCATACAAATGTGAAGAG	0.443													105	51					0	0	1	0	0		C	44681178	C	C	44681178	3	2	89	1	0	0	0	0	1	0	0	0	17805	14	1	5	1831	5	ZNF226	19	44681178	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	97	44681178	14447805	6194	60025											
SFRS16	11129	broad.mit.edu	37	chr19	45563839	45563839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctctcgacgccagcggagaGagtttcgggagaagcggctg	8	6	17	10	5	1	2	0	0	1	2	3	6	1	3	1	3	2	3	1	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:45563839G>A	uc002pak.2	+	10	915	c.817G>A	c.(817-819)GAG>AAG	p.E273K	SFRS16_uc002pal.2_RNA|SFRS16_uc010xxh.1_Missense_Mutation_p.E211K|SFRS16_uc002pam.2_Missense_Mutation_p.E273K|SFRS16_uc002pan.1_RNA	NM_007056	NP_008987	Q8N2M8	CLASR_HUMAN	splicing factor, arginine/serine-rich 16	273					mRNA processing|RNA splicing	nucleus					0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CCAGCGGAGAGAGTTTCGGGA	0.667													8	29					0	0	1	0	0		A	45563839	A	A	45563839	3	1	89	1	0	0	0	0	1	0	0	0	14197	943	33	4	851	4	SFRS16	19	45563839	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	882661	45563839	13565144	6195	60026											
EXOC3L2	90332	broad.mit.edu	37	chr19	45731000	45731000	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcccggactgctgggttCtcatggaatcgctccacacg	7	10	10	14	3	2	0	1	0	2	0	6	2	3	2	2	3	1	3	2	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:45731000C>A	uc002pay.1	-	5	365	c.324G>T	c.(322-324)GAG>GAT	p.E108D		NM_138568	NP_612635	Q2M3D2	EX3L2_HUMAN	exocyst complex component 3-like 2	108										ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00883)		CTGCTGGGTTCTCATGGAATC	0.622													4	10					0.00024832	0.000253393	1	1	0		A	45731000	A	A	45731000	3	1	89	1	0	0	0	0	1	0	0	0	5313	912	32	5	929	5	EXOC3L2	19	45731000	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	167161	45731000	13397983	6196	60027											
CKM	1158	broad.mit.edu	37	chr19	45810167	45810167	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgtcaaatactgagcccacGgcagctgtgtccacgccacc	10	6	9	16	3	1	1	1	1	0	0	2	1	2	1	4	1	3	2	4	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:45810167G>A	uc002pbd.2	-	8	1061	c.987C>T	c.(985-987)GCC>GCT	p.A329A		NM_001824	NP_001815	P06732	KCRM_HUMAN	muscle creatine kinase	329	Phosphagen kinase C-terminal.				creatine metabolic process	cytosol	ATP binding|creatine kinase activity			skin(1)	1		Ovarian(192;0.0336)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;2.29e-44)|Epithelial(262;1.05e-38)|GBM - Glioblastoma multiforme(486;3.56e-07)	Creatine(DB00148)	CTGAGCCCACGGCAGCTGTGT	0.617													96	56					0	0	1	0	0		A	45810167	A	A	45810167	2	1	89	1	0	0	0	0	0	0	0	1	3451	1103	39	1		1	CKM	19	45810167	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	79167	45810167	13318816	6197	60028											
ERCC2	2068	broad.mit.edu	37	chr19	45868310	45868310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccagtaacctcatagaatCggcagtggggcaggctggtg	9	8	14	10	1	1	1	1	0	0	1	3	1	2	1	2	5	1	4	2	5	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:45868310C>T	uc002pbj.2	-	6	514	c.467G>A	c.(466-468)CGA>CAA	p.R156Q	ERCC2_uc010ejz.2_Intron|ERCC2_uc002pbk.2_Missense_Mutation_p.R132Q|ERCC2_uc002pbl.3_Missense_Mutation_p.R132Q|ERCC2_uc010xxj.1_Intron	NM_000400	NP_000391	P18074	ERCC2_HUMAN	excision repair cross-complementing rodent	156	Helicase ATP-binding.				cell cycle checkpoint|chromosome segregation|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|UV protection|viral reproduction	cytoplasm|holo TFIIH complex|MMXD complex	5'-3' DNA helicase activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding|protein C-terminus binding|protein N-terminus binding			lung(2)|pancreas(1)	3		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		CTCATAGAATCGGCAGTGGGG	0.637			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				21	11					0	0	1	0	0		T	45868310	T	T	45868310	3	4	89	1	0	0	0	0	1	0	0	0	5221	884	31	1	1944	1	ERCC2	19	45868310	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	58143	45868310	13260673	6198	60029											
RTN2	6253	broad.mit.edu	37	chr19	45998139	45998139	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcccactacaccatcaaaGgcgatgtaggagaaggtcag	14	5	12	10	1	2	1	2	0	0	1	2	4	2	1	2	3	2	1	2	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:45998139G>T	uc002pcb.2	-	3	432	c.204C>A	c.(202-204)GCC>GCA	p.A68A	RTN2_uc002pcc.2_Silent_p.A68A|RTN2_uc002pcd.2_RNA	NM_005619	NP_005610	O75298	RTN2_HUMAN	reticulon 2 isoform A	68						integral to endoplasmic reticulum membrane	signal transducer activity			ovary(3)	3		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00829)|Epithelial(262;0.184)|GBM - Glioblastoma multiforme(486;0.246)		CACCATCAAAGGCGATGTAGG	0.677													35	20					9.93527e-08	1.04749e-07	1	1	0		T	45998139	T	T	45998139	2	4	89	1	0	0	0	0	0	0	0	1	13751	987	35	5		5	RTN2	19	45998139	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	129829	45998139	13130844	6199	60030											
DMPK	1760	broad.mit.edu	37	chr19	46282726	46282726	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagcatgtcccacttgtTcatgatcttcatggcataca	9	14	6	12	0	4	1	3	1	1	0	5	1	5	1	1	1	2	3	1	1	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:46282726T>G	uc002pdd.1	-	2	881	c.337A>C	c.(337-339)AAC>CAC	p.N113H	DMPK_uc010xxs.1_Missense_Mutation_p.N14H|DMPK_uc002pde.1_Missense_Mutation_p.N113H|DMPK_uc002pdf.1_Missense_Mutation_p.N103H|DMPK_uc002pdg.1_Missense_Mutation_p.N103H|DMPK_uc002pdh.1_Missense_Mutation_p.N103H|DMPK_uc002pdi.1_Missense_Mutation_p.N129H|DMPK_uc010xxt.1_Missense_Mutation_p.N103H|DMPK_uc010xxu.1_Missense_Mutation_p.N113H	NM_001081563	NP_001075032	Q09013	DMPK_HUMAN	myotonic dystrophy protein kinase isoform 1	113	Protein kinase.				regulation of heart contraction		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)	3		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00616)|GBM - Glioblastoma multiforme(486;0.0825)|Epithelial(262;0.24)		TCCCACTTGTTCATGATCTTC	0.607													52	98					0	0	1	0	0		G	46282726	G	G	46282726	3	3	89	1	0	0	0	0	1	0	0	0	4590	1783	62	5	1641	5	DMPK	19	46282726	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	284587	46282726	12846257	6200	60031											
RSPH6A	81492	broad.mit.edu	37	chr19	46308102	46308102	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacctcggccaccaggtagCtgcgtttgattcccaggatc	7	9	10	15	2	0	1	0	1	0	0	3	2	1	2	5	3	2	3	5	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:46308102C>A	uc002pdm.2	-	3	1204	c.1061G>T	c.(1060-1062)AGC>ATC	p.S354I	RSPH6A_uc002pdl.2_Missense_Mutation_p.S90I	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	354						intracellular				ovary(1)|central_nervous_system(1)	2						CACCAGGTAGCTGCGTTTGAT	0.438													15	29					2.61681e-11	2.86667e-11	1	1	0		A	46308102	A	A	46308102	3	1	89	1	0	0	0	0	1	0	0	0	13732	797	28	5	1108	5	RSPH6A	19	46308102	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	25376	46308102	12820881	6201	60032											
MYPOP	339344	broad.mit.edu	37	chr19	46393881	46393881	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatcatagatagtagattTcacggagatttccatcggcc	12	11	10	8	2	2	3	2	0	0	3	4	5	3	4	2	3	0	1	2	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:46393881T>C	uc002pdt.2	-	3	1287	c.1200A>G	c.(1198-1200)TGA>TGG	p.*400W		NM_001012643	NP_001012661	Q86VE0	MYPOP_HUMAN	Myb protein P42POP	400						nucleus	DNA binding				0						ATAGTAGATTTCACGGAGATT	0.637													51	14					0	0	1	0	0		C	46393881	C	C	46393881	4	2	89	1	0	0	0	0	0	0	0	0	10117	1796	62	3	3	3	MYPOP	19	46393881	Nonstop_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	85779	46393881	12735102	6202	60033											
NANOS2	339345	broad.mit.edu	37	chr19	46417834	46417834	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgccccagcggaggcccggGacttggctcctcaatctctt	5	9	11	16	2	2	0	1	0	1	0	4	2	3	2	4	4	2	1	4	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:46417834G>T	uc002pdu.2	-	1	203	c.118C>A	c.(118-120)CCC>ACC	p.P40T		NM_001029861	NP_001025032	P60321	NANO2_HUMAN	nanos homolog 2	40					germ-line stem cell maintenance|mRNA catabolic process|multicellular organismal development|negative regulation of meiosis|regulation of translation|spermatogenesis	cytoplasmic mRNA processing body|perinuclear region of cytoplasm	RNA binding|zinc ion binding				0		Ovarian(192;0.0308)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00442)|GBM - Glioblastoma multiforme(486;0.0668)|Epithelial(262;0.231)		GGAGGCCCGGGACTTGGCTCC	0.657													26	52					1.77063e-15	2.01907e-15	1	1	0		T	46417834	T	T	46417834	3	4	89	1	0	0	0	0	1	0	0	0	10170	1174	41	5	302	5	NANOS2	19	46417834	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23953	46417834	12711149	6203	60034											
PNMAL1	55228	broad.mit.edu	37	chr19	46973370	46973370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccttccaggcacatttcGccatgggcttcttcaaagcc	8	10	8	15	1	2	0	1	0	1	0	4	1	3	0	4	2	1	2	4	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:46973370G>A	uc002peq.3	-	2	1229	c.923C>T	c.(922-924)GCG>GTG	p.A308V	PNMAL1_uc002per.3_Missense_Mutation_p.A308V	NM_018215	NP_060685	Q86V59	PNML1_HUMAN	PNMA-like 1 isoform a	308											0		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000166)|all cancers(93;0.0014)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		GGCACATTTCGCCATGGGCTT	0.587													145	79					0	0	1	0	0		A	46973370	A	A	46973370	3	1	89	1	0	0	0	0	1	0	0	0	12176	1087	38	1	426	1	PNMAL1	19	46973370	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	555536	46973370	12155613	6204	60035											
KPTN	11133	broad.mit.edu	37	chr19	47986471	47986471	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccaggttcaggcagctCtctgtaggcagggcacaggc	8	7	14	12	0	2	0	1	0	1	0	4	0	3	0	1	5	2	7	1	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:47986471C>A	uc002pgy.2	-	4	500	c.396G>T	c.(394-396)CAG>CAT	p.Q132H	KPTN_uc010xys.1_RNA|uc002pgz.1_5'Flank	NM_007059	NP_008990	Q9Y664	KPTN_HUMAN	kaptin (actin binding protein)	132					actin filament organization|cellular component movement|sensory perception of sound	actin cytoskeleton|growth cone|microtubule organizing center|nucleus|perinuclear region of cytoplasm|stereocilium	actin binding			ovary(1)	1		all_cancers(25;1.55e-10)|all_epithelial(76;3.4e-08)|all_lung(116;1.73e-07)|Lung NSC(112;3.95e-07)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		OV - Ovarian serous cystadenocarcinoma(262;0.000428)|all cancers(93;0.000631)|Epithelial(262;0.0153)|GBM - Glioblastoma multiforme(486;0.0694)		TCAGGCAGCTCTCTGTAGGCA	0.602													72	149					5.12816e-46	6.37479e-46	1	1	0		A	47986471	A	A	47986471	3	1	89	1	0	0	0	0	1	0	0	0	8453	927	32	5	950	5	KPTN	19	47986471	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1013101	47986471	11142512	6205	60036											
SULT2A1	6822	broad.mit.edu	37	chr19	48386971	48386971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggtgatcgctcccagatggGcacagattggatccacttgg	8	9	14	10	1	0	3	0	1	0	2	3	4	2	4	2	4	0	2	2	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:48386971G>A	uc002phr.2	-	2	348	c.208C>T	c.(208-210)CCC>TCC	p.P70S		NM_003167	NP_003158	Q06520	ST2A1_HUMAN	bile-salt sulfotransferase 2A1	70					3'-phosphoadenosine 5'-phosphosulfate metabolic process|bile acid catabolic process|cellular lipid metabolic process|digestion|sulfation|xenobiotic metabolic process	cytosol	bile-salt sulfotransferase activity			ovary(1)|pancreas(1)	2		all_cancers(25;3.02e-09)|all_lung(116;6.48e-07)|all_epithelial(76;7.35e-07)|Lung NSC(112;1.56e-06)|all_neural(266;0.0146)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000254)|all cancers(93;0.000545)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.0552)		TCCCAGATGGGCACAGATTGG	0.488													49	19					0	0	1	0	0		A	48386971	A	A	48386971	3	1	89	1	0	0	0	0	1	0	0	0	15406	1203	42	2	669	2	SULT2A1	19	48386971	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	400500	48386971	10742012	6206	60037											
CABP5	56344	broad.mit.edu	37	chr19	48543980	48543980	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacccatctcggtccttatcGaactcaagaaatgcttcccg	11	10	6	14	3	2	1	1	0	1	1	6	2	4	1	3	1	3	1	3	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:48543980G>A	uc002phu.1	-	3	245	c.120C>T	c.(118-120)TTC>TTT	p.F40F		NM_019855	NP_062829	Q9NP86	CABP5_HUMAN	calcium binding protein 5	40	EF-hand 1.				signal transduction	cytoplasm	calcium ion binding			skin(1)	1		all_cancers(25;1.86e-08)|all_lung(116;1.14e-06)|all_epithelial(76;1.16e-06)|Lung NSC(112;2.54e-06)|all_neural(266;0.0138)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;4.09e-05)|all cancers(93;0.000322)|Epithelial(262;0.01)|GBM - Glioblastoma multiforme(486;0.058)		GGTCCTTATCGAACTCAAGAA	0.493													56	29					0	0	1	0	0		A	48543980	A	A	48543980	2	1	89	1	0	0	0	0	0	0	0	1	2537	1049	37	1		1	CABP5	19	48543980	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	157009	48543980	10585003	6207	60038											
ZNF114	163071	broad.mit.edu	37	chr19	48789668	48789668	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagaaataactcaattCacgccatgcagatgcagttg	13	9	7	12	1	2	2	2	0	0	2	3	2	3	2	3	0	3	3	3	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:48789668C>A	uc002pil.1	+	6	1284	c.787C>A	c.(787-789)CAC>AAC	p.H263N	ZNF114_uc010elv.1_Missense_Mutation_p.H263N|ZNF114_uc002pim.1_Missense_Mutation_p.H263N|ZNF114_uc002pin.2_Missense_Mutation_p.H229N	NM_153608	NP_705836	Q8NC26	ZN114_HUMAN	zinc finger protein 114	263					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_epithelial(76;8.01e-05)|all_lung(116;0.000112)|Lung NSC(112;0.000192)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;7.56e-05)|all cancers(93;0.000113)|Epithelial(262;0.00962)|GBM - Glioblastoma multiforme(486;0.0153)		TAACTCAATTCACGCCATGCA	0.468													92	48					1.46924e-35	1.8132e-35	1	1	0		A	48789668	A	A	48789668	3	1	89	1	0	0	0	0	1	0	0	0	17741	826	29	5	797	5	ZNF114	19	48789668	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	245688	48789668	10339315	6208	60039											
KCNJ14	3770	broad.mit.edu	37	chr19	48965373	48965373	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgccctgcttctcacacgTggccagcttcctggccgcct	3	9	10	19	4	1	0	1	0	1	0	3	0	2	0	5	2	2	2	5	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:48965373T>C	uc002pje.1	+	2	797	c.392T>C	c.(391-393)GTG>GCG	p.V131A	KCNJ14_uc002pjf.1_Missense_Mutation_p.V131A	NM_013348	NP_037480	Q9UNX9	IRK14_HUMAN	potassium inwardly-rectifying channel J14	131	Extracellular (By similarity).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			skin(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000109)|all cancers(93;0.000129)|Epithelial(262;0.0081)|GBM - Glioblastoma multiforme(486;0.0222)		TTCTCACACGTGGCCAGCTTC	0.721													6	5					0	0	1	0	0		C	48965373	C	C	48965373	3	2	89	1	0	0	0	0	1	0	0	0	8064	1696	59	3	394	3	KCNJ14	19	48965373	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	175705	48965373	10163610	6209	60040											
KCNJ14	3770	broad.mit.edu	37	chr19	48967513	48967513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggctttgatggaggcaccGatcgtatcttcctcgtgtcc	5	13	12	11	3	1	1	0	1	1	0	5	3	3	2	3	3	0	3	3	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:48967513G>A	uc002pje.1	+	3	1195	c.790G>A	c.(790-792)GAT>AAT	p.D264N	KCNJ14_uc002pjf.1_Missense_Mutation_p.D264N	NM_013348	NP_037480	Q9UNX9	IRK14_HUMAN	potassium inwardly-rectifying channel J14	264	Cytoplasmic (By similarity).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			skin(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000109)|all cancers(93;0.000129)|Epithelial(262;0.0081)|GBM - Glioblastoma multiforme(486;0.0222)		TGGAGGCACCGATCGTATCTT	0.602													9	20					0	0	1	0	0		A	48967513	A	A	48967513	3	1	89	1	0	0	0	0	1	0	0	0	8064	1058	37	1	796	1	KCNJ14	19	48967513	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2140	48967513	10161470	6210	60041											
IZUMO1	284359	broad.mit.edu	37	chr19	49245472	49245472	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgaggccctcaccctgtaAaagctgtaatcagtgaggcc	10	9	11	11	0	2	2	2	2	0	0	2	2	2	2	3	2	1	4	3	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:49245472A>C	uc002pkj.2	-	7	1142	c.594T>G	c.(592-594)TTT>TTG	p.F198L	RASIP1_uc002pki.2_5'Flank|IZUMO1_uc010eme.2_RNA|IZUMO1_uc010emf.2_RNA	NM_182575	NP_872381	Q8IYV9	IZUM1_HUMAN	izumo sperm-egg fusion 1 precursor	198	Ig-like C2-type.|Extracellular (Potential).				fusion of sperm to egg plasma membrane	integral to membrane				ovary(1)	1		all_lung(116;0.000156)|Lung NSC(112;0.000251)|all_epithelial(76;0.000761)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000348)|Epithelial(262;0.019)|GBM - Glioblastoma multiforme(486;0.022)		TCACCCTGTAAAAGCTGTAAT	0.498													78	33					0	0	1	0	0		C	49245472	C	C	49245472	3	2	89	1	0	0	0	0	1	0	0	0	7949	11	1	5	474	5	IZUMO1	19	49245472	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	277959	49245472	9883511	6211	60042											
PLEKHA4	57664	broad.mit.edu	37	chr19	49364675	49364675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggtgaaggtgaagcgccGccctcggggggctcccggcc	5	4	17	15	5	0	2	0	2	0	0	2	2	1	2	4	6	1	1	4	6	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:49364675G>A	uc002pkx.2	-	5	900	c.349C>T	c.(349-351)CGG>TGG	p.R117W	PLEKHA4_uc002pkw.1_5'Flank|PLEKHA4_uc010eml.2_Missense_Mutation_p.R117W	NM_020904	NP_065955	Q9H4M7	PKHA4_HUMAN	pleckstrin homology domain containing family A	117	PH.					cytoplasm|membrane	1-phosphatidylinositol binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;0.000108)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.00027)|all cancers(93;0.00084)|GBM - Glioblastoma multiforme(486;0.0244)|Epithelial(262;0.0364)		GTGAAGCGCCGCCCTCGGGGG	0.607													17	45					0	0	1	0	0		A	49364675	A	A	49364675	3	1	89	1	0	0	0	0	1	0	0	0	12077	1086	38	1	2054	1	PLEKHA4	19	49364675	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	119203	49364675	9764308	6212	60043											
PLEKHA4	57664	broad.mit.edu	37	chr19	49368824	49368824	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcctgagcgcattgcctCtcttcccaaaggcgtggatc	6	10	9	16	2	1	1	0	1	1	0	5	2	3	2	4	2	2	1	4	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:49368824C>A	uc002pkx.2	-	3	679	c.128G>T	c.(127-129)AGA>ATA	p.R43I	PLEKHA4_uc010eml.2_Missense_Mutation_p.R43I	NM_020904	NP_065955	Q9H4M7	PKHA4_HUMAN	pleckstrin homology domain containing family A	43						cytoplasm|membrane	1-phosphatidylinositol binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;0.000108)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.00027)|all cancers(93;0.00084)|GBM - Glioblastoma multiforme(486;0.0244)|Epithelial(262;0.0364)		CGCATTGCCTCTCTTCCCAAA	0.572													15	33					2.35188e-11	2.57851e-11	1	1	0		A	49368824	A	A	49368824	3	1	89	1	0	0	0	0	1	0	0	0	12077	913	32	5	2283	5	PLEKHA4	19	49368824	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4149	49368824	9760159	6213	60044											
TSKS	60385	broad.mit.edu	37	chr19	50251693	50251693	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaagctggtgatggagtCtttggcgcggaccaatccac	8	10	12	11	2	2	1	1	1	1	0	3	3	3	3	2	4	1	1	2	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:50251693C>A	uc002ppm.2	-	3	444	c.433G>T	c.(433-435)GAC>TAC	p.D145Y		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	145							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		GTGATGGAGTCTTTGGCGCGG	0.562													21	50					7.07758e-08	7.46774e-08	1	1	0		A	50251693	A	A	50251693	3	1	89	1	0	0	0	0	1	0	0	0	16652	913	32	5	1381	5	TSKS	19	50251693	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	882869	50251693	8877290	6214	60045											
IL4I1	259307	broad.mit.edu	37	chr19	50399224	50399224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggatcctgcatgcatttctCgaaggggtcttggctgcgtt	6	13	13	9	2	2	0	0	0	2	0	4	2	3	1	1	4	3	4	1	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:50399224C>T	uc002pqt.1	-	3	178	c.100G>A	c.(100-102)GAG>AAG	p.E34K	IL4I1_uc002pqv.1_Missense_Mutation_p.E43K|IL4I1_uc010eno.1_Missense_Mutation_p.E42K|IL4I1_uc002pqw.1_Missense_Mutation_p.E42K|IL4I1_uc002pqu.1_Missense_Mutation_p.E56K	NM_152899	NP_690863	Q96RQ9	OXLA_HUMAN	interleukin 4 induced 1 isoform 1 precursor	34						lysosome	L-amino-acid oxidase activity			lung(1)|ovary(1)|prostate(1)	3		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00245)|OV - Ovarian serous cystadenocarcinoma(262;0.0169)		ATGCATTTCTCGAAGGGGTCT	0.458													35	85					0	0	1	0	0		T	50399224	T	T	50399224	3	4	89	1	0	0	0	0	1	0	0	0	7713	893	31	1	1627	1	IL4I1	19	50399224	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	147531	50399224	8729759	6215	60046											
ZNF473	25888	broad.mit.edu	37	chr19	50549532	50549532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcggctcattcaccatcaaaGaatccactctagagtgaggc	12	9	8	12	1	4	3	3	1	1	2	6	3	5	3	2	2	0	1	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:50549532G>A	uc002prn.2	+	5	2069	c.1832G>A	c.(1831-1833)AGA>AAA	p.R611K	ZNF473_uc002prm.2_Missense_Mutation_p.R611K|ZNF473_uc010ybo.1_Missense_Mutation_p.R599K	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	611	C2H2-type 12.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		CACCATCAAAGAATCCACTCT	0.502													28	54					0	0	1	0	0		A	50549532	A	A	50549532	3	1	89	1	0	0	0	0	1	0	0	0	17956	942	33	4	1846	4	ZNF473	19	50549532	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	150308	50549532	8579451	6216	60047											
ZNF473	25888	broad.mit.edu	37	chr19	50550117	50550117	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctaacacagcaccagaGaattcacacaggggagaagc	18	4	9	10	0	2	2	1	0	1	2	2	4	2	2	1	2	3	1	1	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:50550117G>T	uc002prn.2	+	5	2654	c.2417G>T	c.(2416-2418)AGA>ATA	p.R806I	ZNF473_uc002prm.2_Missense_Mutation_p.R806I|ZNF473_uc010ybo.1_Missense_Mutation_p.R794I	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	806	C2H2-type 18.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		CAGCACCAGAGAATTCACACA	0.502											OREG0025632	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	48					5.45024e-15	6.18484e-15	1	1	0		T	50550117	T	T	50550117	3	4	89	1	0	0	0	0	1	0	0	0	17956	942	33	5	2431	5	ZNF473	19	50550117	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	585	50550117	8578866	6217	60048											
MYH14	79784	broad.mit.edu	37	chr19	50720889	50720889	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagacgtactccggccttttCtgtgtggtcatcaacccgta	7	12	9	13	3	3	1	2	0	1	1	4	1	4	1	3	2	2	2	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:50720889C>T	uc002prr.1	+	3	470	c.423C>T	c.(421-423)TTC>TTT	p.F141F	MYH14_uc010enu.1_Silent_p.F141F|MYH14_uc002prq.1_Silent_p.F141F	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	141	Myosin head-like.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		CCGGCCTTTTCTGTGTGGTCA	0.547													46	113					0	0	1	0	0		T	50720889	T	T	50720889	2	4	89	1	0	0	0	0	0	0	0	1	10051	912	32	4		4	MYH14	19	50720889	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	170772	50720889	8408094	6218	60049											
SPIB	6689	broad.mit.edu	37	chr19	50926154	50926154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcgacccggcagcagccGcttttagccacccccaggct	6	7	9	19	3	0	0	0	0	0	0	1	1	0	0	6	2	3	4	6	2	1	3	rs141734267		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:50926154G>A	uc002psd.2	+	4	224	c.199G>A	c.(199-201)GCT>ACT	p.A67T	SPIB_uc002pse.2_Missense_Mutation_p.A67T|SPIB_uc010ycc.1_Intron	NM_003121	NP_003112	Q01892	SPIB_HUMAN	Spi-B transcription factor (Spi-1/PU.1 related)	67					regulation of transcription from RNA polymerase II promoter	cytoplasm|microtubule cytoskeleton|nucleus	sequence-specific DNA binding			lung(1)|kidney(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		GGCAGCAGCCGCTTTTAGCCA	0.682													106	33					0	0	1	0	0		A	50926154	A	A	50926154	3	1	89	1	0	0	0	0	1	0	0	0	15075	1087	38	1	213	1	SPIB	19	50926154	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	205265	50926154	8202829	6219	60050											
MYBPC2	4606	broad.mit.edu	37	chr19	50951486	50951486	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctctccctgaccagagaaAcagctggaggtcctgcagga	10	8	11	12	0	1	2	0	1	1	1	4	5	3	4	3	3	3	2	3	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:50951486A>G	uc002psf.2	+	13	1362	c.1311A>G	c.(1309-1311)AAA>AAG	p.K437K		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	437	Ig-like C2-type 3.				cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		GACCAGAGAAACAGCTGGAGG	0.383													11	25					0	0	1	0	0		G	50951486	G	G	50951486	2	3	89	1	0	0	0	0	0	0	0	1	10030	40	2	3		3	MYBPC2	19	50951486	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	25332	50951486	8177497	6220	60051											
LRRC4B	94030	broad.mit.edu	37	chr19	51022417	51022417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgcccaggtccaggcgccGcagcgagggcacgcggttga	6	4	16	15	6	0	1	0	1	0	0	2	2	1	1	3	4	1	3	3	4	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:51022417G>A	uc002pss.2	-	3	690	c.553C>T	c.(553-555)CGG>TGG	p.R185W		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	185	LRR 5.|Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		TCCAGGCGCCGCAGCGAGGGC	0.652													22	37					0	0	1	0	0		A	51022417	A	A	51022417	3	1	89	1	0	0	0	0	1	0	0	0	9025	1086	38	1	1592	1	LRRC4B	19	51022417	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	70931	51022417	8106566	6221	60052											
LRRC4B	94030	broad.mit.edu	37	chr19	51051822	51051822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccgttctcttgcaggtTcaggtaccgcgtgttgaccg	5	12	13	11	4	2	1	1	1	1	0	3	2	2	1	3	2	3	5	3	2	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:51051822T>C	uc002pss.2	-	2	411	c.274A>G	c.(274-276)AAC>GAC	p.N92D		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	92	LRR 1.|Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		TCTTGCAGGTTCAGGTACCGC	0.657													3	0					0	0	1	0	0		C	51051822	C	C	51051822	3	2	89	1	0	0	0	0	1	0	0	0	9025	1783	62	3	1875	3	LRRC4B	19	51051822	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	29405	51051822	8077161	6222	60053											
KLK3	354	broad.mit.edu	37	chr19	51361284	51361284	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgtctgcttcctccccaGcaaaagcgtgatcttgctgg	6	11	10	14	2	2	1	0	1	2	0	4	1	4	1	3	1	5	3	3	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:51361284G>A	uc002pts.1	+	3	248	c.207_splice	c.e3-1	p.N69_splice	KLK3_uc010ycj.1_Splice_Site_p.N69_splice|KLK3_uc002ptr.1_Intron|KLK3_uc010eof.1_Splice_Site	NM_001030047	NP_001025218	P07288	KLK3_HUMAN	prostate specific antigen isoform 3						negative regulation of angiogenesis|proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00763)|GBM - Glioblastoma multiforme(134;0.0144)		TTCCTCCCCAGCAAAAGCGTG	0.532													23	30					0	0	1	0	0		A	51361284	A	A	51361284	5	1	89	1	0	0	0	0	0	0	1	0	8421	985	34	2	220	2	KLK3	19	51361284	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	309462	51361284	7767699	6223	60054											
SIGLEC7	27036	broad.mit.edu	37	chr19	51647913	51647913	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctggggccggcgtgaccacGaacaggaccatccaactcaa	11	4	11	15	3	1	1	1	1	0	0	2	3	2	2	5	4	2	0	5	4	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:51647913G>A	uc002pvv.1	+	2	753	c.684G>A	c.(682-684)ACG>ACA	p.T228T	SIGLEC7_uc002pvw.1_Intron|SIGLEC7_uc010eoq.1_Intron|SIGLEC7_uc010eor.1_Intron	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	228	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		GCGTGACCACGAACAGGACCA	0.657													22	71					0	0	1	0	0		A	51647913	A	A	51647913	2	1	89	1	0	0	0	0	0	0	0	1	14338	1045	37	1		1	SIGLEC7	19	51647913	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	286629	51647913	7481070	6224	60055											
SIGLEC10	89790	broad.mit.edu	37	chr19	51919253	51919253	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaccccgggcagctccAgccccaggggtctagggccc	5	5	12	19	1	2	0	1	0	1	0	3	0	3	0	7	4	2	2	7	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:51919253A>C	uc002pwo.2	-	5	1539	c.923T>G	c.(922-924)CTG>CGG	p.L308R	SIGLEC10_uc002pwp.2_Missense_Mutation_p.L250R|SIGLEC10_uc002pwq.2_Missense_Mutation_p.L250R|SIGLEC10_uc002pwr.2_Missense_Mutation_p.L308R|SIGLEC10_uc010ycy.1_Intron|SIGLEC10_uc010ycz.1_Missense_Mutation_p.L260R|SIGLEC10_uc010eow.2_Missense_Mutation_p.L120R|SIGLEC10_uc002pws.1_Intron	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	308	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GGGCAGCTCCAGCCCCAGGGG	0.672													47	20					0	0	1	0	0		C	51919253	C	C	51919253	3	2	89	1	0	0	0	0	1	0	0	0	14331	188	7	5	1198	5	SIGLEC10	19	51919253	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	271340	51919253	7209730	6225	60056											
SIGLEC12	89858	broad.mit.edu	37	chr19	52000207	52000207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcccactgctggccttgccGatttcttcctgcaggacctc	4	11	9	17	2	1	0	0	0	1	0	3	2	2	1	5	2	3	2	5	2	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52000207G>A	uc002pwx.1	-	7	1582	c.1526C>T	c.(1525-1527)TCG>TTG	p.S509L	SIGLEC12_uc002pww.1_Missense_Mutation_p.S391L|SIGLEC12_uc010eoy.1_Missense_Mutation_p.S236L	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	509	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		TGGCCTTGCCGATTTCTTCCT	0.582													56	30					0	0	1	0	0		A	52000207	A	A	52000207	3	1	89	1	0	0	0	0	1	0	0	0	14333	1059	37	1	269	1	SIGLEC12	19	52000207	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	80954	52000207	7128776	6226	60057											
SIGLEC5	8778	broad.mit.edu	37	chr19	52130481	52130481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggctgcaggaaccactcCtgtcccgaggttcgatctcc	8	8	11	14	2	1	0	0	0	1	0	5	3	3	1	4	3	2	3	4	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52130481C>T	uc002pxe.2	-	7	1442	c.1303G>A	c.(1303-1305)GGA>AGA	p.G435R		NM_003830	NP_003821	O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5 precursor	435	Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			skin(2)|breast(1)|central_nervous_system(1)	4		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		GGAACCACTCCTGTCCCGAGG	0.547													12	33					0	0	1	0	0		T	52130481	T	T	52130481	3	4	89	1	0	0	0	0	1	0	0	0	14336	690	24	4	364	4	SIGLEC5	19	52130481	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	130274	52130481	6998502	6227	60058											
FPR1	2357	broad.mit.edu	37	chr19	52249296	52249296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggccctctccagactggCgggaagggcgtggatcagcc	7	5	16	13	2	2	1	1	0	1	1	3	3	2	3	3	5	1	0	3	5	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52249296C>T	uc002pxq.2	-	2	1047	c.952G>A	c.(952-954)GCC>ACC	p.A318T		NM_002029	NP_002020	P21462	FPR1_HUMAN	formyl peptide receptor 1	318	Cytoplasmic (Potential).				activation of MAPK activity|cellular component movement|chemotaxis|G-protein signaling, coupled to cAMP nucleotide second messenger|nitric oxide mediated signal transduction	endosome|integral to membrane|plasma membrane	N-formyl peptide receptor activity			ovary(1)|lung(1)|skin(1)	3		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00106)|OV - Ovarian serous cystadenocarcinoma(262;0.018)	Nedocromil(DB00716)	TCCAGACTGGCGGGAAGGGCG	0.562													44	81					0	0	1	0	0		T	52249296	T	T	52249296	3	4	89	1	0	0	0	0	1	0	0	0	6052	768	27	1	104	1	FPR1	19	52249296	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	118815	52249296	6879687	6228	60059											
FPR1	2357	broad.mit.edu	37	chr19	52250104	52250104	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atccggaatccagccacccaGatcacaagcccgttgcccag	11	5	8	17	2	1	1	1	0	0	1	3	2	3	2	6	1	3	1	6	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52250104G>A	uc002pxq.2	-	2	239	c.144C>T	c.(142-144)ATC>ATT	p.I48I		NM_002029	NP_002020	P21462	FPR1_HUMAN	formyl peptide receptor 1	48	Helical; Name=1; (Potential).				activation of MAPK activity|cellular component movement|chemotaxis|G-protein signaling, coupled to cAMP nucleotide second messenger|nitric oxide mediated signal transduction	endosome|integral to membrane|plasma membrane	N-formyl peptide receptor activity			ovary(1)|lung(1)|skin(1)	3		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00106)|OV - Ovarian serous cystadenocarcinoma(262;0.018)	Nedocromil(DB00716)	CAGCCACCCAGATCACAAGCC	0.522													58	21					0	0	1	0	0		A	52250104	A	A	52250104	2	1	89	1	0	0	0	0	0	0	0	1	6052	932	33	4		4	FPR1	19	52250104	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	808	52250104	6878879	6229	60060											
ZNF577	84765	broad.mit.edu	37	chr19	52376895	52376895	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttgatatggaggcatgaTctcccatatccaccaaatgc	11	10	8	12	1	1	2	0	2	1	0	3	3	2	3	3	2	1	2	3	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52376895T>C	uc010yde.1	-	7	739	c.348A>G	c.(346-348)AGA>AGG	p.R116R	ZNF577_uc010ydd.1_Intron|ZNF577_uc002pxx.3_Intron|ZNF577_uc002pxv.2_Silent_p.R109R|ZNF577_uc002pxw.2_Intron	NM_032679	NP_116068	Q9BSK1	ZN577_HUMAN	zinc finger protein 577 isoform a	116					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		GGAGGCATGATCTCCCATATC	0.388													43	28					0	0	1	0	0		C	52376895	C	C	52376895	2	2	89	1	0	0	0	0	0	0	0	1	18034	1432	50	3		3	ZNF577	19	52376895	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	126791	52376895	6752088	6230	60061											
ZNF613	79898	broad.mit.edu	37	chr19	52447723	52447723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaattcattaagcatcagcGaactcaaaacatagataaac	20	8	4	9	1	3	1	3	0	0	1	3	2	3	1	0	0	5	1	0	0	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52447723G>A	uc002pxz.1	+	6	1010	c.587G>A	c.(586-588)CGA>CAA	p.R196Q	ZNF613_uc002pya.1_Missense_Mutation_p.R160Q	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	196					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		AAGCATCAGCGAACTCAAAAC	0.418													206	97					0	0	1	0	0		A	52447723	A	A	52447723	3	1	89	1	0	0	0	0	1	0	0	0	18063	1058	37	1	601	1	ZNF613	19	52447723	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	70828	52447723	6681260	6231	60062											
ZNF432	9668	broad.mit.edu	37	chr19	52537131	52537131	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaagcctttaccacattCattacatccataaggttttt	12	15	5	9	0	1	1	1	1	0	0	2	1	2	1	3	1	3	1	3	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52537131C>A	uc002pyk.2	-	5	2119	c.1801G>T	c.(1801-1803)GAA>TAA	p.E601*		NM_014650	NP_055465	O94892	ZN432_HUMAN	zinc finger protein 432	601	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|pancreas(1)	3		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.0054)|OV - Ovarian serous cystadenocarcinoma(262;0.0182)		TTACCACATTCATTACATCCA	0.388													44	105					5.20837e-25	6.26994e-25	1	1	0		A	52537131	A	A	52537131	4	1	89	1	0	0	0	0	0	1	0	0	17931	835	29	5	161	5	ZNF432	19	52537131	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	89408	52537131	6591852	6232	60063											
ZNF841	284371	broad.mit.edu	37	chr19	52568865	52568865	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctctccagtatgaattCtccgatgccttgccagggtt	6	15	9	11	1	2	1	0	1	2	0	5	2	3	1	4	1	2	3	4	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52568865C>A	uc002pyl.1	-	5	2474	c.1922G>T	c.(1921-1923)AGA>ATA	p.R641I	ZNF841_uc010ydh.1_Missense_Mutation_p.R757I|ZNF841_uc010epk.1_Intron	NM_001136499	NP_001129971	Q6ZN19	ZN841_HUMAN	zinc finger protein 841	641	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGTATGAATTCTCCGATGCCT	0.448													19	8					6.94344e-10	7.49515e-10	1	1	0		A	52568865	A	A	52568865	3	1	89	1	0	0	0	0	1	0	0	0	18214	913	32	5	508	5	ZNF841	19	52568865	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	31734	52568865	6560118	6233	60064											
ZNF841	284371	broad.mit.edu	37	chr19	52570041	52570041	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctctccagtatgaattCtctgatgaactgcaaggtgg	9	14	10	8	0	2	3	0	3	2	0	5	3	3	3	1	2	2	3	1	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52570041C>A	uc002pyl.1	-	5	1298	c.746G>T	c.(745-747)AGA>ATA	p.R249I	ZNF841_uc010ydh.1_Missense_Mutation_p.R365I|ZNF841_uc010epk.1_Missense_Mutation_p.R249I	NM_001136499	NP_001129971	Q6ZN19	ZN841_HUMAN	zinc finger protein 841	249	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGTATGAATTCTCTGATGAAC	0.413													13	22					3.27435e-08	3.46512e-08	1	1	0		A	52570041	A	A	52570041	3	1	89	1	0	0	0	0	1	0	0	0	18214	913	32	5	1684	5	ZNF841	19	52570041	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1176	52570041	6558942	6234	60065											
ZNF616	90317	broad.mit.edu	37	chr19	52618189	52618189	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcattacatttataaggtTttttgccagaatgaattctt	12	18	5	6	0	2	2	1	1	1	1	2	2	2	2	1	1	2	1	1	1	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52618189T>G	uc002pym.2	-	4	2511	c.2228A>C	c.(2227-2229)AAA>ACA	p.K743T	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	743					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		TTTATAAGGTTTTTTGCCAGA	0.393													97	43					0	0	1	0	0		G	52618189	G	G	52618189	3	3	89	1	0	0	0	0	1	0	0	0	18066	1841	64	5	121	5	ZNF616	19	52618189	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	48148	52618189	6510794	6235	60066											
ZNF616	90317	broad.mit.edu	37	chr19	52619990	52619990	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccagacgtgactcaaagtTtgatgtaagctggttttcaa	12	12	10	7	1	2	3	2	2	0	1	2	3	2	3	1	1	2	4	1	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52619990T>G	uc002pym.2	-	4	710	c.427A>C	c.(427-429)AAC>CAC	p.N143H	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	143					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		GACTCAAAGTTTGATGTAAGC	0.383													115	60					0	0	1	0	0		G	52619990	G	G	52619990	3	3	89	1	0	0	0	0	1	0	0	0	18066	1841	64	5	1922	5	ZNF616	19	52619990	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1801	52619990	6508993	6236	60067											
PPP2R1A	5518	broad.mit.edu	37	chr19	52716217	52716217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctccctaggactcggtgCggctgctggcggtggaggcg	3	8	17	13	4	1	0	0	0	1	0	3	2	1	2	2	7	2	2	2	7	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52716217C>T	uc002pyp.2	+	6	820	c.661C>T	c.(661-663)CGG>TGG	p.R221W	PPP2R1A_uc010ydk.1_Missense_Mutation_p.R166W|PPP2R1A_uc010epm.1_Missense_Mutation_p.R261W|PPP2R1A_uc002pyq.2_Missense_Mutation_p.R42W	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	221	PP2A subunit B binding.|SV40 small T antigen binding.|HEAT 6.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		GGACTCGGTGCGGCTGCTGGC	0.642			Mis		clear cell ovarian carcinoma								58	21					0	0	1	0	0		T	52716217	T	T	52716217	3	4	89	1	0	0	0	0	1	0	0	0	12404	759	27	1	683	1	PPP2R1A	19	52716217	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	96227	52716217	6412766	6237	60068											
ZNF766	90321	broad.mit.edu	37	chr19	52785394	52785394	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcagggacgtggccataGaattctctcaggaggagtgg	10	9	14	8	1	3	1	2	0	1	1	4	4	3	4	1	5	0	0	1	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52785394G>T	uc002pyr.1	+	2	92	c.49G>T	c.(49-51)GAA>TAA	p.E17*	ZNF766_uc002pys.1_Nonsense_Mutation_p.E17*|ZNF766_uc002pyt.1_Nonsense_Mutation_p.E32*	NM_001010851	NP_001010851	Q5HY98	ZN766_HUMAN	zinc finger protein 766	17	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00236)|OV - Ovarian serous cystadenocarcinoma(262;0.00871)		CGTGGCCATAGAATTCTCTCA	0.453													162	90					4.48428e-77	5.60158e-77	1	1	0		T	52785394	T	T	52785394	4	4	89	1	0	0	0	0	0	1	0	0	18165	943	33	5	55	5	ZNF766	19	52785394	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	69177	52785394	6343589	6238	60069											
ZNF480	147657	broad.mit.edu	37	chr19	52825331	52825331	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaattcaaactttgcacgAcatcaaagaattcataccag	17	10	4	10	1	3	1	3	0	0	1	3	2	3	1	1	0	4	1	1	0	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52825331A>G	uc010ydl.1	+	5	898	c.828A>G	c.(826-828)CGA>CGG	p.R276R	ZNF480_uc002pyv.2_Silent_p.R199R|ZNF480_uc010ydm.1_Silent_p.R233R|ZNF480_uc010epn.2_Silent_p.R107R|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	276	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		ACTTTGCACGACATCAAAGAA	0.353													35	15					0	0	1	0	0		G	52825331	G	G	52825331	2	3	89	1	0	0	0	0	0	0	0	1	17960	262	10	3		3	ZNF480	19	52825331	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	39937	52825331	6303652	6239	60070											
ZNF610	162963	broad.mit.edu	37	chr19	52856965	52856965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattcatggacgtggccatcGaattctctcaggaggagtgg	9	10	13	9	2	3	0	2	0	1	0	5	4	3	3	1	5	0	0	1	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:52856965G>A	uc002pyx.3	+	4	500	c.94G>A	c.(94-96)GAA>AAA	p.E32K	ZNF610_uc002pyy.3_Missense_Mutation_p.E32K|ZNF610_uc002pyz.3_Missense_Mutation_p.E32K|ZNF610_uc002pza.2_Missense_Mutation_p.E32K	NM_001161426	NP_001154898	Q8N9Z0	ZN610_HUMAN	zinc finger protein 610 isoform a	32	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3				OV - Ovarian serous cystadenocarcinoma(262;0.00396)|GBM - Glioblastoma multiforme(134;0.00434)		CGTGGCCATCGAATTCTCTCA	0.438													82	26					0	0	1	0	0		A	52856965	A	A	52856965	3	1	89	1	0	0	0	0	1	0	0	0	18061	1059	37	1	100	1	ZNF610	19	52856965	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	31634	52856965	6272018	6240	60071											
ZNF578	147660	broad.mit.edu	37	chr19	53013860	53013860	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgatgaaggaggtcttgTcaacagggcaaggcaataca	14	7	13	7	0	2	2	1	2	1	0	2	3	2	3	0	4	2	3	0	4	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53013860T>C	uc002pzp.3	+	6	470	c.226T>C	c.(226-228)TCA>CCA	p.S76P		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	Error:Variant_position_missing_in_Q96N58_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		GGAGGTCTTGTCAACAGGGCA	0.383													111	73					0	0	1	0	0		C	53013860	C	C	53013860	3	2	89	1	0	0	0	0	1	0	0	0	18035	1667	58	3	236	3	ZNF578	19	53013860	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	156895	53013860	6115123	6241	60072											
ZNF578	147660	broad.mit.edu	37	chr19	53014974	53014974	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagccttgcacgtcatcataGacttcatactggagagaaat	14	10	8	9	1	3	2	3	0	0	2	3	4	3	3	1	1	3	1	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53014974G>C	uc002pzp.3	+	6	1584	c.1340G>C	c.(1339-1341)AGA>ACA	p.R447T		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	222	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		CGTCATCATAGACTTCATACT	0.383													65	26					0	0	1	0	0		C	53014974	C	C	53014974	3	2	89	1	0	0	0	0	1	0	0	0	18035	942	33	5	1350	5	ZNF578	19	53014974	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1114	53014974	6114009	6242	60073											
ZNF701	55762	broad.mit.edu	37	chr19	53086082	53086082	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggactttcatcagaagcgatAccttgcatgccatagatgtc	11	11	9	10	1	2	2	2	0	0	2	3	4	2	3	2	1	4	1	2	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53086082A>C	uc002pzs.1	+	4	897	c.770A>C	c.(769-771)TAC>TCC	p.Y257S	ZNF701_uc010ydn.1_Missense_Mutation_p.Y323S	NM_018260	NP_060730	Q9NV72	ZN701_HUMAN	zinc finger protein 701	257					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0105)|GBM - Glioblastoma multiforme(134;0.0402)		CAGAAGCGATACCTTGCATGC	0.403													28	52					0	0	1	0	0		C	53086082	C	C	53086082	3	2	89	1	0	0	0	0	1	0	0	0	18130	391	14	5	982	5	ZNF701	19	53086082	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	71108	53086082	6042901	6243	60074											
ZNF701	55762	broad.mit.edu	37	chr19	53086702	53086702	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagacttcatactggaaagAaatcttagaagtgtaaattt	17	13	7	4	0	2	3	1	0	1	3	2	4	2	4	0	1	1	1	0	1	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53086702A>C	uc002pzs.1	+	4	1517	c.1390A>C	c.(1390-1392)AAA>CAA	p.K464Q	ZNF701_uc010ydn.1_Missense_Mutation_p.K530Q	NM_018260	NP_060730	Q9NV72	ZN701_HUMAN	zinc finger protein 701	464					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0105)|GBM - Glioblastoma multiforme(134;0.0402)		TACTGGAAAGAAATCTTAGAA	0.348													29	13					0	0	1	0	0		C	53086702	C	C	53086702	3	2	89	1	0	0	0	0	1	0	0	0	18130	247	9	5	1602	5	ZNF701	19	53086702	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	620	53086702	6042281	6244	60075											
ZNF816A	125893	broad.mit.edu	37	chr19	53453915	53453915	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggtcttgccacactcattAcacttgtaaggtttctctcc	9	14	6	12	0	3	0	1	0	2	0	5	0	4	0	2	2	2	2	2	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53453915A>G	uc002qal.1	-	5	1414	c.1113T>C	c.(1111-1113)TGT>TGC	p.C371C	ZNF321_uc010eqj.2_Intron|ZNF321_uc002qak.1_Intron|ZNF816A_uc002qam.1_Silent_p.C355C	NM_001031665	NP_001026835	Q0VGE8	ZN816_HUMAN	zinc finger protein 816A	371	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0313)		CACACTCATTACACTTGTAAG	0.393													74	154					0	0	1	0	0		G	53453915	G	G	53453915	2	3	89	1	0	0	0	0	0	0	0	1	18202	389	14	3		3	ZNF816A	19	53453915	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	367213	53453915	5675068	6245	60076											
ZNF816A	125893	broad.mit.edu	37	chr19	53454606	53454606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcatgcctgtgatcacttCggtctgtactaccagtcaac	9	11	8	13	1	3	1	2	1	1	0	4	1	3	1	2	1	5	2	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53454606C>T	uc002qal.1	-	5	723	c.422G>A	c.(421-423)CGA>CAA	p.R141Q	ZNF321_uc010eqj.2_Intron|ZNF321_uc002qak.1_Intron|ZNF816A_uc002qam.1_Missense_Mutation_p.R125Q	NM_001031665	NP_001026835	Q0VGE8	ZN816_HUMAN	zinc finger protein 816A	141					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0313)		GTGATCACTTCGGTCTGTACT	0.408													135	206					0	0	1	0	0		T	53454606	T	T	53454606	3	4	89	1	0	0	0	0	1	0	0	0	18202	884	31	1	1537	1	ZNF816A	19	53454606	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	691	53454606	5674377	6246	60077											
ZNF347	84671	broad.mit.edu	37	chr19	53644231	53644231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttctctccagtatgaattCgctgatgccttgaaaggtat	9	15	9	8	1	1	3	0	3	1	0	4	3	2	3	2	1	1	4	2	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53644231C>T	uc002qbb.1	-	5	1919	c.1850G>A	c.(1849-1851)CGA>CAA	p.R617Q	ZNF347_uc010eql.1_Missense_Mutation_p.R618Q|ZNF347_uc002qbc.1_Missense_Mutation_p.R618Q	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	617	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		AGTATGAATTCGCTGATGCCT	0.393													110	51					0	0	1	0	0		T	53644231	T	T	53644231	3	4	89	1	0	0	0	0	1	0	0	0	17886	884	31	1	673	1	ZNF347	19	53644231	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	189625	53644231	5484752	6247	60078											
ZNF347	84671	broad.mit.edu	37	chr19	53645327	53645327	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaattatttgctttttGcccctgtgtgagtaataaag	9	16	7	9	0	0	1	0	1	0	0	1	1	1	1	4	0	2	2	4	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53645327G>A	uc002qbb.1	-	5	823	c.754C>T	c.(754-756)CAA>TAA	p.Q252*	ZNF347_uc010eql.1_Nonsense_Mutation_p.Q253*|ZNF347_uc002qbc.1_Nonsense_Mutation_p.Q253*	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	252					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		TTTGCTTTTTGCCCCTGTGTG	0.368													104	48					0	0	1	0	0		A	53645327	A	A	53645327	4	1	89	1	0	0	0	0	0	1	0	0	17886	1328	46	2	1769	2	ZNF347	19	53645327	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1096	53645327	5483656	6248	60079											
ZNF665	79788	broad.mit.edu	37	chr19	53668755	53668755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgggtagtcaggcttgagcGaacactaaaggctttgccac	11	9	12	9	1	1	1	1	1	0	0	1	2	1	1	1	3	3	3	1	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53668755G>A	uc010eqm.1	-	4	1088	c.988C>T	c.(988-990)CGC>TGC	p.R330C		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	265	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		AGGCTTGAGCGAACACTAAAG	0.428													93	30					0	0	1	0	0		A	53668755	A	A	53668755	3	1	89	1	0	0	0	0	1	0	0	0	18098	1058	37	1	1052	1	ZNF665	19	53668755	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23428	53668755	5460228	6249	60080											
ZNF665	79788	broad.mit.edu	37	chr19	53668977	53668977	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaggtttctctccagtatGaattctctgatgacctgcaa	10	14	8	9	0	2	3	0	3	2	0	5	3	3	3	2	1	1	4	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53668977G>T	uc010eqm.1	-	4	866	c.766C>A	c.(766-768)CAT>AAT	p.H256N		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	191	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		TCTCCAGTATGAATTCTCTGA	0.398													50	99					5.34276e-22	6.35699e-22	1	1	0		T	53668977	T	T	53668977	3	4	89	1	0	0	0	0	1	0	0	0	18098	1290	45	5	1274	5	ZNF665	19	53668977	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	222	53668977	5460006	6250	60081											
VN1R2	317701	broad.mit.edu	37	chr19	53762651	53762651	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacgtttatttagctctcttCgataattccagttggtggct	7	18	8	8	2	1	0	0	0	1	0	4	1	2	0	1	2	2	4	1	2	4	9	rs151062632	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53762651C>T	uc002qbi.2	+	1	1107	c.1023C>T	c.(1021-1023)TTC>TTT	p.F341F		NM_173856	NP_776255	Q8NFZ6	VN1R2_HUMAN	vomeronasal 1 receptor 2	341	Extracellular (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0				GBM - Glioblastoma multiforme(134;0.00301)		TAGCTCTCTTCGATAATTCCA	0.463													68	125					0	0	1	0	0		T	53762651	T	T	53762651	2	4	89	1	0	0	0	0	0	0	0	1	17205	883	31	1		1	VN1R2	19	53762651	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	93674	53762651	5366332	6251	60082											
BIRC8	112401	broad.mit.edu	37	chr19	53793036	53793036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaggaataaaaacaacagCgatatgtctgtccatgcaga	18	7	8	8	1	1	1	0	0	1	1	2	3	2	2	1	1	4	1	1	1	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53793036C>T	uc002qbk.2	-	1	1840	c.592G>A	c.(592-594)GCT>ACT	p.A198T		NM_033341	NP_203127	Q96P09	BIRC8_HUMAN	baculoviral IAP repeat-containing 8	198	RING-type.				apoptosis		zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(134;0.00304)		AAAACAACAGCGATATGTCTG	0.443													91	37					0	0	1	0	0		T	53793036	T	T	53793036	3	4	89	1	0	0	0	0	1	0	0	0	1441	768	27	1	122	1	BIRC8	19	53793036	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30385	53793036	5335947	6252	60083											
ZNF761	388561	broad.mit.edu	37	chr19	53958094	53958094	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagaaatggccatgaagcAcccatgacaaaaatcaaaaa	22	4	7	8	0	1	3	1	2	0	1	1	4	1	3	2	1	1	1	2	1	7	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53958094A>G	uc010eqp.2	+	7	791	c.333A>G	c.(331-333)GCA>GCG	p.A111A	ZNF761_uc010ydy.1_Silent_p.A57A|ZNF761_uc002qbt.1_Silent_p.A57A	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	111					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		GCCATGAAGCACCCATGACAA	0.353													85	59					0	0	1	0	0		G	53958094	G	G	53958094	2	3	89	1	0	0	0	0	0	0	0	1	18161	146	6	3		3	ZNF761	19	53958094	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	165058	53958094	5170889	6253	60084											
ZNF813	126017	broad.mit.edu	37	chr19	53994839	53994839	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcaagacgttcagtcgaaaTtcagcccttgtaattcataa	13	12	7	9	2	4	1	4	0	0	1	5	2	4	1	1	0	1	2	1	0	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:53994839T>G	uc002qbu.2	+	4	1481	c.1353T>G	c.(1351-1353)AAT>AAG	p.N451K	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	451	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		TCAGTCGAAATTCAGCCCTTG	0.403													51	24					0	0	1	0	0		G	53994839	G	G	53994839	3	3	89	1	0	0	0	0	1	0	0	0	18200	1490	52	5	1363	5	ZNF813	19	53994839	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	36745	53994839	5134144	6254	60085											
CACNG7	59284	broad.mit.edu	37	chr19	54444771	54444771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttacatctccagcatcaacGacgaggtcatgaacaggccc	12	8	8	13	2	3	1	2	1	1	0	4	3	3	1	2	2	4	1	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:54444771G>A	uc002qcr.1	+	4	487	c.472G>A	c.(472-474)GAC>AAC	p.D158N	CACNG7_uc010era.1_Missense_Mutation_p.D158N	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	158					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0711)		CAGCATCAACGACGAGGTCAT	0.552													40	71					0	0	1	0	0		A	54444771	A	A	54444771	3	1	89	1	0	0	0	0	1	0	0	0	2565	1058	37	1	486	1	CACNG7	19	54444771	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	449932	54444771	4684212	6255	60086											
LILRA6	79168	broad.mit.edu	37	chr19	54744915	54744915	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaacaaatctgtcgtagccGacatcagagccacactggag	14	6	10	11	2	2	2	1	0	1	2	3	4	2	3	2	1	3	1	2	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:54744915G>A	uc002qeu.1	-	5	871	c.747C>T	c.(745-747)GTC>GTT	p.V249V	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Silent_p.V249V|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Silent_p.V249V|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Silent_p.V249V|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Silent_p.V249V|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Silent_p.V249V|LILRA6_uc010yeq.1_Silent_p.V249V|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Silent_p.V110V	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	249	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TGTCGTAGCCGACATCAGAGC	0.642													52	94					0	0	1	0	0		A	54744915	A	A	54744915	2	1	89	1	0	0	0	0	0	0	0	1	8805	1045	37	1		1	LILRA6	19	54744915	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	300144	54744915	4384068	6256	60087											
LILRB5	10990	broad.mit.edu	37	chr19	54759153	54759153	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgctgggctcctcacctgcGatcaggatgtccagggggtc	5	8	14	14	2	2	0	2	0	0	0	5	2	4	1	4	4	1	2	4	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:54759153G>A	uc002qex.2	-	5	1059	c.948C>T	c.(946-948)ATC>ATT	p.I316I	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Silent_p.I307I|LILRB5_uc002qey.2_Silent_p.I316I|LILRB5_uc002qez.2_Silent_p.I216I|LILRB5_uc002qfa.1_Silent_p.I206I|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	316	Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CCTCACCTGCGATCAGGATGT	0.682													5	61					0	0	1	0	0		A	54759153	A	A	54759153	2	1	89	1	0	0	0	0	0	0	0	1	8810	1048	37	1		1	LILRB5	19	54759153	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14238	54759153	4369830	6257	60088											
LILRB5	10990	broad.mit.edu	37	chr19	54760832	54760832	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagactcacctgcctgcAcgcaggtcctggggcccaca	8	5	12	16	1	1	1	1	0	0	1	2	2	2	2	4	4	2	2	4	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:54760832A>G	uc002qex.2	-	2	173	c.62T>C	c.(61-63)GTG>GCG	p.V21A	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.V21A|LILRB5_uc002qey.2_Missense_Mutation_p.V21A|LILRB5_uc002qez.2_Missense_Mutation_p.V21A|LILRB5_uc002qfa.1_5'UTR|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	21					cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		ACCTGCCTGCACGCAGGTCCT	0.647													15	49					0	0	1	0	0		G	54760832	G	G	54760832	3	3	89	1	0	0	0	0	1	0	0	0	8810	159	6	3	1761	3	LILRB5	19	54760832	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1679	54760832	4368151	6258	60089											
LILRB2	10288	broad.mit.edu	37	chr19	54782124	54782124	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcccccacctgagaccacGagctccaggggctcactggg	8	4	13	16	1	1	1	1	1	0	1	2	3	2	1	5	4	1	2	5	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:54782124G>A	uc002qfb.2	-	7	1514	c.1248C>T	c.(1246-1248)CTC>CTT	p.L416L	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Silent_p.L416L|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Silent_p.L416L|LILRB2_uc010yet.1_Silent_p.L300L|LILRB2_uc010yeu.1_RNA	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	416	Extracellular (Potential).|Ig-like C2-type 4.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CTGAGACCACGAGCTCCAGGG	0.652													71	33					0	0	1	0	0		A	54782124	A	A	54782124	2	1	89	1	0	0	0	0	0	0	0	1	8807	1045	37	1		1	LILRB2	19	54782124	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21292	54782124	4346859	6259	60090											
LENG8	114823	broad.mit.edu	37	chr19	54962550	54962550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacgtgggtgatcaacgtaGcacagattggttagtgaggc	11	9	14	7	2	1	3	1	2	0	1	1	3	1	3	0	3	3	3	0	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:54962550G>A	uc002qfv.1	+	2	173	c.29G>A	c.(28-30)AGC>AAC	p.S10N	LENG8_uc002qfw.2_Missense_Mutation_p.S10N			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	10							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		GATCAACGTAGCACAGATTGG	0.582													22	68					0	0	1	0	0		A	54962550	A	A	54962550	3	1	89	1	0	0	0	0	1	0	0	0	8740	971	34	2	31	2	LENG8	19	54962550	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	180426	54962550	4166433	6260	60091											
LILRB1	10859	broad.mit.edu	37	chr19	55146726	55146726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggtccagcccagctgccGatgcccaggaagaaaacctc	11	4	10	16	1	0	1	0	0	0	1	2	3	1	2	6	2	5	1	6	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:55146726G>A	uc002qgj.2	+	13	1916	c.1576G>A	c.(1576-1578)GAT>AAT	p.D526N	LILRB1_uc010erp.1_Missense_Mutation_p.D141N|LILRB1_uc002qgl.2_Missense_Mutation_p.D526N|LILRB1_uc002qgk.2_Missense_Mutation_p.D527N|LILRB1_uc002qgm.2_Missense_Mutation_p.D527N|LILRB1_uc010erq.2_Missense_Mutation_p.D510N|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	526	Cytoplasmic (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		CCCAGCTGCCGATGCCCAGGA	0.607										HNSCC(37;0.09)			71	32					0	0	1	0	0		A	55146726	A	A	55146726	3	1	89	1	0	0	0	0	1	0	0	0	8806	1058	37	1	1621	1	LILRB1	19	55146726	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	184176	55146726	3982257	6261	60092											
LILRB4	11006	broad.mit.edu	37	chr19	55176585	55176585	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgttctaacccagcaggCcctgaggaccagcccctcat	8	7	8	18	0	2	1	1	1	1	0	2	2	2	2	6	2	3	2	6	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:55176585C>T	uc002qgp.2	+	6	1073	c.711C>T	c.(709-711)GGC>GGT	p.G237G	LILRB4_uc002qgq.2_Silent_p.G237G|LILRB4_uc010ers.1_3'UTR|LILRB4_uc002qgr.2_Silent_p.G278G|LILRB4_uc010ert.2_Silent_p.G278G|LILRB4_uc010eru.2_Silent_p.G266G	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	237	Extracellular (Potential).					integral to membrane|plasma membrane	antigen binding|receptor activity			ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)		ACCCAGCAGGCCCTGAGGACC	0.488													9	6					0	0	1	0	0		T	55176585	T	T	55176585	2	4	89	1	0	0	0	0	0	0	0	1	8809	726	26	2		2	LILRB4	19	55176585	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	29859	55176585	3952398	6262	60093											
KIR3DL1	3811	broad.mit.edu	37	chr19	55331352	55331352	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtctccaaggccaatttCtccatcggtcccatgatgct	7	11	10	13	1	2	1	0	1	2	0	6	1	3	1	4	4	1	1	4	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:55331352C>A	uc002qhk.3	+	4	603	c.540C>A	c.(538-540)TTC>TTA	p.F180L	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_Missense_Mutation_p.F122L|KIR3DL1_uc010esf.2_Missense_Mutation_p.F85L|KIR3DL1_uc010yfo.1_Missense_Mutation_p.F122L|KIR3DL1_uc002qhl.3_Missense_Mutation_p.F180L	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	180	Extracellular (Potential).|Ig-like C2-type 2.				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		AGGCCAATTTCTCCATCGGTC	0.527													126	238					7.87546e-53	9.81079e-53	1	1	0		A	55331352	A	A	55331352	3	1	89	1	0	0	0	0	1	0	0	0	8336	912	32	5	554	5	KIR3DL1	19	55331352	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	154767	55331352	3797631	6263	60094											
KIR3DL1	3811	broad.mit.edu	37	chr19	55341405	55341405	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgtaatggaccaagaGcctgcagggaacagaacagc	13	5	13	10	0	0	2	0	0	0	2	0	4	0	4	2	2	6	4	2	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:55341405G>A	uc002qhk.3	+	8	1191	c.1128G>A	c.(1126-1128)GAG>GAA	p.E376E	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_Silent_p.E301E|KIR3DL1_uc010esf.2_Silent_p.E281E|KIR3DL1_uc010yfo.1_Silent_p.E318E|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_5'Flank|KIR2DS4_uc002qhm.1_5'Flank	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	376	Cytoplasmic (Potential).				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		TGGACCAAGAGCCTGCAGGGA	0.527													130	70					0	0	1	0	0		A	55341405	A	A	55341405	2	1	89	1	0	0	0	0	0	0	0	1	8336	962	34	2		2	KIR3DL1	19	55341405	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	10053	55341405	3787578	6264	60095											
KIR3DL2	3812	broad.mit.edu	37	chr19	55363593	55363593	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagaagccacgttcccatcTtccacggcagaatattccag	12	8	7	14	2	1	2	0	0	1	2	4	2	4	2	4	1	1	2	4	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:55363593T>G	uc002qho.3	+	3	244	c.211T>G	c.(211-213)TTC>GTC	p.F71V	KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc002qhn.1_Intron|KIR3DL2_uc010esh.2_Missense_Mutation_p.F71V	NM_006737	NP_006728	P43630	KI3L2_HUMAN	killer cell immunoglobulin-like receptor, three	71	Extracellular (Potential).|Ig-like C2-type 1.				cellular defense response|regulation of immune response	integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0192)		CGTTCCCATCTTCCACGGCAG	0.542													22	42					0	0	1	0	0		G	55363593	G	G	55363593	3	3	89	1	0	0	0	0	1	0	0	0	8337	1609	56	5	221	5	KIR3DL2	19	55363593	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	22188	55363593	3765390	6265	60096											
PPP1R12C	54776	broad.mit.edu	37	chr19	55607700	55607700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaagcttctttttggttccGaagctgcaaggagggaaggg	9	10	16	6	1	1	0	0	0	1	0	2	4	2	3	1	5	3	4	1	5	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:55607700G>A	uc002qix.2	-	7	971	c.955C>T	c.(955-957)CGG>TGG	p.R319W	PPP1R12C_uc010yfs.1_Missense_Mutation_p.R245W|PPP1R12C_uc002qiy.2_Missense_Mutation_p.R319W	NM_017607	NP_060077	Q9BZL4	PP12C_HUMAN	protein phosphatase 1, regulatory subunit 12C	319	Potential.					cytoplasm				ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		TTTTGGTTCCGAAGCTGCAAG	0.637													59	94					0	0	1	0	0		A	55607700	A	A	55607700	3	1	89	1	0	0	0	0	1	0	0	0	12378	1057	37	1	1457	1	PPP1R12C	19	55607700	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	244107	55607700	3521283	6266	60097											
TNNT1	7138	broad.mit.edu	37	chr19	55652593	55652593	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagctcctcttcctccttCttccgctgctcgaaatgtac	6	13	5	17	2	2	0	0	0	2	0	7	1	6	0	5	0	3	4	5	0	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:55652593C>A	uc002qjb.3	-	8	359	c.270G>T	c.(268-270)AAG>AAT	p.K90N	TNNT1_uc002qiz.3_Missense_Mutation_p.K20N|TNNT1_uc002qja.3_Missense_Mutation_p.K20N|TNNT1_uc002qjc.3_Missense_Mutation_p.K90N|TNNT1_uc002qje.3_Missense_Mutation_p.K79N|TNNT1_uc002qjd.3_Missense_Mutation_p.K79N|TNNT1_uc002qjf.2_Missense_Mutation_p.K86N	NM_003283	NP_003274	P13805	TNNT1_HUMAN	troponin T1, skeletal, slow isoform a	90					muscle filament sliding|negative regulation of muscle contraction	cytosol|troponin complex	tropomyosin binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.047)		CTTCCTCCTTCTTCCGCTGCT	0.592											OREG0025677	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	54					0.000184323	0.000188324	1	1	0		A	55652593	A	A	55652593	3	1	89	1	0	0	0	0	1	0	0	0	16355	912	32	5	594	5	TNNT1	19	55652593	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44893	55652593	3476390	6267	60098											
SYT5	6861	broad.mit.edu	37	chr19	55686654	55686654	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcattgcgagagaagcggtcGaagtcgtacaccgccatgac	11	7	12	11	5	1	2	1	1	0	1	3	5	1	2	2	1	3	1	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:55686654G>A	uc002qjm.1	-	5	1654	c.594C>T	c.(592-594)TTC>TTT	p.F198F	SYT5_uc002qjp.2_Silent_p.F195F|SYT5_uc002qjn.1_Silent_p.F198F|SYT5_uc002qjo.1_Silent_p.F198F	NM_003180	NP_003171	O00445	SYT5_HUMAN	synaptotagmin V	198	Cytoplasmic (Potential).|C2 1.	Calcium 1; via carbonyl oxygen (By similarity).			energy reserve metabolic process|regulation of insulin secretion|synaptic transmission	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane	metal ion binding|transporter activity				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		AGAAGCGGTCGAAGTCGTACA	0.652													15	6					0	0	1	0	0		A	55686654	A	A	55686654	2	1	89	1	0	0	0	0	0	0	0	1	15502	1049	37	1		1	SYT5	19	55686654	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	34061	55686654	3442329	6268	60099											
BRSK1	84446	broad.mit.edu	37	chr19	55805594	55805594	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctcaggtccccccattaTgcgtgtccagaggtgattaa	8	11	9	13	1	1	2	1	1	0	1	4	2	4	2	5	2	1	0	5	2	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:55805594T>G	uc002qkg.2	+	6	865	c.588T>G	c.(586-588)TAT>TAG	p.Y196*	BRSK1_uc002qkf.2_Nonsense_Mutation_p.Y212*	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	196	Protein kinase.				establishment of cell polarity|G2/M transition DNA damage checkpoint|neuron differentiation|response to UV	cell junction|cytoplasm|nucleus	magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|lung(1)|breast(1)|skin(1)	6		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0474)		CCCCCCATTATGCGTGTCCAG	0.617													28	55					0	0	1	0	0		G	55805594	G	G	55805594	4	3	89	1	0	0	0	0	0	1	0	0	1526	1471	51	5	610	5	BRSK1	19	55805594	Nonsense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	118940	55805594	3323389	6269	60100											
TMEM150B	284417	broad.mit.edu	37	chr19	55828275	55828275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgcagccagaagtagacGttacccaagatgaaggcaag	15	5	12	9	1	0	4	0	1	0	3	0	4	0	4	2	1	4	5	2	1	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:55828275G>A	uc010esw.1	-	7	557	c.384C>T	c.(382-384)AAC>AAT	p.N128N	TMEM150B_uc010yfu.1_Silent_p.N128N|TMEM150B_uc010yfv.1_RNA|TMEM150B_uc010yfw.1_RNA	NM_001085488	NP_001078957	A6NC51	T150B_HUMAN	transmembrane protein 150B precursor	128	Helical; (Potential).					integral to membrane					0						AGAAGTAGACGTTACCCAAGA	0.632													6	16					0	0	1	0	0		A	55828275	A	A	55828275	2	1	89	1	0	0	0	0	0	0	0	1	16093	1136	40	1		1	TMEM150B	19	55828275	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	22681	55828275	3300708	6270	60101											
NLRP9	338321	broad.mit.edu	37	chr19	56244828	56244828	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcatggtttctttgtaGaaatgctcagggacgtgaag	9	16	11	5	1	3	2	2	1	1	1	3	3	3	3	0	2	1	3	0	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:56244828G>T	uc002qly.2	-	2	397	c.369C>A	c.(367-369)TTC>TTA	p.F123L		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	123						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		TTTCTTTGTAGAAATGCTCAG	0.408													74	26					1.79293e-35	2.21234e-35	1	1	0		T	56244828	T	T	56244828	3	4	89	1	0	0	0	0	1	0	0	0	10503	933	33	5	2638	5	NLRP9	19	56244828	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	416553	56244828	2884155	6271	60102											
NLRP11	204801	broad.mit.edu	37	chr19	56321612	56321612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacatctgacgaaacgtcacGaaaaaatttataatgaaatt	19	10	5	7	3	2	2	1	2	1	0	2	4	2	2	0	0	1	0	0	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:56321612G>A	uc010ygf.1	-	5	1075	c.364C>T	c.(364-366)CGT>TGT	p.R122C	NLRP11_uc002qlz.2_Missense_Mutation_p.R23C|NLRP11_uc002qmb.2_Missense_Mutation_p.R23C|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	122							ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		GAAACGTCACGAAAAAATTTA	0.383													17	38					0	0	1	0	0		A	56321612	A	A	56321612	3	1	89	1	0	0	0	0	1	0	0	0	10492	1058	37	1	2769	1	NLRP11	19	56321612	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	76784	56321612	2807371	6272	60103											
NLRP13	126204	broad.mit.edu	37	chr19	56407479	56407479	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagttgtcagattgcatttCgccaacctaggggcgggtgg	7	10	15	9	2	1	1	1	0	0	1	2	1	1	1	2	4	2	3	2	4	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:56407479C>T	uc010ygg.1	-	11	2989	c.2964G>A	c.(2962-2964)GCG>GCA	p.A988A		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	988							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		GATTGCATTTCGCCAACCTAG	0.458													69	39					0	0	1	0	0		T	56407479	T	T	56407479	2	4	89	1	0	0	0	0	0	0	0	1	10494	871	31	1		1	NLRP13	19	56407479	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	85867	56407479	2721504	6273	60104											
NLRP13	126204	broad.mit.edu	37	chr19	56423490	56423490	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagtaacatcttcatctCttgtggctttgtggaatggg	7	16	11	7	0	3	0	1	0	2	0	4	1	3	1	0	3	2	3	0	3	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:56423490C>A	uc010ygg.1	-	5	1718	c.1693G>T	c.(1693-1695)GAG>TAG	p.E565*		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	565							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		ATCTTCATCTCTTGTGGCTTT	0.433													90	46					2.75442e-36	3.40335e-36	1	1	0		A	56423490	A	A	56423490	4	1	89	1	0	0	0	0	0	1	0	0	10494	922	32	5	1464	5	NLRP13	19	56423490	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	16011	56423490	2705493	6274	60105											
NLRP8	126205	broad.mit.edu	37	chr19	56459552	56459552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatagagcgtttccctggacGacgcgcttgggatgtgactt	7	11	14	9	4	0	2	0	1	0	1	1	6	1	4	1	2	1	2	1	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:56459552G>A	uc002qmh.2	+	1	355	c.284G>A	c.(283-285)CGA>CAA	p.R95Q	NLRP8_uc010etg.2_Missense_Mutation_p.R95Q	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	95	DAPIN.					cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		TTCCCTGGACGACGCGCTTGG	0.507													26	39					0	0	1	0	0		A	56459552	A	A	56459552	3	1	89	1	0	0	0	0	1	0	0	0	10502	1058	37	1	286	1	NLRP8	19	56459552	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	36062	56459552	2669431	6275	60106											
NLRP8	126205	broad.mit.edu	37	chr19	56467001	56467001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgttctctgtttcccacaaaGactcaaaaattttcatgtgt	11	16	5	9	0	3	1	2	0	1	1	5	1	4	1	1	0	0	2	1	0	3	4	rs75471108	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:56467001G>A	uc002qmh.2	+	3	1648	c.1577G>A	c.(1576-1578)AGA>AAA	p.R526K	NLRP8_uc010etg.2_Missense_Mutation_p.R526K	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	526	NACHT.					cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		TTCCCACAAAGACTCAAAAAT	0.438													127	66					0	0	1	0	0		A	56467001	A	A	56467001	3	1	89	1	0	0	0	0	1	0	0	0	10502	942	33	4	1587	4	NLRP8	19	56467001	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7449	56467001	2661982	6276	60107											
ZSCAN5B	342933	broad.mit.edu	37	chr19	56703252	56703252	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtgcagcgaccctgggcagGatctgctgctctcggcgggc	5	7	16	13	3	2	0	0	0	2	0	3	2	2	1	1	4	4	4	1	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:56703252G>T	uc010ygh.1	-	2	555	c.555C>A	c.(553-555)ATC>ATA	p.I185I		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	185					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CCCTGGGCAGGATCTGCTGCT	0.627													23	41					7.76418e-22	9.2287e-22	1	1	0		T	56703252	T	T	56703252	2	4	89	1	0	0	0	0	0	0	0	1	18264	1164	41	5		5	ZSCAN5B	19	56703252	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	236251	56703252	2425731	6277	60108											
ZNF583	147949	broad.mit.edu	37	chr19	56935142	56935142	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacctaattgtacatcagaGaattcatactggagagagac	16	10	8	7	0	2	3	2	0	0	3	2	6	2	3	1	1	3	1	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:56935142G>T	uc010ygl.1	+	5	1280	c.1115G>T	c.(1114-1116)AGA>ATA	p.R372I	ZNF583_uc002qnc.2_Missense_Mutation_p.R372I|ZNF583_uc010ygm.1_Missense_Mutation_p.R372I	NM_001159860	NP_001153332	Q96ND8	ZN583_HUMAN	zinc finger protein 583	372	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0564)		GTACATCAGAGAATTCATACT	0.433													37	74					2.05212e-20	2.42303e-20	1	1	0		T	56935142	T	T	56935142	3	4	89	1	0	0	0	0	1	0	0	0	18040	942	33	5	1129	5	ZNF583	19	56935142	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	231890	56935142	2193841	6278	60109											
ZNF667	63934	broad.mit.edu	37	chr19	56953546	56953546	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttctttccattgtgaattTtcttatgaagtaaaagggat	11	19	7	4	0	2	2	0	2	2	0	3	3	3	3	1	1	0	1	1	1	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:56953546T>G	uc002qnd.2	-	5	980	c.818A>C	c.(817-819)AAA>ACA	p.K273T	ZNF667_uc010etl.2_Missense_Mutation_p.K55T|ZNF667_uc002qne.2_Missense_Mutation_p.K273T|ZNF667_uc010etm.2_Missense_Mutation_p.K216T	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	273	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		ATTGTGAATTTTCTTATGAAG	0.343													37	69					0	0	1	0	0		G	56953546	G	G	56953546	3	3	89	1	0	0	0	0	1	0	0	0	18099	1841	64	5	1018	5	ZNF667	19	56953546	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	18404	56953546	2175437	6279	60110											
ZFP28	140612	broad.mit.edu	37	chr19	57059234	57059234	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaacaaggaaaagagccttgGacagtgaagcgaaagatgac	18	4	13	6	1	0	4	0	2	0	2	0	8	0	6	1	2	3	0	1	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57059234G>A	uc002qnj.2	+	4	557	c.486G>A	c.(484-486)TGG>TGA	p.W162*	ZFP28_uc002qni.2_Nonsense_Mutation_p.W162*|uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	162	KRAB 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		AAGAGCCTTGGACAGTGAAGC	0.502													29	58					0	0	1	0	0		A	57059234	A	A	57059234	4	1	89	1	0	0	0	0	0	1	0	0	17667	1183	41	4	500	4	ZFP28	19	57059234	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	105688	57059234	2069749	6280	60111											
ZFP28	140612	broad.mit.edu	37	chr19	57066652	57066652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcacttagctcatcatcagcGaattcatactggagagtcgt	11	12	8	10	2	5	1	5	0	0	1	6	3	5	1	0	1	3	1	0	1	3	3	rs150968564		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57066652G>A	uc002qnj.2	+	8	2569	c.2498G>A	c.(2497-2499)CGA>CAA	p.R833Q	uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	833	C2H2-type 15; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		CATCATCAGCGAATTCATACT	0.423													129	229					0	0	1	0	0		A	57066652	A	A	57066652	3	1	89	1	0	0	0	0	1	0	0	0	17667	1058	37	1	2528	1	ZFP28	19	57066652	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7418	57066652	2062331	6281	60112											
ZNF470	388566	broad.mit.edu	37	chr19	57088137	57088137	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaccaggatatttatgaaGaaaaattacccccggcaatc	17	9	6	9	1	0	2	0	1	0	1	1	3	0	3	3	2	2	1	3	2	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57088137G>T	uc002qnl.3	+	6	1016	c.340G>T	c.(340-342)GAA>TAA	p.E114*	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	114					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		TATTTATGAAGAAAAATTACC	0.338													35	49					2.47316e-13	2.76362e-13	1	1	0		T	57088137	T	T	57088137	4	4	89	1	0	0	0	0	0	1	0	0	17954	943	33	5	354	5	ZNF470	19	57088137	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21485	57088137	2040846	6282	60113											
ZNF470	388566	broad.mit.edu	37	chr19	57089047	57089047	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacttattcagcataagaGaactcatactggagagagac	16	8	10	7	0	2	3	2	0	0	3	2	7	2	4	0	2	3	1	0	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57089047G>T	uc002qnl.3	+	6	1926	c.1250G>T	c.(1249-1251)AGA>ATA	p.R417I	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	417	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		CAGCATAAGAGAACTCATACT	0.418													15	86					1.52009e-12	1.68689e-12	1	1	0		T	57089047	T	T	57089047	3	4	89	1	0	0	0	0	1	0	0	0	17954	942	33	5	1264	5	ZNF470	19	57089047	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	910	57089047	2039936	6283	60114											
ZNF470	388566	broad.mit.edu	37	chr19	57089613	57089613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaaggcattcaggcagaggGcatccttgatttgtcatcag	10	10	13	8	0	3	2	3	1	0	1	4	3	4	3	1	4	0	3	1	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57089613G>A	uc002qnl.3	+	6	2492	c.1816G>A	c.(1816-1818)GCA>ACA	p.A606T	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	606	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		CAGGCAGAGGGCATCCTTGAT	0.438													25	44					0	0	1	0	0		A	57089613	A	A	57089613	3	1	89	1	0	0	0	0	1	0	0	0	17954	1203	42	2	1830	2	ZNF470	19	57089613	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	566	57089613	2039370	6284	60115											
ZNF835	90485	broad.mit.edu	37	chr19	57175095	57175095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcatgcgtcctctggtgtCggatgagcgcggaggagaag	7	8	17	9	4	1	2	0	1	1	1	3	5	2	4	1	4	3	1	1	4	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57175095C>T	uc010ygo.1	-	2	1538	c.1538G>A	c.(1537-1539)CGA>CAA	p.R513Q	ZNF835_uc010ygn.1_Missense_Mutation_p.R491Q	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						CCTCTGGTGTCGGATGAGCGC	0.627													76	165					0	0	1	0	0		T	57175095	T	T	57175095	3	4	89	1	0	0	0	0	1	0	0	0	18211	884	31	1	143	1	ZNF835	19	57175095	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	85482	57175095	1953888	6285	60116											
ZIM2	23619	broad.mit.edu	37	chr19	57301310	57301310	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagggacagagtcctgaGcaaggaaacctagaagggag	14	4	15	8	0	0	3	0	1	0	2	1	6	1	6	2	3	3	2	2	3	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57301310G>A	uc002qnr.2	-	8	789	c.407C>T	c.(406-408)GCT>GTT	p.A136V	uc010ygp.1_RNA|uc002qnp.1_RNA|ZIM2_uc010ygq.1_5'UTR|ZIM2_uc010ygr.1_5'UTR|ZIM2_uc002qnq.2_Missense_Mutation_p.A136V|ZIM2_uc010etp.2_Missense_Mutation_p.A136V|ZIM2_uc010ygs.1_Missense_Mutation_p.A136V	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	136					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		AGAGTCCTGAGCAAGGAAACC	0.522													11	10					0	0	1	0	0		A	57301310	A	A	57301310	3	1	89	1	0	0	0	0	1	0	0	0	17709	971	34	2	1192	2	ZIM2	19	57301310	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	126215	57301310	1827673	6286	60117											
PEG3	5178	broad.mit.edu	37	chr19	57329140	57329140	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgcttgggtaggcacttCtcttggatcttgatgagtgg	5	15	15	6	0	2	2	0	2	2	0	3	3	2	3	0	5	1	3	0	5	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57329140C>A	uc002qnu.2	-	6	1187	c.836G>T	c.(835-837)AGA>ATA	p.R279I	ZIM2_uc010ygq.1_5'UTR|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Intron|PEG3_uc002qnv.2_Missense_Mutation_p.R279I|PEG3_uc002qnw.2_Missense_Mutation_p.R155I|PEG3_uc002qnx.2_Missense_Mutation_p.R153I|PEG3_uc010etr.2_Missense_Mutation_p.R279I	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	279					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GTAGGCACTTCTCTTGGATCT	0.517													28	9					7.26314e-15	8.22614e-15	1	1	0		A	57329140	A	A	57329140	3	1	89	1	0	0	0	0	1	0	0	0	11739	913	32	5	3938	5	PEG3	19	57329140	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27830	57329140	1799843	6287	60118											
USP29	57663	broad.mit.edu	37	chr19	57641212	57641212	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgaaagaagacatggaaaAattaaatgccactttgaata	19	9	8	5	0	0	4	0	2	0	2	0	5	0	5	1	1	1	1	1	1	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57641212A>C	uc002qny.2	+	4	1525	c.1169A>C	c.(1168-1170)AAA>ACA	p.K390T		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	390					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GACATGGAAAAATTAAATGCC	0.398													43	72					0	0	1	0	0		C	57641212	C	C	57641212	3	2	89	1	0	0	0	0	1	0	0	0	17085	14	1	5	1171	5	USP29	19	57641212	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	312072	57641212	1487771	6288	60119											
ZNF805	390980	broad.mit.edu	37	chr19	57765821	57765821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtatgagtgcagtgaatgtgGaaaggccttcagtcgcagct	10	10	14	7	1	1	2	1	2	0	0	2	3	1	3	1	2	2	4	1	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57765821G>A	uc010ygt.1	+	4	1841	c.1634G>A	c.(1633-1635)GGA>GAA	p.G545E	ZNF805_uc010ygu.1_Missense_Mutation_p.G412E	NM_001023563	NP_001018857	Q5CZA5	ZN805_HUMAN	zinc finger protein 805 isoform 1	545	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGTGAATGTGGAAAGGCCTTC	0.473													26	64					0	0	1	0	0		A	57765821	A	A	57765821	3	1	89	1	0	0	0	0	1	0	0	0	18197	1174	41	4	1648	4	ZNF805	19	57765821	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	124609	57765821	1363162	6289	60120											
ZNF805	390980	broad.mit.edu	37	chr19	57765835	57765835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgtggaaaggccttcagtCgcagctcgtccctcactcag	9	9	10	13	2	3	0	3	0	0	0	6	1	4	1	2	2	1	2	2	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57765835C>T	uc010ygt.1	+	4	1855	c.1648C>T	c.(1648-1650)CGC>TGC	p.R550C	ZNF805_uc010ygu.1_Missense_Mutation_p.R417C	NM_001023563	NP_001018857	Q5CZA5	ZN805_HUMAN	zinc finger protein 805 isoform 1	550	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGCCTTCAGTCGCAGCTCGTC	0.483													54	31					0	0	1	0	0		T	57765835	T	T	57765835	3	4	89	1	0	0	0	0	1	0	0	0	18197	884	31	1	1662	1	ZNF805	19	57765835	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	14	57765835	1363148	6290	60121											
ZNF460	10794	broad.mit.edu	37	chr19	57802298	57802298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgaacacgaaggtttggCgacagctgatggtatttgtt	9	13	12	7	2	0	2	0	2	0	0	0	4	0	2	1	3	2	4	1	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57802298C>T	uc002qog.2	+	3	711	c.389C>T	c.(388-390)GCG>GTG	p.A130V	ZNF460_uc010ygv.1_Missense_Mutation_p.A89V	NM_006635	NP_006626	Q14592	ZN460_HUMAN	zinc finger protein 460	130					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GAAGGTTTGGCGACAGCTGAT	0.448													55	101					0	0	1	0	0		T	57802298	T	T	57802298	3	4	89	1	0	0	0	0	1	0	0	0	17949	768	27	1	399	1	ZNF460	19	57802298	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	36463	57802298	1326685	6291	60122											
ZNF17	7565	broad.mit.edu	37	chr19	57932413	57932413	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacttgatacacatcagaGaattcacactggtgaaaggc	15	8	8	10	0	2	3	2	2	0	1	2	4	2	3	0	2	1	0	0	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57932413G>T	uc002qoo.1	+	3	1784	c.1553G>T	c.(1552-1554)AGA>ATA	p.R518I	ZNF547_uc002qpm.3_Intron|ZNF17_uc002qop.1_Missense_Mutation_p.R520I	NM_006959	NP_008890	P17021	ZNF17_HUMAN	zinc finger protein 17	518	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0234)|GBM - Glioblastoma multiforme(193;0.000426)|Lung(386;0.176)		ACACATCAGAGAATTCACACT	0.408													96	49					1.80868e-48	2.24938e-48	1	1	0		T	57932413	T	T	57932413	3	4	89	1	0	0	0	0	1	0	0	0	17768	942	33	5	1563	5	ZNF17	19	57932413	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	130115	57932413	1196570	6292	60123											
ZNF749	388567	broad.mit.edu	37	chr19	57956643	57956643	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaattgtttaggactaaatcGagccttattatacatcagca	14	13	7	7	1	1	0	1	0	0	0	2	3	1	1	1	1	3	2	1	1	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:57956643G>A	uc002qoq.2	+	3	2381	c.2127G>A	c.(2125-2127)TCG>TCA	p.S709S	ZNF547_uc002qpm.3_Intron	NM_001023561	NP_001018855	O43361	ZN749_HUMAN	zinc finger protein 749	709	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)|Lung(386;0.177)		GGACTAAATCGAGCCTTATTA	0.393													34	59					0	0	1	0	0		A	57956643	A	A	57956643	2	1	89	1	0	0	0	0	0	0	0	1	18156	1045	37	1		1	ZNF749	19	57956643	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	24230	57956643	1172340	6293	60124											
ZNF419	79744	broad.mit.edu	37	chr19	58004329	58004329	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagcagcactgtggagagaAacccttaaaaagacaagagg	18	4	12	7	0	0	3	0	0	0	3	0	6	0	4	1	2	3	2	1	2	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58004329A>C	uc002qov.2	+	5	644	c.404A>C	c.(403-405)AAA>ACA	p.K135T	ZNF547_uc002qpm.3_Intron|ZNF419_uc010ety.1_Missense_Mutation_p.K136T|ZNF419_uc010etz.1_Missense_Mutation_p.K123T|ZNF419_uc010eua.1_Missense_Mutation_p.K122T|ZNF419_uc002qow.2_Missense_Mutation_p.K103T|ZNF419_uc010eub.1_Missense_Mutation_p.K90T|ZNF419_uc010euc.1_Missense_Mutation_p.K89T	NM_024691	NP_078967	Q96HQ0	ZN419_HUMAN	zinc finger protein 419 isoform 2	135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0252)|Lung(386;0.171)		TGTGGAGAGAAACCCTTAAAA	0.522													33	20					0	0	1	0	0		C	58004329	C	C	58004329	3	2	89	1	0	0	0	0	1	0	0	0	17921	14	1	5	425	5	ZNF419	19	58004329	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	47686	58004329	1124654	6294	60125											
ZNF773	374928	broad.mit.edu	37	chr19	58018216	58018216	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccttatgggtgtagtgaCtgtggaaaatcctttagccg	9	12	13	7	1	0	1	0	1	0	0	1	2	1	2	3	3	1	1	3	3	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58018216C>A	uc002qox.2	+	4	893	c.753C>A	c.(751-753)GAC>GAA	p.D251E	ZNF547_uc002qpm.3_Intron|ZNF773_uc002qoy.2_Missense_Mutation_p.D250E|ZNF773_uc002qoz.2_Intron	NM_198542	NP_940944	Q6PK81	ZN773_HUMAN	zinc finger protein 773	251	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)		GGTGTAGTGACTGTGGAAAAT	0.408													52	61					1.4374e-25	1.73394e-25	1	1	0		A	58018216	A	A	58018216	3	1	89	1	0	0	0	0	1	0	0	0	18171	564	20	5	767	5	ZNF773	19	58018216	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13887	58018216	1110767	6295	60126											
ZIK1	284307	broad.mit.edu	37	chr19	58102074	58102074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaggccttatgagtgcagcGaatgtggaaaattatttaga	15	11	11	4	1	0	2	0	1	0	1	0	4	0	3	1	2	2	1	1	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58102074G>A	uc002qpg.2	+	4	992	c.895G>A	c.(895-897)GAA>AAA	p.E299K	ZNF547_uc002qpm.3_Intron|ZIK1_uc002qph.2_Missense_Mutation_p.E244K|ZIK1_uc002qpi.2_Missense_Mutation_p.E286K|ZIK1_uc002qpj.2_Missense_Mutation_p.E196K	NM_001010879	NP_001010879	Q3SY52	ZIK1_HUMAN	zinc finger protein interacting with K protein	299	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TGAGTGCAGCGAATGTGGAAA	0.458													32	56					0	0	1	0	0		A	58102074	A	A	58102074	3	1	89	1	0	0	0	0	1	0	0	0	17708	1059	37	1	909	1	ZIK1	19	58102074	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	83858	58102074	1026909	6296	60127											
ZNF530	348327	broad.mit.edu	37	chr19	58115765	58115765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggagaactttgcagttatgGcatccctaggtaaggccctc	9	11	11	10	0	0	1	0	0	0	1	2	2	1	1	2	4	2	4	2	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58115765G>A	uc002qpk.2	+	2	371	c.151G>A	c.(151-153)GCA>ACA	p.A51T	ZNF547_uc002qpm.3_Intron|ZNF530_uc002qpl.2_RNA	NM_020880	NP_065931	Q6P9A1	ZN530_HUMAN	zinc finger protein 530	51	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0443)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TGCAGTTATGGCATCCCTAGG	0.537													72	150					0	0	1	0	0		A	58115765	A	A	58115765	3	1	89	1	0	0	0	0	1	0	0	0	17996	1203	42	2	157	2	ZNF530	19	58115765	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13691	58115765	1013218	6297	60128											
ZSCAN4	201516	broad.mit.edu	37	chr19	58187817	58187817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggccactgcaatgacaaaGccagtgtgaaagagaaatgg	15	6	13	7	0	0	3	0	2	0	1	0	4	0	3	2	2	2	1	2	2	4	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58187817G>A	uc002qpu.2	+	3	1001	c.304G>A	c.(304-306)GCC>ACC	p.A102T		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	102	SCAN box.				telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CAATGACAAAGCCAGTGTGAA	0.423													73	32					0	0	1	0	0		A	58187817	A	A	58187817	3	1	89	1	0	0	0	0	1	0	0	0	18262	971	34	2	306	2	ZSCAN4	19	58187817	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	72052	58187817	941166	6298	60129											
ZNF671	79891	broad.mit.edu	37	chr19	58232204	58232204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctttctccagtgtgagttCgttggtgcagaacaagtgtg	7	13	13	8	1	1	2	0	1	1	1	3	2	1	2	2	1	2	3	2	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58232204C>T	uc002qpz.3	-	4	1349	c.1250G>A	c.(1249-1251)CGA>CAA	p.R417Q	ZNF776_uc002qpx.2_Intron|ZNF671_uc010eug.2_Missense_Mutation_p.R340Q|ZNF671_uc010yhf.1_Missense_Mutation_p.R319Q	NM_024833	NP_079109	Q8TAW3	ZN671_HUMAN	zinc finger protein 671	417	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		AGTGTGAGTTCGTTGGTGCAG	0.488													61	31					0	0	1	0	0		T	58232204	T	T	58232204	3	4	89	1	0	0	0	0	1	0	0	0	18103	884	31	1	358	1	ZNF671	19	58232204	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44387	58232204	896779	6299	60130											
ZNF671	79891	broad.mit.edu	37	chr19	58234635	58234635	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacatcatggtacaaaagtCtctgagcatcatcaagaagc	15	9	7	10	0	5	2	4	1	1	1	6	2	5	2	0	1	3	2	0	1	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58234635C>A	uc002qpz.3	-	2	311	c.212G>T	c.(211-213)AGA>ATA	p.R71I	ZNF776_uc002qpx.2_Intron|ZNF671_uc010eug.2_5'UTR|ZNF671_uc010yhf.1_Intron	NM_024833	NP_079109	Q8TAW3	ZN671_HUMAN	zinc finger protein 671	71	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GTACAAAAGTCTCTGAGCATC	0.463													116	55					2.56817e-43	3.18764e-43	1	1	0		A	58234635	A	A	58234635	3	1	89	1	0	0	0	0	1	0	0	0	18103	913	32	5	1404	5	ZNF671	19	58234635	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2431	58234635	894348	6300	60131											
ZNF814	730051	broad.mit.edu	37	chr19	58386057	58386057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actcttctctagtgagcagtCtctggtgctgactgagtata	8	14	10	9	0	3	3	0	3	3	0	5	3	3	3	0	1	2	3	0	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58386057C>T	uc002qqo.2	-	3	973	c.701G>A	c.(700-702)AGA>AAA	p.R234K	ZNF814_uc002qqk.2_Intron|ZNF814_uc010yhl.1_Intron	NM_001144989	NP_001138461	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	234					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						AGTGAGCAGTCTCTGGTGCTG	0.438													6	9					0	0	1	0	0		T	58386057	T	T	58386057	3	4	89	1	0	0	0	0	1	0	0	0	18201	913	32	4	1870	4	ZNF814	19	58386057	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	151422	58386057	742926	6301	60132											
ZNF418	147686	broad.mit.edu	37	chr19	58438323	58438323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttcctaaggtgtccctttCgactaaaagatttcccacat	10	13	7	11	1	0	1	0	0	0	1	4	2	3	1	3	2	0	1	3	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58438323C>T	uc002qqs.1	-	4	1518	c.1226G>A	c.(1225-1227)CGA>CAA	p.R409Q	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Missense_Mutation_p.R324Q	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	409	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0158)		GTGTCCCTTTCGACTAAAAGA	0.443													78	149					0	0	1	0	0		T	58438323	T	T	58438323	3	4	89	1	0	0	0	0	1	0	0	0	17920	884	31	1	808	1	ZNF418	19	58438323	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	52266	58438323	690660	6302	60133											
ZNF606	80095	broad.mit.edu	37	chr19	58489988	58489988	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaactacagttaaaggatCtttcacactgattacattta	15	13	6	7	0	2	2	1	1	1	1	2	4	2	3	0	1	3	1	0	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58489988C>A	uc002qqw.2	-	7	2678	c.2060G>T	c.(2059-2061)AGA>ATA	p.R687I	ZNF606_uc010yhp.1_Missense_Mutation_p.R597I	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	687	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		GTTAAAGGATCTTTCACACTG	0.408													35	50					6.00712e-18	7.00105e-18	1	1	0		A	58489988	A	A	58489988	3	1	89	1	0	0	0	0	1	0	0	0	18057	913	32	5	322	5	ZNF606	19	58489988	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	51665	58489988	638995	6303	60134											
ZNF606	80095	broad.mit.edu	37	chr19	58490033	58490033	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctcaccagtgtgaattCtccgatgagcaacaaggtga	11	11	10	9	1	2	3	1	3	2	0	4	4	2	3	2	1	2	2	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58490033C>A	uc002qqw.2	-	7	2633	c.2015G>T	c.(2014-2016)AGA>ATA	p.R672I	ZNF606_uc010yhp.1_Missense_Mutation_p.R582I	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	672	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		AGTGTGAATTCTCCGATGAGC	0.413													71	20					1.08321e-29	1.32225e-29	1	1	0		A	58490033	A	A	58490033	3	1	89	1	0	0	0	0	1	0	0	0	18057	913	32	5	367	5	ZNF606	19	58490033	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	45	58490033	638950	6304	60135											
ZSCAN18	65982	broad.mit.edu	37	chr19	58601494	58601494	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccggaaacgcaggcgggaGaactccaggtcagcaggggt	10	4	16	11	3	1	1	1	0	0	1	3	3	3	2	2	6	3	2	2	6	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58601494G>T	uc002qri.2	-	2	450	c.141C>A	c.(139-141)TTC>TTA	p.F47L	ZSCAN18_uc002qrj.3_Missense_Mutation_p.F47L|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Missense_Mutation_p.F47L|ZSCAN18_uc010yht.1_Missense_Mutation_p.F103L|ZSCAN18_uc002qrk.1_Missense_Mutation_p.F47L|ZSCAN18_uc002qrl.2_Missense_Mutation_p.F47L	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	47					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		GCAGGCGGGAGAACTCCAGGT	0.687													46	23					1.02687e-29	1.25385e-29	1	1	0		T	58601494	T	T	58601494	3	4	89	1	0	0	0	0	1	0	0	0	18255	933	33	5	1415	5	ZSCAN18	19	58601494	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	111461	58601494	527489	6305	60136											
ZNF544	27300	broad.mit.edu	37	chr19	58773467	58773467	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatgtactcagtgtgggAaatctttcagccagaagtat	13	12	9	7	0	4	1	3	0	1	1	4	2	4	2	1	1	2	2	1	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58773467A>G	uc010euo.2	+	7	1969	c.1495A>G	c.(1495-1497)AAA>GAA	p.K499E	ZNF544_uc010yhw.1_Intron|ZNF544_uc010yhx.1_Missense_Mutation_p.K471E|ZNF544_uc010yhy.1_Missense_Mutation_p.K471E|ZNF544_uc002qrt.3_Missense_Mutation_p.K357E|ZNF544_uc002qru.3_Missense_Mutation_p.K357E|uc002qrx.1_Intron	NM_014480	NP_055295	Q6NX49	ZN544_HUMAN	zinc finger protein 544	499	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		all_cancers(17;4.17e-12)|all_epithelial(17;1.25e-08)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.17)|GBM - Glioblastoma multiforme(193;0.018)		TCAGTGTGGGAAATCTTTCAG	0.458													74	29					0	0	1	0	0		G	58773467	G	G	58773467	3	3	89	1	0	0	0	0	1	0	0	0	18002	247	9	3	1509	3	ZNF544	19	58773467	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	171973	58773467	355516	6306	60137											
ZNF132	7691	broad.mit.edu	37	chr19	58944990	58944990	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggctggattttcggctaaaGaatttcccacattcactgca	11	12	8	10	1	1	1	1	0	0	1	3	2	2	2	1	3	1	3	1	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58944990G>A	uc002qst.3	-	3	2222	c.1821C>T	c.(1819-1821)TTC>TTT	p.F607F		NM_003433	NP_003424	P52740	ZN132_HUMAN	zinc finger protein 132	607	C2H2-type 15.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0171)|Lung(386;0.182)		TTCGGCTAAAGAATTTCCCAC	0.413													85	37					0	0	1	0	0		A	58944990	A	A	58944990	2	1	89	1	0	0	0	0	0	0	0	1	17747	933	33	4		4	ZNF132	19	58944990	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	171523	58944990	183993	6307	60138											
ZNF132	7691	broad.mit.edu	37	chr19	58945795	58945795	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctttctcctgagtgaattCtctgatgatgaacaaatgtg	10	15	9	7	0	3	5	0	5	3	0	5	5	3	5	1	0	1	0	1	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr19:58945795C>A	uc002qst.3	-	3	1417	c.1016G>T	c.(1015-1017)AGA>ATA	p.R339I		NM_003433	NP_003424	P52740	ZN132_HUMAN	zinc finger protein 132	339	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0171)|Lung(386;0.182)		TGAGTGAATTCTCTGATGATG	0.408													57	21					9.77569e-14	1.09567e-13	1	1	0		A	58945795	A	A	58945795	3	1	89	1	0	0	0	0	1	0	0	0	17747	913	32	5	1108	5	ZNF132	19	58945795	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	805	58945795	183188	6308	60139											
DEFB126	81623	broad.mit.edu	37	chr20	123301	123301	+	Missense_Mutation	SNP	T	G	G																															actgttcacccttgcagtttTtatgctcctggcccaattgg																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:123301T>G	uc002wcx.2	+	1	50	c.32T>G	c.(31-33)TTT>TGT	p.F11C		NM_030931	NP_112193	Q9BYW3	DB126_HUMAN	defensin, beta 126 preproprotein	11					defense response to bacterium	extracellular region					0		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			CTTGCAGTTTTTATGCTCCTG	0.463													101	212					0	0	1	0	0		G	123301	G	G	123301	3	3	89	1	0	0	0	0	1	0	0	0	4417	1841	64	5	34	5	DEFB126	20	123301	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08		123301	62902219	6309	60140	113	2									
DEFB126	81623	broad.mit.edu	37	chr20	123306	123306	+	Missense_Mutation	SNP	C	T	T																															tcacccttgcagtttttatgCtcctggcccaattggtctca																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:123306C>T	uc002wcx.2	+	1	55	c.37C>T	c.(37-39)CTC>TTC	p.L13F		NM_030931	NP_112193	Q9BYW3	DB126_HUMAN	defensin, beta 126 preproprotein	13					defense response to bacterium	extracellular region					0		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			AGTTTTTATGCTCCTGGCCCA	0.478													100	204					0	0	1	0	0		T	123306	T	T	123306	3	4	89	1	0	0	0	0	1	0	0	0	4417	797	28	2	39	2	DEFB126	20	123306	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5	123306	62902214	6310	60141	113	2									
DEFB128	245939	broad.mit.edu	37	chr20	168744	168744	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttactttattgaagcattttTtgagtcttgccccgtctgtg	6	19	8	8	1	2	2	0	2	2	0	2	2	2	2	2	0	3	1	2	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:168744T>G	uc002wcz.1	-	2	65	c.65A>C	c.(64-66)AAA>ACA	p.K22T		NM_001037732	NP_001032821	Q7Z7B8	DB128_HUMAN	beta-defensin 128 precursor	22					defense response to bacterium	extracellular region		p.R20fs*4(1)		breast(1)	1		all_cancers(10;0.00499)|Lung NSC(37;0.227)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			GAAGCATTTTTTGAGTCTTGC	0.413													74	132					0	0	1	0	0		G	168744	G	G	168744	3	3	89	1	0	0	0	0	1	0	0	0	4419	1841	64	5	220	5	DEFB128	20	168744	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	45438	168744	62856776	6311	60142											
DEFB129	140881	broad.mit.edu	37	chr20	207940	207940	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacccaaccatgaagctccTttttcctatctttgccagcc	8	12	5	16	0	1	1	0	1	1	0	3	1	3	1	6	0	4	2	6	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:207940T>G	uc002wda.2	+	1	16	c.11T>G	c.(10-12)CTT>CGT	p.L4R		NM_080831	NP_543021	Q9H1M3	DB129_HUMAN	beta defensin 129 precursor	4					defense response to bacterium	extracellular region				ovary(1)	1		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			ATGAAGCTCCTTTTTCCTATC	0.493													40	94					0	0	1	0	0		G	207940	G	G	207940	3	3	89	1	0	0	0	0	1	0	0	0	4420	1609	56	5	13	5	DEFB129	20	207940	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	39196	207940	62817580	6312	60143											
CSNK2A1	1457	broad.mit.edu	37	chr20	480539	480539	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctcctctcaaattctccaAaatctttatttcacgcttaa	12	15	1	13	1	4	0	2	0	3	0	7	0	5	0	3	0	0	1	3	0	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:480539A>C	uc002wdw.1	-	5	646	c.253T>G	c.(253-255)TTG>GTG	p.L85V	CSNK2A1_uc002wdx.1_Missense_Mutation_p.L85V|CSNK2A1_uc002wdy.1_5'UTR	NM_177559	NP_808227	P68400	CSK21_HUMAN	casein kinase II alpha 1 subunit isoform a	85	Protein kinase.				axon guidance|Wnt receptor signaling pathway	cytosol|NuRD complex|plasma membrane|Sin3 complex	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			ovary(1)	1		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)			AAATTCTCCAAAATCTTTATT	0.373													65	121					0	0	1	0	0		C	480539	C	C	480539	3	2	89	1	0	0	0	0	1	0	0	0	3960	11	1	5	962	5	CSNK2A1	20	480539	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	272599	480539	62544981	6313	60144											
SIRPG	55423	broad.mit.edu	37	chr20	1629814	1629814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggggtgatgctactgatgCggatggaaaagtccatgttg	9	11	15	6	1	0	2	0	2	0	0	1	4	1	4	1	4	3	2	1	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:1629814C>T	uc002wfm.1	-	2	379	c.314G>A	c.(313-315)CGC>CAC	p.R105H	SIRPG_uc002wfn.1_Missense_Mutation_p.R105H|SIRPG_uc002wfo.1_Missense_Mutation_p.R105H	NM_018556	NP_061026	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma isoform 1	105	Extracellular (Potential).|Ig-like V-type.				blood coagulation|cell adhesion|cell junction assembly|cell-cell signaling|intracellular signal transduction|leukocyte migration|negative regulation of cell proliferation|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to membrane|intracellular|plasma membrane	protein binding			ovary(1)	1						GCTACTGATGCGGATGGAAAA	0.483													45	102					0	0	1	0	0		T	1629814	T	T	1629814	3	4	89	1	0	0	0	0	1	0	0	0	14361	768	27	1	865	1	SIRPG	20	1629814	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1149275	1629814	61395706	6314	60145											
PDYN	5173	broad.mit.edu	37	chr20	1961040	1961040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaccaccttgaactggcGccggagaaaaccgccatagc	12	5	10	14	3	1	2	1	1	0	1	1	3	1	2	5	2	3	0	5	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:1961040G>A	uc010gaj.2	-	3	936	c.694C>T	c.(694-696)CGC>TGC	p.R232C	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.R232C|PDYN_uc010zpt.1_Missense_Mutation_p.R77C	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	232					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity	p.R232H(1)		upper_aerodigestive_tract(1)|ovary(1)	2						TTGAACTGGCGCCGGAGAAAA	0.537													67	121					0	0	1	0	0		A	1961040	A	A	1961040	3	1	89	1	0	0	0	0	1	0	0	0	11718	1087	38	1	74	1	PDYN	20	1961040	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	331226	1961040	61064480	6315	60146											
STK35	140901	broad.mit.edu	37	chr20	2097735	2097735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agccaaggcggacatctttgCcctgggcattatcatctggg	8	10	12	11	1	3	0	1	0	2	0	3	1	3	1	2	4	2	1	2	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:2097735C>T	uc010gak.2	+	3	1316	c.1316C>T	c.(1315-1317)GCC>GTC	p.A439V	STK35_uc010zpu.1_Intron|STK35_uc002wfw.3_Missense_Mutation_p.A306V	NM_080836	NP_543026	Q8TDR2	STK35_HUMAN	serine/threonine kinase 35	439	Protein kinase.					cytoplasm|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						GACATCTTTGCCCTGGGCATT	0.498													29	55					0	0	1	0	0		T	2097735	T	T	2097735	3	4	89	1	0	0	0	0	1	0	0	0	15326	739	26	2	1326	2	STK35	20	2097735	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	136695	2097735	60927785	6316	60147											
TGM6	343641	broad.mit.edu	37	chr20	2377260	2377260	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catacgagcccagggctggaActacgggcaggtctccaggg	9	5	15	12	2	1	0	0	0	1	0	2	2	1	1	2	5	4	2	2	5	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:2377260A>C	uc002wfy.1	+	4	594	c.533A>C	c.(532-534)AAC>ACC	p.N178T	TGM6_uc010gal.1_Missense_Mutation_p.N178T	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	178					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	CAGGGCTGGAACTACGGGCAG	0.617													4	29					0	0	1	0	0		C	2377260	C	C	2377260	3	2	89	1	0	0	0	0	1	0	0	0	15859	43	2	5	547	5	TGM6	20	2377260	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	279525	2377260	60648260	6317	60148											
TGM6	343641	broad.mit.edu	37	chr20	2411116	2411116	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaatcccaattacaatatCttactctaagtataaagaag	18	11	5	7	0	2	2	0	0	2	2	3	3	3	2	1	0	2	1	1	0	11	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:2411116C>A	uc002wfy.1	+	11	1764	c.1703C>A	c.(1702-1704)TCT>TAT	p.S568Y	TGM6_uc010gal.1_Missense_Mutation_p.S568Y	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	568					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	ATTACAATATCTTACTCTAAG	0.468													27	87					6.32553e-13	7.03772e-13	1	1	0		A	2411116	A	A	2411116	3	1	89	1	0	0	0	0	1	0	0	0	15859	913	32	5	1745	5	TGM6	20	2411116	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	33856	2411116	60614404	6318	60149											
TMC2	117532	broad.mit.edu	37	chr20	2604963	2604963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaagagaccattgaaaacGatttcccaaccttcctgggc	12	9	7	13	1	0	2	0	1	0	1	3	4	3	2	5	1	2	0	5	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:2604963G>A	uc002wgf.1	+	17	2242	c.2227G>A	c.(2227-2229)GAT>AAT	p.D743N	TMC2_uc002wgg.1_Missense_Mutation_p.D727N	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	743	Extracellular (Potential).					integral to membrane				ovary(3)	3						CATTGAAAACGATTTCCCAAC	0.483													36	67					0	0	1	0	0		A	2604963	A	A	2604963	3	1	89	1	0	0	0	0	1	0	0	0	16010	1058	37	1	2293	1	TMC2	20	2604963	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	193847	2604963	60420557	6319	60150											
TMC2	117532	broad.mit.edu	37	chr20	2605002	2605002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagatctttgctttcctcGccaatccaggcctgatcatc	8	12	7	14	1	2	2	1	1	1	1	6	2	4	2	4	1	1	2	4	1	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:2605002G>A	uc002wgf.1	+	17	2281	c.2266G>A	c.(2266-2268)GCC>ACC	p.A756T	TMC2_uc002wgg.1_Missense_Mutation_p.A740T	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	756	Helical; (Potential).					integral to membrane		p.A756T(1)		ovary(3)	3						TGCTTTCCTCGCCAATCCAGG	0.488													44	77					0	0	1	0	0		A	2605002	A	A	2605002	3	1	89	1	0	0	0	0	1	0	0	0	16010	1087	38	1	2332	1	TMC2	20	2605002	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	39	2605002	60420518	6320	60151											
FASTKD5	60493	broad.mit.edu	37	chr20	3127807	3127807	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggaaatgtcctcttgctTtcccttttagtaacttattc	7	18	5	11	0	1	0	0	0	1	0	4	1	3	1	3	1	2	2	3	1	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:3127807T>G	uc002whz.2	-	2	2221	c.1910A>C	c.(1909-1911)AAA>ACA	p.K637T	uc002whv.1_Intron|UBOX5_uc002whw.2_Intron|UBOX5_uc002whx.2_Intron|UBOX5_uc002why.1_Intron	NM_021826	NP_068598	Q7L8L6	FAKD5_HUMAN	FAST kinase domains 5	637					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity				0						TCCTCTTGCTTTCCCTTTTAG	0.488													31	58					0	0	1	0	0		G	3127807	G	G	3127807	3	3	89	1	0	0	0	0	1	0	0	0	5702	1841	64	5	388	5	FASTKD5	20	3127807	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	522805	3127807	59897713	6321	60152											
SLC4A11	83959	broad.mit.edu	37	chr20	3211414	3211414	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggggcgcggtggtcagcaGaatcaccaatggctgcccag	9	5	15	12	2	2	1	2	0	0	1	2	1	2	1	2	5	2	2	2	5	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:3211414G>T	uc002wig.2	-	10	1342	c.1294C>A	c.(1294-1296)CTG>ATG	p.L432M	SLC4A11_uc010zqe.1_Missense_Mutation_p.L459M|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.L416M	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	432	Helical; (Potential).|Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						GTGGTCAGCAGAATCACCAAT	0.672													21	29					5.45024e-15	6.18484e-15	1	1	0		T	3211414	T	T	3211414	3	4	89	1	0	0	0	0	1	0	0	0	14677	933	33	5	1421	5	SLC4A11	20	3211414	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	83607	3211414	59814106	6322	60153											
C20orf194	25943	broad.mit.edu	37	chr20	3274887	3274887	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggctaatgctgctgatggcGaaatgctggagaaacctaaa	13	9	12	7	1	0	2	0	1	0	1	0	4	0	2	1	3	4	4	1	3	5	2	rs61734535		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:3274887G>A	uc002wii.2	-	25	2187	c.2136C>T	c.(2134-2136)TTC>TTT	p.F712F	C20orf194_uc002wij.3_Silent_p.F451F|C20orf194_uc002wik.2_Silent_p.F386F	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	712											0						TGCTGATGGCGAAATGCTGGA	0.438													25	37					0	0	1	0	0		A	3274887	A	A	3274887	2	1	89	1	0	0	0	0	0	0	0	1	2102	1049	37	1		1	C20orf194	20	3274887	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	63473	3274887	59750633	6323	60154											
C20orf194	25943	broad.mit.edu	37	chr20	3275246	3275246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccccagcaggctggctcaggGcactgaagagcttctgtgca	8	7	13	13	0	2	2	1	1	1	1	2	2	2	2	2	3	3	6	2	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:3275246G>A	uc002wii.2	-	24	2099	c.2048C>T	c.(2047-2049)GCC>GTC	p.A683V	C20orf194_uc002wij.3_Missense_Mutation_p.A422V|C20orf194_uc002wik.2_Missense_Mutation_p.A357V	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	683											0						CTGGCTCAGGGCACTGAAGAG	0.483													13	35					0	0	1	0	0		A	3275246	A	A	3275246	3	1	89	1	0	0	0	0	1	0	0	0	2102	1203	42	2	1541	2	C20orf194	20	3275246	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	359	3275246	59750274	6324	60155											
C20orf194	25943	broad.mit.edu	37	chr20	3306889	3306889	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacatgcaatgccagccaaAacagcctcaataacagcagc	17	5	6	13	0	1	0	1	0	0	0	1	0	1	0	3	0	9	2	3	0	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:3306889A>C	uc002wii.2	-	13	1194	c.1143T>G	c.(1141-1143)GTT>GTG	p.V381V	C20orf194_uc002wij.3_Silent_p.V120V|C20orf194_uc002wik.2_Silent_p.V55V|C20orf194_uc010gay.1_RNA	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	381											0						TGCCAGCCAAAACAGCCTCAA	0.308													26	61					0	0	1	0	0		C	3306889	C	C	3306889	2	2	89	1	0	0	0	0	0	0	0	1	2102	1	1	5		5	C20orf194	20	3306889	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	31643	3306889	59718631	6325	60156											
C20orf194	25943	broad.mit.edu	37	chr20	3340185	3340185	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaagcaaactctccagaGacataggatccatcttgctg	13	9	8	11	0	2	2	0	1	2	1	4	4	3	3	2	1	3	2	2	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:3340185G>T	uc002wii.2	-	7	719	c.668C>A	c.(667-669)TCT>TAT	p.S223Y	C20orf194_uc002wik.2_5'UTR|C20orf194_uc010gay.1_RNA	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	223											0						ACTCTCCAGAGACATAGGATC	0.363													30	47					2.80507e-11	3.07208e-11	1	1	0		T	3340185	T	T	3340185	3	4	89	1	0	0	0	0	1	0	0	0	2102	942	33	5	2989	5	C20orf194	20	3340185	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	33296	3340185	59685335	6326	60157											
SIGLEC1	6614	broad.mit.edu	37	chr20	3677393	3677393	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgggatgggacctggggAcccaggctggtggccaggag	7	5	19	10	0	0	0	0	0	0	0	0	4	0	4	4	8	0	1	4	8	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:3677393A>G	uc002wja.2	-	10	2523	c.2523T>C	c.(2521-2523)GGT>GGC	p.G841G	SIGLEC1_uc002wiz.3_Silent_p.G841G	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	841	Ig-like C2-type 8.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						GGACCTGGGGACCCAGGCTGG	0.637													22	65					0	0	1	0	0		G	3677393	G	G	3677393	2	3	89	1	0	0	0	0	0	0	0	1	14330	262	10	3		3	SIGLEC1	20	3677393	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	337208	3677393	59348127	6327	60158											
PRND	23627	broad.mit.edu	37	chr20	4705395	4705395	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcaagcaaggccgcaagctCgacattgacttcggagccga	12	6	11	12	4	1	1	1	1	0	0	3	4	1	2	2	2	3	3	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:4705395C>T	uc002wkz.2	+	2	269	c.198C>T	c.(196-198)CTC>CTT	p.L66L		NM_012409	NP_036541	Q9UKY0	PRND_HUMAN	prion-like protein doppel preproprotein	66	Globular.				protein homooligomerization	anchored to membrane|plasma membrane					0						GCCGCAAGCTCGACATTGACT	0.602													20	21					0	0	1	0	0		T	4705395	T	T	4705395	2	4	89	1	0	0	0	0	0	0	0	1	12565	871	31	1		1	PRND	20	4705395	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1028002	4705395	58320125	6328	60159											
CHGB	1114	broad.mit.edu	37	chr20	5904101	5904101	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtctgacaccagagaagaGaaaaggttcttgggtgaagg	14	8	14	5	0	2	4	0	2	2	2	2	6	2	4	1	3	0	1	1	3	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:5904101G>T	uc002wmg.2	+	4	1617	c.1311G>T	c.(1309-1311)GAG>GAT	p.E437D	CHGB_uc010zqz.1_Missense_Mutation_p.E120D	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	437						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						CCAGAGAAGAGAAAAGGTTCT	0.542													39	91					1.58521e-26	1.91845e-26	1	1	0		T	5904101	T	T	5904101	3	4	89	1	0	0	0	0	1	0	0	0	3342	933	33	5	1325	5	CHGB	20	5904101	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1198706	5904101	57121419	6329	60160											
MCM8	84515	broad.mit.edu	37	chr20	5943947	5943947	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgtgtgtcgaggcaggTcatttactgctctccgcagc	5	12	12	12	2	2	0	1	0	1	0	4	1	2	0	2	2	4	3	2	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:5943947T>C	uc002wmi.2	+	8	1194	c.817T>C	c.(817-819)TCA>CCA	p.S273P	MCM8_uc002wmj.2_Missense_Mutation_p.S273P|MCM8_uc002wmk.2_Missense_Mutation_p.S273P|MCM8_uc002wml.2_Missense_Mutation_p.S273P|MCM8_uc010gbp.2_Missense_Mutation_p.S273P	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	273					cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						TCGAGGCAGGTCATTTACTGC	0.413													32	51					0	0	1	0	0		C	5943947	C	C	5943947	3	2	89	1	0	0	0	0	1	0	0	0	9411	1667	58	3	843	3	MCM8	20	5943947	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	39846	5943947	57081573	6330	60161											
PLCB1	23236	broad.mit.edu	37	chr20	8707987	8707987	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttttgaaatgtcttccttCgtggaaaccaaaggacttga	12	13	9	7	1	1	2	0	2	1	0	3	4	2	4	2	2	1	1	2	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:8707987C>T	uc002wnb.2	+	17	1713	c.1710C>T	c.(1708-1710)TTC>TTT	p.F570F	PLCB1_uc010zrb.1_Silent_p.F469F|PLCB1_uc002wna.2_Silent_p.F570F|PLCB1_uc002wnc.1_Silent_p.F469F|PLCB1_uc002wnd.1_Silent_p.F147F	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	570	PI-PLC Y-box.				activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TGTCTTCCTTCGTGGAAACCA	0.353													13	35					0	0	1	0	0		T	8707987	T	T	8707987	2	4	89	1	0	0	0	0	0	0	0	1	12046	883	31	1		1	PLCB1	20	8707987	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2764040	8707987	54317533	6331	60162											
PLCB1	23236	broad.mit.edu	37	chr20	8862337	8862337	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctcgagattttggaattCgtgcaggaagccatgaaagg	11	9	12	9	2	0	2	0	1	0	1	2	5	0	4	3	3	2	1	3	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:8862337C>T	uc002wnb.2	+	32	3495	c.3492C>T	c.(3490-3492)TTC>TTT	p.F1164F	PLCB1_uc002wna.2_3'UTR	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	1164					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TTTTGGAATTCGTGCAGGAAG	0.493													93	155					0	0	1	0	0		T	8862337	T	T	8862337	2	4	89	1	0	0	0	0	0	0	0	1	12046	883	31	1		1	PLCB1	20	8862337	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	154350	8862337	54163183	6332	60163											
PLCB4	5332	broad.mit.edu	37	chr20	9370547	9370547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgtaattcaagccatcaagGaaactgcatttgtcacatca	15	11	6	9	0	4	0	4	0	0	0	4	1	4	1	1	1	3	2	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:9370547G>A	uc002wnf.2	+	15	1316	c.1180G>A	c.(1180-1182)GAA>AAA	p.E394K	PLCB4_uc010gbw.1_Missense_Mutation_p.E394K|PLCB4_uc010gbx.2_Missense_Mutation_p.E394K|PLCB4_uc002wne.2_Missense_Mutation_p.E394K|PLCB4_uc002wnh.2_Missense_Mutation_p.E241K	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	394	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						AGCCATCAAGGAAACTGCATT	0.333													20	59					0	0	1	0	0		A	9370547	A	A	9370547	3	1	89	1	0	0	0	0	1	0	0	0	12049	1175	41	4	1230	4	PLCB4	20	9370547	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	508210	9370547	53654973	6333	60164											
PLCB4	5332	broad.mit.edu	37	chr20	9402103	9402103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgaagagtcatttgtatttCggaaggtaggacattttcag	12	14	11	4	1	2	2	2	1	0	1	3	4	2	4	0	3	0	2	0	3	4	6	rs148851937		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:9402103C>T	uc002wnf.2	+	25	2414	c.2278C>T	c.(2278-2280)CGG>TGG	p.R760W	PLCB4_uc010gbw.1_Missense_Mutation_p.R760W|PLCB4_uc010gbx.2_Missense_Mutation_p.R772W|PLCB4_uc002wne.2_Missense_Mutation_p.R760W|PLCB4_uc002wnh.2_Missense_Mutation_p.R607W	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	760	C2.				intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity	p.R760W(1)		skin(11)|ovary(3)|pancreas(1)	15						ATTTGTATTTCGGAAGGTAGG	0.423													28	64					0	0	1	0	0		T	9402103	T	T	9402103	3	4	89	1	0	0	0	0	1	0	0	0	12049	875	31	1	2408	1	PLCB4	20	9402103	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	31556	9402103	53623417	6334	60165											
ANKRD5	63926	broad.mit.edu	37	chr20	10025099	10025099	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggggtagtggaaatagttCgaggcatattggaaagagga	15	8	16	2	1	0	1	0	0	0	1	1	5	0	4	0	6	0	3	0	6	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:10025099C>T	uc002wno.2	+	5	997	c.604C>T	c.(604-606)CGA>TGA	p.R202*	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Nonsense_Mutation_p.R202*|ANKRD5_uc010gbz.2_Nonsense_Mutation_p.R13*	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	202	ANK 2.						calcium ion binding			ovary(1)|breast(1)	2						GGAAATAGTTCGAGGCATATT	0.438													52	116					0	0	1	0	0		T	10025099	T	T	10025099	4	4	89	1	0	0	0	0	0	1	0	0	676	876	31	1	614	1	ANKRD5	20	10025099	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	622996	10025099	53000421	6335	60166											
JAG1	182	broad.mit.edu	37	chr20	10626682	10626682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgtaggagttgacaccatCgatgcaagtgccaccgtttc	9	11	10	11	2	0	1	0	1	0	0	2	3	0	2	3	1	2	4	3	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:10626682C>T	uc002wnw.2	-	15	2452	c.1936G>A	c.(1936-1938)GAT>AAT	p.D646N	JAG1_uc010gcd.1_Missense_Mutation_p.D204N	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	646	Extracellular (Potential).|EGF-like 11; calcium-binding (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						TTGACACCATCGATGCAAGTG	0.468									Alagille_Syndrome				54	94					0	0	1	0	0		T	10626682	T	T	10626682	3	4	89	1	0	0	0	0	1	0	0	0	7950	884	31	1	1768	1	JAG1	20	10626682	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	601583	10626682	52398838	6336	60167											
TASP1	55617	broad.mit.edu	37	chr20	13561609	13561609	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cataagagtctgttggcaacCgagactgggttcttgattcc	9	12	11	9	1	2	3	0	1	2	2	3	4	3	3	2	2	1	3	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:13561609C>A	uc002woi.2	-	6	540	c.423G>T	c.(421-423)TCG>TCT	p.S141S	TASP1_uc010zri.1_Intron|TASP1_uc002woh.2_Silent_p.S118S|TASP1_uc010zrj.1_RNA	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	141					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						TGTTGGCAACCGAGACTGGGT	0.418													28	59					7.38237e-10	7.96475e-10	1	1	0		A	13561609	A	A	13561609	2	1	89	1	0	0	0	0	0	0	0	1	15614	639	23	5		5	TASP1	20	13561609	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2934927	13561609	49463911	6337	60168											
SNRPB2	6629	broad.mit.edu	37	chr20	16717945	16717945	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagattcggatataatatcaAaaatgcgtggaacttttgct	14	13	8	6	2	1	1	1	0	0	1	2	3	1	3	0	2	3	1	0	2	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:16717945A>C	uc002wph.1	+	4	493	c.277A>C	c.(277-279)AAA>CAA	p.K93Q	SNRPB2_uc002wpi.1_Missense_Mutation_p.K93Q	NM_003092	NP_003083	P08579	RU2B_HUMAN	small nuclear ribonucleoprotein polypeptide B''	93						catalytic step 2 spliceosome|nucleoplasm|U2 snRNP	nucleotide binding|protein binding|RNA binding			large_intestine(1)	1						TATAATATCAAAAATGCGTGG	0.318													16	28					0	0	1	0	0		C	16717945	C	C	16717945	3	2	89	1	0	0	0	0	1	0	0	0	14887	15	1	5	287	5	SNRPB2	20	16717945	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3156336	16717945	46307575	6338	60169											
CSRP2BP	57325	broad.mit.edu	37	chr20	18142616	18142616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagagcccagaaggaggccGctggctttcttgacaggagc	10	6	15	10	1	1	3	0	1	1	2	1	6	1	5	2	4	2	2	2	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:18142616G>A	uc002wqj.2	+	6	1457	c.835G>A	c.(835-837)GCT>ACT	p.A279T	CSRP2BP_uc002wqk.2_Missense_Mutation_p.A151T|CSRP2BP_uc010zru.1_Missense_Mutation_p.A150T	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	279					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						GAAGGAGGCCGCTGGCTTTCT	0.478													83	163					0	0	1	0	0		A	18142616	A	A	18142616	3	1	89	1	0	0	0	0	1	0	0	0	3971	1087	38	1	853	1	CSRP2BP	20	18142616	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1424671	18142616	44882904	6339	60170											
POLR3F	10621	broad.mit.edu	37	chr20	18461089	18461089	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaacccaatgatacaaaGaaatagttcatttgcctcat	17	10	5	9	0	2	3	2	1	0	2	2	3	2	3	2	0	3	1	2	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:18461089G>T	uc002wqv.2	+	7	735	c.617G>T	c.(616-618)AGA>ATA	p.R206I	POLR3F_uc002wqw.2_RNA|POLR3F_uc002wqx.2_Missense_Mutation_p.R165I	NM_006466	NP_006457	Q9H1D9	RPC6_HUMAN	DNA-directed RNA polymerase III 39 kDa	206					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|regulation of transcription from RNA polymerase III promoter|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|protein binding				0						ATGATACAAAGAAATAGTTCA	0.318													19	38					1.96292e-10	2.12899e-10	1	1	0		T	18461089	T	T	18461089	3	4	89	1	0	0	0	0	1	0	0	0	12252	942	33	5	643	5	POLR3F	20	18461089	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	318473	18461089	44564431	6340	60171											
NAA20	51126	broad.mit.edu	37	chr20	20007509	20007509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctgttgccccagaatttcGacgccttggtttggctgcta	5	14	11	11	2	1	1	0	0	1	1	2	2	1	1	3	2	2	4	3	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:20007509G>A	uc002wrp.2	+	4	355	c.251G>A	c.(250-252)CGA>CAA	p.R84Q	NAA20_uc002wrq.2_Missense_Mutation_p.R84Q|NAA20_uc002wrr.2_Missense_Mutation_p.R72Q	NM_016100	NP_057184	P61599	NAA20_HUMAN	N-acetyltransferase 5 isoform a	84	N-acetyltransferase.					cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity				0						CCAGAATTTCGACGCCTTGGT	0.448													49	122					0	0	1	0	0		A	20007509	A	A	20007509	3	1	89	1	0	0	0	0	1	0	0	0	10138	1058	37	1	286	1	NAA20	20	20007509	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1546420	20007509	43018011	6341	60172											
NAA20	51126	broad.mit.edu	37	chr20	20013155	20013155	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttttcttttaaagaaaGggtggattttttgtggatct	8	21	10	2	0	2	1	0	0	2	1	2	3	2	3	0	3	0	1	0	3	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:20013155G>A	uc002wrp.2	+	5	413	c.309G>A	c.(307-309)AAG>AAA	p.K103K	NAA20_uc002wrq.2_Intron|NAA20_uc002wrr.2_Silent_p.K91K	NM_016100	NP_057184	P61599	NAA20_HUMAN	N-acetyltransferase 5 isoform a	103	N-acetyltransferase.					cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity				0						TTTAAAGAAAGGGTGGATTTT	0.323													19	34					0	0	1	0	0		A	20013155	A	A	20013155	2	1	89	1	0	0	0	0	0	0	0	1	10138	991	35	4		4	NAA20	20	20013155	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5646	20013155	43012365	6342	60173											
C20orf26	26074	broad.mit.edu	37	chr20	20140041	20140041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgccagagaagctgcatccGaggaagctttaacagcagtc	12	8	11	10	1	0	1	0	0	0	1	2	4	1	2	2	1	6	4	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:20140041G>A	uc002wru.2	+	10	1055	c.979G>A	c.(979-981)GAG>AAG	p.E327K	C20orf26_uc010gcw.1_Missense_Mutation_p.E281K|C20orf26_uc010zse.1_Missense_Mutation_p.E327K|C20orf26_uc010zsf.1_Missense_Mutation_p.E327K	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	327										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		AGCTGCATCCGAGGAAGCTTT	0.403													38	83					0	0	1	0	0		A	20140041	A	A	20140041	3	1	89	1	0	0	0	0	1	0	0	0	2109	1059	37	1	1013	1	C20orf26	20	20140041	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	126886	20140041	42885479	6343	60174											
C20orf26	26074	broad.mit.edu	37	chr20	20322485	20322485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttaccagctacttcaccGagccgtggtgcctggccctg	5	10	10	16	2	1	0	1	0	0	0	2	1	2	0	6	2	5	1	6	2	2	3	rs147197543		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:20322485G>A	uc002wru.2	+	26	3509	c.3433G>A	c.(3433-3435)GAG>AAG	p.E1145K	C20orf26_uc002wrw.2_RNA	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	1145										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		CTACTTCACCGAGCCGTGGTG	0.433													14	34					0	0	1	0	0		A	20322485	A	A	20322485	3	1	89	1	0	0	0	0	1	0	0	0	2109	1059	37	1	3563	1	C20orf26	20	20322485	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	182444	20322485	42703035	6344	60175											
RALGAPA2	57186	broad.mit.edu	37	chr20	20493273	20493273	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgactttcattgcagaatcGaagttatgactctggatata	12	14	9	6	1	2	3	1	2	1	1	3	5	2	4	0	1	1	2	0	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:20493273G>A	uc002wrz.2	-	32	4883	c.4740C>T	c.(4738-4740)TTC>TTT	p.F1580F	RALGAPA2_uc010gcx.2_Silent_p.F1284F|RALGAPA2_uc010zsg.1_Silent_p.F1028F|RALGAPA2_uc002wsa.1_Silent_p.F352F	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1580					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						TTGCAGAATCGAAGTTATGAC	0.468													20	34					0	0	1	0	0		A	20493273	A	A	20493273	2	1	89	1	0	0	0	0	0	0	0	1	13039	1049	37	1		1	RALGAPA2	20	20493273	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	170788	20493273	42532247	6345	60176											
CD93	22918	broad.mit.edu	37	chr20	23064997	23064997	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttcttctcctccctcttCgctctccgcttgcgatagac	3	15	5	18	3	4	1	0	0	4	1	9	2	6	1	4	0	1	2	4	0	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:23064997C>T	uc002wsv.2	-	1	1981	c.1833G>A	c.(1831-1833)GCG>GCA	p.A611A		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	611	Cytoplasmic (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					CCTCCCTCTTCGCTCTCCGCT	0.572													59	127					0	0	1	0	0		T	23064997	T	T	23064997	2	4	89	1	0	0	0	0	0	0	0	1	3050	871	31	1		1	CD93	20	23064997	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2571724	23064997	39960523	6346	60177											
CST9	128822	broad.mit.edu	37	chr20	23584228	23584228	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgcagcatccacagctgtgGacctgaggaaagctgatgcc	11	7	12	11	0	0	2	0	2	0	0	1	4	1	4	3	2	5	4	3	2	1	0	rs141512970	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:23584228G>A	uc002wtl.2	-	2	508	c.399C>T	c.(397-399)GTC>GTT	p.V133V		NM_001008693	NP_001008693	Q5W186	CST9_HUMAN	cystatin 9 precursor	133						extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1	Colorectal(13;0.0993)					CACAGCTGTGGACCTGAGGAA	0.522													46	85					0	0	1	0	0		A	23584228	A	A	23584228	2	1	89	1	0	0	0	0	0	0	0	1	3982	1161	41	4		4	CST9	20	23584228	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	519231	23584228	39441292	6347	60178											
CST3	1471	broad.mit.edu	37	chr20	23614628	23614628	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcgtagatctggaaagagcaGaatgctttctgtgaaaggaa	14	9	13	5	1	2	4	0	1	2	3	2	6	2	6	0	2	2	3	0	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:23614628G>A	uc002wtm.2	-	3	441	c.366C>T	c.(364-366)TTC>TTT	p.F122F	CST3_uc002wtn.1_Silent_p.F122F	NM_000099	NP_000090	P01034	CYTC_HUMAN	cystatin C precursor	122					defense response|fibril organization|negative regulation of blood vessel remodeling|negative regulation of collagen catabolic process|negative regulation of elastin catabolic process|negative regulation of extracellular matrix disassembly	extracellular space	beta-amyloid binding|cysteine-type endopeptidase inhibitor activity|protease binding			ovary(1)	1	Lung NSC(19;0.0789)|Colorectal(13;0.0993)|all_lung(19;0.169)					GGAAAGAGCAGAATGCTTTCT	0.542													27	38					0	0	1	0	0		A	23614628	A	A	23614628	2	1	89	1	0	0	0	0	0	0	0	1	3976	933	33	4		4	CST3	20	23614628	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	30400	23614628	39410892	6348	60179											
PYGB	5834	broad.mit.edu	37	chr20	25258996	25258996	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggctgaagcaggagtacttCgtggtggccgccacgctcca	7	7	14	13	4	0	1	0	1	0	0	2	2	1	2	3	4	2	4	3	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:25258996C>T	uc002wup.2	+	8	1006	c.897C>T	c.(895-897)TTC>TTT	p.F299F		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	299					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	AGGAGTACTTCGTGGTGGCCG	0.612													19	28					0	0	1	0	0		T	25258996	T	T	25258996	2	4	89	1	0	0	0	0	0	0	0	1	12885	883	31	1		1	PYGB	20	25258996	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1644368	25258996	37766524	6349	60180											
HM13	81502	broad.mit.edu	37	chr20	30137889	30137889	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggcaccaatgtgatggTgacagtggccaagtccttcg	9	11	12	9	1	0	2	0	2	0	0	2	2	1	2	3	3	0	1	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:30137889T>G	uc002wwe.2	+	7	803	c.689T>G	c.(688-690)GTG>GGG	p.V230G	HM13_uc002wwc.2_Missense_Mutation_p.V230G|HM13_uc002wwd.2_Missense_Mutation_p.V230G|HM13_uc002wwf.2_Missense_Mutation_p.V106G|HM13_uc010gdu.2_Missense_Mutation_p.V106G	NM_030789	NP_110416	Q8TCT9	HM13_HUMAN	minor histocompatibility antigen 13 isoform 1	230	Helical; (Potential).				membrane protein proteolysis	cell surface|endoplasmic reticulum membrane|integral to membrane|plasma membrane	aspartic-type endopeptidase activity|protein binding			breast(1)	1	all_cancers(5;3.44e-05)|Lung NSC(7;4.38e-06)|all_lung(7;7.65e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		all cancers(5;0.000479)|Colorectal(19;0.00202)|COAD - Colon adenocarcinoma(19;0.0264)			AATGTGATGGTGACAGTGGCC	0.567													74	159					0	0	1	0	0		G	30137889	G	G	30137889	3	3	89	1	0	0	0	0	1	0	0	0	7233	1696	59	5	782	5	HM13	20	30137889	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	4878893	30137889	32887631	6350	60181											
TPX2	22974	broad.mit.edu	37	chr20	30366672	30366672	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaacctgtcccaaggaaaGaaaagaacatttgatgaaac	18	8	7	8	0	1	4	1	2	0	2	2	5	2	5	2	1	3	0	2	1	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:30366672G>T	uc002wwp.1	+	10	1637	c.939G>T	c.(937-939)AAG>AAT	p.K313N	TPX2_uc010gdv.1_Missense_Mutation_p.K313N	NM_012112	NP_036244	Q9ULW0	TPX2_HUMAN	TPX2, microtubule-associated protein homolog	313					activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2			Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)			CCCAAGGAAAGAAAAGAACAT	0.418													47	89					1.03325e-14	1.16975e-14	1	1	0		T	30366672	T	T	30366672	3	4	89	1	0	0	0	0	1	0	0	0	16458	933	33	5	969	5	TPX2	20	30366672	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	228783	30366672	32658848	6351	60182											
DUSP15	128853	broad.mit.edu	37	chr20	30452790	30452790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtatcagcgaccgggatgcGaaggtaggtgatatcctgca	10	8	15	8	3	1	1	1	1	0	0	2	4	2	2	2	4	3	3	2	4	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:30452790G>A	uc002wwu.1	-	4	222	c.145C>T	c.(145-147)CGC>TGC	p.R49C	DUSP15_uc002wwv.1_5'UTR|DUSP15_uc002www.1_5'UTR|DUSP15_uc002wwx.1_Missense_Mutation_p.R52C			Q9H1R2	DUS15_HUMAN	RecName: Full=Dual specificity protein phosphatase 15;          EC=3.1.3.48;          EC=3.1.3.16; AltName: Full=Vaccinia virus VH1-related dual-specific protein phosphatase Y; AltName: Full=VH1-related member Y;	49						cytoplasm|plasma membrane	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			ACCGGGATGCGAAGGTAGGTG	0.572													30	41					0	0	1	0	0		A	30452790	A	A	30452790	3	1	89	1	0	0	0	0	1	0	0	0	4821	1058	37	1	569	1	DUSP15	20	30452790	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	86118	30452790	32572730	6352	60183											
TTLL9	164395	broad.mit.edu	37	chr20	30510818	30510818	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcccgtggagaactatgTggctcagcgttacattgaaa	11	12	10	8	2	1	2	1	1	0	1	2	3	2	2	1	2	3	2	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:30510818T>C	uc010gdx.1	+	8	879	c.626T>C	c.(625-627)GTG>GCG	p.V209A	TTLL9_uc002wwy.1_RNA|TTLL9_uc002wwz.1_RNA|TTLL9_uc002wxa.1_RNA|TTLL9_uc002wxb.1_RNA|TTLL9_uc010zto.1_RNA|TTLL9_uc002wxc.2_Missense_Mutation_p.V96A|TTLL9_uc010ztp.1_RNA|TTLL9_uc010ztq.1_RNA	NM_001008409	NP_001008409	Q3SXZ7	TTLL9_HUMAN	tubulin tyrosine ligase-like family, member 9	209	TTL.				protein modification process	cilium|microtubule|microtubule basal body	ATP binding|tubulin-tyrosine ligase activity			ovary(2)	2			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			GAGAACTATGTGGCTCAGCGT	0.368													42	59					0	0	1	0	0		C	30510818	C	C	30510818	3	2	89	1	0	0	0	0	1	0	0	0	16760	1696	59	3	652	3	TTLL9	20	30510818	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	58028	30510818	32514702	6353	60184											
TTLL9	164395	broad.mit.edu	37	chr20	30512815	30512815	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttccttgcctgacaggccGcaagtttgacctgcgtgtct	5	14	10	12	2	1	2	0	2	1	0	2	2	2	2	4	1	2	2	4	1	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:30512815G>A	uc010gdx.1	+	9	921	c.668G>A	c.(667-669)CGC>CAC	p.R223H	TTLL9_uc002wwy.1_RNA|TTLL9_uc002wwz.1_RNA|TTLL9_uc002wxa.1_RNA|TTLL9_uc002wxb.1_RNA|TTLL9_uc010zto.1_RNA|TTLL9_uc002wxc.2_Missense_Mutation_p.R110H|TTLL9_uc010ztp.1_RNA|TTLL9_uc010ztq.1_RNA	NM_001008409	NP_001008409	Q3SXZ7	TTLL9_HUMAN	tubulin tyrosine ligase-like family, member 9	223	TTL.				protein modification process	cilium|microtubule|microtubule basal body	ATP binding|tubulin-tyrosine ligase activity			ovary(2)	2			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			CTGACAGGCCGCAAGTTTGAC	0.343													15	24					0	0	1	0	0		A	30512815	A	A	30512815	3	1	89	1	0	0	0	0	1	0	0	0	16760	1087	38	1	698	1	TTLL9	20	30512815	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1997	30512815	32512705	6354	60185											
TTLL9	164395	broad.mit.edu	37	chr20	30522582	30522582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agacactcttcagggacatcGacaacatctttgtcaaaagc	14	9	7	11	1	4	1	2	0	2	1	5	3	4	2	0	1	2	0	0	1	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:30522582G>A	uc010gdx.1	+	12	1148	c.895G>A	c.(895-897)GAC>AAC	p.D299N	TTLL9_uc002wwy.1_RNA|TTLL9_uc002wwz.1_Intron|TTLL9_uc002wxa.1_RNA|TTLL9_uc002wxb.1_RNA|TTLL9_uc010zto.1_RNA|TTLL9_uc002wxc.2_Missense_Mutation_p.D201N|TTLL9_uc010ztp.1_RNA|TTLL9_uc010ztq.1_RNA	NM_001008409	NP_001008409	Q3SXZ7	TTLL9_HUMAN	tubulin tyrosine ligase-like family, member 9	299	TTL.				protein modification process	cilium|microtubule|microtubule basal body	ATP binding|tubulin-tyrosine ligase activity			ovary(2)	2			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			CAGGGACATCGACAACATCTT	0.587													38	79					0	0	1	0	0		A	30522582	A	A	30522582	3	1	89	1	0	0	0	0	1	0	0	0	16760	1058	37	1	937	1	TTLL9	20	30522582	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	9767	30522582	32502938	6355	60186											
TTLL9	164395	broad.mit.edu	37	chr20	30526969	30526969	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgggaagggagaagcgagtCgggggctttgacctcatgtg	9	7	18	7	3	1	2	1	1	0	1	2	5	1	3	1	4	1	1	1	4	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:30526969C>T	uc010gdx.1	+	14	1396	c.1143C>T	c.(1141-1143)GTC>GTT	p.V381V	TTLL9_uc002wwy.1_RNA|TTLL9_uc002wwz.1_Intron|TTLL9_uc002wxa.1_RNA|TTLL9_uc002wxb.1_RNA|TTLL9_uc010zto.1_RNA|TTLL9_uc002wxc.2_Silent_p.V283V|TTLL9_uc010ztp.1_Intron|TTLL9_uc010ztq.1_RNA	NM_001008409	NP_001008409	Q3SXZ7	TTLL9_HUMAN	tubulin tyrosine ligase-like family, member 9	381					protein modification process	cilium|microtubule|microtubule basal body	ATP binding|tubulin-tyrosine ligase activity			ovary(2)	2			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			AGAAGCGAGTCGGGGGCTTTG	0.577													24	62					0	0	1	0	0		T	30526969	T	T	30526969	2	4	89	1	0	0	0	0	0	0	0	1	16760	871	31	1		1	TTLL9	20	30526969	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4387	30526969	32498551	6356	60187											
PDRG1	81572	broad.mit.edu	37	chr20	30538170	30538170	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctctcgattctgattcctTttagtgtccaggtccacaat	7	15	6	13	1	2	1	0	1	2	0	6	2	5	1	4	1	0	0	4	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:30538170T>G	uc002wxd.2	-	2	227	c.108A>C	c.(106-108)AAA>AAC	p.K36N		NM_030815	NP_110442	Q9NUG6	PDRG1_HUMAN	p53 and DNA damage-regulated protein	36					protein folding	prefoldin complex	unfolded protein binding				0			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			TCTGATTCCTTTTAGTGTCCA	0.527													21	57					0	0	1	0	0		G	30538170	G	G	30538170	3	3	89	1	0	0	0	0	1	0	0	0	11709	1838	64	5	309	5	PDRG1	20	30538170	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	11201	30538170	32487350	6357	60188											
KIF3B	9371	broad.mit.edu	37	chr20	30919089	30919089	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaacccctgcatctcagctTtatccacagtctcgggggct	7	10	10	14	1	2	0	1	0	2	0	5	1	3	1	3	3	3	3	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:30919089T>G	uc002wxq.2	+	9	2378	c.2211T>G	c.(2209-2211)CTT>CTG	p.L737L	KIF3B_uc010ztw.1_Silent_p.L675L	NM_004798	NP_004789	O15066	KIF3B_HUMAN	kinesin family member 3B	737	Globular.				anterograde axon cargo transport|blood coagulation|determination of left/right symmetry|mitotic centrosome separation|plus-end-directed vesicle transport along microtubule|spindle assembly involved in mitosis	centrosome|cytosol|kinesin II complex|plus-end kinesin complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|Rho GTPase binding			central_nervous_system(3)|ovary(2)	5			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CATCTCAGCTTTATCCACAGT	0.498													18	61					0	0	1	0	0		G	30919089	G	G	30919089	2	3	89	1	0	0	0	0	0	0	0	1	8317	1828	64	5		5	KIF3B	20	30919089	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	380919	30919089	32106431	6358	60189											
COMMD7	149951	broad.mit.edu	37	chr20	31292274	31292274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttcccactttctccaattCgctgctcccagatgtcactg	7	13	5	16	1	2	1	1	0	1	1	6	1	4	1	3	0	1	2	3	0	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:31292274C>T	uc002wya.3	-	7	1062	c.445G>A	c.(445-447)GAA>AAA	p.E149K	COMMD7_uc010ged.2_Missense_Mutation_p.E148K|COMMD7_uc002wyb.2_Missense_Mutation_p.E149K	NM_053041	NP_444269	Q86VX2	COMD7_HUMAN	COMM domain containing 7 isoform 1	149	COMM.				negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|tumor necrosis factor-mediated signaling pathway		NF-kappaB binding			breast(1)	1						TTCTCCAATTCGCTGCTCCCA	0.368													5	12					0	0	1	0	0		T	31292274	T	T	31292274	3	4	89	1	0	0	0	0	1	0	0	0	3724	893	31	1	169	1	COMMD7	20	31292274	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	373185	31292274	31733246	6359	60190											
C20orf185	359710	broad.mit.edu	37	chr20	31652621	31652621	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactcctgcagaccaacggCgccctcgacatggacatcac	10	5	10	16	3	1	1	1	0	0	1	3	4	2	3	3	3	2	1	3	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:31652621C>T	uc002wym.1	+	8	894	c.894C>T	c.(892-894)GGC>GGT	p.G298G		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	298					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						AGACCAACGGCGCCCTCGACA	0.617													18	46					0	0	1	0	0		T	31652621	T	T	31652621	2	4	89	1	0	0	0	0	0	0	0	1	2100	755	27	1		1	C20orf185	20	31652621	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	360347	31652621	31372899	6360	60191											
C20orf185	359710	broad.mit.edu	37	chr20	31656729	31656729	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccagccaacatccatgtgCtgttctatgtccctaagggg	8	11	9	13	0	1	0	0	0	1	0	4	0	4	0	4	2	3	2	4	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:31656729C>T	uc002wym.1	+	10	1099	c.1099C>T	c.(1099-1101)CTG>TTG	p.L367L		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	367					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						CATCCATGTGCTGTTCTATGT	0.592													22	45					0	0	1	0	0		T	31656729	T	T	31656729	2	4	89	1	0	0	0	0	0	0	0	1	2100	796	28	2		2	C20orf185	20	31656729	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4108	31656729	31368791	6361	60192											
C20orf70	140683	broad.mit.edu	37	chr20	31756955	31756955	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgtcaagacaaaagatgCttcagctttggaaacttgtt	13	12	10	6	0	2	2	2	0	0	2	2	3	2	3	0	2	3	3	0	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:31756955C>A	uc002wyo.1	+	2	75	c.4C>A	c.(4-6)CTT>ATT	p.L2I		NM_080574	NP_542141	Q96DR5	SPLC2_HUMAN	chromosome 20 open reading frame 70 precursor	2						extracellular region	lipid binding			ovary(1)|central_nervous_system(1)	2						ACAAAAGATGCTTCAGCTTTG	0.473													63	113					2.60599e-31	3.19155e-31	1	1	0		A	31756955	A	A	31756955	3	1	89	1	0	0	0	0	1	0	0	0	2119	797	28	5	6	5	C20orf70	20	31756955	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	100226	31756955	31268565	6362	60193											
C20orf70	140683	broad.mit.edu	37	chr20	31760789	31760789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgcttcagaaatccagtgCttggcaactggccaagcaga	12	8	11	10	0	1	2	1	0	0	2	2	2	2	2	2	2	4	4	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:31760789C>T	uc002wyo.1	+	3	280	c.209C>T	c.(208-210)GCT>GTT	p.A70V		NM_080574	NP_542141	Q96DR5	SPLC2_HUMAN	chromosome 20 open reading frame 70 precursor	70						extracellular region	lipid binding			ovary(1)|central_nervous_system(1)	2						AAATCCAGTGCTTGGCAACTG	0.433													17	45					0	0	1	0	0		T	31760789	T	T	31760789	3	4	89	1	0	0	0	0	1	0	0	0	2119	797	28	2	215	2	C20orf70	20	31760789	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3834	31760789	31264731	6363	60194											
PLUNC	51297	broad.mit.edu	37	chr20	31829266	31829266	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtcctgcctgagttggtTcagggcaacgtaagtaggca	11	9	13	8	1	1	1	1	1	0	0	2	1	2	1	2	3	2	6	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:31829266T>G	uc002wyv.2	+	6	727	c.657T>G	c.(655-657)GTT>GTG	p.V219V	PLUNC_uc002wyt.3_Silent_p.V219V|PLUNC_uc002wyu.3_Silent_p.V219V	NM_130852	NP_570913	Q9NP55	PLUNC_HUMAN	palate, lung and nasal epithelium associated	219					innate immune response	extracellular region	lipid binding				0						CTGAGTTGGTTCAGGGCAACG	0.512													85	127					0	0	1	0	0		G	31829266	G	G	31829266	2	3	89	1	0	0	0	0	0	0	0	1	12134	1770	62	5		5	PLUNC	20	31829266	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	68477	31829266	31196254	6364	60195											
C20orf114	92747	broad.mit.edu	37	chr20	31879790	31879790	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcccaatctagtgaaaaAccaggtgagtggaatcaggg	13	7	12	9	0	2	2	1	2	1	0	2	3	2	3	3	3	2	0	3	3	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:31879790A>G	uc002wyw.1	+	6	754	c.593A>G	c.(592-594)AAC>AGC	p.N198S	C20orf114_uc010gej.1_Missense_Mutation_p.N198S	NM_033197	NP_149974	Q8TDL5	LPLC1_HUMAN	LPLUNC1 protein precursor	198						extracellular space	lipid binding			central_nervous_system(2)|skin(2)	4						CTAGTGAAAAACCAGGTGAGT	0.562											OREG0025868	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	47					0	0	1	0	0		G	31879790	G	G	31879790	3	3	89	1	0	0	0	0	1	0	0	0	2085	43	2	3	611	3	C20orf114	20	31879790	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	50524	31879790	31145730	6365	60196											
C20orf134	170487	broad.mit.edu	37	chr20	32255772	32255772	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcccaaaacgctgcggAcacgcctggcagacaccgtg	11	4	12	14	4	0	2	0	0	0	2	0	3	0	3	3	2	3	2	3	2	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:32255772A>G	uc002wzt.2	+	1	1469	c.469A>G	c.(469-471)ACA>GCA	p.T157A	NECAB3_uc002wzm.3_Intron|NECAB3_uc002wzn.3_Intron|NECAB3_uc002wzo.3_Intron|NECAB3_uc002wzp.3_Intron|NECAB3_uc002wzq.3_Intron|NECAB3_uc002wzr.3_Intron|NECAB3_uc010geo.2_Intron	NM_001024675	NP_001019846	Q5JWF8	CT134_HUMAN	hypothetical protein LOC170487	157										pancreas(1)	1						AACGCTGCGGACACGCCTGGC	0.706													3	6					0	0	1	0	0		G	32255772	G	G	32255772	3	3	89	1	0	0	0	0	1	0	0	0	2090	275	10	3	471	3	C20orf134	20	32255772	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	375982	32255772	30769748	6366	60197											
ZNF341	84905	broad.mit.edu	37	chr20	32371624	32371624	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaagtgtgcaagaagttCttccggcgggagcattatct	9	11	12	9	2	2	1	0	0	2	1	3	2	3	2	2	2	3	3	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:32371624C>A	uc002wzy.2	+	12	1826	c.1806C>A	c.(1804-1806)TTC>TTA	p.F602L	ZNF341_uc002wzx.2_Missense_Mutation_p.F595L|ZNF341_uc010geq.2_Missense_Mutation_p.F512L|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	602	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GCAAGAAGTTCTTCCGGCGGG	0.532													35	58					6.53348e-20	7.6944e-20	1	1	0		A	32371624	A	A	32371624	3	1	89	1	0	0	0	0	1	0	0	0	17882	912	32	5	1831	5	ZNF341	20	32371624	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	115852	32371624	30653896	6367	60198											
RALY	22913	broad.mit.edu	37	chr20	32660006	32660006	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcagatgtggagaccatcttCtctaagtatggccgtgtggc	8	12	12	9	1	3	2	1	0	2	2	4	3	3	2	2	3	0	1	2	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:32660006C>T	uc002xab.2	+	3	424	c.126C>T	c.(124-126)TTC>TTT	p.F42F	RALY_uc010zui.1_Silent_p.F42F|RALY_uc002xac.2_Silent_p.F42F|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Silent_p.F42F	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	42	RRM.					catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1						AGACCATCTTCTCTAAGTATG	0.512													15	73					0	0	1	0	0		T	32660006	T	T	32660006	2	4	89	1	0	0	0	0	0	0	0	1	13044	912	32	4		4	RALY	20	32660006	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	288382	32660006	30365514	6368	60199											
EIF2S2	8894	broad.mit.edu	37	chr20	32677684	32677684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaggattgtgtccggtgatCggcatgtgtgacaagtgaca	9	10	15	7	2	0	3	0	3	0	0	2	4	1	4	1	3	0	2	1	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:32677684C>T	uc002xaf.2	-	9	1023	c.854G>A	c.(853-855)CGA>CAA	p.R285Q	EIF2S2_uc002xag.2_Missense_Mutation_p.R282Q|EIF2S2_uc010ges.2_Missense_Mutation_p.R225Q	NM_003908	NP_003899	P20042	IF2B_HUMAN	eukaryotic translation initiation factor 2 beta	285	C4-type (Potential).					cytosol|eukaryotic translation initiation factor 2 complex	metal ion binding|protein binding|translation initiation factor activity			large_intestine(1)	1						GTCCGGTGATCGGCATGTGTG	0.448													36	86					0	0	1	0	0		T	32677684	T	T	32677684	3	4	89	1	0	0	0	0	1	0	0	0	5016	884	31	1	151	1	EIF2S2	20	32677684	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	17678	32677684	30347836	6369	60200											
GSS	2937	broad.mit.edu	37	chr20	33516680	33516680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccactcccgctgccacaccaCcatctgcatgctcgatggct	7	8	7	19	2	1	0	0	0	1	0	3	1	2	0	5	1	3	4	5	1	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:33516680C>T	uc002xbg.2	-	13	1456	c.1376G>A	c.(1375-1377)GGT>GAT	p.G459D	GSS_uc010zun.1_Missense_Mutation_p.G331D|GSS_uc010zuo.1_Missense_Mutation_p.G348D|GSS_uc010zup.1_Missense_Mutation_p.G390D|GSS_uc002xbh.2_RNA	NM_000178	NP_000169	P48637	GSHB_HUMAN	glutathione synthetase	459					nervous system development|response to oxidative stress|xenobiotic metabolic process	cytosol	ATP binding|glutathione binding|glutathione synthase activity|magnesium ion binding|protein homodimerization activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(18;0.035)		Glutathione(DB00143)|Glycine(DB00145)|L-Cysteine(DB00151)	TGCCACACCACCATCTGCATG	0.542													30	40					0	0	1	0	0		T	33516680	T	T	33516680	3	4	89	1	0	0	0	0	1	0	0	0	6845	507	18	4	52	4	GSS	20	33516680	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	838996	33516680	29508840	6370	60201											
EDEM2	55741	broad.mit.edu	37	chr20	33703611	33703611	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagggggtgatcaccgcgtcGaaggtggacccattgttgtg	7	10	16	8	3	1	1	1	1	0	0	2	3	1	2	2	4	0	1	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:33703611G>A	uc002xbo.2	-	11	1462	c.1362C>T	c.(1360-1362)TTC>TTT	p.F454F	EDEM2_uc010zus.1_Silent_p.F233F|EDEM2_uc002xbq.2_Silent_p.F417F|EDEM2_uc010zut.1_Silent_p.F413F|EDEM2_uc002xbp.2_Silent_p.F302F|EDEM2_uc002xbn.2_Silent_p.F302F|EDEM2_uc002xbr.2_RNA|EDEM2_uc010zuu.1_Silent_p.F178F	NM_018217	NP_060687	Q9BV94	EDEM2_HUMAN	ER degradation enhancer, mannosidase alpha-like	454					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00936)			TCACCGCGTCGAAGGTGGACC	0.577													26	49					0	0	1	0	0		A	33703611	A	A	33703611	2	1	89	1	0	0	0	0	0	0	0	1	4918	1049	37	1		1	EDEM2	20	33703611	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	186931	33703611	29321909	6371	60202											
EIF6	3692	broad.mit.edu	37	chr20	33868540	33868540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagagccgctcctccacccGcctaatctgcactgtgtctg	6	10	9	16	2	2	1	0	1	2	1	4	2	4	1	5	0	2	2	5	0	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:33868540G>A	uc002xbv.1	-	3	502	c.286C>T	c.(286-288)CGG>TGG	p.R96W	EDEM2_uc010zuv.1_5'Flank|EIF6_uc002xbx.1_Missense_Mutation_p.R96W|EIF6_uc002xbz.1_Intron|EIF6_uc002xby.1_Intron	NM_181468	NP_852133	P56537	IF6_HUMAN	eukaryotic translation initiation factor 6	96					mature ribosome assembly	cytoplasm|nucleolus	protein binding|ribosome binding|translation initiation factor activity			pancreas(1)	1			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TCCTCCACCCGCCTAATCTGC	0.587													15	21					0	0	1	0	0		A	33868540	A	A	33868540	3	1	89	1	0	0	0	0	1	0	0	0	5053	1086	38	1	467	1	EIF6	20	33868540	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	164929	33868540	29156980	6372	60203											
CEP250	11190	broad.mit.edu	37	chr20	34054861	34054861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgggaggttgtgacattccGacgccacttcctggaaatga	9	9	13	10	3	0	2	0	2	0	0	2	5	2	4	3	3	0	1	3	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:34054861G>A	uc002xcm.2	+	9	1234	c.563G>A	c.(562-564)CGA>CAA	p.R188Q	CEP250_uc010zve.1_5'UTR|CEP250_uc010gfe.1_RNA|CEP250_uc010zvd.1_RNA|CEP250_uc002xco.2_5'UTR	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	188					centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			GTGACATTCCGACGCCACTTC	0.532													36	50					0	0	1	0	0		A	34054861	A	A	34054861	3	1	89	1	0	0	0	0	1	0	0	0	3255	1058	37	1	581	1	CEP250	20	34054861	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	186321	34054861	28970659	6373	60204											
CEP250	11190	broad.mit.edu	37	chr20	34099337	34099337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtggcccaggcccctgaggCcactgtcctggaggcagaga	7	5	15	14	1	0	2	0	1	0	1	1	4	1	3	5	5	0	1	5	5	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:34099337C>T	uc002xcm.2	+	36	7882	c.7211C>T	c.(7210-7212)GCC>GTC	p.A2404V	CEP250_uc010zve.1_Missense_Mutation_p.A1772V	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	2404					centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			GCCCCTGAGGCCACTGTCCTG	0.637													18	43					0	0	1	0	0		T	34099337	T	T	34099337	3	4	89	1	0	0	0	0	1	0	0	0	3255	739	26	2	7337	2	CEP250	20	34099337	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	44476	34099337	28926183	6374	60205											
SPAG4	6676	broad.mit.edu	37	chr20	34206049	34206049	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacctggtctctcctttggaGaatgtgagttggggagactg	7	13	14	7	0	1	3	0	1	1	2	3	5	2	3	2	4	1	1	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:34206049G>A	uc002xdb.1	+	5	696	c.579G>A	c.(577-579)GAG>GAA	p.E193E	SPAG4_uc010zvi.1_Silent_p.E116E	NM_003116	NP_003107	Q9NPE6	SPAG4_HUMAN	sperm associated antigen 4	193					spermatogenesis	cilium|flagellar axoneme|integral to membrane	structural molecule activity				0	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			CTCCTTTGGAGAATGTGAGTT	0.582													11	25					0	0	1	0	0		A	34206049	A	A	34206049	2	1	89	1	0	0	0	0	0	0	0	1	15005	933	33	4		4	SPAG4	20	34206049	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	106712	34206049	28819471	6375	60206											
CPNE1	8904	broad.mit.edu	37	chr20	34220780	34220780	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgggtcagacttggagccGatgtccttgtcaatgagatg	9	11	14	7	1	2	2	2	1	0	2	3	5	3	3	2	2	1	0	2	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:34220780G>A	uc002xdf.2	-	4	429	c.66C>T	c.(64-66)ATC>ATT	p.I22I	CPNE1_uc002xdc.2_5'Flank|CPNE1_uc010zvj.1_Silent_p.I27I|CPNE1_uc002xde.2_Silent_p.I22I|CPNE1_uc002xdg.2_Silent_p.I22I|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Silent_p.I22I|CPNE1_uc002xdi.2_Silent_p.I22I|CPNE1_uc002xdj.2_Silent_p.I22I|CPNE1_uc002xdk.2_Silent_p.I22I|CPNE1_uc002xdl.2_Silent_p.I22I|CPNE1_uc002xdm.2_Silent_p.I22I|CPNE1_uc010gfk.1_Silent_p.I22I|CPNE1_uc002xdn.1_Intron|CPNE1_uc002xdo.1_Intron|CPNE1_uc002xdp.1_RNA	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	22	C2 1.				lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			ACTTGGAGCCGATGTCCTTGT	0.567													34	64					0	0	1	0	0		A	34220780	A	A	34220780	2	1	89	1	0	0	0	0	0	0	0	1	3814	1048	37	1		1	CPNE1	20	34220780	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14731	34220780	28804740	6376	60207											
RBM12	10137	broad.mit.edu	37	chr20	34241148	34241148	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgctcttcacctcctgcActaggtattcctgcactggg	6	12	9	14	0	2	0	1	0	1	0	4	0	4	0	3	2	3	5	3	2	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:34241148A>G	uc002xdq.2	-	3	2329	c.2097T>C	c.(2095-2097)AGT>AGC	p.S699S	CPNE1_uc010zvj.1_Intron|CPNE1_uc002xde.2_Intron|CPNE1_uc002xdf.2_Intron|CPNE1_uc002xdg.2_Intron|CPNE1_uc010gfi.2_Intron|CPNE1_uc010gfj.2_Intron|CPNE1_uc002xdh.2_Intron|CPNE1_uc002xdi.2_Intron|CPNE1_uc002xdj.2_Intron|CPNE1_uc002xdk.2_Intron|CPNE1_uc002xdl.2_Intron|CPNE1_uc002xdm.2_Intron|CPNE1_uc010gfk.1_Intron|CPNE1_uc002xdn.1_Intron|CPNE1_uc002xdo.1_Intron|CPNE1_uc002xdp.1_Intron|RBM12_uc002xdr.2_Silent_p.S699S|RBM12_uc002xds.2_Silent_p.S699S	NM_152838	NP_690051	Q9NTZ6	RBM12_HUMAN	RNA binding motif protein 12	699	Gly-rich.|Pro-rich.					nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			CACCTCCTGCACTAGGTATTC	0.532													36	89					0	0	1	0	0		G	34241148	G	G	34241148	2	3	89	1	0	0	0	0	0	0	0	1	13138	156	6	3		3	RBM12	20	34241148	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	20368	34241148	28784372	6377	60208											
C20orf117	140710	broad.mit.edu	37	chr20	35437145	35437145	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctgctggtcctccttcAgctgccgggggacaagagct	5	9	12	15	1	2	1	1	0	1	1	4	2	4	2	4	3	4	3	4	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:35437145A>C	uc002xgd.1	-	8	2198	c.1871T>G	c.(1870-1872)CTG>CGG	p.L624R	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	624											0		Myeloproliferative disorder(115;0.00874)				GTCCTCCTTCAGCTGCCGGGG	0.647											OREG0025909	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	7					0	0	1	0	0		C	35437145	C	C	35437145	3	2	89	1	0	0	0	0	1	0	0	0	2086	202	7	5	2494	5	C20orf117	20	35437145	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1195997	35437145	27588375	6378	60209											
SAMHD1	25939	broad.mit.edu	37	chr20	35539642	35539642	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcagcttagtataggcttCcatgtcgtcaattgctgtag	8	15	10	8	1	2	0	2	0	0	0	4	0	3	0	1	1	2	5	1	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:35539642C>A	uc002xgh.1	-	11	1379	c.1249G>T	c.(1249-1251)GAA>TAA	p.E417*		NM_015474	NP_056289	Q9Y3Z3	SAMH1_HUMAN	SAM domain- and HD domain-containing protein 1	417					defense response to virus|innate immune response|regulation of innate immune response	nucleus	metal ion binding|phosphoric diester hydrolase activity				0		Myeloproliferative disorder(115;0.00878)				GTATAGGCTTCCATGTCGTCA	0.383													57	71					3.37043e-27	4.08864e-27	1	1	0		A	35539642	A	A	35539642	4	1	89	1	0	0	0	0	0	1	0	0	13853	864	30	5	655	5	SAMHD1	20	35539642	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	102497	35539642	27485878	6379	60210											
KIAA0406	9675	broad.mit.edu	37	chr20	36641180	36641180	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttattgcactgggcttggaTttcaggactctcatcattta	8	17	8	8	0	3	0	3	0	1	0	4	2	3	2	0	3	1	2	0	3	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:36641180T>G	uc002xhl.2	-	3	1248	c.1039A>C	c.(1039-1041)ATC>CTC	p.I347L	KIAA0406_uc002xhm.2_Missense_Mutation_p.I347L	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	347							binding				0		Myeloproliferative disorder(115;0.00874)				TGGGCTTGGATTTCAGGACTC	0.463													72	111					0	0	1	0	0		G	36641180	G	G	36641180	3	3	89	1	0	0	0	0	1	0	0	0	8189	1493	52	5	2258	5	KIAA0406	20	36641180	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1101538	36641180	26384340	6380	60211											
TGM2	7052	broad.mit.edu	37	chr20	36758717	36758717	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtggaggcccatgtggagCggcagcaggtccattctcac	7	9	14	11	1	1	0	1	0	1	0	3	2	2	2	2	5	2	2	2	5	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:36758717C>T	uc002xhr.2	-	13	2068	c.1968G>A	c.(1966-1968)CCG>CCA	p.P656P	TGM2_uc002xhq.2_Silent_p.P257P|TGM2_uc010zvx.1_Silent_p.P575P|TGM2_uc010zvy.1_Silent_p.P596P	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	656					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)	CCATGTGGAGCGGCAGCAGGT	0.622													3	10					0	0	1	0	0		T	36758717	T	T	36758717	2	4	89	1	0	0	0	0	0	0	0	1	15855	755	27	1		1	TGM2	20	36758717	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	117537	36758717	26266803	6381	60212											
BPI	671	broad.mit.edu	37	chr20	36932692	36932692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggtcgccataggcaccGccgtgacagcggccgtcaac	7	6	13	15	5	1	1	1	1	0	0	2	1	1	1	4	3	3	2	4	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:36932692G>A	uc002xib.2	+	1	141	c.79G>A	c.(79-81)GCC>ACC	p.A27T		NM_001725	NP_001716	P17213	BPI_HUMAN	bactericidal/permeability-increasing protein	27					defense response to bacterium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of macrophage activation|negative regulation of tumor necrosis factor production	extracellular region|integral to plasma membrane	lipid binding|lipopolysaccharide binding			ovary(4)	4		Myeloproliferative disorder(115;0.00878)				CATAGGCACCGCCGTGACAGC	0.642													33	55					0	0	1	0	0		A	36932692	A	A	36932692	3	1	89	1	0	0	0	0	1	0	0	0	1493	1087	38	1	81	1	BPI	20	36932692	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	173975	36932692	26092828	6382	60213											
RALGAPB	57148	broad.mit.edu	37	chr20	37174905	37174905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcattatgcagttgctcggcGcatttccttcacctagtggt	6	14	10	11	2	1	0	1	0	0	0	3	0	2	0	2	2	2	5	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:37174905G>A	uc002xiw.2	+	19	2991	c.2734G>A	c.(2734-2736)GCA>ACA	p.A912T	RALGAPB_uc002xix.2_Missense_Mutation_p.A908T|RALGAPB_uc002xiy.1_Missense_Mutation_p.A912T|RALGAPB_uc002xiz.2_Missense_Mutation_p.A690T|RALGAPB_uc002xja.1_Missense_Mutation_p.A639T	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	912					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						GTTGCTCGGCGCATTTCCTTC	0.423													44	58					0	0	1	0	0		A	37174905	A	A	37174905	3	1	89	1	0	0	0	0	1	0	0	0	13040	1087	38	1	2804	1	RALGAPB	20	37174905	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	242213	37174905	25850615	6383	60214											
ACTR5	79913	broad.mit.edu	37	chr20	37383680	37383680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cattttccagcaagctcctgGgcagcactctgacctctgag	8	10	9	14	0	2	2	0	2	2	0	4	2	4	2	3	1	3	4	3	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:37383680G>A	uc002xjd.2	+	4	881	c.856G>A	c.(856-858)GGC>AGC	p.G286S		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	286					DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)				CAAGCTCCTGGGCAGCACTCT	0.512													24	45					0	0	1	0	0		A	37383680	A	A	37383680	3	1	89	1	0	0	0	0	1	0	0	0	215	1232	43	4	870	4	ACTR5	20	37383680	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	208775	37383680	25641840	6384	60215											
DHX35	60625	broad.mit.edu	37	chr20	37632517	37632517	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttcctttgagcaaatgaaAgtgtttgaaagggtgtcacg	11	12	11	7	1	1	3	1	3	0	0	2	3	2	3	2	1	1	2	2	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:37632517A>C	uc002xjh.2	+	11	989	c.978A>C	c.(976-978)AAA>AAC	p.K326N	DHX35_uc010zwa.1_Missense_Mutation_p.K171N|DHX35_uc010zwb.1_Missense_Mutation_p.K171N|DHX35_uc010zwc.1_Missense_Mutation_p.K295N	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	326	Helicase C-terminal.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AGCAAATGAAAGTGTTTGAAA	0.498													65	102					0	0	1	0	0		C	37632517	C	C	37632517	3	2	89	1	0	0	0	0	1	0	0	0	4514	69	3	5	1020	5	DHX35	20	37632517	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	248837	37632517	25393003	6385	60216											
DHX35	60625	broad.mit.edu	37	chr20	37647465	37647465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtctggacaaagactgtcGcctaactgaaccgcttggca	11	8	11	11	2	1	2	0	1	1	1	2	3	1	3	2	3	2	2	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:37647465G>A	uc002xjh.2	+	15	1432	c.1421G>A	c.(1420-1422)CGC>CAC	p.R474H	DHX35_uc010zwa.1_Missense_Mutation_p.R319H|DHX35_uc010zwb.1_Missense_Mutation_p.R319H|DHX35_uc010zwc.1_Missense_Mutation_p.R443H	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	474						catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AAAGACTGTCGCCTAACTGAA	0.443													74	119					0	0	1	0	0		A	37647465	A	A	37647465	3	1	89	1	0	0	0	0	1	0	0	0	4514	1087	38	1	1479	1	DHX35	20	37647465	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14948	37647465	25378055	6386	60217											
DHX35	60625	broad.mit.edu	37	chr20	37652368	37652368	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatttgctgtggaggagggCgaccacctcactatgctcaa	11	9	11	10	1	2	0	2	0	0	0	2	3	2	2	2	3	2	2	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:37652368C>T	uc002xjh.2	+	17	1640	c.1629C>T	c.(1627-1629)GGC>GGT	p.G543G	DHX35_uc010zwa.1_Silent_p.G388G|DHX35_uc010zwb.1_Silent_p.G388G|DHX35_uc010zwc.1_Silent_p.G512G	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	543						catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				TGGAGGAGGGCGACCACCTCA	0.388													26	47					0	0	1	0	0		T	37652368	T	T	37652368	2	4	89	1	0	0	0	0	0	0	0	1	4514	755	27	1		1	DHX35	20	37652368	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4903	37652368	25373152	6387	60218											
TOP1	7150	broad.mit.edu	37	chr20	39709828	39709828	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgattataaacctaagaaaaTtaaaacagaagataccaaga	23	8	5	5	0	0	5	0	1	0	4	0	5	0	5	2	0	3	0	2	0	11	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:39709828T>A	uc002xjl.2	+	7	701	c.455T>A	c.(454-456)ATT>AAT	p.I152N	TOP1_uc010gge.1_RNA	NM_003286	NP_003277	P11387	TOP1_HUMAN	DNA topoisomerase I	152	Lys-rich.				DNA topological change|interspecies interaction between organisms|phosphorylation|programmed cell death|response to drug	chromosome|nucleolus|nucleoplasm	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity|protein binding			breast(3)|ovary(2)|central_nervous_system(1)|kidney(1)	7		Myeloproliferative disorder(115;0.00878)			Irinotecan(DB00762)|Lucanthone(DB04967)|Topotecan(DB01030)	CCTAAGAAAATTAAAACAGAA	0.368			T	NUP98	AML*								22	46					0	0	1	0	0		A	39709828	A	A	39709828	3	1	89	1	0	0	0	0	1	0	0	0	16389	1493	52	5	481	5	TOP1	20	39709828	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2057460	39709828	23315692	6388	60219											
PLCG1	5335	broad.mit.edu	37	chr20	39793708	39793708	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccgacgggctcccctcAcccaaccagcttaagaggaa	10	6	9	16	2	2	1	1	0	1	1	3	3	3	2	5	2	3	2	5	2	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:39793708A>C	uc002xjp.1	+	13	1474	c.1353A>C	c.(1351-1353)TCA>TCC	p.S451S	PLCG1_uc002xjo.1_Silent_p.S451S|PLCG1_uc010zwe.1_Silent_p.S77S|PLCG1_uc010ggf.2_5'Flank	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	451	PI-PLC X-box.				activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				GGCTCCCCTCACCCAACCAGC	0.592													22	34					0	0	1	0	0		C	39793708	C	C	39793708	2	2	89	1	0	0	0	0	0	0	0	1	12054	146	6	5		5	PLCG1	20	39793708	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	83880	39793708	23231812	6389	60220											
ZHX3	23051	broad.mit.edu	37	chr20	39833469	39833469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccttcaggcaaggtctcagCgggctgggcctccatgctgg	5	9	14	13	1	2	0	2	0	1	0	5	0	4	0	3	5	2	3	3	5	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:39833469C>T	uc002xjs.1	-	3	466	c.88G>A	c.(88-90)GCT>ACT	p.A30T	ZHX3_uc002xjq.1_Missense_Mutation_p.A30T|ZHX3_uc002xjr.1_Missense_Mutation_p.A30T|ZHX3_uc002xjt.1_Missense_Mutation_p.A30T|ZHX3_uc002xju.1_Missense_Mutation_p.A30T|ZHX3_uc002xjv.1_Missense_Mutation_p.A30T|ZHX3_uc002xjw.1_Missense_Mutation_p.A30T|ZHX3_uc010ggg.1_Missense_Mutation_p.A30T	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	30	Required for nuclear localization.				negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				AAGGTCTCAGCGGGCTGGGCC	0.577													24	48					0	0	1	0	0		T	39833469	T	T	39833469	3	4	89	1	0	0	0	0	1	0	0	0	17702	768	27	1	2790	1	ZHX3	20	39833469	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	39761	39833469	23192051	6390	60221											
LPIN3	64900	broad.mit.edu	37	chr20	39978806	39978806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctctgtggctggcggcGtggaccctttgggactccca	4	10	13	14	2	1	0	0	0	1	0	2	2	2	2	3	5	1	1	3	5	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:39978806G>A	uc002xjx.2	+	7	962	c.871G>A	c.(871-873)GTG>ATG	p.V291M	LPIN3_uc010ggh.2_Missense_Mutation_p.V292M|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	291					fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				GGCTGGCGGCGTGGACCCTTT	0.642													12	26					0	0	1	0	0		A	39978806	A	A	39978806	3	1	89	1	0	0	0	0	1	0	0	0	8938	1145	40	1	893	1	LPIN3	20	39978806	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	145337	39978806	23046714	6391	60222											
LPIN3	64900	broad.mit.edu	37	chr20	39986541	39986541	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaatgggtacaagttcctgTactgctcggcgcgggccatt	8	10	13	10	3	0	0	0	0	0	0	2	1	1	0	2	3	3	4	2	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:39986541T>G	uc002xjx.2	+	17	2150	c.2059T>G	c.(2059-2061)TAC>GAC	p.Y687D	LPIN3_uc010ggh.2_Missense_Mutation_p.Y688D|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	687	C-LIP.				fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				CAAGTTCCTGTACTGCTCGGC	0.622													27	51					0	0	1	0	0		G	39986541	G	G	39986541	3	3	89	1	0	0	0	0	1	0	0	0	8938	1638	57	5	2121	5	LPIN3	20	39986541	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	7735	39986541	23038979	6392	60223											
EMILIN3	90187	broad.mit.edu	37	chr20	39991292	39991292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccagagtcggtgcagccgtCggtccacgtactcctccagc	6	7	11	17	4	0	1	0	0	0	1	5	1	3	1	5	2	4	2	5	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:39991292C>T	uc002xjy.1	-	4	1141	c.917G>A	c.(916-918)CGA>CAA	p.R306Q		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	306						proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				GTGCAGCCGTCGGTCCACGTA	0.677													12	12					0	0	1	0	0		T	39991292	T	T	39991292	3	4	89	1	0	0	0	0	1	0	0	0	5103	884	31	1	1387	1	EMILIN3	20	39991292	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4751	39991292	23034228	6393	60224											
PTPRT	11122	broad.mit.edu	37	chr20	40713337	40713337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcacaggcagtggaccacaGtacgtccctccctcccgtca	8	7	8	18	2	2	0	2	0	0	0	5	1	5	1	4	2	1	2	4	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:40713337G>A	uc002xkg.2	-	29	4305	c.4121C>T	c.(4120-4122)ACT>ATT	p.T1374I	PTPRT_uc010ggj.2_Missense_Mutation_p.T1393I|PTPRT_uc010ggi.2_Missense_Mutation_p.T577I	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1374	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GTGGACCACAGTACGTCCCTC	0.607													8	28					0	0	1	0	0		A	40713337	A	A	40713337	3	1	89	1	0	0	0	0	1	0	0	0	12837	1029	36	4	216	4	PTPRT	20	40713337	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	722045	40713337	22312183	6394	60225											
PTPRT	11122	broad.mit.edu	37	chr20	40911144	40911144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cataccttttgtagccagacGaacacagttgattttggtct	10	14	8	9	1	1	2	0	1	1	1	1	3	1	2	2	1	3	2	2	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:40911144G>A	uc002xkg.2	-	13	2345	c.2161C>T	c.(2161-2163)CGT>TGT	p.R721C	PTPRT_uc010ggj.2_Missense_Mutation_p.R721C	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	721	Extracellular (Potential).|Fibronectin type-III 4.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GTAGCCAGACGAACACAGTTG	0.348													31	79					0	0	1	0	0		A	40911144	A	A	40911144	3	1	89	1	0	0	0	0	1	0	0	0	12837	1058	37	1	2301	1	PTPRT	20	40911144	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	197807	40911144	22114376	6395	60226											
PTPRT	11122	broad.mit.edu	37	chr20	41306583	41306583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtcgtgtgaggagcactCggatctcatactcaacatcg	9	10	11	11	3	2	1	2	1	1	0	6	3	2	3	0	3	3	1	0	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:41306583C>T	uc002xkg.2	-	7	1260	c.1076G>A	c.(1075-1077)CGA>CAA	p.R359Q	PTPRT_uc010ggj.2_Missense_Mutation_p.R359Q	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	359	Extracellular (Potential).|Fibronectin type-III 1.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GAGGAGCACTCGGATCTCATA	0.567													57	90					0	0	1	0	0		T	41306583	T	T	41306583	3	4	89	1	0	0	0	0	1	0	0	0	12837	884	31	1	3410	1	PTPRT	20	41306583	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	395439	41306583	21718937	6396	60227											
MYBL2	4605	broad.mit.edu	37	chr20	42331534	42331534	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaagaccctgcccttctcGccctcccaggtgcgtggacc	5	9	10	17	2	1	1	0	0	1	1	3	2	2	2	5	2	2	1	5	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:42331534G>A	uc002xlb.1	+	8	1571	c.1356G>A	c.(1354-1356)TCG>TCA	p.S452S	MYBL2_uc010zwj.1_Silent_p.S428S|MYBL2_uc002xla.1_Silent_p.S452S	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	452						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TGCCCTTCTCGCCCTCCCAGG	0.428													15	48					0	0	1	0	0		A	42331534	A	A	42331534	2	1	89	1	0	0	0	0	0	0	0	1	10028	1074	38	1		1	MYBL2	20	42331534	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1024951	42331534	20693986	6397	60228											
TOX2	84969	broad.mit.edu	37	chr20	42680169	42680169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccactcaggaagaggagtCggaagtgcatttcaaggtat	12	9	12	8	1	2	1	2	0	0	1	4	4	3	4	1	4	1	2	1	4	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:42680169C>T	uc002xlf.3	+	4	679	c.662C>T	c.(661-663)TCG>TTG	p.S221L	TOX2_uc010ggo.2_Missense_Mutation_p.S212L|TOX2_uc002xle.3_Missense_Mutation_p.S170L|TOX2_uc010ggp.2_Missense_Mutation_p.S170L|TOX2_uc002xlg.2_Missense_Mutation_p.S170L|TOX2_uc010zwk.1_Missense_Mutation_p.S90L	NM_001098798	NP_001092268	Q96NM4	TOX2_HUMAN	TOX high mobility group box family member 2	221					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)			GAAGAGGAGTCGGAAGTGCAT	0.632													14	32					0	0	1	0	0		T	42680169	T	T	42680169	3	4	89	1	0	0	0	0	1	0	0	0	16404	893	31	1	779	1	TOX2	20	42680169	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	348635	42680169	20345351	6398	60229											
HNF4A	3172	broad.mit.edu	37	chr20	43057088	43057088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcccactcacctcagcaacGgacagatgtgtgagtggccc	9	7	11	14	1	2	2	2	1	0	1	2	3	2	3	3	2	3	1	3	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:43057088G>A	uc002xma.2	+	9	1332	c.1243G>A	c.(1243-1245)GGA>AGA	p.G415R	HNF4A_uc002xlu.2_Missense_Mutation_p.G393R|HNF4A_uc002xlv.2_Missense_Mutation_p.G393R|HNF4A_uc002xlz.2_Missense_Mutation_p.G415R|HNF4A_uc010ggq.2_Missense_Mutation_p.G408R	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	415					blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			CCTCAGCAACGGACAGATGTG	0.582													11	34					0	0	1	0	0		A	43057088	A	A	43057088	3	1	89	1	0	0	0	0	1	0	0	0	7269	1117	39	1	1455	1	HNF4A	20	43057088	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	376919	43057088	19968432	6399	60230											
RBPJL	11317	broad.mit.edu	37	chr20	43940866	43940866	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtgagccccctaggaattCggctgcgccaagaccctgta	8	8	11	14	2	0	2	0	1	0	1	1	3	0	3	4	2	2	2	4	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:43940866C>T	uc002xns.2	+	6	522	c.450C>T	c.(448-450)TTC>TTT	p.F150F	RBPJL_uc002xnt.2_Silent_p.F150F	NM_014276	NP_055091	Q9UBG7	RBPJL_HUMAN	recombining binding protein L	150					signal transduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CCTAGGAATTCGGCTGCGCCA	0.542											OREG0025979	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	39					0	0	1	0	0		T	43940866	T	T	43940866	2	4	89	1	0	0	0	0	0	0	0	1	13187	883	31	1		1	RBPJL	20	43940866	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	883778	43940866	19084654	6400	60231											
TP53TG5	27296	broad.mit.edu	37	chr20	44003970	44003970	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccctcgatgtccttggAacctcaggctctatatgctt	7	14	7	13	1	3	0	2	0	1	0	6	2	5	1	3	2	2	2	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:44003970A>C	uc002xny.2	-	4	558	c.477T>G	c.(475-477)GTT>GTG	p.V159V	SYS1_uc002xnw.1_3'UTR|SYS1-DBNDD2_uc002xnx.2_Intron	NM_014477	NP_055292	Q9Y2B4	T53G5_HUMAN	TP53-target gene 5 protein	159					intracellular signal transduction|negative regulation of cell growth	cytoplasm|nucleus				central_nervous_system(1)	1						ATGTCCTTGGAACCTCAGGCT	0.537													12	182					0	0	1	0	0		C	44003970	C	C	44003970	2	2	89	1	0	0	0	0	0	0	0	1	16417	233	9	5		5	TP53TG5	20	44003970	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	63104	44003970	19021550	6401	60232											
WFDC8	90199	broad.mit.edu	37	chr20	44180804	44180804	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcagaaaccttttttgActttatggggtaaaagaaaa	14	12	11	4	0	0	3	0	1	0	2	0	3	0	3	1	3	1	2	1	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:44180804A>C	uc002xow.2	-	6	666	c.587T>G	c.(586-588)GTC>GGC	p.V196G	WFDC8_uc002xox.2_Missense_Mutation_p.V196G	NM_181510	NP_852611	Q8IUA0	WFDC8_HUMAN	WAP four-disulfide core domain 8 precursor	196	WAP 3.					extracellular region	serine-type endopeptidase inhibitor activity				0		Myeloproliferative disorder(115;0.0122)				ACCTTTTTTGACTTTATGGGG	0.413													28	73					0	0	1	0	0		C	44180804	C	C	44180804	3	2	89	1	0	0	0	0	1	0	0	0	17382	289	10	5	142	5	WFDC8	20	44180804	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	176834	44180804	18844716	6402	60233											
WFDC10A	140832	broad.mit.edu	37	chr20	44259601	44259601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatctcaccgagattgtcaaGcaaataacatatgctgttct	14	12	6	9	1	3	1	2	0	2	1	4	2	3	1	1	0	3	3	1	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:44259601G>A	uc002xoz.2	+	2	252	c.184G>A	c.(184-186)GCA>ACA	p.A62T	WFDC9_uc002xoy.2_Intron	NM_080753	NP_542791	Q9H1F0	WF10A_HUMAN	WAP four-disulfide core domain 10A precursor	62	WAP.					extracellular region	serine-type endopeptidase inhibitor activity				0		Myeloproliferative disorder(115;0.0122)				AGATTGTCAAGCAAATAACAT	0.463													16	52					0	0	1	0	0		A	44259601	A	A	44259601	3	1	89	1	0	0	0	0	1	0	0	0	17373	971	34	2	190	2	WFDC10A	20	44259601	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	78797	44259601	18765919	6403	60234											
ZSWIM1	90204	broad.mit.edu	37	chr20	44512035	44512035	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccacatcctcagccagttCtttggtaccaccccatctga	9	10	5	17	0	3	1	1	1	2	0	4	1	4	1	6	1	2	2	6	1	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:44512035C>A	uc010ghi.2	+	2	917	c.804C>A	c.(802-804)TTC>TTA	p.F268L	ZSWIM1_uc010zxh.1_Missense_Mutation_p.F141L	NM_080603	NP_542170	Q9BR11	ZSWM1_HUMAN	zinc finger, SWIM-type containing 1	268							zinc ion binding			skin(1)	1		Myeloproliferative disorder(115;0.028)				TCAGCCAGTTCTTTGGTACCA	0.557													38	75					4.14481e-20	4.8834e-20	1	1	0		A	44512035	A	A	44512035	3	1	89	1	0	0	0	0	1	0	0	0	18265	912	32	5	806	5	ZSWIM1	20	44512035	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	252434	44512035	18513485	6404	60235											
PCIF1	63935	broad.mit.edu	37	chr20	44569552	44569552	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgtcccctgaagataaacaGcaggcagctctcctacgacc	12	6	8	15	2	1	2	0	1	1	1	3	3	2	2	4	1	4	3	4	1	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:44569552G>A	uc002xqs.2	+	6	806	c.492G>A	c.(490-492)CAG>CAA	p.Q164Q		NM_022104	NP_071387	Q9H4Z3	PCIF1_HUMAN	phosphorylated CTD interacting factor 1	164						nucleus				skin(1)	1						AAGATAAACAGCAGGCAGCTC	0.597													39	89					0	0	1	0	0		A	44569552	A	A	44569552	2	1	89	1	0	0	0	0	0	0	0	1	11599	962	34	2		2	PCIF1	20	44569552	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	57517	44569552	18455968	6405	60236											
ZNF334	55713	broad.mit.edu	37	chr20	45129982	45129982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaaagtttgatttgtggcGaaatgttttctcacatttgt	11	17	9	4	1	1	2	1	1	1	1	2	3	1	2	0	1	0	2	0	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:45129982G>A	uc002xsc.2	-	5	2180	c.1996C>T	c.(1996-1998)CGC>TGC	p.R666C	ZNF334_uc002xsa.2_Missense_Mutation_p.R689C|ZNF334_uc002xsb.2_Missense_Mutation_p.R628C|ZNF334_uc002xsd.2_Missense_Mutation_p.R628C|ZNF334_uc010ghl.2_Missense_Mutation_p.R665C	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	666	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				GATTTGTGGCGAAATGTTTTC	0.358													47	87					0	0	1	0	0		A	45129982	A	A	45129982	3	1	89	1	0	0	0	0	1	0	0	0	17876	1058	37	1	50	1	ZNF334	20	45129982	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	560430	45129982	17895538	6406	60237											
ZNF334	55713	broad.mit.edu	37	chr20	45131024	45131024	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcattacactcataggatttCtcccctccatgaattttctg	9	16	4	12	0	4	1	2	1	2	0	6	2	5	2	3	1	1	0	3	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:45131024C>T	uc002xsc.2	-	5	1138	c.954G>A	c.(952-954)GAG>GAA	p.E318E	ZNF334_uc002xsa.2_Silent_p.E341E|ZNF334_uc002xsb.2_Silent_p.E280E|ZNF334_uc002xsd.2_Silent_p.E280E|ZNF334_uc010ghl.2_Silent_p.E317E	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	318					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				CATAGGATTTCTCCCCTCCAT	0.438													59	123					0	0	1	0	0		T	45131024	T	T	45131024	2	4	89	1	0	0	0	0	0	0	0	1	17876	912	32	4		4	ZNF334	20	45131024	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1042	45131024	17894496	6407	60238											
SLC2A10	81031	broad.mit.edu	37	chr20	45354909	45354909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcactgctgcgctggaccGcactgctgtgcctgatggtc	5	10	13	13	2	0	1	0	1	0	0	1	2	0	2	2	2	5	5	2	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:45354909G>A	uc002xsl.2	+	2	1331	c.1234G>A	c.(1234-1236)GCA>ACA	p.A412T		NM_030777	NP_110404	O95528	GTR10_HUMAN	solute carrier family 2 member 10	412	Extracellular (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GCGCTGGACCGCACTGCTGTG	0.632													23	36					0	0	1	0	0		A	45354909	A	A	45354909	3	1	89	1	0	0	0	0	1	0	0	0	14564	1087	38	1	1240	1	SLC2A10	20	45354909	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	223885	45354909	17670611	6408	60239											
ZMYND8	23613	broad.mit.edu	37	chr20	45912344	45912344	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaaaccagttatctcgttTttggcaagcagctagataac	14	11	7	9	1	1	1	0	0	1	1	2	1	1	1	1	1	4	5	1	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:45912344T>G	uc002xta.1	-	9	1047	c.793A>C	c.(793-795)AAA>CAA	p.K265Q	ZMYND8_uc010ghr.1_Missense_Mutation_p.K240Q|ZMYND8_uc002xst.1_Missense_Mutation_p.K240Q|ZMYND8_uc002xsu.1_Missense_Mutation_p.K265Q|ZMYND8_uc002xsv.1_Missense_Mutation_p.K240Q|ZMYND8_uc002xsw.1_Missense_Mutation_p.K17Q|ZMYND8_uc002xsx.1_Missense_Mutation_p.K17Q|ZMYND8_uc002xsy.1_Missense_Mutation_p.K240Q|ZMYND8_uc002xsz.1_Missense_Mutation_p.K202Q|ZMYND8_uc010zxy.1_Missense_Mutation_p.K292Q|ZMYND8_uc002xtb.1_Missense_Mutation_p.K285Q|ZMYND8_uc002xss.2_Missense_Mutation_p.K265Q|ZMYND8_uc010zxz.1_Missense_Mutation_p.K260Q|ZMYND8_uc002xtc.1_Missense_Mutation_p.K285Q|ZMYND8_uc002xtd.1_Missense_Mutation_p.K260Q|ZMYND8_uc002xte.1_Missense_Mutation_p.K265Q|ZMYND8_uc010zya.1_Missense_Mutation_p.K265Q|ZMYND8_uc002xtf.1_Missense_Mutation_p.K285Q|ZMYND8_uc002xtg.2_Missense_Mutation_p.K259Q|ZMYND8_uc010ghs.1_Missense_Mutation_p.K259Q	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	265							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			TTATCTCGTTTTTGGCAAGCA	0.398													23	35					0	0	1	0	0		G	45912344	G	G	45912344	3	3	89	1	0	0	0	0	1	0	0	0	17736	1850	64	5	2773	5	ZMYND8	20	45912344	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	557435	45912344	17113176	6409	60240											
NCOA3	8202	broad.mit.edu	37	chr20	46264088	46264088	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagaatggatatagaccaAacccaaatcctgttggacaa	18	7	7	9	0	0	2	0	0	0	2	1	4	1	4	3	2	2	1	3	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:46264088A>G	uc002xtk.2	+	11	1340	c.1135A>G	c.(1135-1137)AAC>GAC	p.N379D	NCOA3_uc010ght.1_Missense_Mutation_p.N389D|NCOA3_uc002xtl.2_Missense_Mutation_p.N379D|NCOA3_uc002xtm.2_Missense_Mutation_p.N379D|NCOA3_uc002xtn.2_Missense_Mutation_p.N379D|NCOA3_uc010zyc.1_Missense_Mutation_p.N174D	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	379					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						ATATAGACCAAACCCAAATCC	0.388													21	57					0	0	1	0	0		G	46264088	G	G	46264088	3	3	89	1	0	0	0	0	1	0	0	0	10249	14	1	3	1199	3	NCOA3	20	46264088	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	351744	46264088	16761432	6410	60241											
ARFGEF2	10564	broad.mit.edu	37	chr20	47588912	47588912	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagaaacatcaacaagttCttttgagcacaggtggatgg	13	12	10	6	0	2	2	1	1	1	1	2	3	2	3	0	3	3	2	0	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:47588912C>A	uc002xtx.3	+	11	1627	c.1475C>A	c.(1474-1476)TCT>TAT	p.S492Y		NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	492					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			TCAACAAGTTCTTTTGAGCAC	0.403													26	49					6.36457e-07	6.65118e-07	1	1	0		A	47588912	A	A	47588912	3	1	89	1	0	0	0	0	1	0	0	0	853	913	32	5	1517	5	ARFGEF2	20	47588912	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1324824	47588912	15436608	6411	60242											
STAU1	6780	broad.mit.edu	37	chr20	47734395	47734395	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtacgtggcctgaagaGatgttattctttaaaatggt	10	14	13	4	1	1	2	0	1	1	1	1	3	1	2	1	4	1	2	1	4	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:47734395G>T	uc002xud.2	-	11	1839	c.1428C>A	c.(1426-1428)ATC>ATA	p.I476I	STAU1_uc002xua.2_Silent_p.I395I|STAU1_uc002xub.2_Silent_p.I401I|STAU1_uc002xuc.2_Silent_p.I395I|STAU1_uc002xue.2_Silent_p.I395I|STAU1_uc002xuf.2_Silent_p.I401I|STAU1_uc002xug.2_Silent_p.I476I	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	476						microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			GGCCTGAAGAGATGTTATTCT	0.547													55	80					1.32667e-27	1.61056e-27	1	1	0		T	47734395	T	T	47734395	2	4	89	1	0	0	0	0	0	0	0	1	15297	932	33	5		5	STAU1	20	47734395	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	145483	47734395	15291125	6412	60243											
STAU1	6780	broad.mit.edu	37	chr20	47782660	47782660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catcaaaggctgtgagagaaGagactggttcttgttcagta	12	11	12	6	0	3	3	2	1	1	2	3	5	3	3	0	2	0	4	0	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:47782660G>A	uc002xud.2	-	3	490	c.79C>T	c.(79-81)CTT>TTT	p.L27F	STAU1_uc002xua.2_Intron|STAU1_uc002xub.2_Intron|STAU1_uc002xuc.2_Intron|STAU1_uc002xue.2_Intron|STAU1_uc002xuf.2_Intron|STAU1_uc002xug.2_Missense_Mutation_p.L27F	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	27						microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			TGTGAGAGAAGAGACTGGTTC	0.448													40	86					0	0	1	0	0		A	47782660	A	A	47782660	3	1	89	1	0	0	0	0	1	0	0	0	15297	942	33	4	1720	4	STAU1	20	47782660	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	48265	47782660	15242860	6413	60244											
DDX27	55661	broad.mit.edu	37	chr20	47851485	47851485	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgccagctttgttgacgagGaccttcactgaccatgtgat	8	12	10	11	1	1	3	1	3	0	0	1	5	1	4	3	1	2	2	3	1	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:47851485G>T	uc002xuh.2	+	12	1441	c.1380G>T	c.(1378-1380)AGG>AGT	p.R460S		NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	460	Helicase C-terminal.					nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TGTTGACGAGGACCTTCACTG	0.552													14	42					0.000308642	0.000314477	1	1	0		T	47851485	T	T	47851485	3	4	89	1	0	0	0	0	1	0	0	0	4357	1165	41	5	1426	5	DDX27	20	47851485	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	68825	47851485	15174035	6414	60245											
ZNFX1	57169	broad.mit.edu	37	chr20	47886956	47886956	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagatacggtggcaaaaaGaaatgtctcgaagttgtcct	13	11	11	6	2	1	2	0	0	1	2	3	3	2	2	1	2	1	3	1	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:47886956G>T	uc002xui.2	-	3	1640	c.1393C>A	c.(1393-1395)CTT>ATT	p.L465I		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	465							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GTGGCAAAAAGAAATGTCTCG	0.473													58	117					1.93748e-29	2.36329e-29	1	1	0		T	47886956	T	T	47886956	3	4	89	1	0	0	0	0	1	0	0	0	18230	942	33	5	4411	5	ZNFX1	20	47886956	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	35471	47886956	15138564	6415	60246											
KCNG1	3755	broad.mit.edu	37	chr20	49626348	49626348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccgctccaccatctccgcGaactcctcaatcttctgcag	7	10	5	19	3	4	0	1	0	3	0	8	1	7	0	5	0	2	2	5	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:49626348G>A	uc002xwa.3	-	2	823	c.528C>T	c.(526-528)TTC>TTT	p.F176F	KCNG1_uc002xwb.2_Silent_p.F176F	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	176	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						CCATCTCCGCGAACTCCTCAA	0.706													30	56					0	0	1	0	0		A	49626348	A	A	49626348	2	1	89	1	0	0	0	0	0	0	0	1	8043	1049	37	1		1	KCNG1	20	49626348	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1739392	49626348	13399172	6416	60247											
KCNG1	3755	broad.mit.edu	37	chr20	49626531	49626531	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggttgcggtcgaagaaGaactcgttgcaggtgacgtc	8	8	15	10	5	0	3	0	1	0	2	3	4	0	3	1	3	3	3	1	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:49626531G>T	uc002xwa.3	-	2	640	c.345C>A	c.(343-345)TTC>TTA	p.F115L	KCNG1_uc002xwb.2_Missense_Mutation_p.F115L	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	115	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						GGTCGAAGAAGAACTCGTTGC	0.642													23	28					1.10513e-12	1.22773e-12	1	1	0		T	49626531	T	T	49626531	3	4	89	1	0	0	0	0	1	0	0	0	8043	933	33	5	1204	5	KCNG1	20	49626531	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	183	49626531	13398989	6417	60248											
ZNF217	7764	broad.mit.edu	37	chr20	52199171	52199171	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgcagaacatgcaatcCaagggcatatacccctcgat	12	8	9	12	1	0	1	0	0	0	1	2	2	1	1	3	2	4	4	3	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:52199171C>T	uc002xwq.3	-	1	466	c.195G>A	c.(193-195)TTG>TTA	p.L65L	ZNF217_uc010gij.1_Silent_p.L57L	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	65	C2H2-type 1.				negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			ACATGCAATCCAAGGGCATAT	0.463													59	112					0	0	1	0	0		T	52199171	T	T	52199171	2	4	89	1	0	0	0	0	0	0	0	1	17797	593	21	4		4	ZNF217	20	52199171	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2572640	52199171	10826349	6418	60249											
CYP24A1	1591	broad.mit.edu	37	chr20	52773812	52773812	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgtctgtggcctggatgTcgtatttgcggacaatctgt	6	15	12	8	2	2	0	0	0	2	0	3	2	2	2	1	3	1	1	1	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:52773812T>C	uc002xwv.2	-	11	1849	c.1451A>G	c.(1450-1452)GAC>GGC	p.D484G	CYP24A1_uc002xwu.1_Missense_Mutation_p.D342G|CYP24A1_uc002xww.2_Missense_Mutation_p.D418G	NM_000782	NP_000773	Q07973	CP24A_HUMAN	cytochrome P450 family 24 subfamily A	484					hormone biosynthetic process|osteoblast differentiation|vitamin D catabolic process|vitamin D receptor signaling pathway|xenobiotic metabolic process	mitochondrial inner membrane	1-alpha,25-dihydroxyvitamin D3 24-hydroxylase activity|electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		STAD - Stomach adenocarcinoma(23;0.206)		Calcidiol(DB00146)|Calcitriol(DB00136)|Cholecalciferol(DB00169)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	GGCCTGGATGTCGTATTTGCG	0.507													11	20					0	0	1	0	0		C	52773812	C	C	52773812	3	2	89	1	0	0	0	0	1	0	0	0	4157	1667	58	3	97	3	CYP24A1	20	52773812	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	574641	52773812	10251708	6419	60250											
DOK5	55816	broad.mit.edu	37	chr20	53171512	53171512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtattcaagaaagcttcaaGcaaaggtccaaaaagactgg	18	7	9	7	0	2	2	2	0	0	2	3	2	3	2	1	2	2	3	1	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:53171512G>A	uc002xwy.2	+	2	327	c.107G>A	c.(106-108)AGC>AAC	p.S36N	DOK5_uc010gin.2_5'UTR|DOK5_uc002xwz.2_5'UTR	NM_018431	NP_060901	Q9P104	DOK5_HUMAN	docking protein 5	36	PH.						insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)			AAAGCTTCAAGCAAAGGTCCA	0.388													21	41					0	0	1	0	0		A	53171512	A	A	53171512	3	1	89	1	0	0	0	0	1	0	0	0	4706	971	34	2	113	2	DOK5	20	53171512	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	397700	53171512	9854008	6420	60251											
CASS4	57091	broad.mit.edu	37	chr20	55027827	55027827	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctaccgcatcctgcttgAaacaaaggaaagcttggata	13	9	8	11	1	0	1	0	1	0	0	2	3	2	3	3	2	4	3	3	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:55027827A>G	uc002xxp.2	+	6	1820	c.1595A>G	c.(1594-1596)GAA>GGA	p.E532G	CASS4_uc002xxq.3_Missense_Mutation_p.E532G|CASS4_uc002xxr.2_Missense_Mutation_p.E532G|CASS4_uc010zze.1_Missense_Mutation_p.E478G|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	532					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						ATCCTGCTTGAAACAAAGGAA	0.498													23	51					0	0	1	0	0		G	55027827	G	G	55027827	3	3	89	1	0	0	0	0	1	0	0	0	2686	246	9	3	1613	3	CASS4	20	55027827	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1856315	55027827	7997693	6421	60252											
BMP7	655	broad.mit.edu	37	chr20	55758796	55758796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgccacgttggccatccGcagggcttcctggttcttgg	4	11	12	14	2	1	0	0	0	1	0	3	0	3	0	5	4	1	4	5	4	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:55758796G>A	uc010gip.1	-	4	1469	c.940C>T	c.(940-942)CGG>TGG	p.R314W	BMP7_uc010giq.1_Intron|BMP7_uc002xyc.2_Missense_Mutation_p.R314W	NM_001719	NP_001710	P18075	BMP7_HUMAN	bone morphogenetic protein 7 precursor	314					BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)			TTGGCCATCCGCAGGGCTTCC	0.647													33	60					0	0	1	0	0		A	55758796	A	A	55758796	3	1	89	1	0	0	0	0	1	0	0	0	1466	1086	38	1	371	1	BMP7	20	55758796	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	730969	55758796	7266724	6422	60253											
BMP7	655	broad.mit.edu	37	chr20	55840835	55840835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaggctggccagaggggggCcctgggtactgaagacggcc	7	4	19	11	1	0	3	0	1	0	2	0	3	0	3	3	7	1	3	3	7	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:55840835C>T	uc010gip.1	-	1	873	c.344G>A	c.(343-345)GGC>GAC	p.G115D	BMP7_uc010giq.1_Missense_Mutation_p.G115D|BMP7_uc002xyc.2_Missense_Mutation_p.G115D|uc010gir.1_5'Flank	NM_001719	NP_001710	P18075	BMP7_HUMAN	bone morphogenetic protein 7 precursor	115					BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)			CAGAGGGGGGCCCTGGGTACT	0.647													8	11					0	0	1	0	0		T	55840835	T	T	55840835	3	4	89	1	0	0	0	0	1	0	0	0	1466	739	26	2	979	2	BMP7	20	55840835	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	82039	55840835	7184685	6423	60254											
SPO11	23626	broad.mit.edu	37	chr20	55904928	55904928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagccgtctgccctcatggCctttgcacctatggggcccg	4	9	12	16	2	2	0	1	0	1	0	2	0	2	0	5	3	3	2	5	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:55904928C>T	uc002xye.2	+	1	98	c.5C>T	c.(4-6)GCC>GTC	p.A2V	SPO11_uc002xyf.2_Missense_Mutation_p.A2V	NM_012444	NP_036576	Q9Y5K1	SPO11_HUMAN	meiotic recombination protein SPO11 isoform a	2					female gamete generation|reciprocal meiotic recombination	chromosome|nucleus	ATP binding|DNA binding|hydrolase activity			breast(2)|skin(1)	3	Lung NSC(12;0.0066)|all_lung(29;0.0188)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;1.73e-14)|Epithelial(14;9.02e-10)|all cancers(14;9.31e-09)			GCCCTCATGGCCTTTGCACCT	0.672								Editing_and_processing_nucleases					15	23					0	0	1	0	0		T	55904928	T	T	55904928	3	4	89	1	0	0	0	0	1	0	0	0	15102	739	26	2	7	2	SPO11	20	55904928	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	64093	55904928	7120592	6424	60255											
PCK1	5105	broad.mit.edu	37	chr20	56139347	56139347	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatctttaccaatgtggccGagaccagcgacgggggcgtt	9	8	13	11	4	1	1	0	0	1	1	1	3	1	1	3	3	2	1	3	3	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:56139347G>A	uc002xyn.3	+	7	1247	c.1084G>A	c.(1084-1086)GAG>AAG	p.E362K	PCK1_uc010zzm.1_Missense_Mutation_p.E45K	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	362					gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			CAATGTGGCCGAGACCAGCGA	0.522													23	50					0	0	1	0	0		A	56139347	A	A	56139347	3	1	89	1	0	0	0	0	1	0	0	0	11600	1059	37	1	1106	1	PCK1	20	56139347	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	234419	56139347	6886173	6425	60256											
NPEPL1	79716	broad.mit.edu	37	chr20	57273784	57273784	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcggctagcagcccgcatCgtggacacaccctgcaatga	9	6	12	14	3	0	1	0	1	0	0	1	2	0	2	2	2	4	4	2	2	2	1	rs113729823		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:57273784C>T	uc010zzs.1	+	4	647	c.552C>T	c.(550-552)ATC>ATT	p.I184I	NPEPL1_uc010zzr.1_Silent_p.I136I|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Silent_p.I156I|NPEPL1_uc002xzp.2_Silent_p.I72I	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	184					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			CAGCCCGCATCGTGGACACAC	0.607													20	42					0	0	1	0	0		T	57273784	T	T	57273784	2	4	89	1	0	0	0	0	0	0	0	1	10593	874	31	1		1	NPEPL1	20	57273784	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1134437	57273784	5751736	6426	60257											
GNAS	2778	broad.mit.edu	37	chr20	57428544	57428544	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacccccagaggtctccaGacccaactttcaggtcctca	9	8	8	16	0	3	2	2	0	1	2	5	3	4	3	5	3	1	0	5	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:57428544G>T	uc002xzw.2	+	1	509	c.224G>T	c.(223-225)AGA>ATA	p.R75I	GNASAS_uc002xzs.1_5'Flank|GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			GAGGTCTCCAGACCCAACTTT	0.617			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			17	23					3.32936e-07	3.48551e-07	1	1	0		T	57428544	T	T	57428544	3	4	89	1	0	0	0	0	1	0	0	0	6525	942	33	5	968	5	GNAS	20	57428544	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	154760	57428544	5596976	6427	60258											
GNAS	2778	broad.mit.edu	37	chr20	57429085	57429085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcgacggcagcagccagttCgcggcagtcgcggcctcgag	6	5	16	14	7	0	0	0	0	0	0	4	2	0	0	2	3	2	4	2	3	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:57429085C>T	uc002xzw.2	+	1	1050	c.765C>T	c.(763-765)TTC>TTT	p.F255F	GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			GCAGCCAGTTCGCGGCAGTCG	0.662			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			6	9					0	0	1	0	0		T	57429085	T	T	57429085	2	4	89	1	0	0	0	0	0	0	0	1	6525	893	31	1		1	GNAS	20	57429085	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	541	57429085	5596435	6428	60259											
TH1L	51497	broad.mit.edu	37	chr20	57568761	57568761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgttgtcagttacatccGaaagtgtctggagaagctgg	9	12	12	8	1	2	1	1	0	1	1	4	3	4	1	2	2	2	3	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:57568761G>A	uc002yag.2	+	13	1577	c.1550G>A	c.(1549-1551)CGA>CAA	p.R517Q	TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Intron	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	517					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			AGTTACATCCGAAAGTGTCTG	0.458													52	79					0	0	1	0	0		A	57568761	A	A	57568761	3	1	89	1	0	0	0	0	1	0	0	0	15864	1058	37	1	1600	1	TH1L	20	57568761	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	139676	57568761	5456759	6429	60260											
PHACTR3	116154	broad.mit.edu	37	chr20	58411601	58411601	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggaagagctggagagaaGaaatatcttgaaacgtgagt	15	8	14	4	2	1	5	0	2	1	3	1	8	1	7	0	2	2	1	0	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:58411601G>T	uc002yau.2	+	9	1837	c.1370G>T	c.(1369-1371)AGA>ATA	p.R457I	PHACTR3_uc002yat.2_Missense_Mutation_p.R454I|PHACTR3_uc010zzw.1_Missense_Mutation_p.R416I|PHACTR3_uc002yav.2_Missense_Mutation_p.R416I|PHACTR3_uc002yaw.2_Missense_Mutation_p.R416I|PHACTR3_uc002yax.2_Missense_Mutation_p.R346I|PHACTR3_uc002yay.2_Missense_Mutation_p.R26I	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	457	RPEL 3.|Required for PP1CA binding and inhibition of PP1 activity.|Potential.					nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			CTGGAGAGAAGAAATATCTTG	0.483													20	43					2.89027e-11	3.162e-11	1	1	0		T	58411601	T	T	58411601	3	4	89	1	0	0	0	0	1	0	0	0	11830	942	33	5	1404	5	PHACTR3	20	58411601	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	842840	58411601	4613919	6430	60261											
SYCP2	10388	broad.mit.edu	37	chr20	58452530	58452530	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttatagtttttttttgtTttggttgcttttcgtggaag	4	25	9	3	1	1	0	0	0	1	0	2	1	1	1	0	2	1	4	0	2	3	12			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:58452530T>G	uc002yaz.2	-	32	3199	c.3060A>C	c.(3058-3060)AAA>AAC	p.K1020N		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	1020					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			TTTTTTTTGTTTTGGTTGCTT	0.323													25	45					0	0	1	0	0		G	58452530	G	G	58452530	3	3	89	1	0	0	0	0	1	0	0	0	15457	1838	64	5	1584	5	SYCP2	20	58452530	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	40929	58452530	4572990	6431	60262											
SYCP2	10388	broad.mit.edu	37	chr20	58467111	58467111	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttctctgcttttctatgActttgcacatttttgctagc	5	21	5	10	0	3	1	0	1	3	0	4	1	3	1	0	0	4	3	0	0	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:58467111A>G	uc002yaz.2	-	23	2437	c.2298T>C	c.(2296-2298)AGT>AGC	p.S766S		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	766					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			CTTTTCTATGACTTTGCACAT	0.333													22	55					0	0	1	0	0		G	58467111	G	G	58467111	2	3	89	1	0	0	0	0	0	0	0	1	15457	272	10	3		3	SYCP2	20	58467111	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	14581	58467111	4558409	6432	60263											
SYCP2	10388	broad.mit.edu	37	chr20	58476794	58476794	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaaatacaaaagcaattCtttcccttctcttttgctaa	13	15	3	10	0	3	0	1	0	2	0	5	0	4	0	1	0	3	2	1	0	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:58476794C>A	uc002yaz.2	-	15	1244	c.1105G>T	c.(1105-1107)GAA>TAA	p.E369*	SYCP2_uc010gju.1_Nonsense_Mutation_p.E270*	NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	369					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			AAAAGCAATTCTTTCCCTTCT	0.289													19	56					5.3912e-06	5.59047e-06	1	1	0		A	58476794	A	A	58476794	4	1	89	1	0	0	0	0	0	1	0	0	15457	922	32	5	3607	5	SYCP2	20	58476794	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9683	58476794	4548726	6433	60264											
CDH26	60437	broad.mit.edu	37	chr20	58544061	58544061	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaacaggaaacagatgatCttactaagcaaacaaaggtg	18	8	8	7	0	2	2	1	1	1	1	2	3	2	3	0	2	5	1	0	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:58544061C>A	uc002ybe.2	+	2	409	c.109C>A	c.(109-111)CTT>ATT	p.L37I	CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	37	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			AACAGATGATCTTACTAAGCA	0.318													35	59					4.14481e-20	4.8834e-20	1	1	0		A	58544061	A	A	58544061	3	1	89	1	0	0	0	0	1	0	0	0	3113	913	32	5	115	5	CDH26	20	58544061	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	67267	58544061	4481459	6434	60265											
CDH4	1002	broad.mit.edu	37	chr20	60503305	60503305	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatctcattgacatcaacgAcaacgcccctgagctgctgc	10	9	7	15	2	2	2	2	2	1	0	3	3	2	2	2	0	5	2	2	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:60503305A>G	uc002ybn.1	+	12	1843	c.1829A>G	c.(1828-1830)GAC>GGC	p.D610G	CDH4_uc002ybp.1_Missense_Mutation_p.D536G	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	610	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GACATCAACGACAACGCCCCT	0.627													61	150					0	0	1	0	0		G	60503305	G	G	60503305	3	3	89	1	0	0	0	0	1	0	0	0	3115	275	10	3	1875	3	CDH4	20	60503305	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1959244	60503305	2522215	6435	60266											
SLCO4A1	28231	broad.mit.edu	37	chr20	61299452	61299452	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcacttcaacttgtcagaGaaagcccctccttctggttt	9	13	7	12	0	3	1	2	0	1	1	4	2	4	1	3	1	3	2	3	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:61299452G>T	uc002ydb.1	+	9	1932	c.1727G>T	c.(1726-1728)AGA>ATA	p.R576I	SLCO4A1_uc002ydc.1_Intron|LOC100127888_uc002ydd.2_5'Flank|SLCO4A1_uc002yde.1_Intron	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	576	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)			ACTTGTCAGAGAAAGCCCCTC	0.493											OREG0026115	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	44	63					2.24893e-16	2.58354e-16	1	1	0		T	61299452	T	T	61299452	3	4	89	1	0	0	0	0	1	0	0	0	14754	942	33	5	1757	5	SLCO4A1	20	61299452	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	796147	61299452	1726068	6436	60267											
TCFL5	10732	broad.mit.edu	37	chr20	61491643	61491643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcattagttcagatggatgtCgaatgagagttaccaaactg	13	12	10	6	1	2	2	2	1	0	2	3	5	2	3	1	1	2	2	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:61491643C>T	uc002ydp.2	-	2	758	c.665G>A	c.(664-666)CGA>CAA	p.R222Q	TCFL5_uc002ydo.2_5'UTR|TCFL5_uc002ydq.2_Missense_Mutation_p.R222Q	NM_006602	NP_006593	Q9UL49	TCFL5_HUMAN	transcription factor-like 5 protein	222					cell differentiation|multicellular organismal development|regulation of cell differentiation|regulation of cell proliferation|spermatogenesis|transcription from RNA polymerase II promoter		DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)	1	Breast(26;5.68e-08)					AGATGGATGTCGAATGAGAGT	0.428													25	52					0	0	1	0	0		T	61491643	T	T	61491643	3	4	89	1	0	0	0	0	1	0	0	0	15724	884	31	1	857	1	TCFL5	20	61491643	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	192191	61491643	1533877	6437	60268											
DIDO1	11083	broad.mit.edu	37	chr20	61513394	61513394	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgctgttttggaagcagacGaagcggtggaggaagctgcc	10	8	16	7	2	0	1	0	0	0	1	0	5	0	4	1	4	5	4	1	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:61513394G>A	uc002ydr.1	-	16	4178	c.3914C>T	c.(3913-3915)TCG>TTG	p.S1305L	DIDO1_uc002yds.1_Missense_Mutation_p.S1305L	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1305					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GGAAGCAGACGAAGCGGTGGA	0.597													67	131					0	0	1	0	0		A	61513394	A	A	61513394	3	1	89	1	0	0	0	0	1	0	0	0	4528	1059	37	1	2812	1	DIDO1	20	61513394	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21751	61513394	1512126	6438	60269											
COL20A1	57642	broad.mit.edu	37	chr20	61936897	61936897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgggcgcttcctgctagctCggagggagtttgtgagtaag	6	11	16	8	2	0	1	0	1	0	0	2	3	1	3	1	3	2	5	1	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:61936897C>T	uc011aau.1	+	4	422	c.322C>T	c.(322-324)CGG>TGG	p.R108W	COL20A1_uc011aav.1_5'Flank	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	108	Fibronectin type-III 1.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CCTGCTAGCTCGGAGGGAGTT	0.652													8	7					0	0	1	0	0		T	61936897	T	T	61936897	3	4	89	1	0	0	0	0	1	0	0	0	3682	875	31	1	332	1	COL20A1	20	61936897	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	423503	61936897	1088623	6439	60270											
CHRNA4	1137	broad.mit.edu	37	chr20	61981912	61981912	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcaggaagacggtgagcGacagcagcacggagatgcac	13	2	16	10	3	0	3	0	1	0	2	0	6	0	4	0	3	5	5	0	3	1	0	rs28931591		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:61981912G>A	uc002yes.2	-	5	1029	c.851C>T	c.(850-852)TCG>TTG	p.S284L	CHRNA4_uc002yet.1_Missense_Mutation_p.S108L|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.S213L|CHRNA4_uc002yev.1_Missense_Mutation_p.S108L|CHRNA4_uc010gkf.1_Missense_Mutation_p.S108L	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	284	Helical; (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	GACGGTGAGCGACAGCAGCAC	0.587													34	54					0	0	1	0	0		A	61981912	A	A	61981912	3	1	89	1	0	0	0	0	1	0	0	0	3388	1059	37	1	1040	1	CHRNA4	20	61981912	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	45015	61981912	1043608	6440	60271											
UCKL1	54963	broad.mit.edu	37	chr20	62572374	62572374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttggagtagaagatgaactCgtcgcgactggtctccttgt	8	12	12	9	3	1	3	0	1	1	2	4	5	1	4	1	2	1	1	1	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:62572374C>T	uc010gkn.2	-	10	1088	c.1045G>A	c.(1045-1047)GAG>AAG	p.E349K	UCKL1_uc002yhj.2_5'UTR|UCKL1_uc011abm.1_Missense_Mutation_p.E334K|UCKL1_uc011abn.1_RNA|UCKL1_uc011abo.1_RNA	NM_017859	NP_060329	Q9NWZ5	UCKL1_HUMAN	uridine-cytidine kinase 1-like 1	349					interspecies interaction between organisms	endoplasmic reticulum|nucleus	ATP binding|phosphotransferase activity, alcohol group as acceptor|protein binding|uridine kinase activity				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					AAGATGAACTCGTCGCGACTG	0.652													7	25					0	0	1	0	0		T	62572374	T	T	62572374	3	4	89	1	0	0	0	0	1	0	0	0	16951	893	31	1	625	1	UCKL1	20	62572374	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	590462	62572374	453146	6441	60272											
ZNF512B	57473	broad.mit.edu	37	chr20	62595509	62595509	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcttccgggcgtcctcaggGcctggcccctcctgcttctt	1	13	10	17	2	3	0	1	0	2	0	6	0	6	0	6	3	1	1	6	3	0	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:62595509G>A	uc002yhl.1	-	8	1449	c.1395C>T	c.(1393-1395)GGC>GGT	p.G465G		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	465					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CGTCCTCAGGGCCTGGCCCCT	0.662													43	92					0	0	1	0	0		A	62595509	A	A	62595509	2	1	89	1	0	0	0	0	0	0	0	1	17982	1190	42	2		2	ZNF512B	20	62595509	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	23135	62595509	430011	6442	60273											
PRPF6	24148	broad.mit.edu	37	chr20	62624781	62624781	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcaaagggagaaagaagaAatagagaaatatcgtatgga	21	5	13	2	1	0	4	0	0	0	4	1	8	0	5	0	2	1	2	0	2	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:62624781A>C	uc002yho.2	+	4	549	c.381A>C	c.(379-381)GAA>GAC	p.E127D	PRPF6_uc002yhp.2_Missense_Mutation_p.E127D	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	127					assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					AGAAAGAAGAAATAGAGAAAT	0.423													31	49					0	0	1	0	0		C	62624781	C	C	62624781	3	2	89	1	0	0	0	0	1	0	0	0	12596	11	1	5	395	5	PRPF6	20	62624781	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	29272	62624781	400739	6443	60274											
MYT1	4661	broad.mit.edu	37	chr20	62831255	62831255	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcccaggacccccagaGaccacagctgcagacctcag	10	7	8	16	0	1	2	1	0	0	2	2	4	2	3	5	1	2	2	5	1	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:62831255G>T	uc002yii.2	+	4	430	c.66G>T	c.(64-66)GAG>GAT	p.E22D	MYT1_uc002yih.2_Missense_Mutation_p.E22D	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	22					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					GACCCCCAGAGACCACAGCTG	0.478													73	46					1.7488e-33	2.14946e-33	1	1	0		T	62831255	T	T	62831255	3	4	89	1	0	0	0	0	1	0	0	0	10124	933	33	5	72	5	MYT1	20	62831255	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	206474	62831255	194265	6444	60275											
MYT1	4661	broad.mit.edu	37	chr20	62837075	62837075	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacgcctctgtttcggatGaatcggaaggaactctggag	10	9	14	8	3	2	1	0	1	2	0	4	6	2	6	1	5	1	1	1	5	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr20:62837075G>T	uc002yii.2	+	6	683	c.319G>T	c.(319-321)GAA>TAA	p.E107*	MYT1_uc002yih.2_Nonsense_Mutation_p.E107*|MYT1_uc002yij.2_5'Flank	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	107					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					TGTTTCGGATGAATCGGAAGG	0.592													46	16					5.34276e-22	6.35699e-22	1	1	0		T	62837075	T	T	62837075	4	4	89	1	0	0	0	0	0	1	0	0	10124	1291	45	5	333	5	MYT1	20	62837075	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5820	62837075	188445	6445	60276											
TPTE	7179	broad.mit.edu	37	chr21	10951415	10951415	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatccagtaagaccaggaaAactccaaatagtctaaaata	20	7	5	9	0	1	1	0	0	1	1	3	2	3	2	3	1	1	1	3	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:10951415A>C	uc002yip.1	-	10	665	c.297T>G	c.(295-297)GTT>GTG	p.V99V	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Silent_p.V81V|TPTE_uc002yir.1_Silent_p.V61V|TPTE_uc010gkv.1_5'UTR	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	99	Helical; (Potential).				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		AGACCAGGAAAACTCCAAATA	0.328													24	121					0	0	1	0	0		C	10951415	C	C	10951415	2	2	89	1	0	0	0	0	0	0	0	1	16456	1	1	5		5	TPTE	21	10951415	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08		10951415	37178480	6446	60277											
TPTE	7179	broad.mit.edu	37	chr21	10998235	10998235	+	RNA	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatggtttcctttttctcttTttgacaccatctgttccttc	4	22	4	11	0	2	1	0	1	2	0	6	1	4	1	3	1	0	2	3	1	1	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:10998235T>G	uc002yis.1	-	11		c.2018A>C						P56180	TPTE_HUMAN	Homo sapiens putative tyrosine phosphatase mRNA, complete cds.						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTTTTCTCTTTTTGACACCAT	0.378													25	133					0	0	1	0	0		G	10998235	G	G	10998235	1	3	89	0	1	0	0	0	0	0	0	0	16456	1856	64	5		5	TPTE	21	10998235	RNA	SNP	T	TCGA-BR-8680-01A-11D-2394-08	46820	10998235	37131660	6447	60278											
TPTE	7179	broad.mit.edu	37	chr21	11020823	11020823	+	RNA	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtttaccttaatactgAcacagtatggatggtaacac	13	12	9	7	0	0	1	0	1	0	0	0	3	0	3	1	3	3	3	1	3	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:11020823A>G	uc002yis.1	-	5		c.1136T>C						P56180	TPTE_HUMAN	Homo sapiens putative tyrosine phosphatase mRNA, complete cds.						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CTTAATACTGACACAGTATGG	0.378													40	203					0	0	1	0	0		G	11020823	G	G	11020823	1	3	89	0	1	0	0	0	0	0	0	0	16456	290	10	3		3	TPTE	21	11020823	RNA	SNP	A	TCGA-BR-8680-01A-11D-2394-08	22588	11020823	37109072	6448	60279											
BAGE2	85319	broad.mit.edu	37	chr21	11049620	11049620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacagtttgcatcttccttCgctataattaacagtaaaac	13	13	5	10	1	1	0	0	0	1	0	3	0	2	0	1	0	3	5	1	0	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:11049620C>T	uc002yit.1	-	4	489	c.281G>A	c.(280-282)CGA>CAA	p.R94Q		NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CATCTTCCTTCGCTATAATTA	0.373													18	325					0	0	1	0	0		T	11049620	T	T	11049620	3	4	89	1	0	0	0	0	1	0	0	0	1293	898	31	1	52	1	BAGE2	21	11049620	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	28797	11049620	37080275	6449	60280											
SAMSN1	64092	broad.mit.edu	37	chr21	15893519	15893519	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaattattccgaaaacgatcGaaattcccaaaactgctgct	15	10	6	10	3	0	0	0	0	0	0	3	4	2	0	2	0	4	2	2	0	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:15893519G>A	uc002yju.1	-	2	163	c.81C>T	c.(79-81)TTC>TTT	p.F27F	SAMSN1_uc010gky.1_Intron|SAMSN1_uc002yjv.1_Silent_p.F95F	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	27					negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		GAAAACGATCGAAATTCCCAA	0.289													15	20					0	0	1	0	0		A	15893519	A	A	15893519	2	1	89	1	0	0	0	0	0	0	0	1	13855	1049	37	1		1	SAMSN1	21	15893519	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4843899	15893519	32236376	6450	60281											
NRIP1	8204	broad.mit.edu	37	chr21	16337265	16337265	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatgtccttgtcttgtgtTtctcgactggtaacagaatt	9	16	8	8	1	2	1	0	0	2	1	4	2	3	1	1	1	1	2	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:16337265T>G	uc002yjx.2	-	4	3847	c.3249A>C	c.(3247-3249)GAA>GAC	p.E1083D		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	1083					androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		TGTCTTGTGTTTCTCGACTGG	0.413													79	136					0	0	1	0	0		G	16337265	G	G	16337265	3	3	89	1	0	0	0	0	1	0	0	0	10671	1838	64	5	231	5	NRIP1	21	16337265	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	443746	16337265	31792630	6451	60282											
TMPRSS15	5651	broad.mit.edu	37	chr21	19653432	19653432	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgcctattgtaatgagggtTtatgacaatttcatctatta	11	17	7	6	1	2	2	1	2	1	0	3	2	2	2	1	1	0	2	1	1	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:19653432T>G	uc002ykw.2	-	22	2624	c.2593A>C	c.(2593-2595)AAC>CAC	p.N865H		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	865	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TAATGAGGGTTTATGACAATT	0.383													71	132					0	0	1	0	0		G	19653432	G	G	19653432	3	3	89	1	0	0	0	0	1	0	0	0	16271	1841	64	5	482	5	TMPRSS15	21	19653432	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3316167	19653432	28476463	6452	60283											
TMPRSS15	5651	broad.mit.edu	37	chr21	19670096	19670096	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgctgtgtttaatttgAcaaatggtccaccatcggta	10	13	10	8	1	0	1	0	1	0	0	2	1	1	1	2	3	1	3	2	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:19670096A>G	uc002ykw.2	-	19	2247	c.2216T>C	c.(2215-2217)GTC>GCC	p.V739A		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	739	Extracellular (Potential).|SRCR.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						GTTTAATTTGACAAATGGTCC	0.393													24	52					0	0	1	0	0		G	19670096	G	G	19670096	3	3	89	1	0	0	0	0	1	0	0	0	16271	275	10	3	871	3	TMPRSS15	21	19670096	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	16664	19670096	28459799	6453	60284											
NCAM2	4685	broad.mit.edu	37	chr21	22881337	22881337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaagaaaagtggctccagtgGcaaaagtaaagaactcgaag	19	5	11	6	1	0	2	0	0	0	2	2	3	1	2	1	2	1	3	1	2	9	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:22881337G>A	uc002yld.1	+	16	2492	c.2243G>A	c.(2242-2244)GGC>GAC	p.G748D	NCAM2_uc011acb.1_Missense_Mutation_p.G606D	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	748	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		GGCTCCAGTGGCAAAAGTAAA	0.448													21	57					0	0	1	0	0		A	22881337	A	A	22881337	3	1	89	1	0	0	0	0	1	0	0	0	10222	1203	42	2	2305	2	NCAM2	21	22881337	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3211241	22881337	25248558	6454	60285											
NCAM2	4685	broad.mit.edu	37	chr21	22910240	22910240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagaaattaaagtttctaacGacatcattcaatcaaaagaa	20	11	4	6	1	4	2	3	0	1	2	4	3	4	2	0	0	1	1	0	0	9	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:22910240G>A	uc002yld.1	+	18	2725	c.2476G>A	c.(2476-2478)GAC>AAC	p.D826N	NCAM2_uc011acb.1_Missense_Mutation_p.D684N	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	826	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		AGTTTCTAACGACATCATTCA	0.343													47	31					0	0	1	0	0		A	22910240	A	A	22910240	3	1	89	1	0	0	0	0	1	0	0	0	10222	1058	37	1	2546	1	NCAM2	21	22910240	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	28903	22910240	25219655	6455	60286											
ADAMTS5	11096	broad.mit.edu	37	chr21	28296687	28296687	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcactattagaatttccttCgtggcagagtagcccatgcc	9	12	9	11	1	0	2	0	0	0	2	2	2	1	2	3	1	3	3	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:28296687C>T	uc002ymg.2	-	8	3207	c.2478G>A	c.(2476-2478)ACG>ACA	p.T826T		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	826	Spacer.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						GAATTTCCTTCGTGGCAGAGT	0.443													55	100					0	0	1	0	0		T	28296687	T	T	28296687	2	4	89	1	0	0	0	0	0	0	0	1	269	871	31	1		1	ADAMTS5	21	28296687	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5386447	28296687	19833208	6456	60287											
ADAMTS5	11096	broad.mit.edu	37	chr21	28327064	28327064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggcgctgcataccgatttCgtgagccacagtgaaggctg	10	8	13	10	3	0	2	0	2	0	0	1	3	0	2	2	2	3	3	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:28327064C>T	uc002ymg.2	-	2	1960	c.1231G>A	c.(1231-1233)GAA>AAA	p.E411K		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	411	Peptidase M12B.	By similarity.			proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						ATACCGATTTCGTGAGCCACA	0.488													24	61					0	0	1	0	0		T	28327064	T	T	28327064	3	4	89	1	0	0	0	0	1	0	0	0	269	893	31	1	1589	1	ADAMTS5	21	28327064	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	30377	28327064	19802831	6457	60288											
USP16	10600	broad.mit.edu	37	chr21	30419571	30419571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacccgtaatgagaaacttcGagatgcgaataaactgcttt	14	10	8	9	3	0	2	0	1	0	2	1	5	0	2	1	0	4	2	1	0	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:30419571G>A	uc002ymy.2	+	14	2142	c.1940G>A	c.(1939-1941)CGA>CAA	p.R647Q	USP16_uc002ymx.2_Missense_Mutation_p.R646Q|USP16_uc002ymw.2_Missense_Mutation_p.R647Q|USP16_uc011acm.1_Missense_Mutation_p.R632Q|USP16_uc011acn.1_Missense_Mutation_p.R313Q|USP16_uc011aco.1_Missense_Mutation_p.R337Q	NM_006447	NP_006438	Q9Y5T5	UBP16_HUMAN	ubiquitin specific protease 16 isoform a	647					cell division|histone deubiquitination|mitosis|positive regulation of transcription, DNA-dependent|protein homotetramerization|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|histone binding|transcription coactivator activity|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(2)|breast(1)|pancreas(1)	4						GAGAAACTTCGAGATGCGAAT	0.368													63	86					0	0	1	0	0		A	30419571	A	A	30419571	3	1	89	1	0	0	0	0	1	0	0	0	17073	1058	37	1	1990	1	USP16	21	30419571	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2092507	30419571	17710324	6458	60289											
USP16	10600	broad.mit.edu	37	chr21	30422460	30422460	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacacataaagtttccggaAatcttagatttggctccttt	13	14	6	8	1	1	1	0	0	1	1	3	2	3	2	2	2	1	2	2	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:30422460A>C	uc002ymy.2	+	16	2356	c.2154A>C	c.(2152-2154)GAA>GAC	p.E718D	USP16_uc002ymx.2_Missense_Mutation_p.E717D|USP16_uc002ymw.2_Missense_Mutation_p.E718D|USP16_uc011acm.1_Missense_Mutation_p.E703D|USP16_uc011acn.1_Missense_Mutation_p.E384D|USP16_uc011aco.1_Missense_Mutation_p.E408D	NM_006447	NP_006438	Q9Y5T5	UBP16_HUMAN	ubiquitin specific protease 16 isoform a	718					cell division|histone deubiquitination|mitosis|positive regulation of transcription, DNA-dependent|protein homotetramerization|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|histone binding|transcription coactivator activity|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(2)|breast(1)|pancreas(1)	4						AGTTTCCGGAAATCTTAGATT	0.358													26	34					0	0	1	0	0		C	30422460	C	C	30422460	3	2	89	1	0	0	0	0	1	0	0	0	17073	11	1	5	2212	5	USP16	21	30422460	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2889	30422460	17707435	6459	60290											
GRIK1	2897	broad.mit.edu	37	chr21	30925894	30925894	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattacacagtatgaactgaGgactgttttcgaatccctct	11	13	8	9	1	1	2	0	2	1	0	3	5	2	3	1	1	2	2	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:30925894G>T	uc002yno.1	-	17	3203	c.2739C>A	c.(2737-2739)TCC>TCA	p.S913S	GRIK1_uc002ynn.2_Intron|GRIK1_uc011acs.1_Intron|GRIK1_uc011act.1_Intron	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	913	Cytoplasmic (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	TATGAACTGAGGACTGTTTTC	0.348													24	59					2.89027e-11	3.162e-11	1	1	0		T	30925894	T	T	30925894	2	4	89	1	0	0	0	0	0	0	0	1	6789	987	35	5		5	GRIK1	21	30925894	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	503434	30925894	17204001	6460	60291											
KRTAP24-1	643803	broad.mit.edu	37	chr21	31654595	31654595	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagataaatagctcagtggtCggcagctcgtaggcctgtag	10	10	13	8	2	1	1	1	0	0	1	3	1	1	1	1	3	2	5	1	3	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:31654595C>T	uc002ynv.2	-	1	682	c.656G>A	c.(655-657)CGA>CAA	p.R219Q		NM_001085455	NP_001078924	Q3LI83	KR241_HUMAN	keratin associated protein 24-1	219	3.|6 X 10 AA repeats of Y-[ILR]-[SVPC]- [NRTS]-[SNTG]-X-[QHRP]-[PSY]-[QSL]-[SRK].					keratin filament	structural molecule activity				0						GCTCAGTGGTCGGCAGCTCGT	0.438													41	83					0	0	1	0	0		T	31654595	T	T	31654595	3	4	89	1	0	0	0	0	1	0	0	0	8558	884	31	1	112	1	KRTAP24-1	21	31654595	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	728701	31654595	16475300	6461	60292											
KRTAP27-1	643812	broad.mit.edu	37	chr21	31709589	31709589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcccttgaggcttgcaGgttggcagctctgggctaca	5	13	13	10	0	1	1	0	1	1	0	2	1	2	1	1	4	3	7	1	4	1	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:31709589G>A	uc002ynx.1	-	1	424	c.398C>T	c.(397-399)CCT>CTT	p.P133L		NM_001077711	NP_001071179	Q3LI81	KR271_HUMAN	keratin associated protein 27-1	133						intermediate filament				ovary(2)	2						GAGGCTTGCAGGTTGGCAGCT	0.488													63	171					0	0	1	0	0		A	31709589	A	A	31709589	3	1	89	1	0	0	0	0	1	0	0	0	8560	1000	35	4	229	4	KRTAP27-1	21	31709589	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	54994	31709589	16420306	6462	60293											
KRTAP13-1	140258	broad.mit.edu	37	chr21	31768675	31768675	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaacctccttgctctgcagtCcctgccagacaacttactct	8	11	6	16	0	2	1	0	0	2	1	4	2	4	1	4	0	6	2	4	0	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:31768675C>A	uc002yoa.2	+	1	284	c.271C>A	c.(271-273)CCC>ACC	p.P91T		NM_181599	NP_853630	Q8IUC0	KR131_HUMAN	keratin associated protein 13-1	91	5 X 10 AA approximate repeats.					intermediate filament				ovary(1)	1						GCTCTGCAGTCCCTGCCAGAC	0.617													30	62					1.88708e-17	2.18811e-17	1	1	0		A	31768675	A	A	31768675	3	1	89	1	0	0	0	0	1	0	0	0	8538	855	30	5	273	5	KRTAP13-1	21	31768675	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	59086	31768675	16361220	6463	60294											
KRTAP19-5	337972	broad.mit.edu	37	chr21	31874354	31874354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atagccatagcccaggtcatCgaagcctccgtagccgtagc	10	7	10	14	3	1	0	1	0	0	0	3	1	2	0	5	1	5	2	5	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:31874354C>T	uc011ada.1	-	1	55	c.55G>A	c.(55-57)GAT>AAT	p.D19N		NM_181611	NP_853642	Q3LI72	KR195_HUMAN	keratin associated protein 19-5	19						intermediate filament	protein binding				0						CCCAGGTCATCGAAGCCTCCG	0.587													65	138					0	0	1	0	0		T	31874354	T	T	31874354	3	4	89	1	0	0	0	0	1	0	0	0	8548	884	31	1	166	1	KRTAP19-5	21	31874354	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	105679	31874354	16255541	6464	60295											
TIAM1	7074	broad.mit.edu	37	chr21	32519234	32519234	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcaccaggaccttgggaaCttttgtgtggctggcgcaga	7	12	13	9	1	1	1	1	0	0	1	1	3	1	3	2	4	1	2	2	4	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:32519234C>A	uc002yow.1	-	21	3926	c.3454G>T	c.(3454-3456)GTT>TTT	p.V1152F	TIAM1_uc011adk.1_Missense_Mutation_p.V1152F|TIAM1_uc011adl.1_Missense_Mutation_p.V1092F	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1152	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						ACCTTGGGAACTTTTGTGTGG	0.537													11	40					3.03607e-14	3.42253e-14	1	1	0		A	32519234	A	A	32519234	3	1	89	1	0	0	0	0	1	0	0	0	15915	565	20	5	1357	5	TIAM1	21	32519234	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	644880	32519234	15610661	6465	60296											
TIAM1	7074	broad.mit.edu	37	chr21	32559358	32559358	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttccttcacactattcacgTacagccttcgaataccatct	10	14	3	14	2	3	0	2	0	1	0	5	1	4	0	3	0	3	1	3	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:32559358T>C	uc002yow.1	-	15	3093	c.2621A>G	c.(2620-2622)TAC>TGC	p.Y874C	TIAM1_uc011adk.1_Missense_Mutation_p.Y874C|TIAM1_uc011adl.1_Missense_Mutation_p.Y814C	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	874	PDZ.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						ACTATTCACGTACAGCCTTCG	0.453													71	125					0	0	1	0	0		C	32559358	C	C	32559358	3	2	89	1	0	0	0	0	1	0	0	0	15915	1638	57	3	2214	3	TIAM1	21	32559358	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	40124	32559358	15570537	6466	60297											
SFRS15	57466	broad.mit.edu	37	chr21	33068467	33068467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgtattcccatcattcgtgGctgaaactgatccatatttt	9	17	6	9	1	1	2	1	2	0	0	4	2	3	2	2	1	1	2	2	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:33068467G>A	uc002ypd.2	-	9	1453	c.1027C>T	c.(1027-1029)CCA>TCA	p.P343S	SFRS15_uc002ype.2_Missense_Mutation_p.P343S|SFRS15_uc010glu.2_Missense_Mutation_p.P328S|SFRS15_uc002ypf.1_Missense_Mutation_p.P17S	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	343						nucleus	nucleotide binding|RNA binding				0						ATCATTCGTGGCTGAAACTGA	0.403													89	173					0	0	1	0	0		A	33068467	A	A	33068467	3	1	89	1	0	0	0	0	1	0	0	0	14196	1203	42	2	2464	2	SFRS15	21	33068467	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	509109	33068467	15061428	6467	60298											
SYNJ1	8867	broad.mit.edu	37	chr21	34030180	34030180	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttctaaaaatcctctaaaAacctaaaataaacatataca	21	10	0	10	0	2	0	0	0	2	0	3	0	3	0	3	0	3	0	3	0	12	7	rs145411448		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:34030180A>C	uc002yqh.2	-	19	2424	c.2424T>G	c.(2422-2424)GTT>GTG	p.V808V	SYNJ1_uc011ads.1_Silent_p.V764V|SYNJ1_uc002yqf.2_Silent_p.V769V|SYNJ1_uc002yqg.2_Silent_p.V764V|SYNJ1_uc002yqi.2_Silent_p.V808V	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	769	Catalytic (Potential).						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						ATCCTCTAAAAACCTAAAATA	0.289													8	26					0	0	1	0	0		C	34030180	C	C	34030180	2	2	89	1	0	0	0	0	0	0	0	1	15477	1	1	5		5	SYNJ1	21	34030180	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	961713	34030180	14099715	6468	60299											
SYNJ1	8867	broad.mit.edu	37	chr21	34058149	34058149	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actatgtaatttttctgcctTtcctcccttaaccatttgat	8	19	3	11	0	1	1	0	1	1	0	3	1	3	1	4	0	2	1	4	0	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:34058149T>G	uc002yqh.2	-	9	1144	c.1144A>C	c.(1144-1146)AAG>CAG	p.K382Q	SYNJ1_uc011ads.1_Missense_Mutation_p.K343Q|SYNJ1_uc002yqf.2_Missense_Mutation_p.K343Q|SYNJ1_uc002yqg.2_Missense_Mutation_p.K343Q|SYNJ1_uc002yqi.2_Missense_Mutation_p.K382Q	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	343	SAC.						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						TTTTCTGCCTTTCCTCCCTTA	0.338													38	56					0	0	1	0	0		G	34058149	G	G	34058149	3	3	89	1	0	0	0	0	1	0	0	0	15477	1850	64	5	3824	5	SYNJ1	21	34058149	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	27969	34058149	14071746	6469	60300											
GCFC1	94104	broad.mit.edu	37	chr21	34132150	34132150	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcatctcattactgggagtTttgaaagggactgtattatc	10	15	10	6	0	2	1	2	1	1	0	4	3	2	3	0	2	1	2	0	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:34132150T>G	uc002yqn.2	-	6	1321	c.1131A>C	c.(1129-1131)AAA>AAC	p.K377N	GCFC1_uc002yqo.2_RNA|GCFC1_uc002yqp.2_Missense_Mutation_p.K377N|GCFC1_uc002yqr.2_Missense_Mutation_p.K377N	NM_016631	NP_057715	Q9Y5B6	GCFC1_HUMAN	GC-rich sequence DNA-binding factor candidate	377						cytosol|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						TACTGGGAGTTTTGAAAGGGA	0.413													61	113					0	0	1	0	0		G	34132150	G	G	34132150	3	3	89	1	0	0	0	0	1	0	0	0	6304	1838	64	5	1792	5	GCFC1	21	34132150	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	74001	34132150	13997745	6470	60301											
IL10RB	3588	broad.mit.edu	37	chr21	34652088	34652088	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccctggaatgcaagtagaAgtacttgctgattctttaca	11	12	8	10	0	1	2	0	1	1	1	1	3	1	3	2	1	4	4	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:34652088A>C	uc002yrk.1	+	4	462	c.363A>C	c.(361-363)GAA>GAC	p.E121D	IL10RB_uc002yrh.1_Missense_Mutation_p.E191D|IL10RB_uc002yri.1_Missense_Mutation_p.E74D|IL10RB_uc002yrl.1_Missense_Mutation_p.E123D	NM_000628	NP_000619	Q08334	I10R2_HUMAN	interleukin 10 receptor, beta precursor	121	Fibronectin type-III.|Extracellular (Potential).				immune response|inflammatory response	interleukin-28 receptor complex	protein binding|receptor activity				0						TGCAAGTAGAAGTACTTGCTG	0.328													58	128					0	0	1	0	0		C	34652088	C	C	34652088	3	2	89	1	0	0	0	0	1	0	0	0	7637	69	3	5	377	5	IL10RB	21	34652088	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	519938	34652088	13477807	6471	60302											
IFNAR1	3454	broad.mit.edu	37	chr21	34725189	34725189	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagcagtgtttttagtgaCgctgtatgtgagaaaacaaa	16	11	10	4	1	0	2	0	2	0	1	0	3	0	2	0	0	2	4	0	0	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:34725189C>T	uc002yrn.2	+	9	1416	c.1269C>T	c.(1267-1269)GAC>GAT	p.D423D	IFNAR1_uc011adv.1_Silent_p.D354D	NM_000629	NP_000620	P17181	INAR1_HUMAN	interferon-alpha receptor 1 precursor	423	Fibronectin type-III 3.|Extracellular (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	integral to plasma membrane	type I interferon receptor activity			central_nervous_system(1)|skin(1)	2					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	TTTTTAGTGACGCTGTATGTG	0.323													33	69					0	0	1	0	0		T	34725189	T	T	34725189	2	4	89	1	0	0	0	0	0	0	0	1	7560	535	19	1		1	IFNAR1	21	34725189	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	73101	34725189	13404706	6472	60303											
SON	6651	broad.mit.edu	37	chr21	34922384	34922384	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaatctgtggagagcacaTctccagagccatcaaagatc	14	8	9	10	0	3	4	1	1	2	3	5	5	3	4	2	1	2	1	2	1	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:34922384T>A	uc002yse.1	+	3	896	c.847T>A	c.(847-849)TCT>ACT	p.S283T	SON_uc002ysb.1_Missense_Mutation_p.S283T|SON_uc002ysc.2_Missense_Mutation_p.S283T|SON_uc002ysd.2_5'UTR|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	283					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						GGAGAGCACATCTCCAGAGCC	0.463											OREG0003564	type=REGULATORY REGION|Gene=AK074269|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	39	88					0	0	1	0	0		A	34922384	A	A	34922384	3	1	89	1	0	0	0	0	1	0	0	0	14951	1435	50	5	857	5	SON	21	34922384	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	197195	34922384	13207511	6473	60304											
SON	6651	broad.mit.edu	37	chr21	34922611	34922611	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattcatccatgacaagaccGcaggagttgccggagctgcc	10	7	12	12	2	1	2	1	1	0	1	2	5	2	4	4	2	3	3	4	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:34922611G>A	uc002yse.1	+	3	1123	c.1074G>A	c.(1072-1074)CCG>CCA	p.P358P	SON_uc002ysb.1_Silent_p.P358P|SON_uc002ysc.2_Silent_p.P358P|SON_uc002ysd.2_5'UTR|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	358					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						TGACAAGACCGCAGGAGTTGC	0.567													49	88					0	0	1	0	0		A	34922611	A	A	34922611	2	1	89	1	0	0	0	0	0	0	0	1	14951	1074	38	1		1	SON	21	34922611	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	227	34922611	13207284	6474	60305											
SON	6651	broad.mit.edu	37	chr21	34923451	34923451	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccagggcagcctggggcGccagagttgcctgggcagcc	5	6	17	13	1	0	1	0	0	0	1	0	1	0	1	5	4	4	3	5	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:34923451G>A	uc002yse.1	+	3	1963	c.1914G>A	c.(1912-1914)GCG>GCA	p.A638A	SON_uc002ysb.1_Silent_p.A638A|SON_uc002ysc.2_Silent_p.A638A|SON_uc002ysd.2_5'UTR|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	638					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						AGCCTGGGGCGCCAGAGTTGC	0.627													25	45					0	0	1	0	0		A	34923451	A	A	34923451	2	1	89	1	0	0	0	0	0	0	0	1	14951	1074	38	1		1	SON	21	34923451	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	840	34923451	13206444	6475	60306											
SON	6651	broad.mit.edu	37	chr21	34931566	34931566	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcgcacagagtaaagaaGatgatgatgtaatagtgaat	18	9	11	3	1	0	7	0	3	0	4	1	7	0	7	0	0	0	3	0	0	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:34931566G>T	uc002yse.1	+	5	6401	c.6352G>T	c.(6352-6354)GAT>TAT	p.D2118Y	SON_uc002ysc.2_Missense_Mutation_p.D2118Y|SON_uc002ysd.2_Missense_Mutation_p.D1109Y|SON_uc002ysf.1_Missense_Mutation_p.D146Y|SON_uc002ysg.2_Missense_Mutation_p.D1109Y	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	2118					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						GAGTAAAGAAGATGATGATGT	0.313													51	52					2.27781e-18	2.66151e-18	1	1	0		T	34931566	T	T	34931566	3	4	89	1	0	0	0	0	1	0	0	0	14951	942	33	5	6370	5	SON	21	34931566	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	8115	34931566	13198329	6476	60307											
ITSN1	6453	broad.mit.edu	37	chr21	35127704	35127704	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagtggacacttaacaggTatttacaaataaaaattagt	18	12	7	4	0	0	1	0	1	0	0	0	2	0	2	0	2	2	1	0	2	8	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:35127704T>C	uc002yta.1	+	8	992	c.724_splice	c.e8+2	p.G242_splice	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_Splice_Site|ITSN1_uc002ysz.2_Splice_Site_p.G242_splice|ITSN1_uc010gmg.2_Splice_Site_p.G205_splice|ITSN1_uc010gmh.2_Splice_Site|ITSN1_uc002ysw.2_Splice_Site_p.G242_splice|ITSN1_uc010gmi.2_Splice_Site_p.G205_splice|ITSN1_uc010gmj.2_Splice_Site_p.G126_splice|ITSN1_uc002ysy.2_Splice_Site_p.G242_splice|ITSN1_uc002ysx.2_Splice_Site_p.G205_splice|ITSN1_uc002ytb.1_Splice_Site_p.G242_splice|ITSN1_uc002ytc.1_Splice_Site_p.G242_splice|ITSN1_uc002ytd.2_Splice_Site|ITSN1_uc010gmk.2_Splice_Site_p.G205_splice|ITSN1_uc010gml.2_Splice_Site|ITSN1_uc002ytj.2_Splice_Site_p.G242_splice|ITSN1_uc010gmm.1_Splice_Site|ITSN1_uc002yte.2_Splice_Site_p.G176_splice	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						ACTTAACAGGTATTTACAAAT	0.348													12	34					0	0	1	0	0		C	35127704	C	C	35127704	5	2	89	1	0	0	0	0	0	0	1	0	7942	1652	57	3	752	3	ITSN1	21	35127704	Splice_Site	SNP	T	TCGA-BR-8680-01A-11D-2394-08	196138	35127704	13002191	6477	60308											
ITSN1	6453	broad.mit.edu	37	chr21	35260458	35260458	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttgttctcttttcagatTttttgggtcggacggagatc	5	19	11	6	2	2	2	1	0	1	2	5	4	2	3	0	3	0	2	0	3	0	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:35260458T>G	uc002yta.1	+	40	5288	c.5020T>G	c.(5020-5022)TTT>GTT	p.F1674V	DONSON_uc002ysn.1_Intron|ITSN1_uc002ytb.1_Missense_Mutation_p.F1669V|ITSN1_uc002ytj.2_Missense_Mutation_p.F1613V|ITSN1_uc010gmm.1_RNA	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	1674	C2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						CTTTTCAGATTTTTTGGGTCG	0.527													41	47					0	0	1	0	0		G	35260458	G	G	35260458	3	3	89	1	0	0	0	0	1	0	0	0	7942	1841	64	5	5180	5	ITSN1	21	35260458	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	132754	35260458	12869437	6478	60309											
SLC5A3	6526	broad.mit.edu	37	chr21	35467556	35467556	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctgtattttatcctggTcatgtgcattggtttttttg	4	20	10	7	0	1	0	1	0	0	0	2	0	2	0	2	3	1	3	2	3	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:35467556T>C	uc002yto.2	+	2	571	c.59T>C	c.(58-60)GTC>GCC	p.V20A	MRPS6_uc002ytp.2_Intron	NM_006933	NP_008864	P53794	SC5A3_HUMAN	solute carrier family 5 (inositol transporters),	20	Helical; (Potential).					integral to plasma membrane	myo-inositol:sodium symporter activity			ovary(2)	2						TTTATCCTGGTCATGTGCATT	0.468													48	101					0	0	1	0	0		C	35467556	C	C	35467556	3	2	89	1	0	0	0	0	1	0	0	0	14691	1667	58	3	61	3	SLC5A3	21	35467556	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	207098	35467556	12662339	6479	60310											
DOPEY2	9980	broad.mit.edu	37	chr21	37603319	37603319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggggttccagggaggaacGcagggaggcctttgccgccg	6	5	20	10	3	0	0	0	0	0	0	1	3	1	3	4	7	2	2	4	7	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:37603319G>A	uc002yvg.2	+	14	2316	c.2237G>A	c.(2236-2238)CGC>CAC	p.R746H	DOPEY2_uc011aeb.1_Missense_Mutation_p.R746H	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	746					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						AGGGAGGAACGCAGGGAGGCC	0.612													34	62					0	0	1	0	0		A	37603319	A	A	37603319	3	1	89	1	0	0	0	0	1	0	0	0	4714	1087	38	1	2287	1	DOPEY2	21	37603319	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2135763	37603319	10526576	6480	60311											
DOPEY2	9980	broad.mit.edu	37	chr21	37664487	37664487	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaatcaccaagaatgcaaaCcccacactgtcaggattcta	16	7	6	12	0	3	2	2	0	1	2	3	3	3	3	3	1	2	1	3	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:37664487C>A	uc002yvg.2	+	36	6680	c.6601C>A	c.(6601-6603)CCC>ACC	p.P2201T	DOPEY2_uc011aeb.1_Missense_Mutation_p.P2150T	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	2201					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						AGAATGCAAACCCCACACTGT	0.353													34	66					3.76114e-14	4.23289e-14	1	1	0		A	37664487	A	A	37664487	3	1	89	1	0	0	0	0	1	0	0	0	4714	507	18	5	6739	5	DOPEY2	21	37664487	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	61168	37664487	10465408	6481	60312											
MORC3	23515	broad.mit.edu	37	chr21	37741635	37741635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaagaagaaactgttgaaGacgagatagacgtaagaaat	22	6	10	3	2	0	7	0	1	0	6	0	8	0	7	0	0	1	2	0	0	8	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:37741635G>A	uc002yvi.2	+	15	2045	c.1969G>A	c.(1969-1971)GAC>AAC	p.D657N		NM_015358	NP_056173	Q14149	MORC3_HUMAN	MORC family CW-type zinc finger 3	657					cell aging|maintenance of protein location in nucleus|negative regulation of fibroblast proliferation|peptidyl-serine phosphorylation|protein stabilization	aggresome|intermediate filament cytoskeleton|PML body	ATP binding|zinc ion binding			ovary(2)	2						AACTGTTGAAGACGAGATAGA	0.433													31	80					0	0	1	0	0		A	37741635	A	A	37741635	3	1	89	1	0	0	0	0	1	0	0	0	9721	942	33	4	2027	4	MORC3	21	37741635	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	77148	37741635	10388260	6482	60313											
TTC3	7267	broad.mit.edu	37	chr21	38494187	38494187	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccctgcaagcaaacataaAagctcaaaaactctgtaaaa	19	6	6	10	0	2	0	1	0	1	0	2	0	2	0	1	1	5	4	1	1	8	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:38494187A>C	uc002yvz.2	+	12	1076	c.971A>C	c.(970-972)AAA>ACA	p.K324T	TTC3_uc011aee.1_Missense_Mutation_p.K14T|TTC3_uc002ywa.2_Missense_Mutation_p.K324T|TTC3_uc002ywb.2_Missense_Mutation_p.K324T|TTC3_uc010gnf.2_Missense_Mutation_p.K89T|TTC3_uc002ywc.2_Missense_Mutation_p.K14T|TTC3_uc011aed.1_Missense_Mutation_p.K14T|TTC3_uc010gne.1_Missense_Mutation_p.K324T	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	324					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				GCAAACATAAAAGCTCAAAAA	0.358													25	44					0	0	1	0	0		C	38494187	C	C	38494187	3	2	89	1	0	0	0	0	1	0	0	0	16723	14	1	5	1013	5	TTC3	21	38494187	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	752552	38494187	9635708	6483	60314											
TTC3	7267	broad.mit.edu	37	chr21	38501357	38501357	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgaaacaatgaatcagaaaAgttcaggtatgttttttctc	14	14	7	6	1	3	2	2	1	1	1	5	3	3	2	0	1	1	3	0	1	6	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:38501357A>C	uc002yvz.2	+	16	1457	c.1352A>C	c.(1351-1353)AAG>ACG	p.K451T	TTC3_uc011aee.1_Missense_Mutation_p.K141T|TTC3_uc002ywa.2_Missense_Mutation_p.K451T|TTC3_uc002ywb.2_Missense_Mutation_p.K451T|TTC3_uc010gnf.2_Missense_Mutation_p.K216T|TTC3_uc002ywc.2_Missense_Mutation_p.K141T|TTC3_uc011aed.1_Missense_Mutation_p.K141T|TTC3_uc010gne.1_Missense_Mutation_p.K451T	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	451					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				GAATCAGAAAAGTTCAGGTAT	0.299													18	44					0	0	1	0	0		C	38501357	C	C	38501357	3	2	89	1	0	0	0	0	1	0	0	0	16723	72	3	5	1410	5	TTC3	21	38501357	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	7170	38501357	9628538	6484	60315											
TTC3	7267	broad.mit.edu	37	chr21	38559387	38559387	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaaatgaaaatagaagagTatataaagaaagggaaagag	25	5	11	0	0	0	6	0	1	0	5	0	7	0	7	0	1	0	1	0	1	12	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:38559387T>C	uc002yvz.2	+	38	4969	c.4864T>C	c.(4864-4866)TAT>CAT	p.Y1622H	TTC3_uc002ywa.2_Missense_Mutation_p.Y1622H|TTC3_uc002ywb.2_Missense_Mutation_p.Y1622H|TTC3_uc010gnf.2_Missense_Mutation_p.Y1387H|TTC3_uc002ywc.2_Missense_Mutation_p.Y1312H	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1622					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				AATAGAAGAGTATATAAAGAA	0.358													15	28					0	0	1	0	0		C	38559387	C	C	38559387	3	2	89	1	0	0	0	0	1	0	0	0	16723	1638	57	3	5010	3	TTC3	21	38559387	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	58030	38559387	9570508	6485	60316											
DYRK1A	1859	broad.mit.edu	37	chr21	38853084	38853084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acggagaaaagtggatggatCgttacgaaattgactccttg	13	10	12	6	3	0	2	0	1	0	1	2	6	1	4	1	3	1	1	1	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:38853084C>T	uc002ywk.2	+	4	547	c.472C>T	c.(472-474)CGT>TGT	p.R158C	DYRK1A_uc002ywh.1_Missense_Mutation_p.R120C|DYRK1A_uc002ywi.2_Missense_Mutation_p.R158C|DYRK1A_uc002ywj.2_Missense_Mutation_p.R149C|DYRK1A_uc002ywl.2_Missense_Mutation_p.R158C|DYRK1A_uc002ywm.2_Missense_Mutation_p.R158C	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	158					nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						GTGGATGGATCGTTACGAAAT	0.338													26	71					0	0	1	0	0		T	38853084	T	T	38853084	3	4	89	1	0	0	0	0	1	0	0	0	4860	884	31	1	486	1	DYRK1A	21	38853084	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	293697	38853084	9276811	6486	60317											
DYRK1A	1859	broad.mit.edu	37	chr21	38862486	38862486	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctctttcagtgcatttgaAacgccactttatgtttcgaa	9	17	6	9	2	2	1	1	1	1	0	4	2	2	1	1	0	2	2	1	0	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:38862486A>C	uc002ywk.2	+	6	749	c.674A>C	c.(673-675)AAA>ACA	p.K225T	DYRK1A_uc002ywi.2_Missense_Mutation_p.K225T|DYRK1A_uc002ywj.2_Missense_Mutation_p.K216T|DYRK1A_uc002ywl.2_Missense_Mutation_p.K225T|DYRK1A_uc002ywm.2_Missense_Mutation_p.K225T|DYRK1A_uc011aei.1_5'UTR	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	225	Protein kinase.				nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						GTGCATTTGAAACGCCACTTT	0.343													22	47					0	0	1	0	0		C	38862486	C	C	38862486	3	2	89	1	0	0	0	0	1	0	0	0	4860	14	1	5	696	5	DYRK1A	21	38862486	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	9402	38862486	9267409	6487	60318											
KCNJ6	3763	broad.mit.edu	37	chr21	38997769	38997769	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actggtgatgtaggagcttcGagcttggcatgtcatccctg	7	12	13	9	1	1	1	1	1	0	0	3	3	2	2	1	3	2	4	1	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:38997769G>A	uc011aej.1	-	4	1017	c.964C>T	c.(964-966)CGA>TGA	p.R322*	KCNJ6_uc002ywo.2_Nonsense_Mutation_p.R322*	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	322	Cytoplasmic (By similarity).				synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	TAGGAGCTTCGAGCTTGGCAT	0.527													18	37					0	0	1	0	0		A	38997769	A	A	38997769	4	1	89	1	0	0	0	0	0	1	0	0	8071	1066	37	1	311	1	KCNJ6	21	38997769	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	135283	38997769	9132126	6488	60319											
KCNJ15	3772	broad.mit.edu	37	chr21	39671201	39671201	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaatggatgccattcacatCggcatgtccagcacccccct	9	8	8	16	1	1	0	1	0	0	0	3	1	2	1	5	2	2	3	5	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:39671201C>T	uc002ywv.2	+	4	320	c.18C>T	c.(16-18)ATC>ATT	p.I6I	KCNJ15_uc002yww.2_Silent_p.I6I|KCNJ15_uc002ywx.2_Silent_p.I6I	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	6	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						CCATTCACATCGGCATGTCCA	0.517													31	52					0	0	1	0	0		T	39671201	T	T	39671201	2	4	89	1	0	0	0	0	0	0	0	1	8065	874	31	1		1	KCNJ15	21	39671201	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	673432	39671201	8458694	6489	60320											
ERG	2078	broad.mit.edu	37	chr21	39755649	39755649	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcatgatgttcttgtcataGtagtaacggagggcgcggct	8	12	14	7	3	3	1	2	1	1	0	3	2	3	2	0	3	1	4	0	3	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:39755649G>A	uc010gnw.2	-	12	1432	c.1137C>T	c.(1135-1137)TAC>TAT	p.Y379Y	ERG_uc002yxa.2_Silent_p.Y372Y|ERG_uc011aek.1_Silent_p.Y280Y|ERG_uc010gnv.2_Silent_p.Y256Y|ERG_uc010gnx.2_Silent_p.Y355Y|ERG_uc011ael.1_Silent_p.Y379Y|ERG_uc002yxb.2_Silent_p.Y355Y	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	379	ETS.				cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				TCTTGTCATAGTAGTAACGGA	0.602													36	81					0	0	1	0	0		A	39755649	A	A	39755649	2	1	89	1	0	0	0	0	0	0	0	1	5230	1024	36	4		4	ERG	21	39755649	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	84448	39755649	8374246	6490	60321											
ERG	2078	broad.mit.edu	37	chr21	39775557	39775557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaataacaagatgttgaCgtctggaaggccatattctt	12	12	10	7	1	2	2	0	1	2	1	2	4	2	4	1	3	1	1	1	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:39775557C>T	uc010gnw.2	-	6	779	c.484G>A	c.(484-486)GTC>ATC	p.V162I	ERG_uc002yxa.2_Missense_Mutation_p.V155I|ERG_uc011aek.1_Missense_Mutation_p.V63I|ERG_uc010gnv.2_Missense_Mutation_p.V63I|ERG_uc010gnx.2_Missense_Mutation_p.V162I|ERG_uc011ael.1_Missense_Mutation_p.V162I|ERG_uc002yxb.2_Missense_Mutation_p.V162I|ERG_uc011aem.1_Intron|ERG_uc002yxc.3_Missense_Mutation_p.V162I|ERG_uc010gny.1_RNA	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	162	PNT.				cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				AAGATGTTGACGTCTGGAAGG	0.527													25	65					0	0	1	0	0		T	39775557	T	T	39775557	3	4	89	1	0	0	0	0	1	0	0	0	5230	536	19	1	1004	1	ERG	21	39775557	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19908	39775557	8354338	6491	60322											
ETS2	2114	broad.mit.edu	37	chr21	40189001	40189001	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccgttcctcattggattaAcagcaatacattaggtcagt	11	13	7	10	1	2	0	2	0	0	0	4	1	4	1	2	2	3	2	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:40189001A>G	uc002yxg.2	+	6	771	c.575A>G	c.(574-576)AAC>AGC	p.N192S	ETS2_uc002yxf.2_Missense_Mutation_p.N332S	NM_005239	NP_005230	P15036	ETS2_HUMAN	v-ets erythroblastosis virus E26 oncogene	192					positive regulation of transcription, DNA-dependent|skeletal system development	nucleus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|breast(1)|pancreas(1)	4		Prostate(19;6.33e-08)|all_epithelial(19;0.123)				CATTGGATTAACAGCAATACA	0.423													45	90					0	0	1	0	0		G	40189001	G	G	40189001	3	3	89	1	0	0	0	0	1	0	0	0	5284	43	2	3	593	3	ETS2	21	40189001	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	413444	40189001	7940894	6492	60323											
LCA5L	150082	broad.mit.edu	37	chr21	40783699	40783699	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtattcgatgactatagatGtttttaatttcaagctcacg	12	16	7	6	2	2	2	2	1	0	1	3	3	2	2	0	0	1	3	0	0	5	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:40783699G>A	uc002yxu.2	-	7	1318	c.1005C>T	c.(1003-1005)AAC>AAT	p.N335N	LCA5L_uc002yxv.2_Silent_p.N335N	NM_152505	NP_689718	O95447	LCA5L_HUMAN	Leber congenital amaurosis 5-like	335	Potential.										0		Prostate(19;1.2e-06)				GACTATAGATGTTTTTAATTT	0.279													19	41					0	0	1	0	0		A	40783699	A	A	40783699	2	1	89	1	0	0	0	0	0	0	0	1	8673	1368	48	4		4	LCA5L	21	40783699	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	594698	40783699	7346196	6493	60324											
LCA5L	150082	broad.mit.edu	37	chr21	40800375	40800375	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctaatgccacgccgaaGaaatgctcatctatatttgt	11	15	6	9	2	3	1	1	0	2	1	3	2	3	1	2	0	2	1	2	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:40800375G>T	uc002yxu.2	-	4	358	c.45C>A	c.(43-45)TTC>TTA	p.F15L	LCA5L_uc002yxv.2_Missense_Mutation_p.F15L|LCA5L_uc002yxw.1_Missense_Mutation_p.F15L|LCA5L_uc002yxx.1_Intron|LCA5L_uc002yxy.2_RNA	NM_152505	NP_689718	O95447	LCA5L_HUMAN	Leber congenital amaurosis 5-like	15											0		Prostate(19;1.2e-06)				CCACGCCGAAGAAATGCTCAT	0.363													28	61					1.08312e-15	1.23716e-15	1	1	0		T	40800375	T	T	40800375	3	4	89	1	0	0	0	0	1	0	0	0	8673	933	33	5	1995	5	LCA5L	21	40800375	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	16676	40800375	7329520	6494	60325											
SH3BGR	6450	broad.mit.edu	37	chr21	40834341	40834341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtagtgggttttttggaagCgaataaaatcgactttaagg	13	13	12	3	2	0	0	0	0	0	0	1	3	0	1	0	3	1	2	0	3	6	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:40834341C>T	uc002yya.2	+	2	329	c.275C>T	c.(274-276)GCG>GTG	p.A92V	SH3BGR_uc002yxz.2_5'UTR	NM_007341	NP_031367	P55822	SH3BG_HUMAN	SH3-binding domain and glutamic acid-rich	92					protein complex assembly	cytosol	SH3 domain binding|SH3/SH2 adaptor activity				0		all_cancers(19;1.16e-23)|all_epithelial(19;1.22e-20)|Prostate(19;2.55e-06)|Breast(209;0.0133)		STAD - Stomach adenocarcinoma(101;0.00151)		TTTTTGGAAGCGAATAAAATC	0.358													24	74					0	0	1	0	0		T	40834341	T	T	40834341	3	4	89	1	0	0	0	0	1	0	0	0	14265	768	27	1	281	1	SH3BGR	21	40834341	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	33966	40834341	7295554	6495	60326											
DSCAM	1826	broad.mit.edu	37	chr21	41559880	41559880	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattaatagcatggcaggaaAagaaaccagaatcttctctc	17	9	7	8	0	2	2	0	0	2	2	4	3	2	3	1	2	2	2	1	2	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:41559880A>C	uc002yyq.1	-	13	3040	c.2588T>G	c.(2587-2589)TTT>TGT	p.F863C	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	863	Ig-like C2-type 9.|Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				ATGGCAGGAAAAGAAACCAGA	0.398													25	40					0	0	1	0	0		C	41559880	C	C	41559880	3	2	89	1	0	0	0	0	1	0	0	0	4774	14	1	5	3534	5	DSCAM	21	41559880	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	725539	41559880	6570015	6496	60327											
DSCAM	1826	broad.mit.edu	37	chr21	41684041	41684041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggctttggtgctccacagCggcggcctcattccgggcta	4	10	13	14	3	1	0	1	0	0	0	3	0	3	0	3	5	2	3	3	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:41684041C>T	uc002yyq.1	-	9	2481	c.2029G>A	c.(2029-2031)GCT>ACT	p.A677T	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	677	Extracellular (Potential).|Ig-like C2-type 7.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TGCTCCACAGCGGCGGCCTCA	0.478													56	106					0	0	1	0	0		T	41684041	T	T	41684041	3	4	89	1	0	0	0	0	1	0	0	0	4774	768	27	1	4109	1	DSCAM	21	41684041	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	124161	41684041	6445854	6497	60328											
DSCAM	1826	broad.mit.edu	37	chr21	41684283	41684283	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaagggttgtatgaaaggcGgaactgcaagaaaaaagaaa	20	5	12	4	1	0	3	0	1	0	2	0	4	0	4	0	3	2	3	0	3	9	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:41684283G>A	uc002yyq.1	-	9	2239	c.1787C>T	c.(1786-1788)CCG>CTG	p.P596L	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	596	Extracellular (Potential).|Ig-like C2-type 7.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TATGAAAGGCGGAACTGCAAG	0.448													9	18					0	0	1	0	0		A	41684283	A	A	41684283	3	1	89	1	0	0	0	0	1	0	0	0	4774	1116	39	1	4351	1	DSCAM	21	41684283	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	242	41684283	6445612	6498	60329											
BACE2	25825	broad.mit.edu	37	chr21	42617914	42617914	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagacaaggccatcgtggAcagtggcaccacgctgctgc	9	5	13	14	3	0	1	0	0	0	1	1	2	0	2	2	3	2	4	2	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:42617914A>G	uc002yyw.2	+	6	1371	c.908A>G	c.(907-909)GAC>GGC	p.D303G	BACE2_uc002yyx.2_Missense_Mutation_p.D303G|BACE2_uc002yyy.2_Missense_Mutation_p.D303G|BACE2_uc010goo.2_RNA	NM_012105	NP_036237	Q9Y5Z0	BACE2_HUMAN	beta-site APP-cleaving enzyme 2 isoform A	303	Extracellular (Potential).			D->A: Loss of autoproteolytic cleavage.	membrane protein ectodomain proteolysis|negative regulation of amyloid precursor protein biosynthetic process|peptide hormone processing	cell surface|endoplasmic reticulum|endosome|Golgi apparatus|integral to membrane	aspartic-type endopeptidase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0251)				GCCATCGTGGACAGTGGCACC	0.632													8	16					0	0	1	0	0		G	42617914	G	G	42617914	3	3	89	1	0	0	0	0	1	0	0	0	1283	275	10	3	930	3	BACE2	21	42617914	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	933631	42617914	5511981	6499	60330											
BACE2	25825	broad.mit.edu	37	chr21	42647372	42647372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagccagcaactgtgtccccGctcagtctttgagcgagccc	7	9	10	15	2	2	1	1	1	1	0	3	2	3	1	4	0	5	2	4	0	2	2	rs149345353	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:42647372G>A	uc002yyw.2	+	9	1841	c.1378G>A	c.(1378-1380)GCT>ACT	p.A460T	BACE2_uc002yyx.2_Missense_Mutation_p.A410T|BACE2_uc002yyy.2_3'UTR|BACE2_uc010goo.2_RNA	NM_012105	NP_036237	Q9Y5Z0	BACE2_HUMAN	beta-site APP-cleaving enzyme 2 isoform A	460	Extracellular (Potential).				membrane protein ectodomain proteolysis|negative regulation of amyloid precursor protein biosynthetic process|peptide hormone processing	cell surface|endoplasmic reticulum|endosome|Golgi apparatus|integral to membrane	aspartic-type endopeptidase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0251)				CTGTGTCCCCGCTCAGTCTTT	0.527													28	64					0	0	1	0	0		A	42647372	A	A	42647372	3	1	89	1	0	0	0	0	1	0	0	0	1283	1087	38	1	1412	1	BACE2	21	42647372	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	29458	42647372	5482523	6500	60331											
UMODL1	89766	broad.mit.edu	37	chr21	43533907	43533907	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccaaagcatgtgggaaaGaaggtgccagagctcatctg	12	7	14	8	0	2	2	1	0	1	2	2	3	2	3	2	3	3	2	2	3	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:43533907G>T	uc002zaf.1	+	13	2329	c.2329G>T	c.(2329-2331)GAA>TAA	p.E777*	UMODL1_uc002zad.1_Nonsense_Mutation_p.E705*|UMODL1_uc002zae.1_Nonsense_Mutation_p.E833*|UMODL1_uc002zag.1_Nonsense_Mutation_p.E905*	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	777	Extracellular (Potential).|Fibronectin type-III 2.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						ATGTGGGAAAGAAGGTGCCAG	0.483													15	40					6.31663e-08	6.6657e-08	1	1	0		T	43533907	T	T	43533907	4	4	89	1	0	0	0	0	0	1	0	0	17006	943	33	5	2759	5	UMODL1	21	43533907	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	886535	43533907	4595988	6501	60332											
ABCG1	9619	broad.mit.edu	37	chr21	43702514	43702514	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccctccagtcatgttctTcgatgagcccaccaggtaag	10	9	8	14	1	2	1	1	1	1	0	4	2	3	1	4	1	2	2	4	1	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:43702514T>C	uc002zaq.2	+	6	825	c.719T>C	c.(718-720)TTC>TCC	p.F240S	ABCG1_uc002zan.2_Missense_Mutation_p.F242S|ABCG1_uc002zam.2_Missense_Mutation_p.F218S|ABCG1_uc002zao.2_Missense_Mutation_p.F237S|ABCG1_uc002zap.2_Missense_Mutation_p.F240S|ABCG1_uc002zar.2_Missense_Mutation_p.F251S|ABCG1_uc011aev.1_Missense_Mutation_p.F251S	NM_004915	NP_004906	P45844	ABCG1_HUMAN	ATP-binding cassette sub-family G member 1	240	Cytoplasmic (Potential).|ABC transporter.				amyloid precursor protein catabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|detection of hormone stimulus|high-density lipoprotein particle remodeling|intracellular cholesterol transport|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|positive regulation of cholesterol biosynthetic process|regulation of cholesterol esterification|regulation of transcription, DNA-dependent|response to lipid|reverse cholesterol transport	endoplasmic reticulum membrane|external side of plasma membrane|Golgi membrane|recycling endosome	ADP binding|ATP binding|cholesterol transporter activity|glycoprotein transporter activity|phospholipid transporter activity|protein heterodimerization activity|protein homodimerization activity|sterol-transporting ATPase activity|toxin transporter activity			ovary(2)|central_nervous_system(1)	3					Adenosine triphosphate(DB00171)	GTCATGTTCTTCGATGAGCCC	0.607													14	20					0	0	1	0	0		C	43702514	C	C	43702514	3	2	89	1	0	0	0	0	1	0	0	0	68	1783	62	3	909	3	ABCG1	21	43702514	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	168607	43702514	4427381	6502	60333											
ABCG1	9619	broad.mit.edu	37	chr21	43716283	43716283	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcctcctaggtatgggttCgaaggggtcatcctctccat	6	14	10	11	1	2	0	1	0	1	0	7	1	5	0	4	4	0	2	4	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:43716283C>T	uc002zaq.2	+	15	1924	c.1818C>T	c.(1816-1818)TTC>TTT	p.F606F	ABCG1_uc002zan.2_Silent_p.F596F|ABCG1_uc002zam.2_Silent_p.F572F|ABCG1_uc002zao.2_Silent_p.F591F|ABCG1_uc002zap.2_Silent_p.F594F|ABCG1_uc002zar.2_Silent_p.F605F|ABCG1_uc011aev.1_Silent_p.F617F|uc002zau.2_5'Flank	NM_004915	NP_004906	P45844	ABCG1_HUMAN	ATP-binding cassette sub-family G member 1	606	ABC transmembrane type-2.|Extracellular (Potential).				amyloid precursor protein catabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|detection of hormone stimulus|high-density lipoprotein particle remodeling|intracellular cholesterol transport|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|positive regulation of cholesterol biosynthetic process|regulation of cholesterol esterification|regulation of transcription, DNA-dependent|response to lipid|reverse cholesterol transport	endoplasmic reticulum membrane|external side of plasma membrane|Golgi membrane|recycling endosome	ADP binding|ATP binding|cholesterol transporter activity|glycoprotein transporter activity|phospholipid transporter activity|protein heterodimerization activity|protein homodimerization activity|sterol-transporting ATPase activity|toxin transporter activity			ovary(2)|central_nervous_system(1)	3					Adenosine triphosphate(DB00171)	GGTATGGGTTCGAAGGGGTCA	0.587													24	55					0	0	1	0	0		T	43716283	T	T	43716283	2	4	89	1	0	0	0	0	0	0	0	1	68	883	31	1		1	ABCG1	21	43716283	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	13769	43716283	4413612	6503	60334											
UBASH3A	53347	broad.mit.edu	37	chr21	43862610	43862610	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgagtggaacctggaatctTtgaatggacaaaatgggaag	15	8	13	5	1	1	1	0	1	1	0	1	6	1	5	1	4	1	0	1	4	6	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:43862610T>G	uc002zbe.2	+	12	1571	c.1535T>G	c.(1534-1536)TTT>TGT	p.F512C	UBASH3A_uc002zbf.2_Missense_Mutation_p.F474C|UBASH3A_uc010gpc.2_RNA|UBASH3A_uc010gpd.2_RNA|UBASH3A_uc010gpe.2_Missense_Mutation_p.F474C	NM_018961	NP_061834	P57075	UBS3A_HUMAN	ubiquitin associated and SH3 domain containing,	512	Phosphatase-like.					cytosol|nucleus				ovary(3)	3						CCTGGAATCTTTGAATGGACA	0.418													52	75					0	0	1	0	0		G	43862610	G	G	43862610	3	3	89	1	0	0	0	0	1	0	0	0	16865	1841	64	5	1581	5	UBASH3A	21	43862610	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	146327	43862610	4267285	6504	60335											
PKNOX1	5316	broad.mit.edu	37	chr21	44444988	44444988	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttattttcagcatccctAcccaacagaggatgagaaaa	14	12	6	9	0	1	2	1	1	0	2	2	4	2	3	2	1	3	1	2	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:44444988A>G	uc002zcq.1	+	9	1045	c.857A>G	c.(856-858)TAC>TGC	p.Y286C	PKNOX1_uc002zcp.1_Missense_Mutation_p.Y286C|PKNOX1_uc011aex.1_Missense_Mutation_p.Y169C	NM_004571	NP_004562	P55347	PKNX1_HUMAN	PBX/knotted 1 homeobox 1	286	Homeobox; TALE-type.						sequence-specific DNA binding			large_intestine(2)	2						CAGCATCCCTACCCAACAGAG	0.398													27	49					0	0	1	0	0		G	44444988	G	G	44444988	3	3	89	1	0	0	0	0	1	0	0	0	12001	391	14	3	887	3	PKNOX1	21	44444988	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	582378	44444988	3684907	6505	60336											
CBS	875	broad.mit.edu	37	chr21	44488638	44488638	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagagctcacacttcaggccGaacttcttcccaatcttgtt	9	12	6	14	1	4	1	2	0	2	1	5	2	5	1	2	1	2	2	2	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:44488638G>A	uc002zcu.2	-	4	542	c.297C>T	c.(295-297)TTC>TTT	p.F99F	CBS_uc002zcs.1_5'Flank|CBS_uc002zct.2_Silent_p.F99F|CBS_uc002zcw.3_Silent_p.F99F|CBS_uc002zcv.2_Silent_p.F99F	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	99					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	ACTTCAGGCCGAACTTCTTCC	0.443													25	46					0	0	1	0	0		A	44488638	A	A	44488638	2	1	89	1	0	0	0	0	0	0	0	1	2714	1049	37	1		1	CBS	21	44488638	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	43650	44488638	3641257	6506	60337											
TRAPPC10	7109	broad.mit.edu	37	chr21	45504019	45504019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaggccaaggaacctggaaCgtatacactcaggcagctgt	12	7	11	11	1	1	0	1	0	0	0	1	2	1	2	2	4	4	3	2	4	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:45504019C>T	uc002zea.2	+	15	2424	c.2255C>T	c.(2254-2256)ACG>ATG	p.T752M	TRAPPC10_uc010gpo.2_Missense_Mutation_p.T463M|TRAPPC10_uc011afa.1_Missense_Mutation_p.T171M	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	752					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						GAACCTGGAACGTATACACTC	0.567													12	28					0	0	1	0	0		T	45504019	T	T	45504019	3	4	89	1	0	0	0	0	1	0	0	0	16483	536	19	1	2313	1	TRAPPC10	21	45504019	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1015381	45504019	2625876	6507	60338											
PWP2	5822	broad.mit.edu	37	chr21	45540313	45540313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccggtgtgacctttactGccaccggctacgttgtggtg	5	12	13	11	3	0	2	0	2	0	0	0	2	0	2	4	3	3	2	4	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:45540313G>A	uc002zeb.2	+	11	1363	c.1273G>A	c.(1273-1275)GCC>ACC	p.A425T		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	425	WD 9.					cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		GACCTTTACTGCCACCGGCTA	0.587													57	116					0	0	1	0	0		A	45540313	A	A	45540313	3	1	89	1	0	0	0	0	1	0	0	0	12869	1319	46	2	1315	2	PWP2	21	45540313	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	36294	45540313	2589582	6508	60339											
KRTAP10-4	386672	broad.mit.edu	37	chr21	45994370	45994370	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcaagcctgtgtgctctgaGgattcctcttcatgctgcca	6	13	10	12	0	3	1	1	1	2	0	4	2	4	2	3	1	5	3	3	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:45994370G>T	uc002zfk.1	+	1	765	c.735G>T	c.(733-735)GAG>GAT	p.E245D	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198687	NP_941960	P60372	KR104_HUMAN	keratin associated protein 10-4	245	36 X 5 AA repeats of C-C-X(3).					keratin filament					0						TGTGCTCTGAGGATTCCTCTT	0.637													52	134					1.86633e-21	2.21483e-21	1	1	0		T	45994370	T	T	45994370	3	4	89	1	0	0	0	0	1	0	0	0	8527	991	35	5	737	5	KRTAP10-4	21	45994370	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	454057	45994370	2135525	6509	60340											
KRTAP10-9	386676	broad.mit.edu	37	chr21	46047149	46047149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgactcctggcaggtggacGactgcccagagagctgctgt	7	7	14	13	2	0	1	0	0	0	1	1	5	1	2	3	3	3	3	3	3	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:46047149G>A	uc002zfp.3	+	1	110	c.61G>A	c.(61-63)GAC>AAC	p.D21N	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9	21						keratin filament					0						GCAGGTGGACGACTGCCCAGA	0.672													31	74					0	0	1	0	0		A	46047149	A	A	46047149	3	1	89	1	0	0	0	0	1	0	0	0	8532	1058	37	1	63	1	KRTAP10-9	21	46047149	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	52779	46047149	2082746	6510	60341											
KRTAP10-9	386676	broad.mit.edu	37	chr21	46047218	46047218	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccccggccccctgcctgAccctggtctgcaccccagtg	3	6	11	21	2	1	1	0	1	1	0	1	1	1	1	8	2	2	1	8	2	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:46047218A>G	uc002zfp.3	+	1	179	c.130A>G	c.(130-132)ACC>GCC	p.T44A	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9	44	25 X 5 AA repeats of C-C-X(3).					keratin filament					0						CCCCTGCCTGACCCTGGTCTG	0.697													54	79					0	0	1	0	0		G	46047218	G	G	46047218	3	3	89	1	0	0	0	0	1	0	0	0	8532	275	10	3	132	3	KRTAP10-9	21	46047218	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	69	46047218	2082677	6511	60342											
KRTAP12-4	386684	broad.mit.edu	37	chr21	46074227	46074227	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgctccaggtgacaggtCtatagaccagggtggggcag	8	7	18	8	0	1	2	0	1	1	1	2	2	2	2	2	6	1	2	2	6	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:46074227C>A	uc002zfs.1	-	1	350	c.305G>T	c.(304-306)AGA>ATA	p.R102I	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198698	NP_941971	P60329	KR124_HUMAN	keratin associated protein 12-4	102						keratin filament				ovary(1)	1						GGTGACAGGTCTATAGACCAG	0.617													21	43					9.57634e-11	1.04293e-10	1	1	0		A	46074227	A	A	46074227	3	1	89	1	0	0	0	0	1	0	0	0	8537	913	32	5	37	5	KRTAP12-4	21	46074227	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	27009	46074227	2055668	6512	60343											
KRTAP12-3	386683	broad.mit.edu	37	chr21	46078099	46078099	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccatcatatatgtgactcCctcttgccaatcttcggggt	7	13	8	13	1	3	1	1	1	2	0	5	1	4	1	3	2	1	0	3	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:46078099C>A	uc002zft.2	+	1	251	c.203C>A	c.(202-204)CCC>CAC	p.P68H	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198697	NP_941970	P60328	KR123_HUMAN	keratin associated protein 12-3	68	14 X 5 AA approximate repeats.					intermediate filament				central_nervous_system(1)	1						TATGTGACTCCCTCTTGCCAA	0.647													35	105					3.76114e-14	4.23289e-14	1	1	0		A	46078099	A	A	46078099	3	1	89	1	0	0	0	0	1	0	0	0	8536	623	22	5	205	5	KRTAP12-3	21	46078099	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3872	46078099	2051796	6513	60344											
ITGB2	3689	broad.mit.edu	37	chr21	46309280	46309280	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactcgcatacgttgcagcgGcaccggccacgaccactaca	10	5	9	17	5	0	0	0	0	0	0	1	1	0	0	3	2	4	4	3	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:46309280G>A	uc002zgd.2	-	12	1832	c.1788C>T	c.(1786-1788)TGC>TGT	p.C596C	ITGB2_uc002zge.2_Silent_p.C596C|ITGB2_uc002zgf.3_Silent_p.C596C|ITGB2_uc011afl.1_Silent_p.C518C|ITGB2_uc010gpw.2_Silent_p.C539C|ITGB2_uc002zgg.2_Silent_p.C596C	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	596	Extracellular (Potential).|Cysteine-rich tandem repeats.|IV.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	CGTTGCAGCGGCACCGGCCAC	0.657													17	19					0	0	1	0	0		A	46309280	A	A	46309280	2	1	89	1	0	0	0	0	0	0	0	1	7910	1195	42	2		2	ITGB2	21	46309280	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	231181	46309280	1820615	6514	60345											
ITGB2	3689	broad.mit.edu	37	chr21	46321485	46321485	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggaaatcagctgcttcccGacctcggtctgaaactggtt	8	10	10	13	3	2	1	1	1	1	0	4	3	3	2	3	3	3	3	3	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:46321485G>A	uc002zgd.2	-	5	707	c.663C>T	c.(661-663)GTC>GTT	p.V221V	ITGB2_uc002zge.2_Silent_p.V221V|ITGB2_uc002zgf.3_Silent_p.V221V|ITGB2_uc011afl.1_Silent_p.V143V|ITGB2_uc010gpw.2_Silent_p.V164V|ITGB2_uc002zgg.2_Silent_p.V221V	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	221	Extracellular (Potential).|VWFA.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	GCTGCTTCCCGACCTCGGTCT	0.622													36	54					0	0	1	0	0		A	46321485	A	A	46321485	2	1	89	1	0	0	0	0	0	0	0	1	7910	1045	37	1		1	ITGB2	21	46321485	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	12205	46321485	1808410	6515	60346											
ADARB1	104	broad.mit.edu	37	chr21	46624478	46624478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccctccagctggaacgTggtgggcatccagggatccc	6	9	12	14	1	1	0	0	0	1	0	5	2	4	2	4	4	2	2	4	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:46624478T>C	uc002zgy.2	+	10	2129	c.1694T>C	c.(1693-1695)GTG>GCG	p.V565A	ADARB1_uc002zgr.2_Missense_Mutation_p.V565A|ADARB1_uc002zgs.2_RNA|ADARB1_uc002zgw.2_Missense_Mutation_p.V525A|ADARB1_uc002zgv.2_RNA|ADARB1_uc002zgt.2_Missense_Mutation_p.V525A|ADARB1_uc010gpx.2_RNA|ADARB1_uc002zgq.2_RNA|ADARB1_uc002zgu.2_RNA	NM_015833	NP_056648	P78563	RED1_HUMAN	RNA-specific adenosine deaminase B1 isoform 2	565	A to I editase.				adenosine to inosine editing|mRNA modification|mRNA processing|RNA processing	nucleoplasm|nucleus	double-stranded RNA adenosine deaminase activity|double-stranded RNA adenosine deaminase activity|double-stranded RNA binding|double-stranded RNA binding|metal ion binding|mRNA binding|RNA binding			skin(1)	1				Colorectal(79;0.115)		AGCTGGAACGTGGTGGGCATC	0.592													28	89					0	0	1	0	0		C	46624478	C	C	46624478	3	2	89	1	0	0	0	0	1	0	0	0	282	1696	59	3	1724	3	ADARB1	21	46624478	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	302993	46624478	1505417	6516	60347											
COL18A1	80781	broad.mit.edu	37	chr21	46896386	46896386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagcagaccacggtggcttCgttaggaggtaagctctttt	8	11	14	8	2	1	1	0	0	1	1	2	3	1	3	1	5	2	5	1	5	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:46896386C>T	uc011afs.1	+	5	2186	c.2165C>T	c.(2164-2166)TCG>TTG	p.S722L	COL18A1_uc002zhg.2_Missense_Mutation_p.S307L|COL18A1_uc002zhi.2_Missense_Mutation_p.S487L	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	722	Nonhelical region 1 (NC1).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		ACGGTGGCTTCGTTAGGAGGT	0.383													3	11					0	0	1	0	0		T	46896386	T	T	46896386	3	4	89	1	0	0	0	0	1	0	0	0	3678	893	31	1	2297	1	COL18A1	21	46896386	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	271908	46896386	1233509	6517	60348											
PCBP3	54039	broad.mit.edu	37	chr21	47359992	47359992	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaccaaaatcaatgaaattCgacagatgtctggagctcag	15	8	10	8	1	3	2	2	1	1	1	4	5	3	4	1	2	1	1	1	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:47359992C>T	uc002zhq.1	+	13	1083	c.958C>T	c.(958-960)CGA>TGA	p.R320*	PCBP3_uc002zhp.1_Nonsense_Mutation_p.R300*|PCBP3_uc002zhs.1_Nonsense_Mutation_p.R294*|PCBP3_uc002zhr.1_Nonsense_Mutation_p.R319*|PCBP3_uc002zht.1_Nonsense_Mutation_p.R310*	NM_020528	NP_065389	P57721	PCBP3_HUMAN	poly(rC) binding protein 3 isoform 1	320	KH 3.				mRNA metabolic process	cytosol|mitochondrion|nucleus|ribonucleoprotein complex	DNA binding|RNA binding			skin(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0411)|READ - Rectum adenocarcinoma(84;0.0649)		CAATGAAATTCGACAGATGTC	0.537													32	54					0	0	1	0	0		T	47359992	T	T	47359992	4	4	89	1	0	0	0	0	0	1	0	0	11521	876	31	1	1008	1	PCBP3	21	47359992	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	463606	47359992	769903	6518	60349											
MCM3AP	8888	broad.mit.edu	37	chr21	47704119	47704119	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacaaagccagtttcctttTtggcctccttgttgcccaga	8	13	7	13	0	0	1	0	0	0	1	2	1	2	1	5	1	3	2	5	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:47704119T>G	uc002zir.1	-	1	1118	c.1082A>C	c.(1081-1083)AAA>ACA	p.K361T	C21orf57_uc002zit.1_5'Flank|C21orf57_uc002ziu.1_5'Flank|C21orf57_uc002ziv.2_5'Flank|C21orf57_uc002ziw.2_5'Flank|C21orf57_uc002zix.2_5'Flank|C21orf57_uc010gqh.2_5'Flank|C21orf57_uc002ziy.2_5'Flank	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	361					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					AGTTTCCTTTTTGGCCTCCTT	0.507													55	136					0	0	1	0	0		G	47704119	G	G	47704119	3	3	89	1	0	0	0	0	1	0	0	0	9406	1841	64	5	4972	5	MCM3AP	21	47704119	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	344127	47704119	425776	6519	60350											
C21orf57	54059	broad.mit.edu	37	chr21	47706911	47706911	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagatcgagattgtaaggagGattttaggagtgcagaaatt	15	11	13	2	1	0	3	0	0	0	3	1	7	0	6	0	3	1	2	0	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:47706911G>A	uc002ziv.2	+	2	513	c.84G>A	c.(82-84)AGG>AGA	p.R28R	C21orf57_uc002zit.1_Silent_p.R28R|C21orf57_uc002ziu.1_Silent_p.R28R|C21orf57_uc002ziw.2_Intron|C21orf57_uc002zix.2_Silent_p.R28R|C21orf57_uc010gqh.2_Intron|C21orf57_uc002ziy.2_Silent_p.R28R|MCM3AP_uc002zir.1_5'Flank	NM_058181	NP_478061	P58557	YBEY_HUMAN	hypothetical protein LOC54059 isoform 1	28							metal ion binding|metalloendopeptidase activity				0	Breast(49;0.112)			Colorectal(79;0.236)		TTGTAAGGAGGATTTTAGGAG	0.423													28	40					0	0	1	0	0		A	47706911	A	A	47706911	2	1	89	1	0	0	0	0	0	0	0	1	2131	1165	41	4		4	C21orf57	21	47706911	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2792	47706911	422984	6520	60351											
PCNT	5116	broad.mit.edu	37	chr21	47848442	47848442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagaagctgcagcacttgcGcacggcgctgacaagcgcag	10	4	15	12	4	0	2	0	1	0	1	0	3	0	2	0	2	5	6	0	2	2	1	rs140173772		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr21:47848442G>A	uc002zji.3	+	35	7735	c.7628G>A	c.(7627-7629)CGC>CAC	p.R2543H	PCNT_uc002zjj.2_Missense_Mutation_p.R2425H	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2543	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					CAGCACTTGCGCACGGCGCTG	0.697													9	16					0	0	1	0	0		A	47848442	A	A	47848442	3	1	89	1	0	0	0	0	1	0	0	0	11609	1087	38	1	7766	1	PCNT	21	47848442	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	141531	47848442	281453	6521	60352											
CCT8L2	150160	broad.mit.edu	37	chr22	17071789	17071789	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttattcaatccaaggattTtttttgtttccacaggaggt	10	17	8	6	0	1	0	1	0	0	0	3	2	3	2	2	3	0	2	2	3	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:17071789T>G	uc002zlp.1	-	1	1912	c.1652A>C	c.(1651-1653)AAA>ACA	p.K551T		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	551					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				TCCAAGGATTTTTTTTGTTTC	0.408													36	99					0	0	1	0	0		G	17071789	G	G	17071789	3	3	89	1	0	0	0	0	1	0	0	0	2964	1841	64	5	25	5	CCT8L2	22	17071789	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08		17071789	34232777	6522	60353											
GAB4	128954	broad.mit.edu	37	chr22	17447013	17447013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggttaggcttgaggctgCggttgacagggggcagctgg	5	10	19	7	1	1	2	0	2	1	0	1	2	1	2	0	7	2	6	0	7	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:17447013C>T	uc002zlw.2	-	6	1373	c.1265G>A	c.(1264-1266)CGC>CAC	p.R422H	GAB4_uc010gqs.1_3'UTR	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	422										large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				CTTGAGGCTGCGGTTGACAGG	0.532													34	72					0	0	1	0	0		T	17447013	T	T	17447013	3	4	89	1	0	0	0	0	1	0	0	0	6165	768	27	1	479	1	GAB4	22	17447013	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	375224	17447013	33857553	6523	60354											
GAB4	128954	broad.mit.edu	37	chr22	17447056	17447056	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatgtccctggctgaggtCttggtgcatagaaagctctg	7	12	12	10	0	3	2	1	1	2	1	4	2	4	2	1	3	2	3	1	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:17447056C>A	uc002zlw.2	-	6	1330	c.1222G>T	c.(1222-1224)GAC>TAC	p.D408Y	GAB4_uc010gqs.1_3'UTR	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	408										large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				TGGCTGAGGTCTTGGTGCATA	0.542													30	65					1.06801e-11	1.1736e-11	1	1	0		A	17447056	A	A	17447056	3	1	89	1	0	0	0	0	1	0	0	0	6165	913	32	5	522	5	GAB4	22	17447056	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	43	17447056	33857510	6524	60355											
CECR1	51816	broad.mit.edu	37	chr22	17662438	17662438	+	Missense_Mutation	SNP	T	G	G																															ccagatttccatgaaagtatTtttctcactctccaacaggg																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:17662438T>G	uc002zmk.1	-	9	1683	c.1471A>C	c.(1471-1473)AAT>CAT	p.N491H	CECR1_uc010gqu.1_Missense_Mutation_p.N491H|CECR1_uc011agi.1_Missense_Mutation_p.N449H|CECR1_uc002zmj.1_Missense_Mutation_p.N250H	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	491					adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				ATGAAAGTATTTTTCTCACTC	0.527													76	157					0	0	1	0	0		G	17662438	G	G	17662438	3	3	89	1	0	0	0	0	1	0	0	0	3208	1841	64	5	68	5	CECR1	22	17662438	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	215382	17662438	33642128	6525	60356	114	2									
CECR1	51816	broad.mit.edu	37	chr22	17662442	17662442	+	Silent	SNP	C	T	T																															atttccatgaaagtatttttCtcactctccaacagggtact																								rs61738625	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:17662442C>T	uc002zmk.1	-	9	1679	c.1467G>A	c.(1465-1467)GAG>GAA	p.E489E	CECR1_uc010gqu.1_Silent_p.E489E|CECR1_uc011agi.1_Silent_p.E447E|CECR1_uc002zmj.1_Silent_p.E248E	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	489					adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				AAGTATTTTTCTCACTCTCCA	0.527													74	147					0	0	1	0	0		T	17662442	T	T	17662442	2	4	89	1	0	0	0	0	0	0	0	1	3208	912	32	4		4	CECR1	22	17662442	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	4	17662442	33642124	6526	60357	114	2									
CECR2	27443	broad.mit.edu	37	chr22	17976436	17976436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtttggggccctggtctaggCctcagacattccacagctac	7	10	11	13	0	2	1	1	0	1	1	3	1	3	1	3	4	2	2	3	4	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:17976436C>T	uc010gqw.1	+	2	223	c.97C>T	c.(97-99)CCT>TCT	p.P33S	CECR2_uc010gqv.1_5'UTR|CECR2_uc002zml.2_5'UTR|CECR2_uc002zmm.1_5'Flank	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	75					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		CTGGTCTAGGCCTCAGACATT	0.483													14	28					0	0	1	0	0		T	17976436	T	T	17976436	3	4	89	1	0	0	0	0	1	0	0	0	3209	753	26	2	105	2	CECR2	22	17976436	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	313994	17976436	33328130	6527	60358											
CECR2	27443	broad.mit.edu	37	chr22	18028975	18028975	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcaggaatgggatttggttCatctgcatttccaccccaca	9	13	8	11	0	3	0	2	0	1	0	4	2	4	2	3	3	1	2	3	3	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:18028975C>T	uc010gqw.1	+	16	4058	c.3932C>T	c.(3931-3933)TCA>TTA	p.S1311L	CECR2_uc010gqv.1_Missense_Mutation_p.S1169L|CECR2_uc002zml.2_Missense_Mutation_p.S1170L|CECR2_uc002zmo.2_RNA	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	1353					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		GGATTTGGTTCATCTGCATTT	0.572													40	109					0	0	1	0	0		T	18028975	T	T	18028975	3	4	89	1	0	0	0	0	1	0	0	0	3209	838	29	4	3996	4	CECR2	22	18028975	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	52539	18028975	33275591	6528	60359											
MICAL3	57553	broad.mit.edu	37	chr22	18348745	18348745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgtgcgtagccagagagtCgatagcagtagtgtggctta	9	12	14	6	2	0	1	0	0	0	1	1	3	0	1	1	1	3	4	1	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:18348745C>T	uc002zng.3	-	18	2815	c.2462G>A	c.(2461-2463)CGA>CAA	p.R821Q	MICAL3_uc011agl.1_Missense_Mutation_p.R821Q|MICAL3_uc002znh.2_Missense_Mutation_p.R821Q|MICAL3_uc002znj.1_Missense_Mutation_p.R549Q|MICAL3_uc002znk.1_Missense_Mutation_p.R821Q|MICAL3_uc002znl.1_Missense_Mutation_p.R454Q|MICAL3_uc002znm.2_Missense_Mutation_p.R322Q|MICAL3_uc010grf.2_Missense_Mutation_p.R945Q	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	821	LIM zinc-binding.					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		GCCAGAGAGTCGATAGCAGTA	0.562													10	31					0	0	1	0	0		T	18348745	T	T	18348745	3	4	89	1	0	0	0	0	1	0	0	0	9589	884	31	1	3955	1	MICAL3	22	18348745	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	319770	18348745	32955821	6529	60360											
DGCR2	9993	broad.mit.edu	37	chr22	19026632	19026632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacaggctcaaaagcatcatCgtctgcaggaagagacagag	15	5	11	10	1	3	2	2	0	1	2	4	4	3	3	0	2	2	3	0	2	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:19026632C>T	uc002zoq.1	-	10	1647	c.1399G>A	c.(1399-1401)GAT>AAT	p.D467N	DGCR2_uc002zor.1_Missense_Mutation_p.D243N|DGCR2_uc011agr.1_Missense_Mutation_p.D423N	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	467	Cytoplasmic (Potential).				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					AAAGCATCATCGTCTGCAGGA	0.627													19	30					0	0	1	0	0		T	19026632	T	T	19026632	3	4	89	1	0	0	0	0	1	0	0	0	4467	884	31	1	257	1	DGCR2	22	19026632	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	677887	19026632	32277934	6530	60361											
CLTCL1	8218	broad.mit.edu	37	chr22	19170998	19170998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaagcaccatgtctgggcGaagcaggtcatagcaggtga	11	7	13	10	1	3	1	2	1	1	0	3	2	3	1	1	3	3	3	1	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:19170998G>A	uc002zpb.2	-	31	4807	c.4732C>T	c.(4732-4734)CGC>TGC	p.R1578C	CLTCL1_uc011agv.1_Missense_Mutation_p.R1521C|CLTCL1_uc011agw.1_Missense_Mutation_p.R1557C|CLTCL1_uc011agt.1_Missense_Mutation_p.R369C|CLTCL1_uc011agu.1_Missense_Mutation_p.R275C	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	1578	Proximal segment.|Trimerization (By similarity).|Heavy chain arm.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					ATGTCTGGGCGAAGCAGGTCA	0.587			T	?	ALCL								21	38					0	0	1	0	0		A	19170998	A	A	19170998	3	1	89	1	0	0	0	0	1	0	0	0	3570	1058	37	1	202	1	CLTCL1	22	19170998	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	144366	19170998	32133568	6531	60362											
CLTCL1	8218	broad.mit.edu	37	chr22	19203720	19203720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaaggctttgacagtgaccGaaatctcttcaggatcccgt	11	11	9	10	2	2	2	1	2	1	0	4	4	3	3	2	2	0	1	2	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:19203720G>A	uc002zpb.2	-	19	3041	c.2966C>T	c.(2965-2967)TCG>TTG	p.S989L	CLTCL1_uc011agv.1_Missense_Mutation_p.S989L|CLTCL1_uc011agw.1_Missense_Mutation_p.S989L|CLTCL1_uc002zpe.2_5'Flank|CLTCL1_uc002zpd.1_5'Flank	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	989	Proximal segment.|Heavy chain arm.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					GACAGTGACCGAAATCTCTTC	0.423			T	?	ALCL								15	42					0	0	1	0	0		A	19203720	A	A	19203720	3	1	89	1	0	0	0	0	1	0	0	0	3570	1059	37	1	2012	1	CLTCL1	22	19203720	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	32722	19203720	32100846	6532	60363											
CLTCL1	8218	broad.mit.edu	37	chr22	19211552	19211552	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtcttggctgaagttcacGattgagcccaggaagtagaa	11	9	14	7	1	2	3	1	2	1	1	2	5	2	4	1	3	1	3	1	3	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:19211552G>A	uc002zpb.2	-	14	2229	c.2154C>T	c.(2152-2154)ATC>ATT	p.I718I	CLTCL1_uc011agv.1_Silent_p.I718I|CLTCL1_uc011agw.1_Silent_p.I718I	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	718	Proximal segment.|Heavy chain arm.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					TGAAGTTCACGATTGAGCCCA	0.517			T	?	ALCL								19	20					0	0	1	0	0		A	19211552	A	A	19211552	2	1	89	1	0	0	0	0	0	0	0	1	3570	1048	37	1		1	CLTCL1	22	19211552	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	7832	19211552	32093014	6533	60364											
CLTCL1	8218	broad.mit.edu	37	chr22	19221116	19221116	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcgggtatactctggaatttCtggaccgtctctctggtacg	6	13	12	10	3	4	0	0	0	4	0	5	2	4	2	1	4	2	2	1	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:19221116C>T	uc002zpb.2	-	8	1272	c.1197G>A	c.(1195-1197)CAG>CAA	p.Q399Q	CLTCL1_uc011agv.1_Silent_p.Q399Q|CLTCL1_uc011agw.1_Silent_p.Q399Q	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	399	Globular terminal domain.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					TCTGGAATTTCTGGACCGTCT	0.463			T	?	ALCL								9	59					0	0	1	0	0		T	19221116	T	T	19221116	2	4	89	1	0	0	0	0	0	0	0	1	3570	912	32	4		4	CLTCL1	22	19221116	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	9564	19221116	32083450	6534	60365											
CLDN5	7122	broad.mit.edu	37	chr22	19511134	19511134	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgccctcagacgtagttCttcttgtcgtagtcgccggt	5	12	11	13	5	3	1	1	0	2	1	5	1	3	1	2	1	1	3	2	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:19511134C>A	uc002zpu.2	-	2	1115	c.900G>T	c.(898-900)AAG>AAT	p.K300N	CLDN5_uc010grr.2_Missense_Mutation_p.K300N	NM_003277	NP_003268	O00501	CLD5_HUMAN	claudin 5	215	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity				0	Colorectal(54;0.0993)					AGACGTAGTTCTTCTTGTCGT	0.721													4	38					0.184627	0.184943	1	1	0		A	19511134	A	A	19511134	3	1	89	1	0	0	0	0	1	0	0	0	3491	912	32	5	15	5	CLDN5	22	19511134	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	290018	19511134	31793432	6535	60366											
RIMBP3	85376	broad.mit.edu	37	chr22	20458539	20458539	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcctccagagcttcatcctgCcccgctgggagttgactggg	5	10	12	14	1	1	2	1	1	0	1	4	3	4	3	5	2	2	3	5	2	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:20458539C>T	uc002zsd.3	-	1	3248	c.2763G>A	c.(2761-2763)GGG>GGA	p.G921G		NM_015672	NP_056487			RIMS binding protein 3												0	Colorectal(54;0.0993)|Melanoma(16;0.165)		LUSC - Lung squamous cell carcinoma(15;0.0405)|Lung(15;0.224)			CTTCATCCTGCCCCGCTGGGA	0.597													14	30					0	0	1	0	0		T	20458539	T	T	20458539	2	4	89	1	0	0	0	0	0	0	0	1	13389	726	26	2		2	RIMBP3	22	20458539	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	947405	20458539	30846027	6536	60367											
ZNF74	7625	broad.mit.edu	37	chr22	20761251	20761251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccctggggagcaaacctcGaaactaacatgatgtgcttt	11	10	9	11	1	0	1	0	1	0	0	2	3	1	2	2	2	5	2	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:20761251G>A	uc010gsm.2	+	6	2140	c.1928G>A	c.(1927-1929)CGA>CAA	p.R643Q	ZNF74_uc002zsg.2_Missense_Mutation_p.R572Q|ZNF74_uc002zsh.2_Missense_Mutation_p.R643Q|ZNF74_uc002zsi.2_Missense_Mutation_p.R572Q|ZNF74_uc010gsn.2_Missense_Mutation_p.R572Q	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	643					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			AGCAAACCTCGAAACTAACAT	0.547													14	20					0	0	1	0	0		A	20761251	A	A	20761251	3	1	89	1	0	0	0	0	1	0	0	0	18152	1058	37	1	1946	1	ZNF74	22	20761251	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	302712	20761251	30543315	6537	60368											
PI4KA	5297	broad.mit.edu	37	chr22	21075682	21075682	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggatttagacgctgcccacaGaatatactcccgcacatagc	12	8	8	13	2	0	2	0	0	0	2	1	3	1	3	2	1	3	2	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:21075682G>A	uc002zsz.3	-	43	5077	c.4846C>T	c.(4846-4848)CTG>TTG	p.L1616L	PI4KA_uc010gsp.2_Silent_p.L9L|PI4KA_uc002zsy.3_Silent_p.L426L	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1616					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			GCTGCCCACAGAATATACTCC	0.542													45	84					0	0	1	0	0		A	21075682	A	A	21075682	2	1	89	1	0	0	0	0	0	0	0	1	11892	933	33	4		4	PI4KA	22	21075682	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	314431	21075682	30228884	6538	60369											
SERPIND1	3053	broad.mit.edu	37	chr22	21133888	21133888	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacgactacatcgacatcgtCgacagtctgtcagtttcccc	9	10	8	14	4	2	0	1	0	1	0	6	4	3	0	2	0	1	1	2	0	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:21133888C>T	uc002ztb.1	+	2	355	c.288C>T	c.(286-288)GTC>GTT	p.V96V	PI4KA_uc002zsz.3_Intron|SERPIND1_uc002ztc.2_Silent_p.V124V	NM_000185	NP_000176	P05546	HEP2_HUMAN	heparin cofactor II precursor	96	2 X 11 AA approximate repeats, Asp/Glu- rich (acidic) (hirudin-like).|2.				blood coagulation|chemotaxis|regulation of proteolysis	extracellular region	heparin binding|serine-type endopeptidase inhibitor activity				0	all_cancers(11;6.16e-25)|all_epithelial(7;1.02e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)		Ardeparin(DB00407)	TCGACATCGTCGACAGTCTGT	0.527													42	41					0	0	1	0	0		T	21133888	T	T	21133888	2	4	89	1	0	0	0	0	0	0	0	1	14135	871	31	1		1	SERPIND1	22	21133888	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	58206	21133888	30170678	6539	60370											
CRKL	1399	broad.mit.edu	37	chr22	21288167	21288167	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatgattttcctgggaatGatgccgaagacctgcccttt	8	14	10	9	1	0	3	0	2	0	1	1	5	1	4	4	1	2	1	4	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:21288167G>T	uc002ztf.2	+	2	921	c.412G>T	c.(412-414)GAT>TAT	p.D138Y	CRKL_uc002ztg.1_RNA	NM_005207	NP_005198	P46109	CRKL_HUMAN	v-crk sarcoma virus CT10 oncogene homolog	138	SH3 1.				JNK cascade|Ras protein signal transduction	cytosol	protein tyrosine kinase activity|SH3/SH2 adaptor activity|signal transducer activity				0	all_cancers(11;1.16e-25)|all_epithelial(7;3.37e-24)|Lung NSC(8;7.25e-16)|all_lung(8;1.37e-14)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.176)			TCCTGGGAATGATGCCGAAGA	0.502													60	89					3.84483e-29	4.68494e-29	1	1	0		T	21288167	T	T	21288167	3	4	89	1	0	0	0	0	1	0	0	0	3888	1290	45	5	418	5	CRKL	22	21288167	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	154279	21288167	30016399	6540	60371											
AIFM3	150209	broad.mit.edu	37	chr22	21327599	21327599	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgccttgcccacagtggAgctcaagatcgaggtggtgc	7	8	14	12	2	1	1	1	0	0	1	2	3	1	2	2	3	4	2	2	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:21327599A>C	uc002ztj.2	+	3	253	c.35A>C	c.(34-36)GAG>GCG	p.E12A	AIFM3_uc002ztk.2_Missense_Mutation_p.E12A|AIFM3_uc002ztl.2_Missense_Mutation_p.E18A|AIFM3_uc011ahx.1_Missense_Mutation_p.S37R|AIFM3_uc002ztm.1_5'Flank	NM_144704	NP_653305	Q96NN9	AIFM3_HUMAN	apoptosis-inducing factor,	12					activation of caspase activity by cytochrome c|cell redox homeostasis|electron transport chain|induction of apoptosis|mitochondrial depolarization|transport	endoplasmic reticulum|mitochondrial inner membrane	2 iron, 2 sulfur cluster binding|caspase activator activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity|protein binding			ovary(2)|lung(2)	4	all_cancers(11;3.71e-26)|all_epithelial(7;1.59e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0367)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			CCCACAGTGGAGCTCAAGATC	0.672													5	12					0	0	1	0	0		C	21327599	C	C	21327599	3	2	89	1	0	0	0	0	1	0	0	0	428	304	11	5	59	5	AIFM3	22	21327599	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	39432	21327599	29976967	6541	60372											
P2RX6	9127	broad.mit.edu	37	chr22	21372283	21372283	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacttgcctcctagggagaGaacgtgttcttcttggtgac	8	12	12	9	1	2	3	0	1	2	2	3	5	3	4	2	2	2	1	2	2	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:21372283G>T	uc010gsu.1	+	3	321	c.321G>T	c.(319-321)GAG>GAT	p.E107D	P2RX6_uc002ztz.2_Missense_Mutation_p.E81D|P2RX6_uc010gst.1_3'UTR|P2RX6_uc002zua.2_Intron|P2RX6_uc002zuc.1_RNA	NM_005446	NP_005437	O15547	P2RX6_HUMAN	purinergic receptor P2X6 isoform 1	107	Extracellular (Potential).				muscle contraction|protein homooligomerization	cell junction|cytoplasm|integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0						CCTAGGGAGAGAACGTGTTCT	0.587													5	11					3.59834e-05	3.69903e-05	1	1	0		T	21372283	T	T	21372283	3	4	89	1	0	0	0	0	1	0	0	0	11363	933	33	5	331	5	P2RX6	22	21372283	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	44684	21372283	29932283	6542	60373											
CCDC116	164592	broad.mit.edu	37	chr22	21989197	21989197	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcaagtcattactgagccAgctggagtccctcgacctgc	9	9	10	13	1	2	1	2	1	0	0	4	4	3	2	3	1	4	1	3	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:21989197A>C	uc002zve.2	+	4	938	c.845A>C	c.(844-846)CAG>CCG	p.Q282P	CCDC116_uc011aih.1_Missense_Mutation_p.Q282P	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	282										ovary(1)|skin(1)	2	Colorectal(54;0.105)					TTACTGAGCCAGCTGGAGTCC	0.597													52	84					0	0	1	0	0		C	21989197	C	C	21989197	3	2	89	1	0	0	0	0	1	0	0	0	2756	188	7	5	855	5	CCDC116	22	21989197	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	616914	21989197	29315369	6543	60374											
ZNF280B	140883	broad.mit.edu	37	chr22	22842885	22842885	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactaagtaacacaatgggaTtttctttcttgggatcaaag	13	13	8	7	0	3	0	1	0	2	0	3	2	3	2	0	2	1	1	0	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:22842885T>C	uc002zwc.1	-	4	1615	c.839A>G	c.(838-840)AAT>AGT	p.N280S	LOC96610_uc011aim.1_Intron	NM_080764	NP_542942	Q86YH2	Z280B_HUMAN	zinc finger protein 280B	280					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		CACAATGGGATTTTCTTTCTT	0.393													36	64					0	0	1	0	0		C	22842885	C	C	22842885	3	2	89	1	0	0	0	0	1	0	0	0	17840	1493	52	3	796	3	ZNF280B	22	22842885	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	853688	22842885	28461681	6544	60375											
PRAME	23532	broad.mit.edu	37	chr22	22892500	22892500	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtagtacatttttctttcGcttcactttctcaatgaggt	7	18	7	9	2	3	1	2	1	2	0	5	1	3	1	0	1	1	3	0	1	3	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:22892500G>A	uc002zwf.2	-	4	757	c.601C>T	c.(601-603)CGA>TGA	p.R201*	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Nonsense_Mutation_p.R185*|PRAME_uc010gtr.2_Nonsense_Mutation_p.R201*|PRAME_uc002zwg.2_Nonsense_Mutation_p.R201*|PRAME_uc002zwh.2_Nonsense_Mutation_p.R201*|PRAME_uc002zwi.2_Nonsense_Mutation_p.R201*|PRAME_uc002zwj.2_Nonsense_Mutation_p.R201*|PRAME_uc002zwk.2_Nonsense_Mutation_p.R201*	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	201					apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		TTTTTCTTTCGCTTCACTTTC	0.468													47	109					0	0	1	0	0		A	22892500	A	A	22892500	4	1	89	1	0	0	0	0	0	1	0	0	12446	1095	38	1	936	1	PRAME	22	22892500	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	49615	22892500	28412066	6545	60376											
BCR	613	broad.mit.edu	37	chr22	23613760	23613760	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagatgccaaggatccaacGaccaagaactctctggaaag	17	5	9	10	1	1	2	0	0	1	2	3	5	2	4	3	2	3	0	3	2	6	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:23613760G>A	uc002zww.2	+	6	2498	c.1902G>A	c.(1900-1902)ACG>ACA	p.T634T	BCR_uc002zwx.2_Silent_p.T634T|BCR_uc011aiy.1_Silent_p.T223T|BCR_uc010gtx.1_Silent_p.T101T	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	634	DH.				regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						AGGATCCAACGACCAAGAACT	0.527			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								20	36					0	0	1	0	0		A	23613760	A	A	23613760	2	1	89	1	0	0	0	0	0	0	0	1	1389	1045	37	1		1	BCR	22	23613760	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	721260	23613760	27690806	6546	60377											
CABIN1	23523	broad.mit.edu	37	chr22	24456571	24456571	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaccagcctgcccaacccGctgctgagggactgcagcaa	10	4	11	16	1	0	1	0	1	0	0	0	2	0	2	4	1	7	5	4	1	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:24456571G>A	uc002zzi.1	+	12	1711	c.1584G>A	c.(1582-1584)CCG>CCA	p.P528P	CABIN1_uc002zzj.1_Silent_p.P478P|CABIN1_uc002zzl.1_Silent_p.P528P	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	528					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						TGCCCAACCCGCTGCTGAGGG	0.607													25	47					0	0	1	0	0		A	24456571	A	A	24456571	2	1	89	1	0	0	0	0	0	0	0	1	2531	1074	38	1		1	CABIN1	22	24456571	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	842811	24456571	26847995	6547	60378											
CABIN1	23523	broad.mit.edu	37	chr22	24468452	24468452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagcagctccaaaacccagCggaggaaggtgcacaggcag	13	2	14	12	1	0	0	0	0	0	0	1	2	1	2	2	4	5	5	2	4	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:24468452C>T	uc002zzi.1	+	18	2751	c.2624C>T	c.(2623-2625)GCG>GTG	p.A875V	CABIN1_uc002zzj.1_Missense_Mutation_p.A825V|CABIN1_uc002zzl.1_Missense_Mutation_p.A875V	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	875					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CAAAACCCAGCGGAGGAAGGT	0.582													14	53					0	0	1	0	0		T	24468452	T	T	24468452	3	4	89	1	0	0	0	0	1	0	0	0	2531	768	27	1	2690	1	CABIN1	22	24468452	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11881	24468452	26836114	6548	60379											
CABIN1	23523	broad.mit.edu	37	chr22	24472128	24472128	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttccctagggatgtcagaGacgcccatgctcccatcctc	7	10	8	16	1	1	1	1	0	0	1	5	3	4	2	4	1	1	1	4	1	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:24472128G>A	uc002zzi.1	+	19	2770	c.2643G>A	c.(2641-2643)GAG>GAA	p.E881E	CABIN1_uc002zzj.1_Silent_p.E831E|CABIN1_uc002zzl.1_Silent_p.E881E	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	881					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GGATGTCAGAGACGCCCATGC	0.597													16	30					0	0	1	0	0		A	24472128	A	A	24472128	2	1	89	1	0	0	0	0	0	0	0	1	2531	933	33	4		4	CABIN1	22	24472128	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3676	24472128	26832438	6549	60380											
GGT5	2687	broad.mit.edu	37	chr22	24616052	24616052	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggcctctgggtctggttCtggccacggtcttggagtcc	4	11	15	11	1	4	0	0	0	4	0	5	1	5	1	3	6	0	1	3	6	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:24616052C>A	uc002zzo.3	-	12	2064	c.1647G>T	c.(1645-1647)CAG>CAT	p.Q549H	GGT5_uc002zzp.3_Missense_Mutation_p.Q550H|GGT5_uc002zzr.3_Missense_Mutation_p.Q517H|GGT5_uc002zzq.3_3'UTR|GGT5_uc011ajm.1_Missense_Mutation_p.Q473H	NM_004121	NP_004112	P36269	GGT5_HUMAN	gamma-glutamyltransferase 5 isoform b	549	Extracellular (Potential).				glutathione biosynthetic process|hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	integral to membrane|plasma membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(2)|skin(1)	3						GGGTCTGGTTCTGGCCACGGT	0.642													18	28					5.3912e-06	5.59047e-06	1	1	0		A	24616052	A	A	24616052	3	1	89	1	0	0	0	0	1	0	0	0	6377	912	32	5	117	5	GGT5	22	24616052	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	143924	24616052	26688514	6550	60381											
ADORA2A	135	broad.mit.edu	37	chr22	24837105	24837105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccgtatccgcgagttccGccagaccttccgcaagatca	9	8	8	16	5	1	2	1	0	0	2	4	3	4	2	6	0	1	3	6	0	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:24837105G>A	uc002zzx.2	+	5	1650	c.887G>A	c.(886-888)CGC>CAC	p.R296H	ADORA2A_uc002zzy.3_Missense_Mutation_p.R296H|ADORA2A_uc011ajs.1_Missense_Mutation_p.R157H|ADORA2A_uc010gup.2_Missense_Mutation_p.R296H|ADORA2A_uc010guq.2_Missense_Mutation_p.R296H|ADORA2A_uc003aab.2_Missense_Mutation_p.R296H|ADORA2A_uc003aac.2_Missense_Mutation_p.R157H|C22orf45_uc003aad.1_Intron	NM_000675	NP_000666	P29274	AA2AR_HUMAN	adenosine A2a receptor	296	Cytoplasmic.				apoptosis|blood coagulation|cAMP biosynthetic process|cellular defense response|inflammatory response|nerve growth factor receptor signaling pathway|phagocytosis|sensory perception	integral to plasma membrane|membrane fraction	enzyme binding				0	Colorectal(2;0.196)				Caffeine(DB00201)|Defibrotide(DB04932)|Pegademase bovine(DB00061)|Theophylline(DB00277)	CGCGAGTTCCGCCAGACCTTC	0.592													27	43					0	0	1	0	0		A	24837105	A	A	24837105	3	1	89	1	0	0	0	0	1	0	0	0	327	1087	38	1	893	1	ADORA2A	22	24837105	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	221053	24837105	26467461	6551	60382											
SGSM1	129049	broad.mit.edu	37	chr22	25240909	25240909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacacgcaagtttgtccacGaagacagcagccacatcatc	13	7	8	13	2	1	2	1	1	0	1	3	3	2	2	2	0	2	3	2	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:25240909G>A	uc003abg.2	+	3	266	c.109G>A	c.(109-111)GAA>AAA	p.E37K	SGSM1_uc003abh.2_Missense_Mutation_p.E37K|SGSM1_uc010guu.1_Missense_Mutation_p.E37K|SGSM1_uc003abj.2_Missense_Mutation_p.E37K|SGSM1_uc003abi.1_Missense_Mutation_p.E12K|SGSM1_uc003abf.2_Missense_Mutation_p.E37K	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	37	RUN.					Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						GTTTGTCCACGAAGACAGCAG	0.567													23	37					0	0	1	0	0		A	25240909	A	A	25240909	3	1	89	1	0	0	0	0	1	0	0	0	14247	1059	37	1	119	1	SGSM1	22	25240909	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	403804	25240909	26063657	6552	60383											
SGSM1	129049	broad.mit.edu	37	chr22	25282634	25282634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagcctgagatccgcaaggCcgtgtggcccttcctcctgg	5	8	12	16	2	0	1	0	1	0	1	3	2	3	1	7	3	1	1	7	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:25282634C>T	uc003abg.2	+	17	2031	c.1874C>T	c.(1873-1875)GCC>GTC	p.A625V	SGSM1_uc003abh.2_Missense_Mutation_p.A625V|SGSM1_uc010guu.1_Missense_Mutation_p.A570V|SGSM1_uc003abj.2_Missense_Mutation_p.A570V|SGSM1_uc003abi.1_Missense_Mutation_p.A545V	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	625	Rab-GAP TBC.					Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						ATCCGCAAGGCCGTGTGGCCC	0.582													4	4					0	0	1	0	0		T	25282634	T	T	25282634	3	4	89	1	0	0	0	0	1	0	0	0	14247	739	26	2	1940	2	SGSM1	22	25282634	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	41725	25282634	26021932	6553	60384											
MYO18B	84700	broad.mit.edu	37	chr22	26159197	26159197	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttgcttctgcaaaacaGattcgggaagaggacaagag	13	9	11	8	1	1	3	0	0	1	3	3	5	2	5	1	2	3	2	1	2	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:26159197G>T	uc003abz.1	+	3	290	c.40_splice	c.e3-1	p.I14_splice	MYO18B_uc003aca.1_5'Flank|MYO18B_uc010guy.1_5'Flank|MYO18B_uc010guz.1_5'Flank|MYO18B_uc011aka.1_5'Flank	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB							nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CTGCAAAACAGATTCGGGAAG	0.562													9	19					0.000274275	0.000279565	1	1	0		T	26159197	T	T	26159197	5	4	89	1	0	0	0	0	0	0	1	0	10084	956	33	5	45	5	MYO18B	22	26159197	Splice_Site	SNP	G	TCGA-BR-8680-01A-11D-2394-08	876563	26159197	25145369	6554	60385											
SEZ6L	23544	broad.mit.edu	37	chr22	26747069	26747069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcactcgacccgcttaatttCggatcctgtgctgctggtgg	5	13	11	12	3	1	0	1	0	0	0	4	2	2	1	2	3	2	3	2	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:26747069C>T	uc003acb.2	+	12	2615	c.2459C>T	c.(2458-2460)TCG>TTG	p.S820L	SEZ6L_uc003acc.2_Missense_Mutation_p.S820L|SEZ6L_uc011akc.1_Missense_Mutation_p.S820L|SEZ6L_uc003acd.2_Intron|SEZ6L_uc011akd.1_Missense_Mutation_p.S820L|SEZ6L_uc003ace.2_Missense_Mutation_p.S820L|SEZ6L_uc003acf.1_Missense_Mutation_p.S593L|SEZ6L_uc010gvc.1_Missense_Mutation_p.S593L|SEZ6L_uc011ake.1_RNA	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	820	Sushi 4.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CGCTTAATTTCGGATCCTGTG	0.547													38	69					0	0	1	0	0		T	26747069	T	T	26747069	3	4	89	1	0	0	0	0	1	0	0	0	14168	893	31	1	2505	1	SEZ6L	22	26747069	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	587872	26747069	24557497	6555	60386											
SEZ6L	23544	broad.mit.edu	37	chr22	26747191	26747191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggactcccatctggacgtctCgcctgccccactgcgtttgt	4	11	10	16	3	2	0	0	0	2	0	4	2	3	2	4	2	2	1	4	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:26747191C>T	uc003acb.2	+	12	2737	c.2581C>T	c.(2581-2583)CGC>TGC	p.R861C	SEZ6L_uc003acc.2_Missense_Mutation_p.R861C|SEZ6L_uc011akc.1_Missense_Mutation_p.R861C|SEZ6L_uc003acd.2_Intron|SEZ6L_uc011akd.1_Missense_Mutation_p.R861C|SEZ6L_uc003ace.2_Missense_Mutation_p.R861C|SEZ6L_uc003acf.1_Missense_Mutation_p.R634C|SEZ6L_uc010gvc.1_Missense_Mutation_p.R634C|SEZ6L_uc011ake.1_RNA	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	861	Sushi 4.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CTGGACGTCTCGCCTGCCCCA	0.532													30	61					0	0	1	0	0		T	26747191	T	T	26747191	3	4	89	1	0	0	0	0	1	0	0	0	14168	884	31	1	2627	1	SEZ6L	22	26747191	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	122	26747191	24557375	6556	60387											
CCDC117	150275	broad.mit.edu	37	chr22	29177000	29177000	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcctaatgactggattCtttgtgcacatcaggatgta	9	14	10	8	0	2	1	1	1	1	0	3	3	3	3	1	3	1	2	1	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:29177000C>A	uc003aeb.2	+	3	480	c.304C>A	c.(304-306)CTT>ATT	p.L102I	CCDC117_uc011aki.1_Missense_Mutation_p.L84I|CCDC117_uc011akj.1_Intron|CCDC117_uc011akk.1_5'UTR	NM_173510	NP_775781	Q8IWD4	CC117_HUMAN	coiled-coil domain containing 117	102				L -> P (in Ref. 2; BAC03592).						breast(1)	1						TGACTGGATTCTTTGTGCACA	0.388													16	37					4.75885e-15	5.40475e-15	1	1	0		A	29177000	A	A	29177000	3	1	89	1	0	0	0	0	1	0	0	0	2757	913	32	5	314	5	CCDC117	22	29177000	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2429809	29177000	22127566	6557	60388											
AP1B1	162	broad.mit.edu	37	chr22	29754901	29754901	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctgtgatcttgtcaacgcgGatgcagcccatggtccgcac	7	10	11	13	3	3	1	1	1	2	0	4	2	4	2	2	2	3	2	2	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:29754901G>A	uc003afj.2	-	5	523	c.339C>T	c.(337-339)ATC>ATT	p.I113I	AP1B1_uc003afi.2_Silent_p.I113I|AP1B1_uc003afk.2_Silent_p.I113I|AP1B1_uc003afl.2_Silent_p.I113I	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	113					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						TGTCAACGCGGATGCAGCCCA	0.632													7	14					0	0	1	0	0		A	29754901	A	A	29754901	2	1	89	1	0	0	0	0	0	0	0	1	731	1164	41	4		4	AP1B1	22	29754901	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	577901	29754901	21549665	6558	60389											
THOC5	8563	broad.mit.edu	37	chr22	29908111	29908111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagggttcaacaccacagCggcctgcagtttggctggga	8	7	14	12	1	1	0	1	0	0	0	1	1	1	1	3	4	3	4	3	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:29908111C>T	uc003afr.2	-	19	2031	c.1696G>A	c.(1696-1698)GCT>ACT	p.A566T	THOC5_uc003afq.2_Missense_Mutation_p.A227T|THOC5_uc003afs.2_Missense_Mutation_p.A566T|THOC5_uc003aft.2_Missense_Mutation_p.A566T|THOC5_uc003afu.2_Missense_Mutation_p.A566T|THOC5_uc010gvo.2_Missense_Mutation_p.A310T	NM_001002878	NP_001002878	Q13769	THOC5_HUMAN	THO complex 5	566					intronless viral mRNA export from host nucleus|monocyte differentiation|mRNA processing|primitive hemopoiesis|RNA splicing	cytoplasm|intermediate filament cytoskeleton|THO complex part of transcription export complex	protein binding|RNA binding			breast(3)	3						AACACCACAGCGGCCTGCAGT	0.557													16	36					0	0	1	0	0		T	29908111	T	T	29908111	3	4	89	1	0	0	0	0	1	0	0	0	15893	768	27	1	367	1	THOC5	22	29908111	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	153210	29908111	21396455	6559	60390											
MTMR3	8897	broad.mit.edu	37	chr22	30374969	30374969	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagagcacagagtttgtgggCcgtgccgaggatgccatcat	9	8	15	9	2	1	2	1	0	0	2	1	5	1	3	3	2	3	2	3	2	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:30374969C>T	uc003agv.3	+	5	466	c.138C>T	c.(136-138)GGC>GGT	p.G46G	MTMR3_uc003agu.3_Silent_p.G46G|MTMR3_uc003agw.3_Silent_p.G46G	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	46					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			AGTTTGTGGGCCGTGCCGAGG	0.423													30	56					0	0	1	0	0		T	30374969	T	T	30374969	2	4	89	1	0	0	0	0	0	0	0	1	9963	726	26	2		2	MTMR3	22	30374969	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	466858	30374969	20929597	6560	60391											
SEC14L4	284904	broad.mit.edu	37	chr22	30891949	30891949	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcggatttctgcaggtcaAagtttcgagctgcaagaaga	11	11	11	8	2	2	2	1	0	1	2	4	4	2	3	0	2	3	4	0	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:30891949A>C	uc003aid.2	-	3	240	c.140T>G	c.(139-141)TTT>TGT	p.F47C	SEC14L4_uc011akz.1_Missense_Mutation_p.F47C|SEC14L4_uc003aie.2_Missense_Mutation_p.L16V|SEC14L4_uc003aif.2_5'UTR	NM_174977	NP_777637	Q9UDX3	S14L4_HUMAN	SEC14p-like protein TAP3 isoform a	47						integral to membrane|intracellular	lipid binding|transporter activity			skin(1)	1					Vitamin E(DB00163)	CTGCAGGTCAAAGTTTCGAGC	0.498													13	27					0	0	1	0	0		C	30891949	C	C	30891949	3	2	89	1	0	0	0	0	1	0	0	0	14009	14	1	5	1126	5	SEC14L4	22	30891949	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	516980	30891949	20412617	6561	60392											
SMTN	6525	broad.mit.edu	37	chr22	31484584	31484584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacgatgtggaggaattgActgcactggtgaggcccagg	10	8	16	7	1	0	3	0	3	0	0	0	6	0	5	1	5	2	1	1	5	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:31484584A>G	uc003ajl.1	+	4	504	c.286A>G	c.(286-288)ACT>GCT	p.T96A	SMTN_uc003ajk.1_Missense_Mutation_p.T96A|SMTN_uc003ajm.1_Missense_Mutation_p.T96A|SMTN_uc011ale.1_Missense_Mutation_p.T150A|SMTN_uc011alf.1_Missense_Mutation_p.T152A|SMTN_uc003ajn.1_Missense_Mutation_p.T88A|SMTN_uc011alg.1_5'Flank	NM_006932	NP_008863	P53814	SMTN_HUMAN	smoothelin isoform c	96					muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3						GGAGGAATTGACTGCACTGGT	0.642													23	49					0	0	1	0	0		G	31484584	G	G	31484584	3	3	89	1	0	0	0	0	1	0	0	0	14839	275	10	3	296	3	SMTN	22	31484584	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	592635	31484584	19819982	6562	60393											
INPP5J	27124	broad.mit.edu	37	chr22	31521798	31521798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaagccactccccgaatcGctctccctgtgttcccccag	6	8	6	21	2	1	0	0	0	1	0	5	1	3	0	7	0	1	2	7	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:31521798G>A	uc003aju.3	+	2	1165	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H	INPP5J_uc010gwf.2_Missense_Mutation_p.R358H|INPP5J_uc003ajv.3_Intron|INPP5J_uc003ajs.3_Intron|INPP5J_uc011alk.1_Missense_Mutation_p.R291H|INPP5J_uc010gwg.2_Intron|INPP5J_uc003ajw.2_Intron|INPP5J_uc003ajt.3_Intron|INPP5J_uc003ajx.2_5'Flank|INPP5J_uc003ajy.2_5'Flank|INPP5J_uc003ajz.2_5'Flank	NM_001002837	NP_001002837	Q15735	PI5PA_HUMAN	phosphatidylinositol (4,5) bisphosphate	358	Pro-rich.					cytoplasm|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|SH3 domain binding			skin(1)	1						TCCCCGAATCGCTCTCCCTGT	0.682													4	11					0	0	1	0	0		A	31521798	A	A	31521798	3	1	89	1	0	0	0	0	1	0	0	0	7775	1102	38	1		1	INPP5J	22	31521798	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	37214	31521798	19782768	6563	60394											
PIK3IP1	113791	broad.mit.edu	37	chr22	31685536	31685536	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcatccgcacccgctggcTgatcccaatcactggctgca	7	9	9	16	2	2	1	2	1	0	0	4	1	4	1	3	2	1	6	3	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:31685536T>G	uc003akm.2	-	4	647	c.457A>C	c.(457-459)AGC>CGC	p.S153R	PIK3IP1_uc003akl.2_RNA|PIK3IP1_uc011alo.1_Missense_Mutation_p.S153R|PIK3IP1_uc003akn.2_Missense_Mutation_p.S133R|PIK3IP1_uc003ako.2_Missense_Mutation_p.S153R	NM_052880	NP_443112	Q96FE7	P3IP1_HUMAN	HGFL protein isoform 1	153	Extracellular (Potential).					integral to membrane				ovary(1)	1						ACCCGCTGGCTGATCCCAATC	0.612													3	2					0	0	1	0	0		G	31685536	G	G	31685536	3	3	89	1	0	0	0	0	1	0	0	0	11936	1580	55	5	346	5	PIK3IP1	22	31685536	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	163738	31685536	19619030	6564	60395											
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31884627	31884627	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acttttgtatagcgatggggGcatttggaggcaggaggctt	8	12	16	5	1	0	0	0	0	0	0	0	3	0	2	0	6	1	4	0	6	2	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:31884627G>A	uc003akz.1	-	2	242	c.78C>T	c.(76-78)TGC>TGT	p.C26C	EIF4ENIF1_uc003ala.1_Silent_p.C26C|EIF4ENIF1_uc003alb.1_Silent_p.C26C|EIF4ENIF1_uc003alc.1_Silent_p.C26C	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	26						nucleus	protein binding|protein transporter activity			ovary(1)	1						AGCGATGGGGGCATTTGGAGG	0.408													29	47					0	0	1	0	0		A	31884627	A	A	31884627	2	1	89	1	0	0	0	0	0	0	0	1	5043	1195	42	2		2	EIF4ENIF1	22	31884627	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	199091	31884627	19419939	6565	60396											
SFI1	9814	broad.mit.edu	37	chr22	31998258	31998258	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagatgtttcagcatcgagaAaaccgcctggcagagagaat	15	7	11	8	2	1	4	1	0	0	4	2	6	1	4	2	1	2	3	2	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:31998258A>C	uc003ale.2	+	16	1998	c.1605A>C	c.(1603-1605)GAA>GAC	p.E535D	SFI1_uc003ald.1_Missense_Mutation_p.E511D|SFI1_uc003alf.2_Missense_Mutation_p.E504D|SFI1_uc003alg.2_Missense_Mutation_p.E453D|SFI1_uc011alp.1_Missense_Mutation_p.E453D|SFI1_uc011alq.1_Missense_Mutation_p.E480D|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_RNA	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	535					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						AGCATCGAGAAAACCGCCTGG	0.468													22	70					0	0	1	0	0		C	31998258	C	C	31998258	3	2	89	1	0	0	0	0	1	0	0	0	14181	11	1	5	1663	5	SFI1	22	31998258	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	113631	31998258	19306308	6566	60397											
YWHAH	7533	broad.mit.edu	37	chr22	32352264	32352264	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaccatggctgatggaaacGaaaagaaattggagaaagtt	19	7	11	4	1	0	3	0	1	0	2	0	6	0	4	1	3	2	2	1	3	6	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:32352264G>A	uc003alz.2	+	2	467	c.226G>A	c.(226-228)GAA>AAA	p.E76K	YWHAH_uc010gwl.2_Missense_Mutation_p.E6K|YWHAH_uc003ama.2_Missense_Mutation_p.E6K|YWHAH_uc010gwm.2_Missense_Mutation_p.E63K	NM_003405	NP_003396	Q04917	1433F_HUMAN	tyrosine 3-monooxygenase/tryptophan	76					glucocorticoid catabolic process|glucocorticoid receptor signaling pathway|intracellular protein transport|negative regulation of dendrite morphogenesis|positive regulation of transcription, DNA-dependent|regulation of synaptic plasticity	cytoplasm	enzyme binding|glucocorticoid receptor binding|insulin-like growth factor receptor binding|protein domain specific binding			central_nervous_system(1)	1						TGATGGAAACGAAAAGAAATT	0.463													21	39					0	0	1	0	0		A	32352264	A	A	32352264	3	1	89	1	0	0	0	0	1	0	0	0	17530	1059	37	1	232	1	YWHAH	22	32352264	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	354006	32352264	18952302	6567	60398											
RFPL3	10738	broad.mit.edu	37	chr22	32754255	32754255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcctcaagtgcatcaattCgctgcagaaggagccccatg	10	8	10	13	1	2	1	2	0	0	1	3	2	2	2	3	1	4	3	3	1	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:32754255C>T	uc003amj.2	+	1	402	c.197C>T	c.(196-198)TCG>TTG	p.S66L	RFPL3_uc010gwn.2_Missense_Mutation_p.S37L	NM_001098535	NP_001092005	O75679	RFPL3_HUMAN	ret finger protein-like 3 isoform 1	66	RING-type.						zinc ion binding			ovary(1)	1						TGCATCAATTCGCTGCAGAAG	0.537													27	74					0	0	1	0	0		T	32754255	T	T	32754255	3	4	89	1	0	0	0	0	1	0	0	0	13280	893	31	1	199	1	RFPL3	22	32754255	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	401991	32754255	18550311	6568	60399											
SYN3	8224	broad.mit.edu	37	chr22	32937665	32937665	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggcgaccacgctggtgAtgtcctggaagtcaagctgg	8	8	14	11	2	1	1	1	1	0	0	2	3	2	2	3	4	1	2	3	4	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:32937665A>G	uc003amx.2	-	7	968	c.809T>C	c.(808-810)ATC>ACC	p.I270T	SYN3_uc003amy.2_Missense_Mutation_p.I270T|SYN3_uc003amz.2_Missense_Mutation_p.I269T	NM_003490	NP_003481	O14994	SYN3_HUMAN	synapsin III isoform IIIa	270	C; actin-binding and synaptic-vesicle binding.				neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1						CACGCTGGTGATGTCCTGGAA	0.557													14	30					0	0	1	0	0		G	32937665	G	G	32937665	3	3	89	1	0	0	0	0	1	0	0	0	15467	333	12	3	961	3	SYN3	22	32937665	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	183410	32937665	18366901	6569	60400											
SYN3	8224	broad.mit.edu	37	chr22	33376685	33376685	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcccatggaaatacttcGacctgtaaaggggaagaaat	14	10	9	8	1	1	1	0	0	1	1	3	4	2	3	2	3	1	1	2	3	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:33376685G>A	uc003amx.2	-	2	473	c.314C>T	c.(313-315)TCG>TTG	p.S105L	SYN3_uc003amy.2_Missense_Mutation_p.S105L|SYN3_uc003amz.2_Missense_Mutation_p.S105L	NM_003490	NP_003481	O14994	SYN3_HUMAN	synapsin III isoform IIIa	105	C; actin-binding and synaptic-vesicle binding.				neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1						GAAATACTTCGACCTGTAAAG	0.478													75	144					0	0	1	0	0		A	33376685	A	A	33376685	3	1	89	1	0	0	0	0	1	0	0	0	15467	1059	37	1	1476	1	SYN3	22	33376685	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	439020	33376685	17927881	6570	60401											
TOM1	10043	broad.mit.edu	37	chr22	35719555	35719555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccatctatgaggacctgCggaggaaaggcctggagttc	10	8	13	10	1	2	1	1	1	1	0	3	5	2	5	3	5	1	1	3	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:35719555C>T	uc003ann.2	+	5	558	c.433C>T	c.(433-435)CGG>TGG	p.R145W	TOM1_uc011ami.1_Missense_Mutation_p.R112W|TOM1_uc011amj.1_5'UTR|TOM1_uc003ans.2_5'UTR|TOM1_uc011amk.1_Missense_Mutation_p.R107W|TOM1_uc003anp.2_Missense_Mutation_p.R145W|TOM1_uc011aml.1_Intron|TOM1_uc003ano.2_RNA|TOM1_uc003anq.2_Missense_Mutation_p.R139W|TOM1_uc003anr.2_5'UTR	NM_005488	NP_005479	O60784	TOM1_HUMAN	target of myb1 isoform 1	145	VHS.				endocytosis|endosome transport|intracellular protein transport	cytosol|early endosome|membrane	protein binding			ovary(1)	1						TGAGGACCTGCGGAGGAAAGG	0.612													35	71					0	0	1	0	0		T	35719555	T	T	35719555	3	4	89	1	0	0	0	0	1	0	0	0	16376	759	27	1	451	1	TOM1	22	35719555	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2342870	35719555	15585011	6571	60402											
MCM5	4174	broad.mit.edu	37	chr22	35808654	35808654	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggccattgcctgcctgctCtttgggggctcccgaaagag	7	9	13	12	1	1	1	0	0	1	1	2	2	2	1	4	3	3	2	4	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:35808654C>A	uc003anu.3	+	8	1165	c.1071C>A	c.(1069-1071)CTC>CTA	p.L357L	MCM5_uc010gwr.2_Silent_p.L166L|MCM5_uc003anv.3_Silent_p.L314L|MCM5_uc010gws.1_RNA|MCM5_uc003anw.1_Silent_p.L141L	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	357	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						CCTGCCTGCTCTTTGGGGGCT	0.562													27	39					2.41591e-17	2.79654e-17	1	1	0		A	35808654	A	A	35808654	2	1	89	1	0	0	0	0	0	0	0	1	9408	900	32	5		5	MCM5	22	35808654	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	89099	35808654	15495912	6572	60403											
MYH9	4627	broad.mit.edu	37	chr22	36745002	36745002	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttgtgcagcaccgaggcttCgttgaggcacgtgagctctg	6	10	15	10	3	1	2	0	2	1	0	2	3	1	2	1	2	3	7	1	2	0	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:36745002C>T	uc003apg.2	-	2	511	c.280G>A	c.(280-282)GAA>AAA	p.E94K	MYH9_uc003api.1_Missense_Mutation_p.E94K	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	94	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						ACCGAGGCTTCGTTGAGGCAC	0.577			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				21	38					0	0	1	0	0		T	36745002	T	T	36745002	3	4	89	1	0	0	0	0	1	0	0	0	10060	893	31	1	5762	1	MYH9	22	36745002	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	936348	36745002	14559564	6573	60404											
CACNG2	10369	broad.mit.edu	37	chr22	36983540	36983540	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattctgctgtgtcagcttcGtaatctgcatcctctgggaa	7	15	9	10	1	4	0	1	0	3	0	6	1	5	1	1	1	3	4	1	1	3	4	rs148787239	by1000genomes	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:36983540G>A	uc003aps.1	-	2	549	c.267C>T	c.(265-267)TAC>TAT	p.Y89Y		NM_006078	NP_006069	Q9Y698	CCG2_HUMAN	voltage-dependent calcium channel gamma-2	89					membrane depolarization|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0						TGTCAGCTTCGTAATCTGCAT	0.473													52	67					0	0	1	0	0		A	36983540	A	A	36983540	2	1	89	1	0	0	0	0	0	0	0	1	2560	1140	40	1		1	CACNG2	22	36983540	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	238538	36983540	14321026	6574	60405											
CSF2RB	1439	broad.mit.edu	37	chr22	37318260	37318260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccagggagatggtgctggCccaggggctgctctccatgg	6	7	17	11	0	1	1	0	0	1	1	2	3	1	1	3	6	2	3	3	6	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:37318260C>T	uc003aqa.3	+	2	228	c.11C>T	c.(10-12)GCC>GTC	p.A4V	CSF2RB_uc003aqc.3_Missense_Mutation_p.A4V	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	4					respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	ATGGTGCTGGCCCAGGGGCTG	0.667													5	8					0	0	1	0	0		T	37318260	T	T	37318260	3	4	89	1	0	0	0	0	1	0	0	0	3938	739	26	2	13	2	CSF2RB	22	37318260	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	334720	37318260	13986306	6575	60406											
TMPRSS6	164656	broad.mit.edu	37	chr22	37499365	37499365	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttctcttggagtcctcAcaggccttgaacatcccctc	6	13	7	15	0	2	1	1	1	1	0	6	2	4	2	4	2	1	1	4	2	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:37499365A>G	uc003aqs.1	-	2	234	c.120T>C	c.(118-120)TGT>TGC	p.C40C	TMPRSS6_uc003aqt.1_Silent_p.C31C|TMPRSS6_uc003aqu.2_Silent_p.C31C	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	40	Cytoplasmic (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						TGGAGTCCTCACAGGCCTTGA	0.692													38	90					0	0	1	0	0		G	37499365	G	G	37499365	2	3	89	1	0	0	0	0	0	0	0	1	16276	157	6	3		3	TMPRSS6	22	37499365	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	181105	37499365	13805201	6576	60407											
IL2RB	3560	broad.mit.edu	37	chr22	37533707	37533707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgggaggcttgggagatttCccagcttatgttgcatctgt	6	14	14	7	0	1	1	0	0	1	1	2	3	2	2	1	3	2	4	1	3	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:37533707C>T	uc003aqv.1	-	6	588	c.457G>A	c.(457-459)GAA>AAA	p.E153K		NM_000878	NP_000869	P14784	IL2RB_HUMAN	interleukin 2 receptor beta precursor	153	Extracellular (Potential).|Fibronectin type-III.				interspecies interaction between organisms|positive regulation of survival gene product expression|protein complex assembly	external side of plasma membrane|integral to plasma membrane	interleukin-2 receptor activity				0					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	TGGGAGATTTCCCAGCTTATG	0.572													31	48					0	0	1	0	0		T	37533707	T	T	37533707	3	4	89	1	0	0	0	0	1	0	0	0	7703	864	30	4	1218	4	IL2RB	22	37533707	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	34342	37533707	13770859	6577	60408											
ELFN2	114794	broad.mit.edu	37	chr22	37769204	37769204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaccttcttgcgcagggCgtgaccggcggccatgtaca	6	8	14	13	4	1	1	0	1	1	0	1	2	1	2	3	4	2	2	3	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:37769204C>T	uc003asq.3	-	3	3157	c.2371G>A	c.(2371-2373)GCC>ACC	p.A791T		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	791	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					TTGCGCAGGGCGTGACCGGCG	0.627													18	60					0	0	1	0	0		T	37769204	T	T	37769204	3	4	89	1	0	0	0	0	1	0	0	0	5066	768	27	1	95	1	ELFN2	22	37769204	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	235497	37769204	13535362	6578	60409											
ELFN2	114794	broad.mit.edu	37	chr22	37769767	37769767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctctccttgtagggaggcGaaaggaagctgggccgctcc	8	7	15	11	2	1	0	0	0	1	0	3	3	2	2	3	4	2	4	3	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:37769767G>A	uc003asq.3	-	3	2594	c.1808C>T	c.(1807-1809)TCG>TTG	p.S603L		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	603	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					GTAGGGAGGCGAAAGGAAGCT	0.706													7	6					0	0	1	0	0		A	37769767	A	A	37769767	3	1	89	1	0	0	0	0	1	0	0	0	5066	1059	37	1	658	1	ELFN2	22	37769767	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	563	37769767	13534799	6579	60410											
TRIOBP	11078	broad.mit.edu	37	chr22	38097437	38097437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacatacttacccagaaccGctgtcaaaactgcttccacc	13	8	4	16	1	1	1	1	0	0	1	2	1	2	1	4	0	6	2	4	0	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:38097437G>A	uc003atr.2	+	3	336	c.65G>A	c.(64-66)CGC>CAC	p.R22H	TRIOBP_uc003atu.2_5'UTR|TRIOBP_uc003atq.1_Missense_Mutation_p.R22H|TRIOBP_uc003ats.1_5'UTR	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	22					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					ACCCAGAACCGCTGTCAAAAC	0.567													5	22					0	0	1	0	0		A	38097437	A	A	38097437	3	1	89	1	0	0	0	0	1	0	0	0	16579	1087	38	1	67	1	TRIOBP	22	38097437	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	327670	38097437	13207129	6580	60411											
ANKRD54	129138	broad.mit.edu	37	chr22	38228656	38228656	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctcacctgctctttggtActggtcatctgcaggcgggt	5	12	12	12	1	4	0	2	0	2	0	4	0	4	0	1	4	4	4	1	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:38228656A>G	uc003auc.2	-	7	874	c.816T>C	c.(814-816)AGT>AGC	p.S272S	ANKRD54_uc003aud.2_Silent_p.S149S	NM_138797	NP_620152	Q6NXT1	ANR54_HUMAN	ankyrin repeat domain 54	272											0	Melanoma(58;0.045)					GCTCTTTGGTACTGGTCATCT	0.612													22	52					0	0	1	0	0		G	38228656	G	G	38228656	2	3	89	1	0	0	0	0	0	0	0	1	680	388	14	3		3	ANKRD54	22	38228656	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	131219	38228656	13075910	6581	60412											
CSNK1E	1454	broad.mit.edu	37	chr22	38696819	38696819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgctggtgggtgcgggCgtcccggtacttcttggcca	4	11	16	10	3	1	0	0	0	1	0	2	0	2	0	2	5	3	2	2	5	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:38696819C>T	uc003avj.2	-	5	736	c.475G>A	c.(475-477)GCC>ACC	p.A159T	CSNK1E_uc003avk.2_Missense_Mutation_p.A159T|CSNK1E_uc003avl.1_RNA|CSNK1E_uc003avm.1_Missense_Mutation_p.A159T|CSNK1E_uc003avo.2_Missense_Mutation_p.A159T|CSNK1E_uc003avp.1_Missense_Mutation_p.A159T|CSNK1E_uc003avq.1_Missense_Mutation_p.A159T	NM_152221	NP_689407	P49674	KC1E_HUMAN	casein kinase 1 epsilon	159	Protein kinase.				DNA repair|G2/M transition of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|signal transduction	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Melanoma(58;0.045)					TGGGTGCGGGCGTCCCGGTAC	0.622													54	63					0	0	1	0	0		T	38696819	T	T	38696819	3	4	89	1	0	0	0	0	1	0	0	0	3956	768	27	1	799	1	CSNK1E	22	38696819	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	468163	38696819	12607747	6582	60413											
DDX17	10521	broad.mit.edu	37	chr22	38882012	38882012	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgccccatgtaacctatCatattggtagctcccggagg	8	11	10	12	1	2	0	1	0	1	0	3	1	3	1	4	3	3	3	4	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:38882012C>A	uc003avy.3	-	13	2227	c.2124G>T	c.(2122-2124)ATG>ATT	p.M708I	DDX17_uc003avw.3_Missense_Mutation_p.M160I|DDX17_uc010gxp.2_Missense_Mutation_p.M158I|DDX17_uc003avx.3_Missense_Mutation_p.M706I	NM_001098504	NP_001091974	Q92841	DDX17_HUMAN	DEAD box polypeptide 17 isoform 3	627					RNA processing	nucleus	ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity|RNA-dependent ATPase activity			skin(3)|upper_aerodigestive_tract(1)	4	Melanoma(58;0.0286)					TGTAACCTATCATATTGGTAG	0.453													50	109					6.3008e-33	7.7374e-33	1	1	0		A	38882012	A	A	38882012	3	1	89	1	0	0	0	0	1	0	0	0	4347	826	29	5	75	5	DDX17	22	38882012	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	185193	38882012	12422554	6583	60414											
SMCR7L	54471	broad.mit.edu	37	chr22	39908025	39908025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacagactcctccaccttcGacacaggtgagaagggctgc	10	6	10	15	1	0	2	0	1	0	2	3	4	2	2	4	2	1	1	4	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:39908025G>A	uc003axx.2	+	4	814	c.316G>A	c.(316-318)GAC>AAC	p.D106N	SMCR7L_uc003axw.2_Missense_Mutation_p.D106N|SMCR7L_uc010gxz.1_5'UTR|SMCR7L_uc003axy.2_5'UTR	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	106						integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					CTCCACCTTCGACACAGGTGA	0.473													28	73					0	0	1	0	0		A	39908025	A	A	39908025	3	1	89	1	0	0	0	0	1	0	0	0	14816	1058	37	1	322	1	SMCR7L	22	39908025	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1026013	39908025	11396541	6584	60415											
CACNA1I	8911	broad.mit.edu	37	chr22	40055521	40055521	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgacaggaagaacttcgActccctgctgtgggccatcg	8	7	12	14	3	0	1	0	0	0	1	3	4	1	2	3	2	2	1	3	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:40055521A>G	uc003ayc.2	+	13	2414	c.2414A>G	c.(2413-2415)GAC>GGC	p.D805G	CACNA1I_uc003ayd.2_Missense_Mutation_p.D770G|CACNA1I_uc003aye.2_Missense_Mutation_p.D720G|CACNA1I_uc003ayf.2_Missense_Mutation_p.D685G	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	805	Extracellular (Potential).|II.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	AAGAACTTCGACTCCCTGCTG	0.592													5	19					0	0	1	0	0		G	40055521	G	G	40055521	3	3	89	1	0	0	0	0	1	0	0	0	2549	275	10	3	2464	3	CACNA1I	22	40055521	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	147496	40055521	11249045	6585	60416											
GRAP2	9402	broad.mit.edu	37	chr22	40365499	40365499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaatgcggccctcatgcatCggagacacacagacccagtg	11	6	11	13	2	1	3	1	1	0	2	2	4	1	3	2	2	2	1	2	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:40365499C>T	uc003ayh.1	+	7	1038	c.775C>T	c.(775-777)CGG>TGG	p.R259W	GRAP2_uc003ayi.2_RNA|GRAP2_uc011aom.1_Missense_Mutation_p.R233W|GRAP2_uc011aon.1_Missense_Mutation_p.R193W|GRAP2_uc010gya.1_Missense_Mutation_p.R259W|GRAP2_uc011aoo.1_Missense_Mutation_p.R187W|GRAP2_uc011aop.1_Missense_Mutation_p.R219W|GRAP2_uc011aoq.1_Missense_Mutation_p.R146W|GRAP2_uc003ayj.1_Missense_Mutation_p.R259W	NM_004810	NP_004801	O75791	GRAP2_HUMAN	GRB2-related adaptor protein 2	259					cell-cell signaling|Ras protein signal transduction|T cell costimulation|T cell receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						CCTCATGCATCGGAGACACAC	0.567													29	47					0	0	1	0	0		T	40365499	T	T	40365499	3	4	89	1	0	0	0	0	1	0	0	0	6770	875	31	1	797	1	GRAP2	22	40365499	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	309978	40365499	10939067	6586	60417											
TNRC6B	23112	broad.mit.edu	37	chr22	40661898	40661898	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccaaggcaatgcccaggCtccctgttggggaagatctt	11	8	11	11	0	1	1	0	0	1	1	2	2	2	2	3	4	2	3	3	4	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:40661898C>T	uc011aor.1	+	5	1875	c.1664C>T	c.(1663-1665)GCT>GTT	p.A555V	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Missense_Mutation_p.A555V|TNRC6B_uc003ayo.2_Missense_Mutation_p.A359V	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	555					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						AATGCCCAGGCTCCCTGTTGG	0.507													9	87					0	0	1	0	0		T	40661898	T	T	40661898	3	4	89	1	0	0	0	0	1	0	0	0	16366	797	28	2	1803	2	TNRC6B	22	40661898	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	296399	40661898	10642668	6587	60418											
TNRC6B	23112	broad.mit.edu	37	chr22	40662421	40662421	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgagaatcccagcaaggaTcaggggtggggaggtggacg	12	5	18	6	1	1	1	1	1	0	1	2	5	2	4	1	7	1	1	1	7	3	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:40662421T>G	uc011aor.1	+	5	2398	c.2187T>G	c.(2185-2187)GAT>GAG	p.D729E	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Missense_Mutation_p.D729E|TNRC6B_uc003ayo.2_Missense_Mutation_p.D533E	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	729					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						CCAGCAAGGATCAGGGGTGGG	0.507													9	30					0	0	1	0	0		G	40662421	G	G	40662421	3	3	89	1	0	0	0	0	1	0	0	0	16366	1432	50	5	2326	5	TNRC6B	22	40662421	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	523	40662421	10642145	6588	60419											
SGSM3	27352	broad.mit.edu	37	chr22	40802123	40802123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggttcctcacggccttcGccagcgtggtggacatcaag	7	9	12	13	3	2	0	2	0	0	0	4	1	3	1	3	4	1	1	3	4	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:40802123G>A	uc003ayu.1	+	9	1065	c.856G>A	c.(856-858)GCC>ACC	p.A286T	SGSM3_uc010gyc.1_Missense_Mutation_p.A286T|SGSM3_uc011aos.1_Missense_Mutation_p.A219T|SGSM3_uc011aot.1_Missense_Mutation_p.A223T|SGSM3_uc010gyd.1_Missense_Mutation_p.A286T	NM_015705	NP_056520	Q96HU1	SGSM3_HUMAN	small G protein signaling modulator 3	286	Rab-GAP TBC.				cell cycle arrest|Rap protein signal transduction	cytoplasm	Rab GTPase activator activity|Rab GTPase binding			ovary(2)	2						CACGGCCTTCGCCAGCGTGGT	0.617													44	61					0	0	1	0	0		A	40802123	A	A	40802123	3	1	89	1	0	0	0	0	1	0	0	0	14249	1087	38	1	886	1	SGSM3	22	40802123	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	139702	40802123	10502443	6589	60420											
SGSM3	27352	broad.mit.edu	37	chr22	40805350	40805350	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcctgcgcagcccgggCtgggtccagatcaagtgtga	6	9	13	13	2	1	2	1	1	0	1	4	2	4	2	4	2	2	2	4	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:40805350C>T	uc003ayu.1	+	20	2294	c.2085C>T	c.(2083-2085)GGC>GGT	p.G695G	SGSM3_uc011aot.1_Silent_p.G606G|SGSM3_uc010gyd.1_Silent_p.G766G	NM_015705	NP_056520	Q96HU1	SGSM3_HUMAN	small G protein signaling modulator 3	695	RUN.				cell cycle arrest|Rap protein signal transduction	cytoplasm	Rab GTPase activator activity|Rab GTPase binding			ovary(2)	2						GCAGCCCGGGCTGGGTCCAGA	0.647													42	74					0	0	1	0	0		T	40805350	T	T	40805350	2	4	89	1	0	0	0	0	0	0	0	1	14249	784	28	2		2	SGSM3	22	40805350	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3227	40805350	10499216	6590	60421											
MKL1	57591	broad.mit.edu	37	chr22	40814412	40814412	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggacaggccagggctgTctgcattcttattggtcacg	7	11	12	11	1	3	0	1	0	2	0	3	1	3	1	1	4	1	2	1	4	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:40814412T>C	uc003ayv.1	-	9	2237	c.2030A>G	c.(2029-2031)GAC>GGC	p.D677G	MKL1_uc003ayw.1_Missense_Mutation_p.D677G|MKL1_uc010gye.1_Missense_Mutation_p.D677G|MKL1_uc010gyf.1_Missense_Mutation_p.D627G	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	677	Pro-rich.				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GCCAGGGCTGTCTGCATTCTT	0.647			T	RBM15	acute megakaryocytic leukemia								27	69					0	0	1	0	0		C	40814412	C	C	40814412	3	2	89	1	0	0	0	0	1	0	0	0	9619	1667	58	3	781	3	MKL1	22	40814412	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	9062	40814412	10490154	6591	60422											
MKL1	57591	broad.mit.edu	37	chr22	40819672	40819672	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctctggaatcccggcccatCggaagttgagacacaacctg	10	8	10	13	2	1	1	0	1	1	1	4	4	2	3	3	3	1	1	3	3	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:40819672C>T	uc003ayv.1	-	6	702	c.495G>A	c.(493-495)CCG>CCA	p.P165P	MKL1_uc003ayw.1_Silent_p.P165P|MKL1_uc010gye.1_Silent_p.P165P|MKL1_uc010gyf.1_Intron	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	165	Mediates interaction with SCAI and ACTB (By similarity).				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CCCGGCCCATCGGAAGTTGAG	0.597			T	RBM15	acute megakaryocytic leukemia								12	35					0	0	1	0	0		T	40819672	T	T	40819672	2	4	89	1	0	0	0	0	0	0	0	1	9619	871	31	1		1	MKL1	22	40819672	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5260	40819672	10484894	6592	60423											
EP300	2033	broad.mit.edu	37	chr22	41574128	41574128	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatgaatccaatgcaggCgggcgttcagagggctggcc	10	6	15	10	2	1	2	1	1	0	1	2	3	2	2	2	4	2	3	2	4	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:41574128C>T	uc003azl.3	+	31	6808	c.6413C>T	c.(6412-6414)GCG>GTG	p.A2138V		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	2138	Interaction with HTLV-1 Tax.|Interaction with NCOA2.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CCAATGCAGGCGGGCGTTCAG	0.632			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				43	57					0	0	1	0	0		T	41574128	T	T	41574128	3	4	89	1	0	0	0	0	1	0	0	0	5156	768	27	1	6535	1	EP300	22	41574128	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	754456	41574128	9730438	6593	60424											
RANGAP1	5905	broad.mit.edu	37	chr22	41660674	41660674	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccacacccaccttgccGccgccaatgcccatgccaca	8	5	7	21	2	0	0	0	0	0	0	0	0	0	0	8	0	4	1	8	0	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:41660674G>A	uc003azs.2	-	4	1944	c.474C>T	c.(472-474)GGC>GGT	p.G158G	RANGAP1_uc003azt.2_Silent_p.G158G|RANGAP1_uc003azu.2_Silent_p.G158G|RANGAP1_uc011aoz.1_Silent_p.G148G	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	158					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						CCACCTTGCCGCCGCCAATGC	0.637													11	33					0	0	1	0	0		A	41660674	A	A	41660674	2	1	89	1	0	0	0	0	0	0	0	1	13058	1074	38	1		1	RANGAP1	22	41660674	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	86546	41660674	9643892	6594	60425											
MEI1	150365	broad.mit.edu	37	chr22	42095614	42095614	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagaggcggcgcttctattCgagagggcccattaccggca	9	7	14	11	4	1	2	0	0	1	2	2	4	1	2	2	4	1	2	2	4	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:42095614C>T	uc003baz.1	+	1	97	c.72C>T	c.(70-72)TTC>TTT	p.F24F	MEI1_uc003bay.3_Silent_p.F24F|MEI1_uc011apd.1_RNA	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	24							binding			central_nervous_system(1)|skin(1)	2						CGCTTCTATTCGAGAGGGCCC	0.726													11	20					0	0	1	0	0		T	42095614	T	T	42095614	2	4	89	1	0	0	0	0	0	0	0	1	9483	883	31	1		1	MEI1	22	42095614	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	434940	42095614	9208952	6595	60426											
SEPT3	55964	broad.mit.edu	37	chr22	42377818	42377818	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaccatgaagaccggtttCgacttcaacatcatggtcgt	12	10	9	10	3	2	3	2	1	0	2	4	4	2	3	2	2	1	1	2	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:42377818C>T	uc003bbr.3	+	2	318	c.180C>T	c.(178-180)TTC>TTT	p.F60F	WBP2NL_uc011ape.1_Intron|SEPT3_uc003bbs.3_Silent_p.F60F|SEPT3_uc010gyr.2_Intron|SEPT3_uc011apj.1_Intron|SEPT3_uc010gys.2_5'UTR	NM_145733	NP_663786	Q9UH03	SEPT3_HUMAN	septin 3 isoform A	60					cell cycle|cytokinesis	cell junction|septin complex	GTP binding				0						AGACCGGTTTCGACTTCAACA	0.567													19	22					0	0	1	0	0		T	42377818	T	T	42377818	2	4	89	1	0	0	0	0	0	0	0	1	14090	883	31	1		1	SEPT3	22	42377818	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	282204	42377818	8926748	6596	60427											
TCF20	6942	broad.mit.edu	37	chr22	42609814	42609814	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtgaggagccttcagaatTtgtgcagctatctgctttct	7	16	10	8	0	3	2	1	1	2	1	3	3	3	3	1	1	4	3	1	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:42609814T>G	uc003bcj.1	-	1	1632	c.1498A>C	c.(1498-1500)AAT>CAT	p.N500H	TCF20_uc003bck.1_Missense_Mutation_p.N500H|TCF20_uc003bnt.2_Missense_Mutation_p.N500H	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	500					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						CCTTCAGAATTTGTGCAGCTA	0.502													91	208					0	0	1	0	0		G	42609814	G	G	42609814	3	3	89	1	0	0	0	0	1	0	0	0	15715	1841	64	5	4422	5	TCF20	22	42609814	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	231996	42609814	8694752	6597	60428											
PACSIN2	11252	broad.mit.edu	37	chr22	43289591	43289591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggtggccatcgtcgatcCgcttcacagtccgcttgtag	5	10	13	13	5	1	0	1	0	0	0	5	1	3	0	3	3	0	3	3	3	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:43289591C>T	uc010gzg.2	-	3	311	c.89G>A	c.(88-90)CGG>CAG	p.R30Q	PACSIN2_uc003bdg.3_Missense_Mutation_p.R30Q|PACSIN2_uc003bde.3_Missense_Mutation_p.R30Q|PACSIN2_uc003bdf.3_Missense_Mutation_p.R30Q	NM_007229	NP_009160	Q9UNF0	PACN2_HUMAN	protein kinase C and casein kinase substrate in	30	FCH.				actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)				ATCGTCGATCCGCTTCACAGT	0.637													26	40					0	0	1	0	0		T	43289591	T	T	43289591	3	4	89	1	0	0	0	0	1	0	0	0	11394	652	23	1	1407	1	PACSIN2	22	43289591	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	679777	43289591	8014975	6598	60429											
SCUBE1	80274	broad.mit.edu	37	chr22	43616481	43616481	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctcttccatctttgtctcGatctcaaactctgctgtgat	6	16	6	13	1	5	1	1	1	5	0	8	2	6	1	2	0	2	1	2	0	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:43616481G>A	uc003bdt.1	-	14	1750	c.1662C>T	c.(1660-1662)ATC>ATT	p.I554I		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	554					adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				TCTTTGTCTCGATCTCAAACT	0.607													30	75					0	0	1	0	0		A	43616481	A	A	43616481	2	1	89	1	0	0	0	0	0	0	0	1	13969	1048	37	1		1	SCUBE1	22	43616481	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	326890	43616481	7688085	6599	60430											
SCUBE1	80274	broad.mit.edu	37	chr22	43619155	43619155	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagcagctctccacaccGcctgccttgctgcaggacag	9	6	11	15	1	1	0	0	0	1	0	2	2	1	2	4	2	5	4	4	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:43619155G>A	uc003bdt.1	-	11	1363	c.1275C>T	c.(1273-1275)GGC>GGT	p.G425G		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	425					adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				TCTCCACACCGCCTGCCTTGC	0.627													51	69					0	0	1	0	0		A	43619155	A	A	43619155	2	1	89	1	0	0	0	0	0	0	0	1	13969	1074	38	1		1	SCUBE1	22	43619155	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2674	43619155	7685411	6600	60431											
EFCAB6	64800	broad.mit.edu	37	chr22	44067870	44067870	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactttatgaaatgtgcattCgttaaaaatggacagaagac	16	12	8	5	1	0	3	0	1	0	2	1	4	0	4	0	1	2	2	0	1	7	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:44067870C>T	uc003bdy.1	-	15	1838	c.1623G>A	c.(1621-1623)ACG>ACA	p.T541T	EFCAB6_uc003bdz.1_Silent_p.T389T|EFCAB6_uc010gzi.1_Silent_p.T389T|EFCAB6_uc010gzk.1_RNA	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	541					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				AATGTGCATTCGTTAAAAATG	0.348													19	35					0	0	1	0	0		T	44067870	T	T	44067870	2	4	89	1	0	0	0	0	0	0	0	1	4945	871	31	1		1	EFCAB6	22	44067870	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	448715	44067870	7236696	6601	60432											
SAMM50	25813	broad.mit.edu	37	chr22	44364687	44364687	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagtggatgttttgattgAcacatgtcaaggtacatatt	13	14	9	5	0	1	2	1	2	0	0	1	3	1	3	0	2	1	2	0	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:44364687A>G	uc003bej.2	+	4	508	c.311A>G	c.(310-312)GAC>GGC	p.D104G	SAMM50_uc011aqd.1_5'UTR	NM_015380	NP_056195	Q9Y512	SAM50_HUMAN	sorting and assembly machinery component 50	104					protein import into mitochondrial outer membrane	integral to membrane|integral to membrane of membrane fraction|mitochondrial sorting and assembly machinery complex	protein binding			skin(1)	1		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				GTTTTGATTGACACATGTCAA	0.393													28	53					0	0	1	0	0		G	44364687	G	G	44364687	3	3	89	1	0	0	0	0	1	0	0	0	13854	275	10	3	325	3	SAMM50	22	44364687	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	296817	44364687	6939879	6602	60433											
WNT7B	7477	broad.mit.edu	37	chr22	46327148	46327148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagccctgcttctcgcggtCgcagccgcagttgctcaggt	4	10	13	14	4	2	0	1	0	1	0	4	0	2	0	2	2	4	6	2	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:46327148C>T	uc003bgo.2	-	3	774	c.400G>A	c.(400-402)GAC>AAC	p.D134N	WNT7B_uc010haa.2_Missense_Mutation_p.D138N	NM_058238	NP_478679	P56706	WNT7B_HUMAN	wingless-type MMTV integration site family,	134					activation of JUN kinase activity|anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|central nervous system vasculogenesis|chorio-allantoic fusion|developmental growth involved in morphogenesis|embryonic placenta morphogenesis|establishment or maintenance of polarity of embryonic epithelium|fibroblast proliferation|forebrain regionalization|inner medullary collecting duct development|lens fiber cell development|lobar bronchus development|lung epithelium development|lung morphogenesis|lung-associated mesenchyme development|mammary gland epithelium development|metanephric collecting duct development|metanephric loop of Henle development|metanephros morphogenesis|negative regulation of smoothened signaling pathway|outer medullary collecting duct development|oxygen homeostasis|positive regulation of JNK cascade|positive regulation of osteoblast differentiation|renal inner medulla development|renal outer medulla development|stem cell proliferation|synapse organization|trachea cartilage morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled binding|signal transducer activity			lung(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|LUAD - Lung adenocarcinoma(64;0.247)		TTCTCGCGGTCGCAGCCGCAG	0.682													15	43					0	0	1	0	0		T	46327148	T	T	46327148	3	4	89	1	0	0	0	0	1	0	0	0	17421	884	31	1	657	1	WNT7B	22	46327148	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1962461	46327148	4977418	6603	60434											
PKDREJ	10343	broad.mit.edu	37	chr22	46653760	46653760	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttggggtgacaatgaatTtctcttctgatgctgttttg	7	19	10	5	0	2	3	0	3	2	0	3	3	2	3	0	2	1	2	0	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:46653760T>G	uc003bhh.2	-	1	5460	c.5460A>C	c.(5458-5460)GAA>GAC	p.E1820D		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1820	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		GACAATGAATTTCTCTTCTGA	0.398													104	208					0	0	1	0	0		G	46653760	G	G	46653760	3	3	89	1	0	0	0	0	1	0	0	0	11989	1838	64	5	1305	5	PKDREJ	22	46653760	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	326612	46653760	4650806	6604	60435											
PKDREJ	10343	broad.mit.edu	37	chr22	46653808	46653808	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcggcaggtagacacatTttttcactagattttgctct	8	18	7	8	1	2	2	1	0	1	2	3	2	2	2	0	2	1	3	0	2	2	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:46653808T>G	uc003bhh.2	-	1	5412	c.5412A>C	c.(5410-5412)AAA>AAC	p.K1804N		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1804	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		GTAGACACATTTTTTCACTAG	0.393													108	199					0	0	1	0	0		G	46653808	G	G	46653808	3	3	89	1	0	0	0	0	1	0	0	0	11989	1838	64	5	1353	5	PKDREJ	22	46653808	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	48	46653808	4650758	6605	60436											
PKDREJ	10343	broad.mit.edu	37	chr22	46656446	46656446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaatccagacacctccaccGaagtgttttcctgatcattt	10	13	6	12	1	1	3	1	2	0	1	4	4	4	3	5	0	0	1	5	0	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:46656446G>A	uc003bhh.2	-	1	2774	c.2774C>T	c.(2773-2775)TCG>TTG	p.S925L		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	925	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		CACCTCCACCGAAGTGTTTTC	0.438													83	154					0	0	1	0	0		A	46656446	A	A	46656446	3	1	89	1	0	0	0	0	1	0	0	0	11989	1059	37	1	3991	1	PKDREJ	22	46656446	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2638	46656446	4648120	6606	60437											
CELSR1	9620	broad.mit.edu	37	chr22	46760630	46760630	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgtggttggccacagcgTcccctgaggcacgagagcgg	8	5	16	12	4	0	2	0	1	0	1	1	4	1	2	3	4	3	2	3	4	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:46760630T>C	uc003bhw.1	-	33	8558	c.8558A>G	c.(8557-8559)GAC>GGC	p.D2853G		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2853	Cytoplasmic (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GGCCACAGCGTCCCCTGAGGC	0.687													6	15					0	0	1	0	0		C	46760630	C	C	46760630	3	2	89	1	0	0	0	0	1	0	0	0	3224	1667	58	3	498	3	CELSR1	22	46760630	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	104184	46760630	4543936	6607	60438											
CELSR1	9620	broad.mit.edu	37	chr22	46794454	46794454	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaatccacggcgcacggaGaccttgtcttcagaggcgcc	8	6	13	14	5	2	2	1	0	1	2	3	4	3	3	3	4	0	1	3	4	1	2	rs144288536		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:46794454G>T	uc003bhw.1	-	11	5493	c.5493C>A	c.(5491-5493)GTC>GTA	p.V1831V	CELSR1_uc011arc.1_Silent_p.V152V	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1831	Extracellular (Potential).|Laminin G-like 2.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GGCGCACGGAGACCTTGTCTT	0.687													28	44					4.74835e-14	5.33807e-14	1	1	0		T	46794454	T	T	46794454	2	4	89	1	0	0	0	0	0	0	0	1	3224	929	33	5		5	CELSR1	22	46794454	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	33824	46794454	4510112	6608	60439											
GRAMD4	23151	broad.mit.edu	37	chr22	47022799	47022799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggacaccgaatgcagcgacGaaatccccctgaaggtaccg	12	4	11	14	5	0	1	0	1	0	0	1	5	1	2	4	2	3	2	4	2	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:47022799G>A	uc003bhx.2	+	1	142	c.103G>A	c.(103-105)GAA>AAA	p.E35K		NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	35					apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		ATGCAGCGACGAAATCCCCCT	0.602													42	66					0	0	1	0	0		A	47022799	A	A	47022799	3	1	89	1	0	0	0	0	1	0	0	0	6768	1059	37	1	105	1	GRAMD4	22	47022799	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	228345	47022799	4281767	6609	60440											
PLXNB2	23654	broad.mit.edu	37	chr22	50718432	50718432	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggctggggtggaacccAccttgaggtactggtacagg	8	7	16	10	0	0	1	0	1	0	0	0	2	0	2	3	7	3	3	3	7	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:50718432A>G	uc003bkv.3	-	26	4348	c.4242_splice	c.e26+1	p.K1414_splice	PLXNB2_uc003bkt.1_Splice_Site_p.K206_splice|PLXNB2_uc003bku.1_Splice_Site_p.K399_splice	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor						regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GGTGGAACCCACCTTGAGGTA	0.617													19	43					0	0	1	0	0		G	50718432	G	G	50718432	5	3	89	1	0	0	0	0	0	0	1	0	12143	173	6	3	1320	3	PLXNB2	22	50718432	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3695633	50718432	586134	6610	60441											
SBF1	6305	broad.mit.edu	37	chr22	50900836	50900836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcagagttggccacaagcGccgctgctcagaagccacgt	10	6	11	14	3	2	2	2	0	0	2	2	2	2	2	3	1	3	3	3	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:50900836G>A	uc003blh.2	-	19	2389	c.2194C>T	c.(2194-2196)CGC>TGC	p.R732C	SBF1_uc011arx.1_Missense_Mutation_p.R396C|SBF1_uc003bli.2_Missense_Mutation_p.R733C	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	732					protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		GGCCACAAGCGCCGCTGCTCA	0.642													51	72					0	0	1	0	0		A	50900836	A	A	50900836	3	1	89	1	0	0	0	0	1	0	0	0	13883	1087	38	1	3579	1	SBF1	22	50900836	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	182404	50900836	403730	6611	60442											
MIOX	55586	broad.mit.edu	37	chr22	50927709	50927709	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcgacagggtcctcatgTcctggggccatgatggtgag	6	9	16	10	1	1	2	1	2	0	0	4	3	3	2	3	5	0	1	3	5	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chr22:50927709T>C	uc003bll.1	+	7	685	c.571T>C	c.(571-573)TCC>CCC	p.S191P	MIOX_uc003blm.1_Missense_Mutation_p.S191P|MIOX_uc003bln.1_Silent_p.C201C	NM_017584	NP_060054	Q9UGB7	MIOX_HUMAN	myo-inositol oxygenase	191					inositol catabolic process	cytoplasm|inclusion body	aldo-keto reductase (NADP) activity|ferric iron binding|inositol oxygenase activity				0		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GGTCCTCATGTCCTGGGGCCA	0.507													3	10					0	0	1	0	0		C	50927709	C	C	50927709	3	2	89	1	0	0	0	0	1	0	0	0	9608	1667	58	3	597	3	MIOX	22	50927709	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	26873	50927709	376857	6612	60443											
SHOX	6473	broad.mit.edu	37	chrX	591664	591664	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggcttttgtatccaagtCttttgaccagaaaagcaagg	12	11	9	9	1	1	2	0	1	1	1	2	2	2	2	2	2	1	3	2	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:591664C>A	uc004cph.1	+	2	723	c.32C>A	c.(31-33)TCT>TAT	p.S11Y	SHOX_uc004cpi.2_Missense_Mutation_p.S11Y	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	11					skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GTATCCAAGTCTTTTGACCAG	0.637													68	171					2.84776e-26	3.44286e-26	1	1	0		A	591664	A	A	591664	3	1	89	1	0	0	0	0	1	0	0	0	14313	913	32	5	34	5	SHOX	23	591664	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08		591664	154678896	6613	60444											
SHOX	6473	broad.mit.edu	37	chrX	601807	601807	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtcaacatgggagccttacgGatgcctttccaacaggtagc	10	9	11	11	1	1	0	1	0	0	0	2	2	2	2	3	3	6	1	3	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:601807G>A	uc004cph.1	+	5	1309	c.618G>A	c.(616-618)CGG>CGA	p.R206R	SHOX_uc004cpi.2_Silent_p.R206R	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	206					skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GAGCCTTACGGATGCCTTTCC	0.567													23	50					0	0	1	0	0		A	601807	A	A	601807	2	1	89	1	0	0	0	0	0	0	0	1	14313	1161	41	4		4	SHOX	23	601807	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	10143	601807	154668753	6614	60445											
ASMT	438	broad.mit.edu	37	chrX	1742126	1742126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtggctgcaggtgtgagggCcagcgcccatgggacagagc	8	5	18	10	1	0	2	0	1	0	1	0	3	0	3	2	4	3	2	2	4	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:1742126C>T	uc004cqd.2	+	3	309	c.164C>T	c.(163-165)GCC>GTC	p.A55V	ASMT_uc010ncy.2_Missense_Mutation_p.A55V|ASMT_uc004cqe.2_Missense_Mutation_p.A55V	NM_004043	NP_004034	P46597	HIOM_HUMAN	acetylserotonin O-methyltransferase	55					melatonin biosynthetic process|translation	cytosol	acetylserotonin O-methyltransferase activity|S-methyltransferase activity			skin(1)	1		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GGTGTGAGGGCCAGCGCCCAT	0.642													14	32					0	0	1	0	0		T	1742126	T	T	1742126	3	4	89	1	0	0	0	0	1	0	0	0	1046	739	26	2	170	2	ASMT	23	1742126	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1140319	1742126	153528434	6615	60446											
DHRSX	207063	broad.mit.edu	37	chrX	2139159	2139159	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagtttctggttgtaggTgacgtggagggacttggtct	5	14	16	6	1	2	1	0	1	2	0	2	3	2	3	0	5	1	4	0	5	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:2139159T>C	uc004cqf.3	-	7	965	c.916A>G	c.(916-918)ACC>GCC	p.T306A		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	306							binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				TGGTTGTAGGTGACGTGGAGG	0.527													44	63					0	0	1	0	0		C	2139159	C	C	2139159	3	2	89	1	0	0	0	0	1	0	0	0	4505	1696	59	3	80	3	DHRSX	23	2139159	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	397033	2139159	153131401	6616	60447											
DHRSX	207063	broad.mit.edu	37	chrX	2326792	2326792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtatctctcggtacctttgtCgttcaaggtttcttctttta	5	20	7	9	2	4	0	1	0	3	0	7	0	4	0	1	2	1	4	1	2	4	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:2326792C>T	uc004cqf.3	-	3	329	c.280G>A	c.(280-282)GAC>AAC	p.D94N		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	94							binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				GTACCTTTGTCGTTCAAGGTT	0.388													8	25					0	0	1	0	0		T	2326792	T	T	2326792	3	4	89	1	0	0	0	0	1	0	0	0	4505	884	31	1	732	1	DHRSX	23	2326792	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	187633	2326792	152943768	6617	60448											
NLGN4X	57502	broad.mit.edu	37	chrX	6069042	6069042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agtgaggtactcaccatcttCcgtgggcacgtagatgttta	9	12	11	9	2	2	2	1	1	1	1	3	2	3	2	2	2	1	4	2	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:6069042C>T	uc010ndh.2	-	2	967	c.466G>A	c.(466-468)GAA>AAA	p.E156K	NLGN4X_uc004crp.2_Missense_Mutation_p.E156K|NLGN4X_uc004crq.2_Missense_Mutation_p.E156K|NLGN4X_uc010ndi.2_Missense_Mutation_p.E156K|NLGN4X_uc004crr.2_Missense_Mutation_p.E156K|NLGN4X_uc010ndj.2_Missense_Mutation_p.E156K	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	156	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TCACCATCTTCCGTGGGCACG	0.423													46	17					0	0	1	0	0		T	6069042	T	T	6069042	3	4	89	1	0	0	0	0	1	0	0	0	10483	864	30	4	2004	4	NLGN4X	23	6069042	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3742250	6069042	149201518	6618	60449											
TBL1X	6907	broad.mit.edu	37	chrX	9679717	9679717	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctgcacccacacgctcacGaagcatcaggagcctgtcta	10	7	9	15	2	4	0	2	0	2	0	4	2	4	1	2	1	3	3	2	1	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:9679717G>A	uc010ndq.2	+	16	1874	c.1506G>A	c.(1504-1506)ACG>ACA	p.T502T	TBL1X_uc004csq.3_Silent_p.T451T|TBL1X_uc010ndr.2_Silent_p.T451T|TBL1X_uc004csr.2_Silent_p.T502T|TBL1X_uc004css.2_Silent_p.T453T	NM_001139466	NP_001132938	O60907	TBL1X_HUMAN	transducin beta-like 1X isoform a	502					canonical Wnt receptor signaling pathway|cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|sensory perception of sound|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein C-terminus binding|protein domain specific binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1		Hepatocellular(5;0.000888)				ACACGCTCACGAAGCATCAGG	0.517													25	9					0	0	1	0	0		A	9679717	A	A	9679717	2	1	89	1	0	0	0	0	0	0	0	1	15664	1045	37	1		1	TBL1X	23	9679717	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3610675	9679717	145590843	6619	60450											
SHROOM2	357	broad.mit.edu	37	chrX	9863383	9863383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggctggcagggtccccggCcctgtgtgcagggagacctg	4	6	18	13	2	0	1	0	0	0	1	1	2	1	1	4	5	1	3	4	5	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:9863383C>T	uc004csu.1	+	4	1525	c.1435C>T	c.(1435-1437)CCC>TCC	p.P479S		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	479					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				GGGTCCCCGGCCCTGTGTGCA	0.677													18	5					0	0	1	0	0		T	9863383	T	T	9863383	3	4	89	1	0	0	0	0	1	0	0	0	14319	739	26	2	1449	2	SHROOM2	23	9863383	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	183666	9863383	145407177	6620	60451											
FRMPD4	9758	broad.mit.edu	37	chrX	12701697	12701697	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggaggtcatcatcaacggCcaagtgtcggtgagtttaca	11	9	13	8	2	3	1	3	1	0	0	4	3	3	2	1	4	2	1	1	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:12701697C>T	uc004cuz.1	+	6	1070	c.564C>T	c.(562-564)GGC>GGT	p.G188G	FRMPD4_uc011mij.1_Silent_p.G180G	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	188					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						TCATCAACGGCCAAGTGTCGG	0.448													22	7					0	0	1	0	0		T	12701697	T	T	12701697	2	4	89	1	0	0	0	0	0	0	0	1	6073	726	26	2		2	FRMPD4	23	12701697	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2838314	12701697	142568863	6621	60452											
TLR7	51284	broad.mit.edu	37	chrX	12905084	12905084	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagaggcttctttcatgtCtgttaatgaaagctgctaca	12	13	8	8	0	3	2	1	1	2	1	3	2	3	2	0	1	3	4	0	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:12905084C>A	uc004cvc.2	+	3	1596	c.1457C>A	c.(1456-1458)TCT>TAT	p.S486Y		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	486	Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	TCTTTCATGTCTGTTAATGAA	0.358													76	30					1.71382e-40	2.12464e-40	1	1	0		A	12905084	A	A	12905084	3	1	89	1	0	0	0	0	1	0	0	0	15981	913	32	5	1463	5	TLR7	23	12905084	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	203387	12905084	142365476	6622	60453											
TLR8	51311	broad.mit.edu	37	chrX	12937551	12937551	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaacctaagggagttacTgcttgaagacaaccagttac	17	8	8	8	0	0	2	0	1	0	1	0	3	0	3	2	1	5	3	2	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:12937551T>C	uc004cve.2	+	2	460	c.392T>C	c.(391-393)CTG>CCG	p.L131P	TLR8_uc004cvd.2_Missense_Mutation_p.L149P	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	131	LRR 1.|Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						AGGGAGTTACTGCTTGAAGAC	0.408													78	23					0	0	1	0	0		C	12937551	C	C	12937551	3	2	89	1	0	0	0	0	1	0	0	0	15982	1580	55	3	398	3	TLR8	23	12937551	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	32467	12937551	142333009	6623	60454											
TLR8	51311	broad.mit.edu	37	chrX	12940036	12940036	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctggaactttaaaacagcTttttacttggctttgcagag	11	14	9	7	0	0	1	0	0	0	1	0	2	0	2	0	2	6	4	0	2	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:12940036T>G	uc004cve.2	+	2	2945	c.2877T>G	c.(2875-2877)GCT>GCG	p.A959A	TLR8_uc004cvd.2_Silent_p.A977A	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	959	Cytoplasmic (Potential).|TIR.				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						TTAAAACAGCTTTTTACTTGG	0.388													41	21					0	0	1	0	0		G	12940036	G	G	12940036	2	3	89	1	0	0	0	0	0	0	0	1	15982	1596	56	5		5	TLR8	23	12940036	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2485	12940036	142330524	6624	60455											
ASB9	140462	broad.mit.edu	37	chrX	15267048	15267048	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgacctttcccttggttcAcgtccgctcctaaacagtca	7	12	6	16	2	2	1	2	1	0	0	5	1	5	1	5	1	1	2	5	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:15267048A>G	uc004cwl.2	-	6	825	c.578T>C	c.(577-579)GTG>GCG	p.V193A	ASB9_uc004cwk.2_Missense_Mutation_p.V193A|ASB9_uc004cwm.2_Missense_Mutation_p.V183A|ASB9_uc010ner.2_Missense_Mutation_p.V193A|ASB9_uc004cwn.2_Missense_Mutation_p.V164A	NM_001031739	NP_001026909	Q96DX5	ASB9_HUMAN	ankyrin repeat and SOCS box-containing 9 isoform	193	ANK 5.				intracellular signal transduction						0	Hepatocellular(33;0.183)					CCCTTGGTTCACGTCCGCTCC	0.537													21	21					0	0	1	0	0		G	15267048	G	G	15267048	3	3	89	1	0	0	0	0	1	0	0	0	1031	159	6	3	343	3	ASB9	23	15267048	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2327012	15267048	140003512	6625	60456											
ASB11	140456	broad.mit.edu	37	chrX	15333600	15333600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tagccgcttcttttctatttCctttgacgatatagaaatgg	9	17	7	8	2	2	2	0	1	2	1	3	3	3	2	2	1	1	1	2	1	5	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:15333600C>T	uc004cwp.1	-	1	128	c.128G>A	c.(127-129)GGA>GAA	p.G43E	ASB11_uc004cwo.1_5'Flank|ASB11_uc010nes.1_RNA|ASB11_uc010net.1_Missense_Mutation_p.G43E	NM_080873	NP_543149	Q8WXH4	ASB11_HUMAN	ankyrin repeat and SOCS box-containing protein	43					intracellular signal transduction					breast(2)|skin(1)	3	Hepatocellular(33;0.183)					TTTTCTATTTCCTTTGACGAT	0.299													36	18					0	0	1	0	0		T	15333600	T	T	15333600	3	4	89	1	0	0	0	0	1	0	0	0	1016	855	30	4	993	4	ASB11	23	15333600	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	66552	15333600	139936960	6626	60457											
PIR	8544	broad.mit.edu	37	chrX	15474167	15474167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgcagaatgccccggcccGcagtcatccactgcaaacac	10	5	9	17	3	1	1	1	0	0	1	2	1	2	1	4	1	4	3	4	1	2	0	rs149497039		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:15474167G>A	uc004cwu.2	-	5	522	c.284C>T	c.(283-285)GCG>GTG	p.A95V	PIR_uc004cwv.2_Missense_Mutation_p.A95V	NM_003662	NP_003653	O00625	PIR_HUMAN	pirin	95					transcription from RNA polymerase II promoter	cytoplasm|nucleus	metal ion binding|protein binding|quercetin 2,3-dioxygenase activity|transcription cofactor activity			ovary(1)	1	Hepatocellular(33;0.183)					GCCCCGGCCCGCAGTCATCCA	0.493													97	44					0	0	1	0	0		A	15474167	A	A	15474167	3	1	89	1	0	0	0	0	1	0	0	0	11963	1087	38	1	612	1	PIR	23	15474167	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	140567	15474167	139796393	6627	60458											
GRPR	2925	broad.mit.edu	37	chrX	16141926	16141926	+	Translation_Start_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgacagagagttttgaatAccatagttagtatatatgta	15	14	9	3	0	0	3	0	2	0	1	0	4	0	3	1	0	1	4	1	0	8	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:16141926A>G	uc004cxj.2	+	1	503	c.-150A>G	c.(-152--148)ATACC>ATGCC			NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor						cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					AGTTTTGAATACCATAGTTAG	0.353											OREG0019682	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	7					0	0	1	0	0		G	16141926	G	G	16141926	1	3	89	1	0	0	0	0	0	0	0	0	6824	406	14	3		3	GRPR	23	16141926	Translation_Start_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	667759	16141926	139128634	6628	60459											
GRPR	2925	broad.mit.edu	37	chrX	16170750	16170750	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcaatggaaacatctgTcacgagcggtatgtctagat	12	11	9	9	2	5	1	3	0	2	1	5	3	5	2	0	2	2	1	0	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:16170750T>C	uc004cxj.2	+	3	1790	c.1137T>C	c.(1135-1137)TGT>TGC	p.C379C		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	379	Cytoplasmic (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					GAAACATCTGTCACGAGCGGT	0.517													79	56					0	0	1	0	0		C	16170750	C	C	16170750	2	2	89	1	0	0	0	0	0	0	0	1	6824	1673	58	3		3	GRPR	23	16170750	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	28824	16170750	139099810	6629	60460											
NHS	4810	broad.mit.edu	37	chrX	17745600	17745600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtaggagaaacactgaggtCgaatcctccaccgtcccttg	11	8	10	12	2	0	2	0	1	0	1	4	4	3	2	4	2	1	1	4	2	3	2	rs145005596		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:17745600C>T	uc004cxx.2	+	6	3649	c.3311C>T	c.(3310-3312)TCG>TTG	p.S1104L	NHS_uc011mix.1_Missense_Mutation_p.S1125L|NHS_uc004cxy.2_Missense_Mutation_p.S948L|NHS_uc004cxz.2_Missense_Mutation_p.S927L|NHS_uc004cya.2_Missense_Mutation_p.S827L	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1104						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					ACACTGAGGTCGAATCCTCCA	0.413													69	34					0	0	1	0	0		T	17745600	T	T	17745600	3	4	89	1	0	0	0	0	1	0	0	0	10430	893	31	1	3438	1	NHS	23	17745600	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1574850	17745600	137524960	6630	60461											
PHKA2	5256	broad.mit.edu	37	chrX	18938281	18938281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtcagatatgtgtagaacGatgtggtgagaaattccgaa	15	10	12	4	2	1	3	1	1	0	3	2	6	2	3	1	1	1	1	1	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:18938281G>A	uc004cyv.3	-	18	2262	c.1832C>T	c.(1831-1833)TCG>TTG	p.S611L	PHKA2_uc004cyu.3_5'UTR|PHKA2_uc010nfg.1_RNA	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	611					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					TGTGTAGAACGATGTGGTGAG	0.433													63	24					0	0	1	0	0		A	18938281	A	A	18938281	3	1	89	1	0	0	0	0	1	0	0	0	11863	1059	37	1	1939	1	PHKA2	23	18938281	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1192681	18938281	136332279	6631	60462											
MAP3K15	389840	broad.mit.edu	37	chrX	19410570	19410570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatcggcccccatttggatCgcagaagagcagaaaggctt	11	8	11	11	2	1	3	1	0	0	3	3	4	1	4	2	3	1	3	2	3	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:19410570C>T	uc004czk.1	-	18	2278	c.641G>A	c.(640-642)CGA>CAA	p.R214Q	MAP3K15_uc004czj.1_Missense_Mutation_p.R174Q	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	739	Protein kinase.						ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					CCATTTGGATCGCAGAAGAGC	0.433													61	17					0	0	1	0	0		T	19410570	T	T	19410570	3	4	89	1	0	0	0	0	1	0	0	0	9267	884	31	1	1777	1	MAP3K15	23	19410570	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	472289	19410570	135859990	6632	60463											
SH3KBP1	30011	broad.mit.edu	37	chrX	19626054	19626054	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcaaagtgaaggagacttAcattcccttccttttcaaag	14	12	6	9	0	2	2	2	1	0	1	4	3	4	2	2	1	1	0	2	1	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:19626054A>C	uc004czm.2	-	9	1321	c.1005_splice	c.e9+1	p.N335_splice	SH3KBP1_uc011mje.1_Splice_Site_p.N74_splice|SH3KBP1_uc011mjf.1_Splice_Site_p.N97_splice|SH3KBP1_uc004czl.2_Splice_Site_p.N298_splice	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a						apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						AAGGAGACTTACATTCCCTTC	0.413													24	9					0	0	1	0	0		C	19626054	C	C	19626054	5	2	89	1	0	0	0	0	0	0	1	0	14280	405	14	5	1030	5	SH3KBP1	23	19626054	Splice_Site	SNP	A	TCGA-BR-8680-01A-11D-2394-08	215484	19626054	135644506	6633	60464											
RPS6KA3	6197	broad.mit.edu	37	chrX	20195149	20195149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatttcgcttgaaaagcattCgtaaaagactctgcgcttca	12	12	8	9	3	2	2	1	1	1	1	4	3	2	2	0	0	2	4	0	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:20195149C>T	uc004czu.2	-	11	899	c.899G>A	c.(898-900)CGA>CAA	p.R300Q	RPS6KA3_uc011mjk.1_Missense_Mutation_p.R271Q|RPS6KA3_uc004czv.2_Missense_Mutation_p.R288Q|RPS6KA3_uc011mjl.1_Missense_Mutation_p.R272Q|RPS6KA3_uc011mjm.1_Missense_Mutation_p.R272Q	NM_004586	NP_004577	P51812	KS6A3_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	300	Protein kinase 1.				axon guidance|central nervous system development|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|skeletal system development|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein serine/threonine kinase activity	p.R300R(1)		central_nervous_system(4)|stomach(1)|ovary(1)|lung(1)|breast(1)	8						GAAAAGCATTCGTAAAAGACT	0.338													43	25					0	0	1	0	0		T	20195149	T	T	20195149	3	4	89	1	0	0	0	0	1	0	0	0	13677	884	31	1	1371	1	RPS6KA3	23	20195149	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	569095	20195149	135075411	6634	60465											
DDX53	168400	broad.mit.edu	37	chrX	23019630	23019630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgctgatgacttgtcaagcGacttcaatatccaaggcata	12	12	8	9	1	2	2	2	2	0	0	3	3	3	2	1	1	2	2	1	1	5	5	rs149709546	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:23019630G>A	uc004daj.2	+	1	1544	c.1456G>A	c.(1456-1458)GAC>AAC	p.D486N		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	486	Helicase C-terminal.					nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						CTTGTCAAGCGACTTCAATAT	0.413													46	22					0	0	1	0	0		A	23019630	A	A	23019630	3	1	89	1	0	0	0	0	1	0	0	0	4374	1058	37	1	1458	1	DDX53	23	23019630	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2824481	23019630	132250930	6635	60466											
PTCHD1	139411	broad.mit.edu	37	chrX	23397823	23397823	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggatgacatagtgcacgTcctggaagagctaaagaatg	13	8	13	7	2	0	3	0	1	0	2	1	5	1	5	1	2	2	2	1	2	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:23397823T>C	uc004dal.3	+	2	475	c.467T>C	c.(466-468)GTC>GCC	p.V156A	PTCHD1_uc010nfu.1_Missense_Mutation_p.V156A	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	156					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						ATAGTGCACGTCCTGGAAGAG	0.458													49	22					0	0	1	0	0		C	23397823	C	C	23397823	3	2	89	1	0	0	0	0	1	0	0	0	12754	1667	58	3	473	3	PTCHD1	23	23397823	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	378193	23397823	131872737	6636	60467											
PTCHD1	139411	broad.mit.edu	37	chrX	23411641	23411641	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatctcttggaaaccctgaGgagactttctgtcacctcca	9	12	8	12	0	3	3	1	2	2	1	5	5	4	4	3	2	1	0	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:23411641G>T	uc004dal.3	+	3	2014	c.2006G>T	c.(2005-2007)AGG>ATG	p.R669M		NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	669					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						GAAACCCTGAGGAGACTTTCT	0.478													32	24					1.61788e-16	1.85964e-16	1	1	0		T	23411641	T	T	23411641	3	4	89	1	0	0	0	0	1	0	0	0	12754	1000	35	5	2016	5	PTCHD1	23	23411641	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	13818	23411641	131858919	6637	60468											
PRDX4	10549	broad.mit.edu	37	chrX	23689659	23689659	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttagtttccaagccagcGccctactgggaaggaacagc	10	9	10	12	1	1	0	0	0	1	0	2	2	2	2	3	2	5	1	3	2	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:23689659G>A	uc004dam.2	+	2	298	c.255G>A	c.(253-255)GCG>GCA	p.A85A		NM_006406	NP_006397	Q13162	PRDX4_HUMAN	peroxiredoxin 4	85	Thioredoxin.				cell redox homeostasis|I-kappaB phosphorylation		thioredoxin peroxidase activity			upper_aerodigestive_tract(1)	1						CCAAGCCAGCGCCCTACTGGG	0.388													13	17					0	0	1	0	0		A	23689659	A	A	23689659	2	1	89	1	0	0	0	0	0	0	0	1	12489	1074	38	1		1	PRDX4	23	23689659	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	278018	23689659	131580901	6638	60469											
POLA1	5422	broad.mit.edu	37	chrX	24751894	24751894	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtctaaaccaaaggactgTatttttccatatgctttcaa	12	15	6	8	0	2	0	1	0	1	0	3	1	3	1	2	1	2	2	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:24751894T>C	uc004dbl.2	+	17	1799	c.1776T>C	c.(1774-1776)TGT>TGC	p.C592C	POLA1_uc004dbn.2_Silent_p.C456C	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	592					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	CAAAGGACTGTATTTTTCCAT	0.343													51	6					0	0	1	0	0		C	24751894	C	C	24751894	2	2	89	1	0	0	0	0	0	0	0	1	12206	1644	57	3		3	POLA1	23	24751894	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1062235	24751894	130518666	6639	60470											
POLA1	5422	broad.mit.edu	37	chrX	24751916	24751916	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttccatatgctttcaaaGaagtcattgagaaaaaggta	15	14	7	5	0	2	2	2	1	0	2	3	3	3	2	1	1	1	2	1	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:24751916G>T	uc004dbl.2	+	17	1821	c.1798G>T	c.(1798-1800)GAA>TAA	p.E600*	POLA1_uc004dbn.2_Nonsense_Mutation_p.E464*	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	600					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	TGCTTTCAAAGAAGTCATTGA	0.353													24	32					2.14196e-07	2.24787e-07	1	1	0		T	24751916	T	T	24751916	4	4	89	1	0	0	0	0	0	1	0	0	12206	943	33	5	1864	5	POLA1	23	24751916	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	22	24751916	130518644	6640	60471											
MAGEB2	4113	broad.mit.edu	37	chrX	30237408	30237408	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagtctatgatggagaggaGcactcagtctttggggaacc	10	9	15	7	0	3	2	1	1	2	1	3	6	3	5	1	5	2	1	1	5	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:30237408G>T	uc004dbz.2	+	2	814	c.711G>T	c.(709-711)GAG>GAT	p.E237D		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	237	MAGE.						protein binding			ovary(1)	1						ATGGAGAGGAGCACTCAGTCT	0.498													21	29					7.45023e-12	8.20436e-12	1	1	0		T	30237408	T	T	30237408	3	4	89	1	0	0	0	0	1	0	0	0	9194	962	34	5	713	5	MAGEB2	23	30237408	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5485492	30237408	125033152	6641	60472											
DMD	1756	broad.mit.edu	37	chrX	31164479	31164479	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtcggacctctgtagaGaggtagaaggagaggacacc	11	7	15	8	1	1	3	0	0	1	3	2	7	1	5	2	4	1	3	2	4	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:31164479G>T	uc004dda.1	-	76	11094	c.10850C>A	c.(10849-10851)TCT>TAT	p.S3617Y	DMD_uc004dcq.1_Missense_Mutation_p.S888Y|DMD_uc004dcr.1_Missense_Mutation_p.S1037Y|DMD_uc004dcs.1_Missense_Mutation_p.S1047Y|DMD_uc004dct.1_Missense_Mutation_p.S1157Y|DMD_uc004dcu.1_Missense_Mutation_p.S1157Y|DMD_uc004dcv.1_Missense_Mutation_p.S1144Y|DMD_uc004dcw.2_Missense_Mutation_p.S2273Y|DMD_uc004dcx.2_Missense_Mutation_p.S2276Y|DMD_uc004dcz.2_Missense_Mutation_p.S3494Y|DMD_uc004dcy.1_Missense_Mutation_p.S3613Y|DMD_uc004ddb.1_Missense_Mutation_p.S3609Y|DMD_uc004dcm.1_Missense_Mutation_p.S549Y|DMD_uc004dcn.1_Missense_Mutation_p.S536Y|DMD_uc004dco.1_Missense_Mutation_p.S549Y|DMD_uc004dcp.1_Missense_Mutation_p.S536Y|DMD_uc011mkb.1_Missense_Mutation_p.S439Y	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3617					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CCTCTGTAGAGAGGTAGAAGG	0.473													20	41					5.35267e-07	5.59727e-07	1	1	0		T	31164479	T	T	31164479	3	4	89	1	0	0	0	0	1	0	0	0	4586	942	33	5	309	5	DMD	23	31164479	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	927071	31164479	124106081	6642	60473											
DMD	1756	broad.mit.edu	37	chrX	32235105	32235105	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctgagaaactgttcagcTtctgttagccactgattaaa	11	15	7	8	0	3	2	1	2	2	1	3	3	3	2	1	0	3	3	1	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:32235105T>G	uc004dda.1	-	44	6610	c.6366A>C	c.(6364-6366)GAA>GAC	p.E2122D	DMD_uc004dcw.2_Missense_Mutation_p.E778D|DMD_uc004dcx.2_Missense_Mutation_p.E781D|DMD_uc004dcz.2_Missense_Mutation_p.E1999D|DMD_uc004dcy.1_Missense_Mutation_p.E2118D|DMD_uc004ddb.1_Missense_Mutation_p.E2114D|DMD_uc010ngo.1_Missense_Mutation_p.E31D|DMD_uc010ngn.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2122	Spectrin 15.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				ACTGTTCAGCTTCTGTTAGCC	0.348													28	6					0	0	1	0	0		G	32235105	G	G	32235105	3	3	89	1	0	0	0	0	1	0	0	0	4586	1606	56	5	4983	5	DMD	23	32235105	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1070626	32235105	123035455	6643	60474											
DMD	1756	broad.mit.edu	37	chrX	32328264	32328264	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaggtcaggagcattgaGaagttgttccacttctaata	13	11	10	7	0	2	2	1	1	1	2	3	4	3	3	1	2	1	3	1	2	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:32328264G>T	uc004dda.1	-	42	6296	c.6052C>A	c.(6052-6054)CTC>ATC	p.L2018I	DMD_uc004dcw.2_Missense_Mutation_p.L674I|DMD_uc004dcx.2_Missense_Mutation_p.L677I|DMD_uc004dcz.2_Missense_Mutation_p.L1895I|DMD_uc004dcy.1_Missense_Mutation_p.L2014I|DMD_uc004ddb.1_Missense_Mutation_p.L2010I|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2018	Spectrin 14.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GGAGCATTGAGAAGTTGTTCC	0.393													32	63					1.90571e-15	2.17219e-15	1	1	0		T	32328264	T	T	32328264	3	4	89	1	0	0	0	0	1	0	0	0	4586	942	33	5	5305	5	DMD	23	32328264	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	93159	32328264	122942296	6644	60475											
CXorf22	170063	broad.mit.edu	37	chrX	36007570	36007570	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaatgtgttgcacatgtaAttattttccttgaacatggt	12	17	7	5	0	0	1	0	1	0	0	1	1	1	1	1	1	2	3	1	1	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:36007570A>C	uc004ddj.2	+	16	2907	c.2848A>C	c.(2848-2850)ATT>CTT	p.I950L	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	950										large_intestine(1)|lung(1)|ovary(1)	3						TGCACATGTAATTATTTTCCT	0.363													24	25					0	0	1	0	0		C	36007570	C	C	36007570	3	2	89	1	0	0	0	0	1	0	0	0	4105	101	4	5	2910	5	CXorf22	23	36007570	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	3679306	36007570	119262990	6645	60476											
XK	7504	broad.mit.edu	37	chrX	37545370	37545370	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccttgcgcgctcgtgcaGctcacgcttctcttcgtaca	4	12	9	16	5	2	0	1	0	1	0	5	0	2	0	1	0	5	5	1	0	1	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:37545370G>A	uc004ddq.2	+	1	238	c.156G>A	c.(154-156)CAG>CAA	p.Q52Q		NM_021083	NP_066569	P51811	XK_HUMAN	membrane transport protein XK	52	Helical; (Potential).				amino acid transport	integral to membrane	protein binding|transporter activity				0		all_lung(315;0.175)				CGCTCGTGCAGCTCACGCTTC	0.667													23	5					0	0	1	0	0		A	37545370	A	A	37545370	2	1	89	1	0	0	0	0	0	0	0	1	17457	962	34	2		2	XK	23	37545370	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1537800	37545370	117725190	6646	60477											
CYBB	1536	broad.mit.edu	37	chrX	37651246	37651246	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgctgctcaacaagagttCgaagacaactggacaggaat	15	7	11	8	1	1	2	1	0	0	2	2	5	1	4	0	2	4	3	0	2	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:37651246C>T	uc004ddr.2	+	4	332	c.271C>T	c.(271-273)CGA>TGA	p.R91*	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Nonsense_Mutation_p.R59*|CYBB_uc011mkg.1_5'UTR	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	91	Cytoplasmic (Potential).|Ferric oxidoreductase.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						AACAAGAGTTCGAAGACAACT	0.348													79	15					0	0	1	0	0		T	37651246	T	T	37651246	4	4	89	1	0	0	0	0	0	1	0	0	4136	876	31	1	285	1	CYBB	23	37651246	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	105876	37651246	117619314	6647	60478											
CYBB	1536	broad.mit.edu	37	chrX	37665699	37665699	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtggtttgcagatctgctGcaactgctggagagccagat	9	10	14	8	0	1	3	0	0	1	3	1	5	1	3	1	2	6	5	1	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:37665699G>A	uc004ddr.2	+	11	1435	c.1374G>A	c.(1372-1374)CTG>CTA	p.L458L	CYBB_uc011mkf.1_Silent_p.L426L|CYBB_uc011mkg.1_Silent_p.L191L	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	458	Cytoplasmic (Potential).				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						CAGATCTGCTGCAACTGCTGG	0.502													33	48					0	0	1	0	0		A	37665699	A	A	37665699	2	1	89	1	0	0	0	0	0	0	0	1	4136	1306	46	2		2	CYBB	23	37665699	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	14453	37665699	117604861	6648	60479											
SYTL5	94122	broad.mit.edu	37	chrX	37984742	37984742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctttctgggaggagttcGtttgaattctggaagtggtg	7	15	14	5	1	3	1	0	1	3	0	4	4	3	4	0	4	0	2	0	4	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:37984742G>A	uc004ddu.2	+	17	2567	c.2033G>A	c.(2032-2034)CGT>CAT	p.R678H	SYTL5_uc004ddv.2_Missense_Mutation_p.R678H|SYTL5_uc004ddx.2_Missense_Mutation_p.R700H	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	678	C2 2.				intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						GGAGGAGTTCGTTTGAATTCT	0.507													35	58					0	0	1	0	0		A	37984742	A	A	37984742	3	1	89	1	0	0	0	0	1	0	0	0	15511	1145	40	1	2161	1	SYTL5	23	37984742	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	319043	37984742	117285818	6649	60480											
RPGR	6103	broad.mit.edu	37	chrX	38158349	38158349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatttcttttgccacaccacGatgaggagcagcaaaaacta	15	9	7	10	1	1	1	0	1	1	0	1	3	1	2	2	1	4	2	2	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:38158349G>A	uc004ded.1	-	10	1273	c.1105C>T	c.(1105-1107)CGT>TGT	p.R369C	RPGR_uc004deb.2_Missense_Mutation_p.R369C|RPGR_uc004dea.2_RNA|RPGR_uc004dec.2_RNA|RPGR_uc004dee.1_Missense_Mutation_p.R54C	NM_001034853	NP_001030025	Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator isoform C	369					intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						GCCACACCACGATGAGGAGCA	0.403													15	24					0	0	1	0	0		A	38158349	A	A	38158349	3	1	89	1	0	0	0	0	1	0	0	0	13573	1058	37	1	2936	1	RPGR	23	38158349	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	173607	38158349	117112211	6650	60481											
USP9X	8239	broad.mit.edu	37	chrX	41000424	41000424	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagggttccaggacaagaaGaaactgttaaaaacttagaa	19	7	9	6	0	0	3	0	0	0	3	1	4	1	4	1	2	2	2	1	2	9	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:41000424G>T	uc004dfb.2	+	8	1609	c.976G>T	c.(976-978)GAA>TAA	p.E326*	USP9X_uc004dfc.2_Nonsense_Mutation_p.E326*	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	326					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						AGGACAAGAAGAAACTGTTAA	0.284													16	20					2.32078e-09	2.49434e-09	1	1	0		T	41000424	T	T	41000424	4	4	89	1	0	0	0	0	0	1	0	0	17116	943	33	5	1002	5	USP9X	23	41000424	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2842075	41000424	114270136	6651	60482											
GPR82	27197	broad.mit.edu	37	chrX	41587118	41587118	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttctacaccaaagagataActgtcagcaattgaattatt	15	13	6	7	0	2	2	1	1	1	1	2	3	2	2	1	0	3	2	1	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:41587118A>C	uc004dfs.1	+	3	1079	c.839A>C	c.(838-840)AAC>ACC	p.N280T	CASK_uc004dfl.3_Intron|CASK_uc004dfm.3_Intron|CASK_uc004dfn.3_Intron|GPR82_uc004dft.2_Missense_Mutation_p.N280T|GPR82_uc004dfu.1_RNA	NM_080817	NP_543007	Q96P67	GPR82_HUMAN	G protein-coupled receptor 82	280	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						CAAAGAGATAACTGTCAGCAA	0.323													6	72					0	0	1	0	0		C	41587118	C	C	41587118	3	2	89	1	0	0	0	0	1	0	0	0	6727	43	2	5	841	5	GPR82	23	41587118	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	586694	41587118	113683442	6652	60483											
RBM10	8241	broad.mit.edu	37	chrX	47041358	47041358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaccccctagctgttcccGacgtctctacctaccagtac	7	10	5	19	2	2	0	1	0	1	0	4	1	3	0	5	0	4	3	5	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:47041358G>A	uc004dhf.2	+	16	2081	c.1702G>A	c.(1702-1704)GAC>AAC	p.D568N	RBM10_uc004dhg.2_Missense_Mutation_p.D490N|RBM10_uc004dhh.2_Missense_Mutation_p.D567N|RBM10_uc010nhq.2_Missense_Mutation_p.D491N|RBM10_uc004dhi.2_Missense_Mutation_p.D633N	NM_005676	NP_005667	P98175	RBM10_HUMAN	RNA binding motif protein 10 isoform 1	568	Tyr-rich.				mRNA processing|RNA splicing	chromatin remodeling complex	nucleotide binding|RNA binding|zinc ion binding			ovary(1)|large_intestine(1)|prostate(1)|breast(1)|pancreas(1)	5						AGCTGTTCCCGACGTCTCTAC	0.577													20	29					0	0	1	0	0		A	47041358	A	A	47041358	3	1	89	1	0	0	0	0	1	0	0	0	13136	1058	37	1	1760	1	RBM10	23	47041358	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	5454240	47041358	108229202	6653	60484											
RBM10	8241	broad.mit.edu	37	chrX	47044457	47044457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccctcacccccagattGccaaggacatggaacgctgg	10	6	9	16	1	1	1	1	0	0	1	2	3	2	3	5	3	2	1	5	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:47044457G>A	uc004dhf.2	+	18	2333	c.1954G>A	c.(1954-1956)GCC>ACC	p.A652T	RBM10_uc004dhg.2_Missense_Mutation_p.A574T|RBM10_uc004dhh.2_Missense_Mutation_p.A651T|RBM10_uc010nhq.2_Missense_Mutation_p.A575T|RBM10_uc004dhi.2_Missense_Mutation_p.A717T	NM_005676	NP_005667	P98175	RBM10_HUMAN	RNA binding motif protein 10 isoform 1	652					mRNA processing|RNA splicing	chromatin remodeling complex	nucleotide binding|RNA binding|zinc ion binding			ovary(1)|large_intestine(1)|prostate(1)|breast(1)|pancreas(1)	5						CCCCCAGATTGCCAAGGACAT	0.468													6	7					0	0	1	0	0		A	47044457	A	A	47044457	3	1	89	1	0	0	0	0	1	0	0	0	13136	1319	46	2	2020	2	RBM10	23	47044457	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3099	47044457	108226103	6654	60485											
UBA1	7317	broad.mit.edu	37	chrX	47065665	47065665	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcatgtacatggaccgccGctgtgtctactaccggaagc	9	8	12	12	3	1	0	0	0	1	0	1	2	1	2	3	3	4	3	3	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:47065665G>A	uc004dhj.3	+	16	1911	c.1760G>A	c.(1759-1761)CGC>CAC	p.R587H	UBA1_uc004dhk.3_Missense_Mutation_p.R587H|UBA1_uc004dhm.2_5'Flank	NM_153280	NP_695012	P22314	UBA1_HUMAN	ubiquitin-activating enzyme E1	587	1-2.|2 approximate repeats.				cell death|protein modification process		ATP binding|ligase activity|protein binding|small protein activating enzyme activity			ovary(1)	1						ATGGACCGCCGCTGTGTCTAC	0.547													20	12					0	0	1	0	0		A	47065665	A	A	47065665	3	1	89	1	0	0	0	0	1	0	0	0	16853	1087	38	1	1818	1	UBA1	23	47065665	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	21208	47065665	108204895	6655	60486											
UBA1	7317	broad.mit.edu	37	chrX	47072566	47072566	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttctctgaaccccttgccGcaccacgtcaccaggtgggg	6	9	11	15	2	2	1	1	1	1	0	3	1	2	1	5	3	2	2	5	3	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:47072566G>A	uc004dhj.3	+	23	2975	c.2824G>A	c.(2824-2826)GCA>ACA	p.A942T	UBA1_uc004dhk.3_Missense_Mutation_p.A942T|UBA1_uc004dhm.2_Missense_Mutation_p.A390T	NM_153280	NP_695012	P22314	UBA1_HUMAN	ubiquitin-activating enzyme E1	942					cell death|protein modification process		ATP binding|ligase activity|protein binding|small protein activating enzyme activity			ovary(1)	1						ACCCCTTGCCGCACCACGTCA	0.552													30	11					0	0	1	0	0		A	47072566	A	A	47072566	3	1	89	1	0	0	0	0	1	0	0	0	16853	1087	38	1	2910	1	UBA1	23	47072566	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	6901	47072566	108197994	6656	60487											
ZNF157	7712	broad.mit.edu	37	chrX	47272103	47272103	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctcattgctcatcagaaaActcacacaggggagaggccc	13	6	9	13	0	4	2	4	0	0	2	4	3	4	2	2	3	2	1	2	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:47272103A>G	uc004dhr.1	+	4	700	c.631A>G	c.(631-633)ACT>GCT	p.T211A		NM_003446	NP_003437	P51786	ZN157_HUMAN	zinc finger protein 157	211	C2H2-type 2.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TCATCAGAAAACTCACACAGG	0.438													59	18					0	0	1	0	0		G	47272103	G	G	47272103	3	3	89	1	0	0	0	0	1	0	0	0	17762	43	2	3	645	3	ZNF157	23	47272103	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	199537	47272103	107998457	6657	60488											
ZNF41	7592	broad.mit.edu	37	chrX	47308810	47308810	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctatgggttgatcaaatCtctcacagtggaagaaaatt	13	12	8	8	0	3	2	2	1	1	1	5	3	4	3	1	2	0	1	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:47308810C>A	uc004dhs.3	-	4	552	c.485G>T	c.(484-486)AGA>ATA	p.R162I	ZNF41_uc004dhu.3_Missense_Mutation_p.R154I|ZNF41_uc004dht.3_Missense_Mutation_p.R34I|ZNF41_uc004dhv.3_Missense_Mutation_p.R130I|ZNF41_uc004dhw.3_Missense_Mutation_p.R122I|ZNF41_uc004dhy.3_Missense_Mutation_p.R120I|ZNF41_uc004dhx.3_Missense_Mutation_p.R120I|ZNF41_uc011mlm.1_Missense_Mutation_p.R34I|ZNF41_uc004dhz.2_Intron|ZNF41_uc004dia.2_Intron	NM_153380	NP_700359	P51814	ZNF41_HUMAN	zinc finger protein 41	162						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3		all_lung(315;0.000129)				TTGATCAAATCTCTCACAGTG	0.383													14	19					9.31168e-06	9.63026e-06	1	1	0		A	47308810	A	A	47308810	3	1	89	1	0	0	0	0	1	0	0	0	17914	913	32	5	1984	5	ZNF41	23	47308810	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	36707	47308810	107961750	6658	60489											
SYN1	6853	broad.mit.edu	37	chrX	47464761	47464761	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgctggcggatcagcacaAaatccggcttcagagaccta	11	7	11	12	3	2	1	2	0	0	1	3	3	3	2	2	3	2	3	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:47464761A>C	uc004die.2	-	4	674	c.545T>G	c.(544-546)TTT>TGT	p.F182C	SYN1_uc004did.2_Missense_Mutation_p.F182C	NM_006950	NP_008881	P17600	SYN1_HUMAN	synapsin I isoform Ia	182	C; actin-binding and synaptic-vesicle binding.					cell junction|Golgi apparatus	actin binding|ATP binding|ligase activity|transporter activity			ovary(1)	1						GATCAGCACAAAATCCGGCTT	0.522													4	30					0	0	1	0	0		C	47464761	C	C	47464761	3	2	89	1	0	0	0	0	1	0	0	0	15465	14	1	5	1612	5	SYN1	23	47464761	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	155951	47464761	107805799	6659	60490											
ELK1	2002	broad.mit.edu	37	chrX	47500810	47500810	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctctcagcagctgcagcaGaaactgccacagcgtcacag	11	6	9	15	1	3	1	2	0	1	1	4	1	3	1	1	0	7	4	1	0	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:47500810G>A	uc004dik.3	-	3	353	c.31C>T	c.(31-33)CTG>TTG	p.L11L	ELK1_uc010nhv.2_Silent_p.L11L|ELK1_uc010nhw.2_5'UTR|ELK1_uc004dil.3_RNA	NM_001114123	NP_001107595	P19419	ELK1_HUMAN	ELK1 protein	11	ETS.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						AGCTGCAGCAGAAACTGCCAC	0.592													32	8					0	0	1	0	0		A	47500810	A	A	47500810	2	1	89	1	0	0	0	0	0	0	0	1	5067	933	33	4		4	ELK1	23	47500810	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	36049	47500810	107769750	6660	60491											
ZNF630	57232	broad.mit.edu	37	chrX	47919043	47919043	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccacacatactacaaacaTtgggtttctctctggcttga	10	13	6	12	0	2	1	0	1	2	0	4	1	3	1	1	2	3	2	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:47919043T>G	uc004div.3	-	5	1040	c.788A>C	c.(787-789)AAT>ACT	p.N263T	ZNF630_uc010nhz.1_Intron|ZNF630_uc004diw.2_Missense_Mutation_p.N139T	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	263	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2						ACTACAAACATTGGGTTTCTC	0.383													24	102					0	0	1	0	0		G	47919043	G	G	47919043	3	3	89	1	0	0	0	0	1	0	0	0	18079	1493	52	5	1189	5	ZNF630	23	47919043	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	418233	47919043	107351517	6661	60492											
PQBP1	10084	broad.mit.edu	37	chrX	48760018	48760018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacttccacagcagtaagccGaaaggatgaagagttagacc	15	6	10	10	1	0	3	0	1	0	2	1	5	1	4	3	1	2	3	3	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:48760018G>A	uc004dle.2	+	6	776	c.587G>A	c.(586-588)CGA>CAA	p.R196Q	PQBP1_uc004dlf.2_Missense_Mutation_p.R196Q|PQBP1_uc004dlg.2_Missense_Mutation_p.R196Q|PQBP1_uc004dld.2_RNA|PQBP1_uc004dlh.2_Missense_Mutation_p.R196Q|PQBP1_uc004dli.2_Missense_Mutation_p.R196Q|PQBP1_uc004dlj.1_3'UTR|PQBP1_uc004dln.2_Missense_Mutation_p.R195Q|PQBP1_uc010nih.2_RNA|PQBP1_uc010nii.2_Missense_Mutation_p.R154Q|PQBP1_uc004dlk.2_Missense_Mutation_p.R101Q|PQBP1_uc004dll.2_Missense_Mutation_p.R63Q|PQBP1_uc004dlm.2_Missense_Mutation_p.R154Q|PQBP1_uc010nij.2_Missense_Mutation_p.R96Q	NM_001032382	NP_001027554	O60828	PQBP1_HUMAN	polyglutamine binding protein 1	196					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|transcription coactivator activity			large_intestine(1)	1						GCAGTAAGCCGAAAGGATGAA	0.562													13	9					0	0	1	0	0		A	48760018	A	A	48760018	3	1	89	1	0	0	0	0	1	0	0	0	12439	1058	37	1	605	1	PQBP1	23	48760018	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	840975	48760018	106510542	6662	60493											
PIM2	11040	broad.mit.edu	37	chrX	48772563	48772563	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggaccagcatgaagcccTcctgtgtctcaaaccagtca	11	7	9	14	1	2	1	2	1	1	0	4	3	3	2	4	1	3	1	4	1	2	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:48772563T>G	uc004dls.2	-	4	631	c.329A>C	c.(328-330)GAG>GCG	p.E110A		NM_006875	NP_006866	Q9P1W9	PIM2_HUMAN	serine/threonine protein kinase pim-2	110	Protein kinase.				anti-apoptosis|cell proliferation|male meiosis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|response to virus		ATP binding|protein serine/threonine kinase activity			lung(3)|stomach(1)	4						CATGAAGCCCTCCTGTGTCTC	0.597													12	8					0	0	1	0	0		G	48772563	G	G	48772563	3	3	89	1	0	0	0	0	1	0	0	0	11947	1551	54	5	618	5	PIM2	23	48772563	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	12545	48772563	106497997	6663	60494											
OTUD5	55593	broad.mit.edu	37	chrX	48791968	48791968	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caccatctttccctcacctaCccactgcagaagtacctgtg	9	10	5	17	0	2	1	1	0	1	1	3	1	3	1	5	0	3	2	5	0	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:48791968C>G	uc004dlu.2	-	4	986	c.925_splice	c.e4+1	p.E309_splice	OTUD5_uc004dlt.3_Intron|OTUD5_uc004dlv.2_Intron|OTUD5_uc011mmp.1_Intron	NM_017602	NP_060072	Q96G74	OTUD5_HUMAN	OTU domain containing 5 isoform a						negative regulation of type I interferon production		cysteine-type peptidase activity			pancreas(1)	1						CCCTCACCTACCCACTGCAGA	0.537													42	69					0	0	1	0	0		G	48791968	G	G	48791968	5	3	89	1	0	0	0	0	0	0	1	0	11334	521	18	5	813	5	OTUD5	23	48791968	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	19405	48791968	106478592	6664	60495											
OTUD5	55593	broad.mit.edu	37	chrX	48792100	48792100	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaatgtaggtggtaaagTcctctgtgacatagttggag	10	14	13	4	0	1	1	0	1	1	0	2	2	2	2	1	3	0	4	1	3	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:48792100T>C	uc004dlu.2	-	4	855	c.794A>G	c.(793-795)GAC>GGC	p.D265G	OTUD5_uc004dlt.3_Missense_Mutation_p.D265G|OTUD5_uc004dlv.2_Missense_Mutation_p.D265G|OTUD5_uc011mmp.1_Missense_Mutation_p.D48G	NM_017602	NP_060072	Q96G74	OTUD5_HUMAN	OTU domain containing 5 isoform a	265	OTU.				negative regulation of type I interferon production		cysteine-type peptidase activity			pancreas(1)	1						GGTGGTAAAGTCCTCTGTGAC	0.488													88	153					0	0	1	0	0		C	48792100	C	C	48792100	3	2	89	1	0	0	0	0	1	0	0	0	11334	1667	58	3	945	3	OTUD5	23	48792100	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	132	48792100	106478460	6665	60496											
KCND1	3750	broad.mit.edu	37	chrX	48825826	48825826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaggcgccagagacatcgtCgttcttgggcaccaaaagcc	12	6	11	12	3	1	1	0	0	1	1	3	2	1	1	3	2	1	2	3	2	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:48825826C>T	uc004dlx.1	-	1	2426	c.853G>A	c.(853-855)GAC>AAC	p.D285N	KCND1_uc004dlw.1_5'Flank	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	285						voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						GAGACATCGTCGTTCTTGGGC	0.592													13	5					0	0	1	0	0		T	48825826	T	T	48825826	3	4	89	1	0	0	0	0	1	0	0	0	8034	884	31	1	1114	1	KCND1	23	48825826	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	33726	48825826	106444734	6666	60497											
CACNA1F	778	broad.mit.edu	37	chrX	49081339	49081339	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcccccacagaccacaaaGcagtcaaagcggttgaagaa	16	4	9	12	1	1	3	1	1	0	2	1	3	1	3	3	1	3	2	3	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:49081339G>T	uc004dnb.2	-	14	1856	c.1794C>A	c.(1792-1794)TGC>TGA	p.C598*	CACNA1F_uc010nip.2_Nonsense_Mutation_p.C587*	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	598	Helical; Name=S3 of repeat II; (Potential).|II.				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	AGACCACAAAGCAGTCAAAGC	0.562													9	5					6.40141e-05	6.56571e-05	1	1	0		T	49081339	T	T	49081339	4	4	89	1	0	0	0	0	0	1	0	0	2546	963	34	5	4279	5	CACNA1F	23	49081339	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	255513	49081339	106189221	6667	60498											
CCNB3	85417	broad.mit.edu	37	chrX	50052637	50052637	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccccaccaagaagcctttaAttttaaagaggaagcatgcc	14	8	7	12	0	0	2	0	0	0	2	0	3	0	3	5	1	3	1	5	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:50052637A>C	uc004dox.3	+	6	1766	c.1468A>C	c.(1468-1470)ATT>CTT	p.I490L	CCNB3_uc004doy.2_Missense_Mutation_p.I490L|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	490					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					GAAGCCTTTAATTTTAAAGAG	0.448													28	11					0	0	1	0	0		C	50052637	C	C	50052637	3	2	89	1	0	0	0	0	1	0	0	0	2917	101	4	5	1482	5	CCNB3	23	50052637	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	971298	50052637	105217923	6668	60499											
CCNB3	85417	broad.mit.edu	37	chrX	50055601	50055601	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcaacccaatgtatgccaAggaaatcttcagttacatga	14	12	6	9	0	3	1	2	1	1	0	3	2	3	2	2	1	3	2	2	1	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:50055601A>C	uc004dox.3	+	7	3690	c.3392A>C	c.(3391-3393)AAG>ACG	p.K1131T	CCNB3_uc004doy.2_Missense_Mutation_p.K1131T|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Missense_Mutation_p.K23T	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1131					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					ATGTATGCCAAGGAAATCTTC	0.388													52	19					0	0	1	0	0		C	50055601	C	C	50055601	3	2	89	1	0	0	0	0	1	0	0	0	2917	72	3	5	3410	5	CCNB3	23	50055601	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2964	50055601	105214959	6669	60500											
SHROOM4	57477	broad.mit.edu	37	chrX	50377847	50377847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgttcaggggcactatggCgatgccctgtgggtcctatg	5	11	15	10	1	1	0	1	0	0	0	2	1	2	0	2	4	1	3	2	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:50377847C>T	uc004dpe.2	-	4	1252	c.1226G>A	c.(1225-1227)CGC>CAC	p.R409H	SHROOM4_uc004dpd.3_RNA|SHROOM4_uc004dpf.1_Missense_Mutation_p.R293H	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	409					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					GGCACTATGGCGATGCCCTGT	0.577													13	9					0	0	1	0	0		T	50377847	T	T	50377847	3	4	89	1	0	0	0	0	1	0	0	0	14321	768	27	1	3279	1	SHROOM4	23	50377847	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	322246	50377847	104892713	6670	60501											
MAGED1	9500	broad.mit.edu	37	chrX	51638836	51638836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagtcccggacaataattCggggcaagaggacccgcaag	12	5	14	10	3	0	1	0	0	0	1	2	4	1	4	2	5	0	2	2	5	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:51638836C>T	uc004dpm.2	+	3	828	c.733C>T	c.(733-735)CGG>TGG	p.R245W	MAGED1_uc004dpn.2_Missense_Mutation_p.R301W|MAGED1_uc004dpo.2_Missense_Mutation_p.R245W	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	245					apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					GACAATAATTCGGGGCAAGAG	0.498										Multiple Myeloma(10;0.10)			5	2					0	0	1	0	0		T	51638836	T	T	51638836	3	4	89	1	0	0	0	0	1	0	0	0	9201	875	31	1	911	1	MAGED1	23	51638836	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1260989	51638836	103631724	6671	60502											
HUWE1	10075	broad.mit.edu	37	chrX	53574690	53574690	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggtcgaagcagctacgAcaatggtggaaatagccgtg	11	8	14	8	3	0	0	0	0	0	0	1	3	0	1	1	3	4	2	1	3	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:53574690A>G	uc004dsp.2	-	68	10982	c.10580T>C	c.(10579-10581)GTC>GCC	p.V3527A	HUWE1_uc004dsn.2_Missense_Mutation_p.V2335A|HUWE1_uc004dsq.1_5'Flank	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3527	Thr-rich.				base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						AGCAGCTACGACAATGGTGGA	0.498													7	3					0	0	1	0	0		G	53574690	G	G	53574690	3	3	89	1	0	0	0	0	1	0	0	0	7477	275	10	3	2612	3	HUWE1	23	53574690	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1935854	53574690	101695870	6672	60503											
HUWE1	10075	broad.mit.edu	37	chrX	53613488	53613488	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttttgaggagatggctgTcttttcatagaaatcaatca	11	15	8	7	0	4	3	3	1	1	2	4	4	4	3	1	2	0	1	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:53613488T>C	uc004dsp.2	-	39	5188	c.4786A>G	c.(4786-4788)ACA>GCA	p.T1596A	HUWE1_uc004dsn.2_Missense_Mutation_p.T421A	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	1596					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GAGATGGCTGTCTTTTCATAG	0.423													12	3					0	0	1	0	0		C	53613488	C	C	53613488	3	2	89	1	0	0	0	0	1	0	0	0	7477	1667	58	3	8522	3	HUWE1	23	53613488	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	38798	53613488	101657072	6673	60504											
FAM120C	54954	broad.mit.edu	37	chrX	54114280	54114280	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccatcaaagtaaatccatgGacagcaatgctcccaaggga	15	6	9	11	0	1	0	1	0	0	0	3	2	3	2	3	2	2	3	3	2	5	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:54114280G>T	uc004dsz.3	-	12	2628	c.2545C>A	c.(2545-2547)CCA>ACA	p.P849T	FAM120C_uc011moh.1_Intron	NM_017848	NP_060318	Q9NX05	F120C_HUMAN	hypothetical protein LOC54954	849										ovary(1)|central_nervous_system(1)	2						TAAATCCATGGACAGCAATGC	0.537													23	9					3.73988e-18	4.36426e-18	1	1	0		T	54114280	T	T	54114280	3	4	89	1	0	0	0	0	1	0	0	0	5429	1174	41	5	765	5	FAM120C	23	54114280	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	500792	54114280	101156280	6674	60505											
FAM120C	54954	broad.mit.edu	37	chrX	54159186	54159186	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctctgtgtctctgccagActaaaaagaactccatatac	12	12	5	12	0	2	2	0	0	2	2	5	2	4	2	3	0	3	0	3	0	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:54159186A>C	uc004dsz.3	-	9	2084	c.2001T>G	c.(1999-2001)AGT>AGG	p.S667R	FAM120C_uc011moh.1_Missense_Mutation_p.S667R	NM_017848	NP_060318	Q9NX05	F120C_HUMAN	hypothetical protein LOC54954	667										ovary(1)|central_nervous_system(1)	2						TCTCTGCCAGACTAAAAAGAA	0.483													10	5					0	0	1	0	0		C	54159186	C	C	54159186	3	2	89	1	0	0	0	0	1	0	0	0	5429	272	10	5	1321	5	FAM120C	23	54159186	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	44906	54159186	101111374	6675	60506											
FGD1	2245	broad.mit.edu	37	chrX	54496803	54496803	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggggcactggtggctgCgaggttggctgtggcaacat	6	9	18	8	1	0	0	0	0	0	0	0	1	0	0	0	7	3	6	0	7	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:54496803C>T	uc004dtg.2	-	4	1481	c.747G>A	c.(745-747)TCG>TCA	p.S249S	FGD1_uc011moi.1_Silent_p.S7S	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	249	Pro-rich.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CTGGTGGCTGCGAGGTTGGCT	0.677													13	2					0	0	1	0	0		T	54496803	T	T	54496803	2	4	89	1	0	0	0	0	0	0	0	1	5846	755	27	1		1	FGD1	23	54496803	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	337617	54496803	100773757	6676	60507											
TRO	7216	broad.mit.edu	37	chrX	54955213	54955213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgggatgacatggatatcGactgcctaacaagggaagag	14	8	13	6	1	0	2	0	1	0	1	1	6	0	5	1	3	2	0	1	3	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:54955213G>A	uc004dtq.2	+	12	2163	c.2056G>A	c.(2056-2058)GAC>AAC	p.D686N	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Missense_Mutation_p.D217N|TRO_uc004dtw.2_Missense_Mutation_p.D289N|TRO_uc004dtx.2_Missense_Mutation_p.D69N	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	686					embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						CATGGATATCGACTGCCTAAC	0.274													14	5					0	0	1	0	0		A	54955213	A	A	54955213	3	1	89	1	0	0	0	0	1	0	0	0	16600	1058	37	1	2098	1	TRO	23	54955213	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	458410	54955213	100315347	6677	60508											
MAGEH1	28986	broad.mit.edu	37	chrX	55479459	55479459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgctaggggttattccGccccttaagtagatctgagg	8	11	13	9	1	1	2	0	1	1	1	2	2	2	2	3	4	1	3	3	4	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:55479459G>A	uc004dum.2	+	1	922	c.652G>A	c.(652-654)GCC>ACC	p.A218T		NM_014061	NP_054780	Q9H213	MAGH1_HUMAN	melanoma antigen, family H, 1 protein	218					apoptosis					ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GGGTTATTCCGCCCCTTAAGT	0.488													24	11					0	0	1	0	0		A	55479459	A	A	55479459	3	1	89	1	0	0	0	0	1	0	0	0	9206	1087	38	1	654	1	MAGEH1	23	55479459	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	524246	55479459	99791101	6678	60509											
SPIN3	169981	broad.mit.edu	37	chrX	57021144	57021144	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgataagatacagagagggAtttacaggtacctgatccag	14	10	11	6	0	0	4	0	2	0	2	1	6	1	5	2	2	3	1	2	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:57021144A>G	uc010nkj.2	-	2	523	c.237T>C	c.(235-237)AAT>AAC	p.N79N	SPIN3_uc004duu.3_Intron|SPIN3_uc004duw.3_Intron|SPIN3_uc004duv.3_Intron|SPIN3_uc004dux.1_Silent_p.N79N	NM_001010862	NP_001010862	Q5JUX0	SPIN3_HUMAN	spindlin family, member 3	79					gamete generation					ovary(1)|central_nervous_system(1)	2						ACAGAGAGGGATTTACAGGTA	0.433													88	51					0	0	1	0	0		G	57021144	G	G	57021144	2	3	89	1	0	0	0	0	0	0	0	1	15080	330	12	3		3	SPIN3	23	57021144	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1541685	57021144	98249416	6679	60510											
ZXDB	158586	broad.mit.edu	37	chrX	57619029	57619029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgttgcgctttgagaacgGcgtcctcaccctggccacgc	5	9	12	15	4	1	1	1	1	0	1	2	2	2	1	3	2	2	3	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:57619029G>A	uc004dvd.2	+	1	761	c.548G>A	c.(547-549)GGC>GAC	p.G183D		NM_007157	NP_009088	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	183					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						TTTGAGAACGGCGTCCTCACC	0.517													9	8					0	0	1	0	0		A	57619029	A	A	57619029	3	1	89	1	0	0	0	0	1	0	0	0	18276	1203	42	2	550	2	ZXDB	23	57619029	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	597885	57619029	97651531	6680	60511											
FAM123B	139285	broad.mit.edu	37	chrX	63412011	63412011	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctctaattccacctcttCttcctcttcttcctcctcgt	3	18	1	19	1	5	0	0	0	5	0	11	0	10	0	6	0	0	0	6	0	1	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:63412011C>A	uc004dvo.2	-	2	1429	c.1156G>T	c.(1156-1158)GAA>TAA	p.E386*		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	386	Glu-rich.				Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						tccacctcttcttcctcttct	0.348													38	28					9.45814e-24	1.13393e-23	1	1	0		A	63412011	A	A	63412011	4	1	89	1	0	0	0	0	0	1	0	0	5434	922	32	5	2255	5	FAM123B	23	63412011	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5792982	63412011	91858549	6681	60512											
MSN	4478	broad.mit.edu	37	chrX	64936689	64936689	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcatcctagatcagtgtgCgtgtgaccaccatggatgca	9	11	10	11	1	2	2	2	1	1	1	4	3	3	3	3	1	2	1	3	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:64936689C>T	uc004dwf.2	+	2	220	c.22C>T	c.(22-24)CGT>TGT	p.R8C	MSN_uc010nkp.1_RNA	NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	8	FERM.				leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						GATCAGTGTGCGTGTGACCAC	0.532			T	ALK	ALCL								26	9					0	0	1	0	0		T	64936689	T	T	64936689	3	4	89	1	0	0	0	0	1	0	0	0	9903	768	27	1	28	1	MSN	23	64936689	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1524678	64936689	90333871	6682	60513											
IL2RG	3561	broad.mit.edu	37	chrX	70331290	70331290	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaccagctgtggtgtcttCattcccattgggcgtcagaa	7	11	10	13	1	3	1	2	0	1	1	4	1	4	1	3	2	1	1	3	2	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:70331290C>A	uc004dyw.1	-	1	114	c.100G>T	c.(100-102)GAA>TAA	p.E34*	IL2RG_uc004dyv.1_5'Flank|IL2RG_uc004dyx.1_Missense_Mutation_p.M3I	NM_000206	NP_000197	P31785	IL2RG_HUMAN	interleukin 2 receptor, gamma precursor	34	Extracellular (Potential).				immune response|interleukin-4-mediated signaling pathway|interspecies interaction between organisms	external side of plasma membrane|integral to plasma membrane	cytokine receptor activity|interleukin-2 binding			pancreas(1)	1	Renal(35;0.156)				Aldesleukin(DB00041)|Denileukin diftitox(DB00004)	GTGGTGTCTTCATTCCCATTG	0.577									Severe_Combined_Immunodeficiency_X-linked				21	7					1.28384e-07	1.34871e-07	1	1	0		A	70331290	A	A	70331290	4	1	89	1	0	0	0	0	0	1	0	0	7704	835	29	5	1041	5	IL2RG	23	70331290	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	5394601	70331290	84939270	6683	60514											
TAF1	6872	broad.mit.edu	37	chrX	70597031	70597031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaactttttccagaatttcGacctggaaaggtacattctg	12	13	8	8	1	1	2	0	0	1	2	3	4	2	3	2	2	2	1	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:70597031G>A	uc004dzu.3	+	5	752	c.701G>A	c.(700-702)CGA>CAA	p.R234Q	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.R255Q	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	234	Protein kinase 1.				G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				CCAGAATTTCGACCTGGAAAG	0.443													33	9					0	0	1	0	0		A	70597031	A	A	70597031	3	1	89	1	0	0	0	0	1	0	0	0	15538	1058	37	1	782	1	TAF1	23	70597031	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	265741	70597031	84673529	6684	60515											
TAF1	6872	broad.mit.edu	37	chrX	70601751	70601751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttgacacttgatcccaatGatgagaacctcattttgggt	10	15	8	8	0	1	4	1	4	0	1	2	5	2	4	2	1	1	0	2	1	2	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:70601751G>A	uc004dzu.3	+	9	1567	c.1516G>A	c.(1516-1518)GAT>AAT	p.D506N	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.D527N	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	506					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				TGATCCCAATGATGAGAACCT	0.478													34	20					0	0	1	0	0		A	70601751	A	A	70601751	3	1	89	1	0	0	0	0	1	0	0	0	15538	1290	45	4	1613	4	TAF1	23	70601751	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4720	70601751	84668809	6685	60516											
TAF1	6872	broad.mit.edu	37	chrX	70608626	70608626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtgcttaagtctgattttCgtttaccaacggaagaagag	11	12	12	6	2	1	3	0	1	1	2	2	4	1	4	1	2	3	2	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:70608626C>T	uc004dzu.3	+	17	2656	c.2605C>T	c.(2605-2607)CGT>TGT	p.R869C	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.R890C|TAF1_uc004dzv.3_Missense_Mutation_p.R43C	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	869					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				GTCTGATTTTCGTTTACCAAC	0.433													66	16					0	0	1	0	0		T	70608626	T	T	70608626	3	4	89	1	0	0	0	0	1	0	0	0	15538	884	31	1	2734	1	TAF1	23	70608626	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	6875	70608626	84661934	6686	60517											
NAP1L2	4674	broad.mit.edu	37	chrX	72433253	72433253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaaatcttcagttacagttCggattgttccccagatccga	11	12	8	10	2	2	1	1	0	1	1	5	4	4	2	3	1	1	3	3	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:72433253C>T	uc004ebi.2	-	1	1432	c.1076G>A	c.(1075-1077)CGA>CAA	p.R359Q	NAP1L2_uc011mqj.1_Missense_Mutation_p.R217Q	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	359					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					AGTTACAGTTCGGATTGTTCC	0.373													44	20					0	0	1	0	0		T	72433253	T	T	72433253	3	4	89	1	0	0	0	0	1	0	0	0	10175	884	31	1	310	1	NAP1L2	23	72433253	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1824627	72433253	82837307	6687	60518											
NAP1L2	4674	broad.mit.edu	37	chrX	72433985	72433985	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctagtttgaagctttttaAgggctaacacacggtactta	11	14	8	8	1	1	1	0	1	1	0	1	1	1	1	0	2	3	4	0	2	6	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:72433985A>C	uc004ebi.2	-	1	700	c.344T>G	c.(343-345)CTT>CGT	p.L115R	NAP1L2_uc011mqj.1_5'UTR	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	115					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					AAGCTTTTTAAGGGCTAACAC	0.398													42	27					0	0	1	0	0		C	72433985	C	C	72433985	3	2	89	1	0	0	0	0	1	0	0	0	10175	72	3	5	1042	5	NAP1L2	23	72433985	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	732	72433985	82836575	6688	60519											
RLIM	51132	broad.mit.edu	37	chrX	73811613	73811613	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgactggggccctatgtcGaccctctcgcctggcacctg	4	10	12	15	2	1	1	0	1	1	0	3	2	1	1	4	3	0	1	4	3	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:73811613G>A	uc004ebu.2	-	5	1827	c.1537C>T	c.(1537-1539)CGA>TGA	p.R513*	RLIM_uc004ebw.2_Nonsense_Mutation_p.R513*	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	513					random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GCCCTATGTCGACCCTCTCGC	0.448													27	12					0	0	1	0	0		A	73811613	A	A	73811613	4	1	89	1	0	0	0	0	0	1	0	0	13415	1066	37	1	341	1	RLIM	23	73811613	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1377628	73811613	81458947	6689	60520											
KIAA2022	340533	broad.mit.edu	37	chrX	73965454	73965454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgttttctccgttggctgagGcaacaatagccttatcttgt	7	16	9	9	1	2	1	0	1	2	0	3	1	2	1	2	2	2	4	2	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:73965454G>A	uc004eby.2	-	2	649	c.32C>T	c.(31-33)GCC>GTC	p.A11V		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	11					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GTTGGCTGAGGCAACAATAGC	0.348													15	8					0	0	1	0	0		A	73965454	A	A	73965454	3	1	89	1	0	0	0	0	1	0	0	0	8285	1203	42	2	4530	2	KIAA2022	23	73965454	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	153841	73965454	81305106	6690	60521											
ATRX	546	broad.mit.edu	37	chrX	76938401	76938401	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgagccagatgtagaacTttttcgtttcctttttcctt	7	19	6	9	1	1	3	0	1	1	2	4	3	3	3	3	0	2	2	3	0	2	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:76938401T>G	uc004ecp.3	-	9	2579	c.2347A>C	c.(2347-2349)AGT>CGT	p.S783R	ATRX_uc004ecq.3_Missense_Mutation_p.S745R|ATRX_uc004eco.3_Missense_Mutation_p.S568R|ATRX_uc004ecr.2_Missense_Mutation_p.S715R|ATRX_uc010nlx.1_Missense_Mutation_p.S754R|ATRX_uc010nly.1_Missense_Mutation_p.S728R	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	783					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	GATGTAGAACTTTTTCGTTTC	0.303			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						103	52					0	0	1	0	0		G	76938401	G	G	76938401	3	3	89	1	0	0	0	0	1	0	0	0	1209	1609	56	5	5239	5	ATRX	23	76938401	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2972947	76938401	78332159	6691	60522											
MAGT1	84061	broad.mit.edu	37	chrX	77096753	77096753	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacttactctttcgcttTccaatatccatgtcagaggt	8	15	8	10	1	2	2	1	1	1	1	5	2	4	2	2	2	1	1	2	2	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:77096753T>C	uc004fof.2	-	8	1049	c.987A>G	c.(985-987)GGA>GGG	p.G329G	MAGT1_uc004fog.3_RNA	NM_032121	NP_115497	Q9H0U3	MAGT1_HUMAN	magnesium transporter 1	297					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				upper_aerodigestive_tract(1)	1						TCTTTCGCTTTCCAATATCCA	0.378													49	13					0	0	1	0	0		C	77096753	C	C	77096753	2	2	89	1	0	0	0	0	0	0	0	1	9214	1770	62	3		3	MAGT1	23	77096753	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	158352	77096753	78173807	6692	60523											
DACH2	117154	broad.mit.edu	37	chrX	85404080	85404080	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcatcaccaggaaagacttCgaaactttgttcaccgattg	12	11	7	11	2	3	1	3	0	0	1	4	4	3	2	2	1	1	1	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:85404080C>T	uc004eew.2	+	1	626	c.456C>T	c.(454-456)TTC>TTT	p.F152F	DACH2_uc004eex.2_Silent_p.F152F|DACH2_uc010nmq.2_5'UTR	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	152	DACHbox-N.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						GGAAAGACTTCGAAACTTTGT	0.577													18	10					0	0	1	0	0		T	85404080	T	T	85404080	2	4	89	1	0	0	0	0	0	0	0	1	4224	883	31	1		1	DACH2	23	85404080	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	8307327	85404080	69866480	6693	60524											
KLHL4	56062	broad.mit.edu	37	chrX	86888822	86888822	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctatctaaatactgtagaAagatgggaccctgagggacg	14	8	12	7	1	1	3	0	1	1	2	1	5	1	5	1	2	2	2	1	2	6	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:86888822A>C	uc004efb.2	+	8	1805	c.1623A>C	c.(1621-1623)GAA>GAC	p.E541D	KLHL4_uc004efa.2_Missense_Mutation_p.E541D	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	541	Kelch 3.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						ATACTGTAGAAAGATGGGACC	0.408													27	20					0	0	1	0	0		C	86888822	C	C	86888822	3	2	89	1	0	0	0	0	1	0	0	0	8407	11	1	5	1653	5	KLHL4	23	86888822	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	1484742	86888822	68381738	6694	60525											
CPXCR1	53336	broad.mit.edu	37	chrX	88008703	88008703	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctacttcagacccccatTcccagaaaattggtctctca	10	12	4	15	0	4	2	2	0	2	2	6	2	5	2	3	1	1	0	3	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:88008703T>C	uc004efd.3	+	3	547	c.288T>C	c.(286-288)ATT>ATC	p.I96I	CPXCR1_uc004efc.3_Silent_p.I96I	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	96						intracellular	zinc ion binding			ovary(3)	3						AGACCCCCATTCCCAGAAAAT	0.408													22	5					0	0	1	0	0		C	88008703	C	C	88008703	2	2	89	1	0	0	0	0	0	0	0	1	3839	1771	62	3		3	CPXCR1	23	88008703	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1119881	88008703	67261857	6695	60526											
PCDH19	57526	broad.mit.edu	37	chrX	99662442	99662442	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgcccagcaaacggcacTgcacacgtccattgaggcct	10	7	9	15	2	0	1	0	1	0	0	1	1	1	1	3	2	4	3	3	2	1	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:99662442T>G	uc010nmz.2	-	1	2830	c.1154A>C	c.(1153-1155)CAG>CCG	p.Q385P	PCDH19_uc004efw.3_Missense_Mutation_p.Q385P|PCDH19_uc004efx.3_Missense_Mutation_p.Q385P	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	385	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CAAACGGCACTGCACACGTCC	0.607													15	77					0	0	1	0	0		G	99662442	G	G	99662442	3	3	89	1	0	0	0	0	1	0	0	0	11533	1580	55	5	2316	5	PCDH19	23	99662442	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	11653739	99662442	55608118	6696	60527											
SRPX2	27286	broad.mit.edu	37	chrX	99920638	99920638	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccgggccagctgcaagttCattgtgaaagtacaaggtca	13	8	11	9	1	2	1	2	1	0	0	2	1	2	1	2	2	4	4	2	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:99920638C>A	uc004egb.2	+	7	1245	c.765C>A	c.(763-765)TTC>TTA	p.F255L		NM_014467	NP_055282	O60687	SRPX2_HUMAN	sushi-repeat-containing protein, X-linked 2	255	HYR.				angiogenesis|cell motility|cell-cell adhesion|positive regulation of cell migration involved in sprouting angiogenesis|regulation of phosphorylation	cytoplasm|extracellular region	receptor binding			ovary(2)	2						GCTGCAAGTTCATTGTGAAAG	0.498													140	33					1.02779e-63	1.28172e-63	1	1	0		A	99920638	A	A	99920638	3	1	89	1	0	0	0	0	1	0	0	0	15190	825	29	5	787	5	SRPX2	23	99920638	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	258196	99920638	55349922	6697	60528											
DRP2	1821	broad.mit.edu	37	chrX	100494085	100494085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaggagcctcattctgagaGcaaaggtaggtggtcttctg	10	10	14	7	0	4	2	1	1	3	2	4	4	4	3	1	4	2	2	1	4	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:100494085G>A	uc004egz.2	+	6	923	c.554G>A	c.(553-555)AGC>AAC	p.S185N	DRP2_uc011mrh.1_Missense_Mutation_p.S107N	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	185					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						CATTCTGAGAGCAAAGGTAGG	0.502													75	19					0	0	1	0	0		A	100494085	A	A	100494085	3	1	89	1	0	0	0	0	1	0	0	0	4770	971	34	2	568	2	DRP2	23	100494085	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	573447	100494085	54776475	6698	60529											
NXF5	55998	broad.mit.edu	37	chrX	101096040	101096040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcagccatgcagtttcttCgattcaggattatatcaatg	10	14	9	8	1	3	0	2	0	1	0	4	2	3	1	1	2	2	3	1	2	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:101096040C>T	uc011mrk.1	-	8	788	c.428G>A	c.(427-429)CGA>CAA	p.R143Q	NXF5_uc004eih.1_RNA|NXF5_uc004eii.1_RNA|NXF5_uc004eij.1_RNA|NXF5_uc004eik.1_RNA|NXF5_uc004eil.1_RNA	NM_032946	NP_116564	Q9H1B4	NXF5_HUMAN	nuclear RNA export factor 5	143					mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nucleus	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						GCAGTTTCTTCGATTCAGGAT	0.522													106	39					0	0	1	0	0		T	101096040	T	T	101096040	3	4	89	1	0	0	0	0	1	0	0	0	10805	884	31	1	705	1	NXF5	23	101096040	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	601955	101096040	54174520	6699	60530											
TCEAL2	140597	broad.mit.edu	37	chrX	101381919	101381919	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgtattctggaagacaaGaagttagaaaacgagggaaa	17	8	12	4	1	1	3	0	0	1	3	1	6	1	5	0	2	1	3	0	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:101381919G>T	uc004eip.2	+	3	336	c.117G>T	c.(115-117)AAG>AAT	p.K39N		NM_080390	NP_525129	Q9H3H9	TCAL2_HUMAN	transcription elongation factor A (SII)-like 2	39					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						TGGAAGACAAGAAGTTAGAAA	0.373													35	15					9.8876e-21	1.16882e-20	1	1	0		T	101381919	T	T	101381919	3	4	89	1	0	0	0	0	1	0	0	0	15696	933	33	5	119	5	TCEAL2	23	101381919	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	285879	101381919	53888641	6700	60531											
TCEAL6	158931	broad.mit.edu	37	chrX	101396254	101396254	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctctacttcatcttctggcTttccctcgttttccaggttt	3	19	6	13	1	4	0	1	0	3	0	7	0	6	0	2	2	1	4	2	2	1	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:101396254T>G	uc004eiq.2	-	3	211	c.50A>C	c.(49-51)AAG>ACG	p.K17T		NM_001006938	NP_001006939	Q6IPX3	TCAL6_HUMAN	transcription elongation factor A (SII)-like 6	17	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						atcttctggctttccctcGTT	0.204													41	10					0	0	1	0	0		G	101396254	G	G	101396254	3	3	89	1	0	0	0	0	1	0	0	0	15700	1609	56	5	505	5	TCEAL6	23	101396254	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	14335	101396254	53874306	6701	60532											
GPRASP1	9737	broad.mit.edu	37	chrX	101911263	101911263	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggctagcagctgagaaaGaaggtattgttgggtcctgg	11	9	15	6	0	0	2	0	1	0	2	1	3	1	2	1	4	2	5	1	4	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:101911263G>T	uc004ejj.3	+	5	3223	c.2422G>T	c.(2422-2424)GAA>TAA	p.E808*	GPRASP1_uc004eji.3_Nonsense_Mutation_p.E808*|GPRASP1_uc010nod.2_Nonsense_Mutation_p.E808*	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	808	Glu-rich.					cytoplasm	protein binding			ovary(1)|lung(1)	2						AGCTGAGAAAGAAGGTATTGT	0.507													118	35					9.44819e-66	1.17879e-65	1	1	0		T	101911263	T	T	101911263	4	4	89	1	0	0	0	0	0	1	0	0	6738	943	33	5	2424	5	GPRASP1	23	101911263	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	515009	101911263	53359297	6702	60533											
BHLHB9	80823	broad.mit.edu	37	chrX	102005180	102005180	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcatttcctttgaactcAccgggacagcaatctggatt	10	13	8	10	1	3	1	2	1	1	0	4	3	4	3	2	2	2	1	2	2	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:102005180A>G	uc010nog.2	+	4	1828	c.1257A>G	c.(1255-1257)TCA>TCG	p.S419S	BHLHB9_uc011mrq.1_Silent_p.S419S|BHLHB9_uc011mrr.1_Silent_p.S419S|BHLHB9_uc011mrs.1_Silent_p.S419S|BHLHB9_uc011mrt.1_Silent_p.S419S|BHLHB9_uc004ejo.2_Silent_p.S419S|BHLHB9_uc011mru.1_Silent_p.S419S|BHLHB9_uc011mrv.1_Silent_p.S419S	NM_001142526	NP_001135998	Q6PI77	BHLH9_HUMAN	basic helix-loop-helix domain containing, class	419						cytoplasm|nucleus	binding			ovary(2)	2						CTTTGAACTCACCGGGACAGC	0.373													92	16					0	0	1	0	0		G	102005180	G	G	102005180	2	3	89	1	0	0	0	0	0	0	0	1	1421	146	6	3		3	BHLHB9	23	102005180	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	93917	102005180	53265380	6703	60534											
TCEAL1	9338	broad.mit.edu	37	chrX	102885266	102885266	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagagatgaaaagagtaaGaaacaaactgatgataatgc	22	6	10	3	0	0	7	0	3	0	4	0	8	0	7	0	0	3	1	0	0	7	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:102885266G>T	uc004eks.2	+	3	596	c.422G>T	c.(421-423)AGA>ATA	p.R141I	TCEAL1_uc004ekt.2_Missense_Mutation_p.R141I|TCEAL1_uc004eku.2_Missense_Mutation_p.R141I	NM_001006640	NP_001006641	Q15170	TCAL1_HUMAN	transcription elongation factor A (SII)-like 1	139					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						AAAAGAGTAAGAAACAAACTG	0.303													33	11					1.56442e-22	1.86546e-22	1	1	0		T	102885266	T	T	102885266	3	4	89	1	0	0	0	0	1	0	0	0	15695	942	33	5	424	5	TCEAL1	23	102885266	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	880086	102885266	52385294	6704	60535											
GLRA4	441509	broad.mit.edu	37	chrX	102962423	102962423	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggaaatagaaacgacttTcttggatgatatcttcctcc	12	12	7	10	2	2	2	0	1	2	1	4	5	4	4	2	2	1	0	2	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:102962423T>C	uc011mse.1	-	9	1524	c.1103A>G	c.(1102-1104)GAA>GGA	p.E368G		NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	368	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						GAAACGACTTTCTTGGATGAT	0.478													28	48					0	0	1	0	0		C	102962423	C	C	102962423	3	2	89	1	0	0	0	0	1	0	0	0	6472	1783	62	3	153	3	GLRA4	23	102962423	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	77157	102962423	52308137	6705	60536											
ZCCHC18	644353	broad.mit.edu	37	chrX	103359829	103359829	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atattcgtagagccaggaagCgaaaatacacaacccgctgt	15	7	9	10	3	0	1	0	0	0	1	1	3	0	2	2	1	4	2	2	1	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:103359829C>T	uc011msh.1	+	3	2343	c.1027C>T	c.(1027-1029)CGA>TGA	p.R343*	MCART6_uc004elu.2_Intron|ZCCHC18_uc011msg.1_Intron	NM_001143978	NP_001137450	P0CG32	ZCC18_HUMAN	zinc finger, CCHC domain containing 18	343							nucleic acid binding|zinc ion binding				0						AGCCAGGAAGCGAAAATACAC	0.468													16	4					0	0	1	0	0		T	103359829	T	T	103359829	4	4	89	1	0	0	0	0	0	1	0	0	17611	760	27	1	1029	1	ZCCHC18	23	103359829	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	397406	103359829	51910731	6706	60537											
IL1RAPL2	26280	broad.mit.edu	37	chrX	105011054	105011054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agacggggatggagtattttCgaactggaaagcagactcca	13	8	13	7	2	0	2	0	0	0	2	2	6	1	5	1	4	2	2	1	4	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:105011054C>T	uc004elz.1	+	11	2217	c.1461C>T	c.(1459-1461)TTC>TTT	p.F487F		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	487	Cytoplasmic (Potential).|TIR.				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						GGAGTATTTTCGAACTGGAAA	0.388													97	27					0	0	1	0	0		T	105011054	T	T	105011054	2	4	89	1	0	0	0	0	0	0	0	1	7678	883	31	1		1	IL1RAPL2	23	105011054	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1651225	105011054	50259506	6707	60538											
MUM1L1	139221	broad.mit.edu	37	chrX	105449594	105449594	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacagcacagaaacaaagAtcctaaataaatctcaaatt	20	8	5	8	0	1	2	1	0	1	2	3	3	2	3	1	1	2	1	1	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:105449594A>G	uc004emf.1	+	4	818	c.169A>G	c.(169-171)ATC>GTC	p.I57V	MUM1L1_uc004emg.1_Missense_Mutation_p.I57V	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	57										ovary(2)|pancreas(1)|skin(1)	4						AGAAACAAAGATCCTAAATAA	0.378													16	0					0	0	1	0	0		G	105449594	G	G	105449594	3	3	89	1	0	0	0	0	1	0	0	0	10004	333	12	3	171	3	MUM1L1	23	105449594	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	438540	105449594	49820966	6708	60539											
IRS4	8471	broad.mit.edu	37	chrX	107976445	107976445	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggtcgaccacatagattcGacctgtttcagcatcatagc	10	11	9	11	2	2	1	2	0	0	1	4	3	2	1	2	1	2	2	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:107976445G>A	uc004eoc.2	-	1	3163	c.3130C>T	c.(3130-3132)CGA>TGA	p.R1044*		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	1044						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						ACATAGATTCGACCTGTTTCA	0.488													103	20					0	0	1	0	0		A	107976445	A	A	107976445	4	1	89	1	0	0	0	0	0	1	0	0	7858	1066	37	1	647	1	IRS4	23	107976445	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2526851	107976445	47294115	6709	60540											
IRS4	8471	broad.mit.edu	37	chrX	107978696	107978696	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacctgcctacttccaaGaagaaatactgctccgagtg	11	9	10	11	1	0	2	0	0	0	2	2	4	2	3	4	1	4	1	4	1	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:107978696G>T	uc004eoc.2	-	1	912	c.879C>A	c.(877-879)TTC>TTA	p.F293L		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	293	IRS-type PTB.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						CTACTTCCAAGAAGAAATACT	0.557													113	38					7.8952e-62	9.84436e-62	1	1	0		T	107978696	T	T	107978696	3	4	89	1	0	0	0	0	1	0	0	0	7858	933	33	5	2898	5	IRS4	23	107978696	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2251	107978696	47291864	6710	60541											
GUCY2F	2986	broad.mit.edu	37	chrX	108638569	108638569	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gataagattcagagtccttaCctggttaaatatttcatcaa	14	14	6	7	0	3	2	3	0	0	2	4	3	4	2	2	1	1	1	2	1	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:108638569C>T	uc004eod.3	-	12	2700	c.2424_splice	c.e12+1	p.Q808_splice	GUCY2F_uc011msq.1_Splice_Site	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor						intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						AGAGTCCTTACCTGGTTAAAT	0.488													41	25					0	0	1	0	0		T	108638569	T	T	108638569	5	4	89	1	0	0	0	0	0	0	1	0	6914	521	18	4	933	4	GUCY2F	23	108638569	Splice_Site	SNP	C	TCGA-BR-8680-01A-11D-2394-08	659873	108638569	46631991	6711	60542											
GUCY2F	2986	broad.mit.edu	37	chrX	108638641	108638641	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgcttcatcagctggaGacattctggaggggcatgct	8	10	13	10	0	3	1	2	0	1	1	3	3	3	2	0	4	3	5	0	4	0	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:108638641G>T	uc004eod.3	-	12	2629	c.2353C>A	c.(2353-2355)CTC>ATC	p.L785I	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	785	Protein kinase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						ATCAGCTGGAGACATTCTGGA	0.468													130	32					2.22808e-73	2.78238e-73	1	1	0		T	108638641	T	T	108638641	3	4	89	1	0	0	0	0	1	0	0	0	6914	942	33	5	1005	5	GUCY2F	23	108638641	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	72	108638641	46631919	6712	60543											
RGAG1	57529	broad.mit.edu	37	chrX	109696171	109696171	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccactaatgagaacctcaGaccctggagagaggccctca	13	5	9	14	0	2	3	2	1	0	3	2	6	2	4	4	2	1	0	4	2	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:109696171G>T	uc004eor.1	+	3	2572	c.2326G>T	c.(2326-2328)GAC>TAC	p.D776Y	RGAG1_uc011msr.1_Missense_Mutation_p.D776Y	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	776										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GAGAACCTCAGACCCTGGAGA	0.527													100	17					2.60644e-64	3.2514e-64	1	1	0		T	109696171	T	T	109696171	3	4	89	1	0	0	0	0	1	0	0	0	13299	942	33	5	2328	5	RGAG1	23	109696171	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1057530	109696171	45574389	6713	60544											
PAK3	5063	broad.mit.edu	37	chrX	110385348	110385348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagaagaaggagaaagagcGcccagagatctctcttcctt	14	8	10	9	1	2	5	0	0	2	5	4	7	3	5	2	1	1	0	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:110385348G>A	uc004epa.2	+	2	227	c.200G>A	c.(199-201)CGC>CAC	p.R67H	PAK3_uc010npt.1_Missense_Mutation_p.R67H|PAK3_uc010npu.1_Missense_Mutation_p.R67H|PAK3_uc004eoy.1_5'UTR|PAK3_uc004eoz.2_Missense_Mutation_p.R67H|PAK3_uc011mst.1_RNA|PAK3_uc010npv.1_Missense_Mutation_p.R67H|PAK3_uc010npw.1_Missense_Mutation_p.R67H	NM_001128173	NP_001121645	O75914	PAK3_HUMAN	p21-activated kinase 3 isoform d	67	Autoregulatory region (By similarity).|GTPase-binding (By similarity).		R -> C (in MRX30).		multicellular organismal development		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding			lung(6)|ovary(3)|large_intestine(1)	10						GAGAAAGAGCGCCCAGAGATC	0.403										TSP Lung(19;0.15)			100	30					0	0	1	0	0		A	110385348	A	A	110385348	3	1	89	1	0	0	0	0	1	0	0	0	11421	1087	38	1	206	1	PAK3	23	110385348	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	689177	110385348	44885212	6714	60545											
PAK3	5063	broad.mit.edu	37	chrX	110406810	110406810	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctatactcgttctgtggtTgaatccattgcttcaccagc	8	15	7	11	1	3	1	1	1	2	0	5	1	4	1	2	1	3	3	2	1	3	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:110406810T>G	uc004epa.2	+	7	693	c.666T>G	c.(664-666)GTT>GTG	p.V222V	PAK3_uc010npt.1_Silent_p.V207V|PAK3_uc010npu.1_Silent_p.V207V|PAK3_uc004eoy.1_5'UTR|PAK3_uc004eoz.2_Silent_p.V207V|PAK3_uc011mst.1_RNA|PAK3_uc010npv.1_Silent_p.V243V|PAK3_uc010npw.1_Silent_p.V228V	NM_001128173	NP_001121645	O75914	PAK3_HUMAN	p21-activated kinase 3 isoform d	222	Linker.				multicellular organismal development		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding			lung(6)|ovary(3)|large_intestine(1)	10						GTTCTGTGGTTGAATCCATTG	0.403										TSP Lung(19;0.15)			87	34					0	0	1	0	0		G	110406810	G	G	110406810	2	3	89	1	0	0	0	0	0	0	0	1	11421	1799	63	5		5	PAK3	23	110406810	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	21462	110406810	44863750	6715	60546											
ALG13	79868	broad.mit.edu	37	chrX	110928252	110928252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactcgtagtggttataaacGaaaagttgatgaacaatcat	16	11	8	6	2	1	2	1	2	0	0	2	3	1	2	0	1	2	3	0	1	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:110928252G>A	uc011msy.1	+	3	338	c.304G>A	c.(304-306)GAA>AAA	p.E102K	ALG13_uc004epi.1_Missense_Mutation_p.E102K|ALG13_uc011msw.1_Missense_Mutation_p.E24K|ALG13_uc011msx.1_5'UTR|ALG13_uc011msz.1_Missense_Mutation_p.E24K|ALG13_uc011mta.1_5'UTR|ALG13_uc011mtb.1_5'UTR			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	102					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						GGTTATAAACGAAAAGTTGAT	0.383													286	67					0	0	1	0	0		A	110928252	A	A	110928252	3	1	89	1	0	0	0	0	1	0	0	0	515	1059	37	1	314	1	ALG13	23	110928252	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	521442	110928252	44342308	6716	60547											
ALG13	79868	broad.mit.edu	37	chrX	110988113	110988113	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttattcctgtgatccaagCggcagtgatttgcctcaagg	8	12	10	11	1	1	2	1	2	0	0	3	2	3	2	4	2	2	1	4	2	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:110988113C>T	uc011msy.1	+	24	2947	c.2913C>T	c.(2911-2913)AGC>AGT	p.S971S	ALG13_uc011msx.1_Intron|ALG13_uc011msz.1_Silent_p.S893S|ALG13_uc011mta.1_Intron|ALG13_uc011mtb.1_Intron			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	971					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						GTGATCCAAGCGGCAGTGATT	0.284													20	9					0	0	1	0	0		T	110988113	T	T	110988113	2	4	89	1	0	0	0	0	0	0	0	1	515	767	27	1		1	ALG13	23	110988113	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	59861	110988113	44282447	6717	60548											
TRPC5	7224	broad.mit.edu	37	chrX	111155848	111155848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtcgggagcgagagtggcGcaggctgtctacctctgaac	8	7	15	11	3	2	2	0	1	2	1	3	4	2	3	1	3	3	2	1	3	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:111155848G>A	uc004epl.1	-	3	1490	c.571C>T	c.(571-573)CGC>TGC	p.R191C	TRPC5_uc004epm.1_Missense_Mutation_p.R191C	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	191	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						CGAGAGTGGCGCAGGCTGTCT	0.547													102	23					0	0	1	0	0		A	111155848	A	A	111155848	3	1	89	1	0	0	0	0	1	0	0	0	16608	1087	38	1	2386	1	TRPC5	23	111155848	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	167735	111155848	44114712	6718	60549											
HTR2C	3358	broad.mit.edu	37	chrX	114082759	114082759	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgctattgtttgggcaatTtctataggtaaataaaactt	13	17	7	4	0	1	0	0	0	1	0	1	0	1	0	0	2	2	4	0	2	8	10			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:114082759T>G	uc004epu.1	+	5	1271	c.543T>G	c.(541-543)ATT>ATG	p.I181M	HTR2C_uc010nqc.1_Missense_Mutation_p.I181M|HTR2C_uc004epv.1_Intron	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	181	Helical; Name=4; (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	TTTGGGCAATTTCTATAGGTA	0.408													49	16					0	0	1	0	0		G	114082759	G	G	114082759	3	3	89	1	0	0	0	0	1	0	0	0	7459	1829	64	5	553	5	HTR2C	23	114082759	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2926911	114082759	41187801	6719	60550											
LRCH2	57631	broad.mit.edu	37	chrX	114357648	114357648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaatctgacttacgttgcGaagttgtcgtatttgctctc	8	15	9	9	3	2	1	0	1	2	0	4	2	2	1	0	0	4	5	0	0	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:114357648G>A	uc010nqe.2	-	18	1988	c.1957C>T	c.(1957-1959)CGC>TGC	p.R653C	LRCH2_uc004epz.2_Missense_Mutation_p.R636C	NM_020871	NP_065922	Q5VUJ6	LRCH2_HUMAN	leucine-rich repeats and calponin homology (CH)	653	CH.									ovary(1)	1						CTTACGTTGCGAAGTTGTCGT	0.413													28	3					0	0	1	0	0		A	114357648	A	A	114357648	3	1	89	1	0	0	0	0	1	0	0	0	8951	1058	37	1	356	1	LRCH2	23	114357648	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	274889	114357648	40912912	6720	60551											
AGTR2	186	broad.mit.edu	37	chrX	115304594	115304594	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgccggaaaagcagttCtcttagagaaatggagacct	12	10	11	8	1	2	2	0	0	2	2	3	5	2	3	2	2	2	2	2	2	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:115304594C>A	uc004eqh.3	+	3	1268	c.1061C>A	c.(1060-1062)TCT>TAT	p.S354Y		NM_000686	NP_000677	P50052	AGTR2_HUMAN	angiotensin II receptor, type 2	354	Cytoplasmic (Potential).				behavior|blood vessel remodeling|brain development|G-protein signaling, coupled to cGMP nucleotide second messenger|intracellular protein kinase cascade|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of heart rate|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of nitric-oxide synthase activity|positive regulation of phosphoprotein phosphatase activity|positive regulation of vasodilation|regulation of systemic arterial blood pressure by circulatory renin-angiotensin		angiotensin type II receptor activity|receptor antagonist activity			ovary(2)|lung(1)	3						AAAAGCAGTTCTCTTAGAGAA	0.428													94	24					1.45855e-51	1.81476e-51	1	1	0		A	115304594	A	A	115304594	3	1	89	1	0	0	0	0	1	0	0	0	402	913	32	5	1063	5	AGTR2	23	115304594	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	946946	115304594	39965966	6721	60552											
DOCK11	139818	broad.mit.edu	37	chrX	117805097	117805097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccaatttatgagaaacgtCgtgagtttgaggtaggcaat	12	13	11	5	2	0	3	0	3	0	1	2	4	1	3	1	2	1	3	1	2	5	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:117805097C>T	uc004eqp.2	+	46	5251	c.5188C>T	c.(5188-5190)CGT>TGT	p.R1730C	DOCK11_uc004eqq.2_Missense_Mutation_p.R1509C	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1730	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						TGAGAAACGTCGTGAGTTTGA	0.338													63	19					0	0	1	0	0		T	117805097	T	T	117805097	3	4	89	1	0	0	0	0	1	0	0	0	4692	884	31	1	5370	1	DOCK11	23	117805097	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2500503	117805097	37465463	6722	60553											
KIAA1210	57481	broad.mit.edu	37	chrX	118230472	118230472	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacaatcacttgaaggttCttcttttgtttgcggggatt	7	18	9	7	1	3	1	1	1	2	0	3	2	3	2	0	3	2	2	0	3	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:118230472C>A	uc004era.3	-	8	1251	c.1251G>T	c.(1249-1251)AAG>AAT	p.K417N		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	417										ovary(4)|skin(1)	5						CTTGAAGGTTCTTCTTTTGTT	0.453													40	13					2.59497e-14	2.9277e-14	1	1	0		A	118230472	A	A	118230472	3	1	89	1	0	0	0	0	1	0	0	0	8230	912	32	5	3906	5	KIAA1210	23	118230472	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	425375	118230472	37040088	6723	60554											
CUL4B	8450	broad.mit.edu	37	chrX	119673163	119673163	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcataattttatccaacatTttctcaagttcttcatctgt	11	19	2	9	0	5	0	3	0	3	0	7	0	6	0	1	0	1	1	1	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:119673163T>G	uc004esw.2	-	14	2192	c.1755A>C	c.(1753-1755)AAA>AAC	p.K585N	CUL4B_uc010nqq.2_Missense_Mutation_p.K284N|CUL4B_uc004esv.2_Missense_Mutation_p.K567N	NM_003588	NP_003579	Q13620	CUL4B_HUMAN	cullin 4B isoform 1	585					cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3						TATCCAACATTTTCTCAAGTT	0.294													15	4					0	0	1	0	0		G	119673163	G	G	119673163	3	3	89	1	0	0	0	0	1	0	0	0	4061	1838	64	5	1022	5	CUL4B	23	119673163	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	1442691	119673163	35597397	6724	60555											
CUL4B	8450	broad.mit.edu	37	chrX	119694325	119694325	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaggtggaatcaaagtCttctctctcgttactactgt	10	13	10	8	1	4	1	1	0	3	1	6	3	4	3	0	3	2	1	0	3	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:119694325C>A	uc004esw.2	-	3	660	c.223G>T	c.(223-225)GAC>TAC	p.D75Y	CUL4B_uc004esv.2_Missense_Mutation_p.D57Y	NM_003588	NP_003579	Q13620	CUL4B_HUMAN	cullin 4B isoform 1	75	Ser-rich.				cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3						GAATCAAAGTCTTCTCTCTCG	0.443													45	20					5.44703e-19	6.38644e-19	1	1	0		A	119694325	A	A	119694325	3	1	89	1	0	0	0	0	1	0	0	0	4061	913	32	5	2598	5	CUL4B	23	119694325	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	21162	119694325	35576235	6725	60556											
C1GALT1C1	29071	broad.mit.edu	37	chrX	119760099	119760099	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccatttggaggtaagaaaAccaatgcatcattgaaaata	19	9	7	6	0	1	2	1	1	0	1	1	3	1	3	2	2	3	2	2	2	8	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:119760099A>G	uc004esy.2	-	3	1270	c.923T>C	c.(922-924)GTT>GCT	p.V308A	C1GALT1C1_uc004esz.2_Missense_Mutation_p.V308A	NM_152692	NP_689905	Q96EU7	C1GLC_HUMAN	C1GALT1-specific chaperone 1	308	Lumenal (Potential).					integral to membrane					0						AGGTAAGAAAACCAATGCATC	0.388													106	22					0	0	1	0	0		G	119760099	G	G	119760099	3	3	89	1	0	0	0	0	1	0	0	0	1956	43	2	3	37	3	C1GALT1C1	23	119760099	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	65774	119760099	35510461	6726	60557											
XIAP	331	broad.mit.edu	37	chrX	123020225	123020225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggccggaatcttaatattcGaagtgaatctgatgctgtga	11	12	12	6	2	2	3	0	3	2	0	3	5	2	4	1	2	1	1	1	2	5	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:123020225G>A	uc010nqu.2	+	2	839	c.713G>A	c.(712-714)CGA>CAA	p.R238Q	XIAP_uc004etx.2_Missense_Mutation_p.R238Q|XIAP_uc010nqv.2_Intron	NM_001167	NP_001158	P98170	XIAP_HUMAN	baculoviral IAP repeat-containing protein 4	238					anti-apoptosis|apoptosis|induction of apoptosis by intracellular signals|response to DNA damage stimulus	cytosol	caspase inhibitor activity|ligase activity|protein binding|zinc ion binding			ovary(1)|lung(1)	2						CTTAATATTCGAAGTGAATCT	0.408									X-linked_Lymphoproliferative_syndrome				108	24					0	0	1	0	0		A	123020225	A	A	123020225	3	1	89	1	0	0	0	0	1	0	0	0	17454	1058	37	1	715	1	XIAP	23	123020225	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	3260126	123020225	32250335	6727	60558											
STAG2	10735	broad.mit.edu	37	chrX	123171427	123171427	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcatgaccgagatatagcActtcttgaccttatcaactt	13	12	6	10	1	2	3	1	2	1	1	2	4	2	3	2	0	3	2	2	0	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:123171427A>C	uc004etz.3	+	5	678	c.339A>C	c.(337-339)GCA>GCC	p.A113A	STAG2_uc004eua.2_Silent_p.A113A|STAG2_uc004eub.2_Silent_p.A113A|STAG2_uc004euc.2_Silent_p.A113A|STAG2_uc004eud.2_Silent_p.A113A|STAG2_uc004eue.2_Silent_p.A113A	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	113					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						GAGATATAGCACTTCTTGACC	0.343													112	25					0	0	1	0	0		C	123171427	C	C	123171427	2	2	89	1	0	0	0	0	0	0	0	1	15268	146	6	5		5	STAG2	23	123171427	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	151202	123171427	32099133	6728	60559											
STAG2	10735	broad.mit.edu	37	chrX	123202434	123202434	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggacttgctgcgtttaaaGaaacaaatgagagtattttg	14	12	11	4	1	0	2	0	1	0	2	0	5	0	3	0	1	3	3	0	1	5	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:123202434G>A	uc004etz.3	+	23	2625	c.2286G>A	c.(2284-2286)AAG>AAA	p.K762K	STAG2_uc004eua.2_Silent_p.K762K|STAG2_uc004eub.2_Silent_p.K762K|STAG2_uc004euc.2_Silent_p.K762K|STAG2_uc004eud.2_Silent_p.K762K|STAG2_uc004eue.2_Silent_p.K762K	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	762					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						TGCGTTTAAAGAAACAAATGA	0.274													66	14					0	0	1	0	0		A	123202434	A	A	123202434	2	1	89	1	0	0	0	0	0	0	0	1	15268	933	33	4		4	STAG2	23	123202434	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	31007	123202434	32068126	6729	60560											
ODZ1	10178	broad.mit.edu	37	chrX	123517913	123517913	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagcttgtgtggttgtacaAatgagtaactcttatggggt	9	14	13	5	1	1	1	0	1	1	0	1	2	1	1	0	3	3	4	0	3	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:123517913A>C	uc004euj.2	-	29	6911	c.6847T>G	c.(6847-6849)TTG>GTG	p.L2283V	ODZ1_uc011muj.1_Missense_Mutation_p.L2289V|ODZ1_uc010nqy.2_Missense_Mutation_p.L2290V	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2283	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TGGTTGTACAAATGAGTAACT	0.458													173	48					0	0	1	0	0		C	123517913	C	C	123517913	3	2	89	1	0	0	0	0	1	0	0	0	10853	11	1	5	1342	5	ODZ1	23	123517913	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	315479	123517913	31752647	6730	60561											
ODZ1	10178	broad.mit.edu	37	chrX	123538903	123538903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagcctcctttcaaaagccGaaacattgcctttgttttgc	9	14	6	12	1	2	0	2	0	0	0	3	1	3	0	4	0	5	1	4	0	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:123538903G>A	uc004euj.2	-	26	5412	c.5348C>T	c.(5347-5349)TCG>TTG	p.S1783L	ODZ1_uc011muj.1_Missense_Mutation_p.S1789L|ODZ1_uc010nqy.2_Missense_Mutation_p.S1790L	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1783	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TTCAAAAGCCGAAACATTGCC	0.388													95	27					0	0	1	0	0		A	123538903	A	A	123538903	3	1	89	1	0	0	0	0	1	0	0	0	10853	1059	37	1	2853	1	ODZ1	23	123538903	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	20990	123538903	31731657	6731	60562											
ODZ1	10178	broad.mit.edu	37	chrX	123657246	123657246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aacaatagttcccctctctgGacaggaccctccaaatgatg	12	9	7	13	0	1	1	0	1	1	0	4	3	3	3	4	2	1	1	4	2	4	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:123657246G>A	uc004euj.2	-	17	3065	c.3001C>T	c.(3001-3003)CCA>TCA	p.P1001S	ODZ1_uc011muj.1_Missense_Mutation_p.P1000S|ODZ1_uc010nqy.2_Missense_Mutation_p.P1001S	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1001	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CCCCTCTCTGGACAGGACCCT	0.443													77	15					0	0	1	0	0		A	123657246	A	A	123657246	3	1	89	1	0	0	0	0	1	0	0	0	10853	1174	41	4	5261	4	ODZ1	23	123657246	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	118343	123657246	31613314	6732	60563											
ODZ1	10178	broad.mit.edu	37	chrX	123870961	123870961	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgctgcagggggtggctTcctggcacaggtgcaggcat	5	8	17	11	1	0	0	0	0	0	0	2	0	2	0	2	6	2	6	2	6	0	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:123870961T>G	uc004euj.2	-	4	686	c.622A>C	c.(622-624)AAG>CAG	p.K208Q	ODZ1_uc011muj.1_Missense_Mutation_p.K208Q|ODZ1_uc010nqy.2_Missense_Mutation_p.K208Q	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	208	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GGGGGTGGCTTCCTGGCACAG	0.622													84	16					0	0	1	0	0		G	123870961	G	G	123870961	3	3	89	1	0	0	0	0	1	0	0	0	10853	1792	62	5	7692	5	ODZ1	23	123870961	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	213715	123870961	31399599	6733	60564											
ACTRT1	139741	broad.mit.edu	37	chrX	127186142	127186142	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagagtcctgaaccattgTcaaaaattacagcaggaaca	16	8	8	9	0	1	2	1	1	0	1	2	3	2	3	2	1	5	2	2	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:127186142T>C	uc004eum.2	-	1	241	c.44A>G	c.(43-45)GAC>GGC	p.D15G		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	15						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						TGAACCATTGTCAAAAATTAC	0.433													83	26					0	0	1	0	0		C	127186142	C	C	127186142	3	2	89	1	0	0	0	0	1	0	0	0	218	1667	58	3	1090	3	ACTRT1	23	127186142	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	3315181	127186142	28084418	6734	60565											
SMARCA1	6594	broad.mit.edu	37	chrX	128599549	128599549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctaaactggggagcatttCgtacacactgtcttaattct	11	14	7	9	1	3	0	0	0	3	0	4	1	3	1	0	2	3	2	0	2	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:128599549C>T	uc004eun.3	-	23	3091	c.2978G>A	c.(2977-2979)CGA>CAA	p.R993Q	SMARCA1_uc004eup.3_Missense_Mutation_p.R981Q|SMARCA1_uc011muk.1_Missense_Mutation_p.R993Q|SMARCA1_uc011mul.1_Missense_Mutation_p.R981Q	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	993	SANT 2.				ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						GGGAGCATTTCGTACACACTG	0.338													122	33					0	0	1	0	0		T	128599549	T	T	128599549	3	4	89	1	0	0	0	0	1	0	0	0	14793	884	31	1	194	1	SMARCA1	23	128599549	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1413407	128599549	26671011	6735	60566											
SMARCA1	6594	broad.mit.edu	37	chrX	128599864	128599864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tactgatccttcgttgaattCttgcttctccacgttcaatt	7	18	5	11	2	3	2	1	2	2	0	6	2	4	2	2	0	2	3	2	0	3	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:128599864C>T	uc004eun.3	-	22	2887	c.2774G>A	c.(2773-2775)AGA>AAA	p.R925K	SMARCA1_uc004eup.3_Missense_Mutation_p.R913K|SMARCA1_uc011muk.1_Missense_Mutation_p.R925K|SMARCA1_uc011mul.1_Missense_Mutation_p.R913K	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	925					ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						TCGTTGAATTCTTGCTTCTCC	0.338													110	33					0	0	1	0	0		T	128599864	T	T	128599864	3	4	89	1	0	0	0	0	1	0	0	0	14793	913	32	4	402	4	SMARCA1	23	128599864	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	315	128599864	26670696	6736	60567											
SASH3	54440	broad.mit.edu	37	chrX	128926655	128926655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctgtgggcacgtggctggGcctactcaatggcaaggtgg	7	8	16	10	1	1	0	1	0	0	0	1	0	1	0	2	6	1	3	2	6	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:128926655G>A	uc011mun.1	+	6	826	c.644G>A	c.(643-645)GGC>GAC	p.G215D	SASH3_uc004euu.2_Missense_Mutation_p.G215D|SASH3_uc011muo.1_Missense_Mutation_p.G182D	NM_018990	NP_061863	O75995	SASH3_HUMAN	SAM and SH3 domain containing 3	215	SH3.									ovary(2)|pancreas(1)	3						ACGTGGCTGGGCCTACTCAAT	0.468													72	28					0	0	1	0	0		A	128926655	A	A	128926655	3	1	89	1	0	0	0	0	1	0	0	0	13874	1203	42	2	666	2	SASH3	23	128926655	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	326791	128926655	26343905	6737	60568											
USP26	83844	broad.mit.edu	37	chrX	132159805	132159805	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctcccttatcatcatttCtttttgtttccttggcttta	5	22	4	10	0	4	0	2	0	2	0	6	1	5	0	2	1	0	2	2	1	2	8			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:132159805C>A	uc010nrm.1	-	6	2914	c.2444G>T	c.(2443-2445)AGA>ATA	p.R815I	USP26_uc011mvf.1_Missense_Mutation_p.R815I	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	815					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					ATCATCATTTCTTTTTGTTTC	0.383													91	21					1.76421e-39	2.18546e-39	1	1	0		A	132159805	A	A	132159805	3	1	89	1	0	0	0	0	1	0	0	0	17083	913	32	5	300	5	USP26	23	132159805	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3233150	132159805	23110755	6738	60569											
CCDC160	347475	broad.mit.edu	37	chrX	133379644	133379644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catattatgaattagaaatgGcaaagatccgcggagagctc	15	9	10	7	2	0	4	0	1	0	3	2	5	1	4	1	2	1	2	1	2	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:133379644G>A	uc011mvj.1	+	2	1135	c.814G>A	c.(814-816)GCA>ACA	p.A272T		NM_001101357	NP_001094827	A6NGH7	CC160_HUMAN	coiled-coil domain containing 160	272	Potential.									skin(1)	1						ATTAGAAATGGCAAAGATCCG	0.378													29	3					0	0	1	0	0		A	133379644	A	A	133379644	3	1	89	1	0	0	0	0	1	0	0	0	2795	1203	42	2	816	2	CCDC160	23	133379644	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	1219839	133379644	21890916	6739	60570											
CXorf48	54967	broad.mit.edu	37	chrX	134303569	134303569	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcttccacaaccacattAactttttgtccaacttttag	10	17	2	12	0	2	0	0	0	2	0	4	0	4	0	3	0	3	0	3	0	4	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:134303569A>C	uc004eyk.1	-	2	884	c.228T>G	c.(226-228)GTT>GTG	p.V76V	CXorf48_uc004eyl.1_Silent_p.V76V	NM_001031705	NP_001026875	Q8WUE5	CX048_HUMAN	hypothetical protein LOC54967 isoform 1	76											0	Acute lymphoblastic leukemia(192;0.000127)					CAACCACATTAACTTTTTGTC	0.413													28	13					0	0	1	0	0		C	134303569	C	C	134303569	2	2	89	1	0	0	0	0	0	0	0	1	4114	349	13	5		5	CXorf48	23	134303569	Silent	SNP	A	TCGA-BR-8680-01A-11D-2394-08	923925	134303569	20966991	6740	60571											
SAGE1	55511	broad.mit.edu	37	chrX	134991090	134991090	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccccaaactgataaggtCatatcaaatgatgcaccaca	18	7	5	11	0	2	2	2	2	0	0	2	2	2	2	3	1	3	1	3	1	5	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:134991090C>A	uc004ezh.2	+	13	1676	c.1509C>A	c.(1507-1509)GTC>GTA	p.V503V	SAGE1_uc010nry.1_Silent_p.V472V|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	503										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CTGATAAGGTCATATCAAATG	0.448													90	26					2.61895e-37	3.23938e-37	1	1	0		A	134991090	A	A	134991090	2	1	89	1	0	0	0	0	0	0	0	1	13834	813	29	5		5	SAGE1	23	134991090	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	687521	134991090	20279470	6741	60572											
SAGE1	55511	broad.mit.edu	37	chrX	134993842	134993842	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagagctgataaatatgAcaggacattgtatgccaccc	14	8	8	11	0	0	3	0	2	0	1	0	4	0	4	3	1	2	2	3	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:134993842A>G	uc004ezh.2	+	18	2418	c.2251A>G	c.(2251-2253)ACA>GCA	p.T751A	SAGE1_uc010nry.1_Missense_Mutation_p.T720A|SAGE1_uc011mvv.1_Missense_Mutation_p.T375A	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	751										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GATAAATATGACAGGACATTG	0.418													167	50					0	0	1	0	0		G	134993842	G	G	134993842	3	3	89	1	0	0	0	0	1	0	0	0	13834	275	10	3	2317	3	SAGE1	23	134993842	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	2752	134993842	20276718	6742	60573											
SAGE1	55511	broad.mit.edu	37	chrX	134994097	134994097	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcaattaatgaaagaagttCgaaggtttgggcaaagtaag	17	10	11	3	1	1	2	1	1	0	1	2	3	1	2	0	2	0	4	0	2	7	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:134994097C>T	uc004ezh.2	+	18	2673	c.2506C>T	c.(2506-2508)CGA>TGA	p.R836*	SAGE1_uc010nry.1_Nonsense_Mutation_p.R805*|SAGE1_uc011mvv.1_Nonsense_Mutation_p.R460*	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	836										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GAAAGAAGTTCGAAGGTTTGG	0.353													59	23					0	0	1	0	0		T	134994097	T	T	134994097	4	4	89	1	0	0	0	0	0	1	0	0	13834	876	31	1	2572	1	SAGE1	23	134994097	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	255	134994097	20276463	6743	60574											
MAP7D3	79649	broad.mit.edu	37	chrX	135303041	135303041	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctggtaccatcttctagaAataccagcttgtgtgtcatt	9	14	9	9	0	3	1	1	0	2	1	3	1	3	1	2	2	3	3	2	2	4	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:135303041A>C	uc004ezt.2	-	16	2460	c.2369T>G	c.(2368-2370)TTT>TGT	p.F790C	MAP7D3_uc004ezs.2_Missense_Mutation_p.F754C|MAP7D3_uc011mwc.1_Missense_Mutation_p.F772C|MAP7D3_uc010nsa.1_Missense_Mutation_p.F748C	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	790						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					ATCTTCTAGAAATACCAGCTT	0.368													247	64					0	0	1	0	0		C	135303041	C	C	135303041	3	2	89	1	0	0	0	0	1	0	0	0	9287	14	1	5	273	5	MAP7D3	23	135303041	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	308944	135303041	19967519	6744	60575											
GPR112	139378	broad.mit.edu	37	chrX	135431650	135431650	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcacagcctctcagactggtCtagtatctaaagatgtcatg	11	12	8	10	0	5	2	3	0	3	2	6	2	5	2	1	1	1	1	1	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:135431650C>T	uc004ezu.1	+	6	6076	c.5785C>T	c.(5785-5787)CTA>TTA	p.L1929L	GPR112_uc010nsb.1_Silent_p.L1724L|GPR112_uc010nsc.1_Silent_p.L1696L	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1929	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TCAGACTGGTCTAGTATCTAA	0.413													132	28					0	0	1	0	0		T	135431650	T	T	135431650	2	4	89	1	0	0	0	0	0	0	0	1	6644	912	32	4		4	GPR112	23	135431650	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	128609	135431650	19838910	6745	60576											
GPR112	139378	broad.mit.edu	37	chrX	135432563	135432563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttctatctacggaagcatCgacttcgcctactgccacca	9	11	6	15	3	2	0	0	0	2	0	4	2	2	1	3	1	4	1	3	1	4	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:135432563C>T	uc004ezu.1	+	6	6989	c.6698C>T	c.(6697-6699)TCG>TTG	p.S2233L	GPR112_uc010nsb.1_Missense_Mutation_p.S2028L|GPR112_uc010nsc.1_Missense_Mutation_p.S2000L	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	2233	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					ACGGAAGCATCGACTTCGCCT	0.463													65	10					0	0	1	0	0		T	135432563	T	T	135432563	3	4	89	1	0	0	0	0	1	0	0	0	6644	893	31	1	6708	1	GPR112	23	135432563	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	913	135432563	19837997	6746	60577											
GPR112	139378	broad.mit.edu	37	chrX	135443643	135443643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcaaagctgatgaaacaGcctctaaatacaaagggacc	17	7	8	9	0	1	2	0	2	1	0	1	3	1	3	2	1	5	2	2	1	6	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:135443643G>A	uc004ezu.1	+	12	7465	c.7174G>A	c.(7174-7176)GCC>ACC	p.A2392T	GPR112_uc010nsb.1_Missense_Mutation_p.A2187T|GPR112_uc010nsc.1_Missense_Mutation_p.A2020T	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	2392	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TGATGAAACAGCCTCTAAATA	0.378													49	15					0	0	1	0	0		A	135443643	A	A	135443643	3	1	89	1	0	0	0	0	1	0	0	0	6644	971	34	2	7208	2	GPR112	23	135443643	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	11080	135443643	19826917	6747	60578											
CD40LG	959	broad.mit.edu	37	chrX	135741442	135741442	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagttccgccaaaccttgCgggcaacaatccattcactt	11	9	6	15	2	1	0	1	0	0	0	3	0	3	0	4	1	3	2	4	1	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:135741442C>T	uc004faa.2	+	5	726	c.654C>T	c.(652-654)TGC>TGT	p.C218C	CD40LG_uc010nsd.2_Silent_p.C197C	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	218	Extracellular (Potential).				anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	CCAAACCTTGCGGGCAACAAT	0.498									Immune_Deficiency_with_Hyper-IgM				213	70					0	0	1	0	0		T	135741442	T	T	135741442	2	4	89	1	0	0	0	0	0	0	0	1	3019	776	27	1		1	CD40LG	23	135741442	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	297799	135741442	19529118	6748	60579											
ARHGEF6	9459	broad.mit.edu	37	chrX	135754267	135754267	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggacttgtggaatggaatCttttcgagtacctacaaaca	13	12	9	7	1	1	0	0	0	1	0	2	4	1	3	1	3	3	1	1	3	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:135754267C>A	uc004fab.2	-	20	2509	c.2047G>T	c.(2047-2049)GAT>TAT	p.D683Y	ARHGEF6_uc011mwd.1_Missense_Mutation_p.D556Y|ARHGEF6_uc011mwe.1_Missense_Mutation_p.D529Y	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	683					apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					GGAATGGAATCTTTTCGAGTA	0.438													108	27					6.17951e-33	7.59072e-33	1	1	0		A	135754267	A	A	135754267	3	1	89	1	0	0	0	0	1	0	0	0	910	913	32	5	295	5	ARHGEF6	23	135754267	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	12825	135754267	19516293	6749	60580											
GPR101	83550	broad.mit.edu	37	chrX	136113696	136113696	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccagcactatgttgccgacGaaagaggcggcgaggaagat	12	5	15	9	4	0	2	0	0	0	2	0	6	0	3	2	3	2	2	2	3	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:136113696G>A	uc011mwh.1	-	1	138	c.138C>T	c.(136-138)TTC>TTT	p.F46F		NM_054021	NP_473362	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	46	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					TGTTGCCGACGAAAGAGGCGG	0.592													84	23					0	0	1	0	0		A	136113696	A	A	136113696	2	1	89	1	0	0	0	0	0	0	0	1	6637	1049	37	1		1	GPR101	23	136113696	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	359429	136113696	19156864	6750	60581											
MCF2	4168	broad.mit.edu	37	chrX	138689852	138689852	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaataaataaaggatacttCtttaaaacatccaagctatt	18	14	3	6	0	1	0	0	0	1	0	2	1	2	1	1	1	3	1	1	1	10	9			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:138689852C>A	uc004fau.2	-	12	1782	c.1488G>T	c.(1486-1488)AAG>AAT	p.K496N	MCF2_uc004fav.2_Missense_Mutation_p.K512N|MCF2_uc011mwl.1_Missense_Mutation_p.K473N|MCF2_uc010nsh.1_Missense_Mutation_p.K496N|MCF2_uc011mwm.1_Missense_Mutation_p.K457N|MCF2_uc011mwn.1_Missense_Mutation_p.K641N|MCF2_uc004faw.2_Missense_Mutation_p.K556N|MCF2_uc011mwo.1_Missense_Mutation_p.K572N	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	496	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					AAGGATACTTCTTTAAAACAT	0.378													10	46					3.07112e-06	3.18826e-06	1	1	0		A	138689852	A	A	138689852	3	1	89	1	0	0	0	0	1	0	0	0	9396	912	32	5	1373	5	MCF2	23	138689852	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	2576156	138689852	16580708	6751	60582											
MAGEC3	139081	broad.mit.edu	37	chrX	140967039	140967039	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagccggaggggaagtttTctctgaggagggcagtttca	8	10	16	7	1	3	1	2	1	1	0	4	4	3	4	1	5	1	3	1	5	1	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:140967039T>G	uc011mwp.1	+	3	337	c.337T>G	c.(337-339)TCT>GCT	p.S113A		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	113										skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGGGAAGTTTTCTCTGAGGAG	0.547													8	9					0	0	1	0	0		G	140967039	G	G	140967039	3	3	89	1	0	0	0	0	1	0	0	0	9200	1783	62	5	347	5	MAGEC3	23	140967039	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2277187	140967039	14303521	6752	60583											
MAGEC1	9947	broad.mit.edu	37	chrX	140996572	140996572	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgattcgactgccacaGaaagtgcaagctccagtgtc	12	8	10	11	1	0	3	0	1	0	2	3	4	1	3	2	0	3	2	2	0	2	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:140996572G>T	uc004fbt.2	+	4	3668	c.3382G>T	c.(3382-3384)GAA>TAA	p.E1128*	MAGEC1_uc010nsl.1_Nonsense_Mutation_p.E195*	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	1128							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GACTGCCACAGAAAGTGCAAG	0.493										HNSCC(15;0.026)			13	76					2.23348e-06	2.32221e-06	1	1	0		T	140996572	T	T	140996572	4	4	89	1	0	0	0	0	0	1	0	0	9198	943	33	5	3388	5	MAGEC1	23	140996572	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	29533	140996572	14273988	6753	60584											
SLITRK4	139065	broad.mit.edu	37	chrX	142718309	142718309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttccagttgcaattcaaCgacacggccaatgtgttcca	11	11	7	12	2	2	0	1	0	1	0	4	1	4	0	3	1	2	3	3	1	3	4	rs143575705		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:142718309C>T	uc004fbx.2	-	2	992	c.616G>A	c.(616-618)GTT>ATT	p.V206I	SLITRK4_uc004fby.2_Missense_Mutation_p.V206I	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	206	Extracellular (Potential).		V -> I (in a colorectal cancer sample; somatic mutation).			integral to membrane		p.V206I(1)		upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TGCAATTCAACGACACGGCCA	0.428													36	78					0	0	1	0	0		T	142718309	T	T	142718309	3	4	89	1	0	0	0	0	1	0	0	0	14770	536	19	1	1901	1	SLITRK4	23	142718309	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1721737	142718309	12552251	6754	60585											
SPANXN2	494119	broad.mit.edu	37	chrX	142795585	142795585	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgggggctaagaccctgttCggtgcctcctgcatctgata	6	12	12	11	1	1	2	0	1	1	1	3	2	2	2	3	3	2	3	3	3	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:142795585C>T	uc004fbz.2	-	2	847	c.93G>A	c.(91-93)CCG>CCA	p.P31P		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	31										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					AGACCCTGTTCGGTGCCTCCT	0.403													60	14					0	0	1	0	0		T	142795585	T	T	142795585	2	4	89	1	0	0	0	0	0	0	0	1	15016	871	31	1		1	SPANXN2	23	142795585	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	77276	142795585	12474975	6755	60586											
FMR1NB	158521	broad.mit.edu	37	chrX	147106456	147106456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagaaacaaagaaggaagcGaaagaggaagtctgaaatgt	21	4	13	3	1	1	4	0	1	1	3	1	8	1	6	0	2	2	0	0	2	8	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:147106456G>A	uc004fcm.2	+	5	778	c.704G>A	c.(703-705)CGA>CAA	p.R235Q		NM_152578	NP_689791	Q8N0W7	FMR1N_HUMAN	fragile X mental retardation 1 neighbor	235	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					AGAAGGAAGCGAAAGAGGAAG	0.418													68	22					0	0	1	0	0		A	147106456	A	A	147106456	3	1	89	1	0	0	0	0	1	0	0	0	5975	1058	37	1	722	1	FMR1NB	23	147106456	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	4310871	147106456	8164104	6756	60587											
AFF2	2334	broad.mit.edu	37	chrX	147743734	147743734	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacctgagtggtcacgtgaTagtcataaccctagcactgt	12	10	9	10	1	2	2	2	2	0	0	2	2	2	2	2	1	3	1	2	1	4	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:147743734T>C	uc004fcp.2	+	3	965	c.486T>C	c.(484-486)GAT>GAC	p.D162D	AFF2_uc004fco.2_Silent_p.D158D|AFF2_uc004fcq.2_Silent_p.D158D|AFF2_uc004fcr.2_Silent_p.D158D|AFF2_uc011mxb.1_Silent_p.D162D|AFF2_uc004fcs.2_Silent_p.D158D	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	162					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					GGTCACGTGATAGTCATAACC	0.468													166	42					0	0	1	0	0		C	147743734	C	C	147743734	2	2	89	1	0	0	0	0	0	0	0	1	357	1403	49	3		3	AFF2	23	147743734	Silent	SNP	T	TCGA-BR-8680-01A-11D-2394-08	637278	147743734	7526826	6757	60588											
AFF2	2334	broad.mit.edu	37	chrX	148038020	148038020	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttactctctagagtacctggCcacagctcactccatgcagc	9	10	7	15	0	2	1	1	0	1	1	4	1	3	1	3	1	5	3	3	1	3	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:148038020C>T	uc004fcp.2	+	11	2924	c.2445C>T	c.(2443-2445)GGC>GGT	p.G815G	AFF2_uc004fcq.2_Silent_p.G805G|AFF2_uc004fcr.2_Silent_p.G776G|AFF2_uc011mxb.1_Silent_p.G780G|AFF2_uc004fcs.2_Silent_p.G782G|AFF2_uc011mxc.1_Silent_p.G456G	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	815					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					GAGTACCTGGCCACAGCTCAC	0.527													90	22					0	0	1	0	0		T	148038020	T	T	148038020	2	4	89	1	0	0	0	0	0	0	0	1	357	726	26	2		2	AFF2	23	148038020	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	294286	148038020	7232540	6758	60589											
AFF2	2334	broad.mit.edu	37	chrX	148059926	148059926	+	Frame_Shift_Del	DEL	T	-	-																															cactcctctatttgagaatgTttaagctgaagaaggaccat																										TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:148059926delT	uc004fcp.2	+	18	3990	c.3511delT	c.(3511-3513)TTTfs	p.F1171fs	AFF2_uc004fcq.2_Frame_Shift_Del_p.F1161fs|AFF2_uc004fcr.2_Frame_Shift_Del_p.F1132fs|AFF2_uc011mxb.1_Frame_Shift_Del_p.F1136fs|AFF2_uc004fcs.2_Frame_Shift_Del_p.F1136fs|AFF2_uc011mxc.1_Frame_Shift_Del_p.F812fs	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	1171					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					TTTGAGAATGTTTAAGCTGAA	0.348													128	36	---	---	---	---						.	-	148059926	-	-	148059926	7	5	89	1	0	1	0	1	0	0	0	0	357	1725	60	0	3636	0	AFF2	23	148059926	Frame_Shift_Del	DEL	T	TCGA-BR-8680-01A-11D-2394-08	21906	148059926	7210634	6759	60590											
MAGEA11	4110	broad.mit.edu	37	chrX	148797493	148797493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catcatgcctcttgagcaaaGaagtcagcactgcaagcctg	12	8	9	12	0	3	2	2	1	1	1	3	2	3	2	2	0	5	3	2	0	3	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:148797493G>A	uc004fdq.2	+	5	449	c.347G>A	c.(346-348)AGA>AAA	p.R116K	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Missense_Mutation_p.R87K	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	116						cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CTTGAGCAAAGAAGTCAGCAC	0.602													89	17					0	0	1	0	0		A	148797493	A	A	148797493	3	1	89	1	0	0	0	0	1	0	0	0	9183	942	33	4	374	4	MAGEA11	23	148797493	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	737567	148797493	6473067	6760	60591											
PASD1	139135	broad.mit.edu	37	chrX	150840971	150840971	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggaatgagagggtgcagaTatgcctgcaaaacccacgtg	12	6	15	8	1	0	2	0	1	0	2	0	4	0	3	2	3	4	2	2	3	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:150840971T>C	uc004fev.3	+	14	2086	c.1754T>C	c.(1753-1755)ATA>ACA	p.I585T		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	585						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AGGGTGCAGATATGCCTGCAA	0.333													37	106					0	0	1	0	0		C	150840971	C	C	150840971	3	2	89	1	0	0	0	0	1	0	0	0	11490	1406	49	3	1804	3	PASD1	23	150840971	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	2043478	150840971	4429589	6761	60592											
FATE1	89885	broad.mit.edu	37	chrX	150891227	150891227	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggctgtggatgaaccAgtgatcgccccagcgcggcc	6	7	14	14	3	0	2	0	2	0	0	1	3	0	3	5	3	2	1	5	3	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:150891227A>C	uc004fex.2	+	5	632	c.548A>C	c.(547-549)CAG>CCG	p.Q183P		NM_033085	NP_149076	Q969F0	FATE1_HUMAN	fetal and adult testis expressed transcript	183						endoplasmic reticulum|integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TGGATGAACCAGTGATCGCCC	0.642													39	35					0	0	1	0	0		C	150891227	C	C	150891227	3	2	89	1	0	0	0	0	1	0	0	0	5707	188	7	5	566	5	FATE1	23	150891227	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	50256	150891227	4379333	6762	60593											
GABRQ	55879	broad.mit.edu	37	chrX	151820165	151820165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacagtcgaggacctcggCgccagcctaggcgacacagg	9	5	13	14	4	1	0	0	0	1	0	3	3	1	1	3	4	2	0	3	4	2	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:151820165C>T	uc004ffp.1	+	8	1098	c.1078C>T	c.(1078-1080)CGC>TGC	p.R360C		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	360						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AGGACCTCGGCGCCAGCCTAG	0.507													143	20					0	0	1	0	0		T	151820165	T	T	151820165	3	4	89	1	0	0	0	0	1	0	0	0	6189	768	27	1	1108	1	GABRQ	23	151820165	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	928938	151820165	3450395	6763	60594											
ATP2B3	492	broad.mit.edu	37	chrX	152815144	152815144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgacccctaagatcctcGacctcctggtccatgccatc	7	9	6	19	1	0	2	0	1	0	1	5	3	3	2	8	1	1	0	8	1	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:152815144G>A	uc004fht.1	+	9	1654	c.1528G>A	c.(1528-1530)GAC>AAC	p.D510N	ATP2B3_uc004fhs.1_Missense_Mutation_p.D510N	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	510	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TAAGATCCTCGACCTCCTGGT	0.433													75	56					0	0	1	0	0		A	152815144	A	A	152815144	3	1	89	1	0	0	0	0	1	0	0	0	1142	1058	37	1	1562	1	ATP2B3	23	152815144	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	994979	152815144	2455416	6764	60595											
ABCD1	215	broad.mit.edu	37	chrX	153001668	153001668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcaacctcctgacagcggCtgcagatgccattgagcgga	9	6	12	14	3	0	3	0	2	0	1	1	4	1	4	4	2	5	3	4	2	1	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:153001668C>T	uc004fif.2	+	3	1583	c.1184C>T	c.(1183-1185)GCT>GTT	p.A395V	ABCD1_uc004fig.2_5'Flank	NM_000033	NP_000024	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member	395					fatty acid beta-oxidation using acyl-CoA oxidase|peroxisomal membrane transport|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|identical protein binding|peroxisomal fatty-acyl-CoA transporter activity				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTGACAGCGGCTGCAGATGCC	0.602													120	23					0	0	1	0	0		T	153001668	T	T	153001668	3	4	89	1	0	0	0	0	1	0	0	0	60	797	28	2	1194	2	ABCD1	23	153001668	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	186524	153001668	2268892	6765	60596											
SRPK3	26576	broad.mit.edu	37	chrX	153046776	153046776	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctccgacgacgaggaacaGgaagaccccaaagactactg	14	3	12	12	3	0	2	0	0	0	2	1	7	1	4	3	3	2	1	3	3	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:153046776G>T	uc004fil.2	+	2	197	c.165G>T	c.(163-165)CAG>CAT	p.Q55H	SRPK3_uc004fik.2_Missense_Mutation_p.Q121H|SRPK3_uc010nul.2_Missense_Mutation_p.Q13H|SRPK3_uc004fin.2_Missense_Mutation_p.Q55H|SRPK3_uc004fim.2_Missense_Mutation_p.Q55H	NM_014370	NP_055185	Q9UPE1	SRPK3_HUMAN	serine arginine rich protein-specific kinase 3	55					cell differentiation|muscle organ development|muscle tissue development		ATP binding|protein serine/threonine kinase activity			pancreas(2)|lung(1)	3	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					ACGAGGAACAGGAAGACCCCA	0.672													10	46					3.86212e-05	3.96572e-05	1	1	0		T	153046776	T	T	153046776	3	4	89	1	0	0	0	0	1	0	0	0	15186	991	35	5	171	5	SRPK3	23	153046776	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	45108	153046776	2223784	6766	60597											
SRPK3	26576	broad.mit.edu	37	chrX	153049822	153049822	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gataagatcaagatcaagatCgcagacctgggcaacgcctg	14	6	11	10	2	2	4	2	0	0	4	3	5	2	4	2	1	1	2	2	1	4	1			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:153049822C>T	uc004fil.2	+	11	1253	c.1221C>T	c.(1219-1221)ATC>ATT	p.I407I	SRPK3_uc004fik.2_Silent_p.I473I|SRPK3_uc010nul.2_Silent_p.I331I|SRPK3_uc004fin.2_Silent_p.I406I|SRPK3_uc004fim.2_Silent_p.I373I	NM_014370	NP_055185	Q9UPE1	SRPK3_HUMAN	serine arginine rich protein-specific kinase 3	407	Protein kinase.				cell differentiation|muscle organ development|muscle tissue development		ATP binding|protein serine/threonine kinase activity			pancreas(2)|lung(1)	3	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					AGATCAAGATCGCAGACCTGG	0.612													47	8					0	0	1	0	0		T	153049822	T	T	153049822	2	4	89	1	0	0	0	0	0	0	0	1	15186	874	31	1		1	SRPK3	23	153049822	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	3046	153049822	2220738	6767	60598											
L1CAM	3897	broad.mit.edu	37	chrX	153133495	153133495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actctccaccacatccagttCggtactggccacgcagctgt	8	9	8	16	2	1	0	0	0	1	0	4	0	2	0	4	2	2	4	4	2	1	2	rs137940405		TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:153133495C>T	uc004fjb.2	-	14	1894	c.1786G>A	c.(1786-1788)GAA>AAA	p.E596K	L1CAM_uc004fjc.2_Missense_Mutation_p.E596K|L1CAM_uc010nuo.2_Missense_Mutation_p.E591K	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	596	Ig-like C2-type 6.|Extracellular (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACATCCAGTTCGGTACTGGCC	0.622													125	22					0	0	1	0	0		T	153133495	T	T	153133495	3	4	89	1	0	0	0	0	1	0	0	0	8604	893	31	1	2047	1	L1CAM	23	153133495	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	83673	153133495	2137065	6768	60599											
AVPR2	554	broad.mit.edu	37	chrX	153171980	153171980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctccacctccacaggggCgccctttgtgctactcatgt	6	11	8	16	1	1	0	1	0	0	0	4	0	4	0	5	2	2	1	5	2	1	2	rs138974323	byFrequency	TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:153171980C>T	uc004fjh.3	+	3	985	c.914C>T	c.(913-915)GCG>GTG	p.A305V	AVPR2_uc004fjg.3_Missense_Mutation_p.A94V|AVPR2_uc004fji.2_3'UTR	NM_000054	NP_000045	P30518	V2R_HUMAN	arginine vasopressin receptor 2 isoform 1	305	Extracellular (Potential).				activation of adenylate cyclase activity|excretion|G-protein signaling, coupled to cAMP nucleotide second messenger|hemostasis|positive regulation of gene expression|transmembrane transport|water transport	endoplasmic reticulum|endosome|Golgi apparatus|integral to plasma membrane	vasopressin receptor activity			breast(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Conivaptan(DB00872)|Terlipressin(DB02638)|Vasopressin(DB00067)	TCCACAGGGGCGCCCTTTGTG	0.627													201	48					0	0	1	0	0		T	153171980	T	T	153171980	3	4	89	1	0	0	0	0	1	0	0	0	1234	768	27	1	944	1	AVPR2	23	153171980	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	38485	153171980	2098580	6769	60600											
HCFC1	3054	broad.mit.edu	37	chrX	153228874	153228874	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattccaggatatataagtCattcaggtacctgacgagga	14	11	9	7	1	2	1	2	1	0	0	3	4	3	3	2	3	1	1	2	3	5	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:153228874C>A	uc004fjp.2	-	4	1042	c.514G>T	c.(514-516)GAC>TAC	p.D172Y		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	172	Kelch 3.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ATATATAAGTCATTCAGGTAC	0.557													36	27					3.03874e-20	3.58487e-20	1	1	0		A	153228874	A	A	153228874	3	1	89	1	0	0	0	0	1	0	0	0	7007	826	29	5	5685	5	HCFC1	23	153228874	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	56894	153228874	2041686	6770	60601											
OPN1LW	5956	broad.mit.edu	37	chrX	153416361	153416361	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcattgtgaaccaggtcTctggctacttcgtgctgggc	6	12	12	11	1	2	1	1	1	1	0	4	1	2	1	1	3	4	3	1	3	2	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:153416361T>G	uc004fjz.3	+	2	379	c.346T>G	c.(346-348)TCT>GCT	p.S116A		NM_020061	NP_064445	P04000	OPSR_HUMAN	opsin 1 (cone pigments), long-wave-sensitive	116	Extracellular.				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0	all_cancers(53;1.83e-16)|all_epithelial(53;2.73e-10)|all_lung(58;6.39e-07)|Lung NSC(58;8.37e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GAACCAGGTCTCTGGCTACTT	0.617													42	143					0	0	1	0	0		G	153416361	G	G	153416361	3	3	89	1	0	0	0	0	1	0	0	0	10896	1551	54	5	352	5	OPN1LW	23	153416361	Missense_Mutation	SNP	T	TCGA-BR-8680-01A-11D-2394-08	187487	153416361	1854199	6771	60602											
TKTL1	8277	broad.mit.edu	37	chrX	153549110	153549110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgtgctgcaggtgagcGtggctctgggctgtgcctcc	2	12	15	12	1	2	1	0	1	2	0	4	1	3	1	2	3	4	4	2	3	0	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:153549110G>A	uc004fkg.2	+	8	1222	c.1036G>A	c.(1036-1038)GTG>ATG	p.V346M	TKTL1_uc011mzl.1_Missense_Mutation_p.V340M|TKTL1_uc011mzm.1_Missense_Mutation_p.V142M|TKTL1_uc004fkh.2_Missense_Mutation_p.V290M	NM_012253	NP_036385	P51854	TKTL1_HUMAN	transketolase-like 1 isoform a	346					glucose catabolic process|thiamine metabolic process	cytoplasm|nucleus	metal ion binding|transketolase activity			ovary(3)|skin(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.82e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GCAGGTGAGCGTGGCTCTGGG	0.567													99	85					0	0	1	0	0		A	153549110	A	A	153549110	3	1	89	1	0	0	0	0	1	0	0	0	15960	1145	40	1	1066	1	TKTL1	23	153549110	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	132749	153549110	1721450	6772	60603											
PLXNA3	55558	broad.mit.edu	37	chrX	153693557	153693557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtgtgcagtgccagaacgCctcggtgaggtcccacccgc	7	6	13	15	3	0	2	0	1	0	1	2	2	1	2	4	2	3	1	4	2	1	0			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:153693557C>T	uc004flm.2	+	11	2413	c.2240C>T	c.(2239-2241)GCC>GTC	p.A747V		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	747	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGCCAGAACGCCTCGGTGAGG	0.652													9	17					0	0	1	0	0		T	153693557	T	T	153693557	3	4	89	1	0	0	0	0	1	0	0	0	12140	739	26	2	2278	2	PLXNA3	23	153693557	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	144447	153693557	1577003	6773	60604											
GAB3	139716	broad.mit.edu	37	chrX	153944425	153944425	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagtcttgacaatgaacacGaaattattctgaaattcctt	14	14	6	7	1	2	3	0	3	2	0	3	4	3	3	1	0	1	1	1	0	6	6			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:153944425G>A	uc004fmj.1	-	2	300	c.252C>T	c.(250-252)TTC>TTT	p.F84F	GAB3_uc004fmk.1_Silent_p.F84F|GAB3_uc010nve.1_Silent_p.F84F|GAB3_uc004fml.1_5'UTR	NM_080612	NP_542179	Q8WWW8	GAB3_HUMAN	Gab3 protein isoform 2	84	PH.									ovary(1)	1	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CAATGAACACGAAATTATTCT	0.512													233	37					0	0	1	0	0		A	153944425	A	A	153944425	2	1	89	1	0	0	0	0	0	0	0	1	6164	1049	37	1		1	GAB3	23	153944425	Silent	SNP	G	TCGA-BR-8680-01A-11D-2394-08	250868	153944425	1326135	6774	60605											
DKC1	1736	broad.mit.edu	37	chrX	153993212	153993212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacataagaagaaaaaggagCggaagtcattgccagaagaa	21	4	11	5	1	1	4	1	0	0	4	1	6	1	6	1	2	3	0	1	2	8	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:153993212C>T	uc004fmm.2	+	2	265	c.55C>T	c.(55-57)CGG>TGG	p.R19W	DKC1_uc010nvf.2_Missense_Mutation_p.R19W	NM_001363	NP_001354	O60832	DKC1_HUMAN	dyskerin isoform 1	19	Nucleolar localization.				cell proliferation|pseudouridine synthesis|rRNA processing|telomere maintenance via telomerase	Cajal body|nucleolus|telomerase holoenzyme complex	protein binding|pseudouridine synthase activity|RNA binding|telomerase activity				0	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GAAAAAGGAGCGGAAGTCATT	0.318									Congenital_Dyskeratosis				159	19					0	0	1	0	0		T	153993212	T	T	153993212	3	4	89	1	0	0	0	0	1	0	0	0	4548	759	27	1	61	1	DKC1	23	153993212	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	48787	153993212	1277348	6775	60606											
DKC1	1736	broad.mit.edu	37	chrX	153995639	153995639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagcaaaatgattgaatacGatcctgaaagaagattaggt	18	9	10	4	1	0	6	0	3	0	3	1	7	1	6	1	1	2	1	1	1	7	3			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:153995639G>A	uc004fmm.2	+	7	832	c.622G>A	c.(622-624)GAT>AAT	p.D208N	DKC1_uc010nvf.2_Missense_Mutation_p.D208N|SNORA36A_uc004fmn.2_5'Flank	NM_001363	NP_001354	O60832	DKC1_HUMAN	dyskerin isoform 1	208					cell proliferation|pseudouridine synthesis|rRNA processing|telomere maintenance via telomerase	Cajal body|nucleolus|telomerase holoenzyme complex	protein binding|pseudouridine synthase activity|RNA binding|telomerase activity				0	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GATTGAATACGATCCTGAAAG	0.443									Congenital_Dyskeratosis				74	181					0	0	1	0	0		A	153995639	A	A	153995639	3	1	89	1	0	0	0	0	1	0	0	0	4548	1058	37	1	648	1	DKC1	23	153995639	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	2427	153995639	1274921	6776	60607											
F8	2157	broad.mit.edu	37	chrX	154185408	154185408	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttatatttgaatatttCtcctggcagaattggaaaat	13	16	6	6	0	1	2	0	1	1	1	2	3	1	3	2	2	0	1	2	2	7	7			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:154185408C>A	uc004fmt.2	-	11	1747	c.1576G>T	c.(1576-1578)GAA>TAA	p.E526*		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	526	F5/8 type A 2.|Plastocyanin-like 3.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TTGAATATTTCTCCTGGCAGA	0.378													52	169					9.90819e-18	1.15148e-17	1	1	0		A	154185408	A	A	154185408	4	1	89	1	0	0	0	0	0	1	0	0	5358	922	32	5	5571	5	F8	23	154185408	Nonsense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	189769	154185408	1085152	6777	60608											
F8	2157	broad.mit.edu	37	chrX	154194944	154194944	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacagctgtctactttgAcataagcttccatgccatct	9	13	7	12	0	2	1	0	1	2	0	3	2	3	2	2	1	4	2	2	1	2	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrX:154194944A>G	uc004fmt.2	-	8	1199	c.1028T>C	c.(1027-1029)GTC>GCC	p.V343A		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	343	Plastocyanin-like 2.|F5/8 type A 1.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	GTCTACTTTGACATAAGCTTC	0.308													123	17					0	0	1	0	0		G	154194944	G	G	154194944	3	3	89	1	0	0	0	0	1	0	0	0	5358	275	10	3	6131	3	F8	23	154194944	Missense_Mutation	SNP	A	TCGA-BR-8680-01A-11D-2394-08	9536	154194944	1075616	6778	60609											
ZFY	7544	broad.mit.edu	37	chrY	2848017	2848017	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acataatgagacaccataaaGaagttggtctgccctaacag	16	8	8	9	0	1	2	0	1	1	2	1	3	1	2	2	1	2	1	2	1	5	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrY:2848017G>T	uc004fqj.2	+	8	2710	c.2389G>T	c.(2389-2391)GAA>TAA	p.E797*	ZFY_uc011nan.1_Nonsense_Mutation_p.E606*|ZFY_uc010nwe.2_Nonsense_Mutation_p.E720*	NM_003411	NP_003402	P08048	ZFY_HUMAN	zinc finger protein, Y-linked isoform 1	797					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACACCATAAAGAAGTTGGTCT	0.403													5	49					0.217242	0.217534	1	1	0		T	2848017	T	T	2848017	4	4	89	1	0	0	0	0	0	1	0	0	17687	943	33	5	2415	5	ZFY	24	2848017	Nonsense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08		2848017	56525549	6779	60610											
TGIF2LY	90655	broad.mit.edu	37	chrY	3447605	3447605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttatcaatgctcgcagacGcattctcccggatatgcttc	8	13	8	12	3	2	1	1	0	1	1	5	2	2	2	1	1	2	5	1	1	3	5			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrY:3447605G>A	uc004fqk.2	+	2	384	c.320G>A	c.(319-321)CGC>CAC	p.R107H		NM_139214	NP_631960	Q8IUE0	TF2LY_HUMAN	TGFB-induced factor homeobox 2-like, Y-linked	107	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GCTCGCAGACGCATTCTCCCG	0.498													74	31					0	0	1	0	0		A	3447605	A	A	3447605	3	1	89	1	0	0	0	0	1	0	0	0	15853	1087	38	1	322	1	TGIF2LY	24	3447605	Missense_Mutation	SNP	G	TCGA-BR-8680-01A-11D-2394-08	599588	3447605	55925961	6780	60611											
USP9Y	8287	broad.mit.edu	37	chrY	14898521	14898521	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctctgactttcaagttCacttcttgaaaagtggtggc	8	14	10	9	0	4	2	2	2	2	0	5	2	5	2	1	3	0	1	1	3	3	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrY:14898521C>A	uc004fst.1	+	24	4294	c.3349C>A	c.(3349-3351)CAC>AAC	p.H1117N	USP9Y_uc010nwu.1_RNA	NM_004654	NP_004645	O00507	USP9Y_HUMAN	ubiquitin specific protease 9, Y-linked	1117					BMP signaling pathway|protein deubiquitination|spermatogenesis|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						CTTTCAAGTTCACTTCTTGAA	0.373													41	13					2.95478e-19	3.46784e-19	1	1	0		A	14898521	A	A	14898521	3	1	89	1	0	0	0	0	1	0	0	0	17117	826	29	5	3435	5	USP9Y	24	14898521	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	11450916	14898521	44475045	6781	60612											
DDX3Y	8653	broad.mit.edu	37	chrY	15026499	15026499	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaaaactgcagcatttCttttacccatactgagtcag	11	12	8	10	0	2	1	1	1	1	0	2	2	2	2	1	1	5	2	1	1	4	4			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrY:15026499C>A	uc004fsu.1	+	9	1006	c.697C>A	c.(697-699)CTT>ATT	p.L233I	DDX3Y_uc010nwv.1_Missense_Mutation_p.L233I|DDX3Y_uc011naq.1_Missense_Mutation_p.L233I|DDX3Y_uc004fsv.2_Missense_Mutation_p.L233I|DDX3Y_uc010nww.1_Missense_Mutation_p.L49I|DDX3Y_uc011nar.1_Missense_Mutation_p.L230I	NM_001122665	NP_001116137	O15523	DDX3Y_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 3,	233	Helicase ATP-binding.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|RNA binding				0						TGCAGCATTTCTTTTACCCAT	0.348													35	24					2.87052e-16	3.29392e-16	1	1	0		A	15026499	A	A	15026499	3	1	89	1	0	0	0	0	1	0	0	0	4362	913	32	5	727	5	DDX3Y	24	15026499	Missense_Mutation	SNP	C	TCGA-BR-8680-01A-11D-2394-08	127978	15026499	44347067	6782	60613											
NLGN4Y	22829	broad.mit.edu	37	chrY	16941710	16941710	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggatattggcagacaaggtCggctgcaacatgctggacac	11	7	13	10	2	0	1	0	0	0	1	1	3	0	3	0	5	3	4	0	5	3	2			TCGA-BR-8680-01A-11D-2394-08	TCGA-BR-8680-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	97474881-be38-42b2-882b-84bbe90efc52	603fc7a3-b983-4a39-8646-d52f55141734	g.chrY:16941710C>T	uc004ftg.2	+	5	1164	c.912C>T	c.(910-912)GTC>GTT	p.V304V	NLGN4Y_uc004fte.2_Silent_p.V136V|NLGN4Y_uc011nas.1_Silent_p.V324V|NLGN4Y_uc004ftf.2_5'UTR|NLGN4Y_uc004fth.2_Silent_p.V304V	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	304	Extracellular (Potential).				brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0						CAGACAAGGTCGGCTGCAACA	0.557													33	9					0	0	1	0	0		T	16941710	T	T	16941710	2	4	89	1	0	0	0	0	0	0	0	1	10484	871	31	1		1	NLGN4Y	24	16941710	Silent	SNP	C	TCGA-BR-8680-01A-11D-2394-08	1915211	16941710	42431856	6783	60614											
LOC440563	440563	broad.mit.edu	37	chr1	13183741	13183741	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttatgaacagagcagccCgcaattttgccatacttgga	11	10	8	12	1	0	2	0	1	0	1	0	3	0	3	3	1	5	2	3	1	4	5			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr1:13183741C>T	uc010obg.1	-	1	227	c.132G>A	c.(130-132)GCG>GCA	p.A44A		NM_001136561	NP_001130033	B2RXH8	B2RXH8_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	44						ribonucleoprotein complex	nucleic acid binding|nucleotide binding				0						CAGAGCAGCCCGCAATTTTGC	0.478													11	71					0	0	0.09319	0	0		T	13183741	T	T	13183741	2	4	90	1	0	0	0	0	0	0	0	1	8897	639	23	1		1	LOC440563	1	13183741	Silent	SNP	C	TCGA-BR-8682-01A-11D-2394-08		13183741	236066880	1	60615											
CELA2A	63036	broad.mit.edu	37	chr1	15789290	15789290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctacgttgcggagtccggctCgctggcagtcagtgtctcta	5	11	13	12	4	2	0	1	0	1	0	5	1	3	1	1	3	2	4	1	3	2	3	rs146502483		TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr1:15789290C>T	uc001awk.2	+	4	316	c.290C>T	c.(289-291)TCG>TTG	p.S97L		NM_033440	NP_254275	P08217	CEL2A_HUMAN	elastase 2A preproprotein	97	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						GAGTCCGGCTCGCTGGCAGTC	0.612													14	126					0	0	0.11911	0	0		T	15789290	T	T	15789290	3	4	90	1	0	0	0	0	1	0	0	0	3214	893	31	1	304	1	CELA2A	1	15789290	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	2605549	15789290	233461331	2	60616											
C1orf123	54987	broad.mit.edu	37	chr1	53684566	53684566	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatgtactgccacttgtcCgaaatctcaccacagttgcc	9	10	8	14	2	1	0	1	0	1	0	3	2	2	1	4	1	3	2	4	1	2	3	rs148279601		TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr1:53684566C>T	uc001cvd.2	-	3	162	c.120G>A	c.(118-120)TCG>TCA	p.S40S	C1orf123_uc001cvc.2_5'Flank|C1orf123_uc001cve.2_Intron	NM_017887	NP_060357	Q9NWV4	CA123_HUMAN	hypothetical protein LOC54987	40										pancreas(2)	2						GCCACTTGTCCGAAATCTCAC	0.493													14	54					0	0	0.132662	0	0		T	53684566	T	T	53684566	2	4	90	1	0	0	0	0	0	0	0	1	1994	639	23	1		1	C1orf123	1	53684566	Silent	SNP	C	TCGA-BR-8682-01A-11D-2394-08	37895276	53684566	195566055	3	60617											
C8B	732	broad.mit.edu	37	chr1	57399077	57399077	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actaacttccttctggaactCctccagtgcctgcttcatgt	7	14	6	14	0	2	0	1	0	1	0	5	1	5	1	4	1	4	1	4	1	2	4			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr1:57399077C>A	uc001cyp.2	-	10	1550	c.1483G>T	c.(1483-1485)GAG>TAG	p.E495*	C8B_uc010oon.1_Nonsense_Mutation_p.E433*|C8B_uc010ooo.1_Nonsense_Mutation_p.E443*	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	495	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						TTCTGGAACTCCTCCAGTGCC	0.527													16	57					0.000422831	0.000431204	0.146539	1	0		A	57399077	A	A	57399077	4	1	90	1	0	0	0	0	0	1	0	0	2420	864	30	5	304	5	C8B	1	57399077	Nonsense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	3714511	57399077	191851544	4	60618											
DENND2D	79961	broad.mit.edu	37	chr1	111737247	111737247	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctctccagcacggcagaGgcaaagatctgaagtatctg	11	10	10	10	1	3	3	0	1	3	2	5	3	4	3	1	2	1	4	1	2	3	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr1:111737247G>A	uc001eak.1	-	7	947	c.747C>T	c.(745-747)GCC>GCT	p.A249A	DENND2D_uc001eal.1_Silent_p.A246A	NM_024901	NP_079177	Q9H6A0	DEN2D_HUMAN	DENN/MADD domain containing 2D	249	DENN.									ovary(1)	1		all_cancers(81;0.00198)|all_epithelial(167;0.000686)|all_lung(203;0.00318)|Lung NSC(277;0.00499)		Lung(183;0.0162)|Colorectal(144;0.069)|all cancers(265;0.0757)|LUSC - Lung squamous cell carcinoma(189;0.0845)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.14)		GCACGGCAGAGGCAAAGATCT	0.527													19	44					0	0	0.055883	0	0		A	111737247	A	A	111737247	2	1	90	1	0	0	0	0	0	0	0	1	4437	987	35	4		4	DENND2D	1	111737247	Silent	SNP	G	TCGA-BR-8682-01A-11D-2394-08	54338170	111737247	137513374	5	60619											
TFB2M	64216	broad.mit.edu	37	chr1	246729331	246729331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccacagtggttcctcgccGgcaaatgctttcgcgtcgcc	5	9	11	16	5	0	0	0	0	0	0	4	0	1	0	4	2	1	3	4	2	1	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr1:246729331G>A	uc001ibn.2	-	1	235	c.110C>T	c.(109-111)CCG>CTG	p.P37L	CNST_uc001ibo.3_5'Flank|CNST_uc001ibp.2_5'Flank|TFB2M_uc010pys.1_RNA	NM_022366	NP_071761	Q9H5Q4	TFB2M_HUMAN	transcription factor B2, mitochondrial	37					positive regulation of transcription, DNA-dependent|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity|transcription cofactor activity			ovary(1)	1	all_cancers(71;4.25e-05)|all_epithelial(71;4.92e-06)|Ovarian(71;0.0254)|all_lung(81;0.0272)|Breast(184;0.0318)|Lung NSC(105;0.0376)		OV - Ovarian serous cystadenocarcinoma(106;0.00358)			GTTCCTCGCCGGCAAATGCTT	0.627													19	63					0	0	0.049695	0	0		A	246729331	A	A	246729331	3	1	90	1	0	0	0	0	1	0	0	0	15819	1116	39	1	1112	1	TFB2M	1	246729331	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	134992084	246729331	2521290	6	60620											
OR2T4	127074	broad.mit.edu	37	chr1	248524923	248524923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccagccacactggatggtCggatttcatcctgatgggac	8	9	13	11	1	1	1	1	1	0	0	3	4	2	4	3	5	1	0	3	5	0	1			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr1:248524923C>T	uc001ieh.1	+	1	41	c.41C>T	c.(40-42)TCG>TTG	p.S14L		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ACTGGATGGTCGGATTTCATC	0.488													11	52					0	0	0.080935	0	0		T	248524923	T	T	248524923	3	4	90	1	0	0	0	0	1	0	0	0	11046	893	31	1	43	1	OR2T4	1	248524923	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	1795592	248524923	725698	7	60621											
NLRC4	58484	broad.mit.edu	37	chr2	32475567	32475567	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagacgtcaataaactgcTgagtcttcgtcctgctgtgt	9	13	10	9	2	2	2	1	2	1	1	4	3	3	2	1	0	3	2	1	0	3	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr2:32475567T>C	uc002roi.2	-	4	1612	c.1366A>G	c.(1366-1368)AGC>GGC	p.S456G	NLRC4_uc002roj.1_Missense_Mutation_p.S456G|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	456	NACHT.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					AATAAACTGCTGAGTCTTCGT	0.438													22	73					0	0	0.076483	0	0		C	32475567	C	C	32475567	3	2	90	1	0	0	0	0	1	0	0	0	10488	1580	55	3	1732	3	NLRC4	2	32475567	Missense_Mutation	SNP	T	TCGA-BR-8682-01A-11D-2394-08		32475567	210723806	8	60622											
NRXN1	9378	broad.mit.edu	37	chr2	50733718	50733718	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgtgccactcgttatcattGaggttatagccagcaaaaag	12	11	10	8	1	1	1	1	1	0	0	2	1	1	1	2	1	3	3	2	1	5	4			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr2:50733718G>C	uc010fbq.2	-	13	4009	c.2532C>G	c.(2530-2532)CTC>CTG	p.L844L	NRXN1_uc002rxb.3_Silent_p.L476L|NRXN1_uc002rxe.3_Silent_p.L804L|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CGTTATCATTGAGGTTATAGC	0.448													6	24					0	0	0.02938	0	0		C	50733718	C	C	50733718	2	2	90	1	0	0	0	0	0	0	0	1	10684	1277	45	5		5	NRXN1	2	50733718	Silent	SNP	G	TCGA-BR-8682-01A-11D-2394-08	18258151	50733718	192465655	9	60623											
BMP10	27302	broad.mit.edu	37	chr2	69093087	69093087	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacagtagtttcctttggcGttccttctgattcgggcagt	5	17	10	9	2	1	1	0	1	1	0	4	1	3	1	2	2	1	4	2	2	2	7	rs113361577		TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr2:69093087G>A	uc002sez.1	-	2	1110	c.951C>T	c.(949-951)AAC>AAT	p.N317N		NM_014482	NP_055297	O95393	BMP10_HUMAN	bone morphogenetic protein 10 preproprotein	317					activin receptor signaling pathway|adult heart development|atrial cardiac muscle tissue morphogenesis|BMP signaling pathway|cardiac muscle cell proliferation|heart trabecula formation|negative regulation of cardiac muscle hypertrophy|negative regulation of cell growth|negative regulation of endothelial cell migration|Notch signaling pathway|pathway-restricted SMAD protein phosphorylation|positive regulation of cardiac muscle cell proliferation|positive regulation of cardiac muscle hypertrophy|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent|sarcomere organization|ventricular cardiac muscle cell development|ventricular cardiac muscle tissue morphogenesis	cell surface|extracellular space|Z disc	cytokine activity|growth factor activity|receptor serine/threonine kinase binding			ovary(2)	2						TTCCTTTGGCGTTCCTTCTGA	0.517													14	51					0	0	0.105934	0	0		A	69093087	A	A	69093087	2	1	90	1	0	0	0	0	0	0	0	1	1458	1136	40	1		1	BMP10	2	69093087	Silent	SNP	G	TCGA-BR-8682-01A-11D-2394-08	18359369	69093087	174106286	10	60624											
SCTR	6344	broad.mit.edu	37	chr2	120236430	120236430	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaatctcgggcattccacCtccaccatccggcccggcac	8	6	9	18	3	1	0	0	0	1	0	5	1	4	1	6	4	0	2	6	4	1	1			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr2:120236430C>T	uc002tma.2	-	3	484	c.258G>A	c.(256-258)GAG>GAA	p.E86E	SCTR_uc002tlz.2_5'UTR	NM_002980	NP_002971	P47872	SCTR_HUMAN	secretin receptor precursor	86	Extracellular (Potential).				digestion|excretion	integral to plasma membrane	secretin receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3					Secretin(DB00021)	GGCATTCCACCTCCACCATCC	0.612													15	60					0	0	0.132662	0	0		T	120236430	T	T	120236430	2	4	90	1	0	0	0	0	0	0	0	1	13968	680	24	4		4	SCTR	2	120236430	Silent	SNP	C	TCGA-BR-8682-01A-11D-2394-08	51143343	120236430	122962943	11	60625											
CASP10	843	broad.mit.edu	37	chr2	202050848	202050848	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaagggtttctctgtttagGtgaggacgggtctgtggtgg	6	13	17	5	1	2	1	0	1	2	0	3	2	2	2	0	6	0	2	0	6	2	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr2:202050848G>A	uc002uxl.1	+	2	765	c.347_splice	c.e2+1	p.R116_splice	CASP10_uc002uxi.1_Splice_Site_p.R116_splice|CASP10_uc010zhn.1_Splice_Site|CASP10_uc002uxj.1_Splice_Site_p.R116_splice|CASP10_uc002uxk.1_Splice_Site_p.R116_splice|CASP10_uc010fta.1_Splice_Site_p.R116_splice|CASP10_uc002uxm.1_Splice_Site_p.R116_splice|CASP10_uc010ftb.1_Splice_Site	NM_032974	NP_116756	Q92851	CASPA_HUMAN	caspase 10 isoform b preproprotein						apoptosis|induction of apoptosis by extracellular signals|proteolysis	cytosol|plasma membrane	cysteine-type endopeptidase activity|identical protein binding|protein binding			skin(3)|ovary(1)|pancreas(1)|breast(1)	6						CTCTGTTTAGGTGAGGACGGG	0.498													9	16					0	0	0.047766	0	0		A	202050848	A	A	202050848	5	1	90	1	0	0	0	0	0	0	1	0	2672	1275	44	4	350	4	CASP10	2	202050848	Splice_Site	SNP	G	TCGA-BR-8682-01A-11D-2394-08	81814418	202050848	41148525	12	60626											
WNT7A	7476	broad.mit.edu	37	chr3	13916592	13916592	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgggccggctctggcagatCgcccgctgtctgggagccag	4	7	16	14	4	2	1	0	0	2	1	4	2	2	2	3	4	1	3	3	4	0	0			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr3:13916592C>T	uc003bye.1	-	2	455	c.150G>A	c.(148-150)GCG>GCA	p.A50A		NM_004625	NP_004616	O00755	WNT7A_HUMAN	wingless-type MMTV integration site family,	50					activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3						TCTGGCAGATCGCCCGCTGTC	0.592													22	60					0	0	0.069288	0	0		T	13916592	T	T	13916592	2	4	90	1	0	0	0	0	0	0	0	1	17420	871	31	1		1	WNT7A	3	13916592	Silent	SNP	C	TCGA-BR-8682-01A-11D-2394-08		13916592	184105838	13	60627											
CELSR3	1951	broad.mit.edu	37	chr3	48664446	48664446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttggagtcttcttgacCattggctgttgcatcttcca	5	15	10	11	0	3	1	0	1	3	0	4	2	4	2	3	3	1	3	3	3	0	6			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr3:48664446C>T	uc003cuf.1	-	53	12094	c.12094G>A	c.(12094-12096)GGT>AGT	p.G4032S	SLC26A6_uc003cug.2_Missense_Mutation_p.G625S|SLC26A6_uc003cuh.2_Missense_Mutation_p.G646S|SLC26A6_uc010hke.2_Missense_Mutation_p.G478S|SLC26A6_uc003cuk.2_Missense_Mutation_p.G538S|SLC26A6_uc003cui.2_Missense_Mutation_p.G645S|SLC26A6_uc003cuj.2_Missense_Mutation_p.G627S|SLC26A6_uc011bbp.1_Missense_Mutation_p.G610S	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	Error:Variant_position_missing_in_Q9NYQ7_after_alignment					homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TCTTCTTGACCATTGGCTGTT	0.607													31	138					0	0	0.134883	0	0		T	48664446	T	T	48664446	3	4	90	1	0	0	0	0	1	0	0	0	3226	594	21	4		4	CELSR3	3	48664446	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	34747854	48664446	149357984	14	60628											
ROBO1	6091	broad.mit.edu	37	chr3	78763664	78763664	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcaaggtatgatcatctcGgatttcatatctaatgacat	12	16	6	7	1	5	2	3	2	2	0	6	3	5	3	0	2	0	1	0	2	4	5			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr3:78763664G>A	uc003dqe.2	-	8	1136	c.928C>T	c.(928-930)CGA>TGA	p.R310*	ROBO1_uc003dqb.2_Nonsense_Mutation_p.R271*|ROBO1_uc003dqc.2_Nonsense_Mutation_p.R271*|ROBO1_uc003dqd.2_Nonsense_Mutation_p.R271*|ROBO1_uc003dqf.1_5'UTR	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	310	Extracellular (Potential).|Ig-like C2-type 3.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TGATCATCTCGGATTTCATAT	0.378													9	27					0	0	0.047766	0	0		A	78763664	A	A	78763664	4	1	90	1	0	0	0	0	0	1	0	0	13538	1124	39	1	4136	1	ROBO1	3	78763664	Nonsense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	30099218	78763664	119258766	15	60629											
PLCXD2	257068	broad.mit.edu	37	chr3	111432963	111432963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgggggcctcaagaacaCgctggttcataggtaagaat	11	9	14	7	1	2	2	2	0	0	2	2	2	2	2	1	5	1	4	1	5	5	4	rs139070081	byFrequency	TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr3:111432963C>T	uc003dya.2	+	3	1440	c.854C>T	c.(853-855)ACG>ATG	p.T285M	PLCXD2_uc003dyb.2_Missense_Mutation_p.T285M|PLCXD2_uc003dxz.2_Missense_Mutation_p.T285M	NM_001134478	NP_001127950	Q0VAA5	PLCX2_HUMAN	phosphatidylinositol-specific phospholipase C, X	285					intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(1)	1						CTCAAGAACACGCTGGTTCAT	0.493													17	30					0	0	0.038395	0	0		T	111432963	T	T	111432963	3	4	90	1	0	0	0	0	1	0	0	0	12061	536	19	1	864	1	PLCXD2	3	111432963	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	32669299	111432963	86589467	16	60630											
PLCH1	23007	broad.mit.edu	37	chr3	155198891	155198891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccccctctgggatgccccGgccttcaaggccaccccctt	4	8	9	20	1	2	0	1	0	1	0	2	1	2	1	8	3	2	0	8	3	1	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr3:155198891G>A	uc011bok.1	-	23	5225	c.4948C>T	c.(4948-4950)CGG>TGG	p.R1650W	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.R1612W	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1650					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GGGATGCCCCGGCCTTCAAGG	0.557													13	53					0	0	0.09319	0	0		A	155198891	A	A	155198891	3	1	90	1	0	0	0	0	1	0	0	0	12056	1115	39	1	137	1	PLCH1	3	155198891	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	43765928	155198891	42823539	17	60631											
KLF3	51274	broad.mit.edu	37	chr4	38690545	38690545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggcagctgccctctcgCggcatggaatacggagcccg	7	7	14	13	4	1	1	0	1	1	0	2	3	1	3	2	4	4	3	2	4	2	1			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr4:38690545C>T	uc003gth.3	+	3	729	c.397C>T	c.(397-399)CGG>TGG	p.R133W	KLF3_uc003gtg.2_Missense_Mutation_p.R133W	NM_016531	NP_057615	P57682	KLF3_HUMAN	Kruppel-like factor 3 (basic)	133	Pro-rich.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						TGCCCTCTCGCGGCATGGAAT	0.617													22	67					0	0	0.055883	0	0		T	38690545	T	T	38690545	3	4	90	1	0	0	0	0	1	0	0	0	8363	759	27	1	403	1	KLF3	4	38690545	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08		38690545	152463731	18	60632											
TMEM150C	441027	broad.mit.edu	37	chr4	83406787	83406787	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaactccacggcaaaggtGccaaaataagacaggaagca	17	3	11	10	2	0	1	0	0	0	1	1	3	1	3	2	4	3	2	2	4	6	1			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr4:83406787G>A	uc003hmy.1	-	8	705	c.627C>T	c.(625-627)GGC>GGT	p.G209G	TMEM150C_uc011ccj.1_Silent_p.G239G	NM_001080506	NP_001073975	B9EJG8	T150C_HUMAN	transmembrane protein 150C	209	Helical; (Potential).					integral to membrane				ovary(1)	1						CGGCAAAGGTGCCAAAATAAG	0.512													5	12					0	0	0.014758	0	0		A	83406787	A	A	83406787	2	1	90	1	0	0	0	0	0	0	0	1	16094	1306	46	2		2	TMEM150C	4	83406787	Silent	SNP	G	TCGA-BR-8682-01A-11D-2394-08	44716242	83406787	107747489	19	60633											
IRF1	3659	broad.mit.edu	37	chr5	131822699	131822699	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggtacactcgcacagctGagctgcccttgttcctgctc	5	11	9	16	2	0	1	0	1	0	0	4	1	2	1	3	1	5	6	3	1	1	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr5:131822699G>T	uc003kxa.2	-	4	545	c.311C>A	c.(310-312)TCA>TAA	p.S104*	IRF1_uc003kxd.2_RNA|IRF1_uc003kxb.2_Nonsense_Mutation_p.S104*|IRF1_uc010jdt.1_Nonsense_Mutation_p.S104*	NM_002198	NP_002189	P10914	IRF1_HUMAN	interferon regulatory factor 1	104	IRF tryptophan pentad repeat.				blood coagulation|cellular response to mechanical stimulus|interferon-gamma-mediated signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleoplasm					0		all_cancers(142;0.026)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	LUAD - Lung adenocarcinoma(142;0.247)		TCGCACAGCTGAGCTGCCCTT	0.567													20	350					2.39187e-15	2.56628e-15	0.049695	1	0		T	131822699	T	T	131822699	4	4	90	1	0	0	0	0	0	1	0	0	7843	1294	45	5	694	5	IRF1	5	131822699	Nonsense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08		131822699	49092561	20	60634											
FSTL4	23105	broad.mit.edu	37	chr5	132545910	132545910	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtcgggacttgtgcacGtccccccagctcaggaccca	6	8	11	16	2	1	0	1	0	0	0	3	2	2	2	4	3	2	2	4	3	0	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr5:132545910G>A	uc003kyn.1	-	14	1907	c.1689C>T	c.(1687-1689)GAC>GAT	p.D563D	FSTL4_uc003kym.1_Silent_p.D212D	NM_015082	NP_055897	Q6MZW2	FSTL4_HUMAN	follistatin-like 4 precursor	563						extracellular region	calcium ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(142;0.244)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ACTTGTGCACGTCCCCCCAGC	0.498													6	40					0	0	0.021553	0	0		A	132545910	A	A	132545910	2	1	90	1	0	0	0	0	0	0	0	1	6093	1136	40	1		1	FSTL4	5	132545910	Silent	SNP	G	TCGA-BR-8682-01A-11D-2394-08	723211	132545910	48369350	21	60635											
GRIA1	2890	broad.mit.edu	37	chr5	153085359	153085359	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggatctccatcatgattAaaaaaccacagaaatccaag	17	8	7	9	0	2	2	1	1	1	1	4	3	3	3	3	2	1	0	3	2	5	1			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr5:153085359A>T	uc003lva.3	+	11	1920	c.1555A>T	c.(1555-1557)AAA>TAA	p.K519*	GRIA1_uc003luy.3_Nonsense_Mutation_p.K519*|GRIA1_uc003luz.3_Nonsense_Mutation_p.K424*|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Nonsense_Mutation_p.K439*|GRIA1_uc011dcx.1_Nonsense_Mutation_p.K450*|GRIA1_uc011dcy.1_Nonsense_Mutation_p.K529*|GRIA1_uc011dcz.1_Nonsense_Mutation_p.K529*|GRIA1_uc010jia.1_Nonsense_Mutation_p.K499*	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	519	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CATCATGATTAAAAAACCACA	0.428													24	72					0	0	0.083992	0	0		T	153085359	T	T	153085359	4	4	90	1	0	0	0	0	0	1	0	0	6783	363	13	5	1597	5	GRIA1	5	153085359	Nonsense_Mutation	SNP	A	TCGA-BR-8682-01A-11D-2394-08	20539449	153085359	27829901	22	60636											
CFB	629	broad.mit.edu	37	chr6	31901495	31901495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcgaatcttgtgctcaCggggtcttcggagcgggagt	5	11	14	11	4	3	0	1	0	2	0	6	3	4	2	1	4	2	1	1	4	1	2	rs138034438	by1000genomes	TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr6:31901495C>T	uc011dor.1	+	3	629	c.365C>T	c.(364-366)ACG>ATG	p.T122M	C2_uc003nyc.2_Missense_Mutation_p.R16W|C2_uc011doo.1_Missense_Mutation_p.R16W|C2_uc011dop.1_Missense_Mutation_p.T61M|C2_uc003nye.3_Missense_Mutation_p.T184M|C2_uc003nyf.2_Missense_Mutation_p.T184M|C2_uc010jtk.2_Missense_Mutation_p.T52M|C2_uc011doq.1_Missense_Mutation_p.T155M|C2_uc003nyg.2_Missense_Mutation_p.T52M	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						CTTGTGCTCACGGGGTCTTCG	0.642													24	67					0	0	0.099896	0	0		T	31901495	T	T	31901495	3	4	90	1	0	0	0	0	1	0	0	0	3281	536	19	1		1	CFB	6	31901495	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08		31901495	139213572	23	60637											
TNXB	7148	broad.mit.edu	37	chr6	32017048	32017048	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgtccccccactcaccCgtgatgcccacggtggacac	6	6	10	19	2	1	1	1	1	0	0	2	2	2	2	6	3	1	0	6	3	0	0			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr6:32017048C>T	uc003nzl.2	-	28	9952	c.9750G>A	c.(9748-9750)ACG>ACA	p.T3250T	TNXB_uc003nzh.1_5'Flank	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3297					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CCCACTCACCCGTGATGCCCA	0.637													4	20					0	0	0.02938	0	0		T	32017048	T	T	32017048	2	4	90	1	0	0	0	0	0	0	0	1	16371	666	23	1		1	TNXB	6	32017048	Silent	SNP	C	TCGA-BR-8682-01A-11D-2394-08	115553	32017048	139098019	24	60638											
NCR2	9436	broad.mit.edu	37	chr6	41309565	41309565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagacctcctggactccccGcgacctggtctcttcacaga	8	8	8	17	2	2	2	1	0	1	2	5	4	4	3	5	2	0	0	5	2	0	1	rs142832518	byFrequency	TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr6:41309565G>A	uc003oqh.2	+	3	515	c.428G>A	c.(427-429)CGC>CAC	p.R143H	NCR2_uc003oqi.2_Missense_Mutation_p.R143H|NCR2_uc003oqj.2_Missense_Mutation_p.R143H	NM_004828	NP_004819	O95944	NCTR2_HUMAN	natural cytotoxicity triggering receptor 2	143	Extracellular (Potential).				cellular defense response	integral to plasma membrane	transmembrane receptor activity			ovary(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					TGGACTCCCCGCGACCTGGTC	0.617													25	66					0	0	0.0918	0	0		A	41309565	A	A	41309565	3	1	90	1	0	0	0	0	1	0	0	0	10257	1087	38	1	438	1	NCR2	6	41309565	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	9292517	41309565	129805502	25	60639											
RFPL4B	442247	broad.mit.edu	37	chr6	112671190	112671190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggaggagctccggcattttCgggaggatgtgaccctggat	7	9	17	8	2	0	1	0	1	0	0	2	6	1	6	2	6	1	2	2	6	0	2	rs142366862	byFrequency	TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr6:112671190C>T	uc003pvx.1	+	3	592	c.280C>T	c.(280-282)CGG>TGG	p.R94W		NM_001013734	NP_001013756	Q6ZWI9	RFPLB_HUMAN	ret finger protein-like 4B	94	B30.2/SPRY.						zinc ion binding				0		all_cancers(87;9.44e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00265)|Colorectal(196;0.0209)		all cancers(137;0.0202)|OV - Ovarian serous cystadenocarcinoma(136;0.0477)|Epithelial(106;0.0646)|GBM - Glioblastoma multiforme(226;0.0866)|BRCA - Breast invasive adenocarcinoma(108;0.244)		CCGGCATTTTCGGGAGGATGT	0.522													13	51					0	0	0.11911	0	0		T	112671190	T	T	112671190	3	4	90	1	0	0	0	0	1	0	0	0	13281	875	31	1	282	1	RFPL4B	6	112671190	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	71361625	112671190	58443877	26	60640											
HEY2	23493	broad.mit.edu	37	chr6	126080849	126080849	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggccacagccatcagcccGcccttgtcagtatcagccac	8	6	9	18	2	3	0	3	0	0	0	3	0	3	0	5	1	3	1	5	1	1	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr6:126080849G>A	uc003qad.2	+	5	1106	c.915G>A	c.(913-915)CCG>CCA	p.P305P	HEY2_uc011ebr.1_Silent_p.P259P	NM_012259	NP_036391	Q9UBP5	HEY2_HUMAN	hairy/enhancer-of-split related with YRPW motif	305					negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription initiation from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|Notch signaling pathway|smooth muscle cell differentiation|transcription, DNA-dependent	transcriptional repressor complex	histone deacetylase binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0608)|GBM - Glioblastoma multiforme(226;0.0361)|all cancers(137;0.193)		CCATCAGCCCGCCCTTGTCAG	0.597													46	123					0	0	0.131918	0	0		A	126080849	A	A	126080849	2	1	90	1	0	0	0	0	0	0	0	1	7095	1074	38	1		1	HEY2	6	126080849	Silent	SNP	G	TCGA-BR-8682-01A-11D-2394-08	13409659	126080849	45034218	27	60641											
MOXD1	26002	broad.mit.edu	37	chr6	132649655	132649655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccggactccagaacgctgtCgttaaagttgttgctgcact	8	11	11	11	3	0	1	0	0	0	1	2	2	1	2	2	1	3	6	2	1	3	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr6:132649655C>T	uc003qdf.2	-	5	841	c.742G>A	c.(742-744)GAC>AAC	p.D248N	MOXD1_uc003qde.2_Missense_Mutation_p.D180N	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	248	Lumenal (Potential).				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		AGAACGCTGTCGTTAAAGTTG	0.512													16	45					0	0	0.146539	0	0		T	132649655	T	T	132649655	3	4	90	1	0	0	0	0	1	0	0	0	9738	884	31	1	1131	1	MOXD1	6	132649655	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	6568806	132649655	38465412	28	60642											
PHACTR2	9749	broad.mit.edu	37	chr6	144086652	144086652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtggagagtttcaaactcGaacagactgtccctggagct	11	9	12	9	1	1	2	1	0	0	2	3	6	2	3	1	2	3	2	1	2	2	1			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr6:144086652G>A	uc003qjq.3	+	6	1046	c.916G>A	c.(916-918)GAA>AAA	p.E306K	PHACTR2_uc010khh.2_Missense_Mutation_p.E226K|PHACTR2_uc010khi.2_Missense_Mutation_p.E317K|PHACTR2_uc003qjr.3_Missense_Mutation_p.E237K	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3	306							actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		TTTCAAACTCGAACAGACTGT	0.562													14	62					0	0	0.11911	0	0		A	144086652	A	A	144086652	3	1	90	1	0	0	0	0	1	0	0	0	11829	1059	37	1	988	1	PHACTR2	6	144086652	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	11436997	144086652	27028415	29	60643											
ABCA13	154664	broad.mit.edu	37	chr7	48431656	48431656	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgttggacaacctcacCgtccgggaacatttgctgct	8	11	9	13	2	1	0	1	0	0	0	3	2	3	2	4	2	4	3	4	2	2	2	rs147058958	by1000genomes	TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr7:48431656C>T	uc003toq.2	+	38	11818	c.11793C>T	c.(11791-11793)ACC>ACT	p.T3931T	ABCA13_uc010kys.1_Silent_p.T1005T|ABCA13_uc003tos.1_Silent_p.T757T|ABCA13_uc010kyt.1_RNA	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3931	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ACAACCTCACCGTCCGGGAAC	0.507													10	77					0	0	0.069234	0	0		T	48431656	T	T	48431656	2	4	90	1	0	0	0	0	0	0	0	1	31	639	23	1		1	ABCA13	7	48431656	Silent	SNP	C	TCGA-BR-8682-01A-11D-2394-08		48431656	110707007	30	60644											
FIGNL1	63979	broad.mit.edu	37	chr7	50514267	50514267	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagactggttagataagaacAcattaagtcctatgttttct	14	14	7	6	0	1	3	0	0	1	3	2	3	2	3	1	1	1	2	1	1	6	6			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr7:50514267A>T	uc003tpc.2	-	4	1096	c.719T>A	c.(718-720)GTG>GAG	p.V240E	FIGNL1_uc003tpb.2_Missense_Mutation_p.V129E|FIGNL1_uc003tpd.2_Missense_Mutation_p.V240E|FIGNL1_uc003tpe.2_Missense_Mutation_p.V240E|FIGNL1_uc010kyy.2_Missense_Mutation_p.V240E	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	240					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)				AGATAAGAACACATTAAGTCC	0.393													43	65					0	0	0.092188	0	0		T	50514267	T	T	50514267	3	4	90	1	0	0	0	0	1	0	0	0	5906	159	6	5	1309	5	FIGNL1	7	50514267	Missense_Mutation	SNP	A	TCGA-BR-8682-01A-11D-2394-08	2082611	50514267	108624396	31	60645											
LMTK2	22853	broad.mit.edu	37	chr7	97823365	97823365	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgcatcccacggaagaCgaggccagcagtccctggag	10	4	14	13	2	0	1	0	0	0	1	2	4	2	3	3	4	2	2	3	4	1	0			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr7:97823365C>T	uc003upd.1	+	11	3881	c.3588C>T	c.(3586-3588)GAC>GAT	p.D1196D		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	1196					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					CCACGGAAGACGAGGCCAGCA	0.597													11	75					0	0	0.09319	0	0		T	97823365	T	T	97823365	2	4	90	1	0	0	0	0	0	0	0	1	8876	535	19	1		1	LMTK2	7	97823365	Silent	SNP	C	TCGA-BR-8682-01A-11D-2394-08	47309098	97823365	61315298	32	60646											
CAV1	857	broad.mit.edu	37	chr7	116199088	116199088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaccaccttcactgtgaCgaaatactggttttaccgct	9	13	6	13	2	2	1	2	1	0	0	2	2	2	1	3	1	2	2	3	1	3	5			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr7:116199088C>T	uc003vif.1	+	3	562	c.284C>T	c.(283-285)ACG>ATG	p.T95M	CAV1_uc010lkd.1_Missense_Mutation_p.T64M|CAV1_uc010lke.1_Missense_Mutation_p.T64M|CAV1_uc003vig.1_RNA|CAV1_uc003vih.2_Missense_Mutation_p.T64M|CAV1_uc010lkf.1_Missense_Mutation_p.T64M	NM_001753	NP_001744	Q03135	CAV1_HUMAN	caveolin 1	95	Cytoplasmic (Potential).				blood coagulation|calcium ion transport|caveola assembly|cellular response to starvation|cholesterol homeostasis|cytosolic calcium ion homeostasis|inactivation of MAPK activity|interspecies interaction between organisms|leukocyte migration|lipid storage|maintenance of protein location in cell|mammary gland involution|membrane depolarization|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of endothelial cell proliferation|negative regulation of epithelial cell differentiation|negative regulation of nitric oxide biosynthetic process|negative regulation of peptidyl-serine phosphorylation|negative regulation of protein binding|negative regulation of transcription from RNA polymerase II promoter|nitric oxide homeostasis|nitric oxide metabolic process|positive regulation of calcium ion transport into cytosol|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of metalloenzyme activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of vasoconstriction|protein homooligomerization|receptor internalization|regulation of blood coagulation|regulation of fatty acid metabolic process|regulation of nitric-oxide synthase activity|regulation of smooth muscle contraction|response to calcium ion|response to estrogen stimulus|response to hypoxia|response to progesterone stimulus|skeletal muscle tissue development|T cell costimulation|triglyceride metabolic process|vasculogenesis|vesicle organization	apical plasma membrane|basolateral plasma membrane|caveola|caveola|cytosol|endoplasmic reticulum|endosome|Golgi membrane|lipid particle|perinuclear region of cytoplasm	cholesterol binding|nitric-oxide synthase binding|peptidase activator activity|protein binding|protein complex scaffold|receptor binding				0	all_epithelial(6;1.42e-06)|Lung NSC(10;0.0056)|all_lung(10;0.00609)		STAD - Stomach adenocarcinoma(10;0.00878)			TTCACTGTGACGAAATACTGG	0.483													23	26					0	0	0.069288	0	0		T	116199088	T	T	116199088	3	4	90	1	0	0	0	0	1	0	0	0	2696	536	19	1	294	1	CAV1	7	116199088	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	18375723	116199088	42939575	33	60647											
TRPA1	8989	broad.mit.edu	37	chr8	72970030	72970030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagagcgtccttcagaatCgatcttattaatatctgctc	10	14	8	9	2	3	2	1	0	2	2	6	4	4	2	1	1	2	1	1	1	4	4			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr8:72970030C>T	uc003xza.2	-	9	1190	c.1015G>A	c.(1015-1017)GAT>AAT	p.D339N		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	339	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	CCTTCAGAATCGATCTTATTA	0.338													13	45					0	0	0.146539	0	0		T	72970030	T	T	72970030	3	4	90	1	0	0	0	0	1	0	0	0	16603	884	31	1	2420	1	TRPA1	8	72970030	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08		72970030	73393992	34	60648											
RALYL	138046	broad.mit.edu	37	chr8	85774574	85774574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcctccacctccccgtgcaGtaattccgctgaagcgtccc	6	9	8	18	3	0	1	0	1	0	0	4	1	4	1	7	0	3	3	7	0	2	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr8:85774574G>A	uc003ycq.3	+	7	873	c.457G>A	c.(457-459)GTA>ATA	p.V153I	RALYL_uc003ycr.3_Missense_Mutation_p.V153I|RALYL_uc003ycs.3_Missense_Mutation_p.V153I|RALYL_uc010lzy.2_Missense_Mutation_p.V142I|RALYL_uc003yct.3_Missense_Mutation_p.V166I|RALYL_uc003ycu.3_Missense_Mutation_p.V80I|RALYL_uc003ycv.3_Missense_Mutation_p.V65I	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2	153							identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						TCCCCGTGCAGTAATTCCGCT	0.512													4	29					0	0	0.009096	0	0		A	85774574	A	A	85774574	3	1	90	1	0	0	0	0	1	0	0	0	13045	1029	36	4	518	4	RALYL	8	85774574	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	12804544	85774574	60589448	35	60649											
FOXE1	2304	broad.mit.edu	37	chr9	100616580	100616580	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtaagggcaactactgggcGcttgaccccaacgcggagga	10	5	15	11	3	0	1	0	1	0	0	0	3	0	3	2	5	3	3	2	5	4	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr9:100616580G>A	uc004axu.2	+	1	1044	c.384G>A	c.(382-384)GCG>GCA	p.A128A		NM_004473	NP_004464	O00358	FOXE1_HUMAN	forkhead box E1	128	Fork-head.				cell migration|embryonic organ morphogenesis|hair follicle morphogenesis|hard palate development|lens morphogenesis in camera-type eye|negative regulation of transcription from RNA polymerase II promoter|pattern specification process|peripheral nervous system development|pharynx development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|soft palate development|thymus development|thyroid gland development|thyroid hormone generation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		Acute lymphoblastic leukemia(62;0.158)				ACTACTGGGCGCTTGACCCCA	0.637													46	45					0	0	0.139131	0	0		A	100616580	A	A	100616580	2	1	90	1	0	0	0	0	0	0	0	1	6017	1074	38	1		1	FOXE1	9	100616580	Silent	SNP	G	TCGA-BR-8682-01A-11D-2394-08		100616580	40596851	36	60650											
OLFM1	10439	broad.mit.edu	37	chr9	138011806	138011806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctgcggcacgctgtacGtcaccaacggctactcaggg	8	8	11	14	4	4	0	3	0	1	0	4	0	4	0	1	3	4	4	1	3	3	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr9:138011806G>A	uc010nar.2	+	6	1556	c.1240G>A	c.(1240-1242)GTC>ATC	p.V414I	OLFM1_uc004cfl.3_Missense_Mutation_p.V396I|OLFM1_uc004cfn.3_Missense_Mutation_p.V165I	NM_014279	NP_055094	Q99784	NOE1_HUMAN	olfactomedin related ER localized protein	414	Olfactomedin-like.				nervous system development	endoplasmic reticulum lumen	protein binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(178;0.0333)		Epithelial(140;5.49e-08)|OV - Ovarian serous cystadenocarcinoma(145;9.68e-08)|all cancers(34;1.88e-07)		CACGCTGTACGTCACCAACGG	0.577													51	74					0	0	0.139131	0	0		A	138011806	A	A	138011806	3	1	90	1	0	0	0	0	1	0	0	0	10871	1145	40	1	1218	1	OLFM1	9	138011806	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	37395226	138011806	3201625	37	60651											
ITIH5	80760	broad.mit.edu	37	chr10	7684001	7684001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaccgtagtgaaggcataaCgggaaatgatggtagacttc	15	8	12	6	2	0	3	0	2	0	1	1	4	0	4	1	3	2	3	1	3	6	4			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr10:7684001C>T	uc001ijq.2	-	3	267	c.188G>A	c.(187-189)CGT>CAT	p.R63H	ITIH5_uc001ijr.1_Missense_Mutation_p.R63H	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	63	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						GAAGGCATAACGGGAAATGAT	0.438													22	85					0	0	0.055883	0	0		T	7684001	T	T	7684001	3	4	90	1	0	0	0	0	1	0	0	0	7923	536	19	1	2825	1	ITIH5	10	7684001	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08		7684001	127850746	38	60652											
NEBL	10529	broad.mit.edu	37	chr10	21097582	21097582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtcgcctatagtgactcGccttttctatattggaggga	8	14	11	8	2	1	1	0	1	1	0	3	3	1	3	2	2	0	0	2	2	4	7			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr10:21097582G>A	uc001iqi.2	-	26	3015	c.2618C>T	c.(2617-2619)GCG>GTG	p.A873V	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	873	Linker.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						ATAGTGACTCGCCTTTTCTAT	0.403													28	106					0	0	0.045705	0	0		A	21097582	A	A	21097582	3	1	90	1	0	0	0	0	1	0	0	0	10322	1087	38	1	438	1	NEBL	10	21097582	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	13413581	21097582	114437165	39	60653											
C10orf71	118461	broad.mit.edu	37	chr10	50530877	50530877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggaacattcgggctgggCggccaccttccaacagctac	9	6	11	15	3	0	0	0	0	0	0	2	1	1	1	3	4	4	2	3	4	3	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr10:50530877C>T	uc010qgp.1	+	3	626	c.287C>T	c.(286-288)GCG>GTG	p.A96V		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	96											0						TCGGGCTGGGCGGCCACCTTC	0.577													25	118					0	0	0.076483	0	0		T	50530877	T	T	50530877	3	4	90	1	0	0	0	0	1	0	0	0	1617	768	27	1	289	1	C10orf71	10	50530877	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	29433295	50530877	85003870	40	60654											
C10orf71	118461	broad.mit.edu	37	chr10	50531976	50531976	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccctggattcagcagacagCcagccagcagagcgaacccc	11	3	11	16	1	1	2	1	0	0	2	1	4	1	3	5	1	6	2	5	1	1	1			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr10:50531976C>A	uc010qgp.1	+	3	1725	c.1386C>A	c.(1384-1386)AGC>AGA	p.S462R		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	462											0						CAGCAGACAGCCAGCCAGCAG	0.537													15	56					1.5739e-10	1.67125e-10	0.146539	1	0		A	50531976	A	A	50531976	3	1	90	1	0	0	0	0	1	0	0	0	1617	738	26	5	1388	5	C10orf71	10	50531976	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	1099	50531976	85002771	41	60655											
RGR	5995	broad.mit.edu	37	chr10	86008690	86008690	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccacaggcgctggccctaCggctcggacggctgccaggc	5	5	14	17	4	0	0	0	0	0	0	2	1	1	1	3	6	2	3	3	6	1	1	rs149839596	byFrequency	TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr10:86008690C>T	uc001kdc.1	+	3	287	c.249C>T	c.(247-249)TAC>TAT	p.Y83Y	RGR_uc001kdb.1_Missense_Mutation_p.R71W|RGR_uc001kdd.1_Silent_p.Y87Y|RGR_uc001kde.1_Silent_p.Y83Y	NM_001012720	NP_001012738	P47804	RGR_HUMAN	retinal G-protein coupled receptor isoform 2	83	Extracellular (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity|protein binding			ovary(1)	1						GCTGGCCCTACGGCTCGGACG	0.622													14	73					0	0	0.11911	0	0		T	86008690	T	T	86008690	2	4	90	1	0	0	0	0	0	0	0	1	13316	547	19	1		1	RGR	10	86008690	Silent	SNP	C	TCGA-BR-8682-01A-11D-2394-08	35476714	86008690	49526057	42	60656											
TCTN3	26123	broad.mit.edu	37	chr10	97444352	97444352	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaactttctggattccaaaAgtcccattggtctctatctc	10	14	6	11	0	3	0	0	0	3	0	7	2	5	1	2	2	1	0	2	2	4	4			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr10:97444352A>T	uc001klb.3	-	9	1243	c.999T>A	c.(997-999)ACT>ACA	p.T333T	TCTN3_uc001kla.3_Silent_p.T182T|TCTN3_uc010qoi.1_Intron|TCTN3_uc001kld.2_Silent_p.T351T|TCTN3_uc009xux.1_Silent_p.T155T|TCTN3_uc009xuy.1_RNA	NM_015631	NP_056446	Q6NUS6	TECT3_HUMAN	tectonic 3 isoform a precursor	333	Extracellular (Potential).				apoptosis	integral to membrane					0		Colorectal(252;0.0815)		Epithelial(162;1.69e-07)|all cancers(201;5.63e-06)		GGATTCCAAAAGTCCCATTGG	0.408													8	40					0	0	0.038147	0	0		T	97444352	T	T	97444352	2	4	90	1	0	0	0	0	0	0	0	1	15749	59	3	5		5	TCTN3	10	97444352	Silent	SNP	A	TCGA-BR-8682-01A-11D-2394-08	11435662	97444352	38090395	43	60657											
FAM175B	23172	broad.mit.edu	37	chr10	126517346	126517346	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tataatcagaggatatcactCgctattcccaatctaggaaa	15	11	6	9	1	3	1	2	0	1	1	5	3	4	3	1	2	0	1	1	2	7	6			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr10:126517346C>T	uc001lib.3	+	6	525	c.480C>T	c.(478-480)CTC>CTT	p.L160L		NM_032182	NP_115558	Q15018	F175B_HUMAN	hypothetical protein LOC23172	160						BRISC complex	polyubiquitin binding				0						GGATATCACTCGCTATTCCCA	0.358													4	51					0	0	0.009096	0	0		T	126517346	T	T	126517346	2	4	90	1	0	0	0	0	0	0	0	1	5509	871	31	1		1	FAM175B	10	126517346	Silent	SNP	C	TCGA-BR-8682-01A-11D-2394-08	29072994	126517346	9017401	44	60658											
SF1	7536	broad.mit.edu	37	chr11	64533312	64533312	+	Frame_Shift_Del	DEL	G	-	-																															agttctgtggtggaggcggtGggggagctggaggcatcccg																										TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr11:64533312delG	uc001obb.1	-	13	2275	c.1898delC	c.(1897-1899)CCAfs	p.P633fs	SF1_uc010rnm.1_Intron|SF1_uc010rnn.1_Frame_Shift_Del_p.P607fs|SF1_uc001oaz.1_Intron|SF1_uc001oba.1_Intron|SF1_uc001obc.1_Intron|SF1_uc001obd.1_Intron|SF1_uc001obe.1_Intron|SF1_uc010rno.1_Intron	NM_004630	NP_004621	Q15637	SF01_HUMAN	splicing factor 1 isoform 1	633	Pro-rich.				nuclear mRNA 3'-splice site recognition|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ribosome|spliceosomal complex	protein binding|RNA binding|transcription corepressor activity|zinc ion binding			ovary(1)|breast(1)|skin(1)	3						TGGAGGCGGTGGGGGAGCTGG	0.517													2	4	---	---	---	---						.	-	64533312	-	-	64533312	7	5	90	1	0	1	0	1	0	0	0	0	14170	1348	47	0	159	0	SF1	11	64533312	Frame_Shift_Del	DEL	G	TCGA-BR-8682-01A-11D-2394-08		64533312	70473204	45	60659											
ANO2	57101	broad.mit.edu	37	chr12	5672628	5672628	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatgctcctctttcaggAagaaatccactaataagctc	12	12	5	12	0	3	1	2	0	2	1	7	2	5	2	2	1	2	2	2	1	4	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr12:5672628A>C	uc001qnm.2	-	26	2906	c.2834T>G	c.(2833-2835)TTC>TGC	p.F945C		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	950	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						CTCTTTCAGGAAGAAATCCAC	0.552													9	43					0	0	0.058154	0	0		C	5672628	C	C	5672628	3	2	90	1	0	0	0	0	1	0	0	0	697	246	9	5	166	5	ANO2	12	5672628	Missense_Mutation	SNP	A	TCGA-BR-8682-01A-11D-2394-08		5672628	128179267	46	60660											
CPNE8	144402	broad.mit.edu	37	chr12	39154659	39154659	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgtcttaccttccatctcGgtcccagtcatacacctcta	8	13	4	16	1	4	0	1	0	3	0	7	0	6	0	4	1	2	0	4	1	3	4			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr12:39154659G>A	uc001rls.1	-	10	796	c.712C>T	c.(712-714)CGA>TGA	p.R238*		NM_153634	NP_705898	Q86YQ8	CPNE8_HUMAN	copine VIII	238	C2 2.									pancreas(1)	1	Esophageal squamous(101;0.187)	Lung NSC(34;0.137)|Melanoma(24;0.152)|all_lung(34;0.157)				CTTCCATCTCGGTCCCAGTCA	0.323													14	48					0	0	0.132662	0	0		A	39154659	A	A	39154659	4	1	90	1	0	0	0	0	0	1	0	0	3821	1124	39	1	1026	1	CPNE8	12	39154659	Nonsense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	33482031	39154659	94697236	47	60661											
C12orf51	283450	broad.mit.edu	37	chr12	112711519	112711519	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcagacataatggaaggcttGattcccagggttacaccact	12	9	10	10	0	0	2	0	1	0	1	1	3	1	3	2	3	1	3	2	3	3	4			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr12:112711519G>C	uc009zwc.2	-	4	604	c.586C>G	c.(586-588)CAA>GAA	p.Q196E	C12orf51_uc010syk.1_Missense_Mutation_p.Q19E|C12orf51_uc001tts.2_Missense_Mutation_p.Q19E|C12orf51_uc001ttt.3_Missense_Mutation_p.Q19E	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TGGAAGGCTTGATTCCCAGGG	0.458													26	90					0	0	0.083992	0	0		C	112711519	C	C	112711519	3	2	90	1	0	0	0	0	1	0	0	0	1699	1299	45	5	11668	5	C12orf51	12	112711519	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	73556860	112711519	21140376	48	60662											
WASF3	10810	broad.mit.edu	37	chr13	27256755	27256755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctctcaggatgctcccagCgcagataattgagtattaca	11	11	8	11	1	2	2	1	1	1	1	4	3	3	3	1	1	3	3	1	1	3	4			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr13:27256755C>T	uc001uqv.2	+	9	1220	c.995C>T	c.(994-996)GCG>GTG	p.A332V	WASF3_uc001uqw.2_Missense_Mutation_p.A329V	NM_006646	NP_006637	Q9UPY6	WASF3_HUMAN	WAS protein family, member 3	332					actin filament polymerization	cytoplasm|cytoskeleton	actin binding			pancreas(1)	1	Colorectal(5;0.000247)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0114)|Epithelial(112;0.046)|OV - Ovarian serous cystadenocarcinoma(117;0.0547)|Lung(94;0.105)|LUSC - Lung squamous cell carcinoma(192;0.155)		ATGCTCCCAGCGCAGATAATT	0.552													64	336					0	0	0.139131	0	0		T	27256755	T	T	27256755	3	4	90	1	0	0	0	0	1	0	0	0	17280	768	27	1	1021	1	WASF3	13	27256755	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08		27256755	87913123	49	60663											
DCLK1	9201	broad.mit.edu	37	chr13	36410272	36410272	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaatctggaagccttcctccGacacttctgaaagaatcatt	12	11	7	11	1	3	2	1	1	2	1	5	5	5	3	3	1	1	0	3	1	4	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr13:36410272G>A	uc001uvf.2	-	8	1360	c.1127C>T	c.(1126-1128)TCG>TTG	p.S376L	DCLK1_uc001uve.3_Missense_Mutation_p.S69L|DCLK1_uc010teh.1_Missense_Mutation_p.S69L|DCLK1_uc010abk.2_Intron	NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	376					cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		GCCTTCCTCCGACACTTCTGA	0.353													28	134					0	0	0.116897	0	0		A	36410272	A	A	36410272	3	1	90	1	0	0	0	0	1	0	0	0	4294	1059	37	1	1106	1	DCLK1	13	36410272	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	9153517	36410272	78759606	50	60664											
DZIP1	22873	broad.mit.edu	37	chr13	96237021	96237021	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccttaggattaaatgcGccccaggcatttagcacatg	10	9	10	12	1	0	0	0	0	0	0	0	1	0	1	4	3	2	2	4	3	4	4			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr13:96237021G>A	uc001vmk.2	-	22	3345	c.2493C>T	c.(2491-2493)GGC>GGT	p.G831G	DZIP1_uc001vmi.2_Silent_p.G79G|DZIP1_uc001vmj.2_Silent_p.G307G|DZIP1_uc001vml.2_Silent_p.G812G|DZIP1_uc001vmm.2_5'Flank	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	831					germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			GATTAAATGCGCCCCAGGCAT	0.408													28	101					0	0	0.108266	0	0		A	96237021	A	A	96237021	2	1	90	1	0	0	0	0	0	0	0	1	4869	1074	38	1		1	DZIP1	13	96237021	Silent	SNP	G	TCGA-BR-8682-01A-11D-2394-08	59826749	96237021	18932857	51	60665											
SIX4	51804	broad.mit.edu	37	chr14	61186876	61186876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atgccactgcctgtgtatttCccacatttaatccattaagg	10	14	6	11	0	0	0	0	0	0	0	2	0	2	0	4	1	2	1	4	1	3	5			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr14:61186876C>T	uc001xfc.2	-	2	1151	c.1151G>A	c.(1150-1152)GGA>GAA	p.G384E	SIX4_uc010app.1_Missense_Mutation_p.G376E	NM_017420	NP_059116	Q9UIU6	SIX4_HUMAN	sine oculis homeobox homolog 4	384						nucleus				breast(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0275)		CTGTGTATTTCCCACATTTAA	0.423													10	44					0	0	0.069234	0	0		T	61186876	T	T	61186876	3	4	90	1	0	0	0	0	1	0	0	0	14374	855	30	4	1202	4	SIX4	14	61186876	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08		61186876	46162664	52	60666											
PRKCH	5583	broad.mit.edu	37	chr14	61997205	61997205	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgagatgctctgtggtcaCgcgccttttgaggcagagaa	9	11	13	8	2	2	3	1	2	1	2	2	5	2	3	1	2	1	2	1	2	2	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr14:61997205C>T	uc001xfn.2	+	12	1958	c.1653C>T	c.(1651-1653)CAC>CAT	p.H551H	PRKCH_uc010tsa.1_Silent_p.H390H|PRKCH_uc010tsb.1_Silent_p.H119H	NM_006255	NP_006246	P24723	KPCL_HUMAN	protein kinase C, eta	551	Protein kinase.				intracellular signal transduction|platelet activation	cytosol|plasma membrane	ATP binding|enzyme binding|metal ion binding|protein kinase C activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|large_intestine(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(108;0.045)|BRCA - Breast invasive adenocarcinoma(234;0.0906)|KIRC - Kidney renal clear cell carcinoma(182;0.182)		TCTGTGGTCACGCGCCTTTTG	0.552													43	136					0	0	0.104719	0	0		T	61997205	T	T	61997205	2	4	90	1	0	0	0	0	0	0	0	1	12535	535	19	1		1	PRKCH	14	61997205	Silent	SNP	C	TCGA-BR-8682-01A-11D-2394-08	810329	61997205	45352335	53	60667											
C15orf26	161502	broad.mit.edu	37	chr15	81428869	81428869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattgtagatgcaactttccGtaactgaagatggctatatt	13	14	8	6	1	0	3	0	1	0	2	1	3	1	3	1	1	3	4	1	1	7	7			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr15:81428869G>A	uc002bgb.2	+	3	199	c.172G>A	c.(172-174)GTA>ATA	p.V58I	C15orf26_uc010blp.1_Missense_Mutation_p.V33I	NM_173528	NP_775799	Q6P656	CO026_HUMAN	hypothetical protein LOC161502	58											0						GCAACTTTCCGTAACTGAAGA	0.408													10	45					0	0	0.058154	0	0		A	81428869	A	A	81428869	3	1	90	1	0	0	0	0	1	0	0	0	1790	1145	40	1	182	1	C15orf26	15	81428869	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08		81428869	21102523	54	60668											
LUC7L	55692	broad.mit.edu	37	chr16	240114	240114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatcttgaccgcctccgaCgccgatcccgggagcgtgac	7	7	12	15	6	1	3	0	2	1	1	3	6	3	4	5	1	1	0	5	1	1	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr16:240114C>T	uc002cgc.1	-	9	938	c.827G>A	c.(826-828)CGT>CAT	p.R276H	LUC7L_uc002cga.1_Missense_Mutation_p.R276H|LUC7L_uc002cgd.1_RNA|LUC7L_uc002cge.1_Missense_Mutation_p.R276H|LUC7L_uc002cgb.1_Missense_Mutation_p.R190H	NM_201412	NP_958815	Q9NQ29	LUC7L_HUMAN	LUC7-like isoform b	276	Arg/Ser-rich.						metal ion binding			central_nervous_system(1)	1		all_cancers(16;1.1e-06)|all_epithelial(16;2.71e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.0138)|all_lung(18;0.0306)				CCGCCTCCGACGCCGATCCCG	0.622													7	23					0	0	0.02938	0	0		T	240114	T	T	240114	3	4	90	1	0	0	0	0	1	0	0	0	9100	536	19	1	300	1	LUC7L	16	240114	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08		240114	90114639	55	60669											
AXIN1	8312	broad.mit.edu	37	chr16	347940	347940	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggccggccgcgtccagcttCgcccctgacttgggtacgtg	4	8	14	15	5	0	1	0	1	0	0	2	1	1	1	5	3	2	2	5	3	1	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr16:347940C>T	uc002cgp.1	-	6	1743	c.1566G>A	c.(1564-1566)GCG>GCA	p.A522A	AXIN1_uc002cgq.1_Silent_p.A522A	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	522	Interaction with RNF111.				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				CGTCCAGCTTCGCCCCTGACT	0.716													6	22					0	0	0.02938	0	0		T	347940	T	T	347940	2	4	90	1	0	0	0	0	0	0	0	1	1237	871	31	1		1	AXIN1	16	347940	Silent	SNP	C	TCGA-BR-8682-01A-11D-2394-08	107826	347940	90006813	56	60670											
PRR25	388199	broad.mit.edu	37	chr16	855739	855739	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctcaggaacagcgcagccGctcgcaaatgcagtgtgcga	11	5	13	12	4	1	0	1	0	0	0	2	2	1	1	1	1	6	5	1	1	2	0			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr16:855739G>A	uc010uut.1	+	1	297	c.297G>A	c.(295-297)CCG>CCA	p.P99P		NM_001013638	NP_001013660	Q96S07	PRR25_HUMAN	proline rich 25	99										large_intestine(1)	1						CAGCGCAGCCGCTCGCAAATG	0.647													13	39					0	0	0.105934	0	0		A	855739	A	A	855739	2	1	90	1	0	0	0	0	0	0	0	1	12619	1074	38	1		1	PRR25	16	855739	Silent	SNP	G	TCGA-BR-8682-01A-11D-2394-08	507799	855739	89499014	57	60671											
SNX29	92017	broad.mit.edu	37	chr16	12293530	12293530	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgctgaaaagagaaggtcaAacagctgaaggtgaggggga	16	5	16	4	0	1	4	1	3	0	1	1	6	1	5	0	4	3	2	0	4	5	0	rs142571390	by1000genomes	TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr16:12293530A>G	uc002dby.3	+	7	569	c.513A>G	c.(511-513)CAA>CAG	p.Q171Q	SNX29_uc010uyx.1_Silent_p.Q198Q	NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	171					cell communication		phosphatidylinositol binding			ovary(1)	1						GAGAAGGTCAAACAGCTGAAG	0.493													3	18					0	0	0.115264	0	0		G	12293530	G	G	12293530	2	3	90	1	0	0	0	0	0	0	0	1	14923	11	1	3		3	SNX29	16	12293530	Silent	SNP	A	TCGA-BR-8682-01A-11D-2394-08	11437791	12293530	78061223	58	60672											
SALL1	6299	broad.mit.edu	37	chr16	51174418	51174418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgggggctggctcttccGtcttgatgaagggtatgagg	6	11	18	6	1	2	3	0	3	2	0	3	4	3	4	1	6	0	3	1	6	2	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr16:51174418G>A	uc010vgs.1	-	2	1746	c.1715C>T	c.(1714-1716)ACG>ATG	p.T572M	SALL1_uc010vgr.1_Missense_Mutation_p.T475M|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	572					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TGGCTCTTCCGTCTTGATGAA	0.602													12	47					0	0	0.11911	0	0		A	51174418	A	A	51174418	3	1	90	1	0	0	0	0	1	0	0	0	13835	1145	40	1	2267	1	SALL1	16	51174418	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	38880888	51174418	39180335	59	60673											
TRADD	8717	broad.mit.edu	37	chr16	67189149	67189149	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagccgcacttcagatttcGcagcgcatcctccagctcag	8	8	9	16	4	2	1	2	0	0	1	5	2	4	1	3	0	3	4	3	0	0	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr16:67189149G>A	uc002eri.1	-	4	558	c.478C>T	c.(478-480)CGA>TGA	p.R160*	TRADD_uc002erh.1_Nonsense_Mutation_p.R100*	NM_003789	NP_003780	Q15628	TRADD_HUMAN	TNFRSF1A-associated via death domain	160					activation of caspase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|tumor necrosis factor-mediated signaling pathway	cytoskeleton|cytosol|receptor complex	binding, bridging|death domain binding|identical protein binding|kinase binding|signal transducer activity			lung(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		TTCAGATTTCGCAGCGCATCC	0.701													7	13					0	0	0.02938	0	0		A	67189149	A	A	67189149	4	1	90	1	0	0	0	0	0	1	0	0	16462	1095	38	1	468	1	TRADD	16	67189149	Nonsense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	16014731	67189149	23165604	60	60674											
TP53	7157	broad.mit.edu	37	chr17	7577022	7577022	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtcctgcttgcttacctcGcttagtgctccctgggggca	3	14	11	13	1	0	0	0	0	0	0	3	0	2	0	3	2	4	5	3	2	2	4	rs121913344		TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr17:7577022G>A	uc002gim.2	-	8	1110	c.916C>T	c.(916-918)CGA>TGA	p.R306*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.R306*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R174*|TP53_uc010cng.1_Nonsense_Mutation_p.R174*|TP53_uc002gii.1_Nonsense_Mutation_p.R174*|TP53_uc010cnh.1_Nonsense_Mutation_p.R306*|TP53_uc010cni.1_Nonsense_Mutation_p.R306*|TP53_uc002gij.2_Nonsense_Mutation_p.R306*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	306	Bipartite nuclear localization signal.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.		R -> Q (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R306*(99)|p.0?(7)|p.?(3)|p.R306R(2)|p.R306fs*39(2)|p.K305fs*1(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TGCTTACCTCGCTTAGTGCTC	0.562	R306*(MFE296_ENDOMETRIUM)|R306*(HCC1937_BREAST)|R306*(MOLT4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R306*(RCM1_LARGE_INTESTINE)|R306*(JURLMK1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			16	60					0	0	0.049695	0	0		A	7577022	A	A	7577022	4	1	90	1	0	0	0	0	0	1	0	0	16407	1095	38	1	370	1	TP53	17	7577022	Nonsense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08		7577022	73618188	61	60675											
MYST2	11143	broad.mit.edu	37	chr17	47903390	47903390	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttccaaagtcgaagaaaaAgttggctccccagaacgtcc	13	8	8	12	2	0	2	0	0	0	2	4	3	3	2	4	1	1	2	4	1	5	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr17:47903390A>C	uc002ipm.2	+	13	1635	c.1509A>C	c.(1507-1509)AAA>AAC	p.K503N	MYST2_uc010wma.1_Missense_Mutation_p.K364N|MYST2_uc010wmb.1_Missense_Mutation_p.K393N|MYST2_uc010wmc.1_Missense_Mutation_p.K334N|MYST2_uc010wmd.1_Missense_Mutation_p.K347N|MYST2_uc010wme.1_Missense_Mutation_p.K317N|MYST2_uc010wmf.1_Missense_Mutation_p.K168N|MYST2_uc010wmg.1_Missense_Mutation_p.K58N	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2	503					DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						TCGAAGAAAAAGTTGGCTCCC	0.428													25	78					0	0	0.099896	0	0		C	47903390	C	C	47903390	3	2	90	1	0	0	0	0	1	0	0	0	10121	69	3	5	1559	5	MYST2	17	47903390	Missense_Mutation	SNP	A	TCGA-BR-8682-01A-11D-2394-08	40326368	47903390	33291820	62	60676											
INSR	3643	broad.mit.edu	37	chr19	7132311	7132311	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagcgaagtgcttgcgggaGacgcagagatgcagctcctg	10	6	16	9	3	0	3	0	0	0	3	1	6	1	3	1	1	5	4	1	1	1	1			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr19:7132311G>A	uc002mgd.1	-	14	2809	c.2700C>T	c.(2698-2700)GTC>GTT	p.V900V	INSR_uc002mge.1_Silent_p.V888V	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	900	Fibronectin type-III 3.|Extracellular (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GCTTGCGGGAGACGCAGAGAT	0.652													4	38					0	0	0.009096	0	0		A	7132311	A	A	7132311	2	1	90	1	0	0	0	0	0	0	0	1	7789	929	33	4		4	INSR	19	7132311	Silent	SNP	G	TCGA-BR-8682-01A-11D-2394-08		7132311	51996672	63	60677											
OR1M1	125963	broad.mit.edu	37	chr19	9204290	9204290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggcttatgaccggttcGtggccatctgccacccattg	6	12	11	12	2	1	2	0	2	1	0	2	2	1	2	4	3	1	2	4	3	1	3	rs148262558	by1000genomes	TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr19:9204290G>A	uc010xkj.1	+	1	370	c.370G>A	c.(370-372)GTG>ATG	p.V124M		NM_001004456	NP_001004456	Q8NGA1	OR1M1_HUMAN	olfactory receptor, family 1, subfamily M,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3						TGACCGGTTCGTGGCCATCTG	0.552													23	110					0	0	0.062417	0	0		A	9204290	A	A	9204290	3	1	90	1	0	0	0	0	1	0	0	0	10987	1145	40	1	372	1	OR1M1	19	9204290	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	2071979	9204290	49924693	64	60678											
SLC5A5	6528	broad.mit.edu	37	chr19	17994560	17994560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttgggaatgttcctgcCggcctgcaacacaccggtga	8	9	11	13	2	1	1	0	1	1	0	2	2	2	2	4	3	3	2	4	3	2	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr19:17994560C>T	uc002nhr.3	+	11	1660	c.1313C>T	c.(1312-1314)CCG>CTG	p.P438L		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	438	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						ATGTTCCTGCCGGCCTGCAAC	0.562													23	66					0	0	0.076483	0	0		T	17994560	T	T	17994560	3	4	90	1	0	0	0	0	1	0	0	0	14693	652	23	1	1355	1	SLC5A5	19	17994560	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	8790270	17994560	41134423	65	60679											
KIAA1683	80726	broad.mit.edu	37	chr19	18378091	18378091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcttgaaggcctggctctCgaccacagcccggaggcgtg	6	8	14	13	3	2	1	0	1	2	0	3	3	2	2	3	4	1	2	3	4	1	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr19:18378091C>T	uc002nin.2	-	3	475	c.259G>A	c.(259-261)GAG>AAG	p.E87K	KIAA1683_uc010ebn.2_Missense_Mutation_p.E87K|KIAA1683_uc010xqe.1_Missense_Mutation_p.E41K	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	87						mitochondrion				ovary(2)	2						GCCTGGCTCTCGACCACAGCC	0.647													32	92					0	0	0.054565	0	0		T	18378091	T	T	18378091	3	4	90	1	0	0	0	0	1	0	0	0	8267	893	31	1	3852	1	KIAA1683	19	18378091	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	383531	18378091	40750892	66	60680											
ZNF536	9745	broad.mit.edu	37	chr19	31040026	31040026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctctctgacattgcctcctCagaggacatggactcctcca	8	10	7	16	0	2	2	1	1	1	1	6	4	5	4	5	2	1	0	5	2	0	1			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr19:31040026C>T	uc002nsu.1	+	4	3638	c.3500C>T	c.(3499-3501)TCA>TTA	p.S1167L	ZNF536_uc010edd.1_Missense_Mutation_p.S1167L	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1167					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					ATTGCCTCCTCAGAGGACATG	0.527													8	92					0	0	0.047766	0	0		T	31040026	T	T	31040026	3	4	90	1	0	0	0	0	1	0	0	0	17999	838	29	4	3510	4	ZNF536	19	31040026	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	12661935	31040026	28088957	67	60681											
GGN	199720	broad.mit.edu	37	chr19	38876902	38876902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtggcggcggtagggcccGggcttgggacgcaggcgccg	3	4	23	11	6	0	0	0	0	0	0	0	1	0	1	2	8	0	3	2	8	1	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr19:38876902G>A	uc002oij.1	-	3	1135	c.1000C>T	c.(1000-1002)CGG>TGG	p.R334W	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Missense_Mutation_p.R251W	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	334	Interaction with GGNBP1 (By similarity).|Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GGTAGGGCCCGGGCTTGGGAC	0.667													6	24					0	0	0.038147	0	0		A	38876902	A	A	38876902	3	1	90	1	0	0	0	0	1	0	0	0	6373	1115	39	1	966	1	GGN	19	38876902	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	7836876	38876902	20252081	68	60682											
PAK7	57144	broad.mit.edu	37	chr20	9561532	9561532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaaatcctctagcaggcCgttgatggaggtttccttgc	8	12	11	10	1	2	1	1	1	1	0	4	2	4	2	3	3	2	3	3	3	3	4			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr20:9561532C>T	uc002wnl.2	-	5	795	c.250G>A	c.(250-252)GGC>AGC	p.G84S	PAK7_uc002wnk.2_Missense_Mutation_p.G84S|PAK7_uc002wnj.2_Missense_Mutation_p.G84S|PAK7_uc010gby.1_Missense_Mutation_p.G84S	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	84	Linker.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			TCTAGCAGGCCGTTGATGGAG	0.463													38	118					0	0	0.080422	0	0		T	9561532	T	T	9561532	3	4	90	1	0	0	0	0	1	0	0	0	11424	652	23	1	1937	1	PAK7	20	9561532	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08		9561532	53463988	69	60683											
KIF16B	55614	broad.mit.edu	37	chr20	16336990	16336990	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaccttgacctcaaactcGaagtgtgcatcctttccttg	8	13	6	14	1	2	1	2	1	0	0	5	2	4	1	4	0	2	1	4	0	2	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr20:16336990G>A	uc002wpg.1	-	23	3764	c.3606C>T	c.(3604-3606)TTC>TTT	p.F1202F	KIF16B_uc002wpe.1_Silent_p.F584F|KIF16B_uc002wpf.1_Intron|KIF16B_uc010gch.1_Silent_p.F1151F	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	1202	PX.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						CCTCAAACTCGAAGTGTGCAT	0.458													4	38					0	0	0.021553	0	0		A	16336990	A	A	16336990	2	1	90	1	0	0	0	0	0	0	0	1	8294	1049	37	1		1	KIF16B	20	16336990	Silent	SNP	G	TCGA-BR-8682-01A-11D-2394-08	6775458	16336990	46688530	70	60684											
XKR7	343702	broad.mit.edu	37	chr20	30584454	30584454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacctgttcagcattgccGcccgcggcctggccttcgcg	3	8	13	17	5	1	0	1	0	0	0	2	0	1	0	5	3	2	3	5	3	0	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr20:30584454G>A	uc002wxe.2	+	3	1108	c.934G>A	c.(934-936)GCC>ACC	p.A312T		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	312						integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			CAGCATTGCCGCCCGCGGCCT	0.632													42	73					0	0	0.139131	0	0		A	30584454	A	A	30584454	3	1	90	1	0	0	0	0	1	0	0	0	17462	1087	38	1	944	1	XKR7	20	30584454	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	14247464	30584454	32441066	71	60685											
MYL9	10398	broad.mit.edu	37	chr20	35176528	35176528	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcaccatgtttggggagaAgctgaacggcacggaccccg	9	6	13	13	3	1	2	1	1	0	1	1	4	1	3	4	4	2	3	4	4	2	1			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr20:35176528A>C	uc002xfl.1	+	3	372	c.278A>C	c.(277-279)AAG>ACG	p.K93T	uc002xfk.3_Intron|MYL9_uc002xfm.1_Intron	NM_006097	NP_006088	P24844	MYL9_HUMAN	myosin regulatory light chain 9 isoform a	93					axon guidance|muscle contraction|regulation of muscle contraction	cytosol|muscle myosin complex	calcium ion binding|structural constituent of muscle				0	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				TTTGGGGAGAAGCTGAACGGC	0.612													5	70					0	0	0.02938	0	0		C	35176528	C	C	35176528	3	2	90	1	0	0	0	0	1	0	0	0	10072	72	3	5	284	5	MYL9	20	35176528	Missense_Mutation	SNP	A	TCGA-BR-8682-01A-11D-2394-08	4592074	35176528	27848992	72	60686											
ZHX3	23051	broad.mit.edu	37	chr20	39832810	39832810	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcccgttggcggcatggggGttttttgcagagctggcaga	5	10	18	8	2	0	2	0	0	0	2	0	2	0	2	1	6	2	6	1	6	0	4			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr20:39832810G>T	uc002xjs.1	-	3	1125	c.747C>A	c.(745-747)AAC>AAA	p.N249K	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Missense_Mutation_p.N249K|ZHX3_uc002xjt.1_Missense_Mutation_p.N249K|ZHX3_uc002xju.1_Missense_Mutation_p.N249K|ZHX3_uc002xjv.1_Missense_Mutation_p.N249K|ZHX3_uc002xjw.1_Missense_Mutation_p.N249K|ZHX3_uc010ggg.1_Missense_Mutation_p.N249K	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	249	Required for homodimerization and interaction with NFYA.				negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				CGGCATGGGGGTTTTTTGCAG	0.587													22	135					1.2644e-06	1.32891e-06	0.055883	1	0		T	39832810	T	T	39832810	3	4	90	1	0	0	0	0	1	0	0	0	17702	1252	44	5	2131	5	ZHX3	20	39832810	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08	4656282	39832810	23192710	73	60687											
NCOA3	8202	broad.mit.edu	37	chr20	46266482	46266482	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatatcctcaaatggtagtCatctggggactaagcaacag	13	9	9	10	0	3	0	2	0	1	0	4	1	4	1	2	3	2	2	2	3	5	3			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr20:46266482C>T	uc002xtk.2	+	13	2672	c.2467C>T	c.(2467-2469)CAT>TAT	p.H823Y	NCOA3_uc010ght.1_Missense_Mutation_p.H833Y|NCOA3_uc002xtl.2_Missense_Mutation_p.H823Y|NCOA3_uc002xtm.2_Missense_Mutation_p.H823Y|NCOA3_uc002xtn.2_Missense_Mutation_p.H823Y|NCOA3_uc010zyc.1_Missense_Mutation_p.H618Y	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	823					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						AAATGGTAGTCATCTGGGGAC	0.358													14	111					0	0	0.043863	0	0		T	46266482	T	T	46266482	3	4	90	1	0	0	0	0	1	0	0	0	10249	826	29	4	2539	4	NCOA3	20	46266482	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08	6433672	46266482	16759038	74	60688											
TMPRSS3	64699	broad.mit.edu	37	chr21	43805630	43805630	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctcactctgaggttatCtgaactcacatagctgcaag	11	10	9	11	1	4	2	2	2	2	0	4	3	4	2	0	1	4	4	0	1	4	2			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr21:43805630C>A	uc002zbb.2	-	6	661	c.460G>T	c.(460-462)GAT>TAT	p.D154Y	TMPRSS3_uc002zay.2_5'Flank|TMPRSS3_uc002zaz.2_Missense_Mutation_p.D27Y|TMPRSS3_uc002zba.2_Missense_Mutation_p.D27Y|TMPRSS3_uc002zbc.2_Missense_Mutation_p.D154Y|TMPRSS3_uc002zbd.2_Missense_Mutation_p.D154Y	NM_024022	NP_076927	P57727	TMPS3_HUMAN	transmembrane protease, serine 3 isoform 1	154	SRCR.|Extracellular (Potential).				cellular sodium ion homeostasis|proteolysis	endoplasmic reticulum membrane|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity|sodium channel regulator activity			ovary(2)|breast(1)	3						CTGAGGTTATCTGAACTCACA	0.498													39	167					1.57019e-19	1.70242e-19	0.09836	1	0		A	43805630	A	A	43805630	3	1	90	1	0	0	0	0	1	0	0	0	16273	913	32	5	1019	5	TMPRSS3	21	43805630	Missense_Mutation	SNP	C	TCGA-BR-8682-01A-11D-2394-08		43805630	4324265	75	60689											
PRAME	23532	broad.mit.edu	37	chr22	22890846	22890846	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcaaggagctgatcatcCgtgatcccacactcatcaaa	13	7	9	12	1	3	2	3	2	0	0	5	3	5	3	2	2	1	2	2	2	2	0			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chr22:22890846C>T	uc002zwf.2	-	5	1329	c.1173G>A	c.(1171-1173)ACG>ACA	p.T391T	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Silent_p.T375T|PRAME_uc010gtr.2_Silent_p.T391T|PRAME_uc002zwg.2_Silent_p.T391T|PRAME_uc002zwh.2_Silent_p.T391T|PRAME_uc002zwi.2_Silent_p.T391T|PRAME_uc002zwj.2_Silent_p.T391T|PRAME_uc002zwk.2_Silent_p.T391T	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	391	LRR 3.				apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		GCTGATCATCCGTGATCCCAC	0.567													17	104					0	0	0.146539	0	0		T	22890846	T	T	22890846	2	4	90	1	0	0	0	0	0	0	0	1	12446	639	23	1		1	PRAME	22	22890846	Silent	SNP	C	TCGA-BR-8682-01A-11D-2394-08		22890846	28413720	76	60690											
KIAA1210	57481	broad.mit.edu	37	chrX	118219449	118219449	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcttctgcttctgctttGccatagttatccaaaccggc	8	14	6	13	1	3	0	0	0	3	0	4	0	4	0	3	1	5	3	3	1	4	5			TCGA-BR-8682-01A-11D-2394-08	TCGA-BR-8682-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea2055d1-7b8b-4aaf-9a70-8802f4deef9b	e959d24d-aab8-4a7e-a29c-5e2370ddcad8	g.chrX:118219449G>T	uc004era.3	-	12	4745	c.4745C>A	c.(4744-4746)GCA>GAA	p.A1582E		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1582										ovary(4)|skin(1)	5						CTTCTGCTTTGCCATAGTTAT	0.448													15	13					1.49906e-05	1.55963e-05	0.11911	1	0		T	118219449	T	T	118219449	3	4	90	1	0	0	0	0	1	0	0	0	8230	1319	46	5	396	5	KIAA1210	23	118219449	Missense_Mutation	SNP	G	TCGA-BR-8682-01A-11D-2394-08		118219449	37051111	77	60691											
CDC20	991	broad.mit.edu	37	chr1	43826794	43826794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctttattccatctaggccGtagcatggtgtccctggcag	7	12	10	12	1	1	0	0	0	1	0	3	0	3	0	4	3	1	3	4	3	3	5	rs1801456	byFrequency	TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:43826794G>A	uc001cix.2	+	9	1182	c.1081G>A	c.(1081-1083)GTA>ATA	p.V361I	CDC20_uc001ciy.2_Missense_Mutation_p.V361I	NM_001255	NP_001246	Q12834	CDC20_HUMAN	cell division cycle 20	361	WD 5.				activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of synapse maturation|positive regulation of synaptic plasticity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	cytosol|nucleoplasm|spindle	enzyme binding|protein C-terminus binding				0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CATCTAGGCCGTAGCATGGTG	0.557													4	56					0	0	0.014758	0	0		A	43826794	A	A	43826794	3	1	91	1	0	0	0	0	1	0	0	0	3062	1145	40	1	1111	1	CDC20	1	43826794	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08		43826794	205423827	1	60692											
NRD1	4898	broad.mit.edu	37	chr1	52280263	52280263	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcagcatttttaaatactGaaagacagtgtaagcaacct	15	11	7	8	0	0	2	0	1	0	1	0	2	0	2	1	0	5	4	1	0	6	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:52280263G>A	uc001ctc.3	-	15	2105	c.1783C>T	c.(1783-1785)CAG>TAG	p.Q595*	NRD1_uc009vzb.2_Nonsense_Mutation_p.Q290*|NRD1_uc001ctd.3_Nonsense_Mutation_p.Q527*|NRD1_uc001cte.2_Nonsense_Mutation_p.Q463*|NRD1_uc001ctf.2_Nonsense_Mutation_p.Q527*|NRD1_uc010ong.1_RNA|NRD1_uc009vzc.1_Nonsense_Mutation_p.Q395*	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	526				Q -> L (in Ref. 2; CAA63698/CAA63694).	cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						TTTAAATACTGAAAGACAGTG	0.363													14	58					0	0	0.028581	0	0		A	52280263	A	A	52280263	4	1	91	1	0	0	0	0	0	1	0	0	10664	1299	45	4	1952	4	NRD1	1	52280263	Nonsense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	8453469	52280263	196970358	2	60693											
BCAS2	10286	broad.mit.edu	37	chr1	115123954	115123954	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatccggggctgtcaggtagCtcaggtagttcttagtaggt	8	12	14	7	1	3	0	2	0	1	0	4	0	4	0	1	5	1	6	1	5	5	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:115123954C>G	uc001efa.2	-	2	205	c.152G>C	c.(151-153)AGC>ACC	p.S51T	DENND2C_uc001eez.2_RNA	NM_005872	NP_005863	O75934	SPF27_HUMAN	breast carcinoma amplified sequence 2	51					mRNA processing|RNA splicing, via transesterification reactions	nucleolus|spliceosomal complex	protein binding			large_intestine(1)	1	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGTCAGGTAGCTCAGGTAGTT	0.473													33	174					0	0	0.021022	0	0		G	115123954	G	G	115123954	3	3	91	1	0	0	0	0	1	0	0	0	1352	797	28	5	549	5	BCAS2	1	115123954	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	62843691	115123954	134126667	3	60694											
TSPAN2	10100	broad.mit.edu	37	chr1	115615613	115615613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatagtccaaaagcaatgaCggccgatccagccagctgga	13	5	10	13	2	0	1	0	1	0	0	2	3	2	2	5	2	3	2	5	2	4	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:115615613C>T	uc001eft.2	-	2	147	c.85G>A	c.(85-87)GTC>ATC	p.V29I		NM_005725	NP_005716	O60636	TSN2_HUMAN	tetraspan 2	29	Helical; (Potential).					integral to membrane					0	Lung SC(450;0.211)	all_cancers(81;2.9e-07)|all_epithelial(167;1.42e-06)|all_lung(203;6.72e-06)|Lung NSC(69;1.13e-05)|Acute lymphoblastic leukemia(138;0.191)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|all cancers(265;0.159)|Epithelial(280;0.179)		AAAGCAATGACGGCCGATCCA	0.517													17	21					0	0	0.006122	0	0		T	115615613	T	T	115615613	3	4	91	1	0	0	0	0	1	0	0	0	16670	536	19	1	608	1	TSPAN2	1	115615613	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	491659	115615613	133635008	4	60695											
FLG	2312	broad.mit.edu	37	chr1	152278792	152278792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtggaagcttcatggtgaCgcgaccctgagtgcctggag	8	8	16	9	2	1	2	1	2	0	0	1	6	1	4	2	3	2	1	2	3	1	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:152278792C>T	uc001ezu.1	-	3	8606	c.8570G>A	c.(8569-8571)CGT>CAT	p.R2857H		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2857	Ser-rich.|Filaggrin 17.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCATGGTGACGCGACCCTGA	0.572									Ichthyosis				71	845					0	0	0.01441	0	0		T	152278792	T	T	152278792	3	4	91	1	0	0	0	0	1	0	0	0	5936	536	19	1	3619	1	FLG	1	152278792	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	36663179	152278792	96971829	5	60696											
SYT11	23208	broad.mit.edu	37	chr1	155850376	155850376	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggtggtcctcaaagccaGacacttgccgaagatggata	12	8	12	9	1	1	2	1	0	0	2	2	4	2	3	3	3	2	0	3	3	3	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:155850376G>T	uc001fmg.2	+	3	1210	c.947G>T	c.(946-948)AGA>ATA	p.R316I	SYT11_uc010pgq.1_Missense_Mutation_p.R9I	NM_152280	NP_689493	Q9BT88	SYT11_HUMAN	synaptotagmin XI	316	C2 2.|Cytoplasmic (Potential).					cell junction|synaptic vesicle membrane	protein binding|transporter activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;0.000162)			CTCAAAGCCAGACACTTGCCG	0.502													14	112					9.31168e-06	9.9029e-06	0.016723	1	0		T	155850376	T	T	155850376	3	4	91	1	0	0	0	0	1	0	0	0	15492	942	33	5	957	5	SYT11	1	155850376	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	3571584	155850376	93400245	6	60697											
KIAA0907	22889	broad.mit.edu	37	chr1	155896493	155896493	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggaagggaggcttctggcTaacagctggagacaactgag	11	7	15	8	0	1	2	0	1	1	1	1	5	1	4	0	5	3	3	0	5	3	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:155896493T>C	uc001fmi.1	-	6	679	c.655A>G	c.(655-657)AGC>GGC	p.S219G	KIAA0907_uc001fmj.1_Missense_Mutation_p.S219G|KIAA0907_uc009wrk.1_Intron|KIAA0907_uc009wrl.1_RNA|KIAA0907_uc001fml.1_Missense_Mutation_p.S219G|KIAA0907_uc001fmm.2_Intron|SCARNA4_uc001fmn.1_5'Flank|KIAA0907_uc001fmo.2_Missense_Mutation_p.S219G	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	219											0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			GGCTTCTGGCTAACAGCTGGA	0.418													13	94					0	0	0.013537	0	0		C	155896493	C	C	155896493	3	2	91	1	0	0	0	0	1	0	0	0	8215	1522	53	3	1225	3	KIAA0907	1	155896493	Missense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	46117	155896493	93354128	7	60698											
RXRG	6258	broad.mit.edu	37	chr1	165389170	165389170	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agatccggggctggtggatgGgtagttcatgtttccaatcc	7	12	14	8	1	1	1	1	0	0	1	4	2	4	2	3	5	0	4	3	5	2	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:165389170G>C	uc001gda.2	-	3	679	c.379C>G	c.(379-381)CCA>GCA	p.P127A		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	127	Modulating (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	CTGGTGGATGGGTAGTTCATG	0.498													14	49					0	0	0.024245	0	0		C	165389170	C	C	165389170	3	2	91	1	0	0	0	0	1	0	0	0	13790	1232	43	5	1044	5	RXRG	1	165389170	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	9492677	165389170	83861451	8	60699											
RXRG	6258	broad.mit.edu	37	chr1	165397991	165397991	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcaaccaagttgattcctgGaggcgctgcaagtgctcctg	8	9	13	11	1	0	1	0	1	0	0	2	2	2	2	3	3	3	5	3	3	3	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:165397991G>T	uc001gda.2	-	2	562	c.262C>A	c.(262-264)CCA>ACA	p.P88T		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	88	Modulating (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	TTGATTCCTGGAGGCGCTGCA	0.587													26	45					4.7796e-09	5.42769e-09	0.024334	1	0		T	165397991	T	T	165397991	3	4	91	1	0	0	0	0	1	0	0	0	13790	1174	41	5	1165	5	RXRG	1	165397991	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	8821	165397991	83852630	9	60700											
C1orf14	81626	broad.mit.edu	37	chr1	182873396	182873396	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgttccttcacattttaaTatgcagttttctagagtcat	9	18	5	9	0	3	1	2	0	1	1	4	1	4	1	2	0	1	3	2	0	3	8			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:182873396T>A	uc001gpu.2	-	8	1791	c.1506A>T	c.(1504-1506)ATA>ATT	p.I502I	C1orf14_uc001gpv.2_Silent_p.I383I|C1orf14_uc010pnz.1_Silent_p.I360I|C1orf14_uc001gpw.2_Silent_p.I222I	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	574	PbH1 1.										0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		CACATTTTAATATGCAGTTTT	0.408													15	113					0	0	0.024245	0	0		A	182873396	A	A	182873396	2	1	91	1	0	0	0	0	0	0	0	1	2003	1396	49	5		5	C1orf14	1	182873396	Silent	SNP	T	TCGA-BR-8683-01A-11D-2394-08	17475405	182873396	66377225	10	60701											
KCNT2	343450	broad.mit.edu	37	chr1	196227467	196227467	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagagtgttttgggccttttCtgctcagtcttcgggcccac	4	14	11	12	1	3	1	1	0	2	1	4	1	3	1	2	2	1	2	2	2	0	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:196227467C>G	uc001gtd.1	-	26	3128	c.3068G>C	c.(3067-3069)AGA>ACA	p.R1023T	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.R956T|KCNT2_uc001gtf.1_Missense_Mutation_p.R999T|KCNT2_uc001gtg.1_RNA|KCNT2_uc001gth.1_Missense_Mutation_p.R527T	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	1023	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TGGGCCTTTTCTGCTCAGTCT	0.522													12	70					0	0	0.010729	0	0		G	196227467	G	G	196227467	3	3	91	1	0	0	0	0	1	0	0	0	8108	913	32	5	351	5	KCNT2	1	196227467	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	13354071	196227467	53023154	11	60702											
CFHR3	10878	broad.mit.edu	37	chr1	196744033	196744033	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacatgttgttactaatcaAtgtcattctgaccttgtggg	10	16	8	7	0	3	1	2	1	1	0	3	1	3	1	1	1	2	2	1	1	4	6			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:196744033A>G	uc001gtl.2	+	1	104	c.17A>G	c.(16-18)AAT>AGT	p.N6S	CFHR3_uc001gtk.2_Missense_Mutation_p.N6S|CFHR3_uc010poy.1_Missense_Mutation_p.N6S	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	6						extracellular space					0						TTACTAATCAATGTCATTCTG	0.338													12	67					0	0	0.013537	0	0		G	196744033	G	G	196744033	3	3	91	1	0	0	0	0	1	0	0	0	3289	101	4	3	19	3	CFHR3	1	196744033	Missense_Mutation	SNP	A	TCGA-BR-8683-01A-11D-2394-08	516566	196744033	52506588	12	60703											
F13B	2165	broad.mit.edu	37	chr1	197019844	197019844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctaaacacaatggtggtGtagtccacattccatctaaa	14	11	6	10	0	1	0	0	0	1	0	3	0	3	0	3	2	2	1	3	2	7	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:197019844G>A	uc001gtt.1	-	10	1765	c.1721C>T	c.(1720-1722)ACA>ATA	p.T574I		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	574	Sushi 9.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CAATGGTGGTGTAGTCCACAT	0.338													10	43					0	0	0.008291	0	0		A	197019844	A	A	197019844	3	1	91	1	0	0	0	0	1	0	0	0	5349	1377	48	4	276	4	F13B	1	197019844	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	275811	197019844	52230777	13	60704											
KIF14	9928	broad.mit.edu	37	chr1	200571084	200571084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgttgactattaaacgggCttggttagcatatctaagtg	12	14	10	5	1	1	1	0	1	1	0	1	1	1	1	0	2	2	4	0	2	7	7			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:200571084C>T	uc010ppk.1	-	11	2531	c.2092G>A	c.(2092-2094)GCC>ACC	p.A698T	KIF14_uc010ppj.1_Missense_Mutation_p.A207T	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	698					microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						ATTAAACGGGCTTGGTTAGCA	0.353													13	86					0	0	0.013537	0	0		T	200571084	T	T	200571084	3	4	91	1	0	0	0	0	1	0	0	0	8292	797	28	2	2934	2	KIF14	1	200571084	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	3551240	200571084	48679537	14	60705											
PKP1	5317	broad.mit.edu	37	chr1	201291173	201291173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacgccgaggtgcccacccGctaccgccagctggagtata	8	5	13	15	4	0	0	0	0	0	0	0	3	0	2	5	3	3	3	5	3	3	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:201291173G>A	uc001gwd.2	+	9	1729	c.1478G>A	c.(1477-1479)CGC>CAC	p.R493H	PKP1_uc001gwe.2_Missense_Mutation_p.R472H|PKP1_uc009wzm.2_Missense_Mutation_p.R80H	NM_000299	NP_000290	Q13835	PKP1_HUMAN	plakophilin 1 isoform 1b	493					cell adhesion|cellular component disassembly involved in apoptosis|multicellular organismal development	desmosome|intermediate filament|nucleus	intermediate filament binding|signal transducer activity|structural constituent of epidermis			ovary(2)	2						GTGCCCACCCGCTACCGCCAG	0.597													6	55					0	0	0.021553	0	0		A	201291173	A	A	201291173	3	1	91	1	0	0	0	0	1	0	0	0	12003	1087	38	1	1512	1	PKP1	1	201291173	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	720089	201291173	47959448	15	60706											
PPP1R12B	4660	broad.mit.edu	37	chr1	202464542	202464542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctatggacaaatagattttCagtccctgattctgagagtt	11	14	9	7	0	2	3	1	2	1	2	3	5	3	4	1	1	0	2	1	1	3	6			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:202464542C>T	uc001gya.1	+	16	2411	c.2267C>T	c.(2266-2268)TCA>TTA	p.S756L	PPP1R12B_uc001gxz.1_Missense_Mutation_p.S756L|PPP1R12B_uc001gyb.1_5'UTR|PPP1R12B_uc001gyc.1_5'UTR	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	756					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			AATAGATTTTCAGTCCCTGAT	0.478													10	47					0	0	0.008291	0	0		T	202464542	T	T	202464542	3	4	91	1	0	0	0	0	1	0	0	0	12377	838	29	4	2419	4	PPP1R12B	1	202464542	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	1173369	202464542	46786079	16	60707											
LRRN2	10446	broad.mit.edu	37	chr1	204587896	204587896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcccggaagggcacctcacGgaccgggaggcgctggaggt	7	4	17	13	4	1	0	1	0	0	0	2	4	2	4	3	7	0	2	3	7	1	0	rs141763834		TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:204587896G>A	uc001hbe.1	-	3	1613	c.1225C>T	c.(1225-1227)CGT>TGT	p.R409C	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Missense_Mutation_p.R409C|LRRN2_uc009xbf.1_Missense_Mutation_p.R409C|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	409	Extracellular (Potential).|LRRCT.				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			GGCACCTCACGGACCGGGAGG	0.657													9	58					0	0	0.004482	0	0		A	204587896	A	A	204587896	3	1	91	1	0	0	0	0	1	0	0	0	9053	1116	39	1	920	1	LRRN2	1	204587896	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	2123354	204587896	44662725	17	60708											
GPR137B	7107	broad.mit.edu	37	chr1	236306163	236306163	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctcagctaccagagcgtcTtcctctttctctgcctcttc	4	14	7	16	1	5	1	1	0	4	1	8	1	6	1	3	1	4	2	3	1	1	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:236306163T>A	uc001hxq.2	+	1	332	c.241T>A	c.(241-243)TTC>ATC	p.F81I		NM_003272	NP_003263	O60478	G137B_HUMAN	G protein-coupled receptor 137B	81	Helical; (Potential).					integral to plasma membrane|membrane fraction					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.197)|Prostate(94;0.219)|Acute lymphoblastic leukemia(190;0.226)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			CCAGAGCGTCTTCCTCTTTCT	0.582													17	100					0	0	0.006122	0	0		A	236306163	A	A	236306163	3	1	91	1	0	0	0	0	1	0	0	0	6661	1609	56	5	243	5	GPR137B	1	236306163	Missense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	31718267	236306163	12944458	18	60709											
RYR2	6262	broad.mit.edu	37	chr1	237838114	237838114	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaactcattcgctatgTggatgaagcccatcagtata	13	10	7	11	1	2	1	2	1	0	0	3	2	2	2	2	1	3	2	2	1	6	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr1:237838114T>A	uc001hyl.1	+	60	8918	c.8798T>A	c.(8797-8799)GTG>GAG	p.V2933E	RYR2_uc010pxz.1_5'UTR	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2933	Modulator (Potential).|Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			ATTCGCTATGTGGATGAAGCC	0.413													7	19					0	0	0.00308	0	0		A	237838114	A	A	237838114	3	1	91	1	0	0	0	0	1	0	0	0	13794	1696	59	5	9036	5	RYR2	1	237838114	Missense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	1531951	237838114	11412507	19	60710											
FAM110C	642273	broad.mit.edu	37	chr2	46121	46121	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caacggcttccgcgcaatagCcctgcgcgccaccggggccg	6	4	13	18	7	0	0	0	0	0	0	1	0	1	0	5	3	3	2	5	3	3	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:46121C>G	uc010yim.1	-	1	265	c.265G>C	c.(265-267)GCT>CCT	p.A89P		NM_001077710	NP_001071178	Q1W6H9	F110C_HUMAN	hypothetical protein LOC642273	89						microtubule|microtubule organizing center|spindle pole					0	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.00221)		all cancers(51;0.000815)|Epithelial(75;0.00379)|OV - Ovarian serous cystadenocarcinoma(76;0.0127)|GBM - Glioblastoma multiforme(21;0.232)		CGCGCAATAGCCCTgcgcgcc	0.562													3	18					0	0	0.004672	0	0		G	46121	G	G	46121	3	3	91	1	0	0	0	0	1	0	0	0	5409	739	26	5	708	5	FAM110C	2	46121	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08		46121	243153252	20	60711											
MFSD2B	388931	broad.mit.edu	37	chr2	24240392	24240392	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgggctcatcgtgtccggCgcccacagaccccacaggtg	7	5	12	17	4	1	1	1	0	0	1	3	1	2	1	4	3	0	1	4	3	0	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:24240392C>T	uc002reo.1	+	6	629	c.615C>T	c.(613-615)GGC>GGT	p.G205G	MFSD2B_uc010exz.1_RNA	NM_001080473	NP_001073942	A6NFX1	MFS2B_HUMAN	major facilitator superfamily domain containing	205	Helical; (Potential).				transport	integral to membrane				ovary(2)	2						TCGTGTCCGGCGCCCACAGAC	0.647													3	10					0	0	0.004672	0	0		T	24240392	T	T	24240392	2	4	91	1	0	0	0	0	0	0	0	1	9549	755	27	1		1	MFSD2B	2	24240392	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	24194271	24240392	218958981	21	60712											
SRD5A2	6716	broad.mit.edu	37	chr2	31754396	31754396	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctatggtggtgaaaagctcGcagcccaaggaaacaaagtg	14	6	12	9	1	0	1	0	1	0	0	1	2	0	2	2	3	3	2	2	3	6	1	rs121434248		TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:31754396G>A	uc002rnw.1	-	5	750	c.679C>T	c.(679-681)CGA>TGA	p.R227*		NM_000348	NP_000339	P31213	S5A2_HUMAN	3-oxo-5 alpha-steroid 4-dehydrogenase 2	227					androgen biosynthetic process|cell differentiation|cell-cell signaling|male gonad development	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|sterol 5-alpha reductase activity				0	Acute lymphoblastic leukemia(172;0.155)				Azelaic Acid(DB00548)|Dutasteride(DB01126)	TGAAAAGCTCGCAGCCCAAGG	0.463													6	30					0	0	0.021553	0	0		A	31754396	A	A	31754396	4	1	91	1	0	0	0	0	0	1	0	0	15164	1095	38	1	93	1	SRD5A2	2	31754396	Nonsense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	7514004	31754396	211444977	22	60713											
PLEKHH2	130271	broad.mit.edu	37	chr2	43922307	43922307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attggagaatcagaatcttcGtttgatcaaccaaaaccaaa	17	10	6	8	1	3	3	2	1	1	2	4	4	3	3	2	1	2	1	2	1	6	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:43922307G>A	uc010yny.1	+	6	529	c.446G>A	c.(445-447)CGT>CAT	p.R149H	PLEKHH2_uc002rte.3_Missense_Mutation_p.R149H|PLEKHH2_uc002rtf.3_Missense_Mutation_p.R149H	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	149	Potential.					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CAGAATCTTCGTTTGATCAAC	0.259													4	26					0	0	0.014758	0	0		A	43922307	A	A	43922307	3	1	91	1	0	0	0	0	1	0	0	0	12096	1145	40	1	464	1	PLEKHH2	2	43922307	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	12167911	43922307	199277066	23	60714											
USP34	9736	broad.mit.edu	37	chr2	61493232	61493232	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttgaagaatgtgatttgCactttggctgttgtcggtcc	6	16	11	8	1	1	3	0	2	1	1	3	3	2	3	1	2	1	3	1	2	2	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:61493232C>A	uc002sbe.2	-	42	5526	c.5504G>T	c.(5503-5505)TGC>TTC	p.C1835F	USP34_uc002sbf.2_5'UTR	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	1835					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ATGTGATTTGCACTTTGGCTG	0.408													12	50					0.000978159	0.00099802	0.010729	1	0		A	61493232	A	A	61493232	3	1	91	1	0	0	0	0	1	0	0	0	17091	710	25	5	5292	5	USP34	2	61493232	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	17570925	61493232	181706141	24	60715											
EHBP1	23301	broad.mit.edu	37	chr2	63085542	63085542	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactggcttctgtttacagaAattgtaaaccagttgaatgc	12	13	9	7	0	1	2	0	1	1	1	1	3	1	2	1	1	3	4	1	1	5	6			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:63085542A>T	uc002sby.2	+	8	1118	c.636A>T	c.(634-636)GAA>GAT	p.E212D	EHBP1_uc010fcp.2_Intron|EHBP1_uc002sbx.2_Intron|EHBP1_uc002sbz.2_Intron|EHBP1_uc002scb.2_Intron	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	212				E -> G (in Ref. 2; AAQ97141 and 3; CAD38814).		cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			TGTTTACAGAAATTGTAAACC	0.383									Hereditary_Prostate_Cancer				13	67					0	0	0.016723	0	0		T	63085542	T	T	63085542	3	4	91	1	0	0	0	0	1	0	0	0	4981	28	1	5	662	5	EHBP1	2	63085542	Missense_Mutation	SNP	A	TCGA-BR-8683-01A-11D-2394-08	1592310	63085542	180113831	25	60716											
SMYD5	10322	broad.mit.edu	37	chr2	73446046	73446046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagaccatcttcgtagaaCggcccctggtggctgcacag	8	7	14	12	2	1	2	0	0	1	2	2	3	1	2	3	4	2	3	3	4	2	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:73446046C>T	uc002siw.2	+	2	183	c.154C>T	c.(154-156)CGG>TGG	p.R52W	SMYD5_uc010yre.1_Translation_Start_Site	NM_006062	NP_006053	Q6GMV2	SMYD5_HUMAN	SMYD family member 5	52							metal ion binding				0						CTTCGTAGAACGGCCCCTGGT	0.542													5	62					0	0	0.014758	0	0		T	73446046	T	T	73446046	3	4	91	1	0	0	0	0	1	0	0	0	14850	527	19	1	160	1	SMYD5	2	73446046	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	10360504	73446046	169753327	26	60717											
ZC3H8	84524	broad.mit.edu	37	chr2	112991747	112991747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaatttgttttcccttgcGttccactgtatgttggttga	7	18	8	8	1	0	1	0	1	0	0	2	1	2	1	2	1	1	5	2	1	2	8			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:112991747G>A	uc002thp.2	-	5	677	c.571C>T	c.(571-573)CGC>TGC	p.R191C		NM_032494	NP_115883	Q8N5P1	ZC3H8_HUMAN	zinc finger CCCH-type containing 8	191	C3H1-type 1.				apoptosis|negative regulation of T cell differentiation in thymus|negative regulation of transcription, DNA-dependent|positive regulation of thymocyte apoptosis|response to antibiotic|T cell homeostasis	nucleus	RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTTCCCTTGCGTTCCACTGTA	0.303													3	27					0	0	0.004672	0	0		A	112991747	A	A	112991747	3	1	91	1	0	0	0	0	1	0	0	0	17599	1145	40	1	320	1	ZC3H8	2	112991747	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	39545701	112991747	130207626	27	60718											
POLR1B	84172	broad.mit.edu	37	chr2	113322007	113322007	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctaccctgtcctgctggaCggtgtcatggttggctgggt	3	13	15	10	1	1	0	1	0	0	0	2	1	2	1	2	5	3	4	2	5	1	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:113322007C>T	uc002thw.2	+	10	2257	c.1677C>T	c.(1675-1677)GAC>GAT	p.D559D	POLR1B_uc010fkn.2_Silent_p.D503D|POLR1B_uc002thx.2_Silent_p.D420D|POLR1B_uc010fko.2_Intron|POLR1B_uc010fkp.2_Translation_Start_Site|POLR1B_uc010yxn.1_Silent_p.D597D|POLR1B_uc002thy.2_Silent_p.D420D|POLR1B_uc010yxo.1_Silent_p.D336D	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	559					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1						TCCTGCTGGACGGTGTCATGG	0.502													16	85					0	0	0.024245	0	0		T	113322007	T	T	113322007	2	4	91	1	0	0	0	0	0	0	0	1	12229	535	19	1		1	POLR1B	2	113322007	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	330260	113322007	129877366	28	60719											
LRP1B	53353	broad.mit.edu	37	chr2	141819691	141819691	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccacatagtccaagtaaaGatctacccagtaaaccaatt	16	9	4	12	0	1	1	0	0	1	1	3	1	3	1	4	0	2	2	4	0	8	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:141819691G>T	uc002tvj.1	-	8	2137	c.1165C>A	c.(1165-1167)CTT>ATT	p.L389I	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	389	Extracellular (Potential).|LDL-receptor class B 4.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TCCAAGTAAAGATCTACCCAG	0.423										TSP Lung(27;0.18)			22	103					4.4004e-07	4.88663e-07	0.01892	1	0		T	141819691	T	T	141819691	3	4	91	1	0	0	0	0	1	0	0	0	8973	942	33	5	12970	5	LRP1B	2	141819691	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	28497684	141819691	101379682	29	60720											
ZEB2	9839	broad.mit.edu	37	chr2	145161588	145161588	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttctcttcattcttctcGtggcggtacttgatgtgctc	5	17	9	10	2	4	1	1	1	3	0	7	1	4	1	0	2	2	3	0	2	2	6	rs140169964		TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:145161588G>A	uc002tvu.2	-	6	1182	c.702C>T	c.(700-702)CAC>CAT	p.H234H	ZEB2_uc002tvv.2_Silent_p.H228H|ZEB2_uc010zbm.1_Silent_p.H205H|ZEB2_uc010fnp.2_Silent_p.H142H|ZEB2_uc010fnq.1_Silent_p.H263H	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	234	C2H2-type 1.					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		CATTCTTCTCGTGGCGGTACT	0.557													15	97					0	0	0.020292	0	0		A	145161588	A	A	145161588	2	1	91	1	0	0	0	0	0	0	0	1	17649	1136	40	1		1	ZEB2	2	145161588	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	3341897	145161588	98037785	30	60721											
KCNH7	90134	broad.mit.edu	37	chr2	163393500	163393500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagcgttttcattatccGtcacatattcaaaattaatg	12	15	6	8	2	3	0	3	0	0	0	4	0	4	0	1	1	1	2	1	1	5	6			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:163393500G>A	uc002uch.1	-	3	610	c.398C>T	c.(397-399)ACG>ATG	p.T133M	KCNH7_uc002uci.2_Missense_Mutation_p.T133M	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	133	Cytoplasmic (Potential).|PAC.				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	TTCATTATCCGTCACATATTC	0.388													47	97					0	0	0.010771	0	0		A	163393500	A	A	163393500	3	1	91	1	0	0	0	0	1	0	0	0	8053	1145	40	1	3314	1	KCNH7	2	163393500	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	18231912	163393500	79805873	31	60722											
TTN	7273	broad.mit.edu	37	chr2	179402500	179402500	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagacattttgtatttcCggctttgtatgagctcttta	8	18	8	7	1	1	3	0	2	1	1	2	3	2	3	1	1	1	4	1	1	4	8			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:179402500C>A	uc010zfg.1	-	304	91954	c.91730G>T	c.(91729-91731)CGG>CTG	p.R30577L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R24272L|TTN_uc010zfi.1_Missense_Mutation_p.R24205L|TTN_uc010zfj.1_Missense_Mutation_p.R24080L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31504							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTGTATTTCCGGCTTTGTAT	0.428													6	48					0.00198382	0.00200376	0.02938	1	0		A	179402500	A	A	179402500	3	1	91	1	0	0	0	0	1	0	0	0	16761	652	23	5	8577	5	TTN	2	179402500	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	16009000	179402500	63796873	32	60723											
TTN	7273	broad.mit.edu	37	chr2	179452842	179452842	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatttccacaacatatcCaatgatcggtgcaccaccat	12	11	4	14	1	1	1	1	1	1	0	5	1	3	1	4	1	2	1	4	1	3	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:179452842C>G	uc010zfg.1	-	254	55812	c.55588G>C	c.(55588-55590)GGA>CGA	p.G18530R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G12225R|TTN_uc010zfi.1_Missense_Mutation_p.G12158R|TTN_uc010zfj.1_Missense_Mutation_p.G12033R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19457							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACAACATATCCAATGATCGGT	0.463													18	46					0	0	0.0333	0	0		G	179452842	G	G	179452842	3	3	91	1	0	0	0	0	1	0	0	0	16761	603	21	5	44919	5	TTN	2	179452842	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	50342	179452842	63746531	33	60724											
TTN	7273	broad.mit.edu	37	chr2	179483457	179483457	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatggtttttgtagataaaGgttcattttctttaaaccat	12	18	6	5	0	2	1	1	0	1	1	2	1	2	1	1	2	1	3	1	2	6	9			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:179483457G>T	uc010zfg.1	-	200	39340	c.39116C>A	c.(39115-39117)CCT>CAT	p.P13039H	TTN_uc010zfh.1_Missense_Mutation_p.P6734H|TTN_uc010zfi.1_Missense_Mutation_p.P6667H|TTN_uc010zfj.1_Missense_Mutation_p.P6542H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13966							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGTAGATAAAGGTTCATTTTC	0.408													4	45					0.00024832	0.00025996	0.009096	1	0		T	179483457	T	T	179483457	3	4	91	1	0	0	0	0	1	0	0	0	16761	1000	35	5	61321	5	TTN	2	179483457	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	30615	179483457	63715916	34	60725											
CALCRL	10203	broad.mit.edu	37	chr2	188225342	188225342	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccccagccaagaaaataaTaccacattaaatgttgcttc	16	10	4	11	0	0	1	0	0	0	1	1	1	0	1	4	0	4	2	4	0	8	6			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:188225342T>A	uc002upv.3	-	10	1312	c.764A>T	c.(763-765)TAT>TTT	p.Y255F	CALCRL_uc010frt.2_Missense_Mutation_p.Y255F	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	255	Helical; Name=4; (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			AAGAAAATAATACCACATTAA	0.393													5	56					0	0	0.014758	0	0		A	188225342	A	A	188225342	3	1	91	1	0	0	0	0	1	0	0	0	2583	1406	49	5	645	5	CALCRL	2	188225342	Missense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	8741885	188225342	54974031	35	60726											
CCDC108	255101	broad.mit.edu	37	chr2	219875581	219875581	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaagacccgggcagtgctGcctggctggatctccccttt	6	9	11	15	1	1	1	0	0	1	1	2	2	1	2	4	3	2	3	4	3	1	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:219875581G>T	uc002vjl.1	-	25	4179	c.4095C>A	c.(4093-4095)GGC>GGA	p.G1365G		NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	1365						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGGCAGTGCTGCCTGGCTGGA	0.552													11	19					1.61879e-10	1.86998e-10	0.013537	1	0		T	219875581	T	T	219875581	2	4	91	1	0	0	0	0	0	0	0	1	2746	1306	46	5		5	CCDC108	2	219875581	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	31650239	219875581	23323792	36	60727											
PAX3	5077	broad.mit.edu	37	chr2	223086025	223086025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtgggagggaacccccCgggaatgagatggttgaaag	11	5	18	7	1	0	2	0	2	0	1	0	6	0	5	3	5	1	2	3	5	3	1	rs142651003		TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr2:223086025C>T	uc010fwo.2	-	6	1240	c.874G>A	c.(874-876)GGG>AGG	p.G292R	PAX3_uc002vmt.1_Missense_Mutation_p.G292R|PAX3_uc002vmy.1_Missense_Mutation_p.G291R|PAX3_uc002vmv.1_Missense_Mutation_p.G292R|PAX3_uc002vmw.1_Missense_Mutation_p.G292R|PAX3_uc002vmx.1_Missense_Mutation_p.G292R	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	292					apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGGAACCCCCCGGGAATGAGA	0.527			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						73	163					0	0	0.01441	0	0		T	223086025	T	T	223086025	3	4	91	1	0	0	0	0	1	0	0	0	11499	652	23	1	691	1	PAX3	2	223086025	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	3210444	223086025	20113348	37	60728											
XPC	7508	broad.mit.edu	37	chr3	14200141	14200141	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccggccatgcggacgtcgCtgggttgccttctcctgctt	2	12	12	15	4	1	0	0	0	1	0	4	1	2	1	4	3	3	3	4	3	0	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr3:14200141C>T	uc011ave.1	-	9	1346	c.1242G>A	c.(1240-1242)CAG>CAA	p.Q414Q	XPC_uc011avf.1_Silent_p.Q221Q|XPC_uc011avg.1_Silent_p.Q377Q	NM_004628	NP_004619	Q01831	XPC_HUMAN	xeroderma pigmentosum, complementation group C	414	Arg/Lys-rich (basic).				nucleotide-excision repair, DNA damage recognition|nucleotide-excision repair, DNA damage removal	cytoplasm|nucleoplasm|XPC complex	bubble DNA binding|damaged DNA binding|loop DNA binding|protein binding|single-stranded DNA binding			ovary(2)|breast(1)	3						GCGGACGTCGCTGGGTTGCCT	0.602			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		NER	Xeroderma_Pigmentosum				21	100					0	0	0.030593	0	0		T	14200141	T	T	14200141	2	4	91	1	0	0	0	0	0	0	0	1	17467	796	28	2		2	XPC	3	14200141	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08		14200141	183822289	38	60729											
HIGD1A	25994	broad.mit.edu	37	chr3	42827591	42827591	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagatgaatggacattttaGtatttcccctgctcttcagt	9	16	7	9	0	3	2	2	1	1	1	4	3	4	3	2	1	1	2	2	1	3	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr3:42827591G>T	uc003cma.3	-	3	307	c.161C>A	c.(160-162)ACT>AAT	p.T54N	HIGD1A_uc010hid.2_Missense_Mutation_p.T68N|HIGD1A_uc003cmb.3_Missense_Mutation_p.T54N	NM_001099669	NP_001093139	Q9Y241	HIG1A_HUMAN	HIG1 domain family, member 1A isoform b	54	Extracellular (Potential).|HIG1.				response to stress	integral to membrane|protein complex	protein binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.217)		GGACATTTTAGTATTTCCCCT	0.393													12	69					1.5842e-08	1.7889e-08	0.016723	1	0		T	42827591	T	T	42827591	3	4	91	1	0	0	0	0	1	0	0	0	7122	1029	36	5	128	5	HIGD1A	3	42827591	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	28627450	42827591	155194839	39	60730											
SNTN	132203	broad.mit.edu	37	chr3	63645450	63645450	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctattgccaccactgctctGattttcagaaattcttctga	9	15	6	11	0	4	3	1	2	3	1	4	3	4	3	2	0	2	2	2	0	2	6			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr3:63645450G>A	uc003dlr.2	+	3	215	c.195G>A	c.(193-195)CTG>CTA	p.L65L		NM_001080537	NP_001074006	A6NMZ2	SNTAN_HUMAN	sentan, cilia apical structure protein	65						cilium	calcium ion binding			ovary(1)	1						CCACTGCTCTGATTTTCAGAA	0.398													48	76					0	0	0.01441	0	0		A	63645450	A	A	63645450	2	1	91	1	0	0	0	0	0	0	0	1	14901	1277	45	4		4	SNTN	3	63645450	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	20817859	63645450	134376980	40	60731											
VGLL3	389136	broad.mit.edu	37	chr3	87027812	87027812	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctggaaataagtgaaaagGacacagcgagagttaaggta	17	6	12	6	1	0	2	0	1	0	1	0	5	0	4	1	3	1	2	1	3	6	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr3:87027812G>T	uc003dqn.2	-	2	631	c.267C>A	c.(265-267)GTC>GTA	p.V89V		NM_016206	NP_057290	A8MV65	VGLL3_HUMAN	colon carcinoma related protein	89					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)		AAGTGAAAAGGACACAGCGAG	0.403													14	60					4.36969e-10	5.0189e-10	0.016723	1	0		T	87027812	T	T	87027812	2	4	91	1	0	0	0	0	0	0	0	1	17186	1161	41	5		5	VGLL3	3	87027812	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	23382362	87027812	110994618	41	60732											
MRPL3	11222	broad.mit.edu	37	chr3	131181615	131181615	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgacacacgttttcatcAtacaaatcttctggcagttc	10	13	7	11	1	4	1	2	1	2	0	5	1	4	1	0	2	1	4	0	2	2	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr3:131181615A>G	uc003eoh.2	-	10	1163	c.999T>C	c.(997-999)TAT>TAC	p.Y333Y	MRPL3_uc011blo.1_Silent_p.Y228Y|MRPL3_uc011blp.1_Silent_p.Y360Y	NM_007208	NP_009139	P09001	RM03_HUMAN	mitochondrial ribosomal protein L3	333					translation	mitochondrial large ribosomal subunit	RNA binding|structural constituent of ribosome				0						CGTTTTCATCATACAAATCTT	0.428													6	85					0	0	0.02938	0	0		G	131181615	G	G	131181615	2	3	91	1	0	0	0	0	0	0	0	1	9811	224	8	3		3	MRPL3	3	131181615	Silent	SNP	A	TCGA-BR-8683-01A-11D-2394-08	44153803	131181615	66840815	42	60733											
DNAJC13	23317	broad.mit.edu	37	chr3	132244599	132244599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caatgccattcctaagagtgCcattcgggttatccatgcct	9	12	8	12	1	0	1	0	0	0	1	3	1	2	1	5	1	3	1	5	1	3	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr3:132244599C>T	uc003eor.2	+	52	6271	c.6206C>T	c.(6205-6207)GCC>GTC	p.A2069V		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	2069							heat shock protein binding			ovary(1)|breast(1)	2						CCTAAGAGTGCCATTCGGGTT	0.448													12	77					0	0	0.013537	0	0		T	132244599	T	T	132244599	3	4	91	1	0	0	0	0	1	0	0	0	4638	739	26	2	6408	2	DNAJC13	3	132244599	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	1062984	132244599	65777831	43	60734											
CPB1	1360	broad.mit.edu	37	chr3	148545851	148545851	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taacataatccgcgagttggCcagcacgacccaggtaagta	13	7	10	11	3	0	0	0	0	0	0	1	2	1	0	3	2	2	4	3	2	4	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr3:148545851C>A	uc003ewl.2	+	2	157	c.134C>A	c.(133-135)GCC>GAC	p.A45D		NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein	45					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			CGCGAGTTGGCCAGCACGACC	0.358													10	55					6.40141e-05	6.77202e-05	0.010729	1	0		A	148545851	A	A	148545851	3	1	91	1	0	0	0	0	1	0	0	0	3799	739	26	5	140	5	CPB1	3	148545851	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	16301252	148545851	49476579	44	60735											
IGSF10	285313	broad.mit.edu	37	chr3	151155396	151155396	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacacgctctctccacctTcatttcgggccacacagata	10	9	5	17	2	2	1	1	0	1	1	5	1	3	1	4	1	1	1	4	1	2	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr3:151155396T>C	uc011bod.1	-	6	6953	c.6953A>G	c.(6952-6954)GAA>GGA	p.E2318G	IGSF10_uc011bob.1_Missense_Mutation_p.E345G|IGSF10_uc011boc.1_Missense_Mutation_p.E297G	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	2318	Ig-like C2-type 9.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTCTCCACCTTCATTTCGGGC	0.413													12	109					0	0	0.010729	0	0		C	151155396	C	C	151155396	3	2	91	1	0	0	0	0	1	0	0	0	7613	1783	62	3	922	3	IGSF10	3	151155396	Missense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	2609545	151155396	46867034	45	60736											
SI	6476	broad.mit.edu	37	chr3	164783102	164783102	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgttttccaggataaatCatgacgaaatctcttatgaa	14	13	6	8	1	2	2	1	2	1	0	4	4	3	3	2	1	0	1	2	1	5	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr3:164783102C>A	uc003fei.2	-	7	816	c.754G>T	c.(754-756)GAT>TAT	p.D252Y		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	252	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	CAGGATAAATCATGACGAAAT	0.348										HNSCC(35;0.089)			7	47					5.18039e-06	5.53861e-06	0.00308	1	0		A	164783102	A	A	164783102	3	1	91	1	0	0	0	0	1	0	0	0	14322	826	29	5	4897	5	SI	3	164783102	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	13627706	164783102	33239328	46	60737											
GHSR	2693	broad.mit.edu	37	chr3	172165569	172165569	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggacacccacaccatgAccgtgagcagtccagagcgc	10	5	11	15	2	0	3	0	2	0	1	1	4	1	4	4	1	3	2	4	1	0	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr3:172165569A>G	uc003fib.1	-	1	635	c.635T>C	c.(634-636)GTC>GCC	p.V212A	GHSR_uc011bpv.1_Missense_Mutation_p.V212A	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	212	Helical; Name=5; (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			CCACACCATGACCGTGAGCAG	0.622													8	48					0	0	0.004482	0	0		G	172165569	G	G	172165569	3	3	91	1	0	0	0	0	1	0	0	0	6390	275	10	3	547	3	GHSR	3	172165569	Missense_Mutation	SNP	A	TCGA-BR-8683-01A-11D-2394-08	7382467	172165569	25856861	47	60738											
ALG3	10195	broad.mit.edu	37	chr3	183963008	183963008	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaaaagcagcaaccccagcCccagcgctgggccagcagga	13	1	12	15	1	0	0	0	0	0	0	0	2	0	1	5	2	6	4	5	2	3	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr3:183963008C>A	uc003fne.2	-	4	614	c.583G>T	c.(583-585)GGC>TGC	p.G195C	ALG3_uc011brc.1_Missense_Mutation_p.G160C|ALG3_uc011brd.1_Missense_Mutation_p.G139C|ALG3_uc011bre.1_Missense_Mutation_p.G147C|ALG3_uc003fnf.1_Missense_Mutation_p.G155C|ALG3_uc011brf.1_Missense_Mutation_p.G87C	NM_005787	NP_005778	Q92685	ALG3_HUMAN	alpha-1,3-mannosyltransferase ALG3 isoform a	195					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	alpha-1,3-mannosyltransferase activity				0	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CAACCCCAGCCCCAGCGCTGG	0.547													6	46					0.00116845	0.00118615	0.021553	1	0		A	183963008	A	A	183963008	3	1	91	1	0	0	0	0	1	0	0	0	520	623	22	5	757	5	ALG3	3	183963008	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	11797439	183963008	14059422	48	60739											
SCFD2	152579	broad.mit.edu	37	chr4	53752026	53752026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagtcactaggatgaggcCggctcacctgcaaaacaaaa	14	6	11	10	1	2	1	2	1	0	0	2	2	2	2	2	4	2	3	2	4	6	2	rs141706393		TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr4:53752026C>T	uc003gzu.2	-	8	1984	c.1850G>A	c.(1849-1851)CGG>CAG	p.R617Q	SCFD2_uc010igm.2_Missense_Mutation_p.R572Q	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2	617					protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			AGGATGAGGCCGGCTCACCTG	0.498													5	47					0	0	0.014758	0	0		T	53752026	T	T	53752026	3	4	91	1	0	0	0	0	1	0	0	0	13915	652	23	1	212	1	SCFD2	4	53752026	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08		53752026	137402250	49	60740											
KIT	3815	broad.mit.edu	37	chr4	55589833	55589833	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gattcccagagcccacaataGattggtatttttgtccagga	11	12	9	9	0	0	2	0	0	0	2	2	4	2	3	3	2	1	1	3	2	3	6			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr4:55589833G>C	uc010igr.2	+	8	1402	c.1315G>C	c.(1315-1317)GAT>CAT	p.D439H	KIT_uc010igs.2_Missense_Mutation_p.D439H	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	439	Extracellular (Potential).|Ig-like C2-type 5.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	GCCCACAATAGATTGGTATTT	0.438		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				12	31					0	0	0.016723	0	0		C	55589833	C	C	55589833	3	2	91	1	0	0	0	0	1	0	0	0	8345	942	33	5	1345	5	KIT	4	55589833	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	1837807	55589833	135564443	50	60741											
PDE5A	8654	broad.mit.edu	37	chr4	120442088	120442088	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgaatggctctaaaaagtAcctgaattttgcctgctttt	11	16	7	7	0	1	2	0	2	1	0	1	2	1	2	2	1	3	3	2	1	7	7			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr4:120442088A>C	uc003idh.2	-	13	2060	c.1905_splice	c.e13+1	p.Q635_splice	uc003ide.3_Intron|PDE5A_uc003idf.2_Splice_Site_p.Q593_splice|PDE5A_uc003idg.2_Splice_Site_p.Q583_splice|uc003idi.3_Intron	NM_001083	NP_001074	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 1						platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)	TCTAAAAAGTACCTGAATTTT	0.318													15	86					0	0	0.020292	0	0		C	120442088	C	C	120442088	5	2	91	1	0	0	0	0	0	0	1	0	11663	405	14	5	756	5	PDE5A	4	120442088	Splice_Site	SNP	A	TCGA-BR-8683-01A-11D-2394-08	64852255	120442088	70712188	51	60742											
KIAA1109	84162	broad.mit.edu	37	chr4	123260416	123260416	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagagtagaatgcatgttaAagctgccatccctggatttg	12	11	10	8	0	0	2	0	0	0	2	1	3	1	3	2	1	3	4	2	1	5	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr4:123260416A>T	uc003ieh.2	+	70	12250	c.12205A>T	c.(12205-12207)AAG>TAG	p.K4069*	KIAA1109_uc003iem.2_Nonsense_Mutation_p.K425*|KIAA1109_uc003ien.2_Nonsense_Mutation_p.K3*	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4069					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ATGCATGTTAAAGCTGCCATC	0.413													13	59					0	0	0.028581	0	0		T	123260416	T	T	123260416	4	4	91	1	0	0	0	0	0	1	0	0	8224	15	1	5	12483	5	KIAA1109	4	123260416	Nonsense_Mutation	SNP	A	TCGA-BR-8683-01A-11D-2394-08	2818328	123260416	67893860	52	60743											
ANKRD50	57182	broad.mit.edu	37	chr4	125590991	125590991	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaaaccacgtaacgaaggCtgcatatcccctccaccagt	12	7	8	14	2	0	0	0	0	0	0	2	1	2	0	5	2	3	4	5	2	5	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr4:125590991C>G	uc003ifg.3	-	3	3707	c.3441G>C	c.(3439-3441)CAG>CAC	p.Q1147H	ANKRD50_uc011cgo.1_Missense_Mutation_p.Q968H|ANKRD50_uc010inw.2_Missense_Mutation_p.Q1147H	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	1147	Ser-rich.									central_nervous_system(1)	1						GTAACGAAGGCTGCATATCCC	0.423													31	158					0	0	0.037714	0	0		G	125590991	G	G	125590991	3	3	91	1	0	0	0	0	1	0	0	0	677	796	28	5	852	5	ANKRD50	4	125590991	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	2330575	125590991	65563285	53	60744											
PCDH18	54510	broad.mit.edu	37	chr4	138452108	138452108	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaactctgaccaaagcaaCaaatgtatcaataggatccc	16	8	6	11	0	2	2	1	2	1	0	3	3	3	3	2	1	3	2	2	1	7	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr4:138452108C>A	uc003ihe.3	-	1	1522	c.1135G>T	c.(1135-1137)GTT>TTT	p.V379F	PCDH18_uc003ihf.3_Missense_Mutation_p.V372F|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.V159F|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	379	Cadherin 4.|Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					ACCAAAGCAACAAATGTATCA	0.363													15	49					6.72482e-11	7.85866e-11	0.024245	1	0		A	138452108	A	A	138452108	3	1	91	1	0	0	0	0	1	0	0	0	11532	478	17	5	2288	5	PCDH18	4	138452108	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	12861117	138452108	52702168	54	60745											
PAPD7	11044	broad.mit.edu	37	chr5	6752990	6752990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcattttgttcctagaccaGgtttactatacctccaccga	9	14	5	13	1	1	1	1	0	0	1	3	2	3	1	5	1	2	2	5	1	4	8			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:6752990G>A	uc003jdx.1	+	12	1403	c.1274G>A	c.(1273-1275)AGG>AAG	p.R425K	PAPD7_uc011cmn.1_Missense_Mutation_p.R416K|PAPD7_uc010itl.1_Missense_Mutation_p.R245K	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	425					cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						TCCTAGACCAGGTTTACTATA	0.507													8	48					0	0	0.00308	0	0		A	6752990	A	A	6752990	3	1	91	1	0	0	0	0	1	0	0	0	11445	1000	35	4	1316	4	PAPD7	5	6752990	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08		6752990	174162270	55	60746											
FAM134B	54463	broad.mit.edu	37	chr5	16477850	16477850	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaggatacctctgagacGtctgtgtcagacacagataa	12	9	10	10	1	3	3	1	1	2	3	4	5	4	4	2	1	1	0	2	1	2	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:16477850G>C	uc003jfs.2	-	8	959	c.921C>G	c.(919-921)GAC>GAG	p.D307E	FAM134B_uc003jfr.2_Missense_Mutation_p.D166E	NM_001034850	NP_001030022	Q9H6L5	F134B_HUMAN	hypothetical protein LOC54463 isoform 1	307					sensory perception of pain	cis-Golgi network|endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3						CCTCTGAGACGTCTGTGTCAG	0.423													21	59					0	0	0.010504	0	0		C	16477850	C	C	16477850	3	2	91	1	0	0	0	0	1	0	0	0	5457	1136	40	5	580	5	FAM134B	5	16477850	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	9724860	16477850	164437410	56	60747											
MYO10	4651	broad.mit.edu	37	chr5	16780678	16780678	+	Frame_Shift_Del	DEL	G	-	-																															cagcagtgcataaaatatgtGataattcctttccccgggat																										TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:16780678delG	uc003jft.3	-	8	1249	c.781delC	c.(781-783)CACfs	p.H261fs		NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	261	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						TAAAATATGTGATAATTCCTT	0.413													2	4	---	---	---	---						.	-	16780678	-	-	16780678	7	5	91	1	0	1	0	1	0	0	0	0	10080	1290	45	0	5531	0	MYO10	5	16780678	Frame_Shift_Del	DEL	G	TCGA-BR-8683-01A-11D-2394-08	302828	16780678	164134582	57	60748											
HCN1	348980	broad.mit.edu	37	chr5	45262712	45262712	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacaccggtggagattgtgTcctcatgcgggaggtcgggg	6	9	18	8	3	1	1	1	0	0	1	3	3	2	2	2	6	2	1	2	6	1	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:45262712T>C	uc003jok.2	-	8	2009	c.1984A>G	c.(1984-1986)ACA>GCA	p.T662A		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	662	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GGAGATTGTGTCCTCATGCGG	0.572													13	47					0	0	0.020292	0	0		C	45262712	C	C	45262712	3	2	91	1	0	0	0	0	1	0	0	0	7012	1667	58	3	692	3	HCN1	5	45262712	Missense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	28482034	45262712	135652548	58	60749											
FAM81B	153643	broad.mit.edu	37	chr5	94756050	94756050	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaactaactttgcagtacaCgagataaacatcaaacacct	17	8	6	10	1	1	1	1	0	0	1	1	3	1	2	1	1	6	2	1	1	6	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:94756050C>T	uc003kla.1	+	5	646	c.600C>T	c.(598-600)CAC>CAT	p.H200H	FAM81B_uc010jbe.1_Translation_Start_Site	NM_152548	NP_689761	Q96LP2	FA81B_HUMAN	hypothetical protein LOC153643	200										ovary(1)|skin(1)	2		all_cancers(142;1.1e-06)|all_epithelial(76;1.48e-09)|all_lung(232;0.000696)|Lung NSC(167;0.000947)|Ovarian(225;0.00473)		all cancers(79;1.04e-16)		TTGCAGTACACGAGATAAACA	0.403													15	66					0	0	0.020292	0	0		T	94756050	T	T	94756050	2	4	91	1	0	0	0	0	0	0	0	1	5643	535	19	1		1	FAM81B	5	94756050	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	49493338	94756050	86159210	59	60750											
KIF20A	10112	broad.mit.edu	37	chr5	137521738	137521738	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagaagttagaagagggccaGaaggtaattaccaccattct	16	8	10	7	0	1	4	0	0	1	4	1	4	1	4	3	2	1	2	3	2	7	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:137521738G>A	uc003lcj.2	+	17	2710	c.2214G>A	c.(2212-2214)CAG>CAA	p.Q738Q	KIF20A_uc011cyo.1_Silent_p.Q720Q	NM_005733	NP_005724	O95235	KI20A_HUMAN	kinesin family member 20A	738	Potential.				cytokinesis|M phase of mitotic cell cycle|microtubule-based movement|protein transport|vesicle-mediated transport	Golgi apparatus|microtubule|nucleoplasm	ATP binding|microtubule motor activity|protein binding|transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			AAGAGGGCCAGAAGGTAATTA	0.428													4	32					0	0	0.009096	0	0		A	137521738	A	A	137521738	2	1	91	1	0	0	0	0	0	0	0	1	8302	933	33	4		4	KIF20A	5	137521738	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	42765688	137521738	43393522	60	60751											
CXXC5	51523	broad.mit.edu	37	chr5	139060694	139060694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcctgacatggaggctGtggcaggtgccgaagccctc	6	7	15	13	1	0	1	0	1	0	0	1	3	0	2	4	4	3	2	4	4	1	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:139060694G>A	uc010jfg.1	+	2	876	c.586G>A	c.(586-588)GTG>ATG	p.V196M	CXXC5_uc003let.2_Missense_Mutation_p.V196M	NM_016463	NP_057547	Q7LFL8	CXXC5_HUMAN	CXXC finger 5	196					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|nucleus	DNA binding|signal transducer activity|zinc ion binding			central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CATGGAGGCTGTGGCAGGTGC	0.627													20	33					0	0	0.008871	0	0		A	139060694	A	A	139060694	3	1	91	1	0	0	0	0	1	0	0	0	4102	1377	48	4	588	4	CXXC5	5	139060694	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	1538956	139060694	41854566	61	60752											
PCDHA9	9752	broad.mit.edu	37	chr5	140230060	140230060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacggggagccagcgctgacGgccacggccactgtgctggt	6	5	16	14	4	0	1	0	1	0	0	0	2	0	2	3	5	3	2	3	5	0	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:140230060G>A	uc003lhu.2	+	1	2704	c.1980G>A	c.(1978-1980)ACG>ACA	p.T660T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Silent_p.T660T	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	660	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCGCTGACGGCCACGGCCA	0.697													22	97					0	0	0.014323	0	0		A	140230060	A	A	140230060	2	1	91	1	0	0	0	0	0	0	0	1	11550	1103	39	1		1	PCDHA9	5	140230060	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	1169366	140230060	40685200	62	60753											
PCDHB1	29930	broad.mit.edu	37	chr5	140431602	140431602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatttccacctgcacaccCgcttctgcagccacgggcct	6	9	9	17	2	1	0	0	0	1	0	2	0	2	0	5	2	3	4	5	2	1	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:140431602C>T	uc003lik.1	+	1	624	c.547C>T	c.(547-549)CGC>TGC	p.R183C		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	183	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTGCACACCCGCTTCTGCAG	0.562													9	66					0	0	0.006214	0	0		T	140431602	T	T	140431602	3	4	91	1	0	0	0	0	1	0	0	0	11553	652	23	1	549	1	PCDHB1	5	140431602	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	201542	140431602	40483658	63	60754											
PCDHB3	56132	broad.mit.edu	37	chr5	140481581	140481581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcaatgacaacgcccccGccttcacccaaatctcctac	11	7	4	19	3	3	1	2	1	1	0	4	1	3	1	5	0	2	0	5	0	4	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:140481581G>A	uc003lio.2	+	1	1348	c.1348G>A	c.(1348-1350)GCC>ACC	p.A450T	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	450	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAACGCCCCCGCCTTCACCCA	0.562													75	183					0	0	0.01441	0	0		A	140481581	A	A	140481581	3	1	91	1	0	0	0	0	1	0	0	0	11562	1087	38	1	1350	1	PCDHB3	5	140481581	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	49979	140481581	40433679	64	60755											
PCDHB5	26167	broad.mit.edu	37	chr5	140515027	140515027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtctgaacaatggagactgCgctagcaaaaacgccacaga	15	5	11	10	2	1	3	0	1	1	2	1	4	1	3	1	2	4	2	1	2	5	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:140515027C>T	uc003liq.2	+	1	228	c.11C>T	c.(10-12)GCG>GTG	p.A4V		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	4					calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATGGAGACTGCGCTAGCAAAA	0.458													9	67					0	0	0.006214	0	0		T	140515027	T	T	140515027	3	4	91	1	0	0	0	0	1	0	0	0	11564	768	27	1	13	1	PCDHB5	5	140515027	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	33446	140515027	40400233	65	60756											
PCDHGA2	56113	broad.mit.edu	37	chr5	140720421	140720421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacacgggcgaggtgcgcaCggcgcgagccctgctggaca	7	3	17	14	6	0	0	0	0	0	0	0	3	0	1	1	4	3	3	1	4	0	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:140720421C>T	uc003ljk.1	+	1	2068	c.1883C>T	c.(1882-1884)ACG>ATG	p.T628M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.T628M	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	628	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGGTGCGCACGGCGCGAGCC	0.682													49	87					0	0	0.01441	0	0		T	140720421	T	T	140720421	3	4	91	1	0	0	0	0	1	0	0	0	11573	536	19	1	1885	1	PCDHGA2	5	140720421	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	205394	140720421	40194839	66	60757											
PCDHGB7	56099	broad.mit.edu	37	chr5	140798932	140798932	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagtcacgaacgctgtcGtcctacgtgtccgtgagcgc	6	9	13	13	6	1	1	1	1	0	0	4	3	3	2	2	1	3	1	2	1	2	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:140798932G>A	uc003lkn.1	+	1	1651	c.1506G>A	c.(1504-1506)TCG>TCA	p.S502S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Silent_p.S502S|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	502	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAACGCTGTCGTCCTACGTGT	0.657													30	99					0	0	0.012213	0	0		A	140798932	A	A	140798932	2	1	91	1	0	0	0	0	0	0	0	1	11587	1132	40	1		1	PCDHGB7	5	140798932	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	78511	140798932	40116328	67	60758											
IL17B	27190	broad.mit.edu	37	chr5	148754069	148754069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcacgctcaccatgctgcGgtcctcctgcatggtgaagg	6	8	13	14	3	1	1	1	1	0	0	3	1	3	1	3	4	3	4	3	4	1	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:148754069G>A	uc003lqo.2	-	3	456	c.406C>T	c.(406-408)CGC>TGC	p.R136C		NM_014443	NP_055258	Q9UHF5	IL17B_HUMAN	interleukin 17B precursor	136					cell-cell signaling|immune response|inflammatory response	extracellular space	cytokine activity|signal transducer activity	p.R136C(1)		central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCATGCTGCGGTCCTCCTGC	0.692													14	58					0	0	0.020292	0	0		A	148754069	A	A	148754069	3	1	91	1	0	0	0	0	1	0	0	0	7651	1116	39	1	140	1	IL17B	5	148754069	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	7955137	148754069	32161191	68	60759											
GRIA1	2890	broad.mit.edu	37	chr5	153175110	153175110	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgaaaagcaaatggtggtAcgataaaggggaatgtggaa	16	7	15	3	1	0	1	0	1	0	0	0	4	0	3	0	5	2	3	0	5	8	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr5:153175110A>G	uc003lva.3	+	14	2710	c.2345A>G	c.(2344-2346)TAC>TGC	p.Y782C	GRIA1_uc003luy.3_Intron|GRIA1_uc003luz.3_Missense_Mutation_p.Y687C|GRIA1_uc011dcv.1_Intron|GRIA1_uc011dcw.1_Intron|GRIA1_uc011dcx.1_Intron|GRIA1_uc011dcy.1_Missense_Mutation_p.Y792C|GRIA1_uc011dcz.1_Intron	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	782	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AAATGGTGGTACGATAAAGGG	0.478													4	34					0	0	0.009096	0	0		G	153175110	G	G	153175110	3	3	91	1	0	0	0	0	1	0	0	0	6783	391	14	3	2518	3	GRIA1	5	153175110	Missense_Mutation	SNP	A	TCGA-BR-8683-01A-11D-2394-08	4421041	153175110	27740150	69	60760											
JARID2	3720	broad.mit.edu	37	chr6	15496755	15496755	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgggagggcctgcagctGcgggaggggctgcggaactc	5	5	20	11	3	0	0	0	0	0	0	1	3	0	3	1	6	6	3	1	6	1	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr6:15496755G>T	uc003nbj.2	+	7	1543	c.1299G>T	c.(1297-1299)CTG>CTT	p.L433L	JARID2_uc011diu.1_Silent_p.L297L|JARID2_uc011div.1_Silent_p.L261L|JARID2_uc011diw.1_Silent_p.L395L	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	433					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				GCCTGCAGCTGCGGGAGGGGC	0.672													9	158					7.48243e-07	8.21841e-07	0.006214	1	0		T	15496755	T	T	15496755	2	4	91	1	0	0	0	0	0	0	0	1	7961	1306	46	5		5	JARID2	6	15496755	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08		15496755	155618312	70	60761											
ATXN1	6310	broad.mit.edu	37	chr6	16326835	16326835	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcatgaagtagggaggcagCgtagggggagccgccgccgg	8	5	19	9	4	1	1	1	1	0	0	1	3	1	3	3	5	2	3	3	5	3	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr6:16326835C>T	uc003nbt.2	-	8	2678	c.1707G>A	c.(1705-1707)ACG>ACA	p.T569T	ATXN1_uc010jpi.2_Silent_p.T569T|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	569	Self-association.|Interaction with USP7.|RNA-binding.|AXH.				cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				AGGGAGGCAGCGTAGGGGGAG	0.607													5	87					0	0	0.014758	0	0		T	16326835	T	T	16326835	2	4	91	1	0	0	0	0	0	0	0	1	1210	755	27	1		1	ATXN1	6	16326835	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	830080	16326835	154788232	71	60762											
PGBD1	84547	broad.mit.edu	37	chr6	28270052	28270052	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaacacaatgctcatctGtcagattagggtacataaaa	15	11	8	7	0	3	1	2	0	1	1	3	2	3	2	0	2	3	2	0	2	6	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr6:28270052G>A	uc003nky.2	+	7	2791	c.2421G>A	c.(2419-2421)CTG>CTA	p.L807L	PGBD1_uc003nkz.2_Silent_p.L807L	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	807					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						ATGCTCATCTGTCAGATTAGG	0.388													11	53					0	0	0.008291	0	0		A	28270052	A	A	28270052	2	1	91	1	0	0	0	0	0	0	0	1	11799	1364	48	4		4	PGBD1	6	28270052	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	11943217	28270052	142845015	72	60763											
HLA-F	3134	broad.mit.edu	37	chr6	29694772	29694772	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggagtcacagtgtcttgggCcgccggaaggtgggtgacat	7	8	17	9	3	2	1	1	1	1	0	2	3	2	3	2	5	0	0	2	5	1	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr6:29694772C>T	uc003nno.3	+	7	1273	c.1149C>T	c.(1147-1149)GGC>GGT	p.G383G	HLA-F_uc011dlx.1_Silent_p.G383G|HLA-F_uc011dly.1_RNA|LOC285830_uc003nnp.2_RNA|LOC285830_uc011dlz.1_RNA	NM_001098479	NP_001091949	P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	Error:Variant_position_missing_in_P30511_after_alignment					antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity				0						GTGTCTTGGGCCGCCGGAAGG	0.512													20	160					0	0	0.008871	0	0		T	29694772	T	T	29694772	2	4	91	1	0	0	0	0	0	0	0	1	7227	726	26	2		2	HLA-F	6	29694772	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	1424720	29694772	141420295	73	60764											
KIFC1	3833	broad.mit.edu	37	chr6	33373066	33373066	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccatgcttgtccagtcagcCctggatggctatccagtatg	7	11	11	12	0	1	0	1	0	0	0	3	1	3	1	4	2	2	3	4	2	2	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr6:33373066C>T	uc003oef.3	+	7	1644	c.1194C>T	c.(1192-1194)GCC>GCT	p.A398A	KIFC1_uc011drf.1_Silent_p.A390A	NM_002263	NP_002254	Q9BW19	KIFC1_HUMAN	kinesin family member C1	398	Kinesin-motor.				blood coagulation|cell division|microtubule-based movement|mitotic sister chromatid segregation	early endosome|microtubule|microtubule associated complex|microtubule organizing center|nucleus|spindle	ATP binding|microtubule motor activity				0						TCCAGTCAGCCCTGGATGGCT	0.552													21	117					0	0	0.008871	0	0		T	33373066	T	T	33373066	2	4	91	1	0	0	0	0	0	0	0	1	8328	610	22	4		4	KIFC1	6	33373066	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	3678294	33373066	137742001	74	60765											
BTBD9	114781	broad.mit.edu	37	chr6	38561911	38561911	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatactcagaggtagaatcCtctagctctggaaatccata	14	10	8	9	0	3	3	1	0	2	3	5	4	5	4	2	2	2	2	2	2	6	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr6:38561911C>T	uc003ooa.3	-	4	954	c.378G>A	c.(376-378)GAG>GAA	p.E126E	BTBD9_uc003ony.3_Silent_p.E58E|BTBD9_uc010jwv.2_Silent_p.E58E|BTBD9_uc010jww.2_RNA|BTBD9_uc010jwx.2_Silent_p.E126E	NM_052893	NP_443125	Q96Q07	BTBD9_HUMAN	BTB (POZ) domain containing 9 isoform a	126					cell adhesion						0						AGGTAGAATCCTCTAGCTCTG	0.443													45	329					0	0	0.011902	0	0		T	38561911	T	T	38561911	2	4	91	1	0	0	0	0	0	0	0	1	1551	680	24	4		4	BTBD9	6	38561911	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	5188845	38561911	132553156	75	60766											
KIF6	221458	broad.mit.edu	37	chr6	39398879	39398879	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atggtaacgctgtcagcgtgGtccctcttgaagatttcaaa	10	12	10	9	2	3	2	2	1	1	1	4	2	4	2	1	2	2	2	1	2	3	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr6:39398879G>T	uc003oot.2	-	14	1799	c.1704C>A	c.(1702-1704)GAC>GAA	p.D568E	KIF6_uc003oos.2_Missense_Mutation_p.D19E|KIF6_uc010jwz.1_Intron|KIF6_uc010jxa.1_Missense_Mutation_p.D359E|KIF6_uc011dua.1_Missense_Mutation_p.D568E|KIF6_uc010jxb.1_Missense_Mutation_p.D512E	NM_145027	NP_659464	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	568				CQEAFEIFKRDHADSVTIDDNKQILKQ -> NATILSSLTG PGLQHFGEKIQFAPQEN (in Ref. 4; CAD89950).	microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3						TGTCAGCGTGGTCCCTCTTGA	0.512													5	32					0.000602214	0.000617577	0.014758	1	0		T	39398879	T	T	39398879	3	4	91	1	0	0	0	0	1	0	0	0	8324	1252	44	5	780	5	KIF6	6	39398879	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	836968	39398879	131716188	76	60767											
USP49	25862	broad.mit.edu	37	chr6	41771588	41771588	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcccttccagggcctctGtctctgtgaatttggccagc	4	14	9	14	0	3	1	0	1	3	0	6	1	4	1	4	2	1	0	4	2	1	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr6:41771588G>T	uc003ori.2	-	5	1739	c.1517C>A	c.(1516-1518)ACA>AAA	p.T506K		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	506					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CAGGGCCTCTGTCTCTGTGAA	0.488													219	137					1.31354e-114	1.57155e-114	0.01441	1	0		T	41771588	T	T	41771588	3	4	91	1	0	0	0	0	1	0	0	0	17106	1377	48	5	417	5	USP49	6	41771588	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	2372709	41771588	129343479	77	60768											
RUNX2	860	broad.mit.edu	37	chr6	45405709	45405709	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttcaccttgaccataacCgtcttcacaaatcctcccca	11	11	3	16	1	3	1	2	1	1	0	5	1	5	1	6	0	1	1	6	0	2	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr6:45405709C>T	uc011dvx.1	+	5	816	c.606C>T	c.(604-606)ACC>ACT	p.T202T	RUNX2_uc011dvy.1_Silent_p.T202T|RUNX2_uc003oxt.2_Silent_p.T188T	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	202	Runt.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						TGACCATAACCGTCTTCACAA	0.388													20	238					0	0	0.012319	0	0		T	45405709	T	T	45405709	2	4	91	1	0	0	0	0	0	0	0	1	13773	639	23	1		1	RUNX2	6	45405709	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	3634121	45405709	125709358	78	60769											
C6orf170	221322	broad.mit.edu	37	chr6	121655563	121655563	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcatcgcctggtcctcgctgGagaaatgggccatcctgttg	6	10	13	12	2	0	1	0	0	0	1	4	2	2	1	4	3	0	3	4	3	1	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr6:121655563G>T	uc003pyo.1	-	1	82	c.14C>A	c.(13-15)TCC>TAC	p.S5Y	C6orf170_uc003pyq.1_RNA	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	5					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		GTCCTCGCTGGAGAAATGGGC	0.517													4	29					0.000602214	0.000617577	0.014758	1	0		T	121655563	T	T	121655563	3	4	91	1	0	0	0	0	1	0	0	0	2347	1174	41	5	3887	5	C6orf170	6	121655563	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	76249854	121655563	49459504	79	60770											
C1GALT1	56913	broad.mit.edu	37	chr7	7283247	7283247	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctcgtttatcatcttcgTccatatggttatttatacag	9	18	5	9	2	2	0	1	0	1	0	5	0	3	0	2	1	2	2	2	1	6	9			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr7:7283247T>G	uc010ktn.2	+	4	1204	c.981T>G	c.(979-981)CGT>CGG	p.R327R	C1GALT1_uc003sra.2_Silent_p.R327R|uc003srb.1_5'Flank	NM_020156	NP_064541	Q9NS00	C1GLT_HUMAN	core 1 synthase,	327	Lumenal (Potential).				angiogenesis|cell differentiation|kidney development	integral to membrane	glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase activity|metal ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.177)		ATCATCTTCGTCCATATGGTT	0.343													36	129					0	0	0.013726	0	0		G	7283247	G	G	7283247	2	3	91	1	0	0	0	0	0	0	0	1	1955	1654	58	5		5	C1GALT1	7	7283247	Silent	SNP	T	TCGA-BR-8683-01A-11D-2394-08		7283247	151855416	80	60771											
DNAH11	8701	broad.mit.edu	37	chr7	21630827	21630827	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaaatcttgaccttcttGtgcaagggtataataaactc	12	14	8	7	0	2	1	0	1	2	0	3	2	2	2	1	2	2	2	1	2	6	7			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr7:21630827G>T	uc003svc.2	+	14	2330	c.2299G>T	c.(2299-2301)GTG>TTG	p.V767L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	767	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TGACCTTCTTGTGCAAGGGTA	0.403									Kartagener_syndrome				12	43					3.07112e-06	3.31879e-06	0.010729	1	0		T	21630827	T	T	21630827	3	4	91	1	0	0	0	0	1	0	0	0	4605	1377	48	5	2353	5	DNAH11	7	21630827	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	14347580	21630827	137507836	81	60772											
GLI3	2737	broad.mit.edu	37	chr7	42065827	42065827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcagaagggccggagctgaCctggacggggttcagaaccg	9	5	16	11	3	2	3	2	1	0	2	2	5	2	5	3	5	2	2	3	5	2	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr7:42065827C>T	uc011kbh.1	-	8	1304	c.1213G>A	c.(1213-1215)GTC>ATC	p.V405I	GLI3_uc011kbg.1_Missense_Mutation_p.V346I	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	405					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CCGGAGCTGACCTGGACGGGG	0.627									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				5	28					0	0	0.014758	0	0		T	42065827	T	T	42065827	3	4	91	1	0	0	0	0	1	0	0	0	6454	507	18	4	3561	4	GLI3	7	42065827	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	20435000	42065827	117072836	82	60773											
KIAA1324L	222223	broad.mit.edu	37	chr7	86542517	86542517	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgtcattgatgaaccgtcTattctaaaaaaaagagcata	17	11	6	7	1	3	3	1	2	2	1	3	3	3	3	1	0	2	1	1	0	7	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr7:86542517T>A	uc011kha.1	-	14	1920	c.1735A>T	c.(1735-1737)AGA>TGA	p.R579*	KIAA1324L_uc003uif.1_Nonsense_Mutation_p.R339*|KIAA1324L_uc011kgz.1_Nonsense_Mutation_p.R465*|KIAA1324L_uc003uie.2_Nonsense_Mutation_p.R412*	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	579	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					ATGAACCGTCTATTCTAAAAA	0.413													5	53					0	0	0.021553	0	0		A	86542517	A	A	86542517	4	1	91	1	0	0	0	0	0	1	0	0	8240	1530	53	5	1390	5	KIAA1324L	7	86542517	Nonsense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	44476690	86542517	72596146	83	60774											
TAF6	6878	broad.mit.edu	37	chr7	99711237	99711237	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgctctcccctcccccaAcctttgaggcagacgtccag	6	8	7	20	1	1	2	0	1	1	1	4	2	3	2	7	1	2	2	7	1	1	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr7:99711237A>G	uc003uti.2	-	4	478	c.397_splice	c.e4+1	p.A133_splice	TAF6_uc003utg.2_Splice_Site_p.A74_splice|TAF6_uc003uth.2_Splice_Site_p.A190_splice|TAF6_uc003utk.2_Splice_Site_p.A133_splice|TAF6_uc011kji.1_Splice_Site_p.A170_splice|TAF6_uc003utj.2_Splice_Site_p.A123_splice|TAF6_uc003utl.2_Splice_Site_p.A133_splice|TAF6_uc003utm.2_Splice_Site_p.A133_splice|TAF6_uc003utn.1_Intron	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha						negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CCCTCCCCCAACCTTTGAGGC	0.572													26	49					0	0	0.009535	0	0		G	99711237	G	G	99711237	5	3	91	1	0	0	0	0	0	0	1	0	15555	57	2	3	1682	3	TAF6	7	99711237	Splice_Site	SNP	A	TCGA-BR-8683-01A-11D-2394-08	13168720	99711237	59427426	84	60775											
SPDYE6	729597	broad.mit.edu	37	chr7	101988844	101988844	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggccctcgagttcatggaAcggtataactggaaccgacg	10	8	12	11	4	1	0	1	0	0	0	2	4	1	2	2	4	3	2	2	4	4	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr7:101988844A>G	uc011kkp.1	-	6	1450	c.1029T>C	c.(1027-1029)CGT>CGC	p.R343R	SPDYE6_uc003uzb.2_Silent_p.R199R	NM_001146210	NP_001139682	P0CI01	SPDE6_HUMAN	speedy homolog E6	343	Arg-rich.										0						AGTTCATGGAACGGTATAACT	0.547													28	409					0	0	0.01441	0	0		G	101988844	G	G	101988844	2	3	91	1	0	0	0	0	0	0	0	1	15058	30	2	3		3	SPDYE6	7	101988844	Silent	SNP	A	TCGA-BR-8683-01A-11D-2394-08	2277607	101988844	57149819	85	60776											
CREB3L2	64764	broad.mit.edu	37	chr7	137565290	137565290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcattcccctccagtttggCgctgaccctgtgaaggcatt	6	13	9	13	1	1	2	1	2	0	0	3	2	3	2	4	2	0	3	4	2	1	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr7:137565290C>T	uc003vtw.2	-	12	1890	c.1495G>A	c.(1495-1497)GCC>ACC	p.A499T	CREB3L2_uc003vtv.2_Missense_Mutation_p.A436T	NM_194071	NP_919047	Q70SY1	CR3L2_HUMAN	cAMP responsive element binding protein 3-like	499	Lumenal (Potential).				chondrocyte differentiation|positive regulation of transcription, DNA-dependent|response to endoplasmic reticulum stress|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	cAMP response element binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		FUS/CREB3L2(158)	soft_tissue(158)|upper_aerodigestive_tract(1)|ovary(1)	160						TCCAGTTTGGCGCTGACCCTG	0.458			T	FUS	fibromyxoid sarcoma								6	29					0	0	0.02938	0	0		T	137565290	T	T	137565290	3	4	91	1	0	0	0	0	1	0	0	0	3860	768	27	1	71	1	CREB3L2	7	137565290	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	35576446	137565290	21573373	86	60777											
NEFM	4741	broad.mit.edu	37	chr8	24771915	24771915	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gacgacactgaggcggccatCcgcgcgctgcgcaaagacat	10	4	13	14	6	0	2	0	1	0	1	1	4	1	2	2	2	1	2	2	2	1	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr8:24771915C>T	uc003xed.3	+	1	642	c.609C>T	c.(607-609)ATC>ATT	p.I203I	NEFM_uc011lac.1_Silent_p.I203I|NEFM_uc010lue.2_5'Flank|uc010luc.1_Silent_p.R51R	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	203	Rod.|Coil 1B.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		AGGCGGCCATCCGCGCGCTGC	0.647													6	28					0	0	0.02938	0	0		T	24771915	T	T	24771915	2	4	91	1	0	0	0	0	0	0	0	1	10335	845	30	4		4	NEFM	8	24771915	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08		24771915	121592107	87	60778											
CHRNA2	1135	broad.mit.edu	37	chr8	27320871	27320871	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agggccccccgcacccagtgGggcatggtgtgggtgctggg	4	6	19	12	1	0	0	0	0	0	0	0	0	0	0	4	6	1	3	4	6	0	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr8:27320871G>A	uc010lur.2	-	6	1698	c.1089C>T	c.(1087-1089)CCC>CCT	p.P363P	CHRNA2_uc011lal.1_Silent_p.P348P|CHRNA2_uc010lus.2_Silent_p.P165P	NM_000742	NP_000733	Q15822	ACHA2_HUMAN	cholinergic receptor, nicotinic, alpha	363	Cytoplasmic.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)	1		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0208)|Epithelial(17;2.77e-10)|Colorectal(74;0.136)	Atracurium(DB00732)|Biperiden(DB00810)|Carbachol(DB00411)|Cisatracurium Besylate(DB00565)|Decamethonium(DB01245)|Dextromethorphan(DB00514)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Gallamine Triethiodide(DB00483)|Levallorphan(DB00504)|Mecamylamine(DB00657)|Metocurine(DB01336)|Metocurine Iodide(DB00416)|Mivacurium(DB01226)|Nicotine(DB00184)|Pancuronium(DB01337)|Pipecuronium(DB01338)|Rocuronium(DB00728)|Tubocurarine(DB01199)	GCACCCAGTGGGGCATGGTGT	0.647													17	37					0	0	0.006122	0	0		A	27320871	A	A	27320871	2	1	91	1	0	0	0	0	0	0	0	1	3386	1219	43	4		4	CHRNA2	8	27320871	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	2548956	27320871	119043151	88	60779											
CRISPLD1	83690	broad.mit.edu	37	chr8	75927084	75927084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccccttacaaacatgggCggccctgttctgcttgccca	7	10	9	15	1	1	0	0	0	1	0	1	0	1	0	4	2	5	2	4	2	2	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr8:75927084C>T	uc003yan.2	+	6	1039	c.664C>T	c.(664-666)CGG>TGG	p.R222W	CRISPLD1_uc011lfk.1_Missense_Mutation_p.R34W|CRISPLD1_uc011lfl.1_Missense_Mutation_p.R34W	NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	222						extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			CAAACATGGGCGGCCCTGTTC	0.423													12	19					0	0	0.016723	0	0		T	75927084	T	T	75927084	3	4	91	1	0	0	0	0	1	0	0	0	3885	759	27	1	682	1	CRISPLD1	8	75927084	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	48606213	75927084	70436938	89	60780											
KCNS2	3788	broad.mit.edu	37	chr8	99441398	99441398	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctgcctgcatcttggcAggcatcctcgtggtggtcct	3	12	12	14	1	2	0	0	0	2	0	5	0	4	0	4	4	2	3	4	4	0	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr8:99441398A>G	uc003yin.2	+	2	1541	c.1191A>G	c.(1189-1191)GCA>GCG	p.A397A		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	397	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			GCATCTTGGCAGGCATCCTCG	0.582													17	113					0	0	0.028581	0	0		G	99441398	G	G	99441398	2	3	91	1	0	0	0	0	0	0	0	1	8105	175	7	3		3	KCNS2	8	99441398	Silent	SNP	A	TCGA-BR-8683-01A-11D-2394-08	23514314	99441398	46922624	90	60781											
UBR5	51366	broad.mit.edu	37	chr8	103297906	103297906	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgttaggtaactgctggcGttgctagcttccaaagcagc	9	11	12	9	1	0	0	0	0	0	0	1	1	1	0	1	2	6	7	1	2	4	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr8:103297906G>A	uc003ykr.1	-	39	5352	c.5319C>T	c.(5317-5319)AAC>AAT	p.N1773N	UBR5_uc003yks.1_Silent_p.N1773N	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1773					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			AACTGCTGGCGTTGCTAGCTT	0.463													10	76					0	0	0.008291	0	0		A	103297906	A	A	103297906	2	1	91	1	0	0	0	0	0	0	0	1	16931	1136	40	1		1	UBR5	8	103297906	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	3856508	103297906	43066116	91	60782											
TNFRSF11B	4982	broad.mit.edu	37	chr8	119941043	119941043	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtgtgttgcatttccttTctgagttagcaggagaccaa	8	14	11	8	1	1	2	0	1	1	1	3	3	2	2	2	1	2	4	2	1	2	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr8:119941043T>A	uc003yon.3	-	3	849	c.526A>T	c.(526-528)AAA>TAA	p.K176*	TNFRSF11B_uc010mdc.1_RNA	NM_002546	NP_002537	O00300	TR11B_HUMAN	osteoprotegerin precursor	176	TNFR-Cys 4.				apoptosis|skeletal system development		cytokine activity|receptor activity			central_nervous_system(2)	2	all_cancers(13;3.71e-26)|Lung NSC(37;1.69e-07)|Ovarian(258;0.018)|all_neural(195;0.0592)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00193)			GCATTTCCTTTCTGAGTTAGC	0.388													17	137					0	0	0.028581	0	0		A	119941043	A	A	119941043	4	1	91	1	0	0	0	0	0	1	0	0	16310	1792	62	5	691	5	TNFRSF11B	8	119941043	Nonsense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	16643137	119941043	26422979	92	60783											
AGTPBP1	23287	broad.mit.edu	37	chr9	88207528	88207528	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaagtagcaaacatcatCtttatgtggaaaattgacag	17	10	8	6	0	2	1	1	1	1	0	2	2	2	2	0	1	3	3	0	1	6	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr9:88207528C>A	uc011ltd.1	-	18	2548	c.2515G>T	c.(2515-2517)GAT>TAT	p.D839Y	AGTPBP1_uc004aod.3_Missense_Mutation_p.D465Y|AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Missense_Mutation_p.D799Y|AGTPBP1_uc011lte.1_Missense_Mutation_p.D851Y	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	839					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						CAAACATCATCTTTATGTGGA	0.303													16	130					4.7546e-09	5.42769e-09	0.028581	1	0		A	88207528	A	A	88207528	3	1	91	1	0	0	0	0	1	0	0	0	400	913	32	5	1197	5	AGTPBP1	9	88207528	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08		88207528	53005903	93	60784											
PTCH1	5727	broad.mit.edu	37	chr9	98232138	98232138	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtctcctgtcctcgcgtcGatataaatccatgctgagaa	10	11	8	12	3	1	1	0	1	1	1	6	3	3	1	3	0	1	1	3	0	4	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr9:98232138G>A	uc004avk.3	-	13	1992	c.1804C>T	c.(1804-1806)CGA>TGA	p.R602*	PTCH1_uc010mro.2_Nonsense_Mutation_p.R451*|PTCH1_uc010mrp.2_Nonsense_Mutation_p.R451*|PTCH1_uc010mrq.2_Nonsense_Mutation_p.R451*|PTCH1_uc004avl.3_Nonsense_Mutation_p.R451*|PTCH1_uc010mrr.2_Nonsense_Mutation_p.R536*|PTCH1_uc004avm.3_Nonsense_Mutation_p.R601*|PTCH1_uc010mrs.1_Nonsense_Mutation_p.R270*	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	602	Cytoplasmic (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity	p.R602*(4)		skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				TCCTCGCGTCGATATAAATCC	0.443									Basal_Cell_Nevus_syndrome				29	92					0	0	0.030593	0	0		A	98232138	A	A	98232138	4	1	91	1	0	0	0	0	0	1	0	0	12752	1066	37	1	2583	1	PTCH1	9	98232138	Nonsense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	10024610	98232138	42981293	94	60785											
OR1L1	26737	broad.mit.edu	37	chr9	125424489	125424489	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacattcttctgactaatcaGctcatcttctgtgcctcaaa	10	14	4	13	0	7	1	3	1	4	0	7	1	7	1	1	0	2	1	1	0	2	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr9:125424489G>T	uc011lza.1	+	1	645	c.645G>T	c.(643-645)CAG>CAT	p.Q215H		NM_001005236	NP_001005236	Q8NH94	OR1L1_HUMAN	olfactory receptor, family 1, subfamily L,	215	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						TGACTAATCAGCTCATCTTCT	0.433													29	271					4.06085e-26	4.82977e-26	0.034045	1	0		T	125424489	T	T	125424489	3	4	91	1	0	0	0	0	1	0	0	0	10982	962	34	5	497	5	OR1L1	9	125424489	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	27192351	125424489	15788942	95	60786											
ITIH2	3698	broad.mit.edu	37	chr10	7771981	7771981	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagacaatatctccttgtTcagtttgggcatgggatttg	9	14	10	8	0	2	1	1	0	1	1	3	2	2	2	2	2	0	3	2	2	3	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr10:7771981T>A	uc001ijs.2	+	12	1508	c.1346T>A	c.(1345-1347)TTC>TAC	p.F449Y		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	449	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						ATCTCCTTGTTCAGTTTGGGC	0.388													13	49					0	0	0.016723	0	0		A	7771981	A	A	7771981	3	1	91	1	0	0	0	0	1	0	0	0	7920	1783	62	5	1392	5	ITIH2	10	7771981	Missense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08		7771981	127762766	96	60787											
PCDH15	65217	broad.mit.edu	37	chr10	55826517	55826517	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatataaatattccacttacTtttacttgacccacaaaggc	14	14	3	10	0	0	1	0	1	0	0	1	1	1	1	2	1	2	0	2	1	8	9			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr10:55826517T>A	uc001jju.1	-	18	2615	c.2220A>T	c.(2218-2220)AAA>AAT	p.K740N	PCDH15_uc010qhq.1_Missense_Mutation_p.K745N|PCDH15_uc010qhr.1_Missense_Mutation_p.K740N|PCDH15_uc010qhs.1_Missense_Mutation_p.K752N|PCDH15_uc010qht.1_Missense_Mutation_p.K747N|PCDH15_uc010qhu.1_Missense_Mutation_p.K740N|PCDH15_uc001jjv.1_Missense_Mutation_p.K718N|PCDH15_uc010qhv.1_Missense_Mutation_p.K740N|PCDH15_uc010qhw.1_Missense_Mutation_p.K703N|PCDH15_uc010qhx.1_Missense_Mutation_p.K669N|PCDH15_uc010qhy.1_Missense_Mutation_p.K745N|PCDH15_uc010qhz.1_Missense_Mutation_p.K740N|PCDH15_uc010qia.1_Missense_Mutation_p.K718N|PCDH15_uc010qib.1_Missense_Mutation_p.K718N|PCDH15_uc001jjw.2_Missense_Mutation_p.K740N	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	740	Extracellular (Potential).|Cadherin 7.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TTCCACTTACTTTTACTTGAC	0.323										HNSCC(58;0.16)			8	66					0	0	0.004482	0	0		A	55826517	A	A	55826517	3	1	91	1	0	0	0	0	1	0	0	0	11530	1623	56	5	5330	5	PCDH15	10	55826517	Missense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	48054536	55826517	79708230	97	60788											
CCAR1	55749	broad.mit.edu	37	chr10	70509403	70509403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagttcgacgtgttgttcCacgttacacagttcagtttt	8	15	10	8	3	1	1	1	0	0	1	3	3	2	1	1	0	1	6	1	0	1	7			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr10:70509403C>T	uc001joo.2	+	10	1198	c.1079C>T	c.(1078-1080)CCA>CTA	p.P360L	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Missense_Mutation_p.P165L|CCAR1_uc009xpx.1_Missense_Mutation_p.P334L|CCAR1_uc001jon.1_Missense_Mutation_p.P306L|CCAR1_uc010qiz.1_Missense_Mutation_p.P345L|CCAR1_uc010qja.1_Missense_Mutation_p.P345L|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	360	Arg-rich.				apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						CGTGTTGTTCCACGTTACACA	0.418													16	125					0	0	0.007413	0	0		T	70509403	T	T	70509403	3	4	91	1	0	0	0	0	1	0	0	0	2733	594	21	4	1113	4	CCAR1	10	70509403	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	14682886	70509403	65025344	98	60789											
GBF1	8729	broad.mit.edu	37	chr10	104136717	104136717	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcccaggagaaacgtggCaagagtcacaaatatgacag	17	5	11	8	1	1	3	1	1	0	2	2	4	2	3	1	2	1	1	1	2	5	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr10:104136717C>T	uc001kux.1	+	33	4551	c.4311C>T	c.(4309-4311)GGC>GGT	p.G1437G	GBF1_uc001kuy.1_Silent_p.G1437G|GBF1_uc001kuz.1_Silent_p.G1438G	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1437					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		AGAAACGTGGCAAGAGTCACA	0.507													13	81					0	0	0.013537	0	0		T	104136717	T	T	104136717	2	4	91	1	0	0	0	0	0	0	0	1	6286	697	25	2		2	GBF1	10	104136717	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	33627314	104136717	31398030	99	60790											
VENTX	27287	broad.mit.edu	37	chr10	135053288	135053288	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaccaccagtacctgaGccctctggagcggaagaggc	10	4	12	15	1	1	2	0	1	1	1	1	4	1	4	5	3	4	2	5	3	2	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr10:135053288G>T	uc010quy.1	+	2	361	c.350G>T	c.(349-351)AGC>ATC	p.S117I		NM_014468	NP_055283	O95231	VENTX_HUMAN	VENT homeobox	117	Homeobox.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(35;4.15e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.8e-06)|Epithelial(32;9.31e-06)|all cancers(32;1.19e-05)		CAGTACCTGAGCCCTCTGGAG	0.493													8	27					5.18039e-06	5.53861e-06	0.00308	1	0		T	135053288	T	T	135053288	3	4	91	1	0	0	0	0	1	0	0	0	17179	971	34	5	356	5	VENTX	10	135053288	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	30916571	135053288	481459	100	60791											
PHRF1	57661	broad.mit.edu	37	chr11	608501	608501	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgtccagggagcacggAcggacgcgctctgggacgcg	7	4	19	11	6	1	0	0	0	1	0	2	4	2	4	1	5	1	2	1	5	0	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr11:608501A>G	uc001lqe.2	+	14	3176	c.3045A>G	c.(3043-3045)GGA>GGG	p.G1015G	PHRF1_uc010qwc.1_Silent_p.G1014G|PHRF1_uc010qwd.1_Silent_p.G1013G|PHRF1_uc010qwe.1_Silent_p.G1011G|PHRF1_uc009ybz.1_Silent_p.G805G|PHRF1_uc009yca.1_RNA	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	1015	Arg-rich.						RNA polymerase binding|zinc ion binding				0						GGGAGCACGGACGGACGCGCT	0.667													4	33					0	0	0.014758	0	0		G	608501	G	G	608501	2	3	91	1	0	0	0	0	0	0	0	1	11880	262	10	3		3	PHRF1	11	608501	Silent	SNP	A	TCGA-BR-8683-01A-11D-2394-08		608501	134398015	101	60792											
RAG1	5896	broad.mit.edu	37	chr11	36595009	36595009	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaaaggaaaagaaggattCctttgaggggaaaccctctc	15	8	10	8	0	2	2	1	1	1	1	4	5	3	5	2	4	1	0	2	4	6	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr11:36595009C>A	uc001mwu.3	+	2	279	c.155C>A	c.(154-156)TCC>TAC	p.S52Y	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	52	Interaction with importin alpha-1.				histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				AAGAAGGATTCCTTTGAGGGG	0.463									Familial_Hemophagocytic_Lymphohistiocytosis				15	90					3.27435e-08	3.65636e-08	0.020292	1	0		A	36595009	A	A	36595009	3	1	91	1	0	0	0	0	1	0	0	0	13028	855	30	5	157	5	RAG1	11	36595009	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	35986508	36595009	98411507	102	60793											
C11orf94	143678	broad.mit.edu	37	chr11	45928156	45928156	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagtaatactcggcaaggtcGggcccgtcccgcttgcgctg	6	9	13	13	5	0	0	0	0	0	0	3	0	1	0	2	3	2	4	2	3	4	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr11:45928156G>C	uc001nbs.3	-	3	298	c.261C>G	c.(259-261)CCC>CCG	p.P87P		NM_001080446	NP_001073915	C9JXX5	CK094_HUMAN	hypothetical protein LOC143678	87						extracellular region					0						CGGCAAGGTCGGGCCCGTCCC	0.582													14	62					0	0	0.020292	0	0		C	45928156	C	C	45928156	2	2	91	1	0	0	0	0	0	0	0	1	1676	1103	39	5		5	C11orf94	11	45928156	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	9333147	45928156	89078360	103	60794											
MS4A8B	83661	broad.mit.edu	37	chr11	60476241	60476241	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaccccgactattatccttAcgcctggggtgtggtgagta	7	12	11	11	2	0	1	0	1	0	0	1	2	1	1	4	3	2	1	4	3	5	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr11:60476241A>G	uc001npv.2	+	5	724	c.521A>G	c.(520-522)TAC>TGC	p.Y174C	MS4A8B_uc009yne.1_Missense_Mutation_p.Y174C	NM_031457	NP_113645	Q9BY19	M4A8B_HUMAN	membrane-spanning 4-domains, subfamily A, member	174	Extracellular (Potential).					integral to membrane	receptor activity				0						TATTATCCTTACGCCTGGGGT	0.453													12	56					0	0	0.013537	0	0		G	60476241	G	G	60476241	3	3	91	1	0	0	0	0	1	0	0	0	9885	391	14	3	535	3	MS4A8B	11	60476241	Missense_Mutation	SNP	A	TCGA-BR-8683-01A-11D-2394-08	14548085	60476241	74530275	104	60795											
OR2AT4	341152	broad.mit.edu	37	chr11	74800351	74800351	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttcatgaggacagggtaGtgcagtgggtggcagatagc	9	8	19	5	0	1	2	1	1	0	1	1	3	1	3	0	5	2	4	0	5	2	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr11:74800351G>T	uc010rro.1	-	1	408	c.408C>A	c.(406-408)CAC>CAA	p.H136Q		NM_001005285	NP_001005285	A6NND4	O2AT4_HUMAN	olfactory receptor, family 2, subfamily AT,	136	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GGACAGGGTAGTGCAGTGGGT	0.542													15	90					1.3612e-06	1.48697e-06	0.024245	1	0		T	74800351	T	T	74800351	3	4	91	1	0	0	0	0	1	0	0	0	11006	1020	36	5	557	5	OR2AT4	11	74800351	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	14324110	74800351	60206165	105	60796											
TMEM225	338661	broad.mit.edu	37	chr11	123753982	123753982	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattctcagattccttacAttcgttgtcagatttatgga	11	16	7	7	1	2	3	2	0	1	3	5	4	3	4	1	1	1	1	1	1	3	7			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr11:123753982A>G	uc001pzi.2	-	4	749	c.541T>C	c.(541-543)TGT>CGT	p.C181R		NM_001013743	NP_001013765	Q6GV28	TM225_HUMAN	transmembrane protein 225	181						integral to membrane				upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	3						GATTCCTTACATTCGTTGTCA	0.438													7	56					0	0	0.02938	0	0		G	123753982	G	G	123753982	3	3	91	1	0	0	0	0	1	0	0	0	16172	217	8	3	140	3	TMEM225	11	123753982	Missense_Mutation	SNP	A	TCGA-BR-8683-01A-11D-2394-08	48953631	123753982	11252534	106	60797											
OR10S1	219873	broad.mit.edu	37	chr11	123847713	123847713	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgatgaagatgtaggaaataAcgatgaggatgaggcagcct	15	7	14	5	2	0	4	0	3	0	1	0	8	0	6	1	3	2	2	1	3	4	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr11:123847713A>C	uc001pzm.1	-	1	686	c.686T>G	c.(685-687)GTT>GGT	p.V229G		NM_001004474	NP_001004474	Q8NGN2	O10S1_HUMAN	olfactory receptor, family 10, subfamily S,	229	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GTAGGAAATAACGATGAGGAT	0.597													10	66					0	0	0.008291	0	0		C	123847713	C	C	123847713	3	2	91	1	0	0	0	0	1	0	0	0	10937	43	2	5	313	5	OR10S1	11	123847713	Missense_Mutation	SNP	A	TCGA-BR-8683-01A-11D-2394-08	93731	123847713	11158803	107	60798											
LRMP	4033	broad.mit.edu	37	chr12	25254154	25254154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaagtgatgattcagcacGtagaaaacttgaagaggatg	15	10	12	4	1	1	6	1	4	0	2	1	7	1	7	0	1	2	2	0	1	5	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr12:25254154G>A	uc001rgh.2	+	15	1818	c.784G>A	c.(784-786)GTA>ATA	p.V262I	LRMP_uc010sja.1_Missense_Mutation_p.V262I|LRMP_uc010sjb.1_Missense_Mutation_p.V209I|LRMP_uc001rgi.2_RNA|LRMP_uc010sjc.1_Missense_Mutation_p.V262I|LRMP_uc010sjd.1_Missense_Mutation_p.V209I	NM_006152	NP_006143	Q12912	LRMP_HUMAN	lymphoid-restricted membrane protein	318	Potential.|Cytoplasmic (Potential).				vesicle fusion|vesicle targeting	endoplasmic reticulum membrane|integral to plasma membrane				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Colorectal(261;0.11)					GATTCAGCACGTAGAAAACTT	0.358													10	59					0	0	0.010729	0	0		A	25254154	A	A	25254154	3	1	91	1	0	0	0	0	1	0	0	0	8968	1145	40	1	826	1	LRMP	12	25254154	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08		25254154	108597741	108	60799											
PLXNC1	10154	broad.mit.edu	37	chr12	94603463	94603463	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccctaaaattcagataattCgaagcagtaaagaaaaggta	19	8	8	6	1	1	2	1	0	0	2	2	3	1	2	1	1	1	3	1	1	9	6			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr12:94603463C>T	uc001tdc.2	+	5	1786	c.1537C>T	c.(1537-1539)CGA>TGA	p.R513*		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	513	Extracellular (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						TCAGATAATTCGAAGCAGTAA	0.358													16	71					0	0	0.024245	0	0		T	94603463	T	T	94603463	4	4	91	1	0	0	0	0	0	1	0	0	12145	876	31	1	1555	1	PLXNC1	12	94603463	Nonsense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	69349309	94603463	39248432	109	60800											
ANO4	121601	broad.mit.edu	37	chr12	101520836	101520836	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatggaaaagcacaccacaaCgagtggccgtgaccatgtag	15	5	11	10	2	0	1	0	1	0	0	0	3	0	2	3	2	2	2	3	2	5	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr12:101520836C>T	uc010svm.1	+	27	3428	c.2856C>T	c.(2854-2856)AAC>AAT	p.N952N	ANO4_uc001thw.2_Silent_p.N917N|ANO4_uc001thx.2_Silent_p.N952N|ANO4_uc001thy.2_Silent_p.N472N	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	952	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						CACACCACAACGAGTGGCCGT	0.488										HNSCC(74;0.22)			4	23					0	0	0.009096	0	0		T	101520836	T	T	101520836	2	4	91	1	0	0	0	0	0	0	0	1	699	535	19	1		1	ANO4	12	101520836	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	6917373	101520836	32331059	110	60801											
OAS2	4939	broad.mit.edu	37	chr12	113424902	113424902	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccgatggtacccttgtcctCttcttcagtgacttaaaaca	9	14	6	12	1	3	1	1	1	2	0	5	2	5	1	3	1	2	1	3	1	3	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr12:113424902C>T	uc001tuj.2	+	2	377	c.237C>T	c.(235-237)CTC>CTT	p.L79L	OAS2_uc001tuh.2_Silent_p.L79L|OAS2_uc001tui.1_Silent_p.L79L	NM_016817	NP_058197	P29728	OAS2_HUMAN	2'-5'-oligoadenylate synthetase 2 isoform 1	79	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|membrane|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(1)	1						CCCTTGTCCTCTTCTTCAGTG	0.458													15	116					0	0	0.028581	0	0		T	113424902	T	T	113424902	2	4	91	1	0	0	0	0	0	0	0	1	10819	900	32	4		4	OAS2	12	113424902	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	11904066	113424902	20426993	111	60802											
NOS1	4842	broad.mit.edu	37	chr12	117658007	117658007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacagacgtatatgtggcccCcttgctccttcagggctcgg	6	10	11	14	2	1	1	1	0	0	1	3	1	2	1	3	3	1	3	3	3	2	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr12:117658007C>T	uc001twm.1	-	27	4729	c.4043G>A	c.(4042-4044)GGG>GAG	p.G1348E		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1348	NADP (By similarity).				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	TATGTGGCCCCCTTGCTCCTT	0.602													34	225					0	0	0.012213	0	0		T	117658007	T	T	117658007	3	4	91	1	0	0	0	0	1	0	0	0	10560	623	22	4	273	4	NOS1	12	117658007	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	4233105	117658007	16193888	112	60803											
TMEM132B	114795	broad.mit.edu	37	chr12	125834316	125834316	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaaattgaaatcccacaTccttgacagctccatctact	12	11	5	13	0	1	2	0	2	1	0	4	3	4	3	3	1	2	1	3	1	3	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr12:125834316T>C	uc001uhe.1	+	2	379	c.371T>C	c.(370-372)ATC>ACC	p.I124T		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	124	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		AAATCCCACATCCTTGACAGC	0.468													39	133					0	0	0.025465	0	0		C	125834316	C	C	125834316	3	2	91	1	0	0	0	0	1	0	0	0	16071	1435	50	3	377	3	TMEM132B	12	125834316	Missense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	8176309	125834316	8017579	113	60804											
GPR133	283383	broad.mit.edu	37	chr12	131466566	131466566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgtggagctgtatacgCgggacaattccatgacatgg	9	10	13	9	2	1	1	0	1	1	0	2	3	2	3	1	3	2	3	1	3	3	3	rs144030317		TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr12:131466566C>T	uc001uit.3	+	5	1007	c.448C>T	c.(448-450)CGG>TGG	p.R150W	GPR133_uc010tbm.1_Missense_Mutation_p.R182W	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	150	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		GCTGTATACGCGGGACAATTC	0.587													11	77					0	0	0.013537	0	0		T	131466566	T	T	131466566	3	4	91	1	0	0	0	0	1	0	0	0	6658	759	27	1	466	1	GPR133	12	131466566	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	5632250	131466566	2385329	114	60805											
PCDH20	64881	broad.mit.edu	37	chr13	61987146	61987146	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttagatgcttgtggaacTttctgactgtaagaataagt	11	15	9	6	0	1	3	0	1	1	2	2	4	2	4	1	1	2	2	1	1	5	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr13:61987146T>C	uc001vid.3	-	2	1450	c.1086A>G	c.(1084-1086)AAA>AAG	p.K362K	PCDH20_uc010thj.1_Silent_p.K362K	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	335	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		CTTGTGGAACTTTCTGACTGT	0.433													16	92					0	0	0.0333	0	0		C	61987146	C	C	61987146	2	2	91	1	0	0	0	0	0	0	0	1	11534	1606	56	3		3	PCDH20	13	61987146	Silent	SNP	T	TCGA-BR-8683-01A-11D-2394-08		61987146	53182732	115	60806											
SLITRK6	84189	broad.mit.edu	37	chr13	86368485	86368485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattttcctgttccaaaagaCttctttggagatgttttgca	9	17	8	7	0	1	2	0	0	1	2	3	4	3	2	2	1	1	3	2	1	2	7			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr13:86368485C>T	uc001vll.1	-	2	2618	c.2159G>A	c.(2158-2160)AGT>AAT	p.S720N	SLITRK6_uc010afe.1_Missense_Mutation_p.S173N	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	720	Cytoplasmic (Potential).					integral to membrane		p.S720C(1)		large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		TTCCAAAAGACTTCTTTGGAG	0.398													54	319					0	0	0.01441	0	0		T	86368485	T	T	86368485	3	4	91	1	0	0	0	0	1	0	0	0	14772	565	20	4	370	4	SLITRK6	13	86368485	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	24381339	86368485	28801393	116	60807											
SALL2	6297	broad.mit.edu	37	chr14	21991438	21991438	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtccccacctcctcctcTgccccagatgcctcttctga	5	11	5	20	0	3	2	0	1	3	1	6	2	6	2	8	0	2	0	8	0	0	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr14:21991438T>C	uc001wbe.2	-	2	2706	c.2424A>G	c.(2422-2424)GCA>GCG	p.A808A	SALL2_uc010tly.1_Silent_p.A806A|SALL2_uc010tlz.1_Silent_p.A671A|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Silent_p.A673A|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	808							DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		CCTCCTCCTCTGCCCCAGATG	0.532													17	92					0	0	0.010504	0	0		C	21991438	C	C	21991438	2	2	91	1	0	0	0	0	0	0	0	1	13836	1567	55	3		3	SALL2	14	21991438	Silent	SNP	T	TCGA-BR-8683-01A-11D-2394-08		21991438	85358102	117	60808											
NPAS3	64067	broad.mit.edu	37	chr14	34269261	34269261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccgacagcgccaaggactCggacagcgcaggcgaggcgg	9	2	17	13	6	0	0	0	0	0	0	2	4	1	2	2	5	2	1	2	5	1	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr14:34269261C>T	uc001wru.2	+	12	1812	c.1748C>T	c.(1747-1749)TCG>TTG	p.S583L	NPAS3_uc001wrs.2_Missense_Mutation_p.S570L|NPAS3_uc001wrt.2_Missense_Mutation_p.S551L|NPAS3_uc001wrv.2_Missense_Mutation_p.S553L	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	583					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		GCCAAGGACTCGGACAGCGCA	0.682													4	13					0	0	0.009096	0	0		T	34269261	T	T	34269261	3	4	91	1	0	0	0	0	1	0	0	0	10583	893	31	1	1849	1	NPAS3	14	34269261	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	12277823	34269261	73080279	118	60809											
SYNE2	23224	broad.mit.edu	37	chr14	64556322	64556322	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctattgaatctgaagtaaaaTcaatggaaaaaagagtttca	19	11	7	4	0	3	3	2	2	1	1	3	4	3	4	0	1	0	2	0	1	9	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr14:64556322T>G	uc001xgm.2	+	59	11931	c.11701T>G	c.(11701-11703)TCA>GCA	p.S3901A	SYNE2_uc001xgl.2_Missense_Mutation_p.S3901A|SYNE2_uc010apy.2_Missense_Mutation_p.S286A|SYNE2_uc010apx.1_Missense_Mutation_p.S293A	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3901	Cytoplasmic (Potential).|Potential.				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TGAAGTAAAATCAATGGAAAA	0.289													19	37					0	0	0.010504	0	0		G	64556322	G	G	64556322	3	3	91	1	0	0	0	0	1	0	0	0	15471	1435	50	5	11931	5	SYNE2	14	64556322	Missense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	30287061	64556322	42793218	119	60810											
COX16	51241	broad.mit.edu	37	chr14	70826374	70826374	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaaatctcagcagctcaCgctctcaccaagacgagtac	12	7	6	16	2	3	1	3	0	2	1	6	2	4	1	2	0	3	4	2	0	3	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr14:70826374C>T	uc001xmb.2	-	1	71	c.-69G>A	c.(-71--67)GCGTG>GCATG			NM_016468	NP_057552	Q9P0S2	COX16_HUMAN	COX16 cytochrome c oxidase assembly homolog							integral to membrane|mitochondrial membrane					0						CAGCAGCTCACGCTCTCACCA	0.517													4	31					0	0	0.009096	0	0		T	70826374	T	T	70826374	1	4	91	1	0	0	0	0	0	0	0	0	3768	551	19	1		1	COX16	14	70826374	Translation_Start_Site	SNP	C	TCGA-BR-8683-01A-11D-2394-08	6270052	70826374	36523166	120	60811											
STON2	85439	broad.mit.edu	37	chr14	81744110	81744110	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtgtgggccacagcaggTttgggctggtatttcttctt	4	15	14	8	0	2	0	0	0	2	0	2	0	2	0	1	4	1	5	1	4	1	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr14:81744110T>G	uc010tvu.1	-	4	1746	c.1545A>C	c.(1543-1545)AAA>AAC	p.K515N	STON2_uc001xvk.1_Missense_Mutation_p.K515N|STON2_uc010tvt.1_Missense_Mutation_p.K312N	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	515	SHD.				endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		CCACAGCAGGTTTGGGCTGGT	0.493													38	97					0	0	0.027894	0	0		G	81744110	G	G	81744110	3	3	91	1	0	0	0	0	1	0	0	0	15343	1722	60	5	1178	5	STON2	14	81744110	Missense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	10917736	81744110	25605430	121	60812											
SERPINA1	5265	broad.mit.edu	37	chr14	94847443	94847443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacgtggaagtcctcttcctCggtgtccttgacttcaaagg	7	12	10	12	2	2	1	1	1	1	0	6	2	5	2	3	3	0	0	3	3	2	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr14:94847443C>T	uc001ycx.3	-	3	943	c.682G>A	c.(682-684)GAG>AAG	p.E228K	SERPINA1_uc001ycw.3_RNA|SERPINA1_uc010auw.2_Missense_Mutation_p.E228K|SERPINA1_uc010aux.2_Missense_Mutation_p.E228K|SERPINA1_uc001ycy.3_Missense_Mutation_p.E228K|SERPINA1_uc010auy.2_Missense_Mutation_p.E228K|SERPINA1_uc001ycz.3_Missense_Mutation_p.E228K|SERPINA1_uc010auz.2_Missense_Mutation_p.E228K|SERPINA1_uc010ava.2_Missense_Mutation_p.E228K|SERPINA1_uc001ydb.3_Missense_Mutation_p.E228K|SERPINA1_uc010avb.2_Missense_Mutation_p.E228K|SERPINA1_uc001ydc.3_Missense_Mutation_p.E228K|SERPINA1_uc001yda.1_Missense_Mutation_p.E228K	NM_000295	NP_000286	P01009	A1AT_HUMAN	serine proteinase inhibitor, clade A, member 1	228			E -> K (in X).		acute-phase response|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen|proteinaceous extracellular matrix	protease binding|serine-type endopeptidase inhibitor activity			skin(1)	1		all_cancers(154;0.0649)|all_epithelial(191;0.223)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)	Alpha-1-proteinase inhibitor(DB00058)	TCCTCTTCCTCGGTGTCCTTG	0.522									Alpha-1-Antitrypsin_Deficiency				12	18					0	0	0.010729	0	0		T	94847443	T	T	94847443	3	4	91	1	0	0	0	0	1	0	0	0	14111	893	31	1	586	1	SERPINA1	14	94847443	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	13103333	94847443	12502097	122	60813											
DUOX1	53905	broad.mit.edu	37	chr15	45428813	45428813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccatggtgccccctggcGtctacatgaggtgagggagg	7	7	15	12	1	1	2	0	2	1	0	1	3	1	3	4	5	2	0	4	5	1	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr15:45428813G>A	uc001zus.1	+	10	1358	c.1012G>A	c.(1012-1014)GTC>ATC	p.V338I	DUOX1_uc001zut.1_Missense_Mutation_p.V338I|DUOX1_uc010bee.1_5'UTR	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	338	Peroxidase-like; mediates peroxidase activity.|Extracellular (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		GCCCCCTGGCGTCTACATGAG	0.587													9	74					0	0	0.008291	0	0		A	45428813	A	A	45428813	3	1	91	1	0	0	0	0	1	0	0	0	4806	1145	40	1	1042	1	DUOX1	15	45428813	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08		45428813	57102579	123	60814											
MAP2K1	5604	broad.mit.edu	37	chr15	66729154	66729154	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgcaggttctgcatgagtGcaactctccgtacatcgtgg	7	11	12	11	2	2	1	0	1	2	0	4	1	2	1	1	2	5	6	1	2	2	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr15:66729154G>C	uc010bhq.2	+	3	837	c.362G>C	c.(361-363)TGC>TCC	p.C121S	MAP2K1_uc010ujp.1_Missense_Mutation_p.C99S	NM_002755	NP_002746	Q02750	MP2K1_HUMAN	mitogen-activated protein kinase kinase 1	121	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|plasma membrane	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						CTGCATGAGTGCAACTCTCCG	0.502									Cardiofaciocutaneous_syndrome				17	74					0	0	0.006122	0	0		C	66729154	C	C	66729154	3	2	91	1	0	0	0	0	1	0	0	0	9254	1319	46	5	372	5	MAP2K1	15	66729154	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	21300341	66729154	35802238	124	60815											
PEX11A	8800	broad.mit.edu	37	chr15	90226909	90226909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgccctgtcacatgtaactCgtttcatctgcagggagatt	8	14	9	10	1	3	1	2	0	1	1	4	2	3	1	1	1	3	3	1	1	1	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr15:90226909C>T	uc002boi.2	-	3	538	c.443G>A	c.(442-444)CGA>CAA	p.R148Q	PEX11A_uc010upy.1_RNA	NM_003847	NP_003838	O75192	PX11A_HUMAN	peroxisomal biogenesis factor 11 alpha	148	Lumenal (Potential).				cellular lipid metabolic process|peroxisome fission|signal transduction	integral to peroxisomal membrane					0	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			ACATGTAACTCGTTTCATCTG	0.478													19	173					0	0	0.006122	0	0		T	90226909	T	T	90226909	3	4	91	1	0	0	0	0	1	0	0	0	11756	884	31	1	304	1	PEX11A	15	90226909	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	23497755	90226909	12304483	125	60816											
WDR90	197335	broad.mit.edu	37	chr16	711480	711480	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggccttctcaccagatGacaggcttcttgtcacactg	7	11	8	15	0	3	2	2	1	2	1	4	2	3	2	3	2	0	1	3	2	0	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr16:711480G>T	uc002cii.1	+	30	3706	c.3652G>T	c.(3652-3654)GAC>TAC	p.D1218Y	WDR90_uc002cij.1_Intron|WDR90_uc002cik.1_Missense_Mutation_p.D745Y|WDR90_uc002cil.1_RNA|WDR90_uc002cim.1_Missense_Mutation_p.D392Y|WDR90_uc002cin.1_5'UTR	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	1218	WD 13.									ovary(1)	1		Hepatocellular(780;0.0218)				CTCACCAGATGACAGGCTTCT	0.642													10	53					0.000442599	0.000460945	0.006214	1	0		T	711480	T	T	711480	3	4	91	1	0	0	0	0	1	0	0	0	17363	1290	45	5	3770	5	WDR90	16	711480	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08		711480	89643273	126	60817											
CCDC78	124093	broad.mit.edu	37	chr16	775269	775269	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgtgctgctcattctcggGgttcatggtgttcttgggct	2	16	13	10	1	4	0	2	0	2	0	5	0	4	0	1	4	2	5	1	4	0	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr16:775269G>C	uc002cjg.2	-	5	566	c.460C>G	c.(460-462)CCC>GCC	p.P154A	CCDC78_uc002cjf.2_Missense_Mutation_p.P3A|CCDC78_uc002cji.3_Missense_Mutation_p.P228A|CCDC78_uc002cjj.3_Missense_Mutation_p.P98A|CCDC78_uc002cjh.2_5'UTR|CCDC78_uc010uuo.1_Missense_Mutation_p.P154A|CCDC78_uc002cjk.2_Missense_Mutation_p.P143A|HAGHL_uc002cjl.1_5'Flank|HAGHL_uc002cjm.1_5'Flank|HAGHL_uc002cjn.1_5'Flank|HAGHL_uc002cjo.1_5'Flank|HAGHL_uc010uup.1_5'Flank	NM_001031737	NP_001026907	A2IDD5	CCD78_HUMAN	coiled-coil domain containing 78	154										central_nervous_system(1)	1		Hepatocellular(780;0.0218)				TCATTCTCGGGGTTCATGGTG	0.627													11	88					0	0	0.010729	0	0		C	775269	C	C	775269	3	2	91	1	0	0	0	0	1	0	0	0	2855	1232	43	5	896	5	CCDC78	16	775269	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	63789	775269	89579484	127	60818											
KIAA0556	23247	broad.mit.edu	37	chr16	27752044	27752044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccagggataaaggcctacGgcatgagccagggtggggga	10	4	19	8	1	0	1	0	1	0	0	0	3	0	3	3	7	2	1	3	7	3	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr16:27752044G>A	uc002dow.2	+	15	2450	c.2426G>A	c.(2425-2427)CGG>CAG	p.R809Q		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	809										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						AAAGGCCTACGGCATGAGCCA	0.597													13	59					0	0	0.013537	0	0		A	27752044	A	A	27752044	3	1	91	1	0	0	0	0	1	0	0	0	8199	1116	39	1	2484	1	KIAA0556	16	27752044	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	26976775	27752044	62602709	128	60819											
MVP	9961	broad.mit.edu	37	chr16	29853242	29853242	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtctctgcagcgtggtCttcgggcctgagctggtgtc	2	12	16	11	2	2	1	0	1	2	0	5	1	2	1	1	4	3	3	1	4	0	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr16:29853242C>A	uc002dui.2	+	10	1527	c.1443C>A	c.(1441-1443)GTC>GTA	p.V481V	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010vdz.1_RNA|MVP_uc002duj.2_Silent_p.V481V|MVP_uc010vea.1_Silent_p.V75V	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	481	MVP 9.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						GCAGCGTGGTCTTCGGGCCTG	0.667													7	43					2.0095e-06	2.18329e-06	0.02938	1	0		A	29853242	A	A	29853242	2	1	91	1	0	0	0	0	0	0	0	1	10014	900	32	5		5	MVP	16	29853242	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	2101198	29853242	60501511	129	60820											
DDX28	55794	broad.mit.edu	37	chr16	68055970	68055970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaggatgtgcaccagctcgGccaccttatctgctcccttc	6	11	9	15	1	1	1	0	1	1	0	4	2	2	2	4	2	3	3	4	2	1	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr16:68055970G>A	uc002evh.1	-	1	1990	c.1136C>T	c.(1135-1137)GCC>GTC	p.A379V	DUS2L_uc002evi.2_5'Flank|DUS2L_uc002evj.2_5'Flank|DUS2L_uc010vkk.1_5'Flank	NM_018380	NP_060850	Q9NUL7	DDX28_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 28	379	Helicase C-terminal.					mitochondrial nucleoid|nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0116)|Epithelial(162;0.0474)|all cancers(182;0.233)		CACCAGCTCGGCCACCTTATC	0.522													13	80					0	0	0.016723	0	0		A	68055970	A	A	68055970	3	1	91	1	0	0	0	0	1	0	0	0	4358	1203	42	2	490	2	DDX28	16	68055970	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	38202728	68055970	22298783	130	60821											
CHST6	4166	broad.mit.edu	37	chr16	75512895	75512895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttctgccagcggctcccGcgccaggtcctcgaagcgca	6	7	12	16	5	1	0	0	0	1	0	4	2	3	0	4	2	3	2	4	2	1	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr16:75512895G>A	uc002fef.2	-	3	1012	c.832C>T	c.(832-834)CGG>TGG	p.R278W	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Missense_Mutation_p.R278W	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	278	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						AGCGGCTCCCGCGCCAGGTCC	0.667													8	64					0	0	0.00308	0	0		A	75512895	A	A	75512895	3	1	91	1	0	0	0	0	1	0	0	0	3411	1086	38	1	359	1	CHST6	16	75512895	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	7456925	75512895	14841858	131	60822											
TP53	7157	broad.mit.edu	37	chr17	7577606	7577606	+	Frame_Shift_Del	DEL	A	-	-																															atggtggtacagtcagagccAacctaggagataacacaggc																										TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr17:7577606delA	uc002gim.2	-	7	869	c.675delT	c.(673-675)GTTfs	p.V225fs	TP53_uc002gig.1_Frame_Shift_Del_p.V225fs|TP53_uc002gih.2_Frame_Shift_Del_p.V225fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.V93fs|TP53_uc010cng.1_Frame_Shift_Del_p.V93fs|TP53_uc002gii.1_Frame_Shift_Del_p.V93fs|TP53_uc010cnh.1_Frame_Shift_Del_p.V225fs|TP53_uc010cni.1_Frame_Shift_Del_p.V225fs|TP53_uc002gij.2_Frame_Shift_Del_p.V225fs|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Frame_Shift_Del_p.V132fs|TP53_uc002gio.2_Frame_Shift_Del_p.V93fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	225	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> F (in sporadic cancers; somatic mutation).|V -> I (in sporadic cancers; somatic mutation).|V -> L (in a sporadic cancer; somatic mutation).|V -> G (in a sporadic cancer; somatic mutation).|V -> A (in sporadic cancers; somatic mutation).|V -> D (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.V225A(3)|p.V225F(2)|p.V225_S227delVGS(2)|p.V225I(1)|p.V225D(1)|p.V225>XXXXXXXXXXXXXXXXXXXXXXXX(1)|p.V225fs*3(1)|p.E224_V225insXX(1)|p.V225fs*24(1)|p.V225fs*23(1)|p.V225fs*22(1)|p.V225V(1)|p.V225_G226delVG(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		AGTCAGAGCCAACCTAGGAGA	0.493		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	36	---	---	---	---						.	-	7577606	-	-	7577606	7	5	91	1	0	1	0	1	0	0	0	0	16407	117	5	0	615	0	TP53	17	7577606	Frame_Shift_Del	DEL	A	TCGA-BR-8683-01A-11D-2394-08		7577606	73617604	132	60823											
PIK3R5	23533	broad.mit.edu	37	chr17	8792137	8792137	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctcctcctcctcttcctCctcttcatcatctcccagga	4	14	2	21	0	5	0	2	0	3	0	12	1	11	1	7	1	0	0	7	1	0	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr17:8792137C>A	uc002glt.2	-	10	1034	c.967G>T	c.(967-969)GAG>TAG	p.E323*	PIK3R5_uc010vuz.1_Nonsense_Mutation_p.E323*|PIK3R5_uc002glu.3_5'UTR|PIK3R5_uc010coa.1_Missense_Mutation_p.R271S|PIK3R5_uc010cob.1_5'UTR	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	323				DILQEILLKEQELLQPGILGDDEEEEEEEEEVEEDLETDGH CAERDSLLSTSSLASHDSTLSLASSQASG -> GNIEGDPG PRRPDSAGLASLQTSCRKSCSRNRSYSSQGSWEMMKRRERR RRRWRRTWKLTGTVPREIPCS (in Ref. 6; AAW63121).	platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						tcctcttcctcctcttcATCA	0.463													6	32					8.12818e-05	8.55374e-05	0.02938	1	0		A	8792137	A	A	8792137	4	1	91	1	0	0	0	0	0	1	0	0	11941	864	30	5	1715	5	PIK3R5	17	8792137	Nonsense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	1214531	8792137	72403073	133	60824											
MYH13	8735	broad.mit.edu	37	chr17	10216579	10216579	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagcgccctctgcagctcGgccttggcttcctgctcctc	3	10	10	18	2	1	0	0	0	1	0	5	1	3	0	4	2	4	4	4	2	0	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr17:10216579G>A	uc002gmk.1	-	30	4167	c.4077C>T	c.(4075-4077)GCC>GCT	p.A1359A		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1359	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TCTGCAGCTCGGCCTTGGCTT	0.632													17	136					0	0	0.028581	0	0		A	10216579	A	A	10216579	2	1	91	1	0	0	0	0	0	0	0	1	10050	1103	39	1		1	MYH13	17	10216579	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	1424442	10216579	70978631	134	60825											
COX10	1352	broad.mit.edu	37	chr17	13980159	13980159	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggtcaagccaaagcagaAatatatgagatgagacctct	16	8	9	8	0	3	3	2	2	1	3	3	5	3	3	2	1	2	1	2	1	5	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr17:13980159A>G	uc002gof.3	+	3	489	c.285A>G	c.(283-285)GAA>GAG	p.E95E	COX10_uc010vvs.1_Intron|COX10_uc010vvt.1_5'UTR	NM_001303	NP_001294	Q12887	COX10_HUMAN	heme A:farnesyltransferase precursor	95					heme a biosynthetic process|heme O biosynthetic process|respiratory chain complex IV assembly	integral to membrane|mitochondrial membrane	protoheme IX farnesyltransferase activity				0		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)		CCAAAGCAGAAATATATGAGA	0.443													19	63					0	0	0.007413	0	0		G	13980159	G	G	13980159	2	3	91	1	0	0	0	0	0	0	0	1	3765	11	1	3		3	COX10	17	13980159	Silent	SNP	A	TCGA-BR-8683-01A-11D-2394-08	3763580	13980159	67215051	135	60826											
KRTAP1-5	83895	broad.mit.edu	37	chr17	39183049	39183049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccacacgactgtctgggCggcaccacctgatacgggtg	7	7	12	15	3	1	1	0	1	1	0	2	2	2	1	4	3	1	1	4	3	1	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr17:39183049C>T	uc002hvu.2	-	1	406	c.359G>A	c.(358-360)CGC>CAC	p.R120H		NM_031957	NP_114163	Q9BYS1	KRA15_HUMAN	keratin associated protein 1.5	120	15 X 5 AA repeats of C-C-[QEPVRC]- [TPIVLE]-[SRHVP].					keratin filament					0		Breast(137;0.00043)	STAD - Stomach adenocarcinoma(17;0.000371)			ACTGTCTGGGCGGCACCACCT	0.647													8	42					0	0	0.00308	0	0		T	39183049	T	T	39183049	3	4	91	1	0	0	0	0	1	0	0	0	8520	768	27	1	169	1	KRTAP1-5	17	39183049	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	25202890	39183049	42012161	136	60827											
SGCA	6442	broad.mit.edu	37	chr17	48252711	48252711	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgccccggccactctccacCctgcccatgttcaatgtgca	6	9	8	18	1	2	0	1	0	1	0	3	0	2	0	6	1	3	2	6	1	1	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr17:48252711C>T	uc002iqi.2	+	9	1113	c.1077C>T	c.(1075-1077)ACC>ACT	p.T359T	SGCA_uc002iqj.2_Silent_p.T235T|SGCA_uc010wmi.1_RNA|HILS1_uc010wmj.1_5'Flank|HILS1_uc002iqk.2_Intron|HILS1_uc002iql.2_5'Flank	NM_000023	NP_000014	Q16586	SGCA_HUMAN	sarcoglycan, alpha isoform 1 precursor	359	Cytoplasmic (Potential).				muscle contraction|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(2)	2						CACTCTCCACCCTGCCCATGT	0.667													10	13					0	0	0.006214	0	0		T	48252711	T	T	48252711	2	4	91	1	0	0	0	0	0	0	0	1	14224	610	22	4		4	SGCA	17	48252711	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	9069662	48252711	32942499	137	60828											
FBF1	85302	broad.mit.edu	37	chr17	73915948	73915948	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtttctagcaccttgaTgcggcttctgccaacagaac	9	11	9	12	2	2	2	0	1	2	1	2	3	2	2	2	1	5	3	2	1	3	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr17:73915948T>A	uc002jqc.2	-	19	2168	c.1894A>T	c.(1894-1896)ATC>TTC	p.I632F	FBF1_uc002jqa.1_RNA|FBF1_uc010wsp.1_Missense_Mutation_p.I623F|FBF1_uc002jqd.1_Missense_Mutation_p.I633F|FBF1_uc002jqb.2_RNA|FBF1_uc010dgr.1_5'UTR	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1	632											0						AGCACCTTGATGCGGCTTCTG	0.612													10	50					0	0	0.008291	0	0		A	73915948	A	A	73915948	3	1	91	1	0	0	0	0	1	0	0	0	5709	1464	51	5	1551	5	FBF1	17	73915948	Missense_Mutation	SNP	T	TCGA-BR-8683-01A-11D-2394-08	25663237	73915948	7279262	138	60829											
DLGAP1	9229	broad.mit.edu	37	chr18	3742442	3742442	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaggctccggttgatggAgacttcactcactgccctca	7	10	10	14	1	3	2	3	1	0	1	5	3	5	2	3	3	1	2	3	3	0	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr18:3742442A>G	uc002kmf.2	-	3	1310	c.1243T>C	c.(1243-1245)TCC>CCC	p.S415P	DLGAP1_uc010wyz.1_Missense_Mutation_p.S415P|DLGAP1_uc002kme.1_Missense_Mutation_p.S113P|DLGAP1_uc010dkn.2_Missense_Mutation_p.S113P|DLGAP1_uc010wyw.1_Missense_Mutation_p.S121P|DLGAP1_uc010wyx.1_Missense_Mutation_p.S127P|DLGAP1_uc010wyy.1_Missense_Mutation_p.S127P|DLGAP1_uc002kmg.2_Missense_Mutation_p.S113P|DLGAP1_uc002kmk.2_Missense_Mutation_p.S415P	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	415					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				CGGTTGATGGAGACTTCACTC	0.527													8	44					0	0	0.004482	0	0		G	3742442	G	G	3742442	3	3	91	1	0	0	0	0	1	0	0	0	4565	304	11	3	1722	3	DLGAP1	18	3742442	Missense_Mutation	SNP	A	TCGA-BR-8683-01A-11D-2394-08		3742442	74334806	139	60830											
LRRC30	339291	broad.mit.edu	37	chr18	7231917	7231917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtagactggtgaggatcGcctggaatcccatggacaaa	11	9	13	8	1	0	2	0	1	0	1	2	5	1	5	2	4	0	1	2	4	3	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr18:7231917G>A	uc010wzk.1	+	1	781	c.781G>A	c.(781-783)GCC>ACC	p.A261T		NM_001105581	NP_001099051	A6NM36	LRC30_HUMAN	leucine rich repeat containing 30	261										ovary(1)|liver(1)	2						GGTGAGGATCGCCTGGAATCC	0.582													95	79					0	0	0.01441	0	0		A	7231917	A	A	7231917	3	1	91	1	0	0	0	0	1	0	0	0	9003	1087	38	1	783	1	LRRC30	18	7231917	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	3489475	7231917	70845331	140	60831											
TNFRSF11A	8792	broad.mit.edu	37	chr18	60036280	60036280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacacctcctttctctgaacCcctggaggtgggggagaatg	8	9	12	12	0	1	2	0	1	1	1	3	4	2	3	4	4	1	0	4	4	2	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr18:60036280C>T	uc002lin.2	+	9	1168	c.1130C>T	c.(1129-1131)CCC>CTC	p.P377L	TNFRSF11A_uc010dpv.2_Intron	NM_003839	NP_003830	Q9Y6Q6	TNR11_HUMAN	tumor necrosis factor receptor superfamily,	377	Cytoplasmic (Potential).				adaptive immune response|cell-cell signaling|circadian temperature homeostasis|monocyte chemotaxis|osteoclast differentiation|positive regulation of cell proliferation|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|response to interleukin-1|response to lipopolysaccharide	external side of plasma membrane|integral to membrane	metal ion binding|tumor necrosis factor receptor activity			breast(2)|lung(1)	3		Colorectal(73;0.188)				TTCTCTGAACCCCTGGAGGTG	0.557									Paget_Disease_of_Bone				12	40					0	0	0.010729	0	0		T	60036280	T	T	60036280	3	4	91	1	0	0	0	0	1	0	0	0	16309	623	22	4	1164	4	TNFRSF11A	18	60036280	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	52804363	60036280	18040968	141	60832											
SF3A2	8175	broad.mit.edu	37	chr19	2247812	2247812	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagaagcccccggctccacCcagcctccctgctggccccc	5	4	10	22	1	0	1	0	0	0	1	2	2	2	1	8	3	3	2	8	3	1	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:2247812C>G	uc002lvg.2	+	9	784	c.662C>G	c.(661-663)CCC>CGC	p.P221R	AMH_uc002lvh.2_5'Flank|hsa-mir-4321|MI0015852_5'Flank	NM_007165	NP_009096	Q15428	SF3A2_HUMAN	splicing factor 3a, subunit 2	221	Pro-rich.				nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex	nucleic acid binding|zinc ion binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGGCTCCACCCAGCCTCCCT	0.662													8	50					0	0	0.004482	0	0		G	2247812	G	G	2247812	3	3	91	1	0	0	0	0	1	0	0	0	14172	623	22	5	692	5	SF3A2	19	2247812	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08		2247812	56881171	142	60833											
C19orf29	58509	broad.mit.edu	37	chr19	3623842	3623842	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcgcgcttctcctcgggCgtctcgaaggccttcatcag	4	10	12	15	6	4	0	2	0	2	0	7	1	4	0	2	2	1	1	2	2	1	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:3623842C>T	uc002lyh.2	-	2	539	c.486G>A	c.(484-486)ACG>ACA	p.T162T	C19orf29_uc010dtn.2_5'Flank|C19orf29_uc002lyi.3_Silent_p.T162T|C19orf29_uc010dto.2_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	162	Potential.					catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		TCTCCTCGGGCGTCTCGAAGG	0.682													5	25					0	0	0.014758	0	0		T	3623842	T	T	3623842	2	4	91	1	0	0	0	0	0	0	0	1	1921	755	27	1		1	C19orf29	19	3623842	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	1376030	3623842	55505141	143	60834											
HNRNPM	4670	broad.mit.edu	37	chr19	8531211	8531211	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcttgaagataaagatggAaaaagtcgtggaataggcac	17	9	11	4	1	1	3	0	1	1	2	2	5	1	5	0	3	0	1	0	3	7	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:8531211A>C	uc010dwe.2	+	7	803	c.723A>C	c.(721-723)GGA>GGC	p.G241G	HNRNPM_uc010dwc.1_Silent_p.G241G|HNRNPM_uc010xke.1_Silent_p.G202G|HNRNPM_uc010dwd.2_Silent_p.G202G|HNRNPM_uc002mka.2_Silent_p.G121G	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	241	RRM 2.				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						ATAAAGATGGAAAAAGTCGTG	0.403													24	123					0	0	0.016522	0	0		C	8531211	C	C	8531211	2	2	91	1	0	0	0	0	0	0	0	1	7287	233	9	5		5	HNRNPM	19	8531211	Silent	SNP	A	TCGA-BR-8683-01A-11D-2394-08	4907369	8531211	50597772	144	60835											
CYP4F22	126410	broad.mit.edu	37	chr19	15636337	15636337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcttcccccagcctcccCggcgcaactggctgctgggc	3	7	12	19	2	0	0	0	0	0	0	2	0	2	0	5	3	4	5	5	3	1	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:15636337C>T	uc002nbh.3	+	3	357	c.190C>T	c.(190-192)CGG>TGG	p.R64W		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	64						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						CCAGCCTCCCCGGCGCAACTG	0.527													14	27					0	0	0.020292	0	0		T	15636337	T	T	15636337	3	4	91	1	0	0	0	0	1	0	0	0	4192	643	23	1	192	1	CYP4F22	19	15636337	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	7105126	15636337	43492646	145	60836											
ZNF626	199777	broad.mit.edu	37	chr19	20808009	20808009	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacatttgtagggtttctctCcagtatgaattttcttatgt	8	19	7	7	0	2	1	0	1	2	0	4	1	3	1	1	1	0	3	1	1	4	7			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:20808009C>A	uc002npb.1	-	4	824	c.674G>T	c.(673-675)GGA>GTA	p.G225V	ZNF626_uc002npc.1_Missense_Mutation_p.G149V	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	225					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GGGTTTCTCTCCAGTATGAAT	0.393													20	67					3.99206e-14	4.72002e-14	0.007413	1	0		A	20808009	A	A	20808009	3	1	91	1	0	0	0	0	1	0	0	0	18075	855	30	5	916	5	ZNF626	19	20808009	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	5171672	20808009	38320974	146	60837											
ZNF429	353088	broad.mit.edu	37	chr19	21720043	21720043	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcatactggagaggaaccCtacaaatttgaaaaatgtgg	16	10	9	6	0	1	2	1	1	0	1	1	4	1	3	1	3	3	0	1	3	6	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:21720043C>T	uc002nqd.1	+	4	1325	c.1188C>T	c.(1186-1188)CCC>CCT	p.P396P	ZNF429_uc010ecu.1_Intron	NM_001001415	NP_001001415	Q86V71	ZN429_HUMAN	zinc finger protein 429	396					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GAGAGGAACCCTACAAATTTG	0.368													9	40					0	0	0.004482	0	0		T	21720043	T	T	21720043	2	4	91	1	0	0	0	0	0	0	0	1	17927	668	24	4		4	ZNF429	19	21720043	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	912034	21720043	37408940	147	60838											
TBCB	1155	broad.mit.edu	37	chr19	36611658	36611658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggtgagtatgaggacgtgtCccgggtggagaagtacacga	10	8	17	6	3	0	3	0	2	0	1	1	6	1	4	1	4	1	2	1	4	3	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:36611658C>T	uc002odg.1	+	3	880	c.305C>T	c.(304-306)TCC>TTC	p.S102F	TBCB_uc002odh.1_Missense_Mutation_p.S83F	NM_001281	NP_001272	Q99426	TBCB_HUMAN	cytoskeleton associated protein 1	102					'de novo' posttranslational protein folding|cell differentiation|nervous system development	cytoplasm|microtubule	protein binding				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GAGGACGTGTCCCGGGTGGAG	0.647													9	71					0	0	0.006214	0	0		T	36611658	T	T	36611658	3	4	91	1	0	0	0	0	1	0	0	0	15655	855	30	4	315	4	TBCB	19	36611658	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	14891615	36611658	22517325	148	60839											
LRFN1	57622	broad.mit.edu	37	chr19	39805434	39805434	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttcaccatctggcccacCgcctcccacggcagggcctc	6	6	10	19	2	2	0	1	0	1	0	4	0	3	0	6	4	0	2	6	4	0	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:39805434C>T	uc002okw.2	-	1	543	c.543G>A	c.(541-543)GCG>GCA	p.A181A		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	181	LRR 5.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane				ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			TCTGGCCCACCGCCTCCCACG	0.632													5	15					0	0	0.014758	0	0		T	39805434	T	T	39805434	2	4	91	1	0	0	0	0	0	0	0	1	8955	639	23	1		1	LRFN1	19	39805434	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	3193776	39805434	19323549	149	60840											
FCGBP	8857	broad.mit.edu	37	chr19	40384012	40384012	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgttgaggggaacacagcGgtcagcacttaacacgaaac	13	7	12	9	2	1	1	1	1	0	0	1	3	1	2	0	3	5	3	0	3	3	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:40384012G>C	uc002omp.3	-	21	9606	c.9598C>G	c.(9598-9600)CGC>GGC	p.R3200G		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	3200	TIL 7.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GGAACACAGCGGTCAGCACTT	0.647													8	99					0	0	0.007413	0	0		C	40384012	C	C	40384012	3	2	91	1	0	0	0	0	1	0	0	0	5792	1116	39	5	6683	5	FCGBP	19	40384012	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	578578	40384012	18744971	150	60841											
EGLN2	112398	broad.mit.edu	37	chr19	41307124	41307124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtggaggccctcaaacgggGtgggcgcctgcgagacgggc	6	4	20	11	4	1	1	1	0	0	1	1	3	1	2	2	7	2	0	2	7	1	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:41307124G>A	uc010ehd.2	+	8	1648	c.647G>A	c.(646-648)GGT>GAT	p.G216D	EGLN2_uc002opg.3_Missense_Mutation_p.G216D|EGLN2_uc002oph.2_Missense_Mutation_p.G216D|EGLN2_uc002opi.2_Missense_Mutation_p.G216D	NM_080732	NP_542770	Q96KS0	EGLN2_HUMAN	EGL nine (C.elegans) homolog 2	216					cell redox homeostasis|estrogen receptor signaling pathway|positive regulation of protein catabolic process|regulation of cell growth|response to hypoxia	cytoplasm|nucleus	ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|oxygen sensor activity			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Vitamin C(DB00126)	CTCAAACGGGGTGGGCGCCTG	0.687													14	101					0	0	0.020292	0	0		A	41307124	A	A	41307124	3	1	91	1	0	0	0	0	1	0	0	0	4975	1261	44	4	649	4	EGLN2	19	41307124	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	923112	41307124	17821859	151	60842											
LILRB5	10990	broad.mit.edu	37	chr19	54760505	54760505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggttctgtctcttccgggCccatgggagtccctccttat	3	14	11	13	1	2	0	0	0	2	0	6	1	5	1	4	3	0	1	4	3	1	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:54760505C>T	uc002qex.2	-	3	313	c.202G>A	c.(202-204)GCC>ACC	p.A68T	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.A68T|LILRB5_uc002qey.2_Missense_Mutation_p.A68T|LILRB5_uc002qez.2_Missense_Mutation_p.A68T|LILRB5_uc002qfa.1_Missense_Mutation_p.A58T|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	68	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CTCTTCCGGGCCCATGGGAGT	0.607													43	195					0	0	0.030466	0	0		T	54760505	T	T	54760505	3	4	91	1	0	0	0	0	1	0	0	0	8810	739	26	2	1617	2	LILRB5	19	54760505	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	13453381	54760505	4368478	152	60843											
NLRP7	199713	broad.mit.edu	37	chr19	55447693	55447693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcatcagcatcatcgtgcGttcccactcgatgtgccctg	7	10	9	15	3	2	0	2	0	0	0	5	1	3	0	2	0	4	3	2	0	0	1	rs143673542		TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:55447693G>A	uc002qih.3	-	6	2312	c.2236C>T	c.(2236-2238)CGC>TGC	p.R746C	NLRP7_uc002qig.3_Missense_Mutation_p.R718C|NLRP7_uc002qii.3_Missense_Mutation_p.R746C|NLRP7_uc010esk.2_Missense_Mutation_p.R746C|NLRP7_uc010esl.2_Missense_Mutation_p.R774C	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	746							ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		ATCATCGTGCGTTCCCACTCG	0.572													9	27					0	0	0.008291	0	0		A	55447693	A	A	55447693	3	1	91	1	0	0	0	0	1	0	0	0	10501	1145	40	1	901	1	NLRP7	19	55447693	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	687188	55447693	3681290	153	60844											
ZNF417	147687	broad.mit.edu	37	chr19	58420784	58420784	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtctttccagtgtggactcGctgatgttgaataaggctgc	7	14	12	8	1	1	2	0	2	1	0	3	3	2	3	1	2	1	3	1	2	2	3	rs149986649	byFrequency	TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr19:58420784G>A	uc002qqq.2	-	3	1061	c.862C>T	c.(862-864)CGA>TGA	p.R288*	ZNF417_uc010yhm.1_Nonsense_Mutation_p.R245*|ZNF417_uc002qqr.2_Nonsense_Mutation_p.R287*	NM_152475	NP_689688	Q8TAU3	ZN417_HUMAN	zinc finger protein 417	288	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0151)		GTGTGGACTCGCTGATGTTGA	0.463													29	175					0	0	0.034045	0	0		A	58420784	A	A	58420784	4	1	91	1	0	0	0	0	0	1	0	0	17919	1095	38	1	869	1	ZNF417	19	58420784	Nonsense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	2973091	58420784	708199	154	60845											
CHGB	1114	broad.mit.edu	37	chr20	5903632	5903632	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacaaacgacgcacgaggcCcagacaccaccacgggagga	14	0	13	14	4	0	1	0	0	0	1	0	6	0	4	3	4	1	1	3	4	1	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr20:5903632C>A	uc002wmg.2	+	4	1148	c.842C>A	c.(841-843)CCC>CAC	p.P281H	CHGB_uc010zqz.1_5'UTR	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	281						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						CGCACGAGGCCCAGACACCAC	0.592													4	20					0.00909568	0.00914116	0.009096	1	0		A	5903632	A	A	5903632	3	1	91	1	0	0	0	0	1	0	0	0	3342	623	22	5	856	5	CHGB	20	5903632	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08		5903632	57121888	155	60846											
SGK2	10110	broad.mit.edu	37	chr20	42213598	42213598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggccagcagctctggggcctCaagtgcattcctgggatttt	6	11	13	11	0	2	0	1	0	1	0	3	1	3	1	3	4	3	3	3	4	1	3			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr20:42213598C>T	uc002xkv.2	+	12	1445	c.1226C>T	c.(1225-1227)TCA>TTA	p.S409L	SGK2_uc002xkt.2_RNA|SGK2_uc002xkr.2_Missense_Mutation_p.S349L|SGK2_uc010ggm.2_3'UTR|SGK2_uc002xks.2_Missense_Mutation_p.S348L|SGK2_uc002xku.2_Missense_Mutation_p.S349L	NM_016276	NP_057360	Q9HBY8	SGK2_HUMAN	serum/glucocorticoid regulated kinase 2 isoform	409	AGC-kinase C-terminal.				intracellular protein kinase cascade|response to oxidative stress		ATP binding|potassium channel regulator activity|protein serine/threonine kinase activity|sodium channel regulator activity			lung(3)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	6		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TCTGGGGCCTCAAGTGCATTC	0.507													23	179					0	0	0.014323	0	0		T	42213598	T	T	42213598	3	4	91	1	0	0	0	0	1	0	0	0	14234	838	29	4	1272	4	SGK2	20	42213598	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	36309966	42213598	20811922	156	60847											
COL20A1	57642	broad.mit.edu	37	chr20	61956812	61956812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggtccaccaggggtcaaagGagagaagggagaccatgggc	12	3	18	8	0	1	2	1	0	0	2	2	5	2	3	3	6	0	0	3	6	2	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr20:61956812G>A	uc011aau.1	+	28	3414	c.3314G>A	c.(3313-3315)GGA>GAA	p.G1105E	COL20A1_uc011aav.1_Missense_Mutation_p.G926E	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	1105	Collagen-like 1.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					GGGGTCAAAGGAGAGAAGGGA	0.657													6	60					0	0	0.00308	0	0		A	61956812	A	A	61956812	3	1	91	1	0	0	0	0	1	0	0	0	3682	1174	41	4	3420	4	COL20A1	20	61956812	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	19743214	61956812	1068708	157	60848											
OPRL1	4987	broad.mit.edu	37	chr20	62729814	62729814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagagaaggaccggaacctgCggcgcatcactcggctggtg	9	5	16	11	4	1	1	1	0	0	1	2	5	1	3	2	5	2	2	2	5	2	0	rs148484121	byFrequency	TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr20:62729814C>T	uc002yic.2	+	5	1177	c.775C>T	c.(775-777)CGG>TGG	p.R259W	OPRL1_uc002yid.2_Missense_Mutation_p.R259W|OPRL1_uc002yif.3_Missense_Mutation_p.R254W	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	259	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					CCGGAACCTGCGGCGCATCAC	0.667													8	120					0	0	0.00308	0	0		T	62729814	T	T	62729814	3	4	91	1	0	0	0	0	1	0	0	0	10905	759	27	1	785	1	OPRL1	20	62729814	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	773002	62729814	295706	158	60849											
SON	6651	broad.mit.edu	37	chr21	34927514	34927514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacccctagccgtcggagcCgcaccccaagccgccggaga	8	2	12	19	5	0	1	0	0	0	1	1	3	0	2	8	2	3	2	8	2	2	1			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr21:34927514C>T	uc002yse.1	+	3	6026	c.5977C>T	c.(5977-5979)CGC>TGC	p.R1993C	SON_uc002ysb.1_Missense_Mutation_p.R1993C|SON_uc002ysc.2_Missense_Mutation_p.R1993C|SON_uc002ysd.2_Missense_Mutation_p.R984C|SON_uc002ysf.1_Intron|SON_uc002ysg.2_Missense_Mutation_p.R984C	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	1993	2-7.|2 X 19 AA repeats of P-S-R-R-R-R-S-R-S-V- V-R-R-R-S-F-S-I-S.|7 X 7 AA repeats of P-S-R-R-S-R-[TS].				anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						ccgtcggagccgcaccccaag	0.184													15	41					0	0	0.020292	0	0		T	34927514	T	T	34927514	3	4	91	1	0	0	0	0	1	0	0	0	14951	652	23	1	5987	1	SON	21	34927514	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08		34927514	13202381	159	60850											
UBASH3A	53347	broad.mit.edu	37	chr21	43829575	43829575	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttccctagacgaccccatccCccaggagtatgcccttttcc	7	10	6	18	1	0	1	0	0	0	1	3	3	3	2	7	1	1	1	7	1	2	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr21:43829575C>A	uc002zbe.2	+	3	248	c.212C>A	c.(211-213)CCC>CAC	p.P71H	UBASH3A_uc002zbf.2_Missense_Mutation_p.P71H|UBASH3A_uc010gpc.2_RNA|UBASH3A_uc010gpd.2_RNA|UBASH3A_uc010gpe.2_Missense_Mutation_p.P71H	NM_018961	NP_061834	P57075	UBS3A_HUMAN	ubiquitin associated and SH3 domain containing,	71						cytosol|nucleus				ovary(3)	3						GACCCCATCCCCCAGGAGTAT	0.537													18	83					2.94398e-08	3.30581e-08	0.007413	1	0		A	43829575	A	A	43829575	3	1	91	1	0	0	0	0	1	0	0	0	16865	623	22	5	222	5	UBASH3A	21	43829575	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	8902061	43829575	4300320	160	60851											
SIK1	150094	broad.mit.edu	37	chr21	44841177	44841177	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctcaaagacttccggggcGgcatacggggggctcccaca	8	5	13	15	3	1	1	1	0	0	1	3	1	3	1	3	6	1	2	3	6	2	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr21:44841177G>A	uc002zdf.2	-	6	697	c.570C>T	c.(568-570)GCC>GCT	p.A190A		NM_173354	NP_775490	P57059	SIK1_HUMAN	salt-inducible kinase 1	190	Protein kinase.				anoikis|cell cycle|cell differentiation|intracellular protein kinase cascade|multicellular organismal development|regulation of cell differentiation|regulation of mitotic cell cycle	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(2)|testis(2)|ovary(1)|central_nervous_system(1)|skin(1)	7						CTTCCGGGGCGGCATACGGGG	0.597													25	38					0	0	0.024334	0	0		A	44841177	A	A	44841177	2	1	91	1	0	0	0	0	0	0	0	1	14342	1103	39	1		1	SIK1	21	44841177	Silent	SNP	G	TCGA-BR-8683-01A-11D-2394-08	1011602	44841177	3288718	161	60852											
RRP1B	23076	broad.mit.edu	37	chr21	45096660	45096660	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggtgtcttcgaagctatcGtagatcagtctccttttgtg	6	15	12	8	2	3	1	1	0	2	1	6	2	3	1	1	2	1	2	1	2	3	5			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr21:45096660G>C	uc002zdk.2	+	8	775	c.661G>C	c.(661-663)GTA>CTA	p.V221L		NM_015056	NP_055871	Q14684	RRP1B_HUMAN	ribosomal RNA processing 1 homolog B	221					rRNA processing	cytosol|nucleolus|preribosome, small subunit precursor	protein binding			skin(1)	1				STAD - Stomach adenocarcinoma(101;0.178)		CGAAGCTATCGTAGATCAGTC	0.517													7	61					0	0	0.00308	0	0		C	45096660	C	C	45096660	3	2	91	1	0	0	0	0	1	0	0	0	13713	1145	40	5	691	5	RRP1B	21	45096660	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	255483	45096660	3033235	162	60853											
ARVCF	421	broad.mit.edu	37	chr22	19969506	19969506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggatgtgacaatagacaCatgggaagtgggtgtgccgg	10	9	16	6	2	0	2	0	1	0	1	1	4	0	4	1	4	1	0	1	4	3	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr22:19969506C>T	uc002zqz.2	-	4	590	c.319G>A	c.(319-321)GTG>ATG	p.V107M	ARVCF_uc002zqy.2_5'Flank|ARVCF_uc002zra.2_Missense_Mutation_p.V107M	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	107					cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					ACAATAGACACATGGGAAGTG	0.657													9	40					0	0	0.008291	0	0		T	19969506	T	T	19969506	3	4	91	1	0	0	0	0	1	0	0	0	1004	478	17	4	2633	4	ARVCF	22	19969506	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08		19969506	31335060	163	60854											
MMP11	4320	broad.mit.edu	37	chr22	24125616	24125616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctatgcctacttcctgcGcggccgcctctactggaagt	6	10	11	14	3	1	0	0	0	1	0	2	1	2	1	4	3	4	1	4	3	4	4			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr22:24125616G>A	uc002zxx.2	+	8	1374	c.1352G>A	c.(1351-1353)CGC>CAC	p.R451H	MMP11_uc002zxy.2_RNA|MMP11_uc002zxz.2_RNA	NM_005940	NP_005931	P24347	MMP11_HUMAN	matrix metalloproteinase 11 preproprotein	451	Hemopexin-like 4.				collagen catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|large_intestine(1)	3		Medulloblastoma(6;9.86e-08)|all_neural(6;0.000318)				TACTTCCTGCGCGGCCGCCTC	0.627													10	54					0	0	0.006214	0	0		A	24125616	A	A	24125616	3	1	91	1	0	0	0	0	1	0	0	0	9668	1087	38	1	1382	1	MMP11	22	24125616	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	4156110	24125616	27178950	164	60855											
GAS2L1	10634	broad.mit.edu	37	chr22	29708172	29708172	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcctgggtggcaaatgtGgccaacctggggactctggc	6	8	16	11	1	1	0	0	0	1	0	2	1	2	1	3	6	1	1	3	6	2	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chr22:29708172G>T	uc003afa.1	+	7	1931	c.1732G>T	c.(1732-1734)GGC>TGC	p.G578C	GAS2L1_uc010gvm.1_Missense_Mutation_p.G351C|GAS2L1_uc003afb.1_3'UTR|GAS2L1_uc003afc.1_Missense_Mutation_p.G578C|GAS2L1_uc003afd.1_3'UTR|GAS2L1_uc003afe.1_3'UTR	NM_152236	NP_689422	Q99501	GA2L1_HUMAN	growth arrest-specific 2 like 1 isoform a	578					cell cycle arrest	cytoplasm|cytoskeleton					0						TGGCAAATGTGGCCAACCTGG	0.662													21	99					1.01871e-10	1.18359e-10	0.008871	1	0		T	29708172	T	T	29708172	3	4	91	1	0	0	0	0	1	0	0	0	6261	1335	47	5	1753	5	GAS2L1	22	29708172	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08	5582556	29708172	21596394	165	60856											
VCX3A	51481	broad.mit.edu	37	chrX	6451851	6451851	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcctccacctggctctcctGactcagtggttcctccacct	4	13	6	18	0	2	1	1	1	1	0	7	1	6	1	7	2	0	2	7	2	0	2			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chrX:6451851G>C	uc004crs.2	-	3	803	c.496C>G	c.(496-498)CAG>GAG	p.Q166E	VCX3A_uc010ndk.1_Intron	NM_016379	NP_057463	Q9NNX9	VCX3_HUMAN	variable charge, X-linked 3A	166	8 X 10 AA tandem repeats of L-S-Q-E-S- [EQ]-V-E-E-P.|7.|Glu-rich.				brain development	nucleolus					0						TGGCTCTCCTGACTCAGTGGT	0.582													7	149					0	0	0.030593	0	0		C	6451851	C	C	6451851	3	2	91	1	0	0	0	0	1	0	0	0	17170	1299	45	5	68	5	VCX3A	23	6451851	Missense_Mutation	SNP	G	TCGA-BR-8683-01A-11D-2394-08		6451851	148818709	166	60857											
P2RY10	27334	broad.mit.edu	37	chrX	78216284	78216284	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catgtattatctttacccctCcggatttactattacatcag	10	16	4	11	1	2	0	1	0	1	0	3	1	3	1	3	1	3	1	3	1	6	8			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chrX:78216284C>T	uc004ede.2	+	4	636	c.267C>T	c.(265-267)CTC>CTT	p.L89L	P2RY10_uc004edf.2_Silent_p.L89L	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	89	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						CTTTACCCCTCCGGATTTACT	0.453													30	77					0	0	0.034045	0	0		T	78216284	T	T	78216284	2	4	91	1	0	0	0	0	0	0	0	1	11366	842	30	4		4	P2RY10	23	78216284	Silent	SNP	C	TCGA-BR-8683-01A-11D-2394-08	71764433	78216284	77054276	167	60858											
CT47B1	643311	broad.mit.edu	37	chrX	120009290	120009290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtcctcctcggcgctccCgccctgggggactgcggcca	3	7	14	17	4	0	1	0	1	0	0	4	2	3	2	5	4	1	1	5	4	0	0			TCGA-BR-8683-01A-11D-2394-08	TCGA-BR-8683-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	c0cf96d6-0371-45d9-8e5e-fc12ba2bd5c8	aebed280-af70-496f-a1b4-f441f6e6a82e	g.chrX:120009290C>T	uc011muc.1	-	1	490	c.235G>A	c.(235-237)GGG>AGG	p.G79R		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	79											0						TCGGCGCTCCCGCCCTGGGGG	0.612													13	14					0	0	0.016723	0	0		T	120009290	T	T	120009290	3	4	91	1	0	0	0	0	1	0	0	0	3992	652	23	1	672	1	CT47B1	23	120009290	Missense_Mutation	SNP	C	TCGA-BR-8683-01A-11D-2394-08	41793006	120009290	35261270	168	60859											
ATAD3B	83858	broad.mit.edu	37	chr1	1423270	1423270	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcatggatgaagcagaCgccttccttcggaagcgagc	9	9	11	12	3	2	2	1	1	1	1	4	5	3	4	2	2	3	1	2	2	2	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:1423270C>T	uc001afv.2	+	12	1343	c.1242C>T	c.(1240-1242)GAC>GAT	p.D414D	ATAD3B_uc001afx.2_Silent_p.D368D|ATAD3B_uc001afy.2_5'Flank	NM_031921	NP_114127	Q5T9A4	ATD3B_HUMAN	AAA-ATPase  TOB3	414							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		ATGAAGCAGACGCCTTCCTTC	0.652													13	69					0	0	0.016723	0	0		T	1423270	T	T	1423270	2	4	92	1	0	0	0	0	0	0	0	1	1075	535	19	1		1	ATAD3B	1	1423270	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08		1423270	247827351	1	60860											
CHD5	26038	broad.mit.edu	37	chr1	6169960	6169960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcagccaggcgggcgttgaGggccatggcggggtggttgg	4	8	21	8	3	1	1	1	1	0	0	1	1	1	1	2	8	1	2	2	8	0	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:6169960G>A	uc001amb.1	-	38	5573	c.5473C>T	c.(5473-5475)CTC>TTC	p.L1825F	CHD5_uc001alz.1_Missense_Mutation_p.L682F|CHD5_uc001ama.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1825					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		CGGGCGTTGAGGGCCATGGCG	0.667													6	65					0	0	0.001168	0	0		A	6169960	A	A	6169960	3	1	92	1	0	0	0	0	1	0	0	0	3331	1000	35	4	407	4	CHD5	1	6169960	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	4746690	6169960	243080661	2	60861											
PER3	8863	broad.mit.edu	37	chr1	7887798	7887798	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcacccttgcagttaaacTtacttcaggaagagatgccc	11	10	8	12	0	2	1	2	0	0	1	2	3	2	2	2	1	4	3	2	1	4	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:7887798T>G	uc001aoo.2	+	17	2960	c.2785T>G	c.(2785-2787)TTA>GTA	p.L929V	PER3_uc009vmg.1_Missense_Mutation_p.L937V|PER3_uc009vmh.1_Missense_Mutation_p.L930V|PER3_uc001aop.2_Missense_Mutation_p.L937V|PER3_uc010nzw.1_Missense_Mutation_p.L618V	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	929					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		GCAGTTAAACTTACTTCAGGA	0.488													13	70					0	0	0.003163	0	0		G	7887798	G	G	7887798	3	3	92	1	0	0	0	0	1	0	0	0	11750	1606	56	5	2851	5	PER3	1	7887798	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	1717838	7887798	241362823	3	60862											
PRAMEF2	65122	broad.mit.edu	37	chr1	12921619	12921619	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgtctgaggaactggagctCcatctttgctgctagggaag	8	10	13	10	1	2	1	0	1	2	0	3	4	3	4	2	3	4	3	2	3	3	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:12921619C>A	uc001aum.1	+	4	1497	c.1410C>A	c.(1408-1410)CTC>CTA	p.L470L		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	470											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AACTGGAGCTCCATCTTTGCT	0.522													6	72					0.000274275	0.000279827	0.004482	1	0		A	12921619	A	A	12921619	2	1	92	1	0	0	0	0	0	0	0	1	12457	842	30	5		5	PRAMEF2	1	12921619	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	5033821	12921619	236329002	4	60863											
MYOM3	127294	broad.mit.edu	37	chr1	24417475	24417475	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgatccattccccagacTcgccctggcacctgttggag	7	8	11	15	2	0	1	0	0	0	1	3	3	2	2	5	3	0	2	5	3	0	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:24417475T>C	uc001bin.3	-	12	1407	c.1244A>G	c.(1243-1245)GAG>GGG	p.E415G	MYOM3_uc001bim.3_Missense_Mutation_p.E72G|MYOM3_uc001bio.2_Missense_Mutation_p.E415G|MYOM3_uc001bip.1_Missense_Mutation_p.E72G	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	415	Fibronectin type-III 1.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		TTCCCCAGACTCGCCCTGGCA	0.622													10	45					0	0	0.008291	0	0		C	24417475	C	C	24417475	3	2	92	1	0	0	0	0	1	0	0	0	10111	1551	54	3	3173	3	MYOM3	1	24417475	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	11495856	24417475	224833146	5	60864											
ARID1A	8289	broad.mit.edu	37	chr1	27106124	27106124	+	Missense_Mutation	SNP	A	C	C																															acggatcacagccactatggAtgacatgttgtctactcggt																										TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:27106124A>C	uc001bmv.1	+	20	6108	c.5735A>C	c.(5734-5736)GAT>GCT	p.D1912A	ARID1A_uc001bmu.1_Missense_Mutation_p.D1695A|ARID1A_uc001bmx.1_Missense_Mutation_p.D758A|ARID1A_uc009vsm.1_Missense_Mutation_p.D240A|ARID1A_uc009vsn.1_Missense_Mutation_p.D154A	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1912					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		GCCACTATGGATGACATGTTG	0.537			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								40	55					0	0	0.006999	0	0		C	27106124	C	C	27106124	3	2	92	1	0	0	0	0	1	0	0	0	913	333	12	5	5813	5	ARID1A	1	27106124	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	2688649	27106124	222144497	6	60865	115	2									
ARID1A	8289	broad.mit.edu	37	chr1	27106130	27106134	+	Frame_Shift_Del	DEL	TGTTG	-	-																															cacagccactatggatgacaTgttgtctactcggtctagca																										TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:27106130_27106134delTGTTG	uc001bmv.1	+	20	6114_6118	c.5741_5745delTGTTG	c.(5740-5745)ATGTTGfs	p.M1914fs	ARID1A_uc001bmu.1_Frame_Shift_Del_p.M1697fs|ARID1A_uc001bmx.1_Frame_Shift_Del_p.M760fs|ARID1A_uc009vsm.1_Frame_Shift_Del_p.M242fs|ARID1A_uc009vsn.1_Frame_Shift_Del_p.M156fs	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1914_1915					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		ATGGATGACATGTTGTCTACTCGGT	0.541			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								40	62	---	---	---	---						.	-	27106134	-	-	27106130	7	5	92	1	0	1	0	1	0	0	0	0	913	1464	51	0	5819	0	ARID1A	1	27106130	Frame_Shift_Del	DEL	TGTTG	TCGA-BR-8687-01A-11D-2394-08	6	27106130	222144491	7	60866	115	2									
KANK4	163782	broad.mit.edu	37	chr1	62739395	62739395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctctgattcccttgtttatGaccatctggcccccatagga	7	13	8	13	0	2	2	0	2	2	0	3	3	3	3	4	2	0	2	4	2	2	5			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:62739395G>A	uc001dah.3	-	3	1758	c.1381C>T	c.(1381-1383)CAT>TAT	p.H461Y	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	461										ovary(3)|skin(2)|lung(1)	6						CCTTGTTTATGACCATCTGGC	0.557													52	127					0	0	0.01441	0	0		A	62739395	A	A	62739395	3	1	92	1	0	0	0	0	1	0	0	0	7995	1290	45	4	1638	4	KANK4	1	62739395	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	35633265	62739395	186511226	8	60867											
SLC35D1	23169	broad.mit.edu	37	chr1	67486081	67486081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccaactattgtagttgtaaGagcagaattatactgcgtgc	12	12	10	7	1	0	2	0	0	0	2	0	2	0	2	1	0	5	4	1	0	7	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:67486081G>A	uc001ddk.2	-	10	1231	c.847C>T	c.(847-849)CTT>TTT	p.L283F	SLC35D1_uc010oph.1_Missense_Mutation_p.L204F	NM_015139	NP_055954	Q9NTN3	S35D1_HUMAN	solute carrier family 35 (UDP-glucuronic	283	Helical; (Potential).				chondroitin sulfate biosynthetic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	integral to endoplasmic reticulum membrane	UDP-glucuronic acid transmembrane transporter activity|UDP-N-acetylgalactosamine transmembrane transporter activity				0					Lorazepam(DB00186)	GTAGTTGTAAGAGCAGAATTA	0.328													8	80					0	0	0.00308	0	0		A	67486081	A	A	67486081	3	1	92	1	0	0	0	0	1	0	0	0	14606	942	33	4	232	4	SLC35D1	1	67486081	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	4746686	67486081	181764540	9	60868											
C1orf173	127254	broad.mit.edu	37	chr1	75036970	75036970	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccgtgataatcctaatCggaatttttcagctgctcct	8	14	6	13	2	1	1	1	1	0	0	5	2	4	2	4	1	2	2	4	1	3	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:75036970C>A	uc001dgg.2	-	14	4643	c.4424G>T	c.(4423-4425)CGA>CTA	p.R1475L		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1475	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TAATCCTAATCGGAATTTTTC	0.562													11	131					6.40141e-05	6.58431e-05	0.010729	1	0		A	75036970	A	A	75036970	3	1	92	1	0	0	0	0	1	0	0	0	2017	884	31	5	172	5	C1orf173	1	75036970	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	7550889	75036970	174213651	10	60869											
C1orf103	55791	broad.mit.edu	37	chr1	111494883	111494883	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtggcagttgcaagtatcTtttgctgcactgaaggaggc	8	12	14	7	0	1	1	0	1	1	0	1	2	1	2	0	4	3	6	0	4	3	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:111494883T>G	uc001eaa.2	-	2	879	c.623A>C	c.(622-624)AAG>ACG	p.K208T	C1orf103_uc001dzz.2_Intron|C1orf103_uc001eab.2_Intron|C1orf103_uc001eac.1_Intron	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	208					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		TGCAAGTATCTTTTGCTGCAC	0.448													4	49					0	0	0.009096	0	0		G	111494883	G	G	111494883	3	3	92	1	0	0	0	0	1	0	0	0	1980	1609	56	5	1698	5	C1orf103	1	111494883	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	36457913	111494883	137755738	11	60870											
RPRD2	23248	broad.mit.edu	37	chr1	150429979	150429979	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgccacacctgaacctgtGacagataatcgtgatgtgga	11	10	10	10	1	1	4	0	3	1	1	2	5	1	5	3	1	2	0	3	1	2	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:150429979G>A	uc009wlr.2	+	8	1287	c.1086G>A	c.(1084-1086)GTG>GTA	p.V362V	RPRD2_uc010pcc.1_Silent_p.V336V|RPRD2_uc001eup.3_Silent_p.V336V	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	362							protein binding			ovary(1)	1						CTGAACCTGTGACAGATAATC	0.448													12	183					0	0	0.010729	0	0		A	150429979	A	A	150429979	2	1	92	1	0	0	0	0	0	0	0	1	13642	1277	45	4		4	RPRD2	1	150429979	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	38935096	150429979	98820642	12	60871											
IFI16	3428	broad.mit.edu	37	chr1	159023326	159023326	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaattttcttttgcagaaaAatgtaaggggtgaattcact	13	16	8	4	0	2	2	1	1	1	1	2	2	2	2	0	2	1	2	0	2	5	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:159023326A>C	uc001ftg.2	+	10	2211	c.1921A>C	c.(1921-1923)AAT>CAT	p.N641H	IFI16_uc010pis.1_Missense_Mutation_p.N641H|IFI16_uc001fth.2_Missense_Mutation_p.N184H|IFI16_uc010pit.1_Missense_Mutation_p.N240H	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	697	HIN-200 2.				cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					TTTGCAGAAAAATGTAAGGGG	0.353													46	29					0	0	0.011902	0	0		C	159023326	C	C	159023326	3	2	92	1	0	0	0	0	1	0	0	0	7527	14	1	5	1955	5	IFI16	1	159023326	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	8593347	159023326	90227295	13	60872											
TNR	7143	broad.mit.edu	37	chr1	175355276	175355276	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgcactgagtattggcTcaggggaggctgcagccgga	7	7	17	10	1	1	1	1	1	0	0	1	3	1	3	2	6	3	5	2	6	1	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:175355276T>C	uc001gkp.1	-	6	1750	c.1669A>G	c.(1669-1671)AGC>GGC	p.S557G	TNR_uc009wwu.1_Missense_Mutation_p.S557G	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	557	Fibronectin type-III 3.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GAGTATTGGCTCAGGGGAGGC	0.602													23	62					0	0	0.01892	0	0		C	175355276	C	C	175355276	3	2	92	1	0	0	0	0	1	0	0	0	16363	1551	54	3	2471	3	TNR	1	175355276	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	16331950	175355276	73895345	14	60873											
NAV1	89796	broad.mit.edu	37	chr1	201687644	201687644	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcggctgcaggctggtgaCgcgccctctgtgggtgggag	3	7	19	12	4	1	1	0	1	1	0	1	2	1	2	2	5	1	3	2	5	0	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:201687644C>T	uc001gwu.2	+	3	1334	c.987C>T	c.(985-987)GAC>GAT	p.D329D		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	329					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						AGGCTGGTGACGCGCCCTCTG	0.692													21	21					0	0	0.010504	0	0		T	201687644	T	T	201687644	2	4	92	1	0	0	0	0	0	0	0	1	10201	535	19	1		1	NAV1	1	201687644	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	26332368	201687644	47562977	15	60874											
OR2M5	127059	broad.mit.edu	37	chr1	248309375	248309375	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagtgttaggaaagggcaAgtgtggagagtgagtacttt	13	10	16	2	0	0	2	0	1	0	1	0	5	0	3	0	3	1	3	0	3	5	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr1:248309375A>T	uc010pze.1	+	1	926	c.926A>T	c.(925-927)AAG>ATG	p.K309M		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	309	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			GGAAAGGGCAAGTGTGGAGAG	0.428													36	24					0	0	0.015359	0	0		T	248309375	T	T	248309375	3	4	92	1	0	0	0	0	1	0	0	0	11032	72	3	5	928	5	OR2M5	1	248309375	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	46621731	248309375	941246	16	60875											
MSGN1	343930	broad.mit.edu	37	chr2	17998186	17998186	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagccagcgagagggagaAgctcaggatgaggaccttgg	13	4	17	7	1	1	3	1	1	0	2	1	8	1	5	2	4	3	1	2	4	2	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr2:17998186A>T	uc010yjt.1	+	1	401	c.401A>T	c.(400-402)AAG>ATG	p.K134M		NM_001105569	NP_001099039	A6NI15	MSGN1_HUMAN	mesogenin 1	134	Basic motif.				cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GAGAGGGAGAAGCTCAGGATG	0.622													7	40					0	0	0.00308	0	0		T	17998186	T	T	17998186	3	4	92	1	0	0	0	0	1	0	0	0	9887	72	3	5	403	5	MSGN1	2	17998186	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08		17998186	225201187	17	60876											
DNMT3A	1788	broad.mit.edu	37	chr2	25497834	25497834	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttccagcgtgccagccaCtcgtcccgcttgcgcttgct	3	12	9	17	4	0	0	0	0	0	0	3	0	2	0	4	0	5	3	4	0	0	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr2:25497834C>T	uc002rgc.2	-	6	872	c.615G>A	c.(613-615)GAG>GAA	p.E205E	DNMT3A_uc002rgd.2_Silent_p.E205E|DNMT3A_uc010eyi.2_RNA	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	205	Interaction with DNMT1 and DNMT3B.				regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGCCAGCCACTCGTCCCGCT	0.657			Mis|F|N|S		AML								7	17					0	0	0.00308	0	0		T	25497834	T	T	25497834	2	4	92	1	0	0	0	0	0	0	0	1	4682	564	20	4		4	DNMT3A	2	25497834	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	7499648	25497834	217701539	18	60877											
IMMT	10989	broad.mit.edu	37	chr2	86406632	86406632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtttgtctgagtaaggtatgGttttctctacactttcccgg	6	17	10	8	1	2	1	0	1	2	0	4	1	3	1	1	3	1	4	1	3	3	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr2:86406632G>A	uc002sqz.3	-	3	621	c.233C>T	c.(232-234)ACC>ATC	p.T78I	IMMT_uc002srb.3_Missense_Mutation_p.T78I|IMMT_uc002sra.3_Missense_Mutation_p.T78I|IMMT_uc010ytd.1_Missense_Mutation_p.T78I|IMMT_uc010yte.1_Missense_Mutation_p.T78I|IMMT_uc002srd.2_Missense_Mutation_p.T78I|IMMT_uc002sre.3_Missense_Mutation_p.T78I|IMMT_uc010ytf.1_Missense_Mutation_p.T78I|IMMT_uc010fgs.1_Missense_Mutation_p.T78I	NM_006839	NP_006830	Q16891	IMMT_HUMAN	inner membrane protein, mitochondrial isoform 1	78	Mitochondrial intermembrane (Potential).					integral to mitochondrial inner membrane	protein binding			skin(1)	1						GTAAGGTATGGTTTTCTCTAC	0.408													7	16					0	0	0.004482	0	0		A	86406632	A	A	86406632	3	1	92	1	0	0	0	0	1	0	0	0	7734	1261	44	4	2095	4	IMMT	2	86406632	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	60908798	86406632	156792741	19	60878											
KIF5C	3800	broad.mit.edu	37	chr2	149803436	149803436	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaatgaacacagctctagaAgtcacagtatcttcctgata	14	11	7	9	0	3	4	1	3	2	1	4	4	4	4	1	0	2	2	1	0	6	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr2:149803436A>C	uc010zbu.1	+	8	981	c.613A>C	c.(613-615)AGT>CGT	p.S205R	KIF5C_uc002tws.1_5'Flank	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	205	Kinesin-motor.|Microtubule-binding.				microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		CAGCTCTAGAAGTCACAGTAT	0.343													15	7					0	0	0.003163	0	0		C	149803436	C	C	149803436	3	2	92	1	0	0	0	0	1	0	0	0	8323	72	3	5	565	5	KIF5C	2	149803436	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	63396804	149803436	93395937	20	60879											
LRP2	4036	broad.mit.edu	37	chr2	170136035	170136035	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taacccagtccacagccaggTtctctggggtttcaacagaa	11	9	9	12	0	2	1	1	0	1	1	4	1	3	1	3	3	3	2	3	3	3	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr2:170136035T>G	uc002ues.2	-	12	1625	c.1412A>C	c.(1411-1413)AAC>ACC	p.N471T	LRP2_uc010zdf.1_Missense_Mutation_p.N471T	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	471	LDL-receptor class B 1.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CACAGCCAGGTTCTCTGGGGT	0.358													41	29					0	0	0.006999	0	0		G	170136035	G	G	170136035	3	3	92	1	0	0	0	0	1	0	0	0	8974	1725	60	5	12827	5	LRP2	2	170136035	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	20332599	170136035	73063338	21	60880											
OSBPL6	114880	broad.mit.edu	37	chr2	179197734	179197734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacgtccacagctgaatcctCaccagctgctaatgtttctg	10	11	7	13	1	2	1	1	1	1	0	4	1	4	1	3	0	4	4	3	0	3	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr2:179197734C>T	uc002ulx.2	+	8	1001	c.623C>T	c.(622-624)TCA>TTA	p.S208L	OSBPL6_uc002ulw.2_Missense_Mutation_p.S208L|OSBPL6_uc002uly.2_Missense_Mutation_p.S208L|OSBPL6_uc010zfe.1_Missense_Mutation_p.S208L|OSBPL6_uc002ulz.2_Missense_Mutation_p.S208L|OSBPL6_uc002uma.2_Missense_Mutation_p.S187L	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	208					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			GCTGAATCCTCACCAGCTGCT	0.358													6	47					0	0	0.001984	0	0		T	179197734	T	T	179197734	3	4	92	1	0	0	0	0	1	0	0	0	11300	838	29	4	688	4	OSBPL6	2	179197734	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	9061699	179197734	64001639	22	60881											
TTN	7273	broad.mit.edu	37	chr2	179472303	179472303	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttcttctttggtccatacTtttgtaggtacagggcgacc	6	15	9	11	1	2	0	0	0	2	0	3	1	3	0	3	3	2	2	3	3	3	8			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr2:179472303T>G	uc010zfg.1	-	226	45632	c.45408A>C	c.(45406-45408)AAA>AAC	p.K15136N	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K8831N|TTN_uc010zfi.1_Missense_Mutation_p.K8764N|TTN_uc010zfj.1_Missense_Mutation_p.K8639N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16063							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGTCCATACTTTTGTAGGTA	0.443													11	240					0	0	0.010729	0	0		G	179472303	G	G	179472303	3	3	92	1	0	0	0	0	1	0	0	0	16761	1606	56	5	54925	5	TTN	2	179472303	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	274569	179472303	63727070	23	60882											
NUP35	129401	broad.mit.edu	37	chr2	184025818	184025818	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacgccaaaaaaagatgaaAgtcttgtatccaaagcaatg	20	7	7	7	1	1	2	0	1	1	1	2	2	2	2	2	0	2	2	2	0	8	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr2:184025818A>C	uc002upf.2	+	9	1043	c.940A>C	c.(940-942)AGT>CGT	p.S314R	NUP35_uc010zfs.1_Missense_Mutation_p.S296R|NUP35_uc010zft.1_Missense_Mutation_p.S196R|NUP35_uc002upg.2_RNA	NM_138285	NP_612142	Q8NFH5	NUP53_HUMAN	nucleoporin 35kDa	314					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	intermediate filament cytoskeleton|nuclear membrane|nuclear pore|plasma membrane					0						AAAAGATGAAAGTCTTGTATC	0.383													3	24					0	0	0.004672	0	0		C	184025818	C	C	184025818	3	2	92	1	0	0	0	0	1	0	0	0	10782	72	3	5	974	5	NUP35	2	184025818	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	4553515	184025818	59173555	24	60883											
COL3A1	1281	broad.mit.edu	37	chr2	189860863	189860863	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacttcagggcatgcccggaAgtccaggaggaccaggaagt	11	6	14	10	1	1	0	1	0	0	0	2	4	2	4	3	5	2	1	3	5	3	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr2:189860863A>G	uc002uqj.1	+	23	1738	c.1621A>G	c.(1621-1623)AGT>GGT	p.S541G		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	541	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	CATGCCCGGAAGTCCAGGAGG	0.348													4	40					0	0	0.009096	0	0		G	189860863	G	G	189860863	3	3	92	1	0	0	0	0	1	0	0	0	3691	72	3	3	1711	3	COL3A1	2	189860863	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	5835045	189860863	53338510	25	60884											
DNAH7	56171	broad.mit.edu	37	chr2	196834765	196834765	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccaaatgaataaaattcTtctgattgcttagcataact	14	15	4	8	0	3	2	0	2	3	0	4	2	3	2	1	0	3	2	1	0	6	6			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr2:196834765T>G	uc002utj.3	-	17	2213	c.2112A>C	c.(2110-2112)GAA>GAC	p.E704D		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	704	Stem (By similarity).|Potential.				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AATAAAATTCTTCTGATTGCT	0.338													6	44					0	0	0.001984	0	0		G	196834765	G	G	196834765	3	3	92	1	0	0	0	0	1	0	0	0	4612	1606	56	5	10158	5	DNAH7	2	196834765	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	6973902	196834765	46364608	26	60885											
SCG2	7857	broad.mit.edu	37	chr2	224462479	224462479	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaactagcatcctggccaAgtactcacctaattcttgat	11	14	5	11	0	2	1	1	1	1	0	3	1	3	1	3	1	3	2	3	1	5	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr2:224462479A>C	uc002vnm.2	-	2	1655	c.1522T>G	c.(1522-1524)TTG>GTG	p.L508V		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	508					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		ATCCTGGCCAAGTACTCACCT	0.448													23	47					0	0	0.012319	0	0		C	224462479	C	C	224462479	3	2	92	1	0	0	0	0	1	0	0	0	13916	69	3	5	335	5	SCG2	2	224462479	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	27627714	224462479	18736894	27	60886											
BSN	8927	broad.mit.edu	37	chr3	49680049	49680049	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggagaggccccggccaaaAgtgccaccgcagtgcccgct	9	3	13	16	3	0	1	0	0	0	1	0	2	0	1	6	3	2	2	6	3	2	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr3:49680049A>C	uc003cxe.3	+	3	1096	c.982A>C	c.(982-984)AGT>CGT	p.S328R		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	328					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CCCGGCCAAAAGTGCCACCGC	0.672													13	3					0	0	0.003163	0	0		C	49680049	C	C	49680049	3	2	92	1	0	0	0	0	1	0	0	0	1533	72	3	5	992	5	BSN	3	49680049	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08		49680049	148342381	28	60887											
KIAA1407	57577	broad.mit.edu	37	chr3	113753894	113753894	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccttccttttcttctcttcTtgcaccagacactgagcctc	5	15	5	16	0	3	2	0	1	3	1	6	2	4	2	4	0	2	1	4	0	0	6			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr3:113753894T>G	uc003eax.2	-	6	843	c.696A>C	c.(694-696)CAA>CAC	p.Q232H	KIAA1407_uc011bin.1_RNA|KIAA1407_uc011bio.1_Missense_Mutation_p.Q210H|KIAA1407_uc011bip.1_Missense_Mutation_p.Q219H	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	232	Potential.									ovary(2)	2						TCTTCTCTTCTTGCACCAGAC	0.463													36	96					0	0	0.015359	0	0		G	113753894	G	G	113753894	3	3	92	1	0	0	0	0	1	0	0	0	8245	1606	56	5	2162	5	KIAA1407	3	113753894	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	64073845	113753894	84268536	29	60888											
RHO	6010	broad.mit.edu	37	chr3	129251538	129251538	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctccaacttcggtcccatcTtcatgaccatcccagcgttc	7	11	6	17	2	2	1	1	1	1	0	7	1	5	1	4	1	2	2	4	1	1	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr3:129251538T>G	uc003emt.2	+	4	954	c.859T>G	c.(859-861)TTC>GTC	p.F287V		NM_000539	NP_000530	P08100	OPSD_HUMAN	rhodopsin	287	Helical; Name=7; (Potential).				protein-chromophore linkage|rhodopsin mediated signaling pathway	Golgi apparatus|integral to plasma membrane|photoreceptor inner segment membrane|photoreceptor outer segment membrane	G-protein coupled receptor activity|metal ion binding|photoreceptor activity|protein binding				0		all_neural(597;0.0227)|Myeloproliferative disorder(1037;0.0255)|Prostate(884;0.183)		GBM - Glioblastoma multiforme(114;2.58e-05)|Lung(219;0.0234)	Halothane(DB01159)	CGGTCCCATCTTCATGACCAT	0.557													10	48					0	0	0.010729	0	0		G	129251538	G	G	129251538	3	3	92	1	0	0	0	0	1	0	0	0	13355	1609	56	5	873	5	RHO	3	129251538	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	15497644	129251538	68770892	30	60889											
EVC2	132884	broad.mit.edu	37	chr4	5586387	5586387	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatctgtgtgcaggccgacTtggtcagcatctcagatgca	8	10	13	10	1	3	1	2	0	2	1	4	3	3	2	1	3	3	3	1	3	0	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:5586387T>C	uc003gij.2	-	17	3074	c.3020A>G	c.(3019-3021)AAG>AGG	p.K1007R	EVC2_uc011bwb.1_Missense_Mutation_p.K447R|EVC2_uc003gik.2_Missense_Mutation_p.K927R	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1007	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						GCAGGCCGACTTGGTCAGCAT	0.597													4	28					0	0	0.009096	0	0		C	5586387	C	C	5586387	3	2	92	1	0	0	0	0	1	0	0	0	5294	1609	56	3	930	3	EVC2	4	5586387	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08		5586387	185567889	31	60890											
SLIT2	9353	broad.mit.edu	37	chr4	20591350	20591350	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaagtgcatcctaactccaAagggattcaagtaagtcaaa	17	8	7	9	0	2	0	2	0	0	0	4	1	4	1	2	1	2	2	2	1	6	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:20591350A>G	uc003gpr.1	+	30	3376	c.3172A>G	c.(3172-3174)AAG>GAG	p.K1058E	SLIT2_uc003gps.1_Missense_Mutation_p.K1050E	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1058	EGF-like 4.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CCTAACTCCAAAGGGATTCAA	0.498													4	13					0	0	0.009096	0	0		G	20591350	G	G	20591350	3	3	92	1	0	0	0	0	1	0	0	0	14765	15	1	3	3290	3	SLIT2	4	20591350	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	15004963	20591350	170562926	32	60891											
TBC1D1	23216	broad.mit.edu	37	chr4	38046040	38046040	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccacccagtgccactcgaTttaggctagatatgctgaaa	12	10	8	11	1	0	2	0	1	0	1	1	3	0	2	3	1	3	2	3	1	5	5			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:38046040T>G	uc003gtb.2	+	9	1814	c.1471T>G	c.(1471-1473)TTT>GTT	p.F491V	TBC1D1_uc011byd.1_Missense_Mutation_p.F491V|TBC1D1_uc010ifd.2_Missense_Mutation_p.F238V|TBC1D1_uc011byf.1_Missense_Mutation_p.F362V	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	491						nucleus	Rab GTPase activator activity			ovary(1)	1						TGCCACTCGATTTAGGCTAGA	0.383													25	92					0	0	0.005443	0	0		G	38046040	G	G	38046040	3	3	92	1	0	0	0	0	1	0	0	0	15622	1493	52	5	1501	5	TBC1D1	4	38046040	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	17454690	38046040	153108236	33	60892											
RBM47	54502	broad.mit.edu	37	chr4	40440178	40440178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcacgtagaggatcttcaCggtctccatcacgtcctcgt	7	10	10	14	5	4	1	2	0	2	1	7	2	5	2	2	2	0	2	2	2	1	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:40440178C>T	uc003gvc.2	-	4	1443	c.733G>A	c.(733-735)GTG>ATG	p.V245M	RBM47_uc003gvd.2_Missense_Mutation_p.V245M|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Missense_Mutation_p.V207M|RBM47_uc003gvg.1_Missense_Mutation_p.V245M	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	245						nucleus	nucleotide binding|RNA binding			breast(3)	3						AGGATCTTCACGGTCTCCATC	0.622													45	87					0	0	0.01441	0	0		T	40440178	T	T	40440178	3	4	92	1	0	0	0	0	1	0	0	0	13166	536	19	1	1064	1	RBM47	4	40440178	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	2394138	40440178	150714098	34	60893											
ATP10D	57205	broad.mit.edu	37	chr4	47582421	47582421	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttcatttctaggcatacTtaccccataccttctggatc	8	15	5	13	0	3	0	1	0	2	0	4	1	3	1	3	2	4	2	3	2	4	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:47582421T>C	uc003gxk.1	+	20	3738	c.3574T>C	c.(3574-3576)TTA>CTA	p.L1192L	ATP10D_uc003gxl.1_Silent_p.L440L	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	1192	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						CTAGGCATACTTACCCCATAC	0.393													10	170					0	0	0.008291	0	0		C	47582421	C	C	47582421	2	2	92	1	0	0	0	0	0	0	0	1	1119	1606	56	3		3	ATP10D	4	47582421	Silent	SNP	T	TCGA-BR-8687-01A-11D-2394-08	7142243	47582421	143571855	35	60894											
KIT	3815	broad.mit.edu	37	chr4	55561768	55561768	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagtccgcgtgggcgacgAgattaggctgttatgcactg	9	10	14	8	4	0	1	0	0	0	1	1	3	1	1	1	2	1	3	1	2	4	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:55561768A>G	uc010igr.2	+	2	245	c.158A>G	c.(157-159)GAG>GGG	p.E53G	KIT_uc010igs.2_Missense_Mutation_p.E53G	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	53	Extracellular (Potential).|Ig-like C2-type 1.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity	p.E53K(2)		soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	GTGGGCGACGAGATTAGGCTG	0.478		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				17	51					0	0	0.00499	0	0		G	55561768	G	G	55561768	3	3	92	1	0	0	0	0	1	0	0	0	8345	304	11	3	164	3	KIT	4	55561768	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	7979347	55561768	135592508	36	60895											
STAP1	26228	broad.mit.edu	37	chr4	68447130	68447130	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacagagcagagtacgtcCgtggaaaaagagaaggaacc	17	3	14	7	2	0	4	0	0	0	4	1	8	1	6	2	2	3	2	2	2	5	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:68447130C>T	uc003hde.3	+	5	553	c.471C>T	c.(469-471)TCC>TCT	p.S157S	STAP1_uc003hdf.2_Silent_p.S157S	NM_012108	NP_036240	Q9ULZ2	STAP1_HUMAN	signal transducing adaptor family member 1	157					cellular membrane fusion|intracellular protein transport	cytoplasm					0						AGAGTACGTCCGTGGAAAAAG	0.428													79	84					0	0	0.01441	0	0		T	68447130	T	T	68447130	2	4	92	1	0	0	0	0	0	0	0	1	15277	639	23	1		1	STAP1	4	68447130	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	12885362	68447130	122707146	37	60896											
THAP9	79725	broad.mit.edu	37	chr4	83838294	83838294	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggactttggtcttggaaaacTtgatgctgatgaaacgccac	11	11	11	8	1	1	3	0	3	1	0	1	5	1	5	1	3	3	1	1	3	3	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:83838294T>G	uc003hnt.2	+	5	1048	c.929T>G	c.(928-930)CTT>CGT	p.L310R	THAP9_uc003hns.1_Missense_Mutation_p.L166R|THAP9_uc003hnu.1_RNA|THAP9_uc003hnv.2_Missense_Mutation_p.L27R	NM_024672	NP_078948	Q9H5L6	THAP9_HUMAN	THAP domain containing 9	310							DNA binding|metal ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	5		Hepatocellular(203;0.114)				CTTGGAAAACTTGATGCTGAT	0.403													11	153					0	0	0.008291	0	0		G	83838294	G	G	83838294	3	3	92	1	0	0	0	0	1	0	0	0	15876	1609	56	5	947	5	THAP9	4	83838294	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	15391164	83838294	107315982	38	60897											
TACR3	6870	broad.mit.edu	37	chr4	104577395	104577395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgatacttgtcacaggtatCtcctgggatttctcctcccc	7	14	7	13	0	3	1	1	1	2	0	6	2	4	2	4	2	1	1	4	2	2	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:104577395C>T	uc003hxe.1	-	3	987	c.844G>A	c.(844-846)GAT>AAT	p.D282N		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	282	Cytoplasmic (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		TCACAGGTATCTCCTGGGATT	0.398													11	113					0	0	0.010729	0	0		T	104577395	T	T	104577395	3	4	92	1	0	0	0	0	1	0	0	0	15532	913	32	4	565	4	TACR3	4	104577395	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	20739101	104577395	86576881	39	60898											
COL25A1	84570	broad.mit.edu	37	chr4	110223041	110223041	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtacaggcaagacaccacGgccaccactgacaggagggc	13	2	13	13	1	0	2	0	1	0	1	0	3	0	3	3	5	1	2	3	5	2	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:110223041G>A	uc003hze.1	-	2	666	c.135C>T	c.(133-135)GCC>GCT	p.A45A	COL25A1_uc003hzg.2_Silent_p.A45A|COL25A1_uc003hzh.1_Silent_p.A45A	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	45	Helical; Signal-anchor for type II membrane protein; (Potential).					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		AAGACACCACGGCCACCACTG	0.662													20	76					0	0	0.007413	0	0		A	110223041	A	A	110223041	2	1	92	1	0	0	0	0	0	0	0	1	3687	1103	39	1		1	COL25A1	4	110223041	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	5645646	110223041	80931235	40	60899											
DDX60	55601	broad.mit.edu	37	chr4	169138150	169138150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctaagacaacgttgtcGtcttcattttcacatagctc	11	13	7	10	2	3	1	2	0	1	1	5	1	3	1	0	1	2	3	0	1	4	6			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:169138150G>A	uc003irp.2	-	38	5365	c.5073C>T	c.(5071-5073)GAC>GAT	p.D1691D	DDX60_uc003iro.2_3'UTR	NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	1691							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		CAACGTTGTCGTCTTCATTTT	0.333													16	52					0	0	0.007413	0	0		A	169138150	A	A	169138150	2	1	92	1	0	0	0	0	0	0	0	1	4381	1136	40	1		1	DDX60	4	169138150	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	58915109	169138150	22016126	41	60900											
FAT1	2195	broad.mit.edu	37	chr4	187554958	187554958	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcccttgtccacatcgaaGtgactgtcgtagttgccacc	7	12	9	13	2	0	1	0	1	0	0	4	2	2	1	4	0	1	3	4	0	2	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:187554958G>A	uc003izf.2	-	7	4391	c.4203C>T	c.(4201-4203)CAC>CAT	p.H1401H		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1401	Extracellular (Potential).|Cadherin 12.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CCACATCGAAGTGACTGTCGT	0.423										HNSCC(5;0.00058)			13	62					0	0	0.013537	0	0		A	187554958	A	A	187554958	2	1	92	1	0	0	0	0	0	0	0	1	5703	1020	36	4		4	FAT1	4	187554958	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	18416808	187554958	3599318	42	60901											
TRIML2	205860	broad.mit.edu	37	chr4	189012817	189012817	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccccatcaccgaccccgTgagcaagactttctctccgg	7	8	9	17	3	2	2	1	1	1	1	5	3	4	2	6	2	1	1	6	2	1	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr4:189012817T>C	uc003izl.2	-	7	910	c.874A>G	c.(874-876)ACG>GCG	p.T292A	TRIML2_uc003izj.1_Missense_Mutation_p.T120A|TRIML2_uc003izk.1_Missense_Mutation_p.T100A|TRIML2_uc011cle.1_Missense_Mutation_p.T367A	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	292	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		ACCGACCCCGTGAGCAAGACT	0.577													12	187					0	0	0.016723	0	0		C	189012817	C	C	189012817	3	2	92	1	0	0	0	0	1	0	0	0	16577	1696	59	3	293	3	TRIML2	4	189012817	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	1457859	189012817	2141459	43	60902											
ZDHHC11	79844	broad.mit.edu	37	chr5	840653	840653	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggcccaggtgcaccaaGccaagaaagtccagcaggag	13	3	13	12	0	0	1	0	0	0	1	1	2	1	2	4	3	4	3	4	3	3	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:840653G>A	uc011cma.1	-	5	1125	c.741C>T	c.(739-741)GGC>GGT	p.G247G	ZDHHC11_uc003jbj.2_RNA|ZDHHC11_uc010itd.1_RNA|ZDHHC11_uc003jbk.2_Silent_p.G34G	NM_024786	NP_079062	Q9H8X9	ZDH11_HUMAN	zinc finger, DHHC-type containing 11	247	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			skin(1)|pancreas(1)	2			Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)			GGTGCACCAAGCCAAGAAAGT	0.607													32	241					0	0	0.008361	0	0		A	840653	A	A	840653	2	1	92	1	0	0	0	0	0	0	0	1	17626	958	34	2		2	ZDHHC11	5	840653	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08		840653	180074607	44	60903											
IRX4	50805	broad.mit.edu	37	chr5	1879701	1879701	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgccctccgcgtagggccgcTtctcgtctgcgcacttgttc	2	11	11	17	6	2	0	0	0	2	0	5	0	3	0	3	1	1	4	3	1	1	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:1879701T>G	uc003jcz.2	-	4	772	c.653A>C	c.(652-654)AAG>ACG	p.K218T	IRX4_uc011cmf.1_Missense_Mutation_p.K79T	NM_016358	NP_057442	P78413	IRX4_HUMAN	iroquois homeobox 4	218					heart development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(108;0.242)		GTAGGGCCGCTTCTCGTCTGC	0.493													10	56					0	0	0.006214	0	0		G	1879701	G	G	1879701	3	3	92	1	0	0	0	0	1	0	0	0	7862	1609	56	5	914	5	IRX4	5	1879701	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	1039048	1879701	179035559	45	60904											
ANKH	56172	broad.mit.edu	37	chr5	14713673	14713673	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaggtagggtaggaccacGaggctggcgatgaggacgat	10	5	17	9	3	0	1	0	1	0	0	0	6	0	3	2	6	0	3	2	6	2	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:14713673G>A	uc003jfm.3	-	10	1576	c.1245C>T	c.(1243-1245)CTC>CTT	p.L415L	ANKH_uc003jfl.3_Silent_p.L128L	NM_054027	NP_473368	Q9HCJ1	ANKH_HUMAN	progressive ankylosis protein	415	Helical; (Potential).				locomotory behavior|regulation of bone mineralization|skeletal system development	integral to plasma membrane|outer membrane	inorganic diphosphate transmembrane transporter activity|inorganic phosphate transmembrane transporter activity			upper_aerodigestive_tract(1)	1						GTAGGACCACGAGGCTGGCGA	0.557													4	50					0	0	0.009096	0	0		A	14713673	A	A	14713673	2	1	92	1	0	0	0	0	0	0	0	1	627	1045	37	1		1	ANKH	5	14713673	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	12833972	14713673	166201587	46	60905											
MRPS36	92259	broad.mit.edu	37	chr5	68513672	68513672	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcatgatgggcagcaagAtggcgtctgctagtagggtc	8	9	17	7	1	2	2	1	1	1	1	3	2	2	2	0	4	2	4	0	4	3	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:68513672A>G	uc003jvq.2	+	1	100	c.16A>G	c.(16-18)ATG>GTG	p.M6V	MRPS36_uc003jvr.2_RNA	NM_033281	NP_150597	P82909	RT36_HUMAN	mitochondrial ribosomal protein S36	6					translation	mitochondrial small ribosomal subunit	structural constituent of ribosome				0		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.04e-56)|Epithelial(20;8.79e-53)|all cancers(19;2.01e-48)|Lung(70;0.0176)		GGGCAGCAAGATGGCGTCTGC	0.647													14	42					0	0	0.00499	0	0		G	68513672	G	G	68513672	3	3	92	1	0	0	0	0	1	0	0	0	9863	333	12	3	18	3	MRPS36	5	68513672	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	53799999	68513672	112401588	47	60906											
AQPEP	206338	broad.mit.edu	37	chr5	115335576	115335576	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagtgaaatacaggaactcTttgacatatttacttacagc	15	12	6	8	0	1	2	0	2	1	0	1	3	1	3	0	1	5	0	0	1	7	6			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:115335576T>G	uc003kro.2	+	7	1656	c.1492T>G	c.(1492-1494)TTT>GTT	p.F498V	AQPEP_uc003krp.2_RNA|AQPEP_uc003krq.2_RNA|AQPEP_uc003krr.2_RNA|AQPEP_uc003krs.2_RNA	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	498	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						ACAGGAACTCTTTGACATATT	0.363													4	62					0	0	0.014758	0	0		G	115335576	G	G	115335576	3	3	92	1	0	0	0	0	1	0	0	0	834	1609	56	5	1518	5	AQPEP	5	115335576	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	46821904	115335576	65579684	48	60907											
DMXL1	1657	broad.mit.edu	37	chr5	118484481	118484481	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcatgcagtgctccttatTtattggcaacttcatgttca	8	16	7	10	0	2	0	2	0	0	0	3	0	3	0	1	1	4	5	1	1	3	6			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:118484481T>G	uc003ksd.2	+	18	3140	c.2959T>G	c.(2959-2961)TTA>GTA	p.L987V	DMXL1_uc010jcl.1_Missense_Mutation_p.L987V	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	987	WD 8.									ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		TGCTCCTTATTTATTGGCAAC	0.348													10	71					0	0	0.006214	0	0		G	118484481	G	G	118484481	3	3	92	1	0	0	0	0	1	0	0	0	4600	1838	64	5	3029	5	DMXL1	5	118484481	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	3148905	118484481	62430779	49	60908											
CDC25C	995	broad.mit.edu	37	chr5	137622934	137622934	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcaatcagaccctggaacTtccccgacagtaaggcagcc	11	7	8	15	1	2	1	2	0	1	1	4	3	3	2	4	2	2	2	4	2	3	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:137622934T>G	uc003lcp.1	-	11	1221	c.950A>C	c.(949-951)AAG>ACG	p.K317T	CDC25C_uc003lcq.1_Missense_Mutation_p.K244T|CDC25C_uc003lcr.1_Missense_Mutation_p.K317T|CDC25C_uc011cyp.1_Missense_Mutation_p.K334T|CDC25C_uc003lcs.1_Missense_Mutation_p.K395T	NM_001790	NP_001781	P30307	MPIP3_HUMAN	cell division cycle 25C isoform a	317					cell cycle checkpoint|cell division|cell proliferation|DNA replication|G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm	protein tyrosine phosphatase activity|WW domain binding			lung(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			ACCCTGGAACTTCCCCGACAG	0.473													9	33					0	0	0.004482	0	0		G	137622934	G	G	137622934	3	3	92	1	0	0	0	0	1	0	0	0	3067	1609	56	5	487	5	CDC25C	5	137622934	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	19138453	137622934	43292326	50	60909											
PCDHA9	9752	broad.mit.edu	37	chr5	140228037	140228037	+	Translation_Start_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagatgatttcttctaatTtggaggcaattttcactaat	12	17	6	6	0	4	2	2	1	2	1	4	3	4	3	0	2	0	1	0	2	3	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:140228037T>G	uc003lhu.2	+	1	681	c.-43T>G	c.(-45--41)ATTTG>ATGTG		PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Translation_Start_Site	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCTTCTAATTTGGAGGCAAT	0.433													13	104					0	0	0.016723	0	0		G	140228037	G	G	140228037	1	3	92	1	0	0	0	0	0	0	0	0	11550	1856	64	5		5	PCDHA9	5	140228037	Translation_Start_Site	SNP	T	TCGA-BR-8687-01A-11D-2394-08	2605103	140228037	40687223	51	60910											
PCDHA10	56139	broad.mit.edu	37	chr5	140236750	140236750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtcattgccctaatcagcGtttctgaccatgattcagga	9	12	8	12	2	4	2	3	2	1	0	4	3	4	3	3	1	2	1	3	1	1	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:140236750G>A	uc003lhx.2	+	1	1117	c.1117G>A	c.(1117-1119)GTT>ATT	p.V373I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Missense_Mutation_p.V373I|PCDHA10_uc011dad.1_Missense_Mutation_p.V373I	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	373	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTAATCAGCGTTTCTGACCA	0.483													21	83					0	0	0.01892	0	0		A	140236750	A	A	140236750	3	1	92	1	0	0	0	0	1	0	0	0	11539	1145	40	1	1119	1	PCDHA10	5	140236750	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	8713	140236750	40678510	52	60911											
PCDHB5	26167	broad.mit.edu	37	chr5	140516360	140516360	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtcaatgacaacgccccCgccttcacccaaacctccta	11	6	5	19	3	2	1	2	1	0	0	3	2	3	1	6	0	2	0	6	0	4	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:140516360C>T	uc003liq.2	+	1	1561	c.1344C>T	c.(1342-1344)CCC>CCT	p.P448P		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	448	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACAACGCCCCCGCCTTCACCC	0.582													43	143					0	0	0.01441	0	0		T	140516360	T	T	140516360	2	4	92	1	0	0	0	0	0	0	0	1	11564	639	23	1		1	PCDHB5	5	140516360	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	279610	140516360	40398900	53	60912											
BTNL8	79908	broad.mit.edu	37	chr5	180374616	180374616	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgaagattttcttctccAaattccagtgtaagcgagag	12	12	9	8	1	2	3	0	1	2	2	4	5	3	3	2	0	1	1	2	0	3	5			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:180374616A>G	uc003mmp.2	+	4	1012	c.778A>G	c.(778-780)AAA>GAA	p.K260E	BTNL8_uc003mmq.2_Missense_Mutation_p.K260E|BTNL8_uc011dhg.1_Missense_Mutation_p.K135E|BTNL8_uc010jll.2_Missense_Mutation_p.K260E|BTNL8_uc010jlm.2_Missense_Mutation_p.K144E|BTNL8_uc011dhh.1_Missense_Mutation_p.K76E	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	260	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TTTCTTCTCCAAATTCCAGTG	0.488													39	402					0	0	0.00874	0	0		G	180374616	G	G	180374616	3	3	92	1	0	0	0	0	1	0	0	0	1570	131	5	3	818	3	BTNL8	5	180374616	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	39858256	180374616	540644	54	60913			1	24		4	4	2783	A		9.537381e-07
BTNL8	79908	broad.mit.edu	37	chr5	180375359	180375359	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgtttctgtttcagggaaAatccaggcggaactgggtaa	11	11	12	7	1	2	0	1	0	1	0	3	2	3	2	1	4	1	3	1	4	4	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:180375359A>C	uc003mmp.2	+	5	1026	c.792A>C	c.(790-792)AAA>AAC	p.K264N	BTNL8_uc003mmq.2_Missense_Mutation_p.N308H|BTNL8_uc011dhg.1_Missense_Mutation_p.K139N|BTNL8_uc010jll.2_Intron|BTNL8_uc010jlm.2_Missense_Mutation_p.K148N|BTNL8_uc011dhh.1_Missense_Mutation_p.K80N	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	264	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TTTCAGGGAAAATCCAGGCGG	0.552													24	196					0	0	0.004656	0	0		C	180375359	C	C	180375359	3	2	92	1	0	0	0	0	1	0	0	0	1570	14	1	5	966	5	BTNL8	5	180375359	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	743	180375359	539901	55	60914			1	24		4	4	2783	A		9.537381e-07
BTNL8	79908	broad.mit.edu	37	chr5	180377026	180377026	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagagatttacaaggaagAgtgtggtggcttctcagagt	13	10	14	4	0	1	4	1	0	1	4	2	6	1	5	0	3	1	1	0	3	4	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:180377026A>G	uc003mmp.2	+	8	1219	c.985A>G	c.(985-987)AGT>GGT	p.S329G	BTNL8_uc003mmq.2_3'UTR|BTNL8_uc011dhg.1_Missense_Mutation_p.S204G|BTNL8_uc010jll.2_3'UTR|BTNL8_uc010jlm.2_Missense_Mutation_p.S213G|BTNL8_uc011dhh.1_Missense_Mutation_p.S145G	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	329	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TACAAGGAAGAGTGTGGTGGC	0.522													6	52					0	0	0.001984	0	0		G	180377026	G	G	180377026	3	3	92	1	0	0	0	0	1	0	0	0	1570	304	11	3	1171	3	BTNL8	5	180377026	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	1667	180377026	538234	56	60915			1	24		4	4	2783	A		9.537381e-07
BTNL8	79908	broad.mit.edu	37	chr5	180377398	180377398	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccgtcctataatgagcaaAatggaactcccatagtcatc	14	10	6	11	1	1	1	1	1	0	0	5	2	4	2	3	1	2	1	3	1	6	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr5:180377398A>C	uc003mmp.2	+	8	1591	c.1357A>C	c.(1357-1359)AAT>CAT	p.N453H	BTNL8_uc003mmq.2_3'UTR|BTNL8_uc011dhg.1_Missense_Mutation_p.N328H|BTNL8_uc010jll.2_3'UTR|BTNL8_uc010jlm.2_Missense_Mutation_p.N337H|BTNL8_uc011dhh.1_Missense_Mutation_p.N269H	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	453	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TAATGAGCAAAATGGAACTCC	0.468													19	102					0	0	0.007413	0	0		C	180377398	C	C	180377398	3	2	92	1	0	0	0	0	1	0	0	0	1570	14	1	5	1543	5	BTNL8	5	180377398	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	372	180377398	537862	57	60916			1	24		4	4	2783	A		9.537381e-07
OR14J1	442191	broad.mit.edu	37	chr6	29274938	29274938	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctctctgggctcatgcatGctgccattaacttctccata	7	13	7	14	0	3	0	1	0	2	0	5	0	3	0	3	1	4	3	3	1	2	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr6:29274938G>A	uc011dln.1	+	1	472	c.472G>A	c.(472-474)GCT>ACT	p.A158T		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GCTCATGCATGCTGCCATTAA	0.473													14	153					0	0	0.003163	0	0		A	29274938	A	A	29274938	3	1	92	1	0	0	0	0	1	0	0	0	10967	1319	46	2	474	2	OR14J1	6	29274938	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08		29274938	141840129	58	60917											
BTBD9	114781	broad.mit.edu	37	chr6	38561952	38561952	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttatgagccaggctcaaaaAgtccagcagcacctcctcct	11	9	7	14	0	1	1	1	1	0	0	4	1	4	1	5	1	3	3	5	1	3	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr6:38561952A>G	uc003ooa.3	-	4	913	c.337T>C	c.(337-339)TTT>CTT	p.F113L	BTBD9_uc003ony.3_Missense_Mutation_p.F45L|BTBD9_uc010jwv.2_Missense_Mutation_p.F45L|BTBD9_uc010jww.2_RNA|BTBD9_uc010jwx.2_Missense_Mutation_p.F113L	NM_052893	NP_443125	Q96Q07	BTBD9_HUMAN	BTB (POZ) domain containing 9 isoform a	113					cell adhesion						0						AGGCTCAAAAAGTCCAGCAGC	0.453													61	197					0	0	0.01441	0	0		G	38561952	G	G	38561952	3	3	92	1	0	0	0	0	1	0	0	0	1551	72	3	3	1628	3	BTBD9	6	38561952	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	9287014	38561952	132553115	59	60918											
HSP90AB1	3326	broad.mit.edu	37	chr6	44217547	44217547	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagtcttctgctggaggtTccttcactgtgcgtgctgac	4	13	14	10	1	3	1	1	1	2	0	4	3	4	3	1	3	3	3	1	3	0	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr6:44217547T>G	uc003oxa.1	+	4	574	c.490T>G	c.(490-492)TCC>GCC	p.S164A	HSP90AB1_uc011dvr.1_Missense_Mutation_p.S154A|HSP90AB1_uc003oxb.1_Missense_Mutation_p.S164A|HSP90AB1_uc011dvs.1_Intron|HSP90AB1_uc003oxc.1_5'Flank	NM_007355	NP_031381	P08238	HS90B_HUMAN	heat shock 90kDa protein 1, beta	164					axon guidance|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of nitric oxide biosynthetic process|protein folding|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to unfolded protein	cytosol|melanosome	ATP binding|nitric-oxide synthase regulator activity|TPR domain binding|unfolded protein binding			lung(3)|breast(1)	4	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TGCTGGAGGTTCCTTCACTGT	0.458													80	227					0	0	0.01441	0	0		G	44217547	G	G	44217547	3	3	92	1	0	0	0	0	1	0	0	0	7418	1783	62	5	500	5	HSP90AB1	6	44217547	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	5655595	44217547	126897520	60	60919											
C6orf138	442213	broad.mit.edu	37	chr6	47847079	47847079	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccatggcataggaaacacTtggcgaatcactggctagta	14	8	10	9	1	1	0	1	0	0	0	1	2	1	1	1	4	2	3	1	4	6	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr6:47847079T>C	uc011dwm.1	-	3	1535	c.1450A>G	c.(1450-1452)AGT>GGT	p.S484G	C6orf138_uc011dwn.1_Missense_Mutation_p.S248G	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	501						integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						TAGGAAACACTTGGCGAATCA	0.463													11	13					0	0	0.008291	0	0		C	47847079	C	C	47847079	3	2	92	1	0	0	0	0	1	0	0	0	2335	1609	56	3	1043	3	C6orf138	6	47847079	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	3629532	47847079	123267988	61	60920											
PKHD1	5314	broad.mit.edu	37	chr6	51890809	51890809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccagacctccacggcagCtggaacagtgggagcgcccg	9	3	14	15	3	0	1	0	0	0	1	1	3	1	3	4	3	4	2	4	3	1	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr6:51890809C>T	uc003pah.1	-	32	4075	c.3799G>A	c.(3799-3801)GCT>ACT	p.A1267T	PKHD1_uc003pai.2_Missense_Mutation_p.A1267T	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1267	Extracellular (Potential).|IPT/TIG 7.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TCCACGGCAGCTGGAACAGTG	0.592													11	41					0	0	0.013537	0	0		T	51890809	T	T	51890809	3	4	92	1	0	0	0	0	1	0	0	0	11990	797	28	2	8608	2	PKHD1	6	51890809	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	4043730	51890809	119224258	62	60921											
KIAA1586	57691	broad.mit.edu	37	chr6	56918933	56918933	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcaactgcattacagtcaAgatcaactaatattaagaaa	18	12	4	7	0	3	2	3	0	0	2	3	2	3	2	0	0	4	1	0	0	8	5			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr6:56918933A>G	uc003pdj.2	+	4	1806	c.1636A>G	c.(1636-1638)AGA>GGA	p.R546G	KIAA1586_uc011dxm.1_Missense_Mutation_p.R519G	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	546							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			ATTACAGTCAAGATCAACTAA	0.299													16	23					0	0	0.003163	0	0		G	56918933	G	G	56918933	3	3	92	1	0	0	0	0	1	0	0	0	8261	64	3	3	1650	3	KIAA1586	6	56918933	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	5028124	56918933	114196134	63	60922											
BAI3	577	broad.mit.edu	37	chr6	69348663	69348663	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagacttctggtgttcaacTttggtgaagggagtcattta	10	14	11	6	0	3	2	2	1	1	1	3	3	3	3	0	3	1	1	0	3	4	5			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr6:69348663T>G	uc003pev.3	+	3	544	c.96T>G	c.(94-96)ACT>ACG	p.T32T	BAI3_uc010kak.2_Silent_p.T32T	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	32	CUB.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				GGTGTTCAACTTTGGTGAAGG	0.393													5	69					0	0	0.014758	0	0		G	69348663	G	G	69348663	2	3	92	1	0	0	0	0	0	0	0	1	1301	1596	56	5		5	BAI3	6	69348663	Silent	SNP	T	TCGA-BR-8687-01A-11D-2394-08	12429730	69348663	101766404	64	60923											
COL12A1	1303	broad.mit.edu	37	chr6	75862083	75862083	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggggccaatgtcaaagacTtccacaatacgagaaatgaa	16	8	9	8	1	1	3	1	1	0	2	2	4	2	3	2	2	1	0	2	2	6	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr6:75862083T>C	uc003phs.2	-	18	3847	c.3681A>G	c.(3679-3681)GAA>GAG	p.E1227E	COL12A1_uc003pht.2_Silent_p.E63E	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1227	VWFA 3.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TGTCAAAGACTTCCACAATAC	0.443													7	30					0	0	0.001984	0	0		C	75862083	C	C	75862083	2	2	92	1	0	0	0	0	0	0	0	1	3672	1606	56	3		3	COL12A1	6	75862083	Silent	SNP	T	TCGA-BR-8687-01A-11D-2394-08	6513420	75862083	95252984	65	60924											
ANKRD6	22881	broad.mit.edu	37	chr6	90326294	90326294	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggctggagacacagcacTtcacgttgctgctgccctaa	9	8	10	14	1	1	1	1	0	0	1	1	2	1	1	2	2	4	5	2	2	1	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr6:90326294T>G	uc003pni.3	+	8	973	c.632T>G	c.(631-633)CTT>CGT	p.L211R	ANKRD6_uc003pne.3_Missense_Mutation_p.L211R|ANKRD6_uc003pnf.3_Missense_Mutation_p.L211R|ANKRD6_uc011dzy.1_Missense_Mutation_p.L211R|ANKRD6_uc010kcd.2_Missense_Mutation_p.L178R|LYRM2_uc010kce.1_Intron|LYRM2_uc003png.2_Intron|ANKRD6_uc003pnh.3_5'UTR	NM_014942	NP_055757	Q9Y2G4	ANKR6_HUMAN	ankyrin repeat domain 6	211	ANK 7.						protein binding			ovary(2)|pancreas(1)	3		all_cancers(76;1.22e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;1.83e-05)|Lung NSC(302;0.239)		BRCA - Breast invasive adenocarcinoma(108;0.0209)		GACACAGCACTTCACGTTGCT	0.488													20	42					0	0	0.010504	0	0		G	90326294	G	G	90326294	3	3	92	1	0	0	0	0	1	0	0	0	685	1609	56	5	658	5	ANKRD6	6	90326294	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	14464211	90326294	80788773	66	60925											
RSPH4A	345895	broad.mit.edu	37	chr6	116948943	116948943	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagatgccgcttctggggaaAgatcttgggtctggaaatga	11	10	14	6	1	3	3	0	1	3	2	3	5	3	5	1	4	1	1	1	4	3	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr6:116948943A>T	uc003pxe.2	+	3	1218	c.1073A>T	c.(1072-1074)AAG>ATG	p.K358M	RSPH4A_uc010kee.2_Missense_Mutation_p.K358M	NM_001010892	NP_001010892	Q5TD94	RSH4A_HUMAN	radial spoke head 4 homolog A isoform 1	358					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton|radial spoke					0						TTCTGGGGAAAGATCTTGGGT	0.343									Kartagener_syndrome				17	69					0	0	0.006122	0	0		T	116948943	T	T	116948943	3	4	92	1	0	0	0	0	1	0	0	0	13731	72	3	5	1083	5	RSPH4A	6	116948943	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	26622649	116948943	54166124	67	60926											
PEX3	8504	broad.mit.edu	37	chr6	143793448	143793448	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatgatgccagatgaagaaActccattagcagtgcaggtg	14	9	11	7	0	0	4	0	2	0	2	1	4	1	4	2	1	4	2	2	1	4	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr6:143793448A>G	uc003qjl.2	+	8	992	c.730A>G	c.(730-732)ACT>GCT	p.T244A	PEX3_uc011edx.1_Missense_Mutation_p.T244A	NM_003630	NP_003621	P56589	PEX3_HUMAN	peroxisomal biogenesis factor 3	244	Cytoplasmic (Potential).				protein import into peroxisome membrane|transmembrane transport	integral to peroxisomal membrane	protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;5.73e-06)|GBM - Glioblastoma multiforme(68;0.0117)		AGATGAAGAAACTCCATTAGC	0.328													8	53					0	0	0.00308	0	0		G	143793448	G	G	143793448	3	3	92	1	0	0	0	0	1	0	0	0	11766	43	2	3	760	3	PEX3	6	143793448	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	26844505	143793448	27321619	68	60927											
HSPB1	3315	broad.mit.edu	37	chr7	75932122	75932122	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catagccgcctcttcgaccaGgccttcgggctgccccggct	4	8	11	18	4	1	0	0	0	1	0	3	1	1	0	6	3	2	2	6	3	1	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr7:75932122G>A	uc003uew.2	+	1	248	c.93G>A	c.(91-93)CAG>CAA	p.Q31Q	HSPB1_uc010ldj.1_5'Flank	NM_001540	NP_001531	P04792	HSPB1_HUMAN	heat shock protein beta-1	31					anti-apoptosis|cell death|cellular component movement|mRNA metabolic process|positive regulation of interleukin-1 beta production|positive regulation of tumor necrosis factor biosynthetic process|regulation of I-kappaB kinase/NF-kappaB cascade|regulation of translational initiation|response to heat|response to unfolded protein|response to virus	cell surface|cytosol|nucleus|proteasome complex|spindle	identical protein binding|protein kinase C delta binding|protein kinase C inhibitor activity|ubiquitin binding				0						TCTTCGACCAGGCCTTCGGGC	0.731													3	9					0	0	0.009096	0	0		A	75932122	A	A	75932122	2	1	92	1	0	0	0	0	0	0	0	1	7434	991	35	4		4	HSPB1	7	75932122	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08		75932122	83206541	69	60928											
ABCB1	5243	broad.mit.edu	37	chr7	87160630	87160630	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccagaaccttctagttCtttcttatctttcagtgctt	6	19	4	12	0	5	1	1	0	4	1	6	1	6	1	2	0	2	2	2	0	3	8			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr7:87160630C>A	uc003uiz.1	-	22	3083	c.2665G>T	c.(2665-2667)GAA>TAA	p.E889*	ABCB1_uc011khc.1_Nonsense_Mutation_p.E825*	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	889	ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	CCTTCTAGTTCTTTCTTATCT	0.348													14	85					7.93312e-07	8.22694e-07	0.020292	1	0		A	87160630	A	A	87160630	4	1	92	1	0	0	0	0	0	1	0	0	40	922	32	5	1209	5	ABCB1	7	87160630	Nonsense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	11228508	87160630	71978033	70	60929											
PIK3CG	5294	broad.mit.edu	37	chr7	106509364	106509364	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagagtcccccagttctgAgtccaagggcaaagttcagc	10	8	11	12	0	2	2	1	1	1	1	4	2	4	2	3	1	2	4	3	1	2	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr7:106509364A>G	uc003vdv.3	+	2	1443	c.1358A>G	c.(1357-1359)GAG>GGG	p.E453G	PIK3CG_uc003vdu.2_Missense_Mutation_p.E453G|PIK3CG_uc003vdw.2_Missense_Mutation_p.E453G	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	453					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						CCCAGTTCTGAGTCCAAGGGC	0.537													13	68					0	0	0.013537	0	0		G	106509364	G	G	106509364	3	3	92	1	0	0	0	0	1	0	0	0	11935	304	11	3	1360	3	PIK3CG	7	106509364	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	19348734	106509364	52629299	71	60930											
ZNF425	155054	broad.mit.edu	37	chr7	148801027	148801027	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccggtactgttgagtgaaacTtttgccgcacatcacacaag	11	10	9	11	2	1	2	1	2	0	0	1	2	1	2	2	1	3	3	2	1	3	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr7:148801027T>G	uc003wfj.2	-	4	2009	c.1936A>C	c.(1936-1938)AGT>CGT	p.S646R		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	646	C2H2-type 16.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TGAGTGAAACTTTTGCCGCAC	0.537													17	125					0	0	0.006122	0	0		G	148801027	G	G	148801027	3	3	92	1	0	0	0	0	1	0	0	0	17924	1609	56	5	326	5	ZNF425	7	148801027	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	42291663	148801027	10337636	72	60931											
CNBD1	168975	broad.mit.edu	37	chr8	88365977	88365977	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaatcattaccaaaaaagaAgttgagatggcaatcattga	19	9	7	6	0	2	3	2	2	0	2	2	4	2	3	1	1	1	2	1	1	7	3	rs148357017	by1000genomes	TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr8:88365977A>G	uc003ydy.2	+	10	1314	c.1266A>G	c.(1264-1266)GAA>GAG	p.E422E		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	422	cNMP.									ovary(3)	3						CCAAAAAAGAAGTTGAGATGG	0.328													23	35					0	0	0.01892	0	0		G	88365977	G	G	88365977	2	3	92	1	0	0	0	0	0	0	0	1	3594	69	3	3		3	CNBD1	8	88365977	Silent	SNP	A	TCGA-BR-8687-01A-11D-2394-08		88365977	57998045	73	60932											
RUNX1T1	862	broad.mit.edu	37	chr8	92998514	92998514	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttagtacggtgagagatcGccttgttttttctaccatgt	7	16	9	9	2	1	2	0	1	1	1	2	3	1	2	3	1	2	2	3	1	3	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr8:92998514G>A	uc003yfd.2	-	8	1201	c.1117C>T	c.(1117-1119)CGA>TGA	p.R373*	RUNX1T1_uc003yfc.1_Nonsense_Mutation_p.R346*|RUNX1T1_uc003yfe.1_Nonsense_Mutation_p.R336*|RUNX1T1_uc010mao.2_Nonsense_Mutation_p.R346*|RUNX1T1_uc011lgi.1_Nonsense_Mutation_p.R384*|RUNX1T1_uc010man.1_5'UTR|RUNX1T1_uc003yfb.1_Nonsense_Mutation_p.R336*	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	373	Important for oligomerization.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GTGAGAGATCGCCTTGTTTTT	0.433													9	140					0	0	0.006214	0	0		A	92998514	A	A	92998514	4	1	92	1	0	0	0	0	0	1	0	0	13772	1095	38	1	713	1	RUNX1T1	8	92998514	Nonsense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	4632537	92998514	53365508	74	60933											
GSDMC	56169	broad.mit.edu	37	chr8	130760962	130760962	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgctccaggggtatctgaAgtttggctccaggatgctcc	8	11	12	10	0	1	1	0	1	1	0	4	2	4	2	3	4	2	5	3	4	3	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr8:130760962A>C	uc003ysr.2	-	14	2194	c.1312T>G	c.(1312-1314)TTC>GTC	p.F438V		NM_031415	NP_113603	Q9BYG8	GSDMC_HUMAN	melanoma-derived leucine zipper, extra-nuclear	438						mitochondrion				ovary(2)|skin(1)	3						GGGTATCTGAAGTTTGGCTCC	0.527													11	63					0	0	0.010729	0	0		C	130760962	C	C	130760962	3	2	92	1	0	0	0	0	1	0	0	0	6834	72	3	5	218	5	GSDMC	8	130760962	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	37762448	130760962	15603060	75	60934											
FAM135B	51059	broad.mit.edu	37	chr8	139144979	139144979	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgttgtgtcggattaaagTgcagtccttggcttcaacca	9	12	10	10	2	1	0	1	0	0	0	3	1	2	1	2	2	2	3	2	2	3	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr8:139144979T>C	uc003yuy.2	-	20	4249	c.4078A>G	c.(4078-4080)ACT>GCT	p.T1360A	FAM135B_uc003yux.2_Missense_Mutation_p.T1261A|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1360										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CGGATTAAAGTGCAGTCCTTG	0.542										HNSCC(54;0.14)			29	299					0	0	0.009535	0	0		C	139144979	C	C	139144979	3	2	92	1	0	0	0	0	1	0	0	0	5460	1696	59	3	146	3	FAM135B	8	139144979	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	8384017	139144979	7219043	76	60935											
IFNA17	3451	broad.mit.edu	37	chr9	21227998	21227998	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctcctggggaagtccaaAgtcatgtctgtccttcaggc	7	11	10	13	0	3	0	2	0	1	0	7	1	7	1	4	3	0	0	4	3	2	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr9:21227998A>T	uc003zos.1	-	1	224	c.175T>A	c.(175-177)TTT>ATT	p.F59I	IFNA14_uc003zoo.1_Intron	NM_021268	NP_067091	P01571	IFN17_HUMAN	interferon, alpha 17 precursor	59					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				Lung(24;2.13e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		GGAAGTCCAAAGTCATGTCTG	0.512													9	152					0	0	0.008291	0	0		T	21227998	T	T	21227998	3	4	92	1	0	0	0	0	1	0	0	0	7552	72	3	5	398	5	IFNA17	9	21227998	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08		21227998	119985433	77	60936											
GABBR2	9568	broad.mit.edu	37	chr9	101125010	101125010	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcttacctccatgctgtacTtctccactgtccttcgcagg	5	13	8	15	1	1	0	0	0	1	0	5	0	3	0	4	2	3	4	4	2	2	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr9:101125010T>G	uc004ays.2	-	13	2036	c.1880A>C	c.(1879-1881)AAG>ACG	p.K627T		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	627	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	CATGCTGTACTTCTCCACTGT	0.607													16	16					0	0	0.004007	0	0		G	101125010	G	G	101125010	3	3	92	1	0	0	0	0	1	0	0	0	6170	1609	56	5	973	5	GABBR2	9	101125010	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	79897012	101125010	40088421	78	60937											
FKTN	2218	broad.mit.edu	37	chr9	108397526	108397526	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctatttctgagtgggatgAggttatccagttatattgag	9	15	12	5	0	1	3	0	3	1	0	2	4	2	4	2	2	0	2	2	2	4	6			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr9:108397526A>G	uc004bcr.2	+	11	1583	c.1367A>G	c.(1366-1368)GAG>GGG	p.E456G	FKTN_uc011lvx.1_Intron|FKTN_uc004bcs.2_Missense_Mutation_p.E456G|FKTN_uc011lvy.1_3'UTR|FKTN_uc010mtm.2_Missense_Mutation_p.E324G	NM_001079802	NP_001073270	O75072	FKTN_HUMAN	fukutin	456	Lumenal (Potential).				muscle organ development|negative regulation of cell proliferation|negative regulation of JNK cascade|nervous system development|regulation of protein glycosylation	cis-Golgi network|endoplasmic reticulum|extracellular space|Golgi membrane|integral to membrane|nucleus	transferase activity			breast(2)|ovary(1)	3						GAGTGGGATGAGGTTATCCAG	0.393													34	55					0	0	0.017118	0	0		G	108397526	G	G	108397526	3	3	92	1	0	0	0	0	1	0	0	0	5933	304	11	3	1401	3	FKTN	9	108397526	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	7272516	108397526	32815905	79	60938											
TNFSF8	944	broad.mit.edu	37	chr9	117692483	117692483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagaaatagctgcggctcGtggtccccaggtggctggcc	8	8	14	11	2	0	1	0	0	0	1	2	1	1	1	3	5	2	3	3	5	4	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr9:117692483G>A	uc004bji.1	-	1	288	c.101C>T	c.(100-102)ACG>ATG	p.T34M		NM_001244	NP_001235	P32971	TNFL8_HUMAN	tumor necrosis factor (ligand) superfamily,	34	Cytoplasmic (Potential).				cell proliferation|cell-cell signaling|immune response|induction of apoptosis|signal transduction	extracellular space|integral to plasma membrane	cytokine activity|tumor necrosis factor receptor binding			lung(3)|skin(2)|ovary(1)	6						GCTGCGGCTCGTGGTCCCCAG	0.597													67	59					0	0	0.01441	0	0		A	117692483	A	A	117692483	3	1	92	1	0	0	0	0	1	0	0	0	16336	1145	40	1	619	1	TNFSF8	9	117692483	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	9294957	117692483	23520948	80	60939											
CERCAM	51148	broad.mit.edu	37	chr9	131196814	131196814	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgtctggcgggtgcccgcaAgctgctggcctcacagcctc	4	7	14	16	3	2	0	1	0	1	0	3	0	2	0	3	3	4	3	3	3	1	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr9:131196814A>G	uc004buz.3	+	11	1855	c.1457A>G	c.(1456-1458)AAG>AGG	p.K486R	CERCAM_uc004buy.1_Missense_Mutation_p.K408R|CERCAM_uc010mxz.2_Missense_Mutation_p.K408R|CERCAM_uc010mya.1_Missense_Mutation_p.K327R	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	486					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						GGTGCCCGCAAGCTGCTGGCC	0.687													4	48					0	0	0.009096	0	0		G	131196814	G	G	131196814	3	3	92	1	0	0	0	0	1	0	0	0	3269	72	3	3	1499	3	CERCAM	9	131196814	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	13504331	131196814	10016617	81	60940											
KIAA0649	9858	broad.mit.edu	37	chr9	138377178	138377178	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagagccgcctacaaaggtGgtgcatcggcagggcctgct	9	6	14	12	2	0	1	0	0	0	1	1	1	0	1	3	4	4	3	3	4	3	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr9:138377178G>A	uc004cfr.1	+	4	1371	c.822G>A	c.(820-822)GTG>GTA	p.V274V		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	274						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		CTACAAAGGTGGTGCATCGGC	0.542													82	87					0	0	0.01441	0	0		A	138377178	A	A	138377178	2	1	92	1	0	0	0	0	0	0	0	1	8203	1335	47	4		4	KIAA0649	9	138377178	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	7180364	138377178	2836253	82	60941											
C10orf18	54906	broad.mit.edu	37	chr10	5784428	5784428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaacagaaaaaaacttttgCaagagagtgtgatccagaca	18	8	9	6	0	0	5	0	2	0	3	1	6	1	5	1	0	3	1	1	0	5	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr10:5784428C>T	uc001iij.2	+	14	3321	c.2696C>T	c.(2695-2697)GCA>GTA	p.A899V	C10orf18_uc001iik.2_Intron	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	899										ovary(1)|central_nervous_system(1)	2						AAAACTTTTGCAAGAGAGTGT	0.378													6	71					0	0	0.001168	0	0		T	5784428	T	T	5784428	3	4	92	1	0	0	0	0	1	0	0	0	1599	710	25	2	2738	2	C10orf18	10	5784428	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08		5784428	129750319	83	60942											
GATA3	2625	broad.mit.edu	37	chr10	8115913	8115913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatgctgaccacgcccaCgccgatgcacccgccatcca	9	4	7	21	4	0	1	0	1	0	0	1	2	1	1	7	0	2	2	7	0	0	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr10:8115913C>T	uc001ika.2	+	6	1816	c.1259C>T	c.(1258-1260)ACG>ATG	p.T420M	GATA3_uc001ijz.2_Missense_Mutation_p.T421M	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	420					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						ACCACGCCCACGCCGATGCAC	0.637			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						14	90					0	0	0.008871	0	0		T	8115913	T	T	8115913	3	4	92	1	0	0	0	0	1	0	0	0	6270	536	19	1	1280	1	GATA3	10	8115913	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	2331485	8115913	127418834	84	60943											
KIAA1217	56243	broad.mit.edu	37	chr10	24784102	24784102	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgatgaaaaccacagccaAcaggaaccacacagatagtg	19	4	8	10	0	0	3	0	2	0	1	0	4	0	4	3	1	4	0	3	1	6	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr10:24784102A>G	uc001iru.3	+	8	2214	c.1811A>G	c.(1810-1812)AAC>AGC	p.N604S	KIAA1217_uc001irs.2_Missense_Mutation_p.N524S|KIAA1217_uc001irt.3_Missense_Mutation_p.N569S|KIAA1217_uc010qcy.1_Missense_Mutation_p.N569S|KIAA1217_uc010qcz.1_Missense_Mutation_p.N569S|KIAA1217_uc001irv.1_Missense_Mutation_p.N419S|KIAA1217_uc010qda.1_RNA|KIAA1217_uc001irw.2_Missense_Mutation_p.N287S|KIAA1217_uc001irz.2_Missense_Mutation_p.N287S|KIAA1217_uc001irx.2_Missense_Mutation_p.N287S|KIAA1217_uc001iry.2_Missense_Mutation_p.N287S	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	604					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						ACCACAGCCAACAGGAACCAC	0.428													28	42					0	0	0.00632	0	0		G	24784102	G	G	24784102	3	3	92	1	0	0	0	0	1	0	0	0	8232	43	2	3	1841	3	KIAA1217	10	24784102	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	16668189	24784102	110750645	85	60944											
MYO3A	53904	broad.mit.edu	37	chr10	26482150	26482150	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataggtgtctgtaaaggagaGgagccaaaaatattgagacc	16	8	12	5	0	1	2	0	1	1	2	1	5	1	3	2	3	1	1	2	3	6	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr10:26482150G>T	uc001isn.2	+	32	4815	c.4455G>T	c.(4453-4455)GAG>GAT	p.E1485D	MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1485					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GTAAAGGAGAGGAGCCAAAAA	0.348													10	36					1.36491e-13	1.4452e-13	0.016723	1	0		T	26482150	T	T	26482150	3	4	92	1	0	0	0	0	1	0	0	0	10094	991	35	5	4573	5	MYO3A	10	26482150	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	1698048	26482150	109052597	86	60945											
PCDH15	65217	broad.mit.edu	37	chr10	55912869	55912869	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atataaattaccttcgctctGcaggaggagcattatccgct	11	12	8	10	2	1	0	0	0	1	0	3	2	2	2	2	2	3	4	2	2	5	5			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr10:55912869G>T	uc001jju.1	-	14	2170	c.1775C>A	c.(1774-1776)GCA>GAA	p.A592E	PCDH15_uc010qhq.1_Missense_Mutation_p.A597E|PCDH15_uc010qhr.1_Missense_Mutation_p.A592E|PCDH15_uc010qhs.1_Missense_Mutation_p.A604E|PCDH15_uc010qht.1_Missense_Mutation_p.A599E|PCDH15_uc010qhu.1_Missense_Mutation_p.A592E|PCDH15_uc001jjv.1_Missense_Mutation_p.A570E|PCDH15_uc010qhv.1_Missense_Mutation_p.A592E|PCDH15_uc010qhw.1_Missense_Mutation_p.A555E|PCDH15_uc010qhx.1_Missense_Mutation_p.A592E|PCDH15_uc010qhy.1_Missense_Mutation_p.A597E|PCDH15_uc010qhz.1_Missense_Mutation_p.A592E|PCDH15_uc010qia.1_Missense_Mutation_p.A570E|PCDH15_uc010qib.1_Missense_Mutation_p.A570E|PCDH15_uc001jjw.2_Missense_Mutation_p.A592E	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	592	Cadherin 5.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CCTTCGCTCTGCAGGAGGAGC	0.458										HNSCC(58;0.16)			10	51					2.17888e-05	2.25032e-05	0.006214	1	0		T	55912869	T	T	55912869	3	4	92	1	0	0	0	0	1	0	0	0	11530	1319	46	5	5791	5	PCDH15	10	55912869	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	29430719	55912869	79621878	87	60946											
JMJD1C	221037	broad.mit.edu	37	chr10	64958329	64958329	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgttactaattgacagaacTtatcacctattatatccaag	15	14	4	8	0	1	2	1	1	0	1	2	2	2	2	2	0	2	1	2	0	8	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr10:64958329T>G	uc001jmn.2	-	12	5735	c.5435A>C	c.(5434-5436)AAG>ACG	p.K1812T	JMJD1C_uc001jml.2_Missense_Mutation_p.K1593T|JMJD1C_uc001jmm.2_Missense_Mutation_p.K1524T|JMJD1C_uc010qiq.1_Missense_Mutation_p.K1630T|JMJD1C_uc009xpi.2_Missense_Mutation_p.K1630T|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Intron	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1812					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TTGACAGAACTTATCACCTAT	0.303													61	66					0	0	0.01441	0	0		G	64958329	G	G	64958329	3	3	92	1	0	0	0	0	1	0	0	0	7966	1609	56	5	2247	5	JMJD1C	10	64958329	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	9045460	64958329	70576418	88	60947											
NOC3L	64318	broad.mit.edu	37	chr10	96104172	96104172	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaacctacacagcccttacTtggcaagaccttctagaact	12	10	5	14	0	2	2	1	0	1	2	2	2	2	2	3	1	5	1	3	1	6	5			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr10:96104172T>G	uc001kjq.1	-	13	1659	c.1571A>C	c.(1570-1572)AAG>ACG	p.K524T		NM_022451	NP_071896	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog	524						nuclear speck|nucleolus	binding			ovary(1)	1		Colorectal(252;0.0897)				CAGCCCTTACTTGGCAAGACC	0.423													16	31					0	0	0.004007	0	0		G	96104172	G	G	96104172	3	3	92	1	0	0	0	0	1	0	0	0	10533	1623	56	5	867	5	NOC3L	10	96104172	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	31145843	96104172	39430575	89	60948											
C10orf12	26148	broad.mit.edu	37	chr10	98744030	98744030	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgatcaagtggagccagaAgatggcagtgatgtcagccc	11	7	13	10	0	2	4	2	2	0	2	2	5	2	5	3	2	2	1	3	2	2	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr10:98744030A>G	uc001kmv.2	+	1	2990	c.2883A>G	c.(2881-2883)GAA>GAG	p.E961E		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	961										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		TGGAGCCAGAAGATGGCAGTG	0.478													66	61					0	0	0.01441	0	0		G	98744030	G	G	98744030	2	3	92	1	0	0	0	0	0	0	0	1	1592	69	3	3		3	C10orf12	10	98744030	Silent	SNP	A	TCGA-BR-8687-01A-11D-2394-08	2639858	98744030	36790717	90	60949											
ARHGAP19	84986	broad.mit.edu	37	chr10	99003882	99003882	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actttgccagctgaaaggacTtagtatgacatgaagctatg	13	11	10	7	0	0	3	0	3	0	0	0	4	0	4	1	1	3	3	1	1	5	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr10:99003882T>G	uc001knb.2	-	8	1057	c.1028A>C	c.(1027-1029)AAG>ACG	p.K343T	ARHGAP19_uc001kmy.2_RNA|ARHGAP19_uc001kna.2_Missense_Mutation_p.K334T|ARHGAP19_uc009xvi.2_RNA|ARHGAP19_uc009xvj.2_Missense_Mutation_p.K314T|ARHGAP19_uc009xvk.2_Missense_Mutation_p.K137T	NM_032900	NP_116289	Q14CB8	RHG19_HUMAN	Rho GTPase activating protein 19	343					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	GTPase activator activity				0		Colorectal(252;0.0854)		Epithelial(162;7.65e-09)|all cancers(201;4.49e-07)		CTGAAAGGACTTAGTATGACA	0.448													18	54					0	0	0.007413	0	0		G	99003882	G	G	99003882	3	3	92	1	0	0	0	0	1	0	0	0	869	1609	56	5	476	5	ARHGAP19	10	99003882	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	259852	99003882	36530865	91	60950											
TUBGCP2	10844	broad.mit.edu	37	chr10	135099058	135099058	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggggtcggcgtgcgccatCgccttctcctgcttggtctc	1	12	14	14	4	2	0	0	0	2	0	6	0	2	0	3	4	2	1	3	4	0	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr10:135099058C>T	uc001lmg.1	-	12	2154	c.1797G>A	c.(1795-1797)GCG>GCA	p.A599A	TUBGCP2_uc001lmf.1_Silent_p.A192A|TUBGCP2_uc010qvc.1_Silent_p.A627A|TUBGCP2_uc009ybk.1_Intron|TUBGCP2_uc010qvd.1_Silent_p.A469A|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	599					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		CGTGCGCCATCGCCTTCTCCT	0.587													4	12					0	0	0.009096	0	0		T	135099058	T	T	135099058	2	4	92	1	0	0	0	0	0	0	0	1	16792	871	31	1		1	TUBGCP2	10	135099058	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	36095176	135099058	435689	92	60951											
OR2D2	120776	broad.mit.edu	37	chr11	6912920	6912920	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ttgcatagaaaacagacaccGatttttcctgctgtttggaa	12	13	8	8	1	0	2	0	0	0	2	1	4	1	3	2	1	3	3	2	1	4	5	rs113111396		TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:6912920G>C	uc010rau.1	-	1	812	c.812C>G	c.(811-813)TCG>TGG	p.S271W		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	271	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		AACAGACACCGATTTTTCCTG	0.438													32	25					0	0	0.008361	0	0		C	6912920	C	C	6912920	3	2	92	1	0	0	0	0	1	0	0	0	11013	1059	37	5	117	5	OR2D2	11	6912920	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08		6912920	128093596	93	60952											
CTR9	9646	broad.mit.edu	37	chr11	10776559	10776559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtaaaattgttggaagcaGcacgtatagatggcaatttg	13	13	11	4	1	0	1	0	0	0	1	0	2	0	2	0	2	2	6	0	2	6	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:10776559G>A	uc001mja.2	+	3	348	c.199G>A	c.(199-201)GCA>ACA	p.A67T		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	67	TPR 1.				histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		GTTGGAAGCAGCACGTATAGA	0.348													5	85					0	0	0.001984	0	0		A	10776559	A	A	10776559	3	1	92	1	0	0	0	0	1	0	0	0	4027	971	34	2	209	2	CTR9	11	10776559	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	3863639	10776559	124229957	94	60953											
MPPED2	744	broad.mit.edu	37	chr11	30557717	30557717	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgtcatatgggatggggTcgaccctaaagtagacataa	13	9	13	6	1	1	1	1	0	0	1	2	4	1	2	1	3	0	1	1	3	5	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:30557717T>C	uc001msr.2	-	2	254	c.134A>G	c.(133-135)GAC>GGC	p.D45G	MPPED2_uc001msq.3_Missense_Mutation_p.D45G|MPPED2_uc009yji.2_5'UTR	NM_001584	NP_001575	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2	45					nervous system development		hydrolase activity|metal ion binding			skin(1)	1						TGGGATGGGGTCGACCCTAAA	0.438													5	18					0	0	0.014758	0	0		C	30557717	C	C	30557717	3	2	92	1	0	0	0	0	1	0	0	0	9760	1667	58	3	842	3	MPPED2	11	30557717	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	19781158	30557717	104448799	95	60954											
LDLRAD3	143458	broad.mit.edu	37	chr11	36250770	36250770	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacacggaatctctgaaccaAgccgacctgcccccctaccg	10	5	8	18	3	1	1	0	1	1	0	2	4	1	2	7	1	4	0	7	1	4	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:36250770A>G	uc001mwk.1	+	6	898	c.861A>G	c.(859-861)CAA>CAG	p.Q287Q	LDLRAD3_uc010rey.1_Silent_p.Q238Q|LDLRAD3_uc010rez.1_Silent_p.Q166Q|LDLRAD3_uc010rfa.1_RNA	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	287	Cytoplasmic (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)				CTCTGAACCAAGCCGACCTGC	0.652													17	187					0	0	0.010504	0	0		G	36250770	G	G	36250770	2	3	92	1	0	0	0	0	0	0	0	1	8723	69	3	3		3	LDLRAD3	11	36250770	Silent	SNP	A	TCGA-BR-8687-01A-11D-2394-08	5693053	36250770	98755746	96	60955											
RAG1	5896	broad.mit.edu	37	chr11	36595301	36595301	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaaggaaaagagagctacTtcctggccggacctcattgc	13	7	11	10	1	1	2	1	0	0	2	2	5	2	4	3	3	3	1	3	3	5	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:36595301T>G	uc001mwu.3	+	2	571	c.447T>G	c.(445-447)ACT>ACG	p.T149T	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	149	Interaction with importin alpha-1.				histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				AGAGAGCTACTTCCTGGCCGG	0.488									Familial_Hemophagocytic_Lymphohistiocytosis				17	47					0	0	0.00499	0	0		G	36595301	G	G	36595301	2	3	92	1	0	0	0	0	0	0	0	1	13028	1596	56	5		5	RAG1	11	36595301	Silent	SNP	T	TCGA-BR-8687-01A-11D-2394-08	344531	36595301	98411215	97	60956											
OR4A5	81318	broad.mit.edu	37	chr11	51412308	51412308	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcaccaagtatgtgagtaAaaacatgacaaataatgctt	17	11	7	6	0	1	2	1	2	0	0	1	2	1	2	1	0	2	3	1	0	7	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:51412308A>C	uc001nhi.1	-	1	88	c.88T>G	c.(88-90)TTA>GTA	p.L30V		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				TATGTGAGTAAAAACATGACA	0.418													12	34					0	0	0.013537	0	0		C	51412308	C	C	51412308	3	2	92	1	0	0	0	0	1	0	0	0	11062	11	1	5	863	5	OR4A5	11	51412308	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	14817007	51412308	83594208	98	60957											
OR4S2	219431	broad.mit.edu	37	chr11	55419250	55419250	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatacactgagaaatgcaGaagtaaagaatgcaatgaag	19	9	9	4	0	0	4	0	2	0	3	0	5	0	4	0	0	3	3	0	0	9	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:55419250G>T	uc001nhs.1	+	1	871	c.871G>T	c.(871-873)GAA>TAA	p.E291*		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	291	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				GAGAAATGCAGAAGTAAAGAA	0.373													40	57					2.95478e-19	3.18207e-19	0.00874	1	0		T	55419250	T	T	55419250	4	4	92	1	0	0	0	0	0	1	0	0	11102	943	33	5	873	5	OR4S2	11	55419250	Nonsense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	4006942	55419250	79587266	99	60958											
OR5D16	390144	broad.mit.edu	37	chr11	55606243	55606243	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacatgtttctgacagagAgaaatacgacatctgaggcc	16	8	9	8	1	2	4	0	2	2	2	2	6	2	4	1	1	2	1	1	1	4	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:55606243A>G	uc010rio.1	+	1	16	c.16A>G	c.(16-18)AGA>GGA	p.R6G		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				TCTGACAGAGAGAAATACGAC	0.413													38	46					0	0	0.00874	0	0		G	55606243	G	G	55606243	3	3	92	1	0	0	0	0	1	0	0	0	11175	296	11	3	18	3	OR5D16	11	55606243	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	186993	55606243	79400273	100	60959											
OR8J3	81168	broad.mit.edu	37	chr11	55905083	55905083	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggttccctgccatggTcagcacatagagcactagga	10	7	11	13	0	1	1	1	0	0	1	2	2	2	2	3	3	3	3	3	3	2	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:55905083T>A	uc010riz.1	-	1	112	c.112A>T	c.(112-114)ACC>TCC	p.T38S		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					CCTGCCATGGTCAGCACATAG	0.483													54	61					0	0	0.01441	0	0		A	55905083	A	A	55905083	3	1	92	1	0	0	0	0	1	0	0	0	11261	1667	58	5	837	5	OR8J3	11	55905083	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	298840	55905083	79101433	101	60960											
OR5B3	441608	broad.mit.edu	37	chr11	58170447	58170447	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaaaccacagaggtaggAgcctatggccagacgagcac	14	3	13	11	1	0	2	0	0	0	2	0	5	0	4	3	4	3	2	3	4	3	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:58170447A>G	uc010rkf.1	-	1	436	c.436T>C	c.(436-438)TCC>CCC	p.S146P		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CAGAGGTAGGAGCCTATGGCC	0.483													22	72					0	0	0.010504	0	0		G	58170447	G	G	58170447	3	3	92	1	0	0	0	0	1	0	0	0	11171	304	11	3	510	3	OR5B3	11	58170447	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	2265364	58170447	76836069	102	60961											
BAD	572	broad.mit.edu	37	chr11	64037689	64037689	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagcgaaggtcactgggAgggggcggagcttcccctgc	6	6	19	10	2	1	0	1	0	0	0	2	4	2	3	2	6	3	1	2	6	1	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:64037689A>G	uc001nzd.2	-	4	581	c.499T>C	c.(499-501)TCC>CCC	p.S167P	BAD_uc001nzc.2_Missense_Mutation_p.S167P|GPR137_uc009ypj.1_5'UTR	NM_032989	NP_116784	Q92934	BAD_HUMAN	BCL2-associated agonist of cell death	167					activation of pro-apoptotic gene products|ADP metabolic process|ATP metabolic process|cellular response to hypoxia|cellular response to mechanical stimulus|cellular response to nicotine|glucose homeostasis|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|pore complex assembly|positive regulation of epithelial cell proliferation|positive regulation of glucokinase activity|positive regulation of insulin secretion|positive regulation of mitochondrial membrane potential|positive regulation of type B pancreatic cell development|regulation of mitochondrial membrane permeability|type B pancreatic cell proliferation	cytosol|mitochondrial outer membrane	caspase activator activity|phospholipid binding|protein kinase binding			central_nervous_system(1)	1						GGTCACTGGGAGGGGGCGGAG	0.627													8	31					0	0	0.00308	0	0		G	64037689	G	G	64037689	3	3	92	1	0	0	0	0	1	0	0	0	1286	304	11	3	11	3	BAD	11	64037689	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	5867242	64037689	70968827	103	60962											
CCDC88B	283234	broad.mit.edu	37	chr11	64112239	64112239	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagttgaggagaaaggctgaGgcccttggagatgagctgga	11	7	17	6	0	0	5	0	3	0	2	0	8	0	6	1	5	1	3	1	5	1	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:64112239G>A	uc001nzy.2	+	14	2270	c.2226G>A	c.(2224-2226)GAG>GAA	p.E742E	CCDC88B_uc009ypo.1_Silent_p.E739E|CCDC88B_uc001nzz.1_Silent_p.E391E	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	742	Potential.				microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						GAAAGGCTGAGGCCCTTGGAG	0.662													4	33					0	0	0.009096	0	0		A	64112239	A	A	64112239	2	1	92	1	0	0	0	0	0	0	0	1	2867	991	35	4		4	CCDC88B	11	64112239	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	74550	64112239	70894277	104	60963											
MED17	9440	broad.mit.edu	37	chr11	93542936	93542936	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcgccaaggttatgggctgGcaagtactgagcttcagtaa	10	10	12	9	1	1	1	1	1	0	0	2	1	1	1	1	3	2	6	1	3	5	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:93542936G>T	uc001pem.3	+	11	1913	c.1638G>T	c.(1636-1638)TGG>TGT	p.W546C		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	546					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TTATGGGCTGGCAAGTACTGA	0.488													42	67					3.09479e-21	3.34715e-21	0.006999	1	0		T	93542936	T	T	93542936	3	4	92	1	0	0	0	0	1	0	0	0	9453	1212	42	5	1680	5	MED17	11	93542936	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	29430697	93542936	41463580	105	60964											
CNTN5	53942	broad.mit.edu	37	chr11	99944940	99944940	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgttaccaaagaccaagaAgttgtcatagagtgcaaacc	16	9	8	8	0	1	3	1	0	0	3	1	3	1	3	3	0	3	3	3	0	6	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:99944940A>C	uc001pga.2	+	13	1833	c.1494A>C	c.(1492-1494)GAA>GAC	p.E498D	CNTN5_uc009ywv.1_Missense_Mutation_p.E498D|CNTN5_uc001pfz.2_Missense_Mutation_p.E498D|CNTN5_uc001pgb.2_Missense_Mutation_p.E424D	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	498	Ig-like C2-type 5.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		AAGACCAAGAAGTTGTCATAG	0.378													6	11					0	0	0.001168	0	0		C	99944940	C	C	99944940	3	2	92	1	0	0	0	0	1	0	0	0	3647	69	3	5	1536	5	CNTN5	11	99944940	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	6402004	99944940	35061576	106	60965											
DYNC2H1	79659	broad.mit.edu	37	chr11	102984412	102984412	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttaccaagcagtacggcaAgtattcgcaccaatgttgtt	11	12	8	10	2	0	0	0	0	0	0	1	0	0	0	2	1	3	7	2	1	6	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:102984412A>C	uc001pho.2	+	2	486	c.342A>C	c.(340-342)CAA>CAC	p.Q114H	DYNC2H1_uc001phn.1_Missense_Mutation_p.Q114H|DYNC2H1_uc009yxe.1_Missense_Mutation_p.Q114H	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	114	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CAGTACGGCAAGTATTCGCAC	0.318													6	30					0	0	0.001984	0	0		C	102984412	C	C	102984412	3	2	92	1	0	0	0	0	1	0	0	0	4852	69	3	5	348	5	DYNC2H1	11	102984412	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	3039472	102984412	32022104	107	60966											
OR10S1	219873	broad.mit.edu	37	chr11	123848218	123848218	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgagagtcagagcccacagTtaggaggatgaggagattcc	12	7	15	7	0	1	4	1	2	0	3	2	8	2	6	2	3	1	1	2	3	1	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:123848218T>G	uc001pzm.1	-	1	181	c.181A>C	c.(181-183)ACT>CCT	p.T61P		NM_001004474	NP_001004474	Q8NGN2	O10S1_HUMAN	olfactory receptor, family 10, subfamily S,	61	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GAGCCCACAGTTAGGAGGATG	0.532													8	34					0	0	0.00308	0	0		G	123848218	G	G	123848218	3	3	92	1	0	0	0	0	1	0	0	0	10937	1725	60	5	818	5	OR10S1	11	123848218	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	20863806	123848218	11158298	108	60967											
ADAMTS15	170689	broad.mit.edu	37	chr11	130341245	130341245	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggggagacaataagagctGcaagaaggtgactggactct	13	7	15	6	0	1	4	0	1	1	3	1	6	1	5	0	4	2	2	0	4	4	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr11:130341245G>T	uc010scd.1	+	7	2045	c.2045G>T	c.(2044-2046)TGC>TTC	p.C682F		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	682	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		AATAAGAGCTGCAAGAAGGTG	0.557													14	24					2.98522e-18	3.1876e-18	0.003163	1	0		T	130341245	T	T	130341245	3	4	92	1	0	0	0	0	1	0	0	0	260	1319	46	5	2071	5	ADAMTS15	11	130341245	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	6493027	130341245	4665271	109	60968											
NDUFA9	4704	broad.mit.edu	37	chr12	4796211	4796211	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtgctgcggcgtcatcgCacttaccgctggctgtctgc	4	10	14	13	4	2	0	1	0	1	0	3	1	2	0	1	3	4	4	1	3	1	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr12:4796211C>T	uc001qnc.2	+	11	1081	c.1071C>T	c.(1069-1071)CGC>CGT	p.R357R	NDUFA9_uc010ses.1_Silent_p.R138R	NM_005002	NP_004993	Q16795	NDUA9_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	357					mitochondrial electron transport, NADH to ubiquinone|sodium ion transport	mitochondrial matrix|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	GGCGTCATCGCACTTACCGCT	0.527													11	53					0	0	0.020292	0	0		T	4796211	T	T	4796211	2	4	92	1	0	0	0	0	0	0	0	1	10291	697	25	2		2	NDUFA9	12	4796211	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08		4796211	129055684	110	60969											
LRP6	4040	broad.mit.edu	37	chr12	12334066	12334066	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcccattgagccttgtcacTtctattcgatcagtgccagt	7	14	8	12	1	3	1	2	1	1	0	5	2	4	1	3	0	2	0	3	0	1	5			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr12:12334066T>G	uc001rah.3	-	6	1426	c.1284A>C	c.(1282-1284)GAA>GAC	p.E428D	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.E428D	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	428	Extracellular (Potential).|LDL-receptor class B 7.|Beta-propeller 2.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				GCCTTGTCACTTCTATTCGAT	0.473													32	47					0	0	0.009535	0	0		G	12334066	G	G	12334066	3	3	92	1	0	0	0	0	1	0	0	0	8980	1606	56	5	3629	5	LRP6	12	12334066	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	7537855	12334066	121517829	111	60970											
KRAS	3845	broad.mit.edu	37	chr12	25398285	25398285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactcttgcctacgccacCagctccaactaccacaagtt	10	8	6	17	1	1	0	0	0	1	0	2	0	2	0	5	1	5	3	5	1	4	4	rs121913530		TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr12:25398285C>T	uc001rgp.1	-	2	215	c.34G>A	c.(34-36)GGT>AGT	p.G12S	KRAS_uc001rgq.1_Missense_Mutation_p.G12S|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12G(6)|p.G12N(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CCTACGCCACCAGCTCCAACT	0.348	G12C(UMUC3_URINARY_TRACT)|G12R(CAL62_THYROID)|G12C(CALU1_LUNG)|G12C(NCIH2030_LUNG)|G12C(LU99_LUNG)|G12C(NCIH1792_LUNG)|G12R(KP2_PANCREAS)|G12C(KHM1B_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12C(NCIH2122_LUNG)|G12C(NCIH358_LUNG)|G12R(PSN1_PANCREAS)|G12C(KYSE410_OESOPHAGUS)|G12S(A549_LUNG)|G12R(HUPT3_PANCREAS)|G12R(TCCPAN2_PANCREAS)|G12C(HCC44_LUNG)|G12S(KMS20_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12C(SW1463_LARGE_INTESTINE)|G12C(NCIH23_LUNG)|G12C(LU65_LUNG)|G12C(NCIH1373_LUNG)|G12C(MIAPACA2_PANCREAS)|G12R(HS274T_BREAST)|G12S(LS123_LARGE_INTESTINE)|G12C(SW1573_LUNG)|G12C(SW837_LARGE_INTESTINE)|G12C(OV56_OVARY)|G12C(IALM_LUNG)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			7	11					0	0	0.00308	0	0		T	25398285	T	T	25398285	3	4	92	1	0	0	0	0	1	0	0	0	8454	594	21	4	672	4	KRAS	12	25398285	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	13064219	25398285	108453610	112	60971											
SYT10	341359	broad.mit.edu	37	chr12	33559774	33559774	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtggcttccctggagagatCagagacttcaaacaaattat	13	11	9	8	0	2	2	2	0	0	2	3	5	3	3	1	2	1	1	1	2	3	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr12:33559774C>G	uc001rll.1	-	3	1324	c.1027G>C	c.(1027-1029)GAT>CAT	p.D343H	SYT10_uc009zju.1_Missense_Mutation_p.D153H	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	343	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					CTGGAGAGATCAGAGACTTCA	0.353													9	63					0	0	0.013537	0	0		G	33559774	G	G	33559774	3	3	92	1	0	0	0	0	1	0	0	0	15491	826	29	5	564	5	SYT10	12	33559774	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	8161489	33559774	100292121	113	60972											
AQP5	362	broad.mit.edu	37	chr12	50358929	50358929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagcagcgggaagagcGgaagaagaccatggagctga	14	2	19	6	2	0	4	0	1	0	3	0	9	0	9	1	5	4	2	1	5	3	0	rs139421403	byFrequency	TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr12:50358929G>A	uc001rvo.2	+	4	1289	c.767G>A	c.(766-768)CGG>CAG	p.R256Q	AQP6_uc001rvp.1_5'Flank|AQP6_uc001rvq.1_5'Flank	NM_001651	NP_001642	P55064	AQP5_HUMAN	aquaporin 5	256	Cytoplasmic (Potential).				carbon dioxide transport|excretion|odontogenesis|pancreatic juice secretion	apical plasma membrane|integral to plasma membrane	protein binding|water channel activity				0						CGGGAAGAGCGGAAGAAGACC	0.592													3	29					0	0	0.004672	0	0		A	50358929	A	A	50358929	3	1	92	1	0	0	0	0	1	0	0	0	829	1116	39	1	781	1	AQP5	12	50358929	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	16799155	50358929	83492966	114	60973											
CDK2	1017	broad.mit.edu	37	chr12	56364997	56364997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agattttagtaaagttgtacCtcccctggatgaagatggac	12	12	10	7	0	0	3	0	1	0	2	1	5	1	5	3	2	1	3	3	2	5	5			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr12:56364997C>T	uc001sit.3	+	6	995	c.758C>T	c.(757-759)CCT>CTT	p.P253L	CDK2_uc001siu.3_Missense_Mutation_p.P219L|CDK2_uc010spy.1_Missense_Mutation_p.P193L|RAB5B_uc001siv.2_5'Flank|RAB5B_uc001siw.2_5'Flank|RAB5B_uc009zog.2_5'Flank|RAB5B_uc010spz.1_5'Flank	NM_001798	NP_001789	P24941	CDK2_HUMAN	cyclin-dependent kinase 2 isoform 1	253	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|blood coagulation|cell division|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA replication|G1/S transition of mitotic cell cycle|G2 phase of mitotic cell cycle|G2/M transition of mitotic cell cycle|histone phosphorylation|M/G1 transition of mitotic cell cycle|mitosis|positive regulation of cell proliferation|Ras protein signal transduction|regulation of DNA replication|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cyclin-dependent protein kinase holoenzyme complex|cytosol	ATP binding|cyclin-dependent protein kinase activity|identical protein binding			stomach(1)|central_nervous_system(1)	2			UCEC - Uterine corpus endometrioid carcinoma (6;0.123)|OV - Ovarian serous cystadenocarcinoma(18;0.235)			AAAGTTGTACCTCCCCTGGAT	0.517													46	594					0	0	0.013114	0	0		T	56364997	T	T	56364997	3	4	92	1	0	0	0	0	1	0	0	0	3139	681	24	4	780	4	CDK2	12	56364997	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	6006068	56364997	77486898	115	60974											
LRP1	4035	broad.mit.edu	37	chr12	57578891	57578891	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaacggctctatcaagcgCgggagcaaagacaatgccac	13	4	11	13	3	2	1	1	0	1	1	2	2	2	2	2	2	4	2	2	2	5	1	rs144748998		TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr12:57578891C>T	uc001snd.2	+	40	6832	c.6366C>T	c.(6364-6366)CGC>CGT	p.R2122R		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	2122	Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CTATCAAGCGCGGGAGCAAAG	0.592													9	155					0	0	0.006214	0	0		T	57578891	T	T	57578891	2	4	92	1	0	0	0	0	0	0	0	1	8969	755	27	1		1	LRP1	12	57578891	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	1213894	57578891	76273004	116	60975											
XPOT	11260	broad.mit.edu	37	chr12	64814012	64814012	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttatgtctcttggatagacTtatcccttatagccaatgat	10	16	6	9	0	1	2	0	1	1	1	3	3	2	3	2	1	1	0	2	1	6	6			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr12:64814012T>G	uc001ssb.2	+	7	1078	c.652T>G	c.(652-654)TTA>GTA	p.L218V	XPOT_uc009zqm.1_Missense_Mutation_p.L128V	NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	218	Necessary for interaction with Ran, nuclear localization and nuclear import.				intracellular protein transport|tRNA export from nucleus	cytoplasm|nucleoplasm	protein transporter activity|tRNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(28;0.0404)		TTGGATAGACTTATCCCTTAT	0.318													20	124					0	0	0.021523	0	0		G	64814012	G	G	64814012	3	3	92	1	0	0	0	0	1	0	0	0	17476	1606	56	5	674	5	XPOT	12	64814012	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	7235121	64814012	69037883	117	60976											
NUP107	57122	broad.mit.edu	37	chr12	69127260	69127260	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcacgaagctgcaaaagaAgtatttgtgaaaattcctca	17	9	8	7	1	1	2	1	1	0	1	2	3	2	2	1	0	3	4	1	0	8	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr12:69127260A>C	uc001suf.2	+	24	2245	c.2130A>C	c.(2128-2130)GAA>GAC	p.E710D	NUP107_uc001sug.2_Missense_Mutation_p.E469D|NUP107_uc010stj.1_Missense_Mutation_p.E681D	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	710					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			CTGCAAAAGAAGTATTTGTGA	0.373													25	366					0	0	0.00632	0	0		C	69127260	C	C	69127260	3	2	92	1	0	0	0	0	1	0	0	0	10772	69	3	5	2224	5	NUP107	12	69127260	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	4313248	69127260	64724635	118	60977											
ACSS3	79611	broad.mit.edu	37	chr12	81472095	81472095	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcgagtacaagacccacTtcgcagcctcggtgaccgac	10	5	11	15	4	0	2	0	1	0	1	2	4	0	2	3	1	3	3	3	1	2	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr12:81472095T>G	uc001szl.1	+	1	287	c.196T>G	c.(196-198)TTC>GTC	p.F66V	ACSS3_uc001szm.1_Missense_Mutation_p.F66V	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	66						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CAAGACCCACTTCGCAGCCTC	0.662													8	34					0	0	0.00308	0	0		G	81472095	G	G	81472095	3	3	92	1	0	0	0	0	1	0	0	0	190	1609	56	5	198	5	ACSS3	12	81472095	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	12344835	81472095	52379800	119	60978											
TMCC3	57458	broad.mit.edu	37	chr12	94972170	94972170	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcacaaagggaaaggtacCtggatgtcccgcgagcgctc	12	6	12	11	3	1	0	1	0	0	0	3	3	2	2	2	3	2	2	2	3	4	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr12:94972170C>T	uc001tdj.2	-	3	1249	c.1131G>A	c.(1129-1131)CAG>CAA	p.Q377Q	TMCC3_uc001tdi.2_Silent_p.Q346Q	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	377	Potential.					integral to membrane				ovary(1)|skin(1)	2						GGAAAGGTACCTGGATGTCCC	0.532													4	61					0	0	0.014758	0	0		T	94972170	T	T	94972170	2	4	92	1	0	0	0	0	0	0	0	1	16019	695	24	4		4	TMCC3	12	94972170	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	13500075	94972170	38879725	120	60979											
NBEA	26960	broad.mit.edu	37	chr13	36125129	36125129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagttgtctatagcttgcctCgggttggagtagggaccagc	8	11	14	8	1	1	0	0	0	1	0	2	2	1	2	2	3	3	4	2	3	4	6			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr13:36125129C>T	uc001uvb.2	+	43	6972	c.6766C>T	c.(6766-6768)CGG>TGG	p.R2256W	NBEA_uc010abi.2_Missense_Mutation_p.R912W|NBEA_uc010tee.1_Missense_Mutation_p.R49W|NBEA_uc010tef.1_Missense_Mutation_p.R49W|NBEA_uc010teg.1_Missense_Mutation_p.R49W	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2256						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TAGCTTGCCTCGGGTTGGAGT	0.358													6	39					0	0	0.00308	0	0		T	36125129	T	T	36125129	3	4	92	1	0	0	0	0	1	0	0	0	10205	875	31	1	6936	1	NBEA	13	36125129	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08		36125129	79044749	121	60980											
SPG20	23111	broad.mit.edu	37	chr13	36888425	36888425	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgctatataaagtcccttGgtgacagctggactaacttc	10	13	8	10	1	0	1	0	1	0	0	3	2	1	2	1	2	2	2	1	2	5	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr13:36888425G>T	uc001uvn.2	-	7	1692	c.1422C>A	c.(1420-1422)ACC>ACA	p.T474T	SPG20_uc010ten.1_Silent_p.T464T|SPG20_uc001uvm.2_Silent_p.T474T|SPG20_uc001uvo.2_Silent_p.T474T|SPG20_uc001uvq.2_Silent_p.T474T	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	474					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		AAAGTCCCTTGGTGACAGCTG	0.423													25	90					2.12542e-12	2.24102e-12	0.00632	1	0		T	36888425	T	T	36888425	2	4	92	1	0	0	0	0	0	0	0	1	15067	1335	47	5		5	SPG20	13	36888425	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	763296	36888425	78281453	122	60981											
OR4L1	122742	broad.mit.edu	37	chr14	20529098	20529098	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaaatgcaagaggccataAgaaaattacggttccaatat	19	8	8	6	1	0	3	0	0	0	3	1	3	1	3	2	2	2	2	2	2	9	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr14:20529098A>C	uc001vwn.1	+	1	895	c.895A>C	c.(895-897)AGA>CGA	p.R299R		NM_001004717	NP_001004717	Q8NH43	OR4L1_HUMAN	olfactory receptor, family 4, subfamily L,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		AGAGGCCATAAGAAAATTACG	0.323													4	61					0	0	0.009096	0	0		C	20529098	C	C	20529098	2	2	92	1	0	0	0	0	0	0	0	1	11093	64	3	5		5	OR4L1	14	20529098	Silent	SNP	A	TCGA-BR-8687-01A-11D-2394-08		20529098	86820442	123	60982											
SALL2	6297	broad.mit.edu	37	chr14	21991766	21991766	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtgacagcattggtgaacTtcttctggcagatggggcag	9	10	15	7	0	2	3	0	2	2	1	2	4	2	3	0	4	2	3	0	4	1	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr14:21991766T>C	uc001wbe.2	-	2	2378	c.2096A>G	c.(2095-2097)AAG>AGG	p.K699R	SALL2_uc010tly.1_Missense_Mutation_p.K697R|SALL2_uc010tlz.1_Missense_Mutation_p.K562R|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Missense_Mutation_p.K564R|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	699	C2H2-type 5.						DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		ATTGGTGAACTTCTTCTGGCA	0.602													29	42					0	0	0.009535	0	0		C	21991766	C	C	21991766	3	2	92	1	0	0	0	0	1	0	0	0	13836	1609	56	3	931	3	SALL2	14	21991766	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	1462668	21991766	85357774	124	60983											
HECTD1	25831	broad.mit.edu	37	chr14	31637631	31637631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcttcatctttgtttgtatCtttctttttcttatcatctc	4	26	2	9	0	8	0	2	0	6	0	9	0	8	0	0	0	0	2	0	0	2	9			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr14:31637631C>T	uc001wrc.1	-	10	1984	c.1495G>A	c.(1495-1497)GAT>AAT	p.D499N	HECTD1_uc001wrd.1_Missense_Mutation_p.D14N	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	499					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		TTGTTTGTATCTTTCTTTTTC	0.328													20	114					0	0	0.008871	0	0		T	31637631	T	T	31637631	3	4	92	1	0	0	0	0	1	0	0	0	7055	913	32	4	6473	4	HECTD1	14	31637631	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	9645865	31637631	75711909	125	60984											
FAM179B	23116	broad.mit.edu	37	chr14	45432035	45432035	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgcaaggaagctttgtaTcgggcactgggccgagtgct	8	8	15	10	4	0	0	0	0	0	0	1	3	0	1	1	3	2	5	1	3	3	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr14:45432035T>C	uc001wvv.2	+	1	620	c.411T>C	c.(409-411)TAT>TAC	p.Y137Y	FAM179B_uc001wvw.2_Silent_p.Y137Y|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvq.2_5'Flank|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Silent_p.Y137Y|FAM179B_uc001wvu.2_Silent_p.Y137Y	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	137							binding			skin(2)|upper_aerodigestive_tract(1)	3						AAGCTTTGTATCGGGCACTGG	0.637													23	117					0	0	0.004656	0	0		C	45432035	C	C	45432035	2	2	92	1	0	0	0	0	0	0	0	1	5517	1442	50	3		3	FAM179B	14	45432035	Silent	SNP	T	TCGA-BR-8687-01A-11D-2394-08	13794404	45432035	61917505	126	60985											
PRKCH	5583	broad.mit.edu	37	chr14	61995851	61995851	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcactgtaaactggcagacTtcggaatgtgcaaggagggg	11	8	15	7	1	1	1	1	0	0	1	2	3	1	3	0	5	2	3	0	5	4	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr14:61995851T>G	uc001xfn.2	+	11	1797	c.1492T>G	c.(1492-1494)TTC>GTC	p.F498V	PRKCH_uc010tsa.1_Missense_Mutation_p.F337V|PRKCH_uc010tsb.1_Missense_Mutation_p.F66V	NM_006255	NP_006246	P24723	KPCL_HUMAN	protein kinase C, eta	498	Protein kinase.				intracellular signal transduction|platelet activation	cytosol|plasma membrane	ATP binding|enzyme binding|metal ion binding|protein kinase C activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|large_intestine(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(108;0.045)|BRCA - Breast invasive adenocarcinoma(234;0.0906)|KIRC - Kidney renal clear cell carcinoma(182;0.182)		ACTGGCAGACTTCGGAATGTG	0.527													7	60					0	0	0.00308	0	0		G	61995851	G	G	61995851	3	3	92	1	0	0	0	0	1	0	0	0	12535	1609	56	5	1534	5	PRKCH	14	61995851	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	16563816	61995851	45353689	127	60986											
MAP3K9	4293	broad.mit.edu	37	chr14	71209259	71209259	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcagttcctcctggttcTtctgctgcagtgcagcccgc	4	11	11	15	1	2	0	0	0	2	0	4	0	4	0	3	1	5	7	3	1	0	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr14:71209259T>G	uc001xmm.2	-	6	1376	c.1376A>C	c.(1375-1377)AAG>ACG	p.K459T	MAP3K9_uc010ttk.1_Missense_Mutation_p.K196T|MAP3K9_uc001xmk.2_Missense_Mutation_p.K153T|MAP3K9_uc001xml.2_Missense_Mutation_p.K459T	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	459					activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		CTCCTGGTTCTTCTGCTGCAG	0.607													3	29					0	0	0.004672	0	0		G	71209259	G	G	71209259	3	3	92	1	0	0	0	0	1	0	0	0	9275	1609	56	5	2012	5	MAP3K9	14	71209259	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	9213408	71209259	36140281	128	60987											
C15orf55	256646	broad.mit.edu	37	chr15	34648354	34648354	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaaggctcttcaggagcCatgtggggagatgacagagg	10	7	18	6	0	2	3	1	1	1	2	2	6	2	5	1	6	1	1	1	6	1	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr15:34648354C>T	uc001zif.2	+	7	2216	c.2061C>T	c.(2059-2061)GCC>GCT	p.A687A	C15orf55_uc010ucc.1_Silent_p.A715A|C15orf55_uc010ucd.1_Silent_p.A705A	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	687						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		CTTCAGGAGCCATGTGGGGAG	0.562			T	BRD3|BRD4	lethal midline carcinoma								19	33					0	0	0.006122	0	0		T	34648354	T	T	34648354	2	4	92	1	0	0	0	0	0	0	0	1	1806	581	21	4		4	C15orf55	15	34648354	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08		34648354	67883038	129	60988											
DNAJC17	55192	broad.mit.edu	37	chr15	41066576	41066576	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccttgacggttgcaaacTccaccacagcagtgcctggc	8	8	10	15	1	0	1	0	1	0	0	1	1	1	1	4	2	5	3	4	2	1	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr15:41066576T>C	uc001zms.1	-	9	670	c.659A>G	c.(658-660)GAG>GGG	p.E220G	DNAJC17_uc010bbz.1_RNA|DNAJC17_uc010bca.1_RNA|DNAJC17_uc010bcb.1_RNA	NM_018163	NP_060633	Q9NVM6	DJC17_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 17	220	RRM.				protein folding		heat shock protein binding|nucleotide binding|RNA binding|unfolded protein binding				0		all_cancers(109;4.16e-14)|all_epithelial(112;9.68e-12)|Lung NSC(122;3.19e-09)|all_lung(180;6.45e-08)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;2.91e-05)|COAD - Colon adenocarcinoma(120;0.153)|BRCA - Breast invasive adenocarcinoma(123;0.166)		GGTTGCAAACTCCACCACAGC	0.577													37	148					0	0	0.007835	0	0		C	41066576	C	C	41066576	3	2	92	1	0	0	0	0	1	0	0	0	4642	1551	54	3	267	3	DNAJC17	15	41066576	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	6418222	41066576	61464816	130	60989											
UBR1	197131	broad.mit.edu	37	chr15	43308000	43308000	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagacatctgagccatgatcTtctggcgatgtagcctagca	10	10	10	11	1	3	3	0	2	3	1	3	4	3	3	2	1	3	2	2	1	2	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr15:43308000T>G	uc001zqq.2	-	29	3161	c.3095A>C	c.(3094-3096)AAG>ACG	p.K1032T	UBR1_uc010udk.1_Missense_Mutation_p.K1032T	NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	1032					cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			lung(1)	1		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		AGCCATGATCTTCTGGCGATG	0.363													6	113					0	0	0.001984	0	0		G	43308000	G	G	43308000	3	3	92	1	0	0	0	0	1	0	0	0	16927	1609	56	5	2230	5	UBR1	15	43308000	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	2241424	43308000	59223392	131	60990											
SLC24A5	283652	broad.mit.edu	37	chr15	48434341	48434341	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggatcagctcctgcagaAgtaaacagcagaggactaac	16	6	10	9	0	1	2	1	0	0	2	2	4	2	4	1	2	5	4	1	2	5	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr15:48434341A>C	uc001zwe.2	+	9	1369	c.1296A>C	c.(1294-1296)GAA>GAC	p.E432D	SLC24A5_uc010bel.2_Missense_Mutation_p.E372D|MYEF2_uc001zwg.3_3'UTR|MYEF2_uc001zwh.3_3'UTR|MYEF2_uc001zwi.3_3'UTR|MYEF2_uc001zwj.3_3'UTR|SLC24A5_uc001zwk.2_Missense_Mutation_p.E63D	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	432	Cytoplasmic (Potential).				response to stimulus	integral to membrane|melanosome|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity				0		all_lung(180;0.00217)		all cancers(107;3.29e-10)|GBM - Glioblastoma multiforme(94;7.32e-07)		CTCCTGCAGAAGTAAACAGCA	0.358													71	63					0	0	0.01441	0	0		C	48434341	C	C	48434341	3	2	92	1	0	0	0	0	1	0	0	0	14494	69	3	5	1330	5	SLC24A5	15	48434341	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	5126341	48434341	54097051	132	60991											
MYEF2	50804	broad.mit.edu	37	chr15	48435202	48435202	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctgattctggggagtcaAatctgactgttccacagcct	9	11	10	11	0	3	2	1	2	2	0	4	3	4	3	2	2	2	2	2	2	1	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr15:48435202A>C	uc001zwi.3	-	17	1830	c.1706T>G	c.(1705-1707)TTT>TGT	p.F569C	MYEF2_uc001zwg.3_Missense_Mutation_p.F107C|MYEF2_uc001zwh.3_Missense_Mutation_p.F157C|MYEF2_uc001zwj.3_Missense_Mutation_p.F545C	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	569	RRM 3.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		TGGGGAGTCAAATCTGACTGT	0.358													17	56					0	0	0.00499	0	0		C	48435202	C	C	48435202	3	2	92	1	0	0	0	0	1	0	0	0	10042	14	1	5	100	5	MYEF2	15	48435202	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	861	48435202	54096190	133	60992											
MYO9A	4649	broad.mit.edu	37	chr15	72244202	72244202	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagctaaaactatccatacTtttcaaaattgcacatggcg	16	11	5	9	1	1	0	1	0	0	0	2	0	2	0	1	1	4	2	1	1	7	6			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr15:72244202T>G	uc002atl.3	-	15	2691	c.2218A>C	c.(2218-2220)AGT>CGT	p.S740R	MYO9A_uc010biq.2_Missense_Mutation_p.S335R|MYO9A_uc002atn.1_Missense_Mutation_p.S721R	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	740					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						CTATCCATACTTTTCAAAATT	0.348													24	107					0	0	0.004656	0	0		G	72244202	G	G	72244202	3	3	92	1	0	0	0	0	1	0	0	0	10102	1609	56	5	5540	5	MYO9A	15	72244202	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	23809000	72244202	30287190	134	60993											
PKD1	5310	broad.mit.edu	37	chr16	2140438	2140438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagcccccagccgtagggCgccccacagccgcagtgccc	8	2	11	20	3	0	0	0	0	0	0	0	0	0	0	7	1	5	2	7	1	2	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr16:2140438C>T	uc002cos.1	-	45	12501	c.12292G>A	c.(12292-12294)GCC>ACC	p.A4098T	PKD1_uc002cot.1_Missense_Mutation_p.A4097T|MIR1225_hsa-mir-1225|MI0006311_5'Flank	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	4098	Helical; (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AGCCGTAGGGCGCCCCACAGC	0.682													5	21					0	0	0.014758	0	0		T	2140438	T	T	2140438	3	4	92	1	0	0	0	0	1	0	0	0	11982	768	27	1	627	1	PKD1	16	2140438	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08		2140438	88214315	135	60994											
PDILT	204474	broad.mit.edu	37	chr16	20371934	20371934	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgatgtggctttccaggaAgtcagagaagcccttcaggg	9	11	13	8	0	2	2	2	1	0	1	3	4	3	3	2	3	1	1	2	3	2	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr16:20371934A>G	uc002dhc.1	-	11	1685	c.1462T>C	c.(1462-1464)TTC>CTC	p.F488L		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	488					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						CTTTCCAGGAAGTCAGAGAAG	0.478													45	119					0	0	0.011902	0	0		G	20371934	G	G	20371934	3	3	92	1	0	0	0	0	1	0	0	0	11693	72	3	3	300	3	PDILT	16	20371934	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	18231496	20371934	69982819	136	60995											
ACSM2B	348158	broad.mit.edu	37	chr16	20566689	20566689	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagatgccactgtgtccacTtcttggatgacttcatcccc	7	13	7	14	0	3	2	2	1	1	1	5	3	5	3	4	1	1	0	4	1	0	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr16:20566689T>C	uc002dhj.3	-	5	708	c.498A>G	c.(496-498)GAA>GAG	p.E166E	ACSM2B_uc002dhk.3_Silent_p.E166E|ACSM2B_uc010bwf.1_Silent_p.E166E	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	166					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						CTGTGTCCACTTCTTGGATGA	0.448													50	168					0	0	0.01441	0	0		C	20566689	C	C	20566689	2	2	92	1	0	0	0	0	0	0	0	1	184	1606	56	3		3	ACSM2B	16	20566689	Silent	SNP	T	TCGA-BR-8687-01A-11D-2394-08	194755	20566689	69788064	137	60996											
ACSM1	116285	broad.mit.edu	37	chr16	20702409	20702409	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccatcttggggctccaaaTtctgataaagaccggcagcg	10	10	10	11	2	2	2	0	1	2	1	4	2	4	2	3	3	1	2	3	3	3	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr16:20702409T>G	uc002dhm.1	-	1	170	c.102A>C	c.(100-102)GAA>GAC	p.E34D	ACSM1_uc002dhn.1_RNA|ACSM1_uc010bwg.1_Missense_Mutation_p.E34D	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	34					benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						GGGCTCCAAATTCTGATAAAG	0.498													55	125					0	0	0.01441	0	0		G	20702409	G	G	20702409	3	3	92	1	0	0	0	0	1	0	0	0	182	1490	52	5	1683	5	ACSM1	16	20702409	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	135720	20702409	69652344	138	60997											
ACSM3	6296	broad.mit.edu	37	chr16	20808246	20808246	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgccaaagactatcagtggGaagacaaaaagaaatgaact	19	6	9	7	0	1	4	1	1	0	3	1	5	1	5	1	1	2	0	1	1	7	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr16:20808246G>A	uc002dhr.2	+	14	1900	c.1713G>A	c.(1711-1713)GGG>GGA	p.G571G	ERI2_uc002dht.3_3'UTR|ACSM3_uc010vba.1_Silent_p.G600G|ERI2_uc002dhs.2_Intron|ERI2_uc010vbb.1_3'UTR|ERI2_uc010bwh.2_3'UTR|ERI2_uc010vbc.1_3'UTR|ERI2_uc002dhu.1_3'UTR	NM_005622	NP_005613	Q53FZ2	ACSM3_HUMAN	SA hypertension-associated homolog isoform 1	571					regulation of blood pressure	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			ovary(1)	1						CTATCAGTGGGAAGACAAAAA	0.318													15	56					0	0	0.004007	0	0		A	20808246	A	A	20808246	2	1	92	1	0	0	0	0	0	0	0	1	185	1161	41	4		4	ACSM3	16	20808246	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	105837	20808246	69546507	139	60998											
HEATR3	55027	broad.mit.edu	37	chr16	50106621	50106621	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgttgacctggctatttcAgtaggtaagtgaagaaaagg	14	11	12	4	0	1	3	1	2	0	1	1	3	1	3	1	3	0	4	1	3	7	5			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr16:50106621A>G	uc002efw.2	+	5	780	c.618A>G	c.(616-618)TCA>TCG	p.S206S	HEATR3_uc002efx.2_Silent_p.S120S	NM_182922	NP_891552	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3	206							binding			ovary(1)|skin(1)	2						TGGCTATTTCAGTAGGTAAGT	0.358													6	36					0	0	0.001168	0	0		G	50106621	G	G	50106621	2	3	92	1	0	0	0	0	0	0	0	1	7045	175	7	3		3	HEATR3	16	50106621	Silent	SNP	A	TCGA-BR-8687-01A-11D-2394-08	29298375	50106621	40248132	140	60999											
CHD9	80205	broad.mit.edu	37	chr16	53243432	53243432	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcgatggttctgggacataTactaagttgcagaataccca	13	10	10	8	1	1	1	0	0	1	1	1	3	1	2	1	2	4	3	1	2	5	6			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr16:53243432T>C	uc002ehb.2	+	2	1655	c.1491T>C	c.(1489-1491)TAT>TAC	p.Y497Y	CHD9_uc002egy.2_Silent_p.Y497Y|CHD9_uc002egz.1_Silent_p.Y497Y|CHD9_uc002eha.1_Silent_p.Y497Y|CHD9_uc002ehc.2_Silent_p.Y497Y|CHD9_uc002ehd.2_Silent_p.Y23Y	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	497					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				CTGGGACATATACTAAGTTGC	0.363													7	18					0	0	0.001984	0	0		C	53243432	C	C	53243432	2	2	92	1	0	0	0	0	0	0	0	1	3335	1413	49	3		3	CHD9	16	53243432	Silent	SNP	T	TCGA-BR-8687-01A-11D-2394-08	3136811	53243432	37111321	141	61000											
PLA2G15	23659	broad.mit.edu	37	chr16	68289889	68289889	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaccctgcgcgtcctggcTtcaggtaagaccctacctgg	8	8	11	14	2	1	2	1	0	0	2	2	2	2	2	4	3	2	2	4	3	3	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr16:68289889T>G	uc002evr.2	+	5	806	c.723T>G	c.(721-723)GCT>GCG	p.A241A	PLA2G15_uc010vld.1_Missense_Mutation_p.F200V|PLA2G15_uc010vle.1_Silent_p.A147A|PLA2G15_uc010vlf.1_Intron|PLA2G15_uc002evs.2_Silent_p.A62A	NM_012320	NP_036452	Q8NCC3	PAG15_HUMAN	lysophospholipase 3 (lysosomal phospholipase A2)	241					fatty acid catabolic process	extracellular region|lysosome	lysophospholipase activity|phosphatidylcholine-sterol O-acyltransferase activity|phospholipid binding			ovary(1)	1						GCGTCCTGGCTTCAGGTAAGA	0.652													5	5					0	0	0.014758	0	0		G	68289889	G	G	68289889	2	3	92	1	0	0	0	0	0	0	0	1	12011	1596	56	5		5	PLA2G15	16	68289889	Silent	SNP	T	TCGA-BR-8687-01A-11D-2394-08	15046457	68289889	22064864	142	61001											
HYDIN	54768	broad.mit.edu	37	chr16	70917971	70917971	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgacctgctgtcctccGgaaggaatggagccaaaccc	10	8	11	12	1	0	2	0	2	0	0	2	5	2	5	5	3	3	1	5	3	3	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr16:70917971G>A	uc002ezr.2	-	59	9956	c.9828C>T	c.(9826-9828)TCC>TCT	p.S3276S		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3277										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GCTGTCCTCCGGAAGGAATGG	0.587													4	9					0	0	0.009096	0	0		A	70917971	A	A	70917971	2	1	92	1	0	0	0	0	0	0	0	1	7483	1103	39	1		1	HYDIN	16	70917971	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	2628082	70917971	19436782	143	61002											
TRPV3	162514	broad.mit.edu	37	chr17	3447882	3447882	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcagacttacctggggctgTtgggattggatggggtctct	5	12	17	7	0	1	1	0	0	1	1	2	3	1	3	1	7	1	3	1	7	1	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr17:3447882T>C	uc002fvt.1	-	4	624	c.302A>G	c.(301-303)AAC>AGC	p.N101S	TRPV3_uc010vrh.1_Missense_Mutation_p.N85S|TRPV3_uc010vri.1_Intron|TRPV3_uc010vrj.1_Missense_Mutation_p.N85S|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Missense_Mutation_p.N85S|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Missense_Mutation_p.N101S|TRPV3_uc002fvu.2_Missense_Mutation_p.N101S	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	101	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	CCTGGGGCTGTTGGGATTGGA	0.617													10	12					0	0	0.008291	0	0		C	3447882	C	C	3447882	3	2	92	1	0	0	0	0	1	0	0	0	16623	1725	60	3	2130	3	TRPV3	17	3447882	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08		3447882	77747328	144	61003											
PIK3R6	146850	broad.mit.edu	37	chr17	8731507	8731507	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aacttctgggtctcccgtttCctagcaatgggcagcaaagc	9	10	10	12	1	2	0	0	0	2	0	4	0	3	0	2	2	4	4	2	2	4	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr17:8731507C>T	uc002glq.1	-	12	1554	c.1314G>A	c.(1312-1314)AGG>AGA	p.R438R	PIK3R6_uc002glr.1_RNA|PIK3R6_uc002gls.1_RNA	NM_001010855	NP_001010855	Q5UE93	PI3R6_HUMAN	phosphoinositide-3-kinase, regulatory subunit 6	438					platelet activation	cytosol					0						TCTCCCGTTTCCTAgcaatgg	0.328													34	15					0	0	0.015359	0	0		T	8731507	T	T	8731507	2	4	92	1	0	0	0	0	0	0	0	1	11942	869	30	4		4	PIK3R6	17	8731507	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	5283625	8731507	72463703	145	61004											
GAS7	8522	broad.mit.edu	37	chr17	9837496	9837496	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggttaccttggcagagaacTtgaggtgaacttctgcttcg	8	12	13	8	1	1	3	0	2	1	1	2	4	1	3	1	3	4	3	1	3	3	5			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr17:9837496T>G	uc002gmg.1	-	9	1033	c.872A>C	c.(871-873)AAG>ACG	p.K291T	GAS7_uc010vvc.1_Missense_Mutation_p.K105T|GAS7_uc002gmh.1_Missense_Mutation_p.K151T|GAS7_uc010vvd.1_Missense_Mutation_p.K243T|GAS7_uc002gmi.2_Missense_Mutation_p.K227T|GAS7_uc002gmj.1_Missense_Mutation_p.K231T|GAS7_uc010coh.1_Missense_Mutation_p.K231T	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	291					cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						GGCAGAGAACTTGAGGTGAAC	0.428			T	MLL	AML*								3	29					0	0	0.004672	0	0		G	9837496	G	G	9837496	3	3	92	1	0	0	0	0	1	0	0	0	6265	1609	56	5	582	5	GAS7	17	9837496	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	1105989	9837496	71357714	146	61005											
SUPT6H	6830	broad.mit.edu	37	chr17	27010097	27010097	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttaaatataacccccaccaAgaaaggtagaaaggtgagct	17	7	9	8	0	0	3	0	1	0	2	0	3	0	3	3	2	2	3	3	2	8	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr17:27010097A>G	uc002hby.2	+	15	1955	c.1865A>G	c.(1864-1866)AAG>AGG	p.K622R	SUPT6H_uc010crt.2_Missense_Mutation_p.K622R	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	622					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					ACCCCCACCAAGAAAGGTAGA	0.517													3	30					0	0	0.004672	0	0		G	27010097	G	G	27010097	3	3	92	1	0	0	0	0	1	0	0	0	15425	72	3	3	1919	3	SUPT6H	17	27010097	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	17172601	27010097	54185113	147	61006											
SUPT6H	6830	broad.mit.edu	37	chr17	27014227	27014227	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagacatcctgtgtctcaAgtttcaccccttgcaggtga	9	12	9	11	0	2	3	2	2	1	1	4	3	3	3	3	1	1	2	3	1	2	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr17:27014227A>G	uc002hby.2	+	22	2912	c.2822A>G	c.(2821-2823)AAG>AGG	p.K941R	SUPT6H_uc010crt.2_Missense_Mutation_p.K941R|SUPT6H_uc002hbz.1_5'Flank	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	941					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					CTGTGTCTCAAGTTTCACCCC	0.562													52	126					0	0	0.01441	0	0		G	27014227	G	G	27014227	3	3	92	1	0	0	0	0	1	0	0	0	15425	72	3	3	2904	3	SUPT6H	17	27014227	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	4130	27014227	54180983	148	61007											
PHF12	57649	broad.mit.edu	37	chr17	27240011	27240011	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggttttcttggatttttcCgcacaagaactgcagccgat	8	13	11	9	2	1	1	0	0	1	1	2	3	2	2	2	3	3	3	2	3	2	5	rs147697011	byFrequency	TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr17:27240011C>T	uc002hdg.1	-	9	2108	c.1578G>A	c.(1576-1578)GCG>GCA	p.A526A	PHF12_uc010wbb.1_Silent_p.A508A|PHF12_uc002hdi.1_Silent_p.A522A|PHF12_uc002hdj.1_Silent_p.A526A|PHF12_uc010crw.1_Silent_p.A229A|PHF12_uc002hdh.1_Silent_p.A309A	NM_001033561	NP_001028733	Q96QT6	PHF12_HUMAN	PHD finger protein 12 isoform 1	526	Interaction with SIN3A.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	protein binding|zinc ion binding			ovary(1)	1	all_cancers(5;1.95e-14)|all_epithelial(6;5e-18)|Lung NSC(42;0.01)		Epithelial(11;1.64e-05)|all cancers(11;7.47e-05)|BRCA - Breast invasive adenocarcinoma(11;9.79e-05)			TGGATTTTTCCGCACAAGAAC	0.562													22	108					0	0	0.012319	0	0		T	27240011	T	T	27240011	2	4	92	1	0	0	0	0	0	0	0	1	11842	639	23	1		1	PHF12	17	27240011	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	225784	27240011	53955199	149	61008											
SSH2	85464	broad.mit.edu	37	chr17	27963194	27963194	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgggagagctccacaaacTtctctagggcactaaaaaag	14	8	9	10	0	1	1	0	0	1	1	3	2	2	1	1	2	2	2	1	2	5	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr17:27963194T>G	uc002heo.1	-	14	1973	c.1973A>C	c.(1972-1974)AAG>ACG	p.K658T	SSH2_uc010wbh.1_Missense_Mutation_p.K685T	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	658					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						CTCCACAAACTTCTCTAGGGC	0.498													63	54					0	0	0.01441	0	0		G	27963194	G	G	27963194	3	3	92	1	0	0	0	0	1	0	0	0	15210	1609	56	5	2306	5	SSH2	17	27963194	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	723183	27963194	53232016	150	61009											
KIF2B	84643	broad.mit.edu	37	chr17	51900831	51900831	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtctgatgaagcagaaaaAgtctccctgcctctgggaaa	12	10	10	9	0	3	3	0	2	3	1	4	4	3	4	2	1	2	1	2	1	4	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr17:51900831A>T	uc002iua.2	+	1	593	c.437A>T	c.(436-438)AAG>ATG	p.K146M	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	146					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						AAGCAGAAAAAGTCTCCCTGC	0.562													7	77					0	0	0.001984	0	0		T	51900831	T	T	51900831	3	4	92	1	0	0	0	0	1	0	0	0	8314	72	3	5	439	5	KIF2B	17	51900831	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	23937637	51900831	29294379	151	61010											
CSH1	1442	broad.mit.edu	37	chr17	61972437	61972437	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccatgcgcaggaatgtcTcgaccttgtccatgtccttc	7	11	9	14	2	1	0	0	0	1	0	5	2	3	1	4	1	1	2	4	1	1	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr17:61972437T>C	uc002jcs.1	-	5	715	c.599A>G	c.(598-600)GAG>GGG	p.E200G	CSH2_uc002jck.2_Intron|CSH1_uc002jcp.1_3'UTR|CSH1_uc002jcq.1_Missense_Mutation_p.E161G|CSH1_uc002jcr.1_3'UTR|CSH1_uc002jct.1_Missense_Mutation_p.E166G|CSH1_uc002jcu.1_3'UTR|CSH1_uc002jcv.1_Missense_Mutation_p.E105G|CSH1_uc002jcw.2_3'UTR	NM_001317	NP_001308	P01243	CSH_HUMAN	chorionic somatomammotropin hormone 1 isoform 1	200		Zinc.			female pregnancy|signal transduction	extracellular region	hormone activity|metal ion binding			skin(1)	1						CAGGAATGTCTCGACCTTGTC	0.577									Russell-Silver_syndrome				17	103					0	0	0.007413	0	0		C	61972437	C	C	61972437	3	2	92	1	0	0	0	0	1	0	0	0	3943	1551	54	3	58	3	CSH1	17	61972437	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	10071606	61972437	19222773	152	61011											
HELZ	9931	broad.mit.edu	37	chr17	65157118	65157118	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggcggcagctggattgcaAgtggagtggtaatggccaga	10	7	17	7	1	0	1	0	0	0	1	0	3	0	3	1	6	2	4	1	6	2	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr17:65157118A>G	uc010wqk.1	-	16	2157	c.1970T>C	c.(1969-1971)CTT>CCT	p.L657P	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.L657P	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					CTGGATTGCAAGTGGAGTGGT	0.448													5	43					0	0	0.00308	0	0		G	65157118	G	G	65157118	3	3	92	1	0	0	0	0	1	0	0	0	7065	72	3	3	3930	3	HELZ	17	65157118	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	3184681	65157118	16038092	153	61012											
RNF213	57674	broad.mit.edu	37	chr17	78357495	78357495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agcatctagataaaacccttCccaccatgaataatctcatc	15	10	3	13	0	2	2	1	1	2	1	5	2	3	2	3	0	2	1	3	0	5	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr17:78357495C>T	uc002jyh.1	+	34	8531	c.8308C>T	c.(8308-8310)CCC>TCC	p.P2770S	uc002jyi.1_Intron|RNF213_uc010dhx.1_5'Flank	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TAAAACCCTTCCCACCATGAA	0.433													11	74					0	0	0.013537	0	0		T	78357495	T	T	78357495	3	4	92	1	0	0	0	0	1	0	0	0	13502	855	30	4	14638	4	RNF213	17	78357495	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	13200377	78357495	2837715	154	61013											
LAMA3	3909	broad.mit.edu	37	chr18	21464785	21464785	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagacgtgcggtgctcctgCaaagctgggtacacaggaac	10	6	15	10	2	0	1	0	0	0	1	1	3	1	2	1	4	6	4	1	4	3	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr18:21464785C>T	uc002kuq.2	+	41	5357	c.5271C>T	c.(5269-5271)TGC>TGT	p.C1757C	LAMA3_uc002kur.2_Silent_p.C1757C|LAMA3_uc002kus.3_Silent_p.C148C|LAMA3_uc002kut.3_Silent_p.C148C	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1757	Laminin EGF-like 14.|Domain III A.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGTGCTCCTGCAAAGCTGGGT	0.587													16	117					0	0	0.004007	0	0		T	21464785	T	T	21464785	2	4	92	1	0	0	0	0	0	0	0	1	8623	718	25	2		2	LAMA3	18	21464785	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08		21464785	56612463	155	61014											
NWD1	284434	broad.mit.edu	37	chr19	16860249	16860249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgctacctgaaggagctgGgtgagcagtttgtggtgagg	7	10	17	7	0	0	3	0	3	0	0	0	4	0	4	2	4	4	4	2	4	2	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:16860249G>A	uc002neu.3	+	6	1218	c.796G>A	c.(796-798)GGT>AGT	p.G266S	NWD1_uc002net.3_Missense_Mutation_p.G131S|NWD1_uc002nev.3_Missense_Mutation_p.G60S			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	266							ATP binding			skin(3)|ovary(2)|pancreas(2)	7						GAAGGAGCTGGGTGAGCAGTT	0.617													15	33					0	0	0.020292	0	0		A	16860249	A	A	16860249	3	1	92	1	0	0	0	0	1	0	0	0	10800	1232	43	4	397	4	NWD1	19	16860249	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08		16860249	42268734	156	61015											
ZNF569	148266	broad.mit.edu	37	chr19	37905139	37905139	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctaaacactttccaaataAgtcatactcatagagattgt	15	14	4	8	0	3	1	2	0	1	1	4	2	4	1	1	0	2	0	1	0	6	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:37905139A>G	uc002ogi.2	-	6	979	c.421T>C	c.(421-423)TTA>CTA	p.L141L	ZNF569_uc002ogh.2_5'UTR|ZNF569_uc002ogj.2_Silent_p.L165L	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	141					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTTCCAAATAAGTCATACTCA	0.318													17	38					0	0	0.00499	0	0		G	37905139	G	G	37905139	2	3	92	1	0	0	0	0	0	0	0	1	18025	69	3	3		3	ZNF569	19	37905139	Silent	SNP	A	TCGA-BR-8687-01A-11D-2394-08	21044890	37905139	21223844	157	61016											
SPTBN4	57731	broad.mit.edu	37	chr19	41077980	41077980	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggaactgggcttctacaagGactccaagggcccggcatcc	9	6	13	13	1	1	0	0	0	1	0	3	2	3	2	3	5	2	2	3	5	4	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:41077980G>T	uc002ony.2	+	34	7461	c.7375G>T	c.(7375-7377)GAC>TAC	p.D2459Y	SPTBN4_uc002onz.2_Missense_Mutation_p.D2459Y|SPTBN4_uc010egx.2_Missense_Mutation_p.D1202Y	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	2459	PH.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CTTCTACAAGGACTCCAAGGG	0.602													72	144					3.39796e-24	3.70686e-24	0.01441	1	0		T	41077980	T	T	41077980	3	4	92	1	0	0	0	0	1	0	0	0	15146	1174	41	5	7599	5	SPTBN4	19	41077980	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	3172841	41077980	18051003	158	61017											
PSG6	5675	broad.mit.edu	37	chr19	43411761	43411761	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgactgggttactgcggaTgccaccatatcggtcccgta	7	10	13	11	3	0	1	0	1	0	0	2	2	1	2	3	4	3	2	3	4	3	3	rs144117726	byFrequency	TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:43411761T>C	uc002ovj.1	-	4	1004	c.952A>G	c.(952-954)ATC>GTC	p.I318V	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Missense_Mutation_p.I325V|PSG6_uc002ovi.2_Missense_Mutation_p.I319V|PSG6_uc010xwk.1_Missense_Mutation_p.I158V|PSG11_uc002ovk.1_Intron|PSG6_uc002ove.1_Missense_Mutation_p.I108V|PSG6_uc002ovf.1_Intron|PSG6_uc002ovg.1_Missense_Mutation_p.I318V	NM_002782	NP_002773	Q00889	PSG6_HUMAN	pregnancy specific beta-1-glycoprotein 6 isoform	318	Ig-like C2-type 2.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				TTACTGCGGATGCCACCATAT	0.507													29	121					0	0	0.007291	0	0		C	43411761	C	C	43411761	3	2	92	1	0	0	0	0	1	0	0	0	12681	1464	51	3	406	3	PSG6	19	43411761	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	2333781	43411761	15717222	159	61018											
PSG4	5672	broad.mit.edu	37	chr19	43699390	43699390	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttattctctctggggtttaAgttgttgattgtgatgtagg	6	19	12	4	0	2	2	0	2	2	0	3	2	2	2	0	3	0	4	0	3	3	8			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:43699390A>G	uc002ovy.2	-	4	847	c.745T>C	c.(745-747)TTA>CTA	p.L249L	PSG6_uc010xwk.1_Intron|PSG4_uc002owa.2_RNA|PSG4_uc002owb.2_Silent_p.L156L|PSG4_uc002ovz.2_Intron	NM_002780	NP_002771	Q00888	PSG4_HUMAN	pregnancy specific beta-1-glycoprotein 4 isoform	249	Ig-like C2-type 2.				defense response|female pregnancy	extracellular region				ovary(1)	1		Prostate(69;0.00682)				CTGGGGTTTAAGTTGTTGATT	0.453													55	163					0	0	0.01441	0	0		G	43699390	G	G	43699390	2	3	92	1	0	0	0	0	0	0	0	1	12679	69	3	3		3	PSG4	19	43699390	Silent	SNP	A	TCGA-BR-8687-01A-11D-2394-08	287629	43699390	15429593	160	61019											
IRGC	56269	broad.mit.edu	37	chr19	44223718	44223718	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccgctccccactggccaaCgaggtctcgcctgagactgt	7	8	10	16	3	1	1	0	1	1	1	4	3	3	1	5	2	1	1	5	2	1	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:44223718C>T	uc002oxh.2	+	2	1155	c.1008C>T	c.(1006-1008)AAC>AAT	p.N336N		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	336						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				CACTGGCCAACGAGGTCTCGC	0.662													5	23					0	0	0.014758	0	0		T	44223718	T	T	44223718	2	4	92	1	0	0	0	0	0	0	0	1	7854	535	19	1		1	IRGC	19	44223718	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	524328	44223718	14905265	161	61020											
PRKD2	25865	broad.mit.edu	37	chr19	47197269	47197269	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggagtcccgccaggcatcTcgcccacgaagtaggtggca	8	5	13	15	4	1	0	0	0	1	0	3	2	2	1	4	4	0	3	4	4	2	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:47197269T>C	uc002pfh.2	-	11	1781	c.1439A>G	c.(1438-1440)GAG>GGG	p.E480G	PRKD2_uc010ekt.2_5'Flank|PRKD2_uc002pfe.2_5'UTR|PRKD2_uc002pff.2_5'UTR|PRKD2_uc002pfg.2_Missense_Mutation_p.E323G|PRKD2_uc002pfi.2_Missense_Mutation_p.E480G|PRKD2_uc002pfj.2_Missense_Mutation_p.E480G|PRKD2_uc010xye.1_Missense_Mutation_p.E480G|PRKD2_uc002pfk.2_Missense_Mutation_p.E323G	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	480	PH.				cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		GCCAGGCATCTCGCCCACGAA	0.672													5	43					0	0	0.001168	0	0		C	47197269	C	C	47197269	3	2	92	1	0	0	0	0	1	0	0	0	12541	1551	54	3	1233	3	PRKD2	19	47197269	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	2973551	47197269	11931714	162	61021											
PRKD2	25865	broad.mit.edu	37	chr19	47207786	47207786	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcagggcagggactcggagGtgccgaggcgcaccgagtgg	7	4	20	10	4	0	0	0	0	0	0	1	4	0	2	2	6	2	3	2	6	0	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:47207786G>T	uc002pfh.2	-	5	974	c.632C>A	c.(631-633)ACC>AAC	p.T211N	PRKD2_uc002pfg.2_Missense_Mutation_p.T54N|PRKD2_uc002pfi.2_Missense_Mutation_p.T211N|PRKD2_uc002pfj.2_Missense_Mutation_p.T211N|PRKD2_uc010xye.1_Missense_Mutation_p.T211N|PRKD2_uc002pfk.2_Missense_Mutation_p.T54N	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	211					cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		GGACTCGGAGGTGCCGAGGCG	0.662											OREG0025578	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	27					0.000151284	0.000154974	0.016723	1	0		T	47207786	T	T	47207786	3	4	92	1	0	0	0	0	1	0	0	0	12541	1261	44	5	2064	5	PRKD2	19	47207786	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	10517	47207786	11921197	163	61022											
PPFIA3	8541	broad.mit.edu	37	chr19	49652922	49652922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccaactttcgttcggctgCagcgggagccctgggctctc	4	9	12	16	3	1	0	0	0	1	0	4	1	1	1	3	3	4	4	3	3	1	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:49652922C>T	uc002pmr.2	+	28	3805	c.3473C>T	c.(3472-3474)GCA>GTA	p.A1158V	PPFIA3_uc010yai.1_RNA|PPFIA3_uc002pms.2_Missense_Mutation_p.A1017V|PPFIA3_uc002pmt.2_Missense_Mutation_p.A297V|PPFIA3_uc002pmu.1_Missense_Mutation_p.A207V	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	1158						cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		CGTTCGGCTGCAGCGGGAGCC	0.657													7	25					0	0	0.001984	0	0		T	49652922	T	T	49652922	3	4	92	1	0	0	0	0	1	0	0	0	12330	710	25	2	3579	2	PPFIA3	19	49652922	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	2445136	49652922	9476061	164	61023											
LILRB1	10859	broad.mit.edu	37	chr19	55144500	55144500	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtctccctctcggtgcAgccgggccccacggtggcct	4	7	13	17	3	2	1	0	0	2	1	4	1	2	1	5	4	2	1	5	4	0	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:55144500A>T	uc002qgj.2	+	8	1332	c.992A>T	c.(991-993)CAG>CTG	p.Q331L	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Missense_Mutation_p.Q331L|LILRB1_uc002qgk.2_Missense_Mutation_p.Q331L|LILRB1_uc002qgm.2_Missense_Mutation_p.Q331L|LILRB1_uc010erq.2_Missense_Mutation_p.Q331L|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	331	Ig-like C2-type 4.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		CTCTCGGTGCAGCCGGGCCCC	0.607										HNSCC(37;0.09)			5	66					0	0	0.001168	0	0		T	55144500	T	T	55144500	3	4	92	1	0	0	0	0	1	0	0	0	8806	188	7	5	1014	5	LILRB1	19	55144500	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	5491578	55144500	3984483	165	61024											
TNNI3	7137	broad.mit.edu	37	chr19	55665449	55665449	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggtgggcccgcaggtccagGgactccttagcccgggcccc	5	5	15	16	2	0	0	0	0	0	0	2	1	2	1	6	5	1	1	6	5	1	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:55665449G>A	uc002qjg.3	-	7	498	c.498C>T	c.(496-498)TCC>TCT	p.S166S	TNNI3_uc010yft.1_Silent_p.S158S	NM_000363	NP_000354	P19429	TNNI3_HUMAN	troponin I, cardiac	166			S -> F (in CMH7).		cardiac muscle contraction|cellular calcium ion homeostasis|muscle filament sliding|negative regulation of ATPase activity|regulation of systemic arterial blood pressure by ischemic conditions|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin binding|calcium channel inhibitor activity|calcium-dependent protein binding|protein domain specific binding|protein kinase binding|troponin C binding|troponin T binding			lung(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		GCAGGTCCAGGGACTCCTTAG	0.617													31	61					0	0	0.009535	0	0		A	55665449	A	A	55665449	2	1	92	1	0	0	0	0	0	0	0	1	16353	1219	43	4		4	TNNI3	19	55665449	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	520949	55665449	3463534	166	61025											
NLRP4	147945	broad.mit.edu	37	chr19	56370116	56370116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctacgtgttcctccacGtgtgtatccaggagttctgt	5	14	10	12	2	1	0	0	0	1	0	5	1	5	1	4	1	1	4	4	1	2	4	rs140761924		TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:56370116G>A	uc002qmd.3	+	3	1779	c.1357G>A	c.(1357-1359)GTG>ATG	p.V453M	NLRP4_uc002qmf.2_Missense_Mutation_p.V378M|NLRP4_uc010etf.2_Missense_Mutation_p.V284M	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	453	NACHT.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		GTTCCTCCACGTGTGTATCCA	0.537													33	89					0	0	0.012213	0	0		A	56370116	A	A	56370116	3	1	92	1	0	0	0	0	1	0	0	0	10498	1145	40	1	1363	1	NLRP4	19	56370116	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	704667	56370116	2758867	167	61026											
NLRP8	126205	broad.mit.edu	37	chr19	56467184	56467184	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcggtaataagaggaaacTgctgaaagtcatacctctgt	13	12	9	7	1	2	2	1	1	1	1	3	3	2	3	1	2	3	2	1	2	5	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:56467184T>C	uc002qmh.2	+	3	1831	c.1760T>C	c.(1759-1761)CTG>CCG	p.L587P	NLRP8_uc010etg.2_Missense_Mutation_p.L587P	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	587						cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		AAGAGGAAACTGCTGAAAGTC	0.502													16	22					0	0	0.004007	0	0		C	56467184	C	C	56467184	3	2	92	1	0	0	0	0	1	0	0	0	10502	1580	55	3	1770	3	NLRP8	19	56467184	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	97068	56467184	2661799	168	61027											
NLRP8	126205	broad.mit.edu	37	chr19	56467229	56467229	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatgtgacccaccttctcCgggcagtggggtcccgcagt	7	9	12	13	2	1	1	0	1	1	0	3	1	2	1	4	3	0	2	4	3	2	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:56467229C>T	uc002qmh.2	+	3	1876	c.1805C>T	c.(1804-1806)CCG>CTG	p.P602L	NLRP8_uc010etg.2_Missense_Mutation_p.P602L	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	602						cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		CCACCTTCTCCGGGCAGTGGG	0.468													11	37					0	0	0.013537	0	0		T	56467229	T	T	56467229	3	4	92	1	0	0	0	0	1	0	0	0	10502	652	23	1	1815	1	NLRP8	19	56467229	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	45	56467229	2661754	169	61028											
ZNF135	7694	broad.mit.edu	37	chr19	58578360	58578360	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgggtttggggaaaacataAgtctgaaccctgatctccca	12	10	10	9	0	2	2	0	2	2	0	3	3	2	3	2	3	2	1	2	3	4	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:58578360A>C	uc010yhq.1	+	5	640	c.544A>C	c.(544-546)AGT>CGT	p.S182R	ZNF135_uc002qre.2_Missense_Mutation_p.S170R|ZNF135_uc002qrd.1_Missense_Mutation_p.S128R|ZNF135_uc002qrf.2_Missense_Mutation_p.S128R|ZNF135_uc002qrg.2_Missense_Mutation_p.S140R|ZNF135_uc010yhr.1_5'UTR	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	182					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		GGAAAACATAAGTCTGAACCC	0.527													4	44					0	0	0.009096	0	0		C	58578360	C	C	58578360	3	2	92	1	0	0	0	0	1	0	0	0	17750	72	3	5	711	5	ZNF135	19	58578360	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	2111131	58578360	550623	170	61029											
ZNF274	10782	broad.mit.edu	37	chr19	58724210	58724210	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccctcacacagcatcagAgagttcattctggagagaga	12	9	9	11	0	4	3	3	0	1	3	5	6	5	3	1	1	1	2	1	1	0	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr19:58724210A>G	uc002qrq.1	+	10	2122	c.1663A>G	c.(1663-1665)AGA>GGA	p.R555G	ZNF274_uc002qrr.1_Missense_Mutation_p.R523G|ZNF274_uc002qrs.1_Missense_Mutation_p.R450G|ZNF274_uc010eum.1_Missense_Mutation_p.R314G	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	555	C2H2-type 2.				viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		ACAGCATCAGAGAGTTCATTC	0.502													19	68					0	0	0.008871	0	0		G	58724210	G	G	58724210	3	3	92	1	0	0	0	0	1	0	0	0	17834	296	11	3	1688	3	ZNF274	19	58724210	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	145850	58724210	404773	171	61030											
ANGPT4	51378	broad.mit.edu	37	chr20	853672	853672	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggggcccttgaagtagtgCcagcggatgccgtccatctt	6	10	13	12	2	1	1	0	1	1	0	2	2	2	2	4	3	3	1	4	3	2	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr20:853672C>T	uc002wei.2	-	9	1546	c.1443G>A	c.(1441-1443)TGG>TGA	p.W481*	ANGPT4_uc010zpn.1_3'UTR	NM_015985	NP_057069	Q9Y264	ANGP4_HUMAN	angiopoietin 4 precursor	481	Fibrinogen C-terminal.				anti-apoptosis|blood coagulation|cellular response to hypoxia|leukocyte migration|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of peptidyl-tyrosine phosphorylation|signal transduction	extracellular space	receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			ovary(2)	2						TGAAGTAGTGCCAGCGGATGC	0.577													26	66					0	0	0.005443	0	0		T	853672	T	T	853672	4	4	92	1	0	0	0	0	0	1	0	0	612	740	26	2	72	2	ANGPT4	20	853672	Nonsense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08		853672	62171848	172	61031											
RSPO4	343637	broad.mit.edu	37	chr20	948593	948593	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaagggagaagccacgtacTtttgcacctgttgacctcct	10	10	9	12	1	0	2	0	1	0	1	1	3	1	2	4	1	3	3	4	1	3	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr20:948593T>G	uc002wej.2	-	2	365	c.268A>C	c.(268-270)AAA>CAA	p.K90Q	RSPO4_uc002wek.2_Missense_Mutation_p.K90Q	NM_001029871	NP_001025042	Q2I0M5	RSPO4_HUMAN	R-spondin family, member 4 isoform 1 precursor	90	FU.				Wnt receptor signaling pathway	extracellular region	heparin binding				0						AGCCACGTACTTTTGCACCTG	0.597													19	130					0	0	0.010504	0	0		G	948593	G	G	948593	3	3	92	1	0	0	0	0	1	0	0	0	13737	1623	56	5	452	5	RSPO4	20	948593	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	94921	948593	62076927	173	61032											
CSRP2BP	57325	broad.mit.edu	37	chr20	18142527	18142527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttagaaaacgagcaagtcGgaatcctgtggaatctgcca	14	8	10	9	2	1	1	0	0	1	1	3	4	2	3	2	2	3	1	2	2	6	1	rs150894437		TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr20:18142527G>A	uc002wqj.2	+	6	1368	c.746G>A	c.(745-747)CGG>CAG	p.R249Q	CSRP2BP_uc002wqk.2_Missense_Mutation_p.R121Q|CSRP2BP_uc010zru.1_Missense_Mutation_p.R120Q	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	249					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						CGAGCAAGTCGGAATCCTGTG	0.383													33	152					0	0	0.013726	0	0		A	18142527	A	A	18142527	3	1	92	1	0	0	0	0	1	0	0	0	3971	1116	39	1	764	1	CSRP2BP	20	18142527	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	17193934	18142527	44882993	174	61033											
RPN2	6185	broad.mit.edu	37	chr20	35858392	35858392	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaggctgatgtggtcatcaAgttccctgaggaagaagctc	10	10	12	9	0	2	3	2	2	0	1	4	4	3	4	1	3	1	3	1	3	4	2	rs139589912		TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr20:35858392A>G	uc002xgp.2	+	13	1815	c.1511A>G	c.(1510-1512)AAG>AGG	p.K504R	RPN2_uc002xgq.2_Missense_Mutation_p.K472R	NM_002951	NP_002942	P04844	RPN2_HUMAN	ribophorin II isoform 1 precursor	504	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|nucleus|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GTGGTCATCAAGTTCCCTGAG	0.443													7	43					0	0	0.001984	0	0		G	35858392	G	G	35858392	3	3	92	1	0	0	0	0	1	0	0	0	13633	72	3	3	1561	3	RPN2	20	35858392	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	17715865	35858392	27167128	175	61034											
PIGT	51604	broad.mit.edu	37	chr20	44045194	44045194	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcccaaagccctggggcaGctgatctccaagtattctct	8	12	8	13	0	2	1	0	1	2	0	5	1	3	1	3	2	2	3	3	2	3	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr20:44045194G>A	uc002xoh.1	+	2	298	c.225G>A	c.(223-225)CAG>CAA	p.Q75Q	PIGT_uc010ghb.1_Silent_p.Q75Q|PIGT_uc010zwt.1_RNA|PIGT_uc010ghd.1_Intron|PIGT_uc010ghc.1_RNA|PIGT_uc010ghe.1_Silent_p.Q75Q|PIGT_uc010ghf.1_Silent_p.Q75Q|PIGT_uc002xoj.1_Silent_p.Q75Q|PIGT_uc002xok.1_Silent_p.Q75Q|PIGT_uc010zwu.1_5'UTR|PIGT_uc002xoi.1_RNA|PIGT_uc010zwv.1_Intron|PIGT_uc010zww.1_Silent_p.Q75Q|PIGT_uc010zwx.1_5'UTR|PIGT_uc010zwy.1_Intron|PIGT_uc010zwz.1_Intron|PIGT_uc010zxa.1_5'UTR|PIGT_uc002xol.1_5'Flank	NM_015937	NP_057021	Q969N2	PIGT_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	75	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			pancreas(1)	1		Myeloproliferative disorder(115;0.0122)				CCCTGGGGCAGCTGATCTCCA	0.602													6	23					0	0	0.001168	0	0		A	44045194	A	A	44045194	2	1	92	1	0	0	0	0	0	0	0	1	11918	962	34	2		2	PIGT	20	44045194	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	8186802	44045194	18980326	176	61035											
NTSR1	4923	broad.mit.edu	37	chr20	61391604	61391604	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccagcaatgccacccgCgagacgctgtactaggctgt	8	8	10	15	3	1	1	0	0	1	1	2	2	1	1	3	1	3	4	3	1	3	2	rs73918683		TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr20:61391604C>A	uc002ydf.2	+	4	1613	c.1242C>A	c.(1240-1242)CGC>CGA	p.R414R		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1	414	Cytoplasmic (Potential).					endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			ATGCCACCCGCGAGACGCTGT	0.687													304	54					4.59229e-136	5.03156e-136	0.01441	1	0		A	61391604	A	A	61391604	2	1	92	1	0	0	0	0	0	0	0	1	10729	755	27	5		5	NTSR1	20	61391604	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	17346410	61391604	1633916	177	61036											
MYT1	4661	broad.mit.edu	37	chr20	62839769	62839769	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcctgccgagcagagccAgctgggcctgggagagccag	7	3	16	15	2	0	2	0	0	0	2	0	4	0	2	6	2	5	2	6	2	0	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr20:62839769A>G	uc002yii.2	+	7	1584	c.1220A>G	c.(1219-1221)CAG>CGG	p.Q407R	MYT1_uc002yih.2_Intron|MYT1_uc002yij.2_Missense_Mutation_p.Q39R	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	407					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					GAGCAGAGCCAGCTGGGCCTG	0.667													10	143					0	0	0.006214	0	0		G	62839769	G	G	62839769	3	3	92	1	0	0	0	0	1	0	0	0	10124	188	7	3	1238	3	MYT1	20	62839769	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	1448165	62839769	185751	178	61037											
RNF160	26046	broad.mit.edu	37	chr21	30316135	30316135	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggaagtttgtgactcaaTagctgttcctttgagatata	11	14	10	6	0	1	2	1	2	0	1	2	4	2	3	1	1	1	4	1	1	5	6			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr21:30316135T>G	uc002ymr.2	-	23	4225	c.4212A>C	c.(4210-4212)CTA>CTC	p.L1404L		NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	1358							ligase activity|zinc ion binding				0						TGTGACTCAATAGCTGTTCCT	0.373													32	62					0	0	0.013726	0	0		G	30316135	G	G	30316135	2	3	92	1	0	0	0	0	0	0	0	1	13480	1393	49	5		5	RNF160	21	30316135	Silent	SNP	T	TCGA-BR-8687-01A-11D-2394-08		30316135	17813760	179	61038											
ITSN1	6453	broad.mit.edu	37	chr21	35190767	35190767	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttcagggcccataaggaAgtctacaaggtatttttgta	12	13	9	7	0	2	0	1	0	1	0	2	1	2	1	1	3	1	2	1	3	6	7			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr21:35190767A>G	uc002yta.1	+	23	3192	c.2924A>G	c.(2923-2925)AAG>AGG	p.K975R	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_RNA|ITSN1_uc002ysz.2_Missense_Mutation_p.K970R|ITSN1_uc010gmg.2_Missense_Mutation_p.K933R|ITSN1_uc010gmh.2_Intron|ITSN1_uc002ysw.2_Missense_Mutation_p.K975R|ITSN1_uc010gmi.2_Missense_Mutation_p.K938R|ITSN1_uc010gmj.2_Missense_Mutation_p.K854R|ITSN1_uc002ysy.2_Missense_Mutation_p.K970R|ITSN1_uc002ysx.2_Missense_Mutation_p.K933R|ITSN1_uc002ytb.1_Missense_Mutation_p.K970R|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Missense_Mutation_p.K938R|ITSN1_uc010gml.2_Intron|ITSN1_uc002ytj.2_Missense_Mutation_p.K970R|ITSN1_uc010gmm.1_RNA|ITSN1_uc002yte.2_Missense_Mutation_p.K909R|ITSN1_uc002ytg.1_Missense_Mutation_p.K28R	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	975					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						CCCATAAGGAAGTCTACAAGG	0.398													11	142					0	0	0.016723	0	0		G	35190767	G	G	35190767	3	3	92	1	0	0	0	0	1	0	0	0	7942	72	3	3	3010	3	ITSN1	21	35190767	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	4874632	35190767	12939128	180	61039											
DOPEY2	9980	broad.mit.edu	37	chr21	37650614	37650614	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtcctggagctgtttcTcgaccccgctttctttcaga	5	13	11	12	2	3	1	1	0	2	1	5	4	4	3	3	3	1	3	3	3	0	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr21:37650614T>C	uc002yvg.2	+	30	6009	c.5930T>C	c.(5929-5931)CTC>CCC	p.L1977P	DOPEY2_uc011aeb.1_Missense_Mutation_p.L1926P	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	1977					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						GAGCTGTTTCTCGACCCCGCT	0.527													25	67					0	0	0.01892	0	0		C	37650614	C	C	37650614	3	2	92	1	0	0	0	0	1	0	0	0	4714	1551	54	3	6044	3	DOPEY2	21	37650614	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	2459847	37650614	10479281	181	61040											
GNAZ	2781	broad.mit.edu	37	chr22	23465312	23465312	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgcgcctctttgactccatCtgcaacaacaactggttcat	9	13	6	13	1	3	1	1	1	2	0	4	1	4	1	2	1	5	2	2	1	3	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr22:23465312C>G	uc002zwu.1	+	3	1299	c.762C>G	c.(760-762)ATC>ATG	p.I254M	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	254						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		TTGACTCCATCTGCAACAACA	0.552													22	64					0	0	0.014323	0	0		G	23465312	G	G	23465312	3	3	92	1	0	0	0	0	1	0	0	0	6529	903	32	5	768	5	GNAZ	22	23465312	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08		23465312	27839254	182	61041											
GNAZ	2781	broad.mit.edu	37	chr22	23465478	23465478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acatccagcggcagtttgaaGacctgaaccgcaacaaggag	14	5	11	11	2	0	3	0	2	0	1	1	4	1	4	3	2	3	3	3	2	4	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr22:23465478G>A	uc002zwu.1	+	3	1465	c.928G>A	c.(928-930)GAC>AAC	p.D310N	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	310						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		GCAGTTTGAAGACCTGAACCG	0.567													5	60					0	0	0.014758	0	0		A	23465478	A	A	23465478	3	1	92	1	0	0	0	0	1	0	0	0	6529	942	33	4	934	4	GNAZ	22	23465478	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	166	23465478	27839088	183	61042											
TFIP11	24144	broad.mit.edu	37	chr22	26895380	26895380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctcatactgtagctgcCggtcattctggatgatctcc	6	12	9	14	2	4	1	2	1	2	0	5	2	4	2	3	2	3	3	3	2	2	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr22:26895380C>T	uc003acr.2	-	8	1393	c.1019G>A	c.(1018-1020)CGG>CAG	p.R340Q	TFIP11_uc003acs.2_Missense_Mutation_p.R340Q|TFIP11_uc003act.2_Missense_Mutation_p.R340Q	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	340					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						CTGTAGCTGCCGGTCATTCTG	0.617													14	69					0	0	0.004007	0	0		T	26895380	T	T	26895380	3	4	92	1	0	0	0	0	1	0	0	0	15832	652	23	1	1522	1	TFIP11	22	26895380	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	3429902	26895380	24409186	184	61043											
NF2	4771	broad.mit.edu	37	chr22	30074212	30074212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acccaattccagcaccgttgCctcctgacataccaagcttc	10	9	5	17	1	0	1	0	1	0	0	3	1	2	1	6	0	4	3	6	0	3	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr22:30074212C>T	uc003age.3	+	14	1917	c.1474C>T	c.(1474-1476)CCT>TCT	p.P492S	NF2_uc003afy.3_Missense_Mutation_p.P492S|NF2_uc003afz.3_Missense_Mutation_p.P409S|NF2_uc003agf.3_Missense_Mutation_p.P492S|NF2_uc003agb.3_Missense_Mutation_p.P415S|NF2_uc003agc.3_Missense_Mutation_p.P454S|NF2_uc003agd.3_RNA|NF2_uc003agg.3_Missense_Mutation_p.P492S|NF2_uc003aga.3_Missense_Mutation_p.P450S|NF2_uc003agh.3_Missense_Mutation_p.P451S|NF2_uc003agi.3_Missense_Mutation_p.P409S|NF2_uc003agj.3_Intron|NF2_uc003agk.3_Missense_Mutation_p.P454S|NF2_uc010gvp.2_Missense_Mutation_p.P156S|NF2_uc011akq.1_Missense_Mutation_p.P118S	NM_000268	NP_000259	P35240	MERL_HUMAN	neurofibromin 2 isoform 1	492					actin cytoskeleton organization|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of cell-matrix adhesion|negative regulation of DNA replication|negative regulation of tyrosine phosphorylation of Stat3 protein|negative regulation of tyrosine phosphorylation of Stat5 protein|positive regulation of stress fiber assembly|regulation of hippo signaling cascade|Schwann cell proliferation	cytoskeleton|early endosome|extrinsic to membrane|filopodium membrane|nucleolus|perinuclear region of cytoplasm|ruffle membrane	cytoskeletal protein binding|protein binding	p.P492fs*1(2)|p.P483fs*17(1)|p.?(1)		meninges(372)|soft_tissue(284)|central_nervous_system(20)|kidney(10)|pleura(9)|skin(7)|large_intestine(5)|breast(5)|urinary_tract(3)|thyroid(2)|endometrium(2)|ovary(2)|lung(2)|stomach(2)|bone(2)|pituitary(1)	728						AGCACCGTTGCCTCCTGACAT	0.458			D|Mis|N|F|S|O		meningioma|acoustic neuroma|renal 	meningioma|acoustic neuroma			Neurofibromatosis_type_2				38	73					0	0	0.005524	0	0		T	30074212	T	T	30074212	3	4	92	1	0	0	0	0	1	0	0	0	10376	739	26	2	1528	2	NF2	22	30074212	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	3178832	30074212	21230354	185	61044											
CELSR1	9620	broad.mit.edu	37	chr22	46804928	46804928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgggcccaccactggtggCctccatcagaacgctgtcct	6	8	12	15	1	1	1	1	0	0	1	3	1	3	1	5	4	1	1	5	4	1	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chr22:46804928C>T	uc003bhw.1	-	9	5191	c.5191G>A	c.(5191-5193)GCC>ACC	p.A1731T	CELSR1_uc011arc.1_Missense_Mutation_p.A44T	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1731	Extracellular (Potential).|Laminin G-like 2.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CCACTGGTGGCCTCCATCAGA	0.657													5	17					0	0	0.014758	0	0		T	46804928	T	T	46804928	3	4	92	1	0	0	0	0	1	0	0	0	3224	739	26	2	3961	2	CELSR1	22	46804928	Missense_Mutation	SNP	C	TCGA-BR-8687-01A-11D-2394-08	16730716	46804928	4499638	186	61045											
GPR143	4935	broad.mit.edu	37	chrX	9693829	9693829	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcagggtcaccctcatttTtgttgcaggattcacttgca	8	13	10	10	0	3	0	3	0	0	0	3	2	3	1	1	2	3	4	1	2	0	5			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:9693829T>G	uc004cst.1	-	9	1232	c.1232A>C	c.(1231-1233)AAA>ACA	p.K411T		NM_000273	NP_000264	P51810	GP143_HUMAN	G protein-coupled receptor 143	391	Cytoplasmic (Potential).				calcium-mediated signaling using intracellular calcium source|eye pigment biosynthetic process|melanosome organization|melanosome transport|phosphatidylinositol-mediated signaling|regulation of calcium-mediated signaling|visual perception	apical plasma membrane|Golgi apparatus|integral to membrane|lysosomal membrane|melanosome membrane|membrane fraction	dopamine binding|L-DOPA receptor activity|protein binding|tyrosine binding			ovary(1)	1		Hepatocellular(5;0.000888)				ACCCTCATTTTTGTTGCAGGA	0.483													5	28					0	0	0.001168	0	0		G	9693829	G	G	9693829	3	3	92	1	0	0	0	0	1	0	0	0	6666	1841	64	5	46	5	GPR143	23	9693829	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08		9693829	145576731	187	61046											
MAGEB18	286514	broad.mit.edu	37	chrX	26157256	26157256	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggtgacagaccccagaatTtgcctgctgctgagacacct	9	10	10	12	0	0	4	0	2	0	3	0	5	0	4	4	1	3	2	4	1	1	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:26157256T>C	uc004dbq.1	+	2	341	c.154T>C	c.(154-156)TTG>CTG	p.L52L		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	52							protein binding			central_nervous_system(1)	1						ACCCCAGAATTTGCCTGCTGC	0.542													6	54					0	0	0.001168	0	0		C	26157256	C	C	26157256	2	2	92	1	0	0	0	0	0	0	0	1	9193	1838	64	3		3	MAGEB18	23	26157256	Silent	SNP	T	TCGA-BR-8687-01A-11D-2394-08	16463427	26157256	129113304	188	61047											
CACNA1F	778	broad.mit.edu	37	chrX	49061780	49061780	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgcttggccagggccacGaaacgtgggtctcgagcaaa	9	7	13	12	3	1	0	0	0	1	0	3	2	2	0	3	3	3	2	3	3	2	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:49061780G>A	uc004dnb.2	-	48	5813	c.5751C>T	c.(5749-5751)TTC>TTT	p.F1917F	CACNA1F_uc010nip.2_Silent_p.F1906F	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	1917	Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	CCAGGGCCACGAAACGTGGGT	0.602													3	28					0	0	0.004672	0	0		A	49061780	A	A	49061780	2	1	92	1	0	0	0	0	0	0	0	1	2546	1049	37	1		1	CACNA1F	23	49061780	Silent	SNP	G	TCGA-BR-8687-01A-11D-2394-08	22904524	49061780	106208780	189	61048											
NOX1	27035	broad.mit.edu	37	chrX	100117182	100117182	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagggggatgcccttcaaacTtagggcgcctacagtgggag	9	7	15	10	1	1	0	1	0	0	0	1	2	1	2	2	4	3	0	2	4	3	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:100117182T>C	uc004egj.2	-	7	988	c.782A>G	c.(781-783)AAG>AGG	p.K261R	uc010nnf.2_Intron|NOX1_uc004egl.3_Missense_Mutation_p.K261R|NOX1_uc010nne.2_Missense_Mutation_p.K224R	NM_007052	NP_008983	Q9Y5S8	NOX1_HUMAN	NADPH oxidase 1 isoform long	261	Ferric oxidoreductase.|Extracellular (Potential).				angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1						CCCTTCAAACTTAGGGCGCCT	0.443													31	110					0	0	0.007291	0	0		C	100117182	C	C	100117182	3	2	92	1	0	0	0	0	1	0	0	0	10575	1609	56	3	940	3	NOX1	23	100117182	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	51055402	100117182	55153378	190	61049											
NXF5	55998	broad.mit.edu	37	chrX	101095862	101095862	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgcacaagttcaaagaCaacagctttgggtcaagaag	14	10	10	7	0	2	2	2	0	0	2	2	2	2	2	0	1	3	4	0	1	5	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:101095862C>T	uc011mrk.1	-	9	846	c.486G>A	c.(484-486)TTG>TTA	p.L162L	NXF5_uc004eih.1_RNA|NXF5_uc004eii.1_Intron|NXF5_uc004eij.1_RNA|NXF5_uc004eik.1_RNA|NXF5_uc004eil.1_RNA	NM_032946	NP_116564	Q9H1B4	NXF5_HUMAN	nuclear RNA export factor 5	162	LRR 1.				mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nucleus	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						AGTTCAAAGACAACAGCTTTG	0.463													9	66					0	0	0.006214	0	0		T	101095862	T	T	101095862	2	4	92	1	0	0	0	0	0	0	0	1	10805	477	17	4		4	NXF5	23	101095862	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	978680	101095862	54174698	191	61050											
ARMCX5	64860	broad.mit.edu	37	chrX	101857231	101857231	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgacccaggccaaagcTggtgatggagcaatgaccag	12	6	13	10	0	1	3	1	3	0	0	1	4	1	4	3	3	2	2	3	3	2	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:101857231T>C	uc004ejg.2	+	6	1043	c.162T>C	c.(160-162)GCT>GCC	p.A54A	ARMCX5_uc004ejh.2_Silent_p.A54A	NM_022838	NP_073749	Q6P1M9	ARMX5_HUMAN	armadillo repeat containing, X-linked 5	54							binding			ovary(1)	1						AGGCCAAAGCTGGTGATGGAG	0.512													9	59					0	0	0.004482	0	0		C	101857231	C	C	101857231	2	2	92	1	0	0	0	0	0	0	0	1	963	1567	55	3		3	ARMCX5	23	101857231	Silent	SNP	T	TCGA-BR-8687-01A-11D-2394-08	761369	101857231	53413329	192	61051											
BHLHB9	80823	broad.mit.edu	37	chrX	102004547	102004547	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtatgaaattaatgaaaaAaataggcccaaggactggtc	17	9	10	5	0	0	2	0	2	0	0	1	3	0	3	1	3	0	1	1	3	8	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:102004547A>G	uc010nog.2	+	4	1195	c.624A>G	c.(622-624)AAA>AAG	p.K208K	BHLHB9_uc011mrq.1_Silent_p.K208K|BHLHB9_uc011mrr.1_Silent_p.K208K|BHLHB9_uc011mrs.1_Silent_p.K208K|BHLHB9_uc011mrt.1_Silent_p.K208K|BHLHB9_uc004ejo.2_Silent_p.K208K|BHLHB9_uc011mru.1_Silent_p.K208K|BHLHB9_uc011mrv.1_Silent_p.K208K	NM_001142526	NP_001135998	Q6PI77	BHLH9_HUMAN	basic helix-loop-helix domain containing, class	208						cytoplasm|nucleus	binding			ovary(2)	2						TTAATGAAAAAAATAGGCCCA	0.458													45	185					0	0	0.01441	0	0		G	102004547	G	G	102004547	2	3	92	1	0	0	0	0	0	0	0	1	1421	11	1	3		3	BHLHB9	23	102004547	Silent	SNP	A	TCGA-BR-8687-01A-11D-2394-08	147316	102004547	53266013	193	61052											
NXF3	56000	broad.mit.edu	37	chrX	102337226	102337226	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaggtcgtgcacactgggcTtctgtccgcacacttctctc	6	11	10	14	2	2	0	0	0	2	0	6	1	3	0	1	2	1	3	1	2	1	2			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:102337226T>G	uc004eju.2	-	9	918	c.847A>C	c.(847-849)AGC>CGC	p.S283R	NXF3_uc010noi.1_Missense_Mutation_p.S133R|NXF3_uc011mrw.1_Missense_Mutation_p.S283R|NXF3_uc011mrx.1_Missense_Mutation_p.S194R	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	283						cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3						CACACTGGGCTTCTGTCCGCA	0.537													39	165					0	0	0.009718	0	0		G	102337226	G	G	102337226	3	3	92	1	0	0	0	0	1	0	0	0	10804	1609	56	5	792	5	NXF3	23	102337226	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	332679	102337226	52933334	194	61053											
ACSL4	2182	broad.mit.edu	37	chrX	108887374	108887374	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggggtccatggctctgggcTtaatcgaaccttgattggaa	9	11	13	8	1	1	1	0	1	1	0	3	3	2	2	2	5	1	2	2	5	3	3			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:108887374T>C	uc004eoi.2	-	17	2525	c.2020A>G	c.(2020-2022)AGC>GGC	p.S674G	ACSL4_uc004eoj.2_Missense_Mutation_p.S633G|ACSL4_uc004eok.2_Missense_Mutation_p.S633G	NM_022977	NP_075266	O60488	ACSL4_HUMAN	acyl-CoA synthetase long-chain family member 4	674	Cytoplasmic (Potential).				fatty acid metabolic process|learning or memory|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(1)|lung(1)|ovary(1)	3					Icosapent(DB00159)|Troglitazone(DB00197)	GGCTCTGGGCTTAATCGAACC	0.323													21	79					0	0	0.012319	0	0		C	108887374	C	C	108887374	3	2	92	1	0	0	0	0	1	0	0	0	179	1609	56	3	119	3	ACSL4	23	108887374	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	6550148	108887374	46383186	195	61054											
DOCK11	139818	broad.mit.edu	37	chrX	117788650	117788650	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccaaatgaaggagcatgAgaaagaccctgaaatgctaa	17	6	10	8	0	0	4	0	3	0	2	0	6	0	5	2	1	3	2	2	1	5	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:117788650A>T	uc004eqp.2	+	43	4844	c.4781A>T	c.(4780-4782)GAG>GTG	p.E1594V	DOCK11_uc004eqq.2_Missense_Mutation_p.E1373V	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1594	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						AAGGAGCATGAGAAAGACCCT	0.468													22	70					0	0	0.010504	0	0		T	117788650	T	T	117788650	3	4	92	1	0	0	0	0	1	0	0	0	4692	304	11	5	4951	5	DOCK11	23	117788650	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	8901276	117788650	37481910	196	61055											
ODZ1	10178	broad.mit.edu	37	chrX	123657356	123657356	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacaactctctgcatggtgActttctctaccacaataaac	13	12	4	12	0	2	1	0	1	2	0	4	1	2	1	1	1	5	1	1	1	6	4			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:123657356A>C	uc004euj.2	-	17	2955	c.2891T>G	c.(2890-2892)GTC>GGC	p.V964G	ODZ1_uc011muj.1_Missense_Mutation_p.V963G|ODZ1_uc010nqy.2_Missense_Mutation_p.V964G	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	964	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CTGCATGGTGACTTTCTCTAC	0.478													35	67					0	0	0.017118	0	0		C	123657356	C	C	123657356	3	2	92	1	0	0	0	0	1	0	0	0	10853	275	10	5	5371	5	ODZ1	23	123657356	Missense_Mutation	SNP	A	TCGA-BR-8687-01A-11D-2394-08	5868706	123657356	31613204	197	61056											
DCAF12L2	340578	broad.mit.edu	37	chrX	125298907	125298907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttctgctggcgctggcgcGgatccaggaaggagacgtgg	6	8	18	9	4	1	1	0	0	1	1	2	4	2	3	1	6	1	3	1	6	1	1			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:125298907G>A	uc004euk.1	-	1	1028	c.1001C>T	c.(1000-1002)CCG>CTG	p.P334L		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	334										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						GCGCTGGCGCGGATCCAGGAA	0.617													48	78					0	0	0.013114	0	0		A	125298907	A	A	125298907	3	1	92	1	0	0	0	0	1	0	0	0	4268	1116	39	1	394	1	DCAF12L2	23	125298907	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	1641551	125298907	29971653	198	61057											
CXorf40A	91966	broad.mit.edu	37	chrX	148627278	148627278	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcccctgctgagcagccaGcggaactgtaccatcgccgt	7	7	11	16	4	0	1	0	1	0	0	2	2	1	2	5	1	6	3	5	1	2	1	rs144189124	byFrequency	TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:148627278G>T	uc004fdb.2	+	4	374	c.102G>T	c.(100-102)CAG>CAT	p.Q34H	CXorf40A_uc011mxm.1_Missense_Mutation_p.Q34H|CXorf40A_uc011mxn.1_Missense_Mutation_p.Q34H|CXorf40A_uc004fdd.2_Missense_Mutation_p.Q34H|CXorf40A_uc004fde.1_Missense_Mutation_p.Q34H|CXorf40A_uc011mxo.1_Missense_Mutation_p.A124S|CXorf40A_uc004fdg.2_Missense_Mutation_p.Q34H|CXorf40A_uc004fdf.2_Missense_Mutation_p.Q34H|CXorf40A_uc004fdh.2_Missense_Mutation_p.Q34H|CXorf40A_uc010nsy.2_Missense_Mutation_p.Q34H|CXorf40A_uc004fdi.2_Missense_Mutation_p.Q51H	NM_178124	NP_835225	Q8TE69	CX04A_HUMAN	chromosome X open reading frame 40	34							protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					TGAGCAGCCAGCGGAACTGTA	0.592													8	48					7.48243e-07	7.79162e-07	0.006214	1	0		T	148627278	T	T	148627278	3	4	92	1	0	0	0	0	1	0	0	0	4111	962	34	5	104	5	CXorf40A	23	148627278	Missense_Mutation	SNP	G	TCGA-BR-8687-01A-11D-2394-08	23328371	148627278	6643282	199	61058											
GABRQ	55879	broad.mit.edu	37	chrX	151817720	151817720	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttcctttgcagactcacCactacagcagcttgttccct	7	14	6	14	0	1	1	1	0	0	1	3	1	3	1	3	0	4	5	3	0	1	6			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:151817720C>T	uc004ffp.1	+	5	554	c.534C>T	c.(532-534)ACC>ACT	p.T178T		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	178	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GCAGACTCACCACTACAGCAG	0.507													8	75					0	0	0.00308	0	0		T	151817720	T	T	151817720	2	4	92	1	0	0	0	0	0	0	0	1	6189	581	21	4		4	GABRQ	23	151817720	Silent	SNP	C	TCGA-BR-8687-01A-11D-2394-08	3190442	151817720	3452840	200	61059											
PLXNB3	5365	broad.mit.edu	37	chrX	153042361	153042361	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcccagatggagcaacagTggggctcgtccctcagctgc	7	7	14	13	1	1	1	1	0	0	1	4	2	3	2	2	4	4	3	2	4	1	0			TCGA-BR-8687-01A-11D-2394-08	TCGA-BR-8687-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	fd5f700f-a8cf-471b-a268-6ec604c3bed6	54a3ff23-3014-4dc2-8bf9-d5c6b3e63618	g.chrX:153042361T>G	uc004fii.2	+	29	5027	c.4853T>G	c.(4852-4854)GTG>GGG	p.V1618G	PLXNB3_uc010nuk.2_Missense_Mutation_p.V1641G|PLXNB3_uc011mzd.1_Missense_Mutation_p.V1257G|SRPK3_uc004fik.2_5'UTR	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1618	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					GGAGCAACAGTGGGGCTCGTC	0.612													4	7					0	0	0.009096	0	0		G	153042361	G	G	153042361	3	3	92	1	0	0	0	0	1	0	0	0	12144	1696	59	5	5081	5	PLXNB3	23	153042361	Missense_Mutation	SNP	T	TCGA-BR-8687-01A-11D-2394-08	1224641	153042361	2228199	201	61060											
TXLNA	200081	broad.mit.edu	37	chr1	32658837	32658837	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacacagagaagtttgaggAgttccagaacacactttcca	15	9	8	9	0	0	3	0	1	0	2	2	5	2	4	2	1	2	2	2	1	3	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:32658837A>T	uc001bui.2	+	9	1252	c.1187A>T	c.(1186-1188)GAG>GTG	p.E396V	TXLNA_uc001buj.2_Missense_Mutation_p.E396V	NM_175852	NP_787048	P40222	TXLNA_HUMAN	taxilin	396	Potential.				cell proliferation|exocytosis	cytoplasm|extracellular region	cytokine activity|high molecular weight B cell growth factor receptor binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				AAGTTTGAGGAGTTCCAGAAC	0.527													8	80					0	0	0.004482	0	0		T	32658837	T	T	32658837	3	4	93	1	0	0	0	0	1	0	0	0	16813	304	11	5	1217	5	TXLNA	1	32658837	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08		32658837	216591784	1	61061											
JAK1	3716	broad.mit.edu	37	chr1	65304184	65304184	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcatattttagctgctgtttGaggtttattttgttcttatt	6	23	8	4	0	1	1	0	1	1	0	1	1	1	1	0	1	2	6	0	1	4	11			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:65304184G>C	uc001dbu.1	-	21	3180	c.2931C>G	c.(2929-2931)CTC>CTG	p.L977L	JAK1_uc009wam.1_Silent_p.L965L|JAK1_uc009wal.1_Silent_p.L154L	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	977	Protein kinase 2.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity	p.E966_K989del(1)		haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		GCTGCTGTTTGAGGTTTATTT	0.358			Mis		ALL								13	39					0	0	0.013537	0	0		C	65304184	C	C	65304184	2	2	93	1	0	0	0	0	0	0	0	1	7953	1277	45	5		5	JAK1	1	65304184	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	32645347	65304184	183946437	2	61062											
ELTD1	64123	broad.mit.edu	37	chr1	79387436	79387436	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atggtatcaggtgagtaattCcaaaatgcacatagactcct	14	11	8	8	0	1	2	1	1	0	1	3	2	3	2	2	2	1	3	2	2	5	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:79387436C>G	uc001diq.3	-	9	1275	c.1119G>C	c.(1117-1119)TGG>TGC	p.W373C		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	373	GPS.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		GTGAGTAATTCCAAAATGCAC	0.398													10	56					0	0	0.006214	0	0		G	79387436	G	G	79387436	3	3	93	1	0	0	0	0	1	0	0	0	5092	856	30	5	981	5	ELTD1	1	79387436	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	14083252	79387436	169863185	3	61063											
TRIM33	51592	broad.mit.edu	37	chr1	114968300	114968300	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacttgcccaactacaacaTtaggagtataaccaggagct	15	8	8	10	0	0	0	0	0	0	0	0	3	0	2	2	2	7	2	2	2	7	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:114968300T>A	uc001eew.2	-	9	1550	c.1466A>T	c.(1465-1467)AAT>ATT	p.N489I	TRIM33_uc010owr.1_Intron|TRIM33_uc010ows.1_Missense_Mutation_p.N97I|TRIM33_uc001eex.2_Missense_Mutation_p.N489I	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	489					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		AACTACAACATTAGGAGTATA	0.373			T	RET	papillary thyroid								63	79					0	0	0.01441	0	0		A	114968300	A	A	114968300	3	1	93	1	0	0	0	0	1	0	0	0	16533	1493	52	5	1965	5	TRIM33	1	114968300	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	35580864	114968300	134282321	4	61064											
GABPB2	126626	broad.mit.edu	37	chr1	151090703	151090703	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaccacagagcctcacactAgagtttccatggcaactgtt	11	9	9	12	0	1	2	1	0	0	2	2	3	2	3	3	2	2	3	3	2	2	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:151090703A>G	uc001ewr.2	+	9	1649	c.1318A>G	c.(1318-1320)AGA>GGA	p.R440G	GABPB2_uc001ews.2_Missense_Mutation_p.R400G|GABPB2_uc001ewt.2_3'UTR	NM_144618	NP_653219	Q8TAK5	GABP2_HUMAN	GA repeat binding protein, beta 2	440					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	protein heterodimerization activity|transcription regulatory region DNA binding				0				all cancers(107;7.17e-05)|GBM - Glioblastoma multiforme(94;0.000662)		GCCTCACACTAGAGTTTCCAT	0.438													16	71					0	0	0.00499	0	0		G	151090703	G	G	151090703	3	3	93	1	0	0	0	0	1	0	0	0	6173	412	15	3	1348	3	GABPB2	1	151090703	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	36122403	151090703	98159918	5	61065											
FLG	2312	broad.mit.edu	37	chr1	152282658	152282658	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgagtgtctagagctgccGgcccgagtggaaggttcatg	7	10	16	8	2	2	2	1	1	1	1	2	4	2	3	2	3	2	2	2	3	2	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:152282658G>A	uc001ezu.1	-	3	4740	c.4704C>T	c.(4702-4704)GCC>GCT	p.A1568A		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1568	Ser-rich.|Filaggrin 9.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TAGAGCTGCCGGCCCGAGTGG	0.587									Ichthyosis				145	323					0	0	0.01441	0	0		A	152282658	A	A	152282658	2	1	93	1	0	0	0	0	0	0	0	1	5936	1103	39	1		1	FLG	1	152282658	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	1191955	152282658	96967963	6	61066											
CHRNB2	1141	broad.mit.edu	37	chr1	154544415	154544415	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccagcgtgagcgcgagggCgctggagccctcttcttccg	4	7	15	15	6	2	1	0	1	2	0	3	3	3	2	3	2	3	1	3	2	0	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:154544415C>T	uc001ffg.2	+	5	1380	c.1116C>T	c.(1114-1116)GGC>GGT	p.G372G		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	372	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	AGCGCGAGGGCGCTGGAGCCC	0.716													8	4					0	0	0.00308	0	0		T	154544415	T	T	154544415	2	4	93	1	0	0	0	0	0	0	0	1	3394	755	27	1		1	CHRNB2	1	154544415	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	2261757	154544415	94706206	7	61067											
FCRL1	115350	broad.mit.edu	37	chr1	157771760	157771760	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccaggccattgttggcCtcacaggagtagtttccaga	8	9	11	13	0	1	1	1	0	0	1	2	2	2	2	5	3	0	3	5	3	1	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:157771760C>T	uc001frg.2	-	5	944	c.831G>A	c.(829-831)GAG>GAA	p.E277E	FCRL1_uc001frf.2_RNA|FCRL1_uc001frh.2_Silent_p.E277E|FCRL1_uc001fri.2_Silent_p.E277E|FCRL1_uc001frj.2_RNA	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	277	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CATTGTTGGCCTCACAGGAGT	0.567													28	95					0	0	0.00632	0	0		T	157771760	T	T	157771760	2	4	93	1	0	0	0	0	0	0	0	1	5808	680	24	4		4	FCRL1	1	157771760	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	3227345	157771760	91478861	8	61068											
CD5L	922	broad.mit.edu	37	chr1	157804383	157804383	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctcccacatcccagctGccggcacaccacctttgcgg	7	6	8	20	2	0	0	0	0	0	0	2	0	2	0	6	2	4	2	6	2	0	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:157804383G>A	uc001frk.3	-	4	675	c.532C>T	c.(532-534)CAG>TAG	p.Q178*		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	178	SRCR 2.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CATCCCAGCTGCCGGCACACC	0.592													33	114					0	0	0.003271	0	0		A	157804383	A	A	157804383	4	1	93	1	0	0	0	0	0	1	0	0	3030	1328	46	2	523	2	CD5L	1	157804383	Nonsense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	32623	157804383	91446238	9	61069											
KIAA1614	57710	broad.mit.edu	37	chr1	180905367	180905367	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagccacgagtccctggaAattgtctctccttcctccct	8	11	7	15	1	1	0	0	0	1	0	6	3	5	1	5	1	1	0	5	1	2	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:180905367A>T	uc001gok.2	+	5	2389	c.2322A>T	c.(2320-2322)GAA>GAT	p.E774D	KIAA1614_uc001gol.1_Missense_Mutation_p.E395D|KIAA1614_uc001gom.1_Intron	NM_020950	NP_066001	Q5VZ46	K1614_HUMAN	hypothetical protein LOC57710	774										ovary(3)|skin(1)	4						AGTCCCTGGAAATTGTCTCTC	0.617													15	122					0	0	0.004007	0	0		T	180905367	T	T	180905367	3	4	93	1	0	0	0	0	1	0	0	0	8264	11	1	5	2340	5	KIAA1614	1	180905367	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	23100984	180905367	68345254	10	61070											
ZNF648	127665	broad.mit.edu	37	chr1	182026306	182026306	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcccgcatagctcgcaCgcgtagcgcttggcggcgcc	4	7	13	17	7	0	0	0	0	0	0	2	0	1	0	3	2	2	5	3	2	2	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:182026306C>T	uc001goz.2	-	2	1048	c.840G>A	c.(838-840)GCG>GCA	p.A280A		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	280	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATAGCTCGCACGCGTAGCGCT	0.726													11	12					0	0	0.008291	0	0		T	182026306	T	T	182026306	2	4	93	1	0	0	0	0	0	0	0	1	18088	523	19	1		1	ZNF648	1	182026306	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	1120939	182026306	67224315	11	61071											
KCNT2	343450	broad.mit.edu	37	chr1	196205114	196205114	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgagatatgagatcaacttAcacaacatcattcagctcta	16	11	5	9	0	4	2	3	2	1	2	4	4	4	2	0	0	4	1	0	0	5	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:196205114A>G	uc001gtd.1	-	27	3356	c.3296_splice	c.e27+1	p.V1099_splice	KCNT2_uc009wyt.1_Splice_Site|KCNT2_uc001gte.1_Splice_Site_p.V1032_splice|KCNT2_uc001gtf.1_Splice_Site_p.V1075_splice|KCNT2_uc001gtg.1_Splice_Site	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2							voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						AGATCAACTTACACAACATCA	0.299													15	123					0	0	0.003163	0	0		G	196205114	G	G	196205114	5	3	93	1	0	0	0	0	0	0	1	0	8108	405	14	3	117	3	KCNT2	1	196205114	Splice_Site	SNP	A	TCGA-BR-8690-01A-11D-2394-08	14178808	196205114	53045507	12	61072											
PPP2R5A	5525	broad.mit.edu	37	chr1	212534003	212534003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaagaaggaattggaacGtgaagaattatggaaaaaat	22	7	11	1	1	0	3	0	1	0	2	0	7	0	6	0	3	1	0	0	3	11	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:212534003G>A	uc001hjb.2	+	13	1926	c.1352G>A	c.(1351-1353)CGT>CAT	p.R451H	PPP2R5A_uc010ptd.1_Missense_Mutation_p.R392H	NM_006243	NP_006234	Q15172	2A5A_HUMAN	protein phosphatase 2, regulatory subunit B	451				R -> E (in Ref. 6; AA sequence).	negative regulation of establishment of protein localization in plasma membrane|negative regulation of lipid kinase activity|positive regulation of protein dephosphorylation|signal transduction	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex	kinase binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0125)|all cancers(67;0.029)|Epithelial(68;0.154)|GBM - Glioblastoma multiforme(131;0.155)		GAATTGGAACGTGAAGAATTA	0.343													6	53					0	0	0.00308	0	0		A	212534003	A	A	212534003	3	1	93	1	0	0	0	0	1	0	0	0	12414	1145	40	1	1402	1	PPP2R5A	1	212534003	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	16328889	212534003	36716618	13	61073											
FAM71A	149647	broad.mit.edu	37	chr1	212798999	212798999	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctcaatgcatccatcccCaaaacatctacagaacttgc	13	9	5	14	0	2	1	1	0	1	1	4	1	4	1	3	0	6	2	3	0	5	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:212798999C>T	uc001hjk.2	+	1	1184	c.780C>T	c.(778-780)CCC>CCT	p.P260P	uc010pth.1_RNA	NM_153606	NP_705834	Q8IYT1	FA71A_HUMAN	hypothetical protein LOC149647	260										skin(3)|ovary(1)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00631)|all cancers(67;0.00981)|GBM - Glioblastoma multiforme(131;0.0715)|Epithelial(68;0.094)		CATCCATCCCCAAAACATCTA	0.383													24	143					0	0	0.014323	0	0		T	212798999	T	T	212798999	2	4	93	1	0	0	0	0	0	0	0	1	5621	581	21	4		4	FAM71A	1	212798999	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	264996	212798999	36451622	14	61074											
OBSCN	84033	broad.mit.edu	37	chr1	228509263	228509263	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccacacatttggggacacCgaggcacaggtgggggatgc	9	6	15	11	1	0	0	0	0	0	0	1	3	1	2	2	6	1	1	2	6	0	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:228509263C>T	uc009xez.1	+	55	14765	c.14721C>T	c.(14719-14721)ACC>ACT	p.T4907T	OBSCN_uc001hsn.2_Silent_p.T4907T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4907	Ig-like 48.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TTGGGGACACCGAGGCACAGG	0.612													9	32					0	0	0.006214	0	0		T	228509263	T	T	228509263	2	4	93	1	0	0	0	0	0	0	0	1	10831	639	23	1		1	OBSCN	1	228509263	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	15710264	228509263	20741358	15	61075											
ACTN2	88	broad.mit.edu	37	chr1	236917358	236917358	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccaagccaatgccattgggCcctggatccagaacaagatg	12	6	10	13	0	0	2	0	0	0	2	1	3	1	3	5	2	3	0	5	2	4	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr1:236917358C>G	uc001hyf.2	+	16	2155	c.1951C>G	c.(1951-1953)CCC>GCC	p.P651A	ACTN2_uc001hyg.2_Missense_Mutation_p.P443A|ACTN2_uc009xgi.1_Missense_Mutation_p.P651A|ACTN2_uc010pxu.1_Missense_Mutation_p.P340A|ACTN2_uc001hyh.2_Missense_Mutation_p.P339A	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	651	Spectrin 4.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			TGCCATTGGGCCCTGGATCCA	0.612													32	76					0	0	0.012213	0	0		G	236917358	G	G	236917358	3	3	93	1	0	0	0	0	1	0	0	0	205	739	26	5	2013	5	ACTN2	1	236917358	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	8408095	236917358	12333263	16	61076											
ADAM17	6868	broad.mit.edu	37	chr2	9630307	9630307	+	Nonstop_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagagctgagaactaaatTagcactctgtttctttgctg	12	13	9	7	0	2	3	0	1	2	3	2	4	2	3	0	0	4	4	0	0	5	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr2:9630307T>A	uc002qzu.2	-	19	2657	c.2474A>T	c.(2473-2475)TAA>TTA	p.*825L	IAH1_uc010yiz.1_Intron|ADAM17_uc010ewy.2_Nonstop_Mutation_p.*808L|ADAM17_uc010ewz.2_Nonstop_Mutation_p.*168L	NM_003183	NP_003174	P78536	ADA17_HUMAN	a disintegrin and metalloprotease domain 17	825					B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			lung(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)		AGAACTAAATTAGCACTCTGT	0.408													8	57					0	0	0.00308	0	0		A	9630307	A	A	9630307	4	1	93	1	0	0	0	0	0	0	0	0	238	1761	61	5	4	5	ADAM17	2	9630307	Nonstop_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08		9630307	233569066	17	61077											
ACTG2	72	broad.mit.edu	37	chr2	74129543	74129543	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgggggatgaggctcagagCaagcgagggatcctaactct	10	7	16	8	1	2	2	1	1	1	1	3	5	3	4	1	4	3	2	1	4	2	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr2:74129543C>A	uc002sjw.2	+	3	305	c.183C>A	c.(181-183)AGC>AGA	p.S61R	ACTG2_uc010fex.1_Missense_Mutation_p.S61R|ACTG2_uc010fey.2_Missense_Mutation_p.S61R|ACTG2_uc010yrn.1_Intron	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	61					muscle contraction	cytoskeleton|cytosol	ATP binding				0						AGGCTCAGAGCAAGCGAGGGA	0.493													9	69					1.12685e-05	1.20023e-05	0.004482	1	0		A	74129543	A	A	74129543	3	1	93	1	0	0	0	0	1	0	0	0	197	709	25	5	189	5	ACTG2	2	74129543	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	64499236	74129543	169069830	18	61078											
CTNNA2	1496	broad.mit.edu	37	chr2	80808879	80808879	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttgagcaggaagattatGatgtgcgtagcaggacaagt	13	10	13	5	1	0	3	0	2	0	1	0	5	0	5	0	2	3	3	0	2	4	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr2:80808879G>T	uc010ysh.1	+	13	1947	c.1942G>T	c.(1942-1944)GAT>TAT	p.D648Y	CTNNA2_uc010yse.1_Missense_Mutation_p.D648Y|CTNNA2_uc010ysf.1_Missense_Mutation_p.D648Y|CTNNA2_uc010ysg.1_Missense_Mutation_p.D648Y|CTNNA2_uc010ysi.1_Missense_Mutation_p.D280Y	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	648					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GGAAGATTATGATGTGCGTAG	0.458													5	70					5.9392e-07	6.44586e-07	0.001168	1	0		T	80808879	T	T	80808879	3	4	93	1	0	0	0	0	1	0	0	0	4016	1290	45	5	1784	5	CTNNA2	2	80808879	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	6679336	80808879	162390494	19	61079											
SPOPL	339745	broad.mit.edu	37	chr2	139326567	139326567	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgattcagtctcaccctcatTtagtagcagaagcctttcga	10	13	7	11	1	3	2	3	1	1	1	5	3	3	2	2	0	2	2	2	0	3	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr2:139326567T>A	uc002tvh.2	+	11	1496	c.1096T>A	c.(1096-1098)TTA>ATA	p.L366I		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	366						nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		TCACCCTCATTTAGTAGCAGA	0.413													32	341					0	0	0.009535	0	0		A	139326567	A	A	139326567	3	1	93	1	0	0	0	0	1	0	0	0	15110	1838	64	5	1134	5	SPOPL	2	139326567	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	58517688	139326567	103872806	20	61080											
SLC4A10	57282	broad.mit.edu	37	chr2	162821608	162821608	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgatggacttgttgttcacGaagcgggaactcagctggtt	8	13	13	7	2	2	1	2	1	0	0	2	4	2	3	0	3	3	4	0	3	2	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr2:162821608G>A	uc002ubx.3	+	23	3268	c.3084G>A	c.(3082-3084)ACG>ACA	p.T1028T	SLC4A10_uc002uby.3_Silent_p.T998T|SLC4A10_uc010zcs.1_Silent_p.T1009T	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	1028	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						TGTTGTTCACGAAGCGGGAAC	0.353													5	24					0	0	0.001168	0	0		A	162821608	A	A	162821608	2	1	93	1	0	0	0	0	0	0	0	1	14676	1045	37	1		1	SLC4A10	2	162821608	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	23495041	162821608	80377765	21	61081											
TTN	7273	broad.mit.edu	37	chr2	179486701	179486702	+	Frame_Shift_Del	DEL	TT	-	-																															tgatgtcatattttttgcccTttttaatttcagcaccatct																										TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr2:179486701_179486702delTT	uc010zfg.1	-	193	37467_37468	c.37243_37244delAA	c.(37243-37245)AAGfs	p.K12415fs	TTN_uc010zfh.1_Frame_Shift_Del_p.K6110fs|TTN_uc010zfi.1_Frame_Shift_Del_p.K6043fs|TTN_uc010zfj.1_Frame_Shift_Del_p.K5918fs	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13342							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTTTTGCCCTTTTTAATTTCA	0.347													11	21	---	---	---	---						.	-	179486702	-	-	179486701	7	5	93	1	0	1	0	1	0	0	0	0	16761	1609	56	0	63221	0	TTN	2	179486701	Frame_Shift_Del	DEL	TT	TCGA-BR-8690-01A-11D-2394-08	16665093	179486701	63712672	22	61082											
TTN	7273	broad.mit.edu	37	chr2	179584365	179584365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taatcctttgtcactcatttCggcacaggggattttaaggg	9	14	10	8	1	2	0	2	0	0	0	4	1	3	1	1	4	0	1	1	4	2	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr2:179584365C>T	uc010zfg.1	-	79	20346	c.20122G>A	c.(20122-20124)GAA>AAA	p.E6708K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E3369K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7635							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCACTCATTTCGGCACAGGGG	0.403													15	126					0	0	0.003163	0	0		T	179584365	T	T	179584365	3	4	93	1	0	0	0	0	1	0	0	0	16761	893	31	1	80799	1	TTN	2	179584365	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	97664	179584365	63615008	23	61083											
HSPD1	3329	broad.mit.edu	37	chr2	198362005	198362005	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaacatcttgaacaagttTagctccaatgtttttgtatt	11	16	7	7	0	1	1	0	1	1	0	2	1	2	1	1	1	3	5	1	1	6	7			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr2:198362005T>C	uc002uui.2	-	3	423	c.286A>G	c.(286-288)AAA>GAA	p.K96E	HSPD1_uc002uuj.2_Missense_Mutation_p.K96E|HSPD1_uc010zgx.1_Missense_Mutation_p.K96E|HSPD1_uc010fsm.2_Intron|HSPD1_uc002uuk.2_Missense_Mutation_p.K96E|HSPD1_uc010zgy.1_Missense_Mutation_p.K96E|HSPE1_uc002uul.2_5'Flank	NM_002156	NP_002147	P10809	CH60_HUMAN	chaperonin	96					'de novo' protein folding|activation of caspase activity|B cell cytokine production|B cell proliferation|chaperone-mediated protein complex assembly|interspecies interaction between organisms|isotype switching to IgG isotypes|MyD88-dependent toll-like receptor signaling pathway|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of interferon-alpha production|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of macrophage activation|positive regulation of T cell activation|positive regulation of T cell mediated immune response to tumor cell|protein maturation|protein refolding|protein stabilization|response to unfolded protein|T cell activation	cell surface|coated pit|coated vesicle|cytosol|early endosome|extracellular space|lipopolysaccharide receptor complex|mitochondrial inner membrane|mitochondrial matrix|stored secretory granule	ATP binding|ATPase activity|cell surface binding|chaperone binding|DNA replication origin binding|lipopolysaccharide binding|p53 binding|single-stranded DNA binding				0			Epithelial(96;0.225)			TGAACAAGTTTAGCTCCAATG	0.413													13	86					0	0	0.001855	0	0		C	198362005	C	C	198362005	3	2	93	1	0	0	0	0	1	0	0	0	7444	1763	61	3	1475	3	HSPD1	2	198362005	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	18777640	198362005	44837368	24	61084											
ERBB4	2066	broad.mit.edu	37	chr2	212286786	212286786	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccttgaaaactcagcagcCagttccttaaatttaggtct	12	13	6	10	0	2	1	1	1	1	0	4	1	4	1	3	1	3	2	3	1	5	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr2:212286786C>T	uc002veg.1	-	24	3008	c.2910G>A	c.(2908-2910)CTG>CTA	p.L970L	ERBB4_uc002veh.1_Silent_p.L970L|ERBB4_uc010zji.1_Silent_p.L960L|ERBB4_uc010zjj.1_Silent_p.L960L	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	970	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		ACTCAGCAGCCAGTTCCTTAA	0.393										TSP Lung(8;0.080)			11	41					0	0	0.008291	0	0		T	212286786	T	T	212286786	2	4	93	1	0	0	0	0	0	0	0	1	5217	581	21	4		4	ERBB4	2	212286786	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	13924781	212286786	30912587	25	61085											
SPEG	10290	broad.mit.edu	37	chr2	220355285	220355285	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgagcggatcatgtccctgCacgaggcctacatcacccct	9	7	9	16	3	2	0	2	0	0	0	3	3	3	1	4	2	3	1	4	2	1	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr2:220355285C>A	uc010fwg.2	+	37	9076	c.9076C>A	c.(9076-9078)CAC>AAC	p.H3026N		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	3026	Protein kinase 2.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CATGTCCCTGCACGAGGCCTA	0.627													14	77					0.00185496	0.00191345	0.001855	1	0		A	220355285	A	A	220355285	3	1	93	1	0	0	0	0	1	0	0	0	15061	710	25	5	9234	5	SPEG	2	220355285	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	8068499	220355285	22844088	26	61086											
EPHA3	2042	broad.mit.edu	37	chr3	89456511	89456511	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactgttgtcatctatgttTtgattgggaggtgagttcac	7	17	11	6	0	4	2	3	2	1	0	4	3	4	3	0	2	0	3	0	2	1	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr3:89456511T>G	uc003dqy.2	+	8	1912	c.1687T>G	c.(1687-1689)TTG>GTG	p.L563V	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	563	Helical; (Potential).					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		CATCTATGTTTTGATTGGGAG	0.428										TSP Lung(6;0.00050)			4	44					0	0	0.009096	0	0		G	89456511	G	G	89456511	3	3	93	1	0	0	0	0	1	0	0	0	5176	1838	64	5	1743	5	EPHA3	3	89456511	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08		89456511	108565919	27	61087											
ARHGAP31	57514	broad.mit.edu	37	chr3	119133443	119133443	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagccttcagactgtgaCgaagatgacactgtgacaga	13	7	12	9	1	1	6	1	3	0	3	1	8	1	7	1	1	1	0	1	1	1	1	rs140312580	by1000genomes	TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr3:119133443C>T	uc003ecj.3	+	12	3199	c.2667C>T	c.(2665-2667)GAC>GAT	p.D889D		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	889					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						CAGACTGTGACGAAGATGACA	0.562													23	148					0	0	0.012319	0	0		T	119133443	T	T	119133443	2	4	93	1	0	0	0	0	0	0	0	1	880	535	19	1		1	ARHGAP31	3	119133443	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	29676932	119133443	78888987	28	61088											
ARHGAP31	57514	broad.mit.edu	37	chr3	119133998	119133998	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaaggagagttcacccagCgtgcaggacagcacttcgcc	11	5	12	13	2	1	1	1	0	0	1	2	3	1	2	2	2	4	4	2	2	1	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr3:119133998C>T	uc003ecj.3	+	12	3754	c.3222C>T	c.(3220-3222)AGC>AGT	p.S1074S		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	1074					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						GTTCACCCAGCGTGCAGGACA	0.577													64	210					0	0	0.01441	0	0		T	119133998	T	T	119133998	2	4	93	1	0	0	0	0	0	0	0	1	880	767	27	1		1	ARHGAP31	3	119133998	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	555	119133998	78888432	29	61089											
NEK11	79858	broad.mit.edu	37	chr3	130887684	130887684	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctctttaggaaaaaacacAtttaaaaggaatggaagaaa	21	9	7	4	0	1	1	0	0	1	1	2	4	1	4	0	3	1	0	0	3	9	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr3:130887684A>G	uc003eny.2	+	13	1513	c.1187A>G	c.(1186-1188)CAT>CGT	p.H396R	NEK11_uc003enx.2_Missense_Mutation_p.H396R|NEK11_uc003eoa.2_Missense_Mutation_p.H396R|NEK11_uc003enz.2_Missense_Mutation_p.H214R|NEK11_uc010htn.2_RNA|NEK11_uc011blk.1_Intron|NEK11_uc011bll.1_Missense_Mutation_p.H291R|NEK11_uc011blm.1_Missense_Mutation_p.H396R	NM_024800	NP_079076	Q8NG66	NEK11_HUMAN	NIMA-related kinase 11 isoform 1	396					cell cycle|intra-S DNA damage checkpoint|intracellular protein kinase cascade	nucleolus	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(4)|stomach(1)|central_nervous_system(1)	6						GAAAAAACACATTTAAAAGGA	0.453													9	17					0	0	0.004482	0	0		G	130887684	G	G	130887684	3	3	93	1	0	0	0	0	1	0	0	0	10342	217	8	3	1229	3	NEK11	3	130887684	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	11753686	130887684	67134746	30	61090											
XRN1	54464	broad.mit.edu	37	chr3	142048403	142048403	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccaacacatattgtccAtagactgaacattatggtac	14	10	7	10	0	0	2	0	1	0	1	1	2	1	2	2	2	3	1	2	2	6	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr3:142048403A>G	uc003eus.2	-	37	4341	c.4274T>C	c.(4273-4275)ATG>ACG	p.M1425T	XRN1_uc010huu.2_Missense_Mutation_p.M892T|XRN1_uc003eut.2_Missense_Mutation_p.M1425T|XRN1_uc003euu.2_Missense_Mutation_p.M1426T	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	1425					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						CATATTGTCCATAGACTGAAC	0.398													12	45					0	0	0.010729	0	0		G	142048403	G	G	142048403	3	3	93	1	0	0	0	0	1	0	0	0	17485	217	8	3	870	3	XRN1	3	142048403	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	11160719	142048403	55974027	31	61091											
SI	6476	broad.mit.edu	37	chr3	164712098	164712098	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagcatgaatttcatgcatTtgtgtgtaaaaatagggcaa	14	14	9	4	0	1	1	1	1	0	0	1	1	1	1	0	1	2	4	0	1	7	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr3:164712098T>A	uc003fei.2	-	41	4850	c.4788A>T	c.(4786-4788)CAA>CAT	p.Q1596H		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1596	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TTTCATGCATTTGTGTGTAAA	0.363										HNSCC(35;0.089)			5	47					0	0	0.000602	0	0		A	164712098	A	A	164712098	3	1	93	1	0	0	0	0	1	0	0	0	14322	1838	64	5	727	5	SI	3	164712098	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	22663695	164712098	33310332	32	61092											
JAKMIP1	152789	broad.mit.edu	37	chr4	6107560	6107560	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgccggatgagcccctcGcgcagcgcctgcagctcctt	4	8	12	17	4	0	1	0	1	0	0	2	2	1	2	5	1	6	4	5	1	0	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:6107560G>A	uc003giu.3	-	3	540	c.264C>T	c.(262-264)CGC>CGT	p.R88R	JAKMIP1_uc010idb.1_Silent_p.R88R|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Silent_p.R88R|JAKMIP1_uc011bwc.1_Intron|JAKMIP1_uc003giv.3_Silent_p.R88R|JAKMIP1_uc010ide.2_Silent_p.R88R	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	88	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TGAGCCCCTCGCGCAGCGCCT	0.682													16	31					0	0	0.00499	0	0		A	6107560	A	A	6107560	2	1	93	1	0	0	0	0	0	0	0	1	7956	1074	38	1		1	JAKMIP1	4	6107560	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08		6107560	185046716	33	61093											
SLIT2	9353	broad.mit.edu	37	chr4	20618788	20618788	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggatggggcccctctgtgAccaacggaccaatgaccctt	9	8	11	13	1	1	2	0	2	1	0	1	4	1	4	5	4	1	0	5	4	2	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:20618788A>T	uc003gpr.1	+	35	4307	c.4103A>T	c.(4102-4104)GAC>GTC	p.D1368V	SLIT2_uc003gps.1_Missense_Mutation_p.D1360V	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1368	EGF-like 7.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CCCCTCTGTGACCAACGGACC	0.562													11	91					0	0	0.010729	0	0		T	20618788	T	T	20618788	3	4	93	1	0	0	0	0	1	0	0	0	14765	275	10	5	4241	5	SLIT2	4	20618788	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	14511228	20618788	170535488	34	61094											
GABRG1	2565	broad.mit.edu	37	chr4	46067511	46067511	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaatttttccaaccatatTactgttaagcataagcactt	14	14	3	10	0	0	0	0	0	0	0	1	0	1	0	3	0	4	3	3	0	6	7			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:46067511T>C	uc003gxb.2	-	4	564	c.412A>G	c.(412-414)AAT>GAT	p.N138D		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	138	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		CCAACCATATTACTGTTAAGC	0.328													7	21					0	0	0.001984	0	0		C	46067511	C	C	46067511	3	2	93	1	0	0	0	0	1	0	0	0	6185	1754	61	3	1009	3	GABRG1	4	46067511	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	25448723	46067511	145086765	35	61095											
GABRB1	2560	broad.mit.edu	37	chr4	47033961	47033961	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccagcaacatgtcatacgtGaaagagacagtggacagatt	15	7	10	9	1	1	3	1	1	0	2	1	5	1	4	1	1	3	1	1	1	3	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:47033961G>A	uc003gxh.2	+	2	485	c.111G>A	c.(109-111)GTG>GTA	p.V37V	GABRB1_uc011bze.1_5'UTR|GABRB1_uc011bzd.1_Silent_p.V37V|GABRB1_uc010igg.2_RNA	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	37	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TGTCATACGTGAAAGAGACAG	0.448													46	147					0	0	0.01441	0	0		A	47033961	A	A	47033961	2	1	93	1	0	0	0	0	0	0	0	1	6180	1277	45	4		4	GABRB1	4	47033961	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	966450	47033961	144120315	36	61096											
RUFY3	22902	broad.mit.edu	37	chr4	71654634	71654634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggatgccctggtatctcttCggcagcagctggatgacctc	7	10	12	12	1	1	1	0	1	1	0	4	3	1	3	2	4	3	4	2	4	1	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:71654634C>T	uc003hfq.2	+	11	1778	c.1183C>T	c.(1183-1185)CGG>TGG	p.R395W	RUFY3_uc003hfp.3_Missense_Mutation_p.R455W|RUFY3_uc011cax.1_Missense_Mutation_p.R413W|RUFY3_uc003hfr.2_Missense_Mutation_p.R395W|RUFY3_uc011cay.1_Missense_Mutation_p.R331W	NM_014961	NP_055776	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 2	395	Potential.				negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			GGTATCTCTTCGGCAGCAGCT	0.493													35	50					0	0	0.004878	0	0		T	71654634	T	T	71654634	3	4	93	1	0	0	0	0	1	0	0	0	13765	875	31	1	1587	1	RUFY3	4	71654634	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	24620673	71654634	119499642	37	61097											
PPEF2	5470	broad.mit.edu	37	chr4	76794425	76794425	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaatagtgttggccttgcagCcctcttgagccatgggatca	8	11	12	10	0	2	1	1	1	1	0	2	3	2	2	3	2	3	2	3	2	2	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:76794425C>A	uc003hix.2	-	12	1718	c.1361G>T	c.(1360-1362)GGC>GTC	p.G454V	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Missense_Mutation_p.G454V	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	454	Catalytic.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			GGCCTTGCAGCCCTCTTGAGC	0.443													19	59					7.45023e-12	8.57337e-12	0.010504	1	0		A	76794425	A	A	76794425	3	1	93	1	0	0	0	0	1	0	0	0	12327	739	26	5	924	5	PPEF2	4	76794425	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	5139791	76794425	114359851	38	61098											
ARHGAP24	83478	broad.mit.edu	37	chr4	86863309	86863309	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggtggagcagtgcgtggActttatccgacaaagggggc	8	9	17	7	2	0	0	0	0	0	0	1	3	1	2	1	5	2	2	1	5	2	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:86863309A>T	uc003hpk.2	+	5	931	c.482A>T	c.(481-483)GAC>GTC	p.D161V	ARHGAP24_uc003hpj.2_Missense_Mutation_p.D161V|ARHGAP24_uc003hpl.2_Missense_Mutation_p.D66V|ARHGAP24_uc010ikf.2_Missense_Mutation_p.D76V|ARHGAP24_uc003hpm.2_Missense_Mutation_p.D68V	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1	161	Rho-GAP.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		CAGTGCGTGGACTTTATCCGA	0.488													11	45					0	0	0.013537	0	0		T	86863309	T	T	86863309	3	4	93	1	0	0	0	0	1	0	0	0	873	275	10	5	612	5	ARHGAP24	4	86863309	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	10068884	86863309	104290967	39	61099											
ARHGAP24	83478	broad.mit.edu	37	chr4	86863412	86863412	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttgactgtggggagaaGccatcatttgacaggtagat	10	11	13	7	0	1	4	1	2	0	2	1	5	1	4	2	3	1	1	2	3	2	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:86863412G>T	uc003hpk.2	+	5	1034	c.585G>T	c.(583-585)AAG>AAT	p.K195N	ARHGAP24_uc003hpj.2_Missense_Mutation_p.K195N|ARHGAP24_uc003hpl.2_Missense_Mutation_p.K100N|ARHGAP24_uc010ikf.2_Missense_Mutation_p.K110N|ARHGAP24_uc003hpm.2_Missense_Mutation_p.K102N	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1	195	Rho-GAP.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		GTGGGGAGAAGCCATCATTTG	0.473													15	51					2.61681e-11	2.99625e-11	0.00245	1	0		T	86863412	T	T	86863412	3	4	93	1	0	0	0	0	1	0	0	0	873	962	34	5	715	5	ARHGAP24	4	86863412	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	103	86863412	104290864	40	61100											
ARHGAP24	83478	broad.mit.edu	37	chr4	86921732	86921732	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatgatagaaataaaaatgCgaaatgccgagcgagcaaaa	21	5	9	6	3	0	2	0	1	0	1	0	5	0	2	1	0	4	1	1	0	9	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:86921732C>T	uc003hpk.2	+	10	2553	c.2104C>T	c.(2104-2106)CGA>TGA	p.R702*	ARHGAP24_uc003hpl.2_Nonsense_Mutation_p.R607*|ARHGAP24_uc010ikf.2_Nonsense_Mutation_p.R617*|ARHGAP24_uc003hpm.2_Nonsense_Mutation_p.R609*	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1	702	Potential.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		AATAAAAATGCGAAATGCCGA	0.403													12	44					0	0	0.010729	0	0		T	86921732	T	T	86921732	4	4	93	1	0	0	0	0	0	1	0	0	873	760	27	1	2254	1	ARHGAP24	4	86921732	Nonsense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	58320	86921732	104232544	41	61101											
NHEDC1	150159	broad.mit.edu	37	chr4	103912856	103912856	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatgttcattttttgattCtgtggtatgcatgctaagat	10	18	8	5	0	2	2	1	1	1	1	2	2	2	2	0	1	2	4	0	1	3	7			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:103912856C>A	uc003hww.2	-	2	135	c.13G>T	c.(13-15)GAA>TAA	p.E5*	NHEDC1_uc003hwu.2_Nonsense_Mutation_p.E5*|NHEDC1_uc010ilm.2_5'UTR|NHEDC1_uc003hwv.2_RNA|NHEDC1_uc011cev.1_5'UTR	NM_139173	NP_631912	Q4ZJI4	NHDC1_HUMAN	Na+/H+ exchanger domain containing 1 isoform 1	5						integral to membrane	solute:hydrogen antiporter activity			ovary(1)|skin(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;1.5e-08)		TTTTTTGATTCTGTGGTATGC	0.269													2	2					0.0016	0.00165792	0.004672	1	0		A	103912856	A	A	103912856	4	1	93	1	0	0	0	0	0	1	0	0	10419	922	32	5	1678	5	NHEDC1	4	103912856	Nonsense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	16991124	103912856	87241420	42	61102											
ANK2	287	broad.mit.edu	37	chr4	114267061	114267061	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttcttgttcaaggtacgCgatacgactcaggaaccttg	9	13	9	10	3	4	0	2	0	2	0	4	3	4	1	1	2	3	2	1	2	4	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:114267061C>T	uc003ibe.3	+	35	4354	c.4254C>T	c.(4252-4254)CGC>CGT	p.R1418R	ANK2_uc003ibd.3_Silent_p.R1409R|ANK2_uc003ibf.3_Silent_p.R1418R|ANK2_uc011cgc.1_Silent_p.R594R|ANK2_uc003ibg.3_Silent_p.R413R|ANK2_uc003ibh.3_Silent_p.R92R|ANK2_uc011cgb.1_Silent_p.R1433R	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1385					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TCAAGGTACGCGATACGACTC	0.393													24	64					0	0	0.004656	0	0		T	114267061	T	T	114267061	2	4	93	1	0	0	0	0	0	0	0	1	621	755	27	1		1	ANK2	4	114267061	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	10354205	114267061	76887215	43	61103											
KIAA1109	84162	broad.mit.edu	37	chr4	123271022	123271022	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgctctagtgagattttcGtccatggagatttgaagtgg	9	15	12	5	1	1	3	0	2	1	2	3	5	2	3	1	2	1	1	1	2	3	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:123271022G>T	uc003ieh.2	+	78	13687	c.13642G>T	c.(13642-13644)GTC>TTC	p.V4548F	KIAA1109_uc003iem.2_Missense_Mutation_p.V904F	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4548					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TGAGATTTTCGTCCATGGAGA	0.368													11	148					5.16669e-11	5.88642e-11	0.010729	1	0		T	123271022	T	T	123271022	3	4	93	1	0	0	0	0	1	0	0	0	8224	1145	40	5	13952	5	KIAA1109	4	123271022	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	9003961	123271022	67883254	44	61104											
FAT4	79633	broad.mit.edu	37	chr4	126370306	126370306	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaattgttaatggcaacaTggaaaatagtttcagtatca	16	13	8	4	0	2	1	2	1	0	0	2	2	2	2	0	2	1	4	0	2	7	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:126370306T>A	uc003ifj.3	+	9	8135	c.8135T>A	c.(8134-8136)ATG>AAG	p.M2712K	FAT4_uc011cgp.1_Missense_Mutation_p.M1010K|FAT4_uc003ifi.1_Missense_Mutation_p.M190K	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2712	Cadherin 26.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AATGGCAACATGGAAAATAGT	0.373													25	86					0	0	0.00278	0	0		A	126370306	A	A	126370306	3	1	93	1	0	0	0	0	1	0	0	0	5706	1464	51	5	8169	5	FAT4	4	126370306	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	3099284	126370306	64783970	45	61105											
TKTL2	84076	broad.mit.edu	37	chr4	164393459	164393459	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgcagtttctggttggctGgttcgaatgaagcacattcc	8	13	11	9	1	1	1	0	1	1	0	3	2	2	1	1	3	2	6	1	3	2	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:164393459G>T	uc003iqp.3	-	1	1589	c.1428C>A	c.(1426-1428)ACC>ACA	p.T476T		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	476						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				CTGGTTGGCTGGTTCGAATGA	0.448													36	114					2.42023e-17	2.87167e-17	0.003271	1	0		T	164393459	T	T	164393459	2	4	93	1	0	0	0	0	0	0	0	1	15961	1335	47	5		5	TKTL2	4	164393459	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	38023153	164393459	26760817	46	61106											
TLL1	7092	broad.mit.edu	37	chr4	166795130	166795130	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattgttttctacggggagcTatgggtctgcgctggcctcg	4	13	15	9	3	2	0	0	0	2	0	3	2	2	1	1	4	3	3	1	4	2	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:166795130T>A	uc003irh.1	+	1	721	c.74T>A	c.(73-75)CTA>CAA	p.L25Q	TLL1_uc011cjn.1_Missense_Mutation_p.L25Q|TLL1_uc011cjo.1_5'UTR	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	25					cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		TACGGGGAGCTATGGGTCTGC	0.542													37	279					0	0	0.007835	0	0		A	166795130	A	A	166795130	3	1	93	1	0	0	0	0	1	0	0	0	15970	1522	53	5	76	5	TLL1	4	166795130	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	2401671	166795130	24359146	47	61107											
AADAT	51166	broad.mit.edu	37	chr4	170985953	170985953	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccataaaaacattccagcagCaggaacatgccattctgcca	15	7	6	13	0	1	0	0	0	1	0	2	1	2	1	4	1	6	2	4	1	4	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr4:170985953C>G	uc003isr.2	-	11	1393	c.1051G>C	c.(1051-1053)GCT>CCT	p.A351P	AADAT_uc003iss.2_Missense_Mutation_p.A351P|AADAT_uc003ist.2_Missense_Mutation_p.A355P	NM_016228	NP_057312	Q8N5Z0	AADAT_HUMAN	kynurenine aminotransferase II	351					2-oxoglutarate metabolic process|biosynthetic process|glutamate metabolic process|lysine catabolic process	mitochondrial matrix	2-aminoadipate transaminase activity|kynurenine-oxoglutarate transaminase activity|protein homodimerization activity				0		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0355)|LUSC - Lung squamous cell carcinoma(193;0.118)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	ATTCCAGCAGCAGGAACATGC	0.368													10	47					0	0	0.006214	0	0		G	170985953	G	G	170985953	3	3	93	1	0	0	0	0	1	0	0	0	14	710	25	5	238	5	AADAT	4	170985953	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	4190823	170985953	20168323	48	61108											
HTR1A	3350	broad.mit.edu	37	chr5	63256773	63256773	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctccagttcctgctcccCgactctccattcacactctt	6	12	4	19	1	3	0	1	0	2	0	7	1	6	0	6	0	2	2	6	0	0	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr5:63256773C>T	uc011cqt.1	-	1	774	c.774G>A	c.(772-774)TCG>TCA	p.S258S		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	258	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TCCTGCTCCCCGACTCTCCAT	0.657													7	112					0	0	0.00308	0	0		T	63256773	T	T	63256773	2	4	93	1	0	0	0	0	0	0	0	1	7452	639	23	1		1	HTR1A	5	63256773	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08		63256773	117658487	49	61109											
SLCO6A1	133482	broad.mit.edu	37	chr5	101709135	101709135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagtgttctcatttagaCgacgtttgtatatgaaaaat	13	15	8	5	2	2	2	2	1	1	1	3	3	2	2	0	0	0	3	0	0	5	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr5:101709135C>T	uc003knn.2	-	13	2253	c.2081G>A	c.(2080-2082)CGT>CAT	p.R694H	SLCO6A1_uc003kno.2_Missense_Mutation_p.R441H|SLCO6A1_uc003knp.2_Missense_Mutation_p.R694H|SLCO6A1_uc003knq.2_Missense_Mutation_p.R632H	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	694	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		CTCATTTAGACGACGTTTGTA	0.323													16	31					0	0	0.00499	0	0		T	101709135	T	T	101709135	3	4	93	1	0	0	0	0	1	0	0	0	14757	536	19	1	82	1	SLCO6A1	5	101709135	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	38452362	101709135	79206125	50	61110											
SPARC	6678	broad.mit.edu	37	chr5	151051184	151051184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtggggtcctggcacaCgcacatgggggtgttgttct	4	11	17	9	1	1	0	0	0	1	0	2	0	2	0	1	6	0	5	1	6	0	2	rs142207246		TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr5:151051184C>T	uc003luh.2	-	4	304	c.280G>A	c.(280-282)GTG>ATG	p.V94M	GM2A_uc011dcs.1_Intron|SPARC_uc003lug.2_Intron|SPARC_uc003lui.2_Missense_Mutation_p.V94M	NM_003118	NP_003109	P09486	SPRC_HUMAN	secreted protein, acidic, cysteine-rich	94	Kazal-like.				ossification|platelet activation|platelet degranulation|signal transduction	basement membrane|extracellular space|platelet alpha granule lumen	calcium ion binding|collagen binding			central_nervous_system(1)	1		Medulloblastoma(196;0.109)|all_hematologic(541;0.122)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)	OV - Ovarian serous cystadenocarcinoma(192;0.00118)	Becaplermin(DB00102)	TCCTGGCACACGCACATGGGG	0.597													98	139					0	0	0.01441	0	0		T	151051184	T	T	151051184	3	4	93	1	0	0	0	0	1	0	0	0	15020	536	19	1	655	1	SPARC	5	151051184	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	49342049	151051184	29864076	51	61111											
DOCK2	1794	broad.mit.edu	37	chr5	169188588	169188588	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaagcagaaagtacagtCtatgaatgagatagtccaga	17	7	10	7	0	1	5	0	2	1	4	2	6	2	5	2	0	2	2	2	0	6	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr5:169188588C>A	uc003maf.2	+	25	2593	c.2513C>A	c.(2512-2514)TCT>TAT	p.S838Y	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.S330Y	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	838					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AAAGTACAGTCTATGAATGAG	0.483													27	144					1.17739e-12	1.36173e-12	0.005443	1	0		A	169188588	A	A	169188588	3	1	93	1	0	0	0	0	1	0	0	0	4693	913	32	5	2611	5	DOCK2	5	169188588	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	18137404	169188588	11726672	52	61112											
TRIM27	5987	broad.mit.edu	37	chr6	28872099	28872099	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cccacccgctggagcggggtCcgcaggggtagggcagtcat	6	5	17	13	3	1	0	1	0	0	0	2	1	2	1	3	6	1	4	3	6	1	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr6:28872099C>T	uc003nlr.2	-	8	1649	c.1290G>A	c.(1288-1290)CGG>CGA	p.R430R	TRIM27_uc003nls.2_Intron|TRIM27_uc003nlt.1_3'UTR	NM_006510	NP_006501	P14373	TRI27_HUMAN	ret finger protein	430	B30.2/SPRY.				cell proliferation|negative regulation of gene expression, epigenetic|negative regulation of transcription from RNA polymerase II promoter|protein trimerization|spermatogenesis|transcription, DNA-dependent	cytoplasm|integral to plasma membrane|membrane fraction|nuclear membrane|PML body	DNA binding|protein binding|transmembrane receptor protein tyrosine kinase activity|zinc ion binding			ovary(1)	1						GGAGCGGGGTCCGCAGGGGTA	0.537			T	RET	papillary thyroid								43	129					0	0	0.007835	0	0		T	28872099	T	T	28872099	2	4	93	1	0	0	0	0	0	0	0	1	16527	842	30	4		4	TRIM27	6	28872099	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08		28872099	142242968	53	61113											
DHX16	8449	broad.mit.edu	37	chr6	30638885	30638885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcttcctgaggtgtttcCgctttttacgtttcttctgg	2	20	9	10	2	3	1	0	1	3	0	5	1	5	1	2	2	1	4	2	2	1	8			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr6:30638885C>T	uc003nqz.2	-	2	586	c.374G>A	c.(373-375)CGG>CAG	p.R125Q	DHX16_uc011dmo.1_Missense_Mutation_p.R65Q	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	125					mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4						GAGGTGTTTCCGCTTTTTACG	0.488													47	224					0	0	0.010771	0	0		T	30638885	T	T	30638885	3	4	93	1	0	0	0	0	1	0	0	0	4508	652	23	1	2827	1	DHX16	6	30638885	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	1766786	30638885	140476182	54	61114											
FRS3	10817	broad.mit.edu	37	chr6	41738614	41738614	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgccttgggggctcgggccCcggccggcggaaatcaaagt	6	6	16	13	4	1	0	1	0	0	0	2	1	1	1	4	6	1	1	4	6	2	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr6:41738614C>A	uc003orc.1	-	7	1466	c.1222G>T	c.(1222-1224)GGG>TGG	p.G408W		NM_006653	NP_006644	O43559	FRS3_HUMAN	fibroblast growth factor receptor substrate 3	408					fibroblast growth factor receptor signaling pathway	plasma membrane	fibroblast growth factor receptor binding|insulin receptor binding			ovary(2)	2	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GGCTCGGGCCCCGGCCGGCGG	0.687													20	50					4.54149e-19	5.44503e-19	0.014323	1	0		A	41738614	A	A	41738614	3	1	93	1	0	0	0	0	1	0	0	0	6076	623	22	5	260	5	FRS3	6	41738614	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	11099729	41738614	129376453	55	61115											
AARS2	57505	broad.mit.edu	37	chr6	44270564	44270564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcctgctccccagtgacgGccagcaggcgggtagtgccc	5	5	16	15	2	0	1	0	1	0	0	1	1	1	1	5	4	3	3	5	4	1	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr6:44270564G>A	uc010jza.1	-	17	2342	c.2339C>T	c.(2338-2340)GCC>GTC	p.A780V	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	780					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	CCCAGTGACGGCCAGCAGGCG	0.627													3	36					0	0	0.004672	0	0		A	44270564	A	A	44270564	3	1	93	1	0	0	0	0	1	0	0	0	20	1203	42	2	642	2	AARS2	6	44270564	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	2531950	44270564	126844503	56	61116											
KCNQ5	56479	broad.mit.edu	37	chr6	73900347	73900347	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaaggaaacattacgtccAtatgatgtaaaagatgtcat	16	13	7	5	1	1	2	1	1	0	1	2	3	2	3	1	1	2	1	1	1	6	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr6:73900347A>T	uc003pgk.2	+	12	1976	c.1629A>T	c.(1627-1629)CCA>CCT	p.P543P	KCNQ5_uc011dyh.1_Silent_p.P562P|KCNQ5_uc011dyi.1_Silent_p.P553P|KCNQ5_uc010kat.2_Silent_p.P534P|KCNQ5_uc011dyj.1_Silent_p.P433P|KCNQ5_uc011dyk.1_Silent_p.P293P	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	543					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CATTACGTCCATATGATGTAA	0.303													10	24					0	0	0.006214	0	0		T	73900347	T	T	73900347	2	4	93	1	0	0	0	0	0	0	0	1	8102	204	8	5		5	KCNQ5	6	73900347	Silent	SNP	A	TCGA-BR-8690-01A-11D-2394-08	29629783	73900347	97214720	57	61117											
CCNC	892	broad.mit.edu	37	chr6	100009499	100009499	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaatctcttgaaatatacCgtagcagtggcaataacttg	14	12	8	7	1	1	2	0	1	1	1	2	2	1	2	1	1	3	3	1	1	8	7	rs142699138		TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr6:100009499C>T	uc003pqe.2	-	3	485	c.198G>A	c.(196-198)ACG>ACA	p.T66T	uc003pqc.2_Intron|CCNC_uc003pqd.2_5'UTR|CCNC_uc010kcr.2_RNA|CCNC_uc010kcs.2_Silent_p.T66T|CCNC_uc011eah.1_5'UTR|CCNC_uc003pqf.2_Silent_p.T66T	NM_005190	NP_005181	P24863	CCNC_HUMAN	cyclin C isoform a	66	Cyclin N-terminal.				regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	DNA-directed RNA polymerase II, holoenzyme	protein kinase binding				0		all_cancers(76;8.46e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.064)		TGAAATATACCGTAGCAGTGG	0.299													7	48					0	0	0.00308	0	0		T	100009499	T	T	100009499	2	4	93	1	0	0	0	0	0	0	0	1	2918	639	23	1		1	CCNC	6	100009499	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	26109152	100009499	71105568	58	61118											
TPD52L1	7164	broad.mit.edu	37	chr6	125584070	125584070	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcccagagcttggcaggaGgctcccggcggaccaaggag	8	4	17	12	2	0	1	0	0	0	1	1	4	1	4	3	6	2	3	3	6	1	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr6:125584070G>C	uc003pzu.1	+	7	796	c.577G>C	c.(577-579)GGC>CGC	p.G193R	TPD52L1_uc003pzv.1_3'UTR|TPD52L1_uc003pzw.1_3'UTR|TPD52L1_uc003pzy.1_Missense_Mutation_p.G164R|TPD52L1_uc003pzz.1_3'UTR	NM_003287	NP_003278	Q16890	TPD53_HUMAN	tumor protein D52-like 1 isoform 1	193					DNA fragmentation involved in apoptotic nuclear change|G2/M transition of mitotic cell cycle|induction of apoptosis|positive regulation of JNK cascade|positive regulation of MAP kinase activity	perinuclear region of cytoplasm	caspase activator activity|protein heterodimerization activity|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0265)		CTTGGCAGGAGGCTCCCGGCG	0.612													16	39					0	0	0.003163	0	0		C	125584070	C	C	125584070	3	2	93	1	0	0	0	0	1	0	0	0	16424	1000	35	5	603	5	TPD52L1	6	125584070	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	25574571	125584070	45530997	59	61119											
C6orf174	387104	broad.mit.edu	37	chr6	127796864	127796864	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccttcgcgcttgcggtgCggaggccgcgagtcgtcgtc	2	8	17	14	8	0	0	0	0	0	0	4	2	0	1	2	4	2	1	2	4	0	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr6:127796864C>T	uc003qbd.2	-	6	3172	c.2307G>A	c.(2305-2307)CCG>CCA	p.P769P	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	769						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		GCTTGCGGTGCGGAGGCCGCG	0.731													18	79					0	0	0.00499	0	0		T	127796864	T	T	127796864	2	4	93	1	0	0	0	0	0	0	0	1	2348	755	27	1		1	C6orf174	6	127796864	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	2212794	127796864	43318203	60	61120											
PCLO	27445	broad.mit.edu	37	chr7	82579130	82579130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatctctaaaggtgttgggcGtttcttgtctttgggtggag	6	16	14	5	1	3	0	0	0	3	0	4	1	3	1	0	4	0	2	0	4	3	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr7:82579130G>A	uc003uhx.2	-	6	11063	c.10774C>T	c.(10774-10776)CGC>TGC	p.R3592C	PCLO_uc003uhv.2_Missense_Mutation_p.R3592C|PCLO_uc010lec.2_Missense_Mutation_p.R557C	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3523					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GGTGTTGGGCGTTTCTTGTCT	0.483													27	80					0	0	0.005443	0	0		A	82579130	A	A	82579130	3	1	93	1	0	0	0	0	1	0	0	0	11602	1145	40	1	4751	1	PCLO	7	82579130	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08		82579130	76559533	61	61121											
ABCB1	5243	broad.mit.edu	37	chr7	87179782	87179782	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattaatcatttatcactgtAccttaacttcttttcgagat	11	18	4	8	1	3	1	2	0	1	1	4	3	3	1	1	0	2	1	1	0	4	8			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr7:87179782A>G	uc003uiz.1	-	12	1642	c.1224_splice	c.e12+1	p.K408_splice	ABCB1_uc011khc.1_Splice_Site_p.K344_splice	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1						G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	TTATCACTGTACCTTAACTTC	0.313													8	40					0	0	0.00308	0	0		G	87179782	G	G	87179782	5	3	93	1	0	0	0	0	0	0	1	0	40	405	14	3	2688	3	ABCB1	7	87179782	Splice_Site	SNP	A	TCGA-BR-8690-01A-11D-2394-08	4600652	87179782	71958881	62	61122											
CCDC132	55610	broad.mit.edu	37	chr7	92887535	92887535	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcttgcaaatcaaaggAaacgtcagttgctgattgga	12	11	10	8	1	3	1	2	1	1	0	3	3	3	3	1	2	3	3	1	2	3	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr7:92887535A>G	uc003umo.2	+	7	615	c.487A>G	c.(487-489)AAA>GAA	p.K163E	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.K133E|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Intron|CCDC132_uc003umn.2_Missense_Mutation_p.K163E	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	163											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			AAATCAAAGGAAACGTCAGTT	0.308													9	26					0	0	0.006214	0	0		G	92887535	G	G	92887535	3	3	93	1	0	0	0	0	1	0	0	0	2770	247	9	3	513	3	CCDC132	7	92887535	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	5707753	92887535	66251128	63	61123											
OR2AE1	81392	broad.mit.edu	37	chr7	99473925	99473925	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaaagagaaaccaccgtGaggtgggagccacaagtggc	15	3	13	10	1	0	2	0	1	0	1	0	4	0	3	4	3	3	0	4	3	4	0			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr7:99473925G>T	uc003usc.1	-	1	732	c.732C>A	c.(730-732)CTC>CTA	p.L244L		NM_001005276	NP_001005276	Q8NHA4	O2AE1_HUMAN	olfactory receptor, family 2, subfamily AE,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)					AAACCACCGTGAGGTGGGAGC	0.478													40	93					1.30998e-17	1.56243e-17	0.005524	1	0		T	99473925	T	T	99473925	2	4	93	1	0	0	0	0	0	0	0	1	11002	1277	45	5		5	OR2AE1	7	99473925	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	6586390	99473925	59664738	64	61124											
CUX1	1523	broad.mit.edu	37	chr7	101821910	101821910	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctcacagcttgagcagcaGctgagcgccaaaaacagcac	14	5	9	13	1	1	2	1	2	1	0	2	2	1	2	1	0	7	5	1	0	2	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr7:101821910G>T	uc003uyx.3	+	11	1028	c.990G>T	c.(988-990)CAG>CAT	p.Q330H	CUX1_uc003uys.3_Missense_Mutation_p.Q341H|CUX1_uc003uyt.2_Missense_Mutation_p.Q341H|CUX1_uc011kkn.1_Missense_Mutation_p.Q302H|CUX1_uc003uyw.2_Missense_Mutation_p.Q295H|CUX1_uc003uyv.2_Missense_Mutation_p.Q325H|CUX1_uc003uyu.2_Missense_Mutation_p.Q339H	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	330	Potential.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						TTGAGCAGCAGCTGAGCGCCA	0.647													11	16					5.50884e-06	5.92265e-06	0.013537	1	0		T	101821910	T	T	101821910	3	4	93	1	0	0	0	0	1	0	0	0	4067	962	34	5	1099	5	CUX1	7	101821910	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	2347985	101821910	57316753	65	61125											
AASS	10157	broad.mit.edu	37	chr7	121773576	121773576	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attggaaatactcaccttatCatgaatggcccgccgattcg	11	11	8	11	3	2	1	2	1	0	0	3	3	2	2	3	2	1	0	3	2	4	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr7:121773576C>G	uc003vka.2	-	1	301	c.205G>C	c.(205-207)GAT>CAT	p.D69H	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.D69H|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	69	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	CTCACCTTATCATGAATGGCC	0.423													4	64					0	0	0.009096	0	0		G	121773576	G	G	121773576	3	3	93	1	0	0	0	0	1	0	0	0	24	826	29	5	2667	5	AASS	7	121773576	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	19951666	121773576	37365087	66	61126											
GIMAP6	474344	broad.mit.edu	37	chr7	150325053	150325053	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctccatgagctctcgcagTtgggcctcctgctcctcccc	3	12	8	18	1	2	1	0	1	2	0	7	1	5	1	6	1	2	4	6	1	0	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr7:150325053T>G	uc003whn.2	-	3	1057	c.633A>C	c.(631-633)CAA>CAC	p.Q211H	GIMAP6_uc003whm.2_Missense_Mutation_p.Q131H	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	211							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCTCTCGCAGTTGGGCCTCCT	0.537													14	340					0	0	0.00245	0	0		G	150325053	G	G	150325053	3	3	93	1	0	0	0	0	1	0	0	0	6398	1722	60	5	249	5	GIMAP6	7	150325053	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	28551477	150325053	8813610	67	61127											
ABCB8	11194	broad.mit.edu	37	chr7	150733041	150733041	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgtgccttcgccatggagCaacgggaagaggagtgagtc	9	7	16	9	3	0	2	0	1	0	1	2	5	0	5	2	3	4	1	2	3	2	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr7:150733041C>T	uc003wil.3	+	8	1144	c.1051C>T	c.(1051-1053)CAA>TAA	p.Q351*	ABCB8_uc003wii.2_Nonsense_Mutation_p.Q371*|ABCB8_uc003wij.3_Nonsense_Mutation_p.Q334*|ABCB8_uc010lpw.1_Missense_Mutation_p.A199V|ABCB8_uc010lpx.2_Nonsense_Mutation_p.Q334*|ABCB8_uc011kvd.1_Nonsense_Mutation_p.Q246*|ABCB8_uc003wim.3_Nonsense_Mutation_p.Q129*|ABCB8_uc003wik.3_Nonsense_Mutation_p.Q334*	NM_007188	NP_009119	Q9NUT2	ABCB8_HUMAN	ATP-binding cassette, sub-family B, member 8	351	ABC transmembrane type-1.					ATP-binding cassette (ABC) transporter complex|integral to membrane|membrane fraction|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGCCATGGAGCAACGGGAAGA	0.632													8	47					0	0	0.004482	0	0		T	150733041	T	T	150733041	4	4	93	1	0	0	0	0	0	1	0	0	47	711	25	2	1026	2	ABCB8	7	150733041	Nonsense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	407988	150733041	8405622	68	61128											
FAM86B2	653333	broad.mit.edu	37	chr8	12286292	12286292	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgagaaggacattccctcGgagctgctcgaggatccggc	9	8	13	11	3	0	1	0	1	0	1	4	6	2	4	2	4	2	2	2	4	1	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr8:12286292G>A	uc003wvt.3	-	6	592	c.592C>T	c.(592-594)CGA>TGA	p.R198*	FAM66D_uc011kxp.1_Intron|uc003wvm.1_Intron|FAM86B2_uc003wvq.3_Intron|FAM86B2_uc003wvr.3_Nonsense_Mutation_p.R21*|FAM86B2_uc003wvs.3_Nonsense_Mutation_p.R98*|FAM86B2_uc010lsn.2_Intron|FAM86B2_uc003wvu.3_Intron|FAM86B2_uc010lso.2_Intron|FAM86B2_uc011kxt.1_Intron|FAM86B2_uc011kxu.1_Intron|FAM86B2_uc010lsl.2_Intron	NM_001137610	NP_001131082	P0C5J1	F86B2_HUMAN	hypothetical protein LOC653333	198											0						ACATTCCCTCGGAGCTGCTCG	0.612													7	38					0	0	0.001984	0	0		A	12286292	A	A	12286292	4	1	93	1	0	0	0	0	0	1	0	0	5659	1124	39	1	412	1	FAM86B2	8	12286292	Nonsense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08		12286292	134077730	69	61129											
RNF122	79845	broad.mit.edu	37	chr8	33416224	33416224	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgttgagcggaaggtcctGgaaactgatgggtggcatcg	9	9	17	6	2	0	2	0	2	0	0	2	5	1	4	1	5	2	2	1	5	2	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr8:33416224G>A	uc003xjo.1	-	2	493	c.91C>T	c.(91-93)CAG>TAG	p.Q31*		NM_024787	NP_079063	Q9H9V4	RN122_HUMAN	ring finger protein 122	31						endoplasmic reticulum|Golgi apparatus|integral to membrane	zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(67;0.0966)|Kidney(114;0.116)		GGAAGGTCCTGGAAACTGATG	0.483													10	70					0	0	0.008291	0	0		A	33416224	A	A	33416224	4	1	93	1	0	0	0	0	0	1	0	0	13457	1357	47	4	396	4	RNF122	8	33416224	Nonsense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	21129932	33416224	112947798	70	61130											
SOX17	64321	broad.mit.edu	37	chr8	55371955	55371955	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcgcgcctccgctcgaCggctacccgttgcccacgcc	3	6	12	20	7	0	0	0	0	0	0	2	1	1	0	5	2	2	3	5	2	1	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr8:55371955C>T	uc003xsb.3	+	2	849	c.645C>T	c.(643-645)GAC>GAT	p.D215D		NM_022454	NP_071899	Q9H6I2	SOX17_HUMAN	SRY-box 17	215					angiogenesis|cardiac cell fate determination|endocardial cell differentiation|endocardium formation|endoderm formation|heart formation|heart looping|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|outflow tract morphogenesis|positive regulation of transcription, DNA-dependent|protein destabilization|protein stabilization|regulation of embryonic development|renal system development|vasculogenesis|Wnt receptor signaling pathway	transcription factor complex	beta-catenin binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			lung(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.176)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;1.9e-07)|Epithelial(17;1.7e-05)|all cancers(17;0.000159)			CTCCGCTCGACGGCTACCCGT	0.766													4	17					0	0	0.000602	0	0		T	55371955	T	T	55371955	2	4	93	1	0	0	0	0	0	0	0	1	14972	535	19	1		1	SOX17	8	55371955	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	21955731	55371955	90992067	71	61131											
TRPA1	8989	broad.mit.edu	37	chr8	72951146	72951146	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cactagtttcattgatgatgCcagttgagttgaaagccatt	11	14	9	7	0	1	4	1	4	0	0	1	4	1	4	2	0	2	3	2	0	2	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr8:72951146C>A	uc003xza.2	-	19	2424	c.2249G>T	c.(2248-2250)GGC>GTC	p.G750V	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	750	Extracellular (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	ATTGATGATGCCAGTTGAGTT	0.308													7	57					0.00198382	0.0020281	0.001984	1	0		A	72951146	A	A	72951146	3	1	93	1	0	0	0	0	1	0	0	0	16603	739	26	5	1146	5	TRPA1	8	72951146	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	17579191	72951146	73412876	72	61132											
UBR5	51366	broad.mit.edu	37	chr8	103297970	103297970	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatggtaccactccggcgtAagtttgaaggatcaatataa	13	11	10	7	2	1	2	1	2	0	0	2	3	2	3	2	3	1	3	2	3	6	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr8:103297970A>C	uc003ykr.1	-	39	5288	c.5255T>G	c.(5254-5256)TTA>TGA	p.L1752*	UBR5_uc003yks.1_Nonsense_Mutation_p.L1752*	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1752					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			ACTCCGGCGTAAGTTTGAAGG	0.458													54	85					0	0	0.01441	0	0		C	103297970	C	C	103297970	4	2	93	1	0	0	0	0	0	1	0	0	16931	372	13	5	3228	5	UBR5	8	103297970	Nonsense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	30346824	103297970	43066052	73	61133											
CSMD3	114788	broad.mit.edu	37	chr8	113933973	113933973	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagagaactgcacagttgAtccaaggctaaagttaaata	18	8	8	7	0	0	2	0	1	0	1	1	3	1	2	1	1	2	4	1	1	8	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr8:113933973A>C	uc003ynu.2	-	10	1675	c.1516T>G	c.(1516-1518)TCA>GCA	p.S506A	CSMD3_uc003ynt.2_Missense_Mutation_p.S466A|CSMD3_uc011lhx.1_Missense_Mutation_p.S402A	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	506	Extracellular (Potential).|Sushi 2.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TGCACAGTTGATCCAAGGCTA	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			12	99					0	0	0.013537	0	0		C	113933973	C	C	113933973	3	2	93	1	0	0	0	0	1	0	0	0	3949	333	12	5	9855	5	CSMD3	8	113933973	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	10636003	113933973	32430049	74	61134											
TRPS1	7227	broad.mit.edu	37	chr8	116427158	116427158	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcttctgacctcctctctAacgggcttccattgacttgc	6	14	7	14	1	3	2	0	2	3	0	6	3	5	2	3	1	2	1	3	1	1	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr8:116427158A>C	uc003ynz.2	-	6	3398	c.2939T>G	c.(2938-2940)TTA>TGA	p.L980*	TRPS1_uc011lhy.1_Nonsense_Mutation_p.L984*|TRPS1_uc003yny.2_Nonsense_Mutation_p.L993*|TRPS1_uc010mcy.2_Nonsense_Mutation_p.L980*	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	980					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			CCTCCTCTCTAACGGGCTTCC	0.493									Langer-Giedion_syndrome				29	315					0	0	0.008361	0	0		C	116427158	C	C	116427158	4	2	93	1	0	0	0	0	0	1	0	0	16619	372	13	5	910	5	TRPS1	8	116427158	Nonsense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	2493185	116427158	29936864	75	61135											
HAS2	3037	broad.mit.edu	37	chr8	122626532	122626532	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccttataaatggtgaaaatCacaccacccaggaggattgt	14	10	8	9	0	1	1	1	1	0	0	2	3	2	3	3	3	0	0	3	3	5	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr8:122626532C>G	uc003yph.2	-	4	2014	c.1476G>C	c.(1474-1476)GTG>GTC	p.V492V		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	492	Helical; Name=6; (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			TGGTGAAAATCACACCACCCA	0.413													24	189					0	0	0.00333	0	0		G	122626532	G	G	122626532	2	3	93	1	0	0	0	0	0	0	0	1	6978	813	29	5		5	HAS2	8	122626532	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	6199374	122626532	23737490	76	61136											
LRRC6	23639	broad.mit.edu	37	chr8	133584696	133584696	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagggaatgagtgcttgctaGggtctacttctagtttctcc	7	14	11	9	0	3	1	0	1	3	0	4	2	3	2	1	2	3	3	1	2	4	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr8:133584696G>T	uc003ytk.2	-	12	1333	c.1259C>A	c.(1258-1260)CCT>CAT	p.P420H	LRRC6_uc003ytl.2_RNA	NM_012472	NP_036604	Q86X45	LRRC6_HUMAN	leucine rich repeat containing 6	420						cytoplasm				ovary(1)|kidney(1)	2	Ovarian(258;0.00352)|Esophageal squamous(12;0.00507)|all_neural(3;0.0052)|Medulloblastoma(3;0.0922)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			GTGCTTGCTAGGGTCTACTTC	0.368													13	198					3.27435e-08	3.60494e-08	0.00245	1	0		T	133584696	T	T	133584696	3	4	93	1	0	0	0	0	1	0	0	0	9034	1000	35	5	145	5	LRRC6	8	133584696	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	10958164	133584696	12779326	77	61137											
CA9	768	broad.mit.edu	37	chr9	35680798	35680798	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttttgctgtcaccagcgTcgcgttccttgtgcagatga	5	14	10	12	3	1	2	1	1	0	1	3	2	2	2	3	0	3	3	3	0	0	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr9:35680798T>C	uc003zxo.3	+	10	1328	c.1286T>C	c.(1285-1287)GTC>GCC	p.V429A	CA9_uc003zxp.3_Missense_Mutation_p.V420A	NM_001216	NP_001207	Q16790	CAH9_HUMAN	carbonic anhydrase IX precursor	429	Helical; (Potential).				one-carbon metabolic process	integral to membrane|microvillus membrane|nucleolus	carbonate dehydratase activity|zinc ion binding			ovary(4)|skin(1)	5	all_epithelial(49;0.217)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GTCACCAGCGTCGCGTTCCTT	0.547													5	89					0	0	0.000602	0	0		C	35680798	C	C	35680798	3	2	93	1	0	0	0	0	1	0	0	0	2527	1667	58	3	1324	3	CA9	9	35680798	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08		35680798	105532633	78	61138											
ZNF484	83744	broad.mit.edu	37	chr9	95609461	95609461	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtatcctgagccgagaCttccaggtgaatgattttcc	9	13	10	9	1	0	5	0	4	0	1	3	6	3	5	4	1	1	1	4	1	2	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr9:95609461C>T	uc004asu.1	-	5	1757	c.1608G>A	c.(1606-1608)AAG>AAA	p.K536K	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Silent_p.K538K|ZNF484_uc010mrb.1_Silent_p.K500K|ZNF484_uc004asv.1_Silent_p.K500K	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	536	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGAGCCGAGACTTCCAGGTGA	0.403													19	160					0	0	0.007413	0	0		T	95609461	T	T	95609461	2	4	93	1	0	0	0	0	0	0	0	1	17962	564	20	4		4	ZNF484	9	95609461	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	59928663	95609461	45603970	79	61139											
PTCH1	5727	broad.mit.edu	37	chr9	98240429	98240429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtggtggtgaaggaaagcaCcttttgagtggagttctgtg	8	12	16	5	1	1	2	0	2	1	0	1	4	1	4	1	4	1	2	1	4	2	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr9:98240429C>T	uc004avk.3	-	9	1443	c.1255G>A	c.(1255-1257)GTG>ATG	p.V419M	PTCH1_uc010mro.2_Missense_Mutation_p.V268M|PTCH1_uc010mrp.2_Missense_Mutation_p.V268M|PTCH1_uc010mrq.2_Missense_Mutation_p.V268M|PTCH1_uc004avl.3_Missense_Mutation_p.V268M|PTCH1_uc010mrr.2_Missense_Mutation_p.V353M|PTCH1_uc004avm.3_Missense_Mutation_p.V418M|PTCH1_uc010mrs.1_Missense_Mutation_p.V139M	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	419	Extracellular (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				AAGGAAAGCACCTTTTGAGTG	0.517									Basal_Cell_Nevus_syndrome				15	89					0	0	0.004007	0	0		T	98240429	T	T	98240429	3	4	93	1	0	0	0	0	1	0	0	0	12752	507	18	4	3148	4	PTCH1	9	98240429	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	2630968	98240429	42973002	80	61140											
TDRD7	23424	broad.mit.edu	37	chr9	100257957	100257957	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcctaggagtgaagtgcaAccagtggtctgaggaggctt	9	9	14	9	0	1	2	0	2	1	0	2	4	2	4	3	4	2	2	3	4	3	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr9:100257957A>G	uc004axj.2	+	17	3314	c.3089A>G	c.(3088-3090)AAC>AGC	p.N1030S	TDRD7_uc011lux.1_Missense_Mutation_p.N956S|TDRD7_uc011luy.1_Missense_Mutation_p.N350S	NM_014290	NP_055105	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	1030	Interacts with CDK17 (By similarity).|Interacts with CABLES1 (By similarity).				lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)				GTGAAGTGCAACCAGTGGTCT	0.448													15	137					0	0	0.00499	0	0		G	100257957	G	G	100257957	3	3	93	1	0	0	0	0	1	0	0	0	15760	43	2	3	3151	3	TDRD7	9	100257957	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	2017528	100257957	40955474	81	61141											
SVEP1	79987	broad.mit.edu	37	chr9	113265372	113265372	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttccttgacaagtaagctTatcactgccttctagtctgt	8	16	7	10	0	3	1	1	1	2	0	4	1	4	1	2	0	2	3	2	0	4	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr9:113265372T>C	uc010mtz.2	-	6	1766	c.1429A>G	c.(1429-1431)AAG>GAG	p.K477E	SVEP1_uc010mua.1_Missense_Mutation_p.K477E|SVEP1_uc004beu.2_Missense_Mutation_p.K477E	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	477	Sushi 2.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						CAAGTAAGCTTATCACTGCCT	0.463													24	72					0	0	0.004656	0	0		C	113265372	C	C	113265372	3	2	93	1	0	0	0	0	1	0	0	0	15445	1763	61	3	9458	3	SVEP1	9	113265372	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	13007415	113265372	27948059	82	61142											
TLR4	7099	broad.mit.edu	37	chr9	120475724	120475724	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttgaaacaaatgagtgagTtttcagtattcctatcactc	13	15	6	7	0	2	3	2	3	0	0	4	3	3	3	1	0	1	2	1	0	4	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr9:120475724T>G	uc004bjz.2	+	3	1609	c.1318T>G	c.(1318-1320)TTT>GTT	p.F440V	TLR4_uc004bka.2_Missense_Mutation_p.F400V|TLR4_uc004bkb.2_Missense_Mutation_p.F240V	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	440	LRR 13.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						AATGAGTGAGTTTTCAGTATT	0.388													15	78					0	0	0.00245	0	0		G	120475724	G	G	120475724	3	3	93	1	0	0	0	0	1	0	0	0	15978	1725	60	5	1328	5	TLR4	9	120475724	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	7210352	120475724	20737707	83	61143											
C5	727	broad.mit.edu	37	chr9	123785724	123785724	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcttcaggaaaagaggagtAgcaaccaaattcagtttgta	15	9	11	6	0	2	1	2	0	0	1	2	3	2	3	1	3	2	5	1	3	6	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr9:123785724A>C	uc004bkv.2	-	10	1104	c.1074T>G	c.(1072-1074)GCT>GCG	p.A358A	C5_uc010mvm.1_Silent_p.A358A|C5_uc010mvn.1_Silent_p.A358A	NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	358					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	AAAGAGGAGTAGCAACCAAAT	0.438													35	120					0	0	0.003755	0	0		C	123785724	C	C	123785724	2	2	93	1	0	0	0	0	0	0	0	1	2283	407	15	5		5	C5	9	123785724	Silent	SNP	A	TCGA-BR-8690-01A-11D-2394-08	3310000	123785724	17427707	84	61144											
ENKUR	219670	broad.mit.edu	37	chr10	25279504	25279504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttctttatttcctcgtttCgcttacatatgtattcaggt	6	21	5	9	2	2	0	1	0	1	0	5	0	3	0	1	1	1	3	1	1	4	9			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr10:25279504C>T	uc001isg.1	-	4	647	c.482G>A	c.(481-483)CGA>CAA	p.R161Q	ENKUR_uc001ish.1_Missense_Mutation_p.R99Q	NM_145010	NP_659447	Q8TC29	ENKUR_HUMAN	enkurin	161						cilium|flagellum	calmodulin binding|SH3 domain binding				0						TTCCTCGTTTCGCTTACATAT	0.358													7	26					0	0	0.001984	0	0		T	25279504	T	T	25279504	3	4	93	1	0	0	0	0	1	0	0	0	5128	884	31	1	300	1	ENKUR	10	25279504	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08		25279504	110255243	85	61145											
FRMPD2	143162	broad.mit.edu	37	chr10	49393656	49393656	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttctcggcccggttcagCtataaagctcttcctcctat	8	14	6	13	2	3	0	1	0	2	0	6	0	5	0	3	2	2	3	3	2	5	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr10:49393656C>A	uc001jgi.2	-	18	2406	c.2299G>T	c.(2299-2301)GCT>TCT	p.A767S	FRMPD2_uc001jgh.2_Missense_Mutation_p.A735S|FRMPD2_uc001jgj.2_Missense_Mutation_p.A745S	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	767					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		CCCGGTTCAGCTATAAAGCTC	0.473													12	78					7.03913e-09	7.90176e-09	0.013537	1	0		A	49393656	A	A	49393656	3	1	93	1	0	0	0	0	1	0	0	0	6072	797	28	5	1678	5	FRMPD2	10	49393656	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	24114152	49393656	86141091	86	61146											
CSTF2T	23283	broad.mit.edu	37	chr10	53458048	53458048	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacctcagtttccatggcaCgagtctccatcgctcgagaa	10	9	9	13	3	2	2	1	0	1	2	6	4	3	2	3	1	0	3	3	1	1	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr10:53458048C>A	uc001jjp.2	-	1	1308	c.1262G>T	c.(1261-1263)CGT>CTT	p.R421L	PRKG1_uc001jjm.2_Intron|PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron	NM_015235	NP_056050	Q9H0L4	CSTFT_HUMAN	cleavage stimulation factor, 3' pre-RNA, subunit	421	9 X 5 AA tandem repeats of M-E-T-R-[AG].|Gly-rich.|1-1.				mRNA processing	nucleus	nucleotide binding|RNA binding			ovary(1)	1				COAD - Colon adenocarcinoma(2;0.00736)|Colorectal(2;0.00898)|all cancers(4;0.0188)|GBM - Glioblastoma multiforme(4;0.0778)|Epithelial(53;0.122)		TTCCATGGCACGAGTCTCCAT	0.527													27	166					3.01185e-09	3.3976e-09	0.003954	1	0		A	53458048	A	A	53458048	3	1	93	1	0	0	0	0	1	0	0	0	3988	536	19	5	592	5	CSTF2T	10	53458048	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	4064392	53458048	82076699	87	61147											
TET1	80312	broad.mit.edu	37	chr10	70446291	70446291	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggcaccccgccgcaaaaaaaGaacgtgtttcactcagcctg	12	6	9	14	3	2	1	2	0	0	1	2	1	2	1	4	1	2	3	4	1	4	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr10:70446291G>C	uc001jok.3	+	11	5736	c.5231G>C	c.(5230-5232)AGA>ACA	p.R1744T		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1744					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						CGCAAAAAAAGAACGTGTTTC	0.493													26	89					0	0	0.009535	0	0		C	70446291	C	C	70446291	3	2	93	1	0	0	0	0	1	0	0	0	15794	942	33	5	5269	5	TET1	10	70446291	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	16988243	70446291	65088456	88	61148											
CDH23	64072	broad.mit.edu	37	chr10	73538045	73538045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgccccatcttatcccacCgcctcacctctaccaccacg	8	8	4	21	2	3	0	1	0	2	0	4	0	4	0	8	0	2	0	8	0	2	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr10:73538045C>T	uc001jrx.3	+	38	5544	c.5167C>T	c.(5167-5169)CGC>TGC	p.R1723C		NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1723	Cadherin 16.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CTTATCCCACCGCCTCACCTC	0.612													11	48					0	0	0.010729	0	0		T	73538045	T	T	73538045	3	4	93	1	0	0	0	0	1	0	0	0	3111	652	23	1	5666	1	CDH23	10	73538045	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	3091754	73538045	61996702	89	61149											
OIT3	170392	broad.mit.edu	37	chr10	74658610	74658610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaccactgtggaacccacGcacctgtctggctcaatggc	11	7	9	14	1	2	0	1	0	1	0	2	1	2	1	3	3	2	2	3	3	4	0			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr10:74658610G>A	uc001jte.1	+	2	468	c.250G>A	c.(250-252)GCA>ACA	p.A84T	OIT3_uc009xqs.1_RNA	NM_152635	NP_689848	Q8WWZ8	OIT3_HUMAN	oncoprotein-induced transcript 3 precursor	84						nuclear envelope	calcium ion binding			ovary(2)	2	Prostate(51;0.0198)					TGGAACCCACGCACCTGTCTG	0.567													15	71					0	0	0.00499	0	0		A	74658610	A	A	74658610	3	1	93	1	0	0	0	0	1	0	0	0	10868	1087	38	1	256	1	OIT3	10	74658610	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	1120565	74658610	60876137	90	61150											
PLCE1	51196	broad.mit.edu	37	chr10	95931103	95931103	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taccgcagggtcttgccagtCgactacctttgcttcttaac	7	13	8	13	2	2	0	0	0	2	0	3	1	2	0	3	1	5	2	3	1	3	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr10:95931103C>T	uc001kjk.2	+	4	2293	c.1659C>T	c.(1657-1659)GTC>GTT	p.V553V	PLCE1_uc010qnx.1_Silent_p.V553V|PLCE1_uc001kjm.2_Silent_p.V245V	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	553	Ras-GEF.				activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				TCTTGCCAGTCGACTACCTTT	0.542													21	191					0	0	0.008871	0	0		T	95931103	T	T	95931103	2	4	93	1	0	0	0	0	0	0	0	1	12053	871	31	1		1	PLCE1	10	95931103	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	21272493	95931103	39603644	91	61151											
SH3PXD2A	9644	broad.mit.edu	37	chr10	105526894	105526894	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttggggtccttctggcCaccttcaatgggaaacttat	7	14	10	10	0	2	0	1	0	1	0	3	1	3	1	3	4	2	1	3	4	3	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr10:105526894C>A	uc001kxj.1	-	3	327	c.187G>T	c.(187-189)GGC>TGC	p.G63C		NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	63	PX.				cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)		TCCTTCTGGCCACCTTCAATG	0.547													4	35					0.00024832	0.00026085	0.009096	1	0		A	105526894	A	A	105526894	3	1	93	1	0	0	0	0	1	0	0	0	14281	594	21	5	3178	5	SH3PXD2A	10	105526894	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	9595791	105526894	30007853	92	61152											
HSPA12A	259217	broad.mit.edu	37	chr10	118458177	118458177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctccttaaagtactgcaggGcataagcaaagatttcaagg	14	9	10	8	0	1	1	1	0	0	1	2	1	2	1	1	2	3	5	1	2	6	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr10:118458177G>A	uc001lct.2	-	5	620	c.515C>T	c.(514-516)GCC>GTC	p.A172V	HSPA12A_uc001lcu.2_Missense_Mutation_p.A89V	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	172							ATP binding			ovary(1)	1				all cancers(201;0.0158)		GTACTGCAGGGCATAAGCAAA	0.537													7	132					0	0	0.00308	0	0		A	118458177	A	A	118458177	3	1	93	1	0	0	0	0	1	0	0	0	7420	1203	42	2	1544	2	HSPA12A	10	118458177	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	12931283	118458177	17076570	93	61153											
MUC2	4583	broad.mit.edu	37	chr11	1087573	1087573	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtaccaaagagggggcctgCgtgttctggaggacgccgga	8	7	17	9	3	1	1	0	0	1	1	1	4	1	4	3	5	2	2	3	5	2	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr11:1087573C>T	uc001lsx.1	+	24	3351	c.3324C>T	c.(3322-3324)TGC>TGT	p.C1108C		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	1108						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	AGGGGGCCTGCGTGTTCTGGA	0.667													3	28					0	0	0.004672	0	0		T	1087573	T	T	1087573	2	4	93	1	0	0	0	0	0	0	0	1	9993	776	27	1		1	MUC2	11	1087573	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08		1087573	133918943	94	61154											
SERGEF	26297	broad.mit.edu	37	chr11	18010292	18010292	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttccccaaacatacacCtctcctgcatcttaaacaaa	13	11	2	15	0	2	0	0	0	2	0	4	0	3	0	4	0	5	2	4	0	5	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr11:18010292C>A	uc001mnm.2	-	8	776	c.696G>T	c.(694-696)GAG>GAT	p.E232D	SERGEF_uc009yhd.2_RNA|SERGEF_uc001mnn.2_Missense_Mutation_p.E232D|SERGEF_uc010rcz.1_Missense_Mutation_p.E118D|SERGEF_uc001mno.1_Missense_Mutation_p.E118D	NM_012139	NP_036271	Q9UGK8	SRGEF_HUMAN	deafness locus associated putative guanine	232	RCC1 5.				negative regulation of protein secretion|signal transduction	cytoplasm|nucleus	protein binding|Ran guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1						AAACATACACCTCTCCTGCAT	0.403													7	44					5.18039e-06	5.5958e-06	0.00308	1	0		A	18010292	A	A	18010292	3	1	93	1	0	0	0	0	1	0	0	0	14102	680	24	5	696	5	SERGEF	11	18010292	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	16922719	18010292	116996224	95	61155											
AMBRA1	55626	broad.mit.edu	37	chr11	46430169	46430169	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtctgggtgccctgagatgtCactgaggtggcagggttccg	5	10	17	9	1	2	2	1	2	1	1	3	3	3	2	2	4	1	2	2	4	0	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr11:46430169C>T	uc010rgu.1	-	17	3657	c.3297G>A	c.(3295-3297)GTG>GTA	p.V1099V	AMBRA1_uc010rgt.1_Intron|AMBRA1_uc009ylc.1_Silent_p.V1070V|AMBRA1_uc001ncu.1_Silent_p.V1009V|AMBRA1_uc001ncv.2_Silent_p.V1102V|AMBRA1_uc001ncw.2_Silent_p.V980V|AMBRA1_uc001ncx.2_Silent_p.V1039V	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	1099					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		CCTGAGATGTCACTGAGGTGG	0.602													14	68					0	0	0.001855	0	0		T	46430169	T	T	46430169	2	4	93	1	0	0	0	0	0	0	0	1	565	813	29	4		4	AMBRA1	11	46430169	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	28419877	46430169	88576347	96	61156											
OR1S1	219959	broad.mit.edu	37	chr11	57982414	57982414	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggctatcagcttggatacGtaccttcatacccccatgta	9	12	8	12	1	2	0	2	0	0	0	2	1	2	1	3	2	4	4	3	2	5	7	rs111386724	byFrequency	TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr11:57982414G>A	uc010rkc.1	+	1	198	c.198G>A	c.(196-198)ACG>ACA	p.T66T		NM_001004458	NP_001004458	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S,	66	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Breast(21;0.0589)				GCTTGGATACGTACCTTCATA	0.443													68	148					0	0	0.01441	0	0		A	57982414	A	A	57982414	2	1	93	1	0	0	0	0	0	0	0	1	10991	1132	40	1		1	OR1S1	11	57982414	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	11552245	57982414	77024102	97	61157											
CNTF	1270	broad.mit.edu	37	chr11	58391931	58391931	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgaccttcgtttcatttCttctcatcagactgggatcc	7	15	6	13	1	4	2	3	1	2	1	7	3	5	3	3	1	0	1	3	1	0	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr11:58391931C>A	uc001nna.3	+	2	619	c.539C>A	c.(538-540)TCT>TAT	p.S180Y	ZFP91-CNTF_uc010rkm.1_RNA	NM_000614	NP_000605	P26441	CNTF_HUMAN	ciliary neurotrophic factor	180					ciliary neurotrophic factor-mediated signaling pathway|growth|negative regulation of neuron apoptosis|positive regulation of tyrosine phosphorylation of Stat3 protein		ciliary neurotrophic factor receptor binding|growth factor activity|interleukin-6 receptor binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				CGTTTCATTTCTTCTCATCAG	0.473													17	95					9.16793e-09	1.02412e-08	0.00499	1	0		A	58391931	A	A	58391931	3	1	93	1	0	0	0	0	1	0	0	0	3640	913	32	5	545	5	CNTF	11	58391931	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	409517	58391931	76614585	98	61158											
MYO7A	4647	broad.mit.edu	37	chr11	76905526	76905526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagatcacgcccctgaagaCgctggagaagtgggcccagc	10	4	14	13	3	1	4	1	1	0	3	1	6	1	4	3	2	1	1	3	2	2	0			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr11:76905526C>T	uc001oyb.2	+	32	4552	c.4280C>T	c.(4279-4281)ACG>ATG	p.T1427M	MYO7A_uc010rsm.1_Missense_Mutation_p.T1416M|MYO7A_uc001oyc.2_Missense_Mutation_p.T1427M|MYO7A_uc009yus.1_RNA|MYO7A_uc009yut.1_Missense_Mutation_p.T638M	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	1427	FERM 1.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						CCCCTGAAGACGCTGGAGAAG	0.592													3	19					0	0	0.004672	0	0		T	76905526	T	T	76905526	3	4	93	1	0	0	0	0	1	0	0	0	10100	536	19	1	4436	1	MYO7A	11	76905526	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	18513595	76905526	58100990	99	61159											
GRM5	2915	broad.mit.edu	37	chr11	88300299	88300299	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctggctgcggaggatgacTtgccatcccctacatgcatg	7	10	12	12	1	0	1	0	1	0	0	1	3	1	3	3	3	5	3	3	3	1	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr11:88300299T>G	uc001pcq.2	-	7	2752	c.2552A>C	c.(2551-2553)AAG>ACG	p.K851T	GRM5_uc009yvm.2_Missense_Mutation_p.K851T	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	851	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	GGAGGATGACTTGCCATCCCC	0.552													14	94					0	0	0.00245	0	0		G	88300299	G	G	88300299	3	3	93	1	0	0	0	0	1	0	0	0	6816	1609	56	5	1098	5	GRM5	11	88300299	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	11394773	88300299	46706217	100	61160											
B4GALNT3	283358	broad.mit.edu	37	chr12	666773	666773	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctgaccccctggggtaGtgaagaaccaggcacgctgg	8	6	14	13	1	0	3	0	2	0	1	0	3	0	3	4	4	2	3	4	4	3	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr12:666773G>C	uc001qii.1	+	16	2381	c.2381_splice	c.e16-1	p.V794_splice	B4GALNT3_uc001qik.1_Splice_Site_p.V343_splice	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta							Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			CCCTGGGGTAGTGAAGAACCA	0.552													24	50					0	0	0.003954	0	0		C	666773	C	C	666773	5	2	93	1	0	0	0	0	0	0	1	0	1269	1043	36	5	2442	5	B4GALNT3	12	666773	Splice_Site	SNP	G	TCGA-BR-8690-01A-11D-2394-08		666773	133185122	101	61161											
OLR1	4973	broad.mit.edu	37	chr12	10312524	10312524	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgacatatactgaaggcAgctaaaatgcagttttccgc	12	12	8	9	1	1	2	0	2	1	0	2	2	2	2	1	1	3	4	1	1	5	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr12:10312524A>G	uc001qxo.1	-	6	891	c.777T>C	c.(775-777)GCT>GCC	p.A259A	OLR1_uc010sgz.1_3'UTR|OLR1_uc010sha.1_3'UTR	NM_002543	NP_002534	P78380	OLR1_HUMAN	oxidized low density lipoprotein (lectin-like)	259	Extracellular (Potential).|C-type lectin.				blood circulation|blood coagulation|inflammatory response|leukocyte migration|proteolysis	extracellular region|integral to plasma membrane|membrane fraction	sugar binding			ovary(1)	1						TACTGAAGGCAGCTAAAATGC	0.418													35	89					0	0	0.013726	0	0		G	10312524	G	G	10312524	2	3	93	1	0	0	0	0	0	0	0	1	10882	175	7	3		3	OLR1	12	10312524	Silent	SNP	A	TCGA-BR-8690-01A-11D-2394-08	9645751	10312524	123539371	102	61162											
ABCC9	10060	broad.mit.edu	37	chr12	21997801	21997801	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagggatgtaacaaggcaaaGgaaaatgcctgctccacaga	16	5	12	8	0	0	1	0	0	0	1	1	4	1	3	2	3	3	3	2	3	5	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr12:21997801G>T	uc001rfi.1	-	25	3165	c.3145C>A	c.(3145-3147)CTT>ATT	p.L1049I	ABCC9_uc001rfh.2_Missense_Mutation_p.L1049I|ABCC9_uc001rfj.1_Missense_Mutation_p.L1013I	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1049	Helical; Name=13; (Potential).|ABC transmembrane type-1 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ACAAGGCAAAGGAAAATGCCT	0.413													15	55					3.27435e-08	3.60494e-08	0.00245	1	0		T	21997801	T	T	21997801	3	4	93	1	0	0	0	0	1	0	0	0	59	1000	35	5	1702	5	ABCC9	12	21997801	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	11685277	21997801	111854094	103	61163											
ANO6	196527	broad.mit.edu	37	chr12	45797015	45797015	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattggttgggaaaatacagAaatgaagaggtatgaatata	18	11	11	1	0	0	4	0	2	0	2	0	5	0	5	0	3	1	2	0	3	10	7			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr12:45797015A>C	uc001roo.2	+	14	2108	c.1773A>C	c.(1771-1773)AGA>AGC	p.R591S	ANO6_uc010sld.1_Missense_Mutation_p.R591S|ANO6_uc010sle.1_Missense_Mutation_p.R591S|ANO6_uc010slf.1_Missense_Mutation_p.R612S|ANO6_uc010slg.1_Missense_Mutation_p.R573S	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	591	Extracellular (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						GAAAATACAGAAATGAAGAGG	0.338													8	49					0	0	0.00308	0	0		C	45797015	C	C	45797015	3	2	93	1	0	0	0	0	1	0	0	0	701	243	9	5	1847	5	ANO6	12	45797015	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	23799214	45797015	88054880	104	61164											
BIN2	51411	broad.mit.edu	37	chr12	51717838	51717838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgctaaacttcttctgcaCctgcttggcgaagaggccgg	7	10	11	13	2	2	1	0	0	2	1	2	2	2	1	3	3	4	3	3	3	3	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr12:51717838C>T	uc001ryg.2	-	1	101	c.49G>A	c.(49-51)GTG>ATG	p.V17M	BIN2_uc009zlz.2_Missense_Mutation_p.V17M|BIN2_uc001ryh.2_Translation_Start_Site|BIN2_uc010sng.1_Intron	NM_016293	NP_057377	Q9UBW5	BIN2_HUMAN	bridging integrator 2	17						cytoplasm	protein binding			ovary(1)	1						TTCTTCTGCACCTGCTTGGCG	0.721													5	70					0	0	0.001984	0	0		T	51717838	T	T	51717838	3	4	93	1	0	0	0	0	1	0	0	0	1434	507	18	4	1700	4	BIN2	12	51717838	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	5920823	51717838	82134057	105	61165											
IKZF4	64375	broad.mit.edu	37	chr12	56420729	56420729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagagcctcactcccctgggGgcatccggctgcccaatggc	6	6	12	17	1	1	1	1	0	0	1	3	1	3	1	5	4	2	2	5	4	1	0			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr12:56420729G>A	uc001sjb.1	+	5	610	c.451G>A	c.(451-453)GGC>AGC	p.G151S	IKZF4_uc010sqa.1_Missense_Mutation_p.G104S|IKZF4_uc001sjc.1_Missense_Mutation_p.G151S|IKZF4_uc001sjd.1_Missense_Mutation_p.G49S|IKZF4_uc009zoi.1_Missense_Mutation_p.G106S|IKZF4_uc001sje.1_Missense_Mutation_p.G110S	NM_022465	NP_071910	Q9H2S9	IKZF4_HUMAN	zinc finger protein, subfamily 1A, 4	151					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (6;0.025)|OV - Ovarian serous cystadenocarcinoma(18;0.123)			CTCCCCTGGGGGCATCCGGCT	0.587													12	27					0	0	0.013537	0	0		A	56420729	A	A	56420729	3	1	93	1	0	0	0	0	1	0	0	0	7633	1232	43	4	465	4	IKZF4	12	56420729	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	4702891	56420729	77431166	106	61166											
RPH3A	22895	broad.mit.edu	37	chr12	113316957	113316957	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggaattcagccttctctAcgaccaggacaacagctccc	10	8	7	16	1	2	0	1	0	1	0	4	3	3	2	4	2	4	1	4	2	3	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr12:113316957A>G	uc010syl.1	+	14	1567	c.1205A>G	c.(1204-1206)TAC>TGC	p.Y402C	RPH3A_uc001ttz.2_Missense_Mutation_p.Y402C|RPH3A_uc001tty.2_Missense_Mutation_p.Y398C|RPH3A_uc009zwe.1_Missense_Mutation_p.Y398C|RPH3A_uc010sym.1_Missense_Mutation_p.Y353C|RPH3A_uc001tua.2_Missense_Mutation_p.Y162C	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	402	C2 1.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		AGCCTTCTCTACGACCAGGAC	0.483													37	162					0	0	0.005524	0	0		G	113316957	G	G	113316957	3	3	93	1	0	0	0	0	1	0	0	0	13576	391	14	3	1251	3	RPH3A	12	113316957	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	56896228	113316957	20534938	107	61167											
TPTE2	93492	broad.mit.edu	37	chr13	20041401	20041401	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaacttaatgtcaaaaaaaAtgtaaatgacatcaaccagc	20	8	5	8	0	2	1	2	1	0	0	2	1	2	1	1	0	3	2	1	0	9	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr13:20041401A>C	uc001umd.2	-	8	687	c.476T>G	c.(475-477)ATT>AGT	p.I159S	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Intron|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	159	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		GTCAAAAAAAATGTAAATGAC	0.299													5	42					0	0	0.000602	0	0		C	20041401	C	C	20041401	3	2	93	1	0	0	0	0	1	0	0	0	16457	101	4	5	1148	5	TPTE2	13	20041401	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08		20041401	95128477	108	61168											
SLITRK6	84189	broad.mit.edu	37	chr13	86369127	86369127	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatctgggttagcaaatcaAgatcatccaaaatattactt	16	12	5	8	0	3	1	2	0	1	1	4	1	4	1	1	1	2	2	1	1	8	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr13:86369127A>C	uc001vll.1	-	2	1976	c.1517T>G	c.(1516-1518)CTT>CGT	p.L506R	SLITRK6_uc010afe.1_Intron	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	506	Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		TAGCAAATCAAGATCATCCAA	0.403													32	80					0	0	0.008361	0	0		C	86369127	C	C	86369127	3	2	93	1	0	0	0	0	1	0	0	0	14772	72	3	5	1012	5	SLITRK6	13	86369127	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	66327726	86369127	28800751	109	61169											
COL4A1	1282	broad.mit.edu	37	chr13	110831620	110831620	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctgcatgaagttacctCtgatcccctgaagcccaggg	9	10	10	12	0	2	4	0	4	2	0	3	4	3	4	4	1	3	2	4	1	3	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr13:110831620C>A	uc001vqw.3	-	30	2464	c.2342G>T	c.(2341-2343)AGA>ATA	p.R781I	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	781	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			GAAGTTACCTCTGATCCCCTG	0.363													21	137					2.52088e-20	3.03832e-20	0.00278	1	0		A	110831620	A	A	110831620	3	1	93	1	0	0	0	0	1	0	0	0	3692	913	32	5	2759	5	COL4A1	13	110831620	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	24462493	110831620	4338258	110	61170											
RNF31	55072	broad.mit.edu	37	chr14	24624667	24624667	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcctatgcgttgttccataaGaagctgaccgagggtgtgct	8	11	13	9	2	0	2	0	1	0	1	1	3	1	2	3	1	3	4	3	1	3	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr14:24624667G>C	uc001wmn.1	+	13	2598	c.2349G>C	c.(2347-2349)AAG>AAC	p.K783N	RNF31_uc001wml.1_Missense_Mutation_p.K632N|RNF31_uc001wmm.1_RNA|RNF31_uc010alg.1_Missense_Mutation_p.K542N|RNF31_uc001wmo.1_Missense_Mutation_p.K250N|RNF31_uc001wmp.2_RNA|RNF31_uc010alh.1_5'Flank	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	783	IBR-type 1.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		TGTTCCATAAGAAGCTGACCG	0.612													14	70					0	0	0.00245	0	0		C	24624667	C	C	24624667	3	2	93	1	0	0	0	0	1	0	0	0	13512	933	33	5	2399	5	RNF31	14	24624667	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08		24624667	82724873	111	61171											
DACT1	51339	broad.mit.edu	37	chr14	59112668	59112668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagggctgcccctcaggcGctgcctccgaccttcagagt	6	7	12	16	2	2	2	2	0	0	2	3	3	3	2	5	2	2	2	5	2	0	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr14:59112668G>A	uc001xdw.2	+	4	1491	c.1327G>A	c.(1327-1329)GCT>ACT	p.A443T	DACT1_uc010trv.1_Missense_Mutation_p.A162T|DACT1_uc001xdx.2_Missense_Mutation_p.A406T|DACT1_uc010trw.1_Missense_Mutation_p.A162T	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	443					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						CCCCTCAGGCGCTGCCTCCGA	0.597													12	90					0	0	0.010729	0	0		A	59112668	A	A	59112668	3	1	93	1	0	0	0	0	1	0	0	0	4225	1087	38	1	1341	1	DACT1	14	59112668	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	34488001	59112668	48236872	112	61172											
FNTB	2342	broad.mit.edu	37	chr14	65507581	65507581	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggctataccttctgtggcCtggccgcgctggtaatcctc	4	12	12	13	2	1	0	0	0	1	0	3	0	2	0	4	4	1	3	4	4	3	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr14:65507581C>T	uc001xia.2	+	8	931	c.766C>T	c.(766-768)CTG>TTG	p.L256L	FNTB_uc010tsl.1_Silent_p.L290L|FNTB_uc010tsm.1_Silent_p.L210L|MAX_uc001xic.1_Intron|FNTB_uc001xid.2_Silent_p.L12L|FNTB_uc010tso.1_Silent_p.L171L	NM_002028	NP_002019	P49356	FNTB_HUMAN	farnesyltransferase, CAAX box, beta	256	PFTB 3.				protein farnesylation	microtubule associated complex	protein binding|protein farnesyltransferase activity			ovary(1)	1				all cancers(60;0.00115)|OV - Ovarian serous cystadenocarcinoma(108;0.00412)|BRCA - Breast invasive adenocarcinoma(234;0.011)		CTTCTGTGGCCTGGCCGCGCT	0.517													13	88					0	0	0.004007	0	0		T	65507581	T	T	65507581	2	4	93	1	0	0	0	0	0	0	0	1	5992	680	24	4		4	FNTB	14	65507581	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	6394913	65507581	41841959	113	61173											
DYNC1H1	1778	broad.mit.edu	37	chr14	102478443	102478443	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgggctcttcacacacgtgCtgagaaagtacgtcttcttt	9	13	9	10	2	4	1	1	1	3	1	4	2	4	1	0	1	2	3	0	1	2	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr14:102478443C>A	uc001yks.2	+	33	7014	c.6850C>A	c.(6850-6852)CTG>ATG	p.L2284M	DYNC1H1_uc001ykt.1_5'Flank	NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2284	AAA 2 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CACACACGTGCTGAGAAAGTA	0.498													6	89					3.59834e-05	3.8149e-05	0.001168	1	0		A	102478443	A	A	102478443	3	1	93	1	0	0	0	0	1	0	0	0	4847	796	28	5	6980	5	DYNC1H1	14	102478443	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	36970862	102478443	4871097	114	61174											
TRPM1	4308	broad.mit.edu	37	chr15	31318418	31318418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccggaagtgctcctgcaCgcactgctcctcgaactcat	7	9	8	17	3	1	0	1	0	0	0	5	2	4	1	3	1	4	4	3	1	2	0			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr15:31318418C>T	uc001zfm.2	-	26	3615	c.3487G>A	c.(3487-3489)GTG>ATG	p.V1163M	TRPM1_uc010azy.2_Missense_Mutation_p.V1070M|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1163	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		TGCTCCTGCACGCACTGCTCC	0.577													9	46					0	0	0.004482	0	0		T	31318418	T	T	31318418	3	4	93	1	0	0	0	0	1	0	0	0	16611	536	19	1	1332	1	TRPM1	15	31318418	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08		31318418	71212974	115	61175											
MEIS2	4212	broad.mit.edu	37	chr15	37390190	37390190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagatcgcgtccttgtcccGcttcaaggcgtcgttgacag	7	11	11	12	5	1	2	1	1	0	1	5	2	3	2	2	1	0	2	2	1	2	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr15:37390190G>A	uc001zjr.2	-	2	1260	c.223C>T	c.(223-225)CGG>TGG	p.R75W	MEIS2_uc001zjl.2_Missense_Mutation_p.R62W|MEIS2_uc010ucj.1_Missense_Mutation_p.R62W|MEIS2_uc001zjm.2_5'UTR|MEIS2_uc001zjn.2_5'UTR|MEIS2_uc001zjo.2_Missense_Mutation_p.R75W|MEIS2_uc001zjp.2_Missense_Mutation_p.R75W|MEIS2_uc001zjs.2_Missense_Mutation_p.R75W|MEIS2_uc001zju.2_Missense_Mutation_p.R62W|MEIS2_uc001zjt.2_Missense_Mutation_p.R75W	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	75					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		TCCTTGTCCCGCTTCAAGGCG	0.632													10	52					0	0	0.008291	0	0		A	37390190	A	A	37390190	3	1	93	1	0	0	0	0	1	0	0	0	9486	1086	38	1	1317	1	MEIS2	15	37390190	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	6071772	37390190	65141202	116	61176											
TTBK2	146057	broad.mit.edu	37	chr15	43038032	43038032	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctggcttactcttcccttgGggggttttagtgctggctga	3	15	14	9	0	1	1	0	1	1	0	2	1	2	1	1	5	2	5	1	5	2	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr15:43038032G>A	uc001zqo.2	-	15	4135	c.3696C>T	c.(3694-3696)CCC>CCT	p.P1232P	TTBK2_uc010bcy.2_Silent_p.P1163P|uc001zqn.2_5'Flank	NM_173500	NP_775771	Q6IQ55	TTBK2_HUMAN	tau tubulin kinase 2	1232					cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)		TCTTCCCTTGGGGGGTTTTAG	0.542													60	122					0	0	0.01441	0	0		A	43038032	A	A	43038032	2	1	93	1	0	0	0	0	0	0	0	1	16703	1219	43	4		4	TTBK2	15	43038032	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	5647842	43038032	59493360	117	61177											
FBN1	2200	broad.mit.edu	37	chr15	48712976	48712976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggcagccatgctggcagCggtggttaccctcacactcg	6	9	12	14	2	2	0	1	0	1	0	3	0	2	0	2	4	4	4	2	4	1	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr15:48712976C>T	uc001zwx.1	-	63	8055	c.7727G>A	c.(7726-7728)CGC>CAC	p.R2576H	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2576	EGF-like 45; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		ATGCTGGCAGCGGTGGTTACC	0.532													10	72					0	0	0.008291	0	0		T	48712976	T	T	48712976	3	4	93	1	0	0	0	0	1	0	0	0	5716	768	27	1	904	1	FBN1	15	48712976	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	5674944	48712976	53818416	118	61178											
FBN1	2200	broad.mit.edu	37	chr15	48738931	48738931	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattgttgtgagaaaggatGaaaccatgattgcagcggca	13	10	12	6	1	1	3	1	3	0	1	1	5	1	4	1	2	3	3	1	2	2	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr15:48738931G>T	uc001zwx.1	-	47	6088	c.5760C>A	c.(5758-5760)TTC>TTA	p.F1920L	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1920	EGF-like 32; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GAGAAAGGATGAAACCATGAT	0.408													9	78					1.11149e-13	1.29204e-13	0.008291	1	0		T	48738931	T	T	48738931	3	4	93	1	0	0	0	0	1	0	0	0	5716	1281	45	5	2935	5	FBN1	15	48738931	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	25955	48738931	53792461	119	61179											
ACAN	176	broad.mit.edu	37	chr15	89384998	89384998	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacactccccgggaaggCtgctatggagacaaggatga	12	6	12	11	1	0	2	0	1	0	1	2	5	2	4	3	4	1	2	3	4	3	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr15:89384998C>A	uc010upo.1	+	5	1031	c.657C>A	c.(655-657)GGC>GGA	p.G219G	ACAN_uc002bmx.2_Silent_p.G219G|ACAN_uc010upp.1_Silent_p.G219G|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	219					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CCCGGGAAGGCTGCTATGGAG	0.562													17	85					1.99824e-07	2.17903e-07	0.00499	1	0		A	89384998	A	A	89384998	2	1	93	1	0	0	0	0	0	0	0	1	117	784	28	5		5	ACAN	15	89384998	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	40646067	89384998	13146394	120	61180											
PKD1	5310	broad.mit.edu	37	chr16	2161261	2161261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgcgtggggatgcaggCggcgggttcaacgcgcagca	7	5	19	10	5	1	0	1	0	0	0	1	1	1	1	0	6	4	5	0	6	1	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr16:2161261C>T	uc002cos.1	-	15	4116	c.3907G>A	c.(3907-3909)GCC>ACC	p.A1303T	PKD1_uc002cot.1_Missense_Mutation_p.A1303T	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1303	PKD 8.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GGGATGCAGGCGGCGGGTTCA	0.706													16	36					0	0	0.004007	0	0		T	2161261	T	T	2161261	3	4	93	1	0	0	0	0	1	0	0	0	11982	768	27	1	9132	1	PKD1	16	2161261	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08		2161261	88193492	121	61181											
DCI	1632	broad.mit.edu	37	chr16	2296861	2296861	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gagctgaactagcacctaccGaggtcagaatgacaccgcgg	12	5	12	12	3	1	3	1	2	0	1	1	5	1	3	3	2	4	2	3	2	4	2	rs148482178	byFrequency	TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr16:2296861G>C	uc002cpr.2	-	3	329	c.293C>G	c.(292-294)TCG>TGG	p.S98W	DCI_uc002cps.2_Missense_Mutation_p.S98W	NM_001919	NP_001910	P42126	ECI1_HUMAN	dodecenoyl-Coenzyme A delta isomerase precursor	98					fatty acid beta-oxidation	mitochondrial matrix	dodecenoyl-CoA delta-isomerase activity				0						AGCACCTACCGAGGTCAGAAT	0.587													10	134					0	0	0.010729	0	0		C	2296861	C	C	2296861	3	2	93	1	0	0	0	0	1	0	0	0	4292	1072	37	5	635	5	DCI	16	2296861	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	135600	2296861	88057892	122	61182											
CREBBP	1387	broad.mit.edu	37	chr16	3786799	3786799	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttggaggacaggcccagAtgtgccctgtcacatacctg	9	8	11	13	0	1	1	1	0	0	1	1	3	1	3	3	3	2	0	3	3	1	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr16:3786799A>T	uc002cvv.2	-	27	4616	c.4412T>A	c.(4411-4413)ATC>AAC	p.I1471N	CREBBP_uc002cvw.2_Missense_Mutation_p.I1433N	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1471	Cys/His-rich.|Interaction with TRERF1.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		ACAGGCCCAGATGTGCCCTGT	0.512			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				28	122					0	0	0.00632	0	0		T	3786799	T	T	3786799	3	4	93	1	0	0	0	0	1	0	0	0	3864	333	12	5	2936	5	CREBBP	16	3786799	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	1489938	3786799	86567954	123	61183											
CIITA	4261	broad.mit.edu	37	chr16	11001447	11001447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttagtccaacacccaccgCgggccgcagagtccgagctg	8	5	12	16	4	0	1	0	0	0	1	2	2	2	1	5	1	2	3	5	1	2	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr16:11001447C>T	uc002dai.3	+	11	2231	c.2098C>T	c.(2098-2100)CGG>TGG	p.R700W	CIITA_uc002daj.3_Missense_Mutation_p.R701W|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Missense_Mutation_p.R700W|CIITA_uc002dah.2_Missense_Mutation_p.R652W|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	700	NACHT.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						ACACCCACCGCGGGCCGCAGA	0.627			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								18	97					0	0	0.006122	0	0		T	11001447	T	T	11001447	3	4	93	1	0	0	0	0	1	0	0	0	3431	759	27	1	2140	1	CIITA	16	11001447	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	7214648	11001447	79353306	124	61184											
DNAH3	55567	broad.mit.edu	37	chr16	20976432	20976433	+	Missense_Mutation	DNP	TT	AG	AG																															ccagcttcagctctgctcttTtctggttcagcttctgcatc																										TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr16:20976432_20976433TT>AG	uc010vbe.1	-	53	8773_8774	c.8773_8774AA>CT	c.(8773-8775)AAA>CTA	p.K2925L	DNAH3_uc010vbd.1_Missense_Mutation_p.K360L	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2925	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CTCTGCTCTTTTCTGGTTCAGC	0.545													77	183					0	0	0.004672	0	0		AG	20976433	AG	AG	20976432	3	1	93	1	0	0	0	0	1	0	0	0	4609	1841	64	5	3615	5	DNAH3	16	20976432	Missense_Mutation	DNP	TT	TCGA-BR-8690-01A-11D-2394-08	9974985	20976432	69378321	125	61185											
KIF22	3835	broad.mit.edu	37	chr16	29809747	29809747	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggacatctatgcaggtTcagtgcagcccatcctaagg	11	8	11	11	0	2	0	1	0	1	0	3	1	3	1	2	3	4	4	2	3	2	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr16:29809747T>C	uc002dts.3	+	3	343	c.319T>C	c.(319-321)TCA>CCA	p.S107P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|KIF22_uc010vdv.1_Missense_Mutation_p.S39P|KIF22_uc010vdw.1_Missense_Mutation_p.S39P|KIF22_uc010bzf.2_Missense_Mutation_p.S39P	NM_007317	NP_015556	Q14807	KIF22_HUMAN	kinesin family member 22	107	Kinesin-motor.				blood coagulation|DNA repair|microtubule-based movement|mitosis	cytosol|kinetochore|microtubule|nucleus	ATP binding|DNA binding|microtubule motor activity|protein binding				0						CTATGCAGGTTCAGTGCAGCC	0.463													6	111					0	0	0.00308	0	0		C	29809747	C	C	29809747	3	2	93	1	0	0	0	0	1	0	0	0	8306	1783	62	3	329	3	KIF22	16	29809747	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	8833315	29809747	60545006	126	61186											
DOC2A	8448	broad.mit.edu	37	chr16	30018255	30018255	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagcagcccctgcccctgCtccgcctgctccaactgcgg	4	7	9	21	2	0	0	0	0	0	0	3	0	3	0	8	1	7	3	8	1	1	0			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr16:30018255C>A	uc002dvm.2	-	8	829	c.729G>T	c.(727-729)GAG>GAT	p.E243D	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|DOC2A_uc002dvl.2_Missense_Mutation_p.E241D|DOC2A_uc002dvn.2_Missense_Mutation_p.E243D|DOC2A_uc010vef.1_RNA|DOC2A_uc002dvo.2_Missense_Mutation_p.E243D|DOC2A_uc002dvp.2_Missense_Mutation_p.E243D|DOC2A_uc002dvq.2_Missense_Mutation_p.E243D	NM_003586	NP_003577	Q14183	DOC2A_HUMAN	double C2-like domains, alpha	243	Interaction with UNC13D.				nervous system development|regulation of calcium ion-dependent exocytosis	cell junction|lysosome|synaptic vesicle membrane|synaptosome	calcium-dependent phospholipid binding|protein binding|transporter activity			ovary(2)	2						CCTGCCCCTGCTCCGCCTGCT	0.697													9	24					1.12685e-05	1.20023e-05	0.004482	1	0		A	30018255	A	A	30018255	3	1	93	1	0	0	0	0	1	0	0	0	4689	796	28	5	489	5	DOC2A	16	30018255	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	208508	30018255	60336498	127	61187											
THAP11	57215	broad.mit.edu	37	chr16	67876787	67876787	+	Silent	SNP	G	A	A																															cagcagcagcaacagcagcaGcagcagcaacagcagcaaca																										TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr16:67876787G>A	uc002euo.2	+	1	575	c.330G>A	c.(328-330)CAG>CAA	p.Q110Q	CENPT_uc002eun.3_Intron	NM_020457	NP_065190	Q96EK4	THA11_HUMAN	THAP domain containing 11	110	Gln-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|identical protein binding|metal ion binding				0		Acute lymphoblastic leukemia(13;0.000299)|all_hematologic(13;0.0184)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)		aacagcagcagcagcagcaac	0.303													15	55					0	0	0.00499	0	0		A	67876787	A	A	67876787	2	1	93	1	0	0	0	0	0	0	0	1	15868	962	34	2		2	THAP11	16	67876787	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	37858532	67876787	22477966	128	61188	116	2									
THAP11	57215	broad.mit.edu	37	chr16	67876796	67876796	+	Silent	SNP	A	G	G																															caacagcagcagcagcagcaAcagcagcaacagcagcagca																										TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr16:67876796A>G	uc002euo.2	+	1	584	c.339A>G	c.(337-339)CAA>CAG	p.Q113Q	CENPT_uc002eun.3_Intron	NM_020457	NP_065190	Q96EK4	THA11_HUMAN	THAP domain containing 11	113	Gln-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|identical protein binding|metal ion binding				0		Acute lymphoblastic leukemia(13;0.000299)|all_hematologic(13;0.0184)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)		agcagcagcaacagcagcaac	0.308													12	73					0	0	0.00245	0	0		G	67876796	G	G	67876796	2	3	93	1	0	0	0	0	0	0	0	1	15868	40	2	3		3	THAP11	16	67876796	Silent	SNP	A	TCGA-BR-8690-01A-11D-2394-08	9	67876796	22477957	129	61189	116	2									
CRISPLD2	83716	broad.mit.edu	37	chr16	84940234	84940234	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaggccttccggatctttGctgtcaggcagtgaatttcc	8	12	11	10	1	2	1	1	1	1	0	4	3	4	2	3	3	1	2	3	3	2	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr16:84940234G>T	uc010voh.1	+	15	1707	c.1480G>T	c.(1480-1482)GCT>TCT	p.A494S	CRISPLD2_uc010vog.1_Intron|CRISPLD2_uc002fio.2_Missense_Mutation_p.A493S	NM_031476	NP_113664	Q9H0B8	CRLD2_HUMAN	cysteine-rich secretory protein LCCL domain	494						extracellular region|transport vesicle					0						CCGGATCTTTGCTGTCAGGCA	0.527													32	109					3.33393e-15	3.91524e-15	0.004878	1	0		T	84940234	T	T	84940234	3	4	93	1	0	0	0	0	1	0	0	0	3886	1319	46	5	1534	5	CRISPLD2	16	84940234	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	17063438	84940234	5414519	130	61190											
TP53	7157	broad.mit.edu	37	chr17	7578500	7578500	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtggaatcaacccacagctGcacagggcaggtcttggcca	10	7	12	12	0	2	0	1	0	1	0	2	1	2	1	2	4	3	3	2	4	2	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr17:7578500G>A	uc002gim.2	-	5	624	c.430C>T	c.(430-432)CAG>TAG	p.Q144*	TP53_uc002gig.1_Nonsense_Mutation_p.Q144*|TP53_uc002gih.2_Nonsense_Mutation_p.Q144*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.Q12*|TP53_uc010cng.1_Nonsense_Mutation_p.Q12*|TP53_uc002gii.1_Nonsense_Mutation_p.Q12*|TP53_uc010cnh.1_Nonsense_Mutation_p.Q144*|TP53_uc010cni.1_Nonsense_Mutation_p.Q144*|TP53_uc002gij.2_Nonsense_Mutation_p.Q144*|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Nonsense_Mutation_p.Q51*|TP53_uc002gio.2_Nonsense_Mutation_p.Q12*|TP53_uc010vug.1_Nonsense_Mutation_p.Q105*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	144	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Q -> P (in sporadic cancers; somatic mutation).|Q -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Q -> R (in sporadic cancers; somatic mutation).|Q -> H (in sporadic cancers; somatic mutation).|Q -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Q144*(29)|p.Q144L(8)|p.0?(7)|p.Q144H(4)|p.Q144P(4)|p.Q144R(4)|p.Q144fs*26(3)|p.Q144K(2)|p.Q144del(2)|p.Q144Q(2)|p.Q144_G154del11(1)|p.L137_W146del10(1)|p.Q144fs*32(1)|p.Q144fs*16(1)|p.P142_Q144delPVQ(1)|p.Q144fs*4(1)|p.V143_S149del(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ACCCACAGCTGCACAGGGCAG	0.597		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			28	36					0	0	0.008361	0	0		A	7578500	A	A	7578500	4	1	93	1	0	0	0	0	0	1	0	0	16407	1328	46	2	868	2	TP53	17	7578500	Nonsense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08		7578500	73616710	131	61191											
DNAH2	146754	broad.mit.edu	37	chr17	7674764	7674764	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaacaaggacaacaatgcTctccggagcacccatcaccc	14	5	7	15	1	2	1	1	1	1	0	3	3	2	3	3	2	4	2	3	2	4	0			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr17:7674764T>G	uc002giu.1	+	27	4493	c.4479T>G	c.(4477-4479)GCT>GCG	p.A1493A		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1493	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				ACAACAATGCTCTCCGGAGCA	0.537													26	53					0	0	0.003954	0	0		G	7674764	G	G	7674764	2	3	93	1	0	0	0	0	0	0	0	1	4608	1538	54	5		5	DNAH2	17	7674764	Silent	SNP	T	TCGA-BR-8690-01A-11D-2394-08	96264	7674764	73520446	132	61192											
RAB11FIP4	84440	broad.mit.edu	37	chr17	29848243	29848243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctacacactccaccacctCgctcatcagcaatgaggagc	11	8	6	16	1	3	1	2	1	1	0	5	2	4	2	3	1	3	2	3	1	2	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr17:29848243C>T	uc002hgn.1	+	5	852	c.623C>T	c.(622-624)TCG>TTG	p.S208L	RAB11FIP4_uc002hgo.2_Missense_Mutation_p.S106L	NM_032932	NP_116321	Q86YS3	RFIP4_HUMAN	RAB11 family interacting protein 4 (class II)	208	Necessary for interaction with RAB11A, subcellular location, homo- or heterooligomerization.				cytokinesis|interspecies interaction between organisms|protein transport	cleavage furrow|endocytic vesicle|midbody|recycling endosome membrane	ADP-ribosylation factor binding|calcium ion binding|protein homodimerization activity|Rab GTPase binding			skin(1)	1		all_cancers(10;3.62e-13)|all_epithelial(10;0.000387)|all_lung(9;0.0132)|Breast(31;0.014)|all_hematologic(16;0.015)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0259)|Ovarian(249;0.0423)|Lung NSC(157;0.066)				TCCACCACCTCGCTCATCAGC	0.582													23	248					0	0	0.014323	0	0		T	29848243	T	T	29848243	3	4	93	1	0	0	0	0	1	0	0	0	12921	893	31	1	641	1	RAB11FIP4	17	29848243	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	22173479	29848243	51346967	133	61193											
KRT24	192666	broad.mit.edu	37	chr17	38854498	38854498	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggaagttccttatttaacTttcacctcagaaatactgct	11	15	5	10	0	2	1	2	0	0	1	3	2	3	2	2	1	3	2	2	1	5	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr17:38854498T>G	uc002hvd.2	-	8	1626	c.1569A>C	c.(1567-1569)AAA>AAC	p.K523N		NM_019016	NP_061889	Q2M2I5	K1C24_HUMAN	keratin 24	523	Tail.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.00526)				CTTATTTAACTTTCACCTCAG	0.388													16	77					0	0	0.003163	0	0		G	38854498	G	G	38854498	3	3	93	1	0	0	0	0	1	0	0	0	8477	1606	56	5	12	5	KRT24	17	38854498	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	9006255	38854498	42340712	134	61194											
KLHL10	317719	broad.mit.edu	37	chr17	40001552	40001552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacccactcaccagaccaCgcttgccctatgccatcctc	9	7	4	21	1	1	1	1	0	0	1	3	1	2	1	7	0	3	1	7	0	2	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr17:40001552C>T	uc010cxr.2	+	3	1001	c.859C>T	c.(859-861)CGC>TGC	p.R287C	KLHL10_uc010wfv.1_Missense_Mutation_p.R281C|KLHL10_uc010wfw.1_Missense_Mutation_p.R199C	NM_152467	NP_689680	Q6JEL2	KLH10_HUMAN	kelch-like 10	287						cytoplasm				ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		Breast(137;0.000162)				CACCAGACCACGCTTGCCCTA	0.512													5	103					0	0	0.000602	0	0		T	40001552	T	T	40001552	3	4	93	1	0	0	0	0	1	0	0	0	8382	536	19	1	869	1	KLHL10	17	40001552	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	1147054	40001552	41193658	135	61195											
ITGA3	3675	broad.mit.edu	37	chr17	48156529	48156529	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagcaatggcaagtggctGctgtatcccacggagatcac	10	8	12	11	1	2	1	2	0	0	1	3	2	3	1	1	3	2	5	1	3	3	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr17:48156529G>A	uc010dbl.2	+	20	2954	c.2490G>A	c.(2488-2490)CTG>CTA	p.L830L	ITGA3_uc010dbm.2_Silent_p.L830L	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	830	Extracellular (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						GCAAGTGGCTGCTGTATCCCA	0.612													17	122					0	0	0.004007	0	0		A	48156529	A	A	48156529	2	1	93	1	0	0	0	0	0	0	0	1	7893	1306	46	2		2	ITGA3	17	48156529	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	8154977	48156529	33038681	136	61196											
TSPAN10	83882	broad.mit.edu	37	chr17	79612272	79612272	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggctgctggccctggccatCgggctctggggcctggctgt	1	9	18	13	1	1	0	0	0	1	0	2	0	1	0	3	7	1	4	3	7	0	0			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr17:79612272C>T	uc010die.2	+	2	381	c.291C>T	c.(289-291)ATC>ATT	p.I97I	TSPAN10_uc002kaw.1_Silent_p.I97I|TSPAN10_uc010did.1_RNA	NM_031945	NP_114151	Q9H1Z9	TSN10_HUMAN	tetraspanin 10	97	Helical; (Potential).					integral to membrane				ovary(1)	1	all_neural(118;0.0878)|all_lung(278;0.175)|Lung NSC(278;0.192)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			CCCTGGCCATCGGGCTCTGGG	0.677													36	93					0	0	0.00623	0	0		T	79612272	T	T	79612272	2	4	93	1	0	0	0	0	0	0	0	1	16660	874	31	1		1	TSPAN10	17	79612272	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08	31455743	79612272	1582938	137	61197											
TBCD	6904	broad.mit.edu	37	chr17	80726295	80726295	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccgtggtttaattttttaGgcttgggaaacccgctacat	8	15	9	9	2	0	0	0	0	0	0	1	1	1	1	2	3	2	3	2	3	4	7			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr17:80726295G>A	uc002kfz.2	+	5	566	c.436_splice	c.e5-1	p.A146_splice	TBCD_uc002kfx.1_Splice_Site_p.A129_splice|TBCD_uc002kfy.1_Splice_Site_p.A146_splice	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D						'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			TAATTTTTTAGGCTTGGGAAA	0.517													41	265					0	0	0.00874	0	0		A	80726295	A	A	80726295	5	1	93	1	0	0	0	0	0	0	1	0	15658	1014	35	4	453	4	TBCD	17	80726295	Splice_Site	SNP	G	TCGA-BR-8690-01A-11D-2394-08	1114023	80726295	468915	138	61198											
DSG3	1830	broad.mit.edu	37	chr18	29044178	29044178	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgataccgagttcagtcaacCccagtcacaattcaggtaat	13	9	7	12	2	4	0	4	0	0	0	4	2	4	0	3	1	2	2	3	1	4	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr18:29044178C>T	uc002kws.2	+	9	1213	c.1104C>T	c.(1102-1104)ACC>ACT	p.T368T		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	368	Cadherin 3.|Extracellular (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TTCAGTCAACCCCAGTCACAA	0.373													5	46					0	0	0.000602	0	0		T	29044178	T	T	29044178	2	4	93	1	0	0	0	0	0	0	0	1	4784	610	22	4		4	DSG3	18	29044178	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08		29044178	49033070	139	61199											
PQLC1	80148	broad.mit.edu	37	chr18	77679319	77679319	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggacaggtaggtgatgtagCccgccacgcccgtgaaggcc	8	6	15	12	3	0	2	0	2	0	0	0	3	0	3	4	4	1	2	4	4	3	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr18:77679319C>A	uc002lnl.2	-	5	645	c.473G>T	c.(472-474)GGC>GTC	p.G158V	PQLC1_uc010dre.2_Missense_Mutation_p.G75V|PQLC1_uc002lnk.2_Missense_Mutation_p.G140V|PQLC1_uc010xfm.1_Intron	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	158	Helical; (Potential).					integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		GGTGATGTAGCCCGCCACGCC	0.622													18	41					3.99206e-14	4.66419e-14	0.007413	1	0		A	77679319	A	A	77679319	3	1	93	1	0	0	0	0	1	0	0	0	12440	739	26	5	350	5	PQLC1	18	77679319	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	48635141	77679319	397929	140	61200											
KANK2	25959	broad.mit.edu	37	chr19	11289026	11289026	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcttctcctctcacccgccGttgacccccacgaactggag	6	9	8	18	3	3	1	1	1	3	0	5	3	3	2	5	1	1	1	5	1	1	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr19:11289026G>A	uc010dxv.2	-	8	2073	c.1515C>T	c.(1513-1515)AAC>AAT	p.N505N	KANK2_uc002mqm.2_Silent_p.N513N|KANK2_uc002mqo.3_Silent_p.N505N|KANK2_uc002mqp.1_Silent_p.N314N	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	505											0						CTCACCCGCCGTTGACCCCCA	0.637													3	33					0	0	0.009096	0	0		A	11289026	A	A	11289026	2	1	93	1	0	0	0	0	0	0	0	1	7993	1136	40	1		1	KANK2	19	11289026	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08		11289026	47839957	141	61201											
ZNF433	163059	broad.mit.edu	37	chr19	12128997	12128997	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttacctatagaggccaggttCctgaaggtttcttgcatcac	9	13	9	10	0	2	2	1	1	1	1	3	2	3	2	3	3	2	3	3	3	4	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr19:12128997C>G	uc002msy.1	-	2	294	c.123G>C	c.(121-123)AGG>AGC	p.R41S	uc002msx.1_Intron|ZNF433_uc002msz.1_Missense_Mutation_p.R6S	NM_001080411	NP_001073880	Q8N7K0	ZN433_HUMAN	zinc finger protein 433	41	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGGCCAGGTTCCTGAAGGTTT	0.418													4	61					0	0	0.009096	0	0		G	12128997	G	G	12128997	3	3	93	1	0	0	0	0	1	0	0	0	17932	854	30	5	1910	5	ZNF433	19	12128997	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	839971	12128997	46999986	142	61202											
CEBPG	1054	broad.mit.edu	37	chr19	33870080	33870080	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattttttggcagcttagcGtggaaaccattgatcaccct	10	13	9	9	1	1	2	1	1	0	1	1	3	1	3	2	2	3	2	2	2	2	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr19:33870080G>A	uc002nup.2	+	2	224	c.-65G>A	c.(-67--63)GCGTG>GCATG			NM_001806	NP_001797	P53567	CEBPG_HUMAN	CCAAT/enhancer binding protein gamma						B cell differentiation|enucleate erythrocyte differentiation|liver development|natural killer cell mediated cytotoxicity|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of DNA binding|positive regulation of DNA repair|positive regulation of interferon-gamma biosynthetic process|positive regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter	nucleus	protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding				0	Esophageal squamous(110;0.137)					GCAGCTTAGCGTGGAAACCAT	0.398													5	18					0	0	0.000602	0	0		A	33870080	A	A	33870080	1	1	93	1	0	0	0	0	0	0	0	0	3206	1160	40	1		1	CEBPG	19	33870080	Translation_Start_Site	SNP	G	TCGA-BR-8690-01A-11D-2394-08	21741083	33870080	25258903	143	61203											
ZNF420	147923	broad.mit.edu	37	chr19	37619853	37619853	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgggaaggcctttactCgtggttcacagctaactcaa	11	11	10	9	1	2	0	2	0	0	0	3	1	2	1	1	3	3	2	1	3	5	4	rs150682748	by1000genomes	TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr19:37619853C>A	uc002ofl.2	+	5	2175	c.1960C>A	c.(1960-1962)CGT>AGT	p.R654S		NM_144689	NP_653290	Q8TAQ5	ZN420_HUMAN	zinc finger protein 420	654	C2H2-type 19.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GGCCTTTACTCGTGGTTCACA	0.388													5	96					1.024e-07	1.12199e-07	0.000602	1	0		A	37619853	A	A	37619853	3	1	93	1	0	0	0	0	1	0	0	0	17922	884	31	5	1970	5	ZNF420	19	37619853	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	3749773	37619853	21509130	144	61204											
ACTN4	81	broad.mit.edu	37	chr19	39218653	39218653	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctgggctacgacgtggAgaacgaccggcaggtactgc	9	5	15	12	4	0	1	0	0	0	1	0	4	0	1	2	4	5	3	2	4	3	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr19:39218653A>C	uc002oja.1	+	19	2464	c.2405A>C	c.(2404-2406)GAG>GCG	p.E802A	ACTN4_uc002ojb.1_Missense_Mutation_p.E124A	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	802					platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TACGACGTGGAGAACGACCGG	0.577													4	27					0	0	0.009096	0	0		C	39218653	C	C	39218653	3	2	93	1	0	0	0	0	1	0	0	0	207	304	11	5	2479	5	ACTN4	19	39218653	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	1598800	39218653	19910330	145	61205											
SPIB	6689	broad.mit.edu	37	chr19	50926202	50926202	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgctacgaaccccccaccTacagccctgcagggaacctc	9	6	7	19	1	1	0	0	0	1	0	2	2	1	1	6	1	7	2	6	1	4	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr19:50926202T>A	uc002psd.2	+	4	272	c.247T>A	c.(247-249)TAC>AAC	p.Y83N	SPIB_uc002pse.2_Missense_Mutation_p.Y83N|SPIB_uc010ycc.1_Intron	NM_003121	NP_003112	Q01892	SPIB_HUMAN	Spi-B transcription factor (Spi-1/PU.1 related)	83					regulation of transcription from RNA polymerase II promoter	cytoplasm|microtubule cytoskeleton|nucleus	sequence-specific DNA binding			lung(1)|kidney(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		ACCCCCCACCTACAGCCCTGC	0.687													24	153					0	0	0.005443	0	0		A	50926202	A	A	50926202	3	1	93	1	0	0	0	0	1	0	0	0	15075	1522	53	5	261	5	SPIB	19	50926202	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	11707549	50926202	8202781	146	61206											
MBOAT7	79143	broad.mit.edu	37	chr19	54678121	54678121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagcagcatggtccaggCgctcctgaggaggaggctgg	7	6	17	11	1	1	1	1	1	0	0	3	3	3	3	2	6	2	5	2	6	0	0			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr19:54678121C>T	uc002qdq.2	-	9	1302	c.1036G>A	c.(1036-1038)GCC>ACC	p.A346T	TMC4_uc010erf.2_5'Flank|TMC4_uc002qdo.2_5'Flank|MBOAT7_uc010erg.2_Missense_Mutation_p.A30T|MBOAT7_uc010yem.1_Missense_Mutation_p.A328T|MBOAT7_uc002qdr.2_Missense_Mutation_p.A346T|MBOAT7_uc002qds.2_Missense_Mutation_p.A273T|MBOAT7_uc010yen.1_Missense_Mutation_p.A273T	NM_024298	NP_077274	Q96N66	MBOA7_HUMAN	membrane bound O-acyltransferase domain	346					phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					ATGGTCCAGGCGCTCCTGAGG	0.463													14	55					0	0	0.001855	0	0		T	54678121	T	T	54678121	3	4	93	1	0	0	0	0	1	0	0	0	9376	768	27	1	386	1	MBOAT7	19	54678121	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	3751919	54678121	4450862	147	61207											
NLRP11	204801	broad.mit.edu	37	chr19	56329269	56329269	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctcgtgaccccactcaCggtttcgtctgccaatgatc	6	12	7	16	3	3	2	1	2	2	0	6	2	3	2	4	1	1	1	4	1	1	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr19:56329269C>T	uc010ygf.1	-	4	982	c.271_splice	c.e4+1	p.R91_splice	NLRP11_uc002qmb.2_Intron|NLRP11_uc002qmc.2_Intron|NLRP11_uc010ete.1_Splice_Site	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11								ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		ACCCCACTCACGGTTTCGTCT	0.388													16	135					0	0	0.006122	0	0		T	56329269	T	T	56329269	5	4	93	1	0	0	0	0	0	0	1	0	10492	550	19	1	2865	1	NLRP11	19	56329269	Splice_Site	SNP	C	TCGA-BR-8690-01A-11D-2394-08	1651148	56329269	2799714	148	61208											
ZNF835	90485	broad.mit.edu	37	chr19	57175530	57175530	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgctgcgtcaggtgcgacAcctgggtgaaggccttggcg	5	8	18	10	3	1	1	1	1	0	0	1	2	1	1	2	5	3	1	2	5	1	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr19:57175530A>G	uc010ygo.1	-	2	1103	c.1103T>C	c.(1102-1104)GTG>GCG	p.V368A	ZNF835_uc010ygn.1_Missense_Mutation_p.V346A	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						CAGGTGCGACACCTGGGTGAA	0.692													14	28					0	0	0.00245	0	0		G	57175530	G	G	57175530	3	3	93	1	0	0	0	0	1	0	0	0	18211	159	6	3	578	3	ZNF835	19	57175530	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	846261	57175530	1953453	149	61209											
ADAM33	80332	broad.mit.edu	37	chr20	3654882	3654882	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccagggtgtggtctgccAcaatgtacagttccaggtac	9	10	11	11	0	2	0	1	0	1	0	3	0	3	0	3	3	3	3	3	3	3	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr20:3654882A>G	uc002wit.2	-	7	737	c.650T>C	c.(649-651)GTG>GCG	p.V217A	ADAM33_uc002wir.1_Missense_Mutation_p.V217A|ADAM33_uc002wis.2_5'Flank|ADAM33_uc002wiu.2_Missense_Mutation_p.V217A|ADAM33_uc002wiw.1_RNA|ADAM33_uc010gba.1_Intron|ADAM33_uc010gbb.1_Intron|ADAM33_uc002wix.1_Missense_Mutation_p.V140A|ADAM33_uc010zqg.1_Missense_Mutation_p.V229A|ADAM33_uc010zqh.1_Missense_Mutation_p.V217A	NM_025220	NP_079496	Q9BZ11	ADA33_HUMAN	ADAM metallopeptidase domain 33 isoform alpha	217	Extracellular (Potential).|Peptidase M12B.				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|ovary(1)|skin(1)	4						GTGGTCTGCCACAATGTACAG	0.647													13	109					0	0	0.00245	0	0		G	3654882	G	G	3654882	3	3	93	1	0	0	0	0	1	0	0	0	250	159	6	3	1855	3	ADAM33	20	3654882	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08		3654882	59370638	150	61210											
RALGAPB	57148	broad.mit.edu	37	chr20	37137784	37137784	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcccgatgaagatgccagtCtgatccctccagaaatggat	11	10	9	11	1	1	4	0	2	1	2	4	6	4	5	4	1	1	0	4	1	2	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr20:37137784C>G	uc002xiw.2	+	6	1062	c.805C>G	c.(805-807)CTG>GTG	p.L269V	RALGAPB_uc010zvz.1_Missense_Mutation_p.L269V|RALGAPB_uc002xix.2_Missense_Mutation_p.L269V|RALGAPB_uc002xiy.1_Missense_Mutation_p.L269V|RALGAPB_uc002xiz.2_Missense_Mutation_p.L47V|RALGAPB_uc002xja.1_5'UTR	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	269					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						AGATGCCAGTCTGATCCCTCC	0.368													13	136					0	0	0.001855	0	0		G	37137784	G	G	37137784	3	3	93	1	0	0	0	0	1	0	0	0	13040	912	32	5	823	5	RALGAPB	20	37137784	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	33482902	37137784	25887736	151	61211											
PTPRT	11122	broad.mit.edu	37	chr20	40714431	40714431	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgtcgatgtctgcggagacGaactccacctggatgggccc	7	8	13	13	4	1	1	0	0	1	1	4	5	2	2	3	3	2	0	3	3	1	0	rs34623060		TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr20:40714431G>A	uc002xkg.2	-	28	4093	c.3909C>T	c.(3907-3909)TTC>TTT	p.F1303F	PTPRT_uc010ggj.2_Silent_p.F1322F|PTPRT_uc010ggi.2_Silent_p.F506F	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1303	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CTGCGGAGACGAACTCCACCT	0.552													24	157					0	0	0.003954	0	0		A	40714431	A	A	40714431	2	1	93	1	0	0	0	0	0	0	0	1	12837	1049	37	1		1	PTPRT	20	40714431	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	3576647	40714431	22311089	152	61212											
SLC2A10	81031	broad.mit.edu	37	chr20	45354654	45354654	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgtgcccatggactcaggcCcaagctgtctggctgtgccc	5	8	12	16	1	2	0	1	0	1	0	2	1	2	1	4	3	3	2	4	3	1	0			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr20:45354654C>T	uc002xsl.2	+	2	1076	c.979C>T	c.(979-981)CCA>TCA	p.P327S		NM_030777	NP_110404	O95528	GTR10_HUMAN	solute carrier family 2 member 10	327	Extracellular (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GGACTCAGGCCCAAGCTGTCT	0.637													12	139					0	0	0.010729	0	0		T	45354654	T	T	45354654	3	4	93	1	0	0	0	0	1	0	0	0	14564	623	22	4	985	4	SLC2A10	20	45354654	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	4640223	45354654	17670866	153	61213											
ARFRP1	10139	broad.mit.edu	37	chr20	62331861	62331861	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacacttcaccatccactcGatgccctcgcgcaccccttt	8	9	4	20	3	1	0	1	0	0	0	4	1	2	0	5	0	1	1	5	0	0	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr20:62331861G>A	uc002yga.2	-	7	1107	c.540C>T	c.(538-540)ATC>ATT	p.I180I	ARFRP1_uc002ygc.2_Silent_p.I180I|ARFRP1_uc002ygh.3_3'UTR|ARFRP1_uc011abf.1_3'UTR|ARFRP1_uc011abg.1_3'UTR|ARFRP1_uc002yge.2_RNA|ARFRP1_uc002ygd.2_RNA|ARFRP1_uc002ygf.2_Silent_p.I180I|ARFRP1_uc002ygg.2_RNA|ARFRP1_uc011abh.1_RNA	NM_003224	NP_003215	Q13795	ARFRP_HUMAN	ADP-ribosylation factor related protein 1	180					small GTPase mediated signal transduction	Golgi apparatus|membrane fraction	GTP binding|GTPase activity			breast(1)|skin(1)	2	all_cancers(38;9.53e-13)|all_epithelial(29;2.64e-14)|Lung NSC(23;7e-10)|all_lung(23;2.53e-09)		Epithelial(9;4.09e-08)|all cancers(9;1.7e-07)|OV - Ovarian serous cystadenocarcinoma(5;0.0102)			CCATCCACTCGATGCCCTCGC	0.697													16	129					0	0	0.00499	0	0		A	62331861	A	A	62331861	2	1	93	1	0	0	0	0	0	0	0	1	856	1048	37	1		1	ARFRP1	20	62331861	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	16977207	62331861	693659	154	61214											
ZGPAT	84619	broad.mit.edu	37	chr20	62339972	62339972	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcggccttgcagacctacCgtgcgcagctgcagcaggtg	7	7	14	13	3	0	1	0	0	0	1	1	1	0	1	3	2	6	5	3	2	1	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr20:62339972C>G	uc002ygk.2	+	2	218	c.40C>G	c.(40-42)CGT>GGT	p.R14G	ARFRP1_uc002yga.2_5'Flank|ARFRP1_uc002ygc.2_5'Flank|ARFRP1_uc002ygh.3_5'Flank|ARFRP1_uc011abf.1_5'Flank|ARFRP1_uc011abg.1_5'Flank|ARFRP1_uc002yge.2_5'Flank|ARFRP1_uc002ygd.2_5'Flank|ARFRP1_uc002ygf.2_5'Flank|ARFRP1_uc002ygg.2_5'Flank|ARFRP1_uc011abh.1_5'Flank|ZGPAT_uc002ygi.2_Missense_Mutation_p.R14G|ZGPAT_uc002ygj.2_Missense_Mutation_p.R14G|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Missense_Mutation_p.R14G|ZGPAT_uc002ygm.2_Missense_Mutation_p.R14G|ZGPAT_uc002ygn.3_RNA	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	14					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					GCAGACCTACCGTGCGCAGCT	0.667													10	111					0	0	0.006214	0	0		G	62339972	G	G	62339972	3	3	93	1	0	0	0	0	1	0	0	0	17699	652	23	5	42	5	ZGPAT	20	62339972	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	8111	62339972	685548	155	61215											
UCKL1	54963	broad.mit.edu	37	chr20	62577873	62577873	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggcggccgcccggcggtgtaGatggtacgcttgcttgtacg	4	9	17	11	6	0	1	0	0	0	1	0	1	0	1	2	5	3	5	2	5	3	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr20:62577873G>C	uc010gkn.2	-	2	280	c.237C>G	c.(235-237)ATC>ATG	p.I79M	UCKL1_uc011abm.1_Missense_Mutation_p.I64M|UCKL1_uc011abn.1_RNA|UCKL1_uc011abo.1_RNA	NM_017859	NP_060329	Q9NWZ5	UCKL1_HUMAN	uridine-cytidine kinase 1-like 1	79					interspecies interaction between organisms	endoplasmic reticulum|nucleus	ATP binding|phosphotransferase activity, alcohol group as acceptor|protein binding|uridine kinase activity				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CGGCGGTGTAGATGGTACGCT	0.672													6	75					0	0	0.001168	0	0		C	62577873	C	C	62577873	3	2	93	1	0	0	0	0	1	0	0	0	16951	932	33	5	1465	5	UCKL1	20	62577873	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	237901	62577873	447647	156	61216											
DSCAM	1826	broad.mit.edu	37	chr21	41496224	41496224	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatggaggctgaggccgcCgctgccttcacacccgcggg	6	5	14	16	4	1	1	1	1	0	0	1	2	1	2	5	4	1	2	5	4	0	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr21:41496224C>T	uc002yyq.1	-	20	4046	c.3594G>A	c.(3592-3594)GCG>GCA	p.A1198A	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1198	Fibronectin type-III 4.|Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CTGAGGCCGCCGCTGCCTTCA	0.597													39	88					0	0	0.004878	0	0		T	41496224	T	T	41496224	2	4	93	1	0	0	0	0	0	0	0	1	4774	639	23	1		1	DSCAM	21	41496224	Silent	SNP	C	TCGA-BR-8690-01A-11D-2394-08		41496224	6633671	157	61217											
KRTAP10-5	386680	broad.mit.edu	37	chr21	46000423	46000423	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccaggagtcagagcaagcGctggagcagacggacatggt	11	4	16	10	3	1	2	1	0	0	2	1	5	1	5	1	4	3	3	1	4	1	0	rs139901000	by1000genomes	TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr21:46000423G>A	uc002zfl.1	-	1	59	c.33C>T	c.(31-33)AGC>AGT	p.S11S	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198694	NP_941967	P60370	KR105_HUMAN	keratin associated protein 10-5	11						keratin filament					0						CAGAGCAAGCGCTGGAGCAGA	0.592													14	111					0	0	0.001855	0	0		A	46000423	A	A	46000423	2	1	93	1	0	0	0	0	0	0	0	1	8528	1078	38	1		1	KRTAP10-5	21	46000423	Silent	SNP	G	TCGA-BR-8690-01A-11D-2394-08	4504199	46000423	2129472	158	61218											
DEPDC5	9681	broad.mit.edu	37	chr22	32275619	32275619	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcagaagagctcgtgcActctgagattcctgcctttc	7	12	11	11	1	1	3	0	1	1	3	4	4	2	3	2	1	3	3	2	1	1	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chr22:32275619A>G	uc003als.2	+	37	3963	c.3821A>G	c.(3820-3822)CAC>CGC	p.H1274R	DEPDC5_uc011als.1_Missense_Mutation_p.H1205R|DEPDC5_uc011alu.1_Missense_Mutation_p.H1305R|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.H1296R|DEPDC5_uc003alu.2_Missense_Mutation_p.H723R|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Missense_Mutation_p.H572R|DEPDC5_uc011alx.1_Missense_Mutation_p.H122R|DEPDC5_uc010gwk.2_Missense_Mutation_p.H300R|DEPDC5_uc011aly.1_Missense_Mutation_p.H122R	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1274					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						GAGCTCGTGCACTCTGAGATT	0.607													28	88					0	0	0.00632	0	0		G	32275619	G	G	32275619	3	3	93	1	0	0	0	0	1	0	0	0	4448	159	6	3	4051	3	DEPDC5	22	32275619	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08		32275619	19028947	159	61219											
ASMTL	8623	broad.mit.edu	37	chrX	1557992	1557992	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctggccgcactcaccaCgatcgtgtccgctccaatga	8	7	8	18	4	1	1	1	1	0	0	4	2	3	1	5	1	0	2	5	1	1	0			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:1557992C>T	uc004cpx.1	-	3	382	c.271G>A	c.(271-273)GTG>ATG	p.V91M	ASMTL_uc011mhe.1_Silent_p.S36S|ASMTL_uc004cpy.1_Intron|ASMTL_uc011mhf.1_Missense_Mutation_p.V33M	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	91	MAF-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCACTCACCACGATCGTGTCC	0.547													13	89					0	0	0.004007	0	0		T	1557992	T	T	1557992	3	4	93	1	0	0	0	0	1	0	0	0	1047	536	19	1	1638	1	ASMTL	23	1557992	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08		1557992	153712568	160	61220											
DMD	1756	broad.mit.edu	37	chrX	32366552	32366552	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaagtcttcctctttcaGattcaccccctgctgaattt	8	16	5	12	0	4	3	2	2	2	1	5	3	5	3	3	0	1	1	3	0	2	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:32366552G>T	uc004dda.1	-	38	5663	c.5419C>A	c.(5419-5421)CTG>ATG	p.L1807M	DMD_uc004dcw.2_Missense_Mutation_p.L463M|DMD_uc004dcx.2_Missense_Mutation_p.L466M|DMD_uc004dcz.2_Missense_Mutation_p.L1684M|DMD_uc004dcy.1_Missense_Mutation_p.L1803M|DMD_uc004ddb.1_Missense_Mutation_p.L1799M|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1807	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TCCTCTTTCAGATTCACCCCC	0.358													5	34					8.12818e-05	8.57767e-05	0.001984	1	0		T	32366552	T	T	32366552	3	4	93	1	0	0	0	0	1	0	0	0	4586	933	33	5	5954	5	DMD	23	32366552	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	30808560	32366552	122904008	161	61221											
DMD	1756	broad.mit.edu	37	chrX	32583888	32583888	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaagttatccagccatgcTtccgtcttctgggtcactga	8	12	9	12	1	3	1	1	1	2	0	5	1	5	1	3	1	2	3	3	1	2	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:32583888T>G	uc004dda.1	-	16	2167	c.1923A>C	c.(1921-1923)GAA>GAC	p.E641D	DMD_uc004dcz.2_Missense_Mutation_p.E518D|DMD_uc004dcy.1_Missense_Mutation_p.E637D|DMD_uc004ddb.1_Missense_Mutation_p.E633D|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.E633D	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	641	Spectrin 3.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CCAGCCATGCTTCCGTCTTCT	0.403													31	85					0	0	0.009535	0	0		G	32583888	G	G	32583888	3	3	93	1	0	0	0	0	1	0	0	0	4586	1606	56	5	9633	5	DMD	23	32583888	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	217336	32583888	122686672	162	61222											
DGKK	139189	broad.mit.edu	37	chrX	50111946	50111946	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctttcaagggctacagtTgagatctcgatggtgttaga	10	12	12	7	1	2	2	1	1	1	2	3	4	2	2	0	2	2	4	0	2	3	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:50111946T>G	uc010njr.1	-	29	3869	c.3809A>C	c.(3808-3810)CAA>CCA	p.Q1270P		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	1270	PDZ-binding.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					GGGCTACAGTTGAGATCTCGA	0.393													5	25					0	0	0.000602	0	0		G	50111946	G	G	50111946	3	3	93	1	0	0	0	0	1	0	0	0	4478	1812	63	5	10	5	DGKK	23	50111946	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	17528058	50111946	105158614	163	61223											
MTMR8	55613	broad.mit.edu	37	chrX	63444310	63444310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcacaaggctctgcggaCgactaaacggacctgtgata	11	7	12	11	3	1	1	0	1	1	0	1	4	1	3	1	4	2	2	1	4	4	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:63444310C>T	uc011mou.1	-	11	2055	c.1987G>A	c.(1987-1989)GTC>ATC	p.V663I	ASB12_uc004dvp.1_Missense_Mutation_p.V279I|ASB12_uc004dvq.1_Missense_Mutation_p.V288I|ASB12_uc004dvr.1_Missense_Mutation_p.V288I	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	Error:Variant_position_missing_in_Q96EF0_after_alignment						nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						GCTCTGCGGACGACTAAACGG	0.493													16	49					0	0	0.004007	0	0		T	63444310	T	T	63444310	3	4	93	1	0	0	0	0	1	0	0	0	9967	536	19	1		1	MTMR8	23	63444310	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	13332364	63444310	91826250	164	61224											
AR	367	broad.mit.edu	37	chrX	66765645	66765645	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggcctcgggggctcccacTtcctccaaggacaattactt	8	9	10	14	1	0	0	0	0	0	0	4	2	3	1	4	4	1	1	4	4	3	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:66765645T>G	uc004dwu.1	+	1	1772	c.657T>G	c.(655-657)ACT>ACG	p.T219T	AR_uc011mpd.1_Silent_p.T219T|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Silent_p.T219T	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	217	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	GGGCTCCCACTTCCTCCAAGG	0.602									Androgen_Insensitivity_Syndrome				11	53					0	0	0.008291	0	0		G	66765645	G	G	66765645	2	3	93	1	0	0	0	0	0	0	0	1	836	1596	56	5		5	AR	23	66765645	Silent	SNP	T	TCGA-BR-8690-01A-11D-2394-08	3321335	66765645	88504915	165	61225											
AR	367	broad.mit.edu	37	chrX	66766242	66766242	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagcctgcatggcgcgggTgcagcgggacccggttctgg	4	6	19	12	5	1	0	0	0	1	0	1	2	1	1	2	5	4	3	2	5	0	1			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:66766242T>A	uc004dwu.1	+	1	2369	c.1254T>A	c.(1252-1254)GGT>GGA	p.G418G	AR_uc011mpd.1_Silent_p.G418G|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Silent_p.G418G	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	416	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	ATGGCGCGGGTGCAGCGGGAC	0.662									Androgen_Insensitivity_Syndrome				4	14					0	0	0.000602	0	0		A	66766242	A	A	66766242	2	1	93	1	0	0	0	0	0	0	0	1	836	1683	59	5		5	AR	23	66766242	Silent	SNP	T	TCGA-BR-8690-01A-11D-2394-08	597	66766242	88504318	166	61226											
MED12	9968	broad.mit.edu	37	chrX	70361778	70361778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagcagcagcaacagacaGcagctttggtccggcaactt	11	6	10	14	1	0	1	0	0	0	1	1	1	1	1	2	2	7	6	2	2	2	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:70361778G>A	uc004dyy.2	+	44	6653	c.6454G>A	c.(6454-6456)GCA>ACA	p.A2152T	NLGN3_uc010nlb.1_5'Flank|NLGN3_uc004dzb.2_5'Flank|NLGN3_uc004dzc.2_5'Flank|MED12_uc004dyz.2_Missense_Mutation_p.A2151T|MED12_uc004dza.2_Missense_Mutation_p.A2002T|MED12_uc010nla.2_Missense_Mutation_p.A781T	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	2152	Gln-rich.				androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					GCAACAGACAGCAGCTTTGGT	0.542													8	40					0	0	0.006214	0	0		A	70361778	A	A	70361778	3	1	93	1	0	0	0	0	1	0	0	0	9446	971	34	2	6628	2	MED12	23	70361778	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	3595536	70361778	84908782	167	61227											
LPAR4	2846	broad.mit.edu	37	chrX	78011061	78011061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtggtgctgagaactcttcGcaagcctgctactctgtctc	6	13	10	12	1	3	1	0	1	3	1	5	2	3	1	1	1	5	3	1	1	3	2			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:78011061G>A	uc010nme.2	+	2	1100	c.695G>A	c.(694-696)CGC>CAC	p.R232H		NM_005296	NP_005287	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	232	Cytoplasmic (Potential).					integral to plasma membrane	lipid binding|purinergic nucleotide receptor activity, G-protein coupled			ovary(3)	3						AGAACTCTTCGCAAGCCTGCT	0.373													7	55					0	0	0.001984	0	0		A	78011061	A	A	78011061	3	1	93	1	0	0	0	0	1	0	0	0	8925	1087	38	1	697	1	LPAR4	23	78011061	Missense_Mutation	SNP	G	TCGA-BR-8690-01A-11D-2394-08	7649283	78011061	77259499	168	61228											
PCDH11X	27328	broad.mit.edu	37	chrX	91133203	91133203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggtagagtatcacgttcttCaagtgccaaagtaaccataa	14	11	8	8	1	3	1	2	0	1	1	3	1	3	1	2	1	2	4	2	1	6	6			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:91133203C>T	uc004efk.1	+	2	2809	c.1964C>T	c.(1963-1965)TCA>TTA	p.S655L	PCDH11X_uc004efl.1_Missense_Mutation_p.S655L|PCDH11X_uc004efo.1_Missense_Mutation_p.S655L|PCDH11X_uc010nmv.1_Missense_Mutation_p.S655L|PCDH11X_uc004efm.1_Missense_Mutation_p.S655L|PCDH11X_uc004efn.1_Missense_Mutation_p.S655L|PCDH11X_uc004efh.1_Missense_Mutation_p.S655L|PCDH11X_uc004efj.1_Missense_Mutation_p.S655L	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	655	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TCACGTTCTTCAAGTGCCAAA	0.388													19	89					0	0	0.012213	0	0		T	91133203	T	T	91133203	3	4	93	1	0	0	0	0	1	0	0	0	11527	838	29	4	1970	4	PCDH11X	23	91133203	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	13122142	91133203	64137357	169	61229											
GUCY2F	2986	broad.mit.edu	37	chrX	108635293	108635293	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaagtcaaagccctcaggTtcaactgtgcagcccttttt	10	11	7	13	0	3	0	3	0	0	0	3	0	3	0	3	1	4	2	3	1	3	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:108635293T>C	uc004eod.3	-	14	2904	c.2628A>G	c.(2626-2628)GAA>GAG	p.E876E	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	876	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						AGCCCTCAGGTTCAACTGTGC	0.488													17	79					0	0	0.007413	0	0		C	108635293	C	C	108635293	2	2	93	1	0	0	0	0	0	0	0	1	6914	1722	60	3		3	GUCY2F	23	108635293	Silent	SNP	T	TCGA-BR-8690-01A-11D-2394-08	17502090	108635293	46635267	170	61230											
UTP14A	10813	broad.mit.edu	37	chrX	129060230	129060230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttccaggtttctcattaaagCccctgagggtcctccaagaa	10	11	8	12	0	1	2	1	1	1	1	5	2	4	2	5	2	1	1	5	2	4	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:129060230C>T	uc004euz.2	+	14	1986	c.1958C>T	c.(1957-1959)GCC>GTC	p.A653V	UTP14A_uc011mup.1_Missense_Mutation_p.A601V|UTP14A_uc011muq.1_Missense_Mutation_p.A599V	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	653					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						CTCATTAAAGCCCCTGAGGGT	0.473											OREG0019920	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	75					0	0	0.001984	0	0		T	129060230	T	T	129060230	3	4	93	1	0	0	0	0	1	0	0	0	17121	739	26	2	2012	2	UTP14A	23	129060230	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	20424937	129060230	26210330	171	61231											
MAGEC3	139081	broad.mit.edu	37	chrX	140953351	140953351	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggggtggaacttcagatcAgcgaatggatagtcttgtcc	10	10	14	7	1	3	1	2	0	1	1	4	5	4	3	1	4	2	0	1	4	3	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:140953351A>T	uc011mwp.1	+	2	218	c.218A>T	c.(217-219)CAG>CTG	p.Q73L		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	73										skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ACTTCAGATCAGCGAATGGAT	0.502													41	92					0	0	0.00874	0	0		T	140953351	T	T	140953351	3	4	93	1	0	0	0	0	1	0	0	0	9200	188	7	5	224	5	MAGEC3	23	140953351	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	11893121	140953351	14317209	172	61232											
GPR50	9248	broad.mit.edu	37	chrX	150349823	150349823	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatcgctgaccttcctgacCctactgtagtcactaccagt	8	11	6	16	1	1	2	1	2	0	0	3	2	2	2	5	0	2	2	5	0	3	4			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:150349823C>A	uc010ntg.1	+	2	1903	c.1768C>A	c.(1768-1770)CCT>ACT	p.P590T		NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	590	Cytoplasmic (Potential).|Pro-rich.				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CCTTCCTGACCCTACTGTAGT	0.532													13	269					3.27435e-08	3.60494e-08	0.00245	1	0		A	150349823	A	A	150349823	3	1	93	1	0	0	0	0	1	0	0	0	6712	623	22	5	1774	5	GPR50	23	150349823	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	9396472	150349823	4920737	173	61233											
GABRA3	2556	broad.mit.edu	37	chrX	151358276	151358276	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaatagttgacagtggCaaattcaatcagtgcagaaa	16	9	11	5	0	2	3	2	2	0	1	2	3	2	3	0	2	1	3	0	2	5	3			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:151358276C>A	uc010ntk.1	-	9	1309	c.1069G>T	c.(1069-1071)GCC>TCC	p.A357S		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	357	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TTGACAGTGGCAAATTCAATC	0.473													36	77					1.90571e-15	2.24952e-15	0.004289	1	0		A	151358276	A	A	151358276	3	1	93	1	0	0	0	0	1	0	0	0	6176	710	25	5	417	5	GABRA3	23	151358276	Missense_Mutation	SNP	C	TCGA-BR-8690-01A-11D-2394-08	1008453	151358276	3912284	174	61234											
MAGEA6	4105	broad.mit.edu	37	chrX	151869654	151869654	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcagtaggaaggtggccaAgttggttcattttctgctcc	8	13	11	9	0	3	0	2	0	1	0	4	1	4	1	2	4	1	4	2	4	3	5			TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:151869654A>T	uc004ffq.1	+	3	538	c.344A>T	c.(343-345)AAG>ATG	p.K115M	MAGEA6_uc004ffr.1_Missense_Mutation_p.K115M|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	115	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					AAGGTGGCCAAGTTGGTTCAT	0.532													13	251					0	0	0.013537	0	0		T	151869654	T	T	151869654	3	4	93	1	0	0	0	0	1	0	0	0	9188	72	3	5	346	5	MAGEA6	23	151869654	Missense_Mutation	SNP	A	TCGA-BR-8690-01A-11D-2394-08	511378	151869654	3400906	175	61235											
F8	2157	broad.mit.edu	37	chrX	154225313	154225313	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggatgggaagccatgttcTtaagtgtaatgaccactgta	12	11	11	7	0	1	1	0	1	1	0	1	3	1	3	2	2	1	3	2	2	4	4	rs137852384		TCGA-BR-8690-01A-11D-2394-08	TCGA-BR-8690-10A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	edc8839f-fa6b-41e0-ad49-f688073730bd	3e7926eb-67ff-43c6-a3be-7a3cc78d03c2	g.chrX:154225313T>G	uc004fmt.2	-	3	494	c.323A>C	c.(322-324)AAG>ACG	p.K108T	F8_uc011mzx.1_Missense_Mutation_p.K73T	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	108	Plastocyanin-like 1.|F5/8 type A 1.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	AGCCATGTTCTTAAGTGTAAT	0.453													23	164					0	0	0.003954	0	0		G	154225313	G	G	154225313	3	3	93	1	0	0	0	0	1	0	0	0	5358	1609	56	5	6856	5	F8	23	154225313	Missense_Mutation	SNP	T	TCGA-BR-8690-01A-11D-2394-08	2355659	154225313	1045247	176	61236											
TTF2	8458	broad.mit.edu	37	chr1	117618069	117618069	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacaaggagtacacgaactGggaggctaaagaaacaaagg	19	3	12	7	1	0	1	0	0	0	1	0	4	0	3	0	4	4	2	0	4	8	2			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr1:117618069G>T	uc001egy.2	+	5	883	c.863G>T	c.(862-864)TGG>TTG	p.W288L	TTF2_uc001egx.1_Missense_Mutation_p.W288L	NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	288					mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		TACACGAACTGGGAGGCTAAA	0.522													4	70					0.00909568	0.00963072	0.009096	1	0		T	117618069	T	T	117618069	3	4	94	1	0	0	0	0	1	0	0	0	16745	1357	47	5	881	5	TTF2	1	117618069	Missense_Mutation	SNP	G	TCGA-BR-A4IV-01A-31D-A25D-08		117618069	131632552	1	61237											
IQGAP3	128239	broad.mit.edu	37	chr1	156510514	156510514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatacctgcagagtgatccGgttcttcaccagcaggccaa	10	8	9	14	1	2	2	1	1	1	1	3	2	3	2	5	2	3	3	5	2	2	3			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr1:156510514G>A	uc001fpf.2	-	23	2800	c.2725C>T	c.(2725-2727)CGG>TGG	p.R909W		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	909					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGAGTGATCCGGTTCTTCACC	0.537													4	56					0	0	0.009096	0	0		A	156510514	A	A	156510514	3	1	94	1	0	0	0	0	1	0	0	0	7832	1115	39	1	2234	1	IQGAP3	1	156510514	Missense_Mutation	SNP	G	TCGA-BR-A4IV-01A-31D-A25D-08	38892445	156510514	92740107	2	61238											
OR10K1	391109	broad.mit.edu	37	chr1	158435617	158435617	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttgacctgctgtcccagaAgaagaccatttctttcctgg	8	12	10	11	0	1	4	0	1	1	3	3	4	3	4	4	2	1	2	4	2	2	3			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr1:158435617A>C	uc010pij.1	+	1	266	c.266A>C	c.(265-267)AAG>ACG	p.K89T		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					CTGTCCCAGAAGAAGACCATT	0.488													9	161					0	0	0.004482	0	0		C	158435617	C	C	158435617	3	2	94	1	0	0	0	0	1	0	0	0	10932	72	3	5	268	5	OR10K1	1	158435617	Missense_Mutation	SNP	A	TCGA-BR-A4IV-01A-31D-A25D-08	1925103	158435617	90815004	3	61239											
SPTA1	6708	broad.mit.edu	37	chr1	158622374	158622374	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcctgcctcataggccaaTaaaaattcattataacgttg	13	13	5	10	1	3	0	2	0	1	0	4	0	3	0	3	1	2	1	3	1	7	6			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr1:158622374T>A	uc001fst.1	-	23	3457	c.3258A>T	c.(3256-3258)TTA>TTT	p.L1086F		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1086	Spectrin 11.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CATAGGCCAATAAAAATTCAT	0.438													6	96					0	0	0.001984	0	0		A	158622374	A	A	158622374	3	1	94	1	0	0	0	0	1	0	0	0	15141	1403	49	5	4121	5	SPTA1	1	158622374	Missense_Mutation	SNP	T	TCGA-BR-A4IV-01A-31D-A25D-08	186757	158622374	90628247	4	61240											
REN	5972	broad.mit.edu	37	chr1	204124212	204124212	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgtagaactttcggatgaAggtggcccccagggcccagg	8	8	15	10	1	0	2	0	1	0	1	1	3	0	3	3	5	1	1	3	5	3	2			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr1:204124212A>T	uc001haq.2	-	10	1197	c.1153T>A	c.(1153-1155)TTC>ATC	p.F385I	ETNK2_uc001hao.3_5'Flank|ETNK2_uc001han.3_5'Flank|ETNK2_uc010pqs.1_5'Flank|ETNK2_uc010pqt.1_5'Flank	NM_000537	NP_000528	P00797	RENI_HUMAN	renin preproprotein	385					angiotensin maturation|regulation of MAPKKK cascade	extracellular space|membrane	aspartic-type endopeptidase activity			skin(3)|central_nervous_system(1)	4	all_cancers(21;0.00965)|Breast(84;0.116)|all_epithelial(62;0.157)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)		Aliskiren(DB01258)|Remikiren(DB00212)	TTTCGGATGAAGGTGGCCCCC	0.607													6	48					0	0	0.001168	0	0		T	204124212	T	T	204124212	3	4	94	1	0	0	0	0	1	0	0	0	13249	72	3	5	71	5	REN	1	204124212	Missense_Mutation	SNP	A	TCGA-BR-A4IV-01A-31D-A25D-08	45501838	204124212	45126409	5	61241											
TTN	7273	broad.mit.edu	37	chr2	179613105	179613105	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttgactggaagaaatttcTtgactggcaaatacattatt	13	15	7	6	0	2	3	0	2	2	1	2	4	2	4	0	2	1	1	0	2	5	6			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr2:179613105T>A	uc002unb.2	-	46	14246	c.14022A>T	c.(14020-14022)CAA>CAT	p.Q4674H	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAGAAATTTCTTGACTGGCAA	0.328													7	115					0	0	0.006214	0	0		A	179613105	A	A	179613105	3	1	94	1	0	0	0	0	1	0	0	0	16761	1606	56	5	96275	5	TTN	2	179613105	Missense_Mutation	SNP	T	TCGA-BR-A4IV-01A-31D-A25D-08		179613105	63586268	6	61242											
PDCD1	5133	broad.mit.edu	37	chr2	242794903	242794903	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcatgtggaagtcacgcccGttgggcagttgtgtgacacg	7	10	14	10	3	2	1	2	1	0	0	2	2	2	2	1	2	0	3	1	2	1	2	rs55637807		TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr2:242794903G>A	uc002wcq.3	-	2	374	c.306C>T	c.(304-306)AAC>AAT	p.N102N	PDCD1_uc010fzs.2_Silent_p.N33N|PDCD1_uc010fzt.2_Intron	NM_005018	NP_005009	Q15116	PDCD1_HUMAN	programmed cell death 1 precursor	102	Ig-like V-type.|Extracellular (Potential).				apoptosis|humoral immune response|multicellular organismal development|T cell costimulation	integral to membrane	protein tyrosine phosphatase activity|signal transducer activity			ovary(1)	1		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;3.84e-33)|all cancers(36;8.08e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.41e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0219)		AGTCACGCCCGTTGGGCAGTT	0.672													4	66					0	0	0.009096	0	0		A	242794903	A	A	242794903	2	1	94	1	0	0	0	0	0	0	0	1	11634	1136	40	1		1	PDCD1	2	242794903	Silent	SNP	G	TCGA-BR-A4IV-01A-31D-A25D-08	63181798	242794903	404470	7	61243											
RHOA	387	broad.mit.edu	37	chr3	49405959	49405959	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataatcttcctgcccagctGtgtcccacaaagccaactct	10	10	5	16	0	2	0	0	0	2	0	4	0	4	0	4	0	4	1	4	0	3	2			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr3:49405959G>T	uc003cwu.2	-	3	455	c.179C>A	c.(178-180)ACA>AAA	p.T60K	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	60	GTP (By similarity).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	CTGCCCAGCTGTGTCCCACAA	0.468													11	91					0.00185496	0.00208683	0.016723	1	0		T	49405959	T	T	49405959	3	4	94	1	0	0	0	0	1	0	0	0	13356	1377	48	5	414	5	RHOA	3	49405959	Missense_Mutation	SNP	G	TCGA-BR-A4IV-01A-31D-A25D-08		49405959	148616471	8	61244											
SLIT2	9353	broad.mit.edu	37	chr4	20618693	20618693	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgcctggctgtgagccatgCcacaagaaggtgtgtgccca	8	9	13	11	0	0	2	0	1	0	1	0	2	0	2	4	2	4	1	4	2	2	1			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr4:20618693C>T	uc003gpr.1	+	35	4212	c.4008C>T	c.(4006-4008)TGC>TGT	p.C1336C	SLIT2_uc003gps.1_Silent_p.C1328C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1336	EGF-like 7.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GTGAGCCATGCCACAAGAAGG	0.592													4	63					0	0	0.009096	0	0		T	20618693	T	T	20618693	2	4	94	1	0	0	0	0	0	0	0	1	14765	747	26	2		2	SLIT2	4	20618693	Silent	SNP	C	TCGA-BR-A4IV-01A-31D-A25D-08		20618693	170535583	9	61245											
PCDHA3	56145	broad.mit.edu	37	chr5	140182645	140182645	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accggcggtgcgcgcatcccGtttcgcgtggggctgtacac	4	8	15	14	7	0	0	0	0	0	0	2	0	1	0	2	4	2	4	2	4	1	2			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr5:140182645G>A	uc003lhf.2	+	1	1863	c.1863G>A	c.(1861-1863)CCG>CCA	p.P621P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.P621P	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	621	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGCATCCCGTTTCGCGTGG	0.667													7	91					0	0	0.00308	0	0		A	140182645	A	A	140182645	2	1	94	1	0	0	0	0	0	0	0	1	11544	1132	40	1		1	PCDHA3	5	140182645	Silent	SNP	G	TCGA-BR-A4IV-01A-31D-A25D-08		140182645	40732615	10	61246											
DNAH11	8701	broad.mit.edu	37	chr7	21908603	21908603	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaaggaggacactgggtcatCctccaagtgagtattaagtt	13	10	11	7	0	1	1	1	1	0	0	3	3	3	3	2	3	0	2	2	3	4	3			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr7:21908603C>T	uc003svc.2	+	74	12013	c.11982C>T	c.(11980-11982)ATC>ATT	p.I3994I		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3994	AAA 6 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						ACTGGGTCATCCTCCAAGTGA	0.527									Kartagener_syndrome				3	35					0	0	0.004672	0	0		T	21908603	T	T	21908603	2	4	94	1	0	0	0	0	0	0	0	1	4605	845	30	4		4	DNAH11	7	21908603	Silent	SNP	C	TCGA-BR-A4IV-01A-31D-A25D-08		21908603	137230060	11	61247											
TXNDC3	51314	broad.mit.edu	37	chr7	37927910	37927910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtttgcgatggacagtttgCcggtcaaccagttgtatggc	8	12	13	8	2	1	0	1	0	0	0	1	2	1	1	2	3	3	4	2	3	2	4			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr7:37927910C>T	uc003tfn.2	+	15	1651	c.1279C>T	c.(1279-1281)CCG>TCG	p.P427S		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	427	NDK 2.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						GGACAGTTTGCCGGTCAACCA	0.368									Kartagener_syndrome				4	64					0	0	0.001168	0	0		T	37927910	T	T	37927910	3	4	94	1	0	0	0	0	1	0	0	0	16824	739	26	2	1329	2	TXNDC3	7	37927910	Missense_Mutation	SNP	C	TCGA-BR-A4IV-01A-31D-A25D-08	16019307	37927910	121210753	12	61248											
POM121L12	285877	broad.mit.edu	37	chr7	53104090	53104090	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagccgagcctcggcccCtggagcctcagtttttgtga	6	10	12	13	2	1	2	1	2	0	0	2	4	1	3	5	2	3	1	5	2	1	2			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr7:53104090C>A	uc003tpz.2	+	1	742	c.726C>A	c.(724-726)CCC>CCA	p.P242P		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	242											0						GCCTCGGCCCCTGGAGCCTCA	0.647													7	64					0.00198382	0.00216417	0.001984	1	0		A	53104090	A	A	53104090	2	1	94	1	0	0	0	0	0	0	0	1	12260	668	24	5		5	POM121L12	7	53104090	Silent	SNP	C	TCGA-BR-A4IV-01A-31D-A25D-08	15176180	53104090	106034573	13	61249											
CA8	767	broad.mit.edu	37	chr8	61192405	61192405	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggagactggtattccccAttagcatcaggaaacaccag	14	8	9	10	0	1	1	1	0	0	1	2	3	2	2	3	3	2	2	3	3	4	4			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr8:61192405A>T	uc003xtz.1	-	2	383	c.135T>A	c.(133-135)AAT>AAA	p.N45K	CA8_uc003xua.1_Missense_Mutation_p.N45K|CA8_uc003xub.2_Missense_Mutation_p.N45K	NM_004056	NP_004047	P35219	CAH8_HUMAN	carbonic anhydrase VIII	45					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0		all_cancers(86;0.172)|all_epithelial(80;0.0383)|all_lung(136;0.0413)|Lung NSC(129;0.0474)				GGTATTCCCCATTAGCATCAG	0.398													3	31					0	0	0.004672	0	0		T	61192405	T	T	61192405	3	4	94	1	0	0	0	0	1	0	0	0	2526	214	8	5	765	5	CA8	8	61192405	Missense_Mutation	SNP	A	TCGA-BR-A4IV-01A-31D-A25D-08		61192405	85171617	14	61250											
HAS2	3037	broad.mit.edu	37	chr8	122627197	122627197	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacacacccaaaataagactGacaggccctttctatattaa	17	9	4	11	0	1	2	0	1	1	1	1	2	1	2	2	1	1	0	2	1	7	5			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr8:122627197G>A	uc003yph.2	-	4	1349	c.811C>T	c.(811-813)CAG>TAG	p.Q271*		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	271	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			AAATAAGACTGACAGGCCCTT	0.383													8	96					0	0	0.004482	0	0		A	122627197	A	A	122627197	4	1	94	1	0	0	0	0	0	1	0	0	6978	1299	45	4	851	4	HAS2	8	122627197	Nonsense_Mutation	SNP	G	TCGA-BR-A4IV-01A-31D-A25D-08	61434792	122627197	23736825	15	61251											
DBC1	1620	broad.mit.edu	37	chr9	121930039	121930039	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgatcaccatgtggatgaAgtccatgcggttcttgttgc	7	12	12	10	2	2	1	1	1	1	0	3	3	3	2	3	2	2	2	3	2	1	3			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr9:121930039A>C	uc004bkc.2	-	8	2065	c.1609T>G	c.(1609-1611)TTC>GTC	p.F537V		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	537					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						ATGTGGATGAAGTCCATGCGG	0.557													5	57					0	0	0.014758	0	0		C	121930039	C	C	121930039	3	2	94	1	0	0	0	0	1	0	0	0	4250	72	3	5	680	5	DBC1	9	121930039	Missense_Mutation	SNP	A	TCGA-BR-A4IV-01A-31D-A25D-08		121930039	19283392	16	61252											
TOR2A	27433	broad.mit.edu	37	chr9	130496702	130496702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggagctgacataggatttgCcggtgccggtccagccgtgc	6	8	16	11	3	0	1	0	1	0	0	1	3	1	3	4	4	5	1	4	4	1	2			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr9:130496702C>T	uc004brs.3	-	2	348	c.293G>A	c.(292-294)GGC>GAC	p.G98D	TOR2A_uc004brt.3_Missense_Mutation_p.G98D|TOR2A_uc004brw.3_Missense_Mutation_p.G98D|TOR2A_uc011maj.1_Intron|TOR2A_uc004bru.3_Intron|TOR2A_uc004brv.3_Intron|TOR2A_uc004brx.1_5'UTR	NM_001085347	NP_001078816	Q5JU69	TOR2A_HUMAN	torsin family 2, member A isoform a	98	ATP (Potential).				chaperone mediated protein folding requiring cofactor	endoplasmic reticulum|extracellular region	ATP binding|nucleoside-triphosphatase activity				0						ATAGGATTTGCCGGTGCCGGT	0.682											OREG0019509	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	33					0	0	0.004672	0	0		T	130496702	T	T	130496702	3	4	94	1	0	0	0	0	1	0	0	0	16401	739	26	2	857	2	TOR2A	9	130496702	Missense_Mutation	SNP	C	TCGA-BR-A4IV-01A-31D-A25D-08	8566663	130496702	10716729	17	61253											
TECTA	7007	broad.mit.edu	37	chr11	120996063	120996063	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttagacttggggacagtgaAaatctaccagagtggcatat	13	10	11	7	0	1	3	0	1	1	2	1	4	1	4	1	3	1	1	1	3	5	4			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr11:120996063A>C	uc010rzo.1	+	7	1256	c.1256A>C	c.(1255-1257)AAA>ACA	p.K419T		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	419	VWFD 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GGGACAGTGAAAATCTACCAG	0.502													11	197					0	0	0.008291	0	0		C	120996063	C	C	120996063	3	2	94	1	0	0	0	0	1	0	0	0	15772	14	1	5	1282	5	TECTA	11	120996063	Missense_Mutation	SNP	A	TCGA-BR-A4IV-01A-31D-A25D-08		120996063	14010453	18	61254											
KCNA5	3741	broad.mit.edu	37	chr12	5153813	5153813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacgagtacttcttcgaccGcaaccggcccagcttcgacg	9	7	10	15	6	1	0	0	0	1	0	3	4	1	0	3	1	4	3	3	1	3	4			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr12:5153813G>A	uc001qni.2	+	1	729	c.500G>A	c.(499-501)CGC>CAC	p.R167H		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	167						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						TTCTTCGACCGCAACCGGCCC	0.657													5	82					0	0	0.014758	0	0		A	5153813	A	A	5153813	3	1	94	1	0	0	0	0	1	0	0	0	8022	1087	38	1	502	1	KCNA5	12	5153813	Missense_Mutation	SNP	G	TCGA-BR-A4IV-01A-31D-A25D-08		5153813	128698082	19	61255											
DGKA	1606	broad.mit.edu	37	chr12	56346685	56346685	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacagctaaagtcatcacCgaccctgatatcctgaaaac	14	8	6	13	1	2	2	2	2	0	0	3	3	3	2	3	0	3	2	3	0	6	3	rs150840309	byFrequency	TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr12:56346685C>T	uc001sij.2	+	21	2175	c.1911C>T	c.(1909-1911)ACC>ACT	p.T637T	DGKA_uc009zod.1_Silent_p.T556T|DGKA_uc001sik.2_Silent_p.T637T|DGKA_uc001sil.2_Silent_p.T637T|DGKA_uc001sim.2_Silent_p.T637T|DGKA_uc001sin.2_Silent_p.T637T|DGKA_uc009zof.2_Silent_p.T283T|DGKA_uc001sio.2_Silent_p.T379T	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	637					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	AAGTCATCACCGACCCTGATA	0.552													6	149					0	0	0.001168	0	0		T	56346685	T	T	56346685	2	4	94	1	0	0	0	0	0	0	0	1	4471	639	23	1		1	DGKA	12	56346685	Silent	SNP	C	TCGA-BR-A4IV-01A-31D-A25D-08	51192872	56346685	77505210	20	61256											
PCK2	5106	broad.mit.edu	37	chr14	24566314	24566314	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accctgctggagcagcagggCctcatccgaaagctccccaa	10	5	10	16	1	1	0	1	0	0	0	3	2	3	1	5	2	4	4	5	2	2	0			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr14:24566314C>T	uc001wlt.2	+	2	375	c.243C>T	c.(241-243)GGC>GGT	p.G81G	NRL_uc001wlp.2_5'Flank|NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Silent_p.G93G|PCK2_uc001wls.2_Silent_p.G81G|PCK2_uc010tnw.1_Intron|PCK2_uc010ald.2_5'UTR|PCK2_uc010ale.2_5'UTR|PCK2_uc010tnx.1_5'UTR|PCK2_uc001wlu.3_5'UTR	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	81					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		AGCAGCAGGGCCTCATCCGAA	0.557													6	78					0	0	0.001168	0	0		T	24566314	T	T	24566314	2	4	94	1	0	0	0	0	0	0	0	1	11601	726	26	2		2	PCK2	14	24566314	Silent	SNP	C	TCGA-BR-A4IV-01A-31D-A25D-08		24566314	82783226	21	61257											
PLEKHG4	25894	broad.mit.edu	37	chr16	67321852	67321852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggggaacaaggccttccGagacattgctcccagcgagg	9	7	14	11	2	0	1	0	0	0	1	2	4	2	2	3	4	3	1	3	4	2	2			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr16:67321852G>A	uc002eso.3	+	18	5690	c.3155G>A	c.(3154-3156)CGA>CAA	p.R1052Q	PLEKHG4_uc002esp.3_Missense_Mutation_p.R859Q|PLEKHG4_uc002esq.3_Missense_Mutation_p.R1052Q|PLEKHG4_uc010cef.2_Missense_Mutation_p.R1052Q|PLEKHG4_uc002ess.3_Missense_Mutation_p.R1052Q|PLEKHG4_uc010ceg.2_Missense_Mutation_p.R971Q	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	1052					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		AAGGCCTTCCGAGACATTGCT	0.587													5	92					0	0	0.001168	0	0		A	67321852	A	A	67321852	3	1	94	1	0	0	0	0	1	0	0	0	12090	1058	37	1	3225	1	PLEKHG4	16	67321852	Missense_Mutation	SNP	G	TCGA-BR-A4IV-01A-31D-A25D-08		67321852	23032901	22	61258											
CDH1	999	broad.mit.edu	37	chr16	68844172	68844172	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattttgatcacggtaaccGatcagaatgacaacaagccc	15	8	8	10	2	2	4	2	2	0	2	2	5	2	4	2	1	3	1	2	1	4	3			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr16:68844172G>T	uc002ewg.1	+	6	884	c.760G>T	c.(760-762)GAT>TAT	p.D254Y	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.D254Y	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	254	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.?(2)|p.D254fs*9(1)|p.D254H(1)|p.D254Y(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		CACGGTAACCGATCAGAATGA	0.468			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				11	143					4.3838e-07	5.09087e-07	0.016723	1	0		T	68844172	T	T	68844172	3	4	94	1	0	0	0	0	1	0	0	0	3098	1058	37	5	782	5	CDH1	16	68844172	Missense_Mutation	SNP	G	TCGA-BR-A4IV-01A-31D-A25D-08	1522320	68844172	21510581	23	61259											
GUCY2D	3000	broad.mit.edu	37	chr17	7907247	7907247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggaggccgcagaggagctgGgcctgaccgatggctccctg	6	6	17	12	2	0	2	0	1	0	1	1	5	1	4	4	5	1	3	4	5	0	0			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr17:7907247G>A	uc002gjt.2	+	3	873	c.799G>A	c.(799-801)GGC>AGC	p.G267S		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	267	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				AGAGGAGCTGGGCCTGACCGA	0.667													5	93					0	0	0.001168	0	0		A	7907247	A	A	7907247	3	1	94	1	0	0	0	0	1	0	0	0	6913	1232	43	4	805	4	GUCY2D	17	7907247	Missense_Mutation	SNP	G	TCGA-BR-A4IV-01A-31D-A25D-08		7907247	73287963	24	61260											
CATSPERG	57828	broad.mit.edu	37	chr19	38851392	38851392	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtaccttatgaacaacCagaagggccagctggtcaag	12	8	12	9	0	1	2	1	1	0	1	1	2	1	2	3	3	4	2	3	3	6	2			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr19:38851392C>G	uc002oih.3	+	16	1876	c.1789C>G	c.(1789-1791)CAG>GAG	p.Q597E	CATSPERG_uc002oig.3_Missense_Mutation_p.Q557E|CATSPERG_uc002oif.3_Missense_Mutation_p.Q237E|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	597	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						TATGAACAACCAGAAGGGCCA	0.612													3	34					0	0	0.004672	0	0		G	38851392	G	G	38851392	3	3	94	1	0	0	0	0	1	0	0	0	2695	595	21	5	1847	5	CATSPERG	19	38851392	Missense_Mutation	SNP	C	TCGA-BR-A4IV-01A-31D-A25D-08		38851392	20277591	25	61261											
DDX53	168400	broad.mit.edu	37	chrX	23019989	23019989	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaatggctgagcaatacaaGttaaatcaacaaaagaggca	19	7	9	6	0	1	2	1	1	0	1	1	2	1	2	0	2	3	5	0	2	9	3			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chrX:23019989G>C	uc004daj.2	+	1	1903	c.1815G>C	c.(1813-1815)AAG>AAC	p.K605N		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	605						nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						AGCAATACAAGTTAAATCAAC	0.388													4	37					0	0	0.009096	0	0		C	23019989	C	C	23019989	3	2	94	1	0	0	0	0	1	0	0	0	4374	1020	36	5	1817	5	DDX53	23	23019989	Missense_Mutation	SNP	G	TCGA-BR-A4IV-01A-31D-A25D-08		23019989	132250571	26	61262											
GNL3L	54552	broad.mit.edu	37	chrX	54578096	54578096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaggtgggcaccatcctgcGtaactgcgtccacgtgcaga	9	7	13	12	3	0	2	0	0	0	2	2	2	2	2	3	2	4	3	3	2	1	1	rs2298284	by1000genomes	TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chrX:54578096G>A	uc004dth.1	+	11	1098	c.959G>A	c.(958-960)CGT>CAT	p.R320H	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	320	G.				ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						ACCATCCTGCGTAACTGCGTC	0.617													4	29					0	0	0.014758	0	0		A	54578096	A	A	54578096	3	1	94	1	0	0	0	0	1	0	0	0	6553	1145	40	1	997	1	GNL3L	23	54578096	Missense_Mutation	SNP	G	TCGA-BR-A4IV-01A-31D-A25D-08	31558107	54578096	100692464	27	61263											
NBPF1	55672	broad.mit.edu	37	chr1	16907975	16907975	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaacatcttcatcctcaTcttcgtcattttctgtaaat	9	18	3	11	1	6	1	3	1	3	0	8	1	7	1	1	0	1	1	1	0	3	6			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr1:16907975T>C	uc009vos.1	-	15	2207	c.1319A>G	c.(1318-1320)GAT>GGT	p.D440G	NBPF1_uc009vot.1_Intron|NBPF1_uc001ayz.1_Intron|NBPF1_uc010oce.1_Missense_Mutation_p.D169G	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	440	NBPF 2.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TTCATCCTCATCTTCGTCATT	0.433													22	454					0	0	0.010818	0	0		C	16907975	C	C	16907975	3	2	95	1	0	0	0	0	1	0	0	0	10210	1435	50	3	2165	3	NBPF1	1	16907975	Missense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08		16907975	232342646	1	61264											
PTAFR	5724	broad.mit.edu	37	chr1	28477276	28477276	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccacgttgcacaggaatttgGggagtatccagttgccctgg	8	10	13	10	1	0	0	0	0	0	0	1	2	1	2	3	4	2	4	3	4	2	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr1:28477276G>T	uc001bpl.2	-	2	384	c.257C>A	c.(256-258)CCC>CAC	p.P86H	PTAFR_uc001bpm.3_Missense_Mutation_p.P86H|PTAFR_uc009vte.2_Missense_Mutation_p.P86H	NM_000952	NP_000943	P25105	PTAFR_HUMAN	platelet-activating factor receptor	86	Extracellular (Potential).				chemotaxis|inflammatory response|interferon-gamma-mediated signaling pathway|phosphatidylinositol-mediated signaling	integral to plasma membrane|nucleus	phospholipid binding|platelet activating factor receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00715)|all_lung(284;0.00732)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.215)|OV - Ovarian serous cystadenocarcinoma(117;6e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|STAD - Stomach adenocarcinoma(196;0.00678)|READ - Rectum adenocarcinoma(331;0.0649)		CAGGAATTTGGGGAGTATCCA	0.507													18	74					1.40151e-16	1.68001e-16	0.010504	1	0		T	28477276	T	T	28477276	3	4	95	1	0	0	0	0	1	0	0	0	12745	1232	43	5	775	5	PTAFR	1	28477276	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	11569301	28477276	220773345	2	61265											
MARCKSL1	65108	broad.mit.edu	37	chr1	32800283	32800285	+	In_Frame_Del	DEL	TCT	-	-																															ctgtagcctggggccctgccTcttcttctgaggctgcacta																										TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr1:32800283_32800285delTCT	uc001bvd.2	-	2	701_703	c.501_503delAGA	c.(499-504)GAAGAG>GAG	p.167_168EE>E		NM_023009	NP_075385	P49006	MRP_HUMAN	MARCKS-like 1	167_168						plasma membrane	calmodulin binding			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				GGGCCCTGCCTCTTCTTCTGAGG	0.665													22	44	---	---	---	---						.	-	32800285	-	-	32800283	7	5	95	1	0	1	0	1	0	0	0	0	9328	1551	54	0	88	0	MARCKSL1	1	32800283	In_Frame_Del	DEL	TCT	TCGA-BR-A4IY-01A-11D-A25D-08	4323007	32800283	216450338	3	61266											
RORC	6097	broad.mit.edu	37	chr1	151785769	151785769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccttcaaaaaagaccgtgcGgttgtcagcattgtaggccc	10	9	11	11	2	2	1	2	0	0	1	2	1	2	1	3	2	2	3	3	2	4	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr1:151785769G>A	uc001ezh.2	-	8	1228	c.1120C>T	c.(1120-1122)CGC>TGC	p.R374C	RORC_uc001ezg.2_Missense_Mutation_p.R353C|RORC_uc010pdo.1_Missense_Mutation_p.R428C|RORC_uc010pdp.1_Missense_Mutation_p.R374C	NM_005060	NP_005051	P51449	RORG_HUMAN	RAR-related orphan receptor C isoform a	374	Ligand-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			AAGACCGTGCGGTTGTCAGCA	0.557													51	251					0	0	0.01441	0	0		A	151785769	A	A	151785769	3	1	95	1	0	0	0	0	1	0	0	0	13555	1116	39	1	452	1	RORC	1	151785769	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	118985486	151785769	97464852	4	61267											
GBA	2629	broad.mit.edu	37	chr1	155209829	155209829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattgcagacacacaccaccGagctgtagccgaagctttta	12	8	8	13	2	0	1	0	0	0	1	0	3	0	1	3	0	4	4	3	0	3	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr1:155209829G>A	uc001fjh.2	-	3	305	c.155C>T	c.(154-156)TCG>TTG	p.S52L	RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Intron|GBA_uc010pfx.1_Missense_Mutation_p.S52L|GBA_uc001fji.2_Missense_Mutation_p.S52L|GBA_uc001fjj.2_Missense_Mutation_p.S52L|GBA_uc001fjk.2_Missense_Mutation_p.S52L|GBA_uc001fjl.2_Missense_Mutation_p.S52L|GBA_uc010pfy.1_5'UTR|GBA_uc009wqk.1_Intron	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor	52					carbohydrate metabolic process|cell death|cellular response to tumor necrosis factor|ceramide biosynthetic process|glucosylceramide catabolic process|lysosome organization|negative regulation of interleukin-6 production|negative regulation of MAP kinase activity|positive regulation of protein dephosphorylation|sphingosine biosynthetic process|termination of signal transduction	lysosomal lumen|lysosomal membrane	cation binding|glucosylceramidase activity|receptor binding			ovary(1)|skin(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)		Alglucerase(DB00088)|Imiglucerase(DB00053)	ACACACCACCGAGCTGTAGCC	0.567									Gaucher_disease_type_I				8	36					0	0	0.004482	0	0		A	155209829	A	A	155209829	3	1	95	1	0	0	0	0	1	0	0	0	6281	1059	37	1	1491	1	GBA	1	155209829	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	3424060	155209829	94040792	5	61268											
PAPPA2	60676	broad.mit.edu	37	chr1	176525566	176525566	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgcaagaaatccttggttgaGagggaacacctgaatcaggt	13	8	12	8	1	1	3	1	2	0	2	2	5	2	4	2	3	1	2	2	3	4	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr1:176525566G>C	uc001gkz.2	+	2	1272	c.108G>C	c.(106-108)GAG>GAC	p.E36D	PAPPA2_uc001gky.1_Missense_Mutation_p.E36D|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	36					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CCTTGGTTGAGAGGGAACACC	0.532													8	98					0	0	0.00308	0	0		C	176525566	C	C	176525566	3	2	95	1	0	0	0	0	1	0	0	0	11452	933	33	5	110	5	PAPPA2	1	176525566	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	21315737	176525566	72725055	6	61269											
HMCN1	83872	broad.mit.edu	37	chr1	186099205	186099205	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacagcgttggctttgtgAaggcaattggatttgtttat	10	15	12	4	1	0	2	0	1	0	1	0	3	0	3	0	3	2	4	0	3	4	6			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr1:186099205A>T	uc001grq.1	+	84	13241	c.13012A>T	c.(13012-13014)AAG>TAG	p.K4338*	HMCN1_uc001grs.1_5'UTR	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4338	Ig-like C2-type 42.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TGGCTTTGTGAAGGCAATTGG	0.363													4	59					0	0	0.000602	0	0		T	186099205	T	T	186099205	4	4	95	1	0	0	0	0	0	1	0	0	7236	247	9	5	13346	5	HMCN1	1	186099205	Nonsense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	9573639	186099205	63151416	7	61270											
TROVE2	6738	broad.mit.edu	37	chr1	193038590	193038590	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtttaagaaagatctgAaggaaagcatgaaatgtggc	16	9	11	5	0	1	4	0	2	1	2	2	5	2	5	1	2	1	2	1	2	5	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr1:193038590A>C	uc001gss.2	+	2	581	c.406A>C	c.(406-408)AAG>CAG	p.K136Q	TROVE2_uc001gst.1_Intron|TROVE2_uc001gsu.1_Intron|TROVE2_uc001gsv.1_Missense_Mutation_p.K136Q|TROVE2_uc001gsw.2_Missense_Mutation_p.K136Q|TROVE2_uc009wyp.2_Missense_Mutation_p.K136Q|TROVE2_uc009wyq.2_Missense_Mutation_p.K136Q|TROVE2_uc001gsx.1_Missense_Mutation_p.K136Q	NM_004600	NP_004591	P10155	RO60_HUMAN	TROVE domain family, member 2 isoform 2	136	TROVE.				transcription from RNA polymerase III promoter	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0						GAAAGATCTGAAGGAAAGCAT	0.463													15	53					0	0	0.004007	0	0		C	193038590	C	C	193038590	3	2	95	1	0	0	0	0	1	0	0	0	16602	247	9	5	408	5	TROVE2	1	193038590	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	6939385	193038590	56212031	8	61271											
RABIF	5877	broad.mit.edu	37	chr1	202850310	202850310	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccgtcaggattgctgccGtcagacagagctggcttctt	6	11	12	12	3	3	2	2	0	1	2	4	3	3	3	2	2	3	3	2	2	0	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr1:202850310G>A	uc001gyl.2	-	2	205	c.168C>T	c.(166-168)GAC>GAT	p.D56D		NM_002871	NP_002862	P47224	MSS4_HUMAN	RAB-interacting factor	56					cellular membrane fusion|protein transport|small GTPase mediated signal transduction		guanyl-nucleotide exchange factor activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)			GATTGCTGCCGTCAGACAGAG	0.507													11	43					0	0	0.008291	0	0		A	202850310	A	A	202850310	2	1	95	1	0	0	0	0	0	0	0	1	12994	1136	40	1		1	RABIF	1	202850310	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	9811720	202850310	46400311	9	61272											
KCTD3	51133	broad.mit.edu	37	chr1	215793440	215793440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccacccatgaagcagctaCttacggttccatgaggcctt	10	10	8	13	1	0	2	0	2	0	0	1	2	1	2	4	2	5	3	4	2	4	5			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr1:215793440C>T	uc001hks.2	+	18	2222	c.1928C>T	c.(1927-1929)ACT>ATT	p.T643I	KCTD3_uc001hkt.2_Missense_Mutation_p.T641I|KCTD3_uc010pub.1_Missense_Mutation_p.T541I|KCTD3_uc009xdn.2_Missense_Mutation_p.T367I	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	643						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		GAAGCAGCTACTTACGGTTCC	0.413													4	54					0	0	0.009096	0	0		T	215793440	T	T	215793440	3	4	95	1	0	0	0	0	1	0	0	0	8126	565	20	4	1998	4	KCTD3	1	215793440	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	12943130	215793440	33457181	10	61273											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220335565	220335565	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccattaagtatgtagcagcaGaaaatcttttaactaagaac	17	11	6	7	0	1	2	0	0	1	2	1	2	1	2	1	0	4	4	1	0	8	6			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr1:220335565G>C	uc010puk.1	-	28	3364	c.3200C>G	c.(3199-3201)TCT>TGT	p.S1067C	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Missense_Mutation_p.S647C|RAB3GAP2_uc001hmh.2_Missense_Mutation_p.S11C	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	1067					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		TGTAGCAGCAGAAAATCTTTT	0.289													10	87					0	0	0.008291	0	0		C	220335565	C	C	220335565	3	2	95	1	0	0	0	0	1	0	0	0	12961	942	33	5	1013	5	RAB3GAP2	1	220335565	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	4542125	220335565	28915056	11	61274											
TRIM17	51127	broad.mit.edu	37	chr1	228598776	228598776	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcagtctcctcttcttcCgtctccagagcctggaggag	5	11	11	14	1	4	1	0	0	4	1	7	3	5	3	4	3	1	1	4	3	0	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr1:228598776C>T	uc001hsu.2	-	4	1012	c.627G>A	c.(625-627)ACG>ACA	p.T209T	TRIM17_uc001hsv.2_Silent_p.T209T|TRIM17_uc001hsw.2_Silent_p.T182T|TRIM17_uc009xfb.2_Silent_p.T209T	NM_016102	NP_057186	Q9Y577	TRI17_HUMAN	tripartite motif-containing 17 isoform 1	209	Potential.				protein autoubiquitination	intracellular	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Prostate(94;0.0724)				CCTCTTCTTCCGTCTCCAGAG	0.612													7	66					0	0	0.001984	0	0		T	228598776	T	T	228598776	2	4	95	1	0	0	0	0	0	0	0	1	16519	639	23	1		1	TRIM17	1	228598776	Silent	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	8263211	228598776	20651845	12	61275											
C2orf39	92749	broad.mit.edu	37	chr2	26676341	26676341	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagaagaggaggagaccccaCcctccccctgggtcatccac	11	4	10	16	0	1	3	1	0	0	3	3	5	3	4	6	3	0	0	6	3	2	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr2:26676341C>A	uc002rhg.2	+	14	1917	c.1843C>A	c.(1843-1845)CCC>ACC	p.P615T		NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	615											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ggagACCCCACCCTCCCCCTG	0.358													10	37					7.48243e-07	8.27937e-07	0.006214	1	0		A	26676341	A	A	26676341	3	1	95	1	0	0	0	0	1	0	0	0	2167	507	18	5	1897	5	C2orf39	2	26676341	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08		26676341	216523032	13	61276											
EIF2AK2	5610	broad.mit.edu	37	chr2	37364140	37364140	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcacctttttgccttcctTtgattatttctgagaccatt	7	19	4	11	0	2	2	1	2	1	1	3	3	3	2	4	0	1	0	4	0	1	7			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr2:37364140T>C	uc010ynh.1	-	9	1265	c.708A>G	c.(706-708)CAA>CAG	p.Q236Q	EIF2AK2_uc010fab.1_Silent_p.Q236Q|EIF2AK2_uc010yng.1_Silent_p.Q236Q|EIF2AK2_uc010fac.2_Silent_p.Q236Q|EIF2AK2_uc010fad.2_Silent_p.Q236Q	NM_002759	NP_002750	P19525	E2AK2_HUMAN	eukaryotic translation initiation factor 2-alpha	236					evasion by virus of host immune response|modulation by virus of host cellular process|negative regulation of osteoblast proliferation|protein autophosphorylation|response to virus|viral infectious cycle	cytosol	ATP binding|double-stranded RNA binding|eukaryotic translation initiation factor 2alpha kinase activity|protein binding|protein phosphatase type 2A regulator activity			ovary(2)|lung(2)|pancreas(1)	5		all_hematologic(82;0.248)				TTGCCTTCCTTTGATTATTTC	0.303													7	18					0	0	0.001984	0	0		C	37364140	C	C	37364140	2	2	95	1	0	0	0	0	0	0	0	1	5003	1838	64	3		3	EIF2AK2	2	37364140	Silent	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	10687799	37364140	205835233	14	61277											
NRXN1	9378	broad.mit.edu	37	chr2	50780157	50780158	+	Missense_Mutation	DNP	AT	TA	TA																															cctcacatcattatttttatAtacaacctgtgggcagagga																										TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr2:50780157_50780158AT>TA	uc010fbq.2	-	9	2923_2924	c.1446_1447AT>TA	c.(1444-1449)GTATAT>GTTAAT	p.Y483N	NRXN1_uc002rxb.3_Missense_Mutation_p.Y115N|NRXN1_uc002rxe.3_Missense_Mutation_p.Y443N|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TTATTTTTATATACAACCTGTG	0.381													36	78					0	0	0.004672	0	0		TA	50780158	TA	TA	50780157	3	4	95	1	0	0	0	0	1	0	0	0	10684	449	16	5	3519	5	NRXN1	2	50780157	Missense_Mutation	DNP	AT	TCGA-BR-A4IY-01A-11D-A25D-08	13416017	50780157	192419216	15	61278											
DCTN1	1639	broad.mit.edu	37	chr2	74596550	74596550	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgcctgccatgtccagctgCtcccgcagctccagttctgt	4	10	10	17	2	1	0	0	0	1	0	4	0	4	0	5	0	4	5	5	0	0	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr2:74596550C>A	uc002skx.2	-	14	1772	c.1461G>T	c.(1459-1461)GAG>GAT	p.E487D	DCTN1_uc002skv.2_Missense_Mutation_p.E353D|DCTN1_uc002sku.2_Missense_Mutation_p.E353D|DCTN1_uc002skw.1_Missense_Mutation_p.E463D|DCTN1_uc010ffd.2_Missense_Mutation_p.E467D|DCTN1_uc002sky.2_Missense_Mutation_p.E450D	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	487	Potential.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						TGTCCAGCTGCTCCCGCAGCT	0.572													25	94					9.90768e-06	1.08347e-05	0.004656	1	0		A	74596550	A	A	74596550	3	1	95	1	0	0	0	0	1	0	0	0	4309	796	28	5	2451	5	DCTN1	2	74596550	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	23816393	74596550	168602823	16	61279											
HOXD4	3233	broad.mit.edu	37	chr2	177016412	177016412	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagtatgtggaccccaagttCcctccgtgcgaggagtattt	9	11	11	10	2	0	0	0	0	0	0	2	3	2	2	4	2	1	3	4	2	4	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr2:177016412C>A	uc002uks.2	+	1	300	c.51C>A	c.(49-51)TTC>TTA	p.F17L		NM_014621	NP_055436	P09016	HXD4_HUMAN	homeobox D4	17						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00765)|Epithelial(96;0.105)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		ACCCCAAGTTCCCTCCGTGCG	0.542													10	72					4.93089e-13	5.79922e-13	0.00245	1	0		A	177016412	A	A	177016412	3	1	95	1	0	0	0	0	1	0	0	0	7340	854	30	5	53	5	HOXD4	2	177016412	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	102419862	177016412	66182961	17	61280											
TTN	7273	broad.mit.edu	37	chr2	179444392	179444392	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttcccttcagtcaaatctTttgcagagtactgtaggctt	8	15	7	11	0	3	1	2	0	1	1	4	1	4	1	2	1	2	4	2	1	3	7			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr2:179444392T>C	uc010zfg.1	-	268	60052	c.59828A>G	c.(59827-59829)AAA>AGA	p.K19943R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K13638R|TTN_uc010zfi.1_Missense_Mutation_p.K13571R|TTN_uc010zfj.1_Missense_Mutation_p.K13446R|uc002umv.1_3'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20870							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGTCAAATCTTTTGCAGAGTA	0.413													16	62					0	0	0.003163	0	0		C	179444392	C	C	179444392	3	2	95	1	0	0	0	0	1	0	0	0	16761	1841	64	3	40623	3	TTN	2	179444392	Missense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	2427980	179444392	63754981	18	61281											
DNAH7	56171	broad.mit.edu	37	chr2	196749505	196749505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgtacaagaagcaccaacgGaccagatcaatgaaaacaga	19	4	8	10	1	1	4	1	1	0	3	1	5	1	5	2	1	4	2	2	1	7	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr2:196749505G>A	uc002utj.3	-	35	5668	c.5567C>T	c.(5566-5568)TCC>TTC	p.S1856F		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1856					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AGCACCAACGGACCAGATCAA	0.338													8	32					0	0	0.004482	0	0		A	196749505	A	A	196749505	3	1	95	1	0	0	0	0	1	0	0	0	4612	1174	41	4	6631	4	DNAH7	2	196749505	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	17305113	196749505	46449868	19	61282											
EPHA4	2043	broad.mit.edu	37	chr2	222428528	222428528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaccagccattcaccatctGccccacagtacatttttggc	9	11	6	15	0	2	0	1	0	1	0	2	0	2	0	5	1	4	2	5	1	2	5			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr2:222428528G>A	uc002vmq.2	-	3	788	c.746C>T	c.(745-747)GCA>GTA	p.A249V	EPHA4_uc002vmr.2_Missense_Mutation_p.A249V|EPHA4_uc010zlm.1_Missense_Mutation_p.A190V|EPHA4_uc010zln.1_Missense_Mutation_p.A249V	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	249	Cys-rich.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		TTCACCATCTGCCCCACAGTA	0.527													27	100					0	0	0.00632	0	0		A	222428528	A	A	222428528	3	1	95	1	0	0	0	0	1	0	0	0	5177	1319	46	2	2274	2	EPHA4	2	222428528	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	25679023	222428528	20770845	20	61283											
RPUSD3	285367	broad.mit.edu	37	chr3	9882475	9882475	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagctggagaggagtacaAgcccagagctttctctggaa	12	7	13	9	0	1	2	0	0	1	2	2	6	1	4	1	3	4	3	1	3	3	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr3:9882475A>T	uc011atk.1	-	5	426	c.422T>A	c.(421-423)CTT>CAT	p.L141H	ARPC4_uc003btc.1_Intron|RPUSD3_uc011atl.1_Missense_Mutation_p.L126H|RPUSD3_uc011atm.1_Missense_Mutation_p.L133H|RPUSD3_uc003btn.2_3'UTR	NM_173659	NP_775930	Q6P087	RUSD3_HUMAN	RNA pseudouridylate synthase domain containing 3	141					pseudouridine synthesis		pseudouridine synthase activity|RNA binding			central_nervous_system(1)	1	Medulloblastoma(99;0.227)					GAGGAGTACAAGCCCAGAGCT	0.517													9	18					0	0	0.004482	0	0		T	9882475	T	T	9882475	3	4	95	1	0	0	0	0	1	0	0	0	13693	72	3	5	653	5	RPUSD3	3	9882475	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08		9882475	188139955	21	61284											
FYCO1	79443	broad.mit.edu	37	chr3	46009092	46009092	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcctcttgcagactggaGttcacagggaccagggcctc	8	7	13	13	0	2	1	1	0	1	1	3	3	2	3	3	4	1	2	3	4	0	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr3:46009092G>C	uc003cpb.3	-	8	1940	c.1734C>G	c.(1732-1734)AAC>AAG	p.N578K	FYCO1_uc011bal.1_Missense_Mutation_p.N578K	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	578					transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GCAGACTGGAGTTCACAGGGA	0.637													24	81					0	0	0.003954	0	0		C	46009092	C	C	46009092	3	2	95	1	0	0	0	0	1	0	0	0	6139	1020	36	5	2746	5	FYCO1	3	46009092	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	36126617	46009092	152013338	22	61285											
RNF123	63891	broad.mit.edu	37	chr3	49742159	49742159	+	Frame_Shift_Del	DEL	G	-	-																															gccatggatgacctagatgaGgatgaggagccagccccagc																										TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr3:49742159delG	uc003cxh.2	+	22	2015	c.1929delG	c.(1927-1929)GAGfs	p.E643fs	RNF123_uc010hky.1_Frame_Shift_Del_p.E305fs|RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	643						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		ACCTAGATGAGGATGAGGAGC	0.577													2	4	---	---	---	---						.	-	49742159	-	-	49742159	7	5	95	1	0	1	0	1	0	0	0	0	13458	991	35	0	2011	0	RNF123	3	49742159	Frame_Shift_Del	DEL	G	TCGA-BR-A4IY-01A-11D-A25D-08	3733067	49742159	148280271	23	61286											
MON1A	84315	broad.mit.edu	37	chr3	49949401	49949401	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgactcagtcaggtcctcGtaggaacgggcatggacgaa	10	8	13	10	3	3	1	2	1	1	0	5	4	4	3	1	4	1	2	1	4	3	1	rs149740587		TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr3:49949401G>A	uc003cxz.2	-	3	588	c.462C>T	c.(460-462)TAC>TAT	p.Y154Y	MON1A_uc003cya.2_Intron|MON1A_uc003cyb.2_Intron	NM_032355	NP_115731	Q86VX9	MON1A_HUMAN	MON1 homolog A isoform a	57							protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		TCAGGTCCTCGTAGGAACGGG	0.622													16	34					0	0	0.006122	0	0		A	49949401	A	A	49949401	2	1	95	1	0	0	0	0	0	0	0	1	9716	1140	40	1		1	MON1A	3	49949401	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	207242	49949401	148073029	24	61287											
DOCK3	1795	broad.mit.edu	37	chr3	51308381	51308381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattgggcagtcaatggacGtggtcaagctgcagtccatt	10	10	12	9	1	2	0	2	0	0	0	3	1	3	1	1	3	2	3	1	3	2	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr3:51308381G>A	uc011bds.1	+	24	2514	c.2491G>A	c.(2491-2493)GTG>ATG	p.V831M		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	831						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		GTCAATGGACGTGGTCAAGCT	0.537													11	69					0	0	0.010729	0	0		A	51308381	A	A	51308381	3	1	95	1	0	0	0	0	1	0	0	0	4694	1145	40	1	2585	1	DOCK3	3	51308381	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	1358980	51308381	146714049	25	61288											
ATP2C1	27032	broad.mit.edu	37	chr3	130656284	130656284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtttaggcaatacttatcGttgttacagttgcctttgtt	7	20	8	6	1	0	0	0	0	0	0	1	0	0	0	1	1	3	6	1	1	5	10	rs142366167		TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr3:130656284G>A	uc003enl.2	+	6	559	c.337G>A	c.(337-339)GTT>ATT	p.V113I	ATP2C1_uc011blg.1_Missense_Mutation_p.V147I|ATP2C1_uc011blh.1_Missense_Mutation_p.V108I|ATP2C1_uc011bli.1_Missense_Mutation_p.V147I|ATP2C1_uc003enk.2_Missense_Mutation_p.V97I|ATP2C1_uc003enm.2_Missense_Mutation_p.V113I|ATP2C1_uc003enn.2_Missense_Mutation_p.V97I|ATP2C1_uc003eno.2_Missense_Mutation_p.V113I|ATP2C1_uc003enp.2_Missense_Mutation_p.V113I|ATP2C1_uc003enq.2_Missense_Mutation_p.V113I|ATP2C1_uc003enr.2_Missense_Mutation_p.V113I|ATP2C1_uc003ens.2_Missense_Mutation_p.V113I|ATP2C1_uc003ent.2_Missense_Mutation_p.V113I	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	113	Helical; Name=2; (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	AATACTTATCGTTGTTACAGT	0.328									Hailey-Hailey_disease				7	35					0	0	0.00308	0	0		A	130656284	A	A	130656284	3	1	95	1	0	0	0	0	1	0	0	0	1144	1145	40	1	355	1	ATP2C1	3	130656284	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	79347903	130656284	67366146	26	61289											
PRR23C	389152	broad.mit.edu	37	chr3	138762979	138762979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catccagagctccgggaactCagagtccgcgtcctcctcgt	7	8	10	16	4	1	2	1	0	0	2	7	3	6	3	5	1	2	1	5	1	1	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr3:138762979C>T	uc011bmt.1	-	1	756	c.484G>A	c.(484-486)GAG>AAG	p.E162K		NM_001134657	NP_001128129	Q6ZRP0	PR23C_HUMAN	proline rich 23C	162										skin(1)	1						TCCGGGAACTCAGAGTCCGCG	0.662													3	19					0	0	0.004672	0	0		T	138762979	T	T	138762979	3	4	95	1	0	0	0	0	1	0	0	0	12618	835	29	4	308	4	PRR23C	3	138762979	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	8106695	138762979	59259451	27	61290											
ATR	545	broad.mit.edu	37	chr3	142297490	142297490	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgggcctagccctacctGcccagctcccgcagggcggg	4	5	15	17	2	0	0	0	0	0	0	1	0	1	0	5	4	4	3	5	4	2	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr3:142297490G>A	uc003eux.3	-	1	179	c.57C>T	c.(55-57)GGC>GGT	p.G19G		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	19					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						AGCCCTACCTGCCCAGCTCCC	0.662								Other_conserved_DNA_damage_response_genes					6	22					0	0	0.001168	0	0		A	142297490	A	A	142297490	2	1	95	1	0	0	0	0	0	0	0	1	1205	1306	46	2		2	ATR	3	142297490	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	3534511	142297490	55724940	28	61291											
ACTL6A	86	broad.mit.edu	37	chr3	179298958	179298958	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacacaatgttaggagtcAgtcatgttgtcaccacaagt	14	10	9	8	0	3	0	3	0	0	0	3	2	3	1	1	1	1	2	1	1	4	2	rs34740204	byFrequency	TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr3:179298958A>C	uc003fjw.2	+	11	1149	c.976A>C	c.(976-978)AGT>CGT	p.S326R	ACTL6A_uc003fjx.2_Missense_Mutation_p.S284R|ACTL6A_uc003fjy.2_Missense_Mutation_p.S284R	NM_004301	NP_004292	O96019	ACL6A_HUMAN	actin-like 6A isoform 1	326					chromatin remodeling|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|nervous system development|regulation of growth|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	Ino80 complex|npBAF complex|NuA4 histone acetyltransferase complex|plasma membrane|SWI/SNF complex	ATP binding|chromatin binding			ovary(1)	1	all_cancers(143;3.94e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)			GTTAGGAGTCAGTCATGTTGT	0.398													26	131					0	0	0.005443	0	0		C	179298958	C	C	179298958	3	2	95	1	0	0	0	0	1	0	0	0	198	188	7	5	1018	5	ACTL6A	3	179298958	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	37001468	179298958	18723472	29	61292											
CLDN16	10686	broad.mit.edu	37	chr3	190105886	190105886	+	Translation_Start_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcactgacctgccttctgaTtggaggctggttgcttcgga	5	13	13	10	1	1	2	0	2	1	0	2	4	1	4	2	4	3	4	2	4	0	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr3:190105886T>A	uc003fsi.2	+	1	46	c.-22T>A	c.(-24--20)GATTG>GAATG		CLDN16_uc010hze.2_Translation_Start_Site	NM_006580	NP_006571	Q9Y5I7	CLD16_HUMAN	claudin 16						calcium-independent cell-cell adhesion|cellular metal ion homeostasis|excretion	integral to membrane|tight junction	identical protein binding|magnesium ion transmembrane transporter activity|structural molecule activity			ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.018)		TGCCTTCTGATTGGAGGCTGG	0.532													7	15					0	0	0.00308	0	0		A	190105886	A	A	190105886	1	1	95	1	0	0	0	0	0	0	0	0	3480	1508	52	5		5	CLDN16	3	190105886	Translation_Start_Site	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	10806928	190105886	7916544	30	61293											
FAM193A	8603	broad.mit.edu	37	chr4	2641518	2641518	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactgcataataaacacctGtttgaaaatctggtcttttc	13	14	6	8	0	2	1	0	1	2	0	3	2	2	1	1	1	3	2	1	1	6	5			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr4:2641518G>C	uc010icl.2	+	4	573	c.222G>C	c.(220-222)CTG>CTC	p.L74L	FAM193A_uc010ick.2_Silent_p.L274L|FAM193A_uc003gfd.2_Silent_p.L74L|FAM193A_uc011bvm.1_Silent_p.L74L|FAM193A_uc011bvn.1_Silent_p.L74L|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	74										ovary(3)	3						ATAAACACCTGTTTGAAAATC	0.398													14	39					0	0	0.00245	0	0		C	2641518	C	C	2641518	2	2	95	1	0	0	0	0	0	0	0	1	5535	1364	48	5		5	FAM193A	4	2641518	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08		2641518	188512758	31	61294											
PDS5A	23244	broad.mit.edu	37	chr4	39978195	39978195	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggctgcgcggtgaagtcCatcctgggggacaacttttg	6	11	15	9	2	0	1	0	1	0	0	2	2	2	2	2	4	2	1	2	4	2	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr4:39978195C>A	uc003guv.3	-	2	543	c.3G>T	c.(1-3)ATG>ATT	p.M1I	PDS5A_uc010ifo.2_Intron|PDS5A_uc003guw.3_Missense_Mutation_p.M1I	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						CGGTGAAGTCCATCCTGGGGG	0.562											OREG0016159	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	33					0.00400662	0.00423299	0.004007	1	0		A	39978195	A	A	39978195	3	1	95	1	0	0	0	0	1	0	0	0	11710	594	21	5	4171	5	PDS5A	4	39978195	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	37336677	39978195	151176081	32	61295											
UGT2B11	10720	broad.mit.edu	37	chr4	70066333	70066333	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caactcgaaggtgtttggctCctttgtggggcatgacaaat	9	12	12	8	1	0	1	0	1	0	0	2	2	1	1	1	4	1	3	1	4	3	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr4:70066333C>A	uc003heh.2	-	6	1424	c.1415G>T	c.(1414-1416)GGA>GTA	p.G472V	uc003hei.1_Intron	NM_001073	NP_001064	O75310	UDB11_HUMAN	UDP glucuronosyltransferase 2 family,	472					estrogen metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3						GTGTTTGGCTCCTTTGTGGGG	0.453													20	111					3.51602e-12	4.10934e-12	0.008871	1	0		A	70066333	A	A	70066333	3	1	95	1	0	0	0	0	1	0	0	0	16983	855	30	5	178	5	UGT2B11	4	70066333	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	30088138	70066333	121087943	33	61296											
ADH6	130	broad.mit.edu	37	chr4	100134789	100134789	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tcactgtgcttactccttctCcaatactctcaacgattcca	9	14	3	15	1	3	0	2	0	2	0	7	1	5	0	3	0	4	1	3	0	4	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr4:100134789C>G	uc003hup.3	-	3	330	c.236G>C	c.(235-237)GGA>GCA	p.G79A	uc003hum.1_Intron|ADH6_uc003huo.2_Missense_Mutation_p.G79A|ADH6_uc011cef.1_Intron|ADH6_uc010ile.2_Missense_Mutation_p.G79A	NM_000672	NP_000663	P28332	ADH6_HUMAN	class V alcohol dehydrogenase isoform 2	79					ethanol oxidation|response to ethanol|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|electron carrier activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(123;3.58e-08)	Abacavir(DB01048)|NADH(DB00157)	TACTCCTTCTCCAATACTCTC	0.463													12	46					0	0	0.003163	0	0		G	100134789	G	G	100134789	3	3	95	1	0	0	0	0	1	0	0	0	312	855	30	5	923	5	ADH6	4	100134789	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	30068456	100134789	91019487	34	61297											
KIAA1109	84162	broad.mit.edu	37	chr4	123147962	123147963	+	Missense_Mutation	DNP	GA	TT	TT																															agttataatatgtcagcatgGaattgatcgtcggttctgtg																										TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr4:123147962_123147963GA>TT	uc003ieh.2	+	22	2939_2940	c.2894_2895GA>TT	c.(2893-2895)GGA>GTT	p.G965V	KIAA1109_uc003iei.1_Missense_Mutation_p.G718V|KIAA1109_uc010ins.1_Missense_Mutation_p.G308V|KIAA1109_uc003iej.1_3'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	965					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TGTCAGCATGGAATTGATCGTC	0.351													12	56					0	0	0.004672	0	0		TT	123147963	TT	TT	123147962	3	4	95	1	0	0	0	0	1	0	0	0	8224	1174	41	5	2980	5	KIAA1109	4	123147962	Missense_Mutation	DNP	GA	TCGA-BR-A4IY-01A-11D-A25D-08	23013173	123147962	68006314	35	61298											
POU4F2	5458	broad.mit.edu	37	chr4	147561058	147561058	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgagagtctgctggccCgcgccgaggctctggcagcc	5	7	16	13	3	2	1	0	1	2	1	2	4	2	2	3	4	2	3	3	4	0	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr4:147561058C>G	uc003ikv.2	+	2	576	c.328C>G	c.(328-330)CGC>GGC	p.R110G		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	110	POU-IV box.				estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					TCTGCTGGCCCGCGCCGAGGC	0.597													6	59					0	0	0.004482	0	0		G	147561058	G	G	147561058	3	3	95	1	0	0	0	0	1	0	0	0	12298	652	23	5	334	5	POU4F2	4	147561058	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	24413096	147561058	43593218	36	61299											
TIGD4	201798	broad.mit.edu	37	chr4	153691798	153691798	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaatcattatggcccagtTtctgggcaaaatcattagct	13	13	7	8	0	3	0	2	0	1	0	3	0	3	0	1	2	1	3	1	2	6	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr4:153691798T>C	uc003imy.2	-	2	1141	c.359A>G	c.(358-360)AAA>AGA	p.K120R		NM_145720	NP_663772	Q8IY51	TIGD4_HUMAN	tigger transposable element derived 4	120	HTH CENPB-type.|H-T-H motif (By similarity).				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|DNA binding			ovary(1)	1	all_hematologic(180;0.093)					ATGGCCCAGTTTCTGGGCAAA	0.403													11	87					0	0	0.010729	0	0		C	153691798	C	C	153691798	3	2	95	1	0	0	0	0	1	0	0	0	15923	1841	64	3	1183	3	TIGD4	4	153691798	Missense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	6130740	153691798	37462478	37	61300											
LRP2BP	55805	broad.mit.edu	37	chr4	186299314	186299314	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggcataaaaggggttcttGggcaacttttcactggtcaa	11	11	12	7	0	3	0	2	0	1	0	3	1	3	0	0	5	1	3	0	5	4	5			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr4:186299314G>C	uc003ixj.1	-	1	839	c.27C>G	c.(25-27)CCC>CCG	p.P9P	LRP2BP_uc003ixk.1_5'UTR|LRP2BP_uc011ckr.1_Silent_p.P9P	NM_018409	NP_060879	Q9P2M1	LR2BP_HUMAN	LRP2 binding protein	9						cytoplasm	protein binding				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;2.14e-25)|Epithelial(43;1.55e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-11)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000766)|Colorectal(24;0.00116)|LUSC - Lung squamous cell carcinoma(40;0.00904)|COAD - Colon adenocarcinoma(29;0.0101)|READ - Rectum adenocarcinoma(43;0.161)		AGGGGTTCTTGGGCAACTTTT	0.363													14	88					0	0	0.00499	0	0		C	186299314	C	C	186299314	2	2	95	1	0	0	0	0	0	0	0	1	8975	1335	47	5		5	LRP2BP	4	186299314	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	32607516	186299314	4854962	38	61301											
SLC6A18	348932	broad.mit.edu	37	chr5	1239618	1239618	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacgcagccacccagatattCttctctctgtccctggcctt	6	12	7	16	1	3	1	0	0	3	1	5	2	4	1	4	1	1	1	4	1	1	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr5:1239618C>T	uc003jby.1	+	6	909	c.786C>T	c.(784-786)TTC>TTT	p.F262F		NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18	262	Helical; Name=6; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			CCCAGATATTCTTCTCTCTGT	0.577													24	108					0	0	0.008361	0	0		T	1239618	T	T	1239618	2	4	95	1	0	0	0	0	0	0	0	1	14706	912	32	4		4	SLC6A18	5	1239618	Silent	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08		1239618	179675642	39	61302											
DNAH5	1767	broad.mit.edu	37	chr5	13944508	13944508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgttaaaactcgagtgaCgctatgcttccagagctgtc	10	11	9	11	3	0	2	0	1	0	1	3	3	1	2	2	0	4	4	2	0	4	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr5:13944508C>T	uc003jfd.2	-	1	82	c.40G>A	c.(40-42)GTC>ATC	p.V14I		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	14	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					ACTCGAGTGACGCTATGCTTC	0.468									Kartagener_syndrome				7	42					0	0	0.00308	0	0		T	13944508	T	T	13944508	3	4	95	1	0	0	0	0	1	0	0	0	4610	536	19	1	14150	1	DNAH5	5	13944508	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	12704890	13944508	166970752	40	61303											
ITGA1	3672	broad.mit.edu	37	chr5	52204856	52204856	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcaaggaaaagtgtatgtGtatgctctcaatcaggtaat	14	11	11	5	0	2	0	2	0	1	0	3	2	2	1	0	2	2	5	0	2	7	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr5:52204856G>A	uc003jou.2	+	13	1636	c.1584G>A	c.(1582-1584)GTG>GTA	p.V528V	ITGA1_uc003jov.2_RNA|ITGA1_uc003jow.2_Silent_p.V59V	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	528	Extracellular (Potential).|FG-GAP 5.				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				AAGTGTATGTGTATGCTCTCA	0.378													13	59					0	0	0.001855	0	0		A	52204856	A	A	52204856	2	1	95	1	0	0	0	0	0	0	0	1	7888	1364	48	4		4	ITGA1	5	52204856	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	38260348	52204856	128710404	41	61304											
VCAN	1462	broad.mit.edu	37	chr5	82816417	82816417	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagccaacagaagtaagAgatatggaggaagactttac	17	6	12	6	0	0	4	0	0	0	4	0	7	0	6	1	2	3	2	1	2	6	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr5:82816417A>G	uc003kii.3	+	7	2648	c.2292A>G	c.(2290-2292)AGA>AGG	p.R764R	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Silent_p.R764R|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	764	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CAGAAGTAAGAGATATGGAGG	0.383													9	51					0	0	0.004482	0	0		G	82816417	G	G	82816417	2	3	95	1	0	0	0	0	0	0	0	1	17164	301	11	3		3	VCAN	5	82816417	Silent	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	30611561	82816417	98098843	42	61305											
PCDHB11	56125	broad.mit.edu	37	chr5	140580936	140580936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaggctttcgacttccGcgtgggcgccacagaccgcg	5	7	13	16	6	0	1	0	0	0	1	2	2	1	1	4	2	1	2	4	2	0	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr5:140580936G>A	uc003liy.2	+	1	1589	c.1589G>A	c.(1588-1590)CGC>CAC	p.R530H	PCDHB11_uc011daj.1_Missense_Mutation_p.R165H	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	530	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCGACTTCCGCGTGGGCGCC	0.672													31	120					0	0	0.010818	0	0		A	140580936	A	A	140580936	3	1	95	1	0	0	0	0	1	0	0	0	11555	1087	38	1	1591	1	PCDHB11	5	140580936	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	57764519	140580936	40334324	43	61306											
ATP10B	23120	broad.mit.edu	37	chr5	160033937	160033937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcattcaatgtcttcccatCgatgaccaatccagcttctg	9	12	7	13	1	3	1	1	1	2	0	6	2	5	1	3	1	1	2	3	1	2	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr5:160033937C>T	uc003lym.1	-	19	3842	c.2995G>A	c.(2995-2997)GAT>AAT	p.D999N	ATP10B_uc010jit.1_Missense_Mutation_p.D316N	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	999	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GTCTTCCCATCGATGACCAAT	0.517													30	95					0	0	0.012213	0	0		T	160033937	T	T	160033937	3	4	95	1	0	0	0	0	1	0	0	0	1118	884	31	1	1422	1	ATP10B	5	160033937	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	19453001	160033937	20881323	44	61307											
DTNBP1	84062	broad.mit.edu	37	chr6	15524837	15524837	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctggtccgatatgtccAtcaggtccatctgctccagc	6	11	8	16	1	2	0	1	0	1	0	7	1	7	0	6	2	2	1	6	2	1	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr6:15524837A>C	uc003nbm.2	-	9	902	c.731T>G	c.(730-732)ATG>AGG	p.M244R	DTNBP1_uc003nbl.2_Missense_Mutation_p.M163R|DTNBP1_uc003nbn.2_RNA|DTNBP1_uc003nbo.2_RNA|DTNBP1_uc003nbp.2_Missense_Mutation_p.M244R|DTNBP1_uc010jph.2_Missense_Mutation_p.M231R	NM_032122	NP_115498	Q96EV8	DTBP1_HUMAN	dystrobrevin binding protein 1 isoform a	244	Dysbindin.				actin cytoskeleton reorganization|cellular membrane organization|neuron projection morphogenesis|post-Golgi vesicle-mediated transport|regulation of dopamine receptor signaling pathway	axon part|BLOC-1 complex|cell junction|dendritic spine|endoplasmic reticulum membrane|endosome membrane|growth cone|melanosome membrane|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|synaptic vesicle membrane|synaptosome	identical protein binding				0	Breast(50;0.0289)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.211)			CGATATGTCCATCAGGTCCAT	0.542									Hermansky-Pudlak_syndrome				7	39					0	0	0.00308	0	0		C	15524837	C	C	15524837	3	2	95	1	0	0	0	0	1	0	0	0	4796	217	8	5	433	5	DTNBP1	6	15524837	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08		15524837	155590230	45	61308											
HIST1H2BC	8347	broad.mit.edu	37	chr6	26124041	26124041	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactctccttgcggctgcgcTtgcgcttcttgccatctttc	3	15	8	15	3	3	0	0	0	3	0	5	0	3	0	2	1	5	3	2	1	1	5			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr6:26124041T>G	uc003ngk.3	-	1	114	c.92A>C	c.(91-93)AAG>ACG	p.K31T	HIST1H2BC_uc003ngl.2_Missense_Mutation_p.K31T|HIST1H2AC_uc003ngm.2_5'Flank|HIST1H2AC_uc003ngn.2_5'Flank|HIST1H2AC_uc003ngo.2_5'Flank|HIST1H2AC_uc003ngp.2_5'Flank	NM_003526	NP_003517	P62807	H2B1C_HUMAN	histone cluster 1, H2bc	31					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			ovary(1)	1						GCGGCTGCGCTTGCGCTTCTT	0.542													30	139					0	0	0.00632	0	0		G	26124041	G	G	26124041	3	3	95	1	0	0	0	0	1	0	0	0	7158	1609	56	5	292	5	HIST1H2BC	6	26124041	Missense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	10599204	26124041	144991026	46	61309											
GPX6	257202	broad.mit.edu	37	chr6	28478608	28478608	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaaactgcttgaattggAtgtactcctcgccgttgagg	8	12	11	10	2	0	2	0	2	0	0	2	3	1	3	2	2	4	4	2	2	3	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr6:28478608A>G	uc011dlj.1	-	2	211	c.161T>C	c.(160-162)ATC>ACC	p.I54T	GPX6_uc010jrg.1_RNA	NM_182701	NP_874360	P59796	GPX6_HUMAN	glutathione peroxidase 6 precursor	54					response to oxidative stress	extracellular region	glutathione peroxidase activity			ovary(3)|pancreas(1)|skin(1)	5					Glutathione(DB00143)	CTTGAATTGGATGTACTCCTC	0.478													15	63					0	0	0.003163	0	0		G	28478608	G	G	28478608	3	3	95	1	0	0	0	0	1	0	0	0	6760	333	12	3	520	3	GPX6	6	28478608	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	2354567	28478608	142636459	47	61310											
PSMB8	5696	broad.mit.edu	37	chr6	32809961	32809961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catagagaggcccatgccccGgtactggcacatcatgttgg	9	8	12	12	1	1	1	1	0	0	1	1	2	1	1	3	4	2	3	3	4	2	3	rs55835906		TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr6:32809961G>A	uc003oce.2	-	4	530	c.487C>T	c.(487-489)CGG>TGG	p.R163W	PSMB8_uc003ocf.2_Missense_Mutation_p.R159W|PSMB8_uc011dqh.1_3'UTR	NM_148919	NP_683720	P28062	PSB8_HUMAN	proteasome beta 8 subunit isoform E2 proprotein	163					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|type I interferon-mediated signaling pathway|viral reproduction	cytoplasm|nucleus|proteasome core complex	protein binding|threonine-type endopeptidase activity			skin(1)	1						CCCATGCCCCGGTACTGGCAC	0.537													5	74					0	0	0.00308	0	0		A	32809961	A	A	32809961	3	1	95	1	0	0	0	0	1	0	0	0	12705	1115	39	1	355	1	PSMB8	6	32809961	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	4331353	32809961	138305106	48	61311											
PACSIN1	29993	broad.mit.edu	37	chr6	34498360	34498360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcccaggctggggaccgcGgcaggtgagtgcctcctgtg	5	7	16	13	2	0	1	0	1	0	0	2	2	2	2	4	5	1	2	4	5	0	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr6:34498360G>A	uc003ojo.2	+	8	1239	c.1033G>A	c.(1033-1035)GGC>AGC	p.G345S	PACSIN1_uc003ojp.2_Missense_Mutation_p.G345S	NM_020804	NP_065855	Q9BY11	PACN1_HUMAN	protein kinase C and casein kinase substrate in	345					endocytosis		protein kinase activity				0						TGGGGACCGCGGCAGGTGAGT	0.587													5	19					0	0	0.001168	0	0		A	34498360	A	A	34498360	3	1	95	1	0	0	0	0	1	0	0	0	11393	1116	39	1	1059	1	PACSIN1	6	34498360	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	1688399	34498360	136616707	49	61312											
AARS2	57505	broad.mit.edu	37	chr6	44274230	44274230	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctcccactggaatccagtaCctgggctgagttcctttgca	7	12	9	13	0	1	1	0	1	1	0	4	2	3	2	4	2	2	4	4	2	2	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr6:44274230C>G	uc010jza.1	-	8	1191	c.1188_splice	c.e8+1	p.Q396_splice	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial						alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	GAATCCAGTACCTGGGCTGAG	0.577													47	247					0	0	0.01441	0	0		G	44274230	G	G	44274230	5	3	95	1	0	0	0	0	0	0	1	0	20	521	18	5	1828	5	AARS2	6	44274230	Splice_Site	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	9775870	44274230	126840837	50	61313											
CD109	135228	broad.mit.edu	37	chr6	74407197	74407197	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattggggtggagcttctggAacactgcccttcacaggtga	8	11	13	9	0	2	1	1	1	1	0	2	3	2	3	1	5	3	1	1	5	2	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr6:74407197A>G	uc003php.2	+	2	574	c.149A>G	c.(148-150)GAA>GGA	p.E50G	CD109_uc010kaz.2_Missense_Mutation_p.E50G|CD109_uc003phq.2_Missense_Mutation_p.E50G|CD109_uc010kba.2_Missense_Mutation_p.E50G|uc003pho.1_5'Flank	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	50						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						GAGCTTCTGGAACACTGCCCT	0.522													20	88					0	0	0.010504	0	0		G	74407197	G	G	74407197	3	3	95	1	0	0	0	0	1	0	0	0	2966	246	9	3	155	3	CD109	6	74407197	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	30132967	74407197	96707870	51	61314											
NOX3	50508	broad.mit.edu	37	chr6	155761124	155761124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggctgagaaagaagaCgatgaaaacatggtgtgtgt	14	7	15	5	1	0	4	0	2	0	3	0	6	0	4	1	3	1	1	1	3	4	0	rs143056669	byFrequency	TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr6:155761124C>T	uc003qqm.2	-	6	737	c.634G>A	c.(634-636)GTC>ATC	p.V212I		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	212	Ferric oxidoreductase.|Helical; (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		AGAAAGAAGACGATGAAAACA	0.468													6	43					0	0	0.001168	0	0		T	155761124	T	T	155761124	3	4	95	1	0	0	0	0	1	0	0	0	10576	536	19	1	1104	1	NOX3	6	155761124	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	81353927	155761124	15353943	52	61315											
C6orf118	168090	broad.mit.edu	37	chr6	165715558	165715558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcgctcccccttgggccGgtgggcattgggccagtgct	2	8	17	14	3	0	0	0	0	0	0	1	0	1	0	4	5	1	3	4	5	0	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr6:165715558G>A	uc003qum.3	-	2	289	c.253C>T	c.(253-255)CGG>TGG	p.R85W	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	85											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		CCCTTGGGCCGGTGGGCATTG	0.652													20	54					0	0	0.007413	0	0		A	165715558	A	A	165715558	3	1	95	1	0	0	0	0	1	0	0	0	2326	1115	39	1	1188	1	C6orf118	6	165715558	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	9954434	165715558	5399509	53	61316											
C1GALT1	56913	broad.mit.edu	37	chr7	7283186	7283186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgctctgatcttgcagtttCttttcactatgttgattcta	6	20	6	9	0	5	2	1	2	4	0	5	2	5	2	0	0	2	4	0	0	2	8			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr7:7283186C>T	uc010ktn.2	+	4	1143	c.920C>T	c.(919-921)TCT>TTT	p.S307F	C1GALT1_uc003sra.2_Missense_Mutation_p.S307F|uc003srb.1_5'Flank	NM_020156	NP_064541	Q9NS00	C1GLT_HUMAN	core 1 synthase,	307	Lumenal (Potential).				angiogenesis|cell differentiation|kidney development	integral to membrane	glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase activity|metal ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.177)		CTTGCAGTTTCTTTTCACTAT	0.348													62	115					0	0	0.01441	0	0		T	7283186	T	T	7283186	3	4	95	1	0	0	0	0	1	0	0	0	1955	913	32	4	930	4	C1GALT1	7	7283186	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08		7283186	151855477	54	61317											
DNAH11	8701	broad.mit.edu	37	chr7	21630895	21630895	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctctgattgaagatgagctGagggctattgacgagcagct	10	10	13	8	1	1	6	0	5	1	1	1	7	1	6	1	1	3	4	1	1	2	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr7:21630895G>A	uc003svc.2	+	14	2398	c.2367G>A	c.(2365-2367)CTG>CTA	p.L789L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	789	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AAGATGAGCTGAGGGCTATTG	0.512									Kartagener_syndrome				16	34					0	0	0.003163	0	0		A	21630895	A	A	21630895	2	1	95	1	0	0	0	0	0	0	0	1	4605	1277	45	4		4	DNAH11	7	21630895	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	14347709	21630895	137507768	55	61318											
MUC17	140453	broad.mit.edu	37	chr7	100675458	100675458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccatttctgctcaagccaGttcatctcctacaactgctg	9	12	6	14	0	4	0	2	0	2	0	5	1	4	0	3	0	5	3	3	0	3	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr7:100675458G>A	uc003uxp.1	+	3	814	c.761G>A	c.(760-762)AGT>AAT	p.S254N	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	254	Extracellular (Potential).|59 X approximate tandem repeats.|2.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GCTCAAGCCAGTTCATCTCCT	0.512													38	187					0	0	0.00623	0	0		A	100675458	A	A	100675458	3	1	95	1	0	0	0	0	1	0	0	0	9992	1029	36	4	771	4	MUC17	7	100675458	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	79044563	100675458	58463205	56	61319											
CTTNBP2	83992	broad.mit.edu	37	chr7	117400721	117400721	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagaaccatagttgcttggTtcaatctcacccactgaaat	12	12	6	11	0	3	2	3	1	1	1	4	2	3	2	2	1	2	3	2	1	4	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr7:117400721T>C	uc003vjf.2	-	10	3032	c.2940A>G	c.(2938-2940)GAA>GAG	p.E980E		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	980										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		AGTTGCTTGGTTCAATCTCAC	0.338													19	88					0	0	0.007413	0	0		C	117400721	C	C	117400721	2	2	95	1	0	0	0	0	0	0	0	1	4048	1722	60	3		3	CTTNBP2	7	117400721	Silent	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	16725263	117400721	41737942	57	61320											
FAM71F2	346653	broad.mit.edu	37	chr7	128317770	128317770	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgggtccgcttggtgaaaaTtctgcagaaaggcctgtcca	9	10	12	10	1	1	2	0	1	1	1	3	2	3	2	3	3	1	2	3	3	3	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr7:128317770T>C	uc003vnk.3	+	3	624	c.518T>C	c.(517-519)ATT>ACT	p.I173T	FAM71F2_uc010llm.1_Missense_Mutation_p.I164T|FAM71F2_uc003vnl.2_RNA|FAM71F2_uc010lln.1_RNA	NM_001012454	NP_001012457	Q6NXP2	F71F2_HUMAN	hypothetical protein LOC346653 isoform a	173											0						TTGGTGAAAATTCTGCAGAAA	0.478													11	53					0	0	0.013537	0	0		C	128317770	C	C	128317770	3	2	95	1	0	0	0	0	1	0	0	0	5627	1493	52	3	528	3	FAM71F2	7	128317770	Missense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	10917049	128317770	30820893	58	61321											
PLXNA4	91584	broad.mit.edu	37	chr7	132193205	132193205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccggccctgtctcatgcGtcaccaagaccttcaggtcg	6	9	10	16	4	3	1	3	0	1	1	6	1	4	1	4	2	1	0	4	2	1	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr7:132193205G>A	uc003vra.3	-	2	477	c.248C>T	c.(247-249)ACG>ATG	p.T83M	PLXNA4_uc003vrc.2_Missense_Mutation_p.T83M|PLXNA4_uc003vrb.2_Missense_Mutation_p.T83M	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	83	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TGTCTCATGCGTCACCAAGAC	0.557													12	76					0	0	0.013537	0	0		A	132193205	A	A	132193205	3	1	95	1	0	0	0	0	1	0	0	0	12141	1145	40	1	5874	1	PLXNA4	7	132193205	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	3875435	132193205	26945458	59	61322											
PTPRN2	5799	broad.mit.edu	37	chr7	157926444	157926445	+	Missense_Mutation	DNP	GC	AA	AA																															attgcaggccgtcgctgaggGcctcctgagcacccgctgga																										TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr7:157926444_157926445GC>AA	uc003wno.2	-	9	1601_1602	c.1480_1481GC>TT	c.(1480-1482)GCC>TTC	p.A494F	PTPRN2_uc003wnp.2_Missense_Mutation_p.A477F|PTPRN2_uc003wnq.2_Missense_Mutation_p.A494F|PTPRN2_uc003wnr.2_Missense_Mutation_p.A456F|PTPRN2_uc011kwa.1_Missense_Mutation_p.A517F	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	494	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		GTCGCTGAGGGCCTCCTGAGCA	0.653													19	80					0	0	0.004672	0	0		AA	157926445	AA	AA	157926444	3	1	95	1	0	0	0	0	1	0	0	0	12833	1203	42	2	1626	2	PTPRN2	7	157926444	Missense_Mutation	DNP	GC	TCGA-BR-A4IY-01A-11D-A25D-08	25733239	157926444	1212219	60	61323											
CSMD1	64478	broad.mit.edu	37	chr8	2967802	2967802	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatcggatactcatcaggAaagccaggggagtagatggt	13	7	15	6	1	2	1	2	0	0	1	3	5	2	5	1	6	2	1	1	6	3	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr8:2967802A>C	uc011kwk.1	-	43	6879	c.6489T>G	c.(6487-6489)TTT>TTG	p.F2163L	CSMD1_uc011kwj.1_Missense_Mutation_p.F1555L|CSMD1_uc010lrg.2_Missense_Mutation_p.F231L	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2163	Extracellular (Potential).|CUB 13.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ACTCATCAGGAAAGCCAGGGG	0.502													4	14					0	0	0.000602	0	0		C	2967802	C	C	2967802	3	2	95	1	0	0	0	0	1	0	0	0	3947	243	9	5	4320	5	CSMD1	8	2967802	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08		2967802	143396220	61	61324											
PRDM14	63978	broad.mit.edu	37	chr8	70980506	70980506	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtaggtcttcacttcacTggcattgaccactttacctt	7	15	6	13	1	3	1	2	1	1	0	4	1	4	1	3	2	1	2	3	2	2	7			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr8:70980506T>C	uc003xym.2	-	4	1073	c.871A>G	c.(871-873)AGT>GGT	p.S291G		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	291	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			TTCACTTCACTGGCATTGACC	0.498													29	84					0	0	0.009535	0	0		C	70980506	C	C	70980506	3	2	95	1	0	0	0	0	1	0	0	0	12477	1580	55	3	864	3	PRDM14	8	70980506	Missense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	68012704	70980506	75383516	62	61325											
HEY1	23462	broad.mit.edu	37	chr8	80677768	80677768	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagcaacagcgggtgcgcGatgtgcgggtgatgtccgaa	8	6	18	9	5	0	1	0	1	0	0	1	3	1	1	1	3	5	2	1	3	2	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr8:80677768G>A	uc003ybm.2	-	5	770	c.570C>T	c.(568-570)ATC>ATT	p.I190I	HEY1_uc010lzq.2_Silent_p.I71I|HEY1_uc003ybl.2_Silent_p.I194I	NM_012258	NP_036390	Q9Y5J3	HEY1_HUMAN	hairy/enhancer-of-split related with YRPW motif	190					angiogenesis|negative regulation of Notch signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|Notch signaling pathway|transcription, DNA-dependent	nucleus	DNA binding|protein binding			lung(3)	3	all_lung(9;5.1e-05)		Epithelial(68;0.076)|all cancers(69;0.179)			GCGGGTGCGCGATGTGCGGGT	0.697											OREG0018837	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	33					0	0	0.013537	0	0		A	80677768	A	A	80677768	2	1	95	1	0	0	0	0	0	0	0	1	7094	1048	37	1		1	HEY1	8	80677768	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	9697262	80677768	65686254	63	61326											
PAG1	55824	broad.mit.edu	37	chr8	81897495	81897495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggattctgggcagctccCgactctgatgacattttggt	7	12	13	9	1	2	2	0	2	2	0	3	5	3	3	1	3	1	2	1	3	0	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr8:81897495C>T	uc003ybz.2	-	7	1103	c.392G>A	c.(391-393)CGG>CAG	p.R131Q		NM_018440	NP_060910	Q9NWQ8	PAG1_HUMAN	phosphoprotein associated with glycosphingolipid	131	Cytoplasmic (Potential).				epidermal growth factor receptor signaling pathway|intracellular signal transduction|T cell receptor signaling pathway	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding|SH3/SH2 adaptor activity				0	Lung NSC(7;5.76e-06)|all_lung(9;2e-05)		BRCA - Breast invasive adenocarcinoma(6;0.0567)|Epithelial(68;0.0634)|all cancers(69;0.197)			GGGCAGCTCCCGACTCTGATG	0.587													5	27					0	0	0.001984	0	0		T	81897495	T	T	81897495	3	4	95	1	0	0	0	0	1	0	0	0	11407	652	23	1	918	1	PAG1	8	81897495	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	1219727	81897495	64466527	64	61327											
MMP16	4325	broad.mit.edu	37	chr8	89053829	89053829	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaatagctatggctttcaCagtgctggctgtgttgtcca	8	13	11	9	0	1	0	1	0	0	0	2	1	2	0	1	2	2	5	1	2	3	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr8:89053829C>A	uc003yeb.3	-	10	1966	c.1684G>T	c.(1684-1686)GTG>TTG	p.V562L		NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	562	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						ATGGCTTTCACAGTGCTGGCT	0.468													14	89					0.000566183	0.00060157	0.00499	1	0		A	89053829	A	A	89053829	3	1	95	1	0	0	0	0	1	0	0	0	9673	478	17	5	143	5	MMP16	8	89053829	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	7156334	89053829	57310193	65	61328											
COL14A1	7373	broad.mit.edu	37	chr8	121344951	121344951	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggatcacaggaagcatgggaCcgcaaggcgccctgggacca	11	3	15	12	2	1	0	1	0	0	0	1	4	1	4	3	5	1	2	3	5	2	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr8:121344951C>A	uc003yox.2	+	42	5027	c.4762C>A	c.(4762-4764)CCG>ACG	p.P1588T	COL14A1_uc003yoz.2_Missense_Mutation_p.P553T	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	1588	Triple-helical region 1 (COL2).				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			AAGCATGGGACCGCAAGGCGC	0.507													5	23					5.9392e-07	6.6109e-07	0.001168	1	0		A	121344951	A	A	121344951	3	1	95	1	0	0	0	0	1	0	0	0	3674	507	18	5	4924	5	COL14A1	8	121344951	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	32291122	121344951	25019071	66	61329											
FAM166B	730112	broad.mit.edu	37	chr9	35563035	35563035	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcctcggcccagacctggCtgcagttcttggcaaagatg	8	8	13	12	1	1	2	0	0	1	2	2	3	1	2	3	3	2	4	3	3	1	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr9:35563035C>A	uc010mkr.2	-	3	400	c.329G>T	c.(328-330)AGC>ATC	p.S110I	FAM166B_uc011lov.1_Missense_Mutation_p.S110I|FAM166B_uc011low.1_Missense_Mutation_p.S110I|FAM166B_uc003zwy.2_Missense_Mutation_p.S110I	NM_001164310	NP_001157782	A8MTA8	F166B_HUMAN	hypothetical protein LOC730112 isoform 1	110											0						CCAGACCTGGCTGCAGTTCTT	0.537													6	27					8.12818e-05	8.68555e-05	0.001984	1	0		A	35563035	A	A	35563035	3	1	95	1	0	0	0	0	1	0	0	0	5493	797	28	5	333	5	FAM166B	9	35563035	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08		35563035	105650396	67	61330											
PRUNE2	158471	broad.mit.edu	37	chr9	79326133	79326133	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggacacctcctgttgaTgacttccttgacaacgagaa	10	11	8	12	1	1	4	0	3	1	1	3	6	3	5	3	1	1	1	3	1	2	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr9:79326133T>C	uc010mpk.2	-	8	1181	c.1057A>G	c.(1057-1059)ATC>GTC	p.I353V		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	353					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CTCCTGTTGATGACTTCCTTG	0.542													5	25					0	0	0.000602	0	0		C	79326133	C	C	79326133	3	2	95	1	0	0	0	0	1	0	0	0	12663	1464	51	3	8257	3	PRUNE2	9	79326133	Missense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	43763098	79326133	61887298	68	61331											
VPS13A	23230	broad.mit.edu	37	chr9	79865064	79865064	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgaaacaaggtgaggccAatcttaaagagataatggat	17	9	11	4	0	1	3	0	2	1	1	1	5	1	4	1	3	1	0	1	3	6	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr9:79865064A>C	uc004akr.2	+	21	2349	c.2089A>C	c.(2089-2091)AAT>CAT	p.N697H	VPS13A_uc004akp.3_Missense_Mutation_p.N697H|VPS13A_uc004akq.3_Missense_Mutation_p.N697H|VPS13A_uc004aks.2_Missense_Mutation_p.N697H	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	697					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						AGGTGAGGCCAATCTTAAAGA	0.323													16	42					0	0	0.00499	0	0		C	79865064	C	C	79865064	3	2	95	1	0	0	0	0	1	0	0	0	17215	130	5	5	2171	5	VPS13A	9	79865064	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	538931	79865064	61348367	69	61332											
C9orf84	158401	broad.mit.edu	37	chr9	114464476	114464476	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcataatgatattgtctgAtgccttctcataattcaatt	11	17	4	9	0	4	2	3	2	2	0	5	2	4	2	2	0	1	0	2	0	4	7			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr9:114464476A>G	uc004bfr.2	-	21	2941	c.2806T>C	c.(2806-2808)TCA>CCA	p.S936P	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Missense_Mutation_p.S897P|C9orf84_uc010mug.2_Missense_Mutation_p.S847P	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	936										ovary(2)	2						ATATTGTCTGATGCCTTCTCA	0.264													9	38					0	0	0.004482	0	0		G	114464476	G	G	114464476	3	3	95	1	0	0	0	0	1	0	0	0	2503	333	12	3	1552	3	C9orf84	9	114464476	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	34599412	114464476	26748955	70	61333											
C9orf84	158401	broad.mit.edu	37	chr9	114500580	114500580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attctaattgaagcactttcGtaggcaaaaatatctcaatt	15	14	5	7	1	2	1	1	1	2	0	4	1	2	1	0	1	1	3	0	1	7	7			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr9:114500580G>A	uc004bfr.2	-	10	1340	c.1205C>T	c.(1204-1206)ACG>ATG	p.T402M	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfs.1_Missense_Mutation_p.T466M|C9orf84_uc004bfq.2_Missense_Mutation_p.T363M|C9orf84_uc010mug.2_Missense_Mutation_p.T348M	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	402										ovary(2)	2						AAGCACTTTCGTAGGCAAAAA	0.284													3	24					0	0	0.009096	0	0		A	114500580	A	A	114500580	3	1	95	1	0	0	0	0	1	0	0	0	2503	1145	40	1	3197	1	C9orf84	9	114500580	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	36104	114500580	26712851	71	61334											
ASTN2	23245	broad.mit.edu	37	chr9	119976979	119976979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgggcgtacagcgccaCggtgaacaccagcagcagca	10	4	13	14	4	0	1	0	1	0	0	1	1	0	1	2	2	6	5	2	2	2	1	rs144385545		TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr9:119976979C>T	uc004bjs.1	-	3	774	c.673G>A	c.(673-675)GTG>ATG	p.V225M	ASTN2_uc004bjr.1_Missense_Mutation_p.V225M|ASTN2_uc004bjt.1_Missense_Mutation_p.V225M	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	225	Helical; (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TACAGCGCCACGGTGAACACC	0.602													9	39					0	0	0.006214	0	0		T	119976979	T	T	119976979	3	4	95	1	0	0	0	0	1	0	0	0	1066	536	19	1	3505	1	ASTN2	9	119976979	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	5476399	119976979	21236452	72	61335											
RBM18	92400	broad.mit.edu	37	chr9	125023768	125023768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagagttttggtttctgcttCcatcaatgtctatgaaatac	11	16	7	7	0	3	2	1	1	2	1	4	2	4	2	1	1	2	3	1	1	5	6			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr9:125023768C>T	uc004bma.2	-	2	170	c.4G>A	c.(4-6)GAA>AAA	p.E2K	RBM18_uc004blz.2_RNA|RBM18_uc010mvy.2_RNA|RBM18_uc011lyp.1_RNA	NM_033117	NP_149108	Q96H35	RBM18_HUMAN	RNA binding motif protein 18	2							nucleotide binding|RNA binding				0						GTTTCTGCTTCCATCAATGTC	0.438													5	49					0	0	0.000602	0	0		T	125023768	T	T	125023768	3	4	95	1	0	0	0	0	1	0	0	0	13145	864	30	4	588	4	RBM18	9	125023768	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	5046789	125023768	16189663	73	61336											
SPTAN1	6709	broad.mit.edu	37	chr9	131381150	131381150	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcctgtctcctgtaattagGggtcagcggctggaagagtc	7	12	13	9	1	2	1	1	0	1	1	5	2	3	2	2	4	1	2	2	4	3	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr9:131381150G>C	uc004bvl.3	+	43	5699	c.5586G>C	c.(5584-5586)CGG>CGC	p.R1862R	SPTAN1_uc004bvm.3_Silent_p.R1867R|SPTAN1_uc004bvn.3_Silent_p.R1842R	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1862	Spectrin 19.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						CTGTAATTAGGGGTCAGCGGC	0.418													5	81					0	0	0.000602	0	0		C	131381150	C	C	131381150	2	2	95	1	0	0	0	0	0	0	0	1	15142	1246	43	5		5	SPTAN1	9	131381150	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	6357382	131381150	9832281	74	61337											
ZMYND11	10771	broad.mit.edu	37	chr10	267156	267156	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actgggaaacagaaaatcatGactggtattgttttgaatgc	14	12	10	5	0	1	3	1	2	0	1	1	4	1	4	0	2	2	2	0	2	5	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr10:267156G>C	uc010pzt.1	+	4	726	c.298G>C	c.(298-300)GAC>CAC	p.D100H	ZMYND11_uc001ifk.2_Missense_Mutation_p.D100H|ZMYND11_uc010pzu.1_Missense_Mutation_p.D100H|ZMYND11_uc010pzv.1_Intron|ZMYND11_uc010pzw.1_Intron|ZMYND11_uc001ifm.2_Intron|ZMYND11_uc010pzx.1_Missense_Mutation_p.D100H|ZMYND11_uc001ifn.2_Intron|ZMYND11_uc009xhg.2_Missense_Mutation_p.D83H|ZMYND11_uc009xhh.2_Intron|ZMYND11_uc010pzy.1_Intron	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	60	PHD-type.				cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		AGAAAATCATGACTGGTATTG	0.353													27	148					0	0	0.013726	0	0		C	267156	C	C	267156	3	2	95	1	0	0	0	0	1	0	0	0	17731	1290	45	5	308	5	ZMYND11	10	267156	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08		267156	135267591	75	61338											
SFTPA2	729238	broad.mit.edu	37	chr10	81317845	81317845	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atttgatgtctgaagtcgtgGagtgtggcttggagctcctc	6	14	14	7	1	1	2	0	2	1	0	4	4	2	4	1	3	1	2	1	3	1	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr10:81317845G>C	uc001kal.3	-	5	430	c.333C>G	c.(331-333)CTC>CTG	p.L111L	SFTPA2_uc001kan.3_Silent_p.L111L	NM_006926	NP_008857	Q8IWL1	SFPA2_HUMAN	RecName: Full=Pulmonary surfactant-associated protein A2;          Short=SP-A2;          Short=SP-A;          Short=PSP-A;          Short=PSPA; AltName: Full=Alveolar proteinosis protein; AltName: Full=35 kDa pulmonary surfactant-associated protein; Flags: Precursor;	111					cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			TGAAGTCGTGGAGTGTGGCTT	0.582									Pulmonary_Fibrosis_Idiopathic				19	283					0	0	0.008871	0	0		C	81317845	C	C	81317845	2	2	95	1	0	0	0	0	0	0	0	1	14215	1161	41	5		5	SFTPA2	10	81317845	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	81050689	81317845	54216902	76	61339											
PPRC1	23082	broad.mit.edu	37	chr10	103904794	103904794	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggcgttgacattccccAggagaagaggcccctagacc	10	5	12	14	2	0	4	0	1	0	3	1	5	1	4	5	3	1	1	5	3	2	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr10:103904794A>G	uc001kum.2	+	8	3665	c.3626A>G	c.(3625-3627)CAG>CGG	p.Q1209R	PPRC1_uc001kun.2_Missense_Mutation_p.Q1089R|PPRC1_uc010qqj.1_Intron|PPRC1_uc009xxa.2_Intron	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	1209					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		GACATTCCCCAGGAGAAGAGG	0.498													11	50					0	0	0.013537	0	0		G	103904794	G	G	103904794	3	3	95	1	0	0	0	0	1	0	0	0	12432	188	7	3	3656	3	PPRC1	10	103904794	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	22586949	103904794	31629953	77	61340											
HSPA12A	259217	broad.mit.edu	37	chr10	118443393	118443393	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcatctggtgtagccgcagCtttcggcagtagatagaggc	9	10	13	9	2	2	2	1	0	1	2	3	2	2	2	1	3	2	5	1	3	3	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr10:118443393C>G	uc001lct.2	-	7	849	c.744G>C	c.(742-744)AAG>AAC	p.K248N	HSPA12A_uc001lcu.2_Missense_Mutation_p.K165N	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	248							ATP binding			ovary(1)	1				all cancers(201;0.0158)		GTAGCCGCAGCTTTCGGCAGT	0.582													9	34					0	0	0.006214	0	0		G	118443393	G	G	118443393	3	3	95	1	0	0	0	0	1	0	0	0	7420	796	28	5	1307	5	HSPA12A	10	118443393	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	14538599	118443393	17091354	78	61341											
MMP21	118856	broad.mit.edu	37	chr10	127461231	127461231	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtgtgaagtgctcgtcGtcgtcaaagtgaatgtcacc	9	10	14	8	3	2	2	2	2	0	0	5	3	2	3	1	2	1	1	1	2	3	0	rs146537734		TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr10:127461231G>A	uc001liu.2	-	3	786	c.786C>T	c.(784-786)GAC>GAT	p.D262D		NM_147191	NP_671724	Q8N119	MMP21_HUMAN	matrix metalloproteinase 21 preproprotein	262					proteolysis	extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				AGTGCTCGTCGTCGTCAAAGT	0.622													14	59					0	0	0.00499	0	0		A	127461231	A	A	127461231	2	1	95	1	0	0	0	0	0	0	0	1	9678	1136	40	1		1	MMP21	10	127461231	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	9017838	127461231	8073516	79	61342											
CNGA4	1262	broad.mit.edu	37	chr11	6265493	6265493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcacttaagattgcttacCgcattgaacggctggagtgg	9	10	13	9	3	0	2	0	1	0	1	0	3	0	3	1	3	3	4	1	3	3	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr11:6265493C>T	uc001mco.2	+	6	1689	c.1582C>T	c.(1582-1584)CGC>TGC	p.R528C	CNGA4_uc010raa.1_3'UTR|CNGA4_uc001mcn.2_3'UTR	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	528	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GATTGCTTACCGCATTGAACG	0.587													22	42					0	0	0.012319	0	0		T	6265493	T	T	6265493	3	4	95	1	0	0	0	0	1	0	0	0	3602	652	23	1	1604	1	CNGA4	11	6265493	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08		6265493	128741023	80	61343											
OVCH2	341277	broad.mit.edu	37	chr11	7722879	7722879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcccacccacctgacatgCgtctctccctccatcaggaa	8	8	6	19	1	2	1	1	1	1	0	6	2	5	2	5	1	1	1	5	1	1	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr11:7722879C>T	uc010rbf.1	-	6	703	c.703G>A	c.(703-705)GCA>ACA	p.A235T		NM_198185	NP_937828			ovochymase 2 precursor												0				Epithelial(150;7.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.197)		ACCTGACATGCGTCTCTCCCT	0.483													6	31					0	0	0.00308	0	0		T	7722879	T	T	7722879	3	4	95	1	0	0	0	0	1	0	0	0	11343	768	27	1	1030	1	OVCH2	11	7722879	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	1457386	7722879	127283637	81	61344											
CHRM4	1132	broad.mit.edu	37	chr11	46407613	46407613	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagaacaagatggcaggCgcccagagcacgaaggacag	14	2	14	11	2	0	3	0	0	0	3	0	5	0	4	2	3	3	2	2	3	3	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr11:46407613C>T	uc001nct.1	-	1	495	c.495G>A	c.(493-495)GCG>GCA	p.A165A		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	165	Helical; Name=4; (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	AGATGGCAGGCGCCCAGAGCA	0.602													6	22					0	0	0.001168	0	0		T	46407613	T	T	46407613	2	4	95	1	0	0	0	0	0	0	0	1	3382	755	27	1		1	CHRM4	11	46407613	Silent	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	38684734	46407613	88598903	82	61345											
MADD	8567	broad.mit.edu	37	chr11	47296606	47296606	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgctcagccactaccctttCttctccaccttccgagagtg	6	12	7	16	1	3	1	1	0	2	1	5	2	4	1	5	0	3	1	5	0	1	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr11:47296606C>G	uc001ner.1	+	3	746	c.555C>G	c.(553-555)TTC>TTG	p.F185L	MADD_uc001neq.2_Missense_Mutation_p.F185L|MADD_uc001nev.1_Missense_Mutation_p.F185L|MADD_uc001nes.1_Missense_Mutation_p.F185L|MADD_uc001net.1_Missense_Mutation_p.F185L|MADD_uc009yln.1_Missense_Mutation_p.F185L|MADD_uc001neu.1_Missense_Mutation_p.F185L|MADD_uc001nex.2_Missense_Mutation_p.F185L|MADD_uc001nez.2_Missense_Mutation_p.F185L|MADD_uc001new.2_Missense_Mutation_p.F185L	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	185	DENN.				activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		ACTACCCTTTCTTCTCCACCT	0.602													12	58					0	0	0.001855	0	0		G	47296606	G	G	47296606	3	3	95	1	0	0	0	0	1	0	0	0	9170	912	32	5	561	5	MADD	11	47296606	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	888993	47296606	87709910	83	61346											
OR5T1	390155	broad.mit.edu	37	chr11	56043183	56043183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattttactgaagtcaccatGtttatattaataagcttcac	14	16	4	7	0	2	1	2	1	0	0	2	1	2	1	1	0	2	2	1	0	7	8			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr11:56043183G>A	uc001nio.1	+	1	69	c.69G>A	c.(67-69)ATG>ATA	p.M23I		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	23	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					AAGTCACCATGTTTATATTAA	0.303													9	134					0	0	0.004482	0	0		A	56043183	A	A	56043183	3	1	95	1	0	0	0	0	1	0	0	0	11200	1377	48	4	71	4	OR5T1	11	56043183	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	8746577	56043183	78963333	84	61347											
SNX32	254122	broad.mit.edu	37	chr11	65620233	65620233	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agctgtgctgccaacgcttcGagcgcctctccgactccgcc	5	8	10	18	5	1	0	0	0	1	0	4	2	2	0	5	0	5	3	5	0	1	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr11:65620233G>C	uc001ofr.2	+	11	1172	c.1045G>C	c.(1045-1047)GAG>CAG	p.E349Q		NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B	349					cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		CCAACGCTTCGAGCGCCTCTC	0.701													4	30					0	0	0.009096	0	0		C	65620233	C	C	65620233	3	2	95	1	0	0	0	0	1	0	0	0	14927	1059	37	5	1087	5	SNX32	11	65620233	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	9577050	65620233	69386283	85	61348											
RAB1B	81876	broad.mit.edu	37	chr11	66039636	66039636	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaactttcaggatgacacGtacacagagagctacatcag	14	8	9	10	1	2	3	2	2	0	1	2	5	2	4	0	1	4	2	0	1	3	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr11:66039636G>A	uc001ohf.2	+	3	191	c.96G>A	c.(94-96)ACG>ACA	p.T32T	uc001ohg.1_RNA	NM_030981	NP_112243	Q9H0U4	RAB1B_HUMAN	RAB1B, member RAS oncogene family	32					protein transport|small GTPase mediated signal transduction	Golgi apparatus|membrane	GTP binding|protein binding				0						AGGATGACACGTACACAGAGA	0.532													30	220					0	0	0.003755	0	0		A	66039636	A	A	66039636	2	1	95	1	0	0	0	0	0	0	0	1	12931	1132	40	1		1	RAB1B	11	66039636	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	419403	66039636	68966880	86	61349											
RBM14	10432	broad.mit.edu	37	chr11	66384208	66384208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaaatgaagatattcgtggGcaacgtcgacggggcggata	13	7	14	7	5	0	2	0	1	0	1	2	4	0	3	0	4	1	1	0	4	6	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr11:66384208G>A	uc001oit.2	+	1	156	c.17G>A	c.(16-18)GGC>GAC	p.G6D	RBM14_uc009yrh.2_Missense_Mutation_p.G6D|RBM14_uc009yri.2_Missense_Mutation_p.G6D|RBM4_uc009yrj.2_5'UTR|RBM4_uc009yrk.2_Missense_Mutation_p.G6D	NM_006328	NP_006319	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	6	RRM 1.				DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|histone deacetylation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus	mediator complex|ribonucleoprotein complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|protein binding, bridging|RNA binding|RNA polymerase II transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						ATATTCGTGGGCAACGTCGAC	0.627													9	38					0	0	0.010729	0	0		A	66384208	A	A	66384208	3	1	95	1	0	0	0	0	1	0	0	0	13140	1203	42	2	19	2	RBM14	11	66384208	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	344572	66384208	68622308	87	61350											
PDE2A	5138	broad.mit.edu	37	chr11	72299876	72299876	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccaaggccaccacctggTcagtggcccggctgatgaca	9	5	13	14	1	1	2	1	2	0	0	1	2	1	2	5	5	0	1	5	5	1	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr11:72299876T>A	uc010rrc.1	-	13	1265	c.1022A>T	c.(1021-1023)GAC>GTC	p.D341V	PDE2A_uc001oso.2_Missense_Mutation_p.D320V|PDE2A_uc010rra.1_Missense_Mutation_p.D334V|PDE2A_uc001osn.2_Intron|PDE2A_uc010rrb.1_Missense_Mutation_p.D332V|PDE2A_uc010rrd.1_Missense_Mutation_p.D226V	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	341	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	CACCACCTGGTCAGTGGCCCG	0.572													13	90					0	0	0.013537	0	0		A	72299876	A	A	72299876	3	1	95	1	0	0	0	0	1	0	0	0	11655	1667	58	5	1879	5	PDE2A	11	72299876	Missense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	5915668	72299876	62706640	88	61351											
P2RY2	5029	broad.mit.edu	37	chr11	72945522	72945522	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccttcagcacggtgctctgCaagctggtgcgcttcctctt	4	12	10	15	2	3	0	1	0	2	0	4	0	4	0	2	2	5	5	2	2	1	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr11:72945522C>A	uc001otj.2	+	3	651	c.318C>A	c.(316-318)TGC>TGA	p.C106*	P2RY2_uc001otk.2_Nonsense_Mutation_p.C106*|P2RY2_uc001otl.2_Nonsense_Mutation_p.C106*	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	106	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(1)|skin(1)	4					Suramin(DB04786)	CGGTGCTCTGCAAGCTGGTGC	0.607													40	86					6.4771e-29	7.81431e-29	0.010771	1	0		A	72945522	A	A	72945522	4	1	95	1	0	0	0	0	0	1	0	0	11371	718	25	5	320	5	P2RY2	11	72945522	Nonsense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	645646	72945522	62060994	89	61352											
ARHGEF17	9828	broad.mit.edu	37	chr11	73021583	73021583	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccgagggcagcggtcccagGaggagctctcaggccctgag	7	4	16	14	2	1	1	1	1	1	0	3	4	2	3	3	5	2	2	3	5	0	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr11:73021583G>T	uc001otu.2	+	1	1921	c.1900G>T	c.(1900-1902)GAG>TAG	p.E634*		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	634					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						GCGGTCCCAGGAGGAGCTCTC	0.622													8	47					1.76689e-08	2.00248e-08	0.006214	1	0		T	73021583	T	T	73021583	4	4	95	1	0	0	0	0	0	1	0	0	900	1175	41	5	1902	5	ARHGEF17	11	73021583	Nonsense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	76061	73021583	61984933	90	61353											
C3AR1	719	broad.mit.edu	37	chr12	8211383	8211383	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacattgtttgagggacagtGggtggaacgtgtgagctcct	8	11	16	6	1	0	2	0	2	0	0	1	5	1	4	1	3	2	2	1	3	1	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr12:8211383G>T	uc001qtv.1	-	2	1491	c.1399C>A	c.(1399-1401)CAC>AAC	p.H467N		NM_004054	NP_004045	Q16581	C3AR_HUMAN	complement component 3a receptor 1	467	Cytoplasmic (Potential).				blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)		GAGGGACAGTGGGTGGAACGT	0.468													20	127					1.00905e-13	1.19425e-13	0.008871	1	0		T	8211383	T	T	8211383	3	4	95	1	0	0	0	0	1	0	0	0	2208	1348	47	5	53	5	C3AR1	12	8211383	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08		8211383	125640512	91	61354											
GRIN2B	2904	broad.mit.edu	37	chr12	13716833	13716833	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggtcaggggagcggggCggtcggcgacggtaggccag	5	6	22	8	5	1	0	1	0	0	0	2	2	1	1	1	9	1	1	1	9	1	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr12:13716833C>T	uc001rbt.2	-	13	3518	c.3339G>A	c.(3337-3339)CCG>CCA	p.P1113P		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1113	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GGGAGCGGGGCGGTCGGCGAC	0.612													16	60					0	0	0.007413	0	0		T	13716833	T	T	13716833	2	4	95	1	0	0	0	0	0	0	0	1	6796	755	27	1		1	GRIN2B	12	13716833	Silent	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	5505450	13716833	120135062	92	61355											
BICD1	636	broad.mit.edu	37	chr12	32491848	32491848	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tcttctgaagggccccccttCcatgagtgaattcatccaag	9	11	8	13	0	3	3	1	3	2	0	5	3	5	3	5	1	0	0	5	1	3	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr12:32491848C>G	uc001rku.2	+	8	2780	c.2699C>G	c.(2698-2700)TCC>TGC	p.S900C	BICD1_uc001rkv.2_Intron|BICD1_uc010skd.1_RNA	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	900					anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			GGCCCCCCTTCCATGAGTGAA	0.498													11	89					0	0	0.001855	0	0		G	32491848	G	G	32491848	3	3	95	1	0	0	0	0	1	0	0	0	1429	855	30	5	2729	5	BICD1	12	32491848	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	18775015	32491848	101360047	93	61356											
COL2A1	1280	broad.mit.edu	37	chr12	48368564	48368564	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctggattggggtagacgCaagtctcgccagtctccatg	7	11	13	10	2	2	1	0	0	2	1	4	2	2	2	2	3	1	3	2	3	2	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr12:48368564C>A	uc001rqu.2	-	52	4149	c.3968G>T	c.(3967-3969)TGC>TTC	p.C1323F	COL2A1_uc001rqt.2_Missense_Mutation_p.C104F|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.C1254F	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1323	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	GGGGTAGACGCAAGTCTCGCC	0.532													14	89					1.3612e-06	1.49732e-06	0.003163	1	0		A	48368564	A	A	48368564	3	1	95	1	0	0	0	0	1	0	0	0	3690	710	25	5	507	5	COL2A1	12	48368564	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	15876716	48368564	85483331	94	61357											
DNAJC22	79962	broad.mit.edu	37	chr12	49743369	49743369	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagtttgtcctccttctGccttaccggatctggaggct	5	14	11	11	1	2	0	0	0	2	0	4	3	4	3	4	4	2	2	4	4	1	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr12:49743369G>A	uc001rua.2	+	2	1115	c.714G>A	c.(712-714)CTG>CTA	p.L238L	DNAJC22_uc001rub.2_Silent_p.L238L	NM_024902	NP_079178	Q8N4W6	DJC22_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 22	238	Helical; (Potential).				protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			ovary(1)	1						TCCTCCTTCTGCCTTACCGGA	0.532													31	145					0	0	0.003755	0	0		A	49743369	A	A	49743369	2	1	95	1	0	0	0	0	0	0	0	1	4647	1306	46	2		2	DNAJC22	12	49743369	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	1374805	49743369	84108526	95	61358											
TMEM5	10329	broad.mit.edu	37	chr12	64202853	64202853	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattttagaaagctcattttTaatgaataataaaagttaat	18	17	4	2	0	1	2	1	1	0	1	1	2	1	2	0	0	1	2	0	0	9	9			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr12:64202853T>G	uc001srq.1	+	6	1417	c.1313T>G	c.(1312-1314)TTA>TGA	p.L438*	TMEM5_uc001srr.1_Nonsense_Mutation_p.L335*|TMEM5_uc001srs.1_Nonsense_Mutation_p.L178*	NM_014254	NP_055069	Q9Y2B1	TMEM5_HUMAN	transmembrane protein 5	438	Extracellular (Potential).					integral to plasma membrane					0		Myeloproliferative disorder(1001;0.0255)	BRCA - Breast invasive adenocarcinoma(9;0.0985)	GBM - Glioblastoma multiforme(28;9e-08)|BRCA - Breast invasive adenocarcinoma(357;0.000175)		AGCTCATTTTTAATGAATAAT	0.254													3	19					0	0	0.004672	0	0		G	64202853	G	G	64202853	4	3	95	1	0	0	0	0	0	1	0	0	16199	1764	61	5	1335	5	TMEM5	12	64202853	Nonsense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	14459484	64202853	69649042	96	61359											
ATP2B1	490	broad.mit.edu	37	chr12	89996883	89996883	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttaaagattccttcgaaTacatttctttcaccatgaat	12	17	4	8	1	2	2	1	1	1	1	4	3	3	2	2	0	1	1	2	0	5	7			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr12:89996883T>A	uc001tbh.2	-	17	3178	c.2997A>T	c.(2995-2997)GTA>GTT	p.V999V	ATP2B1_uc001tbg.2_Silent_p.V999V|ATP2B1_uc001tbf.2_Silent_p.V669V	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	999	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						TTCCTTCGAATACATTTCTTT	0.353													9	59					0	0	0.006214	0	0		A	89996883	A	A	89996883	2	1	95	1	0	0	0	0	0	0	0	1	1140	1393	49	5		5	ATP2B1	12	89996883	Silent	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	25794030	89996883	43855012	97	61360											
BTBD11	121551	broad.mit.edu	37	chr12	108029147	108029147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagctcacagaaatcaaacGgaaacagacctcgcgcttgg	15	5	9	12	3	2	2	2	0	0	2	3	3	2	3	1	2	3	2	1	2	4	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr12:108029147G>A	uc001tmk.1	+	12	3238	c.2717G>A	c.(2716-2718)CGG>CAG	p.R906Q	BTBD11_uc009zut.1_Missense_Mutation_p.R787Q|BTBD11_uc001tmj.2_Missense_Mutation_p.R906Q|BTBD11_uc001tml.1_Missense_Mutation_p.R443Q|BTBD11_uc001tmm.1_5'UTR	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	906						integral to membrane	DNA binding			skin(2)|ovary(1)	3						GAAATCAAACGGAAACAGACC	0.527													11	48					0	0	0.008291	0	0		A	108029147	A	A	108029147	3	1	95	1	0	0	0	0	1	0	0	0	1542	1116	39	1	2868	1	BTBD11	12	108029147	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	18032264	108029147	25822748	98	61361											
MLEC	9761	broad.mit.edu	37	chr12	121125252	121125252	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgagagcgtcatttgggcGgtcaacgcgggtggagaggc	7	6	18	10	5	2	2	2	0	0	2	2	4	2	2	1	5	2	0	1	5	1	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr12:121125252G>A	uc001tyy.1	+	1	304	c.153G>A	c.(151-153)GCG>GCA	p.A51A		NM_014730	NP_055545	Q14165	MLEC_HUMAN	malectin precursor	51	Lumenal (Potential).				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	carbohydrate binding			ovary(1)	1						TCATTTGGGCGGTCAACGCGG	0.527													5	36					0	0	0.001984	0	0		A	121125252	A	A	121125252	2	1	95	1	0	0	0	0	0	0	0	1	9631	1103	39	1		1	MLEC	12	121125252	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	13096105	121125252	12726643	99	61362											
TPTE2	93492	broad.mit.edu	37	chr13	19999107	19999107	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttattttgaataaaagaCgtgttgaaccagaagaaaaa	18	11	8	4	1	0	5	0	2	0	3	0	5	0	5	1	0	1	2	1	0	8	5			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr13:19999107C>G	uc001umd.2	-	20	1657	c.1446G>C	c.(1444-1446)ACG>ACC	p.T482T	TPTE2_uc009zzk.2_RNA|TPTE2_uc009zzl.2_Silent_p.T371T|TPTE2_uc001ume.2_Silent_p.T405T|TPTE2_uc009zzm.2_Silent_p.T153T|TPTE2_uc010tcm.1_RNA|TPTE2_uc010tcl.1_Silent_p.T153T	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	482	C2 tensin-type.					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		GAATAAAAGACGTGTTGAACC	0.299													3	19					0	0	0.004672	0	0		G	19999107	G	G	19999107	2	3	95	1	0	0	0	0	0	0	0	1	16457	523	19	5		5	TPTE2	13	19999107	Silent	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08		19999107	95170771	100	61363											
USP12	219333	broad.mit.edu	37	chr13	27645260	27645260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcatgactcttaactattGcaatataatggcctcgattg	13	14	6	8	1	2	1	1	1	1	0	3	2	2	1	1	1	2	1	1	1	6	6			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr13:27645260G>A	uc001uqy.2	-	8	1212	c.959C>T	c.(958-960)GCA>GTA	p.A320V		NM_182488	NP_872294	O75317	UBP12_HUMAN	ubiquitin thiolesterase 12	320					protein deubiquitination|ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)	1		Lung SC(185;0.0161)		all cancers(112;0.0508)|GBM - Glioblastoma multiforme(144;0.168)|Epithelial(112;0.244)|OV - Ovarian serous cystadenocarcinoma(117;0.246)		CTTAACTATTGCAATATAATG	0.274													8	42					0	0	0.008291	0	0		A	27645260	A	A	27645260	3	1	95	1	0	0	0	0	1	0	0	0	17069	1319	46	2	161	2	USP12	13	27645260	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	7646153	27645260	87524618	101	61364											
LCP1	3936	broad.mit.edu	37	chr13	46725141	46725141	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtaattagcccacctcAgcaagagctcttcaggggag	10	8	13	10	0	3	1	2	0	1	1	3	2	3	2	2	4	3	3	2	4	3	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr13:46725141A>T	uc001vaz.3	-	8	938	c.812T>A	c.(811-813)CTG>CAG	p.L271Q	LCP1_uc001vba.3_Missense_Mutation_p.L271Q	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	271	CH 2.|Actin-binding 1.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		AGCCCACCTCAGCAAGAGCTC	0.453			T	BCL6	NHL 								22	73					0	0	0.012319	0	0		T	46725141	T	T	46725141	3	4	95	1	0	0	0	0	1	0	0	0	8707	188	7	5	1107	5	LCP1	13	46725141	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	19079881	46725141	68444737	102	61365											
PTGDR	5729	broad.mit.edu	37	chr14	52735280	52735280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgagccgcgcgcggacGggagggaagcgtcccctcag	6	3	18	14	7	1	0	1	0	0	0	2	4	2	3	4	3	3	0	4	3	1	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr14:52735280G>A	uc001wzq.2	+	1	850	c.748G>A	c.(748-750)GGG>AGG	p.G250R		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	250	Cytoplasmic (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	GCGCGCGGACGGGAGGGAAGC	0.667													21	93					0	0	0.014323	0	0		A	52735280	A	A	52735280	3	1	95	1	0	0	0	0	1	0	0	0	12763	1116	39	1	750	1	PTGDR	14	52735280	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08		52735280	54614260	103	61366											
SLC24A4	123041	broad.mit.edu	37	chr14	92949082	92949082	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccctcatcttcctcctgtgCgtcaccattcccaactgcag	6	11	5	19	1	3	0	2	0	1	0	6	0	6	0	6	0	3	1	6	0	1	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr14:92949082C>T	uc001yak.2	+	13	1287	c.1263C>T	c.(1261-1263)TGC>TGT	p.C421C	SLC24A4_uc001yai.2_Silent_p.C374C|SLC24A4_uc010twm.1_Silent_p.C419C|SLC24A4_uc001yaj.2_Silent_p.C402C|SLC24A4_uc010auj.2_Silent_p.C310C|SLC24A4_uc010twn.1_Silent_p.C194C|SLC24A4_uc001yan.2_Silent_p.C132C	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	438	Helical; (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		TCCTCCTGTGCGTCACCATTC	0.582													21	94					0	0	0.003954	0	0		T	92949082	T	T	92949082	2	4	95	1	0	0	0	0	0	0	0	1	14493	776	27	1		1	SLC24A4	14	92949082	Silent	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	40213802	92949082	14400458	104	61367											
C14orf68	283600	broad.mit.edu	37	chr14	100793683	100793683	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggccgacatcacgctctcGggatgcgcctccggcctcgt	6	7	12	16	6	2	0	1	0	1	0	5	2	3	1	4	3	1	1	4	3	1	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr14:100793683G>A	uc001yhc.2	+	4	376	c.303G>A	c.(301-303)TCG>TCA	p.S101S	C14orf68_uc001yhd.2_5'UTR	NM_207117	NP_997000	Q6Q0C1	S2547_HUMAN	chromosome 14 open reading frame 68	101	Solcar 2.|Helical; Name=3; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0		Melanoma(154;0.152)				TCACGCTCTCGGGATGCGCCT	0.667													8	52					0	0	0.008291	0	0		A	100793683	A	A	100793683	2	1	95	1	0	0	0	0	0	0	0	1	1781	1103	39	1		1	C14orf68	14	100793683	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	7844601	100793683	6555857	105	61368											
ADAMTS7	11173	broad.mit.edu	37	chr15	79080681	79080681	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtttcccaacgggctcaCagtcattgccgcttccgtca	6	11	9	15	4	3	0	3	0	0	0	6	0	5	0	3	1	2	3	3	1	1	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr15:79080681C>G	uc002bej.3	-	8	1425	c.1214G>C	c.(1213-1215)TGT>TCT	p.C405S	ADAMTS7_uc010und.1_Intron|ADAMTS7_uc002bek.1_Missense_Mutation_p.C405S	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	405	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						AACGGGCTCACAGTCATTGCC	0.637													20	114					0	0	0.012319	0	0		G	79080681	G	G	79080681	3	3	95	1	0	0	0	0	1	0	0	0	271	478	17	5	3914	5	ADAMTS7	15	79080681	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08		79080681	23450711	106	61369											
ADAMTS7	11173	broad.mit.edu	37	chr15	79083543	79083543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggatggggttcccaatgctgGggtcatgaaacaggccagcc	9	7	15	10	0	1	1	1	1	0	0	2	2	2	2	3	6	3	2	3	6	2	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr15:79083543G>A	uc002bej.3	-	5	1053	c.842C>T	c.(841-843)CCC>CTC	p.P281L	ADAMTS7_uc010und.1_Missense_Mutation_p.P281L|ADAMTS7_uc002bek.1_Missense_Mutation_p.P281L	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	281	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						CCCAATGCTGGGGTCATGAAA	0.602													7	30					0	0	0.001984	0	0		A	79083543	A	A	79083543	3	1	95	1	0	0	0	0	1	0	0	0	271	1232	43	4	4298	4	ADAMTS7	15	79083543	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	2862	79083543	23447849	107	61370											
IDH2	3418	broad.mit.edu	37	chr15	90628287	90628287	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgctccaggccacgtgtcCaggcaaagatgctggcgatg	8	7	15	11	2	0	1	0	0	0	1	2	2	2	1	3	4	2	3	3	4	1	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr15:90628287C>T	uc002box.2	-	9	1210	c.1124G>A	c.(1123-1125)TGG>TAG	p.W375*	IDH2_uc010uqb.1_Nonsense_Mutation_p.W323*|IDH2_uc010uqc.1_Nonsense_Mutation_p.W245*|IDH2_uc010bnu.2_Nonsense_Mutation_p.W266*	NM_002168	NP_002159	P48735	IDHP_HUMAN	isocitrate dehydrogenase 2 (NADP+),	375					2-oxoglutarate metabolic process|glyoxylate cycle|isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding			haematopoietic_and_lymphoid_tissue(621)|central_nervous_system(80)|bone(7)|skin(3)	711	Melanoma(11;0.00551)|Lung NSC(78;0.0196)|all_lung(78;0.04)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.106)			GCCACGTGTCCAGGCAAAGAT	0.667			M		GBM								15	100					0	0	0.00499	0	0		T	90628287	T	T	90628287	4	4	95	1	0	0	0	0	0	1	0	0	7511	595	21	4	246	4	IDH2	15	90628287	Nonsense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	11544744	90628287	11903105	108	61371											
C16orf42	115939	broad.mit.edu	37	chr16	1400843	1400843	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagcaaacgcttccacgCaggaaagtctgtagggccgg	10	6	14	11	3	1	0	0	0	1	0	2	1	2	1	2	4	2	5	2	4	3	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr16:1400843C>G	uc002cll.2	-	3	559	c.491G>C	c.(490-492)TGC>TCC	p.C164S	GNPTG_uc002clm.2_5'Flank	NM_001001410	NP_001001410	Q9UJK0	TSR3_HUMAN	hypothetical protein LOC115939	164					rRNA processing						0		Hepatocellular(780;0.0893)				CGCTTCCACGCAGGAAAGTCT	0.627													9	51					0	0	0.008291	0	0		G	1400843	G	G	1400843	3	3	95	1	0	0	0	0	1	0	0	0	1816	710	25	5	463	5	C16orf42	16	1400843	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08		1400843	88953910	109	61372											
RUNDC2A	84127	broad.mit.edu	37	chr16	12142284	12142284	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacaaggatttgaacgggcaGagtaagtttgctcccaccgt	12	9	11	9	2	0	2	0	1	0	1	1	3	1	3	2	2	3	4	2	2	4	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr16:12142284G>C	uc002dbw.1	+	7	617	c.555G>C	c.(553-555)CAG>CAC	p.Q185H		NM_032167	NP_115543	Q9HA26	RUN2A_HUMAN	RUN domain containing 2A	185										ovary(1)	1						TGAACGGGCAGAGTAAGTTTG	0.498			T	CIITA	PMBL|Hodgkin Lymphona|								23	146					0	0	0.00333	0	0		C	12142284	C	C	12142284	3	2	95	1	0	0	0	0	1	0	0	0	13768	933	33	5	581	5	RUNDC2A	16	12142284	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	10741441	12142284	78212469	110	61373											
KIF22	3835	broad.mit.edu	37	chr16	29810320	29810320	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagacctcctggaccctgctTcgggagacctggtaatccga	8	9	11	13	2	0	2	0	0	0	2	3	5	2	3	5	3	1	2	5	3	2	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr16:29810320T>A	uc002dts.3	+	5	598	c.574T>A	c.(574-576)TCG>ACG	p.S192T	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|KIF22_uc010vdv.1_Missense_Mutation_p.S124T|KIF22_uc010vdw.1_Missense_Mutation_p.S124T|KIF22_uc010bzf.2_Missense_Mutation_p.S124T	NM_007317	NP_015556	Q14807	KIF22_HUMAN	kinesin family member 22	192	Kinesin-motor.				blood coagulation|DNA repair|microtubule-based movement|mitosis	cytosol|kinetochore|microtubule|nucleus	ATP binding|DNA binding|microtubule motor activity|protein binding				0						GGACCCTGCTTCGGGAGACCT	0.522													19	127					0	0	0.014323	0	0		A	29810320	A	A	29810320	3	1	95	1	0	0	0	0	1	0	0	0	8306	1783	62	5	592	5	KIF22	16	29810320	Missense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	17668036	29810320	60544433	111	61374											
HSD3B7	80270	broad.mit.edu	37	chr16	30997777	30997777	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatcgaggcttgtgtgcagaCcggaacacggttcctggtct	7	10	14	10	3	1	1	0	0	1	1	3	4	2	2	2	4	2	3	2	4	1	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr16:30997777C>A	uc002eaf.2	+	4	462	c.356C>A	c.(355-357)ACC>AAC	p.T119N	HSD3B7_uc010cac.2_Missense_Mutation_p.T119N|HSD3B7_uc002eag.2_Missense_Mutation_p.T119N|HSD3B7_uc002eah.2_Missense_Mutation_p.T119N	NM_025193	NP_079469	Q9H2F3	3BHS7_HUMAN	hydroxy-delta-5-steroid dehydrogenase, 3 beta-	119					bile acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|cholest-5-ene-3-beta,7-alpha-diol 3-beta-dehydrogenase activity				0						TGTGTGCAGACCGGAACACGG	0.587													14	40					4.75885e-15	5.66818e-15	0.00499	1	0		A	30997777	A	A	30997777	3	1	95	1	0	0	0	0	1	0	0	0	7408	507	18	5	366	5	HSD3B7	16	30997777	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	1187457	30997777	59356976	112	61375											
IRX3	79191	broad.mit.edu	37	chr16	54318990	54318990	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgccccagccagggacAgctcaggctcggtggccgcg	5	3	16	17	5	1	0	1	0	0	0	2	1	1	1	5	4	2	2	5	4	0	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr16:54318990A>G	uc002eht.1	-	2	1219	c.803T>C	c.(802-804)CTG>CCG	p.L268P		NM_024336	NP_077312	P78415	IRX3_HUMAN	iroquois homeobox 3	268					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGCCAGGGACAGCTCAGGCTC	0.438													13	50					0	0	0.013537	0	0		G	54318990	G	G	54318990	3	3	95	1	0	0	0	0	1	0	0	0	7861	188	7	3	714	3	IRX3	16	54318990	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	23321213	54318990	36035763	113	61376											
KATNB1	10300	broad.mit.edu	37	chr16	57787375	57787375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgagcgcgagtcccgcgCggagatccagaacgccgagg	9	2	17	13	8	0	2	0	0	0	2	2	7	2	3	3	3	2	0	3	3	1	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr16:57787375C>T	uc002eml.1	+	12	1495	c.1121C>T	c.(1120-1122)GCG>GTG	p.A374V		NM_005886	NP_005877	Q9BVA0	KTNB1_HUMAN	katanin p80 subunit B 1	374	Interaction with PAFAH1B1 (By similarity).				cell division|mitosis|negative regulation of microtubule depolymerization|positive regulation of microtubule depolymerization|protein targeting	katanin complex|microtubule|spindle pole	microtubule binding|protein heterodimerization activity				0		all_neural(199;0.223)				GAGTCCCGCGCGGAGATCCAG	0.672													5	78					0	0	0.00308	0	0		T	57787375	T	T	57787375	3	4	95	1	0	0	0	0	1	0	0	0	8003	768	27	1	1163	1	KATNB1	16	57787375	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	3468385	57787375	32567378	114	61377											
CDH8	1006	broad.mit.edu	37	chr16	61687703	61687703	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcatatggcggggccgTgggatcattatctgcctcat	7	11	14	9	2	4	0	3	0	1	0	4	2	4	2	2	5	1	0	2	5	2	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr16:61687703T>A	uc002eog.1	-	12	2461	c.2209A>T	c.(2209-2211)ACG>TCG	p.T737S		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	737	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		GGCGGGGCCGTGGGATCATTA	0.498													8	53					0	0	0.00308	0	0		A	61687703	A	A	61687703	3	1	95	1	0	0	0	0	1	0	0	0	3119	1696	59	5	194	5	CDH8	16	61687703	Missense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	3900328	61687703	28667050	115	61378											
CDH11	1009	broad.mit.edu	37	chr16	65022100	65022100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcctgtgtttcatagtccGttgtgatttcaaacgattcc	7	16	7	11	2	2	1	2	1	0	0	5	2	5	1	4	0	1	2	4	0	2	5			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr16:65022100G>A	uc002eoi.2	-	7	1393	c.959C>T	c.(958-960)ACG>ATG	p.T320M	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Missense_Mutation_p.T320M|CDH11_uc010vin.1_Missense_Mutation_p.T194M	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	320	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		TTCATAGTCCGTTGTGATTTC	0.438			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			41	161					0	0	0.010771	0	0		A	65022100	A	A	65022100	3	1	95	1	0	0	0	0	1	0	0	0	3100	1145	40	1	1459	1	CDH11	16	65022100	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	3334397	65022100	25332653	116	61379											
ITGAE	3682	broad.mit.edu	37	chr17	3664729	3664729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggcctgagcctggggaCggaggtcagggcccaggagg	7	5	20	9	1	1	1	1	1	0	0	1	4	1	4	3	8	1	1	3	8	0	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr17:3664729C>T	uc002fwo.3	-	5	500	c.401G>A	c.(400-402)CGT>CAT	p.R134H		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	134	FG-GAP 2.|Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		AGCCTGGGGACGGAGGTCAGG	0.557													4	78					0	0	0.009096	0	0		T	3664729	T	T	3664729	3	4	95	1	0	0	0	0	1	0	0	0	7901	536	19	1	3246	1	ITGAE	17	3664729	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08		3664729	77530481	117	61380											
MYBBP1A	10514	broad.mit.edu	37	chr17	4455258	4455258	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgctccttggtcagcagggGcagggccgcgcccagcaggc	5	5	16	15	2	1	0	1	0	0	0	2	0	2	0	3	5	3	4	3	5	0	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr17:4455258G>C	uc002fyb.3	-	8	1002	c.940C>G	c.(940-942)CCC>GCC	p.P314A	MYBBP1A_uc002fxz.3_Missense_Mutation_p.P314A	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	314	Interaction with MYB (By similarity).				nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						GTCAGCAGGGGCAGGGCCGCG	0.637													21	95					0	0	0.003954	0	0		C	4455258	C	C	4455258	3	2	95	1	0	0	0	0	1	0	0	0	10026	1203	42	5	3162	5	MYBBP1A	17	4455258	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	790529	4455258	76739952	118	61381											
SLC13A5	284111	broad.mit.edu	37	chr17	6610071	6610071	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccaggaacagcatgttGgtgtccttcatgtactggac	8	10	11	12	1	1	0	1	0	0	0	2	2	2	2	3	3	3	3	3	3	2	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr17:6610071G>T	uc002gdj.2	-	3	346	c.258C>A	c.(256-258)ACC>ACA	p.T86T	SLC13A5_uc010vtf.1_Silent_p.T86T|SLC13A5_uc010clq.2_Silent_p.T43T|SLC13A5_uc002gdk.2_Silent_p.T86T|SLC13A5_uc002gdl.1_5'Flank	NM_177550	NP_808218	Q86YT5	S13A5_HUMAN	solute carrier family 13, member 5 isoform a	86	Helical; (Potential).					integral to membrane	citrate transmembrane transporter activity				0						ACAGCATGTTGGTGTCCTTCA	0.632													7	19					1.12685e-05	1.22512e-05	0.004482	1	0		T	6610071	T	T	6610071	2	4	95	1	0	0	0	0	0	0	0	1	14420	1335	47	5		5	SLC13A5	17	6610071	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	2154813	6610071	74585139	119	61382											
TP53	7157	broad.mit.edu	37	chr17	7578406	7578406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgctcatggtgggggcagCgcctcacaacctccgtcatg	7	7	13	14	3	3	0	3	0	0	0	4	0	4	0	3	3	3	2	3	3	1	0	rs28934578		TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr17:7578406C>T	uc002gim.2	-	5	718	c.524G>A	c.(523-525)CGC>CAC	p.R175H	TP53_uc002gig.1_Missense_Mutation_p.R175H|TP53_uc002gih.2_Missense_Mutation_p.R175H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R43H|TP53_uc010cng.1_Missense_Mutation_p.R43H|TP53_uc002gii.1_Missense_Mutation_p.R43H|TP53_uc010cnh.1_Missense_Mutation_p.R175H|TP53_uc010cni.1_Missense_Mutation_p.R175H|TP53_uc002gij.2_Missense_Mutation_p.R175H|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R82H|TP53_uc002gio.2_Missense_Mutation_p.R43H|TP53_uc010vug.1_Missense_Mutation_p.R136H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	175	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R175H(729)|p.R175L(19)|p.R175C(12)|p.R175G(11)|p.0?(7)|p.R175P(5)|p.R175S(5)|p.R43H(5)|p.R82H(5)|p.R175R(4)|p.R174fs*24(3)|p.R175_E180delRCPHHE(3)|p.R175fs*5(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V173fs*69(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R174_H178>S(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R175fs*6(1)|p.R42fs*24(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R175fs*72(1)|p.R174fs*70(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.R174fs*3(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GTGGGGGCAGCGCCTCACAAC	0.652	R175H(KMS26_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R175H(HCC1395_BREAST)|R175H(KLE_ENDOMETRIUM)|R175H(NCIH196_LUNG)|R175H(AU565_BREAST)|R175H(TYKNU_OVARY)|R175H(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|R175H(SKUT1_SOFT_TISSUE)|R175H(CAL33_UPPER_AERODIGESTIVE_TRACT)|R175H(LS123_LARGE_INTESTINE)|R175H(SKBR3_BREAST)|R175H(RKN_OVARY)|R175H(HUCCT1_BILIARY_TRACT)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	42					0	0	0.012319	0	0		T	7578406	T	T	7578406	3	4	95	1	0	0	0	0	1	0	0	0	16407	768	27	1	774	1	TP53	17	7578406	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	968335	7578406	73616804	120	61383											
ELAC2	60528	broad.mit.edu	37	chr17	12921103	12921103	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcaggtacacggtgtttggGccgccggagcaccccgacgg	6	6	16	13	5	0	0	0	0	0	0	0	2	0	1	4	5	3	4	4	5	1	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr17:12921103G>C	uc002gnz.3	-	1	257	c.162C>G	c.(160-162)GGC>GGG	p.G54G	ELAC2_uc010vvp.1_Silent_p.G54G|ELAC2_uc010vvq.1_Silent_p.G54G|ELAC2_uc010vvr.1_Silent_p.G54G	NM_018127	NP_060597	Q9BQ52	RNZ2_HUMAN	elaC homolog 2 isoform 1	54					tRNA processing	nucleus	endonuclease activity|metal ion binding|protein binding				0						CGGTGTTTGGGCCGCCGGAGC	0.716									Hereditary_Prostate_Cancer				3	10					0	0	0.004672	0	0		C	12921103	C	C	12921103	2	2	95	1	0	0	0	0	0	0	0	1	5055	1190	42	5		5	ELAC2	17	12921103	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	5342697	12921103	68274107	121	61384											
PHF12	57649	broad.mit.edu	37	chr17	27237335	27237335	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggaaaagctgatgtattctCtgcaaggccagaaacttgat	13	10	11	7	0	1	3	0	2	1	1	2	4	1	4	1	2	3	3	1	2	5	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr17:27237335C>T	uc002hdg.1	-	11	2798	c.2268G>A	c.(2266-2268)CAG>CAA	p.Q756Q	PHF12_uc010wbb.1_Silent_p.Q738Q|PHF12_uc002hdi.1_Silent_p.Q752Q|PHF12_uc002hdh.1_Silent_p.Q539Q	NM_001033561	NP_001028733	Q96QT6	PHF12_HUMAN	PHD finger protein 12 isoform 1	756					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	protein binding|zinc ion binding			ovary(1)	1	all_cancers(5;1.95e-14)|all_epithelial(6;5e-18)|Lung NSC(42;0.01)		Epithelial(11;1.64e-05)|all cancers(11;7.47e-05)|BRCA - Breast invasive adenocarcinoma(11;9.79e-05)			GATGTATTCTCTGCAAGGCCA	0.498													22	62					0	0	0.014323	0	0		T	27237335	T	T	27237335	2	4	95	1	0	0	0	0	0	0	0	1	11842	912	32	4		4	PHF12	17	27237335	Silent	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	14316232	27237335	53957875	122	61385											
HNF1B	6928	broad.mit.edu	37	chr17	36093716	36093716	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcggactgcccaggccCatggctctgttgactgaact	8	10	10	13	1	2	2	1	2	1	0	3	3	2	3	2	3	2	2	2	3	1	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr17:36093716C>G	uc002hok.3	-	3	864	c.643G>C	c.(643-645)GGG>CGG	p.G215R	HNF1B_uc010wdi.1_Missense_Mutation_p.G189R|HNF1B_uc010cve.1_Missense_Mutation_p.G23R	NM_000458	NP_000449	P35680	HNF1B_HUMAN	hepatocyte nuclear factor 1-beta isoform 1	215					endocrine pancreas development|genitalia development|kidney development|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric nephron tubule development|regulation of pronephros size	nucleus	DNA binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			TGCCCAGGCCCATGGCTCTGT	0.527									Hereditary_Prostate_Cancer				9	53					0	0	0.006214	0	0		G	36093716	G	G	36093716	3	3	95	1	0	0	0	0	1	0	0	0	7268	594	21	5	1058	5	HNF1B	17	36093716	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	8856381	36093716	45101494	123	61386											
KRT25	147183	broad.mit.edu	37	chr17	38910169	38910169	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagggtttcatactgaatCtccagatctgttctgcacag	9	13	8	11	0	5	2	2	1	3	1	6	2	5	2	1	1	2	3	1	1	2	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr17:38910169C>A	uc002hve.2	-	3	673	c.612G>T	c.(610-612)GAG>GAT	p.E204D		NM_181534	NP_853512	Q7Z3Z0	K1C25_HUMAN	keratin 25	204	Rod.|Coil 1B.					cytoplasm|intermediate filament	structural molecule activity			ovary(2)	2		Breast(137;0.00526)				CATACTGAATCTCCAGATCTG	0.448													17	92					2.35188e-11	2.73169e-11	0.006122	1	0		A	38910169	A	A	38910169	3	1	95	1	0	0	0	0	1	0	0	0	8478	912	32	5	764	5	KRT25	17	38910169	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	2816453	38910169	42285041	124	61387											
MAP2K7	5609	broad.mit.edu	37	chr19	7975604	7975604	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgtcttcatcgccatggaGctcatgggcacctgcgctga	7	9	12	13	3	3	1	2	1	1	0	4	3	3	2	2	2	2	3	2	2	0	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:7975604G>T	uc002mit.2	+	6	656	c.591G>T	c.(589-591)GAG>GAT	p.E197D	MAP2K7_uc002miv.2_Missense_Mutation_p.E197D|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.E197D|MAP2K7_uc010dvv.2_Missense_Mutation_p.E72D	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	197	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	TCGCCATGGAGCTCATGGGCA	0.662													6	14					3.59834e-05	3.86718e-05	0.001168	1	0		T	7975604	T	T	7975604	3	4	95	1	0	0	0	0	1	0	0	0	9260	962	34	5	613	5	MAP2K7	19	7975604	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08		7975604	51153379	125	61388											
ZNF440	126070	broad.mit.edu	37	chr19	11942980	11942980	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttacaagttttcaaacacAcgtaagattgcactctggag	13	12	7	9	1	3	1	1	0	2	1	3	2	3	2	0	1	3	3	0	1	4	5			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:11942980A>G	uc002msp.1	+	4	1145	c.989A>G	c.(988-990)CAC>CGC	p.H330R		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	330	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTCAAACACACGTAAGATTG	0.353													10	75					0	0	0.008291	0	0		G	11942980	G	G	11942980	3	3	95	1	0	0	0	0	1	0	0	0	17938	159	6	3	1003	3	ZNF440	19	11942980	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	3967376	11942980	47186003	126	61389											
ZNF490	57474	broad.mit.edu	37	chr19	12692195	12692195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgaaaggaaaagagaaatgCgaaggctttgccacattcct	15	8	10	8	2	0	1	0	0	0	1	2	5	1	2	2	2	2	1	2	2	5	2	rs143244240	byFrequency	TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:12692195C>T	uc002mtz.2	-	5	823	c.694G>A	c.(694-696)GCA>ACA	p.A232T		NM_020714	NP_065765	Q9ULM2	ZN490_HUMAN	zinc finger protein 490	232	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAGAGAAATGCGAAGGCTTTG	0.423													16	63					0	0	0.003163	0	0		T	12692195	T	T	12692195	3	4	95	1	0	0	0	0	1	0	0	0	17966	768	27	1	899	1	ZNF490	19	12692195	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	749215	12692195	46436788	127	61390											
PGLS	25796	broad.mit.edu	37	chr19	17631842	17631842	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctggttcttggacgaggcGgccgcccgcctcctgaccgt	3	9	14	15	5	1	1	0	1	1	0	2	3	2	2	5	4	1	2	5	4	0	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:17631842G>A	uc002ngw.2	+	5	779	c.729G>A	c.(727-729)GCG>GCA	p.A243A	FAM129C_uc010xpq.1_5'Flank|FAM129C_uc010xpr.1_5'Flank	NM_012088	NP_036220	O95336	6PGL_HUMAN	6-phosphogluconolactonase	243						cytosol	6-phosphogluconolactonase activity				0						TGGACGAGGCGGCCGCCCGCC	0.667													3	14					0	0	0.009096	0	0		A	17631842	A	A	17631842	2	1	95	1	0	0	0	0	0	0	0	1	11811	1103	39	1		1	PGLS	19	17631842	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	4939647	17631842	41497141	128	61391											
TSSK6	83983	broad.mit.edu	37	chr19	19626080	19626080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcggcaggaacttgttgaCgaagtccgggggcgctcgcc	6	7	16	12	6	0	1	0	1	0	0	3	3	1	2	2	4	1	3	2	4	2	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:19626080C>T	uc002nmr.2	-	1	390	c.157G>A	c.(157-159)GTC>ATC	p.V53I	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	53	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						AACTTGTTGACGAAGTCCGGG	0.617													9	53					0	0	0.008291	0	0		T	19626080	T	T	19626080	3	4	95	1	0	0	0	0	1	0	0	0	16698	536	19	1	668	1	TSSK6	19	19626080	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	1994238	19626080	39502903	129	61392											
PSENEN	55851	broad.mit.edu	37	chr19	36237375	36237375	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatcttctggttcttccgAgaggccttccttgtcccagc	6	13	8	14	1	3	1	0	0	3	1	6	2	6	1	4	2	2	1	4	2	1	5			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:36237375A>T	uc002obi.1	+	3	321	c.117A>T	c.(115-117)CGA>CGT	p.R39R	TMEM149_uc010eej.2_5'Flank|U2AF1L4_uc002obh.1_5'Flank|U2AF1L4_uc002obe.2_5'Flank|U2AF1L4_uc002obf.2_5'Flank|U2AF1L4_uc002obg.2_5'Flank|PSENEN_uc002obj.1_Silent_p.R39R|PSENEN_uc002obk.1_RNA|LIN37_uc002obm.2_5'Flank	NM_172341	NP_758844	Q9NZ42	PEN2_HUMAN	presenilin enhancer 2	39	Cytoplasmic (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to plasma membrane	aspartic-type endopeptidase activity|protein binding			ovary(2)	2	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGTTCTTCCGAGAGGCCTTCC	0.512													20	91					0	0	0.012319	0	0		T	36237375	T	T	36237375	2	4	95	1	0	0	0	0	0	0	0	1	12674	291	11	5		5	PSENEN	19	36237375	Silent	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	16611295	36237375	22891608	130	61393											
WDR62	284403	broad.mit.edu	37	chr19	36582142	36582142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccttcctggccaccagctGctctgacaaaagcatctcag	10	8	7	16	0	2	1	1	1	2	0	4	1	3	1	4	1	3	3	4	1	2	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:36582142G>A	uc002odc.2	+	17	2166	c.2075G>A	c.(2074-2076)TGC>TAC	p.C692Y	WDR62_uc002odd.2_Missense_Mutation_p.C692Y	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	692	WD 11.				cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GCCACCAGCTGCTCTGACAAA	0.557													12	45					0	0	0.00245	0	0		A	36582142	A	A	36582142	3	1	95	1	0	0	0	0	1	0	0	0	17339	1319	46	2	2141	2	WDR62	19	36582142	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	344767	36582142	22546841	131	61394											
DMPK	1760	broad.mit.edu	37	chr19	46281065	46281065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcctgtcccaggcccacCgcccacagcctgcaggatct	6	6	10	19	1	1	0	0	0	1	0	2	1	2	1	6	2	3	2	6	2	0	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:46281065C>T	uc002pdd.1	-	6	1316	c.772G>A	c.(772-774)GGT>AGT	p.G258S	DMPK_uc010xxs.1_Missense_Mutation_p.G159S|DMPK_uc002pde.1_Missense_Mutation_p.G258S|DMPK_uc002pdf.1_Missense_Mutation_p.G248S|DMPK_uc002pdg.1_Missense_Mutation_p.G248S|DMPK_uc002pdh.1_Missense_Mutation_p.G248S|DMPK_uc002pdi.1_Missense_Mutation_p.G274S|DMPK_uc010xxt.1_Missense_Mutation_p.G248S	NM_001081563	NP_001075032	Q09013	DMPK_HUMAN	myotonic dystrophy protein kinase isoform 1	258	Protein kinase.				regulation of heart contraction		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)	3		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00616)|GBM - Glioblastoma multiforme(486;0.0825)|Epithelial(262;0.24)		CCAGGCCCACCGCCCACAGCC	0.652													5	119					0	0	0.000602	0	0		T	46281065	T	T	46281065	3	4	95	1	0	0	0	0	1	0	0	0	4590	652	23	1	1190	1	DMPK	19	46281065	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	9698923	46281065	12847918	132	61395											
DHX34	9704	broad.mit.edu	37	chr19	47856911	47856911	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcttcagtcatgtggcGtgcacccagccccggcggat	5	8	14	14	3	2	0	2	0	0	0	2	1	2	1	3	4	2	3	3	4	0	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:47856911G>A	uc010xyn.1	+	2	965	c.624G>A	c.(622-624)GCG>GCA	p.A208A	DHX34_uc010elc.1_Silent_p.A208A	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	208	Helicase ATP-binding.					intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		GTCATGTGGCGTGCACCCAGC	0.637													6	12					0	0	0.001168	0	0		A	47856911	A	A	47856911	2	1	95	1	0	0	0	0	0	0	0	1	4513	1132	40	1		1	DHX34	19	47856911	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	1575846	47856911	11272072	133	61396											
SCAF1	58506	broad.mit.edu	37	chr19	50149403	50149403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcgatggcggcgctgcCggagtccacggtcagagccc	5	6	15	15	5	1	1	1	0	0	1	3	3	2	2	4	4	2	1	4	4	0	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:50149403C>T	uc002poq.2	+	4	329	c.205C>T	c.(205-207)CGG>TGG	p.R69W		NM_021228	NP_067051	Q9H7N4	SFR19_HUMAN	SR-related CTD-associated factor 1	69					mRNA processing|RNA splicing	nucleus	RNA binding				0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00113)|GBM - Glioblastoma multiforme(134;0.0204)		GCGGCGCTGCCGGAGTCCACG	0.498													11	25					0	0	0.001855	0	0		T	50149403	T	T	50149403	3	4	95	1	0	0	0	0	1	0	0	0	13893	643	23	1	215	1	SCAF1	19	50149403	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	2292492	50149403	8979580	134	61397											
KLK8	11202	broad.mit.edu	37	chr19	51499377	51499377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcagatgttggtatagaCgccaggtttgtcggacctcc	7	10	14	10	3	0	2	0	0	0	2	2	3	1	3	3	4	0	4	3	4	2	4	rs56296296	byFrequency	TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:51499377C>T	uc002pur.1	-	6	900	c.721G>A	c.(721-723)GTC>ATC	p.V241I	KLK8_uc002puq.1_Missense_Mutation_p.V286I|KLK8_uc002pus.1_Missense_Mutation_p.V100I|KLK8_uc002put.1_3'UTR|KLK8_uc002puu.1_Missense_Mutation_p.V241I|KLK9_uc002puv.1_RNA	NM_007196	NP_009127	O60259	KLK8_HUMAN	kallikrein 8 isoform 1 preproprotein	241	Peptidase S1.				cell death|keratinocyte proliferation|memory|negative regulation of axon regeneration|negative regulation of myelination|neuron projection morphogenesis|proteolysis|regulation of synapse organization|response to wounding	cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(1)	1		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.0033)|GBM - Glioblastoma multiforme(134;0.00888)		TTGGTATAGACGCCAGGTTTG	0.542													27	122					0	0	0.004656	0	0		T	51499377	T	T	51499377	3	4	95	1	0	0	0	0	1	0	0	0	8426	536	19	1	65	1	KLK8	19	51499377	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	1349974	51499377	7629606	135	61398											
ZNF83	55769	broad.mit.edu	37	chr19	53116897	53116897	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccagtatgaattctccaGtgatttactagggatgactt	10	15	8	8	0	2	3	0	3	2	0	4	4	2	4	2	1	1	1	2	1	4	6			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:53116897G>A	uc002pzu.3	-	2	2165	c.921C>T	c.(919-921)CAC>CAT	p.H307H	ZNF83_uc002pzv.3_Silent_p.H307H|ZNF83_uc010eps.2_Silent_p.H279H|ZNF83_uc010ept.2_Silent_p.H307H|ZNF83_uc010epu.2_Silent_p.H307H|ZNF83_uc010epv.2_Silent_p.H307H|ZNF83_uc010epw.2_Silent_p.H307H|ZNF83_uc010epx.2_Silent_p.H279H|ZNF83_uc010epy.2_Silent_p.H307H|ZNF83_uc010epz.2_Silent_p.H279H	NM_018300	NP_060770	P51522	ZNF83_HUMAN	zinc finger protein 83 isoform a	307	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00841)|GBM - Glioblastoma multiforme(134;0.0244)		GAATTCTCCAGTGATTTACTA	0.428													6	100					0	0	0.001168	0	0		A	53116897	A	A	53116897	2	1	95	1	0	0	0	0	0	0	0	1	18208	1020	36	4		4	ZNF83	19	53116897	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	1617520	53116897	6012086	136	61399											
ZNF600	162966	broad.mit.edu	37	chr19	53270700	53270700	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgattaccaattttacctttGatctgaattatgtggagttc	10	18	7	6	0	1	3	0	3	1	0	2	4	1	4	2	1	2	1	2	1	5	6			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr19:53270700G>A	uc002qab.3	-	3	595	c.309C>T	c.(307-309)ATC>ATT	p.I103I		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	103					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		TTTTACCTTTGATCTGAATTA	0.403													27	140					0	0	0.007291	0	0		A	53270700	A	A	53270700	2	1	95	1	0	0	0	0	0	0	0	1	18055	1280	45	4		4	ZNF600	19	53270700	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	153803	53270700	5858283	137	61400											
GPCPD1	56261	broad.mit.edu	37	chr20	5579448	5579448	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaagcatcacagcttccAcatatcgcaaaaacttctcc	14	8	3	16	1	2	0	1	0	1	0	5	0	3	0	3	0	3	3	3	0	4	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr20:5579448A>T	uc002wme.3	-	3	282	c.69T>A	c.(67-69)TGT>TGA	p.C23*		NM_019593	NP_062539	Q9NPB8	GPCP1_HUMAN	hypothetical protein LOC56261	23	CBM20.				glycerol metabolic process|lipid metabolic process		carbohydrate binding|glycerophosphodiester phosphodiesterase activity				0						CACAGCTTCCACATATCGCAA	0.418													3	23					0	0	0.000602	0	0		T	5579448	T	T	5579448	4	4	95	1	0	0	0	0	0	1	0	0	6618	157	6	5	2021	5	GPCPD1	20	5579448	Nonsense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08		5579448	57446072	138	61401											
NINL	22981	broad.mit.edu	37	chr20	25434228	25434228	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctctcaccaggtgggcgttCtccacgtacagctccttcag	6	10	10	15	2	3	0	2	0	2	0	6	0	4	0	3	2	2	4	3	2	1	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr20:25434228C>G	uc002wux.1	-	24	4082	c.4008G>C	c.(4006-4008)GAG>GAC	p.E1336D	NINL_uc010gdn.1_Missense_Mutation_p.E987D|NINL_uc002wuw.1_Missense_Mutation_p.E127D	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1336	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						GGTGGGCGTTCTCCACGTACA	0.562													9	77					0	0	0.008291	0	0		G	25434228	G	G	25434228	3	3	95	1	0	0	0	0	1	0	0	0	10439	912	32	5	144	5	NINL	20	25434228	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	19854780	25434228	37591292	139	61402											
PTPRT	11122	broad.mit.edu	37	chr20	41306531	41306531	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacttggtcctggtggtgagGggaggccctggcggtcccgt	3	9	18	11	2	0	1	0	1	0	0	2	2	2	2	3	8	0	0	3	8	0	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr20:41306531G>A	uc002xkg.2	-	7	1312	c.1128C>T	c.(1126-1128)CCC>CCT	p.P376P	PTPRT_uc010ggj.2_Silent_p.P376P	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	376	Extracellular (Potential).|Fibronectin type-III 1.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TGGTGGTGAGGGGAGGCCCTG	0.547													10	94					0	0	0.010729	0	0		A	41306531	A	A	41306531	2	1	95	1	0	0	0	0	0	0	0	1	12837	1219	43	4		4	PTPRT	20	41306531	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	15872303	41306531	21718989	140	61403											
TOMM34	10953	broad.mit.edu	37	chr20	43580479	43580479	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagtcacagctcacctctgTtctttgtagctgtggtttct	5	16	10	10	0	5	0	2	0	3	0	5	1	5	1	1	2	2	5	1	2	1	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr20:43580479T>C	uc002xmy.2	-	4	685	c.545A>G	c.(544-546)AAC>AGC	p.N182S	PABPC1L_uc002xmx.2_Intron|TOMM34_uc002xmz.2_RNA	NM_006809	NP_006800	Q15785	TOM34_HUMAN	translocase of outer mitochondrial membrane 34	182					protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane	heat shock protein binding|signal sequence binding				0		Myeloproliferative disorder(115;0.0122)				CTCACCTCTGTTCTTTGTAGC	0.448													13	74					0	0	0.001855	0	0		C	43580479	C	C	43580479	3	2	95	1	0	0	0	0	1	0	0	0	16382	1725	60	3	400	3	TOMM34	20	43580479	Missense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	2273948	43580479	19445041	141	61404											
YTHDF1	54915	broad.mit.edu	37	chr20	61834049	61834049	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcgcttgttgccgtgctCtgtgctacaccagatggagt	6	11	13	11	2	1	1	0	0	1	1	1	2	1	2	2	2	4	4	2	2	1	3			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr20:61834049C>A	uc002yeh.2	-	4	1537	c.1243G>T	c.(1243-1245)GAG>TAG	p.E415*	YTHDF1_uc011aaq.1_Nonsense_Mutation_p.E365*	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	415	YTH.									ovary(2)	2						TTGCCGTGCTCTGTGCTACAC	0.552													19	107					3.32936e-07	3.72808e-07	0.006122	1	0		A	61834049	A	A	61834049	4	1	95	1	0	0	0	0	0	1	0	0	17524	922	32	5	444	5	YTHDF1	20	61834049	Nonsense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	18253570	61834049	1191471	142	61405											
KCNQ2	3785	broad.mit.edu	37	chr20	62044926	62044926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcttggacaccaggaacCgcatgacactgcaggggggt	9	6	14	12	2	0	1	0	1	0	0	1	3	1	3	3	5	2	3	3	5	1	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr20:62044926C>T	uc002yey.1	-	15	1817	c.1640G>A	c.(1639-1641)CGG>CAG	p.R547Q	KCNQ2_uc002yez.1_Missense_Mutation_p.R516Q|KCNQ2_uc002yfa.1_Missense_Mutation_p.R529Q|KCNQ2_uc002yfb.1_Missense_Mutation_p.R519Q	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	547	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	CACCAGGAACCGCATGACACT	0.657													18	140					0	0	0.008871	0	0		T	62044926	T	T	62044926	3	4	95	1	0	0	0	0	1	0	0	0	8099	652	23	1	990	1	KCNQ2	20	62044926	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	210877	62044926	980594	143	61406											
SRMS	6725	broad.mit.edu	37	chr20	62172223	62172223	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tctcccgcagcgtggcgaagGagggccgttcctcggggctg	4	7	17	13	5	1	0	0	0	1	0	4	2	2	1	3	5	1	3	3	5	1	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr20:62172223G>C	uc002yfi.1	-	8	1456	c.1415C>G	c.(1414-1416)TCC>TGC	p.S472C		NM_080823	NP_543013	Q9H3Y6	SRMS_HUMAN	src-related kinase lacking C-terminal regulatory	472	Protein kinase.						ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|lung(1)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;9.69e-09)|all cancers(9;5.84e-08)|BRCA - Breast invasive adenocarcinoma(10;3.63e-06)			CGTGGCGAAGGAGGGCCGTTC	0.697													20	117					0	0	0.012319	0	0		C	62172223	C	C	62172223	3	2	95	1	0	0	0	0	1	0	0	0	15177	1174	41	5	55	5	SRMS	20	62172223	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	127297	62172223	853297	144	61407											
TUBA8	51807	broad.mit.edu	37	chr22	18609664	18609664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccagatggtgaagtgcgacCcgagacatggcaagtacatg	12	6	14	9	2	0	3	0	1	0	2	0	5	0	3	2	2	2	2	2	2	3	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr22:18609664C>T	uc002znv.1	+	4	992	c.919C>T	c.(919-921)CCG>TCG	p.P307S	TUBA8_uc002znr.2_Missense_Mutation_p.P241S|TUBA8_uc002znw.1_Missense_Mutation_p.P331S|TUBA8_uc002znx.1_Missense_Mutation_p.P154S	NM_018943	NP_061816	Q9NY65	TBA8_HUMAN	tubulin, alpha 8	307					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0						GAAGTGCGACCCGAGACATGG	0.567													25	105					0	0	0.004656	0	0		T	18609664	T	T	18609664	3	4	95	1	0	0	0	0	1	0	0	0	16776	623	22	4	933	4	TUBA8	22	18609664	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08		18609664	32694902	145	61408											
MYO18B	84700	broad.mit.edu	37	chr22	26422472	26422472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattggcactgagcagagccCggtccaccaatgtccacagc	10	6	10	15	1	0	2	0	1	0	1	2	2	2	2	4	2	3	2	4	2	1	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr22:26422472C>T	uc003abz.1	+	43	6782	c.6532C>T	c.(6532-6534)CGG>TGG	p.R2178W	MYO18B_uc003aca.1_Missense_Mutation_p.R2059W|MYO18B_uc010guy.1_Missense_Mutation_p.R2060W|MYO18B_uc010guz.1_Missense_Mutation_p.R2058W|MYO18B_uc011aka.1_Missense_Mutation_p.R1332W|MYO18B_uc011akb.1_Missense_Mutation_p.R1691W|MYO18B_uc010gva.1_Missense_Mutation_p.R161W|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2178						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GAGCAGAGCCCGGTCCACCAA	0.537													23	136					0	0	0.014323	0	0		T	26422472	T	T	26422472	3	4	95	1	0	0	0	0	1	0	0	0	10084	643	23	1	6698	1	MYO18B	22	26422472	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	7812808	26422472	24882094	146	61409											
TCN2	6948	broad.mit.edu	37	chr22	31009006	31009006	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacagctcaaatggttccTggaggatgagaagagagcca	13	7	12	9	0	2	2	2	1	0	2	3	6	3	4	2	3	2	2	2	3	2	1			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr22:31009006T>G	uc003aip.1	+	3	562	c.404T>G	c.(403-405)CTG>CGG	p.L135R	TCN2_uc003aiq.1_Missense_Mutation_p.L131R|TCN2_uc003air.1_Intron	NM_000355	NP_000346	P20062	TCO2_HUMAN	transcobalamin II precursor	135					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular space	cobalamin binding			central_nervous_system(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AAATGGTTCCTGGAGGATGAG	0.572													4	39					0	0	0.000602	0	0		G	31009006	G	G	31009006	3	3	95	1	0	0	0	0	1	0	0	0	15732	1580	55	5	414	5	TCN2	22	31009006	Missense_Mutation	SNP	T	TCGA-BR-A4IY-01A-11D-A25D-08	4586534	31009006	20295560	147	61410											
SLC5A4	6527	broad.mit.edu	37	chr22	32631073	32631073	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctcataacctccaacttcGttaaatgctaaaaaggcatc	14	11	4	12	1	1	0	1	0	1	0	5	0	2	0	2	1	3	3	2	1	7	4			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr22:32631073G>A	uc003ami.2	-	8	674	c.672C>T	c.(670-672)AAC>AAT	p.N224N		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	224	Helical; (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						CTCCAACTTCGTTAAATGCTA	0.423													10	76					0	0	0.006214	0	0		A	32631073	A	A	32631073	2	1	95	1	0	0	0	0	0	0	0	1	14692	1136	40	1		1	SLC5A4	22	32631073	Silent	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08	1622067	32631073	18673493	148	61411											
FOXRED2	80020	broad.mit.edu	37	chr22	36902217	36902217	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcgttagccttgcccgtgtAccgcttgttgatgctgatga	5	13	13	10	3	0	3	0	3	0	0	0	3	0	3	3	1	4	5	3	1	2	5			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr22:36902217A>G	uc003apn.3	-	1	361	c.253T>C	c.(253-255)TAC>CAC	p.Y85H	FOXRED2_uc003apo.3_Missense_Mutation_p.Y85H|FOXRED2_uc003app.3_Missense_Mutation_p.Y85H	NM_024955	NP_079231	Q8IWF2	FXRD2_HUMAN	FAD-dependent oxidoreductase domain containing 2	85					ER-associated protein catabolic process	endoplasmic reticulum lumen	flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			lung(1)|kidney(1)	2						TTGCCCGTGTACCGCTTGTTG	0.647													17	45					0	0	0.007413	0	0		G	36902217	G	G	36902217	3	3	95	1	0	0	0	0	1	0	0	0	6048	391	14	3	1833	3	FOXRED2	22	36902217	Missense_Mutation	SNP	A	TCGA-BR-A4IY-01A-11D-A25D-08	4271144	36902217	14402349	149	61412											
SH3BP1	23616	broad.mit.edu	37	chr22	38040901	38040901	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagattcaggccgattacCatcgcaggtcactgagctcg	9	9	12	11	3	2	2	2	1	0	1	4	4	2	2	2	3	2	2	2	3	1	2			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chr22:38040901C>G	uc003ati.2	+	9	823	c.712C>G	c.(712-714)CAT>GAT	p.H238D	SH3BP1_uc003atg.1_RNA|SH3BP1_uc011anl.1_Missense_Mutation_p.H238D|SH3BP1_uc003ath.1_Missense_Mutation_p.H238D|SH3BP1_uc003atj.1_Missense_Mutation_p.H174D|SH3BP1_uc003atk.1_Missense_Mutation_p.H152D|uc003atl.1_Intron	NM_018957	NP_061830	Q9Y3L3	3BP1_HUMAN	SH3-domain binding protein 1	238	BAR.				signal transduction	cytoplasm	GTPase activator activity|SH3 domain binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GGCCGATTACCATCGCAGGTC	0.622													7	42					0	0	0.00308	0	0		G	38040901	G	G	38040901	3	3	95	1	0	0	0	0	1	0	0	0	14269	594	21	5	746	5	SH3BP1	22	38040901	Missense_Mutation	SNP	C	TCGA-BR-A4IY-01A-11D-A25D-08	1138684	38040901	13263665	150	61413											
MAP7D3	79649	broad.mit.edu	37	chrX	135314112	135314112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccacagggaatgagtccGtgctcacctcaggggccatg	9	7	12	13	1	3	1	3	1	0	0	4	2	4	2	4	3	1	1	4	3	1	0			TCGA-BR-A4IY-01A-11D-A25D-08	TCGA-BR-A4IY-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5988941-c04e-4acd-aaaa-e1a8caf1d68f	7b0b2c41-547a-4afe-b064-1fd5068ec402	g.chrX:135314112G>A	uc004ezt.2	-	8	1095	c.1004C>T	c.(1003-1005)ACG>ATG	p.T335M	MAP7D3_uc004ezs.2_Missense_Mutation_p.T299M|MAP7D3_uc011mwc.1_Missense_Mutation_p.T317M|MAP7D3_uc010nsa.1_Missense_Mutation_p.T293M	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	335						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					GAATGAGTCCGTGCTCACCTC	0.572													5	117					0	0	0.000602	0	0		A	135314112	A	A	135314112	3	1	95	1	0	0	0	0	1	0	0	0	9287	1145	40	1	1670	1	MAP7D3	23	135314112	Missense_Mutation	SNP	G	TCGA-BR-A4IY-01A-11D-A25D-08		135314112	19956448	151	61414											
FAM58B	339521	broad.mit.edu	37	chr1	200182943	200182943	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcttccatttacttggcCggcaaagtggaagagcagcc	10	10	11	10	1	1	1	0	0	1	1	2	2	2	2	3	3	3	2	3	3	3	4			TCGA-BR-A4IZ-01A-32D-A25D-08	TCGA-BR-A4IZ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	ef5290da-bfcb-4880-9148-c8d5d1a6a4ac	f814337f-39ee-4808-b2fa-29b10610254f	g.chr1:200182943C>T	uc009wzi.1	+	1	288	c.252C>T	c.(250-252)GCC>GCT	p.A84A		NM_001105517	NP_001098987	P0C7Q3	FA58B_HUMAN	family with sequence similarity 58 member B	84					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	Prostate(682;0.19)					TTTACTTGGCCGGCAAAGTGG	0.542													10	118					0	0	0.008291	0	0		T	200182943	T	T	200182943	2	4	96	1	0	0	0	0	0	0	0	1	5605	639	23	1		1	FAM58B	1	200182943	Silent	SNP	C	TCGA-BR-A4IZ-01A-32D-A25D-08		200182943	49067678	1	61415											
PPP2R3A	5523	broad.mit.edu	37	chr3	135722102	135722102	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaaaatagaggaagaggatCgagccctcttactgcgaatc	15	7	10	9	2	1	2	0	0	1	2	3	6	1	4	1	2	3	0	1	2	6	2			TCGA-BR-A4IZ-01A-32D-A25D-08	TCGA-BR-A4IZ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	ef5290da-bfcb-4880-9148-c8d5d1a6a4ac	f814337f-39ee-4808-b2fa-29b10610254f	g.chr3:135722102C>T	uc003eqv.1	+	2	2327	c.1762C>T	c.(1762-1764)CGA>TGA	p.R588*	PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	588					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						GGAAGAGGATCGAGCCCTCTT	0.408													5	62					0	0	0.000602	0	0		T	135722102	T	T	135722102	4	4	96	1	0	0	0	0	0	1	0	0	12410	876	31	1	1764	1	PPP2R3A	3	135722102	Nonsense_Mutation	SNP	C	TCGA-BR-A4IZ-01A-32D-A25D-08		135722102	62300328	2	61416											
SRP72	6731	broad.mit.edu	37	chr4	57356812	57356812	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatccagagaaagccaaagcGtatccttttgattgttattc	12	13	8	8	1	0	2	0	1	0	1	3	4	2	2	3	0	2	2	3	0	4	6			TCGA-BR-A4IZ-01A-32D-A25D-08	TCGA-BR-A4IZ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	ef5290da-bfcb-4880-9148-c8d5d1a6a4ac	f814337f-39ee-4808-b2fa-29b10610254f	g.chr4:57356812G>A	uc003hbv.2	+	15	1542	c.1502_splice	c.e15+1	p.A501_splice	SRP72_uc010ihe.2_Splice_Site_p.A440_splice|SRP72_uc003hbw.1_Splice_Site_p.A262_splice	NM_006947	NP_008878	O76094	SRP72_HUMAN	signal recognition particle 72kDa						response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|nucleolus|plasma membrane|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding			ovary(1)	1	Glioma(25;0.08)|all_neural(26;0.101)					AAGCCAAAGCGTATCCTTTTG	0.299													4	31					0	0	0.009096	0	0		A	57356812	A	A	57356812	5	1	96	1	0	0	0	0	0	0	1	0	15182	1159	40	1	1561	1	SRP72	4	57356812	Splice_Site	SNP	G	TCGA-BR-A4IZ-01A-32D-A25D-08		57356812	133797464	3	61417											
TIGD4	201798	broad.mit.edu	37	chr4	153691406	153691406	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctgttagcttcataacAcacaggcaatgattttaaac	14	13	5	9	0	2	1	1	1	1	0	2	1	2	1	0	1	3	3	0	1	5	6			TCGA-BR-A4IZ-01A-32D-A25D-08	TCGA-BR-A4IZ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	ef5290da-bfcb-4880-9148-c8d5d1a6a4ac	f814337f-39ee-4808-b2fa-29b10610254f	g.chr4:153691406A>C	uc003imy.2	-	2	1533	c.751T>G	c.(751-753)TGT>GGT	p.C251G		NM_145720	NP_663772	Q8IY51	TIGD4_HUMAN	tigger transposable element derived 4	251	DDE.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|DNA binding			ovary(1)	1	all_hematologic(180;0.093)					GCTTCATAACACACAGGCAAT	0.418													6	88					0	0	0.001984	0	0		C	153691406	C	C	153691406	3	2	96	1	0	0	0	0	1	0	0	0	15923	159	6	5	791	5	TIGD4	4	153691406	Missense_Mutation	SNP	A	TCGA-BR-A4IZ-01A-32D-A25D-08	96334594	153691406	37462870	4	61418											
RXFP3	51289	broad.mit.edu	37	chr5	33936904	33936904	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaggcagcaggcggggacaAgctagcagaactcttcagtc	12	6	13	10	1	2	1	1	0	1	1	3	2	2	2	0	4	4	4	0	4	4	3			TCGA-BR-A4IZ-01A-32D-A25D-08	TCGA-BR-A4IZ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	ef5290da-bfcb-4880-9148-c8d5d1a6a4ac	f814337f-39ee-4808-b2fa-29b10610254f	g.chr5:33936904A>C	uc003jic.1	+	1	416	c.59A>C	c.(58-60)AAG>ACG	p.K20T		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	20	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						GGCGGGGACAAGCTAGCAGAA	0.597													6	91					0	0	0.001168	0	0		C	33936904	C	C	33936904	3	2	96	1	0	0	0	0	1	0	0	0	13786	72	3	5	61	5	RXFP3	5	33936904	Missense_Mutation	SNP	A	TCGA-BR-A4IZ-01A-32D-A25D-08		33936904	146978356	5	61419											
DOCK2	1794	broad.mit.edu	37	chr5	169474616	169474616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggattcccctccttcctgCgggtgagtttgggggtgact	4	12	15	10	1	0	2	0	2	0	0	3	3	3	3	4	4	1	1	4	4	0	3			TCGA-BR-A4IZ-01A-32D-A25D-08	TCGA-BR-A4IZ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	ef5290da-bfcb-4880-9148-c8d5d1a6a4ac	f814337f-39ee-4808-b2fa-29b10610254f	g.chr5:169474616C>T	uc003maf.2	+	40	4149	c.4069C>T	c.(4069-4071)CGG>TGG	p.R1357W	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.R849W	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1357	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTCCTTCCTGCGGGTGAGTTT	0.542													4	41					0	0	0.009096	0	0		T	169474616	T	T	169474616	3	4	96	1	0	0	0	0	1	0	0	0	4693	759	27	1	4227	1	DOCK2	5	169474616	Missense_Mutation	SNP	C	TCGA-BR-A4IZ-01A-32D-A25D-08	135537712	169474616	11440644	6	61420											
CTSF	8722	broad.mit.edu	37	chr11	66335480	66335480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttggacacggggagcCggcacaccatggggtcgttg	6	10	15	10	3	1	0	0	0	1	0	2	2	1	2	2	6	1	2	2	6	0	4			TCGA-BR-A4IZ-01A-32D-A25D-08	TCGA-BR-A4IZ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	ef5290da-bfcb-4880-9148-c8d5d1a6a4ac	f814337f-39ee-4808-b2fa-29b10610254f	g.chr11:66335480C>T	uc001oip.2	-	2	377	c.287G>A	c.(286-288)CGG>CAG	p.R96Q		NM_003793	NP_003784	Q9UBX1	CATF_HUMAN	cathepsin F precursor	96					proteolysis	lysosome	cysteine-type endopeptidase activity				0						CACGGGGAGCCGGCACACCAT	0.652													6	87					0	0	0.00308	0	0		T	66335480	T	T	66335480	3	4	96	1	0	0	0	0	1	0	0	0	4037	652	23	1	1215	1	CTSF	11	66335480	Missense_Mutation	SNP	C	TCGA-BR-A4IZ-01A-32D-A25D-08		66335480	68671036	7	61421											
CACNA1C	775	broad.mit.edu	37	chr12	2566863	2566863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccctgcggctggtgtccGgagtcccaagtaagtgaagc	7	7	14	13	2	0	1	0	1	0	0	2	2	2	2	4	3	2	2	4	3	3	1			TCGA-BR-A4IZ-01A-32D-A25D-08	TCGA-BR-A4IZ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	ef5290da-bfcb-4880-9148-c8d5d1a6a4ac	f814337f-39ee-4808-b2fa-29b10610254f	g.chr12:2566863G>A	uc009zdu.1	+	5	1061	c.748G>A	c.(748-750)GGA>AGA	p.G250R	CACNA1C_uc009zdv.1_Missense_Mutation_p.G250R|CACNA1C_uc001qkb.2_Missense_Mutation_p.G250R|CACNA1C_uc001qkc.2_Missense_Mutation_p.G250R|CACNA1C_uc001qke.2_Missense_Mutation_p.G250R|CACNA1C_uc001qkf.2_Missense_Mutation_p.G250R|CACNA1C_uc001qjz.2_Missense_Mutation_p.G250R|CACNA1C_uc001qkd.2_Missense_Mutation_p.G250R|CACNA1C_uc001qkg.2_Missense_Mutation_p.G250R|CACNA1C_uc009zdw.1_Missense_Mutation_p.G250R|CACNA1C_uc001qkh.2_Missense_Mutation_p.G250R|CACNA1C_uc001qkl.2_Missense_Mutation_p.G250R|CACNA1C_uc001qkn.2_Missense_Mutation_p.G250R|CACNA1C_uc001qko.2_Missense_Mutation_p.G250R|CACNA1C_uc001qkp.2_Missense_Mutation_p.G250R|CACNA1C_uc001qkr.2_Missense_Mutation_p.G250R|CACNA1C_uc001qku.2_Missense_Mutation_p.G250R|CACNA1C_uc001qkq.2_Missense_Mutation_p.G250R|CACNA1C_uc001qks.2_Missense_Mutation_p.G250R|CACNA1C_uc001qkt.2_Missense_Mutation_p.G250R|CACNA1C_uc001qka.1_5'UTR|CACNA1C_uc001qki.1_5'UTR|CACNA1C_uc001qkj.1_5'UTR|CACNA1C_uc001qkk.1_5'UTR|CACNA1C_uc001qkm.1_5'UTR	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	250	I.|Helical; Name=S4 of repeat I; (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GCTGGTGTCCGGAGTCCCAAG	0.577													16	275					0	0	0.010504	0	0		A	2566863	A	A	2566863	3	1	96	1	0	0	0	0	1	0	0	0	2543	1117	39	1	766	1	CACNA1C	12	2566863	Missense_Mutation	SNP	G	TCGA-BR-A4IZ-01A-32D-A25D-08		2566863	131285032	8	61422											
PPP4C	5531	broad.mit.edu	37	chr16	30094833	30094833	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggctcggtgactgtgtggcGctactgcactgagatctttg	5	12	14	10	3	1	2	0	2	1	1	2	3	1	2	0	3	2	3	0	3	1	2			TCGA-BR-A4IZ-01A-32D-A25D-08	TCGA-BR-A4IZ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	ef5290da-bfcb-4880-9148-c8d5d1a6a4ac	f814337f-39ee-4808-b2fa-29b10610254f	g.chr16:30094833G>A	uc002dwe.2	+	6	566	c.422G>A	c.(421-423)CGC>CAC	p.R141H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|PPP4C_uc002dwf.2_Missense_Mutation_p.R141H|PPP4C_uc002dwg.2_RNA|PPP4C_uc002dwh.2_Missense_Mutation_p.R62H	NM_002720	NP_002711	P60510	PP4C_HUMAN	protein phosphatase 4, catalytic subunit	141					microtubule cytoskeleton organization|regulation of double-strand break repair via homologous recombination	centrosome|nucleus	metal ion binding|NF-kappaB-inducing kinase activity|protein binding|protein serine/threonine phosphatase activity			skin(1)	1						ACTGTGTGGCGCTACTGCACT	0.587													5	51					0	0	0.000602	0	0		A	30094833	A	A	30094833	3	1	96	1	0	0	0	0	1	0	0	0	12424	1087	38	1	440	1	PPP4C	16	30094833	Missense_Mutation	SNP	G	TCGA-BR-A4IZ-01A-32D-A25D-08		30094833	60259920	9	61423											
RFX1	5989	broad.mit.edu	37	chr19	14079448	14079448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcggctgctgccccaccGccacgccgttggtcatgcct	3	9	11	18	4	1	0	1	0	0	0	2	0	1	0	6	2	4	4	6	2	0	1			TCGA-BR-A4IZ-01A-32D-A25D-08	TCGA-BR-A4IZ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	ef5290da-bfcb-4880-9148-c8d5d1a6a4ac	f814337f-39ee-4808-b2fa-29b10610254f	g.chr19:14079448G>A	uc002mxv.2	-	12	1933	c.1661C>T	c.(1660-1662)GCG>GTG	p.A554V		NM_002918	NP_002909	P22670	RFX1_HUMAN	regulatory factor X1	554					immune response	nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			lung(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			CTGCCCCACCGCCACGCCGTT	0.662													8	70					0	0	0.00308	0	0		A	14079448	A	A	14079448	3	1	96	1	0	0	0	0	1	0	0	0	13287	1087	38	1	1318	1	RFX1	19	14079448	Missense_Mutation	SNP	G	TCGA-BR-A4IZ-01A-32D-A25D-08		14079448	45049535	10	61424											
CCNL2	81669	broad.mit.edu	37	chr1	1330804	1330804	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttcacatggacgcagaaAcccaactctttgagaactcg	12	9	8	12	2	2	2	1	1	1	2	3	4	2	3	1	1	4	2	1	1	3	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr1:1330804A>C	uc001afi.2	-	4	596	c.564T>G	c.(562-564)GGT>GGG	p.G188G	CCNL2_uc001aff.1_5'Flank|CCNL2_uc001afg.1_5'UTR|CCNL2_uc001afh.2_Silent_p.G188G|CCNL2_uc001afj.2_Silent_p.G188G|CCNL2_uc001afk.2_Silent_p.G188G	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A	188					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		GGACGCAGAAACCCAACTCTT	0.537													24	43					0	0	0.014323	0	0		C	1330804	C	C	1330804	2	2	97	1	0	0	0	0	0	0	0	1	2935	30	2	5		5	CCNL2	1	1330804	Silent	SNP	A	TCGA-BR-A4J1-01A-11D-A25D-08		1330804	247919817	1	61425											
CELA2A	63036	broad.mit.edu	37	chr1	15789355	15789355	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actccaaccaaatctccaaaGggttcgtttctgtctgggtg	9	12	9	11	1	3	0	0	0	3	0	6	0	4	0	3	2	1	2	3	2	3	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr1:15789355G>T	uc001awk.2	+	4	381	c.355G>T	c.(355-357)GGG>TGG	p.G119W		NM_033440	NP_254275	P08217	CEL2A_HUMAN	elastase 2A preproprotein	119	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						AATCTCCAAAGGGTTCGTTTC	0.577													7	144					7.48243e-07	8.0224e-07	0.006214	1	0		T	15789355	T	T	15789355	3	4	97	1	0	0	0	0	1	0	0	0	3214	1014	35	5	369	5	CELA2A	1	15789355	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	14458551	15789355	233461266	2	61426											
ARID1A	8289	broad.mit.edu	37	chr1	27100120	27100123	+	Frame_Shift_Del	DEL	CAGC	-	-																															acatgagcactggggccccaCagccgaatctcatgccttcc																										TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr1:27100120_27100123delCAGC	uc001bmv.1	+	16	4289_4292	c.3916_3919delCAGC	c.(3916-3921)CAGCCGfs	p.Q1306fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.Q1305fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.Q1306fs|ARID1A_uc001bmw.1_Frame_Shift_Del_p.Q923fs|ARID1A_uc001bmx.1_Frame_Shift_Del_p.Q152fs|ARID1A_uc009vsm.1_5'UTR|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1306_1307				P -> S (in Ref. 1; AAG33967, 5; AAG17549 and 7; BAA23269).	androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TGGGGCCCCACAGCCGAATCTCAT	0.5			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								70	35	---	---	---	---						.	-	27100123	-	-	27100120	7	5	97	1	0	1	0	1	0	0	0	0	913	479	17	0	3978	0	ARID1A	1	27100120	Frame_Shift_Del	DEL	CAGC	TCGA-BR-A4J1-01A-11D-A25D-08	11310765	27100120	222150501	3	61427											
MAP7D1	55700	broad.mit.edu	37	chr1	36642154	36642154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgggggcagccccgctcCggtgcgccgccggccggagg	2	2	19	18	8	0	0	0	0	0	0	1	1	1	1	7	6	2	2	7	6	0	0			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr1:36642154C>T	uc001bzz.2	+	7	1421	c.1205C>T	c.(1204-1206)CCG>CTG	p.P402L	MAP7D1_uc001caa.2_Missense_Mutation_p.P370L|MAP7D1_uc001cab.2_Missense_Mutation_p.P365L|MAP7D1_uc001cac.2_Missense_Mutation_p.P102L|MAP7D1_uc001cad.2_5'Flank	NM_018067	NP_060537	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	402						cytoplasm|spindle				ovary(3)|breast(2)	5		Myeloproliferative disorder(586;0.0393)				AGCCCCGCTCCGGTGCGCCGC	0.781													4	6					0	0	0.009096	0	0		T	36642154	T	T	36642154	3	4	97	1	0	0	0	0	1	0	0	0	9285	652	23	1	1231	1	MAP7D1	1	36642154	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	9542034	36642154	212608467	4	61428											
MRPS15	64960	broad.mit.edu	37	chr1	36929865	36929865	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaactcagcgtcctccacgcGaccctcagcatggtgacctc	9	7	8	17	3	2	1	2	1	0	0	5	2	4	1	4	1	3	1	4	1	1	0			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr1:36929865G>A	uc001cas.2	-	1	176	c.12C>T	c.(10-12)GTC>GTT	p.V4V		NM_031280	NP_112570	P82914	RT15_HUMAN	mitochondrial ribosomal protein S15 precursor	4					translation	mitochondrial small ribosomal subunit|nuclear membrane	structural constituent of ribosome			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TCCTCCACGCGACCCTCAGCA	0.542													10	75					0	0	0.010729	0	0		A	36929865	A	A	36929865	2	1	97	1	0	0	0	0	0	0	0	1	9843	1045	37	1		1	MRPS15	1	36929865	Silent	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	287711	36929865	212320756	5	61429											
OMA1	115209	broad.mit.edu	37	chr1	59004914	59004914	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agttagacagtgaattaaatCggaagaaaacatggtttcta	17	11	9	4	1	1	3	0	1	1	2	2	4	1	4	0	2	1	2	0	2	8	4			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr1:59004914C>G	uc001cyy.2	-	2	141	c.53G>C	c.(52-54)CGA>CCA	p.R18P	DAB1_uc001cyt.1_Intron|OMA1_uc001cyx.1_Missense_Mutation_p.R18P|OMA1_uc009vzz.2_Missense_Mutation_p.R18P	NM_145243	NP_660286	Q96E52	OMA1_HUMAN	OMA1 homolog, zinc metallopeptidase precursor	18					proteolysis	integral to membrane|mitochondrial membrane	metal ion binding|metalloendopeptidase activity			large_intestine(1)	1	all_cancers(7;6.54e-05)					TGAATTAAATCGGAAGAAAAC	0.358													45	135					0	0	0.048971	0	0		G	59004914	G	G	59004914	3	3	97	1	0	0	0	0	1	0	0	0	10883	884	31	5	1553	5	OMA1	1	59004914	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	22075049	59004914	190245707	6	61430											
HRNR	388697	broad.mit.edu	37	chr1	152192120	152192120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcggacccatgtcggccgCgactaggagactggccagat	10	6	13	12	4	0	2	0	0	0	2	2	5	0	3	3	4	0	0	3	4	2	1	rs146400284	byFrequency	TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr1:152192120C>T	uc001ezt.1	-	3	2061	c.1985G>A	c.(1984-1986)CGC>CAC	p.R662H		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	662	6.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATGTCGGCCGCGACTAGGAGA	0.587													86	260					0	0	0.048971	0	0		T	152192120	T	T	152192120	3	4	97	1	0	0	0	0	1	0	0	0	7375	768	27	1	6571	1	HRNR	1	152192120	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	93187206	152192120	97058501	7	61431											
IGSF9	57549	broad.mit.edu	37	chr1	159901336	159901336	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctccttggtcaatggtcGcaggatgaggctgctgttgc	5	11	15	10	1	1	1	1	1	0	0	3	2	2	2	2	5	2	4	2	5	1	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr1:159901336G>A	uc001fur.2	-	12	1618	c.1420C>T	c.(1420-1422)CGA>TGA	p.R474*	IGSF9_uc001fuq.2_Nonsense_Mutation_p.R458*|IGSF9_uc001fup.2_5'UTR	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	474	Ig-like 5.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			GTCAATGGTCGCAGGATGAGG	0.647													46	17					0	0	0.048971	0	0		A	159901336	A	A	159901336	4	1	97	1	0	0	0	0	0	1	0	0	7621	1095	38	1	2159	1	IGSF9	1	159901336	Nonsense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	7709216	159901336	89349285	8	61432											
ZNF638	27332	broad.mit.edu	37	chr2	71650235	71650235	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcactgaaaatgccgaggaGtgtgctttaaatcagcagat	13	11	10	7	1	2	2	2	1	0	1	2	4	2	3	1	1	3	2	1	1	4	3			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr2:71650235G>C	uc002shx.2	+	22	3910	c.3591G>C	c.(3589-3591)GAG>GAC	p.E1197D	ZNF638_uc010yqw.1_Missense_Mutation_p.E776D|ZNF638_uc002shy.2_Missense_Mutation_p.E1197D|ZNF638_uc002shz.2_Missense_Mutation_p.E1197D|ZNF638_uc002sia.2_Missense_Mutation_p.E1197D|ZNF638_uc002sib.1_Intron|ZNF638_uc010fed.2_Intron|ZNF638_uc002sic.2_Missense_Mutation_p.E294D|ZNF638_uc002sid.2_Intron	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1197	Glu-rich.				RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						ATGCCGAGGAGTGTGCTTTAA	0.408													34	71					0	0	0.054565	0	0		C	71650235	C	C	71650235	3	2	97	1	0	0	0	0	1	0	0	0	18080	1020	36	5	3673	5	ZNF638	2	71650235	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08		71650235	171549138	9	61433											
ZNF514	84874	broad.mit.edu	37	chr2	95815684	95815684	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtctgcctgaattctgtAtcacatttataagatccttc	12	15	5	9	0	3	2	1	1	2	1	5	2	4	2	2	0	1	1	2	0	5	6			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr2:95815684A>G	uc002sue.1	-	5	920	c.546T>C	c.(544-546)GAT>GAC	p.D182D	ZNF514_uc002sud.1_Silent_p.D255D	NM_032788	NP_116177	Q96K75	ZN514_HUMAN	zinc finger protein 514	182					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGAATTCTGTATCACATTTAT	0.398													49	121					0	0	0.048971	0	0		G	95815684	G	G	95815684	2	3	97	1	0	0	0	0	0	0	0	1	17984	446	16	3		3	ZNF514	2	95815684	Silent	SNP	A	TCGA-BR-A4J1-01A-11D-A25D-08	24165449	95815684	147383689	10	61434											
MBD5	55777	broad.mit.edu	37	chr2	149247083	149247083	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaccttgtgagttgcaaccGaggattgacccatctcttgg	9	11	10	11	1	1	2	0	2	1	0	2	4	1	3	3	2	2	2	3	2	1	4			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr2:149247083G>A	uc002twm.3	+	12	4171	c.3183G>A	c.(3181-3183)CCG>CCA	p.P1061P	MBD5_uc010zbs.1_Intron|MBD5_uc010fns.2_Silent_p.P1061P|MBD5_uc002two.2_Silent_p.P319P|MBD5_uc002twp.2_Silent_p.P111P	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1061						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		AGTTGCAACCGAGGATTGACC	0.483													26	33					0	0	0.021523	0	0		A	149247083	A	A	149247083	2	1	97	1	0	0	0	0	0	0	0	1	9365	1045	37	1		1	MBD5	2	149247083	Silent	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	53431399	149247083	93952290	11	61435											
PARD3B	117583	broad.mit.edu	37	chr2	206480274	206480274	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attatccaggggctcatcctAtgcaccctcccaaagggagc	10	8	9	14	0	1	0	1	0	0	0	4	1	4	1	4	3	2	2	4	3	3	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr2:206480274A>G	uc002var.1	+	23	3562	c.3355A>G	c.(3355-3357)ATG>GTG	p.M1119V	PARD3B_uc002vao.1_Missense_Mutation_p.M1018V|PARD3B_uc002vap.1_Missense_Mutation_p.M1057V|PARD3B_uc002vaq.1_Missense_Mutation_p.M1050V|uc010fuc.1_5'Flank	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	1119					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		GGCTCATCCTATGCACCCTCC	0.612													27	101					0	0	0.027356	0	0		G	206480274	G	G	206480274	3	3	97	1	0	0	0	0	1	0	0	0	11463	449	16	3	3445	3	PARD3B	2	206480274	Missense_Mutation	SNP	A	TCGA-BR-A4J1-01A-11D-A25D-08	57233191	206480274	36719099	12	61436											
PRKAG3	53632	broad.mit.edu	37	chr2	219694947	219694947	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagctccacatcatctgtGctggagcctgcagctgaggc	7	8	12	14	0	2	1	1	1	1	0	3	2	3	2	3	2	5	4	3	2	0	0			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr2:219694947G>A	uc002vjb.1	-	4	406	c.387C>T	c.(385-387)AGC>AGT	p.S129S	PRKAG3_uc010zkn.1_RNA|PRKAG3_uc010fvy.1_Silent_p.S129S|PRKAG3_uc010zko.1_Silent_p.S125S	NM_017431	NP_059127	Q9UGI9	AAKG3_HUMAN	AMP-activated protein kinase, non-catalytic	129					cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|intracellular protein kinase cascade|regulation of fatty acid oxidation	cytosol	AMP-activated protein kinase activity|protein kinase binding			ovary(1)|lung(1)	2		Renal(207;0.0474)		Epithelial(149;4.35e-07)|all cancers(144;8.96e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CATCATCTGTGCTGGAGCCTG	0.642													10	41					0	0	0.008291	0	0		A	219694947	A	A	219694947	2	1	97	1	0	0	0	0	0	0	0	1	12524	1310	46	2		2	PRKAG3	2	219694947	Silent	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	13214673	219694947	23504426	13	61437											
CCDC71	64925	broad.mit.edu	37	chr3	49200840	49200840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagccccctttcattcgccGgacactgggggacccagtgg	7	7	13	14	2	1	1	1	0	0	1	2	3	1	3	4	4	1	0	4	4	0	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr3:49200840G>A	uc003cwg.3	-	2	940	c.802C>T	c.(802-804)CGG>TGG	p.R268W		NM_022903	NP_075054	Q8IV32	CCD71_HUMAN	coiled-coil domain containing 71	268										ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		TTCATTCGCCGGACACTGGGG	0.647													41	57					0	0	0.039052	0	0		A	49200840	A	A	49200840	3	1	97	1	0	0	0	0	1	0	0	0	2847	1115	39	1	605	1	CCDC71	3	49200840	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08		49200840	148821590	14	61438											
FILIP1L	11259	broad.mit.edu	37	chr3	99568539	99568539	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgttcattagcataccttcGttctagagtctcatattcat	9	17	5	10	2	4	1	3	0	2	1	7	1	4	1	1	0	2	3	1	0	4	8			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr3:99568539G>A	uc003dtm.2	-	5	2444	c.1981C>T	c.(1981-1983)CGA>TGA	p.R661*	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Nonsense_Mutation_p.R661*|FILIP1L_uc010hpf.2_Nonsense_Mutation_p.R237*|FILIP1L_uc010hpg.2_Nonsense_Mutation_p.R421*|FILIP1L_uc003dtn.2_Nonsense_Mutation_p.R421*|FILIP1L_uc003dtp.1_Nonsense_Mutation_p.R421*	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	661	Potential.					cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						GCATACCTTCGTTCTAGAGTC	0.373													38	66					0	0	0.021022	0	0		A	99568539	A	A	99568539	4	1	97	1	0	0	0	0	0	1	0	0	5909	1153	40	1	1455	1	FILIP1L	3	99568539	Nonsense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	50367699	99568539	98453891	15	61439											
CEP97	79598	broad.mit.edu	37	chr3	101451439	101451439	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgactatcggccgtacatCgtcagctggtgcctaaacct	8	12	9	12	3	1	1	1	1	0	0	3	1	1	1	3	2	4	2	3	2	4	4			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr3:101451439C>T	uc003dvk.1	+	6	696	c.669C>T	c.(667-669)ATC>ATT	p.I223I	CEP97_uc010hpm.1_Silent_p.I189I|CEP97_uc011bhf.1_Silent_p.I223I|CEP97_uc003dvl.1_5'UTR|CEP97_uc003dvm.1_Silent_p.I61I	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	223	LRRCT.					centrosome|nucleus	protein binding			ovary(2)	2						GGCCGTACATCGTCAGCTGGT	0.418													7	26					0	0	0.02938	0	0		T	101451439	T	T	101451439	2	4	97	1	0	0	0	0	0	0	0	1	3266	874	31	1		1	CEP97	3	101451439	Silent	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	1882900	101451439	96570991	16	61440											
UMPS	7372	broad.mit.edu	37	chr3	124462864	124462864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataatctcagcagctgatcGtctggaagcagcagagatgt	12	9	11	9	1	2	2	1	1	2	1	4	4	2	3	0	1	4	4	0	1	2	1	rs142909683		TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr3:124462864G>A	uc003ehl.3	+	6	1482	c.1376G>A	c.(1375-1377)CGT>CAT	p.R459H	UMPS_uc003ehm.3_RNA|UMPS_uc011bka.1_Missense_Mutation_p.R281H|UMPS_uc011bkb.1_Missense_Mutation_p.R367H|UMPS_uc011bkc.1_Missense_Mutation_p.R281H|UMPS_uc003ehn.3_Missense_Mutation_p.R281H|UMPS_uc011bkd.1_Missense_Mutation_p.R184H	NM_000373	NP_000364	P11172	UMPS_HUMAN	uridine monophosphate synthase	459	OMPdecase.				'de novo' pyrimidine base biosynthetic process|'de novo' UMP biosynthetic process|pyrimidine nucleoside biosynthetic process	cytosol|nucleus	orotate phosphoribosyltransferase activity|orotidine-5'-phosphate decarboxylase activity			kidney(1)	1				GBM - Glioblastoma multiforme(114;0.146)		GCAGCTGATCGTCTGGAAGCA	0.428													23	44					0	0	0.016522	0	0		A	124462864	A	A	124462864	3	1	97	1	0	0	0	0	1	0	0	0	17007	1145	40	1	1398	1	UMPS	3	124462864	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	23011425	124462864	73559566	17	61441											
IGSF10	285313	broad.mit.edu	37	chr3	151163813	151163813	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggtaggagttgttgctGgtattgctgtttgcgttgat	6	16	16	3	1	0	1	0	1	0	0	0	3	0	3	0	4	3	8	0	4	3	7			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr3:151163813G>C	uc011bod.1	-	4	3956	c.3956C>G	c.(3955-3957)CCA>CGA	p.P1319R		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1319					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AGTTGTTGCTGGTATTGCTGT	0.423													188	55					0	0	0.048971	0	0		C	151163813	C	C	151163813	3	2	97	1	0	0	0	0	1	0	0	0	7613	1348	47	5	3975	5	IGSF10	3	151163813	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	26700949	151163813	46858617	18	61442											
HRASLS	57110	broad.mit.edu	37	chr3	192988433	192988433	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgttgagtttgtgacagctgCtgttggtgtcttctcattcc	4	17	11	9	1	2	2	1	2	2	0	4	2	3	2	1	1	2	5	1	1	0	5			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr3:192988433C>A	uc003fta.2	+	4	851	c.446C>A	c.(445-447)GCT>GAT	p.A149D		NM_020386	NP_065119	Q9HDD0	HRSL1_HUMAN	HRAS-like suppressor	149											0	all_cancers(143;9.1e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000159)		GTGACAGCTGCTGTTGGTGTC	0.373													19	43					2.35188e-11	2.68786e-11	0.038395	1	0		A	192988433	A	A	192988433	3	1	97	1	0	0	0	0	1	0	0	0	7365	797	28	5	456	5	HRASLS	3	192988433	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	41824620	192988433	5033997	19	61443											
ARHGAP24	83478	broad.mit.edu	37	chr4	86916641	86916641	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gggactatgaaagcaaaagtGaccacaggagtgtgggaggt	14	6	16	5	0	0	2	0	2	0	0	0	5	0	5	1	4	1	1	1	4	4	1			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr4:86916641G>C	uc003hpk.2	+	9	2283	c.1834G>C	c.(1834-1836)GAC>CAC	p.D612H	ARHGAP24_uc003hpl.2_Missense_Mutation_p.D517H|ARHGAP24_uc010ikf.2_Missense_Mutation_p.D527H|ARHGAP24_uc003hpm.2_Missense_Mutation_p.D519H	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1	612					angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		AAGCAAAAGTGACCACAGGAG	0.552													34	46					0	0	0.015359	0	0		C	86916641	C	C	86916641	3	2	97	1	0	0	0	0	1	0	0	0	873	1290	45	5	1980	5	ARHGAP24	4	86916641	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08		86916641	104237635	20	61444											
TTC29	83894	broad.mit.edu	37	chr4	147788681	147788681	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcatattcctcagcagctAagtgtgctaagcccaagtag	11	12	8	10	0	2	0	2	0	0	0	3	0	3	0	2	0	4	4	2	0	5	6			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr4:147788681A>C	uc003ikw.3	-	8	1081	c.854T>G	c.(853-855)TTA>TGA	p.L285*	TTC29_uc010ipc.2_RNA|TTC29_uc003ikx.3_Nonsense_Mutation_p.L311*|TTC29_uc010ipd.1_Nonsense_Mutation_p.L285*	NM_031956	NP_114162	Q8NA56	TTC29_HUMAN	tetratricopeptide repeat domain 29	285	TPR 3.						binding				0	all_hematologic(180;0.151)					CTCAGCAGCTAAGTGTGCTAA	0.294													2	3					0	0	0.004672	0	0		C	147788681	C	C	147788681	4	2	97	1	0	0	0	0	0	1	0	0	16722	372	13	5	597	5	TTC29	4	147788681	Nonsense_Mutation	SNP	A	TCGA-BR-A4J1-01A-11D-A25D-08	60872040	147788681	43365595	21	61445											
GPR98	84059	broad.mit.edu	37	chr5	90004691	90004691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttaacttacgttggacttaCcatggctgcttcaacttcat	9	16	6	10	1	2	0	2	0	0	0	2	1	2	1	1	2	5	3	1	2	4	7			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr5:90004691C>T	uc003kju.2	+	39	8885	c.8789C>T	c.(8788-8790)ACC>ATC	p.T2930I	GPR98_uc003kjt.2_Missense_Mutation_p.T636I|GPR98_uc003kjv.2_Missense_Mutation_p.T530I	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2930	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GTTGGACTTACCATGGCTGCT	0.348													26	49					0	0	0.034045	0	0		T	90004691	T	T	90004691	3	4	97	1	0	0	0	0	1	0	0	0	6737	507	18	4	8943	4	GPR98	5	90004691	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08		90004691	90910569	22	61446											
EPB41L4A	64097	broad.mit.edu	37	chr5	111754701	111754701	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaggagcaaaacttcgcaGtaaaattcttccggaacagc	14	8	8	11	2	1	0	0	0	1	0	4	2	3	2	2	2	4	3	2	2	5	4			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr5:111754701G>T	uc003kpv.1	-	1	310	c.36C>A	c.(34-36)TAC>TAA	p.Y12*	EPB41L4A_uc003kpw.1_Nonsense_Mutation_p.Y12*|FLJ11235_uc003kpx.1_5'Flank	NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	12	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		AAACTTCGCAGTAAAATTCTT	0.612													15	22					6.31663e-08	6.84301e-08	0.024245	1	0		T	111754701	T	T	111754701	4	4	97	1	0	0	0	0	0	1	0	0	5163	1024	36	5	2116	5	EPB41L4A	5	111754701	Nonsense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	21750010	111754701	69160559	23	61447											
KIF20A	10112	broad.mit.edu	37	chr5	137521329	137521329	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttggcagcttctgcctcCacccagcagcttcaggaggt	7	9	12	13	0	2	0	1	0	1	0	3	1	3	1	3	4	4	5	3	4	0	3			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr5:137521329C>T	uc003lcj.2	+	16	2551	c.2055C>T	c.(2053-2055)TCC>TCT	p.S685S	KIF20A_uc011cyo.1_Silent_p.S667S	NM_005733	NP_005724	O95235	KI20A_HUMAN	kinesin family member 20A	685	Potential.				cytokinesis|M phase of mitotic cell cycle|microtubule-based movement|protein transport|vesicle-mediated transport	Golgi apparatus|microtubule|nucleoplasm	ATP binding|microtubule motor activity|protein binding|transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CTTCTGCCTCCACCCAGCAGC	0.507													37	57					0	0	0.021022	0	0		T	137521329	T	T	137521329	2	4	97	1	0	0	0	0	0	0	0	1	8302	581	21	4		4	KIF20A	5	137521329	Silent	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	25766628	137521329	43393931	24	61448											
PCDHGA10	56106	broad.mit.edu	37	chr5	140793840	140793840	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgactgaagattcacctctGggaacagtcgtagccctttt	9	12	10	10	1	2	3	1	2	1	1	3	4	2	4	2	1	2	1	2	1	3	4			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr5:140793840G>A	uc003lkl.1	+	1	1098	c.1098G>A	c.(1096-1098)CTG>CTA	p.L366L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Silent_p.L366L	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	366	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTCACCTCTGGGAACAGTCG	0.403													3	28					0	0	0.009096	0	0		A	140793840	A	A	140793840	2	1	97	1	0	0	0	0	0	0	0	1	11570	1335	47	4		4	PCDHGA10	5	140793840	Silent	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	3272511	140793840	40121420	25	61449											
FBXW11	23291	broad.mit.edu	37	chr5	171295748	171295748	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagtgtcatcatgggagctgCtgatgatctgaaactcatca	11	12	10	8	0	5	3	4	3	1	0	5	4	5	4	0	1	3	2	0	1	2	1			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr5:171295748C>A	uc003mbm.1	-	12	1891	c.1520G>T	c.(1519-1521)AGC>ATC	p.S507I	FBXW11_uc011dey.1_Missense_Mutation_p.S475I|FBXW11_uc003mbl.1_Missense_Mutation_p.S494I|FBXW11_uc003mbn.1_Missense_Mutation_p.S473I	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	507	WD 7.				cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			ATGGGAGCTGCTGATGATCTG	0.423													25	31					9.57634e-11	1.08254e-10	0.01892	1	0		A	171295748	A	A	171295748	3	1	97	1	0	0	0	0	1	0	0	0	5778	797	28	5	112	5	FBXW11	5	171295748	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	30501908	171295748	9619512	26	61450											
BAI3	577	broad.mit.edu	37	chr6	70042817	70042817	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgtttctgtttgacaggtCaacatggtgattggcatttt	7	19	10	5	0	2	2	1	2	1	0	2	2	2	2	0	3	1	3	0	3	1	6			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr6:70042817C>T	uc003pev.3	+	24	3553	c.3105C>T	c.(3103-3105)GTC>GTT	p.V1035V	BAI3_uc010kak.2_Silent_p.V1035V|BAI3_uc011dxx.1_Silent_p.V241V|BAI3_uc003pex.1_Silent_p.V165V	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1035	Helical; Name=5; (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TTTGACAGGTCAACATGGTGA	0.383													6	45					0	0	0.021553	0	0		T	70042817	T	T	70042817	2	4	97	1	0	0	0	0	0	0	0	1	1301	813	29	4		4	BAI3	6	70042817	Silent	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08		70042817	101072250	27	61451											
KCNQ5	56479	broad.mit.edu	37	chr6	73904416	73904416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcctgcagttcattctgaCgccaaatgagttcagtgccc	9	10	10	12	1	3	2	2	2	1	0	3	2	3	2	3	1	2	3	3	1	1	3			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr6:73904416C>T	uc003pgk.2	+	14	2425	c.2078C>T	c.(2077-2079)ACG>ATG	p.T693M	KCNQ5_uc011dyh.1_Missense_Mutation_p.T712M|KCNQ5_uc011dyi.1_Missense_Mutation_p.T703M|KCNQ5_uc010kat.2_Missense_Mutation_p.T684M|KCNQ5_uc011dyj.1_Missense_Mutation_p.T583M|KCNQ5_uc011dyk.1_Missense_Mutation_p.T443M	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	693					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		TTCATTCTGACGCCAAATGAG	0.502													42	120					0	0	0.027894	0	0		T	73904416	T	T	73904416	3	4	97	1	0	0	0	0	1	0	0	0	8102	536	19	1	2193	1	KCNQ5	6	73904416	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	3861599	73904416	97210651	28	61452											
PAPOLB	56903	broad.mit.edu	37	chr7	4901375	4901375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagactgataggcgaggagaCgccgtagcgattcggcggcg	9	6	17	9	7	0	3	0	1	0	2	1	6	0	3	1	4	1	1	1	4	3	4			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr7:4901375C>T	uc003snk.2	-	1	251	c.67G>A	c.(67-69)GTC>ATC	p.V23I	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	22					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		GGCGAGGAGACGCCGTAGCGA	0.662													6	18					0	0	0.021553	0	0		T	4901375	T	T	4901375	3	4	97	1	0	0	0	0	1	0	0	0	11449	536	19	1	1850	1	PAPOLB	7	4901375	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08		4901375	154237288	29	61453											
PHF14	9678	broad.mit.edu	37	chr7	11091378	11091378	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttccacaggatgtgccaccaGaacccaagaagattccgata	14	7	8	12	1	0	3	0	0	0	3	2	5	2	4	5	1	2	0	5	1	4	3			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr7:11091378G>C	uc003sry.1	+	14	2887	c.2452G>C	c.(2452-2454)GAA>CAA	p.E818Q	PHF14_uc011jxi.1_Missense_Mutation_p.E533Q|PHF14_uc003srz.2_Missense_Mutation_p.E818Q|PHF14_uc011jxj.1_Missense_Mutation_p.E533Q	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	818							zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		TGTGCCACCAGAACCCAAGAA	0.403													28	52					0	0	0.045705	0	0		C	11091378	C	C	11091378	3	2	97	1	0	0	0	0	1	0	0	0	11844	943	33	5	2506	5	PHF14	7	11091378	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	6190003	11091378	148047285	30	61454											
CDK13	8621	broad.mit.edu	37	chr7	40132775	40132775	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagaagagagggaaaatggAtcgggacatgaagcgtcatt	15	7	14	5	2	1	3	1	1	0	2	2	7	1	6	0	3	1	0	0	3	5	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr7:40132775A>C	uc003thh.3	+	13	3909	c.3627A>C	c.(3625-3627)GGA>GGC	p.G1209G	CDK13_uc003thi.3_Silent_p.G1149G|CDK13_uc003thj.2_Silent_p.G260G|CDK13_uc003thk.2_Silent_p.G142G	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	1209					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						GGGAAAATGGATCGGGACATG	0.493													21	80					0	0	0.012319	0	0		C	40132775	C	C	40132775	2	2	97	1	0	0	0	0	0	0	0	1	3132	320	12	5		5	CDK13	7	40132775	Silent	SNP	A	TCGA-BR-A4J1-01A-11D-A25D-08	29041397	40132775	119005888	31	61455											
TAF6	6878	broad.mit.edu	37	chr7	99709580	99709580	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtactgaaccgtggcagcaTctgatacagtccagggtccg	9	8	13	11	2	1	2	0	2	1	0	3	2	3	2	3	3	4	3	3	3	3	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr7:99709580T>C	uc003uti.2	-	8	844	c.763A>G	c.(763-765)ATG>GTG	p.M255V	TAF6_uc003utg.2_Missense_Mutation_p.M177V|TAF6_uc003uth.2_Missense_Mutation_p.M312V|TAF6_uc003utk.2_Missense_Mutation_p.M255V|TAF6_uc011kji.1_Missense_Mutation_p.M292V|TAF6_uc003utj.2_Missense_Mutation_p.M245V|TAF6_uc003utl.2_Missense_Mutation_p.M255V|TAF6_uc003utm.2_Missense_Mutation_p.M255V|TAF6_uc003utn.1_RNA	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha	255					negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CGTGGCAGCATCTGATACAGT	0.602													31	24					0	0	0.045705	0	0		C	99709580	C	C	99709580	3	2	97	1	0	0	0	0	1	0	0	0	15555	1435	50	3	1302	3	TAF6	7	99709580	Missense_Mutation	SNP	T	TCGA-BR-A4J1-01A-11D-A25D-08	59576805	99709580	59429083	32	61456											
KCNU1	157855	broad.mit.edu	37	chr8	36644891	36644891	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacttccagggacaatttcGtgatcatatagaaatgttgc	12	12	8	9	1	1	2	1	1	0	1	3	3	2	3	2	1	1	1	2	1	4	5			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr8:36644891G>C	uc010lvw.2	+	2	350	c.263G>C	c.(262-264)CGT>CCT	p.R88P	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	88	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		GGACAATTTCGTGATCATATA	0.423													10	2					0	0	0.010729	0	0		C	36644891	C	C	36644891	3	2	97	1	0	0	0	0	1	0	0	0	8109	1145	40	5	269	5	KCNU1	8	36644891	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08		36644891	109719131	33	61457											
XKR4	114786	broad.mit.edu	37	chr8	56015173	56015173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaggcttgccgtcggggtCgggagccgaggacgaggagg	6	5	20	10	5	0	0	0	0	0	0	3	5	1	3	3	7	2	1	3	7	0	1			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr8:56015173C>T	uc003xsf.2	+	1	157	c.125C>T	c.(124-126)TCG>TTG	p.S42L		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	42						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			CCGTCGGGGTCGGGAGCCGAG	0.368													6	25					0	0	0.02938	0	0		T	56015173	T	T	56015173	3	4	97	1	0	0	0	0	1	0	0	0	17459	893	31	1	127	1	XKR4	8	56015173	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	19370282	56015173	90348849	34	61458											
OXR1	55074	broad.mit.edu	37	chr8	107691447	107691447	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttcccagacactggccAaaagaagaccctagacaaga	15	8	7	11	0	0	5	0	0	0	5	1	5	1	5	3	1	0	0	3	1	5	4			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr8:107691447A>C	uc011lht.1	+	3	332	c.233A>C	c.(232-234)CAA>CCA	p.Q78P	OXR1_uc003ymf.2_Missense_Mutation_p.Q77P|OXR1_uc011lhu.1_Missense_Mutation_p.Q70P|OXR1_uc010mcg.2_Intron|OXR1_uc003ymg.1_Missense_Mutation_p.Q10P|OXR1_uc003ymi.1_5'UTR	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	78					cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			GACACTGGCCAAAAGAAGACC	0.368													14	64					0	0	0.020292	0	0		C	107691447	C	C	107691447	3	2	97	1	0	0	0	0	1	0	0	0	11353	130	5	5	443	5	OXR1	8	107691447	Missense_Mutation	SNP	A	TCGA-BR-A4J1-01A-11D-A25D-08	51676274	107691447	38672575	35	61459											
FLJ43860	389690	broad.mit.edu	37	chr8	142487931	142487931	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgtagctgtgggcgcccTcactccggctcaccgcaccc	5	7	10	19	4	2	0	2	0	0	0	4	0	3	0	4	2	1	4	4	2	1	1			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr8:142487931T>G	uc003ywi.2	-	11	1391	c.1310A>C	c.(1309-1311)GAG>GCG	p.E437A	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	437							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GTGGGCGCCCTCACTCCGGCT	0.642													25	42					0	0	0.016522	0	0		G	142487931	G	G	142487931	3	3	97	1	0	0	0	0	1	0	0	0	5944	1551	54	5	2726	5	FLJ43860	8	142487931	Missense_Mutation	SNP	T	TCGA-BR-A4J1-01A-11D-A25D-08	34796484	142487931	3876091	36	61460											
PLEC	5339	broad.mit.edu	37	chr8	145009469	145009469	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtacaccttgttcatgtcGatgagcaggggcctgggaca	8	9	14	10	2	1	1	1	1	0	0	2	3	1	2	2	4	2	3	2	4	1	3			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr8:145009469G>A	uc003zaf.1	-	7	1196	c.1026C>T	c.(1024-1026)ATC>ATT	p.I342I	PLEC_uc003zab.1_Silent_p.I205I|PLEC_uc003zac.1_Silent_p.I209I|PLEC_uc003zad.2_Silent_p.I205I|PLEC_uc003zae.1_Silent_p.I173I|PLEC_uc003zag.1_Silent_p.I183I|PLEC_uc003zah.2_Silent_p.I191I|PLEC_uc003zaj.2_Silent_p.I232I	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	342	CH 2.|Globular 1.|Actin-binding.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TGTTCATGTCGATGAGCAGGG	0.657													11	36					0	0	0.010729	0	0		A	145009469	A	A	145009469	2	1	97	1	0	0	0	0	0	0	0	1	12071	1048	37	1		1	PLEC	8	145009469	Silent	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	2521538	145009469	1354553	37	61461											
OPLAH	26873	broad.mit.edu	37	chr8	145109753	145109753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggcaggtggctgccccCggcactgggatggttgctca	4	9	16	12	1	2	0	1	0	1	0	2	1	2	1	2	6	2	5	2	6	0	1	rs11777194		TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr8:145109753C>T	uc003zar.3	-	18	2555	c.2473G>A	c.(2473-2475)GGG>AGG	p.G825R	OPLAH_uc003zas.1_Missense_Mutation_p.G74R	NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	825							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	TGGCTGCCCCCGGCACTGGGA	0.642													26	54					0	0	0.027356	0	0		T	145109753	T	T	145109753	3	4	97	1	0	0	0	0	1	0	0	0	10895	652	23	1	1435	1	OPLAH	8	145109753	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	100284	145109753	1254269	38	61462											
KIAA1462	57608	broad.mit.edu	37	chr10	30336633	30336633	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccctggcctgctcgtgTcccagtcctcgctgcctggc	2	9	12	18	2	0	0	0	0	0	0	4	0	2	0	5	3	2	2	5	3	0	0			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr10:30336633T>C	uc001iux.2	-	1	168	c.109A>G	c.(109-111)ACA>GCA	p.T37A	KIAA1462_uc001iuy.2_Missense_Mutation_p.T37A|KIAA1462_uc001iuz.2_5'UTR|KIAA1462_uc009xle.1_Missense_Mutation_p.T37A	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	37										ovary(4)	4						CCTGCTCGTGTCCCAGTCCTC	0.617													25	55					0	0	0.024334	0	0		C	30336633	C	C	30336633	3	2	97	1	0	0	0	0	1	0	0	0	8250	1667	58	3	3982	3	KIAA1462	10	30336633	Missense_Mutation	SNP	T	TCGA-BR-A4J1-01A-11D-A25D-08		30336633	105198114	39	61463											
SLIT1	6585	broad.mit.edu	37	chr10	98778863	98778863	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacagccagcgttggaggAcctgcagcaaggggagggtg	9	5	19	8	1	0	0	0	0	0	0	0	4	0	4	2	6	4	3	2	6	1	1			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr10:98778863A>G	uc001kmw.2	-	27	3000	c.2748T>C	c.(2746-2748)GGT>GGC	p.G916G		NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	916	LRRCT 4.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		GCGTTGGAGGACCTGCAGCAA	0.632													29	39					0	0	0.037714	0	0		G	98778863	G	G	98778863	2	3	97	1	0	0	0	0	0	0	0	1	14764	289	10	3		3	SLIT1	10	98778863	Silent	SNP	A	TCGA-BR-A4J1-01A-11D-A25D-08	68442230	98778863	36755884	40	61464											
ATRNL1	26033	broad.mit.edu	37	chr10	117040941	117040941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taccagctgtaaaagctgttCactaaacttgaattgccagt	13	12	7	9	0	1	1	1	1	0	0	1	1	1	1	2	0	5	4	2	0	6	6			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr10:117040941C>T	uc001lcg.2	+	14	2563	c.2177C>T	c.(2176-2178)TCA>TTA	p.S726L		NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	726	PSI 3.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		AAAAGCTGTTCACTAAACTTG	0.358													30	56					0	0	0.034045	0	0		T	117040941	T	T	117040941	3	4	97	1	0	0	0	0	1	0	0	0	1208	838	29	4	2231	4	ATRNL1	10	117040941	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	18262078	117040941	18493806	41	61465											
KRTAP5-4	387267	broad.mit.edu	37	chr11	1642884	1642884	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacccacagcctgaagagAagcagcagggcttacagcag	14	4	12	11	0	0	3	0	2	0	1	0	4	0	3	2	1	5	4	2	1	3	1	rs6578597	by1000genomes	TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr11:1642884A>C	uc009ycy.1	-	4	665	c.578T>G	c.(577-579)TTC>TGC	p.F193C		NM_001012709	NP_001012727	Q6L8H1	KRA54_HUMAN	keratin associated protein 5-4	207	9 X 4 AA repeats of C-C-X-P.					keratin filament					0		all_epithelial(84;0.00819)|Breast(177;0.00832)|Ovarian(85;0.0256)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GCCTGAAGAGAAGCAGCAGGG	0.632													8	148					0	0	0.038147	0	0		C	1642884	C	C	1642884	3	2	97	1	0	0	0	0	1	0	0	0	8579	246	9	5	250	5	KRTAP5-4	11	1642884	Missense_Mutation	SNP	A	TCGA-BR-A4J1-01A-11D-A25D-08		1642884	133363632	42	61466											
HBD	3045	broad.mit.edu	37	chr11	5254296	5254297	+	Frame_Shift_Ins	INS	-	A	A																															tgccaaagttgcgggccagcINSacacacaccagcacattgcc																										TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr11:5254296_5254297insA	uc001maf.1	-	3	536_537	c.341_342insT	c.(340-342)GTGfs	p.V114fs		NM_000519	NP_000510	P02042	HBD_HUMAN	delta globin	114					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;5.69e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGCGGGCCAGCACACACACCAG	0.515													38	23	---	---	---	---						.	A	5254297	A	A	5254296	7	5	97	1	0	1	1	0	0	0	0	0	6995	697	25	0	105	0	HBD	11	5254296	Frame_Shift_Ins	INS	-	TCGA-BR-A4J1-01A-11D-A25D-08	3611412	5254296	129752220	43	61467	117	2									
HBD	3045	broad.mit.edu	37	chr11	5254304	5254304	+	Missense_Mutation	SNP	C	A	A																															gttgcgggccagcacacacaCcagcacattgcccaagagct																										TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr11:5254304C>A	uc001maf.1	-	3	529	c.334G>T	c.(334-336)GTG>TTG	p.V112L		NM_000519	NP_000510	P02042	HBD_HUMAN	delta globin	112					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;5.69e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGCACACACACCAGCACATTG	0.522													31	18					3.90053e-15	4.6627e-15	0.050027	1	0		A	5254304	A	A	5254304	3	1	97	1	0	0	0	0	1	0	0	0	6995	507	18	5	113	5	HBD	11	5254304	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	8	5254304	129752212	44	61468	117	2									
C11orf49	79096	broad.mit.edu	37	chr11	46958381	46958381	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtccggagcgcctagccCtaccggactacgagtatctg	8	8	12	13	4	1	1	0	1	1	0	2	4	2	3	4	2	4	1	4	2	4	4	rs142532345	byFrequency	TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr11:46958381C>T	uc001ndp.2	+	1	131	c.25C>T	c.(25-27)CTA>TTA	p.L9L	C11orf49_uc001nds.2_Silent_p.L9L|C11orf49_uc001ndq.2_Silent_p.L9L|C11orf49_uc001ndr.2_Silent_p.L9L|C11orf49_uc010rgx.1_5'UTR|C11orf49_uc010rgy.1_Missense_Mutation_p.P34L|C11orf49_uc010rgz.1_5'UTR	NM_024113	NP_077018	Q9H6J7	CK049_HUMAN	hypothetical protein LOC79096 isoform 3	9											0						GCGCCTAGCCCTACCGGACTA	0.617													20	7					0	0	0.024334	0	0		T	46958381	T	T	46958381	2	4	97	1	0	0	0	0	0	0	0	1	1648	680	24	4		4	C11orf49	11	46958381	Silent	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	41704077	46958381	88048135	45	61469											
OR6M1	390261	broad.mit.edu	37	chr11	123676616	123676616	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacagacaggaaggctcccaCccagcatcccagaaccagca	14	2	8	17	0	0	2	0	0	0	2	2	3	2	3	4	2	3	3	4	2	2	0			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr11:123676616C>G	uc010rzz.1	-	1	442	c.442G>C	c.(442-444)GTG>CTG	p.V148L		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		AAGGCTCCCACCCAGCATCCC	0.502													17	37					0	0	0.0333	0	0		G	123676616	G	G	123676616	3	3	97	1	0	0	0	0	1	0	0	0	11224	507	18	5	502	5	OR6M1	11	123676616	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	76718235	123676616	11329900	46	61470											
AKAP3	10566	broad.mit.edu	37	chr12	4747358	4747358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaaccagtcaaccttttctGacatctggaagcaggggaaa	13	9	10	9	0	3	1	1	1	2	0	3	3	3	3	2	3	3	2	2	3	4	3			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr12:4747358G>A	uc001qnb.3	-	3	234	c.5C>T	c.(4-6)TCA>TTA	p.S2L		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	2					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						AACCTTTTCTGACATCTGGAA	0.428													89	133					0	0	0.048971	0	0		A	4747358	A	A	4747358	3	1	97	1	0	0	0	0	1	0	0	0	452	1294	45	4	2568	4	AKAP3	12	4747358	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08		4747358	129104537	47	61471											
CLEC9A	283420	broad.mit.edu	37	chr12	10217429	10217429	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgctggctttggcaagaTggctcctctccttctcctgg	4	12	12	13	1	2	1	0	0	2	1	5	2	3	2	3	5	0	4	3	5	1	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr12:10217429T>G	uc001qxa.2	+	8	1183	c.570T>G	c.(568-570)GAT>GAG	p.D190E		NM_207345	NP_997228	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	190	Extracellular (Potential).|C-type lectin.				positive regulation of cytokine secretion|receptor-mediated endocytosis	cell surface|integral to membrane	receptor activity|sugar binding			ovary(1)	1						TTTGGCAAGATGGCTCCTCTC	0.448													20	75					0	0	0.043863	0	0		G	10217429	G	G	10217429	3	3	97	1	0	0	0	0	1	0	0	0	3525	1461	51	5	588	5	CLEC9A	12	10217429	Missense_Mutation	SNP	T	TCGA-BR-A4J1-01A-11D-A25D-08	5470071	10217429	123634466	48	61472											
PDE3A	5139	broad.mit.edu	37	chr12	20522996	20522996	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtacgtggaacaaatcttgCcgcagtccgcggaggcggct	8	7	15	11	5	1	0	0	0	1	0	2	2	2	2	2	5	3	3	2	5	3	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr12:20522996C>A	uc001reh.1	+	1	800	c.778C>A	c.(778-780)CCG>ACG	p.P260T		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	260					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	ACAAATCTTGCCGCAGTCCGC	0.597													47	64					2.77807e-22	3.35953e-22	0.045515	1	0		A	20522996	A	A	20522996	3	1	97	1	0	0	0	0	1	0	0	0	11656	739	26	5	780	5	PDE3A	12	20522996	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	10305567	20522996	113328899	49	61473											
KRT8	3856	broad.mit.edu	37	chr12	53292550	53292550	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcagctcctggtactcaCgcagctgccgcgccatgtcc	6	9	9	17	3	3	0	3	0	0	0	5	0	5	0	4	1	4	4	4	1	1	1			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr12:53292550C>A	uc001sbd.2	-	6	1218	c.1115G>T	c.(1114-1116)CGT>CTT	p.R372L	KRT8_uc009zmj.2_Intron|KRT8_uc009zmk.1_Missense_Mutation_p.R400L|KRT8_uc009zml.1_Missense_Mutation_p.R372L|KRT8_uc009zmm.1_Missense_Mutation_p.R372L	NM_002273	NP_002264	P05787	K2C8_HUMAN	keratin 8	372	Necessary for interaction with PNN.|Rod.|Coil 2.				cytoskeleton organization|interspecies interaction between organisms	cytoplasm|keratin filament|nuclear matrix|nucleoplasm	protein binding|structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.108)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTGGTACTCACGCAGCTGCCG	0.642													36	121					2.04263e-09	2.25993e-09	0.019004	1	0		A	53292550	A	A	53292550	3	1	97	1	0	0	0	0	1	0	0	0	8509	536	19	5	348	5	KRT8	12	53292550	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	32769554	53292550	80559345	50	61474											
CEP290	80184	broad.mit.edu	37	chr12	88478386	88478386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctggctttttctagaagacGttgatacttctttaatactt	9	19	6	7	1	3	3	0	1	3	2	3	3	3	3	0	1	2	2	0	1	5	10			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr12:88478386G>A	uc001tar.2	-	35	5025	c.4681C>T	c.(4681-4683)CGT>TGT	p.R1561C	CEP290_uc001taq.2_Missense_Mutation_p.R621C	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1561	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						TCTAGAAGACGTTGATACTTC	0.299													18	54					0	0	0.043863	0	0		A	88478386	A	A	88478386	3	1	97	1	0	0	0	0	1	0	0	0	3256	1145	40	1	2838	1	CEP290	12	88478386	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	35185836	88478386	45373509	51	61475											
CUX2	23316	broad.mit.edu	37	chr12	111758322	111758322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctgtgccccccgaggacGaggcggcggcaggggcggag	5	2	19	15	5	0	0	0	0	0	0	0	4	0	2	5	7	1	1	5	7	0	0			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr12:111758322G>A	uc001tsa.1	+	17	2662	c.2509G>A	c.(2509-2511)GAG>AAG	p.E837K		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	837						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						CCCCGAGGACGAGGCGGCGGC	0.776													6	9					0	0	0.038147	0	0		A	111758322	A	A	111758322	3	1	97	1	0	0	0	0	1	0	0	0	4068	1059	37	1	2575	1	CUX2	12	111758322	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	23279936	111758322	22093573	52	61476											
CIT	11113	broad.mit.edu	37	chr12	120166313	120166313	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttcacactcacctcttcCagaagcctctgtttgagctc	8	14	5	14	0	4	2	2	1	2	1	6	2	5	2	3	0	2	2	3	0	2	4			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr12:120166313C>G	uc001txi.1	-	27	3512	c.3459G>C	c.(3457-3459)CTG>CTC	p.L1153L	CIT_uc001txh.1_Silent_p.L687L|CIT_uc001txj.1_Silent_p.L1195L	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1153	Potential.|Interaction with Rho/Rac.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		TCACCTCTTCCAGAAGCCTCT	0.353													72	191					0	0	0.048971	0	0		G	120166313	G	G	120166313	2	3	97	1	0	0	0	0	0	0	0	1	3441	581	21	5		5	CIT	12	120166313	Silent	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	8407991	120166313	13685582	53	61477											
TDRD3	81550	broad.mit.edu	37	chr13	61103082	61103082	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaatgtaaatactgattatCagaatccagttcgaagtaat	16	14	6	5	1	1	2	1	1	0	1	3	3	2	2	1	0	1	3	1	0	8	6			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr13:61103082C>T	uc001via.2	+	11	2232	c.1444C>T	c.(1444-1446)CAG>TAG	p.Q482*	TDRD3_uc010aef.2_Nonsense_Mutation_p.Q307*|TDRD3_uc001vhz.3_Nonsense_Mutation_p.Q482*|TDRD3_uc010aeg.2_Nonsense_Mutation_p.Q575*|TDRD3_uc001vib.3_Nonsense_Mutation_p.Q481*	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	482					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		TACTGATTATCAGAATCCAGT	0.323													24	41					0	0	0.016522	0	0		T	61103082	T	T	61103082	4	4	97	1	0	0	0	0	0	1	0	0	15757	827	29	4	1765	4	TDRD3	13	61103082	Nonsense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08		61103082	54066796	54	61478											
SLITRK6	84189	broad.mit.edu	37	chr13	86369349	86369349	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcaagattatggagaccaAggaacatgcctttacttaat	15	12	7	7	0	1	2	1	0	0	2	1	4	1	3	2	2	3	0	2	2	6	5			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr13:86369349A>C	uc001vll.1	-	2	1754	c.1295T>G	c.(1294-1296)CTT>CGT	p.L432R	SLITRK6_uc010afe.1_Intron	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	432	Extracellular (Potential).|LRR 8.					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		ATGGAGACCAAGGAACATGCC	0.343													35	60					0	0	0.015359	0	0		C	86369349	C	C	86369349	3	2	97	1	0	0	0	0	1	0	0	0	14772	72	3	5	1234	5	SLITRK6	13	86369349	Missense_Mutation	SNP	A	TCGA-BR-A4J1-01A-11D-A25D-08	25266267	86369349	28800529	55	61479											
FAM155A	728215	broad.mit.edu	37	chr13	108518657	108518657	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggagggctcctgctgccgCcgctgctgctgctgctgctg	2	9	15	15	2	0	0	0	0	0	0	1	1	1	1	3	2	7	8	3	2	0	0			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr13:108518657C>G	uc001vql.2	-	1	804	c.288G>C	c.(286-288)CGG>CGC	p.R96R		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	96						integral to membrane	binding			skin(1)	1						cctgctgccgccgctgctgct	0.413													11	49					0	0	0.008291	0	0		G	108518657	G	G	108518657	2	3	97	1	0	0	0	0	0	0	0	1	5476	726	26	5		5	FAM155A	13	108518657	Silent	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	22149308	108518657	6651221	56	61480											
C14orf21	161424	broad.mit.edu	37	chr14	24771558	24771558	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacttgcaggggcagctgcaGaccctggctgcacatcccat	8	7	11	15	0	0	1	0	0	0	1	1	1	1	1	2	3	4	6	2	3	0	1			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr14:24771558G>A	uc001wol.1	+	5	1134	c.1071G>A	c.(1069-1071)CAG>CAA	p.Q357Q	C14orf21_uc001wom.1_5'Flank|DHRS1_uc001woj.1_5'Flank|DHRS1_uc001wok.2_5'Flank	NM_174913	NP_777573	Q86U38	CN021_HUMAN	hypothetical protein LOC161424	357	Pumilio 4.						RNA binding			breast(2)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(265;0.0185)		GGCAGCTGCAGACCCTGGCTG	0.522													39	71					0	0	0.021022	0	0		A	24771558	A	A	24771558	2	1	97	1	0	0	0	0	0	0	0	1	1772	933	33	4		4	C14orf21	14	24771558	Silent	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08		24771558	82577982	57	61481											
C14orf106	55320	broad.mit.edu	37	chr14	45705143	45705143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccaatatatgttagtgaCgtctctaggaaaaaaaaata	17	11	8	5	1	1	1	0	1	1	0	2	2	1	2	1	1	1	1	1	1	10	5			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr14:45705143C>T	uc001wwf.2	-	6	1681	c.1222G>A	c.(1222-1224)GTC>ATC	p.V408I	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	408					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						ATGTTAGTGACGTCTCTAGGA	0.299													10	6					0	0	0.006214	0	0		T	45705143	T	T	45705143	3	4	97	1	0	0	0	0	1	0	0	0	1741	536	19	1	2224	1	C14orf106	14	45705143	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	20933585	45705143	61644397	58	61482											
NEO1	4756	broad.mit.edu	37	chr15	73528822	73528822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaccttacctactctgtgTtctacaccaaggaagggatt	12	11	7	11	0	2	0	0	0	2	0	2	2	2	2	3	2	4	1	3	2	6	5			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr15:73528822T>C	uc002avm.3	+	8	1568	c.1426T>C	c.(1426-1428)TTC>CTC	p.F476L	NEO1_uc010ukx.1_Missense_Mutation_p.F476L|NEO1_uc010uky.1_Missense_Mutation_p.F476L|NEO1_uc010ukz.1_5'UTR|NEO1_uc002avn.3_Missense_Mutation_p.F141L	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	476	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						CTACTCTGTGTTCTACACCAA	0.557													34	63					0	0	0.033182	0	0		C	73528822	C	C	73528822	3	2	97	1	0	0	0	0	1	0	0	0	10355	1725	60	3	1456	3	NEO1	15	73528822	Missense_Mutation	SNP	T	TCGA-BR-A4J1-01A-11D-A25D-08		73528822	29002570	59	61483											
DHX8	1659	broad.mit.edu	37	chr17	41584527	41584527	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctatgtcggtggccaaaAgagtgtcagaggagtttggt	10	10	15	6	1	1	2	1	0	0	2	2	3	1	3	1	4	1	2	1	4	3	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr17:41584527A>G	uc002idu.1	+	13	1958	c.1885A>G	c.(1885-1887)AGA>GGA	p.R629G	DHX8_uc010wif.1_Missense_Mutation_p.R538G|DHX8_uc010wig.1_Missense_Mutation_p.R629G	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	629	Helicase ATP-binding.					catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		GGTGGCCAAAAGAGTGTCAGA	0.517													66	66					0	0	0.048971	0	0		G	41584527	G	G	41584527	3	3	97	1	0	0	0	0	1	0	0	0	4521	64	3	3	1935	3	DHX8	17	41584527	Missense_Mutation	SNP	A	TCGA-BR-A4J1-01A-11D-A25D-08		41584527	39610683	60	61484											
SCN4A	6329	broad.mit.edu	37	chr17	62025364	62025364	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtaggtgaagaccttgtcGgcatattctaggatggtgcg	9	12	14	6	2	1	2	0	1	1	1	2	3	1	3	1	4	1	2	1	4	4	5			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr17:62025364G>T	uc002jds.1	-	17	3281	c.3204C>A	c.(3202-3204)GCC>GCA	p.A1068A		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1068	III.|Helical; Name=S2 of repeat III; (Potential).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	AGACCTTGTCGGCATATTCTA	0.567													11	14					1.58986e-06	1.67016e-06	0.008291	1	0		T	62025364	T	T	62025364	2	4	97	1	0	0	0	0	0	0	0	1	13945	1103	39	5		5	SCN4A	17	62025364	Silent	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	20440837	62025364	19169846	61	61485											
DLGAP1	9229	broad.mit.edu	37	chr18	3581872	3581872	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatagaaagggaggctgttaCctgtatcccgatagacaggc	12	8	13	8	1	0	2	0	0	0	2	1	5	1	3	2	3	1	3	2	3	5	4			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr18:3581872C>G	uc002kmf.2	-	5	2032	c.1965_splice	c.e5+1	p.Q655_splice	DLGAP1_uc010wyz.1_Splice_Site_p.Q655_splice|DLGAP1_uc002kme.1_Splice_Site_p.Q353_splice|DLGAP1_uc010dkn.2_Splice_Site_p.Q363_splice|DLGAP1_uc010wyw.1_Splice_Site_p.Q361_splice|DLGAP1_uc010wyx.1_Splice_Site_p.Q377_splice|DLGAP1_uc010wyy.1_Splice_Site_p.Q339_splice|DLGAP1_uc002kmg.2_Splice_Site_p.Q353_splice	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform						synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				GAGGCTGTTACCTGTATCCCG	0.333													9	132					0	0	0.006214	0	0		G	3581872	G	G	3581872	5	3	97	1	0	0	0	0	0	0	1	0	4565	521	18	5	991	5	DLGAP1	18	3581872	Splice_Site	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08		3581872	74495376	62	61486											
CCDC102B	79839	broad.mit.edu	37	chr18	66513583	66513583	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaaaaagaaatagagagActggagtcggctttgtctct	13	11	12	5	1	1	3	0	0	1	3	3	6	1	5	0	3	0	1	0	3	4	3			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr18:66513583A>G	uc002lkk.2	+	6	1084	c.861A>G	c.(859-861)AGA>AGG	p.R287R	CCDC102B_uc002lki.2_Silent_p.R287R|CCDC102B_uc002lkj.1_Silent_p.R287R	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	287	Potential.									ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				AAATAGAGAGACTGGAGTCGG	0.343													12	39					0	0	0.013537	0	0		G	66513583	G	G	66513583	2	3	97	1	0	0	0	0	0	0	0	1	2740	272	10	3		3	CCDC102B	18	66513583	Silent	SNP	A	TCGA-BR-A4J1-01A-11D-A25D-08	62931711	66513583	11563665	63	61487											
UHRF1	29128	broad.mit.edu	37	chr19	4930857	4930857	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cgtccaggccggcgctggagGaggacgtcatttaccacgtg	7	7	15	12	5	1	0	1	0	0	0	2	3	2	3	3	5	1	1	3	5	1	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr19:4930857G>C	uc002mbo.2	+	4	706	c.538G>C	c.(538-540)GAG>CAG	p.E180Q	UHRF1_uc010xik.1_Intron|UHRF1_uc010duf.2_RNA|UHRF1_uc002mbp.2_Missense_Mutation_p.E193Q	NM_001048201	NP_001041666	Q96T88	UHRF1_HUMAN	ubiquitin-like with PHD and ring finger domains	180					cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)		GGCGCTGGAGGAGGACGTCAT	0.652													53	14					0	0	0.048971	0	0		C	4930857	C	C	4930857	3	2	97	1	0	0	0	0	1	0	0	0	16993	1175	41	5	587	5	UHRF1	19	4930857	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08		4930857	54198126	64	61488											
ZNF574	64763	broad.mit.edu	37	chr19	42584467	42584467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccacactgaggcagcaccGcttggtgcatgcccagcact	8	7	10	16	1	0	1	0	1	0	0	1	1	1	1	3	2	4	5	3	2	0	1			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr19:42584467G>A	uc002osm.3	+	2	1878	c.1709G>A	c.(1708-1710)CGC>CAC	p.R570H	ZNF574_uc002osk.3_Missense_Mutation_p.R660H	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	570	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				AGGCAGCACCGCTTGGTGCAT	0.627													92	16					0	0	0.048971	0	0		A	42584467	A	A	42584467	3	1	97	1	0	0	0	0	1	0	0	0	18031	1087	38	1	1711	1	ZNF574	19	42584467	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	37653610	42584467	16544516	65	61489											
PSG7	5676	broad.mit.edu	37	chr19	43430856	43430856	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattgatggtgatgtagggcTtgggcagcttcgctgtgtga	6	14	16	5	1	0	3	0	3	0	0	1	3	0	3	0	3	1	5	0	3	2	5			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr19:43430856T>A	uc002ovl.3	-	5	824	c.722A>T	c.(721-723)AAG>ATG	p.K241M	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_RNA|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Missense_Mutation_p.K119M	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	241	Ig-like C2-type 2.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				GATGTAGGGCTTGGGCAGCTT	0.473													89	134					0	0	0.048971	0	0		A	43430856	A	A	43430856	3	1	97	1	0	0	0	0	1	0	0	0	12682	1609	56	5	549	5	PSG7	19	43430856	Missense_Mutation	SNP	T	TCGA-BR-A4J1-01A-11D-A25D-08	846389	43430856	15698127	66	61490											
ZNF701	55762	broad.mit.edu	37	chr19	53086109	53086109	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgccatagatgtcacactgGtgagaatccttacacgtgta	12	11	9	9	1	1	2	1	1	0	2	2	3	2	2	2	1	2	1	2	1	4	3			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr19:53086109G>T	uc002pzs.1	+	4	924	c.797G>T	c.(796-798)GGT>GTT	p.G266V	ZNF701_uc010ydn.1_Missense_Mutation_p.G332V	NM_018260	NP_060730	Q9NV72	ZN701_HUMAN	zinc finger protein 701	266					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0105)|GBM - Glioblastoma multiforme(134;0.0402)		TGTCACACTGGTGAGAATCCT	0.418													15	46					7.93312e-07	8.41882e-07	0.020292	1	0		T	53086109	T	T	53086109	3	4	97	1	0	0	0	0	1	0	0	0	18130	1261	44	5	1009	5	ZNF701	19	53086109	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	9655253	53086109	6042874	67	61491											
CNOT3	4849	broad.mit.edu	37	chr19	54647253	54647253	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagattaagaagctacaaGtgagggggctgggggcctgg	11	6	19	5	0	0	3	0	1	0	2	0	4	0	3	1	6	2	2	1	6	4	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr19:54647253G>C	uc002qdj.1	+	4	479	c.168_splice	c.e4+1	p.Q56_splice	CNOT3_uc010yel.1_Splice_Site_p.Q56_splice|CNOT3_uc002qdi.2_Splice_Site|CNOT3_uc002qdk.1_Splice_Site_p.Q56_splice|CNOT3_uc010ere.1_5'Flank	NM_014516	NP_055331	O75175	CNOT3_HUMAN	CCR4-NOT transcription complex, subunit 3						nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GAAGCTACAAGTGAGGGGGCT	0.338													15	62					0	0	0.024245	0	0		C	54647253	C	C	54647253	5	2	97	1	0	0	0	0	0	0	1	0	3623	1043	36	5	179	5	CNOT3	19	54647253	Splice_Site	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	1561144	54647253	4481730	68	61492											
TRIM28	10155	broad.mit.edu	37	chr19	59060921	59060921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagtgccaccatttgccGtgtctgccagaagccaggcg	8	8	12	13	2	1	2	0	1	1	1	1	2	1	2	5	1	4	0	5	1	1	1			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr19:59060921G>A	uc002qtg.1	+	13	2175	c.1886G>A	c.(1885-1887)CGT>CAT	p.R629H	TRIM28_uc010eut.1_Missense_Mutation_p.R547H|TRIM28_uc002qth.1_Missense_Mutation_p.R244H	NM_005762	NP_005753	Q13263	TIF1B_HUMAN	tripartite motif-containing 28 protein	629	PHD-type.				epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	nucleoplasm	chromo shadow domain binding|ligase activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0434)|all cancers(4;1.39e-13)|Epithelial(4;1.01e-10)|OV - Ovarian serous cystadenocarcinoma(4;2.34e-09)|GBM - Glioblastoma multiforme(193;0.0102)|Lung(386;0.179)		ACCATTTGCCGTGTCTGCCAG	0.612													130	19					0	0	0.048971	0	0		A	59060921	A	A	59060921	3	1	97	1	0	0	0	0	1	0	0	0	16528	1145	40	1	1936	1	TRIM28	19	59060921	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	4413668	59060921	68062	69	61493											
SIRPB1	10326	broad.mit.edu	37	chr20	1551635	1551635	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccatccttgttctctatgagGgtcgaagctgtttctgtccg	5	15	10	11	2	2	1	0	1	2	0	6	2	4	1	3	1	1	3	3	1	2	4			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr20:1551635G>T	uc010gai.2	-	4	999	c.900C>A	c.(898-900)ACC>ACA	p.T300T	SIRPB1_uc002wfk.3_Intron	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	300	Ig-like C1-type 2.|Extracellular (Potential).				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						TCTCTATGAGGGTCGAAGCTG	0.562													28	106					3.73148e-12	4.31193e-12	0.034045	1	0		T	1551635	T	T	1551635	2	4	97	1	0	0	0	0	0	0	0	1	14358	1219	43	5		5	SIRPB1	20	1551635	Silent	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08		1551635	61473885	70	61494											
RALGAPA2	57186	broad.mit.edu	37	chr20	20453517	20453517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacttcacagccctgctggcGttgatgcacgtggcacatac	8	9	10	14	2	1	1	1	1	0	0	1	1	1	1	1	2	4	4	1	2	1	3			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr20:20453517G>A	uc002wrz.2	-	37	5594	c.5451C>T	c.(5449-5451)AAC>AAT	p.N1817N	RALGAPA2_uc010gcx.2_Silent_p.N1521N|RALGAPA2_uc010zsg.1_Silent_p.N1265N|RALGAPA2_uc002wsa.1_Silent_p.N589N	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1817	Rap-GAP.				activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CCCTGCTGGCGTTGATGCACG	0.468													9	56					0	0	0.006214	0	0		A	20453517	A	A	20453517	2	1	97	1	0	0	0	0	0	0	0	1	13039	1136	40	1		1	RALGAPA2	20	20453517	Silent	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08	18901882	20453517	42572003	71	61495											
BCAS1	8537	broad.mit.edu	37	chr20	52583568	52583568	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtttgtaaggctgattcTacttccttggactttataat	9	18	7	7	0	1	1	0	1	1	0	2	2	2	2	1	2	1	3	1	2	4	9			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr20:52583568T>A	uc002xws.2	-	9	1565	c.1227A>T	c.(1225-1227)GTA>GTT	p.V409V	BCAS1_uc010zza.1_Intron|BCAS1_uc010zzb.1_Silent_p.V357V|BCAS1_uc010gim.2_Intron|BCAS1_uc002xwt.2_Silent_p.V395V|BCAS1_uc010gil.1_Intron	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	409						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			AGGCTGATTCTACTTCCTTGG	0.418													19	221					0	0	0.010504	0	0		A	52583568	A	A	52583568	2	1	97	1	0	0	0	0	0	0	0	1	1351	1509	53	5		5	BCAS1	20	52583568	Silent	SNP	T	TCGA-BR-A4J1-01A-11D-A25D-08	32130051	52583568	10441952	72	61496											
TFAP2C	7022	broad.mit.edu	37	chr20	55208570	55208570	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggctgaagtacagaggCgactgtccccacctgaatgc	10	7	12	12	1	0	3	0	2	0	1	1	4	1	3	3	2	2	2	3	2	3	1			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr20:55208570C>T	uc002xya.2	+	4	991	c.748C>T	c.(748-750)CGA>TGA	p.R250*	TFAP2C_uc010zzi.1_Nonsense_Mutation_p.R81*	NM_003222	NP_003213	Q92754	AP2C_HUMAN	transcription factor AP-2 gamma	250					cell-cell signaling|male gonad development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Colorectal(105;0.229)			AGTACAGAGGCGACTGTCCCC	0.502													14	67					0	0	0.016723	0	0		T	55208570	T	T	55208570	4	4	97	1	0	0	0	0	0	1	0	0	15814	760	27	1	762	1	TFAP2C	20	55208570	Nonsense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	2625002	55208570	7816950	73	61497											
DSCAM	1826	broad.mit.edu	37	chr21	41414474	41414474	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgacgtgtctgatatgaagCactccgtgatggtgaacttg	10	12	12	7	2	1	5	0	5	1	0	2	5	2	5	1	1	2	1	1	1	3	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr21:41414474C>T	uc002yyq.1	-	32	5962	c.5510G>A	c.(5509-5511)TGC>TAC	p.C1837Y	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1837	Cytoplasmic (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TGATATGAAGCACTCCGTGAT	0.552													41	63					0	0	0.033182	0	0		T	41414474	T	T	41414474	3	4	97	1	0	0	0	0	1	0	0	0	4774	710	25	2	536	2	DSCAM	21	41414474	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08		41414474	6715421	74	61498											
BCL2L13	23786	broad.mit.edu	37	chr22	18210043	18210043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtggaggaggtggtccccGcactggaacccacagaaacg	12	4	14	11	2	0	1	0	0	0	1	1	4	1	4	3	5	2	1	3	5	3	0	rs139164101	byFrequency	TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chr22:18210043G>A	uc002zmw.2	+	7	1419	c.1201G>A	c.(1201-1203)GCA>ACA	p.A401T	BCL2L13_uc002zmx.2_Missense_Mutation_p.A239T|BCL2L13_uc002zmy.2_3'UTR|BCL2L13_uc010gqy.2_Missense_Mutation_p.A239T|BCL2L13_uc011agk.1_Missense_Mutation_p.A277T|BCL2L13_uc010gqz.2_Missense_Mutation_p.A121T|BCL2L13_uc002zmz.2_Missense_Mutation_p.A239T|BCL2L13_uc002zna.2_Missense_Mutation_p.A121T	NM_015367	NP_056182	Q9BXK5	B2L13_HUMAN	BCL2-like 13 (apoptosis facilitator)	401	Glu-rich.				induction of apoptosis	integral to membrane|mitochondrial membrane|nucleus	caspase activator activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4		all_epithelial(15;0.123)		Lung(27;0.199)		GGTGGTCCCCGCACTGGAACC	0.522													63	11					0	0	0.048971	0	0		A	18210043	A	A	18210043	3	1	97	1	0	0	0	0	1	0	0	0	1372	1087	38	1	1223	1	BCL2L13	22	18210043	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08		18210043	33094523	75	61499											
NLGN4X	57502	broad.mit.edu	37	chrX	6069107	6069107	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgaacataggtcatcaaaGtatccaaattggcggtaaac	15	10	8	8	1	2	1	2	1	0	0	3	1	3	1	1	3	2	2	1	3	7	5			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chrX:6069107G>C	uc010ndh.2	-	2	902	c.401C>G	c.(400-402)ACT>AGT	p.T134S	NLGN4X_uc004crp.2_Missense_Mutation_p.T134S|NLGN4X_uc004crq.2_Missense_Mutation_p.T134S|NLGN4X_uc010ndi.2_Missense_Mutation_p.T134S|NLGN4X_uc004crr.2_Missense_Mutation_p.T134S|NLGN4X_uc010ndj.2_Missense_Mutation_p.T134S	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	134	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						GGTCATCAAAGTATCCAAATT	0.453													59	16					0	0	0.048971	0	0		C	6069107	C	C	6069107	3	2	97	1	0	0	0	0	1	0	0	0	10483	1029	36	5	2069	5	NLGN4X	23	6069107	Missense_Mutation	SNP	G	TCGA-BR-A4J1-01A-11D-A25D-08		6069107	149201453	76	61500											
KLHL13	90293	broad.mit.edu	37	chrX	117032969	117032969	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaatgccaccaagggattCtggcagatcaaaaaccttat	15	8	8	10	1	2	1	1	0	1	1	2	3	2	2	3	2	2	1	3	2	5	2			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chrX:117032969C>A	uc004eql.2	-	7	1932	c.1870G>T	c.(1870-1872)GAA>TAA	p.E624*	KLHL13_uc004eqk.2_Nonsense_Mutation_p.E573*|KLHL13_uc011mtn.1_Nonsense_Mutation_p.E464*|KLHL13_uc011mto.1_Nonsense_Mutation_p.E618*|KLHL13_uc011mtp.1_Nonsense_Mutation_p.E626*|KLHL13_uc004eqm.2_Nonsense_Mutation_p.E573*|KLHL13_uc011mtq.1_Nonsense_Mutation_p.E608*	NM_033495	NP_277030	Q9P2N7	KLH13_HUMAN	kelch-like 13	624	Kelch 6.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex				kidney(1)|skin(1)	2						CCAAGGGATTCTGGCAGATCA	0.438													47	14					1.03325e-14	1.20739e-14	0.042209	1	0		A	117032969	A	A	117032969	4	1	97	1	0	0	0	0	0	1	0	0	8385	922	32	5	101	5	KLHL13	23	117032969	Nonsense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	110963862	117032969	38237591	77	61501											
DOCK11	139818	broad.mit.edu	37	chrX	117796673	117796673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttcctaacggatgttcagCgttcaagaaaattactccca	13	12	6	10	2	2	1	2	0	0	1	4	2	4	2	2	1	3	2	2	1	5	5	rs146074785		TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	g.chrX:117796673C>T	uc004eqp.2	+	45	5057	c.4994C>T	c.(4993-4995)GCG>GTG	p.A1665V	DOCK11_uc004eqq.2_Missense_Mutation_p.A1444V	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1665	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						GGATGTTCAGCGTTCAAGAAA	0.368													17	5					0	0	0.038395	0	0		T	117796673	T	T	117796673	3	4	97	1	0	0	0	0	1	0	0	0	4692	768	27	1	5172	1	DOCK11	23	117796673	Missense_Mutation	SNP	C	TCGA-BR-A4J1-01A-11D-A25D-08	763704	117796673	37473887	78	61502											
CLCA1	1179	broad.mit.edu	37	chr1	86965518	86965518	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcttttcattgctattcaGgctgttgataaggtcgatct	8	17	9	7	1	4	1	2	1	2	0	5	3	4	1	0	2	1	3	0	2	2	7			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr1:86965518G>A	uc001dlt.2	+	14	2664	c.2535G>A	c.(2533-2535)CAG>CAA	p.Q845Q		NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	845					calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		TTGCTATTCAGGCTGTTGATA	0.408													44	171					0	0	1	0	0		A	86965518	A	A	86965518	2	1	98	1	0	0	0	0	0	0	0	1	3460	991	35	4		4	CLCA1	1	86965518	Silent	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08		86965518	162285103	1	61503											
EPS8L3	79574	broad.mit.edu	37	chr1	110294652	110294652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaccacagtcagttcccGtgggttcctagcttcaaact	8	11	9	13	1	2	0	2	0	0	0	4	1	4	1	3	2	2	3	3	2	2	4			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr1:110294652G>A	uc001dyr.1	-	15	1544	c.1399C>T	c.(1399-1401)CGG>TGG	p.R467W	EPS8L3_uc001dys.1_Missense_Mutation_p.R437W|EPS8L3_uc001dyq.1_Missense_Mutation_p.R468W|EPS8L3_uc009wfm.1_Missense_Mutation_p.R404W|EPS8L3_uc009wfn.1_Missense_Mutation_p.R412W	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	467	SH3.					cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		GTCAGTTCCCGTGGGTTCCTA	0.602													30	107					0	0	1	0	0		A	110294652	A	A	110294652	3	1	98	1	0	0	0	0	1	0	0	0	5205	1144	40	1	402	1	EPS8L3	1	110294652	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	23329134	110294652	138955969	2	61504											
KCND3	3752	broad.mit.edu	37	chr1	112318860	112318860	+	Missense_Mutation	SNP	G	C	C																															ctgggatgttttgcagtttgGtctcagtccgtcgtctgctt																										TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr1:112318860G>C	uc001ebu.1	-	8	2287	c.1807C>G	c.(1807-1809)CCA>GCA	p.P603A	KCND3_uc001ebv.1_Missense_Mutation_p.P584A	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	603	Cytoplasmic (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		TTGCAGTTTGGTCTCAGTCCG	0.567													10	41					0	0	1	0	0		C	112318860	C	C	112318860	3	2	98	1	0	0	0	0	1	0	0	0	8036	1261	44	5	164	5	KCND3	1	112318860	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	2024208	112318860	136931761	3	61505	118	2									
KCND3	3752	broad.mit.edu	37	chr1	112318869	112318869	+	Missense_Mutation	SNP	C	T	T																															tttgcagtttggtctcagtcCgtcgtctgctttcaaattaa																								rs149344567		TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr1:112318869C>T	uc001ebu.1	-	8	2278	c.1798G>A	c.(1798-1800)GGA>AGA	p.G600R	KCND3_uc001ebv.1_Missense_Mutation_p.G581R	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	600	Cytoplasmic (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		GGTCTCAGTCCGTCGTCTGCT	0.562													10	40					0	0	1	0	0		T	112318869	T	T	112318869	3	4	98	1	0	0	0	0	1	0	0	0	8036	661	23	1	173	1	KCND3	1	112318869	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	9	112318869	136931752	4	61506	118	2									
NBPF10	100132406	broad.mit.edu	37	chr1	145368633	145368633	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aataggttttttactttgacGgtgacaagtctccacctggt	9	15	9	8	1	1	2	0	2	1	0	2	2	1	2	2	3	1	1	2	3	4	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr1:145368633G>A	uc001end.3	+	86	10871	c.10836G>A	c.(10834-10836)ACG>ACA	p.T3612T	NBPF9_uc010oye.1_Silent_p.T896T|NBPF10_uc001emp.3_Intron|NBPF10_uc010oyi.1_Silent_p.T465T|NBPF10_uc010oyk.1_Silent_p.T253T|NBPF10_uc010oyl.1_Silent_p.T253T	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	3537											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		TTACTTTGACGGTGACAAGTC	0.458													36	359					0	0	1	0	0		A	145368633	A	A	145368633	2	1	98	1	0	0	0	0	0	0	0	1	10211	1103	39	1		1	NBPF10	1	145368633	Silent	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	33049764	145368633	103881988	5	61507											
FCRLA	84824	broad.mit.edu	37	chr1	161681755	161681755	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgccaattctcagagctgtAccctcagctgaaccccaagc	10	7	8	16	1	2	2	2	1	1	1	3	2	2	2	4	0	5	3	4	0	4	2			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr1:161681755A>G	uc001gbe.2	+	5	842	c.600A>G	c.(598-600)GTA>GTG	p.V200V	FCRLA_uc001gbd.2_Silent_p.V194V|FCRLA_uc001gbf.2_Silent_p.V105V|FCRLA_uc001gbg.2_Silent_p.V54V|FCRLA_uc009wuo.2_Silent_p.V60V|FCRLA_uc009wup.2_Intron|FCRLA_uc009wuq.2_Intron	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	177	Ig-like C2-type 2.				cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			TCAGAGCTGTACCCTCAGCTG	0.522													59	192					0	0	1	0	0		G	161681755	G	G	161681755	2	3	98	1	0	0	0	0	0	0	0	1	5814	378	14	3		3	FCRLA	1	161681755	Silent	SNP	A	TCGA-BR-A4J4-01A-12D-A25D-08	16313122	161681755	87568866	6	61508											
C1orf65	164127	broad.mit.edu	37	chr1	223568231	223568231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgaggaaggagcggcaaCgcgagctgagggagaaggcc	11	2	19	9	3	0	3	0	2	0	1	0	7	0	5	2	5	3	2	2	5	3	0			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr1:223568231C>T	uc001hoa.2	+	1	1517	c.1414C>T	c.(1414-1416)CGC>TGC	p.R472C		NM_152610	NP_689823	Q8N715	CA065_HUMAN	hypothetical protein LOC164127	472	Potential.									central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0704)		GGAGCGGCAACGCGAGCTGAG	0.607													11	29					0	0	1	0	0		T	223568231	T	T	223568231	3	4	98	1	0	0	0	0	1	0	0	0	2058	536	19	1	1416	1	C1orf65	1	223568231	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	61886476	223568231	25682390	7	61509											
TRIM67	440730	broad.mit.edu	37	chr1	231339757	231339757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtgccgggggacagttccGggtgaggccttgctgcttat	4	10	17	10	3	0	1	0	1	0	0	1	2	1	2	3	5	3	3	3	5	1	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr1:231339757G>A	uc009xfn.1	+	6	1721	c.1679G>A	c.(1678-1680)CGG>CAG	p.R560Q		NM_001004342	NP_001004342	Q6ZTA4	TRI67_HUMAN	tripartite motif-containing 67	560	Fibronectin type-III.					cytoplasm|cytoskeleton	zinc ion binding			ovary(2)|breast(1)|kidney(1)	4	Breast(184;0.0871)	all_cancers(173;0.189)|Prostate(94;0.167)				GGACAGTTCCGGGTGAGGCCT	0.632													12	42					0	0	1	0	0		A	231339757	A	A	231339757	3	1	98	1	0	0	0	0	1	0	0	0	16566	1130	39	1	1701	1	TRIM67	1	231339757	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	7771526	231339757	17910864	8	61510											
OR2M3	127062	broad.mit.edu	37	chr1	248366497	248366497	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggccttcatgggaaactCtgtcatggttctcctcatct	7	14	9	11	0	6	0	3	0	3	0	7	1	6	1	2	3	1	1	2	3	1	2			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr1:248366497C>A	uc010pzg.1	+	1	128	c.128C>A	c.(127-129)TCT>TAT	p.S43Y		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ATGGGAAACTCTGTCATGGTT	0.547													89	289					1.45855e-51	1.70716e-51	1	1	0		A	248366497	A	A	248366497	3	1	98	1	0	0	0	0	1	0	0	0	11030	913	32	5	130	5	OR2M3	1	248366497	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	17026740	248366497	884124	9	61511											
SH3BP5L	80851	broad.mit.edu	37	chr1	249108783	249108783	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggcccgctcgtaccgcagCgctgccttctgtgtctcctg	3	10	11	17	5	2	0	0	0	2	0	4	0	2	0	4	1	3	4	4	1	1	2			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr1:249108783C>T	uc001iew.1	-	5	954	c.402G>A	c.(400-402)GCG>GCA	p.A134A	SH3BP5L_uc010pzp.1_Silent_p.A27A|SH3BP5L_uc010pzq.1_Silent_p.A102A|SH3BP5L_uc001iev.1_Silent_p.A15A	NM_030645	NP_085148	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	134	Potential.										0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			CGTACCGCAGCGCTGCCTTCT	0.607													19	45					0	0	1	0	0		T	249108783	T	T	249108783	2	4	98	1	0	0	0	0	0	0	0	1	14273	755	27	1		1	SH3BP5L	1	249108783	Silent	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	742286	249108783	141838	10	61512											
C2orf53	339779	broad.mit.edu	37	chr2	27360429	27360429	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaggggctgcggggccGgaggcacaccaggcatatag	9	3	19	10	2	0	0	0	0	0	0	0	2	0	2	2	8	1	4	2	8	2	2	rs145326504	byFrequency	TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr2:27360429G>T	uc002rjb.2	-	3	1349	c.769C>A	c.(769-771)CGG>AGG	p.R257R	PREB_uc002rix.1_5'Flank|PREB_uc002riy.1_5'Flank|PREB_uc002riz.1_5'Flank|PREB_uc002rja.1_5'Flank	NM_178553	NP_848648	Q53SZ7	CB053_HUMAN	hypothetical protein LOC339779	257											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGCGGGGCCGGAGGCACACC	0.647													12	36					9.31168e-06	9.59103e-06	1	1	0		T	27360429	T	T	27360429	2	4	98	1	0	0	0	0	0	0	0	1	2177	1115	39	5		5	C2orf53	2	27360429	Silent	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08		27360429	215838944	11	61513											
VIT	5212	broad.mit.edu	37	chr2	36982155	36982155	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttattccaacggtgtccaaTcgttatccctaccacgatgg	9	12	8	12	3	0	0	0	0	0	0	4	1	3	0	4	2	2	2	4	2	5	4			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr2:36982155T>C	uc002rpl.2	+	5	588	c.367T>C	c.(367-369)TCG>CCG	p.S123P	VIT_uc002rpk.2_Missense_Mutation_p.S116P|VIT_uc010ynf.1_Missense_Mutation_p.S116P|VIT_uc002rpm.2_Missense_Mutation_p.S116P|VIT_uc010ezv.2_Missense_Mutation_p.S116P|VIT_uc010ezw.2_Missense_Mutation_p.S116P	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	123	LCCL.					proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				CGGTGTCCAATCGTTATCCCT	0.443													14	33					0	0	1	0	0		C	36982155	C	C	36982155	3	2	98	1	0	0	0	0	1	0	0	0	17197	1435	50	3	381	3	VIT	2	36982155	Missense_Mutation	SNP	T	TCGA-BR-A4J4-01A-12D-A25D-08	9621726	36982155	206217218	12	61514											
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48848398	48848398	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttactcttcagttgccgcaCagcttgcaccaaacattgca	10	12	6	13	1	2	0	1	0	1	0	2	0	2	0	2	0	6	5	2	0	2	6			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr2:48848398C>G	uc010yol.1	+	4	2375	c.2328C>G	c.(2326-2328)CAC>CAG	p.H776Q	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.H776Q|GTF2A1L_uc002rws.1_Missense_Mutation_p.H72Q|GTF2A1L_uc010yom.1_Missense_Mutation_p.H38Q|GTF2A1L_uc002rwt.2_Missense_Mutation_p.H72Q	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	776					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AGTTGCCGCACAGCTTGCACC	0.408													10	52					0	0	1	0	0		G	48848398	G	G	48848398	3	3	98	1	0	0	0	0	1	0	0	0	15342	477	17	5	2342	5	STON1-GTF2A1L	2	48848398	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	11866243	48848398	194350975	13	61515											
MTIF2	4528	broad.mit.edu	37	chr2	55470638	55470638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttttctttctaaaaacCgtagaattgatctcttcttc	9	19	4	9	1	5	2	0	1	5	1	7	2	5	2	1	0	1	2	1	0	5	9			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr2:55470638C>T	uc002ryn.2	-	13	2215	c.1478G>A	c.(1477-1479)CGG>CAG	p.R493Q	MTIF2_uc010yox.1_Missense_Mutation_p.R162Q|MTIF2_uc002ryo.2_Missense_Mutation_p.R493Q	NM_001005369	NP_001005369	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	493					regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1						TTCTAAAAACCGTAGAATTGA	0.343													17	101					0	0	1	0	0		T	55470638	T	T	55470638	3	4	98	1	0	0	0	0	1	0	0	0	9952	652	23	1	725	1	MTIF2	2	55470638	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	6622240	55470638	187728735	14	61516											
NEB	4703	broad.mit.edu	37	chr2	152420119	152420119	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttaaagtggacatttacttaCcgcactcctcatcttttgga	10	15	6	10	1	2	0	1	0	1	0	3	2	3	2	2	2	2	1	2	2	4	6			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr2:152420119C>G	uc010fnx.2	-	91	13781	c.13590_splice	c.e91+1	p.A4530_splice	NEB_uc002txr.2_Splice_Site_p.A953_splice	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3						muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CATTTACTTACCGCACTCCTC	0.468													50	153					0	0	1	0	0		G	152420119	G	G	152420119	5	3	98	1	0	0	0	0	0	0	1	0	10321	521	18	5	7248	5	NEB	2	152420119	Splice_Site	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	96949481	152420119	90779254	15	61517											
SCN1A	6323	broad.mit.edu	37	chr2	166852556	166852556	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataggcttttgcggttttttCgatcctaattttttcattgc	6	21	7	7	2	1	0	1	0	0	0	3	1	2	0	1	2	2	2	1	2	2	11	rs78041051	byFrequency	TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr2:166852556C>T	uc010zcz.1	-	24	4533	c.4515G>A	c.(4513-4515)TCG>TCA	p.S1505S		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1516						voltage-gated sodium channel complex	voltage-gated sodium channel activity	p.S1505L(1)		ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GCGGTTTTTTCGATCCTAATT	0.328													13	72					0	0	1	0	0		T	166852556	T	T	166852556	2	4	98	1	0	0	0	0	0	0	0	1	13939	871	31	1		1	SCN1A	2	166852556	Silent	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	14432437	166852556	76346817	16	61518											
OSBPL6	114880	broad.mit.edu	37	chr2	179197373	179197373	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttttgatttcagattcaGaaaggaaaggtccatgggag	12	12	12	5	0	3	3	2	1	1	2	4	5	4	5	1	3	0	0	1	3	2	4			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr2:179197373G>T	uc002ulx.2	+	7	756	c.378G>T	c.(376-378)CAG>CAT	p.Q126H	OSBPL6_uc002ulw.2_Missense_Mutation_p.Q126H|OSBPL6_uc002uly.2_Missense_Mutation_p.Q126H|OSBPL6_uc010zfe.1_Missense_Mutation_p.Q126H|OSBPL6_uc002ulz.2_Missense_Mutation_p.Q126H|OSBPL6_uc002uma.2_Missense_Mutation_p.Q105H	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	126	PH.				lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			TTCAGATTCAGAAAGGAAAGG	0.358													22	93					3.62473e-10	3.88904e-10	1	1	0		T	179197373	T	T	179197373	3	4	98	1	0	0	0	0	1	0	0	0	11300	933	33	5	439	5	OSBPL6	2	179197373	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	12344817	179197373	64002000	17	61519											
ITGA4	3676	broad.mit.edu	37	chr2	182350607	182350607	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctctccctttctatctaGggagcagtaatgaatgcaat	10	15	7	9	0	3	1	0	1	3	0	5	2	4	2	1	1	2	3	1	1	5	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr2:182350607G>A	uc002unu.2	+	10	1805	c.1042_splice	c.e10-1	p.G348_splice	ITGA4_uc010zfl.1_Splice_Site_p.G348_splice	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor						blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	TTTCTATCTAGGGAGCAGTAA	0.368													22	66					0	0	1	0	0		A	182350607	A	A	182350607	5	1	98	1	0	0	0	0	0	0	1	0	7894	1014	35	4	1079	4	ITGA4	2	182350607	Splice_Site	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	3153234	182350607	60848766	18	61520											
SCG2	7857	broad.mit.edu	37	chr2	224462648	224462648	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatatggattgggaaaataCgacgttttctgatttgctgc	10	16	10	5	2	1	1	0	1	1	0	1	4	1	3	0	2	3	2	0	2	5	7	rs143843249	byFrequency	TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr2:224462648C>T	uc002vnm.2	-	2	1486	c.1353G>A	c.(1351-1353)TCG>TCA	p.S451S		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	451					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		TGGGAAAATACGACGTTTTCT	0.488													20	119					0	0	1	0	0		T	224462648	T	T	224462648	2	4	98	1	0	0	0	0	0	0	0	1	13916	523	19	1		1	SCG2	2	224462648	Silent	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	42112041	224462648	18736725	19	61521											
COL4A4	1286	broad.mit.edu	37	chr2	227919448	227919448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggaaaccaggcagcccccGgggtcctggtgaaatgagag	10	5	16	10	1	0	2	0	2	0	1	1	4	1	3	4	5	2	1	4	5	2	0			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr2:227919448G>A	uc010zlt.1	-	31	3376	c.2722C>T	c.(2722-2724)CGG>TGG	p.R908W		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	908	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		GGCAGCCCCCGGGGTCCTGGT	0.433													11	28					0	0	1	0	0		A	227919448	A	A	227919448	3	1	98	1	0	0	0	0	1	0	0	0	3696	1115	39	1	2422	1	COL4A4	2	227919448	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	3456800	227919448	15279925	20	61522											
ITIH1	3697	broad.mit.edu	37	chr3	52822070	52822070	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacccagcggctgccagacCgagtgaccggcggtgagtcc	8	5	14	14	4	0	3	0	2	0	1	1	4	1	3	5	3	3	1	5	3	1	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr3:52822070C>T	uc003dfs.2	+	17	2017	c.1993C>T	c.(1993-1995)CGA>TGA	p.R665*	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Nonsense_Mutation_p.R266*|ITIH1_uc010hmo.1_Nonsense_Mutation_p.R219*|ITIH1_uc003dfu.2_Nonsense_Mutation_p.R31*	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	665	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		GCTGCCAGACCGAGTGACCGG	0.597													17	68					0	0	1	0	0		T	52822070	T	T	52822070	4	4	98	1	0	0	0	0	0	1	0	0	7919	644	23	1	2059	1	ITIH1	3	52822070	Nonsense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08		52822070	145200360	21	61523											
IFT57	55081	broad.mit.edu	37	chr3	107881416	107881416	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctttgattggagtagtgTgtgttccacaatgccaattc	9	14	10	8	0	0	1	0	1	0	0	2	2	1	2	2	1	2	3	2	1	3	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr3:107881416T>C	uc003dwx.3	-	11	1446	c.1198A>G	c.(1198-1200)ACA>GCA	p.T400A		NM_018010	NP_060480	Q9NWB7	IFT57_HUMAN	estrogen-related receptor beta like 1	400	pDED.				activation of caspase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cilium|microtubule basal body	DNA binding|protein binding			ovary(1)|skin(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(3;0.0428)|Epithelial(53;0.246)			TGGAGTAGTGTGTGTTCCACA	0.393													19	105					0	0	1	0	0		C	107881416	C	C	107881416	3	2	98	1	0	0	0	0	1	0	0	0	7578	1696	59	3	95	3	IFT57	3	107881416	Missense_Mutation	SNP	T	TCGA-BR-A4J4-01A-12D-A25D-08	55059346	107881416	90141014	22	61524											
ARHGAP31	57514	broad.mit.edu	37	chr3	119102043	119102043	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtagatcaaatctttaacAacggtgcacctgggtctctg	11	12	9	9	1	3	1	1	0	2	1	4	1	3	1	1	2	3	2	1	2	4	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr3:119102043A>C	uc003ecj.3	+	6	1184	c.652A>C	c.(652-654)AAC>CAC	p.N218H		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	218					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						AATCTTTAACAACGGTGCACC	0.483													20	125					0	0	1	0	0		C	119102043	C	C	119102043	3	2	98	1	0	0	0	0	1	0	0	0	880	130	5	5	674	5	ARHGAP31	3	119102043	Missense_Mutation	SNP	A	TCGA-BR-A4J4-01A-12D-A25D-08	11220627	119102043	78920387	23	61525											
PLSCR4	57088	broad.mit.edu	37	chr3	145917695	145917695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccatacaatcagtgacccGgaggacgaagggccttagtg	11	6	13	11	2	1	1	1	1	0	0	1	4	1	3	3	3	1	0	3	3	4	2	rs34036393		TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr3:145917695G>A	uc010huy.2	-	6	858	c.529C>T	c.(529-531)CGG>TGG	p.R177W	PLSCR4_uc010huz.2_Missense_Mutation_p.R177W|PLSCR4_uc003evt.3_Missense_Mutation_p.R177W|PLSCR4_uc010hva.2_Intron|PLSCR4_uc003evu.3_Intron	NM_001128305	NP_001121777	Q9NRQ2	PLS4_HUMAN	phospholipid scramblase 4 isoform a	177	Cytoplasmic (By similarity).				blood coagulation|phospholipid scrambling	integral to membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding				0						TCAGTGACCCGGAGGACGAAG	0.483													19	24					0	0	1	0	0		A	145917695	A	A	145917695	3	1	98	1	0	0	0	0	1	0	0	0	12131	1115	39	1	476	1	PLSCR4	3	145917695	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	26815652	145917695	52104735	24	61526											
DVL3	1857	broad.mit.edu	37	chr3	183885732	183885732	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaatgtggaaggcttcacGgaccggagggaggcccgcaa	11	4	15	11	3	1	0	1	0	0	0	1	4	1	4	2	6	0	2	2	6	3	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr3:183885732G>A	uc003fms.2	+	13	1517	c.1377G>A	c.(1375-1377)ACG>ACA	p.T459T	DVL3_uc011bqw.1_Silent_p.T442T|DVL3_uc003fmt.2_Silent_p.T130T|DVL3_uc003fmu.2_Silent_p.T291T	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	459	DEP.				canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			AAGGCTTCACGGACCGGAGGG	0.572													19	129					0	0	1	0	0		A	183885732	A	A	183885732	2	1	98	1	0	0	0	0	0	0	0	1	4843	1103	39	1		1	DVL3	3	183885732	Silent	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	37968037	183885732	14136698	25	61527											
RBM47	54502	broad.mit.edu	37	chr4	40428122	40428122	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagtaggaattctctgaacGtttggagccaccgtgtatac	10	11	11	9	2	1	1	0	1	1	0	2	3	1	3	2	2	3	4	2	2	5	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr4:40428122G>A	uc003gvc.2	-	7	2291	c.1581C>T	c.(1579-1581)AAC>AAT	p.N527N	RBM47_uc003gvd.2_Silent_p.N458N|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Silent_p.N489N	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	527	Ala-rich.					nucleus	nucleotide binding|RNA binding			breast(3)	3						TTCTCTGAACGTTTGGAGCCA	0.527													17	52					0	0	1	0	0		A	40428122	A	A	40428122	2	1	98	1	0	0	0	0	0	0	0	1	13166	1136	40	1		1	RBM47	4	40428122	Silent	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08		40428122	150726154	26	61528											
HERC5	51191	broad.mit.edu	37	chr4	89391825	89391825	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaagttttttaaggaaaagGtaatatatgtaataaattaa	19	14	8	0	0	0	0	0	0	0	0	0	2	0	2	0	3	0	3	0	3	11	9			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr4:89391825G>A	uc003hrt.2	+	10	1451	c.1298_splice	c.e10+1	p.R433_splice	HERC5_uc011cdm.1_Splice_Site_p.R71_splice	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5						innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		TAAGGAAAAGGTAATATATGT	0.299													17	70					0	0	1	0	0		A	89391825	A	A	89391825	5	1	98	1	0	0	0	0	0	0	1	0	7077	1275	44	4	1337	4	HERC5	4	89391825	Splice_Site	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	48963703	89391825	101762451	27	61529											
EMCN	51705	broad.mit.edu	37	chr4	101342516	101342516	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttattacaatcaaagcaataAccaccggcaaaataatacct	19	9	3	10	1	1	0	1	0	0	0	1	0	1	0	3	1	4	2	3	1	10	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr4:101342516A>C	uc003hvr.2	-	8	766	c.587T>G	c.(586-588)GTT>GGT	p.V196G	EMCN_uc011cel.1_Missense_Mutation_p.V183G|EMCN_uc011cem.1_Intron	NM_016242	NP_057326	Q9ULC0	MUCEN_HUMAN	endomucin isoform 1	196	Helical; (Potential).					extracellular region|integral to membrane|plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(123;2.49e-08)		CAAAGCAATAACCACCGGCAA	0.398													21	59					0	0	1	0	0		C	101342516	C	C	101342516	3	2	98	1	0	0	0	0	1	0	0	0	5094	43	2	5	214	5	EMCN	4	101342516	Missense_Mutation	SNP	A	TCGA-BR-A4J4-01A-12D-A25D-08	11950691	101342516	89811760	28	61530											
FSTL5	56884	broad.mit.edu	37	chr4	162307215	162307215	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtaaaggatggttgaaatGccagatcagatatgtgcaga	15	9	12	5	0	1	4	1	1	0	3	1	5	1	5	1	2	2	3	1	2	4	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr4:162307215G>T	uc003iqh.2	-	16	2664	c.2228C>A	c.(2227-2229)GCA>GAA	p.A743E	FSTL5_uc003iqi.2_Missense_Mutation_p.A742E|FSTL5_uc010iqv.2_Missense_Mutation_p.A733E|uc010iqu.1_RNA	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	743						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TGGTTGAAATGCCAGATCAGA	0.413													13	66					0.00010058	0.000101566	1	1	0		T	162307215	T	T	162307215	3	4	98	1	0	0	0	0	1	0	0	0	6094	1319	46	5	319	5	FSTL5	4	162307215	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	60964699	162307215	28847061	29	61531											
ADAMTS12	81792	broad.mit.edu	37	chr5	33588884	33588884	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggggcccgcatgtcgcCgagcatgcttcccactcccc	4	7	11	19	4	0	0	0	0	0	0	3	1	2	0	6	2	2	3	6	2	0	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr5:33588884C>T	uc003jia.1	-	18	2848	c.2685G>A	c.(2683-2685)TCG>TCA	p.S895S	ADAMTS12_uc010iuq.1_Silent_p.S810S	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	895	TSP type-1 3.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CGCATGTCGCCGAGCATGCTT	0.587										HNSCC(64;0.19)	OREG0016553	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	51					0	0	1	0	0		T	33588884	T	T	33588884	2	4	98	1	0	0	0	0	0	0	0	1	257	639	23	1		1	ADAMTS12	5	33588884	Silent	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08		33588884	147326376	30	61532											
IL7R	3575	broad.mit.edu	37	chr5	35876556	35876556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatcaagaagaagcatatGtcaccatgtccagcttctac	15	9	6	11	0	3	2	2	0	1	2	4	2	4	2	2	0	3	2	2	0	6	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr5:35876556G>A	uc003jjs.2	+	8	1437	c.1348G>A	c.(1348-1350)GTC>ATC	p.V450I	IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	450	Cytoplasmic (Potential).				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			AGAAGCATATGTCACCATGTC	0.448													17	44					0	0	1	0	0		A	35876556	A	A	35876556	3	1	98	1	0	0	0	0	1	0	0	0	7721	1377	48	4	1378	4	IL7R	5	35876556	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	2287672	35876556	145038704	31	61533											
CMYA5	202333	broad.mit.edu	37	chr5	79033258	79033258	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccactgtcttcagcaaaaagCaactatgctcaatttatatc	14	12	4	11	0	3	0	2	0	1	0	4	0	3	0	1	0	4	3	1	0	7	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr5:79033258C>A	uc003kgc.2	+	2	8742	c.8670C>A	c.(8668-8670)AGC>AGA	p.S2890R		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2890						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CAGCAAAAAGCAACTATGCTC	0.398													18	72					0.00152264	0.00152264	1	1	0		A	79033258	A	A	79033258	3	1	98	1	0	0	0	0	1	0	0	0	3593	709	25	5	8676	5	CMYA5	5	79033258	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	43156702	79033258	101882002	32	61534											
EDIL3	10085	broad.mit.edu	37	chr5	83402534	83402534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagccccttcttattaagaCgtgcatagtagggataccat	12	12	8	9	1	1	1	0	0	1	1	1	2	1	2	3	1	3	2	3	1	6	7			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr5:83402534C>T	uc003kio.1	-	6	1003	c.584G>A	c.(583-585)CGT>CAT	p.R195H	EDIL3_uc003kip.1_Missense_Mutation_p.R185H	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like	195	F5/8 type C 1.				cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)		CTTATTAAGACGTGCATAGTA	0.433													35	148					0	0	1	0	0		T	83402534	T	T	83402534	3	4	98	1	0	0	0	0	1	0	0	0	4921	536	19	1	882	1	EDIL3	5	83402534	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	4369276	83402534	97512726	33	61535											
GRIA1	2890	broad.mit.edu	37	chr5	153085480	153085480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcctcttcctggtcagccGcttcagtccctatgaatggc	5	13	9	14	1	3	1	2	1	1	0	6	1	6	1	4	2	1	1	4	2	2	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr5:153085480G>A	uc003lva.3	+	11	2041	c.1676G>A	c.(1675-1677)CGC>CAC	p.R559H	GRIA1_uc003luy.3_Missense_Mutation_p.R559H|GRIA1_uc003luz.3_Missense_Mutation_p.R464H|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.R479H|GRIA1_uc011dcx.1_Missense_Mutation_p.R490H|GRIA1_uc011dcy.1_Missense_Mutation_p.R569H|GRIA1_uc011dcz.1_Missense_Mutation_p.R569H|GRIA1_uc010jia.1_Missense_Mutation_p.R539H	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	559	Cytoplasmic (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CTGGTCAGCCGCTTCAGTCCC	0.483													26	105					0	0	1	0	0		A	153085480	A	A	153085480	3	1	98	1	0	0	0	0	1	0	0	0	6783	1087	38	1	1718	1	GRIA1	5	153085480	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	69682946	153085480	27829780	34	61536											
GCM2	9247	broad.mit.edu	37	chr6	10874928	10874928	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggtttgccaattcatagCtgcaaggtggcctaggcaaa	11	9	12	9	0	1	0	1	0	0	0	1	0	1	0	2	4	3	4	2	4	5	4			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr6:10874928C>A	uc003mzn.3	-	5	893	c.821G>T	c.(820-822)AGC>ATC	p.S274I	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	274					cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				CAATTCATAGCTGCAAGGTGG	0.453													47	196					3.21987e-24	3.72637e-24	1	1	0		A	10874928	A	A	10874928	3	1	98	1	0	0	0	0	1	0	0	0	6313	797	28	5	703	5	GCM2	6	10874928	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08		10874928	160240139	35	61537											
SHPRH	257218	broad.mit.edu	37	chr6	146240548	146240548	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctccctaggatcacgcactCttagtcgttctgtagccatt	7	13	8	13	2	3	0	1	0	2	0	5	1	4	1	2	1	1	4	2	1	3	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr6:146240548C>G	uc003qlf.2	-	22	4487	c.4088G>C	c.(4087-4089)AGA>ACA	p.R1363T	SHPRH_uc003qld.2_Missense_Mutation_p.R1367T|SHPRH_uc003qle.2_Missense_Mutation_p.R1367T|SHPRH_uc003qlg.1_Missense_Mutation_p.R919T|SHPRH_uc003qlh.2_Missense_Mutation_p.R288T|SHPRH_uc003qli.1_Missense_Mutation_p.R288T	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	1363					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		ATCACGCACTCTTAGTCGTTC	0.433													61	101					0	0	1	0	0		G	146240548	G	G	146240548	3	3	98	1	0	0	0	0	1	0	0	0	14316	913	32	5	1016	5	SHPRH	6	146240548	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	135365620	146240548	24874519	36	61538											
STXBP5	134957	broad.mit.edu	37	chr6	147685193	147685193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgccccttaccaatatgcGgatagccagaacgttctgct	9	11	8	13	2	1	1	0	0	1	1	1	2	1	2	4	1	6	2	4	1	5	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr6:147685193G>A	uc003qlz.2	+	25	3133	c.2972G>A	c.(2971-2973)CGG>CAG	p.R991Q	STXBP5_uc010khz.1_Missense_Mutation_p.R955Q|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Missense_Mutation_p.R646Q	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	991					exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		ACCAATATGCGGATAGCCAGA	0.363													37	144					0	0	1	0	0		A	147685193	A	A	147685193	3	1	98	1	0	0	0	0	1	0	0	0	15381	1116	39	1	3070	1	STXBP5	6	147685193	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	1444645	147685193	23429874	37	61539											
ARID1B	57492	broad.mit.edu	37	chr6	157528141	157528141	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatattgtccgtagcttgTcattcgtgcctggcaatgat	8	14	9	10	2	1	1	1	1	0	0	3	1	2	1	3	1	2	3	3	1	4	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr6:157528141T>C	uc003qqn.2	+	20	5964	c.5812T>C	c.(5812-5814)TCA>CCA	p.S1938P	ARID1B_uc003qqo.2_Missense_Mutation_p.S1898P|ARID1B_uc003qqp.2_Missense_Mutation_p.S1885P	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1943					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		CCGTAGCTTGTCATTCGTGCC	0.547													53	88					0	0	1	0	0		C	157528141	C	C	157528141	3	2	98	1	0	0	0	0	1	0	0	0	914	1667	58	3	5944	3	ARID1B	6	157528141	Missense_Mutation	SNP	T	TCGA-BR-A4J4-01A-12D-A25D-08	9842948	157528141	13586926	38	61540											
TNS3	64759	broad.mit.edu	37	chr7	47342944	47342944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cactggggcggtgccgaagcCcaggaaggcctggctgctgg	6	5	18	12	2	0	0	0	0	0	0	0	2	0	1	3	7	3	2	3	7	2	0			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr7:47342944C>T	uc003tnv.2	-	22	3428	c.3061G>A	c.(3061-3063)GGC>AGC	p.G1021S	TNS3_uc003tnw.2_Missense_Mutation_p.G1021S	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	1021						focal adhesion	protein binding			ovary(4)	4						GTGCCGAAGCCCAGGAAGGCC	0.682													10	27					0	0	1	0	0		T	47342944	T	T	47342944	3	4	98	1	0	0	0	0	1	0	0	0	16369	623	22	4	1316	4	TNS3	7	47342944	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08		47342944	111795719	39	61541											
IKZF1	10320	broad.mit.edu	37	chr7	50468286	50468286	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccggtacgagttctcgtcGcacataacgcgaggggagca	10	6	14	11	6	1	0	0	0	1	0	3	4	1	1	1	3	3	4	1	3	2	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr7:50468286G>A	uc003tow.3	+	9	1689	c.1521G>A	c.(1519-1521)TCG>TCA	p.S507S	IKZF1_uc003tox.3_Silent_p.S465S|IKZF1_uc003toy.3_Silent_p.S465S|IKZF1_uc011kck.1_Silent_p.S420S|IKZF1_uc003toz.3_Silent_p.S477S|IKZF1_uc010kyx.2_Silent_p.S247S|IKZF1_uc003tpa.3_Silent_p.S249S	NM_006060	NP_006051	Q13422	IKZF1_HUMAN	zinc finger protein, subfamily 1A, 1 (Ikaros)	507	C2H2-type 6.				cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding	p.S507*(1)		haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				AGTTCTCGTCGCACATAACGC	0.617			D		ALL								5	40					0	0	1	0	0		A	50468286	A	A	50468286	2	1	98	1	0	0	0	0	0	0	0	1	7630	1074	38	1		1	IKZF1	7	50468286	Silent	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	3125342	50468286	108670377	40	61542											
FOXP2	93986	broad.mit.edu	37	chr7	114299725	114299725	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggcgtaatgcagcaacttgGaaggtaactacttttccagc	12	10	10	9	1	0	0	0	0	0	0	1	1	1	1	1	3	6	4	1	3	5	6			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr7:114299725G>A	uc003vhb.2	+	13	2018	c.1644G>A	c.(1642-1644)TGG>TGA	p.W548*	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Nonsense_Mutation_p.W573*|FOXP2_uc003vha.2_Nonsense_Mutation_p.W456*|FOXP2_uc011kmu.1_Nonsense_Mutation_p.W565*|FOXP2_uc011kmv.1_Nonsense_Mutation_p.W547*|FOXP2_uc010ljz.1_Nonsense_Mutation_p.W363*|FOXP2_uc003vhe.1_Nonsense_Mutation_p.W118*	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	548	Fork-head.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						CAGCAACTTGGAAGGTAACTA	0.289													14	89					0	0	1	0	0		A	114299725	A	A	114299725	4	1	98	1	0	0	0	0	0	1	0	0	6041	1183	41	4	1857	4	FOXP2	7	114299725	Nonsense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	63831439	114299725	44838938	41	61543											
RBM33	155435	broad.mit.edu	37	chr7	155499703	155499703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accagaggagagagagcaccGagaggggcaggatgaaggac	15	1	18	7	1	0	5	0	1	0	4	0	10	0	7	2	5	1	2	2	5	1	0			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr7:155499703G>A	uc010lqk.1	+	7	1257	c.889G>A	c.(889-891)GAG>AAG	p.E297K	RBM33_uc011kvv.1_Missense_Mutation_p.E106K	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	297							nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		AGAGAGCACCGAGAGGGGCAG	0.577													4	9					0	0	1	0	0		A	155499703	A	A	155499703	3	1	98	1	0	0	0	0	1	0	0	0	13155	1059	37	1	915	1	RBM33	7	155499703	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	41199978	155499703	3638960	42	61544											
OSGIN2	734	broad.mit.edu	37	chr8	90937640	90937640	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcattgggtcctttggtTggagacaattttgttcgatt	6	19	11	5	1	0	1	0	0	0	1	2	3	1	1	1	3	1	3	1	3	1	8			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr8:90937640T>G	uc003yeg.2	+	6	1744	c.1398T>G	c.(1396-1398)GTT>GTG	p.V466V	OSGIN2_uc003yeh.2_Silent_p.V510V	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	466					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			GTCCTTTGGTTGGAGACAATT	0.408													64	90					0	0	1	0	0		G	90937640	G	G	90937640	2	3	98	1	0	0	0	0	0	0	0	1	11309	1799	63	5		5	OSGIN2	8	90937640	Silent	SNP	T	TCGA-BR-A4J4-01A-12D-A25D-08		90937640	55426382	43	61545											
ZFPM2	23414	broad.mit.edu	37	chr8	106800947	106800947	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcttttttcttcttaataggGggtcagctttggtgtacaac	7	18	9	7	0	4	0	1	0	3	0	4	0	4	0	0	3	3	2	0	3	4	8			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr8:106800947G>A	uc003ymd.2	+	6	557	c.534G>A	c.(532-534)GGG>GGA	p.G178G	ZFPM2_uc011lhs.1_5'UTR	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	178					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			TCTTAATAGGGGGTCAGCTTT	0.408													23	77					0	0	1	0	0		A	106800947	A	A	106800947	2	1	98	1	0	0	0	0	0	0	0	1	17683	1246	43	4		4	ZFPM2	8	106800947	Silent	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	15863307	106800947	39563075	44	61546											
SPIN1	10927	broad.mit.edu	37	chr9	91083396	91083396	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgagtggaggggaatggtCttagcacgtgcacctgtcat	9	10	15	7	1	2	1	1	1	1	0	2	4	2	3	1	4	2	2	1	4	2	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr9:91083396C>T	uc010mqj.2	+	5	965	c.465C>T	c.(463-465)GTC>GTT	p.V155V	SPIN1_uc004apy.2_Silent_p.V155V|SPIN1_uc004apz.2_Silent_p.V155V|SPIN1_uc010mqk.2_Silent_p.V155V	NM_006717	NP_006708	Q9Y657	SPIN1_HUMAN	spindlin	155					cell cycle|gamete generation|multicellular organismal development	nucleus	methylated histone residue binding				0						GGGGAATGGTCTTAGCACGTG	0.438													21	69					0	0	1	0	0		T	91083396	T	T	91083396	2	4	98	1	0	0	0	0	0	0	0	1	15077	900	32	4		4	SPIN1	9	91083396	Silent	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08		91083396	50130035	45	61547											
RNF20	56254	broad.mit.edu	37	chr9	104317113	104317113	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctacagaagaagctagcCatggccaagcaggtggactc	13	6	11	11	0	0	2	0	0	0	2	1	3	0	3	3	3	5	2	3	3	6	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr9:104317113C>A	uc004bbn.2	+	15	2247	c.2157C>A	c.(2155-2157)GCC>GCA	p.A719A		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	719	Potential.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		AGAAGCTAGCCATGGCCAAGC	0.378													4	45					1.23904e-05	1.26358e-05	1	1	0		A	104317113	A	A	104317113	2	1	98	1	0	0	0	0	0	0	0	1	13498	581	21	5		5	RNF20	9	104317113	Silent	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	13233717	104317113	36896318	46	61548											
CRB2	286204	broad.mit.edu	37	chr9	126133738	126133738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctccaggacctgcgactcGatggctgccacctccccttc	5	8	9	19	2	0	0	0	0	0	0	4	3	2	1	7	2	2	1	7	2	0	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr9:126133738G>A	uc004bnx.1	+	8	2409	c.2317G>A	c.(2317-2319)GAT>AAT	p.D773N	CRB2_uc004bnw.1_Missense_Mutation_p.D773N	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	773	Extracellular (Potential).|Laminin G-like 2.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						CCTGCGACTCGATGGCTGCCA	0.682													22	113					0	0	1	0	0		A	126133738	A	A	126133738	3	1	98	1	0	0	0	0	1	0	0	0	3852	1058	37	1	2347	1	CRB2	9	126133738	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	21816625	126133738	15079693	47	61549											
COL5A1	1289	broad.mit.edu	37	chr9	137716542	137716542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctggacgacgggaatggcGagaactacgtggactacgcg	10	6	16	9	6	0	1	0	0	0	1	0	6	0	4	0	4	4	1	0	4	4	2	rs149212775	byFrequency	TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr9:137716542G>A	uc004cfe.2	+	62	5177	c.4795G>A	c.(4795-4797)GAG>AAG	p.E1599K	uc004cff.2_Intron	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1599	Nonhelical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		CGGGAATGGCGAGAACTACGT	0.632													15	97					0	0	1	0	0		A	137716542	A	A	137716542	3	1	98	1	0	0	0	0	1	0	0	0	3699	1059	37	1	5041	1	COL5A1	9	137716542	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	11582804	137716542	3496889	48	61550											
SLC34A3	142680	broad.mit.edu	37	chr9	140130522	140130522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggtgaccgcccgttaccGctgggtggctggggtctacc	3	9	17	12	3	1	1	0	1	1	0	1	1	1	1	4	6	2	3	4	6	2	2	rs138872455	byFrequency	TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr9:140130522G>A	uc004cmf.1	+	13	1640	c.1454G>A	c.(1453-1455)CGC>CAC	p.R485H	SLC34A3_uc011met.1_Missense_Mutation_p.R485H	NM_080877	NP_543153	Q8N130	NPT2C_HUMAN	solute carrier family 34 (sodium phosphate),	485	Cytoplasmic (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|integral to membrane	sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GCCCGTTACCGCTGGGTGGCT	0.697											OREG0019630	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	78					0	0	1	0	0		A	140130522	A	A	140130522	3	1	98	1	0	0	0	0	1	0	0	0	14594	1087	38	1	1500	1	SLC34A3	9	140130522	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	2413980	140130522	1082909	49	61551											
PHYH	5264	broad.mit.edu	37	chr10	13336443	13336443	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgacctcggggagagtgcaGtatctgaagagctccttatc	9	10	12	10	1	1	4	0	2	1	2	4	5	2	4	2	2	2	3	2	2	3	2			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr10:13336443G>T	uc001imf.2	-	4	487	c.399C>A	c.(397-399)TAC>TAA	p.Y133*	PHYH_uc001ime.2_Nonsense_Mutation_p.Y33*|PHYH_uc001img.2_Nonsense_Mutation_p.Y114*	NM_006214	NP_006205	O14832	PAHX_HUMAN	phytanoyl-CoA 2-hydroxylase isoform a precursor	133					fatty acid alpha-oxidation|nervous system development	peroxisomal matrix	electron carrier activity|L-ascorbic acid binding|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|phytanoyl-CoA dioxygenase activity|protein binding				0		Ovarian(717;0.0448)			Antihemophilic Factor(DB00025)|Vitamin C(DB00126)	GGAGAGTGCAGTATCTGAAGA	0.443													14	55					2.23348e-06	2.34744e-06	1	1	0		T	13336443	T	T	13336443	4	4	98	1	0	0	0	0	0	1	0	0	11883	1024	36	5	641	5	PHYH	10	13336443	Nonsense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08		13336443	122198304	50	61552											
CUBN	8029	broad.mit.edu	37	chr10	16990548	16990548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcagagacgaatctcagcGtcagggcgctgctgaaggat	12	7	13	9	3	3	2	3	1	1	1	4	5	3	3	0	2	2	2	0	2	3	0			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr10:16990548G>A	uc001ioo.2	-	35	5190	c.5138C>T	c.(5137-5139)ACG>ATG	p.T1713M		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1713	CUB 11.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GAATCTCAGCGTCAGGGCGCT	0.512													6	30					0	0	1	0	0		A	16990548	A	A	16990548	3	1	98	1	0	0	0	0	1	0	0	0	4054	1145	40	1	5865	1	CUBN	10	16990548	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	3654105	16990548	118544199	51	61553											
RASSF4	83937	broad.mit.edu	37	chr10	45486417	45486417	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggacaaaattaaaagactGcgagtacccgctgatttcca	14	8	9	10	3	0	2	0	1	0	1	1	4	1	3	2	1	2	2	2	1	5	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr10:45486417G>T	uc001jbo.2	+	9	841	c.707G>T	c.(706-708)TGC>TTC	p.C236F	RASSF4_uc001jbp.2_Missense_Mutation_p.C267F|RASSF4_uc009xmn.2_Missense_Mutation_p.C166F|RASSF4_uc001jbq.2_Missense_Mutation_p.C133F|RASSF4_uc001jbt.2_Missense_Mutation_p.C193F	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	236	Ras-associating.				cell cycle|signal transduction		protein binding			large_intestine(1)	1						TTAAAAGACTGCGAGTACCCG	0.468													24	86					1.64293e-13	1.80024e-13	1	1	0		T	45486417	T	T	45486417	3	4	98	1	0	0	0	0	1	0	0	0	13113	1319	46	5	737	5	RASSF4	10	45486417	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	28495869	45486417	90048330	52	61554											
CTNNA3	29119	broad.mit.edu	37	chr10	67726396	67726396	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgatgagctctcctcccaGgttctggatctcagctttaa	8	13	8	12	0	3	2	1	2	3	0	6	3	4	3	2	2	2	3	2	2	1	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr10:67726396G>T	uc009xpn.1	-	17	2497	c.2374C>A	c.(2374-2376)CTG>ATG	p.L792M	CTNNA3_uc001jmw.2_Missense_Mutation_p.L792M	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	792					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						TCTCCTCCCAGGTTCTGGATC	0.448													20	64					6.33239e-15	7.08952e-15	1	1	0		T	67726396	T	T	67726396	3	4	98	1	0	0	0	0	1	0	0	0	4017	991	35	5	321	5	CTNNA3	10	67726396	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	22239979	67726396	67808351	53	61555											
KIAA1279	26128	broad.mit.edu	37	chr10	70775550	70775550	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttctttcagattgatggttAtgtcactgaccatattgaag	10	16	9	6	0	3	4	2	3	1	1	3	4	3	4	1	1	0	2	1	1	3	6			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr10:70775550A>G	uc001joy.2	+	7	1340	c.1244A>G	c.(1243-1245)TAT>TGT	p.Y415C		NM_015634	NP_056449	Q96EK5	KBP_HUMAN	KIF1 binding protein	415					cell differentiation|mitochondrial transport|nervous system development	mitochondrion	kinesin binding			ovary(1)	1						ATTGATGGTTATGTCACTGAC	0.403													42	115					0	0	1	0	0		G	70775550	G	G	70775550	3	3	98	1	0	0	0	0	1	0	0	0	8237	449	16	3	1270	3	KIAA1279	10	70775550	Missense_Mutation	SNP	A	TCGA-BR-A4J4-01A-12D-A25D-08	3049154	70775550	64759197	54	61556											
HSPA12A	259217	broad.mit.edu	37	chr10	118451920	118451920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttccagatggcaggcaccGtgatgacccatctgacatca	10	8	10	13	1	2	4	1	3	1	1	3	4	3	4	3	2	0	3	3	2	0	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr10:118451920G>A	uc001lct.2	-	6	710	c.605C>T	c.(604-606)ACG>ATG	p.T202M	HSPA12A_uc001lcu.2_Missense_Mutation_p.T119M	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	202							ATP binding			ovary(1)	1				all cancers(201;0.0158)		GGCAGGCACCGTGATGACCCA	0.577													45	172					0	0	1	0	0		A	118451920	A	A	118451920	3	1	98	1	0	0	0	0	1	0	0	0	7420	1145	40	1	1450	1	HSPA12A	10	118451920	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	47676370	118451920	17082827	55	61557											
OR4C13	283092	broad.mit.edu	37	chr11	49974639	49974639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgcgtggtcatactgtactCcttaaagacccacagcttag	10	11	8	12	1	1	1	1	0	0	1	2	1	2	1	2	1	4	2	2	1	5	4			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr11:49974639C>T	uc010rhz.1	+	1	665	c.665C>T	c.(664-666)TCC>TTC	p.S222F		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						ATACTGTACTCCTTAAAGACC	0.478													26	98					0	0	1	0	0		T	49974639	T	T	49974639	3	4	98	1	0	0	0	0	1	0	0	0	11066	855	30	4	667	4	OR4C13	11	49974639	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08		49974639	85031877	56	61558											
FDXACB1	91893	broad.mit.edu	37	chr11	111750129	111750129	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttgagcgacttcatcaCacctgcatgaggtcacaagc	10	8	10	13	1	3	2	3	2	0	0	3	3	3	2	2	2	3	1	2	2	1	2			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr11:111750129C>T	uc001pmc.3	-	1	25	c.-272G>A	c.(-274--270)GTGTG>GTATG		ALG9_uc010rwo.1_Translation_Start_Site|FDXACB1_uc009yyi.2_Translation_Start_Site|C11orf1_uc001pmd.2_5'UTR|C11orf1_uc001pme.2_5'Flank	NM_138378	NP_612387	Q9BRP7	FDXA1_HUMAN	ferredoxin-fold anticodon binding domain						phenylalanyl-tRNA aminoacylation|tRNA processing		ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0						GACTTCATCACACCTGCATGA	0.577											OREG0021330	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	36					0	0	1	0	0		T	111750129	T	T	111750129	1	4	98	1	0	0	0	0	0	0	0	0	5820	493	17	4		4	FDXACB1	11	111750129	Translation_Start_Site	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	61775490	111750129	23256387	57	61559											
ZBTB16	7704	broad.mit.edu	37	chr11	114112981	114112981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaggtccacgcgggcgtgCgcagctacatctgcagtgag	7	7	16	11	4	1	1	0	1	1	0	2	2	2	2	1	3	4	3	1	3	1	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr11:114112981C>T	uc001pop.2	+	5	1810	c.1546C>T	c.(1546-1548)CGC>TGC	p.R516C	ZBTB16_uc001poq.2_Missense_Mutation_p.R516C	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	516					apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		CGCGGGCGTGCGCAGCTACAT	0.627													12	56					0	0	1	0	0		T	114112981	T	T	114112981	3	4	98	1	0	0	0	0	1	0	0	0	17551	768	27	1	1560	1	ZBTB16	11	114112981	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	2362852	114112981	20893535	58	61560											
DSCAML1	57453	broad.mit.edu	37	chr11	117395775	117395775	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtggaagccatccaggaTggtggggatcgactcagcag	10	6	17	8	1	1	0	1	0	0	0	3	5	2	4	2	6	2	1	2	6	1	0			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr11:117395775T>C	uc001prh.1	-	5	864	c.862A>G	c.(862-864)ATC>GTC	p.I288V	DSCAML1_uc001pri.1_Missense_Mutation_p.I92V	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	228	Ig-like C2-type 3.|Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CCATCCAGGATGGTGGGGATC	0.677													5	11					0	0	1	0	0		C	117395775	C	C	117395775	3	2	98	1	0	0	0	0	1	0	0	0	4775	1464	51	3	5595	3	DSCAML1	11	117395775	Missense_Mutation	SNP	T	TCGA-BR-A4J4-01A-12D-A25D-08	3282794	117395775	17610741	59	61561											
MFRP	83552	broad.mit.edu	37	chr11	119217033	119217033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atcctctgggaaaactggggGagggcagggtggcccagact	9	6	17	9	0	1	1	0	0	1	1	2	3	2	3	2	6	1	1	2	6	2	0			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr11:119217033G>A	uc001pwj.2	-	2	266	c.106C>T	c.(106-108)CCC>TCC	p.P36S	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Missense_Mutation_p.P36S	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	62	Collagen-like.					collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		AAAACTGGGGGAGGGCAGGGT	0.637													16	38					0	0	1	0	0		A	119217033	A	A	119217033	3	1	98	1	0	0	0	0	1	0	0	0	9544	1174	41	4	1681	4	MFRP	11	119217033	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	1821258	119217033	15789483	60	61562											
VWF	7450	broad.mit.edu	37	chr12	6128308	6128308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgcttctcgatgaggcGgatctgcttgaggttggcat	5	12	15	9	2	2	2	0	2	2	0	3	4	2	3	1	5	2	4	1	5	0	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr12:6128308G>A	uc001qnn.1	-	28	4526	c.4276C>T	c.(4276-4278)CGC>TGC	p.R1426C	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1426	VWFA 1; binding site for platelet glycoprotein Ib.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	TCGATGAGGCGGATCTGCTTG	0.572													24	87					0	0	1	0	0		A	6128308	A	A	6128308	3	1	98	1	0	0	0	0	1	0	0	0	17272	1116	39	1	4265	1	VWF	12	6128308	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08		6128308	127723587	61	61563											
CHD4	1108	broad.mit.edu	37	chr12	6692411	6692411	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgacctgtttacggattCtttttcctttgcccagattt	6	19	7	9	1	1	2	0	1	1	1	2	3	2	3	3	1	2	2	3	1	1	8			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr12:6692411C>A	uc001qpo.2	-	26	4177	c.4013G>T	c.(4012-4014)AGA>ATA	p.R1338I	CHD4_uc001qpn.2_Missense_Mutation_p.R1331I|CHD4_uc001qpp.2_Missense_Mutation_p.R1335I|uc001qpq.1_3'UTR|SCARNA11_uc001qpr.1_5'Flank	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1338					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TTTACGGATTCTTTTTCCTTT	0.552													42	186					1.6237e-14	1.79829e-14	1	1	0		A	6692411	A	A	6692411	3	1	98	1	0	0	0	0	1	0	0	0	3330	913	32	5	1785	5	CHD4	12	6692411	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	564103	6692411	127159484	62	61564											
EMG1	10436	broad.mit.edu	37	chr12	7083744	7083744	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgatggatagtcccctgAaccgagctggcttgctacag	8	10	12	11	1	0	2	0	2	0	0	1	4	1	3	3	2	5	4	3	2	3	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr12:7083744A>G	uc001qsh.3	+	5	444	c.301A>G	c.(301-303)AAC>GAC	p.N101D	EMG1_uc009zfo.2_Intron|EMG1_uc010sfv.1_RNA	NM_006331	NP_006322	Q92979	NEP1_HUMAN	ribosome biogenesis protein NEP1	101					ribosomal small subunit biogenesis	cytoplasm|nucleolus	rRNA (pseudouridine) methyltransferase activity|rRNA binding				0						TAGTCCCCTGAACCGAGCTGG	0.488													10	29					0	0	1	0	0		G	7083744	G	G	7083744	3	3	98	1	0	0	0	0	1	0	0	0	5098	246	9	3	310	3	EMG1	12	7083744	Missense_Mutation	SNP	A	TCGA-BR-A4J4-01A-12D-A25D-08	391333	7083744	126768151	63	61565											
CSAD	51380	broad.mit.edu	37	chr12	53566164	53566164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctcagtgataatgcgccCggccagagcatggggatcca	9	7	13	12	2	1	2	1	1	1	1	3	3	2	3	3	3	2	2	3	3	1	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr12:53566164C>T	uc001sby.2	-	5	436	c.310G>A	c.(310-312)GGG>AGG	p.G104R	CSAD_uc001sbw.2_Intron|CSAD_uc009zmt.2_5'UTR|CSAD_uc010snx.1_Missense_Mutation_p.G131R|CSAD_uc001sbz.2_Missense_Mutation_p.G104R|CSAD_uc009zmu.2_Intron|CSAD_uc001sca.3_RNA|CSAD_uc010sny.1_Missense_Mutation_p.G104R	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	104					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	ATAATGCGCCCGGCCAGAGCA	0.567									Hereditary_Prostate_Cancer				38	70					0	0	1	0	0		T	53566164	T	T	53566164	3	4	98	1	0	0	0	0	1	0	0	0	3928	652	23	1	1219	1	CSAD	12	53566164	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	46482420	53566164	80285731	64	61566											
SRGAP1	57522	broad.mit.edu	37	chr12	64485106	64485106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacaggaagtccaggccccGctcacagtataatactaagt	14	7	8	12	1	1	0	1	0	0	0	2	1	2	1	3	2	1	2	3	2	5	4	rs149964620		TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr12:64485106G>A	uc010ssp.1	+	12	1543	c.1487G>A	c.(1486-1488)CGC>CAC	p.R496H	SRGAP1_uc001srv.2_Intron	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	496					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		TCCAGGCCCCGCTCACAGTAT	0.453													14	95					0	0	1	0	0		A	64485106	A	A	64485106	3	1	98	1	0	0	0	0	1	0	0	0	15170	1087	38	1	1533	1	SRGAP1	12	64485106	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	10918942	64485106	69366789	65	61567											
LGR5	8549	broad.mit.edu	37	chr12	71833964	71833964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgttgctgaggggctgccCcacacactgtcattgcgagc	6	10	13	12	1	1	1	1	1	0	0	1	2	1	1	2	2	4	3	2	2	0	2			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr12:71833964C>T	uc001swl.2	+	1	152	c.104C>T	c.(103-105)CCC>CTC	p.P35L	TSPAN8_uc001swk.1_Intron|LGR5_uc001swm.2_Missense_Mutation_p.P35L|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	35	LRRNT.|Extracellular (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						AGGGGCTGCCCCACACACTGT	0.662													35	67					0	0	1	0	0		T	71833964	T	T	71833964	3	4	98	1	0	0	0	0	1	0	0	0	8773	623	22	4	106	4	LGR5	12	71833964	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	7348858	71833964	62017931	66	61568											
NOS1	4842	broad.mit.edu	37	chr12	117723124	117723124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggccgtggtgcagtcaCgggcatcgaatacctggaag	8	7	16	10	4	1	0	1	0	0	0	2	2	1	1	2	4	2	2	2	4	3	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr12:117723124C>T	uc001twm.1	-	7	1990	c.1304G>A	c.(1303-1305)CGT>CAT	p.R435H		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	435					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GGTGCAGTCACGGGCATCGAA	0.557													7	36					0	0	1	0	0		T	117723124	T	T	117723124	3	4	98	1	0	0	0	0	1	0	0	0	10560	536	19	1	3092	1	NOS1	12	117723124	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	45889160	117723124	16128771	67	61569											
SYNE2	23224	broad.mit.edu	37	chr14	64596520	64596520	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagcagatgcatatacagtGgagctggagaacgccgagag	15	5	14	7	2	0	3	0	0	0	3	0	6	0	4	1	2	5	3	1	2	4	2			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr14:64596520G>C	uc001xgm.2	+	75	14270	c.14040G>C	c.(14038-14040)GTG>GTC	p.V4680V	SYNE2_uc001xgl.2_Silent_p.V4680V|SYNE2_uc010apy.2_Silent_p.V1065V|SYNE2_uc010apz.1_Silent_p.V572V	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	4680	Potential.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CATATACAGTGGAGCTGGAGA	0.403													18	54					0	0	1	0	0		C	64596520	C	C	64596520	2	2	98	1	0	0	0	0	0	0	0	1	15471	1335	47	5		5	SYNE2	14	64596520	Silent	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08		64596520	42753020	68	61570											
CCDC88C	440193	broad.mit.edu	37	chr14	91749697	91749697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcggcctgggtgccgggCgatgggggtggagttggaag	4	7	24	6	3	0	0	0	0	0	0	0	3	0	2	2	8	2	1	2	8	1	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr14:91749697C>T	uc010aty.2	-	26	4705	c.4606G>A	c.(4606-4608)GCC>ACC	p.A1536T	CCDC88C_uc001xzj.2_Missense_Mutation_p.A60T|CCDC88C_uc001xzi.2_5'UTR	NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	1536					microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				GGGTGCCGGGCGATGGGGGTG	0.642													10	35					0	0	1	0	0		T	91749697	T	T	91749697	3	4	98	1	0	0	0	0	1	0	0	0	2868	768	27	1	1500	1	CCDC88C	14	91749697	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	27153177	91749697	15599843	69	61571											
LGMN	5641	broad.mit.edu	37	chr14	93176158	93176158	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgactggaggtagggggacGggagaactggctttgcgttt	7	10	19	5	2	0	2	0	1	0	1	0	5	0	4	0	6	2	3	0	6	2	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr14:93176158G>A	uc001yav.2	-	12	1205	c.879C>T	c.(877-879)CCC>CCT	p.P293P	LGMN_uc001yat.2_Silent_p.P293P|LGMN_uc001yau.2_Silent_p.P293P|LGMN_uc001yaw.2_Silent_p.P293P|LGMN_uc010aul.2_Silent_p.P174P|LGMN_uc001yax.2_Silent_p.P293P|LGMN_uc001yay.2_Silent_p.P293P	NM_001008530	NP_001008530	Q99538	LGMN_HUMAN	legumain preproprotein	293					hormone biosynthetic process|negative regulation of neuron apoptosis|vitamin D metabolic process	lysosome	cysteine-type endopeptidase activity|protein serine/threonine kinase activity			skin(1)	1		all_cancers(154;0.0706)		COAD - Colon adenocarcinoma(157;0.224)		GTAGGGGGACGGGAGAACTGG	0.463													25	91					0	0	1	0	0		A	93176158	A	A	93176158	2	1	98	1	0	0	0	0	0	0	0	1	8771	1103	39	1		1	LGMN	14	93176158	Silent	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	1426461	93176158	14173382	70	61572											
IL16	3603	broad.mit.edu	37	chr15	81592486	81592486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccccctggcccggaccCgctcctaaggctgctgtcaa	5	8	9	19	2	2	0	1	0	1	0	4	1	3	1	6	3	1	3	6	3	2	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr15:81592486C>T	uc002bgh.3	+	14	3195	c.2819C>T	c.(2818-2820)CCG>CTG	p.P940L	IL16_uc010blq.1_Missense_Mutation_p.P894L|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Missense_Mutation_p.P982L|IL16_uc002bgg.2_Missense_Mutation_p.P940L|IL16_uc002bgi.1_Missense_Mutation_p.P330L|IL16_uc002bgj.2_Missense_Mutation_p.P434L|IL16_uc002bgk.2_Missense_Mutation_p.P239L|IL16_uc002bgl.1_Missense_Mutation_p.P239L|IL16_uc010unq.1_Missense_Mutation_p.P239L	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	940					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						GGCCCGGACCCGCTCCTAAGG	0.657													26	45					0	0	1	0	0		T	81592486	T	T	81592486	3	4	98	1	0	0	0	0	1	0	0	0	7649	652	23	1	2869	1	IL16	15	81592486	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08		81592486	20938906	71	61573											
ZNF263	10127	broad.mit.edu	37	chr16	3334025	3334025	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caagagctttgccatgggtgGcttcggcctgagatgcgcac	7	9	14	11	2	0	2	0	1	0	2	1	3	0	2	2	3	3	3	2	3	1	2			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr16:3334025G>T	uc002cuq.2	+	1	539	c.207G>T	c.(205-207)TGG>TGT	p.W69C	ZNF263_uc010uww.1_Intron|ZNF263_uc002cup.2_Missense_Mutation_p.W69C	NM_005741	NP_005732	O14978	ZN263_HUMAN	zinc finger protein 263	69	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(3)|ovary(1)	4						GCCATGGGTGGCTTCGGCCTG	0.637													27	101					8.88839e-20	1.01723e-19	1	1	0		T	3334025	T	T	3334025	3	4	98	1	0	0	0	0	1	0	0	0	17828	1212	42	5	209	5	ZNF263	16	3334025	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08		3334025	87020728	72	61574											
CNGB1	1258	broad.mit.edu	37	chr16	57931809	57931809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatgtacatctcacggcCgatctccccctgaaacaaag	12	8	8	13	2	2	2	1	2	2	0	4	4	2	2	3	1	2	1	3	1	3	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr16:57931809C>T	uc002emt.2	-	30	3051	c.2986G>A	c.(2986-2988)GGC>AGC	p.G996S	CNGB1_uc010cdh.2_Missense_Mutation_p.G990S	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	996	Cytoplasmic (Potential).|cAMP (By similarity).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						ATCTCACGGCCGATCTCCCCC	0.502													36	146					0	0	1	0	0		T	57931809	T	T	57931809	3	4	98	1	0	0	0	0	1	0	0	0	3603	652	23	1	785	1	CNGB1	16	57931809	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	54597784	57931809	32422944	73	61575											
PRPF8	10594	broad.mit.edu	37	chr17	1586851	1586851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaaacccttttgtcatggCggaacttcctgttggtcatg	8	14	10	9	1	2	0	2	0	0	0	3	1	3	1	2	3	2	2	2	3	3	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr17:1586851C>T	uc002fte.2	-	3	359	c.245G>A	c.(244-246)CGC>CAC	p.R82H		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	82						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		TTTGTCATGGCGGAACTTCCT	0.473													27	95					0	0	1	0	0		T	1586851	T	T	1586851	3	4	98	1	0	0	0	0	1	0	0	0	12597	768	27	1	6926	1	PRPF8	17	1586851	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08		1586851	79608359	74	61576											
MYOCD	93649	broad.mit.edu	37	chr17	12656514	12656514	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccccagtgttcccctcagCattcaccgctgggggctgtg	4	9	12	16	1	2	0	2	0	0	0	3	0	3	0	5	2	1	4	5	2	0	2			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr17:12656514C>A	uc002gnn.2	+	10	2208	c.1909C>A	c.(1909-1911)CAT>AAT	p.H637N	MYOCD_uc002gno.2_Missense_Mutation_p.H637N|MYOCD_uc002gnp.1_Missense_Mutation_p.H541N|MYOCD_uc002gnq.2_Missense_Mutation_p.H356N	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	637					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		TTCCCCTCAGCATTCACCGCT	0.547													37	142					5.8336e-16	6.60287e-16	1	1	0		A	12656514	A	A	12656514	3	1	98	1	0	0	0	0	1	0	0	0	10105	710	25	5	1947	5	MYOCD	17	12656514	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	11069663	12656514	68538696	75	61577											
SLC6A4	6532	broad.mit.edu	37	chr17	28537598	28537598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgagcacgaaccgctcccGgcgcttggcccagacgtgtg	6	5	15	15	6	0	1	0	0	0	1	1	3	1	1	3	3	2	3	3	3	1	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr17:28537598G>A	uc002hey.3	-	11	1928	c.1384C>T	c.(1384-1386)CGG>TGG	p.R462W	SLC6A4_uc010csg.2_RNA	NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	462					response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	AACCGCTCCCGGCGCTTGGCC	0.597													20	95					0	0	1	0	0		A	28537598	A	A	28537598	3	1	98	1	0	0	0	0	1	0	0	0	14711	1115	39	1	528	1	SLC6A4	17	28537598	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	15881084	28537598	52657612	76	61578											
KRTAP4-8	728224	broad.mit.edu	37	chr17	39254221	39254221	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgtagctggggcggtagCaggtggtcctgcagcaggtg	6	8	18	9	1	0	0	0	0	0	0	1	0	1	0	1	6	4	6	1	6	2	2			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr17:39254221C>A	uc010wfo.1	-	1	155	c.116G>T	c.(115-117)TGC>TTC	p.C39F		NM_031960	NP_114166	Q9BYQ9	KRA48_HUMAN	keratin associated protein 4.8	39	25 X 5 AA repeats of C-C-[IKRQVHEC]- [SPRT]-[STCVQPR].|4.					keratin filament					0						GGGGCGGTAGCAGGTGGTCCT	0.652													25	51					1.26454e-06	1.34276e-06	1	1	0		A	39254221	A	A	39254221	3	1	98	1	0	0	0	0	1	0	0	0	8572	710	25	5	445	5	KRTAP4-8	17	39254221	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	10716623	39254221	41940989	77	61579											
TBX4	9496	broad.mit.edu	37	chr17	59557598	59557598	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacggggcacactcacagctCgcggagccgcaggacctgcc	9	3	13	16	4	1	0	1	0	0	0	2	2	1	2	3	4	4	3	3	4	1	0			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr17:59557598C>T	uc002izi.2	+	7	984	c.939C>T	c.(937-939)CTC>CTT	p.L313L	TBX4_uc010ddo.2_Silent_p.L313L|TBX4_uc010woy.1_Silent_p.L313L	NM_018488	NP_060958	P57082	TBX4_HUMAN	T-box 4	313					leg morphogenesis|skeletal system morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						ACTCACAGCTCGCGGAGCCGC	0.647													41	59					0	0	1	0	0		T	59557598	T	T	59557598	2	4	98	1	0	0	0	0	0	0	0	1	15685	871	31	1		1	TBX4	17	59557598	Silent	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	20303377	59557598	21637612	78	61580											
DAPK3	1613	broad.mit.edu	37	chr19	3959148	3959148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctcctgctccagggcgCgcacgaggtcctgcacgaag	6	7	13	15	4	1	0	0	0	1	0	4	2	3	0	3	2	2	4	3	2	1	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr19:3959148C>T	uc002lzc.1	-	8	1409	c.1316G>A	c.(1315-1317)CGC>CAC	p.R439H	DAPK3_uc002lzb.1_Missense_Mutation_p.R176H|DAPK3_uc002lzd.1_Missense_Mutation_p.R439H	NM_001348	NP_001339	O43293	DAPK3_HUMAN	death-associated protein kinase 3	439	Interaction with CDC5L (By similarity).				apoptosis|chromatin modification|induction of apoptosis|intracellular protein kinase cascade	cytoplasm|PML body	ATP binding|leucine zipper domain binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|ovary(1)|large_intestine(1)	7		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCAGGGCGCGCACGAGGTC	0.711													6	17					0	0	1	0	0		T	3959148	T	T	3959148	3	4	98	1	0	0	0	0	1	0	0	0	4240	768	27	1	52	1	DAPK3	19	3959148	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08		3959148	55169835	79	61581											
KIAA1543	57662	broad.mit.edu	37	chr19	7682912	7682912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcaagaaacccaccaCtcccaagaagggcggcggca	13	1	13	14	2	0	2	0	0	0	2	1	2	1	2	3	4	1	3	3	4	4	0			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr19:7682912C>T	uc002mgv.3	+	17	3820	c.3719C>T	c.(3718-3720)ACT>ATT	p.T1240I	KIAA1543_uc002mgu.3_Missense_Mutation_p.T1267I|KIAA1543_uc002mgw.2_Missense_Mutation_p.T370I	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	1240	CKK.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						AAACCCACCACTCCCAAGAAG	0.672													15	59					0	0	1	0	0		T	7682912	T	T	7682912	3	4	98	1	0	0	0	0	1	0	0	0	8259	565	20	4	3874	4	KIAA1543	19	7682912	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	3723764	7682912	51446071	80	61582											
LPHN1	22859	broad.mit.edu	37	chr19	14262032	14262032	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ggccgtgcagctctccgactCgtccagatcgctctggtaca	6	9	11	15	4	2	1	0	0	2	1	6	2	3	1	3	2	3	4	3	2	1	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr19:14262032C>G	uc010xnn.1	-	24	4374	c.4078G>C	c.(4078-4080)GAG>CAG	p.E1360Q	LPHN1_uc010xno.1_Missense_Mutation_p.E1355Q|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	1360	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						CTCTCCGACTCGTCCAGATCG	0.692													8	40					0	0	1	0	0		G	14262032	G	G	14262032	3	3	98	1	0	0	0	0	1	0	0	0	8933	893	31	5	350	5	LPHN1	19	14262032	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	6579120	14262032	44866951	81	61583											
OCEL1	79629	broad.mit.edu	37	chr19	17337947	17337947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccctcctgggcgccaagaagCctattggagccatccctaag	9	7	10	15	1	0	1	0	0	0	1	2	2	2	2	6	2	2	0	6	2	4	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr19:17337947C>T	uc002nfp.2	+	3	393	c.391C>T	c.(391-393)CCT>TCT	p.P131S		NM_024578	NP_078854	Q9H607	OCEL1_HUMAN	occludin/ELL domain containing 1	131										central_nervous_system(1)	1						CGCCAAGAAGCCTATTGGAGC	0.597													30	130					0	0	1	0	0		T	17337947	T	T	17337947	3	4	98	1	0	0	0	0	1	0	0	0	10835	739	26	2	401	2	OCEL1	19	17337947	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	3075915	17337947	41791036	82	61584											
ZNF160	90338	broad.mit.edu	37	chr19	53572897	53572897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgaatagttagatttgaaCgaacagtaaaggttttgccg	14	12	11	4	2	0	3	0	2	0	1	0	5	0	3	1	1	3	3	1	1	7	6	rs145414197		TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr19:53572897C>T	uc010eqk.2	-	7	1306	c.890G>A	c.(889-891)CGT>CAT	p.R297H	ZNF160_uc002qaq.3_Missense_Mutation_p.R297H|ZNF160_uc002qar.3_Missense_Mutation_p.R297H	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	297	C2H2-type 2.				hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		TAGATTTGAACGAACAGTAAA	0.413													22	126					0	0	1	0	0		T	53572897	T	T	53572897	3	4	98	1	0	0	0	0	1	0	0	0	17764	536	19	1	1570	1	ZNF160	19	53572897	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	36234950	53572897	5556086	83	61585											
PROKR2	128674	broad.mit.edu	37	chr20	5294853	5294853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagtgcaatgccaatgaCgatcttggctgcgaagaagg	11	8	13	9	2	1	2	0	1	1	1	1	4	1	2	2	2	4	2	2	2	4	1	rs146963803	by1000genomes	TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr20:5294853C>T	uc010zqw.1	-	1	163	c.163G>A	c.(163-165)GTC>ATC	p.V55I	PROKR2_uc010zqx.1_Missense_Mutation_p.V55I|PROKR2_uc010zqy.1_Missense_Mutation_p.V55I|uc002wly.1_5'Flank	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	55	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						ATGCCAATGACGATCTTGGCT	0.517										HNSCC(71;0.22)			22	110					0	0	1	0	0		T	5294853	T	T	5294853	3	4	98	1	0	0	0	0	1	0	0	0	12575	536	19	1	998	1	PROKR2	20	5294853	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08		5294853	57730667	84	61586											
CHD6	84181	broad.mit.edu	37	chr20	40033670	40033670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcatggctactcggcttgtCttccgcagtcttttcagtca	6	15	8	12	2	5	0	3	0	2	0	7	0	6	0	1	2	1	3	1	2	1	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr20:40033670C>T	uc002xka.1	-	37	7889	c.7711G>A	c.(7711-7713)GAC>AAC	p.D2571N	CHD6_uc002xjz.1_Missense_Mutation_p.D108N	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2571					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				CTCGGCTTGTCTTCCGCAGTC	0.507													96	129					0	0	1	0	0		T	40033670	T	T	40033670	3	4	98	1	0	0	0	0	1	0	0	0	3332	913	32	4	440	4	CHD6	20	40033670	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	34738817	40033670	22991850	85	61587											
TAF4	6874	broad.mit.edu	37	chr20	60581663	60581663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggtcacggtggccgccGtcttcccggccgtgcgctgg	2	8	15	16	6	2	0	1	0	1	0	3	0	3	0	4	5	1	1	4	5	0	1			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr20:60581663G>A	uc002ybs.2	-	7	2126	c.2126C>T	c.(2125-2127)ACG>ATG	p.T709M		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	709					interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			GGTGGCCGCCGTCTTCCCGGC	0.721													8	30					0	0	1	0	0		A	60581663	A	A	60581663	3	1	98	1	0	0	0	0	1	0	0	0	15551	1145	40	1	1167	1	TAF4	20	60581663	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08	20547993	60581663	2443857	86	61588											
SS18L1	26039	broad.mit.edu	37	chr20	60749663	60749663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagcaccgcagacagcgcCgtctgcccagcagcagcggc	8	2	13	18	5	1	1	0	0	1	1	1	2	1	1	4	1	6	4	4	1	0	0			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr20:60749663C>T	uc002ycb.2	+	10	1182	c.1127C>T	c.(1126-1128)CCG>CTG	p.P376L	SS18L1_uc011aaa.1_Missense_Mutation_p.P376L|SS18L1_uc002ybz.1_RNA|SS18L1_uc002yca.1_RNA|SS18L1_uc002ycc.1_RNA	NM_198935	NP_945173	O75177	CREST_HUMAN	SS18-like protein 1	376	Gln-rich.|SH3-binding (Potential).|Necessary for nuclear localization (By similarity).				chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed chromosome kinetochore				ovary(2)	2	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.92e-08)			CAGACAGCGCCGTCTGCCCAG	0.617			T	SSX1	synovial sarcoma								34	179					0	0	1	0	0		T	60749663	T	T	60749663	3	4	98	1	0	0	0	0	1	0	0	0	15201	652	23	1	1165	1	SS18L1	20	60749663	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	168000	60749663	2275857	87	61589											
TIMP3	7078	broad.mit.edu	37	chr22	33253288	33253288	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtacatccatacggaagCttccgagagtctctgtggcc	9	9	11	12	2	1	1	0	0	1	1	4	3	3	2	3	2	3	3	3	2	3	3			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chr22:33253288C>A	uc003anb.2	+	3	1443	c.257C>A	c.(256-258)GCT>GAT	p.A86D	SYN3_uc003amx.2_Intron|SYN3_uc003amy.2_Intron|SYN3_uc003amz.2_Intron	NM_000362	NP_000353	P35625	TIMP3_HUMAN	tissue inhibitor of metalloproteinase 3	86	NTR.				negative regulation of membrane protein ectodomain proteolysis|visual perception		metal ion binding|metalloendopeptidase inhibitor activity|protein binding			lung(1)	1						CATACGGAAGCTTCCGAGAGT	0.512													23	70					1.42536e-11	1.54539e-11	1	1	0		A	33253288	A	A	33253288	3	1	98	1	0	0	0	0	1	0	0	0	15944	797	28	5	267	5	TIMP3	22	33253288	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08		33253288	18051278	88	61590											
WWC3	55841	broad.mit.edu	37	chrX	10058819	10058819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttttaactaggattgatcGgaagatgtcaagtactcaca	13	13	9	6	1	2	2	2	1	0	1	3	4	2	4	0	2	2	2	0	2	5	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chrX:10058819G>A	uc004csx.3	+	6	584	c.386G>A	c.(385-387)CGG>CAG	p.R129Q	WWC3_uc010nds.2_5'UTR|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	129										ovary(4)	4						AGGATTGATCGGAAGATGTCA	0.428													11	19					0	0	1	0	0		A	10058819	A	A	10058819	3	1	98	1	0	0	0	0	1	0	0	0	17439	1116	39	1	404	1	WWC3	23	10058819	Missense_Mutation	SNP	G	TCGA-BR-A4J4-01A-12D-A25D-08		10058819	145211741	89	61591											
MUM1L1	139221	broad.mit.edu	37	chrX	105450563	105450563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagacgaagaacttccaCgcttcattttacattatgag	14	11	8	8	2	1	3	1	1	0	2	2	5	2	4	1	1	2	1	1	1	5	5			TCGA-BR-A4J4-01A-12D-A25D-08	TCGA-BR-A4J4-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c316b7e-6a82-4ba1-9f34-d8bfcf82d41e	cf5a2a68-639d-4623-ad6c-71d061db302e	g.chrX:105450563C>T	uc004emf.1	+	4	1787	c.1138C>T	c.(1138-1140)CGC>TGC	p.R380C	MUM1L1_uc004emg.1_Missense_Mutation_p.R380C	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	380										ovary(2)|pancreas(1)|skin(1)	4						AGAACTTCCACGCTTCATTTT	0.373													9	10					0	0	1	0	0		T	105450563	T	T	105450563	3	4	98	1	0	0	0	0	1	0	0	0	10004	536	19	1	1140	1	MUM1L1	23	105450563	Missense_Mutation	SNP	C	TCGA-BR-A4J4-01A-12D-A25D-08	95391744	105450563	49819997	90	61592											
TMEM201	199953	broad.mit.edu	37	chr1	9661192	9661192	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccgccgtgaagtccccggtCcaggtcatcctgctccgtgc	4	9	11	17	4	1	1	1	1	0	0	6	1	6	1	7	2	2	1	7	2	1	0			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr1:9661192C>T	uc001apz.2	+	5	648	c.636C>T	c.(634-636)GTC>GTT	p.V212V	TMEM201_uc001apy.2_Silent_p.V212V	NM_001130924	NP_001124396	Q5SNT2	TM201_HUMAN	transmembrane protein 201 isoform 1	212						integral to membrane|nuclear inner membrane					0	all_lung(157;0.222)	all_epithelial(116;2.09e-14)|Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|STAD - Stomach adenocarcinoma(132;0.00345)|READ - Rectum adenocarcinoma(331;0.0419)		AGTCCCCGGTCCAGGTCATCC	0.657													34	64					0	0	0.074837	0	0		T	9661192	T	T	9661192	2	4	99	1	0	0	0	0	0	0	0	1	16151	842	30	4		4	TMEM201	1	9661192	Silent	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08		9661192	239589429	1	61593											
UBR4	23352	broad.mit.edu	37	chr1	19513771	19513771	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccataatgctcaaggctgCaggggggccatctgtctccc	7	8	13	13	0	3	0	1	0	2	0	4	0	3	0	3	5	2	3	3	5	2	1			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr1:19513771C>A	uc001bbi.2	-	13	1523	c.1519G>T	c.(1519-1521)GCA>TCA	p.A507S		NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	507					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CTCAAGGCTGCAGGGGGGCCA	0.478													21	56					6.44725e-10	6.96303e-10	0.069288	1	0		A	19513771	A	A	19513771	3	1	99	1	0	0	0	0	1	0	0	0	16930	710	25	5	14408	5	UBR4	1	19513771	Missense_Mutation	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08	9852579	19513771	229736850	2	61594											
SH2D5	400745	broad.mit.edu	37	chr1	21048371	21048371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctgcctgggggcccacagtCctgctcctcgtaggtggggt	3	9	15	14	1	0	0	0	0	0	0	3	0	2	0	5	5	2	2	5	5	1	1			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr1:21048371C>T	uc001bdt.1	-	9	1559	c.934G>A	c.(934-936)GAC>AAC	p.D312N	SH2D5_uc009vpy.1_Missense_Mutation_p.D396N|SH2D5_uc001bdu.1_RNA	NM_001103160	NP_001096630	Q6ZV89	SH2D5_HUMAN	SH2 domain containing 5 isoform 2	312											0		Colorectal(325;3.46e-05)|all_lung(284;5.32e-05)|Lung NSC(340;5.51e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(152;1.17e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000142)|GBM - Glioblastoma multiforme(114;0.000465)|Kidney(64;0.000476)|STAD - Stomach adenocarcinoma(196;0.00303)|KIRC - Kidney renal clear cell carcinoma(64;0.00634)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GGCCCACAGTCCTGCTCCTCG	0.687													15	27					0	0	0.0333	0	0		T	21048371	T	T	21048371	3	4	99	1	0	0	0	0	1	0	0	0	14262	855	30	4	89	4	SH2D5	1	21048371	Missense_Mutation	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08	1534600	21048371	228202250	3	61595											
PAPPA2	60676	broad.mit.edu	37	chr1	176659380	176659380	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgtctttaaaggagtcAgtgaaagagaatcctgcaat	15	10	9	7	0	2	2	1	1	1	1	3	4	3	3	2	1	1	1	2	1	5	2			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr1:176659380A>G	uc001gkz.2	+	5	3409	c.2245A>G	c.(2245-2247)AGT>GGT	p.S749G	PAPPA2_uc001gky.1_Missense_Mutation_p.S749G|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	749	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TAAAGGAGTCAGTGAAAGAGA	0.542													52	119					0	0	0.139131	0	0		G	176659380	G	G	176659380	3	3	99	1	0	0	0	0	1	0	0	0	11452	188	7	3	2259	3	PAPPA2	1	176659380	Missense_Mutation	SNP	A	TCGA-BR-A4J6-01A-11D-A25D-08	155611009	176659380	72591241	4	61596											
DNAJC5G	285126	broad.mit.edu	37	chr2	27499657	27499657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagatgagcctctatgcaGtgctggatcttaagaagggc	10	10	14	7	0	2	3	0	2	2	2	2	5	2	4	1	2	3	2	1	2	3	2			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr2:27499657G>A	uc002rjl.1	+	3	479	c.61G>A	c.(61-63)GTG>ATG	p.V21M	SLC30A3_uc010ylh.1_5'Flank|DNAJC5G_uc010yli.1_Missense_Mutation_p.V21M|DNAJC5G_uc002rjm.1_Missense_Mutation_p.V21M	NM_173650	NP_775921	Q8N7S2	DNJ5G_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	21	J.				protein folding	membrane	heat shock protein binding|unfolded protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCTCTATGCAGTGCTGGATCT	0.483													14	59					0	0	0.0333	0	0		A	27499657	A	A	27499657	3	1	99	1	0	0	0	0	1	0	0	0	4658	1029	36	4	63	4	DNAJC5G	2	27499657	Missense_Mutation	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08		27499657	215699716	5	61597											
FAM128A	653784	broad.mit.edu	37	chr2	132249846	132249846	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtacagctccatctcctcgGtgctcagcaccttcttgcgc	5	11	8	17	3	3	0	1	0	2	0	6	0	4	0	3	1	5	4	3	1	1	3			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr2:132249846G>C	uc002tsw.3	-	1	219	c.104C>G	c.(103-105)ACC>AGC	p.T35S	LOC150776_uc010zax.1_5'Flank|LOC150776_uc010zay.1_5'Flank|LOC150776_uc010zaz.1_5'Flank|LOC150776_uc010fna.2_5'Flank|LOC150776_uc002tsy.3_5'Flank|FAM128A_uc002tsv.3_5'Flank|FAM128A_uc002tsx.1_5'Flank	NM_001085365	NP_001078834	Q6P582	MZT2A_HUMAN	hypothetical protein LOC653784	35						centrosome|gamma-tubulin ring complex|spindle					0				BRCA - Breast invasive adenocarcinoma(221;0.13)		CATCTCCTCGGTGCTCAGCAC	0.557													5	7					0	0	0.02938	0	0		C	132249846	C	C	132249846	3	2	99	1	0	0	0	0	1	0	0	0	5445	1261	44	5	384	5	FAM128A	2	132249846	Missense_Mutation	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08	104750189	132249846	110949527	6	61598											
MMADHC	27249	broad.mit.edu	37	chr2	150426628	150426628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaacagagaatcctaaatGtcggtagcgttcatcagttt	13	12	8	8	2	3	1	3	0	0	1	5	2	4	1	1	1	2	3	1	1	5	4			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr2:150426628G>A	uc002txb.2	-	7	1256	c.751C>T	c.(751-753)CAT>TAT	p.H251Y	MMADHC_uc002txc.2_Missense_Mutation_p.H251Y|MMADHC_uc010fnu.2_Missense_Mutation_p.H285Y	NM_015702	NP_056517	Q9H3L0	MMAD_HUMAN	methylmalonic aciduria (cobalamin deficiency)	251						mitochondrion				central_nervous_system(1)|skin(1)	2						AATCCTAAATGTCGGTAGCGT	0.368													35	34					0	0	0.074837	0	0		A	150426628	A	A	150426628	3	1	99	1	0	0	0	0	1	0	0	0	9660	1377	48	4	143	4	MMADHC	2	150426628	Missense_Mutation	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08	18176782	150426628	92772745	7	61599											
TTN	7273	broad.mit.edu	37	chr2	179452394	179452394	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccttttctgaccacattAtcaatgccaacttttcgcca	9	15	4	13	1	2	1	1	1	1	0	4	1	3	1	4	0	2	0	4	0	3	5			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr2:179452394A>G	uc010zfg.1	-	255	56162	c.55938T>C	c.(55936-55938)GAT>GAC	p.D18646D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.D12341D|TTN_uc010zfi.1_Silent_p.D12274D|TTN_uc010zfj.1_Silent_p.D12149D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19573							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGACCACATTATCAATGCCAA	0.458													12	32					0	0	0.11911	0	0		G	179452394	G	G	179452394	2	3	99	1	0	0	0	0	0	0	0	1	16761	446	16	3		3	TTN	2	179452394	Silent	SNP	A	TCGA-BR-A4J6-01A-11D-A25D-08	29025766	179452394	63746979	8	61600											
CTNNB1	1499	broad.mit.edu	37	chr3	41266103	41266103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacagtcttacctggactctGgaatccattctggtgccact	9	12	8	12	0	3	0	0	0	3	0	4	2	4	2	3	3	3	0	3	3	3	2	rs121913399		TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr3:41266103G>A	uc010hia.1	+	4	256	c.100G>A	c.(100-102)GGA>AGA	p.G34R	CTNNB1_uc003ckp.2_Missense_Mutation_p.G34R|CTNNB1_uc003ckq.2_Missense_Mutation_p.G34R|CTNNB1_uc003ckr.2_Missense_Mutation_p.G34R|CTNNB1_uc011azf.1_Missense_Mutation_p.G27R|CTNNB1_uc011azg.1_Intron|uc010hib.1_RNA	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	34			G -> E (in PTR).|G -> R (in hepatocellular carcinoma).		adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.G34V(64)|p.G34E(64)|p.A5_A80del(63)|p.G34R(60)|p.H24_S47del(9)|p.A5_A80>D(7)|p.A5_Q143del(7)|p.Q28_H134del(5)|p.W25_I140del(4)|p.V22_G38del(3)|p.T3_A126del(2)|p.M5_N141>D(2)|p.D32_S47del(2)|p.W25_H36del(2)|p.V22_L139>V(2)|p.A5_Y142>D(2)|p.A5fs*7(2)|p.?(2)|p.L10_N141del(2)|p.D6_A43del(1)|p.E9_S47del(1)|p.Q28_Q61del(1)|p.A20_R151del(1)|p.A20_N141del(1)|p.D11_Y142>H(1)|p.H24_G38del(1)|p.S29_H36del(1)|p.Y30_A97del(1)|p.A20_A80del(1)|p.Q28_A43del(1)|p.E15_I140>V(1)|p.D17_P128del(1)|p.H24_M131del(1)|p.L7_I140del(1)|p.K19_Y142>V(1)|p.A20_L148del(1)|p.V22_A80del(1)|p.W25_I35del(1)|p.V22_G80>NNNNN(1)|p.GIHS34?(1)|p.A5_I35del(1)|p.A20_Q143del(1)|p.A13_R151del(1)|p.S23_I140del(1)|p.M1_A87del(1)|p.V22_T102del(1)|p.S33_G34del(1)|p.S23_A39del(1)|p.A21_A80del(1)|p.D6_I140del(1)|p.Q28_I140del(1)|p.E9_A80del(1)|p.G34_S37del(1)|p.M14_S45del(1)|p.M8_G50del(1)|p.A5_G80>(1)|p.D32_H36>D(1)|p.S33_G34insGTS(1)|p.P16_K133del(1)|p.A5_T59del(1)|p.A20_I35del(1)|p.M1_V173del(1)|p.A5_R90del(1)|p.V22_Y64del(1)|p.M8_A80del(1)|p.S33_S37del(1)|p.E9_I140del(1)|p.S33_G34insS(1)|p.Y30_T40del(1)|p.S33_G34insGI(1)|p.M1_T42del(1)|p.A5_Q143>E(1)|p.A5_Q72del(1)|p.Y30_A80del(1)|p.D32fs*9(1)|p.D6_K133del(1)|p.A5_T42del(1)|p.A5_D144>D(1)|p.A5_T40del(1)|p.D17_A126del(1)|p.A5_E54del(1)|p.S23_I35del(1)|p.V22_S71>A(1)|p.W25_A80del(1)|p.A20_Q72del(1)|p.A20_S111del(1)|p.D32_H36del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	CCTGGACTCTGGAATCCATTC	0.488		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				5	37					0	0	0.014758	0	0		A	41266103	A	A	41266103	3	1	99	1	0	0	0	0	1	0	0	0	4019	1349	47	4	106	4	CTNNB1	3	41266103	Missense_Mutation	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08		41266103	156756327	9	61601											
HYAL2	8692	broad.mit.edu	37	chr3	50357457	50357457	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggccactagctggcgtGataaccggcgatacacatct	10	8	11	12	3	1	1	0	1	1	0	1	3	1	1	2	3	3	1	2	3	3	3			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr3:50357457G>T	uc003czu.2	-	2	684	c.464C>A	c.(463-465)TCA>TAA	p.S155*	HYAL2_uc003czx.2_Nonsense_Mutation_p.S155*|HYAL2_uc003czv.2_Nonsense_Mutation_p.S155*|HYAL2_uc003czw.2_Nonsense_Mutation_p.S155*|HYAL2_uc010hlj.2_Nonsense_Mutation_p.S155*	NM_033158	NP_149348	Q12891	HYAL2_HUMAN	hyaluronoglucosaminidase 2 precursor	155						anchored to membrane|lysosome|plasma membrane	hyalurononglucosaminidase activity|receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)	Hyaluronidase(DB00070)	TAGCTGGCGTGATAACCGGCG	0.587													46	109					8.20599e-20	9.23174e-20	0.124865	1	0		T	50357457	T	T	50357457	4	4	99	1	0	0	0	0	0	1	0	0	7480	1294	45	5	969	5	HYAL2	3	50357457	Nonsense_Mutation	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08	9091354	50357457	147664973	10	61602											
KIAA1524	57650	broad.mit.edu	37	chr3	108298210	108298210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttctagttagagtgccatCaccgtttatgagaatattaa	12	15	7	7	1	2	2	1	1	1	2	2	3	2	2	2	0	1	2	2	0	6	7			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr3:108298210C>T	uc003dxb.3	-	7	1005	c.736G>A	c.(736-738)GAT>AAT	p.D246N	KIAA1524_uc003dxc.1_Missense_Mutation_p.D87N|KIAA1524_uc010hpw.1_Missense_Mutation_p.D87N	NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	246						cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						AGAGTGCCATCACCGTTTATG	0.338													32	116					0	0	0.050027	0	0		T	108298210	T	T	108298210	3	4	99	1	0	0	0	0	1	0	0	0	8255	826	29	4	2041	4	KIAA1524	3	108298210	Missense_Mutation	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08	57940753	108298210	89724220	11	61603											
ATR	545	broad.mit.edu	37	chr3	142268402	142268402	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatatatttgaagttgttTattaaaatctctctacgatt	15	18	4	4	1	2	1	0	1	2	0	3	2	2	1	0	0	1	2	0	0	9	9			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr3:142268402T>G	uc003eux.3	-	15	3212	c.3090A>C	c.(3088-3090)ATA>ATC	p.I1030I		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1030					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						TGAAGTTGTTTATTAAAATCT	0.333								Other_conserved_DNA_damage_response_genes					3	32					0	0	0.009096	0	0		G	142268402	G	G	142268402	2	3	99	1	0	0	0	0	0	0	0	1	1205	1744	61	5		5	ATR	3	142268402	Silent	SNP	T	TCGA-BR-A4J6-01A-11D-A25D-08	33970192	142268402	55754028	12	61604											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139907772	139907772	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttttttcccttaggggTggcacagaatcaacaagata	11	15	8	7	0	1	2	1	0	0	2	2	2	2	2	1	3	1	1	1	3	5	7			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr5:139907772T>G	uc003lfs.1	+	29	5365	c.5241T>G	c.(5239-5241)GGT>GGG	p.G1747G	ANKHD1_uc003lfr.2_Silent_p.G1747G|ANKHD1-EIF4EBP3_uc011czh.1_Silent_p.G486G|ANKHD1_uc003lfw.2_Silent_p.G385G|ANKHD1_uc010jfl.2_Silent_p.G182G|ANKHD1-EIF4EBP3_uc003lfx.1_5'UTR	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1747						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTTAGGGGTGGCACAGAAT	0.274													8	53					0	0	0.043863	0	0		G	139907772	G	G	139907772	2	3	99	1	0	0	0	0	0	0	0	1	629	1683	59	5		5	ANKHD1-EIF4EBP3	5	139907772	Silent	SNP	T	TCGA-BR-A4J6-01A-11D-A25D-08		139907772	41007488	13	61605											
FAM65B	9750	broad.mit.edu	37	chr6	24861261	24861261	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccacttcaatggtgcacaTattctgcaaagaggacagga	13	9	9	10	0	2	1	1	0	1	1	3	3	3	3	1	3	2	2	1	3	3	3			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr6:24861261T>A	uc003neo.1	-	8	744	c.568A>T	c.(568-570)ATG>TTG	p.M190L	FAM65B_uc011djs.1_Missense_Mutation_p.M219L|FAM65B_uc011dju.1_Missense_Mutation_p.M224L|FAM65B_uc003nep.2_Missense_Mutation_p.M190L|FAM65B_uc011djt.1_Missense_Mutation_p.M190L	NM_014722	NP_055537	Q9Y4F9	FA65B_HUMAN	hypothetical protein LOC9750 isoform 1	190					cell differentiation|muscle organ development	cytoskeleton|filopodium|mitochondrion	binding			ovary(1)	1						ATGGTGCACATATTCTGCAAA	0.458													14	13					0	0	0.11911	0	0		A	24861261	A	A	24861261	3	1	99	1	0	0	0	0	1	0	0	0	5614	1406	49	5	2712	5	FAM65B	6	24861261	Missense_Mutation	SNP	T	TCGA-BR-A4J6-01A-11D-A25D-08		24861261	146253806	14	61606											
FYN	2534	broad.mit.edu	37	chr6	112035642	112035642	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaagggccacaaagagtgtCactcctgccgaaacgaaatt	15	7	9	10	2	1	1	1	0	0	1	2	3	2	1	3	1	2	0	3	1	5	2			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr6:112035642C>T	uc003pvj.2	-	4	592	c.252G>A	c.(250-252)GTG>GTA	p.V84V	FYN_uc003pvi.2_Silent_p.V84V|FYN_uc003pvk.2_Silent_p.V84V|FYN_uc003pvh.2_Silent_p.V84V	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	84	SH3.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	CAAAGAGTGTCACTCCTGCCG	0.363													15	50					0	0	0.132662	0	0		T	112035642	T	T	112035642	2	4	99	1	0	0	0	0	0	0	0	1	6140	813	29	4		4	FYN	6	112035642	Silent	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08	87174381	112035642	59079425	15	61607											
SLC22A3	6581	broad.mit.edu	37	chr6	160829854	160829855	+	Frame_Shift_Ins	INS	-	A	A																															caaatgttctttacccttggINSaatcataattctccctggaa																										TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr6:160829854_160829855insA	uc003qti.2	+	4	785_786	c.758_759insA	c.(757-759)GGAfs	p.G253fs	SLC22A3_uc011efx.1_RNA	NM_021977	NP_068812	O75751	S22A3_HUMAN	solute carrier family 22 member 3	253	Helical; (Potential).					integral to plasma membrane|membrane fraction	protein binding|quaternary ammonium group transmembrane transporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(66;0.00028)|Ovarian(120;0.0308)|Prostate(117;0.218)		OV - Ovarian serous cystadenocarcinoma(65;9.47e-17)|BRCA - Breast invasive adenocarcinoma(81;9.75e-06)		TTTACCCTTGGAATCATAATTC	0.431													26	55	---	---	---	---						.	A	160829855	A	A	160829854	7	5	99	1	0	1	1	0	0	0	0	0	14480	1174	41	0	772	0	SLC22A3	6	160829854	Frame_Shift_Ins	INS	-	TCGA-BR-A4J6-01A-11D-A25D-08	48794212	160829854	10285213	16	61608											
FAM131B	9715	broad.mit.edu	37	chr7	143056064	143056064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcatgtgggccacccggcCttgccccatggctgtgggct	5	9	13	14	1	1	0	1	0	0	0	1	0	1	0	5	4	1	2	5	4	1	1			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr7:143056064C>T	uc003wct.2	-	4	1944	c.238G>A	c.(238-240)GGC>AGC	p.G80S	FAM131B_uc010loz.2_Missense_Mutation_p.G48S|FAM131B_uc003wcu.3_Missense_Mutation_p.G80S|FAM131B_uc010lpa.2_Missense_Mutation_p.G108S|ZYX_uc011ktd.1_5'Flank	NM_014690	NP_055505	Q86XD5	F131B_HUMAN	hypothetical protein LOC9715 isoform b	80											0	Melanoma(164;0.205)					GCCACCCGGCCTTGCCCCATG	0.572													9	28					0	0	0.047766	0	0		T	143056064	T	T	143056064	3	4	99	1	0	0	0	0	1	0	0	0	5451	681	24	4	772	4	FAM131B	7	143056064	Missense_Mutation	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08		143056064	16082599	17	61609											
MAMDC2	256691	broad.mit.edu	37	chr9	72758553	72758553	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccctccctaccaggaaacTtgcagtattgtctgcgtttt	7	13	9	12	1	1	0	0	0	1	0	2	1	2	1	3	2	4	3	3	2	3	6			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr9:72758553T>C	uc004ahm.2	+	9	1839	c.1222T>C	c.(1222-1224)TTG>CTG	p.L408L	MAMDC2_uc004ahn.2_RNA	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	408	MAM 3.					endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						ACCAGGAAACTTGCAGTATTG	0.428													32	66					0	0	0.045705	0	0		C	72758553	C	C	72758553	2	2	99	1	0	0	0	0	0	0	0	1	9221	1606	56	3		3	MAMDC2	9	72758553	Silent	SNP	T	TCGA-BR-A4J6-01A-11D-A25D-08		72758553	68454878	18	61610											
KIF27	55582	broad.mit.edu	37	chr9	86514643	86514643	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgttttcctgtaccatcAtctgcacttgattcttcagt	6	19	5	11	0	4	1	2	1	2	0	5	1	5	1	2	0	2	3	2	0	1	7			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr9:86514643A>C	uc004ana.2	-	5	1679	c.1535T>G	c.(1534-1536)ATG>AGG	p.M512R	KIF27_uc010mpw.2_Missense_Mutation_p.M512R|KIF27_uc010mpx.2_Missense_Mutation_p.M512R	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	512	Potential.				cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						CTGTACCATCATCTGCACTTG	0.408													16	83					0	0	0.146539	0	0		C	86514643	C	C	86514643	3	2	99	1	0	0	0	0	1	0	0	0	8312	217	8	5	2726	5	KIF27	9	86514643	Missense_Mutation	SNP	A	TCGA-BR-A4J6-01A-11D-A25D-08	13756090	86514643	54698788	19	61611											
OR13D1	286365	broad.mit.edu	37	chr9	107457321	107457321	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgggaataatgtcattGatcatattacctgtgaaatt	12	16	8	5	0	3	2	2	2	1	0	3	3	3	3	1	1	1	0	1	1	5	5			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr9:107457321G>T	uc011lvs.1	+	1	619	c.619G>T	c.(619-621)GAT>TAT	p.D207Y		NM_001004484	NP_001004484	Q8NGV5	O13D1_HUMAN	olfactory receptor, family 13, subfamily D,	207	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TAATGTCATTGATCATATTAC	0.398													40	107					3.54561e-26	4.16223e-26	0.11126	1	0		T	107457321	T	T	107457321	3	4	99	1	0	0	0	0	1	0	0	0	10959	1290	45	5	621	5	OR13D1	9	107457321	Missense_Mutation	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08	20942678	107457321	33756110	20	61612											
SPTAN1	6709	broad.mit.edu	37	chr9	131329027	131329027	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatttcagaaaatggaccCaagtggggtcaaagtgctgg	12	9	13	7	0	3	1	3	0	0	1	3	2	3	2	1	4	1	1	1	4	4	1			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr9:131329027C>A	uc004bvl.3	+	2	121	c.8C>A	c.(7-9)CCA>CAA	p.P3Q	SPTAN1_uc011mbg.1_Missense_Mutation_p.P3Q|SPTAN1_uc011mbh.1_Missense_Mutation_p.P15Q|SPTAN1_uc004bvm.3_Missense_Mutation_p.P3Q|SPTAN1_uc004bvn.3_Missense_Mutation_p.P3Q	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	3					actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						AAAATGGACCCAAGTGGGGTC	0.453													43	74					3.77016e-25	4.33167e-25	0.131918	1	0		A	131329027	A	A	131329027	3	1	99	1	0	0	0	0	1	0	0	0	15142	594	21	5	10	5	SPTAN1	9	131329027	Missense_Mutation	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08	23871706	131329027	9884404	21	61613											
VPS11	55823	broad.mit.edu	37	chr11	118944008	118944008	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctatagcaccgtctttgagGatgtagtggatgtgcttgct	7	14	12	8	1	1	1	0	1	1	0	1	3	1	3	2	2	3	4	2	2	3	5			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr11:118944008G>T	uc010ryx.1	+	7	1027	c.985G>T	c.(985-987)GAT>TAT	p.D329Y	VPS11_uc010ryy.1_Missense_Mutation_p.D175Y	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	329					protein transport	endocytic vesicle|HOPS complex|late endosome membrane|lysosomal membrane	nucleotide binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.88e-05)		CGTCTTTGAGGATGTAGTGGA	0.532													14	26					1.05317e-09	1.11512e-09	0.11911	1	0		T	118944008	T	T	118944008	3	4	99	1	0	0	0	0	1	0	0	0	17214	1174	41	5	1006	5	VPS11	11	118944008	Missense_Mutation	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08		118944008	16062508	22	61614											
ARID2	196528	broad.mit.edu	37	chr12	46245720	46245720	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggagaacccgtcctgcCgacgaggagccacaaacacc	12	4	10	15	3	1	1	1	0	0	1	2	5	2	2	5	2	4	0	5	2	2	0			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr12:46245720C>T	uc001ros.1	+	15	3814	c.3814C>T	c.(3814-3816)CGA>TGA	p.R1272*	ARID2_uc001ror.2_Nonsense_Mutation_p.R1272*|ARID2_uc009zkg.1_Nonsense_Mutation_p.R728*|ARID2_uc009zkh.1_Nonsense_Mutation_p.R899*|ARID2_uc001rou.1_Nonsense_Mutation_p.R606*	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1272					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		CCCGTCCTGCCGACGAGGAGC	0.428													21	19					0	0	0.055883	0	0		T	46245720	T	T	46245720	4	4	99	1	0	0	0	0	0	1	0	0	915	644	23	1	3872	1	ARID2	12	46245720	Nonsense_Mutation	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08		46245720	87606175	23	61615											
TEP1	7011	broad.mit.edu	37	chr14	20849537	20849537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaggtgcctgaggcatcagCgtcacatgtcttccagagct	9	9	12	11	1	3	2	2	1	1	1	4	3	4	2	2	2	3	2	2	2	1	1			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr14:20849537C>T	uc001vxe.2	-	32	4622	c.4582G>A	c.(4582-4584)GCT>ACT	p.A1528T	TEP1_uc010ahk.2_Missense_Mutation_p.A871T|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.A1420T|TEP1_uc010tlh.1_5'UTR	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1528					telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		GAGGCATCAGCGTCACATGTC	0.552													54	131					0	0	0.139131	0	0		T	20849537	T	T	20849537	3	4	99	1	0	0	0	0	1	0	0	0	15784	768	27	1	3397	1	TEP1	14	20849537	Missense_Mutation	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08		20849537	86500003	24	61616											
XRCC3	7517	broad.mit.edu	37	chr14	104165276	104165276	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcagcctcttcctcgcggagCcggtcagccagcagtctcac	6	7	11	17	3	3	0	2	0	2	0	6	1	4	1	4	2	4	2	4	2	0	1			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr14:104165276C>T	uc001yny.3	-	10	1280	c.900G>A	c.(898-900)CGG>CGA	p.R300R	KLC1_uc010tyf.1_Intron|KLC1_uc001yno.2_Intron|KLC1_uc001yns.2_Intron|XRCC3_uc001ynx.3_Silent_p.R300R|XRCC3_uc001ynz.3_Silent_p.R300R|XRCC3_uc001yoa.3_Silent_p.R300R	NM_005432	NP_005423	O43542	XRCC3_HUMAN	X-ray repair cross complementing protein 3	300					DNA recombination|DNA repair	mitochondrion|nucleus|perinuclear region of cytoplasm	ATP binding|DNA binding|DNA-dependent ATPase activity				0		Melanoma(154;0.155)|all_epithelial(191;0.19)		Epithelial(152;0.239)		CCTCGCGGAGCCGGTCAGCCA	0.647								Direct_reversal_of_damage|Homologous_recombination					6	8					0	0	0.02938	0	0		T	104165276	T	T	104165276	2	4	99	1	0	0	0	0	0	0	0	1	17480	726	26	2		2	XRCC3	14	104165276	Silent	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08	83315739	104165276	3184264	25	61617											
ZNF592	9640	broad.mit.edu	37	chr15	85327029	85327029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaccagcaattcccaaaGtgagaatcaaaaccattaag	17	6	5	13	0	1	1	1	1	0	1	2	2	2	1	5	0	2	1	5	0	6	2			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr15:85327029G>A	uc002bld.2	+	4	1459	c.1123G>A	c.(1123-1125)GTG>ATG	p.V375M	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	375					cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			AATTCCCAAAGTGAGAATCAA	0.517													20	51					0	0	0.043863	0	0		A	85327029	A	A	85327029	3	1	99	1	0	0	0	0	1	0	0	0	18047	1029	36	4	1125	4	ZNF592	15	85327029	Missense_Mutation	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08		85327029	17204363	26	61618											
CHST6	4166	broad.mit.edu	37	chr16	75513350	75513350	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcgagcacagtgcacggCtcacggcccactggaagagg	9	4	16	12	3	1	1	1	0	0	1	1	3	1	2	1	5	2	3	1	5	1	0			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr16:75513350C>A	uc002fef.2	-	3	557	c.377G>T	c.(376-378)AGC>ATC	p.S126I	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Missense_Mutation_p.S126I	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	126	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						CAGTGCACGGCTCACGGCCCA	0.667													22	57					2.98393e-07	3.04023e-07	0.076483	1	0		A	75513350	A	A	75513350	3	1	99	1	0	0	0	0	1	0	0	0	3411	797	28	5	814	5	CHST6	16	75513350	Missense_Mutation	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08		75513350	14841403	27	61619											
KIAA0513	9764	broad.mit.edu	37	chr16	85120758	85120758	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagaagcaggctgtgattgGcaacctggatgaaggtgcgt	11	8	16	6	1	0	3	0	2	0	1	0	5	0	4	1	4	3	3	1	4	4	1			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr16:85120758G>C	uc002fiu.2	+	12	1392	c.1172G>C	c.(1171-1173)GGC>GCC	p.G391A	KIAA0513_uc010voj.1_Missense_Mutation_p.G381A	NM_014732	NP_055547	O60268	K0513_HUMAN	hypothetical protein LOC9764	391						cytoplasm				breast(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.234)		GCTGTGATTGGCAACCTGGAT	0.602											OREG0023994	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	40					0	0	0.080935	0	0		C	85120758	C	C	85120758	3	2	99	1	0	0	0	0	1	0	0	0	8197	1203	42	5	1214	5	KIAA0513	16	85120758	Missense_Mutation	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08	9607408	85120758	5233995	28	61620											
SLC13A2	9058	broad.mit.edu	37	chr17	26823469	26823469	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccactgcctcccactccaggCccaggccatctgcctccacc	6	6	6	23	0	1	0	0	0	1	0	4	0	4	0	9	2	2	0	9	2	0	0			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr17:26823469C>A	uc002hbh.2	+	11	1539	c.1472C>A	c.(1471-1473)GCC>GAC	p.A491D	SLC13A2_uc010wam.1_Missense_Mutation_p.A447D|SLC13A2_uc010wan.1_Missense_Mutation_p.A540D|SLC13A2_uc010wao.1_Missense_Mutation_p.A448D|SLC13A2_uc002hbi.2_Missense_Mutation_p.A420D	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	491	Helical; (Potential).					integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	CCACTCCAGGCCCAGGCCATC	0.647													48	144					6.9144e-35	8.29728e-35	0.139131	1	0		A	26823469	A	A	26823469	3	1	99	1	0	0	0	0	1	0	0	0	14417	753	26	5	1661	5	SLC13A2	17	26823469	Missense_Mutation	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08		26823469	54371741	29	61621											
CCDC40	55036	broad.mit.edu	37	chr17	78013901	78013901	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactgcctggagaggaggcAtacgatagtgttagcgggga	11	7	17	6	2	0	1	0	0	0	1	0	6	0	3	1	5	4	2	1	5	4	3			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr17:78013901A>G	uc010dht.2	+	3	411	c.384A>G	c.(382-384)GCA>GCG	p.A128A	CCDC40_uc010wub.1_Silent_p.A128A	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	128					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GAGAGGAGGCATACGATAGTG	0.542													7	76					0	0	0.038147	0	0		G	78013901	G	G	78013901	2	3	99	1	0	0	0	0	0	0	0	1	2815	204	8	3		3	CCDC40	17	78013901	Silent	SNP	A	TCGA-BR-A4J6-01A-11D-A25D-08	51190432	78013901	3181309	30	61622											
COLEC12	81035	broad.mit.edu	37	chr18	331713	331713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacttccattcattttcaCgctctgagtctgtgaggccg	6	13	9	13	2	4	2	2	2	2	0	5	2	5	2	3	1	0	1	3	1	0	4			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr18:331713C>T	uc002kkm.2	-	8	2233	c.2018G>A	c.(2017-2019)CGT>CAT	p.R673H		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	673	Extracellular (Potential).|C-type lectin.				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				TTCATTTTCACGCTCTGAGTC	0.473													15	47					0	0	0.038395	0	0		T	331713	T	T	331713	3	4	99	1	0	0	0	0	1	0	0	0	3715	536	19	1	222	1	COLEC12	18	331713	Missense_Mutation	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08		331713	77745535	31	61623											
SMAD4	4089	broad.mit.edu	37	chr18	48593406	48593406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggttgcacataggcaaagGtgtgcagttggaatgtaaag	14	9	14	4	0	0	0	0	0	0	0	0	1	0	1	0	4	2	6	0	4	6	4	rs121912580		TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr18:48593406G>A	uc010xdp.1	+	10	1695	c.1157G>A	c.(1156-1158)GGT>GAT	p.G386D	SMAD4_uc002lfb.3_Missense_Mutation_p.G231D	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	386	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.G386R(5)|p.?(2)|p.G386C(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		ATAGGCAAAGGTGTGCAGTTG	0.368									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				35	41					0	0	0.074837	0	0		A	48593406	A	A	48593406	3	1	99	1	0	0	0	0	1	0	0	0	14785	1261	44	4	1191	4	SMAD4	18	48593406	Missense_Mutation	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08	48261693	48593406	29483842	32	61624											
SALL3	27164	broad.mit.edu	37	chr18	76753965	76753965	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctagactcgatgcaaacGtcggaaacctcgaagctgca	12	7	10	12	4	0	1	0	0	0	1	3	4	0	2	1	1	6	4	1	1	4	1			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr18:76753965G>A	uc002lmt.2	+	2	1974	c.1974G>A	c.(1972-1974)ACG>ACA	p.T658T	SALL3_uc010dra.2_Silent_p.T265T	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	658					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CGATGCAAACGTCGGAAACCT	0.642													5	4					0	0	0.014758	0	0		A	76753965	A	A	76753965	2	1	99	1	0	0	0	0	0	0	0	1	13837	1132	40	1		1	SALL3	18	76753965	Silent	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08	28160559	76753965	1323283	33	61625											
STK11	6794	broad.mit.edu	37	chr19	1221993	1221993	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggttctccatccggcagaTccggcagcacaggtgagcgg	8	6	15	12	3	1	2	0	1	1	1	4	3	3	2	3	5	2	4	3	5	0	1			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr19:1221993T>A	uc002lrl.1	+	7	2023	c.908T>A	c.(907-909)ATC>AAC	p.I303N		NM_000455	NP_000446	Q15831	STK11_HUMAN	serine/threonine protein kinase 11	303	Protein kinase.		IRQH -> N (in PJS).		anoikis|cell cycle arrest|energy reserve metabolic process|insulin receptor signaling pathway|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.0?(19)		lung(174)|cervix(35)|skin(15)|large_intestine(12)|pancreas(6)|gastrointestinal_tract_(site_indeterminate)(5)|stomach(4)|ovary(4)|breast(2)|upper_aerodigestive_tract(1)|testis(1)|liver(1)|biliary_tract(1)|small_intestine(1)|urinary_tract(1)|oesophagus(1)|prostate(1)|kidney(1)	266		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Renal(1328;0.0183)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.00942)|STAD - Stomach adenocarcinoma(1328;0.18)		ATCCGGCAGATCCGGCAGCAC	0.692		14	D|Mis|N|F|S		NSCLC|pancreatic	jejunal harmartoma|ovarian|testicular|pancreatic			Peutz-Jeghers_syndrome	TSP Lung(3;<1E-08)			3	5					0	0	0.014758	0	0		A	1221993	A	A	1221993	3	1	99	1	0	0	0	0	1	0	0	0	15312	1435	50	5	934	5	STK11	19	1221993	Missense_Mutation	SNP	T	TCGA-BR-A4J6-01A-11D-A25D-08		1221993	57906990	34	61626											
MUC16	94025	broad.mit.edu	37	chr19	9089662	9089662	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaatgctggtgcttatcttgGtgtgtcctgcagagtctggt	5	15	14	7	0	2	1	0	0	2	1	3	2	3	1	1	3	3	3	1	3	2	2			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr19:9089662G>T	uc002mkp.2	-	1	2357	c.2153C>A	c.(2152-2154)ACC>AAC	p.T718N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	718	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCTTATCTTGGTGTGTCCTGC	0.498													23	51					1.22574e-08	1.27288e-08	0.069288	1	0		T	9089662	T	T	9089662	3	4	99	1	0	0	0	0	1	0	0	0	9991	1261	44	5	41706	5	MUC16	19	9089662	Missense_Mutation	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08	7867669	9089662	50039321	35	61627											
CD22	933	broad.mit.edu	37	chr19	35828734	35828734	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactctgtgaccatgacctgCgaggtcagcagcagcaaccc	10	6	11	14	1	2	2	1	2	1	0	2	4	2	2	3	1	5	3	3	1	1	0	rs146504496	byFrequency	TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr19:35828734C>T	uc010edt.2	+	5	872	c.795C>T	c.(793-795)TGC>TGT	p.C265C	CD22_uc010xst.1_Silent_p.C93C|CD22_uc010edu.2_Silent_p.C265C|CD22_uc010edv.2_Silent_p.C265C|CD22_uc002nzb.3_Intron|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	265	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion		protein binding|sugar binding			ovary(5)|lung(3)|breast(1)	9	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.83e-19)|OV - Ovarian serous cystadenocarcinoma(14;3.19e-18)|all cancers(14;3.41e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)		OspA lipoprotein(DB00045)	CCATGACCTGCGAGGTCAGCA	0.582													4	65					0	0	0.014758	0	0		T	35828734	T	T	35828734	2	4	99	1	0	0	0	0	0	0	0	1	2988	776	27	1		1	CD22	19	35828734	Silent	SNP	C	TCGA-BR-A4J6-01A-11D-A25D-08	26739072	35828734	23300249	36	61628											
RBM42	79171	broad.mit.edu	37	chr19	36120513	36120513	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacggtccccacagtagaaGcgatgcaggtcccagcggct	9	5	12	15	3	0	1	0	0	0	1	2	2	2	1	4	3	3	3	4	3	2	1			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr19:36120513G>T	uc002oan.2	+	2	296	c.220G>T	c.(220-222)GCG>TCG	p.A74S	RBM42_uc010xsx.1_Missense_Mutation_p.A74S|RBM42_uc010eef.2_Missense_Mutation_p.A74S|RBM42_uc002oao.2_Missense_Mutation_p.A74S|RBM42_uc002oap.2_Missense_Mutation_p.A74S|RBM42_uc002oaq.2_Missense_Mutation_p.A74S|RBM42_uc010eeg.2_Missense_Mutation_p.A74S	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	74						cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CACAGTAGAAGCGATGCAGGT	0.587													25	86					1.2476e-16	1.3749e-16	0.116897	1	0		T	36120513	T	T	36120513	3	4	99	1	0	0	0	0	1	0	0	0	13161	971	34	5	226	5	RBM42	19	36120513	Missense_Mutation	SNP	G	TCGA-BR-A4J6-01A-11D-A25D-08	291779	36120513	23008470	37	61629											
USP51	158880	broad.mit.edu	37	chrX	55513296	55513296	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacccttcactgtagagtaAgtcctcaatggtagccttgg	10	12	9	10	0	2	1	2	0	0	1	3	1	3	1	3	2	2	3	3	2	5	6			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chrX:55513296A>G	uc004dun.1	-	2	2156	c.2077T>C	c.(2077-2079)TTA>CTA	p.L693L	USP51_uc011moo.1_Silent_p.L397L	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	693					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						CTGTAGAGTAAGTCCTCAATG	0.423													17	38					0	0	0.0333	0	0		G	55513296	G	G	55513296	2	3	99	1	0	0	0	0	0	0	0	1	17109	69	3	3		3	USP51	23	55513296	Silent	SNP	A	TCGA-BR-A4J6-01A-11D-A25D-08		55513296	99757264	38	61630											
DLGAP3	58512	broad.mit.edu	37	chr1	35365313	35365313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagccagggatggagctcCgggggtggatccggggtggg	5	7	22	7	2	0	0	0	0	0	0	2	3	2	3	3	8	2	2	3	8	1	1			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr1:35365313C>T	uc001byc.2	-	3	1343	c.1343G>A	c.(1342-1344)CGG>CAG	p.R448Q		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	448					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				GATGGAGCTCCGGGGGTGGAT	0.582													18	115					0	0	0.062417	0	0		T	35365313	T	T	35365313	3	4	100	1	0	0	0	0	1	0	0	0	4567	652	23	1	1628	1	DLGAP3	1	35365313	Missense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08		35365313	213885308	1	61631											
GLIS1	148979	broad.mit.edu	37	chr1	53980408	53980408	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgtgcgctgggggcaggagGcccgatgcaagtccgttatg	6	8	17	10	4	0	0	0	0	0	0	2	2	1	1	2	4	2	4	2	4	2	1			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr1:53980408G>A	uc001cvr.1	-	7	1815	c.1248C>T	c.(1246-1248)GGC>GGT	p.G416G		NM_147193	NP_671726	Q8NBF1	GLIS1_HUMAN	GLIS family zinc finger 1	416					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			skin(1)	1						GGGGCAGGAGGCCCGATGCAA	0.612													5	58					0	0	0.021553	0	0		A	53980408	A	A	53980408	2	1	100	1	0	0	0	0	0	0	0	1	6460	1190	42	2		2	GLIS1	1	53980408	Silent	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	18615095	53980408	195270213	2	61632											
LRRC7	57554	broad.mit.edu	37	chr1	70509665	70509665	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacaaacacaatacagttaAccttggcatgctgccctatg	13	11	6	11	0	0	0	0	0	0	0	0	0	0	0	2	1	6	3	2	1	6	5			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr1:70509665A>G	uc001dep.2	+	20	3914	c.3884A>G	c.(3883-3885)AAC>AGC	p.N1295S	LRRC7_uc009wbg.2_Missense_Mutation_p.N579S|LRRC7_uc001deq.2_Intron	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1295						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						AATACAGTTAACCTTGGCATG	0.388													7	51					0	0	0.038147	0	0		G	70509665	G	G	70509665	3	3	100	1	0	0	0	0	1	0	0	0	9038	43	2	3	3962	3	LRRC7	1	70509665	Missense_Mutation	SNP	A	TCGA-BR-A4J7-01A-31D-A25D-08	16529257	70509665	178740956	3	61633											
COL11A1	1301	broad.mit.edu	37	chr1	103385904	103385904	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caactgaaccaacagaccctGggggtccttgtggtccctgc	8	8	11	14	0	0	2	0	1	0	1	2	2	2	2	4	3	4	0	4	3	3	1			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr1:103385904G>T	uc001dul.2	-	49	4043	c.3725C>A	c.(3724-3726)CCA>CAA	p.P1242Q	COL11A1_uc001duk.2_Missense_Mutation_p.P438Q|COL11A1_uc001dum.2_Missense_Mutation_p.P1254Q|COL11A1_uc001dun.2_Missense_Mutation_p.P1203Q|COL11A1_uc009weh.2_Missense_Mutation_p.P1126Q	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1242	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		AACAGACCCTGGGGGTCCTTG	0.358													10	95					1.58986e-06	1.83075e-06	0.069234	1	0		T	103385904	T	T	103385904	3	4	100	1	0	0	0	0	1	0	0	0	3670	1348	47	5	1771	5	COL11A1	1	103385904	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	32876239	103385904	145864717	4	61634											
ATP8B2	57198	broad.mit.edu	37	chr1	154317185	154317185	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcacctatcaggacaagcTttcttcttccaagctaactt	10	14	4	13	0	4	0	2	0	2	0	5	1	5	1	2	1	3	2	2	1	4	7			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr1:154317185T>G	uc001fex.2	+	21	2309	c.2309T>G	c.(2308-2310)CTT>CGT	p.L770R		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	756	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CAGGACAAGCTTTCTTCTTCC	0.537											OREG0013835	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	98					0	0	0.055883	0	0		G	154317185	G	G	154317185	3	3	100	1	0	0	0	0	1	0	0	0	1196	1609	56	5	2521	5	ATP8B2	1	154317185	Missense_Mutation	SNP	T	TCGA-BR-A4J7-01A-31D-A25D-08	50931281	154317185	94933436	5	61635											
XPR1	9213	broad.mit.edu	37	chr1	180794410	180794410	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgccctttatggatttaTggttttcttccttatcaacc	7	19	5	10	0	2	0	1	0	1	0	3	1	3	1	3	2	2	1	3	2	4	9			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr1:180794410T>A	uc001goi.2	+	9	1256	c.1064T>A	c.(1063-1065)ATG>AAG	p.M355K	XPR1_uc009wxm.2_Missense_Mutation_p.M355K|XPR1_uc009wxn.2_Missense_Mutation_p.M355K	NM_004736	NP_004727	Q9UBH6	XPR1_HUMAN	xenotropic and polytropic retrovirus receptor	355	Helical; (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0						TATGGATTTATGGTTTTCTTC	0.428													12	103					0	0	0.080935	0	0		A	180794410	A	A	180794410	3	1	100	1	0	0	0	0	1	0	0	0	17477	1464	51	5	1098	5	XPR1	1	180794410	Missense_Mutation	SNP	T	TCGA-BR-A4J7-01A-31D-A25D-08	26477225	180794410	68456211	6	61636											
MYOG	4656	broad.mit.edu	37	chr1	203054915	203054915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcactggcctggacagtgctCgggggtccccagccccttgt	4	8	14	15	1	0	0	0	0	0	0	2	1	1	1	5	4	2	2	5	4	0	1			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr1:203054915C>T	uc001gzd.2	-	1	463	c.175G>A	c.(175-177)GAG>AAG	p.E59K		NM_002479	NP_002470	P15173	MYOG_HUMAN	myogenin	59					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			skin(2)	2						GGACAGTGCTCGGGGGTCCCC	0.697													5	108					0	0	0.021553	0	0		T	203054915	T	T	203054915	3	4	100	1	0	0	0	0	1	0	0	0	10108	893	31	1	511	1	MYOG	1	203054915	Missense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	22260505	203054915	46195706	7	61637											
TPO	7173	broad.mit.edu	37	chr2	1488526	1488526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccatgccacgatccacccGctggtgaggaggctggacgc	7	5	15	14	3	0	1	0	1	0	0	1	4	1	3	4	5	1	2	4	5	0	0			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr2:1488526G>A	uc002qww.2	+	9	1588	c.1497G>A	c.(1495-1497)CCG>CCA	p.P499P	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Silent_p.P499P|TPO_uc002qwr.2_Silent_p.P499P|TPO_uc002qwx.2_Silent_p.P499P|TPO_uc010yio.1_Silent_p.P326P|TPO_uc010yip.1_Silent_p.P499P|TPO_uc002qwy.1_5'UTR|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	499	Extracellular (Potential).		P -> L (in TDH2A).		cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CGATCCACCCGCTGGTGAGGA	0.637													8	58					0	0	0.069234	0	0		A	1488526	A	A	1488526	2	1	100	1	0	0	0	0	0	0	0	1	16436	1074	38	1		1	TPO	2	1488526	Silent	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08		1488526	241710847	8	61638											
KCNS3	3790	broad.mit.edu	37	chr2	18112991	18112991	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaccggggagcttgccgTccggctggctgccgctcctt	2	10	14	15	4	1	0	1	0	0	0	3	1	3	1	5	4	3	5	5	4	0	3			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr2:18112991T>C	uc002rcv.2	+	3	1167	c.716T>C	c.(715-717)GTC>GCC	p.V239A	KCNS3_uc002rcw.2_Missense_Mutation_p.V239A	NM_002252	NP_002243	Q9BQ31	KCNS3_HUMAN	potassium voltage-gated channel	239	Helical; Name=Segment S2; (Potential).				energy reserve metabolic process|regulation of insulin secretion	Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GAGCTTGCCGTCCGGCTGGCT	0.517													14	126					0	0	0.0333	0	0		C	18112991	C	C	18112991	3	2	100	1	0	0	0	0	1	0	0	0	8106	1667	58	3	718	3	KCNS3	2	18112991	Missense_Mutation	SNP	T	TCGA-BR-A4J7-01A-31D-A25D-08	16624465	18112991	225086382	9	61639											
SCN9A	6335	broad.mit.edu	37	chr2	167141099	167141099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcattttcccgttcaccGgcagcattggtggggaccta	6	12	12	11	2	1	0	1	0	0	0	2	1	2	1	3	4	2	4	3	4	1	5			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr2:167141099G>A	uc010fpl.2	-	12	2179	c.1838C>T	c.(1837-1839)CCG>CTG	p.P613L	uc002udp.2_Intron|SCN9A_uc002udr.1_Missense_Mutation_p.P484L|SCN9A_uc002uds.1_Missense_Mutation_p.P484L|SCN9A_uc002udt.1_Missense_Mutation_p.P484L	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	613						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	CCCGTTCACCGGCAGCATTGG	0.587													6	57					0	0	0.021553	0	0		A	167141099	A	A	167141099	3	1	100	1	0	0	0	0	1	0	0	0	13950	1116	39	1	4159	1	SCN9A	2	167141099	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	149028108	167141099	76058274	10	61640											
PLCL1	5334	broad.mit.edu	37	chr2	198949991	198949991	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agcaaatccgactctgtaggGagctctctgatttggtgtct	8	13	11	9	1	3	1	0	1	3	0	5	3	4	2	1	2	2	3	1	2	2	2			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr2:198949991G>C	uc010fsp.2	+	2	2041	c.1750G>C	c.(1750-1752)GAG>CAG	p.E584Q	PLCL1_uc002uuv.3_Missense_Mutation_p.E505Q	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	584					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	ACTCTGTAGGGAGCTCTCTGA	0.383													5	75					0	0	0.02938	0	0		C	198949991	C	C	198949991	3	2	100	1	0	0	0	0	1	0	0	0	12058	1175	41	5	1756	5	PLCL1	2	198949991	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	31808892	198949991	44249382	11	61641											
COL6A3	1293	broad.mit.edu	37	chr2	238268749	238268749	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctttactcctctctggccCgggcagccctggaaaccttg	6	10	9	16	1	1	0	0	0	1	0	3	1	2	1	5	3	3	1	5	3	2	3			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr2:238268749C>T	uc002vwl.2	-	17	6549	c.6264G>A	c.(6262-6264)CCG>CCA	p.P2088P	COL6A3_uc002vwo.2_Silent_p.P1882P|COL6A3_uc010znj.1_Silent_p.P1481P	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2088	Triple-helical region.|Collagen-like 1.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CTCTCTGGCCCGGGCAGCCCT	0.607													6	32					0	0	0.038147	0	0		T	238268749	T	T	238268749	2	4	100	1	0	0	0	0	0	0	0	1	3704	639	23	1		1	COL6A3	2	238268749	Silent	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	39318758	238268749	4930624	12	61642											
DLEC1	9940	broad.mit.edu	37	chr3	38139256	38139256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgccctcatcatcaacGtctcagcccttcagtttggt	6	12	8	15	1	5	0	5	0	1	0	6	0	5	0	3	2	3	1	3	2	1	2			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr3:38139256G>A	uc003cho.1	+	18	2608	c.2587G>A	c.(2587-2589)GTC>ATC	p.V863I	DLEC1_uc003chp.1_Missense_Mutation_p.V863I|DLEC1_uc010hgv.1_Missense_Mutation_p.V863I|DLEC1_uc003chr.1_Intron|DLEC1_uc010hgx.1_RNA	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	863					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		CATCATCAACGTCTCAGCCCT	0.632													6	61					0	0	0.02938	0	0		A	38139256	A	A	38139256	3	1	100	1	0	0	0	0	1	0	0	0	4558	1145	40	1	2657	1	DLEC1	3	38139256	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08		38139256	159883174	13	61643											
SAMD7	344658	broad.mit.edu	37	chr3	169646274	169646274	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggttacaattggggggAatctttctttggatgaagat	10	14	12	5	0	2	2	0	1	2	1	2	4	2	4	0	5	1	1	0	5	4	4			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr3:169646274A>G	uc003fgd.2	+	7	1216	c.949A>G	c.(949-951)AAT>GAT	p.N317D	SAMD7_uc003fge.2_Missense_Mutation_p.N317D|SAMD7_uc011bpo.1_Missense_Mutation_p.N218D	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	317										skin(1)	1	all_cancers(22;1.55e-22)|all_epithelial(15;2.41e-27)|all_lung(20;3.52e-17)|Lung NSC(18;1.44e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0106)			AATTGGGGGGAATCTTTCTTT	0.383													5	117					0	0	0.014758	0	0		G	169646274	G	G	169646274	3	3	100	1	0	0	0	0	1	0	0	0	13849	246	9	3	967	3	SAMD7	3	169646274	Missense_Mutation	SNP	A	TCGA-BR-A4J7-01A-31D-A25D-08	131507018	169646274	28376156	14	61644											
CCDC110	256309	broad.mit.edu	37	chr4	186380606	186380606	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggaaggacagtgtgtatcTtggaactctggaatggaatt	12	11	14	4	0	2	0	0	0	2	0	2	6	2	5	0	5	1	1	0	5	5	3			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr4:186380606T>C	uc003ixu.3	-	6	1211	c.1135A>G	c.(1135-1137)AGA>GGA	p.R379G	CCDC110_uc003ixv.3_Missense_Mutation_p.R342G|CCDC110_uc011ckt.1_Missense_Mutation_p.R379G	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	379						nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		AGTGTGTATCTTGGAACTCTG	0.328													8	137					0	0	0.038147	0	0		C	186380606	C	C	186380606	3	2	100	1	0	0	0	0	1	0	0	0	2750	1617	56	3	1374	3	CCDC110	4	186380606	Missense_Mutation	SNP	T	TCGA-BR-A4J7-01A-31D-A25D-08		186380606	4773670	15	61645											
BACH2	60468	broad.mit.edu	37	chr6	90718472	90718472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagagaatatcctttttcCgctggtcattgaggcccagg	9	11	10	11	1	1	2	1	1	0	1	3	3	3	2	3	3	0	1	3	3	2	4			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr6:90718472C>T	uc011eab.1	-	6	901	c.92G>A	c.(91-93)CGG>CAG	p.R31Q	BACH2_uc003pnw.2_Missense_Mutation_p.R31Q|BACH2_uc010kch.2_Missense_Mutation_p.R31Q	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	31						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		ATCCTTTTTCCGCTGGTCATT	0.542													7	86					0	0	0.038147	0	0		T	90718472	T	T	90718472	3	4	100	1	0	0	0	0	1	0	0	0	1285	652	23	1	2449	1	BACH2	6	90718472	Missense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08		90718472	80396595	16	61646											
SYNE1	23345	broad.mit.edu	37	chr6	152542605	152542605	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggtaagagtttctgtcacGggtgggtgacactcttttaa	8	15	12	6	1	3	2	1	1	2	1	3	2	3	2	0	3	0	2	0	3	2	5	rs141170182	byFrequency	TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr6:152542605G>T	uc010kiw.2	-	118	22214	c.21612C>A	c.(21610-21612)CCC>CCA	p.P7204P	SYNE1_uc010kiv.2_Silent_p.P1728P|SYNE1_uc003qos.3_Silent_p.P1728P|SYNE1_uc003qot.3_Silent_p.P7133P|SYNE1_uc003qou.3_Silent_p.P7204P|SYNE1_uc003qor.3_Silent_p.P104P	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7204	Cytoplasmic (Potential).|Spectrin 23.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTTCTGTCACGGGTGGGTGAC	0.363										HNSCC(10;0.0054)			8	96					0.00621372	0.00655892	0.058154	1	0		T	152542605	T	T	152542605	2	4	100	1	0	0	0	0	0	0	0	1	15470	1103	39	5		5	SYNE1	6	152542605	Silent	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	61824133	152542605	18572462	17	61647											
TAGAP	117289	broad.mit.edu	37	chr6	159456921	159456921	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaccggctggctacatcGtcgcacgagacagtcccgct	10	6	11	14	5	0	2	0	0	0	2	3	3	1	2	2	2	1	4	2	2	2	1			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr6:159456921G>A	uc003qrz.2	-	10	2466	c.2134C>T	c.(2134-2136)CGA>TGA	p.R712*	TAGAP_uc011eft.1_Nonsense_Mutation_p.R649*|TAGAP_uc003qsa.2_Nonsense_Mutation_p.R534*	NM_054114	NP_473455	Q8N103	TAGAP_HUMAN	T-cell activation Rho GTPase-activating protein	712					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-16)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		TGGCTACATCGTCGCACGAGA	0.567													6	55					0	0	0.038147	0	0		A	159456921	A	A	159456921	4	1	100	1	0	0	0	0	0	1	0	0	15562	1153	40	1	65	1	TAGAP	6	159456921	Nonsense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	6914316	159456921	11658146	18	61648											
NPSR1	387129	broad.mit.edu	37	chr7	34867067	34867067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagcctgtcttttctgttctCcattcccaccctgatcatat	6	16	5	14	0	4	1	1	1	3	0	6	2	5	1	4	0	1	1	4	0	1	5			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr7:34867067C>T	uc003teg.1	+	5	661	c.533C>T	c.(532-534)TCC>TTC	p.S178F	AAA1_uc010kwq.1_Intron|AAA1_uc011kaq.1_Intron|NPSR1_uc003teh.1_Missense_Mutation_p.S178F|NPSR1_uc010kwt.1_Missense_Mutation_p.S25F|NPSR1_uc010kwu.1_5'UTR|NPSR1_uc010kwv.1_Missense_Mutation_p.S112F|NPSR1_uc003tei.1_Missense_Mutation_p.S178F|NPSR1_uc010kww.1_Missense_Mutation_p.S167F|NPSR1_uc011kar.1_Missense_Mutation_p.S112F|AAA1_uc010kwy.2_Intron|AAA1_uc003tek.3_Intron	NM_207172	NP_997055	Q6W5P4	NPSR1_HUMAN	G protein-coupled receptor for asthma	178	Helical; Name=4; (Potential).					cytoplasm|integral to membrane|plasma membrane	vasopressin receptor activity			skin(3)|pancreas(1)	4					Halothane(DB01159)	TTTCTGTTCTCCATTCCCACC	0.522													5	74					0	0	0.021553	0	0		T	34867067	T	T	34867067	3	4	100	1	0	0	0	0	1	0	0	0	10619	855	30	4	551	4	NPSR1	7	34867067	Missense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08		34867067	124271596	19	61649											
STEAP4	79689	broad.mit.edu	37	chr7	87913437	87913437	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtggtcttctgggggtttcGacttccaaaaacaacagaat	11	11	11	8	1	2	1	0	0	2	1	4	2	3	1	1	4	2	1	1	4	4	3			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr7:87913437G>A	uc003ujs.2	-	2	253	c.148C>T	c.(148-150)CGA>TGA	p.R50*	STEAP4_uc010lek.2_Nonsense_Mutation_p.R50*|STEAP4_uc003ujt.2_Nonsense_Mutation_p.R50*	NM_024636	NP_078912	Q687X5	STEA4_HUMAN	tumor necrosis factor, alpha-induced protein 9	50					fat cell differentiation|ion transport|iron ion homeostasis	Golgi membrane|integral to membrane|plasma membrane	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	Esophageal squamous(14;0.00802)					TGGGGGTTTCGACTTCCAAAA	0.438													8	101					0	0	0.047766	0	0		A	87913437	A	A	87913437	4	1	100	1	0	0	0	0	0	1	0	0	15305	1066	37	1	1247	1	STEAP4	7	87913437	Nonsense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	53046370	87913437	71225226	20	61650											
CPSF4	10898	broad.mit.edu	37	chr7	99054060	99054060	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctgttcccagtgtggCgagaaaggacactacgccaa	10	8	11	12	2	0	1	0	0	0	1	2	3	2	2	3	2	2	2	3	2	3	2			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr7:99054060C>T	uc003uqj.2	+	8	890	c.747C>T	c.(745-747)GGC>GGT	p.G249G	PTCD1_uc011kiw.1_Intron|CPSF4_uc003uqi.2_Silent_p.G224G|CPSF4_uc003uqk.2_Silent_p.G223G|CPSF4_uc011kix.1_Silent_p.G171G	NM_006693	NP_006684	O95639	CPSF4_HUMAN	cleavage and polyadenylation specific factor 4,	249	CCHC-type.				modification by virus of host mRNA processing|mRNA processing|viral infectious cycle	mRNA cleavage and polyadenylation specificity factor complex	RNA binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					CCCAGTGTGGCGAGAAAGGAC	0.557													15	32					0	0	0.146539	0	0		T	99054060	T	T	99054060	2	4	100	1	0	0	0	0	0	0	0	1	3831	755	27	1		1	CPSF4	7	99054060	Silent	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	11140623	99054060	60084603	21	61651											
SNAI2	6591	broad.mit.edu	37	chr8	49832989	49832989	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtaactctcatagagatacgGggaaataatcactgggaaag	16	8	11	6	1	2	1	2	0	1	1	3	4	2	3	0	3	2	1	0	3	6	4	rs11544360		TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr8:49832989G>A	uc003xqp.2	-	2	255	c.91C>T	c.(91-93)CCG>TCG	p.P31S		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	31					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				TAGAGATACGGGGAAATAATC	0.438													15	96					0	0	0.132662	0	0		A	49832989	A	A	49832989	3	1	100	1	0	0	0	0	1	0	0	0	14852	1232	43	4	723	4	SNAI2	8	49832989	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08		49832989	96531033	22	61652											
KCNB2	9312	broad.mit.edu	37	chr8	73850023	73850023	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaaatagatactggtgaCgacgaagacttcttagagct	14	10	10	7	2	1	5	0	2	1	3	1	7	1	5	0	1	2	1	0	1	5	4	rs150484780		TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr8:73850023C>T	uc003xzb.2	+	3	3021	c.2433C>T	c.(2431-2433)GAC>GAT	p.D811D		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	811	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			ATACTGGTGACGACGAAGACT	0.522													7	54					0	0	0.02938	0	0		T	73850023	T	T	73850023	2	4	100	1	0	0	0	0	0	0	0	1	8029	535	19	1		1	KCNB2	8	73850023	Silent	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	24017034	73850023	72513999	23	61653											
KIAA1429	25962	broad.mit.edu	37	chr8	95500939	95500939	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccaaaaggatttttatcGtgtaaaggagcgtacatgac	13	12	9	7	2	0	1	0	1	0	0	2	3	1	3	1	2	2	2	1	2	6	6			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr8:95500939G>A	uc003ygo.1	-	24	5447	c.5434C>T	c.(5434-5436)CGA>TGA	p.R1812*	KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1812					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			GATTTTTATCGTGTAAAGGAG	0.418													20	187					0	0	0.076483	0	0		A	95500939	A	A	95500939	4	1	100	1	0	0	0	0	0	1	0	0	8247	1153	40	1	8	1	KIAA1429	8	95500939	Nonsense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	21650916	95500939	50863083	24	61654											
GDF6	392255	broad.mit.edu	37	chr8	97172648	97172648	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtactcgtggggcaccacGcgcggacccctgcctggcgg	5	6	15	15	5	0	0	0	0	0	0	1	1	0	1	4	5	2	2	4	5	1	1			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr8:97172648G>A	uc003yhp.2	-	1	373	c.273C>T	c.(271-273)CGC>CGT	p.R91R		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	91					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GGGGCACCACGCGCGGACCCC	0.657													13	89					0	0	0.11911	0	0		A	97172648	A	A	97172648	2	1	100	1	0	0	0	0	0	0	0	1	6332	1074	38	1		1	GDF6	8	97172648	Silent	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	1671709	97172648	49191374	25	61655											
WDR67	93594	broad.mit.edu	37	chr8	124096483	124096483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcatgcatcagggaaatatgCcatcacaacttcttctgata	13	11	7	10	0	4	1	2	1	2	0	4	2	4	2	1	1	3	2	1	1	4	4	rs139812181		TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr8:124096483C>T	uc003ypp.1	+	4	512	c.422C>T	c.(421-423)GCC>GTC	p.A141V	WDR67_uc011lig.1_Missense_Mutation_p.A141V|WDR67_uc011lih.1_Missense_Mutation_p.A31V|WDR67_uc003ypq.1_RNA|WDR67_uc003ypo.1_Missense_Mutation_p.A141V	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	141	WD 2.					centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			GGGAAATATGCCATCACAACT	0.408													21	119					0	0	0.076483	0	0		T	124096483	T	T	124096483	3	4	100	1	0	0	0	0	1	0	0	0	17344	739	26	2	436	2	WDR67	8	124096483	Missense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	26923835	124096483	22267539	26	61656											
PLEC	5339	broad.mit.edu	37	chr8	144993544	144993544	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccacgtccacaggcacgCggtggctgtgcacggggtcg	6	5	17	13	5	0	0	0	0	0	0	2	0	1	0	2	6	1	3	2	6	0	0			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr8:144993544C>T	uc003zaf.1	-	32	11026	c.10856G>A	c.(10855-10857)CGC>CAC	p.R3619H	PLEC_uc003zab.1_Missense_Mutation_p.R3482H|PLEC_uc003zac.1_Missense_Mutation_p.R3486H|PLEC_uc003zad.2_Missense_Mutation_p.R3482H|PLEC_uc003zae.1_Missense_Mutation_p.R3450H|PLEC_uc003zag.1_Missense_Mutation_p.R3460H|PLEC_uc003zah.2_Missense_Mutation_p.R3468H|PLEC_uc003zaj.2_Missense_Mutation_p.R3509H	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3619	Globular 2.|Plectin 15.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CACAGGCACGCGGTGGCTGTG	0.677													12	84					0	0	0.09319	0	0		T	144993544	T	T	144993544	3	4	100	1	0	0	0	0	1	0	0	0	12071	768	27	1	3202	1	PLEC	8	144993544	Missense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	20897061	144993544	1370478	27	61657											
PTPRD	5789	broad.mit.edu	37	chr9	8521482	8521482	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccacacaggtgatattaacGcttccgcctggcatgatttc	9	11	9	12	2	0	2	0	2	0	0	2	2	1	2	3	2	1	2	3	2	2	4			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr9:8521482G>A	uc003zkk.2	-	19	1467	c.756C>T	c.(754-756)AGC>AGT	p.S252S	PTPRD_uc003zkp.2_Silent_p.S252S|PTPRD_uc003zkq.2_Silent_p.S252S|PTPRD_uc003zkr.2_Silent_p.S246S|PTPRD_uc003zks.2_Silent_p.S242S|PTPRD_uc003zkl.2_Silent_p.S252S|PTPRD_uc003zkm.2_Silent_p.S239S|PTPRD_uc003zkn.2_Silent_p.S252S|PTPRD_uc003zko.2_Silent_p.S249S	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	252	Extracellular (Potential).|Ig-like C2-type 3.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TGATATTAACGCTTCCGCCTG	0.463										TSP Lung(15;0.13)			13	86					0	0	0.132662	0	0		A	8521482	A	A	8521482	2	1	100	1	0	0	0	0	0	0	0	1	12824	1078	38	1		1	PTPRD	9	8521482	Silent	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08		8521482	132691949	28	61658											
NOTCH1	4851	broad.mit.edu	37	chr9	139391716	139391716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctttgctgctgggcttgcGgaccttcttgccctgcacgc	2	12	12	15	2	1	0	0	0	1	0	1	1	1	1	3	2	5	4	3	2	0	4			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr9:139391716G>A	uc004chz.2	-	34	6475	c.6475C>T	c.(6475-6477)CGC>TGC	p.R2159C		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2159	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CTGGGCTTGCGGACCTTCTTG	0.697			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			5	34					0	0	0.014758	0	0		A	139391716	A	A	139391716	3	1	100	1	0	0	0	0	1	0	0	0	10566	1116	39	1	1196	1	NOTCH1	9	139391716	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	130870234	139391716	1821715	29	61659											
FBXO18	84893	broad.mit.edu	37	chr10	5978466	5978466	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaacgtcttaaaaacaggCgtggtgcgctgctgcgtggg	9	8	15	9	4	1	0	0	0	1	0	1	0	1	0	0	3	6	3	0	3	4	1			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr10:5978466C>T	uc001iis.2	+	20	2972	c.2877C>T	c.(2875-2877)GGC>GGT	p.G959G	FBXO18_uc001iir.2_Silent_p.G902G|FBXO18_uc009xig.2_Silent_p.G885G|FBXO18_uc001iit.2_Silent_p.G1010G	NM_178150	NP_835363	Q8NFZ0	FBX18_HUMAN	F-box only protein, helicase, 18 isoform 2	959					DNA repair	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(2)|skin(1)	3						TAAAAACAGGCGTGGTGCGCT	0.522													4	68					0	0	0.014758	0	0		T	5978466	T	T	5978466	2	4	100	1	0	0	0	0	0	0	0	1	5745	755	27	1		1	FBXO18	10	5978466	Silent	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08		5978466	129556281	30	61660											
PSTK	118672	broad.mit.edu	37	chr10	124742959	124742959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaacagcctcacaattcCgagtccagcatgtgcttcgg	11	8	8	14	2	1	0	1	0	0	0	4	1	3	0	3	1	4	2	3	1	2	2			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr10:124742959C>T	uc001lgy.1	+	3	1120	c.680C>T	c.(679-681)CCG>CTG	p.P227L		NM_153336	NP_699167	Q8IV42	PSTK_HUMAN	phosphoseryl-tRNA kinase	227							ATP binding|kinase activity			liver(1)	1		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0725)		CTCACAATTCCGAGTCCAGCA	0.443													3	41					0	0	0.009096	0	0		T	124742959	T	T	124742959	3	4	100	1	0	0	0	0	1	0	0	0	12742	652	23	1	690	1	PSTK	10	124742959	Missense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	118764493	124742959	10791788	31	61661											
FAM196A	642938	broad.mit.edu	37	chr10	128974037	128974037	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgagtggagttttggagcGcagcttctccatagctgagc	7	10	14	10	2	1	1	0	1	1	0	2	4	1	3	2	2	4	4	2	2	1	4			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr10:128974037G>T	uc001lju.1	-	1	664	c.623C>A	c.(622-624)GCG>GAG	p.A208E	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.A208E|FAM196A_uc001ljv.1_Missense_Mutation_p.A208E|FAM196A_uc009yap.1_Missense_Mutation_p.A208E	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	208										ovary(2)	2						GTTTTGGAGCGCAGCTTCTCC	0.607													6	64					0.00116845	0.0012686	0.021553	1	0		T	128974037	T	T	128974037	3	4	100	1	0	0	0	0	1	0	0	0	5539	1087	38	5	828	5	FAM196A	10	128974037	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	4231078	128974037	6560710	32	61662											
ATM	472	broad.mit.edu	37	chr11	108235869	108235869	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgaaagctttgtatttaCagcagaggccggaagatgaa	13	11	11	6	1	0	4	0	2	0	2	0	5	0	5	1	2	3	3	1	2	5	5			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr11:108235869C>T	uc001pkb.1	+	62	9296	c.8911C>T	c.(8911-8913)CAG>TAG	p.Q2971*	ATM_uc009yxr.1_Nonsense_Mutation_p.Q2971*|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Nonsense_Mutation_p.Q1623*	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2971					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TTTGTATTTACAGCAGAGGCC	0.398			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			9	50					0	0	0.058154	0	0		T	108235869	T	T	108235869	4	4	100	1	0	0	0	0	0	1	0	0	1110	479	17	4	9153	4	ATM	11	108235869	Nonsense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08		108235869	26770647	33	61663											
C11orf57	55216	broad.mit.edu	37	chr11	111951135	111951135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgctttctcttttagccGgatgcgcagtgatggttttg	4	18	11	8	2	2	1	0	1	2	0	3	2	2	2	1	2	3	3	1	2	1	6	rs141894421		TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr11:111951135G>A	uc001pmr.3	+	4	854	c.173G>A	c.(172-174)CGG>CAG	p.R58Q	C11orf57_uc001pmu.2_Missense_Mutation_p.R58Q|C11orf57_uc001pmw.3_Missense_Mutation_p.R58Q|C11orf57_uc001pmt.3_Missense_Mutation_p.R58Q|C11orf57_uc001pmv.3_Missense_Mutation_p.R58Q|C11orf57_uc001pms.3_Missense_Mutation_p.R29Q	NM_001082970	NP_001076439	Q6ZUT1	CK057_HUMAN	hypothetical protein LOC55216 isoform b	58										breast(2)|ovary(1)	3		all_cancers(61;9.8e-15)|all_epithelial(67;6.57e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.6e-07)|BRCA - Breast invasive adenocarcinoma(274;6.17e-07)|all cancers(92;7.01e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0521)		TCTTTTAGCCGGATGCGCAGT	0.388													6	67					0	0	0.02938	0	0		A	111951135	A	A	111951135	3	1	100	1	0	0	0	0	1	0	0	0	1653	1116	39	1	183	1	C11orf57	11	111951135	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	3715266	111951135	23055381	34	61664											
CADM1	23705	broad.mit.edu	37	chr11	115049385	115049385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatgtctggcaaaatagcGccccagaatgatgagcaagc	13	9	10	9	1	1	3	0	2	1	1	1	3	1	3	2	1	3	2	2	1	6	3			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr11:115049385G>A	uc001ppi.3	-	9	1318	c.1189C>T	c.(1189-1191)CGC>TGC	p.R397C	CADM1_uc001ppf.3_Missense_Mutation_p.R369C|CADM1_uc001ppk.3_Missense_Mutation_p.R369C|CADM1_uc001ppj.3_Missense_Mutation_p.R398C|CADM1_uc001pph.3_Missense_Mutation_p.R160C	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	397	Cytoplasmic (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		GCAAAATAGCGCCCCAGAATG	0.537													13	174					0	0	0.11911	0	0		A	115049385	A	A	115049385	3	1	100	1	0	0	0	0	1	0	0	0	2569	1087	38	1	147	1	CADM1	11	115049385	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	3098250	115049385	19957131	35	61665											
USP2	9099	broad.mit.edu	37	chr11	119243689	119243689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgggccagcatggggctgcGgcccaggttcctggggtcta	4	7	17	13	2	1	0	0	0	1	0	2	0	2	0	4	7	2	3	4	7	1	2			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr11:119243689G>A	uc001pwm.3	-	2	797	c.502C>T	c.(502-504)CGC>TGC	p.R168C	USP2_uc001pwn.3_Intron	NM_004205	NP_004196	O75604	UBP2_HUMAN	ubiquitin specific peptidase 2 isoform a	168	Necessary for interaction with MDM4.				cell cycle|muscle organ development|negative regulation of transcription from RNA polymerase II promoter|positive regulation of mitotic cell cycle|protein deubiquitination|protein stabilization|ubiquitin-dependent protein catabolic process	nucleus|perinuclear region of cytoplasm	cyclin binding|cysteine-type endopeptidase activity|metal ion binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity			ovary(2)|urinary_tract(1)|skin(1)	4		all_hematologic(192;4.65e-05)|Breast(348;0.0101)|all_neural(223;0.0218)|Medulloblastoma(222;0.0425)|Renal(330;0.157)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.000513)|Colorectal(284;0.0116)|Lung(307;0.0853)|LUSC - Lung squamous cell carcinoma(976;0.0889)		ATGGGGCTGCGGCCCAGGTTC	0.632													8	108					0	0	0.038147	0	0		A	119243689	A	A	119243689	3	1	100	1	0	0	0	0	1	0	0	0	17077	1116	39	1	1514	1	USP2	11	119243689	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	4194304	119243689	15762827	36	61666											
HNRNPA1	3178	broad.mit.edu	37	chr12	54677679	54677679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attttggacccatgaagggaGgaaattttggaggcagaagc	13	9	14	5	0	0	2	0	1	0	1	0	6	0	6	1	5	1	1	1	5	3	4			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr12:54677679G>A	uc001sfl.2	+	9	1095	c.991G>A	c.(991-993)GGA>AGA	p.G331R	HNRNPA1_uc001sfm.2_Missense_Mutation_p.G279R|HNRNPA1_uc009zng.2_Missense_Mutation_p.G279R|HNRNPA1_uc009znh.2_Missense_Mutation_p.G279R|HNRNPA1_uc009zni.2_Missense_Mutation_p.G266R|HNRNPA1_uc001sfn.2_Missense_Mutation_p.G226R|HNRNPA1_uc001sfo.3_RNA|HNRNPA1_uc009znj.1_Missense_Mutation_p.G234R	NM_031157	NP_112420	P09651	ROA1_HUMAN	heterogeneous nuclear ribonucleoprotein A1	331	Gly-rich.|Nuclear targeting sequence (M9).				interspecies interaction between organisms|mRNA transport|nuclear import	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	nucleotide binding|protein binding|single-stranded DNA binding			skin(2)|ovary(1)	3						CATGAAGGGAGGAAATTTTGG	0.423													11	133					0	0	0.080935	0	0		A	54677679	A	A	54677679	3	1	100	1	0	0	0	0	1	0	0	0	7273	1001	35	4	1025	4	HNRNPA1	12	54677679	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08		54677679	79174216	37	61667											
PLXNC1	10154	broad.mit.edu	37	chr12	94673283	94673283	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgaaaaaatcccggaaaaCgagagtgcagatgtctgtcg	14	9	11	7	3	1	3	0	1	1	2	3	5	2	4	1	1	2	1	1	1	5	1			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr12:94673283C>T	uc001tdc.2	+	22	3882	c.3633C>T	c.(3631-3633)AAC>AAT	p.N1211N	PLXNC1_uc010sut.1_Silent_p.N258N|PLXNC1_uc009zsv.2_Translation_Start_Site	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1211	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						TCCCGGAAAACGAGAGTGCAG	0.383													8	47					0	0	0.080935	0	0		T	94673283	T	T	94673283	2	4	100	1	0	0	0	0	0	0	0	1	12145	535	19	1		1	PLXNC1	12	94673283	Silent	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	39995604	94673283	39178612	38	61668											
NOS1	4842	broad.mit.edu	37	chr12	117672461	117672461	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctcgatcagggcattcacGaggtcctcgtggttgccagg	6	9	14	12	4	2	0	2	0	0	0	5	2	3	0	2	4	1	3	2	4	0	2			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr12:117672461G>A	uc001twm.1	-	21	3830	c.3144C>T	c.(3142-3144)CTC>CTT	p.L1048L		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1048	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GGGCATTCACGAGGTCCTCGT	0.602													14	40					0	0	0.132662	0	0		A	117672461	A	A	117672461	2	1	100	1	0	0	0	0	0	0	0	1	10560	1045	37	1		1	NOS1	12	117672461	Silent	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	22999178	117672461	16179434	39	61669											
MSI1	4440	broad.mit.edu	37	chr12	120784004	120784004	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgtaactgctgaccccCgagtcctggttggccgcccc	5	9	11	16	2	0	2	0	2	0	0	1	3	1	2	6	2	2	3	6	2	1	2			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr12:120784004C>T	uc001tye.1	-	13	1045	c.981G>A	c.(979-981)TCG>TCA	p.S327S		NM_002442	NP_002433	O43347	MSI1H_HUMAN	musashi 1	327					nervous system development	cytoplasm|nucleus	nucleotide binding			central_nervous_system(2)|breast(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGCTGACCCCCGAGTCCTGGT	0.721													10	5					0	0	0.105934	0	0		T	120784004	T	T	120784004	2	4	100	1	0	0	0	0	0	0	0	1	9893	639	23	1		1	MSI1	12	120784004	Silent	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	3111543	120784004	13067891	40	61670											
ATP12A	479	broad.mit.edu	37	chr13	25275019	25275019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgatccccctcggtccaccGtgccagatgcagtcaccaaa	9	7	8	17	3	1	1	1	0	0	1	5	2	3	1	6	1	2	1	6	1	1	0			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr13:25275019G>A	uc001upp.2	+	13	2027	c.1840G>A	c.(1840-1842)GTG>ATG	p.V614M	ATP12A_uc010aaa.2_Missense_Mutation_p.V620M	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	614	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	TCGGTCCACCGTGCCAGATGC	0.468													7	68					0	0	0.038147	0	0		A	25275019	A	A	25275019	3	1	100	1	0	0	0	0	1	0	0	0	1123	1145	40	1	1908	1	ATP12A	13	25275019	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08		25275019	89894859	41	61671											
MYO9A	4649	broad.mit.edu	37	chr15	72227788	72227788	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatagtctgctctggcgaaTcccagttctgccattccagg	7	12	10	12	1	3	1	0	1	3	0	5	2	5	1	3	2	2	2	3	2	2	3			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr15:72227788T>C	uc002atl.3	-	17	2889	c.2416A>G	c.(2416-2418)ATT>GTT	p.I806V	MYO9A_uc010biq.2_Missense_Mutation_p.I426V|MYO9A_uc002atn.1_Missense_Mutation_p.I787V	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	806					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						CTCTGGCGAATCCCAGTTCTG	0.383													4	59					0	0	0.014758	0	0		C	72227788	C	C	72227788	3	2	100	1	0	0	0	0	1	0	0	0	10102	1435	50	3	5334	3	MYO9A	15	72227788	Missense_Mutation	SNP	T	TCGA-BR-A4J7-01A-31D-A25D-08		72227788	30303604	42	61672											
CREBBP	1387	broad.mit.edu	37	chr16	3778427	3778427	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgctgttgctgctgttgTtgctgctgctgttgctgctg	0	18	14	9	0	0	0	0	0	0	0	0	0	0	0	0	0	9	13	0	0	0	4	rs55960450	byFrequency	TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr16:3778427T>C	uc002cvv.2	-	31	6825	c.6621A>G	c.(6619-6621)CAA>CAG	p.Q2207Q	CREBBP_uc002cvw.2_Silent_p.Q2169Q	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2207	Poly-Gln.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		gctgctgttgttgctgctgct	0.423			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				3	32					0	0	0.115264	0	0		C	3778427	C	C	3778427	2	2	100	1	0	0	0	0	0	0	0	1	3864	1722	60	3		3	CREBBP	16	3778427	Silent	SNP	T	TCGA-BR-A4J7-01A-31D-A25D-08		3778427	86576326	43	61673											
NOMO1	23420	broad.mit.edu	37	chr16	14976507	14976507	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcaacgaccacattgagcgGgcgctcccccaccatagggt	9	5	12	15	3	0	1	0	1	0	0	1	2	1	1	4	3	2	2	4	3	2	2			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr16:14976507G>C	uc002dcv.2	+	26	3150	c.3084G>C	c.(3082-3084)CGG>CGC	p.R1028R		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor	1028	Extracellular (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						ACATTGAGCGGGCGCTCCCCC	0.577													10	172					0	0	0.058154	0	0		C	14976507	C	C	14976507	2	2	100	1	0	0	0	0	0	0	0	1	10550	1219	43	5		5	NOMO1	16	14976507	Silent	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	11198080	14976507	75378246	44	61674											
HYDIN	54768	broad.mit.edu	37	chr16	70841630	70841630	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagactgtgatgttgttgatCttcttgggccgcacagactc	7	13	12	9	1	2	4	0	2	2	2	3	5	2	4	1	1	0	3	1	1	0	4			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr16:70841630C>T	uc002ezr.2	-	86	15344	c.15216G>A	c.(15214-15216)AAG>AAA	p.K5072K	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	5073										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TGTTGTTGATCTTCTTGGGCC	0.527													5	100					0	0	0.014758	0	0		T	70841630	T	T	70841630	2	4	100	1	0	0	0	0	0	0	0	1	7483	912	32	4		4	HYDIN	16	70841630	Silent	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	55865123	70841630	19513123	45	61675											
PNMT	5409	broad.mit.edu	37	chr17	37826401	37826401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctggaccacatcaccaCgctgctgaggcctggggggc	6	5	15	15	1	1	1	1	1	0	0	1	2	1	2	4	6	1	2	4	6	0	0	rs111272760		TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr17:37826401C>T	uc002hsi.1	+	3	830	c.608C>T	c.(607-609)ACG>ATG	p.T203M		NM_002686	NP_002677	P11086	PNMT_HUMAN	phenylethanolamine N-methyltransferase	203					catecholamine biosynthetic process|hormone biosynthetic process	cytosol	phenylethanolamine N-methyltransferase activity			ovary(1)	1	all_cancers(6;6.59e-85)|all_epithelial(6;2.89e-103)|Breast(7;1.05e-86)|Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;3.87e-45)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CACATCACCACGCTGCTGAGG	0.672													23	33					0	0	0.108266	0	0		T	37826401	T	T	37826401	3	4	100	1	0	0	0	0	1	0	0	0	12178	536	19	1	618	1	PNMT	17	37826401	Missense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08		37826401	43368809	46	61676											
KCNH6	81033	broad.mit.edu	37	chr17	61613406	61613406	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caactccgagaaggtcttctCcatctgcgtcatgctcatcg	8	11	8	14	3	5	1	2	0	3	1	8	2	6	1	2	1	3	1	2	1	2	1	rs41280094	by1000genomes	TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr17:61613406C>A	uc002jay.2	+	6	1558	c.1478C>A	c.(1477-1479)TCC>TAC	p.S493Y	KCNH6_uc002jax.1_Missense_Mutation_p.S493Y|KCNH6_uc010wpl.1_Missense_Mutation_p.S370Y|KCNH6_uc010wpm.1_Missense_Mutation_p.S493Y|KCNH6_uc002jaz.1_Missense_Mutation_p.S440Y	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	493	Helical; Name=Segment S6; (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	AAGGTCTTCTCCATCTGCGTC	0.507													5	80					2.0095e-06	2.27943e-06	0.02938	1	0		A	61613406	A	A	61613406	3	1	100	1	0	0	0	0	1	0	0	0	8052	855	30	5	1500	5	KCNH6	17	61613406	Missense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	23787005	61613406	19581804	47	61677											
SCN4A	6329	broad.mit.edu	37	chr17	62018184	62018184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctgccctgggggaggggCgggaggccaggcagtgtctg	5	6	21	9	1	2	0	0	0	2	0	2	2	2	2	2	7	1	1	2	7	0	0			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr17:62018184C>T	uc002jds.1	-	24	5535	c.5458G>A	c.(5458-5460)GCC>ACC	p.A1820T		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1820					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GGGGGAGGGGCGGGAGGCCAG	0.677													5	57					0	0	0.021553	0	0		T	62018184	T	T	62018184	3	4	100	1	0	0	0	0	1	0	0	0	13945	768	27	1	56	1	SCN4A	17	62018184	Missense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	404778	62018184	19177026	48	61678											
SLC25A10	1468	broad.mit.edu	37	chr17	79686876	79686876	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagggcgttttccactgcGccgtggagacagcgaagctc	7	8	14	12	4	0	1	0	0	0	1	2	3	1	1	2	2	4	3	2	2	1	2			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr17:79686876G>T	uc002kbi.2	+	10	807	c.721G>T	c.(721-723)GCC>TCC	p.A241S	SLC25A10_uc010wut.1_Missense_Mutation_p.A396S|SLC25A10_uc010dif.2_Missense_Mutation_p.A250S|SLC25A10_uc010wuu.1_Missense_Mutation_p.A195S	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	241	Solcar 3.				gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)	TTTCCACTGCGCCGTGGAGAC	0.607													28	269					5.61819e-17	6.56896e-17	0.108266	1	0		T	79686876	T	T	79686876	3	4	100	1	0	0	0	0	1	0	0	0	14497	1087	38	5	759	5	SLC25A10	17	79686876	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	17668692	79686876	1508334	49	61679											
CXXC1	30827	broad.mit.edu	37	chr18	47812529	47812529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggacaggcctcttgcgccCtccaccctcatcccggggct	5	7	11	18	2	2	0	1	0	1	0	4	1	4	1	5	4	1	1	5	4	0	1			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr18:47812529C>T	uc002leq.3	-	4	1055	c.322G>A	c.(322-324)GGG>AGG	p.G108R	CXXC1_uc002lep.3_5'UTR|CXXC1_uc002ler.3_Missense_Mutation_p.G108R|CXXC1_uc010doy.2_Missense_Mutation_p.G108R|CXXC1_uc002les.2_Missense_Mutation_p.G108R	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	108					histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTCTTGCGCCCTCCACCCTCA	0.642													10	127					0	0	0.058154	0	0		T	47812529	T	T	47812529	3	4	100	1	0	0	0	0	1	0	0	0	4100	681	24	4	1708	4	CXXC1	18	47812529	Missense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08		47812529	30264719	50	61680											
CDH7	1005	broad.mit.edu	37	chr18	63548075	63548075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctaagtgactggggacctcGctttaaacgactcgcggaca	10	8	11	12	4	0	1	0	1	0	0	2	4	0	3	2	3	1	1	2	3	3	3			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr18:63548075G>A	uc002ljz.2	+	12	2628	c.2303G>A	c.(2302-2304)CGC>CAC	p.R768H	CDH7_uc002lkb.2_Missense_Mutation_p.R768H	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	768	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				TGGGGACCTCGCTTTAAACGA	0.433													5	65					0	0	0.038147	0	0		A	63548075	A	A	63548075	3	1	100	1	0	0	0	0	1	0	0	0	3118	1087	38	1	2345	1	CDH7	18	63548075	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	15735546	63548075	14529173	51	61681											
MAP2K7	5609	broad.mit.edu	37	chr19	7975916	7975916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcacggtgtcatccaccgcGacgtcaagccctccaacatc	10	6	8	17	4	2	0	2	0	0	0	5	1	4	0	4	1	3	1	4	1	2	0			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr19:7975916G>A	uc002mit.2	+	7	792	c.727G>A	c.(727-729)GAC>AAC	p.D243N	MAP2K7_uc002miv.2_Missense_Mutation_p.D243N|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.D243N|MAP2K7_uc010dvv.2_Missense_Mutation_p.D118N	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	243	Protein kinase.	Proton acceptor (By similarity).			activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	CATCCACCGCGACGTCAAGCC	0.632													7	45					0	0	0.038147	0	0		A	7975916	A	A	7975916	3	1	100	1	0	0	0	0	1	0	0	0	9260	1058	37	1	753	1	MAP2K7	19	7975916	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08		7975916	51153067	52	61682											
ZNF480	147657	broad.mit.edu	37	chr19	52817462	52817462	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctcaggcggagtggaaatgCctggaccctgcacagagggc	9	6	15	11	1	1	1	1	0	1	1	2	4	1	4	2	5	2	1	2	5	1	0			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr19:52817462C>T	uc010ydl.1	+	3	199	c.129C>T	c.(127-129)TGC>TGT	p.C43C	ZNF480_uc002pyv.2_Intron|ZNF480_uc010ydm.1_Silent_p.C43C|ZNF480_uc010epn.2_Intron|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	43	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		AGTGGAAATGCCTGGACCCTG	0.498													11	129					0	0	0.069234	0	0		T	52817462	T	T	52817462	2	4	100	1	0	0	0	0	0	0	0	1	17960	747	26	2		2	ZNF480	19	52817462	Silent	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	44841546	52817462	6311521	53	61683											
PARD6B	84612	broad.mit.edu	37	chr20	49354417	49354417	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagctgaatttcgtcggttTtcgctggaaagatcaaaacc	11	11	11	8	3	1	2	1	1	0	1	4	4	1	4	1	3	2	3	1	3	4	3			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr20:49354417T>C	uc002xvo.2	+	2	333	c.90T>C	c.(88-90)TTT>TTC	p.F30F		NM_032521	NP_115910	Q9BYG5	PAR6B_HUMAN	PAR-6 beta	30	OPR.				axonogenesis|cell cycle|cell division|establishment or maintenance of cell polarity|protein complex assembly|regulation of cell migration|tight junction assembly	cytosol|tight junction	protein binding			kidney(1)	1						TTCGTCGGTTTTCGCTGGAAA	0.338													4	58					0	0	0.009096	0	0		C	49354417	C	C	49354417	2	2	100	1	0	0	0	0	0	0	0	1	11465	1838	64	3		3	PARD6B	20	49354417	Silent	SNP	T	TCGA-BR-A4J7-01A-31D-A25D-08		49354417	13671103	54	61684											
C20orf106	200232	broad.mit.edu	37	chr20	55100887	55100887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcctcctggccttcgaggcGgccaacttcactctccatta	6	11	8	16	2	2	0	1	0	1	0	6	1	4	0	5	3	1	0	5	3	2	3	rs1054339		TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr20:55100887G>A	uc002xxx.2	+	2	357	c.277G>A	c.(277-279)GGC>AGC	p.G93S	GCNT7_uc010zzg.1_5'UTR|C20orf107_uc010zzh.1_Intron	NM_001012971	NP_001012989	Q5JX71	CT106_HUMAN	hypothetical protein LOC200232 precursor	93	Cytoplasmic (Potential).					integral to membrane					0			Colorectal(105;0.202)			CCTTCGAGGCGGCCAACTTCA	0.398													10	169					0	0	0.058154	0	0		A	55100887	A	A	55100887	3	1	100	1	0	0	0	0	1	0	0	0	2079	1116	39	1	283	1	C20orf106	20	55100887	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08	5746470	55100887	7924633	55	61685											
KRTAP10-2	386679	broad.mit.edu	37	chr21	45971079	45971079	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggggaggaggtgcagcaaGccggctggcagctagactgc	9	4	19	9	1	0	1	0	0	0	1	0	3	0	3	1	6	5	5	1	6	2	1			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr21:45971079G>T	uc002zfi.1	-	1	310	c.263C>A	c.(262-264)GCT>GAT	p.A88D	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198693	NP_941966	P60368	KR102_HUMAN	keratin associated protein 10-2	88	22 X 5 AA repeats of C-C-X(3).					keratin filament				large_intestine(1)	1						GGTGCAGCAAGCCGGCTGGCA	0.687													9	120					0.000274275	0.0003021	0.047766	1	0		T	45971079	T	T	45971079	3	4	100	1	0	0	0	0	1	0	0	0	8525	971	34	5	508	5	KRTAP10-2	21	45971079	Missense_Mutation	SNP	G	TCGA-BR-A4J7-01A-31D-A25D-08		45971079	2158816	56	61686											
KRTAP10-2	386679	broad.mit.edu	37	chr21	45971206	45971206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acagctcactggggtgcagaCcagggtcaggcagggggctg	8	5	18	10	0	2	1	2	0	0	1	2	1	2	1	1	6	2	4	1	6	0	0			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chr21:45971206C>T	uc002zfi.1	-	1	183	c.136G>A	c.(136-138)GTC>ATC	p.V46I	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198693	NP_941966	P60368	KR102_HUMAN	keratin associated protein 10-2	46	22 X 5 AA repeats of C-C-X(3).					keratin filament				large_intestine(1)	1						GGGGTGCAGACCAGGGTCAGG	0.697													9	73					0	0	0.047766	0	0		T	45971206	T	T	45971206	3	4	100	1	0	0	0	0	1	0	0	0	8525	507	18	4	635	4	KRTAP10-2	21	45971206	Missense_Mutation	SNP	C	TCGA-BR-A4J7-01A-31D-A25D-08	127	45971206	2158689	57	61687											
PASD1	139135	broad.mit.edu	37	chrX	150773161	150773161	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaggaaattaaactggatTccatcatttcctacctatga	15	12	5	9	0	1	1	1	1	0	0	3	3	3	3	3	2	2	0	3	2	6	5			TCGA-BR-A4J7-01A-31D-A25D-08	TCGA-BR-A4J7-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e358b764-e5be-4a59-b170-7b2fbac78c87	ccdd1844-901d-4cc3-bf77-b9552021fcd0	g.chrX:150773161T>G	uc004fev.3	+	3	404	c.72T>G	c.(70-72)ATT>ATG	p.I24M		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	24						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TAAACTGGATTCCATCATTTC	0.333													3	13					0	0	0.115264	0	0		G	150773161	G	G	150773161	3	3	100	1	0	0	0	0	1	0	0	0	11490	1771	62	5	78	5	PASD1	23	150773161	Missense_Mutation	SNP	T	TCGA-BR-A4J7-01A-31D-A25D-08		150773161	4497399	58	61688											
GPR153	387509	broad.mit.edu	37	chr1	6314867	6314867	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacttcttctgcttggcGccaacgctgaggatgcccca	6	11	9	15	2	2	1	0	1	2	0	3	2	3	2	4	2	3	2	4	2	1	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:6314867G>A	uc001amp.1	-	2	359	c.99C>T	c.(97-99)GGC>GGT	p.G33G		NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	33	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		TCTGCTTGGCGCCAACGCTGA	0.637													9	81					0	0	1	0	0		A	6314867	A	A	6314867	2	1	101	1	0	0	0	0	0	0	0	1	6674	1074	38	1		1	GPR153	1	6314867	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08		6314867	242935754	1	61689											
CLCN6	1185	broad.mit.edu	37	chr1	11888593	11888593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcgtgatgggggtcattgggGgcctcctgggagccacattc	5	10	16	10	1	1	1	1	1	0	0	4	2	2	2	3	5	1	0	3	5	0	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:11888593G>A	uc001ate.3	+	12	1146	c.1033G>A	c.(1033-1035)GGC>AGC	p.G345S	CLCN6_uc009vnh.1_Intron|CLCN6_uc010oat.1_Missense_Mutation_p.G61S|CLCN6_uc010oau.1_Missense_Mutation_p.G323S	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	345	Helical; (By similarity).				cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		GGTCATTGGGGGCCTCCTGGG	0.507													10	332					0	0	1	0	0		A	11888593	A	A	11888593	3	1	101	1	0	0	0	0	1	0	0	0	3470	1232	43	4	1089	4	CLCN6	1	11888593	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	5573726	11888593	237362028	2	61690											
NPPB	4879	broad.mit.edu	37	chr1	11918406	11918406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggtgcccacggatgccctCggtggctacctcccgggact	4	7	14	16	4	0	0	0	0	0	0	2	2	1	2	4	5	3	1	4	5	1	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:11918406C>T	uc001atj.2	-	2	355	c.253G>A	c.(253-255)GAG>AAG	p.E85K		NM_002521	NP_002512	P16860	ANFB_HUMAN	natriuretic peptide precursor B preproprotein	85					body fluid secretion|cGMP biosynthetic process|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation	extracellular space	diuretic hormone activity			ovary(2)	2	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)	Carvedilol(DB01136)|Nesiritide(DB04899)|Testosterone(DB00624)	CGGATGCCCTCGGTGGCTACC	0.642													8	56					0	0	1	0	0		T	11918406	T	T	11918406	3	4	101	1	0	0	0	0	1	0	0	0	10611	893	31	1	159	1	NPPB	1	11918406	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	29813	11918406	237332215	3	61691											
SNRNP40	9410	broad.mit.edu	37	chr1	31764770	31764770	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatactcacctgccatctgTgttgtaatgcaattccatca	11	13	6	11	0	3	0	2	0	1	0	4	1	4	0	3	0	3	3	3	0	4	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:31764770T>C	uc001bso.2	-	3	401	c.355A>G	c.(355-357)ACA>GCA	p.T119A	SNRNP40_uc010oge.1_Missense_Mutation_p.T119A	NM_004814	NP_004805	Q96DI7	SNR40_HUMAN	WD repeat domain 57 (U5 snRNP specific)	119	WD 2.					catalytic step 2 spliceosome|cytoplasm|nucleoplasm|small nucleolar ribonucleoprotein complex|U5 snRNP	protein binding				0						CTGCCATCTGTGTTGTAATGC	0.458													5	76					0	0	1	0	0		C	31764770	C	C	31764770	3	2	101	1	0	0	0	0	1	0	0	0	14881	1696	59	3	750	3	SNRNP40	1	31764770	Missense_Mutation	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08	19846364	31764770	217485851	4	61692											
LEPR	3953	broad.mit.edu	37	chr1	66101896	66101896	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaacgtttgagcatctttTtatcaagcatacagcatcag	14	12	7	8	1	3	2	2	1	1	1	3	2	3	2	0	0	5	4	0	0	4	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:66101896T>C	uc001dci.2	+	20	2898	c.2696T>C	c.(2695-2697)TTT>TCT	p.F899S	LEPR_uc009waq.2_Silent_p.L173L	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	899	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		GAGCATCTTTTTATCAAGCAT	0.333													13	181					0	0	1	0	0		C	66101896	C	C	66101896	3	2	101	1	0	0	0	0	1	0	0	0	8744	1841	64	3	2996	3	LEPR	1	66101896	Missense_Mutation	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08	34337126	66101896	183148725	5	61693											
PTGFR	5737	broad.mit.edu	37	chr1	78958507	78958507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacctgccagacggaaaacCggctttccgtatttttttca	10	12	7	12	3	1	1	1	0	0	1	2	2	2	2	4	2	3	2	4	2	4	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:78958507C>T	uc001din.2	+	2	345	c.79C>T	c.(79-81)CGG>TGG	p.R27W	PTGFR_uc001dim.2_Missense_Mutation_p.R27W	NM_000959	NP_000950	P43088	PF2R_HUMAN	prostaglandin F receptor isoform a precursor	27	Extracellular (Potential).				parturition	extracellular region|integral to plasma membrane	prostaglandin F receptor activity			ovary(3)|breast(2)|skin(1)	6				Colorectal(170;0.248)	Bimatoprost(DB00905)|Latanoprost(DB00654)|Travoprost(DB00287)	GACGGAAAACCGGCTTTCCGT	0.438													8	94					0	0	1	0	0		T	78958507	T	T	78958507	3	4	101	1	0	0	0	0	1	0	0	0	12772	643	23	1	81	1	PTGFR	1	78958507	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	12856611	78958507	170292114	6	61694											
S100A9	6280	broad.mit.edu	37	chr1	153333228	153333228	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatgctgatggcgaggctaAcctgggcctcccacgagaag	9	7	13	12	2	1	2	1	1	0	1	2	4	2	2	3	3	2	2	3	3	2	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:153333228A>C	uc001fbq.2	+	3	302	c.259A>C	c.(259-261)ACC>CCC	p.T87P		NM_002965	NP_002956	P06702	S10A9_HUMAN	S100 calcium-binding protein A9	87	EF-hand 2.				cell-cell signaling	cytoplasm|cytoskeleton|nucleus|plasma membrane	calcium ion binding|protein binding|signal transducer activity				0	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGCGAGGCTAACCTGGGCCTC	0.572													8	53					0	0	1	0	0		C	153333228	C	C	153333228	3	2	101	1	0	0	0	0	1	0	0	0	13812	43	2	5	265	5	S100A9	1	153333228	Missense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08	74374721	153333228	95917393	7	61695											
APOA1BP	128240	broad.mit.edu	37	chr1	156563293	156563293	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaccgttccacagcatcCtgagtgtcctgaagggactc	9	8	12	12	1	0	2	0	2	0	0	4	4	3	4	4	2	2	2	4	2	2	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:156563293C>T	uc001fph.2	+	5	649	c.610C>T	c.(610-612)CTG>TTG	p.L204L	APOA1BP_uc001fpg.2_Silent_p.L204L|APOA1BP_uc001fpi.2_Missense_Mutation_p.P185L|APOA1BP_uc001fpj.2_Silent_p.L121L|APOA1BP_uc001fpk.2_Silent_p.L101L|APOA1BP_uc010php.1_Silent_p.L101L	NM_144772	NP_658985	Q8NCW5	AIBP_HUMAN	apolipoprotein A-I binding protein precursor	204	YjeF N-terminal.					extracellular region	protein binding			central_nervous_system(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCACAGCATCCTGAGTGTCCT	0.572													13	75					0	0	1	0	0		T	156563293	T	T	156563293	2	4	101	1	0	0	0	0	0	0	0	1	781	680	24	4		4	APOA1BP	1	156563293	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	3230065	156563293	92687328	8	61696											
FAM20B	9917	broad.mit.edu	37	chr1	179033214	179033214	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccatggggcaggacttacCgagaaggcaaattggccagg	12	5	14	10	1	0	1	0	0	0	1	0	3	0	2	3	6	1	2	3	6	3	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:179033214C>T	uc001gmc.2	+	5	1020	c.727C>T	c.(727-729)CGA>TGA	p.R243*		NM_014864	NP_055679	O75063	XYLK_HUMAN	hypothetical protein LOC9917 precursor	243	Lumenal (Potential).					Golgi membrane|integral to membrane	ATP binding|kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(3)	3						CAGGACTTACCGAGAAGGCAA	0.522													42	60					0	0	1	0	0		T	179033214	T	T	179033214	4	4	101	1	0	0	0	0	0	1	0	0	5549	644	23	1	741	1	FAM20B	1	179033214	Nonsense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	22469921	179033214	70217407	9	61697											
CENPF	1063	broad.mit.edu	37	chr1	214818634	214818634	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaaatgagctgagtaggatCagatcggagaaagctagcat	16	7	13	5	1	1	4	1	2	0	2	2	7	1	5	0	2	3	4	0	2	5	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:214818634C>T	uc001hkm.2	+	13	5895	c.5721C>T	c.(5719-5721)ATC>ATT	p.I1907I		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2003	Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TGAGTAGGATCAGATCGGAGA	0.418													6	114					0	0	1	0	0		T	214818634	T	T	214818634	2	4	101	1	0	0	0	0	0	0	0	1	3234	816	29	4		4	CENPF	1	214818634	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	35785420	214818634	34431987	10	61698											
URB2	9816	broad.mit.edu	37	chr1	229771163	229771163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcaaggggatgtgaagaCgggagccatgaagaaccttc	13	5	15	8	1	0	4	0	2	0	2	1	6	0	6	2	3	3	2	2	3	4	1	rs114879838	by1000genomes	TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:229771163C>T	uc001hts.1	+	4	939	c.803C>T	c.(802-804)ACG>ATG	p.T268M	URB2_uc009xfd.1_Missense_Mutation_p.T268M	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	268						nucleolus				central_nervous_system(2)|ovary(1)	3						GATGTGAAGACGGGAGCCATG	0.547													40	51					0	0	1	0	0		T	229771163	T	T	229771163	3	4	101	1	0	0	0	0	1	0	0	0	17051	536	19	1	813	1	URB2	1	229771163	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	14952529	229771163	19479458	11	61699											
NID1	4811	broad.mit.edu	37	chr1	236175230	236175230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaccttacctccgggcaCgcaacggaagccgtctccct	8	6	8	19	4	1	0	0	0	1	0	3	1	2	1	6	2	3	2	6	2	3	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:236175230C>T	uc001hxo.2	-	12	2620	c.2518G>A	c.(2518-2520)GTG>ATG	p.V840M	NID1_uc009xgd.2_Intron|NID1_uc009xgc.2_Translation_Start_Site	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	840	EGF-like 5; calcium-binding (Potential).				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	CCTCCGGGCACGCAACGGAAG	0.582													9	119					0	0	1	0	0		T	236175230	T	T	236175230	3	4	101	1	0	0	0	0	1	0	0	0	10433	536	19	1	1261	1	NID1	1	236175230	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	6404067	236175230	13075391	12	61700											
FMN2	56776	broad.mit.edu	37	chr1	240371421	240371421	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctccgccccctctaccCggagtgggcatacctcctcc	4	7	7	23	2	1	0	0	0	1	0	4	1	4	1	9	2	2	1	9	2	2	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:240371421C>T	uc010pyd.1	+	5	3534	c.3309C>T	c.(3307-3309)CCC>CCT	p.P1103P	FMN2_uc010pye.1_Silent_p.P1107P	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1103	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CCCCTCTACCCGGAGTGGGCA	0.736													3	39					0	0	1	0	0		T	240371421	T	T	240371421	2	4	101	1	0	0	0	0	0	0	0	1	5964	639	23	1		1	FMN2	1	240371421	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	4196191	240371421	8879200	13	61701											
EXO1	9156	broad.mit.edu	37	chr1	242021853	242021853	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaatggacttgaaattgatCaagctcggctaggaatgtgc	13	10	12	6	1	1	2	1	2	0	0	2	5	1	4	0	3	2	2	0	3	5	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:242021853C>T	uc001hzh.2	+	8	1129	c.589C>T	c.(589-591)CAA>TAA	p.Q197*	EXO1_uc001hzi.2_Nonsense_Mutation_p.Q197*|EXO1_uc001hzj.2_Nonsense_Mutation_p.Q197*|EXO1_uc009xgq.2_Nonsense_Mutation_p.Q197*	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	197	I-domain.|Interaction with MSH3.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			TGAAATTGATCAAGCTCGGCT	0.398								Direct_reversal_of_damage|Editing_and_processing_nucleases					14	146					0	0	1	0	0		T	242021853	T	T	242021853	4	4	101	1	0	0	0	0	0	1	0	0	5308	827	29	4	607	4	EXO1	1	242021853	Nonsense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	1650432	242021853	7228768	14	61702											
EIF2B4	8890	broad.mit.edu	37	chr2	27587343	27587343	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccagctccgtgatcaccAgatccacaagctctggggga	9	7	10	15	1	2	2	1	1	1	1	5	3	5	3	5	2	2	2	5	2	1	0			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:27587343A>G	uc002rkb.2	-	13	1639	c.1496T>C	c.(1495-1497)CTG>CCG	p.L499P	EIF2B4_uc002rjz.2_Missense_Mutation_p.L519P|EIF2B4_uc002rka.2_Missense_Mutation_p.L484P|EIF2B4_uc002rkc.2_Missense_Mutation_p.L498P|EIF2B4_uc002rkd.2_Missense_Mutation_p.L293P|EIF2B4_uc002rke.2_Missense_Mutation_p.L468P	NM_001034116	NP_001029288	Q9UI10	EI2BD_HUMAN	eukaryotic translation initiation factor 2B,	499					myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	translation initiation factor activity|translation initiation factor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGTGATCACCAGATCCACAAG	0.517													26	61					0	0	1	0	0		G	27587343	G	G	27587343	3	3	101	1	0	0	0	0	1	0	0	0	5009	188	7	3	79	3	EIF2B4	2	27587343	Missense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08		27587343	215612030	15	61703											
SNRNP200	23020	broad.mit.edu	37	chr2	96967313	96967313	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtgatctttttgcccaGgttcactagcacatggtatc	7	15	9	10	0	3	1	1	1	2	0	4	1	3	1	1	2	2	3	1	2	2	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:96967313G>A	uc002svu.2	-	4	609	c.523C>T	c.(523-525)CTG>TTG	p.L175L		NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	175						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						TTTTTGCCCAGGTTCACTAGC	0.438													153	96					0	0	1	0	0		A	96967313	A	A	96967313	2	1	101	1	0	0	0	0	0	0	0	1	14877	991	35	4		4	SNRNP200	2	96967313	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	69379970	96967313	146232060	16	61704											
POTEF	728378	broad.mit.edu	37	chr2	130877735	130877735	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcgtagtctccccaagcGcccaccttgctcttgctgct	5	12	7	17	2	3	0	1	0	2	0	5	0	3	0	4	0	4	4	4	0	2	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:130877735G>A	uc010fmh.2	-	3	754	c.354C>T	c.(352-354)GGC>GGT	p.G118G		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	118						cell cortex	ATP binding			skin(3)|ovary(2)	5						CTCCCCAAGCGCCCACCTTGC	0.587													10	100					0	0	1	0	0		A	130877735	A	A	130877735	2	1	101	1	0	0	0	0	0	0	0	1	12284	1074	38	1		1	POTEF	2	130877735	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	33910422	130877735	112321638	17	61705											
TMEM163	81615	broad.mit.edu	37	chr2	135309655	135309655	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggcgctgtacctcataacGgagacagctaaaaagaaaga	17	5	11	8	2	1	3	1	0	0	3	1	5	1	3	1	2	3	3	1	2	6	3	rs145798414		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:135309655G>A	uc002ttx.2	-	3	396	c.330C>T	c.(328-330)TCC>TCT	p.S110S	TMEM163_uc002tty.2_RNA	NM_030923	NP_112185	Q8TC26	TM163_HUMAN	transmembrane protein 163	110						integral to membrane					0				BRCA - Breast invasive adenocarcinoma(221;0.154)		ACCTCATAACGGAGACAGCTA	0.338													5	48					0	0	1	0	0		A	135309655	A	A	135309655	2	1	101	1	0	0	0	0	0	0	0	1	16103	1103	39	1		1	TMEM163	2	135309655	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	4431920	135309655	107889718	18	61706											
DFNB59	494513	broad.mit.edu	37	chr2	179325944	179325944	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttctgttgatggtcagaaGtatgtgagacttcatgcagt	9	15	12	5	0	3	3	2	2	1	2	3	4	3	3	0	1	1	4	0	1	2	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:179325944G>A	uc002umi.3	+	7	1358	c.1002G>A	c.(1000-1002)AAG>AAA	p.K334K	DFNB59_uc002umj.3_Silent_p.K334K	NM_001042702	NP_001036167	Q0ZLH3	PJVK_HUMAN	deafness, autosomal recessive 59	334					sensory perception of sound						0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			ATGGTCAGAAGTATGTGAGAC	0.408													56	130					0	0	1	0	0		A	179325944	A	A	179325944	2	1	101	1	0	0	0	0	0	0	0	1	4462	1020	36	4		4	DFNB59	2	179325944	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	44016289	179325944	63873429	19	61707											
TTN	7273	broad.mit.edu	37	chr2	179593239	179593239	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacaaacctagcactcttaAgtaggcatcacagctactgc	14	9	6	12	0	2	0	1	0	1	0	2	0	2	0	1	1	6	4	1	1	6	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:179593239A>C	uc010zfg.1	-	63	15906	c.15682T>G	c.(15682-15684)TTA>GTA	p.L5228V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.L1889V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6155							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGCACTCTTAAGTAGGCATCA	0.418													3	28					0	0	1	0	0		C	179593239	C	C	179593239	3	2	101	1	0	0	0	0	1	0	0	0	16761	69	3	5	85303	5	TTN	2	179593239	Missense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08	267295	179593239	63606134	20	61708											
ERBB4	2066	broad.mit.edu	37	chr2	212576825	212576825	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcccattgatcttggtacaGtttatgaatttgtcaatgtt	9	19	7	6	0	2	2	1	2	1	0	3	2	3	2	1	1	1	3	1	1	4	8			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:212576825G>T	uc002veg.1	-	9	1172	c.1074C>A	c.(1072-1074)AAC>AAA	p.N358K	ERBB4_uc002veh.1_Missense_Mutation_p.N358K|ERBB4_uc010zji.1_Missense_Mutation_p.N358K|ERBB4_uc010zjj.1_Missense_Mutation_p.N358K|ERBB4_uc010fut.1_Missense_Mutation_p.N358K	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	358	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TCTTGGTACAGTTTATGAATT	0.363										TSP Lung(8;0.080)			7	55					1.06961e-07	1.1033e-07	1	1	0		T	212576825	T	T	212576825	3	4	101	1	0	0	0	0	1	0	0	0	5217	1020	36	5	2932	5	ERBB4	2	212576825	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	32983586	212576825	30622548	21	61709											
IRS1	3667	broad.mit.edu	37	chr2	227663060	227663060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccgctgcagctgcccccaCcacctcccgccccgagggcc	4	4	10	23	3	0	0	0	0	0	0	1	1	1	0	9	1	4	3	9	1	0	0			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:227663060C>T	uc002voh.3	-	1	447	c.395G>A	c.(394-396)GGT>GAT	p.G132D		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	132	Poly-Gly.|Mediates interaction with PHIP (By similarity).				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GCTGCCCCCACCACCTCCCGC	0.672											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	65	26					0	0	1	0	0		T	227663060	T	T	227663060	3	4	101	1	0	0	0	0	1	0	0	0	7856	507	18	4	3337	4	IRS1	2	227663060	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	15086235	227663060	15536313	22	61710											
PDZRN3	23024	broad.mit.edu	37	chr3	73432887	73432887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcttcagggcgcgctcccGcagcaggcggtcccgcacgg	5	5	15	16	6	2	0	1	0	1	0	4	1	4	0	2	4	1	4	2	4	0	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr3:73432887G>A	uc003dpl.1	-	10	2926	c.2830C>T	c.(2830-2832)CGG>TGG	p.R944W	PDZRN3_uc011bgh.1_Missense_Mutation_p.R601W|PDZRN3_uc010hoe.1_Missense_Mutation_p.R642W|PDZRN3_uc011bgf.1_Missense_Mutation_p.R661W|PDZRN3_uc011bgg.1_Missense_Mutation_p.R664W	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	944							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GCGCGCTCCCGCAGCAGGCGG	0.677													12	36					0	0	1	0	0		A	73432887	A	A	73432887	3	1	101	1	0	0	0	0	1	0	0	0	11728	1086	38	1	374	1	PDZRN3	3	73432887	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08		73432887	124589543	23	61711											
PHLDB2	90102	broad.mit.edu	37	chr3	111667811	111667811	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaatgagattaatgagccGtgtggcaattccacgaatct	13	11	10	7	2	1	2	0	2	1	1	2	4	2	2	2	1	1	2	2	1	5	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr3:111667811G>A	uc010hqa.2	+	10	2931	c.2520G>A	c.(2518-2520)CCG>CCA	p.P840P	PHLDB2_uc003dyc.2_Silent_p.P824P|PHLDB2_uc003dyd.2_Silent_p.P797P|PHLDB2_uc003dyg.2_Silent_p.P840P|PHLDB2_uc003dyh.2_Silent_p.P797P|PHLDB2_uc003dyi.2_Intron	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	840						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						TTAATGAGCCGTGTGGCAATT	0.473													5	50					0	0	1	0	0		A	111667811	A	A	111667811	2	1	101	1	0	0	0	0	0	0	0	1	11871	1132	40	1		1	PHLDB2	3	111667811	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	38234924	111667811	86354619	24	61712											
KTELC1	56983	broad.mit.edu	37	chr3	119209420	119209420	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctgtttaattttcgaggcGtagctgcaagtttccggttt	7	17	10	7	3	1	0	0	0	1	0	3	1	2	0	1	2	2	6	1	2	3	7			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr3:119209420G>A	uc003ecm.2	+	9	904	c.820G>A	c.(820-822)GTA>ATA	p.V274I	KTELC1_uc011biz.1_RNA|KTELC1_uc011bja.1_Missense_Mutation_p.V115I	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	274						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		TTTTCGAGGCGTAGCTGCAAG	0.418													27	63					0	0	1	0	0		A	119209420	A	A	119209420	3	1	101	1	0	0	0	0	1	0	0	0	8599	1145	40	1	854	1	KTELC1	3	119209420	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	7541609	119209420	78813010	25	61713											
DNAJC13	23317	broad.mit.edu	37	chr3	132172210	132172210	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccatgctggtaactacatAggtatttcattgcggatcag	11	12	10	8	1	2	0	2	0	0	0	2	2	2	1	1	3	4	3	1	3	4	6			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr3:132172210A>C	uc003eor.2	+	7	671	c.606A>C	c.(604-606)ATA>ATC	p.I202I	DNAJC13_uc010htq.1_Silent_p.I202I|DNAJC13_uc003eos.1_5'Flank	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	202							heat shock protein binding			ovary(1)|breast(1)	2						GTAACTACATAGGTATTTCAT	0.353													3	36					0	0	1	0	0		C	132172210	C	C	132172210	2	2	101	1	0	0	0	0	0	0	0	1	4638	410	15	5		5	DNAJC13	3	132172210	Silent	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08	12962790	132172210	65850220	26	61714											
STX18	53407	broad.mit.edu	37	chr4	4543685	4543685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaatagcagcgtgatgtccaCcgccatagcgacccgcaccc	10	5	10	16	4	0	1	0	1	0	0	1	3	1	1	5	0	3	2	5	0	3	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr4:4543685C>T	uc003gic.2	-	1	91	c.7G>A	c.(7-9)GTG>ATG	p.V3M	uc003gid.2_5'Flank	NM_016930	NP_058626	Q9P2W9	STX18_HUMAN	syntaxin 18	3	Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|intracellular protein transport	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	SNAP receptor activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.0534)		GTGATGTCCACCGCCATAGCG	0.711													3	14					0	0	1	0	0		T	4543685	T	T	4543685	3	4	101	1	0	0	0	0	1	0	0	0	15366	507	18	4	1044	4	STX18	4	4543685	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08		4543685	186610591	27	61715											
SH3TC1	54436	broad.mit.edu	37	chr4	8229026	8229026	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttccgcagcttcagcgaCgaggaggagctgactgggcg	7	7	17	10	4	1	1	1	1	0	0	2	5	2	3	1	3	3	4	1	3	0	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr4:8229026C>T	uc003gkv.3	+	12	1706	c.1605C>T	c.(1603-1605)GAC>GAT	p.D535D	SH3TC1_uc003gkw.3_Silent_p.D459D|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	535							binding			large_intestine(2)|pancreas(1)	3						GCTTCAGCGACGAGGAGGAGC	0.687													6	9					0	0	1	0	0		T	8229026	T	T	8229026	2	4	101	1	0	0	0	0	0	0	0	1	14286	535	19	1		1	SH3TC1	4	8229026	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	3685341	8229026	182925250	28	61716											
AFM	173	broad.mit.edu	37	chr4	74367522	74367522	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggtttcttgtcaacttagtGaagctgaagcatgaactcac	12	12	9	8	0	3	3	2	3	1	0	3	3	3	3	0	1	4	3	0	1	5	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr4:74367522G>A	uc003hhb.2	+	13	1696	c.1665G>A	c.(1663-1665)GTG>GTA	p.V555V		NM_001133	NP_001124	P43652	AFAM_HUMAN	afamin precursor	555	Albumin 3.				vitamin transport		vitamin E binding			ovary(2)|central_nervous_system(1)	3	Breast(15;0.00102)		Epithelial(6;5.69e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|all cancers(17;0.000555)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCAACTTAGTGAAGCTGAAGC	0.388													3	11					0	0	1	0	0		A	74367522	A	A	74367522	2	1	101	1	0	0	0	0	0	0	0	1	361	1277	45	4		4	AFM	4	74367522	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	66138496	74367522	116786754	29	61717											
BMP3	651	broad.mit.edu	37	chr4	81967172	81967172	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatattatgtcctggctgtcTaaagatatcactcaactctt	11	15	6	9	0	4	1	2	0	2	1	5	2	5	1	1	1	1	1	1	1	6	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr4:81967172T>A	uc003hmg.3	+	2	917	c.597T>A	c.(595-597)TCT>TCA	p.S199S		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	199					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						CCTGGCTGTCTAAAGATATCA	0.453													10	115					0	0	1	0	0		A	81967172	A	A	81967172	2	1	101	1	0	0	0	0	0	0	0	1	1462	1509	53	5		5	BMP3	4	81967172	Silent	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08	7599650	81967172	109187104	30	61718											
NPR3	4883	broad.mit.edu	37	chr5	32724837	32724837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcgagcagtgacaccatccGgagcatcatgctggtggcgc	8	7	14	12	3	1	1	1	1	0	0	2	3	2	2	2	3	4	3	2	3	0	0			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:32724837G>A	uc003jhv.2	+	2	1021	c.803G>A	c.(802-804)CGG>CAG	p.R268Q	NPR3_uc010iuo.2_Missense_Mutation_p.R52Q|NPR3_uc011cnz.1_Missense_Mutation_p.R52Q|NPR3_uc003jhu.2_Missense_Mutation_p.R268Q	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	268	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	GACACCATCCGGAGCATCATG	0.502													11	34					0	0	1	0	0		A	32724837	A	A	32724837	3	1	101	1	0	0	0	0	1	0	0	0	10615	1116	39	1	809	1	NPR3	5	32724837	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08		32724837	148190423	31	61719											
ERBB2IP	55914	broad.mit.edu	37	chr5	65349645	65349645	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggaaacttcccagtctccTaataggactgaaccacatga	14	8	8	11	0	1	2	0	2	1	0	3	5	2	4	3	2	2	0	3	2	4	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:65349645T>C	uc003juk.1	+	21	2807	c.2499T>C	c.(2497-2499)CCT>CCC	p.P833P	ERBB2IP_uc003jui.1_Silent_p.P833P|ERBB2IP_uc003juj.1_Silent_p.P833P|ERBB2IP_uc011cqx.1_Silent_p.P833P|ERBB2IP_uc011cqy.1_Silent_p.P833P|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Silent_p.P829P|ERBB2IP_uc003jul.1_Silent_p.P829P	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	833					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		CCCAGTCTCCTAATAGGACTG	0.408													8	37					0	0	1	0	0		C	65349645	C	C	65349645	2	2	101	1	0	0	0	0	0	0	0	1	5215	1509	53	3		3	ERBB2IP	5	65349645	Silent	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08	32624808	65349645	115565615	32	61720											
PDLIM4	8572	broad.mit.edu	37	chr5	131607859	131607859	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agccacgccaaggcgcgcgtGaagccgcccgagggctacga	9	2	15	15	7	0	1	0	1	0	0	0	3	0	1	4	2	3	1	4	2	3	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:131607859G>A	uc003kwn.2	+	7	1007	c.930G>A	c.(928-930)GTG>GTA	p.V310V	uc003kwm.3_Intron|PDLIM4_uc003kwp.2_3'UTR|PDLIM4_uc003kwo.2_Silent_p.V418V	NM_003687	NP_003678	P50479	PDLI4_HUMAN	PDZ and LIM domain 4 isoform 1	310	LIM zinc-binding.						protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGGCGCGCGTGAAGCCGCCCG	0.617													8	42					0	0	1	0	0		A	131607859	A	A	131607859	2	1	101	1	0	0	0	0	0	0	0	1	11701	1277	45	4		4	PDLIM4	5	131607859	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	66258214	131607859	49307401	33	61721											
APBB3	10307	broad.mit.edu	37	chr5	139938226	139938226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcaagaaaagagaagaCaccccgctttcgaggggttg	13	6	13	9	2	1	3	1	0	0	3	2	5	1	3	2	3	0	3	2	3	4	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:139938226C>T	uc003lgd.1	-	12	1779	c.1420G>A	c.(1420-1422)GTC>ATC	p.V474I	SRA1_uc003lfz.2_5'Flank|SRA1_uc010jfm.2_5'Flank|SRA1_uc003lga.2_5'Flank|APBB3_uc003lgb.1_Missense_Mutation_p.V246I|APBB3_uc003lgc.1_Missense_Mutation_p.V246I|APBB3_uc003lge.1_Missense_Mutation_p.V467I|APBB3_uc003lgf.1_RNA|APBB3_uc010jfp.1_RNA|APBB3_uc011czi.1_Missense_Mutation_p.V246I	NM_133172	NP_573418	O95704	APBB3_HUMAN	amyloid beta precursor protein-binding, family	469						actin cytoskeleton|cytoplasm				ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAGAGAAGACACCCCGCTTT	0.602													17	100					0	0	1	0	0		T	139938226	T	T	139938226	3	4	101	1	0	0	0	0	1	0	0	0	762	478	17	4	59	4	APBB3	5	139938226	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	8330367	139938226	40977034	34	61722											
PCDHB2	56133	broad.mit.edu	37	chr5	140475721	140475721	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctccgacgtcaatgacaaCgcccccgccttcacccaaac	10	6	6	19	4	3	1	2	1	1	0	4	2	3	1	5	0	2	0	5	0	3	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:140475721C>T	uc003lil.2	+	1	1485	c.1347C>T	c.(1345-1347)AAC>AAT	p.N449N	PCDHB2_uc003lim.1_Silent_p.N110N	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	449	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCAATGACAACGCCCCCGCCT	0.597													9	193					0	0	1	0	0		T	140475721	T	T	140475721	2	4	101	1	0	0	0	0	0	0	0	1	11561	535	19	1		1	PCDHB2	5	140475721	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	537495	140475721	40439539	35	61723											
SOX30	11063	broad.mit.edu	37	chr5	157073806	157073806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgttttcgcttccctggaCgaggctgataaacccaacct	9	11	8	13	3	0	1	0	1	0	0	3	3	1	2	3	2	2	3	3	2	3	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:157073806C>T	uc003lxb.1	-	3	1568	c.1226G>A	c.(1225-1227)CGT>CAT	p.R409H	SOX30_uc003lxc.1_Missense_Mutation_p.R409H|SOX30_uc011dds.1_Missense_Mutation_p.R104H	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	409					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTTCCCTGGACGAGGCTGATA	0.348													6	81					0	0	1	0	0		T	157073806	T	T	157073806	3	4	101	1	0	0	0	0	1	0	0	0	14977	536	19	1	1047	1	SOX30	5	157073806	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	16598085	157073806	23841454	36	61724											
CCDC99	54908	broad.mit.edu	37	chr5	169021405	169021405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgaatttagaaagctcGtgtagcaaatcaagatcttc	13	14	7	7	1	2	3	1	1	1	2	4	3	2	3	0	0	2	3	0	0	6	6			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:169021405G>A	uc003mae.3	+	6	968	c.689G>A	c.(688-690)CGT>CAT	p.R230H	CCDC99_uc010jjj.2_Missense_Mutation_p.R159H|CCDC99_uc011deq.1_Missense_Mutation_p.R47H|CCDC99_uc010jjk.2_Intron	NM_017785	NP_060255	Q96EA4	SPDLY_HUMAN	coiled-coil domain containing 99	230	Potential.				cell division|establishment of mitotic spindle orientation|mitotic metaphase plate congression|mitotic prometaphase|protein localization to kinetochore	condensed chromosome outer kinetochore|cytosol|microtubule organizing center|nucleus|spindle pole	kinetochore binding|protein binding			ovary(1)|liver(1)	2	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TAGAAAGCTCGTGTAGCAAAT	0.358													6	70					0	0	1	0	0		A	169021405	A	A	169021405	3	1	101	1	0	0	0	0	1	0	0	0	2879	1145	40	1	707	1	CCDC99	5	169021405	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	11947599	169021405	11893855	37	61725											
ADAMTS2	9509	broad.mit.edu	37	chr5	178548684	178548684	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgagatcttccggatgggCgagtcggggtccgggcggga	6	6	20	9	6	1	1	0	0	1	1	4	6	3	3	2	6	0	0	2	6	0	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:178548684C>T	uc003mjw.2	-	21	3156	c.3156G>A	c.(3154-3156)TCG>TCA	p.S1052S		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1052					collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		TCCGGATGGGCGAGTCGGGGT	0.627													68	257					0	0	1	0	0		T	178548684	T	T	178548684	2	4	101	1	0	0	0	0	0	0	0	1	265	755	27	1		1	ADAMTS2	5	178548684	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	9527279	178548684	2366576	38	61726											
DSP	1832	broad.mit.edu	37	chr6	7586000	7586000	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgctcgggatctcgctcCggatctcgctccgggtcccg	2	9	12	18	7	2	0	0	0	2	0	9	2	6	2	4	3	0	3	4	3	0	0			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr6:7586000C>G	uc003mxp.1	+	24	8784	c.8505C>G	c.(8503-8505)TCC>TCG	p.S2835S	DSP_uc003mxq.1_Silent_p.S2236S	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2835	6 X 4 AA tandem repeats of G-S-R-[SR].|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		gatctcgctccggatctcgct	0.393													22	54					0	0	1	0	0		G	7586000	G	G	7586000	2	3	101	1	0	0	0	0	0	0	0	1	4787	639	23	5		5	DSP	6	7586000	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08		7586000	163529067	39	61727											
SLC44A4	80736	broad.mit.edu	37	chr6	31839132	31839132	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcaaaatcttcaaagatCttaacactgatgtctcgggc	12	11	9	9	1	4	2	1	1	3	1	5	2	4	2	0	2	1	1	0	2	4	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr6:31839132C>A	uc010jti.2	-	9	726	c.660G>T	c.(658-660)AAG>AAT	p.K220N	SLC44A4_uc011dol.1_Missense_Mutation_p.K144N|SLC44A4_uc011dom.1_Missense_Mutation_p.K178N	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	220	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	CTTCAAAGATCTTAACACTGA	0.522													23	46					7.26314e-15	7.73554e-15	1	1	0		A	31839132	A	A	31839132	3	1	101	1	0	0	0	0	1	0	0	0	14663	912	32	5	1524	5	SLC44A4	6	31839132	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	24253132	31839132	139275935	40	61728											
DST	667	broad.mit.edu	37	chr6	56392430	56392430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccttgcaagctgcagcGcctgttccagagtcttggcc	5	9	12	15	2	1	1	0	0	1	1	2	1	2	1	5	1	4	4	5	1	1	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr6:56392430G>A	uc003pdf.2	-	62	11454	c.11426C>T	c.(11425-11427)GCG>GTG	p.A3809V	DST_uc003pcz.3_Missense_Mutation_p.A3631V|DST_uc011dxj.1_Missense_Mutation_p.A3660V|DST_uc011dxk.1_Missense_Mutation_p.A3671V|DST_uc003pcy.3_Missense_Mutation_p.A3305V	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5717					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			AAGCTGCAGCGCCTGTTCCAG	0.448													7	21					0	0	1	0	0		A	56392430	A	A	56392430	3	1	101	1	0	0	0	0	1	0	0	0	4789	1087	38	1	5745	1	DST	6	56392430	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	24553298	56392430	114722637	41	61729											
BVES	11149	broad.mit.edu	37	chr6	105573419	105573419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtggttcaaacaatcgcCggtacatgccactgagttcc	10	9	11	11	2	1	1	1	1	0	0	3	2	2	2	3	3	3	3	3	3	3	3	rs148128379		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr6:105573419C>T	uc003pqw.2	-	4	543	c.386G>A	c.(385-387)CGG>CAG	p.R129Q	BVES_uc003pqx.2_Missense_Mutation_p.R129Q|BVES_uc003pqy.2_Missense_Mutation_p.R129Q	NM_147147	NP_671488	Q8NE79	POPD1_HUMAN	blood vessel epicardial substance isoform 5	129	Cytoplasmic (Potential).				epithelial cell-cell adhesion|muscle organ development|positive regulation of locomotion|positive regulation of receptor recycling|regulation of Cdc42 GTPase activity|regulation of cell shape|regulation of Rac GTPase activity|substrate adhesion-dependent cell spreading|vesicle-mediated transport	integral to membrane|lateral plasma membrane|tight junction	structural molecule activity				0		all_cancers(87;2.83e-05)|Acute lymphoblastic leukemia(125;1.95e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0101)|Colorectal(196;0.204)|Lung NSC(302;0.238)				AAACAATCGCCGGTACATGCC	0.443													11	75					0	0	1	0	0		T	105573419	T	T	105573419	3	4	101	1	0	0	0	0	1	0	0	0	1578	652	23	1	716	1	BVES	6	105573419	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	49180989	105573419	65541648	42	61730											
DDO	8528	broad.mit.edu	37	chr6	110729555	110729555	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accctgataccaaatgaacaCcagcatctccagcttctgca	13	8	5	15	0	2	2	0	2	2	0	3	2	2	2	4	0	5	3	4	0	3	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr6:110729555C>G	uc003puc.2	-	3	351	c.347G>C	c.(346-348)GGT>GCT	p.G116A	C6orf186_uc003pub.2_5'UTR|DDO_uc003pud.2_Missense_Mutation_p.G116A	NM_003649	NP_003640	Q99489	OXDD_HUMAN	D-aspartate oxidase isoform a	88					aspartate catabolic process	peroxisome	binding|D-amino-acid oxidase activity|D-aspartate oxidase activity			ovary(2)|breast(1)	3		all_cancers(87;3.47e-21)|all_epithelial(87;9.03e-20)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_lung(197;2.98e-05)|Lung NSC(302;3.25e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.00327)		all cancers(137;2.54e-48)|Epithelial(106;3.11e-44)|OV - Ovarian serous cystadenocarcinoma(136;2.08e-24)|BRCA - Breast invasive adenocarcinoma(108;0.000141)|GBM - Glioblastoma multiforme(226;0.00046)		CAAATGAACACCAGCATCTCC	0.378													6	56					0	0	1	0	0		G	110729555	G	G	110729555	3	3	101	1	0	0	0	0	1	0	0	0	4337	507	18	5	774	5	DDO	6	110729555	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	5156136	110729555	60385512	43	61731											
CARD11	84433	broad.mit.edu	37	chr7	2977628	2977628	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcacagtcctttcccagggtCgagcacttgagctccaggtc	7	10	10	14	1	1	1	1	1	0	0	6	2	4	1	3	2	2	2	3	2	0	2	rs145169161		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr7:2977628C>T	uc003smv.2	-	8	1460	c.1056G>A	c.(1054-1056)TCG>TCA	p.S352S		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	352	Potential.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		TTCCCAGGGTCGAGCACTTGA	0.552			Mis		DLBCL								28	156					0	0	1	0	0		T	2977628	T	T	2977628	2	4	101	1	0	0	0	0	0	0	0	1	2648	871	31	1		1	CARD11	7	2977628	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08		2977628	156161035	44	61732											
LEP	3952	broad.mit.edu	37	chr7	127894645	127894645	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggatcttcttcacgtgctGgccttctctaagagctgcca	6	12	10	13	2	4	1	1	0	3	1	5	2	4	2	2	2	3	2	2	2	1	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr7:127894645G>T	uc003vml.2	+	3	390	c.333G>T	c.(331-333)CTG>CTT	p.L111L	LEP_uc003vmm.2_Silent_p.L110L	NM_000230	NP_000221	P41159	LEP_HUMAN	leptin precursor	111					adult feeding behavior|energy reserve metabolic process|negative regulation of appetite|placenta development|positive regulation of developmental growth	extracellular space					0						TTCACGTGCTGGCCTTCTCTA	0.572													14	85					1.05317e-09	1.10372e-09	1	1	0		T	127894645	T	T	127894645	2	4	101	1	0	0	0	0	0	0	0	1	8743	1335	47	5		5	LEP	7	127894645	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	124917017	127894645	31244018	45	61733											
AMAC1L2	83650	broad.mit.edu	37	chr8	11188977	11188977	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattggatgtgcctacagtgCagttcaggtggtgcccgctg	6	11	14	10	1	1	0	1	0	0	0	1	1	1	1	2	3	4	3	2	3	1	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr8:11188977C>A	uc003wtp.1	+	1	483	c.362C>A	c.(361-363)GCA>GAA	p.A121E		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	121	DUF6 1.|Helical; (Potential).					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		GCCTACAGTGCAGTTCAGGTG	0.612													31	167					6.00712e-18	6.45027e-18	1	1	0		A	11188977	A	A	11188977	3	1	101	1	0	0	0	0	1	0	0	0	560	710	25	5	364	5	AMAC1L2	8	11188977	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08		11188977	135175045	46	61734											
DOK2	9046	broad.mit.edu	37	chr8	21767234	21767234	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaggcggcggcagtgagTcatgcggccgagagtagggg	8	5	21	7	4	1	3	1	2	0	1	1	4	1	3	1	6	1	2	1	6	2	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr8:21767234T>A	uc003wzy.1	-	5	920	c.827A>T	c.(826-828)GAC>GTC	p.D276V	DOK2_uc003wzx.1_Missense_Mutation_p.D276V|DOK2_uc003wzz.1_Missense_Mutation_p.D122V|DOK2_uc010lth.1_Missense_Mutation_p.D122V	NM_003974	NP_003965	O60496	DOK2_HUMAN	docking protein 2	276	Pro-rich.				blood coagulation|leukocyte migration	cytosol	identical protein binding|insulin receptor binding				0				Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		CGGCAGTGAGTCATGCGGCCG	0.692													26	45					0	0	1	0	0		A	21767234	A	A	21767234	3	1	101	1	0	0	0	0	1	0	0	0	4703	1667	58	5	415	5	DOK2	8	21767234	Missense_Mutation	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08	10578257	21767234	124596788	47	61735											
TOX	9760	broad.mit.edu	37	chr8	59764183	59764183	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgagttgtggggaacattgCttcctcccatattcaaacca	10	12	9	10	0	1	1	1	1	0	0	3	2	3	2	3	2	3	2	3	2	3	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr8:59764183C>A	uc003xtw.1	-	4	814	c.593G>T	c.(592-594)AGC>ATC	p.S198I		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	198						nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				GGGAACATTGCTTCCTCCCAT	0.498													23	33					1.50039e-11	1.58509e-11	1	1	0		A	59764183	A	A	59764183	3	1	101	1	0	0	0	0	1	0	0	0	16403	797	28	5	1011	5	TOX	8	59764183	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	37996949	59764183	86599839	48	61736											
SULF1	23213	broad.mit.edu	37	chr8	70515533	70515533	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtctgtcctcaaacttctgGacccagaaaagccaggtaac	13	8	8	12	0	3	1	1	0	2	1	4	2	4	2	3	2	3	1	3	2	4	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr8:70515533G>T	uc010lza.1	+	11	1885	c.1168G>T	c.(1168-1170)GAC>TAC	p.D390Y	SULF1_uc003xyd.2_Missense_Mutation_p.D390Y|SULF1_uc003xye.2_Missense_Mutation_p.D390Y|SULF1_uc003xyf.2_Missense_Mutation_p.D390Y|SULF1_uc003xyg.2_Missense_Mutation_p.D390Y|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	390					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			CAAACTTCTGGACCCAGAAAA	0.552													9	96					0.00448238	0.00451686	1	1	0		T	70515533	T	T	70515533	3	4	101	1	0	0	0	0	1	0	0	0	15395	1174	41	5	1194	5	SULF1	8	70515533	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	10751350	70515533	75848489	49	61737											
DECR1	1666	broad.mit.edu	37	chr8	91063919	91063919	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaggtcattaaatttgaCggtggagaggaagtacttat	12	13	11	5	1	1	2	1	1	0	1	2	4	2	3	1	4	1	1	1	4	5	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr8:91063919C>T	uc003yek.1	+	9	1041	c.900C>T	c.(898-900)GAC>GAT	p.D300D	DECR1_uc011lgc.1_Silent_p.D291D|DECR1_uc011lgd.1_RNA	NM_001359	NP_001350	Q16698	DECR_HUMAN	2,4-dienoyl CoA reductase 1 precursor	300					fatty acid beta-oxidation|protein homotetramerization	mitochondrial matrix|nucleus|plasma membrane	2,4-dienoyl-CoA reductase (NADPH) activity|NADPH binding|oxidoreductase activity, acting on NADH or NADPH				0			BRCA - Breast invasive adenocarcinoma(11;0.00953)			TTAAATTTGACGGTGGAGAGG	0.343													10	16					0	0	1	0	0		T	91063919	T	T	91063919	2	4	101	1	0	0	0	0	0	0	0	1	4385	535	19	1		1	DECR1	8	91063919	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	20548386	91063919	55300103	50	61738											
PRUNE2	158471	broad.mit.edu	37	chr9	79441533	79441533	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtctcctgtaggacgttgatGatgtcctctcttggaggcaa	7	13	12	9	1	2	2	0	2	2	0	5	4	3	4	2	3	0	3	2	3	2	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr9:79441533G>A	uc010mpk.2	-	5	748	c.624C>T	c.(622-624)ATC>ATT	p.I208I	PRUNE2_uc004akn.2_Silent_p.I208I	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	208					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						GGACGTTGATGATGTCCTCTC	0.498													27	92					0	0	1	0	0		A	79441533	A	A	79441533	2	1	101	1	0	0	0	0	0	0	0	1	12663	1280	45	4		4	PRUNE2	9	79441533	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08		79441533	61771898	51	61739											
PRPF4	9128	broad.mit.edu	37	chr9	116041256	116041256	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaattgaagagcatatcagCgagcgacaggcagaagtatt	16	7	12	6	2	1	3	1	1	0	2	1	6	1	3	0	1	3	3	0	1	5	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr9:116041256C>T	uc004bgx.2	+	3	290	c.240C>T	c.(238-240)AGC>AGT	p.S80S	PRPF4_uc004bgy.2_Silent_p.S79S	NM_004697	NP_004688	O43172	PRP4_HUMAN	PRP4 pre-mRNA processing factor 4 homolog	80				HISERQAEVLAEFERRKRARQINVST -> ISASDRQKYWL SLREGSEPGRSMFPP (in Ref. 3; AAC02261).		Cajal body|nuclear speck|spliceosomal complex|U4/U6 snRNP	protein binding			ovary(2)|pancreas(1)	3						AGCATATCAGCGAGCGACAGG	0.413													12	63					0	0	1	0	0		T	116041256	T	T	116041256	2	4	101	1	0	0	0	0	0	0	0	1	12592	767	27	1		1	PRPF4	9	116041256	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	36599723	116041256	25172175	52	61740											
CRAT	1384	broad.mit.edu	37	chr9	131857760	131857760	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taatgcgccaggcgggcggcGttggtctccgcgcagctgtt	4	9	16	12	6	1	0	0	0	1	0	2	0	1	0	2	4	2	4	2	4	1	3	rs2296770		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr9:131857760G>A	uc004bxh.2	-	14	2079	c.1797C>T	c.(1795-1797)AAC>AAT	p.N599N	CRAT_uc004bxg.2_Silent_p.N578N|CRAT_uc004bxk.3_Silent_p.N578N	NM_000755	NP_000746	P43155	CACP_HUMAN	carnitine acetyltransferase precursor	599					energy derivation by oxidation of organic compounds|fatty acid beta-oxidation using acyl-CoA oxidase|transport	endoplasmic reticulum|mitochondrial inner membrane|peroxisomal matrix	carnitine O-acetyltransferase activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)	L-Carnitine(DB00583)	GGCGGGCGGCGTTGGTCTCCG	0.667													3	39					0	0	1	0	0		A	131857760	A	A	131857760	2	1	101	1	0	0	0	0	0	0	0	1	3850	1136	40	1		1	CRAT	9	131857760	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	15816504	131857760	9355671	53	61741											
NELF	26012	broad.mit.edu	37	chr9	140343924	140343924	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaaccggaagtcaaagtaCgtctcgatcatctgcttccc	11	10	7	13	3	4	0	2	0	2	0	6	2	5	1	2	1	4	2	2	1	5	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr9:140343924C>T	uc004cna.2	-	16	1747	c.1515G>A	c.(1513-1515)ACG>ACA	p.T505T	C9orf167_uc011mew.1_Intron|NELF_uc011mex.1_Silent_p.T302T|NELF_uc010nci.2_Silent_p.T249T|NELF_uc011mey.1_RNA|NELF_uc011mez.1_Silent_p.T482T|NELF_uc004cmz.2_Silent_p.T503T|NELF_uc004cnc.2_Silent_p.T480T|NELF_uc004cnb.2_Silent_p.T475T	NM_001130969	NP_001124441	Q6X4W1	NELF_HUMAN	nasal embryonic LHRH factor isoform a	505						nucleus|plasma membrane					0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000222)|Epithelial(140;0.000888)		AGTCAAAGTACGTCTCGATCA	0.667													6	48					0	0	1	0	0		T	140343924	T	T	140343924	2	4	101	1	0	0	0	0	0	0	0	1	10351	523	19	1		1	NELF	9	140343924	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	8486164	140343924	869507	54	61742											
RBP3	5949	broad.mit.edu	37	chr10	48388253	48388253	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatgcccacagagagtgcGcctccggccgtgggctcccc	6	6	13	16	3	0	2	0	0	0	2	2	3	2	2	6	2	2	1	6	2	1	1	rs142862418		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr10:48388253G>A	uc001jez.2	-	1	2739	c.2625C>T	c.(2623-2625)GGC>GGT	p.G875G		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	875	4 X approximate tandem repeats.|3.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	CAGAGAGTGCGCCTCCGGCCG	0.652													16	26					0	0	1	0	0		A	48388253	A	A	48388253	2	1	101	1	0	0	0	0	0	0	0	1	13182	1074	38	1		1	RBP3	10	48388253	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08		48388253	87146494	55	61743											
CTNNA3	29119	broad.mit.edu	37	chr10	68940162	68940162	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctctcggtgtaagtccctCgtacatgaagaatccgccag	9	9	10	13	4	1	2	0	1	1	1	5	2	3	2	3	1	1	3	3	1	4	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr10:68940162C>T	uc009xpn.1	-	7	1083	c.960G>A	c.(958-960)ACG>ACA	p.T320T	CTNNA3_uc001jmw.2_Silent_p.T320T|CTNNA3_uc001jmx.3_Silent_p.T320T|CTNNA3_uc009xpo.1_Silent_p.T180T|CTNNA3_uc001jna.2_Silent_p.T332T	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	320					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						GTAAGTCCCTCGTACATGAAG	0.502													11	64					0	0	1	0	0		T	68940162	T	T	68940162	2	4	101	1	0	0	0	0	0	0	0	1	4017	871	31	1		1	CTNNA3	10	68940162	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	20551909	68940162	66594585	56	61744											
MUC5B	727897	broad.mit.edu	37	chr11	1271245	1271245	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacaagggccaccagttccAcgtccaccccctcctccact	8	6	6	21	2	0	0	0	0	0	0	4	1	4	0	8	1	0	1	8	1	1	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:1271245A>C	uc009ycr.1	+	51	14680	c.14554A>C	c.(14554-14556)ACG>CCG	p.T4852P	MUC5B_uc001ltb.2_Missense_Mutation_p.T4382P	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4379	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CACCAGTTCCACGTCCACCCC	0.657													23	107					0	0	1	0	0		C	1271245	C	C	1271245	3	2	101	1	0	0	0	0	1	0	0	0	9997	159	6	5	13266	5	MUC5B	11	1271245	Missense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08		1271245	133735271	57	61745											
OR52K1	390036	broad.mit.edu	37	chr11	4511022	4511022	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatcatatatggagtcaagAccaagcagattcgtgagtat	14	11	9	7	1	2	3	2	1	0	2	3	4	2	4	1	1	1	2	1	1	6	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:4511022A>T	uc001lza.1	+	1	892	c.892A>T	c.(892-894)ACC>TCC	p.T298S		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	298	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		TGGAGTCAAGACCAAGCAGAT	0.448													27	126					0	0	1	0	0		T	4511022	T	T	4511022	3	4	101	1	0	0	0	0	1	0	0	0	11142	275	10	5	894	5	OR52K1	11	4511022	Missense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08	3239777	4511022	130495494	58	61746											
OR56B1	387748	broad.mit.edu	37	chr11	5758490	5758490	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcagccaaggccctgagCacttgtagttcacatctcac	9	9	9	14	0	2	1	2	1	1	0	3	1	2	1	2	1	3	5	2	1	2	3	rs144847345		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:5758490C>A	uc001mbt.1	+	1	744	c.744C>A	c.(742-744)AGC>AGA	p.S248R	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005180	NP_001005180	Q8NGI3	O56B1_HUMAN	olfactory receptor, family 56, subfamily B,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.086)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.184)		AGGCCCTGAGCACTTGTAGTT	0.408													19	146					7.21436e-19	7.81059e-19	1	1	0		A	5758490	A	A	5758490	3	1	101	1	0	0	0	0	1	0	0	0	11156	709	25	5	746	5	OR56B1	11	5758490	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	1247468	5758490	129248026	59	61747											
MRGPRX2	117194	broad.mit.edu	37	chr11	19077528	19077528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctgacaggtgtctggggCggcggcagcgataccagatg	7	6	17	11	4	1	2	0	1	1	1	1	3	1	2	2	5	2	2	2	5	1	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:19077528C>T	uc001mph.2	-	2	510	c.422G>A	c.(421-423)CGC>CAC	p.R141H		NM_054030	NP_473371	Q96LB1	MRGX2_HUMAN	MAS-related GPR, member X2	141	Cytoplasmic (Potential).				sensory perception of pain|sleep	plasma membrane	G-protein coupled receptor activity|neuropeptide binding			ovary(1)	1						GTGTCTGGGGCGGCGGCAGCG	0.602													9	60					0	0	1	0	0		T	19077528	T	T	19077528	3	4	101	1	0	0	0	0	1	0	0	0	9785	768	27	1	574	1	MRGPRX2	11	19077528	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	13319038	19077528	115928988	60	61748											
RAG1	5896	broad.mit.edu	37	chr11	36597806	36597806	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgccaggcagtccaaatgCtatgagatggaagatgtcct	13	9	11	8	0	0	2	0	1	0	2	2	4	2	3	3	2	2	2	3	2	4	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:36597806C>G	uc001mwu.3	+	2	3076	c.2952C>G	c.(2950-2952)TGC>TGG	p.C984W	RAG1_uc001mwt.2_Intron	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	984					histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				AGTCCAAATGCTATGAGATGG	0.453									Familial_Hemophagocytic_Lymphohistiocytosis				9	103					0	0	1	0	0		G	36597806	G	G	36597806	3	3	101	1	0	0	0	0	1	0	0	0	13028	805	28	5	2954	5	RAG1	11	36597806	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	17520278	36597806	98408710	61	61749											
OR5B2	390190	broad.mit.edu	37	chr11	58189993	58189993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattactgtcccatagaagaCggagactgcagtgaagtgag	13	8	13	7	1	0	5	0	2	0	3	1	7	1	5	1	1	2	1	1	1	4	2	rs140238243		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:58189993C>T	uc010rkg.1	-	1	742	c.742G>A	c.(742-744)GTC>ATC	p.V248I		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.V248I(1)		ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CCATAGAAGACGGAGACTGCA	0.468													6	38					0	0	1	0	0		T	58189993	T	T	58189993	3	4	101	1	0	0	0	0	1	0	0	0	11169	536	19	1	191	1	OR5B2	11	58189993	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	21592187	58189993	76816523	62	61750											
LPXN	9404	broad.mit.edu	37	chr11	58318648	58318648	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcattgagtccagggaggCcttgtgatcctgcttgtctg	7	12	13	9	0	1	2	0	2	1	0	3	3	3	3	3	2	2	2	3	2	1	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:58318648C>A	uc001nmw.2	-	5	521	c.376G>T	c.(376-378)GCC>TCC	p.A126S	LPXN_uc009ymp.2_5'UTR|LPXN_uc010rkj.1_Missense_Mutation_p.A131S|LPXN_uc010rkk.1_Missense_Mutation_p.A106S|LPXN_uc010rkl.1_RNA	NM_004811	NP_004802	O60711	LPXN_HUMAN	leupaxin isoform 2	126					cell adhesion|protein complex assembly|signal transduction	cytoplasm	zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				TCCAGGGAGGCCTTGTGATCC	0.537													9	27					2.17888e-05	2.22994e-05	1	1	0		A	58318648	A	A	58318648	3	1	101	1	0	0	0	0	1	0	0	0	8947	739	26	5	804	5	LPXN	11	58318648	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	128655	58318648	76687868	63	61751											
RASGRP2	10235	broad.mit.edu	37	chr11	64503430	64503430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtacagctcatcctccGtctgatactgatccagagac	9	10	9	13	1	2	3	1	2	1	1	5	4	5	3	3	1	3	3	3	1	2	2	rs139499587		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:64503430G>A	uc009ypu.2	-	10	1345	c.1118C>T	c.(1117-1119)ACG>ATG	p.T373M	RASGRP2_uc001oat.2_Missense_Mutation_p.T275M|RASGRP2_uc001oau.2_Missense_Mutation_p.T228M|RASGRP2_uc009ypv.2_Missense_Mutation_p.T373M|RASGRP2_uc009ypw.2_Missense_Mutation_p.T373M	NM_001098671	NP_001092141	Q7LDG7	GRP2_HUMAN	RAS guanyl releasing protein 2	373	Ras-GEF.				platelet activation|Ras protein signal transduction|regulation of cell growth|regulation of small GTPase mediated signal transduction	cell junction|cytosol|ruffle membrane|synapse|synaptosome	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity				0						CTCATCCTCCGTCTGATACTG	0.627													4	39					0	0	1	0	0		A	64503430	A	A	64503430	3	1	101	1	0	0	0	0	1	0	0	0	13100	1145	40	1	739	1	RASGRP2	11	64503430	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	6184782	64503430	70503086	64	61752											
GRIA4	2893	broad.mit.edu	37	chr11	105795326	105795326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctacattggtgtcagcGtggtcttattcctagttagt	6	17	10	8	1	2	0	1	0	1	0	3	0	3	0	2	2	3	1	2	2	4	7			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:105795326G>A	uc001pix.2	+	12	2124	c.1678G>A	c.(1678-1680)GTG>ATG	p.V560M	GRIA4_uc001piw.2_Missense_Mutation_p.V560M	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	560	Helical; (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	TGGTGTCAGCGTGGTCTTATT	0.473													13	45					0	0	1	0	0		A	105795326	A	A	105795326	3	1	101	1	0	0	0	0	1	0	0	0	6786	1145	40	1	1757	1	GRIA4	11	105795326	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	41291896	105795326	29211190	65	61753											
SRPR	6734	broad.mit.edu	37	chr11	126137202	126137202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcttcatggtagtgggagCacggatcttactgctctcct	6	15	10	10	1	4	0	1	0	3	0	5	2	4	2	1	3	3	3	1	3	2	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:126137202C>T	uc001qdh.2	-	4	445	c.394G>A	c.(394-396)GCT>ACT	p.A132T	SRPR_uc010sbm.1_Missense_Mutation_p.A104T|FOXRED1_uc001qdi.2_5'Flank|FOXRED1_uc010sbn.1_5'Flank|FOXRED1_uc010sbo.1_5'Flank|FOXRED1_uc010sbp.1_5'Flank|FOXRED1_uc010sbq.1_5'Flank|FOXRED1_uc001qdj.2_5'Flank|FOXRED1_uc010sbr.1_5'Flank	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	132					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		GTAGTGGGAGCACGGATCTTA	0.438													7	98					0	0	1	0	0		T	126137202	T	T	126137202	3	4	101	1	0	0	0	0	1	0	0	0	15187	710	25	2	1566	2	SRPR	11	126137202	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	20341876	126137202	8869314	66	61754											
CCND2	894	broad.mit.edu	37	chr12	4388038	4388038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagcagcgggagaagctgtCtctgatccgcaagcatgctc	9	7	12	13	2	1	2	0	1	1	1	4	3	2	2	2	1	5	5	2	1	2	0	rs143681287		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr12:4388038C>T	uc001qmo.2	+	3	829	c.524C>T	c.(523-525)TCT>TTT	p.S175F		NM_001759	NP_001750	P30279	CCND2_HUMAN	cyclin D2	175					cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding			haematopoietic_and_lymphoid_tissue(1)|breast(1)|kidney(1)	3			all cancers(3;4.15e-10)|GBM - Glioblastoma multiforme(3;6.34e-05)|Colorectal(7;0.00245)|OV - Ovarian serous cystadenocarcinoma(31;0.00301)|COAD - Colon adenocarcinoma(12;0.0264)|STAD - Stomach adenocarcinoma(119;0.206)			GAGAAGCTGTCTCTGATCCGC	0.572			T	IGL@	NHL,CLL								4	30					0	0	1	0	0		T	4388038	T	T	4388038	3	4	101	1	0	0	0	0	1	0	0	0	2920	913	32	4	534	4	CCND2	12	4388038	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08		4388038	129463857	67	61755											
KRT72	140807	broad.mit.edu	37	chr12	52981611	52981611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccgctgttcagcgtcggCgatggccgtctccagatcgg	4	8	13	16	6	2	1	1	0	1	1	5	2	2	1	4	3	1	2	4	3	0	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr12:52981611C>T	uc001sar.2	-	7	1200	c.1114G>A	c.(1114-1116)GCC>ACC	p.A372T	KRT72_uc001saq.2_Missense_Mutation_p.A372T|KRT72_uc010sns.1_Missense_Mutation_p.A330T|KRT72_uc010snt.1_Missense_Mutation_p.A184T	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	372	Coil 2.|Rod.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		TCAGCGTCGGCGATGGCCGTC	0.622													3	30					0	0	1	0	0		T	52981611	T	T	52981611	3	4	101	1	0	0	0	0	1	0	0	0	8501	768	27	1	433	1	KRT72	12	52981611	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	48593573	52981611	80870284	68	61756											
OR6C2	341416	broad.mit.edu	37	chr12	55846401	55846401	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcattatgtggtcatcatgaAcaacagggtgtgtaccttat	11	14	9	7	0	3	1	3	1	0	0	3	1	3	1	1	2	3	1	1	2	5	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr12:55846401A>G	uc001sgz.1	+	1	404	c.404A>G	c.(403-405)AAC>AGC	p.N135S		NM_054105	NP_473446	Q9NZP2	OR6C2_HUMAN	olfactory receptor, family 6, subfamily C,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GTCATCATGAACAACAGGGTG	0.458													11	103					0	0	1	0	0		G	55846401	G	G	55846401	3	3	101	1	0	0	0	0	1	0	0	0	11210	43	2	3	406	3	OR6C2	12	55846401	Missense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08	2864790	55846401	78005494	69	61757											
E2F7	144455	broad.mit.edu	37	chr12	77449854	77449854	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttcgataaatcaattggTtcattttttattggagtctt	9	20	7	5	1	3	0	2	0	1	0	4	2	3	1	0	2	1	2	0	2	4	9			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr12:77449854T>C	uc001sym.3	-	3	386	c.150A>G	c.(148-150)GAA>GAG	p.E50E	E2F7_uc001syn.2_Silent_p.E50E	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	50					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						AATCAATTGGTTCATTTTTTA	0.363													17	61					0	0	1	0	0		C	77449854	C	C	77449854	2	2	101	1	0	0	0	0	0	0	0	1	4878	1722	60	3		3	E2F7	12	77449854	Silent	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08	21603453	77449854	56402041	70	61758											
PLBD2	196463	broad.mit.edu	37	chr12	113821937	113821937	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaccaccattggcaacAagaacccagccctgtggaag	13	5	11	12	0	0	2	0	0	0	2	0	4	0	3	4	3	3	1	4	3	4	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr12:113821937A>T	uc001tve.2	+	7	1020	c.985A>T	c.(985-987)AAG>TAG	p.K329*	PLBD2_uc001tvf.2_Nonsense_Mutation_p.K329*	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	329					lipid catabolic process	lysosomal lumen	hydrolase activity				0						CATTGGCAACAAGAACCCAGC	0.612													10	30					0	0	1	0	0		T	113821937	T	T	113821937	4	4	101	1	0	0	0	0	0	1	0	0	12045	131	5	5	1011	5	PLBD2	12	113821937	Nonsense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08	36372083	113821937	20029958	71	61759											
STARD13	90627	broad.mit.edu	37	chr13	33741704	33741704	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaccctcatataactgagcGtattgcgggaacccggcagc	10	8	11	12	3	1	1	1	1	0	0	1	2	1	2	2	2	6	3	2	2	5	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr13:33741704G>A	uc001uuw.2	-	2	351	c.225C>T	c.(223-225)TAC>TAT	p.Y75Y	STARD13_uc001uuu.2_Silent_p.Y67Y|STARD13_uc001uuv.2_Translation_Start_Site|STARD13_uc001uux.2_Silent_p.Y40Y|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Silent_p.Y60Y	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	75	SAM.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		ATAACTGAGCGTATTGCGGGA	0.473													5	77					0	0	1	0	0		A	33741704	A	A	33741704	2	1	101	1	0	0	0	0	0	0	0	1	15281	1140	40	1		1	STARD13	13	33741704	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08		33741704	81428174	72	61760											
SLITRK6	84189	broad.mit.edu	37	chr13	86368299	86368299	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcctccatatcaggctggAgctgagcaatgtttttcctt	7	14	10	10	0	1	1	1	1	0	0	3	2	3	2	3	2	3	4	3	2	2	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr13:86368299A>G	uc001vll.1	-	2	2804	c.2345T>C	c.(2344-2346)CTC>CCC	p.L782P	SLITRK6_uc010afe.1_Missense_Mutation_p.L235P	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	782	Cytoplasmic (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		ATCAGGCTGGAGCTGAGCAAT	0.423													9	152					0	0	1	0	0		G	86368299	G	G	86368299	3	3	101	1	0	0	0	0	1	0	0	0	14772	304	11	3	184	3	SLITRK6	13	86368299	Missense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08	52626595	86368299	28801579	73	61761											
RTN1	6252	broad.mit.edu	37	chr14	60063484	60063484	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcagcatgcctcttagcGcctgggattttagcctgaat	8	13	9	11	1	2	1	1	1	1	0	2	2	2	2	3	1	5	1	3	1	4	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr14:60063484G>A	uc001xen.1	-	9	2519	c.2310C>T	c.(2308-2310)GGC>GGT	p.G770G	RTN1_uc001xem.1_Silent_p.G350G|RTN1_uc001xek.1_Silent_p.G202G|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Silent_p.G187G	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	770	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		GCCTCTTAGCGCCTGGGATTT	0.393													8	107					0	0	1	0	0		A	60063484	A	A	60063484	2	1	101	1	0	0	0	0	0	0	0	1	13750	1074	38	1		1	RTN1	14	60063484	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08		60063484	47286056	74	61762											
TTLL5	23093	broad.mit.edu	37	chr14	76149995	76149995	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cacaaaaagttaatcactttCccaggtaatgctctttgtag	13	13	6	9	0	2	0	1	0	1	0	3	0	3	0	1	1	1	4	1	1	5	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr14:76149995C>G	uc001xrx.2	+	5	572	c.367C>G	c.(367-369)CCC>GCC	p.P123A	TTLL5_uc001xrw.1_Missense_Mutation_p.P123A|TTLL5_uc010ask.1_Missense_Mutation_p.P123A|TTLL5_uc001xrv.2_Missense_Mutation_p.P123A	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	123	TTL.				protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		TAATCACTTTCCCAGGTAATG	0.423													38	36					0	0	1	0	0		G	76149995	G	G	76149995	3	3	101	1	0	0	0	0	1	0	0	0	16756	855	30	5	381	5	TTLL5	14	76149995	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	16086511	76149995	31199545	75	61763											
CATSPERB	79820	broad.mit.edu	37	chr14	92195816	92195816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaaacatatataagtggcGattccatctgttggaataaa	15	12	8	6	1	1	1	0	1	1	0	2	3	2	2	1	2	1	1	1	2	7	6	rs142347440	byFrequency	TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr14:92195816G>A	uc001xzs.1	-	2	148	c.8C>T	c.(7-9)TCG>TTG	p.S3L		NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	3					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				TATAAGTGGCGATTCCATCTG	0.264													3	23					0	0	1	0	0		A	92195816	A	A	92195816	3	1	101	1	0	0	0	0	1	0	0	0	2694	1059	37	1	3446	1	CATSPERB	14	92195816	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	16045821	92195816	15153724	76	61764											
CCPG1	9236	broad.mit.edu	37	chr15	55742448	55742448	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgctacttgtgattcaCgaagagctgttgggaatact	9	14	10	8	1	2	2	1	1	1	1	2	4	2	3	0	1	4	3	0	1	4	6			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr15:55742448C>T	uc002acy.2	-	5	1010	c.-407G>A	c.(-409--405)TCGTG>TCATG		DYX1C1_uc010ugh.1_RNA|DYX1C1_uc010ugi.1_RNA|DYX1C1_uc002adb.2_Missense_Mutation_p.R252H|DYX1C1_uc002adc.2_Missense_Mutation_p.R252H|DYX1C1_uc002add.2_Missense_Mutation_p.R252H	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2						cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		TTGTGATTCACGAAGAGCTGT	0.343													14	45					0	0	1	0	0		T	55742448	T	T	55742448	1	4	101	1	0	0	0	0	0	0	0	0	2941	536	19	1		1	CCPG1	15	55742448	Translation_Start_Site	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08		55742448	46788944	77	61765											
SGK269	79834	broad.mit.edu	37	chr15	77472426	77472426	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggaactccgagcataagTtggctcgtcatgaatgataa	12	12	10	7	2	1	2	1	2	0	0	3	4	2	3	1	2	2	3	1	2	4	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr15:77472426T>C	uc002bcm.2	-	3	2151	c.1843A>G	c.(1843-1845)ACT>GCT	p.T615A	SGK269_uc002bcn.2_Missense_Mutation_p.T615A	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	615					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		CGAGCATAAGTTGGCTCGTCA	0.348													39	84					0	0	1	0	0		C	77472426	C	C	77472426	3	2	101	1	0	0	0	0	1	0	0	0	14236	1725	60	3	3413	3	SGK269	15	77472426	Missense_Mutation	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08	21729978	77472426	25058966	78	61766											
AXIN1	8312	broad.mit.edu	37	chr16	354351	354351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttctcctcggcctcccGcgtgcgctgcacagcctcca	4	8	9	20	4	1	0	0	0	1	0	5	0	3	0	5	1	4	3	5	1	0	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr16:354351G>A	uc002cgp.1	-	5	1384	c.1207C>T	c.(1207-1209)CGG>TGG	p.R403W	AXIN1_uc002cgq.1_Missense_Mutation_p.R403W	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	403	Interaction with GSK3B (By similarity).				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				TCGGCCTCCCGCGTGCGCTGC	0.687													4	58					0	0	1	0	0		A	354351	A	A	354351	3	1	101	1	0	0	0	0	1	0	0	0	1237	1086	38	1	1409	1	AXIN1	16	354351	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08		354351	90000402	79	61767											
TELO2	9894	broad.mit.edu	37	chr16	1552705	1552705	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagacctgtgtggtgggAtttgcagggctgcgccagag	8	8	18	7	1	0	3	0	0	0	3	0	5	0	4	2	3	2	2	2	3	1	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr16:1552705A>T	uc002cly.2	+	14	2004	c.1713A>T	c.(1711-1713)GGA>GGT	p.G571G		NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	571						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				GTGTGGTGGGATTTGCAGGGC	0.672													35	161					0	0	1	0	0		T	1552705	T	T	1552705	2	4	101	1	0	0	0	0	0	0	0	1	15782	320	12	5		5	TELO2	16	1552705	Silent	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08	1198354	1552705	88802048	80	61768											
CIITA	4261	broad.mit.edu	37	chr16	11001727	11001727	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtgcttgcgaggtaccTgaagcggctgcagccgggga	8	6	18	9	3	0	1	0	1	0	0	0	4	0	2	2	5	6	4	2	5	3	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr16:11001727T>A	uc002dai.3	+	11	2511	c.2378T>A	c.(2377-2379)CTG>CAG	p.L793Q	CIITA_uc002daj.3_Missense_Mutation_p.L794Q|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Missense_Mutation_p.L793Q|CIITA_uc002dah.2_Missense_Mutation_p.L745Q|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	793					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						GCGAGGTACCTGAAGCGGCTG	0.692			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								13	71					0	0	1	0	0		A	11001727	A	A	11001727	3	1	101	1	0	0	0	0	1	0	0	0	3431	1580	55	5	2420	5	CIITA	16	11001727	Missense_Mutation	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08	9449022	11001727	79353026	81	61769											
GPT2	84706	broad.mit.edu	37	chr16	46960947	46960947	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agggaaggcacttaccacttCaggtatgacttcctctccgc	9	10	9	13	1	2	1	1	1	1	0	4	2	3	2	3	3	1	2	3	3	3	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr16:46960947C>T	uc002eel.2	+	11	1573	c.1479C>T	c.(1477-1479)TTC>TTT	p.F493F	GPT2_uc002eem.2_Silent_p.F393F|GPT2_uc002een.2_Silent_p.F136F	NM_133443	NP_597700	Q8TD30	ALAT2_HUMAN	glutamic pyruvate transaminase 2 isoform 1	493					2-oxoglutarate metabolic process|cellular amino acid biosynthetic process|L-alanine metabolic process	mitochondrial matrix	L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2		all_cancers(37;0.0276)|all_epithelial(9;0.0498)|all_lung(18;0.0522)			L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CTTACCACTTCAGGTATGACT	0.552													14	61					0	0	1	0	0		T	46960947	T	T	46960947	2	4	101	1	0	0	0	0	0	0	0	1	6754	825	29	4		4	GPT2	16	46960947	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	35959220	46960947	43393806	82	61770											
PLCG2	5336	broad.mit.edu	37	chr16	81944245	81944245	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcatccagcactaccgCgagacgcacctgcgctgcgc	7	5	10	19	5	1	1	1	0	0	1	2	2	2	1	4	0	4	3	4	0	1	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr16:81944245C>T	uc002fgt.2	+	18	2006	c.1854C>T	c.(1852-1854)CGC>CGT	p.R618R	PLCG2_uc010chg.1_Silent_p.R618R	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	618	SH2 1.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						AGCACTACCGCGAGACGCACC	0.627													17	262					0	0	1	0	0		T	81944245	T	T	81944245	2	4	101	1	0	0	0	0	0	0	0	1	12055	755	27	1		1	PLCG2	16	81944245	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	34983298	81944245	8410508	83	61771											
TP53	7157	broad.mit.edu	37	chr17	7578266	7578267	+	Frame_Shift_Ins	INS	-	A	A																															aaatttccttccactcggatINSaagatgctgaggaggggcca																										TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:7578266_7578267insA	uc002gim.2	-	6	776_777	c.582_583insT	c.(580-585)CTTATCfs	p.L194fs	TP53_uc002gig.1_Frame_Shift_Ins_p.L194fs|TP53_uc002gih.2_Frame_Shift_Ins_p.L194fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Ins_p.L62fs|TP53_uc010cng.1_Frame_Shift_Ins_p.L62fs|TP53_uc002gii.1_Frame_Shift_Ins_p.L62fs|TP53_uc010cnh.1_Frame_Shift_Ins_p.L194fs|TP53_uc010cni.1_Frame_Shift_Ins_p.L194fs|TP53_uc002gij.2_Frame_Shift_Ins_p.L194fs|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Frame_Shift_Ins_p.L101fs|TP53_uc002gio.2_Frame_Shift_Ins_p.L62fs|TP53_uc010vug.1_Frame_Shift_Ins_p.L155fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	194_195	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		I -> F (in sporadic cancers; somatic mutation).|I -> L (in a sporadic cancer; somatic mutation).|I -> S (in sporadic cancers; somatic mutation).|I -> T (in sporadic cancers; somatic mutation).|I -> V (in a sporadic cancer; somatic mutation).|I -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|I -> N (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.L194R(31)|p.L194F(16)|p.I195F(16)|p.L194P(8)|p.0?(7)|p.L194H(5)|p.L194L(4)|p.A189_V197delAPPQHLIRV(4)|p.L194fs*15(2)|p.K164_P219del(1)|p.L194V(1)|p.P191fs*6(1)|p.H193_I195delHLI(1)|p.I195fs*12(1)|p.I195L(1)|p.I195fs*50(1)|p.L194fs*14(1)|p.L194fs*52(1)|p.?(1)|p.I195fs*14(1)|p.I195_G199delIRVEG(1)|p.L194I(1)|p.I195fs*52(1)|p.H193_I195>AP(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TCCACTCGGATAAGATGCTGAG	0.554		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			30	34	---	---	---	---						.	A	7578267	A	A	7578266	7	5	101	1	0	1	1	0	0	0	0	0	16407	1406	49	0	711	0	TP53	17	7578266	Frame_Shift_Ins	INS	-	TCGA-BR-A4J8-01A-11D-A25D-08		7578266	73616944	84	61772											
TOM1L2	146691	broad.mit.edu	37	chr17	17787971	17787971	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggtgtgtgtatgggagAcagagcgtccaagtctgcca	8	10	15	8	1	1	2	0	0	1	2	2	3	2	2	2	2	2	1	2	2	2	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:17787971A>C	uc002grz.3	-	5	635	c.478T>G	c.(478-480)TCT>GCT	p.S160A	TOM1L2_uc002gry.3_Missense_Mutation_p.S110A|TOM1L2_uc010vwy.1_Missense_Mutation_p.S160A|TOM1L2_uc010cpr.2_Intron|TOM1L2_uc010vwz.1_Intron|TOM1L2_uc010vxa.1_Intron|TOM1L2_uc010vxb.1_Missense_Mutation_p.S110A	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	160					intracellular protein transport	intracellular					0	all_neural(463;0.228)					TGTATGGGAGACAGAGCGTCC	0.542													8	97					0	0	1	0	0		C	17787971	C	C	17787971	3	2	101	1	0	0	0	0	1	0	0	0	16378	275	10	5	1089	5	TOM1L2	17	17787971	Missense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08	10209705	17787971	63407239	85	61773											
MYO15A	51168	broad.mit.edu	37	chr17	18023036	18023036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggggtacacctacggctacGgctacgacgattacgaaccc	10	6	11	14	6	0	0	0	0	0	0	0	3	0	0	2	4	6	3	2	4	6	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:18023036G>A	uc010vxh.1	+	2	1260	c.922G>A	c.(922-924)GGC>AGC	p.G308S		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	308	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity	p.G308D(1)		skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CTACGGCTACGGCTACGACGA	0.617													10	73					0	0	1	0	0		A	18023036	A	A	18023036	3	1	101	1	0	0	0	0	1	0	0	0	10081	1116	39	1	924	1	MYO15A	17	18023036	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	235065	18023036	63172174	86	61774											
KCNJ12	3768	broad.mit.edu	37	chr17	21318662	21318662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaacccccgggatgaccgCggccagccgggccaacccct	7	2	11	21	4	0	1	0	1	0	0	0	2	0	2	9	3	3	0	9	3	2	0	rs143653481	byFrequency	TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:21318662C>T	uc002gyv.1	+	3	713	c.8C>T	c.(7-9)GCG>GTG	p.A3V		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	3	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GGGATGACCGCGGCCAGCCGG	0.692										Prostate(3;0.18)			4	41					0	0	1	0	0		T	21318662	T	T	21318662	3	4	101	1	0	0	0	0	1	0	0	0	8062	768	27	1	10	1	KCNJ12	17	21318662	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	3295626	21318662	59876548	87	61775											
FZD2	2535	broad.mit.edu	37	chr17	42636454	42636454	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgcatcggcgtcttctcCgtgctctacacagtgcccgc	4	10	11	16	5	3	0	0	0	3	0	5	0	3	0	2	1	4	2	2	1	1	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:42636454C>T	uc002igx.1	+	1	1530	c.1398C>T	c.(1396-1398)TCC>TCT	p.S466S		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	466	Helical; Name=6; (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		GCGTCTTCTCCGTGCTCTACA	0.627													17	36					0	0	1	0	0		T	42636454	T	T	42636454	2	4	101	1	0	0	0	0	0	0	0	1	6144	639	23	1		1	FZD2	17	42636454	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	21317792	42636454	38558756	88	61776											
C17orf104	284071	broad.mit.edu	37	chr17	42744852	42744852	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaactatcatccacaaacTtaaccccaaatagcaattta	17	9	1	14	0	1	0	1	0	0	0	2	0	2	0	4	0	4	1	4	0	8	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:42744852T>G	uc010czv.2	+	5	1573	c.1573T>G	c.(1573-1575)TTA>GTA	p.L525V	C17orf104_uc002igy.1_Missense_Mutation_p.L359V|C17orf104_uc002igz.3_Missense_Mutation_p.L359V|C17orf104_uc010wja.1_RNA|C17orf104_uc002iha.2_Missense_Mutation_p.L359V	NM_001145080	NP_001138552	A2RUB1	CQ104_HUMAN	hypothetical protein LOC284071	525										central_nervous_system(1)	1						ATCCACAAACTTAACCCCAAA	0.338													4	29					0	0	1	0	0		G	42744852	G	G	42744852	3	3	101	1	0	0	0	0	1	0	0	0	1854	1606	56	5	1591	5	C17orf104	17	42744852	Missense_Mutation	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08	108398	42744852	38450358	89	61777											
MARCH10	162333	broad.mit.edu	37	chr17	60813998	60813998	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcattgacaccaacctcttGtctgggctcggatttggtgt	7	13	11	10	1	2	1	0	1	2	0	3	2	2	2	2	3	2	2	2	3	1	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:60813998G>T	uc010ddr.2	-	6	1469	c.1231C>A	c.(1231-1233)CAA>AAA	p.Q411K	MARCH10_uc002jag.3_Missense_Mutation_p.Q411K|MARCH10_uc010dds.2_Missense_Mutation_p.Q449K|MARCH10_uc002jah.2_Missense_Mutation_p.Q410K|uc002jaj.1_RNA|uc002jak.2_RNA	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	411							ligase activity|zinc ion binding				0						CCAACCTCTTGTCTGGGCTCG	0.478													11	77					7.03913e-09	7.31846e-09	1	1	0		T	60813998	T	T	60813998	3	4	101	1	0	0	0	0	1	0	0	0	9317	1386	48	5	1219	5	MARCH10	17	60813998	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	18069146	60813998	20381212	90	61778											
KCNJ2	3759	broad.mit.edu	37	chr17	68172062	68172062	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacaacgcagactttgaaatCgtggtcatactggaaggcat	13	9	11	8	2	1	2	1	1	0	1	2	4	1	3	0	3	2	2	0	3	4	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:68172062C>T	uc010dfg.2	+	2	1283	c.882C>T	c.(880-882)ATC>ATT	p.I294I	KCNJ2_uc002jir.2_Silent_p.I294I	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	294	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					ACTTTGAAATCGTGGTCATAC	0.453													13	61					0	0	1	0	0		T	68172062	T	T	68172062	2	4	101	1	0	0	0	0	0	0	0	1	8067	874	31	1		1	KCNJ2	17	68172062	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	7358064	68172062	13023148	91	61779											
EPB41L3	23136	broad.mit.edu	37	chr18	5397408	5397408	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctattccactggactcCgtcttggtttccattttctg	4	18	7	12	1	3	0	0	0	3	0	7	1	6	1	3	2	0	1	3	2	1	6			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr18:5397408C>T	uc002kmt.1	-	18	2576	c.2490G>A	c.(2488-2490)ACG>ACA	p.T830T	EPB41L3_uc010wzh.1_Silent_p.T661T|EPB41L3_uc002kmu.1_Silent_p.T608T|EPB41L3_uc010dkq.1_Silent_p.T499T|EPB41L3_uc002kms.1_Silent_p.T65T|EPB41L3_uc010wze.1_Silent_p.T135T|EPB41L3_uc010wzf.1_Silent_p.T127T|EPB41L3_uc010wzg.1_Silent_p.T102T|EPB41L3_uc010dkr.2_Silent_p.T222T	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	830	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						CACTGGACTCCGTCTTGGTTT	0.537													13	92					0	0	1	0	0		T	5397408	T	T	5397408	2	4	101	1	0	0	0	0	0	0	0	1	5162	639	23	1		1	EPB41L3	18	5397408	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08		5397408	72679840	92	61780											
ANKRD12	23253	broad.mit.edu	37	chr18	9258528	9258528	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagattcttgctagctgtAcactattatcagaaaaagac	16	11	6	8	0	2	3	1	0	1	3	2	3	2	3	0	0	4	3	0	0	7	6			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr18:9258528A>G	uc002knv.2	+	9	5520	c.5263A>G	c.(5263-5265)ACA>GCA	p.T1755A	ANKRD12_uc002knw.2_Missense_Mutation_p.T1732A|ANKRD12_uc002knx.2_Missense_Mutation_p.T1732A|ANKRD12_uc010dkx.1_Missense_Mutation_p.T1462A	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	1755						nucleus				ovary(2)|central_nervous_system(1)	3						TGCTAGCTGTACACTATTATC	0.368													6	59					0	0	1	0	0		G	9258528	G	G	9258528	3	3	101	1	0	0	0	0	1	0	0	0	640	391	14	3	5293	3	ANKRD12	18	9258528	Missense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08	3861120	9258528	68818720	93	61781											
KLHL14	57565	broad.mit.edu	37	chr18	30350466	30350466	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcacgtcgcaaaacagcTgcttcctccacagcaggttg	9	8	11	13	2	1	0	1	0	0	0	4	0	3	0	2	2	4	5	2	2	2	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr18:30350466T>A	uc002kxm.1	-	2	477	c.89A>T	c.(88-90)CAG>CTG	p.Q30L		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	30						cytosol|endoplasmic reticulum membrane				ovary(1)	1						GCAAAACAGCTGCTTCCTCCA	0.632													17	46					0	0	1	0	0		A	30350466	A	A	30350466	3	1	101	1	0	0	0	0	1	0	0	0	8386	1580	55	5	1829	5	KLHL14	18	30350466	Missense_Mutation	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08	21091938	30350466	47726782	94	61782											
CDH20	28316	broad.mit.edu	37	chr18	59166663	59166663	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcaatgacaatgagcccaAgttcctggacggaccttatg	12	9	9	11	1	1	2	1	2	0	0	2	4	2	4	3	2	1	1	3	2	4	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr18:59166663A>C	uc010dps.1	+	2	503	c.491A>C	c.(490-492)AAG>ACG	p.K164T	CDH20_uc002lif.2_Missense_Mutation_p.K158T	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	164	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				AATGAGCCCAAGTTCCTGGAC	0.498													11	32					0	0	1	0	0		C	59166663	C	C	59166663	3	2	101	1	0	0	0	0	1	0	0	0	3109	72	3	5	497	5	CDH20	18	59166663	Missense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08	28816197	59166663	18910585	95	61783											
OR1M1	125963	broad.mit.edu	37	chr19	9204308	9204308	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgtggccatctgccacccaTtgcactacgccaagatcatg	9	9	8	15	2	2	1	1	0	1	1	3	1	2	1	4	1	3	1	4	1	2	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr19:9204308T>C	uc010xkj.1	+	1	388	c.388T>C	c.(388-390)TTG>CTG	p.L130L		NM_001004456	NP_001004456	Q8NGA1	OR1M1_HUMAN	olfactory receptor, family 1, subfamily M,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3						CTGCCACCCATTGCACTACGC	0.547													20	92					0	0	1	0	0		C	9204308	C	C	9204308	2	2	101	1	0	0	0	0	0	0	0	1	10987	1490	52	3		3	OR1M1	19	9204308	Silent	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08		9204308	49924675	96	61784											
DDX39	10212	broad.mit.edu	37	chr19	14522340	14522340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgacgctgggcatgtacttgGaaaagcgctcatattccttg	9	12	11	9	2	1	1	1	1	0	0	2	2	2	2	1	2	2	4	1	2	4	5			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr19:14522340G>A	uc010xnp.1	-	4	452	c.407C>T	c.(406-408)TCC>TTC	p.S136F	DDX39_uc002myo.2_Missense_Mutation_p.S136F|DDX39_uc010dzl.2_RNA|DDX39_uc010dzm.1_Missense_Mutation_p.S136F	NM_005804	NP_005795	O00148	DX39A_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39	136	Helicase ATP-binding.				mRNA export from nucleus|nuclear mRNA splicing, via spliceosome	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding				0						CATGTACTTGGAAAAGCGCTC	0.587													16	66					0	0	1	0	0		A	14522340	A	A	14522340	3	1	101	1	0	0	0	0	1	0	0	0	4360	1174	41	4	908	4	DDX39	19	14522340	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	5318032	14522340	44606643	97	61785											
ZNF91	7644	broad.mit.edu	37	chr19	23542926	23542926	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttatcttatgtgtagtaaggGttgaggattggctaaaagct	11	15	12	3	0	1	1	0	1	1	0	1	2	1	2	0	3	1	5	0	3	6	7			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr19:23542926G>T	uc002nre.2	-	4	2968	c.2855C>A	c.(2854-2856)ACC>AAC	p.T952N	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.T920N	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	952	C2H2-type 29.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				TGTAGTAAGGGTTGAGGATTG	0.393													5	72					0.00116845	0.00118656	1	1	0		T	23542926	T	T	23542926	3	4	101	1	0	0	0	0	1	0	0	0	18225	1261	44	5	724	5	ZNF91	19	23542926	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	9020586	23542926	35586057	98	61786											
RALGAPB	57148	broad.mit.edu	37	chr20	37203564	37203564	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagctggagccagagttttAtacttcacttttccaggagg	9	12	11	9	0	1	1	1	0	0	1	2	3	2	3	2	3	3	3	2	3	2	6			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr20:37203564A>G	uc002xiw.2	+	30	4696	c.4439A>G	c.(4438-4440)TAT>TGT	p.Y1480C	RALGAPB_uc002xix.2_Missense_Mutation_p.Y1477C|RALGAPB_uc002xiy.1_Missense_Mutation_p.I949V|RALGAPB_uc002xiz.2_Missense_Mutation_p.Y1259C	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	1480					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						CCAGAGTTTTATACTTCACTT	0.468													78	82					0	0	1	0	0		G	37203564	G	G	37203564	3	3	101	1	0	0	0	0	1	0	0	0	13040	449	16	3	4553	3	RALGAPB	20	37203564	Missense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08		37203564	25821956	99	61787											
NCOA3	8202	broad.mit.edu	37	chr20	46254163	46254163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgatgatgttcaaaaagccGatgtatcttctacagggcag	13	11	10	7	1	3	2	1	2	2	0	3	3	3	2	1	1	2	3	1	1	4	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr20:46254163G>A	uc002xtk.2	+	5	500	c.295G>A	c.(295-297)GAT>AAT	p.D99N	NCOA3_uc010ght.1_Missense_Mutation_p.D99N|NCOA3_uc002xtl.2_Missense_Mutation_p.D99N|NCOA3_uc002xtm.2_Missense_Mutation_p.D99N|NCOA3_uc002xtn.2_Missense_Mutation_p.D99N|NCOA3_uc010zyc.1_5'Flank	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	99					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						TCAAAAAGCCGATGTATCTTC	0.363													10	102					0	0	1	0	0		A	46254163	A	A	46254163	3	1	101	1	0	0	0	0	1	0	0	0	10249	1058	37	1	305	1	NCOA3	20	46254163	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	9050599	46254163	16771357	100	61788											
ZNFX1	57169	broad.mit.edu	37	chr20	47881369	47881369	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgctccttccacccacccGcacaatgctggtcttctgac	6	11	7	17	1	2	1	0	1	2	0	4	1	4	1	4	1	2	4	4	1	1	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr20:47881369G>A	uc002xui.2	-	5	2282	c.2035C>T	c.(2035-2037)CGG>TGG	p.R679W		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	679							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CCACCCACCCGCACAATGCTG	0.547													26	168					0	0	1	0	0		A	47881369	A	A	47881369	3	1	101	1	0	0	0	0	1	0	0	0	18230	1086	38	1	3761	1	ZNFX1	20	47881369	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	1627206	47881369	15144151	101	61789											
EEF1A2	1917	broad.mit.edu	37	chr20	62126332	62126332	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccattttgttcacgcccacGatgagctgcttcacacccag	8	11	7	15	2	2	1	2	1	0	0	3	2	3	1	3	0	2	3	3	0	0	4			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr20:62126332G>A	uc002yfd.1	-	3	548	c.447C>T	c.(445-447)ATC>ATT	p.I149I	EEF1A2_uc002yfe.1_Silent_p.I149I|EEF1A2_uc010gkg.1_Silent_p.I149I	NM_001958	NP_001949	Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha	149						nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			TCACGCCCACGATGAGCTGCT	0.617													13	162					0	0	1	0	0		A	62126332	A	A	62126332	2	1	101	1	0	0	0	0	0	0	0	1	4930	1048	37	1		1	EEF1A2	20	62126332	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	14244963	62126332	899188	102	61790											
RRP1	8568	broad.mit.edu	37	chr21	45223595	45223595	+	Frame_Shift_Del	DEL	T	-	-																															acacctcggcccctgaccagTgcccgagcaaaggcggccaa																										TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr21:45223595delT	uc002zds.2	+	13	1419	c.1326delT	c.(1324-1326)AGTfs	p.S442fs	RRP1_uc010gpk.1_Frame_Shift_Del_p.S292fs|RRP1_uc010gpl.1_Frame_Shift_Del_p.S340fs|RRP1_uc010gpm.1_Frame_Shift_Del_p.S309fs	NM_003683	NP_003674	P56182	RRP1_HUMAN	ribosomal RNA processing 1 homolog	442					rRNA processing	nucleolus|preribosome, small subunit precursor					0				COAD - Colon adenocarcinoma(84;0.00753)|Colorectal(79;0.0157)|STAD - Stomach adenocarcinoma(101;0.171)		CCCTGACCAGTGCCCGAGCAA	0.682													2	4	---	---	---	---						.	-	45223595	-	-	45223595	7	5	101	1	0	1	0	1	0	0	0	0	13710	1693	59	0	1376	0	RRP1	21	45223595	Frame_Shift_Del	DEL	T	TCGA-BR-A4J8-01A-11D-A25D-08		45223595	2906300	103	61791											
TCN2	6948	broad.mit.edu	37	chr22	31022488	31022488	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggatggagaaaccattgagCtgaggctggttagctggtag	11	9	16	5	0	0	3	0	2	0	1	0	5	0	4	1	5	3	5	1	5	3	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr22:31022488C>T	uc003aip.1	+	9	1422	c.1264C>T	c.(1264-1266)CTG>TTG	p.L422L	TCN2_uc003aiq.1_Silent_p.L418L|TCN2_uc003air.1_Silent_p.L395L	NM_000355	NP_000346	P20062	TCO2_HUMAN	transcobalamin II precursor	422					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular space	cobalamin binding			central_nervous_system(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AACCATTGAGCTGAGGCTGGT	0.567													5	66					0	0	1	0	0		T	31022488	T	T	31022488	2	4	101	1	0	0	0	0	0	0	0	1	15732	796	28	2		2	TCN2	22	31022488	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08		31022488	20282078	104	61792											
SHOX	6473	broad.mit.edu	37	chrX	601735	601735	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctccctttggacacaggCgtcatcttgggcacagccaa	8	9	10	14	1	2	0	1	0	1	0	3	1	3	1	2	3	2	2	2	3	1	2	rs138998412		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:601735C>T	uc004cph.1	+	5	1237	c.546C>T	c.(544-546)GGC>GGT	p.G182G	SHOX_uc004cpi.2_Silent_p.G182G	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	182					skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TGGACACAGGCGTCATCTTGG	0.597													9	31					0	0	1	0	0		T	601735	T	T	601735	2	4	101	1	0	0	0	0	0	0	0	1	14313	782	27	1		1	SHOX	23	601735	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08		601735	154668825	105	61793											
SHROOM2	357	broad.mit.edu	37	chrX	9862716	9862716	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcaggcccaggccgcaggCgaccctcagggctcggagga	7	2	17	15	4	1	0	1	0	0	0	2	3	1	2	3	7	0	3	3	7	0	0			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:9862716C>T	uc004csu.1	+	4	858	c.768C>T	c.(766-768)GGC>GGT	p.G256G		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	256					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				AGGCCGCAGGCGACCCTCAGG	0.672													3	22					0	0	1	0	0		T	9862716	T	T	9862716	2	4	101	1	0	0	0	0	0	0	0	1	14319	755	27	1		1	SHROOM2	23	9862716	Silent	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	9260981	9862716	145407844	106	61794											
XK	7504	broad.mit.edu	37	chrX	37586943	37586943	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatggagccttgcgctgcaAcatcctagccatcaaaatca	12	9	8	12	1	2	0	2	0	0	0	3	1	3	1	3	1	5	3	3	1	5	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:37586943A>G	uc004ddq.2	+	3	645	c.563A>G	c.(562-564)AAC>AGC	p.N188S		NM_021083	NP_066569	P51811	XK_HUMAN	membrane transport protein XK	188	Helical; (Potential).				amino acid transport	integral to membrane	protein binding|transporter activity				0		all_lung(315;0.175)				TTGCGCTGCAACATCCTAGCC	0.473													6	47					0	0	1	0	0		G	37586943	G	G	37586943	3	3	101	1	0	0	0	0	1	0	0	0	17457	43	2	3	573	3	XK	23	37586943	Missense_Mutation	SNP	A	TCGA-BR-A4J8-01A-11D-A25D-08	27724227	37586943	117683617	107	61795											
RPS6KA6	27330	broad.mit.edu	37	chrX	83362033	83362033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgagcatttgcactggctGgcaaaccgggagaatctaat	12	9	12	8	1	1	2	0	1	1	1	1	4	1	2	1	3	3	4	1	3	3	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:83362033G>A	uc004eej.1	-	14	1204	c.1127C>T	c.(1126-1128)CCA>CTA	p.P376L	RPS6KA6_uc011mqt.1_Missense_Mutation_p.P376L|RPS6KA6_uc011mqu.1_Missense_Mutation_p.P273L	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	376	AGC-kinase C-terminal.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TGCACTGGCTGGCAAACCGGG	0.333													16	24					0	0	1	0	0		A	83362033	A	A	83362033	3	1	101	1	0	0	0	0	1	0	0	0	13680	1348	47	4	1146	4	RPS6KA6	23	83362033	Missense_Mutation	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	45775090	83362033	71908527	108	61796											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299308	125299308	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acggtgtcactcagccaggcGactgcgaagatccagtcctt	9	8	11	13	3	2	1	2	0	0	1	4	3	4	1	3	2	2	0	3	2	1	1			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:125299308G>A	uc004euk.1	-	1	627	c.600C>T	c.(598-600)GTC>GTT	p.V200V		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	200	WD 2.									lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						TCAGCCAGGCGACTGCGAAGA	0.652													10	46					0	0	1	0	0		A	125299308	A	A	125299308	2	1	101	1	0	0	0	0	0	0	0	1	4268	1045	37	1		1	DCAF12L2	23	125299308	Silent	SNP	G	TCGA-BR-A4J8-01A-11D-A25D-08	41937275	125299308	29971252	109	61797											
GPR112	139378	broad.mit.edu	37	chrX	135426978	135426978	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcaaccacctacaccttcTaatttcctatccacatccag	11	13	1	16	0	2	0	1	0	1	0	5	0	5	0	6	0	2	0	6	0	4	6			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:135426978T>C	uc004ezu.1	+	6	1404	c.1113T>C	c.(1111-1113)TCT>TCC	p.S371S	GPR112_uc010nsb.1_Silent_p.S166S|GPR112_uc010nsc.1_Silent_p.S138S	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	371	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					CTACACCTTCTAATTTCCTAT	0.358													28	33					0	0	1	0	0		C	135426978	C	C	135426978	2	2	101	1	0	0	0	0	0	0	0	1	6644	1509	53	3		3	GPR112	23	135426978	Silent	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08	10127670	135426978	19843582	110	61798											
MAGEA10	4109	broad.mit.edu	37	chrX	151303075	151303075	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaattctgtcctgggctcTctcttcctcatctttcaaag	6	15	7	13	0	6	0	2	0	4	0	9	0	8	0	2	2	0	2	2	2	2	3			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:151303075T>A	uc004ffk.2	-	5	1426	c.1018A>T	c.(1018-1020)AGA>TGA	p.R340*	MAGEA10_uc004ffl.2_Nonsense_Mutation_p.R340*	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	340											0	Acute lymphoblastic leukemia(192;6.56e-05)					TCCTGGGCTCTCTCTTCCTCA	0.473													49	120					0	0	1	0	0		A	151303075	A	A	151303075	4	1	101	1	0	0	0	0	0	1	0	0	9182	1559	54	5	95	5	MAGEA10	23	151303075	Nonsense_Mutation	SNP	T	TCGA-BR-A4J8-01A-11D-A25D-08	15876097	151303075	3967485	111	61799											
GABRQ	55879	broad.mit.edu	37	chrX	151820033	151820033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaccatcgactcacatctgCgggataagctccccaacatt	11	8	6	16	2	2	0	1	0	1	0	4	2	3	1	4	1	3	1	4	1	2	2			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:151820033C>T	uc004ffp.1	+	8	966	c.946C>T	c.(946-948)CGG>TGG	p.R316W		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	316						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CTCACATCTGCGGGATAAGCT	0.458													54	63					0	0	1	0	0		T	151820033	T	T	151820033	3	4	101	1	0	0	0	0	1	0	0	0	6189	759	27	1	976	1	GABRQ	23	151820033	Missense_Mutation	SNP	C	TCGA-BR-A4J8-01A-11D-A25D-08	516958	151820033	3450527	112	61800											
AJAP1	55966	broad.mit.edu	37	chr1	4832493	4832493	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgagaccctgcagtgttcTcacgagtgcgtcagggcatc	9	8	12	12	3	2	1	2	0	1	1	4	3	2	1	1	1	3	3	1	1	1	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:4832493T>C	uc001alm.1	+	4	1452	c.1071T>C	c.(1069-1071)TCT>TCC	p.S357S	AJAP1_uc001aln.2_Silent_p.S357S	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	357	Targeting signals.|Cytoplasmic (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		TGCAGTGTTCTCACGAGTGCG	0.587													9	26					0	0	1	0	0		C	4832493	C	C	4832493	2	2	102	1	0	0	0	0	0	0	0	1	438	1538	54	3		3	AJAP1	1	4832493	Silent	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08		4832493	244418128	1	61801											
TNFRSF9	3604	broad.mit.edu	37	chr1	7993258	7993258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggagtttctttctgccccGtttaacaacagagaaacgga	12	10	9	10	2	2	1	0	0	2	1	2	4	2	3	2	2	4	2	2	2	3	4	rs143524950		TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:7993258G>A	uc001aot.2	-	7	771	c.643C>T	c.(643-645)CGG>TGG	p.R215W		NM_001561	NP_001552	Q07011	TNR9_HUMAN	tumor necrosis factor receptor superfamily,	215	Cytoplasmic (Potential).|Interaction with LRR-1.				induction of apoptosis|negative regulation of cell proliferation	integral to plasma membrane	binding|receptor activity			large_intestine(1)|lung(1)|ovary(1)|skin(1)	4	Ovarian(185;0.0634)|all_lung(157;0.151)	all_epithelial(116;9.63e-21)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.000625)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.93e-71)|GBM - Glioblastoma multiforme(8;3.72e-37)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;7.71e-06)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000419)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00103)|READ - Rectum adenocarcinoma(331;0.0649)		TTTCTGCCCCGTTTAACAACA	0.428													8	23					0	0	1	0	0		A	7993258	A	A	7993258	3	1	102	1	0	0	0	0	1	0	0	0	16325	1144	40	1	132	1	TNFRSF9	1	7993258	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	3160765	7993258	241257363	2	61802											
VPS13D	55187	broad.mit.edu	37	chr1	12317070	12317070	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taccggcaaatcatggaattCctcaaggagctggaacgaaa	15	7	10	9	2	2	0	2	0	0	0	3	4	3	3	2	4	3	2	2	4	6	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:12317070C>A	uc001atv.2	+	9	1008	c.867C>A	c.(865-867)TTC>TTA	p.F289L	VPS13D_uc001atw.2_Missense_Mutation_p.F289L	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	289					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TCATGGAATTCCTCAAGGAGC	0.423													23	93					3.65163e-15	3.96146e-15	1	1	0		A	12317070	A	A	12317070	3	1	102	1	0	0	0	0	1	0	0	0	17218	854	30	5	897	5	VPS13D	1	12317070	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	4323812	12317070	236933551	3	61803											
UBR4	23352	broad.mit.edu	37	chr1	19465681	19465681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagggtagaaccatctgtcGctgctgtactgccctcgtcg	7	10	12	12	3	1	1	0	0	1	1	4	2	1	1	2	1	4	4	2	1	4	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:19465681G>A	uc001bbi.2	-	59	8631	c.8627C>T	c.(8626-8628)GCG>GTG	p.A2876V	UBR4_uc001bbk.1_Missense_Mutation_p.A523V	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2876					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		ACCATCTGTCGCTGCTGTACT	0.498													29	105					0	0	1	0	0		A	19465681	A	A	19465681	3	1	102	1	0	0	0	0	1	0	0	0	16930	1087	38	1	7116	1	UBR4	1	19465681	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	7148611	19465681	229784940	4	61804											
WNT4	54361	broad.mit.edu	37	chr1	22446680	22446680	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcggccacagcacagcagctCacagccgtcgatggccttgg	8	5	13	15	3	1	0	1	0	0	0	2	1	1	0	3	3	4	3	3	3	0	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:22446680C>G	uc001bfs.3	-	5	1023	c.919G>C	c.(919-921)GAG>CAG	p.E307Q	WNT4_uc010odt.1_Missense_Mutation_p.E244Q	NM_030761	NP_110388	P56705	WNT4_HUMAN	wingless-type MMTV integration site family,	307					adrenal gland development|androgen biosynthetic process|anterior/posterior pattern formation|axis specification|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway|cellular response to transforming growth factor beta stimulus|dermatome development|endoderm development|epithelial to mesenchymal transition|establishment of protein localization in plasma membrane|female gonad development|female sex determination|liver development|male gonad development|mesonephric tubule development|metanephric mesenchymal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of male gonad development|negative regulation of testicular blood vessel morphogenesis|negative regulation of testosterone biosynthetic process|negative regulation of transcription, DNA-dependent|oocyte development|paramesonephric duct development|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of collagen biosynthetic process|positive regulation of cortisol biosynthetic process|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|protein palmitoylation|renal vesicle formation|smooth muscle cell differentiation|somatotropin secreting cell differentiation|tertiary branching involved in mammary gland duct morphogenesis|thyroid-stimulating hormone-secreting cell differentiation|Wnt receptor signaling pathway, calcium modulating pathway	cell surface|extracellular space|Golgi apparatus|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|signal transducer activity|transcription corepressor activity			ovary(1)	1		Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;6.55e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;9.02e-26)|Colorectal(126;1.71e-07)|COAD - Colon adenocarcinoma(152;1.17e-05)|GBM - Glioblastoma multiforme(114;2.01e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000568)|KIRC - Kidney renal clear cell carcinoma(1967;0.00277)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		CACAGCAGCTCACAGCCGTCG	0.652													7	19					0	0	1	0	0		G	22446680	G	G	22446680	3	3	102	1	0	0	0	0	1	0	0	0	17416	835	29	5	140	5	WNT4	1	22446680	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	2980999	22446680	226803941	5	61805											
STK40	83931	broad.mit.edu	37	chr1	36826900	36826900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttggccctggccgacgtttCcccagctcctctgtctgatg	3	12	10	16	2	2	1	0	1	2	0	4	2	4	1	5	2	1	2	5	2	0	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:36826900C>T	uc001cak.1	-	3	441	c.34G>A	c.(34-36)GAA>AAA	p.E12K	STK40_uc001cal.1_Missense_Mutation_p.E12K|STK40_uc001cam.1_Missense_Mutation_p.E12K|STK40_uc009vva.1_Missense_Mutation_p.E12K|STK40_uc001can.1_Missense_Mutation_p.E12K	NM_032017	NP_114406	Q8N2I9	STK40_HUMAN	serine/threonine kinase 40	12						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1		Myeloproliferative disorder(586;0.0393)				GCCGACGTTTCCCCAGCTCCT	0.498													27	85					0	0	1	0	0		T	36826900	T	T	36826900	3	4	102	1	0	0	0	0	1	0	0	0	15332	864	30	4	1313	4	STK40	1	36826900	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	14380220	36826900	212423721	6	61806											
SLC44A3	126969	broad.mit.edu	37	chr1	95330312	95330312	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tttccagaagtaaaaatgatCctcctgatcatcccatcctt	12	13	4	12	0	1	3	1	2	0	1	6	3	6	3	5	0	0	1	5	0	4	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:95330312C>G	uc001dqv.3	+	11	1359	c.1252C>G	c.(1252-1254)CCT>GCT	p.P418A	SLC44A3_uc001dqx.3_Missense_Mutation_p.P418A|SLC44A3_uc010otq.1_Missense_Mutation_p.P350A|SLC44A3_uc010otr.1_Missense_Mutation_p.P382A|SLC44A3_uc001dqw.3_Missense_Mutation_p.P370A|SLC44A3_uc010ots.1_Missense_Mutation_p.P338A|SLC44A3_uc009wds.2_Missense_Mutation_p.P321A|SLC44A3_uc010ott.1_Missense_Mutation_p.P338A|SLC44A3_uc010otu.1_RNA	NM_001114106	NP_001107578	Q8N4M1	CTL3_HUMAN	solute carrier family 44, member 3 isoform 1	418						integral to membrane|plasma membrane	choline transmembrane transporter activity			kidney(1)	1		all_lung(203;0.000712)|Lung NSC(277;0.00316)		all cancers(265;0.039)|Epithelial(280;0.124)	Choline(DB00122)	TAAAAATGATCCTCCTGATCA	0.393													27	102					0	0	1	0	0		G	95330312	G	G	95330312	3	3	102	1	0	0	0	0	1	0	0	0	14662	855	30	5	1294	5	SLC44A3	1	95330312	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	58503412	95330312	153920309	7	61807											
STXBP3	6814	broad.mit.edu	37	chr1	109336246	109336246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgatgaaaaagatgcccCatttccgaaaacagattact	16	9	7	9	1	0	4	0	2	0	2	1	5	1	4	3	0	4	1	3	0	5	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:109336246C>T	uc001dvy.2	+	12	1081	c.1006C>T	c.(1006-1008)CAT>TAT	p.H336Y	STXBP3_uc001dvz.2_RNA	NM_007269	NP_009200	O00186	STXB3_HUMAN	syntaxin binding protein 3	336					negative regulation of calcium ion-dependent exocytosis|neutrophil degranulation|platelet aggregation|protein transport|vesicle docking involved in exocytosis	cytosol|nucleus|platelet alpha granule|specific granule|tertiary granule	syntaxin-2 binding			ovary(3)|central_nervous_system(1)	4		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0386)|Lung(183;0.104)|COAD - Colon adenocarcinoma(174;0.137)|Epithelial(280;0.231)		AAAGATGCCCCATTTCCGAAA	0.299													11	46					0	0	1	0	0		T	109336246	T	T	109336246	3	4	102	1	0	0	0	0	1	0	0	0	15379	594	21	4	1052	4	STXBP3	1	109336246	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	14005934	109336246	139914375	8	61808											
HRNR	388697	broad.mit.edu	37	chr1	152192292	152192292	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccatgggtagaggaatgacCcgagctagatccgtgttgac	10	8	13	10	2	0	4	0	2	0	2	1	6	1	5	3	2	1	3	3	2	3	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:152192292C>G	uc001ezt.1	-	3	1889	c.1813G>C	c.(1813-1815)GGT>CGT	p.G605R		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	605	6.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GAGGAATGACCCGAGCTAGAT	0.557													134	243					0	0	1	0	0		G	152192292	G	G	152192292	3	3	102	1	0	0	0	0	1	0	0	0	7375	623	22	5	6743	5	HRNR	1	152192292	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	42856046	152192292	97058329	9	61809											
CD1C	911	broad.mit.edu	37	chr1	158261017	158261017	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctcaggatggctggacgAgttgcagactcatggctggg	7	8	18	8	1	2	1	2	0	0	1	2	4	2	3	0	6	1	5	0	6	0	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:158261017A>T	uc001fru.2	+	2	447	c.155A>T	c.(154-156)GAG>GTG	p.E52V	CD1C_uc001frv.2_5'Flank	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	52	Extracellular (Potential).				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					TGGCTGGACGAGTTGCAGACT	0.502													21	40					0	0	1	0	0		T	158261017	T	T	158261017	3	4	102	1	0	0	0	0	1	0	0	0	2979	304	11	5	161	5	CD1C	1	158261017	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	6068725	158261017	90989604	10	61810											
OR10K2	391107	broad.mit.edu	37	chr1	158390365	158390365	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggaaaacatttggatggCacagcccaggaaagaaatgg	17	5	13	6	0	0	1	0	0	0	1	0	5	0	4	1	5	2	1	1	5	5	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:158390365C>A	uc010pii.1	-	1	292	c.292G>T	c.(292-294)GCC>TCC	p.A98S		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					ATTTGGATGGCACAGCCCAGG	0.488													63	83					3.94839e-29	4.33596e-29	1	1	0		A	158390365	A	A	158390365	3	1	102	1	0	0	0	0	1	0	0	0	10933	710	25	5	648	5	OR10K2	1	158390365	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	129348	158390365	90860256	11	61811											
OR6N1	128372	broad.mit.edu	37	chr1	158736147	158736147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaggagatagcactcagtcGctccaagggagtgaaagaaa	15	6	12	8	1	2	3	2	1	0	2	4	5	3	4	1	2	1	2	1	2	4	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:158736147G>A	uc010piq.1	-	1	326	c.326C>T	c.(325-327)GCG>GTG	p.A109V		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GCACTCAGTCGCTCCAAGGGA	0.507													14	39					0	0	1	0	0		A	158736147	A	A	158736147	3	1	102	1	0	0	0	0	1	0	0	0	11225	1087	38	1	615	1	OR6N1	1	158736147	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	345782	158736147	90514474	12	61812											
PVRL4	81607	broad.mit.edu	37	chr1	161049643	161049643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacttgccccacttgctcgCcggagtcccctcggtagaag	6	8	10	17	3	0	1	0	0	0	1	3	2	1	2	6	2	2	2	6	2	2	3	rs142201196		TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:161049643C>T	uc001fxo.2	-	2	475	c.176G>A	c.(175-177)GGC>GAC	p.G59D		NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	59	Ig-like V-type 1.|Extracellular (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			CACTTGCTCGCCGGAGTCCCC	0.662													31	51					0	0	1	0	0		T	161049643	T	T	161049643	3	4	102	1	0	0	0	0	1	0	0	0	12867	739	26	2	1388	2	PVRL4	1	161049643	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	2313496	161049643	88200978	13	61813											
LRRC52	440699	broad.mit.edu	37	chr1	165514100	165514100	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaacccctggaagtgcaaCtgctctttcctggacttcgc	8	10	10	13	1	1	0	0	0	1	0	3	3	2	3	3	3	4	2	3	3	3	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:165514100C>T	uc001gde.2	+	1	623	c.567C>T	c.(565-567)AAC>AAT	p.N189N	LOC400794_uc001gdc.2_Intron|LOC400794_uc001gdd.2_Intron|LOC400794_uc009wvd.2_Intron	NM_001005214	NP_001005214	Q8N7C0	LRC52_HUMAN	leucine rich repeat containing 52 precursor	189	Extracellular (Potential).|LRRCT.					integral to membrane				ovary(1)	1	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)					GGAAGTGCAACTGCTCTTTCC	0.517													28	126					0	0	1	0	0		T	165514100	T	T	165514100	2	4	102	1	0	0	0	0	0	0	0	1	9028	564	20	4		4	LRRC52	1	165514100	Silent	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	4464457	165514100	83736521	14	61814											
SCYL3	57147	broad.mit.edu	37	chr1	169823652	169823652	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccttaaggggcctttctTgtgatgacacttttggcggc	7	13	12	9	1	1	2	0	2	1	0	1	3	1	2	2	4	1	0	2	4	2	5			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:169823652T>G	uc001ggs.2	-	13	2126	c.1928A>C	c.(1927-1929)CAA>CCA	p.Q643P	SCYL3_uc010plw.1_Missense_Mutation_p.Q235P|SCYL3_uc001ggt.2_Missense_Mutation_p.Q589P|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	643	Interaction with EZR.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GGGCCTTTCTTGTGATGACAC	0.438													24	79					0	0	1	0	0		G	169823652	G	G	169823652	3	3	102	1	0	0	0	0	1	0	0	0	13974	1812	63	5	308	5	SCYL3	1	169823652	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	4309552	169823652	79426969	15	61815											
PAPPA2	60676	broad.mit.edu	37	chr1	176740108	176740108	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcctggagtcaggactgAgcccatggctgacatgtctt	7	12	11	11	0	2	2	1	2	1	0	3	4	3	4	2	3	1	1	2	3	0	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:176740108A>G	uc001gkz.2	+	17	5671	c.4507A>G	c.(4507-4509)AGC>GGC	p.S1503G	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1503	Sushi 2.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GTCAGGACTGAGCCCATGGCT	0.458													36	37					0	0	1	0	0		G	176740108	G	G	176740108	3	3	102	1	0	0	0	0	1	0	0	0	11452	304	11	3	4622	3	PAPPA2	1	176740108	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	6916456	176740108	72510513	16	61816											
C1orf14	81626	broad.mit.edu	37	chr1	182908441	182908441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctctgatactcaatgagctCgacacgtttgtttttatatt	9	17	7	8	2	2	2	1	2	1	0	3	3	2	2	0	0	2	4	0	0	4	7			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:182908441C>T	uc001gpu.2	-	5	1231	c.946G>A	c.(946-948)GAG>AAG	p.E316K	C1orf14_uc001gpv.2_Missense_Mutation_p.E197K|C1orf14_uc010pnz.1_Missense_Mutation_p.E174K|C1orf14_uc001gpw.2_Missense_Mutation_p.E36K	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	388	Potential.										0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		TCAATGAGCTCGACACGTTTG	0.373													8	69					0	0	1	0	0		T	182908441	T	T	182908441	3	4	102	1	0	0	0	0	1	0	0	0	2003	893	31	1	1039	1	C1orf14	1	182908441	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	6168333	182908441	66342180	17	61817											
FAM5C	339479	broad.mit.edu	37	chr1	190195400	190195400	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcaatgtagctcaaagctGcttgtacaaaacgttcctga	14	10	8	9	1	1	1	1	1	0	0	2	1	2	1	1	0	6	7	1	0	7	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:190195400G>T	uc001gse.1	-	6	1005	c.773C>A	c.(772-774)GCA>GAA	p.A258E	FAM5C_uc010pot.1_Missense_Mutation_p.A156E	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	258						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					GCTCAAAGCTGCTTGTACAAA	0.383													9	40					0.000442599	0.000442599	1	1	0		T	190195400	T	T	190195400	3	4	102	1	0	0	0	0	1	0	0	0	5608	1319	46	5	1539	5	FAM5C	1	190195400	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	7286959	190195400	59055221	18	61818											
DISP1	84976	broad.mit.edu	37	chr1	223178997	223178998	+	Frame_Shift_Del	DEL	AG	-	-																															aaagggaactctgtaaaaatAgagacgtgagcaatctggag																										TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr1:223178997_223178998delAG	uc001hnu.1	+	8	4405_4406	c.4258_4259delAG	c.(4258-4260)AGAfs	p.R1420fs		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1420					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		CTGTAAAAATAGAGACGTGAGC	0.48													36	77	---	---	---	---						.	-	223178998	-	-	223178997	7	5	102	1	0	1	0	1	0	0	0	0	4545	412	15	0	4284	0	DISP1	1	223178997	Frame_Shift_Del	DEL	AG	TCGA-BR-A4QI-01A-12D-A25D-08	32983597	223178997	26071624	19	61819											
NBAS	51594	broad.mit.edu	37	chr2	15542374	15542374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcacaggtatagatgcactCtagtgctattgccatcagtt	10	14	8	9	0	3	1	2	0	1	1	3	1	3	1	1	1	3	4	1	1	4	7			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:15542374C>T	uc002rcc.1	-	26	3015	c.2989G>A	c.(2989-2991)GAG>AAG	p.E997K	NBAS_uc010exl.1_Missense_Mutation_p.E69K|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	997										ovary(2)|liver(1)|skin(1)	4						TAGATGCACTCTAGTGCTATT	0.373													31	142					0	0	1	0	0		T	15542374	T	T	15542374	3	4	102	1	0	0	0	0	1	0	0	0	10204	922	32	4	4234	4	NBAS	2	15542374	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08		15542374	227656999	20	61820											
GDF7	151449	broad.mit.edu	37	chr2	20871023	20871023	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagcccaccaaccatgccatCattcagacgctgctcaactc	11	7	6	17	1	3	1	3	0	0	1	4	2	3	1	4	0	5	2	4	0	2	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:20871023C>T	uc002rdz.1	+	2	1767	c.1191C>T	c.(1189-1191)ATC>ATT	p.I397I		NM_182828	NP_878248	Q7Z4P5	GDF7_HUMAN	growth differentiation factor 7 preproprotein	397					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACCATGCCATCATTCAGACGC	0.642													20	36					0	0	1	0	0		T	20871023	T	T	20871023	2	4	102	1	0	0	0	0	0	0	0	1	6333	816	29	4		4	GDF7	2	20871023	Silent	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	5328649	20871023	222328350	21	61821											
ITSN2	50618	broad.mit.edu	37	chr2	24480916	24480916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggttatctttctttgcaGtccaggaacaaagggcctgt	9	13	11	8	0	2	0	0	0	2	0	3	1	3	1	2	3	2	2	2	3	3	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:24480916G>A	uc002rfe.2	-	23	2987	c.2729C>T	c.(2728-2730)ACT>ATT	p.T910I	ITSN2_uc002rff.2_Missense_Mutation_p.T883I|ITSN2_uc002rfg.2_Missense_Mutation_p.T910I|ITSN2_uc002rfh.1_RNA	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	910	SH3 2.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTTCTTTGCAGTCCAGGAACA	0.388													15	99					0	0	1	0	0		A	24480916	A	A	24480916	3	1	102	1	0	0	0	0	1	0	0	0	7943	1029	36	4	2487	4	ITSN2	2	24480916	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	3609893	24480916	218718457	22	61822											
FAM179A	165186	broad.mit.edu	37	chr2	29246051	29246051	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtgtgcttggtggtgacTggggaggtgaggccccccag	5	8	19	9	1	0	2	0	2	0	0	0	4	0	3	3	6	1	1	3	6	0	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:29246051T>C	uc010ezl.2	+	12	1962	c.1611T>C	c.(1609-1611)ACT>ACC	p.T537T	FAM179A_uc010ymm.1_Silent_p.T482T|FAM179A_uc002rmr.3_Silent_p.T64T	NM_199280	NP_954974	Q6ZUX3	F179A_HUMAN	hypothetical protein LOC165186	537							binding			ovary(3)|skin(1)	4						TGGTGGTGACTGGGGAGGTGA	0.637													3	9					0	0	1	0	0		C	29246051	C	C	29246051	2	2	102	1	0	0	0	0	0	0	0	1	5516	1567	55	3		3	FAM179A	2	29246051	Silent	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	4765135	29246051	213953322	23	61823											
FAM161A	84140	broad.mit.edu	37	chr2	62066655	62066655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacatcttactggtgacttaCgccttggagacaaataaggc	12	10	9	10	1	1	2	0	1	1	1	1	3	1	2	1	3	2	0	1	3	4	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:62066655C>T	uc010ypo.1	-	3	1586	c.1484G>A	c.(1483-1485)CGT>CAT	p.R495H	FAM161A_uc002sbm.3_Missense_Mutation_p.R495H|FAM161A_uc002sbn.3_Missense_Mutation_p.R305H|FAM161A_uc010fcm.1_RNA|FAM161A_uc010fcn.1_Missense_Mutation_p.R386H	NM_032180	NP_115556	Q3B820	F161A_HUMAN	hypothetical protein LOC84140	495					response to stimulus|visual perception	centrosome				large_intestine(2)|ovary(1)	3						TGGTGACTTACGCCTTGGAGA	0.448													23	70					0	0	1	0	0		T	62066655	T	T	62066655	3	4	102	1	0	0	0	0	1	0	0	0	5483	536	19	1	514	1	FAM161A	2	62066655	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	32820604	62066655	181132718	24	61824											
C2orf68	388969	broad.mit.edu	37	chr2	85836595	85836595	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgacctctccactgtctGcctcgtattctaagcagaag	9	12	8	12	1	3	2	0	1	3	1	5	2	3	2	3	0	2	2	3	0	3	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:85836595G>C	uc002sqc.2	-	3	413	c.341C>G	c.(340-342)GCA>GGA	p.A114G	USP39_uc002sqb.2_Intron|USP39_uc010ysu.1_5'Flank|USP39_uc010ysv.1_5'Flank	NM_001013649	NP_001013671	Q2NKX9	CB068_HUMAN	hypothetical protein LOC388969	114										central_nervous_system(1)	1						TCCACTGTCTGCCTCGTATTC	0.532													8	244					0	0	1	0	0		C	85836595	C	C	85836595	3	2	102	1	0	0	0	0	1	0	0	0	2190	1319	46	5	167	5	C2orf68	2	85836595	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	23769940	85836595	157362778	25	61825											
CD8B	926	broad.mit.edu	37	chr2	87085225	87085225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtcagctcggggctccCgacgatcatgcagaagtaga	11	6	14	10	3	2	2	2	0	0	2	4	5	3	2	1	3	2	4	1	3	3	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:87085225C>T	uc002srz.2	-	2	408	c.358G>A	c.(358-360)GGG>AGG	p.G120R	RMND5A_uc002srs.3_Intron|CD8B_uc002srw.2_Missense_Mutation_p.G120R|CD8B_uc002srx.2_Missense_Mutation_p.G120R|CD8B_uc002sry.2_Missense_Mutation_p.G120R|CD8B_uc010fgt.2_Missense_Mutation_p.G120R|CD8B_uc002ssa.2_Missense_Mutation_p.G120R|CD8B_uc010yto.1_Missense_Mutation_p.G120R	NM_004931	NP_004922	P10966	CD8B_HUMAN	CD8b antigen isoform 5 precursor	120	Ig-like V-type.|Extracellular (Potential).				immune response|regulation of defense response to virus by virus|regulation of immune response|T cell activation|transmembrane receptor protein tyrosine kinase signaling pathway|viral reproduction	early endosome|extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			upper_aerodigestive_tract(1)|skin(1)	2						TCGGGGCTCCCGACGATCATG	0.458													26	183					0	0	1	0	0		T	87085225	T	T	87085225	3	4	102	1	0	0	0	0	1	0	0	0	3048	652	23	1	568	1	CD8B	2	87085225	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	1248630	87085225	156114148	26	61826											
MITD1	129531	broad.mit.edu	37	chr2	99797402	99797402	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgctttagcacagtggctgCagctgtgctctgcgggtcct	4	11	13	13	2	1	0	0	0	1	0	2	0	2	0	2	2	5	6	2	2	1	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:99797402C>A	uc002szs.1	-	1	91	c.43G>T	c.(43-45)GCA>TCA	p.A15S	MRPL30_uc002szl.1_Intron|MRPL30_uc002szr.2_Intron|MRPL30_uc002szt.1_5'Flank|MRPL30_uc002szu.2_5'Flank|MRPL30_uc002szv.2_5'Flank	NM_138798	NP_620153	Q8WV92	MITD1_HUMAN	MIT, microtubule interacting and transport,	15	MIT.				protein transport	late endosome membrane				large_intestine(1)|ovary(1)	2						ACAGTGGCTGCAGCTGTGCTC	0.587													10	60					0.000442599	0.000442599	1	1	0		A	99797402	A	A	99797402	3	1	102	1	0	0	0	0	1	0	0	0	9613	710	25	5	734	5	MITD1	2	99797402	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	12712177	99797402	143401971	27	61827											
BUB1	699	broad.mit.edu	37	chr2	111415164	111415164	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaaacacatgaaaagcAgatgacaaagaagagatgat	20	7	8	6	0	2	6	1	3	1	3	2	7	2	6	0	0	2	1	0	0	5	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:111415164A>T	uc002tgc.2	-	14	1687	c.1575T>A	c.(1573-1575)TCT>TCA	p.S525S	BUB1_uc010yxh.1_Silent_p.S505S|BUB1_uc010fkb.2_Silent_p.S525S	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	525					apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		CATGAAAAGCAGATGACAAAG	0.373													13	49					0	0	1	0	0		T	111415164	T	T	111415164	2	4	102	1	0	0	0	0	0	0	0	1	1573	175	7	5		5	BUB1	2	111415164	Silent	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	11617762	111415164	131784209	28	61828											
LRP1B	53353	broad.mit.edu	37	chr2	141004675	141004675	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtgctgatatgatcagacTtgctgctctttggggctggc	5	15	13	8	0	2	3	1	2	1	1	2	3	2	3	0	3	3	4	0	3	1	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:141004675T>G	uc002tvj.1	-	87	14276	c.13304A>C	c.(13303-13305)AAG>ACG	p.K4435T		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4435	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATGATCAGACTTGCTGCTCTT	0.378										TSP Lung(27;0.18)			10	31					0	0	1	0	0		G	141004675	G	G	141004675	3	3	102	1	0	0	0	0	1	0	0	0	8973	1609	56	5	515	5	LRP1B	2	141004675	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	29589511	141004675	102194698	29	61829											
ANKRD44	91526	broad.mit.edu	37	chr2	197865188	197865188	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgatactggaatctatggccCcaagcagcaatgatgcacaa	14	7	9	11	1	1	1	0	1	1	0	1	3	1	2	2	2	4	3	2	2	6	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:197865188C>A	uc002uua.1	-	23	2476	c.2399G>T	c.(2398-2400)GGG>GTG	p.G800V	ANKRD44_uc002utz.3_Missense_Mutation_p.G532V	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	825	ANK 24.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			ATCTATGGCCCCAAGCAGCAA	0.363													9	67					6.40141e-05	6.54773e-05	1	1	0		A	197865188	A	A	197865188	3	1	102	1	0	0	0	0	1	0	0	0	672	623	22	5	376	5	ANKRD44	2	197865188	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	56860513	197865188	45334185	30	61830											
ALS2CR12	130540	broad.mit.edu	37	chr2	202216070	202216070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggtcttgattagcttccGtggtcccaagttccaggggt	6	12	14	9	1	1	1	0	1	1	0	4	1	4	1	3	5	1	2	3	5	2	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:202216070G>A	uc010ftg.2	-	2	502	c.58C>T	c.(58-60)CGG>TGG	p.R20W	ALS2CR12_uc002uya.3_Missense_Mutation_p.R20W|ALS2CR12_uc010fth.2_RNA	NM_139163	NP_631902	Q96Q35	AL2SB_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	20					regulation of GTPase activity		protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						ATTAGCTTCCGTGGTCCCAAG	0.557													47	41					0	0	1	0	0		A	202216070	A	A	202216070	3	1	102	1	0	0	0	0	1	0	0	0	553	1144	40	1	1335	1	ALS2CR12	2	202216070	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	4350882	202216070	40983303	31	61831											
VWC2L	402117	broad.mit.edu	37	chr2	215279303	215279303	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacaaaatcttggaggaatTtaaggtatgcgttaccctcc	12	13	8	8	1	1	0	0	0	1	0	2	2	2	2	2	3	3	2	2	3	7	6			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:215279303T>A	uc002vet.2	+	2	516	c.386T>A	c.(385-387)TTT>TAT	p.F129Y	VWC2L_uc010zjl.1_Missense_Mutation_p.F129Y	NM_001080500	NP_001073969	B2RUY7	VWC2L_HUMAN	von Willebrand factor C domain-containing	129	VWFC 2.					extracellular region					0						TTGGAGGAATTTAAGGTATGC	0.343													4	22					0	0	1	0	0		A	215279303	A	A	215279303	3	1	102	1	0	0	0	0	1	0	0	0	17270	1841	64	5	388	5	VWC2L	2	215279303	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	13063233	215279303	27920070	32	61832											
ASB1	51665	broad.mit.edu	37	chr2	239353036	239353036	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcctgatgtccagcctcGattctcccggcggctcacct	5	10	9	17	3	2	1	1	1	1	0	6	3	4	1	5	2	1	1	5	2	0	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr2:239353036G>T	uc002vyg.2	+	4	634	c.548G>T	c.(547-549)CGA>CTA	p.R183L		NM_001040445	NP_001035535	Q9Y576	ASB1_HUMAN	ankyrin repeat and SOCS box-containing protein	183					intracellular signal transduction|negative regulation of cytokine biosynthetic process						0		all_epithelial(40;2.65e-14)|Breast(86;7.61e-05)|Renal(207;0.00183)|all_lung(227;0.0283)|Ovarian(221;0.0365)|Lung NSC(271;0.0941)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;2.04e-26)|OV - Ovarian serous cystadenocarcinoma(60;4.5e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;2.88e-05)|Lung(119;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00644)		GTCCAGCCTCGATTCTCCCGG	0.612													29	59					7.38237e-10	7.7732e-10	1	1	0		T	239353036	T	T	239353036	3	4	102	1	0	0	0	0	1	0	0	0	1014	1058	37	5	562	5	ASB1	2	239353036	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	24073733	239353036	3846337	33	61833											
TLR9	54106	broad.mit.edu	37	chr3	52255548	52255548	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagcgtcttgcggctgccAtagaccgaggcccacaggtt	9	7	12	13	3	1	1	0	0	1	1	1	2	1	1	3	3	4	2	3	3	2	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr3:52255548A>G	uc003dda.1	-	2	3418	c.2784T>C	c.(2782-2784)TAT>TAC	p.Y928Y	TLR9_uc003ddb.2_Silent_p.Y1025Y	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	928	TIR.|Cytoplasmic (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	TGCGGCTGCCATAGACCGAGG	0.667													48	100					0	0	1	0	0		G	52255548	G	G	52255548	2	3	102	1	0	0	0	0	0	0	0	1	15983	224	8	3		3	TLR9	3	52255548	Silent	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08		52255548	145766882	34	61834											
ROBO2	6092	broad.mit.edu	37	chr3	77666773	77666773	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtcccaacacctcctgttCgaggcgtggcttcttctcct	4	12	10	15	2	2	0	0	0	2	0	6	1	4	0	4	3	1	2	4	3	1	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr3:77666773C>T	uc003dpy.3	+	22	4046	c.3403C>T	c.(3403-3405)CGA>TGA	p.R1135*	ROBO2_uc003dpz.2_Nonsense_Mutation_p.R1139*|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Nonsense_Mutation_p.R1139*|ROBO2_uc003dqa.2_Nonsense_Mutation_p.R262*	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1135	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		ACCTCCTGTTCGAGGCGTGGC	0.517													35	39					0	0	1	0	0		T	77666773	T	T	77666773	4	4	102	1	0	0	0	0	0	1	0	0	13539	876	31	1	3491	1	ROBO2	3	77666773	Nonsense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	25411225	77666773	120355657	35	61835											
SEMA5B	54437	broad.mit.edu	37	chr3	122630793	122630793	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgctgtaggggcaggggCggctctggctgctgtttcca	3	11	16	11	2	2	0	0	0	2	0	4	0	3	0	1	6	1	7	1	6	1	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr3:122630793C>T	uc003efz.1	-	20	3324	c.3020G>A	c.(3019-3021)CGC>CAC	p.R1007H	SEMA5B_uc011bju.1_Missense_Mutation_p.R913H|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.R1007H|SEMA5B_uc003efy.1_5'UTR	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	1007	Extracellular (Potential).|TSP type-1 5.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		GGGGCAGGGGCGGCTCTGGCT	0.642													12	11					0	0	1	0	0		T	122630793	T	T	122630793	3	4	102	1	0	0	0	0	1	0	0	0	14063	768	27	1	451	1	SEMA5B	3	122630793	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	44964020	122630793	75391637	36	61836											
GYG1	2992	broad.mit.edu	37	chr3	148742051	148742051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaagacacctgctcatatGtaaatgtggtaggttctgtt	11	14	9	7	0	3	1	2	0	1	1	3	1	3	1	1	2	1	5	1	2	5	5			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr3:148742051G>A	uc003ewn.2	+	6	873	c.820G>A	c.(820-822)GTA>ATA	p.V274I	GYG1_uc011bnp.1_3'UTR|GYG1_uc003ewo.2_Missense_Mutation_p.V274I|GYG1_uc003ewp.2_Intron	NM_004130	NP_004121	P46976	GLYG_HUMAN	glycogenin 1	274					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	glycogenin glucosyltransferase activity|metal ion binding|protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			CTGCTCATATGTAAATGTGGT	0.363													53	32					0	0	1	0	0		A	148742051	A	A	148742051	3	1	102	1	0	0	0	0	1	0	0	0	6921	1377	48	4	842	4	GYG1	3	148742051	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	26111258	148742051	49280379	37	61837											
TNIK	23043	broad.mit.edu	37	chr3	170805248	170805248	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggttgatgtggccagcAaagccattgctgtcactgtg	8	10	15	8	0	1	1	1	1	0	0	1	2	1	2	2	3	3	3	2	3	1	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr3:170805248A>G	uc003fhh.2	-	24	3114	c.2769T>C	c.(2767-2769)TTT>TTC	p.F923F	TNIK_uc003fhi.2_Silent_p.F868F|TNIK_uc003fhj.2_Silent_p.F894F|TNIK_uc003fhk.2_Silent_p.F915F|TNIK_uc003fhl.2_Silent_p.F839F|TNIK_uc003fhm.2_Silent_p.F860F|TNIK_uc003fhn.2_Silent_p.F886F|TNIK_uc003fho.2_Silent_p.F831F|TNIK_uc003fhg.2_Silent_p.F101F	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	923	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			TGTGGCCAGCAAAGCCATTGC	0.597													17	218					0	0	1	0	0		G	170805248	G	G	170805248	2	3	102	1	0	0	0	0	0	0	0	1	16338	127	5	3		3	TNIK	3	170805248	Silent	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	22063197	170805248	27217182	38	61838											
SHISA3	152573	broad.mit.edu	37	chr4	42403249	42403249	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggcagtccagcacagccacGagctccagctccacaggcgg	9	3	12	17	3	0	0	0	0	0	0	3	1	3	0	4	3	4	4	4	3	0	0			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr4:42403249G>A	uc003gwp.2	+	2	716	c.498G>A	c.(496-498)ACG>ACA	p.T166T		NM_001080505	NP_001073974	A0PJX4	SHSA3_HUMAN	shisa homolog 3 precursor	166	Cytoplasmic (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|skin(1)	2						GCACAGCCACGAGCTCCAGCT	0.672													61	59					0	0	1	0	0		A	42403249	A	A	42403249	2	1	102	1	0	0	0	0	0	0	0	1	14306	1045	37	1		1	SHISA3	4	42403249	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08		42403249	148751027	39	61839											
KCTD8	386617	broad.mit.edu	37	chr4	44449773	44449773	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggctgccggtcggggtcGcggctctcgttgagcgtgtc	1	10	17	13	7	1	1	0	1	1	0	6	1	2	1	2	5	2	3	2	5	0	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr4:44449773G>A	uc003gwu.2	-	1	1052	c.768C>T	c.(766-768)CGC>CGT	p.R256R		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	256						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						GGTCGGGGTCGCGGCTCTCGT	0.652										HNSCC(17;0.042)			7	16					0	0	1	0	0		A	44449773	A	A	44449773	2	1	102	1	0	0	0	0	0	0	0	1	8131	1074	38	1		1	KCTD8	4	44449773	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	2046524	44449773	146704503	40	61840											
CWH43	80157	broad.mit.edu	37	chr4	48993570	48993570	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgcaagctgtgacttggtGgtcaggaagtcatttgcaaa	11	11	13	6	0	2	1	2	1	0	0	2	2	2	2	0	3	3	3	0	3	3	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr4:48993570G>T	uc003gyv.2	+	3	517	c.335G>T	c.(334-336)TGG>TTG	p.W112L	CWH43_uc011bzl.1_Missense_Mutation_p.W85L	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	112	Helical; (Potential).				GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						GTGACTTGGTGGTCAGGAAGT	0.473													58	32					1.13205e-32	1.25861e-32	1	1	0		T	48993570	T	T	48993570	3	4	102	1	0	0	0	0	1	0	0	0	4076	1357	47	5	345	5	CWH43	4	48993570	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	4543797	48993570	142160706	41	61841											
DCUN1D4	23142	broad.mit.edu	37	chr4	52779533	52779533	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaacaattaatcttgacctCagcaactatgatgaagatgg	16	10	8	7	0	2	5	1	3	1	2	2	5	2	5	1	1	3	1	1	1	6	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr4:52779533C>T	uc003gze.2	+	10	931	c.798C>T	c.(796-798)CTC>CTT	p.L266L	DCUN1D4_uc003gzf.2_Silent_p.L231L|DCUN1D4_uc011bzn.1_Silent_p.L206L|DCUN1D4_uc003gzg.2_RNA|DCUN1D4_uc003gzh.2_RNA|DCUN1D4_uc011bzo.1_Silent_p.L310L	NM_001040402	NP_001035492	Q92564	DCNL4_HUMAN	DCN1, defective in cullin neddylation 1, domain	266	DCUN1.									ovary(2)	2			GBM - Glioblastoma multiforme(4;1.93e-11)|LUSC - Lung squamous cell carcinoma(32;0.00654)			ATCTTGACCTCAGCAACTATG	0.388													12	20					0	0	1	0	0		T	52779533	T	T	52779533	2	4	102	1	0	0	0	0	0	0	0	1	4319	813	29	4		4	DCUN1D4	4	52779533	Silent	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	3785963	52779533	138374743	42	61842											
EPHA5	2044	broad.mit.edu	37	chr4	66356300	66356300	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacacacacctgcatgggaGttgcacttcttgcatgcaat	10	11	8	12	0	2	0	1	0	1	0	2	1	2	1	1	1	4	5	1	1	1	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr4:66356300G>A	uc003hcy.2	-	5	1390	c.1197C>T	c.(1195-1197)AAC>AAT	p.N399N	EPHA5_uc003hcx.2_Silent_p.N330N|EPHA5_uc003hcz.2_Silent_p.N399N|EPHA5_uc011cah.1_Silent_p.N399N|EPHA5_uc011cai.1_Silent_p.N399N|EPHA5_uc003hda.2_Silent_p.N399N	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	399	Fibronectin type-III 1.|Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CTGCATGGGAGTTGCACTTCT	0.488										TSP Lung(17;0.13)			7	37					0	0	1	0	0		A	66356300	A	A	66356300	2	1	102	1	0	0	0	0	0	0	0	1	5178	1020	36	4		4	EPHA5	4	66356300	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	13576767	66356300	124797976	43	61843											
ANK2	287	broad.mit.edu	37	chr4	114204000	114204000	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttaccttgcttctggataAgggagccaatatccacatgt	10	12	10	9	0	1	0	0	0	1	0	2	2	2	2	3	3	3	2	3	3	4	5			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr4:114204000A>G	uc003ibe.3	+	18	2151	c.2051A>G	c.(2050-2052)AAG>AGG	p.K684R	ANK2_uc003ibd.3_Missense_Mutation_p.K663R|ANK2_uc003ibf.3_Missense_Mutation_p.K684R|ANK2_uc003ibc.2_Missense_Mutation_p.K660R|ANK2_uc011cgb.1_Missense_Mutation_p.K699R	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	684	ANK 20.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CTTCTGGATAAGGGAGCCAAT	0.453													22	31					0	0	1	0	0		G	114204000	G	G	114204000	3	3	102	1	0	0	0	0	1	0	0	0	621	72	3	3	2146	3	ANK2	4	114204000	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	47847700	114204000	76950276	44	61844											
NPY2R	4887	broad.mit.edu	37	chr4	156135406	156135406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaacactctgtgtctaccGttcactcttacctatacctt	8	15	5	13	1	4	1	1	1	3	0	4	1	4	1	3	0	4	1	3	0	5	6	rs148709959	byFrequency	TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr4:156135406G>A	uc003ioq.2	+	2	810	c.315G>A	c.(313-315)CCG>CCA	p.P105P	NPY2R_uc003ior.2_Silent_p.P105P	NM_000910	NP_000901	P49146	NPY2R_HUMAN	neuropeptide Y receptor Y2	105	Helical; Name=2; (Potential).				cardiac left ventricle morphogenesis|inhibition of adenylate cyclase activity by G-protein signaling pathway|locomotory behavior|outflow tract morphogenesis	integral to plasma membrane	calcium channel regulator activity			lung(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0854)				TGTGTCTACCGTTCACTCTTA	0.493													21	23					0	0	1	0	0		A	156135406	A	A	156135406	2	1	102	1	0	0	0	0	0	0	0	1	10628	1132	40	1		1	NPY2R	4	156135406	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	41931406	156135406	35018870	45	61845											
PDGFC	56034	broad.mit.edu	37	chr4	157771437	157771437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaacgtaagttgtatccataCattttcctctactgctacta	12	15	4	10	1	1	0	0	0	1	0	3	0	3	0	2	0	5	4	2	0	7	9			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr4:157771437C>T	uc003iph.1	-	2	741	c.250G>A	c.(250-252)GTA>ATA	p.V84I	PDGFC_uc003ipi.1_5'UTR|PDGFC_uc011cis.1_Intron|PDGFC_uc011cir.1_5'UTR	NM_016205	NP_057289	Q9NRA1	PDGFC_HUMAN	platelet-derived growth factor C precursor	84	CUB.				central nervous system development|platelet-derived growth factor receptor signaling pathway|positive regulation of cell division|positive regulation of DNA replication|positive regulation of fibroblast proliferation|vascular endothelial growth factor receptor signaling pathway	endoplasmic reticulum lumen|extracellular space|Golgi membrane|nucleus	cell surface binding|growth factor activity|platelet-derived growth factor receptor binding|protein homodimerization activity			ovary(1)|lung(1)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.08)|Kidney(143;0.0977)|COAD - Colon adenocarcinoma(41;0.212)		TGTATCCATACATTTTCCTCT	0.378													8	36					0	0	1	0	0		T	157771437	T	T	157771437	3	4	102	1	0	0	0	0	1	0	0	0	11678	478	17	4	807	4	PDGFC	4	157771437	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	1636031	157771437	33382839	46	61846											
SC4MOL	6307	broad.mit.edu	37	chr4	166258981	166258981	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccaatggaagtgtttcaAagttcttctctttaatcact	13	15	5	8	0	4	0	2	0	2	0	5	1	4	1	1	1	1	2	1	1	5	5	rs141811636	byFrequency	TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr4:166258981A>G	uc003ire.2	+	3	426	c.296A>G	c.(295-297)AAA>AGA	p.K99R	SC4MOL_uc010irb.2_Missense_Mutation_p.K99R|SC4MOL_uc003irf.2_5'UTR	NM_006745	NP_006736	Q15800	ERG25_HUMAN	sterol-C4-methyl oxidase-like isoform 1	99					cholesterol biosynthetic process|fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	C-4 methylsterol oxidase activity|iron ion binding				0	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0875)	NADH(DB00157)	AAGTGTTTCAAAGTTCTTCTC	0.343													4	55					0	0	1	0	0		G	166258981	G	G	166258981	3	3	102	1	0	0	0	0	1	0	0	0	13890	14	1	3	302	3	SC4MOL	4	166258981	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	8487544	166258981	24895295	47	61847											
GPM6A	2823	broad.mit.edu	37	chr4	176622915	176622915	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttgatacagcattcaaaaCaccctgtagaagatcacaaa	18	9	5	9	0	2	3	2	1	0	2	2	3	2	3	1	0	3	2	1	0	6	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr4:176622915C>A	uc003iuf.2	-	2	845	c.41G>T	c.(40-42)TGT>TTT	p.C14F	GPM6A_uc011ckj.1_Missense_Mutation_p.C7F|GPM6A_uc003iug.2_Missense_Mutation_p.C14F|GPM6A_uc003iuh.2_Missense_Mutation_p.C3F	NM_201591	NP_963885	P51674	GPM6A_HUMAN	glycoprotein M6A isoform 2	14	Cytoplasmic (Potential).					cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)		GCATTCAAAACACCCTGTAGA	0.423													11	36					2.27111e-07	2.36354e-07	1	1	0		A	176622915	A	A	176622915	3	1	102	1	0	0	0	0	1	0	0	0	6630	478	17	5	819	5	GPM6A	4	176622915	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	10363934	176622915	14531361	48	61848											
ADAMTS16	170690	broad.mit.edu	37	chr5	5186212	5186212	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcatcttgccagatgagTataagtcttgcttacggcat	9	15	8	9	1	4	2	1	1	3	1	4	2	4	2	1	1	3	3	1	1	3	6			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr5:5186212T>A	uc003jdl.2	+	5	949	c.811T>A	c.(811-813)TAT>AAT	p.Y271N	ADAMTS16_uc003jdk.1_Missense_Mutation_p.Y271N|ADAMTS16_uc003jdj.1_Missense_Mutation_p.Y271N	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	271					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GCCAGATGAGTATAAGTCTTG	0.483													40	134					0	0	1	0	0		A	5186212	A	A	5186212	3	1	102	1	0	0	0	0	1	0	0	0	261	1638	57	5	829	5	ADAMTS16	5	5186212	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08		5186212	175729048	49	61849											
SPEF2	79925	broad.mit.edu	37	chr5	35667221	35667221	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgaagaacaattccttaaAgaaaagagatttcatgatca	18	12	6	5	0	2	5	2	2	0	3	3	6	3	5	1	0	1	0	1	0	7	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr5:35667221A>G	uc003jjo.2	+	9	1326	c.1215A>G	c.(1213-1215)AAA>AAG	p.K405K	SPEF2_uc003jjn.1_Silent_p.K405K|SPEF2_uc003jjq.3_Silent_p.K405K	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	405					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AATTCCTTAAAGAAAAGAGAT	0.303													55	13					0	0	1	0	0		G	35667221	G	G	35667221	2	3	102	1	0	0	0	0	0	0	0	1	15060	69	3	3		3	SPEF2	5	35667221	Silent	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	30481009	35667221	145248039	50	61850											
GDNF	2668	broad.mit.edu	37	chr5	37834836	37834836	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcctcttaccggcgggcagCgggaaggcggacgcggtgtg	5	5	20	11	6	1	0	0	0	1	0	1	2	1	2	2	7	2	1	2	7	2	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr5:37834836C>T	uc011cpi.1	-	2	263	c.63G>A	c.(61-63)CCG>CCA	p.P21P	GDNF_uc011cpc.1_Missense_Mutation_p.A19T|GDNF_uc011cpd.1_5'UTR|GDNF_uc011cpe.1_Silent_p.P21P|GDNF_uc011cpf.1_Silent_p.P21P|GDNF_uc011cpg.1_Silent_p.P38P|GDNF_uc011cph.1_Silent_p.P38P	NM_000514	NP_000505	P39905	GDNF_HUMAN	glial cell derived neurotrophic factor isoform 1	21			P -> S (in HSCR3; could be a polymorphism).		adult locomotory behavior|anti-apoptosis|axon guidance|branching involved in ureteric bud morphogenesis|enteric nervous system development|mRNA stabilization|negative regulation of neuron apoptosis|neural crest cell migration|peristalsis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of dopamine secretion|positive regulation of monooxygenase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|postganglionic parasympathetic nervous system development|regulation of dopamine uptake|signal transduction|sympathetic nervous system development	extracellular region	growth factor activity|protein homodimerization activity				0	all_lung(31;0.00118)					CGGCGGGCAGCGGGAAGGCGG	0.697													22	117					0	0	1	0	0		T	37834836	T	T	37834836	2	4	102	1	0	0	0	0	0	0	0	1	6337	755	27	1		1	GDNF	5	37834836	Silent	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	2167615	37834836	143080424	51	61851											
EGFLAM	133584	broad.mit.edu	37	chr5	38258870	38258870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcgaaatggatttaatccGaggcgtcttgctccggctcc	7	11	11	12	4	1	0	0	0	1	0	4	3	4	1	3	3	2	2	3	3	2	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr5:38258870G>A	uc003jlc.1	+	1	338	c.14G>A	c.(13-15)CGA>CAA	p.R5Q	EGFLAM_uc003jlb.1_Missense_Mutation_p.R5Q	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	5						cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					GATTTAATCCGAGGCGTCTTG	0.682													3	40					0	0	1	0	0		A	38258870	A	A	38258870	3	1	102	1	0	0	0	0	1	0	0	0	4972	1058	37	1	16	1	EGFLAM	5	38258870	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	424034	38258870	142656390	52	61852											
SKIV2L2	23517	broad.mit.edu	37	chr5	54649063	54649063	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagaactgttttatttacaaAtgcccgcaaatttgatggga	13	14	8	6	1	0	2	0	1	0	1	0	3	0	3	1	1	3	2	1	1	6	6			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr5:54649063A>G	uc003jpy.3	+	14	1765	c.1499A>G	c.(1498-1500)AAT>AGT	p.N500S	SKIV2L2_uc011cqi.1_Missense_Mutation_p.N399S	NM_015360	NP_056175	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2	500	Helicase C-terminal.				maturation of 5.8S rRNA	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(1)|skin(1)	2		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				TTATTTACAAATGCCCGCAAA	0.328													17	71					0	0	1	0	0		G	54649063	G	G	54649063	3	3	102	1	0	0	0	0	1	0	0	0	14385	101	4	3	1553	3	SKIV2L2	5	54649063	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	16390193	54649063	126266197	53	61853											
APBB3	10307	broad.mit.edu	37	chr5	139940666	139940666	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacttctgagcagcttggcTtaccgcatccagcagctcca	8	10	9	14	1	1	1	0	1	1	0	3	1	3	1	3	1	6	7	3	1	2	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr5:139940666T>G	uc003lgd.1	-	9	1227	c.868A>C	c.(868-870)AGC>CGC	p.S290R	SRA1_uc010jfm.2_5'Flank|SRA1_uc003lga.2_5'Flank|APBB3_uc003lgb.1_Missense_Mutation_p.S62R|APBB3_uc003lgc.1_Missense_Mutation_p.S62R|APBB3_uc003lge.1_Missense_Mutation_p.S283R|APBB3_uc003lgf.1_RNA|APBB3_uc010jfp.1_RNA|APBB3_uc011czi.1_Missense_Mutation_p.S62R|APBB3_uc010jfq.1_Missense_Mutation_p.S62R	NM_133172	NP_573418	O95704	APBB3_HUMAN	amyloid beta precursor protein-binding, family	285	PID 2.					actin cytoskeleton|cytoplasm				ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAGCTTGGCTTACCGCATCC	0.552													113	111					0	0	1	0	0		G	139940666	G	G	139940666	3	3	102	1	0	0	0	0	1	0	0	0	762	1609	56	5	623	5	APBB3	5	139940666	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	85291603	139940666	40974594	54	61854											
PCDHB6	56130	broad.mit.edu	37	chr5	140531624	140531624	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtggacggcgactcgggcCagaacgcctggctgtcgtac	6	6	16	13	6	0	1	0	0	0	1	2	3	0	2	2	5	2	2	2	5	2	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr5:140531624C>A	uc003lir.2	+	1	1786	c.1786C>A	c.(1786-1788)CAG>AAG	p.Q596K	PCDHB6_uc011dah.1_Missense_Mutation_p.Q460K	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	596	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGACTCGGGCCAGAACGCCTG	0.716													41	35					2.02627e-32	2.23891e-32	1	1	0		A	140531624	A	A	140531624	3	1	102	1	0	0	0	0	1	0	0	0	11565	595	21	5	1788	5	PCDHB6	5	140531624	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	590958	140531624	40383636	55	61855											
TRIM7	81786	broad.mit.edu	37	chr5	180622459	180622459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttcggcgcacgctctcgcGggccacgccaaaggcccagc	6	5	12	18	6	1	0	0	0	1	0	3	0	1	0	3	3	1	2	3	3	1	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr5:180622459G>A	uc003mmz.1	-	7	1310	c.1243C>T	c.(1243-1245)CGC>TGC	p.R415C	TRIM7_uc003mmv.1_Missense_Mutation_p.R233C|TRIM7_uc003mmw.1_Missense_Mutation_p.R207C|TRIM7_uc003mmx.1_Missense_Mutation_p.R207C|TRIM7_uc003mmy.1_Missense_Mutation_p.R207C	NM_203293	NP_976038	Q9C029	TRIM7_HUMAN	tripartite motif-containing 7 isoform 1	415	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;6.03e-06)|all_epithelial(37;7.1e-07)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000172)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;2e-06)|Epithelial(171;1.35e-05)|OV - Ovarian serous cystadenocarcinoma(192;0.000128)|Kidney(146;0.0674)|GBM - Glioblastoma multiforme(465;0.0802)		ACGCTCTCGCGGGCCACGCCA	0.711													5	12					0	0	1	0	0		A	180622459	A	A	180622459	3	1	102	1	0	0	0	0	1	0	0	0	16569	1116	39	1	296	1	TRIM7	5	180622459	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	40090835	180622459	292801	56	61856											
TDRD6	221400	broad.mit.edu	37	chr6	46657611	46657611	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaatgtggactggtatgaCgtaaggatgctgcttcctca	11	11	12	7	1	1	1	1	1	0	0	2	4	2	3	1	3	2	4	1	3	4	3	rs143534526		TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr6:46657611C>T	uc003oyj.2	+	1	1746	c.1746C>T	c.(1744-1746)GAC>GAT	p.D582D	TDRD6_uc010jze.2_Silent_p.D576D	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	582	Tudor 3.				cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			ACTGGTATGACGTAAGGATGC	0.453													14	178					0	0	1	0	0		T	46657611	T	T	46657611	2	4	102	1	0	0	0	0	0	0	0	1	15759	535	19	1		1	TDRD6	6	46657611	Silent	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08		46657611	124457456	57	61857											
SIM1	6492	broad.mit.edu	37	chr6	100897520	100897520	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgagcaccgccgtcatcTcgtcgtggtctgccgggtga	4	9	15	13	6	3	2	1	2	2	0	5	2	3	2	3	3	2	1	3	3	0	0			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr6:100897520T>A	uc003pqj.3	-	4	611	c.404A>T	c.(403-405)GAG>GTG	p.E135V	SIM1_uc010kcu.2_Missense_Mutation_p.E135V	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	135	PAS 1.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		CGCCGTCATCTCGTCGTGGTC	0.592													29	52					0	0	1	0	0		A	100897520	A	A	100897520	3	1	102	1	0	0	0	0	1	0	0	0	14348	1551	54	5	1928	5	SIM1	6	100897520	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	54239909	100897520	70217547	58	61858											
RNF217	154214	broad.mit.edu	37	chr6	125402621	125402621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acctctaattatggttttggGattggcactaggggccatag	9	13	12	7	0	1	0	0	0	1	0	1	1	1	1	2	5	0	2	2	5	4	7	rs137981529		TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr6:125402621G>A	uc003pzs.2	+	7	985	c.647G>A	c.(646-648)GGA>GAA	p.G216E	RNF217_uc003pzr.2_Missense_Mutation_p.G273E|RNF217_uc003pzt.2_RNA	NM_152553	NP_689766	Q8TC41	RN217_HUMAN	ring finger protein 217	216	Helical; (Potential).				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)		ATGGTTTTGGGATTGGCACTA	0.363													11	41					0	0	1	0	0		A	125402621	A	A	125402621	3	1	102	1	0	0	0	0	1	0	0	0	13506	1174	41	4	665	4	RNF217	6	125402621	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	24505101	125402621	45712446	59	61859											
ENPP1	5167	broad.mit.edu	37	chr6	132194115	132194115	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgaaacatttcttacctaAgcgtttgcactttgctaaga	11	14	6	10	1	1	2	0	1	1	1	1	2	1	2	2	0	5	3	2	0	4	6			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr6:132194115A>C	uc011ecf.1	+	15	1510	c.1490A>C	c.(1489-1491)AAG>ACG	p.K497T	ENPP1_uc003qcy.2_Missense_Mutation_p.K127T	NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	497	Phosphodiesterase.|Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	TTCTTACCTAAGCGTTTGCAC	0.403													115	154					0	0	1	0	0		C	132194115	C	C	132194115	3	2	102	1	0	0	0	0	1	0	0	0	5137	72	3	5	1548	5	ENPP1	6	132194115	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	6791494	132194115	38920952	60	61860											
SGK1	6446	broad.mit.edu	37	chr6	134494621	134494621	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttccaaaactgccctttccGatcactttcaagaagtgaaa	13	12	5	11	1	2	2	2	1	0	1	4	3	4	2	3	0	2	0	3	0	5	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr6:134494621G>A	uc003qen.3	-	4	401	c.312C>T	c.(310-312)ATC>ATT	p.I104I	SGK1_uc003qeo.3_Silent_p.I199I|SGK1_uc011ect.1_Silent_p.I94I|SGK1_uc011ecu.1_Silent_p.I104I|SGK1_uc011ecv.1_Silent_p.I118I|SGK1_uc011ecw.1_Silent_p.I132I	NM_005627	NP_005618	O00141	SGK1_HUMAN	serum/glucocorticoid regulated kinase 1 isoform	104	ATP (By similarity).|Protein kinase.				apoptosis|response to stress|sodium ion transport	endoplasmic reticulum|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(3)|stomach(1)|lung(1)|central_nervous_system(1)	6	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00317)|GBM - Glioblastoma multiforme(68;0.00847)		TGCCCTTTCCGATCACTTTCA	0.393													17	139					0	0	1	0	0		A	134494621	A	A	134494621	2	1	102	1	0	0	0	0	0	0	0	1	14232	1048	37	1		1	SGK1	6	134494621	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	2300506	134494621	36620446	61	61861											
PARK2	5071	broad.mit.edu	37	chr6	161990446	161990447	+	Frame_Shift_Ins	INS	-	T	T																															atcaaggagttgggacagccINSagctgttggaaagaagaatt																										TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr6:161990446_161990447insT	uc003qtx.3	-	8	1007_1008	c.873_874insA	c.(871-876)GCTGGCfs	p.A291fs	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Frame_Shift_Ins_p.A100fs|PARK2_uc003qtw.3_Frame_Shift_Ins_p.A100fs|PARK2_uc003qty.3_Frame_Shift_Ins_p.A263fs|PARK2_uc003qtz.3_Frame_Shift_Ins_p.A142fs|PARK2_uc010kke.1_Frame_Shift_Ins_p.A310fs|PARK2_uc011egf.1_5'UTR	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	291_292	SYT11 binding 2.|RING-type 1; atypical.				aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		TTGGGACAGCCAGCTGTTGGAA	0.431													31	33	---	---	---	---						.	T	161990447	T	T	161990446	7	5	102	1	0	1	1	0	0	0	0	0	11468	594	21	0	543	0	PARK2	6	161990446	Frame_Shift_Ins	INS	-	TCGA-BR-A4QI-01A-12D-A25D-08	27495825	161990446	9124621	62	61862											
SDK1	221935	broad.mit.edu	37	chr7	4002413	4002413	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgcgtccagaggactcCggaatcttccagtgcttcgc	8	9	11	13	3	1	1	0	0	1	1	5	3	4	3	3	2	3	2	3	2	2	2	rs141891693	byFrequency	TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr7:4002413C>T	uc003smx.2	+	9	1498	c.1359C>T	c.(1357-1359)TCC>TCT	p.S453S		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	453	Ig-like C2-type 4.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CAGAGGACTCCGGAATCTTCC	0.577													13	28					0	0	1	0	0		T	4002413	T	T	4002413	2	4	102	1	0	0	0	0	0	0	0	1	13993	639	23	1		1	SDK1	7	4002413	Silent	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08		4002413	155136250	63	61863											
TRIL	9865	broad.mit.edu	37	chr7	28996249	28996249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcctaccagctccctggCggccccatcccaggccaccc	5	6	9	21	1	0	0	0	0	0	0	2	0	2	0	8	3	3	2	8	3	1	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr7:28996249C>T	uc003szt.2	-	3	1781	c.1414G>A	c.(1414-1416)GCC>ACC	p.A472T	uc003szu.1_5'Flank	NM_014817	NP_055632	Q7L0X0	TRIL_HUMAN	TLR4 interactor with leucine rich repeats	472	Extracellular (Potential).				inflammatory response|innate immune response|regulation of cytokine production involved in immune response|toll-like receptor 4 signaling pathway	lipopolysaccharide receptor complex	lipopolysaccharide binding				0						AGCTCCCTGGCGGCCCCATCC	0.751													6	36					0	0	1	0	0		T	28996249	T	T	28996249	3	4	102	1	0	0	0	0	1	0	0	0	16511	768	27	1	1025	1	TRIL	7	28996249	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	24993836	28996249	130142414	64	61864											
CCDC129	223075	broad.mit.edu	37	chr7	31690769	31690769	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcagtgcacagtccatgAgatggaagccatgaagacga	13	8	11	9	1	1	3	1	2	1	2	3	6	2	4	2	1	2	1	2	1	2	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr7:31690769A>T	uc003tcj.1	+	12	3590	c.2597A>T	c.(2596-2598)GAG>GTG	p.E866V	CCDC129_uc011kad.1_Missense_Mutation_p.E876V|CCDC129_uc003tci.1_Missense_Mutation_p.E717V|CCDC129_uc011kae.1_Missense_Mutation_p.E892V|CCDC129_uc003tck.1_Missense_Mutation_p.E774V	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	866											0						ACAGTCCATGAGATGGAAGCC	0.478													25	116					0	0	1	0	0		T	31690769	T	T	31690769	3	4	102	1	0	0	0	0	1	0	0	0	2767	304	11	5	2639	5	CCDC129	7	31690769	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	2694520	31690769	127447894	65	61865											
BMPER	168667	broad.mit.edu	37	chr7	34118544	34118544	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatttaactttcaggggaCgtgtcagtacgttttgacaa	11	13	10	7	2	2	1	2	1	0	0	2	3	2	2	0	2	2	2	0	2	3	6			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr7:34118544C>T	uc011kap.1	+	12	1268	c.1154C>T	c.(1153-1155)ACG>ATG	p.T385M		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	385	VWFD.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						TTTCAGGGGACGTGTCAGTAC	0.572													50	134					0	0	1	0	0		T	34118544	T	T	34118544	3	4	102	1	0	0	0	0	1	0	0	0	1469	536	19	1	1200	1	BMPER	7	34118544	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	2427775	34118544	125020119	66	61866											
STARD3NL	83930	broad.mit.edu	37	chr7	38247172	38247172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagctcccatgcttctctgCgcaatatccattccatcaac	10	11	5	15	1	2	1	1	0	1	1	6	1	5	1	3	0	4	3	3	0	3	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr7:38247172C>T	uc003tfr.2	+	2	215	c.67C>T	c.(67-69)CGC>TGC	p.R23C	STARD3NL_uc003tfs.2_Missense_Mutation_p.R23C|STARD3NL_uc003tft.2_Missense_Mutation_p.R23C	NM_032016	NP_114405	O95772	MENTO_HUMAN	MLN64 N-terminal homolog	23	Cytoplasmic (Potential).					integral to membrane|late endosome membrane				ovary(1)	1						TGCTTCTCTGCGCAATATCCA	0.517													19	102					0	0	1	0	0		T	38247172	T	T	38247172	3	4	102	1	0	0	0	0	1	0	0	0	15283	768	27	1	69	1	STARD3NL	7	38247172	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	4128628	38247172	120891491	67	61867											
ACHE	43	broad.mit.edu	37	chr7	100490818	100490818	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagtctcccgcgttgatgaGggcctctggggtgtcactga	6	10	15	10	2	3	3	1	3	2	0	4	4	3	3	2	3	0	1	2	3	1	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr7:100490818G>T	uc003uxd.2	-	1	1192	c.1036C>A	c.(1036-1038)CTC>ATC	p.L346I	ACHE_uc003uxe.2_Missense_Mutation_p.L346I|ACHE_uc003uxf.2_Missense_Mutation_p.L346I|ACHE_uc003uxg.2_Missense_Mutation_p.L346I|ACHE_uc003uxh.2_Missense_Mutation_p.L346I|ACHE_uc003uxi.2_Missense_Mutation_p.L346I|ACHE_uc003uxj.1_Missense_Mutation_p.L465I	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	346					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	GCGTTGATGAGGGCCTCTGGG	0.612													4	57					0.00024832	0.000252553	1	1	0		T	100490818	T	T	100490818	3	4	102	1	0	0	0	0	1	0	0	0	141	1000	35	5	959	5	ACHE	7	100490818	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	62243646	100490818	58647845	68	61868											
MUC17	140453	broad.mit.edu	37	chr7	100677488	100677488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccattaacaagtatgcctGacagcaccacgccggtagtc	11	8	8	14	2	0	1	0	1	0	0	2	1	1	1	4	1	3	3	4	1	4	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr7:100677488G>A	uc003uxp.1	+	3	2844	c.2791G>A	c.(2791-2793)GAC>AAC	p.D931N	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	931	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|13.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AAGTATGCCTGACAGCACCAC	0.507													71	660					0	0	1	0	0		A	100677488	A	A	100677488	3	1	102	1	0	0	0	0	1	0	0	0	9992	1290	45	4	2801	4	MUC17	7	100677488	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	186670	100677488	58461175	69	61869											
PSMC2	5701	broad.mit.edu	37	chr7	102994396	102994396	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagggggatattgccttgttGaaaacttatgtaagtccttt	10	15	11	5	0	0	1	0	1	0	0	1	3	1	2	2	2	2	2	2	2	5	7			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr7:102994396G>C	uc003vbs.2	+	2	169	c.99G>C	c.(97-99)TTG>TTC	p.L33F	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011kln.1_Missense_Mutation_p.L33F|PSMC2_uc011klo.1_5'UTR	NM_002803	NP_002794	P35998	PRS7_HUMAN	proteasome 26S ATPase subunit 2	33					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0						TTGCCTTGTTGAAAACTTATG	0.303													11	16					0	0	1	0	0		C	102994396	C	C	102994396	3	2	102	1	0	0	0	0	1	0	0	0	12708	1281	45	5	105	5	PSMC2	7	102994396	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	2316908	102994396	56144267	70	61870											
ZNF777	27153	broad.mit.edu	37	chr7	149129715	149129715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcggaagctcttgccgcactCcatgcatgtgaagggccgct	7	8	13	13	3	1	1	0	1	1	0	2	2	2	2	3	2	3	4	3	2	2	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr7:149129715C>T	uc003wfv.2	-	6	1811	c.1648G>A	c.(1648-1650)GAG>AAG	p.E550K		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	550	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			TTGCCGCACTCCATGCATGTG	0.662													4	10					0	0	1	0	0		T	149129715	T	T	149129715	3	4	102	1	0	0	0	0	1	0	0	0	18175	864	30	4	851	4	ZNF777	7	149129715	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	46135319	149129715	10008948	71	61871											
HR	55806	broad.mit.edu	37	chr8	21983209	21983209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggcatggtatgtcctgaagtCccgggtcctggagactggcc	6	9	15	11	1	0	2	0	1	0	1	3	3	3	2	4	5	0	2	4	5	2	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr8:21983209C>T	uc003xas.2	-	4	2107	c.1442G>A	c.(1441-1443)GGA>GAA	p.G481E	HR_uc003xat.2_Missense_Mutation_p.G481E	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	481							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		GTCCTGAAGTCCCGGGTCCTG	0.597													5	10					0	0	1	0	0		T	21983209	T	T	21983209	3	4	102	1	0	0	0	0	1	0	0	0	7363	855	30	4	2191	4	HR	8	21983209	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08		21983209	124380813	72	61872											
PREX2	80243	broad.mit.edu	37	chr8	68939478	68939478	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcatgctgcttggaggaCggaagaacacagatgttccc	11	8	12	10	1	0	2	0	0	0	2	1	5	1	5	1	3	4	4	1	3	2	2	rs139157434		TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr8:68939478C>T	uc003xxv.1	+	5	490	c.463C>T	c.(463-465)CGG>TGG	p.R155W	PREX2_uc003xxu.1_Missense_Mutation_p.R155W|PREX2_uc011lez.1_Missense_Mutation_p.R90W	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	155	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GCTTGGAGGACGGAAGAACAC	0.358													55	73					0	0	1	0	0		T	68939478	T	T	68939478	3	4	102	1	0	0	0	0	1	0	0	0	12499	527	19	1	481	1	PREX2	8	68939478	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	46956269	68939478	77424544	73	61873											
PI15	51050	broad.mit.edu	37	chr8	75737570	75737570	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcctactcaattccactgActcatccccgccaaccaata	11	9	3	18	2	2	1	2	1	0	0	5	1	5	1	6	0	2	0	6	0	5	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr8:75737570A>T	uc003yal.2	+	2	265	c.86A>T	c.(85-87)GAC>GTC	p.D29V	uc003yak.1_Intron|PI15_uc003yam.2_Missense_Mutation_p.D29V	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	29						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			AATTCCACTGACTCATCCCCG	0.488													124	109					0	0	1	0	0		T	75737570	T	T	75737570	3	4	102	1	0	0	0	0	1	0	0	0	11887	275	10	5	88	5	PI15	8	75737570	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	6798092	75737570	70626452	74	61874											
TRPS1	7227	broad.mit.edu	37	chr8	116631899	116631899	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtcatctgcctctgctctTtgcggagacttcaagggctc	5	12	12	12	1	5	1	2	0	3	1	6	2	5	1	1	3	3	2	1	3	1	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr8:116631899T>G	uc003ynz.2	-	2	846	c.387A>C	c.(385-387)CAA>CAC	p.Q129H	TRPS1_uc011lhy.1_Missense_Mutation_p.Q133H|TRPS1_uc003yny.2_Missense_Mutation_p.Q142H|TRPS1_uc010mcy.2_Missense_Mutation_p.Q129H	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	129					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			CCTCTGCTCTTTGCGGAGACT	0.527									Langer-Giedion_syndrome				27	78					0	0	1	0	0		G	116631899	G	G	116631899	3	3	102	1	0	0	0	0	1	0	0	0	16619	1838	64	5	3478	5	TRPS1	8	116631899	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	40894329	116631899	29732123	75	61875											
GPIHBP1	338328	broad.mit.edu	37	chr8	144297360	144297360	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgctcaacctccttgcCggccttggagcaatgggggc	5	9	12	15	1	1	0	1	0	0	0	3	1	3	1	5	4	4	2	5	4	2	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr8:144297360C>T	uc003yxu.1	+	4	597	c.522C>T	c.(520-522)GCC>GCT	p.A174A		NM_178172	NP_835466	Q8IV16	HDBP1_HUMAN	glycosylphosphatidylinositol anchored high	174	Helical; (Potential).				cholesterol homeostasis|intracellular protein transport|positive regulation of chylomicron remnant clearance|positive regulation of lipoprotein lipase activity|protein import|protein localization at cell surface|protein stabilization|response to heparin|triglyceride homeostasis	anchored to external side of plasma membrane|apical plasma membrane|basolateral plasma membrane|high-density lipoprotein particle|integral to membrane|intracellular	apolipoprotein binding|chylomicron binding|lipase binding|lipid binding|protein transmembrane transporter activity				0	all_cancers(97;6.49e-11)|all_epithelial(106;2.77e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					ACCTCCTTGCCGGCCTTGGAG	0.711													6	34					0	0	1	0	0		T	144297360	T	T	144297360	2	4	102	1	0	0	0	0	0	0	0	1	6627	639	23	1		1	GPIHBP1	8	144297360	Silent	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	27665461	144297360	2066662	76	61876											
IFNA5	3442	broad.mit.edu	37	chr9	21304767	21304767	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctctgacaacctcccaTgcacaagggctgtatttctt	8	13	7	13	0	3	1	0	1	3	0	4	1	4	1	2	1	3	4	2	1	3	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr9:21304767T>A	uc011lnh.1	-	1	489	c.489A>T	c.(487-489)GCA>GCT	p.A163A		NM_002169	NP_002160	P01569	IFNA5_HUMAN	interferon, alpha 5 precursor	163					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding			ovary(1)	1				Lung(24;2.34e-24)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		CAACCTCCCATGCACAAGGGC	0.408													131	133					0	0	1	0	0		A	21304767	A	A	21304767	2	1	102	1	0	0	0	0	0	0	0	1	7556	1451	51	5		5	IFNA5	9	21304767	Silent	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08		21304767	119908664	77	61877											
FRMD3	257019	broad.mit.edu	37	chr9	85863158	85863158	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaatcaaaaaggcgtttTcatctgcttccagatcctca	12	11	6	12	1	4	1	3	0	1	1	6	1	6	1	2	1	2	3	2	1	3	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr9:85863158T>G	uc004ams.1	-	14	1671	c.1469A>C	c.(1468-1470)GAA>GCA	p.E490A	FRMD3_uc004amr.1_Missense_Mutation_p.E476A|FRMD3_uc004amq.1_Missense_Mutation_p.E147A	NM_174938	NP_777598	A2A2Y4	FRMD3_HUMAN	FERM domain containing 3	490						cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2						AAAGGCGTTTTCATCTGCTTC	0.478													21	123					0	0	1	0	0		G	85863158	G	G	85863158	3	3	102	1	0	0	0	0	1	0	0	0	6064	1783	62	5	328	5	FRMD3	9	85863158	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	64558391	85863158	55350273	78	61878											
FAM129B	64855	broad.mit.edu	37	chr9	130279138	130279138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgggggtggctgcctacctCggatcttgctggcaaggtgc	5	9	16	11	2	1	0	0	0	1	0	2	1	1	1	2	6	4	3	2	6	2	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr9:130279138C>T	uc004brh.2	-	8	1173	c.971G>A	c.(970-972)CGA>CAA	p.R324Q	FAM129B_uc004bri.2_Missense_Mutation_p.R311Q|FAM129B_uc004brj.3_Missense_Mutation_p.R324Q	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	324							protein binding				0						CTGCCTACCTCGGATCTTGCT	0.547													143	253					0	0	1	0	0		T	130279138	T	T	130279138	3	4	102	1	0	0	0	0	1	0	0	0	5448	884	31	1	1297	1	FAM129B	9	130279138	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	44415980	130279138	10934293	79	61879											
KIAA0649	9858	broad.mit.edu	37	chr9	138377878	138377878	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagtgacgggtccctgtccGcaagcccactcttctactcc	6	9	9	17	2	2	1	0	1	2	0	5	1	5	1	4	1	2	2	4	1	2	2	rs142927502		TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr9:138377878G>T	uc004cfr.1	+	4	2071	c.1522G>T	c.(1522-1524)GCA>TCA	p.A508S		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	508						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		GTCCCTGTCCGCAAGCCCACT	0.602													23	73					3.5997e-14	3.85836e-14	1	1	0		T	138377878	T	T	138377878	3	4	102	1	0	0	0	0	1	0	0	0	8203	1087	38	5	1524	5	KIAA0649	9	138377878	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	8098740	138377878	2835553	80	61880											
CUBN	8029	broad.mit.edu	37	chr10	16911742	16911742	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcacatttggtgggcgcTtggaaccgcagaatttgcca	8	12	11	10	2	2	1	1	0	1	1	2	2	2	2	2	3	2	2	2	3	2	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr10:16911742T>A	uc001ioo.2	-	59	9399	c.9347A>T	c.(9346-9348)AAG>ATG	p.K3116M	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Missense_Mutation_p.K472M	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3116	CUB 23.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TGGTGGGCGCTTGGAACCGCA	0.493													22	163					0	0	1	0	0		A	16911742	A	A	16911742	3	1	102	1	0	0	0	0	1	0	0	0	4054	1609	56	5	1560	5	CUBN	10	16911742	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08		16911742	118623005	81	61881											
APBB1IP	54518	broad.mit.edu	37	chr10	26830559	26830559	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtttgaaaatgtcaacattTactatgggactcagcataaa	16	12	7	6	0	2	1	2	1	0	0	2	2	2	2	0	1	3	2	0	1	7	5			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr10:26830559T>C	uc001iss.2	+	11	1414	c.1093T>C	c.(1093-1095)TAC>CAC	p.Y365H	APBB1IP_uc009xks.1_Missense_Mutation_p.Y365H	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	365	PH.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						TGTCAACATTTACTATGGGAC	0.318													11	39					0	0	1	0	0		C	26830559	C	C	26830559	3	2	102	1	0	0	0	0	1	0	0	0	760	1754	61	3	1127	3	APBB1IP	10	26830559	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	9918817	26830559	108704188	82	61882											
MYPN	84665	broad.mit.edu	37	chr10	69881710	69881710	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaatcccacagctccaaaaGgattagacctcgtgcctgca	13	7	7	14	1	0	1	0	0	0	1	3	2	2	2	4	1	3	2	4	1	4	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr10:69881710G>C	uc001jnm.3	+	3	700	c.515G>C	c.(514-516)AGG>ACG	p.R172T	MYPN_uc001jnl.1_Missense_Mutation_p.R172T|MYPN_uc001jnn.3_Intron|MYPN_uc001jno.3_Missense_Mutation_p.R172T|MYPN_uc001jnp.1_Missense_Mutation_p.R172T|MYPN_uc009xps.2_Missense_Mutation_p.R172T|MYPN_uc009xpt.2_Missense_Mutation_p.R172T|MYPN_uc010qit.1_5'UTR|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	172	Interaction with CARP.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						AGCTCCAAAAGGATTAGACCT	0.403													6	71					0	0	1	0	0		C	69881710	C	C	69881710	3	2	102	1	0	0	0	0	1	0	0	0	10116	1000	35	5	517	5	MYPN	10	69881710	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	43051151	69881710	65653037	83	61883											
KIAA0913	23053	broad.mit.edu	37	chr10	75548519	75548519	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaagtttacccaccagtGcctgagcagctacagctccg	11	7	10	13	1	0	2	0	1	0	1	1	3	1	2	4	0	6	4	4	0	3	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr10:75548519G>A	uc009xrl.2	+	2	332	c.300G>A	c.(298-300)GTG>GTA	p.V100V	KIAA0913_uc001jve.2_Silent_p.V100V|KIAA0913_uc001jvf.2_Silent_p.V100V|KIAA0913_uc001jvh.2_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	100							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					ACCCACCAGTGCCTGAGCAGC	0.517													5	40					0	0	1	0	0		A	75548519	A	A	75548519	2	1	102	1	0	0	0	0	0	0	0	1	8216	1306	46	2		2	KIAA0913	10	75548519	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	5666809	75548519	59986228	84	61884											
EIF5AL1	143244	broad.mit.edu	37	chr10	81272670	81272670	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaacatcaaaaggaatgacTtccagctgattggcatccag	14	8	8	11	0	1	2	1	2	0	0	3	3	3	3	3	2	2	2	3	2	4	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr10:81272670T>C	uc009xrx.2	+	1	314	c.265T>C	c.(265-267)TTC>CTC	p.F89L	uc010qls.1_5'Flank	NM_001099692	NP_001093162	Q6IS14	IF5AL_HUMAN	eukaryotic translation initiation factor 5A-like	89					mRNA transport|peptidyl-lysine modification to hypusine|positive regulation of translational elongation|positive regulation of translational termination|protein transport|translational frameshifting|transmembrane transport	endoplasmic reticulum membrane|nuclear pore	ribosome binding|translation elongation factor activity				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			AAGGAATGACTTCCAGCTGAT	0.498													7	45					0	0	1	0	0		C	81272670	C	C	81272670	3	2	102	1	0	0	0	0	1	0	0	0	5051	1609	56	3	267	3	EIF5AL1	10	81272670	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	5724151	81272670	54262077	85	61885											
LRIT1	26103	broad.mit.edu	37	chr10	85994113	85994113	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagagtcggcagtcacatGcccaggggttgtcctgtagc	8	9	13	11	1	1	1	1	0	0	1	3	1	2	1	2	3	2	3	2	3	2	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr10:85994113G>T	uc001kcz.1	-	3	633	c.611C>A	c.(610-612)GCA>GAA	p.A204E		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	204	LRRCT.|Lumenal (Potential).					integral to endoplasmic reticulum membrane					0						GCAGTCACATGCCCAGGGGTT	0.527													10	61					5.16669e-11	5.47241e-11	1	1	0		T	85994113	T	T	85994113	3	4	102	1	0	0	0	0	1	0	0	0	8965	1319	46	5	1268	5	LRIT1	10	85994113	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	4721443	85994113	49540634	86	61886											
TNKS2	80351	broad.mit.edu	37	chr10	93582083	93582083	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccattacacaatgcctgttcTtatggtcattatgaagtaac	12	14	6	9	0	2	1	1	1	1	0	2	1	2	1	2	1	3	2	2	1	6	5			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr10:93582083T>G	uc001khp.2	+	7	1056	c.759T>G	c.(757-759)TCT>TCG	p.S253S		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	253	ANK 5.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				ATGCCTGTTCTTATGGTCATT	0.333													30	93					0	0	1	0	0		G	93582083	G	G	93582083	2	3	102	1	0	0	0	0	0	0	0	1	16346	1596	56	5		5	TNKS2	10	93582083	Silent	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	7587970	93582083	41952664	87	61887											
ZNF518A	9849	broad.mit.edu	37	chr10	97918525	97918525	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccacttcattgtgaccagTcatttcaaaaacacgagaga	14	10	7	10	1	3	2	3	1	0	1	3	4	3	2	2	0	2	0	2	0	2	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr10:97918525T>A	uc001klp.2	+	6	3303	c.2446T>A	c.(2446-2448)TCA>ACA	p.S816T	ZNF518A_uc001klo.1_Missense_Mutation_p.S286T|ZNF518A_uc001klq.2_Missense_Mutation_p.S816T|ZNF518A_uc001klr.2_Missense_Mutation_p.S816T	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	816					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		TTGTGACCAGTCATTTCAAAA	0.383													11	41					0	0	1	0	0		A	97918525	A	A	97918525	3	1	102	1	0	0	0	0	1	0	0	0	17987	1667	58	5	2448	5	ZNF518A	10	97918525	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	4336442	97918525	37616222	88	61888											
MRPL43	84545	broad.mit.edu	37	chr10	102747079	102747079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggctcacctggcgccgCgagacgaggcgccgtcgcgg	4	5	16	16	8	1	1	1	0	0	1	2	3	1	1	4	4	0	1	4	4	0	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr10:102747079C>T	uc001kry.1	-	1	194	c.122G>A	c.(121-123)CGC>CAC	p.R41H	MRPL43_uc010qpu.1_Missense_Mutation_p.R41H|MRPL43_uc001krz.1_5'Flank|MRPL43_uc001ksa.1_Missense_Mutation_p.R41H|MRPL43_uc001ksb.1_Missense_Mutation_p.R41H|MRPL43_uc001ksd.1_Missense_Mutation_p.R41H|MRPL43_uc001ksc.2_Missense_Mutation_p.R41H|MRPL43_uc001kse.2_Missense_Mutation_p.R41H|C10orf2_uc001ksg.2_5'Flank|C10orf2_uc001ksf.2_5'Flank|C10orf2_uc001ksi.2_5'Flank|C10orf2_uc010qpv.1_5'Flank|C10orf2_uc001ksh.2_5'Flank	NM_176792	NP_789762	Q8N983	RM43_HUMAN	mitochondrial ribosomal protein L43 isoform b	41					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome			skin(1)	1		Colorectal(252;0.234)		Epithelial(162;6.21e-09)|all cancers(201;3.14e-07)		CCTGGCGCCGCGAGACGAGGC	0.682													6	26					0	0	1	0	0		T	102747079	T	T	102747079	3	4	102	1	0	0	0	0	1	0	0	0	9825	768	27	1	776	1	MRPL43	10	102747079	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	4828554	102747079	32787668	89	61889											
PNLIPRP1	5407	broad.mit.edu	37	chr10	118363625	118363625	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgtttggaaataagggaAacactcaccagtacagtatc	14	11	8	8	0	1	0	1	0	0	0	2	2	1	2	1	2	2	3	1	2	5	5			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr10:118363625A>T	uc001lco.1	+	11	1165	c.1147A>T	c.(1147-1149)AAC>TAC	p.N383Y	PNLIPRP1_uc001lcp.2_Missense_Mutation_p.N383Y	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	383	PLAT.				lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		AAATAAGGGAAACACTCACCA	0.413													10	40					0	0	1	0	0		T	118363625	T	T	118363625	3	4	102	1	0	0	0	0	1	0	0	0	12169	14	1	5	1185	5	PNLIPRP1	10	118363625	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	15616546	118363625	17171122	90	61890											
RPLP2	6181	broad.mit.edu	37	chr11	812594	812594	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagccgtctctgctgccccaGgctctgcagcccctgctgct	3	10	10	18	1	2	0	0	0	2	0	3	0	2	0	5	1	7	5	5	1	1	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr11:812594G>T	uc001lrq.1	+	4	337	c.232G>T	c.(232-234)GGC>TGC	p.G78C	RPLP2_uc001lrr.1_Missense_Mutation_p.G78C	NM_001004	NP_000995	P05387	RLA2_HUMAN	ribosomal protein P2	78					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	RNA binding|structural constituent of ribosome				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGCTGCCCCAGGCTCTGCAGC	0.637													6	38					3.59834e-05	3.70174e-05	1	1	0		T	812594	T	T	812594	3	4	102	1	0	0	0	0	1	0	0	0	13631	1000	35	5	242	5	RPLP2	11	812594	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08		812594	134193922	91	61891											
MUC6	4588	broad.mit.edu	37	chr11	1017432	1017432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggtgtgggtagcctgctgCtggtggccgacgtggtgtgg	3	10	21	7	2	0	0	0	0	0	0	0	1	0	0	2	6	3	3	2	6	1	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr11:1017432C>T	uc001lsw.2	-	31	5420	c.5369G>A	c.(5368-5370)AGC>AAC	p.S1790N		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1790	Thr-rich.|2.|Approximate repeats.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TAGCCTGCTGCTGGTGGCCGA	0.597													25	621					0	0	1	0	0		T	1017432	T	T	1017432	3	4	102	1	0	0	0	0	1	0	0	0	9998	797	28	2	1962	2	MUC6	11	1017432	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	204838	1017432	133989084	92	61892											
OR8H1	219469	broad.mit.edu	37	chr11	56057747	56057747	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatcccttcccaaagaataAgactttcttggttttaaata	13	15	5	8	0	1	3	0	1	1	2	3	3	3	3	2	1	0	1	2	1	6	7			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr11:56057747A>G	uc010rje.1	-	1	792	c.792T>C	c.(790-792)TCT>TCC	p.S264S		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					CCAAAGAATAAGACTTTCTTG	0.348													36	33					0	0	1	0	0		G	56057747	G	G	56057747	2	3	102	1	0	0	0	0	0	0	0	1	11256	59	3	3		3	OR8H1	11	56057747	Silent	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	55040315	56057747	78948769	93	61893											
HTR3B	9177	broad.mit.edu	37	chr11	113780172	113780172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgttcgtccatgctatattgGatgtggtaaggaccatcttg	8	15	11	7	1	1	0	0	0	1	0	3	2	2	2	2	3	1	3	2	3	3	6			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr11:113780172G>A	uc001pok.2	+	2	275	c.208G>A	c.(208-210)GAT>AAT	p.D70N	HTR3B_uc001pol.2_Missense_Mutation_p.D59N	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	70	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		TGCTATATTGGATGTGGTAAG	0.433													16	20					0	0	1	0	0		A	113780172	A	A	113780172	3	1	102	1	0	0	0	0	1	0	0	0	7461	1174	41	4	214	4	HTR3B	11	113780172	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	57722425	113780172	21226344	94	61894											
BCL2L14	79370	broad.mit.edu	37	chr12	12247709	12247709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggaccccaggggagaatcaGaggtcaaagctcagggcttt	11	7	14	9	0	3	2	3	0	0	2	3	4	3	3	2	5	1	2	2	5	2	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr12:12247709G>A	uc001rac.2	+	5	991	c.790G>A	c.(790-792)GAG>AAG	p.E264K	ETV6_uc001raa.1_Intron|BCL2L14_uc001raf.1_Intron|BCL2L14_uc001rad.2_Missense_Mutation_p.E264K|BCL2L14_uc001rae.2_3'UTR	NM_138723	NP_620049	Q9BZR8	B2L14_HUMAN	BCL2-like 14 isoform 1	264					apoptosis|regulation of apoptosis	cytosol|endomembrane system|intracellular organelle|membrane	protein binding			skin(1)	1		Prostate(47;0.0872)		BRCA - Breast invasive adenocarcinoma(232;0.154)		GGGAGAATCAGAGGTCAAAGC	0.537													20	91					0	0	1	0	0		A	12247709	A	A	12247709	3	1	102	1	0	0	0	0	1	0	0	0	1373	943	33	4	889	4	BCL2L14	12	12247709	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08		12247709	121604186	95	61895											
GYS2	2998	broad.mit.edu	37	chr12	21689968	21689968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtgacttgatatttaaccGatccctttcagcctcctctt	7	16	6	12	1	2	2	1	2	1	0	4	3	4	2	4	1	2	0	4	1	2	6			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr12:21689968G>A	uc001rfb.2	-	16	2287	c.2032C>T	c.(2032-2034)CGG>TGG	p.R678W		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	678					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						ATATTTAACCGATCCCTTTCA	0.463													15	72					0	0	1	0	0		A	21689968	A	A	21689968	3	1	102	1	0	0	0	0	1	0	0	0	6929	1057	37	1	83	1	GYS2	12	21689968	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	9442259	21689968	112161927	96	61896											
RACGAP1	29127	broad.mit.edu	37	chr12	50384086	50384086	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcaaaaaagttgccttGtcgtcctaggttagtggcag	12	10	12	7	1	0	1	0	0	0	1	2	1	1	1	2	2	2	4	2	2	6	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr12:50384086G>T	uc001rvt.2	-	19	2174	c.1864C>A	c.(1864-1866)CAA>AAA	p.Q622K	RACGAP1_uc009zlm.1_Missense_Mutation_p.Q622K|RACGAP1_uc001rvs.2_Missense_Mutation_p.Q622K|RACGAP1_uc001rvu.2_Missense_Mutation_p.Q622K	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1	622					blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						AAGTTGCCTTGTCGTCCTAGG	0.383													13	46					1.15088e-07	1.20472e-07	1	1	0		T	50384086	T	T	50384086	3	4	102	1	0	0	0	0	1	0	0	0	13002	1386	48	5	38	5	RACGAP1	12	50384086	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	28694118	50384086	83467809	97	61897											
CALCOCO1	57658	broad.mit.edu	37	chr12	54107590	54107590	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcgaggcccagcaggagaGgagcctgggtctccacgctc	7	6	14	14	2	2	1	0	0	2	1	5	4	2	2	3	4	2	2	3	4	0	0			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr12:54107590G>A	uc001sef.2	-	13	1830	c.1686C>T	c.(1684-1686)TCC>TCT	p.S562S	CALCOCO1_uc001see.2_Silent_p.S63S|CALCOCO1_uc010som.1_Silent_p.S477S|CALCOCO1_uc010son.1_Silent_p.S439S|CALCOCO1_uc001seh.2_Silent_p.S562S|CALCOCO1_uc009znd.2_Silent_p.S562S|CALCOCO1_uc001seg.2_Silent_p.S387S	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	562	C-terminal AD (CTNNB1 binding site) (By similarity).				steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						CAGCAGGAGAGGAGCCTGGGT	0.617													22	88					0	0	1	0	0		A	54107590	A	A	54107590	2	1	102	1	0	0	0	0	0	0	0	1	2580	987	35	4		4	CALCOCO1	12	54107590	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	3723504	54107590	79744305	98	61898											
IKZF4	64375	broad.mit.edu	37	chr12	56428613	56428613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actggagcttccaggatcccGagaagcaggtgagggacctg	10	6	15	10	1	0	2	0	1	0	1	2	6	2	5	3	4	2	2	3	4	1	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr12:56428613G>A	uc001sjb.1	+	9	1415	c.1256G>A	c.(1255-1257)CGA>CAA	p.R419Q	IKZF4_uc010sqa.1_Missense_Mutation_p.R372Q|IKZF4_uc001sjc.1_Missense_Mutation_p.R419Q|IKZF4_uc001sjd.1_Missense_Mutation_p.R317Q|IKZF4_uc009zoi.1_Missense_Mutation_p.R374Q|IKZF4_uc001sje.1_Missense_Mutation_p.R378Q	NM_022465	NP_071910	Q9H2S9	IKZF4_HUMAN	zinc finger protein, subfamily 1A, 4	419					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (6;0.025)|OV - Ovarian serous cystadenocarcinoma(18;0.123)			CCAGGATCCCGAGAAGCAGGT	0.632													5	42					0	0	1	0	0		A	56428613	A	A	56428613	3	1	102	1	0	0	0	0	1	0	0	0	7633	1058	37	1	1286	1	IKZF4	12	56428613	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	2321023	56428613	77423282	99	61899											
DRAM1	55332	broad.mit.edu	37	chr12	102295137	102295137	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaacctgctatttcagcactCctgtttttaacttggtgtct	8	17	6	10	0	2	0	1	0	1	0	3	0	3	0	2	1	4	3	2	1	3	6			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr12:102295137C>T	uc001tix.2	+	3	731	c.268C>T	c.(268-270)CCT>TCT	p.P90S	DRAM1_uc010svv.1_Missense_Mutation_p.P90S	NM_018370	NP_060840	Q8N682	DRAM1_HUMAN	DNA-damage regulated autophagy modulator 1	90					apoptosis|autophagy	integral to membrane|lysosomal membrane				ovary(1)	1						TTTCAGCACTCCTGTTTTTAA	0.383													15	37					0	0	1	0	0		T	102295137	T	T	102295137	3	4	102	1	0	0	0	0	1	0	0	0	4759	855	30	4	278	4	DRAM1	12	102295137	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	45866524	102295137	31556758	100	61900											
PXN	5829	broad.mit.edu	37	chr12	120660701	120660701	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgggttatgctgtacagcgTtcagttccagcagcaggcgg	7	9	15	10	3	1	0	1	0	0	0	2	0	2	0	1	3	5	7	1	3	2	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr12:120660701T>A	uc001txt.2	-	4	589	c.458A>T	c.(457-459)AAC>ATC	p.N153I	PXN_uc001txv.2_Missense_Mutation_p.N20I|PXN_uc001txx.2_Missense_Mutation_p.N20I|PXN_uc001txy.2_Missense_Mutation_p.N153I|PXN_uc001txz.2_RNA|uc001tya.2_5'Flank	NM_001080855	NP_001074324	P49023	PAXI_HUMAN	paxillin isoform 1	153	LD motif 2.				cell junction assembly|cell-matrix adhesion|cellular response to reactive oxygen species|epidermal growth factor receptor signaling pathway|growth hormone receptor signaling pathway|muscle contraction|signal complex assembly	cytoplasm|focal adhesion|lamellipodium|microtubule associated complex	beta-catenin binding|vinculin binding|zinc ion binding			ovary(1)|breast(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTGTACAGCGTTCAGTTCCAG	0.607													19	46					0	0	1	0	0		A	120660701	A	A	120660701	3	1	102	1	0	0	0	0	1	0	0	0	12877	1725	60	5	1353	5	PXN	12	120660701	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	18365564	120660701	13191194	101	61901											
MTUS2	23281	broad.mit.edu	37	chr13	29933476	29933476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaggcccgtgaggctgagCggcagctggtgctgcggctg	4	6	19	12	4	0	2	0	2	0	0	0	2	0	2	1	5	4	6	1	5	0	0			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr13:29933476C>T	uc001usl.3	+	6	3071	c.3013C>T	c.(3013-3015)CGG>TGG	p.R1005W		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	995	Localization to the growing distal tip of microtubules.|Potential.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						TGAGGCTGAGCGGCAGCTGGT	0.627													14	22					0	0	1	0	0		T	29933476	T	T	29933476	3	4	102	1	0	0	0	0	1	0	0	0	9984	759	27	1	3035	1	MTUS2	13	29933476	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08		29933476	85236402	102	61902											
SOHLH2	54937	broad.mit.edu	37	chr13	36748935	36748935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcctcaagaactgaagccGcatcattctttctccctttt	8	15	5	13	1	4	2	2	1	2	1	5	2	4	2	3	0	3	1	3	0	3	5			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr13:36748935G>A	uc001uvj.2	-	7	802	c.713C>T	c.(712-714)GCG>GTG	p.A238V	SOHLH2_uc010tei.1_Missense_Mutation_p.A315V	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	238	Helix-loop-helix motif.				cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;4.63e-08)|Epithelial(112;2.67e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|BRCA - Breast invasive adenocarcinoma(63;0.00685)|GBM - Glioblastoma multiforme(144;0.0273)		AACTGAAGCCGCATCATTCTT	0.423													48	25					0	0	1	0	0		A	36748935	A	A	36748935	3	1	102	1	0	0	0	0	1	0	0	0	14949	1087	38	1	584	1	SOHLH2	13	36748935	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	6815459	36748935	78420943	103	61903											
NALCN	259232	broad.mit.edu	37	chr13	101742013	101742013	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atccaaaccaaaaatccttaCcttgttttcattgaaattag	15	14	3	9	0	1	1	1	1	0	0	3	1	3	1	4	0	2	1	4	0	6	6			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr13:101742013C>A	uc001vox.1	-	30	3678	c.3489_splice	c.e30+1	p.K1163_splice		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1							integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AAAATCCTTACCTTGTTTTCA	0.393													15	28					6.81908e-15	7.3531e-15	1	1	0		A	101742013	A	A	101742013	5	1	102	1	0	0	0	0	0	0	1	0	10166	521	18	5	1786	5	NALCN	13	101742013	Splice_Site	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	64993078	101742013	13427865	104	61904											
CARS2	79587	broad.mit.edu	37	chr13	111329399	111329399	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagaacacctcctggggtTtggccgccttccacagggcg	6	7	12	16	2	0	1	0	0	0	1	2	1	2	1	6	4	1	1	6	4	1	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr13:111329399T>A	uc001vrd.2	-	7	747	c.707A>T	c.(706-708)AAA>ATA	p.K236I	CARS2_uc010tjm.1_RNA	NM_024537	NP_078813	Q9HA77	SYCM_HUMAN	cysteinyl-tRNA synthetase 2, mitochondrial	236					cysteinyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|cysteine-tRNA ligase activity|metal ion binding				0	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.163)		L-Cysteine(DB00151)	CTCCTGGGGTTTGGCCGCCTT	0.627													36	29					0	0	1	0	0		A	111329399	A	A	111329399	3	1	102	1	0	0	0	0	1	0	0	0	2661	1841	64	5	1023	5	CARS2	13	111329399	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	9587386	111329399	3840479	105	61905											
SIPA1L1	26037	broad.mit.edu	37	chr14	72054702	72054702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatgatttctacatgcggcGcttccggtcccaaaatggca	9	11	10	11	3	1	2	0	2	1	0	3	2	3	2	2	3	2	2	2	3	3	3	rs146483394		TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr14:72054702G>A	uc001xms.2	+	2	461	c.113G>A	c.(112-114)CGC>CAC	p.R38H	SIPA1L1_uc001xmt.2_Missense_Mutation_p.R38H|SIPA1L1_uc001xmu.2_Missense_Mutation_p.R38H|SIPA1L1_uc001xmv.2_Missense_Mutation_p.R38H	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	38					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TACATGCGGCGCTTCCGGTCC	0.547													22	97					0	0	1	0	0		A	72054702	A	A	72054702	3	1	102	1	0	0	0	0	1	0	0	0	14354	1087	38	1	115	1	SIPA1L1	14	72054702	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08		72054702	35294838	106	61906											
FLRT2	23768	broad.mit.edu	37	chr14	86089570	86089570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatatgcacaaaaaggggcGctacacctcccagaagtgga	14	5	11	11	1	0	1	0	0	0	1	1	2	1	2	2	3	2	3	2	3	5	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr14:86089570G>A	uc001xvr.2	+	2	2479	c.1712G>A	c.(1711-1713)CGC>CAC	p.R571H	FLRT2_uc010atd.2_Missense_Mutation_p.R571H	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	571	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		AAAAAGGGGCGCTACACCTCC	0.562													25	113					0	0	1	0	0		A	86089570	A	A	86089570	3	1	102	1	0	0	0	0	1	0	0	0	5953	1087	38	1	1714	1	FLRT2	14	86089570	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	14034868	86089570	21259970	107	61907											
SERPINA10	51156	broad.mit.edu	37	chr14	94756415	94756415	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaagtctctttgacatcAaaatccttgtggatgaaggc	14	11	9	7	0	2	3	1	2	1	1	4	4	3	4	1	2	0	0	1	2	5	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr14:94756415A>G	uc001yct.2	-	2	982	c.516T>C	c.(514-516)TTT>TTC	p.F172F	SERPINA10_uc001ycu.3_Silent_p.F172F	NM_016186	NP_057270	Q9UK55	ZPI_HUMAN	serine (or cysteine) proteinase inhibitor, clade	172					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_cancers(154;0.105)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)		CTTTGACATCAAAATCCTTGT	0.483													21	84					0	0	1	0	0		G	94756415	G	G	94756415	2	3	102	1	0	0	0	0	0	0	0	1	14112	127	5	3		3	SERPINA10	14	94756415	Silent	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	8666845	94756415	12593125	108	61908											
CRIP2	1397	broad.mit.edu	37	chr14	105945789	105945789	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagcacgacggccagccctActgccacaagccctgctatg	9	5	9	18	2	0	0	0	0	0	0	0	1	0	0	5	1	6	2	5	1	3	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr14:105945789A>G	uc001yrd.1	+	7	587	c.518A>G	c.(517-519)TAC>TGC	p.Y173C	CRIP2_uc010tyr.1_Missense_Mutation_p.Y247C|CRIP2_uc001yre.1_Missense_Mutation_p.Y245C|CRIP2_uc001yrf.1_RNA|CRIP2_uc001yrg.2_RNA|CRIP2_uc001yrh.1_RNA	NM_001312	NP_001303	P52943	CRIP2_HUMAN	cysteine-rich protein 2	173	LIM zinc-binding 2.						zinc ion binding				0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.235)		GGCCAGCCCTACTGCCACAAG	0.637													14	123					0	0	1	0	0		G	105945789	G	G	105945789	3	3	102	1	0	0	0	0	1	0	0	0	3878	391	14	3	544	3	CRIP2	14	105945789	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	11189374	105945789	1403751	109	61909											
C15orf2	23742	broad.mit.edu	37	chr15	24922516	24922516	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgaccccccaacacctcCtagctccacaccctccttca	8	9	2	22	0	2	1	1	1	1	0	5	1	5	1	8	0	2	1	8	0	2	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr15:24922516C>G	uc001ywo.2	+	1	1976	c.1502C>G	c.(1501-1503)CCT>CGT	p.P501R		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	501	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CCAACACCTCCTAGCTCCACA	0.517													60	102					0	0	1	0	0		G	24922516	G	G	24922516	3	3	102	1	0	0	0	0	1	0	0	0	1787	681	24	5	1504	5	C15orf2	15	24922516	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08		24922516	77608876	110	61910											
LTK	4058	broad.mit.edu	37	chr15	41805064	41805064	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaggtagaaaacagccaaGacccctcggtgcctgagagc	12	4	12	13	2	0	3	0	1	0	3	1	4	0	3	4	2	4	2	4	2	4	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr15:41805064G>T	uc001zoa.3	-	3	378	c.200C>A	c.(199-201)TCT>TAT	p.S67Y	LTK_uc001zob.3_Missense_Mutation_p.S67Y|LTK_uc010ucx.1_Missense_Mutation_p.S67Y|LTK_uc010bcg.2_Intron	NM_002344	NP_002335	P29376	LTK_HUMAN	leukocyte receptor tyrosine kinase isoform 1	67	Extracellular (Potential).				apoptosis|cell proliferation|phosphatidylinositol 3-kinase cascade|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|central_nervous_system(1)	7		all_cancers(109;1.89e-19)|all_epithelial(112;2.28e-16)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.172)		OV - Ovarian serous cystadenocarcinoma(18;2.1e-17)|GBM - Glioblastoma multiforme(113;1.34e-06)|Colorectal(105;0.0148)|BRCA - Breast invasive adenocarcinoma(123;0.113)		AAACAGCCAAGACCCCTCGGT	0.672										TSP Lung(18;0.14)			6	26					2.0095e-06	2.07919e-06	1	1	0		T	41805064	T	T	41805064	3	4	102	1	0	0	0	0	1	0	0	0	9098	942	33	5	2466	5	LTK	15	41805064	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	16882548	41805064	60726328	111	61911											
SLC12A1	6557	broad.mit.edu	37	chr15	48521412	48521412	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctactatcttatttccagaAgtttagggcccgagttcggt	8	14	9	10	2	1	1	0	0	1	1	3	2	2	1	3	2	1	2	3	2	5	7			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr15:48521412A>C	uc001zwn.3	+	6	967	c.751A>C	c.(751-753)AGT>CGT	p.S251R	SLC12A1_uc010uew.1_Missense_Mutation_p.S57R|SLC12A1_uc010bem.2_Missense_Mutation_p.S251R|SLC12A1_uc010uex.1_Missense_Mutation_p.S251R|SLC12A1_uc001zwq.3_Missense_Mutation_p.S22R|SLC12A1_uc001zwr.3_5'UTR	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	251	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	TATTTCCAGAAGTTTAGGGCC	0.428													3	4					0	0	1	0	0		C	48521412	C	C	48521412	3	2	102	1	0	0	0	0	1	0	0	0	14407	72	3	5	869	5	SLC12A1	15	48521412	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	6716348	48521412	54009980	112	61912											
FBN1	2200	broad.mit.edu	37	chr15	48766498	48766498	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatccttccttgcacagacaGcggtaagatcccatggtatt	10	12	8	11	1	0	2	0	0	0	2	3	2	3	2	3	2	2	3	3	2	3	6			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr15:48766498G>A	uc001zwx.1	-	34	4492	c.4164C>T	c.(4162-4164)CGC>CGT	p.R1388R		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1388	EGF-like 23; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		TGCACAGACAGCGGTAAGATC	0.448													8	28					0	0	1	0	0		A	48766498	A	A	48766498	2	1	102	1	0	0	0	0	0	0	0	1	5716	958	34	2		2	FBN1	15	48766498	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	245086	48766498	53764894	113	61913											
PDXDC1	23042	broad.mit.edu	37	chr16	15122811	15122811	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaggcactcgtgtgacgcGctgaatcgctgggtgagaat	9	8	16	8	4	0	4	0	3	0	2	2	6	0	4	0	2	0	3	0	2	2	0	rs150807075	byFrequency	TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr16:15122811G>A	uc002dda.3	+	15	1505	c.1281G>A	c.(1279-1281)GCG>GCA	p.A427A	PDXDC1_uc010uzl.1_Silent_p.A412A|PDXDC1_uc010uzm.1_Silent_p.A336A|PDXDC1_uc002dcz.2_Silent_p.A404A|PDXDC1_uc002ddb.3_Silent_p.A400A|PDXDC1_uc010uzn.1_Silent_p.A399A|PDXDC1_uc002ddc.2_Silent_p.A427A	NM_015027	NP_055842	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain	427					carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	CGTGTGACGCGCTGAATCGCT	0.587													16	23					0	0	1	0	0		A	15122811	A	A	15122811	2	1	102	1	0	0	0	0	0	0	0	1	11715	1074	38	1		1	PDXDC1	16	15122811	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08		15122811	75231942	114	61914											
DPEP1	1800	broad.mit.edu	37	chr16	89702385	89702385	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggacgagagggccaacctGaccaccttggccggcacaca	11	3	12	15	2	0	2	0	1	0	1	0	4	0	3	5	4	1	1	5	4	1	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr16:89702385G>A	uc010cin.2	+	3	377	c.174G>A	c.(172-174)CTG>CTA	p.L58L	DPEP1_uc002fnr.3_Silent_p.L58L|DPEP1_uc002fns.3_Silent_p.L58L	NM_001128141	NP_001121613	P16444	DPEP1_HUMAN	dipeptidase 1 precursor	58					proteolysis	anchored to membrane|apical plasma membrane|microvillus membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity|protein binding			large_intestine(1)	1		all_lung(18;0.0054)|all_hematologic(23;0.094)		BRCA - Breast invasive adenocarcinoma(80;0.0258)	Cilastatin(DB01597)	GGGCCAACCTGACCACCTTGG	0.642													5	37					0	0	1	0	0		A	89702385	A	A	89702385	2	1	102	1	0	0	0	0	0	0	0	1	4719	1277	45	4		4	DPEP1	16	89702385	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	74579574	89702385	652368	115	61915											
TUBB3	10381	broad.mit.edu	37	chr16	89986303	89986303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacgtccacatgctggccCgggcctgccagcacgcccag	6	6	12	17	3	0	0	0	0	0	0	1	0	1	0	5	2	4	3	5	2	1	1	rs144239448	by1000genomes	TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr16:89986303C>T	uc002fpf.2	+	1	1045	c.637C>T	c.(637-639)CGG>TGG	p.R213W	MC1R_uc002fpe.3_Missense_Mutation_p.R213W|TUBB3_uc010ciz.1_5'Flank	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	Error:Variant_position_missing_in_Q13509_after_alignment					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity	p.R213C(1)		ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		CATGCTGGCCCGGGCCTGCCA	0.657													3	30					0	0	1	0	0		T	89986303	T	T	89986303	3	4	102	1	0	0	0	0	1	0	0	0	16783	643	23	1		1	TUBB3	16	89986303	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	283918	89986303	368450	116	61916											
ZZEF1	23140	broad.mit.edu	37	chr17	3921227	3921227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccgctgagccagggacCgtatcctttcatctgtggtg	6	10	12	13	2	2	1	1	1	1	0	3	2	3	2	5	2	1	2	5	2	1	2	rs139593441		TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr17:3921227C>T	uc002fxe.2	-	47	7608	c.7544G>A	c.(7543-7545)CGG>CAG	p.R2515Q	ZZEF1_uc002fxg.1_5'Flank	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	2515							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						AGCCAGGGACCGTATCCTTTC	0.517													9	82					0	0	1	0	0		T	3921227	T	T	3921227	3	4	102	1	0	0	0	0	1	0	0	0	18280	652	23	1	1377	1	ZZEF1	17	3921227	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08		3921227	77273983	117	61917											
RABEP1	9135	broad.mit.edu	37	chr17	5264577	5264577	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgccatctggagatcctttCagtaaatcggacaatgacat	12	12	8	9	1	2	2	1	1	1	1	4	4	3	3	2	2	1	1	2	2	3	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr17:5264577C>T	uc002gbm.3	+	9	1394	c.1170C>T	c.(1168-1170)TTC>TTT	p.F390F	RABEP1_uc010clc.1_Silent_p.F383F|RABEP1_uc010cld.1_Silent_p.F347F|RABEP1_uc010vsw.1_Silent_p.F347F|RABEP1_uc002gbl.3_Silent_p.F390F|NUP88_uc002gbn.2_RNA	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	390					apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						GAGATCCTTTCAGTAAATCGG	0.463													4	59					0	0	1	0	0		T	5264577	T	T	5264577	2	4	102	1	0	0	0	0	0	0	0	1	12986	825	29	4		4	RABEP1	17	5264577	Silent	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	1343350	5264577	75930633	118	61918											
TP53	7157	broad.mit.edu	37	chr17	7577094	7577094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attctcttcctctgtgcgccGgtctctcccaggacaggcac	5	11	9	16	2	3	0	0	0	3	0	7	1	5	1	3	3	1	1	3	3	0	2	rs28934574		TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr17:7577094G>A	uc002gim.2	-	8	1038	c.844C>T	c.(844-846)CGG>TGG	p.R282W	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R282W|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R150W|TP53_uc010cng.1_Missense_Mutation_p.R150W|TP53_uc002gii.1_Missense_Mutation_p.R150W|TP53_uc010cnh.1_Missense_Mutation_p.R282W|TP53_uc010cni.1_Missense_Mutation_p.R282W|TP53_uc002gij.2_Missense_Mutation_p.R282W	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	282	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|DR -> EW (in sporadic cancers; somatic mutation).|R -> Q (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> H (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R282W(367)|p.R282G(27)|p.R282Q(20)|p.R282P(14)|p.R282R(8)|p.0?(7)|p.R282L(3)|p.D281fs*63(2)|p.?(2)|p.R282fs*24(2)|p.D281_R282>EW(2)|p.A276_R283delACPGRDRR(1)|p.R280fs*62(1)|p.R282_E287delRRTEEE(1)|p.G279fs*59(1)|p.S269fs*21(1)|p.C275_R283delCACPGRDRR(1)|p.D281_R282insXX(1)|p.L265_K305del41(1)|p.R282H(1)|p.R283_T284>T(1)|p.V272_K292del21(1)|p.R282fs*63(1)|p.C275fs*20(1)|p.D281_R282delDR(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TCTGTGCGCCGGTCTCTCCCA	0.557		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			39	13					0	0	1	0	0		A	7577094	A	A	7577094	3	1	102	1	0	0	0	0	1	0	0	0	16407	1115	39	1	442	1	TP53	17	7577094	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	2312517	7577094	73618116	119	61919											
KCNAB3	9196	broad.mit.edu	37	chr17	7829022	7829022	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaatgatgtgctttcggcTtaaacctcgctcggtttctg	6	15	9	11	3	2	1	1	1	1	0	5	1	2	1	1	2	2	4	1	2	3	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr17:7829022T>C	uc002gjm.1	-	7	517	c.517A>G	c.(517-519)AGC>GGC	p.S173G	KCNAB3_uc010vul.1_RNA	NM_004732	NP_004723	O43448	KCAB3_HUMAN	potassium voltage-gated channel, shaker-related	173						cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(1)	1		Prostate(122;0.157)				TGCTTTCGGCTTAAACCTCGC	0.502													35	278					0	0	1	0	0		C	7829022	C	C	7829022	3	2	102	1	0	0	0	0	1	0	0	0	8027	1609	56	3	729	3	KCNAB3	17	7829022	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	251928	7829022	73366188	120	61920											
DNAH9	1770	broad.mit.edu	37	chr17	11554622	11554622	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcagagcagcagaggagacTttgaactggaaaacagaagg	16	5	13	7	0	1	5	1	1	0	4	1	7	1	6	0	3	4	2	0	3	4	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr17:11554622T>G	uc002gne.2	+	13	2402	c.2334T>G	c.(2332-2334)ACT>ACG	p.T778T	DNAH9_uc010coo.2_Silent_p.T72T	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	778	Stem (By similarity).|Potential.				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CAGAGGAGACTTTGAACTGGA	0.428													51	25					0	0	1	0	0		G	11554622	G	G	11554622	2	3	102	1	0	0	0	0	0	0	0	1	4614	1596	56	5		5	DNAH9	17	11554622	Silent	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	3725600	11554622	69640588	121	61921											
SGK494	124923	broad.mit.edu	37	chr17	26940497	26940498	+	Frame_Shift_Del	DEL	CT	-	-																															ctaatgggcctaatgggaaaCtctggtagaaagaggttgat																										TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr17:26940497_26940498delCT	uc002hbr.1	-	2	316_317	c.284_285delAG	c.(283-285)GAGfs	p.E95fs	SGK494_uc010waq.1_Frame_Shift_Del_p.E95fs|SGK494_uc010war.1_RNA|uc010crq.1_5'Flank|uc002hbs.1_Intron	NM_144610	NP_653211			uncharacterized serine/threonine-protein kinase												0						TAATGGGAAACTCTGGTAGAAA	0.52											OREG0024279	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	53	47	---	---	---	---						.	-	26940498	-	-	26940497	7	5	102	1	0	1	0	1	0	0	0	0	14238	564	20	0	991	0	SGK494	17	26940497	Frame_Shift_Del	DEL	CT	TCGA-BR-A4QI-01A-12D-A25D-08	15385875	26940497	54254713	122	61922											
CCL8	6355	broad.mit.edu	37	chr17	32647376	32647376	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagctacacaagaatcacCaacatccaatgtcccaagga	17	5	7	12	0	1	2	1	0	0	2	3	4	3	3	3	1	3	1	3	1	6	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr17:32647376C>A	uc002hib.2	+	2	620	c.165C>A	c.(163-165)ACC>ACA	p.T55T		NM_005623	NP_005614	P80075	CCL8_HUMAN	small inducible cytokine A8 precursor	55					calcium ion transport|cell-cell signaling|chemotaxis|exocytosis|immune response|inflammatory response|response to virus	extracellular space	chemokine activity|heparin binding|signal transducer activity				0		Ovarian(249;0.0443)|Breast(31;0.151)				CAAGAATCACCAACATCCAAT	0.433													9	32					0.000442599	0.000442599	1	1	0		A	32647376	A	A	32647376	2	1	102	1	0	0	0	0	0	0	0	1	2910	581	21	5		5	CCL8	17	32647376	Silent	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	5706879	32647376	48547834	123	61923											
CDC6	990	broad.mit.edu	37	chr17	38447729	38447729	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctggcacaggcacttgcTaccagcaagcaaagctggtc	10	8	11	12	0	1	0	0	0	1	0	2	0	1	0	1	3	5	6	1	3	3	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr17:38447729T>A	uc002huj.1	+	4	679	c.469T>A	c.(469-471)TAC>AAC	p.Y157N		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	157					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						AGGCACTTGCTACCAGCAAGC	0.493													13	299					0	0	1	0	0		A	38447729	A	A	38447729	3	1	102	1	0	0	0	0	1	0	0	0	3086	1522	53	5	479	5	CDC6	17	38447729	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	5800353	38447729	42747481	124	61924											
KRT25	147183	broad.mit.edu	37	chr17	38907471	38907471	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgctctgcaagggcttcGtactcagctcgcatgttgtt	5	15	10	11	2	3	0	1	0	2	0	5	0	3	0	0	1	4	8	0	1	2	5			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr17:38907471G>A	uc002hve.2	-	4	838	c.777C>T	c.(775-777)TAC>TAT	p.Y259Y		NM_181534	NP_853512	Q7Z3Z0	K1C25_HUMAN	keratin 25	259	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity			ovary(2)	2		Breast(137;0.00526)				CAAGGGCTTCGTACTCAGCTC	0.572													45	120					0	0	1	0	0		A	38907471	A	A	38907471	2	1	102	1	0	0	0	0	0	0	0	1	8478	1140	40	1		1	KRT25	17	38907471	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	459742	38907471	42287739	125	61925											
KRT26	353288	broad.mit.edu	37	chr17	38927474	38927474	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaatgctggcattgcagatGgtcgcagaaataatctaaat	15	10	9	7	1	1	2	0	0	1	2	2	2	1	2	0	2	2	4	0	2	5	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr17:38927474G>A	uc002hvf.2	-	2	502	c.456C>T	c.(454-456)ACC>ACT	p.T152T		NM_181539	NP_853517	Q7Z3Y9	K1C26_HUMAN	keratin 26	152	Rod.|Coil 1B.					intermediate filament	structural molecule activity				0		Breast(137;0.00526)				CATTGCAGATGGTCGCAGAAA	0.358													9	80					0	0	1	0	0		A	38927474	A	A	38927474	2	1	102	1	0	0	0	0	0	0	0	1	8479	1335	47	4		4	KRT26	17	38927474	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	20003	38927474	42267736	126	61926											
MLX	6945	broad.mit.edu	37	chr17	40721585	40721585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaggaggaggtgtccaCgttacgcaaggatgtcaccg	10	6	16	9	3	1	0	1	0	0	0	2	4	2	4	2	5	1	3	2	5	2	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr17:40721585C>T	uc002iag.2	+	6	664	c.599C>T	c.(598-600)ACG>ATG	p.T200M	MLX_uc002iaf.2_Missense_Mutation_p.T146M|MLX_uc002iah.2_Missense_Mutation_p.T116M	NM_170607	NP_733752	Q9UH92	MLX_HUMAN	transcription factor-like protein 4 isoform	200					energy reserve metabolic process|negative regulation of transcription, DNA-dependent|positive regulation of cellular metabolic process	cytoplasm|nucleus	DNA binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		all_cancers(22;4.26e-05)|Breast(137;0.000153)|all_epithelial(22;0.00148)		BRCA - Breast invasive adenocarcinoma(366;0.129)		GAGGTGTCCACGTTACGCAAG	0.488													20	131					0	0	1	0	0		T	40721585	T	T	40721585	3	4	102	1	0	0	0	0	1	0	0	0	9653	536	19	1	621	1	MLX	17	40721585	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	1794111	40721585	40473625	127	61927											
DSG4	147409	broad.mit.edu	37	chr18	28980860	28980860	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagatatatcatagggcatGatgcaggcagctggttaaaa	15	9	11	6	0	1	2	1	1	0	1	1	2	1	2	0	3	2	5	0	3	5	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr18:28980860G>A	uc002kwq.2	+	10	1429	c.1294G>A	c.(1294-1296)GAT>AAT	p.D432N	DSG4_uc002kwr.2_Missense_Mutation_p.D432N	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	432	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			CATAGGGCATGATGCAGGCAG	0.299													17	83					0	0	1	0	0		A	28980860	A	A	28980860	3	1	102	1	0	0	0	0	1	0	0	0	4785	1290	45	4	1332	4	DSG4	18	28980860	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08		28980860	49096388	128	61928											
LINGO3	645191	broad.mit.edu	37	chr19	2290977	2290977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgaggtgcgcctggtgccGcagcgcggcggccggcacgg	3	4	21	13	7	0	1	0	1	0	0	0	1	0	1	3	7	3	2	3	7	0	0			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr19:2290977G>A	uc010dsx.1	-	2	927	c.799C>T	c.(799-801)CGG>TGG	p.R267W	SPPL2B_uc010dsw.1_Intron|uc002lvo.1_5'UTR	NM_001101391	NP_001094861	P0C6S8	LIGO3_HUMAN	leucine rich repeat and Ig domain containing 3	267	Extracellular (Potential).|LRR 8.					integral to membrane					0						GCCTGGTGCCGCAGCGCGGCG	0.721													13	68					0	0	1	0	0		A	2290977	A	A	2290977	3	1	102	1	0	0	0	0	1	0	0	0	8833	1086	38	1	983	1	LINGO3	19	2290977	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08		2290977	56838006	129	61929											
ACTL9	284382	broad.mit.edu	37	chr19	8808335	8808335	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtcccaggggcaggccGgcctggagcagcatctccgc	5	6	15	15	2	1	0	0	0	1	0	3	1	2	1	4	5	3	4	4	5	0	0			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr19:8808335G>A	uc002mkl.2	-	1	838	c.717C>T	c.(715-717)GCC>GCT	p.A239A		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	239						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						GGGGCAGGCCGGCCTGGAGCA	0.657													26	40					0	0	1	0	0		A	8808335	A	A	8808335	2	1	102	1	0	0	0	0	0	0	0	1	203	1103	39	1		1	ACTL9	19	8808335	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	6517358	8808335	50320648	130	61930											
MUC16	94025	broad.mit.edu	37	chr19	9059771	9059771	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaggttaccacattggtCatctccagtttctctgtatc	7	15	7	12	0	3	1	1	1	2	0	6	1	3	1	3	2	1	3	3	2	2	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr19:9059771C>A	uc002mkp.2	-	3	27879	c.27675G>T	c.(27673-27675)ATG>ATT	p.M9225I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9227	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCACATTGGTCATCTCCAGTT	0.468													34	88					1.36615e-20	1.4911e-20	1	1	0		A	9059771	A	A	9059771	3	1	102	1	0	0	0	0	1	0	0	0	9991	826	29	5	16176	5	MUC16	19	9059771	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	251436	9059771	50069212	131	61931											
CCDC151	115948	broad.mit.edu	37	chr19	11531515	11531515	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgagtctaggacctccgAgagcgacggtgcttcttgtg	7	9	15	10	4	2	1	0	0	2	1	3	6	3	3	2	3	2	1	2	3	1	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr19:11531515A>C	uc002mrs.2	-	13	1919	c.1776T>G	c.(1774-1776)TCT>TCG	p.S592S	CCDC151_uc002mrr.2_Silent_p.S527S|CCDC151_uc010dxz.2_Silent_p.S532S|RGL3_uc002mrn.2_5'Flank|RGL3_uc002mrm.2_5'Flank|RGL3_uc002mro.2_5'Flank|RGL3_uc002mrp.2_5'Flank|RGL3_uc002mrq.2_5'Flank	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	592										ovary(1)	1						AGGACCTCCGAGAGCGACGGT	0.627													7	93					0	0	1	0	0		C	11531515	C	C	11531515	2	2	102	1	0	0	0	0	0	0	0	1	2789	291	11	5		5	CCDC151	19	11531515	Silent	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	2471744	11531515	47597468	132	61932											
ZNF799	90576	broad.mit.edu	37	chr19	12491639	12491639	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacactgcttacattcatacAgtttctccccagtacgtgtt	10	14	5	12	1	2	0	1	0	1	0	3	0	2	0	2	0	5	4	2	0	4	6	rs59301182	by1000genomes	TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr19:12491639A>G	uc002mts.3	-	4	903	c.437T>C	c.(436-438)CTG>CCG	p.L146P				Q96GE5	ZN799_HUMAN	Homo sapiens cDNA clone IMAGE:30340957, **** WARNING: chimeric clone ****.	252				L -> P (in Ref. 1; AL832890).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						ACATTCATACAGTTTCTCCCC	0.368													4	80					0	0	1	0	0		G	12491639	G	G	12491639	3	3	102	1	0	0	0	0	1	0	0	0	18191	203	7	3		3	ZNF799	19	12491639	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	960124	12491639	46637344	133	61933											
CHERP	10523	broad.mit.edu	37	chr19	16641681	16641681	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccagcagctcccgggcctGcttgcgctggctgtgaggga	4	7	17	13	2	0	1	0	1	0	0	1	2	1	2	3	4	4	5	3	4	0	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr19:16641681G>A	uc002nei.1	-	6	759	c.685C>T	c.(685-687)CAG>TAG	p.Q229*	MED26_uc002nee.2_Intron	NM_006387	NP_006378	Q8IWX8	CHERP_HUMAN	calcium homeostasis endoplasmic reticulum	229	CID.				cellular calcium ion homeostasis|negative regulation of cell proliferation|nervous system development|RNA processing	endoplasmic reticulum|perinuclear region of cytoplasm	RNA binding			ovary(2)	2						TCCCGGGCCTGCTTGCGCTGG	0.692													12	51					0	0	1	0	0		A	16641681	A	A	16641681	4	1	102	1	0	0	0	0	0	1	0	0	3339	1328	46	2	2113	2	CHERP	19	16641681	Nonsense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	4150042	16641681	42487302	134	61934											
NWD1	284434	broad.mit.edu	37	chr19	16884108	16884108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccccgggaggacccctccGggcaactctcagcggctgtc	5	5	13	18	3	1	0	1	0	1	0	4	2	2	2	5	4	2	2	5	4	1	0			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr19:16884108G>A	uc002neu.3	+	11	3004	c.2582G>A	c.(2581-2583)CGG>CAG	p.R861Q	NWD1_uc002net.3_Missense_Mutation_p.R726Q|NWD1_uc002nev.3_Missense_Mutation_p.R655Q			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	861							ATP binding			skin(3)|ovary(2)|pancreas(2)	7						GGACCCCTCCGGGCAACTCTC	0.627													12	42					0	0	1	0	0		A	16884108	A	A	16884108	3	1	102	1	0	0	0	0	1	0	0	0	10800	1116	39	1	2203	1	NWD1	19	16884108	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	242427	16884108	42244875	135	61935											
FBXO46	23403	broad.mit.edu	37	chr19	46215503	46215503	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggtggctccgggggcccGtccggcccgcggttctggag	1	6	21	13	5	1	0	0	0	1	0	3	1	3	1	4	8	0	2	4	8	0	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr19:46215503G>A	uc002pcy.2	-	2	1376	c.1251C>T	c.(1249-1251)GAC>GAT	p.D417D	FBXO46_uc002pcz.2_Silent_p.D417D	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	417							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		CCGGGGGCCCGTCCGGCCCGC	0.726													9	91					0	0	1	0	0		A	46215503	A	A	46215503	2	1	102	1	0	0	0	0	0	0	0	1	5769	1136	40	1		1	FBXO46	19	46215503	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	29331395	46215503	12913480	136	61936											
CCDC114	93233	broad.mit.edu	37	chr19	48806095	48806095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcatccttgctggcacGtgcgctcaccaaagcctcct	6	10	9	16	2	2	0	2	0	0	0	4	0	4	0	4	2	3	3	4	2	1	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr19:48806095G>A	uc002pir.2	-	10	1668	c.985C>T	c.(985-987)CGT>TGT	p.R329C	CCDC114_uc002piq.2_Missense_Mutation_p.R138C|CCDC114_uc002pio.2_Missense_Mutation_p.R366C|CCDC114_uc002pis.1_Missense_Mutation_p.R9C|CCDC114_uc002pit.1_Missense_Mutation_p.R366C	NM_144577	NP_653178	Q96M63	CC114_HUMAN	coiled-coil domain containing 114 isoform 2	329	Potential.									ovary(1)	1		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000162)|Epithelial(262;0.0134)|GBM - Glioblastoma multiforme(486;0.0143)		TTGCTGGCACGTGCGCTCACC	0.607													18	91					0	0	1	0	0		A	48806095	A	A	48806095	3	1	102	1	0	0	0	0	1	0	0	0	2754	1145	40	1	1047	1	CCDC114	19	48806095	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	2590592	48806095	10322888	137	61937											
KLK8	11202	broad.mit.edu	37	chr19	51501058	51501058	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagaccatgccatctgtGatctgccccgggtaagcatc	9	8	10	14	1	2	2	0	1	2	1	3	2	2	2	4	1	3	3	4	1	1	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr19:51501058G>T	uc002pur.1	-	5	755	c.576C>A	c.(574-576)ATC>ATA	p.I192I	KLK8_uc002puq.1_Silent_p.I237I|KLK8_uc002pus.1_Silent_p.I51I|KLK8_uc002put.1_Intron|KLK8_uc002puu.1_Silent_p.I192I|KLK9_uc002puv.1_RNA	NM_007196	NP_009127	O60259	KLK8_HUMAN	kallikrein 8 isoform 1 preproprotein	192	Peptidase S1.				cell death|keratinocyte proliferation|memory|negative regulation of axon regeneration|negative regulation of myelination|neuron projection morphogenesis|proteolysis|regulation of synapse organization|response to wounding	cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(1)	1		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.0033)|GBM - Glioblastoma multiforme(134;0.00888)		TGCCATCTGTGATCTGCCCCG	0.512													19	59					2.89027e-11	3.07951e-11	1	1	0		T	51501058	T	T	51501058	2	4	102	1	0	0	0	0	0	0	0	1	8426	1280	45	5		5	KLK8	19	51501058	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	2694963	51501058	7627925	138	61938											
C20orf26	26074	broad.mit.edu	37	chr20	20243713	20243713	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaaccatttcactctcaaCgaggaagaggattgctttaa	13	11	8	9	1	2	1	2	0	1	1	3	4	2	3	1	2	4	2	1	2	4	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr20:20243713C>T	uc002wru.2	+	21	2518	c.2442C>T	c.(2440-2442)AAC>AAT	p.N814N	C20orf26_uc010zse.1_Silent_p.N794N|C20orf26_uc002wrw.2_RNA|C20orf26_uc002wrv.2_Silent_p.N170N	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	814										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TCACTCTCAACGAGGAAGAGG	0.478													70	97					0	0	1	0	0		T	20243713	T	T	20243713	2	4	102	1	0	0	0	0	0	0	0	1	2109	535	19	1		1	C20orf26	20	20243713	Silent	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08		20243713	42781807	139	61939											
TSHZ2	128553	broad.mit.edu	37	chr20	51870644	51870644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacaggggccagcagattccGatgccgacagtgcagcgcgg	9	4	15	13	4	0	1	0	0	0	1	1	3	1	1	3	3	4	2	3	3	0	1	rs145172538	byFrequency	TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr20:51870644G>A	uc002xwo.2	+	2	1603	c.647G>A	c.(646-648)CGA>CAA	p.R216Q		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	216	C2H2-type 1.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			AGCAGATTCCGATGCCGACAG	0.562													24	33					0	0	1	0	0		A	51870644	A	A	51870644	3	1	102	1	0	0	0	0	1	0	0	0	16650	1058	37	1	653	1	TSHZ2	20	51870644	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	31626931	51870644	11154876	140	61940											
DIDO1	11083	broad.mit.edu	37	chr20	61512623	61512623	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggccaggcgcctcgccTgccgggggtccctgtggttt	2	9	16	14	3	0	0	0	0	0	0	2	0	1	0	5	5	1	1	5	5	0	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr20:61512623T>A	uc002ydr.1	-	16	4949	c.4685A>T	c.(4684-4686)CAG>CTG	p.Q1562L	DIDO1_uc002yds.1_Missense_Mutation_p.Q1562L	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1562					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GCGCCTCGCCTGCCGGGGGTC	0.692													13	82					0	0	1	0	0		A	61512623	A	A	61512623	3	1	102	1	0	0	0	0	1	0	0	0	4528	1580	55	5	2041	5	DIDO1	20	61512623	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08	9641979	61512623	1512897	141	61941											
DGCR14	8220	broad.mit.edu	37	chr22	19130142	19130142	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttcaaatgtggctggagtCacatctaggggaagagaggg	11	9	16	5	0	3	1	2	0	1	1	3	4	3	3	0	5	0	2	0	5	3	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr22:19130142C>T	uc002zou.2	-	3	346	c.309G>A	c.(307-309)GTG>GTA	p.V103V	DGCR14_uc002zot.2_Silent_p.V24V|DGCR14_uc002zov.2_RNA	NM_022719	NP_073210	Q96DF8	DGC14_HUMAN	DiGeorge syndrome critical region protein 14	103					nervous system development	catalytic step 2 spliceosome				ovary(1)	1	Colorectal(54;0.0993)					TGGCTGGAGTCACATCTAGGG	0.602													42	50					0	0	1	0	0		T	19130142	T	T	19130142	2	4	102	1	0	0	0	0	0	0	0	1	4466	813	29	4		4	DGCR14	22	19130142	Silent	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08		19130142	32174424	142	61942											
MYO18B	84700	broad.mit.edu	37	chr22	26422846	26422846	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgacgagggaaacctctcGctgagggttggggcaaagtc	10	7	16	8	2	1	2	0	2	1	0	3	4	1	3	1	4	1	3	1	4	2	1			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr22:26422846G>A	uc003abz.1	+	43	7156	c.6906G>A	c.(6904-6906)TCG>TCA	p.S2302S	MYO18B_uc003aca.1_Silent_p.S2183S|MYO18B_uc010guy.1_Silent_p.S2184S|MYO18B_uc010guz.1_Silent_p.S2182S|MYO18B_uc011aka.1_Silent_p.S1456S|MYO18B_uc011akb.1_Silent_p.S1815S|MYO18B_uc010gva.1_Silent_p.S285S|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2302						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GAAACCTCTCGCTGAGGGTTG	0.617													10	10					0	0	1	0	0		A	26422846	A	A	26422846	2	1	102	1	0	0	0	0	0	0	0	1	10084	1074	38	1		1	MYO18B	22	26422846	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	7292704	26422846	24881720	143	61943											
DMC1	11144	broad.mit.edu	37	chr22	38962648	38962648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactttggcttctgagagtcCtttgacattgcatagagctc	8	15	9	9	0	1	3	0	2	1	2	3	4	2	3	1	1	3	3	1	1	2	6			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chr22:38962648C>T	uc003avz.1	-	4	365	c.190G>A	c.(190-192)GGA>AGA	p.G64R	DMC1_uc011anv.1_Missense_Mutation_p.G64R|DMC1_uc003awa.1_Missense_Mutation_p.G64R	NM_007068	NP_008999	Q14565	DMC1_HUMAN	DMC1 dosage suppressor of mck1 homolog	64					reciprocal meiotic recombination	condensed nuclear chromosome	ATP binding|DNA binding|DNA-dependent ATPase activity|protein binding			ovary(1)	1	Melanoma(58;0.0286)					TCTGAGAGTCCTTTGACATTG	0.398								Homologous_recombination					15	17					0	0	1	0	0		T	38962648	T	T	38962648	3	4	102	1	0	0	0	0	1	0	0	0	4585	690	24	4	876	4	DMC1	22	38962648	Missense_Mutation	SNP	C	TCGA-BR-A4QI-01A-12D-A25D-08	12539802	38962648	12341918	144	61944											
MXRA5	25878	broad.mit.edu	37	chrX	3239828	3239828	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaagatgaatatatttttcTggtggttgtcatgtaatcta	11	18	9	3	0	3	2	1	1	2	1	3	2	3	2	0	2	0	3	0	2	6	8	rs41297257	byFrequency	TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chrX:3239828T>C	uc004crg.3	-	5	4055	c.3898A>G	c.(3898-3900)AGA>GGA	p.R1300G		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1300						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TATATTTTTCTGGTGGTTGTC	0.368													5	74					0	0	1	0	0		C	3239828	C	C	3239828	3	2	102	1	0	0	0	0	1	0	0	0	10021	1588	55	3	4600	3	MXRA5	23	3239828	Missense_Mutation	SNP	T	TCGA-BR-A4QI-01A-12D-A25D-08		3239828	152030732	145	61945											
MSN	4478	broad.mit.edu	37	chrX	64957071	64957071	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagacccgtagggctctggaActtgagcaggaacggaagcg	11	5	15	10	3	1	2	0	1	1	1	1	5	1	5	1	4	4	3	1	4	4	2			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chrX:64957071A>C	uc004dwf.2	+	10	1320	c.1122A>C	c.(1120-1122)GAA>GAC	p.E374D		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	374					leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						GGGCTCTGGAACTTGAGCAGG	0.562			T	ALK	ALCL								12	7					0	0	1	0	0		C	64957071	C	C	64957071	3	2	102	1	0	0	0	0	1	0	0	0	9903	40	2	5	1160	5	MSN	23	64957071	Missense_Mutation	SNP	A	TCGA-BR-A4QI-01A-12D-A25D-08	61717243	64957071	90313489	146	61946											
DOCK11	139818	broad.mit.edu	37	chrX	117752692	117752692	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acacaagataccagcacaagGtaaggatatccatgcagtca	17	6	8	10	0	1	1	1	0	0	1	2	2	2	2	2	2	3	3	2	2	5	3			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chrX:117752692G>C	uc004eqp.2	+	31	3534	c.3471_splice	c.e31+1	p.K1157_splice	DOCK11_uc004eqq.2_Splice_Site_p.K936_splice	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11						blood coagulation	cytosol	GTP binding			ovary(3)	3						CCAGCACAAGGTAAGGATATC	0.338													11	68					0	0	1	0	0		C	117752692	C	C	117752692	5	2	102	1	0	0	0	0	0	0	1	0	4692	1275	44	5	3594	5	DOCK11	23	117752692	Splice_Site	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	52795621	117752692	37517868	147	61947											
ATP11C	286410	broad.mit.edu	37	chrX	138871582	138871582	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatttgtggccatctatgcaGcattcaatgaattccatgct	10	15	7	9	0	2	1	1	1	1	0	3	1	3	1	2	1	3	3	2	1	4	5			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chrX:138871582G>A	uc004faz.2	-	13	1380	c.1281C>T	c.(1279-1281)TGC>TGT	p.C427C	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Silent_p.C427C	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	427	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					CATCTATGCAGCATTCAATGA	0.343													12	35					0	0	1	0	0		A	138871582	A	A	138871582	2	1	102	1	0	0	0	0	0	0	0	1	1122	963	34	2		2	ATP11C	23	138871582	Silent	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	21118890	138871582	16398978	148	61948											
MAGEA3	4102	broad.mit.edu	37	chrX	151935401	151935401	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggacctgccggtactccaGgtagttttcctgcacgaaat	8	10	12	11	2	0	0	0	0	0	0	2	2	2	1	4	4	3	4	4	4	3	4			TCGA-BR-A4QI-01A-12D-A25D-08	TCGA-BR-A4QI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	699db1f3-e03d-4f08-89c9-40a77a78c2f1	9e553223-b1fc-43e1-b357-3f22bc1e89f5	g.chrX:151935401G>C	uc004fgp.2	-	3	975	c.766C>G	c.(766-768)CTG>GTG	p.L256V		NM_005362	NP_005353	P43357	MAGA3_HUMAN	melanoma antigen family A, 3	256	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					CGGTACTCCAGGTAGTTTTCC	0.542													26	200					0	0	1	0	0		C	151935401	C	C	151935401	3	2	102	1	0	0	0	0	1	0	0	0	9185	991	35	5	182	5	MAGEA3	23	151935401	Missense_Mutation	SNP	G	TCGA-BR-A4QI-01A-12D-A25D-08	13063819	151935401	3335159	149	61949											
DVL1	1855	broad.mit.edu	37	chr1	1273434	1273434	+	Frame_Shift_Del	DEL	G	-	-																															aggcaggcgggaagcagggtGggggtcccgggtactggtag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:1273434delG	uc001aer.3	-	14	1609	c.1562delC	c.(1561-1563)CCAfs	p.P521fs	DVL1_uc002quu.2_Frame_Shift_Del_p.P263fs|DVL1_uc009vka.2_Frame_Shift_Del_p.P204fs|DVL1_uc001aeu.1_Frame_Shift_Del_p.P280fs	NM_004421	NP_004412	O14640	DVL1_HUMAN	dishevelled 1	546					canonical Wnt receptor signaling pathway|dendrite morphogenesis|intracellular signal transduction|negative regulation of protein binding|negative regulation of protein kinase activity|neural tube development|neuromuscular junction development|neurotransmitter secretion|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein localization to nucleus|receptor clustering|transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, planar cell polarity pathway	cytoplasmic membrane-bounded vesicle|cytosol|plasma membrane|synapse|synaptosome	frizzled binding|identical protein binding|protein kinase binding|signal transducer activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		GAAGCAGGGTGGGGGTCCCGG	0.692													13	29	---	---	---	---						.	-	1273434	-	-	1273434	7	5	103	1	0	1	0	1	0	0	0	0	4841	1348	47	0	458	0	DVL1	1	1273434	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08		1273434	247977187	1	61950											
MXRA8	54587	broad.mit.edu	37	chr1	1290355	1290355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggtccagcaggcggtccGcgcggtcgtgcgggaccccg	5	4	18	14	7	0	1	0	0	0	1	3	2	2	2	4	5	2	1	4	5	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:1290355G>A	uc001aew.2	-	5	687	c.656C>T	c.(655-657)GCG>GTG	p.A219V	MXRA8_uc001aex.3_Missense_Mutation_p.A219V|MXRA8_uc001aey.3_Missense_Mutation_p.A219V|MXRA8_uc010nyl.1_Missense_Mutation_p.A219V|MXRA8_uc001aez.2_Missense_Mutation_p.A118V|MXRA8_uc001afa.2_Missense_Mutation_p.A210V	NM_032348	NP_115724	Q9BRK3	MXRA8_HUMAN	matrix-remodelling associated 8 precursor	219	Ig-like V-type 2.|Extracellular (Potential).					integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		CAGGCGGTCCGCGCGGTCGTG	0.736													4	7					0	0	1	0	0		A	1290355	A	A	1290355	3	1	103	1	0	0	0	0	1	0	0	0	10023	1087	38	1	696	1	MXRA8	1	1290355	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	16921	1290355	247960266	2	61951											
CCNL2	81669	broad.mit.edu	37	chr1	1322694	1322694	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgacctcgagcgctctcgtcGctgatctctgtagtaatgac	7	11	10	13	5	2	2	0	2	2	0	6	4	2	2	1	0	1	4	1	0	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:1322694G>A	uc001afi.2	-	11	1512	c.1480C>T	c.(1480-1482)CGA>TGA	p.R494*	CCNL2_uc010nym.1_RNA|CCNL2_uc001aff.1_Nonsense_Mutation_p.R272*|CCNL2_uc001afg.1_Nonsense_Mutation_p.R272*|CCNL2_uc001afh.2_3'UTR|CCNL2_uc001afj.2_3'UTR|CCNL2_uc001afk.2_3'UTR	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A	494					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		CGCTCTCGTCGCTGATCTCTG	0.592													49	69					0	0	1	0	0		A	1322694	A	A	1322694	4	1	103	1	0	0	0	0	0	1	0	0	2935	1095	38	1	86	1	CCNL2	1	1322694	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	32339	1322694	247927927	3	61952											
NADK	65220	broad.mit.edu	37	chr1	1685501	1685501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggctctgaccttcagctcgaCccctgcggggaccacgatgg	6	7	13	15	3	2	1	1	1	1	0	3	4	2	2	4	4	2	2	4	4	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:1685501C>T	uc009vkw.2	-	10	1211	c.1090G>A	c.(1090-1092)GTC>ATC	p.V364I	NADK_uc001aic.2_Missense_Mutation_p.V364I|NADK_uc001aid.3_Missense_Mutation_p.V364I|NADK_uc001aie.2_Missense_Mutation_p.V509I|NADK_uc010nyv.1_Missense_Mutation_p.V332I	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	364					ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)		TTCAGCTCGACCCCTGCGGGG	0.637													40	74					0	0	1	0	0		T	1685501	T	T	1685501	3	4	103	1	0	0	0	0	1	0	0	0	10155	507	18	4	262	4	NADK	1	1685501	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	362807	1685501	247565120	4	61953											
MMEL1	79258	broad.mit.edu	37	chr1	2526797	2526797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctgctcccggatgctcatgGcctgagtggggaggagggac	6	8	17	10	1	2	1	1	1	1	0	3	5	3	5	2	6	2	2	2	6	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:2526797G>A	uc001ajy.2	-	16	1716	c.1502C>T	c.(1501-1503)GCC>GTC	p.A501V	MMEL1_uc009vlg.1_RNA	NM_033467	NP_258428	Q495T6	MMEL1_HUMAN	membrane metallo-endopeptidase-like 1	501	Lumenal (Potential).				proteolysis	extracellular region|integral to membrane|intracellular membrane-bounded organelle	metal ion binding|metalloendopeptidase activity				0	all_cancers(77;0.000233)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.03e-20)|all_lung(118;5.15e-09)|Lung NSC(185;9.02e-07)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;8.52e-23)|GBM - Glioblastoma multiforme(42;1.49e-08)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;0.000213)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00219)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.131)		GATGCTCATGGCCTGAGTGGG	0.662													22	31					0	0	1	0	0		A	2526797	A	A	2526797	3	1	103	1	0	0	0	0	1	0	0	0	9664	1217	42	2	873	2	MMEL1	1	2526797	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	841296	2526797	246723824	5	61954											
MEGF6	1953	broad.mit.edu	37	chr1	3410411	3410411	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcacagggtgcccccccGtcacagtcacagcgctggtg	6	6	14	15	2	3	0	3	0	0	0	3	0	3	0	3	3	2	1	3	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:3410411G>A	uc001akl.2	-	34	4538	c.4311C>T	c.(4309-4311)GAC>GAT	p.D1437D	MEGF6_uc001akk.2_Intron	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	1437						extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		GTGCCCCCCCGTCACAGTCAC	0.662													3	5					0	0	1	0	0		A	3410411	A	A	3410411	2	1	103	1	0	0	0	0	0	0	0	1	9480	1136	40	1		1	MEGF6	1	3410411	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	883614	3410411	245840210	6	61955											
AJAP1	55966	broad.mit.edu	37	chr1	4829964	4829964	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtctccctcatcatggtcaTagctgctctcatcacaactc	8	12	5	16	1	6	0	5	0	2	0	9	0	6	0	1	1	3	2	1	1	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:4829964T>C	uc001alm.1	+	3	1262	c.881T>C	c.(880-882)ATA>ACA	p.I294T	AJAP1_uc001aln.2_Missense_Mutation_p.I294T	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	294	Helical; Signal-anchor for type III membrane protein; (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		ATCATGGTCATAGCTGCTCTC	0.532													63	114					0	0	1	0	0		C	4829964	C	C	4829964	3	2	103	1	0	0	0	0	1	0	0	0	438	1406	49	3	891	3	AJAP1	1	4829964	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1419553	4829964	244420657	7	61956											
CHD5	26038	broad.mit.edu	37	chr1	6209392	6209392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaggccctcgggcaggtgtCgcacaggatgatctccccac	7	7	13	14	2	1	1	0	1	1	0	4	2	1	2	3	4	0	3	3	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:6209392C>T	uc001amb.1	-	8	1175	c.1075G>A	c.(1075-1077)GAC>AAC	p.D359N	CHD5_uc001amc.1_5'Flank	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	359	PHD-type 1.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		GGGCAGGTGTCGCACAGGATG	0.607													16	36					0	0	1	0	0		T	6209392	T	T	6209392	3	4	103	1	0	0	0	0	1	0	0	0	3331	884	31	1	4925	1	CHD5	1	6209392	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1379428	6209392	243041229	8	61957											
TNFRSF25	8718	broad.mit.edu	37	chr1	6521693	6521693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcgcgcagccccagcgtgCgcacgaactccttccagcgc	6	5	10	20	6	0	0	0	0	0	0	3	1	2	0	5	0	5	2	5	0	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:6521693C>T	uc001ane.2	-	10	1143	c.1055G>A	c.(1054-1056)CGC>CAC	p.R352H	TNFRSF25_uc001ana.2_Missense_Mutation_p.R169H|TNFRSF25_uc001anb.2_RNA|TNFRSF25_uc001anc.2_RNA|TNFRSF25_uc001and.2_Missense_Mutation_p.R125H|TNFRSF25_uc009vlz.2_RNA|TNFRSF25_uc001anf.2_Missense_Mutation_p.R315H|TNFRSF25_uc001ang.2_Missense_Mutation_p.R307H|TNFRSF25_uc001anh.2_Missense_Mutation_p.R361H	NM_003790	NP_003781	Q93038	TNR25_HUMAN	tumor necrosis factor receptor superfamily,	352	Death.|Cytoplasmic (Potential).				apoptosis|induction of apoptosis by extracellular signals	cytosol|extracellular region|integral to plasma membrane	tumor necrosis factor receptor activity			central_nervous_system(2)|breast(1)	3	Ovarian(185;0.0386)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Acute lymphoblastic leukemia(12;0.00157)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;4.58e-35)|GBM - Glioblastoma multiforme(13;3.06e-27)|Colorectal(212;6.01e-08)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|BRCA - Breast invasive adenocarcinoma(365;0.00105)|STAD - Stomach adenocarcinoma(132;0.00158)|READ - Rectum adenocarcinoma(331;0.0419)		CCCCAGCGTGCGCACGAACTC	0.692													11	17					0	0	1	0	0		T	6521693	T	T	6521693	3	4	103	1	0	0	0	0	1	0	0	0	16321	768	27	1	202	1	TNFRSF25	1	6521693	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	312301	6521693	242728928	9	61958											
TNFRSF25	8718	broad.mit.edu	37	chr1	6525249	6525249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggcaggtggagttgccgCagggctccgtgcaaggggcc	7	5	18	11	2	0	0	0	0	0	0	1	1	1	1	3	6	2	5	3	6	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:6525249C>T	uc001ane.2	-	3	282	c.194G>A	c.(193-195)TGC>TAC	p.C65Y	TNFRSF25_uc001ana.2_Intron|TNFRSF25_uc001anb.2_RNA|TNFRSF25_uc001anc.2_RNA|TNFRSF25_uc001and.2_Intron|TNFRSF25_uc009vlz.2_Intron|TNFRSF25_uc001anf.2_Missense_Mutation_p.C65Y|TNFRSF25_uc001ang.2_Intron|TNFRSF25_uc001anh.2_Missense_Mutation_p.C65Y|TNFRSF25_uc001ani.1_Missense_Mutation_p.C65Y	NM_003790	NP_003781	Q93038	TNR25_HUMAN	tumor necrosis factor receptor superfamily,	65	TNFR-Cys 1.|Extracellular (Potential).				apoptosis|induction of apoptosis by extracellular signals	cytosol|extracellular region|integral to plasma membrane	tumor necrosis factor receptor activity			central_nervous_system(2)|breast(1)	3	Ovarian(185;0.0386)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Acute lymphoblastic leukemia(12;0.00157)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;4.58e-35)|GBM - Glioblastoma multiforme(13;3.06e-27)|Colorectal(212;6.01e-08)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|BRCA - Breast invasive adenocarcinoma(365;0.00105)|STAD - Stomach adenocarcinoma(132;0.00158)|READ - Rectum adenocarcinoma(331;0.0419)		GGAGTTGCCGCAGGGCTCCGT	0.592													13	17					0	0	1	0	0		T	6525249	T	T	6525249	3	4	103	1	0	0	0	0	1	0	0	0	16321	710	25	2	1122	2	TNFRSF25	1	6525249	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3556	6525249	242725372	10	61959											
NOL9	79707	broad.mit.edu	37	chr1	6605171	6605171	+	Frame_Shift_Del	DEL	T	-	-																															agttaactgaaggcctttccTttttttctctcttctgatgc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:6605171delT	uc001ans.2	-	4	833	c.814delA	c.(814-816)AGGfs	p.R272fs	NOL9_uc010nzs.1_RNA	NM_024654	NP_078930	Q5SY16	NOL9_HUMAN	nucleolar protein 9	272					maturation of 5.8S rRNA	nucleolus	ATP binding|polynucleotide 5'-hydroxyl-kinase activity|RNA binding			skin(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;2.46e-35)|all_epithelial(116;1.41e-22)|all_lung(118;7.59e-07)|Lung NSC(185;4.28e-06)|Colorectal(325;4.52e-05)|Breast(487;0.000353)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.47e-07)|COAD - Colon adenocarcinoma(227;1.47e-05)|Kidney(185;5.27e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|BRCA - Breast invasive adenocarcinoma(365;0.00113)|STAD - Stomach adenocarcinoma(132;0.0017)|READ - Rectum adenocarcinoma(331;0.0649)		AGGCCTTTCCTTTTTTTCTCT	0.403													49	76	---	---	---	---						.	-	6605171	-	-	6605171	7	5	103	1	0	1	0	1	0	0	0	0	10547	1608	56	0	1330	0	NOL9	1	6605171	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	79922	6605171	242645450	11	61960											
KLHL21	9903	broad.mit.edu	37	chr1	6659214	6659214	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtcggtgtccgggtcgtaGcactgcatcaccatggtctc	6	10	13	12	3	2	0	1	0	1	0	6	0	3	0	2	4	2	3	2	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:6659214G>A	uc001aoa.2	-	2	1372	c.1320C>T	c.(1318-1320)TGC>TGT	p.C440C	KLHL21_uc001anz.1_Silent_p.C440C|KLHL21_uc009vme.2_Silent_p.C73C	NM_014851	NP_055666	Q9UJP4	KLH21_HUMAN	kelch-like 21	440	Kelch 4.				anaphase|cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|polar microtubule				central_nervous_system(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.36e-07)|COAD - Colon adenocarcinoma(227;1.4e-05)|Kidney(185;4.95e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000528)|KIRC - Kidney renal clear cell carcinoma(229;0.000927)|STAD - Stomach adenocarcinoma(132;0.0172)|READ - Rectum adenocarcinoma(331;0.0644)		CCGGGTCGTAGCACTGCATCA	0.637													15	28					0	0	1	0	0		A	6659214	A	A	6659214	2	1	103	1	0	0	0	0	0	0	0	1	8392	963	34	2		2	KLHL21	1	6659214	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	54043	6659214	242591407	12	61961											
PER3	8863	broad.mit.edu	37	chr1	7887206	7887206	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttccaagcagacgcggtcGgccggctgcaggaaagggaa	11	4	15	11	4	0	1	0	0	0	1	2	3	1	3	2	5	2	3	2	5	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:7887206G>A	uc001aoo.2	+	17	2368	c.2193G>A	c.(2191-2193)TCG>TCA	p.S731S	PER3_uc009vmg.1_Silent_p.S739S|PER3_uc009vmh.1_Silent_p.S732S|PER3_uc001aop.2_Silent_p.S739S|PER3_uc010nzw.1_Silent_p.S420S	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	731	CSNK1E binding domain (By similarity).|Nuclear localization signal (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity	p.G733fs*115(1)		ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		AGACGCGGTCGGCCGGCTGCA	0.557													20	14					0	0	1	0	0		A	7887206	A	A	7887206	2	1	103	1	0	0	0	0	0	0	0	1	11750	1103	39	1		1	PER3	1	7887206	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1227992	7887206	241363415	13	61962											
SLC45A1	50651	broad.mit.edu	37	chr1	8390709	8390709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgcttcacgggcggccacGacagctacctggccatccct	7	7	10	17	3	1	0	1	0	0	0	2	1	2	0	4	3	3	2	4	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:8390709G>A	uc001apb.2	+	4	1156	c.1156G>A	c.(1156-1158)GAC>AAC	p.D386N	SLC45A1_uc001apc.2_Missense_Mutation_p.D84N	NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	386					carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		GGGCGGCCACGACAGCTACCT	0.662													16	30					0	0	1	0	0		A	8390709	A	A	8390709	3	1	103	1	0	0	0	0	1	0	0	0	14665	1058	37	1	1170	1	SLC45A1	1	8390709	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	503503	8390709	240859912	14	61963											
SLC2A7	155184	broad.mit.edu	37	chr1	9075181	9075181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggcgacttcataccttgtCgcgctgtggcttcatctcct	4	13	9	15	4	3	0	2	0	1	0	5	1	3	0	3	2	1	2	3	2	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:9075181C>T	uc009vmo.1	-	6	710	c.710G>A	c.(709-711)CGA>CAA	p.R237Q		NM_207420	NP_997303	Q6PXP3	GTR7_HUMAN	intestinal facilitative glucose transporter 7	237	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity				0	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.04e-07)|COAD - Colon adenocarcinoma(227;7.66e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		CATACCTTGTCGCGCTGTGGC	0.662													10	11					0	0	1	0	0		T	9075181	T	T	9075181	3	4	103	1	0	0	0	0	1	0	0	0	14575	884	31	1	856	1	SLC2A7	1	9075181	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	684472	9075181	240175440	15	61964											
CASZ1	54897	broad.mit.edu	37	chr1	10700033	10700033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggaggacgccgtcttccGccgcttgccgaagggcgaca	6	5	15	15	7	1	0	0	0	1	0	2	4	2	2	5	3	1	1	5	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:10700033G>A	uc001aro.2	-	21	4566	c.4246C>T	c.(4246-4248)CGG>TGG	p.R1416W		NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	1416					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GCCGTCTTCCGCCGCTTGCCG	0.627													21	25					0	0	1	0	0		A	10700033	A	A	10700033	3	1	103	1	0	0	0	0	1	0	0	0	2688	1086	38	1	1037	1	CASZ1	1	10700033	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1624852	10700033	238550588	16	61965											
MASP2	10747	broad.mit.edu	37	chr1	11097818	11097818	+	Frame_Shift_Del	DEL	C	-	-																															caggatgtatttggcttgcaCaggtgaaacgtggccattag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:11097818delC	uc001aru.2	-	7	961	c.940delG	c.(940-942)GTGfs	p.V314fs		NM_006610	NP_006601	O00187	MASP2_HUMAN	mannan-binding lectin serine protease 2 isoform	314	Sushi 1.				complement activation, classical pathway|complement activation, lectin pathway|proteolysis	extracellular region	calcium ion binding|calcium-dependent protein binding|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.071)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.12e-07)|COAD - Colon adenocarcinoma(227;7.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)|STAD - Stomach adenocarcinoma(313;0.192)		TTGGCTTGCACAGGTGAAACG	0.502											OREG0013096	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	60	95	---	---	---	---						.	-	11097818	-	-	11097818	7	5	103	1	0	1	0	1	0	0	0	0	9341	478	17	0	1140	0	MASP2	1	11097818	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	397785	11097818	238152803	17	61966											
MTOR	2475	broad.mit.edu	37	chr1	11303337	11303337	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttaggacatggttcatggTatcttggagatactgggtat	9	14	13	5	0	2	1	1	0	1	1	2	3	2	2	0	5	1	4	0	5	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:11303337T>C	uc001asd.2	-	9	1367	c.1246A>G	c.(1246-1248)ACC>GCC	p.T416A		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	416					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TGGTTCATGGTATCTTGGAGA	0.473													45	57					0	0	1	0	0		C	11303337	C	C	11303337	3	2	103	1	0	0	0	0	1	0	0	0	9972	1638	57	3	6603	3	MTOR	1	11303337	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	205519	11303337	237947284	18	61967											
C1orf187	374946	broad.mit.edu	37	chr1	11766419	11766419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcacctgggacccctgcccGgaacctccctgagaatcaca	9	6	9	17	1	1	1	1	1	0	1	2	4	2	3	6	2	3	1	6	2	2	0	rs149999195		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:11766419G>A	uc001asr.1	+	2	244	c.104G>A	c.(103-105)CGG>CAG	p.R35Q		NM_198545	NP_940947	Q8NBI3	DRAXI_HUMAN	chromosome 1 open reading frame 187 precursor	35					axon guidance|commissural neuron differentiation in spinal cord|dorsal spinal cord development|forebrain development|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region					0	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.48e-06)|COAD - Colon adenocarcinoma(227;0.000283)|BRCA - Breast invasive adenocarcinoma(304;0.000316)|Kidney(185;0.000841)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|STAD - Stomach adenocarcinoma(313;0.00754)|READ - Rectum adenocarcinoma(331;0.0651)		ACCCCTGCCCGGAACCTCCCT	0.706													18	32					0	0	1	0	0		A	11766419	A	A	11766419	3	1	103	1	0	0	0	0	1	0	0	0	2024	1116	39	1	106	1	C1orf187	1	11766419	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	463082	11766419	237484202	19	61968											
CLCN6	1185	broad.mit.edu	37	chr1	11900199	11900199	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caggccttctctttgccctaGatcgtggggatcatcacacg	7	11	10	13	2	3	1	2	0	1	1	5	2	3	2	2	3	1	0	2	3	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:11900199G>C	uc001ate.3	+	23	2643	c.2530_splice	c.e23-1	p.I844_splice	CLCN6_uc010oat.1_Splice_Site_p.I560_splice|CLCN6_uc010oau.1_Splice_Site_p.I822_splice|CLCN6_uc010oav.1_5'Flank|CLCN6_uc010oaw.1_5'Flank|CLCN6_uc010oax.1_5'Flank|CLCN6_uc010oay.1_5'Flank|CLCN6_uc010oaz.1_5'Flank|CLCN6_uc010oba.1_5'Flank	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a						cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		CTTTGCCCTAGATCGTGGGGA	0.572													42	65					0	0	1	0	0		C	11900199	C	C	11900199	5	2	103	1	0	0	0	0	0	0	1	0	3470	956	33	5	2629	5	CLCN6	1	11900199	Splice_Site	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	133780	11900199	237350422	20	61969											
VPS13D	55187	broad.mit.edu	37	chr1	12359286	12359286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaagcccagcgctgttcaCgggttctcctggatattgag	8	11	11	11	2	3	1	2	1	1	0	4	2	3	2	2	2	2	3	2	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:12359286C>T	uc001atv.2	+	25	6202	c.6061C>T	c.(6061-6063)CGG>TGG	p.R2021W	VPS13D_uc001atw.2_Missense_Mutation_p.R2021W|VPS13D_uc001atx.2_Missense_Mutation_p.R1209W	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2021					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		GCGCTGTTCACGGGTTCTCCT	0.438													30	57					0	0	1	0	0		T	12359286	T	T	12359286	3	4	103	1	0	0	0	0	1	0	0	0	17218	527	19	1	6155	1	VPS13D	1	12359286	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	459087	12359286	236891335	21	61970											
VPS13D	55187	broad.mit.edu	37	chr1	12401935	12401935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgccaccctgaccaccacaCccaccaggtaagcagtcagt	11	6	7	17	0	1	1	1	1	0	0	1	1	1	1	6	1	2	2	6	1	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:12401935C>T	uc001atv.2	+	41	8866	c.8725C>T	c.(8725-8727)CCC>TCC	p.P2909S	VPS13D_uc001atw.2_Missense_Mutation_p.P2884S|VPS13D_uc001atx.2_Missense_Mutation_p.P2096S	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2908					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		GACCACCACACCCACCAGGTA	0.577													32	64					0	0	1	0	0		T	12401935	T	T	12401935	3	4	103	1	0	0	0	0	1	0	0	0	17218	507	18	4	8883	4	VPS13D	1	12401935	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	42649	12401935	236848686	22	61971											
PRDM2	7799	broad.mit.edu	37	chr1	14075941	14075941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcgattgaggaagagcgagCcagcgcccggagcaagcgga	11	3	17	10	5	0	2	0	1	0	1	0	7	0	5	2	3	6	1	2	3	2	1	rs144833671	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:14075941C>T	uc001avi.2	+	6	1326	c.470C>T	c.(469-471)GCC>GTC	p.A157V	PRDM2_uc001avg.2_Missense_Mutation_p.A157V|PRDM2_uc001avh.2_Missense_Mutation_p.A157V|PRDM2_uc001avj.2_RNA|PRDM2_uc009vod.1_5'UTR|PRDM2_uc001avk.2_5'UTR|PRDM2_uc009voe.2_RNA|PRDM2_uc009vof.2_RNA	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	157						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GAAGAGCGAGCCAGCGCCCGG	0.468													7	19					0	0	1	0	0		T	14075941	T	T	14075941	3	4	103	1	0	0	0	0	1	0	0	0	12480	739	26	2	488	2	PRDM2	1	14075941	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1674006	14075941	235174680	23	61972											
EFHD2	79180	broad.mit.edu	37	chr1	15755104	15755104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaggtccaggccatcaacGtgtccagccgcttcgaggag	8	6	13	14	4	1	0	1	0	0	0	4	2	3	1	4	3	2	2	4	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:15755104G>A	uc001awh.2	+	4	684	c.607G>A	c.(607-609)GTG>ATG	p.V203M		NM_024329	NP_077305	Q96C19	EFHD2_HUMAN	EF-hand domain family, member D2	203						membrane raft					0		Renal(390;0.00145)|Breast(348;0.00173)|Colorectal(325;0.00215)|all_lung(284;0.00366)|Lung NSC(340;0.00395)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)|Hepatocellular(190;0.152)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.59e-07)|COAD - Colon adenocarcinoma(227;3.79e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000119)|KIRC - Kidney renal clear cell carcinoma(229;0.00251)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		GGCCATCAACGTGTCCAGCCG	0.572													3	19					0	0	1	0	0		A	15755104	A	A	15755104	3	1	103	1	0	0	0	0	1	0	0	0	4955	1145	40	1	621	1	EFHD2	1	15755104	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1679163	15755104	233495517	24	61973											
PLEKHM2	23207	broad.mit.edu	37	chr1	16011067	16011067	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgccatggagccgggggAggtgaaggaccggatcctgg	8	4	19	10	3	0	1	0	1	0	0	1	5	1	5	4	7	2	0	4	7	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:16011067A>G	uc010obo.1	+	1	241	c.14A>G	c.(13-15)GAG>GGG	p.E5G		NM_015164	NP_055979	Q8IWE5	PKHM2_HUMAN	pleckstrin homology domain containing, family M	5	Interaction with KIF5B.				Golgi organization	cytoplasm	kinesin binding			ovary(1)	1		Colorectal(325;0.000259)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00057)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		GAGCCGGGGGAGGTGAAGGAC	0.338													5	11					0	0	1	0	0		G	16011067	G	G	16011067	3	3	103	1	0	0	0	0	1	0	0	0	12100	304	11	3	16	3	PLEKHM2	1	16011067	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	255963	16011067	233239554	25	61974											
PLEKHM2	23207	broad.mit.edu	37	chr1	16052022	16052022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacccgccggatgcctgcaCggagctcgaggtcatcaggt	7	6	15	13	4	2	0	2	0	0	0	3	4	2	3	3	5	3	2	3	5	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:16052022C>T	uc010obo.1	+	8	1150	c.923C>T	c.(922-924)ACG>ATG	p.T308M		NM_015164	NP_055979	Q8IWE5	PKHM2_HUMAN	pleckstrin homology domain containing, family M	308	Interaction with KIF5B.				Golgi organization	cytoplasm	kinesin binding			ovary(1)	1		Colorectal(325;0.000259)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00057)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		GATGCCTGCACGGAGCTCGAG	0.657													4	4					0	0	1	0	0		T	16052022	T	T	16052022	3	4	103	1	0	0	0	0	1	0	0	0	12100	536	19	1	953	1	PLEKHM2	1	16052022	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	40955	16052022	233198599	26	61975											
PLEKHM2	23207	broad.mit.edu	37	chr1	16053733	16053733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacggagagcagcgagcgctCcgagccgggcctgctgatcc	7	4	15	15	5	0	2	0	1	0	1	2	5	2	2	4	2	5	3	4	2	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:16053733C>T	uc010obo.1	+	9	1393	c.1166C>T	c.(1165-1167)TCC>TTC	p.S389F		NM_015164	NP_055979	Q8IWE5	PKHM2_HUMAN	pleckstrin homology domain containing, family M	389					Golgi organization	cytoplasm	kinesin binding			ovary(1)	1		Colorectal(325;0.000259)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00057)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		AGCGAGCGCTCCGAGCCGGGC	0.672													10	9					0	0	1	0	0		T	16053733	T	T	16053733	3	4	103	1	0	0	0	0	1	0	0	0	12100	855	30	4	1200	4	PLEKHM2	1	16053733	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1711	16053733	233196888	27	61976											
FAM131C	348487	broad.mit.edu	37	chr1	16389001	16389001	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagtgcactgacctgccaaGgatcccaacagaaatccatc	14	6	7	14	0	0	2	0	1	0	1	3	3	2	3	4	1	3	1	4	1	4	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:16389001G>T	uc001axz.3	-	3	357	c.167C>A	c.(166-168)CCT>CAT	p.P56H	FAM131C_uc010obz.1_Missense_Mutation_p.P56H	NM_182623	NP_872429	Q96AQ9	F131C_HUMAN	hypothetical protein LOC348487	56											0		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.32e-08)|COAD - Colon adenocarcinoma(227;5.56e-06)|BRCA - Breast invasive adenocarcinoma(304;9.12e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00656)|READ - Rectum adenocarcinoma(331;0.0649)		GACCTGCCAAGGATCCCAACA	0.602													3	4					0.115264	0.115772	1	1	0		T	16389001	T	T	16389001	3	4	103	1	0	0	0	0	1	0	0	0	5452	1000	35	5	695	5	FAM131C	1	16389001	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	335268	16389001	232861620	28	61977											
FBXO42	54455	broad.mit.edu	37	chr1	16583174	16583174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgtaggggataagggcttgGccgcgtccagccaccaaaca	10	6	14	11	2	0	0	0	0	0	0	1	1	1	1	4	4	2	2	4	4	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:16583174G>A	uc001ayg.2	-	5	799	c.583C>T	c.(583-585)CCA>TCA	p.P195S	FBXO42_uc001aye.3_5'Flank|FBXO42_uc001ayf.2_Missense_Mutation_p.P102S	NM_018994	NP_061867	Q6P3S6	FBX42_HUMAN	F-box protein 42	195	Kelch 2.									upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00475)|all_lung(284;0.00671)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0193)|Colorectal(212;3.16e-07)|COAD - Colon adenocarcinoma(227;1.46e-05)|BRCA - Breast invasive adenocarcinoma(304;4.37e-05)|Kidney(64;0.000246)|KIRC - Kidney renal clear cell carcinoma(64;0.00336)|STAD - Stomach adenocarcinoma(313;0.0139)|READ - Rectum adenocarcinoma(331;0.0693)		TAAGGGCTTGGCCGCGTCCAG	0.468													20	38					0	0	1	0	0		A	16583174	A	A	16583174	3	1	103	1	0	0	0	0	1	0	0	0	5765	1203	42	2	1594	2	FBXO42	1	16583174	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	194173	16583174	232667447	29	61978											
NBPF1	55672	broad.mit.edu	37	chr1	16914226	16914226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtattcagtgttacctggggGcagatgattccagtactttc	8	14	11	8	0	1	2	1	1	0	1	3	2	2	2	2	2	2	4	2	2	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:16914226G>A	uc009vos.1	-	10	1448	c.560C>T	c.(559-561)GCC>GTC	p.A187V	NBPF1_uc009vot.1_5'Flank|NBPF1_uc001ayz.1_5'Flank|NBPF1_uc010oce.1_Intron	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	187	NBPF 1.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TTACCTGGGGGCAGATGATTC	0.438													84	362					0	0	1	0	0		A	16914226	A	A	16914226	3	1	103	1	0	0	0	0	1	0	0	0	10210	1203	42	2	2944	2	NBPF1	1	16914226	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	331052	16914226	232336395	30	61979											
CROCC	9696	broad.mit.edu	37	chr1	17256811	17256811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccaagacctggaaagcGccctcatccggctggaggag	11	4	13	13	2	1	1	1	0	0	1	2	4	2	4	4	4	2	1	4	4	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:17256811G>A	uc001azt.2	+	6	721	c.652G>A	c.(652-654)GCC>ACC	p.A218T	CROCC_uc009voy.1_5'UTR|CROCC_uc009voz.1_5'UTR	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	218	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		CCTGGAAAGCGCCCTCATCCG	0.677													7	21					0	0	1	0	0		A	17256811	A	A	17256811	3	1	103	1	0	0	0	0	1	0	0	0	3896	1087	38	1	674	1	CROCC	1	17256811	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	342585	17256811	231993810	31	61980											
PAX7	5081	broad.mit.edu	37	chr1	19062247	19062247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagccagctgcagccagcGggccgactccatcaagccag	9	4	11	17	2	2	0	2	0	0	0	3	1	3	0	5	1	6	2	5	1	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:19062247G>A	uc001bay.2	+	8	1875	c.1277G>A	c.(1276-1278)CGG>CAG	p.R426Q	PAX7_uc001baz.2_Missense_Mutation_p.R424Q|PAX7_uc010oct.1_Missense_Mutation_p.R426Q	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	426					anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		TGCAGCCAGCGGGCCGACTCC	0.701			T	FOXO1A	alveolar rhabdomyosarcoma								47	65					0	0	1	0	0		A	19062247	A	A	19062247	3	1	103	1	0	0	0	0	1	0	0	0	11503	1116	39	1	1307	1	PAX7	1	19062247	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1805436	19062247	230188374	32	61981											
HP1BP3	50809	broad.mit.edu	37	chr1	21076290	21076290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtggtagagcaggtcttcGgctcattcatggcagcaatg	9	10	13	9	1	3	1	2	0	1	1	4	1	3	1	0	4	2	5	0	4	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:21076290G>A	uc001bdw.1	-	10	1207	c.1067C>T	c.(1066-1068)CCG>CTG	p.P356L	HP1BP3_uc001bdv.1_Missense_Mutation_p.P318L|HP1BP3_uc010odh.1_Missense_Mutation_p.P318L|HP1BP3_uc001bdy.1_Missense_Mutation_p.P356L|HP1BP3_uc010odf.1_Missense_Mutation_p.P15L|HP1BP3_uc010odg.1_Missense_Mutation_p.P204L	NM_016287	NP_057371	Q5SSJ5	HP1B3_HUMAN	HP1-BP74	356	H15 3.				nucleosome assembly	nucleosome|nucleus	DNA binding			central_nervous_system(1)|skin(1)	2		all_lung(284;6.55e-06)|Lung NSC(340;6.59e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.26e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00015)|GBM - Glioblastoma multiforme(114;0.000521)|Kidney(64;0.000529)|STAD - Stomach adenocarcinoma(196;0.00311)|KIRC - Kidney renal clear cell carcinoma(64;0.00687)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.201)		GCAGGTCTTCGGCTCATTCAT	0.453													41	79					0	0	1	0	0		A	21076290	A	A	21076290	3	1	103	1	0	0	0	0	1	0	0	0	7344	1116	39	1	610	1	HP1BP3	1	21076290	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2014043	21076290	228174331	33	61982											
EIF4G3	8672	broad.mit.edu	37	chr1	21191619	21191619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatacttacagcactggcaGcctcaagttctttctgcttc	10	13	6	12	0	3	0	1	0	2	0	4	0	3	0	1	1	5	4	1	1	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:21191619G>A	uc001bec.2	-	16	2847	c.2591C>T	c.(2590-2592)GCT>GTT	p.A864V	EIF4G3_uc010odi.1_Missense_Mutation_p.A468V|EIF4G3_uc010odj.1_Missense_Mutation_p.A863V|EIF4G3_uc009vpz.2_Missense_Mutation_p.A584V|EIF4G3_uc001bed.2_Missense_Mutation_p.A864V|EIF4G3_uc001bef.2_Missense_Mutation_p.A900V|EIF4G3_uc001bee.2_Missense_Mutation_p.A870V	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	864	eIF3/EIF4A-binding (By similarity).|MIF4G.|HEAT 3.				interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		AGCACTGGCAGCCTCAAGTTC	0.413													48	69					0	0	1	0	0		A	21191619	A	A	21191619	3	1	103	1	0	0	0	0	1	0	0	0	5046	971	34	2	2234	2	EIF4G3	1	21191619	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	115329	21191619	228059002	34	61983											
ALPL	249	broad.mit.edu	37	chr1	21902394	21902394	+	Frame_Shift_Del	DEL	C	-	-																															cttcacatttggtggatacaCcccccgtggcaactctatct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:21902394delC	uc001bet.2	+	10	1423	c.1166delC	c.(1165-1167)ACCfs	p.T389fs	ALPL_uc010odn.1_Frame_Shift_Del_p.T337fs|ALPL_uc010odo.1_Frame_Shift_Del_p.T334fs|ALPL_uc010odp.1_Frame_Shift_Del_p.T312fs|ALPL_uc001beu.3_Frame_Shift_Del_p.T389fs	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase	389					response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	GGTGGATACACCCCCCGTGGC	0.612													64	125	---	---	---	---						.	-	21902394	-	-	21902394	7	5	103	1	0	1	0	1	0	0	0	0	547	507	18	0	1200	0	ALPL	1	21902394	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	710775	21902394	227348227	35	61984											
RAP1GAP	5909	broad.mit.edu	37	chr1	21929366	21929366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcgggagccgaacgggcccGacttcttcctcgtggggctc	4	7	16	14	5	1	0	0	0	1	0	4	3	2	1	3	5	2	1	3	5	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:21929366G>A	uc001bex.2	-	19	1727	c.1469C>T	c.(1468-1470)TCG>TTG	p.S490L	RAP1GAP_uc001bev.2_Missense_Mutation_p.S575L|RAP1GAP_uc001bew.2_Missense_Mutation_p.S554L|RAP1GAP_uc001bey.2_Missense_Mutation_p.S516L	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	490					regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		GAACGGGCCCGACTTCTTCCT	0.652													19	25					0	0	1	0	0		A	21929366	A	A	21929366	3	1	103	1	0	0	0	0	1	0	0	0	13062	1059	37	1	546	1	RAP1GAP	1	21929366	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	26972	21929366	227321255	36	61985											
EPHA8	2046	broad.mit.edu	37	chr1	22925427	22925427	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacctgggctatgtccacCgagacctggccgcccgcaac	8	5	11	17	3	0	2	0	0	0	2	1	3	1	2	6	2	1	2	6	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:22925427C>T	uc001bfx.1	+	13	2400	c.2275C>T	c.(2275-2277)CGA>TGA	p.R759*		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	759	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CTATGTCCACCGAGACCTGGC	0.642													11	25					0	0	1	0	0		T	22925427	T	T	22925427	4	4	103	1	0	0	0	0	0	1	0	0	5181	644	23	1	2498	1	EPHA8	1	22925427	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	996061	22925427	226325194	37	61986											
ASAP3	55616	broad.mit.edu	37	chr1	23782638	23782638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccggagctatggattgccCgcacagccttctttattctc	6	12	10	13	2	2	0	0	0	2	0	3	2	2	2	3	3	3	2	3	3	2	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:23782638C>T	uc001bha.2	-	2	303	c.179G>A	c.(178-180)CGG>CAG	p.R60Q	ASAP3_uc010odz.1_5'UTR|ASAP3_uc010oea.1_Missense_Mutation_p.R60Q|ASAP3_uc001bhc.1_Missense_Mutation_p.R60Q	NM_017707	NP_060177	Q8TDY4	ASAP3_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	60					regulation of ARF GTPase activity	cytoplasm	ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						ATGGATTGCCCGCACAGCCTT	0.582													24	24					0	0	1	0	0		T	23782638	T	T	23782638	3	4	103	1	0	0	0	0	1	0	0	0	1013	652	23	1	2651	1	ASAP3	1	23782638	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	857211	23782638	225467983	38	61987											
IL28RA	163702	broad.mit.edu	37	chr1	24485550	24485550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttgctataccagggcccGtggcatctttgcccgctgaa	7	11	11	12	2	1	1	0	1	1	0	1	2	1	1	3	2	3	3	3	2	3	4	rs146955345		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:24485550G>A	uc001bis.2	-	6	806	c.793C>T	c.(793-795)CGG>TGG	p.R265W	IL28RA_uc001bir.2_Missense_Mutation_p.R265W|IL28RA_uc001bit.2_Intron|IL28RA_uc001biu.2_Missense_Mutation_p.R181W	NM_170743	NP_734464	Q8IU57	I28RA_HUMAN	interleukin 28 receptor, alpha isoform 1	265	Cytoplasmic (Potential).				cytokine-mediated signaling pathway|negative regulation of cell proliferation|regulation of defense response to virus by host	interleukin-28 receptor complex	protein binding|receptor activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00117)|all_lung(284;0.00151)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;3.21e-24)|Colorectal(126;6.61e-08)|COAD - Colon adenocarcinoma(152;3.56e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00918)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.185)		ACCAGGGCCCGTGGCATCTTT	0.552													37	62					0	0	1	0	0		A	24485550	A	A	24485550	3	1	103	1	0	0	0	0	1	0	0	0	7700	1144	40	1	777	1	IL28RA	1	24485550	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	702912	24485550	224765071	39	61988											
AIM1L	55057	broad.mit.edu	37	chr1	26648679	26648679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacgtccaggatctggccttCgaacatctggctgcagatgt	8	10	11	12	2	2	1	0	0	2	1	4	3	3	2	2	3	2	2	2	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:26648679C>T	uc001bmd.3	-	18	2168	c.1738G>A	c.(1738-1740)GAA>AAA	p.E580K		NM_001039775	NP_001034864	Q8N1P7	AIM1L_HUMAN	absent in melanoma 1-like	580	Ricin B-type lectin.						sugar binding			pancreas(1)	1		all_cancers(24;4.67e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.51e-27)|Colorectal(126;1.61e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000792)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.00858)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.165)|LUSC - Lung squamous cell carcinoma(448;0.239)		ATCTGGCCTTCGAACATCTGG	0.622													100	127					0	0	1	0	0		T	26648679	T	T	26648679	3	4	103	1	0	0	0	0	1	0	0	0	431	893	31	1	120	1	AIM1L	1	26648679	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2163129	26648679	222601942	40	61989											
ZNF683	257101	broad.mit.edu	37	chr1	26691260	26691260	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttggccagaggcttggaaGgcccctgggtagggaagcag	8	6	18	9	0	0	1	0	0	0	1	0	3	0	3	3	6	1	4	3	6	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:26691260G>A	uc001bmg.1	-	4	895	c.777C>T	c.(775-777)GCC>GCT	p.A259A	ZNF683_uc001bmh.1_Silent_p.A259A|ZNF683_uc009vsj.1_Silent_p.A259A	NM_173574	NP_775845	Q8IZ20	ZN683_HUMAN	zinc finger protein 683	259					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(24;2.39e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.76e-26)|Colorectal(126;1.38e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00793)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.159)|LUSC - Lung squamous cell carcinoma(448;0.233)		AGGCTTGGAAGGCCCCTGGGT	0.652													13	25					0	0	1	0	0		A	26691260	A	A	26691260	2	1	103	1	0	0	0	0	0	0	0	1	18115	987	35	4		4	ZNF683	1	26691260	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	42581	26691260	222559361	41	61990											
ARID1A	8289	broad.mit.edu	37	chr1	27058097	27058097	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgcttccctccaccgcaggTaagatatccctgcctcctgc	6	9	8	18	2	0	1	0	0	0	1	4	1	4	1	6	1	2	3	6	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:27058097T>C	uc001bmv.1	+	3	2176	c.1803_splice	c.e3+2	p.Q601_splice	ARID1A_uc001bmt.1_Splice_Site_p.Q601_splice|ARID1A_uc001bmu.1_Splice_Site_p.Q601_splice|ARID1A_uc001bmw.1_Splice_Site_p.Q218_splice	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a						androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CCACCGCAGGTAAGATATCCC	0.577			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								44	62					0	0	1	0	0		C	27058097	C	C	27058097	5	2	103	1	0	0	0	0	0	0	1	0	913	1652	57	3	1815	3	ARID1A	1	27058097	Splice_Site	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	366837	27058097	222192524	42	61991											
SLC9A1	6548	broad.mit.edu	37	chr1	27428997	27428997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctggggctccttggagcGctcgccagctatcagacact	7	8	13	13	2	1	1	1	0	0	1	3	3	2	2	2	3	3	4	2	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:27428997G>A	uc001bnm.2	-	8	2325	c.1699C>T	c.(1699-1701)CGC>TGC	p.R567C	SLC9A1_uc001bnl.2_Missense_Mutation_p.R71C|SLC9A1_uc010ofk.1_Missense_Mutation_p.R228C	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	567	Cytoplasmic (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	TCCTTGGAGCGCTCGCCAGCT	0.582											OREG0013277	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	64	82					0	0	1	0	0		A	27428997	A	A	27428997	3	1	103	1	0	0	0	0	1	0	0	0	14734	1087	38	1	768	1	SLC9A1	1	27428997	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	370900	27428997	221821624	43	61992											
RCC1	1104	broad.mit.edu	37	chr1	28864477	28864477	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttatctgtgtccagcgggggCcagcatacagtcttattagt	8	13	11	9	1	2	0	0	0	2	0	3	0	3	0	2	2	3	1	2	2	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:28864477C>T	uc001bqg.1	+	10	1309	c.1224C>T	c.(1222-1224)GGC>GGT	p.G408G	SNHG3-RCC1_uc001bqa.1_Silent_p.G408G|SNHG3-RCC1_uc001bqb.1_Silent_p.G408G|SNHG3-RCC1_uc001bqc.1_Silent_p.G408G|RCC1_uc001bqe.1_Silent_p.G425G|RCC1_uc001bqf.1_Silent_p.G439G	NM_001269	NP_001260	P18754	RCC1_HUMAN	regulator of chromosome condensation 1 isoform	408	RCC1 7.				cell division|chromosome segregation|G1/S transition of mitotic cell cycle|mitosis|mitotic spindle organization|regulation of mitosis|regulation of S phase of mitotic cell cycle|spindle assembly|viral reproduction	condensed nuclear chromosome|cytoplasm|nuclear chromatin|nuclear membrane|nucleoplasm	histone binding|nucleosomal DNA binding|Ran guanyl-nucleotide exchange factor activity			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000318)|all_lung(284;0.000434)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.00989)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)|Medulloblastoma(700;0.123)		Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|KIRC - Kidney renal clear cell carcinoma(1967;0.0101)|BRCA - Breast invasive adenocarcinoma(304;0.022)|READ - Rectum adenocarcinoma(331;0.0649)		CCAGCGGGGGCCAGCATACAG	0.567													11	15					0	0	1	0	0		T	28864477	T	T	28864477	2	4	103	1	0	0	0	0	0	0	0	1	13198	726	26	2		2	RCC1	1	28864477	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1435480	28864477	220386144	44	61993											
PTPRU	10076	broad.mit.edu	37	chr1	29586063	29586063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagcggccgaggccgaacGcttcctcttgcaagtgagcg	8	6	14	13	5	1	2	0	1	1	1	2	4	2	2	3	2	4	2	3	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:29586063G>A	uc001bru.2	+	5	772	c.662G>A	c.(661-663)CGC>CAC	p.R221H	PTPRU_uc001brv.2_Missense_Mutation_p.R221H|PTPRU_uc001brw.2_Missense_Mutation_p.R221H|PTPRU_uc009vtq.2_Missense_Mutation_p.R221H|PTPRU_uc009vtr.2_Missense_Mutation_p.R221H	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	221	Extracellular (Potential).|Ig-like C2-type.				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GAGGCCGAACGCTTCCTCTTG	0.687													15	22					0	0	1	0	0		A	29586063	A	A	29586063	3	1	103	1	0	0	0	0	1	0	0	0	12838	1087	38	1	680	1	PTPRU	1	29586063	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	721586	29586063	219664558	45	61994											
PTPRU	10076	broad.mit.edu	37	chr1	29644433	29644433	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaatgcagccctgactgaCgtgagagcttggggtggagt	9	10	15	7	1	0	3	0	3	0	1	0	5	0	4	1	3	3	2	1	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:29644433C>T	uc001bru.2	+	26	3827	c.3717C>T	c.(3715-3717)GAC>GAT	p.D1239D	PTPRU_uc001brv.2_Silent_p.D1235D|PTPRU_uc001brw.2_Silent_p.D1229D|PTPRU_uc009vtq.2_Silent_p.D1235D|PTPRU_uc009vtr.2_Silent_p.D1226D|PTPRU_uc001brx.2_5'Flank	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	1239	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		CCCTGACTGACGTGAGAGCTT	0.622													11	22					0	0	1	0	0		T	29644433	T	T	29644433	2	4	103	1	0	0	0	0	0	0	0	1	12838	550	19	1		1	PTPRU	1	29644433	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	58370	29644433	219606188	46	61995											
KPNA6	23633	broad.mit.edu	37	chr1	32628102	32628102	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcatagactccggagtctgCcggagattggtagagctgct	8	10	14	9	2	2	3	1	0	1	3	3	5	3	4	2	3	3	3	2	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:32628102C>T	uc001bug.2	+	9	976	c.888C>T	c.(886-888)TGC>TGT	p.C296C	KPNA6_uc001buh.2_Silent_p.C71C|KPNA6_uc010ogx.1_Silent_p.C293C|KPNA6_uc010ogy.1_Silent_p.C301C|KPNA6_uc009vtz.2_Silent_p.C191C	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6	296	ARM 6.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				CCGGAGTCTGCCGGAGATTGG	0.418													34	49					0	0	1	0	0		T	32628102	T	T	32628102	2	4	103	1	0	0	0	0	0	0	0	1	8450	747	26	2		2	KPNA6	1	32628102	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2983669	32628102	216622519	47	61996											
TXLNA	200081	broad.mit.edu	37	chr1	32655736	32655736	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaggtgacactgaatgaCattcagctgcagatggaaca	13	9	10	9	0	1	4	1	3	0	1	2	5	2	5	1	2	3	2	1	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:32655736C>T	uc001bui.2	+	6	914	c.849C>T	c.(847-849)GAC>GAT	p.D283D	TXLNA_uc001buj.2_Silent_p.D283D	NM_175852	NP_787048	P40222	TXLNA_HUMAN	taxilin	283	Potential.				cell proliferation|exocytosis	cytoplasm|extracellular region	cytokine activity|high molecular weight B cell growth factor receptor binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				CACTGAATGACATTCAGCTGC	0.567													5	6					0	0	1	0	0		T	32655736	T	T	32655736	2	4	103	1	0	0	0	0	0	0	0	1	16813	477	17	4		4	TXLNA	1	32655736	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	27634	32655736	216594885	48	61997											
TXLNA	200081	broad.mit.edu	37	chr1	32658000	32658000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggagatgctaaaggaggCagaagagcggcaccagcggg	13	2	17	9	2	0	3	0	0	0	3	0	5	0	4	2	5	3	3	2	5	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:32658000C>T	uc001bui.2	+	7	1117	c.1052C>T	c.(1051-1053)GCA>GTA	p.A351V	TXLNA_uc001buj.2_Missense_Mutation_p.A351V	NM_175852	NP_787048	P40222	TXLNA_HUMAN	taxilin	351	Potential.				cell proliferation|exocytosis	cytoplasm|extracellular region	cytokine activity|high molecular weight B cell growth factor receptor binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				CTAAAGGAGGCAGAAGAGCGG	0.577													23	29					0	0	1	0	0		T	32658000	T	T	32658000	3	4	103	1	0	0	0	0	1	0	0	0	16813	710	25	2	1074	2	TXLNA	1	32658000	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2264	32658000	216592621	49	61998											
TSSK3	81629	broad.mit.edu	37	chr1	32829406	32829406	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccctcttccgtcagatggTtgaggccatccgctactgcc	5	10	11	15	2	2	2	1	1	1	1	4	2	4	2	5	3	2	2	5	3	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:32829406T>C	uc001bvf.2	+	2	797	c.356T>C	c.(355-357)GTT>GCT	p.V119A	uc001bve.1_5'Flank	NM_052841	NP_443073	Q96PN8	TSSK3_HUMAN	testis-specific serine kinase 3	119	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.17)|Breast(348;0.212)				CGTCAGATGGTTGAGGCCATC	0.597													38	57					0	0	1	0	0		C	32829406	C	C	32829406	3	2	103	1	0	0	0	0	1	0	0	0	16696	1725	60	3	362	3	TSSK3	1	32829406	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	171406	32829406	216421215	50	61999											
KIAA1522	57648	broad.mit.edu	37	chr1	33236614	33236614	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggcaaggcccagccccctAaaccagagcgtgtcacgtct	10	5	10	16	2	2	1	1	0	1	1	2	1	2	1	4	2	3	1	4	2	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:33236614A>T	uc001bvv.2	+	6	1793	c.1657A>T	c.(1657-1659)AAA>TAA	p.K553*	KIAA1522_uc001bvu.1_Nonsense_Mutation_p.K612*|KIAA1522_uc010ohm.1_Nonsense_Mutation_p.K564*|KIAA1522_uc010ohn.1_Intron	NM_020888	NP_065939	Q9P206	K1522_HUMAN	hypothetical protein LOC57648	553	Pro-rich.										0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				CCAGCCCCCTAAACCAGAGCG	0.642													38	45					0	0	1	0	0		T	33236614	T	T	33236614	4	4	103	1	0	0	0	0	0	1	0	0	8254	363	13	5	1856	5	KIAA1522	1	33236614	Nonsense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	407208	33236614	216014007	51	62000											
KIAA1522	57648	broad.mit.edu	37	chr1	33236735	33236735	+	Frame_Shift_Del	DEL	C	-	-																															ctctgggccacagatattgaCccccctgggtgacaggtttg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:33236735delC	uc001bvv.2	+	6	1914	c.1778delC	c.(1777-1779)ACCfs	p.T593fs	KIAA1522_uc001bvu.1_Frame_Shift_Del_p.T652fs|KIAA1522_uc010ohm.1_Frame_Shift_Del_p.T604fs|KIAA1522_uc010ohn.1_Intron	NM_020888	NP_065939	Q9P206	K1522_HUMAN	hypothetical protein LOC57648	593	Pro-rich.										0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				CAGATATTGACCCCCCTGGGT	0.637													61	98	---	---	---	---						.	-	33236735	-	-	33236735	7	5	103	1	0	1	0	1	0	0	0	0	8254	507	18	0	1977	0	KIAA1522	1	33236735	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	121	33236735	216013886	52	62001											
TFAP2E	339488	broad.mit.edu	37	chr1	36053953	36053953	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccatcccctccaaagccagCagcctctcagccctctcctt	7	8	4	22	0	2	0	1	0	2	0	6	0	4	0	8	0	4	1	8	0	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:36053953C>T	uc010ohy.1	+	4	793	c.585C>T	c.(583-585)AGC>AGT	p.S195S	PSMB2_uc001bzd.1_Intron	NM_178548	NP_848643	Q6VUC0	AP2E_HUMAN	transcription factor AP-2 epsilon (activating	195						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.196)				CCAAAGCCAGCAGCCTCTCAG	0.488													5	65					0	0	1	0	0		T	36053953	T	T	36053953	2	4	103	1	0	0	0	0	0	0	0	1	15816	709	25	2		2	TFAP2E	1	36053953	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2817218	36053953	213196668	53	62002											
EIF2C1	26523	broad.mit.edu	37	chr1	36384666	36384666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcttcccagggcaccagccGaccatcccattactatgttc	9	10	6	16	1	1	0	0	0	1	0	4	1	3	0	5	1	2	2	5	1	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:36384666G>A	uc001bzl.2	+	18	2489	c.2276G>A	c.(2275-2277)CGA>CAA	p.R759Q	EIF2C1_uc001bzk.2_Missense_Mutation_p.R684Q|EIF2C1_uc009vuy.2_RNA	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	759	Piwi.				negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GGCACCAGCCGACCATCCCAT	0.522													15	19					0	0	1	0	0		A	36384666	A	A	36384666	3	1	103	1	0	0	0	0	1	0	0	0	5011	1058	37	1	2346	1	EIF2C1	1	36384666	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	330713	36384666	212865955	54	62003											
MAP7D1	55700	broad.mit.edu	37	chr1	36636750	36636750	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagagcccctcagggcaggtCgggcctaggccagccccccc	6	3	14	18	1	1	1	1	0	0	1	2	2	1	1	7	4	2	1	7	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:36636750C>T	uc001bzz.2	+	2	441	c.225C>T	c.(223-225)GTC>GTT	p.V75V	MAP7D1_uc001caa.2_Silent_p.V75V|MAP7D1_uc001cab.2_Silent_p.V75V|MAP7D1_uc001cac.2_5'Flank	NM_018067	NP_060537	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	75	Pro-rich.					cytoplasm|spindle				ovary(3)|breast(2)	5		Myeloproliferative disorder(586;0.0393)				CAGGGCAGGTCGGGCCTAGGC	0.662													29	37					0	0	1	0	0		T	36636750	T	T	36636750	2	4	103	1	0	0	0	0	0	0	0	1	9285	871	31	1		1	MAP7D1	1	36636750	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	252084	36636750	212613871	55	62004											
C1orf113	79729	broad.mit.edu	37	chr1	36785787	36785787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaattccatcacttctcttCggaggaagccctgcagaagg	10	10	9	12	1	3	1	2	0	1	1	6	3	4	3	2	3	2	1	2	3	3	3	rs150094016	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:36785787C>T	uc010oia.1	+	14	1551	c.1523C>T	c.(1522-1524)TCG>TTG	p.S508L	C1orf113_uc010oib.1_Missense_Mutation_p.S397L|C1orf113_uc010oic.1_RNA|C1orf113_uc009vuz.1_Missense_Mutation_p.S154L	NM_001162530	NP_001156002	A4FU49	SH321_HUMAN	SH3 domain-containing protein C1orf113 isoform	392											0		Myeloproliferative disorder(586;0.0393)				CACTTCTCTTCGGAGGAAGCC	0.557													28	35					0	0	1	0	0		T	36785787	T	T	36785787	3	4	103	1	0	0	0	0	1	0	0	0	1989	893	31	1	1577	1	C1orf113	1	36785787	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	149037	36785787	212464834	56	62005											
MRPS15	64960	broad.mit.edu	37	chr1	36921447	36921447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggctgtctgggttcctcCgctttgcttgtttttgggct	1	17	13	10	1	1	0	0	0	1	0	3	0	3	0	2	3	1	6	2	3	0	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:36921447C>T	uc001cas.2	-	8	880	c.716G>A	c.(715-717)CGG>CAG	p.R239Q		NM_031280	NP_112570	P82914	RT15_HUMAN	mitochondrial ribosomal protein S15 precursor	239					translation	mitochondrial small ribosomal subunit|nuclear membrane	structural constituent of ribosome			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TGGGTTCCTCCGCTTTGCTTG	0.463													56	70					0	0	1	0	0		T	36921447	T	T	36921447	3	4	103	1	0	0	0	0	1	0	0	0	9843	652	23	1	61	1	MRPS15	1	36921447	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	135660	36921447	212329174	57	62006											
CSF3R	1441	broad.mit.edu	37	chr1	36934824	36934824	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctggtacaagggagtcacGatgatctcatagagctgaaa	13	9	11	8	1	2	3	2	2	1	1	4	5	3	4	1	2	2	2	1	2	4	2	rs142503546		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:36934824G>A	uc001caw.1	-	12	1687	c.1509C>T	c.(1507-1509)ATC>ATT	p.I503I	CSF3R_uc001cat.1_Silent_p.I66I|CSF3R_uc009vvc.1_Intron|CSF3R_uc001cau.1_5'UTR|CSF3R_uc001cav.1_Silent_p.I503I|CSF3R_uc001cax.1_Silent_p.I503I|CSF3R_uc001cay.1_Silent_p.I503I	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	503	Extracellular (Potential).|Fibronectin type-III 4.				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	AGGGAGTCACGATGATCTCAT	0.498													21	25					0	0	1	0	0		A	36934824	A	A	36934824	2	1	103	1	0	0	0	0	0	0	0	1	3940	1048	37	1		1	CSF3R	1	36934824	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	13377	36934824	212315797	58	62007											
EPHA10	284656	broad.mit.edu	37	chr1	38227453	38227453	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccctgcgtgaagctctcGtccgccgcgatcgtgtcgat	4	10	12	15	8	1	1	0	1	1	0	6	3	2	1	3	0	2	1	3	0	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:38227453G>A	uc009vvi.2	-	3	560	c.474C>T	c.(472-474)GAC>GAT	p.D158D	EPHA10_uc001cbw.3_Silent_p.D158D	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	158	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TGAAGCTCTCGTCCGCCGCGA	0.667													28	37					0	0	1	0	0		A	38227453	A	A	38227453	2	1	103	1	0	0	0	0	0	0	0	1	5174	1136	40	1		1	EPHA10	1	38227453	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1292629	38227453	211023168	59	62008											
MTF1	4520	broad.mit.edu	37	chr1	38288281	38288281	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggctggggtggctcggagaGgccaggttgcagtacaagtg	8	7	19	7	1	0	1	0	0	0	1	1	2	0	1	1	7	2	5	1	7	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:38288281G>T	uc001cce.1	-	9	1420	c.1279C>A	c.(1279-1281)CTC>ATC	p.L427I	MTF1_uc009vvj.1_Missense_Mutation_p.L118I	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	427	Pro-rich.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GGCTCGGAGAGGCCAGGTTGC	0.547													26	36					2.79863e-10	2.91803e-10	1	1	0		T	38288281	T	T	38288281	3	4	103	1	0	0	0	0	1	0	0	0	9940	1000	35	5	994	5	MTF1	1	38288281	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	60828	38288281	210962340	60	62009											
POU3F1	5453	broad.mit.edu	37	chr1	38512179	38512179	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcccaatcgccgccgccGcctcctcccgtgggtagcca	4	5	11	21	6	0	0	0	0	0	0	3	0	2	0	9	2	1	1	9	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:38512179G>T	uc001ccp.1	-	1	272	c.237C>A	c.(235-237)GGC>GGA	p.G79G		NM_002699	NP_002690	Q03052	PO3F1_HUMAN	POU domain, class 3, transcription factor 1	79	Gly-rich.				positive regulation of transcription, DNA-dependent		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CGCCGCCGCCGCCTCCTCCCG	0.567													4	3					0.150653	0.151095	1	1	0		T	38512179	T	T	38512179	2	4	103	1	0	0	0	0	0	0	0	1	12293	1074	38	5		5	POU3F1	1	38512179	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	223898	38512179	210738442	61	62010											
PPT1	5538	broad.mit.edu	37	chr1	40546109	40546109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaagaagatgctgtggttgCgatacacatcctcctttatg	10	12	9	10	1	0	2	0	0	0	2	2	3	2	2	3	1	3	2	3	1	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:40546109C>T	uc001cfb.2	-	6	819	c.587G>A	c.(586-588)CGC>CAC	p.R196H	PPT1_uc010ojf.1_Missense_Mutation_p.R146H|PPT1_uc010ojg.1_Missense_Mutation_p.R93H|PPT1_uc009vwa.2_RNA	NM_000310	NP_000301	P50897	PPT1_HUMAN	palmitoyl-protein thioesterase 1 isoform 1	196					brain development|cofactor metabolic process|cofactor transport|DNA fragmentation involved in apoptotic nuclear change|lysosomal lumen acidification|membrane raft organization|negative regulation of cell growth|negative regulation of neuron apoptosis|neuron development|pinocytosis|positive regulation of pinocytosis|positive regulation of receptor-mediated endocytosis|protein depalmitoylation|protein transport|receptor-mediated endocytosis|regulation of synapse structure and activity|sphingolipid catabolic process|visual perception	axon|cytosol|Golgi apparatus|lysosome|membrane fraction|membrane raft|nucleus|synaptic vesicle	palmitoyl-(protein) hydrolase activity|palmitoyl-CoA hydrolase activity			ovary(1)	1	Lung NSC(20;3.43e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1e-18)|Epithelial(16;3.6e-17)|all cancers(16;1.1e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GCTGTGGTTGCGATACACATC	0.468													89	151					0	0	1	0	0		T	40546109	T	T	40546109	3	4	103	1	0	0	0	0	1	0	0	0	12433	768	27	1	349	1	PPT1	1	40546109	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2033930	40546109	208704512	62	62011											
HIVEP3	59269	broad.mit.edu	37	chr1	42047178	42047178	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccttgcctcccgggggTccaccatgtgaggtggccgc	3	7	16	15	2	0	1	0	1	0	0	2	1	2	1	6	5	1	0	6	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:42047178T>A	uc001cgz.3	-	4	4504	c.3291A>T	c.(3289-3291)GGA>GGT	p.G1097G	HIVEP3_uc001cha.3_Silent_p.G1097G|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1097					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CTCCCGGGGGTCCACCATGTG	0.612													7	54					0	0	1	0	0		A	42047178	A	A	42047178	2	1	103	1	0	0	0	0	0	0	0	1	7204	1654	58	5		5	HIVEP3	1	42047178	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1501069	42047178	207203443	63	62012											
ELOVL1	64834	broad.mit.edu	37	chr1	43831048	43831048	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtagccctggatccggggatCtatgaataagggtcaaagga	12	8	14	7	1	2	1	1	1	1	0	3	4	3	4	2	5	1	1	2	5	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:43831048C>T	uc001ciz.2	-	4	290	c.47_splice	c.e4-1	p.D16_splice	ELOVL1_uc001cja.2_Splice_Site_p.D16_splice|ELOVL1_uc001cjb.2_Splice_Site_p.D16_splice|ELOVL1_uc001cjc.2_Splice_Site|ELOVL1_uc010okh.1_Splice_Site_p.D16_splice	NM_022821	NP_073732	Q9BW60	ELOV1_HUMAN	elongation of very long chain fatty acids-like						fatty acid elongation, monounsaturated fatty acid|fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|sphingolipid biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	fatty acid elongase activity|protein binding				0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ATCCGGGGATCTATGAATAAG	0.517													11	6					0	0	1	0	0		T	43831048	T	T	43831048	5	4	103	1	0	0	0	0	0	0	1	0	5081	927	32	4	817	4	ELOVL1	1	43831048	Splice_Site	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1783870	43831048	205419573	64	62013											
ST3GAL3	6487	broad.mit.edu	37	chr1	44202014	44202014	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatttttgtattattctgcGtggaagctacacttactcca	9	16	8	8	1	1	0	0	0	1	0	2	2	2	2	1	2	4	2	1	2	5	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:44202014G>A	uc001ckc.2	+	2	258	c.81G>A	c.(79-81)GCG>GCA	p.A27A	ST3GAL3_uc009vwu.1_RNA|ST3GAL3_uc010okj.1_RNA|ST3GAL3_uc001cjz.2_Silent_p.A27A|ST3GAL3_uc001cka.2_Silent_p.A27A|ST3GAL3_uc001ckb.2_Silent_p.A27A|ST3GAL3_uc001ckd.2_Silent_p.A27A|ST3GAL3_uc001cke.2_Silent_p.A27A|ST3GAL3_uc001ckf.2_Silent_p.A27A|ST3GAL3_uc001ckg.2_Silent_p.A27A|ST3GAL3_uc001ckh.2_Silent_p.A27A|ST3GAL3_uc001cki.2_Silent_p.A27A|ST3GAL3_uc009vwv.2_Silent_p.A27A|ST3GAL3_uc001ckj.2_RNA|ST3GAL3_uc009vww.2_RNA|ST3GAL3_uc001ckk.2_Silent_p.A27A|ST3GAL3_uc009vwy.2_Translation_Start_Site|ST3GAL3_uc009vwx.2_RNA|ST3GAL3_uc001ckm.2_Silent_p.A27A|ST3GAL3_uc001ckl.2_Silent_p.A27A|ST3GAL3_uc009vwz.2_Translation_Start_Site|ST3GAL3_uc001ckn.2_RNA|ST3GAL3_uc001ckp.2_Silent_p.A27A|ST3GAL3_uc001cko.2_Silent_p.A27A|ST3GAL3_uc009vxa.2_Translation_Start_Site|ST3GAL3_uc001ckq.2_Silent_p.A27A|ST3GAL3_uc001ckr.2_Silent_p.A27A|ST3GAL3_uc009vxb.2_Silent_p.A27A	NM_006279	NP_006270	Q11203	SIAT6_HUMAN	sialyltransferase 6 isoform j	27	Helical; Signal-anchor for type II membrane protein; (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	N-acetyllactosaminide alpha-2,3-sialyltransferase activity			ovary(3)	3	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0518)				ATTATTCTGCGTGGAAGCTAC	0.468													60	64					0	0	1	0	0		A	44202014	A	A	44202014	2	1	103	1	0	0	0	0	0	0	0	1	15241	1132	40	1		1	ST3GAL3	1	44202014	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	370966	44202014	205048607	65	62014											
KIF2C	11004	broad.mit.edu	37	chr1	45226082	45226082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagggaatgagcgaggcGcggacacttccagtgctgac	9	6	16	10	3	0	2	0	2	0	0	1	5	1	4	1	4	2	2	1	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:45226082G>A	uc001cmg.3	+	15	1613	c.1498G>A	c.(1498-1500)GCG>ACG	p.A500T	KIF2C_uc010olb.1_Missense_Mutation_p.A459T|KIF2C_uc010olc.1_Missense_Mutation_p.A387T|KIF2C_uc001cmh.3_Missense_Mutation_p.A446T	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	500	Kinesin-motor.				blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TGAGCGAGGCGCGGACACTTC	0.557													20	20					0	0	1	0	0		A	45226082	A	A	45226082	3	1	103	1	0	0	0	0	1	0	0	0	8315	1087	38	1	1556	1	KIF2C	1	45226082	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1024068	45226082	204024539	66	62015											
MKNK1	8569	broad.mit.edu	37	chr1	47024370	47024370	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggccatcagctagtgcCtctggctcctctgctagttc	6	11	10	14	0	3	1	1	0	2	1	5	1	4	1	3	2	3	4	3	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:47024370C>A	uc001cqb.2	-	14	1519	c.1275G>T	c.(1273-1275)GAG>GAT	p.E425D	MKNK1_uc010omd.1_Missense_Mutation_p.E289D|MKNK1_uc001cqc.2_Missense_Mutation_p.E384D|MKNK1_uc009vyi.2_3'UTR|MKNK1_uc010ome.1_3'UTR	NM_003684	NP_003675	Q9BUB5	MKNK1_HUMAN	MAP kinase-interacting serine/threonine kinase 1	425					intracellular protein kinase cascade|peptidyl-serine phosphorylation|regulation of translation	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2	Acute lymphoblastic leukemia(166;0.155)					CAGCTAGTGCCTCTGGCTCCT	0.617													31	44					2.61193e-14	2.76265e-14	1	1	0		A	47024370	A	A	47024370	3	1	103	1	0	0	0	0	1	0	0	0	9622	680	24	5	126	5	MKNK1	1	47024370	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1798288	47024370	202226251	67	62016											
MOBKL2C	148932	broad.mit.edu	37	chr1	47078650	47078650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagcaatgccatatagcgcGgcgcagagagcttggcgggc	9	6	16	10	4	0	2	0	1	0	1	0	3	0	2	1	3	4	3	1	3	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:47078650G>A	uc001cqf.3	-	2	575	c.344C>T	c.(343-345)CCG>CTG	p.P115L	MKNK1_uc010omf.1_Intron|MOBKL2C_uc001cqe.3_Missense_Mutation_p.P167L	NM_201403	NP_958805	Q70IA8	MOL2C_HUMAN	MOB1, Mps One Binder kinase activator-like 2C	115							metal ion binding			pancreas(1)	1	Acute lymphoblastic leukemia(166;0.155)					CATATAGCGCGGCGCAGAGAG	0.657													19	32					0	0	1	0	0		A	47078650	A	A	47078650	3	1	103	1	0	0	0	0	1	0	0	0	9704	1116	39	1	318	1	MOBKL2C	1	47078650	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	54280	47078650	202171971	68	62017											
FOXD2	2306	broad.mit.edu	37	chr1	47903854	47903854	+	Frame_Shift_Del	DEL	C	-	-																															gatcatgtcctccgagagctCcccggccgcgctgtccgagg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:47903854delC	uc001crm.2	+	1	2166	c.47delC	c.(46-48)TCCfs	p.S16fs		NM_004474	NP_004465	O60548	FOXD2_HUMAN	forkhead box D2	16					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0				READ - Rectum adenocarcinoma(2;0.0908)		TCCGAGAGCTCCCCGGCCGCG	0.677													4	7	---	---	---	---						.	-	47903854	-	-	47903854	7	5	103	1	0	1	0	1	0	0	0	0	6011	855	30	0	49	0	FOXD2	1	47903854	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	825204	47903854	201346767	69	62018											
SSBP3	23648	broad.mit.edu	37	chr1	54694479	54694479	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccgcccatcggaccgtcCgagccgggacccatcgggaa	8	4	13	16	6	0	0	0	0	0	0	3	4	1	3	6	3	2	0	6	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:54694479C>T	uc001cxe.2	-	15	1246	c.948G>A	c.(946-948)TCG>TCA	p.S316S	SSBP3_uc001cxf.2_Silent_p.S296S|SSBP3_uc001cxg.2_Silent_p.S289S|SSBP3_uc001cxd.2_Silent_p.S5S	NM_145716	NP_663768	Q9BWW4	SSBP3_HUMAN	single stranded DNA binding protein 3 isoform a	316	Gly-rich.|Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	single-stranded DNA binding				0						TCGGACCGTCCGAGCCGGGAC	0.687													7	14					0	0	1	0	0		T	54694479	T	T	54694479	2	4	103	1	0	0	0	0	0	0	0	1	15206	639	23	1		1	SSBP3	1	54694479	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	6790625	54694479	194556142	70	62019											
PCSK9	255738	broad.mit.edu	37	chr1	55524222	55524222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacactcggggcctacaCggatggccacagccgtcgcc	8	4	12	17	4	0	0	0	0	0	0	2	1	0	1	4	4	3	1	4	4	1	1	rs141502002	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:55524222C>T	uc001cyf.1	+	9	1696	c.1405C>T	c.(1405-1407)CGG>TGG	p.R469W	PCSK9_uc010oom.1_RNA	NM_174936	NP_777596	Q8NBP7	PCSK9_HUMAN	proprotein convertase subtilisin/kexin type 9	469			R -> W.		cellular response to insulin stimulus|cellular response to starvation|cholesterol homeostasis|cholesterol metabolic process|kidney development|liver development|low-density lipoprotein particle receptor catabolic process|lysosomal transport|negative regulation of catalytic activity|negative regulation of low-density lipoprotein particle clearance|negative regulation of receptor recycling|neuron differentiation|positive regulation of neuron apoptosis|positive regulation of receptor internalization|protein autoprocessing|regulation of receptor activity	extracellular space|late endosome|lysosome|perinuclear region of cytoplasm	apolipoprotein receptor binding|identical protein binding|low-density lipoprotein particle receptor binding|serine-type endopeptidase activity|very-low-density lipoprotein particle receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4						GGGGCCTACACGGATGGCCAC	0.647													13	46					0	0	1	0	0		T	55524222	T	T	55524222	3	4	103	1	0	0	0	0	1	0	0	0	11625	527	19	1	1439	1	PCSK9	1	55524222	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	829743	55524222	193726399	71	62020											
PRKAA2	5563	broad.mit.edu	37	chr1	57169680	57169680	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaacaagatttgcccagttaCttatttcctgaagacccttc	12	13	5	11	0	0	3	0	1	0	2	2	3	1	3	3	0	3	1	3	0	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:57169680C>T	uc001cyk.3	+	7	896	c.825C>T	c.(823-825)TAC>TAT	p.Y275Y		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	275					carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						TGCCCAGTTACTTATTTCCTG	0.353													63	101					0	0	1	0	0		T	57169680	T	T	57169680	2	4	103	1	0	0	0	0	0	0	0	1	12516	576	20	4		4	PRKAA2	1	57169680	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1645458	57169680	192080941	72	62021											
C1orf168	199920	broad.mit.edu	37	chr1	57258264	57258264	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactttattttctgaggttgAagaggctgggactcactact	10	14	10	7	0	2	3	1	2	1	1	2	4	2	4	0	3	2	2	0	3	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:57258264A>G	uc001cym.3	-	2	628	c.222T>C	c.(220-222)CTT>CTC	p.L74L	C1orf168_uc009vzu.1_RNA|C1orf168_uc009vzv.1_Silent_p.L74L	NM_001004303	NP_001004303	Q5VWT5	CA168_HUMAN	hypothetical protein LOC199920	74										ovary(3)|skin(2)	5						TCTGAGGTTGAAGAGGCTGGG	0.468													53	72					0	0	1	0	0		G	57258264	G	G	57258264	2	3	103	1	0	0	0	0	0	0	0	1	2015	233	9	3		3	C1orf168	1	57258264	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	88584	57258264	191992357	73	62022											
DAB1	1600	broad.mit.edu	37	chr1	57480759	57480759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatctggaaatccttaaacGtttctttgcccattttctgc	8	16	5	12	1	3	0	0	0	3	0	4	1	4	1	3	1	3	1	3	1	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:57480759G>A	uc001cys.1	-	14	1915	c.1241C>T	c.(1240-1242)ACG>ATG	p.T414M	DAB1_uc001cyt.1_Missense_Mutation_p.T412M|DAB1_uc001cyq.1_Missense_Mutation_p.T412M|DAB1_uc001cyr.1_Missense_Mutation_p.T328M|DAB1_uc009vzw.1_Missense_Mutation_p.T396M|DAB1_uc009vzx.1_Missense_Mutation_p.T414M	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	447					cell differentiation|nervous system development					skin(2)|ovary(1)	3						ATCCTTAAACGTTTCTTTGCC	0.607													17	50					0	0	1	0	0		A	57480759	A	A	57480759	3	1	103	1	0	0	0	0	1	0	0	0	4220	1145	40	1	438	1	DAB1	1	57480759	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	222495	57480759	191769862	74	62023											
FGGY	55277	broad.mit.edu	37	chr1	59978070	59978070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccttctccctgggattgCggtcgcagcttcactcattg	4	13	11	13	2	3	0	2	0	1	0	5	1	3	1	2	3	2	2	2	3	0	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:59978070C>T	uc001czi.3	+	7	970	c.758C>T	c.(757-759)GCG>GTG	p.A253V	FGGY_uc001czg.2_Missense_Mutation_p.A141V|FGGY_uc001czh.2_RNA|FGGY_uc009wac.2_Missense_Mutation_p.A253V|FGGY_uc001czj.3_Missense_Mutation_p.A253V|FGGY_uc001czk.3_Missense_Mutation_p.A141V|FGGY_uc001czl.3_Missense_Mutation_p.A165V	NM_018291	NP_060761	Q96C11	FGGY_HUMAN	FGGY carbohydrate kinase domain containing	253					carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)					CCTGGGATTGCGGTCGCAGCT	0.498													44	54					0	0	1	0	0		T	59978070	T	T	59978070	3	4	103	1	0	0	0	0	1	0	0	0	5885	768	27	1	780	1	FGGY	1	59978070	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2497311	59978070	189272551	75	62024											
HOOK1	51361	broad.mit.edu	37	chr1	60314140	60314140	+	Frame_Shift_Del	DEL	A	-	-																															gtcagcttagaagaagaattAaaaaaagcaaatgcagcacg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:60314140delA	uc009wad.2	+	12	1185	c.1083delA	c.(1081-1083)TTAfs	p.L361fs	HOOK1_uc001czo.2_Frame_Shift_Del_p.L361fs|HOOK1_uc001czp.2_RNA|HOOK1_uc010oor.1_Frame_Shift_Del_p.L319fs	NM_015888	NP_056972	Q9UJC3	HOOK1_HUMAN	hook homolog 1	361	Potential.|Sufficient for interaction with microtubules.				early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|multicellular organismal development|protein transport	FHF complex|microtubule	identical protein binding			ovary(1)|breast(1)	2	all_cancers(7;0.000129)					AAGAAGAATTAAAAAAAGCAA	0.318													33	76	---	---	---	---						.	-	60314140	-	-	60314140	7	5	103	1	0	1	0	1	0	0	0	0	7298	359	13	0	1125	0	HOOK1	1	60314140	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	336070	60314140	188936481	76	62025											
C1orf87	127795	broad.mit.edu	37	chr1	60491137	60491137	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccagcaggctcagggtcaGatataatccatgcttcccac	10	10	8	13	0	2	1	2	0	0	1	5	1	5	1	3	2	2	3	3	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:60491137G>A	uc001czs.1	-	8	1155	c.1063C>T	c.(1063-1065)CTG>TTG	p.L355L		NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	355							calcium ion binding			ovary(1)|breast(1)	2						CTCAGGGTCAGATATAATCCA	0.294													33	52					0	0	1	0	0		A	60491137	A	A	60491137	2	1	103	1	0	0	0	0	0	0	0	1	2067	933	33	4		4	C1orf87	1	60491137	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	176997	60491137	188759484	77	62026											
KANK4	163782	broad.mit.edu	37	chr1	62740426	62740427	+	Frame_Shift_Ins	INS	-	G	G																															actcctgcttgttgaggcctINSggggggcattaccaagcggt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:62740426_62740427insG	uc001dah.3	-	3	726_727	c.349_350insC	c.(349-351)CAGfs	p.Q117fs	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	117										ovary(3)|skin(2)|lung(1)	6						TGTTGAGGCCTGGGGGGCATTA	0.609													29	57	---	---	---	---						.	G	62740427	G	G	62740426	7	5	103	1	0	1	1	0	0	0	0	0	7995	1580	55	0	2669	0	KANK4	1	62740426	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	2249289	62740426	186510195	78	62027											
DOCK7	85440	broad.mit.edu	37	chr1	62961311	62961311	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttccttcattttcacagtAtcagaaagaatcatatggag	13	14	7	7	0	4	2	4	0	0	2	5	3	5	3	1	1	0	2	1	1	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:62961311A>T	uc001daq.2	-	39	4972	c.4938T>A	c.(4936-4938)GAT>GAA	p.D1646E	DOCK7_uc001dan.2_Missense_Mutation_p.D1507E|DOCK7_uc001dao.2_Missense_Mutation_p.D1507E|DOCK7_uc001dap.2_Missense_Mutation_p.D1624E|DOCK7_uc001dam.2_Missense_Mutation_p.D826E|DOCK7_uc010oov.1_Missense_Mutation_p.D385E	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1655	DHR-2.				activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						TTTTCACAGTATCAGAAAGAA	0.348													14	41					0	0	1	0	0		T	62961311	T	T	62961311	3	4	103	1	0	0	0	0	1	0	0	0	4698	446	16	5	1505	5	DOCK7	1	62961311	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	220885	62961311	186289310	79	62028											
ALG6	29929	broad.mit.edu	37	chr1	63876980	63876980	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttacttggcaagtgttttAaaaaaggcctcaaaggaaag	15	12	9	5	0	1	0	1	0	0	0	1	1	1	1	1	3	1	2	1	3	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:63876980A>T	uc010oow.1	+	8	963	c.658A>T	c.(658-660)AAA>TAA	p.K220*	ALG6_uc001daz.2_RNA|ALG6_uc009waj.2_RNA|ALG6_uc010oox.1_Nonsense_Mutation_p.K19*	NM_013339	NP_037471	Q9Y672	ALG6_HUMAN	dolichyl pyrophosphate Man9GlcNAc2	220					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity				0						CAAGTGTTTTAAAAAAGGCCT	0.353													21	35					0	0	1	0	0		T	63876980	T	T	63876980	4	4	103	1	0	0	0	0	0	1	0	0	522	363	13	5	684	5	ALG6	1	63876980	Nonsense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	915669	63876980	185373641	80	62029											
EFCAB7	84455	broad.mit.edu	37	chr1	64027499	64027499	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggtaactctacactctatgGgctacaataaagctctggag	12	10	10	9	0	3	0	0	0	3	0	3	1	3	1	0	3	4	3	0	3	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:64027499G>T	uc001dbf.2	+	11	1762	c.1468G>T	c.(1468-1470)GGC>TGC	p.G490C		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	490							calcium ion binding				0						ACACTCTATGGGCTACAATAA	0.348													15	26					2.48551e-13	2.61948e-13	1	1	0		T	64027499	T	T	64027499	3	4	103	1	0	0	0	0	1	0	0	0	4946	1232	43	5	1506	5	EFCAB7	1	64027499	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	150519	64027499	185223122	81	62030											
RAVER2	55225	broad.mit.edu	37	chr1	65296646	65296647	+	Frame_Shift_Ins	INS	-	A	A																															tattacatggaaacttacttINSaaaaaagaagcgagtatact																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:65296646_65296647insA	uc001dbs.1	+	12	2093_2094	c.2015_2016insA	c.(2014-2016)TTAfs	p.L672fs	RAVER2_uc001dbt.1_Frame_Shift_Ins_p.L564fs|RAVER2_uc010opb.1_Frame_Shift_Ins_p.L397fs	NM_018211	NP_060681	Q9HCJ3	RAVR2_HUMAN	ribonucleoprotein, PTB-binding 2	685						cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)	1						GAAACTTACTTAAAAAAGAAGC	0.446													54	115	---	---	---	---						.	A	65296647	A	A	65296646	7	5	103	1	0	1	1	0	0	0	0	0	13120	1764	61	0	2061	0	RAVER2	1	65296646	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	1269147	65296646	183953975	82	62031											
IL12RB2	3595	broad.mit.edu	37	chr1	67861595	67861595	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggctacttaccctccaaCatagatgacctcccctcaca	11	9	5	16	0	1	2	1	1	0	1	3	3	3	2	5	1	3	1	5	1	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:67861595C>T	uc001ddu.2	+	16	3052	c.2412C>T	c.(2410-2412)AAC>AAT	p.N804N	IL12RB2_uc010oqi.1_3'UTR|IL12RB2_uc010oqj.1_3'UTR|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Silent_p.N718N|IL12RB2_uc010oqm.1_3'UTR|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	804	Cytoplasmic (Potential).			N->A: No effect on in vitro STAT4 binding to a phosphorylated Y-800 peptide.	positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						TACCCTCCAACATAGATGACC	0.572													97	145					0	0	1	0	0		T	67861595	T	T	67861595	2	4	103	1	0	0	0	0	0	0	0	1	7643	477	17	4		4	IL12RB2	1	67861595	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2564949	67861595	181389026	83	62032											
LRRC7	57554	broad.mit.edu	37	chr1	70504693	70504693	+	Frame_Shift_Del	DEL	A	-	-																															caacaaaaagcttctatgacAaaaaaagtctatcagtttga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:70504693delA	uc001dep.2	+	19	3102	c.3072delA	c.(3070-3072)ACAfs	p.T1024fs	LRRC7_uc009wbg.2_Frame_Shift_Del_p.T308fs|LRRC7_uc001deq.2_Frame_Shift_Del_p.T265fs	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1024						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CTTCTATGACAAAAAAAGTCT	0.453													14	23	---	---	---	---						.	-	70504693	-	-	70504693	7	5	103	1	0	1	0	1	0	0	0	0	9038	117	5	0	3146	0	LRRC7	1	70504693	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	2643098	70504693	178745928	84	62033											
ZRANB2	9406	broad.mit.edu	37	chr1	71544212	71544212	+	Frame_Shift_Del	DEL	C	-	-																															gtgtctttcctatttcagtgCccccagctttcatcatcttg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:71544212delC	uc001dft.2	-	3	213	c.146delG	c.(145-147)GGCfs	p.G49fs	uc001dfu.1_5'Flank|ZRANB2_uc001dfs.2_Frame_Shift_Del_p.G49fs	NM_203350	NP_976225	O95218	ZRAB2_HUMAN	zinc finger protein 265 isoform 1	49					mRNA processing|RNA splicing	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						TATTTCAGTGCCCCCAGCTTT	0.358													59	101	---	---	---	---						.	-	71544212	-	-	71544212	7	5	103	1	0	1	0	1	0	0	0	0	18248	739	26	0	916	0	ZRANB2	1	71544212	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	1039519	71544212	177706409	85	62034											
LRRIQ3	127255	broad.mit.edu	37	chr1	74649219	74649219	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagatgcatactctaagagaGatgcaagactgcaaattttc	16	10	8	7	0	1	4	0	0	1	4	2	5	1	4	0	0	4	3	0	0	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:74649219G>A	uc001dfy.3	-	2	342	c.150C>T	c.(148-150)ATC>ATT	p.I50I	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	50										ovary(2)	2						ctctaagagagatgcaagact	0.154													14	23					0	0	1	0	0		A	74649219	A	A	74649219	2	1	103	1	0	0	0	0	0	0	0	1	9048	932	33	4		4	LRRIQ3	1	74649219	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3105007	74649219	174601402	86	62035											
ST6GALNAC3	256435	broad.mit.edu	37	chr1	76779524	76779524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgtgagcttcatagcagCgttccttttcctgctggttg	4	16	11	10	1	1	1	1	1	0	0	3	1	3	1	2	1	5	6	2	1	1	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:76779524C>T	uc001dhh.2	+	2	216	c.53C>T	c.(52-54)GCG>GTG	p.A18V	ST6GALNAC3_uc001dhg.3_Missense_Mutation_p.A18V|ST6GALNAC3_uc010orh.1_Intron	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	18	Helical; Signal-anchor for type II membrane protein; (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						TTCATAGCAGCGTTCCTTTTC	0.403													25	47					0	0	1	0	0		T	76779524	T	T	76779524	3	4	103	1	0	0	0	0	1	0	0	0	15250	768	27	1	59	1	ST6GALNAC3	1	76779524	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2130305	76779524	172471097	87	62036											
IFI44L	10964	broad.mit.edu	37	chr1	79102859	79102859	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaatgttggcaaaagtgaAgcaagttcacaaagaagtat	19	9	9	4	0	1	2	1	1	0	1	1	2	1	2	0	1	1	5	0	1	9	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:79102859A>G	uc010oro.1	+	6	1198	c.1019A>G	c.(1018-1020)AAG>AGG	p.K340R	IFI44L_uc010orp.1_Missense_Mutation_p.K77R|IFI44L_uc010orq.1_Missense_Mutation_p.K77R	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	340						cytoplasm					0						GCAAAAGTGAAGCAAGTTCAC	0.289													25	38					0	0	1	0	0		G	79102859	G	G	79102859	3	3	103	1	0	0	0	0	1	0	0	0	7534	72	3	3	1037	3	IFI44L	1	79102859	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2323335	79102859	170147762	88	62037											
PKN2	5586	broad.mit.edu	37	chr1	89206848	89206848	+	Frame_Shift_Del	DEL	A	-	-																															tgaggaaagtcacaacagatAaaaaaagtttggcttatgta																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:89206848delA	uc001dmn.2	+	2	568	c.226delA	c.(226-228)AAAfs	p.K76fs	PKN2_uc001dmm.1_Frame_Shift_Del_p.K76fs|PKN2_uc010osp.1_Frame_Shift_Del_p.K76fs|PKN2_uc010osq.1_Intron|PKN2_uc009wcv.2_Frame_Shift_Del_p.K76fs	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	76	REM 1.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		CACAACAGATAAAAAAAGTTT	0.308													22	15	---	---	---	---						.	-	89206848	-	-	89206848	7	5	103	1	0	1	0	1	0	0	0	0	11999	363	13	0	232	0	PKN2	1	89206848	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	10103989	89206848	160043773	89	62038											
TGFBR3	7049	broad.mit.edu	37	chr1	92177814	92177814	+	Frame_Shift_Del	DEL	G	-	-																															acaaaccttaggcaacttctGggggtgcttctccatcttcg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:92177814delG	uc001doh.2	-	13	2618	c.2152delC	c.(2152-2154)CAGfs	p.Q718fs	TGFBR3_uc009wde.2_Frame_Shift_Del_p.Q413fs|TGFBR3_uc010osy.1_Frame_Shift_Del_p.Q676fs|TGFBR3_uc001doi.2_Frame_Shift_Del_p.Q717fs|TGFBR3_uc001doj.2_Frame_Shift_Del_p.Q717fs	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	718	ZP.|Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		GGCAACTTCTGGGGGTGCTTC	0.463													11	23	---	---	---	---						.	-	92177814	-	-	92177814	7	5	103	1	0	1	0	1	0	0	0	0	15848	1357	47	0	423	0	TGFBR3	1	92177814	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	2970966	92177814	157072807	90	62039											
TGFBR3	7049	broad.mit.edu	37	chr1	92178028	92178028	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taatgagacatcctatcaggGttcgaatatggagagataaa	16	10	10	5	1	1	2	1	1	0	2	3	6	2	3	1	2	0	1	1	2	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:92178028G>A	uc001doh.2	-	13	2404	c.1938C>T	c.(1936-1938)AAC>AAT	p.N646N	TGFBR3_uc009wde.2_Intron|TGFBR3_uc010osy.1_Silent_p.N604N|TGFBR3_uc001doi.2_Silent_p.N645N|TGFBR3_uc001doj.2_Silent_p.N645N	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	646	ZP.|Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		TCCTATCAGGGTTCGAATATG	0.393													39	56					0	0	1	0	0		A	92178028	A	A	92178028	2	1	103	1	0	0	0	0	0	0	0	1	15848	1252	44	4		4	TGFBR3	1	92178028	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	214	92178028	157072593	91	62040											
EVI5	7813	broad.mit.edu	37	chr1	93202119	93202119	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatctgactgactgtatgCgatactgtgttcttcaccca	8	13	8	12	1	3	2	1	2	2	0	3	3	3	2	2	0	2	2	2	0	2	4	rs140717428		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:93202119C>T	uc001dox.2	-	2	127	c.117G>A	c.(115-117)TCG>TCA	p.S39S	EVI5_uc010otf.1_Silent_p.S39S	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	39	Interaction with alpha-tubulin, gamma- tubulin, BIRC5 and FBXO5.|Ser-rich.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		TGACTGTATGCGATACTGTGT	0.438													54	94					0	0	1	0	0		T	93202119	T	T	93202119	2	4	103	1	0	0	0	0	0	0	0	1	5297	755	27	1		1	EVI5	1	93202119	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1024091	93202119	156048502	92	62041											
MTF2	22823	broad.mit.edu	37	chr1	93599728	93599728	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgcaaaagaaactacctCgtctagcatttccaggcatt	13	10	7	11	1	1	1	0	0	1	1	3	1	2	1	2	1	4	3	2	1	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:93599728C>A	uc009wdj.2	+	14	1692	c.1400C>A	c.(1399-1401)TCG>TAG	p.S467*	MTF2_uc010oth.1_Nonsense_Mutation_p.S365*|MTF2_uc009wdk.2_Nonsense_Mutation_p.S410*|MTF2_uc001dpi.3_Nonsense_Mutation_p.S194*|MTF2_uc010oti.1_Nonsense_Mutation_p.S365*|MTF2_uc001dpj.3_Nonsense_Mutation_p.S365*|MTF2_uc001dpl.3_Nonsense_Mutation_p.S365*|MTF2_uc001dpm.3_Nonsense_Mutation_p.S136*	NM_007358	NP_031384	Q9Y483	MTF2_HUMAN	metal response element binding transcription	467						nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_lung(203;0.00196)|Lung NSC(277;0.00902)|Melanoma(281;0.099)|Ovarian(761;0.109)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00076)|GBM - Glioblastoma multiforme(16;0.00157)|Epithelial(280;0.0886)		GAAACTACCTCGTCTAGCATT	0.343													30	36					3.90053e-15	4.13625e-15	1	1	0		A	93599728	A	A	93599728	4	1	103	1	0	0	0	0	0	1	0	0	9941	893	31	5	1454	5	MTF2	1	93599728	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	397609	93599728	155650893	93	62042											
AGL	178	broad.mit.edu	37	chr1	100330058	100330058	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagacctaatagaaagtatAcctggaatgatgttggacag	16	9	10	6	0	0	3	0	1	0	2	0	5	0	5	2	2	1	2	2	2	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:100330058A>G	uc001dsi.1	+	5	977	c.577A>G	c.(577-579)ACC>GCC	p.T193A	AGL_uc001dsj.1_Missense_Mutation_p.T193A|AGL_uc001dsk.1_Missense_Mutation_p.T193A|AGL_uc001dsl.1_Missense_Mutation_p.T193A|AGL_uc001dsm.1_Missense_Mutation_p.T177A|AGL_uc001dsn.1_Missense_Mutation_p.T176A	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	193	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		TAGAAAGTATACCTGGAATGA	0.358													44	59					0	0	1	0	0		G	100330058	G	G	100330058	3	3	103	1	0	0	0	0	1	0	0	0	384	391	14	3	660	3	AGL	1	100330058	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	6730330	100330058	148920563	94	62043											
LRRC39	127495	broad.mit.edu	37	chr1	100618013	100618013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taattcccgttcctcttcttCatctgtgccttcactgggag	5	16	7	13	1	5	0	2	0	3	0	7	1	7	1	3	1	1	1	3	1	1	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:100618013C>T	uc001dsw.1	-	9	1079	c.880G>A	c.(880-882)GAA>AAA	p.E294K	LRRC39_uc001dsx.1_Missense_Mutation_p.E294K|LRRC39_uc001dsy.1_Missense_Mutation_p.E294K|LRRC39_uc001dsz.1_Missense_Mutation_p.E294K	NM_144620	NP_653221	Q96DD0	LRC39_HUMAN	leucine rich repeat containing 39	294	Poly-Glu.									ovary(2)|skin(1)	3		all_epithelial(167;0.000542)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0826)|all cancers(265;0.135)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.195)		TCCTCTTCTTCATCTGTGCCT	0.373													70	82					0	0	1	0	0		T	100618013	T	T	100618013	3	4	103	1	0	0	0	0	1	0	0	0	9013	835	29	4	135	4	LRRC39	1	100618013	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	287955	100618013	148632608	95	62044											
RTCD1	8634	broad.mit.edu	37	chr1	100756997	100756997	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcagaagatgaagaagaCgccgctaaagatacttatat	19	8	8	6	2	1	6	1	1	0	5	1	6	1	6	1	0	1	1	1	0	9	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:100756997C>T	uc001dtc.2	+	11	1256	c.1038C>T	c.(1036-1038)GAC>GAT	p.D346D	RTCD1_uc001dtd.2_Silent_p.D359D	NM_003729	NP_003720	O00442	RTC1_HUMAN	RNA terminal phosphate cyclase domain 1 isoform	346					RNA processing	mitochondrion|nucleoplasm	ATP binding|protein binding|RNA binding|RNA-3'-phosphate cyclase activity				0		all_epithelial(167;0.000686)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0513)|all cancers(265;0.0902)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)		ATGAAGAAGACGCCGCTAAAG	0.343													49	84					0	0	1	0	0		T	100756997	T	T	100756997	2	4	103	1	0	0	0	0	0	0	0	1	13743	535	19	1		1	RTCD1	1	100756997	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	138984	100756997	148493624	96	62045											
S1PR1	1901	broad.mit.edu	37	chr1	101705418	101705418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgacatcctcttcagagCggagtacttcctggtgttag	7	13	11	10	1	2	2	1	1	1	1	4	3	4	3	2	2	2	2	2	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:101705418C>T	uc001dud.2	+	2	1392	c.878C>T	c.(877-879)GCG>GTG	p.A293V	S1PR1_uc009weg.2_Missense_Mutation_p.A293V	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	293	Extracellular (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						CTCTTCAGAGCGGAGTACTTC	0.562													100	174					0	0	1	0	0		T	101705418	T	T	101705418	3	4	103	1	0	0	0	0	1	0	0	0	13818	768	27	1	880	1	S1PR1	1	101705418	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	948421	101705418	147545203	97	62046											
COL11A1	1301	broad.mit.edu	37	chr1	103491152	103491152	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatagttgtattcttgaaaAtcatcaacgatgtttgccta	12	15	6	8	1	3	1	2	1	1	0	3	2	3	1	2	0	2	3	2	0	6	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:103491152A>G	uc001dul.2	-	7	1233	c.915T>C	c.(913-915)GAT>GAC	p.D305D	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Silent_p.D317D|COL11A1_uc001dun.2_Silent_p.D266D|COL11A1_uc009weh.2_Intron	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	305	Nonhelical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		ATTCTTGAAAATCATCAACGA	0.338													20	29					0	0	1	0	0		G	103491152	G	G	103491152	2	3	103	1	0	0	0	0	0	0	0	1	3670	98	4	3		3	COL11A1	1	103491152	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1785734	103491152	145759469	98	62047											
AMY2B	280	broad.mit.edu	37	chr1	104120145	104120145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggttgggccaccaaataatAatggagtaattaaagaagtt	16	10	11	4	0	0	1	0	0	0	1	0	2	0	2	2	3	0	3	2	3	7	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:104120145A>G	uc001duq.2	+	10	1751	c.1135A>G	c.(1135-1137)AAT>GAT	p.N379D	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.N379D|AMY2B_uc001dus.1_RNA	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	379					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		ACCAAATAATAATGGAGTAAT	0.363													55	111					0	0	1	0	0		G	104120145	G	G	104120145	3	3	103	1	0	0	0	0	1	0	0	0	595	362	13	3	1165	3	AMY2B	1	104120145	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	628993	104120145	145130476	99	62048											
AMY2B	280	broad.mit.edu	37	chr1	104120389	104120389	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatggccagccttttacaaActggtatgataatgggagca	12	10	12	7	0	0	1	0	1	0	0	0	3	0	3	2	4	4	2	2	4	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:104120389A>G	uc001duq.2	+	11	1884	c.1268A>G	c.(1267-1269)AAC>AGC	p.N423S	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.N423S|AMY2B_uc001dus.1_RNA	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	423					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		CCTTTTACAAACTGGTATGAT	0.348													84	130					0	0	1	0	0		G	104120389	G	G	104120389	3	3	103	1	0	0	0	0	1	0	0	0	595	43	2	3	1302	3	AMY2B	1	104120389	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	244	104120389	145130232	100	62049											
AMY2A	279	broad.mit.edu	37	chr1	104162293	104162293	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgttgcagggttcagaCttgatgcttccaagcacatg	8	13	12	8	0	1	2	1	1	0	1	2	2	2	2	1	2	3	5	1	2	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:104162293C>A	uc001dut.2	+	4	695	c.631C>A	c.(631-633)CTT>ATT	p.L211I	AMY2A_uc010ouq.1_Missense_Mutation_p.L211I	NM_000699	NP_000690	P04746	AMYP_HUMAN	pancreatic amylase alpha 2A precursor	211					carbohydrate catabolic process|polysaccharide digestion	extracellular space	alpha-amylase activity|calcium ion binding|chloride ion binding			ovary(1)|skin(1)	2		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0654)|all cancers(265;0.0808)|Epithelial(280;0.0921)|Lung(183;0.111)	Acarbose(DB00284)|Bentiromide(DB00522)|Icodextrin(DB00702)|Miglitol(DB00491)|Pancrelipase(DB00085)	AGGGTTCAGACTTGATGCTTC	0.433													20	256					9.93527e-08	1.02395e-07	1	1	0		A	104162293	A	A	104162293	3	1	103	1	0	0	0	0	1	0	0	0	594	565	20	5	645	5	AMY2A	1	104162293	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	41904	104162293	145088328	101	62050											
GPR61	83873	broad.mit.edu	37	chr1	110086776	110086778	+	In_Frame_Del	DEL	GAG	-	-																															ctagccgggagggctccattGaggagaacttcctgcagttc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:110086776_110086778delGAG	uc001dxy.2	+	2	1815_1817	c.1132_1134delGAG	c.(1132-1134)GAGdel	p.E379del		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	379	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		GGGCTCCATTGAGGAGAACTTCC	0.611													28	36	---	---	---	---						.	-	110086778	-	-	110086776	7	5	103	1	0	1	0	1	0	0	0	0	6717	1291	45	0	1134	0	GPR61	1	110086776	In_Frame_Del	DEL	GAG	TCGA-BR-A4QL-01A-31D-A25D-08	5924483	110086776	139163845	102	62051											
EPS8L3	79574	broad.mit.edu	37	chr1	110300588	110300588	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccctggtccttgttttttttCccaaatttcttcttcctgct	3	21	4	13	0	2	0	0	0	2	0	5	0	5	0	4	1	1	2	4	1	1	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:110300588C>T	uc001dyr.1	-	9	955	c.810G>A	c.(808-810)GGG>GGA	p.G270G	EPS8L3_uc001dys.1_Silent_p.G270G|EPS8L3_uc001dyq.1_Silent_p.G271G|EPS8L3_uc009wfm.1_Silent_p.G237G|EPS8L3_uc009wfn.1_Silent_p.G245G|EPS8L3_uc009wfo.1_Silent_p.G217G	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	270						cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		TGTTTTTTTTCCCAAATTTCT	0.557													10	90					0	0	1	0	0		T	110300588	T	T	110300588	2	4	103	1	0	0	0	0	0	0	0	1	5205	842	30	4		4	EPS8L3	1	110300588	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	213812	110300588	138950033	103	62052											
KCNA3	3738	broad.mit.edu	37	chr1	111216137	111216137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccaccagaaggcatccGggatgctgctgaaacctgaa	11	6	11	13	1	0	3	0	2	0	1	1	4	1	4	4	2	4	3	4	2	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:111216137G>A	uc001dzv.1	-	1	1519	c.1295C>T	c.(1294-1296)CCG>CTG	p.P432L		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	432						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAAGGCATCCGGGATGCTGCT	0.547													18	27					0	0	1	0	0		A	111216137	A	A	111216137	3	1	103	1	0	0	0	0	1	0	0	0	8020	1116	39	1	436	1	KCNA3	1	111216137	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	915549	111216137	138034484	104	62053											
KCNA3	3738	broad.mit.edu	37	chr1	111217309	111217309	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcggcctgcggcgggctcCgcgtagccgtggttcaccag	3	7	16	15	7	1	0	1	0	0	0	3	0	2	0	4	4	2	3	4	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:111217309C>T	uc001dzv.1	-	1	347	c.123G>A	c.(121-123)GCG>GCA	p.A41A		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	41						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		CGGCGGGCTCCGCGTAGCCGT	0.781													7	4					0	0	1	0	0		T	111217309	T	T	111217309	2	4	103	1	0	0	0	0	0	0	0	1	8020	639	23	1		1	KCNA3	1	111217309	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1172	111217309	138033312	105	62054											
MAGI3	260425	broad.mit.edu	37	chr1	114225544	114225544	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggatattaataatccttcGtcttcaaatgtgatttatga	12	17	7	5	1	2	2	1	2	1	0	4	3	3	3	1	1	0	0	1	1	5	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:114225544G>A	uc001edk.2	+	21	3535	c.3354G>A	c.(3352-3354)TCG>TCA	p.S1118S	MAGI3_uc001edi.3_3'UTR|MAGI3_uc010owm.1_3'UTR|MAGI3_uc001edj.2_3'UTR|MAGI3_uc009wgo.2_RNA	NM_001142782	NP_001136254	Q5TCQ9	MAGI3_HUMAN	membrane-associated guanylate kinase-related  3	1143					apoptosis|interspecies interaction between organisms|intracellular signal transduction	nucleus|tight junction	ATP binding|guanylate kinase activity|protein binding			lung(3)|ovary(2)|central_nervous_system(1)	6	Lung SC(450;0.184)	all_cancers(81;2.34e-09)|all_epithelial(167;7.41e-09)|all_lung(203;7.13e-06)|Lung NSC(69;1.2e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATAATCCTTCGTCTTCAAATG	0.318													9	26					0	0	1	0	0		A	114225544	A	A	114225544	2	1	103	1	0	0	0	0	0	0	0	1	9210	1132	40	1		1	MAGI3	1	114225544	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3008235	114225544	135025077	106	62055											
SLC22A15	55356	broad.mit.edu	37	chr1	116534699	116534699	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcactggttggggccacGccatcctaccactgggacct	7	9	11	14	1	0	0	0	0	0	0	1	1	1	1	5	4	2	2	5	4	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:116534699G>A	uc001egb.3	+	2	265	c.135G>A	c.(133-135)ACG>ACA	p.T45T	SLC22A15_uc001ega.2_Silent_p.T45T	NM_018420	NP_060890	Q8IZD6	S22AF_HUMAN	solute carrier family 22, member 15	45					ion transport	integral to membrane	transmembrane transporter activity	p.T45M(1)		large_intestine(2)	2	Lung SC(450;0.184)	all_cancers(81;3.17e-06)|all_epithelial(167;2.32e-06)|all_lung(203;9.81e-06)|Lung NSC(69;5.94e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		TTGGGGCCACGCCATCCTACC	0.557													19	18					0	0	1	0	0		A	116534699	A	A	116534699	2	1	103	1	0	0	0	0	0	0	0	1	14471	1074	38	1		1	SLC22A15	1	116534699	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2309155	116534699	132715922	107	62056											
IGSF3	3321	broad.mit.edu	37	chr1	117150572	117150572	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctacttactgagggggAggactatgatggggatgttc	8	12	14	7	0	1	2	0	2	1	0	3	5	1	5	0	5	2	1	0	5	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:117150572A>G	uc001egr.1	-	5	1919	c.1214T>C	c.(1213-1215)CTC>CCC	p.L405P	IGSF3_uc001egq.1_Missense_Mutation_p.L405P|IGSF3_uc001egs.1_Missense_Mutation_p.L78P	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	405	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		ACTGAGGGGGAGGACTATGAT	0.517													47	68					0	0	1	0	0		G	117150572	G	G	117150572	3	3	103	1	0	0	0	0	1	0	0	0	7617	304	11	3	2462	3	IGSF3	1	117150572	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	615873	117150572	132100049	108	62057											
IGSF3	3321	broad.mit.edu	37	chr1	117150721	117150721	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagcacaaagacactgtcGctctctttggccaccttaag	10	11	7	13	1	2	1	1	0	1	1	4	1	2	1	2	1	1	2	2	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:117150721G>A	uc001egr.1	-	5	1770	c.1065C>T	c.(1063-1065)AGC>AGT	p.S355S	IGSF3_uc001egq.1_Silent_p.S355S|IGSF3_uc001egs.1_Silent_p.S28S	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	355	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		AGACACTGTCGCTCTCTTTGG	0.567													34	66					0	0	1	0	0		A	117150721	A	A	117150721	2	1	103	1	0	0	0	0	0	0	0	1	7617	1078	38	1		1	IGSF3	1	117150721	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	149	117150721	132099900	109	62058											
IGSF3	3321	broad.mit.edu	37	chr1	117150811	117150811	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgttaggacccatggtggcGatgagcgagctgttgaaggc	8	8	17	8	3	0	2	0	2	0	0	0	5	0	3	1	4	2	3	1	4	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:117150811G>A	uc001egr.1	-	5	1680	c.975C>T	c.(973-975)ATC>ATT	p.I325I	IGSF3_uc001egq.1_Silent_p.I325I|IGSF3_uc001egs.1_5'UTR	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	325	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		CCATGGTGGCGATGAGCGAGC	0.582													11	8					0	0	1	0	0		A	117150811	A	A	117150811	2	1	103	1	0	0	0	0	0	0	0	1	7617	1048	37	1		1	IGSF3	1	117150811	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	90	117150811	132099810	110	62059											
SPAG17	200162	broad.mit.edu	37	chr1	118567980	118567980	+	Frame_Shift_Del	DEL	G	-	-																															ctcatagtgcttcaccctctGggggtagctctgacggacca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:118567980delG	uc001ehk.2	-	27	3858	c.3790delC	c.(3790-3792)CAGfs	p.Q1264fs		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1264						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TTCACCCTCTGGGGGTAGCTC	0.458													78	46	---	---	---	---						.	-	118567980	-	-	118567980	7	5	103	1	0	1	0	1	0	0	0	0	15004	1357	47	0	2969	0	SPAG17	1	118567980	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	1417169	118567980	130682641	111	62060											
HAO2	51179	broad.mit.edu	37	chr1	119923812	119923812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagatgacagcatcacgcGggatgacaacattgcagcat	14	6	11	10	2	1	3	1	2	0	1	1	4	1	4	0	1	5	4	0	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:119923812G>A	uc001ehq.1	+	3	456	c.104G>A	c.(103-105)CGG>CAG	p.R35Q	HAO2_uc001ehr.1_Missense_Mutation_p.R35Q	NM_001005783	NP_001005783	Q9NYQ3	HAOX2_HUMAN	hydroxyacid oxidase 2	35	FMN hydroxy acid dehydrogenase.				fatty acid alpha-oxidation	peroxisome	(S)-2-hydroxy-acid oxidase activity			ovary(2)|skin(2)	4	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.0155)|LUSC - Lung squamous cell carcinoma(189;0.0856)		AGCATCACGCGGGATGACAAC	0.483													49	80					0	0	1	0	0		A	119923812	A	A	119923812	3	1	103	1	0	0	0	0	1	0	0	0	6968	1116	39	1	106	1	HAO2	1	119923812	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1355832	119923812	129326809	112	62061											
HMGCS2	3158	broad.mit.edu	37	chr1	120302555	120302555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccggccccacctgtgggaCgagcattaccactgggatag	8	7	12	14	2	0	0	0	0	0	0	1	3	1	2	5	3	2	1	5	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:120302555C>T	uc001eid.2	-	3	668	c.617G>A	c.(616-618)CGT>CAT	p.R206H	HMGCS2_uc010oxj.1_Intron|HMGCS2_uc001eie.2_Missense_Mutation_p.R114H	NM_005518	NP_005509	P54868	HMCS2_HUMAN	hydroxymethylglutaryl-CoA synthase 2 isoform 1	206					acetoacetic acid biosynthetic process|cholesterol biosynthetic process|isoprenoid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA synthase activity			ovary(2)	2	all_cancers(5;6.38e-10)|all_epithelial(5;1.1e-10)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;1.29e-06)|Lung NSC(69;9.35e-06)|all_epithelial(167;0.00124)		Lung(183;0.0112)|LUSC - Lung squamous cell carcinoma(189;0.0595)		ACCTGTGGGACGAGCATTACC	0.517													24	35					0	0	1	0	0		T	120302555	T	T	120302555	3	4	103	1	0	0	0	0	1	0	0	0	7249	536	19	1	937	1	HMGCS2	1	120302555	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	378743	120302555	128948066	113	62062											
NOTCH2	4853	broad.mit.edu	37	chr1	120539712	120539712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacagggcacatacaggCtgtcacagtactggcctgtg	9	8	13	11	0	1	0	1	0	0	0	1	0	1	0	1	3	3	4	1	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:120539712C>T	uc001eik.2	-	4	915	c.659G>A	c.(658-660)AGC>AAC	p.S220N	NOTCH2_uc001eil.2_Missense_Mutation_p.S220N|NOTCH2_uc001eim.3_Missense_Mutation_p.S137N	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	220	Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		CACATACAGGCTGTCACAGTA	0.577			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				23	39					0	0	1	0	0		T	120539712	T	T	120539712	3	4	103	1	0	0	0	0	1	0	0	0	10567	797	28	2	6880	2	NOTCH2	1	120539712	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	237157	120539712	128710909	114	62063											
NBPF9	400818	broad.mit.edu	37	chr1	144621649	144621649	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctggccaaccagcagaaCaaatacagtaagatctacag	16	7	7	11	0	1	2	0	0	1	2	2	2	2	2	3	1	5	2	3	1	6	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:144621649C>G	uc009wig.1	+	9	1057	c.981C>G	c.(979-981)AAC>AAG	p.N327K	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Missense_Mutation_p.N327K|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Missense_Mutation_p.N258K|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Missense_Mutation_p.N258K|NBPF9_uc010oyg.1_Missense_Mutation_p.N292K|NBPF9_uc009wii.1_Missense_Mutation_p.N56K	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	327						cytoplasm					0						ACCAGCAGAACAAATACAGTA	0.428													52	148					0	0	1	0	0		G	144621649	G	G	144621649	3	3	103	1	0	0	0	0	1	0	0	0	10218	477	17	5	1001	5	NBPF9	1	144621649	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	24081937	144621649	104628972	115	62064											
PIAS3	10401	broad.mit.edu	37	chr1	145581207	145581207	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaattgactgctgacccTgacagtgaggtggccactac	11	8	12	10	0	0	5	0	4	0	1	0	6	0	5	2	2	2	1	2	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:145581207T>C	uc001eoc.1	+	8	1027	c.936T>C	c.(934-936)CCT>CCC	p.P312P	NBPF10_uc001emp.3_Intron|PIAS3_uc001eod.1_5'UTR	NM_006099	NP_006090	Q9Y6X2	PIAS3_HUMAN	protein inhibitor of activated STAT, 3	312	SP-RING-type.				positive regulation of protein sumoylation|protein sumoylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	enzyme binding|nucleic acid binding|protein C-terminus binding|zinc ion binding			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CTGCTGACCCTGACAGTGAGG	0.562													18	32					0	0	1	0	0		C	145581207	C	C	145581207	2	2	103	1	0	0	0	0	0	0	0	1	11896	1567	55	3		3	PIAS3	1	145581207	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	959558	145581207	103669414	116	62065											
BCL9	607	broad.mit.edu	37	chr1	147096166	147096166	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatccgacctggagccacCggaatacctgagtttgatct	9	10	10	12	2	2	2	1	2	1	0	3	5	3	4	5	2	2	1	5	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:147096166C>T	uc001epq.2	+	10	4427	c.3687C>T	c.(3685-3687)ACC>ACT	p.T1229T	BCL9_uc010ozr.1_Silent_p.T1143T	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	1229	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					CTGGAGCCACCGGAATACCTG	0.567			T	IGH@|IGL@	B-ALL								33	63					0	0	1	0	0		T	147096166	T	T	147096166	2	4	103	1	0	0	0	0	0	0	0	1	1382	639	23	1		1	BCL9	1	147096166	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1514959	147096166	102154455	117	62066											
GJA5	2702	broad.mit.edu	37	chr1	147230552	147230552	+	Frame_Shift_Del	DEL	G	-	-																															tccaggcactgattaaagtcGgggggtggtgtgcagctctg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:147230552delG	uc001eps.1	-	2	936	c.795delC	c.(793-795)CCCfs	p.P265fs	GJA5_uc001ept.1_Frame_Shift_Del_p.P265fs	NM_181703	NP_859054	P36382	CXA5_HUMAN	connexin 40	265	Cytoplasmic (Potential).				angiogenesis|cell-cell junction assembly|muscle contraction	integral to membrane				ovary(1)	1	all_hematologic(923;0.0276)		LUSC - Lung squamous cell carcinoma(543;0.202)			GATTAAAGTCGGGGGGTGGTG	0.532													43	80	---	---	---	---						.	-	147230552	-	-	147230552	7	5	103	1	0	1	0	1	0	0	0	0	6419	1103	39	0	285	0	GJA5	1	147230552	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	134386	147230552	102020069	118	62067											
SV2A	9900	broad.mit.edu	37	chr1	149882489	149882489	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tttctcctgggccagaaactCggagaaataggagaagacaa	15	7	11	8	1	1	4	0	0	1	4	3	6	1	4	2	3	1	0	2	3	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:149882489C>G	uc001etg.2	-	4	1335	c.844G>C	c.(844-846)GAG>CAG	p.E282Q	SV2A_uc001eth.2_Missense_Mutation_p.E282Q	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	282	Helical; (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	GCCAGAAACTCGGAGAAATAG	0.522													11	26					0	0	1	0	0		G	149882489	G	G	149882489	3	3	103	1	0	0	0	0	1	0	0	0	15442	893	31	5	1424	5	SV2A	1	149882489	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2651937	149882489	99368132	119	62068											
RPRD2	23248	broad.mit.edu	37	chr1	150445057	150445057	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttccagagagagccagtgggGccatcatctgccccacctgt	8	8	11	14	0	2	2	1	0	1	2	3	3	3	2	6	2	2	0	6	2	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:150445057G>A	uc009wlr.2	+	11	3834	c.3633G>A	c.(3631-3633)GGG>GGA	p.G1211G	RPRD2_uc010pcc.1_3'UTR|RPRD2_uc001eup.3_Silent_p.G1185G	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	1211	Pro-rich.						protein binding			ovary(1)	1						AGCCAGTGGGGCCATCATCTG	0.532													4	76					0	0	1	0	0		A	150445057	A	A	150445057	2	1	103	1	0	0	0	0	0	0	0	1	13642	1190	42	2		2	RPRD2	1	150445057	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	562568	150445057	98805564	120	62069											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150525976	150525976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcattgccactgcaccGgaaccgcaggcaccctcgga	8	7	10	16	3	0	0	0	0	0	0	1	2	0	2	4	3	4	4	4	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:150525976G>A	uc001eux.2	+	6	745	c.509G>A	c.(508-510)CGG>CAG	p.R170Q	ADAMTSL4_uc001euw.2_Missense_Mutation_p.R170Q|ADAMTSL4_uc009wlw.2_Missense_Mutation_p.R170Q|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.R170Q	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	170					apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CCACTGCACCGGAACCGCAGG	0.587													27	56					0	0	1	0	0		A	150525976	A	A	150525976	3	1	103	1	0	0	0	0	1	0	0	0	277	1116	39	1	523	1	ADAMTSL4	1	150525976	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	80919	150525976	98724645	121	62070											
POGZ	23126	broad.mit.edu	37	chr1	151397495	151397495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatcgtggacatattttcCgtccaccatcctggaggtca	9	12	8	12	2	1	0	1	0	0	0	5	2	4	2	4	3	1	0	4	3	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:151397495C>T	uc001eyd.1	-	8	1427	c.1121G>A	c.(1120-1122)CGG>CAG	p.R374Q	POGZ_uc001eye.1_Missense_Mutation_p.R321Q|POGZ_uc010pdb.1_Missense_Mutation_p.R365Q|POGZ_uc001eyf.1_Missense_Mutation_p.R321Q|POGZ_uc010pdc.1_Missense_Mutation_p.R312Q|POGZ_uc009wmv.1_Missense_Mutation_p.R279Q|POGZ_uc010pdd.1_Intron	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	374					cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			ACATATTTTCCGTCCACCATC	0.403													4	7					0	0	1	0	0		T	151397495	T	T	151397495	3	4	103	1	0	0	0	0	1	0	0	0	12205	652	23	1	3159	1	POGZ	1	151397495	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	871519	151397495	97853126	122	62071											
FLG	2312	broad.mit.edu	37	chr1	152283170	152283170	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttctgaatgtccctcacTgttagtgacctgactaccac	8	13	7	13	0	3	3	1	3	2	0	4	3	4	3	3	0	1	1	3	0	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:152283170T>G	uc001ezu.1	-	3	4228	c.4192A>C	c.(4192-4194)AGT>CGT	p.S1398R	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1398	Ser-rich.|Filaggrin 8.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTCCCTCACTGTTAGTGACC	0.567									Ichthyosis				156	220					0	0	1	0	0		G	152283170	G	G	152283170	3	3	103	1	0	0	0	0	1	0	0	0	5936	1580	55	5	7997	5	FLG	1	152283170	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	885675	152283170	96967451	123	62072											
FLG	2312	broad.mit.edu	37	chr1	152285339	152285339	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgattttctggagctgtCtgcagagtgcccatgaccag	7	11	12	11	0	2	3	0	2	2	1	2	4	2	4	3	1	3	2	3	1	0	2	rs140188504		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:152285339C>A	uc001ezu.1	-	3	2059	c.2023G>T	c.(2023-2025)GAC>TAC	p.D675Y	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	675	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGGAGCTGTCTGCAGAGTGC	0.527									Ichthyosis				158	253					7.9336e-59	8.62238e-59	1	1	0		A	152285339	A	A	152285339	3	1	103	1	0	0	0	0	1	0	0	0	5936	913	32	5	10166	5	FLG	1	152285339	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2169	152285339	96965282	124	62073											
CRCT1	54544	broad.mit.edu	37	chr1	152488062	152488062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttcccaaggagacgccGccgacagcggagtagtggtt	8	7	14	12	4	0	1	0	0	0	1	1	4	1	2	3	3	2	3	3	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:152488062G>A	uc001ezz.2	+	2	276	c.203G>A	c.(202-204)CGC>CAC	p.R68H		NM_019060	NP_061933	Q9UGL9	CRCT1_HUMAN	cysteine-rich C-terminal 1	68	Cys-rich.										0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGGAGACGCCGCCGACAGCGG	0.652													6	6					0	0	1	0	0		A	152488062	A	A	152488062	3	1	103	1	0	0	0	0	1	0	0	0	3856	1087	38	1	205	1	CRCT1	1	152488062	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	202723	152488062	96762559	125	62074											
ILF2	3608	broad.mit.edu	37	chr1	153640491	153640491	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccacttcaaatgtcccTggagccacaatcagattatc	12	10	5	14	0	3	1	3	0	0	1	5	2	4	2	3	1	1	0	3	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:153640491T>C	uc001fcr.2	-	5	357	c.276A>G	c.(274-276)CCA>CCG	p.P92P	ILF2_uc010pdy.1_Silent_p.P54P|ILF2_uc009wok.2_Silent_p.P92P|ILF2_uc009wol.1_Silent_p.P54P	NM_004515	NP_004506	Q12905	ILF2_HUMAN	interleukin enhancer binding factor 2	92					immune response|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|ribonucleoprotein complex	ATP binding|DNA binding|double-stranded RNA binding|protein binding|transferase activity				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			CAAATGTCCCTGGAGCCACAA	0.348													28	46					0	0	1	0	0		C	153640491	C	C	153640491	2	2	103	1	0	0	0	0	0	0	0	1	7727	1567	55	3		3	ILF2	1	153640491	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1152429	153640491	95610130	126	62075											
DENND4B	9909	broad.mit.edu	37	chr1	153906026	153906026	+	Frame_Shift_Del	DEL	G	-	-																															ccatggggctgcggcgggctGggggtggcaggtcaggaggc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:153906026delG	uc001fdd.1	-	20	3664	c.3263delC	c.(3262-3264)CCAfs	p.P1088fs	uc001fdc.1_Intron	NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	1088										ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GCGGCGGGCTGGGGGTGGCAG	0.692													11	22	---	---	---	---						.	-	153906026	-	-	153906026	7	5	103	1	0	1	0	1	0	0	0	0	4440	1348	47	0	1263	0	DENND4B	1	153906026	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	265535	153906026	95344595	127	62076											
ATP8B2	57198	broad.mit.edu	37	chr1	154302929	154302929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatgagaaattccagtatgCggtaagcgactctagaccac	14	8	9	10	2	1	2	0	1	1	2	2	4	2	2	2	1	2	2	2	1	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:154302929C>T	uc001fey.1	+	2	335	c.146C>T	c.(145-147)GCG>GTG	p.A49V	ATP8B2_uc001few.2_Missense_Mutation_p.A30V|ATP8B2_uc001fex.2_Missense_Mutation_p.A63V	NM_001005855	NP_001005855	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform b	49	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TTCCAGTATGCGGTAAGCGAC	0.527													27	46					0	0	1	0	0		T	154302929	T	T	154302929	3	4	103	1	0	0	0	0	1	0	0	0	1196	782	27	1	198	1	ATP8B2	1	154302929	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	396903	154302929	94947692	128	62077											
SHE	126669	broad.mit.edu	37	chr1	154461771	154461771	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaccgtctgcgggttcacaGggactgtcaagcagctggag	8	7	14	12	2	3	0	2	0	1	0	3	2	3	2	2	3	3	3	2	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:154461771G>T	uc001ffb.2	-	3	867	c.780C>A	c.(778-780)CCC>CCA	p.P260P	SHE_uc001ffc.2_RNA	NM_001010846	NP_001010846	Q5VZ18	SHE_HUMAN	Src homology 2 domain containing E	260										breast(3)|ovary(2)|central_nervous_system(1)	6	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			CGGGTTCACAGGGACTGTCAA	0.527													41	59					4.67007e-22	5.0066e-22	1	1	0		T	154461771	T	T	154461771	2	4	103	1	0	0	0	0	0	0	0	1	14301	987	35	5		5	SHE	1	154461771	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	158842	154461771	94788850	129	62078											
CHRNB2	1141	broad.mit.edu	37	chr1	154544057	154544057	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcatcacctcgctagccaTccttgtcttctacctgccat	6	13	5	17	1	4	0	2	0	2	0	6	0	5	0	5	0	3	2	5	0	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:154544057T>C	uc001ffg.2	+	5	1022	c.758T>C	c.(757-759)ATC>ACC	p.I253T		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	253	Helical; (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	TCGCTAGCCATCCTTGTCTTC	0.542													56	74					0	0	1	0	0		C	154544057	C	C	154544057	3	2	103	1	0	0	0	0	1	0	0	0	3394	1435	50	3	776	3	CHRNB2	1	154544057	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	82286	154544057	94706564	130	62079											
DCST2	127579	broad.mit.edu	37	chr1	155006137	155006137	+	Frame_Shift_Del	DEL	C	-	-																															tcgccatgctaggctcctctCcccccaaggggtgcacaaca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:155006137delC	uc001fgm.2	-	1	121	c.41delG	c.(40-42)GGAfs	p.G14fs	DCST2_uc009wpb.2_RNA|DCST1_uc010per.1_5'Flank|DCST1_uc001fgn.1_5'Flank|DCST1_uc010pes.1_5'Flank	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	14	Cytoplasmic (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			AGGCTCCTCTCCCCCCAAGGG	0.587													30	49	---	---	---	---						.	-	155006137	-	-	155006137	7	5	103	1	0	1	0	1	0	0	0	0	4306	855	30	0	2340	0	DCST2	1	155006137	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	462080	155006137	94244484	131	62080											
DCST1	149095	broad.mit.edu	37	chr1	155015874	155015874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaacacaagctgggagcGcgtgagcaccgaggtgcggg	9	4	17	11	4	1	1	1	1	0	0	1	3	1	2	1	3	5	3	1	3	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:155015874G>A	uc001fgn.1	+	10	1157	c.1061G>A	c.(1060-1062)CGC>CAC	p.R354H	DCST1_uc010per.1_Missense_Mutation_p.R379H|DCST1_uc010pes.1_Missense_Mutation_p.R329H	NM_152494	NP_689707	Q5T197	DCST1_HUMAN	DC-STAMP domain containing 1 isoform 1	354	Extracellular (Potential).					integral to membrane	zinc ion binding			ovary(1)|skin(1)	2	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			AGCTGGGAGCGCGTGAGCACC	0.667													19	51					0	0	1	0	0		A	155015874	A	A	155015874	3	1	103	1	0	0	0	0	1	0	0	0	4305	1087	38	1	1095	1	DCST1	1	155015874	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	9737	155015874	94234747	132	62081											
EFNA4	1945	broad.mit.edu	37	chr1	155041446	155041446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctgcttctgattcttcGtcttctgcgaattctgtgag	5	17	9	10	2	5	2	0	2	5	0	6	3	5	2	0	0	3	2	0	0	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:155041446G>A	uc001fhd.2	+	4	674	c.587G>A	c.(586-588)CGT>CAT	p.R196H	EFNA3_uc010pew.1_Intron|EFNA4_uc001fhc.2_Intron|EFNA4_uc001fhe.2_Intron	NM_005227	NP_005218	P52798	EFNA4_HUMAN	ephrin A4 isoform a	196					cell-cell signaling	anchored to membrane|extracellular region|integral to plasma membrane	ephrin receptor binding|transmembrane-ephrin receptor activity				0	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			CTGATTCTTCGTCTTCTGCGA	0.597													37	61					0	0	1	0	0		A	155041446	A	A	155041446	3	1	103	1	0	0	0	0	1	0	0	0	4959	1145	40	1	601	1	EFNA4	1	155041446	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	25572	155041446	94209175	133	62082											
MUC1	4582	broad.mit.edu	37	chr1	155160514	155160514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tattggagaggcccagaaaaCccccttgtttataaatctgc	12	11	8	10	0	1	2	0	0	1	2	1	3	1	2	3	2	2	1	3	2	6	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:155160514C>T	uc010pfj.1	-	3	945	c.539G>A	c.(538-540)GGT>GAT	p.G180D	RAG1AP1_uc010pey.1_Intron|MUC1_uc001fhy.2_Missense_Mutation_p.G10D|MUC1_uc001fhz.2_Missense_Mutation_p.G10D|MUC1_uc010pfb.1_Missense_Mutation_p.G10D|MUC1_uc010pfc.1_RNA|MUC1_uc009wph.2_Missense_Mutation_p.G10D|MUC1_uc010pfd.1_Missense_Mutation_p.V78I|MUC1_uc010pfe.1_Intron|MUC1_uc010pff.1_Missense_Mutation_p.V134I|MUC1_uc009wpi.2_Missense_Mutation_p.G10D|MUC1_uc010pfg.1_RNA|MUC1_uc010pfh.1_Missense_Mutation_p.G156D|MUC1_uc010pfi.1_Missense_Mutation_p.G156D|MUC1_uc010pfk.1_RNA|MUC1_uc010pfl.1_RNA|MUC1_uc001fin.2_Intron|MUC1_uc009wpk.2_Missense_Mutation_p.V34I|MUC1_uc001fip.2_Missense_Mutation_p.V60I|MUC1_uc009wqg.2_Intron|MUC1_uc009wpo.2_Missense_Mutation_p.G47D|MUC1_uc009wps.2_Missense_Mutation_p.G68D|MUC1_uc009wpt.2_Missense_Mutation_p.G71D|MUC1_uc001fic.2_Missense_Mutation_p.G59D|MUC1_uc009wpu.2_Intron|MUC1_uc009wpq.2_Missense_Mutation_p.G73D|MUC1_uc009wpv.2_Missense_Mutation_p.V60I|MUC1_uc001fim.2_Intron|MUC1_uc001fib.2_Missense_Mutation_p.V60I|MUC1_uc009wpw.2_Intron|MUC1_uc001fie.2_Intron|MUC1_uc009wpr.2_Intron|MUC1_uc001fig.2_Intron|MUC1_uc001fif.2_Intron|MUC1_uc009wpx.2_Intron|MUC1_uc001fid.2_Intron|MUC1_uc009wpj.2_Intron|MUC1_uc001fij.2_Missense_Mutation_p.G94D|MUC1_uc009wpy.2_Intron|MUC1_uc010pfm.1_Missense_Mutation_p.G10D|MUC1_uc001fiq.2_Missense_Mutation_p.G10D|MUC1_uc009wpz.2_Missense_Mutation_p.G112D|MUC1_uc010pfn.1_Missense_Mutation_p.G85D|MUC1_uc009wqa.2_Missense_Mutation_p.G168D|MUC1_uc010pfo.1_Missense_Mutation_p.V78I|MUC1_uc010pfp.1_Missense_Mutation_p.V78I|MUC1_uc001fii.2_Intron|MUC1_uc001fih.2_Intron|MUC1_uc001fia.2_Missense_Mutation_p.G85D|MUC1_uc009wqc.2_Missense_Mutation_p.G82D|MUC1_uc009wqd.2_Missense_Mutation_p.G106D|MUC1_uc009wqb.2_Missense_Mutation_p.G10D|MUC1_uc010pfq.1_Missense_Mutation_p.G82D|MUC1_uc010pfr.1_Missense_Mutation_p.V88I|MUC1_uc001fit.2_Missense_Mutation_p.G10D|MUC1_uc009wqe.2_Intron|MUC1_uc001fil.2_Missense_Mutation_p.V79I|MUC1_uc009wpm.2_Missense_Mutation_p.G103D|MUC1_uc009wpp.2_Missense_Mutation_p.V79I|MUC1_uc010pfs.1_RNA|MUC1_uc001fik.2_Missense_Mutation_p.G103D|MUC1_uc001fio.2_Missense_Mutation_p.V79I|MUC1_uc009wqf.2_Intron|MUC1_uc009wpl.2_Intron|MUC1_uc009wpn.2_Missense_Mutation_p.G94D|MUC1_uc001fis.1_Intron			P15941	MUC1_HUMAN	SubName: Full=Mucin 1, cell surface associated;	1085	Extracellular (Potential).|SEA.					apical plasma membrane|cell surface|cytoplasm|extracellular region|integral to plasma membrane|nucleus	protein binding			large_intestine(1)|pancreas(1)|breast(1)|skin(1)	4	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;5.31e-10)|all cancers(21;2.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GCCCAGAAAACCCCCTTGTTT	0.527			T	IGH@	B-NHL								50	82					0	0	1	0	0		T	155160514	T	T	155160514	3	4	103	1	0	0	0	0	1	0	0	0	9988	507	18	4	533	4	MUC1	1	155160514	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	119068	155160514	94090107	134	62083											
THBS3	7059	broad.mit.edu	37	chr1	155172646	155172646	+	Frame_Shift_Del	DEL	G	-	-																															tgccgttgccctgcaggccaGgggggcagggcccacagcgg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:155172646delG	uc001fix.2	-	8	937	c.914delC	c.(913-915)CCTfs	p.P305fs	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Frame_Shift_Del_p.P296fs|THBS3_uc001fiz.2_Frame_Shift_Del_p.P305fs|THBS3_uc001fiy.2_5'UTR|THBS3_uc010pfu.1_Frame_Shift_Del_p.P185fs|THBS3_uc010pfv.1_RNA|THBS3_uc001fja.2_RNA	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	305	EGF-like 1.				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CTGCAGGCCAGGGGGGCAGGG	0.617													29	61	---	---	---	---						.	-	155172646	-	-	155172646	7	5	103	1	0	1	0	1	0	0	0	0	15880	1000	35	0	2020	0	THBS3	1	155172646	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	12132	155172646	94077975	135	62084											
FAM189B	10712	broad.mit.edu	37	chr1	155224231	155224232	+	Frame_Shift_Ins	INS	-	C	C																															ccaggacacaatgccaaccaINSccccggagaacgccagctgg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:155224231_155224232insC	uc001fjm.2	-	2	847_848	c.241_242insG	c.(241-243)GTGfs	p.V81fs	RAG1AP1_uc010pey.1_Intron|FAM189B_uc009wql.2_5'Flank|FAM189B_uc001fjn.2_Intron|FAM189B_uc001fjo.2_Intron|FAM189B_uc001fjp.2_Intron|FAM189B_uc001fjq.1_Frame_Shift_Ins_p.V81fs	NM_006589	NP_006580	P81408	F189B_HUMAN	hypothetical protein LOC10712 isoform a	81	Helical; (Potential).					integral to membrane	WW domain binding			ovary(1)|breast(1)	2						AATGCCAACCACCCCGGAGAAC	0.653													47	55	---	---	---	---						.	C	155224232	C	C	155224231	7	5	103	1	0	1	1	0	0	0	0	0	5528	159	6	0	1808	0	FAM189B	1	155224231	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	51585	155224231	94026390	136	62085											
PKLR	5313	broad.mit.edu	37	chr1	155265256	155265256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatcccagtgcggatctccGgtcccttggtgtccagggcg	4	9	15	13	3	1	0	0	0	1	0	5	2	4	2	4	5	1	0	4	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:155265256G>A	uc001fkb.3	-	4	518	c.479C>T	c.(478-480)CCG>CTG	p.P160L	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Missense_Mutation_p.P129L|PKLR_uc010pga.1_Missense_Mutation_p.P96L	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	160					endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	GCGGATCTCCGGTCCCTTGGT	0.692													8	5					0	0	1	0	0		A	155265256	A	A	155265256	3	1	103	1	0	0	0	0	1	0	0	0	11995	1116	39	1	1277	1	PKLR	1	155265256	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	41025	155265256	93985365	137	62086											
C1orf104	284618	broad.mit.edu	37	chr1	155291076	155291076	+	Frame_Shift_Del	DEL	C	-	-																															aaactctgcgtattgccccaCccccatcctccacctccttt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:155291076delC	uc001fki.2	-	2	481	c.204delG	c.(202-204)GGGfs	p.G68fs	RAG1AP1_uc010pey.1_Intron|C1orf104_uc001fkh.1_RNA|RUSC1_uc001fkj.2_Intron|RUSC1_uc001fkk.2_Intron|RUSC1_uc009wqn.1_5'Flank|RUSC1_uc009wqo.1_5'Flank|RUSC1_uc001fkl.2_5'Flank	NM_001039517	NP_001034606	Q66K80	RUAS1_HUMAN	hypothetical protein LOC284618	68	Poly-Gly.										0	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.32e-10)|all cancers(21;3.51e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			TATTGCCCCACCCCCATCCTC	0.612													11	21	---	---	---	---						.	-	155291076	-	-	155291076	7	5	103	1	0	1	0	1	0	0	0	0	1981	494	18	0	510	0	C1orf104	1	155291076	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	25820	155291076	93959545	138	62087											
RUSC1	23623	broad.mit.edu	37	chr1	155296779	155296779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccgatgggcaccggggcGtcatgggactgcagctgaag	7	7	16	11	3	1	1	1	1	0	0	2	3	2	2	2	4	2	3	2	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:155296779G>A	uc001fkj.2	+	8	2499	c.2270G>A	c.(2269-2271)CGT>CAT	p.R757H	RAG1AP1_uc010pey.1_Intron|C1orf104_uc001fki.2_5'Flank|RUSC1_uc001fkk.2_Missense_Mutation_p.R651H|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_Missense_Mutation_p.R288H|RUSC1_uc001fkl.2_Missense_Mutation_p.R347H|RUSC1_uc001fkp.2_Missense_Mutation_p.R288H|RUSC1_uc001fkq.2_Missense_Mutation_p.R182H|RUSC1_uc010pgb.1_Missense_Mutation_p.R255H|RUSC1_uc009wqp.1_Missense_Mutation_p.R282H|RUSC1_uc001fkn.2_Missense_Mutation_p.R66H|RUSC1_uc001fko.2_RNA|RUSC1_uc001fkr.2_Missense_Mutation_p.R288H|RUSC1_uc001fks.2_Missense_Mutation_p.R66H	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	757						cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			GCACCGGGGCGTCATGGGACT	0.632													38	57					0	0	1	0	0		A	155296779	A	A	155296779	3	1	103	1	0	0	0	0	1	0	0	0	13775	1145	40	1	2427	1	RUSC1	1	155296779	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5703	155296779	93953842	139	62088											
RUSC1	23623	broad.mit.edu	37	chr1	155296883	155296883	+	Frame_Shift_Del	DEL	G	-	-																															gaagactatttggagtgcctGggggccccgcagaaaatgag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:155296883delG	uc001fkj.2	+	8	2603	c.2374delG	c.(2374-2376)GGGfs	p.G792fs	RAG1AP1_uc010pey.1_Intron|C1orf104_uc001fki.2_5'Flank|RUSC1_uc001fkk.2_Frame_Shift_Del_p.G686fs|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_Frame_Shift_Del_p.G323fs|RUSC1_uc001fkl.2_Frame_Shift_Del_p.G382fs|RUSC1_uc001fkp.2_Frame_Shift_Del_p.G323fs|RUSC1_uc001fkq.2_Frame_Shift_Del_p.G217fs|RUSC1_uc010pgb.1_Frame_Shift_Del_p.G290fs|RUSC1_uc009wqp.1_Frame_Shift_Del_p.G317fs|RUSC1_uc001fkn.2_Frame_Shift_Del_p.G101fs|RUSC1_uc001fko.2_RNA|RUSC1_uc001fkr.2_Frame_Shift_Del_p.G323fs|RUSC1_uc001fks.2_Frame_Shift_Del_p.G101fs	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	792						cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			TGGAGTGCCTGGGGGCCCCGC	0.557													48	85	---	---	---	---						.	-	155296883	-	-	155296883	7	5	103	1	0	1	0	1	0	0	0	0	13775	1348	47	0	2531	0	RUSC1	1	155296883	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	104	155296883	93953738	140	62089											
ASH1L	55870	broad.mit.edu	37	chr1	155448107	155448107	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacagcatcctttccaaaTctatagcgcttcaaagattc	13	11	4	13	1	2	1	1	0	1	1	5	1	4	1	3	0	3	2	3	0	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:155448107T>G	uc009wqq.2	-	3	5034	c.4554A>C	c.(4552-4554)AGA>AGC	p.R1518S	ASH1L_uc001fkt.2_Missense_Mutation_p.R1518S|ASH1L_uc009wqr.1_Missense_Mutation_p.R1518S	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1518					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			CCTTTCCAAATCTATAGCGCT	0.453													39	49					0	0	1	0	0		G	155448107	G	G	155448107	3	3	103	1	0	0	0	0	1	0	0	0	1042	1432	50	5	4444	5	ASH1L	1	155448107	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	151224	155448107	93802514	141	62090											
SEMA4A	64218	broad.mit.edu	37	chr1	156132858	156132858	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgctggactacttataggggCcctgagaccaacccccggcc	8	6	11	16	2	0	1	0	1	0	1	0	3	0	2	5	4	2	1	5	4	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:156132858C>T	uc001fnl.2	+	10	1211	c.1107C>T	c.(1105-1107)GGC>GGT	p.G369G	SEMA4A_uc009wrq.2_Silent_p.G369G|SEMA4A_uc001fnm.2_Silent_p.G369G|SEMA4A_uc001fnn.2_Silent_p.G237G|SEMA4A_uc001fno.2_Silent_p.G369G	NM_022367	NP_071762	Q9H3S1	SEM4A_HUMAN	semaphorin B precursor	369	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					CTTATAGGGGCCCTGAGACCA	0.478													19	53					0	0	1	0	0		T	156132858	T	T	156132858	2	4	103	1	0	0	0	0	0	0	0	1	14056	726	26	2		2	SEMA4A	1	156132858	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	684751	156132858	93117763	142	62091											
RHBG	57127	broad.mit.edu	37	chr1	156347148	156347148	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcttcctcatggtcttcCtgcagcgttacggcttcagc	4	14	10	13	2	3	0	2	0	1	0	5	0	5	0	2	3	4	4	2	3	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:156347148C>A	uc010pho.1	+	2	282	c.244C>A	c.(244-246)CTG>ATG	p.L82M	RHBG_uc010phm.1_Intron|RHBG_uc010phn.1_RNA|RHBG_uc001fos.2_Missense_Mutation_p.L13M|RHBG_uc009wrz.2_Missense_Mutation_p.L13M|RHBG_uc001for.2_Missense_Mutation_p.L52M	NM_020407	NP_065140	Q9H310	RHBG_HUMAN	Rhesus blood group, B glycoprotein	82	Helical; (Potential).				transepithelial ammonium transport	anchored to plasma membrane|basolateral plasma membrane|cytoplasmic vesicle membrane|integral to plasma membrane|spectrin-associated cytoskeleton	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			ovary(2)	2	Hepatocellular(266;0.158)					CATGGTCTTCCTGCAGCGTTA	0.632													64	115					1.15062e-32	1.24721e-32	1	1	0		A	156347148	A	A	156347148	3	1	103	1	0	0	0	0	1	0	0	0	13349	680	24	5	250	5	RHBG	1	156347148	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	214290	156347148	92903473	143	62092											
CD1C	911	broad.mit.edu	37	chr1	158262642	158262642	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agacacagcagtctaggaggCcaggacatcatcctctactg	12	7	10	12	0	3	1	1	0	2	1	4	3	4	3	2	3	2	1	2	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:158262642C>T	uc001fru.2	+	4	1159	c.867C>T	c.(865-867)GGC>GGT	p.G289G	CD1C_uc001frv.2_Silent_p.G92G	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	289	Extracellular (Potential).|Ig-like.				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					GTCTAGGAGGCCAGGACATCA	0.522													18	27					0	0	1	0	0		T	158262642	T	T	158262642	2	4	103	1	0	0	0	0	0	0	0	1	2979	726	26	2		2	CD1C	1	158262642	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1915494	158262642	90987979	144	62093											
OR6K2	81448	broad.mit.edu	37	chr1	158670411	158670411	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagcggagaagataaacTcctgaatggtggttcgattg	13	9	14	5	2	0	3	0	1	0	2	2	6	1	4	1	4	2	1	1	4	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:158670411T>C	uc001fsu.1	-	1	32	c.32A>G	c.(31-33)GAG>GGG	p.E11G		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					GAAGATAAACTCCTGAATGGT	0.448													20	44					0	0	1	0	0		C	158670411	C	C	158670411	3	2	103	1	0	0	0	0	1	0	0	0	11221	1551	54	3	946	3	OR6K2	1	158670411	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	407769	158670411	90580210	145	62094											
IFI16	3428	broad.mit.edu	37	chr1	158986369	158986369	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctggacccaaagggagtaAggtgtccgaggaacagactc	12	5	15	9	1	0	1	0	0	0	1	2	5	1	4	2	5	1	2	2	5	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:158986369A>G	uc001ftf.1	+	5	1035	c.428A>G	c.(427-429)AAG>AGG	p.K143R	IFI16_uc001ftg.2_Missense_Mutation_p.K143R|IFI16_uc010pis.1_Intron	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	143	Lys-rich.				cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					AAAGGGAGTAAGGTGTCCGAG	0.493													8	23					0	0	1	0	0		G	158986369	G	G	158986369	3	3	103	1	0	0	0	0	1	0	0	0	7527	72	3	3	438	3	IFI16	1	158986369	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	315958	158986369	90264252	146	62095											
CRP	1401	broad.mit.edu	37	chr1	159683558	159683558	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcttgcttctgcccccacAgtgtatcccttcttcagact	6	14	6	15	0	3	1	1	0	2	1	4	1	4	1	3	0	3	3	3	0	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:159683558A>C	uc001ftw.2	-	2	536	c.432T>G	c.(430-432)ACT>ACG	p.T144T	CRP_uc001ftx.1_Intron|CRP_uc001fty.1_RNA	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	144	Pentaxin.				acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	CTGCCCCCACAGTGTATCCCT	0.542													139	215					0	0	1	0	0		C	159683558	C	C	159683558	2	2	103	1	0	0	0	0	0	0	0	1	3898	175	7	5		5	CRP	1	159683558	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	697189	159683558	89567063	147	62096											
ATP1A2	477	broad.mit.edu	37	chr1	160098557	160098557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgctcggacaagacgggcaCcctcacccagaaccgcatga	11	4	10	16	3	1	3	1	1	0	2	2	4	1	4	3	2	2	3	3	2	2	0	rs28934002		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:160098557C>T	uc001fvc.2	+	9	1265	c.1133C>T	c.(1132-1134)ACC>ATC	p.T378I	ATP1A2_uc001fvb.2_Missense_Mutation_p.T378I|ATP1A2_uc010piz.1_Missense_Mutation_p.T223I|ATP1A2_uc001fvd.2_Missense_Mutation_p.T114I|ATP1A2_uc009wtg.1_Missense_Mutation_p.T66I	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	378	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			AAGACGGGCACCCTCACCCAG	0.602													26	51					0	0	1	0	0		T	160098557	T	T	160098557	3	4	103	1	0	0	0	0	1	0	0	0	1130	507	18	4	1167	4	ATP1A2	1	160098557	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	414999	160098557	89152064	148	62097											
COPA	1314	broad.mit.edu	37	chr1	160275305	160275305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggccccactcttgacacGaatgttctcatgaatgttac	10	11	7	13	1	2	2	1	2	2	0	3	3	2	2	3	1	1	2	3	1	3	3	rs144155845		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:160275305G>A	uc009wti.2	-	17	1979	c.1585C>T	c.(1585-1587)CGT>TGT	p.R529C	COPA_uc001fvv.3_Missense_Mutation_p.R538C|COPA_uc009wtj.1_Missense_Mutation_p.R475C	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	529					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CTCTTGACACGAATGTTCTCA	0.443													42	58					0	0	1	0	0		A	160275305	A	A	160275305	3	1	103	1	0	0	0	0	1	0	0	0	3730	1058	37	1	2157	1	COPA	1	160275305	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	176748	160275305	88975316	149	62098											
KLHDC9	126823	broad.mit.edu	37	chr1	161068706	161068706	+	Frame_Shift_Del	DEL	C	-	-																															acagggacccctggtgactgCccccccgccggcctcagtag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:161068706delC	uc001fxr.2	+	1	553	c.381delC	c.(379-381)TGCfs	p.C127fs	KLHDC9_uc001fxq.2_5'UTR|KLHDC9_uc001fxs.2_Frame_Shift_Del_p.C127fs	NM_152366	NP_689579	Q8NEP7	KLDC9_HUMAN	kelch/ankyrin repeat containing cyclin A1	127	Kelch 2.										0	all_cancers(52;1.28e-19)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			CTGGTGACTGCCCCCCCGCCG	0.687													4	7	---	---	---	---						.	-	161068706	-	-	161068706	7	5	103	1	0	1	0	1	0	0	0	0	8380	747	26	0	383	0	KLHDC9	1	161068706	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	793401	161068706	88181915	150	62099											
FCRLA	84824	broad.mit.edu	37	chr1	161682964	161682964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctgaggaggcccctgggCctctgcctccgccgccaacc	4	6	11	20	2	1	1	0	1	1	0	3	2	3	2	9	3	2	0	9	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:161682964C>T	uc001gbe.2	+	6	1185	c.943C>T	c.(943-945)CCT>TCT	p.P315S	FCRLA_uc001gbd.2_Missense_Mutation_p.P309S|FCRLA_uc001gbf.2_Missense_Mutation_p.P220S|FCRLA_uc001gbg.2_Missense_Mutation_p.P169S|FCRLA_uc009wuo.2_Missense_Mutation_p.P175S|FCRLA_uc009wup.2_Missense_Mutation_p.P125S|FCRLA_uc009wuq.2_Missense_Mutation_p.P74S	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	292	Pro-rich.				cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			GGCCCCTGGGCCTCTGCCTCC	0.567													27	46					0	0	1	0	0		T	161682964	T	T	161682964	3	4	103	1	0	0	0	0	1	0	0	0	5814	739	26	2	965	2	FCRLA	1	161682964	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	614258	161682964	87567657	151	62100											
TMCO1	54499	broad.mit.edu	37	chr1	165737430	165737430	+	Frame_Shift_Del	DEL	T	-	-																															aatgtgttgccatactcacaTtttttactctgtttttccac																								rs146830030		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:165737430delT	uc001gdj.3	-	2	296	c.147delA	c.(145-147)AAAfs	p.K49fs	TMCO1_uc001gdl.3_5'UTR|TMCO1_uc001gdm.3_5'UTR|TMCO1_uc001gdk.3_Frame_Shift_Del_p.K37fs|TMCO1_uc001gdn.3_RNA|uc001gdo.2_5'Flank	NM_019026	NP_061899	Q9UM00	TMCO1_HUMAN	transmembrane and coiled-coil domains 1	49	Potential.					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				central_nervous_system(1)	1	all_hematologic(923;0.048)|Acute lymphoblastic leukemia(8;0.155)					CATACTCACATTTTTTACTCT	0.363													12	27	---	---	---	---						.	-	165737430	-	-	165737430	7	5	103	1	0	1	0	1	0	0	0	0	16020	1507	52	0	443	0	TMCO1	1	165737430	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	4054466	165737430	83513191	152	62101											
FAM78B	149297	broad.mit.edu	37	chr1	166135339	166135339	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accacgcgggcggaggctttGaagtagggggtcttgtagcg	7	8	18	8	4	1	1	0	1	1	0	1	2	1	2	1	5	1	3	1	5	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:166135339G>A	uc001gdr.2	-	2	737	c.147C>T	c.(145-147)TTC>TTT	p.F49F	FAM78B_uc010plc.1_RNA	NM_001017961	NP_001017961	Q5VT40	FA78B_HUMAN	hypothetical protein LOC149297	49										central_nervous_system(1)|skin(1)	2	all_hematologic(923;0.0813)|Acute lymphoblastic leukemia(8;0.155)					CGGAGGCTTTGAAGTAGGGGG	0.622													4	14					0	0	1	0	0		A	166135339	A	A	166135339	2	1	103	1	0	0	0	0	0	0	0	1	5641	1281	45	4		4	FAM78B	1	166135339	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	397909	166135339	83115282	153	62102											
ADCY10	55811	broad.mit.edu	37	chr1	167839514	167839514	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgtgattcttaccttgggCcaggtactcaattttcataa	9	15	7	10	0	3	1	2	1	1	0	3	1	3	1	3	2	2	1	3	2	4	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:167839514C>A	uc001ger.2	-	14	1895	c.1597G>T	c.(1597-1599)GCC>TCC	p.A533S	ADCY10_uc009wvk.2_Missense_Mutation_p.A441S|ADCY10_uc010plj.1_Missense_Mutation_p.A380S|ADCY10_uc009wvl.2_Missense_Mutation_p.A532S	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	533					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						TTACCTTGGGCCAGGTACTCA	0.378													18	37					3.6726e-16	3.90464e-16	1	1	0		A	167839514	A	A	167839514	3	1	103	1	0	0	0	0	1	0	0	0	293	739	26	5	3315	5	ADCY10	1	167839514	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1704175	167839514	81411107	154	62103											
ATP1B1	481	broad.mit.edu	37	chr1	169076064	169076064	+	RNA	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagctgctgacccgccatCgccatggcccgcgggaaagc	7	4	14	16	4	0	1	0	1	0	0	1	2	0	2	4	3	3	3	4	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:169076064C>T	uc001gfs.1	+	1		c.118C>T						P05026	AT1B1_HUMAN	Synthetic construct DNA, clone: pF1KB8186, Homo sapiens ATP1B1 gene for ATPase, Na+/K+ transporting, beta 1 polypeptide, without stop codon, in Flexi system.						ATP biosynthetic process|blood coagulation|leukocyte migration	sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	all_hematologic(923;0.208)					GACCCGCCATCGCCATGGCCC	0.672													6	17					0	0	1	0	0		T	169076064	T	T	169076064	1	4	103	0	1	0	0	0	0	0	0	0	1133	899	31	1		1	ATP1B1	1	169076064	RNA	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1236550	169076064	80174557	155	62104											
ATP1B1	481	broad.mit.edu	37	chr1	169100834	169100834	+	RNA	DEL	A	-	-																															cactagccatttaataagttAaaaaaagatacaaaaacaaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:169100834delA	uc001gfs.1	+	6		c.1078delA						P05026	AT1B1_HUMAN	Synthetic construct DNA, clone: pF1KB8186, Homo sapiens ATP1B1 gene for ATPase, Na+/K+ transporting, beta 1 polypeptide, without stop codon, in Flexi system.						ATP biosynthetic process|blood coagulation|leukocyte migration	sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	all_hematologic(923;0.208)					TTAATAAGTTAAAAAAAGATA	0.338													27	31	---	---	---	---						.	-	169100834	-	-	169100834	6	5	103	0	1	1	0	1	0	0	0	0	1133	377	13	0		0	ATP1B1	1	169100834	RNA	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	24770	169100834	80149787	156	62105											
SLC9A11	284525	broad.mit.edu	37	chr1	173551149	173551150	+	Splice_Site	INS	-	A	A																															caatgcctacatgtaaatctINSaaaaaaaagaaagaaaaaat																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:173551149_173551150insA	uc001giz.2	-	7	1064	c.641_splice	c.e7-1	p.D214_splice	SLC9A11_uc010pmq.1_Splice_Site	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11						sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						CATGTAAATCTAAAAAAAAGAA	0.327													13	18	---	---	---	---						.	A	173551150	A	A	173551149	8	5	103	1	0	1	1	0	0	0	1	0	14736	1536	53	0	2823	0	SLC9A11	1	173551149	Splice_Site	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	4450315	173551149	75699472	157	62106											
SEC16B	89866	broad.mit.edu	37	chr1	177937055	177937056	+	Frame_Shift_Del	DEL	TT	-	-																															gaaaccctcggtctggatccTttgagggtgctgtggccttc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:177937055_177937056delTT	uc001gli.1	-	2	151_152	c.61_62delAA	c.(61-63)AAGfs	p.K21fs	SEC16B_uc001glk.1_5'UTR|SEC16B_uc009wwz.1_5'UTR|SEC16B_uc001glj.1_Frame_Shift_Del_p.K21fs|SEC16B_uc001gll.3_Frame_Shift_Del_p.K21fs	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	21					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4						GTCTGGATCCTTTGAGGGTGCT	0.55													16	27	---	---	---	---						.	-	177937056	-	-	177937055	7	5	103	1	0	1	0	1	0	0	0	0	14012	1609	56	0	3220	0	SEC16B	1	177937055	Frame_Shift_Del	DEL	TT	TCGA-BR-A4QL-01A-31D-A25D-08	4385906	177937055	71313566	158	62107											
SOAT1	6646	broad.mit.edu	37	chr1	179304653	179304653	+	Frame_Shift_Del	DEL	T	-	-																															aattctaggaattgaagccaTtttttatgaaggaagttggc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:179304653delT	uc001gml.2	+	4	253	c.190delT	c.(190-192)TTTfs	p.F64fs	SOAT1_uc010pni.1_5'UTR|SOAT1_uc001gmm.2_Frame_Shift_Del_p.F6fs|SOAT1_uc010pnj.1_5'UTR|SOAT1_uc010pnk.1_5'UTR	NM_003101	NP_003092	P35610	SOAT1_HUMAN	sterol O-acyltransferase 1	64					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|cholesterol storage|macrophage derived foam cell differentiation|positive regulation of amyloid precursor protein biosynthetic process|very-low-density lipoprotein particle assembly	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			central_nervous_system(1)|skin(1)	2					Ezetimibe(DB00973)|Hesperetin(DB01094)	ATTGAAGCCATTTTTTATGAA	0.373													23	48	---	---	---	---						.	-	179304653	-	-	179304653	7	5	103	1	0	1	0	1	0	0	0	0	14935	1493	52	0	200	0	SOAT1	1	179304653	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	1367598	179304653	69945968	159	62108											
CEP350	9857	broad.mit.edu	37	chr1	179965804	179965804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taactggatgataggcagtcGagaagaacggaatatacgga	16	7	13	5	3	0	3	0	1	0	2	1	7	0	6	0	4	3	1	0	4	7	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:179965804G>A	uc001gnt.2	+	6	895	c.512G>A	c.(511-513)CGA>CAA	p.R171Q	CEP350_uc001gnr.1_Missense_Mutation_p.R145Q|CEP350_uc009wxl.2_Missense_Mutation_p.R170Q|CEP350_uc001gnu.2_Missense_Mutation_p.R5Q	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	171						centrosome|nucleus|spindle				ovary(4)	4						ATAGGCAGTCGAGAAGAACGG	0.408													4	24					0	0	1	0	0		A	179965804	A	A	179965804	3	1	103	1	0	0	0	0	1	0	0	0	3257	1058	37	1	530	1	CEP350	1	179965804	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	661151	179965804	69284817	160	62109											
LHX4	89884	broad.mit.edu	37	chr1	180243343	180243343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcaaattctctcagaacttGgccacaccaataggatttat	14	12	5	10	0	3	1	2	0	1	1	4	2	3	2	2	2	1	0	2	2	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:180243343G>A	uc001goe.1	+	6	1025	c.802G>A	c.(802-804)GGC>AGC	p.G268S	uc001gof.1_Intron	NM_033343	NP_203129	Q969G2	LHX4_HUMAN	LIM homeobox protein 4	268						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						CTCAGAACTTGGCCACACCAA	0.493													47	74					0	0	1	0	0		A	180243343	A	A	180243343	3	1	103	1	0	0	0	0	1	0	0	0	8789	1348	47	4	824	4	LHX4	1	180243343	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	277539	180243343	69007278	161	62110											
CACNA1E	777	broad.mit.edu	37	chr1	181706764	181706764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggcggcagaggaccccGtcctgaccaactcggagcgc	7	4	13	17	4	0	2	0	1	0	1	2	4	1	4	5	4	2	1	5	4	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:181706764G>A	uc001gow.2	+	23	3691	c.3526G>A	c.(3526-3528)GTC>ATC	p.V1176I	CACNA1E_uc009wxs.2_Missense_Mutation_p.V1064I|CACNA1E_uc001gox.1_Missense_Mutation_p.V402I|CACNA1E_uc009wxt.2_Missense_Mutation_p.V402I	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1176	Extracellular (Potential).|III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						AGAGGACCCCGTCCTGACCAA	0.617													47	66					0	0	1	0	0		A	181706764	A	A	181706764	3	1	103	1	0	0	0	0	1	0	0	0	2545	1145	40	1	3616	1	CACNA1E	1	181706764	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1463421	181706764	67543857	162	62111											
C1orf14	81626	broad.mit.edu	37	chr1	182922237	182922237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggtgcggaatgagtccGcgggcaccgaggccttggag	7	7	18	9	4	0	2	0	2	0	0	1	5	1	4	3	5	1	1	3	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:182922237G>A	uc001gpu.2	-	1	317	c.32C>T	c.(31-33)GCG>GTG	p.A11V	C1orf14_uc001gpv.2_5'UTR|C1orf14_uc010pnz.1_5'UTR|C1orf14_uc001gpw.2_5'UTR	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	83											0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		GAATGAGTCCGCGGGCACCGA	0.716													5	4					0	0	1	0	0		A	182922237	A	A	182922237	3	1	103	1	0	0	0	0	1	0	0	0	2003	1087	38	1	1969	1	C1orf14	1	182922237	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1215473	182922237	66328384	163	62112											
FAM129A	116496	broad.mit.edu	37	chr1	184764591	184764591	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggttgggcctccctctcGctgacttcactttcttcaca	5	13	9	14	1	4	1	2	1	2	0	6	2	5	2	2	3	0	2	2	3	0	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:184764591G>A	uc001gra.2	-	14	2501	c.2307C>T	c.(2305-2307)AGC>AGT	p.S769S	FAM129A_uc001grb.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	769	Glu-rich.				negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						CCTCCCTCTCGCTGACTTCAC	0.607													136	207					0	0	1	0	0		A	184764591	A	A	184764591	2	1	103	1	0	0	0	0	0	0	0	1	5447	1078	38	1		1	FAM129A	1	184764591	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1842354	184764591	64486030	164	62113											
CDC73	79577	broad.mit.edu	37	chr1	193104571	193104571	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttagaaataggtcttcagCgatctactcaaggtatgtct	11	13	8	9	1	5	1	2	0	3	1	5	2	5	1	1	2	2	1	1	2	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:193104571C>T	uc001gtb.2	+	4	601	c.358C>T	c.(358-360)CGA>TGA	p.R120*	MIR1278_hsa-mir-1278|MI0006425_5'Flank	NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	120					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						AGGTCTTCAGCGATCTACTCA	0.333									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				19	37					0	0	1	0	0		T	193104571	T	T	193104571	4	4	103	1	0	0	0	0	0	1	0	0	3088	760	27	1	372	1	CDC73	1	193104571	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	8339980	193104571	56146050	165	62114											
CACNA1S	779	broad.mit.edu	37	chr1	201042762	201042762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcctcttctgacttgtctGggagacccctgagttagaaa	8	13	9	11	0	4	4	0	2	4	2	5	5	4	4	3	1	0	1	3	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:201042762G>A	uc001gvv.2	-	15	2299	c.2072C>T	c.(2071-2073)CCA>CTA	p.P691L		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	691	Cytoplasmic (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TGACTTGTCTGGGAGACCCCT	0.537													116	168					0	0	1	0	0		A	201042762	A	A	201042762	3	1	103	1	0	0	0	0	1	0	0	0	2550	1348	47	4	3669	4	CACNA1S	1	201042762	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	7938191	201042762	48207859	166	62115											
CACNA1S	779	broad.mit.edu	37	chr1	201047120	201047120	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggataccgctacacaccacGaagcagtcgaagcggttgaa	14	5	11	11	4	0	1	0	1	0	0	1	4	0	2	2	2	4	3	2	2	5	3	rs141808465	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:201047120G>A	uc001gvv.2	-	11	1733	c.1506C>T	c.(1504-1506)TTC>TTT	p.F502F		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	502	Helical; Name=S3 of repeat II; (Potential).|II.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TACACACCACGAAGCAGTCGA	0.592													31	41					0	0	1	0	0		A	201047120	A	A	201047120	2	1	103	1	0	0	0	0	0	0	0	1	2550	1049	37	1		1	CACNA1S	1	201047120	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4358	201047120	48203501	167	62116											
RNPEP	6051	broad.mit.edu	37	chr1	201966518	201966518	+	Frame_Shift_Del	DEL	C	-	-																															cccttgtctgacctttgtcaCcccctgcctgctagctgggg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:201966518delC	uc001gxd.2	+	5	955	c.926delC	c.(925-927)ACCfs	p.T309fs	RNPEP_uc001gxe.2_Frame_Shift_Del_p.T10fs|RNPEP_uc001gxf.2_Frame_Shift_Del_p.T178fs	NM_020216	NP_064601	Q9H4A4	AMPB_HUMAN	arginyl aminopeptidase	309					leukotriene biosynthetic process		epoxide hydrolase activity|zinc ion binding			upper_aerodigestive_tract(1)	1				KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|Colorectal(1306;0.005)		ACCTTTGTCACCCCCTGCCTG	0.562													55	95	---	---	---	---						.	-	201966518	-	-	201966518	7	5	103	1	0	1	0	1	0	0	0	0	13534	507	18	0	944	0	RNPEP	1	201966518	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	919398	201966518	47284103	168	62117											
GPR37L1	9283	broad.mit.edu	37	chr1	202096944	202096944	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacgtggccaccagcaccCtgcccaaggtgaggcccatc	8	5	10	18	1	0	1	0	1	0	0	2	1	1	1	6	3	2	1	6	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:202096944C>A	uc001gxj.2	+	2	769	c.706C>A	c.(706-708)CTG>ATG	p.L236M		NM_004767	NP_004758	O60883	ETBR2_HUMAN	G-protein coupled receptor 37 like 1 precursor	236	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2						CACCAGCACCCTGCCCAAGGT	0.627													5	74					0.184627	0.185078	1	1	0		A	202096944	A	A	202096944	3	1	103	1	0	0	0	0	1	0	0	0	6707	680	24	5	712	5	GPR37L1	1	202096944	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	130426	202096944	47153677	169	62118											
PTPN7	5778	broad.mit.edu	37	chr1	202128509	202128510	+	Frame_Shift_Ins	INS	-	C	C																															aacggctgtgctctggagcgINSccccccatgggcttggacca																								rs4073458		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:202128509_202128510insC	uc001gxm.1	-	2	152_153	c.21_22insG	c.(19-24)GGGCGCfs	p.G7fs	PTPN7_uc001gxl.1_Frame_Shift_Ins_p.G46fs|PTPN7_uc001gxn.1_Frame_Shift_Ins_p.G7fs|PTPN7_uc010ppv.1_5'UTR|PTPN7_uc010ppw.1_5'UTR|PTPN7_uc010ppx.1_Frame_Shift_Ins_p.G81fs|PTPN7_uc010ppy.1_RNA|PTPN7_uc001gxo.1_5'Flank	NM_002832	NP_002823	P35236	PTN7_HUMAN	protein tyrosine phosphatase, non-receptor type	7_8						cytosol|internal side of plasma membrane	protein binding|protein tyrosine phosphatase activity			skin(1)	1						GCTCTGGAGCGCCCCCCATGGG	0.634													32	48	---	---	---	---						.	C	202128510	C	C	202128509	7	5	103	1	0	1	1	0	0	0	0	0	12818	1087	38	0	1096	0	PTPN7	1	202128509	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	31565	202128509	47122112	170	62119											
PLEKHA6	22874	broad.mit.edu	37	chr1	204210890	204210891	+	Frame_Shift_Ins	INS	-	G	G																															gatgtctctgggggtgtccaINSggggcaatgtctggtggggg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:204210890_204210891insG	uc001hau.2	-	16	2541_2542	c.2224_2225insC	c.(2224-2226)CTGfs	p.L742fs	PLEKHA6_uc009xau.1_RNA	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	742										ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			GGGGGTGTCCAGGGGCAATGTC	0.535													42	66	---	---	---	---						.	G	204210891	G	G	204210890	7	5	103	1	0	1	1	0	0	0	0	0	12079	188	7	0	949	0	PLEKHA6	1	204210890	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	2082381	204210890	45039731	171	62120											
PIK3C2B	5287	broad.mit.edu	37	chr1	204438269	204438269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccacagaccccagtaggCgcccctgacccccacctccc	8	4	7	22	1	0	2	0	1	0	1	2	2	2	2	9	1	0	1	9	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:204438269C>T	uc001haw.2	-	3	1141	c.662G>A	c.(661-663)CGC>CAC	p.R221H	PIK3C2B_uc010pqv.1_Missense_Mutation_p.R221H|PIK3C2B_uc001hax.1_Missense_Mutation_p.R221H|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	221	Interaction with GRB2.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			CCCCAGTAGGCGCCCCTGACC	0.522													162	281					0	0	1	0	0		T	204438269	T	T	204438269	3	4	103	1	0	0	0	0	1	0	0	0	11929	768	27	1	4370	1	PIK3C2B	1	204438269	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	227379	204438269	44812352	172	62121											
NFASC	23114	broad.mit.edu	37	chr1	204951100	204951100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaggctgaaaatgacttcGggaagggccctgagccagag	11	6	14	10	1	0	4	0	3	0	1	2	5	1	5	3	3	1	1	3	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:204951100G>A	uc001hbj.2	+	21	2750	c.2422G>A	c.(2422-2424)GGG>AGG	p.G808R	NFASC_uc010pra.1_Missense_Mutation_p.G804R|NFASC_uc001hbi.2_Missense_Mutation_p.G804R|NFASC_uc010prb.1_Missense_Mutation_p.G819R|NFASC_uc010prc.1_Missense_Mutation_p.G375R|NFASC_uc001hbk.1_Missense_Mutation_p.G614R|NFASC_uc001hbl.1_Missense_Mutation_p.G58R	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	808	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			AAATGACTTCGGGAAGGGCCC	0.602													6	20					0	0	1	0	0		A	204951100	A	A	204951100	3	1	103	1	0	0	0	0	1	0	0	0	10378	1116	39	1	2580	1	NFASC	1	204951100	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	512831	204951100	44299521	173	62122											
PIGR	5284	broad.mit.edu	37	chr1	207109149	207109149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcaccacagtggggctgcGgggaatcgtggactctggaa	8	8	15	10	2	2	0	1	0	1	0	3	3	2	3	1	6	1	1	1	6	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:207109149G>A	uc001hez.2	-	5	1244	c.1060C>T	c.(1060-1062)CGC>TGC	p.R354C	PIGR_uc009xbz.2_Missense_Mutation_p.R354C	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	354	Extracellular (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GTGGGGCTGCGGGGAATCGTG	0.602											OREG0014186	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	17					0	0	1	0	0		A	207109149	A	A	207109149	3	1	103	1	0	0	0	0	1	0	0	0	11916	1116	39	1	1262	1	PIGR	1	207109149	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2158049	207109149	42141472	174	62123											
CAMK1G	57172	broad.mit.edu	37	chr1	209776581	209776581	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagcatgaaaacattgtgAccctggaggacatctatgag	14	9	10	8	0	2	3	1	3	1	0	2	5	2	5	1	2	2	1	1	2	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:209776581A>G	uc001hhd.2	+	4	346	c.244A>G	c.(244-246)ACC>GCC	p.T82A	CAMK1G_uc001hhf.3_Missense_Mutation_p.T82A|CAMK1G_uc001hhe.2_Missense_Mutation_p.T82A	NM_020439	NP_065172	Q96NX5	KCC1G_HUMAN	calcium/calmodulin-dependent protein kinase IG	82	Protein kinase.					Golgi membrane|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0475)		AAACATTGTGACCCTGGAGGA	0.468													18	32					0	0	1	0	0		G	209776581	G	G	209776581	3	3	103	1	0	0	0	0	1	0	0	0	2601	275	10	3	254	3	CAMK1G	1	209776581	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2667432	209776581	39474040	175	62124											
RCOR3	55758	broad.mit.edu	37	chr1	211486067	211486067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactttgccttccaggtgtcCgcaaatatggtaaagatttt	10	15	8	8	1	0	1	0	0	0	1	2	1	2	1	3	2	2	2	3	2	5	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:211486067C>T	uc001hig.2	+	10	1076	c.907C>T	c.(907-909)CGC>TGC	p.R303C	RCOR3_uc010psv.1_RNA|RCOR3_uc001hie.2_Missense_Mutation_p.R361C|RCOR3_uc010psw.1_Missense_Mutation_p.R361C|RCOR3_uc001hif.2_Intron|RCOR3_uc009xcz.2_RNA	NM_018254	NP_060724	Q9P2K3	RCOR3_HUMAN	REST corepressor 3 isoform d	303	SANT 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		TCCAGGTGTCCGCAAATATGG	0.393													41	78					0	0	1	0	0		T	211486067	T	T	211486067	3	4	103	1	0	0	0	0	1	0	0	0	13209	652	23	1	1123	1	RCOR3	1	211486067	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1709486	211486067	37764554	176	62125											
FLVCR1	28982	broad.mit.edu	37	chr1	213032160	213032160	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtactcgctggtcaacgcCtttcagtggatccagtacag	8	11	10	12	2	2	0	2	0	0	0	4	1	3	1	2	2	3	3	2	2	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:213032160C>T	uc001hjt.2	+	1	564	c.366C>T	c.(364-366)GCC>GCT	p.A122A	LQK1_uc001hjr.3_5'Flank|LQK1_uc001hjs.3_5'Flank	NM_014053	NP_054772	Q9Y5Y0	FLVC1_HUMAN	feline leukemia virus subgroup C cellular	122	Helical; (Potential).				cell death|cellular iron ion homeostasis|heme export|transmembrane transport	integral to plasma membrane	heme transporter activity|protein binding|receptor activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.00733)|all cancers(67;0.013)|GBM - Glioblastoma multiforme(131;0.0845)|Epithelial(68;0.11)		TGGTCAACGCCTTTCAGTGGA	0.612													20	26					0	0	1	0	0		T	213032160	T	T	213032160	2	4	103	1	0	0	0	0	0	0	0	1	5959	668	24	4		4	FLVCR1	1	213032160	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1546093	213032160	36218461	177	62126											
EPRS	2058	broad.mit.edu	37	chr1	220195819	220195819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgaccaaactggctccCttttttcatttcttcccaca	8	14	5	14	0	2	1	1	1	1	0	4	2	4	2	3	2	1	1	3	2	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:220195819C>T	uc001hly.1	-	9	1255	c.985G>A	c.(985-987)GGG>AGG	p.G329R	EPRS_uc010puf.1_Missense_Mutation_p.G80R|EPRS_uc001hlz.1_Missense_Mutation_p.G329R|EPRS_uc009xdt.1_Missense_Mutation_p.G130R	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	329	Glutamyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	AACTGGCTCCCTTTTTTCATT	0.348													36	85					0	0	1	0	0		T	220195819	T	T	220195819	3	4	103	1	0	0	0	0	1	0	0	0	5199	681	24	4	3649	4	EPRS	1	220195819	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	7163659	220195819	29054802	178	62127											
IARS2	55699	broad.mit.edu	37	chr1	220313568	220313568	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgattttggaaaagttgttcGgctgttacggacgttttata	9	17	11	4	3	0	1	0	1	0	0	1	3	0	3	0	3	1	5	0	3	5	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:220313568G>C	uc001hmc.2	+	19	2455	c.2351G>C	c.(2350-2352)CGG>CCG	p.R784P	IARS2_uc001hmd.2_Missense_Mutation_p.R120P	NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase	784					isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	AAAGTTGTTCGGCTGTTACGG	0.308													12	27					0	0	1	0	0		C	220313568	C	C	220313568	3	2	103	1	0	0	0	0	1	0	0	0	7490	1116	39	5	2425	5	IARS2	1	220313568	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	117749	220313568	28937053	179	62128											
DUSP10	11221	broad.mit.edu	37	chr1	221912920	221912920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggcatatacgtcagattcGcagccttgagggacacaacg	12	7	12	10	3	1	2	1	1	0	1	2	3	1	3	1	2	3	2	1	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:221912920G>A	uc001hmy.1	-	2	349	c.167C>T	c.(166-168)GCG>GTG	p.A56V	DUSP10_uc001hmx.1_5'Flank|DUSP10_uc001hmz.1_Intron	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	56					inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		CGTCAGATTCGCAGCCTTGAG	0.567													20	62					0	0	1	0	0		A	221912920	A	A	221912920	3	1	103	1	0	0	0	0	1	0	0	0	4816	1087	38	1	1293	1	DUSP10	1	221912920	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1599352	221912920	27337701	180	62129											
HHIPL2	79802	broad.mit.edu	37	chr1	222713534	222713534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccctcggtccacagcacaaCgccacatgttcctgatccca	9	7	6	19	2	0	1	0	1	0	0	4	1	3	1	6	1	2	2	6	1	1	1	rs149049815	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:222713534C>T	uc001hnh.1	-	4	1326	c.1268G>A	c.(1267-1269)CGT>CAT	p.R423H		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	423					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		CACAGCACAACGCCACATGTT	0.597													6	68					0	0	1	0	0		T	222713534	T	T	222713534	3	4	103	1	0	0	0	0	1	0	0	0	7110	536	19	1	930	1	HHIPL2	1	222713534	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	800614	222713534	26537087	181	62130											
MIA3	375056	broad.mit.edu	37	chr1	222794552	222794552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcacaggcccggattgtcGttttgtgaattttaaaaaag	11	15	9	6	2	1	1	1	1	0	0	2	2	1	2	1	2	0	1	1	2	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:222794552G>A	uc001hnl.2	+	2	194	c.185G>A	c.(184-186)CGT>CAT	p.R62H		NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	62	SH3.|Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		CCGGATTGTCGTTTTGTGAAT	0.388													21	44					0	0	1	0	0		A	222794552	A	A	222794552	3	1	103	1	0	0	0	0	1	0	0	0	9583	1145	40	1	191	1	MIA3	1	222794552	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	81018	222794552	26456069	182	62131											
TLR5	7100	broad.mit.edu	37	chr1	223284234	223284234	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgtattgagtgtccaggtGtttgagcaaagcattctgca	10	13	11	7	0	1	2	0	2	1	0	2	2	2	2	1	1	3	5	1	1	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:223284234G>C	uc001hnv.1	-	4	2586	c.2140C>G	c.(2140-2142)CAC>GAC	p.H714D	TLR5_uc001hnw.1_Missense_Mutation_p.H714D	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	714	Cytoplasmic (Potential).|TIR.		Missing (in 10% of the population; abolishes flagellin signaling; associated with resistance to SLEB1).		cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		GTGTCCAGGTGTTTGAGCAAA	0.458													19	34					0	0	1	0	0		C	223284234	C	C	223284234	3	2	103	1	0	0	0	0	1	0	0	0	15979	1377	48	5	440	5	TLR5	1	223284234	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	489682	223284234	25966387	183	62132											
FBXO28	23219	broad.mit.edu	37	chr1	224301881	224301881	+	Frame_Shift_Del	DEL	A	-	-																															agaggaaggaggcggcggccAaggcgacggcggttcctctt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:224301881delA	uc001hoh.2	+	1	91	c.50delA	c.(49-51)CAAfs	p.Q17fs	FBXO28_uc009xef.2_Frame_Shift_Del_p.Q17fs|FBXO28_uc010pvc.1_5'UTR	NM_015176	NP_055991	Q9NVF7	FBX28_HUMAN	F-box protein 28 isoform a	17										ovary(2)|kidney(2)|lung(1)	5	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.0363)		GGCGGCGGCCAAGGCGACGGC	0.706													2	4	---	---	---	---						.	-	224301881	-	-	224301881	7	5	103	1	0	1	0	1	0	0	0	0	5752	130	5	0	52	0	FBXO28	1	224301881	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	1017647	224301881	24948740	184	62133											
SRP9	6726	broad.mit.edu	37	chr1	225971006	225971006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatttttgtttcaggcacGtgtggttctcaaatataggc	8	17	10	6	1	2	0	2	0	1	0	3	0	2	0	0	3	0	4	0	3	4	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:225971006G>A	uc001hpg.2	+	2	205	c.77G>A	c.(76-78)CGT>CAT	p.R26H	SRP9_uc001hpf.3_RNA|SRP9_uc001hph.2_Missense_Mutation_p.R26H|SRP9_uc001hpi.3_RNA|SRP9_uc001hpj.1_Intron	NM_003133	NP_003124	P49458	SRP09_HUMAN	signal recognition particle 9kDa isoform 2	26					negative regulation of translational elongation|SRP-dependent cotranslational protein targeting to membrane	cytosol|signal recognition particle receptor complex|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding				0						TTTCAGGCACGTGTGGTTCTC	0.303													32	27					0	0	1	0	0		A	225971006	A	A	225971006	3	1	103	1	0	0	0	0	1	0	0	0	15183	1145	40	1	83	1	SRP9	1	225971006	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1669125	225971006	23279615	185	62134											
WNT3A	89780	broad.mit.edu	37	chr1	228210547	228210547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaccagttccgcggccGccggtggaactgcaccaccg	7	4	12	18	5	0	0	0	0	0	0	1	1	1	1	7	3	3	3	7	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:228210547G>A	uc001hrq.1	+	2	329	c.251G>A	c.(250-252)CGC>CAC	p.R84H	WNT3A_uc001hrp.1_Missense_Mutation_p.R84H	NM_033131	NP_149122	P56704	WNT3A_HUMAN	wingless-type MMTV integration site family,	84					axis specification|cell proliferation in forebrain|cell-cell signaling|cellular response to retinoic acid|convergent extension|dermatome development|dorsal/ventral neural tube patterning|embryonic pattern specification|extracellular matrix organization|hemopoietic stem cell proliferation|hippocampus development|inner ear morphogenesis|mammary gland development|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of neuron projection development|notochord development|palate development|paraxial mesodermal cell fate commitment|positive regulation of catenin import into nucleus|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of receptor internalization|positive regulation of transcription from RNA polymerase II promoter|signalosome assembly|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuroblast division|Wnt receptor signaling pathway, calcium modulating pathway	cell surface|early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled-2 binding|receptor agonist activity|signal transducer activity|transcription coactivator activity			ovary(1)	1		Prostate(94;0.0405)				TTCCGCGGCCGCCGGTGGAAC	0.637													19	36					0	0	1	0	0		A	228210547	A	A	228210547	3	1	103	1	0	0	0	0	1	0	0	0	17415	1087	38	1	257	1	WNT3A	1	228210547	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2239541	228210547	21040074	186	62135											
OBSCN	84033	broad.mit.edu	37	chr1	228481946	228481946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctgagcaaggcggcacCggtggagtggaggaaggggc	9	4	21	7	2	0	2	0	2	0	0	0	5	0	5	1	8	2	3	1	8	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:228481946C>T	uc009xez.1	+	42	11269	c.11225C>T	c.(11224-11226)CCG>CTG	p.P3742L	OBSCN_uc001hsn.2_Missense_Mutation_p.P3742L|OBSCN_uc001hsq.1_Missense_Mutation_p.P998L	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3742	Ig-like 38.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AAGGCGGCACCGGTGGAGTGG	0.622													62	89					0	0	1	0	0		T	228481946	T	T	228481946	3	4	103	1	0	0	0	0	1	0	0	0	10831	652	23	1	11387	1	OBSCN	1	228481946	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	271399	228481946	20768675	187	62136											
ACTA1	58	broad.mit.edu	37	chr1	229568141	229568141	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagccctcataaatgggcacGttgtgggtgacgccgtcgcc	7	9	13	12	4	1	1	1	1	0	0	2	1	1	1	3	2	1	2	3	2	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:229568141G>A	uc001htm.2	-	4	597	c.492C>T	c.(490-492)AAC>AAT	p.N164N		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	164					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	AAATGGGCACGTTGTGGGTGA	0.667													16	33					0	0	1	0	0		A	229568141	A	A	229568141	2	1	103	1	0	0	0	0	0	0	0	1	191	1136	40	1		1	ACTA1	1	229568141	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1086195	229568141	19682480	188	62137											
NUP133	55746	broad.mit.edu	37	chr1	229599297	229599297	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacactcatcacctgatcaGcaaactgggtcatgtagcgc	12	8	8	13	1	4	1	4	1	0	0	4	1	4	1	1	1	4	2	1	1	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:229599297G>C	uc001htn.2	-	19	2770	c.2678C>G	c.(2677-2679)GCT>GGT	p.A893G		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	893					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				CACCTGATCAGCAAACTGGGT	0.453													18	41					0	0	1	0	0		C	229599297	C	C	229599297	3	2	103	1	0	0	0	0	1	0	0	0	10773	971	34	5	824	5	NUP133	1	229599297	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	31156	229599297	19651324	189	62138											
PGBD5	79605	broad.mit.edu	37	chr1	230486757	230486757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacccagaggctgaatttccGctttttcctctttcgcagct	6	14	8	13	2	1	2	0	1	1	1	4	3	3	2	3	1	1	4	3	1	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:230486757G>A	uc010pwb.1	-	3	634	c.634C>T	c.(634-636)CGG>TGG	p.R212W	PGBD5_uc001htv.2_Missense_Mutation_p.R311W	NM_024554	NP_078830	Q8N414	PGBD5_HUMAN	piggyBac transposable element derived 5	212						integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(184;0.0397)	Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;0.201)		CTGAATTTCCGCTTTTTCCTC	0.572													28	60					0	0	1	0	0		A	230486757	A	A	230486757	3	1	103	1	0	0	0	0	1	0	0	0	11803	1086	38	1	753	1	PGBD5	1	230486757	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	887460	230486757	18763864	190	62139											
PCNXL2	80003	broad.mit.edu	37	chr1	233231580	233231580	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagccacatatgtcaggacGaactgtaacttgtgaagcag	13	8	12	8	1	1	1	1	1	0	0	1	4	1	3	1	2	4	2	1	2	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:233231580G>A	uc001hvl.2	-	22	4102	c.3867C>T	c.(3865-3867)TTC>TTT	p.F1289F	PCNXL2_uc001hvm.1_RNA|PCNXL2_uc009xfu.2_Intron|PCNXL2_uc001hvp.1_RNA|PCNXL2_uc009xfv.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1289						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				ATGTCAGGACGAACTGTAACT	0.443													13	14					0	0	1	0	0		A	233231580	A	A	233231580	2	1	103	1	0	0	0	0	0	0	0	1	11611	1049	37	1		1	PCNXL2	1	233231580	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2744823	233231580	16019041	191	62140											
TARBP1	6894	broad.mit.edu	37	chr1	234527354	234527354	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctccgtgcgagagcagcTgctgcctggtgtactcccag	6	10	12	13	2	1	1	0	0	1	1	3	2	2	1	3	1	6	4	3	1	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:234527354T>A	uc001hwd.2	-	30	4835	c.4835A>T	c.(4834-4836)CAG>CTG	p.Q1612L		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	1612					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			CGAGAGCAGCTGCTGCCTGGT	0.478													19	20					0	0	1	0	0		A	234527354	A	A	234527354	3	1	103	1	0	0	0	0	1	0	0	0	15580	1580	55	5	34	5	TARBP1	1	234527354	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1295774	234527354	14723267	192	62141											
FH	2271	broad.mit.edu	37	chr1	241672068	241672068	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatgtgcattgctgtgggAaaagtatcatttgagctctg	10	13	12	6	0	2	1	1	1	1	0	2	2	2	2	0	1	3	5	0	1	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:241672068A>G	uc001hyx.2	-	5	605	c.573T>C	c.(571-573)TTT>TTC	p.F191F		NM_000143	NP_000134	P07954	FUMH_HUMAN	fumarate hydratase precursor	191					fumarate metabolic process|tricarboxylic acid cycle	cell junction|mitochondrial matrix|tricarboxylic acid cycle enzyme complex	fumarate hydratase activity			lung(3)|ovary(1)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;2.37e-314)|all_epithelial(177;5.17e-286)|Breast(1374;1.06e-10)|Acute lymphoblastic leukemia(190;4.93e-10)|all_neural(198;0.00118)	OV - Ovarian serous cystadenocarcinoma(106;0.0214)	Colorectal(1306;2.33e-53)|COAD - Colon adenocarcinoma(196;1.05e-44)|KIRC - Kidney renal clear cell carcinoma(1967;0.000109)		TTGCTGTGGGAAAAGTATCAT	0.333			Mis|N|F			lieomyomatosis|renal			Hereditary_Leiomyomatosis_and_Renal_Cell_Cancer				14	24					0	0	1	0	0		G	241672068	G	G	241672068	2	3	103	1	0	0	0	0	0	0	0	1	5889	243	9	3		3	FH	1	241672068	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	7144714	241672068	7578553	193	62142											
SCCPDH	51097	broad.mit.edu	37	chr1	246923498	246923499	+	Frame_Shift_Ins	INS	-	T	T																															tggttcttctcctttggctaINStttttcaaaacaaggcccaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:246923498_246923499insT	uc001ibr.2	+	9	1306_1307	c.959_960insT	c.(958-960)TATfs	p.Y320fs		NM_016002	NP_057086	Q8NBX0	SCPDH_HUMAN	saccharopine dehydrogenase (putative)	320						midbody	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity			ovary(1)	1	all_cancers(71;6.8e-05)|all_epithelial(71;7.93e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0545)|Lung NSC(105;0.0618)	all_cancers(173;0.0343)	OV - Ovarian serous cystadenocarcinoma(106;0.00323)	GBM - Glioblastoma multiforme(49;0.0896)		TCCTTTGGCTATTTTTCAAAAC	0.287													21	38	---	---	---	---						.	T	246923499	T	T	246923498	7	5	103	1	0	1	1	0	0	0	0	0	13910	449	16	0	993	0	SCCPDH	1	246923498	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	5251430	246923498	2327123	194	62143											
ZNF496	84838	broad.mit.edu	37	chr1	247473056	247473056	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcctgcaactctggaacGcgtggctcattctcctctcc	7	11	8	15	2	4	1	1	0	3	1	7	2	5	2	3	2	3	2	3	2	2	1	rs112850226		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:247473056G>A	uc001ico.2	-	7	1302	c.837C>T	c.(835-837)CGC>CGT	p.R279R	ZNF496_uc009xgv.2_Silent_p.R315R|ZNF496_uc001icp.2_Silent_p.R279R|ZNF496_uc001icq.1_Silent_p.R54R	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	279	KRAB.				positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			ACTCTGGAACGCGTGGCTCAT	0.517													22	27					0	0	1	0	0		A	247473056	A	A	247473056	2	1	103	1	0	0	0	0	0	0	0	1	17970	1074	38	1		1	ZNF496	1	247473056	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	549558	247473056	1777565	195	62144											
ZNF496	84838	broad.mit.edu	37	chr1	247486457	247486457	+	Frame_Shift_Del	DEL	G	-	-																															tcctgtagaaaccactcaccGggggtagctggagggtggtc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:247486457delG	uc001ico.2	-	5	1115	c.650delC	c.(649-651)CCGfs	p.P217fs	ZNF496_uc009xgv.2_Frame_Shift_Del_p.P217fs|ZNF496_uc001icp.2_Frame_Shift_Del_p.P217fs|ZNF496_uc010pyv.1_Frame_Shift_Del_p.P217fs	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	217					positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			ACCACTCACCGGGGGTAGCTG	0.522													33	54	---	---	---	---						.	-	247486457	-	-	247486457	7	5	103	1	0	1	0	1	0	0	0	0	17970	1130	39	0	1133	0	ZNF496	1	247486457	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	13401	247486457	1764164	196	62145											
OR2T33	391195	broad.mit.edu	37	chr1	248436550	248436550	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgttttcgaagactgaagtGtcagcacaagccaaacgcac	13	7	10	11	3	1	2	1	1	0	1	2	3	1	2	1	0	3	3	1	0	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:248436550G>T	uc010pzi.1	-	1	567	c.567C>A	c.(565-567)GAC>GAA	p.D189E		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AGACTGAAGTGTCAGCACAAG	0.532													11	54					9.16793e-09	9.48677e-09	1	1	0		T	248436550	T	T	248436550	3	4	103	1	0	0	0	0	1	0	0	0	11043	1368	48	5	398	5	OR2T33	1	248436550	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	950093	248436550	814071	197	62146											
OR2T3	343173	broad.mit.edu	37	chr1	248636988	248636988	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgttcttctacctgaccctgGctggagctgaggttttcctc	4	15	10	12	0	2	2	0	2	2	0	4	3	3	3	3	3	2	4	3	3	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:248636988G>C	uc001iel.1	+	1	337	c.337G>C	c.(337-339)GCT>CCT	p.A113P		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	113	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCTGACCCTGGCTGGAGCTGA	0.552													28	45					0	0	1	0	0		C	248636988	C	C	248636988	3	2	103	1	0	0	0	0	1	0	0	0	11042	1203	42	5	339	5	OR2T3	1	248636988	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	200438	248636988	613633	198	62147											
OR2T10	127069	broad.mit.edu	37	chr1	248756419	248756419	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaggatgatatagtagtaAgacactgaaatgaccgtcac	15	9	11	6	1	1	5	1	4	0	1	1	6	1	6	1	1	0	2	1	1	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr1:248756419A>G	uc010pzn.1	-	1	651	c.651T>C	c.(649-651)TCT>TCC	p.S217S		NM_001004693	NP_001004693	Q8NGZ9	O2T10_HUMAN	olfactory receptor, family 2, subfamily T,	217	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TATAGTAGTAAGACACTGAAA	0.453													13	78					0	0	1	0	0		G	248756419	G	G	248756419	2	3	103	1	0	0	0	0	0	0	0	1	11036	59	3	3		3	OR2T10	1	248756419	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	119431	248756419	494202	199	62148											
FAM110C	642273	broad.mit.edu	37	chr2	45589	45589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgcagcccctcgtcgtcgCcgccgctgtgccgggagaag	4	6	14	17	6	0	1	0	0	0	1	3	2	0	1	6	1	3	2	6	1	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:45589C>T	uc010yim.1	-	1	797	c.797G>A	c.(796-798)GGC>GAC	p.G266D		NM_001077710	NP_001071178	Q1W6H9	F110C_HUMAN	hypothetical protein LOC642273	266						microtubule|microtubule organizing center|spindle pole					0	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.00221)		all cancers(51;0.000815)|Epithelial(75;0.00379)|OV - Ovarian serous cystadenocarcinoma(76;0.0127)|GBM - Glioblastoma multiforme(21;0.232)		CTCGTCGTCGCCGCCGCTGTG	0.667													13	18					0	0	1	0	0		T	45589	T	T	45589	3	4	103	1	0	0	0	0	1	0	0	0	5409	739	26	2	176	2	FAM110C	2	45589	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08		45589	243153784	200	62149											
PXDN	7837	broad.mit.edu	37	chr2	1652064	1652064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgggatcccgtggtccCggccccgctggatgttgatg	4	9	17	11	3	0	1	0	1	0	0	2	3	2	3	4	5	0	2	4	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:1652064C>T	uc002qxa.2	-	17	3552	c.3488G>A	c.(3487-3489)CGG>CAG	p.R1163Q		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1163					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CCCGTGGTCCCGGCCCCGCTG	0.602													39	74					0	0	1	0	0		T	1652064	T	T	1652064	3	4	103	1	0	0	0	0	1	0	0	0	12872	652	23	1	979	1	PXDN	2	1652064	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1606475	1652064	241547309	201	62150											
MYT1L	23040	broad.mit.edu	37	chr2	1796190	1796190	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgttctgctgctcaatcactTtgttctcctcttcgatggtc	4	17	7	13	2	5	0	2	0	3	0	8	1	5	0	1	1	2	4	1	1	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:1796190T>C	uc002qxe.2	-	24	4150	c.3323A>G	c.(3322-3324)AAA>AGA	p.K1108R	MYT1L_uc002qxd.2_Missense_Mutation_p.K1106R|MYT1L_uc010ewk.2_Missense_Mutation_p.K106R	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	1108	Potential.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CTCAATCACTTTGTTCTCCTC	0.542													7	19					0	0	1	0	0		C	1796190	C	C	1796190	3	2	103	1	0	0	0	0	1	0	0	0	10125	1841	64	3	245	3	MYT1L	2	1796190	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	144126	1796190	241403183	202	62151											
RPS7	6201	broad.mit.edu	37	chr2	3628430	3628430	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtctataagaagctcacGggcaaggatgttaattttga	12	12	12	5	1	2	2	1	1	1	1	2	3	2	3	0	3	1	3	0	3	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:3628430G>A	uc002qxw.2	+	7	649	c.543G>A	c.(541-543)ACG>ACA	p.T181T	RPS7_uc002qxy.2_RNA	NM_001011	NP_001002	P62081	RS7_HUMAN	ribosomal protein S7	181					endocrine pancreas development|ribosomal small subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	90S preribosome|cytosolic small ribosomal subunit|nucleolus|small-subunit processome	protein binding|RNA binding|structural constituent of ribosome				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.0963)|Epithelial(75;0.208)		AGAAGCTCACGGGCAAGGATG	0.303													16	23					0	0	1	0	0		A	3628430	A	A	3628430	2	1	103	1	0	0	0	0	0	0	0	1	13685	1103	39	1		1	RPS7	2	3628430	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1832240	3628430	239570943	203	62152											
COLEC11	78989	broad.mit.edu	37	chr2	3691383	3691383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggaggagaagcgctacgCggacgcccagctgtcctgcc	9	4	15	13	4	0	1	0	0	0	1	1	5	1	3	3	3	4	2	3	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:3691383C>T	uc002qya.2	+	7	639	c.491C>T	c.(490-492)GCG>GTG	p.A164V	COLEC11_uc002qxz.2_Missense_Mutation_p.A161V|COLEC11_uc002qyb.2_Missense_Mutation_p.A140V|COLEC11_uc002qyc.2_Missense_Mutation_p.A140V|COLEC11_uc010ewo.2_Missense_Mutation_p.A116V|COLEC11_uc010ewp.2_Missense_Mutation_p.A138V|COLEC11_uc010ewq.2_Missense_Mutation_p.A114V|COLEC11_uc010ewr.2_Missense_Mutation_p.A114V|COLEC11_uc010ews.2_Missense_Mutation_p.A90V	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	164	C-type lectin.					collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		AAGCGCTACGCGGACGCCCAG	0.657													26	44					0	0	1	0	0		T	3691383	T	T	3691383	3	4	103	1	0	0	0	0	1	0	0	0	3714	768	27	1	596	1	COLEC11	2	3691383	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	62953	3691383	239507990	204	62153											
ROCK2	9475	broad.mit.edu	37	chr2	11359113	11359113	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatttttccttgattgtatGgaatcagtttctctacaaga	10	18	6	7	0	3	2	2	1	1	1	5	3	4	3	1	1	1	2	1	1	4	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:11359113G>T	uc002rbd.1	-	10	1748	c.1299C>A	c.(1297-1299)TCC>TCA	p.S433S		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	433	Potential.|Interaction with PPP1R12A.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		TTGATTGTATGGAATCAGTTT	0.284													18	24					2.21704e-12	2.33175e-12	1	1	0		T	11359113	T	T	11359113	2	4	103	1	0	0	0	0	0	0	0	1	13543	1335	47	5		5	ROCK2	2	11359113	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	7667730	11359113	231840260	205	62154											
FAM84A	151354	broad.mit.edu	37	chr2	14774272	14774273	+	Frame_Shift_Ins	INS	-	C	C																															cgacaagtttggcgtgaaggINScccccccgggttgcaccccc																								rs78327295		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:14774272_14774273insC	uc002rbz.1	+	2	411_412	c.169_170insC	c.(169-171)GCCfs	p.A57fs	FAM84A_uc002rca.1_5'Flank	NM_145175	NP_660158	Q96KN4	FA84A_HUMAN	family with sequence similarity 84, member A	57										pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)		GBM - Glioblastoma multiforme(1;0.00969)			TGGCGTGAAGGCCCCCCCGGGT	0.634													20	23	---	---	---	---						.	C	14774273	C	C	14774272	7	5	103	1	0	1	1	0	0	0	0	0	5655	1203	42	0	171	0	FAM84A	2	14774272	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	3415159	14774272	228425101	206	62155											
DDX1	1653	broad.mit.edu	37	chr2	15760382	15760382	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgatgtaaagaaactgtcCgagaagataatgcattttcc	14	12	8	7	2	0	3	0	0	0	3	3	5	2	3	2	0	2	2	2	0	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:15760382C>T	uc002rce.2	+	17	1545	c.1257C>T	c.(1255-1257)TCC>TCT	p.S419S	DDX1_uc010yjq.1_Silent_p.S327S	NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	419	Necessary for interaction with RELA.|Helicase ATP-binding.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		AGAAACTGTCCGAGAAGATAA	0.368													30	65					0	0	1	0	0		T	15760382	T	T	15760382	2	4	103	1	0	0	0	0	0	0	0	1	4344	639	23	1		1	DDX1	2	15760382	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	986110	15760382	227438991	207	62156											
SMC6	79677	broad.mit.edu	37	chr2	17899380	17899380	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccttttcttagcaacaacAtctgctttcaatgccataca	11	13	4	13	0	3	0	1	0	2	0	3	0	3	0	2	0	6	2	2	0	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:17899380A>G	uc002rco.2	-	12	1352	c.1056T>C	c.(1054-1056)GAT>GAC	p.D352D	SMC6_uc010exo.2_Silent_p.D352D|SMC6_uc002rcn.2_Silent_p.D352D|SMC6_uc002rcp.1_Silent_p.D378D|SMC6_uc002rcq.2_Silent_p.D378D|SMC6_uc002rcr.1_Silent_p.D352D	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	352	Potential.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TAGCAACAACATCTGCTTTCA	0.363													43	79					0	0	1	0	0		G	17899380	G	G	17899380	2	3	103	1	0	0	0	0	0	0	0	1	14812	214	8	3		3	SMC6	2	17899380	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2138998	17899380	225299993	208	62157											
KCNS3	3790	broad.mit.edu	37	chr2	18112465	18112465	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgattacagtgtggccGataaggagtactactttgat	11	13	12	5	1	0	3	0	3	0	0	0	5	0	4	1	2	3	1	1	2	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:18112465G>T	uc002rcv.2	+	3	641	c.190G>T	c.(190-192)GAT>TAT	p.D64Y	KCNS3_uc002rcw.2_Missense_Mutation_p.D64Y	NM_002252	NP_002243	Q9BQ31	KCNS3_HUMAN	potassium voltage-gated channel	64	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CAGTGTGGCCGATAAGGAGTA	0.478													51	61					2.43468e-25	2.62246e-25	1	1	0		T	18112465	T	T	18112465	3	4	103	1	0	0	0	0	1	0	0	0	8106	1058	37	5	192	5	KCNS3	2	18112465	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	213085	18112465	225086908	209	62158											
APOB	338	broad.mit.edu	37	chr2	21232207	21232207	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttctagggtctctcggaaTttggccttcatgtgagccaa	7	14	10	10	1	4	1	1	1	3	0	6	2	4	2	2	3	1	0	2	3	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:21232207T>C	uc002red.2	-	26	7661	c.7533A>G	c.(7531-7533)AAA>AAG	p.K2511K		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2511					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TCTCTCGGAATTTGGCCTTCA	0.438													34	44					0	0	1	0	0		C	21232207	C	C	21232207	2	2	103	1	0	0	0	0	0	0	0	1	785	1490	52	3		3	APOB	2	21232207	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	3119742	21232207	221967166	210	62159											
ASXL2	55252	broad.mit.edu	37	chr2	25982513	25982513	+	Frame_Shift_Del	DEL	T	-	-																															catttagttcttttcatttgTcctacaaaaacagagaagaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:25982513delT	uc002rgs.2	-	8	998	c.777delA	c.(775-777)AGAfs	p.R259fs	ASXL2_uc002rgt.1_5'UTR	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	259					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTTTCATTTGTCCTACAAAAA	0.388													40	60	---	---	---	---						.	-	25982513	-	-	25982513	7	5	103	1	0	1	0	1	0	0	0	0	1068	1681	58	0	3550	0	ASXL2	2	25982513	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	4750306	25982513	217216860	211	62160											
ASXL2	55252	broad.mit.edu	37	chr2	26101090	26101090	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctacgtcccttttccctcAtgtcgggtcttgaactgact	5	15	7	14	2	2	2	1	2	1	0	6	2	5	2	3	1	2	0	3	1	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:26101090A>G	uc002rgs.2	-	1	223	c.2T>C	c.(1-3)ATG>ACG	p.M1T		NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTTTCCCTCATGTCGGGTCT	0.667													48	89					0	0	1	0	0		G	26101090	G	G	26101090	3	3	103	1	0	0	0	0	1	0	0	0	1068	217	8	3	4353	3	ASXL2	2	26101090	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	118577	26101090	217098283	212	62161											
EMILIN1	11117	broad.mit.edu	37	chr2	27302078	27302079	+	Frame_Shift_Ins	INS	-	C	C																															ggggccccaggcccagattgINSccccccggccagccagccgc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:27302078_27302079insC	uc002rii.3	+	1	573_574	c.145_146insC	c.(145-147)GCCfs	p.A49fs	EMILIN1_uc010eyq.1_Frame_Shift_Ins_p.A49fs	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	49					cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCCCAGATTGCCCCCCGGCCA	0.688													15	19	---	---	---	---						.	C	27302079	C	C	27302078	7	5	103	1	0	1	1	0	0	0	0	0	5101	1319	46	0	147	0	EMILIN1	2	27302078	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	1200988	27302078	215897295	213	62162											
C2orf53	339779	broad.mit.edu	37	chr2	27360918	27360918	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgaaagaaagtaggggAacttgggagagagggagaat	15	6	18	2	0	0	4	0	1	0	3	0	8	0	6	0	5	1	1	0	5	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:27360918A>G	uc002rjb.2	-	3	860	c.280T>C	c.(280-282)TCC>CCC	p.S94P		NM_178553	NP_848648	Q53SZ7	CB053_HUMAN	hypothetical protein LOC339779	94	Pro-rich.										0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAAGTAGGGGAACTTGGGAGA	0.323													11	25					0	0	1	0	0		G	27360918	G	G	27360918	3	3	103	1	0	0	0	0	1	0	0	0	2177	246	9	3	962	3	C2orf53	2	27360918	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	58840	27360918	215838455	214	62163											
MPV17	4358	broad.mit.edu	37	chr2	27535561	27535563	+	In_Frame_Del	DEL	TCT	-	-																															gctcacctgatccaacaacaTcttcttcagtgcatccactt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:27535561_27535563delTCT	uc002rjr.2	-	3	310_312	c.263_265delAGA	c.(262-267)AAGATG>ATG	p.K88del	MPV17_uc002rjq.2_In_Frame_Del_p.K88del|MPV17_uc002rjs.2_In_Frame_Del_p.K88del|MPV17_uc002rjt.2_RNA	NM_002437	NP_002428	P39210	MPV17_HUMAN	Mpv17 protein	88					cellular response to reactive oxygen species|glomerular basement membrane development|homeostatic process|inner ear development|mitochondrial genome maintenance|regulation of reactive oxygen species metabolic process	integral to peroxisomal membrane|mitochondrial inner membrane					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCAACAACATCTTCTTCAGTGC	0.522													36	50	---	---	---	---						.	-	27535563	-	-	27535561	7	5	103	1	0	1	0	1	0	0	0	0	9763	1435	50	0	285	0	MPV17	2	27535561	In_Frame_Del	DEL	TCT	TCGA-BR-A4QL-01A-31D-A25D-08	174643	27535561	215663812	215	62164											
SNX17	9784	broad.mit.edu	37	chr2	27597016	27597016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttagtctattcttagttcGagaaaaagaggatggagcct	12	13	10	6	1	2	2	0	0	2	2	3	5	2	4	1	2	1	1	1	2	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:27597016G>A	uc002rkg.1	+	6	719	c.497G>A	c.(496-498)CGA>CAA	p.R166Q	SNX17_uc010ylj.1_Missense_Mutation_p.R146Q|SNX17_uc010ylk.1_5'UTR|SNX17_uc010eza.1_5'UTR|SNX17_uc002rki.1_RNA|SNX17_uc002rkh.1_5'UTR|SNX17_uc010yll.1_5'UTR|SNX17_uc010ylm.1_5'UTR|SNX17_uc010yln.1_Missense_Mutation_p.R154Q|SNX17_uc010ylo.1_Missense_Mutation_p.R84Q|SNX17_uc010ylp.1_Missense_Mutation_p.R141Q|SNX17_uc010ylq.1_5'UTR	NM_014748	NP_055563	Q15036	SNX17_HUMAN	sorting nexin 17	166	Ras-associating.				cell communication|endosome transport|intracellular protein transport|regulation of endocytosis|signal transduction	cytoplasmic vesicle membrane|cytosol|early endosome|Golgi apparatus	low-density lipoprotein particle receptor binding|phosphatidylinositol binding|protein C-terminus binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTCTTAGTTCGAGAAAAAGAG	0.468													35	59					0	0	1	0	0		A	27597016	A	A	27597016	3	1	103	1	0	0	0	0	1	0	0	0	14913	1058	37	1	519	1	SNX17	2	27597016	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	61455	27597016	215602357	216	62165											
FOSL2	2355	broad.mit.edu	37	chr2	28627027	28627027	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcattcatccccaccatcaaCgccatcacgaccagccagga	12	5	6	18	2	3	0	3	0	0	0	4	2	4	1	6	1	2	1	6	1	1	1	rs112541505		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:28627027C>T	uc002rma.2	+	2	965	c.156C>T	c.(154-156)AAC>AAT	p.N52N	FOSL2_uc010ymi.1_Silent_p.N13N	NM_005253	NP_005244	P15408	FOSL2_HUMAN	FOS-like antigen 2	52					cell death|regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(172;0.155)					CCACCATCAACGCCATCACGA	0.527													10	87					0	0	1	0	0		T	28627027	T	T	28627027	2	4	103	1	0	0	0	0	0	0	0	1	6002	535	19	1		1	FOSL2	2	28627027	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1030011	28627027	214572346	217	62166											
EHD3	30845	broad.mit.edu	37	chr2	31483572	31483572	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcagctgatgcgggtgtaCggggccctcatgtggtcctt	5	10	15	11	2	1	1	1	1	0	0	2	1	2	1	2	4	4	3	2	4	1	2	rs147844646		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:31483572C>T	uc002rnu.2	+	4	1307	c.699C>T	c.(697-699)TAC>TAT	p.Y233Y	EHD3_uc010ymt.1_Intron	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	233					blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					TGCGGGTGTACGGGGCCCTCA	0.577													38	25					0	0	1	0	0		T	31483572	T	T	31483572	2	4	103	1	0	0	0	0	0	0	0	1	4985	547	19	1		1	EHD3	2	31483572	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2856545	31483572	211715801	218	62167											
MEMO1	51072	broad.mit.edu	37	chr2	32093439	32093439	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcagagcttcagtggacCgtgagtgctccagctgcata	9	10	12	10	1	2	2	2	1	0	1	3	4	3	3	2	1	4	4	2	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:32093439C>T	uc002rnx.2	-	9	1267	c.885G>A	c.(883-885)ACG>ACA	p.T295T	MEMO1_uc010ymu.1_Silent_p.T272T|MEMO1_uc010ezq.2_Silent_p.T295T|MEMO1_uc002rny.2_RNA|MEMO1_uc002rnz.2_RNA	NM_015955	NP_057039	Q9Y316	MEMO1_HUMAN	mediator of cell motility 1 isoform 1	295					regulation of microtubule-based process	cytosol|nucleus				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)					TTCAGTGGACCGTGAGTGCTC	0.493													7	15					0	0	1	0	0		T	32093439	T	T	32093439	2	4	103	1	0	0	0	0	0	0	0	1	9489	639	23	1		1	MEMO1	2	32093439	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	609867	32093439	211105934	219	62168											
NLRC4	58484	broad.mit.edu	37	chr2	32460605	32460605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccagggcagcatcagtgCggtgagctgttctagcacgt	7	8	14	12	2	2	1	1	1	1	0	2	1	2	1	2	2	4	5	2	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:32460605C>T	uc002roi.2	-	8	2893	c.2647G>A	c.(2647-2649)GCA>ACA	p.A883T	NLRC4_uc002roj.1_Missense_Mutation_p.A883T|NLRC4_uc010ezt.1_Missense_Mutation_p.A218T	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	883	LRR 10.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					AGCATCAGTGCGGTGAGCTGT	0.517													6	78					0	0	1	0	0		T	32460605	T	T	32460605	3	4	103	1	0	0	0	0	1	0	0	0	10488	768	27	1	435	1	NLRC4	2	32460605	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	367166	32460605	210738768	220	62169											
BIRC6	57448	broad.mit.edu	37	chr2	32626547	32626547	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggtgcacttaaagtttgAaattaatgcctatgatccag	13	14	8	6	0	0	2	0	2	0	0	1	2	1	2	2	1	2	2	2	1	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:32626547A>T	uc010ezu.2	+	8	1408	c.1274A>T	c.(1273-1275)GAA>GTA	p.E425V		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	425					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					TTAAAGTTTGAAATTAATGCC	0.358													20	49					0	0	1	0	0		T	32626547	T	T	32626547	3	4	103	1	0	0	0	0	1	0	0	0	1439	246	9	5	1304	5	BIRC6	2	32626547	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	165942	32626547	210572826	221	62170											
FAM98A	25940	broad.mit.edu	37	chr2	33813510	33813510	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgaaagacctcactaccGcctccttcttgagctttttt	7	16	5	13	1	3	3	1	2	2	1	4	3	4	3	4	0	2	1	4	0	2	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:33813510G>A	uc002rpa.1	-	4	488	c.414C>T	c.(412-414)GGC>GGT	p.G138G	FAM98A_uc010yne.1_Intron|FAM98A_uc010ynd.1_5'Flank|FAM98A_uc002roz.1_Silent_p.G15G	NM_015475	NP_056290	Q8NCA5	FA98A_HUMAN	hypothetical protein LOC25940	138										ovary(1)	1	all_hematologic(175;0.115)					CCTCACTACCGCCTCCTTCTT	0.418													43	64					0	0	1	0	0		A	33813510	A	A	33813510	2	1	103	1	0	0	0	0	0	0	0	1	5670	1074	38	1		1	FAM98A	2	33813510	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1186963	33813510	209385863	222	62171											
CRIM1	51232	broad.mit.edu	37	chr2	36739444	36739444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcacggctgtgacatctgtCgctgtaagaaatgtccagag	11	9	12	9	2	1	3	0	1	1	2	3	3	2	3	1	1	1	4	1	1	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:36739444C>T	uc002rpd.2	+	10	1726	c.1687C>T	c.(1687-1689)CGC>TGC	p.R563C		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	563	Antistasin-like 3.|Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				TGACATCTGTCGCTGTAAGAA	0.463													61	91					0	0	1	0	0		T	36739444	T	T	36739444	3	4	103	1	0	0	0	0	1	0	0	0	3876	884	31	1	1725	1	CRIM1	2	36739444	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2925934	36739444	206459929	223	62172											
PKDCC	91461	broad.mit.edu	37	chr2	42282160	42282160	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcatcgtcaacgccacaGgtgagctctccagggcccat	10	6	10	15	2	2	1	1	1	1	0	4	1	2	1	3	2	3	2	3	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:42282160G>T	uc002rsg.2	+	4	1293	c.1114G>T	c.(1114-1116)GGA>TGA	p.G372*		NM_138370	NP_612379	Q504Y2	PKDCC_HUMAN	protein kinase-like protein SgK493	372	Protein kinase.				cell differentiation|embryonic digestive tract development|lung alveolus development|negative regulation of Golgi to plasma membrane protein transport|ossification|palate development|positive regulation of bone mineralization|positive regulation of chondrocyte differentiation|protein transport	Golgi apparatus	ATP binding|protein kinase activity			breast(1)	1						CAACGCCACAGGTGAGCTCTC	0.592													33	75					1.74807e-11	1.8357e-11	1	1	0		T	42282160	T	T	42282160	4	4	103	1	0	0	0	0	0	1	0	0	11988	1014	35	5	1128	5	PKDCC	2	42282160	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5542716	42282160	200917213	224	62173											
MTA3	57504	broad.mit.edu	37	chr2	42909709	42909709	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatatggcaaagacttcAatgacatacggcaagatttt	18	10	7	6	1	1	3	1	1	0	2	1	3	1	3	0	2	1	2	0	2	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:42909709A>G	uc002rso.1	+	10	1373	c.703A>G	c.(703-705)AAT>GAT	p.N235D	MTA3_uc002rsp.1_Missense_Mutation_p.N235D|MTA3_uc002rsq.2_Missense_Mutation_p.N291D|MTA3_uc002rsr.2_Missense_Mutation_p.N291D	NM_020744	NP_065795	Q9BTC8	MTA3_HUMAN	metastasis associated 1 family, member 3	291	SANT.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						CAAAGACTTCAATGACATACG	0.358													10	5					0	0	1	0	0		G	42909709	G	G	42909709	3	3	103	1	0	0	0	0	1	0	0	0	9928	130	5	3	905	3	MTA3	2	42909709	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	627549	42909709	200289664	225	62174											
SIX3	6496	broad.mit.edu	37	chr2	45169458	45169458	+	Frame_Shift_Del	DEL	C	-	-																															cggcggcggcggctccagggCccccccggaagagttgtcca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:45169458delC	uc002run.1	+	1	422	c.215delC	c.(214-216)GCCfs	p.A72fs		NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3	72					visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				ggcTCCAGGGCCCCCCCGGAA	0.353													7	15	---	---	---	---						.	-	45169458	-	-	45169458	7	5	103	1	0	1	0	1	0	0	0	0	14373	739	26	0	217	0	SIX3	2	45169458	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	2259749	45169458	198029915	226	62175											
PRKCE	5581	broad.mit.edu	37	chr2	46313362	46313362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggaccgcctctttttcGtcatggaatatgtaaatggt	9	15	9	8	2	3	0	2	0	1	0	4	2	3	2	2	3	0	1	2	3	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:46313362G>A	uc002rut.2	+	11	1650	c.1453G>A	c.(1453-1455)GTC>ATC	p.V485I		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	485	Protein kinase.				activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			CCTCTTTTTCGTCATGGAATA	0.488													44	79					0	0	1	0	0		A	46313362	A	A	46313362	3	1	103	1	0	0	0	0	1	0	0	0	12533	1145	40	1	1495	1	PRKCE	2	46313362	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1143904	46313362	196886011	227	62176											
EPAS1	2034	broad.mit.edu	37	chr2	46605204	46605204	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccacccccagtgccaccaGcagcagcagcagctgctcca	10	3	8	20	0	0	0	0	0	0	0	1	0	1	0	6	0	7	6	6	0	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:46605204G>C	uc002ruv.2	+	10	1909	c.1421G>C	c.(1420-1422)AGC>ACC	p.S474T	EPAS1_uc002ruw.2_5'Flank	NM_001430	NP_001421	Q99814	EPAS1_HUMAN	endothelial PAS domain protein 1	474	Poly-Ser.				angiogenesis|myoblast cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|response to hypoxia	transcription factor complex	histone acetyltransferase binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription coactivator activity|transcription factor binding			ovary(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	LUSC - Lung squamous cell carcinoma(58;0.151)			AGTGCCACCAGCAGCAGCAGC	0.647													8	1					0	0	1	0	0		C	46605204	C	C	46605204	3	2	103	1	0	0	0	0	1	0	0	0	5158	971	34	5	1459	5	EPAS1	2	46605204	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	291842	46605204	196594169	228	62177											
FBXO11	80204	broad.mit.edu	37	chr2	48059584	48059585	+	Frame_Shift_Ins	INS	-	G	G																															gatttttaacccaaatcccaINSgctaacgcattattggaaat																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:48059584_48059585insG	uc010fbl.2	-	11	1163_1164	c.1049_1050insC	c.(1048-1050)GCTfs	p.A350fs	FBXO11_uc002rwe.2_Frame_Shift_Ins_p.A350fs|FBXO11_uc002rwf.2_Frame_Shift_Ins_p.A350fs|FBXO11_uc002rwg.1_Frame_Shift_Ins_p.A350fs|FBXO11_uc010fbk.2_5'UTR	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	434	PbH1 2.				ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CCCAAATCCCAGCTAACGCATT	0.332													27	26	---	---	---	---						.	G	48059585	G	G	48059584	7	5	103	1	0	1	1	0	0	0	0	0	5741	175	7	0	1623	0	FBXO11	2	48059584	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	1454380	48059584	195139789	229	62178											
TSPYL6	388951	broad.mit.edu	37	chr2	54482354	54482354	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaggatctgacctcatacAcctttacaatcagcttgttt	11	13	6	11	1	3	1	2	1	1	0	3	3	3	2	2	1	3	2	2	1	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:54482354A>G	uc002rxr.2	-	1	1056	c.935T>C	c.(934-936)GTG>GCG	p.V312A	ACYP2_uc002rxq.3_Intron	NM_001003937	NP_001003937	Q8N831	TSYL6_HUMAN	TSPY-like 6	312					nucleosome assembly	nucleus					0						GACCTCATACACCTTTACAAT	0.468													43	58					0	0	1	0	0		G	54482354	G	G	54482354	3	3	103	1	0	0	0	0	1	0	0	0	16689	159	6	3	301	3	TSPYL6	2	54482354	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	6422770	54482354	188717019	230	62179											
BCL11A	53335	broad.mit.edu	37	chr2	60688652	60688652	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgaacttggccaccacGgacttgagcgcgctgctggc	6	9	12	14	3	1	2	0	2	1	0	1	3	1	3	2	3	3	2	2	3	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:60688652G>T	uc002sae.1	-	4	1623	c.1395C>A	c.(1393-1395)TCC>TCA	p.S465S	BCL11A_uc002sab.2_Silent_p.S465S|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Silent_p.S134S|BCL11A_uc010ypj.1_Silent_p.S431S|BCL11A_uc002sad.1_Silent_p.S313S|BCL11A_uc002saf.1_Silent_p.S431S	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	465					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			TGGCCACCACGGACTTGAGCG	0.483			T	IGH@	B-CLL								15	22					2.31682e-05	2.35817e-05	1	1	0		T	60688652	T	T	60688652	2	4	103	1	0	0	0	0	0	0	0	1	1364	1103	39	5		5	BCL11A	2	60688652	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6206298	60688652	182510721	231	62180											
BCL11A	53335	broad.mit.edu	37	chr2	60688858	60688858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcgcccgtgtggctgcGccggtgcaccaccaggttgc	3	9	13	16	4	1	0	0	0	1	0	2	0	1	0	4	3	3	3	4	3	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:60688858G>A	uc002sae.1	-	4	1417	c.1189C>T	c.(1189-1191)CGC>TGC	p.R397C	BCL11A_uc002sab.2_Missense_Mutation_p.R397C|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.R66C|BCL11A_uc010ypj.1_Missense_Mutation_p.R363C|BCL11A_uc002sad.1_Missense_Mutation_p.R245C|BCL11A_uc002saf.1_Missense_Mutation_p.R363C	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	397	C2H2-type 2.				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			GTGTGGCTGCGCCGGTGCACC	0.617			T	IGH@	B-CLL								54	84					0	0	1	0	0		A	60688858	A	A	60688858	3	1	103	1	0	0	0	0	1	0	0	0	1364	1087	38	1	1428	1	BCL11A	2	60688858	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	206	60688858	182510515	232	62181											
BCL11A	53335	broad.mit.edu	37	chr2	60688969	60688969	+	Frame_Shift_Del	DEL	G	-	-																															ggcggattgcagaggagggaGggggggcgtcgccaggaagg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:60688969delG	uc002sae.1	-	4	1306	c.1078delC	c.(1078-1080)CTCfs	p.L360fs	BCL11A_uc002sab.2_Frame_Shift_Del_p.L360fs|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Intron|BCL11A_uc010ypj.1_Frame_Shift_Del_p.L326fs|BCL11A_uc002sad.1_Frame_Shift_Del_p.L208fs|BCL11A_uc002saf.1_Frame_Shift_Del_p.L326fs	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	360	Pro-rich.				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			AGAGGAGGGAGGGGGGGCGTC	0.632			T	IGH@	B-CLL								42	56	---	---	---	---						.	-	60688969	-	-	60688969	7	5	103	1	0	1	0	1	0	0	0	0	1364	1000	35	0	1539	0	BCL11A	2	60688969	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	111	60688969	182510404	233	62182											
USP34	9736	broad.mit.edu	37	chr2	61552563	61552563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaagtcaagaattgaagaCgaacttgaacttcagcacta	17	8	7	9	1	2	4	2	2	0	2	2	5	2	4	0	0	3	1	0	0	7	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:61552563C>T	uc002sbe.2	-	21	2982	c.2960G>A	c.(2959-2961)CGT>CAT	p.R987H		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	987					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			GAATTGAAGACGAACTTGAAC	0.279													11	33					0	0	1	0	0		T	61552563	T	T	61552563	3	4	103	1	0	0	0	0	1	0	0	0	17091	536	19	1	7920	1	USP34	2	61552563	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	863594	61552563	181646810	234	62183											
UGP2	7360	broad.mit.edu	37	chr2	64085069	64085069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagagaccccctgaagattCggtaagttttagataaaatg	14	10	9	8	1	0	4	0	1	0	3	1	5	0	4	3	1	0	2	3	1	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:64085069C>T	uc002scm.2	+	3	560	c.254C>T	c.(253-255)TCG>TTG	p.S85L	UGP2_uc002scl.2_Missense_Mutation_p.S74L|UGP2_uc010ypx.1_Missense_Mutation_p.S94L	NM_006759	NP_006750	Q16851	UGPA_HUMAN	UDP-glucose pyrophosphorylase 2 isoform a	85					glycogen biosynthetic process|phosphorylation|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	metal ion binding|protein binding|UTP:glucose-1-phosphate uridylyltransferase activity				0						CCTGAAGATTCGGTAAGTTTT	0.408													44	89					0	0	1	0	0		T	64085069	T	T	64085069	3	4	103	1	0	0	0	0	1	0	0	0	16969	898	31	1	264	1	UGP2	2	64085069	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2532506	64085069	179114304	235	62184											
MEIS1	4211	broad.mit.edu	37	chr2	66667042	66667042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagctacttgtaccccccgcGagccgggggtggcgggcggg	4	6	18	13	5	0	0	0	0	0	0	0	1	0	0	4	5	4	2	4	5	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:66667042G>A	uc002sdu.2	+	3	764	c.307G>A	c.(307-309)GAG>AAG	p.E103K	MEIS1_uc002sdt.2_Missense_Mutation_p.E103K|MEIS1_uc002sdv.2_Missense_Mutation_p.E101K|MEIS1_uc010yqh.1_RNA|MEIS1_uc010yqi.1_Missense_Mutation_p.E38K|MEIS1_uc002sdw.1_5'Flank	NM_002398	NP_002389	O00470	MEIS1_HUMAN	Meis homeobox 1	103							sequence-specific DNA binding transcription factor activity				0						TACCCCCCGCGAGCCGGGGGT	0.473													6	13					0	0	1	0	0		A	66667042	A	A	66667042	3	1	103	1	0	0	0	0	1	0	0	0	9485	1059	37	1	317	1	MEIS1	2	66667042	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2581973	66667042	176532331	236	62185											
MEIS1	4211	broad.mit.edu	37	chr2	66775109	66775109	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaacagaaaaagcagtTggcacaagacacgggactca	18	4	11	8	1	1	4	1	1	0	3	1	5	1	5	0	2	2	3	0	2	5	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:66775109T>C	uc002sdu.2	+	9	1380	c.923T>C	c.(922-924)TTG>TCG	p.L308S	MEIS1_uc002sdt.2_Missense_Mutation_p.L308S|MEIS1_uc002sdv.2_Missense_Mutation_p.L306S|MEIS1_uc010yqh.1_RNA|MEIS1_uc010yqi.1_Missense_Mutation_p.L243S|MEIS1_uc002sdw.1_Missense_Mutation_p.L164S	NM_002398	NP_002389	O00470	MEIS1_HUMAN	Meis homeobox 1	308	Homeobox; TALE-type.						sequence-specific DNA binding transcription factor activity				0						AAAAAGCAGTTGGCACAAGAC	0.423													18	52					0	0	1	0	0		C	66775109	C	C	66775109	3	2	103	1	0	0	0	0	1	0	0	0	9485	1821	63	3	957	3	MEIS1	2	66775109	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	108067	66775109	176424264	237	62186											
GMCL1	64395	broad.mit.edu	37	chr2	70096881	70096881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttggacaggttttaacttcGgcttcgacctacttgtaact	8	15	9	9	2	0	0	0	0	0	0	2	2	0	1	1	3	3	4	1	3	3	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:70096881G>A	uc002sfu.2	+	12	1456	c.1249G>A	c.(1249-1251)GGC>AGC	p.G417S		NM_178439	NP_848526	Q96IK5	GMCL1_HUMAN	germ cell-less	417					cell differentiation|multicellular organismal development|spermatogenesis	nuclear matrix				ovary(3)	3						TTTTAACTTCGGCTTCGACCT	0.363													35	53					0	0	1	0	0		A	70096881	A	A	70096881	3	1	103	1	0	0	0	0	1	0	0	0	6500	1116	39	1	1295	1	GMCL1	2	70096881	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3321772	70096881	173102492	238	62187											
MXD1	4084	broad.mit.edu	37	chr2	70164383	70164383	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaaacttgaagattgtgAcagaaaagccgttcaccaaa	17	7	9	8	1	1	5	1	2	0	3	1	5	1	5	2	0	2	2	2	0	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:70164383A>G	uc002sfy.2	+	5	595	c.335A>G	c.(334-336)GAC>GGC	p.D112G	MXD1_uc010yqp.1_Missense_Mutation_p.D112G|MXD1_uc010yqq.1_Missense_Mutation_p.D49G|MXD1_uc010yqr.1_RNA|MXD1_uc010yqs.1_Missense_Mutation_p.D102G	NM_002357	NP_002348	Q05195	MAD1_HUMAN	MAX dimerization protein 1	112					cell proliferation|multicellular organismal development	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						GAAGATTGTGACAGAAAAGCC	0.542													66	76					0	0	1	0	0		G	70164383	G	G	70164383	3	3	103	1	0	0	0	0	1	0	0	0	10017	275	10	3	353	3	MXD1	2	70164383	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	67502	70164383	173034990	239	62188											
TIA1	7072	broad.mit.edu	37	chr2	70454867	70454867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttatcttctgttacttacGatattcttccaaatggtgca	10	18	5	8	1	3	0	0	0	3	0	4	1	4	0	1	1	3	2	1	1	5	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:70454867G>A	uc002sgj.3	-	6	615	c.398C>T	c.(397-399)TCA>TTA	p.S133L	TIA1_uc002sgk.3_Missense_Mutation_p.S122L|TIA1_uc002sgl.3_RNA|TIA1_uc002sgm.3_Missense_Mutation_p.S133L	NM_022173	NP_071505	P31483	TIA1_HUMAN	TIA1 cytotoxic granule-associated RNA binding	133	RRM 2.				apoptosis|induction of apoptosis|regulation of nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|poly(A) RNA binding|protein binding				0						TGTTACTTACGATATTCTTCC	0.284													31	56					0	0	1	0	0		A	70454867	A	A	70454867	3	1	103	1	0	0	0	0	1	0	0	0	15912	1072	37	1	794	1	TIA1	2	70454867	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	290484	70454867	172744506	240	62189											
ATP6V1B1	525	broad.mit.edu	37	chr2	71191573	71191573	+	Frame_Shift_Del	DEL	C	-	-																															tttcttctccctcagatctaCccccccatcaacgtgctccc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:71191573delC	uc002shj.2	+	12	1236	c.1149delC	c.(1147-1149)TACfs	p.Y383fs	ATP6V1B1_uc010fdv.2_Frame_Shift_Del_p.Y366fs|ATP6V1B1_uc010fdw.2_RNA|ATP6V1B1_uc010fdx.2_Frame_Shift_Del_p.Y341fs	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	383					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						CTCAGATCTACCCCCCCATCA	0.547											OREG0014686	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	64	---	---	---	---						.	-	71191573	-	-	71191573	7	5	103	1	0	1	0	1	0	0	0	0	1179	518	18	0	1195	0	ATP6V1B1	2	71191573	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	736706	71191573	172007800	241	62190											
ZNF638	27332	broad.mit.edu	37	chr2	71658542	71658542	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaggcaaatcagtggcGtctgatgtccctgagggtaa	9	11	12	9	1	4	2	2	2	2	0	5	2	5	2	1	3	0	2	1	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:71658542G>A	uc002shx.2	+	26	6055	c.5736G>A	c.(5734-5736)GCG>GCA	p.A1912A	ZNF638_uc002shy.2_Silent_p.A1912A|ZNF638_uc002shz.2_Silent_p.A1912A|ZNF638_uc002sia.2_Silent_p.A1912A|ZNF638_uc010fed.2_RNA|ZNF638_uc002sic.2_Silent_p.A1009A|ZNF638_uc002sid.2_Silent_p.A281A	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1912					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AATCAGTGGCGTCTGATGTCC	0.308													23	36					0	0	1	0	0		A	71658542	A	A	71658542	2	1	103	1	0	0	0	0	0	0	0	1	18080	1132	40	1		1	ZNF638	2	71658542	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	466969	71658542	171540831	242	62191											
DYSF	8291	broad.mit.edu	37	chr2	71801427	71801427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagatgccttccgccgcCgccgctggcgccgtcgcatg	5	6	13	17	7	0	2	0	0	0	2	2	2	1	2	6	1	1	2	6	1	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:71801427C>T	uc002sie.2	+	30	3650	c.3274C>T	c.(3274-3276)CGC>TGC	p.R1092C	DYSF_uc010feg.2_Missense_Mutation_p.R1123C|DYSF_uc010feh.2_Missense_Mutation_p.R1078C|DYSF_uc002sig.3_Missense_Mutation_p.R1078C|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.R1092C|DYSF_uc010fef.2_Missense_Mutation_p.R1109C|DYSF_uc010fei.2_Missense_Mutation_p.R1109C|DYSF_uc010fek.2_Missense_Mutation_p.R1110C|DYSF_uc010fej.2_Missense_Mutation_p.R1079C|DYSF_uc010fel.2_Missense_Mutation_p.R1079C|DYSF_uc010feo.2_Missense_Mutation_p.R1124C|DYSF_uc010fem.2_Missense_Mutation_p.R1093C|DYSF_uc010fen.2_Missense_Mutation_p.R1110C|DYSF_uc002sif.2_Missense_Mutation_p.R1093C|DYSF_uc010yqy.1_5'Flank	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1092	Cytoplasmic (Potential).|Arg-rich.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CTTCCGCCGCCGCCGCTGGCG	0.667													67	91					0	0	1	0	0		T	71801427	T	T	71801427	3	4	103	1	0	0	0	0	1	0	0	0	4865	652	23	1	3584	1	DYSF	2	71801427	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	142885	71801427	171397946	243	62192											
TET3	200424	broad.mit.edu	37	chr2	74274599	74274599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacgccatcctcggagcccGacacccaccagaaggcccag	10	2	9	20	3	0	1	0	0	0	1	2	3	1	2	7	2	1	0	7	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:74274599G>A	uc002skb.3	+	1	1150	c.1150G>A	c.(1150-1152)GAC>AAC	p.D384N	TET3_uc010fez.1_Missense_Mutation_p.D384N	NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	384							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CTCGGAGCCCGACACCCACCA	0.657													15	17					0	0	1	0	0		A	74274599	A	A	74274599	3	1	103	1	0	0	0	0	1	0	0	0	15796	1058	37	1	1152	1	TET3	2	74274599	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2473172	74274599	168924774	244	62193											
TET3	200424	broad.mit.edu	37	chr2	74328868	74328868	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacttcctggacgagaacatCggcggcgtggccgtggcccc	7	6	14	14	5	0	1	0	0	0	1	2	3	1	2	4	5	2	0	4	5	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:74328868C>T	uc002skb.3	+	9	4548	c.4548C>T	c.(4546-4548)ATC>ATT	p.I1516I		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	1516							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						ACGAGAACATCGGCGGCGTGG	0.667													31	50					0	0	1	0	0		T	74328868	T	T	74328868	2	4	103	1	0	0	0	0	0	0	0	1	15796	874	31	1		1	TET3	2	74328868	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	54269	74328868	168870505	245	62194											
SLC4A5	57835	broad.mit.edu	37	chr2	74491388	74491388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctcccggagctctggccGcaggagaccatcctcaatct	7	8	9	17	2	4	1	1	0	3	1	6	3	5	2	5	3	1	2	5	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:74491388G>A	uc002sko.1	-	5	603	c.601C>T	c.(601-603)CGG>TGG	p.R201W	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Missense_Mutation_p.R201W|SLC4A5_uc010ffc.1_Missense_Mutation_p.R201W|SLC4A5_uc002skp.1_Missense_Mutation_p.R137W|SLC4A5_uc002sks.1_Missense_Mutation_p.R201W	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	201	Cytoplasmic (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						AGCTCTGGCCGCAGGAGACCA	0.552													38	37					0	0	1	0	0		A	74491388	A	A	74491388	3	1	103	1	0	0	0	0	1	0	0	0	14682	1086	38	1	2900	1	SLC4A5	2	74491388	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	162520	74491388	168707985	246	62195											
DCTN1	1639	broad.mit.edu	37	chr2	74589792	74589792	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccttgagcttctcgacGgtgtcactcagggacttaag	8	11	11	11	2	3	2	2	2	1	0	4	4	3	3	1	2	1	1	1	2	1	3	rs115689748	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:74589792G>A	uc002skx.2	-	30	3905	c.3594C>T	c.(3592-3594)ACC>ACT	p.T1198T	SLC4A5_uc002skl.2_RNA|DCTN1_uc002skt.1_Silent_p.T132T|DCTN1_uc002skv.2_Silent_p.T1064T|DCTN1_uc002sku.2_Silent_p.T1059T|DCTN1_uc002skw.1_Silent_p.T1174T|DCTN1_uc010ffd.2_Silent_p.T1173T|DCTN1_uc002sky.2_Silent_p.T1156T	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	1198	Potential.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						GCTTCTCGACGGTGTCACTCA	0.542													12	18					0	0	1	0	0		A	74589792	A	A	74589792	2	1	103	1	0	0	0	0	0	0	0	1	4309	1103	39	1		1	DCTN1	2	74589792	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	98404	74589792	168609581	247	62196											
LRRTM4	80059	broad.mit.edu	37	chr2	77745718	77745718	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagagccacactcccggcaAtaattttgtgaaatgaaaca	16	8	8	9	1	0	3	0	2	0	1	1	4	1	3	2	1	2	1	2	1	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:77745718A>G	uc002snr.2	-	3	1692	c.1277T>C	c.(1276-1278)ATT>ACT	p.I426T	LRRTM4_uc002snq.2_Missense_Mutation_p.I426T|LRRTM4_uc002sns.2_Missense_Mutation_p.I426T|LRRTM4_uc002snt.2_Missense_Mutation_p.I427T	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	426	Helical; (Potential).					integral to membrane		p.I426F(1)		pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		ACTCCCGGCAATAATTTTGTG	0.493													24	47					0	0	1	0	0		G	77745718	G	G	77745718	3	3	103	1	0	0	0	0	1	0	0	0	9060	101	4	3	509	3	LRRTM4	2	77745718	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	3155926	77745718	165453655	248	62197											
CTNNA2	1496	broad.mit.edu	37	chr2	80646692	80646693	+	Frame_Shift_Del	DEL	AA	-	-																															ggaagtgaaagaatatgcccAagttttccgtgagcatgcca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:80646692_80646693delAA	uc010ysh.1	+	8	1261_1262	c.1256_1257delAA	c.(1255-1257)CAAfs	p.Q419fs	CTNNA2_uc010yse.1_Frame_Shift_Del_p.Q419fs|CTNNA2_uc010ysf.1_Frame_Shift_Del_p.Q419fs|CTNNA2_uc010ysg.1_Frame_Shift_Del_p.Q419fs|CTNNA2_uc010ysi.1_Frame_Shift_Del_p.Q51fs	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	419					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GAATATGCCCAAGTTTTCCGTG	0.446													24	53	---	---	---	---						.	-	80646693	-	-	80646692	7	5	103	1	0	1	0	1	0	0	0	0	4016	130	5	0	1078	0	CTNNA2	2	80646692	Frame_Shift_Del	DEL	AA	TCGA-BR-A4QL-01A-31D-A25D-08	2900974	80646692	162552681	249	62198											
C2orf89	129293	broad.mit.edu	37	chr2	85108085	85108085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctcgcagttggcggtgcCgggcgccccgcgccgcgaag	4	4	18	15	8	0	0	0	0	0	0	1	2	0	0	4	3	2	3	4	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:85108085C>T	uc010ysl.1	-	1	168	c.79G>A	c.(79-81)GGC>AGC	p.G27S	C2orf89_uc002sou.3_Missense_Mutation_p.G27S|C2orf89_uc010fgc.1_Missense_Mutation_p.G27S	NM_001080824	NP_001074293	Q86V40	CB089_HUMAN	hypothetical protein LOC129293 precursor	27	Extracellular (Potential).					integral to membrane				ovary(1)	1						TTGGCGGTGCCGGGCGCCCCG	0.701													8	7					0	0	1	0	0		T	85108085	T	T	85108085	3	4	103	1	0	0	0	0	1	0	0	0	2206	652	23	1	1315	1	C2orf89	2	85108085	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4461393	85108085	158091288	250	62199											
VAMP5	10791	broad.mit.edu	37	chr2	85818963	85818963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggccgaactgcagcagcGttcagaccaactcctggata	10	7	11	13	2	1	1	1	0	0	1	2	3	2	2	3	2	5	4	3	2	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:85818963G>A	uc002spu.1	+	2	202	c.119G>A	c.(118-120)CGT>CAT	p.R40H		NM_006634	NP_006625	O95183	VAMP5_HUMAN	vesicle-associated membrane protein 5	40	v-SNARE coiled-coil homology.|Cytoplasmic (Potential).				cell differentiation|vesicle-mediated transport	endomembrane system					0						CTGCAGCAGCGTTCAGACCAA	0.582													55	66					0	0	1	0	0		A	85818963	A	A	85818963	3	1	103	1	0	0	0	0	1	0	0	0	17142	1145	40	1	125	1	VAMP5	2	85818963	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	710878	85818963	157380410	251	62200											
SFTPB	6439	broad.mit.edu	37	chr2	85892896	85892896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatttgcacaggcccaggtGcatacagatgccgtttgagt	9	10	13	9	1	0	2	0	1	0	1	0	3	0	3	2	3	4	3	2	3	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:85892896G>A	uc002sqh.2	-	5	421	c.415C>T	c.(415-417)CAC>TAC	p.H139Y	SFTPB_uc002sqi.2_Missense_Mutation_p.H151Y|SFTPB_uc002sqj.2_Missense_Mutation_p.H139Y	NM_198843	NP_942140	P07988	PSPB_HUMAN	surfactant, pulmonary-associated protein B	139	Saposin B-type 1.				organ morphogenesis|respiratory gaseous exchange|sphingolipid metabolic process	extracellular space|lysosome				ovary(1)|central_nervous_system(1)	2						AGGCCCAGGTGCATACAGATG	0.647													30	47					0	0	1	0	0		A	85892896	A	A	85892896	3	1	103	1	0	0	0	0	1	0	0	0	14216	1319	46	2	754	2	SFTPB	2	85892896	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	73933	85892896	157306477	252	62201											
IMMT	10989	broad.mit.edu	37	chr2	86400804	86400804	+	Frame_Shift_Del	DEL	T	-	-																															gctggagtatctcccttttgTttttggagttgtgaggcagg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:86400804delT	uc002sqz.3	-	4	778	c.390delA	c.(388-390)AAAfs	p.K130fs	IMMT_uc002sqy.3_5'Flank|IMMT_uc002srb.3_Frame_Shift_Del_p.K130fs|IMMT_uc002sra.3_Frame_Shift_Del_p.K130fs|IMMT_uc010ytd.1_Frame_Shift_Del_p.K130fs|IMMT_uc010yte.1_Frame_Shift_Del_p.K130fs|IMMT_uc002src.1_5'Flank|IMMT_uc002srd.2_Frame_Shift_Del_p.K130fs|IMMT_uc002sre.3_Frame_Shift_Del_p.K130fs|IMMT_uc010ytf.1_Frame_Shift_Del_p.K130fs|IMMT_uc010fgs.1_Frame_Shift_Del_p.K130fs	NM_006839	NP_006830	Q16891	IMMT_HUMAN	inner membrane protein, mitochondrial isoform 1	130	Mitochondrial intermembrane (Potential).					integral to mitochondrial inner membrane	protein binding			skin(1)	1						CTCCCTTTTGTTTTTGGAGTT	0.313													9	16	---	---	---	---						.	-	86400804	-	-	86400804	7	5	103	1	0	1	0	1	0	0	0	0	7734	1722	60	0	1934	0	IMMT	2	86400804	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	507908	86400804	156798569	253	62202											
KDM3A	55818	broad.mit.edu	37	chr2	86676934	86676934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttgtctgtctaggtgtGtgtggaatttgatggggaat	8	17	14	2	0	2	1	0	1	2	0	2	3	2	3	0	4	0	0	0	4	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:86676934G>A	uc002sri.3	+	3	518	c.191G>A	c.(190-192)TGT>TAT	p.C64Y	KDM3A_uc010ytj.1_Missense_Mutation_p.C64Y|KDM3A_uc010ytk.1_Intron	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	64					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						GTCTAGGTGTGTGTGGAATTT	0.378													27	56					0	0	1	0	0		A	86676934	A	A	86676934	3	1	103	1	0	0	0	0	1	0	0	0	8142	1377	48	4	197	4	KDM3A	2	86676934	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	276130	86676934	156522439	254	62203											
ADRA2B	151	broad.mit.edu	37	chr2	96781111	96781111	+	Frame_Shift_Del	DEL	C	-	-																															cccagtatcttcaggggtctCcccctcctccttctccccag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:96781111delC	uc002svi.2	-	1	778	c.778delG	c.(778-780)GAGfs	p.E260fs		NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor	260	Cytoplasmic (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	TCAGGGGTCTCCCCCTCCTCC	0.637													17	22	---	---	---	---						.	-	96781111	-	-	96781111	7	5	103	1	0	1	0	1	0	0	0	0	338	864	30	0	569	0	ADRA2B	2	96781111	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	10104177	96781111	146418262	255	62204											
REV1	51455	broad.mit.edu	37	chr2	100058920	100058920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaatgtaggagaggagtcgtCcagctttgatgctgaaacaa	13	9	13	6	1	0	3	0	2	0	1	2	6	1	4	1	2	3	3	1	2	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:100058920C>T	uc002tad.2	-	5	574	c.362G>A	c.(361-363)GGA>GAA	p.G121E	REV1_uc002tac.2_Missense_Mutation_p.G121E|REV1_uc002tae.1_Missense_Mutation_p.G100E	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	121	BRCT.				DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						GAGGAGTCGTCCAGCTTTGAT	0.418								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					26	41					0	0	1	0	0		T	100058920	T	T	100058920	3	4	103	1	0	0	0	0	1	0	0	0	13264	855	30	4	3469	4	REV1	2	100058920	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3277809	100058920	143140453	256	62205											
AFF3	3899	broad.mit.edu	37	chr2	100266104	100266104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacctgtcagagagagcgcGgagagccgttctctgagctg	8	8	15	10	3	2	4	1	1	1	3	3	6	2	4	2	1	4	3	2	1	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:100266104G>A	uc002tag.2	-	12	1404	c.1168C>T	c.(1168-1170)CGC>TGC	p.R390C	AFF3_uc002taf.2_Missense_Mutation_p.R415C|AFF3_uc010fiq.1_Missense_Mutation_p.R390C|AFF3_uc010yvr.1_Missense_Mutation_p.R543C|AFF3_uc002tah.1_Missense_Mutation_p.R415C	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	390					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						GAGAGAGCGCGGAGAGCCGTT	0.363													44	60					0	0	1	0	0		A	100266104	A	A	100266104	3	1	103	1	0	0	0	0	1	0	0	0	358	1116	39	1	2564	1	AFF3	2	100266104	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	207184	100266104	142933269	257	62206											
PDCL3	79031	broad.mit.edu	37	chr2	101192912	101192912	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgttgctgtcctcagtgcGgcgctctgtcctcatgaaga	5	12	12	12	3	3	2	2	1	1	1	5	2	5	2	2	1	2	3	2	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:101192912G>A	uc002tao.2	+	6	786	c.674G>A	c.(673-675)CGG>CAG	p.R225Q		NM_024065	NP_076970	Q9H2J4	PDCL3_HUMAN	phosducin-like 3	225					apoptosis|interspecies interaction between organisms	cytoplasm	protein binding				0						TCCTCAGTGCGGCGCTCTGTC	0.478													24	28					0	0	1	0	0		A	101192912	A	A	101192912	3	1	103	1	0	0	0	0	1	0	0	0	11647	1116	39	1	696	1	PDCL3	2	101192912	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	926808	101192912	142006461	258	62207											
RNF149	284996	broad.mit.edu	37	chr2	101924991	101924991	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgcacagggccagggcgagCaacgccagagccaacacgcc	12	0	13	16	4	0	1	0	0	0	1	0	2	0	1	4	2	4	2	4	2	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:101924991C>T	uc002taz.1	-	1	162	c.60G>A	c.(58-60)TTG>TTA	p.L20L	RNF149_uc002tax.1_RNA	NM_173647	NP_775918	Q8NC42	RN149_HUMAN	ring finger protein 149 precursor	20						integral to membrane	ligase activity|zinc ion binding			ovary(1)|breast(1)	2						CCAGGGCGAGCAACGCCAGAG	0.607													10	10					0	0	1	0	0		T	101924991	T	T	101924991	2	4	103	1	0	0	0	0	0	0	0	1	13475	709	25	2		2	RNF149	2	101924991	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	732079	101924991	141274382	259	62208											
IL1R2	7850	broad.mit.edu	37	chr2	102641036	102641036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaaggtgtttctgggaaccGgcacacccttaaccaccatg	10	9	10	12	1	1	0	0	0	1	0	1	1	1	1	4	3	2	3	4	3	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:102641036G>A	uc002tbm.2	+	7	1022	c.793G>A	c.(793-795)GGC>AGC	p.G265S	IL1R2_uc002tbn.2_Missense_Mutation_p.G265S|IL1R2_uc002tbo.1_Missense_Mutation_p.G265S	NM_004633	NP_004624	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II precursor	265	Extracellular (Potential).|Ig-like C2-type 3.				immune response	integral to membrane|plasma membrane	interleukin-1, Type II, blocking receptor activity			ovary(1)|breast(1)	2					Anakinra(DB00026)	TCTGGGAACCGGCACACCCTT	0.607													15	32					0	0	1	0	0		A	102641036	A	A	102641036	3	1	103	1	0	0	0	0	1	0	0	0	7675	1116	39	1	815	1	IL1R2	2	102641036	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	716045	102641036	140558337	260	62209											
RGPD4	285190	broad.mit.edu	37	chr2	108489198	108489198	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttaatgcatctttgaaaAgtaacaacagtgaaactagt	16	13	7	5	0	1	2	0	2	1	0	1	2	1	2	0	0	4	3	0	0	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:108489198A>C	uc010ywk.1	+	20	4820	c.4738A>C	c.(4738-4740)AGT>CGT	p.S1580R	RGPD4_uc002tdu.2_Missense_Mutation_p.S767R|RGPD4_uc010ywl.1_Intron	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	1580					intracellular transport		binding			skin(2)	2						ATCTTTGAAAAGTAACAACAG	0.353													126	193					0	0	1	0	0		C	108489198	C	C	108489198	3	2	103	1	0	0	0	0	1	0	0	0	13313	72	3	5	4816	5	RGPD4	2	108489198	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	5848162	108489198	134710175	261	62210											
RANBP2	5903	broad.mit.edu	37	chr2	109381658	109381658	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgcagttcatgcttagtgCgaaatgaagcaaatgctaca	14	11	9	7	1	1	1	1	1	0	0	1	2	1	1	0	0	6	5	0	0	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:109381658C>T	uc002tem.3	+	20	4789	c.4663C>T	c.(4663-4665)CGA>TGA	p.R1555*		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1555	RanBP2-type 4.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						ATGCTTAGTGCGAAATGAAGC	0.403													80	121					0	0	1	0	0		T	109381658	T	T	109381658	4	4	103	1	0	0	0	0	0	1	0	0	13053	760	27	1	4741	1	RANBP2	2	109381658	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	892460	109381658	133817715	262	62211											
SH3RF3	344558	broad.mit.edu	37	chr2	110015252	110015252	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacgccactccttcaccgcGctcagtgtgacgcacagatc	10	7	8	16	4	2	2	2	1	0	1	4	2	3	2	3	0	1	2	3	0	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:110015252G>A	uc010ywt.1	+	4	1152	c.1152G>A	c.(1150-1152)GCG>GCA	p.A384A		NM_001099289	NP_001092759	Q8TEJ3	SH3R3_HUMAN	SH3 domain containing ring finger 3	384							zinc ion binding			ovary(1)	1						CCTTCACCGCGCTCAGTGTGA	0.597													12	14					0	0	1	0	0		A	110015252	A	A	110015252	2	1	103	1	0	0	0	0	0	0	0	1	14285	1074	38	1		1	SH3RF3	2	110015252	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	633594	110015252	133184121	263	62212											
PTPN4	5775	broad.mit.edu	37	chr2	120672766	120672767	+	Frame_Shift_Ins	INS	-	A	A																															ttgtccaggttgaagattgtINSaaaaatttcttttaagtgca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:120672766_120672767insA	uc002tmf.1	+	11	1547_1548	c.776_777insA	c.(775-777)GTAfs	p.V259fs	PTPN4_uc010flj.1_5'UTR	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	259	FERM.					cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	TTGAAGATTGTAAAAATTTCTT	0.218													20	36	---	---	---	---						.	A	120672767	A	A	120672766	7	5	103	1	0	1	1	0	0	0	0	0	12815	1638	57	0	814	0	PTPN4	2	120672766	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	10657514	120672766	122526607	264	62213											
TSN	7247	broad.mit.edu	37	chr2	122514875	122514875	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagagattttaactctactGcaaggggtccatcagggtgc	10	10	12	9	1	2	1	1	0	1	1	3	3	3	1	1	3	4	1	1	3	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:122514875G>A	uc002tnl.2	+	2	361	c.126G>A	c.(124-126)CTG>CTA	p.L42L	TSN_uc002tnm.2_5'UTR|TSN_uc010yze.1_Silent_p.L42L|TSN_uc010flt.2_Intron	NM_004622	NP_004613	Q15631	TSN_HUMAN	translin	42					DNA recombination	cytoplasm|nucleus	sequence-specific DNA binding			breast(2)|large_intestine(1)	3		Ovarian(717;0.0563)|Prostate(154;0.116)				TAACTCTACTGCAAGGGGTCC	0.363													19	43					0	0	1	0	0		A	122514875	A	A	122514875	2	1	103	1	0	0	0	0	0	0	0	1	16655	1306	46	2		2	TSN	2	122514875	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1842109	122514875	120684498	265	62214											
TSN	7247	broad.mit.edu	37	chr2	122522936	122522936	+	Frame_Shift_Del	DEL	A	-	-																															gacggcagcagcttgtgttgAaaaataggaggctctccttg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:122522936delA	uc002tnl.2	+	6	915	c.680delA	c.(679-681)GAAfs	p.E227fs	TSN_uc002tnm.2_Frame_Shift_Del_p.E180fs|TSN_uc010yze.1_3'UTR|TSN_uc010flt.2_RNA	NM_004622	NP_004613	Q15631	TSN_HUMAN	translin	227					DNA recombination	cytoplasm|nucleus	sequence-specific DNA binding			breast(2)|large_intestine(1)	3		Ovarian(717;0.0563)|Prostate(154;0.116)				GCTTGTGTTGAAAAATAGGAG	0.512													24	49	---	---	---	---						.	-	122522936	-	-	122522936	7	5	103	1	0	1	0	1	0	0	0	0	16655	246	9	0	702	0	TSN	2	122522936	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	8061	122522936	120676437	266	62215											
MYO7B	4648	broad.mit.edu	37	chr2	128394393	128394393	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcaccacctatcccttcAccaagatctccagctggagc	9	9	6	17	0	3	1	2	0	1	1	5	2	4	2	5	1	3	2	5	1	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:128394393A>G	uc002top.2	+	46	6207	c.6154A>G	c.(6154-6156)ACC>GCC	p.T2052A	MYO7B_uc002tos.1_Missense_Mutation_p.T162A|MYO7B_uc002tot.2_Missense_Mutation_p.T162A	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	2052	FERM 2.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		CTATCCCTTCACCAAGATCTC	0.667													27	19					0	0	1	0	0		G	128394393	G	G	128394393	3	3	103	1	0	0	0	0	1	0	0	0	10101	159	6	3	6332	3	MYO7B	2	128394393	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	5871457	128394393	114804980	267	62216											
HS6ST1	9394	broad.mit.edu	37	chr2	129026306	129026306	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtgccctcgtagcagggCggcagctcctcaggcgtggg	4	7	16	14	4	1	0	1	0	0	0	4	0	3	0	3	4	3	4	3	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:129026306C>T	uc002tpt.3	-	2	700	c.666G>A	c.(664-666)CCG>CCA	p.P222P		NM_004807	NP_004798	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	222	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	integral to plasma membrane	sulfotransferase activity			pancreas(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		CGTAGCAGGGCGGCAGCTCCT	0.662													30	56					0	0	1	0	0		T	129026306	T	T	129026306	2	4	103	1	0	0	0	0	0	0	0	1	7386	755	27	1		1	HS6ST1	2	129026306	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	631913	129026306	114173067	268	62217											
NCKAP5	344148	broad.mit.edu	37	chr2	133751755	133751755	+	Frame_Shift_Del	DEL	T	-	-																															attatattaacagtttcttcTtttttctgctctggagatcc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:133751755delT	uc002ttp.2	-	7	773	c.399delA	c.(397-399)AAAfs	p.K133fs	NCKAP5_uc002ttq.2_Frame_Shift_Del_p.K133fs|NCKAP5_uc002tts.1_Frame_Shift_Del_p.K108fs	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	133	Potential.						protein binding				0						CAGTTTCTTCTTTTTTCTGCT	0.343													5	4	---	---	---	---						.	-	133751755	-	-	133751755	7	5	103	1	0	1	0	1	0	0	0	0	10242	1606	56	0	5386	0	NCKAP5	2	133751755	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	4725449	133751755	109447618	269	62218											
LCT	3938	broad.mit.edu	37	chr2	136547367	136547367	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtccaccttgtcctgcacAgctgctcaaacacagaggac	11	7	9	14	0	1	1	1	0	0	1	3	2	3	2	3	2	4	3	3	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:136547367A>C	uc002tuu.1	-	16	5348	c.5337T>G	c.(5335-5337)GCT>GCG	p.A1779A		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1779	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TGTCCTGCACAGCTGCTCAAA	0.522													22	59					0	0	1	0	0		C	136547367	C	C	136547367	2	2	103	1	0	0	0	0	0	0	0	1	8709	202	7	5		5	LCT	2	136547367	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2795612	136547367	106652006	270	62219											
GTDC1	79712	broad.mit.edu	37	chr2	144899478	144899478	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaggaaacctgatgggaaaGtaaataacttggcacttggg	14	9	12	6	0	1	1	1	1	0	0	1	3	1	3	1	4	2	2	1	4	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:144899478G>T	uc002tvp.2	-	6	771	c.492C>A	c.(490-492)TAC>TAA	p.Y164*	GTDC1_uc002tvo.2_Nonsense_Mutation_p.Y164*|GTDC1_uc002tvq.2_Nonsense_Mutation_p.Y164*|GTDC1_uc002tvr.2_Nonsense_Mutation_p.Y164*|GTDC1_uc010fnn.2_Nonsense_Mutation_p.Y164*|GTDC1_uc002tvs.2_Nonsense_Mutation_p.Y132*|GTDC1_uc010fno.2_Nonsense_Mutation_p.Y35*|GTDC1_uc002tvt.1_Nonsense_Mutation_p.Y164*	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	164					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		TGATGGGAAAGTAAATAACTT	0.373													27	52					1.50538e-07	1.54915e-07	1	1	0		T	144899478	T	T	144899478	4	4	103	1	0	0	0	0	0	1	0	0	6867	1024	36	5	912	5	GTDC1	2	144899478	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	8352111	144899478	98299895	271	62220											
GPD2	2820	broad.mit.edu	37	chr2	157352618	157352618	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagttaacagggagcctccTtccagagaagctcagctact	11	8	9	13	0	1	1	1	0	0	1	3	3	3	2	4	1	5	3	4	1	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:157352618T>C	uc002tzf.3	+	3	525	c.165T>C	c.(163-165)CCT>CCC	p.P55P	GPD2_uc010zch.1_Intron|GPD2_uc002tzd.3_Silent_p.P55P	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	55					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						GGGAGCCTCCTTCCAGAGAAG	0.453													27	35					0	0	1	0	0		C	157352618	C	C	157352618	2	2	103	1	0	0	0	0	0	0	0	1	6621	1596	56	3		3	GPD2	2	157352618	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	12453140	157352618	85846755	272	62221											
CCDC148	130940	broad.mit.edu	37	chr2	159077162	159077162	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcttcagttcttctagacGctgaagatctctcatttcca	8	17	5	11	1	6	3	2	1	4	2	8	3	7	3	1	0	0	2	1	0	2	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:159077162G>A	uc002tzq.2	-	11	1578	c.1315C>T	c.(1315-1317)CGT>TGT	p.R439C	CCDC148_uc002tzr.2_Missense_Mutation_p.R287C|CCDC148_uc010foh.2_Missense_Mutation_p.R152C	NM_138803	NP_620158	Q8NFR7	CC148_HUMAN	coiled-coil domain containing 148	439										ovary(2)	2						TCTTCTAGACGCTGAAGATCT	0.313													10	15					0	0	1	0	0		A	159077162	A	A	159077162	3	1	103	1	0	0	0	0	1	0	0	0	2785	1087	38	1	476	1	CCDC148	2	159077162	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1724544	159077162	84122211	273	62222											
TANC1	85461	broad.mit.edu	37	chr2	160080864	160080864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggtggcgctactcagaaaggGagccaagttaggtcagtgag	11	7	16	7	1	2	2	2	1	0	1	2	3	2	3	1	4	2	2	1	4	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:160080864G>A	uc002uag.2	+	23	4074	c.3800G>A	c.(3799-3801)GGA>GAA	p.G1267E	TANC1_uc010zcm.1_Missense_Mutation_p.G1259E|TANC1_uc010fom.1_Missense_Mutation_p.G1073E|TANC1_uc010fon.2_Missense_Mutation_p.G111E	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1267	ANK 11.					cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CTCAGAAAGGGAGCCAAGTTA	0.597													18	30					0	0	1	0	0		A	160080864	A	A	160080864	3	1	103	1	0	0	0	0	1	0	0	0	15569	1174	41	4	3882	4	TANC1	2	160080864	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1003702	160080864	83118509	274	62223											
LY75	4065	broad.mit.edu	37	chr2	160667123	160667123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccttgtactggatccacCgtgacccattctcttttgct	6	14	7	14	1	1	1	0	1	1	0	3	3	2	2	4	1	2	2	4	1	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:160667123C>T	uc002ubc.3	-	32	4682	c.4613G>A	c.(4612-4614)CGG>CAG	p.R1538Q	LY75_uc002ubb.3_Missense_Mutation_p.R1538Q|LY75_uc010fos.2_Missense_Mutation_p.R1538Q	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	1538	Extracellular (Potential).				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		CTGGATCCACCGTGACCCATT	0.393													66	131					0	0	1	0	0		T	160667123	T	T	160667123	3	4	103	1	0	0	0	0	1	0	0	0	9117	652	23	1	571	1	LY75	2	160667123	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	586259	160667123	82532250	275	62224											
DPP4	1803	broad.mit.edu	37	chr2	162875265	162875265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcagctgataatacttcGcctctttactgaatgacaca	12	13	5	11	1	2	3	1	3	2	0	4	3	2	3	1	0	3	1	1	0	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:162875265G>A	uc002ubz.2	-	16	1955	c.1394C>T	c.(1393-1395)GCG>GTG	p.A465V	DPP4_uc010fpb.2_Missense_Mutation_p.A141V	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	465	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	ATAATACTTCGCCTCTTTACT	0.473													26	70					0	0	1	0	0		A	162875265	A	A	162875265	3	1	103	1	0	0	0	0	1	0	0	0	4735	1087	38	1	950	1	DPP4	2	162875265	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2208142	162875265	80324108	276	62225											
TTC21B	79809	broad.mit.edu	37	chr2	166740436	166740436	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atagcattccaattcattttCgcaatacgcttcagctggtt	10	15	6	10	2	2	0	2	0	0	0	4	0	3	0	1	1	3	5	1	1	4	8	rs148113339	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:166740436C>T	uc002udk.2	-	26	3685	c.3552G>A	c.(3550-3552)GCG>GCA	p.A1184A	TTC21B_uc002udj.1_RNA	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	1184						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						AATTCATTTTCGCAATACGCT	0.423													29	62					0	0	1	0	0		T	166740436	T	T	166740436	2	4	103	1	0	0	0	0	0	0	0	1	16714	871	31	1		1	TTC21B	2	166740436	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3865171	166740436	76458937	277	62226											
SCN1A	6323	broad.mit.edu	37	chr2	166908335	166908335	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctatactatgttcctccaaGgaagcattggtgggaggcca	10	11	11	9	0	1	0	0	0	1	0	3	2	3	2	3	4	2	2	3	4	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:166908335G>A	uc010zcz.1	-	6	876	c.858C>T	c.(856-858)TCC>TCT	p.S286S	SCN1A_uc002udo.3_Silent_p.S155S|SCN1A_uc010fpk.2_Silent_p.S155S	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	286	I.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GTTCCTCCAAGGAAGCATTGG	0.383													22	34					0	0	1	0	0		A	166908335	A	A	166908335	2	1	103	1	0	0	0	0	0	0	0	1	13939	987	35	4		4	SCN1A	2	166908335	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	167899	166908335	76291038	278	62227											
FASTKD1	79675	broad.mit.edu	37	chr2	170393848	170393848	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttccatccatgccaccaaTacctttataaaaaaataaat	17	12	2	10	0	0	0	0	0	0	0	2	0	2	0	5	0	2	1	5	0	9	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:170393848T>C	uc002uev.3	-	12	2465	c.2077A>G	c.(2077-2079)ATT>GTT	p.I693V	FASTKD1_uc002uew.3_RNA|FASTKD1_uc002uex.3_Missense_Mutation_p.I636V	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	693					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4						ATGCCACCAATACCtttataa	0.229													5	93					0	0	1	0	0		C	170393848	C	C	170393848	3	2	103	1	0	0	0	0	1	0	0	0	5699	1406	49	3	482	3	FASTKD1	2	170393848	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	3485513	170393848	72805525	279	62228											
CYBRD1	79901	broad.mit.edu	37	chr2	172379172	172379172	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactaccgagaggggcttggCtgggatgggagcgcactaga	9	6	17	9	2	0	2	0	0	0	2	0	5	0	4	1	5	2	3	1	5	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:172379172C>T	uc002ugy.3	+	1	307	c.117C>T	c.(115-117)GGC>GGT	p.G39G	CYBRD1_uc002ugz.3_Silent_p.G39G	NM_024843	NP_079119	Q53TN4	CYBR1_HUMAN	cytochrome b reductase 1 isoform 1	39	Cytochrome b561.				cellular iron ion homeostasis|electron transport chain|transmembrane transport	integral to membrane	ferric-chelate reductase activity|metal ion binding				0						AGGGGCTTGGCTGGGATGGGA	0.642													11	30					0	0	1	0	0		T	172379172	T	T	172379172	2	4	103	1	0	0	0	0	0	0	0	1	4137	784	28	2		2	CYBRD1	2	172379172	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1985324	172379172	70820201	280	62229											
ATF2	1386	broad.mit.edu	37	chr2	175962206	175962206	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatgtggctggctgttgtAatgactgcggtcgagattcc	6	13	15	7	2	0	2	0	1	0	1	2	4	1	3	1	4	1	4	1	4	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:175962206A>T	uc002ujl.2	-	11	1206	c.944T>A	c.(943-945)TTA>TAA	p.L315*	ATF2_uc010fqv.2_Nonsense_Mutation_p.L266*|ATF2_uc002ujv.2_Nonsense_Mutation_p.L62*|ATF2_uc002ujm.2_Nonsense_Mutation_p.L257*|ATF2_uc002ujn.2_RNA|ATF2_uc002ujo.2_Intron|ATF2_uc002ujp.2_RNA|ATF2_uc002ujq.2_Nonsense_Mutation_p.L315*|ATF2_uc002ujr.2_RNA|ATF2_uc010fqu.2_Nonsense_Mutation_p.L297*|ATF2_uc002ujs.2_Nonsense_Mutation_p.L257*|ATF2_uc002ujt.2_RNA|ATF2_uc002uju.2_RNA|ATF2_uc002ujw.1_Nonsense_Mutation_p.L257*|ATF2_uc002ujx.1_RNA	NM_001880	NP_001871	P15336	ATF2_HUMAN	activating transcription factor 2	315					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nucleoplasm	protein dimerization activity|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(1)|breast(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.125)			TGGCTGTTGTAATGACTGCGG	0.433													42	85					0	0	1	0	0		T	175962206	T	T	175962206	4	4	103	1	0	0	0	0	0	1	0	0	1081	372	13	5	589	5	ATF2	2	175962206	Nonsense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	3583034	175962206	67237167	281	62230											
EVX2	344191	broad.mit.edu	37	chr2	176947159	176947159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtcgtggtgccggcagccGagccgctctctgcgtaccct	4	8	13	16	6	1	0	0	0	1	0	3	1	1	0	4	2	5	3	4	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:176947159G>A	uc010zeu.1	-	2	632	c.446C>T	c.(445-447)TCG>TTG	p.S149L		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	149						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		GCCGGCAGCCGAGCCGCTCTC	0.721													19	23					0	0	1	0	0		A	176947159	A	A	176947159	3	1	103	1	0	0	0	0	1	0	0	0	5303	1059	37	1	990	1	EVX2	2	176947159	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	984953	176947159	66252214	282	62231											
HOXD4	3233	broad.mit.edu	37	chr2	177017378	177017378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaacccaagcggtcccgaaCggcctacacccggcagcaag	11	2	12	16	4	0	0	0	0	0	0	1	2	1	1	4	4	5	2	4	4	5	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:177017378C>T	uc002uks.2	+	2	725	c.476C>T	c.(475-477)ACG>ATG	p.T159M		NM_014621	NP_055436	P09016	HXD4_HUMAN	homeobox D4	159	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00765)|Epithelial(96;0.105)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		CGGTCCCGAACGGCCTACACC	0.557													23	45					0	0	1	0	0		T	177017378	T	T	177017378	3	4	103	1	0	0	0	0	1	0	0	0	7340	536	19	1	482	1	HOXD4	2	177017378	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	70219	177017378	66181995	283	62232											
HOXD3	3232	broad.mit.edu	37	chr2	177036848	177036848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggccacctctcgcaccCgtcgtcggccagcgtggact	4	7	12	18	5	1	0	0	0	1	0	4	1	1	1	5	3	1	1	5	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:177036848C>T	uc002ukt.1	+	3	1321	c.1145C>T	c.(1144-1146)CCG>CTG	p.P382L		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	382					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		CTCTCGCACCCGTCGTCGGCC	0.662													10	20					0	0	1	0	0		T	177036848	T	T	177036848	3	4	103	1	0	0	0	0	1	0	0	0	7339	652	23	1	1151	1	HOXD3	2	177036848	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	19470	177036848	66162525	284	62233											
HOXD1	3231	broad.mit.edu	37	chr2	177054164	177054164	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagtggatgaaagtgaagaGgaatgcctctaagaaaggta	16	7	14	4	1	1	4	0	2	1	2	1	7	1	6	1	3	1	1	1	3	6	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:177054164G>T	uc002ukv.3	+	1	858	c.635G>T	c.(634-636)AGG>ATG	p.R212M	HOXD1_uc010fqy.2_Missense_Mutation_p.R212M|HOXD1_uc010zez.1_Missense_Mutation_p.R212M	NM_024501	NP_078777	Q9GZZ0	HXD1_HUMAN	homeobox D1	212						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.0226)		AAAGTGAAGAGGAATGCCTCT	0.662													11	33					1.36491e-13	1.4407e-13	1	1	0		T	177054164	T	T	177054164	3	4	103	1	0	0	0	0	1	0	0	0	7334	1000	35	5	637	5	HOXD1	2	177054164	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	17316	177054164	66145209	285	62234											
TTC30B	150737	broad.mit.edu	37	chr2	178416830	178416830	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacctagctcagggtgcTggcggatgccacgctcaata	9	7	11	14	2	2	0	2	0	0	0	2	1	2	1	3	3	3	3	3	3	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:178416830T>C	uc002uln.2	-	1	695	c.662A>G	c.(661-663)CAG>CGG	p.Q221R	TTC30B_uc010zfc.1_5'UTR	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	221	TPR 4.				cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			CTCAGGGTGCTGGCGGATGCC	0.537													19	49					0	0	1	0	0		C	178416830	C	C	178416830	3	2	103	1	0	0	0	0	1	0	0	0	16725	1580	55	3	1339	3	TTC30B	2	178416830	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1362666	178416830	64782543	286	62235											
TTN	7273	broad.mit.edu	37	chr2	179396497	179396497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatggtaccctgtgcgagcGcattctcagtgtgattcgag	8	11	12	10	3	1	1	1	1	1	0	3	3	1	1	1	1	3	2	1	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:179396497G>A	uc010zfg.1	-	307	97365	c.97141C>T	c.(97141-97143)CGC>TGC	p.R32381C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R26076C|TTN_uc010zfi.1_Missense_Mutation_p.R26009C|TTN_uc010zfj.1_Missense_Mutation_p.R25884C|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33308							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGTGCGAGCGCATTCTCAGT	0.443													30	48					0	0	1	0	0		A	179396497	A	A	179396497	3	1	103	1	0	0	0	0	1	0	0	0	16761	1087	38	1	3154	1	TTN	2	179396497	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	979667	179396497	63802876	287	62236											
TTN	7273	broad.mit.edu	37	chr2	179436014	179436014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccagaggatgctatttctttCcttgcgttctagatgatagc	8	15	9	9	1	2	3	0	1	2	2	3	4	3	4	2	1	3	2	2	1	3	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:179436014C>T	uc010zfg.1	-	275	67365	c.67141G>A	c.(67141-67143)GAA>AAA	p.E22381K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E16076K|TTN_uc010zfi.1_Missense_Mutation_p.E16009K|TTN_uc010zfj.1_Missense_Mutation_p.E15884K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23308							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTATTTCTTTCCTTGCGTTCT	0.413													32	64					0	0	1	0	0		T	179436014	T	T	179436014	3	4	103	1	0	0	0	0	1	0	0	0	16761	864	30	4	33282	4	TTN	2	179436014	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	39517	179436014	63763359	288	62237											
TTN	7273	broad.mit.edu	37	chr2	179454179	179454179	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctttcacaacaacttccTctgtcttcacccagtcactt	8	15	2	16	0	6	0	3	0	3	0	7	0	7	0	2	0	2	0	2	0	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:179454179T>A	uc010zfg.1	-	253	54793	c.54569A>T	c.(54568-54570)GAG>GTG	p.E18190V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E11885V|TTN_uc010zfi.1_Missense_Mutation_p.E11818V|TTN_uc010zfj.1_Missense_Mutation_p.E11693V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19117							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AACAACTTCCTCTGTCTTCAC	0.423													17	25					0	0	1	0	0		A	179454179	A	A	179454179	3	1	103	1	0	0	0	0	1	0	0	0	16761	1551	54	5	45942	5	TTN	2	179454179	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	18165	179454179	63745194	289	62238											
TTN	7273	broad.mit.edu	37	chr2	179463736	179463736	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcccagttgacagtcaTggagttacgagtcacgctgc	8	11	10	12	2	3	1	2	1	1	0	4	3	4	2	1	1	2	3	1	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:179463736T>C	uc010zfg.1	-	240	49221	c.48997A>G	c.(48997-48999)ATG>GTG	p.M16333V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.M10028V|TTN_uc010zfi.1_Missense_Mutation_p.M9961V|TTN_uc010zfj.1_Missense_Mutation_p.M9836V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17260							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGACAGTCATGGAGTTACGA	0.418													16	18					0	0	1	0	0		C	179463736	C	C	179463736	3	2	103	1	0	0	0	0	1	0	0	0	16761	1464	51	3	51280	3	TTN	2	179463736	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	9557	179463736	63735637	290	62239											
ZNF385B	151126	broad.mit.edu	37	chr2	180348060	180348060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctgggattagcctttgcGctgtccttggaaggaaccat	8	11	12	10	1	0	0	0	0	0	0	1	3	1	3	3	3	4	2	3	3	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:180348060G>A	uc002unn.3	-	6	1213	c.609C>T	c.(607-609)AGC>AGT	p.S203S	ZNF385B_uc002unj.2_Silent_p.S101S|ZNF385B_uc002unk.2_RNA|ZNF385B_uc002unl.2_Silent_p.S100S|ZNF385B_uc002unm.2_Silent_p.S127S	NM_152520	NP_689733	Q569K4	Z385B_HUMAN	zinc finger protein 385B isoform 1	203						nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			TAGCCTTTGCGCTGTCCTTGG	0.453													21	30					0	0	1	0	0		A	180348060	A	A	180348060	2	1	103	1	0	0	0	0	0	0	0	1	17902	1078	38	1		1	ZNF385B	2	180348060	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	884324	180348060	62851313	291	62240											
ZNF804A	91752	broad.mit.edu	37	chr2	185801480	185801480	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacaactacgaaaccatcaAtttcctatagctgtaatcct	15	12	3	11	1	1	0	1	0	0	0	3	1	3	0	3	0	5	2	3	0	8	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:185801480A>C	uc002uph.2	+	4	1951	c.1357A>C	c.(1357-1359)ATT>CTT	p.I453L		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	453						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						GAAACCATCAATTTCCTATAG	0.338													41	61					0	0	1	0	0		C	185801480	C	C	185801480	3	2	103	1	0	0	0	0	1	0	0	0	18195	101	4	5	1371	5	ZNF804A	2	185801480	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	5453420	185801480	57397893	292	62241											
FAM171B	165215	broad.mit.edu	37	chr2	187626790	187626790	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagtctatggccaattgaTggaaccagtaaatcgagaga	14	10	11	6	1	1	2	0	1	1	1	2	5	1	3	2	2	1	2	2	2	6	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:187626790T>C	uc002ups.2	+	8	1833	c.1721T>C	c.(1720-1722)ATG>ACG	p.M574T	FAM171B_uc002upr.1_Missense_Mutation_p.M541T|FAM171B_uc002upt.2_Missense_Mutation_p.M43T	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	574	Cytoplasmic (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						GGCCAATTGATGGAACCAGTA	0.443													28	39					0	0	1	0	0		C	187626790	C	C	187626790	3	2	103	1	0	0	0	0	1	0	0	0	5502	1464	51	3	1751	3	FAM171B	2	187626790	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1825310	187626790	55572583	293	62242											
GTF3C3	9330	broad.mit.edu	37	chr2	197636558	197636558	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgggtttttcagcatcAaacggagacagaagcgatga	12	11	11	7	2	3	3	2	1	1	2	3	5	3	3	0	2	3	2	0	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:197636558A>G	uc002uts.2	-	15	2264	c.2174T>C	c.(2173-2175)TTG>TCG	p.L725S	GTF3C3_uc010zgu.1_Missense_Mutation_p.L696S	NM_012086	NP_036218	Q9Y5Q9	TF3C3_HUMAN	general transcription factor IIIC, polypeptide	725						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(3)|breast(3)|pancreas(1)	7						TTTCAGCATCAAACGGAGACA	0.418													35	34					0	0	1	0	0		G	197636558	G	G	197636558	3	3	103	1	0	0	0	0	1	0	0	0	6890	131	5	3	502	3	GTF3C3	2	197636558	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	10009768	197636558	45562815	294	62243											
MARS2	92935	broad.mit.edu	37	chr2	198571099	198571099	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctattggcctgccttcCtgttaggggccggcatgagc	5	11	12	13	1	1	1	0	1	1	0	2	1	2	1	5	4	2	2	5	4	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:198571099C>A	uc002uuq.2	+	1	1013	c.970C>A	c.(970-972)CTG>ATG	p.L324M	uc002uup.2_Intron	NM_138395	NP_612404	Q96GW9	SYMM_HUMAN	methionine-tRNA synthetase 2 precursor	324					methionyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|methionine-tRNA ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3					L-Methionine(DB00134)	GCCTGCCTTCCTGTTAGGGGC	0.537													74	125					1.1397e-45	1.23669e-45	1	1	0		A	198571099	A	A	198571099	3	1	103	1	0	0	0	0	1	0	0	0	9335	680	24	5	972	5	MARS2	2	198571099	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	934541	198571099	44628274	295	62244											
SATB2	23314	broad.mit.edu	37	chr2	200137060	200137060	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgactcggtcagcagctcCtcgtccttatattcagccac	7	12	7	15	2	3	1	2	1	1	0	7	1	5	1	3	1	3	2	3	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:200137060C>A	uc002uuy.1	-	11	2893	c.2076G>T	c.(2074-2076)GAG>GAT	p.E692D	SATB2_uc010fsq.1_Missense_Mutation_p.E574D|SATB2_uc002uuz.1_Missense_Mutation_p.E692D|SATB2_uc002uva.1_Missense_Mutation_p.E692D	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	692						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						TCAGCAGCTCCTCGTCCTTAT	0.557													39	76					2.45108e-15	2.60189e-15	1	1	0		A	200137060	A	A	200137060	3	1	103	1	0	0	0	0	1	0	0	0	13879	680	24	5	129	5	SATB2	2	200137060	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1565961	200137060	43062313	296	62245											
ALS2CR4	65062	broad.mit.edu	37	chr2	202488987	202488987	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgagctggtattatgaagaGgctttgatttctttctcttt	7	19	10	5	0	2	4	0	3	2	1	3	4	2	4	0	2	1	3	0	2	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:202488987G>A	uc002uyh.1	-	14	1319	c.1218C>T	c.(1216-1218)GCC>GCT	p.A406A	ALS2CR4_uc002uyg.1_Silent_p.A398A|ALS2CR4_uc010zho.1_Silent_p.A201A	NM_001044385	NP_001037850	Q96Q45	TM237_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	430						integral to membrane	protein binding				0						ATTATGAAGAGGCTTTGATTT	0.328													11	26					0	0	1	0	0		A	202488987	A	A	202488987	2	1	103	1	0	0	0	0	0	0	0	1	554	987	35	4		4	ALS2CR4	2	202488987	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2351927	202488987	40710386	297	62246											
INO80D	54891	broad.mit.edu	37	chr2	206872047	206872047	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaagtcatcaggtagccGtggcaggacatctgaaaagt	12	10	12	7	1	3	1	2	1	1	0	3	2	3	2	1	3	1	3	1	3	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:206872047G>A	uc002vaz.3	-	10	2284	c.1879C>T	c.(1879-1881)CGG>TGG	p.R627W		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	627					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						TCAGGTAGCCGTGGCAGGACA	0.383													5	60					0	0	1	0	0		A	206872047	A	A	206872047	3	1	103	1	0	0	0	0	1	0	0	0	7765	1144	40	1	1212	1	INO80D	2	206872047	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4383060	206872047	36327326	298	62247											
MDH1B	130752	broad.mit.edu	37	chr2	207611098	207611098	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaccacccaagttccattCtcaaatttcacaggcataga	15	9	5	12	0	2	2	2	0	1	2	4	2	3	2	3	1	1	2	3	1	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:207611098C>A	uc002vbs.2	-	8	1324	c.1269G>T	c.(1267-1269)GAG>GAT	p.E423D	MDH1B_uc010ziw.1_RNA|MDH1B_uc010fui.2_Missense_Mutation_p.E423D|MDH1B_uc010fuj.2_Missense_Mutation_p.E325D|MDH1B_uc002vbt.2_RNA	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)	423					carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		AAGTTCCATTCTCAAATTTCA	0.393													13	30					2.27111e-07	2.33363e-07	1	1	0		A	207611098	A	A	207611098	3	1	103	1	0	0	0	0	1	0	0	0	9427	912	32	5	307	5	MDH1B	2	207611098	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	739051	207611098	35588275	299	62248											
CRYGC	1420	broad.mit.edu	37	chr2	208993062	208993062	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagctcgtagaggacccaGcagccctccagcacgtggag	9	4	14	14	2	0	1	0	0	0	1	2	3	1	3	3	3	4	5	3	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:208993062G>A	uc002vco.3	-	3	428	c.390C>T	c.(388-390)TGC>TGT	p.C130C		NM_020989	NP_066269	P07315	CRGC_HUMAN	crystallin, gamma C	130	Beta/gamma crystallin 'Greek key' 4.				visual perception	cytoplasm|nucleus	protein binding|structural constituent of eye lens				0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.0858)|Lung(261;0.133)		AGAGGACCCAGCAGCCCTCCA	0.632													21	46					0	0	1	0	0		A	208993062	A	A	208993062	2	1	103	1	0	0	0	0	0	0	0	1	3919	963	34	2		2	CRYGC	2	208993062	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1381964	208993062	34206311	300	62249											
CRYGB	1419	broad.mit.edu	37	chr2	209010699	209010699	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcagtcagtggtgcattcGtagctgcggccctggaaggc	6	8	17	10	2	1	0	1	0	0	0	2	1	1	1	1	5	3	4	1	5	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:209010699G>A	uc002vcp.3	-	2	84	c.51C>T	c.(49-51)TAC>TAT	p.Y17Y		NM_005210	NP_005201	P07316	CRGB_HUMAN	crystallin, gamma B	17	Beta/gamma crystallin 'Greek key' 1.				visual perception		structural constituent of eye lens				0				Epithelial(149;0.0641)|LUSC - Lung squamous cell carcinoma(261;0.0703)|Lung(261;0.132)		TGGTGCATTCGTAGCTGCGGC	0.567													35	59					0	0	1	0	0		A	209010699	A	A	209010699	2	1	103	1	0	0	0	0	0	0	0	1	3918	1140	40	1		1	CRYGB	2	209010699	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	17637	209010699	34188674	301	62250											
MAP2	4133	broad.mit.edu	37	chr2	210560785	210560785	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatcactgtagtgcaaacCacaactgatgaaggggagtc	13	9	10	9	0	2	2	2	2	0	0	3	3	2	3	1	2	3	2	1	2	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:210560785C>T	uc002vde.1	+	7	4139	c.3891C>T	c.(3889-3891)ACC>ACT	p.T1297T	MAP2_uc002vdc.1_Silent_p.T1297T|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.T1293T	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1297					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	TAGTGCAAACCACAACTGATG	0.512													43	77					0	0	1	0	0		T	210560785	T	T	210560785	2	4	103	1	0	0	0	0	0	0	0	1	9253	581	21	4		4	MAP2	2	210560785	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1550086	210560785	32638588	302	62251											
CPS1	1373	broad.mit.edu	37	chr2	211464228	211464228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgtcacagaggtcatcaagGcagaacagccagatgggtta	13	8	12	8	0	3	3	3	0	0	3	3	3	3	3	1	3	2	2	1	3	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:211464228G>A	uc002vee.3	+	14	1624	c.1492G>A	c.(1492-1494)GCA>ACA	p.A498T	CPS1_uc010fur.2_Missense_Mutation_p.A504T|CPS1_uc010fus.2_Missense_Mutation_p.A47T	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	498					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		GGTCATCAAGGCAGAACAGCC	0.468													43	67					0	0	1	0	0		A	211464228	A	A	211464228	3	1	103	1	0	0	0	0	1	0	0	0	3826	1203	42	2	1568	2	CPS1	2	211464228	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	903443	211464228	31735145	303	62252											
ATIC	471	broad.mit.edu	37	chr2	216209520	216209520	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgccagagtctgccctcCgagacctcatcgtagccacc	8	8	9	16	2	2	2	1	0	1	2	4	3	3	2	6	0	3	2	6	0	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:216209520C>T	uc002vex.3	+	13	1420	c.1246C>T	c.(1246-1248)CGA>TGA	p.R416*	ATIC_uc010zjo.1_Nonsense_Mutation_p.R357*|ATIC_uc002vey.3_Nonsense_Mutation_p.R415*	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	416					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity		ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	GTCTGCCCTCCGAGACCTCAT	0.433			T	ALK	ALCL								24	29					0	0	1	0	0		T	216209520	T	T	216209520	4	4	103	1	0	0	0	0	0	1	0	0	1106	644	23	1	1296	1	ATIC	2	216209520	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4745292	216209520	26989853	304	62253											
FN1	2335	broad.mit.edu	37	chr2	216286852	216286852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgcatgtccattccccaCgaccattcccaacacacgtg	11	8	5	17	2	0	0	0	0	0	0	3	1	3	0	5	0	2	1	5	0	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:216286852C>T	uc002vfa.2	-	10	1774	c.1508G>A	c.(1507-1509)CGT>CAT	p.R503H	FN1_uc002vfb.2_Missense_Mutation_p.R503H|FN1_uc002vfc.2_Missense_Mutation_p.R503H|FN1_uc002vfd.2_Missense_Mutation_p.R503H|FN1_uc002vfe.2_Missense_Mutation_p.R503H|FN1_uc002vff.2_Missense_Mutation_p.R503H|FN1_uc002vfg.2_Missense_Mutation_p.R503H|FN1_uc002vfh.2_Missense_Mutation_p.R503H|FN1_uc002vfi.2_Missense_Mutation_p.R503H|FN1_uc002vfj.2_Missense_Mutation_p.R503H|FN1_uc002vfl.2_Missense_Mutation_p.R503H	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	503	Collagen-binding.|Fibronectin type-I 7.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCATTCCCCACGACCATTCCC	0.473													47	78					0	0	1	0	0		T	216286852	T	T	216286852	3	4	103	1	0	0	0	0	1	0	0	0	5976	536	19	1	6106	1	FN1	2	216286852	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	77332	216286852	26912521	305	62254											
SMARCAL1	50485	broad.mit.edu	37	chr2	217315647	217315647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaggaagcagtcatgctgCggcgcctcaagtccgacgtc	8	7	14	12	4	2	0	2	0	0	0	4	3	3	2	2	3	3	2	2	3	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:217315647C>T	uc002vgc.3	+	12	2260	c.1930C>T	c.(1930-1932)CGG>TGG	p.R644W	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.R644W|SMARCAL1_uc010fvg.2_Missense_Mutation_p.R622W	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	644			R -> W (in SIOD).		chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		AGTCATGCTGCGGCGCCTCAA	0.602									Schimke_Immuno-Osseous_Dysplasia				25	58					0	0	1	0	0		T	217315647	T	T	217315647	3	4	103	1	0	0	0	0	1	0	0	0	14798	759	27	1	1968	1	SMARCAL1	2	217315647	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1028795	217315647	25883726	306	62255											
ARPC2	10109	broad.mit.edu	37	chr2	219110150	219110152	+	In_Frame_Del	DEL	AAG	-	-																															tttgtcttggcaggagttcaAagaaggacgcagagccagcc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:219110150_219110152delAAG	uc002vhd.2	+	8	669_671	c.557_559delAAG	c.(556-561)AAAGAA>AAA	p.E187del	ARPC2_uc002vhe.2_In_Frame_Del_p.E187del|ARPC2_uc002vhf.2_In_Frame_Del_p.E73del	NM_152862	NP_690601	O15144	ARPC2_HUMAN	actin related protein 2/3 complex subunit 2	187					cellular component movement	Arp2/3 protein complex|cell projection|Golgi apparatus	actin binding|structural constituent of cytoskeleton			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;1.21e-06)|all cancers(144;0.000212)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0103)		CAGGAGTTCAAAGAAGGACGCAG	0.517													66	73	---	---	---	---						.	-	219110152	-	-	219110150	7	5	103	1	0	1	0	1	0	0	0	0	972	14	1	0	583	0	ARPC2	2	219110150	In_Frame_Del	DEL	AAG	TCGA-BR-A4QL-01A-31D-A25D-08	1794503	219110150	24089223	307	62256											
USP37	57695	broad.mit.edu	37	chr2	219362579	219362579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaagcaagtgtgcaaagcGtctagtaaaacaaaaaacac	21	5	7	8	1	1	0	0	0	1	0	1	0	1	0	0	0	6	3	0	0	10	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:219362579G>A	uc002vie.2	-	13	1612	c.1159C>T	c.(1159-1161)CGC>TGC	p.R387C	USP37_uc010fvs.1_Missense_Mutation_p.R387C|USP37_uc010zkf.1_Missense_Mutation_p.R387C|USP37_uc002vif.2_Missense_Mutation_p.R387C|USP37_uc002vig.2_Missense_Mutation_p.R315C	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	387					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		TGTGCAAAGCGTCTAGTAAAA	0.323													32	43					0	0	1	0	0		A	219362579	A	A	219362579	3	1	103	1	0	0	0	0	1	0	0	0	17094	1159	40	1	1836	1	USP37	2	219362579	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	252429	219362579	23836794	308	62257											
ZNF142	7701	broad.mit.edu	37	chr2	219508052	219508052	+	Frame_Shift_Del	DEL	G	-	-																															ggacacatcaggctgggtctGgggggtccctcgttttcctc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:219508052delG	uc002vin.2	-	8	3623	c.3187delC	c.(3187-3189)CAGfs	p.Q1063fs	ZNF142_uc002vil.2_Frame_Shift_Del_p.Q1024fs|ZNF142_uc010fvt.2_Frame_Shift_Del_p.Q900fs|ZNF142_uc002vim.2_Frame_Shift_Del_p.Q900fs	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	1063					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		GGCTGGGTCTGGGGGGTCCCT	0.607													19	36	---	---	---	---						.	-	219508052	-	-	219508052	7	5	103	1	0	1	0	1	0	0	0	0	17756	1357	47	0	1888	0	ZNF142	2	219508052	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	145473	219508052	23691321	309	62258											
RNF25	64320	broad.mit.edu	37	chr2	219529162	219529162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggcaaagtggattggaCggctggtgaggtggatagtt	9	10	19	3	1	0	1	0	1	0	0	0	4	0	4	0	8	0	3	0	8	2	3	rs140256402	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:219529162C>T	uc002vit.2	-	10	986	c.898G>A	c.(898-900)GTC>ATC	p.V300I	RNF25_uc010fvw.2_Missense_Mutation_p.V188I	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	300					positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GTGGATTGGACGGCTGGTGAG	0.567													27	63					0	0	1	0	0		T	219529162	T	T	219529162	3	4	103	1	0	0	0	0	1	0	0	0	13510	536	19	1	485	1	RNF25	2	219529162	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	21110	219529162	23670211	310	62259											
ACCN4	55515	broad.mit.edu	37	chr2	220400033	220400033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgaggaagtacaaccgcaacGagacctacatacggtatgtg	14	6	11	10	4	0	1	0	0	0	1	0	4	0	2	2	2	5	3	2	2	7	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:220400033G>A	uc002vma.2	+	5	1554	c.1540G>A	c.(1540-1542)GAG>AAG	p.E514K	ACCN4_uc002vlz.2_Missense_Mutation_p.E533K|ACCN4_uc002vmb.2_Missense_Mutation_p.E187K	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	514	Extracellular (Potential).					integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		CAACCGCAACGAGACCTACAT	0.398													6	10					0	0	1	0	0		A	220400033	A	A	220400033	3	1	103	1	0	0	0	0	1	0	0	0	131	1059	37	1	1619	1	ACCN4	2	220400033	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	870871	220400033	22799340	311	62260											
TMEM198	130612	broad.mit.edu	37	chr2	220412523	220412523	+	Frame_Shift_Del	DEL	G	-	-																															ggtccactggggctgttgctGgggggcggcctgctctgtgc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:220412523delG	uc002vme.2	+	4	1047	c.462delG	c.(460-462)CTGfs	p.L154fs	TMEM198_uc002vmf.2_Frame_Shift_Del_p.L154fs	NM_001005209	NP_001005209	Q66K66	TM198_HUMAN	transmembrane protein 198	154	Helical; (Potential).|Leu-rich.					integral to membrane				ovary(1)	1		Renal(207;0.0376)		Epithelial(149;6.49e-08)|all cancers(144;6.45e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		GGCTGTTGCTGGGGGGCGGCC	0.721													14	31	---	---	---	---						.	-	220412523	-	-	220412523	7	5	103	1	0	1	0	1	0	0	0	0	16144	1335	47	0	468	0	TMEM198	2	220412523	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	12490	220412523	22786850	312	62261											
SLC4A3	6508	broad.mit.edu	37	chr2	220495067	220495067	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctgcagacctggacgaCatgaagagtgagtgagacct	11	8	14	8	1	1	5	0	3	1	3	1	8	1	6	2	2	1	2	2	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:220495067C>T	uc002vmp.3	+	6	1073	c.804C>T	c.(802-804)GAC>GAT	p.D268D	SLC4A3_uc002vmn.2_Silent_p.D295D|SLC4A3_uc002vmo.3_Silent_p.D295D|SLC4A3_uc010fwm.2_5'UTR|SLC4A3_uc010fwn.1_5'Flank	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	268	Cytoplasmic.				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACCTGGACGACATGAAGAGTG	0.637													15	35					0	0	1	0	0		T	220495067	T	T	220495067	2	4	103	1	0	0	0	0	0	0	0	1	14680	477	17	4		4	SLC4A3	2	220495067	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	82544	220495067	22704306	313	62262											
IRS1	3667	broad.mit.edu	37	chr2	227660270	227660270	+	Frame_Shift_Del	DEL	C	-	-																															tgcccccaggtccttgtgggCcccccagcagggacgagtgg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:227660270delC	uc002voh.3	-	1	3237	c.3185delG	c.(3184-3186)GGCfs	p.G1062fs		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	1062					fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		TCCTTGTGGGCCCCCCAGCAG	0.657													31	36	---	---	---	---						.	-	227660270	-	-	227660270	7	5	103	1	0	1	0	1	0	0	0	0	7856	739	26	0	547	0	IRS1	2	227660270	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	7165203	227660270	15539103	314	62263											
SPHKAP	80309	broad.mit.edu	37	chr2	228881735	228881735	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaccggatgaggacgcgcTactgaccggctgcacgctta	9	6	14	12	5	0	3	0	2	0	1	0	6	0	5	2	3	2	4	2	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:228881735T>C	uc002vpq.2	-	7	3882	c.3835A>G	c.(3835-3837)AGC>GGC	p.S1279G	SPHKAP_uc002vpp.2_Missense_Mutation_p.S1279G|SPHKAP_uc010zlx.1_Missense_Mutation_p.S1279G	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1279						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GAGGACGCGCTACTGACCGGC	0.507													28	50					0	0	1	0	0		C	228881735	C	C	228881735	3	2	103	1	0	0	0	0	1	0	0	0	15073	1522	53	3	1291	3	SPHKAP	2	228881735	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1221465	228881735	14317638	315	62264											
ALPPL2	251	broad.mit.edu	37	chr2	233272672	233272672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgtgcctgcctcggcccGccaggaggggtgccaggaca	6	4	16	15	4	0	0	0	0	0	0	1	3	0	2	5	5	3	0	5	5	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:233272672G>A	uc002vss.3	+	5	646	c.593G>A	c.(592-594)CGC>CAC	p.R198H		NM_031313	NP_112603	P10696	PPBN_HUMAN	placental-like alkaline phosphatase	198					phosphorylation	anchored to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			skin(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)|Levamisole(DB00848)	GCCTCGGCCCGCCAGGAGGGG	0.672													42	78					0	0	1	0	0		A	233272672	A	A	233272672	3	1	103	1	0	0	0	0	1	0	0	0	549	1087	38	1	611	1	ALPPL2	2	233272672	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4390937	233272672	9926701	316	62265											
EFHD1	80303	broad.mit.edu	37	chr2	233546345	233546345	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcagagttgaaagctgaGcaagatgagcggaagcggga	15	4	17	5	2	0	5	0	3	0	2	0	8	0	7	0	2	5	4	0	2	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:233546345G>T	uc002vtc.2	+	4	844	c.636G>T	c.(634-636)GAG>GAT	p.E212D	EFHD1_uc010fyf.2_Missense_Mutation_p.E116D|EFHD1_uc002vtd.2_Missense_Mutation_p.E100D	NM_025202	NP_079478	Q9BUP0	EFHD1_HUMAN	EF-hand domain family, member D1	212							calcium ion binding|protein binding				0		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Breast(86;0.0199)|Renal(207;0.025)		Epithelial(121;2.08e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00825)|Lung(119;0.0101)		TGAAAGCTGAGCAAGATGAGC	0.542													56	81					3.93605e-18	4.20214e-18	1	1	0		T	233546345	T	T	233546345	3	4	103	1	0	0	0	0	1	0	0	0	4954	962	34	5	650	5	EFHD1	2	233546345	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	273673	233546345	9653028	317	62266											
UGT1A5	54579	broad.mit.edu	37	chr2	234681073	234681073	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccagtaccattccttggaCgtgattggtttcctcttggc	6	15	9	11	1	1	1	0	1	1	0	3	2	3	2	4	3	2	2	4	3	2	7	rs114123636	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:234681073C>T	uc002vuw.2	+	5	1473	c.1473C>T	c.(1471-1473)GAC>GAT	p.D491D	UGT1A8_uc002vup.2_Silent_p.D487D|UGT1A10_uc002vur.2_Silent_p.D487D|UGT1A9_uc002vus.2_Silent_p.D487D|UGT1A7_uc002vut.2_Silent_p.D487D|UGT1A6_uc002vuu.2_Silent_p.D222D|UGT1A6_uc002vuv.3_Silent_p.D489D|UGT1A4_uc002vux.2_Silent_p.D491D|UGT1A3_uc002vuy.2_Silent_p.D491D|UGT1A9_uc002vva.2_RNA|UGT1A1_uc002vvb.2_Silent_p.D490D	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	491					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		ATTCCTTGGACGTGATTGGTT	0.567													49	84					0	0	1	0	0		T	234681073	T	T	234681073	2	4	103	1	0	0	0	0	0	0	0	1	16974	535	19	1		1	UGT1A5	2	234681073	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1134728	234681073	8518300	318	62267											
AGAP1	116987	broad.mit.edu	37	chr2	237028996	237028996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcacacggctcccgggacGaggtgaacgagacctgcggg	8	4	17	12	5	0	2	0	1	0	1	1	5	1	3	2	5	2	2	2	5	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:237028996G>A	uc002vvs.2	+	17	2870	c.2275G>A	c.(2275-2277)GAG>AAG	p.E759K	AGAP1_uc002vvt.2_Missense_Mutation_p.E706K	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	759					protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						CTCCCGGGACGAGGTGAACGA	0.716													22	61					0	0	1	0	0		A	237028996	A	A	237028996	3	1	103	1	0	0	0	0	1	0	0	0	366	1059	37	1	2341	1	AGAP1	2	237028996	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2347923	237028996	6170377	319	62268											
MLPH	79083	broad.mit.edu	37	chr2	238449011	238449011	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctaggtgctggagtgcgCacggaggccgatgtagagga	8	7	19	7	3	1	1	0	0	1	1	1	5	1	4	1	6	2	3	1	6	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:238449011C>T	uc002vwt.2	+	10	1352	c.1125C>T	c.(1123-1125)CGC>CGT	p.R375R	MLPH_uc002vws.2_Silent_p.R232R|MLPH_uc010fyt.1_Silent_p.R347R|MLPH_uc002vwu.2_Silent_p.R347R|MLPH_uc002vwv.2_Silent_p.R307R|MLPH_uc002vww.2_Silent_p.R323R|MLPH_uc002vwx.2_Silent_p.R231R|MLPH_uc010fyu.2_Silent_p.R127R	NM_024101	NP_077006	Q9BV36	MELPH_HUMAN	melanophilin isoform 1	375	Potential.						metal ion binding			ovary(1)	1		Breast(86;0.000381)|Renal(207;0.000966)|Ovarian(221;0.0695)|all_hematologic(139;0.095)|all_lung(227;0.17)|Melanoma(123;0.203)		Epithelial(121;1.17e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.02e-10)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.15e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000439)|Lung(119;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0316)		CTGGAGTGCGCACGGAGGCCG	0.622													7	33					0	0	1	0	0		T	238449011	T	T	238449011	2	4	103	1	0	0	0	0	0	0	0	1	9651	697	25	2		2	MLPH	2	238449011	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1420015	238449011	4750362	320	62269											
ESPNL	339768	broad.mit.edu	37	chr2	239013386	239013386	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggcccagttcctggtgaAggactgtggcgctgacgtgc	5	9	15	12	2	0	2	0	2	0	0	1	3	1	3	3	4	1	2	3	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:239013386A>C	uc002vxq.3	+	3	685	c.575A>C	c.(574-576)AAG>ACG	p.K192T		NM_194312	NP_919288	Q6ZVH7	ESPNL_HUMAN	espin-like	192	ANK 6.									pancreas(1)	1		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;4.71e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.02e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.63e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000109)|Lung(119;0.0108)|LUSC - Lung squamous cell carcinoma(224;0.0253)		TTCCTGGTGAAGGACTGTGGC	0.682													3	11					0	0	1	0	0		C	239013386	C	C	239013386	3	2	103	1	0	0	0	0	1	0	0	0	5263	72	3	5	585	5	ESPNL	2	239013386	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	564375	239013386	4185987	321	62270											
HDAC4	9759	broad.mit.edu	37	chr2	240056118	240056118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaagggtgagtctctcggCgtcctgctggcccgccgtgc	3	8	17	13	4	1	1	0	1	1	0	4	2	2	2	3	4	2	1	3	4	1	0	rs115644432	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:240056118C>T	uc002vyk.3	-	11	1909	c.1117G>A	c.(1117-1119)GCC>ACC	p.A373T	HDAC4_uc010fyz.1_Missense_Mutation_p.A368T|HDAC4_uc010zoa.1_Missense_Mutation_p.A368T|HDAC4_uc010fza.2_Missense_Mutation_p.A373T|HDAC4_uc010fyy.2_Missense_Mutation_p.A325T|HDAC4_uc010znz.1_Missense_Mutation_p.A256T|HDAC4_uc010fzb.1_RNA	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	373				A -> T (in Ref. 1; AAD29046 and 2; BAA22957).	B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		AGTCTCTCGGCGTCCTGCTGG	0.687													4	13					0	0	1	0	0		T	240056118	T	T	240056118	3	4	103	1	0	0	0	0	1	0	0	0	7025	768	27	1	2205	1	HDAC4	2	240056118	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1042732	240056118	3143255	322	62271											
KIF1A	547	broad.mit.edu	37	chr2	241658494	241658494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgagcacgaaccgctccaCggtgtccttgtcgctgttgt	5	12	12	12	4	0	1	0	1	0	0	3	2	2	1	3	1	2	5	3	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:241658494C>T	uc002vzy.2	-	45	4986	c.4840G>A	c.(4840-4842)GTG>ATG	p.V1614M	KIF1A_uc010fzk.2_Missense_Mutation_p.V1715M|KIF1A_uc002vzw.2_Missense_Mutation_p.V275M|KIF1A_uc002vzx.2_Missense_Mutation_p.V341M	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	1614	PH.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		AACCGCTCCACGGTGTCCTTG	0.657													43	58					0	0	1	0	0		T	241658494	T	T	241658494	3	4	103	1	0	0	0	0	1	0	0	0	8299	536	19	1	244	1	KIF1A	2	241658494	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1602376	241658494	1540879	323	62272											
PASK	23178	broad.mit.edu	37	chr2	242066771	242066771	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccggggctctctattgccAcaggttcctctctccccaag	5	11	9	16	1	2	0	0	0	2	0	7	0	5	0	5	3	1	2	5	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:242066771A>G	uc002wao.1	-	10	1651	c.1559T>C	c.(1558-1560)GTG>GCG	p.V520A	PASK_uc010zol.1_Missense_Mutation_p.V334A|PASK_uc010zom.1_Missense_Mutation_p.V485A|PASK_uc010fzl.1_Missense_Mutation_p.V520A|PASK_uc010zon.1_Missense_Mutation_p.V301A|PASK_uc002wap.2_Missense_Mutation_p.V63A|PASK_uc002waq.2_Missense_Mutation_p.V520A	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	520					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CTCTATTGCCACAGGTTCCTC	0.567													62	95					0	0	1	0	0		G	242066771	G	G	242066771	3	3	103	1	0	0	0	0	1	0	0	0	11491	159	6	3	2448	3	PASK	2	242066771	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	408277	242066771	1132602	324	62273											
HDLBP	3069	broad.mit.edu	37	chr2	242196109	242196109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgctggggtcatctgggCgtgggatctggattttggtt	4	15	17	5	1	3	0	1	0	2	0	3	3	3	2	0	6	1	2	0	6	0	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr2:242196109C>T	uc002waz.2	-	6	791	c.563G>A	c.(562-564)CGC>CAC	p.R188H	HDLBP_uc002wba.2_Missense_Mutation_p.R188H|HDLBP_uc002wbb.2_Missense_Mutation_p.R209H|HDLBP_uc010fzn.1_5'UTR	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	188	KH 1.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		GTCATCTGGGCGTGGGATCTG	0.488													45	61					0	0	1	0	0		T	242196109	T	T	242196109	3	4	103	1	0	0	0	0	1	0	0	0	7041	768	27	1	3335	1	HDLBP	2	242196109	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	129338	242196109	1003264	325	62274											
SUMF1	285362	broad.mit.edu	37	chr3	4494631	4494631	+	Frame_Shift_Del	DEL	A	-	-																															gacttcataggcatccatgtAaaaggcatcaatagtaactc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:4494631delA	uc003bpz.1	-	2	398	c.373delT	c.(373-375)TACfs	p.Y125fs	SUMF1_uc003bps.1_RNA|SUMF1_uc011ass.1_Frame_Shift_Del_p.Y125fs|SUMF1_uc010hby.1_Frame_Shift_Del_p.Y125fs|SUMF1_uc011ast.1_Frame_Shift_Del_p.Y125fs	NM_182760	NP_877437	Q8NBK3	SUMF1_HUMAN	sulfatase modifying factor 1 isoform 1	125						endoplasmic reticulum lumen	metal ion binding|oxidoreductase activity			upper_aerodigestive_tract(1)	1		Melanoma(143;0.068)|Colorectal(144;0.233)		Epithelial(13;0.0147)|OV - Ovarian serous cystadenocarcinoma(96;0.0444)|all cancers(10;0.0549)		GCATCCATGTAAAAGGCATCA	0.458													38	54	---	---	---	---						.	-	4494631	-	-	4494631	7	5	103	1	0	1	0	1	0	0	0	0	15410	362	13	0	783	0	SUMF1	3	4494631	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08		4494631	193527799	326	62275											
ITPR1	3708	broad.mit.edu	37	chr3	4859884	4859884	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaagtaaaggactccacCgaatatactgggcctgagag	14	7	12	8	1	0	2	0	2	0	1	1	5	1	3	3	2	1	1	3	2	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:4859884C>T	uc003bqa.2	+	57	8190	c.7842C>T	c.(7840-7842)ACC>ACT	p.T2614T	ITPR1_uc010hca.1_Silent_p.T2599T|ITPR1_uc011asu.1_Silent_p.T625T|ITPR1_uc003bqc.2_Silent_p.T1584T|ITPR1_uc010hcc.1_Silent_p.T382T|ITPR1_uc011asv.1_Silent_p.T338T	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	2662	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		AGGACTCCACCGAATATACTG	0.498													9	23					0	0	1	0	0		T	4859884	T	T	4859884	2	4	103	1	0	0	0	0	0	0	0	1	7936	639	23	1		1	ITPR1	3	4859884	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	365253	4859884	193162546	327	62276											
GRM7	2917	broad.mit.edu	37	chr3	7721813	7721813	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggggatgctatacatgccGaaagtgtacatcatcatttt	11	13	9	8	1	2	0	2	0	0	0	2	2	2	1	1	2	4	2	1	2	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:7721813G>A	uc003bqm.2	+	9	2803	c.2529G>A	c.(2527-2529)CCG>CCA	p.P843P	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Silent_p.P843P|GRM7_uc003bql.2_Silent_p.P843P|GRM7_uc003bqn.1_Silent_p.P426P	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	843	Helical; Name=7; (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	TATACATGCCGAAAGTGTACA	0.493													26	46					0	0	1	0	0		A	7721813	A	A	7721813	2	1	103	1	0	0	0	0	0	0	0	1	6818	1045	37	1		1	GRM7	3	7721813	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2861929	7721813	190300617	328	62277											
SETD5	55209	broad.mit.edu	37	chr3	9514939	9514939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtatccctgctggagtaccGaaaacggaaacaagaagcta	15	6	11	9	2	0	1	0	0	0	1	1	4	1	3	2	3	5	4	2	3	8	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:9514939G>A	uc003brt.2	+	20	3650	c.3215G>A	c.(3214-3216)CGA>CAA	p.R1072Q	SETD5_uc003bru.2_Missense_Mutation_p.R974Q|SETD5_uc003brv.2_Missense_Mutation_p.R961Q|SETD5_uc010hck.2_Missense_Mutation_p.R554Q|SETD5_uc003brx.2_Missense_Mutation_p.R741Q	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	1072										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		CTGGAGTACCGAAAACGGAAA	0.463													18	24					0	0	1	0	0		A	9514939	A	A	9514939	3	1	103	1	0	0	0	0	1	0	0	0	14159	1058	37	1	3285	1	SETD5	3	9514939	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1793126	9514939	188507491	329	62278											
TADA3	10474	broad.mit.edu	37	chr3	9832966	9832966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtttcggcctcaagcacaCgcaggcgccggctggcagaa	8	5	15	13	4	1	1	1	0	0	1	2	1	1	1	2	5	1	5	2	5	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:9832966C>T	uc003bsx.1	-	2	733	c.185G>A	c.(184-186)CGT>CAT	p.R62H	TADA3_uc010hcn.1_Missense_Mutation_p.R62H|TADA3_uc003bsy.2_Missense_Mutation_p.R62H|ARPC4_uc003bsz.1_5'Flank|ARPC4_uc003bta.1_5'Flank|ARPC4_uc003btb.1_5'Flank|ARPC4_uc003btc.1_5'Flank	NM_006354	NP_006345	O75528	TADA3_HUMAN	transcriptional adaptor 3 isoform a	62	Potential.				estrogen receptor signaling pathway|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	ligand-dependent nuclear receptor binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity				0						CTCAAGCACACGCAGGCGCCG	0.602													18	35					0	0	1	0	0		T	9832966	T	T	9832966	3	4	103	1	0	0	0	0	1	0	0	0	15537	536	19	1	1149	1	TADA3	3	9832966	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	318027	9832966	188189464	330	62279											
TTLL3	26140	broad.mit.edu	37	chr3	9867614	9867614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggatcgtgaagccaggaGccaagtcccgcggacgaggt	9	6	15	11	4	1	1	0	1	1	0	3	5	2	4	3	4	2	0	3	4	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:9867614G>A	uc003btg.2	+	8	1072	c.856G>A	c.(856-858)GCC>ACC	p.A286T	ARPC4_uc003btc.1_Intron|TTLL3_uc003btd.3_Missense_Mutation_p.A253T|TTLL3_uc003btf.3_Missense_Mutation_p.A74T|TTLL3_uc010hco.1_Missense_Mutation_p.A222T|TTLL3_uc003bth.3_Missense_Mutation_p.A74T|TTLL3_uc011atj.1_Missense_Mutation_p.A222T|TTLL3_uc003btj.3_Missense_Mutation_p.A74T|TTLL3_uc003bti.3_Missense_Mutation_p.A74T|TTLL3_uc003btk.2_Missense_Mutation_p.A89T	NM_001025930	NP_001021100	Q9Y4R7	TTLL3_HUMAN	tubulin tyrosine ligase-like family, member 3	286	TTL.				axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)					GAAGCCAGGAGCCAAGTCCCG	0.522													7	42					0	0	1	0	0		A	9867614	A	A	9867614	3	1	103	1	0	0	0	0	1	0	0	0	16754	971	34	2	882	2	TTLL3	3	9867614	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	34648	9867614	188154816	331	62280											
IL17RC	84818	broad.mit.edu	37	chr3	9965696	9965696	+	Frame_Shift_Del	DEL	A	-	-																															ccccaaaaccccggtggcacAaaaacctggtgaggcctccc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:9965696delA	uc003bua.2	+	8	1203	c.967delA	c.(967-969)AAAfs	p.K323fs	CIDEC_uc003bto.2_Intron|IL17RC_uc010hcr.2_RNA|IL17RC_uc011ato.1_RNA|IL17RC_uc010hcs.2_Frame_Shift_Del_p.K227fs|IL17RC_uc003btz.2_Frame_Shift_Del_p.K252fs|IL17RC_uc011atp.1_Frame_Shift_Del_p.K108fs|IL17RC_uc003bud.2_5'UTR|IL17RC_uc003bub.2_Frame_Shift_Del_p.K237fs|IL17RC_uc010hct.2_Frame_Shift_Del_p.K252fs|IL17RC_uc010hcu.2_Frame_Shift_Del_p.K252fs|IL17RC_uc010hcv.2_Frame_Shift_Del_p.K237fs|IL17RC_uc011atq.1_Frame_Shift_Del_p.K237fs|IL17RC_uc003buc.2_5'UTR	NM_153461	NP_703191	Q8NAC3	I17RC_HUMAN	interleukin 17 receptor C isoform 1 precursor	323	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|pancreas(1)	2						CCGGTGGCACAAAAACCTGGT	0.572													40	60	---	---	---	---						.	-	9965696	-	-	9965696	7	5	103	1	0	1	0	1	0	0	0	0	7657	131	5	0	997	0	IL17RC	3	9965696	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	98082	9965696	188056734	332	62281											
IRAK2	3656	broad.mit.edu	37	chr3	10268070	10268070	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggtgttggccgaggtcCtcacgggcatccctgcaatg	6	9	13	13	2	1	0	1	0	0	0	4	1	4	0	4	4	1	3	4	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:10268070C>A	uc003bve.1	+	10	1301	c.1225C>A	c.(1225-1227)CTC>ATC	p.L409I		NM_001570	NP_001561	O43187	IRAK2_HUMAN	interleukin-1 receptor-associated kinase 2	409	Protein kinase.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|endosome membrane|plasma membrane	ATP binding|NF-kappaB-inducing kinase activity|protein heterodimerization activity|protein homodimerization activity			lung(5)|breast(3)	8						GGCCGAGGTCCTCACGGGCAT	0.537													15	9					1.15088e-07	1.18493e-07	1	1	0		A	10268070	A	A	10268070	3	1	103	1	0	0	0	0	1	0	0	0	7839	681	24	5	1263	5	IRAK2	3	10268070	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	302374	10268070	187754360	333	62282											
HRH1	3269	broad.mit.edu	37	chr3	11300948	11300948	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctcggtggcggacttgatCgtgggtgccgtcgtcatgcc	3	11	15	12	5	2	1	1	1	1	0	5	2	2	2	2	4	2	0	2	4	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:11300948C>T	uc010hdr.2	+	2	567	c.225C>T	c.(223-225)ATC>ATT	p.I75I	HRH1_uc010hds.2_Silent_p.I75I|HRH1_uc010hdt.2_Silent_p.I75I|HRH1_uc003bwb.3_Silent_p.I75I	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1	75	Helical; Name=2; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	CGGACTTGATCGTGGGTGCCG	0.572													42	56					0	0	1	0	0		T	11300948	T	T	11300948	2	4	103	1	0	0	0	0	0	0	0	1	7371	874	31	1		1	HRH1	3	11300948	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1032878	11300948	186721482	334	62283											
VGLL4	9686	broad.mit.edu	37	chr3	11606282	11606282	+	Frame_Shift_Del	DEL	C	-	-																															gaggcccacctgctgccgctCccccggggtcagtgtgggcg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:11606282delC	uc003bwf.2	-	4	832	c.466delG	c.(466-468)GAGfs	p.E156fs	VGLL4_uc010hdx.1_Frame_Shift_Del_p.E162fs|VGLL4_uc003bwg.2_Frame_Shift_Del_p.E161fs|VGLL4_uc010hdv.1_Frame_Shift_Del_p.E72fs|VGLL4_uc010hdw.1_Frame_Shift_Del_p.E76fs|VGLL4_uc011aun.1_Frame_Shift_Del_p.E97fs	NM_014667	NP_055482	Q14135	VGLL4_HUMAN	vestigial like 4 isoform b	156					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1				LUSC - Lung squamous cell carcinoma(1;0.089)|Lung(1;0.111)		TGCTGCCGCTCCCCCGGGGTC	0.701													3	3	---	---	---	---						.	-	11606282	-	-	11606282	7	5	103	1	0	1	0	1	0	0	0	0	17187	864	30	0	418	0	VGLL4	3	11606282	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	305334	11606282	186416148	335	62284											
HDAC11	79885	broad.mit.edu	37	chr3	13525045	13525045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggtggtgcacacgaggcGctatcttaatgagctcaagg	9	9	14	9	2	2	1	1	1	1	0	2	2	2	1	0	4	2	4	0	4	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:13525045G>A	uc003bxy.2	+	3	366	c.233G>A	c.(232-234)CGC>CAC	p.R78H	HDAC11_uc010heb.2_Missense_Mutation_p.R50H|HDAC11_uc011aux.1_Intron|HDAC11_uc003bxz.2_Missense_Mutation_p.R50H|HDAC11_uc011auy.1_Missense_Mutation_p.R50H	NM_024827	NP_079103	Q96DB2	HDA11_HUMAN	histone deacetylase 11 isoform 1	78	Histone deacetylase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex|plasma membrane	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding			ovary(2)	2						CACACGAGGCGCTATCTTAAT	0.647													29	64					0	0	1	0	0		A	13525045	A	A	13525045	3	1	103	1	0	0	0	0	1	0	0	0	7022	1087	38	1	243	1	HDAC11	3	13525045	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1918763	13525045	184497385	336	62285											
FGD5	152273	broad.mit.edu	37	chr3	14861510	14861510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaagaagtggcagccgccaCcctggaggaccatgcacagg	11	3	13	14	1	0	1	0	0	0	1	0	3	0	3	5	4	2	2	5	4	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:14861510C>T	uc003bzc.2	+	1	1042	c.932C>T	c.(931-933)ACC>ATC	p.T311I	FGD5_uc011avk.1_Missense_Mutation_p.T311I	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	311	Glu-rich.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						GCAGCCGCCACCCTGGAGGAC	0.567													30	49					0	0	1	0	0		T	14861510	T	T	14861510	3	4	103	1	0	0	0	0	1	0	0	0	5850	507	18	4	934	4	FGD5	3	14861510	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1336465	14861510	183160920	337	62286											
NR2C2	7182	broad.mit.edu	37	chr3	15062331	15062331	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtgtgaggaaaaatttgAcctacagctgccggagcaac	13	7	13	8	1	0	2	0	2	0	0	0	5	0	5	2	3	5	2	2	3	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:15062331A>G	uc003bzj.3	+	5	665	c.448A>G	c.(448-450)ACC>GCC	p.T150A	NR2C2_uc003bzi.2_Missense_Mutation_p.T169A	NM_003298	NP_003289	P49116	NR2C2_HUMAN	nuclear receptor subfamily 2, group C, member 2	150	Nuclear receptor.				cell differentiation|nervous system development|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						GAAAAATTTGACCTACAGCTG	0.448													32	58					0	0	1	0	0		G	15062331	G	G	15062331	3	3	103	1	0	0	0	0	1	0	0	0	10642	275	10	3	523	3	NR2C2	3	15062331	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	200821	15062331	182960099	338	62287											
ZFYVE20	64145	broad.mit.edu	37	chr3	15119589	15119589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatggaccttaccttaaagCgtctatcagctcatacactt	12	13	5	11	1	3	0	2	0	1	0	3	1	3	1	2	1	4	1	2	1	6	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:15119589C>T	uc003bzm.1	-	11	1605	c.991G>A	c.(991-993)GCT>ACT	p.A331T	ZFYVE20_uc010hek.1_Missense_Mutation_p.A331T	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	331	Necessary for the interaction with RAB4A.|Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						TACCTTAAAGCGTCTATCAGC	0.493													19	33					0	0	1	0	0		T	15119589	T	T	15119589	3	4	103	1	0	0	0	0	1	0	0	0	17691	768	27	1	1379	1	ZFYVE20	3	15119589	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	57258	15119589	182902841	339	62288											
ANKRD28	23243	broad.mit.edu	37	chr3	15737709	15737709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgtatccttgcttatcacGgatccctggatttgcatcgt	6	16	9	10	2	1	0	1	0	0	0	4	2	3	2	2	2	2	4	2	2	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:15737709G>A	uc003caj.1	-	15	1644	c.1501C>T	c.(1501-1503)CGT>TGT	p.R501C	ANKRD28_uc003cai.1_Missense_Mutation_p.R347C|ANKRD28_uc011avz.1_Missense_Mutation_p.R347C|ANKRD28_uc003cak.1_RNA|ANKRD28_uc011awa.1_RNA|ANKRD28_uc003cal.1_Missense_Mutation_p.R531C|ANKRD28_uc003cam.2_Missense_Mutation_p.R534C	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28	501						nucleoplasm	protein binding			breast(1)	1						TGCTTATCACGGATCCCTGGA	0.383													5	1					0	0	1	0	0		A	15737709	A	A	15737709	3	1	103	1	0	0	0	0	1	0	0	0	656	1116	39	1	1716	1	ANKRD28	3	15737709	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	618120	15737709	182284721	340	62289											
SATB1	6304	broad.mit.edu	37	chr3	18393620	18393620	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accttcggatcatggagaggTtctcccacagggttctgttt	7	13	11	10	1	3	1	1	0	2	1	5	3	3	2	2	4	0	3	2	4	0	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:18393620T>C	uc003cbh.2	-	10	3378	c.1643A>G	c.(1642-1644)AAC>AGC	p.N548S	SATB1_uc003cbi.2_Missense_Mutation_p.N548S|SATB1_uc003cbj.2_Missense_Mutation_p.N548S	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	548	CUT 2.				cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						CATGGAGAGGTTCTCCCACAG	0.517													38	48					0	0	1	0	0		C	18393620	C	C	18393620	3	2	103	1	0	0	0	0	1	0	0	0	13878	1725	60	3	656	3	SATB1	3	18393620	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2655911	18393620	179628810	341	62290											
TOP2B	7155	broad.mit.edu	37	chr3	25674015	25674015	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgttttccttagtctgAgaatcaaaagttggattttc	10	17	8	6	0	3	1	2	1	1	1	5	3	4	2	1	1	0	2	1	1	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:25674015A>C	uc011awn.1	-	10	1231	c.1188T>G	c.(1186-1188)TCT>TCG	p.S396S	TOP2B_uc003cdj.2_Silent_p.S391S	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	396					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						CCTTAGTCTGAGAATCAAAAG	0.318													5	5					0	0	1	0	0		C	25674015	C	C	25674015	2	2	103	1	0	0	0	0	0	0	0	1	16392	291	11	5		5	TOP2B	3	25674015	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	7280395	25674015	172348415	342	62291											
EOMES	8320	broad.mit.edu	37	chr3	27759208	27759208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccgggaagaaggattgaaCgccgtaccgacctccaggga	11	5	13	12	4	0	2	0	1	0	1	2	6	2	5	5	3	2	1	5	3	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:27759208C>T	uc003cdx.2	-	6	1414	c.1414G>A	c.(1414-1416)GTT>ATT	p.V472I	EOMES_uc003cdy.3_Missense_Mutation_p.V491I|EOMES_uc010hfn.2_3'UTR|EOMES_uc011axc.1_Missense_Mutation_p.V196I	NM_005442	NP_005433	O95936	EOMES_HUMAN	eomesodermin	472					CD8-positive, alpha-beta T cell differentiation involved in immune response|cell differentiation involved in embryonic placenta development|endoderm formation|mesoderm formation|mesodermal to mesenchymal transition involved in gastrulation|positive regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|breast(1)	4						AAGGATTGAACGCCGTACCGA	0.507													31	62					0	0	1	0	0		T	27759208	T	T	27759208	3	4	103	1	0	0	0	0	1	0	0	0	5155	536	19	1	650	1	EOMES	3	27759208	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2085193	27759208	170263222	343	62292											
AZI2	64343	broad.mit.edu	37	chr3	28379465	28379465	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtcctcagctggaggagTtctacttctttagattgtag	7	16	10	8	0	4	1	1	0	3	1	5	3	5	3	1	2	2	3	1	2	3	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:28379465T>C	uc003ceb.2	-	4	934	c.402A>G	c.(400-402)GAA>GAG	p.E134E	AZI2_uc003cec.2_Silent_p.E22E|AZI2_uc003ced.2_Silent_p.E134E|AZI2_uc003cee.3_Silent_p.E134E|AZI2_uc003ceg.2_Silent_p.E134E|AZI2_uc011axd.1_Silent_p.E134E|AZI2_uc003cef.2_Silent_p.E134E	NM_022461	NP_071906	Q9H6S1	AZI2_HUMAN	5-azacytidine induced 2 isoform a	134	Potential.					mitochondrion|plasma membrane				ovary(2)	2						GCTGGAGGAGTTCTACTTCTT	0.328													24	29					0	0	1	0	0		C	28379465	C	C	28379465	2	2	103	1	0	0	0	0	0	0	0	1	1242	1722	60	3		3	AZI2	3	28379465	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	620257	28379465	169642965	344	62293											
DYNC1LI1	51143	broad.mit.edu	37	chr3	32568309	32568309	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaagaagcttctccttcCgtaggagatgtaggtgttgt	8	14	11	8	1	2	2	1	0	1	2	4	3	3	2	2	2	1	4	2	2	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:32568309C>T	uc003cfb.3	-	13	1642	c.1554G>A	c.(1552-1554)ACG>ACA	p.T518T	DYNC1LI1_uc011axh.1_Silent_p.T402T	NM_016141	NP_057225	Q9Y6G9	DC1L1_HUMAN	dynein, cytoplasmic 1, light intermediate chain	518					cell division|interspecies interaction between organisms|mitosis|positive regulation of mitotic cell cycle spindle assembly checkpoint|transport	centrosome|condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|plasma membrane|spindle pole	ATP binding|motor activity			ovary(1)	1						CTTCTCCTTCCGTAGGAGATG	0.398													33	62					0	0	1	0	0		T	32568309	T	T	32568309	2	4	103	1	0	0	0	0	0	0	0	1	4850	639	23	1		1	DYNC1LI1	3	32568309	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4188844	32568309	165454121	345	62294											
ARPP21	10777	broad.mit.edu	37	chr3	35785437	35785437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaggagtcaacagatgcCacaggcagcacagcaagcag	15	3	12	11	0	2	2	2	0	0	2	2	3	2	3	1	2	5	4	1	2	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:35785437C>T	uc003cgb.2	+	18	2276	c.2012C>T	c.(2011-2013)CCA>CTA	p.P671L	ARPP21_uc003cga.2_Missense_Mutation_p.P652L|ARPP21_uc011axy.1_Missense_Mutation_p.P672L|ARPP21_uc003cgf.2_Missense_Mutation_p.P507L|ARPP21_uc003cgg.2_Missense_Mutation_p.P194L|uc011axz.1_5'Flank|MIR128-2_hsa-mir-128-2|MI0000727_5'Flank	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	671	Gln-rich.					cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						CAACAGATGCCACAGGCAGCA	0.493													41	63					0	0	1	0	0		T	35785437	T	T	35785437	3	4	103	1	0	0	0	0	1	0	0	0	979	594	21	4	2087	4	ARPP21	3	35785437	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3217128	35785437	162236993	346	62295											
DCLK3	85443	broad.mit.edu	37	chr3	36759553	36759553	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aactcaaagtggcccagctgGatgatgttaaagagctcgtc	12	9	11	9	1	1	2	1	1	0	1	3	3	1	3	1	2	3	3	1	2	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:36759553G>T	uc003cgi.2	-	4	2192	c.1701C>A	c.(1699-1701)ATC>ATA	p.I567I		NM_033403	NP_208382	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	567	Protein kinase.					cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			lung(3)|large_intestine(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	9						GGCCCAGCTGGATGATGTTAA	0.552													61	104					1.64573e-32	1.78201e-32	1	1	0		T	36759553	T	T	36759553	2	4	103	1	0	0	0	0	0	0	0	1	4296	1164	41	5		5	DCLK3	3	36759553	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	974116	36759553	161262877	347	62296											
TRANK1	9881	broad.mit.edu	37	chr3	36897812	36897812	+	Frame_Shift_Del	DEL	T	-	-																															cttcctcgtcctcttcctccTcctcttcctccccacctgga																								rs11712950	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:36897812delT	uc003cgj.2	-	3	1921	c.1619delA	c.(1618-1620)GAGfs	p.E540fs		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1090	Glu-rich.				DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						ctcttcctcctcctcttcctc	0.433													7	3	---	---	---	---						.	-	36897812	-	-	36897812	7	5	103	1	0	1	0	1	0	0	0	0	16480	1551	54	0	5556	0	TRANK1	3	36897812	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	138259	36897812	161124618	348	62297											
PLCD1	5333	broad.mit.edu	37	chr3	38049344	38049344	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacatgaggtggacatggcGgtatcctggtgggtggacag	9	8	18	6	1	0	2	0	1	0	1	1	4	1	4	1	7	0	1	1	7	1	1	rs142785779	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:38049344G>A	uc003chn.2	-	15	2315	c.2191C>T	c.(2191-2193)CGC>TGC	p.R731C	PLCD1_uc003chm.2_Missense_Mutation_p.R752C	NM_006225	NP_006216	P51178	PLCD1_HUMAN	phospholipase C, delta 1 isoform 2	731					intracellular signal transduction|lipid catabolic process|phospholipid metabolic process	cytoplasm	calcium ion binding|GTPase activating protein binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		TGGACATGGCGGTATCCTGGT	0.617													9	21					0	0	1	0	0		A	38049344	A	A	38049344	3	1	103	1	0	0	0	0	1	0	0	0	12050	1116	39	1	83	1	PLCD1	3	38049344	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1151532	38049344	159973086	349	62298											
ZNF619	285267	broad.mit.edu	37	chr3	40528461	40528461	+	Frame_Shift_Del	DEL	A	-	-																															agctacatgatacagggaatAaaacaaagataggggattgc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:40528461delA	uc011azb.1	+	6	858	c.580delA	c.(580-582)AAAfs	p.K194fs	ZNF619_uc010hhz.2_Frame_Shift_Del_p.K145fs|ZNF619_uc003ckj.2_Frame_Shift_Del_p.K138fs|ZNF619_uc011azc.1_Frame_Shift_Del_p.K154fs|ZNF619_uc011azd.1_Frame_Shift_Del_p.K110fs|ZNF619_uc011aza.1_Frame_Shift_Del_p.K96fs	NM_001145082	NP_001138554	E9PCD9	E9PCD9_HUMAN	zinc finger protein 619 isoform 1	194					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		TACAGGGAATAAAACAAAGAT	0.473													42	57	---	---	---	---						.	-	40528461	-	-	40528461	7	5	103	1	0	1	0	1	0	0	0	0	18068	363	13	0	620	0	ZNF619	3	40528461	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	2479117	40528461	157493969	350	62299											
ULK4	54986	broad.mit.edu	37	chr3	41938397	41938397	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggagattcagcttggctcGggaggcccccatgctcttct	7	10	12	12	1	3	1	1	0	2	1	4	3	3	2	2	4	2	3	2	4	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:41938397G>A	uc003ckv.3	-	15	1648	c.1447C>T	c.(1447-1449)CGA>TGA	p.R483*	ULK4_uc003ckw.2_Nonsense_Mutation_p.R483*|ULK4_uc003ckx.1_Nonsense_Mutation_p.R483*	NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	483							ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		AGCTTGGCTCGGGAGGCCCCC	0.512													37	76					0	0	1	0	0		A	41938397	A	A	41938397	4	1	103	1	0	0	0	0	0	1	0	0	17004	1124	39	1	2472	1	ULK4	3	41938397	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1409936	41938397	156084033	351	62300											
NKTR	4820	broad.mit.edu	37	chr3	42680001	42680001	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaacccacaaccaagtcGtccacaaatacttcactgcc	14	7	4	16	1	2	0	2	0	0	0	4	0	3	0	4	0	4	0	4	0	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:42680001G>A	uc003clo.2	+	13	2952	c.2805G>A	c.(2803-2805)TCG>TCA	p.S935S	NKTR_uc003clm.1_Silent_p.S682S|NKTR_uc003clp.2_Silent_p.S682S|NKTR_uc011azp.1_Intron|NKTR_uc003clq.1_Silent_p.S825S|NKTR_uc003clr.1_Silent_p.S682S|NKTR_uc003cls.2_Silent_p.S635S	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	935					protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		CAACCAAGTCGTCCACAAATA	0.458													22	34					0	0	1	0	0		A	42680001	A	A	42680001	2	1	103	1	0	0	0	0	0	0	0	1	10467	1132	40	1		1	NKTR	3	42680001	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	741604	42680001	155342429	352	62301											
ANO10	55129	broad.mit.edu	37	chr3	43647331	43647331	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaagtatccaaagctgatAaggtcactttcatctttgac	13	12	7	9	0	3	3	2	2	1	1	4	3	4	3	1	1	1	2	1	1	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:43647331A>G	uc003cmv.2	-	2	185	c.14T>C	c.(13-15)TTA>TCA	p.L5S	ANO10_uc011azs.1_Missense_Mutation_p.L5S|ANO10_uc003cmw.2_Missense_Mutation_p.L5S|ANO10_uc010hil.2_Missense_Mutation_p.L5S|ANO10_uc011azt.1_Missense_Mutation_p.L5S	NM_018075	NP_060545	Q9NW15	ANO10_HUMAN	transmembrane protein 16K	5	Cytoplasmic (Potential).				cell death	chloride channel complex	chloride channel activity			ovary(2)	2						CAAAGCTGATAAGGTCACTTT	0.353													8	35					0	0	1	0	0		G	43647331	G	G	43647331	3	3	103	1	0	0	0	0	1	0	0	0	696	372	13	3	2016	3	ANO10	3	43647331	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	967330	43647331	154375099	353	62302											
XCR1	2829	broad.mit.edu	37	chr3	46063377	46063377	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaggcctggttctcacaCggctggctctgaaggtcata	8	9	11	13	1	3	1	2	1	2	0	4	1	3	1	2	5	0	3	2	5	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:46063377C>T	uc003cpe.2	-	3	287	c.63G>A	c.(61-63)CCG>CCA	p.P21P	uc003cpd.1_5'Flank|XCR1_uc003cpf.2_Silent_p.P21P	NM_005283	NP_005274	P46094	XCR1_HUMAN	XC chemokine receptor 1	21	Extracellular (Potential).				chemotaxis|G-protein signaling, coupled to cyclic nucleotide second messenger|inflammatory response	integral to plasma membrane	chemokine receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		GGTTCTCACACGGCTGGCTCT	0.552													33	47					0	0	1	0	0		T	46063377	T	T	46063377	2	4	103	1	0	0	0	0	0	0	0	1	17451	523	19	1		1	XCR1	3	46063377	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2416046	46063377	151959053	354	62303											
LRRC2	79442	broad.mit.edu	37	chr3	46563024	46563024	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taacccacctctttctttaaGgtcttcaatataggctttca	10	16	4	11	0	5	0	2	0	3	0	5	0	5	0	2	2	1	1	2	2	5	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:46563024G>T	uc010hji.2	-	8	1418	c.1054C>A	c.(1054-1056)CTT>ATT	p.L352I	LRRC2_uc003cpu.3_Missense_Mutation_p.L352I	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2	352										ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		CTTTCTTTAAGGTCTTCAATA	0.308													9	14					3.09899e-07	3.18111e-07	1	1	0		T	46563024	T	T	46563024	3	4	103	1	0	0	0	0	1	0	0	0	8994	1000	35	5	69	5	LRRC2	3	46563024	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	499647	46563024	151459406	355	62304											
NBEAL2	23218	broad.mit.edu	37	chr3	47042816	47042816	+	Frame_Shift_Del	DEL	C	-	-																															cctgaccgacatcaaagaggCccccgtgggggtcctggcca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:47042816delC	uc003cqp.2	+	29	4711	c.4532delC	c.(4531-4533)GCCfs	p.A1511fs	NBEAL2_uc010hjm.1_Frame_Shift_Del_p.A888fs|NBEAL2_uc010hjn.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1511							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		ATCAAAGAGGCCCCCGTGGGG	0.607													27	53	---	---	---	---						.	-	47042816	-	-	47042816	7	5	103	1	0	1	0	1	0	0	0	0	10207	739	26	0	4646	0	NBEAL2	3	47042816	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	479792	47042816	150979614	356	62305											
SETD2	29072	broad.mit.edu	37	chr3	47139450	47139450	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaatgcaaacttactgaatCcttcttacgagatcgttcct	13	13	5	10	2	1	2	0	1	1	1	4	3	3	2	2	0	4	2	2	0	6	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:47139450C>A	uc003cqs.2	-	9	5190	c.5137G>T	c.(5137-5139)GAT>TAT	p.D1713Y	SETD2_uc003cqv.2_Missense_Mutation_p.D1780Y	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1713					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		CTTACTGAATCCTTCTTACGA	0.418			N|F|S|Mis		clear cell renal carcinoma								32	55					3.11337e-16	3.31179e-16	1	1	0		A	47139450	A	A	47139450	3	1	103	1	0	0	0	0	1	0	0	0	14156	855	30	5	2609	5	SETD2	3	47139450	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	96634	47139450	150882980	357	62306											
SETD2	29072	broad.mit.edu	37	chr3	47163427	47163427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagatgtgttctctccgCatttcaagagagttagactg	9	13	11	8	1	2	3	1	0	1	3	4	5	3	3	1	1	0	3	1	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:47163427C>T	uc003cqs.2	-	3	2752	c.2699G>A	c.(2698-2700)TGC>TAC	p.C900Y	SETD2_uc003cqv.2_Missense_Mutation_p.C889Y	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	900					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		GTTCTCTCCGCATTTCAAGAG	0.388			N|F|S|Mis		clear cell renal carcinoma								37	49					0	0	1	0	0		T	47163427	T	T	47163427	3	4	103	1	0	0	0	0	1	0	0	0	14156	710	25	2	5071	2	SETD2	3	47163427	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	23977	47163427	150859003	358	62307											
SMARCC1	6599	broad.mit.edu	37	chr3	47629765	47629765	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccatctgcaggtggtggTggcggtggctgctgctgtgg	3	10	18	10	1	1	0	0	0	1	0	1	0	1	0	2	7	3	4	2	7	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:47629765T>C	uc003crq.2	-	28	3370	c.3252A>G	c.(3250-3252)CCA>CCG	p.P1084P	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Silent_p.P975P	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	1084	Pro-rich.				chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		CAGGTGGTGGTGGCGGTGGCT	0.587													21	28					0	0	1	0	0		C	47629765	C	C	47629765	2	2	103	1	0	0	0	0	0	0	0	1	14800	1683	59	3		3	SMARCC1	3	47629765	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	466338	47629765	150392665	359	62308											
NME6	10201	broad.mit.edu	37	chr3	48336187	48336187	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacctccctctgggctataGcacacagggccacagcgcaa	11	5	9	16	1	1	0	0	0	1	0	2	0	2	0	3	2	2	3	3	2	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:48336187G>A	uc003csp.3	-	6	552	c.501C>T	c.(499-501)TGC>TGT	p.C167C	NME6_uc003cso.2_Silent_p.C175C|NME6_uc011bbh.1_Missense_Mutation_p.A154V|NME6_uc010hju.2_Silent_p.C69C|NME6_uc011bbi.1_Silent_p.C100C	NM_005793	NP_005784	O75414	NDK6_HUMAN	nucleoside diphosphate kinase type 6	167					anti-apoptosis|apoptosis|CTP biosynthetic process|GTP biosynthetic process|negative regulation of cell growth|negative regulation of mitosis|UTP biosynthetic process	mitochondrion	ATP binding|metal ion binding|nucleoside diphosphate kinase activity				0				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00609)		CTGGGCTATAGCACACAGGGC	0.562													8	86					0	0	1	0	0		A	48336187	A	A	48336187	2	1	103	1	0	0	0	0	0	0	0	1	10514	963	34	2		2	NME6	3	48336187	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	706422	48336187	149686243	360	62309											
CELSR3	1951	broad.mit.edu	37	chr3	48682920	48682920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagcaggaagaggagctctgCcacccccagggcggctgcca	9	3	14	15	1	1	1	0	0	1	1	1	3	1	3	4	4	4	3	4	4	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:48682920C>T	uc003cul.2	-	24	8034	c.7753G>A	c.(7753-7755)GCA>ACA	p.A2585T	CELSR3_uc003cuf.1_Missense_Mutation_p.A2655T|CELSR3_uc010hkf.2_5'Flank|CELSR3_uc010hkg.2_Missense_Mutation_p.A568T	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	2585	Helical; Name=2; (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AGGAGCTCTGCCACCCCCAGG	0.632													26	51					0	0	1	0	0		T	48682920	T	T	48682920	3	4	103	1	0	0	0	0	1	0	0	0	3226	739	26	2	2233	2	CELSR3	3	48682920	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	346733	48682920	149339510	361	62310											
CELSR3	1951	broad.mit.edu	37	chr3	48699541	48699543	+	In_Frame_Del	DEL	AAA	-	-																															tgggaccgtggtgccgaatcAaaaagtctgaagggaggggc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:48699541_48699543delAAA	uc003cul.2	-	1	806_808	c.525_527delTTT	c.(523-528)TTTTTG>TTG	p.F175del	CELSR3_uc003cuf.1_In_Frame_Del_p.F245del	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	175	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GTGCCGAATCAAAAAGTCTGAAG	0.645													42	97	---	---	---	---						.	-	48699543	-	-	48699541	7	5	103	1	0	1	0	1	0	0	0	0	3226	131	5	0	9551	0	CELSR3	3	48699541	In_Frame_Del	DEL	AAA	TCGA-BR-A4QL-01A-31D-A25D-08	16621	48699541	149322889	362	62311											
IP6K2	51447	broad.mit.edu	37	chr3	48726979	48726980	+	Frame_Shift_Del	DEL	CA	-	-																															catccccctcacctgcatgcCacacacacgcacaccaatga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:48726979_48726980delCA	uc003cup.2	-	5	1015_1016	c.771_772delTG	c.(769-774)TGTGGCfs	p.C257fs	IP6K2_uc003cuq.2_Frame_Shift_Del_p.C257fs	NM_001005909	NP_001005909	Q9UHH9	IP6K2_HUMAN	inositol hexaphosphate kinase 2 isoform a	257_258					negative regulation of cell growth|phosphatidylinositol phosphorylation|positive regulation of apoptosis|type I interferon-mediated signaling pathway	intermediate filament cytoskeleton|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						ACCTGCATGCCACACACACGCA	0.525													31	56	---	---	---	---						.	-	48726980	-	-	48726979	7	5	103	1	0	1	0	1	0	0	0	0	7805	594	21	0	516	0	IP6K2	3	48726979	Frame_Shift_Del	DEL	CA	TCGA-BR-A4QL-01A-31D-A25D-08	27438	48726979	149295451	363	62312											
USP19	10869	broad.mit.edu	37	chr3	49156569	49156569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcctgtggcactggcccCgccagacatcttgagccgct	5	8	13	15	2	1	2	0	1	1	1	1	2	1	2	5	3	1	2	5	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:49156569C>T	uc003cwd.1	-	2	171	c.10G>A	c.(10-12)GGG>AGG	p.G4R	USP19_uc003cwa.2_5'Flank|USP19_uc003cvz.3_Missense_Mutation_p.G4R|USP19_uc011bcg.1_Missense_Mutation_p.G4R|USP19_uc003cwb.2_Missense_Mutation_p.G4R|USP19_uc003cwc.1_5'Flank|USP19_uc011bch.1_Missense_Mutation_p.G4R|USP19_uc011bci.1_Missense_Mutation_p.G4R	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	4	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GCACTGGCCCCGCCAGACATC	0.632													28	57					0	0	1	0	0		T	49156569	T	T	49156569	3	4	103	1	0	0	0	0	1	0	0	0	17076	652	23	1	4046	1	USP19	3	49156569	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	429590	49156569	148865861	364	62313											
LAMB2	3913	broad.mit.edu	37	chr3	49162267	49162267	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcaggatccattgggtcAatgttcccactgcactcaca	10	10	8	13	0	3	0	3	0	0	0	5	1	5	1	2	2	1	3	2	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:49162267A>G	uc003cwe.2	-	21	3275	c.2976T>C	c.(2974-2976)ATT>ATC	p.I992I	LAMB2_uc003cwf.1_Silent_p.I992I	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	992	Laminin EGF-like 10.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CCATTGGGTCAATGTTCCCAC	0.617													7	53					0	0	1	0	0		G	49162267	G	G	49162267	2	3	103	1	0	0	0	0	0	0	0	1	8627	126	5	3		3	LAMB2	3	49162267	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	5698	49162267	148860163	365	62314											
BSN	8927	broad.mit.edu	37	chr3	49698693	49698693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagtccccgctgatagcCgtgccccactgcagaagcca	8	7	9	17	2	0	2	0	1	0	1	2	2	2	2	7	0	4	2	7	0	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:49698693C>T	uc003cxe.3	+	6	9529	c.9415C>T	c.(9415-9417)CGT>TGT	p.R3139C		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	3139					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CGCTGATAGCCGTGCCCCACT	0.612													22	43					0	0	1	0	0		T	49698693	T	T	49698693	3	4	103	1	0	0	0	0	1	0	0	0	1533	652	23	1	9437	1	BSN	3	49698693	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	536426	49698693	148323737	366	62315											
MST1	4485	broad.mit.edu	37	chr3	49722763	49722763	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accacgcgcagcttggaacgCcgctgatccagccgatccac	9	5	10	17	5	0	1	0	1	0	0	2	3	2	2	5	1	3	3	5	1	1	1	rs3882323		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:49722763C>A	uc003cxg.2	-	13	1548	c.1476G>T	c.(1474-1476)CGG>CGT	p.R492R		NM_020998	NP_066278	P26927	HGFL_HUMAN	macrophage stimulating 1 (hepatocyte growth	478					proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GCTTGGAACGCCGCTGATCCA	0.602													3	39					0.150653	0.151095	1	1	0		A	49722763	A	A	49722763	2	1	103	1	0	0	0	0	0	0	0	1	9908	726	26	5		5	MST1	3	49722763	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	24070	49722763	148299667	367	62316											
GMPPB	29925	broad.mit.edu	37	chr3	49760113	49760113	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacacctgtggcttctccacGaaccggtgaatgcggcctgt	8	9	11	13	3	1	1	0	1	1	0	2	2	1	1	4	3	3	1	4	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:49760113G>A	uc003cxk.1	-	5	702	c.477C>T	c.(475-477)TTC>TTT	p.F159F	AMIGO3_uc003cxj.2_5'Flank|GMPPB_uc003cxl.1_Silent_p.F159F	NM_021971	NP_068806	Q9Y5P6	GMPPB_HUMAN	GDP-mannose pyrophosphorylase B isoform 2	159					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GCTTCTCCACGAACCGGTGAA	0.572													15	26					0	0	1	0	0		A	49760113	A	A	49760113	2	1	103	1	0	0	0	0	0	0	0	1	6510	1049	37	1		1	GMPPB	3	49760113	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	37350	49760113	148262317	368	62317											
TRAIP	10293	broad.mit.edu	37	chr3	49866635	49866635	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgggcttaacaggcaaTgggcggatcatgactgtgtc	8	11	14	8	1	2	1	1	1	1	0	3	2	2	2	0	4	1	2	0	4	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:49866635T>C	uc003cxs.1	-	15	1417	c.1311A>G	c.(1309-1311)CCA>CCG	p.P437P	TRAIP_uc010hla.1_Silent_p.P338P	NM_005879	NP_005870	Q9BWF2	TRAIP_HUMAN	TRAF interacting protein	437	Interaction with CYLD.				cell proliferation|induction of apoptosis	perinuclear region of cytoplasm	protein binding|zinc ion binding			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TAACAGGCAATGGGCGGATCA	0.552													35	70					0	0	1	0	0		C	49866635	C	C	49866635	2	2	103	1	0	0	0	0	0	0	0	1	16474	1451	51	3		3	TRAIP	3	49866635	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	106522	49866635	148155795	369	62318											
CAMKV	79012	broad.mit.edu	37	chr3	49898957	49898957	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgttgcttgtgtctcgcTccgagtagtagccctggtcc	4	12	11	14	3	1	0	0	0	1	0	4	1	3	0	4	1	2	5	4	1	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:49898957T>C	uc003cxt.1	-	5	549	c.356A>G	c.(355-357)GAG>GGG	p.E119G	CAMKV_uc011bcy.1_Missense_Mutation_p.E44G|CAMKV_uc003cxv.1_Missense_Mutation_p.E119G|CAMKV_uc003cxw.1_5'UTR|CAMKV_uc003cxx.1_5'UTR|CAMKV_uc003cxu.2_Missense_Mutation_p.E119G|CAMKV_uc011bcz.1_Missense_Mutation_p.E82G|CAMKV_uc011bda.1_Intron|CAMKV_uc011bdb.1_RNA	NM_024046	NP_076951	Q8NCB2	CAMKV_HUMAN	CaM kinase-like vesicle-associated	119	Protein kinase.					cytoplasmic vesicle membrane|plasma membrane	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|large_intestine(2)|central_nervous_system(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		TGTGTCTCGCTCCGAGTAGTA	0.607													5	67					0	0	1	0	0		C	49898957	C	C	49898957	3	2	103	1	0	0	0	0	1	0	0	0	2611	1551	54	3	1177	3	CAMKV	3	49898957	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	32322	49898957	148123473	370	62319											
ZMYND10	51364	broad.mit.edu	37	chr3	50381254	50381254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcttccacatctccactgCgatcagctcctccaccagtg	7	10	6	18	1	2	0	1	0	1	0	6	1	5	0	5	0	3	2	5	0	0	1	rs146847253	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:50381254C>T	uc003dag.1	-	3	375	c.229G>A	c.(229-231)GCA>ACA	p.A77T	RASSF1_uc003dad.1_5'Flank|RASSF1_uc003dae.1_5'Flank|RASSF1_uc010hlk.1_5'Flank|RASSF1_uc003daf.1_5'Flank|RASSF1_uc011bdq.1_5'Flank|ZMYND10_uc010hll.1_Missense_Mutation_p.A77T|ZMYND10_uc003dah.1_5'UTR|ZMYND10_uc010hlm.1_Missense_Mutation_p.A34T	NM_015896	NP_056980	O75800	ZMY10_HUMAN	zinc finger, MYND domain-containing 10	77						cytoplasm	protein binding|zinc ion binding			lung(4)|ovary(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		ATCTCCACTGCGATCAGCTCC	0.582										TSP Lung(30;0.18)			27	50					0	0	1	0	0		T	50381254	T	T	50381254	3	4	103	1	0	0	0	0	1	0	0	0	17730	768	27	1	1133	1	ZMYND10	3	50381254	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	482297	50381254	147641176	371	62320											
RBM15B	29890	broad.mit.edu	37	chr3	51429992	51429992	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctcaagttccagaacctgGacatggcccatagggctaag	11	8	10	12	0	1	1	1	0	0	1	3	2	3	2	4	3	1	2	4	3	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:51429992G>T	uc003dbd.2	+	1	1262	c.1162G>T	c.(1162-1164)GAC>TAC	p.D388Y		NM_013286	NP_037418	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	388	RRM 2.				interspecies interaction between organisms|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleoplasm	nucleotide binding|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CCAGAACCTGGACATGGCCCA	0.582													19	28					8.28177e-16	8.7959e-16	1	1	0		T	51429992	T	T	51429992	3	4	103	1	0	0	0	0	1	0	0	0	13142	1174	41	5	1164	5	RBM15B	3	51429992	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1048738	51429992	146592438	372	62321											
VPRBP	9730	broad.mit.edu	37	chr3	51475715	51475715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atcaagatgaaaggagatctCcatgtctccagaagcttcct	13	10	8	10	0	3	4	1	1	2	3	6	5	4	4	3	1	1	1	3	1	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:51475715C>T	uc003dbe.1	-	8	880	c.712G>A	c.(712-714)GAG>AAG	p.E238K	VPRBP_uc003dbg.1_Missense_Mutation_p.E238K	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	238					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		AAGGAGATCTCCATGTCTCCA	0.463													104	145					0	0	1	0	0		T	51475715	T	T	51475715	3	4	103	1	0	0	0	0	1	0	0	0	17211	864	30	4	3720	4	VPRBP	3	51475715	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	45723	51475715	146546715	373	62322											
RAD54L2	23132	broad.mit.edu	37	chr3	51677945	51677945	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggcttattaatcagttcaAtgatcccagcaacctcacca	12	10	6	13	1	3	1	3	1	0	0	4	1	4	1	3	1	2	3	3	1	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:51677945A>G	uc011bdt.1	+	15	2530	c.2405A>G	c.(2404-2406)AAT>AGT	p.N802S	RAD54L2_uc003dbh.2_Missense_Mutation_p.N391S|RAD54L2_uc011bdu.1_Missense_Mutation_p.N496S|RAD54L2_uc003dbj.2_Missense_Mutation_p.N128S	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	802	Helicase C-terminal.					nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		AATCAGTTCAATGATCCCAGC	0.507													5	12					0	0	1	0	0		G	51677945	G	G	51677945	3	3	103	1	0	0	0	0	1	0	0	0	13019	101	4	3	2459	3	RAD54L2	3	51677945	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	202230	51677945	146344485	374	62323											
RAD54L2	23132	broad.mit.edu	37	chr3	51680401	51680401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagctatgaggaagacaaacGcacatcagtcccctataccc	15	6	7	13	1	1	2	1	1	0	1	2	3	2	3	3	1	3	2	3	1	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:51680401G>A	uc011bdt.1	+	18	3055	c.2930G>A	c.(2929-2931)CGC>CAC	p.R977H	RAD54L2_uc003dbh.2_Missense_Mutation_p.R566H|RAD54L2_uc011bdu.1_Missense_Mutation_p.R671H|RAD54L2_uc003dbj.2_Missense_Mutation_p.R303H	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	977						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		GAAGACAAACGCACATCAGTC	0.512													12	7					0	0	1	0	0		A	51680401	A	A	51680401	3	1	103	1	0	0	0	0	1	0	0	0	13019	1087	38	1	2996	1	RAD54L2	3	51680401	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2456	51680401	146342029	375	62324											
TLR9	54106	broad.mit.edu	37	chr3	52255992	52255992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggctgggcagaccgggcacGgcagcctgcacctccagcag	7	3	15	16	3	0	1	0	0	0	1	1	1	1	1	4	4	3	6	4	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:52255992G>A	uc003dda.1	-	2	2974	c.2340C>T	c.(2338-2340)GCC>GCT	p.A780A	TLR9_uc003ddb.2_Silent_p.A877A	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	780	Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	GACCGGGCACGGCAGCCTGCA	0.657													15	18					0	0	1	0	0		A	52255992	A	A	52255992	2	1	103	1	0	0	0	0	0	0	0	1	15983	1103	39	1		1	TLR9	3	52255992	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	575591	52255992	145766438	376	62325											
PPM1M	132160	broad.mit.edu	37	chr3	52281754	52281754	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagatgggcggctgcacagcCctggtggctgtgtccctgca	5	8	15	13	1	0	1	0	0	0	1	1	1	1	1	2	4	3	4	2	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:52281754C>A	uc003ddf.3	+	4	536	c.171C>A	c.(169-171)GCC>GCA	p.A57A	PPM1M_uc011bed.1_Silent_p.A218A|PPM1M_uc010hmd.2_Silent_p.A57A|PPM1M_uc003ddg.3_Silent_p.A6A|PPM1M_uc003ddh.3_5'Flank			Q96MI6	PPM1M_HUMAN	RecName: Full=Protein phosphatase 1M;          EC=3.1.3.16; AltName: Full=Protein phosphatase 2C isoform eta;          Short=PP2C-eta;          Short=PP2CE;	57	PP2C-like.				protein dephosphorylation	nucleus	CTD phosphatase activity|manganese ion binding				0				BRCA - Breast invasive adenocarcinoma(193;2.4e-05)|Kidney(197;0.00171)|KIRC - Kidney renal clear cell carcinoma(197;0.00194)		GCTGCACAGCCCTGGTGGCTG	0.647													8	5					1.12685e-05	1.15096e-05	1	1	0		A	52281754	A	A	52281754	2	1	103	1	0	0	0	0	0	0	0	1	12367	610	22	5		5	PPM1M	3	52281754	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	25762	52281754	145740676	377	62326											
DNAH1	25981	broad.mit.edu	37	chr3	52393996	52393996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagcgggcagtgctgtcagCgctaatcgtcattgaggtcc	7	9	14	11	3	2	1	2	1	0	0	4	1	3	1	1	2	3	4	1	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:52393996C>T	uc011bef.1	+	27	4733	c.4472C>T	c.(4471-4473)GCG>GTG	p.A1491V		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1491	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GTGCTGTCAGCGCTAATCGTC	0.567													48	88					0	0	1	0	0		T	52393996	T	T	52393996	3	4	103	1	0	0	0	0	1	0	0	0	4603	768	27	1	4574	1	DNAH1	3	52393996	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	112242	52393996	145628434	378	62327											
STAB1	23166	broad.mit.edu	37	chr3	52555418	52555418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccttgtagtgaccgtggcGtgtgcatggacggcatgagt	6	10	16	9	3	0	2	0	2	0	0	0	3	0	3	2	3	1	3	2	3	1	2	rs142954501		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:52555418G>A	uc003dej.2	+	56	6024	c.5950G>A	c.(5950-5952)GTG>ATG	p.V1984M	STAB1_uc003dek.1_Translation_Start_Site|STAB1_uc003del.2_Translation_Start_Site	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1984	Extracellular (Potential).|Laminin EGF-like 2.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		TGACCGTGGCGTGTGCATGGA	0.637													36	62					0	0	1	0	0		A	52555418	A	A	52555418	3	1	103	1	0	0	0	0	1	0	0	0	15262	1145	40	1	6172	1	STAB1	3	52555418	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	161422	52555418	145467012	379	62328											
SPCS1	28972	broad.mit.edu	37	chr3	52740858	52740858	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacagttcgggtggactgTctatatagttatggccggat	9	13	13	6	2	1	1	0	1	1	0	2	3	1	3	1	4	1	2	1	4	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:52740858T>G	uc011bei.1	+	3	552	c.347T>G	c.(346-348)GTC>GGC	p.V116G	GLT8D1_uc003dfj.2_5'Flank|GLT8D1_uc003dfk.2_5'Flank|GLT8D1_uc003dfl.2_5'Flank|GLT8D1_uc003dfm.2_5'Flank|GLT8D1_uc003dfn.2_5'Flank|GLT8D1_uc003dfo.1_5'Flank|GLT8D1_uc010hmm.1_5'Flank	NM_014041	NP_054760	Q9Y6A9	SPCS1_HUMAN	signal peptidase complex subunit 1 homolog	116	Helical; (Potential).				energy reserve metabolic process|regulation of insulin secretion|signal peptide processing	integral to endoplasmic reticulum membrane|microsome|signal peptidase complex	peptidase activity				0				BRCA - Breast invasive adenocarcinoma(193;6.51e-05)|Kidney(197;0.000583)|KIRC - Kidney renal clear cell carcinoma(197;0.000751)|OV - Ovarian serous cystadenocarcinoma(275;0.0469)		GGGTGGACTGTCTATATAGTT	0.428													91	124					0	0	1	0	0		G	52740858	G	G	52740858	3	3	103	1	0	0	0	0	1	0	0	0	15048	1667	58	5	357	5	SPCS1	3	52740858	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	185440	52740858	145281572	380	62329											
PRKCD	5580	broad.mit.edu	37	chr3	53215749	53215752	+	Splice_Site	DEL	GTAA	-	-																															gcaaggctacaaatgcaggcGtaagtgtctccacaggccag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:53215749_53215752delGTAA	uc003dgl.2	+	7	924	c.571_splice	c.e7+1	p.Q191_splice	PRKCD_uc003dgm.2_Splice_Site_p.Q191_splice|PRKCD_uc003dgn.2_Frame_Shift_Del_p.R191fs|PRKCD_uc010hmt.1_5'Flank	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta						activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)		AAATGCAGGCGTAAGTGTCTCCAC	0.574													31	27	---	---	---	---						.	-	53215752	-	-	53215749	8	5	103	1	0	1	0	1	0	0	1	0	12531	1159	40	0	590	0	PRKCD	3	53215749	Splice_Site	DEL	GTAA	TCGA-BR-A4QL-01A-31D-A25D-08	474891	53215749	144806681	381	62330											
CACNA1D	776	broad.mit.edu	37	chr3	53700370	53700370	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgctctgtttgcagatatCgtagctgaagaggacccagc	9	12	11	9	1	1	3	0	1	1	2	2	4	1	4	1	1	4	5	1	1	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:53700370C>T	uc003dgv.3	+	7	1087	c.924C>T	c.(922-924)ATC>ATT	p.I308I	CACNA1D_uc003dgu.3_Silent_p.I308I|CACNA1D_uc003dgy.3_Silent_p.I308I|CACNA1D_uc003dgw.3_5'UTR	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	308	Extracellular (Potential).|I.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	TTGCAGATATCGTAGCTGAAG	0.567													67	84					0	0	1	0	0		T	53700370	T	T	53700370	2	4	103	1	0	0	0	0	0	0	0	1	2544	874	31	1		1	CACNA1D	3	53700370	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	484621	53700370	144322060	382	62331											
LRTM1	57408	broad.mit.edu	37	chr3	54952736	54952736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagagttctcgctcccccGcgttgtggttctcaggaggc	5	10	12	14	3	2	1	1	0	2	1	5	2	3	2	3	3	0	4	3	3	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:54952736G>A	uc003dhl.2	-	3	922	c.788C>T	c.(787-789)GCG>GTG	p.A263V	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	263	Extracellular (Potential).					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		TCGCTCCCCCGCGTTGTGGTT	0.627													14	30					0	0	1	0	0		A	54952736	A	A	54952736	3	1	103	1	0	0	0	0	1	0	0	0	9062	1087	38	1	253	1	LRTM1	3	54952736	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1252366	54952736	143069694	383	62332											
ASB14	142686	broad.mit.edu	37	chr3	57312678	57312678	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatctggaggcagttaacCgggtcttgattaggcagagc	9	10	14	8	1	2	2	0	1	2	1	2	3	2	3	1	4	2	4	1	4	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:57312678C>T	uc003diq.2	-	8	1254	c.666G>A	c.(664-666)CCG>CCA	p.P222P	ASB14_uc003dip.1_Silent_p.P101P	NM_001142733	NP_001136205	A6NK59	ASB14_HUMAN	ankyrin repeat and SOCS box-containing 14	386	ANK 10.				intracellular signal transduction						0				KIRC - Kidney renal clear cell carcinoma(284;0.011)|Kidney(284;0.0127)		GGCAGTTAACCGGGTCTTGAT	0.488													7	57					0	0	1	0	0		T	57312678	T	T	57312678	2	4	103	1	0	0	0	0	0	0	0	1	1019	639	23	1		1	ASB14	3	57312678	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2359942	57312678	140709752	384	62333											
ATXN7	6314	broad.mit.edu	37	chr3	63938154	63938156	+	In_Frame_Del	DEL	ATT	-	-																															accgcaggcatttcaatcacAttatggtaagtgcttaacca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:63938154_63938156delATT	uc003dlw.3	+	5	1047_1049	c.494_496delATT	c.(493-498)CATTAT>CAT	p.Y166del	ATXN7_uc003dlv.2_In_Frame_Del_p.Y166del|ATXN7_uc010hnv.2_In_Frame_Del_p.Y166del	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	166					cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		TTTCAATCACATTATGGTAAGTG	0.379													22	48	---	---	---	---						.	-	63938156	-	-	63938154	7	5	103	1	0	1	0	1	0	0	0	0	1216	217	8	0	504	0	ATXN7	3	63938154	In_Frame_Del	DEL	ATT	TCGA-BR-A4QL-01A-31D-A25D-08	6625476	63938154	134084276	385	62334											
PRICKLE2	166336	broad.mit.edu	37	chr3	64133162	64133162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaattttggcactgcgcCgggactccttggccctggcg	4	10	13	14	3	0	0	0	0	0	0	1	1	1	1	4	4	2	1	4	4	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:64133162C>T	uc003dmf.2	-	7	1590	c.1004G>A	c.(1003-1005)CGG>CAG	p.R335Q		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	335						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		GGCACTGCGCCGGGACTCCTT	0.597													65	111					0	0	1	0	0		T	64133162	T	T	64133162	3	4	103	1	0	0	0	0	1	0	0	0	12509	652	23	1	1538	1	PRICKLE2	3	64133162	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	195008	64133162	133889268	386	62335											
ADAMTS9	56999	broad.mit.edu	37	chr3	64672445	64672445	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaaatagaaactgctggccGaaggcagagaggcggtaatg	14	7	14	6	2	0	2	0	0	0	2	0	4	0	2	1	4	2	3	1	4	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:64672445G>A	uc003dmg.2	-	2	347	c.315C>T	c.(313-315)TTC>TTT	p.F105F	ADAMTS9_uc011bfo.1_Silent_p.F105F|ADAMTS9_uc003dmh.1_5'UTR|ADAMTS9_uc003dmk.1_Silent_p.F105F|uc003dml.2_Intron	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	105					glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		ACTGCTGGCCGAAGGCAGAGA	0.502													15	24					0	0	1	0	0		A	64672445	A	A	64672445	2	1	103	1	0	0	0	0	0	0	0	1	273	1049	37	1		1	ADAMTS9	3	64672445	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	539283	64672445	133349985	387	62336											
KBTBD8	84541	broad.mit.edu	37	chr3	67049611	67049611	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgctgcaatcagcccttacTtcaggtatgatgatggtagg	9	13	11	8	0	2	2	2	2	0	0	2	2	2	2	1	3	4	4	1	3	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:67049611T>C	uc003dmy.2	+	2	276	c.223T>C	c.(223-225)TTC>CTC	p.F75L	KBTBD8_uc011bfv.1_Intron	NM_032505	NP_115894	Q8NFY9	KBTB8_HUMAN	T-cell activation kelch repeat protein	75	BTB.									ovary(2)|large_intestine(1)|breast(1)	4		Lung NSC(201;0.0765)		BRCA - Breast invasive adenocarcinoma(55;6.02e-06)|KIRC - Kidney renal clear cell carcinoma(39;0.105)|Kidney(39;0.125)		CAGCCCTTACTTCAGGTATGA	0.428													49	89					0	0	1	0	0		C	67049611	C	C	67049611	3	2	103	1	0	0	0	0	1	0	0	0	8015	1609	56	3	229	3	KBTBD8	3	67049611	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2377166	67049611	130972819	388	62337											
FAM19A4	151647	broad.mit.edu	37	chr3	68782295	68782295	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcacacctctctcttcgctAccgcgttacctaaaacaaat	12	10	4	15	3	2	0	0	0	2	0	4	0	2	0	3	0	4	3	3	0	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:68782295A>G	uc003dnh.1	-	6	864	c.421T>C	c.(421-423)TAG>CAG	p.*141Q	FAM19A4_uc003dni.1_Nonstop_Mutation_p.*141Q	NM_182522	NP_872328	Q96LR4	F19A4_HUMAN	family with sequence similarity 19 (chemokine	141						extracellular region				skin(2)	2		Lung NSC(201;0.0198)		BRCA - Breast invasive adenocarcinoma(55;1.38e-05)|Epithelial(33;0.000124)|LUSC - Lung squamous cell carcinoma(21;0.0248)|KIRC - Kidney renal clear cell carcinoma(39;0.0729)|Kidney(39;0.0904)		TCTCTTCGCTACCGCGTTACC	0.493													40	55					0	0	1	0	0		G	68782295	G	G	68782295	4	3	103	1	0	0	0	0	0	0	0	0	5545	404	14	3	5	3	FAM19A4	3	68782295	Nonstop_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1732684	68782295	129240135	389	62338											
TMF1	7110	broad.mit.edu	37	chr3	69097100	69097100	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatcactggtggtagaagtAcctgatgaaaaggtactaac	15	10	10	6	0	1	3	1	2	0	1	1	3	1	3	1	3	3	3	1	3	8	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:69097100A>G	uc003dnn.2	-	2	1003	c.756T>C	c.(754-756)GGT>GGC	p.G252G	TMF1_uc011bfx.1_Silent_p.G252G	NM_007114	NP_009045	P82094	TMF1_HUMAN	TATA element modulatory factor 1	252					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi membrane|nucleus	DNA binding|protein binding|transcription cofactor activity				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;4.48e-05)|Epithelial(33;0.000274)|LUSC - Lung squamous cell carcinoma(21;0.0123)|KIRC - Kidney renal clear cell carcinoma(39;0.211)|Kidney(39;0.247)		TGGTAGAAGTACCTGATGAAA	0.408													31	31					0	0	1	0	0		G	69097100	G	G	69097100	2	3	103	1	0	0	0	0	0	0	0	1	16253	378	14	3		3	TMF1	3	69097100	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	314805	69097100	128925330	390	62339											
CNTN3	5067	broad.mit.edu	37	chr3	74334537	74334537	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcccggacagccgtgtaatAggccaggttgctcttcaggc	8	8	13	12	2	2	0	1	0	1	0	2	1	2	1	3	4	3	3	3	4	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:74334537A>G	uc003dpm.1	-	19	2703	c.2623T>C	c.(2623-2625)TAT>CAT	p.Y875H		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	875	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		GCCGTGTAATAGGCCAGGTTG	0.507													73	105					0	0	1	0	0		G	74334537	G	G	74334537	3	3	103	1	0	0	0	0	1	0	0	0	3645	420	15	3	479	3	CNTN3	3	74334537	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	5237437	74334537	123687893	391	62340											
ROBO1	6091	broad.mit.edu	37	chr3	78737895	78737895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagcaacaacctggtcaCggggtttcacaacaaaatgt	15	7	8	11	1	2	0	2	0	0	0	2	0	2	0	2	3	4	2	2	3	6	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:78737895C>T	uc003dqe.2	-	9	1281	c.1073G>A	c.(1072-1074)CGT>CAT	p.R358H	ROBO1_uc003dqb.2_Missense_Mutation_p.R319H|ROBO1_uc003dqc.2_Missense_Mutation_p.R322H|ROBO1_uc003dqd.2_Missense_Mutation_p.R322H|ROBO1_uc010hoh.2_Translation_Start_Site|ROBO1_uc003dqf.1_Missense_Mutation_p.R37H	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	358	Extracellular (Potential).|Ig-like C2-type 4.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		AACCTGGTCACGGGGTTTCAC	0.428													9	12					0	0	1	0	0		T	78737895	T	T	78737895	3	4	103	1	0	0	0	0	1	0	0	0	13538	536	19	1	3974	1	ROBO1	3	78737895	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4403358	78737895	119284535	392	62341											
ROBO1	6091	broad.mit.edu	37	chr3	78796030	78796030	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgacatccgaagggttttGtctgaagtcatcccgaagta	11	11	10	9	2	2	2	1	2	1	0	4	4	4	2	2	1	0	2	2	1	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:78796030G>A	uc003dqe.2	-	5	728	c.520C>T	c.(520-522)CAA>TAA	p.Q174*	ROBO1_uc003dqb.2_Nonsense_Mutation_p.Q135*|ROBO1_uc003dqc.2_Nonsense_Mutation_p.Q135*|ROBO1_uc003dqd.2_Nonsense_Mutation_p.Q135*	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	174	Extracellular (Potential).|Ig-like C2-type 2.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		GAAGGGTTTTGTCTGAAGTCA	0.443													12	24					0	0	1	0	0		A	78796030	A	A	78796030	4	1	103	1	0	0	0	0	0	1	0	0	13538	1386	48	4	4556	4	ROBO1	3	78796030	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	58135	78796030	119226400	393	62342											
PROS1	5627	broad.mit.edu	37	chr3	93593131	93593131	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaactgatggacatgagtgAgctctaatatcattatgttt	13	14	8	6	0	2	3	1	3	1	0	2	4	2	4	0	1	2	2	0	1	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:93593131A>G	uc003drb.3	-	15	2330	c.1989T>C	c.(1987-1989)GCT>GCC	p.A663A	PROS1_uc010hoo.2_Silent_p.A532A|PROS1_uc003dqz.3_Silent_p.A532A	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	663	Laminin G-like 2.				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	GACATGAGTGAGCTCTAATAT	0.343													22	31					0	0	1	0	0		G	93593131	G	G	93593131	2	3	103	1	0	0	0	0	0	0	0	1	12580	291	11	3		3	PROS1	3	93593131	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	14797101	93593131	104429299	394	62343											
ARL13B	200894	broad.mit.edu	37	chr3	93761893	93761893	+	Frame_Shift_Del	DEL	A	-	-																															tgaaagagagaaaaaaaaccAaaaaatggagaaagacagtg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:93761893delA	uc003drc.2	+	7	1119	c.833delA	c.(832-834)CAAfs	p.Q278fs	ARL13B_uc010hop.2_Frame_Shift_Del_p.Q129fs|ARL13B_uc003drd.2_Frame_Shift_Del_p.Q171fs|ARL13B_uc003dre.2_Frame_Shift_Del_p.Q263fs|ARL13B_uc003drf.2_Frame_Shift_Del_p.Q278fs|ARL13B_uc003drg.2_Frame_Shift_Del_p.Q175fs	NM_182896	NP_878899	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 2-like 1 isoform 1	278							GTP binding				0						AAAAAAAACCAAAAAATGGAG	0.328													14	18	---	---	---	---						.	-	93761893	-	-	93761893	7	5	103	1	0	1	0	1	0	0	0	0	929	130	5	0	859	0	ARL13B	3	93761893	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	168762	93761893	104260537	395	62344											
CLDND1	56650	broad.mit.edu	37	chr3	98235544	98235544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattaaggtgtactctttccGgttggtgtgagcagcccaga	8	12	12	9	1	1	2	0	1	1	1	2	2	2	2	2	3	3	3	2	3	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:98235544G>A	uc003dsp.2	-	5	1601	c.721C>T	c.(721-723)CGG>TGG	p.R241W	CLDND1_uc003dso.2_Intron|CLDND1_uc003dsq.2_Missense_Mutation_p.R241W|CLDND1_uc003dss.2_Missense_Mutation_p.R241W|CLDND1_uc003dsr.2_Missense_Mutation_p.R146W|CLDND1_uc003dst.2_Missense_Mutation_p.R264W|CLDND1_uc003dsu.2_Missense_Mutation_p.R241W|CLDND1_uc003dsv.2_Missense_Mutation_p.R241W	NM_019895	NP_063948	Q9NY35	CLDN1_HUMAN	claudin domain containing 1 protein isoform a	241						integral to membrane				ovary(1)	1						TACTCTTTCCGGTTGGTGTGA	0.428													26	44					0	0	1	0	0		A	98235544	A	A	98235544	3	1	103	1	0	0	0	0	1	0	0	0	3496	1115	39	1	44	1	CLDND1	3	98235544	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4473651	98235544	99786886	396	62345											
GPR15	2838	broad.mit.edu	37	chr3	98251047	98251047	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaccttgttctcatgggagCgttgcatttcaaacccggca	9	11	10	11	2	2	0	2	0	1	0	3	2	2	1	2	2	4	4	2	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:98251047C>T	uc011bgy.1	+	1	170	c.170C>T	c.(169-171)GCG>GTG	p.A57V		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	57	Cytoplasmic (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		CTCATGGGAGCGTTGCATTTC	0.498													24	33					0	0	1	0	0		T	98251047	T	T	98251047	3	4	103	1	0	0	0	0	1	0	0	0	6670	768	27	1	172	1	GPR15	3	98251047	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	15503	98251047	99771383	397	62346											
CPOX	1371	broad.mit.edu	37	chr3	98300252	98300252	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatgagttatctccttaccGggcagttagaggtaaagaca	14	10	10	7	1	1	3	0	1	1	2	2	3	1	3	2	2	1	4	2	2	6	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:98300252G>A	uc003dsx.2	-	6	1369	c.1276C>T	c.(1276-1278)CGA>TGA	p.R426*		NM_000097	NP_000088	P36551	HEM6_HUMAN	coproporphyrinogen oxidase precursor	426	Important for dimerization.					mitochondrial intermembrane space	coproporphyrinogen oxidase activity|protein homodimerization activity				0						TCTCCTTACCGGGCAGTTAGA	0.413													19	39					0	0	1	0	0		A	98300252	A	A	98300252	4	1	103	1	0	0	0	0	0	1	0	0	3824	1130	39	1	96	1	CPOX	3	98300252	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	49205	98300252	99722178	398	62347											
TOMM70A	9868	broad.mit.edu	37	chr3	100096645	100096645	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagaaggtagctcgtagtagCaatgcttctgccatgtattt	10	14	10	7	1	1	1	0	0	1	1	2	1	1	1	1	1	4	7	1	1	7	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:100096645C>T	uc003dtw.2	-	6	1428	c.996G>A	c.(994-996)TTG>TTA	p.L332L		NM_014820	NP_055635	O94826	TOM70_HUMAN	translocase of outer mitochondrial membrane 70	332	Cytoplasmic (Potential).|TPR 4.				protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane translocase complex	protein binding|protein transmembrane transporter activity			ovary(1)	1						CTCGTAGTAGCAATGCTTCTG	0.378													30	49					0	0	1	0	0		T	100096645	T	T	100096645	2	4	103	1	0	0	0	0	0	0	0	1	16388	709	25	2		2	TOMM70A	3	100096645	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1796393	100096645	97925785	399	62348											
BOC	91653	broad.mit.edu	37	chr3	112998720	112998720	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaacatgctgggggagagCgagcccagcgccccctctcg	7	5	14	15	3	1	2	0	1	1	1	2	4	1	2	3	2	5	1	3	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:112998720C>T	uc003dzx.2	+	13	2691	c.2070C>T	c.(2068-2070)AGC>AGT	p.S690S	BOC_uc003dzy.2_Silent_p.S690S|BOC_uc003dzz.2_Silent_p.S691S|BOC_uc003eab.2_Silent_p.S391S|BOC_uc003eac.2_Silent_p.S5S	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	690	Fibronectin type-III 2.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			TGGGGGAGAGCGAGCCCAGCG	0.612													38	77					0	0	1	0	0		T	112998720	T	T	112998720	2	4	103	1	0	0	0	0	0	0	0	1	1482	767	27	1		1	BOC	3	112998720	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	12902075	112998720	85023710	400	62349											
DRD3	1814	broad.mit.edu	37	chr3	113878640	113878640	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagattaaggatgctggcTgtacacatcatgacatccag	13	9	10	9	0	1	2	1	1	0	1	2	4	2	3	1	2	2	3	1	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:113878640T>C	uc003ebd.2	-	4	768	c.345A>G	c.(343-345)ACA>ACG	p.T115T	DRD3_uc010hqn.1_Silent_p.T115T|DRD3_uc003ebb.1_Silent_p.T115T|DRD3_uc003ebc.1_Silent_p.T115T	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	115	Helical; Name=3.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	GGATGCTGGCTGTACACATCA	0.507													36	56					0	0	1	0	0		C	113878640	C	C	113878640	2	2	103	1	0	0	0	0	0	0	0	1	4764	1567	55	3		3	DRD3	3	113878640	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	879920	113878640	84143790	401	62350											
ZBTB20	26137	broad.mit.edu	37	chr3	114058003	114058003	+	Frame_Shift_Del	DEL	G	-	-																															cacctgggggtgtgcctgcaGggggggtcccattgctggca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:114058003delG	uc003ebi.2	-	5	2255	c.2075delC	c.(2074-2076)CCTfs	p.P692fs	ZBTB20_uc003ebj.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc010hqp.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebk.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebl.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebm.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebn.2_Frame_Shift_Del_p.P619fs	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	692					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TGTGCCTGCAGGGGGGGTCCC	0.632													27	39	---	---	---	---						.	-	114058003	-	-	114058003	7	5	103	1	0	1	0	1	0	0	0	0	17554	1000	35	0	154	0	ZBTB20	3	114058003	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	179363	114058003	83964427	402	62351											
POLQ	10721	broad.mit.edu	37	chr3	121251977	121251977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcattcaaccaggaagccaCaagctccaaattaggaaggg	16	5	10	10	0	1	0	1	0	0	0	2	2	2	2	3	3	4	2	3	3	6	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:121251977C>T	uc003eee.3	-	6	949	c.820G>A	c.(820-822)GTG>ATG	p.V274M		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	274	Helicase ATP-binding.				DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		CAGGAAGCCACAAGCTCCAAA	0.423								DNA_polymerases_(catalytic_subunits)					25	48					0	0	1	0	0		T	121251977	T	T	121251977	3	4	103	1	0	0	0	0	1	0	0	0	12227	478	17	4	7052	4	POLQ	3	121251977	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	7193974	121251977	76770453	403	62352											
CASR	846	broad.mit.edu	37	chr3	121980530	121980530	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacaattgcagctgatgaCgactatgggcggccggggat	9	7	16	9	3	0	2	0	2	0	0	0	4	0	3	1	5	2	3	1	5	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:121980530C>T	uc003eev.3	+	4	1020	c.648C>T	c.(646-648)GAC>GAT	p.D216D	CASR_uc003eew.3_Silent_p.D216D	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	216	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	CAGCTGATGACGACTATGGGC	0.537													60	93					0	0	1	0	0		T	121980530	T	T	121980530	2	4	103	1	0	0	0	0	0	0	0	1	2685	535	19	1		1	CASR	3	121980530	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	728553	121980530	76041900	404	62353											
ALDH1L1	10840	broad.mit.edu	37	chr3	125850310	125850310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagggccagcgtgtagaCggcacccgcatccagggcct	7	6	13	15	3	1	1	1	0	0	1	2	1	2	1	4	3	1	3	4	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:125850310C>T	uc003eim.1	-	13	1730	c.1540G>A	c.(1540-1542)GTC>ATC	p.V514I	ALDH1L1_uc010hse.1_Intron|ALDH1L1_uc011bki.1_Missense_Mutation_p.V413I|ALDH1L1_uc003eio.2_Missense_Mutation_p.V216I	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	514	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	AGCGTGTAGACGGCACCCGCA	0.642													34	56					0	0	1	0	0		T	125850310	T	T	125850310	3	4	103	1	0	0	0	0	1	0	0	0	494	536	19	1	1212	1	ALDH1L1	3	125850310	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3869780	125850310	72172120	405	62354											
PLXNA1	5361	broad.mit.edu	37	chr3	126735391	126735391	+	Frame_Shift_Del	DEL	C	-	-																															gtgagatccggtgcctgacaCcccccgggcagagccctggc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:126735391delC	uc003ejg.2	+	15	2981	c.2977delC	c.(2977-2979)CCCfs	p.P993fs		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1016	IPT/TIG 2.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GTGCCTGACACCCCCCGGGCA	0.627													32	69	---	---	---	---						.	-	126735391	-	-	126735391	7	5	103	1	0	1	0	1	0	0	0	0	12138	507	18	0	3104	0	PLXNA1	3	126735391	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	885081	126735391	71287039	406	62355											
PLXNA1	5361	broad.mit.edu	37	chr3	126740964	126740964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagtcgctgacactgttcGggcagctgctgaccaagaag	11	7	13	10	2	0	4	0	2	0	2	2	4	0	4	1	1	2	5	1	1	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:126740964G>A	uc003ejg.2	+	21	4010	c.4006G>A	c.(4006-4008)GGG>AGG	p.G1336R		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1359	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GACACTGTTCGGGCAGCTGCT	0.627													13	23					0	0	1	0	0		A	126740964	A	A	126740964	3	1	103	1	0	0	0	0	1	0	0	0	12138	1116	39	1	4157	1	PLXNA1	3	126740964	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5573	126740964	71281466	407	62356											
PODXL2	50512	broad.mit.edu	37	chr3	127358266	127358266	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctggctcaggcttccccagCgaagagaatgaagagtctcg	10	7	12	12	2	2	3	1	1	1	2	4	5	3	3	3	2	1	2	3	2	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:127358266C>T	uc003ejq.2	+	2	273	c.249C>T	c.(247-249)AGC>AGT	p.S83S		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	83	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						GCTTCCCCAGCGAAGAGAATG	0.602													19	35					0	0	1	0	0		T	127358266	T	T	127358266	2	4	103	1	0	0	0	0	0	0	0	1	12200	767	27	1		1	PODXL2	3	127358266	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	617302	127358266	70664164	408	62357											
ABTB1	80325	broad.mit.edu	37	chr3	127399266	127399266	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccatagaggaggcgcagcAgcgtctgcgggcactcgagg	8	4	17	12	5	1	1	0	0	1	1	2	3	1	2	1	4	3	3	1	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:127399266A>G	uc003ejt.2	+	12	1473	c.1385A>G	c.(1384-1386)CAG>CGG	p.Q462R	ABTB1_uc003ejr.2_Missense_Mutation_p.Q320R|ABTB1_uc003ejs.2_Missense_Mutation_p.Q437R|ABTB1_uc003eju.2_Missense_Mutation_p.Q320R|ABTB1_uc010hsm.2_Missense_Mutation_p.Q189R	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	462	Potential.					cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						GAGGCGCAGCAGCGTCTGCGG	0.667													8	7					0	0	1	0	0		G	127399266	G	G	127399266	3	3	103	1	0	0	0	0	1	0	0	0	102	188	7	3	1431	3	ABTB1	3	127399266	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	41000	127399266	70623164	409	62358											
EEFSEC	60678	broad.mit.edu	37	chr3	127965713	127965713	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatctgatgatgctggtcatCgatgtgaccaaggggatgca	10	10	14	7	1	2	3	1	3	1	0	3	6	2	4	1	3	2	2	1	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:127965713C>T	uc003eki.2	+	2	389	c.351C>T	c.(349-351)ATC>ATT	p.I117I	EEFSEC_uc003ekj.2_Silent_p.I117I	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,	117						cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						TGCTGGTCATCGATGTGACCA	0.522													72	136					0	0	1	0	0		T	127965713	T	T	127965713	2	4	103	1	0	0	0	0	0	0	0	1	4937	874	31	1		1	EEFSEC	3	127965713	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	566447	127965713	70056717	410	62359											
GATA2	2624	broad.mit.edu	37	chr3	128204753	128204753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catagtagctaggcctgggcGcaggggactgccactttcca	8	8	13	12	1	0	0	0	0	0	0	1	1	1	1	3	4	2	3	3	4	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:128204753G>A	uc003ekm.3	-	4	1123	c.688C>T	c.(688-690)CGC>TGC	p.R230C	GATA2_uc003ekn.3_Missense_Mutation_p.R230C|GATA2_uc003eko.2_Missense_Mutation_p.R230C	NM_001145661	NP_001139133	P23769	GATA2_HUMAN	GATA binding protein 2 isoform 1	230					blood coagulation|negative regulation of fat cell differentiation|negative regulation of fat cell proliferation|negative regulation of neural precursor cell proliferation|negative regulation of Notch signaling pathway|phagocytosis|positive regulation of angiogenesis|positive regulation of phagocytosis|positive regulation of transcription from RNA polymerase II promoter	nucleoplasm	C2H2 zinc finger domain binding|chromatin binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(13)|lung(1)|skin(1)	15				GBM - Glioblastoma multiforme(114;0.173)		AGGCCTGGGCGCAGGGGACTG	0.642			Mis		AML(CML blast transformation)								18	29					0	0	1	0	0		A	128204753	A	A	128204753	3	1	103	1	0	0	0	0	1	0	0	0	6269	1087	38	1	770	1	GATA2	3	128204753	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	239040	128204753	69817677	411	62360											
ASTE1	28990	broad.mit.edu	37	chr3	130743281	130743281	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatggaacagcagagaagTtccttaacattttctcgatc	12	12	7	10	1	1	1	0	0	1	1	5	4	3	2	2	1	3	2	2	1	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:130743281T>C	uc003env.1	-	3	1312	c.870A>G	c.(868-870)GAA>GAG	p.E290E	NEK11_uc003enx.2_5'Flank|NEK11_uc003eny.2_5'Flank|NEK11_uc003eoa.2_5'Flank|NEK11_uc003enz.2_5'Flank|NEK11_uc010htn.2_5'Flank|NEK11_uc011blk.1_5'Flank|NEK11_uc011bll.1_5'Flank|NEK11_uc003enw.1_5'Flank|NEK11_uc011blm.1_5'Flank|ASTE1_uc010htm.1_Silent_p.E290E|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	290					DNA repair		nuclease activity				0						AGCAGAGAAGTTCCTTAACAT	0.433													26	54					0	0	1	0	0		C	130743281	C	C	130743281	2	2	103	1	0	0	0	0	0	0	0	1	1063	1722	60	3		3	ASTE1	3	130743281	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2538528	130743281	67279149	412	62361											
DNAJC13	23317	broad.mit.edu	37	chr3	132175582	132175582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcccaagaaggggatgtcGttgcttcaaatgcggaactt	10	11	12	8	2	1	1	1	0	0	1	3	3	2	3	1	3	3	2	1	3	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:132175582G>A	uc003eor.2	+	12	1320	c.1255G>A	c.(1255-1257)GTT>ATT	p.V419I	DNAJC13_uc010htq.1_Missense_Mutation_p.V419I|DNAJC13_uc003eos.1_Missense_Mutation_p.V86I	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	419							heat shock protein binding			ovary(1)|breast(1)	2						AGGGGATGTCGTTGCTTCAAA	0.438													28	62					0	0	1	0	0		A	132175582	A	A	132175582	3	1	103	1	0	0	0	0	1	0	0	0	4638	1145	40	1	1297	1	DNAJC13	3	132175582	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1432301	132175582	65846848	413	62362											
PPP2R3A	5523	broad.mit.edu	37	chr3	135722322	135722322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttttgattcagcagactcCagaggtgatcaaggtaagac	13	10	11	7	0	2	5	2	2	0	3	3	5	3	5	1	2	1	3	1	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:135722322C>T	uc003eqv.1	+	2	2547	c.1982C>T	c.(1981-1983)CCA>CTA	p.P661L	PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	661					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						CAGCAGACTCCAGAGGTGATC	0.363													25	62					0	0	1	0	0		T	135722322	T	T	135722322	3	4	103	1	0	0	0	0	1	0	0	0	12410	594	21	4	1984	4	PPP2R3A	3	135722322	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3546740	135722322	62300108	414	62363											
ESYT3	83850	broad.mit.edu	37	chr3	138195072	138195072	+	Frame_Shift_Del	DEL	T	-	-																															ttgcttcctaaagatttgaaTtttttgttcccatggaagaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:138195072delT	uc003esk.2	+	21	2702	c.2476delT	c.(2476-2478)TTTfs	p.F826fs		NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain	826	C2 3.					integral to membrane|plasma membrane					0						AAGATTTGAATTTTTTGTTCC	0.353													39	48	---	---	---	---						.	-	138195072	-	-	138195072	7	5	103	1	0	1	0	1	0	0	0	0	5274	1493	52	0	2558	0	ESYT3	3	138195072	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	2472750	138195072	59827358	415	62364											
PRR23B	389151	broad.mit.edu	37	chr3	138738987	138738987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagagcccagcggctgagcCggttggggagtccatccgga	7	6	17	11	3	0	2	0	1	0	1	2	4	2	4	4	5	3	3	4	5	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:138738987C>T	uc003esy.1	-	1	782	c.517G>A	c.(517-519)GGC>AGC	p.G173S		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	173										breast(1)	1						GCGGCTGAGCCGGTTGGGGAG	0.652													30	47					0	0	1	0	0		T	138738987	T	T	138738987	3	4	103	1	0	0	0	0	1	0	0	0	12617	652	23	1	284	1	PRR23B	3	138738987	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	543915	138738987	59283443	416	62365											
ZBTB38	253461	broad.mit.edu	37	chr3	141163979	141163979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccactgacaaaccgtggCgcccttactacaactacaaa	14	8	5	14	2	0	1	0	1	0	0	1	1	1	1	3	1	5	0	3	1	6	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:141163979C>T	uc003etw.2	+	8	3731	c.2749C>T	c.(2749-2751)CGC>TGC	p.R917C	ZBTB38_uc010hun.2_Missense_Mutation_p.R914C|ZBTB38_uc010huo.2_Missense_Mutation_p.R917C|ZBTB38_uc003ety.2_Missense_Mutation_p.R917C|ZBTB38_uc010hup.2_Missense_Mutation_p.R918C	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	917					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CAAACCGTGGCGCCCTTACTA	0.507													15	29					0	0	1	0	0		T	141163979	T	T	141163979	3	4	103	1	0	0	0	0	1	0	0	0	17564	768	27	1	2751	1	ZBTB38	3	141163979	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2424992	141163979	56858451	417	62366											
CHST2	9435	broad.mit.edu	37	chr3	142840163	142840163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagcggcagctggtgtacGtgttcaccacgtggcgctct	7	9	13	12	4	2	0	1	0	1	0	2	0	2	0	1	3	3	5	1	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:142840163G>A	uc003evm.2	+	2	1394	c.505G>A	c.(505-507)GTG>ATG	p.V169M		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	169	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						GCTGGTGTACGTGTTCACCAC	0.652													11	18					0	0	1	0	0		A	142840163	A	A	142840163	3	1	103	1	0	0	0	0	1	0	0	0	3407	1145	40	1	507	1	CHST2	3	142840163	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1676184	142840163	55182267	418	62367											
CLRN1	7401	broad.mit.edu	37	chr3	150645745	150645745	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtacattagatctgcagctAcattagttgtttctgcgtct	9	16	8	8	1	3	1	0	0	3	1	3	1	3	1	0	0	5	5	0	0	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:150645745A>G	uc003eyk.1	-	3	968	c.677T>C	c.(676-678)GTA>GCA	p.V226A	CLRN1OS_uc011bny.1_Intron|CLRN1_uc003eyj.2_Intron	NM_174878	NP_777367	P58418	CLRN1_HUMAN	clarin 1 isoform a	226					equilibrioception|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			ATCTGCAGCTACATTAGTTGT	0.358													29	42					0	0	1	0	0		G	150645745	G	G	150645745	3	3	103	1	0	0	0	0	1	0	0	0	3560	391	14	3	50	3	CLRN1	3	150645745	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	7805582	150645745	47376685	419	62368											
IGSF10	285313	broad.mit.edu	37	chr3	151154554	151154554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatttgtatatcccagaatCggaggtttggggattctgaa	10	13	12	6	1	1	2	0	1	1	1	3	4	2	4	1	4	0	3	1	4	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:151154554C>T	uc011bod.1	-	6	7795	c.7795G>A	c.(7795-7797)GAT>AAT	p.D2599N	IGSF10_uc011bob.1_Missense_Mutation_p.D626N|IGSF10_uc011boc.1_Missense_Mutation_p.D578N	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	2599	Ig-like C2-type 12.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ATCCCAGAATCGGAGGTTTGG	0.423													47	80					0	0	1	0	0		T	151154554	T	T	151154554	3	4	103	1	0	0	0	0	1	0	0	0	7613	884	31	1	80	1	IGSF10	3	151154554	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	508809	151154554	46867876	420	62369											
IGSF10	285313	broad.mit.edu	37	chr3	151164291	151164291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacacacgtgggtaactggCgtttactttgtgagtttttt	8	16	11	6	2	0	2	0	1	0	1	0	2	0	2	0	2	2	3	0	2	2	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:151164291C>T	uc011bod.1	-	4	3478	c.3478G>A	c.(3478-3480)GCC>ACC	p.A1160T		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1160					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GGGTAACTGGCGTTTACTTTG	0.413													116	200					0	0	1	0	0		T	151164291	T	T	151164291	3	4	103	1	0	0	0	0	1	0	0	0	7613	768	27	1	4453	1	IGSF10	3	151164291	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	9737	151164291	46858139	421	62370											
SCHIP1	29970	broad.mit.edu	37	chr3	159583997	159583997	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagacagaagttggcacttGgaagcttctttgatgatggc	10	12	12	7	0	2	4	1	2	1	2	2	5	2	5	0	3	1	3	0	3	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:159583997G>T	uc003fcs.1	+	3	871	c.805G>T	c.(805-807)GGA>TGA	p.G269*	SCHIP1_uc003fcq.1_Nonsense_Mutation_p.G345*|SCHIP1_uc003fcr.1_Nonsense_Mutation_p.G258*|SCHIP1_uc003fct.1_Nonsense_Mutation_p.G256*|SCHIP1_uc010hvz.1_Nonsense_Mutation_p.G229*|SCHIP1_uc003fcu.1_Nonsense_Mutation_p.G26*|SCHIP1_uc003fcv.1_Nonsense_Mutation_p.G42*	NM_014575	NP_055390	Q9P0W5	SCHI1_HUMAN	schwannomin interacting protein 1	269						cytoplasm	identical protein binding|protein binding			ovary(1)|central_nervous_system(1)	2			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			GTTGGCACTTGGAAGCTTCTT	0.408													50	85					1.83081e-24	1.96891e-24	1	1	0		T	159583997	T	T	159583997	4	4	103	1	0	0	0	0	0	1	0	0	13929	1349	47	5	815	5	SCHIP1	3	159583997	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	8419706	159583997	38438433	422	62371											
SMC4	10051	broad.mit.edu	37	chr3	160141239	160141239	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgggcgaaaaagatgacCgaaattcaaactcctgaaaa	18	7	9	7	2	1	3	1	2	0	1	2	5	2	3	2	1	1	1	2	1	7	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:160141239C>T	uc003fdh.2	+	14	2159	c.2046C>T	c.(2044-2046)ACC>ACT	p.T682T	IFT80_uc003fda.2_Intron|SMC4_uc010hwc.1_Silent_p.T446T|SMC4_uc003fdi.2_Silent_p.T657T|SMC4_uc003fdj.2_Silent_p.T682T|SMC4_uc010hwd.2_Silent_p.T682T|SMC4_uc003fdl.2_Silent_p.T385T	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	682	Flexible hinge.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			AAAAGATGACCGAAATTCAAA	0.279													45	53					0	0	1	0	0		T	160141239	T	T	160141239	2	4	103	1	0	0	0	0	0	0	0	1	14810	639	23	1		1	SMC4	3	160141239	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	557242	160141239	37881191	423	62372											
SMC4	10051	broad.mit.edu	37	chr3	160150302	160150302	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgaaggaatcatgttcAggtgtgtaattatgctgagt	10	15	11	5	0	3	2	2	2	1	0	4	3	3	3	0	2	1	3	0	2	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:160150302A>G	uc003fdh.2	+	22	3642	c.3529A>G	c.(3529-3531)AGT>GGT	p.S1177G	IFT80_uc003fda.2_Intron|SMC4_uc003fdi.2_Missense_Mutation_p.S1152G|SMC4_uc003fdj.2_Missense_Mutation_p.S1177G|SMC4_uc010hwd.2_Missense_Mutation_p.S1119G|SMC4_uc003fdl.2_Missense_Mutation_p.S880G	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	1177					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			AATCATGTTCAGGTGTGTAAT	0.388													7	11					0	0	1	0	0		G	160150302	G	G	160150302	3	3	103	1	0	0	0	0	1	0	0	0	14810	202	7	3	3611	3	SMC4	3	160150302	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	9063	160150302	37872128	424	62373											
TRIM59	286827	broad.mit.edu	37	chr3	160155773	160155774	+	Frame_Shift_Ins	INS	-	G	G																															acattttcaatgggaaactaINSttttccacacaaattccttc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:160155773_160155774insG	uc003fdm.2	-	3	1393_1394	c.1198_1199insC	c.(1198-1200)ATAfs	p.I400fs	IFT80_uc003fda.2_Intron	NM_173084	NP_775107	Q8IWR1	TRI59_HUMAN	tripartite motif-containing 59	400						integral to membrane|intracellular	zinc ion binding				0			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			ATGGGAAACTATTTTCCACACA	0.337													18	30	---	---	---	---						.	G	160155774	G	G	160155773	7	5	103	1	0	1	1	0	0	0	0	0	16558	449	16	0	16	0	TRIM59	3	160155773	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	5471	160155773	37866657	425	62374											
WDR49	151790	broad.mit.edu	37	chr3	167249049	167249049	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcttctcccagcactgagaAgtttttgaggttttgtatct	7	16	10	8	0	2	2	0	2	2	1	3	3	2	2	1	2	1	5	1	2	2	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:167249049A>G	uc003fev.1	-	9	1322	c.1016T>C	c.(1015-1017)CTT>CCT	p.L339P	WDR49_uc003feu.1_Missense_Mutation_p.L164P|WDR49_uc011bpd.1_Missense_Mutation_p.L403P|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	339										large_intestine(1)|ovary(1)|skin(1)	3						AGCACTGAGAAGTTTTTGAGG	0.448													34	49					0	0	1	0	0		G	167249049	G	G	167249049	3	3	103	1	0	0	0	0	1	0	0	0	17328	72	3	3	1105	3	WDR49	3	167249049	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	7093276	167249049	30773381	426	62375											
TNFSF10	8743	broad.mit.edu	37	chr3	172241171	172241171	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccctggacctccatcatagCcatgatcctgtcagagtctg	8	10	8	15	0	3	2	2	1	1	1	5	3	5	3	6	1	1	0	6	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:172241171C>A	uc003fid.2	-	1	99	c.4G>T	c.(4-6)GCT>TCT	p.A2S	TNFSF10_uc003fie.2_Missense_Mutation_p.A2S|TNFSF10_uc010hwu.1_RNA	NM_003810	NP_003801	P50591	TNF10_HUMAN	tumor necrosis factor (ligand) superfamily,	2	Cytoplasmic (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of apoptosis by extracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane|soluble fraction	cytokine activity|metal ion binding|tumor necrosis factor receptor binding			skin(4)|lung(1)	5	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.67e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			TCCATCATAGCCATGATCCTG	0.527													28	57					2.65835e-16	2.8307e-16	1	1	0		A	172241171	A	A	172241171	3	1	103	1	0	0	0	0	1	0	0	0	16326	739	26	5	861	5	TNFSF10	3	172241171	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4992122	172241171	25781259	427	62376											
NCEH1	57552	broad.mit.edu	37	chr3	172351781	172351781	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggattggggtgttcacAttttgctgataagatggtgt	8	14	15	4	0	1	2	1	1	0	1	1	3	1	3	0	5	1	3	0	5	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:172351781A>G	uc011bpx.1	-	5	969	c.831T>C	c.(829-831)AAT>AAC	p.N277N	NCEH1_uc003fig.2_Silent_p.N269N|NCEH1_uc011bpw.1_Silent_p.N104N|NCEH1_uc011bpy.1_Silent_p.N104N	NM_001146276	NP_001139748	Q6PIU2	NCEH1_HUMAN	arylacetamide deacetylase-like 1 isoform a	237	Lumenal (Potential).				lipid catabolic process	endoplasmic reticulum|integral to membrane|microsome	carboxylesterase activity				0						GGGTGTTCACATTTTGCTGAT	0.393													29	43					0	0	1	0	0		G	172351781	G	G	172351781	2	3	103	1	0	0	0	0	0	0	0	1	10234	214	8	3		3	NCEH1	3	172351781	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	110610	172351781	25670649	428	62377											
ACTL6A	86	broad.mit.edu	37	chr3	179298752	179298752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgtgattttggtgcagagCggctaaagattccagaagga	12	11	13	5	1	0	4	0	1	0	3	1	5	1	5	1	3	2	2	1	3	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:179298752C>T	uc003fjw.2	+	10	1074	c.901C>T	c.(901-903)CGG>TGG	p.R301W	ACTL6A_uc003fjx.2_Missense_Mutation_p.R259W|ACTL6A_uc003fjy.2_Missense_Mutation_p.R259W	NM_004301	NP_004292	O96019	ACL6A_HUMAN	actin-like 6A isoform 1	301					chromatin remodeling|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|nervous system development|regulation of growth|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	Ino80 complex|npBAF complex|NuA4 histone acetyltransferase complex|plasma membrane|SWI/SNF complex	ATP binding|chromatin binding			ovary(1)	1	all_cancers(143;3.94e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)			TGGTGCAGAGCGGCTAAAGAT	0.368													46	80					0	0	1	0	0		T	179298752	T	T	179298752	3	4	103	1	0	0	0	0	1	0	0	0	198	759	27	1	939	1	ACTL6A	3	179298752	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	6946971	179298752	18723678	429	62378											
LAMP3	27074	broad.mit.edu	37	chr3	182870248	182870248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagttcccagaggcttgcGttgcgttggggtcgatgttg	5	12	15	9	3	0	1	0	0	0	1	2	2	1	1	1	3	2	5	1	3	0	5	rs151059567	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:182870248G>A	uc003flh.3	-	3	1027	c.803C>T	c.(802-804)ACG>ATG	p.T268M		NM_014398	NP_055213	Q9UQV4	LAMP3_HUMAN	lysosomal-associated membrane protein 3	268	Lumenal (Potential).				cell proliferation	integral to membrane|lysosomal membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;9.14e-14)|Ovarian(172;0.0355)		all cancers(12;2.91e-44)|Epithelial(37;5.52e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;4.16e-21)			AGAGGCTTGCGTTGCGTTGGG	0.458													107	168					0	0	1	0	0		A	182870248	A	A	182870248	3	1	103	1	0	0	0	0	1	0	0	0	8635	1145	40	1	463	1	LAMP3	3	182870248	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3571496	182870248	15152182	430	62379											
MCF2L2	23101	broad.mit.edu	37	chr3	183035921	183035921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtggatagcatgcttctggGcagctctgctgtggccaggc	5	10	15	11	1	2	0	0	0	2	0	2	1	2	1	1	4	4	5	1	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:183035921G>A	uc003fli.1	-	7	778	c.688C>T	c.(688-690)CCC>TCC	p.P230S	MCF2L2_uc003flj.1_Missense_Mutation_p.P230S|MCF2L2_uc003flp.1_Missense_Mutation_p.P265S	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	230					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			ATGCTTCTGGGCAGCTCTGCT	0.572													14	27					0	0	1	0	0		A	183035921	A	A	183035921	3	1	103	1	0	0	0	0	1	0	0	0	9398	1203	42	2	2752	2	MCF2L2	3	183035921	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	165673	183035921	14986509	431	62380											
ABCC5	10057	broad.mit.edu	37	chr3	183665239	183665239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccgcacagccagccacCgcatcgcacacgtaaacaaa	14	2	7	18	4	0	0	0	0	0	0	1	0	0	0	5	0	4	4	5	0	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:183665239C>T	uc003fmg.2	-	23	3452	c.3287G>A	c.(3286-3288)CGG>CAG	p.R1096Q	ABCC5_uc011bqt.1_Missense_Mutation_p.R624Q|ABCC5_uc010hxl.2_Missense_Mutation_p.R1053Q	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	1096	ABC transmembrane type-1 2.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			AGCCAGCCACCGCATCGCACA	0.527													14	16					0	0	1	0	0		T	183665239	T	T	183665239	3	4	103	1	0	0	0	0	1	0	0	0	56	652	23	1	1058	1	ABCC5	3	183665239	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	629318	183665239	14357191	432	62381											
DVL3	1857	broad.mit.edu	37	chr3	183885455	183885455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatcagggttggaggtccGtgaccgcatgtggctcaaga	9	9	15	8	2	2	3	2	2	0	1	3	4	3	4	2	4	0	3	2	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:183885455G>A	uc003fms.2	+	12	1426	c.1286G>A	c.(1285-1287)CGT>CAT	p.R429H	DVL3_uc011bqw.1_Missense_Mutation_p.R412H|DVL3_uc003fmt.2_Missense_Mutation_p.R100H|DVL3_uc003fmu.2_Missense_Mutation_p.R261H	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	429	DEP.				canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			TTGGAGGTCCGTGACCGCATG	0.572													20	43					0	0	1	0	0		A	183885455	A	A	183885455	3	1	103	1	0	0	0	0	1	0	0	0	4843	1145	40	1	1332	1	DVL3	3	183885455	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	220216	183885455	14136975	433	62382											
PSMD2	5708	broad.mit.edu	37	chr3	184018118	184018118	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctggaggaattgcgaaggcaGattcgttcttctacaacttc	10	12	10	9	2	2	1	0	0	2	1	4	4	2	3	0	3	3	2	0	3	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:184018118G>C	uc003fnn.1	+	3	276	c.243G>C	c.(241-243)CAG>CAC	p.Q81H	PSMD2_uc011brj.1_5'Flank|PSMD2_uc011brk.1_5'Flank	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	81					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	TGCGAAGGCAGATTCGTTCTT	0.488													30	44					0	0	1	0	0		C	184018118	C	C	184018118	3	2	103	1	0	0	0	0	1	0	0	0	12720	933	33	5	253	5	PSMD2	3	184018118	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	132663	184018118	14004312	434	62383											
EHHADH	1962	broad.mit.edu	37	chr3	184910086	184910086	+	Frame_Shift_Del	DEL	T	-	-																															gggtttccctgagaagccagTttttttagatagtcacttgg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:184910086delT	uc003fpf.2	-	7	2127	c.2100delA	c.(2098-2100)AAAfs	p.K700fs	EHHADH_uc011brs.1_Frame_Shift_Del_p.K604fs	NM_001966	NP_001957	Q08426	ECHP_HUMAN	enoyl-Coenzyme A, hydratase/3-hydroxyacyl	700						peroxisome	3-hydroxyacyl-CoA dehydrogenase activity|coenzyme binding|dodecenoyl-CoA delta-isomerase activity|enoyl-CoA hydratase activity			ovary(3)	3	all_cancers(143;4.04e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.98e-32)|OV - Ovarian serous cystadenocarcinoma(80;5.55e-21)		NADH(DB00157)	GAGAAGCCAGTTTTTTTAGAT	0.463													27	62	---	---	---	---						.	-	184910086	-	-	184910086	7	5	103	1	0	1	0	1	0	0	0	0	4988	1722	60	0	75	0	EHHADH	3	184910086	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	891968	184910086	13112344	435	62384											
RTP1	132112	broad.mit.edu	37	chr3	186915363	186915363	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacctaccctcactctcCgtgttctcactaaggtggaa	8	11	7	15	1	3	0	2	0	2	0	5	1	3	1	3	2	2	2	3	2	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:186915363C>T	uc003frg.2	+	1	90	c.60C>T	c.(58-60)TCC>TCT	p.S20S		NM_153708	NP_714919	P59025	RTP1_HUMAN	receptor transporting protein 1	20	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding			ovary(2)|breast(1)	3	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		CCTCACTCTCCGTGTTCTCAC	0.522													37	65					0	0	1	0	0		T	186915363	T	T	186915363	2	4	103	1	0	0	0	0	0	0	0	1	13758	639	23	1		1	RTP1	3	186915363	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2005277	186915363	11107067	436	62385											
RTP2	344892	broad.mit.edu	37	chr3	187416477	187416477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgctgggcttccagtgaaCgatgccctcctggcaggcct	5	9	12	15	2	0	1	0	1	0	0	3	2	2	1	4	3	2	3	4	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:187416477C>T	uc003fro.1	-	2	916	c.487G>A	c.(487-489)GTT>ATT	p.V163I		NM_001004312	NP_001004312	Q5QGT7	RTP2_HUMAN	receptor transporting protein 2	163	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding				0	all_cancers(143;4.06e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0515)		TTCCAGTGAACGATGCCCTCC	0.652													21	38					0	0	1	0	0		T	187416477	T	T	187416477	3	4	103	1	0	0	0	0	1	0	0	0	13759	536	19	1	194	1	RTP2	3	187416477	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	501114	187416477	10605953	437	62386											
TPRG1	285386	broad.mit.edu	37	chr3	189038590	189038590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggctattcccttgcccGtgggagtattggtttttgag	5	16	12	8	1	0	1	0	1	0	0	1	2	1	2	2	3	1	3	2	3	2	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:189038590G>A	uc003frv.1	+	11	2036	c.809G>A	c.(808-810)CGT>CAT	p.R270H	TPRG1_uc003frw.1_Missense_Mutation_p.R270H	NM_198485	NP_940887	Q6ZUI0	TPRG1_HUMAN	tumor protein p63 regulated 1	270											0	all_cancers(143;6.12e-12)|all_hematologic(3;0.0359)|Ovarian(172;0.0925)	all_lung(153;8.23e-09)|Lung NSC(153;3.55e-06)|all_neural(597;0.0019)|Myeloproliferative disorder(1037;0.0255)	Lung(62;6.93e-06)	GBM - Glioblastoma multiforme(93;4.77e-14)		TCCCTTGCCCGTGGGAGTATT	0.413													10	22					0	0	1	0	0		A	189038590	A	A	189038590	3	1	103	1	0	0	0	0	1	0	0	0	16444	1145	40	1	827	1	TPRG1	3	189038590	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1622113	189038590	8983840	438	62387											
CCDC50	152137	broad.mit.edu	37	chr3	191087798	191087798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccctgcaacccgtgcttatGcagatagttactattatgaa	11	13	7	10	1	0	2	0	1	0	1	1	2	1	2	2	0	5	4	2	0	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:191087798G>A	uc003fsw.2	+	5	1011	c.421G>A	c.(421-423)GCA>ACA	p.A141T	CCDC50_uc003fsv.2_Missense_Mutation_p.A141T	NM_174908	NP_777568	Q8IVM0	CCD50_HUMAN	Ymer protein short isoform	141						cytoplasm	protein binding				0	all_cancers(143;8.88e-09)|Ovarian(172;0.103)|Breast(254;0.221)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000136)		CCGTGCTTATGCAGATAGTTA	0.383													48	97					0	0	1	0	0		A	191087798	A	A	191087798	3	1	103	1	0	0	0	0	1	0	0	0	2823	1319	46	2	439	2	CCDC50	3	191087798	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2049208	191087798	6934632	439	62388											
C3orf59	151963	broad.mit.edu	37	chr3	192516769	192516769	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacttcttcaactgcacctcGctcctggcaaaggacagccg	9	8	8	16	2	2	0	1	0	1	0	4	1	3	1	3	2	3	3	3	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:192516769G>A	uc011bsp.1	-	2	1203	c.882C>T	c.(880-882)AGC>AGT	p.S294S		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	294											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		ACTGCACCTCGCTCCTGGCAA	0.517													16	25					0	0	1	0	0		A	192516769	A	A	192516769	2	1	103	1	0	0	0	0	0	0	0	1	2240	1078	38	1		1	C3orf59	3	192516769	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1428971	192516769	5505661	440	62389											
OPA1	4976	broad.mit.edu	37	chr3	193336664	193336664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttatctttaaggttctcCggaagaaacggcgtttagag	11	14	10	6	3	2	2	0	0	2	2	3	3	2	3	1	3	1	2	1	3	6	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:193336664C>T	uc003ftm.2	+	5	797	c.563C>T	c.(562-564)CCG>CTG	p.P188L	OPA1_uc003ftg.2_Missense_Mutation_p.P206L|OPA1_uc003fth.2_Missense_Mutation_p.P170L|OPA1_uc003fti.2_Missense_Mutation_p.P188L|OPA1_uc003ftj.2_Missense_Mutation_p.P206L|OPA1_uc003ftk.2_Missense_Mutation_p.P152L|OPA1_uc003ftl.2_Missense_Mutation_p.P170L|OPA1_uc003ftn.2_Missense_Mutation_p.P152L	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1	188	Mitochondrial intermembrane (By similarity).				apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		TAAGGTTCTCCGGAAGAAACG	0.378													36	71					0	0	1	0	0		T	193336664	T	T	193336664	3	4	103	1	0	0	0	0	1	0	0	0	10890	652	23	1	639	1	OPA1	3	193336664	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	819895	193336664	4685766	441	62390											
ACAP2	23527	broad.mit.edu	37	chr3	195013108	195013108	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggtttttttcatatgaCgccctataaagctgaagtcc	11	13	9	8	1	1	2	1	2	0	0	2	3	2	3	2	2	1	2	2	2	6	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:195013108C>T	uc003fun.3	-	19	2080	c.1839G>A	c.(1837-1839)GCG>GCA	p.A613A		NM_012287	NP_036419	Q15057	ACAP2_HUMAN	centaurin, beta 2	613					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)	2						TTTCATATGACGCCCTATAAA	0.413													43	69					0	0	1	0	0		T	195013108	T	T	195013108	2	4	103	1	0	0	0	0	0	0	0	1	119	523	19	1		1	ACAP2	3	195013108	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1676444	195013108	3009322	442	62391											
PCYT1A	5130	broad.mit.edu	37	chr3	195966504	195966504	+	Frame_Shift_Del	DEL	T	-	-																															cttctgaatgaggtcaatgcTtttttcctccaccttctgaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:195966504delT	uc003fwg.2	-	9	984	c.811delA	c.(811-813)AGCfs	p.S271fs	uc003fwf.1_5'Flank|PCYT1A_uc003fwh.2_Frame_Shift_Del_p.S271fs	NM_005017	NP_005008	P49585	PCY1A_HUMAN	choline phosphate cytidylyltransferase 1 alpha	271	3 X 11 AA approximate tandem repeats.|Amphipathic (Potential).					cytosol|soluble fraction	choline-phosphate cytidylyltransferase activity				0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.28e-24)|all cancers(36;1.01e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00259)	Choline(DB00122)	AGGTCAATGCTTTTTTCCTCC	0.423													22	38	---	---	---	---						.	-	195966504	-	-	195966504	7	5	103	1	0	1	0	1	0	0	0	0	11629	1609	56	0	300	0	PCYT1A	3	195966504	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	953396	195966504	2055926	443	62392											
RNF168	165918	broad.mit.edu	37	chr3	196229935	196229935	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggtcgactggaagcacggtTtacacagcgtgtggttacac	9	9	13	10	4	0	0	0	0	0	0	1	2	0	1	0	4	4	3	0	4	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:196229935T>C	uc003fwq.2	-	1	648	c.110A>G	c.(109-111)AAA>AGA	p.K37R	RNF168_uc010iah.2_5'UTR	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	37	RING-type.				double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		GAAGCACGGTTTACACAGCGT	0.587													34	59					0	0	1	0	0		C	196229935	C	C	196229935	3	2	103	1	0	0	0	0	1	0	0	0	13484	1841	64	3	1629	3	RNF168	3	196229935	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	263431	196229935	1792495	444	62393											
LRRC33	375387	broad.mit.edu	37	chr3	196386950	196386950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtcaggaaacgccctgacgGaggacatggcagccctcatg	10	6	13	12	2	2	1	2	1	0	0	2	4	2	4	2	4	2	1	2	4	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:196386950G>A	uc003fwv.2	+	3	540	c.436G>A	c.(436-438)GAG>AAG	p.E146K		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	146	Extracellular (Potential).|LRR 4.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		CGCCCTGACGGAGGACATGGC	0.662													12	25					0	0	1	0	0		A	196386950	A	A	196386950	3	1	103	1	0	0	0	0	1	0	0	0	9006	1175	41	4	442	4	LRRC33	3	196386950	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	157015	196386950	1635480	445	62394											
DLG1	1739	broad.mit.edu	37	chr3	196792302	196792302	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatctacctcataatctcGttttggtctagttgtatctt	7	19	5	10	1	5	0	1	0	4	0	7	0	6	0	2	1	1	3	2	1	4	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:196792302G>A	uc003fxo.3	-	23	2441	c.2251C>T	c.(2251-2253)CGA>TGA	p.R751*	DLG1_uc011bub.1_Nonsense_Mutation_p.R647*|DLG1_uc011buc.1_Nonsense_Mutation_p.R635*|DLG1_uc011bud.1_Nonsense_Mutation_p.R434*|DLG1_uc003fxn.3_Nonsense_Mutation_p.R773*|DLG1_uc011bue.1_Nonsense_Mutation_p.R739*|DLG1_uc010ial.2_Nonsense_Mutation_p.R751*	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	751	Guanylate kinase-like.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		TCATAATCTCGTTTTGGTCTA	0.313													18	35					0	0	1	0	0		A	196792302	A	A	196792302	4	1	103	1	0	0	0	0	0	1	0	0	4560	1153	40	1	479	1	DLG1	3	196792302	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	405352	196792302	1230128	446	62395											
DLG1	1739	broad.mit.edu	37	chr3	196793609	196793609	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actggttcataagataagacGtattcttcttgaccacctat	12	14	6	9	1	3	3	1	1	2	2	3	3	3	3	2	1	0	2	2	1	4	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr3:196793609G>A	uc003fxo.3	-	21	2287	c.2097C>T	c.(2095-2097)TAC>TAT	p.Y699Y	DLG1_uc011bub.1_Silent_p.Y595Y|DLG1_uc011buc.1_Silent_p.Y583Y|DLG1_uc011bud.1_Silent_p.Y382Y|DLG1_uc003fxn.3_Silent_p.Y721Y|DLG1_uc011bue.1_Silent_p.Y687Y|DLG1_uc010ial.2_Silent_p.Y699Y	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	699					actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		AAGATAAGACGTATTCTTCTT	0.303													30	60					0	0	1	0	0		A	196793609	A	A	196793609	2	1	103	1	0	0	0	0	0	0	0	1	4560	1140	40	1		1	DLG1	3	196793609	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1307	196793609	1228821	447	62396											
PDE6B	5158	broad.mit.edu	37	chr4	661762	661762	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgaaggctctggaggagAaggaggaggaggagagggtg	13	4	22	2	0	1	3	0	1	1	2	1	9	1	7	0	8	0	1	0	8	3	0	rs138682290	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:661762A>G	uc003gap.2	+	21	2523	c.2470A>G	c.(2470-2472)AAG>GAG	p.K824E	PDE6B_uc003gao.3_Missense_Mutation_p.K824E|PDE6B_uc011buy.1_Missense_Mutation_p.K545E|PDE6B_uc011buz.1_Missense_Mutation_p.K256E	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	824					cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						TCTGGAGGAGAAGGAGGAGGA	0.562													44	67					0	0	1	0	0		G	661762	G	G	661762	3	3	103	1	0	0	0	0	1	0	0	0	11665	247	9	3	2552	3	PDE6B	4	661762	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08		661762	190492514	448	62397											
OTOP1	133060	broad.mit.edu	37	chr4	4199699	4199699	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcccgatgttcttccacaGgacgtagagcattgtggagg	8	9	14	10	3	1	1	0	0	1	1	2	4	2	3	2	3	1	3	2	3	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:4199699G>A	uc003ghp.1	-	5	892	c.862C>T	c.(862-864)CTG>TTG	p.L288L		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	288	Helical; (Potential).				biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TTCTTCCACAGGACGTAGAGC	0.562													27	45					0	0	1	0	0		A	4199699	A	A	4199699	2	1	103	1	0	0	0	0	0	0	0	1	11324	991	35	4		4	OTOP1	4	4199699	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3537937	4199699	186954577	449	62398											
OTOP1	133060	broad.mit.edu	37	chr4	4228387	4228387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagccccgccacgaacaCgatcagcccatactggctgc	10	4	9	18	3	1	0	1	0	0	0	1	2	1	0	4	1	6	2	4	1	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:4228387C>T	uc003ghp.1	-	1	235	c.205G>A	c.(205-207)GTG>ATG	p.V69M		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	69	Helical; (Potential).				biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GCCACGAACACGATCAGCCCA	0.602													3	5					0	0	1	0	0		T	4228387	T	T	4228387	3	4	103	1	0	0	0	0	1	0	0	0	11324	536	19	1	1657	1	OTOP1	4	4228387	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	28688	4228387	186925889	450	62399											
EVC2	132884	broad.mit.edu	37	chr4	5620262	5620262	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaactctgcttctcgccaCgcagtctgaaattgctgcag	9	10	9	13	3	3	1	0	1	3	0	4	2	3	1	1	0	4	4	1	0	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:5620262C>T	uc003gij.2	-	15	2703	c.2649G>A	c.(2647-2649)GCG>GCA	p.A883A	EVC2_uc011bwb.1_Silent_p.A323A|EVC2_uc003gik.2_Silent_p.A803A	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	883						integral to membrane				large_intestine(3)|ovary(2)	5						CTTCTCGCCACGCAGTCTGAA	0.612													21	30					0	0	1	0	0		T	5620262	T	T	5620262	2	4	103	1	0	0	0	0	0	0	0	1	5294	523	19	1		1	EVC2	4	5620262	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1391875	5620262	185534014	451	62400											
EVC	2121	broad.mit.edu	37	chr4	5803693	5803693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaggacactgatggaggCggcagtggagagcgtctacg	10	6	17	8	3	2	3	1	1	1	2	2	6	2	5	0	5	2	1	0	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:5803693C>T	uc003gil.1	+	16	2505	c.2321C>T	c.(2320-2322)GCG>GTG	p.A774V	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	774					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				CTGATGGAGGCGGCAGTGGAG	0.607													12	13					0	0	1	0	0		T	5803693	T	T	5803693	3	4	103	1	0	0	0	0	1	0	0	0	5293	768	27	1	2383	1	EVC	4	5803693	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	183431	5803693	185350583	452	62401											
C4orf50	389197	broad.mit.edu	37	chr4	5990091	5990091	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccatggggccattgctcaGggagctcagagcttgcccct	7	9	12	13	0	2	1	2	0	0	1	2	2	2	2	4	3	5	3	4	3	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:5990091G>T	uc003git.1	-	1	76	c.-14C>A	c.(-16--12)CCCTG>CCATG			NM_207405	NP_997288	Q6ZRC1	CD050_HUMAN	hypothetical protein LOC389197											pancreas(2)|breast(1)	3						CCATTGCTCAGGGAGCTCAGA	0.493													11	25					7.03913e-09	7.29497e-09	1	1	0		T	5990091	T	T	5990091	1	4	103	1	0	0	0	0	0	0	0	0	2279	1015	35	5		5	C4orf50	4	5990091	Translation_Start_Site	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	186398	5990091	185164185	453	62402											
JAKMIP1	152789	broad.mit.edu	37	chr4	6107463	6107463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgtcggccgcgccgtcgcGcagcacgttcagcgtggcct	3	8	14	16	8	1	0	1	0	0	0	3	0	1	0	3	2	2	3	3	2	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:6107463G>A	uc003giu.3	-	3	637	c.361C>T	c.(361-363)CGC>TGC	p.R121C	JAKMIP1_uc010idb.1_Missense_Mutation_p.R121C|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Missense_Mutation_p.R121C|JAKMIP1_uc011bwc.1_Intron|JAKMIP1_uc003giv.3_Missense_Mutation_p.R121C|JAKMIP1_uc010ide.2_Missense_Mutation_p.R121C	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	121	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GCGCCGTCGCGCAGCACGTTC	0.731													10	14					0	0	1	0	0		A	6107463	A	A	6107463	3	1	103	1	0	0	0	0	1	0	0	0	7956	1087	38	1	2285	1	JAKMIP1	4	6107463	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	117372	6107463	185046813	454	62403											
JAKMIP1	152789	broad.mit.edu	37	chr4	6107671	6107671	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctccagcttcgcctcctgCagccgctcgcgcagtttgcc	3	9	10	19	5	0	0	0	0	0	0	4	0	2	0	5	0	4	6	5	0	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:6107671C>T	uc003giu.3	-	3	429	c.153G>A	c.(151-153)CTG>CTA	p.L51L	JAKMIP1_uc010idb.1_Silent_p.L51L|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Silent_p.L51L|JAKMIP1_uc011bwc.1_Intron|JAKMIP1_uc003giv.3_Silent_p.L51L|JAKMIP1_uc010ide.2_Silent_p.L51L	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	51	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TCGCCTCCTGCAGCCGCTCGC	0.527													13	21					0	0	1	0	0		T	6107671	T	T	6107671	2	4	103	1	0	0	0	0	0	0	0	1	7956	697	25	2		2	JAKMIP1	4	6107671	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	208	6107671	185046605	455	62404											
SORCS2	57537	broad.mit.edu	37	chr4	7725544	7725544	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagagccccggcatctacCgcgtgtccgtcagggcagag	8	5	14	14	5	2	2	1	0	1	2	3	3	3	2	4	2	2	2	4	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:7725544C>T	uc003gkb.3	+	19	2545	c.2545C>T	c.(2545-2547)CGC>TGC	p.R849C	SORCS2_uc011bwi.1_Missense_Mutation_p.R677C	NM_020777	NP_065828	Q96PQ0	SORC2_HUMAN	VPS10 domain receptor protein SORCS 2 precursor	849	PKD.|Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2						CGGCATCTACCGCGTGTCCGT	0.522													29	45					0	0	1	0	0		T	7725544	T	T	7725544	3	4	103	1	0	0	0	0	1	0	0	0	14956	652	23	1	2619	1	SORCS2	4	7725544	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1617873	7725544	183428732	456	62405											
SH3TC1	54436	broad.mit.edu	37	chr4	8228895	8228895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgcttggaagccgaggatGactgggaggacccagaggcc	9	6	16	10	1	1	2	0	1	1	1	1	7	1	6	3	5	2	1	3	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:8228895G>A	uc003gkv.3	+	12	1575	c.1474G>A	c.(1474-1476)GAC>AAC	p.D492N	SH3TC1_uc003gkw.3_Missense_Mutation_p.D416N|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	492							binding			large_intestine(2)|pancreas(1)	3						AGCCGAGGATGACTGGGAGGA	0.662													7	9					0	0	1	0	0		A	8228895	A	A	8228895	3	1	103	1	0	0	0	0	1	0	0	0	14286	1290	45	4	1516	4	SH3TC1	4	8228895	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	503351	8228895	182925381	457	62406											
ACOX3	8310	broad.mit.edu	37	chr4	8398744	8398744	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtggctgagaagcgaagagCgatggccacggccagcttta	11	6	15	9	3	0	2	0	1	0	2	0	5	0	2	2	3	3	2	2	3	3	2	rs116281866	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:8398744C>T	uc010idk.2	-	9	1121	c.976G>A	c.(976-978)GCT>ACT	p.A326T	ACOX3_uc003glc.3_Missense_Mutation_p.A326T|ACOX3_uc003gld.3_Missense_Mutation_p.A326T|ACOX3_uc003gle.1_Missense_Mutation_p.A231T	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	326					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						AAGCGAAGAGCGATGGCCACG	0.587													19	53					0	0	1	0	0		T	8398744	T	T	8398744	3	4	103	1	0	0	0	0	1	0	0	0	160	768	27	1	1166	1	ACOX3	4	8398744	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	169849	8398744	182755532	458	62407											
GPR78	27201	broad.mit.edu	37	chr4	8588903	8588903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctccgccggccgttccGccaagtcctggccggcatgg	3	8	13	17	5	1	0	0	0	1	0	4	0	4	0	7	4	1	3	7	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:8588903G>A	uc003glk.2	+	3	1324	c.905G>A	c.(904-906)CGC>CAC	p.R302H	CPZ_uc003gll.2_Intron	NM_080819	NP_543009	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	302	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(4)|ovary(2)	6						CGGCCGTTCCGCCAAGTCCTG	0.662													27	30					0	0	1	0	0		A	8588903	A	A	8588903	3	1	103	1	0	0	0	0	1	0	0	0	6725	1087	38	1	915	1	GPR78	4	8588903	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	190159	8588903	182565373	459	62408											
CPZ	8532	broad.mit.edu	37	chr4	8608573	8608573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccggctggcggagacccGcggcgcacgcagcgaccaca	8	2	14	17	7	0	1	0	0	0	1	0	3	0	1	3	4	2	3	3	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:8608573G>A	uc003glm.2	+	6	1142	c.1016G>A	c.(1015-1017)CGC>CAC	p.R339H	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Missense_Mutation_p.R202H|CPZ_uc003glo.2_Missense_Mutation_p.R328H|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	339					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						GCGGAGACCCGCGGCGCACGC	0.652													19	16					0	0	1	0	0		A	8608573	A	A	8608573	3	1	103	1	0	0	0	0	1	0	0	0	3842	1087	38	1	1038	1	CPZ	4	8608573	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	19670	8608573	182545703	460	62409											
WDR1	9948	broad.mit.edu	37	chr4	10080545	10080545	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgccaccgtgtccccgccGgggtgcactgccacaacttc	6	8	10	17	3	0	0	0	0	0	0	2	0	1	0	6	2	4	1	6	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:10080545G>A	uc003gmf.2	-	12	1648	c.1365C>T	c.(1363-1365)CCC>CCT	p.P455P	WDR1_uc003gmg.2_Silent_p.P315P|WDR1_uc010idm.2_RNA|hsa-mir-3138|MI0014161_5'Flank	NM_017491	NP_059830	O75083	WDR1_HUMAN	WD repeat-containing protein 1 isoform 1	455	WD 8.				platelet activation|platelet degranulation|sensory perception of sound	cytoskeleton|cytosol|extracellular region	actin binding			ovary(2)|pancreas(1)	3				STAD - Stomach adenocarcinoma(129;0.000703)|Colorectal(103;0.0057)|LUSC - Lung squamous cell carcinoma(721;0.0232)		TGTCCCCGCCGGGGTGCACTG	0.597													19	27					0	0	1	0	0		A	10080545	A	A	10080545	2	1	103	1	0	0	0	0	0	0	0	1	17298	1103	39	1		1	WDR1	4	10080545	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1471972	10080545	181073731	461	62410											
HS3ST1	9957	broad.mit.edu	37	chr4	11400913	11400913	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagttcgaagcattgatctgCggcgacagctttaggaacct	11	10	11	9	3	1	1	0	1	1	0	2	4	1	2	1	2	4	3	1	2	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:11400913C>T	uc003gmq.2	-	2	1040	c.717G>A	c.(715-717)CCG>CCA	p.P239P		NM_005114	NP_005105	O14792	HS3S1_HUMAN	heparan sulfate D-glucosaminyl	239						Golgi lumen|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			skin(1)	1						CATTGATCTGCGGCGACAGCT	0.567													24	26					0	0	1	0	0		T	11400913	T	T	11400913	2	4	103	1	0	0	0	0	0	0	0	1	7379	755	27	1		1	HS3ST1	4	11400913	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1320368	11400913	179753363	462	62411											
CPEB2	132864	broad.mit.edu	37	chr4	15009113	15009113	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatgtcatagcaccaccgaAatttactcgctcaactccat	13	11	4	13	2	2	0	2	0	0	0	4	1	3	0	3	0	3	2	3	0	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:15009113A>G	uc003gni.1	+	2	623	c.536A>G	c.(535-537)AAA>AGA	p.K179R	CPEB2_uc003gnj.1_Missense_Mutation_p.K179R|CPEB2_uc003gnk.1_Missense_Mutation_p.K179R|CPEB2_uc003gnl.1_Missense_Mutation_p.K179R|CPEB2_uc003gnm.1_Missense_Mutation_p.K179R|CPEB2_uc003gnn.1_Missense_Mutation_p.K179R	NM_182485	NP_872291	Q7Z5Q1	CPEB2_HUMAN	cytoplasmic polyadenylation element binding	179					regulation of translation	cytoplasm	nucleotide binding|RNA binding			skin(1)	1						GCACCACCGAAATTTACTCGC	0.398													31	55					0	0	1	0	0		G	15009113	G	G	15009113	3	3	103	1	0	0	0	0	1	0	0	0	3804	14	1	3	1853	3	CPEB2	4	15009113	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	3608200	15009113	176145163	463	62412											
CCKAR	886	broad.mit.edu	37	chr4	26483560	26483560	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaggcgttggcgctgaaGatgggcatccagcacaggaa	10	5	15	11	3	0	2	0	1	0	1	1	3	1	3	2	4	1	4	2	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:26483560G>T	uc003gse.1	-	5	1140	c.987C>A	c.(985-987)ATC>ATA	p.I329I		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	329	Helical; Name=6; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	TGGCGCTGAAGATGGGCATCC	0.607													33	57					3.11337e-16	3.31179e-16	1	1	0		T	26483560	T	T	26483560	2	4	103	1	0	0	0	0	0	0	0	1	2883	932	33	5		5	CCKAR	4	26483560	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	11474447	26483560	164670716	464	62413											
TLR1	7096	broad.mit.edu	37	chr4	38800236	38800236	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatgagaaattatcaaaaTcctcagttttgacagtgata	16	14	6	5	0	2	3	2	3	0	1	3	4	3	3	1	0	0	1	1	0	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:38800236T>C	uc003gtl.2	-	4	491	c.217A>G	c.(217-219)ATT>GTT	p.I73V		NM_003263	NP_003254	Q15399	TLR1_HUMAN	toll-like receptor 1 precursor	73	Extracellular (Potential).|LRR 2.				cellular response to triacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|inflammatory response|innate immune response|macrophage activation|positive regulation of interleukin-6 biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	integral to plasma membrane|phagocytic vesicle membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	protein heterodimerization activity|transmembrane receptor activity			lung(2)|skin(2)|prostate(1)	5						ATTATCAAAATCCTCAGTTTT	0.328													56	103					0	0	1	0	0		C	38800236	C	C	38800236	3	2	103	1	0	0	0	0	1	0	0	0	15974	1435	50	3	2147	3	TLR1	4	38800236	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	12316676	38800236	152354040	465	62414											
N4BP2	55728	broad.mit.edu	37	chr4	40127935	40127935	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagaagaaattgccttacaGgaaaaacataatttggtatg	17	11	8	5	0	1	2	1	0	0	2	1	3	1	3	1	2	3	1	1	2	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:40127935G>A	uc003guy.3	+	12	4850	c.4512G>A	c.(4510-4512)CAG>CAA	p.Q1504Q	N4BP2_uc010ifq.2_Silent_p.Q1424Q|N4BP2_uc010ifr.2_Silent_p.Q1424Q	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	1504						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						TTGCCTTACAGGAAAAACATA	0.279													10	23					0	0	1	0	0		A	40127935	A	A	40127935	2	1	103	1	0	0	0	0	0	0	0	1	10128	991	35	4		4	N4BP2	4	40127935	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1327699	40127935	151026341	466	62415											
RBM47	54502	broad.mit.edu	37	chr4	40440469	40440469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggcggcagttgtccaCgctgcagcacacgccgagca	10	4	14	13	4	0	1	0	0	0	1	1	3	1	1	2	2	3	6	2	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:40440469C>T	uc003gvc.2	-	4	1152	c.442G>A	c.(442-444)GTG>ATG	p.V148M	RBM47_uc003gvd.2_Missense_Mutation_p.V148M|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Missense_Mutation_p.V110M|RBM47_uc003gvg.1_Missense_Mutation_p.V148M	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	148	RRM 1.					nucleus	nucleotide binding|RNA binding			breast(3)	3						CAGTTGTCCACGCTGCAGCAC	0.627													25	28					0	0	1	0	0		T	40440469	T	T	40440469	3	4	103	1	0	0	0	0	1	0	0	0	13166	536	19	1	1355	1	RBM47	4	40440469	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	312534	40440469	150713807	467	62416											
BEND4	389206	broad.mit.edu	37	chr4	42145857	42145857	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccctttcccaatgtgacaGtgctcctgtctttcgttgta	6	15	7	13	1	1	1	0	1	1	0	4	1	3	1	4	0	1	3	4	0	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:42145857G>C	uc003gwn.2	-	3	1222	c.642C>G	c.(640-642)CAC>CAG	p.H214Q	BEND4_uc003gwm.2_Missense_Mutation_p.H214Q|BEND4_uc011byy.1_Missense_Mutation_p.H214Q	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	214											0						CAATGTGACAGTGCTCCTGTC	0.443													15	19					0	0	1	0	0		C	42145857	C	C	42145857	3	2	103	1	0	0	0	0	1	0	0	0	1401	1020	36	5	978	5	BEND4	4	42145857	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1705388	42145857	149008419	468	62417											
SPATA18	132671	broad.mit.edu	37	chr4	52943043	52943043	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgtcaaggtcaggagacCgtccccaaaccgctccaagc	10	5	10	16	3	2	1	2	0	0	1	4	2	4	1	5	2	2	2	5	2	3	0	rs150116592		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:52943043C>A	uc003gzl.2	+	7	1135	c.857C>A	c.(856-858)CCG>CAG	p.P286Q	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.P254Q|SPATA18_uc003gzk.1_Missense_Mutation_p.P286Q	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	286	Ser-rich.				mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			GTCAGGAGACCGTCCCCAAAC	0.672													23	35					7.87624e-14	8.31787e-14	1	1	0		A	52943043	A	A	52943043	3	1	103	1	0	0	0	0	1	0	0	0	15028	652	23	5	883	5	SPATA18	4	52943043	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	10797186	52943043	138211233	469	62418											
PDGFRA	5156	broad.mit.edu	37	chr4	55129867	55129867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtacctctaggaatgaCggattatttagtcatcgtgg	9	15	10	7	2	2	1	1	1	1	0	3	3	2	3	1	3	1	1	1	3	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:55129867C>T	uc003han.3	+	4	732	c.401C>T	c.(400-402)ACG>ATG	p.T134M	PDGFRA_uc003haa.2_Intron|PDGFRA_uc003hal.2_Missense_Mutation_p.T134M|PDGFRA_uc010igq.1_Missense_Mutation_p.T28M|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	134	Extracellular (Potential).|Ig-like C2-type 2.				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	CTAGGAATGACGGATTATTTA	0.408			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			30	89					0	0	1	0	0		T	55129867	T	T	55129867	3	4	103	1	0	0	0	0	1	0	0	0	11680	536	19	1	411	1	PDGFRA	4	55129867	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2186824	55129867	136024409	470	62419											
CEP135	9662	broad.mit.edu	37	chr4	56841070	56841070	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactccaacatataatacagCgaagatcttgctctacaagt	15	10	6	10	1	2	1	0	0	2	1	3	3	3	1	1	0	5	1	1	0	7	5	rs138291324		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:56841070C>T	uc003hbi.2	+	11	1642	c.1408C>T	c.(1408-1410)CGA>TGA	p.R470*	CEP135_uc003hbj.2_Nonsense_Mutation_p.R176*	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	470	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					TATAATACAGCGAAGATCTTG	0.358													23	59					0	0	1	0	0		T	56841070	T	T	56841070	4	4	103	1	0	0	0	0	0	1	0	0	3250	760	27	1	1446	1	CEP135	4	56841070	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1711203	56841070	134313206	471	62420											
KIAA1211	57482	broad.mit.edu	37	chr4	57179502	57179503	+	Frame_Shift_Ins	INS	-	A	A																															cacaagctggctgttaagccINSaaaaaaacagagggtgtcaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:57179502_57179503insA	uc003hbk.2	+	7	885_886	c.494_495insA	c.(493-495)CCAfs	p.P165fs	KIAA1211_uc010iha.2_Frame_Shift_Ins_p.P158fs|KIAA1211_uc011bzz.1_Frame_Shift_Ins_p.P75fs|KIAA1211_uc003hbm.1_Frame_Shift_Ins_p.P51fs	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	165										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					GCTGTTAAGCCAAAAAAACAGA	0.569													29	64	---	---	---	---						.	A	57179503	A	A	57179502	7	5	103	1	0	1	1	0	0	0	0	0	8231	594	21	0	508	0	KIAA1211	4	57179502	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	338432	57179502	133974774	472	62421											
KIAA1211	57482	broad.mit.edu	37	chr4	57181497	57181497	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggcccggcagtcaaccTgagccagatcaaggacaccg	10	5	12	14	2	2	2	2	1	0	1	2	3	2	3	4	3	2	1	4	3	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:57181497T>C	uc003hbk.2	+	8	2220	c.1829T>C	c.(1828-1830)CTG>CCG	p.L610P	KIAA1211_uc010iha.2_Missense_Mutation_p.L603P|KIAA1211_uc011bzz.1_Missense_Mutation_p.L520P|KIAA1211_uc003hbm.1_Missense_Mutation_p.L496P	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	610										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					GCAGTCAACCTGAGCCAGATC	0.677													13	11					0	0	1	0	0		C	57181497	C	C	57181497	3	2	103	1	0	0	0	0	1	0	0	0	8231	1580	55	3	1847	3	KIAA1211	4	57181497	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1995	57181497	133972779	473	62422											
PAICS	10606	broad.mit.edu	37	chr4	57307843	57307843	+	Frame_Shift_Del	DEL	A	-	-																															ccacagtactgaacattggtAaaaaattatatgagggtaaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:57307843delA	uc003hbs.1	+	3	262	c.31delA	c.(31-33)AAAfs	p.K11fs	PAICS_uc011cac.1_Frame_Shift_Del_p.K11fs|PAICS_uc003hbt.1_Frame_Shift_Del_p.K11fs|PAICS_uc003hbu.1_Frame_Shift_Del_p.K11fs|PAICS_uc010ihd.1_Frame_Shift_Del_p.K12fs	NM_006452	NP_006443	P22234	PUR6_HUMAN	phosphoribosylaminoimidazole carboxylase,	11	SAICAR synthetase.				'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|identical protein binding|phosphoribosylaminoimidazole carboxylase activity|phosphoribosylaminoimidazolesuccinocarboxamide synthase activity				0	Glioma(25;0.08)|all_neural(26;0.101)				L-Aspartic Acid(DB00128)	GAACATTGGTAAAAAATTATA	0.358													5	8	---	---	---	---						.	-	57307843	-	-	57307843	7	5	103	1	0	1	0	1	0	0	0	0	11414	363	13	0	37	0	PAICS	4	57307843	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	126346	57307843	133846433	474	62423											
EPHA5	2044	broad.mit.edu	37	chr4	66467573	66467573	+	Frame_Shift_Del	DEL	T	-	-																															tgtcgtaccacagaagggcaTtttttatagtatacacgcac																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:66467573delT	uc003hcy.2	-	3	889	c.696delA	c.(694-696)AAAfs	p.K232fs	EPHA5_uc003hcx.2_Frame_Shift_Del_p.K163fs|EPHA5_uc003hcz.2_Frame_Shift_Del_p.K232fs|EPHA5_uc011cah.1_Frame_Shift_Del_p.K232fs|EPHA5_uc011cai.1_Frame_Shift_Del_p.K232fs|EPHA5_uc003hda.2_Frame_Shift_Del_p.K232fs	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	232	Extracellular (Potential).|Cys-rich.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CAGAAGGGCATTTTTTATAGT	0.448										TSP Lung(17;0.13)			24	34	---	---	---	---						.	-	66467573	-	-	66467573	7	5	103	1	0	1	0	1	0	0	0	0	5178	1490	52	0	2481	0	EPHA5	4	66467573	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	9159730	66467573	124686703	475	62424											
TMPRSS11F	389208	broad.mit.edu	37	chr4	68930611	68930611	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttcgtttcactgcgggTggtgttatagttgcaccaaa	9	14	10	8	2	1	0	1	0	0	0	2	0	1	0	1	2	2	4	1	2	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:68930611T>C	uc003hdt.1	-	8	856	c.807A>G	c.(805-807)CCA>CCG	p.P269P	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron|SYT14L_uc010ihn.2_5'Flank	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	269	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						TCACTGCGGGTGGTGTTATAG	0.348													15	26					0	0	1	0	0		C	68930611	C	C	68930611	2	2	103	1	0	0	0	0	0	0	0	1	16268	1683	59	3		3	TMPRSS11F	4	68930611	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2463038	68930611	122223665	476	62425											
YTHDC1	91746	broad.mit.edu	37	chr4	69182036	69182036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccttgtgcacttactactCgtttatctctgtatcttgct	5	19	5	12	1	2	0	0	0	2	0	5	0	3	0	1	0	4	4	1	0	4	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:69182036C>T	uc003hdx.2	-	16	2308	c.1955G>A	c.(1954-1956)CGA>CAA	p.R652Q	YTHDC1_uc003hdy.2_Missense_Mutation_p.R634Q	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	652	Arg-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						ACTTACTACTCGTTTATCTCT	0.458													82	111					0	0	1	0	0		T	69182036	T	T	69182036	3	4	103	1	0	0	0	0	1	0	0	0	17522	884	31	1	236	1	YTHDC1	4	69182036	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	251425	69182036	121972240	477	62426											
AMTN	401138	broad.mit.edu	37	chr4	71394929	71394930	+	Splice_Site	INS	-	A	A																															ctaagctcagaggaattggtINSaaaaaaaataaaaatactat																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:71394929_71394930insA	uc003hfk.1	+	7	446	c.357_splice	c.e7+2	p.L119_splice	AMTN_uc010ihy.1_Splice_Site_p.L118_splice	NM_212557	NP_997722	Q6UX39	AMTN_HUMAN	amelotin precursor						biomineral tissue development|cell adhesion|odontogenesis of dentine-containing tooth	basal lamina|cell-cell junction				large_intestine(1)|central_nervous_system(1)	2			Lung(101;0.235)			GAGGAATTGGTAAAAAAAATAA	0.267													6	12	---	---	---	---						.	A	71394930	A	A	71394929	8	5	103	1	0	1	1	0	0	0	1	0	590	1652	57	0	381	0	AMTN	4	71394929	Splice_Site	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	2212893	71394929	119759347	478	62427											
UTP3	57050	broad.mit.edu	37	chr4	71555158	71555158	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttggtggaacaagggaTcattccacccggaaaaggaa	15	6	13	7	1	1	1	1	0	0	1	2	5	2	5	2	5	1	1	2	5	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:71555158T>A	uc003hfo.2	+	1	963	c.764T>A	c.(763-765)ATC>AAC	p.I255N		NM_020368	NP_065101	Q9NQZ2	SAS10_HUMAN	UTP3, small subunit processome component	255					brain development|chromatin modification|gene silencing	nucleolus					0			Lung(101;0.235)			GAACAAGGGATCATTCCACCC	0.433													29	64					0	0	1	0	0		A	71555158	A	A	71555158	3	1	103	1	0	0	0	0	1	0	0	0	17127	1435	50	5	766	5	UTP3	4	71555158	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	160229	71555158	119599118	479	62428											
RUFY3	22902	broad.mit.edu	37	chr4	71660563	71660563	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagaaagaagattacaaaaCgacaggagcatcccaggaag	21	3	10	7	1	0	3	0	0	0	3	1	6	1	5	1	2	3	1	1	2	7	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:71660563C>T	uc003hfr.2	+	14	2104	c.1509C>T	c.(1507-1509)AAC>AAT	p.N503N	RUFY3_uc011cay.1_Silent_p.N439N	NM_001037442	NP_001032519	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			GATTACAAAACGACAGGAGCA	0.363													36	63					0	0	1	0	0		T	71660563	T	T	71660563	2	4	103	1	0	0	0	0	0	0	0	1	13765	535	19	1		1	RUFY3	4	71660563	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	105405	71660563	119493713	480	62429											
CCDC158	339965	broad.mit.edu	37	chr4	77300523	77300523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccagatcgctgagctgacGcatatacatagagttttggt	10	13	10	8	2	0	4	0	2	0	2	2	4	1	4	1	1	2	4	1	1	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:77300523G>A	uc003hkb.3	-	8	1102	c.949C>T	c.(949-951)CGT>TGT	p.R317C	CCDC158_uc003hkd.2_Missense_Mutation_p.R317C	NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	317	Potential.									skin(3)|ovary(2)|pancreas(1)	6						CTGAGCTGACGCATATACATA	0.398													24	42					0	0	1	0	0		A	77300523	A	A	77300523	3	1	103	1	0	0	0	0	1	0	0	0	2793	1087	38	1	2460	1	CCDC158	4	77300523	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5639960	77300523	113853753	481	62430											
SHROOM3	57619	broad.mit.edu	37	chr4	77660524	77660524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcatttcggcaccgtgagCggcccagctcctggtctagc	6	8	12	15	3	1	1	0	1	1	0	3	1	2	1	3	3	4	3	3	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:77660524C>T	uc011cbx.1	+	5	2151	c.1198C>T	c.(1198-1200)CGG>TGG	p.R400W	SHROOM3_uc011cbz.1_Missense_Mutation_p.R224W|SHROOM3_uc003hkf.1_Missense_Mutation_p.R275W|SHROOM3_uc003hkg.2_Missense_Mutation_p.R178W	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	400					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			GCACCGTGAGCGGCCCAGCTC	0.587													25	42					0	0	1	0	0		T	77660524	T	T	77660524	3	4	103	1	0	0	0	0	1	0	0	0	14320	759	27	1	1216	1	SHROOM3	4	77660524	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	360001	77660524	113493752	482	62431											
CNOT6L	246175	broad.mit.edu	37	chr4	78697453	78697453	+	Frame_Shift_Del	DEL	T	-	-																															tctaattctgcccagtgagaTtttttcccattggctacctc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:78697453delT	uc011ccd.1	-	2	230	c.99delA	c.(97-99)AAAfs	p.K33fs	CNOT6L_uc003hks.2_Frame_Shift_Del_p.K33fs|CNOT6L_uc011cce.1_Frame_Shift_Del_p.K33fs	NM_144571	NP_653172	Q96LI5	CNO6L_HUMAN	CCR4-NOT transcription complex, subunit 6-like	33					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	exonuclease activity|protein binding			large_intestine(1)	1						CCCAGTGAGATTTTTTCCCAT	0.373													68	89	---	---	---	---						.	-	78697453	-	-	78697453	7	5	103	1	0	1	0	1	0	0	0	0	3626	1490	52	0	1612	0	CNOT6L	4	78697453	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	1036929	78697453	112456823	483	62432											
FRAS1	80144	broad.mit.edu	37	chr4	79300892	79300892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttttcaggcaaaatacacaCccctagtcttcatgtgaatg	12	13	6	10	0	3	1	2	1	1	0	3	1	3	1	2	1	1	1	2	1	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:79300892C>T	uc003hlb.2	+	27	3745	c.3305C>T	c.(3304-3306)ACC>ATC	p.T1102I	FRAS1_uc003hkw.2_Missense_Mutation_p.T1102I	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	1101	CSPG 1.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						AAAATACACACCCCTAGTCTT	0.418													23	29					0	0	1	0	0		T	79300892	T	T	79300892	3	4	103	1	0	0	0	0	1	0	0	0	6056	507	18	4	3411	4	FRAS1	4	79300892	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	603439	79300892	111853384	484	62433											
FRAS1	80144	broad.mit.edu	37	chr4	79410048	79410049	+	Frame_Shift_Ins	INS	-	A	A																															tgcccagcatgcagtttgccINSaaggatttgctcctagtgaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:79410048_79410049insA	uc003hlb.2	+	59	9212_9213	c.8772_8773insA	c.(8770-8775)GCCAAGfs	p.A2924fs		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2919_2920	Calx-beta 4.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TGCAGTTTGCCAAGGATTTGCT	0.54													13	18	---	---	---	---						.	A	79410049	A	A	79410048	7	5	103	1	0	1	1	0	0	0	0	0	6056	581	21	0	9081	0	FRAS1	4	79410048	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	109156	79410048	111744228	485	62434											
BMP2K	55589	broad.mit.edu	37	chr4	79786730	79786730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaataacagataccattggaCcaacagaaacctcaattgca	18	7	6	10	0	1	2	1	0	0	2	1	4	1	3	3	1	5	1	3	1	6	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:79786730C>T	uc003hlk.2	+	10	1253	c.1087C>T	c.(1087-1089)CCA>TCA	p.P363S	BMP2K_uc010ijl.1_RNA|BMP2K_uc003hlj.2_Missense_Mutation_p.P363S	NM_198892	NP_942595	Q9NSY1	BMP2K_HUMAN	BMP-2 inducible kinase isoform a	363						nucleus	ATP binding|protein serine/threonine kinase activity			lung(1)	1						TACCATTGGACCAACAGAAAC	0.373													22	34					0	0	1	0	0		T	79786730	T	T	79786730	3	4	103	1	0	0	0	0	1	0	0	0	1461	507	18	4	1125	4	BMP2K	4	79786730	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	376682	79786730	111367546	486	62435											
THAP9	79725	broad.mit.edu	37	chr4	83838382	83838382	+	Frame_Shift_Del	DEL	T	-	-																															tggagaacacctcttggttaTttttttgtaaacagagcatc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:83838382delT	uc003hnt.2	+	5	1136	c.1017delT	c.(1015-1017)TATfs	p.Y339fs	THAP9_uc003hns.1_Frame_Shift_Del_p.Y195fs|THAP9_uc003hnu.1_RNA|THAP9_uc003hnv.2_Frame_Shift_Del_p.Y56fs	NM_024672	NP_078948	Q9H5L6	THAP9_HUMAN	THAP domain containing 9	339							DNA binding|metal ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	5		Hepatocellular(203;0.114)				CTCTTGGTTATTTTTTTGTAA	0.413													54	98	---	---	---	---						.	-	83838382	-	-	83838382	7	5	103	1	0	1	0	1	0	0	0	0	15876	1500	52	0	1035	0	THAP9	4	83838382	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	4051652	83838382	107315894	487	62436											
PLAC8	51316	broad.mit.edu	37	chr4	84026090	84026090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagagagtcctcattgcgaCgcttgttccacacagacagc	10	9	10	12	2	1	2	1	0	0	2	3	4	3	2	2	0	2	3	2	0	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:84026090C>T	uc003hoe.2	-	3	363	c.202G>A	c.(202-204)GTC>ATC	p.V68I	PLAC8_uc011cco.1_Missense_Mutation_p.V68I|PLAC8_uc010ijy.2_RNA|PLAC8_uc010ijz.2_Intron|PLAC8_uc003hod.2_Missense_Mutation_p.V68I	NM_001130716	NP_001124188	Q9NZF1	PLAC8_HUMAN	placenta-specific 8	68										ovary(1)	1		Hepatocellular(203;0.114)				CTCATTGCGACGCTTGTTCCA	0.448													26	50					0	0	1	0	0		T	84026090	T	T	84026090	3	4	103	1	0	0	0	0	1	0	0	0	12034	536	19	1	153	1	PLAC8	4	84026090	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	187708	84026090	107128186	488	62437											
SPP1	6696	broad.mit.edu	37	chr4	88898240	88898240	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgattctggaagttctgaGgaaaagcaggtaagcatctt	12	11	12	6	0	3	2	0	2	3	0	3	4	3	4	0	3	2	5	0	3	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:88898240G>T	uc003hra.2	+	3	249	c.84G>T	c.(82-84)GAG>GAT	p.E28D	SPP1_uc003hrb.2_Missense_Mutation_p.E28D|SPP1_uc003hrc.2_Missense_Mutation_p.E28D|SPP1_uc011cde.1_Translation_Start_Site|SPP1_uc003hrd.2_Missense_Mutation_p.E28D	NM_001040058	NP_001035147	P10451	OSTP_HUMAN	secreted phosphoprotein 1 isoform a	28					biomineral tissue development|cell adhesion|decidualization|embryo implantation|ossification|response to vitamin D	extracellular space	cytokine activity			ovary(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-05)		GAAGTTCTGAGGAAAAGCAGG	0.353													17	28					1.64113e-05	1.67208e-05	1	1	0		T	88898240	T	T	88898240	3	4	103	1	0	0	0	0	1	0	0	0	15111	991	35	5	90	5	SPP1	4	88898240	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4872150	88898240	102256036	489	62438											
ATOH1	474	broad.mit.edu	37	chr4	94750179	94750179	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccgcaaccgccgccgccGccgcagccacctgcaacttt	6	5	8	22	6	0	0	0	0	0	0	1	0	1	0	8	0	4	3	8	0	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:94750179G>A	uc003hta.1	+	1	102	c.102G>A	c.(100-102)CCG>CCA	p.P34P		NM_005172	NP_005163	Q92858	ATOH1_HUMAN	atonal homolog 1	34	Poly-Pro.				transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;3.57e-07)		CGCCGCCGCCGCCGCAGCCAC	0.672													19	27					0	0	1	0	0		A	94750179	A	A	94750179	2	1	103	1	0	0	0	0	0	0	0	1	1113	1074	38	1		1	ATOH1	4	94750179	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5851939	94750179	96404097	490	62439											
ATOH1	474	broad.mit.edu	37	chr4	94750450	94750450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccgggccggtgaaagtgCgggaacagctgtgcaagctg	8	5	17	11	3	0	1	0	1	0	0	0	2	0	2	3	3	5	3	3	3	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:94750450C>T	uc003hta.1	+	1	373	c.373C>T	c.(373-375)CGG>TGG	p.R125W		NM_005172	NP_005163	Q92858	ATOH1_HUMAN	atonal homolog 1	125					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;3.57e-07)		GGTGAAAGTGCGGGAACAGCT	0.692													15	27					0	0	1	0	0		T	94750450	T	T	94750450	3	4	103	1	0	0	0	0	1	0	0	0	1113	759	27	1	375	1	ATOH1	4	94750450	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	271	94750450	96403826	491	62440											
HPGDS	27306	broad.mit.edu	37	chr4	95239029	95239029	+	Frame_Shift_Del	DEL	T	-	-																															caataaacatgttacctgtgTttttggtcaaatatcttgct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:95239029delT	uc003hte.1	-	3	312	c.221delA	c.(220-222)AACfs	p.N74fs		NM_014485	NP_055300	O60760	HPGDS_HUMAN	prostaglandin D2 synthase, hematopoietic	74	GST N-terminal.				locomotory behavior|prostaglandin biosynthetic process|signal transduction	cytoplasm|nucleus	calcium ion binding|glutathione transferase activity|magnesium ion binding|prostaglandin-D synthase activity|protein homodimerization activity			ovary(1)	1					Glutathione(DB00143)	GTTACCTGTGTTTTTGGTCAA	0.308													18	35	---	---	---	---						.	-	95239029	-	-	95239029	7	5	103	1	0	1	0	1	0	0	0	0	7351	1725	60	0	394	0	HPGDS	4	95239029	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	488579	95239029	95915247	492	62441											
DAPP1	27071	broad.mit.edu	37	chr4	100789277	100789278	+	Frame_Shift_Ins	INS	-	A	A																															gtgtactttattacagtcacINSaaataagaaaacagctcaac																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:100789277_100789278insA	uc003hvf.3	+	9	868_869	c.778_779insA	c.(778-780)CAAfs	p.Q260fs	DAPP1_uc010ilh.2_3'UTR	NM_014395	NP_055210	Q9UN19	DAPP1_HUMAN	dual adaptor of phosphotyrosine and	260					signal transduction	cytoplasm|plasma membrane	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein tyrosine phosphatase activity				0				OV - Ovarian serous cystadenocarcinoma(123;7.04e-09)		ATTACAGTCACAAATAAGAAAA	0.396													42	64	---	---	---	---						.	A	100789278	A	A	100789277	7	5	103	1	0	1	1	0	0	0	0	0	4242	479	17	0	812	0	DAPP1	4	100789277	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	5550248	100789277	90364999	493	62442											
BANK1	55024	broad.mit.edu	37	chr4	102951317	102951317	+	Frame_Shift_Del	DEL	A	-	-																															tggccaatctgagtataaagAaaaaaactgggagtcggtct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:102951317delA	uc003hvy.3	+	10	2069	c.1795delA	c.(1795-1797)AAAfs	p.K599fs	BANK1_uc003hvx.3_Frame_Shift_Del_p.K584fs|BANK1_uc010ill.2_Frame_Shift_Del_p.K466fs|BANK1_uc003hvz.3_Frame_Shift_Del_p.K569fs	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	599					B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		GAGTATAAAGAAAAAAACTGG	0.348													37	73	---	---	---	---						.	-	102951317	-	-	102951317	7	5	103	1	0	1	0	1	0	0	0	0	1310	247	9	0	1833	0	BANK1	4	102951317	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	2162040	102951317	88202959	494	62443											
SLC39A8	64116	broad.mit.edu	37	chr4	103228644	103228644	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaagagtcccaatagccagCcccacaaaaaaggtcaaaat	20	4	6	11	0	1	1	1	0	0	1	2	1	2	1	4	1	2	0	4	1	9	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:103228644C>T	uc003hwb.1	-	3	1030	c.501G>A	c.(499-501)GGG>GGA	p.G167G	SLC39A8_uc011ceo.1_Silent_p.G167G|SLC39A8_uc003hwa.1_Silent_p.G100G|SLC39A8_uc003hwc.2_Silent_p.G167G	NM_022154	NP_071437	Q9C0K1	S39A8_HUMAN	solute carrier family 39 (zinc transporter),	167	Helical; (Potential).					integral to membrane|organelle membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(203;0.217)		all cancers(1;9.78e-10)|OV - Ovarian serous cystadenocarcinoma(123;1.52e-09)|GBM - Glioblastoma multiforme(1;0.000142)		CAATAGCCAGCCCCACAAAAA	0.363													53	102					0	0	1	0	0		T	103228644	T	T	103228644	2	4	103	1	0	0	0	0	0	0	0	1	14649	726	26	2		2	SLC39A8	4	103228644	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	277327	103228644	87925632	495	62444											
NHEDC1	150159	broad.mit.edu	37	chr4	103870465	103870465	+	Frame_Shift_Del	DEL	T	-	-																															tattctaatgagttgtaaaaTttttcccccaataatggcac																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:103870465delT	uc003hww.2	-	4	453	c.331delA	c.(331-333)ATTfs	p.I111fs	NHEDC1_uc003hwu.2_Frame_Shift_Del_p.I111fs|NHEDC1_uc010ilm.2_5'UTR|NHEDC1_uc003hwv.2_Intron|NHEDC1_uc011cev.1_Intron	NM_139173	NP_631912	Q4ZJI4	NHDC1_HUMAN	Na+/H+ exchanger domain containing 1 isoform 1	111	Helical; (Potential).					integral to membrane	solute:hydrogen antiporter activity			ovary(1)|skin(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;1.5e-08)		AGTTGTAAAATTTTTCCCCCA	0.348													48	67	---	---	---	---						.	-	103870465	-	-	103870465	7	5	103	1	0	1	0	1	0	0	0	0	10419	1493	52	0	1352	0	NHEDC1	4	103870465	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	641821	103870465	87283811	496	62445											
TACR3	6870	broad.mit.edu	37	chr4	104512673	104512673	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagcagtagatgatgggAttgtacatggttgagctcat	12	11	13	5	0	1	4	1	2	0	2	1	5	1	5	0	2	3	5	0	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:104512673A>T	uc003hxe.1	-	4	1199	c.1056T>A	c.(1054-1056)AAT>AAA	p.N352K		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	352	Helical; Name=7; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		AGATGATGGGATTGTACATGG	0.408													40	70					0	0	1	0	0		T	104512673	T	T	104512673	3	4	103	1	0	0	0	0	1	0	0	0	15532	330	12	5	349	5	TACR3	4	104512673	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	642208	104512673	86641603	497	62446											
NPNT	255743	broad.mit.edu	37	chr4	106861729	106861729	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctttgctcgatgttataaCatacgtgggtcctacaagtg	10	13	10	8	2	0	0	0	0	0	0	2	1	1	0	1	1	5	3	1	1	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:106861729C>T	uc003hya.2	+	7	904	c.699C>T	c.(697-699)AAC>AAT	p.N233N	NPNT_uc011cfc.1_Silent_p.N250N|NPNT_uc011cfd.1_Silent_p.N263N|NPNT_uc011cfe.1_Silent_p.N263N|NPNT_uc010ilt.1_Silent_p.N233N|NPNT_uc011cff.1_Silent_p.N233N|NPNT_uc010ilu.1_Silent_p.N129N	NM_001033047	NP_001028219	Q6UXI9	NPNT_HUMAN	nephronectin precursor	233	EGF-like 5; calcium-binding (Potential).				cell differentiation	membrane	calcium ion binding			skin(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.41e-07)		GATGTTATAACATACGTGGGT	0.423													39	62					0	0	1	0	0		T	106861729	T	T	106861729	2	4	103	1	0	0	0	0	0	0	0	1	10609	477	17	4		4	NPNT	4	106861729	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2349056	106861729	84292547	498	62447											
ALPK1	80216	broad.mit.edu	37	chr4	113352968	113352968	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtttccagaaaccaactgCgatgtcaaagacaggcaggg	14	6	12	9	1	1	2	1	0	0	2	2	4	2	2	2	2	3	2	2	2	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:113352968C>T	uc003iap.3	+	11	2544	c.2265C>T	c.(2263-2265)TGC>TGT	p.C755C	ALPK1_uc003ian.3_Silent_p.C755C|ALPK1_uc011cfx.1_Silent_p.C677C|ALPK1_uc003iao.3_Intron|ALPK1_uc010imo.2_Silent_p.C583C	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	755							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		AAACCAACTGCGATGTCAAAG	0.468													24	44					0	0	1	0	0		T	113352968	T	T	113352968	2	4	103	1	0	0	0	0	0	0	0	1	544	776	27	1		1	ALPK1	4	113352968	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	6491239	113352968	77801308	499	62448											
NDST4	64579	broad.mit.edu	37	chr4	115773883	115773884	+	Frame_Shift_Ins	INS	-	T	T																															caattggctatttttacctgINSttttttgtggaccaattact																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:115773883_115773884insT	uc003ibu.2	-	8	2492_2493	c.1813_1814insA	c.(1813-1815)ACAfs	p.T605fs	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	605	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 4.|PAPS (By similarity).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		ATTTTTACCTGTTTTTTGTGGA	0.307													22	24	---	---	---	---						.	T	115773884	T	T	115773883	7	5	103	1	0	1	1	0	0	0	0	0	10277	1377	48	0	832	0	NDST4	4	115773883	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	2420915	115773883	75380393	500	62449											
NDST3	9348	broad.mit.edu	37	chr4	118975891	118975891	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggttctttttggcaacaacTtgaacttttggctgcacaag	9	14	10	8	0	1	1	0	1	1	0	1	1	1	1	0	3	4	4	0	3	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:118975891T>G	uc003ibx.2	+	2	1229	c.826T>G	c.(826-828)TTG>GTG	p.L276V	NDST3_uc011cgf.1_Missense_Mutation_p.L276V|NDST3_uc003ibw.2_Missense_Mutation_p.L276V	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	276	Lumenal (Potential).|Heparan sulfate N-deacetylase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						TGGCAACAACTTGAACTTTTG	0.418													57	118					0	0	1	0	0		G	118975891	G	G	118975891	3	3	103	1	0	0	0	0	1	0	0	0	10276	1606	56	5	828	5	NDST3	4	118975891	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	3202008	118975891	72178385	501	62450											
TRPC3	7222	broad.mit.edu	37	chr4	122853799	122853799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggggctcagagtgagaCgcttgctggccgcgaagcca	9	5	15	12	3	1	2	1	1	0	2	1	4	1	2	2	3	2	3	2	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:122853799C>T	uc003ieg.2	-	2	688	c.614G>A	c.(613-615)CGT>CAT	p.R205H	TRPC3_uc010inr.2_Missense_Mutation_p.R132H|TRPC3_uc003ief.2_Missense_Mutation_p.R132H|TRPC3_uc011cgl.1_5'UTR	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	120	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						CAGAGTGAGACGCTTGCTGGC	0.647													18	24					0	0	1	0	0		T	122853799	T	T	122853799	3	4	103	1	0	0	0	0	1	0	0	0	16605	536	19	1	2195	1	TRPC3	4	122853799	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3877908	122853799	68300477	502	62451											
ADAD1	132612	broad.mit.edu	37	chr4	123329146	123329146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagatggaagagtattgcatGacactcatgctgttgttaca	12	12	10	7	0	1	3	1	1	0	2	1	4	1	4	0	1	3	5	0	1	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:123329146G>A	uc003ieo.2	+	8	1040	c.808G>A	c.(808-810)GAC>AAC	p.D270N	ADAD1_uc003iep.2_Missense_Mutation_p.D270N|ADAD1_uc003ieq.2_Missense_Mutation_p.D252N	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	270	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						AGTATTGCATGACACTCATGC	0.388													33	38					0	0	1	0	0		A	123329146	A	A	123329146	3	1	103	1	0	0	0	0	1	0	0	0	231	1290	45	4	830	4	ADAD1	4	123329146	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	475347	123329146	67825130	503	62452											
PCDH18	54510	broad.mit.edu	37	chr4	138452697	138452697	+	Frame_Shift_Del	DEL	A	-	-																															ctggtccgaacctcgatattAaaaaaatcattggcagagag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:138452697delA	uc003ihe.3	-	1	933	c.546delT	c.(544-546)TTTfs	p.F182fs	PCDH18_uc003ihf.3_Frame_Shift_Del_p.F175fs|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_5'UTR|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	182	Extracellular (Potential).|Cadherin 2.				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					CCTCGATATTAAAAAAATCAT	0.493													26	33	---	---	---	---						.	-	138452697	-	-	138452697	7	5	103	1	0	1	0	1	0	0	0	0	11532	359	13	0	2877	0	PCDH18	4	138452697	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	15123551	138452697	52701579	504	62453											
TBC1D9	23158	broad.mit.edu	37	chr4	141578953	141578953	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctcctcaaagacaccttgGtccaccagtgcacctgtggc	9	8	9	15	0	1	1	1	0	0	1	3	1	3	1	5	2	2	2	5	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:141578953G>T	uc010ioj.2	-	12	2207	c.1935C>A	c.(1933-1935)GAC>GAA	p.D645E		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	645	Rab-GAP TBC.					intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				AGACACCTTGGTCCACCAGTG	0.507													65	100					9.61042e-55	1.04393e-54	1	1	0		T	141578953	T	T	141578953	3	4	103	1	0	0	0	0	1	0	0	0	15652	1252	44	5	1905	5	TBC1D9	4	141578953	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3126256	141578953	49575323	505	62454											
C4orf51	646603	broad.mit.edu	37	chr4	146601541	146601541	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caactggacaagtccatgtgCagccaattttcttttagagc	11	12	8	10	0	1	1	0	0	1	1	2	2	2	2	2	1	4	1	2	1	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:146601541C>T	uc003ikk.2	+	1	186	c.186C>T	c.(184-186)TGC>TGT	p.C62C		NM_001080531	NP_001074000	C9J302	CD051_HUMAN	chromosome 4 open reading frame 51	62											0						AGTCCATGTGCAGCCAATTTT	0.423													20	26					0	0	1	0	0		T	146601541	T	T	146601541	2	4	103	1	0	0	0	0	0	0	0	1	2280	718	25	2		2	C4orf51	4	146601541	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	5022588	146601541	44552735	506	62455											
FBXW7	55294	broad.mit.edu	37	chr4	153247289	153247289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatcatattgaacacagcGgactgctgcaacatgaccca	13	7	8	13	1	1	2	1	2	0	0	1	3	1	3	2	1	5	2	2	1	3	2	rs149680468		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:153247289G>A	uc003ims.2	-	10	1662	c.1513C>T	c.(1513-1515)CGC>TGC	p.R505C	FBXW7_uc011cii.1_Missense_Mutation_p.R505C|FBXW7_uc003imt.2_Missense_Mutation_p.R505C|FBXW7_uc011cih.1_Missense_Mutation_p.R329C|FBXW7_uc003imq.2_Missense_Mutation_p.R425C|FBXW7_uc003imr.2_Missense_Mutation_p.R387C	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	505	WD 4.		R -> L (in an ovarian cancer cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R505C(36)|p.R505L(6)|p.R505G(4)|p.R425C(2)|p.R425G(2)|p.R266G(2)|p.R505H(2)|p.R505S(1)|p.R505P(1)|p.R266C(1)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TGAACACAGCGGACTGCTGCA	0.468			Mis|N|D|F		colorectal|endometrial|T-ALL								52	66					0	0	1	0	0		A	153247289	A	A	153247289	3	1	103	1	0	0	0	0	1	0	0	0	5783	1116	39	1	622	1	FBXW7	4	153247289	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6645748	153247289	37906987	507	62456											
TDO2	6999	broad.mit.edu	37	chr4	156825180	156825180	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatttgcagatatacttttAaaaaactccccgtagaaggc	16	11	6	8	1	0	2	0	0	0	2	1	2	1	2	2	1	3	2	2	1	8	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:156825180A>T	uc003ipf.1	+	2	110	c.46A>T	c.(46-48)AAA>TAA	p.K16*		NM_005651	NP_005642	P48775	T23O_HUMAN	tryptophan 2,3-dioxygenase	16					tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)	ATATACTTTTAAAAAACTCCC	0.353													27	46					0	0	1	0	0		T	156825180	T	T	156825180	4	4	103	1	0	0	0	0	0	1	0	0	15752	363	13	5	52	5	TDO2	4	156825180	Nonsense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	3577891	156825180	34329096	508	62457											
FNIP2	57600	broad.mit.edu	37	chr4	159782570	159782571	+	Frame_Shift_Ins	INS	-	A	A																															tatgatgtccggcactttggINSaaaaaaaccagctctgccag																								rs10004242		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:159782570_159782571insA	uc003iqe.3	+	11	1408_1409	c.1225_1226insA	c.(1225-1227)GAAfs	p.E409fs		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	409					DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		CGGCACTTTGGAAAAAAACCAG	0.406													20	30	---	---	---	---						.	A	159782571	A	A	159782570	7	5	103	1	0	1	1	0	0	0	0	0	5990	1175	41	0	1267	0	FNIP2	4	159782570	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	2957390	159782570	31371706	509	62458											
FSTL5	56884	broad.mit.edu	37	chr4	162697165	162697165	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgcataatatatttttgAttttgtaaatctaatagcat	13	20	4	4	0	2	1	0	1	2	0	2	1	2	1	0	0	2	3	0	0	7	11			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:162697165A>C	uc003iqh.2	-	5	907	c.471T>G	c.(469-471)AAT>AAG	p.N157K	FSTL5_uc003iqi.2_Missense_Mutation_p.N156K|FSTL5_uc010iqv.2_Missense_Mutation_p.N156K	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	157						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TATATTTTTGATTTTGTAAAT	0.294													15	34					0	0	1	0	0		C	162697165	C	C	162697165	3	2	103	1	0	0	0	0	1	0	0	0	6094	330	12	5	2120	5	FSTL5	4	162697165	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2914595	162697165	28457111	510	62459											
TLL1	7092	broad.mit.edu	37	chr4	166910564	166910564	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgatattgccttagatgaTgaagacttaaatatctttca	13	14	8	6	1	2	4	1	2	1	2	2	5	2	4	1	1	1	0	1	1	6	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:166910564T>C	uc003irh.1	+	2	848	c.201T>C	c.(199-201)GAT>GAC	p.D67D	TLL1_uc011cjn.1_Silent_p.D67D|TLL1_uc011cjo.1_5'UTR	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	67					cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		CCTTAGATGATGAAGACTTAA	0.333													37	58					0	0	1	0	0		C	166910564	C	C	166910564	2	2	103	1	0	0	0	0	0	0	0	1	15970	1461	51	3		3	TLL1	4	166910564	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	4213399	166910564	24243712	511	62460											
ANXA10	11199	broad.mit.edu	37	chr4	169083678	169083678	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgtactttttcctccacaGgacctgattggggatatgag	9	14	10	8	0	0	2	0	2	0	0	2	4	2	4	3	3	1	1	3	3	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:169083678G>A	uc003irm.2	+	4	341	c.196_splice	c.e4-1	p.D66_splice	ANXA10_uc003irn.2_5'Flank	NM_007193	NP_009124	Q9UJ72	ANX10_HUMAN	annexin A10								calcium ion binding|calcium-dependent phospholipid binding				0		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0325)		TTCCTCCACAGGACCTGATTG	0.388													18	29					0	0	1	0	0		A	169083678	A	A	169083678	5	1	103	1	0	0	0	0	0	0	1	0	715	1014	35	4	209	4	ANXA10	4	169083678	Splice_Site	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2173114	169083678	22070598	512	62461											
NEK1	4750	broad.mit.edu	37	chr4	170322819	170322819	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacctgagtgccattcttcGttcagggcactttcactgct	6	13	9	13	1	3	1	2	1	1	0	4	1	3	1	2	1	2	4	2	1	0	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:170322819G>A	uc003isb.1	-	31	3975	c.3483C>T	c.(3481-3483)AAC>AAT	p.N1161N	NEK1_uc003isc.1_Silent_p.N1117N|NEK1_uc003isd.1_Silent_p.N1189N|NEK1_uc003ise.1_Silent_p.N1145N|NEK1_uc003isf.1_Silent_p.N1092N	NM_012224	NP_036356	Q96PY6	NEK1_HUMAN	NIMA-related kinase 1	1161					cell division|cilium assembly|mitosis	nucleus|pericentriolar material	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(3)|ovary(2)|large_intestine(1)	6		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)|KIRC - Kidney renal clear cell carcinoma(143;0.0325)|Kidney(143;0.0385)|LUSC - Lung squamous cell carcinoma(193;0.14)		GCCATTCTTCGTTCAGGGCAC	0.413													103	129					0	0	1	0	0		A	170322819	A	A	170322819	2	1	103	1	0	0	0	0	0	0	0	1	10340	1136	40	1		1	NEK1	4	170322819	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1239141	170322819	20831457	513	62462											
GALNTL6	442117	broad.mit.edu	37	chr4	173873245	173873245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgccgagtacatttaccagCggcggccggagtacaggcat	9	8	13	11	4	0	0	0	0	0	0	0	2	0	1	3	4	5	3	3	4	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:173873245C>T	uc003isv.2	+	10	1943	c.1207C>T	c.(1207-1209)CGG>TGG	p.R403W		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	403	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						CATTTACCAGCGGCGGCCGGA	0.512													31	49					0	0	1	0	0		T	173873245	T	T	173873245	3	4	103	1	0	0	0	0	1	0	0	0	6240	759	27	1	1241	1	GALNTL6	4	173873245	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3550426	173873245	17281031	514	62463											
GALNTL6	442117	broad.mit.edu	37	chr4	173930422	173930422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgtgtcaaggatggttctGaaagaacatggtctcatgaa	12	12	11	6	0	4	3	2	2	3	1	5	4	4	4	0	3	1	1	0	3	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:173930422G>A	uc003isv.2	+	11	2201	c.1465G>A	c.(1465-1467)GAA>AAA	p.E489K		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	489	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						GGATGGTTCTGAAAGAACATG	0.552													21	44					0	0	1	0	0		A	173930422	A	A	173930422	3	1	103	1	0	0	0	0	1	0	0	0	6240	1291	45	4	1503	4	GALNTL6	4	173930422	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	57177	173930422	17223854	515	62464											
ADAM29	11086	broad.mit.edu	37	chr4	175898755	175898755	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttattttattatgttgTctttatcgactttgtaaaaa	10	23	5	3	1	1	0	0	0	1	0	2	1	1	0	0	0	0	3	0	0	7	11			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:175898755T>C	uc003iuc.2	+	5	2749	c.2079T>C	c.(2077-2079)TGT>TGC	p.C693C	ADAM29_uc003iud.2_Silent_p.C693C|ADAM29_uc010irr.2_Silent_p.C693C|ADAM29_uc011cki.1_Silent_p.C693C	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	693	Helical; (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		TATTATGTTGTCTTTATCGAC	0.343													14	17					0	0	1	0	0		C	175898755	C	C	175898755	2	2	103	1	0	0	0	0	0	0	0	1	247	1673	58	3		3	ADAM29	4	175898755	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1968333	175898755	15255521	516	62465											
ADAM29	11086	broad.mit.edu	37	chr4	175898771	175898771	+	Frame_Shift_Del	DEL	A	-	-																															gttgtctttatcgactttgtAaaaaaagtaaaccaataaaa																								rs34732497		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:175898771delA	uc003iuc.2	+	5	2765	c.2095delA	c.(2095-2097)AAAfs	p.K699fs	ADAM29_uc003iud.2_Frame_Shift_Del_p.K699fs|ADAM29_uc010irr.2_Frame_Shift_Del_p.K699fs|ADAM29_uc011cki.1_Frame_Shift_Del_p.K699fs	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	699	Cytoplasmic (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		TCGACTTTGTAAAAAAAGTAA	0.348													14	25	---	---	---	---						.	-	175898771	-	-	175898771	7	5	103	1	0	1	0	1	0	0	0	0	247	363	13	0	2097	0	ADAM29	4	175898771	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	16	175898771	15255505	517	62466											
ENPP6	133121	broad.mit.edu	37	chr4	185038136	185038136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccagaaaatgtcggtcAttccgtgatccgagaaaata	14	9	8	10	3	1	3	1	1	0	2	5	4	4	3	4	1	0	0	4	1	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:185038136A>G	uc003iwc.2	-	5	870	c.728T>C	c.(727-729)ATG>ACG	p.M243T		NM_153343	NP_699174	Q6UWR7	ENPP6_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	243	Extracellular (Potential).				lipid catabolic process	extracellular region|integral to membrane|plasma membrane				central_nervous_system(1)	1		all_lung(41;7.99e-12)|Lung NSC(41;1.46e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;4.98e-27)|Epithelial(43;3.15e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.09e-12)|Colorectal(24;3.78e-05)|STAD - Stomach adenocarcinoma(60;4.5e-05)|COAD - Colon adenocarcinoma(29;0.000154)|GBM - Glioblastoma multiforme(59;0.000167)|BRCA - Breast invasive adenocarcinoma(30;0.000378)|LUSC - Lung squamous cell carcinoma(40;0.0151)		AATGTCGGTCATTCCGTGATC	0.532													20	38					0	0	1	0	0		G	185038136	G	G	185038136	3	3	103	1	0	0	0	0	1	0	0	0	5142	217	8	3	610	3	ENPP6	4	185038136	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	9139365	185038136	6116140	518	62467											
CCDC110	256309	broad.mit.edu	37	chr4	186379967	186379967	+	Frame_Shift_Del	DEL	T	-	-																															ttcttttagaagctggtgtgTttttttctctaacatttctt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:186379967delT	uc003ixu.3	-	6	1850	c.1774delA	c.(1774-1776)ACAfs	p.T592fs	CCDC110_uc003ixv.3_Frame_Shift_Del_p.T555fs|CCDC110_uc011ckt.1_Frame_Shift_Del_p.T592fs	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	592	Potential.					nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		AGCTGGTGTGTTTTTTTCTCT	0.303													16	31	---	---	---	---						.	-	186379967	-	-	186379967	7	5	103	1	0	1	0	1	0	0	0	0	2750	1725	60	0	735	0	CCDC110	4	186379967	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	1341831	186379967	4774309	519	62468											
TLR3	7098	broad.mit.edu	37	chr4	187004768	187004768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgactgagttagatatgcGctttaatccctttgattgca	9	15	8	9	1	0	4	0	3	0	1	1	4	1	4	2	0	2	3	2	0	3	6	rs150315296		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:187004768G>A	uc003iyq.2	+	4	2029	c.1928G>A	c.(1927-1929)CGC>CAC	p.R643H	TLR3_uc011ckz.1_Missense_Mutation_p.R366H|TLR3_uc003iyr.2_Missense_Mutation_p.R366H	NM_003265	NP_003256	O15455	TLR3_HUMAN	toll-like receptor 3 precursor	643	Lumenal (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|defense response to bacterium|defense response to virus|detection of virus|hyperosmotic response|I-kappaB phosphorylation|inflammatory response|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of osteoclast differentiation|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|toll-like receptor 3 signaling pathway	endoplasmic reticulum membrane|endosome membrane|integral to plasma membrane	double-stranded RNA binding|transmembrane receptor activity			ovary(2)|prostate(1)|lung(1)|breast(1)	5		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		TTAGATATGCGCTTTAATCCC	0.433													60	82					0	0	1	0	0		A	187004768	A	A	187004768	3	1	103	1	0	0	0	0	1	0	0	0	15977	1087	38	1	1938	1	TLR3	4	187004768	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	624801	187004768	4149508	520	62469											
FAT1	2195	broad.mit.edu	37	chr4	187541438	187541438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctacagcagtgacatagCgaatgacatggcccacctca	12	8	9	12	1	2	2	1	2	1	0	2	3	2	2	2	1	3	1	2	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr4:187541438C>T	uc003izf.2	-	10	6490	c.6302G>A	c.(6301-6303)CGC>CAC	p.R2101H		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2101	Extracellular (Potential).|Cadherin 19.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AGTGACATAGCGAATGACATG	0.468										HNSCC(5;0.00058)			63	135					0	0	1	0	0		T	187541438	T	T	187541438	3	4	103	1	0	0	0	0	1	0	0	0	5703	768	27	1	7536	1	FAT1	4	187541438	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	536670	187541438	3612838	521	62470											
SDHA	6389	broad.mit.edu	37	chr5	230997	230997	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctattgtttccagaggctaCgggcgcacctacttcagctg	7	12	10	12	2	2	1	1	0	1	1	3	1	3	1	2	2	3	4	2	2	3	6	rs140243793		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:230997C>T	uc003jao.3	+	7	892	c.777C>T	c.(775-777)TAC>TAT	p.Y259Y	SDHA_uc003jan.2_Silent_p.Y259Y|SDHA_uc011clv.1_Silent_p.Y259Y|SDHA_uc011clw.1_Silent_p.Y211Y|SDHA_uc003jap.3_Silent_p.Y259Y|SDHA_uc003jaq.3_Silent_p.Y34Y|SDHA_uc003jar.3_Translation_Start_Site	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	259					nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	CCAGAGGCTACGGGCGCACCT	0.602									Familial_Paragangliomas				18	54					0	0	1	0	0		T	230997	T	T	230997	2	4	103	1	0	0	0	0	0	0	0	1	13988	547	19	1		1	SDHA	5	230997	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08		230997	180684263	522	62471											
SDHA	6389	broad.mit.edu	37	chr5	233669	233669	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcattaacagtcaaggcgaaAggtttatggagcgatacgcc	13	9	11	8	3	2	0	2	0	0	0	2	3	2	1	1	3	3	1	1	3	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:233669A>G	uc003jao.3	+	8	1088	c.973A>G	c.(973-975)AGG>GGG	p.R325G	SDHA_uc003jan.2_Missense_Mutation_p.R325G|SDHA_uc011clv.1_Missense_Mutation_p.R325G|SDHA_uc011clw.1_Missense_Mutation_p.R277G|SDHA_uc003jap.3_Missense_Mutation_p.R325G|SDHA_uc003jaq.3_Missense_Mutation_p.R100G|SDHA_uc003jar.3_5'UTR	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	325					nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	TCAAGGCGAAAGGTTTATGGA	0.507									Familial_Paragangliomas				66	112					0	0	1	0	0		G	233669	G	G	233669	3	3	103	1	0	0	0	0	1	0	0	0	13988	63	3	3	1003	3	SDHA	5	233669	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2672	233669	180681591	523	62472											
CLPTM1L	81037	broad.mit.edu	37	chr5	1335244	1335244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgccccagtgagaccttgtCgtaggacacggtgaggggca	8	6	15	12	3	0	2	0	2	0	1	1	4	0	3	4	4	0	2	4	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:1335244C>T	uc003jch.2	-	6	770	c.724G>A	c.(724-726)GAC>AAC	p.D242N	CLPTM1L_uc003jcg.2_Missense_Mutation_p.D109N	NM_030782	NP_110409	Q96KA5	CLP1L_HUMAN	CLPTM1-like	242	Extracellular (Potential).				apoptosis	integral to membrane				breast(1)|central_nervous_system(1)	2	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		GAGACCTTGTCGTAGGACACG	0.637													47	63					0	0	1	0	0		T	1335244	T	T	1335244	3	4	103	1	0	0	0	0	1	0	0	0	3558	884	31	1	940	1	CLPTM1L	5	1335244	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1101575	1335244	179580016	524	62473											
FASTKD3	79072	broad.mit.edu	37	chr5	7867738	7867738	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaagatgctattctccagTatttcttttggcagcccttg	8	16	8	9	0	2	2	0	1	2	1	3	2	2	2	2	1	2	3	2	1	3	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:7867738T>C	uc003jeb.2	-	2	596	c.459A>G	c.(457-459)ATA>ATG	p.I153M	FASTKD3_uc011cmp.1_Intron|FASTKD3_uc003jec.2_Intron|MTRR_uc010itn.1_5'Flank|MTRR_uc003jee.3_5'Flank|MTRR_uc003jed.2_5'Flank|MTRR_uc003jef.3_5'Flank|MTRR_uc003jeg.3_5'Flank|MTRR_uc010ito.2_5'Flank	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	153					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						TATTCTCCAGTATTTCTTTTG	0.438													29	44					0	0	1	0	0		C	7867738	C	C	7867738	3	2	103	1	0	0	0	0	1	0	0	0	5701	1628	57	3	1553	3	FASTKD3	5	7867738	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	6532494	7867738	173047522	525	62474											
TRIO	7204	broad.mit.edu	37	chr5	14291209	14291209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggacctgcagaacctcttgCccaaggtgtccaccatgctg	8	8	10	15	1	1	1	0	0	1	1	2	2	2	2	5	2	4	2	5	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:14291209C>T	uc003jff.2	+	5	931	c.925C>T	c.(925-927)CCC>TCC	p.P309S	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.P260S|TRIO_uc003jfh.1_5'Flank	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	309					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GAACCTCTTGCCCAAGGTGTC	0.557													39	51					0	0	1	0	0		T	14291209	T	T	14291209	3	4	103	1	0	0	0	0	1	0	0	0	16578	739	26	2	943	2	TRIO	5	14291209	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	6423471	14291209	166624051	526	62475											
TRIO	7204	broad.mit.edu	37	chr5	14364895	14364895	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctggagcagtgcgtgcaGctgcgccacctgcaggcaga	8	5	14	14	2	0	1	0	0	0	1	0	2	0	2	3	2	6	5	3	2	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:14364895G>A	uc003jff.2	+	15	2730	c.2724G>A	c.(2722-2724)CAG>CAA	p.Q908Q	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Silent_p.Q859Q|TRIO_uc003jfh.1_Silent_p.Q557Q	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	908	Spectrin 3.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					AGTGCGTGCAGCTGCGCCACC	0.547											OREG0016458	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	27					0	0	1	0	0		A	14364895	A	A	14364895	2	1	103	1	0	0	0	0	0	0	0	1	16578	962	34	2		2	TRIO	5	14364895	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	73686	14364895	166550365	527	62476											
FAM134B	54463	broad.mit.edu	37	chr5	16475174	16475174	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgagaccagctgctgattgCgtctctttgcttggtctgtg	4	15	13	9	1	2	2	0	2	2	1	3	3	2	2	1	1	4	3	1	1	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:16475174C>T	uc003jfs.2	-	9	1208	c.1170G>A	c.(1168-1170)ACG>ACA	p.T390T	FAM134B_uc003jfr.2_Silent_p.T249T	NM_001034850	NP_001030022	Q9H6L5	F134B_HUMAN	hypothetical protein LOC54463 isoform 1	390					sensory perception of pain	cis-Golgi network|endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3						CTGCTGATTGCGTCTCTTTGC	0.493													37	44					0	0	1	0	0		T	16475174	T	T	16475174	2	4	103	1	0	0	0	0	0	0	0	1	5457	755	27	1		1	FAM134B	5	16475174	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2110279	16475174	164440086	528	62477											
MYO10	4651	broad.mit.edu	37	chr5	16794807	16794807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacaggcagcggtagcactCgttggcgatggcgaagatgt	9	7	15	10	4	0	1	0	0	0	1	1	3	0	1	1	4	2	4	1	4	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:16794807C>T	uc003jft.3	-	4	883	c.415G>A	c.(415-417)GAG>AAG	p.E139K	MYO10_uc003jfu.2_Missense_Mutation_p.E106K	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	139	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CGGTAGCACTCGTTGGCGATG	0.657													10	22					0	0	1	0	0		T	16794807	T	T	16794807	3	4	103	1	0	0	0	0	1	0	0	0	10080	893	31	1	5913	1	MYO10	5	16794807	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	319633	16794807	164120453	529	62478											
BASP1	10409	broad.mit.edu	37	chr5	17275856	17275856	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactcaaaacccggcagctcGgaggctgccccctcttccaa	9	6	9	17	2	2	0	1	0	1	0	4	2	3	1	4	3	3	3	4	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:17275856G>A	uc003jfx.2	+	2	710	c.531G>A	c.(529-531)TCG>TCA	p.S177S		NM_006317	NP_006308	P80723	BASP1_HUMAN	brain abundant, membrane attached signal protein	177					glomerular visceral epithelial cell differentiation|negative regulation of transcription, DNA-dependent	cytoplasm|cytoskeleton|growth cone|nuclear speck|plasma membrane	protein domain specific binding|transcription corepressor activity|transcription regulatory region DNA binding				0						CCGGCAGCTCGGAGGCTGCCC	0.662													12	13					0	0	1	0	0		A	17275856	A	A	17275856	2	1	103	1	0	0	0	0	0	0	0	1	1318	1103	39	1		1	BASP1	5	17275856	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	481049	17275856	163639404	530	62479											
CDH9	1007	broad.mit.edu	37	chr5	26885830	26885830	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcatgtttccttgattaTcgcaggcacacacacggata	11	12	8	10	2	0	1	0	1	0	0	2	2	1	2	1	2	1	4	1	2	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:26885830T>G	uc003jgs.1	-	11	1944	c.1775A>C	c.(1774-1776)GAT>GCT	p.D592A	CDH9_uc011cnv.1_Missense_Mutation_p.D185A	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	592	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TCCTTGATTATCGCAGGCACA	0.473													11	17					0	0	1	0	0		G	26885830	G	G	26885830	3	3	103	1	0	0	0	0	1	0	0	0	3120	1435	50	5	602	5	CDH9	5	26885830	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	9609974	26885830	154029430	531	62480											
PDZD2	23037	broad.mit.edu	37	chr5	31983496	31983496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaagaatccaagggcagcGctggctgtgaggtgtccagt	9	8	15	9	1	0	3	0	2	0	1	2	3	2	3	2	3	1	3	2	3	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:31983496G>A	uc003jhl.2	+	3	1100	c.712G>A	c.(712-714)GCT>ACT	p.A238T	PDZD2_uc003jhm.2_Missense_Mutation_p.A238T|PDZD2_uc011cnx.1_Missense_Mutation_p.A64T	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	238					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CAAGGGCAGCGCTGGCTGTGA	0.572													34	55					0	0	1	0	0		A	31983496	A	A	31983496	3	1	103	1	0	0	0	0	1	0	0	0	11720	1087	38	1	718	1	PDZD2	5	31983496	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5097666	31983496	148931764	532	62481											
SKP2	6502	broad.mit.edu	37	chr5	36182090	36182090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaagaaccaggagatatgggGcatcaaatgccgactgacac	16	5	11	9	1	1	3	1	1	0	2	1	5	1	3	2	3	2	1	2	3	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:36182090G>A	uc003jkc.1	+	10	1414	c.1232G>A	c.(1231-1233)GGC>GAC	p.G411D	SKP2_uc011cou.1_Missense_Mutation_p.G197D|SKP2_uc003jkd.2_Intron	NM_005983	NP_005974	Q13309	SKP2_HUMAN	S-phase kinase-associated protein 2 isoform 1	411					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G1/S transition of mitotic cell cycle|S phase of mitotic cell cycle	nucleoplasm|SCF ubiquitin ligase complex	protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4	all_lung(31;5.63e-05)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GAGATATGGGGCATCAAATGC	0.448													17	33					0	0	1	0	0		A	36182090	A	A	36182090	3	1	103	1	0	0	0	0	1	0	0	0	14387	1203	42	2	1270	2	SKP2	5	36182090	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4198594	36182090	144733170	533	62482											
RICTOR	253260	broad.mit.edu	37	chr5	38963142	38963142	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaaggctgcactggctcGcctaatgagaaaaacaattc	13	9	9	10	1	1	1	1	1	0	1	3	2	1	1	1	2	2	4	1	2	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:38963142G>A	uc003jlp.2	-	17	1426	c.1402C>T	c.(1402-1404)CGA>TGA	p.R468*	RICTOR_uc003jlo.2_Nonsense_Mutation_p.R468*|RICTOR_uc010ivf.2_Nonsense_Mutation_p.R183*	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	468					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					GCACTGGCTCGCCTAATGAGA	0.358													18	35					0	0	1	0	0		A	38963142	A	A	38963142	4	1	103	1	0	0	0	0	0	1	0	0	13383	1101	38	1	3812	1	RICTOR	5	38963142	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2781052	38963142	141952118	534	62483											
FBXO4	26272	broad.mit.edu	37	chr5	41941319	41941319	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatacagaggctgaaactcTgactggttttttgaatggca	11	12	12	6	0	1	4	0	3	1	1	1	5	1	5	0	4	2	3	0	4	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:41941319T>C	uc003jmq.2	+	7	1156	c.1100T>C	c.(1099-1101)CTG>CCG	p.L367P	FBXO4_uc003jmr.2_3'UTR	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	367					positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)				GCTGAAACTCTGACTGGTTTT	0.388													22	40					0	0	1	0	0		C	41941319	C	C	41941319	3	2	103	1	0	0	0	0	1	0	0	0	5762	1580	55	3	1152	3	FBXO4	5	41941319	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2978177	41941319	138973941	535	62484											
FBXO4	26272	broad.mit.edu	37	chr5	41941337	41941337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctgactggttttttgaatgGcattgagtggattcttgaag	8	17	12	4	0	2	4	0	4	2	0	2	5	2	5	0	3	0	2	0	3	2	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:41941337G>A	uc003jmq.2	+	7	1174	c.1118G>A	c.(1117-1119)GGC>GAC	p.G373D	FBXO4_uc003jmr.2_3'UTR	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	373					positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)				TTTTTGAATGGCATTGAGTGG	0.373													28	42					0	0	1	0	0		A	41941337	A	A	41941337	3	1	103	1	0	0	0	0	1	0	0	0	5762	1203	42	2	1170	2	FBXO4	5	41941337	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	18	41941337	138973923	536	62485											
ZNF131	7690	broad.mit.edu	37	chr5	43174881	43174881	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccagatctgctccaggacagCcaggtgcacgattcacacat	11	7	9	14	1	2	1	1	0	1	1	3	3	3	2	3	2	3	2	3	2	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:43174881C>T	uc011cpw.1	+	7	1554	c.1518C>T	c.(1516-1518)AGC>AGT	p.S506S	ZNF131_uc003jnj.3_Silent_p.S227S|ZNF131_uc003jnk.2_Silent_p.S472S|ZNF131_uc003jnn.3_Silent_p.S227S|ZNF131_uc003jnl.1_Intron|ZNF131_uc010ivm.1_Intron	NM_003432	NP_003423	P52739	ZN131_HUMAN	zinc finger protein 131	506						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TCCAGGACAGCCAGGTGCACG	0.493													4	39					0	0	1	0	0		T	43174881	T	T	43174881	2	4	103	1	0	0	0	0	0	0	0	1	17746	738	26	2		2	ZNF131	5	43174881	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1233544	43174881	137740379	537	62486											
ITGA2	3673	broad.mit.edu	37	chr5	52344542	52344542	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttatccttgggatgcagTaaagaattttttggaaaaat	14	16	8	3	0	0	1	0	0	0	1	1	3	1	3	1	2	1	2	1	2	7	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:52344542T>A	uc003joy.2	+	6	715	c.572T>A	c.(571-573)GTA>GAA	p.V191E	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Missense_Mutation_p.V115E|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	191	Extracellular (Potential).|VWFA.				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				TGGGATGCAGTAAAGAATTTT	0.388													51	91					0	0	1	0	0		A	52344542	A	A	52344542	3	1	103	1	0	0	0	0	1	0	0	0	7891	1638	57	5	594	5	ITGA2	5	52344542	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	9169661	52344542	128570718	538	62487											
SNX18	112574	broad.mit.edu	37	chr5	53814892	53814892	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagccacccagtgctggcGcagtgcgacgtcttccagca	7	6	12	16	3	1	0	0	0	1	0	2	1	2	0	4	1	4	3	4	1	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:53814892G>A	uc003jpj.3	+	1	1300	c.1110G>A	c.(1108-1110)GCG>GCA	p.A370A	SNX18_uc011cqg.1_Silent_p.A370A|SNX18_uc003jpi.3_Silent_p.A370A	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	370	PX.				cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)				CAGTGCTGGCGCAGTGCGACG	0.622													17	18					0	0	1	0	0		A	53814892	A	A	53814892	2	1	103	1	0	0	0	0	0	0	0	1	14914	1074	38	1		1	SNX18	5	53814892	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1470350	53814892	127100368	539	62488											
DHX29	54505	broad.mit.edu	37	chr5	54603263	54603263	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcggcagcggcagcggTggccggcctggacactggct	5	4	19	13	4	0	0	0	0	0	0	0	1	0	1	2	8	3	4	2	8	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:54603263T>C	uc003jpx.2	-	1	259	c.139A>G	c.(139-141)ACC>GCC	p.T47A	SKIV2L2_uc003jpy.3_5'Flank|SKIV2L2_uc011cqi.1_5'Flank|DHX29_uc010ivw.2_RNA	NM_019030	NP_061903	Q7Z478	DHX29_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 29	47	Ala-rich.						ATP binding|ATP-dependent helicase activity|translation initiation factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0544)|Prostate(74;0.183)				GCGGCAGCGGTGGCCGGCCTG	0.687													33	65					0	0	1	0	0		C	54603263	C	C	54603263	3	2	103	1	0	0	0	0	1	0	0	0	4509	1696	59	3	4078	3	DHX29	5	54603263	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	788371	54603263	126311997	540	62489											
SKIV2L2	23517	broad.mit.edu	37	chr5	54618225	54618225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataagagagatgtagatttcGaaggtacagatgaacccatt	16	10	10	5	1	0	5	0	1	0	4	1	7	0	5	1	1	2	2	1	1	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:54618225G>A	uc003jpy.3	+	2	471	c.205G>A	c.(205-207)GAA>AAA	p.E69K	SKIV2L2_uc011cqi.1_Intron	NM_015360	NP_056175	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2	69					maturation of 5.8S rRNA	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(1)|skin(1)	2		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				TGTAGATTTCGAAGGTACAGA	0.313													53	100					0	0	1	0	0		A	54618225	A	A	54618225	3	1	103	1	0	0	0	0	1	0	0	0	14385	1059	37	1	211	1	SKIV2L2	5	54618225	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	14962	54618225	126297035	541	62490											
PLK2	10769	broad.mit.edu	37	chr5	57753011	57753012	+	Frame_Shift_Ins	INS	-	A	A																															aagatagtgcaccaacctgcINSaaaaaaaagtcatgtcgaat																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:57753011_57753012insA	uc003jrn.2	-	7	1131_1132	c.1004_1005insT	c.(1003-1005)TTGfs	p.L335fs		NM_006622	NP_006613	Q9NYY3	PLK2_HUMAN	polo-like kinase 2	335					positive regulation of I-kappaB kinase/NF-kappaB cascade		ATP binding|protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|lung(1)|skin(1)	4		all_cancers(5;1.76e-12)|all_epithelial(5;2.09e-13)|all_lung(5;6.64e-05)|Lung NSC(5;0.000127)|Prostate(74;0.055)|Breast(144;0.0602)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;7.03e-37)		CACCAACCTGCAAAAAAAAGTC	0.411													17	36	---	---	---	---						.	A	57753012	A	A	57753011	7	5	103	1	0	1	1	0	0	0	0	0	12115	709	25	0	1084	0	PLK2	5	57753011	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	3134786	57753011	123162249	542	62491											
CARTPT	9607	broad.mit.edu	37	chr5	71015160	71015160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgctgcccctcctgggcGccgccctgctgctgatgcta	2	9	13	17	2	0	1	0	1	0	0	1	1	1	1	5	2	5	5	5	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:71015160G>A	uc003kbv.1	+	1	167	c.40G>A	c.(40-42)GCC>ACC	p.A14T		NM_004291	NP_004282	Q16568	CART_HUMAN	cocaine- and amphetamine-regulated transcript	14					activation of MAPKK activity|adult feeding behavior|cellular glucose homeostasis|cellular response to starvation|circadian regulation of gene expression|negative regulation of appetite|negative regulation of bone resorption|negative regulation of osteoclast differentiation|neuropeptide signaling pathway|positive regulation of blood pressure|positive regulation of epinephrine secretion|positive regulation of transmission of nerve impulse|synaptic transmission	extracellular space				ovary(1)	1		Lung NSC(167;0.00153)|Ovarian(174;0.0175)|Prostate(74;0.11)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;8.4e-56)	Amphetamine(DB00182)	CCTCCTGGGCGCCGCCCTGCT	0.652													26	50					0	0	1	0	0		A	71015160	A	A	71015160	3	1	103	1	0	0	0	0	1	0	0	0	2662	1087	38	1	42	1	CARTPT	5	71015160	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	13262149	71015160	109900100	543	62492											
HMGCR	3156	broad.mit.edu	37	chr5	74655087	74655087	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagcataggaggctacaaCgcccatgcagcaaacattgt	13	6	12	10	1	0	0	0	0	0	0	0	2	0	2	1	3	6	4	1	3	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:74655087C>T	uc003kdp.2	+	17	2406	c.2250C>T	c.(2248-2250)AAC>AAT	p.N750N	HMGCR_uc011cst.1_Silent_p.N770N|HMGCR_uc003kdq.2_Silent_p.N697N|HMGCR_uc010izo.2_Silent_p.N73N|HMGCR_uc010izp.2_Intron	NM_000859	NP_000850	P04035	HMDH_HUMAN	3-hydroxy-3-methylglutaryl-Coenzyme A reductase	750	Catalytic.				cholesterol biosynthetic process|coenzyme A metabolic process|germ cell migration|gonad development|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal membrane	hydroxymethylglutaryl-CoA reductase (NADPH) activity|NADP binding			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;2.24e-54)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Cerivastatin(DB00439)|Fluvastatin(DB01095)|Lovastatin(DB00227)|NADH(DB00157)|Pravastatin(DB00175)|Rosuvastatin(DB01098)|Simvastatin(DB00641)	GAGGCTACAACGCCCATGCAG	0.468													26	9					0	0	1	0	0		T	74655087	T	T	74655087	2	4	103	1	0	0	0	0	0	0	0	1	7247	535	19	1		1	HMGCR	5	74655087	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3639927	74655087	106260173	544	62493											
IQGAP2	10788	broad.mit.edu	37	chr5	75871586	75871586	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgatatattgcattcaCgcactgaggtagggggaaaa	15	9	12	5	1	1	3	1	2	0	1	1	4	1	4	0	3	1	3	0	3	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:75871586C>T	uc003kek.2	+	5	672	c.450C>T	c.(448-450)CAC>CAT	p.H150H		NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	150	CH.				small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		ATTGCATTCACGCACTGAGGT	0.284													17	40					0	0	1	0	0		T	75871586	T	T	75871586	2	4	103	1	0	0	0	0	0	0	0	1	7831	535	19	1		1	IQGAP2	5	75871586	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1216499	75871586	105043674	545	62494											
AP3B1	8546	broad.mit.edu	37	chr5	77334885	77334885	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctattggattaaaaacatGcattttcatgcctataggaa	15	13	6	7	0	1	0	1	0	0	0	1	2	1	2	2	2	3	1	2	2	7	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:77334885G>A	uc003kfj.2	-	23	2916	c.2791C>T	c.(2791-2793)CAT>TAT	p.H931Y		NM_003664	NP_003655	O00203	AP3B1_HUMAN	adaptor-related protein complex 3, beta 1	931					endocytosis|melanosome organization	clathrin coated vesicle membrane|Golgi apparatus|membrane coat	protein phosphatase binding|protein transporter activity			central_nervous_system(1)	1		all_lung(232;0.000397)|Lung NSC(167;0.00106)|Ovarian(174;0.0105)|Prostate(461;0.215)		OV - Ovarian serous cystadenocarcinoma(54;8.23e-47)|Epithelial(54;2.74e-41)|all cancers(79;4.8e-36)		TTAAAAACATGCATTTTCATG	0.259									Hermansky-Pudlak_syndrome				18	19					0	0	1	0	0		A	77334885	A	A	77334885	3	1	103	1	0	0	0	0	1	0	0	0	744	1319	46	2	513	2	AP3B1	5	77334885	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1463299	77334885	103580375	546	62495											
THBS4	7060	broad.mit.edu	37	chr5	79366474	79366474	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttccccctaaggacaactgCaaatatgtgccaaattctgg	12	11	7	11	0	1	0	0	0	1	0	2	1	2	1	3	2	3	1	3	2	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:79366474C>T	uc003kgh.2	+	13	1784	c.1461C>T	c.(1459-1461)TGC>TGT	p.C487C	uc003kgi.3_Intron	NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	487	TSP type-3 1.				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		AGGACAACTGCAAATATGTGC	0.478													44	78					0	0	1	0	0		T	79366474	T	T	79366474	2	4	103	1	0	0	0	0	0	0	0	1	15881	718	25	2		2	THBS4	5	79366474	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2031589	79366474	101548786	547	62496											
VCAN	1462	broad.mit.edu	37	chr5	82833213	82833213	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaaacggaattgtctactgCtgtgcaacctaatgaatcta	14	11	7	9	1	2	1	0	1	2	0	2	2	2	2	1	1	5	2	1	1	8	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:82833213C>G	uc003kii.3	+	8	4747	c.4391C>G	c.(4390-4392)GCT>GGT	p.A1464G	VCAN_uc003kij.3_Missense_Mutation_p.A477G|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.A128G	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1464	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TTGTCTACTGCTGTGCAACCT	0.423													31	54					0	0	1	0	0		G	82833213	G	G	82833213	3	3	103	1	0	0	0	0	1	0	0	0	17164	797	28	5	4417	5	VCAN	5	82833213	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3466739	82833213	98082047	548	62497											
VCAN	1462	broad.mit.edu	37	chr5	82834710	82834710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaggctctggagatgcagCatttagggacacccagactt	11	8	13	9	0	1	2	0	0	1	2	1	5	1	4	1	4	2	3	1	4	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:82834710C>T	uc003kii.3	+	8	6244	c.5888C>T	c.(5887-5889)GCA>GTA	p.A1963V	VCAN_uc003kij.3_Missense_Mutation_p.A976V|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.A627V	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1963	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GGAGATGCAGCATTTAGGGAC	0.453													30	38					0	0	1	0	0		T	82834710	T	T	82834710	3	4	103	1	0	0	0	0	1	0	0	0	17164	710	25	2	5914	2	VCAN	5	82834710	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1497	82834710	98080550	549	62498											
VCAN	1462	broad.mit.edu	37	chr5	82836247	82836247	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgaggtgccaagcgctaaAgctgttactgctgatggatt	9	11	12	9	1	0	2	0	2	0	0	0	3	0	3	2	2	5	4	2	2	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:82836247A>C	uc003kii.3	+	8	7781	c.7425A>C	c.(7423-7425)AAA>AAC	p.K2475N	VCAN_uc003kij.3_Missense_Mutation_p.K1488N|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.K1139N	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2475	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CAAGCGCTAAAGCTGTTACTG	0.468													45	48					0	0	1	0	0		C	82836247	C	C	82836247	3	2	103	1	0	0	0	0	1	0	0	0	17164	69	3	5	7451	5	VCAN	5	82836247	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1537	82836247	98079013	550	62499											
EDIL3	10085	broad.mit.edu	37	chr5	83680199	83680199	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgagcgcttcatgatcccGtctcccggacgtgaccccgg	6	7	11	17	6	2	2	1	2	1	0	4	4	3	3	5	2	1	1	5	2	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:83680199G>A	uc003kio.1	-	1	413	c.-6C>T	c.(-8--4)GACGG>GATGG		EDIL3_uc003kip.1_Translation_Start_Site	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like						cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)		TCATGATCCCGTCTCCCGGAC	0.672													22	48					0	0	1	0	0		A	83680199	A	A	83680199	1	1	103	1	0	0	0	0	0	0	0	0	4921	1160	40	1		1	EDIL3	5	83680199	Translation_Start_Site	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	843952	83680199	97235061	551	62500											
GPR98	84059	broad.mit.edu	37	chr5	90119297	90119297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttaacaaaacagtcgtcGtgctccagaaggatggggta	13	8	11	9	2	0	1	0	0	0	1	3	2	1	2	1	3	3	2	1	3	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:90119297G>A	uc003kju.2	+	76	16348	c.16252G>A	c.(16252-16254)GTG>ATG	p.V5418M	GPR98_uc003kjt.2_Missense_Mutation_p.V3124M|GPR98_uc003kjw.2_Missense_Mutation_p.V1079M	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	5418	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AACAGTCGTCGTGCTCCAGAA	0.478													23	39					0	0	1	0	0		A	90119297	A	A	90119297	3	1	103	1	0	0	0	0	1	0	0	0	6737	1145	40	1	16554	1	GPR98	5	90119297	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6439098	90119297	90795963	552	62501											
ANKRD32	84250	broad.mit.edu	37	chr5	94024237	94024237	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcctatttaccagccttgggGaaaactggtgtgcttgggtc	7	13	12	9	0	0	0	0	0	0	0	2	1	1	1	3	4	4	1	3	4	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:94024237G>A	uc003kkr.3	+	17	2228	c.2148G>A	c.(2146-2148)GGG>GGA	p.G716G	ANKRD32_uc003kks.2_Silent_p.G80G	NM_032290	NP_115666	Q9BQI6	ANR32_HUMAN	ankyrin repeat domain 32	716										ovary(2)	2		all_cancers(142;1.51e-09)|all_epithelial(76;4.68e-12)|all_lung(232;5.94e-05)|Ovarian(174;0.000953)|Lung NSC(167;0.00105)|Colorectal(57;0.122)|Lung SC(612;0.152)		all cancers(79;3.88e-18)		CAGCCTTGGGGAAAACTGGTG	0.363													21	50					0	0	1	0	0		A	94024237	A	A	94024237	2	1	103	1	0	0	0	0	0	0	0	1	660	1161	41	4		4	ANKRD32	5	94024237	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3904940	94024237	86891023	553	62502											
ARSK	153642	broad.mit.edu	37	chr5	94901772	94901772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcaactttatgaagacacGtgggacttcctttctgaatg	11	14	8	8	1	2	3	1	2	1	1	3	4	3	4	1	1	1	0	1	1	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:94901772G>A	uc003kld.2	+	2	355	c.197G>A	c.(196-198)CGT>CAT	p.R66H	ARSK_uc010jbg.2_Translation_Start_Site|ARSK_uc011cum.1_RNA	NM_198150	NP_937793	Q6UWY0	ARSK_HUMAN	arylsulfatase K precursor	66						extracellular region	arylsulfatase activity|metal ion binding			pancreas(1)	1		all_cancers(142;3.38e-06)|all_epithelial(76;6.57e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.00473)		all cancers(79;6.5e-16)		ATGAAGACACGTGGGACTTCC	0.393													24	22					0	0	1	0	0		A	94901772	A	A	94901772	3	1	103	1	0	0	0	0	1	0	0	0	997	1145	40	1	203	1	ARSK	5	94901772	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	877535	94901772	86013488	554	62503											
RHOBTB3	22836	broad.mit.edu	37	chr5	95119641	95119641	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcatccatgaaccttgatAtagttgacctgcttaaaaag	13	12	8	8	0	0	3	0	3	0	0	1	3	1	3	3	1	2	3	3	1	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:95119641A>G	uc003klm.2	+	10	2134	c.1597A>G	c.(1597-1599)ATA>GTA	p.I533V		NM_014899	NP_055714	O94955	RHBT3_HUMAN	rho-related BTB domain containing 3	533	Interaction with Rab9.			I->K: Abolishes interaction with RAB9A.	retrograde transport, endosome to Golgi	Golgi apparatus	ATP binding|ATPase activity|Rab GTPase binding			lung(1)|skin(1)	2		all_cancers(142;2.58e-06)|all_epithelial(76;4.19e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0164)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.79e-16)		GAACCTTGATATAGTTGACCT	0.368													7	71					0	0	1	0	0		G	95119641	G	G	95119641	3	3	103	1	0	0	0	0	1	0	0	0	13360	449	16	3	1635	3	RHOBTB3	5	95119641	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	217869	95119641	85795619	555	62504											
RHOBTB3	22836	broad.mit.edu	37	chr5	95119656	95119656	+	Frame_Shift_Del	DEL	A	-	-																															ttgatatagttgacctgcttAaaaaggccaaggtaattgac																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:95119656delA	uc003klm.2	+	10	2149	c.1612delA	c.(1612-1614)AAAfs	p.K538fs		NM_014899	NP_055714	O94955	RHBT3_HUMAN	rho-related BTB domain containing 3	538	Interaction with Rab9.				retrograde transport, endosome to Golgi	Golgi apparatus	ATP binding|ATPase activity|Rab GTPase binding			lung(1)|skin(1)	2		all_cancers(142;2.58e-06)|all_epithelial(76;4.19e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0164)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.79e-16)		TGACCTGCTTAAAAAGGCCAA	0.343													27	45	---	---	---	---						.	-	95119656	-	-	95119656	7	5	103	1	0	1	0	1	0	0	0	0	13360	363	13	0	1650	0	RHOBTB3	5	95119656	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	15	95119656	85795604	556	62505											
ELL2	22936	broad.mit.edu	37	chr5	95234256	95234256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtaggtcttgagtcccccGgccttctggagtgctagggg	5	10	16	10	1	2	1	0	1	2	0	3	2	3	2	3	6	1	2	3	6	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:95234256G>A	uc003klr.3	-	8	1563	c.1213C>T	c.(1213-1215)CGG>TGG	p.R405W		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	405					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		TGAGTCCCCCGGCCTTCTGGA	0.483													26	57					0	0	1	0	0		A	95234256	A	A	95234256	3	1	103	1	0	0	0	0	1	0	0	0	5071	1115	39	1	729	1	ELL2	5	95234256	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	114600	95234256	85681004	557	62506											
ERAP2	64167	broad.mit.edu	37	chr5	96244744	96244744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagcagccccgcacttctcGaaggtctgagttacttggaa	10	9	10	12	2	2	1	0	1	2	0	3	3	2	2	2	2	3	3	2	2	4	3	rs150106511		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:96244744G>A	uc003kmq.2	+	14	2802	c.2092G>A	c.(2092-2094)GAA>AAA	p.E698K	uc003kmo.1_Intron|ERAP2_uc003kmt.2_Missense_Mutation_p.E698K|ERAP2_uc003kmr.2_RNA|ERAP2_uc003kms.2_Missense_Mutation_p.E647K|ERAP2_uc003kmu.2_RNA	NM_022350	NP_071745	Q6P179	ERAP2_HUMAN	endoplasmic reticulum aminopeptidase 2	698	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|proteolysis|regulation of blood pressure	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding				0		all_cancers(142;0.000311)|all_epithelial(76;1.54e-06)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0596)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0703)		CGCACTTCTCGAAGGTCTGAG	0.413													40	62					0	0	1	0	0		A	96244744	A	A	96244744	3	1	103	1	0	0	0	0	1	0	0	0	5212	1059	37	1	2142	1	ERAP2	5	96244744	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1010488	96244744	84670516	558	62507											
NUDT12	83594	broad.mit.edu	37	chr5	102895167	102895167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgacaattgatctgtcaCacctatagatggaagaaaaa	17	11	7	6	0	2	4	1	2	1	2	2	5	2	5	1	1	0	0	1	1	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:102895167C>T	uc003koi.2	-	3	302	c.209G>A	c.(208-210)TGT>TAT	p.C70Y	NUDT12_uc011cvb.1_Missense_Mutation_p.C52Y|NUDT12_uc010jbq.1_3'UTR	NM_031438	NP_113626	Q9BQG2	NUD12_HUMAN	nudix-type motif 12	70	ANK 2.					nucleus|peroxisome	metal ion binding|NAD+ diphosphatase activity				0		all_cancers(142;6.38e-08)|all_epithelial(76;1.99e-10)|Prostate(80;0.0138)|Lung NSC(167;0.0212)|Colorectal(57;0.0247)|all_lung(232;0.0283)|Ovarian(225;0.0423)		Epithelial(69;9.3e-13)|COAD - Colon adenocarcinoma(37;0.0221)		TGATCTGTCACACCTATAGAT	0.323													18	36					0	0	1	0	0		T	102895167	T	T	102895167	3	4	103	1	0	0	0	0	1	0	0	0	10747	478	17	4	1199	4	NUDT12	5	102895167	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	6650423	102895167	78020093	559	62508											
FBXL17	64839	broad.mit.edu	37	chr5	107559886	107559886	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagcctacatattgaagcTcaggacagtgttcagcaaat	14	10	9	8	0	2	2	2	2	0	0	2	3	2	3	1	1	4	3	1	1	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:107559886T>G	uc011cvc.1	-	5	1957	c.1550A>C	c.(1549-1551)GAG>GCG	p.E517A	FBXL17_uc003kon.3_Missense_Mutation_p.E119A	NM_001163315	NP_001156787	Q9UF56	FXL17_HUMAN	F-box and leucine-rich repeat protein 17	517											0		all_cancers(142;0.00273)|all_epithelial(76;0.000362)|Prostate(80;0.0115)|Myeloproliferative disorder(839;0.0393)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;9.63e-11)|Epithelial(69;4.02e-10)		ATATTGAAGCTCAGGACAGTG	0.388													28	45					0	0	1	0	0		G	107559886	G	G	107559886	3	3	103	1	0	0	0	0	1	0	0	0	5727	1551	54	5	575	5	FBXL17	5	107559886	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	4664719	107559886	73355374	560	62509											
KCNN2	3781	broad.mit.edu	37	chr5	113698877	113698877	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaagcgcaagcggctcagCgactacgcgctcatcttcgg	10	6	12	13	6	3	0	2	0	1	0	4	2	3	0	0	2	4	3	0	2	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:113698877C>T	uc003kqo.2	+	1	862	c.405C>T	c.(403-405)AGC>AGT	p.S135S		NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	135						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		AGCGGCTCAGCGACTACGCGC	0.547													20	28					0	0	1	0	0		T	113698877	T	T	113698877	2	4	103	1	0	0	0	0	0	0	0	1	8095	767	27	1		1	KCNN2	5	113698877	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	6138991	113698877	67216383	561	62510											
AQPEP	206338	broad.mit.edu	37	chr5	115298452	115298452	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcgagcgcgtcccaccgtcGgagctgcctggactcaggga	6	6	15	14	5	1	0	1	0	0	0	3	4	2	3	3	3	4	1	3	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:115298452G>A	uc003kro.2	+	1	302	c.138G>A	c.(136-138)TCG>TCA	p.S46S	AQPEP_uc003krp.2_RNA|uc003krn.1_5'UTR	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	46	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						TCCCACCGTCGGAGCTGCCTG	0.701													15	38					0	0	1	0	0		A	115298452	A	A	115298452	2	1	103	1	0	0	0	0	0	0	0	1	834	1103	39	1		1	AQPEP	5	115298452	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1599575	115298452	65616808	562	62511											
SEMA6A	57556	broad.mit.edu	37	chr5	115783385	115783385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcgccgatgatcacagaCgcagtagacggtgatgcccg	9	8	13	11	5	1	4	1	2	0	2	1	5	1	4	2	1	2	2	2	1	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:115783385C>T	uc010jck.2	-	19	2726	c.2017G>A	c.(2017-2019)GTC>ATC	p.V673I	SEMA6A_uc003krx.3_Missense_Mutation_p.V690I|SEMA6A_uc011cwe.1_Missense_Mutation_p.V52I|SEMA6A_uc003krv.3_Missense_Mutation_p.V100I|SEMA6A_uc003krw.3_Missense_Mutation_p.V150I|SEMA6A_uc010jcj.2_Missense_Mutation_p.V217I	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	673	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		TGATCACAGACGCAGTAGACG	0.622													22	18					0	0	1	0	0		T	115783385	T	T	115783385	3	4	103	1	0	0	0	0	1	0	0	0	14064	536	19	1	1079	1	SEMA6A	5	115783385	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	484933	115783385	65131875	563	62512											
ZNF608	57507	broad.mit.edu	37	chr5	123983920	123983920	+	Frame_Shift_Del	DEL	T	-	-																															tccgttttgcagttggtagcTtttttgcccttttctttatc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:123983920delT	uc003ktq.1	-	4	2280	c.2157delA	c.(2155-2157)AAAfs	p.K719fs	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Frame_Shift_Del_p.K719fs|ZNF608_uc003ktt.1_Frame_Shift_Del_p.K719fs	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	719						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		AGTTGGTAGCTTTTTTGCCCT	0.498													24	31	---	---	---	---						.	-	123983920	-	-	123983920	7	5	103	1	0	1	0	1	0	0	0	0	18059	1606	56	0	2405	0	ZNF608	5	123983920	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	8200535	123983920	56931340	564	62513											
PHAX	51808	broad.mit.edu	37	chr5	125939525	125939525	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaacaacatatggggtgcTgtgctgcaggaacagaatca	14	9	11	7	0	1	1	1	0	0	1	1	2	1	2	0	3	6	3	0	3	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:125939525T>G	uc003kua.1	+	2	382	c.360T>G	c.(358-360)GCT>GCG	p.A120A		NM_032177	NP_115553	Q9H814	PHAX_HUMAN	RNA U, small nuclear RNA export adaptor	120	Necessary for interaction with CBP80 (By similarity).				ncRNA metabolic process|protein transport|snRNA export from nucleus|spliceosomal snRNP assembly	Cajal body|cytosol	RNA binding				0						TATGGGGTGCTGTGCTGCAGG	0.478													29	29					0	0	1	0	0		G	125939525	G	G	125939525	2	3	103	1	0	0	0	0	0	0	0	1	11832	1567	55	5		5	PHAX	5	125939525	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1955605	125939525	54975735	565	62514											
SHROOM1	134549	broad.mit.edu	37	chr5	132159958	132159958	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgggggtgtggcttgtgggCctggaaatacctacagaacc	8	9	16	8	0	0	1	0	0	0	1	0	2	0	2	3	5	3	1	3	5	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:132159958C>T	uc003kxx.2	-	7	2200	c.1395G>A	c.(1393-1395)AGG>AGA	p.R465R	SHROOM1_uc003kxy.1_Silent_p.R465R	NM_133456	NP_597713	Q2M3G4	SHRM1_HUMAN	shroom family member 1	465					actin filament bundle assembly|cell morphogenesis	cytoplasm|microtubule	actin filament binding			pancreas(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GGCTTGTGGGCCTGGAAATAC	0.567													19	22					0	0	1	0	0		T	132159958	T	T	132159958	2	4	103	1	0	0	0	0	0	0	0	1	14318	738	26	2		2	SHROOM1	5	132159958	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	6220433	132159958	48755302	566	62515											
PHF15	23338	broad.mit.edu	37	chr5	133914490	133914490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgggcctggttcacggaCgactccagacaaagccccca	10	4	12	15	3	1	1	1	0	0	1	2	4	2	3	4	4	1	1	4	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:133914490C>T	uc003kzo.1	+	11	2035	c.1856C>T	c.(1855-1857)ACG>ATG	p.T619M	PHF15_uc011cxt.1_Missense_Mutation_p.T663M|PHF15_uc003kzk.2_Missense_Mutation_p.T679M|PHF15_uc003kzm.2_Missense_Mutation_p.T620M|PHF15_uc003kzn.2_3'UTR	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	619	Pro-rich.				histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GGTTCACGGACGACTCCAGAC	0.657													14	39					0	0	1	0	0		T	133914490	T	T	133914490	3	4	103	1	0	0	0	0	1	0	0	0	11845	536	19	1	1894	1	PHF15	5	133914490	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1754532	133914490	47000770	567	62516											
TGFBI	7045	broad.mit.edu	37	chr5	135391436	135391436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtacgggaccctgttcaCgatggaccgggtgctgaccc	7	7	15	12	3	1	1	1	1	0	0	1	5	1	3	3	4	2	3	3	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:135391436C>T	uc003lbf.3	+	11	1639	c.1478C>T	c.(1477-1479)ACG>ATG	p.T493M	TGFBI_uc003lbg.3_Missense_Mutation_p.T226M|TGFBI_uc003lbh.3_Missense_Mutation_p.T319M|TGFBI_uc011cyb.1_Missense_Mutation_p.T319M|TGFBI_uc010jed.2_Missense_Mutation_p.T226M	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	493	FAS1 3.				angiogenesis|cell adhesion|cell proliferation|negative regulation of cell adhesion|response to stimulus|visual perception	extracellular space|proteinaceous extracellular matrix	integrin binding			breast(3)|ovary(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ACCCTGTTCACGATGGACCGG	0.567													7	30					0	0	1	0	0		T	135391436	T	T	135391436	3	4	103	1	0	0	0	0	1	0	0	0	15845	536	19	1	1520	1	TGFBI	5	135391436	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1476946	135391436	45523824	568	62517											
PKD2L2	27039	broad.mit.edu	37	chr5	137244597	137244597	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggatttcttgtttttggAtcacaagttgatgacttttc	8	20	8	5	0	2	2	1	2	1	0	3	4	2	4	0	2	0	2	0	2	2	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:137244597A>G	uc003lby.2	+	8	1346	c.1290A>G	c.(1288-1290)GGA>GGG	p.G430G	PKD2L2_uc003lbw.1_Silent_p.G430G|PKD2L2_uc003lbx.2_Intron|PKD2L2_uc011cyi.1_Silent_p.G38G	NM_014386	NP_055201	Q9NZM6	PK2L2_HUMAN	polycystic kidney disease 2-like 2	430	Extracellular (Potential).					integral to membrane	calcium ion binding|ion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TTGTTTTTGGATCACAAGTTG	0.303													3	36					0	0	1	0	0		G	137244597	G	G	137244597	2	3	103	1	0	0	0	0	0	0	0	1	11987	320	12	3		3	PKD2L2	5	137244597	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1853161	137244597	43670663	569	62518											
CTNNA1	1495	broad.mit.edu	37	chr5	138145810	138145810	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaacatggttcgggcagctCgagctttgctctctgctgtt	5	13	12	11	2	1	0	0	0	1	0	4	1	1	0	0	2	5	8	0	2	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:138145810C>T	uc003ldh.2	+	4	480	c.385C>T	c.(385-387)CGA>TGA	p.R129*	CTNNA1_uc011cyx.1_Nonsense_Mutation_p.R26*|CTNNA1_uc011cyy.1_Nonsense_Mutation_p.R6*|CTNNA1_uc003ldi.2_Intron|CTNNA1_uc003ldj.2_Nonsense_Mutation_p.R129*	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	129	Interaction with JUP and CTNNB1.|Involved in homodimerization.			R -> P (in Ref. 3; AAA18949).	adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TCGGGCAGCTCGAGCTTTGCT	0.473													36	50					0	0	1	0	0		T	138145810	T	T	138145810	4	4	103	1	0	0	0	0	0	1	0	0	4015	876	31	1	395	1	CTNNA1	5	138145810	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	901213	138145810	42769450	570	62519											
PCDHA1	56147	broad.mit.edu	37	chr5	140166926	140166926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgataatgctccagaactgGcggtcacttcattgtatttg	10	14	9	8	1	2	2	2	1	0	1	3	2	3	2	1	2	2	2	1	2	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140166926G>A	uc003lhb.2	+	1	1051	c.1051G>A	c.(1051-1053)GCG>ACG	p.A351T	PCDHA1_uc003lha.2_Missense_Mutation_p.A351T|PCDHA1_uc003lgz.2_Missense_Mutation_p.A351T	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	351	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCAGAACTGGCGGTCACTTC	0.483													36	53					0	0	1	0	0		A	140166926	A	A	140166926	3	1	103	1	0	0	0	0	1	0	0	0	11538	1203	42	2	1053	2	PCDHA1	5	140166926	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2021116	140166926	40748334	571	62520											
PCDHA10	56139	broad.mit.edu	37	chr5	140237715	140237715	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaggtggccctggtggatgtCaacgtgtacctgatcatcgc	7	10	14	10	2	2	1	2	1	0	0	3	3	2	2	2	4	2	1	2	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140237715C>G	uc003lhx.2	+	1	2082	c.2082C>G	c.(2080-2082)GTC>GTG	p.V694V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc011dad.1_Silent_p.V694V	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	694	Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTGGATGTCAACGTGTACC	0.672													23	35					0	0	1	0	0		G	140237715	G	G	140237715	2	3	103	1	0	0	0	0	0	0	0	1	11539	813	29	5		5	PCDHA10	5	140237715	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	70789	140237715	40677545	572	62521											
PCDHA11	56138	broad.mit.edu	37	chr5	140250745	140250745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggactttggcgggcgccgCgagcccagaggctgcgctgg	4	5	18	14	6	0	1	0	0	0	1	0	3	0	2	3	5	2	2	3	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140250745C>T	uc003lia.2	+	1	2915	c.2057C>T	c.(2056-2058)GCG>GTG	p.A686V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.A686V	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	686	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGGGCGCCGCGAGCCCAGAG	0.667													35	43					0	0	1	0	0		T	140250745	T	T	140250745	3	4	103	1	0	0	0	0	1	0	0	0	11540	768	27	1	2059	1	PCDHA11	5	140250745	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	13030	140250745	40664515	573	62522											
PCDHA12	56137	broad.mit.edu	37	chr5	140256290	140256290	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactcgttggtgctggacagCgccctggaccgcgagagcgt	6	8	15	12	5	0	1	0	0	0	1	1	4	0	3	2	3	4	2	2	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140256290C>T	uc003lic.2	+	1	1360	c.1233C>T	c.(1231-1233)AGC>AGT	p.S411S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.S411S	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	411	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTGGACAGCGCCCTGGACC	0.607													80	168					0	0	1	0	0		T	140256290	T	T	140256290	2	4	103	1	0	0	0	0	0	0	0	1	11541	767	27	1		1	PCDHA12	5	140256290	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	5545	140256290	40658970	574	62523											
PCDHB1	29930	broad.mit.edu	37	chr5	140431806	140431806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gactggtgtacagagcccagGtatcagagaacagccccaat	13	6	11	11	0	1	2	1	0	0	2	1	4	1	2	3	2	4	2	3	2	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140431806G>A	uc003lik.1	+	1	828	c.751G>A	c.(751-753)GTA>ATA	p.V251I		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	251	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGAGCCCAGGTATCAGAGAA	0.567													8	21					0	0	1	0	0		A	140431806	A	A	140431806	3	1	103	1	0	0	0	0	1	0	0	0	11553	1261	44	4	753	4	PCDHB1	5	140431806	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	175516	140431806	40483454	575	62524											
PCDHB2	56133	broad.mit.edu	37	chr5	140474383	140474383	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagaaagcaatggaggcCggagaggggaaggagcgcgt	13	2	19	7	3	0	2	0	0	0	2	0	7	0	5	2	6	2	1	2	6	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140474383C>T	uc003lil.2	+	1	147	c.9C>T	c.(7-9)GCC>GCT	p.A3A	PCDHB2_uc003lim.1_5'UTR	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	3					calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAATGGAGGCCGGAGAGGGGA	0.532													17	29					0	0	1	0	0		T	140474383	T	T	140474383	2	4	103	1	0	0	0	0	0	0	0	1	11561	639	23	1		1	PCDHB2	5	140474383	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	42577	140474383	40440877	576	62525											
PCDHB2	56133	broad.mit.edu	37	chr5	140474556	140474556	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggctggagataggagaacTtgctgtgaggggggccaggg	8	6	22	5	0	0	3	0	1	0	2	0	5	0	3	1	8	2	2	1	8	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140474556T>G	uc003lil.2	+	1	320	c.182T>G	c.(181-183)CTT>CGT	p.L61R	PCDHB2_uc003lim.1_Intron	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	61	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATAGGAGAACTTGCTGTGAGG	0.502													25	22					0	0	1	0	0		G	140474556	G	G	140474556	3	3	103	1	0	0	0	0	1	0	0	0	11561	1609	56	5	184	5	PCDHB2	5	140474556	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	173	140474556	40440704	577	62526											
PCDHB5	26167	broad.mit.edu	37	chr5	140517067	140517067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcccaggcccaggccgactCgctcactgtctacctggtgg	5	7	13	16	2	2	0	1	0	1	0	3	1	2	0	4	5	1	1	4	5	1	1	rs150651540		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140517067C>T	uc003liq.2	+	1	2268	c.2051C>T	c.(2050-2052)TCG>TTG	p.S684L		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	684	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGGCCGACTCGCTCACTGTC	0.697													76	121					0	0	1	0	0		T	140517067	T	T	140517067	3	4	103	1	0	0	0	0	1	0	0	0	11564	893	31	1	2053	1	PCDHB5	5	140517067	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	42511	140517067	40398193	578	62527											
PCDHB6	56130	broad.mit.edu	37	chr5	140530541	140530541	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccaggttttggacatcAatgacaacgtccccgagttt	11	11	9	10	2	1	2	1	1	0	1	3	4	3	3	3	2	1	2	3	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140530541A>G	uc003lir.2	+	1	703	c.703A>G	c.(703-705)AAT>GAT	p.N235D	PCDHB6_uc011dah.1_Missense_Mutation_p.N99D	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	235	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTTGGACATCAATGACAACGT	0.572													24	36					0	0	1	0	0		G	140530541	G	G	140530541	3	3	103	1	0	0	0	0	1	0	0	0	11565	130	5	3	705	3	PCDHB6	5	140530541	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	13474	140530541	40384719	579	62528											
PCDHB7	56129	broad.mit.edu	37	chr5	140553461	140553461	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatcgacccgagctgctcCtgtcttcacttactagccca	9	11	6	15	2	2	0	1	0	1	0	4	2	3	0	3	0	4	2	3	0	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140553461C>A	uc003lit.2	+	1	1219	c.1045C>A	c.(1045-1047)CTG>ATG	p.L349M		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	349	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGAGCTGCTCCTGTCTTCACT	0.463													24	27					1.66031e-10	1.73554e-10	1	1	0		A	140553461	A	A	140553461	3	1	103	1	0	0	0	0	1	0	0	0	11566	680	24	5	1047	5	PCDHB7	5	140553461	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	22920	140553461	40361799	580	62529											
PCDHB7	56129	broad.mit.edu	37	chr5	140554770	140554770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggaagtggaagaaaatcGcccatttcagaataatttgg	15	9	11	6	1	1	2	1	0	0	2	2	4	1	4	1	3	0	0	1	3	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140554770G>A	uc003lit.2	+	1	2528	c.2354G>A	c.(2353-2355)CGC>CAC	p.R785H	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	785	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAAGAAAATCGCCCATTTCAG	0.443													14	131					0	0	1	0	0		A	140554770	A	A	140554770	3	1	103	1	0	0	0	0	1	0	0	0	11566	1087	38	1	2356	1	PCDHB7	5	140554770	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1309	140554770	40360490	581	62530											
PCDHB8	56128	broad.mit.edu	37	chr5	140559570	140559570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggacaatggcgagcctcCgtgctcggccaccgccacgc	8	4	12	17	5	0	0	0	0	0	0	2	2	1	1	5	3	2	1	5	3	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140559570C>T	uc011dai.1	+	1	2141	c.1955C>T	c.(1954-1956)CCG>CTG	p.P652L	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	652	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCGAGCCTCCGTGCTCGGCC	0.711													20	37					0	0	1	0	0		T	140559570	T	T	140559570	3	4	103	1	0	0	0	0	1	0	0	0	11567	652	23	1	1957	1	PCDHB8	5	140559570	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4800	140559570	40355690	582	62531											
PCDHB15	56121	broad.mit.edu	37	chr5	140626234	140626234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgagaattctccagagaCagaagtggccctgtttagga	11	9	11	10	1	1	3	0	0	1	3	3	6	2	4	3	2	0	1	3	2	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140626234C>T	uc003lje.2	+	1	1088	c.1088C>T	c.(1087-1089)ACA>ATA	p.T363I		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	363	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCTCCAGAGACAGAAGTGGCC	0.418													46	61					0	0	1	0	0		T	140626234	T	T	140626234	3	4	103	1	0	0	0	0	1	0	0	0	11559	478	17	4	1090	4	PCDHB15	5	140626234	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	66664	140626234	40289026	583	62532											
PCDHGA7	56108	broad.mit.edu	37	chr5	140762727	140762727	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcggcagcttggtcactgcGggcaggatagaccgggaaga	10	5	17	9	3	1	2	1	0	0	2	1	4	1	4	1	5	3	3	1	5	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140762727G>A	uc003lka.1	+	1	261	c.261G>A	c.(259-261)GCG>GCA	p.A87A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Silent_p.A87A	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	87	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTCACTGCGGGCAGGATAG	0.572													39	63					0	0	1	0	0		A	140762727	A	A	140762727	2	1	103	1	0	0	0	0	0	0	0	1	11578	1103	39	1		1	PCDHGA7	5	140762727	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	136493	140762727	40152533	584	62533											
PCDHGA7	56108	broad.mit.edu	37	chr5	140763083	140763083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggaccgggaggaagagcGggttcaccacctggtcctca	8	6	15	12	2	2	1	2	0	0	1	3	4	3	4	4	5	1	2	4	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140763083G>A	uc003lka.1	+	1	617	c.617G>A	c.(616-618)CGG>CAG	p.R206Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.R206Q	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	206	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGGAAGAGCGGGTTCACCAC	0.622													7	11					0	0	1	0	0		A	140763083	A	A	140763083	3	1	103	1	0	0	0	0	1	0	0	0	11578	1116	39	1	619	1	PCDHGA7	5	140763083	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	356	140763083	40152177	585	62534											
PCDHGB5	56101	broad.mit.edu	37	chr5	140779342	140779342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctgcgcgtgttggtgggcGaccgaaacgacaacgcaccg	8	5	15	13	7	0	0	0	0	0	0	0	3	0	0	3	2	3	2	3	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140779342G>A	uc003lkf.1	+	1	1648	c.1648G>A	c.(1648-1650)GAC>AAC	p.D550N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.D550N	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	550	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTGGTGGGCGACCGAAACGA	0.677													19	26					0	0	1	0	0		A	140779342	A	A	140779342	3	1	103	1	0	0	0	0	1	0	0	0	11585	1058	37	1	1650	1	PCDHGB5	5	140779342	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	16259	140779342	40135918	586	62535											
PCDHGA11	56105	broad.mit.edu	37	chr5	140800995	140800995	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgaagcgcggagtccgcatCgtctccagagggaagacaca	11	4	14	12	5	1	2	0	0	1	2	4	5	2	4	2	2	1	1	2	2	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140800995C>T	uc003lkq.1	+	1	459	c.201C>T	c.(199-201)ATC>ATT	p.I67I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Silent_p.I67I|PCDHGA11_uc003lkp.1_Silent_p.I67I	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	67	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGTCCGCATCGTCTCCAGAG	0.612													29	58					0	0	1	0	0		T	140800995	T	T	140800995	2	4	103	1	0	0	0	0	0	0	0	1	11571	874	31	1		1	PCDHGA11	5	140800995	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	21653	140800995	40114265	587	62536											
PCDHGA12	26025	broad.mit.edu	37	chr5	140811757	140811757	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtctctgtgaccgcccaCgaccccgactgtgaagagaa	9	7	10	15	4	1	3	0	2	1	1	3	6	1	3	4	0	0	0	4	0	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:140811757C>T	uc003lkt.1	+	1	1600	c.1431C>T	c.(1429-1431)CAC>CAT	p.H477H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.H477H	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	477	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGACCGCCCACGACCCCGACT	0.562													19	28					0	0	1	0	0		T	140811757	T	T	140811757	2	4	103	1	0	0	0	0	0	0	0	1	11572	535	19	1		1	PCDHGA12	5	140811757	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	10762	140811757	40103503	588	62537											
HDAC3	8841	broad.mit.edu	37	chr5	141008157	141008157	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgccatcccgcaggggcacGttcagacagtagtagcggcc	9	6	13	13	3	1	1	1	0	0	1	2	1	2	1	3	3	2	5	3	3	2	3	rs141006049		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:141008157G>A	uc003llf.2	-	8	726	c.660C>T	c.(658-660)AAC>AAT	p.N220N	HDAC3_uc003lle.1_Silent_p.N163N	NM_003883	NP_003874	O15379	HDAC3_HUMAN	histone deacetylase 3	220	Histone deacetylase.				anti-apoptosis|cellular lipid metabolic process|negative regulation of cell cycle|negative regulation of JNK cascade|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|spindle assembly|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|spindle microtubule|transcriptional repressor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription corepressor activity|transcription factor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Vorinostat(DB02546)	GCAGGGGCACGTTCAGACAGT	0.542													33	50					0	0	1	0	0		A	141008157	A	A	141008157	2	1	103	1	0	0	0	0	0	0	0	1	7024	1136	40	1		1	HDAC3	5	141008157	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	196400	141008157	39907103	589	62538											
ARHGAP26	23092	broad.mit.edu	37	chr5	142500657	142500657	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaacagtagcagccatcaTggacatcaaatttcagaaca	18	7	7	9	0	3	2	3	0	0	2	3	3	3	3	1	1	4	2	1	1	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:142500657T>C	uc011dbj.1	+	18	1678	c.1643T>C	c.(1642-1644)ATG>ACG	p.M548T	ARHGAP26_uc003lmt.2_Missense_Mutation_p.M548T|ARHGAP26_uc003lmw.2_Missense_Mutation_p.M548T	NM_015071	NP_055886	Q9UNA1	RHG26_HUMAN	GTPase regulator associated with the focal	548	Rho-GAP.				actin cytoskeleton organization|filopodium assembly|nervous system development|small GTPase mediated signal transduction	cytoskeleton|cytosol|focal adhesion	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(1)	1		all_hematologic(541;0.0416)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCAGCCATCATGGACATCAAA	0.443													34	63					0	0	1	0	0		C	142500657	C	C	142500657	3	2	103	1	0	0	0	0	1	0	0	0	875	1464	51	3	1713	3	ARHGAP26	5	142500657	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1492500	142500657	38414603	590	62539											
SH3RF2	153769	broad.mit.edu	37	chr5	145442093	145442093	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagccaccctcaaggcGtcccagcctgaagcagcgtc	9	4	10	18	2	1	1	1	1	0	0	3	1	2	1	5	1	5	1	5	1	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:145442093G>A	uc003lnt.2	+	10	2257	c.2019G>A	c.(2017-2019)GCG>GCA	p.A673A	SH3RF2_uc011dbl.1_Silent_p.A673A|SH3RF2_uc003lnu.2_Silent_p.A164A|SH3RF2_uc011dbn.1_Silent_p.A164A|SH3RF2_uc011dbo.1_Silent_p.A130A	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	673							ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCCTCAAGGCGTCCCAGCCTG	0.577													26	51					0	0	1	0	0		A	145442093	A	A	145442093	2	1	103	1	0	0	0	0	0	0	0	1	14284	1132	40	1		1	SH3RF2	5	145442093	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2941436	145442093	35473167	591	62540											
TCERG1	10915	broad.mit.edu	37	chr5	145849218	145849218	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagtttctgaatggactgAatataaaacagcagatggga	16	9	11	5	0	1	3	0	2	1	1	1	5	1	5	0	2	3	3	0	2	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:145849218A>T	uc003lob.2	+	7	1350	c.1310A>T	c.(1309-1311)GAA>GTA	p.E437V	TCERG1_uc003loc.2_Missense_Mutation_p.E416V|TCERG1_uc011dbt.1_Missense_Mutation_p.E416V	NM_006706	NP_006697	O14776	TCRG1_HUMAN	transcription elongation regulator 1 isoform 1	437	WW 2.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			ovary(1)|skin(1)	2		Lung NSC(249;0.00188)|all_lung(500;0.00307)|all_neural(839;0.0424)|Breast(839;0.0743)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAATGGACTGAATATAAAACA	0.413													73	121					0	0	1	0	0		T	145849218	T	T	145849218	3	4	103	1	0	0	0	0	1	0	0	0	15710	246	9	5	1336	5	TCERG1	5	145849218	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	407125	145849218	35066042	592	62541											
CCNJL	79616	broad.mit.edu	37	chr5	159707575	159707575	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacggtgtagagctgcttGgaggtggtgacgttgtagcg	6	10	18	7	3	0	2	0	1	0	1	0	3	0	3	1	4	3	5	1	4	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:159707575G>T	uc003lyb.1	-	3	489	c.237C>A	c.(235-237)TCC>TCA	p.S79S	CCNJL_uc011dee.1_Silent_p.S79S|CCNJL_uc003lyc.1_RNA|CCNJL_uc011def.1_Silent_p.S79S	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	79	Cyclin N-terminal.					nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGAGCTGCTTGGAGGTGGTGA	0.627													45	67					2.12129e-23	2.27772e-23	1	1	0		T	159707575	T	T	159707575	2	4	103	1	0	0	0	0	0	0	0	1	2932	1335	47	5		5	CCNJL	5	159707575	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	13858357	159707575	21207685	593	62542											
ATP10B	23120	broad.mit.edu	37	chr5	160042941	160042941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcctcacgccggaaactggCccatctccggaagtcctctt	8	8	9	16	3	3	0	1	0	2	0	5	2	4	2	5	3	2	0	5	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:160042941C>T	uc003lym.1	-	17	3404	c.2557G>A	c.(2557-2559)GCC>ACC	p.A853T	ATP10B_uc010jit.1_Missense_Mutation_p.A170T|ATP10B_uc003lyn.2_Missense_Mutation_p.A411T	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	853	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CGGAAACTGGCCCATCTCCGG	0.507													14	27					0	0	1	0	0		T	160042941	T	T	160042941	3	4	103	1	0	0	0	0	1	0	0	0	1118	739	26	2	1868	2	ATP10B	5	160042941	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	335366	160042941	20872319	594	62543											
GABRA1	2554	broad.mit.edu	37	chr5	161292758	161292758	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagtgaagactgatatcttCgtcaccagtttcggacccgt	10	11	10	10	3	2	3	1	2	1	1	4	5	2	4	2	1	0	1	2	1	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:161292758C>T	uc010jiw.2	+	5	687	c.219C>T	c.(217-219)TTC>TTT	p.F73F	GABRA1_uc010jix.2_Silent_p.F73F|GABRA1_uc010jiy.2_Silent_p.F73F|GABRA1_uc003lyx.3_Silent_p.F73F|GABRA1_uc010jiz.2_Silent_p.F73F|GABRA1_uc010jja.2_Silent_p.F73F|GABRA1_uc010jjb.2_Silent_p.F73F	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	73	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	CTGATATCTTCGTCACCAGTT	0.398													65	87					0	0	1	0	0		T	161292758	T	T	161292758	2	4	103	1	0	0	0	0	0	0	0	1	6174	883	31	1		1	GABRA1	5	161292758	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1249817	161292758	19622502	595	62544											
SH3PXD2B	285590	broad.mit.edu	37	chr5	171785810	171785810	+	Frame_Shift_Del	DEL	C	-	-																															cagagaaaactcatcctgcaCcccatcctggccttcgaggc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:171785810delC	uc003mbr.2	-	8	805	c.634delG	c.(634-636)GTGfs	p.V212fs		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	212					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TCATCCTGCACCCCATCCTGG	0.587													9	13	---	---	---	---						.	-	171785810	-	-	171785810	7	5	103	1	0	1	0	1	0	0	0	0	14282	507	18	0	2125	0	SH3PXD2B	5	171785810	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	10493052	171785810	9129450	596	62545											
DUSP1	1843	broad.mit.edu	37	chr5	172195819	172195819	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtagctcagcgcactgttCgtggagtggacagggatgga	9	8	17	7	2	1	0	1	0	0	0	2	4	1	4	0	5	2	4	0	5	1	2	rs138845473		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:172195819C>T	uc003mbv.1	-	4	1298	c.1050G>A	c.(1048-1050)ACG>ACA	p.T350T	DUSP1_uc011dez.1_Silent_p.T208T|DUSP1_uc003mbu.1_Silent_p.T238T	NM_004417	NP_004408	P28562	DUS1_HUMAN	dual specificity phosphatase 1	350	Tyrosine-protein phosphatase.				cell cycle|endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|non-membrane spanning protein tyrosine phosphatase activity|protein binding			breast(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00431)|all_lung(126;0.00729)	all_hematologic(541;4.11e-18)|Breast(839;0.00637)|Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.15)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)	GBM - Glioblastoma multiforme(465;0.0103)		GCGCACTGTTCGTGGAGTGGA	0.622													6	84					0	0	1	0	0		T	172195819	T	T	172195819	2	4	103	1	0	0	0	0	0	0	0	1	4815	871	31	1		1	DUSP1	5	172195819	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	410009	172195819	8719441	597	62546											
BNIP1	662	broad.mit.edu	37	chr5	172585829	172585829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcagaacttcttcagggaGgagatctcttaaggcaaagg	14	8	12	7	0	3	2	1	0	2	2	4	4	3	3	0	4	2	2	0	4	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:172585829G>A	uc003mcj.3	+	4	456	c.352G>A	c.(352-354)GGA>AGA	p.G118R	BNIP1_uc003mci.3_Missense_Mutation_p.G161R|BNIP1_uc003mck.3_Intron|BNIP1_uc003mcl.3_Intron	NM_001205	NP_001196	Q12981	SEC20_HUMAN	BCL2/adenovirus E1B 19kD interacting protein 1	118	Cytoplasmic (Potential).				anti-apoptosis|apoptosis|endoplasmic reticulum membrane fusion|endoplasmic reticulum organization|induction of apoptosis|vesicle-mediated transport	integral to endoplasmic reticulum membrane|nuclear envelope|SNARE complex	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TCTTCAGGGAGGAGATCTCTT	0.413													28	40					0	0	1	0	0		A	172585829	A	A	172585829	3	1	103	1	0	0	0	0	1	0	0	0	1477	1001	35	4	499	4	BNIP1	5	172585829	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	390010	172585829	8329431	598	62547											
GPRIN1	114787	broad.mit.edu	37	chr5	176023843	176023843	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgcccgcgagcagcacCgcggccggcgcacactctgc	5	3	13	20	7	1	0	0	0	1	0	2	1	2	0	4	2	3	3	4	2	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:176023843C>A	uc003meo.1	-	2	3168	c.2993G>T	c.(2992-2994)CGG>CTG	p.R998L		NM_052899	NP_443131	Q7Z2K8	GRIN1_HUMAN	G protein-regulated inducer of neurite outgrowth	998	Interaction with GNAO1 (By similarity).					growth cone|plasma membrane				ovary(2)	2	all_cancers(89;0.00263)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CGAGCAGCACCGCGGCCGGCG	0.682													8	21					0.000442599	0.000448719	1	1	0		A	176023843	A	A	176023843	3	1	103	1	0	0	0	0	1	0	0	0	6745	652	23	5	37	5	GPRIN1	5	176023843	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3438014	176023843	4891417	599	62548											
SLC34A1	6569	broad.mit.edu	37	chr5	176815279	176815279	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacatcttgcccacagcTggacgagtctgtgataacca	10	8	9	14	1	2	1	0	1	2	0	2	3	2	2	3	1	3	1	3	1	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:176815279T>C	uc003mgk.3	+	8	943	c.842T>C	c.(841-843)CTG>CCG	p.L281P		NM_003052	NP_003043	Q06495	NPT2A_HUMAN	solute carrier family 34 (sodium phosphate),	281	Extracellular (Potential).				phosphate ion homeostasis|response to cadmium ion|response to lead ion|response to mercury ion|sodium ion transport	brush border membrane|integral to plasma membrane	protein binding|sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(1)	1	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGCCCACAGCTGGACGAGTCT	0.587													37	62					0	0	1	0	0		C	176815279	C	C	176815279	3	2	103	1	0	0	0	0	1	0	0	0	14592	1594	55	3	868	3	SLC34A1	5	176815279	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	791436	176815279	4099981	600	62549											
DDX41	51428	broad.mit.edu	37	chr5	176940358	176940358	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcacctgcccacctggAtgacatccaggctggcagcc	9	5	12	15	0	0	1	0	1	0	0	1	3	1	3	5	4	3	3	5	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:176940358A>C	uc003mho.2	-	11	1247	c.1226T>G	c.(1225-1227)ATC>AGC	p.I409S	DOK3_uc003mhi.3_5'Flank|DOK3_uc003mhj.3_5'Flank|DOK3_uc003mhl.2_5'Flank|DDX41_uc003mhm.2_Missense_Mutation_p.I189S|DDX41_uc003mhn.2_Missense_Mutation_p.I278S|DDX41_uc003mhp.2_Missense_Mutation_p.I278S|DDX41_uc003mhq.1_Missense_Mutation_p.I189S	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	409	Helicase C-terminal.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			GCCCACCTGGATGACATCCAG	0.597													41	81					0	0	1	0	0		C	176940358	C	C	176940358	3	2	103	1	0	0	0	0	1	0	0	0	4364	333	12	5	670	5	DDX41	5	176940358	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	125079	176940358	3974902	601	62550											
ZNF354B	117608	broad.mit.edu	37	chr5	178309869	178309869	+	Frame_Shift_Del	DEL	A	-	-																															gaaacagcaggacaaaaatgAaaatttacaaataatttcag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:178309869delA	uc003mjl.2	+	5	642	c.416delA	c.(415-417)GAAfs	p.E139fs	ZNF354B_uc003mjm.2_Frame_Shift_Del_p.E139fs	NM_058230	NP_478137	Q96LW1	Z354B_HUMAN	zinc finger protein 354B	139					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GACAAAAATGAAAATTTACAA	0.328													28	24	---	---	---	---						.	-	178309869	-	-	178309869	7	5	103	1	0	1	0	1	0	0	0	0	17890	246	9	0	430	0	ZNF354B	5	178309869	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	1369511	178309869	2605391	602	62551											
ZFP2	80108	broad.mit.edu	37	chr5	178359024	178359024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttcatcagagaactcataCaggagaaaaaccctatgaat	18	8	7	8	0	3	3	3	1	0	2	3	5	3	3	1	1	3	1	1	1	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:178359024C>T	uc003mjn.1	+	5	1219	c.710C>T	c.(709-711)ACA>ATA	p.T237I	ZFP2_uc010jky.2_Missense_Mutation_p.T237I|ZFP2_uc010jkx.1_Missense_Mutation_p.T237I	NM_030613	NP_085116	Q6ZN57	ZFP2_HUMAN	zinc finger protein 2 homolog	237					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.00655)|GBM - Glioblastoma multiforme(465;0.0302)|OV - Ovarian serous cystadenocarcinoma(192;0.0615)|Epithelial(171;0.111)		AGAACTCATACAGGAGAAAAA	0.373													36	35					0	0	1	0	0		T	178359024	T	T	178359024	3	4	103	1	0	0	0	0	1	0	0	0	17666	478	17	4	712	4	ZFP2	5	178359024	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	49155	178359024	2556236	603	62552											
ZNF354C	30832	broad.mit.edu	37	chr5	178506224	178506224	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccttctttctcatcagaGaattcatactggagagaaac	13	12	6	10	0	4	2	3	0	2	2	6	5	5	3	1	1	2	0	1	1	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:178506224G>T	uc003mju.2	+	5	906	c.791G>T	c.(790-792)AGA>ATA	p.R264I		NM_014594	NP_055409	Q86Y25	Z354C_HUMAN	zinc finger protein 354C	264	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(89;0.00065)|all_epithelial(37;0.000153)|Renal(175;0.000159)|Lung NSC(126;0.00175)|all_lung(126;0.00309)	all_cancers(40;0.19)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.247)		TCTCATCAGAGAATTCATACT	0.388													34	37					2.20474e-14	2.33316e-14	1	1	0		T	178506224	T	T	178506224	3	4	103	1	0	0	0	0	1	0	0	0	17891	942	33	5	805	5	ZNF354C	5	178506224	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	147200	178506224	2409036	604	62553											
ADAMTS2	9509	broad.mit.edu	37	chr5	178563003	178563003	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcatggacaccacctccccGgtctccctggactcgcagta	7	9	8	17	2	2	0	1	0	1	0	5	2	3	2	5	3	0	2	5	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:178563003G>A	uc003mjw.2	-	13	1992	c.1992C>T	c.(1990-1992)ACC>ACT	p.T664T		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	664	Cys-rich.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CCACCTCCCCGGTCTCCCTGG	0.627													47	68					0	0	1	0	0		A	178563003	A	A	178563003	2	1	103	1	0	0	0	0	0	0	0	1	265	1103	39	1		1	ADAMTS2	5	178563003	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	56779	178563003	2352257	605	62554											
MAML1	9794	broad.mit.edu	37	chr5	179201504	179201504	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaggcccatggctcccAtgagctcagcagctgccgtg	8	6	11	16	1	1	1	1	1	0	0	2	1	2	1	4	2	5	4	4	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:179201504A>G	uc003mkm.2	+	5	2940	c.2677A>G	c.(2677-2679)ATG>GTG	p.M893V	MAML1_uc003mkn.1_Intron	NM_014757	NP_055572	Q92585	MAML1_HUMAN	mastermind-like 1	893					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	peptide antigen binding|protein kinase binding|transcription coactivator activity			lung(4)|ovary(2)	6	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CATGGCTCCCATGAGCTCAGC	0.637													13	25					0	0	1	0	0		G	179201504	G	G	179201504	3	3	103	1	0	0	0	0	1	0	0	0	9223	217	8	3	2695	3	MAML1	5	179201504	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	638501	179201504	1713756	606	62555											
TRIM41	90933	broad.mit.edu	37	chr5	180661180	180661180	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctccctcccaagtggaccTgacgctggaccctgacacgg	7	6	10	18	2	0	2	0	2	0	0	2	4	2	4	5	3	0	1	5	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:180661180T>G	uc003mne.1	+	6	1992	c.1298T>G	c.(1297-1299)CTG>CGG	p.L433R	TRIM41_uc003mnc.1_3'UTR|TRIM41_uc003mnd.1_Missense_Mutation_p.L433R|TRIM41_uc003mnf.1_RNA|TRIM41_uc003mng.1_Missense_Mutation_p.L13R	NM_033549	NP_291027	Q8WV44	TRI41_HUMAN	tripartite motif-containing 41 isoform 1	433	B30.2/SPRY.					cytoplasm|nucleus	ligase activity|protein binding|zinc ion binding				0	all_cancers(89;9.17e-06)|all_epithelial(37;1.19e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000209)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAAGTGGACCTGACGCTGGAC	0.667													22	54					0	0	1	0	0		G	180661180	G	G	180661180	3	3	103	1	0	0	0	0	1	0	0	0	16542	1580	55	5	1320	5	TRIM41	5	180661180	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1459676	180661180	254080	607	62556											
TRIM52	84851	broad.mit.edu	37	chr5	180687359	180687361	+	In_Frame_Del	DEL	TTC	-	-																															tcatcgtatgcttccagtatTtcttcttctcggtagacatc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr5:180687359_180687361delTTC	uc003mnp.2	-	1	759_761	c.454_456delGAA	c.(454-456)GAAdel	p.E152del	uc003mnq.2_5'Flank	NM_032765	NP_116154	Q96A61	TRI52_HUMAN	tripartite motif-containing 52	152	Glu-rich.					intracellular	zinc ion binding				0	all_cancers(89;8.79e-06)|all_epithelial(37;1.13e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0654)	all_cancers(40;0.0106)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.0588)|all_lung(500;0.149)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.232)		CTTCCAGTATTTCTTCTTCTCGG	0.507													51	106	---	---	---	---						.	-	180687361	-	-	180687359	7	5	103	1	0	1	0	1	0	0	0	0	16553	1838	64	0	445	0	TRIM52	5	180687359	In_Frame_Del	DEL	TTC	TCGA-BR-A4QL-01A-31D-A25D-08	26179	180687359	227901	608	62557											
DUSP22	56940	broad.mit.edu	37	chr6	335143	335143	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacctgtgcatcccagcagcGgattcaccatctcaaaacct	11	9	6	15	1	2	0	2	0	1	0	4	1	3	1	4	1	5	2	4	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:335143G>A	uc003msx.2	+	4	607	c.168G>A	c.(166-168)GCG>GCA	p.A56A	DUSP22_uc011dhn.1_Silent_p.A56A|DUSP22_uc003msy.1_Silent_p.A13A	NM_020185	NP_064570	Q9NRW4	DUS22_HUMAN	dual specificity phosphatase 22	56					apoptosis|cell proliferation|inactivation of MAPK activity|multicellular organismal development|positive regulation of JNK cascade|regulation of cell proliferation|transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(77;0.228)	Breast(5;0.0249)|all_hematologic(90;0.0489)		OV - Ovarian serous cystadenocarcinoma(45;0.0277)|BRCA - Breast invasive adenocarcinoma(62;0.0669)		TCCCAGCAGCGGATTCACCAT	0.318													8	58					0	0	1	0	0		A	335143	A	A	335143	2	1	103	1	0	0	0	0	0	0	0	1	4827	1103	39	1		1	DUSP22	6	335143	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08		335143	170779924	609	62558											
DUSP22	56940	broad.mit.edu	37	chr6	345898	345898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaattcattcacgagtgccGgctccgcggtgagagctgcc	8	9	12	12	4	2	1	2	1	0	1	3	3	3	1	3	2	3	2	3	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:345898G>A	uc003msx.2	+	5	672	c.233G>A	c.(232-234)CGG>CAG	p.R78Q	DUSP22_uc011dhn.1_Missense_Mutation_p.R78Q|DUSP22_uc003msy.1_Missense_Mutation_p.R35Q	NM_020185	NP_064570	Q9NRW4	DUS22_HUMAN	dual specificity phosphatase 22	78	Tyrosine-protein phosphatase.				apoptosis|cell proliferation|inactivation of MAPK activity|multicellular organismal development|positive regulation of JNK cascade|regulation of cell proliferation|transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(77;0.228)	Breast(5;0.0249)|all_hematologic(90;0.0489)		OV - Ovarian serous cystadenocarcinoma(45;0.0277)|BRCA - Breast invasive adenocarcinoma(62;0.0669)		CACGAGTGCCGGCTCCGCGGT	0.423													6	56					0	0	1	0	0		A	345898	A	A	345898	3	1	103	1	0	0	0	0	1	0	0	0	4827	1116	39	1	251	1	DUSP22	6	345898	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	10755	345898	170769169	610	62559											
FAM50B	26240	broad.mit.edu	37	chr6	3850382	3850382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaggagcagcggcgcgagCgcaagcgtaagatctcctgc	10	4	15	12	5	1	1	0	0	1	1	2	3	1	2	1	2	6	4	1	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:3850382C>T	uc003mvu.2	+	2	449	c.337C>T	c.(337-339)CGC>TGC	p.R113C		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	113						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				gcggcGCGAGCGCAAGCGTAA	0.532													14	12					0	0	1	0	0		T	3850382	T	T	3850382	3	4	103	1	0	0	0	0	1	0	0	0	5592	768	27	1	339	1	FAM50B	6	3850382	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3504484	3850382	167264685	611	62560											
PRPF4B	8899	broad.mit.edu	37	chr6	4032686	4032687	+	Frame_Shift_Ins	INS	-	A	A																															aggtcacggtccaaagagagINSaaaatcaaaacggtctgaaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:4032686_4032687insA	uc003mvv.2	+	2	1026_1027	c.935_936insA	c.(934-936)AGAfs	p.R312fs	PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	312	Arg/Lys-rich (basic).					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				TCCAAAGAGAGAAAATCAAAAC	0.386													29	63	---	---	---	---						.	A	4032687	A	A	4032686	7	5	103	1	0	1	1	0	0	0	0	0	12595	942	33	0	941	0	PRPF4B	6	4032686	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	182304	4032686	167082381	612	62561											
DSP	1832	broad.mit.edu	37	chr6	7565711	7565711	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctgctgtacgactggagCgacaagaacaccaacatcgc	13	5	11	12	3	0	1	0	0	0	1	1	5	0	2	1	1	6	3	1	1	4	1	rs121912992		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:7565711C>T	uc003mxp.1	+	7	1176	c.897C>T	c.(895-897)AGC>AGT	p.S299S	DSP_uc003mxq.1_Silent_p.S299S	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	299	Globular 1.|Interacts with plakophilin 1 and junction plakoglobin.		S -> R (in ARVD8).		cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		ACGACTGGAGCGACAAGAACA	0.547													4	51					0	0	1	0	0		T	7565711	T	T	7565711	2	4	103	1	0	0	0	0	0	0	0	1	4787	767	27	1		1	DSP	6	7565711	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3533025	7565711	163549356	613	62562											
DSP	1832	broad.mit.edu	37	chr6	7578041	7578041	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagctggcctcatacacCtcaggactggaaactctgct	9	9	8	15	0	3	0	2	0	1	0	4	2	4	2	3	3	4	2	3	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:7578041C>A	uc003mxp.1	+	21	3186	c.2907C>A	c.(2905-2907)ACC>ACA	p.T969T	DSP_uc003mxq.1_Silent_p.T969T	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	969	Globular 1.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		CCTCATACACCTCAGGACTGG	0.428													50	69					1.64573e-32	1.78201e-32	1	1	0		A	7578041	A	A	7578041	2	1	103	1	0	0	0	0	0	0	0	1	4787	668	24	5		5	DSP	6	7578041	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	12330	7578041	163537026	614	62563											
SNRNP48	154007	broad.mit.edu	37	chr6	7609096	7609096	+	Frame_Shift_Del	DEL	A	-	-																															tagtcataaaagaagaaagcAaaaaatataaatgaagtact																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:7609096delA	uc003mxr.2	+	9	1069	c.1010delA	c.(1009-1011)CAAfs	p.Q337fs	SNRNP48_uc003mxs.2_RNA	NM_152551	NP_689764	Q6IEG0	SNR48_HUMAN	U11/U12 snRNP 48K	337					mRNA processing	cytoplasm|U12-type spliceosomal complex	metal ion binding				0						AGAAGAAAGCAAAAAATATAA	0.289													14	10	---	---	---	---						.	-	7609096	-	-	7609096	7	5	103	1	0	1	0	1	0	0	0	0	14882	130	5	0	1044	0	SNRNP48	6	7609096	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	31055	7609096	163505971	615	62564											
HIVEP1	3096	broad.mit.edu	37	chr6	12089463	12089463	+	Frame_Shift_Del	DEL	A	-	-																															cttaatggggcagaagtttcAaaaaaaggtaaattaaaatc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:12089463delA	uc003nac.2	+	3	266	c.87delA	c.(85-87)TCAfs	p.S29fs		NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	29					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				CAGAAGTTTCAAAAAAAGGTA	0.259													22	51	---	---	---	---						.	-	12089463	-	-	12089463	7	5	103	1	0	1	0	1	0	0	0	0	7202	117	5	0	93	0	HIVEP1	6	12089463	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	4480367	12089463	159025604	616	62565											
PHACTR1	221692	broad.mit.edu	37	chr6	13206135	13206135	+	Frame_Shift_Del	DEL	G	-	-																															gtcatgatctgtatgcccgtGggggggccagacctctcact																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:13206135delG	uc010jpc.2	+	8	1085	c.753delG	c.(751-753)GTGfs	p.V251fs	PHACTR1_uc011dir.1_Frame_Shift_Del_p.V320fs|PHACTR1_uc003nag.1_Frame_Shift_Del_p.V251fs|PHACTR1_uc003nah.1_Frame_Shift_Del_p.V251fs	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	251						cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			GTATGCCCGTGGGGGGGCCAG	0.597													27	49	---	---	---	---						.	-	13206135	-	-	13206135	7	5	103	1	0	1	0	1	0	0	0	0	11828	1335	47	0	775	0	PHACTR1	6	13206135	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	1116672	13206135	157908932	617	62566											
CCDC90A	63933	broad.mit.edu	37	chr6	13801587	13801587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatatcctttttcacattcGcaatctgagacattacttgc	10	16	4	11	1	3	1	2	1	1	1	5	2	4	1	1	0	2	1	1	0	3	6	rs145895773		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:13801587G>A	uc003nbd.2	-	4	802	c.674C>T	c.(673-675)GCG>GTG	p.A225V	CCDC90A_uc010jpf.2_RNA	NM_001031713	NP_001026883	Q96AQ8	CC90A_HUMAN	coiled-coil domain containing 90A precursor	225						integral to membrane|mitochondrion					0	Breast(50;0.0027)|Ovarian(93;0.0964)	all_hematologic(90;0.117)				TTTCACATTCGCAATCTGAGA	0.358													30	20					0	0	1	0	0		A	13801587	A	A	13801587	3	1	103	1	0	0	0	0	1	0	0	0	2871	1087	38	1	429	1	CCDC90A	6	13801587	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	595452	13801587	157313480	618	62567											
RBM24	221662	broad.mit.edu	37	chr6	17292117	17292117	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggagctgcatacgcacaaTactcagcagctgctgctgct	9	9	10	13	1	1	0	1	0	0	0	1	1	1	1	0	1	9	8	0	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:17292117T>C	uc003nbz.3	+	4	482	c.478T>C	c.(478-480)TAC>CAC	p.Y160H	RBM24_uc003nby.3_3'UTR|RBM24_uc011dix.1_Missense_Mutation_p.Y102H|RBM24_uc003nca.2_Missense_Mutation_p.Y115H|RBM24_uc011diy.1_Silent_p.N73N|RBM24_uc011diz.1_Silent_p.N58N	NM_001143942	NP_001137414	Q9BX46	RBM24_HUMAN	RNA binding motif protein 24 isoform 1	160	Ala-rich.				cell differentiation|regulation of mRNA stability|regulation of myotube differentiation	cytoplasm|nucleus	mRNA 3'-UTR binding|nucleotide binding			ovary(1)|skin(1)	2	Breast(50;0.0615)|Ovarian(93;0.0733)	all_hematologic(90;0.062)	all cancers(50;0.131)|Epithelial(50;0.15)			ATACGCACAATACTCAGCAgc	0.478													40	20					0	0	1	0	0		C	17292117	C	C	17292117	3	2	103	1	0	0	0	0	1	0	0	0	13149	1406	49	3	525	3	RBM24	6	17292117	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	3490530	17292117	153822950	619	62568											
MRS2	57380	broad.mit.edu	37	chr6	24412566	24412566	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtctggagagggtcaactCgttacataccctttaccttt	8	15	8	10	1	2	1	1	0	1	1	3	2	2	1	2	2	4	1	2	2	4	6	rs148187811		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:24412566C>T	uc003neb.2	+	5	653	c.531C>T	c.(529-531)CTC>CTT	p.L177L	MRS2_uc003nea.2_Silent_p.L177L|MRS2_uc011djl.1_Silent_p.L180L|MRS2_uc011djm.1_RNA|MRS2_uc011djn.1_Silent_p.L127L|MRS2_uc003nec.2_Silent_p.L54L	NM_020662	NP_065713	Q9HD23	MRS2_HUMAN	MRS2-like, magnesium homeostasis factor	177	Mitochondrial matrix (Potential).				ion transport	integral to membrane|mitochondrial inner membrane					0						AGGGTCAACTCGTTACATACC	0.383													37	19					0	0	1	0	0		T	24412566	T	T	24412566	2	4	103	1	0	0	0	0	0	0	0	1	9869	871	31	1		1	MRS2	6	24412566	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	7120449	24412566	146702501	620	62569											
LRRC16A	55604	broad.mit.edu	37	chr6	25606376	25606376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagaacccaaagcggaagCaggctccaggtctcggagct	12	4	13	12	2	1	1	0	0	1	1	3	3	2	3	2	4	5	4	2	4	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:25606376C>T	uc011djw.1	+	35	4098	c.3722C>T	c.(3721-3723)GCA>GTA	p.A1241V	LRRC16A_uc010jpx.2_Missense_Mutation_p.A1196V|LRRC16A_uc010jpy.2_Missense_Mutation_p.A1235V	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	1241					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						AAAGCGGAAGCAGGCTCCAGG	0.567													11	21					0	0	1	0	0		T	25606376	T	T	25606376	3	4	103	1	0	0	0	0	1	0	0	0	8989	710	25	2	3860	2	LRRC16A	6	25606376	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1193810	25606376	145508691	621	62570											
SLC17A3	10786	broad.mit.edu	37	chr6	25845699	25845699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtagtcctaacaggttaaCggcaaacagcaagaagaaga	18	5	11	7	1	0	3	0	0	0	3	1	4	1	3	1	2	4	4	1	2	7	3	rs114720409	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:25845699C>T	uc003nfi.3	-	11	1284	c.1174G>A	c.(1174-1176)GTT>ATT	p.V392I	SLC17A3_uc003nfk.3_Missense_Mutation_p.V470I	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	392	Helical; (Potential).				glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						AACAGGTTAACGGCAAACAGC	0.413													32	60					0	0	1	0	0		T	25845699	T	T	25845699	3	4	103	1	0	0	0	0	1	0	0	0	14443	536	19	1	92	1	SLC17A3	6	25845699	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	239323	25845699	145269368	622	62571											
HIST1H1T	3010	broad.mit.edu	37	chr6	26108248	26108248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccagccggcttcctccctCgcttcttggttggaagtttc	4	13	10	14	2	1	0	0	0	1	0	5	1	3	1	4	3	2	4	4	3	1	5	rs142806773		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:26108248C>T	uc003ngj.2	-	1	117	c.74G>A	c.(73-75)CGA>CAA	p.R25Q		NM_005323	NP_005314	P22492	H1T_HUMAN	histone cluster 1, H1t	25					cell differentiation|multicellular organismal development|nucleosome assembly|spermatogenesis	nucleosome	DNA binding			ovary(2)	2						CTTCCTCCCTCGCTTCTTGGT	0.517													22	25					0	0	1	0	0		T	26108248	T	T	26108248	3	4	103	1	0	0	0	0	1	0	0	0	7143	884	31	1	553	1	HIST1H1T	6	26108248	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	262549	26108248	145006819	623	62572											
HIST1H1T	3010	broad.mit.edu	37	chr6	26108309	26108309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggcagaagctgcaggcaCggtttcagacataacaacag	14	6	11	10	1	1	2	1	0	0	2	1	2	1	2	0	3	4	5	0	3	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:26108309C>T	uc003ngj.2	-	1	56	c.13G>A	c.(13-15)GTG>ATG	p.V5M		NM_005323	NP_005314	P22492	H1T_HUMAN	histone cluster 1, H1t	5					cell differentiation|multicellular organismal development|nucleosome assembly|spermatogenesis	nucleosome	DNA binding			ovary(2)	2						GCTGCAGGCACGGTTTCAGAC	0.542													18	28					0	0	1	0	0		T	26108309	T	T	26108309	3	4	103	1	0	0	0	0	1	0	0	0	7143	536	19	1	614	1	HIST1H1T	6	26108309	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	61	26108309	145006758	624	62573											
MRPS18B	28973	broad.mit.edu	37	chr6	30590656	30590656	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcccacacgggtatcatCttctatgctccatacacagg	9	10	8	14	2	3	0	1	0	2	0	4	0	4	0	2	2	3	2	2	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:30590656C>A	uc003nqo.2	+	5	559	c.402C>A	c.(400-402)ATC>ATA	p.I134I	MRPS18B_uc011dml.1_Intron|MRPS18B_uc010jsd.1_Silent_p.I111I	NM_014046	NP_054765	Q9Y676	RT18B_HUMAN	mitochondrial ribosomal protein S18B precursor	134					translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(1)	1						CGGGTATCATCTTCTATGCTC	0.498													17	39					6.49762e-13	6.84434e-13	1	1	0		A	30590656	A	A	30590656	2	1	103	1	0	0	0	0	0	0	0	1	9847	903	32	5		5	MRPS18B	6	30590656	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4482347	30590656	140524411	625	62574											
DDR1	780	broad.mit.edu	37	chr6	30860096	30860096	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgtaacaacatgcacacGctgggagcccgtctgcctgg	9	7	11	14	2	1	0	0	0	1	0	1	1	1	1	2	2	5	3	2	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:30860096G>A	uc003nrr.2	+	9	1135	c.876G>A	c.(874-876)ACG>ACA	p.T292T	DDR1_uc010jse.2_Silent_p.T292T|DDR1_uc003nrq.2_Silent_p.T292T|DDR1_uc003nrs.2_Silent_p.T292T|DDR1_uc003nrt.2_Silent_p.T292T|DDR1_uc011dms.1_Silent_p.T310T|DDR1_uc003nru.2_Silent_p.T292T|DDR1_uc003nrv.2_Silent_p.T292T|DDR1_uc003nrw.1_Silent_p.T91T|DDR1_uc003nry.1_5'Flank|DDR1_uc003nrx.1_5'Flank	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	292	Extracellular (Potential).				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	ACATGCACACGCTGGGAGCCC	0.672													17	34					0	0	1	0	0		A	30860096	A	A	30860096	2	1	103	1	0	0	0	0	0	0	0	1	4339	1074	38	1		1	DDR1	6	30860096	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	269440	30860096	140254971	626	62575											
VARS2	57176	broad.mit.edu	37	chr6	30883960	30883960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaacaactgtggaaggaacGgggagtgaggagacatgagc	15	4	17	5	1	0	3	0	2	0	1	0	8	0	6	0	5	4	0	0	5	4	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:30883960G>A	uc003nsc.1	+	6	1237	c.605G>A	c.(604-606)CGG>CAG	p.R202Q	VARS2_uc003nsd.2_Missense_Mutation_p.R202Q|VARS2_uc011dmx.1_Missense_Mutation_p.R202Q|VARS2_uc011dmy.1_Missense_Mutation_p.R62Q|VARS2_uc011dmz.1_Missense_Mutation_p.R232Q|VARS2_uc011dna.1_Missense_Mutation_p.R202Q|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_5'Flank	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	202					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						TGGAAGGAACGGGGAGTGAGG	0.562													24	37					0	0	1	0	0		A	30883960	A	A	30883960	3	1	103	1	0	0	0	0	1	0	0	0	17150	1116	39	1	721	1	VARS2	6	30883960	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	23864	30883960	140231107	627	62576											
DPCR1	135656	broad.mit.edu	37	chr6	30920773	30920773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctatatgatgcggacacgccGcacactaacccagaacaccc	13	5	7	16	3	0	2	0	1	0	1	0	3	0	3	3	1	3	1	3	1	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:30920773G>A	uc003nsg.2	+	3	4061	c.4061G>A	c.(4060-4062)CGC>CAC	p.R1354H		NM_080870	NP_543146	Q3MIW9	DPCR1_HUMAN	diffuse panbronchiolitis critical region 1	478	Cytoplasmic (Potential).					integral to membrane					0						CGGACACGCCGCACACTAACC	0.517													18	32					0	0	1	0	0		A	30920773	A	A	30920773	3	1	103	1	0	0	0	0	1	0	0	0	4718	1087	38	1	4071	1	DPCR1	6	30920773	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	36813	30920773	140194294	628	62577											
TCF19	6941	broad.mit.edu	37	chr6	31127312	31127312	+	Frame_Shift_Del	DEL	C	-	-																															ggtgatctctacaccttccaCccccccgccggggctggctg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:31127312delC	uc003nss.2	+	2	590	c.66delC	c.(64-66)CACfs	p.H22fs	CCHCR1_uc011dne.1_5'Flank|CCHCR1_uc003nsq.3_5'Flank|CCHCR1_uc003nsp.3_5'Flank|CCHCR1_uc003nsr.3_5'Flank|CCHCR1_uc010jsk.1_5'Flank|TCF19_uc003nst.2_Frame_Shift_Del_p.H22fs	NM_001077511	NP_001070979	Q9Y242	TCF19_HUMAN	transcription factor 19	22					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ACACCTTCCACCCCCCCGCCG	0.687													10	16	---	---	---	---						.	-	31127312	-	-	31127312	7	5	103	1	0	1	0	1	0	0	0	0	15714	506	18	0	68	0	TCF19	6	31127312	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	206539	31127312	139987755	629	62578											
NFKBIL1	4795	broad.mit.edu	37	chr6	31526079	31526079	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacccaagccaaccagggcCgggcccagggaagagcaccc	12	0	13	16	1	0	1	0	0	0	1	0	3	0	2	6	3	4	1	6	3	4	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:31526079C>T	uc003nub.2	+	4	956	c.837C>T	c.(835-837)GCC>GCT	p.A279A	NFKBIL1_uc011dnr.1_Silent_p.A241A|NFKBIL1_uc011dns.1_Silent_p.A256A|NFKBIL1_uc011dnt.1_RNA|NFKBIL1_uc003nuc.2_Silent_p.A264A	NM_005007	NP_004998	Q9UBC1	IKBL1_HUMAN	nuclear factor of kappa light polypeptide gene	279					cytoplasmic sequestering of transcription factor		protein binding				0						CAACCAGGGCCGGGCCCAGGG	0.706													3	8					0	0	1	0	0		T	31526079	T	T	31526079	2	4	103	1	0	0	0	0	0	0	0	1	10400	639	23	1		1	NFKBIL1	6	31526079	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	398767	31526079	139588988	630	62579											
BAT3	7917	broad.mit.edu	37	chr6	31619438	31619438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgaggtgtctcacctgggCccccacaataaaggtacgag	11	7	12	11	1	1	1	1	1	1	0	2	2	1	1	3	3	1	1	3	3	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:31619438C>T	uc003nvg.3	-	2	417	c.103G>A	c.(103-105)GCC>ACC	p.A35T	BAT3_uc003nvf.3_Missense_Mutation_p.A35T|BAT3_uc003nvh.3_Missense_Mutation_p.A35T|BAT3_uc003nvi.3_Missense_Mutation_p.A35T|BAT3_uc011dnw.1_Missense_Mutation_p.A35T|BAT3_uc011dnx.1_Missense_Mutation_p.A35T|BAT3_uc003nvj.1_Missense_Mutation_p.A35T|APOM_uc003nvk.2_5'Flank	NM_004639	NP_004630	P46379	BAG6_HUMAN	HLA-B associated transcript-3 isoform a	35	Ubiquitin-like.				apoptosis in response to endoplasmic reticulum stress|brain development|cell differentiation|chromatin modification|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|embryo development|internal peptidyl-lysine acetylation|kidney development|lung development|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|protein stabilization|spermatogenesis|synaptonemal complex assembly|tail-anchored membrane protein insertion into ER membrane|transport|ubiquitin-dependent protein catabolic process	BAT3 complex|nucleus	polyubiquitin binding|proteasome binding|ribosome binding				0						CTCACCTGGGCCCCCACAATA	0.507													31	41					0	0	1	0	0		T	31619438	T	T	31619438	3	4	103	1	0	0	0	0	1	0	0	0	1323	739	26	2	3391	2	BAT3	6	31619438	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	93359	31619438	139495629	631	62580											
MSH5	4439	broad.mit.edu	37	chr6	31715180	31715180	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acaggaatcctcaacagatgCcactgtaagtggggagagaa	15	6	12	8	0	1	2	1	0	0	2	2	5	2	4	2	3	2	1	2	3	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:31715180C>A	uc003nwv.1	+	10	862	c.783C>A	c.(781-783)TGC>TGA	p.C261*	MSH5_uc003nwt.1_Nonsense_Mutation_p.C278*|MSH5_uc003nwu.1_Nonsense_Mutation_p.C261*|MSH5_uc003nww.1_Nonsense_Mutation_p.C261*|MSH5_uc003nwx.1_Nonsense_Mutation_p.C278*|MSH5_uc011dof.1_5'UTR	NM_172166	NP_751898	O43196	MSH5_HUMAN	mutS homolog 5 isoform c	261					chiasma assembly|homologous chromosome segregation|meiotic prophase II|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			ovary(2)|breast(1)	3						TCAACAGATGCCACTGTAAGT	0.473								Direct_reversal_of_damage|MMR					16	15					1.67942e-08	1.73695e-08	1	1	0		A	31715180	A	A	31715180	4	1	103	1	0	0	0	0	0	1	0	0	9891	747	26	5	868	5	MSH5	6	31715180	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	95742	31715180	139399887	632	62581											
TNXB	7148	broad.mit.edu	37	chr6	32020768	32020768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgggagtttcttcctctgCagctgagaagaggggacaga	9	8	16	8	1	2	3	0	1	2	3	3	6	3	5	1	4	2	3	1	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:32020768C>T	uc003nzl.2	-	26	8990	c.8788G>A	c.(8788-8790)GCA>ACA	p.A2930T		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TCTTCCTCTGCAGCTGAGAAG	0.647													12	25					0	0	1	0	0		T	32020768	T	T	32020768	3	4	103	1	0	0	0	0	1	0	0	0	16371	710	25	2	6001	2	TNXB	6	32020768	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	305588	32020768	139094299	633	62582											
TNXB	7148	broad.mit.edu	37	chr6	32035444	32035444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgcacactcacccgtgaCgcccacagcagacactgggc	10	4	10	17	2	1	2	1	1	0	1	1	2	1	2	2	1	2	2	2	1	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:32035444C>T	uc003nzl.2	-	18	6740	c.6538G>A	c.(6538-6540)GTC>ATC	p.V2180I		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2252					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TCACCCGTGACGCCCACAGCA	0.637													12	24					0	0	1	0	0		T	32035444	T	T	32035444	3	4	103	1	0	0	0	0	1	0	0	0	16371	536	19	1	8283	1	TNXB	6	32035444	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	14676	32035444	139079623	634	62583											
TNXB	7148	broad.mit.edu	37	chr6	32035620	32035620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacggtgaaggagtcgaagCggccctgggggacggtccag	8	4	19	10	4	0	1	0	1	0	0	2	4	1	3	2	6	1	1	2	6	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:32035620C>T	uc003nzl.2	-	18	6564	c.6362G>A	c.(6361-6363)CGC>CAC	p.R2121H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2193	Fibronectin type-III 14.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GGAGTCGAAGCGGCCCTGGGG	0.692													28	43					0	0	1	0	0		T	32035620	T	T	32035620	3	4	103	1	0	0	0	0	1	0	0	0	16371	768	27	1	8459	1	TNXB	6	32035620	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	176	32035620	139079447	635	62584											
TNXB	7148	broad.mit.edu	37	chr6	32063940	32063940	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggcactggccgcggcctcGgcagcccccggggcagctgc	4	4	16	17	4	0	0	0	0	0	0	1	0	0	0	4	6	3	4	4	6	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:32063940G>A	uc003nzl.2	-	3	1892	c.1690C>T	c.(1690-1692)CGA>TGA	p.R564*		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	564	EGF-like 14.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CCGCGGCCTCGGCAGCCCCCG	0.682													5	5					0	0	1	0	0		A	32063940	A	A	32063940	4	1	103	1	0	0	0	0	0	1	0	0	16371	1124	39	1	13191	1	TNXB	6	32063940	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	28320	32063940	139051127	636	62585											
NOTCH4	4855	broad.mit.edu	37	chr6	32172014	32172014	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtccagacactcgtccacGtctccctcacagcgtagccc	7	8	8	18	3	2	1	1	0	1	1	6	1	4	1	4	1	2	1	4	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:32172014G>A	uc003obb.2	-	19	3157	c.3018C>T	c.(3016-3018)GAC>GAT	p.D1006D	NOTCH4_uc003oba.2_5'Flank|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1006	Extracellular (Potential).|EGF-like 26.				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						ACTCGTCCACGTCTCCCTCAC	0.607													20	26					0	0	1	0	0		A	32172014	A	A	32172014	2	1	103	1	0	0	0	0	0	0	0	1	10570	1136	40	1		1	NOTCH4	6	32172014	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	108074	32172014	138943053	637	62586											
HLA-DRA	3122	broad.mit.edu	37	chr6	32407731	32407731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagcgcccaagaagaaaatgGccataagtggagtccctgtg	13	6	13	9	1	0	2	0	0	0	2	1	4	1	3	3	2	1	0	3	2	5	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:32407731G>A	uc003obh.2	+	1	85	c.4G>A	c.(4-6)GCC>ACC	p.A2T	HLA-DRA_uc003obi.2_Missense_Mutation_p.A2T	NM_019111	NP_061984	P01903	DRA_HUMAN	major histocompatibility complex, class II, DR	2					antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|Golgi apparatus|integral to plasma membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity			ovary(1)|skin(1)	2						GAAGAAAATGGCCATAAGTGG	0.468									T-cell_Lymphoma_(Cutaneous)__Familial_Clustering_of|Kaposi_Sarcoma_Familial_Clustering_of				4	53					0	0	1	0	0		A	32407731	A	A	32407731	3	1	103	1	0	0	0	0	1	0	0	0	7223	1203	42	2	6	2	HLA-DRA	6	32407731	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	235717	32407731	138707336	638	62587											
ITPR3	3710	broad.mit.edu	37	chr6	33634933	33634933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattctgaaggccccgttcCgtgagaaggggggtgaaggt	8	8	17	8	2	1	3	0	3	1	1	2	4	2	3	3	5	0	2	3	5	3	2	rs139434169	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:33634933C>T	uc011drk.1	+	15	1798	c.1579C>T	c.(1579-1581)CGT>TGT	p.R527C		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	527	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GGCCCCGTTCCGTGAGAAGGG	0.592													27	68					0	0	1	0	0		T	33634933	T	T	33634933	3	4	103	1	0	0	0	0	1	0	0	0	7938	652	23	1	1637	1	ITPR3	6	33634933	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1227202	33634933	137480134	639	62588											
ITPR3	3710	broad.mit.edu	37	chr6	33653503	33653503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgggggcacgaggtgagcGaacgtgtgcagagcagtgag	9	4	20	8	4	0	3	0	2	0	1	0	5	0	3	1	3	4	3	1	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:33653503G>A	uc011drk.1	+	41	5785	c.5566G>A	c.(5566-5568)GAA>AAA	p.E1856K	ITPR3_uc003oey.2_5'Flank	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1856	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CGAGGTGAGCGAACGTGTGCA	0.652													25	51					0	0	1	0	0		A	33653503	A	A	33653503	3	1	103	1	0	0	0	0	1	0	0	0	7938	1059	37	1	5728	1	ITPR3	6	33653503	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	18570	33653503	137461564	640	62589											
GRM4	2914	broad.mit.edu	37	chr6	34059859	34059859	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtctggcgctgtggaggcGtagctgatctggggtatctg	5	11	18	7	2	3	1	0	1	3	0	3	2	3	2	0	6	1	4	0	6	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:34059859G>A	uc003oir.3	-	2	707	c.537C>T	c.(535-537)TAC>TAT	p.Y179Y	GRM4_uc011dsn.1_Silent_p.Y179Y|GRM4_uc010jvh.2_Silent_p.Y179Y|GRM4_uc010jvi.2_Intron|GRM4_uc010jvk.1_Silent_p.Y98Y|GRM4_uc011dsl.1_Silent_p.Y39Y|GRM4_uc003oiq.2_Silent_p.Y46Y|GRM4_uc011dsm.1_Silent_p.Y10Y	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	179	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	CTGTGGAGGCGTAGCTGATCT	0.652													23	32					0	0	1	0	0		A	34059859	A	A	34059859	2	1	103	1	0	0	0	0	0	0	0	1	6815	1140	40	1		1	GRM4	6	34059859	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	406356	34059859	137055208	641	62590											
GRM4	2914	broad.mit.edu	37	chr6	34100766	34100766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcactgaccttgaagaggcGaaggatgttggccaccatga	11	7	14	9	1	0	4	0	3	0	1	0	6	0	5	3	4	0	2	3	4	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:34100766G>A	uc003oir.3	-	1	678	c.508C>T	c.(508-510)CGC>TGC	p.R170C	GRM4_uc011dsn.1_Missense_Mutation_p.R170C|GRM4_uc010jvh.2_Missense_Mutation_p.R170C|GRM4_uc010jvi.2_5'UTR|GRM4_uc010jvk.1_Missense_Mutation_p.R89C	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	170	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	TTGAAGAGGCGAAGGATGTTG	0.637													14	25					0	0	1	0	0		A	34100766	A	A	34100766	3	1	103	1	0	0	0	0	1	0	0	0	6815	1058	37	1	2270	1	GRM4	6	34100766	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	40907	34100766	137014301	642	62591											
SCUBE3	222663	broad.mit.edu	37	chr6	35214016	35214016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggtagaagacattgtgcGagatggccggctctatgcct	8	10	14	9	2	1	3	0	0	1	3	1	4	1	3	2	3	2	3	2	3	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:35214016G>A	uc003okf.1	+	21	2792	c.2786G>A	c.(2785-2787)CGA>CAA	p.R929Q	SCUBE3_uc003okg.1_Missense_Mutation_p.R928Q|SCUBE3_uc003okh.1_Missense_Mutation_p.R816Q	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	929					protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						GACATTGTGCGAGATGGCCGG	0.418													34	81					0	0	1	0	0		A	35214016	A	A	35214016	3	1	103	1	0	0	0	0	1	0	0	0	13971	1058	37	1	2868	1	SCUBE3	6	35214016	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1113250	35214016	135901051	643	62592											
PPARD	5467	broad.mit.edu	37	chr6	35392205	35392205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctacaaggagatcagcGtgcacgtcttctaccgctgc	8	9	9	15	3	3	1	1	0	2	1	4	2	4	1	2	1	5	2	2	1	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:35392205G>A	uc003okm.2	+	7	1036	c.727G>A	c.(727-729)GTG>ATG	p.V243M	PPARD_uc003okl.2_Missense_Mutation_p.V243M|PPARD_uc003okn.2_Missense_Mutation_p.V243M|PPARD_uc011dtb.1_Missense_Mutation_p.V204M|PPARD_uc011dtc.1_Missense_Mutation_p.V145M	NM_006238	NP_006229	Q03181	PPARD_HUMAN	peroxisome proliferative activated receptor,	243					apoptosis|axon ensheathment|cholesterol metabolic process|decidualization|embryo implantation|fatty acid beta-oxidation|fatty acid transport|generation of precursor metabolites and energy|glucose metabolic process|glucose transport|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fat cell differentiation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|linoleic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1					Icosapent(DB00159)|Sulindac(DB00605)|Treprostinil(DB00374)	GGAGATCAGCGTGCACGTCTT	0.587													20	43					0	0	1	0	0		A	35392205	A	A	35392205	3	1	103	1	0	0	0	0	1	0	0	0	12317	1145	40	1	762	1	PPARD	6	35392205	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	178189	35392205	135722862	644	62593											
C6orf81	221481	broad.mit.edu	37	chr6	35704936	35704936	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caactggacatccgcaaaagCgtagtcagcctggccacagg	12	5	11	13	2	1	0	1	0	0	0	2	1	2	1	3	3	3	2	3	3	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:35704936C>T	uc003ola.2	+	1	78	c.51C>T	c.(49-51)AGC>AGT	p.S17S	LOC285847_uc010jvy.1_5'Flank|C6orf81_uc003olb.1_Silent_p.S17S	NM_145028	NP_659465	Q5T9G4	CF081_HUMAN	hypothetical protein LOC221481	17							binding			ovary(1)	1						TCCGCAAAAGCGTAGTCAGCC	0.592											OREG0017379	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	43					0	0	1	0	0		T	35704936	T	T	35704936	2	4	103	1	0	0	0	0	0	0	0	1	2375	767	27	1		1	C6orf81	6	35704936	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	312731	35704936	135410131	645	62594											
KCTD20	222658	broad.mit.edu	37	chr6	36442765	36442765	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagcaccagagaaagtgacGcttcttgtagatggcacacg	13	7	11	10	2	1	3	0	1	1	2	1	4	1	3	1	1	1	4	1	1	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:36442765G>A	uc003ome.2	+	3	751	c.360G>A	c.(358-360)ACG>ACA	p.T120T	KCTD20_uc011dtm.1_Intron|KCTD20_uc011dtn.1_Intron|KCTD20_uc010jwk.2_Intron|KCTD20_uc011dto.1_Intron	NM_173562	NP_775833	Q7Z5Y7	KCD20_HUMAN	potassium channel tetramerisation domain	120	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)	2						AGAAAGTGACGCTTCTTGTAG	0.423													37	66					0	0	1	0	0		A	36442765	A	A	36442765	2	1	103	1	0	0	0	0	0	0	0	1	8124	1074	38	1		1	KCTD20	6	36442765	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	737829	36442765	134672302	646	62595											
CPNE5	57699	broad.mit.edu	37	chr6	36710078	36710078	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggggggacgcagggggCgtgcgggctggggactgcga	5	4	24	8	4	0	0	0	0	0	0	0	3	0	2	0	8	3	3	0	8	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:36710078C>T	uc003omr.1	-	21	1816	c.1749G>A	c.(1747-1749)ACG>ACA	p.T583T	CPNE5_uc003omp.1_Silent_p.T291T|CPNE5_uc010jwn.1_Silent_p.T233T|CPNE5_uc003omq.1_Silent_p.T233T	NM_020939	NP_065990	Q9HCH3	CPNE5_HUMAN	copine V	583										skin(1)	1						ACGCAGGGGGCGTGCGGGCTG	0.692													8	58					0	0	1	0	0		T	36710078	T	T	36710078	2	4	103	1	0	0	0	0	0	0	0	1	3818	755	27	1		1	CPNE5	6	36710078	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	267313	36710078	134404989	647	62596											
ZFAND3	60685	broad.mit.edu	37	chr6	38120035	38120035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgttctgtatgttacatcGcctccccgagcagcacgact	7	12	9	13	3	1	0	0	0	1	0	3	2	2	0	3	0	3	5	3	0	2	3	rs112599440		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:38120035G>A	uc003onx.2	+	6	969	c.554G>A	c.(553-555)CGC>CAC	p.R185H		NM_021943	NP_068762	Q9H8U3	ZFAN3_HUMAN	zinc finger, AN1-type domain 3	185	AN1-type.						DNA binding|zinc ion binding			ovary(1)	1						ATGTTACATCGCCTCCCCGAG	0.572													58	89					0	0	1	0	0		A	38120035	A	A	38120035	3	1	103	1	0	0	0	0	1	0	0	0	17654	1087	38	1	576	1	ZFAND3	6	38120035	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1409957	38120035	132995032	648	62597											
BTBD9	114781	broad.mit.edu	37	chr6	38548022	38548022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggtcccacaagagtatccGtatgtgattgataatggatg	11	12	11	7	2	0	3	0	2	0	1	3	4	2	4	2	2	0	2	2	2	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:38548022G>A	uc003ooa.3	-	6	1582	c.1006C>T	c.(1006-1008)CGG>TGG	p.R336W	BTBD9_uc003ony.3_Missense_Mutation_p.R268W|BTBD9_uc010jwv.2_Missense_Mutation_p.R268W|BTBD9_uc010jww.2_RNA|BTBD9_uc010jwx.2_Missense_Mutation_p.R336W	NM_052893	NP_443125	Q96Q07	BTBD9_HUMAN	BTB (POZ) domain containing 9 isoform a	336					cell adhesion						0						AAGAGTATCCGTATGTGATTG	0.418													26	42					0	0	1	0	0		A	38548022	A	A	38548022	3	1	103	1	0	0	0	0	1	0	0	0	1551	1144	40	1	951	1	BTBD9	6	38548022	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	427987	38548022	132567045	649	62598											
GLO1	2739	broad.mit.edu	37	chr6	38654677	38654677	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttgacttacgtcattccaAgaactctagtataaaaatcc	15	12	4	10	1	2	2	1	1	1	1	4	2	4	2	2	0	2	1	2	0	8	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:38654677A>T	uc003ooc.2	-	2	280	c.158T>A	c.(157-159)CTT>CAT	p.L53H		NM_006708	NP_006699	Q04760	LGUL_HUMAN	glyoxalase I	53					anti-apoptosis|carbohydrate metabolic process	cytoplasm	lactoylglutathione lyase activity|metal ion binding			ovary(1)	1					Glutathione(DB00143)	CGTCATTCCAAGAACTCTAGT	0.328													25	35					0	0	1	0	0		T	38654677	T	T	38654677	3	4	103	1	0	0	0	0	1	0	0	0	6464	72	3	5	416	5	GLO1	6	38654677	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	106655	38654677	132460390	650	62599											
KCNK17	89822	broad.mit.edu	37	chr6	39267230	39267230	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgccacagcctgcagcGtgagcagaaggttccagatg	9	8	12	12	1	0	3	0	1	0	2	2	3	2	3	4	1	5	3	4	1	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:39267230G>A	uc003ooo.2	-	5	1112	c.972C>T	c.(970-972)CAC>CAT	p.H324H	KCNK17_uc003oop.2_3'UTR	NM_031460	NP_113648	Q96T54	KCNKH_HUMAN	potassium channel, subfamily K, member 17	324	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2						aGCCTGCAGCGTGAGCAGAAG	0.328													12	25					0	0	1	0	0		A	39267230	A	A	39267230	2	1	103	1	0	0	0	0	0	0	0	1	8080	1136	40	1		1	KCNK17	6	39267230	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	612553	39267230	131847837	651	62600											
KCNK17	89822	broad.mit.edu	37	chr6	39267459	39267459	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccatcccaaagaggatcCacagggacaccatgttcttg	12	8	9	12	0	1	1	0	0	1	1	3	3	3	3	4	2	1	1	4	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:39267459C>A	uc003ooo.2	-	5	883	c.743G>T	c.(742-744)TGG>TTG	p.W248L	KCNK17_uc003oop.2_3'UTR	NM_031460	NP_113648	Q96T54	KCNKH_HUMAN	potassium channel, subfamily K, member 17	248	Helical; (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2						AAAGAGGATCCACAGGGACAC	0.572													45	95					4.18559e-23	4.4919e-23	1	1	0		A	39267459	A	A	39267459	3	1	103	1	0	0	0	0	1	0	0	0	8080	595	21	5	259	5	KCNK17	6	39267459	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	229	39267459	131847608	652	62601											
DAAM2	23500	broad.mit.edu	37	chr6	39856480	39856480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctttctaacgaggagatcCggcaggccatcttgaagatg	11	9	12	9	2	2	3	0	1	2	2	3	5	3	3	2	3	2	2	2	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:39856480C>T	uc003oow.2	+	17	2242	c.2086C>T	c.(2086-2088)CGG>TGG	p.R696W	DAAM2_uc003oox.2_Missense_Mutation_p.R696W|uc003ooz.1_5'Flank	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	696	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CGAGGAGATCCGGCAGGCCAT	0.557													17	26					0	0	1	0	0		T	39856480	T	T	39856480	3	4	103	1	0	0	0	0	1	0	0	0	4219	643	23	1	2148	1	DAAM2	6	39856480	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	589021	39856480	131258587	653	62602											
UNC5CL	222643	broad.mit.edu	37	chr6	41002639	41002639	+	Frame_Shift_Del	DEL	G	-	-																															tgagacctcattttctagttGgggggtaggctgggacactg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:41002639delG	uc003opi.2	-	2	264	c.175delC	c.(175-177)CAAfs	p.Q59fs	UNC5CL_uc010jxe.1_Frame_Shift_Del_p.Q59fs	NM_173561	NP_775832	Q8IV45	UN5CL_HUMAN	unc-5 homolog C-like	59	Cytoplasmic (Potential).				signal transduction	cytoplasm|integral to membrane				ovary(2)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					TTTTCTAGTTGGGGGGTAGGC	0.582													37	77	---	---	---	---						.	-	41002639	-	-	41002639	7	5	103	1	0	1	0	1	0	0	0	0	17020	1357	47	0	1413	0	UNC5CL	6	41002639	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	1146159	41002639	130112428	654	62603											
TREM1	54210	broad.mit.edu	37	chr6	41250435	41250435	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatttcacatccagggtcTgcccctctttcagttcatac	8	13	5	15	0	5	0	3	0	2	0	6	0	6	0	3	1	2	1	3	1	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:41250435T>C	uc003oqf.1	-	2	168	c.104A>G	c.(103-105)CAG>CGG	p.Q35R	TREM1_uc003oqg.1_Missense_Mutation_p.Q35R	NM_018643	NP_061113	Q9NP99	TREM1_HUMAN	triggering receptor expressed on myeloid cells 1	35	Extracellular (Potential).|Ig-like V-type.			Q -> K (in Ref. 3; AAL74018).	blood coagulation|humoral immune response|intracellular signal transduction|leukocyte migration	extracellular region|integral to membrane|intracellular|plasma membrane	receptor activity			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)				Glutathione(DB00143)	ATCCAGGGTCTGCCCCTCTTT	0.458													50	73					0	0	1	0	0		C	41250435	C	C	41250435	3	2	103	1	0	0	0	0	1	0	0	0	16496	1580	55	3	612	3	TREM1	6	41250435	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	247796	41250435	129864632	655	62604											
TRERF1	55809	broad.mit.edu	37	chr6	42236784	42236784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctgagacagcagctggCggagagcactgtcaggggct	8	7	16	10	1	2	2	1	1	1	2	2	4	2	2	0	4	3	5	0	4	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:42236784C>T	uc003osd.2	-	5	1108	c.545G>A	c.(544-546)CGC>CAC	p.R182H	TRERF1_uc011duq.1_Missense_Mutation_p.R182H|TRERF1_uc003osb.2_Missense_Mutation_p.R21H|TRERF1_uc003osc.2_Missense_Mutation_p.R21H|TRERF1_uc003ose.2_Missense_Mutation_p.R182H	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	182					cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CAGCAGCTGGCGGAGAGCACT	0.602													6	98					0	0	1	0	0		T	42236784	T	T	42236784	3	4	103	1	0	0	0	0	1	0	0	0	16501	768	27	1	3113	1	TRERF1	6	42236784	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	986349	42236784	128878283	656	62605											
UBR2	23304	broad.mit.edu	37	chr6	42585024	42585024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatggaggatgatcacgagcGagcagtgtcggtgactgctc	9	9	15	8	3	1	2	1	2	0	0	3	6	1	4	0	3	3	2	0	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:42585024G>A	uc011dur.1	+	11	1229	c.1229G>A	c.(1228-1230)CGA>CAA	p.R410Q	UBR2_uc011dus.1_Intron|UBR2_uc010jxv.1_5'UTR|UBR2_uc003osh.2_Intron|UBR2_uc003osf.2_Intron	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	410					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			GATCACGAGCGAGCAGTGTCG	0.463													39	58					0	0	1	0	0		A	42585024	A	A	42585024	3	1	103	1	0	0	0	0	1	0	0	0	16928	1058	37	1	1271	1	UBR2	6	42585024	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	348240	42585024	128530043	657	62606											
PRPH2	5961	broad.mit.edu	37	chr6	42689775	42689775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aacacagatagccaggtacgGcttcagccagggcttccatc	11	7	10	13	1	1	1	1	0	0	1	3	1	2	1	3	3	4	3	3	3	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:42689775G>A	uc003osk.2	-	1	584	c.298C>T	c.(298-300)CCG>TCG	p.P100S		NM_000322	NP_000313	P23942	PRPH2_HUMAN	peripherin 2	100	Helical; (Potential).				cell adhesion|visual perception	integral to membrane				ovary(4)|central_nervous_system(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.00178)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0904)			GCCAGGTACGGCTTCAGCCAG	0.577													26	43					0	0	1	0	0		A	42689775	A	A	42689775	3	1	103	1	0	0	0	0	1	0	0	0	12599	1203	42	2	754	2	PRPH2	6	42689775	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	104751	42689775	128425292	658	62607											
CUL7	9820	broad.mit.edu	37	chr6	43018130	43018130	+	Frame_Shift_Del	DEL	A	-	-																															ggtgcggcctgttgactcccAaaatacctggagcataggga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:43018130delA	uc003otq.2	-	5	1543	c.1240delT	c.(1240-1242)TGGfs	p.W414fs	CUL7_uc011dvb.1_Frame_Shift_Del_p.W498fs|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	414	Interaction with TP53.				interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GTTGACTCCCAAAATACCTGG	0.532													20	40	---	---	---	---						.	-	43018130	-	-	43018130	7	5	103	1	0	1	0	1	0	0	0	0	4063	130	5	0	3944	0	CUL7	6	43018130	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	328355	43018130	128096937	659	62608											
CUL9	23113	broad.mit.edu	37	chr6	43153844	43153844	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggggacagcgggaactggAgttcagcatggctgtgggca	8	6	18	9	2	1	0	1	0	0	0	1	3	1	3	1	6	3	4	1	6	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:43153844A>G	uc003ouk.2	+	4	977	c.902A>G	c.(901-903)GAG>GGG	p.E301G	CUL9_uc003ouj.1_Missense_Mutation_p.E301G|CUL9_uc003oul.2_Missense_Mutation_p.E301G|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_5'Flank	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	301					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						CGGGAACTGGAGTTCAGCATG	0.612													5	85					0	0	1	0	0		G	43153844	G	G	43153844	3	3	103	1	0	0	0	0	1	0	0	0	4064	304	11	3	912	3	CUL9	6	43153844	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	135714	43153844	127961223	660	62609											
SLC22A7	10864	broad.mit.edu	37	chr6	43271815	43271815	+	Frame_Shift_Del	DEL	G	-	-																															actgcactggtgggccggctGgggggctctttggccccact																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:43271815delG	uc003out.2	+	10	1524	c.1425delG	c.(1423-1425)CTGfs	p.L475fs	SLC22A7_uc003ous.2_Frame_Shift_Del_p.L473fs	NM_153320	NP_696961	Q9Y694	S22A7_HUMAN	solute carrier family 22 member 7 isoform b	475	Helical; (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	anion:anion antiporter activity|sodium-independent organic anion transmembrane transporter activity				0			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00998)|OV - Ovarian serous cystadenocarcinoma(102;0.0305)			TGGGCCGGCTGGGGGGCTCTT	0.632													88	132	---	---	---	---						.	-	43271815	-	-	43271815	7	5	103	1	0	1	0	1	0	0	0	0	14484	1335	47	0	1459	0	SLC22A7	6	43271815	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	117971	43271815	127843252	661	62610											
ZNF318	24149	broad.mit.edu	37	chr6	43310528	43310528	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taatactcataagcagcagtGggctgatccaactgcttagt	12	11	9	9	0	1	1	1	1	0	0	2	1	2	1	1	1	5	4	1	1	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:43310528G>A	uc003oux.2	-	7	3240	c.3162C>T	c.(3160-3162)CCC>CCT	p.P1054P	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	1054					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			AAGCAGCAGTGGGCTGATCCA	0.463													41	56					0	0	1	0	0		A	43310528	A	A	43310528	2	1	103	1	0	0	0	0	0	0	0	1	17861	1335	47	4		4	ZNF318	6	43310528	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	38713	43310528	127804539	662	62611											
AARS2	57505	broad.mit.edu	37	chr6	44272877	44272877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgctgcagctccccaagcGcatggacatcaagccacaat	11	5	10	15	2	1	0	1	0	0	0	2	1	2	1	3	2	4	4	3	2	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:44272877G>A	uc010jza.1	-	11	1496	c.1493C>T	c.(1492-1494)GCG>GTG	p.A498V	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	498					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	CTCCCCAAGCGCATGGACATC	0.607											OREG0017473	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	68					0	0	1	0	0		A	44272877	A	A	44272877	3	1	103	1	0	0	0	0	1	0	0	0	20	1087	38	1	1512	1	AARS2	6	44272877	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	962349	44272877	126842190	663	62612											
RUNX2	860	broad.mit.edu	37	chr6	45390581	45390581	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgacaaccgcaccatggtgGagatcatcgccgaccacccg	11	4	10	16	5	1	1	1	0	0	1	2	4	1	1	5	2	1	1	5	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:45390581G>T	uc011dvx.1	+	3	520	c.310G>T	c.(310-312)GAG>TAG	p.E104*	RUNX2_uc011dvy.1_Nonsense_Mutation_p.E104*|RUNX2_uc003oxt.2_Nonsense_Mutation_p.E90*	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	104	Runt.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						CACCATGGTGGAGATCATCGC	0.488													12	18					7.03913e-09	7.29497e-09	1	1	0		T	45390581	T	T	45390581	4	4	103	1	0	0	0	0	0	1	0	0	13773	1175	41	5	332	5	RUNX2	6	45390581	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1117704	45390581	125724486	664	62613											
PLA2G7	7941	broad.mit.edu	37	chr6	46675819	46675820	+	Frame_Shift_Ins	INS	-	A	A																															tggaaatattcagagttgatINSaaaaaagaggggctgaggaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:46675819_46675820insA	uc010jzf.2	-	10	1217_1218	c.948_949insT	c.(946-951)TTTATCfs	p.F316fs	PLA2G7_uc010jzg.1_Intron	NM_005084	NP_005075	Q13093	PAFA_HUMAN	phospholipase A2, group VII	316_317					inflammatory response|lipid catabolic process	extracellular space	1-alkyl-2-acetylglycerophosphocholine esterase activity|phospholipid binding				0			Lung(136;0.192)			TCAGAGTTGATAAAAAAGAGGG	0.347													30	30	---	---	---	---						.	A	46675820	A	A	46675819	7	5	103	1	0	1	1	0	0	0	0	0	12028	1406	49	0	388	0	PLA2G7	6	46675819	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	1285238	46675819	124439248	665	62614											
PAQR8	85315	broad.mit.edu	37	chr6	52268150	52268150	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatgtgccccagctcttcCgggagccttacatccgcacc	6	8	10	17	3	1	0	0	0	1	0	3	2	3	2	6	2	4	2	6	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:52268150C>A	uc003pao.3	+	2	313	c.139C>A	c.(139-141)CGG>AGG	p.R47R		NM_133367	NP_588608	Q8TEZ7	MPRB_HUMAN	progestin and adipoQ receptor family member	47	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding				0	Lung NSC(77;0.0875)					CCAGCTCTTCCGGGAGCCTTA	0.622													29	50					2.4375e-19	2.60499e-19	1	1	0		A	52268150	A	A	52268150	2	1	103	1	0	0	0	0	0	0	0	1	11460	643	23	5		5	PAQR8	6	52268150	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	5592331	52268150	118846917	666	62615											
FBXO9	26268	broad.mit.edu	37	chr6	52957325	52957325	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagagagatgtttttagaacGgcctcgtgttcggtttgatg	8	14	14	5	3	0	4	0	1	0	3	2	6	0	4	1	2	1	3	1	2	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:52957325G>A	uc003pbo.2	+	8	833	c.782G>A	c.(781-783)CGG>CAG	p.R261Q	FBXO9_uc003pbk.2_Missense_Mutation_p.R217Q|FBXO9_uc003pbl.2_Missense_Mutation_p.R251Q|FBXO9_uc003pbm.2_Missense_Mutation_p.R141Q|FBXO9_uc003pbn.2_Missense_Mutation_p.R141Q	NM_012347	NP_036479	Q9UK97	FBX9_HUMAN	F-box only protein 9 isoform 1	261						ubiquitin ligase complex	ubiquitin-protein ligase activity			pancreas(1)	1	Lung NSC(77;0.103)					TTTTTAGAACGGCCTCGTGTT	0.413													48	47					0	0	1	0	0		A	52957325	A	A	52957325	3	1	103	1	0	0	0	0	1	0	0	0	5776	1116	39	1	815	1	FBXO9	6	52957325	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	689175	52957325	118157742	667	62616											
GCLC	2729	broad.mit.edu	37	chr6	53385602	53385602	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaagttattgtgcaaagAgcctgattttcttctaatat	13	16	7	5	0	2	3	0	2	2	1	2	3	2	3	1	0	2	2	1	0	6	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:53385602A>C	uc003pbw.1	-	3	808	c.420T>G	c.(418-420)GCT>GCG	p.A140A	GCLC_uc003pbx.2_Silent_p.A140A	NM_001498	NP_001489	P48506	GSH1_HUMAN	glutamate-cysteine ligase, catalytic subunit	140					anti-apoptosis|cell redox homeostasis|cysteine metabolic process|glutamate metabolic process|glutathione biosynthetic process|negative regulation of transcription, DNA-dependent|regulation of blood vessel size|response to heat|response to hormone stimulus|response to oxidative stress|xenobiotic metabolic process	cytosol	ADP binding|ATP binding|coenzyme binding|glutamate binding|glutamate-cysteine ligase activity|magnesium ion binding			ovary(1)|central_nervous_system(1)	2	Lung NSC(77;0.0137)				L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)	TTGTGCAAAGAGCCTGATTTT	0.453													93	122					0	0	1	0	0		C	53385602	C	C	53385602	2	2	103	1	0	0	0	0	0	0	0	1	6310	291	11	5		5	GCLC	6	53385602	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	428277	53385602	117729465	668	62617											
KIAA1586	57691	broad.mit.edu	37	chr6	56917539	56917539	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttgcattttttaaatgTgaagaaggtgaaaacagaca	15	15	8	3	0	0	4	0	2	0	2	0	4	0	4	0	1	2	1	0	1	6	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:56917539T>C	uc003pdj.2	+	4	412	c.242T>C	c.(241-243)GTG>GCG	p.V81A	KIAA1586_uc011dxm.1_Missense_Mutation_p.V54A	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	81							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TTTTTAAATGTGAAGAAGGTG	0.308													18	28					0	0	1	0	0		C	56917539	C	C	56917539	3	2	103	1	0	0	0	0	1	0	0	0	8261	1696	59	3	256	3	KIAA1586	6	56917539	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	3531937	56917539	114197528	669	62618											
ZNF451	26036	broad.mit.edu	37	chr6	57012049	57012049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaattcaggacacaaagtccGagtcattaactcagtggaag	15	8	10	8	1	3	0	3	0	0	0	4	4	4	2	1	2	1	0	1	2	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:57012049G>A	uc003pdm.1	+	10	1390	c.1166G>A	c.(1165-1167)CGA>CAA	p.R389Q	ZNF451_uc003pdl.2_Missense_Mutation_p.R389Q|ZNF451_uc003pdn.1_Missense_Mutation_p.R389Q|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Missense_Mutation_p.R389Q	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	389					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			CACAAAGTCCGAGTCATTAAC	0.398													26	36					0	0	1	0	0		A	57012049	A	A	57012049	3	1	103	1	0	0	0	0	1	0	0	0	17947	1058	37	1	1204	1	ZNF451	6	57012049	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	94510	57012049	114103018	670	62619											
KHDRBS2	202559	broad.mit.edu	37	chr6	62604604	62604604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atcctggcactgttggtgccCcccgggctcgaggggtaggg	4	8	17	12	2	0	0	0	0	0	0	2	1	1	0	4	6	1	4	4	6	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:62604604C>T	uc003peg.2	-	6	993	c.746G>A	c.(745-747)GGG>GAG	p.G249E		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	249	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		TGTTGGTGCCCCCCGGGCTCG	0.552													32	33					0	0	1	0	0		T	62604604	T	T	62604604	3	4	103	1	0	0	0	0	1	0	0	0	8163	623	22	4	319	4	KHDRBS2	6	62604604	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	5592555	62604604	108510463	671	62620											
DDX43	55510	broad.mit.edu	37	chr6	74117732	74117732	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaacaaatagaagagcttAaaaaaggtgtagatatcata	21	9	8	3	0	1	4	1	1	0	3	1	4	1	4	0	1	2	2	0	1	10	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:74117732A>T	uc003pgw.2	+	9	1431	c.1087A>T	c.(1087-1089)AAA>TAA	p.K363*	DDX43_uc011dyn.1_RNA	NM_018665	NP_061135	Q9NXZ2	DDX43_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 43	363	Helicase ATP-binding.					intracellular	ATP binding|ATP-dependent RNA helicase activity|RNA binding			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4						AGAAGAGCTTAAAAAAGGTGT	0.323													20	42					0	0	1	0	0		T	74117732	T	T	74117732	4	4	103	1	0	0	0	0	0	1	0	0	4366	363	13	5	1121	5	DDX43	6	74117732	Nonsense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	11513128	74117732	96997335	672	62621											
COL12A1	1303	broad.mit.edu	37	chr6	75799910	75799910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttctcctctggctcctgCgctaccaggaggtcccggtg	4	10	13	14	2	2	0	0	0	2	0	5	1	4	1	4	5	2	3	4	5	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:75799910C>T	uc003phs.2	-	63	9023	c.8857G>A	c.(8857-8859)GCA>ACA	p.A2953T	COL12A1_uc003pht.2_Missense_Mutation_p.A1789T	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2953	Triple-helical region (COL1) with 2 imperfections.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CTGGCTCCTGCGCTACCAGGA	0.622													83	169					0	0	1	0	0		T	75799910	T	T	75799910	3	4	103	1	0	0	0	0	1	0	0	0	3672	768	27	1	350	1	COL12A1	6	75799910	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1682178	75799910	95315157	673	62622											
COL12A1	1303	broad.mit.edu	37	chr6	75834938	75834938	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgggattgagattgtgtAaggtatatgatgtcatttct	9	17	12	3	0	2	2	1	2	1	1	2	4	2	3	0	2	1	3	0	2	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:75834938A>G	uc003phs.2	-	40	6678	c.6512T>C	c.(6511-6513)TTA>TCA	p.L2171S	COL12A1_uc003pht.2_Missense_Mutation_p.L1007S	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2171	Fibronectin type-III 17.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GAGATTGTGTAAGGTATATGA	0.413													20	30					0	0	1	0	0		G	75834938	G	G	75834938	3	3	103	1	0	0	0	0	1	0	0	0	3672	372	13	3	2787	3	COL12A1	6	75834938	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	35028	75834938	95280129	674	62623											
COL12A1	1303	broad.mit.edu	37	chr6	75890672	75890672	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttcttcggtggtctccTctccagctaagggaatgctg	6	12	10	13	1	3	0	0	0	3	0	6	1	3	1	3	3	2	2	3	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:75890672T>C	uc003phs.2	-	11	2313	c.2147A>G	c.(2146-2148)GAG>GGG	p.E716G	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_Missense_Mutation_p.E374G	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	716	Fibronectin type-III 3.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GGTGGTCTCCTCTCCAGCTAA	0.448													41	90					0	0	1	0	0		C	75890672	C	C	75890672	3	2	103	1	0	0	0	0	1	0	0	0	3672	1551	54	3	7268	3	COL12A1	6	75890672	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	55734	75890672	95224395	675	62624											
MYO6	4646	broad.mit.edu	37	chr6	76623869	76623869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccgcatcccattcatcCgccctgccgaccagtacaaa	9	9	5	18	3	2	0	1	0	1	0	5	1	5	0	6	0	2	2	6	0	2	3	rs146419641	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:76623869C>T	uc003pih.1	+	34	3808	c.3529C>T	c.(3529-3531)CGC>TGC	p.R1177C	MYO6_uc003pii.1_Missense_Mutation_p.R1154C|MYO6_uc003pij.1_Missense_Mutation_p.R125C	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	1186					actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		CCCATTCATCCGCCCTGCCGA	0.522													56	96					0	0	1	0	0		T	76623869	T	T	76623869	3	4	103	1	0	0	0	0	1	0	0	0	10099	652	23	1	3659	1	MYO6	6	76623869	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	733197	76623869	94491198	676	62625											
MYO6	4646	broad.mit.edu	37	chr6	76624686	76624686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattgagagcagacaggctcGgcccacctatgcaacagcca	12	5	11	13	1	0	2	0	1	0	2	1	4	0	2	3	2	4	3	3	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:76624686G>A	uc003pih.1	+	35	4094	c.3815G>A	c.(3814-3816)CGG>CAG	p.R1272Q	MYO6_uc003pii.1_Missense_Mutation_p.R1249Q|MYO6_uc003pij.1_Missense_Mutation_p.R220Q	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	1281					actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		AGACAGGCTCGGCCCACCTAT	0.517													9	15					0	0	1	0	0		A	76624686	A	A	76624686	3	1	103	1	0	0	0	0	1	0	0	0	10099	1116	39	1	3949	1	MYO6	6	76624686	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	817	76624686	94490381	677	62626											
IMPG1	3617	broad.mit.edu	37	chr6	76713645	76713645	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattgggtgtcaggaccaaaGgctggcagtgatccagcaat	11	8	14	8	0	1	1	1	1	0	0	2	3	2	2	2	4	1	3	2	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:76713645G>A	uc003pik.1	-	11	1288	c.1158C>T	c.(1156-1158)GCC>GCT	p.A386A		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	386					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				CAGGACCAAAGGCTGGCAGTG	0.388													23	41					0	0	1	0	0		A	76713645	A	A	76713645	2	1	103	1	0	0	0	0	0	0	0	1	7744	987	35	4		4	IMPG1	6	76713645	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	88959	76713645	94401422	678	62627											
TBX18	9096	broad.mit.edu	37	chr6	85447043	85447043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggaaggcaggagaggagCaagaggagccagacaaaagg	17	1	18	5	0	0	3	0	0	0	3	0	8	0	6	1	6	2	2	1	6	4	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:85447043C>T	uc003pkl.1	-	8	1184	c.1184G>A	c.(1183-1185)TGC>TAC	p.C395Y	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	395					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity	p.C395F(1)		ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		AGGAGAGGAGCAAGAGGAGCC	0.572													25	38					0	0	1	0	0		T	85447043	T	T	85447043	3	4	103	1	0	0	0	0	1	0	0	0	15678	710	25	2	643	2	TBX18	6	85447043	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	8733398	85447043	85668024	679	62628											
AKIRIN2	55122	broad.mit.edu	37	chr6	88391420	88391420	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtctgttggaaactcgtTtctaaatgtcttctcttctg	6	19	7	9	1	6	0	0	0	6	0	8	1	6	1	0	1	1	2	0	1	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:88391420T>C	uc003pmk.2	-	2	880	c.297A>G	c.(295-297)GAA>GAG	p.E99E		NM_018064	NP_060534	Q53H80	AKIR2_HUMAN	akirin 2	99					innate immune response|transcription, DNA-dependent	transcriptional repressor complex					0						GGAAACTCGTTTCTAAATGTC	0.353													8	21					0	0	1	0	0		C	88391420	C	C	88391420	2	2	103	1	0	0	0	0	0	0	0	1	462	1838	64	3		3	AKIRIN2	6	88391420	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2944377	88391420	82723647	680	62629											
ZBTB24	9841	broad.mit.edu	37	chr6	109787639	109787639	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaagtgagccttcaagttGtctaagcgagcaaactgtaa	13	11	9	8	1	3	1	2	1	1	0	3	2	3	1	1	0	4	3	1	0	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:109787639G>A	uc003ptl.1	-	7	1677	c.1509C>T	c.(1507-1509)GAC>GAT	p.D503D	MICAL1_uc011eaq.1_5'Flank|ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Silent_p.D447D|ZBTB24_uc010kdt.1_RNA	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	503	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		CCTTCAAGTTGTCTAAGCGAG	0.458													39	74					0	0	1	0	0		A	109787639	A	A	109787639	2	1	103	1	0	0	0	0	0	0	0	1	17556	1368	48	4		4	ZBTB24	6	109787639	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	21396219	109787639	61327428	681	62630											
ZBTB24	9841	broad.mit.edu	37	chr6	109796613	109796613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagttttacctgtgtgtgttCgcagatgtttctttagctga	6	18	11	6	1	1	2	0	1	1	1	2	3	1	2	1	0	2	5	1	0	2	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:109796613C>T	uc003ptl.1	-	5	1445	c.1277G>A	c.(1276-1278)CGA>CAA	p.R426Q	ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Missense_Mutation_p.R370Q|ZBTB24_uc010kdt.1_RNA	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	426	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		TGTGTGTGTTCGCAGATGTTT	0.468													29	54					0	0	1	0	0		T	109796613	T	T	109796613	3	4	103	1	0	0	0	0	1	0	0	0	17556	884	31	1	828	1	ZBTB24	6	109796613	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	8974	109796613	61318454	682	62631											
REV3L	5980	broad.mit.edu	37	chr6	111709248	111709248	+	Frame_Shift_Del	DEL	A	-	-																															atttcctgaagtctcttctgAaattttttttcactttctgt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:111709248delA	uc003puy.3	-	8	1226	c.903delT	c.(901-903)TTTfs	p.F301fs	REV3L_uc003pux.3_Frame_Shift_Del_p.F223fs|REV3L_uc003puz.3_Frame_Shift_Del_p.F223fs	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	301					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		GTCTCTTCTGAAATTTTTTTT	0.284								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					33	43	---	---	---	---						.	-	111709248	-	-	111709248	7	5	103	1	0	1	0	1	0	0	0	0	13265	243	9	0	8589	0	REV3L	6	111709248	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	1912635	111709248	59405819	683	62632											
TUBE1	51175	broad.mit.edu	37	chr6	112400892	112400892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaatcacagtgctctgccGactttctgaatttctctaaa	11	13	6	11	1	4	1	1	1	3	0	5	2	4	1	1	0	3	2	1	0	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:112400892G>A	uc003pvq.2	-	6	506	c.392C>T	c.(391-393)TCG>TTG	p.S131L	TUBE1_uc003pvr.2_Missense_Mutation_p.S56L	NM_016262	NP_057346	Q9UJT0	TBE_HUMAN	tubulin, epsilon 1	131					centrosome cycle|microtubule-based movement|protein polymerization	microtubule|pericentriolar material	GTP binding|GTPase activity|structural constituent of cytoskeleton			ovary(1)	1		all_cancers(87;0.0101)|all_hematologic(75;0.000258)|Colorectal(196;0.0466)|all_epithelial(87;0.1)		all cancers(137;0.0217)|OV - Ovarian serous cystadenocarcinoma(136;0.0613)|Epithelial(106;0.0636)|GBM - Glioblastoma multiforme(226;0.0972)|BRCA - Breast invasive adenocarcinoma(108;0.246)		GTGCTCTGCCGACTTTCTGAA	0.373													41	55					0	0	1	0	0		A	112400892	A	A	112400892	3	1	103	1	0	0	0	0	1	0	0	0	16789	1059	37	1	1063	1	TUBE1	6	112400892	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	691644	112400892	58714175	684	62633											
ROS1	6098	broad.mit.edu	37	chr6	117642517	117642517	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttataagcactgtcaccccTtccttggcacttttttgatt	7	18	5	11	0	1	1	1	1	0	0	2	1	2	1	3	1	1	2	3	1	2	9			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:117642517T>A	uc003pxp.1	-	35	5881	c.5682A>T	c.(5680-5682)GAA>GAT	p.E1894D	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Missense_Mutation_p.E206D	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1894	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		CTGTCACCCCTTCCTTGGCAC	0.398			T	GOPC|ROS1	glioblastoma|NSCLC								64	112					0	0	1	0	0		A	117642517	A	A	117642517	3	1	103	1	0	0	0	0	1	0	0	0	13556	1606	56	5	1397	5	ROS1	6	117642517	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	5241625	117642517	53472550	685	62634											
ROS1	6098	broad.mit.edu	37	chr6	117662759	117662759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgaggctggtgtctgacCgcacagttgtattaatgagc	10	12	12	7	1	1	3	0	3	1	0	1	3	1	3	1	2	1	4	1	2	3	4	rs141448347		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:117662759C>T	uc003pxp.1	-	29	4905	c.4706G>A	c.(4705-4707)CGG>CAG	p.R1569Q	ROS1_uc011ebi.1_Intron|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1569	Fibronectin type-III 7.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		GGTGTCTGACCGCACAGTTGT	0.428			T	GOPC|ROS1	glioblastoma|NSCLC								21	44					0	0	1	0	0		T	117662759	T	T	117662759	3	4	103	1	0	0	0	0	1	0	0	0	13556	652	23	1	2397	1	ROS1	6	117662759	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	20242	117662759	53452308	686	62635											
NUS1	116150	broad.mit.edu	37	chr6	118014204	118014204	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctttttcttttttaaaGgtattttcaaaagaaataat	13	20	4	4	0	2	1	1	0	1	1	2	1	2	1	1	1	1	1	1	1	7	10			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:118014204G>T	uc003pxw.2	+	2	633	c.416_splice	c.e2-1	p.G139_splice		NM_138459	NP_612468	Q96E22	NGBR_HUMAN	nuclear undecaprenyl pyrophosphate synthase 1						angiogenesis|cell differentiation	integral to membrane	receptor activity|transferase activity, transferring alkyl or aryl (other than methyl) groups			central_nervous_system(1)	1		all_cancers(87;0.0395)|all_epithelial(87;0.0301)		GBM - Glioblastoma multiforme(226;0.02)|OV - Ovarian serous cystadenocarcinoma(136;0.115)|all cancers(137;0.146)		CTTTTTTAAAGGTATTTTCAA	0.318													11	18					3.86212e-05	3.92521e-05	1	1	0		T	118014204	T	T	118014204	5	4	103	1	0	0	0	0	0	0	1	0	10796	1014	35	5	421	5	NUS1	6	118014204	Splice_Site	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	351445	118014204	53100863	687	62636											
FAM184A	79632	broad.mit.edu	37	chr6	119344234	119344234	+	Frame_Shift_Del	DEL	T	-	-																															tccttggcatcatcaagctgTttttgaagaacctaagaaag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:119344234delT	uc003pyj.2	-	3	1374	c.1026delA	c.(1024-1026)AAAfs	p.K342fs	FAM184A_uc003pyk.3_Frame_Shift_Del_p.K222fs|FAM184A_uc003pyl.3_Frame_Shift_Del_p.K222fs	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	342	Potential.									ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						CATCAAGCTGTTTTTGAAGAA	0.368													38	71	---	---	---	---						.	-	119344234	-	-	119344234	7	5	103	1	0	1	0	1	0	0	0	0	5522	1722	60	0	2460	0	FAM184A	6	119344234	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	1330030	119344234	51770833	688	62637											
HSF2	3298	broad.mit.edu	37	chr6	122753116	122753116	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttccacttcttgcattcctCgatgggaaccctgcttcttc	5	16	6	14	1	2	0	0	0	2	0	6	2	4	1	3	1	3	2	3	1	1	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:122753116C>T	uc003pyu.2	+	13	1549	c.1362C>T	c.(1360-1362)CTC>CTT	p.L454L	HSF2_uc003pyv.2_Silent_p.L436L	NM_004506	NP_004497	Q03933	HSF2_HUMAN	heat shock transcription factor 2 isoform a	454					response to stress|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0				OV - Ovarian serous cystadenocarcinoma(136;0.00371)|all cancers(137;0.0299)|GBM - Glioblastoma multiforme(226;0.0586)		TTGCATTCCTCGATGGGAACC	0.418													71	91					0	0	1	0	0		T	122753116	T	T	122753116	2	4	103	1	0	0	0	0	0	0	0	1	7412	871	31	1		1	HSF2	6	122753116	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3408882	122753116	48361951	689	62638											
THEMIS	387357	broad.mit.edu	37	chr6	128134568	128134568	+	Frame_Shift_Del	DEL	T	-	-																															caggccagaacattcaccacTttttttattccctcacagag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:128134568delT	uc003qbi.2	-	5	1537	c.1218delA	c.(1216-1218)AAAfs	p.K406fs	THEMIS_uc010kfa.2_Frame_Shift_Del_p.K309fs|THEMIS_uc011ebt.1_Frame_Shift_Del_p.K406fs|THEMIS_uc010kfb.2_Frame_Shift_Del_p.K371fs	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	406	CABIT 2.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						CATTCACCACTTTTTTTATTC	0.463													22	50	---	---	---	---						.	-	128134568	-	-	128134568	7	5	103	1	0	1	0	1	0	0	0	0	15885	1606	56	0	840	0	THEMIS	6	128134568	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	5381452	128134568	42980499	690	62639											
LAMA2	3908	broad.mit.edu	37	chr6	129511427	129511427	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggataattggaaaggctgCgatgagtgtttctgttcagg	10	12	15	4	1	2	1	1	1	1	0	2	5	2	3	0	4	1	3	0	4	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:129511427C>T	uc003qbn.2	+	11	1650	c.1545C>T	c.(1543-1545)TGC>TGT	p.C515C	LAMA2_uc003qbo.2_Silent_p.C515C	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	515	Laminin EGF-like 4.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GGAAAGGCTGCGATGAGTGTT	0.443													24	29					0	0	1	0	0		T	129511427	T	T	129511427	2	4	103	1	0	0	0	0	0	0	0	1	8622	776	27	1		1	LAMA2	6	129511427	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1376859	129511427	41603640	691	62640											
ARHGAP18	93663	broad.mit.edu	37	chr6	129921947	129921947	+	Frame_Shift_Del	DEL	T	-	-																															cattcatgactgtcattttaTttttttctttattatctatt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:129921947delT	uc003qbr.2	-	11	1501	c.1412delA	c.(1411-1413)AATfs	p.N471fs	ARHGAP18_uc011ebw.1_Frame_Shift_Del_p.N471fs	NM_033515	NP_277050	Q8N392	RHG18_HUMAN	Rho GTPase activating protein 18	471	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			ovary(2)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(136;0.0621)|GBM - Glioblastoma multiforme(226;0.0638)|all cancers(137;0.074)		TGTCATTTTATTTTTTTCTTT	0.343													23	49	---	---	---	---						.	-	129921947	-	-	129921947	7	5	103	1	0	1	0	1	0	0	0	0	868	1493	52	0	599	0	ARHGAP18	6	129921947	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	410520	129921947	41193120	692	62641											
KIAA1244	57221	broad.mit.edu	37	chr6	138619829	138619829	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtcctcactgactggaaTgagccacctcattttcactt	10	12	7	12	0	3	2	3	2	0	0	4	4	4	3	3	1	1	0	3	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:138619829T>C	uc003qhu.2	+	22	3735	c.3735T>C	c.(3733-3735)AAT>AAC	p.N1245N		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1245					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CTGACTGGAATGAGCCACCTC	0.478													12	23					0	0	1	0	0		C	138619829	C	C	138619829	2	2	103	1	0	0	0	0	0	0	0	1	8233	1461	51	3		3	KIAA1244	6	138619829	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	8697882	138619829	32495238	693	62642											
HIVEP2	3097	broad.mit.edu	37	chr6	143094745	143094745	+	Frame_Shift_Del	DEL	T	-	-																															gatggctcagaatcttgtccTtttttctctgacagtcttag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:143094745delT	uc003qjd.2	-	5	1874	c.1131delA	c.(1129-1131)AAAfs	p.K377fs		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	377					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		AATCTTGTCCTTTTTTCTCTG	0.433													75	102	---	---	---	---						.	-	143094745	-	-	143094745	7	5	103	1	0	1	0	1	0	0	0	0	7203	1606	56	0	6233	0	HIVEP2	6	143094745	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	4474916	143094745	28020322	694	62643											
LATS1	9113	broad.mit.edu	37	chr6	150004891	150004891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatttcatgcccactgctcGgggatgactgggctggagca	7	9	15	10	1	1	1	1	1	0	0	2	4	1	4	1	5	3	3	1	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:150004891G>A	uc003qmu.1	-	4	1882	c.1334C>T	c.(1333-1335)CCG>CTG	p.P445L	LATS1_uc010kif.1_Missense_Mutation_p.P340L|LATS1_uc003qmv.1_Missense_Mutation_p.P445L|LATS1_uc003qmw.2_Missense_Mutation_p.P445L|LATS1_uc010kig.1_Missense_Mutation_p.P340L	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	445					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		CCCACTGCTCGGGGATGACTG	0.423													97	168					0	0	1	0	0		A	150004891	A	A	150004891	3	1	103	1	0	0	0	0	1	0	0	0	8662	1116	39	1	2078	1	LATS1	6	150004891	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6910146	150004891	21110176	695	62644											
PLEKHG1	57480	broad.mit.edu	37	chr6	151161247	151161247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtactcccaggcaattgtccGcagcttgctctgtgccttct	5	13	9	14	1	2	0	0	0	2	0	4	0	4	0	3	1	4	5	3	1	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:151161247G>A	uc003qny.1	+	17	3685	c.3373G>A	c.(3373-3375)GCA>ACA	p.A1125T	PLEKHG1_uc011eem.1_Missense_Mutation_p.A1184T	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	1125					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		GCAATTGTCCGCAGCTTGCTC	0.498													42	58					0	0	1	0	0		A	151161247	A	A	151161247	3	1	103	1	0	0	0	0	1	0	0	0	12087	1087	38	1	3431	1	PLEKHG1	6	151161247	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1156356	151161247	19953820	696	62645											
MTHFD1L	25902	broad.mit.edu	37	chr6	151355726	151355726	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaagccaaaatagatcgttAcactcaacaggtaaaagttc	18	8	6	9	1	1	1	1	0	0	1	3	1	1	1	1	1	3	3	1	1	8	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:151355726A>G	uc003qob.2	+	25	2952	c.2684A>G	c.(2683-2685)TAC>TGC	p.Y895C	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Missense_Mutation_p.Y896C|MTHFD1L_uc003qoc.2_Missense_Mutation_p.Y843C	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	895	Formyltetrahydrofolate synthetase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		ATAGATCGTTACACTCAACAG	0.418													15	26					0	0	1	0	0		G	151355726	G	G	151355726	3	3	103	1	0	0	0	0	1	0	0	0	9946	391	14	3	2782	3	MTHFD1L	6	151355726	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	194479	151355726	19759341	697	62646											
RMND1	55005	broad.mit.edu	37	chr6	151766824	151766824	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacgtattgtcagtgtgctGcatgttgtattttcaaattc	8	18	9	6	1	2	1	2	1	0	0	3	1	2	1	0	0	2	5	0	0	3	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:151766824G>A	uc003qoi.2	-	2	303	c.123C>T	c.(121-123)TGC>TGT	p.C41C	RMND1_uc011eeq.1_5'Flank|RMND1_uc003qoj.2_Silent_p.C41C|RMND1_uc011eer.1_Silent_p.C41C	NM_017909	NP_060379	Q9NWS8	RMND1_HUMAN	required for meiotic nuclear division 1 homolog	41											0		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.146)	OV - Ovarian serous cystadenocarcinoma(155;6.8e-11)		TCAGTGTGCTGCATGTTGTAT	0.378													33	54					0	0	1	0	0		A	151766824	A	A	151766824	2	1	103	1	0	0	0	0	0	0	0	1	13421	1311	46	2		2	RMND1	6	151766824	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	411098	151766824	19348243	698	62647											
SYNE1	23345	broad.mit.edu	37	chr6	152776589	152776590	+	Frame_Shift_Ins	INS	-	C	C																															ccgcaggagctcctctggatINScccccttttcctccaggccc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:152776589_152776590insC	uc010kiw.2	-	24	3465_3466	c.2863_2864insG	c.(2863-2865)GATfs	p.D955fs	SYNE1_uc003qot.3_Frame_Shift_Ins_p.D962fs|SYNE1_uc003qou.3_Frame_Shift_Ins_p.D955fs|SYNE1_uc010kjb.1_Frame_Shift_Ins_p.D938fs|SYNE1_uc003qow.2_Frame_Shift_Ins_p.D250fs|SYNE1_uc003qox.1_Frame_Shift_Ins_p.D471fs|SYNE1_uc003qoz.2_Frame_Shift_Ins_p.D387fs|SYNE1_uc003qoy.2_Frame_Shift_Ins_p.D522fs	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	955	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTCCTCTGGATCCCCCTTTTCC	0.51										HNSCC(10;0.0054)			31	52	---	---	---	---						.	C	152776590	C	C	152776589	7	5	103	1	0	1	1	0	0	0	0	0	15470	1435	50	0	24094	0	SYNE1	6	152776589	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	1009765	152776589	18338478	699	62648											
ARID1B	57492	broad.mit.edu	37	chr6	157527817	157527817	+	Frame_Shift_Del	DEL	C	-	-																															ctcctcgcaggcgcccacctCcccccttaagctccgcaggt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:157527817delC	uc003qqn.2	+	20	5640	c.5488delC	c.(5488-5490)CCCfs	p.P1830fs	ARID1B_uc003qqo.2_Frame_Shift_Del_p.P1790fs|ARID1B_uc003qqp.2_Frame_Shift_Del_p.P1777fs	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1835	Poly-Pro.				chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		GCGCCCACCTCCCCCCTTAAG	0.552													39	60	---	---	---	---						.	-	157527817	-	-	157527817	7	5	103	1	0	1	0	1	0	0	0	0	914	855	30	0	5620	0	ARID1B	6	157527817	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	4751228	157527817	13587250	700	62649											
ARID1B	57492	broad.mit.edu	37	chr6	157528929	157528929	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcggaattccttttgcaCgagggccggttgctggatat	6	12	13	10	4	0	0	0	0	0	0	2	3	1	2	2	4	2	4	2	4	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:157528929C>T	uc003qqn.2	+	20	6752	c.6600C>T	c.(6598-6600)CAC>CAT	p.H2200H	ARID1B_uc003qqo.2_Silent_p.H2160H|ARID1B_uc003qqp.2_Silent_p.H2147H	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	2205					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TCCTTTTGCACGAGGGCCGGT	0.527													57	87					0	0	1	0	0		T	157528929	T	T	157528929	2	4	103	1	0	0	0	0	0	0	0	1	914	535	19	1		1	ARID1B	6	157528929	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1112	157528929	13586138	701	62650											
TULP4	56995	broad.mit.edu	37	chr6	158924181	158924181	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagggccagcacctggaCgtgtcccgactgcccttcat	7	8	11	15	2	2	0	2	0	0	0	3	2	3	1	4	2	2	1	4	2	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:158924181C>T	uc003qrf.2	+	13	4843	c.3486C>T	c.(3484-3486)GAC>GAT	p.D1162D	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	1162					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		AGCACCTGGACGTGTCCCGAC	0.557													41	73					0	0	1	0	0		T	158924181	T	T	158924181	2	4	103	1	0	0	0	0	0	0	0	1	16802	535	19	1		1	TULP4	6	158924181	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1395252	158924181	12190886	702	62651											
RSPH3	83861	broad.mit.edu	37	chr6	159401904	159401904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgtgcaaatgctcgggcgGcgattttttgtgatgtctcg	5	14	14	8	4	1	1	0	1	1	0	3	2	1	1	0	2	2	3	0	2	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:159401904G>A	uc003qrx.2	-	6	1377	c.1187C>T	c.(1186-1188)GCC>GTC	p.A396V	RSPH3_uc010kju.2_Missense_Mutation_p.A300V	NM_031924	NP_114130	Q86UC2	RSPH3_HUMAN	radial spoke 3 homolog	396										ovary(1)|skin(1)	2		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.36e-16)|BRCA - Breast invasive adenocarcinoma(81;5.92e-06)		TGCTCGGGCGGCGATTTTTTG	0.483													24	41					0	0	1	0	0		A	159401904	A	A	159401904	3	1	103	1	0	0	0	0	1	0	0	0	13730	1203	42	2	507	2	RSPH3	6	159401904	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	477723	159401904	11713163	703	62652											
IGF2R	3482	broad.mit.edu	37	chr6	160461692	160461694	+	In_Frame_Del	DEL	CCT	-	-																															tgtgttaaggagaaggaagaCctcctctgcggtgccaccga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:160461692_160461694delCCT	uc003qta.2	+	11	1564_1566	c.1416_1418delCCT	c.(1414-1419)GACCTC>GAC	p.L474del		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	474	Lumenal (Potential).|3.				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		AGAAGGAAGACCTCCTCTGCGGT	0.567													57	107	---	---	---	---						.	-	160461694	-	-	160461692	7	5	103	1	0	1	0	1	0	0	0	0	7592	506	18	0	1458	0	IGF2R	6	160461692	In_Frame_Del	DEL	CCT	TCGA-BR-A4QL-01A-31D-A25D-08	1059788	160461692	10653375	704	62653											
SLC22A3	6581	broad.mit.edu	37	chr6	160864677	160864677	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacagaaatttcggagtttcGctctgttcaggtctgtgtga	9	14	11	7	2	3	2	1	1	2	1	5	3	3	3	0	2	1	3	0	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:160864677G>A	uc003qti.2	+	9	1440	c.1413G>A	c.(1411-1413)TCG>TCA	p.S471S	SLC22A3_uc011efx.1_RNA	NM_021977	NP_068812	O75751	S22A3_HUMAN	solute carrier family 22 member 3	471	Helical; (Potential).					integral to plasma membrane|membrane fraction	protein binding|quaternary ammonium group transmembrane transporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(66;0.00028)|Ovarian(120;0.0308)|Prostate(117;0.218)		OV - Ovarian serous cystadenocarcinoma(65;9.47e-17)|BRCA - Breast invasive adenocarcinoma(81;9.75e-06)		TCGGAGTTTCGCTCTGTTCAG	0.378													16	29					0	0	1	0	0		A	160864677	A	A	160864677	2	1	103	1	0	0	0	0	0	0	0	1	14480	1074	38	1		1	SLC22A3	6	160864677	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	402985	160864677	10250390	705	62654											
UNC93A	54346	broad.mit.edu	37	chr6	167717522	167717522	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctggtccactttactgtcGactttcaagctatatagaga	10	15	7	9	1	2	1	1	0	1	1	4	3	3	1	1	1	2	1	1	1	5	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:167717522G>A	uc003qvq.2	+	5	916	c.741G>A	c.(739-741)TCG>TCA	p.S247S	UNC93A_uc003qvr.2_Silent_p.S205S	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	247						integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		ctttactgtcgactttcaagc	0.294													28	51					0	0	1	0	0		A	167717522	A	A	167717522	2	1	103	1	0	0	0	0	0	0	0	1	17022	1045	37	1		1	UNC93A	6	167717522	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6852845	167717522	3397545	706	62655											
TTLL2	83887	broad.mit.edu	37	chr6	167754366	167754367	+	Frame_Shift_Ins	INS	-	T	T																															gtaaatggacgctcagcagaINStttttttcctaccttcgtag																								rs150247166		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr6:167754366_167754367insT	uc003qvs.1	+	3	1066_1067	c.978_979insT	c.(976-981)AGATTTfs	p.R326fs	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	326_327	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CGCTCAGCAGATTTTTTTCCTA	0.446													74	131	---	---	---	---						.	T	167754367	T	T	167754366	7	5	103	1	0	1	1	0	0	0	0	0	16753	330	12	0	988	0	TTLL2	6	167754366	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	36844	167754366	3360701	707	62656											
C7orf50	84310	broad.mit.edu	37	chr7	1037311	1037311	+	Frame_Shift_Del	DEL	G	-	-																															gcgctgggccctccccggcaGggggggatcagagccctcct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:1037311delG	uc003sju.2	-	5	605	c.535delC	c.(535-537)CTGfs	p.L179fs	C7orf50_uc003sjs.2_RNA|C7orf50_uc011jvt.1_Frame_Shift_Del_p.L179fs|C7orf50_uc011jvu.1_Frame_Shift_Del_p.L179fs	NM_032350	NP_115726	Q9BRJ6	CG050_HUMAN	hypothetical protein LOC84310	179							protein binding				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0216)|OV - Ovarian serous cystadenocarcinoma(56;1.3e-15)		CTCCCCGGCAGGGGGGGATCA	0.721													21	26	---	---	---	---						.	-	1037311	-	-	1037311	7	5	103	1	0	1	0	1	0	0	0	0	2402	991	35	0	53	0	C7orf50	7	1037311	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08		1037311	158101352	708	62657											
C7orf50	84310	broad.mit.edu	37	chr7	1049627	1049627	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttcggcccccgagcgcctGgcaggcgggtgctgggccac	4	5	17	15	4	0	0	0	0	0	0	1	1	0	0	4	5	2	3	4	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:1049627G>A	uc003sju.2	-	3	352	c.282C>T	c.(280-282)GCC>GCT	p.A94A	C7orf50_uc003sjs.2_RNA|C7orf50_uc011jvt.1_Silent_p.A94A|C7orf50_uc011jvu.1_Silent_p.A94A	NM_032350	NP_115726	Q9BRJ6	CG050_HUMAN	hypothetical protein LOC84310	94							protein binding				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0216)|OV - Ovarian serous cystadenocarcinoma(56;1.3e-15)		CCGAGCGCCTGGCAGGCGGGT	0.667													5	5					0	0	1	0	0		A	1049627	A	A	1049627	2	1	103	1	0	0	0	0	0	0	0	1	2402	1335	47	4		4	C7orf50	7	1049627	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	12316	1049627	158089036	709	62658											
SDK1	221935	broad.mit.edu	37	chr7	4050642	4050642	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacgttggccctgagatgAcaggcgtcaccgtgagtggc	9	7	14	11	3	1	3	1	3	0	1	1	4	1	3	2	3	1	1	2	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:4050642A>G	uc003smx.2	+	15	2315	c.2176A>G	c.(2176-2178)ACA>GCA	p.T726A	SDK1_uc010kso.2_Missense_Mutation_p.T2A	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	726	Fibronectin type-III 1.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CCCTGAGATGACAGGCGTCAC	0.527													12	20					0	0	1	0	0		G	4050642	G	G	4050642	3	3	103	1	0	0	0	0	1	0	0	0	13993	275	10	3	2234	3	SDK1	7	4050642	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	3001015	4050642	155088021	710	62659											
SDK1	221935	broad.mit.edu	37	chr7	4247845	4247845	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccataccaagtacctggtcAgcatatcagccttcaacgcc	11	8	7	15	1	3	0	3	0	0	0	3	0	3	0	5	1	5	2	5	1	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:4247845A>C	uc003smx.2	+	37	5468	c.5329A>C	c.(5329-5331)AGC>CGC	p.S1777R	SDK1_uc010kso.2_Missense_Mutation_p.S1033R|SDK1_uc003smy.2_Missense_Mutation_p.S264R	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1777	Fibronectin type-III 11.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GTACCTGGTCAGCATATCAGC	0.607													21	21					0	0	1	0	0		C	4247845	C	C	4247845	3	2	103	1	0	0	0	0	1	0	0	0	13993	188	7	5	5475	5	SDK1	7	4247845	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	197203	4247845	154890818	711	62660											
TNRC18	84629	broad.mit.edu	37	chr7	5372608	5372608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccagccccttcttgggcCgcagcagccccgcaggcgac	5	4	11	21	3	1	0	0	0	1	0	1	1	1	0	7	2	3	3	7	2	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:5372608C>T	uc003soi.3	-	19	6141	c.5792G>A	c.(5791-5793)CGG>CAG	p.R1931Q		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1931							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CTTCTTGGGCCGCAGCAGCCC	0.721													4	2					0	0	1	0	0		T	5372608	T	T	5372608	3	4	103	1	0	0	0	0	1	0	0	0	16364	652	23	1	3162	1	TNRC18	7	5372608	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1124763	5372608	153766055	712	62661											
RNF216	54476	broad.mit.edu	37	chr7	5781254	5781254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagatccagaaattcacCgtagtcatcctcagaatcat	14	9	5	13	1	4	3	4	0	0	3	6	3	6	3	4	0	0	1	4	0	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:5781254C>T	uc003soy.1	-	4	413	c.223G>A	c.(223-225)GGT>AGT	p.G75S	RNF216_uc010ksz.1_5'UTR|RNF216_uc010kta.1_Intron|RNF216_uc011jwj.1_Intron|RNF216_uc003sox.1_Missense_Mutation_p.G132S	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	75					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		AGAAATTCACCGTAGTCATCC	0.458													48	89					0	0	1	0	0		T	5781254	T	T	5781254	3	4	103	1	0	0	0	0	1	0	0	0	13505	652	23	1	2433	1	RNF216	7	5781254	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	408646	5781254	153357409	713	62662											
DAGLB	221955	broad.mit.edu	37	chr7	6449620	6449620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattttgctgaattccgcttCgtgtgaccacttggcgctat	6	16	9	10	3	0	2	0	2	0	0	2	2	1	2	2	1	1	3	2	1	3	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:6449620C>T	uc003sqa.2	-	15	2037	c.1867G>A	c.(1867-1869)GAA>AAA	p.E623K	DAGLB_uc003spy.2_Missense_Mutation_p.E169K|DAGLB_uc003spz.2_Missense_Mutation_p.E320K|DAGLB_uc011jwt.1_Missense_Mutation_p.E437K|DAGLB_uc011jwu.1_Missense_Mutation_p.E494K|DAGLB_uc003sqb.2_Missense_Mutation_p.E342K|DAGLB_uc003sqc.2_Missense_Mutation_p.E342K|DAGLB_uc011jwv.1_RNA|DAGLB_uc003sqd.3_Missense_Mutation_p.E582K	NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1	623	Cytoplasmic (Potential).				lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		AATTCCGCTTCGTGTGACCAC	0.592													38	52					0	0	1	0	0		T	6449620	T	T	6449620	3	4	103	1	0	0	0	0	1	0	0	0	4230	893	31	1	155	1	DAGLB	7	6449620	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	668366	6449620	152689043	714	62663											
DAGLB	221955	broad.mit.edu	37	chr7	6456287	6456287	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccggggtggggagaaggcGtagcacctgacctgcgggta	7	5	18	11	3	0	2	0	1	0	1	0	3	0	2	4	6	2	3	4	6	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:6456287G>A	uc003sqa.2	-	11	1568	c.1398C>T	c.(1396-1398)TAC>TAT	p.Y466Y	DAGLB_uc003spy.2_Silent_p.Y12Y|DAGLB_uc003spz.2_Silent_p.Y163Y|DAGLB_uc011jwt.1_Silent_p.Y280Y|DAGLB_uc011jwu.1_Silent_p.Y337Y|DAGLB_uc003sqb.2_Silent_p.Y185Y|DAGLB_uc003sqc.2_Silent_p.Y185Y|DAGLB_uc011jwv.1_Intron|DAGLB_uc003sqd.3_Silent_p.Y425Y|DAGLB_uc011jww.1_RNA	NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1	466	Cytoplasmic (Potential).				lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		GGGAGAAGGCGTAGCACCTGA	0.607													48	74					0	0	1	0	0		A	6456287	A	A	6456287	2	1	103	1	0	0	0	0	0	0	0	1	4230	1140	40	1		1	DAGLB	7	6456287	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6667	6456287	152682376	715	62664											
HDAC9	9734	broad.mit.edu	37	chr7	18688172	18688172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtacccacaaattgcccCgtcacagacccctgaaccga	12	5	8	16	2	1	2	1	1	0	1	1	4	1	2	6	1	3	1	6	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:18688172C>T	uc003suh.2	+	10	1365	c.1324C>T	c.(1324-1326)CGT>TGT	p.R442C	HDAC9_uc003sue.2_Missense_Mutation_p.R442C|HDAC9_uc011jyd.1_Missense_Mutation_p.R442C|HDAC9_uc003sui.2_Missense_Mutation_p.R445C|HDAC9_uc003suj.2_Missense_Mutation_p.R401C|HDAC9_uc011jya.1_Missense_Mutation_p.R439C|HDAC9_uc003sua.1_Missense_Mutation_p.R420C|HDAC9_uc011jyb.1_Missense_Mutation_p.R398C|HDAC9_uc003sud.1_Missense_Mutation_p.R442C|HDAC9_uc011jyc.1_Missense_Mutation_p.R401C|HDAC9_uc003suf.1_Missense_Mutation_p.R473C|HDAC9_uc010kud.1_Missense_Mutation_p.R445C|HDAC9_uc011jye.1_Missense_Mutation_p.R414C|HDAC9_uc011jyf.1_Missense_Mutation_p.R365C|HDAC9_uc010kue.1_Missense_Mutation_p.R185C	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	442					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CAAATTGCCCCGTCACAGACC	0.488													28	49					0	0	1	0	0		T	18688172	T	T	18688172	3	4	103	1	0	0	0	0	1	0	0	0	7030	652	23	1	1371	1	HDAC9	7	18688172	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	12231885	18688172	140450491	716	62665											
MACC1	346389	broad.mit.edu	37	chr7	20197933	20197933	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgattctttgtctgcttgaAtttgatcaaaatcttccagg	9	17	7	8	0	4	3	1	3	3	0	5	3	5	3	1	1	1	1	1	1	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:20197933A>T	uc003sus.3	-	5	2360	c.2051T>A	c.(2050-2052)ATT>AAT	p.I684N	MACC1_uc010kug.2_Missense_Mutation_p.I684N	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	684					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						GTCTGCTTGAATTTGATCAAA	0.348													14	40					0	0	1	0	0		T	20197933	T	T	20197933	3	4	103	1	0	0	0	0	1	0	0	0	9161	101	4	5	519	5	MACC1	7	20197933	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1509761	20197933	138940730	717	62666											
SP4	6671	broad.mit.edu	37	chr7	21469089	21469089	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caacttgctggaaacgcttgGcaacttgttgcctccactcc	8	11	8	14	1	0	0	0	0	0	0	2	1	2	1	3	2	5	4	3	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:21469089G>A	uc003sva.2	+	3	487	c.306G>A	c.(304-306)TGG>TGA	p.W102*	SP4_uc003svb.2_5'UTR	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	102					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						GAAACGCTTGGCAACTTGTTG	0.428													24	39					0	0	1	0	0		A	21469089	A	A	21469089	4	1	103	1	0	0	0	0	0	1	0	0	14991	1212	42	2	316	2	SP4	7	21469089	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1271156	21469089	137669574	718	62667											
GPNMB	10457	broad.mit.edu	37	chr7	23300296	23300296	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacgtatgtgctcaatggaAccttcagccttaacctcact	11	11	6	13	1	3	0	3	0	0	0	3	1	3	1	3	1	4	2	3	1	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:23300296A>G	uc003swc.2	+	6	1083	c.922A>G	c.(922-924)ACC>GCC	p.T308A	GPNMB_uc003swb.2_Missense_Mutation_p.T308A|GPNMB_uc011jyy.1_Missense_Mutation_p.T250A|GPNMB_uc011jyz.1_Missense_Mutation_p.T209A	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	308	PKD.|Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			GCTCAATGGAACCTTCAGCCT	0.483													56	111					0	0	1	0	0		G	23300296	G	G	23300296	3	3	103	1	0	0	0	0	1	0	0	0	6635	43	2	3	944	3	GPNMB	7	23300296	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1831207	23300296	135838367	719	62668											
HOXA2	3199	broad.mit.edu	37	chr7	27140390	27140390	+	Frame_Shift_Del	DEL	A	-	-																															attgtggtgagtgtgtctgtAaaaaagtctaagctgtcagc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:27140390delA	uc003syh.2	-	2	1361	c.1086delT	c.(1084-1086)TTTfs	p.F362fs		NM_006735	NP_006726	O43364	HXA2_HUMAN	homeobox A2	362						nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GTGTGTCTGTAAAAAAGTCTA	0.438													60	102	---	---	---	---						.	-	27140390	-	-	27140390	7	5	103	1	0	1	0	1	0	0	0	0	7308	359	13	0	48	0	HOXA2	7	27140390	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	3840094	27140390	131998273	720	62669											
GHRHR	2692	broad.mit.edu	37	chr7	31013640	31013640	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccgcctcccatttcgccaCcatgaccaacttcagctggc	7	8	8	18	2	1	1	1	1	0	0	3	1	2	1	6	2	2	1	6	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:31013640C>T	uc003tbx.2	+	7	686	c.638C>T	c.(637-639)ACC>ATC	p.T213I	GHRHR_uc003tbw.1_Missense_Mutation_p.T213I|GHRHR_uc003tby.2_Missense_Mutation_p.T149I|GHRHR_uc003tbz.2_Intron	NM_000823	NP_000814	Q02643	GHRHR_HUMAN	growth hormone releasing hormone receptor	213	Helical; Name=3; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to estrogen stimulus|response to glucocorticoid stimulus	cell surface|integral to membrane|nuclear inner membrane|nuclear matrix|nuclear outer membrane|plasma membrane|stored secretory granule	growth factor binding|growth hormone-releasing hormone receptor activity|peptide hormone binding			ovary(2)|lung(1)|breast(1)|large_intestine(1)	5					Sermorelin(DB00010)	CATTTCGCCACCATGACCAAC	0.622													54	66					0	0	1	0	0		T	31013640	T	T	31013640	3	4	103	1	0	0	0	0	1	0	0	0	6388	507	18	4	664	4	GHRHR	7	31013640	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3873250	31013640	128125023	721	62670											
ADCYAP1R1	117	broad.mit.edu	37	chr7	31104447	31104448	+	Frame_Shift_Ins	INS	-	C	C																															atcctgtgttctcctacaggINScccctgccatgcattctgac																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:31104447_31104448insC	uc003tca.1	+	3	275_276	c.52_53insC	c.(52-54)GCCfs	p.A18fs	ADCYAP1R1_uc003tcb.1_Frame_Shift_Ins_p.A18fs|ADCYAP1R1_uc003tcc.1_Frame_Shift_Ins_p.A18fs|ADCYAP1R1_uc003tcd.1_Frame_Shift_Ins_p.A18fs|ADCYAP1R1_uc003tce.1_Frame_Shift_Ins_p.A18fs	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	18					activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						TCTCCTACAGGCCCCTGCCATG	0.569													9	15	---	---	---	---						.	C	31104448	C	C	31104447	7	5	103	1	0	1	1	0	0	0	0	0	303	1217	42	0	58	0	ADCYAP1R1	7	31104447	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	90807	31104447	128034216	722	62671											
GLI3	2737	broad.mit.edu	37	chr7	42005852	42005852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggcaggggcgtcggcggcGgccctcctgtggcagccgcg	2	5	20	14	6	0	0	0	0	0	0	2	0	1	0	3	7	1	2	3	7	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:42005852G>A	uc011kbh.1	-	15	2910	c.2819C>T	c.(2818-2820)CCG>CTG	p.P940L	GLI3_uc011kbg.1_Missense_Mutation_p.P881L	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	940					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.P940T(1)		lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CGTCGGCGGCGGCCCTCCTGT	0.711									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				13	23					0	0	1	0	0		A	42005852	A	A	42005852	3	1	103	1	0	0	0	0	1	0	0	0	6454	1116	39	1	1927	1	GLI3	7	42005852	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	10901405	42005852	117132811	723	62672											
HECW1	23072	broad.mit.edu	37	chr7	43503275	43503275	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaggtatcaaaacattcagCgaaccattgcaacagagagg	18	6	9	8	1	2	1	2	0	0	1	2	3	2	1	1	2	5	2	1	2	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:43503275C>T	uc003tid.1	+	14	3273	c.2668C>T	c.(2668-2670)CGA>TGA	p.R890*	HECW1_uc011kbi.1_Nonsense_Mutation_p.R856*	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	890	Potential.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						AAACATTCAGCGAACCATTGC	0.488													24	53					0	0	1	0	0		T	43503275	T	T	43503275	4	4	103	1	0	0	0	0	0	1	0	0	7058	760	27	1	2714	1	HECW1	7	43503275	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1497423	43503275	115635388	724	62673											
URGCP	55665	broad.mit.edu	37	chr7	43916923	43916923	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggcaaaccgcagcccAaacatggtgttgaggagtgt	10	8	13	10	1	0	1	0	1	0	0	0	2	0	2	3	3	3	3	3	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:43916923A>G	uc003tiw.2	-	6	2196	c.2139T>C	c.(2137-2139)TTT>TTC	p.F713F	URGCP_uc003tiu.2_Silent_p.F670F|URGCP_uc003tiv.2_Silent_p.F638F|URGCP_uc003tix.2_Silent_p.F704F|URGCP_uc003tiy.2_Silent_p.F670F|URGCP_uc003tiz.2_Silent_p.F670F|URGCP_uc011kbj.1_Silent_p.F670F	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	713					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						ACCGCAGCCCAAACATGGTGT	0.627													22	39					0	0	1	0	0		G	43916923	G	G	43916923	2	3	103	1	0	0	0	0	0	0	0	1	17052	127	5	3		3	URGCP	7	43916923	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	413648	43916923	115221740	725	62674											
PGAM2	5224	broad.mit.edu	37	chr7	44105054	44105054	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcactcagctctgcatcgaaCcagccacagaaacggttctc	11	8	7	15	2	4	1	2	0	2	1	6	2	4	1	2	1	5	3	2	1	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:44105054C>T	uc003tjs.2	-	1	110	c.75G>A	c.(73-75)TGG>TGA	p.W25*		NM_000290	NP_000281	P15259	PGAM2_HUMAN	phosphoglycerate mutase 2	25					gluconeogenesis|glycolysis|striated muscle contraction	cytosol	2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity				0						CTGCATCGAACCAGCCACAGA	0.597													33	42					0	0	1	0	0		T	44105054	T	T	44105054	4	4	103	1	0	0	0	0	0	1	0	0	11793	508	18	4	698	4	PGAM2	7	44105054	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	188131	44105054	115033609	726	62675											
GCK	2645	broad.mit.edu	37	chr7	44186118	44186118	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgtgtgcgcagctgctcGgaggcctccccgtggaagag	5	6	16	14	5	0	1	0	0	0	1	2	3	1	3	4	3	3	3	4	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:44186118G>A	uc003tkl.2	-	8	1433	c.963C>T	c.(961-963)TCC>TCT	p.S321S	GCK_uc003tkh.1_5'Flank|GCK_uc003tki.1_5'Flank|GCK_uc003tkj.1_Silent_p.S320S|GCK_uc003tkk.1_Silent_p.S322S	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	321					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						GCAGCTGCTCGGAGGCCTCCC	0.647													30	30					0	0	1	0	0		A	44186118	A	A	44186118	2	1	103	1	0	0	0	0	0	0	0	1	6308	1103	39	1		1	GCK	7	44186118	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	81064	44186118	114952545	727	62676											
GCK	2645	broad.mit.edu	37	chr7	44193002	44193002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccatctccttctgcatccGtctcatcaccttcttcaggt	5	15	5	16	1	6	0	3	0	4	0	10	0	8	0	4	1	1	1	4	1	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:44193002G>A	uc003tkl.2	-	2	576	c.106C>T	c.(106-108)CGG>TGG	p.R36W	GCK_uc003tkj.1_Missense_Mutation_p.R35W|GCK_uc003tkk.1_Missense_Mutation_p.R37W	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	36			R -> W (in MODY2).		cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						TTCTGCATCCGTCTCATCACC	0.627													77	128					0	0	1	0	0		A	44193002	A	A	44193002	3	1	103	1	0	0	0	0	1	0	0	0	6308	1144	40	1	1327	1	GCK	7	44193002	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6884	44193002	114945661	728	62677											
NPC1L1	29881	broad.mit.edu	37	chr7	44578499	44578499	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggctgtgagcagcaggagCgtgcggttgttctggaaata	8	11	16	6	2	1	1	0	1	1	0	1	3	1	3	0	4	4	5	0	4	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:44578499C>T	uc003tlb.2	-	2	1553	c.1497G>A	c.(1495-1497)ACG>ACA	p.T499T	NPC1L1_uc003tlc.2_Silent_p.T499T|NPC1L1_uc011kbw.1_Silent_p.T499T|NPC1L1_uc003tld.2_Silent_p.T499T	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	499	Extracellular (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	GCAGCAGGAGCGTGCGGTTGT	0.567													33	47					0	0	1	0	0		T	44578499	T	T	44578499	2	4	103	1	0	0	0	0	0	0	0	1	10590	755	27	1		1	NPC1L1	7	44578499	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	385497	44578499	114560164	729	62678											
MYO1G	64005	broad.mit.edu	37	chr7	45010276	45010276	+	Frame_Shift_Del	DEL	G	-	-																															acgccgaggatcccggccccGgggttccatgacactgttga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:45010276delG	uc003tmh.2	-	9	1276	c.1132delC	c.(1132-1134)CGGfs	p.R378fs	MYO1G_uc003tmf.2_5'Flank|MYO1G_uc003tmg.2_Frame_Shift_Del_p.R140fs|MYO1G_uc010kym.2_Frame_Shift_Del_p.R263fs|MYO1G_uc003tmi.1_Frame_Shift_Del_p.R290fs|MYO1G_uc003tmj.2_Frame_Shift_Del_p.R140fs	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	378	Myosin head-like.					myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						TCCCGGCCCCGGGGTTCCATG	0.607													51	79	---	---	---	---						.	-	45010276	-	-	45010276	7	5	103	1	0	1	0	1	0	0	0	0	10092	1115	39	0	1980	0	MYO1G	7	45010276	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	431777	45010276	114128387	730	62679											
IGFBP1	3484	broad.mit.edu	37	chr7	45928424	45928424	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacccggtccgccggctgcgGctgttgcccgatgtgcgccc	2	7	14	18	6	0	0	0	0	0	0	1	1	1	0	5	3	3	3	5	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:45928424G>T	uc003tnp.2	+	1	466	c.173G>T	c.(172-174)GGC>GTC	p.G58V	IGFBP1_uc003tno.3_Missense_Mutation_p.G58V|IGFBP1_uc010kyn.2_Missense_Mutation_p.G58V	NM_000596	NP_000587	P08833	IBP1_HUMAN	insulin-like growth factor binding protein 1	58	IGFBP N-terminal.					extracellular space	insulin-like growth factor binding			lung(1)	1						GCCGGCTGCGGCTGTTGCCCG	0.776													3	4					0.004672	0.00471796	1	1	0		T	45928424	T	T	45928424	3	4	103	1	0	0	0	0	1	0	0	0	7594	1203	42	5	175	5	IGFBP1	7	45928424	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	918148	45928424	113210239	731	62680											
EGFR	1956	broad.mit.edu	37	chr7	55238900	55238900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtcttgaaggctgtccaaCgaatgggtaagtgttcacag	11	10	13	7	1	2	1	1	1	1	0	3	2	3	1	1	3	1	3	1	3	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:55238900C>T	uc003tqk.2	+	16	2159	c.1913C>T	c.(1912-1914)ACG>ATG	p.T638M	EGFR_uc010kzg.1_Missense_Mutation_p.T593M|EGFR_uc011kco.1_Missense_Mutation_p.T585M|EGFR_uc011kcp.1_RNA|EGFR_uc011kcq.1_RNA	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	638	Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	GGCTGTCCAACGAATGGGTAA	0.438		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			15	36					0	0	1	0	0		T	55238900	T	T	55238900	3	4	103	1	0	0	0	0	1	0	0	0	4973	536	19	1	2239	1	EGFR	7	55238900	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	9310476	55238900	103899763	732	62681											
ZNF716	441234	broad.mit.edu	37	chr7	57522222	57522222	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctctggcggaatggcaatgCctggatcatgctcagcagaa	10	9	12	10	1	3	1	2	0	1	1	4	3	3	3	1	4	3	3	1	4	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:57522222C>A	uc011kdi.1	+	2	208	c.96C>A	c.(94-96)TGC>TGA	p.C32*		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						AATGGCAATGCCTGGATCATG	0.373													17	30					2.48551e-13	2.61948e-13	1	1	0		A	57522222	A	A	57522222	4	1	103	1	0	0	0	0	0	1	0	0	18144	747	26	5	102	5	ZNF716	7	57522222	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2283322	57522222	101616441	733	62682											
WBSCR17	64409	broad.mit.edu	37	chr7	70597962	70597962	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcgcacagcgccagcccCatccaggatgcggtcctgaa	9	4	12	16	4	0	1	0	1	0	0	2	2	2	2	5	2	4	1	5	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:70597962C>A	uc003tvy.2	+	1	174	c.174C>A	c.(172-174)CCC>CCA	p.P58P		NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	58	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				GCGCCAGCCCCATCCAGGATG	0.711													16	19					1.52009e-12	1.59956e-12	1	1	0		A	70597962	A	A	70597962	2	1	103	1	0	0	0	0	0	0	0	1	17290	581	21	5		5	WBSCR17	7	70597962	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	13075740	70597962	88540701	734	62683											
TYW1B	441250	broad.mit.edu	37	chr7	72267523	72267523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcttcactggagctctcGaagggttcttcctcctggaa	6	14	9	12	1	5	0	1	0	4	0	8	3	7	2	2	3	1	2	2	3	2	4	rs138229913	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:72267523G>A	uc011kej.1	-	6	897	c.738C>T	c.(736-738)TTC>TTT	p.F246F	TYW1B_uc011keh.1_Silent_p.F84F|TYW1B_uc011kek.1_RNA	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform	246					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						TGGAGCTCTCGAAGGGTTCTT	0.448													4	50					0	0	1	0	0		A	72267523	A	A	72267523	2	1	103	1	0	0	0	0	0	0	0	1	16845	1049	37	1		1	TYW1B	7	72267523	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1669561	72267523	86871140	735	62684											
STX1A	6804	broad.mit.edu	37	chr7	73118587	73118587	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctggacagcgtggagtgCtgggggcccgagatggaggt	6	9	19	7	2	1	1	0	0	1	1	1	5	1	4	1	6	2	1	1	6	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:73118587C>T	uc003tyx.2	-	6	385	c.358_splice	c.e6-1	p.H120_splice	WBSCR22_uc003tyw.1_3'UTR|STX1A_uc003tyy.2_Splice_Site_p.H120_splice|STX1A_uc010lbj.1_Splice_Site_p.H120_splice	NM_004603	NP_004594	Q16623	STX1A_HUMAN	syntaxin 1A isoform 1						energy reserve metabolic process|glutamate secretion|intracellular protein transport|regulation of insulin secretion	cell junction|extracellular region|integral to membrane|neuron projection|synaptic vesicle membrane|synaptosome	SNAP receptor activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				GCGTGGAGTGCTGGGGGCCCG	0.657													17	23					0	0	1	0	0		T	73118587	T	T	73118587	5	4	103	1	0	0	0	0	0	0	1	0	15368	811	28	2	529	2	STX1A	7	73118587	Splice_Site	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	851064	73118587	86020076	736	62685											
CLDN3	1365	broad.mit.edu	37	chr7	73184217	73184217	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catctggccggtgctctgcaCcacgcagttcatccacaggc	7	8	10	16	2	3	0	1	0	2	0	4	0	4	0	3	3	2	4	3	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:73184217C>G	uc003tzg.3	-	1	384	c.163G>C	c.(163-165)GTG>CTG	p.V55L	RFC2_uc011kfa.1_Intron	NM_001306	NP_001297	O15551	CLD3_HUMAN	claudin 3	55	Extracellular (Potential).				response to hypoxia	integral to plasma membrane|tight junction	structural molecule activity|transmembrane receptor activity				0		Lung NSC(55;0.159)				GTGCTCTGCACCACGCAGTTC	0.642													23	38					0	0	1	0	0		G	73184217	G	G	73184217	3	3	103	1	0	0	0	0	1	0	0	0	3489	507	18	5	503	5	CLDN3	7	73184217	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	65630	73184217	85954446	737	62686											
ELN	2006	broad.mit.edu	37	chr7	73480300	73480300	+	Frame_Shift_Del	DEL	G	-	-																															ctggccttggaggtgtcctaGggggtgccgggcagttccca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:73480300delG	uc003tzw.2	+	31	2168	c.2077delG	c.(2077-2079)GGGfs	p.G693fs	RFC2_uc011kfa.1_Intron|ELN_uc003tzn.2_Frame_Shift_Del_p.G687fs|ELN_uc003tzz.2_Frame_Shift_Del_p.G606fs|ELN_uc003tzo.2_Intron|ELN_uc003tzp.2_Intron|ELN_uc003tzq.2_Intron|ELN_uc003tzr.2_Intron|ELN_uc003tzs.2_Frame_Shift_Del_p.G668fs|ELN_uc003tzt.2_Intron|ELN_uc003tzu.2_Intron|ELN_uc003tzv.2_Intron|ELN_uc003tzx.2_Frame_Shift_Del_p.G677fs|ELN_uc011kff.1_Intron|ELN_uc003tzy.2_Frame_Shift_Del_p.G663fs	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	749					blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	AGGTGTCCTAGGGGGTGCCGG	0.617			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						50	91	---	---	---	---						.	-	73480300	-	-	73480300	7	5	103	1	0	1	0	1	0	0	0	0	5079	1000	35	0	2196	0	ELN	7	73480300	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	296083	73480300	85658363	738	62687											
LIMK1	3984	broad.mit.edu	37	chr7	73535598	73535598	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctaccggcgcggcgagagCggactgcctgcccaccctga	7	4	13	17	5	0	2	0	1	0	1	0	4	0	3	5	3	4	0	5	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:73535598C>T	uc003uaa.1	+	16	2076	c.1911C>T	c.(1909-1911)AGC>AGT	p.S637S	RFC2_uc011kfa.1_Intron|LIMK1_uc010lbl.1_RNA|LIMK1_uc003uab.2_Silent_p.S603S	NM_002314	NP_002305	P53667	LIMK1_HUMAN	LIM domain kinase 1	637					actin cytoskeleton organization|axon guidance|negative regulation of ubiquitin-protein ligase activity|positive regulation of actin filament bundle assembly|positive regulation of axon extension|Rho protein signal transduction	cytosol|growth cone|nucleus	ATP binding|heat shock protein binding|protein serine/threonine kinase activity|zinc ion binding			stomach(2)|ovary(1)	3		Lung NSC(55;0.137)				GCGGCGAGAGCGGACTGCCTG	0.692													6	16					0	0	1	0	0		T	73535598	T	T	73535598	2	4	103	1	0	0	0	0	0	0	0	1	8817	767	27	1		1	LIMK1	7	73535598	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	55298	73535598	85603065	739	62688											
CLIP2	7461	broad.mit.edu	37	chr7	73753186	73753186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcattcgggcacggccaCgcccccgctgaccagccgcg	6	5	12	18	6	0	1	0	1	0	0	1	1	0	1	5	2	2	3	5	2	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:73753186C>T	uc003uam.2	+	3	857	c.530C>T	c.(529-531)ACG>ATG	p.T177M	CLIP2_uc003uan.2_Missense_Mutation_p.T177M	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	177						microtubule associated complex				skin(3)	3						GGCACGGCCACGCCCCCGCTG	0.672													20	30					0	0	1	0	0		T	73753186	T	T	73753186	3	4	103	1	0	0	0	0	1	0	0	0	3536	536	19	1	536	1	CLIP2	7	73753186	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	217588	73753186	85385477	740	62689											
POM121C	100101267	broad.mit.edu	37	chr7	75070845	75070845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acactgtgggaagtacccccGgacaggaatactgggtctga	11	7	13	10	1	1	1	0	1	1	0	1	4	1	4	2	4	2	1	2	4	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:75070845G>A	uc010lde.1	-	2	656	c.656C>T	c.(655-657)CCG>CTG	p.P219L	POM121C_uc003udk.3_5'UTR|POM121C_uc003udl.1_RNA			A8CG34	P121C_HUMAN	Homo sapiens POM121-2 mRNA for nuclear pore membrane protein 121-2, partial cds.	219	Required for targeting to the nucleus and nuclear pore complex.|Pore side (Potential).				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						AAGTACCCCCGGACAGGAATA	0.527													9	9					0	0	1	0	0		A	75070845	A	A	75070845	3	1	103	1	0	0	0	0	1	0	0	0	12259	1131	39	1		1	POM121C	7	75070845	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1317659	75070845	84067818	741	62690											
RHBDD2	57414	broad.mit.edu	37	chr7	75511493	75511493	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctcctgctgggtgcctcGtggctcattccccagacctc	3	11	11	16	1	1	1	1	0	0	1	5	1	3	1	5	3	2	3	5	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:75511493G>A	uc003udw.1	+	2	609	c.525G>A	c.(523-525)TCG>TCA	p.S175S	RHBDD2_uc003udv.1_Silent_p.S34S	NM_001040456	NP_001035546	Q6NTF9	RHBD2_HUMAN	rhomboid domain containing 2 isoform a	175	Helical; (Potential).					integral to membrane	serine-type endopeptidase activity				0						TGGGTGCCTCGTGGCTCATTC	0.597													5	49					0	0	1	0	0		A	75511493	A	A	75511493	2	1	103	1	0	0	0	0	0	0	0	1	13342	1132	40	1		1	RHBDD2	7	75511493	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	440648	75511493	83627170	742	62691											
SEMA3E	9723	broad.mit.edu	37	chr7	83029431	83029431	+	Frame_Shift_Del	DEL	T	-	-																															caggttatattttccatctgTttttaccaatattggttttt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:83029431delT	uc003uhy.1	-	11	1745	c.1279delA	c.(1279-1281)ACAfs	p.T427fs		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	427	Sema.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				TTTCCATCTGTTTTTACCAAT	0.413													49	88	---	---	---	---						.	-	83029431	-	-	83029431	7	5	103	1	0	1	0	1	0	0	0	0	14053	1725	60	0	1076	0	SEMA3E	7	83029431	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	7517938	83029431	76109232	743	62692											
GRM3	2913	broad.mit.edu	37	chr7	86469103	86469103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgtgtacgccttcaaaaCgcggaagtgcccagaaaatt	13	8	9	11	3	1	1	1	0	0	1	1	2	1	2	2	1	3	1	2	1	6	3	rs141671463		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:86469103C>T	uc003uid.2	+	4	3372	c.2273C>T	c.(2272-2274)ACG>ATG	p.T758M	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Missense_Mutation_p.T630M|GRM3_uc010leh.2_Missense_Mutation_p.T350M	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	758	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane		p.T758M(1)		lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GCCTTCAAAACGCGGAAGTGC	0.428													28	46					0	0	1	0	0		T	86469103	T	T	86469103	3	4	103	1	0	0	0	0	1	0	0	0	6814	536	19	1	2283	1	GRM3	7	86469103	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3439672	86469103	72669560	744	62693											
ABCB4	5244	broad.mit.edu	37	chr7	87092178	87092178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtgagctatggccatgatgGtacccagcgacataaacaat	13	8	10	10	2	0	2	0	2	0	0	0	3	0	2	2	2	4	2	2	2	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:87092178G>A	uc003uiv.1	-	4	258	c.182C>T	c.(181-183)ACC>ATC	p.T61I	ABCB4_uc003uiw.1_Missense_Mutation_p.T61I|ABCB4_uc003uix.1_Missense_Mutation_p.T61I|ABCB4_uc003uiy.2_Missense_Mutation_p.T61I	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	61	ABC transmembrane type-1 1.|Helical; (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					GGCCATGATGGTACCCAGCGA	0.398													27	35					0	0	1	0	0		A	87092178	A	A	87092178	3	1	103	1	0	0	0	0	1	0	0	0	43	1261	44	4	3778	4	ABCB4	7	87092178	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	623075	87092178	72046485	745	62694											
ABCB1	5243	broad.mit.edu	37	chr7	87150160	87150160	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgagtcaaagaaacaacGgttcggaagttttctattgc	12	12	9	8	2	2	2	1	1	1	1	4	3	3	3	1	2	3	2	1	2	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:87150160G>A	uc003uiz.1	-	23	3136	c.2718C>T	c.(2716-2718)ACC>ACT	p.T906T	ABCB1_uc011khc.1_Silent_p.T842T	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	906	ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	AAGAAACAACGGTTCGGAAGT	0.418													25	42					0	0	1	0	0		A	87150160	A	A	87150160	2	1	103	1	0	0	0	0	0	0	0	1	40	1103	39	1		1	ABCB1	7	87150160	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	57982	87150160	71988503	746	62695											
AKAP9	10142	broad.mit.edu	37	chr7	91708607	91708607	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagacagtttaaaacatcAattggatgtggttatagctg	14	12	10	5	0	1	1	1	0	0	1	1	2	1	2	0	2	3	4	0	2	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:91708607A>G	uc003ulg.2	+	31	7385	c.7160A>G	c.(7159-7161)CAA>CGA	p.Q2387R	AKAP9_uc003ulf.2_Missense_Mutation_p.Q2379R|AKAP9_uc003uli.2_Missense_Mutation_p.Q2010R|AKAP9_uc003ulj.2_Missense_Mutation_p.Q157R	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2399	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTAAAACATCAATTGGATGTG	0.368			T	BRAF	papillary thyroid								34	51					0	0	1	0	0		G	91708607	G	G	91708607	3	3	103	1	0	0	0	0	1	0	0	0	459	130	5	3	7282	3	AKAP9	7	91708607	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	4558447	91708607	67430056	747	62696											
AKAP9	10142	broad.mit.edu	37	chr7	91712892	91712892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaaaccttaaagagggaaCactatgttgccgttcagtta	13	11	9	8	1	1	2	1	1	0	1	1	3	1	3	2	1	3	3	2	1	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:91712892C>T	uc003ulg.2	+	33	8794	c.8569C>T	c.(8569-8571)CAC>TAC	p.H2857Y	AKAP9_uc003ulf.2_Missense_Mutation_p.H2849Y|AKAP9_uc003uli.2_Missense_Mutation_p.H2480Y|AKAP9_uc003ulj.2_Missense_Mutation_p.H627Y|AKAP9_uc003ulk.2_Missense_Mutation_p.H132Y	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2869					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AAAGAGGGAACACTATGTTGC	0.368			T	BRAF	papillary thyroid								21	29					0	0	1	0	0		T	91712892	T	T	91712892	3	4	103	1	0	0	0	0	1	0	0	0	459	478	17	4	8699	4	AKAP9	7	91712892	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4285	91712892	67425771	748	62697											
ANKIB1	54467	broad.mit.edu	37	chr7	91936795	91936795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccttcatcctcgcttggCacgccccacagaagatgatt	9	9	8	15	2	1	3	1	1	0	2	3	3	2	3	4	1	1	2	4	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:91936795C>T	uc003ulw.2	+	3	687	c.311C>T	c.(310-312)GCA>GTA	p.A104V		NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	104							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CCTCGCTTGGCACGCCCCACA	0.423													34	62					0	0	1	0	0		T	91936795	T	T	91936795	3	4	103	1	0	0	0	0	1	0	0	0	630	710	25	2	317	2	ANKIB1	7	91936795	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	223903	91936795	67201868	749	62698											
PEG10	23089	broad.mit.edu	37	chr7	94293052	94293052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgatgacatcgagctcCgcggtgctgcagcagctgct	8	8	14	11	3	0	2	0	2	0	0	2	4	1	3	1	2	6	6	1	2	0	0	rs147863226	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:94293052C>T	uc011kie.1	+	2	629	c.412C>T	c.(412-414)CGC>TGC	p.R138C		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	62					apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			CATCGAGCTCCGCGGTGCTGC	0.597													4	14					0	0	1	0	0		T	94293052	T	T	94293052	3	4	103	1	0	0	0	0	1	0	0	0	11738	652	23	1	418	1	PEG10	7	94293052	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2356257	94293052	64845611	750	62699											
DLX5	1749	broad.mit.edu	37	chr7	96650268	96650268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaccgctggagactgcggcGagttacacgccattgggtcg	8	7	14	12	5	0	1	0	0	0	1	1	3	0	1	2	3	2	2	2	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:96650268G>A	uc003uon.2	-	3	858	c.650C>T	c.(649-651)TCG>TTG	p.S217L		NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	217					cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					AGACTGCGGCGAGTTACACGC	0.617													22	28					0	0	1	0	0		A	96650268	A	A	96650268	3	1	103	1	0	0	0	0	1	0	0	0	4580	1059	37	1	223	1	DLX5	7	96650268	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2357216	96650268	62488395	751	62700											
LMTK2	22853	broad.mit.edu	37	chr7	97800879	97800879	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaaggcgtatctgcgcagCgagcaggagcacatgcgggg	9	5	17	10	4	1	1	0	1	1	0	1	3	1	2	0	4	5	4	0	4	2	1	rs138179178		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:97800879C>T	uc003upd.1	+	7	977	c.684C>T	c.(682-684)AGC>AGT	p.S228S		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	228	Protein kinase.				early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					ATCTGCGCAGCGAGCAGGAGC	0.607													27	52					0	0	1	0	0		T	97800879	T	T	97800879	2	4	103	1	0	0	0	0	0	0	0	1	8876	767	27	1		1	LMTK2	7	97800879	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1150611	97800879	61337784	752	62701											
TECPR1	25851	broad.mit.edu	37	chr7	97850995	97850995	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcatccagggcatacacCgacgtctgccccgcggacac	8	7	9	17	4	2	0	1	0	2	0	4	2	3	1	4	2	2	1	4	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:97850995C>T	uc003upg.2	-	23	3340	c.3135G>A	c.(3133-3135)TCG>TCA	p.S1045S		NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	1045	TECPR 8.					integral to membrane	protein binding			pancreas(1)	1						GGGCATACACCGACGTCTGCC	0.423													17	31					0	0	1	0	0		T	97850995	T	T	97850995	2	4	103	1	0	0	0	0	0	0	0	1	15768	639	23	1		1	TECPR1	7	97850995	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	50116	97850995	61287668	753	62702											
TRRAP	8295	broad.mit.edu	37	chr7	98490105	98490105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaccaacgaacatcttcGtcctcacacaaaaaatgttt	16	9	3	13	2	2	0	1	0	1	0	4	1	3	0	3	0	3	1	3	0	6	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:98490105G>A	uc003upp.2	+	5	529	c.320G>A	c.(319-321)CGT>CAT	p.R107H	TRRAP_uc011kis.1_Missense_Mutation_p.R107H	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	107					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GAACATCTTCGTCCTCACACA	0.333													35	57					0	0	1	0	0		A	98490105	A	A	98490105	3	1	103	1	0	0	0	0	1	0	0	0	16627	1145	40	1	334	1	TRRAP	7	98490105	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	639110	98490105	60648558	754	62703											
SMURF1	57154	broad.mit.edu	37	chr7	98636091	98636091	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatgctgcaggatccgcccGaaggcgttgtgttccacgca	7	9	12	13	4	1	0	1	0	0	0	3	2	3	1	3	2	2	5	3	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:98636091G>A	uc003upu.1	-	15	2006	c.1686C>T	c.(1684-1686)TTC>TTT	p.F562F	SMURF1_uc003upv.1_Silent_p.F536F|SMURF1_uc003upt.2_Silent_p.F536F	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	562	HECT.				BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			GGATCCGCCCGAAGGCGTTGT	0.507													20	36					0	0	1	0	0		A	98636091	A	A	98636091	2	1	103	1	0	0	0	0	0	0	0	1	14844	1049	37	1		1	SMURF1	7	98636091	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	145986	98636091	60502572	755	62704											
SMURF1	57154	broad.mit.edu	37	chr7	98655069	98655069	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttaatctgctgatggcAttggagagcagccgcacaca	10	11	10	10	1	2	2	0	1	2	1	2	3	2	2	1	2	3	4	1	2	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:98655069A>C	uc003upu.1	-	4	629	c.309T>G	c.(307-309)AAT>AAG	p.N103K	SMURF1_uc003upv.1_Missense_Mutation_p.N103K|SMURF1_uc003upt.2_Missense_Mutation_p.N103K	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	103					BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			TGCTGATGGCATTGGAGAGCA	0.443													33	38					0	0	1	0	0		C	98655069	C	C	98655069	3	2	103	1	0	0	0	0	1	0	0	0	14844	214	8	5	2028	5	SMURF1	7	98655069	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	18978	98655069	60483594	756	62705											
COPS6	10980	broad.mit.edu	37	chr7	99688088	99688088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggggggccacctgacccctCggacatccacgtccataagc	9	5	11	16	2	0	1	0	1	0	0	3	2	2	2	6	4	1	0	6	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:99688088C>T	uc003usu.2	+	4	432	c.401C>T	c.(400-402)TCG>TTG	p.S134L		NM_006833	NP_006824	Q7L5N1	CSN6_HUMAN	COP9 signalosome subunit 6	134	MPN.				cullin deneddylation|interspecies interaction between organisms	cytoplasm|signalosome	protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			CCTGACCCCTCGGACATCCAC	0.532													20	36					0	0	1	0	0		T	99688088	T	T	99688088	3	4	103	1	0	0	0	0	1	0	0	0	3740	893	31	1	415	1	COPS6	7	99688088	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1033019	99688088	59450575	757	62706											
EPHB4	2050	broad.mit.edu	37	chr7	100405135	100405135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcatctcggcaaggtacCgcatgcccgaggcgatgccc	8	6	12	15	4	2	0	1	0	1	0	3	2	2	0	3	3	4	4	3	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:100405135C>T	uc003uwn.1	-	13	2677	c.2186G>A	c.(2185-2187)CGG>CAG	p.R729Q	EPHB4_uc003uwm.1_Missense_Mutation_p.R636Q|EPHB4_uc010lhj.1_Missense_Mutation_p.R729Q	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	729	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					GGCAAGGTACCGCATGCCCGA	0.592													40	45					0	0	1	0	0		T	100405135	T	T	100405135	3	4	103	1	0	0	0	0	1	0	0	0	5185	652	23	1	797	1	EPHB4	7	100405135	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	717047	100405135	58733528	758	62707											
EMID2	136227	broad.mit.edu	37	chr7	101196619	101196619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttagggtgaacctggcGtgaagggggaagaaggagag	11	7	18	5	1	1	4	0	2	1	2	1	6	1	5	1	5	1	0	1	5	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:101196619G>A	uc010lhy.1	+	11	1228	c.1036G>A	c.(1036-1038)GTG>ATG	p.V346M	EMID2_uc003uyo.1_Missense_Mutation_p.V348M	NM_133457	NP_597714	Q96A83	EMID2_HUMAN	EMI domain containing 2	348	Collagen-like 2.					collagen				ovary(1)	1	Lung NSC(181;0.215)					TGAACCTGGCGTGAAGGGGGA	0.617													29	35					0	0	1	0	0		A	101196619	A	A	101196619	3	1	103	1	0	0	0	0	1	0	0	0	5100	1145	40	1	1078	1	EMID2	7	101196619	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	791484	101196619	57942044	759	62708											
ORAI2	80228	broad.mit.edu	37	chr7	102087230	102087230	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tactcttcctggccgaggtgGtgctgctctgctggatcaag	5	12	13	11	1	3	0	1	0	2	0	4	2	4	1	2	4	4	3	2	4	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:102087230G>C	uc010lhz.1	+	4	731	c.496G>C	c.(496-498)GTG>CTG	p.V166L	ORAI2_uc003uzj.2_Missense_Mutation_p.V166L|ORAI2_uc003uzk.2_Missense_Mutation_p.V166L|ORAI2_uc011kks.1_Missense_Mutation_p.V89L	NM_001126340	NP_001119812	Q96SN7	ORAI2_HUMAN	ORAI calcium release-activated calcium modulator	166	Helical; (Potential).					integral to membrane	protein binding			ovary(1)|kidney(1)	2						GGCCGAGGTGGTGCTGCTCTG	0.682													46	89					0	0	1	0	0		C	102087230	C	C	102087230	3	2	103	1	0	0	0	0	1	0	0	0	11277	1261	44	5	502	5	ORAI2	7	102087230	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	890611	102087230	57051433	760	62709											
LRRC17	10234	broad.mit.edu	37	chr7	102575025	102575025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaggaacaattggaccCgaaaccccaagtgtcaggga	17	4	11	9	1	1	1	1	0	0	1	1	5	1	4	3	3	2	0	3	3	6	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:102575025C>T	uc003vau.2	+	2	1054	c.665C>T	c.(664-666)CCG>CTG	p.P222L	FBXL13_uc010liq.1_Intron|FBXL13_uc003vaq.2_Intron|FBXL13_uc010lir.1_Intron|FBXL13_uc003var.2_Intron|FBXL13_uc003vas.2_Intron|LRRC17_uc003vat.2_Missense_Mutation_p.P222L	NM_001031692	NP_001026862	Q8N6Y2	LRC17_HUMAN	leucine rich repeat containing 17 isoform 1	222					bone marrow development|negative regulation of osteoclast differentiation|ossification	extracellular space				ovary(1)	1						CAATTGGACCCGAAACCCCAA	0.423													19	34					0	0	1	0	0		T	102575025	T	T	102575025	3	4	103	1	0	0	0	0	1	0	0	0	8991	652	23	1	667	1	LRRC17	7	102575025	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	487795	102575025	56563638	761	62710											
PSMC2	5701	broad.mit.edu	37	chr7	103004703	103004703	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgctaatcggactgatgcGtgcttcattcgagttattgg	7	15	12	7	3	1	1	1	1	0	0	3	3	1	2	0	2	3	4	0	2	2	6	rs144680798		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:103004703G>A	uc003vbs.2	+	8	775	c.705G>A	c.(703-705)GCG>GCA	p.A235A	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011klo.1_Silent_p.A98A	NM_002803	NP_002794	P35998	PRS7_HUMAN	proteasome 26S ATPase subunit 2	235					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0						GGACTGATGCGTGCTTCATTC	0.468													51	104					0	0	1	0	0		A	103004703	A	A	103004703	2	1	103	1	0	0	0	0	0	0	0	1	12708	1132	40	1		1	PSMC2	7	103004703	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	429678	103004703	56133960	762	62711											
RELN	5649	broad.mit.edu	37	chr7	103185661	103185661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacatatacatttggttcCattgatacagctcccctgtc	9	14	6	12	0	1	1	1	1	0	0	4	1	3	1	3	1	3	2	3	1	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:103185661C>T	uc003vca.2	-	42	6593	c.6433G>A	c.(6433-6435)GGA>AGA	p.G2145R	RELN_uc010liz.2_Missense_Mutation_p.G2145R	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2145	EGF-like 5.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CATTTGGTTCCATTGATACAG	0.453													45	63					0	0	1	0	0		T	103185661	T	T	103185661	3	4	103	1	0	0	0	0	1	0	0	0	13245	603	21	4	4045	4	RELN	7	103185661	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	180958	103185661	55953002	763	62712											
RELN	5649	broad.mit.edu	37	chr7	103197465	103197465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtctgaatcttgtagcattgGtttgggcagtgtatggcaag	8	14	14	5	0	2	1	0	1	2	0	2	1	2	1	0	3	1	6	0	3	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:103197465G>A	uc003vca.2	-	38	5916	c.5756C>T	c.(5755-5757)ACC>ATC	p.T1919I	RELN_uc010liz.2_Missense_Mutation_p.T1919I	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1919					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TGTAGCATTGGTTTGGGCAGT	0.393													88	118					0	0	1	0	0		A	103197465	A	A	103197465	3	1	103	1	0	0	0	0	1	0	0	0	13245	1261	44	4	4738	4	RELN	7	103197465	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	11804	103197465	55941198	764	62713											
PUS7	54517	broad.mit.edu	37	chr7	105121515	105121515	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaccttccaacctgatacgTagggacagctgtggttccaa	11	9	9	12	1	0	1	0	1	0	0	2	2	2	2	4	2	4	3	4	2	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:105121515T>C	uc003vcx.2	-	9	1378	c.1159A>G	c.(1159-1161)ACG>GCG	p.T387A	PUS7_uc010lji.2_Missense_Mutation_p.T393A|PUS7_uc003vcy.2_Missense_Mutation_p.T387A|PUS7_uc003vcz.1_Missense_Mutation_p.T387A	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog	387	TRUD.				pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						ACCTGATACGTAGGGACAGCT	0.363													20	24					0	0	1	0	0		C	105121515	C	C	105121515	3	2	103	1	0	0	0	0	1	0	0	0	12858	1638	57	3	858	3	PUS7	7	105121515	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1924050	105121515	54017148	765	62714											
ATXN7L1	222255	broad.mit.edu	37	chr7	105516905	105516905	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccggactgggcactttgcGatccagtgtcgccattgctc	5	11	11	14	3	0	0	0	0	0	0	4	2	2	1	3	2	2	2	3	2	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:105516905G>T	uc003vde.2	-	1	127	c.100C>A	c.(100-102)CGC>AGC	p.R34S	ATXN7L1_uc003vdi.2_Missense_Mutation_p.R34S|CDHR3_uc003vdk.2_5'Flank|uc003vdj.1_5'Flank	NM_020725	NP_065776	Q9ULK2	AT7L1_HUMAN	ataxin 7-like 1 isoform 1	34											0						GGCACTTTGCGATCCAGTGTC	0.577													17	21					9.16793e-09	9.48677e-09	1	1	0		T	105516905	T	T	105516905	3	4	103	1	0	0	0	0	1	0	0	0	1217	1058	37	5	2626	5	ATXN7L1	7	105516905	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	395390	105516905	53621758	766	62715											
PIK3CG	5294	broad.mit.edu	37	chr7	106508275	106508275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcggacttctaccaccGgctgggaccgcatcacttcc	6	7	12	16	4	2	0	1	0	1	0	3	2	3	2	4	5	1	2	4	5	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:106508275G>A	uc003vdv.3	+	2	354	c.269G>A	c.(268-270)CGG>CAG	p.R90Q	PIK3CG_uc003vdu.2_Missense_Mutation_p.R90Q|PIK3CG_uc003vdw.2_Missense_Mutation_p.R90Q	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	90					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding	p.R90W(1)		lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						TTCTACCACCGGCTGGGACCG	0.642													14	19					0	0	1	0	0		A	106508275	A	A	106508275	3	1	103	1	0	0	0	0	1	0	0	0	11935	1116	39	1	271	1	PIK3CG	7	106508275	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	991370	106508275	52630388	767	62716											
LAMB1	3912	broad.mit.edu	37	chr7	107591745	107591745	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggcctccaaacccaggcAtgcactggcactgccccgtg	7	6	11	17	2	0	0	0	0	0	0	1	0	1	0	5	3	4	3	5	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:107591745A>G	uc003vew.2	-	24	3652	c.3317T>C	c.(3316-3318)ATG>ACG	p.M1106T	LAMB1_uc003vev.2_Missense_Mutation_p.M1130T	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1106	Laminin EGF-like 12.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAACCCAGGCATGCACTGGCA	0.592													9	38					0	0	1	0	0		G	107591745	G	G	107591745	3	3	103	1	0	0	0	0	1	0	0	0	8626	217	8	3	2087	3	LAMB1	7	107591745	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1083470	107591745	51546918	768	62717											
NRCAM	4897	broad.mit.edu	37	chr7	107872810	107872810	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattagaaactgcagctccGcgttcgttccttgctgtaca	8	14	8	11	3	0	1	0	0	0	1	3	1	2	1	2	0	5	6	2	0	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:107872810G>A	uc003vfb.2	-	7	858	c.387C>T	c.(385-387)CGC>CGT	p.R129R	NRCAM_uc003vfc.2_Silent_p.R123R|NRCAM_uc011kmk.1_Silent_p.R124R|NRCAM_uc003vfd.2_Silent_p.R124R|NRCAM_uc003vfe.2_Silent_p.R124R	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	129	Ig-like 1.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						CTGCAGCTCCGCGTTCGTTCC	0.458													9	122					0	0	1	0	0		A	107872810	A	A	107872810	2	1	103	1	0	0	0	0	0	0	0	1	10663	1074	38	1		1	NRCAM	7	107872810	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	281065	107872810	51265853	769	62718											
IQUB	154865	broad.mit.edu	37	chr7	123142741	123142741	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatttgatacatatacaccAatgttagtcatctgtgtgga	13	15	7	6	0	2	1	1	1	1	0	2	2	2	2	1	1	2	1	1	1	6	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:123142741A>G	uc003vkn.2	-	6	1510	c.933T>C	c.(931-933)ATT>ATC	p.I311I	IQUB_uc003vko.2_Silent_p.I311I|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Silent_p.I311I|IQUB_uc003vkq.2_3'UTR	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	311										ovary(3)|large_intestine(1)	4						CATATACACCAATGTTAGTCA	0.323													3	31					0	0	1	0	0		G	123142741	G	G	123142741	2	3	103	1	0	0	0	0	0	0	0	1	7836	126	5	3		3	IQUB	7	123142741	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	15269931	123142741	35995922	770	62719											
SND1	27044	broad.mit.edu	37	chr7	127338982	127338982	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagagggcttagccaccCggagagaaggcatgagagct	11	6	15	9	1	0	3	0	1	0	3	0	6	0	4	2	3	3	4	2	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:127338982C>A	uc003vmi.2	+	4	629	c.403C>A	c.(403-405)CGG>AGG	p.R135R		NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	135	TNase-like 1.				gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						CTTAGCCACCCGGAGAGAAGG	0.463													14	20					0.00316338	0.00319607	1	1	0		A	127338982	A	A	127338982	2	1	103	1	0	0	0	0	0	0	0	1	14869	643	23	5		5	SND1	7	127338982	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4196241	127338982	31799681	771	62720											
LRRC4	64101	broad.mit.edu	37	chr7	127669747	127669747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattggtgggtatatactctCgaagccaccaggctagccac	11	9	10	11	1	1	0	0	0	1	0	2	1	1	0	3	3	3	2	3	3	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:127669747C>T	uc003vmk.2	-	2	1084	c.947G>A	c.(946-948)CGA>CAA	p.R316Q	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	316	Extracellular (Potential).|LRRCT.					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		TATATACTCTCGAAGCCACCA	0.567													10	22					0	0	1	0	0		T	127669747	T	T	127669747	3	4	103	1	0	0	0	0	1	0	0	0	9015	884	31	1	1018	1	LRRC4	7	127669747	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	330765	127669747	31468916	772	62721											
LRRC4	64101	broad.mit.edu	37	chr7	127669830	127669830	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactccaccaggtacctcagCggggtaaagaggtcatgggg	11	6	14	10	1	2	1	2	0	0	1	3	1	3	1	3	6	3	2	3	6	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:127669830C>T	uc003vmk.2	-	2	1001	c.864G>A	c.(862-864)CCG>CCA	p.P288P	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	288	LRR 9.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		GGTACCTCAGCGGGGTAAAGA	0.517													12	33					0	0	1	0	0		T	127669830	T	T	127669830	2	4	103	1	0	0	0	0	0	0	0	1	9015	755	27	1		1	LRRC4	7	127669830	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	83	127669830	31468833	773	62722											
FAM71F1	84691	broad.mit.edu	37	chr7	128359088	128359088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccctaggattcttgtcaCgcactgcctggtacccaaga	10	9	9	13	1	2	2	1	0	1	2	2	3	2	3	3	2	2	2	3	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:128359088C>T	uc003vno.1	+	3	691	c.638C>T	c.(637-639)ACG>ATG	p.T213M	FAM71F1_uc010llo.1_Missense_Mutation_p.T114M|FAM71F1_uc011koq.1_Missense_Mutation_p.T105M|FAM71F1_uc003vnm.1_RNA|FAM71F1_uc003vnn.1_Missense_Mutation_p.T114M|FAM71F1_uc010llp.1_RNA|FAM71F1_uc003vnp.1_Missense_Mutation_p.T213M	NM_032599	NP_115988	Q96KD3	F71F1_HUMAN	testes development-related NYD-SP18	213										skin(1)	1						ATTCTTGTCACGCACTGCCTG	0.537													37	73					0	0	1	0	0		T	128359088	T	T	128359088	3	4	103	1	0	0	0	0	1	0	0	0	5626	536	19	1	648	1	FAM71F1	7	128359088	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	689258	128359088	30779575	774	62723											
FLNC	2318	broad.mit.edu	37	chr7	128486812	128486812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcaggggagcgggcaccGggggccttggcctagccatc	5	6	16	14	2	1	0	1	0	1	0	3	1	1	1	4	6	2	1	4	6	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:128486812G>A	uc003vnz.3	+	24	4350	c.4141G>A	c.(4141-4143)GGG>AGG	p.G1381R	FLNC_uc003voa.3_Missense_Mutation_p.G1381R	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1381	Filamin 12.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						AGCGGGCACCGGGGGCCTTGG	0.587													17	40					0	0	1	0	0		A	128486812	A	A	128486812	3	1	103	1	0	0	0	0	1	0	0	0	5949	1116	39	1	4235	1	FLNC	7	128486812	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	127724	128486812	30651851	775	62724											
TSGA14	95681	broad.mit.edu	37	chr7	130052065	130052065	+	Frame_Shift_Del	DEL	T	-	-																															agtctcttgaaaagctcatcTtttttgtatctataatctga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:130052065delT	uc003vpz.2	-	4	209	c.162delA	c.(160-162)AAAfs	p.K54fs	TSGA14_uc010lmf.2_5'UTR|TSGA14_uc003vqa.2_Frame_Shift_Del_p.K54fs|TSGA14_uc011kpg.1_Frame_Shift_Del_p.K38fs	NM_018718	NP_061188	Q9BYV8	CEP41_HUMAN	testis specific, 14	54					G2/M transition of mitotic cell cycle	centrosome|cytosol					0	Melanoma(18;0.0435)					AAAGCTCATCTTTTTTGTATC	0.323													33	71	---	---	---	---						.	-	130052065	-	-	130052065	7	5	103	1	0	1	0	1	0	0	0	0	16646	1606	56	0	991	0	TSGA14	7	130052065	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	1565253	130052065	29086598	776	62725											
STRA8	346673	broad.mit.edu	37	chr7	134928082	134928082	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaactccccaatagcatcCttcaacctggaagatgggca	12	9	7	13	0	2	1	2	0	0	1	4	2	4	2	4	2	3	2	4	2	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:134928082C>A	uc011kpx.1	+	4	339	c.339C>A	c.(337-339)TCC>TCA	p.S113S		NM_182489	NP_872295	Q7Z7C7	STRA8_HUMAN	STRA8	113					DNA replication|regulation of transcription, DNA-dependent	cytoplasm|nucleus					0						CAATAGCATCCTTCAACCTGG	0.512													24	48					1.17739e-12	1.23958e-12	1	1	0		A	134928082	A	A	134928082	2	1	103	1	0	0	0	0	0	0	0	1	15348	668	24	5		5	STRA8	7	134928082	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4876017	134928082	24210581	777	62726											
DGKI	9162	broad.mit.edu	37	chr7	137294333	137294333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttgttctcttcttcttcCgatttgaagccttcagggag	6	16	9	10	1	4	1	1	1	3	0	6	3	5	2	2	1	2	2	2	1	1	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:137294333C>T	uc003vtt.2	-	9	1017	c.1016G>A	c.(1015-1017)CGG>CAG	p.R339Q	DGKI_uc003vtu.2_Missense_Mutation_p.R39Q	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	339					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						CTTCTTCTTCCGATTTGAAGC	0.423													22	28					0	0	1	0	0		T	137294333	T	T	137294333	3	4	103	1	0	0	0	0	1	0	0	0	4477	652	23	1	2285	1	DGKI	7	137294333	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2366251	137294333	21844330	778	62727											
BRAF	673	broad.mit.edu	37	chr7	140534454	140534454	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagactctaacgataggtttTtgtggtgacttggggttgct	8	15	13	5	1	1	2	0	1	1	1	1	3	1	2	0	4	2	3	0	4	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:140534454T>C	uc003vwc.3	-	3	520	c.459A>G	c.(457-459)CAA>CAG	p.Q153Q		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	153					activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	CGATAGGTTTTTGTGGTGACT	0.413		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				61	89					0	0	1	0	0		C	140534454	C	C	140534454	2	2	103	1	0	0	0	0	0	0	0	1	1499	1838	64	3		3	BRAF	7	140534454	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	3240121	140534454	18604209	779	62728											
SSBP1	6742	broad.mit.edu	37	chr7	141438980	141438980	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagccatgtttcgaagacCtgtattacaggtagtcactt	12	12	9	8	1	1	2	1	0	0	2	2	3	1	2	2	1	2	3	2	1	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:141438980C>A	uc003vwo.1	+	2	92	c.14C>A	c.(13-15)CCT>CAT	p.P5H	FLJ40852_uc011krh.1_5'Flank|FLJ40852_uc010lnm.2_5'Flank|FLJ40852_uc010lnn.2_5'Flank|FLJ40852_uc003vwm.3_5'Flank|FLJ40852_uc010lno.2_5'Flank|SSBP1_uc011kri.1_Missense_Mutation_p.P5H|SSBP1_uc010lnp.1_Missense_Mutation_p.P5H	NM_003143	NP_003134	Q04837	SSBP_HUMAN	single-stranded DNA binding protein 1 precursor	5					DNA replication|positive regulation of helicase activity	mitochondrial nucleoid	single-stranded DNA binding			ovary(1)	1	Melanoma(164;0.0171)					TTTCGAAGACCTGTATTACAG	0.338													47	73					2.5401e-28	2.74609e-28	1	1	0		A	141438980	A	A	141438980	3	1	103	1	0	0	0	0	1	0	0	0	15204	681	24	5	16	5	SSBP1	7	141438980	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	904526	141438980	17699683	780	62729											
TAS2R40	259286	broad.mit.edu	37	chr7	142919509	142919509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttccaatctctggtttgctgCctggctcaaagtcttctatt	6	17	7	11	0	4	0	1	0	3	0	6	0	5	0	2	2	2	3	2	2	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:142919509C>T	uc011ksx.1	+	1	338	c.338C>T	c.(337-339)GCC>GTC	p.A113V		NM_176882	NP_795363	P59535	T2R40_HUMAN	taste receptor, type 2, member 40	113	Helical; Name=3; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			ovary(1)	1	Melanoma(164;0.059)					TGGTTTGCTGCCTGGCTCAAA	0.393													46	90					0	0	1	0	0		T	142919509	T	T	142919509	3	4	103	1	0	0	0	0	1	0	0	0	15603	739	26	2	340	2	TAS2R40	7	142919509	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1480529	142919509	16219154	781	62730											
FAM115C	285966	broad.mit.edu	37	chr7	143400364	143400364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccctgtcctggggctcccGtgggagtgcatccatccctg	3	10	13	15	1	0	0	0	0	0	0	5	1	5	1	5	3	1	2	5	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:143400364G>A	uc003wdf.2	+	2	360	c.277G>A	c.(277-279)GTG>ATG	p.V93M	FAM115C_uc003wdg.2_Intron|FAM115C_uc011ktk.1_Intron|FAM115C_uc003wdh.2_Missense_Mutation_p.V93M|FAM115C_uc011ktm.1_Intron|uc011ktn.1_Intron|uc011kto.1_Intron|uc011ktp.1_Intron|LOC154761_uc011ktq.1_Intron|LOC154761_uc011ktr.1_Intron|LOC154761_uc011kts.1_Intron	NM_001130025	NP_001123497	A6NFQ2	F115C_HUMAN	hypothetical protein LOC285966 isoform A	93											0						TGGGGCTCCCGTGGGAGTGCA	0.582													18	64					0	0	1	0	0		A	143400364	A	A	143400364	3	1	103	1	0	0	0	0	1	0	0	0	5417	1145	40	1	279	1	FAM115C	7	143400364	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	480855	143400364	15738299	782	62731											
CNTNAP2	26047	broad.mit.edu	37	chr7	147183036	147183036	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctgacagatgtgtgccCaatcactgtgagcatggtgg	8	11	12	10	0	2	3	1	2	1	1	3	3	2	3	1	2	2	1	1	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:147183036C>T	uc003weu.1	+	11	2196	c.1680C>T	c.(1678-1680)CCC>CCT	p.P560P		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	560	EGF-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GATGTGTGCCCAATCACTGTG	0.453										HNSCC(39;0.1)			46	91					0	0	1	0	0		T	147183036	T	T	147183036	2	4	103	1	0	0	0	0	0	0	0	1	3650	581	21	4		4	CNTNAP2	7	147183036	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3782672	147183036	11955627	783	62732											
KRBA1	84626	broad.mit.edu	37	chr7	149430494	149430494	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggagaagctggatcggctCgccacagcgctggcaggcct	7	5	16	13	4	0	1	0	0	0	1	2	3	0	2	2	5	2	4	2	5	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:149430494C>T	uc003wfz.2	+	18	2850	c.2451C>T	c.(2449-2451)CTC>CTT	p.L817L	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_Silent_p.L424L	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	817	Potential.									ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TGGATCGGCTCGCCACAGCGC	0.692													11	12					0	0	1	0	0		T	149430494	T	T	149430494	2	4	103	1	0	0	0	0	0	0	0	1	8455	871	31	1		1	KRBA1	7	149430494	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2247458	149430494	9708169	784	62733											
SSPO	23145	broad.mit.edu	37	chr7	149485991	149485991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaaccaggacgactgtggcGatggctctgatgaggagggt	10	7	16	8	2	1	2	0	2	1	0	1	6	1	4	1	5	1	1	1	5	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:149485991G>A	uc010lpk.2	+	29	4210	c.4210G>A	c.(4210-4212)GAT>AAT	p.D1404N		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	1404	LDL-receptor class A 1.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CGACTGTGGCGATGGCTCTGA	0.587													15	15					0	0	1	0	0		A	149485991	A	A	149485991	3	1	103	1	0	0	0	0	1	0	0	0	15214	1058	37	1	4320	1	SSPO	7	149485991	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	55497	149485991	9652672	785	62734											
GIMAP8	155038	broad.mit.edu	37	chr7	150164231	150164232	+	Frame_Shift_Ins	INS	-	A	A																															cttgctgcaagatttcattgINSaaaaaaacaaacctctcaag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:150164231_150164232insA	uc003whj.2	+	2	775_776	c.445_446insA	c.(445-447)GAAfs	p.E149fs		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	149						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		AGATTTCATTGAAAAAAACAAA	0.45													30	50	---	---	---	---						.	A	150164232	A	A	150164231	7	5	103	1	0	1	1	0	0	0	0	0	6400	1291	45	0	447	0	GIMAP8	7	150164231	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	678240	150164231	8974432	786	62735											
ABP1	26	broad.mit.edu	37	chr7	150554844	150554844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaggggtgccccttcggcGgcactttaattccaacttta	8	11	9	13	2	0	0	0	0	0	0	2	0	1	0	3	4	2	1	3	4	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:150554844G>A	uc003why.1	+	3	5504	c.1286G>A	c.(1285-1287)CGG>CAG	p.R429Q	ABP1_uc003whz.1_Missense_Mutation_p.R429Q|ABP1_uc003wia.1_Missense_Mutation_p.R429Q	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	429					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	CCCCTTCGGCGGCACTTTAAT	0.527													36	28					0	0	1	0	0		A	150554844	A	A	150554844	3	1	103	1	0	0	0	0	1	0	0	0	98	1116	39	1	1288	1	ABP1	7	150554844	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	390613	150554844	8583819	787	62736											
SLC4A2	6522	broad.mit.edu	37	chr7	150771378	150771378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccggttctttcctggcCgggtgcgtgggcttaaaggc	5	10	15	11	3	1	0	0	0	1	0	2	0	2	0	3	5	2	2	3	5	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:150771378C>T	uc003wit.3	+	17	3044	c.2788C>T	c.(2788-2790)CGG>TGG	p.R930W	SLC4A2_uc011kve.1_Missense_Mutation_p.R921W|SLC4A2_uc003wiu.3_Missense_Mutation_p.R916W|SLC4A2_uc003wiv.3_Missense_Mutation_p.R124W	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	930	Membrane (anion exchange).|Cytoplasmic (Potential).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTTTCCTGGCCGGGTGCGTGG	0.637													32	46					0	0	1	0	0		T	150771378	T	T	150771378	3	4	103	1	0	0	0	0	1	0	0	0	14679	643	23	1	2850	1	SLC4A2	7	150771378	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	216534	150771378	8367285	788	62737											
MLL3	58508	broad.mit.edu	37	chr7	151877839	151877839	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgggccatatttacagtaTtctgtgtatcagttactcct	8	17	7	9	0	2	0	1	0	1	0	3	0	3	0	2	1	2	3	2	1	5	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:151877839T>C	uc003wla.2	-	36	7325	c.7106A>G	c.(7105-7107)AAT>AGT	p.N2369S	MLL3_uc003wkz.2_Missense_Mutation_p.N1430S|MLL3_uc003wky.2_5'Flank	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2369					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ATTTACAGTATTCTGTGTATC	0.418			N		medulloblastoma								30	44					0	0	1	0	0		C	151877839	C	C	151877839	3	2	103	1	0	0	0	0	1	0	0	0	9640	1493	52	3	7725	3	MLL3	7	151877839	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1106461	151877839	7260824	789	62738											
DPP6	1804	broad.mit.edu	37	chr7	154561207	154561207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgccgccatcaatgattccCgtgtccccatcatggagctc	8	9	8	16	3	2	1	2	1	0	0	5	2	4	2	5	1	1	1	5	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:154561207C>T	uc003wlk.2	+	9	1093	c.964C>T	c.(964-966)CGT>TGT	p.R322C	DPP6_uc003wli.2_Missense_Mutation_p.R258C|DPP6_uc003wlm.2_Missense_Mutation_p.R260C|DPP6_uc011kvq.1_Missense_Mutation_p.R215C	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	322	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CAATGATTCCCGTGTCCCCAT	0.552													21	26					0	0	1	0	0		T	154561207	T	T	154561207	3	4	103	1	0	0	0	0	1	0	0	0	4736	652	23	1	1114	1	DPP6	7	154561207	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2683368	154561207	4577456	790	62739											
HTR5A	3361	broad.mit.edu	37	chr7	154862986	154862986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgacgtgctttgctgcaCggccagcatctggaacgtga	7	9	14	11	4	1	1	0	1	1	0	1	3	1	2	1	2	6	4	1	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:154862986C>T	uc003wlu.1	+	1	441	c.377C>T	c.(376-378)ACG>ATG	p.T126M	uc011kvt.1_Missense_Mutation_p.V10M|uc003wlt.2_Missense_Mutation_p.V10M	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	126	Helical; Name=3; (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		CTTTGCTGCACGGCCAGCATC	0.652													15	27					0	0	1	0	0		T	154862986	T	T	154862986	3	4	103	1	0	0	0	0	1	0	0	0	7466	536	19	1	379	1	HTR5A	7	154862986	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	301779	154862986	4275677	791	62740											
INSIG1	3638	broad.mit.edu	37	chr7	155094088	155094088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccatagcttttctagctaCgctgatcacgcagtttctcg	8	13	7	13	3	3	1	1	1	2	0	4	1	3	1	1	0	3	5	1	0	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:155094088C>T	uc003wly.2	+	4	876	c.665C>T	c.(664-666)ACG>ATG	p.T222M	INSIG1_uc011kvu.1_Missense_Mutation_p.T70M|INSIG1_uc003wlz.2_Intron	NM_005542	NP_005533	O15503	INSI1_HUMAN	insulin induced gene 1 isoform 1	222	Helical; (Potential).				cell proliferation|ER-nuclear sterol response pathway	endoplasmic reticulum membrane|integral to membrane	protein binding				0	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TTTCTAGCTACGCTGATCACG	0.433													22	28					0	0	1	0	0		T	155094088	T	T	155094088	3	4	103	1	0	0	0	0	1	0	0	0	7781	536	19	1	675	1	INSIG1	7	155094088	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	231102	155094088	4044575	792	62741											
CNPY1	285888	broad.mit.edu	37	chr7	155301697	155301697	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttgaaagttctctccttCgtcacagggtcttcctcaag	7	14	7	13	1	5	1	2	1	3	0	9	1	7	1	2	1	0	1	2	1	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:155301697C>T	uc003wmc.1	-	2	181	c.36G>A	c.(34-36)ACG>ACA	p.T12T		NM_001103176	NP_001096646	Q3B7I2	CNPY1_HUMAN	canopy 1 homolog	12											0	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		TTCTCTCCTTCGTCACAGGGT	0.418													33	58					0	0	1	0	0		T	155301697	T	T	155301697	2	4	103	1	0	0	0	0	0	0	0	1	3630	871	31	1		1	CNPY1	7	155301697	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	207609	155301697	3836966	793	62742											
RBM33	155435	broad.mit.edu	37	chr7	155534589	155534589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaggaacagcaatttgcGtgaattacccatagcgccgt	12	8	10	11	3	0	1	0	1	0	0	0	2	0	2	3	1	5	1	3	1	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:155534589G>A	uc010lqk.1	+	13	2494	c.2126G>A	c.(2125-2127)CGT>CAT	p.R709H	RBM33_uc011kvv.1_Missense_Mutation_p.R518H	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	709							nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		AGCAATTTGCGTGAATTACCC	0.507													54	99					0	0	1	0	0		A	155534589	A	A	155534589	3	1	103	1	0	0	0	0	1	0	0	0	13155	1145	40	1	2176	1	RBM33	7	155534589	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	232892	155534589	3604074	794	62743											
DNAJB6	10049	broad.mit.edu	37	chr7	157177650	157177650	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcatgggcaacttcaaaTcgatatcaacttcaactaaa	15	10	7	9	1	3	0	3	0	0	0	4	1	3	0	0	2	3	2	0	2	7	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:157177650T>A	uc003wnk.2	+	7	722	c.568T>A	c.(568-570)TCG>ACG	p.S190T	DNAJB6_uc003wnj.2_Missense_Mutation_p.S190T|DNAJB6_uc003wnl.2_Missense_Mutation_p.S177T|DNAJB6_uc011kvy.1_Missense_Mutation_p.S141T|DNAJB6_uc011kvz.1_Intron|DNAJB6_uc010lqt.2_Missense_Mutation_p.S190T	NM_058246	NP_490647	O75190	DNJB6_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 6	190	Interaction with KRT18.				intermediate filament organization|negative regulation of caspase activity|protein folding|response to unfolded protein	nucleus|perinuclear region of cytoplasm	ATPase activator activity|chaperone binding|heat shock protein binding|unfolded protein binding	p.S190S(1)		ovary(2)	2	all_neural(206;0.181)	all_epithelial(9;0.000606)|all_hematologic(28;0.00287)|Acute lymphoblastic leukemia(9;0.0647)|Ovarian(593;0.196)	OV - Ovarian serous cystadenocarcinoma(82;0.00399)	UCEC - Uterine corpus endometrioid carcinoma (81;0.172)		CAACTTCAAATCGATATCAAC	0.403													8	93					0	0	1	0	0		A	157177650	A	A	157177650	3	1	103	1	0	0	0	0	1	0	0	0	4630	1435	50	5	590	5	DNAJB6	7	157177650	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1643061	157177650	1961013	795	62744											
PTPRN2	5799	broad.mit.edu	37	chr7	158109576	158109576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacgggcgacacctcgtagCggtaaaagtccattgccgga	10	6	12	13	5	0	0	0	0	0	0	2	2	1	1	4	3	2	2	4	3	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:158109576C>T	uc003wno.2	-	3	333	c.212G>A	c.(211-213)CGC>CAC	p.R71H	PTPRN2_uc003wnp.2_Missense_Mutation_p.R54H|PTPRN2_uc003wnq.2_Missense_Mutation_p.R71H|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Missense_Mutation_p.R94H	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	71	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CACCTCGTAGCGGTAAAAGTC	0.607													13	28					0	0	1	0	0		T	158109576	T	T	158109576	3	4	103	1	0	0	0	0	1	0	0	0	12833	768	27	1	2919	1	PTPRN2	7	158109576	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	931926	158109576	1029087	796	62745											
ESYT2	57488	broad.mit.edu	37	chr7	158526907	158526907	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctgctgcggctatgtcatCgcctgaggcctcgtcccatc	4	10	11	16	3	1	1	1	1	0	0	5	1	2	1	4	2	2	2	4	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr7:158526907C>T	uc003wob.1	-	22	2739	c.2673G>A	c.(2671-2673)GCG>GCA	p.A891A	ESYT2_uc003wny.1_RNA|ESYT2_uc003wnz.1_Silent_p.A330A|ESYT2_uc003woa.1_Silent_p.A468A	NM_020728	NP_065779	A0FGR8	ESYT2_HUMAN	family with sequence similarity 62 (C2 domain	919						integral to membrane|plasma membrane				central_nervous_system(2)|kidney(1)	3						GCTATGTCATCGCCTGAGGCC	0.527													17	24					0	0	1	0	0		T	158526907	T	T	158526907	2	4	103	1	0	0	0	0	0	0	0	1	5273	871	31	1		1	ESYT2	7	158526907	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	417331	158526907	611756	797	62746											
ARHGEF10	9639	broad.mit.edu	37	chr8	1876637	1876637	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcagattgccatcgtctcGtttcaaaattccactcccaa	10	12	6	13	2	3	1	2	0	1	1	7	1	5	1	3	1	1	1	3	1	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:1876637G>A	uc003wpr.2	+	24	2920	c.2742G>A	c.(2740-2742)TCG>TCA	p.S914S	ARHGEF10_uc003wps.2_Silent_p.S876S|ARHGEF10_uc010lre.2_Silent_p.S565S	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	939					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		CCATCGTCTCGTTTCAAAATT	0.488													62	162					0	0	1	0	0		A	1876637	A	A	1876637	2	1	103	1	0	0	0	0	0	0	0	1	894	1132	40	1		1	ARHGEF10	8	1876637	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08		1876637	144487385	798	62747											
ARHGEF10	9639	broad.mit.edu	37	chr8	1900959	1900959	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcctcgtggccctgccGgtcccacgtctgcaagggat	5	8	14	14	3	1	0	0	0	1	0	4	2	3	2	4	4	2	1	4	4	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:1900959G>A	uc003wpr.2	+	28	3664	c.3486G>A	c.(3484-3486)CCG>CCA	p.P1162P	ARHGEF10_uc003wps.2_Silent_p.P1124P|ARHGEF10_uc010lre.2_Silent_p.P813P	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	1187					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TGGCCCTGCCGGTCCCACGTC	0.642													25	81					0	0	1	0	0		A	1900959	A	A	1900959	2	1	103	1	0	0	0	0	0	0	0	1	894	1103	39	1		1	ARHGEF10	8	1900959	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	24322	1900959	144463063	799	62748											
MYOM2	9172	broad.mit.edu	37	chr8	2017398	2017398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgtttttttctctccaaggGcagactttgacgacactgcg	7	15	9	10	2	1	2	0	1	1	1	3	3	2	2	1	1	1	2	1	1	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:2017398G>A	uc003wpx.3	+	7	793	c.655G>A	c.(655-657)GCA>ACA	p.A219T	MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	219	Ig-like C2-type 1.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CTCTCCAAGGGCAGACTTTGA	0.522													18	23					0	0	1	0	0		A	2017398	A	A	2017398	3	1	103	1	0	0	0	0	1	0	0	0	10110	1217	42	2	677	2	MYOM2	8	2017398	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	116439	2017398	144346624	800	62749											
CSMD1	64478	broad.mit.edu	37	chr8	3081363	3081363	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgacaaaataacacctgctgGgcccgtcagattccctccac	11	8	7	15	1	1	2	1	1	0	1	3	2	3	2	4	1	2	1	4	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:3081363G>T	uc011kwk.1	-	28	4765	c.4375C>A	c.(4375-4377)CCA>ACA	p.P1459T	CSMD1_uc011kwj.1_Missense_Mutation_p.P851T|CSMD1_uc003wqe.2_Missense_Mutation_p.P615T	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1459	Extracellular (Potential).|CUB 9.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ACACCTGCTGGGCCCGTCAGA	0.507													19	45					0.00741294	0.00747851	1	1	0		T	3081363	T	T	3081363	3	4	103	1	0	0	0	0	1	0	0	0	3947	1232	43	5	6494	5	CSMD1	8	3081363	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1063965	3081363	143282659	801	62750											
CSMD1	64478	broad.mit.edu	37	chr8	3141845	3141845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtcgtgagccatctccGtgtcgaaaacaatgaaatgg	12	9	12	8	3	1	2	0	2	1	0	4	4	1	3	2	2	2	0	2	2	4	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:3141845G>A	uc011kwk.1	-	26	4367	c.3977C>T	c.(3976-3978)ACG>ATG	p.T1326M	CSMD1_uc011kwj.1_Missense_Mutation_p.T718M|CSMD1_uc003wqe.2_Missense_Mutation_p.T482M	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1326	Extracellular (Potential).|CUB 8.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		AGCCATCTCCGTGTCGAAAAC	0.562											OREG0018505	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	37					0	0	1	0	0		A	3141845	A	A	3141845	3	1	103	1	0	0	0	0	1	0	0	0	3947	1145	40	1	6900	1	CSMD1	8	3141845	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	60482	3141845	143222177	802	62751											
CSMD1	64478	broad.mit.edu	37	chr8	3224649	3224649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaacaggcctgccttgatcGtatgaggcaacaccgacccg	11	6	10	14	3	0	2	0	2	0	0	1	3	0	2	4	2	3	2	4	2	3	2	rs147113316	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:3224649G>A	uc011kwk.1	-	20	3413	c.3023C>T	c.(3022-3024)ACG>ATG	p.T1008M	CSMD1_uc011kwj.1_Missense_Mutation_p.T400M|CSMD1_uc003wqe.2_Missense_Mutation_p.T164M	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1008	Extracellular (Potential).|CUB 6.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TGCCTTGATCGTATGAGGCAA	0.478													15	25					0	0	1	0	0		A	3224649	A	A	3224649	3	1	103	1	0	0	0	0	1	0	0	0	3947	1145	40	1	7878	1	CSMD1	8	3224649	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	82804	3224649	143139373	803	62752											
CSMD1	64478	broad.mit.edu	37	chr8	3855509	3855509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagtgaagaccagcgcaatgGtgtccccgggctcagccaga	10	5	13	13	2	1	3	1	1	0	2	2	3	2	3	4	2	2	2	4	2	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:3855509G>A	uc011kwk.1	-	5	1124	c.734C>T	c.(733-735)ACC>ATC	p.T245I		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	245	Extracellular (Potential).|CUB 2.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CAGCGCAATGGTGTCCCCGGG	0.547													4	11					0	0	1	0	0		A	3855509	A	A	3855509	3	1	103	1	0	0	0	0	1	0	0	0	3947	1261	44	4	10037	4	CSMD1	8	3855509	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	630860	3855509	142508513	804	62753											
SGK223	157285	broad.mit.edu	37	chr8	8235431	8235431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggctcaaggttgtgcaggCcgaccatggtgtaagctggg	7	8	18	8	1	1	0	1	0	0	0	1	1	1	0	2	6	2	5	2	6	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:8235431C>T	uc003wsh.3	-	2	488	c.488G>A	c.(487-489)GGC>GAC	p.G163D		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	163							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GTTGTGCAGGCCGACCATGGT	0.592													32	111					0	0	1	0	0		T	8235431	T	T	8235431	3	4	103	1	0	0	0	0	1	0	0	0	14235	739	26	2	3736	2	SGK223	8	8235431	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4379922	8235431	138128591	805	62754											
TNKS	8658	broad.mit.edu	37	chr8	9627729	9627729	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattggtagaccgagcgtcaAtgggctggcatatgctgaat	10	10	13	8	2	1	2	1	1	0	1	1	3	1	2	1	3	2	4	1	3	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:9627729A>G	uc003wss.2	+	26	3859	c.3854A>G	c.(3853-3855)AAT>AGT	p.N1285S	TNKS_uc011kww.1_Missense_Mutation_p.N1048S	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1285	PARP catalytic.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		CCGAGCGTCAATGGGCTGGCA	0.473													15	51					0	0	1	0	0		G	9627729	G	G	9627729	3	3	103	1	0	0	0	0	1	0	0	0	16344	101	4	3	3956	3	TNKS	8	9627729	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1392298	9627729	136736293	806	62755											
TNKS	8658	broad.mit.edu	37	chr8	9627753	9627753	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcatatgctgaatatgTcatctacagaggagaacagg	13	9	12	7	0	2	3	1	1	1	2	2	4	2	3	0	3	3	3	0	3	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:9627753T>C	uc003wss.2	+	26	3883	c.3878T>C	c.(3877-3879)GTC>GCC	p.V1293A	TNKS_uc011kww.1_Missense_Mutation_p.V1056A	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1293	PARP catalytic.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		GCTGAATATGTCATCTACAGA	0.468													10	41					0	0	1	0	0		C	9627753	C	C	9627753	3	2	103	1	0	0	0	0	1	0	0	0	16344	1667	58	3	3980	3	TNKS	8	9627753	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	24	9627753	136736269	807	62756											
SOX7	83595	broad.mit.edu	37	chr8	10583281	10583281	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctgttgtagtacgtggcCgtggcatcagccaggacgga	8	9	15	9	3	1	0	1	0	0	0	1	2	1	2	2	4	3	5	2	4	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:10583281C>T	uc003wtf.2	-	2	1213	c.1134G>A	c.(1132-1134)ACG>ACA	p.T378T	SOX7_uc011kwz.1_Silent_p.T430T	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	378	Sox C-terminal.				endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		AGTACGTGGCCGTGGCATCAG	0.637													13	57					0	0	1	0	0		T	10583281	T	T	10583281	2	4	103	1	0	0	0	0	0	0	0	1	14981	639	23	1		1	SOX7	8	10583281	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	955528	10583281	135780741	808	62757											
SOX7	83595	broad.mit.edu	37	chr8	10690428	10690428	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	attgatggtagctccgagtcCcaggtggttatttttcactt	7	16	10	8	1	1	1	1	1	0	0	3	2	3	1	2	3	1	3	2	3	2	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:10690428C>A	uc011kwz.1	-	3	229	c.196G>T	c.(196-198)GGA>TGA	p.G66*	PINX1_uc003wth.2_Nonsense_Mutation_p.G66*|PINX1_uc003wti.2_Nonsense_Mutation_p.G66*	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	Error:Variant_position_missing_in_Q9BT81_after_alignment					endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		GCTCCGAGTCCCAGGTGGTTA	0.438													7	17					1.76689e-08	1.8265e-08	1	1	0		A	10690428	A	A	10690428	4	1	103	1	0	0	0	0	0	1	0	0	14981	632	22	5		5	SOX7	8	10690428	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	107147	10690428	135673594	809	62758											
FAM86B1	85002	broad.mit.edu	37	chr8	12042911	12042911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtggtgaacagctggcacGtctctgggttgcggacggta	6	9	17	9	4	1	1	0	1	1	0	2	2	1	2	0	6	3	4	0	6	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:12042911G>A	uc010lse.2	-	6	809	c.764C>T	c.(763-765)ACG>ATG	p.T255M	FAM66D_uc011kxp.1_Intron|FAM86B1_uc003wvf.3_RNA|FAM86B1_uc003wvi.3_Missense_Mutation_p.T61M|FAM86B1_uc010lsd.2_RNA|FAM86B1_uc003wvh.3_Missense_Mutation_p.T98M|FAM86B1_uc011kxq.1_Missense_Mutation_p.T61M|FAM86B1_uc010lsf.2_Missense_Mutation_p.T98M|FAM86B1_uc003wvj.3_Missense_Mutation_p.T189M|FAM86B1_uc003wvk.3_Missense_Mutation_p.T289M|FAM86B1_uc010lsg.2_RNA|FAM86B1_uc003wvl.3_RNA	NM_001083537	NP_001077006	Q8N7N1	F86B1_HUMAN	hypothetical protein LOC85002	255											0			STAD - Stomach adenocarcinoma(15;0.033)	COAD - Colon adenocarcinoma(149;0.0965)		CAGCTGGCACGTCTCTGGGTT	0.647													38	85					0	0	1	0	0		A	12042911	A	A	12042911	3	1	103	1	0	0	0	0	1	0	0	0	5658	1145	40	1	134	1	FAM86B1	8	12042911	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1352483	12042911	134321111	810	62759											
LONRF1	91694	broad.mit.edu	37	chr8	12594270	12594270	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcttctggaatatcaccaTaagctaaggaaaacatacag	17	10	6	8	0	3	0	1	0	2	0	3	2	3	2	1	2	3	1	1	2	7	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:12594270T>A	uc003wwd.1	-	6	1454	c.1391A>T	c.(1390-1392)TAT>TTT	p.Y464F	LONRF1_uc011kxv.1_Missense_Mutation_p.Y53F|LONRF1_uc010lsp.1_Missense_Mutation_p.Y64F	NM_152271	NP_689484	Q17RB8	LONF1_HUMAN	LON peptidase N-terminal domain and ring finger	464					proteolysis		ATP-dependent peptidase activity|zinc ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(644;0.236)		AATATCACCATAAGCTAAGGA	0.318													34	102					0	0	1	0	0		A	12594270	A	A	12594270	3	1	103	1	0	0	0	0	1	0	0	0	8912	1406	49	5	958	5	LONRF1	8	12594270	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	551359	12594270	133769752	811	62760											
DLC1	10395	broad.mit.edu	37	chr8	13357421	13357421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaaacacacttctctttgcGgtccacatttagagttgcat	10	14	7	10	1	1	2	0	1	1	1	3	2	2	2	1	1	3	2	1	1	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:13357421G>A	uc003wwm.2	-	2	604	c.160C>T	c.(160-162)CGC>TGC	p.R54C	DLC1_uc003wwn.2_Missense_Mutation_p.R54C|DLC1_uc011kxy.1_Missense_Mutation_p.R54C	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	54					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TTCTCTTTGCGGTCCACATTT	0.453													70	232					0	0	1	0	0		A	13357421	A	A	13357421	3	1	103	1	0	0	0	0	1	0	0	0	4556	1116	39	1	4579	1	DLC1	8	13357421	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	763151	13357421	133006601	812	62761											
MTMR7	9108	broad.mit.edu	37	chr8	17198880	17198880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacacttactttaggccGggtgtcaacgacataaacga	12	9	11	9	3	1	1	1	1	0	0	1	3	1	1	1	3	3	0	1	3	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:17198880G>A	uc003wxm.2	-	6	963	c.724C>T	c.(724-726)CGG>TGG	p.R242W	MTMR7_uc003wxn.2_Missense_Mutation_p.R21W	NM_004686	NP_004677	Q9Y216	MTMR7_HUMAN	myotubularin related protein 7	242	Myotubularin phosphatase.						protein tyrosine phosphatase activity			skin(1)	1				Colorectal(111;0.112)		ACTTTAGGCCGGGTGTCAACG	0.542													12	51					0	0	1	0	0		A	17198880	A	A	17198880	3	1	103	1	0	0	0	0	1	0	0	0	9966	1115	39	1	1294	1	MTMR7	8	17198880	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3841459	17198880	129165142	813	62762											
PCM1	5108	broad.mit.edu	37	chr8	17810569	17810569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaaccatcagcttcagaaCgtttacctgatgagaaagtc	14	9	9	9	1	2	3	2	2	0	2	3	5	2	4	2	1	4	2	2	1	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:17810569C>T	uc003wyi.3	+	9	1584	c.1162C>T	c.(1162-1164)CGT>TGT	p.R388C	PCM1_uc011kyh.1_Missense_Mutation_p.R388C|PCM1_uc003wyj.3_Missense_Mutation_p.R388C|PCM1_uc003wyg.2_Missense_Mutation_p.R388C|PCM1_uc003wyh.2_Missense_Mutation_p.R427C|PCM1_uc010lta.1_Missense_Mutation_p.R427C	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	388					centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		AGCTTCAGAACGTTTACCTGA	0.398			T	RET|JAK2	papillary thyroid|CML|MPD								5	18					0	0	1	0	0		T	17810569	T	T	17810569	3	4	103	1	0	0	0	0	1	0	0	0	11603	536	19	1	1188	1	PCM1	8	17810569	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	611689	17810569	128553453	814	62763											
SLC18A1	6570	broad.mit.edu	37	chr8	20036930	20036930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggaacttccggcatggcCgaggtgcagagaagagttga	10	7	17	7	2	0	3	0	1	0	2	1	6	1	4	2	5	2	3	2	5	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:20036930C>T	uc011kyq.1	-	4	661	c.190G>A	c.(190-192)GGC>AGC	p.G64S	SLC18A1_uc003wzm.2_Missense_Mutation_p.G64S|SLC18A1_uc011kyr.1_Missense_Mutation_p.G64S|SLC18A1_uc003wzn.2_Missense_Mutation_p.G64S|SLC18A1_uc010ltf.2_RNA|SLC18A1_uc003wzo.2_Missense_Mutation_p.G64S	NM_001135691	NP_001129163	P54219	VMAT1_HUMAN	solute carrier family 18 (vesicular monoamine),	64	Lumenal, vesicle (Potential).				neurotransmitter transport	clathrin sculpted monoamine transport vesicle membrane|integral to membrane|membrane fraction	drug transmembrane transporter activity|monoamine transmembrane transporter activity			ovary(2)	2				Colorectal(74;0.0747)		CCGGCATGGCCGAGGTGCAGA	0.517													20	70					0	0	1	0	0		T	20036930	T	T	20036930	3	4	103	1	0	0	0	0	1	0	0	0	14450	652	23	1	1443	1	SLC18A1	8	20036930	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2226361	20036930	126327092	815	62764											
HR	55806	broad.mit.edu	37	chr8	21977305	21977305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctggggctccagtggaCgcagggcaaggcccggtggg	7	4	20	10	2	0	1	0	0	0	1	1	2	1	2	2	7	1	4	2	7	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:21977305C>T	uc003xas.2	-	14	3610	c.2945G>A	c.(2944-2946)CGT>CAT	p.R982H	HR_uc003xat.2_Missense_Mutation_p.R982H	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	982	JmjC.						DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		CTCCAGTGGACGCAGGGCAAG	0.627													18	44					0	0	1	0	0		T	21977305	T	T	21977305	3	4	103	1	0	0	0	0	1	0	0	0	7363	536	19	1	648	1	HR	8	21977305	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1940375	21977305	124386717	816	62765											
LGI3	203190	broad.mit.edu	37	chr8	22006340	22006340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctaggtcgttaggcttgCgcacgcgctgcgggtcaatg	5	11	14	11	5	2	0	1	0	1	0	3	0	2	0	0	3	2	4	0	3	3	4	rs143158388	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:22006340C>T	uc003xav.2	-	8	1269	c.980G>A	c.(979-981)CGC>CAC	p.R327H	LGI3_uc010ltu.2_Missense_Mutation_p.R303H	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	327	EAR 3.				exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		GTTAGGCTTGCGCACGCGCTG	0.617													16	33					0	0	1	0	0		T	22006340	T	T	22006340	3	4	103	1	0	0	0	0	1	0	0	0	8769	768	27	1	670	1	LGI3	8	22006340	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	29035	22006340	124357682	817	62766											
PHYHIP	9796	broad.mit.edu	37	chr8	22079224	22079224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgctgggattgaagaggCgctgagctgggatctggaag	8	9	19	5	1	1	3	0	2	1	1	1	6	1	6	0	5	2	3	0	5	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:22079224C>T	uc003xbk.3	-	6	1329	c.635G>A	c.(634-636)CGC>CAC	p.R212H	PHYHIP_uc003xbj.3_Missense_Mutation_p.R212H	NM_001099335	NP_001092805	Q92561	PHYIP_HUMAN	phytanoyl-CoA 2-hydroxylase interacting protein	212											0				Colorectal(74;0.0152)|COAD - Colon adenocarcinoma(73;0.0629)		ATTGAAGAGGCGCTGAGCTGG	0.627													4	29					0	0	1	0	0		T	22079224	T	T	22079224	3	4	103	1	0	0	0	0	1	0	0	0	11885	768	27	1	361	1	PHYHIP	8	22079224	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	72884	22079224	124284798	818	62767											
PIWIL2	55124	broad.mit.edu	37	chr8	22175773	22175773	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatgcctcgtgggctccttAaaaaagttttatgaggtgag	10	13	11	7	1	0	2	0	2	0	0	2	2	1	2	2	2	1	2	2	2	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:22175773A>T	uc003xbn.2	+	20	2536	c.2388A>T	c.(2386-2388)TTA>TTT	p.L796F	PIWIL2_uc011kzf.1_Missense_Mutation_p.L796F|PIWIL2_uc010ltv.2_Missense_Mutation_p.L796F	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2	796	Piwi.				DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		TGGGCTCCTTAAAAAAGTTTT	0.378													5	90					0	0	1	0	0		T	22175773	T	T	22175773	3	4	103	1	0	0	0	0	1	0	0	0	11977	359	13	5	2462	5	PIWIL2	8	22175773	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	96549	22175773	124188249	819	62768											
SORBS3	10174	broad.mit.edu	37	chr8	22424653	22424653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctggagggagagcaccacGgccgcctgggcatcttccct	6	6	15	14	2	1	1	0	0	1	1	2	3	2	2	4	5	1	3	4	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:22424653G>A	uc003xbv.2	+	16	1610	c.1270G>A	c.(1270-1272)GGC>AGC	p.G424S	SORBS3_uc003xbw.3_Missense_Mutation_p.G82S	NM_005775	NP_005766	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3 isoform 1	424	SH3 1.|Binds to vinculin.				muscle contraction|positive regulation of stress fiber assembly	cytoskeleton|cytosol|nucleus	protein binding|structural constituent of cytoskeleton|vinculin binding				0		Prostate(55;0.0421)|Breast(100;0.102)		BRCA - Breast invasive adenocarcinoma(99;0.00566)|Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		AGAGCACCACGGCCGCCTGGG	0.602													35	77					0	0	1	0	0		A	22424653	A	A	22424653	3	1	103	1	0	0	0	0	1	0	0	0	14954	1116	39	1	1328	1	SORBS3	8	22424653	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	248880	22424653	123939369	820	62769											
SORBS3	10174	broad.mit.edu	37	chr8	22428603	22428603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcctgaccgctgccgccCgctcagcccgtcaccccagc	4	4	9	24	5	2	1	2	1	0	0	2	1	2	1	8	0	3	2	8	0	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:22428603C>T	uc003xbv.2	+	18	1952	c.1612C>T	c.(1612-1614)CGC>TGC	p.R538C	SORBS3_uc003xbw.3_Missense_Mutation_p.R196C	NM_005775	NP_005766	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3 isoform 1	538					muscle contraction|positive regulation of stress fiber assembly	cytoskeleton|cytosol|nucleus	protein binding|structural constituent of cytoskeleton|vinculin binding				0		Prostate(55;0.0421)|Breast(100;0.102)		BRCA - Breast invasive adenocarcinoma(99;0.00566)|Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		CGCTGCCGCCCGCTCAGCCCG	0.706													23	54					0	0	1	0	0		T	22428603	T	T	22428603	3	4	103	1	0	0	0	0	1	0	0	0	14954	652	23	1	1678	1	SORBS3	8	22428603	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3950	22428603	123935419	821	62770											
EGR3	1960	broad.mit.edu	37	chr8	22548121	22548121	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttgcgctcgtcgctgcgCgcaaacttgcgcccgcagaa	6	7	12	16	8	0	1	0	0	0	1	2	1	0	1	1	0	4	5	1	0	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:22548121C>T	uc003xcm.1	-	2	1387	c.1029G>A	c.(1027-1029)GCG>GCA	p.A343A	EGR3_uc011kzn.1_Silent_p.A305A|EGR3_uc011kzo.1_Silent_p.A289A	NM_004430	NP_004421	Q06889	EGR3_HUMAN	early growth response 3	343	C2H2-type 3.				circadian rhythm|muscle organ development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Prostate(55;0.0421)|Breast(100;0.102)		Colorectal(74;0.0145)|BRCA - Breast invasive adenocarcinoma(99;0.053)|COAD - Colon adenocarcinoma(73;0.0608)		CGTCGCTGCGCGCAAACTTGC	0.652													35	105					0	0	1	0	0		T	22548121	T	T	22548121	2	4	103	1	0	0	0	0	0	0	0	1	4979	755	27	1		1	EGR3	8	22548121	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	119518	22548121	123815901	822	62771											
RHOBTB2	23221	broad.mit.edu	37	chr8	22864803	22864803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagccagctttgacgtgtgcGagagcgtggatgaggctggg	7	8	18	8	3	0	3	0	2	0	1	0	5	0	4	1	3	4	2	1	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:22864803G>A	uc003xcq.2	+	5	1582	c.1045G>A	c.(1045-1047)GAG>AAG	p.E349K	RHOBTB2_uc003xcp.2_Missense_Mutation_p.E371K|RHOBTB2_uc011kzp.1_Missense_Mutation_p.E356K|uc003xcr.2_RNA	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	349	BTB 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		TGACGTGTGCGAGAGCGTGGA	0.567													22	58					0	0	1	0	0		A	22864803	A	A	22864803	3	1	103	1	0	0	0	0	1	0	0	0	13359	1059	37	1	1144	1	RHOBTB2	8	22864803	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	316682	22864803	123499219	823	62772											
CHMP7	91782	broad.mit.edu	37	chr8	23106740	23106740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtcgaggggagctgcagcGggagtcagacttcatggcca	9	6	16	10	2	2	1	2	0	0	1	3	4	2	3	1	4	3	2	1	4	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:23106740G>A	uc003xdc.2	+	3	965	c.317G>A	c.(316-318)CGG>CAG	p.R106Q	CHMP7_uc011kzs.1_Intron|CHMP7_uc003xdd.2_5'UTR	NM_152272	NP_689485	Q8WUX9	CHMP7_HUMAN	CHMP family, member 7	106					cellular membrane organization|late endosome to vacuole transport	cytosol|ESCRT III complex	protein transporter activity				0		Prostate(55;0.0513)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		GAGCTGCAGCGGGAGTCAGAC	0.532													29	81					0	0	1	0	0		A	23106740	A	A	23106740	3	1	103	1	0	0	0	0	1	0	0	0	3364	1116	39	1	323	1	CHMP7	8	23106740	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	241937	23106740	123257282	824	62773											
LOXL2	4017	broad.mit.edu	37	chr8	23159567	23159567	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtagtctccagggggcacGtcagtgatgtcaacccactg	9	8	13	11	1	3	1	2	1	1	0	4	1	3	1	2	3	1	2	2	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:23159567G>A	uc003xdh.1	-	12	2445	c.2106C>T	c.(2104-2106)GAC>GAT	p.D702D	LOXL2_uc010lty.1_Silent_p.D241D	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	702	Lysyl-oxidase like.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		CAGGGGGCACGTCAGTGATGT	0.612													27	57					0	0	1	0	0		A	23159567	A	A	23159567	2	1	103	1	0	0	0	0	0	0	0	1	8918	1136	40	1		1	LOXL2	8	23159567	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	52827	23159567	123204455	825	62774											
LOXL2	4017	broad.mit.edu	37	chr8	23185998	23185998	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccacttgtcgtcgcagacGgtcccccattctccattttt	5	14	6	16	3	1	1	0	0	1	1	6	1	3	1	4	1	0	1	4	1	0	4	rs146789742		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:23185998G>A	uc003xdh.1	-	6	1386	c.1047C>T	c.(1045-1047)ACC>ACT	p.T349T		NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	349	SRCR 3.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		CGTCGCAGACGGTCCCCCATT	0.632													21	85					0	0	1	0	0		A	23185998	A	A	23185998	2	1	103	1	0	0	0	0	0	0	0	1	8918	1103	39	1		1	LOXL2	8	23185998	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	26431	23185998	123178024	826	62775											
PPP2R2A	5520	broad.mit.edu	37	chr8	26218507	26218507	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtgccagtctttaggccTatggatctaatggttgaggc	8	12	13	8	0	2	1	0	1	2	0	2	2	2	2	2	5	1	1	2	5	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:26218507T>C	uc003xeu.2	+	6	779	c.477T>C	c.(475-477)CCT>CCC	p.P159P	PPP2R2A_uc003xek.2_Intron|PPP2R2A_uc011laf.1_Silent_p.P169P	NM_002717	NP_002708	P63151	2ABA_HUMAN	alpha isoform of regulatory subunit B55, protein	159					protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)		TCTTTAGGCCTATGGATCTAA	0.328													27	97					0	0	1	0	0		C	26218507	C	C	26218507	2	2	103	1	0	0	0	0	0	0	0	1	12406	1509	53	3		3	PPP2R2A	8	26218507	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	3032509	26218507	120145515	827	62776											
PTK2B	2185	broad.mit.edu	37	chr8	27289871	27289871	+	Frame_Shift_Del	DEL	C	-	-																															tcagctgggcattgaaggtgCcccccaggtgagtgtctctg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:27289871delC	uc003xfn.1	+	15	1788	c.980delC	c.(979-981)GCCfs	p.A327fs	PTK2B_uc003xfo.1_Frame_Shift_Del_p.A327fs|PTK2B_uc003xfp.1_Frame_Shift_Del_p.A327fs|PTK2B_uc003xfq.1_Frame_Shift_Del_p.A327fs|PTK2B_uc010luq.1_Frame_Shift_Del_p.A98fs|PTK2B_uc003xfr.1_Frame_Shift_Del_p.A73fs	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	327	FERM.				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		ATTGAAGGTGCCCCCCAGGTG	0.607													18	41	---	---	---	---						.	-	27289871	-	-	27289871	7	5	103	1	0	1	0	1	0	0	0	0	12786	739	26	0	1014	0	PTK2B	8	27289871	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	1071364	27289871	119074151	828	62777											
PTK2B	2185	broad.mit.edu	37	chr8	27301752	27301752	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctaagtacagaccccctccGcaaaccaacctcctggctcc	10	6	5	20	1	0	1	0	0	0	1	3	1	3	1	8	1	3	3	8	1	4	2	rs144972819	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:27301752G>A	uc003xfn.1	+	28	2986	c.2178G>A	c.(2176-2178)CCG>CCA	p.P726P	PTK2B_uc003xfo.1_Silent_p.P726P|PTK2B_uc003xfp.1_Silent_p.P726P|PTK2B_uc003xfq.1_Silent_p.P726P|PTK2B_uc003xfr.1_Silent_p.P472P	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	726	Pro-rich.				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		GACCCCCTCCGCAAACCAACC	0.537													24	59					0	0	1	0	0		A	27301752	A	A	27301752	2	1	103	1	0	0	0	0	0	0	0	1	12786	1074	38	1		1	PTK2B	8	27301752	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	11881	27301752	119062270	829	62778											
CLU	1191	broad.mit.edu	37	chr8	27462724	27462724	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtctatgatgctggacgcGcggctgaagtggtcctgcat	6	11	14	10	4	1	2	0	2	1	0	3	3	2	3	1	3	2	3	1	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:27462724G>A	uc003xfw.1	-	4	604	c.546C>T	c.(544-546)CGC>CGT	p.R182R	CLU_uc010lux.1_Silent_p.R47R|CLU_uc003xfx.1_Silent_p.R182R|CLU_uc003xfy.1_Silent_p.R193R|CLU_uc003xfz.1_Silent_p.R234R	NM_203339	NP_976084	P10909	CLUS_HUMAN	clusterin isoform 2	182					chaperone-mediated protein folding|complement activation, classical pathway|innate immune response|lipid metabolic process|negative regulation of apoptosis|negative regulation of protein homooligomerization|platelet activation|platelet degranulation|positive regulation of NF-kappaB transcription factor activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|response to misfolded protein|response to virus|reverse cholesterol transport	chromaffin granule|cytosol|endoplasmic reticulum|microsome|mitochondrial membrane|nucleus|perinuclear region of cytoplasm|platelet alpha granule lumen|spherical high-density lipoprotein particle	misfolded protein binding|ubiquitin protein ligase binding			ovary(2)	2		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|Colorectal(74;0.132)		TGCTGGACGCGCGGCTGAAGT	0.607													13	60					0	0	1	0	0		A	27462724	A	A	27462724	2	1	103	1	0	0	0	0	0	0	0	1	3571	1074	38	1		1	CLU	8	27462724	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	160972	27462724	118901298	830	62779											
FZD3	7976	broad.mit.edu	37	chr8	28409242	28409242	+	Frame_Shift_Del	DEL	T	-	-																															acatgctttgaatgggccagTttttttcatggtcgtaggaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:28409242delT	uc003xgx.2	+	6	2005	c.1527delT	c.(1525-1527)AGTfs	p.S509fs	FZD3_uc010lvb.2_Frame_Shift_Del_p.S509fs	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	509	Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		AATGGGCCAGTTTTTTTCATG	0.353													46	94	---	---	---	---						.	-	28409242	-	-	28409242	7	5	103	1	0	1	0	1	0	0	0	0	6145	1722	60	0	1541	0	FZD3	8	28409242	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	946518	28409242	117954780	831	62780											
UNC5D	137970	broad.mit.edu	37	chr8	35583896	35583897	+	Frame_Shift_Ins	INS	-	C	C																															agaatcattccaggacttttINSccccatggaaacaaccacag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:35583896_35583897insC	uc003xjr.1	+	10	1858_1859	c.1530_1531insC	c.(1528-1533)TTTCCCfs	p.F510fs	UNC5D_uc003xjs.1_Frame_Shift_Ins_p.F505fs|UNC5D_uc003xju.1_Frame_Shift_Ins_p.F86fs|UNC5D_uc003xjt.1_Frame_Shift_Ins_p.F268fs	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	510_511	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CCAGGACTTTTCCCCATGGAAA	0.47													35	79	---	---	---	---						.	C	35583897	C	C	35583896	7	5	103	1	0	1	1	0	0	0	0	0	17021	1780	62	0	1568	0	UNC5D	8	35583896	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	7174654	35583896	110780126	832	62781											
KCNU1	157855	broad.mit.edu	37	chr8	36691163	36691163	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgcaatgaagtgggaggatCtgaggcgagttgcggtaaga	11	8	17	5	2	1	3	0	2	1	1	1	6	1	5	0	4	2	3	0	4	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:36691163C>G	uc010lvw.2	+	11	1285	c.1198C>G	c.(1198-1200)CTG>GTG	p.L400V	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	400	RCK N-terminal.|Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		GTGGGAGGATCTGAGGCGAGT	0.373													7	49					0	0	1	0	0		G	36691163	G	G	36691163	3	3	103	1	0	0	0	0	1	0	0	0	8109	912	32	5	1240	5	KCNU1	8	36691163	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1107267	36691163	109672859	833	62782											
KCNU1	157855	broad.mit.edu	37	chr8	36793082	36793082	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagctgctgccttcagatCttgtgttttgtgccataccc	6	15	8	12	0	3	1	2	0	1	1	3	1	3	1	3	0	5	3	3	0	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:36793082C>A	uc010lvw.2	+	27	3181	c.3094C>A	c.(3094-3096)CTT>ATT	p.L1032I		NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	1032	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		GCCTTCAGATCTTGTGTTTTG	0.428													48	99					9.52127e-25	1.02502e-24	1	1	0		A	36793082	A	A	36793082	3	1	103	1	0	0	0	0	1	0	0	0	8109	913	32	5	3200	5	KCNU1	8	36793082	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	101919	36793082	109570940	834	62783											
BRF2	55290	broad.mit.edu	37	chr8	37702233	37702233	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccggccgcttcccctggggTaaacctaaggaattatttcc	8	10	10	13	2	0	0	0	0	0	0	2	1	2	1	6	4	1	2	6	4	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:37702233T>C	uc003xkk.2	-	4	1145	c.1035A>G	c.(1033-1035)TTA>TTG	p.L345L		NM_018310	NP_060780	Q9HAW0	BRF2_HUMAN	RNA polymerase III transcription initiation	345					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter|transcription initiation, DNA-dependent	nucleoplasm	protein binding|zinc ion binding				0		Lung NSC(58;0.118)|all_lung(54;0.195)	BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;1.81e-10)			TCCCCTGGGGTAAACCTAAGG	0.612													19	38					0	0	1	0	0		C	37702233	C	C	37702233	2	2	103	1	0	0	0	0	0	0	0	1	1514	1635	57	3		3	BRF2	8	37702233	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	909151	37702233	108661789	835	62784											
BRF2	55290	broad.mit.edu	37	chr8	37702549	37702549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggaacatgaaagccgatctGcaggctgcagcgactgccaa	12	5	13	11	2	1	1	0	1	1	0	1	4	1	2	2	2	6	3	2	2	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:37702549G>A	uc003xkk.2	-	4	829	c.719C>T	c.(718-720)GCA>GTA	p.A240V		NM_018310	NP_060780	Q9HAW0	BRF2_HUMAN	RNA polymerase III transcription initiation	240	2.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter|transcription initiation, DNA-dependent	nucleoplasm	protein binding|zinc ion binding				0		Lung NSC(58;0.118)|all_lung(54;0.195)	BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;1.81e-10)			AAGCCGATCTGCAGGCTGCAG	0.602													15	31					0	0	1	0	0		A	37702549	A	A	37702549	3	1	103	1	0	0	0	0	1	0	0	0	1514	1319	46	2	544	2	BRF2	8	37702549	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	316	37702549	108661473	836	62785											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37729779	37729779	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggctctccgtcagacgcGtttccagcaacagaccatgc	9	7	11	14	3	2	2	1	0	1	2	4	3	3	3	3	2	3	3	3	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:37729779G>A	uc003xkm.1	-	4	2585	c.2541C>T	c.(2539-2541)AAC>AAT	p.N847N	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Silent_p.N176N|RAB11FIP1_uc003xko.1_Silent_p.N176N|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	847					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			CGTCAGACGCGTTTCCAGCAA	0.632													27	78					0	0	1	0	0		A	37729779	A	A	37729779	2	1	103	1	0	0	0	0	0	0	0	1	12918	1136	40	1		1	RAB11FIP1	8	37729779	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	27230	37729779	108634243	837	62786											
ANK1	286	broad.mit.edu	37	chr8	41519420	41519420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctcctgggcggcatcggCgctggacaagtctatctgtc	5	10	14	12	3	2	0	0	0	2	0	5	1	3	1	1	4	1	3	1	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:41519420C>T	uc003xok.2	-	41	5602	c.5518G>A	c.(5518-5520)GCC>ACC	p.A1840T	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Missense_Mutation_p.A994T|ANK1_uc003xoi.2_Missense_Mutation_p.A1840T|ANK1_uc003xoj.2_Missense_Mutation_p.A1840T|ANK1_uc003xol.2_Missense_Mutation_p.A1678T|ANK1_uc003xom.2_Missense_Mutation_p.A1881T|ANK1_uc011lcl.1_Missense_Mutation_p.A115T|ANK1_uc003xod.2_Missense_Mutation_p.A115T|ANK1_uc003xoc.2_Missense_Mutation_p.A115T|ANK1_uc003xof.2_Intron|MIR486_hsa-mir-486|MI0002470_5'Flank	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1840	55 kDa regulatory domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			GCGGCATCGGCGCTGGACAAG	0.473													22	74					0	0	1	0	0		T	41519420	T	T	41519420	3	4	103	1	0	0	0	0	1	0	0	0	620	768	27	1	238	1	ANK1	8	41519420	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3789641	41519420	104844602	838	62787											
MYST3	7994	broad.mit.edu	37	chr8	41792210	41792210	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaactggcatgatttcccgActcaacttaaatcctggttt	11	13	7	10	1	1	1	1	1	0	0	3	3	3	1	2	2	2	2	2	2	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:41792210A>T	uc010lxb.2	-	18	4072	c.3528T>A	c.(3526-3528)AGT>AGA	p.S1176R	MYST3_uc010lxc.2_Missense_Mutation_p.S1176R|MYST3_uc003xon.3_Missense_Mutation_p.S1176R	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1176					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			TGATTTCCCGACTCAACTTAA	0.463													58	126					0	0	1	0	0		T	41792210	T	T	41792210	3	4	103	1	0	0	0	0	1	0	0	0	10122	272	10	5	2490	5	MYST3	8	41792210	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	272790	41792210	104571812	839	62788											
MYST3	7994	broad.mit.edu	37	chr8	41906068	41906068	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaatcgtaactgctggtgaAagccagaggcagcactgcct	11	7	11	12	1	0	2	0	1	0	1	1	2	0	2	3	2	5	4	3	2	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:41906068A>C	uc010lxb.2	-	3	972	c.428T>G	c.(427-429)TTT>TGT	p.F143C	MYST3_uc010lxc.2_Missense_Mutation_p.F143C|MYST3_uc003xon.3_Missense_Mutation_p.F143C|MYST3_uc010lxd.2_Missense_Mutation_p.F143C	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	143	H15.|Required for activation of RUNX1-1.|Required for nuclear localization.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			CTGCTGGTGAAAGCCAGAGGC	0.478													25	39					0	0	1	0	0		C	41906068	C	C	41906068	3	2	103	1	0	0	0	0	1	0	0	0	10122	14	1	5	5650	5	MYST3	8	41906068	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	113858	41906068	104457954	840	62789											
SLC20A2	6575	broad.mit.edu	37	chr8	42294547	42294547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaaggacccgaaacaggCggtgaggacctgcaggaaat	15	3	14	9	2	0	1	0	1	0	0	0	5	0	4	2	5	3	2	2	5	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:42294547C>T	uc010lxl.2	-	8	2177	c.1483G>A	c.(1483-1485)GCC>ACC	p.A495T	SLC20A2_uc010lxm.2_Missense_Mutation_p.A495T|SLC20A2_uc003xpe.2_Missense_Mutation_p.A495T|SLC20A2_uc011lcu.1_Missense_Mutation_p.A297T	NM_006749	NP_006740	Q08357	S20A2_HUMAN	solute carrier family 20, member 2	495	Helical; (Potential).				interspecies interaction between organisms	integral to plasma membrane|membrane fraction	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			ovary(2)	2	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;5.73e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00419)|Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			CCGAAACAGGCGGTGAGGACC	0.612													13	54					0	0	1	0	0		T	42294547	T	T	42294547	3	4	103	1	0	0	0	0	1	0	0	0	14464	768	27	1	491	1	SLC20A2	8	42294547	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	388479	42294547	104069475	841	62790											
RNF170	81790	broad.mit.edu	37	chr8	42716955	42716955	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcaatctcagaacatccTgagactgatcatcttcacca	13	10	6	12	0	4	3	3	2	2	2	6	5	5	3	2	0	2	1	2	0	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:42716955T>C	uc003xpo.2	-	6	917	c.440A>G	c.(439-441)CAG>CGG	p.Q147R	RNF170_uc011lcx.1_Intron|RNF170_uc010lxp.2_Missense_Mutation_p.Q63R|RNF170_uc003xpm.2_Missense_Mutation_p.Q147R|RNF170_uc003xpp.2_Missense_Mutation_p.Q51R|RNF170_uc003xpn.2_Missense_Mutation_p.Q51R|RNF170_uc003xpq.3_Missense_Mutation_p.Q147R	NM_001160223	NP_001153695	Q96K19	RN170_HUMAN	ring finger protein 170 isoform a	147						integral to membrane	zinc ion binding				0	all_lung(13;1.25e-11)|Lung NSC(13;3.55e-10)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00645)|Lung NSC(58;0.0176)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			CAGAACATCCTGAGACTGATC	0.338													26	52					0	0	1	0	0		C	42716955	C	C	42716955	3	2	103	1	0	0	0	0	1	0	0	0	13487	1580	55	3	555	3	RNF170	8	42716955	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	422408	42716955	103647067	842	62791											
PRKDC	5591	broad.mit.edu	37	chr8	48776075	48776075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaggcgagaatacatcaCgtctagaatcttatagtagc	14	9	11	7	2	3	2	1	0	2	2	3	4	3	3	0	2	2	1	0	2	8	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:48776075C>T	uc003xqi.2	-	43	5692	c.5635G>A	c.(5635-5637)GTG>ATG	p.V1879M	PRKDC_uc003xqj.2_Missense_Mutation_p.V1879M|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1879					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				GAATACATCACGTCTAGAATC	0.333								NHEJ					45	121					0	0	1	0	0		T	48776075	T	T	48776075	3	4	103	1	0	0	0	0	1	0	0	0	12543	536	19	1	6931	1	PRKDC	8	48776075	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	6059120	48776075	97587947	843	62792											
PXDNL	137902	broad.mit.edu	37	chr8	52321350	52321350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctcctgctcctgtcgcGcgcactcggtgggtgggcct	1	10	15	15	4	1	0	0	0	1	0	5	0	2	0	3	4	1	3	3	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:52321350G>A	uc003xqu.3	-	17	2935	c.2834C>T	c.(2833-2835)GCG>GTG	p.A945V	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	945					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CTCCTGTCGCGCGCACTCGGT	0.652													4	16					0	0	1	0	0		A	52321350	A	A	52321350	3	1	103	1	0	0	0	0	1	0	0	0	12873	1087	38	1	1585	1	PXDNL	8	52321350	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3545275	52321350	94042672	844	62793											
FAM110B	90362	broad.mit.edu	37	chr8	59059293	59059293	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccctgaaggtctaccccacGcagggccgcaggagcccgca	8	4	12	17	3	1	1	0	1	1	0	2	2	2	2	5	3	2	3	5	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:59059293G>A	uc003xtj.1	+	5	1384	c.504G>A	c.(502-504)ACG>ACA	p.T168T		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	168						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				TCTACCCCACGCAGGGCCGCA	0.692													14	25					0	0	1	0	0		A	59059293	A	A	59059293	2	1	103	1	0	0	0	0	0	0	0	1	5408	1074	38	1		1	FAM110B	8	59059293	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6737943	59059293	87304729	845	62794											
CHD7	55636	broad.mit.edu	37	chr8	61734586	61734586	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactatatttgaaacaggagCgacctcctgctgatgattgg	11	12	10	8	1	0	3	0	3	0	0	1	5	1	4	2	2	4	1	2	2	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:61734586C>T	uc003xue.2	+	11	3316	c.2839C>T	c.(2839-2841)CGA>TGA	p.R947*	CHD7_uc003xuf.2_Nonsense_Mutation_p.R60*	NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	947	Chromo 2.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GAAACAGGAGCGACCTCCTGC	0.403													9	42					0	0	1	0	0		T	61734586	T	T	61734586	4	4	103	1	0	0	0	0	0	1	0	0	3333	760	27	1	2877	1	CHD7	8	61734586	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2675293	61734586	84629436	846	62795											
CHD7	55636	broad.mit.edu	37	chr8	61769311	61769311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctccaagcaggcctttcgcGcacacccacaaggcatctcc	9	6	8	18	2	1	0	0	0	1	0	4	0	2	0	4	2	1	4	4	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:61769311G>A	uc003xue.2	+	34	7949	c.7472G>A	c.(7471-7473)CGC>CAC	p.R2491H		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2491					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GGCCTTTCGCGCACACCCACA	0.488													52	140					0	0	1	0	0		A	61769311	A	A	61769311	3	1	103	1	0	0	0	0	1	0	0	0	3333	1087	38	1	7602	1	CHD7	8	61769311	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	34725	61769311	84594711	847	62796											
YTHDF3	253943	broad.mit.edu	37	chr8	64098806	64098806	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagcgtggtccacagcTggagaccagcctatgccata	11	6	12	12	1	0	1	0	0	0	1	1	3	1	1	4	2	5	2	4	2	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:64098806T>C	uc003xuy.2	+	5	553	c.237T>C	c.(235-237)GCT>GCC	p.A79A	YTHDF3_uc010lys.2_Silent_p.A23A|YTHDF3_uc003xuz.2_Silent_p.A23A|YTHDF3_uc003xva.2_Silent_p.A23A|YTHDF3_uc011len.1_Silent_p.A23A	NM_152758	NP_689971	Q7Z739	YTHD3_HUMAN	YTH domain family, member 3	79											0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)			GGTCCACAGCTGGAGACCAGC	0.443													13	38					0	0	1	0	0		C	64098806	C	C	64098806	2	2	103	1	0	0	0	0	0	0	0	1	17526	1580	55	3		3	YTHDF3	8	64098806	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2329495	64098806	82265216	848	62797											
BHLHE22	27319	broad.mit.edu	37	chr8	65493427	65493427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caagagcctgagcgcctccaCctccaagcgcttggaagcgg	9	5	12	15	3	0	2	0	1	0	1	2	3	2	3	5	2	4	1	5	2	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:65493427C>T	uc003xvi.2	+	1	614	c.80C>T	c.(79-81)ACC>ATC	p.T27I	LOC401463_uc003xvh.2_Intron	NM_152414	NP_689627	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix domain containing, class	27					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						AGCGCCTCCACCTCCAAGCGC	0.741													3	10					0	0	1	0	0		T	65493427	T	T	65493427	3	4	103	1	0	0	0	0	1	0	0	0	1422	507	18	4	82	4	BHLHE22	8	65493427	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1394621	65493427	80870595	849	62798											
BHLHE22	27319	broad.mit.edu	37	chr8	65494354	65494354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagctgctgccctgcaccCggcgctcggcgcctacgagc	5	5	13	18	5	0	0	0	0	0	0	1	1	0	0	3	2	7	5	3	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:65494354C>T	uc003xvi.2	+	1	1541	c.1007C>T	c.(1006-1008)CCG>CTG	p.P336L	LOC401463_uc003xvh.2_5'UTR	NM_152414	NP_689627	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix domain containing, class	336	Ala-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						GCCCTGCACCCGGCGCTCGGC	0.721													6	7					0	0	1	0	0		T	65494354	T	T	65494354	3	4	103	1	0	0	0	0	1	0	0	0	1422	652	23	1	1009	1	BHLHE22	8	65494354	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	927	65494354	80869668	850	62799											
DNAJC5B	85479	broad.mit.edu	37	chr8	66989096	66989096	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctacttcatgctgtcgagCtggtgggcaaaggtgaaact	10	10	12	9	1	1	1	1	1	0	0	2	2	1	1	1	3	4	3	1	3	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:66989096C>A	uc003xvs.1	+	4	612	c.321C>A	c.(319-321)AGC>AGA	p.S107R	DNAJC5B_uc003xvt.1_RNA	NM_033105	NP_149096	Q9UF47	DNJ5B_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	107					protein folding	membrane	heat shock protein binding|unfolded protein binding				0		Lung NSC(129;0.114)|all_lung(136;0.188)	Epithelial(68;0.0213)|all cancers(69;0.0839)|BRCA - Breast invasive adenocarcinoma(89;0.0886)|OV - Ovarian serous cystadenocarcinoma(28;0.112)			TGCTGTCGAGCTGGTGGGCAA	0.433													31	81					5.45727e-16	5.79905e-16	1	1	0		A	66989096	A	A	66989096	3	1	103	1	0	0	0	0	1	0	0	0	4657	796	28	5	327	5	DNAJC5B	8	66989096	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1494742	66989096	79374926	851	62800											
PRDM14	63978	broad.mit.edu	37	chr8	70981995	70981995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtagtgtccataggacGggaaaggcgtgtagtacgcg	9	10	15	7	4	1	0	0	0	1	0	2	2	2	2	1	3	1	3	1	3	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:70981995G>A	uc003xym.2	-	2	303	c.101C>T	c.(100-102)CCG>CTG	p.P34L		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	34					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			TCCATAGGACGGGAAAGGCGT	0.652													3	23					0	0	1	0	0		A	70981995	A	A	70981995	3	1	103	1	0	0	0	0	1	0	0	0	12477	1116	39	1	1642	1	PRDM14	8	70981995	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3992899	70981995	75382027	852	62801											
NCOA2	10499	broad.mit.edu	37	chr8	71074996	71074996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagattctccttcatgctgcGcatggaacttctgaatacac	10	12	7	12	1	3	2	1	1	2	1	4	3	3	3	1	1	4	2	1	1	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:71074996G>A	uc003xyn.1	-	9	1088	c.926C>T	c.(925-927)GCG>GTG	p.A309V		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	309					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TTCATGCTGCGCATGGAACTT	0.448			T	RUNXBP2	AML								42	108					0	0	1	0	0		A	71074996	A	A	71074996	3	1	103	1	0	0	0	0	1	0	0	0	10248	1087	38	1	3528	1	NCOA2	8	71074996	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	93001	71074996	75289026	853	62802											
TRAM1	23471	broad.mit.edu	37	chr8	71495950	71495950	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgattttctgctcttgcaagGccaaaaccaacagtcagtac	12	11	7	11	0	3	1	1	1	2	0	3	1	3	1	2	1	5	3	2	1	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:71495950G>A	uc003xyo.1	-	9	995	c.825C>T	c.(823-825)GGC>GGT	p.G275G	TRAM1_uc011lfc.1_Silent_p.G244G	NM_014294	NP_055109	Q15629	TRAM1_HUMAN	translocation associated membrane protein 1	275	Lumenal (Potential).|TLC.				cotranslational protein targeting to membrane|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity			ovary(1)	1			Epithelial(68;0.00679)|all cancers(69;0.0324)|OV - Ovarian serous cystadenocarcinoma(28;0.0509)			CTCTTGCAAGGCCAAAACCAA	0.368													39	139					0	0	1	0	0		A	71495950	A	A	71495950	2	1	103	1	0	0	0	0	0	0	0	1	16477	1190	42	2		2	TRAM1	8	71495950	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	420954	71495950	74868072	854	62803											
EYA1	2138	broad.mit.edu	37	chr8	72127878	72127878	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgagcgagagtgctttcagGgccagtgtcaaccaggagtc	10	8	14	9	1	2	2	2	1	0	1	3	4	2	3	2	2	3	1	2	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:72127878G>A	uc003xys.3	-	14	1733	c.1446C>T	c.(1444-1446)GCC>GCT	p.A482A	EYA1_uc003xyr.3_Silent_p.A447A|EYA1_uc003xyt.3_Silent_p.A449A|EYA1_uc010lzf.2_Silent_p.A409A|EYA1_uc003xyu.2_Silent_p.A482A|EYA1_uc011lfe.1_Silent_p.A476A|EYA1_uc003xyv.2_Silent_p.A360A	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	482					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			GTGCTTTCAGGGCCAGTGTCA	0.527													27	83					0	0	1	0	0		A	72127878	A	A	72127878	2	1	103	1	0	0	0	0	0	0	0	1	5336	1219	43	4		4	EYA1	8	72127878	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	631928	72127878	74236144	855	62804											
TRPA1	8989	broad.mit.edu	37	chr8	72964968	72964968	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcgcaacggctttggcgtgGccttcccttgcagcaaagtg	7	9	13	12	3	0	0	0	0	0	0	1	0	1	0	2	3	4	4	2	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:72964968G>A	uc003xza.2	-	14	1852	c.1677C>T	c.(1675-1677)GGC>GGT	p.G559G	uc011lff.1_RNA|uc003xyy.2_RNA	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	559	Cytoplasmic (Potential).|ANK 14.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	CTTTGGCGTGGCCTTCCCTTG	0.463													33	104					0	0	1	0	0		A	72964968	A	A	72964968	2	1	103	1	0	0	0	0	0	0	0	1	16603	1190	42	2		2	TRPA1	8	72964968	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	837090	72964968	73399054	856	62805											
ZFHX4	79776	broad.mit.edu	37	chr8	77767850	77767850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccggatgacaacgccgaccGcagcgaaacgtccagcatag	12	3	11	15	6	0	1	0	1	0	0	1	4	1	2	4	1	4	2	4	1	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:77767850G>A	uc003yav.2	+	10	8945	c.8558G>A	c.(8557-8559)CGC>CAC	p.R2853H	ZFHX4_uc003yau.1_Missense_Mutation_p.R2898H|ZFHX4_uc003yaw.1_Missense_Mutation_p.R2853H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2853						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AACGCCGACCGCAGCGAAACG	0.512										HNSCC(33;0.089)			18	53					0	0	1	0	0		A	77767850	A	A	77767850	3	1	103	1	0	0	0	0	1	0	0	0	17660	1087	38	1	8727	1	ZFHX4	8	77767850	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4802882	77767850	68596172	857	62806											
RALYL	138046	broad.mit.edu	37	chr8	85799864	85799864	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagaagaagcaattggaagaGagtctagtgctgatccaaga	16	7	12	6	0	1	5	0	1	1	4	2	7	2	6	1	1	2	2	1	1	6	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:85799864G>C	uc003ycq.3	+	9	1127	c.711G>C	c.(709-711)GAG>GAC	p.E237D	RALYL_uc003ycr.3_Missense_Mutation_p.E237D|RALYL_uc003ycs.3_Missense_Mutation_p.E237D|RALYL_uc010lzy.2_Missense_Mutation_p.E226D|RALYL_uc003yct.3_Missense_Mutation_p.E250D|RALYL_uc003ycu.3_Missense_Mutation_p.E164D|RALYL_uc003ycv.3_Intron	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2	237	Potential.						identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						AATTGGAAGAGAGTCTAGTGC	0.483													34	81					0	0	1	0	0		C	85799864	C	C	85799864	3	2	103	1	0	0	0	0	1	0	0	0	13045	933	33	5	780	5	RALYL	8	85799864	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	8032014	85799864	60564158	858	62807											
LRRCC1	85444	broad.mit.edu	37	chr8	86021867	86021867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagattcaactcttcatgccGtcaatcttcattgcaataac	12	14	4	11	1	6	1	4	0	2	1	6	1	6	1	1	0	4	1	1	0	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:86021867G>A	uc003ycw.2	+	2	296	c.142G>A	c.(142-144)GTC>ATC	p.V48I	LRRCC1_uc010lzz.1_Intron|LRRCC1_uc010maa.1_Intron|LRRCC1_uc003ycx.2_Intron|LRRCC1_uc003ycy.2_Missense_Mutation_p.V28I	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	48	LRR 1.				cell division|mitosis	centriole|nucleus					0						TCTTCATGCCGTCAATCTTCA	0.269													5	21					0	0	1	0	0		A	86021867	A	A	86021867	3	1	103	1	0	0	0	0	1	0	0	0	9044	1145	40	1	148	1	LRRCC1	8	86021867	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	222003	86021867	60342155	859	62808											
DCAF4L2	138009	broad.mit.edu	37	chr8	88886149	88886149	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagtcccactctgactgtCtttttctgcttgtctgcttc	3	19	7	12	0	4	2	0	2	4	0	6	2	5	2	1	0	2	2	1	0	0	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:88886149C>A	uc003ydz.2	-	1	148	c.51G>T	c.(49-51)AAG>AAT	p.K17N		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	17										ovary(1)	1						CTCTGACTGTCTTTTTCTGCT	0.537													18	50					1.15919e-05	1.1834e-05	1	1	0		A	88886149	A	A	88886149	3	1	103	1	0	0	0	0	1	0	0	0	4275	912	32	5	1140	5	DCAF4L2	8	88886149	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2864282	88886149	57477873	860	62809											
MMP16	4325	broad.mit.edu	37	chr8	89086899	89086899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatactaggaggcaagccccGccagaagtaagtaatttgca	14	7	11	9	1	0	1	0	0	0	1	0	3	0	2	3	2	3	4	3	2	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:89086899G>A	uc003yeb.3	-	7	1438	c.1156C>T	c.(1156-1158)CGG>TGG	p.R386W	MMP16_uc003yec.2_Missense_Mutation_p.R386W	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	386	Extracellular (Potential).|Hemopexin-like 1.				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						GGCAAGCCCCGCCAGAAGTAA	0.433													32	105					0	0	1	0	0		A	89086899	A	A	89086899	3	1	103	1	0	0	0	0	1	0	0	0	9673	1086	38	1	839	1	MMP16	8	89086899	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	200750	89086899	57277123	861	62810											
OSGIN2	734	broad.mit.edu	37	chr8	90937019	90937019	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctttgctgagaatgtagcGctggcaactggaacgctgga	9	10	13	9	2	1	1	0	1	1	1	1	4	1	3	0	3	4	5	0	3	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:90937019G>A	uc003yeg.2	+	6	1123	c.777G>A	c.(775-777)GCG>GCA	p.A259A	OSGIN2_uc003yeh.2_Silent_p.A303A	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	259					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			AGAATGTAGCGCTGGCAACTG	0.433													22	71					0	0	1	0	0		A	90937019	A	A	90937019	2	1	103	1	0	0	0	0	0	0	0	1	11309	1074	38	1		1	OSGIN2	8	90937019	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1850120	90937019	55427003	862	62811											
FAM92A1	137392	broad.mit.edu	37	chr8	94713478	94713478	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaacgaaacaactgcaaaCagctgtctcaaatgtggaga	17	7	8	9	1	2	1	2	0	1	1	3	3	2	1	0	1	6	2	0	1	5	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:94713478C>T	uc010maq.2	+	2	156	c.53C>T	c.(52-54)ACA>ATA	p.T18I	FAM92A1_uc003yfu.1_RNA|FAM92A1_uc003yfv.3_RNA	NM_145269	NP_660312	A1XBS5	F92A1_HUMAN	hypothetical protein LOC137392	18											0	Breast(36;2.4e-06)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			CAACTGCAAACAGCTGTCTCA	0.453													9	14					0	0	1	0	0		T	94713478	T	T	94713478	3	4	103	1	0	0	0	0	1	0	0	0	5666	478	17	4	59	4	FAM92A1	8	94713478	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3776459	94713478	51650544	863	62812											
INTS8	55656	broad.mit.edu	37	chr8	95837126	95837126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttttaaaccctagatcctGcaccagttcaacttatagtt	11	15	4	11	0	2	1	1	0	1	1	3	1	3	1	3	0	3	3	3	0	6	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:95837126G>A	uc003yhb.2	+	2	262	c.136G>A	c.(136-138)GCA>ACA	p.A46T	INTS8_uc003yha.1_Missense_Mutation_p.A46T|INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	46					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					CCTAGATCCTGCACCAGTTCA	0.353													14	49					0	0	1	0	0		A	95837126	A	A	95837126	3	1	103	1	0	0	0	0	1	0	0	0	7800	1319	46	2	142	2	INTS8	8	95837126	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1123648	95837126	50526896	864	62813											
SDC2	6383	broad.mit.edu	37	chr8	97614732	97614732	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacgacgctgaatatacaGaacaagatacctgctcagac	16	6	7	12	2	1	4	1	1	0	3	1	5	1	4	2	0	4	2	2	0	6	3	rs142924782		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:97614732G>T	uc003yhv.1	+	3	900	c.282G>T	c.(280-282)CAG>CAT	p.Q94H	SDC2_uc011lgu.1_Missense_Mutation_p.Q65H	NM_002998	NP_002989	P34741	SDC2_HUMAN	syndecan 2 precursor	94	Extracellular (Potential).					integral to plasma membrane	cytoskeletal protein binding|PDZ domain binding			ovary(2)	2	Breast(36;3.41e-05)				Sargramostim(DB00020)	TGAATATACAGAACAAGATAC	0.423													33	87					3.03874e-20	3.25432e-20	1	1	0		T	97614732	T	T	97614732	3	4	103	1	0	0	0	0	1	0	0	0	13977	933	33	5	292	5	SDC2	8	97614732	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1777606	97614732	48749290	865	62814											
RGS22	26166	broad.mit.edu	37	chr8	101051172	101051172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacgtacttgcgcttgcttgCatactttaaaaggctgaagt	10	14	9	8	2	0	1	0	1	0	0	0	1	0	1	0	1	6	5	0	1	6	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:101051172C>T	uc003yjb.1	-	14	2348	c.2153G>A	c.(2152-2154)TGC>TAC	p.C718Y	RGS22_uc003yja.1_Missense_Mutation_p.C537Y|RGS22_uc003yjc.1_Missense_Mutation_p.C706Y|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	718					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			CGCTTGCTTGCATACTTTAAA	0.393													11	47					0	0	1	0	0		T	101051172	T	T	101051172	3	4	103	1	0	0	0	0	1	0	0	0	13330	710	25	2	1697	2	RGS22	8	101051172	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3436440	101051172	45312850	866	62815											
FBXO43	286151	broad.mit.edu	37	chr8	101146187	101146187	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggctgttcggctacacAgtccccttttcttatatggc	7	13	8	13	1	1	0	0	0	1	0	3	0	2	0	2	3	1	3	2	3	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:101146187A>G	uc003yjd.2	-	5	2683	c.1970T>C	c.(1969-1971)CTG>CCG	p.L657P	FBXO43_uc003yje.2_Missense_Mutation_p.L623P	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	657	IBR-type.				meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			TCGGCTACACAGTCCCCTTTT	0.448													39	88					0	0	1	0	0		G	101146187	G	G	101146187	3	3	103	1	0	0	0	0	1	0	0	0	5766	188	7	3	160	3	FBXO43	8	101146187	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	95015	101146187	45217835	867	62816											
GRHL2	79977	broad.mit.edu	37	chr8	102678915	102678915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggagggcttcaaggtcaCgctcatggaaatctagccct	9	9	13	10	1	4	0	3	0	1	0	4	2	4	2	1	5	1	2	1	5	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:102678915C>T	uc010mbu.2	+	16	2192	c.1862C>T	c.(1861-1863)ACG>ATG	p.T621M		NM_024915	NP_079191	Q6ISB3	GRHL2_HUMAN	transcription factor CP2-like 3	621						cytoplasm|nucleus	DNA binding			ovary(2)|skin(1)	3	all_cancers(14;4.39e-08)|all_epithelial(15;4.09e-10)|Lung NSC(17;7.11e-06)|all_lung(17;1.44e-05)		Epithelial(11;5.81e-09)|all cancers(13;3.81e-07)|OV - Ovarian serous cystadenocarcinoma(57;0.000213)			TTCAAGGTCACGCTCATGGAA	0.547													27	52					0	0	1	0	0		T	102678915	T	T	102678915	3	4	103	1	0	0	0	0	1	0	0	0	6780	536	19	1	1924	1	GRHL2	8	102678915	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1532728	102678915	43685107	868	62817											
UBR5	51366	broad.mit.edu	37	chr8	103323682	103323682	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catgcaatctttggccattgGgtagatggtaccatttccat	9	14	9	9	0	1	1	0	0	1	1	2	1	2	1	3	3	2	3	3	3	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:103323682G>T	uc003ykr.1	-	20	2494	c.2461C>A	c.(2461-2463)CCA>ACA	p.P821T	UBR5_uc003yks.1_Missense_Mutation_p.P821T	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	821					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TTGGCCATTGGGTAGATGGTA	0.378													44	87					2.01872e-29	2.18357e-29	1	1	0		T	103323682	T	T	103323682	3	4	103	1	0	0	0	0	1	0	0	0	16931	1232	43	5	6098	5	UBR5	8	103323682	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	644767	103323682	43040340	869	62818											
TM7SF4	81501	broad.mit.edu	37	chr8	105360820	105360821	+	Frame_Shift_Ins	INS	-	T	T																															cactgatatcttcctaagtcINStttgggagatttacgtgtct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:105360820_105360821insT	uc003ylx.1	+	2	89_90	c.40_41insT	c.(40-42)CTTfs	p.L14fs		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	14					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CTTCCTAAGTCTTTGGGAGATT	0.46													41	86	---	---	---	---						.	T	105360821	T	T	105360820	7	5	103	1	0	1	1	0	0	0	0	0	16001	913	32	0	42	0	TM7SF4	8	105360820	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	2037138	105360820	41003202	870	62819											
TM7SF4	81501	broad.mit.edu	37	chr8	105360884	105360884	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttatccagcatttgggagTttgctgtttggttgctctta	5	19	10	7	0	1	0	0	0	1	0	2	1	2	1	1	2	3	6	1	2	2	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:105360884T>C	uc003ylx.1	+	2	153	c.104T>C	c.(103-105)GTT>GCT	p.V35A		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	35	Helical; (Potential).				osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CATTTGGGAGTTTGCTGTTTG	0.517													43	114					0	0	1	0	0		C	105360884	C	C	105360884	3	2	103	1	0	0	0	0	1	0	0	0	16001	1725	60	3	106	3	TM7SF4	8	105360884	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	64	105360884	41003138	871	62820											
LRP12	29967	broad.mit.edu	37	chr8	105509257	105509257	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatcccaatgctatgacgAgtaacaggccacagatgagg	14	7	10	10	1	0	3	0	2	0	1	1	4	1	3	2	2	3	2	2	2	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:105509257A>G	uc003yma.2	-	5	1618	c.1523T>C	c.(1522-1524)CTC>CCC	p.L508P	LRP12_uc003ymb.2_Missense_Mutation_p.L489P|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	508	Helical; (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			TGCTATGACGAGTAACAGGCC	0.458													18	68					0	0	1	0	0		G	105509257	G	G	105509257	3	3	103	1	0	0	0	0	1	0	0	0	8972	304	11	3	1068	3	LRP12	8	105509257	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	148373	105509257	40854765	872	62821											
KCNV1	27012	broad.mit.edu	37	chr8	110980553	110980553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcgttaataatagcaatagGcaaggccaagacaagaattc	18	8	8	7	1	0	2	0	0	0	2	2	2	0	2	1	2	1	3	1	2	9	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:110980553G>A	uc003ynr.3	-	3	1609	c.1267C>T	c.(1267-1269)CCT>TCT	p.P423S	KCNV1_uc010mcw.2_Missense_Mutation_p.P423S	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	423	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			ATAGCAATAGGCAAGGCCAAG	0.448													29	68					0	0	1	0	0		A	110980553	A	A	110980553	3	1	103	1	0	0	0	0	1	0	0	0	8110	1203	42	2	239	2	KCNV1	8	110980553	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5471296	110980553	35383469	873	62822											
CSMD3	114788	broad.mit.edu	37	chr8	113318290	113318290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttccatctgattggcataCagctgtagtgagttctttgg	7	16	11	7	0	2	2	0	2	2	0	3	2	3	2	1	2	2	5	1	2	2	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:113318290C>T	uc003ynu.2	-	51	8176	c.8017G>A	c.(8017-8019)GTA>ATA	p.V2673I	CSMD3_uc003yns.2_Missense_Mutation_p.V1875I|CSMD3_uc003ynt.2_Missense_Mutation_p.V2633I|CSMD3_uc011lhx.1_Missense_Mutation_p.V2569I	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2673	Extracellular (Potential).|Sushi 15.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GATTGGCATACAGCTGTAGTG	0.393										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			69	154					0	0	1	0	0		T	113318290	T	T	113318290	3	4	103	1	0	0	0	0	1	0	0	0	3949	478	17	4	3190	4	CSMD3	8	113318290	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2337737	113318290	33045732	874	62823											
EXT1	2131	broad.mit.edu	37	chr8	118830694	118830694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctctctccttcaatgaCgacgacaggcacagcagtgg	9	9	10	13	2	2	1	1	1	1	0	4	3	3	1	1	2	2	3	1	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:118830694C>T	uc003yok.1	-	7	2385	c.1612G>A	c.(1612-1614)GTC>ATC	p.V538I		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	538	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			CCTTCAATGACGACGACAGGC	0.527			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				44	153					0	0	1	0	0		T	118830694	T	T	118830694	3	4	103	1	0	0	0	0	1	0	0	0	5331	536	19	1	648	1	EXT1	8	118830694	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	5512404	118830694	27533328	875	62824											
ENPP2	5168	broad.mit.edu	37	chr8	120612982	120612982	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagaatagaaggcatagAccgaaggcctataagaaaat	18	6	10	7	1	1	4	1	0	0	4	1	5	1	4	2	2	0	2	2	2	9	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:120612982A>G	uc003yot.1	-	11	994	c.908T>C	c.(907-909)GTC>GCC	p.V303A	ENPP2_uc003yos.1_Missense_Mutation_p.V303A|ENPP2_uc010mdd.1_Missense_Mutation_p.V303A	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	303					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GAAGGCATAGACCGAAGGCCT	0.378													20	74					0	0	1	0	0		G	120612982	G	G	120612982	3	3	103	1	0	0	0	0	1	0	0	0	5138	275	10	3	1982	3	ENPP2	8	120612982	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1782288	120612982	25751040	876	62825											
DEPDC6	64798	broad.mit.edu	37	chr8	121013857	121013857	+	Frame_Shift_Del	DEL	A	-	-																															actgatggagctgctcaatgAaaagtccccctcctcccagg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:121013857delA	uc003yow.3	+	5	885	c.698delA	c.(697-699)GAAfs	p.E233fs	DEPDC6_uc011lid.1_Frame_Shift_Del_p.E132fs	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	233					intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CTGCTCAATGAAAAGTCCCCC	0.512													25	53	---	---	---	---						.	-	121013857	-	-	121013857	7	5	103	1	0	1	0	1	0	0	0	0	4449	246	9	0	716	0	DEPDC6	8	121013857	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	400875	121013857	25350165	877	62826											
DEPDC6	64798	broad.mit.edu	37	chr8	121015280	121015280	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcatgagcagctgtggCagcagcggctacttcagcag	10	6	14	11	1	1	1	1	1	0	0	1	1	1	1	0	2	8	8	0	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:121015280C>T	uc003yow.3	+	6	1042	c.855C>T	c.(853-855)GGC>GGT	p.G285G	DEPDC6_uc011lid.1_Silent_p.G184G	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	285	Ser-rich.				intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			gcagctgtggcagcagcggct	0.393													5	16					0	0	1	0	0		T	121015280	T	T	121015280	2	4	103	1	0	0	0	0	0	0	0	1	4449	697	25	2		2	DEPDC6	8	121015280	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1423	121015280	25348742	878	62827											
MTSS1	9788	broad.mit.edu	37	chr8	125565529	125565529	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgaggagggcatgctggTgacaccttgggggccctcac	7	8	15	11	0	1	2	1	2	0	0	1	3	1	3	2	5	1	2	2	5	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:125565529T>C	uc003yrk.2	-	14	2506	c.1972A>G	c.(1972-1974)ACC>GCC	p.T658A	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_Missense_Mutation_p.T307A|MTSS1_uc011lin.1_Missense_Mutation_p.T432A|MTSS1_uc011lio.1_Missense_Mutation_p.T548A|MTSS1_uc003yri.2_Missense_Mutation_p.T376A|MTSS1_uc003yrj.2_Missense_Mutation_p.T633A|MTSS1_uc003yrl.2_Missense_Mutation_p.T662A	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	658	Pro-rich.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			GGCATGCTGGTGACACCTTGG	0.637													26	97					0	0	1	0	0		C	125565529	C	C	125565529	3	2	103	1	0	0	0	0	1	0	0	0	9980	1696	59	3	299	3	MTSS1	8	125565529	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	4550249	125565529	20798493	879	62828											
KIAA0196	9897	broad.mit.edu	37	chr8	126044624	126044624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaccgggtcggtcggttttCggcagaccattcctgcaagg	7	9	13	12	4	0	1	0	0	0	1	4	1	1	1	3	5	2	3	3	5	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:126044624C>T	uc003yrt.2	-	27	3523	c.3194G>A	c.(3193-3195)CGA>CAA	p.R1065Q	KIAA0196_uc011lir.1_Missense_Mutation_p.R917Q|KIAA0196_uc003yru.1_Intron	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	1065					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			GGTCGGTTTTCGGCAGACCAT	0.507													20	77					0	0	1	0	0		T	126044624	T	T	126044624	3	4	103	1	0	0	0	0	1	0	0	0	8177	884	31	1	297	1	KIAA0196	8	126044624	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	479095	126044624	20319398	880	62829											
MYC	4609	broad.mit.edu	37	chr8	128750777	128750777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggagacaacgacggcggtgGcgggagcttctccacggccg	7	4	18	12	6	1	1	0	0	1	1	2	4	1	2	2	6	2	1	2	6	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:128750777G>A	uc003ysh.1	+	3	782	c.269G>A	c.(268-270)GGC>GAC	p.G90D	MYC_uc003ysi.2_Missense_Mutation_p.G105D	NM_002467	NP_002458	P01106	MYC_HUMAN	myc proto-oncogene protein	90	Poly-Gly.				branching involved in ureteric bud morphogenesis|cell cycle arrest|cell proliferation|cellular iron ion homeostasis|positive regulation of metanephric cap mesenchymal cell proliferation|positive regulation of transcription, DNA-dependent|regulation of telomere maintenance|regulation of transcription from RNA polymerase II promoter|response to drug	nucleolus|nucleoplasm	E-box binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(3)|ovary(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(1;6.19e-134)|all_epithelial(1;1.75e-119)|all_lung(1;5.66e-51)|Breast(1;1.08e-22)|all_neural(1;4.45e-21)|Medulloblastoma(1;1.88e-20)|Colorectal(1;1.92e-09)|Lung SC(1;4.52e-07)|Ovarian(5;0.000122)|Esophageal squamous(12;0.000995)|Renal(1;0.0921)|Hepatocellular(40;0.108)|Myeloproliferative disorder(2;0.135)|Melanoma(291;0.185)	Myeloproliferative disorder(644;0.0255)|Ovarian(118;0.0654)|Breast(495;0.212)|Acute lymphoblastic leukemia(644;0.22)	Epithelial(1;1.63e-94)|all cancers(1;5.82e-87)|OV - Ovarian serous cystadenocarcinoma(1;2.12e-71)|BRCA - Breast invasive adenocarcinoma(1;4.3e-14)|Lung(2;0.000381)|Colorectal(2;0.0102)|LUAD - Lung adenocarcinoma(14;0.0172)|READ - Rectum adenocarcinoma(2;0.0723)|LUSC - Lung squamous cell carcinoma(258;0.151)	KIRC - Kidney renal clear cell carcinoma(542;0.248)		GACGGCGGTGGCGGGAGCTTC	0.677		3	A|T	IGK@|BCL5|BCL7A |BTG1|TRA@|IGH@	Burkitt lymphoma| amplified in other cancers|B-CLL						OREG0018982	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	32					0	0	1	0	0		A	128750777	A	A	128750777	3	1	103	1	0	0	0	0	1	0	0	0	10034	1203	42	2	320	2	MYC	8	128750777	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2706153	128750777	17613245	881	62830											
ASAP1	50807	broad.mit.edu	37	chr8	131149264	131149264	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcaggtgagaaggttcaaCttggctggttgcctgttaga	8	12	15	6	0	1	2	1	1	0	2	1	3	1	2	1	5	2	5	1	5	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:131149264C>T	uc003yta.1	-	13	1129	c.1101G>A	c.(1099-1101)AAG>AAA	p.K367K	ASAP1_uc003ysz.1_Silent_p.K178K|ASAP1_uc011liw.1_Silent_p.K360K	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	367	PH.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						GAAGGTTCAACTTGGCTGGTT	0.438													31	110					0	0	1	0	0		T	131149264	T	T	131149264	2	4	103	1	0	0	0	0	0	0	0	1	1011	564	20	4		4	ASAP1	8	131149264	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2398487	131149264	15214758	882	62831											
ADCY8	114	broad.mit.edu	37	chr8	131792669	131792669	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttgtcggtgccttcagcCtgggctccaggctctgtgcc	3	12	13	13	1	2	0	1	0	1	0	4	1	3	0	4	3	3	2	4	3	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:131792669C>A	uc003ytd.3	-	18	3979	c.3723G>T	c.(3721-3723)CAG>CAT	p.Q1241H	ADCY8_uc010mds.2_Missense_Mutation_p.Q1110H	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1241	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TGCCTTCAGCCTGGGCTCCAG	0.363										HNSCC(32;0.087)			29	96					2.81731e-10	2.93601e-10	1	1	0		A	131792669	A	A	131792669	3	1	103	1	0	0	0	0	1	0	0	0	300	680	24	5	36	5	ADCY8	8	131792669	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	643405	131792669	14571353	883	62832											
ADCY8	114	broad.mit.edu	37	chr8	131880110	131880110	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accttgaagaaggaagcaaaCtttgtattgccgtgataaat	15	11	9	6	1	0	3	0	2	0	1	0	4	0	4	2	1	3	2	2	1	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:131880110C>A	uc003ytd.3	-	9	2448	c.2192G>T	c.(2191-2193)AGT>ATT	p.S731I	ADCY8_uc010mds.2_Intron	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	731	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			AGGAAGCAAACTTTGTATTGC	0.353										HNSCC(32;0.087)			16	70					4.7546e-09	4.93738e-09	1	1	0		A	131880110	A	A	131880110	3	1	103	1	0	0	0	0	1	0	0	0	300	565	20	5	1603	5	ADCY8	8	131880110	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	87441	131880110	14483912	884	62833											
TG	7038	broad.mit.edu	37	chr8	133911046	133911046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctctctctcccacaggccCgacaacctgcgagaaatctc	10	7	6	18	2	3	1	0	0	3	1	6	3	3	1	4	1	2	0	4	1	2	0	rs145085612		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:133911046C>T	uc003ytw.2	+	14	3262	c.3221C>T	c.(3220-3222)CCG>CTG	p.P1074L	TG_uc010mdw.2_5'UTR	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1074	Thyroglobulin type-1 9.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CCCACAGGCCCGACAACCTGC	0.343													21	34					0	0	1	0	0		T	133911046	T	T	133911046	3	4	103	1	0	0	0	0	1	0	0	0	15838	652	23	1	3275	1	TG	8	133911046	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2030936	133911046	12452976	885	62834											
ZFAT	57623	broad.mit.edu	37	chr8	135521887	135521887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaccacagtcaccgtccctGgtgccatggcaaccaccgag	10	6	9	16	2	1	0	1	0	0	0	2	1	2	0	6	2	3	1	6	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:135521887G>A	uc003yup.2	-	15	3642	c.3467C>T	c.(3466-3468)CCA>CTA	p.P1156L	ZFAT_uc011ljj.1_Missense_Mutation_p.P275L|ZFAT_uc003yun.2_Missense_Mutation_p.P1144L|ZFAT_uc003yuo.2_Missense_Mutation_p.P1144L|ZFAT_uc010meh.2_Intron|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.P1144L|ZFAT_uc010mej.2_Missense_Mutation_p.P1094L	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	1156					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			CACCGTCCCTGGTGCCATGGC	0.577													36	108					0	0	1	0	0		A	135521887	A	A	135521887	3	1	103	1	0	0	0	0	1	0	0	0	17657	1348	47	4	272	4	ZFAT	8	135521887	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1610841	135521887	10842135	886	62835											
COL22A1	169044	broad.mit.edu	37	chr8	139703108	139703108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgggggcaccgacatgtcCgggagcaccctgttcagaga	9	5	14	13	3	1	1	1	0	0	1	2	4	2	2	4	3	1	3	4	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:139703108C>T	uc003yvd.2	-	36	3211	c.2764G>A	c.(2764-2766)GGA>AGA	p.G922R	COL22A1_uc011ljo.1_Missense_Mutation_p.G222R	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	922	Pro-rich.|Gly-rich.|Collagen-like 7.				cell adhesion	collagen|cytoplasm	structural molecule activity	p.G922R(1)		ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			CCGACATGTCCGGGAGCACCC	0.532										HNSCC(7;0.00092)			11	26					0	0	1	0	0		T	139703108	T	T	139703108	3	4	103	1	0	0	0	0	1	0	0	0	3684	661	23	1	2236	1	COL22A1	8	139703108	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4181221	139703108	6660914	887	62836											
EIF2C2	27161	broad.mit.edu	37	chr8	141561492	141561492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgtggaactgcttgttcCgcatgtcccagacgccctgg	5	10	12	14	3	0	1	0	0	0	1	2	2	2	2	4	2	2	3	4	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:141561492C>T	uc003yvn.2	-	11	1353	c.1313G>A	c.(1312-1314)CGG>CAG	p.R438Q	EIF2C2_uc010men.2_Missense_Mutation_p.R361Q|EIF2C2_uc010meo.2_Missense_Mutation_p.R438Q	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	438					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			CTGCTTGTTCCGCATGTCCCA	0.537													38	128					0	0	1	0	0		T	141561492	T	T	141561492	3	4	103	1	0	0	0	0	1	0	0	0	5012	652	23	1	1302	1	EIF2C2	8	141561492	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1858384	141561492	4802530	888	62837											
PTK2	5747	broad.mit.edu	37	chr8	141889676	141889676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaccgcaggtgactgaggcGgaatccatagcaggccacat	11	6	13	11	2	0	3	0	3	0	0	1	4	1	4	3	4	1	2	3	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:141889676G>A	uc003yvu.2	-	4	486	c.256C>T	c.(256-258)CGC>TGC	p.R86C	PTK2_uc003yvr.2_5'UTR|PTK2_uc003yvs.2_Missense_Mutation_p.R86C|PTK2_uc003yvt.2_Missense_Mutation_p.R108C|PTK2_uc003yvv.2_Intron|PTK2_uc011ljr.1_Missense_Mutation_p.R86C	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	86	FERM.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			TGACTGAGGCGGAATCCATAG	0.502													111	326					0	0	1	0	0		A	141889676	A	A	141889676	3	1	103	1	0	0	0	0	1	0	0	0	12785	1116	39	1	3018	1	PTK2	8	141889676	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	328184	141889676	4474346	889	62838											
DENND3	22898	broad.mit.edu	37	chr8	142178549	142178549	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgcagctgggcgacttcAtgaagcgggtccaggagtca	10	7	14	10	2	2	1	2	1	0	0	3	3	3	2	1	3	3	2	1	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:142178549A>G	uc003yvy.2	+	13	2238	c.1960A>G	c.(1960-1962)ATG>GTG	p.M654V	DENND3_uc010mep.2_Missense_Mutation_p.M615V|DENND3_uc003yvz.1_Missense_Mutation_p.M338V	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	654										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			GGGCGACTTCATGAAGCGGGT	0.587													27	89					0	0	1	0	0		G	142178549	G	G	142178549	3	3	103	1	0	0	0	0	1	0	0	0	4438	217	8	3	2006	3	DENND3	8	142178549	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	288873	142178549	4185473	890	62839											
SLC45A4	57210	broad.mit.edu	37	chr8	142222398	142222398	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctgccttcgccggccaaCggggaagacaggcctttctg	6	7	13	15	3	1	1	0	0	1	1	2	2	1	2	5	4	2	0	5	4	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:142222398C>T	uc003ywd.1	-	7	2354	c.2046G>A	c.(2044-2046)CCG>CCA	p.P682P	SLC45A4_uc003ywc.1_Silent_p.P682P|SLC45A4_uc010meq.1_Silent_p.P680P	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	733					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CGCCGGCCAACGGGGAAGACA	0.637													8	31					0	0	1	0	0		T	142222398	T	T	142222398	2	4	103	1	0	0	0	0	0	0	0	1	14668	523	19	1		1	SLC45A4	8	142222398	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	43849	142222398	4141624	891	62840											
SLC45A4	57210	broad.mit.edu	37	chr8	142222470	142222470	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatcaccaggaatgtggcCgtcaggaagcccaggaaaga	14	5	13	9	1	2	2	2	0	0	2	2	5	2	5	3	4	1	0	3	4	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:142222470C>T	uc003ywd.1	-	7	2282	c.1974G>A	c.(1972-1974)ACG>ACA	p.T658T	SLC45A4_uc003ywc.1_Silent_p.T658T|SLC45A4_uc010meq.1_Silent_p.T656T	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	709	Helical; (Potential).				transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GGAATGTGGCCGTCAGGAAGC	0.657													15	63					0	0	1	0	0		T	142222470	T	T	142222470	2	4	103	1	0	0	0	0	0	0	0	1	14668	639	23	1		1	SLC45A4	8	142222470	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	72	142222470	4141552	892	62841											
FLJ43860	389690	broad.mit.edu	37	chr8	142446116	142446116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccctgtctgccatggccGccaccaggtccccgaacagt	6	7	10	18	2	1	0	0	0	1	0	3	1	3	0	7	2	2	1	7	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:142446116G>A	uc003ywi.2	-	28	3533	c.3452C>T	c.(3451-3453)GCG>GTG	p.A1151V	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	1151							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			TGCCATGGCCGCCACCAGGTC	0.687													6	32					0	0	1	0	0		A	142446116	A	A	142446116	3	1	103	1	0	0	0	0	1	0	0	0	5944	1087	38	1	524	1	FLJ43860	8	142446116	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	223646	142446116	3917906	893	62842											
JRK	8629	broad.mit.edu	37	chr8	143745980	143745980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggctgccgctccgcaaagCgcaggactgcgtcaaaggcc	9	5	13	14	4	1	0	1	0	0	0	2	1	2	1	3	3	3	4	3	3	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:143745980C>T	uc003ywo.2	-	3	2010	c.1496G>A	c.(1495-1497)CGC>CAC	p.R499H	JRK_uc003ywp.2_Missense_Mutation_p.R499H|JRK_uc010mew.1_Missense_Mutation_p.A500T	NM_001077527	NP_001070995			jerky isoform b												0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;2.31e-05)				ctccgcaaagcgcaggactgc	0.184													7	12					0	0	1	0	0		T	143745980	T	T	143745980	3	4	103	1	0	0	0	0	1	0	0	0	7980	768	27	1	308	1	JRK	8	143745980	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1299864	143745980	2618042	894	62843											
CYP11B2	1585	broad.mit.edu	37	chr8	143996616	143996616	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggccttgggcgacagcacAtctgggttcagccgcaatcg	8	7	13	13	4	2	0	1	0	1	0	3	1	2	0	2	3	2	3	2	3	1	2	rs151052374		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:143996616A>T	uc003yxk.1	-	3	444	c.441T>A	c.(439-441)GAT>GAA	p.D147E		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	147					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	GCGACAGCACATCTGGGTTCA	0.627									Familial_Hyperaldosteronism_type_I				4	38					0	0	1	0	0		T	143996616	T	T	143996616	3	4	103	1	0	0	0	0	1	0	0	0	4149	214	8	5	1098	5	CYP11B2	8	143996616	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	250636	143996616	2367406	895	62844											
TOP1MT	116447	broad.mit.edu	37	chr8	144397975	144397975	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggcctcagccacctgcTccttctttgcctggatctgc	3	12	8	18	0	3	0	1	0	2	0	4	1	4	1	6	2	4	1	6	2	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:144397975T>C	uc003yxz.2	-	12	1494	c.1475A>G	c.(1474-1476)GAG>GGG	p.E492G	TOP1MT_uc011lkd.1_Missense_Mutation_p.E394G|TOP1MT_uc011lke.1_Missense_Mutation_p.E394G|TOP1MT_uc010mfb.2_Missense_Mutation_p.E394G|TOP1MT_uc011lkf.1_Missense_Mutation_p.E287G	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	492					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	AGCCACCTGCTCCTTCTTTGC	0.652													23	47					0	0	1	0	0		C	144397975	C	C	144397975	3	2	103	1	0	0	0	0	1	0	0	0	16390	1551	54	3	342	3	TOP1MT	8	144397975	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	401359	144397975	1966047	896	62845											
RHPN1	114822	broad.mit.edu	37	chr8	144463997	144463997	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggctggcctgaaggagggCgactacattgtgtcagtgaa	9	8	16	8	2	1	2	1	2	0	0	1	4	1	3	1	4	1	1	1	4	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:144463997C>T	uc003yyb.2	+	14	1789	c.1656C>T	c.(1654-1656)GGC>GGT	p.G552G		NM_052924	NP_443156	Q8TCX5	RHPN1_HUMAN	rhophilin 1	577	PDZ.				signal transduction	intracellular				large_intestine(1)	1	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.156)			TGAAGGAGGGCGACTACATTG	0.682													9	31					0	0	1	0	0		T	144463997	T	T	144463997	2	4	103	1	0	0	0	0	0	0	0	1	13375	755	27	1		1	RHPN1	8	144463997	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	66022	144463997	1900025	897	62846											
SCRIB	23513	broad.mit.edu	37	chr8	144885638	144885638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgcggagcagctgcaccGcctcgccgtgcgtcaggccc	5	5	13	18	5	1	0	1	0	0	0	2	1	1	1	4	2	5	3	4	2	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:144885638G>A	uc003yzp.1	-	24	3525	c.3518C>T	c.(3517-3519)GCG>GTG	p.A1173V	SCRIB_uc003yzn.1_5'UTR|SCRIB_uc003yzo.1_Missense_Mutation_p.A1173V	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	1173	PDZ 4.|Interaction with ARHGEF7.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			CAGCTGCACCGCCTCGCCGTG	0.706													5	22					0	0	1	0	0		A	144885638	A	A	144885638	3	1	103	1	0	0	0	0	1	0	0	0	13962	1087	38	1	1505	1	SCRIB	8	144885638	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	421641	144885638	1478384	898	62847											
EPPK1	83481	broad.mit.edu	37	chr8	144940551	144940551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatctcgccgcccaccaCgcccgcggccacggcctcct	4	5	10	22	6	1	0	0	0	1	0	3	1	2	1	7	3	0	0	7	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:144940551C>T	uc003zaa.1	-	2	14894	c.14881G>A	c.(14881-14883)GTG>ATG	p.V4961M		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	4961	Plectin 62.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCGCCCACCACGCCCGCGGCC	0.721													7	150					0	0	1	0	0		T	144940551	T	T	144940551	3	4	103	1	0	0	0	0	1	0	0	0	5198	536	19	1	395	1	EPPK1	8	144940551	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	54913	144940551	1423471	899	62848											
EPPK1	83481	broad.mit.edu	37	chr8	144945127	144945127	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttggggtcgaagaagccCttggtgtcgtcagaagggtc	7	10	17	7	2	1	2	1	0	0	2	4	3	1	2	1	4	1	1	1	4	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:144945127C>T	uc003zaa.1	-	1	2308	c.2295G>A	c.(2293-2295)AAG>AAA	p.K765K		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	765	Plectin 15.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CGAAGAAGCCCTTGGTGTCGT	0.627													37	146					0	0	1	0	0		T	144945127	T	T	144945127	2	4	103	1	0	0	0	0	0	0	0	1	5198	680	24	4		4	EPPK1	8	144945127	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4576	144945127	1418895	900	62849											
PLEC	5339	broad.mit.edu	37	chr8	144991738	144991738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaagcccttggtgtcgtccGaggggtcggtcaggatctcg	6	9	16	10	4	2	1	1	0	1	1	6	3	3	2	2	5	1	0	2	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:144991738G>A	uc003zaf.1	-	32	12832	c.12662C>T	c.(12661-12663)TCG>TTG	p.S4221L	PLEC_uc003zab.1_Missense_Mutation_p.S4084L|PLEC_uc003zac.1_Missense_Mutation_p.S4088L|PLEC_uc003zad.2_Missense_Mutation_p.S4084L|PLEC_uc003zae.1_Missense_Mutation_p.S4052L|PLEC_uc003zag.1_Missense_Mutation_p.S4062L|PLEC_uc003zah.2_Missense_Mutation_p.S4070L|PLEC_uc003zaj.2_Missense_Mutation_p.S4111L	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4221	Plectin 26.|Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GGTGTCGTCCGAGGGGTCGGT	0.612													36	70					0	0	1	0	0		A	144991738	A	A	144991738	3	1	103	1	0	0	0	0	1	0	0	0	12071	1059	37	1	1396	1	PLEC	8	144991738	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	46611	144991738	1372284	901	62850											
PLEC	5339	broad.mit.edu	37	chr8	144998487	144998487	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctggaaggcctcgtcctcCgccagccgccgcaggcgctc	4	5	13	19	6	0	0	0	0	0	0	4	1	2	1	6	3	1	3	6	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:144998487C>T	uc003zaf.1	-	31	6191	c.6021G>A	c.(6019-6021)GCG>GCA	p.A2007A	PLEC_uc003zab.1_Silent_p.A1870A|PLEC_uc003zac.1_Silent_p.A1874A|PLEC_uc003zad.2_Silent_p.A1870A|PLEC_uc003zae.1_Silent_p.A1838A|PLEC_uc003zag.1_Silent_p.A1848A|PLEC_uc003zah.2_Silent_p.A1856A|PLEC_uc003zaj.2_Silent_p.A1897A	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2007	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CCTCGTCCTCCGCCAGCCGCC	0.706													8	20					0	0	1	0	0		T	144998487	T	T	144998487	2	4	103	1	0	0	0	0	0	0	0	1	12071	639	23	1		1	PLEC	8	144998487	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	6749	144998487	1365535	902	62851											
PARP10	84875	broad.mit.edu	37	chr8	145051982	145051982	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctggcgaaatacacgccCttcccgtagaccgtggctgc	7	7	11	16	5	0	1	0	0	0	1	1	2	1	1	4	2	2	2	4	2	3	3	rs141748737		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:145051982C>T	uc003zal.3	-	11	2856	c.2748G>A	c.(2746-2748)AAG>AAA	p.K916K	PLEC_uc003zaj.2_5'Flank|PARP10_uc003zak.3_Silent_p.K613K|PARP10_uc011lku.1_Silent_p.K928K|PARP10_uc011lkv.1_RNA	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	916	PARP catalytic.					Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			AATACACGCCCTTCCCGTAGA	0.711													8	16					0	0	1	0	0		T	145051982	T	T	145051982	2	4	103	1	0	0	0	0	0	0	0	1	11474	680	24	4		4	PARP10	8	145051982	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	53495	145051982	1312040	903	62852											
PARP10	84875	broad.mit.edu	37	chr8	145059956	145059956	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggggctggccaaggcacaGcaaggctgtactgggagccc	8	4	17	12	1	0	0	0	0	0	0	0	1	0	1	2	6	3	5	2	6	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:145059956G>A	uc003zal.3	-	3	477	c.369C>T	c.(367-369)TGC>TGT	p.C123C	PARP10_uc003zak.3_5'Flank|PARP10_uc011lku.1_Silent_p.C135C|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Silent_p.C123C|PARP10_uc010mfn.1_Intron|PARP10_uc010mfo.1_Missense_Mutation_p.A16V	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	123						Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCAAGGCACAGCAAGGCTGTA	0.687													13	45					0	0	1	0	0		A	145059956	A	A	145059956	2	1	103	1	0	0	0	0	0	0	0	1	11474	963	34	2		2	PARP10	8	145059956	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	7974	145059956	1304066	904	62853											
SPATC1	375686	broad.mit.edu	37	chr8	145101650	145101650	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacgggcgggtgcaccctgcGctgaccgagcagctggtgaa	8	5	16	12	4	0	2	0	2	0	0	0	3	0	2	2	3	5	4	2	3	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:145101650G>A	uc011lkw.1	+	5	1671	c.1569G>A	c.(1567-1569)GCG>GCA	p.A523A	SPATC1_uc011lkx.1_3'UTR	NM_198572	NP_940974	Q76KD6	SPERI_HUMAN	spermatogenesis and centriole associated 1	523										ovary(1)|central_nervous_system(1)	2	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;3.67e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TGCACCCTGCGCTGACCGAGC	0.642													21	53					0	0	1	0	0		A	145101650	A	A	145101650	2	1	103	1	0	0	0	0	0	0	0	1	15042	1074	38	1		1	SPATC1	8	145101650	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	41694	145101650	1262372	905	62854											
OPLAH	26873	broad.mit.edu	37	chr8	145113475	145113475	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgaggtaggcgtcggcaCaggccgtgtgcccccgaggg	5	5	19	12	5	0	1	0	1	0	0	1	2	0	1	3	5	1	2	3	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:145113475C>A	uc003zar.3	-	6	789	c.707G>T	c.(706-708)TGT>TTT	p.C236F	OPLAH_uc003zat.1_Missense_Mutation_p.C14F	NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	236							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	GGCGTCGGCACAGGCCGTGTG	0.687													12	35					7.03913e-09	7.29497e-09	1	1	0		A	145113475	A	A	145113475	3	1	103	1	0	0	0	0	1	0	0	0	10895	478	17	5	3249	5	OPLAH	8	145113475	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	11825	145113475	1250547	906	62855											
CPSF1	29894	broad.mit.edu	37	chr8	145619493	145619493	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaccatgaagtccacgctgTacacctccaggggcttggca	9	7	10	15	1	0	1	0	1	0	0	2	1	2	1	5	3	1	4	5	3	2	2	rs141624286		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:145619493T>C	uc003zcj.2	-	33	3842	c.3767A>G	c.(3766-3768)TAC>TGC	p.Y1256C	MIR939_hsa-mir-939|MI0005761_5'Flank	NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	1256					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding	p.Y1256C(1)		skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			GTCCACGCTGTACACCTCCAG	0.677													8	23					0	0	1	0	0		C	145619493	C	C	145619493	3	2	103	1	0	0	0	0	1	0	0	0	3827	1638	57	3	588	3	CPSF1	8	145619493	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	506018	145619493	744529	907	62856											
CPSF1	29894	broad.mit.edu	37	chr8	145623706	145623706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctacctccttccagcaggCggatgcccagtggtgacact	8	8	10	15	1	0	1	0	1	0	0	2	2	2	2	5	3	3	1	5	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:145623706C>T	uc003zcj.2	-	19	1955	c.1880G>A	c.(1879-1881)CGC>CAC	p.R627H		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	627					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			TTCCAGCAGGCGGATGCCCAG	0.662													32	89					0	0	1	0	0		T	145623706	T	T	145623706	3	4	103	1	0	0	0	0	1	0	0	0	3827	768	27	1	2531	1	CPSF1	8	145623706	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4213	145623706	740316	908	62857											
SLC39A4	55630	broad.mit.edu	37	chr8	145640738	145640738	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagggcagccaggacgccGccagcactgcccggagcccc	8	1	14	18	3	0	0	0	0	0	0	0	2	0	2	6	3	5	3	6	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:145640738G>A	uc003zcq.2	-	3	640	c.540C>T	c.(538-540)GGC>GGT	p.G180G	SLC39A4_uc003zcm.1_5'Flank|SLC39A4_uc003zcn.2_5'Flank|SLC39A4_uc003zco.2_5'UTR|SLC39A4_uc003zcp.2_Silent_p.G155G	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	180	Extracellular (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|recycling endosome membrane	zinc ion transmembrane transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			CCAGGACGCCGCCAGCACTGC	0.667													3	17					0	0	1	0	0		A	145640738	A	A	145640738	2	1	103	1	0	0	0	0	0	0	0	1	14645	1074	38	1		1	SLC39A4	8	145640738	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	17032	145640738	723284	909	62858											
MFSD3	113655	broad.mit.edu	37	chr8	145735316	145735316	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccccttccgagcagcgtccCcacaccgcgcaccttctgcg	5	6	8	22	5	1	0	0	0	1	0	3	1	3	0	7	0	3	2	7	0	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:145735316C>A	uc003zdi.1	+	1	765	c.600C>A	c.(598-600)CCC>CCA	p.P200P		NM_138431	NP_612440	Q96ES6	MFSD3_HUMAN	major facilitator superfamily domain containing	200	Leu-rich.				transmembrane transport	integral to membrane				central_nervous_system(2)	2	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			AGCAGCGTCCCCACACCGCGC	0.706											OREG0019059	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	12					1	1	1	1	0		A	145735316	A	A	145735316	2	1	103	1	0	0	0	0	0	0	0	1	9550	610	22	5		5	MFSD3	8	145735316	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	94578	145735316	628706	910	62859											
ARHGAP39	80728	broad.mit.edu	37	chr8	145757727	145757727	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcctgtgggcaccttcCactggtccacctgcagcttc	5	9	10	17	0	0	0	0	0	0	0	3	0	2	0	6	3	2	3	6	3	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr8:145757727C>T	uc003zdt.1	-	10	3404	c.2849G>A	c.(2848-2850)TGG>TAG	p.W950*	ARHGAP39_uc011llk.1_Nonsense_Mutation_p.W950*|ARHGAP39_uc003zds.1_Nonsense_Mutation_p.W981*	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	950	Rho-GAP.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						GGGCACCTTCCACTGGTCCAC	0.667													19	44					0	0	1	0	0		T	145757727	T	T	145757727	4	4	103	1	0	0	0	0	0	1	0	0	884	595	21	4	414	4	ARHGAP39	8	145757727	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	22411	145757727	606295	911	62860											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													14	130					0	0	1	0	0		G	164038	G	G	164038	5	3	103	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08		164038	141049393	912	62861											
DMRT1	1761	broad.mit.edu	37	chr9	847112	847112	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggcacctctcagccaccGccggccagtgtccccaccac	7	5	9	20	2	1	0	1	0	1	0	3	0	2	0	8	2	1	1	8	2	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:847112G>A	uc003zgv.2	+	2	656	c.507G>A	c.(505-507)CCG>CCA	p.P169P	DMRT1_uc003zgu.1_Silent_p.P169P	NM_021951	NP_068770	Q9Y5R6	DMRT1_HUMAN	doublesex and mab-3 related transcription factor	169					cell differentiation|male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(10;2.66e-10)|Lung NSC(10;2.82e-10)|Breast(48;0.232)		Lung(218;0.037)		CTCAGCCACCGCCGGCCAGTG	0.617													22	32					0	0	1	0	0		A	847112	A	A	847112	2	1	103	1	0	0	0	0	0	0	0	1	4591	1074	38	1		1	DMRT1	9	847112	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	683074	847112	140366319	913	62862											
SMARCA2	6595	broad.mit.edu	37	chr9	2123753	2123753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggcggagggaagatgcccGgaacccgaaacggaagcccc	11	1	15	14	5	0	1	0	0	0	1	0	6	0	5	5	5	4	0	5	5	4	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:2123753G>A	uc003zhc.2	+	27	3896	c.3797G>A	c.(3796-3798)CGG>CAG	p.R1266Q	SMARCA2_uc003zhd.2_Missense_Mutation_p.R1266Q|SMARCA2_uc010mha.2_Missense_Mutation_p.R1199Q	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1266					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		GAAGATGCCCGGAACCCGAAA	0.542													11	15					0	0	1	0	0		A	2123753	A	A	2123753	3	1	103	1	0	0	0	0	1	0	0	0	14794	1116	39	1	3899	1	SMARCA2	9	2123753	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1276641	2123753	139089678	914	62863											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18777506	18777506	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcccgaggagctgcgCgacctctacagcaagcacct	10	4	11	16	3	1	0	0	0	1	0	1	3	1	1	3	1	7	4	3	1	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:18777506C>T	uc003zne.3	+	19	3406	c.3279C>T	c.(3277-3279)CGC>CGT	p.R1093R		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	1093						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		AGGAGCTGCGCGACCTCTACA	0.667													7	7					0	0	1	0	0		T	18777506	T	T	18777506	2	4	103	1	0	0	0	0	0	0	0	1	274	755	27	1		1	ADAMTSL1	9	18777506	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	16653753	18777506	122435925	915	62864											
HAUS6	54801	broad.mit.edu	37	chr9	19070224	19070224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatttgttttacctgttggCtagatcatgtagcgctccca	9	15	8	9	1	1	1	1	0	0	1	2	1	2	1	2	1	2	5	2	1	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:19070224C>T	uc003znk.2	-	12	1622	c.1369G>A	c.(1369-1371)GCC>ACC	p.A457T	HAUS6_uc011lmz.1_Missense_Mutation_p.A177T|HAUS6_uc003znl.1_Missense_Mutation_p.A321T|HAUS6_uc003znm.1_Missense_Mutation_p.A212T	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	457					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						TACCTGTTGGCTAGATCATGT	0.274													9	13					0	0	1	0	0		T	19070224	T	T	19070224	3	4	103	1	0	0	0	0	1	0	0	0	6986	797	28	2	1522	2	HAUS6	9	19070224	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	292718	19070224	122143207	916	62865											
ACER2	340485	broad.mit.edu	37	chr9	19450475	19450475	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcatctgccttgctgcctaCctgggctgtgtatgctttgc	3	15	10	13	0	2	0	1	0	1	0	2	0	2	0	3	1	6	4	3	1	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:19450475C>T	uc003zny.1	+	6	827	c.669C>T	c.(667-669)TAC>TAT	p.Y223Y	ACER2_uc003znx.1_RNA|ACER2_uc003znz.1_Silent_p.Y174Y	NM_001010887	NP_001010887	Q5QJU3	ACER2_HUMAN	alkaline ceramidase 2	223	Helical; (Potential).				ceramide metabolic process|negative regulation of cell adhesion mediated by integrin|negative regulation of cell-matrix adhesion|negative regulation of protein glycosylation in Golgi|positive regulation of cell proliferation|response to retinoic acid|sphingosine biosynthetic process	integral to Golgi membrane	ceramidase activity			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2						TTGCTGCCTACCTGGGCTGTG	0.532													45	66					0	0	1	0	0		T	19450475	T	T	19450475	2	4	103	1	0	0	0	0	0	0	0	1	139	518	18	4		4	ACER2	9	19450475	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	380251	19450475	121762956	917	62866											
ELAVL2	1993	broad.mit.edu	37	chr9	23692861	23692861	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccaaactggtcattccGtcaatggtcattggagaaaa	13	9	9	10	1	3	1	3	0	0	1	4	2	4	1	3	3	2	0	3	3	4	2	rs138657080	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:23692861G>A	uc003zpu.2	-	7	1049	c.774C>T	c.(772-774)GAC>GAT	p.D258D	ELAVL2_uc003zps.2_Silent_p.D245D|ELAVL2_uc003zpt.2_Silent_p.D245D|ELAVL2_uc003zpv.2_Silent_p.D258D|ELAVL2_uc003zpw.2_Silent_p.D245D	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	258					regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		TGGTCATTCCGTCAATGGTCA	0.423													15	31					0	0	1	0	0		A	23692861	A	A	23692861	2	1	103	1	0	0	0	0	0	0	0	1	5058	1136	40	1		1	ELAVL2	9	23692861	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4242386	23692861	117520570	918	62867											
C9orf82	79886	broad.mit.edu	37	chr9	26884837	26884837	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatcagatcccatcttagaAccatcatctgcttcctcttc	11	13	3	14	0	5	2	2	0	3	2	8	2	7	2	3	0	2	1	3	0	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:26884837A>G	uc003zqc.2	-	4	648	c.636T>C	c.(634-636)GGT>GGC	p.G212G	C9orf82_uc003zqb.2_Silent_p.G67G	NM_024828	NP_079104	Q9H8G2	CI082_HUMAN	hypothetical protein LOC79886	212											0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(42;1.39e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)		CCATCTTAGAACCATCATCTG	0.299													60	115					0	0	1	0	0		G	26884837	G	G	26884837	2	3	103	1	0	0	0	0	0	0	0	1	2502	30	2	3		3	C9orf82	9	26884837	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	3191976	26884837	114328594	919	62868											
DDX58	23586	broad.mit.edu	37	chr9	32487537	32487537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgactgttgctatcactgacGcatcaagagaagcacacagc	13	8	9	11	1	2	3	2	2	0	1	2	4	2	3	0	0	3	4	0	0	3	2	rs139635230		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:32487537G>A	uc003zra.2	-	9	1465	c.1307C>T	c.(1306-1308)GCG>GTG	p.A436V	DDX58_uc010mjj.2_RNA|DDX58_uc010mjk.1_Missense_Mutation_p.A391V|DDX58_uc011lnr.1_Missense_Mutation_p.A233V|DDX58_uc010mji.2_Missense_Mutation_p.A365V	NM_014314	NP_055129	O95786	DDX58_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	436					detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		TATCACTGACGCATCAAGAGA	0.453													25	51					0	0	1	0	0		A	32487537	A	A	32487537	3	1	103	1	0	0	0	0	1	0	0	0	4378	1087	38	1	1510	1	DDX58	9	32487537	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5602700	32487537	108725894	920	62869											
TOPORS	10210	broad.mit.edu	37	chr9	32541935	32541935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatctctacacttaggctcCgggtcttcctttttctcctt	4	18	5	14	1	3	0	0	0	3	0	7	0	5	0	3	2	1	1	3	2	3	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:32541935C>T	uc003zrb.2	-	3	2755	c.2588G>A	c.(2587-2589)CGG>CAG	p.R863Q	TOPORS_uc003zrc.2_Missense_Mutation_p.R796Q	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	863	Lys-rich.|Interaction with UBE2I.|Interaction with TOP1.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		ACTTAGGCTCCGGGTCTTCCT	0.313													64	119					0	0	1	0	0		T	32541935	T	T	32541935	3	4	103	1	0	0	0	0	1	0	0	0	16396	652	23	1	553	1	TOPORS	9	32541935	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	54398	32541935	108671496	921	62870											
C9orf25	203259	broad.mit.edu	37	chr9	34401682	34401684	+	In_Frame_Del	DEL	GGA	-	-																															acctcagcagaggagtagccGgaggaggagtatctagacat																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:34401682_34401684delGGA	uc011lok.1	-	5	686_688	c.379_381delTCC	c.(379-381)TCCdel	p.S127del	C9orf25_uc003zuj.2_In_Frame_Del_p.S110del|C9orf25_uc003zuk.2_In_Frame_Del_p.S99del|C9orf25_uc011lol.1_In_Frame_Del_p.S116del|C9orf25_uc003zul.2_In_Frame_Del_p.S99del	NM_147202	NP_671735	Q8IW50	CI025_HUMAN	hypothetical protein LOC203259	127											0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.0858)		AGGAGTAGCCGGAGGAGGAGTAT	0.552													9	20	---	---	---	---						.	-	34401684	-	-	34401682	7	5	103	1	0	1	0	1	0	0	0	0	2479	1103	39	0	184	0	C9orf25	9	34401682	In_Frame_Del	DEL	GGA	TCGA-BR-A4QL-01A-31D-A25D-08	1859747	34401682	106811749	922	62871											
ARID3C	138715	broad.mit.edu	37	chr9	34623962	34623962	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgacttccaccaggccGcccttggcggtcaccaggcg	6	8	12	15	3	1	2	1	2	0	0	2	2	2	2	5	4	0	0	5	4	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:34623962G>A	uc011lon.1	-	3	474	c.474C>T	c.(472-474)GGC>GGT	p.G158G		NM_001017363	NP_001017363	A6NKF2	ARI3C_HUMAN	AT rich interactive domain 3C (BRIGHT- like)	158	ARID.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.175)		CCACCAGGCCGCCCTTGGCGG	0.662													7	7					0	0	1	0	0		A	34623962	A	A	34623962	2	1	103	1	0	0	0	0	0	0	0	1	918	1074	38	1		1	ARID3C	9	34623962	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	222280	34623962	106589469	923	62872											
ARID3C	138715	broad.mit.edu	37	chr9	34625737	34625738	+	Splice_Site	INS	-	C	C																															cccccacatcatgccactcaINScccctcttttgcatgaagct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:34625737_34625738insC	uc011lon.1	-	2	391	c.391_splice	c.e2+1	p.G131_splice		NM_001017363	NP_001017363	A6NKF2	ARI3C_HUMAN	AT rich interactive domain 3C (BRIGHT- like)						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.175)		CATGCCACTCACCCCTCTTTTG	0.55													39	58	---	---	---	---						.	C	34625738	C	C	34625737	8	5	103	1	0	1	1	0	0	0	1	0	918	173	6	0	868	0	ARID3C	9	34625737	Splice_Site	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	1775	34625737	106587694	924	62873											
KIAA1539	80256	broad.mit.edu	37	chr9	35107840	35107840	+	Frame_Shift_Del	DEL	G	-	-																															gaagcatttgatggggggcaGgggggactccaggcccccga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:35107840delG	uc003zwl.2	-	3	757	c.432delC	c.(430-432)CCCfs	p.P144fs	KIAA1539_uc003zwm.2_Frame_Shift_Del_p.P144fs|KIAA1539_uc003zwn.2_Intron|KIAA1539_uc003zwo.2_Frame_Shift_Del_p.P144fs|KIAA1539_uc003zwp.1_Frame_Shift_Del_p.P144fs|KIAA1539_uc010mkk.1_Intron	NM_025182	NP_079458	Q7L5A3	K1539_HUMAN	hypothetical protein LOC80256	144						nucleus				ovary(2)	2	all_epithelial(49;0.217)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			ATGGGGGGCAGGGGGGACTCC	0.617													36	57	---	---	---	---						.	-	35107840	-	-	35107840	7	5	103	1	0	1	0	1	0	0	0	0	8258	987	35	0	1212	0	KIAA1539	9	35107840	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	482103	35107840	106105591	925	62874											
SPAG8	26206	broad.mit.edu	37	chr9	35810882	35810882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctctcacatttcacacctCgaagtggccaatagacgttt	10	11	6	14	2	2	1	2	0	1	1	4	2	2	1	3	1	0	1	3	1	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:35810882C>T	uc003zye.2	-	3	1152	c.1037G>A	c.(1036-1038)CGA>CAA	p.R346Q	SPAG8_uc003zyf.2_Missense_Mutation_p.R263Q|SPAG8_uc003zyg.2_Missense_Mutation_p.R346Q	NM_172312	NP_758516	Q99932	SPAG8_HUMAN	sperm associated antigen 8 isoform 2	346						acrosomal vesicle|membrane				ovary(1)	1	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			TTTCACACCTCGAAGTGGCCA	0.532													23	38					0	0	1	0	0		T	35810882	T	T	35810882	3	4	103	1	0	0	0	0	1	0	0	0	15009	884	31	1	691	1	SPAG8	9	35810882	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	703042	35810882	105402549	926	62875											
SPAG8	26206	broad.mit.edu	37	chr9	35811334	35811334	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttgtttctggggctcccAggggcagtgctgactccagg	4	11	16	10	0	1	1	0	1	1	0	3	1	3	1	2	6	1	5	2	6	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:35811334A>G	uc003zye.2	-	2	824	c.709T>C	c.(709-711)TGG>CGG	p.W237R	SPAG8_uc003zyf.2_Missense_Mutation_p.W154R|SPAG8_uc003zyg.2_Missense_Mutation_p.W237R	NM_172312	NP_758516	Q99932	SPAG8_HUMAN	sperm associated antigen 8 isoform 2	237						acrosomal vesicle|membrane				ovary(1)	1	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			TGGGGCTCCCAGGGGCAGTGC	0.547													74	132					0	0	1	0	0		G	35811334	G	G	35811334	3	3	103	1	0	0	0	0	1	0	0	0	15009	188	7	3	1023	3	SPAG8	9	35811334	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	452	35811334	105402097	927	62876											
FRMPD1	22844	broad.mit.edu	37	chr9	37740863	37740863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acgcggctgataagctcactCccccaggccccccgtcaggt	7	6	10	18	3	2	1	2	1	0	0	3	1	3	1	5	3	1	2	5	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:37740863C>T	uc004aag.1	+	15	2382	c.2338C>T	c.(2338-2340)CCC>TCC	p.P780S	FRMPD1_uc004aah.1_Missense_Mutation_p.P780S|FRMPD1_uc011lqm.1_Missense_Mutation_p.P602S|FRMPD1_uc011lqn.1_Missense_Mutation_p.P649S	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	780						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		TAAGCTCACTCCCCCAGGCCC	0.642													17	27					0	0	1	0	0		T	37740863	T	T	37740863	3	4	103	1	0	0	0	0	1	0	0	0	6071	855	30	4	2392	4	FRMPD1	9	37740863	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1929529	37740863	103472568	928	62877											
IGFBPL1	347252	broad.mit.edu	37	chr9	38411500	38411500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctcccaccatgttggctGcatggcactggtacacaccc	7	9	8	17	0	1	0	0	0	1	0	2	0	1	0	4	3	2	5	4	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:38411500G>A	uc004aba.2	-	4	757	c.734C>T	c.(733-735)GCA>GTA	p.A245V		NM_001007563	NP_001007564	Q8WX77	IBPL1_HUMAN	insulin-like growth factor binding protein-like	245	Ig-like C2-type.				regulation of cell growth	extracellular region	insulin-like growth factor binding				0				GBM - Glioblastoma multiforme(29;0.0437)|Lung(182;0.116)		CATGTTGGCTGCATGGCACTG	0.493													16	31					0	0	1	0	0		A	38411500	A	A	38411500	3	1	103	1	0	0	0	0	1	0	0	0	7601	1319	46	2	106	2	IGFBPL1	9	38411500	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	670637	38411500	102801931	929	62878											
FOXD4L5	653427	broad.mit.edu	37	chr9	70177122	70177122	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccggggtcgccaggtccgCgccttctgctttcttcggtg	1	12	14	14	5	2	0	0	0	2	0	5	0	3	0	4	4	2	1	4	4	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:70177122C>T	uc010moc.2	-	1	1694	c.862G>A	c.(862-864)GCG>ACG	p.A288T		NM_001126334	NP_001119806	Q5VV16	FX4L5_HUMAN	forkhead box D4-like 5	288					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						GCCAGGTCCGCGCCTTCTGCT	0.687													21	80					0	0	1	0	0		T	70177122	T	T	70177122	3	4	103	1	0	0	0	0	1	0	0	0	6016	768	27	1	392	1	FOXD4L5	9	70177122	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	31765622	70177122	71036309	930	62879											
CBWD3	445571	broad.mit.edu	37	chr9	70490121	70490121	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accgctgggaccaacacgccGtaccgcagccgcgcacgccc	8	2	11	20	7	0	0	0	0	0	0	0	1	0	1	6	1	3	4	6	1	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:70490121G>A	uc004aga.3	-	1	57	c.-52C>T	c.(-54--50)TACGG>TATGG		CBWD3_uc004agc.3_RNA|CBWD3_uc004afy.3_RNA|CBWD3_uc011lrm.1_Translation_Start_Site|CBWD3_uc011lrn.1_RNA|CBWD3_uc004agb.3_Translation_Start_Site|CBWD3_uc010moe.1_RNA|CBWD3_uc004agd.1_Intron|CBWD3_uc004age.2_Translation_Start_Site	NM_201453	NP_958861	Q5JTY5	CBWD3_HUMAN	COBW domain containing 3								ATP binding				0				all cancers(8;0.00136)|Epithelial(8;0.0288)|GBM - Glioblastoma multiforme(74;0.0402)|OV - Ovarian serous cystadenocarcinoma(323;0.18)		CCAACACGCCGTACCGCAGCC	0.662													24	35					0	0	1	0	0		A	70490121	A	A	70490121	1	1	103	1	0	0	0	0	0	0	0	0	2717	1160	40	1		1	CBWD3	9	70490121	Translation_Start_Site	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	312999	70490121	70723310	931	62880											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													14	96					0	0	1	0	0		G	70993145	G	G	70993145	3	3	103	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	503024	70993145	70220286	932	62881											
PRKACG	5568	broad.mit.edu	37	chr9	71628114	71628114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgatccagctggttgtggCgaaccacttgtggttcttga	6	12	14	9	2	1	1	0	1	1	0	2	3	2	1	2	4	2	3	2	4	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:71628114C>T	uc004agy.2	-	1	926	c.895G>A	c.(895-897)GCC>ACC	p.A299T		NM_002732	NP_002723	P22612	KAPCG_HUMAN	protein kinase, cAMP-dependent, catalytic,	299	AGC-kinase C-terminal.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|gluconeogenesis|intracellular protein kinase cascade|male gonad development|nerve growth factor receptor signaling pathway|regulation of insulin secretion|spermatogenesis|transmembrane transport|triglyceride catabolic process|water transport	cytosol|nucleoplasm	ATP binding|cAMP-dependent protein kinase activity			ovary(1)|pancreas(1)|skin(1)	3						CTGGTTGTGGCGAACCACTTG	0.567													42	66					0	0	1	0	0		T	71628114	T	T	71628114	3	4	103	1	0	0	0	0	1	0	0	0	12521	768	27	1	164	1	PRKACG	9	71628114	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	634969	71628114	69585317	933	62882											
ZFAND5	7763	broad.mit.edu	37	chr9	74975132	74975132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggactgttggaaccactagCtgttcctatttaaaaaaagg	14	11	9	7	0	0	0	0	0	0	0	1	2	1	2	2	3	2	3	2	3	7	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:74975132C>T	uc004aiv.2	-	3	435	c.157G>A	c.(157-159)GCT>ACT	p.A53T	ZFAND5_uc010mox.1_5'UTR|ZFAND5_uc010moy.1_Missense_Mutation_p.A53T|ZFAND5_uc004aix.2_Missense_Mutation_p.A53T|ZFAND5_uc004aiw.2_Missense_Mutation_p.A53T|ZFAND5_uc004aiy.2_Missense_Mutation_p.A53T	NM_006007	NP_005998	O76080	ZFAN5_HUMAN	zinc finger, AN1-type domain 5	53							DNA binding|zinc ion binding				0						GAACCACTAGCTGTTCCTATT	0.378													29	60					0	0	1	0	0		T	74975132	T	T	74975132	3	4	103	1	0	0	0	0	1	0	0	0	17655	797	28	2	500	2	ZFAND5	9	74975132	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3347018	74975132	66238299	934	62883											
TRPM6	140803	broad.mit.edu	37	chr9	77377518	77377518	+	Frame_Shift_Del	DEL	A	-	-																															aggcaagacagtttctgctgAaaaaggaactcgctttagat																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:77377518delA	uc004ajl.1	-	26	4307	c.4069delT	c.(4069-4071)TCAfs	p.S1357fs	TRPM6_uc004ajk.1_Frame_Shift_Del_p.S1352fs|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajj.1_Frame_Shift_Del_p.S313fs	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1357	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						GTTTCTGCTGAAAAAGGAACT	0.488													78	123	---	---	---	---						.	-	77377518	-	-	77377518	7	5	103	1	0	1	0	1	0	0	0	0	16616	246	9	0	2055	0	TRPM6	9	77377518	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	2402386	77377518	63835913	935	62884											
PRUNE2	158471	broad.mit.edu	37	chr9	79328535	79328535	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatctgtcgtctcggctgctGctcctctgacagatagctgg	6	12	11	12	2	3	2	0	1	3	1	6	2	4	2	1	2	3	4	1	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:79328535G>C	uc010mpk.2	-	7	983	c.859C>G	c.(859-861)CAG>GAG	p.Q287E		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	287					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CTCGGCTGCTGCTCCTCTGAC	0.483													6	12					0	0	1	0	0		C	79328535	C	C	79328535	3	2	103	1	0	0	0	0	1	0	0	0	12663	1328	46	5	8459	5	PRUNE2	9	79328535	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1951017	79328535	61884896	936	62885											
VPS13A	23230	broad.mit.edu	37	chr9	79985472	79985472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagagaaggcatcactcGtggaggaaaaggcttagttt	12	12	12	5	1	1	1	1	0	0	1	2	4	1	3	0	4	0	3	0	4	5	4	rs138767500		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:79985472G>A	uc004akr.2	+	65	9145	c.8885G>A	c.(8884-8886)CGT>CAT	p.R2962H	VPS13A_uc004akp.3_Missense_Mutation_p.R2962H|VPS13A_uc004akq.3_Missense_Mutation_p.R2962H|VPS13A_uc004aks.2_Missense_Mutation_p.R2923H	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2962					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GGCATCACTCGTGGAGGAAAA	0.403													37	50					0	0	1	0	0		A	79985472	A	A	79985472	3	1	103	1	0	0	0	0	1	0	0	0	17215	1145	40	1	9143	1	VPS13A	9	79985472	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	656937	79985472	61227959	937	62886											
TLE4	7091	broad.mit.edu	37	chr9	82323523	82323523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcagcctcaagcctaaggaCcccaatggcagtaccttgtc	10	8	9	14	0	1	0	1	0	0	0	2	1	1	1	5	2	4	3	5	2	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:82323523C>T	uc004ald.2	+	14	2009	c.1160C>T	c.(1159-1161)ACC>ATC	p.T387I	TLE4_uc004alc.2_Missense_Mutation_p.T362I|TLE4_uc010mpr.2_Missense_Mutation_p.T241I|TLE4_uc004ale.2_5'UTR|TLE4_uc011lsq.1_Missense_Mutation_p.T330I|TLE4_uc010mps.2_Missense_Mutation_p.T286I|TLE4_uc004alf.2_Missense_Mutation_p.T301I	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						AGCCTAAGGACCCCAATGGCA	0.483													44	82					0	0	1	0	0		T	82323523	T	T	82323523	3	4	103	1	0	0	0	0	1	0	0	0	15966	507	18	4	1135	4	TLE4	9	82323523	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2338051	82323523	58889908	938	62887											
HNRNPK	3190	broad.mit.edu	37	chr9	86585140	86585140	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgtaatggtaatgatcCgatcttcggatccttctaaa	10	15	7	9	2	2	1	0	1	2	0	6	3	5	2	3	2	0	2	3	2	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:86585140C>A	uc004ang.3	-	16	1522	c.1298G>T	c.(1297-1299)CGG>CTG	p.R433L	HNRNPK_uc011lsw.1_Missense_Mutation_p.R193L|HNRNPK_uc004and.3_Missense_Mutation_p.R193L|HNRNPK_uc004ank.3_Missense_Mutation_p.R432L|HNRNPK_uc004anf.3_Missense_Mutation_p.R433L|HNRNPK_uc004anh.3_Missense_Mutation_p.R409L|HNRNPK_uc011lsx.1_Missense_Mutation_p.R409L|HNRNPK_uc004ani.3_Missense_Mutation_p.R432L|HNRNPK_uc004anj.3_Missense_Mutation_p.R432L|HNRNPK_uc004ann.3_Missense_Mutation_p.R408L|HNRNPK_uc004anl.3_Missense_Mutation_p.R433L|HNRNPK_uc004anm.3_Missense_Mutation_p.R433L|uc004ano.1_5'Flank|MIR7-1_hsa-mir-7-1|MI0000263_5'Flank	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	433	KH 3.				interspecies interaction between organisms|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of low-density lipoprotein particle clearance|signal transduction	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nuclear chromatin|nucleoplasm	protein binding|RNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|single-stranded DNA binding			skin(1)	1						GGTAATGATCCGATCTTCGGA	0.413													36	58					3.78316e-11	3.96671e-11	1	1	0		A	86585140	A	A	86585140	3	1	103	1	0	0	0	0	1	0	0	0	7285	652	23	5	139	5	HNRNPK	9	86585140	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4261617	86585140	54628291	939	62888											
NTRK2	4915	broad.mit.edu	37	chr9	87342787	87342787	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccactcacatgaacaatgggGactacactctaatagccaag	15	7	7	12	0	2	1	1	1	1	0	2	2	2	2	2	2	3	0	2	2	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:87342787G>T	uc004aoa.1	+	11	2010	c.1072G>T	c.(1072-1074)GAC>TAC	p.D358Y	NTRK2_uc004anv.1_Missense_Mutation_p.D345Y|NTRK2_uc004any.1_Missense_Mutation_p.D358Y|NTRK2_uc004anz.1_Missense_Mutation_p.D358Y|NTRK2_uc011lsz.1_Missense_Mutation_p.D358Y|NTRK2_uc011lta.1_Missense_Mutation_p.D358Y|NTRK2_uc004aob.1_Missense_Mutation_p.D358Y|NTRK2_uc011ltb.1_Missense_Mutation_p.D202Y	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	neurotrophic tyrosine kinase, receptor, type 2	358	Extracellular (Potential).|Ig-like C2-type 2.				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16						GAACAATGGGGACTACACTCT	0.453										TSP Lung(25;0.17)			33	52					2.20262e-25	2.37499e-25	1	1	0		T	87342787	T	T	87342787	3	4	103	1	0	0	0	0	1	0	0	0	10726	1174	41	5	1102	5	NTRK2	9	87342787	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	757647	87342787	53870644	940	62889											
DAPK1	1612	broad.mit.edu	37	chr9	90321802	90321802	+	Frame_Shift_Del	DEL	G	-	-																															acctcactgaccaacaccatGggggggtacaaggaaagctt																								rs56169226		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:90321802delG	uc004apc.2	+	26	3954	c.3816delG	c.(3814-3816)ATGfs	p.M1272fs	DAPK1_uc004apd.2_Frame_Shift_Del_p.M1272fs|DAPK1_uc011ltg.1_Frame_Shift_Del_p.M1206fs|DAPK1_uc011lth.1_Frame_Shift_Del_p.M1009fs|DAPK1_uc004apg.2_Frame_Shift_Del_p.M249fs	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	1272					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						CCAACACCATGGGGGGGTACA	0.582									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				25	41	---	---	---	---						.	-	90321802	-	-	90321802	7	5	103	1	0	1	0	1	0	0	0	0	4238	1348	47	0	3914	0	DAPK1	9	90321802	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	2979015	90321802	50891629	941	62890											
SHC3	53358	broad.mit.edu	37	chr9	91652963	91652963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggccattgtgcatgcccGtgaggacaaaggagcccggg	8	6	15	12	2	0	1	0	1	0	0	0	3	0	3	4	4	3	1	4	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:91652963G>A	uc004aqg.2	-	11	1908	c.1601C>T	c.(1600-1602)ACG>ATG	p.T534M		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	534	SH2.				central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						GTGCATGCCCGTGAGGACAAA	0.642													52	91					0	0	1	0	0		A	91652963	A	A	91652963	3	1	103	1	0	0	0	0	1	0	0	0	14297	1145	40	1	191	1	SHC3	9	91652963	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1331161	91652963	49560468	942	62891											
SEMA4D	10507	broad.mit.edu	37	chr9	92011709	92011709	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacacgtaaagggaagtggcGctgagtggctgcagcacccg	10	5	15	11	3	0	1	0	1	0	0	0	2	0	2	1	3	2	5	1	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:92011709G>A	uc004aqo.1	-	8	929	c.357C>T	c.(355-357)AGC>AGT	p.S119S	SEMA4D_uc011ltm.1_Silent_p.S119S|SEMA4D_uc011ltn.1_RNA|SEMA4D_uc011lto.1_RNA|SEMA4D_uc004aqp.1_Silent_p.S117S	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	119	Sema.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						GGGAAGTGGCGCTGAGTGGCT	0.597													8	17					0	0	1	0	0		A	92011709	A	A	92011709	2	1	103	1	0	0	0	0	0	0	0	1	14059	1078	38	1		1	SEMA4D	9	92011709	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	358746	92011709	49201722	943	62892											
SYK	6850	broad.mit.edu	37	chr9	93640023	93640023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctggttatggagatggCagaacttggtcccctcaata	10	11	12	8	0	1	2	1	0	0	2	2	4	2	2	2	4	2	3	2	4	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:93640023C>T	uc004aqz.2	+	10	1557	c.1352C>T	c.(1351-1353)GCA>GTA	p.A451V	SYK_uc004ara.2_Missense_Mutation_p.A428V|SYK_uc004arb.2_Missense_Mutation_p.A428V|SYK_uc004arc.2_Missense_Mutation_p.A451V|SYK_uc011ltr.1_RNA|SYK_uc011lts.1_RNA|SYK_uc011ltt.1_RNA	NM_003177	NP_003168	P43405	KSYK_HUMAN	spleen tyrosine kinase isoform 1	451	Protein kinase.				cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						ATGGAGATGGCAGAACTTGGT	0.542			T	ETV6|ITK	MDS|peripheral T-cell lymphoma								14	51					0	0	1	0	0		T	93640023	T	T	93640023	3	4	103	1	0	0	0	0	1	0	0	0	15463	710	25	2	1386	2	SYK	9	93640023	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1628314	93640023	47573408	944	62893											
NOL8	55035	broad.mit.edu	37	chr9	95077846	95077846	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacacgatttttgatacctAaacctattaaagaatgcagt	16	12	6	7	1	0	3	0	1	0	2	0	4	0	3	2	0	3	1	2	0	7	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:95077846A>G	uc004arv.2	-	7	1398	c.1061T>C	c.(1060-1062)TTA>TCA	p.L354S	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Intron|NOL8_uc011ltw.1_Missense_Mutation_p.L286S	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	354					DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						TTTGATACCTAAACCTATTAA	0.353													10	12					0	0	1	0	0		G	95077846	G	G	95077846	3	3	103	1	0	0	0	0	1	0	0	0	10546	372	13	3	2486	3	NOL8	9	95077846	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1437823	95077846	46135585	945	62894											
FGD3	89846	broad.mit.edu	37	chr9	95738954	95738954	+	Frame_Shift_Del	DEL	C	-	-																															ggaacctgactctgagaacaCcccccagaaggctgacaagg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:95738954delC	uc004asw.2	+	3	1044	c.416delC	c.(415-417)ACCfs	p.T139fs	FGD3_uc004asx.2_Frame_Shift_Del_p.T139fs|FGD3_uc004asz.2_Frame_Shift_Del_p.T139fs	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	139					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						TCTGAGAACACCCCCCAGAAG	0.662													11	16	---	---	---	---						.	-	95738954	-	-	95738954	7	5	103	1	0	1	0	1	0	0	0	0	5848	507	18	0	418	0	FGD3	9	95738954	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	661108	95738954	45474477	946	62895											
WNK2	65268	broad.mit.edu	37	chr9	96055347	96055347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggcatgaaggtccccaCgatcagcgtgacctccttcc	7	8	12	14	2	1	2	1	2	0	0	4	3	4	2	5	3	1	1	5	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:96055347C>T	uc004ati.1	+	23	5711	c.5711C>T	c.(5710-5712)ACG>ATG	p.T1904M	WNK2_uc011lud.1_Missense_Mutation_p.T1867M|WNK2_uc004atj.2_Missense_Mutation_p.T1867M|WNK2_uc004atk.2_Missense_Mutation_p.T1504M|WNK2_uc004atl.1_Missense_Mutation_p.T461M	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	1904					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						AAGGTCCCCACGATCAGCGTG	0.612													21	22					0	0	1	0	0		T	96055347	T	T	96055347	3	4	103	1	0	0	0	0	1	0	0	0	17404	536	19	1	5686	1	WNK2	9	96055347	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	316393	96055347	45158084	947	62896											
FAM120A	23196	broad.mit.edu	37	chr9	96278450	96278450	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtcctcgcccatcaacccGgcccagagcggcagccccaa	8	3	10	20	4	1	1	1	0	0	1	3	1	2	1	6	3	3	1	6	3	2	0	rs138093719		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:96278450G>A	uc004atw.2	+	7	1342	c.1317G>A	c.(1315-1317)CCG>CCA	p.P439P	FAM120A_uc004atv.2_Silent_p.P439P|FAM120A_uc004atx.2_Silent_p.P221P|FAM120A_uc004aty.2_Silent_p.P220P|FAM120A_uc004atz.2_Silent_p.P88P|FAM120A_uc010mrf.1_RNA	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	439						cytoplasm|plasma membrane	RNA binding				0						CCATCAACCCGGCCCAGAGCG	0.607													33	39					0	0	1	0	0		A	96278450	A	A	96278450	2	1	103	1	0	0	0	0	0	0	0	1	5426	1103	39	1		1	FAM120A	9	96278450	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	223103	96278450	44934981	948	62897											
ZNF169	169841	broad.mit.edu	37	chr9	97063255	97063255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggctttggtcagaaggtcaCcctcatcagacaccagagga	11	8	11	11	0	4	3	4	0	0	3	4	4	4	4	2	4	0	1	2	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:97063255C>T	uc004aum.1	+	5	1520	c.1415C>T	c.(1414-1416)ACC>ATC	p.T472I		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	472	C2H2-type 9.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				CAGAAGGTCACCCTCATCAGA	0.567													17	48					0	0	1	0	0		T	97063255	T	T	97063255	3	4	103	1	0	0	0	0	1	0	0	0	17767	507	18	4	1429	4	ZNF169	9	97063255	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	784805	97063255	44150176	949	62898											
OR13C4	138804	broad.mit.edu	37	chr9	107289041	107289041	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgaattgattccaccagaAagccatgatacagaagtcag	15	9	9	8	0	1	5	1	3	0	2	2	5	2	5	3	0	2	1	3	0	4	4	rs141582176	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:107289041A>G	uc011lvn.1	-	1	450	c.450T>C	c.(448-450)CTT>CTC	p.L150L		NM_001001919	NP_001001919	Q8NGS5	O13C4_HUMAN	olfactory receptor, family 13, subfamily C,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TTCCACCAGAAAGCCATGATA	0.423													53	66					0	0	1	0	0		G	107289041	G	G	107289041	2	3	103	1	0	0	0	0	0	0	0	1	10955	1	1	3		3	OR13C4	9	107289041	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	10225786	107289041	33924390	950	62899											
ABCA1	19	broad.mit.edu	37	chr9	107548581	107548582	+	Frame_Shift_Ins	INS	-	T	T																															gaaattatctttattacctaINSttttttagatgctggacact																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:107548581_107548582insT	uc004bcl.2	-	48	6711_6712	c.6398_6399insA	c.(6397-6399)AATfs	p.N2133fs	NIPSNAP3B_uc004bcj.1_Intron	NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	2133	ABC transporter 2.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TTTATTACCTATTTTTTAGATG	0.381													33	67	---	---	---	---						.	T	107548582	T	T	107548581	7	5	103	1	0	1	1	0	0	0	0	0	28	446	16	0	398	0	ABCA1	9	107548581	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	259540	107548581	33664850	951	62900											
ABCA1	19	broad.mit.edu	37	chr9	107586833	107586833	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacttggtgcaaggaaaatAccagggcctgggaattccgt	11	8	14	8	1	0	0	0	0	0	0	1	3	1	3	3	5	2	1	3	5	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:107586833A>G	uc004bcl.2	-	18	2882	c.2569T>C	c.(2569-2571)TAT>CAT	p.Y857H		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	857					Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CAAGGAAAATACCAGGGCCTG	0.502													16	25					0	0	1	0	0		G	107586833	G	G	107586833	3	3	103	1	0	0	0	0	1	0	0	0	28	391	14	3	4348	3	ABCA1	9	107586833	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	38252	107586833	33626598	952	62901											
ZNF462	58499	broad.mit.edu	37	chr9	109687846	109687846	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaccaccgccgccgccAccaccaccatcacagccaca	11	1	4	25	3	1	0	1	0	0	0	1	0	1	0	11	0	1	0	11	0	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:109687846A>G	uc004bcz.2	+	3	1942	c.1653A>G	c.(1651-1653)CCA>CCG	p.P551P	ZNF462_uc010mto.2_Silent_p.P399P|ZNF462_uc004bda.2_Silent_p.P399P	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	551					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						cgccgccgccaccaccaccat	0.438													7	14					0	0	1	0	0		G	109687846	G	G	109687846	2	3	103	1	0	0	0	0	0	0	0	1	17951	146	6	3		3	ZNF462	9	109687846	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2101013	109687846	31525585	953	62902											
ZNF462	58499	broad.mit.edu	37	chr9	109689202	109689202	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggtggtttgccagctacGttcaacaaaaacactcctaa	12	10	9	10	1	1	0	1	0	0	0	2	0	2	0	2	3	5	3	2	3	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:109689202G>A	uc004bcz.2	+	3	3298	c.3009G>A	c.(3007-3009)ACG>ACA	p.T1003T	ZNF462_uc010mto.2_Silent_p.T851T|ZNF462_uc004bda.2_Silent_p.T851T	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1003					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						TGCCAGCTACGTTCAACAAAA	0.458													73	68					0	0	1	0	0		A	109689202	A	A	109689202	2	1	103	1	0	0	0	0	0	0	0	1	17951	1132	40	1		1	ZNF462	9	109689202	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1356	109689202	31524229	954	62903											
ZNF462	58499	broad.mit.edu	37	chr9	109746636	109746636	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaaatgccagctctgctaCtatgagaccaagcacacgga	14	7	8	12	1	1	1	0	1	1	1	1	3	1	2	2	1	6	3	2	1	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:109746636C>T	uc004bcz.2	+	10	7291	c.7002C>T	c.(7000-7002)TAC>TAT	p.Y2334Y	ZNF462_uc010mto.2_Silent_p.Y2243Y|ZNF462_uc004bda.2_Silent_p.Y2242Y|ZNF462_uc011lvz.1_Silent_p.Y291Y|uc004bdc.1_Intron	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	2334	C2H2-type 26.				transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						AGCTCTGCTACTATGAGACCA	0.507													23	53					0	0	1	0	0		T	109746636	T	T	109746636	2	4	103	1	0	0	0	0	0	0	0	1	17951	576	20	4		4	ZNF462	9	109746636	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	57434	109746636	31466795	955	62904											
ACTL7A	10881	broad.mit.edu	37	chr9	111625268	111625268	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggaggtgggccatggCgtgtcctacgtggtccccat	4	10	17	10	2	0	0	0	0	0	0	2	1	2	1	4	6	1	0	4	6	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:111625268C>T	uc004bdj.1	+	1	666	c.666C>T	c.(664-666)GGC>GGT	p.G222G		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	222						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						TGGGCCATGGCGTGTCCTACG	0.617													32	34					0	0	1	0	0		T	111625268	T	T	111625268	2	4	103	1	0	0	0	0	0	0	0	1	200	755	27	1		1	ACTL7A	9	111625268	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1878632	111625268	29588163	956	62905											
EPB41L4B	54566	broad.mit.edu	37	chr9	112017946	112017946	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccggaacacaaacgtgtgCtcttgctcacgtcccttaaa	12	9	7	13	3	2	0	1	0	1	0	3	1	3	1	2	1	5	2	2	1	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:112017946C>T	uc004bdz.1	-	11	1309	c.1014G>A	c.(1012-1014)GAG>GAA	p.E338E	EPB41L4B_uc004bea.2_Silent_p.E338E	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	338	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						CAAACGTGTGCTCTTGCTCAC	0.547													35	71					0	0	1	0	0		T	112017946	T	T	112017946	2	4	103	1	0	0	0	0	0	0	0	1	5164	796	28	2		2	EPB41L4B	9	112017946	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	392678	112017946	29195485	957	62906											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112899061	112899061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaggccaagtttgagctgCgtgccttccatgaggacaag	10	8	14	9	1	0	2	0	2	0	0	1	4	1	4	3	3	3	2	3	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:112899061C>T	uc004bei.2	+	9	2125	c.1933C>T	c.(1933-1935)CGT>TGT	p.R645C	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.R413C|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.R413C|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.R223C|AKAP2_uc011lwi.1_Missense_Mutation_p.R271C|AKAP2_uc004bem.2_Missense_Mutation_p.R271C|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.R231C|AKAP2_uc011lwj.1_Missense_Mutation_p.R182C|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.R182C	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	182							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						GTTTGAGCTGCGTGCCTTCCA	0.517													24	36					0	0	1	0	0		T	112899061	T	T	112899061	3	4	103	1	0	0	0	0	1	0	0	0	11429	768	27	1	1267	1	PALM2-AKAP2	9	112899061	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	881115	112899061	28314370	958	62907											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112899946	112899946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcttgactctggtctggacGaattgtcggtgaggtctcag	7	12	14	8	2	3	2	1	2	3	0	5	4	3	3	0	4	1	1	0	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:112899946G>A	uc004bei.2	+	9	3010	c.2818G>A	c.(2818-2820)GAA>AAA	p.E940K	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.E708K|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.E708K|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.E518K|AKAP2_uc011lwi.1_Missense_Mutation_p.E566K|AKAP2_uc004bem.2_Missense_Mutation_p.E566K|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.E526K|AKAP2_uc011lwj.1_Missense_Mutation_p.E477K|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.E477K	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	477							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						TGGTCTGGACGAATTGTCGGT	0.498													47	67					0	0	1	0	0		A	112899946	A	A	112899946	3	1	103	1	0	0	0	0	1	0	0	0	11429	1059	37	1	2152	1	PALM2-AKAP2	9	112899946	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	885	112899946	28313485	959	62908											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112900545	112900545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatggaggagaccaggccCgaaggaagctatttcagcaa	15	5	12	9	1	1	1	1	0	0	1	1	5	1	3	2	4	3	2	2	4	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:112900545C>T	uc004bei.2	+	9	3609	c.3417C>T	c.(3415-3417)CCC>CCT	p.P1139P	PALM2-AKAP2_uc004bek.3_Silent_p.P907P|PALM2-AKAP2_uc004bej.3_Silent_p.P907P|PALM2-AKAP2_uc004bel.1_Silent_p.P717P|AKAP2_uc011lwi.1_Silent_p.P765P|AKAP2_uc004bem.2_Silent_p.P765P|PALM2-AKAP2_uc010mtw.1_Silent_p.P725P|AKAP2_uc011lwj.1_Silent_p.P676P|PALM2-AKAP2_uc004ben.2_Silent_p.P676P	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	676							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						AGACCAGGCCCGAAGGAAGCT	0.602													13	19					0	0	1	0	0		T	112900545	T	T	112900545	2	4	103	1	0	0	0	0	0	0	0	1	11429	639	23	1		1	PALM2-AKAP2	9	112900545	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	599	112900545	28312886	960	62909											
SVEP1	79987	broad.mit.edu	37	chr9	113341715	113341715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggggccccgggcgcggtctCggggaagaggcggaagctga	6	3	22	10	5	1	2	0	1	1	1	2	4	1	4	2	8	1	1	2	8	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:113341715C>T	uc010mtz.2	-	1	446	c.109G>A	c.(109-111)GAG>AAG	p.E37K	SVEP1_uc010mua.1_Missense_Mutation_p.E37K|SVEP1_uc004beu.2_Missense_Mutation_p.E37K|uc004bew.1_RNA	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	37					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GGCGCGGTCTCGGGGAAGAGG	0.716													3	10					0	0	1	0	0		T	113341715	T	T	113341715	3	4	103	1	0	0	0	0	1	0	0	0	15445	893	31	1	10798	1	SVEP1	9	113341715	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	441170	113341715	27871716	961	62910											
C9orf84	158401	broad.mit.edu	37	chr9	114490105	114490105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagtcaagttcaaagtgatCgttattttctttcttttgga	9	18	8	6	1	4	1	2	1	2	0	5	2	4	2	0	1	0	3	0	1	3	7	rs41316510	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:114490105C>T	uc004bfr.2	-	11	1585	c.1450G>A	c.(1450-1452)GAT>AAT	p.D484N	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Missense_Mutation_p.D445N|C9orf84_uc010mug.2_Missense_Mutation_p.D430N	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	484										ovary(2)	2						TCAAAGTGATCGTTATTTTCT	0.328													40	62					0	0	1	0	0		T	114490105	T	T	114490105	3	4	103	1	0	0	0	0	1	0	0	0	2503	884	31	1	2948	1	C9orf84	9	114490105	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1148390	114490105	26723326	962	62911											
SUSD1	64420	broad.mit.edu	37	chr9	114886564	114886564	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaaagtactttctctccAggtgcctttctctgtgcaaa	8	16	7	10	0	2	0	0	0	2	0	5	0	3	0	2	1	3	3	2	1	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:114886564A>G	uc004bfu.2	-	6	900	c.859T>C	c.(859-861)TGG>CGG	p.W287R	SUSD1_uc010mui.2_Missense_Mutation_p.W287R|SUSD1_uc010muj.2_Missense_Mutation_p.W287R	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	287	Sushi 2.|Extracellular (Potential).					integral to membrane	calcium ion binding				0						CTTTCTCTCCAGGTGCCTTTC	0.527													58	105					0	0	1	0	0		G	114886564	G	G	114886564	3	3	103	1	0	0	0	0	1	0	0	0	15432	188	7	3	1432	3	SUSD1	9	114886564	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	396459	114886564	26326867	963	62912											
HDHD3	81932	broad.mit.edu	37	chr9	116136613	116136613	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacatcccacgtcagcagtcGtatctgcagccggtgtgcca	8	8	10	15	3	2	0	1	0	1	0	4	0	3	0	3	1	4	3	3	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:116136613G>A	uc004bhi.1	-	2	806	c.22C>T	c.(22-24)CGA>TGA	p.R8*	HDHD3_uc004bhj.2_Nonsense_Mutation_p.R8*|HDHD3_uc004bhk.2_Nonsense_Mutation_p.R8*	NM_031219	NP_112496	Q9BSH5	HDHD3_HUMAN	haloacid dehalogenase-like hydrolase domain	8							phosphoglycolate phosphatase activity|protein binding				0						GTCAGCAGTCGTATCTGCAGC	0.652													10	10					0	0	1	0	0		A	116136613	A	A	116136613	4	1	103	1	0	0	0	0	0	1	0	0	7040	1153	40	1	737	1	HDHD3	9	116136613	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1250049	116136613	25076818	964	62913											
ALAD	210	broad.mit.edu	37	chr9	116152751	116152751	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcgtccatccatcatgtcCgacggggctaccacctgaca	9	7	9	16	4	1	1	1	1	0	0	4	2	4	1	5	2	1	1	5	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:116152751C>T	uc011lxf.1	-	7	706	c.504G>A	c.(502-504)TCG>TCA	p.S168S	ALAD_uc011lxe.1_Silent_p.S151S|ALAD_uc004bhl.3_Silent_p.S197S	NM_000031	NP_000022	P13716	HEM2_HUMAN	delta-aminolevulinic acid dehydratase	168					heme biosynthetic process|protein homooligomerization	cytosol	identical protein binding|lead ion binding|porphobilinogen synthase activity|zinc ion binding				0					Aminolevulinic acid(DB00855)	CCATCATGTCCGACGGGGCTA	0.627													14	31					0	0	1	0	0		T	116152751	T	T	116152751	2	4	103	1	0	0	0	0	0	0	0	1	483	639	23	1		1	ALAD	9	116152751	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	16138	116152751	25060680	965	62914											
ZNF618	114991	broad.mit.edu	37	chr9	116770651	116770651	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtggaaggggcccctgagaAccgggcaggtaagtccttgg	8	7	17	9	1	0	1	0	1	0	1	1	3	1	2	4	6	1	2	4	6	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:116770651A>G	uc004bid.2	+	8	767	c.668A>G	c.(667-669)AAC>AGC	p.N223S	ZNF618_uc004bib.1_Missense_Mutation_p.N191S|ZNF618_uc004bic.2_Missense_Mutation_p.N191S|ZNF618_uc011lxi.1_Missense_Mutation_p.N191S|ZNF618_uc011lxj.1_Missense_Mutation_p.N191S	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	223					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCCCCTGAGAACCGGGCAGGT	0.637													24	29					0	0	1	0	0		G	116770651	G	G	116770651	3	3	103	1	0	0	0	0	1	0	0	0	18067	43	2	3	598	3	ZNF618	9	116770651	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	617900	116770651	24442780	966	62915											
ZNF618	114991	broad.mit.edu	37	chr9	116811914	116811914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacggccaaggccaacgacGcaggcactgtcagcaagctc	11	4	11	15	3	2	0	2	0	0	0	3	1	2	0	2	3	3	4	2	3	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:116811914G>A	uc004bid.2	+	15	2431	c.2332G>A	c.(2332-2334)GCA>ACA	p.A778T	ZNF618_uc004bic.2_Missense_Mutation_p.A685T|ZNF618_uc011lxi.1_Missense_Mutation_p.A745T|ZNF618_uc011lxj.1_Missense_Mutation_p.A746T|ZNF618_uc010mvb.2_Missense_Mutation_p.A368T	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	778					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGCCAACGACGCAGGCACTGT	0.632													29	48					0	0	1	0	0		A	116811914	A	A	116811914	3	1	103	1	0	0	0	0	1	0	0	0	18067	1087	38	1	2107	1	ZNF618	9	116811914	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	41263	116811914	24401517	967	62916											
COL27A1	85301	broad.mit.edu	37	chr9	116930508	116930508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctaccctgtgacgcaggtcGctcacaattactgtacccac	9	10	7	15	2	2	1	1	1	1	0	3	1	2	1	2	1	3	3	2	1	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:116930508G>A	uc011lxl.1	+	3	673	c.673G>A	c.(673-675)GCT>ACT	p.A225T	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Missense_Mutation_p.A75T	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	225	Laminin G-like.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GACGCAGGTCGCTCACAATTA	0.562													21	49					0	0	1	0	0		A	116930508	A	A	116930508	3	1	103	1	0	0	0	0	1	0	0	0	3688	1087	38	1	683	1	COL27A1	9	116930508	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	118594	116930508	24282923	968	62917											
COL27A1	85301	broad.mit.edu	37	chr9	117068923	117068923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccaaagagaaccccgccCgggtctgcagggacctcatg	10	4	12	15	2	2	1	1	0	1	1	2	3	2	2	5	2	2	2	5	2	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:117068923C>T	uc011lxl.1	+	58	5062	c.5062C>T	c.(5062-5064)CGG>TGG	p.R1688W	COL27A1_uc004bii.2_RNA|COL27A1_uc011lxn.1_5'Flank	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1688	Fibrillar collagen NC1.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GAACCCCGCCCGGGTCTGCAG	0.612											OREG0019417	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	30					0	0	1	0	0		T	117068923	T	T	117068923	3	4	103	1	0	0	0	0	1	0	0	0	3688	643	23	1	5292	1	COL27A1	9	117068923	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	138415	117068923	24144508	969	62918											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123199642	123199642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagctgttcctggaaaccctCggccacacagtaatccacat	11	8	7	15	1	0	0	0	0	0	0	3	1	2	1	4	2	2	3	4	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:123199642C>T	uc004bkf.2	-	25	4067	c.3886G>A	c.(3886-3888)GAG>AAG	p.E1296K	CDK5RAP2_uc010mvi.2_Missense_Mutation_p.E305K|CDK5RAP2_uc004bke.2_Missense_Mutation_p.E581K|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.E1296K|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.E561K|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.E561K|CDK5RAP2_uc011lya.1_Missense_Mutation_p.E561K|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.E1066K|CDK5RAP2_uc004bki.2_Missense_Mutation_p.E1063K	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	1296					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						TGGAAACCCTCGGCCACACAG	0.493													13	28					0	0	1	0	0		T	123199642	T	T	123199642	3	4	103	1	0	0	0	0	1	0	0	0	3149	893	31	1	1851	1	CDK5RAP2	9	123199642	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	6130719	123199642	18013789	970	62919											
DAB2IP	153090	broad.mit.edu	37	chr9	124461682	124461682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccgcaaccacagcttcCgccacatcctgccggggttc	7	7	10	17	3	0	0	0	0	0	0	3	1	2	1	6	3	3	3	6	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:124461682C>T	uc004bln.2	+	3	292	c.223C>T	c.(223-225)CGC>TGC	p.R75C		NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	103	PH.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity	p.R75*(1)		ovary(1)|central_nervous_system(1)	2						CCACAGCTTCCGCCACATCCT	0.453													7	12					0	0	1	0	0		T	124461682	T	T	124461682	3	4	103	1	0	0	0	0	1	0	0	0	4222	652	23	1	233	1	DAB2IP	9	124461682	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1262040	124461682	16751749	971	62920											
OR1N1	138883	broad.mit.edu	37	chr9	125289508	125289508	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattccgaagagggactgcTgttgctctggaggcgctgat	9	10	14	8	2	1	2	0	1	1	1	2	5	2	4	1	3	2	4	1	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:125289508T>G	uc004bmn.1	-	1	65	c.65A>C	c.(64-66)CAG>CCG	p.Q22P		NM_012363	NP_036495	Q8NGS0	OR1N1_HUMAN	olfactory receptor, family 1, subfamily N,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)|breast(1)|skin(1)	3						GAGGGACTGCTGTTGCTCTGG	0.502													14	29					0	0	1	0	0		G	125289508	G	G	125289508	3	3	103	1	0	0	0	0	1	0	0	0	10988	1580	55	5	874	5	OR1N1	9	125289508	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	827826	125289508	15923923	972	62921											
MAPKAP1	79109	broad.mit.edu	37	chr9	128206809	128206809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttcattgacggtagcagCgtccgattcaaagtagaggt	12	11	11	7	3	2	2	2	1	0	1	3	3	3	2	1	2	2	3	1	2	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:128206809C>T	uc004bpv.2	-	11	1747	c.1414G>A	c.(1414-1416)GCT>ACT	p.A472T	MAPKAP1_uc011lzt.1_Missense_Mutation_p.A275T|MAPKAP1_uc010mwz.2_RNA|MAPKAP1_uc011lzu.1_Missense_Mutation_p.A275T|MAPKAP1_uc011lzv.1_Missense_Mutation_p.A180T|MAPKAP1_uc004bpw.2_Missense_Mutation_p.A280T|MAPKAP1_uc004bpx.2_Missense_Mutation_p.A280T|MAPKAP1_uc004bpy.2_Missense_Mutation_p.A436T|MAPKAP1_uc004bpz.2_Missense_Mutation_p.A425T|MAPKAP1_uc010mxa.2_RNA|MAPKAP1_uc004bpu.2_RNA	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	472	Interaction with ATF2.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4						ACGGTAGCAGCGTCCGATTCA	0.468													35	61					0	0	1	0	0		T	128206809	T	T	128206809	3	4	103	1	0	0	0	0	1	0	0	0	9306	768	27	1	162	1	MAPKAP1	9	128206809	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2917301	128206809	13006622	973	62922											
ZBTB34	403341	broad.mit.edu	37	chr9	129642094	129642094	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcagcgttggagatgttgActctgttaccgtcggtgctg	7	13	13	8	3	2	2	1	1	1	1	3	3	2	2	1	2	3	4	1	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:129642094A>C	uc004bqm.3	+	2	501	c.404A>C	c.(403-405)GAC>GCC	p.D135A		NM_001099270	NP_001092740	Q8NCN2	ZBT34_HUMAN	zinc finger and BTB domain containing 34	135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGAGATGTTGACTCTGTTACC	0.493													31	62					0	0	1	0	0		C	129642094	C	C	129642094	3	2	103	1	0	0	0	0	1	0	0	0	17562	275	10	5	406	5	ZBTB34	9	129642094	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1435285	129642094	11571337	974	62923											
RALGPS1	9649	broad.mit.edu	37	chr9	129931041	129931041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccagaagtttgtggaagacGacaactacaagtaagtcccc	14	8	9	10	1	0	2	0	0	0	2	2	4	2	3	3	1	2	2	3	1	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:129931041G>A	uc004bqo.1	+	10	1099	c.832G>A	c.(832-834)GAC>AAC	p.D278N	RALGPS1_uc011mab.1_Missense_Mutation_p.D278N|RALGPS1_uc011mac.1_Missense_Mutation_p.D278N|RALGPS1_uc004bqq.3_Missense_Mutation_p.D278N	NM_014636	NP_055451	Q5JS13	RGPS1_HUMAN	Ral GEF with PH domain and SH3 binding motif 1	278	Ras-GEF.				small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity			ovary(1)	1						TGTGGAAGACGACAACTACAA	0.537													43	73					0	0	1	0	0		A	129931041	A	A	129931041	3	1	103	1	0	0	0	0	1	0	0	0	13042	1058	37	1	866	1	RALGPS1	9	129931041	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	288947	129931041	11282390	975	62924											
FAM129B	64855	broad.mit.edu	37	chr9	130271374	130271374	+	Frame_Shift_Del	DEL	G	-	-																															atagcagctctgcatcttcaGggggtggtacgccagccggg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:130271374delG	uc004brh.2	-	10	1400	c.1198delC	c.(1198-1200)CTGfs	p.L400fs	FAM129B_uc004bri.2_Frame_Shift_Del_p.L387fs|FAM129B_uc004brj.3_Frame_Shift_Del_p.L400fs	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	400							protein binding				0						TGCATCTTCAGGGGGTGGTAC	0.662													11	21	---	---	---	---						.	-	130271374	-	-	130271374	7	5	103	1	0	1	0	1	0	0	0	0	5448	991	35	0	1062	0	FAM129B	9	130271374	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	340333	130271374	10942057	976	62925											
CDK9	1025	broad.mit.edu	37	chr9	130551706	130551706	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccacccacctgacgtccAtgttcgagtacttggcacca	8	10	7	16	2	1	1	0	1	1	0	4	2	2	1	5	1	1	3	5	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:130551706A>G	uc004bse.2	+	7	1126	c.1003A>G	c.(1003-1005)ATG>GTG	p.M335V		NM_001261	NP_001252	P50750	CDK9_HUMAN	cyclin-dependent kinase 9	335					cell proliferation|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	transcription elongation factor complex	ATP binding|cyclin-dependent protein kinase activity|DNA binding|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(1)	1						CCTGACGTCCATGTTCGAGTA	0.627													27	57					0	0	1	0	0		G	130551706	G	G	130551706	3	3	103	1	0	0	0	0	1	0	0	0	3154	217	8	3	1029	3	CDK9	9	130551706	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	280332	130551706	10661725	977	62926											
FAM102A	399665	broad.mit.edu	37	chr9	130710647	130710647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcctgtgccagcactcacGtcttgaagcagggatctcca	9	8	11	13	1	3	1	1	1	2	0	4	2	3	2	3	2	3	2	3	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:130710647G>A	uc004bsx.1	-	5	540	c.461C>T	c.(460-462)ACG>ATG	p.T154M	FAM102A_uc004bsw.1_Missense_Mutation_p.T12M|FAM102A_uc004bsy.1_5'Flank	NM_001035254	NP_001030331	Q5T9C2	F102A_HUMAN	early estrogen-induced gene 1 protein isoform a	154										ovary(1)	1						CAGCACTCACGTCTTGAAGCA	0.612													35	40					0	0	1	0	0		A	130710647	A	A	130710647	3	1	103	1	0	0	0	0	1	0	0	0	5393	1159	40	1	721	1	FAM102A	9	130710647	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	158941	130710647	10502784	978	62927											
CERCAM	51148	broad.mit.edu	37	chr9	131198171	131198171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcctccaaccccagccccGagatgagctctaggtgaggc	9	5	11	16	1	1	3	0	2	1	1	2	4	2	3	6	2	4	1	6	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:131198171G>A	uc004buz.3	+	12	2173	c.1775G>A	c.(1774-1776)CGA>CAA	p.R592Q	CERCAM_uc004buy.1_Missense_Mutation_p.R514Q|CERCAM_uc010mxz.2_Missense_Mutation_p.R514Q	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	592	Prevents secretion from ER (Potential).				cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						CCCCAGCCCCGAGATGAGCTC	0.657													6	10					0	0	1	0	0		A	131198171	A	A	131198171	3	1	103	1	0	0	0	0	1	0	0	0	3269	1058	37	1	1821	1	CERCAM	9	131198171	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	487524	131198171	10015260	979	62928											
NUP188	23511	broad.mit.edu	37	chr9	131731771	131731771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagagaactgcatcagtttgCgcaggatgggcttatttgtc	10	12	12	7	1	1	1	1	0	0	1	2	3	1	2	0	2	3	4	0	2	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:131731771C>T	uc004bws.1	+	10	912	c.890C>T	c.(889-891)GCG>GTG	p.A297V		NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	297					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						CATCAGTTTGCGCAGGATGGG	0.428													20	54					0	0	1	0	0		T	131731771	T	T	131731771	3	4	103	1	0	0	0	0	1	0	0	0	10777	768	27	1	928	1	NUP188	9	131731771	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	533600	131731771	9481660	980	62929											
SH3GLB2	56904	broad.mit.edu	37	chr9	131771452	131771452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catagagcacccgagctttgCgggtcccactggcagggggg	7	6	16	12	2	0	1	0	0	0	1	1	2	1	1	2	5	3	3	2	5	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:131771452C>T	uc004bwv.2	-	10	1159	c.1013G>A	c.(1012-1014)CGC>CAC	p.R338H	SH3GLB2_uc004bww.2_Missense_Mutation_p.R347H|SH3GLB2_uc004bwx.1_Missense_Mutation_p.R338H|SH3GLB2_uc011mbm.1_Missense_Mutation_p.R347H	NM_020145	NP_064530	Q9NR46	SHLB2_HUMAN	SH3-domain GRB2-like endophilin B2	338	SH3.				filopodium assembly|signal transduction	cytoplasm|nucleus	cytoskeletal adaptor activity|SH3 domain binding				0						CCGAGCTTTGCGGGTCCCACT	0.697													12	11					0	0	1	0	0		T	131771452	T	T	131771452	3	4	103	1	0	0	0	0	1	0	0	0	14279	768	27	1	182	1	SH3GLB2	9	131771452	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	39681	131771452	9441979	981	62930											
METTL11A	28989	broad.mit.edu	37	chr9	132396542	132396542	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggctccaggacttcaccccGgagccggactcttacgacgt	7	7	12	15	4	2	0	1	0	1	0	3	4	3	3	4	4	2	1	4	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:132396542G>A	uc004byd.1	+	3	566	c.372G>A	c.(370-372)CCG>CCA	p.P124P	METTL11A_uc010myw.1_Intron|METTL11A_uc011mbs.1_Intron	NM_014064	NP_054783	Q9BV86	NTM1A_HUMAN	methyltransferase like 11A	124					chromosome segregation|N-terminal peptidyl-proline dimethylation|N-terminal peptidyl-serine dimethylation|N-terminal peptidyl-serine trimethylation|spindle organization	nucleus	protein binding|protein methyltransferase activity				0						ACTTCACCCCGGAGCCGGACT	0.587													37	57					0	0	1	0	0		A	132396542	A	A	132396542	2	1	103	1	0	0	0	0	0	0	0	1	9513	1103	39	1		1	METTL11A	9	132396542	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	625090	132396542	8816889	982	62931											
TOR1B	27348	broad.mit.edu	37	chr9	132571734	132571734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggccgagatgagggccCgtggttctgccatagatgaa	9	8	16	8	2	1	5	0	3	1	2	1	6	1	5	3	3	1	1	3	3	2	2	rs147733415		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:132571734C>T	uc004byk.1	+	5	943	c.883C>T	c.(883-885)CGT>TGT	p.R295C		NM_014506	NP_055321	O14657	TOR1B_HUMAN	torsin family 1, member B (torsin B) precursor	295					chaperone mediated protein folding requiring cofactor|response to unfolded protein	endoplasmic reticulum lumen	ATP binding|nucleoside-triphosphatase activity|unfolded protein binding				0		Ovarian(14;0.0586)				GATGAGGGCCCGTGGTTCTGC	0.478													32	47					0	0	1	0	0		T	132571734	T	T	132571734	3	4	103	1	0	0	0	0	1	0	0	0	16400	652	23	1	901	1	TOR1B	9	132571734	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	175192	132571734	8641697	983	62932											
LAMC3	10319	broad.mit.edu	37	chr9	133914603	133914603	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtgaccgctgtctgccCgggttccactcgctcagtga	6	10	12	13	3	2	2	1	2	1	0	4	2	3	2	3	1	1	3	3	1	1	1	rs148513856		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:133914603C>T	uc004caa.1	+	6	1349	c.1251C>T	c.(1249-1251)CCC>CCT	p.P417P		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	417	Laminin EGF-like 3.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		GCTGTCTGCCCGGGTTCCACT	0.632													15	24					0	0	1	0	0		T	133914603	T	T	133914603	2	4	103	1	0	0	0	0	0	0	0	1	8632	639	23	1		1	LAMC3	9	133914603	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1342869	133914603	7298828	984	62933											
POMT1	10585	broad.mit.edu	37	chr9	134379721	134379721	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgactcacctacccgcgggCtgtggtgtaagctaaatgac	9	8	12	12	3	1	1	1	1	0	0	1	2	1	1	2	2	2	3	2	2	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:134379721C>T	uc004cav.2	+	2	318	c.116C>T	c.(115-117)GCT>GTT	p.A39V	POMT1_uc011mci.1_Missense_Mutation_p.A39V|POMT1_uc004cax.2_Missense_Mutation_p.A39V|POMT1_uc011mcj.1_Intron|POMT1_uc004cau.2_Missense_Mutation_p.A39V|POMT1_uc004caw.2_Intron|POMT1_uc011mck.1_Intron|POMT1_uc011mcl.1_Intron|POMT1_uc011mcm.1_Missense_Mutation_p.A39V	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	39					multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		TACCCGCGGGCTGTGGTGTAA	0.532											OREG0019563	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	33					0	0	1	0	0		T	134379721	T	T	134379721	3	4	103	1	0	0	0	0	1	0	0	0	12264	797	28	2	118	2	POMT1	9	134379721	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	465118	134379721	6833710	985	62934											
GTF3C4	9329	broad.mit.edu	37	chr9	135553865	135553865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaaacggtaatatcgccGtgtggcagtttcagctgccg	9	11	12	9	4	1	1	1	1	0	0	2	1	1	1	2	2	3	4	2	2	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:135553865G>A	uc010mzv.2	+	2	1117	c.859G>A	c.(859-861)GTG>ATG	p.V287M	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	287					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		TAATATCGCCGTGTGGCAGTT	0.502													44	61					0	0	1	0	0		A	135553865	A	A	135553865	3	1	103	1	0	0	0	0	1	0	0	0	6891	1145	40	1	865	1	GTF3C4	9	135553865	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1174144	135553865	5659566	986	62935											
TSC1	7248	broad.mit.edu	37	chr9	135786076	135786076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagaggagttccttttccaCctgcttagagacaagggcag	10	9	11	11	0	0	2	0	0	0	2	2	4	2	3	4	2	1	3	4	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:135786076C>T	uc004cca.2	-	12	1379	c.1145G>A	c.(1144-1146)GGT>GAT	p.G382D	TSC1_uc004ccb.3_Missense_Mutation_p.G381D|TSC1_uc011mcq.1_Missense_Mutation_p.G331D|TSC1_uc011mcr.1_Intron|TSC1_uc011mcs.1_Missense_Mutation_p.G261D|TSC1_uc004ccc.1_Missense_Mutation_p.G382D	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	382					activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding	p.?(1)		lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		TCCTTTTCCACCTGCTTAGAG	0.463			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				51	123					0	0	1	0	0		T	135786076	T	T	135786076	3	4	103	1	0	0	0	0	1	0	0	0	16631	521	18	4	2397	4	TSC1	9	135786076	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	232211	135786076	5427355	987	62936											
GTF3C5	9328	broad.mit.edu	37	chr9	135929331	135929332	+	Splice_Site	INS	-	A	A																															gttgtggaatgaaacacggtINSaaaaattcctgaaagctttg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:135929331_135929332insA	uc004cci.3	+	6	1325	c.988_splice	c.e6+2	p.G330_splice	GTF3C5_uc010mzz.2_Splice_Site_p.G205_splice|GTF3C5_uc004ccj.3_Splice_Site_p.G330_splice	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5							transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		TGAAACACGGTAAAAATTCCTG	0.391													20	23	---	---	---	---						.	A	135929332	A	A	135929331	8	5	103	1	0	1	1	0	0	0	1	0	6892	1652	57	0	1012	0	GTF3C5	9	135929331	Splice_Site	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	143255	135929331	5284100	988	62937											
SURF6	6838	broad.mit.edu	37	chr9	136199105	136199105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcctcccggtcagcggcGtgaggttccccttcaccctc	4	10	10	17	3	2	1	2	1	0	0	6	1	5	1	5	3	1	2	5	3	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:136199105G>A	uc004cdb.3	-	5	764	c.686C>T	c.(685-687)ACG>ATG	p.T229M		NM_006753	NP_006744	O75683	SURF6_HUMAN	surfeit 6	229						granular component	DNA binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.16e-06)|Epithelial(140;8.34e-06)|all cancers(34;7.08e-05)		GGTCAGCGGCGTGAGGTTCCC	0.667													11	69					0	0	1	0	0		A	136199105	A	A	136199105	3	1	103	1	0	0	0	0	1	0	0	0	15431	1145	40	1	403	1	SURF6	9	136199105	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	269774	136199105	5014326	989	62938											
SURF2	6835	broad.mit.edu	37	chr9	136226922	136226922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggacggtgacgggcctcGcccgcgggaagccttctggg	5	6	18	12	5	1	1	0	1	1	0	2	4	1	3	3	5	1	0	3	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:136226922G>A	uc004cdi.2	+	4	482	c.434G>A	c.(433-435)CGC>CAC	p.R145H		NM_017503	NP_059973	Q15527	SURF2_HUMAN	surfeit 2	145							protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.87e-07)|Epithelial(140;4.02e-06)|all cancers(34;3.71e-05)		GACGGGCCTCGCCCGCGGGAA	0.627													3	21					0	0	1	0	0		A	136226922	A	A	136226922	3	1	103	1	0	0	0	0	1	0	0	0	15429	1087	38	1	448	1	SURF2	9	136226922	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	27817	136226922	4986509	990	62939											
C9orf96	169436	broad.mit.edu	37	chr9	136266947	136266947	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagtgctcttcagagccacCccgaggaggagccacttctt	8	9	11	13	1	3	2	1	1	2	1	3	5	3	4	4	2	3	1	4	2	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:136266947C>A	uc004cdk.2	+	13	1340	c.1279C>A	c.(1279-1281)CCC>ACC	p.P427T	C9orf96_uc004cdl.2_Intron	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	427							ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		TCAGAGCCACCCCGAGGAGGA	0.627													13	35					5.50884e-06	5.62949e-06	1	1	0		A	136266947	A	A	136266947	3	1	103	1	0	0	0	0	1	0	0	0	2511	623	22	5	1329	5	C9orf96	9	136266947	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	40025	136266947	4946484	991	62940											
SARDH	1757	broad.mit.edu	37	chr9	136536724	136536724	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggccgtgcttggcacccgcGgccatcacagcccggtacac	7	5	12	17	4	1	0	1	0	0	0	1	0	1	0	4	4	3	3	4	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:136536724G>A	uc004cep.3	-	18	2393	c.2259C>T	c.(2257-2259)GCC>GCT	p.A753A	SARDH_uc004ceo.2_Silent_p.A753A|SARDH_uc011mdn.1_Silent_p.A753A|SARDH_uc011mdo.1_Silent_p.A585A|SARDH_uc004cen.2_Silent_p.A181A	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	753					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		TGGCACCCGCGGCCATCACAG	0.662													3	11					0	0	1	0	0		A	136536724	A	A	136536724	2	1	103	1	0	0	0	0	0	0	0	1	13866	1103	39	1		1	SARDH	9	136536724	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	269777	136536724	4676707	992	62941											
WDR5	11091	broad.mit.edu	37	chr9	137005059	137005059	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcacagccaaccccttcGtcatccgccactcagagcaa	12	5	7	17	2	2	2	2	0	0	2	4	2	3	2	5	0	4	2	5	0	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:137005059G>A	uc004cey.2	+	2	231	c.60G>A	c.(58-60)TCG>TCA	p.S20S	WDR5_uc004cez.2_Silent_p.S20S	NM_017588	NP_060058	P61964	WDR5_HUMAN	WD repeat domain 5	20					histone H3 acetylation|histone H3-K4 methylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ada2/Gcn5/Ada3 transcription activator complex|MLL1 complex|Set1C/COMPASS complex	protein binding				0		Myeloproliferative disorder(178;0.0255)|Medulloblastoma(224;0.123)		Epithelial(140;6.61e-13)|all cancers(34;5.66e-12)|OV - Ovarian serous cystadenocarcinoma(145;3.93e-08)|GBM - Glioblastoma multiforme(294;0.00326)|READ - Rectum adenocarcinoma(205;0.154)		CAACCCCTTCGTCATCCGCCA	0.622													28	40					0	0	1	0	0		A	137005059	A	A	137005059	2	1	103	1	0	0	0	0	0	0	0	1	17329	1132	40	1		1	WDR5	9	137005059	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	468335	137005059	4208372	993	62942											
COL5A1	1289	broad.mit.edu	37	chr9	137703422	137703422	+	Frame_Shift_Del	DEL	C	-	-																															gtcccagaggctttcctggaCcccctgggccagtggggctg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:137703422delC	uc004cfe.2	+	46	4049	c.3667delC	c.(3667-3669)CCCfs	p.P1223fs		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1223	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		CTTTCCTGGACCCCCTGGGCC	0.637											OREG0019605	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	3	---	---	---	---						.	-	137703422	-	-	137703422	7	5	103	1	0	1	0	1	0	0	0	0	3699	507	18	0	3849	0	COL5A1	9	137703422	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	698363	137703422	3510009	994	62943											
COL5A1	1289	broad.mit.edu	37	chr9	137710579	137710579	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgggaagcccggaccGgatggccttcgagggatccc	6	5	15	15	3	0	0	0	0	0	0	2	5	1	4	6	5	1	0	6	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:137710579G>A	uc004cfe.2	+	55	4690	c.4308G>A	c.(4306-4308)CCG>CCA	p.P1436P		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1436	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		AGCCCGGACCGGATGGCCTTC	0.697													9	14					0	0	1	0	0		A	137710579	A	A	137710579	2	1	103	1	0	0	0	0	0	0	0	1	3699	1103	39	1		1	COL5A1	9	137710579	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	7157	137710579	3502852	995	62944											
OLFM1	10439	broad.mit.edu	37	chr9	137998693	137998693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accctctcgcccctgaaggcGataaccgggtgagtgtcccc	7	7	11	16	3	1	2	0	2	1	0	3	3	2	2	6	2	1	0	6	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:137998693G>A	uc010nar.2	+	5	1091	c.775G>A	c.(775-777)GAT>AAT	p.D259N	OLFM1_uc004cfl.3_Missense_Mutation_p.D241N|OLFM1_uc004cfn.3_Missense_Mutation_p.D10N	NM_014279	NP_055094	Q99784	NOE1_HUMAN	olfactomedin related ER localized protein	259	Olfactomedin-like.				nervous system development	endoplasmic reticulum lumen	protein binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(178;0.0333)		Epithelial(140;5.49e-08)|OV - Ovarian serous cystadenocarcinoma(145;9.68e-08)|all cancers(34;1.88e-07)		CCCTGAAGGCGATAACCGGGT	0.617													3	8					0	0	1	0	0		A	137998693	A	A	137998693	3	1	103	1	0	0	0	0	1	0	0	0	10871	1058	37	1	749	1	OLFM1	9	137998693	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	288114	137998693	3214738	996	62945											
MRPS2	51116	broad.mit.edu	37	chr9	138395646	138395646	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcctcctctttggccccacGgtccgcctgccggacctcat	3	9	9	20	4	2	0	1	0	1	0	4	1	4	1	8	3	1	0	8	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:138395646G>A	uc004cfv.3	+	4	632	c.558G>A	c.(556-558)ACG>ACA	p.T186T	MRPS2_uc004cfw.3_Silent_p.T96T|MRPS2_uc004cfx.3_Silent_p.T101T|MRPS2_uc010nat.2_Silent_p.T167T|uc004cfy.2_Intron	NM_016034	NP_057118	Q9Y399	RT02_HUMAN	mitochondrial ribosomal protein S2	186					translation	mitochondrion|small ribosomal subunit	structural constituent of ribosome				0				OV - Ovarian serous cystadenocarcinoma(145;1.46e-53)|Epithelial(140;2.04e-47)|all cancers(34;1.23e-42)		TTGGCCCCACGGTCCGCCTGC	0.607													20	35					0	0	1	0	0		A	138395646	A	A	138395646	2	1	103	1	0	0	0	0	0	0	0	1	9849	1103	39	1		1	MRPS2	9	138395646	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	396953	138395646	2817785	997	62946											
CAMSAP1	157922	broad.mit.edu	37	chr9	138703221	138703222	+	Frame_Shift_Del	DEL	TG	-	-																															tgccacaggtggttgtggatTgtgagtgcgtccacactgac																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:138703221_138703222delTG	uc004cgr.3	-	17	4742_4743	c.4742_4743delCA	c.(4741-4743)ACAfs	p.T1581fs	CAMSAP1_uc004cgq.3_Frame_Shift_Del_p.T1471fs|CAMSAP1_uc010nbg.2_Frame_Shift_Del_p.T1303fs	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1581	CKK.					cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		GGTTGTGGATTGTGAGTGCGTC	0.52													7	14	---	---	---	---						.	-	138703222	-	-	138703221	7	5	103	1	0	1	0	1	0	0	0	0	2614	1799	63	0	69	0	CAMSAP1	9	138703221	Frame_Shift_Del	DEL	TG	TCGA-BR-A4QL-01A-31D-A25D-08	307575	138703221	2510210	998	62947											
CARD9	64170	broad.mit.edu	37	chr9	139264798	139264798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttgcgcagggagaagatgGtgttggcctgctcctggtgg	5	10	17	9	1	0	2	0	0	0	2	1	3	1	2	3	5	2	3	3	5	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:139264798G>A	uc004chg.3	-	6	1065	c.899C>T	c.(898-900)ACC>ATC	p.T300I	CARD9_uc011mdw.1_Missense_Mutation_p.T300I|CARD9_uc011mdx.1_Missense_Mutation_p.T196I	NM_052813	NP_434700	Q9H257	CARD9_HUMAN	caspase recruitment domain protein 9 isoform 1	300					positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of JNK cascade|positive regulation of stress-activated MAPK cascade|regulation of apoptosis	cytoplasm	CARD domain binding|protein homodimerization activity			pancreas(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;4.58e-06)|Epithelial(140;5.65e-06)		GGAGAAGATGGTGTTGGCCTG	0.697													3	11					0	0	1	0	0		A	139264798	A	A	139264798	3	1	103	1	0	0	0	0	1	0	0	0	2655	1261	44	4	796	4	CARD9	9	139264798	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	561577	139264798	1948633	999	62948											
SEC16A	9919	broad.mit.edu	37	chr9	139370620	139370620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catatctgaactggtcactcGgggaggaagggtccaaattg	11	9	13	8	1	2	1	1	1	1	0	4	3	3	3	1	5	1	0	1	5	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:139370620G>A	uc004chx.2	-	3	1757	c.1448C>T	c.(1447-1449)CCG>CTG	p.P483L	SEC16A_uc004chv.3_Missense_Mutation_p.P110L|SEC16A_uc004chw.2_Missense_Mutation_p.P483L|SEC16A_uc010nbn.2_Missense_Mutation_p.P483L|SEC16A_uc010nbo.1_Missense_Mutation_p.P483L	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	305					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		CTGGTCACTCGGGGAGGAAGG	0.552													25	27					0	0	1	0	0		A	139370620	A	A	139370620	3	1	103	1	0	0	0	0	1	0	0	0	14011	1116	39	1	5745	1	SEC16A	9	139370620	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	105822	139370620	1842811	1000	62949											
C9orf86	55684	broad.mit.edu	37	chr9	139733726	139733726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacagctcccacgaggaccGcagcacccccctggccaggc	8	2	12	19	2	0	0	0	0	0	0	1	3	1	2	6	4	2	3	6	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:139733726G>A	uc004cji.1	+	12	1814	c.1546G>A	c.(1546-1548)GCA>ACA	p.A516T	C9orf86_uc004cjj.1_Missense_Mutation_p.A517T|C9orf86_uc004cjk.1_Intron|C9orf86_uc010nbr.1_Intron|C9orf86_uc004cjl.1_Intron|C9orf86_uc010nbs.1_Missense_Mutation_p.A401T|C9orf86_uc004cjn.1_Missense_Mutation_p.A310T	NM_024718	NP_078994	Q3YEC7	PARF_HUMAN	Rab-like GTP-binding protein 1 isoform 1	516					small GTPase mediated signal transduction	cytoplasm|nucleus	GTP binding|protein binding				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.61e-05)|Epithelial(140;0.000183)		CACGAGGACCGCAGCACCCCC	0.662													7	6					0	0	1	0	0		A	139733726	A	A	139733726	3	1	103	1	0	0	0	0	1	0	0	0	2505	1087	38	1	1839	1	C9orf86	9	139733726	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	363106	139733726	1479705	1001	62950											
ABCA2	20	broad.mit.edu	37	chr9	139905490	139905490	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccacgacgccctcaacCgccatggccaccagtccgcg	9	3	9	20	5	1	0	1	0	0	0	2	1	2	0	7	1	2	0	7	1	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:139905490C>T	uc011mem.1	-	38	6136	c.5988G>A	c.(5986-5988)GCG>GCA	p.A1996A	ABCA2_uc011mel.1_Silent_p.A1997A|ABCA2_uc004ckl.1_Silent_p.A1927A|ABCA2_uc004ckm.1_Silent_p.A2027A	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1996	Helical; (Potential).				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CGCCCTCAACCGCCATGGCCA	0.537													13	25					0	0	1	0	0		T	139905490	T	T	139905490	2	4	103	1	0	0	0	0	0	0	0	1	32	639	23	1		1	ABCA2	9	139905490	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	171764	139905490	1307941	1002	62951											
ABCA2	20	broad.mit.edu	37	chr9	139907184	139907184	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtgcagtcggaagcggtcGgaggtgaagagcaggtactc	9	6	18	8	4	0	2	0	1	0	1	3	4	0	4	0	6	4	3	0	6	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:139907184G>A	uc011mem.1	-	30	5206	c.5058C>T	c.(5056-5058)TCC>TCT	p.S1686S	ABCA2_uc011mel.1_Silent_p.S1687S|ABCA2_uc004ckl.1_Silent_p.S1617S|ABCA2_uc004ckm.1_Silent_p.S1717S|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1686					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GGAAGCGGTCGGAGGTGAAGA	0.662													26	35					0	0	1	0	0		A	139907184	A	A	139907184	2	1	103	1	0	0	0	0	0	0	0	1	32	1103	39	1		1	ABCA2	9	139907184	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1694	139907184	1306247	1003	62952											
FUT7	2529	broad.mit.edu	37	chr9	139925737	139925737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggctccaggcggccataggGcacaaagatgtccgagtcgc	9	5	15	12	3	0	1	0	0	0	1	3	2	2	1	3	4	0	2	3	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:139925737G>A	uc004ckq.2	-	2	1303	c.454C>T	c.(454-456)CCC>TCC	p.P152S	ABCA2_uc011mel.1_5'Flank|ABCA2_uc011mem.1_5'Flank|ABCA2_uc004ckl.1_5'Flank|ABCA2_uc004ckm.1_5'Flank|C9orf139_uc004ckp.1_Intron	NM_004479	NP_004470	Q11130	FUT7_HUMAN	fucosyltransferase 7	152	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity				0	all_cancers(76;0.0893)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.96e-05)|Epithelial(140;0.000486)		CGGCCATAGGGCACAAAGATG	0.677													4	9					0	0	1	0	0		A	139925737	A	A	139925737	3	1	103	1	0	0	0	0	1	0	0	0	6123	1203	42	2	578	2	FUT7	9	139925737	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	18553	139925737	1287694	1004	62953											
C9orf139	401563	broad.mit.edu	37	chr9	139929339	139929339	+	Missense_Mutation	SNP	G	T	T																															ctgggcagggtggctgccatGgggcccaatcgtgcgtggga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:139929339G>T	uc004ckp.1	+	3	1920	c.406G>T	c.(406-408)GGG>TGG	p.G136W	FUT7_uc004ckq.2_5'Flank	NM_207511	NP_997394	Q6ZV77	CI139_HUMAN	hypothetical protein LOC401563	136											0	all_cancers(76;0.0893)	Myeloproliferative disorder(178;0.0821)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.99e-05)|Epithelial(140;0.000493)		TGGCTGCCATGGGGCCCAATC	0.632													31	48					3.6622e-26	3.95502e-26	1	1	0		T	139929339	T	T	139929339	3	4	103	1	0	0	0	0	1	0	0	0	2462	1348	47	5	412	5	C9orf139	9	139929339	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3602	139929339	1284092	1005	62954	119	2									
C9orf139	401563	broad.mit.edu	37	chr9	139929343	139929343	+	Missense_Mutation	SNP	C	G	G																															gcagggtggctgccatggggCccaatcgtgcgtgggaacct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:139929343C>G	uc004ckp.1	+	3	1924	c.410C>G	c.(409-411)GCC>GGC	p.A137G	FUT7_uc004ckq.2_5'Flank	NM_207511	NP_997394	Q6ZV77	CI139_HUMAN	hypothetical protein LOC401563	137											0	all_cancers(76;0.0893)	Myeloproliferative disorder(178;0.0821)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.99e-05)|Epithelial(140;0.000493)		TGCCATGGGGCCCAATCGTGC	0.627													32	51					0	0	1	0	0		G	139929343	G	G	139929343	3	3	103	1	0	0	0	0	1	0	0	0	2462	739	26	5	416	5	C9orf139	9	139929343	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4	139929343	1284088	1006	62955	119	2									
NOXA1	10811	broad.mit.edu	37	chr9	140327956	140327956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactgtcaccgtgcagtgcGccttcacagtggccctgagg	6	9	13	13	2	2	2	2	2	0	0	2	2	2	2	3	2	2	1	3	2	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:140327956G>A	uc004cmv.2	+	11	1096	c.961G>A	c.(961-963)GCC>ACC	p.A321T	C9orf167_uc011mew.1_Intron|NOXA1_uc004cmu.2_Missense_Mutation_p.A321T|NOXA1_uc010nch.2_Missense_Mutation_p.A265T	NM_006647	NP_006638	Q86UR1	NOXA1_HUMAN	NADPH oxidase activator 1	321	OPR.		Missing (in NOXA1truncated, a cDNA isolated from Caco-2 cells treated with butyrate).		regulation of hydrogen peroxide metabolic process|regulation of respiratory burst|superoxide metabolic process	cytoplasm|NADPH oxidase complex	Rac GTPase binding|superoxide-generating NADPH oxidase activator activity				0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000238)|Epithelial(140;0.000982)		CGTGCAGTGCGCCTTCACAGT	0.706													5	7					0	0	1	0	0		A	140327956	A	A	140327956	3	1	103	1	0	0	0	0	1	0	0	0	10579	1087	38	1	1003	1	NOXA1	9	140327956	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	398613	140327956	885475	1007	62956											
CACNA1B	774	broad.mit.edu	37	chr9	140777198	140777198	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctgcgcttctcctaggaCgacacggagccctatttcat	7	12	9	13	3	3	0	1	0	2	0	4	3	3	2	2	2	2	2	2	2	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr9:140777198C>T	uc004cog.2	+	3	538	c.393C>T	c.(391-393)GAC>GAT	p.D131D	uc004cof.1_Intron	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	131	I.|Extracellular (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TCTCCTAGGACGACACGGAGC	0.592													22	41					0	0	1	0	0		T	140777198	T	T	140777198	2	4	103	1	0	0	0	0	0	0	0	1	2542	535	19	1		1	CACNA1B	9	140777198	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	449242	140777198	436233	1008	62957											
DIP2C	22982	broad.mit.edu	37	chr10	372999	372999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgaggtgctgacggcccGcgggtgaaggcccaggtcct	7	5	17	12	4	0	2	0	2	0	0	1	4	1	2	3	5	2	1	3	5	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:372999G>A	uc001ifp.2	-	31	3961	c.3871C>T	c.(3871-3873)CGG>TGG	p.R1291W		NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	1291						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CTGACGGCCCGCGGGTGAAGG	0.607													21	32					0	0	1	0	0		A	372999	A	A	372999	3	1	103	1	0	0	0	0	1	0	0	0	4535	1086	38	1	827	1	DIP2C	10	372999	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08		372999	135161748	1009	62958											
LARP4B	23185	broad.mit.edu	37	chr10	890939	890939	+	Frame_Shift_Del	DEL	T	-	-																															agataagcagaattccaatgTttttttaagtacttctcggg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:890939delT	uc001ifs.1	-	5	528	c.487delA	c.(487-489)ACAfs	p.T163fs		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	163	HTH La-type RNA-binding.						nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						AATTCCAATGTTTTTTTAAGT	0.353													37	59	---	---	---	---						.	-	890939	-	-	890939	7	5	103	1	0	1	0	1	0	0	0	0	8647	1725	60	0	1781	0	LARP4B	10	890939	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	517940	890939	134643808	1010	62959											
C10orf18	54906	broad.mit.edu	37	chr10	5762725	5762725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttttctgctagacttgaaCgcagtgaaaatggtaagaaa	14	12	9	6	1	1	4	0	2	1	2	1	4	1	4	0	1	2	3	0	1	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:5762725C>T	uc001iij.2	+	5	659	c.34C>T	c.(34-36)CGC>TGC	p.R12C		NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	12										ovary(1)|central_nervous_system(1)	2						TAGACTTGAACGCAGTGAAAA	0.274													10	15					0	0	1	0	0		T	5762725	T	T	5762725	3	4	103	1	0	0	0	0	1	0	0	0	1599	536	19	1	40	1	C10orf18	10	5762725	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4871786	5762725	129772022	1011	62960											
IL15RA	3601	broad.mit.edu	37	chr10	6008149	6008149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtccagtgggcgacattcGtggccttgttcaacacgcac	7	11	11	12	3	1	0	1	0	0	0	3	1	2	0	2	2	1	2	2	2	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:6008149G>A	uc001iiv.2	-	2	324	c.242C>T	c.(241-243)ACG>ATG	p.T81M	IL15RA_uc010qau.1_Missense_Mutation_p.T81M|IL15RA_uc001iiw.2_Missense_Mutation_p.T45M|IL15RA_uc001iix.2_Missense_Mutation_p.T45M|IL15RA_uc001iiy.2_Intron	NM_002189	NP_002180	Q13261	I15RA_HUMAN	interleukin 15 receptor, alpha isoform 1	81	Sushi.|Extracellular (Potential).				cell proliferation	cytoplasmic vesicle membrane|endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane|nuclear membrane	cytokine receptor activity				0						GGCGACATTCGTGGCCTTGTT	0.572													19	18					0	0	1	0	0		A	6008149	A	A	6008149	3	1	103	1	0	0	0	0	1	0	0	0	7648	1145	40	1	585	1	IL15RA	10	6008149	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	245424	6008149	129526598	1012	62961											
PRKCQ	5588	broad.mit.edu	37	chr10	6533724	6533724	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggtcgggctcttgtaattGtagactttaaatctgtgtgg	9	15	12	5	1	2	1	0	0	2	1	3	1	2	1	0	3	0	3	0	3	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:6533724G>A	uc001ijj.1	-	8	786	c.711C>T	c.(709-711)TAC>TAT	p.Y237Y	PRKCQ_uc009xim.1_Silent_p.Y237Y|PRKCQ_uc001iji.1_Silent_p.Y270Y|PRKCQ_uc009xin.1_Silent_p.Y201Y|PRKCQ_uc010qax.1_Silent_p.Y112Y	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	237	Phorbol-ester/DAG-type 2.				axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						TCTTGTAATTGTAGACTTTAA	0.502													37	75					0	0	1	0	0		A	6533724	A	A	6533724	2	1	103	1	0	0	0	0	0	0	0	1	12537	1372	48	4		4	PRKCQ	10	6533724	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	525575	6533724	129001023	1013	62962											
TAF3	83860	broad.mit.edu	37	chr10	8006080	8006080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggctattaagcactaaagggGacacgctagatgttgtgtta	12	11	12	6	1	0	1	0	0	0	1	0	2	0	2	0	3	1	5	0	3	6	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:8006080G>A	uc010qbd.1	+	3	607	c.607G>A	c.(607-609)GAC>AAC	p.D203N		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	203					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						CACTAAAGGGGACACGCTAGA	0.468													44	49					0	0	1	0	0		A	8006080	A	A	8006080	3	1	103	1	0	0	0	0	1	0	0	0	15550	1174	41	4	617	4	TAF3	10	8006080	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1472356	8006080	127528667	1014	62963											
USP6NL	9712	broad.mit.edu	37	chr10	11504898	11504898	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctccggagaagcactgaCggaaagagtagaaccatgag	14	7	12	8	2	1	5	0	2	1	3	2	7	1	6	2	2	2	2	2	2	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:11504898C>T	uc001ikt.3	-	15	2350	c.2029G>A	c.(2029-2031)GTC>ATC	p.V677I	USP6NL_uc001iks.1_Missense_Mutation_p.V694I	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	677						intracellular	Rab GTPase activator activity				0						GAAGCACTGACGGAAAGAGTA	0.527													8	20					0	0	1	0	0		T	11504898	T	T	11504898	3	4	103	1	0	0	0	0	1	0	0	0	17113	536	19	1	461	1	USP6NL	10	11504898	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3498818	11504898	124029849	1015	62964											
ECHDC3	79746	broad.mit.edu	37	chr10	11805348	11805348	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accatgcggatcgctaggaaGatcgcatcgctgagccgtcc	9	7	12	13	5	0	2	0	1	0	1	4	4	1	4	3	2	2	3	3	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:11805348G>A	uc001ikw.3	+	5	937	c.717G>A	c.(715-717)AAG>AAA	p.K239K	ECHDC3_uc009xix.2_Silent_p.K108K	NM_024693	NP_078969	Q96DC8	ECHD3_HUMAN	enoyl Coenzyme A hydratase domain containing 3	239						mitochondrion	catalytic activity				0						TCGCTAGGAAGATCGCATCGC	0.642													24	35					0	0	1	0	0		A	11805348	A	A	11805348	2	1	103	1	0	0	0	0	0	0	0	1	4901	933	33	4		4	ECHDC3	10	11805348	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	300450	11805348	123729399	1016	62965											
SEPHS1	22929	broad.mit.edu	37	chr10	13364896	13364896	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccgcaggccttgctcacCgcagccatcttggccagcac	6	9	9	17	2	2	0	1	0	1	0	3	0	3	0	5	2	3	4	5	2	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:13364896C>T	uc001imk.2	-	8	1262	c.903G>A	c.(901-903)GCG>GCA	p.A301A	SEPHS1_uc001imh.2_Silent_p.A225A|SEPHS1_uc010qbs.1_Silent_p.A253A|SEPHS1_uc001imi.2_Silent_p.A299A|SEPHS1_uc001imj.2_Silent_p.A301A|SEPHS1_uc010qbt.1_Silent_p.A234A	NM_012247	NP_036379	P49903	SPS1_HUMAN	selenophosphate synthetase 1	301					protein modification process		ATP binding|GTP binding|selenide, water dikinase activity			skin(1)	1						CCTTGCTCACCGCAGCCATCT	0.582													16	23					0	0	1	0	0		T	13364896	T	T	13364896	2	4	103	1	0	0	0	0	0	0	0	1	14079	639	23	1		1	SEPHS1	10	13364896	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1559548	13364896	122169851	1017	62966											
C1QL3	389941	broad.mit.edu	37	chr10	16562696	16562696	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaaggcgatcttgggcacCgtgctgtaggtggcggcgct	6	9	17	9	4	1	1	0	0	1	1	1	2	1	1	1	5	1	4	1	5	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:16562696C>T	uc001ioj.1	-	1	1309	c.369G>A	c.(367-369)ACG>ACA	p.T123T		NM_001010908	NP_001010908	Q5VWW1	C1QL3_HUMAN	complement component 1, q subcomponent-like 3	123	C1q.					collagen				ovary(1)	1						TCTTGGGCACCGTGCTGTAGG	0.582													25	46					0	0	1	0	0		T	16562696	T	T	16562696	2	4	103	1	0	0	0	0	0	0	0	1	1963	639	23	1		1	C1QL3	10	16562696	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3197800	16562696	118972051	1018	62967											
CUBN	8029	broad.mit.edu	37	chr10	17107573	17107574	+	Frame_Shift_Ins	INS	-	A	A																															gcgaggtcggagtcagtcacINSaaacaccagcatcaatgagt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:17107573_17107574insA	uc001ioo.2	-	22	3124_3125	c.3072_3073insT	c.(3070-3075)TTTGTGfs	p.F1024fs		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1024_1025	CUB 5.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GAGTCAGTCACAAACACCAGCA	0.421													61	129	---	---	---	---						.	A	17107574	A	A	17107573	7	5	103	1	0	1	1	0	0	0	0	0	4054	478	17	0	7982	0	CUBN	10	17107573	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	544877	17107573	118427174	1019	62968											
PTPLA	9200	broad.mit.edu	37	chr10	17636370	17636370	+	Frame_Shift_Del	DEL	A	-	-																															ccaacaggatataagatgatAaaaaaattatatctggagaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:17636370delA	uc001ipg.2	-	6	653	c.618delT	c.(616-618)TTTfs	p.F206fs		NM_014241	NP_055056	B0YJ81	HACD1_HUMAN	protein tyrosine phosphatase-like, member A	206	Helical; (Potential).				fatty acid biosynthetic process|multicellular organismal development|signal transduction	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein tyrosine phosphatase activity			central_nervous_system(1)|skin(1)	2						ATAAGATGATAAAAAAATTAT	0.313													25	45	---	---	---	---						.	-	17636370	-	-	17636370	7	5	103	1	0	1	0	1	0	0	0	0	12797	359	13	0	256	0	PTPLA	10	17636370	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	528797	17636370	117898377	1020	62969											
MRC1	4360	broad.mit.edu	37	chr10	17908612	17908612	+	Frame_Shift_Del	DEL	G	-	-																															ccatgagaaccgggattgcaGggggcttatgggatgttttg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:17908612delG	uc001ipk.2	+	12	1928	c.1825delG	c.(1825-1827)GGGfs	p.G609fs		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	609	C-type lectin 3.|Extracellular (Potential).				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						CGGGATTGCAGGGGGCTTATG	0.512													11	4	---	---	---	---						.	-	17908612	-	-	17908612	7	5	103	1	0	1	0	1	0	0	0	0	9774	1000	35	0	1871	0	MRC1	10	17908612	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	272242	17908612	117626135	1021	62970											
C10orf140	387640	broad.mit.edu	37	chr10	21804329	21804329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagttttacctgtaggaCgagggcttctagctgatttc	7	15	10	9	1	2	1	1	1	2	0	4	3	2	2	1	2	2	4	1	2	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:21804329C>T	uc009xkd.2	-	4	4676	c.2423G>A	c.(2422-2424)CGT>CAT	p.R808H	uc001iqp.1_Intron	NM_207371	NP_997254	Q1XH10	DLN1_HUMAN	hypothetical protein LOC387640	727						nucleus	nucleotide binding			ovary(1)	1						ACCTGTAGGACGAGGGCTTCT	0.438													54	69					0	0	1	0	0		T	21804329	T	T	21804329	3	4	103	1	0	0	0	0	1	0	0	0	1598	536	19	1	307	1	C10orf140	10	21804329	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3895717	21804329	113730418	1022	62971											
MYO3A	53904	broad.mit.edu	37	chr10	26305796	26305796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaccgtcggaacacatccGtaggaacaccgttttggatg	10	8	12	11	4	0	0	0	0	0	0	2	3	1	3	3	4	2	3	3	4	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:26305796G>A	uc001isn.2	+	7	916	c.556G>A	c.(556-558)GTA>ATA	p.V186I	MYO3A_uc009xko.1_Missense_Mutation_p.V186I|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Missense_Mutation_p.V186I|MYO3A_uc001ism.2_Missense_Mutation_p.V186I	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	186	Protein kinase.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GAACACATCCGTAGGAACACC	0.443													23	52					0	0	1	0	0		A	26305796	A	A	26305796	3	1	103	1	0	0	0	0	1	0	0	0	10094	1145	40	1	574	1	MYO3A	10	26305796	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4501467	26305796	109228951	1023	62972											
MYO3A	53904	broad.mit.edu	37	chr10	26446278	26446278	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctaaaatggtggtgggcCaacctcattttgtccgttgc	7	14	11	9	1	2	0	1	0	1	0	3	0	3	0	3	3	2	1	3	3	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:26446278C>T	uc001isn.2	+	26	3193	c.2833C>T	c.(2833-2835)CAA>TAA	p.Q945*	MYO3A_uc009xko.1_Nonsense_Mutation_p.Q945*|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	945	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GGTGGTGGGCCAACCTCATTT	0.383													31	50					0	0	1	0	0		T	26446278	T	T	26446278	4	4	103	1	0	0	0	0	0	1	0	0	10094	595	21	4	2927	4	MYO3A	10	26446278	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	140482	26446278	109088469	1024	62973											
GAD2	2572	broad.mit.edu	37	chr10	26570016	26570016	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctctcctggttagagaagaGgtatgtctctcttgactctg	7	14	11	9	0	4	3	0	1	4	2	6	4	4	3	1	2	0	3	1	2	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:26570016G>T	uc001isp.2	+	12	1739	c.1236G>T	c.(1234-1236)GAG>GAT	p.E412D	GAD2_uc001isq.2_Missense_Mutation_p.E412D	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	412					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	TTAGAGAAGAGGTATGTCTCT	0.418													26	43					2.48779e-11	2.61117e-11	1	1	0		T	26570016	T	T	26570016	3	4	103	1	0	0	0	0	1	0	0	0	6194	1014	35	5	1282	5	GAD2	10	26570016	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	123738	26570016	108964731	1025	62974											
PTCHD3	374308	broad.mit.edu	37	chr10	27687763	27687763	+	Frame_Shift_Del	DEL	A	-	-																															aaggggccaaaatagtctctAaaaaacaaacttattggatg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:27687763delA	uc001itu.2	-	4	1882	c.1764delT	c.(1762-1764)TTTfs	p.F588fs		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	588					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						AATAGTCTCTAAAAAACAAAC	0.373													24	32	---	---	---	---						.	-	27687763	-	-	27687763	7	5	103	1	0	1	0	1	0	0	0	0	12756	359	13	0	543	0	PTCHD3	10	27687763	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	1117747	27687763	107846984	1026	62975											
PTCHD3	374308	broad.mit.edu	37	chr10	27702415	27702415	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagcgccctgtacctcgcGcacacctgctggtactggat	7	8	11	15	3	0	1	0	0	0	1	1	2	0	2	3	2	4	4	3	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:27702415G>A	uc001itu.2	-	1	883	c.765C>T	c.(763-765)TGC>TGT	p.C255C		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	255					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						TGTACCTCGCGCACACCTGCT	0.622													26	20					0	0	1	0	0		A	27702415	A	A	27702415	2	1	103	1	0	0	0	0	0	0	0	1	12756	1079	38	1		1	PTCHD3	10	27702415	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	14652	27702415	107832332	1027	62976											
KIAA1462	57608	broad.mit.edu	37	chr10	30315305	30315305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctttcattctcatcaggcGgtcagggtctgctctcctag	5	14	9	13	1	7	0	4	0	4	0	9	0	7	0	1	3	1	1	1	3	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:30315305G>A	uc001iux.2	-	2	3831	c.3772C>T	c.(3772-3774)CGC>TGC	p.R1258C	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.R1120C|KIAA1462_uc009xle.1_Missense_Mutation_p.R1258C	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	1258										ovary(4)	4						CTCATCAGGCGGTCAGGGTCT	0.532													14	51					0	0	1	0	0		A	30315305	A	A	30315305	3	1	103	1	0	0	0	0	1	0	0	0	8250	1116	39	1	315	1	KIAA1462	10	30315305	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2612890	30315305	105219442	1028	62977											
ZNF438	220929	broad.mit.edu	37	chr10	31137669	31137669	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggttctcaccatgatgaagTttcatgtgtgtgctcaggct	7	14	11	9	1	3	2	3	2	1	0	4	2	3	2	1	2	1	4	1	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:31137669T>C	uc010qdz.1	-	7	2100	c.1665A>G	c.(1663-1665)AAA>AAG	p.K555K	ZNF438_uc001ivn.2_Silent_p.K506K|ZNF438_uc010qdy.1_Silent_p.K545K|ZNF438_uc001ivo.3_Silent_p.K119K|ZNF438_uc009xlg.2_Silent_p.K555K|ZNF438_uc001ivp.3_Silent_p.K545K|ZNF438_uc010qea.1_Silent_p.K555K|ZNF438_uc010qeb.1_Silent_p.K555K|ZNF438_uc010qec.1_Silent_p.K119K	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	555	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				CATGATGAAGTTTCATGTGTG	0.463													84	134					0	0	1	0	0		C	31137669	C	C	31137669	2	2	103	1	0	0	0	0	0	0	0	1	17935	1722	60	3		3	ZNF438	10	31137669	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	822364	31137669	104397078	1029	62978											
CCDC7	221016	broad.mit.edu	37	chr10	32740786	32740786	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctttgcccattccatcgagTaagacaaagaacttactacc	13	10	6	12	1	0	2	0	0	0	2	2	3	1	2	3	0	4	2	3	0	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:32740786T>C	uc001iwj.2	+	2	786	c.216T>C	c.(214-216)AGT>AGC	p.S72S	CCDC7_uc009xlu.1_RNA|CCDC7_uc001iwk.2_Silent_p.S72S|CCDC7_uc009xlv.2_RNA|CCDC7_uc009xlw.1_RNA|CCDC7_uc009xlx.1_Silent_p.S72S|CCDC7_uc009xly.1_RNA	NM_145023	NP_659460	Q96M83	CCDC7_HUMAN	coiled-coil domain containing 7	72											0		Breast(68;0.000207)|Prostate(175;0.0107)				TTCCATCGAGTAAGACAAAGA	0.323													17	32					0	0	1	0	0		C	32740786	C	C	32740786	2	2	103	1	0	0	0	0	0	0	0	1	2845	1635	57	3		3	CCDC7	10	32740786	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1603117	32740786	102793961	1030	62979											
FZD8	8325	broad.mit.edu	37	chr10	35929087	35929087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccacttcataccggccGccaggaaccatgtgagcgac	9	6	10	16	3	1	1	1	1	0	0	1	3	1	2	6	2	4	0	6	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:35929087G>A	uc001iyz.1	-	1	1276	c.1271C>T	c.(1270-1272)GCG>GTG	p.A424V		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	424	Cytoplasmic (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						CATACCGGCCGCCAGGAACCA	0.632													11	23					0	0	1	0	0		A	35929087	A	A	35929087	3	1	103	1	0	0	0	0	1	0	0	0	6150	1087	38	1	817	1	FZD8	10	35929087	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3188301	35929087	99605660	1031	62980											
PPYR1	5540	broad.mit.edu	37	chr10	47087071	47087071	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtgcctcctctgccagccGctgaccgccgtctacaccat	6	9	8	18	3	2	1	0	1	2	0	3	1	3	1	7	0	4	1	7	0	1	1	rs143217098		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:47087071G>A	uc001jee.2	+	3	707	c.288G>A	c.(286-288)CCG>CCA	p.P96P	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Silent_p.P96P	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	96	Helical; Name=2; (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						TCTGCCAGCCGCTGACCGCCG	0.562													23	155					0	0	1	0	0		A	47087071	A	A	47087071	2	1	103	1	0	0	0	0	0	0	0	1	12438	1074	38	1		1	PPYR1	10	47087071	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	11157984	47087071	88447676	1032	62981											
AGAP6	414189	broad.mit.edu	37	chr10	51754188	51754188	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagcaactgtacaaaccAtgtaagtaaacactcaaata	21	7	5	8	0	1	1	1	0	0	1	1	1	1	1	1	0	5	4	1	0	10	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:51754188A>G	uc001jix.3	+	4	793	c.395A>G	c.(394-396)CAT>CGT	p.H132R		NM_001077665	NP_001071133	Q5VW22	AGAP6_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	132					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			skin(1)	1						TGTACAAACCATGTAAGTAAA	0.299													9	89					0	0	1	0	0		G	51754188	G	G	51754188	3	3	103	1	0	0	0	0	1	0	0	0	372	231	8	3	409	3	AGAP6	10	51754188	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	4667117	51754188	83780559	1033	62982											
PRKG1	5592	broad.mit.edu	37	chr10	53667314	53667314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagatcctcagcaagcttgCtgatgtccttgaagaggtaa	12	10	11	8	0	1	4	1	2	0	2	3	5	3	4	2	1	3	4	2	1	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:53667314C>T	uc001jjm.2	+	5	895	c.701C>T	c.(700-702)GCT>GTT	p.A234V	PRKG1_uc001jjn.2_Missense_Mutation_p.A249V|PRKG1_uc001jjo.2_Missense_Mutation_p.A249V	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	234	cGMP 2.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		AGCAAGCTTGCTGATGTCCTT	0.433													41	71					0	0	1	0	0		T	53667314	T	T	53667314	3	4	103	1	0	0	0	0	1	0	0	0	12544	797	28	2	1034	2	PRKG1	10	53667314	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1913126	53667314	81867433	1034	62983											
PCDH15	65217	broad.mit.edu	37	chr10	56077099	56077099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcacgagtgtttggcacaaGgacacaaggaagaaacattg	16	7	11	7	1	1	1	1	0	0	1	1	4	1	3	0	3	1	2	0	3	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:56077099G>A	uc001jju.1	-	8	1203	c.808C>T	c.(808-810)CTT>TTT	p.L270F	PCDH15_uc010qhq.1_Missense_Mutation_p.L275F|PCDH15_uc010qhr.1_Missense_Mutation_p.L270F|PCDH15_uc010qhs.1_Missense_Mutation_p.L275F|PCDH15_uc010qht.1_Missense_Mutation_p.L270F|PCDH15_uc010qhu.1_Missense_Mutation_p.L270F|PCDH15_uc001jjv.1_Missense_Mutation_p.L248F|PCDH15_uc010qhv.1_Missense_Mutation_p.L270F|PCDH15_uc010qhw.1_Missense_Mutation_p.L233F|PCDH15_uc010qhx.1_Missense_Mutation_p.L270F|PCDH15_uc010qhy.1_Missense_Mutation_p.L275F|PCDH15_uc010qhz.1_Missense_Mutation_p.L270F|PCDH15_uc010qia.1_Missense_Mutation_p.L248F|PCDH15_uc010qib.1_Missense_Mutation_p.L248F|PCDH15_uc001jjw.2_Missense_Mutation_p.L270F	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	270	Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TTTGGCACAAGGACACAAGGA	0.463										HNSCC(58;0.16)			40	68					0	0	1	0	0		A	56077099	A	A	56077099	3	1	103	1	0	0	0	0	1	0	0	0	11530	1000	35	4	6807	4	PCDH15	10	56077099	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2409785	56077099	79457648	1035	62984											
RTKN2	219790	broad.mit.edu	37	chr10	63959571	63959571	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaaggtggtttccgtggTgacataatctcaattttcat	12	14	8	7	1	2	1	2	1	1	0	4	1	3	1	1	3	1	1	1	3	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:63959571T>C	uc001jlw.2	-	11	1333	c.1236A>G	c.(1234-1236)TCA>TCG	p.S412S	RTKN2_uc009xpf.1_Silent_p.S214S|RTKN2_uc001jlv.2_Silent_p.S66S	NM_145307	NP_660350	Q8IZC4	RTKN2_HUMAN	rhotekin 2	412					signal transduction	intracellular					0	Prostate(12;0.0297)|all_hematologic(501;0.215)					GTTTCCGTGGTGACATAATCT	0.373													21	55					0	0	1	0	0		C	63959571	C	C	63959571	2	2	103	1	0	0	0	0	0	0	0	1	13748	1683	59	3		3	RTKN2	10	63959571	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	7882472	63959571	71575176	1036	62985											
JMJD1C	221037	broad.mit.edu	37	chr10	64967560	64967560	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgctgcttttctccacaTgccattcagttttctctttg	4	19	5	13	1	3	0	1	0	2	0	6	0	4	0	3	0	2	3	3	0	0	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:64967560T>C	uc001jmn.2	-	10	4169	c.3869A>G	c.(3868-3870)CAT>CGT	p.H1290R	JMJD1C_uc001jml.2_Missense_Mutation_p.H1071R|JMJD1C_uc001jmm.2_Missense_Mutation_p.H1002R|JMJD1C_uc010qiq.1_Missense_Mutation_p.H1108R|JMJD1C_uc009xpi.2_Missense_Mutation_p.H1108R|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Missense_Mutation_p.H327R	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1290					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TTTCTCCACATGCCATTCAGT	0.423													43	93					0	0	1	0	0		C	64967560	C	C	64967560	3	2	103	1	0	0	0	0	1	0	0	0	7966	1464	51	3	3821	3	JMJD1C	10	64967560	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1007989	64967560	70567187	1037	62986											
H2AFY2	55506	broad.mit.edu	37	chr10	71835526	71835526	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgaagaaagggacgttcAagtaccggatcagcgtgggc	12	7	14	8	3	3	2	2	1	1	1	3	4	3	4	1	3	2	2	1	3	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:71835526A>G	uc001jqm.2	+	2	571	c.112A>G	c.(112-114)AAG>GAG	p.K38E	H2AFY2_uc001jqn.2_RNA	NM_018649	NP_061119	Q9P0M6	H2AW_HUMAN	H2A histone family, member Y2	38	Histone H2A.				chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding			skin(1)	1						AGGGACGTTCAAGTACCGGAT	0.562													17	30					0	0	1	0	0		G	71835526	G	G	71835526	3	3	103	1	0	0	0	0	1	0	0	0	6946	131	5	3	114	3	H2AFY2	10	71835526	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	6867966	71835526	63699221	1038	62987											
ADAMTS14	140766	broad.mit.edu	37	chr10	72495033	72495033	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgccgctttgactttggCagtggctaccagacctgctt	6	12	11	12	1	0	2	0	1	0	1	0	2	0	2	3	2	3	4	3	2	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:72495033C>T	uc001jrh.2	+	9	1461	c.1461C>T	c.(1459-1461)GGC>GGT	p.G487G	ADAMTS14_uc001jrg.2_Silent_p.G490G|ADAMTS14_uc001jri.1_Silent_p.G10G	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	487	Disintegrin.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						TTGACTTTGGCAGTGGCTACC	0.597													15	27					0	0	1	0	0		T	72495033	T	T	72495033	2	4	103	1	0	0	0	0	0	0	0	1	259	697	25	2		2	ADAMTS14	10	72495033	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	659507	72495033	63039714	1039	62988											
UNC5B	219699	broad.mit.edu	37	chr10	73058904	73058904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaccaaagcgagccccaCgggtgtgatcctggacctct	8	7	11	15	2	1	1	0	1	1	0	2	3	2	2	6	2	3	0	6	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:73058904C>T	uc001jro.2	+	17	3153	c.2708C>T	c.(2707-2709)ACG>ATG	p.T903M	UNC5B_uc001jrp.2_Missense_Mutation_p.T892M|UNC5B_uc001jrq.1_5'Flank	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	903	Cytoplasmic (Potential).|Death.				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						GCGAGCCCCACGGGTGTGATC	0.612													81	131					0	0	1	0	0		T	73058904	T	T	73058904	3	4	103	1	0	0	0	0	1	0	0	0	17018	536	19	1	2774	1	UNC5B	10	73058904	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	563871	73058904	62475843	1040	62989											
PSAP	5660	broad.mit.edu	37	chr10	73594249	73594249	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctttcagtccaaggacCgggccggctagagctaaaat	11	9	10	11	2	2	1	1	0	1	1	3	2	3	2	3	3	1	2	3	3	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:73594249C>T	uc001jsm.2	-	2	158	c.54G>A	c.(52-54)CCG>CCA	p.P18P		NM_002778	NP_002769	P07602	SAP_HUMAN	prosaposin isoform a preproprotein	18	Saposin A-type 1.				glycosphingolipid metabolic process|lipid transport|platelet activation|platelet degranulation	extracellular space|Golgi apparatus|integral to membrane|lysosomal lumen	enzyme activator activity|lipid binding			ovary(1)	1						GTCCAAGGACCGGGCCGGCTA	0.587													4	20					0	0	1	0	0		T	73594249	T	T	73594249	2	4	103	1	0	0	0	0	0	0	0	1	12665	639	23	1		1	PSAP	10	73594249	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	535345	73594249	61940498	1041	62990											
PPP3CB	5532	broad.mit.edu	37	chr10	75238307	75238307	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgccaagaaaaaggtatcGtgtattagcaggtgatcctc	13	10	10	8	2	0	2	0	1	0	1	4	2	1	2	2	2	1	3	2	2	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:75238307G>A	uc001jue.2	-	3	496	c.361C>T	c.(361-363)CGA>TGA	p.R121*	PPP3CB_uc001juf.2_Nonsense_Mutation_p.R121*|PPP3CB_uc001jug.2_Nonsense_Mutation_p.R121*|PPP3CB_uc001jui.2_Nonsense_Mutation_p.R121*|PPP3CB_uc001juh.2_Nonsense_Mutation_p.R35*	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	121	Catalytic.									skin(1)	1	Prostate(51;0.0119)					AAAAGGTATCGTGTATTAGCA	0.343													32	39					0	0	1	0	0		A	75238307	A	A	75238307	4	1	103	1	0	0	0	0	0	1	0	0	12420	1153	40	1	1264	1	PPP3CB	10	75238307	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1644058	75238307	60296440	1042	62991											
AGAP5	729092	broad.mit.edu	37	chr10	75451802	75451802	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttgagtgtttacttacaTggtttgtacagttgcttctt	7	21	8	5	0	1	1	0	1	1	0	1	1	1	1	0	1	4	5	0	1	4	10			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:75451802T>C	uc009xri.2	-	4	436	c.395A>G	c.(394-396)CAT>CGT	p.H132R	AGAP5_uc001juu.3_Missense_Mutation_p.H93R	NM_001144000	NP_001137472	A6NIR3	AGAP5_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	132					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						TTTACTTACATGGTTTGTACA	0.299													6	118					0	0	1	0	0		C	75451802	C	C	75451802	3	2	103	1	0	0	0	0	1	0	0	0	371	1478	51	3	1685	3	AGAP5	10	75451802	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	213495	75451802	60082945	1043	62992											
MYST4	23522	broad.mit.edu	37	chr10	76789460	76789460	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgctctggaaaacagctaCgcccaaatcagcccagatca	13	6	7	15	1	3	1	2	0	1	1	3	2	3	2	3	1	5	2	3	1	4	1	rs146568876		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:76789460C>T	uc001jwn.1	+	18	5371	c.4878C>T	c.(4876-4878)TAC>TAT	p.Y1626Y	MYST4_uc001jwo.1_Silent_p.Y1334Y|MYST4_uc001jwp.1_Silent_p.Y1443Y	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1626	Ser-rich.|Interaction with RUNX1 and RUNX2.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					AAAACAGCTACGCCCAAATCA	0.527			T	CREBBP	AML								53	55					0	0	1	0	0		T	76789460	T	T	76789460	2	4	103	1	0	0	0	0	0	0	0	1	10123	547	19	1		1	MYST4	10	76789460	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1337658	76789460	58745287	1044	62993											
ZNF503	84858	broad.mit.edu	37	chr10	77158594	77158594	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccggtggcggcgggcacCggcacgggggcgccaggcgt	3	3	22	13	7	0	0	0	0	0	0	1	0	1	0	3	9	0	2	3	9	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:77158594C>T	uc001jxg.2	-	2	2190	c.1854G>A	c.(1852-1854)CCG>CCA	p.P618P	C10orf41_uc010qlf.1_5'Flank	NM_032772	NP_116161	Q96F45	ZN503_HUMAN	zinc finger protein 503	618					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1	all_cancers(46;0.105)|all_epithelial(25;0.00449)|Prostate(51;0.0112)|Ovarian(15;0.088)					CGGCGGGCACCGGCACGGGGG	0.662													5	8					0	0	1	0	0		T	77158594	T	T	77158594	2	4	103	1	0	0	0	0	0	0	0	1	17976	639	23	1		1	ZNF503	10	77158594	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	369134	77158594	58376153	1045	62994											
KCNMA1	3778	broad.mit.edu	37	chr10	78651292	78651292	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggactcacccctaagtcCgcaaatggcccatcgagcag	10	7	10	14	2	1	0	1	0	0	0	3	2	2	1	4	2	1	2	4	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:78651292C>T	uc001jxn.2	-	26	3510	c.3333G>A	c.(3331-3333)GCG>GCA	p.A1111A	KCNMA1_uc001jxj.2_Silent_p.A1057A|KCNMA1_uc001jxk.1_Silent_p.A729A|KCNMA1_uc009xrt.1_Silent_p.A902A|KCNMA1_uc001jxl.1_Silent_p.A736A|KCNMA1_uc001jxo.2_Silent_p.A1094A|KCNMA1_uc001jxm.2_Silent_p.A1053A|KCNMA1_uc001jxq.2_Silent_p.A1083A|uc001jxp.2_Intron	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1111	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	CCCCTAAGTCCGCAAATGGCC	0.567													16	20					0	0	1	0	0		T	78651292	T	T	78651292	2	4	103	1	0	0	0	0	0	0	0	1	8089	639	23	1		1	KCNMA1	10	78651292	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1492698	78651292	56883455	1046	62995											
DLG5	9231	broad.mit.edu	37	chr10	79553804	79553804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctgctcaagcttctgcGccgcctcaaactgctctttg	6	12	7	16	2	4	0	2	0	2	0	5	0	5	0	3	0	5	3	3	0	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:79553804G>A	uc001jzk.2	-	31	5688	c.5618C>T	c.(5617-5619)GCG>GTG	p.A1873V	DLG5_uc001jzi.2_Missense_Mutation_p.A628V|DLG5_uc001jzj.2_Missense_Mutation_p.A1288V	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1873	Guanylate kinase-like.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			AAGCTTCTGCGCCGCCTCAAA	0.592													10	143					0	0	1	0	0		A	79553804	A	A	79553804	3	1	103	1	0	0	0	0	1	0	0	0	4564	1087	38	1	149	1	DLG5	10	79553804	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	902512	79553804	55980943	1047	62996											
ZMIZ1	57178	broad.mit.edu	37	chr10	81053363	81053363	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agacctacccgggcccccggCcccagtcccttcctattcag	6	7	8	20	2	1	1	1	0	0	1	3	1	3	1	8	2	1	0	8	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:81053363C>G	uc001kaf.2	+	12	1755	c.1183C>G	c.(1183-1185)CCC>GCC	p.P395A	ZMIZ1_uc001kag.2_Missense_Mutation_p.P271A|ZMIZ1_uc001kah.1_Missense_Mutation_p.P277A	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	395	Pro-rich.				transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			GGGCCCCCGGCCCCAGTCCCT	0.667													48	69					0	0	1	0	0		G	81053363	G	G	81053363	3	3	103	1	0	0	0	0	1	0	0	0	17721	739	26	5	1213	5	ZMIZ1	10	81053363	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1499559	81053363	54481384	1048	62997											
SFTPD	6441	broad.mit.edu	37	chr10	81701716	81701716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttccactgctcacctgctgCccctgtgtttccagggactc	4	13	8	16	0	1	0	1	0	0	0	4	1	3	1	5	1	3	3	5	1	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:81701716C>T	uc001kbh.2	-	5	587	c.544G>A	c.(544-546)GCA>ACA	p.A182T	MBL1P_uc001kbf.2_Intron	NM_003019	NP_003010	P35247	SFTPD_HUMAN	pulmonary surfactant-associated protein D	182	Collagen-like.				cell junction assembly|innate immune response|lung alveolus development|macrophage chemotaxis|negative regulation of interleukin-2 biosynthetic process|negative regulation of T cell proliferation|positive regulation of phagocytosis|reactive oxygen species metabolic process|receptor-mediated endocytosis|respiratory gaseous exchange|surfactant homeostasis	collagen|endocytic vesicle|extracellular space|lysosome	bacterial cell surface binding|protein binding|sugar binding			skin(1)	1	Breast(12;0.000615)|Prostate(51;0.0095)|all_epithelial(25;0.027)		Epithelial(14;0.0244)|all cancers(16;0.0558)|Colorectal(32;0.109)			TCACCTGCTGCCCCTGTGTTT	0.647													39	60					0	0	1	0	0		T	81701716	T	T	81701716	3	4	103	1	0	0	0	0	1	0	0	0	14218	739	26	2	599	2	SFTPD	10	81701716	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	648353	81701716	53833031	1049	62998											
FAM190B	54462	broad.mit.edu	37	chr10	86132007	86132007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggatgacatttccttgtCgtctttgtcatcttctgata	6	19	8	8	1	4	2	1	2	3	0	6	3	5	3	1	1	0	0	1	1	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:86132007C>T	uc001kdh.1	+	2	1393	c.1199C>T	c.(1198-1200)TCG>TTG	p.S400L	FAM190B_uc001kdg.1_Missense_Mutation_p.S400L|FAM190B_uc010qmd.1_Missense_Mutation_p.S400L	NM_018999	NP_061872	Q9H7U1	F190B_HUMAN	granule cell antiserum positive 14	400										ovary(3)|skin(1)	4						ATTTCCTTGTCGTCTTTGTCA	0.333													22	32					0	0	1	0	0		T	86132007	T	T	86132007	3	4	103	1	0	0	0	0	1	0	0	0	5533	893	31	1	1201	1	FAM190B	10	86132007	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4430291	86132007	49402740	1050	62999											
BMPR1A	657	broad.mit.edu	37	chr10	88676973	88676973	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagtatggatgggcaaatGgcgtggcgaaaaagtggcgg	13	6	18	4	3	0	1	0	0	0	1	0	3	0	2	0	6	0	2	0	6	5	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:88676973G>A	uc001kdy.2	+	9	1306	c.758G>A	c.(757-759)TGG>TAG	p.W253*		NM_004329	NP_004320	P36894	BMR1A_HUMAN	bone morphogenetic protein receptor, type IA	253	Cytoplasmic (Potential).|Protein kinase.				BMP signaling pathway|immune response|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	integral to membrane|plasma membrane	ATP binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta receptor activity			lung(3)|large_intestine(1)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	8						ATGGGCAAATGGCGTGGCGAA	0.438			Mis|N|F			gastrointestinal polyps			Hereditary_Mixed_Polyposis_syndrome_type_2|Juvenile_Polyposis				28	28					0	0	1	0	0		A	88676973	A	A	88676973	4	1	103	1	0	0	0	0	0	1	0	0	1470	1357	47	4	784	4	BMPR1A	10	88676973	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2544966	88676973	46857774	1051	63000											
AGAP11	119385	broad.mit.edu	37	chr10	88768527	88768527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaaaaagagattgaccttcGgacatctaccatcaaagtcc	16	9	6	10	1	2	2	1	1	1	1	4	4	3	3	3	1	1	0	3	1	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:88768527G>A	uc001kee.2	+	12	1722	c.518G>A	c.(517-519)CGG>CAG	p.R173Q	AGAP11_uc001kef.2_Intron	NM_133447	NP_597704	Q8TF27	AGA11_HUMAN	ankyrin repeat and GTPase domain Arf GTPase	173	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						ATTGACCTTCGGACATCTACC	0.443													42	123					0	0	1	0	0		A	88768527	A	A	88768527	3	1	103	1	0	0	0	0	1	0	0	0	367	1116	39	1	532	1	AGAP11	10	88768527	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	91554	88768527	46766220	1052	63001											
CYP26A1	1592	broad.mit.edu	37	chr10	94834693	94834693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgttccgaatcgccatgcGcatcctactgggctgcgaac	8	9	10	14	4	0	0	0	0	0	0	3	2	2	0	3	1	4	3	3	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:94834693G>A	uc001kil.2	+	3	617	c.572G>A	c.(571-573)CGC>CAC	p.R191H	CYP26A1_uc001kik.1_Missense_Mutation_p.R122H|CYP26A1_uc001kim.1_Missense_Mutation_p.R89H	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	191					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				ATCGCCATGCGCATCCTACTG	0.652													30	41					0	0	1	0	0		A	94834693	A	A	94834693	3	1	103	1	0	0	0	0	1	0	0	0	4158	1087	38	1	582	1	CYP26A1	10	94834693	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6066166	94834693	40700054	1053	63002											
GPR120	338557	broad.mit.edu	37	chr10	95326941	95326941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtcctgggcggcgggcgcGggcagtgctgctggcgctca	2	6	21	12	5	1	0	1	0	0	0	2	0	2	0	1	6	2	4	1	6	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:95326941G>A	uc010qnt.1	+	1	520	c.464G>A	c.(463-465)CGG>CAG	p.R155Q	GPR120_uc010qnu.1_Missense_Mutation_p.R155Q	NM_181745	NP_859529	Q5NUL3	O3FA1_HUMAN	G protein-coupled receptor 120	155	Cytoplasmic (Potential).				negative regulation of cytokine secretion|negative regulation of inflammatory response|regulation of glucose transport	integral to membrane|plasma membrane	fatty acid binding				0		Colorectal(252;0.122)				CGGCGGGCGCGGGCAGTGCTG	0.726													14	14					0	0	1	0	0		A	95326941	A	A	95326941	3	1	103	1	0	0	0	0	1	0	0	0	6651	1116	39	1	466	1	GPR120	10	95326941	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	492248	95326941	40207806	1054	63003											
SORBS1	10580	broad.mit.edu	37	chr10	97117446	97117446	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggccctgaagagggatGtcaccaccttccaagacact	11	7	9	14	0	2	3	2	1	0	2	3	4	3	4	4	2	0	0	4	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:97117446G>A	uc001kkp.2	-	21	2115	c.2070C>T	c.(2068-2070)GAC>GAT	p.D690D	SORBS1_uc001kkk.2_Silent_p.D184D|SORBS1_uc001kkl.2_Silent_p.D292D|SORBS1_uc001kkn.2_Silent_p.D455D|SORBS1_uc001kkm.2_Silent_p.D490D|SORBS1_uc001kko.2_Silent_p.D712D|SORBS1_uc001kkq.2_Silent_p.D541D|SORBS1_uc001kkr.2_Silent_p.D396D|SORBS1_uc001kks.2_Silent_p.D396D|SORBS1_uc001kkt.2_RNA|SORBS1_uc001kku.2_Silent_p.D437D|SORBS1_uc001kkv.2_Silent_p.D528D|SORBS1_uc001kkw.2_Silent_p.D644D|SORBS1_uc010qoe.1_Silent_p.D405D|SORBS1_uc010qof.1_Silent_p.D758D	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	690				D -> V (in Ref. 1; AAD27647 and 3; AAF22175).	focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		GAAGAGGGATGTCACCACCTT	0.517													24	49					0	0	1	0	0		A	97117446	A	A	97117446	2	1	103	1	0	0	0	0	0	0	0	1	14952	1368	48	4		4	SORBS1	10	97117446	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1790505	97117446	38417301	1055	63004											
ALDH18A1	5832	broad.mit.edu	37	chr10	97371130	97371130	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtccccatactcagttcGgagtgacttcacttcggagg	8	10	11	12	2	2	1	2	1	0	0	5	3	3	3	2	4	1	1	2	4	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:97371130G>A	uc001kkz.2	-	16	2235	c.1993C>T	c.(1993-1995)CGA>TGA	p.R665*	ALDH18A1_uc001kky.2_Nonsense_Mutation_p.R663*|ALDH18A1_uc010qog.1_Nonsense_Mutation_p.R554*|ALDH18A1_uc010qoh.1_Nonsense_Mutation_p.R453*	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	665	Gamma-glutamyl phosphate reductase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)	TACTCAGTTCGGAGTGACTTC	0.502													97	133					0	0	1	0	0		A	97371130	A	A	97371130	4	1	103	1	0	0	0	0	0	1	0	0	489	1124	39	1	406	1	ALDH18A1	10	97371130	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	253684	97371130	38163617	1056	63005											
ZNF518A	9849	broad.mit.edu	37	chr10	97920218	97920218	+	Frame_Shift_Del	DEL	A	-	-																															gtacttaaggtttcattgtcAaaaagaactataaatgcttt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:97920218delA	uc001klp.2	+	7	4997	c.4140delA	c.(4138-4140)TCAfs	p.S1380fs	ZNF518A_uc001klo.1_3'UTR|ZNF518A_uc001klq.2_3'UTR|ZNF518A_uc001klr.2_3'UTR	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	1380					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		TTTCATTGTCAAAAAGAACTA	0.318													30	63	---	---	---	---						.	-	97920218	-	-	97920218	7	5	103	1	0	1	0	1	0	0	0	0	17987	130	5	0	4141	0	ZNF518A	10	97920218	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	549088	97920218	37614529	1057	63006											
PIK3AP1	118788	broad.mit.edu	37	chr10	98469322	98469322	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatctttagaagaaatccttAccttcggaaatggctttttt	11	17	6	7	1	1	2	0	0	1	2	3	3	2	3	2	2	1	1	2	2	6	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:98469322A>G	uc001kmq.2	-	2	558	c.430_splice	c.e2+1	p.D144_splice		NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1							cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		AGAAATCCTTACCTTCGGAAA	0.453													6	110					0	0	1	0	0		G	98469322	G	G	98469322	5	3	103	1	0	0	0	0	0	0	1	0	11927	405	14	3	2049	3	PIK3AP1	10	98469322	Splice_Site	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	549104	98469322	37065425	1058	63007											
C10orf12	26148	broad.mit.edu	37	chr10	98742785	98742785	+	Frame_Shift_Del	DEL	A	-	-																															aatcctagtgcaaaacgttcAaaaaaagaagggcaccctgg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:98742785delA	uc001kmv.2	+	1	1745	c.1638delA	c.(1636-1638)TCAfs	p.S546fs		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	546										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		CAAAACGTTCAAAAAAAGAAG	0.443													38	56	---	---	---	---						.	-	98742785	-	-	98742785	7	5	103	1	0	1	0	1	0	0	0	0	1592	117	5	0	1640	0	C10orf12	10	98742785	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	273463	98742785	36791962	1059	63008											
RRP12	23223	broad.mit.edu	37	chr10	99139503	99139503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggaaatgaggggagaggcGcaggtcacacagggactgga	12	3	20	6	1	1	2	1	1	0	1	1	6	1	5	0	8	0	1	0	8	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:99139503G>A	uc001knf.2	-	14	1697	c.1558C>T	c.(1558-1560)CGC>TGC	p.R520C	RRP12_uc009xvm.2_Missense_Mutation_p.R238C|RRP12_uc010qou.1_Missense_Mutation_p.R459C|RRP12_uc009xvn.2_Missense_Mutation_p.R420C	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	520						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		GGGGAGAGGCGCAGGTCACAC	0.607													17	25					0	0	1	0	0		A	99139503	A	A	99139503	3	1	103	1	0	0	0	0	1	0	0	0	13711	1087	38	1	2419	1	RRP12	10	99139503	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	396718	99139503	36395244	1060	63009											
SFRP5	6425	broad.mit.edu	37	chr10	99531377	99531377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccagcaggttgggcagccGcatgcgcttgtagcccaccg	6	7	13	15	3	0	0	0	0	0	0	1	0	1	0	4	2	4	6	4	2	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:99531377G>A	uc001kor.3	-	1	380	c.214C>T	c.(214-216)CGG>TGG	p.R72W		NM_003015	NP_003006	Q5T4F7	SFRP5_HUMAN	secreted frizzled-related protein 5 precursor	72	FZ.				apoptosis|brain development|cell differentiation|embryo development|establishment or maintenance of cell polarity|gonad development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of protein kinase B signaling cascade|negative regulation of sequence-specific DNA binding transcription factor activity|vasculature development|visual perception	cytoplasm|extracellular space|plasma membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1		Colorectal(252;0.234)		Epithelial(162;4.98e-10)|all cancers(201;3.58e-08)		TTGGGCAGCCGCATGCGCTTG	0.692													15	23					0	0	1	0	0		A	99531377	A	A	99531377	3	1	103	1	0	0	0	0	1	0	0	0	14189	1086	38	1	751	1	SFRP5	10	99531377	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	391874	99531377	36003370	1061	63010											
CRTAC1	55118	broad.mit.edu	37	chr10	99625397	99625397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagtggcagctccagcagCggcagcagcagcggcagtgg	9	3	17	12	2	0	0	0	0	0	0	1	0	1	0	1	4	7	8	1	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:99625397C>T	uc001kou.1	-	15	2250	c.1894G>A	c.(1894-1896)GCT>ACT	p.A632T	GOLGA7B_uc001kos.2_Silent_p.S148S|CRTAC1_uc001kot.1_Silent_p.P407P	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	632	Ala-rich.					proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		gctccagcagcggcagcagca	0.488													10	11					0	0	1	0	0		T	99625397	T	T	99625397	3	4	103	1	0	0	0	0	1	0	0	0	3899	768	27	1	95	1	CRTAC1	10	99625397	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	94020	99625397	35909350	1062	63011											
CNNM1	26507	broad.mit.edu	37	chr10	101089318	101089318	+	Frame_Shift_Del	DEL	G	-	-																															ggaggccgcgtgtccctggaGgggggcaccctgcgcgccgc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:101089318delG	uc001kpp.3	+	1	463	c.174delG	c.(172-174)GAGfs	p.E58fs	CNNM1_uc009xwe.2_Frame_Shift_Del_p.E58fs|CNNM1_uc010qpi.1_Frame_Shift_Del_p.E58fs|CNNM1_uc009xwf.2_Frame_Shift_Del_p.E58fs	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	58					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		TGTCCCTGGAGGGGGGCACCC	0.632													7	5	---	---	---	---						.	-	101089318	-	-	101089318	7	5	103	1	0	1	0	1	0	0	0	0	3615	991	35	0	176	0	CNNM1	10	101089318	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	1463921	101089318	34445429	1063	63012											
CNNM1	26507	broad.mit.edu	37	chr10	101120624	101120624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaagcagagggtcccgcaaCgggagcggaagcggcatgac	13	2	16	10	4	0	2	0	1	0	1	1	4	1	4	1	4	4	3	1	4	4	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:101120624C>T	uc001kpp.3	+	3	2039	c.1750C>T	c.(1750-1752)CGG>TGG	p.R584W	CNNM1_uc009xwe.2_Missense_Mutation_p.R584W|CNNM1_uc010qpi.1_Missense_Mutation_p.R584W|CNNM1_uc009xwf.2_Missense_Mutation_p.R584W|CNNM1_uc009xwg.2_Translation_Start_Site	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	584					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		GGTCCCGCAACGGGAGCGGAA	0.522													48	122					0	0	1	0	0		T	101120624	T	T	101120624	3	4	103	1	0	0	0	0	1	0	0	0	3615	527	19	1	1760	1	CNNM1	10	101120624	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	31306	101120624	34414123	1064	63013											
NKX2-3	159296	broad.mit.edu	37	chr10	101295035	101295035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggagcttggcgcacacGcgcccccgccgccgccgcgc	3	4	13	21	8	1	0	0	0	1	0	1	1	1	1	5	2	1	2	5	2	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:101295035G>A	uc009xwj.2	+	2	851	c.652G>A	c.(652-654)GCG>ACG	p.A218T		NM_145285	NP_660328	Q8TAU0	NKX23_HUMAN	NK2 transcription factor related, locus 3	218						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.45e-08)		TGGCGCACAcgcgcccccgcc	0.547													8	11					0	0	1	0	0		A	101295035	A	A	101295035	3	1	103	1	0	0	0	0	1	0	0	0	10470	1087	38	1	658	1	NKX2-3	10	101295035	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	174411	101295035	34239712	1065	63014											
ENTPD7	57089	broad.mit.edu	37	chr10	101464363	101464363	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgaattcaccaccgacaaAcacgagcctcagctccattg	12	6	7	16	3	2	0	2	0	0	0	3	3	3	0	5	0	3	1	5	0	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:101464363A>G	uc001kqa.3	+	13	1916	c.1738A>G	c.(1738-1740)ACA>GCA	p.T580A	ENTPD7_uc009xwl.2_Missense_Mutation_p.T582A	NM_020354	NP_065087	Q9NQZ7	ENTP7_HUMAN	ectonucleoside triphosphate diphosphohydrolase	580	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	hydrolase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)		CCACCGACAAACACGAGCCTC	0.542													14	30					0	0	1	0	0		G	101464363	G	G	101464363	3	3	103	1	0	0	0	0	1	0	0	0	5152	43	2	3	1784	3	ENTPD7	10	101464363	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	169328	101464363	34070384	1066	63015											
FGF8	2253	broad.mit.edu	37	chr10	103531218	103531218	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgcctgctggggcctcAccttggcgatcagcttcccc	4	9	10	18	1	2	0	2	0	0	0	3	1	3	0	6	3	3	2	6	3	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:103531218A>G	uc001ktp.1	-	5	581	c.411_splice	c.e5+1	p.K137_splice	FGF8_uc001ktq.1_Splice_Site_p.K148_splice|FGF8_uc001ktr.1_Splice_Site_p.K119_splice|FGF8_uc001kts.1_Splice_Site_p.K108_splice|FGF8_uc009xwr.1_Splice_Site_p.K44_splice	NM_033164	NP_149354	P55075	FGF8_HUMAN	fibroblast growth factor 8 isoform E precursor						bone development|dopaminergic neuron differentiation|fibroblast growth factor receptor signaling pathway|gastrulation|gonad development|insulin receptor signaling pathway|mesonephros development|metanephros development|negative regulation of cardiac muscle tissue development|neuroepithelial cell differentiation|odontogenesis|positive regulation of cell division|positive regulation of cell proliferation	extracellular region|extracellular space	growth factor activity|growth factor activity|type 1 fibroblast growth factor receptor binding|type 2 fibroblast growth factor receptor binding				0		Colorectal(252;0.122)		Epithelial(162;3.94e-09)|all cancers(201;2.13e-07)		CTGGGGCCTCACCTTGGCGAT	0.612													20	38					0	0	1	0	0		G	103531218	G	G	103531218	5	3	103	1	0	0	0	0	0	0	1	0	5872	173	6	3	296	3	FGF8	10	103531218	Splice_Site	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2066855	103531218	32003529	1067	63016											
PITX3	5309	broad.mit.edu	37	chr10	103991469	103991469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggctggtgaagtgcgtgCgctgccgccgctgcttcttt	2	12	15	12	4	1	1	0	1	1	0	1	1	1	1	2	2	4	5	2	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:103991469C>T	uc001kuu.1	-	3	351	c.197G>A	c.(196-198)CGC>CAC	p.R66H		NM_005029	NP_005020	O75364	PITX3_HUMAN	paired-like homeodomain 3	66	Homeobox.				dopaminergic neuron differentiation|lens morphogenesis in camera-type eye|midbrain development|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Colorectal(252;0.00957)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		GAAGTGCGTGCGCTGCCGCCG	0.667													9	9					0	0	1	0	0		T	103991469	T	T	103991469	3	4	103	1	0	0	0	0	1	0	0	0	11975	768	27	1	719	1	PITX3	10	103991469	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	460251	103991469	31543278	1068	63017											
GBF1	8729	broad.mit.edu	37	chr10	104128195	104128195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagacaatcatccagaaaGccatctcaggcttcaggtag	14	7	10	10	0	3	2	3	0	1	2	5	3	4	2	2	3	1	2	2	3	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:104128195G>A	uc001kux.1	+	22	3100	c.2860G>A	c.(2860-2862)GCC>ACC	p.A954T	GBF1_uc001kuy.1_Missense_Mutation_p.A954T|GBF1_uc001kuz.1_Missense_Mutation_p.A955T	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	954					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CATCCAGAAAGCCATCTCAGG	0.502													24	41					0	0	1	0	0		A	104128195	A	A	104128195	3	1	103	1	0	0	0	0	1	0	0	0	6286	971	34	2	2942	2	GBF1	10	104128195	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	136726	104128195	31406552	1069	63018											
CNNM2	54805	broad.mit.edu	37	chr10	104836892	104836892	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacgaacagaactgtgtgacGcacagtaaggccaaccacag	16	4	10	11	2	0	2	0	1	0	1	0	3	0	2	2	1	4	2	2	1	5	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:104836892G>A	uc001kwm.2	+	8	2707	c.2583G>A	c.(2581-2583)ACG>ACA	p.T861T	CNNM2_uc001kwn.2_Silent_p.T839T	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	861					ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		ACTGTGTGACGCACAGTAAGG	0.612													16	44					0	0	1	0	0		A	104836892	A	A	104836892	2	1	103	1	0	0	0	0	0	0	0	1	3616	1074	38	1		1	CNNM2	10	104836892	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	708697	104836892	30697855	1070	63019											
PDCD11	22984	broad.mit.edu	37	chr10	105162907	105162907	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaatgcgtattttgggttgCgtgaaagaggtgaatgaact	11	12	15	3	2	0	4	0	3	0	1	0	5	0	5	0	3	3	2	0	3	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:105162907C>T	uc001kwy.1	+	4	354	c.267C>T	c.(265-267)TGC>TGT	p.C89C		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	89	S1 motif 1.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		TTTTGGGTTGCGTGAAAGAGG	0.458													65	109					0	0	1	0	0		T	105162907	T	T	105162907	2	4	103	1	0	0	0	0	0	0	0	1	11636	776	27	1		1	PDCD11	10	105162907	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	326015	105162907	30371840	1071	63020											
PDCD11	22984	broad.mit.edu	37	chr10	105185248	105185248	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggaagacggtcactgccCgagtgattggcgggcgagac	8	7	17	9	4	1	3	1	1	0	2	1	6	1	4	1	4	1	0	1	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:105185248C>T	uc001kwy.1	+	20	3358	c.3271C>T	c.(3271-3273)CGA>TGA	p.R1091*		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1091	S1 motif 9.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		GGTCACTGCCCGAGTGATTGG	0.537													18	41					0	0	1	0	0		T	105185248	T	T	105185248	4	4	103	1	0	0	0	0	0	1	0	0	11636	644	23	1	3345	1	PDCD11	10	105185248	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	22341	105185248	30349499	1072	63021											
PDCD11	22984	broad.mit.edu	37	chr10	105200090	105200090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagagctgtctttcctccccGgagacactgggaagccagac	9	8	11	13	1	1	3	0	0	1	3	3	5	3	4	4	2	2	1	4	2	2	2	rs141994658		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:105200090G>A	uc001kwy.1	+	29	4279	c.4192G>A	c.(4192-4194)GGA>AGA	p.G1398R		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1398					mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		TTTCCTCCCCGGAGACACTGG	0.393													48	94					0	0	1	0	0		A	105200090	A	A	105200090	3	1	103	1	0	0	0	0	1	0	0	0	11636	1117	39	1	4302	1	PDCD11	10	105200090	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	14842	105200090	30334657	1073	63022											
SH3PXD2A	9644	broad.mit.edu	37	chr10	105372688	105372688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagacagtcctgtcaggaaCgcccacggcactgccattgg	9	6	13	13	2	1	1	1	0	0	1	2	3	2	2	3	4	2	1	3	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:105372688C>T	uc001kxj.1	-	11	1236	c.1096G>A	c.(1096-1098)GTT>ATT	p.V366I	SH3PXD2A_uc010qqr.1_Missense_Mutation_p.V256I|SH3PXD2A_uc010qqs.1_Missense_Mutation_p.V201I|SH3PXD2A_uc010qqt.1_Missense_Mutation_p.V243I|SH3PXD2A_uc009xxn.1_Missense_Mutation_p.V201I|SH3PXD2A_uc010qqu.1_Missense_Mutation_p.V309I	NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	394					cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)		CTGTCAGGAACGCCCACGGCA	0.632													16	27					0	0	1	0	0		T	105372688	T	T	105372688	3	4	103	1	0	0	0	0	1	0	0	0	14281	536	19	1	2237	1	SH3PXD2A	10	105372688	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	172598	105372688	30162059	1074	63023											
TCF7L2	6934	broad.mit.edu	37	chr10	114912186	114912186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtaccccggctggtccgCgcgggataactatgtaggtg	7	9	14	11	4	0	0	0	0	0	0	1	1	1	1	3	4	2	3	3	4	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:114912186C>T	uc001lae.3	+	11	1763	c.1256C>T	c.(1255-1257)GCG>GTG	p.A419V	TCF7L2_uc001lac.3_Missense_Mutation_p.A396V|TCF7L2_uc010qrk.1_Missense_Mutation_p.A396V|TCF7L2_uc010qrl.1_Missense_Mutation_p.A396V|TCF7L2_uc010qrm.1_Missense_Mutation_p.A419V|TCF7L2_uc010qrn.1_Missense_Mutation_p.A362V|TCF7L2_uc001lad.3_Missense_Mutation_p.A392V|TCF7L2_uc001lag.3_Missense_Mutation_p.A443V|TCF7L2_uc001laf.3_Missense_Mutation_p.A396V|TCF7L2_uc010qro.1_Missense_Mutation_p.A396V|TCF7L2_uc001lah.2_Missense_Mutation_p.A401V|TCF7L2_uc010qrp.1_Missense_Mutation_p.A396V|TCF7L2_uc010qrq.1_Missense_Mutation_p.A392V|TCF7L2_uc010qrr.1_Missense_Mutation_p.A334V|TCF7L2_uc010qrs.1_Missense_Mutation_p.A290V|TCF7L2_uc010qrt.1_Missense_Mutation_p.A290V|TCF7L2_uc010qru.1_Missense_Mutation_p.A318V|TCF7L2_uc010qrv.1_Missense_Mutation_p.A236V|TCF7L2_uc010qrw.1_Missense_Mutation_p.A123V|TCF7L2_uc010qrx.1_Missense_Mutation_p.A276V	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	419					anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		GGCTGGTCCGCGCGGGATAAC	0.527													56	102					0	0	1	0	0		T	114912186	T	T	114912186	3	4	103	1	0	0	0	0	1	0	0	0	15723	768	27	1	1443	1	TCF7L2	10	114912186	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	9539498	114912186	20622561	1075	63024											
AFAP1L2	84632	broad.mit.edu	37	chr10	116082999	116082999	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactccgtctttgggatggCaagctgtttccgttctggaa	7	13	12	9	2	2	1	0	0	2	1	4	3	4	3	2	3	1	4	2	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:116082999C>G	uc001lbn.2	-	5	638	c.337G>C	c.(337-339)GCC>CCC	p.A113P	AFAP1L2_uc001lbo.2_Missense_Mutation_p.A113P|AFAP1L2_uc010qse.1_Missense_Mutation_p.A166P|AFAP1L2_uc001lbp.2_Missense_Mutation_p.A113P|AFAP1L2_uc001lbr.1_Missense_Mutation_p.A113P	NM_001001936	NP_001001936	Q8N4X5	AF1L2_HUMAN	KIAA1914 protein isoform 1	113					inflammatory response|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of transcription, DNA-dependent|regulation of interleukin-6 production|regulation of mitotic cell cycle	cytoplasm	protein tyrosine kinase activator activity|SH2 domain binding|SH3 domain binding			ovary(1)|breast(1)	2		Colorectal(252;0.175)|Breast(234;0.231)		Epithelial(162;0.0219)|all cancers(201;0.0561)		TTTGGGATGGCAAGCTGTTTC	0.498													4	5					0	0	1	0	0		G	116082999	G	G	116082999	3	3	103	1	0	0	0	0	1	0	0	0	355	710	25	5	2179	5	AFAP1L2	10	116082999	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1170813	116082999	19451748	1076	63025											
KIAA1598	57698	broad.mit.edu	37	chr10	118708437	118708437	+	Frame_Shift_Del	DEL	T	-	-																															acagacttacctctattgcaTttttctaagacttttctctg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:118708437delT	uc009xyw.2	-	7	1104	c.606delA	c.(604-606)AAAfs	p.K202fs	KIAA1598_uc001lcz.3_Frame_Shift_Del_p.K202fs|KIAA1598_uc010qso.1_Frame_Shift_Del_p.K142fs|KIAA1598_uc010qsp.1_Frame_Shift_Del_p.K202fs|KIAA1598_uc010qsq.1_Frame_Shift_Del_p.K142fs|KIAA1598_uc001lcy.3_Frame_Shift_Del_p.K172fs	NM_001127211	NP_001120683	A0MZ66	SHOT1_HUMAN	shootin1 isoform a	202	Potential.				axon guidance	axon					0				all cancers(201;0.00494)		CTCTATTGCATTTTTCTAAGA	0.318													12	13	---	---	---	---						.	-	118708437	-	-	118708437	7	5	103	1	0	1	0	1	0	0	0	0	8262	1490	52	0	1333	0	KIAA1598	10	118708437	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	2625438	118708437	16826310	1077	63026											
VAX1	11023	broad.mit.edu	37	chr10	118896129	118896129	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttaggccggtccaagtccaGgcccttgggcaggatgatct	7	9	13	12	1	1	1	0	1	1	0	3	2	3	2	4	5	0	1	4	5	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:118896129G>T	uc009xyx.2	-	2	528	c.283C>A	c.(283-285)CTG>ATG	p.L95M	VAX1_uc001ldb.1_Missense_Mutation_p.L95M	NM_001112704	NP_001106175	Q5SQQ9	VAX1_HUMAN	ventral anterior homeobox 1 isoform a	95						nucleus	sequence-specific DNA binding			ovary(2)	2				all cancers(201;0.0108)		TCCAAGTCCAGGCCCTTGGGC	0.657													6	50					0.0215528	0.0216901	1	1	0		T	118896129	T	T	118896129	3	4	103	1	0	0	0	0	1	0	0	0	17160	991	35	5	869	5	VAX1	10	118896129	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	187692	118896129	16638618	1078	63027											
INPP5F	22876	broad.mit.edu	37	chr10	121582587	121582587	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatttgggattttaggcccTgaacccactctttttggtaa	8	16	8	9	0	2	1	1	1	1	0	2	2	2	2	2	3	1	1	2	3	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:121582587T>C	uc001leo.2	+	18	2203	c.2037T>C	c.(2035-2037)CCT>CCC	p.P679P	INPP5F_uc001lep.2_Silent_p.P69P	NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	679							phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		TTTTAGGCCCTGAACCCACTC	0.368													28	58					0	0	1	0	0		C	121582587	C	C	121582587	2	2	103	1	0	0	0	0	0	0	0	1	7774	1567	55	3		3	INPP5F	10	121582587	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2686458	121582587	13952160	1079	63028											
WDR11	55717	broad.mit.edu	37	chr10	122645359	122645359	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacaacttgaagagcctgAgaaagaagcaacttgcaact	16	7	8	10	0	1	4	1	2	0	3	1	5	1	4	1	0	6	2	1	0	6	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:122645359A>G	uc010qtf.1	+	15	2120	c.1882A>G	c.(1882-1884)AGA>GGA	p.R628G	WDR11_uc010qte.1_Missense_Mutation_p.R230G|WDR11_uc001lfd.1_Missense_Mutation_p.R146G|WDR11_uc009xzn.2_5'Flank	NM_018117	NP_060587	Q9BZH6	WDR11_HUMAN	bromodomain and WD repeat domain containing 2	628						integral to membrane					0						GAAGAGCCTGAGAAAGAAGCA	0.473													36	58					0	0	1	0	0		G	122645359	G	G	122645359	3	3	103	1	0	0	0	0	1	0	0	0	17299	296	11	3	1940	3	WDR11	10	122645359	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1062772	122645359	12889388	1080	63029											
TACC2	10579	broad.mit.edu	37	chr10	123970335	123970335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaactaaaaaaccgaggcCgccttccttaaaaaagaaac	18	5	7	11	3	0	1	0	0	0	1	1	3	1	1	4	1	3	0	4	1	8	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:123970335C>T	uc001lfv.2	+	9	6755	c.6395C>T	c.(6394-6396)CCG>CTG	p.P2132L	TACC2_uc001lfw.2_Missense_Mutation_p.P278L|TACC2_uc009xzx.2_Missense_Mutation_p.P2087L|TACC2_uc010qtv.1_Missense_Mutation_p.P2136L|TACC2_uc001lfx.2_5'UTR|TACC2_uc001lfy.2_5'UTR|TACC2_uc001lfz.2_Missense_Mutation_p.P210L|TACC2_uc001lga.2_Missense_Mutation_p.P210L|TACC2_uc009xzy.2_Missense_Mutation_p.P210L|TACC2_uc001lgb.2_Missense_Mutation_p.P167L|TACC2_uc010qtw.1_Missense_Mutation_p.P227L	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	2132						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				AAACCGAGGCCGCCTTCCTTA	0.547													7	175					0	0	1	0	0		T	123970335	T	T	123970335	3	4	103	1	0	0	0	0	1	0	0	0	15527	652	23	1	6497	1	TACC2	10	123970335	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1324976	123970335	11564412	1081	63030											
CTBP2	1488	broad.mit.edu	37	chr10	126727587	126727587	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcacaaattctgtccaatcGctgtctcttgactttgtgct	7	17	6	11	1	3	1	1	1	2	0	6	1	4	1	1	0	1	2	1	0	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:126727587G>A	uc009yak.2	-	3	324	c.37C>T	c.(37-39)CGA>TGA	p.R13*	CTBP2_uc009yal.2_Nonsense_Mutation_p.R13*|CTBP2_uc001lif.3_Nonsense_Mutation_p.R13*|CTBP2_uc001lih.3_Nonsense_Mutation_p.R13*	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1	13					negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)		CTGTCCAATCGCTGTCTCTTG	0.453													35	58					0	0	1	0	0		A	126727587	A	A	126727587	4	1	103	1	0	0	0	0	0	1	0	0	4001	1095	38	1	3018	1	CTBP2	10	126727587	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2757252	126727587	8807160	1082	63031											
C10orf137	26098	broad.mit.edu	37	chr10	127438079	127438079	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctgaaagatgctccctgCgaactgcttagagtacagct	10	10	10	11	1	0	3	0	1	0	2	1	4	1	3	1	0	7	5	1	0	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:127438079C>T	uc001liq.1	+	22	3515	c.3222C>T	c.(3220-3222)TGC>TGT	p.C1074C	C10orf137_uc001lio.1_Silent_p.C1040C|C10orf137_uc001lip.1_Silent_p.C778C|C10orf137_uc001lis.1_Silent_p.C400C|C10orf137_uc001lit.1_5'UTR	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	1074					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				ATGCTCCCTGCGAACTGCTTA	0.443													26	52					0	0	1	0	0		T	127438079	T	T	127438079	2	4	103	1	0	0	0	0	0	0	0	1	1597	776	27	1		1	C10orf137	10	127438079	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	710492	127438079	8096668	1083	63032											
DOCK1	1793	broad.mit.edu	37	chr10	128851058	128851058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcttcaagttcatcgtgcGctccaggatcctgttcaatc	8	13	7	13	2	4	0	3	0	1	0	8	1	6	1	2	1	1	3	2	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:128851058G>A	uc001ljt.2	+	22	2316	c.2252G>A	c.(2251-2253)CGC>CAC	p.R751H	DOCK1_uc010qun.1_Missense_Mutation_p.R772H	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	751					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		TTCATCGTGCGCTCCAGGATC	0.458													8	12					0	0	1	0	0		A	128851058	A	A	128851058	3	1	103	1	0	0	0	0	1	0	0	0	4690	1087	38	1	2338	1	DOCK1	10	128851058	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1412979	128851058	6683689	1084	63033											
MKI67	4288	broad.mit.edu	37	chr10	129902379	129902379	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtttttgtcaatagtcatTgactcttcagtgtgacctgg	7	17	10	7	0	4	2	3	2	1	0	4	2	4	2	1	1	0	1	1	1	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:129902379T>C	uc001lke.2	-	13	7920	c.7725A>G	c.(7723-7725)TCA>TCG	p.S2575S	MKI67_uc001lkf.2_Silent_p.S2215S|MKI67_uc009yav.1_Silent_p.S2150S|MKI67_uc009yaw.1_Silent_p.S1725S	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2575	16 X 122 AA approximate repeats.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				CAATAGTCATTGACTCTTCAG	0.498													58	75					0	0	1	0	0		C	129902379	C	C	129902379	2	2	103	1	0	0	0	0	0	0	0	1	9616	1799	63	3		3	MKI67	10	129902379	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1051321	129902379	5632368	1085	63034											
EBF3	253738	broad.mit.edu	37	chr10	131641447	131641447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcttccaccaggtccgccGcccgcttcagtaacacctcc	7	7	8	19	3	1	0	1	0	0	0	4	0	4	0	7	2	1	3	7	2	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:131641447G>A	uc001lki.1	-	12	1180	c.1121C>T	c.(1120-1122)GCG>GTG	p.A374V		NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	383					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		CAGGTCCGCCGCCCGCTTCAG	0.602													4	18					0	0	1	0	0		A	131641447	A	A	131641447	3	1	103	1	0	0	0	0	1	0	0	0	4888	1087	38	1	554	1	EBF3	10	131641447	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1739068	131641447	3893300	1086	63035											
NKX6-2	84504	broad.mit.edu	37	chr10	134598431	134598431	+	Frame_Shift_Del	DEL	C	-	-																															cgcgggtcctcacaaggcgtCccccgcgccgccgccgcacg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:134598431delC	uc001llr.2	-	3	908	c.823delG	c.(823-825)GACfs	p.D275fs		NM_177400	NP_796374	Q9C056	NKX62_HUMAN	NK6 transcription factor related, locus 2	275						nucleus	sequence-specific DNA binding transcription factor activity				0		all_cancers(35;2.79e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0584)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;4.06e-05)|Epithelial(32;5.53e-05)|all cancers(32;5.99e-05)		CACAAGGCGTCCCCCGCGCCG	0.637													10	21	---	---	---	---						.	-	134598431	-	-	134598431	7	5	103	1	0	1	0	1	0	0	0	0	10477	855	30	0	14	0	NKX6-2	10	134598431	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	2956984	134598431	936316	1087	63036											
GPR123	84435	broad.mit.edu	37	chr10	134942560	134942560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagggcgccttcgggcacGacccccacctgcacgggtgc	6	4	15	16	4	0	0	0	0	0	0	1	2	0	1	4	4	2	2	4	4	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr10:134942560G>A	uc001llx.3	+	7	1664	c.1228G>A	c.(1228-1230)GAC>AAC	p.D410N	GPR123_uc001llw.2_Missense_Mutation_p.D1129N	NM_001083909	NP_001077378	Q86SQ6	GP123_HUMAN	G protein-coupled receptor 123	410	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		CTTCGGGCACGACCCCCACCT	0.682													3	1					0	0	1	0	0		A	134942560	A	A	134942560	3	1	103	1	0	0	0	0	1	0	0	0	6652	1058	37	1	1250	1	GPR123	10	134942560	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	344129	134942560	592187	1088	63037											
B4GALNT4	338707	broad.mit.edu	37	chr11	375731	375731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccgcaggaggagaccagcGcagacatgctgcggccagat	10	3	15	13	4	0	3	0	0	0	3	0	5	0	4	3	3	3	3	3	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:375731G>A	uc001lpb.2	+	10	952	c.943G>A	c.(943-945)GCA>ACA	p.A315T		NM_178537	NP_848632	Q76KP1	B4GN4_HUMAN	beta	315	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			pancreas(1)	1		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGAGACCAGCGCAGACATGCT	0.562													4	43					0	0	1	0	0		A	375731	A	A	375731	3	1	103	1	0	0	0	0	1	0	0	0	1270	1087	38	1	981	1	B4GALNT4	11	375731	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08		375731	134630785	1089	63038											
MUC6	4588	broad.mit.edu	37	chr11	1013590	1013590	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggagtggagggggcggcAgcagctgcagcgggcatcca	9	4	19	9	2	0	0	0	0	0	0	1	2	1	2	1	6	4	5	1	6	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:1013590A>G	uc001lsw.2	-	33	7237	c.7186T>C	c.(7186-7188)TGC>CGC	p.C2396R		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2396	CTCK.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGGGGGCGGCAGCAGCTGCAG	0.647													3	2					0	0	1	0	0		G	1013590	G	G	1013590	3	3	103	1	0	0	0	0	1	0	0	0	9998	188	7	3	137	3	MUC6	11	1013590	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	637859	1013590	133992926	1090	63039											
MUC2	4583	broad.mit.edu	37	chr11	1084335	1084335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaaggaatgcccttgcGtccataacaacgacctgtat	12	9	10	10	2	0	1	0	0	0	1	1	4	1	2	3	2	4	1	3	2	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:1084335G>A	uc001lsx.1	+	19	2494	c.2467G>A	c.(2467-2469)GTC>ATC	p.V823I		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	823						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	ATGCCCTTGCGTCCATAACAA	0.622													13	19					0	0	1	0	0		A	1084335	A	A	1084335	3	1	103	1	0	0	0	0	1	0	0	0	9993	1145	40	1	2541	1	MUC2	11	1084335	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	70745	1084335	133922181	1091	63040											
MUC2	4583	broad.mit.edu	37	chr11	1096474	1096474	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgacaactaccactgcgatCccaacgacaaggtgtcctgt	11	8	8	14	3	0	0	0	0	0	0	3	3	2	0	3	1	4	0	3	1	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:1096474C>A	uc001lsx.1	+	37	13612	c.13585C>A	c.(13585-13587)CCC>ACC	p.P4529T		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4529	VWFD 4.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	CCACTGCGATCCCAACGACAA	0.582													27	44					4.22769e-11	4.43055e-11	1	1	0		A	1096474	A	A	1096474	3	1	103	1	0	0	0	0	1	0	0	0	9993	855	30	5	6625	5	MUC2	11	1096474	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	12139	1096474	133910042	1092	63041											
MUC5B	727897	broad.mit.edu	37	chr11	1278846	1278846	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaagcccctgccctgtgaCgcccagggtcagcccccgcc	5	5	11	20	2	1	1	1	1	0	0	1	1	1	1	7	1	4	1	7	1	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:1278846C>T	uc009ycr.1	+	63	17493	c.17367C>T	c.(17365-17367)GAC>GAT	p.D5789D	MUC5B_uc001ltb.2_Silent_p.D5455D	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5452	VWFC 2.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		TGCCCTGTGACGCCCAGGGTC	0.677													10	12					0	0	1	0	0		T	1278846	T	T	1278846	2	4	103	1	0	0	0	0	0	0	0	1	9997	535	19	1		1	MUC5B	11	1278846	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	182372	1278846	133727670	1093	63042											
OSBPL5	114879	broad.mit.edu	37	chr11	3125509	3125509	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaacgtgggtagcaccacGcgggacaggtccatgcctgg	9	5	15	12	4	0	0	0	0	0	0	1	2	1	1	3	4	3	2	3	4	2	1	rs138582624	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:3125509G>A	uc001lxk.2	-	10	1316	c.1158C>T	c.(1156-1158)CGC>CGT	p.R386R	OSBPL5_uc010qxq.1_Silent_p.R297R|OSBPL5_uc009ydw.2_Silent_p.R318R|OSBPL5_uc001lxl.2_Silent_p.R318R|OSBPL5_uc009ydx.2_Silent_p.R410R	NM_020896	NP_065947	Q9H0X9	OSBL5_HUMAN	oxysterol-binding protein-like protein 5 isoform	386					cholesterol metabolic process|cholesterol transport|Golgi to plasma membrane transport	cytosol	oxysterol binding|protein binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		GTAGCACCACGCGGGACAGGT	0.622													24	33					0	0	1	0	0		A	3125509	A	A	3125509	2	1	103	1	0	0	0	0	0	0	0	1	11299	1074	38	1		1	OSBPL5	11	3125509	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1846663	3125509	131881007	1094	63043											
RRM1	6240	broad.mit.edu	37	chr11	4148290	4148290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatcaaataaacgccatcGccccattggaattggggtac	12	9	8	12	2	1	0	1	0	0	0	2	1	1	1	4	3	2	1	4	3	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:4148290G>A	uc001lyw.3	+	14	1815	c.1496G>A	c.(1495-1497)CGC>CAC	p.R499H	RRM1_uc009yej.2_RNA|RRM1_uc009yei.2_Missense_Mutation_p.R459H|RRM1_uc010qyc.1_Missense_Mutation_p.R402H|RRM1_uc010qyd.1_Missense_Mutation_p.R161H	NM_001033	NP_001024	P23921	RIR1_HUMAN	ribonucleoside-diphosphate reductase M1 chain	499					deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion	cytosol|nucleoplasm|ribonucleoside-diphosphate reductase complex	ATP binding|ribonucleoside-diphosphate reductase activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00502)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0848)|LUSC - Lung squamous cell carcinoma(625;0.205)	Clofarabine(DB00631)|Fludarabine(DB01073)|Gemcitabine(DB00441)|Hydroxyurea(DB01005)	AAACGCCATCGCCCCATTGGA	0.408													36	77					0	0	1	0	0		A	4148290	A	A	4148290	3	1	103	1	0	0	0	0	1	0	0	0	13706	1087	38	1	1550	1	RRM1	11	4148290	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1022781	4148290	130858226	1095	63044											
OR52H1	390067	broad.mit.edu	37	chr11	5566416	5566416	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccaggacaaagttatagTgaaggaagaacatttgtgta	17	10	10	4	0	0	2	0	1	0	1	1	4	1	4	1	2	1	2	1	2	8	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:5566416T>C	uc010qzh.1	-	1	338	c.338A>G	c.(337-339)CAC>CGC	p.H113R	HBG2_uc001mak.1_Intron	NM_001005289	NP_001005289	Q8NGJ2	O52H1_HUMAN	olfactory receptor, family 52, subfamily H,	113	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;5.33e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAAGTTATAGTGAAGGAAGAA	0.458													24	58					0	0	1	0	0		C	5566416	C	C	5566416	3	2	103	1	0	0	0	0	1	0	0	0	11138	1696	59	3	627	3	OR52H1	11	5566416	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1418126	5566416	129440100	1096	63045											
OR52E4	390081	broad.mit.edu	37	chr11	5905781	5905781	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccccaaaatgctaggaatcTtctggttcaacctccaagag	12	10	7	12	0	3	1	1	0	2	1	5	2	5	2	4	2	2	2	4	2	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:5905781T>C	uc010qzs.1	+	1	259	c.259T>C	c.(259-261)TTC>CTC	p.F87L	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCTAGGAATCTTCTGGTTCAA	0.453													59	76					0	0	1	0	0		C	5905781	C	C	5905781	3	2	103	1	0	0	0	0	1	0	0	0	11135	1609	56	3	261	3	OR52E4	11	5905781	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	339365	5905781	129100735	1097	63046											
CNGA4	1262	broad.mit.edu	37	chr11	6261451	6261451	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaccctgaggctgaacCgctttctccgcgcgccccgc	5	6	9	21	5	1	2	0	2	1	0	2	2	1	2	6	1	1	2	6	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:6261451C>T	uc001mco.2	+	4	534	c.427C>T	c.(427-429)CGC>TGC	p.R143C	CNGA4_uc010raa.1_Intron|CNGA4_uc001mcn.2_Missense_Mutation_p.R103C	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	143	Extracellular (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAGGCTGAACCGCTTTCTCCG	0.607													61	111					0	0	1	0	0		T	6261451	T	T	6261451	3	4	103	1	0	0	0	0	1	0	0	0	3602	652	23	1	441	1	CNGA4	11	6261451	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	355670	6261451	128745065	1098	63047											
DNHD1	144132	broad.mit.edu	37	chr11	6592278	6592278	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgcagcagctgaagggCgcacccccgtgcccctcccg	5	6	12	18	3	0	1	0	1	0	0	1	1	1	1	5	1	4	5	5	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:6592278C>T	uc001mdw.3	+	42	14100	c.13536C>T	c.(13534-13536)GGC>GGT	p.G4512G	DNHD1_uc001mea.3_Silent_p.G781G|DNHD1_uc001meb.2_3'UTR|DNHD1_uc001mec.2_Silent_p.G780G|DNHD1_uc010rao.1_Silent_p.G770G|DNHD1_uc009yfg.2_Silent_p.G137G	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	4512					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		AGCTGAAGGGCGCACCCCCGT	0.682													10	32					0	0	1	0	0		T	6592278	T	T	6592278	2	4	103	1	0	0	0	0	0	0	0	1	4674	755	27	1		1	DNHD1	11	6592278	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	330827	6592278	128414238	1099	63048											
RRP8	23378	broad.mit.edu	37	chr11	6623374	6623374	+	Frame_Shift_Del	DEL	G	-	-																															gagtcacttatacataggctGgggggatgctgggaaagaga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:6623374delG	uc001med.2	-	2	250	c.171delC	c.(169-171)CCCfs	p.P57fs	ILK_uc001mee.2_5'Flank|ILK_uc001mef.2_5'Flank|ILK_uc010rap.1_5'Flank|ILK_uc010raq.1_5'Flank|ILK_uc001meg.2_5'Flank|ILK_uc001meh.2_5'Flank	NM_015324	NP_056139	O43159	RRP8_HUMAN	ribosomal RNA processing 8, methyltransferase,	57					chromatin modification|chromatin silencing at rDNA|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	methylated histone residue binding|S-adenosylmethionine-dependent methyltransferase activity				0						TACATAGGCTGGGGGGATGCT	0.557													33	76	---	---	---	---						.	-	6623374	-	-	6623374	7	5	103	1	0	1	0	1	0	0	0	0	13715	1335	47	0	1223	0	RRP8	11	6623374	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	31096	6623374	128383142	1100	63049											
ILK	3611	broad.mit.edu	37	chr11	6629392	6629392	+	Frame_Shift_Del	DEL	C	-	-																															aatgaaccgtggggatgacaCccccctgcatctggcagcca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:6629392delC	uc001mee.2	+	3	341	c.206delC	c.(205-207)ACCfs	p.T69fs	ILK_uc001mef.2_Frame_Shift_Del_p.T69fs|ILK_uc010rap.1_Intron|ILK_uc010raq.1_Frame_Shift_Del_p.T69fs|ILK_uc001meg.2_5'UTR|ILK_uc001meh.2_Frame_Shift_Del_p.T69fs|ILK_uc001mei.2_5'Flank	NM_001014794	NP_001014794	Q13418	ILK_HUMAN	integrin-linked kinase	69	Interaction with LIMS1.|ANK 3.				cell junction assembly|cell proliferation|cell-matrix adhesion|integrin-mediated signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent	cytosol|focal adhesion	ATP binding|protein serine/threonine kinase activity			central_nervous_system(1)	1		Breast(177;7.61e-05)|Medulloblastoma(188;0.00263)|all_neural(188;0.026)|all_lung(207;0.152)		Epithelial(150;5.49e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00012)|Lung(200;0.00942)|LUSC - Lung squamous cell carcinoma(625;0.0163)		GGGGATGACACCCCCCTGCAT	0.557													35	58	---	---	---	---						.	-	6629392	-	-	6629392	7	5	103	1	0	1	0	1	0	0	0	0	7729	507	18	0	212	0	ILK	11	6629392	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	6018	6629392	128377124	1101	63050											
DCHS1	8642	broad.mit.edu	37	chr11	6653519	6653519	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcagctttggacccagacActgccattaccttcagtatg	10	11	7	13	0	2	1	2	0	0	1	2	2	2	2	3	1	3	2	3	1	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:6653519A>G	uc001mem.1	-	6	3634	c.3224T>C	c.(3223-3225)GTG>GCG	p.V1075A		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1075	Cadherin 10.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGACCCAGACACTGCCATTAC	0.577													34	46					0	0	1	0	0		G	6653519	G	G	6653519	3	3	103	1	0	0	0	0	1	0	0	0	4290	159	6	3	6736	3	DCHS1	11	6653519	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	24127	6653519	128352997	1102	63051											
SYT9	143425	broad.mit.edu	37	chr11	7334764	7334764	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcattggataatgatgaCgggagacggagtaacagcaa	15	7	14	5	2	1	3	1	2	0	1	1	6	1	5	0	4	2	2	0	4	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:7334764C>T	uc001mfe.2	+	3	873	c.636C>T	c.(634-636)GAC>GAT	p.D212D	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_Intron	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	212	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		ATAATGATGACGGGAGACGGA	0.403													36	53					0	0	1	0	0		T	7334764	T	T	7334764	2	4	103	1	0	0	0	0	0	0	0	1	15506	535	19	1		1	SYT9	11	7334764	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	681245	7334764	127671752	1103	63052											
MICAL2	9645	broad.mit.edu	37	chr11	12247894	12247894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagttctacgagctcttccGgggcaccccactgaggcccg	7	7	11	16	3	2	1	0	1	2	0	3	2	3	1	4	3	2	3	4	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:12247894G>A	uc001mjz.2	+	14	2153	c.1865G>A	c.(1864-1866)CGG>CAG	p.R622Q	MICAL2_uc010rch.1_Missense_Mutation_p.R622Q|MICAL2_uc001mka.2_Missense_Mutation_p.R622Q|MICAL2_uc010rci.1_Missense_Mutation_p.R622Q|MICAL2_uc001mkb.2_Missense_Mutation_p.R622Q|MICAL2_uc001mkc.2_Missense_Mutation_p.R622Q|MICAL2_uc001mkd.2_Missense_Mutation_p.R451Q|MICAL2_uc010rcj.1_Missense_Mutation_p.R24Q	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	622						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		GAGCTCTTCCGGGGCACCCCA	0.587													26	36					0	0	1	0	0		A	12247894	A	A	12247894	3	1	103	1	0	0	0	0	1	0	0	0	9588	1116	39	1	1911	1	MICAL2	11	12247894	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4913130	12247894	122758622	1104	63053											
MICAL2	9645	broad.mit.edu	37	chr11	12247914	12247914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcaccccactgaggcccGtgggtaagcacctgcacaga	9	4	14	14	1	0	2	0	1	0	1	0	2	0	2	4	4	2	4	4	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:12247914G>A	uc001mjz.2	+	14	2173	c.1885G>A	c.(1885-1887)GTG>ATG	p.V629M	MICAL2_uc010rch.1_Missense_Mutation_p.V629M|MICAL2_uc001mka.2_Missense_Mutation_p.V629M|MICAL2_uc010rci.1_Missense_Mutation_p.V629M|MICAL2_uc001mkb.2_Missense_Mutation_p.V629M|MICAL2_uc001mkc.2_Missense_Mutation_p.V629M|MICAL2_uc001mkd.2_Missense_Mutation_p.V458M|MICAL2_uc010rcj.1_Missense_Mutation_p.V31M	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	629						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		ACTGAGGCCCGTGGGTAAGCA	0.572													20	36					0	0	1	0	0		A	12247914	A	A	12247914	3	1	103	1	0	0	0	0	1	0	0	0	9588	1145	40	1	1931	1	MICAL2	11	12247914	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	20	12247914	122758602	1105	63054											
SAAL1	113174	broad.mit.edu	37	chr11	18105214	18105214	+	Frame_Shift_Del	DEL	T	-	-																															gactctgccgagttctctggTtttttctgacactgttccat																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:18105214delT	uc001mnq.2	-	10	1157	c.1107delA	c.(1105-1107)AAAfs	p.K369fs	SAAL1_uc001mnr.2_Frame_Shift_Del_p.K368fs|SAAL1_uc001mns.2_RNA|SAAL1_uc009yhf.2_Frame_Shift_Del_p.K371fs	NM_138421	NP_612430	Q96ER3	SAAL1_HUMAN	serum amyloid A-like 1	369					acute-phase response	extracellular region	binding				0						AGTTCTCTGGTTTTTTCTGAC	0.368													33	36	---	---	---	---						.	-	18105214	-	-	18105214	7	5	103	1	0	1	0	1	0	0	0	0	13826	1722	60	0	329	0	SAAL1	11	18105214	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	5857300	18105214	116901302	1106	63055											
MRGPRX1	259249	broad.mit.edu	37	chr11	18955440	18955440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcatccacctcagacgCgtcctgcagagccctctgga	8	8	8	17	2	3	2	2	0	1	2	5	3	5	3	5	1	2	1	5	1	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:18955440C>T	uc001mpg.2	-	1	1110	c.892G>A	c.(892-894)GCG>ACG	p.A298T		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	298	Cytoplasmic (Potential).			AS -> TP (in Ref. 2; AAL86880).	acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						ACCTCAGACGCGTCCTGCAGA	0.562													22	47					0	0	1	0	0		T	18955440	T	T	18955440	3	4	103	1	0	0	0	0	1	0	0	0	9784	768	27	1	80	1	MRGPRX1	11	18955440	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	850226	18955440	116051076	1107	63056											
E2F8	79733	broad.mit.edu	37	chr11	19256596	19256596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatatcgtaaatgcgtcgaCgttcaacatctacaaagaat	15	10	7	9	5	2	1	1	0	1	1	4	3	2	1	0	0	3	2	0	0	7	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:19256596C>T	uc001mpm.2	-	5	983	c.461G>A	c.(460-462)CGT>CAT	p.R154H	E2F8_uc009yhv.2_RNA|E2F8_uc001mpn.3_Missense_Mutation_p.R154H	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	154	Potential.				cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						AATGCGTCGACGTTCAACATC	0.413													5	16					0	0	1	0	0		T	19256596	T	T	19256596	3	4	103	1	0	0	0	0	1	0	0	0	4879	536	19	1	2178	1	E2F8	11	19256596	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	301156	19256596	115749920	1108	63057											
NAV2	89797	broad.mit.edu	37	chr11	20104605	20104605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagaagtccccaaaatctgCgtcctctcattcagatattg	12	11	7	11	1	3	2	2	0	2	2	6	3	5	2	3	0	1	0	3	0	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:20104605C>T	uc001mpr.3	+	26	5748	c.5387C>T	c.(5386-5388)GCG>GTG	p.A1796V	NAV2_uc001mpp.2_Missense_Mutation_p.A1729V|NAV2_uc009yhx.2_Missense_Mutation_p.A857V|NAV2_uc009yhz.2_Missense_Mutation_p.A438V|NAV2_uc001mpu.2_Missense_Mutation_p.A231V	NM_182964	NP_892009	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 1	1852						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						CCAAAATCTGCGTCCTCTCAT	0.498													20	28					0	0	1	0	0		T	20104605	T	T	20104605	3	4	103	1	0	0	0	0	1	0	0	0	10202	768	27	1	5598	1	NAV2	11	20104605	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	848009	20104605	114901911	1109	63058											
ANO5	203859	broad.mit.edu	37	chr11	22272355	22272355	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgtgatcaagtgtgtgAttattggagactaaatagta	13	14	10	4	0	2	3	1	2	1	1	2	4	2	3	0	1	0	1	0	1	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:22272355A>T	uc001mqi.2	+	11	1399	c.1082A>T	c.(1081-1083)GAT>GTT	p.D361V	ANO5_uc001mqj.2_Missense_Mutation_p.D360V	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	361	Extracellular (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						CAAGTGTGTGATTATTGGAGA	0.383													44	55					0	0	1	0	0		T	22272355	T	T	22272355	3	4	103	1	0	0	0	0	1	0	0	0	700	333	12	5	1124	5	ANO5	11	22272355	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2167750	22272355	112734161	1110	63059											
BDNF	627	broad.mit.edu	37	chr11	27680000	27680000	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccagagtcccatgggtccGcacacctgggtaggccaagc	8	6	12	15	1	0	1	0	0	0	1	3	1	3	1	5	3	1	2	5	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:27680000G>A	uc010rdu.1	-	2	963	c.112C>T	c.(112-114)CGG>TGG	p.R38W	BDNFOS_uc001mrm.2_RNA|BDNFOS_uc009yij.2_RNA|BDNFOS_uc009yik.2_RNA|BDNFOS_uc009yil.2_RNA|BDNFOS_uc001mrp.2_RNA|BDNFOS_uc009yim.2_RNA|BDNFOS_uc009yin.2_RNA|BDNFOS_uc009yio.2_RNA|BDNFOS_uc009yip.2_RNA|BDNFOS_uc001mrn.2_RNA|BDNFOS_uc009yiq.2_RNA|BDNFOS_uc001mro.2_RNA|BDNFOS_uc009yir.2_RNA|BDNFOS_uc009yis.2_Intron|BDNFOS_uc009yit.2_RNA|BDNFOS_uc009yiu.2_RNA|BDNFOS_uc009yiv.2_RNA|BDNFOS_uc009yiw.2_RNA|BDNFOS_uc009yix.2_RNA|BDNFOS_uc009yiy.2_RNA|BDNFOS_uc009yiz.2_RNA|BDNFOS_uc001mrq.3_RNA|BDNFOS_uc001mrr.3_RNA|BDNFOS_uc009yja.2_RNA|BDNFOS_uc009yjb.2_RNA|BDNF_uc010rdv.1_Missense_Mutation_p.R38W|BDNF_uc001mrt.2_Missense_Mutation_p.R53W|BDNF_uc010rdw.1_Missense_Mutation_p.R38W|BDNF_uc009yjd.2_Missense_Mutation_p.R38W|BDNF_uc001mru.2_Missense_Mutation_p.R38W|BDNF_uc010rdx.1_Missense_Mutation_p.R38W|BDNF_uc010rdy.1_Missense_Mutation_p.R38W|BDNF_uc009yjg.2_Missense_Mutation_p.R38W|BDNF_uc009yje.2_Missense_Mutation_p.R120W|BDNF_uc009yjf.2_Missense_Mutation_p.R67W|BDNF_uc001mrv.2_Missense_Mutation_p.R38W|BDNF_uc001mrw.3_Missense_Mutation_p.R38W|BDNF_uc001mrx.2_Missense_Mutation_p.R38W|BDNF_uc001mry.3_Missense_Mutation_p.R38W|BDNF_uc001mrz.3_Missense_Mutation_p.R38W|BDNF_uc001msa.2_Missense_Mutation_p.R46W	NM_001143816	NP_001137288	P23560	BDNF_HUMAN	brain-derived neurotrophic factor isoform a	38						extracellular region	growth factor activity				0						CCATGGGTCCGCACACCTGGG	0.507													53	67					0	0	1	0	0		A	27680000	A	A	27680000	3	1	103	1	0	0	0	0	1	0	0	0	1395	1086	38	1	635	1	BDNF	11	27680000	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5407645	27680000	107326516	1111	63060											
QSER1	79832	broad.mit.edu	37	chr11	32953667	32953667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gccttcagcacttgggggatCccagcagactcctcaagcct	8	8	10	15	0	2	1	2	0	0	1	4	2	4	2	4	2	3	2	4	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:32953667C>T	uc001mty.2	+	4	743	c.476C>T	c.(475-477)TCC>TTC	p.S159F	QSER1_uc001mtz.1_Missense_Mutation_p.S159F|QSER1_uc001mua.2_5'Flank	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	159	Ser-rich.									ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					CTTGGGGGATCCCAGCAGACT	0.443													59	92					0	0	1	0	0		T	32953667	T	T	32953667	3	4	103	1	0	0	0	0	1	0	0	0	12907	855	30	4	482	4	QSER1	11	32953667	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	5273667	32953667	102052849	1112	63061											
QSER1	79832	broad.mit.edu	37	chr11	32990615	32990615	+	Frame_Shift_Del	DEL	A	-	-																															agctacttttacctcatatgAaaaaaatagatggcatgcta																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:32990615delA	uc001mty.2	+	10	5011	c.4744delA	c.(4744-4746)AAAfs	p.K1582fs	QSER1_uc001mtz.1_Frame_Shift_Del_p.K1343fs|QSER1_uc001mua.2_Frame_Shift_Del_p.K1087fs	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	1582										ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					ACCTCATATGAAAAAAATAGA	0.279													49	94	---	---	---	---						.	-	32990615	-	-	32990615	7	5	103	1	0	1	0	1	0	0	0	0	12907	247	9	0	4774	0	QSER1	11	32990615	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	36948	32990615	102015901	1113	63062											
C11orf74	119710	broad.mit.edu	37	chr11	36669606	36669606	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagtggagcaggatgtaagCaccagcattccttcctgtat	11	10	11	9	0	0	0	0	0	0	0	2	3	2	2	3	2	3	5	3	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:36669606C>T	uc001mwy.1	+	5	472	c.399C>T	c.(397-399)AGC>AGT	p.S133S	C11orf74_uc010rfd.1_RNA|C11orf74_uc001mww.1_Silent_p.S59S|C11orf74_uc001mwx.1_RNA|C11orf74_uc001mwz.1_Silent_p.S59S|C11orf74_uc010rfe.1_RNA	NM_138787	NP_620142	Q86VG3	CK074_HUMAN	hypothetical protein LOC119710	133											0	all_lung(20;0.226)	all_hematologic(20;0.0118)				AGGATGTAAGCACCAGCATTC	0.458													69	106					0	0	1	0	0		T	36669606	T	T	36669606	2	4	103	1	0	0	0	0	0	0	0	1	1665	709	25	2		2	C11orf74	11	36669606	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3678991	36669606	98336910	1114	63063											
TTC17	55761	broad.mit.edu	37	chr11	43427343	43427343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcttgtgccaggatccacGaactcagcagtgatgattat	10	13	9	9	1	2	2	1	2	1	0	3	4	3	3	2	1	3	1	2	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:43427343G>A	uc001mxi.2	+	13	1617	c.1603G>A	c.(1603-1605)GAA>AAA	p.E535K	TTC17_uc001mxh.2_Missense_Mutation_p.E535K|TTC17_uc010rfj.1_Missense_Mutation_p.E478K|TTC17_uc001mxj.2_Missense_Mutation_p.E305K	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	535							binding			ovary(5)	5						CAGGATCCACGAACTCAGCAG	0.413													32	67					0	0	1	0	0		A	43427343	A	A	43427343	3	1	103	1	0	0	0	0	1	0	0	0	16710	1059	37	1	1653	1	TTC17	11	43427343	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6757737	43427343	91579173	1115	63064											
TTC17	55761	broad.mit.edu	37	chr11	43511893	43511893	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaggctctgcactatgcGccacaccagatgaaggtgag	10	6	12	13	2	1	3	0	2	1	1	1	3	1	3	3	2	2	2	3	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:43511893G>A	uc001mxi.2	+	22	3149	c.3135G>A	c.(3133-3135)GCG>GCA	p.A1045A	TTC17_uc010rfj.1_Silent_p.A1045A|TTC17_uc001mxl.2_Silent_p.A101A|TTC17_uc001mxm.2_Silent_p.A26A	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	1045	TPR 4.						binding			ovary(5)	5						TGCACTATGCGCCACACCAGA	0.567													30	48					0	0	1	0	0		A	43511893	A	A	43511893	2	1	103	1	0	0	0	0	0	0	0	1	16710	1074	38	1		1	TTC17	11	43511893	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	84550	43511893	91494623	1116	63065											
AMBRA1	55626	broad.mit.edu	37	chr11	46419316	46419316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcaccaggttcagtgcccGtctgagagctgcggtgaatg	7	8	15	11	3	2	2	1	2	1	1	2	3	2	2	2	3	3	3	2	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:46419316G>A	uc010rgu.1	-	18	3941	c.3581C>T	c.(3580-3582)ACG>ATG	p.T1194M	AMBRA1_uc010rgt.1_3'UTR|AMBRA1_uc009ylc.1_Missense_Mutation_p.T1165M|AMBRA1_uc001ncu.1_Missense_Mutation_p.T1104M|AMBRA1_uc001ncv.2_Missense_Mutation_p.T1197M|AMBRA1_uc001ncw.2_Missense_Mutation_p.T1075M|AMBRA1_uc001ncx.2_Missense_Mutation_p.T1134M	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	1194					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		TTCAGTGCCCGTCTGAGAGCT	0.667													15	28					0	0	1	0	0		A	46419316	A	A	46419316	3	1	103	1	0	0	0	0	1	0	0	0	565	1145	40	1	319	1	AMBRA1	11	46419316	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2907423	46419316	88587200	1117	63066											
CKAP5	9793	broad.mit.edu	37	chr11	46804910	46804910	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttttgtgagaaagccatTgacacaacctgaaaagggaa	15	10	9	7	0	1	3	0	3	1	1	1	5	1	4	2	1	2	0	2	1	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:46804910T>C	uc001ndi.1	-	18	2273	c.2163A>G	c.(2161-2163)TCA>TCG	p.S721S	CKAP5_uc009ylg.1_Silent_p.S607S|CKAP5_uc001ndj.1_Silent_p.S721S	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	721					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						AGAAAGCCATTGACACAACCT	0.353													22	42					0	0	1	0	0		C	46804910	C	C	46804910	2	2	103	1	0	0	0	0	0	0	0	1	3448	1799	63	3		3	CKAP5	11	46804910	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	385594	46804910	88201606	1118	63067											
CKAP5	9793	broad.mit.edu	37	chr11	46819663	46819663	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgcatcaattgcctcctgCagggcttgtaccacttgagg	8	12	10	11	0	1	1	1	1	0	0	2	1	2	1	3	2	4	4	3	2	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:46819663C>T	uc001ndi.1	-	10	1253	c.1143G>A	c.(1141-1143)CTG>CTA	p.L381L	CKAP5_uc009ylg.1_Silent_p.L267L|CKAP5_uc001ndj.1_Silent_p.L381L	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	381	HEAT 2.				cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						TTGCCTCCTGCAGGGCTTGTA	0.338													51	90					0	0	1	0	0		T	46819663	T	T	46819663	2	4	103	1	0	0	0	0	0	0	0	1	3448	697	25	2		2	CKAP5	11	46819663	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	14753	46819663	88186853	1119	63068											
LRP4	4038	broad.mit.edu	37	chr11	46921056	46921057	+	Splice_Site	INS	-	G	G																															cggagcacttgcgcatgtctINSggggggatgcgatgggacag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:46921056_46921057insG	uc001ndn.3	-	5	577	c.431_splice	c.e5-1	p.D144_splice	LRP4_uc009ylh.1_Splice_Site_p.D95_splice	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein						endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		TGCGCATGTCTGGGGGGATGCG	0.599													39	66	---	---	---	---						.	G	46921057	G	G	46921056	8	5	103	1	0	1	1	0	0	0	1	0	8977	1594	55	0	5424	0	LRP4	11	46921056	Splice_Site	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	101393	46921056	88085460	1120	63069											
MADD	8567	broad.mit.edu	37	chr11	47312287	47312287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttccacaactgggacctcGggcaccaagtgccacaggaa	12	5	11	13	1	0	0	0	0	0	0	2	2	1	2	4	3	2	2	4	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:47312287G>A	uc001ner.1	+	20	3472	c.3281G>A	c.(3280-3282)CGG>CAG	p.R1094Q	MADD_uc001neq.2_Missense_Mutation_p.R1074Q|MADD_uc001nev.1_Missense_Mutation_p.R1031Q|MADD_uc001nes.1_Missense_Mutation_p.R1051Q|MADD_uc001net.1_Missense_Mutation_p.R1094Q|MADD_uc009yln.1_Missense_Mutation_p.R1031Q|MADD_uc001neu.1_Missense_Mutation_p.R1031Q|MADD_uc001nex.2_Missense_Mutation_p.R1094Q|MADD_uc001nez.2_Missense_Mutation_p.R1031Q|MADD_uc001new.2_Missense_Mutation_p.R1074Q|MADD_uc009ylo.2_Missense_Mutation_p.R12Q	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	1094					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		CTGGGACCTCGGGCACCAAGT	0.498													17	30					0	0	1	0	0		A	47312287	A	A	47312287	3	1	103	1	0	0	0	0	1	0	0	0	9170	1116	39	1	3355	1	MADD	11	47312287	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	391231	47312287	87694229	1121	63070											
CELF1	10658	broad.mit.edu	37	chr11	47504307	47504307	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttccccacacagatgctgcGctgatttgctgcatctgctg	6	13	9	13	1	1	2	0	1	1	1	2	2	2	2	2	0	5	5	2	0	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:47504307G>A	uc001nfl.2	-	6	637	c.627C>T	c.(625-627)AGC>AGT	p.S209S	CELF1_uc001nfm.2_Silent_p.S209S|CELF1_uc001nfn.2_Silent_p.S209S|CELF1_uc001nfo.1_Silent_p.S235S|CELF1_uc010rhm.1_Silent_p.S208S|CELF1_uc001nfp.2_Silent_p.S236S|CELF1_uc001nfq.1_Silent_p.S209S|CELF1_uc001nfr.1_Silent_p.S209S	NM_001025596	NP_001020767	Q92879	CELF1_HUMAN	CUG triplet repeat, RNA-binding protein 1	209					embryo development|mRNA splice site selection|regulation of RNA splicing|RNA interference	cytoplasm|nucleus|ribonucleoprotein complex	BRE binding|mRNA binding|nucleotide binding|translation repressor activity, nucleic acid binding			central_nervous_system(2)|ovary(1)	3						CAGATGCTGCGCTGATTTGCT	0.483													31	43					0	0	1	0	0		A	47504307	A	A	47504307	2	1	103	1	0	0	0	0	0	0	0	1	3218	1078	38	1		1	CELF1	11	47504307	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	192020	47504307	87502209	1122	63071											
C1QTNF4	114900	broad.mit.edu	37	chr11	47612294	47612294	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgcagctcagaggatccCgggccgggggtcgggcccag	6	3	19	13	4	1	1	1	0	0	1	3	3	2	2	3	5	2	2	3	5	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:47612294C>T	uc001ngc.2	-	2	336	c.69G>A	c.(67-69)CCG>CCA	p.P23P		NM_031909	NP_114115	Q9BXJ3	C1QT4_HUMAN	C1q and tumor necrosis factor related protein 4	23						extracellular region					0						CAGAGGATCCCGGGCCGGGGG	0.721													8	11					0	0	1	0	0		T	47612294	T	T	47612294	2	4	103	1	0	0	0	0	0	0	0	1	1968	639	23	1		1	C1QTNF4	11	47612294	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	107987	47612294	87394222	1123	63072											
OR4C16	219428	broad.mit.edu	37	chr11	55339828	55339828	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttgcctctctacttccatAacccctagaatgattgtgga	10	13	6	12	0	1	2	0	1	1	1	3	3	2	3	4	1	3	0	4	1	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:55339828A>G	uc010rih.1	+	1	225	c.225A>G	c.(223-225)ATA>ATG	p.I75M		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				CTACTTCCATAACCCCTAGAA	0.423													65	103					0	0	1	0	0		G	55339828	G	G	55339828	3	3	103	1	0	0	0	0	1	0	0	0	11068	352	13	3	227	3	OR4C16	11	55339828	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	7727534	55339828	79666688	1124	63073											
OR8J3	81168	broad.mit.edu	37	chr11	55904902	55904902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaaccctcccagttgggtgGcacattcatagaatgaggta	12	9	11	9	0	1	3	1	1	0	2	2	3	2	3	2	3	1	3	2	3	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:55904902G>A	uc010riz.1	-	1	293	c.293C>T	c.(292-294)GCC>GTC	p.A98V		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					CAGTTGGGTGGCACATTCATA	0.433													5	113					0	0	1	0	0		A	55904902	A	A	55904902	3	1	103	1	0	0	0	0	1	0	0	0	11261	1203	42	2	656	2	OR8J3	11	55904902	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	565074	55904902	79101614	1125	63074											
OR8H1	219469	broad.mit.edu	37	chr11	56058538	56058538	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgttatttcttctacccaTgatgttcaattgctttaaac	9	19	5	8	0	3	1	1	1	2	0	3	1	3	1	1	0	3	3	1	0	5	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:56058538T>C	uc010rje.1	-	1	1	c.1A>G	c.(1-3)ATG>GTG	p.M1V		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					CTTCTACCCATGATGTTCAAT	0.358													28	64					0	0	1	0	0		C	56058538	C	C	56058538	3	2	103	1	0	0	0	0	1	0	0	0	11256	1478	51	3	936	3	OR8H1	11	56058538	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	153636	56058538	78947978	1126	63075											
OR8J1	219477	broad.mit.edu	37	chr11	56128015	56128015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacctcattctatgaatgtgCcacccaactgggagggttct	9	12	9	11	0	3	1	1	1	2	0	3	2	3	2	3	2	3	1	3	2	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:56128015C>T	uc010rjh.1	+	1	293	c.293C>T	c.(292-294)GCC>GTC	p.A98V		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TATGAATGTGCCACCCAACTG	0.418													30	57					0	0	1	0	0		T	56128015	T	T	56128015	3	4	103	1	0	0	0	0	1	0	0	0	11260	739	26	2	295	2	OR8J1	11	56128015	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	69477	56128015	78878501	1127	63076											
OR8J1	219477	broad.mit.edu	37	chr11	56128086	56128086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctttgatggcctatgacCgctatgtggctatttgtaac	7	15	11	8	1	0	2	0	2	0	0	0	2	0	2	2	3	1	4	2	3	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:56128086C>T	uc010rjh.1	+	1	364	c.364C>T	c.(364-366)CGC>TGC	p.R122C		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GGCCTATGACCGCTATGTGGC	0.493													29	58					0	0	1	0	0		T	56128086	T	T	56128086	3	4	103	1	0	0	0	0	1	0	0	0	11260	652	23	1	366	1	OR8J1	11	56128086	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	71	56128086	78878430	1128	63077											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57070218	57070219	+	Frame_Shift_Ins	INS	-	T	T																															actccctccgagccaccgccINSttggagctgctggctgccag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:57070218_57070219insT	uc001njr.2	-	6	4709_4710	c.4397_4398insA	c.(4396-4398)AAGfs	p.K1466fs	TNKS1BP1_uc001njp.2_Frame_Shift_Ins_p.K38fs|TNKS1BP1_uc001njq.2_Frame_Shift_Ins_p.K38fs|TNKS1BP1_uc001njs.2_Frame_Shift_Ins_p.K1466fs	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	1466	Tankyrase-binding.|Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GAGCCACCGCCTTGGAGCTGCT	0.713													5	7	---	---	---	---						.	T	57070219	T	T	57070218	7	5	103	1	0	1	1	0	0	0	0	0	16345	680	24	0	811	0	TNKS1BP1	11	57070218	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	942132	57070218	77936298	1129	63078											
OR9Q1	219956	broad.mit.edu	37	chr11	57947085	57947085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatggatcaccagctccacGctccaatgtatttccttctg	8	13	6	14	1	3	0	2	0	1	0	6	1	6	1	4	1	1	3	4	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:57947085G>A	uc001nmj.2	+	3	485	c.169G>A	c.(169-171)GCT>ACT	p.A57T		NM_001005212	NP_001005212	Q8NGQ5	OR9Q1_HUMAN	olfactory receptor, family 9, subfamily Q,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.222)				CCAGCTCCACGCTCCAATGTA	0.488													17	163					0	0	1	0	0		A	57947085	A	A	57947085	3	1	103	1	0	0	0	0	1	0	0	0	11274	1087	38	1	171	1	OR9Q1	11	57947085	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	876867	57947085	77059431	1130	63079											
OR5B12	390191	broad.mit.edu	37	chr11	58207126	58207128	+	In_Frame_Del	DEL	AGA	-	-																															ttcaactacattggatctacAgaaggagagcctgaaagtgt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:58207126_58207128delAGA	uc010rkh.1	-	1	497_499	c.497_499delTCT	c.(496-501)TTCTGT>TGT	p.F166del		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	166	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TTGGATCTACAGAAGGAGAGCCT	0.424													35	36	---	---	---	---						.	-	58207128	-	-	58207126	7	5	103	1	0	1	0	1	0	0	0	0	11167	188	7	0	449	0	OR5B12	11	58207126	In_Frame_Del	DEL	AGA	TCGA-BR-A4QL-01A-31D-A25D-08	260041	58207126	76799390	1131	63080											
MS4A14	84689	broad.mit.edu	37	chr11	60183894	60183894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagaagaaaatcctcaagaCggcattccttaaaccagcaa	18	7	6	10	1	1	3	1	0	0	3	3	3	3	3	3	1	2	2	3	1	8	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:60183894C>T	uc001npj.2	+	5	2018	c.1453C>T	c.(1453-1455)CGG>TGG	p.R485W	MS4A14_uc001npi.2_Missense_Mutation_p.R373W|MS4A14_uc001npn.2_Missense_Mutation_p.R223W|MS4A14_uc001npk.2_Missense_Mutation_p.R468W|MS4A14_uc001npl.2_Missense_Mutation_p.R223W|MS4A14_uc001npm.2_Missense_Mutation_p.R223W	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	485	Gln-rich.					integral to membrane	receptor activity			breast(1)	1						ATCCTCAAGACGGCATTCCTT	0.388													45	66					0	0	1	0	0		T	60183894	T	T	60183894	3	4	103	1	0	0	0	0	1	0	0	0	9876	527	19	1	1471	1	MS4A14	11	60183894	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1976768	60183894	74822622	1132	63081											
MS4A5	64232	broad.mit.edu	37	chr11	60215121	60215121	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcttcttcttctattacaGggaattttgattacattgat	9	21	5	6	0	4	2	0	2	4	0	4	3	4	3	0	1	2	0	0	1	4	10			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:60215121G>T	uc001npo.2	+	5	579	c.493_splice	c.e5-1	p.G165_splice		NM_023945	NP_076434	Q9H3V2	MS4A5_HUMAN	membrane-spanning 4-domains, subfamily A, member							integral to membrane	receptor activity			large_intestine(1)|ovary(1)	2						TTCTATTACAGGGAATTTTGA	0.348													25	47					1.96895e-08	2.03435e-08	1	1	0		T	60215121	T	T	60215121	5	4	103	1	0	0	0	0	0	0	1	0	9881	1014	35	5	510	5	MS4A5	11	60215121	Splice_Site	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	31227	60215121	74791395	1133	63082											
HNRNPUL2	221092	broad.mit.edu	37	chr11	62490153	62490153	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttctgccttgagtcctcGtccatcgaaaccgtaagaga	10	12	8	11	3	1	2	0	1	1	1	5	4	3	2	4	0	2	1	4	0	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:62490153G>A	uc001nuw.2	-	6	1208	c.1015C>T	c.(1015-1017)CGA>TGA	p.R339*	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	339	B30.2/SPRY.				cell killing	nucleus	ATP binding|nucleic acid binding				0						TTGAGTCCTCGTCCATCGAAA	0.418													40	63					0	0	1	0	0		A	62490153	A	A	62490153	4	1	103	1	0	0	0	0	0	1	0	0	7291	1153	40	1	1264	1	HNRNPUL2	11	62490153	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2275032	62490153	72516363	1134	63083											
ZBTB3	79842	broad.mit.edu	37	chr11	62519825	62519825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcaccgtggcatgtcgccGtagtgtgtaagagcatgaga	9	9	15	8	3	0	2	0	1	0	2	1	3	0	2	2	1	2	5	2	1	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:62519825G>A	uc001nuz.2	-	2	1584	c.1462C>T	c.(1462-1464)CGG>TGG	p.R488W		NM_024784	NP_079060	Q9H5J0	ZBTB3_HUMAN	zinc finger and BTB domain containing 3	488	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3						GCATGTCGCCGTAGTGTGTAA	0.562													21	34					0	0	1	0	0		A	62519825	A	A	62519825	3	1	103	1	0	0	0	0	1	0	0	0	17559	1144	40	1	266	1	ZBTB3	11	62519825	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	29672	62519825	72486691	1135	63084											
FERMT3	83706	broad.mit.edu	37	chr11	63990891	63990891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacattttcctgtcgacgcGggagcgggcccgtggggagg	5	8	17	11	5	0	0	0	0	0	0	2	3	1	2	2	5	2	0	2	5	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:63990891G>A	uc001nyl.2	+	15	2080	c.1931G>A	c.(1930-1932)CGG>CAG	p.R644Q	FERMT3_uc001nym.2_Missense_Mutation_p.R640Q|NUDT22_uc009ypd.2_5'Flank|NUDT22_uc001nyp.3_5'Flank|NUDT22_uc009ype.2_5'Flank|NUDT22_uc001nyq.3_5'Flank	NM_178443	NP_848537	Q86UX7	URP2_HUMAN	fermitin family homolog 3 long form	644					integrin activation|leukocyte cell-cell adhesion|platelet aggregation|regulation of cell-cell adhesion mediated by integrin	cell junction|cell projection|podosome	integrin binding			ovary(1)	1						CTGTCGACGCGGGAGCGGGCC	0.592													17	40					0	0	1	0	0		A	63990891	A	A	63990891	3	1	103	1	0	0	0	0	1	0	0	0	5833	1116	39	1	1985	1	FERMT3	11	63990891	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1471066	63990891	71015625	1136	63085											
CCDC88B	283234	broad.mit.edu	37	chr11	64112079	64112079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccagaggctggaagggaCggtcagggacccagcctggc	9	4	17	11	1	1	2	1	1	0	1	1	5	1	5	3	6	1	1	3	6	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:64112079C>T	uc001nzy.2	+	14	2110	c.2066C>T	c.(2065-2067)ACG>ATG	p.T689M	CCDC88B_uc009ypo.1_Missense_Mutation_p.T686M|CCDC88B_uc001nzz.1_Missense_Mutation_p.T338M	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	689					microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						CTGGAAGGGACGGTCAGGGAC	0.637													3	6					0	0	1	0	0		T	64112079	T	T	64112079	3	4	103	1	0	0	0	0	1	0	0	0	2867	536	19	1	2120	1	CCDC88B	11	64112079	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	121188	64112079	70894437	1137	63086											
NRXN2	9379	broad.mit.edu	37	chr11	64375286	64375286	+	Frame_Shift_Del	DEL	G	-	-																															taaaagtcctcgtcgtccgtGggggggaggctggagtcaaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:64375286delG	uc001oap.2	-	8	1894	c.1383delC	c.(1381-1383)CCCfs	p.P461fs	NRXN2_uc001oar.2_Frame_Shift_Del_p.P1507fs|NRXN2_uc001oas.2_Frame_Shift_Del_p.P1437fs|NRXN2_uc001oao.2_Frame_Shift_Del_p.P147fs|NRXN2_uc001oaq.2_Frame_Shift_Del_p.P1174fs	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	461	Extracellular (Potential).				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CGTCGTCCGTGGGGGGGAGGC	0.697													8	7	---	---	---	---						.	-	64375286	-	-	64375286	7	5	103	1	0	1	0	1	0	0	0	0	10685	1335	47	0	621	0	NRXN2	11	64375286	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	263207	64375286	70631230	1138	63087											
NRXN2	9379	broad.mit.edu	37	chr11	64390500	64390500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggggcggccctgatcccGgcccccgatcttgatggcag	6	6	15	14	3	1	2	0	2	1	0	2	4	2	2	4	5	0	1	4	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:64390500G>A	uc001oap.2	-	6	1271	c.760C>T	c.(760-762)CGG>TGG	p.R254W	NRXN2_uc001oar.2_Missense_Mutation_p.R1300W|NRXN2_uc001oas.2_Missense_Mutation_p.R1230W|NRXN2_uc001oao.2_5'UTR|NRXN2_uc001oaq.2_Missense_Mutation_p.R967W	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	254	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CCCTGATCCCGGCCCCCGATC	0.522													5	17					0	0	1	0	0		A	64390500	A	A	64390500	3	1	103	1	0	0	0	0	1	0	0	0	10685	1115	39	1	1252	1	NRXN2	11	64390500	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	15214	64390500	70616016	1139	63088											
MEN1	4221	broad.mit.edu	37	chr11	64573118	64573118	+	Frame_Shift_Del	DEL	C	-	-																															gcctttcacctggctttgctCccccggccgctcctcgcccg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:64573118delC	uc001obj.2	-	8	1262	c.1189delG	c.(1189-1191)GAGfs	p.E397fs	MAP4K2_uc001obh.2_5'Flank|MAP4K2_uc001obi.2_5'Flank|MAP4K2_uc010rnp.1_5'Flank|MEN1_uc001obk.2_Frame_Shift_Del_p.E397fs|MEN1_uc001obl.2_Frame_Shift_Del_p.E357fs|MEN1_uc001obm.2_Frame_Shift_Del_p.E392fs|MEN1_uc001obn.2_Frame_Shift_Del_p.E397fs|MEN1_uc001obo.2_Frame_Shift_Del_p.E397fs|MEN1_uc001obp.2_Frame_Shift_Del_p.E392fs|MEN1_uc001obq.2_Frame_Shift_Del_p.E397fs|MEN1_uc001obr.2_Frame_Shift_Del_p.E397fs	NM_130800	NP_570712	O00255	MEN1_HUMAN	menin isoform 1	397					DNA repair|histone lysine methylation|MAPKKK cascade|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of JNK cascade|negative regulation of osteoblast differentiation|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of telomerase activity|negative regulation of transcription from RNA polymerase II promoter|osteoblast development|positive regulation of protein binding|positive regulation of transforming growth factor beta receptor signaling pathway|response to gamma radiation|response to UV|transcription, DNA-dependent	chromatin|cleavage furrow|cytosol|histone methyltransferase complex|nuclear matrix|soluble fraction	double-stranded DNA binding|four-way junction DNA binding|protein binding, bridging|protein N-terminus binding|R-SMAD binding|transcription regulatory region DNA binding|Y-form DNA binding			parathyroid(105)|pancreas(64)|gastrointestinal_tract_(site_indeterminate)(15)|small_intestine(13)|lung(9)|pituitary(7)|NS(7)|adrenal_gland(5)|soft_tissue(4)|central_nervous_system(4)|thymus(2)|stomach(1)|retroperitoneum(1)|skin(1)	238						TGGCTTTGCTCCCCCGGCCGC	0.612			D|Mis|N|F|S		parathyroid tumors|Pancreatic neuroendocrine tumors	parathyroid adenoma|pituitary adenoma|pancreatic islet cell|carcinoid			Hyperparathyroidism_Familial_Isolated|Multiple_Endocrine_Neoplasia_type_1				15	32	---	---	---	---						.	-	64573118	-	-	64573118	7	5	103	1	0	1	0	1	0	0	0	0	9490	864	30	0	670	0	MEN1	11	64573118	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	182618	64573118	70433398	1140	63089											
CDC42BPG	55561	broad.mit.edu	37	chr11	64597667	64597667	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccagctttgataggtaccGttgctgcgcagatggatgac	8	10	13	10	2	0	3	0	2	0	1	0	4	0	4	2	2	4	5	2	2	2	4	rs142016620		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:64597667G>A	uc001obs.3	-	29	3366	c.3366C>T	c.(3364-3366)AAC>AAT	p.N1122N		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	1122	CNH.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						GATAGGTACCGTTGCTGCGCA	0.493													10	20					0	0	1	0	0		A	64597667	A	A	64597667	2	1	103	1	0	0	0	0	0	0	0	1	3077	1159	40	1		1	CDC42BPG	11	64597667	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	24549	64597667	70408849	1141	63090											
SAC3D1	29901	broad.mit.edu	37	chr11	64812092	64812092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagggctaccgcctgccagtAcgtgcaaggtgttagtggag	9	8	15	9	2	0	0	0	0	0	0	0	1	0	1	3	3	4	4	3	3	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:64812092A>G	uc001ocm.2	+	2	1359	c.970A>G	c.(970-972)ACG>GCG	p.T324A	SAC3D1_uc010rnv.1_Missense_Mutation_p.T311A	NM_013299	NP_037431			SAC3 domain containing 1												0						GCCTGCCAGTACGTGCAAGGT	0.627													4	64					0	0	1	0	0		G	64812092	G	G	64812092	3	3	103	1	0	0	0	0	1	0	0	0	13827	391	14	3	976	3	SAC3D1	11	64812092	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	214425	64812092	70194424	1142	63091											
SYVN1	84447	broad.mit.edu	37	chr11	64897648	64897648	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgggccgagaaagggctgCtgaagagcaggaacgaagtc	13	4	16	8	2	0	3	0	1	0	2	1	6	0	4	1	3	3	3	1	3	4	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:64897648C>T	uc001odb.2	-	13	1329	c.1235_splice	c.e13-1	p.A412_splice	SYVN1_uc001odc.2_Intron|SYVN1_uc009yqc.2_Intron	NM_172230	NP_757385	Q86TM6	SYVN1_HUMAN	synoviolin 1 isoform b						ER-associated protein catabolic process|response to stress	endoplasmic reticulum membrane|integral to membrane|nucleus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(1)	1						GAAAGGGCTGCTGAAGAGCAG	0.612													11	17					0	0	1	0	0		T	64897648	T	T	64897648	5	4	103	1	0	0	0	0	0	0	1	0	15512	811	28	2	635	2	SYVN1	11	64897648	Splice_Site	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	85556	64897648	70108868	1143	63092											
EHBP1L1	254102	broad.mit.edu	37	chr11	65350743	65350743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccgagtactgatgacccGtaagacagaaattatagttc	13	9	10	9	2	0	4	0	2	0	2	1	5	0	4	2	1	1	3	2	1	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:65350743G>A	uc001oeo.3	+	9	2865	c.2600G>A	c.(2599-2601)CGT>CAT	p.R867H	EHBP1L1_uc001oep.1_Intron	NM_001099409	NP_001092879	Q8N3D4	EH1L1_HUMAN	tangerin	867	Glu-rich.									central_nervous_system(1)	1						CTGATGACCCGTAAGACAGAA	0.557													18	28					0	0	1	0	0		A	65350743	A	A	65350743	3	1	103	1	0	0	0	0	1	0	0	0	4982	1145	40	1	2634	1	EHBP1L1	11	65350743	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	453095	65350743	69655773	1144	63093											
SIPA1	6494	broad.mit.edu	37	chr11	65417119	65417119	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccatcagtacccagtgcTgacagtgagacacccctgac	12	6	9	14	0	1	3	1	3	0	1	1	4	1	3	4	0	3	2	4	0	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:65417119T>C	uc001ofb.2	+	11	2780	c.2613T>C	c.(2611-2613)GCT>GCC	p.A871A	SIPA1_uc010rom.1_Silent_p.A769A|SIPA1_uc001ofd.2_Silent_p.A871A	NM_006747	NP_006738	Q96FS4	SIPA1_HUMAN	signal-induced proliferation-associated protein	871					cell proliferation|cytoskeleton organization|intracellular signal transduction|negative regulation of cell adhesion|negative regulation of cell cycle|negative regulation of cell growth	cytosol|endomembrane system|membrane|perinuclear region of cytoplasm	Rap GTPase activator activity				0						TACCCAGTGCTGACAGTGAGA	0.607													35	63					0	0	1	0	0		C	65417119	C	C	65417119	2	2	103	1	0	0	0	0	0	0	0	1	14353	1567	55	3		3	SIPA1	11	65417119	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	66376	65417119	69589397	1145	63094											
CST6	1474	broad.mit.edu	37	chr11	65779667	65779667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacccgcaggtgcagaaggCggcgcaggcggccgtggcca	7	2	18	14	6	0	1	0	0	0	1	0	2	0	1	3	6	1	3	3	6	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:65779667C>T	uc001ogr.2	+	1	206	c.152C>T	c.(151-153)GCG>GTG	p.A51V	CST6_uc001ogq.1_RNA|CST6_uc001ogs.1_5'Flank	NM_001323	NP_001314	Q15828	CYTM_HUMAN	cystatin M precursor	51					anatomical structure morphogenesis	extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1						GTGCAGAAGGCGGCGCAGGCG	0.701													3	6					0	0	1	0	0		T	65779667	T	T	65779667	3	4	103	1	0	0	0	0	1	0	0	0	3979	768	27	1	154	1	CST6	11	65779667	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	362548	65779667	69226849	1146	63095											
CD248	57124	broad.mit.edu	37	chr11	66084119	66084119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggccacacagcgctgggccGggcaggggcctccagaggct	6	3	18	14	2	0	1	0	0	0	1	1	1	1	1	4	6	1	3	4	6	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:66084119G>A	uc001ohm.1	-	1	397	c.380C>T	c.(379-381)CCG>CTG	p.P127L		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	127	C-type lectin.|Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	GCGCTGGGCCGGGCAGGGGCC	0.697													14	31					0	0	1	0	0		A	66084119	A	A	66084119	3	1	103	1	0	0	0	0	1	0	0	0	2992	1116	39	1	1897	1	CD248	11	66084119	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	304452	66084119	68922397	1147	63096											
SPTBN2	6712	broad.mit.edu	37	chr11	66458926	66458926	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcagctcgtacgccgcGgccagcacctgaccccgtgt	5	6	12	18	6	0	1	0	1	0	0	1	1	0	1	5	1	4	5	5	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:66458926G>A	uc001ojd.2	-	26	5466	c.5394C>T	c.(5392-5394)GCC>GCT	p.A1798A		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1798	Spectrin 14.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CGTACGCCGCGGCCAGCACCT	0.701													16	10					0	0	1	0	0		A	66458926	A	A	66458926	2	1	103	1	0	0	0	0	0	0	0	1	15145	1103	39	1		1	SPTBN2	11	66458926	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	374807	66458926	68547590	1148	63097											
PC	5091	broad.mit.edu	37	chr11	66639172	66639172	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaccttggccaccttgaTgatgtctgggatgtgcaggt	6	12	13	10	0	2	2	1	2	1	0	2	3	2	3	3	3	1	2	3	3	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:66639172T>C	uc001ojn.1	-	3	356	c.307A>G	c.(307-309)ATC>GTC	p.I103V	PC_uc001ojo.1_Missense_Mutation_p.I103V|PC_uc001ojp.1_Missense_Mutation_p.I103V	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	103	Biotin carboxylation.				gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	GCCACCTTGATGATGTCTGGG	0.652													4	4					0	0	1	0	0		C	66639172	C	C	66639172	3	2	103	1	0	0	0	0	1	0	0	0	11516	1464	51	3	3305	3	PC	11	66639172	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	180246	66639172	68367344	1149	63098											
RHOD	29984	broad.mit.edu	37	chr11	66838982	66838982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctccatgacaacgtccacgCcgtcttccaggaggccgccg	7	6	11	17	5	1	1	0	1	1	0	4	2	4	2	6	2	1	1	6	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:66838982C>T	uc001ojv.2	+	5	627	c.542C>T	c.(541-543)GCC>GTC	p.A181V		NM_014578	NP_055393	O00212	RHOD_HUMAN	ras homolog D precursor	181					regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0						AACGTCCACGCCGTCTTCCAG	0.687													4	18					0	0	1	0	0		T	66838982	T	T	66838982	3	4	103	1	0	0	0	0	1	0	0	0	13362	739	26	2	560	2	RHOD	11	66838982	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	199810	66838982	68167534	1150	63099											
CABP4	57010	broad.mit.edu	37	chr11	67225916	67225916	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggctctgctcggggagccGctggcgggtcctgagctgga	3	7	18	13	4	1	1	0	1	1	0	3	3	2	3	3	6	3	4	3	6	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:67225916G>A	uc001olo.2	+	5	803	c.726G>A	c.(724-726)CCG>CCA	p.P242P	CABP4_uc001oln.2_Silent_p.P137P	NM_145200	NP_660201	P57796	CABP4_HUMAN	calcium binding protein 4	242					visual perception	cytoplasm|extracellular region|terminal button	calcium ion binding				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			TCGGGGAGCCGCTGGCGGGTC	0.632													43	58					0	0	1	0	0		A	67225916	A	A	67225916	2	1	103	1	0	0	0	0	0	0	0	1	2536	1074	38	1		1	CABP4	11	67225916	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	386934	67225916	67780600	1151	63100											
TBX10	347853	broad.mit.edu	37	chr11	67400555	67400555	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaacggggctggtagcggTgcatagagttgagaatgatc	11	8	17	5	2	0	3	0	2	0	2	1	5	0	4	0	5	3	4	0	5	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:67400555T>C	uc001omp.2	-	5	657	c.569A>G	c.(568-570)CAC>CGC	p.H190R		NM_005995	NP_005986	O75333	TBX10_HUMAN	T-box 10	190	T-box.				anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						CTGGTAGCGGTGCATAGAGTT	0.582													72	125					0	0	1	0	0		C	67400555	C	C	67400555	3	2	103	1	0	0	0	0	1	0	0	0	15676	1696	59	3	604	3	TBX10	11	67400555	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	174639	67400555	67605961	1152	63101											
TBX10	347853	broad.mit.edu	37	chr11	67402373	67402373	+	Frame_Shift_Del	DEL	G	-	-																															cccaggatcttcacctggaaGggggggaacatcctcctgcg																								rs144542807		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:67402373delG	uc001omp.2	-	3	379	c.291delC	c.(289-291)CCCfs	p.P97fs		NM_005995	NP_005986	O75333	TBX10_HUMAN	T-box 10	97	T-box.				anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						TCACCTGGAAGGGGGGGAACA	0.677													21	37	---	---	---	---						.	-	67402373	-	-	67402373	7	5	103	1	0	1	0	1	0	0	0	0	15676	987	35	0	890	0	TBX10	11	67402373	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	1818	67402373	67604143	1153	63102											
SUV420H1	51111	broad.mit.edu	37	chr11	67934466	67934466	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttgcattgtttttttccTgagtggtatctgcatcagtg	6	19	9	7	0	2	1	1	1	1	0	3	1	3	1	1	1	3	4	1	1	2	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:67934466T>C	uc001onm.1	-	10	1413	c.1157A>G	c.(1156-1158)CAG>CGG	p.Q386R	SUV420H1_uc009yse.1_5'UTR|SUV420H1_uc001onn.1_Missense_Mutation_p.Q214R|SUV420H1_uc009ysf.2_Missense_Mutation_p.Q146R|SUV420H1_uc001ono.1_Missense_Mutation_p.Q386R|SUV420H1_uc001onp.2_Missense_Mutation_p.Q386R|SUV420H1_uc010rqa.1_Missense_Mutation_p.Q363R|SUV420H1_uc001onq.2_Missense_Mutation_p.Q386R	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	386					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						GTTTTTTTCCTGAGTGGTATC	0.328													25	29					0	0	1	0	0		C	67934466	C	C	67934466	3	2	103	1	0	0	0	0	1	0	0	0	15439	1580	55	3	1516	3	SUV420H1	11	67934466	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	532093	67934466	67072050	1154	63103											
LRP5	4041	broad.mit.edu	37	chr11	68153968	68153968	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcgggccatccgcagggcGtacctggacgggtctggggc	4	6	19	12	4	1	0	0	0	1	0	2	1	2	1	3	6	2	2	3	6	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:68153968G>A	uc001ont.2	+	6	1275	c.1200G>A	c.(1198-1200)GCG>GCA	p.A400A	LRP5_uc009ysg.2_5'UTR	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	400	LDL-receptor class B 6.|Beta-propeller 2.|Extracellular (Potential).		A -> E (in OPPG).		adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						TCCGCAGGGCGTACCTGGACG	0.642													21	41					0	0	1	0	0		A	68153968	A	A	68153968	2	1	103	1	0	0	0	0	0	0	0	1	8978	1132	40	1		1	LRP5	11	68153968	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	219502	68153968	66852548	1155	63104											
LRP5	4041	broad.mit.edu	37	chr11	68204455	68204455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgtatcgacggctccgacGagctcatgtgtggtgagcca	8	9	13	11	4	1	1	1	1	0	0	3	4	2	1	2	2	2	3	2	2	1	1	rs28939709		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:68204455G>A	uc001ont.2	+	19	4174	c.4099G>A	c.(4099-4101)GAG>AAG	p.E1367K	LRP5_uc009ysg.2_Missense_Mutation_p.E777K	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1367	LDL-receptor class A 3.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CGGCTCCGACGAGCTCATGTG	0.632													25	43					0	0	1	0	0		A	68204455	A	A	68204455	3	1	103	1	0	0	0	0	1	0	0	0	8978	1059	37	1	4173	1	LRP5	11	68204455	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	50487	68204455	66802061	1156	63105											
MTL5	9633	broad.mit.edu	37	chr11	68506209	68506209	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctggaagagttgatccCgaggggaaagcagacccgtt	10	7	15	9	2	0	3	0	1	0	2	2	6	2	5	3	4	1	3	3	4	2	2	rs138790602	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:68506209C>T	uc001ooc.2	-	6	1016	c.876G>A	c.(874-876)TCG>TCA	p.S292S	MTL5_uc001ood.1_Silent_p.S292S|MTL5_uc009ysi.1_3'UTR	NM_004923	NP_004914	Q9Y4I5	MTL5_HUMAN	metallothionein-like 5, testis-specific isoform	292					cell differentiation|cellular metal ion homeostasis|multicellular organismal development|response to metal ion|spermatogenesis	cytoplasm|nucleus|soluble fraction	metal ion binding			ovary(2)|breast(1)	3	Esophageal squamous(3;4.37e-12)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.185)			GAGTTGATCCCGAGGGGAAAG	0.403													22	42					0	0	1	0	0		T	68506209	T	T	68506209	2	4	103	1	0	0	0	0	0	0	0	1	9954	639	23	1		1	MTL5	11	68506209	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	301754	68506209	66500307	1157	63106											
PPFIA1	8500	broad.mit.edu	37	chr11	70200480	70200480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctccccgccttcctcccCgagagcccttcggttagacc	6	8	7	20	3	0	2	0	0	0	2	4	3	3	2	9	1	2	1	9	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:70200480C>T	uc001opo.2	+	17	2435	c.2237C>T	c.(2236-2238)CCG>CTG	p.P746L	PPFIA1_uc001opn.1_Missense_Mutation_p.P746L|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	746					cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			CCTTCCTCCCCGAGAGCCCTT	0.567													9	26					0	0	1	0	0		T	70200480	T	T	70200480	3	4	103	1	0	0	0	0	1	0	0	0	12328	652	23	1	2299	1	PPFIA1	11	70200480	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1694271	70200480	64806036	1158	63107											
KRTAP5-10	387273	broad.mit.edu	37	chr11	71277026	71277026	+	Frame_Shift_Del	DEL	G	-	-																															ggttcctgtgggggctccaaGgggggctgtggttcttgtgg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:71277026delG	uc001oqt.1	+	1	418	c.393delG	c.(391-393)AAGfs	p.K131fs		NM_001012710	NP_001012728	Q6L8G5	KR510_HUMAN	keratin associated protein 5-10	131	7 X 4 AA repeats of C-C-X-P.					keratin filament				skin(1)	1						GGGGCTCCAAGGGGGGCTGTG	0.483													94	169	---	---	---	---						.	-	71277026	-	-	71277026	7	5	103	1	0	1	0	1	0	0	0	0	8575	991	35	0	395	0	KRTAP5-10	11	71277026	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	1076546	71277026	63729490	1159	63108											
ARAP1	116985	broad.mit.edu	37	chr11	72423533	72423533	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctcatccccttggtcGtccccagacagttcctctcc	4	13	5	19	1	3	1	1	0	2	1	9	1	7	1	7	1	0	1	7	1	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:72423533G>A	uc001osu.2	-	6	1017	c.828C>T	c.(826-828)GAC>GAT	p.D276D	ARAP1_uc001osv.2_Silent_p.D276D|ARAP1_uc001osr.2_Silent_p.D36D|ARAP1_uc001oss.2_Silent_p.D31D|ARAP1_uc009yth.2_Silent_p.D31D|ARAP1_uc010rre.1_Silent_p.D31D	NM_001040118	NP_001035207	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	276					actin filament reorganization involved in cell cycle|negative regulation of stress fiber assembly|positive regulation of Cdc42 GTPase activity|positive regulation of filopodium assembly|regulation of ARF GTPase activity|regulation of cell shape|regulation of cellular component movement|small GTPase mediated signal transduction	cytosol|Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|Rho GTPase activator activity|zinc ion binding			skin(1)	1						CCCCTTGGTCGTCCCCAGACA	0.682													74	99					0	0	1	0	0		A	72423533	A	A	72423533	2	1	103	1	0	0	0	0	0	0	0	1	838	1136	40	1		1	ARAP1	11	72423533	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1146507	72423533	62582983	1160	63109											
P2RY2	5029	broad.mit.edu	37	chr11	72946018	72946018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccctctactactccttcCgctcgctggacctcagctgc	5	10	7	19	2	2	0	1	0	1	0	5	1	4	1	4	1	4	4	4	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:72946018C>T	uc001otj.2	+	3	1147	c.814C>T	c.(814-816)CGC>TGC	p.R272C	P2RY2_uc001otk.2_Missense_Mutation_p.R272C|P2RY2_uc001otl.2_Missense_Mutation_p.R272C	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	272	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(1)|skin(1)	4					Suramin(DB04786)	CTACTCCTTCCGCTCGCTGGA	0.632													17	38					0	0	1	0	0		T	72946018	T	T	72946018	3	4	103	1	0	0	0	0	1	0	0	0	11371	652	23	1	816	1	P2RY2	11	72946018	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	522485	72946018	62060498	1161	63110											
PPME1	51400	broad.mit.edu	37	chr11	73950295	73950295	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggaaaaaggaagatgaCatggaggtgggtaaaaacat	20	5	14	2	0	0	3	0	1	0	2	0	6	0	6	0	5	1	1	0	5	7	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:73950295C>T	uc001ouw.2	+	9	927	c.828C>T	c.(826-828)GAC>GAT	p.D276D	PPME1_uc009yty.2_Silent_p.D146D|PPME1_uc001oux.2_Silent_p.D89D	NM_016147	NP_057231	Q9Y570	PPME1_HUMAN	protein phosphatase methylesterase 1	276					protein demethylation		carboxylesterase activity|protein C-terminal methylesterase activity|protein phosphatase 2A binding|protein phosphatase inhibitor activity|protein phosphatase type 2A regulator activity				0	Breast(11;3.29e-05)					AGGAAGATGACATGGAGGTGG	0.403													6	18					0	0	1	0	0		T	73950295	T	T	73950295	2	4	103	1	0	0	0	0	0	0	0	1	12369	477	17	4		4	PPME1	11	73950295	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1004277	73950295	61056221	1162	63111											
XRRA1	143570	broad.mit.edu	37	chr11	74638466	74638466	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaaagtctccatatttcacGtagatagttttgatgccatt	11	17	6	7	1	2	2	1	1	1	1	3	2	2	2	2	0	1	2	2	0	5	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:74638466G>A	uc009yub.2	-	7	800	c.468C>T	c.(466-468)TAC>TAT	p.Y156Y	XRRA1_uc001ovm.2_Intron|XRRA1_uc001ovo.2_Intron|XRRA1_uc001ovq.3_Silent_p.Y156Y|XRRA1_uc001ovp.3_Translation_Start_Site|XRRA1_uc001ovr.2_Translation_Start_Site	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	156					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						CATATTTCACGTAGATAGTTT	0.433													13	26					0	0	1	0	0		A	74638466	A	A	74638466	2	1	103	1	0	0	0	0	0	0	0	1	17487	1140	40	1		1	XRRA1	11	74638466	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	688171	74638466	60368050	1163	63112											
ARRB1	408	broad.mit.edu	37	chr11	74994515	74994515	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagcggaaggcgcaggtcAgcgtcacatagactgtgggg	10	6	16	9	3	2	1	2	0	0	1	2	2	2	2	0	5	2	1	0	5	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:74994515A>G	uc001owe.1	-	5	392	c.170T>C	c.(169-171)CTG>CCG	p.L57P	ARRB1_uc001owf.1_Missense_Mutation_p.L57P	NM_004041	NP_004032	P49407	ARRB1_HUMAN	arrestin beta 1 isoform A	57	Interaction with CHRM2 (By similarity).|Interaction with SRC (By similarity).				G-protein coupled receptor internalization|histone H4 acetylation|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|platelet activation|positive regulation of ERK1 and ERK2 cascade|positive regulation of histone acetylation|positive regulation of Rho protein signal transduction|positive regulation of transcription from RNA polymerase II promoter|post-Golgi vesicle-mediated transport|proteasomal ubiquitin-dependent protein catabolic process|protein transport|protein ubiquitination|signal transduction|stress fiber assembly|transcription from RNA polymerase II promoter	chromatin|coated pit|cytoplasmic vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|membrane fraction|nucleus|plasma membrane|pseudopodium|soluble fraction	angiotensin receptor binding|enzyme inhibitor activity|GTPase activator activity|insulin-like growth factor receptor binding|transcription factor binding|transcription regulatory region DNA binding|ubiquitin protein ligase binding			breast(2)	2						GGCGCAGGTCAGCGTCACATA	0.672													10	23					0	0	1	0	0		G	74994515	G	G	74994515	3	3	103	1	0	0	0	0	1	0	0	0	981	188	7	3	1134	3	ARRB1	11	74994515	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	356049	74994515	60012001	1164	63113											
MAP6	4135	broad.mit.edu	37	chr11	75298331	75298331	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttcagggactatacgacCttgattctttggaggctgta	9	13	12	7	1	2	1	1	1	1	0	2	4	2	3	1	4	1	3	1	4	3	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:75298331C>A	uc001owu.2	-	4	2280	c.2215G>T	c.(2215-2217)GGT>TGT	p.G739C		NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	739	Pro-rich.					Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					ACTATACGACCTTGATTCTTT	0.512													14	153					9.16793e-09	9.48677e-09	1	1	0		A	75298331	A	A	75298331	3	1	103	1	0	0	0	0	1	0	0	0	9282	681	24	5	230	5	MAP6	11	75298331	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	303816	75298331	59708185	1165	63114											
UVRAG	7405	broad.mit.edu	37	chr11	75694431	75694433	+	In_Frame_Del	DEL	AAA	-	-																															ctgtgattttatttatttagAaaaaaaaaagtgaatgcctg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:75694431_75694433delAAA	uc001oxc.2	+	8	941_943	c.700_702delAAA	c.(700-702)AAAdel	p.K236del	UVRAG_uc010rrw.1_In_Frame_Del_p.K135del|UVRAG_uc001oxd.2_5'UTR|UVRAG_uc010rrx.1_5'UTR|UVRAG_uc009yuh.1_RNA	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	236	Potential.				DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						ATTTATTTAGAAAAAAAAAAGTG	0.31													15	26	---	---	---	---						.	-	75694433	-	-	75694431	7	5	103	1	0	1	0	1	0	0	0	0	17134	260	9	0	730	0	UVRAG	11	75694431	In_Frame_Del	DEL	AAA	TCGA-BR-A4QL-01A-31D-A25D-08	396100	75694431	59312085	1166	63115											
OMP	4975	broad.mit.edu	37	chr11	76814175	76814175	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaccaacctcatgacacGccagctgctggaccccactg	9	6	7	19	1	2	1	2	1	0	0	2	2	2	2	6	1	3	2	6	1	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:76814175G>A	uc010rsk.1	+	1	290	c.290G>A	c.(289-291)CGC>CAC	p.R97H	CAPN5_uc001oxx.2_Intron|CAPN5_uc009yup.2_Intron|CAPN5_uc009yuq.2_Intron|CAPN5_uc001oxy.2_Intron	NM_006189	NP_006180	P47874	OMP_HUMAN	olfactory marker protein	97					sensory perception of smell|synaptic transmission						0						CTCATGACACGCCAGCTGCTG	0.617													10	16					0	0	1	0	0		A	76814175	A	A	76814175	3	1	103	1	0	0	0	0	1	0	0	0	10886	1087	38	1	292	1	OMP	11	76814175	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1119744	76814175	58192341	1167	63116											
ME3	10873	broad.mit.edu	37	chr11	86209065	86209065	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgcgggttcacccctccGcatgccgtgtacagggccag	5	8	13	15	3	1	0	1	0	0	0	2	0	2	0	5	2	4	4	5	2	1	2	rs149425348	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:86209065G>A	uc001pbz.2	-	5	899	c.645C>T	c.(643-645)TGC>TGT	p.C215C	ME3_uc001pca.2_Silent_p.C215C|ME3_uc009yvk.2_Silent_p.C215C|ME3_uc010rtr.1_RNA	NM_001014811	NP_001014811	Q16798	MAON_HUMAN	mitochondrial malic enzyme 3 precursor	215					aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)	TCACCCCTCCGCATGCCGTGT	0.662													43	67					0	0	1	0	0		A	86209065	A	A	86209065	2	1	103	1	0	0	0	0	0	0	0	1	9437	1079	38	1		1	ME3	11	86209065	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	9394890	86209065	48797451	1168	63117											
CTSC	1075	broad.mit.edu	37	chr11	88068128	88068128	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaaaggcaaaccacttgtAgtcattcaacacaatctcaa	19	8	4	10	0	3	0	3	0	1	0	4	0	3	0	1	1	2	2	1	1	8	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:88068128A>G	uc001pck.3	-	2	396	c.295T>C	c.(295-297)TAC>CAC	p.Y99H	CTSC_uc001pcl.3_5'UTR|CTSC_uc001pcm.3_Missense_Mutation_p.Y99H|CTSC_uc001pcn.3_Missense_Mutation_p.Y99H	NM_001814	NP_001805	P53634	CATC_HUMAN	cathepsin C isoform a preproprotein	99					immune response	lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				AACCACTTGTAGTCATTCAAC	0.383													17	39					0	0	1	0	0		G	88068128	G	G	88068128	3	3	103	1	0	0	0	0	1	0	0	0	4034	420	15	3	1251	3	CTSC	11	88068128	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1859063	88068128	46938388	1169	63118											
UBTFL1	642623	broad.mit.edu	37	chr11	89819560	89819560	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagagcagatgaaacagaAatatattcaggatttccgga	16	8	9	8	1	1	4	1	1	0	3	2	6	2	6	2	2	2	1	2	2	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:89819560A>C	uc010rub.1	+	1	443	c.443A>C	c.(442-444)AAA>ACA	p.K148T		NM_001143975	NP_001137447	P0CB47	UBFL1_HUMAN	upstream binding transcription factor, RNA	148	HMG box 1.				multicellular organismal development	cytoplasm|nucleus	DNA binding				0						ATGAAACAGAAATATATTCAG	0.443													10	8					0	0	1	0	0		C	89819560	C	C	89819560	3	2	103	1	0	0	0	0	1	0	0	0	16936	14	1	5	445	5	UBTFL1	11	89819560	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1751432	89819560	45186956	1170	63119											
FAT3	120114	broad.mit.edu	37	chr11	92507279	92507279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcgcaaaacctttggatgCagagcagaggtccatctata	13	9	9	10	1	1	2	0	0	1	2	3	3	2	3	2	2	3	3	2	2	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:92507279C>T	uc001pdj.3	+	6	4285	c.4268C>T	c.(4267-4269)GCA>GTA	p.A1423V		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1423	Cadherin 13.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CCTTTGGATGCAGAGCAGAGG	0.423										TCGA Ovarian(4;0.039)			17	40					0	0	1	0	0		T	92507279	T	T	92507279	3	4	103	1	0	0	0	0	1	0	0	0	5705	710	25	2	4290	2	FAT3	11	92507279	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2687719	92507279	42499237	1171	63120											
FAT3	120114	broad.mit.edu	37	chr11	92533807	92533807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatgactttgccaaggatcGattcctcatagacagcaatg	13	10	8	10	1	1	2	1	1	0	1	3	4	2	3	2	1	2	1	2	1	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:92533807G>A	uc001pdj.3	+	9	7645	c.7628G>A	c.(7627-7629)CGA>CAA	p.R2543Q		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2543	Cadherin 23.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GCCAAGGATCGATTCCTCATA	0.483										TCGA Ovarian(4;0.039)			5	10					0	0	1	0	0		A	92533807	A	A	92533807	3	1	103	1	0	0	0	0	1	0	0	0	5705	1058	37	1	7662	1	FAT3	11	92533807	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	26528	92533807	42472709	1172	63121											
FUT4	2526	broad.mit.edu	37	chr11	94278208	94278208	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcgagtcgccctcgcactcCccggggctgcgaagcctggc	4	7	13	17	5	0	0	0	0	0	0	4	2	1	0	4	3	2	2	4	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:94278208C>T	uc001pez.2	+	1	1192	c.909C>T	c.(907-909)TCC>TCT	p.S303S	PIWIL4_uc010rue.1_Intron|PIWIL4_uc009ywk.1_5'Flank	NM_002033	NP_002024	P22083	FUT4_HUMAN	fucosyltransferase 4	303	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane|membrane fraction	alpha(1,3)-fucosyltransferase activity			skin(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CCTCGCACTCCCCGGGGCTGC	0.662													9	23					0	0	1	0	0		T	94278208	T	T	94278208	2	4	103	1	0	0	0	0	0	0	0	1	6120	610	22	4		4	FUT4	11	94278208	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1744401	94278208	40728308	1173	63122											
PGR	5241	broad.mit.edu	37	chr11	100933308	100933308	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatagatcacatctggttcAatgctcattaacaggttgat	12	13	8	8	0	4	2	3	1	1	1	4	2	4	2	0	2	2	4	0	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:100933308A>G	uc001pgh.2	-	4	2825	c.2082T>C	c.(2080-2082)ATT>ATC	p.I694I	PGR_uc001pgg.2_Silent_p.I75I|PGR_uc001pgi.2_Intron|PGR_uc009yww.1_Intron|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	694	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	CATCTGGTTCAATGCTCATTA	0.438													93	142					0	0	1	0	0		G	100933308	G	G	100933308	2	3	103	1	0	0	0	0	0	0	0	1	11824	126	5	3		3	PGR	11	100933308	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	6655100	100933308	34073208	1174	63123											
PGR	5241	broad.mit.edu	37	chr11	100998809	100998809	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctggcagccccggccccGccgtcgtaactttcgtcttc	3	9	11	18	6	1	0	0	0	1	0	4	0	1	0	5	2	2	3	5	2	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:100998809G>A	uc001pgh.2	-	1	1736	c.993C>T	c.(991-993)GGC>GGT	p.G331G	PGR_uc001pgi.2_Silent_p.G331G|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	331	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	CCCCGGCCCCGCCGTCGTAAC	0.662													23	20					0	0	1	0	0		A	100998809	A	A	100998809	2	1	103	1	0	0	0	0	0	0	0	1	11824	1074	38	1		1	PGR	11	100998809	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	65501	100998809	34007707	1175	63124											
PGR	5241	broad.mit.edu	37	chr11	100999101	100999101	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtttgcccttcagaagcggaCccgcagactcctcggactca	8	8	10	15	3	2	2	2	0	0	2	4	4	3	4	3	2	2	2	3	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:100999101C>A	uc001pgh.2	-	1	1444	c.701G>T	c.(700-702)GGT>GTT	p.G234V	PGR_uc001pgi.2_Missense_Mutation_p.G234V|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	234	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	CAGAAGCGGACCCGCAGACTC	0.726													4	17					0.00909568	0.00915813	1	1	0		A	100999101	A	A	100999101	3	1	103	1	0	0	0	0	1	0	0	0	11824	507	18	5	2132	5	PGR	11	100999101	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	292	100999101	34007415	1176	63125											
MMP10	4319	broad.mit.edu	37	chr11	102647146	102647146	+	Frame_Shift_Del	DEL	G	-	-																															ggggttcctcagtagaggcaGggggaggtcctaaaggaaac																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:102647146delG	uc001phg.1	-	6	819	c.797delC	c.(796-798)CCTfs	p.P266fs		NM_002425	NP_002416	P09238	MMP10_HUMAN	matrix metalloproteinase 10 preproprotein	266					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			kidney(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_epithelial(12;0.00961)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0303)|Lung(13;0.0828)|all cancers(10;0.116)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0145)		AGTAGAGGCAGGGGGAGGTCC	0.463													33	38	---	---	---	---						.	-	102647146	-	-	102647146	7	5	103	1	0	1	0	1	0	0	0	0	9667	1000	35	0	653	0	MMP10	11	102647146	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	1648045	102647146	32359370	1177	63126											
C11orf87	399947	broad.mit.edu	37	chr11	109294696	109294696	+	Frame_Shift_Del	DEL	G	-	-																															gcagcggcagccgcggtggcGgggggctgccccgacctggc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:109294696delG	uc001pkn.2	+	2	711	c.337delG	c.(337-339)GGGfs	p.G113fs	C11orf87_uc010rwb.1_5'Flank	NM_207645	NP_997528	Q6NUJ2	CK087_HUMAN	hypothetical protein LOC399947 precursor	113	Cytoplasmic (Potential).					integral to membrane				ovary(2)	2						CCGCGGTGGCGGGGGGCTGCC	0.657													39	66	---	---	---	---						.	-	109294696	-	-	109294696	7	5	103	1	0	1	0	1	0	0	0	0	1672	1116	39	0	339	0	C11orf87	11	109294696	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	6647550	109294696	25711820	1178	63127											
RDX	5962	broad.mit.edu	37	chr11	110128524	110128524	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcataaatattcagacccaaAgcatcaacacctagccacaa	18	7	3	13	0	3	1	3	0	0	1	3	1	3	1	3	0	3	1	3	0	7	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:110128524A>C	uc001pku.2	-	7	976	c.666T>G	c.(664-666)GCT>GCG	p.A222A	RDX_uc009yxx.1_RNA|RDX_uc009yxy.2_Silent_p.A222A|RDX_uc009yxz.2_Intron|RDX_uc009yya.2_Intron|RDX_uc010rwe.1_Silent_p.A86A	NM_002906	NP_002897	P35241	RADI_HUMAN	radixin	222	FERM.				actin filament capping	cleavage furrow|cytoskeleton|extrinsic to membrane|Golgi apparatus|nucleolus|plasma membrane	actin binding				0		all_cancers(61;7.18e-13)|all_epithelial(67;2.61e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.13e-06)|BRCA - Breast invasive adenocarcinoma(274;9.75e-06)|all cancers(92;5.9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0248)		TCAGACCCAAAGCATCAACAC	0.338													52	94					0	0	1	0	0		C	110128524	C	C	110128524	2	2	103	1	0	0	0	0	0	0	0	1	13223	59	3	5		5	RDX	11	110128524	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	833828	110128524	24877992	1179	63128											
C11orf57	55216	broad.mit.edu	37	chr11	111953459	111953460	+	Frame_Shift_Ins	INS	-	A	A																															aatccaggaaaaagtctctcINSaaaaaacctgctttattctt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:111953459_111953460insA	uc001pmr.3	+	6	1323_1324	c.642_643insA	c.(640-645)CTCAAAfs	p.L214fs	C11orf57_uc001pmw.3_Frame_Shift_Ins_p.L215fs|C11orf57_uc001pmt.3_Frame_Shift_Ins_p.L215fs|C11orf57_uc001pmv.3_Frame_Shift_Ins_p.L214fs|C11orf57_uc001pms.3_Frame_Shift_Ins_p.L186fs	NM_001082970	NP_001076439	Q6ZUT1	CK057_HUMAN	hypothetical protein LOC55216 isoform b	214_215	Lys-rich.									breast(2)|ovary(1)	3		all_cancers(61;9.8e-15)|all_epithelial(67;6.57e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.6e-07)|BRCA - Breast invasive adenocarcinoma(274;6.17e-07)|all cancers(92;7.01e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0521)		AAAAGTCTCTCAAAAAACCTGC	0.411													30	54	---	---	---	---						.	A	111953460	A	A	111953459	7	5	103	1	0	1	1	0	0	0	0	0	1653	813	29	0	663	0	C11orf57	11	111953459	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	1824935	111953459	23053057	1180	63129											
HTR3B	9177	broad.mit.edu	37	chr11	113803746	113803749	+	Frame_Shift_Del	DEL	TCTA	-	-																															aatgacagtgagtgggaactTctatctgtgtcctccacata																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:113803746_113803749delTCTA	uc001pok.2	+	6	694_697	c.627_630delTCTA	c.(625-630)CTTCTAfs	p.L209fs	HTR3B_uc001pol.2_Frame_Shift_Del_p.L198fs	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	209_210	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		AGTGGGAACTTCTATCTGTGTCCT	0.485													19	36	---	---	---	---						.	-	113803749	-	-	113803746	7	5	103	1	0	1	0	1	0	0	0	0	7461	1770	62	0	649	0	HTR3B	11	113803746	Frame_Shift_Del	DEL	TCTA	TCGA-BR-A4QL-01A-31D-A25D-08	1850287	113803746	21202770	1181	63130											
ZBTB16	7704	broad.mit.edu	37	chr11	114118084	114118084	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgcactatagggtgcacAcaggtaccgaaggccaggga	13	4	14	10	2	0	1	0	0	0	1	0	3	0	2	2	4	2	3	2	4	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:114118084A>C	uc001pop.2	+	6	2053	c.1789A>C	c.(1789-1791)ACA>CCA	p.T597P	ZBTB16_uc001poq.2_Missense_Mutation_p.T597P	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	597					apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		TAGGGTGCACACAGGTACCGA	0.582													17	28					0	0	1	0	0		C	114118084	C	C	114118084	3	2	103	1	0	0	0	0	1	0	0	0	17551	159	6	5	1807	5	ZBTB16	11	114118084	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	314338	114118084	20888432	1182	63131											
FAM55A	120400	broad.mit.edu	37	chr11	114393092	114393092	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgagggatataatcatgatcTatcagagagtagagctggaa	15	9	12	5	1	3	3	2	1	1	2	3	7	3	5	0	2	1	2	0	2	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:114393092T>C	uc001ppa.2	-	6	1233	c.816A>G	c.(814-816)ATA>ATG	p.I272M	FAM55A_uc010rxd.1_Missense_Mutation_p.I121M	NM_152315	NP_689528	Q8N323	FA55A_HUMAN	hypothetical protein LOC120400	414						extracellular region					0		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;3.02e-06)|Epithelial(105;0.000144)|all cancers(92;0.00106)		AATCATGATCTATCAGAGAGT	0.423													33	71					0	0	1	0	0		C	114393092	C	C	114393092	3	2	103	1	0	0	0	0	1	0	0	0	5598	1512	53	3	405	3	FAM55A	11	114393092	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	275008	114393092	20613424	1183	63132											
APOA4	337	broad.mit.edu	37	chr11	116692194	116692194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcccttgagctcctccaCgttctggtcgatcttggcct	3	13	10	15	3	2	1	0	1	2	0	6	2	5	1	4	2	1	2	4	2	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:116692194C>T	uc001pps.1	-	3	684	c.580G>A	c.(580-582)GTG>ATG	p.V194M		NM_000482	NP_000473			apolipoprotein A-IV precursor												0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		AGCTCCTCCACGTTCTGGTCG	0.637													84	143					0	0	1	0	0		T	116692194	T	T	116692194	3	4	103	1	0	0	0	0	1	0	0	0	783	536	19	1	614	1	APOA4	11	116692194	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2299102	116692194	18314322	1184	63133											
APOA1	335	broad.mit.edu	37	chr11	116707074	116707074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagggccgagctgttcgCgcagcttgctgaaggtggag	7	8	16	10	3	1	1	1	1	0	0	2	3	1	2	1	3	3	5	1	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:116707074C>T	uc001ppu.1	-	4	333	c.254G>A	c.(253-255)CGC>CAC	p.R85H	APOA1_uc001ppv.1_Missense_Mutation_p.R85H	NM_000039	NP_000030	P02647	APOA1_HUMAN	apolipoprotein A-I preproprotein	85	10 X approximate tandem repeats.|1.				Cdc42 protein signal transduction|cholesterol efflux|cholesterol homeostasis|cholesterol import|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|negative regulation of cytokine secretion involved in immune response|negative regulation of interleukin-1 beta secretion|negative regulation of very-low-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|phospholipid efflux|platelet activation|platelet degranulation|positive regulation of cholesterol esterification|positive regulation of hydrolase activity|protein stabilization|reverse cholesterol transport	endocytic vesicle|endoplasmic reticulum lumen|plasma membrane|spherical high-density lipoprotein particle|stored secretory granule|very-low-density lipoprotein particle	apolipoprotein A-I receptor binding|beta-amyloid binding|cholesterol binding|cholesterol transporter activity|enzyme binding|high-density lipoprotein particle receptor binding|identical protein binding|phosphatidylcholine-sterol O-acyltransferase activator activity|phospholipid binding				0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.59e-05)|all cancers(92;0.000162)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		GAGCTGTTCGCGCAGCTTGCT	0.602													18	46					0	0	1	0	0		T	116707074	T	T	116707074	3	4	103	1	0	0	0	0	1	0	0	0	780	768	27	1	553	1	APOA1	11	116707074	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	14880	116707074	18299442	1185	63134											
SIK3	23387	broad.mit.edu	37	chr11	116719913	116719913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctcatggacggaggggcGtgctgggtacccgagcccat	6	7	17	11	3	1	0	1	0	0	0	1	3	1	2	2	5	4	3	2	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:116719913G>A	uc001ppy.2	-	21	3460	c.3424C>T	c.(3424-3426)CGC>TGC	p.R1142C	SIK3_uc001ppz.2_Missense_Mutation_p.R981C|SIK3_uc001pqa.2_Missense_Mutation_p.R1082C|SIK3_uc001ppw.2_Missense_Mutation_p.R499C|SIK3_uc001ppx.2_Missense_Mutation_p.R520C	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	1142						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						ACGGAGGGGCGTGCTGGGTAC	0.592													23	50					0	0	1	0	0		A	116719913	A	A	116719913	3	1	103	1	0	0	0	0	1	0	0	0	14344	1145	40	1	379	1	SIK3	11	116719913	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	12839	116719913	18286603	1186	63135											
SIK3	23387	broad.mit.edu	37	chr11	116745890	116745890	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaccgtgggtcagccacacCcactgtgtgcctcctcattg	6	10	9	16	1	3	0	3	0	0	0	4	0	4	0	5	1	2	0	5	1	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:116745890C>A	uc001ppy.2	-	11	1273	c.1237G>T	c.(1237-1239)GGT>TGT	p.G413C	SIK3_uc001ppz.2_Missense_Mutation_p.G312C|SIK3_uc001pqa.2_Missense_Mutation_p.G365C	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	413						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						TCAGCCACACCCACTGTGTGC	0.532													19	27					1.33834e-09	1.3926e-09	1	1	0		A	116745890	A	A	116745890	3	1	103	1	0	0	0	0	1	0	0	0	14344	623	22	5	2606	5	SIK3	11	116745890	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	25977	116745890	18260626	1187	63136											
SIK3	23387	broad.mit.edu	37	chr11	116746643	116746643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctaggaagtgctccgagaCgcagggttttatgtctctta	8	13	12	8	2	1	1	0	0	1	1	3	3	2	2	1	2	2	4	1	2	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:116746643C>T	uc001ppy.2	-	9	1040	c.1004G>A	c.(1003-1005)CGT>CAT	p.R335H	SIK3_uc001ppz.2_Missense_Mutation_p.R234H|SIK3_uc001pqa.2_Intron	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	335						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						TGCTCCGAGACGCAGGGTTTT	0.483													40	57					0	0	1	0	0		T	116746643	T	T	116746643	3	4	103	1	0	0	0	0	1	0	0	0	14344	536	19	1	2847	1	SIK3	11	116746643	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	753	116746643	18259873	1188	63137											
PCSK7	9159	broad.mit.edu	37	chr11	117095431	117095431	+	Frame_Shift_Del	DEL	G	-	-																															agttacctttccaagctgatGggggccatccactgtcttcc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:117095431delG	uc001pqr.2	-	7	1102	c.901delC	c.(901-903)CATfs	p.H301fs		NM_004716	NP_004707	Q16549	PCSK7_HUMAN	proprotein convertase subtilisin/kexin type 7	301	Catalytic.|Extracellular (Potential).				peptide hormone processing	integral to Golgi membrane	serine-type endopeptidase activity				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.72e-06)|Epithelial(105;6.71e-05)|all cancers(92;0.000537)		CCAAGCTGATGGGGGCCATCC	0.557			T	IGH@	MLCLS								128	251	---	---	---	---						.	-	117095431	-	-	117095431	7	5	103	1	0	1	0	1	0	0	0	0	11624	1348	47	0	1500	0	PCSK7	11	117095431	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	348788	117095431	17911085	1189	63138											
IL10RA	3587	broad.mit.edu	37	chr11	117860269	117860269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggctaccgggccagagtgCgggctgtggacggcagccgg	6	5	19	11	4	0	1	0	0	0	1	0	2	0	2	3	6	3	3	3	6	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:117860269C>T	uc001prv.2	+	3	378	c.301C>T	c.(301-303)CGG>TGG	p.R101W	IL10RA_uc010rxl.1_Missense_Mutation_p.R81W|IL10RA_uc010rxm.1_Missense_Mutation_p.R81W|IL10RA_uc010rxn.1_Intron|IL10RA_uc001prw.2_5'UTR	NM_001558	NP_001549	Q13651	I10R1_HUMAN	interleukin 10 receptor, alpha precursor	101	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-10 receptor activity			ovary(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)|Epithelial(105;0.00108)		GGCCAGAGTGCGGGCTGTGGA	0.577													4	56					0	0	1	0	0		T	117860269	T	T	117860269	3	4	103	1	0	0	0	0	1	0	0	0	7636	759	27	1	311	1	IL10RA	11	117860269	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	764838	117860269	17146247	1190	63139											
MPZL2	10205	broad.mit.edu	37	chr11	118130911	118130911	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggaagtggatctcagagaAgcgtactgtaaggagaaaaa	17	6	13	5	1	1	2	1	0	1	2	2	6	1	4	0	3	2	2	0	3	6	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:118130911A>G	uc001psn.2	-	4	583	c.442T>C	c.(442-444)TTC>CTC	p.F148L	MPZL2_uc001pso.2_Missense_Mutation_p.F148L|MPZL2_uc001psp.1_Missense_Mutation_p.F148L	NM_005797	NP_005788	O60487	MPZL2_HUMAN	myelin protein zero-like 2 precursor	148	Extracellular (Potential).				anatomical structure morphogenesis|homophilic cell adhesion	cytoskeleton|integral to membrane				skin(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.04e-05)		ATCTCAGAGAAGCGTACTGTA	0.388													40	70					0	0	1	0	0		G	118130911	G	G	118130911	3	3	103	1	0	0	0	0	1	0	0	0	9768	72	3	3	213	3	MPZL2	11	118130911	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	270642	118130911	16875605	1191	63140											
MLL	4297	broad.mit.edu	37	chr11	118365419	118365419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttttagcaaatggaacGtgtttttccatggttcagtg	8	18	9	6	1	2	0	1	0	1	0	3	1	3	1	1	2	2	3	1	2	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:118365419G>A	uc001pta.2	+	18	5314	c.5291G>A	c.(5290-5292)CGT>CAT	p.R1764H	MLL_uc001ptb.2_Missense_Mutation_p.R1767H	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1764					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		CAAATGGAACGTGTTTTTCCA	0.328			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								8	26					0	0	1	0	0		A	118365419	A	A	118365419	3	1	103	1	0	0	0	0	1	0	0	0	9638	1145	40	1	5361	1	MLL	11	118365419	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	234508	118365419	16641097	1192	63141											
PHLDB1	23187	broad.mit.edu	37	chr11	118499081	118499081	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgctgggggcacggggccgTaggacacggagcccctcacc	7	3	16	15	4	1	0	1	0	0	0	1	2	1	2	4	6	1	3	4	6	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:118499081T>C	uc001ptr.1	+	7	1895	c.1542T>C	c.(1540-1542)CGT>CGC	p.R514R	PHLDB1_uc001pts.2_Silent_p.R514R|PHLDB1_uc001ptt.2_Silent_p.R514R|PHLDB1_uc001ptu.1_Intron|PHLDB1_uc001ptv.1_Silent_p.R314R|PHLDB1_uc001ptw.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	514											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CACGGGGCCGTAGGACACGGA	0.657													15	13					0	0	1	0	0		C	118499081	C	C	118499081	2	2	103	1	0	0	0	0	0	0	0	1	11870	1625	57	3		3	PHLDB1	11	118499081	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	133662	118499081	16507435	1193	63142											
FOXR1	283150	broad.mit.edu	37	chr11	118850287	118850287	+	Frame_Shift_Del	DEL	C	-	-																															cggggaggctctggtcccggCcccctctcaattacttccac																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:118850287delC	uc001pui.2	+	4	745	c.520delC	c.(520-522)CCCfs	p.P174fs	FOXR1_uc001puj.2_RNA|FOXR1_uc001puk.2_Intron	NM_181721	NP_859072	Q6PIV2	FOXR1_HUMAN	forkhead box R1	174	Fork-head.				embryo development|organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.62e-05)		CTGGTCCCGGCCCCCTCTCAA	0.592													42	97	---	---	---	---						.	-	118850287	-	-	118850287	7	5	103	1	0	1	0	1	0	0	0	0	6045	739	26	0	534	0	FOXR1	11	118850287	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	351206	118850287	16156229	1194	63143											
RNF26	79102	broad.mit.edu	37	chr11	119206681	119206681	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctcgcctagcactgggCtcagaggcctggcgccgagt	5	8	13	15	3	2	1	1	0	1	1	4	2	2	1	3	3	1	2	3	3	1	1	rs145563235		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:119206681C>A	uc001pwh.2	+	1	1445	c.849C>A	c.(847-849)GGC>GGA	p.G283G		NM_032015	NP_114404	Q9BY78	RNF26_HUMAN	ring finger protein 26	283							zinc ion binding			ovary(1)	1		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.8e-05)		TAGCACTGGGCTCAGAGGCCT	0.672													5	61					0.000602214	0.000609638	1	1	0		A	119206681	A	A	119206681	2	1	103	1	0	0	0	0	0	0	0	1	13511	784	28	5		5	RNF26	11	119206681	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	356394	119206681	15799835	1195	63144											
MFRP	83552	broad.mit.edu	37	chr11	119213688	119213688	+	Frame_Shift_Del	DEL	G	-	-																															atggtgcgaggagacgaggtGggggggtggctctgctccac																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:119213688delG	uc001pwj.2	-	10	1310	c.1150delC	c.(1150-1152)CACfs	p.H384fs	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Frame_Shift_Del_p.P308fs	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		GAGACGAGGTGGGGGGGTGGC	0.622													5	6	---	---	---	---						.	-	119213688	-	-	119213688	7	5	103	1	0	1	0	1	0	0	0	0	9544	1348	47	0	605	0	MFRP	11	119213688	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	7007	119213688	15792828	1196	63145											
C11orf63	79864	broad.mit.edu	37	chr11	122774667	122774667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacaaatattcagacctcCgctatgacccgaactggaag	15	7	8	11	2	1	3	1	1	0	2	2	5	2	4	3	1	1	1	3	1	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:122774667C>T	uc001pym.2	+	3	676	c.379C>T	c.(379-381)CGC>TGC	p.R127C	C11orf63_uc001pyl.1_Missense_Mutation_p.R127C	NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	127										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		TTCAGACCTCCGCTATGACCC	0.458													111	157					0	0	1	0	0		T	122774667	T	T	122774667	3	4	103	1	0	0	0	0	1	0	0	0	1657	652	23	1	385	1	C11orf63	11	122774667	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3560979	122774667	12231849	1197	63146											
OR10S1	219873	broad.mit.edu	37	chr11	123848364	123848364	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttggggttctccgttgtcAtggtcatcttctcacacaca	6	14	10	11	1	5	0	3	0	3	0	7	0	5	0	1	4	0	3	1	4	0	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:123848364A>G	uc001pzm.1	-	1	35	c.35T>C	c.(34-36)ATG>ACG	p.M12T		NM_001004474	NP_001004474	Q8NGN2	O10S1_HUMAN	olfactory receptor, family 10, subfamily S,	12	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CTCCGTTGTCATGGTCATCTT	0.468													48	64					0	0	1	0	0		G	123848364	G	G	123848364	3	3	103	1	0	0	0	0	1	0	0	0	10937	217	8	3	964	3	OR10S1	11	123848364	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1073697	123848364	11158152	1198	63147											
OR8D1	283159	broad.mit.edu	37	chr11	124180467	124180467	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagaaatcgacgaaggacaAgctgctgaggaaatagtaca	17	5	12	7	2	0	2	0	1	0	1	1	6	0	4	0	2	3	4	0	2	6	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:124180467A>G	uc010sag.1	-	1	196	c.196T>C	c.(196-198)TTG>CTG	p.L66L		NM_001002917	NP_001002917	Q8WZ84	OR8D1_HUMAN	olfactory receptor, family 8, subfamily D,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		ACGAAGGACAAGCTGCTGAGG	0.468													19	48					0	0	1	0	0		G	124180467	G	G	124180467	2	3	103	1	0	0	0	0	0	0	0	1	11250	69	3	3		3	OR8D1	11	124180467	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	332103	124180467	10826049	1199	63148											
ROBO3	64221	broad.mit.edu	37	chr11	124744032	124744032	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggagacacacacagtcagCggtctgcagcccaataccat	12	6	9	14	1	2	1	1	0	1	1	2	2	2	1	2	2	4	1	2	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:124744032C>T	uc001qbc.2	+	12	2043	c.1851C>T	c.(1849-1851)AGC>AGT	p.S617S	ROBO3_uc010saq.1_5'Flank|ROBO3_uc001qbd.2_5'Flank|ROBO3_uc010sar.1_5'Flank|ROBO3_uc001qbe.2_5'Flank	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	617	Fibronectin type-III 1.|Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		ACACAGTCAGCGGTCTGCAGC	0.587													44	88					0	0	1	0	0		T	124744032	T	T	124744032	2	4	103	1	0	0	0	0	0	0	0	1	13540	767	27	1		1	ROBO3	11	124744032	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	563565	124744032	10262484	1200	63149											
ROBO3	64221	broad.mit.edu	37	chr11	124748587	124748587	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccgaagggaaaccccctCtcccacaccttcctatggac	10	7	6	18	1	1	0	0	0	1	0	4	3	3	2	6	2	1	0	6	2	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:124748587C>A	uc001qbc.2	+	23	3620	c.3428C>A	c.(3427-3429)TCT>TAT	p.S1143Y	ROBO3_uc001qbd.2_Missense_Mutation_p.S68Y|ROBO3_uc010sar.1_Missense_Mutation_p.S192Y|ROBO3_uc001qbe.2_Missense_Mutation_p.S68Y|ROBO3_uc001qbf.1_Missense_Mutation_p.S27Y	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	1143	Cytoplasmic (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		GAAACCCCCTCTCCCACACCT	0.622													16	19					0.00741294	0.00747851	1	1	0		A	124748587	A	A	124748587	3	1	103	1	0	0	0	0	1	0	0	0	13540	913	32	5	3518	5	ROBO3	11	124748587	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4555	124748587	10257929	1201	63150											
ADAMTS8	11095	broad.mit.edu	37	chr11	130278465	130278465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaccacatggtcacagcCggccttgacacactggccac	9	6	9	17	1	1	1	1	1	0	0	2	1	2	1	5	3	1	0	5	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:130278465C>T	uc001qgg.3	-	8	2351	c.1993G>A	c.(1993-1995)GGC>AGC	p.G665S	ADAMTS8_uc001qgf.2_Missense_Mutation_p.G146S	NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	665	Cys-rich.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		TGGTCACAGCCGGCCTTGACA	0.627													25	66					0	0	1	0	0		T	130278465	T	T	130278465	3	4	103	1	0	0	0	0	1	0	0	0	272	652	23	1	684	1	ADAMTS8	11	130278465	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	5529878	130278465	4728051	1202	63151											
JAM3	83700	broad.mit.edu	37	chr11	133938946	133938946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggggactacaagccgcgcCgcgctgccgctggcccctca	5	4	14	18	6	1	0	1	0	0	0	1	1	1	1	5	3	3	2	5	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr11:133938946C>T	uc001qhb.1	+	1	127	c.103C>T	c.(103-105)CGC>TGC	p.R35C	JAM3_uc009zcz.1_Missense_Mutation_p.R35C	NM_032801	NP_116190	Q9BX67	JAM3_HUMAN	junctional adhesion molecule 3 precursor	Error:Variant_position_missing_in_Q9BX67_after_alignment					angiogenesis|blood coagulation|regulation of neutrophil chemotaxis	cell-cell contact zone|desmosome|extracellular space|integral to membrane	integrin binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.06e-21)|all_epithelial(12;3.37e-16)|all_lung(97;7.03e-06)|Lung NSC(97;1.67e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0506)|Esophageal squamous(93;0.0566)		Epithelial(10;1.55e-09)|BRCA - Breast invasive adenocarcinoma(10;1.35e-08)|all cancers(11;2.81e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00402)|Lung(977;0.245)		CAAGCCGCGCCGCGCTGCCGC	0.741													6	16					0	0	1	0	0		T	133938946	T	T	133938946	3	4	103	1	0	0	0	0	1	0	0	0	7960	652	23	1	105	1	JAM3	11	133938946	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3660481	133938946	1067570	1203	63152											
B4GALNT3	283358	broad.mit.edu	37	chr12	662743	662743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggcccaggcccaggcccGctggtgacagccccaggaag	7	2	17	15	1	0	1	0	1	0	0	0	2	0	2	5	6	1	1	5	6	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:662743G>A	uc001qii.1	+	14	1654	c.1654G>A	c.(1654-1656)GCT>ACT	p.A552T	B4GALNT3_uc001qij.1_Missense_Mutation_p.A455T|B4GALNT3_uc001qik.1_Missense_Mutation_p.A101T	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	552	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			GCCCAGGCCCGCTGGTGACAG	0.642													18	40					0	0	1	0	0		A	662743	A	A	662743	3	1	103	1	0	0	0	0	1	0	0	0	1269	1087	38	1	1708	1	B4GALNT3	12	662743	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08		662743	133189152	1204	63153											
DCP1B	196513	broad.mit.edu	37	chr12	2058419	2058419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctttcctttggcgggaCggaggtgggttgtgcgaaca	5	11	15	10	3	0	0	0	0	0	0	2	3	2	2	2	5	2	1	2	5	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:2058419C>T	uc001qjx.1	-	8	1686	c.1606G>A	c.(1606-1608)GTC>ATC	p.V536I	DCP1B_uc010sdy.1_Missense_Mutation_p.V434I	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	536					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			TTTGGCGGGACGGAGGTGGGT	0.627													14	22					0	0	1	0	0		T	2058419	T	T	2058419	3	4	103	1	0	0	0	0	1	0	0	0	4302	536	19	1	255	1	DCP1B	12	2058419	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1395676	2058419	131793476	1205	63154											
CACNA1C	775	broad.mit.edu	37	chr12	2717706	2717706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctccatcgactcccacaCggaagacaagggccccatct	10	5	8	18	3	1	1	0	0	1	1	4	3	3	2	5	2	0	1	5	2	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:2717706C>T	uc009zdu.1	+	28	3759	c.3446C>T	c.(3445-3447)ACG>ATG	p.T1149M	CACNA1C_uc009zdv.1_Missense_Mutation_p.T1126M|CACNA1C_uc001qkb.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qkc.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qke.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qkf.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qjz.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qkd.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qkg.2_Missense_Mutation_p.T1129M|CACNA1C_uc009zdw.1_Missense_Mutation_p.T1129M|CACNA1C_uc001qkh.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qkl.2_Missense_Mutation_p.T1149M|CACNA1C_uc001qkn.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qko.2_Missense_Mutation_p.T1149M|CACNA1C_uc001qkp.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qkr.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qku.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qkq.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qks.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qkt.2_Missense_Mutation_p.T1129M|CACNA1C_uc001qka.1_Missense_Mutation_p.T664M|CACNA1C_uc001qki.1_Missense_Mutation_p.T865M|CACNA1C_uc001qkj.1_Missense_Mutation_p.T865M|CACNA1C_uc001qkk.1_Missense_Mutation_p.T865M|CACNA1C_uc001qkm.1_Missense_Mutation_p.T865M	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1149	Extracellular (Potential).|III.|Dihydropyridine binding (By similarity).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GACTCCCACACGGAAGACAAG	0.428													4	13					0	0	1	0	0		T	2717706	T	T	2717706	3	4	103	1	0	0	0	0	1	0	0	0	2543	536	19	1	3664	1	CACNA1C	12	2717706	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	659287	2717706	131134189	1206	63155											
ANO2	57101	broad.mit.edu	37	chr12	5939605	5939605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatccatttacttacaatgCggctgcgggtggcattatca	10	12	9	10	2	1	0	1	0	0	0	2	0	2	0	1	3	4	2	1	3	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:5939605C>T	uc001qnm.2	-	6	896	c.824G>A	c.(823-825)CGC>CAC	p.R275H		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	280	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						ACTTACAATGCGGCTGCGGGT	0.493													8	9					0	0	1	0	0		T	5939605	T	T	5939605	3	4	103	1	0	0	0	0	1	0	0	0	697	768	27	1	2256	1	ANO2	12	5939605	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3221899	5939605	127912290	1207	63156											
LPAR5	57121	broad.mit.edu	37	chr12	6729439	6729439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattgcgcgagcgccgcccGcgtcccgttggtggccgagg	3	6	18	14	8	0	0	0	0	0	0	1	3	1	1	4	4	2	1	4	4	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:6729439G>A	uc009zer.2	-	2	1257	c.976C>T	c.(976-978)CGG>TGG	p.R326W	LPAR5_uc001qps.2_Missense_Mutation_p.R326W|LPAR5_uc010sff.1_Missense_Mutation_p.R326W	NM_001142961	NP_001136433	Q9H1C0	LPAR5_HUMAN	lysophosphatidic acid receptor 5	326	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2						AGCGCCGCCCGCGTCCCGTTG	0.721													8	6					0	0	1	0	0		A	6729439	A	A	6729439	3	1	103	1	0	0	0	0	1	0	0	0	8926	1086	38	1	146	1	LPAR5	12	6729439	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	789834	6729439	127122456	1208	63157											
COPS7A	50813	broad.mit.edu	37	chr12	6840179	6840179	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccaggctccgagggagcGccaagatttggtccaagtcg	8	8	14	11	3	0	1	0	0	0	1	3	3	2	2	4	3	2	1	4	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:6840179G>A	uc001qqj.2	+	8	1041	c.802G>A	c.(802-804)GCC>ACC	p.A268T	COPS7A_uc009zex.2_RNA|COPS7A_uc001qqk.2_Missense_Mutation_p.R217H|COPS7A_uc001qql.2_RNA|COPS7A_uc001qqh.2_Missense_Mutation_p.A268T|COPS7A_uc001qqi.2_Missense_Mutation_p.A268T|COPS7A_uc001qqm.2_RNA|COPS7A_uc001qqn.3_Missense_Mutation_p.A268T|COPS7A_uc001qqo.2_Missense_Mutation_p.A268T	NM_001164094	NP_001157566	Q9UBW8	CSN7A_HUMAN	COP9 complex subunit 7a	268					cullin deneddylation	cytoplasm|signalosome				ovary(1)	1						CCGAGGGAGCGCCAAGATTTG	0.527													14	30					0	0	1	0	0		A	6840179	A	A	6840179	3	1	103	1	0	0	0	0	1	0	0	0	3741	1087	38	1	828	1	COPS7A	12	6840179	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	110740	6840179	127011716	1209	63158											
ATN1	1822	broad.mit.edu	37	chr12	7045390	7045390	+	Frame_Shift_Del	DEL	G	-	-																															tcagcctctccccctggcctGggggcccaaccactacctgg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:7045390delG	uc001qrw.1	+	5	1197	c.960delG	c.(958-960)CTGfs	p.L320fs	ATN1_uc001qrx.1_Frame_Shift_Del_p.L320fs|ATN1_uc001qry.1_Frame_Shift_Del_p.L319fs	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	320					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						CCCCTGGCCTGGGGGCCCAAC	0.647													41	76	---	---	---	---						.	-	7045390	-	-	7045390	7	5	103	1	0	1	0	1	0	0	0	0	1112	1335	47	0	974	0	ATN1	12	7045390	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	205211	7045390	126806505	1210	63159											
C1R	715	broad.mit.edu	37	chr12	7242010	7242010	+	Frame_Shift_Del	DEL	G	-	-																															tgtagttgcagcgcaggtcaGgggggtaggaccgagggtac																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:7242010delG	uc010sfy.1	-	5	706	c.647delC	c.(646-648)CCTfs	p.P216fs	C1R_uc010sfz.1_Frame_Shift_Del_p.P230fs|C1R_uc010sga.1_Frame_Shift_Del_p.P182fs	NM_001733	NP_001724	P00736	C1R_HUMAN	complement component 1, r subcomponent	216	CUB 2.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity				0					Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GCGCAGGTCAGGGGGGTAGGA	0.597													9	17	---	---	---	---						.	-	7242010	-	-	7242010	7	5	103	1	0	1	0	1	0	0	0	0	1975	1000	35	0	1177	0	C1R	12	7242010	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	196620	7242010	126609885	1211	63160											
CD163L1	283316	broad.mit.edu	37	chr12	7531681	7531681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccagtgcagccagaattcGacattaagatgtgtaatgtt	12	12	9	8	1	0	2	0	0	0	2	2	3	1	2	2	0	2	3	2	0	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:7531681G>A	uc001qsy.2	-	9	2290	c.2264C>T	c.(2263-2265)TCG>TTG	p.S755L	CD163L1_uc010sge.1_Missense_Mutation_p.S765L	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	755	SRCR 7.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						GCCAGAATTCGACATTAAGAT	0.448													34	63					0	0	1	0	0		A	7531681	A	A	7531681	3	1	103	1	0	0	0	0	1	0	0	0	2971	1059	37	1	2141	1	CD163L1	12	7531681	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	289671	7531681	126320214	1212	63161											
SLC2A3	6515	broad.mit.edu	37	chr12	8083109	8083109	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcttcttttctgttaaTgagcaaaaatctgggacttt	9	17	6	9	0	4	1	0	1	4	0	5	2	5	2	1	1	1	2	1	1	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:8083109T>G	uc001qtr.2	-	5	902	c.640A>C	c.(640-642)ATT>CTT	p.I214L	SLC2A3_uc001qts.2_Missense_Mutation_p.I214L	NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	214	Cytoplasmic (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		TTTCTGTTAATGAGCAAAAAT	0.423													51	57					0	0	1	0	0		G	8083109	G	G	8083109	3	3	103	1	0	0	0	0	1	0	0	0	14570	1464	51	5	874	5	SLC2A3	12	8083109	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	551428	8083109	125768786	1213	63162											
PHC1	1911	broad.mit.edu	37	chr12	9089850	9089850	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaagccaactatgctcgCgttcgcaggcgtggaccccg	9	6	12	14	5	0	1	0	0	0	1	2	2	0	2	3	2	3	3	3	2	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:9089850C>T	uc001qvd.2	+	13	2712	c.2556C>T	c.(2554-2556)CGC>CGT	p.R852R	PHC1_uc001qve.2_Silent_p.R852R	NM_004426	NP_004417	P78364	PHC1_HUMAN	polyhomeotic 1-like	852					multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						ACTATGCTCGCGTTCGCAGGC	0.537													7	17					0	0	1	0	0		T	9089850	T	T	9089850	2	4	103	1	0	0	0	0	0	0	0	1	11835	755	27	1		1	PHC1	12	9089850	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1006741	9089850	124762045	1214	63163											
PZP	5858	broad.mit.edu	37	chr12	9345170	9345170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctattcagtgtatagtgtgCcgtgatagtctccgtgtggc	6	15	12	8	2	3	1	1	1	2	0	4	1	3	1	2	1	1	1	2	1	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:9345170C>T	uc001qvl.2	-	12	1449	c.1420G>A	c.(1420-1422)GCA>ACA	p.A474T	PZP_uc009zgl.2_Missense_Mutation_p.A343T	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						GTATAGTGTGCCGTGATAGTC	0.488													9	82					0	0	1	0	0		T	9345170	T	T	9345170	3	4	103	1	0	0	0	0	1	0	0	0	12894	739	26	2	3128	2	PZP	12	9345170	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	255320	9345170	124506725	1215	63164											
CLEC2D	29121	broad.mit.edu	37	chr12	9847461	9847461	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttgttccaaatcagatatAcatgtctagatgttacagca	14	14	6	7	0	2	2	1	0	1	2	3	2	3	2	1	0	3	3	1	0	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:9847461A>G	uc001qwg.1	+	5	589	c.567A>G	c.(565-567)ATA>ATG	p.I189M	CLEC2D_uc001qwf.1_3'UTR|CLEC2D_uc009zgs.1_RNA|CLEC2D_uc001qwh.1_RNA|CLEC2D_uc009zgt.1_RNA|CLEC2D_uc009zgu.1_3'UTR	NM_013269	NP_037401	Q9UHP7	CLC2D_HUMAN	osteoclast inhibitory lectin isoform 1	189	Extracellular (Potential).				cell surface receptor linked signaling pathway	cell surface|endoplasmic reticulum|integral to plasma membrane|membrane fraction	sugar binding|transmembrane receptor activity				0						AATCAGATATACATGTCTAGA	0.333													11	21					0	0	1	0	0		G	9847461	G	G	9847461	3	3	103	1	0	0	0	0	1	0	0	0	3511	381	14	3	671	3	CLEC2D	12	9847461	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	502291	9847461	124004434	1216	63165											
GRIN2B	2904	broad.mit.edu	37	chr12	13717474	13717474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggccgtgcgcagcaggcGcaggatgttggagtgtgtgt	5	10	18	8	3	0	0	0	0	0	0	0	2	0	2	1	4	2	4	1	4	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:13717474G>A	uc001rbt.2	-	13	2877	c.2698C>T	c.(2698-2700)CGC>TGC	p.R900C		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	900	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CGCAGCAGGCGCAGGATGTTG	0.582													72	128					0	0	1	0	0		A	13717474	A	A	13717474	3	1	103	1	0	0	0	0	1	0	0	0	6796	1087	38	1	1760	1	GRIN2B	12	13717474	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3870013	13717474	120134421	1217	63166											
HIST4H4	121504	broad.mit.edu	37	chr12	14923723	14923724	+	Frame_Shift_Ins	INS	-	A	A																															agctcaaccgccgaaaccatINSaaagggtgcgaccctggcgt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:14923723_14923724insA	uc001rcf.3	-	1	342_343	c.295_296insT	c.(295-297)TATfs	p.Y99fs	HIST4H4_uc001rce.2_RNA	NM_175054	NP_778224	P62805	H4_HUMAN	histone cluster 4, H4	99					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						GCCGAAACCATAAAGGGTGCGA	0.574											OREG0021698	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	45	---	---	---	---						.	A	14923724	A	A	14923723	7	5	103	1	0	1	1	0	0	0	0	0	7201	1406	49	0	19	0	HIST4H4	12	14923723	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	1206249	14923723	118928172	1218	63167											
PLEKHA5	54477	broad.mit.edu	37	chr12	19418767	19418767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctctgaagatcacattaatCgcaaatatgcttttaaggta	14	13	6	8	1	2	2	1	1	1	1	3	2	2	2	1	1	1	3	1	1	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:19418767C>T	uc001reb.2	+	8	780	c.694C>T	c.(694-696)CGC>TGC	p.R232C	PLEKHA5_uc010sie.1_Missense_Mutation_p.R232C|PLEKHA5_uc001rea.2_Missense_Mutation_p.R232C|PLEKHA5_uc009zin.2_5'UTR|PLEKHA5_uc010sif.1_Missense_Mutation_p.R124C|PLEKHA5_uc010sig.1_Missense_Mutation_p.R124C|PLEKHA5_uc010sih.1_Missense_Mutation_p.R124C	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	232	PH.						1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					TCACATTAATCGCAAATATGC	0.328													28	63					0	0	1	0	0		T	19418767	T	T	19418767	3	4	103	1	0	0	0	0	1	0	0	0	12078	884	31	1	724	1	PLEKHA5	12	19418767	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4495044	19418767	114433128	1219	63168											
PDE3A	5139	broad.mit.edu	37	chr12	20523104	20523104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcggtccagctccgtcGtgtccgccgagatgtccggc	4	7	16	14	6	0	1	0	0	0	1	5	3	4	2	5	4	1	1	5	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:20523104G>A	uc001reh.1	+	1	908	c.886G>A	c.(886-888)GTG>ATG	p.V296M		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	296					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	CAGCTCCGTCGTGTCCGCCGA	0.622													21	32					0	0	1	0	0		A	20523104	A	A	20523104	3	1	103	1	0	0	0	0	1	0	0	0	11656	1145	40	1	888	1	PDE3A	12	20523104	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1104337	20523104	113328791	1220	63169											
SLCO1C1	53919	broad.mit.edu	37	chr12	20874789	20874789	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgggtaggagcctggtggcTtggctatctaatagcaggaa	9	10	16	6	0	1	0	0	0	1	0	1	2	1	2	1	6	2	4	1	6	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:20874789T>G	uc001rej.3	+	9	1182	c.827T>G	c.(826-828)CTT>CGT	p.L276R	SLCO1C1_uc010sii.1_Missense_Mutation_p.L276R|SLCO1C1_uc010sij.1_Missense_Mutation_p.L227R|SLCO1C1_uc009zip.2_Missense_Mutation_p.L110R|SLCO1C1_uc001rei.2_Missense_Mutation_p.L276R|SLCO1C1_uc010sik.1_Missense_Mutation_p.L158R	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	276	Helical; Name=6; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					GCCTGGTGGCTTGGCTATCTA	0.423													15	31					0	0	1	0	0		G	20874789	G	G	20874789	3	3	103	1	0	0	0	0	1	0	0	0	14750	1609	56	5	853	5	SLCO1C1	12	20874789	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	351685	20874789	112977106	1221	63170											
SLCO1B3	28234	broad.mit.edu	37	chr12	21229432	21229432	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggctctgattgatacaacGtgtatgaagtggtccaccaa	11	10	12	8	1	1	3	0	3	1	0	2	3	2	3	2	3	2	2	2	3	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:21229432G>A	uc010sil.1	+	15	2042	c.1977G>A	c.(1975-1977)ACG>ACA	p.T659T	LST-3TM12_uc010sim.1_Silent_p.T598T|LST-3TM12_uc010sin.1_Silent_p.T551T			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TTGATACAACGTGTATGAAGT	0.358													56	119					0	0	1	0	0		A	21229432	A	A	21229432	2	1	103	1	0	0	0	0	0	0	0	1	14749	1132	40	1		1	SLCO1B3	12	21229432	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	354643	21229432	112622463	1222	63171											
SLCO1A2	6579	broad.mit.edu	37	chr12	21453486	21453486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacccaacgagtgtcagtggGagttatgatcagatcatctg	11	10	12	8	1	4	2	3	1	1	1	4	5	4	3	1	1	1	1	1	1	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:21453486G>A	uc001rer.2	-	7	957	c.706C>T	c.(706-708)CCC>TCC	p.P236S	SLCO1A2_uc001res.2_Missense_Mutation_p.P236S|SLCO1A2_uc010siq.1_Missense_Mutation_p.P104S|SLCO1A2_uc010sio.1_Missense_Mutation_p.P104S|SLCO1A2_uc010sip.1_Missense_Mutation_p.P104S|SLCO1A2_uc001ret.2_Missense_Mutation_p.P234S|SLCO1A2_uc001reu.2_Missense_Mutation_p.P216S	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	236	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GTGTCAGTGGGAGTTATGATC	0.363													12	17					0	0	1	0	0		A	21453486	A	A	21453486	3	1	103	1	0	0	0	0	1	0	0	0	14747	1174	41	4	1338	4	SLCO1A2	12	21453486	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	224054	21453486	112398409	1223	63172											
ST8SIA1	6489	broad.mit.edu	37	chr12	22408261	22408261	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacggccacagccactcttCttcagaatcccaccatttcc	9	10	5	17	1	3	2	1	1	2	1	5	2	5	2	5	1	1	0	5	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:22408261C>A	uc001rfo.3	-	3	926	c.444G>T	c.(442-444)AAG>AAT	p.K148N	ST8SIA1_uc009zix.2_Intron	NM_003034	NP_003025	Q92185	SIA8A_HUMAN	alpha-2,8-sialyltransferase 1	148	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(3)	3						AGCCACTCTTCTTCAGAATCC	0.522													50	87					4.83215e-14	5.10571e-14	1	1	0		A	22408261	A	A	22408261	3	1	103	1	0	0	0	0	1	0	0	0	15256	912	32	5	638	5	ST8SIA1	12	22408261	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	954775	22408261	111443634	1224	63173											
ST8SIA1	6489	broad.mit.edu	37	chr12	22487107	22487107	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtccgcgggaacttccaCgccagtacagccatggcccc	7	5	12	17	4	0	0	0	0	0	0	2	1	2	1	6	3	3	1	6	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:22487107C>T	uc001rfo.3	-	1	542	c.60G>A	c.(58-60)GCG>GCA	p.A20A	ST8SIA1_uc009zix.2_Translation_Start_Site|uc001rfp.1_Intron	NM_003034	NP_003025	Q92185	SIA8A_HUMAN	alpha-2,8-sialyltransferase 1	20	Cytoplasmic (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(3)	3						GGAACTTCCACGCCAGTACAG	0.716													44	58					0	0	1	0	0		T	22487107	T	T	22487107	2	4	103	1	0	0	0	0	0	0	0	1	15256	523	19	1		1	ST8SIA1	12	22487107	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	78846	22487107	111364788	1225	63174											
KRAS	3845	broad.mit.edu	37	chr12	25398281	25398281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaggcactcttgcctacgCcaccagctccaactaccaca	11	7	5	18	1	2	0	1	0	1	0	3	0	3	0	5	1	5	2	5	1	4	3	rs112445441		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:25398281C>T	uc001rgp.1	-	2	219	c.38G>A	c.(37-39)GGC>GAC	p.G13D	KRAS_uc001rgq.1_Missense_Mutation_p.G13D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	13	GTP.		G -> R (in pylocytic astrocytoma; somatic mutation; increase activation of the Ras pathway).|G -> D (in a breast carcinoma cell line and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G13D(2647)|p.G13C(182)|p.G13S(58)|p.G13R(41)|p.G13V(27)|p.G13A(24)|p.G13G(11)|p.G13E(4)|p.G12_G13insG(4)|p.G13N(3)|p.G13I(1)|p.G13_V14>DI(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CTTGCCTACGCCACCAGCTCC	0.338	G13D(NCIH647_LUNG)|G13D(MDAMB231_BREAST)|G13D(NCIH747_LARGE_INTESTINE)|G13D(T84_LARGE_INTESTINE)|G13D(LOVO_LARGE_INTESTINE)|G13D(DLD1_LARGE_INTESTINE)|G13D(DV90_LUNG)|G13D(HCT15_LARGE_INTESTINE)|G13D(HCT116_LARGE_INTESTINE)|G13D(TOLEDO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G13D(NOMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			11	14					0	0	1	0	0		T	25398281	T	T	25398281	3	4	103	1	0	0	0	0	1	0	0	0	8454	739	26	2	668	2	KRAS	12	25398281	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2911174	25398281	108453614	1226	63175											
C12orf71	728858	broad.mit.edu	37	chr12	27235392	27235392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagctgtcgtcctctatgtCgctgttagaggatgaatatg	8	13	13	7	2	1	2	0	1	1	1	4	4	2	4	1	2	1	3	1	2	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:27235392C>T	uc001rhq.2	-	1	64	c.25G>A	c.(25-27)GAC>AAC	p.D9N		NM_001080406	NP_001073875	A8MTZ7	CL071_HUMAN	hypothetical protein LOC728858	9											0						TCCTCTATGTCGCTGTTAGAG	0.463													11	16					0	0	1	0	0		T	27235392	T	T	27235392	3	4	103	1	0	0	0	0	1	0	0	0	1715	884	31	1	792	1	C12orf71	12	27235392	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1837111	27235392	106616503	1227	63176											
FAR2	55711	broad.mit.edu	37	chr12	29486714	29486714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactttagagcatccagcaCgctcaaagtttaagagcatt	13	11	7	10	1	1	2	1	0	0	2	2	2	2	2	1	0	4	5	1	0	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:29486714C>T	uc001ris.3	+	12	1682	c.1535C>T	c.(1534-1536)ACG>ATG	p.T512M	FAR2_uc001rit.2_Missense_Mutation_p.T512M|FAR2_uc009zjm.2_Missense_Mutation_p.T415M	NM_018099	NP_060569	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	512					ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0						GCATCCAGCACGCTCAAAGTT	0.408													33	45					0	0	1	0	0		T	29486714	T	T	29486714	3	4	103	1	0	0	0	0	1	0	0	0	5689	536	19	1	1577	1	FAR2	12	29486714	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2251322	29486714	104365181	1228	63177											
OVCH1	341350	broad.mit.edu	37	chr12	29639191	29639191	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccacacataccctttcctCtctggcttccattcacttct	8	14	2	17	0	3	0	1	0	2	0	6	0	5	0	4	1	2	1	4	1	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:29639191C>A	uc001rix.1	-	8	983	c.983G>T	c.(982-984)AGA>ATA	p.R328I		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	328	CUB 1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					ACCCTTTCCTCTCTGGCTTCC	0.448													37	37					1.48734e-19	1.59037e-19	1	1	0		A	29639191	A	A	29639191	3	1	103	1	0	0	0	0	1	0	0	0	11342	913	32	5	2505	5	OVCH1	12	29639191	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	152477	29639191	104212704	1229	63178											
KIF21A	55605	broad.mit.edu	37	chr12	39752103	39752103	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatttctagctcgattggcGtatttcagggtgtttaacgt	8	17	10	6	3	2	0	1	0	1	0	3	1	2	0	0	2	2	3	0	2	4	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:39752103G>A	uc001rly.2	-	8	1238	c.1092C>T	c.(1090-1092)TAC>TAT	p.Y364Y	KIF21A_uc001rlx.2_Silent_p.Y364Y|KIF21A_uc001rlz.2_Silent_p.Y364Y|KIF21A_uc010skl.1_Silent_p.Y364Y|KIF21A_uc001rma.1_Silent_p.Y372Y	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	364					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				CTCGATTGGCGTATTTCAGGG	0.398													63	112					0	0	1	0	0		A	39752103	A	A	39752103	2	1	103	1	0	0	0	0	0	0	0	1	8304	1140	40	1		1	KIF21A	12	39752103	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	10112912	39752103	94099792	1230	63179											
LRRK2	120892	broad.mit.edu	37	chr12	40740562	40740562	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttactttcagggtttcgTgcacctgaagttgccagagg	7	13	12	9	1	1	2	1	1	0	1	2	2	1	2	2	2	4	4	2	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:40740562T>C	uc001rmg.3	+	42	6238	c.6117T>C	c.(6115-6117)CGT>CGC	p.R2039R	LRRK2_uc009zjw.2_Silent_p.R877R|LRRK2_uc001rmi.2_Silent_p.R872R	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2039	Protein kinase.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CAGGGTTTCGTGCACCTGAAG	0.373													9	30					0	0	1	0	0		C	40740562	C	C	40740562	2	2	103	1	0	0	0	0	0	0	0	1	9051	1683	59	3		3	LRRK2	12	40740562	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	988459	40740562	93111333	1231	63180											
CNTN1	1272	broad.mit.edu	37	chr12	41374776	41374776	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacttctgtggcacttactTggagccgtggttcagacaat	8	12	10	11	1	2	1	1	0	1	1	2	2	2	2	2	3	2	2	2	3	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:41374776T>C	uc001rmm.1	+	16	1983	c.1870T>C	c.(1870-1872)TGG>CGG	p.W624R	CNTN1_uc001rmn.1_Missense_Mutation_p.W613R	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	624	Fibronectin type-III 1.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				GGCACTTACTTGGAGCCGTGG	0.433													59	65					0	0	1	0	0		C	41374776	C	C	41374776	3	2	103	1	0	0	0	0	1	0	0	0	3643	1812	63	3	1928	3	CNTN1	12	41374776	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	634214	41374776	92477119	1232	63181											
RAPGEF3	10411	broad.mit.edu	37	chr12	48134142	48134142	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgaggccaaacatgacGgcaaagaaggaattgagatt	15	8	12	6	1	0	4	0	3	0	2	0	6	0	5	1	3	2	2	1	3	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:48134142G>A	uc009zkp.2	-	21	2582	c.2142C>T	c.(2140-2142)GCC>GCT	p.A714A	uc001rpv.2_RNA|RAPGEF3_uc001rpw.2_Silent_p.A49A|RAPGEF3_uc001rpx.2_Silent_p.A171A|RAPGEF3_uc010sln.1_Intron|RAPGEF3_uc001rpy.2_RNA|RAPGEF3_uc009zkq.2_Silent_p.A714A|RAPGEF3_uc001rpz.3_Silent_p.A756A	NM_001098532	NP_001092002	A8K2G5	A8K2G5_HUMAN	Rap guanine nucleotide exchange factor 3 isoform	714					regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex	cAMP-dependent protein kinase regulator activity|guanyl-nucleotide exchange factor activity			lung(2)|skin(1)|pancreas(1)	4	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.0375)		CAAACATGACGGCAAAGAAGG	0.607													22	48					0	0	1	0	0		A	48134142	A	A	48134142	2	1	103	1	0	0	0	0	0	0	0	1	13070	1103	39	1		1	RAPGEF3	12	48134142	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6759366	48134142	85717753	1233	63182											
CCNT1	904	broad.mit.edu	37	chr12	49110342	49110342	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagcagattggccgcctgCtggcgataagaaagttcttt	10	11	12	8	2	1	3	0	1	1	2	1	4	1	3	2	2	2	3	2	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:49110342C>T	uc001rse.1	-	1	440	c.117G>A	c.(115-117)CAG>CAA	p.Q39Q	CCNT1_uc009zkz.1_5'UTR	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	39					cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						TGGCCGCCTGCTGGCGATAAG	0.537											OREG0021767	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	55	94					0	0	1	0	0		T	49110342	T	T	49110342	2	4	103	1	0	0	0	0	0	0	0	1	2937	796	28	2		2	CCNT1	12	49110342	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	976200	49110342	84741553	1234	63183											
ADCY6	112	broad.mit.edu	37	chr12	49177014	49177014	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccctccggatgaaggcGtcatcctgccaggggcaccg	6	5	13	17	4	1	1	1	1	0	0	3	2	3	2	7	4	1	1	7	4	1	0	rs147362088		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:49177014G>A	uc001rsh.3	-	1	864	c.204C>T	c.(202-204)GAC>GAT	p.D68D	ADCY6_uc001rsj.3_Silent_p.D68D|ADCY6_uc001rsi.3_Silent_p.D68D	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	68	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						GGATGAAGGCGTCATCCTGCC	0.711													13	31					0	0	1	0	0		A	49177014	A	A	49177014	2	1	103	1	0	0	0	0	0	0	0	1	298	1136	40	1		1	ADCY6	12	49177014	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	66672	49177014	84674881	1235	63184											
CACNB3	784	broad.mit.edu	37	chr12	49221650	49221650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagtgaccggaactggcagCgcaaccggccttggcccaag	10	4	13	14	3	0	1	0	1	0	0	0	2	0	2	4	4	3	2	4	4	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:49221650C>T	uc001rsl.1	+	13	1624	c.1423C>T	c.(1423-1425)CGC>TGC	p.R475C	CACNB3_uc010sly.1_Missense_Mutation_p.R462C|CACNB3_uc010slz.1_Missense_Mutation_p.R474C|CACNB3_uc001rsk.1_Missense_Mutation_p.R322C	NM_000725	NP_000716	P54284	CACB3_HUMAN	calcium channel, voltage-dependent, beta 3	475					axon guidance|membrane depolarization|synaptic transmission	cytosol|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0					Verapamil(DB00661)	GAACTGGCAGCGCAACCGGCC	0.657													13	34					0	0	1	0	0		T	49221650	T	T	49221650	3	4	103	1	0	0	0	0	1	0	0	0	2557	768	27	1	1473	1	CACNB3	12	49221650	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	44636	49221650	84630245	1236	63185											
MLL2	8085	broad.mit.edu	37	chr12	49448408	49448408	+	Frame_Shift_Del	DEL	C	-	-																															gcctcattgggccctgggctCcccccaggggacaccactgg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:49448408delC	uc001rta.3	-	3	303	c.303delG	c.(301-303)GGGfs	p.G101fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	101					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GCCCTGGGCTCCCCCCAGGGG	0.622			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			9	14	---	---	---	---						.	-	49448408	-	-	49448408	7	5	103	1	0	1	0	1	0	0	0	0	9639	842	30	0	16518	0	MLL2	12	49448408	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	226758	49448408	84403487	1237	63186											
KCNH3	23416	broad.mit.edu	37	chr12	49938099	49938099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgctcgcgcactgggtcGcctgcgtctggttttacatt	3	13	11	14	4	1	0	0	0	1	0	3	0	1	0	2	2	3	3	2	2	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:49938099G>A	uc001ruh.1	+	7	1383	c.1123G>A	c.(1123-1125)GCC>ACC	p.A375T	KCNH3_uc010smj.1_Missense_Mutation_p.A315T	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	375	Helical; Name=Segment S5; (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						GCACTGGGTCGCCTGCGTCTG	0.592													5	10					0	0	1	0	0		A	49938099	A	A	49938099	3	1	103	1	0	0	0	0	1	0	0	0	8049	1087	38	1	1149	1	KCNH3	12	49938099	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	489691	49938099	83913796	1238	63187											
ACVR1B	91	broad.mit.edu	37	chr12	52345607	52345607	+	Frame_Shift_Del	DEL	G	-	-																															cagcggcgggtccgggccccGgggggtccagggtgagtcct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:52345607delG	uc001rzn.2	+	1	122	c.80delG	c.(79-81)CGGfs	p.R27fs	ACVR1B_uc001rzl.2_Frame_Shift_Del_p.R27fs|ACVR1B_uc001rzm.2_Frame_Shift_Del_p.R27fs|ACVR1B_uc010snn.1_Frame_Shift_Del_p.R27fs	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	27	Extracellular (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	TCCGGGCCCCGGGGGGTCCAG	0.692													7	12	---	---	---	---						.	-	52345607	-	-	52345607	7	5	103	1	0	1	0	1	0	0	0	0	221	1116	39	0	82	0	ACVR1B	12	52345607	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	2407508	52345607	81506288	1239	63188											
ACVR1B	91	broad.mit.edu	37	chr12	52374774	52374774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttacccctctttgtccagcGcacagtggcccgaaccatcg	7	9	9	16	3	1	0	0	0	1	0	3	1	2	0	5	1	3	2	5	1	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:52374774G>A	uc001rzn.2	+	4	644	c.602G>A	c.(601-603)CGC>CAC	p.R201H	ACVR1B_uc001rzl.2_Missense_Mutation_p.R201H|ACVR1B_uc001rzm.2_Missense_Mutation_p.R201H|ACVR1B_uc010snn.1_Missense_Mutation_p.R201H	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	201	Cytoplasmic (Potential).|GS.				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	TTTGTCCAGCGCACAGTGGCC	0.498											OREG0021829	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	40					0	0	1	0	0		A	52374774	A	A	52374774	3	1	103	1	0	0	0	0	1	0	0	0	221	1087	38	1	616	1	ACVR1B	12	52374774	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	29167	52374774	81477121	1240	63189											
KRT86	3892	broad.mit.edu	37	chr12	52695798	52695798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaccgccgccccctaccGtggcatctcctgctaccgcg	5	7	8	21	5	2	0	1	0	1	0	3	0	2	0	7	1	3	2	7	1	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:52695798G>A	uc010snq.1	+	2	231	c.98G>A	c.(97-99)CGT>CAT	p.R33H	KRT86_uc009zmg.2_Missense_Mutation_p.R33H|KRT81_uc001sac.2_Intron|KRT86_uc001sad.2_Missense_Mutation_p.R33H	NM_002284	NP_002275	O43790	KRT86_HUMAN	keratin 86	33	Head.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(357;0.189)		GCCCCCTACCGTGGCATCTCC	0.711													26	23					0	0	1	0	0		A	52695798	A	A	52695798	3	1	103	1	0	0	0	0	1	0	0	0	8516	1145	40	1	100	1	KRT86	12	52695798	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	321024	52695798	81156097	1241	63190											
KRT6B	3854	broad.mit.edu	37	chr12	52845339	52845339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaccttgtcgatgaaggagGcaaacttgttgttgagggtc	9	12	13	7	1	1	2	1	2	0	0	3	4	1	3	1	3	1	3	1	3	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:52845339G>A	uc001sak.2	-	1	572	c.524C>T	c.(523-525)GCC>GTC	p.A175V		NM_005555	NP_005546	P04259	K2C6B_HUMAN	keratin 6B	175	Coil 1A.|Rod.				ectoderm development	keratin filament	structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.083)		GATGAAGGAGGCAAACTTGTT	0.602													22	115					0	0	1	0	0		A	52845339	A	A	52845339	3	1	103	1	0	0	0	0	1	0	0	0	8497	1203	42	2	1206	2	KRT6B	12	52845339	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	149541	52845339	81006556	1242	63191											
KRT6A	3853	broad.mit.edu	37	chr12	52886449	52886449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaccttgtcgatgaaggagGcaaacttgttgttgagggtc	9	12	13	7	1	1	2	1	2	0	0	3	4	1	3	1	3	1	3	1	3	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:52886449G>A	uc001sam.2	-	1	733	c.524C>T	c.(523-525)GCC>GTC	p.A175V		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	175	Coil 1A.|Rod.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		GATGAAGGAGGCAAACTTGTT	0.587													8	157					0	0	1	0	0		A	52886449	A	A	52886449	3	1	103	1	0	0	0	0	1	0	0	0	8496	1203	42	2	1206	2	KRT6A	12	52886449	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	41110	52886449	80965446	1243	63192											
KRT73	319101	broad.mit.edu	37	chr12	53002213	53002213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccctgtgcctgccatccCggccatggagctgttgatga	6	9	12	14	1	0	2	0	2	0	0	1	3	1	3	6	2	4	2	6	2	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:53002213C>T	uc001sas.2	-	9	1425	c.1390G>A	c.(1390-1392)GGG>AGG	p.G464R		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	464	Tail.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CCTGCCATCCCGGCCATGGAG	0.622													13	25					0	0	1	0	0		T	53002213	T	T	53002213	3	4	103	1	0	0	0	0	1	0	0	0	8502	652	23	1	236	1	KRT73	12	53002213	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	115764	53002213	80849682	1244	63193											
KRT4	3851	broad.mit.edu	37	chr12	53207430	53207430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggagcttgatctgttcgCgctcttccgtccggactttc	4	14	11	12	4	2	2	0	2	2	0	6	4	4	4	2	2	1	3	2	2	0	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:53207430C>T	uc001saz.2	-	1	906	c.635G>A	c.(634-636)CGC>CAC	p.R212H		NM_002272	NP_002263	B4DRS2	B4DRS2_HUMAN	keratin 4	138						keratin filament	structural molecule activity	p.R212R(1)		ovary(4)|skin(2)	6						GATCTGTTCGCGCTCTTCCGT	0.572													83	94					0	0	1	0	0		T	53207430	T	T	53207430	3	4	103	1	0	0	0	0	1	0	0	0	8493	768	27	1	1185	1	KRT4	12	53207430	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	205217	53207430	80644465	1245	63194											
MAP3K12	7786	broad.mit.edu	37	chr12	53875972	53875972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggtagatagtgactggCgcatgttcaggctctgaggc	9	10	15	7	1	2	4	1	3	1	1	2	4	2	4	0	4	0	4	0	4	3	3	rs149876591		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:53875972C>T	uc001sdm.1	-	14	2332	c.2234G>A	c.(2233-2235)CGC>CAC	p.R745H	MAP3K12_uc001sdn.1_Missense_Mutation_p.R778H	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	745					histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						TAGTGACTGGCGCATGTTCAG	0.512											OREG0021873	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	139					0	0	1	0	0		T	53875972	T	T	53875972	3	4	103	1	0	0	0	0	1	0	0	0	9264	768	27	1	353	1	MAP3K12	12	53875972	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	668542	53875972	79975923	1246	63195											
HOXC13	3229	broad.mit.edu	37	chr12	54338978	54338978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaccatctggttccagaacCggcgggtcaaagagaagaag	14	6	12	9	2	2	3	1	0	1	3	3	4	3	3	3	3	2	1	3	3	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:54338978C>T	uc001sei.2	+	2	1046	c.931C>T	c.(931-933)CGG>TGG	p.R311W	HOXC13_uc010sop.1_RNA	NM_017410	NP_059106	P31276	HXC13_HUMAN	homeobox C13	311	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						GTTCCAGAACCGGCGGGTCAA	0.572			T	NUP98	AML								27	47					0	0	1	0	0		T	54338978	T	T	54338978	3	4	103	1	0	0	0	0	1	0	0	0	7328	643	23	1	937	1	HOXC13	12	54338978	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	463006	54338978	79512917	1247	63196											
HOXC8	3224	broad.mit.edu	37	chr12	54403386	54403386	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatggggctcagcaagaggcGagcgtggtgcaatatcccga	10	7	15	9	3	1	1	1	0	0	1	2	3	2	1	1	4	3	3	1	4	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:54403386G>A	uc001ser.2	+	1	497	c.318G>A	c.(316-318)GCG>GCA	p.A106A		NM_022658	NP_073149	P31273	HXC8_HUMAN	homeobox C8	106						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGCAAGAGGCGAGCGTGGTGC	0.547													82	118					0	0	1	0	0		A	54403386	A	A	54403386	2	1	103	1	0	0	0	0	0	0	0	1	7332	1045	37	1		1	HOXC8	12	54403386	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	64408	54403386	79448509	1248	63197											
PPP1R1A	5502	broad.mit.edu	37	chr12	54975883	54975883	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctctccttgctgctgttGccccaggtgatgttcaacca	5	14	8	14	0	2	1	1	1	1	0	4	1	3	1	5	1	4	4	5	1	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:54975883G>A	uc001sgg.2	-	5	451	c.280C>T	c.(280-282)CAA>TAA	p.Q94*		NM_006741	NP_006732	Q13522	PPR1A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	94					glycogen metabolic process|signal transduction		protein binding|protein serine/threonine phosphatase inhibitor activity				0						TGCTGCTGTTGCCCCAGGTGA	0.602													16	17					0	0	1	0	0		A	54975883	A	A	54975883	4	1	103	1	0	0	0	0	0	1	0	0	12389	1328	46	2	247	2	PPP1R1A	12	54975883	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	572497	54975883	78876012	1249	63198											
IKZF4	64375	broad.mit.edu	37	chr12	56415292	56415292	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagacatgcatacaccaccCgcactccctcgccgtttcca	9	7	6	19	3	0	1	0	0	0	1	3	1	2	1	5	0	2	4	5	0	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:56415292C>T	uc001sjb.1	+	2	174	c.15C>T	c.(13-15)CCC>CCT	p.P5P	IKZF4_uc010sqa.1_Intron|IKZF4_uc001sjc.1_Silent_p.P5P|IKZF4_uc001sjd.1_5'UTR|IKZF4_uc009zoi.1_Intron	NM_022465	NP_071910	Q9H2S9	IKZF4_HUMAN	zinc finger protein, subfamily 1A, 4	5					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (6;0.025)|OV - Ovarian serous cystadenocarcinoma(18;0.123)			ATACACCACCCGCACTCCCTC	0.632													4	8					0	0	1	0	0		T	56415292	T	T	56415292	2	4	103	1	0	0	0	0	0	0	0	1	7633	639	23	1		1	IKZF4	12	56415292	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1439409	56415292	77436603	1250	63199											
ERBB3	2065	broad.mit.edu	37	chr12	56481671	56481671	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagtgtgccgggggctgcTcaggccctcaggacacagac	8	6	15	12	1	2	2	2	1	0	1	2	3	2	3	2	4	2	2	2	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:56481671T>C	uc001sjh.2	+	6	899	c.706T>C	c.(706-708)TCA>CCA	p.S236P	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.S177P|ERBB3_uc001sji.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	236	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CGGGGGCTGCTCAGGCCCTCA	0.547													55	105					0	0	1	0	0		C	56481671	C	C	56481671	3	2	103	1	0	0	0	0	1	0	0	0	5216	1551	54	3	859	3	ERBB3	12	56481671	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	66379	56481671	77370224	1251	63200											
ERBB3	2065	broad.mit.edu	37	chr12	56487604	56487604	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggatgctggggcccaGgccctggtcagtgcttgtcc	3	9	17	12	0	1	0	1	0	0	0	2	1	2	1	3	6	2	2	3	6	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:56487604G>T	uc001sjh.2	+	13	1730	c.1537G>T	c.(1537-1539)GGC>TGC	p.G513C	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.G454C|ERBB3_uc009zok.2_Translation_Start_Site|ERBB3_uc001sjk.2_5'Flank|ERBB3_uc001sjj.1_Missense_Mutation_p.G81C	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	513	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CTGGGGCCCAGGCCCTGGTCA	0.577													38	81					1.49673e-21	1.60375e-21	1	1	0		T	56487604	T	T	56487604	3	4	103	1	0	0	0	0	1	0	0	0	5216	1000	35	5	1718	5	ERBB3	12	56487604	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5933	56487604	77364291	1252	63201											
PAN2	9924	broad.mit.edu	37	chr12	56720737	56720737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgggttcacagaattggCactgccctacaaaggaggaa	12	8	12	9	0	1	1	1	0	0	1	1	3	1	3	1	4	2	2	1	4	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:56720737C>T	uc001skx.2	-	7	1299	c.926G>A	c.(925-927)TGC>TAC	p.C309Y	PAN2_uc001skw.2_5'Flank|PAN2_uc001skz.2_Missense_Mutation_p.C309Y|PAN2_uc001sky.2_Missense_Mutation_p.C309Y	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	309					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						ACAGAATTGGCACTGCCCTAC	0.502													21	44					0	0	1	0	0		T	56720737	T	T	56720737	3	4	103	1	0	0	0	0	1	0	0	0	11433	710	25	2	2762	2	PAN2	12	56720737	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	233133	56720737	77131158	1253	63202											
RBMS2	5939	broad.mit.edu	37	chr12	56962790	56962790	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtttccactaaggccataCtggacaagaccacaaacaaa	16	8	6	11	0	0	1	0	0	0	1	1	2	1	2	3	2	2	1	3	2	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:56962790C>T	uc001sln.2	+	3	464	c.265C>T	c.(265-267)CTG>TTG	p.L89L	RBMS2_uc010sqp.1_5'UTR|RBMS2_uc010sqq.1_5'UTR|RBMS2_uc009zou.2_Intron	NM_002898	NP_002889	Q15434	RBMS2_HUMAN	RNA binding motif, single stranded interacting	89	RRM 1.				RNA processing	nucleus	nucleotide binding|RNA binding				0						TAAGGCCATACTGGACAAGAC	0.453													14	30					0	0	1	0	0		T	56962790	T	T	56962790	2	4	103	1	0	0	0	0	0	0	0	1	13174	564	20	4		4	RBMS2	12	56962790	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	242053	56962790	76889105	1254	63203											
GPR182	11318	broad.mit.edu	37	chr12	57389547	57389547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctctcggccatcatccCgctgcctgaggtggtccaca	5	9	11	16	2	2	1	1	1	1	0	6	1	5	1	5	4	1	1	5	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:57389547C>T	uc001smk.2	+	2	648	c.554C>T	c.(553-555)CCG>CTG	p.P185L	RDH16_uc010sqx.1_Intron	NM_007264	NP_009195	O15218	GP182_HUMAN	G protein-coupled receptor 182	185	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(1)	1						GCCATCATCCCGCTGCCTGAG	0.647													21	48					0	0	1	0	0		T	57389547	T	T	57389547	3	4	103	1	0	0	0	0	1	0	0	0	6692	652	23	1	556	1	GPR182	12	57389547	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	426757	57389547	76462348	1255	63204											
NAB2	4665	broad.mit.edu	37	chr12	57485188	57485188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagtgcctgctgttcccGtctccagcatcccgctcttc	5	11	7	18	2	2	0	0	0	2	0	6	0	4	0	5	0	4	4	5	0	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:57485188G>A	uc001smz.2	+	2	742	c.364G>A	c.(364-366)GTC>ATC	p.V122I		NM_005967	NP_005958	Q15742	NAB2_HUMAN	NGFI-A binding protein 2	122					cell proliferation|negative regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	transcription corepressor activity			upper_aerodigestive_tract(1)|ovary(1)	2						TGCTGTTCCCGTCTCCAGCAT	0.617													36	73					0	0	1	0	0		A	57485188	A	A	57485188	3	1	103	1	0	0	0	0	1	0	0	0	10150	1145	40	1	370	1	NAB2	12	57485188	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	95641	57485188	76366707	1256	63205											
NAB2	4665	broad.mit.edu	37	chr12	57485461	57485461	+	Frame_Shift_Del	DEL	G	-	-																															cccccttctccccccctgcaGggggaggagtccctgagggg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:57485461delG	uc001smz.2	+	2	1015	c.637delG	c.(637-639)GGGfs	p.G213fs		NM_005967	NP_005958	Q15742	NAB2_HUMAN	NGFI-A binding protein 2	213					cell proliferation|negative regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	transcription corepressor activity			upper_aerodigestive_tract(1)|ovary(1)	2						CCCCCCTGCAGGGGGAGGAGT	0.701													22	14	---	---	---	---						.	-	57485461	-	-	57485461	7	5	103	1	0	1	0	1	0	0	0	0	10150	1000	35	0	643	0	NAB2	12	57485461	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	273	57485461	76366434	1257	63206											
STAT6	6778	broad.mit.edu	37	chr12	57499332	57499332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaagctccccaccagccGcccctacctcctgctgtagc	6	7	7	21	1	1	0	1	0	0	0	3	0	3	0	8	0	5	4	8	0	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:57499332G>A	uc009zpe.2	-	8	982	c.731C>T	c.(730-732)GCG>GTG	p.A244V	STAT6_uc009zpf.2_Missense_Mutation_p.A244V|STAT6_uc001sna.2_Missense_Mutation_p.A244V|STAT6_uc010srb.1_Missense_Mutation_p.A134V|STAT6_uc010src.1_Missense_Mutation_p.A134V|STAT6_uc010srd.1_Missense_Mutation_p.A134V|STAT6_uc009zpg.2_Missense_Mutation_p.A293V	NM_003153	NP_003144	P42226	STAT6_HUMAN	signal transducer and activator of transcription	244					regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(2)|lung(1)|skin(1)	4						CCCACCAGCCGCCCCTACCTC	0.627													11	20					0	0	1	0	0		A	57499332	A	A	57499332	3	1	103	1	0	0	0	0	1	0	0	0	15295	1087	38	1	1872	1	STAT6	12	57499332	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	13871	57499332	76352563	1258	63207											
MBD6	114785	broad.mit.edu	37	chr12	57919830	57919830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccactcctcatcacttcGtccctctcagcgtcgtcccc	4	12	4	21	3	3	0	3	0	1	0	10	0	7	0	5	0	1	0	5	0	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:57919830G>A	uc001soj.1	+	6	1303	c.1079G>A	c.(1078-1080)CGT>CAT	p.R360H	MBD6_uc001sok.1_Missense_Mutation_p.R227H|MBD6_uc001sol.1_5'Flank	NM_052897	NP_443129	Q96DN6	MBD6_HUMAN	methyl-CpG binding domain protein 6	360	Pro-rich.					chromosome|nucleus	chromatin binding|DNA binding			central_nervous_system(3)|ovary(1)	4						TCATCACTTCGTCCCTCTCAG	0.647													36	35					0	0	1	0	0		A	57919830	A	A	57919830	3	1	103	1	0	0	0	0	1	0	0	0	9366	1145	40	1	1093	1	MBD6	12	57919830	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	420498	57919830	75932065	1259	63208											
MBD6	114785	broad.mit.edu	37	chr12	57920756	57920758	+	In_Frame_Del	DEL	CTT	-	-																															ttcctccaccaccctcagacCttcttccacctccttcagca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:57920756_57920758delCTT	uc001soj.1	+	7	2052_2054	c.1828_1830delCTT	c.(1828-1830)CTTdel	p.L611del	MBD6_uc001sok.1_In_Frame_Del_p.L478del|MBD6_uc001sol.1_RNA	NM_052897	NP_443129	Q96DN6	MBD6_HUMAN	methyl-CpG binding domain protein 6	611	Pro-rich.					chromosome|nucleus	chromatin binding|DNA binding			central_nervous_system(3)|ovary(1)	4						ACCCTCAGACCTTCTTCCACCTC	0.635													66	134	---	---	---	---						.	-	57920758	-	-	57920756	7	5	103	1	0	1	0	1	0	0	0	0	9366	681	24	0	1846	0	MBD6	12	57920756	In_Frame_Del	DEL	CTT	TCGA-BR-A4QL-01A-31D-A25D-08	926	57920756	75931139	1260	63209											
MBD6	114785	broad.mit.edu	37	chr12	57922092	57922092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggagggggtcagggaaaCggggccggaggggaggaggg	8	2	26	5	2	1	0	1	0	0	0	1	5	1	5	1	11	1	0	1	11	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:57922092C>T	uc001soj.1	+	10	2793	c.2569C>T	c.(2569-2571)CGG>TGG	p.R857W	MBD6_uc001sok.1_Missense_Mutation_p.R725W|MBD6_uc001sol.1_RNA	NM_052897	NP_443129	Q96DN6	MBD6_HUMAN	methyl-CpG binding domain protein 6	857						chromosome|nucleus	chromatin binding|DNA binding			central_nervous_system(3)|ovary(1)	4						GTCAGGGAAACGGGGCCGGAG	0.706													10	19					0	0	1	0	0		T	57922092	T	T	57922092	3	4	103	1	0	0	0	0	1	0	0	0	9366	527	19	1	2599	1	MBD6	12	57922092	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1336	57922092	75929803	1261	63210											
DTX3	196403	broad.mit.edu	37	chr12	58001060	58001060	+	Frame_Shift_Del	DEL	C	-	-																															cccccaggagctcgggggctCccccctcctcctccccccct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:58001060delC	uc001sow.1	+	5	751	c.414delC	c.(412-414)CTCfs	p.L138fs	DTX3_uc001sov.1_Frame_Shift_Del_p.L131fs|DTX3_uc001sox.1_Frame_Shift_Del_p.L131fs|DTX3_uc001soy.1_Frame_Shift_Del_p.L131fs|GEFT_uc009zpy.2_5'Flank	NM_178502	NP_848597	Q8N9I9	DTX3_HUMAN	deltex homolog 3	138	Pro-rich.				Notch signaling pathway	cytoplasm	zinc ion binding			breast(1)|central_nervous_system(1)	2	Melanoma(17;0.122)					CTCGGGGGctcccccctcctc	0.537													4	9	---	---	---	---						.	-	58001060	-	-	58001060	7	5	103	1	0	1	0	1	0	0	0	0	4801	842	30	0	420	0	DTX3	12	58001060	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	78968	58001060	75850835	1262	63211											
AVIL	10677	broad.mit.edu	37	chr12	58203443	58203443	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttttcctttccacacgtaGattttggttccactttggtc	5	18	6	12	1	0	1	0	0	0	1	4	1	3	1	4	2	0	2	4	2	1	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:58203443G>T	uc001sqj.1	-	8	905	c.876C>A	c.(874-876)ATC>ATA	p.I292I	AVIL_uc009zqe.1_Silent_p.I285I|AVIL_uc001sqk.1_5'Flank|AVIL_uc001sql.3_Silent_p.I269I	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	292	Gelsolin-like 3.|Core (By similarity).				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					TCCACACGTAGATTTTGGTTC	0.458													29	47					5.6714e-07	5.81298e-07	1	1	0		T	58203443	T	T	58203443	2	4	103	1	0	0	0	0	0	0	0	1	1228	932	33	5		5	AVIL	12	58203443	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	202383	58203443	75648452	1263	63212											
AVIL	10677	broad.mit.edu	37	chr12	58207051	58207051	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacggaaagtgtctgactcAtggtactggacctctcggtg	8	10	12	11	2	3	1	1	1	2	0	4	3	3	3	2	4	1	1	2	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:58207051A>G	uc001sqj.1	-	3	326	c.297T>C	c.(295-297)CAT>CAC	p.H99H	AVIL_uc009zqe.1_Silent_p.H92H|AVIL_uc001sql.3_Silent_p.H76H	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	99	Core (By similarity).				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					TGTCTGACTCATGGTACTGGA	0.463													52	76					0	0	1	0	0		G	58207051	G	G	58207051	2	3	103	1	0	0	0	0	0	0	0	1	1228	214	8	3		3	AVIL	12	58207051	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	3608	58207051	75644844	1264	63213											
AVPR1A	552	broad.mit.edu	37	chr12	63544421	63544421	+	Frame_Shift_Del	DEL	C	-	-																															tacgctgctgttgcccagcaCggccaccgcgaaagtcaccg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:63544421delC	uc001sro.1	-	1	2170	c.196delG	c.(196-198)GTGfs	p.V66fs		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	66	Helical; Name=1; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	TTGCCCAGCACGGCCACCGCG	0.687													25	32	---	---	---	---						.	-	63544421	-	-	63544421	7	5	103	1	0	1	0	1	0	0	0	0	1232	536	19	0	1068	0	AVPR1A	12	63544421	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	5337370	63544421	70307474	1265	63214											
WIF1	11197	broad.mit.edu	37	chr12	65514287	65514287	+	Frame_Shift_Del	DEL	A	-	-																															gcttttctgaaatcatgtgtAaaaggtgccattttcccctc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:65514287delA	uc001ssk.2	-	2	343	c.198delT	c.(196-198)TTTfs	p.F66fs		NM_007191	NP_009122	Q9Y5W5	WIF1_HUMAN	WNT inhibitory factor 1 precursor	66	WIF.				multicellular organismal development|Wnt receptor signaling pathway	extracellular region	protein tyrosine kinase activity			ovary(2)|lung(1)|skin(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0231)		AATCATGTGTAAAAGGTGCCA	0.383			T	HMGA2	pleomorphic salivary gland adenoma								32	58	---	---	---	---						.	-	65514287	-	-	65514287	7	5	103	1	0	1	0	1	0	0	0	0	17392	359	13	0	977	0	WIF1	12	65514287	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	1969866	65514287	68337608	1266	63215											
MSRB3	253827	broad.mit.edu	37	chr12	65762800	65762800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaaaccaaatttgactccGgttcaggtatgtttacatta	13	13	7	8	1	1	2	1	1	0	1	2	2	2	2	2	2	2	3	2	2	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:65762800G>A	uc001ssn.2	+	4	368	c.307G>A	c.(307-309)GGT>AGT	p.G103S	MSRB3_uc001ssm.2_Missense_Mutation_p.G96S|MSRB3_uc009zqp.2_Missense_Mutation_p.G96S	NM_198080	NP_932346	Q8IXL7	MSRB3_HUMAN	methionine sulfoxide reductase B3 isoform 1	103					protein repair	endoplasmic reticulum|mitochondrion	peptide-methionine-(S)-S-oxide reductase activity|protein-methionine-R-oxide reductase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.131)		ATTTGACTCCGGTTCAGGTAT	0.318													15	24					0	0	1	0	0		A	65762800	A	A	65762800	3	1	103	1	0	0	0	0	1	0	0	0	9907	1116	39	1	401	1	MSRB3	12	65762800	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	248513	65762800	68089095	1267	63216											
NUP107	57122	broad.mit.edu	37	chr12	69113183	69113183	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaacacttgaaggctggaaActgtaccatgaccctaatgt	13	9	9	10	0	0	2	0	2	0	0	0	3	0	3	2	2	3	3	2	2	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:69113183A>G	uc001suf.2	+	13	1261	c.1146A>G	c.(1144-1146)AAA>AAG	p.K382K	NUP107_uc001sug.2_Silent_p.K229K|NUP107_uc010stj.1_Silent_p.K353K	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	382					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			AAGGCTGGAAACTGTACCATG	0.418													18	43					0	0	1	0	0		G	69113183	G	G	69113183	2	3	103	1	0	0	0	0	0	0	0	1	10772	40	2	3		3	NUP107	12	69113183	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	3350383	69113183	64738712	1268	63217											
ZFC3H1	196441	broad.mit.edu	37	chr12	72013181	72013181	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatggaagaagattatcGcctcgattctattttaaaaa	18	12	6	5	2	1	2	0	0	1	2	3	4	1	3	1	1	0	0	1	1	9	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:72013181G>A	uc001swo.2	-	27	5417	c.5058C>T	c.(5056-5058)GGC>GGT	p.G1686G		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	1686					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						GAAGATTATCGCCTCGATTCT	0.343													20	24					0	0	1	0	0		A	72013181	A	A	72013181	2	1	103	1	0	0	0	0	0	0	0	1	17658	1074	38	1		1	ZFC3H1	12	72013181	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2899998	72013181	61838714	1269	63218											
TPH2	121278	broad.mit.edu	37	chr12	72425063	72425063	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttctgacaaggcatgtgTgaaagcctttgacccaaaga	12	10	9	10	0	1	4	0	3	1	1	1	4	1	4	3	1	1	1	3	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:72425063T>C	uc009zrw.1	+	10	1331	c.1190T>C	c.(1189-1191)GTG>GCG	p.V397A	TPH2_uc001swy.2_Missense_Mutation_p.V307A	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	397					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	AAGGCATGTGTGAAAGCCTTT	0.413													51	59					0	0	1	0	0		C	72425063	C	C	72425063	3	2	103	1	0	0	0	0	1	0	0	0	16428	1696	59	3	1228	3	TPH2	12	72425063	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	411882	72425063	61426832	1270	63219											
TRHDE	29953	broad.mit.edu	37	chr12	73014965	73014965	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttaatggatctcttgtTcaagcatcctaccaacatga	13	14	5	9	0	2	1	1	1	1	0	4	2	3	2	2	1	3	2	2	1	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:73014965T>A	uc001sxa.2	+	14	2442	c.2412T>A	c.(2410-2412)GTT>GTA	p.V804V		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	804	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						GATCTCTTGTTCAAGCATCCT	0.333													16	54					0	0	1	0	0		A	73014965	A	A	73014965	2	1	103	1	0	0	0	0	0	0	0	1	16505	1770	62	5		5	TRHDE	12	73014965	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	589902	73014965	60836930	1271	63220											
PPFIA2	8499	broad.mit.edu	37	chr12	81661753	81661753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gctgtagtcaaagttttcatCcagggctataagtgagccat	11	12	10	8	0	2	1	2	1	0	0	3	1	3	1	2	1	1	4	2	1	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:81661753C>T	uc001szo.1	-	29	3585	c.3424G>A	c.(3424-3426)GAT>AAT	p.D1142N	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	1041										ovary(3)|lung(2)|pancreas(1)	6						AAGTTTTCATCCAGGGCTATA	0.423													4	4					0	0	1	0	0		T	81661753	T	T	81661753	3	4	103	1	0	0	0	0	1	0	0	0	12329	855	30	4	365	4	PPFIA2	12	81661753	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	8646788	81661753	52190142	1272	63221											
ALX1	8092	broad.mit.edu	37	chr12	85674140	85674140	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggagcacgttatggagaCgctggacaatgagtcctttt	9	12	12	8	2	1	2	0	1	1	1	2	5	2	4	1	3	1	3	1	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:85674140C>T	uc001tae.3	+	1	105	c.101C>T	c.(100-102)ACG>ATG	p.T34M		NM_006982	NP_008913	Q15699	ALX1_HUMAN	cartilage paired-class homeoprotein 1	34					brain development|cartilage condensation|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(134;0.134)		GTTATGGAGACGCTGGACAAT	0.567													34	61					0	0	1	0	0		T	85674140	T	T	85674140	3	4	103	1	0	0	0	0	1	0	0	0	556	536	19	1	103	1	ALX1	12	85674140	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4012387	85674140	48177755	1273	63222											
LUM	4060	broad.mit.edu	37	chr12	91497971	91497971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgacttcgttagcaacacGtagacattcatacatatccg	13	11	7	10	3	1	2	1	1	0	1	3	2	2	2	1	0	3	3	1	0	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:91497971G>A	uc001tbm.2	-	3	1377	c.988C>T	c.(988-990)CGT>TGT	p.R330C	LUM_uc001tbn.2_RNA	NM_002345	NP_002336	P51884	LUM_HUMAN	lumican precursor	330					collagen fibril organization|visual perception	extracellular space|fibrillar collagen	collagen binding|extracellular matrix structural constituent			central_nervous_system(2)	2						TTAGCAACACGTAGACATTCA	0.383													24	55					0	0	1	0	0		A	91497971	A	A	91497971	3	1	103	1	0	0	0	0	1	0	0	0	9103	1145	40	1	32	1	LUM	12	91497971	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5823831	91497971	42353924	1274	63223											
EEA1	8411	broad.mit.edu	37	chr12	93206754	93206754	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaattgcatctgtttccctAcctgctgtttatcttgtaat	8	18	6	9	0	2	0	0	0	2	0	3	1	3	0	2	0	3	5	2	0	4	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:93206754A>G	uc001tck.2	-	16	2308	c.2043_splice	c.e16+1	p.Q681_splice		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD						early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						CTGTTTCCCTACCTGCTGTTT	0.353													26	46					0	0	1	0	0		G	93206754	G	G	93206754	5	3	103	1	0	0	0	0	0	0	1	0	4927	405	14	3	2246	3	EEA1	12	93206754	Splice_Site	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1708783	93206754	40645141	1275	63224											
EEA1	8411	broad.mit.edu	37	chr12	93213103	93213103	+	Frame_Shift_Del	DEL	T	-	-																															cttgctcctgtagtgtatggTttttttcttgtaactggtta																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:93213103delT	uc001tck.2	-	14	1974	c.1709delA	c.(1708-1710)AACfs	p.N570fs		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	570	Gln/Glu/Lys-rich.|Potential.				early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						TAGTGTATGGTTTTTTTCTTG	0.299													38	54	---	---	---	---						.	-	93213103	-	-	93213103	7	5	103	1	0	1	0	1	0	0	0	0	4927	1725	60	0	2590	0	EEA1	12	93213103	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	6349	93213103	40638792	1276	63225											
ELK3	2004	broad.mit.edu	37	chr12	96641143	96641143	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaggctgcggcggcgtcCgccttcctggcctcgtccgt	2	9	14	16	6	1	1	1	0	0	1	5	1	4	1	5	4	1	1	5	4	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:96641143C>T	uc001teo.1	+	3	912	c.633C>T	c.(631-633)TCC>TCT	p.S211S		NM_005230	NP_005221	P41970	ELK3_HUMAN	ELK3 protein	211	Poly-Ala.				negative regulation of transcription, DNA-dependent|signal transduction	mitochondrion	protein binding|purine-rich negative regulatory element binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	all_cancers(2;0.00173)					CGGCGGCGTCCGCCTTCCTGG	0.582													45	60					0	0	1	0	0		T	96641143	T	T	96641143	2	4	103	1	0	0	0	0	0	0	0	1	5068	639	23	1		1	ELK3	12	96641143	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3428040	96641143	37210752	1277	63226											
UTP20	27340	broad.mit.edu	37	chr12	101736357	101736357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcaagaaaattgctttgtaCggtttttgaggtctgtacta	10	16	10	5	1	2	2	1	1	1	1	2	2	2	2	0	2	3	4	0	2	6	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:101736357C>T	uc001tia.1	+	33	4391	c.4235C>T	c.(4234-4236)ACG>ATG	p.T1412M		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1412					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TTGCTTTGTACGGTTTTTGAG	0.338													13	13					0	0	1	0	0		T	101736357	T	T	101736357	3	4	103	1	0	0	0	0	1	0	0	0	17125	536	19	1	4365	1	UTP20	12	101736357	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	5095214	101736357	32115538	1278	63227											
STAB2	55576	broad.mit.edu	37	chr12	104139055	104139055	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcgtgtgacactcaggcaGgtcagtcatgggagtggtca	8	9	14	10	1	4	1	4	1	0	0	5	2	4	2	1	4	0	1	1	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:104139055G>T	uc001tjw.2	+	57	6322	c.6136G>T	c.(6136-6138)GTT>TTT	p.V2046F	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2046	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CACTCAGGCAGGTCAGTCATG	0.597													9	15					3.09899e-07	3.18111e-07	1	1	0		T	104139055	T	T	104139055	3	4	103	1	0	0	0	0	1	0	0	0	15263	1014	35	5	6362	5	STAB2	12	104139055	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2402698	104139055	29712840	1279	63228											
NUAK1	9891	broad.mit.edu	37	chr12	106461103	106461103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattactgtccaacagctccGaagactcactgcgctctggg	9	9	9	14	2	2	1	1	0	1	1	4	2	4	1	2	1	4	2	2	1	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:106461103G>A	uc001tlj.1	-	7	2843	c.1463C>T	c.(1462-1464)TCG>TTG	p.S488L		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	488							ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						CAACAGCTCCGAAGACTCACT	0.597													28	54					0	0	1	0	0		A	106461103	A	A	106461103	3	1	103	1	0	0	0	0	1	0	0	0	10731	1059	37	1	526	1	NUAK1	12	106461103	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2322048	106461103	27390792	1280	63229											
RIC8B	55188	broad.mit.edu	37	chr12	107237716	107237716	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgaaacatccgaaaatttctCaaagatcaggtaactgctta	16	10	6	9	2	2	1	2	0	1	1	4	3	3	1	1	1	3	2	1	1	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:107237716C>T	uc001tlx.2	+	6	1277	c.1152C>T	c.(1150-1152)CTC>CTT	p.L384L	RIC8B_uc001tlw.2_Silent_p.L384L|RIC8B_uc001tly.2_Silent_p.L344L|RIC8B_uc001tlz.2_RNA|RIC8B_uc009zur.2_RNA	NM_018157	NP_060627	Q9NVN3	RIC8B_HUMAN	resistance to inhibitors of cholinesterase 8	384					regulation of G-protein coupled receptor protein signaling pathway	cell cortex|cytosol|plasma membrane	G-protein alpha-subunit binding|guanyl-nucleotide exchange factor activity			ovary(1)	1						GAAAATTTCTCAAAGATCAGG	0.333													25	47					0	0	1	0	0		T	107237716	T	T	107237716	2	4	103	1	0	0	0	0	0	0	0	1	13381	813	29	4		4	RIC8B	12	107237716	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	776613	107237716	26614179	1281	63230											
FICD	11153	broad.mit.edu	37	chr12	108910878	108910878	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctggccctgctgctgccGctgggggctgtggaggagca	3	8	18	12	1	0	0	0	0	0	0	0	2	0	2	2	5	5	6	2	5	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:108910878G>A	uc001tmx.1	+	2	275	c.129G>A	c.(127-129)CCG>CCA	p.P43P		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	43	Helical; (Potential).				negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0						TGCTGCTGCCGCTGGGGGCTG	0.652													17	24					0	0	1	0	0		A	108910878	A	A	108910878	2	1	103	1	0	0	0	0	0	0	0	1	5901	1074	38	1		1	FICD	12	108910878	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1673162	108910878	24941017	1282	63231											
MYO1H	283446	broad.mit.edu	37	chr12	109839056	109839056	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactcgagcgagacccccaGctgtataaatacctctcaca	12	7	8	14	2	1	1	1	0	1	1	3	4	1	2	3	1	3	2	3	1	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:109839056G>A	uc010sxn.1	+	5	681	c.681G>A	c.(679-681)CAG>CAA	p.Q227Q		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						GAGACCCCCAGCTGTATAAAT	0.552													11	16					0	0	1	0	0		A	109839056	A	A	109839056	2	1	103	1	0	0	0	0	0	0	0	1	10093	962	34	2		2	MYO1H	12	109839056	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	928178	109839056	24012839	1283	63232											
ATXN2	6311	broad.mit.edu	37	chr12	111908405	111908405	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgaacaaggggctgatttGggaactgctgaggactgtag	10	9	16	6	0	0	3	0	3	0	0	0	5	0	5	0	4	3	4	0	4	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:111908405G>T	uc001tsj.2	-	19	3302	c.3140C>A	c.(3139-3141)CCA>CAA	p.P1047Q	ATXN2_uc001tsh.2_Missense_Mutation_p.P782Q|ATXN2_uc001tsi.2_Missense_Mutation_p.P758Q|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Missense_Mutation_p.P235Q|ATXN2_uc001tsl.1_Missense_Mutation_p.P66Q	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	1047	Pro-rich.				cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						GGGCTGATTTGGGAACTGCTG	0.483													37	68					6.48837e-15	6.87338e-15	1	1	0		T	111908405	T	T	111908405	3	4	103	1	0	0	0	0	1	0	0	0	1212	1348	47	5	829	5	ATXN2	12	111908405	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2069349	111908405	21943490	1284	63233											
TMEM116	89894	broad.mit.edu	37	chr12	112369427	112369427	+	Frame_Shift_Del	DEL	A	-	-																															tgttccagtattgtagtttcAaaaaatggtagaagtactgg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:112369427delA	uc001ttc.1	-	13	1392	c.736delT	c.(736-738)TGAfs	p.*246fs	TMEM116_uc001ttd.1_Frame_Shift_Del_p.*338fs|TMEM116_uc001tte.1_Frame_Shift_Del_p.*303fs|TMEM116_uc001ttf.1_Frame_Shift_Del_p.*246fs|TMEM116_uc001ttg.1_RNA|TMEM116_uc001tth.1_Frame_Shift_Del_p.*152fs	NM_138341	NP_612350	Q8NCL8	TM116_HUMAN	transmembrane protein 116	246						integral to membrane				ovary(1)	1						TTGTAGTTTCAAAAAATGGTA	0.393													41	43	---	---	---	---						.	-	112369427	-	-	112369427	7	5	103	1	0	1	0	1	0	0	0	0	16055	143	5	0	5	0	TMEM116	12	112369427	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	461022	112369427	21482468	1285	63234											
RPH3A	22895	broad.mit.edu	37	chr12	113328777	113328777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcacctggctgccatggacGctaatggctactcagaccca	9	8	10	14	1	1	1	1	0	0	1	1	2	1	2	3	3	3	4	3	3	2	2	rs140115309		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:113328777G>A	uc010syl.1	+	19	2106	c.1744G>A	c.(1744-1746)GCT>ACT	p.A582T	RPH3A_uc001ttz.2_Missense_Mutation_p.A582T|RPH3A_uc001tty.2_Missense_Mutation_p.A578T|RPH3A_uc009zwe.1_Missense_Mutation_p.A577T|RPH3A_uc010sym.1_Missense_Mutation_p.A533T|RPH3A_uc001tua.2_Missense_Mutation_p.A342T	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	582	C2 2.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		TGCCATGGACGCTAATGGCTA	0.577													13	20					0	0	1	0	0		A	113328777	A	A	113328777	3	1	103	1	0	0	0	0	1	0	0	0	13576	1087	38	1	1810	1	RPH3A	12	113328777	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	959350	113328777	20523118	1286	63235											
DTX1	1840	broad.mit.edu	37	chr12	113515236	113515236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcgagtacaggcaccatGcggcccgtgcggcgcaactt	8	8	12	13	5	0	0	0	0	0	0	1	1	0	0	2	3	4	3	2	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:113515236G>A	uc001tuk.1	+	2	603	c.267G>A	c.(265-267)ATG>ATA	p.M89I		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	89	WWE 1.				negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						CAGGCACCATGCGGCCCGTGC	0.697													20	30					0	0	1	0	0		A	113515236	A	A	113515236	3	1	103	1	0	0	0	0	1	0	0	0	4799	1319	46	2	273	2	DTX1	12	113515236	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	186459	113515236	20336659	1287	63236											
DDX54	79039	broad.mit.edu	37	chr12	113601049	113601049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgggtcctgaccgctgccGcttccggcccacgacctctg	3	9	12	17	4	1	1	0	1	1	0	3	2	3	1	6	2	1	3	6	2	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:113601049G>A	uc001tup.2	-	16	1997	c.1969C>T	c.(1969-1971)CGG>TGG	p.R657W	DDX54_uc001tuq.3_Missense_Mutation_p.R657W	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	657					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						GACCGCTGCCGCTTCCGGCCC	0.652													28	28					0	0	1	0	0		A	113601049	A	A	113601049	3	1	103	1	0	0	0	0	1	0	0	0	4375	1086	38	1	699	1	DDX54	12	113601049	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	85813	113601049	20250846	1288	63237											
DDX54	79039	broad.mit.edu	37	chr12	113603823	113603823	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacccgacccagcatgccatCcacaccggccacacctgcac	10	3	6	22	2	0	0	0	0	0	0	1	1	1	0	7	1	3	2	7	1	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:113603823C>A	uc001tup.2	-	13	1457	c.1429G>T	c.(1429-1431)GAT>TAT	p.D477Y	DDX54_uc001tuq.3_Missense_Mutation_p.D477Y	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	477					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						AGCATGCCATCCACACCGGCC	0.667													13	38					5.50884e-06	5.62949e-06	1	1	0		A	113603823	A	A	113603823	3	1	103	1	0	0	0	0	1	0	0	0	4375	855	30	5	1251	5	DDX54	12	113603823	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2774	113603823	20248072	1289	63238											
IQCD	115811	broad.mit.edu	37	chr12	113645772	113645772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgccacatacgacagcaagGtcaccagctccaccttgtag	12	7	8	14	1	1	0	1	0	0	0	2	1	2	0	4	1	4	3	4	1	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:113645772G>A	uc001tuv.1	-	2	622	c.200C>T	c.(199-201)ACC>ATC	p.T67I	IQCD_uc001tuu.2_Missense_Mutation_p.T67I	NM_138451	NP_612460	Q96DY2	IQCD_HUMAN	IQ motif containing D	67										ovary(1)	1						CGACAGCAAGGTCACCAGCTC	0.537													72	112					0	0	1	0	0		A	113645772	A	A	113645772	3	1	103	1	0	0	0	0	1	0	0	0	7821	1261	44	4	851	4	IQCD	12	113645772	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	41949	113645772	20206123	1290	63239											
MAP1LC3B2	643246	broad.mit.edu	37	chr12	117013778	117013778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaccttcaagcagcggCgcaccttcgaacaaagagta	15	5	10	11	3	1	3	1	0	0	3	2	4	1	3	2	1	3	3	2	1	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:117013778C>T	uc009zwk.1	+	2	185	c.31C>T	c.(31-33)CGC>TGC	p.R11C		NM_001085481	NP_001078950	A6NCE7	MP3B2_HUMAN	microtubule-associated protein 1 light chain 3	11					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule					0						CAAGCAGCGGCGCACCTTCGA	0.602													56	54					0	0	1	0	0		T	117013778	T	T	117013778	3	4	103	1	0	0	0	0	1	0	0	0	9250	768	27	1	33	1	MAP1LC3B2	12	117013778	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3368006	117013778	16838117	1291	63240											
NOS1	4842	broad.mit.edu	37	chr12	117672561	117672561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgcacgaagatagttgacCgactgcaggaaattgcagag	14	6	13	8	3	0	3	0	1	0	2	0	7	0	4	1	1	2	4	1	1	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:117672561C>T	uc001twm.1	-	21	3730	c.3044G>A	c.(3043-3045)CGG>CAG	p.R1015Q		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1015	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GATAGTTGACCGACTGCAGGA	0.478													7	9					0	0	1	0	0		T	117672561	T	T	117672561	3	4	103	1	0	0	0	0	1	0	0	0	10560	652	23	1	1296	1	NOS1	12	117672561	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	658783	117672561	16179334	1292	63241											
KSR2	283455	broad.mit.edu	37	chr12	118198971	118198971	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttcttcttcctcatgggCggcgtgcccggcggggtcac	2	12	14	13	4	4	0	2	0	2	0	5	0	5	0	2	5	1	1	2	5	0	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:118198971C>T	uc001two.2	-	4	799	c.744G>A	c.(742-744)CCG>CCA	p.P248P		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	277	Pro-rich.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCCTCATGGGCGGCGTGCCCG	0.701													96	148					0	0	1	0	0		T	118198971	T	T	118198971	2	4	103	1	0	0	0	0	0	0	0	1	8598	755	27	1		1	KSR2	12	118198971	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	526410	118198971	15652924	1293	63242											
CCDC60	160777	broad.mit.edu	37	chr12	119916943	119916943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacactgggagctagagtcaCacgtcgcccattcactccca	10	7	9	15	2	2	1	2	0	0	1	4	3	3	2	2	1	1	1	2	1	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:119916943C>T	uc001txe.2	+	4	851	c.386C>T	c.(385-387)ACA>ATA	p.T129I	uc001txf.2_Intron	NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60	129										ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		GCTAGAGTCACACGTCGCCCA	0.483													19	30					0	0	1	0	0		T	119916943	T	T	119916943	3	4	103	1	0	0	0	0	1	0	0	0	2834	478	17	4	400	4	CCDC60	12	119916943	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1717972	119916943	13934952	1294	63243											
GCN1L1	10985	broad.mit.edu	37	chr12	120576636	120576636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccttccttgccgtgggcaCgagggattcagagaaataca	11	8	12	10	2	1	1	1	0	0	1	2	4	2	2	3	2	3	1	3	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:120576636C>T	uc001txo.2	-	46	6032	c.6019G>A	c.(6019-6021)GTG>ATG	p.V2007M		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	2007	HEAT 17.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GCCGTGGGCACGAGGGATTCA	0.557													53	109					0	0	1	0	0		T	120576636	T	T	120576636	3	4	103	1	0	0	0	0	1	0	0	0	6314	536	19	1	2048	1	GCN1L1	12	120576636	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	659693	120576636	13275259	1295	63244											
SPPL3	121665	broad.mit.edu	37	chr12	121229361	121229361	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtccatattaagggacCtgtggaaaaaaattttgtag	16	11	9	5	0	0	0	0	0	0	0	1	2	1	2	2	2	0	1	2	2	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:121229361C>A	uc001tzd.2	-	3	583	c.102_splice	c.e3-1	p.R34_splice	SPPL3_uc009zwz.2_Splice_Site_p.R34_splice	NM_139015	NP_620584	Q8TCT6	PSL4_HUMAN	signal peptide peptidase 3							integral to membrane	aspartic-type endopeptidase activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ATTAAGGGACCTGTGGAAAAA	0.313													24	27					4.4004e-07	4.5125e-07	1	1	0		A	121229361	A	A	121229361	5	1	103	1	0	0	0	0	0	0	1	0	15115	695	24	5	1089	5	SPPL3	12	121229361	Splice_Site	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	652725	121229361	12622534	1296	63245											
RNF34	80196	broad.mit.edu	37	chr12	121868063	121868063	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcccctcccagagcccGccccgtatttacatacttat	7	12	4	18	2	1	1	0	0	1	1	4	1	3	1	6	0	3	1	6	0	4	5	rs111862260	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:121868063G>A	uc001uam.1	+	7	1404	c.1290G>A	c.(1288-1290)CCG>CCA	p.P430P	KDM2B_uc001uaq.2_Intron|KDM2B_uc010szy.1_3'UTR|KDM2B_uc001uar.2_Intron|KDM2B_uc001uas.2_Intron|KDM2B_uc001uat.2_3'UTR|KDM2B_uc001uau.2_3'UTR|KDM2B_uc001uao.2_Intron|KDM2B_uc010szx.1_3'UTR|KDM2B_uc001uap.2_Intron	NM_025126	NP_079402	Q969K3	RNF34_HUMAN	ring finger protein 34 isoform 2	Error:Variant_position_missing_in_Q969K3_after_alignment					apoptosis	endomembrane system|membrane|nuclear speck	ligase activity|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000432)|Epithelial(86;0.00233)		CCCAGAGCCCGCCCCGTATTT	0.443													30	43					0	0	1	0	0		A	121868063	A	A	121868063	2	1	103	1	0	0	0	0	0	0	0	1	13514	1102	38	1		1	RNF34	12	121868063	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	638702	121868063	11983832	1297	63246											
HPD	3242	broad.mit.edu	37	chr12	122295334	122295334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgctgcagtagaatgacGtggcctgaatcacagggttg	9	11	13	8	1	2	3	1	2	1	1	2	3	2	3	1	2	2	4	1	2	3	3	rs140596268		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:122295334G>A	uc001ubj.2	-	4	138	c.98C>T	c.(97-99)GCG>GTG	p.A33V	HPD_uc001ubk.2_Translation_Start_Site	NM_002150	NP_002141	P32754	HPPD_HUMAN	4-hydroxyphenylpyruvate dioxygenase	33					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	4-hydroxyphenylpyruvate dioxygenase activity|metal ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000105)|Epithelial(86;0.000352)|BRCA - Breast invasive adenocarcinoma(302;0.225)	Nitisinone(DB00348)	GTAGAATGACGTGGCCTGAAT	0.607													29	52					0	0	1	0	0		A	122295334	A	A	122295334	3	1	103	1	0	0	0	0	1	0	0	0	7348	1145	40	1	1127	1	HPD	12	122295334	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	427271	122295334	11556561	1298	63247											
WDR66	144406	broad.mit.edu	37	chr12	122439464	122439464	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgtttggcctgaatccCgagggatggaaatccgagcc	9	9	12	11	2	1	1	1	1	0	0	3	5	3	3	4	3	1	1	4	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:122439464C>T	uc009zxk.2	+	21	3439	c.3297C>T	c.(3295-3297)CCC>CCT	p.P1099P		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	1099							calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		GCCTGAATCCCGAGGGATGGA	0.498													42	53					0	0	1	0	0		T	122439464	T	T	122439464	2	4	103	1	0	0	0	0	0	0	0	1	17343	639	23	1		1	WDR66	12	122439464	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	144130	122439464	11412431	1299	63248											
GPR109B	8843	broad.mit.edu	37	chr12	123200619	123200619	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctctcttgatcttggcatgCcggtccatttgtctctgccg	3	15	10	13	2	3	1	0	1	3	0	6	1	4	1	3	2	2	2	3	2	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:123200619C>T	uc001ucy.3	-	1	821	c.666G>A	c.(664-666)CGG>CGA	p.R222R	GPR81_uc001ucw.1_Intron	NM_006018	NP_006009	P49019	HCAR3_HUMAN	G protein-coupled receptor 109B	222	Cytoplasmic (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	TCTTGGCATGCCGGTCCATTT	0.537													12	29					0	0	1	0	0		T	123200619	T	T	123200619	2	4	103	1	0	0	0	0	0	0	0	1	6641	726	26	2		2	GPR109B	12	123200619	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	761155	123200619	10651276	1300	63249											
GPR109B	8843	broad.mit.edu	37	chr12	123200736	123200736	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcgtgccaccggaaggtatgGcagatgctgaagctgatgca	10	8	14	9	2	0	3	0	2	0	1	1	4	0	4	2	3	4	5	2	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:123200736G>A	uc001ucy.3	-	1	704	c.549C>T	c.(547-549)TGC>TGT	p.C183C	GPR81_uc001ucw.1_Intron	NM_006018	NP_006009	P49019	HCAR3_HUMAN	G protein-coupled receptor 109B	183	Extracellular (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	GGAAGGTATGGCAGATGCTGA	0.537													20	26					0	0	1	0	0		A	123200736	A	A	123200736	2	1	103	1	0	0	0	0	0	0	0	1	6641	1195	42	2		2	GPR109B	12	123200736	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	117	123200736	10651159	1301	63250											
HIP1R	9026	broad.mit.edu	37	chr12	123334437	123334437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagggacatttgcatgacCgctacggacagctggtgaat	11	8	12	10	2	0	2	0	2	0	0	0	4	0	4	1	3	3	3	1	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:123334437C>T	uc001udj.1	+	5	432	c.373C>T	c.(373-375)CGC>TGC	p.R125C	HIP1R_uc001udg.1_Missense_Mutation_p.R113C|HIP1R_uc001udi.1_Missense_Mutation_p.R125C|HIP1R_uc001udh.2_Missense_Mutation_p.R125C	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	125	ENTH.				receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		TTTGCATGACCGCTACGGACA	0.587													8	41					0	0	1	0	0		T	123334437	T	T	123334437	3	4	103	1	0	0	0	0	1	0	0	0	7131	652	23	1	391	1	HIP1R	12	123334437	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	133701	123334437	10517458	1302	63251											
PITPNM2	57605	broad.mit.edu	37	chr12	123472180	123472180	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagccactcgcctgagggCggctgggtcatgatgtgcac	7	8	15	11	2	1	3	1	2	0	1	2	3	1	3	2	3	2	2	2	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:123472180C>T	uc001uej.1	-	21	3280	c.3141G>A	c.(3139-3141)CCG>CCA	p.P1047P	PITPNM2_uc001uek.1_Silent_p.P1041P	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	1047					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)		CGCCTGAGGGCGGCTGGGTCA	0.667													14	30					0	0	1	0	0		T	123472180	T	T	123472180	2	4	103	1	0	0	0	0	0	0	0	1	11970	755	27	1		1	PITPNM2	12	123472180	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	137743	123472180	10379715	1303	63252											
NCOR2	9612	broad.mit.edu	37	chr12	124826379	124826379	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccactcacctcggggaccCgcagcgtagttgagtgccag	8	6	12	15	3	1	1	1	1	0	0	2	2	1	2	4	2	2	3	4	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:124826379C>T	uc010tba.1	-	34	5319	c.5202G>A	c.(5200-5202)GCG>GCA	p.A1734A	NCOR2_uc010tay.1_Silent_p.A1733A|NCOR2_uc010taz.1_Silent_p.A1717A|NCOR2_uc010tbb.1_Silent_p.A1726A|NCOR2_uc010tbc.1_Silent_p.A1716A|NCOR2_uc010tax.1_5'Flank	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1734					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		CTCGGGGACCCGCAGCGTAGT	0.667													38	48					0	0	1	0	0		T	124826379	T	T	124826379	2	4	103	1	0	0	0	0	0	0	0	1	10255	639	23	1		1	NCOR2	12	124826379	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1354199	124826379	9025516	1304	63253											
FZD10	11211	broad.mit.edu	37	chr12	130647705	130647705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttgcacgagttcgcgcCgctggtggagtacggctgcc	5	8	15	13	5	0	0	0	0	0	0	1	2	0	1	3	3	3	6	3	3	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:130647705C>T	uc001uii.2	+	1	674	c.218C>T	c.(217-219)CCG>CTG	p.P73L	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	73	FZ.|Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		GAGTTCGCGCCGCTGGTGGAG	0.642													8	60					0	0	1	0	0		T	130647705	T	T	130647705	3	4	103	1	0	0	0	0	1	0	0	0	6143	652	23	1	220	1	FZD10	12	130647705	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	5821326	130647705	3204190	1305	63254											
RIMBP2	23504	broad.mit.edu	37	chr12	130926898	130926898	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccgccgggggctcccaGcccacaataacacttttggc	8	6	11	16	2	0	0	0	0	0	0	1	0	1	0	4	4	2	2	4	4	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:130926898G>A	uc001uil.2	-	8	1112	c.948C>T	c.(946-948)GGC>GGT	p.G316G	RIMBP2_uc001uim.2_Silent_p.G224G|RIMBP2_uc001uin.1_5'UTR	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	316	Fibronectin type-III 1.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		GGGGCTCCCAGCCCACAATAA	0.567													58	104					0	0	1	0	0		A	130926898	A	A	130926898	2	1	103	1	0	0	0	0	0	0	0	1	13388	958	34	2		2	RIMBP2	12	130926898	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	279193	130926898	2924997	1306	63255											
EP400	57634	broad.mit.edu	37	chr12	132445535	132445535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcatacattcaggtcaCgtcccccttgtcccagcagg	8	10	7	16	1	3	0	3	0	0	0	6	0	6	0	4	2	2	1	4	2	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:132445535C>T	uc001ujn.2	+	1	406	c.371C>T	c.(370-372)ACG>ATG	p.T124M	EP400_uc001ujl.2_Missense_Mutation_p.T124M|EP400_uc001ujm.2_Missense_Mutation_p.T124M|EP400_uc001ujj.1_Missense_Mutation_p.T124M|EP400_uc001ujk.2_Missense_Mutation_p.T124M	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	124					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		ATTCAGGTCACGTCCCCCTTG	0.672													9	10					0	0	1	0	0		T	132445535	T	T	132445535	3	4	103	1	0	0	0	0	1	0	0	0	5157	536	19	1	373	1	EP400	12	132445535	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1518637	132445535	1406360	1307	63256											
GOLGA3	2802	broad.mit.edu	37	chr12	133362988	133362988	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggcccagctccgcgtcCgcagcctccttggccgcgag	4	6	13	18	5	0	0	0	0	0	0	3	1	3	0	6	2	3	3	6	2	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr12:133362988C>T	uc001ukz.1	-	15	3619	c.3060G>A	c.(3058-3060)GCG>GCA	p.A1020A	GOLGA3_uc001ula.1_Silent_p.A1020A|GOLGA3_uc001ulb.2_Silent_p.A1020A	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1020	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GCTCCGCGTCCGCAGCCTCCT	0.667													13	21					0	0	1	0	0		T	133362988	T	T	133362988	2	4	103	1	0	0	0	0	0	0	0	1	6569	639	23	1		1	GOLGA3	12	133362988	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	917453	133362988	488907	1308	63257											
MPHOSPH8	54737	broad.mit.edu	37	chr13	20235838	20235838	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tatttaacaaaccaacacagGattccagtggaatgacactg	16	9	7	9	0	0	1	0	1	0	0	1	3	1	3	2	2	3	0	2	2	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:20235838G>A	uc001umh.2	+	8	1801	c.1792G>A	c.(1792-1794)GAT>AAT	p.D598N	MPHOSPH8_uc001umg.2_Missense_Mutation_p.D598N	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	598					cell cycle	cytoplasm|nucleus					0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		ACCAACACAGGATTCCAGTGG	0.463													65	113					0	0	1	0	0		A	20235838	A	A	20235838	3	1	103	1	0	0	0	0	1	0	0	0	9745	1188	41	4	1822	4	MPHOSPH8	13	20235838	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08		20235838	94934040	1309	63258											
ZMYM2	7750	broad.mit.edu	37	chr13	20657094	20657094	+	Frame_Shift_Del	DEL	A	-	-																															gcactgtgtttaggcattggAaaaaaaatcctttaacgatg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:20657094delA	uc001umr.2	+	24	4040	c.3742delA	c.(3742-3744)AAAfs	p.K1248fs	ZMYM2_uc001ums.2_Frame_Shift_Del_p.K1248fs|ZMYM2_uc001umt.2_Frame_Shift_Del_p.K1248fs|ZMYM2_uc001umv.2_Frame_Shift_Del_p.K628fs|ZMYM2_uc001umw.2_Frame_Shift_Del_p.K701fs	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	1248					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		TAGGCATTGGAAAAAAAATCC	0.363													22	35	---	---	---	---						.	-	20657094	-	-	20657094	7	5	103	1	0	1	0	1	0	0	0	0	17725	247	9	0	3824	0	ZMYM2	13	20657094	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	421256	20657094	94512784	1310	63259											
SACS	26278	broad.mit.edu	37	chr13	23905080	23905080	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgcttgctccaccacaGatgtcacttcttttaagatt	9	15	5	12	0	2	2	1	0	1	2	4	2	4	2	3	0	2	2	3	0	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:23905080G>T	uc001uon.2	-	10	13524	c.12935C>A	c.(12934-12936)TCT>TAT	p.S4312Y	SACS_uc001uoo.2_Missense_Mutation_p.S4165Y|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	4312	J.				cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CTCCACCACAGATGTCACTTC	0.403													58	105					2.3441e-25	2.52621e-25	1	1	0		T	23905080	T	T	23905080	3	4	103	1	0	0	0	0	1	0	0	0	13829	942	33	5	808	5	SACS	13	23905080	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3247986	23905080	91264798	1311	63260											
C1QTNF9	338872	broad.mit.edu	37	chr13	24892996	24892996	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcccggggaaggatgggacGagtggagagaagggagaacg	13	2	21	5	3	0	2	0	0	0	2	0	9	0	6	1	6	2	0	1	6	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:24892996G>A	uc001upj.2	+	3	268	c.207G>A	c.(205-207)ACG>ACA	p.T69T	C1QTNF9_uc001upe.2_RNA	NM_178540	NP_848635	P0C862	C1T9A_HUMAN	C1q and tumor necrosis factor related protein 9	69	Collagen-like 1.					collagen	hormone activity				0		all_cancers(29;3.55e-20)|all_epithelial(30;4.25e-17)|all_lung(29;1.04e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.00565)|Epithelial(112;0.027)|OV - Ovarian serous cystadenocarcinoma(117;0.115)|Lung(94;0.159)		AGGATGGGACGAGTGGAGAGA	0.463													24	49					0	0	1	0	0		A	24892996	A	A	24892996	2	1	103	1	0	0	0	0	0	0	0	1	1973	1045	37	1		1	C1QTNF9	13	24892996	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	987916	24892996	90276882	1312	63261											
PARP4	143	broad.mit.edu	37	chr13	25030482	25030482	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtaaaaaggagtatacctcGctttctttttctggatgttt	10	17	8	6	1	2	0	0	0	2	0	3	2	2	2	1	2	1	4	1	2	5	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:25030482G>A	uc001upl.2	-	21	2665	c.2559C>T	c.(2557-2559)AGC>AGT	p.S853S	PARP4_uc010tdc.1_Silent_p.S853S	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	853					cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		AGTATACCTCGCTTTCTTTTT	0.383													18	49					0	0	1	0	0		A	25030482	A	A	25030482	2	1	103	1	0	0	0	0	0	0	0	1	11482	1078	38	1		1	PARP4	13	25030482	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	137486	25030482	90139396	1313	63262											
FAM123A	219287	broad.mit.edu	37	chr13	25745243	25745243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcccttgccgttttccgagCgcccgttcttcttcagcagc	3	13	8	17	4	3	0	1	0	2	0	5	1	5	0	4	0	4	3	4	0	0	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:25745243C>T	uc001uqb.2	-	1	615	c.515G>A	c.(514-516)CGC>CAC	p.R172H	FAM123A_uc001uqa.2_Missense_Mutation_p.R172H|FAM123A_uc001uqc.2_Missense_Mutation_p.R172H	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	172										ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		GTTTTCCGAGCGCCCGTTCTT	0.706													5	38					0	0	1	0	0		T	25745243	T	T	25745243	3	4	103	1	0	0	0	0	1	0	0	0	5433	768	27	1	1504	1	FAM123A	13	25745243	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	714761	25745243	89424635	1314	63263											
ATP8A2	51761	broad.mit.edu	37	chr13	26117431	26117431	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgttttttatttttagccTtgttgcccttgggcctgacc	3	20	9	9	0	0	1	0	1	0	0	0	1	0	1	4	1	2	3	4	1	2	10			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:26117431T>C	uc001uqk.2	+	10	924	c.782T>C	c.(781-783)CTT>CCT	p.L261P	ATP8A2_uc010tdi.1_Missense_Mutation_p.L221P|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc001uql.1_Missense_Mutation_p.L221P	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	221	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		ATTTTTAGCCTTGTTGCCCTT	0.363													30	57					0	0	1	0	0		C	26117431	C	C	26117431	3	2	103	1	0	0	0	0	1	0	0	0	1194	1609	56	3	820	3	ATP8A2	13	26117431	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	372188	26117431	89052447	1315	63264											
ATP8A2	51761	broad.mit.edu	37	chr13	26153014	26153014	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggaggaaacattatgccAtctggaatactttgccacgg	12	11	10	8	1	1	0	0	0	1	0	1	3	1	3	2	4	4	0	2	4	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:26153014A>C	uc001uqk.2	+	21	1986	c.1844A>C	c.(1843-1845)CAT>CCT	p.H615P	ATP8A2_uc010tdi.1_Missense_Mutation_p.H575P|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.H125P	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	575	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		ACATTATGCCATCTGGAATAC	0.388													16	37					0	0	1	0	0		C	26153014	C	C	26153014	3	2	103	1	0	0	0	0	1	0	0	0	1194	217	8	5	1926	5	ATP8A2	13	26153014	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	35583	26153014	89016864	1316	63265											
GPR12	2835	broad.mit.edu	37	chr13	27332975	27332975	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgctacacatcactgggCgagcgcgctctctgggcgag	6	7	16	12	4	2	0	1	0	1	0	3	2	2	0	0	3	3	2	0	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:27332975C>T	uc010aal.2	-	2	1212	c.990G>A	c.(988-990)TCG>TCA	p.S330S	GPR12_uc010tdl.1_Silent_p.S171S	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	330	Cytoplasmic (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		CATCACTGGGCGAGCGCGCTC	0.542													17	31					0	0	1	0	0		T	27332975	T	T	27332975	2	4	103	1	0	0	0	0	0	0	0	1	6650	755	27	1		1	GPR12	13	27332975	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1179961	27332975	87836903	1317	63266											
USP12	219333	broad.mit.edu	37	chr13	27645266	27645266	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactcttaactattgcaataTaatggcctcgattgggacca	12	12	8	9	1	1	0	0	0	1	0	2	3	1	1	2	2	2	1	2	2	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:27645266T>C	uc001uqy.2	-	8	1206	c.953A>G	c.(952-954)TAT>TGT	p.Y318C		NM_182488	NP_872294	O75317	UBP12_HUMAN	ubiquitin thiolesterase 12	318					protein deubiquitination|ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)	1		Lung SC(185;0.0161)		all cancers(112;0.0508)|GBM - Glioblastoma multiforme(144;0.168)|Epithelial(112;0.244)|OV - Ovarian serous cystadenocarcinoma(117;0.246)		TATTGCAATATAATGGCCTCG	0.274													22	31					0	0	1	0	0		C	27645266	C	C	27645266	3	2	103	1	0	0	0	0	1	0	0	0	17069	1406	49	3	167	3	USP12	13	27645266	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	312291	27645266	87524612	1318	63267											
SLC46A3	283537	broad.mit.edu	37	chr13	29292078	29292078	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcgttgtcagtggaccggTcaaagtcatagcaaatgcac	11	10	11	9	2	3	0	3	0	0	0	3	1	3	1	1	2	3	3	1	2	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:29292078T>C	uc001usi.2	-	1	1028	c.58A>G	c.(58-60)ACC>GCC	p.T20A	SLC46A3_uc001usg.2_5'Flank|SLC46A3_uc001usj.2_Missense_Mutation_p.T20A|SLC46A3_uc001ush.2_Missense_Mutation_p.T20A|SLC46A3_uc001usk.2_5'Flank	NM_181785	NP_861450	Q7Z3Q1	S46A3_HUMAN	solute carrier family 46, member 3 isoform a	20					transmembrane transport	integral to membrane				central_nervous_system(1)|skin(1)	2		Lung SC(185;0.0367)		all cancers(112;0.159)		AGTGGACCGGTCAAAGTCATA	0.368													30	46					0	0	1	0	0		C	29292078	C	C	29292078	3	2	103	1	0	0	0	0	1	0	0	0	14671	1667	58	3	1361	3	SLC46A3	13	29292078	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1646812	29292078	85877800	1319	63268											
C13orf33	84935	broad.mit.edu	37	chr13	31480852	31480852	+	Frame_Shift_Del	DEL	G	-	-																															cggggagccggcggcggcgcGggggggcttcaacgtcttcg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:31480852delG	uc001uth.3	+	1	541	c.200delG	c.(199-201)CGGfs	p.R67fs	uc001utg.1_Intron	NM_032849	NP_116238	Q5VYS4	CM033_HUMAN	hypothetical protein LOC84935	67											0		Lung SC(185;0.0281)		all cancers(112;0.00914)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.0559)|GBM - Glioblastoma multiforme(144;0.244)		gcggcggcgcgggggggcTTC	0.582													8	8	---	---	---	---						.	-	31480852	-	-	31480852	7	5	103	1	0	1	0	1	0	0	0	0	1730	1116	39	0	202	0	C13orf33	13	31480852	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	2188774	31480852	83689026	1320	63269											
SPG20	23111	broad.mit.edu	37	chr13	36888472	36888472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttcttctggttgaatccGctctcggagtttagaagcac	7	16	9	9	2	3	2	0	1	3	1	5	3	4	3	1	2	1	4	1	2	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:36888472G>A	uc001uvn.2	-	7	1645	c.1375C>T	c.(1375-1377)CGG>TGG	p.R459W	SPG20_uc010ten.1_Missense_Mutation_p.R449W|SPG20_uc001uvm.2_Missense_Mutation_p.R459W|SPG20_uc001uvo.2_Missense_Mutation_p.R459W|SPG20_uc001uvq.2_Missense_Mutation_p.R459W	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	459					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		GGTTGAATCCGCTCTCGGAGT	0.458													35	77					0	0	1	0	0		A	36888472	A	A	36888472	3	1	103	1	0	0	0	0	1	0	0	0	15067	1086	38	1	641	1	SPG20	13	36888472	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5407620	36888472	78281406	1321	63270											
SMAD9	4093	broad.mit.edu	37	chr13	37427804	37427804	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctcccccgacgtagtacaAgtgcacacctgcagacacaa	12	6	7	16	2	1	1	0	0	1	1	2	2	1	1	3	0	3	4	3	0	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:37427804A>C	uc001uvw.2	-	6	1355	c.1012T>G	c.(1012-1014)TTG>GTG	p.L338V	SMAD9_uc001uvx.2_Missense_Mutation_p.L301V|SMAD9_uc010tep.1_Missense_Mutation_p.L131V	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	338	MH2.				BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		ACGTAGTACAAGTGCACACCT	0.542													12	34					0	0	1	0	0		C	37427804	C	C	37427804	3	2	103	1	0	0	0	0	1	0	0	0	14789	69	3	5	399	5	SMAD9	13	37427804	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	539332	37427804	77742074	1322	63271											
POSTN	10631	broad.mit.edu	37	chr13	38171373	38171373	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcttacaagtgctgaagtAtttctttttggtgcccaaaa	10	16	8	7	0	2	1	0	1	2	0	2	1	2	1	1	1	3	3	1	1	6	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:38171373A>T	uc001uwo.3	-	2	284	c.166T>A	c.(166-168)TAC>AAC	p.Y56N	POSTN_uc001uwp.3_Missense_Mutation_p.Y56N|POSTN_uc001uwr.2_Missense_Mutation_p.Y56N|POSTN_uc001uwq.2_Missense_Mutation_p.Y56N|POSTN_uc010teu.1_Missense_Mutation_p.Y56N|POSTN_uc010tev.1_Missense_Mutation_p.Y56N|POSTN_uc010tew.1_Missense_Mutation_p.Y56N|POSTN_uc010tex.1_5'UTR	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	56	EMI.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		GTGCTGAAGTATTTCTTTTTG	0.353													19	33					0	0	1	0	0		T	38171373	T	T	38171373	3	4	103	1	0	0	0	0	1	0	0	0	12278	449	16	5	2432	5	POSTN	13	38171373	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	743569	38171373	76998505	1323	63272											
C13orf23	80209	broad.mit.edu	37	chr13	39586971	39586971	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagggcgcctgcagccccggGaatgagggaagagcaggggt	9	3	20	9	2	0	2	0	1	0	1	0	5	0	4	3	5	3	2	3	5	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:39586971G>A	uc001uwy.2	-	11	3291	c.2418C>T	c.(2416-2418)TTC>TTT	p.F806F	C13orf23_uc001uwz.2_Silent_p.F784F	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	806										ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		GCAGCCCCGGGAATGAGGGAA	0.567													9	106					0	0	1	0	0		A	39586971	A	A	39586971	2	1	103	1	0	0	0	0	0	0	0	1	1724	1165	41	4		4	C13orf23	13	39586971	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1415598	39586971	75582907	1324	63273											
COG6	57511	broad.mit.edu	37	chr13	40273702	40273702	+	Frame_Shift_Del	DEL	A	-	-																															aagaaatgcatttgctaagcAaaaaaatattcttcaatagc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:40273702delA	uc001uxh.2	+	13	1331	c.1231delA	c.(1231-1233)AAAfs	p.K411fs	COG6_uc001uxi.2_Frame_Shift_Del_p.K359fs|COG6_uc010acb.2_Frame_Shift_Del_p.K411fs	NM_020751	NP_065802	Q9Y2V7	COG6_HUMAN	component of oligomeric golgi complex 6 isoform	411					protein transport	Golgi membrane|Golgi transport complex				kidney(1)|skin(1)	2		Lung NSC(96;0.000124)|Breast(139;0.0199)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.03e-09)|Epithelial(112;7e-07)|OV - Ovarian serous cystadenocarcinoma(117;0.00015)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.0168)		TTTGCTAAGCAAAAAAATATT	0.289													13	23	---	---	---	---						.	-	40273702	-	-	40273702	7	5	103	1	0	1	0	1	0	0	0	0	3665	131	5	0	1281	0	COG6	13	40273702	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	686731	40273702	74896176	1325	63274											
MTRF1	9617	broad.mit.edu	37	chr13	41834765	41834765	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcattcacagggatatgctgCagacattgctcaagtgtttg	10	13	10	8	0	3	1	3	0	0	1	3	2	3	2	0	1	3	4	0	1	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:41834765C>T	uc001uxx.2	-	4	749	c.279G>A	c.(277-279)CTG>CTA	p.L93L	MTRF1_uc001uxy.2_Silent_p.L93L|MTRF1_uc001uxz.2_5'UTR|MTRF1_uc010tff.1_Silent_p.L106L|MTRF1_uc001uyc.1_Silent_p.L93L	NM_004294	NP_004285	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	93					regulation of translational termination	mitochondrion	translation release factor activity, codon specific				0		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)		GGATATGCTGCAGACATTGCT	0.448													77	150					0	0	1	0	0		T	41834765	T	T	41834765	2	4	103	1	0	0	0	0	0	0	0	1	9977	697	25	2		2	MTRF1	13	41834765	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1561063	41834765	73335113	1326	63275											
TNFSF11	8600	broad.mit.edu	37	chr13	43174915	43174915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacatatcgttggatcacagCacatcagagcagagaaaggt	16	7	10	8	1	2	2	2	0	0	2	3	4	2	3	0	2	3	3	0	2	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:43174915C>T	uc001uyu.2	+	3	564	c.415C>T	c.(415-417)CAC>TAC	p.H139Y	TNFSF11_uc001uyt.2_Missense_Mutation_p.H66Y	NM_003701	NP_003692	O14788	TNF11_HUMAN	tumor necrosis factor ligand superfamily, member	139	Extracellular (Potential).	Cleavage (By similarity).			immune response|monocyte chemotaxis|osteoclast differentiation|positive regulation of bone resorption|positive regulation of corticotropin-releasing hormone secretion|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of homotypic cell-cell adhesion|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell activation	cytoplasm|extracellular space|integral to plasma membrane	cytokine activity|receptor activity|tumor necrosis factor receptor binding				0		Lung NSC(96;1.11e-05)|Breast(139;0.00868)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000249)|GBM - Glioblastoma multiforme(144;0.00119)|BRCA - Breast invasive adenocarcinoma(63;0.073)		TGGATCACAGCACATCAGAGC	0.333													20	36					0	0	1	0	0		T	43174915	T	T	43174915	3	4	103	1	0	0	0	0	1	0	0	0	16327	710	25	2	425	2	TNFSF11	13	43174915	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1340150	43174915	71994963	1327	63276											
NUFIP1	26747	broad.mit.edu	37	chr13	45563529	45563529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagctcgggagacgcatGccacccgataggagtctcga	10	6	13	12	4	2	1	1	0	1	1	4	5	2	2	2	2	2	2	2	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:45563529G>A	uc001uzp.2	-	1	85	c.43C>T	c.(43-45)CAT>TAT	p.H15Y	KIAA1704_uc010tfo.1_5'Flank|KIAA1704_uc001uzq.2_5'Flank|KIAA1704_uc001uzr.1_5'Flank|KIAA1704_uc001uzs.2_5'Flank	NM_012345	NP_036477	Q9UHK0	NUFP1_HUMAN	nuclear fragile X mental retardation protein	15					box C/D snoRNP assembly|positive regulation of transcription from RNA polymerase II promoter|RNA processing	actin cytoskeleton|cytosolic ribosome|nuclear matrix|nucleolus|perichromatin fibrils|pre-snoRNP complex|presynaptic active zone|transcription elongation factor complex	DNA binding|identical protein binding|protein binding, bridging|RNA binding|zinc ion binding				0		Lung NSC(96;8.23e-05)|Breast(139;0.00378)|Prostate(109;0.0107)|all_hematologic(4;0.014)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)|Acute lymphoblastic leukemia(4;0.143)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000306)|BRCA - Breast invasive adenocarcinoma(63;0.125)		GGAGACGCATGCCACCCGATA	0.637													4	11					0	0	1	0	0		A	45563529	A	A	45563529	3	1	103	1	0	0	0	0	1	0	0	0	10767	1319	46	2	1484	2	NUFIP1	13	45563529	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2388614	45563529	69606349	1328	63277											
SIAH3	283514	broad.mit.edu	37	chr13	46358084	46358084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgggggtgggcgtggtggcGgaggtggtggtggtggcggt	1	9	28	3	3	0	0	0	0	0	0	0	1	0	1	0	12	0	0	0	12	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:46358084G>A	uc001vap.2	-	2	326	c.244C>T	c.(244-246)CGC>TGC	p.R82C		NM_198849	NP_942146	Q8IW03	SIAH3_HUMAN	seven in absentia homolog 3	82	SIAH-type; degenerate.|His-rich.				multicellular organismal development|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding			ovary(1)|skin(1)	2						gcgtggtggcggaggtggtgg	0.428													20	20					0	0	1	0	0		A	46358084	A	A	46358084	3	1	103	1	0	0	0	0	1	0	0	0	14326	1116	39	1	569	1	SIAH3	13	46358084	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	794555	46358084	68811794	1329	63278											
C13orf18	80183	broad.mit.edu	37	chr13	46917563	46917563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttccagaagttttctcctcGctgtgatcctcgcacaccgg	6	13	8	14	3	1	2	0	1	1	1	6	2	3	2	4	1	0	3	4	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:46917563G>A	uc010acl.2	-	15	2551	c.1946C>T	c.(1945-1947)GCG>GTG	p.A649V	C13orf18_uc010tfy.1_Missense_Mutation_p.A172V|C13orf18_uc001vbf.3_Missense_Mutation_p.A582V|C13orf18_uc001vbg.3_Missense_Mutation_p.A377V|C13orf18_uc010tfz.1_Missense_Mutation_p.A492V|C13orf18_uc010acm.2_Missense_Mutation_p.A514V|C13orf18_uc010acn.2_Missense_Mutation_p.A434V|C13orf18_uc001vbe.3_Nonsense_Mutation_p.R598*|C13orf18_uc001vbh.3_Missense_Mutation_p.A649V|C13orf18_uc001vbi.3_Missense_Mutation_p.A492V	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	649											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		TTTTCTCCTCGCTGTGATCCT	0.517													16	32					0	0	1	0	0		A	46917563	A	A	46917563	3	1	103	1	0	0	0	0	1	0	0	0	1723	1087	38	1	46	1	C13orf18	13	46917563	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	559479	46917563	68252315	1330	63279											
HTR2A	3356	broad.mit.edu	37	chr13	47469818	47469818	+	Frame_Shift_Del	DEL	T	-	-																															ctgtcagtaaagcagaccagTttttttcctggagatgaagt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:47469818delT	uc001vbq.2	-	1	358	c.224delA	c.(223-225)AACfs	p.N75fs	HTR2A_uc001vbr.2_Intron|HTR2A_uc010acr.2_Frame_Shift_Del_p.N75fs	NM_000621	NP_000612	P28223	5HT2A_HUMAN	5-hydroxytryptamine receptor 2A isoform 1	75	Extracellular (By similarity).				ERK1 and ERK2 cascade|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	integral to plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|serotonin binding|serotonin receptor activity			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		all_lung(13;7.2e-10)|Lung NSC(96;3.77e-07)|Breast(56;2.06e-05)|Prostate(109;0.00116)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Myeloproliferative disorder(33;0.0333)		GBM - Glioblastoma multiforme(144;4.67e-05)|COAD - Colon adenocarcinoma(199;0.224)	Aripiprazole(DB01238)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cisapride(DB00604)|Clomipramine(DB01242)|Clozapine(DB00363)|Cyclobenzaprine(DB00924)|Cyproheptadine(DB00434)|Dihydroergotamine(DB00320)|Donepezil(DB00843)|Epinastine(DB00751)|Ergotamine(DB00696)|Fluvoxamine(DB00176)|Mesoridazine(DB00933)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Olanzapine(DB00334)|Paliperidone(DB01267)|Paroxetine(DB00715)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	AGCAGACCAGTTTTTTTCCTG	0.458													32	46	---	---	---	---						.	-	47469818	-	-	47469818	7	5	103	1	0	1	0	1	0	0	0	0	7457	1725	60	0	1203	0	HTR2A	13	47469818	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	552255	47469818	67700060	1331	63280											
RCBTB2	1102	broad.mit.edu	37	chr13	49085916	49085916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacgtaccctctggacaCggatgccttgcaaagctgcc	8	8	12	13	2	1	0	0	0	1	0	1	3	1	3	3	3	5	3	3	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:49085916C>T	uc001vch.2	-	9	1144	c.773G>A	c.(772-774)CGT>CAT	p.R258H	RCBTB2_uc010tgg.1_Missense_Mutation_p.R263H|RCBTB2_uc001vci.2_Missense_Mutation_p.R234H|RCBTB2_uc010tgh.1_Missense_Mutation_p.V32M|RCBTB2_uc001vcj.2_Missense_Mutation_p.R262H|RCBTB2_uc010acv.1_RNA|RCBTB2_uc010tgi.1_Missense_Mutation_p.R234H	NM_001268	NP_001259	O95199	RCBT2_HUMAN	regulator of chromosome condensation and BTB	258	RCC1 4.						Ran guanyl-nucleotide exchange factor activity			ovary(2)|lung(2)|skin(1)	5		all_cancers(8;4.86e-71)|all_epithelial(8;2.11e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;2.3e-10)|Lung NSC(96;1.07e-07)|Breast(56;1.53e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.00826)|Myeloproliferative disorder(33;0.0179)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(99;1.8e-09)|LUSC - Lung squamous cell carcinoma(3;0.116)		CCTCTGGACACGGATGCCTTG	0.493													17	30					0	0	1	0	0		T	49085916	T	T	49085916	3	4	103	1	0	0	0	0	1	0	0	0	13197	536	19	1	910	1	RCBTB2	13	49085916	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1616098	49085916	66083962	1332	63281											
FNDC3A	22862	broad.mit.edu	37	chr13	49781277	49781277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcagctgaactgtgaatatCgcttccgtgtatgtgccatt	8	15	9	9	2	1	2	1	2	0	0	3	2	2	2	2	0	3	3	2	0	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:49781277C>T	uc001vcm.2	+	26	3648	c.3343C>T	c.(3343-3345)CGC>TGC	p.R1115C	FNDC3A_uc001vcn.2_Missense_Mutation_p.R1115C|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcq.2_Missense_Mutation_p.R1059C	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	1115	Fibronectin type-III 9.					Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		CTGTGAATATCGCTTCCGTGT	0.488													32	61					0	0	1	0	0		T	49781277	T	T	49781277	3	4	103	1	0	0	0	0	1	0	0	0	5983	884	31	1	3452	1	FNDC3A	13	49781277	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	695361	49781277	65388601	1333	63282											
CAB39L	81617	broad.mit.edu	37	chr13	49933960	49933960	+	Frame_Shift_Del	DEL	T	-	-																															ttaaatatctgggtcacatcTttttttccctgttaaagaaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:49933960delT	uc001vcw.2	-	4	783	c.285delA	c.(283-285)AAAfs	p.K95fs	CAB39L_uc001vcx.2_Frame_Shift_Del_p.K95fs|CAB39L_uc010adf.2_Frame_Shift_Del_p.K92fs	NM_030925	NP_112187	Q9H9S4	CB39L_HUMAN	calcium binding protein 39-like	95					cell cycle arrest|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol	protein binding				0		Lung NSC(96;2.11e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.66e-09)|COAD - Colon adenocarcinoma(199;0.226)		GGGTCACATCTTTTTTTCCCT	0.274													16	37	---	---	---	---						.	-	49933960	-	-	49933960	7	5	103	1	0	1	0	1	0	0	0	0	2529	1606	56	0	752	0	CAB39L	13	49933960	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	152683	49933960	65235918	1334	63283											
KPNA3	3839	broad.mit.edu	37	chr13	50296165	50296165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgacccatgtgacgttccGaaggaaggtgatggggatgg	11	8	16	6	2	0	3	0	3	0	0	1	6	1	5	2	5	0	1	2	5	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:50296165G>A	uc001vdj.2	-	9	1067	c.652C>T	c.(652-654)CGG>TGG	p.R218W		NM_002267	NP_002258	O00505	IMA3_HUMAN	karyopherin alpha 3	218	NLS binding site (major) (By similarity).|ARM 4.				interspecies interaction between organisms|NLS-bearing substrate import into nucleus|protein complex assembly	cytoplasm|nuclear pore	nuclear localization sequence binding|protein transporter activity				0		Lung NSC(96;2.46e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.42e-09)		GTGACGTTCCGAAGGAAGGTG	0.478													27	50					0	0	1	0	0		A	50296165	A	A	50296165	3	1	103	1	0	0	0	0	1	0	0	0	8447	1057	37	1	949	1	KPNA3	13	50296165	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	362205	50296165	64873713	1335	63284											
CCDC70	83446	broad.mit.edu	37	chr13	52439720	52439720	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggacttcagggaagagaTgtggactttccgaggcaaga	13	7	15	6	1	1	3	1	0	0	3	2	8	2	6	1	4	0	1	1	4	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:52439720T>C	uc001vfu.3	+	2	502	c.206T>C	c.(205-207)ATG>ACG	p.M69T	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	69						extracellular region|plasma membrane					0		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)		AGGGAAGAGATGTGGACTTTC	0.463													28	52					0	0	1	0	0		C	52439720	C	C	52439720	3	2	103	1	0	0	0	0	1	0	0	0	2846	1464	51	3	208	3	CCDC70	13	52439720	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2143555	52439720	62730158	1336	63285											
ATP7B	540	broad.mit.edu	37	chr13	52513215	52513215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatagctctggctgtcttcCggttgtcccccgtgatcaga	6	12	10	13	2	3	2	1	1	2	1	5	2	5	2	3	2	1	3	3	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:52513215C>T	uc001vfw.2	-	17	3828	c.3671G>A	c.(3670-3672)CGG>CAG	p.R1224Q	ATP7B_uc010adv.2_Missense_Mutation_p.R794Q|ATP7B_uc001vfx.2_Missense_Mutation_p.R1017Q|ATP7B_uc001vfy.2_Missense_Mutation_p.R1113Q|ATP7B_uc010tgt.1_Missense_Mutation_p.R1159Q|ATP7B_uc010tgu.1_Missense_Mutation_p.R1176Q|ATP7B_uc010tgv.1_Missense_Mutation_p.R1146Q|ATP7B_uc001vfv.2_Missense_Mutation_p.R496Q|ATP7B_uc010tgs.1_Missense_Mutation_p.R435Q	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	1224	Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		GGCTGTCTTCCGGTTGTCCCC	0.527									Wilson_disease				30	52					0	0	1	0	0		T	52513215	T	T	52513215	3	4	103	1	0	0	0	0	1	0	0	0	1192	652	23	1	746	1	ATP7B	13	52513215	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	73495	52513215	62656663	1337	63286											
PCDH8	5100	broad.mit.edu	37	chr13	53421516	53421516	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcggggtgatggcgatgtcGggtgcgttgtcattgacgtc	5	11	18	7	5	1	2	1	2	0	0	3	3	1	2	0	4	2	1	0	4	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:53421516G>A	uc001vhi.2	-	1	1259	c.1056C>T	c.(1054-1056)CCC>CCT	p.P352P	PCDH8_uc001vhj.2_Silent_p.P352P	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	352	Extracellular (Potential).|Cadherin 3.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		TGGCGATGTCGGGTGCGTTGT	0.736													13	5					0	0	1	0	0		A	53421516	A	A	53421516	2	1	103	1	0	0	0	0	0	0	0	1	11536	1103	39	1		1	PCDH8	13	53421516	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	908301	53421516	61748362	1338	63287											
PCDH17	27253	broad.mit.edu	37	chr13	58207236	58207236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggactggacgttaagtccCgcggcgacggcaccaagttc	8	8	13	12	5	0	0	0	0	0	0	2	3	1	2	2	4	0	3	2	4	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:58207236C>T	uc001vhq.1	+	1	1448	c.556C>T	c.(556-558)CGC>TGC	p.R186C	PCDH17_uc010aec.1_Missense_Mutation_p.R186C	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	186	Extracellular (Potential).|Cadherin 2.|Cell attachment site (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CGTTAAGTCCCGCGGCGACGG	0.637													9	13					0	0	1	0	0		T	58207236	T	T	58207236	3	4	103	1	0	0	0	0	1	0	0	0	11531	652	23	1	558	1	PCDH17	13	58207236	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4785720	58207236	56962642	1339	63288											
PCDH17	27253	broad.mit.edu	37	chr13	58298910	58298910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgttgagactgagacttacGaaactgtgaatcccactggg	12	10	11	8	1	0	3	0	3	0	2	1	6	1	3	1	1	2	1	1	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:58298910G>A	uc001vhq.1	+	4	3854	c.2962G>A	c.(2962-2964)GAA>AAA	p.E988K	PCDH17_uc010aec.1_Missense_Mutation_p.E987K|PCDH17_uc001vhr.1_Missense_Mutation_p.E77K	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	988	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TGAGACTTACGAAACTGTGAA	0.413													27	29					0	0	1	0	0		A	58298910	A	A	58298910	3	1	103	1	0	0	0	0	1	0	0	0	11531	1059	37	1	2976	1	PCDH17	13	58298910	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	91674	58298910	56870968	1340	63289											
TBC1D4	9882	broad.mit.edu	37	chr13	75884248	75884248	+	Frame_Shift_Del	DEL	A	-	-																															cctcctccatggttggagagAggggggacagtggcagcagc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:75884248delA	uc001vjl.1	-	14	2770	c.2423delT	c.(2422-2424)CTCfs	p.L808fs	TBC1D4_uc010tht.1_Frame_Shift_Del_p.L18fs|TBC1D4_uc010thu.1_Frame_Shift_Del_p.L18fs|TBC1D4_uc010aer.2_Frame_Shift_Del_p.L800fs|TBC1D4_uc010aes.2_Frame_Shift_Del_p.L745fs	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	808						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		GGTTGGAGAGAGGGGGGACAG	0.498													18	25	---	---	---	---						.	-	75884248	-	-	75884248	7	5	103	1	0	1	0	1	0	0	0	0	15647	304	11	0	1505	0	TBC1D4	13	75884248	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	17585338	75884248	39285630	1341	63290											
EDNRB	1910	broad.mit.edu	37	chr13	78475266	78475267	+	Frame_Shift_Ins	INS	-	A	A																															ttcacaggtcattagtgtatINSaaaaaaatgcagtgatggcc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:78475266_78475267insA	uc001vko.2	-	4	1135_1136	c.877_878insT	c.(877-879)TATfs	p.Y293fs	EDNRB_uc001vkq.1_Frame_Shift_Ins_p.Y293fs|uc001vkn.1_Intron|EDNRB_uc010aez.1_Frame_Shift_Ins_p.Y293fs|EDNRB_uc001vkp.1_Frame_Shift_Ins_p.Y376fs	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	293	Helical; Name=5; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	CATTAGTGTATAAAAAAATGCA	0.342													30	46	---	---	---	---						.	A	78475267	A	A	78475266	7	5	103	1	0	1	1	0	0	0	0	0	4926	1406	49	0	587	0	EDNRB	13	78475266	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	2591018	78475266	36694612	1342	63291											
SLITRK1	114798	broad.mit.edu	37	chr13	84454612	84454612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggatgtggtcgcagctgcagCccccagggcagggtaaactg	8	6	16	11	1	0	0	0	0	0	0	1	1	0	1	2	4	4	5	2	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:84454612C>T	uc001vlk.2	-	1	1917	c.1031G>A	c.(1030-1032)GGC>GAC	p.G344D		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	344	Extracellular (Potential).|LRRNT 2.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GCAGCTGCAGCCCCCAGGGCA	0.542													28	56					0	0	1	0	0		T	84454612	T	T	84454612	3	4	103	1	0	0	0	0	1	0	0	0	14767	739	26	2	1063	2	SLITRK1	13	84454612	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	5979346	84454612	30715266	1343	63292											
SLITRK5	26050	broad.mit.edu	37	chr13	88330138	88330138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaccacttgcggagccccgCctacagcgtcagcaccatcg	8	5	9	19	4	1	0	1	0	0	0	2	1	1	1	6	1	5	1	6	1	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:88330138C>T	uc001vln.2	+	2	2714	c.2495C>T	c.(2494-2496)GCC>GTC	p.A832V	SLITRK5_uc010tic.1_Missense_Mutation_p.A591V	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	832	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CGGAGCCCCGCCTACAGCGTC	0.473													9	18					0	0	1	0	0		T	88330138	T	T	88330138	3	4	103	1	0	0	0	0	1	0	0	0	14771	739	26	2	2497	2	SLITRK5	13	88330138	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3875526	88330138	26839740	1344	63293											
GPC5	2262	broad.mit.edu	37	chr13	92345484	92345484	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagcagaaaattacaccagTatacttttttgcagtaccta	15	12	5	9	0	0	1	0	0	0	1	0	1	0	1	2	0	5	4	2	0	8	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:92345484T>C	uc010tif.1	+	3	735	c.369T>C	c.(367-369)AGT>AGC	p.S123S		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	123						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				ATTACACCAGTATACTTTTTT	0.433													22	37					0	0	1	0	0		C	92345484	C	C	92345484	2	2	103	1	0	0	0	0	0	0	0	1	6616	1635	57	3		3	GPC5	13	92345484	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	4015346	92345484	22824394	1345	63294											
DZIP1	22873	broad.mit.edu	37	chr13	96293910	96293910	+	Frame_Shift_Del	DEL	T	-	-																															cgtccacagcccccgccaccTtgtccacgtcgatggcgctc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:96293910delT	uc001vmk.2	-	5	1088	c.236delA	c.(235-237)AAGfs	p.K79fs	DZIP1_uc001vml.2_Frame_Shift_Del_p.K79fs|DZIP1_uc001vmn.2_Frame_Shift_Del_p.K68fs	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	79					germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			CCCCGCCACCTTGTCCACGTC	0.667													60	98	---	---	---	---						.	-	96293910	-	-	96293910	7	5	103	1	0	1	0	1	0	0	0	0	4869	1609	56	0	2443	0	DZIP1	13	96293910	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	3948426	96293910	18875968	1346	63295											
UGGT2	55757	broad.mit.edu	37	chr13	96511867	96511867	+	Frame_Shift_Del	DEL	T	-	-																															taaatgtcggtgagagataaTtttttagcaaccagaatttc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:96511867delT	uc001vmt.2	-	33	3973	c.3803delA	c.(3802-3804)AATfs	p.N1268fs	UGGT2_uc001vms.2_5'Flank	NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	1268	Glucosyltransferase.				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						TGAGAGATAATTTTTTAGCAA	0.269													28	45	---	---	---	---						.	-	96511867	-	-	96511867	7	5	103	1	0	1	0	1	0	0	0	0	16968	1493	52	0	775	0	UGGT2	13	96511867	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	217957	96511867	18658011	1347	63296											
IPO5	3843	broad.mit.edu	37	chr13	98637707	98637707	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccgttctcctaagacgTctcttgtcctctgcatttga	5	14	8	14	3	3	2	0	1	3	1	6	2	4	2	4	0	1	2	4	0	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:98637707T>A	uc001vnf.1	+	3	269	c.204T>A	c.(202-204)CGT>CGA	p.R68R	IPO5_uc001vne.2_Silent_p.R86R|IPO5_uc010tik.1_Silent_p.R68R|IPO5_uc010til.1_Silent_p.R8R	NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	68	Importin N-terminal.				interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						TCCTAAGACGTCTCTTGTCCT	0.403													37	62					0	0	1	0	0		A	98637707	A	A	98637707	2	1	103	1	0	0	0	0	0	0	0	1	7812	1654	58	5		5	IPO5	13	98637707	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2125840	98637707	16532171	1348	63297											
DOCK9	23348	broad.mit.edu	37	chr13	99520227	99520227	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaatgtagttgttgatctgCttgaagacaaagcccctgtc	10	13	9	9	0	1	3	0	2	1	1	2	3	1	3	2	0	2	4	2	0	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:99520227C>T	uc001vnt.2	-	29	3187	c.3132G>A	c.(3130-3132)AAG>AAA	p.K1044K	DOCK9_uc001vnw.2_Silent_p.K1043K|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Silent_p.K1044K|DOCK9_uc010tis.1_Silent_p.K1043K|DOCK9_uc010tit.1_Silent_p.K1044K|DOCK9_uc010tiq.1_Silent_p.K8K|DOCK9_uc010afu.1_Silent_p.K890K	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1044					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TGTTGATCTGCTTGAAGACAA	0.433													17	12					0	0	1	0	0		T	99520227	T	T	99520227	2	4	103	1	0	0	0	0	0	0	0	1	4700	796	28	2		2	DOCK9	13	99520227	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	882520	99520227	15649651	1349	63298											
GPR18	2841	broad.mit.edu	37	chr13	99908125	99908126	+	Frame_Shift_Ins	INS	-	T	T																															ttgattgttcagggtgatcaINSttttacagcttgttggtagg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:99908125_99908126insT	uc001voe.3	-	3	502_503	c.1_2insA	c.(1-3)ATGfs	p.M1fs	UBAC2_uc001voa.3_Intron|UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron|GPR18_uc010afv.2_Frame_Shift_Ins_p.M1fs	NM_005292	NP_005283	Q14330	GPR18_HUMAN	G protein-coupled receptor 18	1	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Glycine(DB00145)	CAGGGTGATCATTTTACAGCTT	0.327													57	110	---	---	---	---						.	T	99908126	T	T	99908125	7	5	103	1	0	1	1	0	0	0	0	0	6690	217	8	0	997	0	GPR18	13	99908125	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	387898	99908125	15261753	1350	63299											
FAM155A	728215	broad.mit.edu	37	chr13	108518676	108518676	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctgctgctgctgctgcTgccgctgcctctgctgctgc	0	11	13	17	2	1	0	0	0	1	0	1	0	1	0	3	0	10	9	3	0	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:108518676T>C	uc001vql.2	-	1	785	c.269A>G	c.(268-270)CAG>CGG	p.Q90R		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	90	Poly-Gln.					integral to membrane	binding			skin(1)	1						ctgctgctgctgccgctgcct	0.408													15	14					0	0	1	0	0		C	108518676	C	C	108518676	3	2	103	1	0	0	0	0	1	0	0	0	5476	1580	55	3	1119	3	FAM155A	13	108518676	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	8610551	108518676	6651202	1351	63300											
LIG4	3981	broad.mit.edu	37	chr13	108861668	108861668	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaaattttgttaacgttaGtaaggttaggtgcttttaag	12	17	10	2	1	0	1	0	0	0	1	0	1	0	1	0	2	2	5	0	2	7	9			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:108861668G>T	uc001vqn.2	-	2	2222	c.1949C>A	c.(1948-1950)ACT>AAT	p.T650N	LIG4_uc001vqo.2_Missense_Mutation_p.T650N|LIG4_uc010agg.1_Missense_Mutation_p.T583N|LIG4_uc010agf.2_Missense_Mutation_p.T650N|LIG4_uc001vqp.2_Missense_Mutation_p.T650N	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	650					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					GTTAACGTTAGTAAGGTTAGG	0.373								NHEJ					19	40					3.99206e-14	4.22023e-14	1	1	0		T	108861668	T	T	108861668	3	4	103	1	0	0	0	0	1	0	0	0	8799	1029	36	5	790	5	LIG4	13	108861668	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	342992	108861668	6308210	1352	63301											
COL4A1	1282	broad.mit.edu	37	chr13	110828808	110828808	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacagatccttttggtccCggaagtcctggagcacctgg	8	9	11	13	1	0	1	0	0	0	1	3	3	3	3	5	4	2	1	5	4	2	2	rs148308759		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:110828808C>T	uc001vqw.3	-	36	3143	c.3021G>A	c.(3019-3021)CCG>CCA	p.P1007P	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1007	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CTTTTGGTCCCGGAAGTCCTG	0.473													8	67					0	0	1	0	0		T	110828808	T	T	110828808	2	4	103	1	0	0	0	0	0	0	0	1	3692	639	23	1		1	COL4A1	13	110828808	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1967140	110828808	4341070	1353	63302											
CARS2	79587	broad.mit.edu	37	chr13	111358282	111358282	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtgaggctgttgtacacCtgcacacccgtctcccggcc	5	8	11	17	3	1	1	0	1	1	0	2	1	1	1	5	3	2	4	5	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:111358282C>A	uc001vrd.2	-	1	199	c.159G>T	c.(157-159)CAG>CAT	p.Q53H	CARS2_uc010tjm.1_Intron	NM_024537	NP_078813	Q9HA77	SYCM_HUMAN	cysteinyl-tRNA synthetase 2, mitochondrial	53					cysteinyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|cysteine-tRNA ligase activity|metal ion binding				0	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.163)		L-Cysteine(DB00151)	TGTTGTACACCTGCACACCCG	0.607													3	3					1	1	1	1	0		A	111358282	A	A	111358282	3	1	103	1	0	0	0	0	1	0	0	0	2661	680	24	5	1595	5	CARS2	13	111358282	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	529474	111358282	3811596	1354	63303											
C13orf16	121793	broad.mit.edu	37	chr13	111980580	111980580	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actacaacgtctccagggacCgatgccaggagctcgggtgc	9	6	13	13	3	1	0	0	0	1	0	3	3	1	2	3	3	5	1	3	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:111980580C>T	uc001vsa.2	+	3	238	c.109C>T	c.(109-111)CGA>TGA	p.R37*		NM_152324	NP_689537	Q8N6K0	CM016_HUMAN	hypothetical protein LOC121793	37	Extracellular (Potential).					integral to membrane					0	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		all cancers(43;0.113)|GBM - Glioblastoma multiforme(44;0.174)|BRCA - Breast invasive adenocarcinoma(86;0.188)			CTCCAGGGACCGATGCCAGGA	0.567													26	36					0	0	1	0	0		T	111980580	T	T	111980580	4	4	103	1	0	0	0	0	0	1	0	0	1722	644	23	1	115	1	C13orf16	13	111980580	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	622298	111980580	3189298	1355	63304											
C13orf28	122258	broad.mit.edu	37	chr13	113052428	113052428	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagcgaaatgccaagtacaGcatcaacattatcaacaccg	16	6	7	12	3	2	0	2	0	0	0	2	2	2	0	2	0	6	2	2	0	6	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr13:113052428G>T	uc001vsd.1	+	3	248	c.217G>T	c.(217-219)GCA>TCA	p.A73S		NM_145248	NP_660291	Q96KW9	SPAC7_HUMAN	hypothetical protein LOC122258 precursor	73						extracellular region					0	all_lung(23;0.000633)|Lung NSC(43;0.0161)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0997)|Medulloblastoma(90;0.163)					GCCAAGTACAGCATCAACATT	0.438													5	86					3.59834e-05	3.65893e-05	1	1	0		T	113052428	T	T	113052428	3	4	103	1	0	0	0	0	1	0	0	0	1727	971	34	5	227	5	C13orf28	13	113052428	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1071848	113052428	2117450	1356	63305											
OR4K1	79544	broad.mit.edu	37	chr14	20404217	20404217	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatatgtaagcctctgcActacagtacaattatgaacc	14	10	6	11	0	1	1	0	1	1	0	1	1	1	1	3	0	6	3	3	0	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:20404217A>G	uc001vwj.1	+	1	392	c.392A>G	c.(391-393)CAC>CGC	p.H131R		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		AAGCCTCTGCACTACAGTACA	0.438													35	112					0	0	1	0	0		G	20404217	G	G	20404217	3	3	103	1	0	0	0	0	1	0	0	0	11086	159	6	3	394	3	OR4K1	14	20404217	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08		20404217	86945323	1357	63306											
TEP1	7011	broad.mit.edu	37	chr14	20852773	20852773	+	Frame_Shift_Del	DEL	C	-	-																															gctcacctgcggcaggtgatCcctttctgtctgcttaggta																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:20852773delC	uc001vxe.2	-	22	3247	c.3207delG	c.(3205-3207)GGGfs	p.G1069fs	TEP1_uc010ahk.2_Frame_Shift_Del_p.G419fs|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Frame_Shift_Del_p.G961fs|TEP1_uc010tlh.1_5'Flank	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1069					telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		GGCAGGTGATCCCTTTCTGTC	0.557													79	169	---	---	---	---						.	-	20852773	-	-	20852773	7	5	103	1	0	1	0	1	0	0	0	0	15784	842	30	0	4812	0	TEP1	14	20852773	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	448556	20852773	86496767	1358	63307											
METT11D1	64745	broad.mit.edu	37	chr14	21462740	21462740	+	Frame_Shift_Del	DEL	T	-	-																															agccttatattccaggtgtcTttttcagacagtttctacct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:21462740delT	uc001vyn.2	+	8	933	c.736delT	c.(736-738)TTTfs	p.F246fs	METT11D1_uc001vym.2_Frame_Shift_Del_p.F246fs|METT11D1_uc001vyo.2_Frame_Shift_Del_p.F246fs|METT11D1_uc001vyp.2_Frame_Shift_Del_p.F88fs|METT11D1_uc001vyq.2_Frame_Shift_Del_p.F88fs	NM_022734	NP_073571	Q9H7H0	MET17_HUMAN	methyltransferase 11 domain containing 1 isoform	246					translation	mitochondrion|ribosome	copper ion binding|methyltransferase activity				0	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0191)		TCCAGGTGTCTTTTTCAGACA	0.418													62	97	---	---	---	---						.	-	21462740	-	-	21462740	7	5	103	1	0	1	0	1	0	0	0	0	9509	1609	56	0	766	0	METT11D1	14	21462740	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	609967	21462740	85886800	1359	63308											
ZNF219	51222	broad.mit.edu	37	chr14	21561074	21561075	+	Frame_Shift_Del	DEL	GC	-	-																															cagtcgggcctcgcgtagtaGcgcgcgctcttccaactcca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:21561074_21561075delGC	uc001vzr.2	-	3	802_803	c.381_382delGC	c.(379-384)GCGCTAfs	p.A127fs	ZNF219_uc001vzs.2_Frame_Shift_Del_p.A127fs|ZNF219_uc010aik.1_Frame_Shift_Del_p.A127fs	NM_016423	NP_057507	Q9P2Y4	ZN219_HUMAN	zinc finger protein 219	127_128					negative regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|histamine receptor activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)	1	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;9.86e-11)|Epithelial(56;1.27e-08)|all cancers(55;6.06e-08)	GBM - Glioblastoma multiforme(265;0.0191)		TCGCGTAGTAGCGCGCGCTCTT	0.708											OREG0022565	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	30	---	---	---	---						.	-	21561075	-	-	21561074	7	5	103	1	0	1	0	1	0	0	0	0	17798	962	34	0	1798	0	ZNF219	14	21561074	Frame_Shift_Del	DEL	GC	TCGA-BR-A4QL-01A-31D-A25D-08	98334	21561074	85788466	1360	63309											
CHD8	57680	broad.mit.edu	37	chr14	21896280	21896280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttctggtgttccaatctgCggttttcctccattcctgtc	3	18	7	13	1	3	0	0	0	3	0	8	0	7	0	4	2	1	2	4	2	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:21896280C>T	uc001was.1	-	4	606	c.512G>A	c.(511-513)CGC>CAC	p.R171H	CHD8_uc001war.1_Missense_Mutation_p.R67H	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	450					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		TTCCAATCTGCGGTTTTCCTC	0.522													47	113					0	0	1	0	0		T	21896280	T	T	21896280	3	4	103	1	0	0	0	0	1	0	0	0	3334	768	27	1	6536	1	CHD8	14	21896280	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	335206	21896280	85453260	1361	63310											
SALL2	6297	broad.mit.edu	37	chr14	21992276	21992276	+	Frame_Shift_Del	DEL	G	-	-																															tggctgagccctcactccctGggggggtgttttcatcagct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:21992276delG	uc001wbe.2	-	2	1868	c.1586delC	c.(1585-1587)CCAfs	p.P529fs	SALL2_uc010tly.1_Frame_Shift_Del_p.P527fs|SALL2_uc010tlz.1_Frame_Shift_Del_p.P392fs|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Frame_Shift_Del_p.P394fs|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	529							DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		CTCACTCCCTGGGGGGGTGTT	0.527													27	35	---	---	---	---						.	-	21992276	-	-	21992276	7	5	103	1	0	1	0	1	0	0	0	0	13836	1348	47	0	1441	0	SALL2	14	21992276	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	95996	21992276	85357264	1362	63311											
OR10G3	26533	broad.mit.edu	37	chr14	22038482	22038482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcatgagcacagggtagcGcaggggctgacatattgcca	11	7	14	9	1	1	2	1	2	0	0	1	2	1	2	1	3	3	4	1	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:22038482G>A	uc010tmb.1	-	1	394	c.394C>T	c.(394-396)CGC>TGC	p.R132C		NM_001005465	NP_001005465	Q8NGC4	O10G3_HUMAN	olfactory receptor, family 10, subfamily G,	132	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|central_nervous_system(1)	2	all_cancers(95;0.000987)			GBM - Glioblastoma multiforme(265;0.0139)		ACAGGGTAGCGCAGGGGCTGA	0.552													15	31					0	0	1	0	0		A	22038482	A	A	22038482	3	1	103	1	0	0	0	0	1	0	0	0	10919	1087	38	1	550	1	OR10G3	14	22038482	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	46206	22038482	85311058	1363	63312											
CBLN3	643866	broad.mit.edu	37	chr14	24898086	24898087	+	Frame_Shift_Ins	INS	-	C	C																															cccagggctgctcccccgggINScccccctgcagcagctcggc																								rs147112147		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:24898086_24898087insC	uc001wpg.3	-	1	645_646	c.174_175insG	c.(172-177)GGGCCCfs	p.G58fs	KHNYN_uc010tpc.1_5'Flank|KHNYN_uc001wph.3_5'Flank|KHNYN_uc010alw.2_5'Flank	NM_001039771	NP_001034860	Q6UW01	CBLN3_HUMAN	cerebellin 3 precursor	58_59						cell junction|extracellular region|synapse		p.G58G(1)		central_nervous_system(1)	1				GBM - Glioblastoma multiforme(265;0.00159)		GCTCCCCCGGGCCCCCCTGCAG	0.723													4	6	---	---	---	---						.	C	24898087	C	C	24898086	7	5	103	1	0	1	1	0	0	0	0	0	2709	1203	42	0	454	0	CBLN3	14	24898086	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	2859604	24898086	82451454	1364	63313											
FOXG1	2290	broad.mit.edu	37	chr14	29237391	29237391	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcaccttcatggaccgCgccggctccctctactggcc	4	8	10	19	3	3	0	2	0	1	0	4	1	4	1	6	4	1	1	6	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:29237391C>T	uc001wqe.2	+	1	1105	c.906C>T	c.(904-906)CGC>CGT	p.R302R		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	302				RAGSLYWPMSPFLSLHHPR -> APAPSTGPCRPSCPCTTP (in Ref. 1; CAA52240 and 2; CAA55038).	axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		TCATGGACCGCGCCGGCTCCC	0.701													40	50					0	0	1	0	0		T	29237391	T	T	29237391	2	4	103	1	0	0	0	0	0	0	0	1	6021	755	27	1		1	FOXG1	14	29237391	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4339305	29237391	78112149	1365	63314											
PRKD1	5587	broad.mit.edu	37	chr14	30107951	30107951	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcagaagcttcttgcagtActggcacactgtgggccggg	7	10	13	11	1	2	1	1	0	1	1	2	1	2	1	1	3	3	4	1	3	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:30107951A>G	uc001wqh.2	-	5	1037	c.856T>C	c.(856-858)TAC>CAC	p.Y286H		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	286	Phorbol-ester/DAG-type 2.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TTCTTGCAGTACTGGCACACT	0.473													15	27					0	0	1	0	0		G	30107951	G	G	30107951	3	3	103	1	0	0	0	0	1	0	0	0	12540	391	14	3	1938	3	PRKD1	14	30107951	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	870560	30107951	77241589	1366	63315											
AKAP6	9472	broad.mit.edu	37	chr14	33015029	33015029	+	Frame_Shift_Del	DEL	A	-	-																															cccacgcagcctacattgccAaaaagaggactttttcttaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:33015029delA	uc001wrq.2	+	4	1340	c.1170delA	c.(1168-1170)CCAfs	p.P390fs	AKAP6_uc010aml.2_Frame_Shift_Del_p.P387fs	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	390					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CTACATTGCCAAAAAGAGGAC	0.418													40	75	---	---	---	---						.	-	33015029	-	-	33015029	7	5	103	1	0	1	0	1	0	0	0	0	455	117	5	0	1180	0	AKAP6	14	33015029	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	2907078	33015029	74334511	1367	63316											
AKAP6	9472	broad.mit.edu	37	chr14	33292703	33292703	+	Frame_Shift_Del	DEL	A	-	-																															tccatatgtggctgacatggAaaatggcaatattgaaggta																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:33292703delA	uc001wrq.2	+	13	5854	c.5684delA	c.(5683-5685)GAAfs	p.E1895fs		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1895					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		GCTGACATGGAAAATGGCAAT	0.353													22	45	---	---	---	---						.	-	33292703	-	-	33292703	7	5	103	1	0	1	0	1	0	0	0	0	455	246	9	0	5730	0	AKAP6	14	33292703	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	277674	33292703	74056837	1368	63317											
NPAS3	64067	broad.mit.edu	37	chr14	34269285	34269285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcaggcgaggcgggcgCgcaggcctccagcaagcacc	8	1	16	16	5	0	0	0	0	0	0	1	1	1	0	3	4	3	4	3	4	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:34269285C>T	uc001wru.2	+	12	1836	c.1772C>T	c.(1771-1773)GCG>GTG	p.A591V	NPAS3_uc001wrs.2_Missense_Mutation_p.A578V|NPAS3_uc001wrt.2_Missense_Mutation_p.A559V|NPAS3_uc001wrv.2_Missense_Mutation_p.A561V	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	591					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		GAGGCGGGCGCGCAGGCCTCC	0.697													5	8					0	0	1	0	0		T	34269285	T	T	34269285	3	4	103	1	0	0	0	0	1	0	0	0	10583	768	27	1	1873	1	NPAS3	14	34269285	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	976582	34269285	73080255	1369	63318											
BAZ1A	11177	broad.mit.edu	37	chr14	35234330	35234330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcgacatatcttgcaacgcGcattcagtatagatttagac	12	13	7	9	3	2	2	1	0	1	2	3	3	2	2	0	0	2	3	0	0	5	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:35234330G>A	uc001wsk.2	-	22	4014	c.3446C>T	c.(3445-3447)GCG>GTG	p.A1149V	BAZ1A_uc001wsl.2_Missense_Mutation_p.A1117V	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1149	PHD-type.				chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		CTTGCAACGCGCATTCAGTAT	0.443													15	36					0	0	1	0	0		A	35234330	A	A	35234330	3	1	103	1	0	0	0	0	1	0	0	0	1330	1087	38	1	1248	1	BAZ1A	14	35234330	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	965045	35234330	72115210	1370	63319											
SSTR1	6751	broad.mit.edu	37	chr14	38679518	38679518	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacggtgagtcagctgtcGgtcatcctcggctatgccaa	7	9	12	13	3	2	1	2	1	0	0	5	1	3	1	3	3	2	2	3	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:38679518G>A	uc001wul.1	+	3	1541	c.924G>A	c.(922-924)TCG>TCA	p.S308S	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	308	Helical; Name=7; (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	GTCAGCTGTCGGTCATCCTCG	0.552													55	59					0	0	1	0	0		A	38679518	A	A	38679518	2	1	103	1	0	0	0	0	0	0	0	1	15222	1103	39	1		1	SSTR1	14	38679518	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3445188	38679518	68670022	1371	63320											
CTAGE5	4253	broad.mit.edu	37	chr14	39748655	39748655	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacttgacttttttaggaCgagagaaaaagcttgctcta	12	14	9	6	1	1	3	0	2	1	1	1	6	1	4	0	1	2	2	0	1	4	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:39748655C>T	uc001wvg.3	+	4	556	c.220C>T	c.(220-222)CGA>TGA	p.R74*	CTAGE5_uc010tqe.1_Nonsense_Mutation_p.R62*|CTAGE5_uc001wuz.3_Nonsense_Mutation_p.R62*|CTAGE5_uc001wuy.3_Translation_Start_Site|CTAGE5_uc001wvb.3_Nonsense_Mutation_p.R45*|CTAGE5_uc001wvc.3_Nonsense_Mutation_p.R45*|CTAGE5_uc001wva.3_Nonsense_Mutation_p.R45*|CTAGE5_uc001wve.1_Nonsense_Mutation_p.R45*|CTAGE5_uc001wvh.3_Nonsense_Mutation_p.R74*|CTAGE5_uc001wvf.3_Translation_Start_Site|CTAGE5_uc001wvi.3_Nonsense_Mutation_p.R74*|CTAGE5_uc010amz.2_Translation_Start_Site|CTAGE5_uc001wvj.3_Nonsense_Mutation_p.R45*	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	74							enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		TTTTTTAGGACGAGAGAAAAA	0.294													14	36					0	0	1	0	0		T	39748655	T	T	39748655	4	4	103	1	0	0	0	0	0	1	0	0	3997	528	19	1	265	1	CTAGE5	14	39748655	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1069137	39748655	67600885	1372	63321											
CTAGE5	4253	broad.mit.edu	37	chr14	39790150	39790150	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agagcattccccatatggtcCctcaccattgggttggcctt	7	12	9	13	0	1	1	1	0	0	1	3	1	3	1	5	3	1	2	5	3	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:39790150C>A	uc001wvg.3	+	19	1898	c.1562C>A	c.(1561-1563)CCC>CAC	p.P521H	CTAGE5_uc010tqe.1_Missense_Mutation_p.P483H|CTAGE5_uc001wuz.3_Missense_Mutation_p.P509H|CTAGE5_uc001wuy.3_Missense_Mutation_p.P441H|CTAGE5_uc001wvb.3_Intron|CTAGE5_uc001wvc.3_Intron|CTAGE5_uc001wva.3_Missense_Mutation_p.P492H|CTAGE5_uc001wvh.3_Intron|CTAGE5_uc001wvf.3_Missense_Mutation_p.P446H|CTAGE5_uc001wvi.3_Missense_Mutation_p.P526H|CTAGE5_uc010amz.2_Missense_Mutation_p.P137H|CTAGE5_uc001wvj.3_Missense_Mutation_p.P492H	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	521	Pro-rich.						enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		CCATATGGTCCCTCACCATTG	0.428													39	75					5.73435e-26	6.18635e-26	1	1	0		A	39790150	A	A	39790150	3	1	103	1	0	0	0	0	1	0	0	0	3997	623	22	5	1667	5	CTAGE5	14	39790150	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	41495	39790150	67559390	1373	63322											
FBXO33	254170	broad.mit.edu	37	chr14	39871611	39871611	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accatataacttactgtttaAtttttttgccatcagggtcc	10	17	5	9	0	1	0	1	0	0	0	2	0	2	0	3	1	3	1	3	1	4	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:39871611A>T	uc001wvk.2	-	2	1042	c.704T>A	c.(703-705)ATT>AAT	p.I235N		NM_203301	NP_976046	Q7Z6M2	FBX33_HUMAN	F-box protein 33	235											0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00121)|Epithelial(34;0.169)	GBM - Glioblastoma multiforme(112;0.0425)		TTACTGTTTAATTTTTTTGCC	0.318													18	41					0	0	1	0	0		T	39871611	T	T	39871611	3	4	103	1	0	0	0	0	1	0	0	0	5757	101	4	5	975	5	FBXO33	14	39871611	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	81461	39871611	67477929	1374	63323											
KLHL28	54813	broad.mit.edu	37	chr14	45414389	45414389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaaagatgtttacaagtgCgatcatcacgaataagatga	17	10	8	6	2	3	3	3	1	0	2	3	5	3	3	0	0	2	1	0	0	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:45414389C>T	uc001wvq.2	-	2	989	c.743G>A	c.(742-744)CGC>CAC	p.R248H	KLHL28_uc001wvr.2_Missense_Mutation_p.R248H|KLHL28_uc001wvt.3_Missense_Mutation_p.R248H	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	248										ovary(1)	1						TTTACAAGTGCGATCATCACG	0.383													24	47					0	0	1	0	0		T	45414389	T	T	45414389	3	4	103	1	0	0	0	0	1	0	0	0	8398	768	27	1	988	1	KLHL28	14	45414389	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	5542778	45414389	61935151	1375	63324											
FAM179B	23116	broad.mit.edu	37	chr14	45431631	45431631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgacaaccctgcatggcgGctgccccctccgcgctgctt	4	8	10	19	3	0	1	0	1	0	0	1	1	1	1	5	2	4	4	5	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:45431631G>A	uc001wvv.2	+	1	216	c.7G>A	c.(7-9)GCT>ACT	p.A3T	FAM179B_uc001wvw.2_Missense_Mutation_p.A3T|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvq.2_5'Flank|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Missense_Mutation_p.A3T|FAM179B_uc001wvu.2_Missense_Mutation_p.A3T	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	3							binding			skin(2)|upper_aerodigestive_tract(1)	3						CTGCATGGCGGCTGCCCCCTC	0.617													21	28					0	0	1	0	0		A	45431631	A	A	45431631	3	1	103	1	0	0	0	0	1	0	0	0	5517	1203	42	2	9	2	FAM179B	14	45431631	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	17242	45431631	61917909	1376	63325											
FAM179B	23116	broad.mit.edu	37	chr14	45497410	45497410	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatttctaaatctacttataAcaagatgagacaaaagagaa	20	11	5	5	0	2	3	0	1	2	3	2	5	2	3	0	0	2	0	0	0	10	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:45497410A>G	uc001wvv.2	+	10	3745	c.3536A>G	c.(3535-3537)AAC>AGC	p.N1179S	FAM179B_uc001wvw.2_Missense_Mutation_p.N1179S|FAM179B_uc010anc.2_RNA	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	1179							binding			skin(2)|upper_aerodigestive_tract(1)	3						TCTACTTATAACAAGATGAGA	0.303													6	51					0	0	1	0	0		G	45497410	G	G	45497410	3	3	103	1	0	0	0	0	1	0	0	0	5517	43	2	3	3574	3	FAM179B	14	45497410	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	65779	45497410	61852130	1377	63326											
FANCM	57697	broad.mit.edu	37	chr14	45605395	45605395	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcagctggagtcggacgAtgatgtgttgcttgtcgcgg	5	11	17	8	4	1	1	1	1	0	0	3	4	1	3	0	4	2	4	0	4	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:45605395A>G	uc001wwd.3	+	1	260	c.161A>G	c.(160-162)GAT>GGT	p.D54G	FANCM_uc001wwc.2_Missense_Mutation_p.D54G|FANCM_uc010anf.2_Missense_Mutation_p.D54G|FKBP3_uc010tqf.1_5'Flank	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	54					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						GAGTCGGACGATGATGTGTTG	0.642								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				34	39					0	0	1	0	0		G	45605395	G	G	45605395	3	3	103	1	0	0	0	0	1	0	0	0	5685	333	12	3	163	3	FANCM	14	45605395	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	107985	45605395	61744145	1378	63327											
C14orf106	55320	broad.mit.edu	37	chr14	45693275	45693275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgaagagtttctttgaCggaaggtctagctttctttt	7	18	9	7	1	4	3	0	2	4	1	4	4	4	4	0	2	1	2	0	2	3	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:45693275C>T	uc001wwf.2	-	11	2974	c.2515G>A	c.(2515-2517)GTC>ATC	p.V839I		NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	839					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						GTTTCTTTGACGGAAGGTCTA	0.368													14	38					0	0	1	0	0		T	45693275	T	T	45693275	3	4	103	1	0	0	0	0	1	0	0	0	1741	536	19	1	911	1	C14orf106	14	45693275	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	87880	45693275	61656265	1379	63328											
C14orf106	55320	broad.mit.edu	37	chr14	45711515	45711515	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataggaatacaattagtacTgagagtctcagcattagtat	16	12	8	5	0	1	1	1	1	1	1	2	3	1	2	0	1	3	3	0	1	9	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:45711515T>C	uc001wwf.2	-	4	1324	c.865A>G	c.(865-867)AGT>GGT	p.S289G	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	289					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						CAATTAGTACTGAGAGTCTCA	0.368													6	96					0	0	1	0	0		C	45711515	C	C	45711515	3	2	103	1	0	0	0	0	1	0	0	0	1741	1580	55	3	2589	3	C14orf106	14	45711515	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	18240	45711515	61638025	1380	63329											
SOS2	6655	broad.mit.edu	37	chr14	50611935	50611935	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacactgaatttactgcacTgactatctccaatacgccat	12	12	5	12	1	1	3	0	3	1	0	2	3	1	3	2	0	3	1	2	0	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:50611935T>C	uc001wxs.3	-	16	2718	c.2620A>G	c.(2620-2622)AGT>GGT	p.S874G	SOS2_uc010tql.1_Missense_Mutation_p.S841G|SOS2_uc010tqm.1_RNA	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	874	Ras-GEF.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TTTACTGCACTGACTATCTCC	0.338													4	78					0	0	1	0	0		C	50611935	C	C	50611935	3	2	103	1	0	0	0	0	1	0	0	0	14962	1580	55	3	1410	3	SOS2	14	50611935	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	4900420	50611935	56737605	1381	63330											
ATL1	51062	broad.mit.edu	37	chr14	51089952	51089952	+	Frame_Shift_Del	DEL	A	-	-																															ctgccaaggacacatacaacAaaaaaatggaagaggtaaga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:51089952delA	uc001wyf.3	+	11	1346	c.1105delA	c.(1105-1107)AAAfs	p.K369fs	ATL1_uc001wyd.3_Frame_Shift_Del_p.K369fs|ATL1_uc001wye.3_Frame_Shift_Del_p.K369fs	NM_015915	NP_056999	Q8WXF7	ATLA1_HUMAN	atlastin GTPase 1 isoform a	369	Cytoplasmic.				axonogenesis|cell death|endoplasmic reticulum organization|protein homooligomerization	axon|endoplasmic reticulum membrane|Golgi cis cisterna|Golgi membrane|integral to membrane|microsome	GTP binding|GTPase activity|identical protein binding			skin(3)|central_nervous_system(1)	4						CACATACAACAAAAAAATGGA	0.348													20	28	---	---	---	---						.	-	51089952	-	-	51089952	7	5	103	1	0	1	0	1	0	0	0	0	1107	131	5	0	1147	0	ATL1	14	51089952	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	478017	51089952	56259588	1382	63331											
FRMD6	122786	broad.mit.edu	37	chr14	52178272	52178272	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaagggaaattgaagcatcGctgactcttggattgaccat	14	10	10	7	1	1	3	0	3	1	0	2	5	1	5	1	2	1	2	1	2	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:52178272G>A	uc001wzd.2	+	8	1023	c.738G>A	c.(736-738)TCG>TCA	p.S246S	FRMD6_uc001wzb.2_Silent_p.S238S|FRMD6_uc001wzc.2_Silent_p.S238S|FRMD6_uc001wze.2_Silent_p.S169S|FRMD6_uc001wzf.2_5'Flank	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	246	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					TTGAAGCATCGCTGACTCTTG	0.338													26	47					0	0	1	0	0		A	52178272	A	A	52178272	2	1	103	1	0	0	0	0	0	0	0	1	6068	1074	38	1		1	FRMD6	14	52178272	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1088320	52178272	55171268	1383	63332											
FERMT2	10979	broad.mit.edu	37	chr14	53360082	53360082	+	Frame_Shift_Del	DEL	T	-	-																															actggtcatctagcttcttcTtttttttctttgttggatct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:53360082delT	uc001xad.2	-	4	510	c.455delA	c.(454-456)AAGfs	p.K152fs	FERMT2_uc001xac.2_Frame_Shift_Del_p.K152fs|FERMT2_uc001xae.2_Frame_Shift_Del_p.K152fs|FERMT2_uc001xaf.2_Frame_Shift_Del_p.K152fs	NM_006832	NP_006823	Q96AC1	FERM2_HUMAN	fermitin family homolog 2 isoform 1	152					actin cytoskeleton organization|cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytosol|focal adhesion|stress fiber	binding				0	Breast(41;0.0342)					TAGCTTCTTCTTTTTTTTCTT	0.383													47	75	---	---	---	---						.	-	53360082	-	-	53360082	7	5	103	1	0	1	0	1	0	0	0	0	5832	1609	56	0	1672	0	FERMT2	14	53360082	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	1181810	53360082	53989458	1384	63333											
PELI2	57161	broad.mit.edu	37	chr14	56645119	56645119	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agatttgccctctacaagcgGcccaaggcaaatggtgtcaa	12	8	10	11	1	2	1	1	0	1	1	2	1	2	1	2	3	3	1	2	3	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:56645119G>A	uc001xch.2	+	2	430	c.144G>A	c.(142-144)CGG>CGA	p.R48R		NM_021255	NP_067078	Q9HAT8	PELI2_HUMAN	pellino 2	48					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1						TCTACAAGCGGCCCAAGGCAA	0.517													41	55					0	0	1	0	0		A	56645119	A	A	56645119	2	1	103	1	0	0	0	0	0	0	0	1	11741	1190	42	2		2	PELI2	14	56645119	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3285037	56645119	50704421	1385	63334											
OTX2	5015	broad.mit.edu	37	chr14	57268921	57268921	+	Frame_Shift_Del	DEL	G	-	-																															gtcgggactgaggtgctagaGgggggagtgaattggccact																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:57268921delG	uc001xcp.2	-	3	573	c.402delC	c.(400-402)CCCfs	p.P134fs	OTX2_uc010aou.2_Frame_Shift_Del_p.P134fs|OTX2_uc001xcq.2_Frame_Shift_Del_p.P142fs	NM_172337	NP_758840	P32243	OTX2_HUMAN	orthodenticle homeobox 2 isoform b	134			P -> A (in MCOPS5).		axon guidance|forebrain development|midbrain development|positive regulation of embryonic development|positive regulation of gastrulation|primitive streak formation|protein complex assembly|regulation of fibroblast growth factor receptor signaling pathway|regulation of smoothened signaling pathway	growth cone|nucleus|protein complex	eukaryotic initiation factor 4E binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding			ovary(1)	1	Medulloblastoma(1;0.00184)|all_neural(1;0.00414)					AGGTGCTAGAGGGGGGAGTGA	0.537													18	38	---	---	---	---						.	-	57268921	-	-	57268921	7	5	103	1	0	1	0	1	0	0	0	0	11340	987	35	0	471	0	OTX2	14	57268921	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	623802	57268921	50080619	1386	63335											
DAAM1	23002	broad.mit.edu	37	chr14	59789729	59789729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcattggctgtataaaggCgttaatgaacaactctcaag	13	12	8	8	1	2	1	2	1	2	0	4	1	2	1	0	2	2	3	0	2	7	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:59789729C>T	uc001xdz.1	+	6	685	c.560C>T	c.(559-561)GCG>GTG	p.A187V	DAAM1_uc001xea.1_Missense_Mutation_p.A187V|DAAM1_uc001xeb.1_Missense_Mutation_p.A187V	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of	187	GBD/FH3.				actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		TGTATAAAGGCGTTAATGAAC	0.438													21	34					0	0	1	0	0		T	59789729	T	T	59789729	3	4	103	1	0	0	0	0	1	0	0	0	4218	768	27	1	578	1	DAAM1	14	59789729	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2520808	59789729	47559811	1387	63336											
GPR135	64582	broad.mit.edu	37	chr14	59930994	59930994	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaagcgcagcacgcgcgcGtaggtgttcaccggccgcac	9	4	14	14	7	1	1	1	0	0	1	1	1	1	1	2	2	2	5	2	2	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:59930994G>A	uc010apj.2	-	1	1066	c.951C>T	c.(949-951)TAC>TAT	p.Y317Y	GPR135_uc001xed.2_RNA	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	317	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		GCACGCGCGCGTAGGTGTTCA	0.642													15	21					0	0	1	0	0		A	59930994	A	A	59930994	2	1	103	1	0	0	0	0	0	0	0	1	6659	1140	40	1		1	GPR135	14	59930994	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	141265	59930994	47418546	1388	63337											
DCAF5	8816	broad.mit.edu	37	chr14	69521952	69521952	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtggtgacccgcaggggcCccaggtggaaggcgttgtcg	5	7	19	10	3	0	1	0	1	0	0	1	2	0	2	3	7	0	2	3	7	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:69521952C>A	uc001xkp.2	-	9	1670	c.1451G>T	c.(1450-1452)GGG>GTG	p.G484V	DCAF5_uc001xkq.2_Missense_Mutation_p.G483V	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	484						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						CCGCAGGGGCCCCAGGTGGAA	0.627													24	24					5.45024e-15	5.77664e-15	1	1	0		A	69521952	A	A	69521952	3	1	103	1	0	0	0	0	1	0	0	0	4276	623	22	5	1381	5	DCAF5	14	69521952	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	9590958	69521952	37827588	1389	63338											
MAP3K9	4293	broad.mit.edu	37	chr14	71199761	71199761	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcctccaggggaagcagctgGcacttgccagcttccagcaa	9	7	11	14	0	0	0	0	0	0	0	3	1	3	1	4	3	5	5	4	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:71199761G>A	uc001xmm.2	-	11	2325	c.2325C>T	c.(2323-2325)TGC>TGT	p.C775C	MAP3K9_uc010ttk.1_Silent_p.C503C|MAP3K9_uc001xmk.2_Silent_p.C508C|MAP3K9_uc001xml.2_Silent_p.C789C	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	775					activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		GAAGCAGCTGGCACTTGCCAG	0.652													24	40					0	0	1	0	0		A	71199761	A	A	71199761	2	1	103	1	0	0	0	0	0	0	0	1	9275	1195	42	2		2	MAP3K9	14	71199761	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1677809	71199761	36149779	1390	63339											
PCNX	22990	broad.mit.edu	37	chr14	71444403	71444403	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccagtgacaaaaggactaGcagtgaaaagattgctatgg	15	8	12	6	0	0	3	0	2	0	1	0	4	0	4	1	2	3	2	1	2	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:71444403G>T	uc001xmo.2	+	6	1795	c.1349G>T	c.(1348-1350)AGC>ATC	p.S450I	PCNX_uc001xmn.3_Missense_Mutation_p.S450I|PCNX_uc010are.1_Missense_Mutation_p.S450I	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	450						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		AAAAGGACTAGCAGTGAAAAG	0.522													5	42					1.23904e-05	1.26366e-05	1	1	0		T	71444403	T	T	71444403	3	4	103	1	0	0	0	0	1	0	0	0	11610	971	34	5	1371	5	PCNX	14	71444403	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	244642	71444403	35905137	1391	63340											
SIPA1L1	26037	broad.mit.edu	37	chr14	72090950	72090951	+	Frame_Shift_Ins	INS	-	G	G																															tcatgaaactggatgaacaaINSggggtgagtttgcctttctg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:72090950_72090951insG	uc001xms.2	+	4	2163_2164	c.1815_1816insG	c.(1813-1818)CAAGGGfs	p.Q605fs	SIPA1L1_uc001xmt.2_Frame_Shift_Ins_p.Q605fs|SIPA1L1_uc001xmu.2_Frame_Shift_Ins_p.Q605fs|SIPA1L1_uc001xmv.2_Frame_Shift_Ins_p.Q605fs|SIPA1L1_uc010ttm.1_Frame_Shift_Ins_p.Q80fs	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	605_606					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TGGATGAACAAGGGGTGAGTTT	0.48													27	48	---	---	---	---						.	G	72090951	G	G	72090950	7	5	103	1	0	1	1	0	0	0	0	0	14354	69	3	0	1825	0	SIPA1L1	14	72090950	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	646547	72090950	35258590	1392	63341											
C14orf169	79697	broad.mit.edu	37	chr14	73958888	73958888	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgagccggtgctgcagacCgtgctggaacctggagattt	7	9	16	9	2	0	3	0	1	0	2	0	5	0	4	3	4	5	3	3	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:73958888C>T	uc001xok.1	+	3	1246	c.1167C>T	c.(1165-1167)ACC>ACT	p.T389T	HEATR4_uc010tua.1_Intron	NM_024644	NP_078920	Q9H6W3	NO66_HUMAN	chromosome 14 open reading frame 169	389	JmjC.				negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K4 specific)|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0				BRCA - Breast invasive adenocarcinoma(234;0.0033)|OV - Ovarian serous cystadenocarcinoma(108;0.215)		TGCTGCAGACCGTGCTGGAAC	0.577													62	98					0	0	1	0	0		T	73958888	T	T	73958888	2	4	103	1	0	0	0	0	0	0	0	1	1761	652	23	1		1	C14orf169	14	73958888	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1867938	73958888	33390652	1393	63342											
HEATR4	399671	broad.mit.edu	37	chr14	73989186	73989186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggggatgccccaggccttCgaggacgcttgctctggatc	5	9	15	12	2	1	0	0	0	1	0	3	4	1	3	3	5	2	2	3	5	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:73989186C>T	uc010tub.1	-	3	993	c.671G>A	c.(670-672)CGA>CAA	p.R224Q	HEATR4_uc010tua.1_Missense_Mutation_p.R177Q	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		CCCAGGCCTTCGAGGACGCTT	0.612													18	32					0	0	1	0	0		T	73989186	T	T	73989186	3	4	103	1	0	0	0	0	1	0	0	0	7046	884	31	1	2473	1	HEATR4	14	73989186	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	30298	73989186	33360354	1394	63343											
LTBP2	4053	broad.mit.edu	37	chr14	74975410	74975410	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggggtgcgcagtgctcCtcccccatgcactcattcac	5	9	10	17	2	2	0	2	0	0	0	4	0	4	0	4	2	3	3	4	2	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:74975410C>A	uc001xqa.2	-	24	3936	c.3549G>T	c.(3547-3549)GAG>GAT	p.E1183D		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1183	Cys-rich.|EGF-like 12; calcium-binding (Potential).				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CGCAGTGCTCCTCCCCCATGC	0.652													19	25					3.10358e-05	3.15741e-05	1	1	0		A	74975410	A	A	74975410	3	1	103	1	0	0	0	0	1	0	0	0	9092	680	24	5	1968	5	LTBP2	14	74975410	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	986224	74975410	32374130	1395	63344											
LTBP2	4053	broad.mit.edu	37	chr14	74995223	74995223	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcctcaagccaggtgtcCgtgacgacccggaggggctg	6	5	16	14	4	1	1	1	1	0	0	2	3	2	2	5	5	1	1	5	5	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:74995223C>T	uc001xqa.2	-	12	2718	c.2331G>A	c.(2329-2331)ACG>ACA	p.T777T		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	777					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GCCAGGTGTCCGTGACGACCC	0.647													25	36					0	0	1	0	0		T	74995223	T	T	74995223	2	4	103	1	0	0	0	0	0	0	0	1	9092	639	23	1		1	LTBP2	14	74995223	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	19813	74995223	32354317	1396	63345											
C14orf4	64207	broad.mit.edu	37	chr14	77492225	77492225	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgccatccttgggcgagtgCgctgtgcccagagtatctgc	5	10	13	13	2	1	1	0	0	1	1	2	2	2	1	3	1	4	2	3	1	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:77492225C>T	uc001xsy.2	-	1	2810	c.1911G>A	c.(1909-1911)GCG>GCA	p.A637A		NM_024496	NP_078772	Q9H1B7	I2BPL_HUMAN	chromosome 14 open reading frame 4	637						nucleus					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.00347)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)		TGGGCGAGTGCGCTGTGCCCA	0.682													11	18					0	0	1	0	0		T	77492225	T	T	77492225	2	4	103	1	0	0	0	0	0	0	0	1	1776	755	27	1		1	C14orf4	14	77492225	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2497002	77492225	29857315	1397	63346											
AHSA1	10598	broad.mit.edu	37	chr14	77935587	77935587	+	Frame_Shift_Del	DEL	T	-	-																															ttggctatggcgcacgcttaTtttagggccagcggcagggg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:77935587delT	uc001xtw.2	+	9	1172	c.1012delT	c.(1012-1014)TTTfs	p.F338fs		NM_012111	NP_036243	O95433	AHSA1_HUMAN	activator of heat shock 90kDa protein ATPase	338					protein folding|response to stress	cytosol|endoplasmic reticulum	ATPase activator activity|chaperone binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		CGCACGCTTATTTTAGGGCCA	0.597													60	103	---	---	---	---						.	-	77935587	-	-	77935587	7	5	103	1	0	1	0	1	0	0	0	0	418	1493	52	0	1046	0	AHSA1	14	77935587	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	443362	77935587	29413953	1398	63347											
ALKBH1	8846	broad.mit.edu	37	chr14	78174328	78174328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagtcgccacagagcccacgGccgctgccatcttccccatc	7	6	9	19	3	1	1	0	0	1	1	4	2	2	1	6	1	2	1	6	1	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:78174328G>A	uc001xuc.1	-	1	29	c.20C>T	c.(19-21)GCC>GTC	p.A7V	ALKBH1_uc001xud.1_RNA|C14orf156_uc001xue.3_5'Flank	NM_006020	NP_006011	Q13686	ALKB1_HUMAN	alkylated DNA repair protein alkB homolog	7					DNA dealkylation involved in DNA repair|DNA demethylation|oxidative demethylation|RNA repair	mitochondrion	DNA-(apurinic or apyrimidinic site) lyase activity|ferrous iron binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(1)|skin(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		AGAGCCCACGGCCGCTGCCAT	0.637													28	34					0	0	1	0	0		A	78174328	A	A	78174328	3	1	103	1	0	0	0	0	1	0	0	0	526	1203	42	2	1173	2	ALKBH1	14	78174328	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	238741	78174328	29175212	1399	63348											
NRXN3	9369	broad.mit.edu	37	chr14	80328229	80328229	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgcccagagcaacggcacGctcatgaaggagaagcagca	13	3	12	13	3	1	3	1	1	0	2	2	4	2	3	2	2	4	5	2	2	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:80328229G>A	uc001xun.2	+	17	3599	c.3108G>A	c.(3106-3108)ACG>ACA	p.T1036T	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Silent_p.T612T|NRXN3_uc010asw.2_Silent_p.T434T|NRXN3_uc001xur.3_Silent_p.T407T	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1618	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GCAACGGCACGCTCATGAAGG	0.532													15	22					0	0	1	0	0		A	80328229	A	A	80328229	2	1	103	1	0	0	0	0	0	0	0	1	10686	1074	38	1		1	NRXN3	14	80328229	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2153901	80328229	27021311	1400	63349											
TSHR	7253	broad.mit.edu	37	chr14	81610526	81610526	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggctcaggcataccggggGcagagggttcctccaaagaa	11	5	14	11	1	1	2	1	0	0	2	3	2	3	2	3	5	1	4	3	5	3	2	rs145012289	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:81610526G>A	uc001xvd.1	+	10	2280	c.2124G>A	c.(2122-2124)GGG>GGA	p.G708G		NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	708	Cytoplasmic (Potential).				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	CATACCGGGGGCAGAGGGTTC	0.493			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						47	71					0	0	1	0	0		A	81610526	A	A	81610526	2	1	103	1	0	0	0	0	0	0	0	1	16648	1190	42	2		2	TSHR	14	81610526	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1282297	81610526	25739014	1401	63350											
FOXN3	1112	broad.mit.edu	37	chr14	89878419	89878419	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tagatatccttcactggcagGcgcttggttggagagtcctc	7	12	12	10	1	1	2	1	0	0	2	4	3	3	2	2	4	0	3	2	4	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:89878419G>A	uc001xxo.3	-	2	539	c.402C>T	c.(400-402)CGC>CGT	p.R134R	FOXN3_uc001xxn.3_Silent_p.R134R|FOXN3_uc010atk.2_Silent_p.R134R|FOXN3_uc001xxp.2_Silent_p.R134R	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1	134	Fork-head.				DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(2)|ovary(1)	3						TCACTGGCAGGCGCTTGGTTG	0.483													38	70					0	0	1	0	0		A	89878419	A	A	89878419	2	1	103	1	0	0	0	0	0	0	0	1	6035	1190	42	2		2	FOXN3	14	89878419	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	8267893	89878419	17471121	1402	63351											
TTC7B	145567	broad.mit.edu	37	chr14	91142998	91142998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcagcacagcgtcccGgttggcctgaaaaaacatgg	10	7	11	13	2	1	1	1	1	0	0	2	1	2	1	3	3	4	3	3	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:91142998G>A	uc001xyp.2	-	9	1143	c.1021C>T	c.(1021-1023)CGG>TGG	p.R341W	TTC7B_uc010ats.2_RNA	NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	341							binding			ovary(2)	2		Melanoma(154;0.222)				ACAGCGTCCCGGTTGGCCTGA	0.537													27	49					0	0	1	0	0		A	91142998	A	A	91142998	3	1	103	1	0	0	0	0	1	0	0	0	16739	1115	39	1	1558	1	TTC7B	14	91142998	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1264579	91142998	16206542	1403	63352											
CCDC88C	440193	broad.mit.edu	37	chr14	91779774	91779774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcccgccgcagcgcctggcGctcagcctccagctcgccca	4	5	11	21	5	1	0	1	0	0	0	4	0	3	0	6	1	3	3	6	1	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:91779774G>A	uc010aty.2	-	15	2485	c.2386C>T	c.(2386-2388)CGC>TGC	p.R796C		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	796	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				AGCGCCTGGCGCTCAGCCTCC	0.687													5	18					0	0	1	0	0		A	91779774	A	A	91779774	3	1	103	1	0	0	0	0	1	0	0	0	2868	1087	38	1	3764	1	CCDC88C	14	91779774	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	636776	91779774	15569766	1404	63353											
FBLN5	10516	broad.mit.edu	37	chr14	92347755	92347755	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttcctgtgctcacattcGttgatgtctgaaatgcaggg	7	14	12	8	1	2	2	1	2	1	0	4	2	3	2	1	2	2	4	1	2	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:92347755G>A	uc001xzx.3	-	9	1343	c.870C>T	c.(868-870)AAC>AAT	p.N290N	FBLN5_uc010aud.2_Silent_p.N295N|FBLN5_uc010aue.2_Silent_p.N331N	NM_006329	NP_006320	Q9UBX5	FBLN5_HUMAN	fibulin 5 precursor	290	EGF-like 6; calcium-binding (Potential).				cell-matrix adhesion|elastic fiber assembly|protein localization at cell surface|regulation of removal of superoxide radicals	extracellular space|proteinaceous extracellular matrix|soluble fraction	calcium ion binding|integrin binding|protein C-terminus binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		all_cancers(154;0.0722)				GCTCACATTCGTTGATGTCTG	0.547													26	52					0	0	1	0	0		A	92347755	A	A	92347755	2	1	103	1	0	0	0	0	0	0	0	1	5714	1136	40	1		1	FBLN5	14	92347755	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	567981	92347755	15001785	1405	63354											
FAM181A	90050	broad.mit.edu	37	chr14	94394791	94394791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctcccagaagtattccCggctcccgcggggccttcct	4	10	10	17	3	1	1	0	0	1	1	5	1	4	1	5	3	0	3	5	3	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:94394791C>T	uc001ybz.1	+	3	653	c.346C>T	c.(346-348)CGG>TGG	p.R116W	C14orf86_uc001yby.2_5'Flank|FAM181A_uc010aus.1_Missense_Mutation_p.R54W|FAM181A_uc001yca.1_Missense_Mutation_p.R54W	NM_138344	NP_612353	Q8N9Y4	F181A_HUMAN	hypothetical protein LOC90050	116											0						GAAGTATTCCCGGCTCCCGCG	0.637													18	20					0	0	1	0	0		T	94394791	T	T	94394791	3	4	103	1	0	0	0	0	1	0	0	0	5519	643	23	1	352	1	FAM181A	14	94394791	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2047036	94394791	12954749	1406	63355											
SERPINA11	256394	broad.mit.edu	37	chr14	94915004	94915004	+	Frame_Shift_Del	DEL	G	-	-																															ggctctgagagctgatgcctGgggggttgaggcccctgcag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:94915004delG	uc001ydd.1	-	2	168	c.108delC	c.(106-108)CCCfs	p.P36fs		NM_001080451	NP_001073920	Q86U17	SPA11_HUMAN	serpin peptidase inhibitor, clade A (alpha-1	36					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			kidney(1)	1				COAD - Colon adenocarcinoma(157;0.211)		GCTGATGCCTGGGGGGTTGAG	0.567													68	131	---	---	---	---						.	-	94915004	-	-	94915004	7	5	103	1	0	1	0	1	0	0	0	0	14113	1335	47	0	1176	0	SERPINA11	14	94915004	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	520213	94915004	12434536	1407	63356											
DEGS2	123099	broad.mit.edu	37	chr14	100615484	100615484	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcccaggcccaggaaggAgctggccagcaggtagacca	11	2	15	13	0	0	1	0	0	0	1	0	3	0	3	4	6	2	3	4	6	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:100615484A>C	uc001ygx.2	-	2	734	c.646T>G	c.(646-648)TCC>GCC	p.S216A		NM_206918	NP_996801	Q6QHC5	DEGS2_HUMAN	degenerative spermatocyte homolog 2, lipid	216	Helical; (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	sphingosine hydroxylase activity				0		Melanoma(154;0.212)				CCCAGGAAGGAGCTGGCCAGC	0.647													30	47					0	0	1	0	0		C	100615484	C	C	100615484	3	2	103	1	0	0	0	0	1	0	0	0	4429	304	11	5	333	5	DEGS2	14	100615484	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	5700480	100615484	6734056	1408	63357											
WDR25	79446	broad.mit.edu	37	chr14	100992378	100992378	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccaaccagattttccacGtaagaaatcccatttggcat	12	12	5	12	1	1	2	0	0	1	2	4	2	3	2	4	1	1	2	4	1	3	4	rs142505900		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:100992378G>A	uc010avx.2	+	5	1365	c.1272_splice	c.e5+1	p.H424_splice	WDR25_uc001yhm.2_Splice_Site_p.H416_splice|WDR25_uc001yhn.2_Splice_Site_p.H424_splice|WDR25_uc010avy.2_Splice_Site|WDR25_uc001yho.2_Splice_Site_p.H167_splice	NM_001161476	NP_001154948	Q64LD2	WDR25_HUMAN	WD repeat domain 25												0		Melanoma(154;0.212)				GATTTTCCACGTAAGAAATCC	0.542													23	18					0	0	1	0	0		A	100992378	A	A	100992378	5	1	103	1	0	0	0	0	0	0	1	0	17308	1159	40	1	1287	1	WDR25	14	100992378	Splice_Site	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	376894	100992378	6357162	1409	63358											
PPP2R5C	5527	broad.mit.edu	37	chr14	102372842	102372842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtttccttccttgtaccGcaactcaaagacccattgga	10	12	6	13	1	1	1	1	0	0	1	3	2	3	2	4	1	2	3	4	1	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:102372842G>A	uc001yko.2	+	10	1267	c.1127G>A	c.(1126-1128)CGC>CAC	p.R376H	PPP2R5C_uc010txr.1_Missense_Mutation_p.R407H|PPP2R5C_uc001ykk.2_Missense_Mutation_p.R431H|PPP2R5C_uc010txt.1_Missense_Mutation_p.R366H|PPP2R5C_uc001ykn.2_Missense_Mutation_p.R376H|PPP2R5C_uc001ykp.2_Missense_Mutation_p.R376H|PPP2R5C_uc001ykq.2_Intron	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	376					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						TCCTTGTACCGCAACTCAAAG	0.398													40	72					0	0	1	0	0		A	102372842	A	A	102372842	3	1	103	1	0	0	0	0	1	0	0	0	12416	1087	38	1	1534	1	PPP2R5C	14	102372842	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1380464	102372842	4976698	1410	63359											
DYNC1H1	1778	broad.mit.edu	37	chr14	102476662	102476662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccattatgacttcggtcttCgggctttgaagagtgtgctg	6	14	13	8	2	1	3	0	2	1	1	3	3	1	3	1	2	1	2	1	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:102476662C>T	uc001yks.2	+	31	6435	c.6271C>T	c.(6271-6273)CGG>TGG	p.R2091W		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2091	AAA 1 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CTTCGGTCTTCGGGCTTTGAA	0.428													27	43					0	0	1	0	0		T	102476662	T	T	102476662	3	4	103	1	0	0	0	0	1	0	0	0	4847	875	31	1	6393	1	DYNC1H1	14	102476662	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	103820	102476662	4872878	1411	63360											
TECPR2	9895	broad.mit.edu	37	chr14	102918829	102918829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgcagctgcctcccgaaGccgagatgcgcgcctatgcc	6	6	13	16	5	0	1	0	0	0	1	1	3	1	1	5	1	6	2	5	1	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:102918829G>A	uc001ylw.1	+	16	3653	c.3505G>A	c.(3505-3507)GCC>ACC	p.A1169T	TECPR2_uc010awl.2_Missense_Mutation_p.A1169T|TECPR2_uc010txx.1_Missense_Mutation_p.A332T	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1169							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						GCCTCCCGAAGCCGAGATGCG	0.682													7	17					0	0	1	0	0		A	102918829	A	A	102918829	3	1	103	1	0	0	0	0	1	0	0	0	15769	971	34	2	3563	2	TECPR2	14	102918829	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	442167	102918829	4430711	1412	63361											
C14orf73	91828	broad.mit.edu	37	chr14	103566847	103566847	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatgacggcccagctacCggccattcccaggccactcc	8	6	9	18	2	0	2	0	2	0	0	2	2	2	2	6	3	2	1	6	3	2	2	rs147118623		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:103566847C>T	uc001ymk.2	+	1	367	c.291C>T	c.(289-291)ACC>ACT	p.T97T		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	hypothetical protein LOC91828	97											0		Melanoma(154;0.155)	Epithelial(46;0.221)			GCCCAGCTACCGGCCATTCCC	0.632													13	15					0	0	1	0	0		T	103566847	T	T	103566847	2	4	103	1	0	0	0	0	0	0	0	1	1782	639	23	1		1	C14orf73	14	103566847	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	648018	103566847	3782693	1413	63362											
C14orf73	91828	broad.mit.edu	37	chr14	103574001	103574001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgcaccggttcgtggtcCgcgagtacctggcgcgggcg	4	7	18	12	7	0	0	0	0	0	0	2	1	1	0	3	5	2	3	3	5	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:103574001C>T	uc001ymk.2	+	9	1811	c.1735C>T	c.(1735-1737)CGC>TGC	p.R579C		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	hypothetical protein LOC91828	579											0		Melanoma(154;0.155)	Epithelial(46;0.221)			GTTCGTGGTCCGCGAGTACCT	0.602													4	1					0	0	1	0	0		T	103574001	T	T	103574001	3	4	103	1	0	0	0	0	1	0	0	0	1782	652	23	1	1769	1	C14orf73	14	103574001	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	7154	103574001	3775539	1414	63363											
EIF5	1983	broad.mit.edu	37	chr14	103803484	103803484	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagaagcaaacaataggtaAttcttgtaaagcctgtggct	16	10	9	6	0	1	1	0	0	1	1	1	1	1	1	1	2	3	4	1	2	8	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:103803484A>T	uc001ymq.2	+	6	881	c.359A>T	c.(358-360)AAT>ATT	p.N120I	EIF5_uc001ymr.2_Missense_Mutation_p.N120I|EIF5_uc001yms.2_Missense_Mutation_p.N120I|EIF5_uc001ymt.2_Missense_Mutation_p.N120I|EIF5_uc001ymu.2_Missense_Mutation_p.N120I|SNORA28_uc001ymv.1_5'Flank	NM_001969	NP_001960	P55010	IF5_HUMAN	eukaryotic translation initiation factor 5	120					regulation of translational initiation|RNA metabolic process	cytosol	GTP binding|GTPase activity|translation initiation factor activity			pancreas(1)|breast(1)|skin(1)	3		Melanoma(154;0.155)	Epithelial(46;0.182)			ACAATAGGTAATTCTTGTAAA	0.368													8	91					0	0	1	0	0		T	103803484	T	T	103803484	3	4	103	1	0	0	0	0	1	0	0	0	5048	101	4	5	373	5	EIF5	14	103803484	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	229483	103803484	3546056	1415	63364											
MARK3	4140	broad.mit.edu	37	chr14	103934416	103934416	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaatctttcacttgctaAggttaggccgagcagtgatc	10	11	10	10	1	2	1	1	1	1	0	3	2	2	1	1	2	3	4	1	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:103934416A>G	uc001ymz.3	+	12	1823	c.1157A>G	c.(1156-1158)AAG>AGG	p.K386R	MARK3_uc001ymx.3_Missense_Mutation_p.K386R|MARK3_uc001ymw.3_Missense_Mutation_p.K386R|MARK3_uc001yna.3_Splice_Site_p.V371_splice|MARK3_uc001ymy.3_Missense_Mutation_p.K307R|MARK3_uc010awp.2_Missense_Mutation_p.K409R|MARK3_uc010tyb.1_Splice_Site_p.V182_splice	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	386							ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			TCACTTGCTAAGGTTAGGCCG	0.443													30	49					0	0	1	0	0		G	103934416	G	G	103934416	3	3	103	1	0	0	0	0	1	0	0	0	9332	86	3	3	1203	3	MARK3	14	103934416	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	130932	103934416	3415124	1416	63365											
C14orf180	400258	broad.mit.edu	37	chr14	105054178	105054178	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagaggacctcgaggcgCgtgtggttccgagaaccccc	7	5	13	16	4	0	2	0	0	0	2	2	5	1	3	6	3	1	1	6	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:105054178C>T	uc001yow.1	+	3	505	c.204C>T	c.(202-204)CGC>CGT	p.R68R	C14orf180_uc010tyh.1_Silent_p.R68R|C14orf180_uc010awy.1_Silent_p.R68R	NM_001008404	NP_001008404	Q8N912	CN180_HUMAN	hypothetical protein LOC400258	68						integral to membrane					0		Melanoma(154;0.226)	all cancers(16;0.00405)|OV - Ovarian serous cystadenocarcinoma(23;0.0319)|Epithelial(46;0.0784)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.127)		CCTCGAGGCGCGTGTGGTTCC	0.677													6	11					0	0	1	0	0		T	105054178	T	T	105054178	2	4	103	1	0	0	0	0	0	0	0	1	1766	755	27	1		1	C14orf180	14	105054178	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1119762	105054178	2295362	1417	63366											
KIAA0284	283638	broad.mit.edu	37	chr14	105352923	105352923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcccacgtggagcaggggtCggcgctcaccaagggccccc	6	3	16	16	3	1	0	1	0	0	0	2	1	1	1	4	6	1	2	4	6	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:105352923C>T	uc010axb.2	+	12	2571	c.2347C>T	c.(2347-2349)CGG>TGG	p.R783W	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Missense_Mutation_p.R713W|KIAA0284_uc001yps.2_Missense_Mutation_p.R689W|KIAA0284_uc001ypt.2_5'Flank	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	783						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		GAGCAGGGGTCGGCGCTCACC	0.692													4	16					0	0	1	0	0		T	105352923	T	T	105352923	3	4	103	1	0	0	0	0	1	0	0	0	8182	875	31	1	2389	1	KIAA0284	14	105352923	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	298745	105352923	1996617	1418	63367											
CDCA4	55038	broad.mit.edu	37	chr14	105478046	105478046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgccacgtcccatcctgcGtcatctcctcttggatctgc	4	12	8	17	3	4	0	1	0	3	0	7	1	6	1	4	1	3	0	4	1	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:105478046G>A	uc001yqa.2	-	2	317	c.221C>T	c.(220-222)ACG>ATG	p.T74M	CDCA4_uc001yqb.2_Missense_Mutation_p.T74M	NM_145701	NP_663747	Q9BXL8	CDCA4_HUMAN	cell division cycle associated 4	74	SERTA.					nucleus				ovary(1)	1		all_cancers(154;0.0798)|Melanoma(154;0.155)|all_epithelial(191;0.183)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.142)		CCCATCCTGCGTCATCTCCTC	0.642													27	38					0	0	1	0	0		A	105478046	A	A	105478046	3	1	103	1	0	0	0	0	1	0	0	0	3091	1145	40	1	508	1	CDCA4	14	105478046	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	125123	105478046	1871494	1419	63368											
GPR132	29933	broad.mit.edu	37	chr14	105518286	105518286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcgccagccacgcaGtcaggcagttggccggcacc	8	3	14	16	3	1	0	1	0	0	0	1	0	1	0	4	3	3	6	4	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:105518286G>A	uc001yqd.2	-	4	1087	c.188C>T	c.(187-189)ACT>ATT	p.T63I	GPR132_uc001yqc.2_5'UTR|GPR132_uc001yqe.2_Missense_Mutation_p.T54I	NM_013345	NP_037477	Q9UNW8	GP132_HUMAN	G protein-coupled receptor 132	63	Helical; Name=1; (Potential).				response to stress	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.0953)|Melanoma(154;0.155)|all_epithelial(191;0.219)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.02)|all cancers(159;0.0419)|OV - Ovarian serous cystadenocarcinoma(161;0.0521)		CAGCCACGCAGTCAGGCAGTT	0.642													26	43					0	0	1	0	0		A	105518286	A	A	105518286	3	1	103	1	0	0	0	0	1	0	0	0	6657	1029	36	4	958	4	GPR132	14	105518286	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	40240	105518286	1831254	1420	63369											
JAG2	3714	broad.mit.edu	37	chr14	105612833	105612833	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcaggatctcccgaacccGatcactgtggggagaagggg	10	5	15	11	2	2	1	1	0	1	1	3	5	2	2	2	5	2	1	2	5	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:105612833G>A	uc001yqg.2	-	22	3002	c.2598C>T	c.(2596-2598)ATC>ATT	p.I866I	JAG2_uc010axf.2_5'UTR|JAG2_uc001yqf.2_Silent_p.I270I|JAG2_uc001yqh.2_Silent_p.I828I	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	866	Extracellular (Potential).				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding			lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		TCCCGAACCCGATCACTGTGG	0.682													25	30					0	0	1	0	0		A	105612833	A	A	105612833	2	1	103	1	0	0	0	0	0	0	0	1	7951	1048	37	1		1	JAG2	14	105612833	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	94547	105612833	1736707	1421	63370											
BTBD6	90135	broad.mit.edu	37	chr14	105716436	105716436	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accctagaggagtttgccaaCggcgctgcccagtcagacat	10	7	11	13	2	1	2	1	0	0	2	1	3	1	3	3	2	3	2	3	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr14:105716436C>T	uc010tyq.1	+	5	993	c.885C>T	c.(883-885)AAC>AAT	p.N295N	BRF1_uc010tyo.1_Intron|BRF1_uc010typ.1_Intron|BRF1_uc001yql.2_5'Flank|BRF1_uc001yqo.2_5'Flank|BRF1_uc010axg.1_Intron|BRF1_uc001yqp.2_Intron|BRF1_uc001yqn.2_5'Flank|BRF1_uc010axh.1_5'Flank|BRF1_uc010axj.1_5'Flank	NM_033271	NP_150374	Q96KE9	BTBD6_HUMAN	BTB domain protein BDPL	295						cytoplasmic mRNA processing body					0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.0163)|Epithelial(46;0.0391)	Epithelial(152;0.18)		AGTTTGCCAACGGCGCTGCCC	0.597													30	68					0	0	1	0	0		T	105716436	T	T	105716436	2	4	103	1	0	0	0	0	0	0	0	1	1548	535	19	1		1	BTBD6	14	105716436	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	103603	105716436	1633104	1422	63371											
OR4M2	390538	broad.mit.edu	37	chr15	22369050	22369050	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcattcattctatcataCaggtggctctcattgttcga	8	16	7	10	1	5	0	4	0	2	0	7	1	5	0	0	2	1	3	0	2	2	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:22369050C>T	uc010tzu.1	+	1	475	c.475C>T	c.(475-477)CAG>TAG	p.Q159*	LOC727924_uc001yua.2_RNA|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	159	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TTCTATCATACAGGTGGCTCT	0.507													56	284					0	0	1	0	0		T	22369050	T	T	22369050	4	4	103	1	0	0	0	0	0	1	0	0	11095	479	17	4	477	4	OR4M2	15	22369050	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08		22369050	80162342	1423	63372											
NIPA1	123606	broad.mit.edu	37	chr15	23049010	23049010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggccagcaggaccagcGtggtaaacacgacgtagtag	12	5	14	10	3	0	1	0	1	0	0	0	3	0	2	2	3	3	4	2	3	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:23049010G>A	uc001yvc.2	-	5	834	c.809C>T	c.(808-810)ACG>ATG	p.T270M	NIPA1_uc001yvd.2_Missense_Mutation_p.T100M|NIPA1_uc001yve.2_Missense_Mutation_p.T195M	NM_144599	NP_653200	Q7RTP0	NIPA1_HUMAN	non-imprinted in Prader-Willi/Angelman syndrome	270	Helical; (Potential).				cell death	early endosome|integral to membrane|plasma membrane					0		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;4.18e-06)|Epithelial(43;3.97e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00165)		CAGGACCAGCGTGGTAAACAC	0.602													15	22					0	0	1	0	0		A	23049010	A	A	23049010	3	1	103	1	0	0	0	0	1	0	0	0	10441	1145	40	1	184	1	NIPA1	15	23049010	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	679960	23049010	79482382	1424	63373											
ATP10A	57194	broad.mit.edu	37	chr15	25925385	25925385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatagcacgtggcacaagacGcattgtaaatcaaagccacg	15	6	10	10	3	1	1	1	0	0	1	1	2	1	1	1	1	2	4	1	1	5	3	rs146387652		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:25925385G>A	uc010ayu.2	-	20	3855	c.3749C>T	c.(3748-3750)GCG>GTG	p.A1250V		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1250	Extracellular (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GGCACAAGACGCATTGTAAAT	0.493													34	72					0	0	1	0	0		A	25925385	A	A	25925385	3	1	103	1	0	0	0	0	1	0	0	0	1117	1087	38	1	758	1	ATP10A	15	25925385	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2876375	25925385	76606007	1425	63374											
ATP10A	57194	broad.mit.edu	37	chr15	25958891	25958891	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtagacgttgatctcatcGgtaagcgggtgccggatcac	8	10	14	9	4	2	2	2	1	1	1	4	3	2	3	1	3	2	3	1	3	2	3	rs139578740		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:25958891G>A	uc010ayu.2	-	10	2380	c.2274C>T	c.(2272-2274)ACC>ACT	p.T758T		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	758	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TGATCTCATCGGTAAGCGGGT	0.617													19	39					0	0	1	0	0		A	25958891	A	A	25958891	2	1	103	1	0	0	0	0	0	0	0	1	1117	1103	39	1		1	ATP10A	15	25958891	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	33506	25958891	76572501	1426	63375											
GABRA5	2558	broad.mit.edu	37	chr15	27188486	27188486	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgccttcgtcttctcggcGctgatagagtttgccacggt	5	14	11	11	4	2	2	0	1	2	1	4	2	2	2	2	2	2	2	2	2	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:27188486G>A	uc001zbd.1	+	11	1341	c.1002G>A	c.(1000-1002)GCG>GCA	p.A334A	GABRA5_uc001zbe.1_5'Flank	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	334	Helical; (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TCTTCTCGGCGCTGATAGAGT	0.542													3	5					0	0	1	0	0		A	27188486	A	A	27188486	2	1	103	1	0	0	0	0	0	0	0	1	6178	1074	38	1		1	GABRA5	15	27188486	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1229595	27188486	75342906	1427	63376											
HERC2	8924	broad.mit.edu	37	chr15	28437159	28437159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgctgccgtcaatgagaCgggatgcctggttcacggag	7	8	15	11	4	2	1	2	1	0	1	3	4	2	3	2	3	2	3	2	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:28437159C>T	uc001zbj.2	-	53	8505	c.8399G>A	c.(8398-8400)CGT>CAT	p.R2800H	HERC2_uc001zbk.1_Missense_Mutation_p.R335H	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2800	DOC.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GTCAATGAGACGGGATGCCTG	0.597											OREG0022997	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	62	104					0	0	1	0	0		T	28437159	T	T	28437159	3	4	103	1	0	0	0	0	1	0	0	0	7074	536	19	1	6269	1	HERC2	15	28437159	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1248673	28437159	74094233	1428	63377											
MTMR15	22909	broad.mit.edu	37	chr15	31196885	31196887	+	In_Frame_Del	DEL	CCT	-	-																															tcatgatgtcagaagggaaaCctcctgacaaaaaaaggcct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:31196885_31196887delCCT	uc001zff.2	+	2	310_312	c.19_21delCCT	c.(19-21)CCTdel	p.P8del	MTMR15_uc001zfc.3_In_Frame_Del_p.P8del|MTMR15_uc010azw.2_In_Frame_Del_p.P8del|MTMR15_uc001zfd.3_In_Frame_Del_p.P8del|MTMR15_uc001zfe.2_5'UTR	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a	8					double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		AGAAGGGAAACCTCCTGACAAAA	0.34								Direct_reversal_of_damage|Editing_and_processing_nucleases					53	84	---	---	---	---						.	-	31196887	-	-	31196885	7	5	103	1	0	1	0	1	0	0	0	0	9961	507	18	0	21	0	MTMR15	15	31196885	In_Frame_Del	DEL	CCT	TCGA-BR-A4QL-01A-31D-A25D-08	2759726	31196885	71334507	1429	63378											
RYR3	6263	broad.mit.edu	37	chr15	33858966	33858966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggctgctcggatcatcCggaacactacagccttattc	9	9	8	15	2	1	0	1	0	0	0	4	2	2	2	3	3	4	2	3	3	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:33858966C>T	uc001zhi.2	+	12	1304	c.1234C>T	c.(1234-1236)CGG>TGG	p.R412W	RYR3_uc010bar.2_Missense_Mutation_p.R412W	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	412	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TCGGATCATCCGGAACACTAC	0.537													24	55					0	0	1	0	0		T	33858966	T	T	33858966	3	4	103	1	0	0	0	0	1	0	0	0	13795	643	23	1	1280	1	RYR3	15	33858966	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2662081	33858966	68672426	1430	63379											
GOLGA8A	23015	broad.mit.edu	37	chr15	34673720	34673720	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctcaccaaggagctgcacGactggctgtgcagtagggtt	9	9	13	10	1	1	0	1	0	1	0	2	2	1	1	1	3	3	6	1	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:34673720G>A	uc001zii.2	-	16	1813	c.1704C>T	c.(1702-1704)GTC>GTT	p.V568V	GOLGA8A_uc001zih.2_Silent_p.V424V|uc001zil.2_5'Flank	NM_181077	NP_851422	A7E2F4	GOG8A_HUMAN	golgi autoantigen, golgin subfamily a, 8A	596	Golgi-targeting domain (By similarity).			V -> I (in Ref. 1; AAF28463, 2; BAA74878, 4; AAI44610/AAI50330/AAI52411 and 5; CAH18214).		Golgi cisterna membrane					0		all_lung(180;2.78e-08)		all cancers(64;8.27e-19)|GBM - Glioblastoma multiforme(113;6.98e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		GGAGCTGCACGACTGGCTGTG	0.592													22	127					0	0	1	0	0		A	34673720	A	A	34673720	2	1	103	1	0	0	0	0	0	0	0	1	6578	1045	37	1		1	GOLGA8A	15	34673720	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	814754	34673720	67857672	1431	63380											
MEIS2	4212	broad.mit.edu	37	chr15	37375970	37375970	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaaaatgtttgaccttttAccttgctcactgctgttgtc	8	16	8	9	0	1	1	1	1	0	0	2	2	1	2	2	1	3	4	2	1	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:37375970A>G	uc001zjr.2	-	7	1791	c.754_splice	c.e7+1	p.G252_splice	MEIS2_uc001zjl.2_Splice_Site_p.G239_splice|MEIS2_uc010ucj.1_Splice_Site_p.G239_splice|MEIS2_uc001zjm.2_Splice_Site_p.G164_splice|MEIS2_uc001zjn.2_Splice_Site_p.G106_splice|MEIS2_uc001zjo.2_Splice_Site_p.G252_splice|MEIS2_uc001zjp.2_Splice_Site_p.G252_splice|MEIS2_uc001zjs.2_Splice_Site_p.G252_splice|MEIS2_uc001zju.2_Splice_Site_p.G239_splice|MEIS2_uc001zjt.2_Splice_Site_p.G252_splice	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c						negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		TTGACCTTTTACCTTGCTCAC	0.502													22	43					0	0	1	0	0		G	37375970	G	G	37375970	5	3	103	1	0	0	0	0	0	0	1	0	9486	405	14	3	764	3	MEIS2	15	37375970	Splice_Site	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2702250	37375970	65155422	1432	63381											
PLCB2	5330	broad.mit.edu	37	chr15	40590816	40590816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaatgattgagtggctgcGtcatgtcgtggtggagcagc	8	11	16	6	2	1	2	1	2	0	0	2	3	1	3	0	3	3	3	0	3	1	2	rs143144314	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:40590816G>A	uc001zld.2	-	10	1245	c.944C>T	c.(943-945)ACG>ATG	p.T315M	PLCB2_uc010bbo.2_Missense_Mutation_p.T315M|PLCB2_uc010ucm.1_Missense_Mutation_p.T315M	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	315	PI-PLC X-box.				activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		GAGTGGCTGCGTCATGTCGTG	0.572													26	31					0	0	1	0	0		A	40590816	A	A	40590816	3	1	103	1	0	0	0	0	1	0	0	0	12047	1145	40	1	2705	1	PLCB2	15	40590816	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3214846	40590816	61940576	1433	63382											
DISP2	85455	broad.mit.edu	37	chr15	40659533	40659533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caagtgctcccagagtagtgCcatctaccaactcctgcact	10	9	7	15	0	1	1	0	0	1	1	3	1	3	1	4	0	5	3	4	0	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:40659533C>T	uc001zlk.1	+	8	1309	c.1220C>T	c.(1219-1221)GCC>GTC	p.A407V		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	407					smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		CAGAGTAGTGCCATCTACCAA	0.577													78	175					0	0	1	0	0		T	40659533	T	T	40659533	3	4	103	1	0	0	0	0	1	0	0	0	4546	739	26	2	1250	2	DISP2	15	40659533	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	68717	40659533	61871859	1434	63383											
DISP2	85455	broad.mit.edu	37	chr15	40661144	40661144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacctccaggcctccgccGtggttggttcactagccgtc	4	9	12	16	3	1	0	1	0	0	0	4	0	3	0	6	4	1	3	6	4	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:40661144G>A	uc001zlk.1	+	8	2920	c.2831G>A	c.(2830-2832)CGT>CAT	p.R944H		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	944					smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		GGCCTCCGCCGTGGTTGGTTC	0.622													44	70					0	0	1	0	0		A	40661144	A	A	40661144	3	1	103	1	0	0	0	0	1	0	0	0	4546	1145	40	1	2861	1	DISP2	15	40661144	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1611	40661144	61870248	1435	63384											
C15orf23	90417	broad.mit.edu	37	chr15	40685709	40685709	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgaaagaggaaagagtcCgattcctagaacagcaaacc	18	5	10	8	1	0	5	0	1	0	4	2	7	2	6	3	1	3	1	3	1	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:40685709C>T	uc001zll.2	+	9	977	c.862C>T	c.(862-864)CGA>TGA	p.R288*	C15orf23_uc010ucp.1_3'UTR|C15orf23_uc001zlo.2_3'UTR|C15orf23_uc001zlm.2_RNA|C15orf23_uc001zln.2_RNA	NM_033286	NP_150628	Q9Y448	T4AF1_HUMAN	TRAF4 associated factor 1 isoform a	288	Potential.					nucleus	protein binding			ovary(1)|skin(1)	2		all_cancers(109;2.34e-14)|all_epithelial(112;9.21e-12)|Lung NSC(122;2.95e-09)|all_lung(180;6.03e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.39e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0798)		GGAAAGAGTCCGATTCCTAGA	0.358													35	62					0	0	1	0	0		T	40685709	T	T	40685709	4	4	103	1	0	0	0	0	0	1	0	0	1788	644	23	1	939	1	C15orf23	15	40685709	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	24565	40685709	61845683	1436	63385											
RPAP1	26015	broad.mit.edu	37	chr15	41812993	41812993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagcacccactgcaggacccGcatggctgtgcccatggtgt	7	8	12	14	1	0	0	0	0	0	0	0	1	0	1	3	3	3	4	3	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:41812993G>A	uc001zod.2	-	22	3515	c.3391C>T	c.(3391-3393)CGG>TGG	p.R1131W	RPAP1_uc001zoc.2_Missense_Mutation_p.R150W	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	1131	Leu-rich.					nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		TGCAGGACCCGCATGGCTGTG	0.662													27	32					0	0	1	0	0		A	41812993	A	A	41812993	3	1	103	1	0	0	0	0	1	0	0	0	13566	1086	38	1	806	1	RPAP1	15	41812993	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1127284	41812993	60718399	1437	63386											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42139703	42139703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggtcagcgactccttcCgggagtactcggcccctggt	4	10	12	15	3	2	0	1	0	1	0	5	2	4	1	4	4	2	1	4	4	1	2	rs141583854	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:42139703C>T	uc010bco.2	+	19	2217	c.2116C>T	c.(2116-2118)CGG>TGG	p.R706W	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.R937W|JMJD7-PLA2G4B_uc010bcn.2_Intron|JMJD7-PLA2G4B_uc001zoq.3_Missense_Mutation_p.R407W	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	706	PLA2c.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						CGACTCCTTCCGGGAGTACTC	0.662													40	63					0	0	1	0	0		T	42139703	T	T	42139703	3	4	103	1	0	0	0	0	1	0	0	0	7971	643	23	1	2903	1	JMJD7-PLA2G4B	15	42139703	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	326710	42139703	60391689	1438	63387											
TMEM87A	25963	broad.mit.edu	37	chr15	42519917	42519917	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttataactcaccgactgacAtgtcactattctgaacttca	12	13	4	12	1	4	2	3	2	1	0	4	3	4	2	1	0	2	0	1	0	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:42519917A>G	uc010udd.1	-	14	1450	c.1291T>C	c.(1291-1293)TGT>CGT	p.C431R		NM_015497	NP_056312	Q8NBN3	TM87A_HUMAN	transmembrane protein 87A isoform 1	431						integral to membrane				ovary(1)	1		all_cancers(109;4.28e-16)|all_epithelial(112;1.04e-14)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;1.03e-06)		ACCGACTGACATGTCACTATT	0.363													18	39					0	0	1	0	0		G	42519917	G	G	42519917	3	3	103	1	0	0	0	0	1	0	0	0	16235	217	8	3	404	3	TMEM87A	15	42519917	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	380214	42519917	60011475	1439	63388											
ZFP106	64397	broad.mit.edu	37	chr15	42734448	42734448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttatttgaagagaggctcCggtgggtgatggagacacat	10	10	16	5	1	0	4	0	2	0	2	1	6	1	4	1	5	0	2	1	5	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:42734448C>T	uc001zpw.2	-	7	3852	c.3517G>A	c.(3517-3519)GGA>AGA	p.G1173R	ZFP106_uc001zpu.2_Missense_Mutation_p.G358R|ZFP106_uc001zpv.2_Missense_Mutation_p.G358R|ZFP106_uc001zpx.2_Missense_Mutation_p.G401R	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1173						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		AGAGAGGCTCCGGTGGGTGAT	0.507													38	49					0	0	1	0	0		T	42734448	T	T	42734448	3	4	103	1	0	0	0	0	1	0	0	0	17662	661	23	1	2186	1	ZFP106	15	42734448	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	214531	42734448	59796944	1440	63389											
ZFP106	64397	broad.mit.edu	37	chr15	42743379	42743379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgaggcttttcccttgccGcactgccattctttccacta	6	13	7	15	2	1	0	0	0	1	0	3	2	3	0	4	1	2	2	4	1	1	6	rs142329440		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:42743379G>A	uc001zpw.2	-	2	1357	c.1022C>T	c.(1021-1023)GCG>GTG	p.A341V	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Missense_Mutation_p.A124V|ZFP106_uc001zpy.1_Missense_Mutation_p.A364V	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	341						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		TTCCCTTGCCGCACTGCCATT	0.468													6	96					0	0	1	0	0		A	42743379	A	A	42743379	3	1	103	1	0	0	0	0	1	0	0	0	17662	1087	38	1	4701	1	ZFP106	15	42743379	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	8931	42743379	59788013	1441	63390											
UBR1	197131	broad.mit.edu	37	chr15	43237587	43237587	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtctcttggctcctagcaatCtcttctataatgcagtgttg	7	16	8	10	0	3	0	0	0	3	0	6	0	4	0	1	1	2	4	1	1	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:43237587C>T	uc001zqq.2	-	47	5256	c.5190G>A	c.(5188-5190)GAG>GAA	p.E1730E		NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	1730					cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			lung(1)	1		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		TCCTAGCAATCTCTTCTATAA	0.443													18	40					0	0	1	0	0		T	43237587	T	T	43237587	2	4	103	1	0	0	0	0	0	0	0	1	16927	912	32	4		4	UBR1	15	43237587	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	494208	43237587	59293805	1442	63391											
CCNDBP1	23582	broad.mit.edu	37	chr15	43482524	43482524	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tactgatttctttccccagcCctgagaacaatgaccttatt	10	14	5	12	0	1	3	0	3	1	1	2	4	2	3	4	0	3	0	4	0	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:43482524C>A	uc001zqv.2	+	6	661	c.430C>A	c.(430-432)CCT>ACT	p.P144T	CCNDBP1_uc001zqu.2_Missense_Mutation_p.P16T|CCNDBP1_uc010bdc.2_Missense_Mutation_p.P144T|CCNDBP1_uc010bdb.2_Missense_Mutation_p.P16T|CCNDBP1_uc010udl.1_5'UTR|CCNDBP1_uc001zqw.2_RNA|CCNDBP1_uc001zqx.2_Missense_Mutation_p.P16T|CCNDBP1_uc010bdd.2_Missense_Mutation_p.P16T|CCNDBP1_uc001zqy.2_Missense_Mutation_p.P16T	NM_012142	NP_036274	O95273	CCDB1_HUMAN	cyclin D-type binding-protein 1 isoform 1	144	Required for interaction with CCND1.|Interaction with RPLP0.|Interaction with TCF3.				cell cycle	cytoplasm|nucleus	protein binding			ovary(1)|kidney(1)	2		all_cancers(109;3.31e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.42e-07)		TTTCCCCAGCCCTGAGAACAA	0.458													19	28					1.96292e-10	2.04979e-10	1	1	0		A	43482524	A	A	43482524	3	1	103	1	0	0	0	0	1	0	0	0	2922	637	22	5	452	5	CCNDBP1	15	43482524	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	244937	43482524	59048868	1443	63392											
TUBGCP4	27229	broad.mit.edu	37	chr15	43675642	43675642	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcccagccagaagaggaCgaggaggatctgggcattgg	11	5	17	8	1	1	2	0	0	1	2	1	6	1	5	2	5	2	1	2	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:43675642C>T	uc001zro.2	+	7	903	c.663C>T	c.(661-663)GAC>GAT	p.D221D	TUBGCP4_uc001zrn.2_Silent_p.D221D|TUBGCP4_uc010bdh.2_RNA	NM_014444	NP_055259	Q9UGJ1	GCP4_HUMAN	tubulin, gamma complex associated protein 4	221					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	structural constituent of cytoskeleton			ovary(3)	3		all_cancers(109;1.27e-10)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.72e-06)|all_lung(180;1.59e-05)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;3.53e-07)		CAGAAGAGGACGAGGAGGATC	0.527													12	35					0	0	1	0	0		T	43675642	T	T	43675642	2	4	103	1	0	0	0	0	0	0	0	1	16794	535	19	1		1	TUBGCP4	15	43675642	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	193118	43675642	58855750	1444	63393											
TUBGCP4	27229	broad.mit.edu	37	chr15	43692300	43692300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgcaagctgagctgcagCactgctgggccctacaaatg	9	7	14	11	0	0	1	0	1	0	0	0	1	0	1	1	2	7	6	1	2	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:43692300C>T	uc001zro.2	+	14	1720	c.1480C>T	c.(1480-1482)CAC>TAC	p.H494Y	TUBGCP4_uc001zrn.2_Missense_Mutation_p.H493Y|TUBGCP4_uc010bdh.2_RNA	NM_014444	NP_055259	Q9UGJ1	GCP4_HUMAN	tubulin, gamma complex associated protein 4	494					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	structural constituent of cytoskeleton			ovary(3)	3		all_cancers(109;1.27e-10)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.72e-06)|all_lung(180;1.59e-05)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;3.53e-07)		TGAGCTGCAGCACTGCTGGGC	0.453													15	27					0	0	1	0	0		T	43692300	T	T	43692300	3	4	103	1	0	0	0	0	1	0	0	0	16794	710	25	2	1531	2	TUBGCP4	15	43692300	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	16658	43692300	58839092	1445	63394											
B2M	567	broad.mit.edu	37	chr15	45007689	45007690	+	Frame_Shift_Del	DEL	TA	-	-																															agtcaaatttcctgaattgcTatgtgtctgggtttcatcca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:45007689_45007690delTA	uc001zuc.2	+	2	196_197	c.136_137delTA	c.(136-138)TATfs	p.Y46fs	B2M_uc010uek.1_Frame_Shift_Del_p.Y46fs|B2M_uc010bdx.1_Frame_Shift_Del_p.Y46fs	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor	46	Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding			ovary(2)|skin(1)	3		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		CCTGAATTGCTATGTGTCTGGG	0.401													62	97	---	---	---	---						.	-	45007690	-	-	45007689	7	5	103	1	0	1	0	1	0	0	0	0	1245	1522	53	0	142	0	B2M	15	45007689	Frame_Shift_Del	DEL	TA	TCGA-BR-A4QL-01A-31D-A25D-08	1315389	45007689	57523703	1446	63395											
B2M	567	broad.mit.edu	37	chr15	45007824	45007825	+	Frame_Shift_Ins	INS	-	C	C																															cttgtactacactgaattcaINScccccactgaaaaagatgag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:45007824_45007825insC	uc001zuc.2	+	2	331_332	c.271_272insC	c.(271-273)ACCfs	p.T91fs	B2M_uc010uek.1_Frame_Shift_Ins_p.T91fs|B2M_uc010bdx.1_Intron	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor	91	Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding			ovary(2)|skin(1)	3		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		CACTGAATTCACCCCCACTGAA	0.416													41	64	---	---	---	---						.	C	45007825	C	C	45007824	7	5	103	1	0	1	1	0	0	0	0	0	1245	159	6	0	277	0	B2M	15	45007824	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	135	45007824	57523568	1447	63396											
DUOX2	50506	broad.mit.edu	37	chr15	45399615	45399615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacagcgaccagcacgtcccGcagggtggtatttcggatgt	9	8	13	11	4	0	0	0	0	0	0	2	2	1	1	2	3	3	3	2	3	2	2	rs140940946	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:45399615G>A	uc010bea.2	-	14	1824	c.1621C>T	c.(1621-1623)CGG>TGG	p.R541W	DUOX2_uc001zun.2_Missense_Mutation_p.R541W	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	541	Extracellular (Potential).|Peroxidase-like; mediates peroxidase activity (By similarity).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		AGCACGTCCCGCAGGGTGGTA	0.537													43	63					0	0	1	0	0		A	45399615	A	A	45399615	3	1	103	1	0	0	0	0	1	0	0	0	4807	1086	38	1	3109	1	DUOX2	15	45399615	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	391791	45399615	57131777	1448	63397											
DUOX2	50506	broad.mit.edu	37	chr15	45404879	45404879	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagcctgatacacaccgtcGgcgtaattggctggtacgcg	9	8	13	11	5	0	2	0	1	0	1	1	2	0	2	2	3	3	3	2	3	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:45404879G>T	uc010bea.2	-	4	401	c.198C>A	c.(196-198)GCC>GCA	p.A66A	DUOX2_uc001zun.2_Silent_p.A66A|DUOXA2_uc001zuo.2_5'Flank|DUOXA2_uc010beb.2_5'Flank	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	66	Extracellular (Potential).|Peroxidase-like; mediates peroxidase activity (By similarity).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		ACACACCGTCGGCGTAATTGG	0.682													32	60					1.47244e-24	1.58434e-24	1	1	0		T	45404879	T	T	45404879	2	4	103	1	0	0	0	0	0	0	0	1	4807	1103	39	5		5	DUOX2	15	45404879	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5264	45404879	57126513	1449	63398											
PLDN	26258	broad.mit.edu	37	chr15	45884368	45884368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccagatgaagggttaataGaggacttgactatagaagac	15	9	11	6	0	0	6	0	2	0	4	1	7	1	7	1	2	0	1	1	2	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:45884368G>A	uc001zvq.2	+	2	343	c.118G>A	c.(118-120)GAG>AAG	p.E40K	PLDN_uc001zvr.2_RNA|PLDN_uc001zvs.2_RNA	NM_012388	NP_036520	Q9UL45	PLDN_HUMAN	pallidin	40					post-Golgi vesicle-mediated transport|synaptic vesicle docking involved in exocytosis	BLOC-1 complex|endomembrane system|membrane	identical protein binding|syntaxin-13 binding			skin(1)	1		Lung NSC(122;1.6e-06)|all_lung(180;1.13e-05)|Melanoma(134;0.027)		all cancers(107;6.58e-18)|GBM - Glioblastoma multiforme(94;5.91e-07)		AGGGTTAATAGAGGACTTGAC	0.358													23	41					0	0	1	0	0		A	45884368	A	A	45884368	3	1	103	1	0	0	0	0	1	0	0	0	12070	943	33	4	124	4	PLDN	15	45884368	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	479489	45884368	56647024	1450	63399											
SLC24A5	283652	broad.mit.edu	37	chr15	48431210	48431211	+	Frame_Shift_Ins	INS	-	T	T																															tgaagcagacttaaaaagaaINSttttttgggtattatccctt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:48431210_48431211insT	uc001zwe.2	+	7	989_990	c.916_917insT	c.(916-918)ATTfs	p.I306fs	SLC24A5_uc010bel.2_Frame_Shift_Ins_p.I246fs|uc001zwf.1_5'Flank|SLC24A5_uc001zwk.2_5'Flank	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	306	Helical; Name=6; (Potential).				response to stimulus	integral to membrane|melanosome|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity				0		all_lung(180;0.00217)		all cancers(107;3.29e-10)|GBM - Glioblastoma multiforme(94;7.32e-07)		CTTAAAAAGAATTTTTTGGGTA	0.312													32	45	---	---	---	---						.	T	48431211	T	T	48431210	7	5	103	1	0	1	1	0	0	0	0	0	14494	101	4	0	942	0	SLC24A5	15	48431210	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	2546842	48431210	54100182	1451	63400											
CYP19A1	1588	broad.mit.edu	37	chr15	51503148	51503148	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtcttcacgtggaatcGtctcagaagtgtaacgagga	12	10	11	8	3	3	1	2	0	2	1	5	4	3	3	0	2	1	1	0	2	4	2	rs72552260		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:51503148G>A	uc001zyz.3	-	11	1620	c.1369C>T	c.(1369-1371)CGA>TGA	p.R457*	CYP19A1_uc001zza.3_Nonsense_Mutation_p.R457*	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	457					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	ACGTGGAATCGTCTCAGAAGT	0.468													31	53					0	0	1	0	0		A	51503148	A	A	51503148	4	1	103	1	0	0	0	0	0	1	0	0	4151	1153	40	1	146	1	CYP19A1	15	51503148	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3071938	51503148	51028244	1452	63401											
MYO5C	55930	broad.mit.edu	37	chr15	52556467	52556467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgccaggattttaaaaaCgtccatctgaaaatcctcct	12	11	7	11	1	1	1	0	1	1	0	4	2	4	2	4	2	2	1	4	2	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:52556467C>T	uc010bff.2	-	9	1104	c.967G>A	c.(967-969)GTT>ATT	p.V323I	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA|MYO5C_uc010ugc.1_Silent_p.T222T	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	323	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		ATTTTAAAAACGTCCATCTGA	0.438													13	30					0	0	1	0	0		T	52556467	T	T	52556467	3	4	103	1	0	0	0	0	1	0	0	0	10098	536	19	1	4393	1	MYO5C	15	52556467	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1053319	52556467	49974925	1453	63402											
UNC13C	440279	broad.mit.edu	37	chr15	54786877	54786877	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaagttaaatggttttatAatgaatatgtgcgtgaactt	14	16	8	3	1	1	2	1	2	0	0	1	2	1	2	0	1	2	2	0	1	8	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:54786877A>C	uc002ack.2	+	18	5005	c.5005A>C	c.(5005-5007)AAT>CAT	p.N1669H		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1669	MHD1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ATGGTTTTATAATGAATATGT	0.323													38	68					0	0	1	0	0		C	54786877	C	C	54786877	3	2	103	1	0	0	0	0	1	0	0	0	17012	362	13	5	5075	5	UNC13C	15	54786877	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2230410	54786877	47744515	1454	63403											
UNC13C	440279	broad.mit.edu	37	chr15	54916051	54916051	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgttccgcccctttgtggaAgtttgtatactgggacccaa	8	13	10	10	1	0	0	0	0	0	0	1	2	1	2	4	2	1	3	4	2	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:54916051A>G	uc002ack.2	+	30	6258	c.6258A>G	c.(6256-6258)GAA>GAG	p.E2086E	UNC13C_uc002acm.2_Silent_p.E7E	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	2086	C2 2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		CCTTTGTGGAAGTTTGTATAC	0.388													17	30					0	0	1	0	0		G	54916051	G	G	54916051	2	3	103	1	0	0	0	0	0	0	0	1	17012	69	3	3		3	UNC13C	15	54916051	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	129174	54916051	47615341	1455	63404											
NEDD4	4734	broad.mit.edu	37	chr15	56144650	56144650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggctttgtccaagtagtcGttctggaattgtgatctaca	8	15	11	7	1	2	1	0	1	2	0	4	2	3	2	1	2	1	3	1	2	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:56144650G>A	uc002adj.2	-	9	2675	c.2375C>T	c.(2374-2376)ACG>ATG	p.T792M	NEDD4_uc002adl.2_Missense_Mutation_p.T373M|NEDD4_uc002adi.2_Missense_Mutation_p.T720M|NEDD4_uc010ugj.1_Missense_Mutation_p.T776M|NEDD4_uc010bfm.2_Missense_Mutation_p.T775M|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	792	Mediates interaction with TNIK (By similarity).|WW 2.				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		CCAAGTAGTCGTTCTGGAATT	0.378													20	37					0	0	1	0	0		A	56144650	A	A	56144650	3	1	103	1	0	0	0	0	1	0	0	0	10329	1145	40	1	1652	1	NEDD4	15	56144650	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1228599	56144650	46386742	1456	63405											
RFX7	64864	broad.mit.edu	37	chr15	56386180	56386181	+	Frame_Shift_Ins	INS	-	T	T																															actcaacaaaacattggttaINStttttttactgtttgcttgc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:56386180_56386181insT	uc010bfn.2	-	9	3745_3746	c.3745_3746insA	c.(3745-3747)ATAfs	p.I1249fs	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Frame_Shift_Ins_p.I1063fs	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	1152					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						AACATTGGTTATTTTTTTACTG	0.416													26	54	---	---	---	---						.	T	56386181	T	T	56386180	7	5	103	1	0	1	1	0	0	0	0	0	13293	449	16	0	640	0	RFX7	15	56386180	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	241530	56386180	46145212	1457	63406											
SLTM	79811	broad.mit.edu	37	chr15	59181694	59181694	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttcataacgaagctgctgTtgttgccttctgagttcctc	6	16	9	10	1	2	1	1	1	1	0	4	2	3	1	2	0	4	6	2	0	2	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:59181694T>C	uc002afp.2	-	16	2227	c.2139A>G	c.(2137-2139)CAA>CAG	p.Q713Q	SLTM_uc002afn.2_Silent_p.Q255Q|SLTM_uc002afo.2_Silent_p.Q695Q|SLTM_uc002afq.2_Silent_p.Q282Q|SLTM_uc010bgd.2_Silent_p.Q282Q	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	713	Arg/Glu-rich.|Potential.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						GAAGCTGCTGTTGTTGCCTTC	0.413													28	36					0	0	1	0	0		C	59181694	C	C	59181694	2	2	103	1	0	0	0	0	0	0	0	1	14779	1722	60	3		3	SLTM	15	59181694	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2795514	59181694	43349698	1458	63407											
GCNT3	9245	broad.mit.edu	37	chr15	59911278	59911280	+	In_Frame_Del	DEL	AAG	-	-																															acacattacacctaaccaacAagaagaaggatcctccccct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:59911278_59911280delAAG	uc002age.2	+	3	1290_1292	c.841_843delAAG	c.(841-843)AAGdel	p.K283del	GCNT3_uc002agd.2_In_Frame_Del_p.K283del	NM_004751	NP_004742	O95395	GCNT3_HUMAN	glucosaminyl (N-acetyl) transferase 3, mucin	283	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|membrane fraction	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)	2						CCTAACCAACAAGAAGAAGGATC	0.429													84	141	---	---	---	---						.	-	59911280	-	-	59911278	7	5	103	1	0	1	0	1	0	0	0	0	6317	131	5	0	843	0	GCNT3	15	59911278	In_Frame_Del	DEL	AAG	TCGA-BR-A4QL-01A-31D-A25D-08	729584	59911278	42620114	1459	63408											
NARG2	79664	broad.mit.edu	37	chr15	60741266	60741267	+	Frame_Shift_Ins	INS	-	T	T																															ttatatactcgtttgataggINStttttttaaaacacatgact																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:60741266_60741267insT	uc002agp.2	-	10	2134_2135	c.1899_1900insA	c.(1897-1902)AAACCTfs	p.K633fs	NARG2_uc002ago.2_Frame_Shift_Ins_p.K496fs|NARG2_uc002agq.3_Frame_Shift_Ins_p.K301fs	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	633_634						nucleus				ovary(1)|lung(1)	2						CGTTTGATAGGTTTTTTTAAAA	0.381													38	46	---	---	---	---						.	T	60741267	T	T	60741266	7	5	103	1	0	1	1	0	0	0	0	0	10187	1261	44	0	1076	0	NARG2	15	60741266	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	829988	60741266	41790126	1460	63409											
TLN2	83660	broad.mit.edu	37	chr15	63000909	63000909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgcggcagtttgccagccGaggcgagcccatcggccgct	5	7	15	14	5	0	0	0	0	0	0	1	2	0	0	4	3	4	3	4	3	0	1	rs145362831		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:63000909G>A	uc002alb.3	+	18	2381	c.2381G>A	c.(2380-2382)CGA>CAA	p.R794Q		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	794					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						TTTGCCAGCCGAGGCGAGCCC	0.617													23	25					0	0	1	0	0		A	63000909	A	A	63000909	3	1	103	1	0	0	0	0	1	0	0	0	15973	1058	37	1	2451	1	TLN2	15	63000909	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2259643	63000909	39530483	1461	63410											
USP3	9960	broad.mit.edu	37	chr15	63824852	63824852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctttttattagtgtgccGgtccaacaaaagcccttggg	8	15	9	9	1	1	0	0	0	1	0	2	0	2	0	3	2	3	0	3	2	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:63824852G>A	uc002amf.2	+	2	227	c.98G>A	c.(97-99)CGG>CAG	p.R33Q	USP3_uc010uii.1_RNA|USP3_uc002amg.2_5'UTR|USP3_uc002amh.2_Missense_Mutation_p.R11Q|USP3_uc010uij.1_Missense_Mutation_p.R33Q|USP3_uc010uik.1_Intron|USP3_uc010bgs.2_Missense_Mutation_p.R16Q	NM_006537	NP_006528	Q9Y6I4	UBP3_HUMAN	ubiquitin thiolesterase 3	33	UBP-type.				DNA repair|histone deubiquitination|mitotic cell cycle|regulation of protein stability|ubiquitin-dependent protein catabolic process	nuclear chromatin	histone binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(80;0.0187)		TTAGTGTGCCGGTCCAACAAA	0.363													37	48					0	0	1	0	0		A	63824852	A	A	63824852	3	1	103	1	0	0	0	0	1	0	0	0	17086	1116	39	1	104	1	USP3	15	63824852	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	823943	63824852	38706540	1462	63411											
SMAD3	4088	broad.mit.edu	37	chr15	67473668	67473668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcggggagacattccacGcctcgcagccatccatgact	8	7	11	15	4	0	2	0	1	0	1	4	3	2	2	4	2	1	1	4	2	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:67473668G>A	uc002aqj.2	+	6	1046	c.748G>A	c.(748-750)GCC>ACC	p.A250T	SMAD3_uc010ujr.1_Missense_Mutation_p.A145T|SMAD3_uc010ujs.1_Missense_Mutation_p.A206T|SMAD3_uc010ujt.1_Missense_Mutation_p.A55T	NM_005902	NP_005893	P84022	SMAD3_HUMAN	mothers against decapentaplegic homolog 3	250	MH2.				activation of caspase activity|cell cycle arrest|cell-cell junction organization|evasion of host defenses by virus|immune response|induction of apoptosis|negative regulation of cell growth|negative regulation of mitotic cell cycle|negative regulation of protein catabolic process|negative regulation of protein phosphorylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|protein stabilization|regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|transport|wound healing	cytosol|nuclear inner membrane|receptor complex	beta-catenin binding|co-SMAD binding|metal ion binding|protein homodimerization activity|protein kinase binding|R-SMAD binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor binding|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|ubiquitin protein ligase binding			large_intestine(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5				Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(7;0.125)		GACATTCCACGCCTCGCAGCC	0.592													23	31					0	0	1	0	0		A	67473668	A	A	67473668	3	1	103	1	0	0	0	0	1	0	0	0	14784	1087	38	1	848	1	SMAD3	15	67473668	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3648816	67473668	35057724	1463	63412											
LBXCOR1	390598	broad.mit.edu	37	chr15	68122574	68122574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccgccgatgatttggaaaCgaggaaatcctatccagacc	12	7	10	12	3	0	2	0	1	0	1	2	6	2	4	5	2	1	0	5	2	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:68122574C>T	uc002aqy.1	+	5	2321	c.2321C>T	c.(2320-2322)ACG>ATG	p.T774M		NM_001031807	NP_001026977	P84550	SKOR1_HUMAN	transcriptional corepressor Corl1	818					negative regulation of BMP signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|dendrite|neuronal cell body|nucleus	nucleotide binding|SMAD binding|transcription repressor activity				0						GATTTGGAAACGAGGAAATCC	0.517													20	30					0	0	1	0	0		T	68122574	T	T	68122574	3	4	103	1	0	0	0	0	1	0	0	0	8671	536	19	1	2339	1	LBXCOR1	15	68122574	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	648906	68122574	34408818	1464	63413											
PKM2	5315	broad.mit.edu	37	chr15	72511345	72511345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtgaatcaatgtccaggcGgcacatgtgctccaggaatg	10	9	13	9	1	1	1	1	1	0	0	3	2	3	2	2	4	1	2	2	4	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:72511345G>A	uc002atx.1	-	2	335	c.94C>T	c.(94-96)CGC>TGC	p.R32C	PKM2_uc010bit.1_Missense_Mutation_p.R37C|PKM2_uc010uki.1_Missense_Mutation_p.R106C|PKM2_uc002atv.1_Missense_Mutation_p.R67C|PKM2_uc002atw.1_Missense_Mutation_p.R32C|PKM2_uc002aty.1_Missense_Mutation_p.R32C|PKM2_uc010ukj.1_Silent_p.A47A|PKM2_uc010ukk.1_Missense_Mutation_p.R32C|PKM2_uc010biu.1_Missense_Mutation_p.R53C|PKM2_uc002atz.1_RNA	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	32					glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	ATGTCCAGGCGGCACATGTGC	0.572													28	41					0	0	1	0	0		A	72511345	A	A	72511345	3	1	103	1	0	0	0	0	1	0	0	0	11996	1116	39	1	1712	1	PKM2	15	72511345	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4388771	72511345	30020047	1465	63414											
NEO1	4756	broad.mit.edu	37	chr15	73581529	73581529	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctacactggctggaaggcGaggaatgagaccaaaaatga	15	6	13	7	1	1	2	0	2	1	1	1	6	1	4	1	4	1	1	1	4	5	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:73581529G>T	uc002avm.3	+	25	3834	c.3692G>T	c.(3691-3693)CGA>CTA	p.R1231L	NEO1_uc010ukx.1_Missense_Mutation_p.R1220L|NEO1_uc010uky.1_Missense_Mutation_p.R1231L|NEO1_uc010ukz.1_Missense_Mutation_p.R644L|NEO1_uc002avn.3_Missense_Mutation_p.R869L	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	1231	Cytoplasmic (Potential).				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						GCTGGAAGGCGAGGAATGAGA	0.502													16	19					1.5739e-10	1.64606e-10	1	1	0		T	73581529	T	T	73581529	3	4	103	1	0	0	0	0	1	0	0	0	10355	1058	37	5	3790	5	NEO1	15	73581529	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1070184	73581529	28949863	1466	63415											
CD276	80381	broad.mit.edu	37	chr15	73996677	73996677	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actggcaacgtgaccacgtcGcagatggccaacgagcaggg	11	4	14	12	4	0	2	0	1	0	1	1	3	0	2	2	3	3	3	2	3	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:73996677G>A	uc002avv.1	+	6	1467	c.1233G>A	c.(1231-1233)TCG>TCA	p.S411S	CD276_uc010bjd.1_Silent_p.S265S|CD276_uc002avu.1_Silent_p.S411S|CD276_uc002avw.1_Silent_p.S193S|CD276_uc010ulb.1_Silent_p.S357S|CD276_uc002avx.2_RNA	NM_001024736	NP_001019907	Q5ZPR3	CD276_HUMAN	CD276 antigen isoform a	411	Extracellular (Potential).|Ig-like C2-type 2.				cell proliferation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of T cell proliferation|regulation of immune response|T cell activation	external side of plasma membrane|integral to membrane	receptor binding			skin(1)	1						TGACCACGTCGCAGATGGCCA	0.647											OREG0023265	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	28					0	0	1	0	0		A	73996677	A	A	73996677	2	1	103	1	0	0	0	0	0	0	0	1	2995	1074	38	1		1	CD276	15	73996677	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	415148	73996677	28534715	1467	63416											
LOXL1	4016	broad.mit.edu	37	chr15	74235272	74235272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcccacctgtactccctgCgctgtgctgcggaggagaag	7	7	14	13	2	0	1	0	0	0	1	1	4	1	2	3	2	5	3	3	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:74235272C>T	uc002awc.1	+	2	1516	c.1180C>T	c.(1180-1182)CGC>TGC	p.R394C		NM_005576	NP_005567	Q08397	LOXL1_HUMAN	lysyl oxidase-like 1 preproprotein	394	Lysyl-oxidase like.				protein deamination	extracellular space	copper ion binding				0						GTACTCCCTGCGCTGTGCTGC	0.587													10	148					0	0	1	0	0		T	74235272	T	T	74235272	3	4	103	1	0	0	0	0	1	0	0	0	8917	768	27	1	1186	1	LOXL1	15	74235272	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	238595	74235272	28296120	1468	63417											
GOLGA6A	342096	broad.mit.edu	37	chr15	74367334	74367334	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgctgggggcgccagggatgGgggctcagctgagaaatgaa	9	6	19	7	1	1	2	1	2	0	1	1	4	1	3	1	5	2	3	1	5	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:74367334G>T	uc002axa.1	-	11	897	c.856C>A	c.(856-858)CCA>ACA	p.P286T		NM_001038640	NP_001033729	Q9NYA3	GOG6A_HUMAN	golgi autoantigen, golgin subfamily a, 6	286	Potential.										0						GCCAGGGATGGGGGCTCAGCT	0.537													18	88					1.06801e-11	1.12212e-11	1	1	0		T	74367334	T	T	74367334	3	4	103	1	0	0	0	0	1	0	0	0	6572	1232	43	5	1257	5	GOLGA6A	15	74367334	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	132062	74367334	28164058	1469	63418											
ISLR	3671	broad.mit.edu	37	chr15	74468067	74468067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacgtgggcactgatgggCgtgccctgcctggcacccct	5	7	13	16	2	0	1	0	1	0	0	0	1	0	1	5	3	3	2	5	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:74468067C>T	uc002axg.1	+	2	1150	c.868C>T	c.(868-870)CGT>TGT	p.R290C	ISLR_uc002axh.1_Missense_Mutation_p.R290C	NM_005545	NP_005536	O14498	ISLR_HUMAN	immunoglobulin superfamily containing	290	Ig-like.				cell adhesion	extracellular region				large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						CACTGATGGGCGTGCCCTGCC	0.642													43	85					0	0	1	0	0		T	74468067	T	T	74468067	3	4	103	1	0	0	0	0	1	0	0	0	7874	768	27	1	870	1	ISLR	15	74468067	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	100733	74468067	28063325	1470	63419											
CCDC33	80125	broad.mit.edu	37	chr15	74627335	74627335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttagaggactcagctcgacGctggggacgagagaagcagg	11	5	17	8	3	1	2	1	0	0	2	2	7	1	4	0	4	2	4	0	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:74627335G>A	uc002axo.2	+	18	2439	c.2045G>A	c.(2044-2046)CGC>CAC	p.R682H	CCDC33_uc002axp.2_Missense_Mutation_p.R538H|CCDC33_uc002axq.2_Missense_Mutation_p.R309H|CCDC33_uc002axr.2_Missense_Mutation_p.R275H	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	885	Potential.						protein binding			ovary(3)|skin(2)	5						TCAGCTCGACGCTGGGGACGA	0.572													28	63					0	0	1	0	0		A	74627335	A	A	74627335	3	1	103	1	0	0	0	0	1	0	0	0	2809	1087	38	1	2294	1	CCDC33	15	74627335	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	159268	74627335	27904057	1471	63420											
CLK3	1198	broad.mit.edu	37	chr15	74911553	74911553	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctagatgcatcactgtaagCgataccgctcccctgaacca	11	8	7	15	2	1	2	1	1	0	1	2	3	2	2	5	0	4	3	5	0	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:74911553C>T	uc010uln.1	+	2	921	c.460C>T	c.(460-462)CGA>TGA	p.R154*	CLK3_uc002ayg.3_Nonsense_Mutation_p.R6*|CLK3_uc002ayh.3_5'UTR|CLK3_uc010ulm.1_Nonsense_Mutation_p.R154*|CLK3_uc002ayj.3_Nonsense_Mutation_p.R6*|CLK3_uc002ayk.3_5'UTR	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	154						acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						TCACTGTAAGCGATACCGCTC	0.607													64	85					0	0	1	0	0		T	74911553	T	T	74911553	4	4	103	1	0	0	0	0	0	1	0	0	3541	760	27	1	466	1	CLK3	15	74911553	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	284218	74911553	27619839	1472	63421											
CSK	1445	broad.mit.edu	37	chr15	75094779	75094779	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaactgctggcacctggaCgccgccatgcggccctcctt	7	7	11	16	3	0	1	0	0	0	1	1	2	1	2	5	3	3	2	5	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:75094779C>T	uc010bkb.1	+	14	1461	c.1278C>T	c.(1276-1278)GAC>GAT	p.D426D	CSK_uc002ays.2_Silent_p.D426D|CSK_uc010bkc.1_Silent_p.D235D	NM_001127190	NP_001120662	P41240	CSK_HUMAN	c-src tyrosine kinase	426	Protein kinase.				blood coagulation|epidermal growth factor receptor signaling pathway|T cell costimulation|T cell receptor signaling pathway	centrosome|cytosol|Golgi apparatus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein C-terminus binding			lung(2)|central_nervous_system(1)	3						GGCACCTGGACGCCGCCATGC	0.637													36	68					0	0	1	0	0		T	75094779	T	T	75094779	2	4	103	1	0	0	0	0	0	0	0	1	3946	535	19	1		1	CSK	15	75094779	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	183226	75094779	27436613	1473	63422											
SIN3A	25942	broad.mit.edu	37	chr15	75664484	75664484	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catttcacggggcacatgctCcttggtccatttatctaccc	7	13	7	14	1	2	0	1	0	1	0	4	0	4	0	3	3	2	2	3	3	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:75664484C>A	uc002bai.2	-	21	3917	c.3658G>T	c.(3658-3660)GAG>TAG	p.E1220*	SIN3A_uc002baj.2_Nonsense_Mutation_p.E1220*|SIN3A_uc010uml.1_Nonsense_Mutation_p.E1220*	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	1220					blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						GGCACATGCTCCTTGGTCCAT	0.502													45	83					3.94638e-17	4.20442e-17	1	1	0		A	75664484	A	A	75664484	4	1	103	1	0	0	0	0	0	1	0	0	14350	864	30	5	167	5	SIN3A	15	75664484	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	569705	75664484	26866908	1474	63423											
SNX33	257364	broad.mit.edu	37	chr15	75949393	75949393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcattcgcaggcgctgccGcgtggtgggtttcgccctgc	2	9	16	14	6	0	0	0	0	0	0	2	0	0	0	2	4	2	4	2	4	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:75949393G>A	uc002bau.2	+	2	1658	c.1562G>A	c.(1561-1563)CGC>CAC	p.R521H	SNX33_uc002bav.2_Missense_Mutation_p.R134H	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	521	BAR.				cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1						AGGCGCTGCCGCGTGGTGGGT	0.627													36	39					0	0	1	0	0		A	75949393	A	A	75949393	3	1	103	1	0	0	0	0	1	0	0	0	14928	1087	38	1	1568	1	SNX33	15	75949393	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	284909	75949393	26581999	1475	63424											
CRABP1	1381	broad.mit.edu	37	chr15	78633425	78633425	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtggccgtagcggctgcGtccaagccgcacgtggagat	9	6	15	11	5	0	1	0	0	0	1	1	2	1	1	3	3	3	3	3	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:78633425G>A	uc002bdp.2	+	2	216	c.111G>A	c.(109-111)GCG>GCA	p.A37A		NM_004378	NP_004369	P29762	RABP1_HUMAN	cellular retinoic acid binding protein 1	37					multicellular organismal development|signal transduction	cytoplasm	retinal binding|retinol binding|transporter activity				0					Alitretinoin(DB00523)|Etretinate(DB00926)	TAGCGGCTGCGTCCAAGCCGC	0.632													7	14					0	0	1	0	0		A	78633425	A	A	78633425	2	1	103	1	0	0	0	0	0	0	0	1	3846	1132	40	1		1	CRABP1	15	78633425	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2684032	78633425	23897967	1476	63425											
CTSH	1512	broad.mit.edu	37	chr15	79227367	79227367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttttttccgccagtccaCggaaggtgggtagggaccag	7	10	13	11	2	0	0	0	0	0	0	3	2	3	2	5	4	0	1	5	4	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:79227367C>T	uc002ben.2	-	6	419	c.322G>A	c.(322-324)GTG>ATG	p.V108M	CTSH_uc010unf.1_RNA|CTSH_uc010bll.1_Intron|CTSH_uc010ung.1_Missense_Mutation_p.V120M	NM_148979	NP_683880	P09668	CATH_HUMAN	cathepsin H isoform b precursor	120					protein destabilization|proteolysis	lysosome	cysteine-type endopeptidase activity			central_nervous_system(2)|large_intestine(1)	3						CGCCAGTCCACGGAAGGTGGG	0.458													4	70					0	0	1	0	0		T	79227367	T	T	79227367	3	4	103	1	0	0	0	0	1	0	0	0	4039	536	19	1	681	1	CTSH	15	79227367	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	593942	79227367	23304025	1477	63426											
KIAA1024	23251	broad.mit.edu	37	chr15	79760622	79760622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactaaaacgtaaagaagccGaattcagacgagccaaggtc	17	6	9	9	3	1	2	1	0	0	2	2	4	1	2	2	1	4	1	2	1	8	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:79760622G>A	uc002bew.1	+	4	2722	c.2647G>A	c.(2647-2649)GAA>AAA	p.E883K	KIAA1024_uc010unk.1_3'UTR	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	883						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						TAAAGAAGCCGAATTCAGACG	0.433													10	15					0	0	1	0	0		A	79760622	A	A	79760622	3	1	103	1	0	0	0	0	1	0	0	0	8221	1059	37	1	2657	1	KIAA1024	15	79760622	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	533255	79760622	22770770	1478	63427											
KIAA1199	57214	broad.mit.edu	37	chr15	81173411	81173411	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatttttttgaaaggagctGgggccaccgtggagttattg	8	14	13	6	1	0	1	0	1	0	0	0	3	0	3	2	4	1	2	2	4	3	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:81173411G>A	uc002bfw.1	+	5	811	c.551G>A	c.(550-552)TGG>TAG	p.W184*	KIAA1199_uc010unn.1_Nonsense_Mutation_p.W184*	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	184										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GAAAGGAGCTGGGGCCACCGT	0.463													6	144					0	0	1	0	0		A	81173411	A	A	81173411	4	1	103	1	0	0	0	0	0	1	0	0	8229	1357	47	4	565	4	KIAA1199	15	81173411	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1412789	81173411	21357981	1479	63428											
AEN	64782	broad.mit.edu	37	chr15	89169555	89169555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaggagccgacagcaccagCggttcatggcccggaaggcc	10	3	15	13	3	1	0	1	0	0	0	1	4	1	2	4	5	3	2	4	5	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:89169555C>T	uc002bmt.2	+	2	266	c.115C>T	c.(115-117)CGG>TGG	p.R39W	AEN_uc010bnl.2_Missense_Mutation_p.R39W|AEN_uc010bnm.1_Missense_Mutation_p.R39W	NM_022767	NP_073604	Q8WTP8	AEN_HUMAN	interferon stimulated exonuclease gene	39					apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|response to ionizing radiation	nucleolus|nucleoplasm	exonuclease activity|nucleic acid binding				0						ACAGCACCAGCGGTTCATGGC	0.642													6	11					0	0	1	0	0		T	89169555	T	T	89169555	3	4	103	1	0	0	0	0	1	0	0	0	351	759	27	1	117	1	AEN	15	89169555	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	7996144	89169555	13361837	1480	63429											
FANCI	55215	broad.mit.edu	37	chr15	89848426	89848426	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagtcctgtcattctgctgCgtgacttgtcccaggatatc	7	13	10	11	1	2	2	1	1	1	1	5	3	4	3	2	1	2	1	2	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:89848426C>T	uc010bnp.1	+	29	3229	c.3139C>T	c.(3139-3141)CGT>TGT	p.R1047C	FANCI_uc002bnm.1_Missense_Mutation_p.R987C|FANCI_uc002bnn.1_RNA|FANCI_uc002bnp.1_Missense_Mutation_p.R808C|FANCI_uc002bnq.1_Missense_Mutation_p.R460C	NM_001113378	NP_001106849	Q9NVI1	FANCI_HUMAN	Fanconi anemia, complementation group I isoform	1047					cell cycle|DNA repair	nucleoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					CATTCTGCTGCGTGACTTGTC	0.483								Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				39	63					0	0	1	0	0		T	89848426	T	T	89848426	3	4	103	1	0	0	0	0	1	0	0	0	5683	768	27	1	3249	1	FANCI	15	89848426	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	678871	89848426	12682966	1481	63430											
C15orf42	90381	broad.mit.edu	37	chr15	90169247	90169247	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctgacccagtctccgctgCtgttccaggggaaaacacct	8	9	9	15	1	2	1	0	1	2	0	4	2	3	2	4	2	2	3	4	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:90169247C>T	uc002boe.2	+	21	5557	c.5557C>T	c.(5557-5559)CTG>TTG	p.L1853L	C15orf42_uc010upv.1_RNA	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1853					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GTCTCCGCTGCTGTTCCAGGG	0.562													20	40					0	0	1	0	0		T	90169247	T	T	90169247	2	4	103	1	0	0	0	0	0	0	0	1	1799	796	28	2		2	C15orf42	15	90169247	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	320821	90169247	12362145	1482	63431											
ANPEP	290	broad.mit.edu	37	chr15	90349232	90349232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctccatgtactcgctgcGgtagaagcccgccaggtcat	7	8	11	15	3	1	1	1	0	0	1	3	1	2	1	4	2	3	3	4	2	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:90349232G>A	uc002bop.3	-	2	875	c.583C>T	c.(583-585)CGC>TGC	p.R195C		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	195	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	TACTCGCTGCGGTAGAAGCCC	0.622													36	74					0	0	1	0	0		A	90349232	A	A	90349232	3	1	103	1	0	0	0	0	1	0	0	0	710	1116	39	1	2400	1	ANPEP	15	90349232	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	179985	90349232	12182160	1483	63432											
CRTC3	64784	broad.mit.edu	37	chr15	91185350	91185350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacccctctgttgaagagaCgtttcgagctgacagactgt	9	10	12	10	2	1	4	0	2	1	2	2	7	1	5	2	1	1	3	2	1	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:91185350C>T	uc002bpp.2	+	15	1944	c.1838C>T	c.(1837-1839)ACG>ATG	p.T613M	CRTC3_uc002bpo.2_Missense_Mutation_p.T612M	NM_022769	NP_073606	Q6UUV7	CRTC3_HUMAN	transducer of regulated CREB protein 3 isoform	613					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus			CRTC3/MAML2(26)	salivary_gland(26)|ovary(1)	27	Melanoma(11;0.00551)|Lung NSC(78;0.0931)|all_lung(78;0.163)		BRCA - Breast invasive adenocarcinoma(143;0.0745)			GTTGAAGAGACGTTTCGAGCT	0.498			T	MAML2	salivary gland mucoepidermoid								22	38					0	0	1	0	0		T	91185350	T	T	91185350	3	4	103	1	0	0	0	0	1	0	0	0	3904	536	19	1	1896	1	CRTC3	15	91185350	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	836118	91185350	11346042	1484	63433											
BLM	641	broad.mit.edu	37	chr15	91312684	91312684	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagtggggacatgattttcGtcaagattacaaaagaatga	15	11	10	5	1	1	4	1	2	0	2	2	5	1	5	0	2	1	0	0	2	6	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:91312684G>A	uc002bpr.2	+	12	2520	c.2423G>A	c.(2422-2424)CGT>CAT	p.R808H	BLM_uc010uqh.1_Missense_Mutation_p.R808H|BLM_uc010uqi.1_Missense_Mutation_p.R433H|BLM_uc010bnx.2_Missense_Mutation_p.R808H|BLM_uc002bps.1_Missense_Mutation_p.R370H	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	808	Helicase ATP-binding.				double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			CATGATTTTCGTCAAGATTAC	0.413			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				48	48					0	0	1	0	0		A	91312684	A	A	91312684	3	1	103	1	0	0	0	0	1	0	0	0	1446	1145	40	1	2465	1	BLM	15	91312684	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	127334	91312684	11218708	1485	63434											
PRC1	9055	broad.mit.edu	37	chr15	91528045	91528045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acatactatggactcctccgCcagcacctcactgaaaacca	13	7	5	16	1	1	1	1	1	0	0	3	2	3	2	5	1	3	1	5	1	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:91528045C>T	uc002bqm.2	-	2	179	c.22G>A	c.(22-24)GCG>ACG	p.A8T	PRC1_uc002bqn.2_Missense_Mutation_p.A8T|PRC1_uc002bqo.2_Missense_Mutation_p.A8T|PRC1_uc010uqs.1_Missense_Mutation_p.A8T|PRC1_uc010uqt.1_Intron	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	8	Dimerization.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					GACTCCTCCGCCAGCACCTCA	0.448													36	61					0	0	1	0	0		T	91528045	T	T	91528045	3	4	103	1	0	0	0	0	1	0	0	0	12468	739	26	2	1896	2	PRC1	15	91528045	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	215361	91528045	11003347	1486	63435											
MCTP2	55784	broad.mit.edu	37	chr15	94901823	94901823	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaaggacaacaaaaagcAtgaggaacgtctgggcacgt	16	4	14	7	2	1	1	0	1	1	0	1	4	1	4	0	4	3	2	0	4	5	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:94901823A>G	uc002btj.2	+	9	1348	c.1283A>G	c.(1282-1284)CAT>CGT	p.H428R	MCTP2_uc010urg.1_3'UTR|MCTP2_uc002bti.2_Missense_Mutation_p.H428R|MCTP2_uc010boj.2_Missense_Mutation_p.H157R|MCTP2_uc010bok.2_Missense_Mutation_p.H428R|MCTP2_uc002btk.3_Missense_Mutation_p.H16R|MCTP2_uc002btl.2_Missense_Mutation_p.H16R	NM_018349	NP_060819	Q6DN12	MCTP2_HUMAN	multiple C2 domains, transmembrane 2 isoform 1	428	C2 2.				calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(78;0.0821)|all_lung(78;0.148)		BRCA - Breast invasive adenocarcinoma(143;0.0323)|OV - Ovarian serous cystadenocarcinoma(32;0.0593)			AACAAAAAGCATGAGGAACGT	0.507													15	26					0	0	1	0	0		G	94901823	G	G	94901823	3	3	103	1	0	0	0	0	1	0	0	0	9419	217	8	3	1317	3	MCTP2	15	94901823	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	3373778	94901823	7629569	1487	63436											
IGF1R	3480	broad.mit.edu	37	chr15	99500322	99500322	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgcatgtgctggcagtataAccccaagatgaggccttcct	9	9	11	12	1	0	2	0	1	0	1	1	2	1	2	4	2	2	4	4	2	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:99500322A>G	uc002bul.2	+	21	3805	c.3755A>G	c.(3754-3756)AAC>AGC	p.N1252S	IGF1R_uc010bon.2_Missense_Mutation_p.N1251S	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	1252	Protein kinase.|Cytoplasmic (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	TGGCAGTATAACCCCAAGATG	0.582													34	53					0	0	1	0	0		G	99500322	G	G	99500322	3	3	103	1	0	0	0	0	1	0	0	0	7587	43	2	3	3837	3	IGF1R	15	99500322	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	4598499	99500322	3031070	1488	63437											
LRRK1	79705	broad.mit.edu	37	chr15	101586241	101586241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctggacacccacggtatgCggcaccccacagccaacacc	10	3	9	19	2	0	0	0	0	0	0	0	1	0	1	6	3	3	2	6	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:101586241C>T	uc002bwr.2	+	21	3338	c.3019C>T	c.(3019-3021)CGG>TGG	p.R1007W	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	1007					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CCACGGTATGCGGCACCCCAC	0.562													40	80					0	0	1	0	0		T	101586241	T	T	101586241	3	4	103	1	0	0	0	0	1	0	0	0	9050	759	27	1	3097	1	LRRK1	15	101586241	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2085919	101586241	945151	1489	63438											
LRRK1	79705	broad.mit.edu	37	chr15	101593491	101593491	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctccgagttccggcaggAggccagcatgctgcacgcgc	6	7	13	15	4	1	0	0	0	1	0	3	2	2	1	3	3	3	5	3	3	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr15:101593491A>C	uc002bwr.2	+	26	4239	c.3920A>C	c.(3919-3921)GAG>GCG	p.E1307A	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bws.2_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	1307	Protein kinase.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TTCCGGCAGGAGGCCAGCATG	0.657													20	31					0	0	1	0	0		C	101593491	C	C	101593491	3	2	103	1	0	0	0	0	1	0	0	0	9050	304	11	5	4018	5	LRRK1	15	101593491	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	7250	101593491	937901	1490	63439											
ITFG3	83986	broad.mit.edu	37	chr16	314628	314628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggagaccggggaggccCggcacagcctgtacatgttc	8	6	14	13	2	0	1	0	0	0	1	2	3	1	2	4	5	2	3	4	5	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:314628C>T	uc002cgf.2	+	12	1555	c.1360C>T	c.(1360-1362)CGG>TGG	p.R454W	ITFG3_uc002cgg.2_Missense_Mutation_p.R454W|ITFG3_uc010uud.1_RNA|ITFG3_uc002cgh.2_Missense_Mutation_p.R454W	NM_032039	NP_114428	Q9H0X4	ITFG3_HUMAN	integrin alpha FG-GAP repeat containing 3	454	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1		all_cancers(16;0.000129)|all_epithelial(16;0.000206)|Hepatocellular(16;0.00264)|Lung NSC(18;0.0626)|all_lung(18;0.13)				CGGGGAGGCCCGGCACAGCCT	0.642													19	29					0	0	1	0	0		T	314628	T	T	314628	3	4	103	1	0	0	0	0	1	0	0	0	7887	643	23	1	1398	1	ITFG3	16	314628	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08		314628	90040125	1491	63440											
WFIKKN1	117166	broad.mit.edu	37	chr16	683935	683935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatcatgggtgaggtgcgcGatggcgtggccgtgctggac	5	9	18	9	4	2	1	2	1	0	0	2	3	2	2	1	5	2	1	1	5	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:683935G>A	uc002cht.1	+	2	1767	c.1525G>A	c.(1525-1527)GAT>AAT	p.D509N	WFIKKN1_uc002chs.1_3'UTR|uc010uuk.1_5'Flank	NM_053284	NP_444514	Q96NZ8	WFKN1_HUMAN	WAP, follistatin/kazal, immunoglobulin, kunitz	509	NTR.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity				0		Hepatocellular(780;0.00335)				TGAGGTGCGCGATGGCGTGGC	0.677													3	7					0	0	1	0	0		A	683935	A	A	683935	3	1	103	1	0	0	0	0	1	0	0	0	17384	1058	37	1	1531	1	WFIKKN1	16	683935	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	369307	683935	89670818	1492	63441											
RHOT2	89941	broad.mit.edu	37	chr16	720697	720697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcccgcgtgcgcccaggCgctgacgcgcatcttcaggc	5	5	15	16	6	2	1	1	1	1	0	2	2	2	1	2	3	1	2	2	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:720697C>T	uc002cip.2	+	9	630	c.563C>T	c.(562-564)GCG>GTG	p.A188V	RHOT2_uc002ciq.2_Missense_Mutation_p.A81V|RHOT2_uc010bqy.2_5'Flank	NM_138769	NP_620124	Q8IXI1	MIRO2_HUMAN	ras homolog gene family, member T2	188	EF-hand 1.|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			pancreas(1)	1		Hepatocellular(780;0.0218)				TGCGCCCAGGCGCTGACGCGC	0.682													41	74					0	0	1	0	0		T	720697	T	T	720697	3	4	103	1	0	0	0	0	1	0	0	0	13369	768	27	1	597	1	RHOT2	16	720697	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	36762	720697	89634056	1493	63442											
CHTF18	63922	broad.mit.edu	37	chr16	847749	847749	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcacagcagtcccgagtgCaggtgtgtgtgggggtgttg	6	9	19	7	1	0	0	0	0	0	0	1	2	1	0	1	3	3	4	1	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:847749C>T	uc002cke.3	+	21	2852	c.2789C>T	c.(2788-2790)GCA>GTA	p.A930V	CHTF18_uc002ckf.3_Missense_Mutation_p.A958V|CHTF18_uc010brf.2_Missense_Mutation_p.A512V|CHTF18_uc002ckg.3_Missense_Mutation_p.A448V	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	930					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity			kidney(1)	1		Hepatocellular(780;0.00335)				GTCCCGAGTGCAGGTGTGTGT	0.632													20	26					0	0	1	0	0		T	847749	T	T	847749	3	4	103	1	0	0	0	0	1	0	0	0	3417	710	25	2	2871	2	CHTF18	16	847749	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	127052	847749	89507004	1494	63443											
CACNA1H	8912	broad.mit.edu	37	chr16	1258148	1258148	+	Frame_Shift_Del	DEL	C	-	-																															ctcaccattcctggatgcagCccccagcctcccagactctc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:1258148delC	uc002cks.2	+	16	3538	c.3290delC	c.(3289-3291)GCCfs	p.A1097fs	CACNA1H_uc002ckt.2_Frame_Shift_Del_p.A1097fs|CACNA1H_uc002cku.2_5'Flank|CACNA1H_uc010brj.2_5'Flank|CACNA1H_uc002ckv.2_5'Flank	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1097	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	CTGGATGCAGCCCCCAGCCTC	0.677													4	3	---	---	---	---						.	-	1258148	-	-	1258148	7	5	103	1	0	1	0	1	0	0	0	0	2548	739	26	0	3348	0	CACNA1H	16	1258148	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	410399	1258148	89096605	1495	63444											
CACNA1H	8912	broad.mit.edu	37	chr16	1270618	1270618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgaggccacgcctcacaGggactccctggagcccacag	8	5	12	16	1	1	1	1	1	0	0	2	3	2	3	4	3	1	0	4	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:1270618G>A	uc002cks.2	+	35	6934	c.6686G>A	c.(6685-6687)AGG>AAG	p.R2229K	CACNA1H_uc002ckt.2_Missense_Mutation_p.R2223K|CACNA1H_uc002cku.2_Missense_Mutation_p.R924K|CACNA1H_uc010brj.2_Missense_Mutation_p.R940K|CACNA1H_uc002ckv.2_Missense_Mutation_p.R918K	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	2229	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	ACGCCTCACAGGGACTCCCTG	0.756													8	12					0	0	1	0	0		A	1270618	A	A	1270618	3	1	103	1	0	0	0	0	1	0	0	0	2548	1000	35	4	6820	4	CACNA1H	16	1270618	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	12470	1270618	89084135	1496	63445											
BAIAP3	8938	broad.mit.edu	37	chr16	1395258	1395258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcccaccacagggacagccGctctctggccctggctggca	6	6	11	18	1	1	0	0	0	1	0	3	1	2	1	4	4	1	3	4	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:1395258G>A	uc002clk.1	+	22	2054	c.2054G>A	c.(2053-2055)CGC>CAC	p.R685H	BAIAP3_uc002clj.2_Missense_Mutation_p.R667H|BAIAP3_uc010uuz.1_Missense_Mutation_p.R650H|BAIAP3_uc010uva.1_Missense_Mutation_p.R622H|BAIAP3_uc010uvc.1_Missense_Mutation_p.R614H	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	685	MHD1.				G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				AGGGACAGCCGCTCTCTGGCC	0.647													42	46					0	0	1	0	0		A	1395258	A	A	1395258	3	1	103	1	0	0	0	0	1	0	0	0	1305	1087	38	1	2140	1	BAIAP3	16	1395258	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	124640	1395258	88959495	1497	63446											
GNPTG	84572	broad.mit.edu	37	chr16	1412311	1412311	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctcgtctgccacccccaCgccttgctaggtaggggtgc	4	8	11	18	2	1	0	0	0	1	0	2	0	1	0	6	3	3	2	6	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:1412311C>T	uc002clm.2	+	7	551	c.516C>T	c.(514-516)CAC>CAT	p.H172H		NM_032520	NP_115909	Q9UJJ9	GNPTG_HUMAN	N-acetylglucosamine-1-phosphotransferase, gamma	172						extracellular region|Golgi apparatus	protein binding			central_nervous_system(1)	1		Hepatocellular(780;0.0893)				GCCACCCCCACGCCTTGCTAG	0.687													20	18					0	0	1	0	0		T	1412311	T	T	1412311	2	4	103	1	0	0	0	0	0	0	0	1	6561	535	19	1		1	GNPTG	16	1412311	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	17053	1412311	88942442	1498	63447											
IGFALS	3483	broad.mit.edu	37	chr16	1841250	1841250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgccctccaggtgcaggCtgtgcagcttgcccaggccc	5	7	13	16	0	0	0	0	0	0	0	1	0	1	0	4	3	6	5	4	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:1841250C>T	uc002cmy.2	-	2	1250	c.1169G>A	c.(1168-1170)AGC>AAC	p.S390N	IGFALS_uc010uvn.1_Missense_Mutation_p.S428N|IGFALS_uc010uvo.1_Missense_Mutation_p.S24N	NM_004970	NP_004961	P35858	ALS_HUMAN	insulin-like growth factor binding protein, acid	390	LRR 14.				cell adhesion|signal transduction	soluble fraction	insulin-like growth factor binding				0						CAGGTGCAGGCTGTGCAGCTT	0.667													19	34					0	0	1	0	0		T	1841250	T	T	1841250	3	4	103	1	0	0	0	0	1	0	0	0	7593	797	28	2	652	2	IGFALS	16	1841250	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	428939	1841250	88513503	1499	63448											
RPL3L	6123	broad.mit.edu	37	chr16	1996656	1996656	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggacttggcagtcacgtcGtagctggtggatgcattgtt	7	13	14	7	2	1	0	1	0	0	0	2	2	1	2	0	4	2	5	0	4	1	4	rs141671269		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:1996656G>A	uc002cnh.2	-	7	968	c.921C>T	c.(919-921)TAC>TAT	p.Y307Y		NM_005061	NP_005052	Q92901	RL3L_HUMAN	ribosomal protein L3-like	307					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	RNA binding|structural constituent of ribosome				0						CAGTCACGTCGTAGCTGGTGG	0.642													25	37					0	0	1	0	0		A	1996656	A	A	1996656	2	1	103	1	0	0	0	0	0	0	0	1	13619	1140	40	1		1	RPL3L	16	1996656	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	155406	1996656	88358097	1500	63449											
TSC2	7249	broad.mit.edu	37	chr16	2105425	2105425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactttgtcctgcagtggatGgatgttggcttgtcctcgga	5	14	14	8	1	0	0	0	0	0	0	3	4	2	3	2	4	1	3	2	4	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:2105425G>A	uc002con.2	+	6	610	c.504G>A	c.(502-504)ATG>ATA	p.M168I	TSC2_uc010bsd.2_Missense_Mutation_p.M168I|TSC2_uc002coo.2_Missense_Mutation_p.M168I|TSC2_uc010uvv.1_Missense_Mutation_p.M131I|TSC2_uc010uvw.1_Missense_Mutation_p.M119I|TSC2_uc002cop.2_Intron	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	168	Required for interaction with TSC1.				cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				TGCAGTGGATGGATGTTGGCT	0.552			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				48	72					0	0	1	0	0		A	2105425	A	A	2105425	3	1	103	1	0	0	0	0	1	0	0	0	16632	1348	47	4	522	4	TSC2	16	2105425	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	108769	2105425	88249328	1501	63450											
PKD1	5310	broad.mit.edu	37	chr16	2165400	2165400	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtactgcgcggggggcccCgcgggaacggagaagaggaa	10	2	20	9	5	0	2	0	0	0	2	0	6	0	4	2	6	3	1	2	6	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:2165400C>T	uc002cos.1	-	10	2285	c.2076G>A	c.(2074-2076)GCG>GCA	p.A692A	PKD1_uc002cot.1_Silent_p.A692A	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	692	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CGGGGGGCCCCGCGGGAACGG	0.682													2	2					0	0	1	0	0		T	2165400	T	T	2165400	2	4	103	1	0	0	0	0	0	0	0	1	11982	639	23	1		1	PKD1	16	2165400	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	59975	2165400	88189353	1502	63451											
CASKIN1	57524	broad.mit.edu	37	chr16	2228903	2228903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccccgccccgcacctacCgcgggccctgcgcgtcctcc	3	4	11	23	6	0	0	0	0	0	0	2	0	2	0	9	2	2	1	9	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:2228903C>T	uc010bsg.1	-	19	4231	c.4199G>A	c.(4198-4200)CGC>CAC	p.R1400H		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	1400					signal transduction	cytoplasm				skin(2)	2						ccgcaccTACCGCGGGCCCTG	0.373													4	3					0	0	1	0	0		T	2228903	T	T	2228903	3	4	103	1	0	0	0	0	1	0	0	0	2669	666	23	1	104	1	CASKIN1	16	2228903	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	63503	2228903	88125850	1503	63452											
ABCA3	21	broad.mit.edu	37	chr16	2328359	2328359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtcccaaagcaggcgccGggccacggggtccatgccag	7	4	16	14	3	0	0	0	0	0	0	2	0	2	0	5	5	2	1	5	5	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:2328359G>A	uc002cpy.1	-	30	5360	c.4648C>T	c.(4648-4650)CGG>TGG	p.R1550W	ABCA3_uc010bsk.1_Missense_Mutation_p.R1492W	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1550	ABC transporter 2.				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				AGCAGGCGCCGGGCCACGGGG	0.632													33	49					0	0	1	0	0		A	2328359	A	A	2328359	3	1	103	1	0	0	0	0	1	0	0	0	33	1115	39	1	482	1	ABCA3	16	2328359	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	99456	2328359	88026394	1504	63453											
ABCA3	21	broad.mit.edu	37	chr16	2349441	2349441	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggtggtcttcccggcaccGttgtggcccagcaggacggt	4	9	16	12	3	1	0	0	0	1	0	2	1	2	1	3	6	1	3	3	6	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:2349441G>A	uc002cpy.1	-	14	2416	c.1704C>T	c.(1702-1704)AAC>AAT	p.N568N	ABCA3_uc010bsk.1_Silent_p.N510N|ABCA3_uc010bsl.1_Silent_p.N568N	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	568	ABC transporter 1.|ATP 1 (Potential).		N -> D (in SMDP3).		response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				TCCCGGCACCGTTGTGGCCCA	0.637													7	107					0	0	1	0	0		A	2349441	A	A	2349441	2	1	103	1	0	0	0	0	0	0	0	1	33	1136	40	1		1	ABCA3	16	2349441	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	21082	2349441	88005312	1505	63454											
PRSS21	10942	broad.mit.edu	37	chr16	2871046	2871046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcctcaagtacagtttccGcaaggacatctttggagaca	11	11	8	11	1	2	1	1	0	1	1	4	3	4	2	2	2	1	3	2	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:2871046G>A	uc002crt.2	+	5	747	c.641G>A	c.(640-642)CGC>CAC	p.R214H	PRSS21_uc002crs.2_Missense_Mutation_p.R212H|PRSS21_uc002crr.2_Missense_Mutation_p.R214H	NM_006799	NP_006790	Q9Y6M0	TEST_HUMAN	testisin isoform 1	214	Peptidase S1.				proteolysis	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	serine-type endopeptidase activity			ovary(1)|skin(1)	2						TACAGTTTCCGCAAGGACATC	0.552													106	176					0	0	1	0	0		A	2871046	A	A	2871046	3	1	103	1	0	0	0	0	1	0	0	0	12640	1087	38	1	659	1	PRSS21	16	2871046	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	521605	2871046	87483707	1506	63455											
CLDN6	9074	broad.mit.edu	37	chr16	3065572	3065572	+	Frame_Shift_Del	DEL	G	-	-																															cttttgggcctcagccaccaGggggttatagaagtcccgga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:3065572delG	uc002csu.3	-	2	511	c.451delC	c.(451-453)CTGfs	p.L151fs		NM_021195	NP_067018	P56747	CLD6_HUMAN	claudin 6	151	Extracellular (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						TCAGCCACCAGGGGGTTATAG	0.627													12	18	---	---	---	---						.	-	3065572	-	-	3065572	7	5	103	1	0	1	0	1	0	0	0	0	3492	991	35	0	215	0	CLDN6	16	3065572	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	194526	3065572	87289181	1507	63456											
NLRC3	197358	broad.mit.edu	37	chr16	3613868	3613868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagctcgcacagggtcctcGggggccacagctctgcatcc	7	6	13	15	2	1	1	0	0	1	1	5	1	3	1	3	3	3	4	3	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:3613868G>A	uc010btn.2	-	5	1481	c.1070C>T	c.(1069-1071)CCG>CTG	p.P357L		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	357	NACHT.				I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						CAGGGTCCTCGGGGGCCACAG	0.672													19	34					0	0	1	0	0		A	3613868	A	A	3613868	3	1	103	1	0	0	0	0	1	0	0	0	10487	1116	39	1	2192	1	NLRC3	16	3613868	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	548296	3613868	86740885	1508	63457											
CREBBP	1387	broad.mit.edu	37	chr16	3828769	3828769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctaccaggttttccatgcGgcgatcctttagagctgcgg	6	11	13	11	3	0	1	0	0	0	1	2	2	2	1	3	4	4	3	3	4	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:3828769G>A	uc002cvv.2	-	9	2077	c.1873C>T	c.(1873-1875)CGC>TGC	p.R625C	CREBBP_uc002cvw.2_Missense_Mutation_p.R587C	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	625	KIX.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TTTTCCATGCGGCGATCCTTT	0.463			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				62	75					0	0	1	0	0		A	3828769	A	A	3828769	3	1	103	1	0	0	0	0	1	0	0	0	3864	1116	39	1	5547	1	CREBBP	16	3828769	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	214901	3828769	86525984	1509	63458											
VASN	114990	broad.mit.edu	37	chr16	4432309	4432309	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagccccacctccctgcgCgtggggctgcagcgctacct	4	7	13	17	3	0	1	0	1	0	0	1	1	1	1	5	2	5	3	5	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:4432309C>T	uc002cwj.1	+	2	1586	c.1431C>T	c.(1429-1431)CGC>CGT	p.R477R	CORO7_uc002cwe.2_Intron|CORO7_uc002cwf.2_Intron|CORO7_uc002cwg.3_Intron|CORO7_uc002cwh.3_Intron|CORO7_uc010uxh.1_Intron|CORO7_uc010uxi.1_Intron|CORO7_uc002cwi.1_Intron|CORO7_uc010uxj.1_Intron|CORO7_uc010btp.1_Intron	NM_138440	NP_612449	Q6EMK4	VASN_HUMAN	slit-like 2 precursor	477	Fibronectin type-III.|Extracellular (Potential).					extracellular region|integral to membrane					0						CCTCCCTGCGCGTGGGGCTGC	0.692													6	12					0	0	1	0	0		T	4432309	T	T	4432309	2	4	103	1	0	0	0	0	0	0	0	1	17153	755	27	1		1	VASN	16	4432309	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	603540	4432309	85922444	1510	63459											
GLYR1	84656	broad.mit.edu	37	chr16	4862113	4862113	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggaggtcttccccatcGcctggaagcagctgctgcag	9	7	13	12	1	1	1	0	0	1	1	3	3	2	3	3	3	4	4	3	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:4862113G>A	uc002cxx.3	-	13	1293	c.1256C>T	c.(1255-1257)GCG>GTG	p.A419V	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Missense_Mutation_p.A333V|GLYR1_uc002cya.2_Missense_Mutation_p.A413V|GLYR1_uc010uxv.1_Missense_Mutation_p.A338V	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	419				A -> T (in Ref. 7; AAH47223).	pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						CTTCCCCATCGCCTGGAAGCA	0.572													25	32					0	0	1	0	0		A	4862113	A	A	4862113	3	1	103	1	0	0	0	0	1	0	0	0	6498	1087	38	1	421	1	GLYR1	16	4862113	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	429804	4862113	85492640	1511	63460											
GRIN2A	2903	broad.mit.edu	37	chr16	9858350	9858350	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctggcgtatggaatccacGgatttcttccacagctgccg	7	11	10	13	3	1	0	0	0	1	0	4	2	4	2	4	3	2	2	4	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:9858350G>A	uc002czo.3	-	13	3599	c.3051C>T	c.(3049-3051)TCC>TCT	p.S1017S	GRIN2A_uc010uym.1_Silent_p.S1017S|GRIN2A_uc010uyn.1_Silent_p.S860S|GRIN2A_uc002czr.3_Silent_p.S1017S	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1017	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TGGAATCCACGGATTTCTTCC	0.532													41	59					0	0	1	0	0		A	9858350	A	A	9858350	2	1	103	1	0	0	0	0	0	0	0	1	6795	1103	39	1		1	GRIN2A	16	9858350	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4996237	9858350	80496403	1512	63461											
GRIN2A	2903	broad.mit.edu	37	chr16	9943710	9943710	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgaatggggcctcctccaGggtgacgatgctgagatggt	8	8	16	9	2	0	2	0	2	0	1	2	6	2	2	3	4	1	1	3	4	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:9943710G>T	uc002czo.3	-	5	1779	c.1231C>A	c.(1231-1233)CTG>ATG	p.L411M	GRIN2A_uc010uym.1_Missense_Mutation_p.L411M|GRIN2A_uc010uyn.1_Missense_Mutation_p.L254M|GRIN2A_uc002czr.3_Missense_Mutation_p.L411M	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	411	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GCCTCCTCCAGGGTGACGATG	0.577													38	58					2.40579e-17	2.56709e-17	1	1	0		T	9943710	T	T	9943710	3	4	103	1	0	0	0	0	1	0	0	0	6795	991	35	5	3199	5	GRIN2A	16	9943710	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	85360	9943710	80411043	1513	63462											
TXNDC11	51061	broad.mit.edu	37	chr16	11829888	11829888	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attacctgatctgaaagccgActtgctgcttgctcaatttc	9	14	7	11	1	2	2	1	2	1	0	3	3	2	2	2	0	5	3	2	0	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:11829888A>G	uc010buu.1	-	2	518	c.456T>C	c.(454-456)AGT>AGC	p.S152S	TXNDC11_uc002dbg.1_Silent_p.S152S	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	152	Thioredoxin 1.				cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						CTGAAAGCCGACTTGCTGCTT	0.502													5	85					0	0	1	0	0		G	11829888	G	G	11829888	2	3	103	1	0	0	0	0	0	0	0	1	16818	272	10	3		3	TXNDC11	16	11829888	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1886178	11829888	78524865	1514	63463											
RSL1D1	26156	broad.mit.edu	37	chr16	11933615	11933615	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgtgggatttcgtcttcGgattcatttgttgctttaac	6	18	10	7	2	2	0	1	0	1	0	4	2	2	2	0	2	3	3	0	2	1	7	rs144452977	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:11933615G>A	uc002dbp.1	-	8	1156	c.1083C>T	c.(1081-1083)TCC>TCT	p.S361S	RSL1D1_uc010buv.1_Silent_p.S360S|RSL1D1_uc010uyw.1_Silent_p.S141S|RSL1D1_uc010buw.2_RNA	NM_015659	NP_056474	O76021	RL1D1_HUMAN	ribosomal L1 domain containing 1	361					regulation of protein localization|translation	large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						TTTCGTCTTCGGATTCATTTG	0.398													58	103					0	0	1	0	0		A	11933615	A	A	11933615	2	1	103	1	0	0	0	0	0	0	0	1	13725	1103	39	1		1	RSL1D1	16	11933615	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	103727	11933615	78421138	1515	63464											
KIAA0430	9665	broad.mit.edu	37	chr16	15710928	15710928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcaataaaggcacggtgcCctcgtgggtctggagaagac	10	7	13	11	2	2	2	1	0	1	2	3	3	2	2	2	4	1	1	2	4	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:15710928C>T	uc002ddr.2	-	15	3251	c.3058G>A	c.(3058-3060)GGC>AGC	p.G1020S	KIAA0430_uc002ddq.2_Missense_Mutation_p.G854S|KIAA0430_uc010uzv.1_Missense_Mutation_p.G1016S|KIAA0430_uc010uzw.1_Missense_Mutation_p.G1019S	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	1019						peroxisome	nucleotide binding|RNA binding				0						GGCACGGTGCCCTCGTGGGTC	0.458													34	50					0	0	1	0	0		T	15710928	T	T	15710928	3	4	103	1	0	0	0	0	1	0	0	0	8193	623	22	4	2222	4	KIAA0430	16	15710928	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3777313	15710928	74643825	1516	63465											
MYH11	4629	broad.mit.edu	37	chr16	15847322	15847322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtcacgttgtcattcagcGggtccatattcttggtcagc	8	13	10	10	2	5	0	4	0	1	0	6	0	6	0	1	2	2	1	1	2	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:15847322G>A	uc002ddy.2	-	15	1900	c.1793C>T	c.(1792-1794)CCG>CTG	p.P598L	MYH11_uc002ddv.2_Missense_Mutation_p.P605L|MYH11_uc002ddw.2_Missense_Mutation_p.P598L|MYH11_uc002ddx.2_Missense_Mutation_p.P605L|MYH11_uc010bvg.2_Missense_Mutation_p.P430L|MYH11_uc002dea.1_Missense_Mutation_p.P304L	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	598	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						GTCATTCAGCGGGTCCATATT	0.537			T	CBFB	AML								22	48					0	0	1	0	0		A	15847322	A	A	15847322	3	1	103	1	0	0	0	0	1	0	0	0	10049	1116	39	1	4268	1	MYH11	16	15847322	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	136394	15847322	74507431	1517	63466											
ABCC1	4363	broad.mit.edu	37	chr16	16200615	16200615	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acagctcagcagctcctcctCctatagtggggacatcagca	10	8	9	14	0	2	0	2	0	0	0	5	1	5	1	3	2	4	4	3	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:16200615C>A	uc010bvi.2	+	21	2931	c.2756C>A	c.(2755-2757)TCC>TAC	p.S919Y	ABCC1_uc010bvj.2_Missense_Mutation_p.S860Y|ABCC1_uc010bvk.2_Missense_Mutation_p.S863Y|ABCC1_uc010bvl.2_Missense_Mutation_p.S919Y|ABCC1_uc010bvm.2_Missense_Mutation_p.S804Y|ABCC1_uc002del.3_Missense_Mutation_p.S813Y	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	919	Cytoplasmic.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	AGCTCCTCCTCCTATAGTGGG	0.577													31	46					5.09552e-08	5.25948e-08	1	1	0		A	16200615	A	A	16200615	3	1	103	1	0	0	0	0	1	0	0	0	49	855	30	5	2838	5	ABCC1	16	16200615	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	353293	16200615	74154138	1518	63467											
GPR139	124274	broad.mit.edu	37	chr16	20084857	20084857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtagtagaccacgggcaCgaaacccaagccgcaggccg	11	3	13	14	4	0	1	0	0	0	1	0	2	0	1	4	2	2	5	4	2	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:20084857C>T	uc002dgu.1	-	1	244	c.82G>A	c.(82-84)GTG>ATG	p.V28M	GPR139_uc010vaw.1_Translation_Start_Site	NM_001002911	NP_001002911	Q6DWJ6	GP139_HUMAN	G protein-coupled receptor 139	28	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)	2						ACCACGGGCACGAAACCCAAG	0.682													7	8					0	0	1	0	0		T	20084857	T	T	20084857	3	4	103	1	0	0	0	0	1	0	0	0	6663	536	19	1	987	1	GPR139	16	20084857	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3884242	20084857	70269896	1519	63468											
PDILT	204474	broad.mit.edu	37	chr16	20380898	20380898	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcattttgtacctggcGtcagagctcaagtttaggat	10	12	12	7	1	2	1	2	0	0	1	2	3	2	2	1	3	2	4	1	3	4	5	rs150342728	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:20380898G>A	uc002dhc.1	-	8	1255	c.1032C>T	c.(1030-1032)GAC>GAT	p.D344D		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	344					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						TGTACCTGGCGTCAGAGCTCA	0.468													63	88					0	0	1	0	0		A	20380898	A	A	20380898	2	1	103	1	0	0	0	0	0	0	0	1	11693	1136	40	1		1	PDILT	16	20380898	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	296041	20380898	69973855	1520	63469											
ERN2	10595	broad.mit.edu	37	chr16	23713538	23713538	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcagttccactccccaGggtgggatggaccctcagca	7	8	11	15	0	2	0	1	0	1	0	4	2	4	2	4	3	2	3	4	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:23713538G>A	uc002dma.3	-	11	1451	c.1282C>T	c.(1282-1284)CTG>TTG	p.L428L	ERN2_uc010bxp.2_Silent_p.L428L|ERN2_uc010bxq.1_Silent_p.L236L	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	380	Lumenal (Potential).			L -> P (in Ref. 1; BAB21297).	apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		CCACTCCCCAGGGTGGGATGG	0.607													41	83					0	0	1	0	0		A	23713538	A	A	23713538	2	1	103	1	0	0	0	0	0	0	0	1	5246	991	35	4		4	ERN2	16	23713538	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3332640	23713538	66641215	1521	63470											
ERN2	10595	broad.mit.edu	37	chr16	23716327	23716327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgagccagcgtgagatgcGgcagctggcgcaggccgtcc	6	5	16	14	5	0	1	0	1	0	1	2	3	1	1	3	3	4	3	3	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:23716327G>A	uc002dma.3	-	8	1044	c.875C>T	c.(874-876)CCG>CTG	p.P292L	ERN2_uc010bxp.2_Missense_Mutation_p.P292L|ERN2_uc010bxq.1_Missense_Mutation_p.P100L	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	244	Lumenal (Potential).				apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		CGTGAGATGCGGCAGCTGGCG	0.677													26	43					0	0	1	0	0		A	23716327	A	A	23716327	3	1	103	1	0	0	0	0	1	0	0	0	5246	1116	39	1	2109	1	ERN2	16	23716327	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2789	23716327	66638426	1522	63471											
PRKCB	5579	broad.mit.edu	37	chr16	24192209	24192209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catctgggatggggtgacaaCcaagacattctgtggcactc	10	9	12	10	0	2	2	0	1	2	1	3	3	2	3	1	4	1	1	1	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:24192209C>T	uc002dmd.2	+	13	1690	c.1493C>T	c.(1492-1494)ACC>ATC	p.T498I	PRKCB_uc002dme.2_Missense_Mutation_p.T498I	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	498	Protein kinase.				apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	GGGGTGACAACCAAGACATTC	0.522													38	59					0	0	1	0	0		T	24192209	T	T	24192209	3	4	103	1	0	0	0	0	1	0	0	0	12530	507	18	4	1543	4	PRKCB	16	24192209	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	475882	24192209	66162544	1523	63472											
RBBP6	5930	broad.mit.edu	37	chr16	24582742	24582742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttccaaagaggctagaaCgtcagataaacatgattcca	16	9	7	9	1	2	4	1	1	1	3	4	4	4	4	2	1	2	1	2	1	5	4	rs138495629	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:24582742C>T	uc002dmh.2	+	18	5395	c.4355C>T	c.(4354-4356)ACG>ATG	p.T1452M	RBBP6_uc002dmi.2_Missense_Mutation_p.T1418M|RBBP6_uc010bxr.2_Missense_Mutation_p.T612M|RBBP6_uc002dmk.2_Missense_Mutation_p.T1285M	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1452	Interaction with p53 (By similarity).				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		GAGGCTAGAACGTCAGATAAA	0.398													20	41					0	0	1	0	0		T	24582742	T	T	24582742	3	4	103	1	0	0	0	0	1	0	0	0	13128	536	19	1	4479	1	RBBP6	16	24582742	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	390533	24582742	65772011	1524	63473											
GTF3C1	2975	broad.mit.edu	37	chr16	27561201	27561201	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgtccaacaacgactccAgcgcgtccattgctacttca	9	10	6	16	4	1	0	1	0	0	0	5	1	4	0	3	0	5	1	3	0	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:27561201A>G	uc002dov.1	-	1	51	c.11T>C	c.(10-12)CTG>CCG	p.L4P	GTF3C1_uc002dou.2_Missense_Mutation_p.L4P|KIAA0556_uc002dow.2_5'Flank	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	4						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CAACGACTCCAGCGCGTCCAT	0.697													10	15					0	0	1	0	0		G	27561201	G	G	27561201	3	3	103	1	0	0	0	0	1	0	0	0	6888	188	7	3	6466	3	GTF3C1	16	27561201	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2978459	27561201	62793552	1525	63474											
KIAA0556	23247	broad.mit.edu	37	chr16	27761168	27761168	+	Frame_Shift_Del	DEL	G	-	-																															actctggagagacagacgctGggggtgactttaaaatcccc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:27761168delG	uc002dow.2	+	16	2911	c.2887delG	c.(2887-2889)GGGfs	p.G963fs		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	963										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						GACAGACGCTGGGGGTGACTT	0.582													13	27	---	---	---	---						.	-	27761168	-	-	27761168	7	5	103	1	0	1	0	1	0	0	0	0	8199	1348	47	0	2949	0	KIAA0556	16	27761168	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	199967	27761168	62593585	1526	63475											
CD19	930	broad.mit.edu	37	chr16	28948671	28948671	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctatgagaacgactccaaCcttgggcaggaccagctctc	10	9	9	13	1	2	1	0	1	2	1	4	4	3	2	3	2	3	2	3	2	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:28948671C>T	uc002drs.2	+	9	1340	c.1278C>T	c.(1276-1278)AAC>AAT	p.N426N	uc010vct.1_Intron|CD19_uc010byo.1_Silent_p.N426N	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	426	Cytoplasmic (Potential).				cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						ACGACTCCAACCTTGGGCAGG	0.632													22	32					0	0	1	0	0		T	28948671	T	T	28948671	2	4	103	1	0	0	0	0	0	0	0	1	2976	506	18	4		4	CD19	16	28948671	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1187503	28948671	61406082	1527	63476											
NFATC2IP	84901	broad.mit.edu	37	chr16	28967620	28967620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcttcccactcaaaatcCgttgccgggctgacctggtc	7	10	9	15	2	2	1	1	1	1	0	5	2	4	1	4	2	1	2	4	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:28967620C>T	uc002dru.2	+	5	823	c.808C>T	c.(808-810)CGT>TGT	p.R270C	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Intron|NFATC2IP_uc002drv.2_5'UTR|NFATC2IP_uc010vdh.1_5'Flank	NM_032815	NP_116204	Q8NCF5	NF2IP_HUMAN	nuclear factor of activated T-cells,	270						cytoplasm|nucleus				ovary(1)	1						ACTCAAAATCCGTTGCCGGGC	0.612													13	28					0	0	1	0	0		T	28967620	T	T	28967620	3	4	103	1	0	0	0	0	1	0	0	0	10382	652	23	1	826	1	NFATC2IP	16	28967620	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	18949	28967620	61387133	1528	63477											
SPN	6693	broad.mit.edu	37	chr16	29675364	29675365	+	Frame_Shift_Ins	INS	-	C	C																															ccatcaagatgtcatcagtgINSccccaggaaacccctcatgc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:29675364_29675365insC	uc002dtm.2	+	2	451_452	c.315_316insC	c.(313-318)GTGCCCfs	p.V105fs	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SPN_uc002dtn.2_Frame_Shift_Ins_p.V105fs|SPN_uc010bzd.2_RNA	NM_001030288	NP_001025459	P16150	LEUK_HUMAN	sialophorin precursor	105_106	Extracellular (Potential).				blood coagulation|cellular defense response|chemotaxis|defense response to bacterium|establishment or maintenance of cell polarity|immune response|leukocyte migration|negative regulation of cell adhesion|positive regulation of tumor necrosis factor biosynthetic process	extracellular space|integral to plasma membrane	bacterial cell surface binding|transmembrane receptor activity			central_nervous_system(2)	2						TGTCATCAGTGCCCCAGGAAAC	0.515													32	67	---	---	---	---						.	C	29675365	C	C	29675364	7	5	103	1	0	1	1	0	0	0	0	0	15098	1306	46	0	317	0	SPN	16	29675364	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	707744	29675364	60679389	1529	63478											
SEZ6L2	26470	broad.mit.edu	37	chr16	29884960	29884960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgtaccctggcaggcagCggtactggacgtgggagcca	7	6	17	11	2	0	0	0	0	0	0	0	2	0	2	2	6	4	5	2	6	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:29884960C>T	uc002duq.3	-	13	2435	c.2195G>A	c.(2194-2196)CGC>CAC	p.R732H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.R662H|SEZ6L2_uc002dur.3_Missense_Mutation_p.R662H|SEZ6L2_uc002dus.3_Missense_Mutation_p.R618H|SEZ6L2_uc010vec.1_Missense_Mutation_p.R732H|SEZ6L2_uc010ved.1_Missense_Mutation_p.R688H	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	732	Sushi 4.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						TGGCAGGCAGCGGTACTGGAC	0.667													20	24					0	0	1	0	0		T	29884960	T	T	29884960	3	4	103	1	0	0	0	0	1	0	0	0	14169	768	27	1	600	1	SEZ6L2	16	29884960	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	209596	29884960	60469793	1530	63479											
TAOK2	9344	broad.mit.edu	37	chr16	29997691	29997691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagctccaggccgtgcagCgcacgcgggctgagctcacc	6	4	15	16	4	1	1	1	1	0	0	2	1	2	1	3	3	4	6	3	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:29997691C>T	uc002dva.1	+	16	2881	c.2098C>T	c.(2098-2100)CGC>TGC	p.R700C	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Missense_Mutation_p.R700C|TAOK2_uc002dvc.1_Missense_Mutation_p.R700C|TAOK2_uc010bzm.1_Missense_Mutation_p.R707C|TAOK2_uc002dvd.1_Missense_Mutation_p.R527C	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	700	Potential.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						GGCCGTGCAGCGCACGCGGGC	0.652													32	37					0	0	1	0	0		T	29997691	T	T	29997691	3	4	103	1	0	0	0	0	1	0	0	0	15573	768	27	1	2156	1	TAOK2	16	29997691	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	112731	29997691	60357062	1531	63480											
CORO1A	11151	broad.mit.edu	37	chr16	30198155	30198155	+	Frame_Shift_Del	DEL	G	-	-																															aggtgtgggagatcccagatGggggcctgatgctgcccctg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:30198155delG	uc002dww.2	+	4	462	c.340delG	c.(340-342)GGGfs	p.G114fs	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|CORO1A_uc010vej.1_Frame_Shift_Del_p.G114fs|CORO1A_uc010bzq.2_Frame_Shift_Del_p.G114fs|CORO1A_uc010bzr.2_Frame_Shift_Del_p.G114fs|CORO1A_uc002dwx.2_Frame_Shift_Del_p.G8fs|CORO1A_uc002dwy.1_Translation_Start_Site|LOC606724_uc002dwz.1_5'Flank	NM_007074	NP_009005	P31146	COR1A_HUMAN	coronin, actin binding protein, 1A	114					cell-substrate adhesion|innate immune response|leukocyte chemotaxis|negative regulation of actin nucleation|phagolysosome assembly|positive chemotaxis|regulation of cell shape|uropod organization	actin filament|cortical actin cytoskeleton|lamellipodium|phagocytic cup|phagocytic vesicle membrane	actin filament binding|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein homodimerization activity				0						GATCCCAGATGGGGGCCTGAT	0.652													16	33	---	---	---	---						.	-	30198155	-	-	30198155	7	5	103	1	0	1	0	1	0	0	0	0	3756	1348	47	0	350	0	CORO1A	16	30198155	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	200464	30198155	60156598	1532	63481											
ZNF689	115509	broad.mit.edu	37	chr16	30616334	30616334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcacctgtgtgtgtggtccGgtgattggccaaggaccggc	5	11	15	10	2	1	1	1	1	0	0	2	2	2	2	4	5	0	0	4	5	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:30616334G>A	uc002dyx.2	-	3	1074	c.754C>T	c.(754-756)CGG>TGG	p.R252W	ZNF689_uc010bzy.2_5'UTR	NM_138447	NP_612456	Q96CS4	ZN689_HUMAN	zinc finger protein HIT-39	252	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			TGTGTGGTCCGGTGATTGGCC	0.617													28	51					0	0	1	0	0		A	30616334	A	A	30616334	3	1	103	1	0	0	0	0	1	0	0	0	18119	1115	39	1	752	1	ZNF689	16	30616334	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	418179	30616334	59738419	1533	63482											
PHKG2	5261	broad.mit.edu	37	chr16	30767987	30767987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagcaccccttctttgagcGttgtgaaggcagccaaccct	9	9	9	14	1	1	2	0	2	1	0	1	2	1	2	4	1	4	3	4	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:30767987G>A	uc002dzk.1	+	9	971	c.878G>A	c.(877-879)CGT>CAT	p.R293H	PHKG2_uc002dzi.1_Missense_Mutation_p.R297H|PHKG2_uc002dzj.1_Missense_Mutation_p.R191H	NM_000294	NP_000285	P15735	PHKG2_HUMAN	phosphorylase kinase, gamma 2 (testis)	293					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			ovary(1)	1			Colorectal(24;0.198)			TTCTTTGAGCGTTGTGAAGGC	0.607													31	48					0	0	1	0	0		A	30767987	A	A	30767987	3	1	103	1	0	0	0	0	1	0	0	0	11866	1145	40	1	908	1	PHKG2	16	30767987	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	151653	30767987	59586766	1534	63483											
ZNF646	9726	broad.mit.edu	37	chr16	31089180	31089180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccctgcgcaaccacgtgcGggtacattgcaaggctgctc	7	7	13	14	3	0	0	0	0	0	0	1	0	0	0	2	3	6	5	2	3	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:31089180G>A	uc002eap.2	+	2	1824	c.1535G>A	c.(1534-1536)CGG>CAG	p.R512Q		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	512	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						AACCACGTGCGGGTACATTGC	0.627													4	25					0	0	1	0	0		A	31089180	A	A	31089180	3	1	103	1	0	0	0	0	1	0	0	0	18087	1116	39	1	1537	1	ZNF646	16	31089180	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	321193	31089180	59265573	1535	63484											
MYST1	84148	broad.mit.edu	37	chr16	31131804	31131804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcactcgcaaccaaaagcGcaagcatgatgagatcaacc	16	5	8	12	2	2	2	2	2	0	1	3	4	2	2	2	0	4	3	2	0	5	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:31131804G>A	uc002eay.2	+	3	449	c.431G>A	c.(430-432)CGC>CAC	p.R144H	MYST1_uc002eax.2_Missense_Mutation_p.R144H	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	144					histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						AACCAAAAGCGCAAGCATGAT	0.567													11	17					0	0	1	0	0		A	31131804	A	A	31131804	3	1	103	1	0	0	0	0	1	0	0	0	10120	1087	38	1	441	1	MYST1	16	31131804	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	42624	31131804	59222949	1536	63485											
PRSS36	146547	broad.mit.edu	37	chr16	31154777	31154777	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggccaggcccctggccgcGgggccttcccgcactctgag	4	5	15	17	3	1	1	0	1	1	0	2	1	2	1	6	5	0	1	6	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:31154777G>T	uc002ebd.2	-	8	1045	c.986C>A	c.(985-987)CCG>CAG	p.P329Q	PRSS36_uc010vff.1_Missense_Mutation_p.P104Q|PRSS36_uc010vfg.1_Missense_Mutation_p.P329Q|PRSS36_uc010vfh.1_Missense_Mutation_p.P329Q	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	329	Peptidase S1 2.				proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						CCCTGGCCGCGGGGCCTTCCC	0.667													17	26					5.03518e-11	5.27141e-11	1	1	0		T	31154777	T	T	31154777	3	4	103	1	0	0	0	0	1	0	0	0	12647	1116	39	5	1613	5	PRSS36	16	31154777	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	22973	31154777	59199976	1537	63486											
ITGAM	3684	broad.mit.edu	37	chr16	31309156	31309156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctaacagtgctgggggacGtaaatggggacaagctgacg	11	6	15	9	2	0	1	0	1	0	0	0	3	0	3	1	4	3	3	1	4	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:31309156G>A	uc002ebq.2	+	14	1686	c.1588G>A	c.(1588-1590)GTA>ATA	p.V530I	ITGAM_uc002ebr.2_Missense_Mutation_p.V531I|ITGAM_uc010cam.1_Intron|ITGAM_uc010can.2_Intron	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	530	FG-GAP 6.|Extracellular (Potential).|Potential.				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						GCTGGGGGACGTAAATGGGGA	0.612													36	59					0	0	1	0	0		A	31309156	A	A	31309156	3	1	103	1	0	0	0	0	1	0	0	0	7903	1145	40	1	1645	1	ITGAM	16	31309156	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	154379	31309156	59045597	1538	63487											
N4BP1	9683	broad.mit.edu	37	chr16	48585361	48585361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagttaaagataatattcCgagctcctggagctgggtta	12	11	12	6	1	0	1	0	0	0	1	2	4	2	3	2	3	2	4	2	3	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:48585361C>T	uc002efp.2	-	4	2290	c.2053G>A	c.(2053-2055)GGA>AGA	p.G685R		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	685					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				GATAATATTCCGAGCTCCTGG	0.413													51	77					0	0	1	0	0		T	48585361	T	T	48585361	3	4	103	1	0	0	0	0	1	0	0	0	10127	661	23	1	653	1	N4BP1	16	48585361	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	17276205	48585361	41769392	1539	63488											
SNX20	124460	broad.mit.edu	37	chr16	50707922	50707922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgcgaagtcggaatagcGccgttccaggacggccttgt	7	9	13	12	6	0	0	0	0	0	0	3	3	1	2	3	3	1	1	3	3	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:50707922G>A	uc002egk.2	-	4	519	c.346C>T	c.(346-348)CGC>TGC	p.R116C	SNX20_uc010vgp.1_Intron|SNX20_uc002egi.3_Intron	NM_182854	NP_878274	Q7Z614	SNX20_HUMAN	sorting nexin 20 isoform 1	116	PX.	Phosphatidylinositol 3-phosphate (By similarity).		R->Q: Decreased binding activity to all phospholipids.	cell communication|protein transport	endosome membrane|nucleus|plasma membrane	phosphatidylinositol binding|protein binding			ovary(1)	1						TCGGAATAGCGCCGTTCCAGG	0.567													24	44					0	0	1	0	0		A	50707922	A	A	50707922	3	1	103	1	0	0	0	0	1	0	0	0	14917	1087	38	1	751	1	SNX20	16	50707922	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2122561	50707922	39646831	1540	63489											
CYLD	1540	broad.mit.edu	37	chr16	50826538	50826538	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctgattattcagatgcctCgatttggaaaagactttaaa	13	14	8	6	1	2	3	1	1	1	2	3	5	2	4	1	1	1	0	1	1	5	5	rs121908388		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:50826538C>T	uc002egp.1	+	16	2687	c.2272C>T	c.(2272-2274)CGA>TGA	p.R758*	CYLD_uc010cbs.1_Nonsense_Mutation_p.R755*|CYLD_uc002egq.1_Nonsense_Mutation_p.R755*|CYLD_uc002egr.1_Nonsense_Mutation_p.R755*	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	758					cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding	p.R758*(2)		skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				TCAGATGCCTCGATTTGGAAA	0.264			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				6	13					0	0	1	0	0		T	50826538	T	T	50826538	4	4	103	1	0	0	0	0	0	1	0	0	4146	876	31	1	2326	1	CYLD	16	50826538	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	118616	50826538	39528215	1541	63490											
RBL2	5934	broad.mit.edu	37	chr16	53501054	53501054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagaagggtgactgaagttCgtgctgatactggaggactt	10	10	14	7	1	0	4	0	3	0	1	1	6	0	6	1	3	2	2	1	3	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:53501054C>T	uc002ehi.3	+	14	2066	c.1948C>T	c.(1948-1950)CGT>TGT	p.R650C	RBL2_uc010vgv.1_Missense_Mutation_p.R576C|RBL2_uc002ehj.2_Missense_Mutation_p.R360C|RBL2_uc010vgw.1_Intron	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	650	Spacer.|Pocket; binds E1A.				cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						GACTGAAGTTCGTGCTGATAC	0.423													56	86					0	0	1	0	0		T	53501054	T	T	53501054	3	4	103	1	0	0	0	0	1	0	0	0	13135	884	31	1	2002	1	RBL2	16	53501054	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2674516	53501054	36853699	1542	63491											
MMP2	4313	broad.mit.edu	37	chr16	55522591	55522591	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcggcaccactgaggactaCgaccgcgacaagaagtatgg	12	5	13	11	4	0	2	0	1	0	1	0	5	0	3	2	3	2	2	2	3	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:55522591C>T	uc002ehz.3	+	6	1280	c.969C>T	c.(967-969)TAC>TAT	p.Y323Y	MMP2_uc010vhd.1_Silent_p.Y247Y|MMP2_uc010ccc.2_Silent_p.Y273Y	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	323	Fibronectin type-II 2.|Collagen-binding.				angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	CTGAGGACTACGACCGCGACA	0.602													5	6					0	0	1	0	0		T	55522591	T	T	55522591	2	4	103	1	0	0	0	0	0	0	0	1	9676	547	19	1		1	MMP2	16	55522591	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2021537	55522591	34832162	1543	63492											
FAM192A	80011	broad.mit.edu	37	chr16	57201038	57201038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcctgccaacagcttcGcctgggagaacttgttcttg	7	11	10	13	1	1	1	0	0	1	1	3	2	2	1	3	1	5	3	3	1	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:57201038G>A	uc010vhk.1	-	5	708	c.449C>T	c.(448-450)GCG>GTG	p.A150V	FAM192A_uc002ekz.3_Missense_Mutation_p.A149V|FAM192A_uc002ekv.3_Missense_Mutation_p.A72V|FAM192A_uc002ekw.3_Missense_Mutation_p.A149V|FAM192A_uc002ekx.3_Missense_Mutation_p.A149V|FAM192A_uc002eky.3_Missense_Mutation_p.A149V	NM_024946	NP_079222	Q9GZU8	F192A_HUMAN	NEFA-interacting nuclear protein NIP30	150						nucleus					0						CAACAGCTTCGCCTGGGAGAA	0.438													64	88					0	0	1	0	0		A	57201038	A	A	57201038	3	1	103	1	0	0	0	0	1	0	0	0	5534	1087	38	1	327	1	FAM192A	16	57201038	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1678447	57201038	33153715	1544	63493											
CNGB1	1258	broad.mit.edu	37	chr16	57935308	57935308	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacagagcgaagcctcttcAgcatgtcaaagatcatctgc	13	8	8	12	1	5	2	3	0	2	2	5	3	5	2	1	0	5	1	1	0	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:57935308A>G	uc002emt.2	-	29	2989	c.2924T>C	c.(2923-2925)CTG>CCG	p.L975P	CNGB1_uc010cdh.2_Missense_Mutation_p.L969P	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	975	Helical; Name=H6; (Potential).|cAMP (By similarity).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						AAGCCTCTTCAGCATGTCAAA	0.572													43	88					0	0	1	0	0		G	57935308	G	G	57935308	3	3	103	1	0	0	0	0	1	0	0	0	3603	188	7	3	851	3	CNGB1	16	57935308	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	734270	57935308	32419445	1545	63494											
TPPP3	51673	broad.mit.edu	37	chr16	67424238	67424238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgctggtgtccgtcagccGgtctacagcaccccctgttt	4	12	10	15	2	3	0	1	0	2	0	4	0	4	0	4	2	4	3	4	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:67424238G>A	uc002esz.2	-	3	1205	c.370C>T	c.(370-372)CGG>TGG	p.R124W	TPPP3_uc002eta.2_Missense_Mutation_p.R124W|TPPP3_uc002etb.2_Missense_Mutation_p.R124W	NM_016140	NP_057224	Q9BW30	TPPP3_HUMAN	tubulin polymerization-promoting protein family	124					microtubule bundle formation	cytoplasm|microtubule	calcium ion binding|tubulin binding			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0336)|Epithelial(162;0.0781)		TCCGTCAGCCGGTCTACAGCA	0.617													75	87					0	0	1	0	0		A	67424238	A	A	67424238	3	1	103	1	0	0	0	0	1	0	0	0	16441	1115	39	1	164	1	TPPP3	16	67424238	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	9488930	67424238	22930515	1546	63495											
HSD11B2	3291	broad.mit.edu	37	chr16	67470747	67470747	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgtacttcatccactactaCctgcctgaaggcctgcggcg	8	10	9	14	2	1	1	1	1	0	0	2	1	2	1	4	2	5	1	4	2	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:67470747C>T	uc002etd.2	+	5	1175	c.1059C>T	c.(1057-1059)TAC>TAT	p.Y353Y		NM_000196	NP_000187	P80365	DHI2_HUMAN	hydroxysteroid (11-beta) dehydrogenase 2	353					glucocorticoid biosynthetic process	endoplasmic reticulum|microsome					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0401)|Epithelial(162;0.0891)	NADH(DB00157)	TCCACTACTACCTGCCTGAAG	0.642													53	88					0	0	1	0	0		T	67470747	T	T	67470747	2	4	103	1	0	0	0	0	0	0	0	1	7393	518	18	4		4	HSD11B2	16	67470747	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	46509	67470747	22884006	1547	63496											
CTCF	10664	broad.mit.edu	37	chr16	67670706	67670706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccaccacccgccaagaagCggagaggacgaccccctggc	10	1	11	19	3	0	2	0	0	0	2	0	5	0	3	7	3	1	0	7	3	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:67670706C>T	uc002etl.2	+	11	2241	c.1951C>T	c.(1951-1953)CGG>TGG	p.R651W	CTCF_uc010cek.2_Missense_Mutation_p.R323W|CTCF_uc002etm.1_Missense_Mutation_p.R140W	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor	651					chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)		CGCCAAGAAGCGGAGAGGACG	0.592													60	159					0	0	1	0	0		T	67670706	T	T	67670706	3	4	103	1	0	0	0	0	1	0	0	0	4003	759	27	1	1985	1	CTCF	16	67670706	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	199959	67670706	22684047	1548	63497											
CENPT	80152	broad.mit.edu	37	chr16	67865197	67865197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggcgggctggaggtctgcGggccaagccaggcctctgca	5	6	17	13	3	2	0	0	0	2	0	3	1	2	1	3	6	3	2	3	6	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:67865197G>A	uc002eun.3	-	10	1174	c.625C>T	c.(625-627)CGC>TGC	p.R209C	CENPT_uc002eum.3_Missense_Mutation_p.R209C|CENPT_uc010vkc.1_5'UTR|CENPT_uc010vkd.1_5'UTR|CENPT_uc010vke.1_Missense_Mutation_p.R106C	NM_025082	NP_079358	Q96BT3	CENPT_HUMAN	centromere protein T	209					mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleus	DNA binding				0		Acute lymphoblastic leukemia(13;0.000299)|all_hematologic(13;0.0184)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00429)|Epithelial(162;0.019)|all cancers(182;0.124)		GGAGGTCTGCGGGCCAAGCCA	0.597													18	30					0	0	1	0	0		A	67865197	A	A	67865197	3	1	103	1	0	0	0	0	1	0	0	0	3245	1116	39	1	1088	1	CENPT	16	67865197	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	194491	67865197	22489556	1549	63498											
ESRP2	80004	broad.mit.edu	37	chr16	68264452	68264452	+	Frame_Shift_Del	DEL	G	-	-																															ccacagtggtgggggagactGgggggctagggtgggagaga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:68264452delG	uc010cfa.1	-	14	2122	c.1934delC	c.(1933-1935)CCAfs	p.P645fs	ESRP2_uc002evp.1_RNA|ESRP2_uc002evq.1_Frame_Shift_Del_p.P635fs	NM_024939	NP_079215	Q9H6T0	ESRP2_HUMAN	RNA binding motif protein 35B	645					mRNA processing|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding|nucleotide binding			ovary(1)	1						GGGGGAGACTGGGGGGCTAGG	0.592													25	32	---	---	---	---						.	-	68264452	-	-	68264452	7	5	103	1	0	1	0	1	0	0	0	0	5267	1348	47	0	257	0	ESRP2	16	68264452	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	399255	68264452	22090301	1550	63499											
SMPD3	55512	broad.mit.edu	37	chr16	68395144	68395144	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccgaagacaccatcagtcGcatggctactggcaggtggt	9	7	12	13	2	1	1	1	0	0	1	2	2	1	1	3	4	1	3	3	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:68395144G>A	uc002ewa.2	-	9	2355	c.1933C>T	c.(1933-1935)CGA>TGA	p.R645*	SMPD3_uc010cfe.2_Nonsense_Mutation_p.R628*|SMPD3_uc010vlh.1_Nonsense_Mutation_p.R637*	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	645	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	ACCATCAGTCGCATGGCTACT	0.637													13	8					0	0	1	0	0		A	68395144	A	A	68395144	4	1	103	1	0	0	0	0	0	1	0	0	14831	1095	38	1	38	1	SMPD3	16	68395144	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	130692	68395144	21959609	1551	63500											
SMPD3	55512	broad.mit.edu	37	chr16	68405487	68405487	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttaatgctcccggggaCggcccgggccaccccatcgc	5	6	11	19	4	1	0	0	0	1	0	3	1	2	1	6	4	1	1	6	4	1	1	rs149257689		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:68405487C>T	uc002ewa.2	-	3	1020	c.598G>A	c.(598-600)GTC>ATC	p.V200I	SMPD3_uc010cfe.2_Missense_Mutation_p.V200I|SMPD3_uc010vlh.1_Missense_Mutation_p.V200I	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	200	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	CTCCCGGGGACGGCCCGGGCC	0.652													14	19					0	0	1	0	0		T	68405487	T	T	68405487	3	4	103	1	0	0	0	0	1	0	0	0	14831	536	19	1	1397	1	SMPD3	16	68405487	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	10343	68405487	21949266	1552	63501											
CDH3	1001	broad.mit.edu	37	chr16	68713830	68713830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcatgttcaccattcacCggagcacaggcaccatcagc	11	7	7	16	1	4	0	4	0	0	0	4	1	4	1	4	2	2	3	4	2	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:68713830C>T	uc002ewf.2	+	7	1952	c.820C>T	c.(820-822)CGG>TGG	p.R274W	CDH3_uc010vli.1_Missense_Mutation_p.R219W	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	274	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		CACCATTCACCGGAGCACAGG	0.557													32	38					0	0	1	0	0		T	68713830	T	T	68713830	3	4	103	1	0	0	0	0	1	0	0	0	3114	643	23	1	846	1	CDH3	16	68713830	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	308343	68713830	21640923	1553	63502											
TMCO7	79613	broad.mit.edu	37	chr16	68941412	68941412	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagggccgggtggagcatctCggggacttgctgtcccactg	5	8	16	12	2	1	0	0	0	1	0	3	2	2	2	2	5	2	2	2	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:68941412C>T	uc002ewi.3	+	10	1746	c.1734C>T	c.(1732-1734)CTC>CTT	p.L578L		NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	578						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		TGGAGCATCTCGGGGACTTGC	0.488													27	40					0	0	1	0	0		T	68941412	T	T	68941412	2	4	103	1	0	0	0	0	0	0	0	1	16026	871	31	1		1	TMCO7	16	68941412	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	227582	68941412	21413341	1554	63503											
TMCO7	79613	broad.mit.edu	37	chr16	69117396	69117396	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctcatgcaggtgctgagCgccgtcctcaaggatctcta	7	11	10	13	2	4	1	2	1	2	0	7	2	5	2	2	2	3	2	2	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:69117396C>T	uc002ewi.3	+	18	3129	c.3117C>T	c.(3115-3117)AGC>AGT	p.S1039S		NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	1039						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		AGGTGCTGAGCGCCGTCCTCA	0.587													6	10					0	0	1	0	0		T	69117396	T	T	69117396	2	4	103	1	0	0	0	0	0	0	0	1	16026	767	27	1		1	TMCO7	16	69117396	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	175984	69117396	21237357	1555	63504											
MTSS1L	92154	broad.mit.edu	37	chr16	70712206	70712206	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaagcggccccgctcctcGatcagcgcccggcgcacggc	6	3	13	19	7	1	1	1	0	0	1	3	2	2	1	4	3	2	2	4	3	1	0	rs3813907		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:70712206G>A	uc002ezj.2	-	8	833	c.573C>T	c.(571-573)ATC>ATT	p.I191I	MTSS1L_uc002ezk.1_Silent_p.I108I	NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	191	IMD.				filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						CCCGCTCCTCGATCAGCGCCC	0.677													35	60					0	0	1	0	0		A	70712206	A	A	70712206	2	1	103	1	0	0	0	0	0	0	0	1	9981	1048	37	1		1	MTSS1L	16	70712206	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1594810	70712206	19642547	1556	63505											
CHST4	10164	broad.mit.edu	37	chr16	71570593	71570593	+	Frame_Shift_Del	DEL	A	-	-																															tcagcacaatgctactgcctAaaaaaatgaagctcctgctg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:71570593delA	uc002fan.2	+	2	194	c.13delA	c.(13-15)AAAfs	p.K5fs	CHST4_uc002fao.2_Frame_Shift_Del_p.K5fs	NM_005769	NP_005760	Q8NCG5	CHST4_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	5	Cytoplasmic (Potential).				cell-cell signaling|immune response|inflammatory response|N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity				0						GCTACTGCCTAAAAAAATGAA	0.463													56	87	---	---	---	---						.	-	71570593	-	-	71570593	7	5	103	1	0	1	0	1	0	0	0	0	3409	363	13	0	15	0	CHST4	16	71570593	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	858387	71570593	18784160	1557	63506											
DHX38	9785	broad.mit.edu	37	chr16	72141380	72141380	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttccacttcatggacccGcccccggaggacaacatgct	9	7	9	16	2	1	0	1	0	0	0	2	3	2	3	4	3	2	2	4	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:72141380G>A	uc002fcb.2	+	20	3097	c.2742G>A	c.(2740-2742)CCG>CCA	p.P914P	DHX38_uc010vmp.1_Silent_p.P226P	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	914					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				TCATGGACCCGCCCCCGGAGG	0.632													15	26					0	0	1	0	0		A	72141380	A	A	72141380	2	1	103	1	0	0	0	0	0	0	0	1	4517	1074	38	1		1	DHX38	16	72141380	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	570787	72141380	18213373	1558	63507											
ZFHX3	463	broad.mit.edu	37	chr16	72831391	72831392	+	In_Frame_Ins	INS	-	TGC	TGC																															gttgttgttgttgttgctgtINStgctgctgctgttgttgctg																								rs144937928		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:72831391_72831392insTGC	uc002fck.2	-	9	5862_5863	c.5189_5190insGCA	c.(5188-5190)CAA>CAGCAA	p.1730_1730Q>QQ	ZFHX3_uc002fcl.2_In_Frame_Ins_p.816_816Q>QQ	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1730	Poly-Gln.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				gttgttgctgttgctgctgctg	0.401													14	24	---	---	---	---						.	TGC	72831392	TGC	TGC	72831391	7	5	103	1	0	1	1	0	0	0	0	0	17659	1722	60	0	5929	0	ZFHX3	16	72831391	In_Frame_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	690011	72831391	17523362	1559	63508											
CNTNAP4	85445	broad.mit.edu	37	chr16	76528929	76528929	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaactgcattgattctcagTattactgcaattgtgatgct	11	15	8	7	0	1	2	1	2	1	0	2	3	1	2	0	0	5	4	0	0	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:76528929T>C	uc002feu.1	+	16	2588	c.2203T>C	c.(2203-2205)TAT>CAT	p.Y735H	CNTNAP4_uc002fev.1_Missense_Mutation_p.Y599H|CNTNAP4_uc010chb.1_Missense_Mutation_p.Y662H|CNTNAP4_uc002fex.1_Missense_Mutation_p.Y738H|CNTNAP4_uc002few.2_Missense_Mutation_p.Y710H	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	735	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TGATTCTCAGTATTACTGCAA	0.363													43	90					0	0	1	0	0		C	76528929	C	C	76528929	3	2	103	1	0	0	0	0	1	0	0	0	3652	1638	57	3	2270	3	CNTNAP4	16	76528929	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	3697538	76528929	13825824	1560	63509											
ADAMTS18	170692	broad.mit.edu	37	chr16	77369733	77369733	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgaccacttcgaccaggcGgaccactggccgtggatggg	7	7	14	13	3	1	1	0	1	1	0	2	4	1	3	4	5	0	0	4	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:77369733G>A	uc002ffc.3	-	12	2198	c.1779C>T	c.(1777-1779)TCC>TCT	p.S593S	ADAMTS18_uc010chc.1_Silent_p.S181S|ADAMTS18_uc002ffe.1_Silent_p.S289S	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	593	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TCGACCAGGCGGACCACTGGC	0.572													76	132					0	0	1	0	0		A	77369733	A	A	77369733	2	1	103	1	0	0	0	0	0	0	0	1	263	1103	39	1		1	ADAMTS18	16	77369733	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	840804	77369733	12985020	1561	63510											
MBTPS1	8720	broad.mit.edu	37	chr16	84129294	84129294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagccgtctgctcgaatGccttcccgtagcatgccaga	8	8	10	15	3	1	1	0	0	1	1	3	2	2	1	4	0	6	4	4	0	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:84129294G>A	uc002fhi.2	-	4	1040	c.538C>T	c.(538-540)CAT>TAT	p.H180Y		NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	180					cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						CTGCTCGAATGCCTTCCCGTA	0.592													60	83					0	0	1	0	0		A	84129294	A	A	84129294	3	1	103	1	0	0	0	0	1	0	0	0	9379	1319	46	2	2700	2	MBTPS1	16	84129294	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6759561	84129294	6225459	1562	63511											
FOXF1	2294	broad.mit.edu	37	chr16	86544636	86544636	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccaggcgctcaagcccaTgtacagcatgatgaacgggc	11	6	12	12	2	1	2	1	2	0	0	1	2	1	2	2	2	5	3	2	2	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:86544636T>C	uc002fjl.2	+	1	504	c.461T>C	c.(460-462)ATG>ACG	p.M154T	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	154					branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						CTCAAGCCCATGTACAGCATG	0.672													27	57					0	0	1	0	0		C	86544636	C	C	86544636	3	2	103	1	0	0	0	0	1	0	0	0	6019	1464	51	3	463	3	FOXF1	16	86544636	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2415342	86544636	3810117	1563	63512											
JPH3	57338	broad.mit.edu	37	chr16	87678038	87678038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacgcctctccggcggtggCcggcagcccggccgtgtccc	2	5	15	19	7	1	0	0	0	1	0	3	1	2	0	6	5	1	1	6	5	0	0	rs142120839	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:87678038C>T	uc002fkd.2	+	2	811	c.557C>T	c.(556-558)GCC>GTC	p.A186V	JPH3_uc010vou.1_RNA	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	186	Cytoplasmic (Potential).			A -> D (in Ref. 1; BAB11983).	calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		CCGGCGGTGGCCGGCAGCCCG	0.697													7	92					0	0	1	0	0		T	87678038	T	T	87678038	3	4	103	1	0	0	0	0	1	0	0	0	7978	739	26	2	563	2	JPH3	16	87678038	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1133402	87678038	2676715	1564	63513											
C16orf7	9605	broad.mit.edu	37	chr16	89777020	89777021	+	Missense_Mutation	DNP	GC	AT	AT																															cattgtggatctcctccaccGcggtcttcagctgctgcagc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr16:89777020_89777021GC>AT	uc002fom.1	-	10	1356_1357	c.1231_1232GC>AT	c.(1231-1233)GCG>ATG	p.A411M	C16orf7_uc002fol.1_Missense_Mutation_p.A341M|uc002fon.1_5'Flank	NM_004913	NP_004904	Q9Y2B5	CP007_HUMAN	chromosome 16 open reading frame 7	411					ATP synthesis coupled proton transport		GTPase activator activity|transporter activity				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		CTCCTCCACCGCGGTCTTCAGC	0.658													21	11					0	0	1	0	0		AT	89777021	AT	AT	89777020	3	1	103	1	0	0	0	0	1	0	0	0	1831	1087	38	1	687	1	C16orf7	16	89777020	Missense_Mutation	DNP	GC	TCGA-BR-A4QL-01A-31D-A25D-08	2098982	89777020	577733	1565	63514											
SCARF1	8578	broad.mit.edu	37	chr17	1548210	1548210	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcgtctttctggcaggcGtccggcccctcacagatggc	5	9	11	16	3	3	1	1	0	2	1	5	1	4	1	4	4	0	1	4	4	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:1548210G>A	uc002fsz.1	-	3	233	c.183C>T	c.(181-183)GAC>GAT	p.D61D	SCARF1_uc002fsy.1_Silent_p.D61D|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Silent_p.D61D	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	61	EGF-like 1.|Extracellular (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		TCTGGCAGGCGTCCGGCCCCT	0.642													11	19					0	0	1	0	0		A	1548210	A	A	1548210	2	1	103	1	0	0	0	0	0	0	0	1	13908	1136	40	1		1	SCARF1	17	1548210	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08		1548210	79647000	1566	63515											
WDR81	124997	broad.mit.edu	37	chr17	1637421	1637421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcgtctacacccagcaccGcaagagcgtcttcttcgtgg	7	9	9	16	4	3	1	0	0	3	1	5	1	3	1	3	1	3	2	3	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:1637421G>A	uc002fti.2	+	7	1670	c.1409G>A	c.(1408-1410)CGC>CAC	p.R470H	WDR81_uc002fth.2_Missense_Mutation_p.R646H|WDR81_uc010vqp.1_Missense_Mutation_p.R494H|WDR81_uc002ftj.2_Missense_Mutation_p.R1697H|WDR81_uc010vqq.1_Missense_Mutation_p.R328H	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	470										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		ACCCAGCACCGCAAGAGCGTC	0.677													20	28					0	0	1	0	0		A	1637421	A	A	1637421	3	1	103	1	0	0	0	0	1	0	0	0	17356	1087	38	1	5178	1	WDR81	17	1637421	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	89211	1637421	79557789	1567	63516											
KIAA0664	23277	broad.mit.edu	37	chr17	2597526	2597526	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacgtcctcctcggtgaaCgcgggcttgtggcgactgtc	5	9	14	13	5	0	1	0	1	0	0	4	2	2	1	2	3	2	2	2	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:2597526C>T	uc002fuy.1	-	18	2951	c.2865G>A	c.(2863-2865)GCG>GCA	p.A955A	KIAA0664_uc002fux.1_Silent_p.A888A|KIAA0664_uc010ckc.1_5'UTR	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	955							binding			breast(2)	2						CCTCGGTGAACGCGGGCTTGT	0.637													7	10					0	0	1	0	0		T	2597526	T	T	2597526	2	4	103	1	0	0	0	0	0	0	0	1	8205	523	19	1		1	KIAA0664	17	2597526	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	960105	2597526	78597684	1568	63517											
OR1A2	26189	broad.mit.edu	37	chr17	3101552	3101552	+	Frame_Shift_Del	DEL	T	-	-																															tggctcccacctcacagttgTttttttatattatggtacaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:3101552delT	uc002fvd.1	+	1	740	c.740delT	c.(739-741)GTTfs	p.V247fs		NM_012352	NP_036484	Q9Y585	OR1A2_HUMAN	olfactory receptor, family 1, subfamily A,	247	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CTCACAGTTGTTTTTTTATAT	0.453													55	85	---	---	---	---						.	-	3101552	-	-	3101552	7	5	103	1	0	1	0	1	0	0	0	0	10969	1725	60	0	742	0	OR1A2	17	3101552	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	504026	3101552	78093658	1569	63518											
ITGAE	3682	broad.mit.edu	37	chr17	3651333	3651333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catggagaccttcaggcgaaCcacaggccgggagctaaaca	13	4	12	12	2	1	1	1	0	0	1	1	4	1	2	3	4	3	1	3	4	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:3651333C>T	uc002fwo.3	-	17	2137	c.2038G>A	c.(2038-2040)GTT>ATT	p.V680I		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	680	FG-GAP 7.|Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		TTCAGGCGAACCACAGGCCGG	0.512													10	23					0	0	1	0	0		T	3651333	T	T	3651333	3	4	103	1	0	0	0	0	1	0	0	0	7901	507	18	4	1561	4	ITGAE	17	3651333	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	549781	3651333	77543877	1570	63519											
CAMTA2	23125	broad.mit.edu	37	chr17	4880409	4880409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagacaggaatcggcgggctCgatactcaaagagcacagaa	15	4	13	9	3	1	3	1	0	0	3	3	6	1	4	0	3	2	2	0	3	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:4880409C>T	uc002gah.1	-	11	1952	c.1844G>A	c.(1843-1845)CGA>CAA	p.R615Q	CAMTA2_uc010cku.1_Missense_Mutation_p.R638Q|CAMTA2_uc002gag.1_Missense_Mutation_p.R614Q|CAMTA2_uc002gai.1_Missense_Mutation_p.R617Q|CAMTA2_uc010ckv.1_Missense_Mutation_p.R262Q	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	615	IPT/TIG.				cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						TCGGCGGGCTCGATACTCAAA	0.592													43	60					0	0	1	0	0		T	4880409	T	T	4880409	3	4	103	1	0	0	0	0	1	0	0	0	2617	884	31	1	1866	1	CAMTA2	17	4880409	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1229076	4880409	76314801	1571	63520											
CAMTA2	23125	broad.mit.edu	37	chr17	4886166	4886166	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accttcttgcgattgtagagGatgatggagccattctgagg	9	12	13	7	1	2	3	0	2	2	1	2	6	2	5	2	3	2	1	2	3	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:4886166G>A	uc002gah.1	-	5	333	c.225C>T	c.(223-225)ATC>ATT	p.I75I	CAMTA2_uc010cku.1_Silent_p.I98I|CAMTA2_uc002gag.1_Silent_p.I98I|CAMTA2_uc002gai.1_Silent_p.I77I|CAMTA2_uc010ckv.1_5'Flank|CAMTA2_uc010vsu.1_5'UTR	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	75	CG-1.				cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						GATTGTAGAGGATGATGGAGC	0.537													31	54					0	0	1	0	0		A	4886166	A	A	4886166	2	1	103	1	0	0	0	0	0	0	0	1	2617	1164	41	4		4	CAMTA2	17	4886166	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5757	4886166	76309044	1572	63521											
BCL6B	255877	broad.mit.edu	37	chr17	6930069	6930069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggagcccgttttaaccGgccagcaaacctgaaaacgc	11	6	10	14	4	0	1	0	1	0	0	0	2	0	2	4	2	6	2	4	2	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:6930069G>A	uc002geg.2	+	7	1157	c.1100G>A	c.(1099-1101)CGG>CAG	p.R367Q	BCL6B_uc010clt.1_Missense_Mutation_p.R368Q	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	367	C2H2-type 2.					nucleus	zinc ion binding			skin(1)	1						CGTTTTAACCGGCCAGCAAAC	0.572													42	72					0	0	1	0	0		A	6930069	A	A	6930069	3	1	103	1	0	0	0	0	1	0	0	0	1378	1116	39	1	1122	1	BCL6B	17	6930069	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2043903	6930069	74265141	1573	63522											
YBX2	51087	broad.mit.edu	37	chr17	7193758	7193758	+	Frame_Shift_Del	DEL	G	-	-																															tggggcaactgagggaggccGggggatgaatcggcgggact																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:7193758delG	uc002gfq.2	-	5	613	c.556delC	c.(556-558)CGGfs	p.R186fs		NM_015982	NP_057066	Q9Y2T7	YBOX2_HUMAN	Y box binding protein 2	186	Pro-rich.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter|translational attenuation	cytoplasm|nucleus	DNA binding				0						GAGGGAGGCCGGGGGATGAAT	0.652													37	64	---	---	---	---						.	-	7193758	-	-	7193758	7	5	103	1	0	1	0	1	0	0	0	0	17496	1115	39	0	554	0	YBX2	17	7193758	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	263689	7193758	74001452	1574	63523											
GPS2	2874	broad.mit.edu	37	chr17	7217257	7217258	+	Frame_Shift_Del	DEL	CT	-	-																															gggtccaaacatttgtttggCtctgtcagctgccatgaggg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:7217257_7217258delCT	uc002gfv.1	-	5	710_711	c.447_448delAG	c.(445-450)AGAGCCfs	p.R149fs	GPS2_uc002gfw.1_Frame_Shift_Del_p.R111fs|GPS2_uc002gfx.1_Frame_Shift_Del_p.R149fs|NEURL4_uc002gfy.1_RNA|GPS2_uc002gfz.1_Frame_Shift_Del_p.R149fs	NM_004489	NP_004480	Q13227	GPS2_HUMAN	G protein pathway suppressor 2	149_150					cell cycle|inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of transcription from RNA polymerase II promoter	transcriptional repressor complex	GTPase inhibitor activity|protein binding|transcription corepressor activity			ovary(2)|pancreas(1)	3		Prostate(122;0.157)				ATTTGTTTGGCTCTGTCAGCTG	0.53													71	109	---	---	---	---						.	-	7217258	-	-	7217257	7	5	103	1	0	1	0	1	0	0	0	0	6749	797	28	0	559	0	GPS2	17	7217257	Frame_Shift_Del	DEL	CT	TCGA-BR-A4QL-01A-31D-A25D-08	23499	7217257	73977953	1575	63524											
C17orf74	201243	broad.mit.edu	37	chr17	7329696	7329696	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgttcgtcgccgccgccGccgccaccgccgttgtcgcc	1	8	12	20	9	0	0	0	0	0	0	3	0	0	0	8	0	0	2	8	0	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:7329696G>A	uc002ggw.2	+	3	459	c.386G>A	c.(385-387)CGC>CAC	p.R129H	FGF11_uc010vtw.1_Intron	NM_175734	NP_783861	Q0P670	CQ074_HUMAN	hypothetical protein LOC201243	129	Arg-rich.					integral to membrane					0		Prostate(122;0.157)				cgccgccgccgccgccaccgc	0.413													26	48					0	0	1	0	0		A	7329696	A	A	7329696	3	1	103	1	0	0	0	0	1	0	0	0	1882	1087	38	1	396	1	C17orf74	17	7329696	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	112439	7329696	73865514	1576	63525											
ZBTB4	57659	broad.mit.edu	37	chr17	7365565	7365565	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtagaaagtgactttggcAgcccctatcccctccatccg	8	9	10	14	1	0	2	0	1	0	1	3	2	3	2	6	2	1	2	6	2	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:7365565A>G	uc002ghc.3	-	4	2986	c.2736T>C	c.(2734-2736)GCT>GCC	p.A912A	ZBTB4_uc002ghd.3_Silent_p.A912A	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	912					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		TGACTTTGGCAGCCCCTATCC	0.642													59	86					0	0	1	0	0		G	7365565	G	G	7365565	2	3	103	1	0	0	0	0	0	0	0	1	17566	175	7	3		3	ZBTB4	17	7365565	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	35869	7365565	73829645	1577	63526											
TRAPPC1	58485	broad.mit.edu	37	chr17	7833935	7833935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggttgcttcagccagcccGggcggagaagaagggcagag	10	5	17	9	2	1	3	1	0	0	3	1	4	1	3	2	4	3	3	2	4	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:7833935G>A	uc002gjo.1	-	4	543	c.427C>T	c.(427-429)CGG>TGG	p.R143W	KCNAB3_uc002gjm.1_5'Flank|KCNAB3_uc010vul.1_5'Flank|CNTROB_uc002gjp.2_5'Flank|CNTROB_uc002gjq.2_5'Flank	NM_021210	NP_067033	Q9Y5R8	TPPC1_HUMAN	trafficking protein particle complex 1	143					ER to Golgi vesicle-mediated transport	endoplasmic reticulum					0		Prostate(122;0.173)				CAGCCAGCCCGGGCGGAGAAG	0.597													21	25					0	0	1	0	0		A	7833935	A	A	7833935	3	1	103	1	0	0	0	0	1	0	0	0	16482	1115	39	1	14	1	TRAPPC1	17	7833935	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	468370	7833935	73361275	1578	63527											
ALOX12B	242	broad.mit.edu	37	chr17	7976235	7976235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccgcggggcctcctccaCgaagtgaatgtccgggaagt	7	7	13	14	4	0	1	0	1	0	0	4	3	4	2	6	3	0	0	6	3	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:7976235C>T	uc002gjy.1	-	15	2221	c.1960G>A	c.(1960-1962)GTG>ATG	p.V654M		NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	654	Lipoxygenase.				epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						GCCTCCTCCACGAAGTGAATG	0.682										Multiple Myeloma(8;0.094)			16	20					0	0	1	0	0		T	7976235	T	T	7976235	3	4	103	1	0	0	0	0	1	0	0	0	537	536	19	1	149	1	ALOX12B	17	7976235	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	142300	7976235	73218975	1579	63528											
PFAS	5198	broad.mit.edu	37	chr17	8172397	8172397	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctgaatcccaatgggtccCcagggggcgtggctggcatc	6	8	14	13	1	1	1	0	1	1	0	4	1	3	1	3	5	0	2	3	5	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:8172397C>A	uc002gkr.2	+	28	3973	c.3832C>A	c.(3832-3834)CCA>ACA	p.P1278T	PFAS_uc010vuv.1_Missense_Mutation_p.P854T|PFAS_uc002gks.2_3'UTR	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	1278	Glutamine amidotransferase type-1.				'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CAATGGGTCCCCAGGGGGCGT	0.642													32	53					4.00102e-26	4.31866e-26	1	1	0		A	8172397	A	A	8172397	3	1	103	1	0	0	0	0	1	0	0	0	11773	623	22	5	3938	5	PFAS	17	8172397	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	196162	8172397	73022813	1580	63529											
ARHGEF15	22899	broad.mit.edu	37	chr17	8219412	8219412	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgagcggctcccgctgccGtccttcctgctactgccctt	2	12	10	17	3	0	1	0	1	0	0	3	1	3	1	5	1	5	3	5	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:8219412G>A	uc002glc.2	+	9	1771	c.1650G>A	c.(1648-1650)CCG>CCA	p.P550P	ARHGEF15_uc002gld.2_Silent_p.P550P|ARHGEF15_uc010vuw.1_Silent_p.P439P	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	550	DH.				negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						TCCCGCTGCCGTCCTTCCTGC	0.677													5	11					0	0	1	0	0		A	8219412	A	A	8219412	2	1	103	1	0	0	0	0	0	0	0	1	898	1132	40	1		1	ARHGEF15	17	8219412	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	47015	8219412	72975798	1581	63530											
MYH10	4628	broad.mit.edu	37	chr17	8408178	8408178	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatttgggcttgtagctctcGcacaactttaagggcattgt	9	14	10	8	1	1	0	0	0	1	0	2	0	1	0	0	2	2	5	0	2	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:8408178G>A	uc002gll.2	-	26	3436	c.3340C>T	c.(3340-3342)CGA>TGA	p.R1114*	MYH10_uc002glm.2_Nonsense_Mutation_p.R1145*|MYH10_uc010cnx.2_Nonsense_Mutation_p.R1123*	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1114	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TGTAGCTCTCGCACAACTTTA	0.493													11	147					0	0	1	0	0		A	8408178	A	A	8408178	4	1	103	1	0	0	0	0	0	1	0	0	10048	1095	38	1	2654	1	MYH10	17	8408178	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	188766	8408178	72787032	1582	63531											
MFSD6L	162387	broad.mit.edu	37	chr17	8700837	8700837	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atggacaggagcaaggccaaCcagagcaacagggccacaca	16	1	12	12	0	0	1	0	0	0	1	0	3	0	3	3	4	4	2	3	4	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:8700837C>T	uc002glp.1	-	1	1750	c.1602G>A	c.(1600-1602)TGG>TGA	p.W534*		NM_152599	NP_689812	Q8IWD5	MFS6L_HUMAN	major facilitator superfamily domain containing	534	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						GCAAGGCCAACCAGAGCAACA	0.607													22	36					0	0	1	0	0		T	8700837	T	T	8700837	4	4	103	1	0	0	0	0	0	1	0	0	9554	508	18	4	162	4	MFSD6L	17	8700837	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	292659	8700837	72494373	1583	63532											
WDR16	146845	broad.mit.edu	37	chr17	9489257	9489257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtctggagagtacatcGcctccggacaagtcacattc	10	8	10	13	2	2	1	1	0	1	1	5	3	3	2	3	3	1	1	3	3	2	2	rs141718755	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:9489257G>A	uc002gly.2	+	2	307	c.238G>A	c.(238-240)GCC>ACC	p.A80T	WDR16_uc002glz.2_Intron|WDR16_uc010coc.2_Missense_Mutation_p.A90T	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	80	WD 1.					cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						AGAGTACATCGCCTCCGGACA	0.478													37	70					0	0	1	0	0		A	9489257	A	A	9489257	3	1	103	1	0	0	0	0	1	0	0	0	17302	1087	38	1	244	1	WDR16	17	9489257	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	788420	9489257	71705953	1584	63533											
DHRS7C	201140	broad.mit.edu	37	chr17	9694592	9694592	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagcatcagcatggccaTgactcccatcttgttctggg	7	10	13	11	0	3	1	1	1	2	0	4	2	4	2	2	4	2	3	2	4	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:9694592T>C	uc010vvb.1	-	1	10	c.10A>G	c.(10-12)ATG>GTG	p.M4V	DHRS7C_uc010cof.2_Missense_Mutation_p.M4V	NM_001105571	NP_001099041	A6NNS2	DRS7C_HUMAN	dehydrogenase/reductase (SDR family) member 7C	4						extracellular region	binding|oxidoreductase activity				0						AGCATGGCCATGACTCCCATC	0.577													11	12					0	0	1	0	0		C	9694592	C	C	9694592	3	2	103	1	0	0	0	0	1	0	0	0	4503	1464	51	3	949	3	DHRS7C	17	9694592	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	205335	9694592	71500618	1585	63534											
MYH4	4622	broad.mit.edu	37	chr17	10348335	10348335	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttcttcccacccttcagCgccagctgctcagcctcatc	5	11	6	19	1	4	0	3	0	1	0	6	0	5	0	4	0	5	3	4	0	0	3	rs141762664		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:10348335C>T	uc002gmn.2	-	37	5535	c.5424G>A	c.(5422-5424)GCG>GCA	p.A1808A	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1808	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CACCCTTCAGCGCCAGCTGCT	0.557													46	92					0	0	1	0	0		T	10348335	T	T	10348335	2	4	103	1	0	0	0	0	0	0	0	1	10055	755	27	1		1	MYH4	17	10348335	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	653743	10348335	70846875	1586	63535											
MYH3	4621	broad.mit.edu	37	chr17	10533718	10533718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccaggttcttcttcatccGctcaaggtgggcgctggtgt	4	14	12	11	2	4	0	2	0	2	0	6	0	6	0	2	4	0	3	2	4	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:10533718G>A	uc002gmq.1	-	36	5421	c.5344C>T	c.(5344-5346)CGG>TGG	p.R1782W		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1782	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TTCTTCATCCGCTCAAGGTGG	0.577													43	90					0	0	1	0	0		A	10533718	A	A	10533718	3	1	103	1	0	0	0	0	1	0	0	0	10054	1086	38	1	498	1	MYH3	17	10533718	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	185383	10533718	70661492	1587	63536											
MYH3	4621	broad.mit.edu	37	chr17	10533732	10533732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccgctcaaggtgggcgCtggtgtcctgctccttcttc	3	13	11	14	2	3	0	2	0	1	0	7	0	6	0	3	3	1	3	3	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:10533732C>T	uc002gmq.1	-	36	5407	c.5330G>A	c.(5329-5331)AGC>AAC	p.S1777N		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1777	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						AAGGTGGGCGCTGGTGTCCTG	0.587													38	93					0	0	1	0	0		T	10533732	T	T	10533732	3	4	103	1	0	0	0	0	1	0	0	0	10054	797	28	2	512	2	MYH3	17	10533732	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	14	10533732	70661478	1588	63537											
MAP2K4	6416	broad.mit.edu	37	chr17	12011144	12011144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatggaactcatgtctacctCgtttgataagttttacaaat	12	16	6	7	1	2	1	1	1	1	0	3	2	2	2	1	1	3	2	1	1	6	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:12011144C>T	uc002gnj.2	+	5	620	c.551C>T	c.(550-552)TCG>TTG	p.S184L	MAP2K4_uc002gnk.2_Missense_Mutation_p.S195L|MAP2K4_uc010vvi.1_Missense_Mutation_p.S66L|MAP2K4_uc010vvj.1_Missense_Mutation_p.S56L	NM_003010	NP_003001	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4	184	Protein kinase.				cellular response to mechanical stimulus|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|JUN kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.S184L(2)|p.?(1)		large_intestine(14)|breast(12)|lung(8)|ovary(8)|pancreas(8)|stomach(2)|central_nervous_system(1)|biliary_tract(1)|testis(1)|endometrium(1)|urinary_tract(1)|skin(1)	58		all_cancers(5;0.0413)|Breast(5;0.000625)|all_epithelial(5;0.00978)|all_lung(20;0.0449)|Lung NSC(33;0.163)		Epithelial(2;4.12e-09)|all cancers(2;6.86e-07)|BRCA - Breast invasive adenocarcinoma(2;8.74e-07)|Colorectal(4;5.32e-05)|COAD - Colon adenocarcinoma(4;0.0039)|READ - Rectum adenocarcinoma(10;0.0681)		ATGTCTACCTCGTTTGATAAG	0.299			D|Mis|N		pancreatic|breast|colorectal								44	87					0	0	1	0	0		T	12011144	T	T	12011144	3	4	103	1	0	0	0	0	1	0	0	0	9257	893	31	1	569	1	MAP2K4	17	12011144	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1477412	12011144	69184066	1589	63538											
MYOCD	93649	broad.mit.edu	37	chr17	12656041	12656041	+	Frame_Shift_Del	DEL	C	-	-																															ggacaccttcaatgatgcctCcccctccttcggcctgcacc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:12656041delC	uc002gnn.2	+	10	1735	c.1436delC	c.(1435-1437)TCCfs	p.S479fs	MYOCD_uc002gno.2_Frame_Shift_Del_p.S479fs|MYOCD_uc002gnp.1_Frame_Shift_Del_p.S383fs|MYOCD_uc002gnq.2_Frame_Shift_Del_p.S198fs	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	479	Ser-rich.				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		AATGATGCCTCCCCCTCCTTC	0.627													27	61	---	---	---	---						.	-	12656041	-	-	12656041	7	5	103	1	0	1	0	1	0	0	0	0	10105	855	30	0	1474	0	MYOCD	17	12656041	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	644897	12656041	68539169	1590	63539											
TRIM16	10626	broad.mit.edu	37	chr17	15532407	15532407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaacctgctggggaggtccGggtagggatgctcccagggc	6	6	19	10	1	0	0	0	0	0	0	2	3	2	3	3	7	3	3	3	7	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:15532407G>A	uc002gox.2	-	9	1774	c.1217C>T	c.(1216-1218)CCG>CTG	p.P406L	TRIM16_uc002gor.1_Missense_Mutation_p.P406L|TRIM16_uc002gow.2_Missense_Mutation_p.P190L|TRIM16_uc002goy.2_Missense_Mutation_p.P276L	NM_006470	NP_006461	O95361	TRI16_HUMAN	tripartite motif-containing 16	406	B30.2/SPRY.				histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		GGGGAGGTCCGGGTAGGGATG	0.597													11	26					0	0	1	0	0		A	15532407	A	A	15532407	3	1	103	1	0	0	0	0	1	0	0	0	16517	1116	39	1	481	1	TRIM16	17	15532407	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2876366	15532407	65662803	1591	63540											
TRIM16	10626	broad.mit.edu	37	chr17	15554526	15554526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagacagtgggctgtggtggGcagggcagtatcgccagttg	7	8	18	8	1	0	1	0	0	0	1	1	1	0	1	1	4	0	5	1	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:15554526G>A	uc002gox.2	-	4	955	c.398C>T	c.(397-399)GCC>GTC	p.A133V	TRIM16_uc002gor.1_Missense_Mutation_p.A133V|TRIM16_uc002goy.2_Intron	NM_006470	NP_006461	O95361	TRI16_HUMAN	tripartite motif-containing 16	133	B box-type 2.				histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		GCTGTGGTGGGCAGGGCAGTA	0.577													26	36					0	0	1	0	0		A	15554526	A	A	15554526	3	1	103	1	0	0	0	0	1	0	0	0	16517	1203	42	2	1320	2	TRIM16	17	15554526	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	22119	15554526	65640684	1592	63541											
MPRIP	23164	broad.mit.edu	37	chr17	17046886	17046886	+	Frame_Shift_Del	DEL	C	-	-																															acaggacttcaccaatgaagCccccccagctcctctcccag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:17046886delC	uc002gqu.1	+	9	1108	c.1052delC	c.(1051-1053)GCCfs	p.A351fs	MPRIP_uc002gqv.1_Frame_Shift_Del_p.A351fs|MPRIP_uc002gqw.1_Intron	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	351	Interaction with F-actin (By similarity).					cytoplasm|cytoskeleton	actin binding				0						ACCAATGAAGCCCCCCCAGCT	0.652													13	26	---	---	---	---						.	-	17046886	-	-	17046886	7	5	103	1	0	1	0	1	0	0	0	0	9761	739	26	0	1086	0	MPRIP	17	17046886	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	1492360	17046886	64148324	1593	63542											
RAI1	10743	broad.mit.edu	37	chr17	17698048	17698048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtgagcgggactgtccgCggctgctgctcagcgccctg	3	7	17	14	5	1	1	1	1	0	0	2	2	2	2	2	3	4	3	2	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:17698048C>T	uc002grm.2	+	3	2255	c.1786C>T	c.(1786-1788)CGG>TGG	p.R596W	RAI1_uc002grn.1_Missense_Mutation_p.R596W	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	596						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		GGACTGTCCGCGGCTGCTGCT	0.637													20	54					0	0	1	0	0		T	17698048	T	T	17698048	3	4	103	1	0	0	0	0	1	0	0	0	13032	759	27	1	1788	1	RAI1	17	17698048	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	651162	17698048	63497162	1594	63543											
MYO15A	51168	broad.mit.edu	37	chr17	18023050	18023050	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctacggctacgacgattaCgaacccccatatgcgccccc	9	6	9	17	5	0	0	0	0	0	0	0	3	0	0	4	2	5	2	4	2	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:18023050C>T	uc010vxh.1	+	2	1274	c.936C>T	c.(934-936)TAC>TAT	p.Y312Y		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	312	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					ACGACGATTACGAACCCCCAT	0.612													31	57					0	0	1	0	0		T	18023050	T	T	18023050	2	4	103	1	0	0	0	0	0	0	0	1	10081	547	19	1		1	MYO15A	17	18023050	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	325002	18023050	63172160	1595	63544											
TOP3A	7156	broad.mit.edu	37	chr17	18180995	18180995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccctgcctcacctggagCggtgttctcatcgacccact	5	10	8	18	2	2	0	2	0	1	0	5	2	3	1	5	2	2	1	5	2	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:18180995C>T	uc002gsx.1	-	18	3050	c.2821G>A	c.(2821-2823)GCT>ACT	p.A941T	TOP3A_uc010cpz.1_Missense_Mutation_p.A393T|TOP3A_uc010vxr.1_Missense_Mutation_p.A471T|TOP3A_uc002gsw.1_Missense_Mutation_p.A393T|TOP3A_uc010vxs.1_Missense_Mutation_p.A839T	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	941					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						TCACCTGGAGCGGTGTTCTCA	0.572													35	68					0	0	1	0	0		T	18180995	T	T	18180995	3	4	103	1	0	0	0	0	1	0	0	0	16393	768	27	1	192	1	TOP3A	17	18180995	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	157945	18180995	63014215	1596	63545											
MAPK7	5598	broad.mit.edu	37	chr17	19284209	19284209	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgcgctggtaccgtgcGcccgagctcatgctctcttt	4	10	11	16	5	2	0	1	0	1	0	3	1	2	0	3	1	4	4	3	1	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:19284209G>A	uc002gvn.2	+	4	1073	c.687G>A	c.(685-687)GCG>GCA	p.A229A	B9D1_uc010cqm.1_5'Flank|B9D1_uc002gvl.3_5'Flank|MAPK7_uc002gvo.2_Silent_p.A90A|MAPK7_uc002gvq.2_Silent_p.A229A|MAPK7_uc002gvp.2_Silent_p.A229A	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	229	Necessary for oligomerization (By similarity).|Protein kinase.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					GGTACCGTGCGCCCGAGCTCA	0.567													16	19					0	0	1	0	0		A	19284209	A	A	19284209	2	1	103	1	0	0	0	0	0	0	0	1	9300	1074	38	1		1	MAPK7	17	19284209	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1103214	19284209	61911001	1597	63546											
RNF112	7732	broad.mit.edu	37	chr17	19315988	19315988	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctcccgggctgtgagccGccctgctgtcctgagtgccg	2	9	14	16	4	1	2	0	2	1	0	3	2	2	2	5	1	3	2	5	1	0	0	rs149061657	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:19315988G>A	uc010vyw.1	+	3	472	c.273G>A	c.(271-273)CCG>CCA	p.P91P	RNF112_uc010vyu.1_Silent_p.P91P|RNF112_uc010vyv.1_Silent_p.P91P|RNF112_uc010vyx.1_Silent_p.P43P	NM_007148	NP_009079	Q7Z5V9	Q7Z5V9_HUMAN	ring finger protein 112	91							GTP binding|GTPase activity|zinc ion binding			ovary(2)	2						GCTGTGAGCCGCCCTGCTGTC	0.657													14	20					0	0	1	0	0		A	19315988	A	A	19315988	2	1	103	1	0	0	0	0	0	0	0	1	13451	1074	38	1		1	RNF112	17	19315988	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	31779	19315988	61879222	1598	63547											
ALDH3A2	224	broad.mit.edu	37	chr17	19566732	19566732	+	Frame_Shift_Del	DEL	A	-	-																															ttcttccaatagtgcctgtgAaaaatgtagatgaggccata																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:19566732delA	uc002gwb.1	+	7	1248	c.1027delA	c.(1027-1029)AAAfs	p.K343fs	ALDH3A2_uc002gwa.1_Frame_Shift_Del_p.K343fs|ALDH3A2_uc010cqr.1_Frame_Shift_Del_p.K150fs|ALDH3A2_uc002gwc.1_Frame_Shift_Del_p.K343fs|ALDH3A2_uc002gwd.1_Frame_Shift_Del_p.K150fs	NM_000382	NP_000373	P51648	AL3A2_HUMAN	aldehyde dehydrogenase 3A2 isoform 2	343	Cytoplasmic.				cellular aldehyde metabolic process|central nervous system development|epidermis development|lipid metabolic process|peripheral nervous system development	endoplasmic reticulum membrane|integral to membrane	3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(2)	2	all_cancers(12;1.39e-05)|all_epithelial(12;0.00158)|Breast(13;0.245)				NADH(DB00157)	AGTGCCTGTGAAAAATGTAGA	0.363													41	57	---	---	---	---						.	-	19566732	-	-	19566732	7	5	103	1	0	1	0	1	0	0	0	0	498	247	9	0	1053	0	ALDH3A2	17	19566732	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	250744	19566732	61628478	1599	63548											
MAP2K3	5606	broad.mit.edu	37	chr17	21208385	21208385	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaggatcaacccagagcTgaaccagaagggctacaatg	15	5	12	9	0	1	4	1	2	0	3	1	6	1	5	2	2	4	2	2	2	5	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:21208385T>C	uc002gys.2	+	9	984	c.719T>C	c.(718-720)CTG>CCG	p.L240P	MAP2K3_uc002gyt.2_Missense_Mutation_p.L211P|MAP2K3_uc002gyu.2_Missense_Mutation_p.L211P	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	240	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		AACCCAGAGCTGAACCAGAAG	0.627													18	126					0	0	1	0	0		C	21208385	C	C	21208385	3	2	103	1	0	0	0	0	1	0	0	0	9256	1580	55	3	753	3	MAP2K3	17	21208385	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1641653	21208385	59986825	1600	63549											
WSB1	26118	broad.mit.edu	37	chr17	25637145	25637145	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcaaatgaccggtgggtaCgatctgtatcttttagccat	10	12	11	8	2	2	1	0	1	2	0	2	3	2	1	2	2	3	3	2	2	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:25637145C>T	uc002gzd.1	+	7	1259	c.943C>T	c.(943-945)CGA>TGA	p.R315*	WSB1_uc002gze.1_Nonsense_Mutation_p.R169*|WSB1_uc002gzf.1_RNA	NM_015626	NP_056441	Q9Y6I7	WSB1_HUMAN	WD repeat and SOCS box-containing 1 isoform 1	315	WD 6.				intracellular signal transduction	intracellular	protein binding				0	all_cancers(1;2e-13)|all_epithelial(1;4.8e-15)|Lung NSC(42;0.00152)		BRCA - Breast invasive adenocarcinoma(3;0.0152)	UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		CCGGTGGGTACGATCTGTATC	0.418													36	52					0	0	1	0	0		T	25637145	T	T	25637145	4	4	103	1	0	0	0	0	0	1	0	0	17430	528	19	1	969	1	WSB1	17	25637145	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4428760	25637145	55558065	1601	63550											
RAB34	83871	broad.mit.edu	37	chr17	27042713	27042713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgaacctctcctgcccagCggtatcccaactggaaggaa	10	9	9	13	1	1	1	0	1	1	0	3	3	2	3	4	3	4	1	4	3	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:27042713C>T	uc002hce.2	-	5	949	c.325G>A	c.(325-327)GCT>ACT	p.A109T	RAB34_uc002hcg.2_Missense_Mutation_p.A109T|RAB34_uc002hcf.2_Missense_Mutation_p.A110T|RAB34_uc010was.1_Missense_Mutation_p.A166T|RAB34_uc010wat.1_Missense_Mutation_p.A166T|RAB34_uc002hch.2_Missense_Mutation_p.A109T|RAB34_uc010wau.1_Missense_Mutation_p.A87T|RAB34_uc010wav.1_Missense_Mutation_p.A167T	NM_031934	NP_114140	Q9BZG1	RAB34_HUMAN	Ras-related protein RAB34 isoform 1	109	GTP (By similarity).				protein transport|small GTPase mediated signal transduction	Golgi apparatus	GTP binding				0	Lung NSC(42;0.00431)					TCCTGCCCAGCGGTATCCCAA	0.547													26	75					0	0	1	0	0		T	27042713	T	T	27042713	3	4	103	1	0	0	0	0	1	0	0	0	12949	768	27	1	542	1	RAB34	17	27042713	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1405568	27042713	54152497	1602	63551											
FLOT2	2319	broad.mit.edu	37	chr17	27215973	27215973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtgcttacctctgagtgtCggagatacaccaccaggccc	9	8	11	13	1	1	2	0	1	1	1	2	3	1	2	4	3	3	1	4	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:27215973C>T	uc002hdc.2	-	2	244	c.121G>A	c.(121-123)GAC>AAC	p.D41N		NM_004475	NP_004466	Q14254	FLOT2_HUMAN	flotillin 2	41					cell adhesion|epidermis development	cell surface|endocytic vesicle|endosome|membrane fraction					0	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;3.26e-06)|all cancers(11;1.76e-05)|BRCA - Breast invasive adenocarcinoma(11;0.00015)|OV - Ovarian serous cystadenocarcinoma(11;0.0602)			CTCTGAGTGTCGGAGATACAC	0.592													11	20					0	0	1	0	0		T	27215973	T	T	27215973	3	4	103	1	0	0	0	0	1	0	0	0	5951	884	31	1	1205	1	FLOT2	17	27215973	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	173260	27215973	53979237	1603	63552											
PHF12	57649	broad.mit.edu	37	chr17	27248714	27248714	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagaaaatacctgttacaCgtgaagcagactttgacggg	15	8	11	7	2	0	4	0	2	0	2	0	5	0	4	1	1	3	2	1	1	6	3	rs149472520	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:27248714C>T	uc002hdg.1	-	5	1358	c.828G>A	c.(826-828)ACG>ACA	p.T276T	PHF12_uc010wbb.1_Silent_p.T258T|PHF12_uc002hdi.1_Silent_p.T272T|PHF12_uc002hdj.1_Silent_p.T276T|PHF12_uc010crw.1_Translation_Start_Site|PHF12_uc002hdh.1_Silent_p.T59T	NM_001033561	NP_001028733	Q96QT6	PHF12_HUMAN	PHD finger protein 12 isoform 1	276	PHD-type 2; atypical.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	protein binding|zinc ion binding			ovary(1)	1	all_cancers(5;1.95e-14)|all_epithelial(6;5e-18)|Lung NSC(42;0.01)		Epithelial(11;1.64e-05)|all cancers(11;7.47e-05)|BRCA - Breast invasive adenocarcinoma(11;9.79e-05)			ACCTGTTACACGTGAAGCAGA	0.398													38	57					0	0	1	0	0		T	27248714	T	T	27248714	2	4	103	1	0	0	0	0	0	0	0	1	11842	523	19	1		1	PHF12	17	27248714	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	32741	27248714	53946496	1604	63553											
SEZ6	124925	broad.mit.edu	37	chr17	27285070	27285070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagcactggtaagtgaccaCggtgccgtgcactagctcag	9	8	13	11	2	1	1	1	1	0	0	1	1	1	1	2	2	4	5	2	2	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:27285070C>T	uc002hdp.2	-	11	2391	c.2197G>A	c.(2197-2199)GTG>ATG	p.V733M	SEZ6_uc010crx.1_5'Flank|SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Missense_Mutation_p.V733M|SEZ6_uc002hdq.1_Missense_Mutation_p.V608M	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	733	Extracellular (Potential).|Sushi 3.					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			TAAGTGACCACGGTGCCGTGC	0.607													25	48					0	0	1	0	0		T	27285070	T	T	27285070	3	4	103	1	0	0	0	0	1	0	0	0	14167	536	19	1	828	1	SEZ6	17	27285070	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	36356	27285070	53910140	1605	63554											
SEZ6	124925	broad.mit.edu	37	chr17	27308688	27308688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcataggggactctgactccGgactccagggtccctccttg	6	9	12	14	1	1	1	0	1	1	0	5	3	5	3	4	4	0	1	4	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:27308688G>A	uc002hdp.2	-	2	619	c.425C>T	c.(424-426)CCG>CTG	p.P142L	SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Missense_Mutation_p.P142L|SEZ6_uc002hdq.1_Missense_Mutation_p.P17L|SEZ6_uc010crz.1_Missense_Mutation_p.P142L	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	142	Pro-rich.|Extracellular (Potential).					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			CTCTGACTCCGGACTCCAGGG	0.647													5	17					0	0	1	0	0		A	27308688	A	A	27308688	3	1	103	1	0	0	0	0	1	0	0	0	14167	1116	39	1	2636	1	SEZ6	17	27308688	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	23618	27308688	53886522	1606	63555											
MYO18A	399687	broad.mit.edu	37	chr17	27493048	27493048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgggctgcaccttgagcCgcacgctgtcccctgactgc	6	8	12	15	2	0	2	0	2	0	0	1	3	1	2	4	1	3	4	4	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:27493048C>T	uc002hdt.1	-	2	1069	c.911G>A	c.(910-912)CGG>CAG	p.R304Q	MYO18A_uc010csa.1_Missense_Mutation_p.R304Q|MYO18A_uc002hdu.1_Missense_Mutation_p.R304Q	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	304	PDZ.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CACCTTGAGCCGCACGCTGTC	0.612													58	77					0	0	1	0	0		T	27493048	T	T	27493048	3	4	103	1	0	0	0	0	1	0	0	0	10083	652	23	1	5417	1	MYO18A	17	27493048	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	184360	27493048	53702162	1607	63556											
MYO18A	399687	broad.mit.edu	37	chr17	27493332	27493332	+	Frame_Shift_Del	DEL	G	-	-																															ggtgggggcaggggcaccacGgggggcaggcgcaggtcgac																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:27493332delG	uc002hdt.1	-	2	785	c.627delC	c.(625-627)CCCfs	p.P209fs	MYO18A_uc010csa.1_Frame_Shift_Del_p.P209fs|MYO18A_uc002hdu.1_Frame_Shift_Del_p.P209fs	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	209					anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			GGGGCACCACGGGGGGCAGGC	0.662													42	56	---	---	---	---						.	-	27493332	-	-	27493332	7	5	103	1	0	1	0	1	0	0	0	0	10083	1103	39	0	5701	0	MYO18A	17	27493332	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	284	27493332	53701878	1608	63557											
TAOK1	57551	broad.mit.edu	37	chr17	27869613	27869613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttggctttgcagaatgagcGcacagaacgaatacgaagcc	13	7	12	9	3	0	3	0	1	0	2	0	5	0	3	1	1	5	4	1	1	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:27869613G>A	uc002hdz.1	+	20	2773	c.2579G>A	c.(2578-2580)CGC>CAC	p.R860H	TAOK1_uc010wbe.1_Missense_Mutation_p.R712H|TAOK1_uc010wbf.1_Missense_Mutation_p.R860H	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	860	Potential.			R -> C (in Ref. 1; AAG38502).	mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			CAGAATGAGCGCACAGAACGA	0.378													45	65					0	0	1	0	0		A	27869613	A	A	27869613	3	1	103	1	0	0	0	0	1	0	0	0	15572	1087	38	1	2653	1	TAOK1	17	27869613	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	376281	27869613	53325597	1609	63558											
SSH2	85464	broad.mit.edu	37	chr17	27958582	27958582	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaattaaacttaggtctgcGctacttagctgggagtcctt	9	14	9	9	1	1	0	0	0	1	0	2	1	2	1	1	2	4	2	1	2	6	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:27958582G>A	uc002heo.1	-	15	3549	c.3549C>T	c.(3547-3549)AGC>AGT	p.S1183S	SSH2_uc010wbh.1_Silent_p.S1210S	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1183					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TTAGGTCTGCGCTACTTAGCT	0.507													37	71					0	0	1	0	0		A	27958582	A	A	27958582	2	1	103	1	0	0	0	0	0	0	0	1	15210	1078	38	1		1	SSH2	17	27958582	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	88969	27958582	53236628	1610	63559											
SLC6A4	6532	broad.mit.edu	37	chr17	28525491	28525491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgttacacagcattcaagcGgatgtccccacaaggaattt	12	10	9	10	1	1	0	1	0	0	0	2	2	2	2	2	2	3	2	2	2	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:28525491G>A	uc002hey.3	-	15	2420	c.1876C>T	c.(1876-1878)CGC>TGC	p.R626C	SLC6A4_uc010csg.2_RNA	NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	626	Required for serotonin uptake activity.|Cytoplasmic (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	GCATTCAAGCGGATGTCCCCA	0.438													25	41					0	0	1	0	0		A	28525491	A	A	28525491	3	1	103	1	0	0	0	0	1	0	0	0	14711	1116	39	1	20	1	SLC6A4	17	28525491	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	566909	28525491	52669719	1611	63560											
LRRC37B	114659	broad.mit.edu	37	chr17	30348267	30348267	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtgtgggtcaaggacccGctccagctgacctctaaccc	7	8	11	15	1	2	1	1	1	1	0	3	2	3	2	4	3	2	2	4	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:30348267G>A	uc002hgu.2	+	1	113	c.102G>A	c.(100-102)CCG>CCA	p.P34P	LRRC37B_uc010wbx.1_Intron|LRRC37B_uc010csu.2_Silent_p.P34P	NM_052888	NP_443120	Q96QE4	LR37B_HUMAN	leucine rich repeat containing 37B precursor	34	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)				TCAAGGACCCGCTCCAGCTGA	0.617													18	97					0	0	1	0	0		A	30348267	A	A	30348267	2	1	103	1	0	0	0	0	0	0	0	1	9012	1074	38	1		1	LRRC37B	17	30348267	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1822776	30348267	50846943	1612	63561											
RHBDL3	162494	broad.mit.edu	37	chr17	30621430	30621430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcgagcacaggtttggCgctacctgacatacatcttc	9	10	10	12	2	1	1	0	1	1	0	2	2	1	1	1	2	5	4	1	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:30621430C>T	uc002hhe.1	+	5	651	c.637C>T	c.(637-639)CGC>TGC	p.R213C	RHBDL3_uc010csw.1_Missense_Mutation_p.R205C|RHBDL3_uc010csx.1_Missense_Mutation_p.R213C|RHBDL3_uc010csy.1_Missense_Mutation_p.R115C|RHBDL3_uc002hhf.1_Missense_Mutation_p.R115C	NM_138328	NP_612201	P58872	RHBL3_HUMAN	rhomboid protease 3	213					proteolysis	integral to membrane	calcium ion binding|serine-type endopeptidase activity			ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)				ACAGGTTTGGCGCTACCTGAC	0.473													5	64					0	0	1	0	0		T	30621430	T	T	30621430	3	4	103	1	0	0	0	0	1	0	0	0	13348	768	27	1	655	1	RHBDL3	17	30621430	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	273163	30621430	50573780	1613	63562											
PSMD11	5717	broad.mit.edu	37	chr17	30804557	30804557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagaagcattaaaatgcGtggctcaggctagcaagaac	16	6	11	8	1	1	3	1	0	0	3	1	3	1	3	0	2	4	4	0	2	6	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:30804557G>A	uc010cta.1	+	9	908	c.868G>A	c.(868-870)GTG>ATG	p.V290M	PSMD11_uc010wbz.1_Missense_Mutation_p.V290M|PSMD11_uc002hhm.2_Missense_Mutation_p.V290M	NM_002815	NP_002806	O00231	PSD11_HUMAN	proteasome 26S non-ATPase subunit 11	290	PCI.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding			ovary(1)	1		Breast(31;0.159)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.109)			ATTAAAATGCGTGGCTCAGGC	0.408													4	74					0	0	1	0	0		A	30804557	A	A	30804557	3	1	103	1	0	0	0	0	1	0	0	0	12716	1145	40	1	902	1	PSMD11	17	30804557	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	183127	30804557	50390653	1614	63563											
ZNF830	91603	broad.mit.edu	37	chr17	33289371	33289371	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagatgcaagagtacgaaaGgttgatgctccaaaagatca	16	8	11	6	1	1	4	1	1	0	3	2	5	2	4	1	1	3	5	1	1	6	3	rs138078734	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:33289371G>T	uc002hih.3	+	1	823	c.786G>T	c.(784-786)AAG>AAT	p.K262N	CCT6B_uc002hig.2_5'Flank|CCT6B_uc010ctg.2_5'Flank|CCT6B_uc010wcc.1_5'Flank	NM_052857	NP_443089	Q96NB3	ZN830_HUMAN	coiled-coil domain containing 16	262					cell division|mitosis	cytoplasm|nucleus	metal ion binding			breast(1)	1		Ovarian(249;0.17)				GAGTACGAAAGGTTGATGCTC	0.463													25	36					3.01185e-09	3.1308e-09	1	1	0		T	33289371	T	T	33289371	3	4	103	1	0	0	0	0	1	0	0	0	18209	991	35	5	788	5	ZNF830	17	33289371	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2484814	33289371	47905839	1615	63564											
AMAC1	146861	broad.mit.edu	37	chr17	33521221	33521221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagcaggccactggtggCatcagagggctggcagcgct	8	5	15	13	1	1	1	1	0	0	1	1	1	1	1	2	5	2	5	2	5	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:33521221C>T	uc002hjd.2	-	1	192	c.106G>A	c.(106-108)GCC>ACC	p.A36T		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	36						integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		CCACTGGTGGCATCAGAGGGC	0.667													36	35					0	0	1	0	0		T	33521221	T	T	33521221	3	4	103	1	0	0	0	0	1	0	0	0	559	710	25	2	914	2	AMAC1	17	33521221	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	231850	33521221	47673989	1616	63565											
SLFN12	55106	broad.mit.edu	37	chr17	33749996	33749996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagagtgactcttcccaCatctagaaccaactcggcat	12	9	6	14	1	2	3	0	1	2	2	5	3	4	3	3	1	2	1	3	1	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:33749996C>T	uc002hji.3	-	2	429	c.52G>A	c.(52-54)GTG>ATG	p.V18M	SLFN12_uc002hjj.3_Missense_Mutation_p.V18M|SLFN12_uc010cts.2_Missense_Mutation_p.V18M	NM_018042	NP_060512	Q8IYM2	SLN12_HUMAN	schlafen family member 12	18							ATP binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		ACTCTTCCCACATCTAGAACC	0.393													61	102					0	0	1	0	0		T	33749996	T	T	33749996	3	4	103	1	0	0	0	0	1	0	0	0	14759	478	17	4	1696	4	SLFN12	17	33749996	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	228775	33749996	47445214	1617	63566											
HNF1B	6928	broad.mit.edu	37	chr17	36059174	36059174	+	Frame_Shift_Del	DEL	G	-	-																															ccgggaggtgtgggaatactGggggggttcctgcttgtgtg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:36059174delG	uc002hok.3	-	8	1782	c.1561delC	c.(1561-1563)CAGfs	p.Q521fs	HNF1B_uc010wdi.1_Frame_Shift_Del_p.Q495fs	NM_000458	NP_000449	P35680	HNF1B_HUMAN	hepatocyte nuclear factor 1-beta isoform 1	521					endocrine pancreas development|genitalia development|kidney development|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric nephron tubule development|regulation of pronephros size	nucleus	DNA binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			TGGGAATACTGGGGGGGTTCC	0.517									Hereditary_Prostate_Cancer				23	37	---	---	---	---						.	-	36059174	-	-	36059174	7	5	103	1	0	1	0	1	0	0	0	0	7268	1357	47	0	120	0	HNF1B	17	36059174	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	2309178	36059174	45136036	1618	63567											
CASC3	22794	broad.mit.edu	37	chr17	38319960	38319960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgggcagcatggtggcCggtctggtgagactgttaag	6	10	18	7	1	1	1	0	1	1	1	1	2	1	1	1	6	1	3	1	6	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:38319960C>T	uc010cwt.1	+	7	1307	c.1012C>T	c.(1012-1014)CGG>TGG	p.R338W	CASC3_uc010cws.1_Missense_Mutation_p.R338W|CASC3_uc002hue.2_Missense_Mutation_p.R338W	NM_007359	NP_031385	O15234	CASC3_HUMAN	metastatic lymph node 51	338					mRNA processing|mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|response to stress|RNA splicing	exon-exon junction complex|nuclear speck|perinuclear region of cytoplasm	identical protein binding|RNA binding|ubiquitin protein ligase binding			ovary(1)	1						GCATGGTGGCCGGTCTGGTGA	0.557													68	145					0	0	1	0	0		T	38319960	T	T	38319960	3	4	103	1	0	0	0	0	1	0	0	0	2664	643	23	1	1038	1	CASC3	17	38319960	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2260786	38319960	42875250	1619	63568											
KRT27	342574	broad.mit.edu	37	chr17	38938526	38938526	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggccgtgctcattccCtgtgaaggcagcacaggaag	10	6	15	10	1	1	1	1	1	0	0	2	4	2	3	2	4	2	3	2	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:38938526C>A	uc002hvg.2	-	1	261	c.220G>T	c.(220-222)GGG>TGG	p.G74W		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	74	Head.|Gly-rich.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				TGCTCATTCCCTGTGAAGGCA	0.582													35	48					2.42023e-17	2.57982e-17	1	1	0		A	38938526	A	A	38938526	3	1	103	1	0	0	0	0	1	0	0	0	8480	681	24	5	1191	5	KRT27	17	38938526	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	618566	38938526	42256684	1620	63569											
KRT39	390792	broad.mit.edu	37	chr17	39116561	39116561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagctctccagaaggctgcGgtatgtggtaatctcacatt	9	11	11	10	2	2	1	1	0	2	1	4	2	2	1	1	3	2	4	1	3	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:39116561G>A	uc002hvo.1	-	6	1225	c.1189C>T	c.(1189-1191)CGC>TGC	p.R397C	KRT39_uc010wfm.1_Missense_Mutation_p.R130C	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	397	Coil 2.|Rod.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				AGAAGGCTGCGGTATGTGGTA	0.478													12	115					0	0	1	0	0		A	39116561	A	A	39116561	3	1	103	1	0	0	0	0	1	0	0	0	8492	1116	39	1	294	1	KRT39	17	39116561	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	178035	39116561	42078649	1621	63570											
KRT31	3881	broad.mit.edu	37	chr17	39551220	39551220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtcactgcggatctccGccagctgggactccacgttg	6	8	12	15	3	2	0	1	0	1	0	4	2	3	2	4	3	2	2	4	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:39551220G>A	uc002hwn.2	-	6	1030	c.977C>T	c.(976-978)GCG>GTG	p.A326V	KRT31_uc010cxn.2_Missense_Mutation_p.A326V	NM_002277	NP_002268	Q15323	K1H1_HUMAN	keratin 31	326	Coil 2.|Rod.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000496)				GCGGATCTCCGCCAGCTGGGA	0.617													34	56					0	0	1	0	0		A	39551220	A	A	39551220	3	1	103	1	0	0	0	0	1	0	0	0	8483	1087	38	1	281	1	KRT31	17	39551220	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	434659	39551220	41643990	1622	63571											
KRT17	3872	broad.mit.edu	37	chr17	39777997	39777997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccacctggcctcgcagggCgttcatctcctatggaaaaa	10	8	9	14	2	2	0	1	0	1	0	4	1	2	1	4	3	0	2	4	3	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:39777997C>T	uc002hxh.2	-	4	803	c.682G>A	c.(682-684)GCC>ACC	p.A228T	JUP_uc010wfs.1_Intron	NM_000422	NP_000413	Q04695	K1C17_HUMAN	keratin 17	228	Coil 1B.|Rod.				epidermis development	cytoplasm|intermediate filament	protein binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2		Breast(137;0.000307)				CCTCGCAGGGCGTTCATCTCC	0.597									Steatocystoma_Multiplex				15	31					0	0	1	0	0		T	39777997	T	T	39777997	3	4	103	1	0	0	0	0	1	0	0	0	8470	768	27	1	636	1	KRT17	17	39777997	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	226777	39777997	41417213	1623	63572											
STAT5A	6776	broad.mit.edu	37	chr17	40453375	40453375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtacgcctgctggtgggcGggaagctgaacgtgcacatg	7	7	16	11	4	0	1	0	1	0	0	0	2	0	2	2	3	5	4	2	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:40453375G>A	uc002hzj.1	+	10	1714	c.1072G>A	c.(1072-1074)GGG>AGG	p.G358R	STAT5A_uc010cya.1_Missense_Mutation_p.G358R|STAT5A_uc010cyb.1_Missense_Mutation_p.G358R|STAT5A_uc010cyc.1_Missense_Mutation_p.G328R	NM_003152	NP_003143	P42229	STA5A_HUMAN	signal transducer and activator of transcription	358					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|oxaloacetate metabolic process|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_cancers(22;1.56e-06)|all_epithelial(22;3.17e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)		GCTGGTGGGCGGGAAGCTGAA	0.557													40	76					0	0	1	0	0		A	40453375	A	A	40453375	3	1	103	1	0	0	0	0	1	0	0	0	15293	1116	39	1	1102	1	STAT5A	17	40453375	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	675378	40453375	40741835	1624	63573											
HSD17B1	3292	broad.mit.edu	37	chr17	40705488	40705488	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctgggcctgctggggccGctggaggcgctgggggagga	3	5	23	10	2	0	0	0	0	0	0	0	3	0	3	3	9	1	3	3	9	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:40705488G>A	uc002hzw.2	+	3	1265	c.297G>A	c.(295-297)CCG>CCA	p.P99P	HSD17B1_uc002hzx.2_Silent_p.P99P|HSD17B1_uc010wgm.1_RNA|uc002hzy.2_Silent_p.S31S|HSD17B1_uc010cyi.2_Silent_p.P130P	NM_000413	NP_000404	P14061	DHB1_HUMAN	hydroxysteroid (17-beta) dehydrogenase 1	99					estrogen biosynthetic process	cytosol	binding|estradiol 17-beta-dehydrogenase activity				0		all_cancers(22;5.59e-08)|all_epithelial(22;7e-07)|Ovarian(249;0.0261)		BRCA - Breast invasive adenocarcinoma(366;0.129)	NADH(DB00157)	TGCTGGGGCCGCTGGAGGCGC	0.672													24	29					0	0	1	0	0		A	40705488	A	A	40705488	2	1	103	1	0	0	0	0	0	0	0	1	7394	1074	38	1		1	HSD17B1	17	40705488	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	252113	40705488	40489722	1625	63574											
TUBG1	7283	broad.mit.edu	37	chr17	40765935	40765935	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacatgaacaatgacctcatCggcctcatcgcctcgctcat	10	10	6	15	3	3	2	3	2	0	0	6	2	3	2	3	1	2	1	3	1	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:40765935C>T	uc002ian.2	+	8	1160	c.762C>T	c.(760-762)ATC>ATT	p.I254I		NM_001070	NP_001061	P23258	TBG1_HUMAN	tubulin, gamma 1	254					G2/M transition of mitotic cell cycle|meiotic spindle organization|protein polymerization	condensed nuclear chromosome|cytosol|gamma-tubulin complex|polar microtubule	GTP binding|GTPase activity|protein binding|structural constituent of cytoskeleton			ovary(1)	1		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.129)		ATGACCTCATCGGCCTCATCG	0.592													38	128					0	0	1	0	0		T	40765935	T	T	40765935	2	4	103	1	0	0	0	0	0	0	0	1	16790	874	31	1		1	TUBG1	17	40765935	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	60447	40765935	40429275	1626	63575											
TUBG2	27175	broad.mit.edu	37	chr17	40814996	40814996	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgtatacacacagggcttCgtgctgtgtcactccatcgc	7	11	9	14	2	1	0	1	0	0	0	4	0	2	0	2	1	2	3	2	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:40814996C>T	uc010wgr.1	+	5	661	c.405C>T	c.(403-405)TTC>TTT	p.F135F	TUBG2_uc002iaq.2_5'UTR|TUBG2_uc002iar.2_Intron|TUBG2_uc002ias.2_5'UTR|TUBG2_uc002iap.2_Intron	NM_016437	NP_057521	Q9NRH3	TBG2_HUMAN	tubulin, gamma 2	135					G2/M transition of mitotic cell cycle|microtubule-based process|protein polymerization	cytosol	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.141)		CACAGGGCTTCGTGCTGTGTC	0.348													60	69					0	0	1	0	0		T	40814996	T	T	40814996	2	4	103	1	0	0	0	0	0	0	0	1	16791	883	31	1		1	TUBG2	17	40814996	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	49061	40814996	40380214	1627	63576											
CNTNAP1	8506	broad.mit.edu	37	chr17	40844682	40844682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaccggccctgggttctgcGgcctatgccactgcagacct	5	9	11	16	2	2	1	1	0	1	1	2	1	2	1	5	3	3	2	5	3	1	2	rs144243880		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:40844682G>A	uc002iay.2	+	17	2912	c.2696G>A	c.(2695-2697)CGG>CAG	p.R899Q	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	899	Laminin G-like 3.|Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		TGGGTTCTGCGGCCTATGCCA	0.577													30	58					0	0	1	0	0		A	40844682	A	A	40844682	3	1	103	1	0	0	0	0	1	0	0	0	3649	1116	39	1	2762	1	CNTNAP1	17	40844682	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	29686	40844682	40350528	1628	63577											
WNK4	65266	broad.mit.edu	37	chr17	40939869	40939870	+	Frame_Shift_Ins	INS	-	G	G																															accctgcccttcagccccctINSgggggggtgccatccagcct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:40939869_40939870insG	uc002ibj.2	+	8	1836_1837	c.1815_1816insG	c.(1813-1818)CCTGGGfs	p.P605fs	WNK4_uc010wgx.1_Frame_Shift_Ins_p.P269fs|WNK4_uc002ibk.1_Frame_Shift_Ins_p.P377fs|WNK4_uc010wgy.1_Intron	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	605_606					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		TTCAGCCCCCTGGGGGGGTGCC	0.634													39	41	---	---	---	---						.	G	40939870	G	G	40939869	7	5	103	1	0	1	1	0	0	0	0	0	17406	1567	55	0	1845	0	WNK4	17	40939869	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	95187	40939869	40255341	1629	63578											
AOC3	8639	broad.mit.edu	37	chr17	41004138	41004138	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttgaccctgcccgctggActatccagaaggtgttctat	7	11	9	14	1	1	2	0	1	1	1	2	3	2	3	4	2	1	2	4	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:41004138A>G	uc002ibv.2	+	1	938	c.778A>G	c.(778-780)ACT>GCT	p.T260A		NM_003734	NP_003725	Q16853	AOC3_HUMAN	amine oxidase, copper containing 3 precursor	260	Extracellular (Potential).				amine metabolic process|cell adhesion|inflammatory response	cell surface|integral to membrane|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|protein homodimerization activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)	Hydralazine(DB01275)|Phenelzine(DB00780)	TGCCCGCTGGACTATCCAGAA	0.597													19	37					0	0	1	0	0		G	41004138	G	G	41004138	3	3	103	1	0	0	0	0	1	0	0	0	728	275	10	3	780	3	AOC3	17	41004138	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	64269	41004138	40191072	1630	63579											
AOC3	8639	broad.mit.edu	37	chr17	41006671	41006671	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtggggtcacccccggggcTaccgcatccagatgctcagc	7	6	13	15	2	2	1	2	0	0	1	3	1	3	1	4	4	3	3	4	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:41006671T>A	uc002ibv.2	+	2	1967	c.1807T>A	c.(1807-1809)TAC>AAC	p.Y603N		NM_003734	NP_003725	Q16853	AOC3_HUMAN	amine oxidase, copper containing 3 precursor	603	Extracellular (Potential).				amine metabolic process|cell adhesion|inflammatory response	cell surface|integral to membrane|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|protein homodimerization activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)	Hydralazine(DB01275)|Phenelzine(DB00780)	CCCCCGGGGCTACCGCATCCA	0.647													25	31					0	0	1	0	0		A	41006671	A	A	41006671	3	1	103	1	0	0	0	0	1	0	0	0	728	1522	53	5	1813	5	AOC3	17	41006671	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2533	41006671	40188539	1631	63580											
AARSD1	80755	broad.mit.edu	37	chr17	41108509	41108509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cattgacgctctgctcaatgGcagctacttgctctgcagtc	7	12	9	13	1	3	1	1	1	2	0	4	1	3	1	0	1	5	6	0	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:41108509G>A	uc002icc.2	-	5	461	c.458C>T	c.(457-459)GCC>GTC	p.A153V	AARSD1_uc002icd.2_Missense_Mutation_p.A266V|AARSD1_uc002ice.2_Missense_Mutation_p.A236V|AARSD1_uc002icf.2_Missense_Mutation_p.A327V|AARSD1_uc010whg.1_Missense_Mutation_p.A327V|AARSD1_uc010cyu.1_Missense_Mutation_p.A153V	NM_025267	NP_079543	Q9BTE6	AASD1_HUMAN	alanyl-tRNA synthetase domain containing 1	153					alanyl-tRNA aminoacylation	cytoplasm	alanine-tRNA ligase activity|ATP binding|metal ion binding|nucleic acid binding				0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		CTGCTCAATGGCAGCTACTTG	0.488													17	37					0	0	1	0	0		A	41108509	A	A	41108509	3	1	103	1	0	0	0	0	1	0	0	0	21	1203	42	2	812	2	AARSD1	17	41108509	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	101838	41108509	40086701	1632	63581											
RUNDC1	146923	broad.mit.edu	37	chr17	41141481	41141481	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagatcgtcaacccagccCgagtcaaagaacagttggtt	12	8	9	12	2	3	2	3	0	0	2	4	3	3	2	2	1	3	2	2	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:41141481C>T	uc002ici.1	+	3	793	c.781C>T	c.(781-783)CGA>TGA	p.R261*	RUNDC1_uc010whi.1_Nonsense_Mutation_p.R31*	NM_173079	NP_775102	Q96C34	RUND1_HUMAN	RUN domain containing 1	261											0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		CAACCCAGCCCGAGTCAAAGA	0.483													29	39					0	0	1	0	0		T	41141481	T	T	41141481	4	4	103	1	0	0	0	0	0	1	0	0	13767	644	23	1	791	1	RUNDC1	17	41141481	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	32972	41141481	40053729	1633	63582											
NBR1	4077	broad.mit.edu	37	chr17	41343459	41343459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgagctgagaagaaacaaCgtaaagcagaggtcaaggaa	18	4	13	6	2	1	3	1	1	0	3	1	6	1	4	0	2	5	3	0	2	7	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:41343459C>T	uc010czd.2	+	10	1074	c.934C>T	c.(934-936)CGT>TGT	p.R312C	NBR1_uc010diz.2_Missense_Mutation_p.R312C|NBR1_uc010whu.1_Missense_Mutation_p.R312C|NBR1_uc010whv.1_Missense_Mutation_p.R312C|NBR1_uc010whw.1_Missense_Mutation_p.R291C|NBR1_uc010whx.1_Missense_Mutation_p.R121C	NM_031862	NP_114068	Q14596	NBR1_HUMAN	neighbor of BRCA1 gene 1	312					macroautophagy|protein oligomerization	autophagic vacuole|cytoplasmic vesicle|cytosol|late endosome|lysosome|sarcomere	ubiquitin binding|zinc ion binding			skin(1)	1		Breast(137;0.00086)		BRCA - Breast invasive adenocarcinoma(366;0.0934)		GAAGAAACAACGTAAAGCAGA	0.403													6	13					0	0	1	0	0		T	41343459	T	T	41343459	3	4	103	1	0	0	0	0	1	0	0	0	10219	536	19	1	968	1	NBR1	17	41343459	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	201978	41343459	39851751	1634	63583											
UBTF	7343	broad.mit.edu	37	chr17	42288502	42288502	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcccccaagacccgctgctGctcctcctcaggcaggctct	5	9	8	19	1	2	1	1	0	1	1	5	1	5	1	5	2	2	5	5	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:42288502G>C	uc002igb.2	-	11	1175	c.1108C>G	c.(1108-1110)CAG>GAG	p.Q370E	UBTF_uc002igc.2_Missense_Mutation_p.Q333E|UBTF_uc010czs.2_Missense_Mutation_p.Q370E|UBTF_uc002igd.2_Missense_Mutation_p.Q333E|UBTF_uc010czt.2_Missense_Mutation_p.Q370E|UBTF_uc002ige.2_Missense_Mutation_p.Q333E	NM_014233	NP_055048	P17480	UBF1_HUMAN	upstream binding transcription factor, RNA	370					positive regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm	DNA binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		ACCCGCTGCTGCTCCTCCTCA	0.637													49	66					0	0	1	0	0		C	42288502	C	C	42288502	3	2	103	1	0	0	0	0	1	0	0	0	16935	1328	46	5	1226	5	UBTF	17	42288502	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	945043	42288502	38906708	1635	63584											
SLC4A1	6521	broad.mit.edu	37	chr17	42330695	42330695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcagcaggtccaggtggaagCcggagcccttgaccatcttg	8	7	14	12	1	1	1	0	1	1	0	2	3	2	3	4	4	3	2	4	4	1	2	rs121912748		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:42330695C>T	uc002igf.3	-	17	2251	c.2102G>A	c.(2101-2103)GGC>GAC	p.G701D		NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	701	Membrane (anion exchange).|Helical; (Potential).		G -> D (in AR-dRTA).		bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		CAGGTGGAAGCCGGAGCCCTT	0.637													23	47					0	0	1	0	0		T	42330695	T	T	42330695	3	4	103	1	0	0	0	0	1	0	0	0	14675	739	26	2	649	2	SLC4A1	17	42330695	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	42193	42330695	38864515	1636	63585											
FZD2	2535	broad.mit.edu	37	chr17	42636425	42636425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaagaccgaaaagctggagCggctcatggtgcgcatcggc	10	5	14	12	4	1	1	1	0	0	1	2	3	1	2	2	4	3	3	2	4	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:42636425C>T	uc002igx.1	+	1	1501	c.1369C>T	c.(1369-1371)CGG>TGG	p.R457W		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	457	Cytoplasmic (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		AAAGCTGGAGCGGCTCATGGT	0.617													42	47					0	0	1	0	0		T	42636425	T	T	42636425	3	4	103	1	0	0	0	0	1	0	0	0	6144	759	27	1	1371	1	FZD2	17	42636425	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	305730	42636425	38558785	1637	63586											
PLCD3	113026	broad.mit.edu	37	chr17	43192542	43192542	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggcgttgggggcagggTgcagggtcgcaggcgggtgg	3	6	26	6	3	0	0	0	0	0	0	1	0	0	0	0	9	1	4	0	9	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:43192542T>G	uc002iib.2	-	11	1745	c.1631A>C	c.(1630-1632)CAC>CCC	p.H544P		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	544	PI-PLC Y-box.				intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	GGGGGCAGGGTGCAGGGTCGC	0.672													3	4					0	0	1	0	0		G	43192542	G	G	43192542	3	3	103	1	0	0	0	0	1	0	0	0	12051	1696	59	5	762	5	PLCD3	17	43192542	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	556117	43192542	38002668	1638	63587											
TBKBP1	9755	broad.mit.edu	37	chr17	45786619	45786619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcccctcagcccgcggcGcgccttcgagggcatccggc	4	4	14	19	6	1	0	1	0	0	0	3	1	2	0	5	4	1	1	5	4	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:45786619G>A	uc002ilu.2	+	8	2369	c.1520G>A	c.(1519-1521)CGC>CAC	p.R507H		NM_014726	NP_055541	A7MCY6	TBKB1_HUMAN	TBK1 binding protein 1	507					innate immune response						0						AGCCCGCGGCGCGCCTTCGAG	0.751													3	1					0	0	1	0	0		A	45786619	A	A	45786619	3	1	103	1	0	0	0	0	1	0	0	0	15663	1087	38	1	1550	1	TBKBP1	17	45786619	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2594077	45786619	35408591	1639	63588											
HOXB5	3215	broad.mit.edu	37	chr17	46670643	46670643	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgaggacgcgctggcctcGtctatttcggtgaaattggc	6	11	13	11	5	1	1	0	1	1	0	4	3	2	2	2	4	0	1	2	4	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:46670643G>A	uc002inr.2	-	1	461	c.402C>T	c.(400-402)GAC>GAT	p.D134D		NM_002147	NP_002138	P09067	HXB5_HUMAN	homeobox B5	134						nucleus	sequence-specific DNA binding				0						CGCTGGCCTCGTCTATTTCGG	0.682													20	25					0	0	1	0	0		A	46670643	A	A	46670643	2	1	103	1	0	0	0	0	0	0	0	1	7320	1136	40	1		1	HOXB5	17	46670643	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	884024	46670643	34524567	1640	63589											
HOXB6	3216	broad.mit.edu	37	chr17	46674002	46674002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaacgtgtgtatgtctggcGgcctcgccggccgctgggcc	3	9	16	13	5	1	0	0	0	1	0	2	0	1	0	4	4	1	3	4	4	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:46674002G>A	uc002ins.1	-	4	773	c.448C>T	c.(448-450)CGC>TGC	p.R150C	HOXB5_uc002inr.2_5'Flank|HOXB6_uc010dbh.1_Missense_Mutation_p.R150C|HOXB6_uc002int.1_3'UTR	NM_018952	NP_061825	P17509	HXB6_HUMAN	homeobox B6	150	Homeobox.			GR -> A (in Ref. 7; AAA36004).	anterior/posterior axis specification, embryo	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TATGTCTGGCGGCCTCGCCGG	0.657													36	58					0	0	1	0	0		A	46674002	A	A	46674002	3	1	103	1	0	0	0	0	1	0	0	0	7321	1116	39	1	230	1	HOXB6	17	46674002	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3359	46674002	34521208	1641	63590											
COL1A1	1277	broad.mit.edu	37	chr17	48267382	48267382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatggggccagggggtccagCgggtccggcagggccagggg	6	3	22	10	2	0	0	0	0	0	0	2	0	2	0	4	9	1	1	4	9	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:48267382C>T	uc002iqm.2	-	36	2665	c.2539G>A	c.(2539-2541)GCT>ACT	p.A847T		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	847	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	GGGGGTCCAGCGGGTCCGGCA	0.672			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						48	44					0	0	1	0	0		T	48267382	T	T	48267382	3	4	103	1	0	0	0	0	1	0	0	0	3680	768	27	1	1919	1	COL1A1	17	48267382	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1593380	48267382	32927828	1642	63591											
XYLT2	64132	broad.mit.edu	37	chr17	48434499	48434499	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctacctggtgacgcaggcGgtgcagccctcagcccaggg	6	5	16	14	2	1	1	1	1	0	0	1	1	1	1	3	5	4	3	3	5	1	1	rs145129008		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:48434499G>A	uc002iqo.2	+	9	1936	c.1827G>A	c.(1825-1827)GCG>GCA	p.A609A	XYLT2_uc010dbo.2_Intron	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	609	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)					TGACGCAGGCGGTGCAGCCCT	0.647													20	21					0	0	1	0	0		A	48434499	A	A	48434499	2	1	103	1	0	0	0	0	0	0	0	1	17490	1103	39	1		1	XYLT2	17	48434499	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	167117	48434499	32760711	1643	63592											
EPN3	55040	broad.mit.edu	37	chr17	48618282	48618282	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactcccatgctctcctccTctgagccctggggcaggacc	5	9	10	17	0	2	2	0	2	2	0	5	3	4	3	5	3	2	2	5	3	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:48618282T>G	uc002ira.3	+	7	1543	c.1108T>G	c.(1108-1110)TCT>GCT	p.S370A	SPATA20_uc002irc.2_5'Flank|EPN3_uc010wms.1_Missense_Mutation_p.S398A|EPN3_uc010wmt.1_RNA|EPN3_uc010wmu.1_Missense_Mutation_p.S343A	NM_017957	NP_060427	Q9H201	EPN3_HUMAN	epsin 3	370	5 X 3 AA repeats of [DE]-P-W.					clathrin-coated vesicle|nucleus|perinuclear region of cytoplasm	lipid binding			ovary(1)	1	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;2.88e-09)			GCTCTCCTCCTCTGAGCCCTG	0.677													14	25					0	0	1	0	0		G	48618282	G	G	48618282	3	3	103	1	0	0	0	0	1	0	0	0	5195	1551	54	5	1130	5	EPN3	17	48618282	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	183783	48618282	32576928	1644	63593											
KIF2B	84643	broad.mit.edu	37	chr17	51901717	51901717	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggacggataatgcatggCaagttttccctcgttgattt	9	14	10	8	2	1	1	1	1	0	0	3	3	2	3	1	3	1	4	1	3	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:51901717C>T	uc002iua.2	+	1	1479	c.1323C>T	c.(1321-1323)GGC>GGT	p.G441G	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	441	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TAATGCATGGCAAGTTTTCCC	0.507													23	38					0	0	1	0	0		T	51901717	T	T	51901717	2	4	103	1	0	0	0	0	0	0	0	1	8314	697	25	2		2	KIF2B	17	51901717	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3283435	51901717	29293493	1645	63594											
TOM1L1	10040	broad.mit.edu	37	chr17	53014489	53014489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gactaccagtgagccttctgCcccatctcaagatctcctcg	8	10	7	16	1	3	2	1	1	3	1	6	3	3	2	5	0	3	0	5	0	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:53014489C>T	uc002iud.2	+	10	1110	c.935C>T	c.(934-936)GCC>GTC	p.A312V	TOM1L1_uc002iuc.2_Missense_Mutation_p.A312V|TOM1L1_uc010dca.1_Missense_Mutation_p.A312V|TOM1L1_uc010wnb.1_Missense_Mutation_p.A305V|TOM1L1_uc010wnc.1_Missense_Mutation_p.A235V|TOM1L1_uc010dbz.2_Missense_Mutation_p.A235V|TOM1L1_uc010wnd.1_Missense_Mutation_p.A200V|TOM1L1_uc010dcb.1_RNA	NM_005486	NP_005477	O75674	TM1L1_HUMAN	target of myb1-like 1	312					intracellular protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	cytosol|endosome membrane|Golgi stack|lysosome	SH3 domain binding|ubiquitin binding			ovary(1)	1						GAGCCTTCTGCCCCATCTCAA	0.453													36	50					0	0	1	0	0		T	53014489	T	T	53014489	3	4	103	1	0	0	0	0	1	0	0	0	16377	739	26	2	973	2	TOM1L1	17	53014489	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1112772	53014489	28180721	1646	63595											
VEZF1	7716	broad.mit.edu	37	chr17	56056610	56056610	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttgttgttgttgttgctgCtgctgctgctgctgctgctg	0	19	14	8	0	0	0	0	0	0	0	0	0	0	0	0	0	8	13	0	0	0	5	rs145983359	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:56056610C>T	uc002ivf.1	-	5	1184	c.1041G>A	c.(1039-1041)CAG>CAA	p.Q347Q	VEZF1_uc010dcn.1_Silent_p.Q197Q	NM_007146	NP_009077	Q14119	VEZF1_HUMAN	zinc finger protein 161	347	Poly-Gln.				cellular defense response|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						gttgttgctgctgctgctgct	0.303													31	106					0	0	1	0	0		T	56056610	T	T	56056610	2	4	103	1	0	0	0	0	0	0	0	1	17181	796	28	2		2	VEZF1	17	56056610	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3042121	56056610	25138600	1647	63596											
VEZF1	7716	broad.mit.edu	37	chr17	56060687	56060687	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctgatcagggggctccacgGcagagctcaggaggggcagc	8	5	17	11	1	3	2	2	1	1	1	4	3	4	3	1	6	2	4	1	6	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:56060687G>A	uc002ivf.1	-	2	244	c.101C>T	c.(100-102)GCC>GTC	p.A34V	VEZF1_uc010dcn.1_5'UTR	NM_007146	NP_009077	Q14119	VEZF1_HUMAN	zinc finger protein 161	34					cellular defense response|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						GGGCTCCACGGCAGAGCTCAG	0.478													49	81					0	0	1	0	0		A	56060687	A	A	56060687	3	1	103	1	0	0	0	0	1	0	0	0	17181	1203	42	2	1484	2	VEZF1	17	56060687	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4077	56060687	25134523	1648	63597											
OR4D1	26689	broad.mit.edu	37	chr17	56233200	56233200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgatgctgaggtcccactCgggaaaggcaaggaggaagg	11	5	18	7	1	0	2	0	2	0	0	2	5	1	5	1	7	1	2	1	7	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:56233200C>T	uc010wno.1	+	1	686	c.686C>T	c.(685-687)TCG>TTG	p.S229L	MSX2P1_uc002ivn.2_5'Flank	NM_012374	NP_036506	Q15615	OR4D1_HUMAN	olfactory receptor, family 4, subfamily D,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AGGTCCCACTCGGGAAAGGCA	0.507													23	36					0	0	1	0	0		T	56233200	T	T	56233200	3	4	103	1	0	0	0	0	1	0	0	0	11072	893	31	1	688	1	OR4D1	17	56233200	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	172513	56233200	24962010	1649	63598											
MKS1	54903	broad.mit.edu	37	chr17	56291642	56291642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttatagggccccaggtctgCcatgatgtgcattgtctgaa	8	13	11	9	0	2	2	0	2	2	0	2	2	2	2	3	2	2	1	3	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:56291642C>T	uc002ivr.1	-	6	697	c.622G>A	c.(622-624)GCA>ACA	p.A208T	MKS1_uc010wnq.1_Missense_Mutation_p.A5T|MKS1_uc002ivs.1_Missense_Mutation_p.A208T	NM_017777	NP_060247	Q9NXB0	MKS1_HUMAN	Meckel syndrome type 1 protein isoform 1	208					cilium assembly	centrosome|cilium|microtubule basal body	protein binding			ovary(1)	1						CCCAGGTCTGCCATGATGTGC	0.522													19	45					0	0	1	0	0		T	56291642	T	T	56291642	3	4	103	1	0	0	0	0	1	0	0	0	9627	739	26	2	1109	2	MKS1	17	56291642	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	58442	56291642	24903568	1650	63599											
RAD51C	5889	broad.mit.edu	37	chr17	56811500	56811500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcagggatttagagatactGttgttacttctgcatgttca	9	16	9	7	0	3	1	2	0	1	1	3	3	3	2	0	1	3	4	0	1	3	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:56811500G>A	uc002iwu.2	+	9	1090	c.1048G>A	c.(1048-1050)GTT>ATT	p.V350I	RAD51C_uc010ddc.2_RNA|RAD51C_uc002iwv.2_RNA|RAD51C_uc002iww.2_RNA	NM_058216	NP_478123	O43502	RA51C_HUMAN	RAD51 homolog C isoform 1	350					blood coagulation|DNA repair	mitochondrion|nucleoplasm|perinuclear region of cytoplasm	ATP binding|DNA binding|DNA-dependent ATPase activity				0	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TAGAGATACTGTTGTTACTTC	0.348								Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2				12	18					0	0	1	0	0		A	56811500	A	A	56811500	3	1	103	1	0	0	0	0	1	0	0	0	13013	1377	48	4	1086	4	RAD51C	17	56811500	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	519858	56811500	24383710	1651	63600											
TBX4	9496	broad.mit.edu	37	chr17	59560345	59560345	+	Frame_Shift_Del	DEL	C	-	-																															ggaggatcactatttccgttCcccccctccctacgaccagc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:59560345delC	uc002izi.2	+	8	1151	c.1106delC	c.(1105-1107)TCCfs	p.S369fs	TBX4_uc010ddo.2_Frame_Shift_Del_p.S370fs|TBX4_uc010woy.1_Frame_Shift_Del_p.S370fs	NM_018488	NP_060958	P57082	TBX4_HUMAN	T-box 4	369					leg morphogenesis|skeletal system morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						TATTTCCGTTCCCCCCCTCCC	0.577													17	26	---	---	---	---						.	-	59560345	-	-	59560345	7	5	103	1	0	1	0	1	0	0	0	0	15685	855	30	0	1136	0	TBX4	17	59560345	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	2748845	59560345	21634865	1652	63601											
TLK2	11011	broad.mit.edu	37	chr17	60598172	60598172	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttccaaccagagcttgtgCagcgtcggatccttgagtga	8	11	11	11	2	1	3	0	2	1	1	4	4	3	4	3	1	4	2	3	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:60598172C>T	uc010ddp.2	+	3	388	c.120C>T	c.(118-120)TGC>TGT	p.C40C	TLK2_uc002izx.3_5'UTR|TLK2_uc002izz.3_Silent_p.C40C|TLK2_uc002jaa.3_Silent_p.C40C|TLK2_uc010wpd.1_Silent_p.C40C	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	40					cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						AGAGCTTGTGCAGCGTCGGAT	0.323													5	112					0	0	1	0	0		T	60598172	T	T	60598172	2	4	103	1	0	0	0	0	0	0	0	1	15969	718	25	2		2	TLK2	17	60598172	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1037827	60598172	20597038	1653	63602											
TANC2	26115	broad.mit.edu	37	chr17	61498206	61498206	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaaccagcccagcccagcCgtccattcaagcaccgtcat	11	6	7	17	2	2	0	2	0	0	0	3	0	3	0	6	0	5	2	6	0	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:61498206C>T	uc002jal.3	+	25	4886	c.4863C>T	c.(4861-4863)GCC>GCT	p.A1621A	TANC2_uc010wpe.1_3'UTR|TANC2_uc002jao.3_Silent_p.A732A	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1621							binding			ovary(2)	2						CCAGCCCAGCCGTCCATTCAA	0.572													36	75					0	0	1	0	0		T	61498206	T	T	61498206	2	4	103	1	0	0	0	0	0	0	0	1	15570	639	23	1		1	TANC2	17	61498206	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	900034	61498206	19697004	1654	63603											
CCDC47	57003	broad.mit.edu	37	chr17	61824306	61824306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaacttcttttgctcacGcctcaatgcagcctcctaga	8	13	5	15	1	3	1	2	0	1	1	5	1	5	1	4	0	4	2	4	0	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:61824306G>A	uc002jbs.3	-	13	1723	c.1387C>T	c.(1387-1389)CGT>TGT	p.R463C	CCDC47_uc010ddx.2_Missense_Mutation_p.R463C	NM_020198	NP_064583	Q96A33	CCD47_HUMAN	coiled-coil domain containing 47 precursor	463	Potential.					integral to membrane	protein binding				0						TTTTGCTCACGCCTCAATGCA	0.383													15	12					0	0	1	0	0		A	61824306	A	A	61824306	3	1	103	1	0	0	0	0	1	0	0	0	2821	1087	38	1	68	1	CCDC47	17	61824306	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	326100	61824306	19370904	1655	63604											
FTSJ3	117246	broad.mit.edu	37	chr17	61898289	61898289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttcggggtccagtatcCgatgtttcgctagagaggga	7	10	15	9	3	0	1	0	0	0	1	4	4	2	2	3	4	0	3	3	4	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:61898289C>T	uc002jbz.2	-	17	2060	c.1982G>A	c.(1981-1983)CGG>CAG	p.R661Q	FTSJ3_uc002jca.2_Missense_Mutation_p.R661Q	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	661					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						GTCCAGTATCCGATGTTTCGC	0.488													34	54					0	0	1	0	0		T	61898289	T	T	61898289	3	4	103	1	0	0	0	0	1	0	0	0	6103	652	23	1	577	1	FTSJ3	17	61898289	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	73983	61898289	19296921	1656	63605											
SMARCD2	6603	broad.mit.edu	37	chr17	61912912	61912912	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtattggaaatgtagatccGaagctttcgcttttgctaaa	11	14	9	7	3	0	1	0	0	0	1	2	3	1	2	1	1	2	5	1	1	6	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:61912912G>A	uc010deb.1	-	5	900	c.583C>T	c.(583-585)CGG>TGG	p.R195W	SMARCD2_uc010wpt.1_Missense_Mutation_p.R147W|SMARCD2_uc010dea.1_Missense_Mutation_p.R120W|SMARCD2_uc010dec.1_Missense_Mutation_p.R174W	NM_001098426	NP_001091896	Q92925	SMRD2_HUMAN	SWI/SNF-related matrix-associated	195					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	SWI/SNF complex	protein binding|transcription coactivator activity				0						ATGTAGATCCGAAGCTTTCGC	0.522													26	47					0	0	1	0	0		A	61912912	A	A	61912912	3	1	103	1	0	0	0	0	1	0	0	0	14803	1057	37	1	1048	1	SMARCD2	17	61912912	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	14623	61912912	19282298	1657	63606											
CSH1	1442	broad.mit.edu	37	chr17	61972557	61972557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgaggatctgcccagtcCggcggctgccgtcttccagc	4	9	13	15	3	2	1	0	1	2	0	4	2	4	2	4	3	3	2	4	3	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:61972557C>T	uc002jcs.1	-	5	595	c.479G>A	c.(478-480)CGG>CAG	p.R160Q	CSH2_uc002jck.2_Intron|CSH1_uc002jcp.1_Silent_p.P150P|CSH1_uc002jcq.1_Missense_Mutation_p.R121Q|CSH1_uc002jcr.1_3'UTR|CSH1_uc002jct.1_Missense_Mutation_p.R126Q|CSH1_uc002jcu.1_Silent_p.P244P|CSH1_uc002jcv.1_Missense_Mutation_p.R65Q|CSH1_uc002jcw.2_Silent_p.P159P|CSH1_uc002jcy.2_3'UTR	NM_001317	NP_001308	P01243	CSH_HUMAN	chorionic somatomammotropin hormone 1 isoform 1	160					female pregnancy|signal transduction	extracellular region	hormone activity|metal ion binding			skin(1)	1						CTGCCCAGTCCGGCGGCTGCC	0.547									Russell-Silver_syndrome				61	96					0	0	1	0	0		T	61972557	T	T	61972557	3	4	103	1	0	0	0	0	1	0	0	0	3943	652	23	1	178	1	CSH1	17	61972557	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	59645	61972557	19222653	1658	63607											
LRRC37A3	374819	broad.mit.edu	37	chr17	62856650	62856651	+	Frame_Shift_Ins	INS	-	T	T																															tggggctggacttccgagccINSttttttcttcggcagtgttc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:62856650_62856651insT	uc002jey.2	-	11	4144_4145	c.3613_3614insA	c.(3613-3615)AGGfs	p.R1205fs	LRRC37A3_uc010wqg.1_Frame_Shift_Ins_p.R323fs|LRRC37A3_uc002jex.1_Frame_Shift_Ins_p.R182fs|LRRC37A3_uc010wqf.1_Frame_Shift_Ins_p.R243fs|LRRC37A3_uc010dek.1_Frame_Shift_Ins_p.R211fs	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1205	Extracellular (Potential).					integral to membrane					0						ACTTCCGAGCCTTTTTTCTTCG	0.559													65	110	---	---	---	---						.	T	62856651	T	T	62856650	7	5	103	1	0	1	1	0	0	0	0	0	9011	681	24	0	1306	0	LRRC37A3	17	62856650	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	884093	62856650	18338560	1659	63608											
KPNA2	3838	broad.mit.edu	37	chr17	66040473	66040473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaggaagctgtgtgggccGtgaccaactataccagtggt	12	8	13	8	1	0	1	0	1	0	0	0	2	0	2	3	3	3	1	3	3	6	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:66040473G>A	uc002jgk.2	+	9	1333	c.1201G>A	c.(1201-1203)GTG>ATG	p.V401M	KPNA2_uc002jgl.2_Missense_Mutation_p.V401M	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	401	NLS binding site (minor) (By similarity).|ARM 8.				DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			TGTGTGGGCCGTGACCAACTA	0.388													17	211					0	0	1	0	0		A	66040473	A	A	66040473	3	1	103	1	0	0	0	0	1	0	0	0	8446	1145	40	1	1231	1	KPNA2	17	66040473	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3183823	66040473	15154737	1660	63609											
FAM20A	54757	broad.mit.edu	37	chr17	66533689	66533689	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgtcgactatgacactctGctgtccatgggccactatgc	7	10	10	14	2	1	1	0	1	1	0	3	2	2	1	3	1	2	1	3	1	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:66533689G>A	uc002jho.2	-	11	1843	c.1555C>T	c.(1555-1557)CAG>TAG	p.Q519*	FAM20A_uc010wqp.1_Nonsense_Mutation_p.Q381*|PRKAR1A_uc002jhm.2_Intron|FAM20A_uc002jhn.2_Nonsense_Mutation_p.Q230*	NM_017565	NP_060035	Q96MK3	FA20A_HUMAN	family with sequence similarity 20, member A	519						extracellular region					0	Breast(10;1.64e-13)					ATGACACTCTGCTGTCCATGG	0.567													11	19					0	0	1	0	0		A	66533689	A	A	66533689	4	1	103	1	0	0	0	0	0	1	0	0	5548	1328	46	2	74	2	FAM20A	17	66533689	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	493216	66533689	14661521	1661	63610											
KCNJ16	3773	broad.mit.edu	37	chr17	68128923	68128923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagtgaagggaggatgaCgatggcatttaaagacctca	15	7	13	6	1	1	4	1	2	0	2	1	7	1	6	1	3	0	1	1	3	3	2	rs145663054	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:68128923C>T	uc002jin.2	+	5	1181	c.695C>T	c.(694-696)ACG>ATG	p.T232M	KCNJ16_uc002jio.2_Missense_Mutation_p.T232M|KCNJ16_uc002jip.2_Missense_Mutation_p.T232M|KCNJ16_uc002jiq.2_Missense_Mutation_p.T264M	NM_018658	NP_061128	Q9NPI9	IRK16_HUMAN	potassium inwardly-rectifying channel J16	232	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Breast(10;2.96e-09)					GGGAGGATGACGATGGCATTT	0.478													30	58					0	0	1	0	0		T	68128923	T	T	68128923	3	4	103	1	0	0	0	0	1	0	0	0	8066	536	19	1	697	1	KCNJ16	17	68128923	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1595234	68128923	13066287	1662	63611											
KCNJ16	3773	broad.mit.edu	37	chr17	68129127	68129127	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaatctagaagctcctatgTtccccgagaaattctctggg	10	11	8	12	1	2	2	0	0	2	2	5	3	4	2	4	1	1	2	4	1	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:68129127T>A	uc002jin.2	+	5	1385	c.899T>A	c.(898-900)GTT>GAT	p.V300D	KCNJ16_uc002jio.2_Missense_Mutation_p.V300D|KCNJ16_uc002jip.2_Missense_Mutation_p.V300D|KCNJ16_uc002jiq.2_Missense_Mutation_p.V332D	NM_018658	NP_061128	Q9NPI9	IRK16_HUMAN	potassium inwardly-rectifying channel J16	300	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Breast(10;2.96e-09)					AGCTCCTATGTTCCCCGAGAA	0.408													37	66					0	0	1	0	0		A	68129127	A	A	68129127	3	1	103	1	0	0	0	0	1	0	0	0	8066	1725	60	5	901	5	KCNJ16	17	68129127	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	204	68129127	13066083	1663	63612											
C17orf80	55028	broad.mit.edu	37	chr17	71233115	71233115	+	Frame_Shift_Del	DEL	G	-	-																															ccacaacttatcagtccccaGggggaaagactctcacaagg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:71233115delG	uc002jjm.3	+	3	1688	c.1494delG	c.(1492-1494)CAGfs	p.Q498fs	C17orf80_uc010wqu.1_Frame_Shift_Del_p.Q498fs|C17orf80_uc010dfj.2_Frame_Shift_Del_p.Q498fs|C17orf80_uc002jjk.1_Frame_Shift_Del_p.Q498fs|C17orf80_uc002jjl.3_Frame_Shift_Del_p.Q498fs	NM_017941	NP_060411	Q9BSJ5	CQ080_HUMAN	lung cancer-related protein 8 isoform a	498	Extracellular (Potential).					integral to membrane				skin(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			TCAGTCCCCAGGGGGAAAGAC	0.458													26	28	---	---	---	---						.	-	71233115	-	-	71233115	7	5	103	1	0	1	0	1	0	0	0	0	1888	991	35	0	1496	0	C17orf80	17	71233115	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	3103988	71233115	9962095	1664	63613											
RAB37	326624	broad.mit.edu	37	chr17	72739292	72739292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggacaccgctgggcaggaaCggttccgaagcgtcacccat	9	5	14	13	4	1	0	1	0	0	0	2	3	2	2	3	4	2	3	3	4	2	1	rs148960641		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:72739292C>T	uc002jlk.2	+	4	327	c.271C>T	c.(271-273)CGG>TGG	p.R91W	RAB37_uc002jlc.2_Missense_Mutation_p.R84W|RAB37_uc010dfu.2_Missense_Mutation_p.R84W|RAB37_uc002jld.2_Missense_Mutation_p.R84W|RAB37_uc010wrb.1_Missense_Mutation_p.R59W|RAB37_uc010wrc.1_Missense_Mutation_p.R96W|RAB37_uc010wrd.1_Missense_Mutation_p.R59W|RAB37_uc010wre.1_Missense_Mutation_p.R54W|RAB37_uc002jll.3_RNA	NM_001006638	NP_001006639	Q96AX2	RAB37_HUMAN	RAB37, member RAS oncogene family isoform 2	91					protein transport|small GTPase mediated signal transduction	ER-Golgi intermediate compartment	GTP binding			ovary(1)	1						TGGGCAGGAACGGTTCCGAAG	0.597													32	68					0	0	1	0	0		T	72739292	T	T	72739292	3	4	103	1	0	0	0	0	1	0	0	0	12952	527	19	1	588	1	RAB37	17	72739292	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1506177	72739292	8455918	1665	63614											
GGA3	23163	broad.mit.edu	37	chr17	73239146	73239146	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagggtgtcctttacctTggacttctcctcatcatcaa	7	13	7	14	0	4	0	3	0	1	0	6	1	5	1	4	2	1	0	4	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:73239146T>C	uc002jni.1	-	6	535	c.526A>G	c.(526-528)AAG>GAG	p.K176E	GGA3_uc002jnj.1_Missense_Mutation_p.K143E|GGA3_uc010wrw.1_Missense_Mutation_p.K54E|GGA3_uc002jnk.1_Missense_Mutation_p.K104E|GGA3_uc010wrx.1_Missense_Mutation_p.K54E|GGA3_uc010wry.1_Missense_Mutation_p.K104E|GGA3_uc010wrz.1_Intron	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	176	GAT.|Binds to ARF1 (in long isoform).				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			TCCTTTACCTTGGACTTCTCC	0.552													43	81					0	0	1	0	0		C	73239146	C	C	73239146	3	2	103	1	0	0	0	0	1	0	0	0	6369	1821	63	3	1781	3	GGA3	17	73239146	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	499854	73239146	7956064	1666	63615											
GRB2	2885	broad.mit.edu	37	chr17	73316454	73316454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcttcttgactcttagaCgttccggttcacgggggtga	6	14	12	9	3	3	3	1	2	2	1	4	3	4	3	1	3	1	3	1	3	1	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:73316454C>T	uc002jnx.3	-	6	1006	c.649G>A	c.(649-651)GTC>ATC	p.V217I	GRB2_uc002jny.3_Missense_Mutation_p.V176I	NM_002086	NP_002077	P62993	GRB2_HUMAN	growth factor receptor-bound protein 2 isoform	217					axon guidance|blood coagulation|cell junction assembly|cell-cell signaling|cellular response to ionizing radiation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of reactive oxygen species metabolic process|Ras protein signal transduction|receptor internalization|signal transduction in response to DNA damage|T cell costimulation	cytosol|Golgi apparatus	epidermal growth factor receptor binding|insulin receptor substrate binding|SH3/SH2 adaptor activity			ovary(3)	3	all_cancers(13;5.44e-09)|all_epithelial(9;1.1e-09)|Breast(9;1.85e-09)|all_lung(278;0.222)		all cancers(21;1.09e-07)|Epithelial(20;1.23e-06)|Lung(188;0.185)		Pegademase bovine(DB00061)	GACTCTTAGACGTTCCGGTTC	0.473													85	131					0	0	1	0	0		T	73316454	T	T	73316454	3	4	103	1	0	0	0	0	1	0	0	0	6774	536	19	1	8	1	GRB2	17	73316454	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	77308	73316454	7878756	1667	63616											
KIAA0195	9772	broad.mit.edu	37	chr17	73486331	73486331	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggtgaatggcgtcctgcCcatcctccccctgctctttc	4	11	8	18	1	1	1	0	1	1	0	5	1	4	1	6	2	2	1	6	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:73486331C>A	uc002jnz.3	+	10	1246	c.971C>A	c.(970-972)CCC>CAC	p.P324H	KIAA0195_uc010wsa.1_Missense_Mutation_p.P334H|KIAA0195_uc010wsb.1_5'UTR	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	324	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGCGTCCTGCCCATCCTCCCC	0.672													39	76					2.77807e-22	2.97982e-22	1	1	0		A	73486331	A	A	73486331	3	1	103	1	0	0	0	0	1	0	0	0	8176	623	22	5	1005	5	KIAA0195	17	73486331	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	169877	73486331	7708879	1668	63617											
GALR2	8811	broad.mit.edu	37	chr17	74071131	74071131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgcgcggcggccaggCggtcagcactaccaacctgt	6	6	14	15	4	1	0	1	0	0	0	1	0	1	0	3	4	5	3	3	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:74071131C>T	uc002jqm.1	+	1	248	c.167C>T	c.(166-168)GCG>GTG	p.A56V	SRP68_uc010wsu.1_5'Flank|SRP68_uc002jqk.1_5'Flank|SRP68_uc002jql.1_5'Flank	NM_003857	NP_003848	O43603	GALR2_HUMAN	galanin receptor 2	56	Cytoplasmic (Potential).				digestion|elevation of cytosolic calcium ion concentration|feeding behavior|learning or memory|muscle contraction	integral to membrane|plasma membrane	galanin receptor activity				0						GGCGGCCAGGCGGTCAGCACT	0.657													25	24					0	0	1	0	0		T	74071131	T	T	74071131	3	4	103	1	0	0	0	0	1	0	0	0	6243	768	27	1	169	1	GALR2	17	74071131	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	584800	74071131	7124079	1669	63618											
GALR2	8811	broad.mit.edu	37	chr17	74072797	74072797	+	Frame_Shift_Del	DEL	G	-	-																															ggcagccatcgggctcatctGggggctgtcgctgctcttct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:74072797delG	uc002jqm.1	+	2	530	c.449delG	c.(448-450)TGGfs	p.W150fs	ZACN_uc002jqn.2_5'Flank|ZACN_uc002jqo.2_5'Flank|ZACN_uc010dgu.2_5'Flank	NM_003857	NP_003848	O43603	GALR2_HUMAN	galanin receptor 2	150	Helical; Name=4; (Potential).				digestion|elevation of cytosolic calcium ion concentration|feeding behavior|learning or memory|muscle contraction	integral to membrane|plasma membrane	galanin receptor activity				0						GGGCTCATCTGGGGGCTGTCG	0.692													18	31	---	---	---	---						.	-	74072797	-	-	74072797	7	5	103	1	0	1	0	1	0	0	0	0	6243	1357	47	0	455	0	GALR2	17	74072797	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	1666	74072797	7122413	1670	63619											
PRPSAP1	5635	broad.mit.edu	37	chr17	74328436	74328437	+	Frame_Shift_Ins	INS	-	C	C																															gtaggggaagtaggggatgaINSccccaataatgttcctggca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:74328436_74328437insC	uc010wta.1	-	4	816_817	c.370_371insG	c.(370-372)GTCfs	p.V124fs	PRPSAP1_uc010wtb.1_Frame_Shift_Ins_p.V21fs	NM_002766	NP_002757	Q14558	KPRA_HUMAN	phosphoribosyl pyrophosphate	95					nucleotide biosynthetic process		enzyme inhibitor activity|identical protein binding|magnesium ion binding|ribose phosphate diphosphokinase activity			ovary(1)	1						GTAGGGGATGACCCCAATAATG	0.495													51	88	---	---	---	---						.	C	74328437	C	C	74328436	7	5	103	1	0	1	1	0	0	0	0	0	12603	275	10	0	814	0	PRPSAP1	17	74328436	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	255639	74328436	6866774	1671	63620											
USP36	57602	broad.mit.edu	37	chr17	76799940	76799942	+	In_Frame_Del	DEL	GGA	-	-																															tgaggcagcgccgtcgagatGgaggagcagctccgtggttc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:76799940_76799942delGGA	uc002jvz.1	-	16	2660_2662	c.2335_2337delTCC	c.(2335-2337)TCCdel	p.S779del	USP36_uc002jwa.1_In_Frame_Del_p.S779del|USP36_uc002jwb.1_In_Frame_Del_p.S391del|USP36_uc002jwc.1_In_Frame_Del_p.S479del|USP36_uc002jvy.1_5'Flank	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	779					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			CCGTCGAGATGGAGGAGCAGCTC	0.64													42	74	---	---	---	---						.	-	76799942	-	-	76799940	7	5	103	1	0	1	0	1	0	0	0	0	17093	1335	47	0	1054	0	USP36	17	76799940	In_Frame_Del	DEL	GGA	TCGA-BR-A4QL-01A-31D-A25D-08	2471504	76799940	4395270	1672	63621											
TIMP2	7077	broad.mit.edu	37	chr17	76851906	76851906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatccagaggcactcgtccGgggaggagatgtagcacggg	9	5	16	11	3	0	2	0	0	0	2	3	4	2	3	3	5	1	3	3	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:76851906G>A	uc002jwf.2	-	5	808	c.506C>T	c.(505-507)CCG>CTG	p.P169L	TIMP2_uc002jwe.2_Missense_Mutation_p.P92L|TIMP2_uc010wty.1_Missense_Mutation_p.P92L	NM_003255	NP_003246	P16035	TIMP2_HUMAN	TIMP metallopeptidase inhibitor 2 precursor	169							metal ion binding|metalloendopeptidase inhibitor activity			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.194)			GCACTCGTCCGGGGAGGAGAT	0.637													29	50					0	0	1	0	0		A	76851906	A	A	76851906	3	1	103	1	0	0	0	0	1	0	0	0	15943	1116	39	1	160	1	TIMP2	17	76851906	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	51966	76851906	4343304	1673	63622											
ENPP7	339221	broad.mit.edu	37	chr17	77707394	77707394	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctaccacgccacgctgggCatccagaggtggtgggacaa	9	5	13	14	2	0	1	0	0	0	1	1	2	1	2	4	4	1	2	4	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:77707394C>T	uc002jxa.2	+	2	362	c.342C>T	c.(340-342)GGC>GGT	p.G114G		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	114					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CCACGCTGGGCATCCAGAGGT	0.592													17	22					0	0	1	0	0		T	77707394	T	T	77707394	2	4	103	1	0	0	0	0	0	0	0	1	5143	697	25	2		2	ENPP7	17	77707394	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	855488	77707394	3487816	1674	63623											
ENPP7	339221	broad.mit.edu	37	chr17	77709291	77709291	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctggactacggaccaaaCgggatgctgctccctaaaga	11	7	10	13	2	0	1	0	0	0	1	2	4	2	4	3	3	4	2	3	3	4	2	rs149462169	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:77709291C>T	uc002jxa.2	+	3	869	c.849C>T	c.(847-849)AAC>AAT	p.N283N		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	283					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			ACGGACCAAACGGGATGCTGC	0.587													16	45					0	0	1	0	0		T	77709291	T	T	77709291	2	4	103	1	0	0	0	0	0	0	0	1	5143	535	19	1		1	ENPP7	17	77709291	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1897	77709291	3485919	1675	63624											
TBC1D16	125058	broad.mit.edu	37	chr17	77922699	77922699	+	Frame_Shift_Del	DEL	C	-	-																															ctccacattgggattgtcttCcccccggaagaactggttgt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:77922699delC	uc002jxj.2	-	8	1629	c.1513delG	c.(1513-1515)GAAfs	p.E505fs	TBC1D16_uc002jxh.2_Frame_Shift_Del_p.E143fs|TBC1D16_uc002jxi.2_Frame_Shift_Del_p.E130fs|TBC1D16_uc002jxk.1_Frame_Shift_Del_p.E143fs	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	505	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			GGATTGTCTTCCCCCCGGAAG	0.572													47	88	---	---	---	---						.	-	77922699	-	-	77922699	7	5	103	1	0	1	0	1	0	0	0	0	15630	864	30	0	810	0	TBC1D16	17	77922699	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	213408	77922699	3272511	1676	63625											
GAA	2548	broad.mit.edu	37	chr17	78090851	78090851	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaccccagtgctccaggcCgggaaggccgaagtgactgg	9	5	14	13	2	1	1	1	1	0	0	2	3	2	2	5	4	1	1	5	4	2	0	rs150431943	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:78090851C>T	uc002jxo.2	+	17	2456	c.2274C>T	c.(2272-2274)GCC>GCT	p.A758A	GAA_uc002jxp.2_Silent_p.A758A|GAA_uc002jxq.2_Silent_p.A758A	NM_001079803	NP_001073271	P10253	LYAG_HUMAN	acid alpha-glucosidase preproprotein	758					cardiac muscle contraction|diaphragm contraction|glycogen catabolic process|lysosome organization|tongue morphogenesis|vacuolar sequestering|ventricular cardiac muscle tissue morphogenesis	lysosomal membrane	carbohydrate binding|maltose alpha-glucosidase activity			ovary(1)	1	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)		Acarbose(DB00284)	TGCTCCAGGCCGGGAAGGCCG	0.647													21	25					0	0	1	0	0		T	78090851	T	T	78090851	2	4	103	1	0	0	0	0	0	0	0	1	6161	639	23	1		1	GAA	17	78090851	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	168152	78090851	3104359	1677	63626											
SLC26A11	284129	broad.mit.edu	37	chr17	78195370	78195370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccgtagagatgccttcttCggtgacggcgctgggtcagg	6	9	15	11	4	2	2	1	1	1	1	3	3	2	2	2	4	1	2	2	4	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:78195370C>T	uc002jyb.1	+	3	280	c.11C>T	c.(10-12)TCG>TTG	p.S4L	SGSH_uc002jxz.3_5'Flank|SGSH_uc002jya.3_5'Flank|SGSH_uc002jxy.2_5'Flank|SGSH_uc010wue.1_5'Flank|SLC26A11_uc002jyc.1_Missense_Mutation_p.S4L|SLC26A11_uc002jyd.1_Missense_Mutation_p.S4L|SLC26A11_uc010dhv.1_Missense_Mutation_p.S4L	NM_173626	NP_775897	Q86WA9	S2611_HUMAN	solute carrier family 26, member 11	4	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|plasma membrane	anion:anion antiporter activity|secondary active sulfate transmembrane transporter activity				0	all_neural(118;0.0538)		OV - Ovarian serous cystadenocarcinoma(97;0.0344)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			ATGCCTTCTTCGGTGACGGCG	0.687													4	13					0	0	1	0	0		T	78195370	T	T	78195370	3	4	103	1	0	0	0	0	1	0	0	0	14541	893	31	1	13	1	SLC26A11	17	78195370	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	104519	78195370	2999840	1678	63627											
RNF213	57674	broad.mit.edu	37	chr17	78314019	78314019	+	Frame_Shift_Del	DEL	C	-	-																															ccagcacaaggtcttcgtcaCcccccaggcacccctcgagg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:78314019delC	uc002jyh.1	+	1	294	c.71delC	c.(70-72)ACCfs	p.T24fs		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GTCTTCGTCACCCCCCAGGCA	0.637													19	43	---	---	---	---						.	-	78314019	-	-	78314019	7	5	103	1	0	1	0	1	0	0	0	0	13502	507	18	0	6269	0	RNF213	17	78314019	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	118649	78314019	2881191	1679	63628											
AATK	9625	broad.mit.edu	37	chr17	79094123	79094123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaggctgcgcaggttgcGcgcgctctggctctcagcca	5	7	15	14	4	2	0	1	0	2	0	3	1	2	0	1	3	4	6	1	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:79094123G>A	uc010dia.2	-	11	3693	c.3613C>T	c.(3613-3615)CGC>TGC	p.R1205C	AATK_uc010dhz.2_RNA	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	1205						integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CGCAGGTTGCGCGCGCTCTGG	0.657													13	21					0	0	1	0	0		A	79094123	A	A	79094123	3	1	103	1	0	0	0	0	1	0	0	0	26	1087	38	1	527	1	AATK	17	79094123	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	780104	79094123	2101087	1680	63629											
AATK	9625	broad.mit.edu	37	chr17	79095729	79095729	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgctgggcggccctccgCgctcccacctcctctagctc	2	7	10	22	5	1	0	0	0	1	0	5	0	4	0	6	2	1	3	6	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:79095729C>T	uc010dia.2	-	11	2087	c.2007G>A	c.(2005-2007)GCG>GCA	p.A669A	AATK_uc010dhz.2_RNA	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	669						integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CGGCCCTCCGCGCTCCCACCT	0.706													12	18					0	0	1	0	0		T	79095729	T	T	79095729	2	4	103	1	0	0	0	0	0	0	0	1	26	755	27	1		1	AATK	17	79095729	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1606	79095729	2099481	1681	63630											
SLC38A10	124565	broad.mit.edu	37	chr17	79220706	79220706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcctgggtttatcctcctCgtcctcctgcctctgctggt	1	15	9	16	1	1	0	0	0	1	0	6	0	5	0	6	2	3	2	6	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:79220706C>T	uc002jzz.1	-	15	2596	c.2221G>A	c.(2221-2223)GAG>AAG	p.E741K	SLC38A10_uc002jzy.1_Missense_Mutation_p.E659K	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	741					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			TTATCCTCCTCGTCCTCCTGC	0.652													26	36					0	0	1	0	0		T	79220706	T	T	79220706	3	4	103	1	0	0	0	0	1	0	0	0	14627	893	31	1	1146	1	SLC38A10	17	79220706	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	124977	79220706	1974504	1682	63631											
SLC38A10	124565	broad.mit.edu	37	chr17	79234119	79234119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcttcctctgccaagtcctCggggacctcctcgctcacag	5	9	10	17	2	2	0	1	0	1	0	7	1	5	1	5	3	1	2	5	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:79234119C>T	uc002jzz.1	-	11	1582	c.1207G>A	c.(1207-1209)GAG>AAG	p.E403K	SLC38A10_uc002jzy.1_Missense_Mutation_p.E321K|SLC38A10_uc002kab.2_Missense_Mutation_p.E403K	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	403					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			GCCAAGTCCTCGGGGACCTCC	0.662													5	15					0	0	1	0	0		T	79234119	T	T	79234119	3	4	103	1	0	0	0	0	1	0	0	0	14627	893	31	1	2454	1	SLC38A10	17	79234119	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	13413	79234119	1961091	1683	63632											
TSPAN10	83882	broad.mit.edu	37	chr17	79612444	79612445	+	Frame_Shift_Ins	INS	-	T	T																															cctgttacgtggcttctctgINSggggcatccttgccttcctg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:79612444_79612445insT	uc010die.2	+	2	553_554	c.463_464insT	c.(463-465)GGGfs	p.G155fs	TSPAN10_uc002kaw.1_Frame_Shift_Ins_p.G155fs|TSPAN10_uc010did.1_RNA	NM_031945	NP_114151	Q9H1Z9	TSN10_HUMAN	tetraspanin 10	155						integral to membrane				ovary(1)	1	all_neural(118;0.0878)|all_lung(278;0.175)|Lung NSC(278;0.192)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			TGGCTTCTCTGGGGGCATCCTT	0.688													5	10	---	---	---	---						.	T	79612445	T	T	79612444	7	5	103	1	0	1	1	0	0	0	0	0	16660	1348	47	0	469	0	TSPAN10	17	79612444	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	378325	79612444	1582766	1684	63633											
DCXR	51181	broad.mit.edu	37	chr17	79994510	79994510	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccgggctattaagccccTggccacaatctggaatcgca	9	8	9	15	2	1	0	0	0	1	0	3	1	2	1	5	3	1	2	5	3	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:79994510T>C	uc002kdg.2	-	5	373	c.358A>G	c.(358-360)AGG>GGG	p.R120G		NM_016286	NP_057370	Q7Z4W1	DCXR_HUMAN	dicarbonyl/L-xylulose reductase	120					D-xylose metabolic process|glucose metabolic process|protein homotetramerization|xylulose metabolic process	membrane	binding|L-xylulose reductase (NADP+) activity				0	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			ATTAAGCCCCTGGCCACAATC	0.612													30	35					0	0	1	0	0		C	79994510	C	C	79994510	3	2	103	1	0	0	0	0	1	0	0	0	4322	1579	55	3	392	3	DCXR	17	79994510	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	382066	79994510	1200700	1685	63634											
DUS1L	64118	broad.mit.edu	37	chr17	80018606	80018606	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtagggctggcagatccaGtggaagggcaagtcgccggt	9	7	17	8	2	0	1	0	0	0	1	2	2	1	2	2	5	0	4	2	5	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:80018606G>A	uc002kdq.2	-	9	1412	c.993C>T	c.(991-993)CAC>CAT	p.H331H	DUS1L_uc002kdp.2_Silent_p.H200H|DUS1L_uc002kdr.2_Silent_p.H331H|DUS1L_uc002kds.2_RNA|DUS1L_uc002kdt.2_RNA	NM_022156	NP_071439	Q6P1R4	DUS1L_HUMAN	PP3111 protein	331					tRNA processing		flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity			skin(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			GGCAGATCCAGTGGAAGGGCA	0.677													16	12					0	0	1	0	0		A	80018606	A	A	80018606	2	1	103	1	0	0	0	0	0	0	0	1	4811	1020	36	4		4	DUS1L	17	80018606	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	24096	80018606	1176604	1686	63635											
FASN	2194	broad.mit.edu	37	chr17	80041487	80041487	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcctgcagcttctcttcCgccaaggagttcaagaccag	8	9	10	14	1	2	1	1	0	1	1	4	2	3	2	4	2	2	3	4	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:80041487C>T	uc002kdu.2	-	31	5364	c.5247G>A	c.(5245-5247)GCG>GCA	p.A1749A	FASN_uc002kdv.1_5'Flank	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	1749	Enoyl reductase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	GCTTCTCTTCCGCCAAGGAGT	0.612													6	10					0	0	1	0	0		T	80041487	T	T	80041487	2	4	103	1	0	0	0	0	0	0	0	1	5697	639	23	1		1	FASN	17	80041487	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	22881	80041487	1153723	1687	63636											
FASN	2194	broad.mit.edu	37	chr17	80049207	80049207	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggaagggcatggcggtggcGgggacagccgcgatgtcgtt	6	6	20	9	6	0	0	0	0	0	0	1	3	0	2	1	7	1	2	1	7	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr17:80049207G>A	uc002kdu.2	-	9	1500	c.1383C>T	c.(1381-1383)CCC>CCT	p.P461P	FASN_uc002kdw.1_5'Flank	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	461	Acyl and malonyl transferases (By similarity).			AVPA -> LSPT (in Ref. 2; AAA73576).	energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	TGGCGGTGGCGGGGACAGCCG	0.697													9	10					0	0	1	0	0		A	80049207	A	A	80049207	2	1	103	1	0	0	0	0	0	0	0	1	5697	1103	39	1		1	FASN	17	80049207	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	7720	80049207	1146003	1688	63637											
ADCYAP1	116	broad.mit.edu	37	chr18	909505	909505	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cgctctccaagcgccactcgGacgggatcttcacggacagc	8	6	11	16	5	3	0	1	0	2	0	5	3	3	3	2	3	2	1	2	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:909505G>C	uc010dkg.2	+	5	519	c.400G>C	c.(400-402)GAC>CAC	p.D134H	ADCYAP1_uc010dkh.2_Missense_Mutation_p.D134H	NM_001099733	NP_001093203	P18509	PACA_HUMAN	adenylate cyclase activating polypeptide	134					activation of adenylate cyclase activity|cell-cell signaling|female pregnancy|nerve growth factor receptor signaling pathway|regulation of G-protein coupled receptor protein signaling pathway	extracellular region|soluble fraction	neuropeptide hormone activity|peptide hormone receptor binding				0						GCGCCACTCGGACGGGATCTT	0.627													43	93					0	0	1	0	0		C	909505	C	C	909505	3	2	103	1	0	0	0	0	1	0	0	0	302	1174	41	5	414	5	ADCYAP1	18	909505	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08		909505	77167743	1689	63638											
TMEM200C	645369	broad.mit.edu	37	chr18	5891840	5891840	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcccggtggccttgggccAgtagcccaccaccgccatgg	5	6	14	16	2	0	0	0	0	0	0	1	0	1	0	7	5	1	1	7	5	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:5891840A>G	uc002kmx.1	-	1	264	c.223T>C	c.(223-225)TGG>CGG	p.W75R		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	75						integral to membrane					0						GCCTTGGGCCAGTAGCCCACC	0.662													10	25					0	0	1	0	0		G	5891840	G	G	5891840	3	3	103	1	0	0	0	0	1	0	0	0	16150	188	7	3	1646	3	TMEM200C	18	5891840	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	4982335	5891840	72185408	1690	63639											
LAMA1	284217	broad.mit.edu	37	chr18	6950849	6950849	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgcctttgccaaggtcaaAcatgaagtggaggcggcccc	9	8	12	12	1	2	1	1	1	1	0	2	2	2	2	4	4	3	0	4	4	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:6950849A>C	uc002knm.2	-	58	8423	c.8329T>G	c.(8329-8331)TTT>GTT	p.F2777V	LAMA1_uc002knk.2_Missense_Mutation_p.F107V|LAMA1_uc002knl.2_Missense_Mutation_p.F230V|LAMA1_uc010wzj.1_Missense_Mutation_p.F2253V	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2777	Laminin G-like 4.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCAAGGTCAAACATGAAGTGG	0.577													20	46					0	0	1	0	0		C	6950849	C	C	6950849	3	2	103	1	0	0	0	0	1	0	0	0	8621	43	2	5	922	5	LAMA1	18	6950849	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1059009	6950849	71126399	1691	63640											
LAMA1	284217	broad.mit.edu	37	chr18	6958539	6958539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcattgtgagcagtgacGtcccctctccctctggaatt	6	14	8	13	1	3	2	1	2	3	0	6	3	4	3	3	1	1	1	3	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:6958539G>A	uc002knm.2	-	55	7995	c.7901C>T	c.(7900-7902)ACG>ATG	p.T2634M	LAMA1_uc002knk.2_5'Flank|LAMA1_uc002knl.2_Missense_Mutation_p.T87M|LAMA1_uc010wzj.1_Missense_Mutation_p.T2110M	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2634	Laminin G-like 3.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GAGCAGTGACGTCCCCTCTCC	0.458													30	28					0	0	1	0	0		A	6958539	A	A	6958539	3	1	103	1	0	0	0	0	1	0	0	0	8621	1145	40	1	1362	1	LAMA1	18	6958539	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	7690	6958539	71118709	1692	63641											
ANKRD12	23253	broad.mit.edu	37	chr18	9254358	9254358	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgagtatgagttcaaaGatgatgatgatgaagaaatt	16	13	11	1	0	1	9	1	7	0	2	1	9	1	9	0	0	0	2	0	0	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:9254358G>T	uc002knv.2	+	9	1350	c.1093G>T	c.(1093-1095)GAT>TAT	p.D365Y	ANKRD12_uc002knw.2_Missense_Mutation_p.D342Y|ANKRD12_uc002knx.2_Missense_Mutation_p.D342Y|ANKRD12_uc010dkx.1_Missense_Mutation_p.D72Y	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	365						nucleus				ovary(2)|central_nervous_system(1)	3						TGAGTTCAAAGATGATGATGA	0.348													27	57					2.41591e-17	2.57655e-17	1	1	0		T	9254358	T	T	9254358	3	4	103	1	0	0	0	0	1	0	0	0	640	942	33	5	1123	5	ANKRD12	18	9254358	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2295819	9254358	68822890	1693	63642											
TUBB6	84617	broad.mit.edu	37	chr18	12325616	12325616	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgcgccgctcaccagccgCggcagccagcagtaccgggc	6	4	13	18	6	1	0	1	0	0	0	2	0	1	0	5	2	4	4	5	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:12325616C>T	uc002kqw.2	+	4	873	c.828C>T	c.(826-828)CGC>CGT	p.R276R	TUBB6_uc002kqv.2_Silent_p.R204R|TUBB6_uc010dld.2_RNA|TUBB6_uc002kqx.2_Silent_p.R239R|TUBB6_uc002kqy.2_Intron	NM_032525	NP_115914	Q9BUF5	TBB6_HUMAN	tubulin, beta 6	276					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0				READ - Rectum adenocarcinoma(1;0.0649)		TCACCAGCCGCGGCAGCCAGC	0.682													33	30					0	0	1	0	0		T	12325616	T	T	12325616	2	4	103	1	0	0	0	0	0	0	0	1	16786	755	27	1		1	TUBB6	18	12325616	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3071258	12325616	65751632	1694	63643											
SPIRE1	56907	broad.mit.edu	37	chr18	12453139	12453140	+	Splice_Site	INS	-	A	A																															tcggcaacaaaagcagagctINSaaaaaatacaaatttaagag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:12453139_12453140insA	uc002kre.2	-	14	1824	c.1777_splice	c.e14-1	p.L593_splice	SPIRE1_uc002krc.2_Splice_Site|SPIRE1_uc010wzw.1_Splice_Site_p.L459_splice|SPIRE1_uc010wzx.1_Splice_Site_p.L382_splice|SPIRE1_uc010wzy.1_Splice_Site_p.L579_splice	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a							cytoskeleton|perinuclear region of cytoplasm	actin binding				0						AAAGCAGAGCTAAAAAATACAA	0.342													11	16	---	---	---	---						.	A	12453140	A	A	12453139	8	5	103	1	0	1	1	0	0	0	1	0	15096	1536	53	0	511	0	SPIRE1	18	12453139	Splice_Site	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	127523	12453139	65624109	1695	63644											
RIOK3	8780	broad.mit.edu	37	chr18	21057190	21057190	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagaacctacccaccctcaCggcctggagttcttgttccg	7	10	9	15	2	2	1	1	0	1	1	3	2	3	2	5	2	2	3	5	2	3	5	rs56187215		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:21057190C>T	uc002kui.3	+	11	1919	c.1302C>T	c.(1300-1302)CAC>CAT	p.H434H	RIOK3_uc010dls.2_Silent_p.H434H|RIOK3_uc010xas.1_Silent_p.H418H|RIOK3_uc010xat.1_Silent_p.H178H	NM_003831	NP_003822	O14730	RIOK3_HUMAN	sudD suppressor of bimD6 homolog	434	Protein kinase.				chromosome segregation		ATP binding|protein binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(21;0.000106)|all_epithelial(16;6.74e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0202)|Ovarian(20;0.127)					CCCACCCTCACGGCCTGGAGT	0.413													39	58					0	0	1	0	0		T	21057190	T	T	21057190	2	4	103	1	0	0	0	0	0	0	0	1	13404	535	19	1		1	RIOK3	18	21057190	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	8604051	21057190	57020058	1696	63645											
ZNF521	25925	broad.mit.edu	37	chr18	22807137	22807137	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagccttcctcacactgacTgcacttctgagtgtccttca	9	12	6	14	0	3	2	2	2	1	0	5	2	5	2	3	0	2	1	3	0	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:22807137T>C	uc002kvk.2	-	4	992	c.745A>G	c.(745-747)AGT>GGT	p.S249G	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.S249G|ZNF521_uc002kvl.2_Missense_Mutation_p.S29G	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	249	C2H2-type 6.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TCACACTGACTGCACTTCTGA	0.547			T	PAX5	ALL								30	50					0	0	1	0	0		C	22807137	C	C	22807137	3	2	103	1	0	0	0	0	1	0	0	0	17990	1580	55	3	3210	3	ZNF521	18	22807137	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1749947	22807137	55270111	1697	63646											
KCTD1	284252	broad.mit.edu	37	chr18	24039669	24039669	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagcctgcattgacagagTtacacatcacgtcgccgatc	10	9	8	14	3	1	2	1	1	0	1	4	3	2	2	3	0	3	2	3	0	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:24039669T>C	uc002kvw.2	-	4	1090	c.530A>G	c.(529-531)AAC>AGC	p.N177S	KCTD1_uc010xbj.1_Missense_Mutation_p.N785S|KCTD1_uc010xbk.1_Missense_Mutation_p.N177S|KCTD1_uc002kvy.2_Missense_Mutation_p.N95S	NM_001136205	NP_001129677	Q719H9	KCTD1_HUMAN	potassium channel tetramerisation domain	177					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)			ATTGACAGAGTTACACATCAC	0.502													36	47					0	0	1	0	0		C	24039669	C	C	24039669	3	2	103	1	0	0	0	0	1	0	0	0	8112	1725	60	3	251	3	KCTD1	18	24039669	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1232532	24039669	54037579	1698	63647											
C18orf34	374864	broad.mit.edu	37	chr18	30926269	30926270	+	Frame_Shift_Ins	INS	-	A	A																															ttcttgatctctgttgttttINSaaagcttcttcagcgtctgc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:30926269_30926270insA	uc002kxn.2	-	8	705_706	c.563_564insT	c.(562-564)TTAfs	p.L188fs	C18orf34_uc010xbr.1_Frame_Shift_Ins_p.L188fs|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Frame_Shift_Ins_p.L188fs|C18orf34_uc002kxp.2_Frame_Shift_Ins_p.L188fs	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	188	Potential.									ovary(1)	1						TCTGTTGTTTTAAAGCTTCTTC	0.401													42	46	---	---	---	---						.	A	30926270	A	A	30926269	7	5	103	1	0	1	1	0	0	0	0	0	1905	1751	61	0	2099	0	C18orf34	18	30926269	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	6886600	30926269	47150979	1699	63648											
FHOD3	80206	broad.mit.edu	37	chr18	34310626	34310626	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaaactgctgcagatggAaaaaggcaagagatcattgt	18	7	11	5	0	1	3	1	0	0	3	1	5	1	4	0	2	3	3	0	2	6	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:34310626A>G	uc002kzt.1	+	16	2956	c.2859A>G	c.(2857-2859)GGA>GGG	p.G953G	FHOD3_uc002kzs.1_Silent_p.G970G|FHOD3_uc010dmz.1_Silent_p.G685G|FHOD3_uc010dnb.1_5'UTR	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	953	FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CTGCAGATGGAAAAAGGCAAG	0.413													26	49					0	0	1	0	0		G	34310626	G	G	34310626	2	3	103	1	0	0	0	0	0	0	0	1	5897	233	9	3		3	FHOD3	18	34310626	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	3384357	34310626	43766622	1700	63649											
SYT4	6860	broad.mit.edu	37	chr18	40851770	40851770	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgatagcagagagagaTcagtaactcaccccgtcctg	12	7	11	11	1	2	3	2	1	0	2	3	6	3	4	3	1	2	2	3	1	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:40851770T>A	uc002law.2	-	3	1246	c.877A>T	c.(877-879)ATC>TTC	p.I293F	SYT4_uc010dng.2_RNA|SYT4_uc010xcm.1_Missense_Mutation_p.I275F|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	293	Phospholipid binding (Probable).|C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						CAGAGAGAGATCAGTAACTCA	0.383													42	57					0	0	1	0	0		A	40851770	A	A	40851770	3	1	103	1	0	0	0	0	1	0	0	0	15501	1435	50	5	408	5	SYT4	18	40851770	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	6541144	40851770	37225478	1701	63650											
SETBP1	26040	broad.mit.edu	37	chr18	42281385	42281385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcctgccggtctcctcagCcaagcccccagctgctcctg	4	9	8	20	1	2	0	1	0	1	0	5	0	4	0	7	1	5	2	7	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:42281385C>T	uc010dni.2	+	2	370	c.74C>T	c.(73-75)GCC>GTC	p.A25V	SETBP1_uc002lay.2_Missense_Mutation_p.A25V	NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	25						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GTCTCCTCAGCCAAGCCCCCA	0.617									Schinzel-Giedion_syndrome				4	3					0	0	1	0	0		T	42281385	T	T	42281385	3	4	103	1	0	0	0	0	1	0	0	0	14154	739	26	2	76	2	SETBP1	18	42281385	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1429615	42281385	35795863	1702	63651											
SETBP1	26040	broad.mit.edu	37	chr18	42281469	42281469	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggatcccggtgggcggagAgcgcatggagccagaggagg	8	3	22	8	3	0	2	0	0	0	2	1	6	1	5	2	8	2	1	2	8	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:42281469A>G	uc010dni.2	+	2	454	c.158A>G	c.(157-159)GAG>GGG	p.E53G	SETBP1_uc002lay.2_Missense_Mutation_p.E53G	NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	53						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GTGGGCGGAGAGCGCATGGAG	0.622									Schinzel-Giedion_syndrome				18	27					0	0	1	0	0		G	42281469	G	G	42281469	3	3	103	1	0	0	0	0	1	0	0	0	14154	304	11	3	160	3	SETBP1	18	42281469	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	84	42281469	35795779	1703	63652											
SETBP1	26040	broad.mit.edu	37	chr18	42531549	42531549	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccaaaacagccatcaagcaCcccaggcctgtttctagcca	12	6	6	17	0	2	0	1	0	1	0	2	0	2	0	6	1	4	2	6	1	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:42531549C>T	uc010dni.2	+	4	2540	c.2244C>T	c.(2242-2244)CAC>CAT	p.H748H		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	748						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		CCATCAAGCACCCCAGGCCTG	0.562									Schinzel-Giedion_syndrome				21	40					0	0	1	0	0		T	42531549	T	T	42531549	2	4	103	1	0	0	0	0	0	0	0	1	14154	506	18	4		4	SETBP1	18	42531549	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	250080	42531549	35545699	1704	63653											
SETBP1	26040	broad.mit.edu	37	chr18	42531687	42531687	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaacctgagccctgccagCactgaaaccaatttttcaga	12	8	8	13	0	1	3	1	2	0	1	1	3	1	3	4	1	5	2	4	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:42531687C>T	uc010dni.2	+	4	2678	c.2382C>T	c.(2380-2382)AGC>AGT	p.S794S		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	794						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GCCCTGCCAGCACTGAAACCA	0.488									Schinzel-Giedion_syndrome				26	34					0	0	1	0	0		T	42531687	T	T	42531687	2	4	103	1	0	0	0	0	0	0	0	1	14154	709	25	2		2	SETBP1	18	42531687	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	138	42531687	35545561	1705	63654											
TCEB3C	162699	broad.mit.edu	37	chr18	44555201	44555201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacccggaggcactgctggCgcagcgtcggcacctggagc	6	4	16	15	4	0	0	0	0	0	0	1	2	0	2	2	5	3	5	2	5	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:44555201C>T	uc010xdb.1	-	1	1249	c.1013G>A	c.(1012-1014)CGC>CAC	p.R338H	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	338	Interaction with elongin BC (By similarity).|Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						GCACTGCTGGCGCAGCGTCGG	0.652													28	615					0	0	1	0	0		T	44555201	T	T	44555201	3	4	103	1	0	0	0	0	1	0	0	0	15708	768	27	1	2274	1	TCEB3C	18	44555201	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2023514	44555201	33522047	1706	63655											
SMAD2	4087	broad.mit.edu	37	chr18	45395688	45395688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagattaaaagcatattcgCagttttcaattgccttgagt	13	15	7	6	1	1	2	1	1	0	1	2	2	1	2	1	0	2	3	1	0	5	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:45395688C>T	uc002lcy.2	-	4	694	c.446G>A	c.(445-447)TGC>TAC	p.C149Y	SMAD2_uc002lcz.2_Missense_Mutation_p.C149Y|SMAD2_uc010xdc.1_Missense_Mutation_p.C119Y|SMAD2_uc010xdd.1_Missense_Mutation_p.C119Y	NM_005901	NP_005892	Q15796	SMAD2_HUMAN	Sma- and Mad-related protein 2 isoform 1	149	MH1.				anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			large_intestine(3)|lung(1)|central_nervous_system(1)	5						AGCATATTCGCAGTTTTCAAT	0.388													11	19					0	0	1	0	0		T	45395688	T	T	45395688	3	4	103	1	0	0	0	0	1	0	0	0	14783	710	25	2	989	2	SMAD2	18	45395688	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	840487	45395688	32681560	1707	63656											
ZBTB7C	201501	broad.mit.edu	37	chr18	45567085	45567085	+	Frame_Shift_Del	DEL	C	-	-																															gtcatcctcctcccccccgtCccccccaggctccatgatct																								rs115080210	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:45567085delC	uc002lda.2	-	1	410	c.394delG	c.(394-396)GACfs	p.D132fs	ZBTB7C_uc002ldb.2_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dnu.2_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010dnv.2_Frame_Shift_Del_p.D154fs|ZBTB7C_uc010dnw.2_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dnx.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dny.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dnz.1_Frame_Shift_Del_p.D154fs|ZBTB7C_uc010dob.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010doc.1_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010dod.1_Frame_Shift_Del_p.D154fs|ZBTB7C_uc010doe.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dof.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dog.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010doh.1_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010doi.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010doj.1_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010dok.1_Frame_Shift_Del_p.D181fs|ZBTB7C_uc010dol.1_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010doa.1_Frame_Shift_Del_p.D154fs|ZBTB7C_uc010don.1_Frame_Shift_Del_p.D140fs|ZBTB7C_uc010doo.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dop.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010doq.1_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010dor.1_Frame_Shift_Del_p.D154fs|ZBTB7C_uc010dos.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dot.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dou.1_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010dom.1_Frame_Shift_Del_p.D141fs	NM_001039360	NP_001034449	A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	132	Glu-rich.|Asp-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						tcccccccgtcccccCCAGGC	0.289													9	19	---	---	---	---						.	-	45567085	-	-	45567085	7	5	103	1	0	1	0	1	0	0	0	0	17580	855	30	0	1473	0	ZBTB7C	18	45567085	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	171397	45567085	32510163	1708	63657											
ACAA2	10449	broad.mit.edu	37	chr18	47322226	47322226	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggttcctccacataaaacaActtcagcttctttaacacaa	14	11	3	13	1	2	0	1	0	1	0	4	0	4	0	2	1	4	2	2	1	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:47322226A>G	uc002ldw.3	-	4	735	c.338T>C	c.(337-339)GTT>GCT	p.V113A	ACAA2_uc002ldx.3_Missense_Mutation_p.V110A	NM_006111	NP_006102	P42765	THIM_HUMAN	acetyl-coenzyme A acyltransferase 2	113					anti-apoptosis|cholesterol biosynthetic process		acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1						ACATAAAACAACTTCAGCTTC	0.368													23	34					0	0	1	0	0		G	47322226	G	G	47322226	3	3	103	1	0	0	0	0	1	0	0	0	105	43	2	3	883	3	ACAA2	18	47322226	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1755141	47322226	30755022	1709	63658											
MAPK4	5596	broad.mit.edu	37	chr18	48256134	48256134	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccgaggacctgccggaCaataaactgggcgacctcaa	13	4	11	13	3	1	0	1	0	0	0	1	4	1	2	4	3	3	0	4	3	5	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:48256134C>T	uc002lev.2	+	6	2674	c.1674C>T	c.(1672-1674)GAC>GAT	p.D558D	MAPK4_uc010xdm.1_Silent_p.D347D|MAPK4_uc010doz.2_3'UTR	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	558					cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		ACCTGCCGGACAATAAACTGG	0.617													3	5					0	0	1	0	0		T	48256134	T	T	48256134	2	4	103	1	0	0	0	0	0	0	0	1	9298	477	17	4		4	MAPK4	18	48256134	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	933908	48256134	29821114	1710	63659											
DCC	1630	broad.mit.edu	37	chr18	50936875	50936875	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccaattgatgactggattAtggaaacaatcagtggtgat	13	12	10	6	0	1	3	1	3	0	0	2	5	2	5	1	3	1	0	1	3	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:50936875A>T	uc002lfe.1	+	20	3576	c.2989A>T	c.(2989-2991)ATG>TTG	p.M997L	DCC_uc010xdr.1_Missense_Mutation_p.M825L|DCC_uc010dpf.1_Missense_Mutation_p.M632L	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	997	Extracellular (Potential).|Fibronectin type-III 6.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TGACTGGATTATGGAAACAAT	0.363													52	83					0	0	1	0	0		T	50936875	T	T	50936875	3	4	103	1	0	0	0	0	1	0	0	0	4285	449	16	5	3067	5	DCC	18	50936875	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2680741	50936875	27140373	1711	63660											
CDH20	28316	broad.mit.edu	37	chr18	59221697	59221697	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagcactgtccacagctaCgtgctggccaagctctacga	11	7	9	14	2	1	0	0	0	1	0	2	1	2	0	2	1	7	4	2	1	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:59221697C>T	uc010dps.1	+	11	2187	c.2175C>T	c.(2173-2175)TAC>TAT	p.Y725Y	CDH20_uc002lif.2_Silent_p.Y719Y	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	725	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				TCCACAGCTACGTGCTGGCCA	0.657													10	18					0	0	1	0	0		T	59221697	T	T	59221697	2	4	103	1	0	0	0	0	0	0	0	1	3109	547	19	1		1	CDH20	18	59221697	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	8284822	59221697	18855551	1712	63661											
KIAA1468	57614	broad.mit.edu	37	chr18	59855209	59855209	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtccctggagcagccggCgttgggggcgctggaggtcg	3	6	22	10	4	0	0	0	0	0	0	2	2	1	2	2	8	2	3	2	8	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:59855209C>T	uc002lil.2	+	1	686	c.471C>T	c.(469-471)GGC>GGT	p.G157G	PIGN_uc002lii.3_5'Flank|PIGN_uc002lij.3_5'Flank|KIAA1468_uc002lik.1_Silent_p.G157G|KIAA1468_uc010xel.1_Silent_p.G157G	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	157							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				GAGCAGCCGGCGTTGGGGGCG	0.662											OREG0025032	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	8					0	0	1	0	0		T	59855209	T	T	59855209	2	4	103	1	0	0	0	0	0	0	0	1	8252	755	27	1		1	KIAA1468	18	59855209	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	633512	59855209	18222039	1713	63662											
SERPINB5	5268	broad.mit.edu	37	chr18	61156698	61156698	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aattaaggatctcacagatgGcaagtaccctttaattgttc	13	13	7	8	0	1	1	1	0	1	1	3	2	1	2	1	2	1	3	1	2	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:61156698G>A	uc002liz.3	+	4	566	c.424_splice	c.e4+1	p.G142_splice	SERPINB5_uc002liy.2_Splice_Site_p.G142_splice	NM_002639	NP_002630	P36952	SPB5_HUMAN	serine (or cysteine) proteinase inhibitor, clade						cellular component movement|regulation of proteolysis	cytoplasm|extracellular space	protein binding|serine-type endopeptidase inhibitor activity			ovary(1)	1						CTCACAGATGGCAAGTACCCT	0.378													19	37					0	0	1	0	0		A	61156698	A	A	61156698	5	1	103	1	0	0	0	0	0	0	1	0	14129	1217	42	2	435	2	SERPINB5	18	61156698	Splice_Site	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1301489	61156698	16920550	1714	63663											
SERPINB7	8710	broad.mit.edu	37	chr18	61463517	61463517	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggactacattgagtgtgcCgaaaaattatacgatgccaa	15	10	9	7	2	0	1	0	1	0	0	0	4	0	2	2	1	4	0	2	1	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:61463517C>T	uc002ljl.2	+	5	450	c.354C>T	c.(352-354)GCC>GCT	p.A118A	SERPINB7_uc002ljm.2_Silent_p.A118A|SERPINB7_uc010xet.1_Silent_p.A101A|SERPINB7_uc010dqg.2_Silent_p.A118A	NM_001040147	NP_001035237	O75635	SPB7_HUMAN	serine (or cysteine) proteinase inhibitor, clade	118					regulation of proteolysis	cytoplasm	serine-type endopeptidase inhibitor activity			lung(2)|central_nervous_system(1)	3		Esophageal squamous(42;0.129)				TTGAGTGTGCCGAAAAATTAT	0.308													16	24					0	0	1	0	0		T	61463517	T	T	61463517	2	4	103	1	0	0	0	0	0	0	0	1	14131	639	23	1		1	SERPINB7	18	61463517	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	306819	61463517	16613731	1715	63664											
SERPINB2	5055	broad.mit.edu	37	chr18	61570186	61570186	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagtggaccagcaaagacAaaatggctgaagatgaagtt	18	6	11	6	0	0	4	0	2	0	2	0	5	0	5	1	2	1	3	1	2	6	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:61570186A>G	uc010xeu.1	+	9	1228	c.895A>G	c.(895-897)AAA>GAA	p.K299E	SERPINB2_uc002ljo.2_Missense_Mutation_p.K299E|SERPINB2_uc010dqh.2_Missense_Mutation_p.K229E|SERPINB2_uc002ljp.1_Missense_Mutation_p.K104E|SERPINB2_uc002ljq.1_Missense_Mutation_p.K104E	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	299					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	CAGCAAAGACAAAATGGCTGA	0.348													9	34					0	0	1	0	0		G	61570186	G	G	61570186	3	3	103	1	0	0	0	0	1	0	0	0	14126	131	5	3	921	3	SERPINB2	18	61570186	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	106669	61570186	16507062	1716	63665											
CDH7	1005	broad.mit.edu	37	chr18	63526952	63526953	+	Frame_Shift_Ins	INS	-	A	A																															tcttttcctaggttatccagINSaaaatcagtgctgtggataa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:63526952_63526953insA	uc002ljz.2	+	10	1828_1829	c.1503_1504insA	c.(1501-1506)CAGAAAfs	p.Q501fs	CDH7_uc002lka.2_Frame_Shift_Ins_p.Q501fs|CDH7_uc002lkb.2_Frame_Shift_Ins_p.Q501fs	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	501_502	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				AGGTTATCCAGAAAATCAGTGC	0.361													13	13	---	---	---	---						.	A	63526953	A	A	63526952	7	5	103	1	0	1	1	0	0	0	0	0	3118	933	33	0	1537	0	CDH7	18	63526952	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	1956766	63526952	14550296	1717	63666											
DOK6	220164	broad.mit.edu	37	chr18	67365809	67365809	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacggtcgggactcaacgtgGttcacgtttgagtcaggaag	9	10	14	8	4	3	1	3	1	0	0	4	3	3	3	0	4	2	2	0	4	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:67365809G>A	uc002lkl.2	+	5	769	c.579G>A	c.(577-579)TGG>TGA	p.W193*		NM_152721	NP_689934	Q6PKX4	DOK6_HUMAN	docking protein 6	193	IRS-type PTB.						insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)				ACTCAACGTGGTTCACGTTTG	0.473													4	37					0	0	1	0	0		A	67365809	A	A	67365809	4	1	103	1	0	0	0	0	0	1	0	0	4707	1270	44	4	597	4	DOK6	18	67365809	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3838857	67365809	10711439	1718	63667											
RTTN	25914	broad.mit.edu	37	chr18	67788837	67788837	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtttagaagttctagtgaAgaattttttctttgttcctt	9	20	7	5	0	2	3	0	1	2	2	3	3	3	3	1	0	0	3	1	0	5	10			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:67788837A>C	uc002lkp.2	-	26	3551	c.3483T>G	c.(3481-3483)TCT>TCG	p.S1161S	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Silent_p.S249S	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1161							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				GTTCTAGTGAAGAATTTTTTC	0.299													25	48					0	0	1	0	0		C	67788837	C	C	67788837	2	2	103	1	0	0	0	0	0	0	0	1	13762	59	3	5		5	RTTN	18	67788837	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	423028	67788837	10288411	1719	63668											
RTTN	25914	broad.mit.edu	37	chr18	67869206	67869207	+	Frame_Shift_Ins	INS	-	T	T																															atcctgttaagatttcagggINSttttttgacaattctgaaaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:67869206_67869207insT	uc002lkp.2	-	4	478_479	c.410_411insA	c.(409-411)AACfs	p.N137fs	RTTN_uc010xfb.1_5'UTR|RTTN_uc002lkq.1_Frame_Shift_Ins_p.N137fs	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	137							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				AGATTTCAGGGTTTTTTGACAA	0.356													19	33	---	---	---	---						.	T	67869207	T	T	67869206	7	5	103	1	0	1	1	0	0	0	0	0	13762	1252	44	0	6453	0	RTTN	18	67869206	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	80369	67869206	10208042	1720	63669											
CBLN2	147381	broad.mit.edu	37	chr18	70209264	70209264	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcacggggcagcaggcGggcagtagcagcaacagcag	10	1	17	13	3	0	0	0	0	0	0	0	0	0	0	1	4	5	8	1	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:70209264G>A	uc002lku.2	-	2	367	c.132C>T	c.(130-132)CCC>CCT	p.P44P	CBLN2_uc002lkv.2_Silent_p.P44P	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	44	Helical; (Potential).					integral to membrane					0		Esophageal squamous(42;0.131)				GGCAGCAGGCGGGCAGTAGCA	0.582													13	11					0	0	1	0	0		A	70209264	A	A	70209264	2	1	103	1	0	0	0	0	0	0	0	1	2708	1103	39	1		1	CBLN2	18	70209264	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2340058	70209264	7867984	1721	63670											
KCNG2	26251	broad.mit.edu	37	chr18	77624158	77624158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcggccggcggcgcctgcGcgacgtggtggacaacccgc	4	3	18	16	9	0	0	0	0	0	0	0	2	0	1	3	5	2	0	3	5	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:77624158G>A	uc010xfl.1	+	1	491	c.491G>A	c.(490-492)CGC>CAC	p.R164H		NM_012283	NP_036415	Q9UJ96	KCNG2_HUMAN	potassium voltage-gated channel, subfamily G,	164	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of heart contraction|regulation of insulin secretion	voltage-gated potassium channel complex	delayed rectifier potassium channel activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;6.92e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0244)		cggcgccTGCGCGACGTGGTG	0.368													7	8					0	0	1	0	0		A	77624158	A	A	77624158	3	1	103	1	0	0	0	0	1	0	0	0	8044	1087	38	1	493	1	KCNG2	18	77624158	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	7414894	77624158	453090	1722	63671											
PQLC1	80148	broad.mit.edu	37	chr18	77679291	77679291	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggtctccacaaacagggcGgagtcaatggacaggtaggt	12	6	15	8	1	2	0	1	0	1	0	3	2	2	2	1	6	1	1	1	6	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:77679291G>A	uc002lnl.2	-	5	673	c.501C>T	c.(499-501)TCC>TCT	p.S167S	PQLC1_uc010dre.2_Silent_p.S84S|PQLC1_uc002lnk.2_Silent_p.S149S|PQLC1_uc010xfm.1_Intron	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	167						integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		CAAACAGGGCGGAGTCAATGG	0.637													20	33					0	0	1	0	0		A	77679291	A	A	77679291	2	1	103	1	0	0	0	0	0	0	0	1	12440	1103	39	1		1	PQLC1	18	77679291	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	55133	77679291	397957	1723	63672											
C18orf22	79863	broad.mit.edu	37	chr18	77798609	77798609	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctgcagagaagtgccgcGcacatgaggtgatgaccttt	9	9	13	10	2	0	4	0	3	0	1	1	5	1	4	3	1	2	2	3	1	1	1	rs143262320	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr18:77798609G>A	uc002lns.2	+	4	621	c.483G>A	c.(481-483)GCG>GCA	p.A161A	C18orf22_uc010drh.2_Silent_p.A161A|C18orf22_uc010dri.1_Intron|C18orf22_uc002lnt.2_5'Flank	NM_024805	NP_079081	Q8N0V3	RBFA_HUMAN	hypothetical protein LOC79863 precursor	161					rRNA processing	mitochondrion					0		all_cancers(4;3.21e-14)|all_epithelial(4;7.11e-09)|all_lung(4;0.00366)|Lung NSC(4;0.00683)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0545)|all_hematologic(56;0.15)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;6.46e-08)|BRCA - Breast invasive adenocarcinoma(31;0.00376)		GAAGTGCCGCGCACATGAGGT	0.498													24	41					0	0	1	0	0		A	77798609	A	A	77798609	2	1	103	1	0	0	0	0	0	0	0	1	1901	1074	38	1		1	C18orf22	18	77798609	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	119318	77798609	278639	1724	63673											
HCN2	610	broad.mit.edu	37	chr19	608110	608110	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgtgggtgccacctgctaCgccatgttcatcggccacgc	6	10	11	14	3	1	0	1	0	0	0	2	0	1	0	4	2	3	2	4	2	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:608110C>T	uc002lpe.2	+	4	1418	c.1365C>T	c.(1363-1365)TAC>TAT	p.Y455Y		NM_001194	NP_001185	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic	455	Helical; Name=Segment S6; (Potential).				cell-cell signaling|muscle contraction	voltage-gated potassium channel complex	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCACCTGCTACGCCATGTTCA	0.662													64	23					0	0	1	0	0		T	608110	T	T	608110	2	4	103	1	0	0	0	0	0	0	0	1	7013	547	19	1		1	HCN2	19	608110	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08		608110	58520873	1725	63674											
MED16	10025	broad.mit.edu	37	chr19	871999	871999	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtatccgaggtggccgtataCacgggcaggcagctgggctt	7	8	16	10	3	0	0	0	0	0	0	1	1	1	0	2	5	2	6	2	5	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:871999C>T	uc002lqd.1	-	12	2176	c.2025G>A	c.(2023-2025)GTG>GTA	p.V675V	MED16_uc010drw.1_Intron|MED16_uc002lqe.2_Silent_p.V664V|MED16_uc002lqf.2_Silent_p.V664V	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	675	WD 4.				androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGCCGTATACACGGGCAGGC	0.592													17	28					0	0	1	0	0		T	871999	T	T	871999	2	4	103	1	0	0	0	0	0	0	0	1	9452	465	17	4		4	MED16	19	871999	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	263889	871999	58256984	1726	63675											
SBNO2	22904	broad.mit.edu	37	chr19	1123582	1123582	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgtgccccagctcctcCgcctcctcctcctcagcctc	2	11	6	22	1	2	0	1	0	1	0	8	0	7	0	9	0	3	1	9	0	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:1123582C>T	uc002lrk.3	-	7	817	c.579G>A	c.(577-579)GCG>GCA	p.A193A	SBNO2_uc002lrj.3_Silent_p.A136A|SBNO2_uc010dse.2_Silent_p.A186A|SBNO2_uc010xgj.1_Silent_p.A136A|SBNO2_uc010dsf.2_Silent_p.A136A	NM_014963	NP_055778	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 isoform 1	193	Poly-Glu.				macrophage activation involved in immune response|negative regulation of transcription, DNA-dependent|regulation of inflammatory response|transcription, DNA-dependent						0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGctcctccgcctcctcct	0.527													23	10					0	0	1	0	0		T	1123582	T	T	1123582	2	4	103	1	0	0	0	0	0	0	0	1	13888	639	23	1		1	SBNO2	19	1123582	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	251583	1123582	58005401	1727	63676											
PCSK4	54760	broad.mit.edu	37	chr19	1483414	1483414	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggatggagttgtggaggccGgcgcaggccgatacgttttc	6	9	17	9	5	0	0	0	0	0	0	1	4	0	3	2	6	1	3	2	6	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:1483414G>A	uc002ltb.1	-	12	1502	c.1440C>T	c.(1438-1440)GCC>GCT	p.A480A	PCSK4_uc002lsz.2_5'UTR|PCSK4_uc002lta.2_Silent_p.A292A	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	480					proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGTGGAGGCCGGCGCAGGCCG	0.682													4	47					0	0	1	0	0		A	1483414	A	A	1483414	2	1	103	1	0	0	0	0	0	0	0	1	11621	1103	39	1		1	PCSK4	19	1483414	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	359832	1483414	57645569	1728	63677											
S1PR4	8698	broad.mit.edu	37	chr19	3179235	3179235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgctttgccaccatggtgCggccggtggccgagagcggg	5	6	18	12	5	0	1	0	0	0	1	0	2	0	1	4	5	4	1	4	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:3179235C>T	uc002lxg.2	+	1	470	c.445C>T	c.(445-447)CGG>TGG	p.R149W		NM_003775	NP_003766	O95977	S1PR4_HUMAN	sphingosine-1-phosphate receptor 4 precursor	149	Cytoplasmic (By similarity).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|immune response	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			lung(1)|skin(1)	2						CACCATGGTGCGGCCGGTGGC	0.692													74	15					0	0	1	0	0		T	3179235	T	T	3179235	3	4	103	1	0	0	0	0	1	0	0	0	13821	759	27	1	447	1	S1PR4	19	3179235	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1695821	3179235	55949748	1729	63678											
TJP3	27134	broad.mit.edu	37	chr19	3730369	3730369	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagacagtgaaacgtccccGgaggatccacctgcccgcca	11	4	10	16	3	0	2	0	1	0	1	2	4	2	4	6	2	2	0	6	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:3730369G>A	uc010xhv.1	+	4	335	c.335G>A	c.(334-336)CGG>CAG	p.R112Q	TJP3_uc010xhs.1_Missense_Mutation_p.R93Q|TJP3_uc010xht.1_Missense_Mutation_p.R57Q|TJP3_uc010xhu.1_Missense_Mutation_p.R102Q|TJP3_uc010xhw.1_Missense_Mutation_p.R112Q	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	93	PDZ 1.					tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		AAACGTCCCCGGAGGATCCAC	0.557													4	5					0	0	1	0	0		A	3730369	A	A	3730369	3	1	103	1	0	0	0	0	1	0	0	0	15956	1116	39	1	349	1	TJP3	19	3730369	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	551134	3730369	55398614	1730	63679											
ANKRD24	170961	broad.mit.edu	37	chr19	4207553	4207553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcacacagacctgtgccGtctcctactgcagcaagggg	8	8	12	13	1	2	1	1	0	1	1	3	1	2	1	3	2	4	2	3	2	2	1	rs146188452	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:4207553G>A	uc010dtt.1	+	9	869	c.593G>A	c.(592-594)CGT>CAT	p.R198H	ANKRD24_uc002lzs.2_Missense_Mutation_p.R169H|ANKRD24_uc002lzt.2_Missense_Mutation_p.R170H	NM_133475	NP_597732	Q8TF21	ANR24_HUMAN	ankyrin repeat domain 24	198	ANK 4.										0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)		GACCTGTGCCGTCTCCTACTG	0.493											OREG0025162	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	78					0	0	1	0	0		A	4207553	A	A	4207553	3	1	103	1	0	0	0	0	1	0	0	0	653	1145	40	1	623	1	ANKRD24	19	4207553	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	477184	4207553	54921430	1731	63680											
SEMA6B	10501	broad.mit.edu	37	chr19	4556000	4556000	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggagtctgaagactcacGctgtagttggcgcacaccgg	9	7	14	11	3	2	2	1	1	1	1	2	3	2	3	1	3	0	4	1	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:4556000G>A	uc010duc.1	-	5	509	c.471C>T	c.(469-471)AGC>AGT	p.S157S	SEMA6B_uc010dud.2_Silent_p.S157S|SEMA6B_uc010xih.1_Silent_p.S157S	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	157	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		GAAGACTCACGCTGTAGTTGG	0.592													77	12					0	0	1	0	0		A	4556000	A	A	4556000	2	1	103	1	0	0	0	0	0	0	0	1	14065	1101	38	1		1	SEMA6B	19	4556000	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	348447	4556000	54572983	1732	63681											
HSD11B1L	374875	broad.mit.edu	37	chr19	5687962	5687962	+	Frame_Shift_Del	DEL	G	-	-																															gccgcggcagcctgagcaccGgggggtgcccctccagtccc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:5687962delG	uc002mck.2	+	8	954	c.704delG	c.(703-705)CGGfs	p.R235fs	HSD11B1L_uc002mcu.2_3'UTR|HSD11B1L_uc002mcl.2_Frame_Shift_Del_p.R154fs|HSD11B1L_uc002mcm.2_3'UTR|HSD11B1L_uc002mcq.2_Frame_Shift_Del_p.R101fs|HSD11B1L_uc002mcr.2_3'UTR|HSD11B1L_uc002mcs.2_3'UTR|HSD11B1L_uc010dug.2_3'UTR|HSD11B1L_uc002mct.2_3'UTR|HSD11B1L_uc002mco.2_3'UTR|HSD11B1L_uc002mcn.2_3'UTR|HSD11B1L_uc002mcp.2_3'UTR|RPL36_uc002mcv.2_5'Flank|RPL36_uc002mcw.2_5'Flank	NM_198533	NP_940935	Q7Z5J1	DHI1L_HUMAN	short-chain dehydrogenase/reductase 10 isoform	235						extracellular region	binding|oxidoreductase activity				0						CCTGAGCACCGGGGGGTGCCC	0.682													5	1	---	---	---	---						.	-	5687962	-	-	5687962	7	5	103	1	0	1	0	1	0	0	0	0	7392	1116	39	0	893	0	HSD11B1L	19	5687962	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	1131962	5687962	53441021	1733	63682											
INSR	3643	broad.mit.edu	37	chr19	7143042	7143042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggggaaagctgccaccGtgggcacggccaccgtcaca	8	6	14	13	3	1	0	1	0	0	0	1	1	1	1	4	4	2	3	4	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:7143042G>A	uc002mgd.1	-	12	2436	c.2327C>T	c.(2326-2328)ACG>ATG	p.T776M	INSR_uc002mge.1_Missense_Mutation_p.T764M	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	776	Fibronectin type-III 2.|Extracellular (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AGCTGCCACCGTGGGCACGGC	0.582													22	37					0	0	1	0	0		A	7143042	A	A	7143042	3	1	103	1	0	0	0	0	1	0	0	0	7789	1145	40	1	1865	1	INSR	19	7143042	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1455080	7143042	51985941	1734	63683											
INSR	3643	broad.mit.edu	37	chr19	7170609	7170609	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcctggcgccccttggtTcctgaaacttcttccatctt	4	15	6	16	1	3	1	0	1	3	0	6	1	5	1	5	2	1	1	5	2	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:7170609T>A	uc002mgd.1	-	6	1531	c.1422A>T	c.(1420-1422)GGA>GGT	p.G474G	INSR_uc002mge.1_Silent_p.G474G|INSR_uc002mgf.2_Silent_p.G474G	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	474					activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GCCCCTTGGTTCCTGAAACTT	0.428													12	200					0	0	1	0	0		A	7170609	A	A	7170609	2	1	103	1	0	0	0	0	0	0	0	1	7789	1770	62	5		5	INSR	19	7170609	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	27567	7170609	51958374	1735	63684											
ARHGEF18	23370	broad.mit.edu	37	chr19	7521235	7521235	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctggctatcctgctgacCgacgtacttttgctgctaca	7	13	8	13	2	0	1	0	1	0	0	2	2	2	1	3	1	5	5	3	1	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:7521235C>T	uc002mgi.2	+	8	1816	c.1563C>T	c.(1561-1563)ACC>ACT	p.T521T	ARHGEF18_uc010xjm.1_Silent_p.T363T|ARHGEF18_uc002mgh.2_Silent_p.T363T|ARHGEF18_uc002mgj.1_Silent_p.T164T	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	521	PH.				actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				TCCTGCTGACCGACGTACTTT	0.458													350	80					0	0	1	0	0		T	7521235	T	T	7521235	2	4	103	1	0	0	0	0	0	0	0	1	901	639	23	1		1	ARHGEF18	19	7521235	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	350626	7521235	51607748	1736	63685											
ZNF358	140467	broad.mit.edu	37	chr19	7585043	7585043	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccttcgggcagagctcggcGctgctgcagcaccagcgcac	6	5	14	16	4	0	1	0	0	0	1	2	1	0	1	2	2	5	7	2	2	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:7585043G>A	uc002mgn.2	+	2	1085	c.915G>A	c.(913-915)GCG>GCA	p.A305A	MCOLN1_uc010dvh.1_5'Flank|MCOLN1_uc002mgo.2_5'Flank|MCOLN1_uc002mgp.2_5'Flank	NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	305	C2H2-type 6.				embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						AGAGCTCGGCGCTGCTGCAGC	0.701													30	8					0	0	1	0	0		A	7585043	A	A	7585043	2	1	103	1	0	0	0	0	0	0	0	1	17892	1074	38	1		1	ZNF358	19	7585043	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	63808	7585043	51543940	1737	63686											
LRRC8E	80131	broad.mit.edu	37	chr19	7963631	7963631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgccagcaattgctgcctcGggggatccctgagcagattg	7	9	14	11	1	0	2	0	1	0	1	2	3	1	3	3	2	5	3	3	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:7963631G>A	uc002mir.2	+	3	325	c.224G>A	c.(223-225)CGG>CAG	p.R75Q		NM_025061	NP_079337	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member	75						integral to membrane				lung(1)|pancreas(1)	2						TTGCTGCCTCGGGGGATCCCT	0.507													113	20					0	0	1	0	0		A	7963631	A	A	7963631	3	1	103	1	0	0	0	0	1	0	0	0	9043	1116	39	1	230	1	LRRC8E	19	7963631	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	378588	7963631	51165352	1738	63687											
ADAMTS10	81794	broad.mit.edu	37	chr19	8651494	8651494	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcttcgaggctctggaccTggtctggcccctgtcgcagt	3	10	15	13	2	2	0	0	0	2	0	4	2	2	1	3	5	0	3	3	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:8651494T>C	uc002mkj.1	-	20	2625	c.2351A>G	c.(2350-2352)CAG>CGG	p.Q784R	ADAMTS10_uc002mki.1_Missense_Mutation_p.Q271R|ADAMTS10_uc002mkk.1_Missense_Mutation_p.Q416R	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	784	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						GCTCTGGACCTGGTCTGGCCC	0.617											OREG0025221	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	66	18					0	0	1	0	0		C	8651494	C	C	8651494	3	2	103	1	0	0	0	0	1	0	0	0	256	1580	55	3	988	3	ADAMTS10	19	8651494	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	687863	8651494	50477489	1739	63688											
MUC16	94025	broad.mit.edu	37	chr19	9083880	9083880	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggatggctggagtgtcCgggagtaaagtagggaagga	12	6	20	3	1	0	1	0	0	0	1	1	6	1	6	1	6	0	3	1	6	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:9083880C>T	uc002mkp.2	-	1	8139	c.7935G>A	c.(7933-7935)CCG>CCA	p.P2645P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2645	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGGAGTGTCCGGGAGTAAAG	0.493													10	25					0	0	1	0	0		T	9083880	T	T	9083880	2	4	103	1	0	0	0	0	0	0	0	1	9991	639	23	1		1	MUC16	19	9083880	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	432386	9083880	50045103	1740	63689											
OR1M1	125963	broad.mit.edu	37	chr19	9204168	9204168	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatccctaagatgctggTgagccttcaaaccgggagca	11	7	10	13	1	1	2	1	1	0	1	2	3	2	3	4	2	4	2	4	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:9204168T>C	uc010xkj.1	+	1	248	c.248T>C	c.(247-249)GTG>GCG	p.V83A		NM_001004456	NP_001004456	Q8NGA1	OR1M1_HUMAN	olfactory receptor, family 1, subfamily M,	83	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3						AAGATGCTGGTGAGCCTTCAA	0.532													38	21					0	0	1	0	0		C	9204168	C	C	9204168	3	2	103	1	0	0	0	0	1	0	0	0	10987	1696	59	3	250	3	OR1M1	19	9204168	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	120288	9204168	49924815	1741	63690											
C19orf66	55337	broad.mit.edu	37	chr19	10200705	10200705	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccacgtctggtggcgccgCgtgccccagcggaaggaggt	6	5	17	13	5	1	0	0	0	1	0	1	3	1	2	4	5	2	0	4	5	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:10200705C>T	uc002mmu.3	+	5	664	c.366C>T	c.(364-366)CGC>CGT	p.R122R	C19orf66_uc002mmv.3_Silent_p.R122R|C19orf66_uc002mmw.3_Silent_p.R71R	NM_018381	NP_060851	Q9NUL5	CS066_HUMAN	hypothetical protein LOC55337	122											0						GGTGGCGCCGCGTGCCCCAGC	0.577													3	10					0	0	1	0	0		T	10200705	T	T	10200705	2	4	103	1	0	0	0	0	0	0	0	1	1949	755	27	1		1	C19orf66	19	10200705	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	996537	10200705	48928278	1742	63691											
CDKN2D	1032	broad.mit.edu	37	chr19	10677960	10677960	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccccgtgctccactaggAccttcagggtgtccaggaat	8	8	11	14	1	1	0	1	0	0	0	3	2	3	2	5	3	2	1	5	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:10677960A>G	uc002mpa.2	-	2	577	c.275T>C	c.(274-276)GTC>GCC	p.V92A	KRI1_uc002mox.1_5'Flank|KRI1_uc002moy.1_5'Flank|CDKN2D_uc002mpb.2_Missense_Mutation_p.V92A	NM_001800	NP_001791	P55273	CDN2D_HUMAN	cyclin-dependent kinase inhibitor 2D	92	ANK 2.				anti-apoptosis|autophagic cell death|cell cycle arrest|DNA synthesis involved in DNA repair|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|negative regulation of caspase activity|negative regulation of cell growth|negative regulation of cell proliferation|regulation of cyclin-dependent protein kinase activity|response to retinoic acid|response to UV|response to vitamin D	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|protein kinase binding				0			Epithelial(33;1.58e-05)|all cancers(31;6.36e-05)			CTCCACTAGGACCTTCAGGGT	0.597									Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System				98	24					0	0	1	0	0		G	10677960	G	G	10677960	3	3	103	1	0	0	0	0	1	0	0	0	3169	275	10	3	229	3	CDKN2D	19	10677960	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	477255	10677960	48451023	1743	63692											
SLC44A2	57153	broad.mit.edu	37	chr19	10753993	10753994	+	Frame_Shift_Ins	INS	-	TAAG	TAAG																															tgacggctcggccgagaggcINScttacttcatgtcttccacc																								rs17403917		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:10753993_10753994insTAAG	uc002mpf.2	+	22	2192_2193	c.2053_2054insTAAG	c.(2053-2055)CCTfs	p.P685fs	SLC44A2_uc002mpe.3_Frame_Shift_Ins_p.P683fs|SLC44A2_uc002mpg.1_3'UTR|SLC44A2_uc002mph.2_Frame_Shift_Ins_p.P234fs|SLC44A2_uc002mpi.2_3'UTR	NM_020428	NP_065161	Q8IWA5	CTL2_HUMAN	solute carrier family 44, member 2 isoform 1	685	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane|plasma membrane	choline transmembrane transporter activity|signal transducer activity			ovary(1)	1			Epithelial(33;8.7e-06)|all cancers(31;2.77e-05)		Choline(DB00122)	GGCCGAGAGGCCTTACTTCATG	0.604													24	14	---	---	---	---						.	TAAG	10753994	TAAG	TAAG	10753993	7	5	103	1	0	1	1	0	0	0	0	0	14661	739	26	0	2174	0	SLC44A2	19	10753993	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	76033	10753993	48374990	1744	63693											
MAN2B1	4125	broad.mit.edu	37	chr19	12772078	12772078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtaggcgcactgacctgcGcatttaccagccggatgagc	8	7	14	12	3	0	2	0	2	0	0	0	3	0	3	3	3	4	3	3	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:12772078G>A	uc002mub.2	-	7	1098	c.1022C>T	c.(1021-1023)GCG>GTG	p.A341V	MAN2B1_uc010dyv.1_Missense_Mutation_p.A341V	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	341					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						ACTGACCTGCGCATTTACCAG	0.517													28	74					0	0	1	0	0		A	12772078	A	A	12772078	3	1	103	1	0	0	0	0	1	0	0	0	9234	1087	38	1	2085	1	MAN2B1	19	12772078	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2018085	12772078	46356905	1745	63694											
PRDX2	7001	broad.mit.edu	37	chr19	12910705	12910705	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctgtgtactggaaggccTggaccagccgcagagcctca	8	7	13	13	2	2	1	1	0	1	1	2	3	2	3	4	3	3	2	4	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:12910705T>C	uc002mvd.2	-	5	629	c.479A>G	c.(478-480)CAG>CGG	p.Q160R		NM_005809	NP_005800	P32119	PRDX2_HUMAN	peroxiredoxin 2 isoform a	160	Thioredoxin.				anti-apoptosis|cell redox homeostasis|hydrogen peroxide catabolic process|removal of superoxide radicals		thioredoxin peroxidase activity				0						CTGGAAGGCCTGGACCAGCCG	0.502													66	15					0	0	1	0	0		C	12910705	C	C	12910705	3	2	103	1	0	0	0	0	1	0	0	0	12487	1580	55	3	125	3	PRDX2	19	12910705	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	138627	12910705	46218278	1746	63695											
GCDH	2639	broad.mit.edu	37	chr19	13008170	13008170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgattcagaagaagctggCagacatgctcactgagatta	13	9	11	8	0	2	5	2	2	0	4	2	6	2	5	0	1	2	4	0	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:13008170C>T	uc002mvq.2	+	10	1087	c.1010C>T	c.(1009-1011)GCA>GTA	p.A337V	GCDH_uc010xms.1_Missense_Mutation_p.A304V|GCDH_uc002mvp.2_Missense_Mutation_p.A337V|GCDH_uc010xmt.1_Missense_Mutation_p.A171V|GCDH_uc010xmu.1_Missense_Mutation_p.A293V	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a	337					lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						AAGAAGCTGGCAGACATGCTC	0.622													17	36					0	0	1	0	0		T	13008170	T	T	13008170	3	4	103	1	0	0	0	0	1	0	0	0	6302	710	25	2	1044	2	GCDH	19	13008170	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	97465	13008170	46120813	1747	63696											
NACC1	112939	broad.mit.edu	37	chr19	13248179	13248181	+	In_Frame_Del	DEL	CTT	-	-																															ctgcggcggctcctggcctcCttctttgaccggtaaggccc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:13248179_13248181delCTT	uc002mwm.2	+	4	1383_1385	c.1215_1217delCTT	c.(1213-1218)TCCTTC>TCC	p.F407del		NM_052876	NP_443108	Q96RE7	NACC1_HUMAN	transcriptional repressor NAC1	407	BEN.				negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|protein homooligomerization|transcription, DNA-dependent	cytoplasm|nuclear body					0						TCCTGGCCTCCTTCTTTGACCGG	0.65													57	21	---	---	---	---						.	-	13248181	-	-	13248179	7	5	103	1	0	1	0	1	0	0	0	0	10153	668	24	0	1225	0	NACC1	19	13248179	In_Frame_Del	DEL	CTT	TCGA-BR-A4QL-01A-31D-A25D-08	240009	13248179	45880804	1748	63697											
CACNA1A	773	broad.mit.edu	37	chr19	13395983	13395983	+	Frame_Shift_Del	DEL	T	-	-																															tcctccttcttctcttcctcTttttttggcagtgggtctgg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:13395983delT	uc010dze.2	-	21	3830	c.3594delA	c.(3592-3594)AAAfs	p.K1198fs	CACNA1A_uc010dzc.2_Frame_Shift_Del_p.K723fs|CACNA1A_uc002mwy.3_Frame_Shift_Del_p.K1197fs|CACNA1A_uc010xne.1_Frame_Shift_Del_p.K726fs	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1198	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	tctcttcctcttTTTTTGGCA	0.453													55	27	---	---	---	---						.	-	13395983	-	-	13395983	7	5	103	1	0	1	0	1	0	0	0	0	2541	1606	56	0	4139	0	CACNA1A	19	13395983	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	147804	13395983	45733000	1749	63698											
CC2D1A	54862	broad.mit.edu	37	chr19	14034191	14034191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgactttgccctggtccagCggcctggcccgggtctgtct	3	10	13	15	3	2	0	0	0	2	0	3	1	3	0	4	4	2	0	4	4	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:14034191C>T	uc002mxo.2	+	15	1986	c.1687C>T	c.(1687-1689)CGG>TGG	p.R563W	CC2D1A_uc002mxp.2_Missense_Mutation_p.R563W|CC2D1A_uc010dzh.2_Missense_Mutation_p.R132W|CC2D1A_uc002mxq.1_Missense_Mutation_p.R208W	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	563					positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			CCTGGTCCAGCGGCCTGGCCC	0.687													4	80					0	0	1	0	0		T	14034191	T	T	14034191	3	4	103	1	0	0	0	0	1	0	0	0	2729	759	27	1	1745	1	CC2D1A	19	14034191	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	638208	14034191	45094792	1750	63699											
PRKACA	5566	broad.mit.edu	37	chr19	14217673	14217673	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgccgagggtcttgattcGttcaaactgatccaagtggg	8	11	13	9	3	2	2	1	2	1	0	4	3	3	2	2	2	2	1	2	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:14217673G>A	uc002myc.2	-	3	336	c.136C>T	c.(136-138)CGA>TGA	p.R46*	PRKACA_uc002myb.2_Nonsense_Mutation_p.R38*|PRKACA_uc010xnm.1_Translation_Start_Site|PRKACA_uc002myd.2_Translation_Start_Site	NM_002730	NP_002721	P17612	KAPCA_HUMAN	cAMP-dependent protein kinase catalytic subunit	46	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|regulation of insulin secretion|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|cAMP-dependent protein kinase inhibitor activity|protein kinase binding			lung(1)	1						GTCTTGATTCGTTCAAACTGA	0.602													66	18					0	0	1	0	0		A	14217673	A	A	14217673	4	1	103	1	0	0	0	0	0	1	0	0	12519	1153	40	1	951	1	PRKACA	19	14217673	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	183482	14217673	44911310	1751	63700											
BRD4	23476	broad.mit.edu	37	chr19	15355182	15355182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgatggggtcaaagacgctgCctgggagctggggctccagg	7	6	18	10	2	1	1	1	0	0	1	2	3	2	2	2	6	2	3	2	6	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:15355182C>T	uc002nar.2	-	13	2663	c.2441G>A	c.(2440-2442)GGC>GAC	p.G814D		NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	814					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			AAAGACGCTGCCTGGGAGCTG	0.667			T	NUT|C15orf55	lethal midline carcinoma of young people								3	13					0	0	1	0	0		T	15355182	T	T	15355182	3	4	103	1	0	0	0	0	1	0	0	0	1507	739	26	2	1679	2	BRD4	19	15355182	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1137509	15355182	43773801	1752	63701											
WIZ	58525	broad.mit.edu	37	chr19	15536330	15536330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcacgggcccaggggccacgGtgggaggcccgtcctcagcc	5	3	17	16	3	1	0	1	0	0	0	2	1	2	1	5	6	1	1	5	6	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:15536330G>A	uc002nbc.2	-	5	1876	c.1853C>T	c.(1852-1854)ACC>ATC	p.T618I	WIZ_uc002nba.3_Missense_Mutation_p.T485I|WIZ_uc002nbb.3_Missense_Mutation_p.T444I	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	1301						nucleus	zinc ion binding				0						AGGGGCCACGGTGGGAGGCCC	0.697													8	8					0	0	1	0	0		A	15536330	A	A	15536330	3	1	103	1	0	0	0	0	1	0	0	0	17401	1261	44	4	1069	4	WIZ	19	15536330	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	181148	15536330	43592653	1753	63702											
CYP4F12	66002	broad.mit.edu	37	chr19	15795637	15795637	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctcttcaggatgaagatggGaaggcattgtcagatgagga	12	10	14	5	0	3	4	2	2	1	2	4	7	3	7	0	4	0	1	0	4	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:15795637G>A	uc002nbl.2	+	8	991	c.930G>A	c.(928-930)GGG>GGA	p.G310G		NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					ATGAAGATGGGAAGGCATTGT	0.388													22	40					0	0	1	0	0		A	15795637	A	A	15795637	2	1	103	1	0	0	0	0	0	0	0	1	4190	1161	41	4		4	CYP4F12	19	15795637	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	259307	15795637	43333346	1754	63703											
HSH2D	84941	broad.mit.edu	37	chr19	16268143	16268143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcccctcttggagagaccCgccagaaactctggaggagc	11	6	11	13	1	2	2	0	0	2	2	3	6	3	5	4	3	2	0	4	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:16268143C>T	uc002ndp.3	+	8	1129	c.598C>T	c.(598-600)CGC>TGC	p.R200C	HSH2D_uc002ndr.2_Missense_Mutation_p.R143C|HSH2D_uc010ead.2_RNA	NM_032855	NP_116244	Q96JZ2	HSH2D_HUMAN	hematopoietic SH2 domain containing	200						cytoplasm|nucleus					0						TGGAGAGACCCGCCAGAAACT	0.552													21	31					0	0	1	0	0		T	16268143	T	T	16268143	3	4	103	1	0	0	0	0	1	0	0	0	7416	652	23	1	616	1	HSH2D	19	16268143	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	472506	16268143	42860840	1755	63704											
CPAMD8	27151	broad.mit.edu	37	chr19	17100545	17100545	+	Frame_Shift_Del	DEL	C	-	-																															gtagctgggcaggtactgagCccccacaggcttcccgttca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:17100545delC	uc002nfb.2	-	13	1476	c.1444delG	c.(1444-1446)GCTfs	p.A482fs		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	435						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						AGGTACTGAGCCCCCACAGGC	0.592													16	32	---	---	---	---						.	-	17100545	-	-	17100545	7	5	103	1	0	1	0	1	0	0	0	0	3798	739	26	0	4474	0	CPAMD8	19	17100545	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	832402	17100545	42028438	1756	63705											
ABHD8	79575	broad.mit.edu	37	chr19	17411739	17411739	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcgcatgtcctcagccagCgcatagaaggtgtaggctgc	8	8	13	12	2	1	1	1	0	0	1	3	1	2	1	2	2	3	5	2	2	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:17411739C>T	uc002ngb.3	-	2	927	c.687G>A	c.(685-687)GCG>GCA	p.A229A		NM_024527	NP_078803	Q96I13	ABHD8_HUMAN	abhydrolase domain containing 8	229							hydrolase activity				0						CCTCAGCCAGCGCATAGAAGG	0.602													50	72					0	0	1	0	0		T	17411739	T	T	17411739	2	4	103	1	0	0	0	0	0	0	0	1	87	755	27	1		1	ABHD8	19	17411739	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	311194	17411739	41717244	1757	63706											
GLT25D1	79709	broad.mit.edu	37	chr19	17683348	17683348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gattcttgccagtgccattgCgcgcccacagcaccctccag	7	8	9	17	2	1	0	0	0	1	0	2	1	2	0	5	0	4	1	5	0	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:17683348C>T	uc002nhc.1	+	6	898	c.886C>T	c.(886-888)CGC>TGC	p.R296C	GLT25D1_uc010eax.1_Intron	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	296					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0						AGTGCCATTGCGCGCCCACAG	0.557													33	70					0	0	1	0	0		T	17683348	T	T	17683348	3	4	103	1	0	0	0	0	1	0	0	0	6481	768	27	1	908	1	GLT25D1	19	17683348	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	271609	17683348	41445635	1758	63707											
B3GNT3	10331	broad.mit.edu	37	chr19	17922600	17922600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtgactcagaatgagcGgtacccaccctattgtgggg	8	9	15	9	1	1	3	1	2	0	1	1	3	1	3	2	5	2	1	2	5	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:17922600G>A	uc002nhk.1	+	3	873	c.788G>A	c.(787-789)CGG>CAG	p.R263Q	B3GNT3_uc002nhl.1_Missense_Mutation_p.R263Q|B3GNT3_uc010ebd.1_Missense_Mutation_p.R263Q|B3GNT3_uc010ebe.1_Missense_Mutation_p.R263Q	NM_014256	NP_055071	Q9Y2A9	B3GN3_HUMAN	UDP-GlcNAc:betaGal	263	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to plasma membrane	galactosyltransferase activity			upper_aerodigestive_tract(1)	1						CAGAATGAGCGGTACCCACCC	0.602													33	45					0	0	1	0	0		A	17922600	A	A	17922600	3	1	103	1	0	0	0	0	1	0	0	0	1259	1116	39	1	794	1	B3GNT3	19	17922600	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	239252	17922600	41206383	1759	63708											
JAK3	3718	broad.mit.edu	37	chr19	17948862	17948862	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgaaggacccatggcccAggttctcatgctgaatggtg	8	10	14	9	0	1	2	1	2	1	0	2	3	1	3	2	5	1	2	2	5	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:17948862A>C	uc002nhn.3	-	12	1680	c.1580T>G	c.(1579-1581)CTG>CGG	p.L527R	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Missense_Mutation_p.L527R	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	527	Protein kinase 1.		L -> P (in a gastric adenocarcinoma sample; somatic mutation).		B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding	p.L527P(1)		haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						CCCATGGCCCAGGTTCTCATG	0.572		2	Mis		acute megakaryocytic leukemia|								44	52					0	0	1	0	0		C	17948862	C	C	17948862	3	2	103	1	0	0	0	0	1	0	0	0	7955	188	7	5	1846	5	JAK3	19	17948862	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	26262	17948862	41180121	1760	63709											
KCNN1	3780	broad.mit.edu	37	chr19	18092827	18092827	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacaagatcaccttcaacAcgcgcttcgtcatgaagaca	14	8	6	13	3	4	3	4	1	0	2	5	3	4	3	1	0	2	1	1	0	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:18092827A>G	uc002nht.2	+	5	1118	c.808A>G	c.(808-810)ACG>GCG	p.T270A	KCNN1_uc010xqa.1_Missense_Mutation_p.T270A	NM_002248	NP_002239	Q92952	KCNN1_HUMAN	potassium intermediate/small conductance	270					synaptic transmission	voltage-gated potassium channel complex	calmodulin binding|small conductance calcium-activated potassium channel activity				0						CACCTTCAACACGCGCTTCGT	0.612													5	7					0	0	1	0	0		G	18092827	G	G	18092827	3	3	103	1	0	0	0	0	1	0	0	0	8094	159	6	3	818	3	KCNN1	19	18092827	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	143965	18092827	41036156	1761	63710											
KIAA1683	80726	broad.mit.edu	37	chr19	18378115	18378115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagcccggaggcgtgggaCgcggcgggacgccgtcttgc	5	4	18	14	7	1	0	0	0	1	0	1	3	1	3	2	5	2	0	2	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:18378115C>T	uc002nin.2	-	3	451	c.235G>A	c.(235-237)GTC>ATC	p.V79I	KIAA1683_uc010ebn.2_Missense_Mutation_p.V79I|KIAA1683_uc010xqe.1_Missense_Mutation_p.V33I	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	79						mitochondrion				ovary(2)	2						AGGCGTGGGACGCGGCGGGAC	0.632													7	96					0	0	1	0	0		T	18378115	T	T	18378115	3	4	103	1	0	0	0	0	1	0	0	0	8267	536	19	1	3876	1	KIAA1683	19	18378115	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	285288	18378115	40750868	1762	63711											
GDF15	9518	broad.mit.edu	37	chr19	18499097	18499097	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatctgtcttcccacagtGcggctgggatccggcggcca	5	9	12	15	3	2	0	0	0	2	0	4	1	4	1	4	4	1	1	4	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:18499097G>A	uc002niv.2	+	2	311	c.279G>A	c.(277-279)GTG>GTA	p.V93V		NM_004864	NP_004855	Q99988	GDF15_HUMAN	growth differentiation factor 15	93					cell-cell signaling|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			central_nervous_system(1)	1						TTCCCACAGTGCGGCTGGGAT	0.577											OREG0025363	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	24					0	0	1	0	0		A	18499097	A	A	18499097	2	1	103	1	0	0	0	0	0	0	0	1	6328	1333	46	2		2	GDF15	19	18499097	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	120982	18499097	40629886	1763	63712											
ELL	8178	broad.mit.edu	37	chr19	18569015	18569015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatgggaggcggcattacCggacgagcacccgcttcagc	8	5	16	12	4	1	0	1	0	0	0	1	4	1	3	2	5	3	3	2	5	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:18569015C>T	uc002njh.2	-	6	941	c.869G>A	c.(868-870)CGG>CAG	p.R290Q	ELL_uc010ebq.2_Missense_Mutation_p.R233Q|ELL_uc002njg.2_Missense_Mutation_p.R157Q	NM_006532	NP_006523	P55199	ELL_HUMAN	elongation factor RNA polymerase II	290					positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	Cajal body|nuclear speck|transcription elongation factor complex	protein binding			lung(1)	1				GBM - Glioblastoma multiforme(1328;7.81e-07)		GCGGCATTACCGGACGAGCAC	0.627			T	MLL	AL								21	35					0	0	1	0	0		T	18569015	T	T	18569015	3	4	103	1	0	0	0	0	1	0	0	0	5070	666	23	1	1024	1	ELL	19	18569015	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	69918	18569015	40559968	1764	63713											
KLHL26	55295	broad.mit.edu	37	chr19	18779108	18779108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacgagatgcagtctccgCgcaccgccgtgcgctcggat	7	6	13	15	7	1	1	0	0	1	1	3	3	1	2	3	1	3	4	3	1	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:18779108C>T	uc002njz.1	+	3	928	c.901C>T	c.(901-903)CGC>TGC	p.R301C		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	301										ovary(1)	1						GCAGTCTCCGCGCACCGCCGT	0.662													30	45					0	0	1	0	0		T	18779108	T	T	18779108	3	4	103	1	0	0	0	0	1	0	0	0	8397	768	27	1	911	1	KLHL26	19	18779108	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	210093	18779108	40349875	1765	63714											
SFRS14	10147	broad.mit.edu	37	chr19	19112468	19112468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggcctgtcataggcaattCgaactggttcatggactaga	11	10	12	8	1	2	1	2	0	0	1	3	4	2	2	1	4	1	2	1	4	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:19112468C>T	uc002nkx.2	-	8	3091	c.2945G>A	c.(2944-2946)CGA>CAA	p.R982Q	SFRS14_uc002nkz.1_Missense_Mutation_p.R996Q|SFRS14_uc002nla.1_Missense_Mutation_p.R982Q|SFRS14_uc002nlb.2_Missense_Mutation_p.R982Q|SFRS14_uc010xqk.1_Missense_Mutation_p.R751Q	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	982					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			ATAGGCAATTCGAACTGGTTC	0.403													25	34					0	0	1	0	0		T	19112468	T	T	19112468	3	4	103	1	0	0	0	0	1	0	0	0	14195	884	31	1	315	1	SFRS14	19	19112468	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	333360	19112468	40016515	1766	63715											
HAPLN4	404037	broad.mit.edu	37	chr19	19371881	19371881	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgccgtcgtgaccgtgggcGgctgcctcatagtggtagcg	5	8	16	12	6	1	1	1	1	0	0	2	1	1	1	3	3	2	2	3	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:19371881G>A	uc002nmb.2	-	3	280	c.225C>T	c.(223-225)GCC>GCT	p.A75A	HAPLN4_uc002nmc.2_Silent_p.A75A	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	75	Ig-like C2-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			GACCGTGGGCGGCTGCCTCAT	0.662													17	21					0	0	1	0	0		A	19371881	A	A	19371881	2	1	103	1	0	0	0	0	0	0	0	1	6973	1103	39	1		1	HAPLN4	19	19371881	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	259413	19371881	39757102	1767	63716											
ATP13A1	57130	broad.mit.edu	37	chr19	19762529	19762529	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggctgcaggatcagcgtGtgggccttttcaatgaagtg	8	10	16	7	1	2	1	2	1	0	0	2	3	2	3	1	4	2	2	1	4	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:19762529G>A	uc002nnh.3	-	17	2332	c.2304C>T	c.(2302-2304)CAC>CAT	p.H768H	ATP13A1_uc002nne.2_5'UTR|ATP13A1_uc002nnf.3_Silent_p.H136H|ATP13A1_uc002nng.2_Silent_p.H650H	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	768	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						GGATCAGCGTGTGGGCCTTTT	0.612													24	22					0	0	1	0	0		A	19762529	A	A	19762529	2	1	103	1	0	0	0	0	0	0	0	1	1124	1368	48	4		4	ATP13A1	19	19762529	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	390648	19762529	39366454	1768	63717											
ZNF90	7643	broad.mit.edu	37	chr19	20236314	20236314	+	RNA	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccatcatgactatcaaaaTtcacctgtataataaacagt	16	11	4	10	0	3	1	3	1	0	0	3	1	3	1	2	0	1	1	2	0	7	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:20236314T>A	uc002nos.1	+	5		c.990T>A			ZNF90_uc002not.1_RNA			Q03938	ZNF90_HUMAN	Synthetic construct DNA, clone: pF1KB9685, Homo sapiens ZNF90 gene for zinc finger protein 90, without stop codon, in Flexi system.							Golgi apparatus|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						ACTATCAAAATTCACCTGTAT	0.388													6	14					0	0	1	0	0		A	20236314	A	A	20236314	1	1	103	0	1	0	0	0	0	0	0	0	18224	1508	52	5		5	ZNF90	19	20236314	RNA	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	473785	20236314	38892669	1769	63718											
C19orf2	8725	broad.mit.edu	37	chr19	30500156	30500156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgatgatgacgacgacgacGacaacattgacgacgatgat	15	7	11	8	6	0	5	0	5	0	0	0	11	0	5	0	0	1	0	0	0	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:30500156G>A	uc002nsr.2	+	8	961	c.931G>A	c.(931-933)GAC>AAC	p.D311N	C19orf2_uc002nsq.2_Missense_Mutation_p.D293N|C19orf2_uc002nss.2_Missense_Mutation_p.D271N|C19orf2_uc002nst.2_Missense_Mutation_p.D235N	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	311	Poly-Asp.			Missing (in Ref. 1; AAD08679, 2; BAF84859 and 4; BAA34781).	protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		cgacgacgacgacaacattga	0.254													11	20					0	0	1	0	0		A	30500156	A	A	30500156	3	1	103	1	0	0	0	0	1	0	0	0	1914	1058	37	1	961	1	C19orf2	19	30500156	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	10263842	30500156	28628827	1770	63719											
ZNF536	9745	broad.mit.edu	37	chr19	30934862	30934862	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaagaaccgcaagtacccGtgcccactctgcggcaagcg	10	4	11	16	5	1	1	0	0	1	1	1	1	1	1	3	1	5	4	3	1	5	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:30934862G>A	uc002nsu.1	+	2	531	c.393G>A	c.(391-393)CCG>CCA	p.P131P	ZNF536_uc010edd.1_Silent_p.P131P	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	131	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCAAGTACCCGTGCCCACTCT	0.627													24	22					0	0	1	0	0		A	30934862	A	A	30934862	2	1	103	1	0	0	0	0	0	0	0	1	17999	1132	40	1		1	ZNF536	19	30934862	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	434706	30934862	28194121	1771	63720											
TSHZ3	57616	broad.mit.edu	37	chr19	31767913	31767913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agatatgcatccgctcctggGggctcaggtctgacatgatg	8	10	13	10	1	2	3	1	2	1	1	4	3	4	3	2	3	1	3	2	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:31767913G>A	uc002nsy.3	-	2	2851	c.2786C>T	c.(2785-2787)CCC>CTC	p.P929L		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	929	Homeobox; atypical.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CCGCTCCTGGGGGCTCAGGTC	0.592													17	26					0	0	1	0	0		A	31767913	A	A	31767913	3	1	103	1	0	0	0	0	1	0	0	0	16651	1232	43	4	463	4	TSHZ3	19	31767913	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	833051	31767913	27361070	1772	63721											
KIAA0355	9710	broad.mit.edu	37	chr19	34833075	34833075	+	Frame_Shift_Del	DEL	C	-	-																															agcccattggaccgcagcagCccccgccccagcctcgggca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:34833075delC	uc002nvd.3	+	10	3095	c.2236delC	c.(2236-2238)CCCfs	p.P746fs		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	746										ovary(1)	1	Esophageal squamous(110;0.162)					ACCGCAGCAGCCCCCGCCCCA	0.627													89	163	---	---	---	---						.	-	34833075	-	-	34833075	7	5	103	1	0	1	0	1	0	0	0	0	8186	739	26	0	2270	0	KIAA0355	19	34833075	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	3065162	34833075	24295908	1773	63722											
ATP4A	495	broad.mit.edu	37	chr19	36046232	36046232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccgtgacggccacaatcGcaccctgcaggcagtgggtg	7	5	13	16	3	0	1	0	1	0	0	1	1	0	1	4	3	1	3	4	3	1	0	rs145835787		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:36046232G>A	uc002oal.1	-	15	2191	c.2162C>T	c.(2161-2163)GCG>GTG	p.A721V	ATP4A_uc010eee.1_5'UTR	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	721	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	GGCCACAATCGCACCCTGCAG	0.642													8	23					0	0	1	0	0		A	36046232	A	A	36046232	3	1	103	1	0	0	0	0	1	0	0	0	1146	1087	38	1	977	1	ATP4A	19	36046232	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1213157	36046232	23082751	1774	63723											
HAUS5	23354	broad.mit.edu	37	chr19	36106176	36106176	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acactcaagacacccagcgtCgagctctcctcctccgggcc	8	6	8	19	3	2	1	1	0	1	1	6	2	4	1	5	1	2	1	5	1	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:36106176C>T	uc002oam.1	+	6	424	c.373C>T	c.(373-375)CGA>TGA	p.R125*		NM_015302	NP_056117	O94927	HAUS5_HUMAN	HAUS augmin-like complex, subunit 5	125					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle					0						CACCCAGCGTCGAGCTCTCCT	0.632													6	18					0	0	1	0	0		T	36106176	T	T	36106176	4	4	103	1	0	0	0	0	0	1	0	0	6985	876	31	1	395	1	HAUS5	19	36106176	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	59944	36106176	23022807	1775	63724											
MLL4	9757	broad.mit.edu	37	chr19	36223432	36223432	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgacctggacttcgcGgccagcctgctggggactga	5	8	15	13	2	0	2	0	2	0	0	1	4	0	4	3	4	3	3	3	4	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:36223432G>A	uc010eei.2	+	29	5982	c.5982G>A	c.(5980-5982)GCG>GCA	p.A1994A		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1994					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGGACTTCGCGGCCAGCCTGC	0.677													16	40					0	0	1	0	0		A	36223432	A	A	36223432	2	1	103	1	0	0	0	0	0	0	0	1	9641	1103	39	1		1	MLL4	19	36223432	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	117256	36223432	22905551	1776	63725											
MLL4	9757	broad.mit.edu	37	chr19	36228635	36228635	+	Frame_Shift_Del	DEL	G	-	-																															agaggatgaggtgcagctcaGgtcaaccaggtatggagtgt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:36228635delG	uc010eei.2	+	35	7649	c.7649delG	c.(7648-7650)AGGfs	p.R2550fs		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2550					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GTGCAGCTCAGGTCAACCAGG	0.597													2	4	---	---	---	---						.	-	36228635	-	-	36228635	7	5	103	1	0	1	0	1	0	0	0	0	9641	1000	35	0	7783	0	MLL4	19	36228635	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	5203	36228635	22900348	1777	63726											
TMEM149	79713	broad.mit.edu	37	chr19	36230720	36230720	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtgggtgttggggactccGcagaccaagccaggataggg	8	7	18	8	1	0	1	0	0	0	1	1	3	1	3	3	5	1	2	3	5	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:36230720G>A	uc002obc.2	-	4	713	c.612C>T	c.(610-612)TGC>TGT	p.C204C	TMEM149_uc002obb.2_Intron|TMEM149_uc002obd.3_Silent_p.C204C|TMEM149_uc010xsy.1_RNA|TMEM149_uc010eej.2_Silent_p.C284C	NM_024660	NP_078936	Q9H665	IGFR1_HUMAN	transmembrane protein 149 precursor	204	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding|receptor activity				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGGGGACTCCGCAGACCAAGC	0.602													58	91					0	0	1	0	0		A	36230720	A	A	36230720	2	1	103	1	0	0	0	0	0	0	0	1	16087	1079	38	1		1	TMEM149	19	36230720	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2085	36230720	22898263	1778	63727											
NPHS1	4868	broad.mit.edu	37	chr19	36333366	36333366	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagcgccagcctgggccagTttggcatggtgaatccgcag	8	8	14	11	2	0	1	0	1	0	0	1	1	1	1	4	3	2	3	4	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:36333366T>C	uc002oby.2	-	18	2421	c.2421A>G	c.(2419-2421)AAA>AAG	p.K807K		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	807	Ig-like C2-type 7.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCTGGGCCAGTTTGGCATGGT	0.592													50	76					0	0	1	0	0		C	36333366	C	C	36333366	2	2	103	1	0	0	0	0	0	0	0	1	10601	1722	60	3		3	NPHS1	19	36333366	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	102646	36333366	22795617	1779	63728											
NPHS1	4868	broad.mit.edu	37	chr19	36339017	36339017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcacccgggtcccagcccGgagcttctggccctctgggg	3	7	13	18	2	3	0	1	0	2	0	4	1	4	1	5	5	2	1	5	5	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:36339017G>A	uc002oby.2	-	11	1366	c.1366C>T	c.(1366-1368)CGG>TGG	p.R456W		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	456	Extracellular (Potential).|Ig-like C2-type 5.				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GTCCCAGCCCGGAGCTTCTGG	0.622													28	71					0	0	1	0	0		A	36339017	A	A	36339017	3	1	103	1	0	0	0	0	1	0	0	0	10601	1115	39	1	2435	1	NPHS1	19	36339017	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5651	36339017	22789966	1780	63729											
KIRREL2	84063	broad.mit.edu	37	chr19	36351456	36351456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccggtgctcggggcccGcgggccaaggttagaggtcg	4	7	17	13	5	1	1	0	0	1	1	4	1	1	1	3	6	1	2	3	6	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:36351456G>A	uc002ocb.3	+	7	1027	c.815G>A	c.(814-816)CGC>CAC	p.R272H	KIRREL2_uc002obz.3_Missense_Mutation_p.R272H|KIRREL2_uc002oca.3_Missense_Mutation_p.R222H|KIRREL2_uc002occ.3_Missense_Mutation_p.R219H|KIRREL2_uc002ocd.3_Missense_Mutation_p.R269H	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	272	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTCGGGGCCCGCGGGCCAAGG	0.652													34	52					0	0	1	0	0		A	36351456	A	A	36351456	3	1	103	1	0	0	0	0	1	0	0	0	8341	1087	38	1	841	1	KIRREL2	19	36351456	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	12439	36351456	22777527	1781	63730											
APLP1	333	broad.mit.edu	37	chr19	36370282	36370282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaggagcagcagctccGcgaactgcagcggcacggct	8	4	15	14	4	0	0	0	0	0	0	1	3	1	2	2	4	6	6	2	4	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:36370282G>A	uc002oce.2	+	17	2030	c.1892G>A	c.(1891-1893)CGC>CAC	p.R631H	APLP1_uc010xsz.1_Missense_Mutation_p.R592H|APLP1_uc002ocf.2_Missense_Mutation_p.R632H|APLP1_uc002ocg.2_Missense_Mutation_p.R535H|APLP1_uc010xta.1_Missense_Mutation_p.R625H	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	631	Cytoplasmic (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CAGCAGCTCCGCGAACTGCAG	0.667													19	68					0	0	1	0	0		A	36370282	A	A	36370282	3	1	103	1	0	0	0	0	1	0	0	0	778	1087	38	1	1961	1	APLP1	19	36370282	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	18826	36370282	22758701	1782	63731											
ZNF567	163081	broad.mit.edu	37	chr19	37211524	37211524	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttataagagaaacctcaTtgtccatcaaagaactcaca	17	9	5	10	0	3	2	3	0	0	2	4	3	4	2	2	0	2	1	2	0	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:37211524T>G	uc010xtl.1	+	6	2120	c.1898T>G	c.(1897-1899)ATT>AGT	p.I633S	ZNF567_uc002oep.3_Missense_Mutation_p.I602S|ZNF567_uc002oeq.1_Intron	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	633	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AGAAACCTCATTGTCCATCAA	0.333													27	32					0	0	1	0	0		G	37211524	G	G	37211524	3	3	103	1	0	0	0	0	1	0	0	0	18023	1493	52	5	1815	5	ZNF567	19	37211524	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	841242	37211524	21917459	1783	63732											
ZNF607	84775	broad.mit.edu	37	chr19	38190535	38190535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacattcataaggtttctcaCgagcattaattttctgatgc	11	15	6	9	1	3	1	2	1	2	0	4	2	3	1	0	1	2	2	0	1	2	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:38190535C>T	uc002ohc.1	-	5	1093	c.497G>A	c.(496-498)CGT>CAT	p.R166H	ZNF607_uc002ohb.1_Missense_Mutation_p.R165H	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	166					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			AGGTTTCTCACGAGCATTAAT	0.383													32	54					0	0	1	0	0		T	38190535	T	T	38190535	3	4	103	1	0	0	0	0	1	0	0	0	18058	536	19	1	1597	1	ZNF607	19	38190535	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	979011	38190535	20938448	1784	63733											
MAP4K1	11184	broad.mit.edu	37	chr19	39108029	39108029	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtaggccacgatgttggcGtgccggcaagttttcaatat	8	12	13	8	3	1	0	1	0	0	0	1	1	1	0	2	4	1	4	2	4	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:39108029G>A	uc002oix.1	-	3	321	c.213C>T	c.(211-213)CAC>CAT	p.H71H	MAP4K1_uc002oiy.1_Silent_p.H71H|EIF3K_uc010xuh.1_5'Flank|EIF3K_uc002oiz.1_5'Flank|EIF3K_uc010xui.1_5'Flank	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	71	Protein kinase.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CGATGTTGGCGTGCCGGCAAG	0.557													28	46					0	0	1	0	0		A	39108029	A	A	39108029	2	1	103	1	0	0	0	0	0	0	0	1	9277	1136	40	1		1	MAP4K1	19	39108029	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	917494	39108029	20020954	1785	63734											
CAPN12	147968	broad.mit.edu	37	chr19	39233692	39233692	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggctcccctgacacacGtctgtgcggctcatgtcttc	5	10	9	17	2	3	1	1	1	2	0	5	1	4	1	3	2	1	2	3	2	0	1	rs149932497		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:39233692G>A	uc002ojd.1	-	2	597	c.288C>T	c.(286-288)GAC>GAT	p.D96D		NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	96	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			CCTGACACACGTCTGTGCGGC	0.522													25	48					0	0	1	0	0		A	39233692	A	A	39233692	2	1	103	1	0	0	0	0	0	0	0	1	2628	1136	40	1		1	CAPN12	19	39233692	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	125663	39233692	19895291	1786	63735											
LRFN1	57622	broad.mit.edu	37	chr19	39798594	39798594	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccttcgagggcccaccgcGgcccgagactcctccccgga	5	5	11	20	5	0	1	0	0	0	1	4	4	3	2	7	3	0	0	7	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:39798594G>A	uc002okw.2	-	2	1995	c.1995C>T	c.(1993-1995)GCC>GCT	p.A665A		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	665	Cytoplasmic (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane				ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			GGCCCACCGCGGCCCGAGACT	0.721													3	7					0	0	1	0	0		A	39798594	A	A	39798594	2	1	103	1	0	0	0	0	0	0	0	1	8955	1103	39	1		1	LRFN1	19	39798594	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	564902	39798594	19330389	1787	63736											
SUPT5H	6829	broad.mit.edu	37	chr19	39963854	39963854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccccaggggctcacggcGcccgggcggcatgacctcga	5	4	15	17	6	1	1	1	1	0	0	3	2	2	1	4	5	0	2	4	5	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:39963854G>A	uc002olo.3	+	24	2449	c.2270G>A	c.(2269-2271)CGC>CAC	p.R757H	SUPT5H_uc002olp.3_Missense_Mutation_p.R757H|SUPT5H_uc002olq.3_Missense_Mutation_p.R753H|SUPT5H_uc002oln.3_Missense_Mutation_p.R757H|SUPT5H_uc002olr.3_Missense_Mutation_p.R757H|SUPT5H_uc002ols.1_Missense_Mutation_p.R380H|SUPT5H_uc010egp.1_Silent_p.A122A	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	757	9 X 7 AA approximate tandem repeats of G- S-[QR]-T-P-X-[YQ], motif CTR1.|CTR1-1; approximate.				cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GGCTCACGGCGCCCGGGCGGC	0.667													24	34					0	0	1	0	0		A	39963854	A	A	39963854	3	1	103	1	0	0	0	0	1	0	0	0	15424	1087	38	1	2360	1	SUPT5H	19	39963854	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	165260	39963854	19165129	1788	63737											
FCGBP	8857	broad.mit.edu	37	chr19	40364397	40364397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcacagggcaggagtcacCgcagagctcatagtggctgt	9	7	14	11	1	3	1	3	0	0	1	3	2	3	2	1	3	1	5	1	3	1	1	rs148917660	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:40364397C>T	uc002omp.3	-	31	14253	c.14245G>A	c.(14245-14247)GGT>AGT	p.G4749S		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4749	TIL 11.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CAGGAGTCACCGCAGAGCTCA	0.647													15	21					0	0	1	0	0		T	40364397	T	T	40364397	3	4	103	1	0	0	0	0	1	0	0	0	5792	652	23	1	1996	1	FCGBP	19	40364397	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	400543	40364397	18764586	1789	63738											
FCGBP	8857	broad.mit.edu	37	chr19	40424533	40424533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagggagactggcaggcgcGagcgctggttgtcaacctgc	7	7	16	11	3	2	1	2	0	0	1	2	3	2	1	1	4	3	3	1	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:40424533G>A	uc002omp.3	-	4	1678	c.1670C>T	c.(1669-1671)TCG>TTG	p.S557L		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	557	VWFD 1.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			TGGCAGGCGCGAGCGCTGGTT	0.582													5	10					0	0	1	0	0		A	40424533	A	A	40424533	3	1	103	1	0	0	0	0	1	0	0	0	5792	1059	37	1	14679	1	FCGBP	19	40424533	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	60136	40424533	18704450	1790	63739											
HIPK4	147746	broad.mit.edu	37	chr19	40886655	40886655	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctggtgccttctcctctcGgaagaaggggctgctgccgg	5	9	14	13	2	2	1	0	0	2	1	4	2	2	2	4	5	3	2	4	5	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:40886655G>A	uc002onp.2	-	3	1528	c.1243C>T	c.(1243-1245)CGA>TGA	p.R415*		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	415						cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			TTCTCCTCTCGGAAGAAGGGG	0.632													35	69					0	0	1	0	0		A	40886655	A	A	40886655	4	1	103	1	0	0	0	0	0	1	0	0	7135	1124	39	1	615	1	HIPK4	19	40886655	Nonsense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	462122	40886655	18242328	1791	63740											
PRX	57716	broad.mit.edu	37	chr19	40900561	40900561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctgtggccgcctcgcccGcctgtgcctctcggcttagc	1	9	12	19	5	1	0	0	0	1	0	3	0	1	0	6	2	2	1	6	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:40900561G>A	uc002onr.2	-	7	3967	c.3698C>T	c.(3697-3699)GCG>GTG	p.A1233V	PRX_uc002onq.2_Missense_Mutation_p.A1094V|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	1233	Glu-rich (acidic).				axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CGCCTCGCCCGCCTGTGCCTC	0.682													27	34					0	0	1	0	0		A	40900561	A	A	40900561	3	1	103	1	0	0	0	0	1	0	0	0	12664	1087	38	1	691	1	PRX	19	40900561	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	13906	40900561	18228422	1792	63741											
LTBP4	8425	broad.mit.edu	37	chr19	41116547	41116547	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtaccaggctgcaccgcaCggagccagctgccagggtga	8	4	16	13	2	0	1	0	1	0	0	0	2	0	2	4	4	5	5	4	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:41116547C>G	uc002ooh.1	+	15	1995	c.1995C>G	c.(1993-1995)CAC>CAG	p.H665Q	LTBP4_uc002oog.1_Missense_Mutation_p.H628Q|LTBP4_uc002ooi.1_Missense_Mutation_p.H598Q|LTBP4_uc002ooj.1_5'UTR|LTBP4_uc010xvo.1_Missense_Mutation_p.T37R|LTBP4_uc010ehb.1_5'Flank|LTBP4_uc002ook.1_5'Flank|LTBP4_uc002ool.1_5'Flank	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	665	Cys-rich.|EGF-like 5; calcium-binding (Potential).				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CTGCACCGCACGGAGCCAGCT	0.687													6	11					0	0	1	0	0		G	41116547	G	G	41116547	3	3	103	1	0	0	0	0	1	0	0	0	9094	535	19	5	2346	5	LTBP4	19	41116547	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	215986	41116547	18012436	1793	63742											
LTBP4	8425	broad.mit.edu	37	chr19	41133678	41133678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctggacggctgcaccaacGgccgctgcgtgcgcgtcccc	4	6	13	18	6	0	0	0	0	0	0	2	1	2	1	5	3	4	3	5	3	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:41133678G>A	uc002ooh.1	+	33	4636	c.4636G>A	c.(4636-4638)GGC>AGC	p.G1546S	LTBP4_uc002oog.1_Missense_Mutation_p.G1509S|LTBP4_uc002ooi.1_Missense_Mutation_p.G1479S|LTBP4_uc002ooj.1_Missense_Mutation_p.G419S|LTBP4_uc002ook.1_Missense_Mutation_p.G680S|LTBP4_uc002ool.1_Missense_Mutation_p.G558S|LTBP4_uc010xvp.1_Missense_Mutation_p.G306S	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1546	EGF-like 15.			G -> D (in Ref. 1; CAA73944).	growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CTGCACCAACGGCCGCTGCGT	0.682													3	6					0	0	1	0	0		A	41133678	A	A	41133678	3	1	103	1	0	0	0	0	1	0	0	0	9094	1116	39	1	5054	1	LTBP4	19	41133678	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	17131	41133678	17995305	1794	63743											
NUMBL	9253	broad.mit.edu	37	chr19	41188655	41188655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggttttgtcgtccaccactCggagcccatcggctgacacc	6	10	10	15	3	0	1	0	1	0	0	4	2	1	2	4	3	1	2	4	3	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:41188655C>T	uc002oon.2	-	5	545	c.377G>A	c.(376-378)CGA>CAA	p.R126Q	NUMBL_uc010xvq.1_Missense_Mutation_p.R85Q|NUMBL_uc002ooo.2_Missense_Mutation_p.R126Q|NUMBL_uc010xvr.1_Missense_Mutation_p.R85Q	NM_004756	NP_004747	Q9Y6R0	NUMBL_HUMAN	numb homolog (Drosophila)-like	126	PID.				cytokine-mediated signaling pathway|lateral ventricle development|neuroblast division in subventricular zone|protein metabolic process	cytoplasm	protein binding			lung(3)|ovary(1)|breast(1)	5			Lung(22;0.000393)|LUSC - Lung squamous cell carcinoma(20;0.00105)			GTCCACCACTCGGAGCCCATC	0.652													4	41					0	0	1	0	0		T	41188655	T	T	41188655	3	4	103	1	0	0	0	0	1	0	0	0	10771	884	31	1	1476	1	NUMBL	19	41188655	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	54977	41188655	17940328	1795	63744											
ADCK4	79934	broad.mit.edu	37	chr19	41211331	41211331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctccgacaggaaggggctgGagtccagcccagaaccaccc	10	3	12	16	1	0	1	0	0	0	1	2	4	2	3	6	4	2	1	6	4	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:41211331G>A	uc002oor.2	-	6	691	c.389C>T	c.(388-390)TCC>TTC	p.S130F	ADCK4_uc002ooq.1_Intron|ADCK4_uc002oos.2_Missense_Mutation_p.S130F	NM_024876	NP_079152	Q96D53	ADCK4_HUMAN	aarF domain containing kinase 4 isoform a	130						integral to membrane	protein serine/threonine kinase activity				0			Lung(22;9.49e-05)|LUSC - Lung squamous cell carcinoma(20;0.000219)			GAAGGGGCTGGAGTCCAGCCC	0.468													35	60					0	0	1	0	0		A	41211331	A	A	41211331	3	1	103	1	0	0	0	0	1	0	0	0	290	1174	41	4	1285	4	ADCK4	19	41211331	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	22676	41211331	17917652	1796	63745											
CYP2A7	1549	broad.mit.edu	37	chr19	41386063	41386063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgacaggaactctttgtcctCatagtcaaagcggtccccaa	11	10	8	12	1	3	1	2	1	1	0	5	2	5	2	3	2	2	0	3	2	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:41386063C>T	uc002opm.2	-	4	1122	c.580G>A	c.(580-582)GAG>AAG	p.E194K	CYP2A7_uc002opo.2_Missense_Mutation_p.E194K|CYP2A7_uc002opn.2_Missense_Mutation_p.E143K	NM_000764	NP_000755	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A,	194						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			TCTTTGTCCTCATAGTCAAAG	0.562													6	72					0	0	1	0	0		T	41386063	T	T	41386063	3	4	103	1	0	0	0	0	1	0	0	0	4166	835	29	4	928	4	CYP2A7	19	41386063	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	174732	41386063	17742920	1797	63746											
AXL	558	broad.mit.edu	37	chr19	41758814	41758814	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggtcatcttacctttcaTgaaacatggagacctacaca	12	12	7	10	0	3	2	2	1	1	1	3	3	3	2	2	2	3	0	2	2	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:41758814T>C	uc010ehj.2	+	16	2058	c.1868T>C	c.(1867-1869)ATG>ACG	p.M623T	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehk.2_Missense_Mutation_p.M614T	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	623	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						TTACCTTTCATGAAACATGGA	0.493													30	73					0	0	1	0	0		C	41758814	C	C	41758814	3	2	103	1	0	0	0	0	1	0	0	0	1239	1464	51	3	1930	3	AXL	19	41758814	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	372751	41758814	17370169	1798	63747											
CCDC97	90324	broad.mit.edu	37	chr19	41826288	41826288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaggcctgggttcccgactCggaggagaggctgatcctgc	6	7	17	11	2	0	2	0	1	0	1	3	6	2	4	3	6	1	2	3	6	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:41826288C>T	uc002oqg.2	+	4	946	c.824C>T	c.(823-825)TCG>TTG	p.S275L	CYP2F1_uc010xvw.1_Intron	NM_052848	NP_443080	Q96F63	CCD97_HUMAN	coiled-coil domain containing 97	275											0						GTTCCCGACTCGGAGGAGAGG	0.632													21	41					0	0	1	0	0		T	41826288	T	T	41826288	3	4	103	1	0	0	0	0	1	0	0	0	2878	893	31	1	838	1	CCDC97	19	41826288	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	67474	41826288	17302695	1799	63748											
CEACAM5	1048	broad.mit.edu	37	chr19	42219022	42219022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaaacaatcagagcctccCggtcagtcccaggctgcagc	10	6	11	14	1	2	1	2	0	0	1	4	1	4	1	3	3	4	3	3	3	3	1	rs113097830	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:42219022C>T	uc002ork.2	+	3	678	c.557C>T	c.(556-558)CCG>CTG	p.P186L	CEACAM5_uc010ehz.1_Missense_Mutation_p.P186L|CEACAM5_uc002orj.1_Missense_Mutation_p.P186L|CEACAM5_uc002orl.2_Missense_Mutation_p.P186L	NM_004363	NP_004354	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion	186	Ig-like 2.					anchored to membrane|basolateral plasma membrane|integral to plasma membrane				skin(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		CAGAGCCTCCCGGTCAGTCCC	0.522													75	127					0	0	1	0	0		T	42219022	T	T	42219022	3	4	103	1	0	0	0	0	1	0	0	0	3198	652	23	1	567	1	CEACAM5	19	42219022	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	392734	42219022	16909961	1800	63749											
DMRTC2	63946	broad.mit.edu	37	chr19	42354689	42354689	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtggggctgaaagattcAtcccaggctcctcgtgtgac	7	10	12	12	2	1	3	1	2	0	1	5	3	3	3	2	3	0	2	2	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:42354689A>G	uc002ors.2	+	8	995	c.912A>G	c.(910-912)TCA>TCG	p.S304S	DMRTC2_uc002orr.1_Silent_p.S232S|DMRTC2_uc010xwe.1_Silent_p.S355S	NM_001040283	NP_001035373	Q8IXT2	DMRTD_HUMAN	DMRT-like family C2	304	Pro-rich.				cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0						TGAAAGATTCATCCCAGGCTC	0.642													23	38					0	0	1	0	0		G	42354689	G	G	42354689	2	3	103	1	0	0	0	0	0	0	0	1	4597	204	8	3		3	DMRTC2	19	42354689	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	135667	42354689	16774294	1801	63750											
ARHGEF1	9138	broad.mit.edu	37	chr19	42398554	42398554	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggcggtcggacgagcctGccaagaccaagaaggggctg	10	3	16	12	4	0	2	0	0	0	2	1	4	0	3	4	5	2	1	4	5	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:42398554G>T	uc002orx.2	+	10	884	c.775G>T	c.(775-777)GCC>TCC	p.A259S	ARHGEF1_uc002orw.1_Missense_Mutation_p.A259S|ARHGEF1_uc002ory.2_Missense_Mutation_p.A226S|ARHGEF1_uc002orz.2_Missense_Mutation_p.A97S|ARHGEF1_uc002osa.2_Missense_Mutation_p.A274S|ARHGEF1_uc002osb.2_Missense_Mutation_p.A241S|ARHGEF1_uc002osc.2_5'Flank|ARHGEF1_uc002osd.2_5'Flank	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	259				EPA -> DPP (in Ref. 1; AAB17896).	cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		GGACGAGCCTGCCAAGACCAA	0.627													13	35					6.31663e-08	6.5166e-08	1	1	0		T	42398554	T	T	42398554	3	4	103	1	0	0	0	0	1	0	0	0	893	1319	46	5	858	5	ARHGEF1	19	42398554	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	43865	42398554	16730429	1802	63751											
DEDD2	162989	broad.mit.edu	37	chr19	42703893	42703893	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaacacgtccagctgccgCgccagcgcctggggccgccg	6	3	13	19	6	0	0	0	0	0	0	1	0	1	0	7	2	4	1	7	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:42703893C>T	uc002osu.1	-	5	746	c.678G>A	c.(676-678)GCG>GCA	p.A226A	DEDD2_uc002osv.1_RNA|DEDD2_uc002osw.1_Silent_p.A221A|DEDD2_uc002osx.1_3'UTR|DEDD2_uc002osy.1_Silent_p.A226A	NM_133328	NP_579874	Q8WXF8	DEDD2_HUMAN	death effector domain-containing  DNA binding	226					activation of pro-apoptotic gene products|apoptotic nuclear change|cellular homeostasis|induction of apoptosis via death domain receptors|intracellular signal transduction|negative regulation of transcription, DNA-dependent|RNA processing|rRNA catabolic process|transcription, DNA-dependent	nucleolus	DNA binding|receptor signaling complex scaffold activity				0		Prostate(69;0.0704)				CCAGCTGCCGCGCCAGCGCCT	0.657													7	9					0	0	1	0	0		T	42703893	T	T	42703893	2	4	103	1	0	0	0	0	0	0	0	1	4388	755	27	1		1	DEDD2	19	42703893	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	305339	42703893	16425090	1803	63752											
ZNF526	116115	broad.mit.edu	37	chr19	42729656	42729656	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgtgtagactgtggccgCggctttggcacagaactcac	7	10	12	12	2	2	2	1	0	1	2	2	2	2	2	1	3	1	3	1	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:42729656C>T	uc002osz.1	+	3	1257	c.1101C>T	c.(1099-1101)CGC>CGT	p.R367R		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	367	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				ACTGTGGCCGCGGCTTTGGCA	0.597													31	42					0	0	1	0	0		T	42729656	T	T	42729656	2	4	103	1	0	0	0	0	0	0	0	1	17992	755	27	1		1	ZNF526	19	42729656	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	25763	42729656	16399327	1804	63753											
CIC	23152	broad.mit.edu	37	chr19	42794441	42794441	+	Frame_Shift_Del	DEL	C	-	-																															tcctcctttacccactgccgCcccccactggaccctgagcc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:42794441delC	uc002otf.1	+	10	1561	c.1521delC	c.(1519-1521)CGCfs	p.R507fs		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	507					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				CCCACTGCCGCCCCCCACTGG	0.622			T	DUX4	soft tissue sarcoma								47	58	---	---	---	---						.	-	42794441	-	-	42794441	7	5	103	1	0	1	0	1	0	0	0	0	3427	726	26	0	1559	0	CIC	19	42794441	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	64785	42794441	16334542	1805	63754											
LIPE	3991	broad.mit.edu	37	chr19	42911849	42911849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagatggtgaccgtgagcGtggggtcggcagtcagtggc	6	8	20	7	3	1	3	1	3	0	1	2	4	1	3	1	5	1	1	1	5	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:42911849G>A	uc002otr.2	-	5	2028	c.1751C>T	c.(1750-1752)ACG>ATG	p.T584M	uc010eif.1_Intron	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	584					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				GACCGTGAGCGTGGGGTCGGC	0.642													28	54					0	0	1	0	0		A	42911849	A	A	42911849	3	1	103	1	0	0	0	0	1	0	0	0	8838	1145	40	1	1503	1	LIPE	19	42911849	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	117408	42911849	16217134	1806	63755											
CEACAM8	1088	broad.mit.edu	37	chr19	43093151	43093151	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatttacccctgcatggtaaTaggtgtctgaaggggaaatg	11	11	13	6	0	1	1	0	1	1	0	1	3	1	2	2	4	2	2	2	4	5	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:43093151T>A	uc002oud.2	-	4	845	c.743A>T	c.(742-744)TAT>TTT	p.Y248F	uc010eif.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron	NM_001816	NP_001807	P31997	CEAM8_HUMAN	carcinoembryonic antigen-related cell adhesion	248	Ig-like C2-type 2.				immune response	anchored to membrane|extracellular space|integral to plasma membrane				ovary(1)	1		Prostate(69;0.00899)				TGCATGGTAATAGGTGTCTGA	0.502													33	43					0	0	1	0	0		A	43093151	A	A	43093151	3	1	103	1	0	0	0	0	1	0	0	0	3201	1406	49	5	314	5	CEACAM8	19	43093151	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	181302	43093151	16035832	1807	63756											
IRGC	56269	broad.mit.edu	37	chr19	44223371	44223371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtgtccaacctctcgccgGcccgctacgactttcccacg	5	9	9	18	5	1	0	0	0	1	0	4	1	3	0	5	2	2	1	5	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:44223371G>A	uc002oxh.2	+	2	808	c.661G>A	c.(661-663)GCC>ACC	p.A221T		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	221						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				CCTCTCGCCGGCCCGCTACGA	0.701													19	17					0	0	1	0	0		A	44223371	A	A	44223371	3	1	103	1	0	0	0	0	1	0	0	0	7854	1203	42	2	663	2	IRGC	19	44223371	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1130220	44223371	14905612	1808	63757											
CLPTM1	1209	broad.mit.edu	37	chr19	45477826	45477826	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactcagacggctgctacgAgcactttgctgagctcgata	10	9	11	11	3	1	2	1	1	0	1	2	5	1	2	0	1	6	5	0	1	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:45477826A>G	uc002pai.2	+	4	455	c.440A>G	c.(439-441)GAG>GGG	p.E147G	CLPTM1_uc010ejv.1_Missense_Mutation_p.E45G|CLPTM1_uc010xxf.1_Missense_Mutation_p.E45G|CLPTM1_uc010xxg.1_Missense_Mutation_p.E133G	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane	147	Extracellular (Potential).				cell differentiation|multicellular organismal development|regulation of T cell differentiation in thymus	external side of plasma membrane|integral to plasma membrane				ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00354)|Epithelial(262;0.187)		GGCTGCTACGAGCACTTTGCT	0.577													17	39					0	0	1	0	0		G	45477826	G	G	45477826	3	3	103	1	0	0	0	0	1	0	0	0	3557	304	11	3	454	3	CLPTM1	19	45477826	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1254455	45477826	13651157	1809	63758											
PPP1R13L	10848	broad.mit.edu	37	chr19	45900258	45900259	+	Frame_Shift_Ins	INS	-	G	G																															gccgtcggtggccgccttccINSggggggaccctcggctgccg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:45900258_45900259insG	uc002pbn.2	-	4	333_334	c.256_257insC	c.(256-258)CGGfs	p.R86fs	PPP1R13L_uc002pbo.2_Frame_Shift_Ins_p.R86fs|PPP1R13L_uc002pbp.2_Frame_Shift_Ins_p.R86fs	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	86	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		GGCCGCCTTCCGGGGGGACCCT	0.688													7	10	---	---	---	---						.	G	45900259	G	G	45900258	7	5	103	1	0	1	1	0	0	0	0	0	12380	652	23	0	2269	0	PPP1R13L	19	45900258	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	422432	45900258	13228725	1810	63759											
PPP5C	5536	broad.mit.edu	37	chr19	46887054	46887054	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagacagagaagattacagtAtgtggggacacccatggcca	14	6	12	9	0	0	3	0	0	0	3	0	5	0	4	2	3	1	1	2	3	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:46887054A>G	uc002pem.2	+	6	777	c.717A>G	c.(715-717)GTA>GTG	p.V239V	PPP5C_uc010xya.1_Silent_p.V106V|PPP5C_uc002pen.2_Silent_p.V217V|PPP5C_uc010xyb.1_Silent_p.V97V	NM_006247	NP_006238	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	239	Catalytic.				mitosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein dephosphorylation|transcription, DNA-dependent	Golgi apparatus|nucleus	metal ion binding|protein binding|protein serine/threonine phosphatase activity|signal transducer activity			lung(1)|pancreas(1)	2		Ovarian(192;0.0731)|all_neural(266;0.196)		OV - Ovarian serous cystadenocarcinoma(262;0.000196)|all cancers(93;0.00192)|GBM - Glioblastoma multiforme(486;0.0499)|Epithelial(262;0.0504)		AGATTACAGTATGTGGGGACA	0.552													34	68					0	0	1	0	0		G	46887054	G	G	46887054	2	3	103	1	0	0	0	0	0	0	0	1	12428	436	16	3		3	PPP5C	19	46887054	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	986796	46887054	12241929	1811	63760											
ZC3H4	23211	broad.mit.edu	37	chr19	47569825	47569825	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctcggggggtggggtggCggtggtggcagcgggggctg	2	6	25	8	3	0	0	0	0	0	0	1	0	0	0	1	11	1	2	1	11	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:47569825C>T	uc002pga.3	-	15	3738	c.3700G>A	c.(3700-3702)GCC>ACC	p.A1234T	ZC3H4_uc002pgb.1_RNA	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	1234							nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		GGTGGGGTGGCGGTGGTGGCA	0.716													7	8					0	0	1	0	0		T	47569825	T	T	47569825	3	4	103	1	0	0	0	0	1	0	0	0	17595	768	27	1	215	1	ZC3H4	19	47569825	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	682771	47569825	11559158	1812	63761											
DHX34	9704	broad.mit.edu	37	chr19	47870299	47870299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catcgagcccccaccaccagCcagcctggaaaccgccatcc	10	3	7	21	2	0	0	0	0	0	0	2	2	1	1	9	1	4	0	9	1	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:47870299C>T	uc010xyn.1	+	7	1996	c.1655C>T	c.(1654-1656)GCC>GTC	p.A552V	DHX34_uc010elc.1_Missense_Mutation_p.A467V	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	552						intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		CCACCACCAGCCAGCCTGGAA	0.617													9	35					0	0	1	0	0		T	47870299	T	T	47870299	3	4	103	1	0	0	0	0	1	0	0	0	4513	739	26	2	1677	2	DHX34	19	47870299	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	300474	47870299	11258684	1813	63762											
SLC8A2	6543	broad.mit.edu	37	chr19	47969508	47969508	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacgggcagcagcaccccCggctggcagcggtaggaccc	8	2	14	17	3	0	0	0	0	0	0	0	1	0	1	3	5	3	6	3	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:47969508C>T	uc002pgx.2	-	2	431	c.153G>A	c.(151-153)CCG>CCA	p.P51P	SLC8A2_uc010xyq.1_Intron|SLC8A2_uc010xyr.1_Intron|SLC8A2_uc010ele.2_Silent_p.P51P	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	51	Extracellular (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		GCAGCACCCCCGGCTGGCAGC	0.701													7	10					0	0	1	0	0		T	47969508	T	T	47969508	2	4	103	1	0	0	0	0	0	0	0	1	14732	639	23	1		1	SLC8A2	19	47969508	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	99209	47969508	11159475	1814	63763											
EHD2	30846	broad.mit.edu	37	chr19	48220237	48220237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacccggacaagcccttccGcaaactcaaccctttcggaa	11	6	8	16	3	1	0	1	0	0	0	3	3	2	3	4	3	3	1	4	3	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:48220237G>A	uc002phj.3	+	2	618	c.368G>A	c.(367-369)CGC>CAC	p.R123H	EHD2_uc010xyu.1_Intron	NM_014601	NP_055416	Q9NZN4	EHD2_HUMAN	EH-domain containing 2	123					blood coagulation|endocytic recycling	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding			ovary(1)|skin(1)	2		all_cancers(25;6.74e-07)|all_lung(116;2.02e-05)|Lung NSC(112;3.77e-05)|all_epithelial(76;4.89e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		OV - Ovarian serous cystadenocarcinoma(262;0.000336)|all cancers(93;0.000415)|Epithelial(262;0.0132)|GBM - Glioblastoma multiforme(486;0.0537)		AAGCCCTTCCGCAAACTCAAC	0.537													19	51					0	0	1	0	0		A	48220237	A	A	48220237	3	1	103	1	0	0	0	0	1	0	0	0	4984	1087	38	1	370	1	EHD2	19	48220237	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	250729	48220237	10908746	1815	63764											
CCDC114	93233	broad.mit.edu	37	chr19	48806955	48806955	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggtcactctcccccatcaGctgggacagtttattcaggg	8	10	11	12	0	4	0	3	0	1	0	5	1	4	1	2	3	1	2	2	3	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:48806955G>T	uc002pir.2	-	8	1512	c.829C>A	c.(829-831)CTG>ATG	p.L277M	CCDC114_uc002piq.2_Missense_Mutation_p.L86M|CCDC114_uc002pio.2_Missense_Mutation_p.L314M|CCDC114_uc002pis.1_5'Flank|CCDC114_uc002pit.1_Missense_Mutation_p.L314M|CCDC114_uc002piu.1_Missense_Mutation_p.L314M	NM_144577	NP_653178	Q96M63	CC114_HUMAN	coiled-coil domain containing 114 isoform 2	277										ovary(1)	1		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000162)|Epithelial(262;0.0134)|GBM - Glioblastoma multiforme(486;0.0143)		TCCCCCATCAGCTGGGACAGT	0.652													42	73					4.07013e-28	4.39788e-28	1	1	0		T	48806955	T	T	48806955	3	4	103	1	0	0	0	0	1	0	0	0	2754	962	34	5	1211	5	CCDC114	19	48806955	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	586718	48806955	10322028	1816	63765											
GRIN2D	2906	broad.mit.edu	37	chr19	48946554	48946554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggagagcctgggcggcgCgtcgctgggcggcctggagc	3	5	20	13	6	0	1	0	0	0	1	2	3	0	2	2	6	2	1	2	6	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:48946554C>T	uc002pjc.3	+	13	3459	c.3371C>T	c.(3370-3372)GCG>GTG	p.A1124V	GRIN2D_uc010elx.2_Missense_Mutation_p.A359V|GRWD1_uc002pjd.2_5'Flank	NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	1124	Cytoplasmic (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		all_epithelial(76;1.11e-06)|all_lung(116;5.79e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		all cancers(93;0.00014)|OV - Ovarian serous cystadenocarcinoma(262;0.000233)|Epithelial(262;0.0112)|GBM - Glioblastoma multiforme(486;0.0161)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	CTGGGCGGCGCGTCGCTGGGC	0.592													6	13					0	0	1	0	0		T	48946554	T	T	48946554	3	4	103	1	0	0	0	0	1	0	0	0	6798	768	27	1	3417	1	GRIN2D	19	48946554	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	139599	48946554	10182429	1817	63766											
GRWD1	83743	broad.mit.edu	37	chr19	48954443	48954443	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcccttcctgctcagtggCggggatgatggggccctcaa	6	8	15	12	1	2	1	2	1	0	0	3	3	3	2	3	5	2	1	3	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:48954443C>T	uc002pjd.2	+	6	1211	c.978C>T	c.(976-978)GGC>GGT	p.G326G		NM_031485	NP_113673	Q9BQ67	GRWD1_HUMAN	glutamate-rich WD repeat containing 1	326	WD 3.					nucleolus				ovary(1)	1		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000206)|all cancers(93;0.000207)|Epithelial(262;0.0125)|GBM - Glioblastoma multiforme(486;0.0222)		TGCTCAGTGGCGGGGATGATG	0.637													19	23					0	0	1	0	0		T	48954443	T	T	48954443	2	4	103	1	0	0	0	0	0	0	0	1	6827	755	27	1		1	GRWD1	19	48954443	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	7889	48954443	10174540	1818	63767											
CYTH2	9266	broad.mit.edu	37	chr19	48981555	48981555	+	Frame_Shift_Del	DEL	C	-	-																															aaggagccccgaggaatcatCcccctggagaatctgagcat																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:48981555delC	uc002pjj.3	+	11	1212	c.912delC	c.(910-912)ATCfs	p.I304fs	CYTH2_uc002pji.2_RNA	NM_017457	NP_059431	Q99418	CYH2_HUMAN	cytohesin 2 isoform 1	304	PH.				actin cytoskeleton organization|endocytosis|regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|membrane fraction|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						GAGGAATCATCCCCCTGGAGA	0.448													47	49	---	---	---	---						.	-	48981555	-	-	48981555	7	5	103	1	0	1	0	1	0	0	0	0	4207	845	30	0	950	0	CYTH2	19	48981555	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	27112	48981555	10147428	1819	63768											
SPHK2	56848	broad.mit.edu	37	chr19	49131530	49131530	+	Frame_Shift_Del	DEL	G	-	-																															ccggagcagtgaaccagcacGgggggtaggttgaggatacc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:49131530delG	uc002pjr.2	+	6	1234	c.868delG	c.(868-870)GGGfs	p.G290fs	SPHK2_uc010xzt.1_Frame_Shift_Del_p.G231fs|SPHK2_uc002pjs.2_Frame_Shift_Del_p.G290fs|SPHK2_uc002pjt.2_Frame_Shift_Del_p.G84fs|SPHK2_uc002pju.2_Frame_Shift_Del_p.G254fs|SPHK2_uc002pjv.2_Frame_Shift_Del_p.G254fs|SPHK2_uc002pjw.2_Frame_Shift_Del_p.G352fs|SPHK2_uc010xzu.1_Frame_Shift_Del_p.G254fs	NM_020126	NP_064511	Q9NRA0	SPHK2_HUMAN	sphingosine kinase 2	290	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|cell proliferation|sphinganine-1-phosphate biosynthetic process	cytosol|lysosomal membrane|membrane fraction	ATP binding|D-erythro-sphingosine kinase activity|diacylglycerol kinase activity|Ras GTPase binding|sphinganine kinase activity			lung(1)	1		all_lung(116;0.000125)|Lung NSC(112;0.000202)|all_epithelial(76;0.000283)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		GAACCAGCACGGGGGGTAGGT	0.622													24	40	---	---	---	---						.	-	49131530	-	-	49131530	7	5	103	1	0	1	0	1	0	0	0	0	15072	1116	39	0	886	0	SPHK2	19	49131530	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	149975	49131530	9997453	1820	63769											
FUT2	2524	broad.mit.edu	37	chr19	49206867	49206867	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggaagggggtggtggcCgaccggcgatacctacagca	8	6	18	9	3	0	0	0	0	0	0	0	3	0	1	3	6	3	1	3	6	3	2	rs138643842		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:49206867C>T	uc002pke.3	+	2	765	c.654C>T	c.(652-654)GCC>GCT	p.A218A	FUT2_uc010emc.2_Silent_p.A218A	NM_001097638	NP_001091107	Q10981	FUT2_HUMAN	fucosyltransferase 2	218	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	galactoside 2-alpha-L-fucosyltransferase activity			central_nervous_system(1)	1		all_lung(116;4.89e-06)|all_epithelial(76;7.04e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.00011)|all cancers(93;0.000238)|GBM - Glioblastoma multiforme(486;0.0164)|Epithelial(262;0.017)		GGGTGGTGGCCGACCGGCGAT	0.617													11	119					0	0	1	0	0		T	49206867	T	T	49206867	2	4	103	1	0	0	0	0	0	0	0	1	6118	639	23	1		1	FUT2	19	49206867	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	75337	49206867	9922116	1821	63770											
IZUMO1	284359	broad.mit.edu	37	chr19	49247735	49247735	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttggaatcgagcaacataGgtggcaaaggtttccttttg	10	14	11	6	1	0	0	0	0	0	0	2	2	1	1	1	4	2	3	1	4	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:49247735G>T	uc002pkj.2	-	4	920	c.372C>A	c.(370-372)ACC>ACA	p.T124T	IZUMO1_uc010eme.2_RNA|IZUMO1_uc010emf.2_RNA	NM_182575	NP_872381	Q8IYV9	IZUM1_HUMAN	izumo sperm-egg fusion 1 precursor	124	Extracellular (Potential).				fusion of sperm to egg plasma membrane	integral to membrane				ovary(1)	1		all_lung(116;0.000156)|Lung NSC(112;0.000251)|all_epithelial(76;0.000761)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000348)|Epithelial(262;0.019)|GBM - Glioblastoma multiforme(486;0.022)		GAGCAACATAGGTGGCAAAGG	0.517													26	52					7.38237e-10	7.6895e-10	1	1	0		T	49247735	T	T	49247735	2	4	103	1	0	0	0	0	0	0	0	1	7949	987	35	5		5	IZUMO1	19	49247735	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	40868	49247735	9881248	1822	63771											
FUT1	2523	broad.mit.edu	37	chr19	49254455	49254455	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtggaaagctgtcttgAtggatatggaggaagaagat	13	10	14	4	0	1	3	0	1	1	2	1	7	1	7	1	4	1	1	1	4	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:49254455A>G	uc002pkk.2	-	4	1059	c.84T>C	c.(82-84)CAT>CAC	p.H28H		NM_000148	NP_000139	P19526	FUT1_HUMAN	fucosyltransferase 1	28	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to plasma membrane|membrane fraction	galactoside 2-alpha-L-fucosyltransferase activity			ovary(1)	1		all_lung(116;1.7e-06)|all_epithelial(76;3.52e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000135)|all cancers(93;0.000354)|Epithelial(262;0.0191)|GBM - Glioblastoma multiforme(486;0.0222)		AGCTGTCTTGATGGATATGGA	0.592													13	36					0	0	1	0	0		G	49254455	G	G	49254455	2	3	103	1	0	0	0	0	0	0	0	1	6115	330	12	3		3	FUT1	19	49254455	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	6720	49254455	9874528	1823	63772											
PPP1R15A	23645	broad.mit.edu	37	chr19	49377242	49377242	+	Frame_Shift_Del	DEL	G	-	-																															gaagacctccgtgtccccccGatcttcaggctccgacccca																								rs557806	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:49377242delG	uc002pky.3	+	2	1021	c.752delG	c.(751-753)CGAfs	p.R251fs		NM_014330	NP_055145	O75807	PR15A_HUMAN	protein phosphatase 1, regulatory subunit 15A	251	Glu-rich.				apoptosis|cell cycle arrest|regulation of translation|response to DNA damage stimulus	endoplasmic reticulum	protein binding			lung(1)	1		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000244)|all cancers(93;0.000694)|GBM - Glioblastoma multiforme(486;0.0222)|Epithelial(262;0.033)		GTGTCCCCCCGATCTTCAGGC	0.547													29	49	---	---	---	---						.	-	49377242	-	-	49377242	7	5	103	1	0	1	0	1	0	0	0	0	12385	1058	37	0	754	0	PPP1R15A	19	49377242	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	122787	49377242	9751741	1824	63773											
CGB5	93659	broad.mit.edu	37	chr19	49548486	49548486	+	Frame_Shift_Del	DEL	C	-	-																															cctcttcctcaaaggcccctCcccccagccttccaagtcca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:49548486delC	uc002ply.2	+	3	798	c.433delC	c.(433-435)CCCfs	p.P145fs	CGB_uc010yad.1_Intron|CGB5_uc002plz.2_Frame_Shift_Del_p.P131fs	NM_033043	NP_149032	P01233	CGHB_HUMAN	chorionic gonadotropin, beta polypeptide 5	145					apoptosis|cell-cell signaling|cellular nitrogen compound metabolic process|female gamete generation|hormone biosynthetic process|peptide hormone processing|signal transduction	extracellular region|soluble fraction	hormone activity				0		all_epithelial(76;9.62e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)	Choriogonadotropin alfa(DB00097)	AAAGGCCCCTCCCCCCAGCCT	0.632													9	17	---	---	---	---						.	-	49548486	-	-	49548486	7	5	103	1	0	1	0	1	0	0	0	0	3302	855	30	0	443	0	CGB5	19	49548486	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	171244	49548486	9580497	1825	63774											
PPFIA3	8541	broad.mit.edu	37	chr19	49637338	49637338	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccacaataagcggctgtcCgagacggtggacaagctgct	11	6	13	11	3	0	1	0	0	0	1	1	4	1	2	2	3	3	3	2	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:49637338C>T	uc002pmr.2	+	11	1625	c.1293C>T	c.(1291-1293)TCC>TCT	p.S431S	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_Silent_p.S355S|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_Silent_p.S299S	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	431	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		AGCGGCTGTCCGAGACGGTGG	0.637													37	55					0	0	1	0	0		T	49637338	T	T	49637338	2	4	103	1	0	0	0	0	0	0	0	1	12330	639	23	1		1	PPFIA3	19	49637338	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	88852	49637338	9491645	1826	63775											
HRC	3270	broad.mit.edu	37	chr19	49656860	49656860	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctctcctcgtcttcttcCtcctcctcctcctccttgtc	0	17	2	22	1	3	0	0	0	3	0	13	0	10	0	8	0	0	0	8	0	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:49656860C>T	uc002pmv.2	-	1	1822	c.1635G>A	c.(1633-1635)GAG>GAA	p.E545E		NM_002152	NP_002143	P23327	SRCH_HUMAN	histidine rich calcium binding protein	545					muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			ovary(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		cgtcttcttcctcctcctcct	0.333													7	7					0	0	1	0	0		T	49656860	T	T	49656860	2	4	103	1	0	0	0	0	0	0	0	1	7368	680	24	4		4	HRC	19	49656860	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	19522	49656860	9472123	1827	63776											
SLC17A7	57030	broad.mit.edu	37	chr19	49933806	49933806	+	Frame_Shift_Del	DEL	G	-	-																															cggacagggggtgggggcctGgggggctgaaatgtgctgtg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:49933806delG	uc002pnp.2	-	12	1825	c.1653delC	c.(1651-1653)CCCfs	p.P551fs	SLC17A7_uc002pno.2_Frame_Shift_Del_p.P213fs	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	551	Cytoplasmic (Potential).|Pro-rich.				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		GTGGGGGCCTGGGGGGCTGAA	0.642													11	25	---	---	---	---						.	-	49933806	-	-	49933806	7	5	103	1	0	1	0	1	0	0	0	0	14447	1335	47	0	33	0	SLC17A7	19	49933806	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	276946	49933806	9195177	1828	63777											
PRR12	57479	broad.mit.edu	37	chr19	50128756	50128756	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgccgaggacctgggccaGgaggaggtggtccagcagtg	7	4	20	10	2	0	0	0	0	0	0	1	4	1	3	4	7	1	1	4	7	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:50128756G>A	uc002poo.3	+	14	6003	c.6003G>A	c.(6001-6003)CAG>CAA	p.Q2001Q		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	1180							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		ACCTGGGCCAGGAGGAGGTGG	0.677													9	14					0	0	1	0	0		A	50128756	A	A	50128756	2	1	103	1	0	0	0	0	0	0	0	1	12606	991	35	4		4	PRR12	19	50128756	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	194950	50128756	9000227	1829	63778											
SCAF1	58506	broad.mit.edu	37	chr19	50155638	50155638	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcgagaaggccccggcGcccgccccgccgccctctgg	4	2	15	20	6	1	1	0	0	1	1	1	2	1	1	7	4	1	1	7	4	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:50155638G>A	uc002poq.2	+	7	2116	c.1992G>A	c.(1990-1992)GCG>GCA	p.A664A		NM_021228	NP_067051	Q9H7N4	SFR19_HUMAN	SR-related CTD-associated factor 1	664	Ser-rich.				mRNA processing|RNA splicing	nucleus	RNA binding				0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00113)|GBM - Glioblastoma multiforme(134;0.0204)		Aggccccggcgcccgccccgc	0.607													5	7					0	0	1	0	0		A	50155638	A	A	50155638	2	1	103	1	0	0	0	0	0	0	0	1	13893	1074	38	1		1	SCAF1	19	50155638	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	26882	50155638	8973345	1830	63779											
SCAF1	58506	broad.mit.edu	37	chr19	50155754	50155754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgacctcttcgccatcaagcGgaccatcacggtgggccggc	7	6	12	16	5	3	0	2	0	1	0	4	2	3	1	4	4	1	0	4	4	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:50155754G>A	uc002poq.2	+	7	2232	c.2108G>A	c.(2107-2109)CGG>CAG	p.R703Q		NM_021228	NP_067051	Q9H7N4	SFR19_HUMAN	SR-related CTD-associated factor 1	703	Ser-rich.				mRNA processing|RNA splicing	nucleus	RNA binding				0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00113)|GBM - Glioblastoma multiforme(134;0.0204)		GCCATCAAGCGGACCATCACG	0.687													6	9					0	0	1	0	0		A	50155754	A	A	50155754	3	1	103	1	0	0	0	0	1	0	0	0	13893	1116	39	1	2130	1	SCAF1	19	50155754	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	116	50155754	8973229	1831	63780											
C19orf41	126123	broad.mit.edu	37	chr19	50666366	50666366	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtgacccagggcctccAgcaccaaggggtcgcactgc	8	4	14	15	1	0	1	0	1	0	0	2	1	1	1	4	4	2	3	4	4	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:50666366A>G	uc002prp.1	-	1	173	c.86T>C	c.(85-87)CTG>CCG	p.L29P		NM_152358	NP_689571	Q6UXV1	IZUM2_HUMAN	hypothetical protein LOC126123 precursor	29	Extracellular (Potential).					integral to membrane					0		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00364)|OV - Ovarian serous cystadenocarcinoma(262;0.0052)		CAGGGCCTCCAGCACCAAGGG	0.711													9	12					0	0	1	0	0		G	50666366	G	G	50666366	3	3	103	1	0	0	0	0	1	0	0	0	1927	188	7	3	607	3	C19orf41	19	50666366	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	510612	50666366	8462617	1832	63781											
MYH14	79784	broad.mit.edu	37	chr19	50735200	50735200	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgcagccgacctcctcctCgagccctgctcccactaccg	5	7	7	22	3	0	0	0	0	0	0	4	2	3	0	8	0	5	2	8	0	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:50735200C>T	uc002prr.1	+	9	1010	c.963C>T	c.(961-963)CTC>CTT	p.L321L	MYH14_uc010enu.1_Silent_p.L329L|MYH14_uc002prq.1_Silent_p.L329L	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	321	Myosin head-like.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		ACCTCCTCCTCGAGCCCTGCT	0.627													20	30					0	0	1	0	0		T	50735200	T	T	50735200	2	4	103	1	0	0	0	0	0	0	0	1	10051	871	31	1		1	MYH14	19	50735200	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	68834	50735200	8393783	1833	63782											
KCNC3	3748	broad.mit.edu	37	chr19	50826646	50826646	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccccgccagggcacacaGcgccccgaccagcatccccg	8	1	9	23	4	0	0	0	0	0	0	1	1	1	0	8	1	2	2	8	1	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:50826646G>T	uc002pru.1	-	2	1859	c.1564C>A	c.(1564-1566)CTG>ATG	p.L522M	KCNC3_uc002prt.1_Missense_Mutation_p.L158M	NM_004977	NP_004968	Q14003	KCNC3_HUMAN	Shaw-related voltage-gated potassium channel	522	Helical; Name=Segment S6; (Potential).				cell death	voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1		all_neural(266;0.057)|Ovarian(192;0.208)		OV - Ovarian serous cystadenocarcinoma(262;0.00283)|GBM - Glioblastoma multiforme(134;0.0181)		AGGGCACACAGCGCCCCGACC	0.602													24	41					3.01185e-09	3.1308e-09	1	1	0		T	50826646	T	T	50826646	3	4	103	1	0	0	0	0	1	0	0	0	8032	962	34	5	721	5	KCNC3	19	50826646	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	91446	50826646	8302337	1834	63783											
MYBPC2	4606	broad.mit.edu	37	chr19	50939882	50939882	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggacccaggtgtacacCgtggagctgcacattgggaa	9	7	13	12	1	0	0	0	0	0	0	0	3	0	3	3	4	3	3	3	4	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:50939882C>A	uc002psf.2	+	5	405	c.354C>A	c.(352-354)ACC>ACA	p.T118T		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	118	Ig-like C2-type 1.				cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		AGGTGTACACCGTGGAGCTGC	0.597													22	49					1.10923e-09	1.15479e-09	1	1	0		A	50939882	A	A	50939882	2	1	103	1	0	0	0	0	0	0	0	1	10030	639	23	5		5	MYBPC2	19	50939882	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	113236	50939882	8189101	1835	63784											
SHANK1	50944	broad.mit.edu	37	chr19	51217127	51217127	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcccgggcccggaagtcAatgtgggccccgcccaggca	7	4	13	17	3	1	0	1	0	0	0	2	1	2	1	6	4	0	1	6	4	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:51217127A>T	uc002psx.1	-	5	739	c.720T>A	c.(718-720)ATT>ATA	p.I240I		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	240	ANK 1.				cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		CCCGGAAGTCAATGTGGGCCC	0.667													10	51					0	0	1	0	0		T	51217127	T	T	51217127	2	4	103	1	0	0	0	0	0	0	0	1	14289	126	5	5		5	SHANK1	19	51217127	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	277245	51217127	7911856	1836	63785											
KLK10	5655	broad.mit.edu	37	chr19	51520463	51520463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagagcgagacctgccaggGctgcgagccgcgcgcgcacg	8	2	17	14	7	0	2	0	0	0	2	0	5	0	2	3	1	4	2	3	1	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:51520463G>A	uc002puy.2	-	3	253	c.172C>T	c.(172-174)CCC>TCC	p.P58S	KLK10_uc002puz.2_Missense_Mutation_p.P58S|KLK10_uc002pva.2_Missense_Mutation_p.P58S	NM_145888	NP_665895	O43240	KLK10_HUMAN	kallikrein-related peptidase 10 preproprotein	58	Peptidase S1.				cell cycle|proteolysis	extracellular region	serine-type endopeptidase activity			lung(2)	2		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00885)		ACCTGCCAGGGCTGCGAGCCG	0.672											OREG0025646	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	7					0	0	1	0	0		A	51520463	A	A	51520463	3	1	103	1	0	0	0	0	1	0	0	0	8414	1203	42	2	674	2	KLK10	19	51520463	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	303336	51520463	7608520	1837	63786											
ZNF836	162962	broad.mit.edu	37	chr19	52658574	52658574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctagtgttgattgatgacGaaagaccttgccacattcat	11	13	9	8	1	1	4	1	3	0	1	1	5	1	4	2	0	2	2	2	0	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:52658574G>A	uc010ydi.1	-	5	2736	c.2362C>T	c.(2362-2364)CGT>TGT	p.R788C	ZNF836_uc010ydj.1_Missense_Mutation_p.R788C	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	788	C2H2-type 21.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GATTGATGACGAAAGACCTTG	0.433													36	56					0	0	1	0	0		A	52658574	A	A	52658574	3	1	103	1	0	0	0	0	1	0	0	0	18212	1058	37	1	450	1	ZNF836	19	52658574	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1138111	52658574	6470409	1838	63787											
PPP2R1A	5518	broad.mit.edu	37	chr19	52723442	52723442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acccttggtttctcctgtagGgagtggagttctttgatgag	6	15	13	7	0	2	2	0	2	2	0	3	4	2	4	2	3	0	3	2	3	1	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:52723442G>A	uc002pyp.2	+	11	1462	c.1303G>A	c.(1303-1305)GGA>AGA	p.G435R	PPP2R1A_uc010ydk.1_Missense_Mutation_p.G380R|PPP2R1A_uc002pyq.2_Missense_Mutation_p.G256R	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	435	HEAT 11.|PP2A subunit C binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		TCTCCTGTAGGGAGTGGAGTT	0.522			Mis		clear cell ovarian carcinoma								5	110					0	0	1	0	0		A	52723442	A	A	52723442	3	1	103	1	0	0	0	0	1	0	0	0	12404	1246	43	4	1345	4	PPP2R1A	19	52723442	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	64868	52723442	6405541	1839	63788											
ZNF480	147657	broad.mit.edu	37	chr19	52817449	52817449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatagaattctctcaggCggagtggaaatgcctggacc	10	8	13	10	1	2	1	1	0	1	1	3	4	2	4	3	5	1	0	3	5	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:52817449C>T	uc010ydl.1	+	3	186	c.116C>T	c.(115-117)GCG>GTG	p.A39V	ZNF480_uc002pyv.2_Intron|ZNF480_uc010ydm.1_Missense_Mutation_p.A39V|ZNF480_uc010epn.2_Intron|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	39	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		TTCTCTCAGGCGGAGTGGAAA	0.473													59	105					0	0	1	0	0		T	52817449	T	T	52817449	3	4	103	1	0	0	0	0	1	0	0	0	17960	768	27	1	122	1	ZNF480	19	52817449	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	94007	52817449	6311534	1840	63789											
ZNF816A	125893	broad.mit.edu	37	chr19	53453156	53453156	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaaggctttgccacactcAttacacttgtaaggtttctc	10	14	7	10	0	2	0	1	0	1	0	3	0	2	0	1	2	2	4	1	2	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:53453156A>G	uc002qal.1	-	5	2173	c.1872T>C	c.(1870-1872)AAT>AAC	p.N624N	ZNF321_uc010eqj.2_Intron|ZNF321_uc002qak.1_Intron|ZNF816A_uc002qam.1_Silent_p.N608N	NM_001031665	NP_001026835	Q0VGE8	ZN816_HUMAN	zinc finger protein 816A	624	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0313)		TGCCACACTCATTACACTTGT	0.383													63	100					0	0	1	0	0		G	53453156	G	G	53453156	2	3	103	1	0	0	0	0	0	0	0	1	18202	214	8	3		3	ZNF816A	19	53453156	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	635707	53453156	5675827	1841	63790											
NLRP12	91662	broad.mit.edu	37	chr19	54301519	54301519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtttctggagtctgcaggCgggatgttgcagcccctcag	6	10	14	11	1	3	0	1	0	2	0	3	2	3	2	2	3	3	4	2	3	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:54301519C>T	uc002qch.3	-	8	3125	c.2905G>A	c.(2905-2907)GCC>ACC	p.A969T	NLRP12_uc010eqw.2_Intron|NLRP12_uc002qci.3_Intron|NLRP12_uc002qcj.3_Missense_Mutation_p.A970T|NLRP12_uc002qck.3_Intron|NLRP12_uc010eqx.2_Intron	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	969					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		AGTCTGCAGGCGGGATGTTGC	0.587													22	35					0	0	1	0	0		T	54301519	T	T	54301519	3	4	103	1	0	0	0	0	1	0	0	0	10493	768	27	1	292	1	NLRP12	19	54301519	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	848363	54301519	4827464	1842	63791											
LILRA6	79168	broad.mit.edu	37	chr19	54742958	54742958	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactgtgtaatccttggcGtgtgaggctggggatggtgg	5	12	17	7	1	0	1	0	1	0	0	2	2	2	2	2	6	0	2	2	6	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:54742958G>A	uc002qeu.1	-	8	1441	c.1317C>T	c.(1315-1317)CAC>CAT	p.H439H	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Intron|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Intron|LILRA6_uc002qem.1_Intron|LILRB3_uc002qen.1_Intron|LILRB3_uc002qeo.1_Intron|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Intron|LILRB3_uc002qer.1_Intron|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Intron|LILRA6_uc010yeq.1_Intron|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Silent_p.H283H	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	439	Extracellular (Potential).					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		AATCCTTGGCGTGTGAGGCTG	0.597													19	68					0	0	1	0	0		A	54742958	A	A	54742958	2	1	103	1	0	0	0	0	0	0	0	1	8805	1136	40	1		1	LILRA6	19	54742958	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	441439	54742958	4386025	1843	63792											
LILRA3	11026	broad.mit.edu	37	chr19	54803262	54803262	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acactggatggtcacattccCtcctgaggtcaccacagggc	9	8	10	14	0	2	1	2	1	0	0	4	2	4	2	3	4	0	0	3	4	0	1	rs150090129	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:54803262C>A	uc002qfd.2	-	4	480	c.415G>T	c.(415-417)GGG>TGG	p.G139W	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Missense_Mutation_p.G139W	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	139	Ig-like C2-type 2.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GTCACATTCCCTCCTGAGGTC	0.542													7	133					0.000157383	0.000159875	1	1	0		A	54803262	A	A	54803262	3	1	103	1	0	0	0	0	1	0	0	0	8802	681	24	5	920	5	LILRA3	19	54803262	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	60304	54803262	4325721	1844	63793											
LILRA1	11024	broad.mit.edu	37	chr19	55106616	55106616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acccagccctgtggtgacctCaggagggaacgtgaccctcc	8	6	12	15	1	1	2	1	2	0	0	2	4	2	4	5	3	2	0	5	3	1	0	rs138781448	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:55106616C>T	uc002qgh.1	+	5	592	c.410C>T	c.(409-411)TCA>TTA	p.S137L	LILRA2_uc010yfg.1_Intron|LILRA1_uc010yfh.1_Missense_Mutation_p.S137L	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	137	Ig-like C2-type 2.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		GTGGTGACCTCAGGAGGGAAC	0.532													6	110					0	0	1	0	0		T	55106616	T	T	55106616	3	4	103	1	0	0	0	0	1	0	0	0	8800	838	29	4	424	4	LILRA1	19	55106616	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	303354	55106616	4022367	1845	63794											
NLRP2	55655	broad.mit.edu	37	chr19	55481624	55481624	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtctttgaaaagatgcacCgaatggatctgtctgagaga	13	10	12	6	1	3	4	0	2	3	2	3	7	3	5	1	2	1	1	1	2	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:55481624C>T	uc002qij.2	+	2	327	c.241C>T	c.(241-243)CGA>TGA	p.R81*	NLRP2_uc010yfp.1_Nonsense_Mutation_p.R58*|NLRP2_uc010esn.2_Nonsense_Mutation_p.R81*|NLRP2_uc010eso.2_Nonsense_Mutation_p.R81*|NLRP2_uc010esp.2_Nonsense_Mutation_p.R81*	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	81	DAPIN.				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		AAAGATGCACCGAATGGATCT	0.522													23	40					0	0	1	0	0		T	55481624	T	T	55481624	4	4	103	1	0	0	0	0	0	1	0	0	10496	644	23	1	243	1	NLRP2	19	55481624	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	375008	55481624	3647359	1846	63795											
PTPRH	5794	broad.mit.edu	37	chr19	55693262	55693262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgcactgatgcaggaataCgtactgagcctgggaagcag	12	7	14	8	1	0	2	0	2	0	0	0	5	0	4	1	2	6	4	1	2	4	2	rs140496718		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:55693262C>T	uc002qjq.2	-	20	3281	c.3208G>A	c.(3208-3210)GTA>ATA	p.V1070I	PTPRH_uc010esv.2_Missense_Mutation_p.V892I|SYT5_uc002qjm.1_5'Flank|SYT5_uc002qjp.2_5'Flank|SYT5_uc002qjn.1_5'Flank|SYT5_uc002qjo.1_5'Flank	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	1070	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		TGCAGGAATACGTACTGAGCC	0.622													47	63					0	0	1	0	0		T	55693262	T	T	55693262	3	4	103	1	0	0	0	0	1	0	0	0	12828	536	19	1	143	1	PTPRH	19	55693262	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	211638	55693262	3435721	1847	63796											
PTPRH	5794	broad.mit.edu	37	chr19	55696967	55696967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgtctggggaggagggaaCgccgtgatccggccaggcct	6	6	19	10	3	1	1	0	1	1	0	2	4	2	4	4	7	1	0	4	7	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:55696967C>T	uc002qjq.2	-	18	3038	c.2965G>A	c.(2965-2967)GTT>ATT	p.V989I	PTPRH_uc010esv.2_Missense_Mutation_p.V811I	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	989	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		GAGGAGGGAACGCCGTGATCC	0.607													13	21					0	0	1	0	0		T	55696967	T	T	55696967	3	4	103	1	0	0	0	0	1	0	0	0	12828	536	19	1	394	1	PTPRH	19	55696967	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3705	55696967	3432016	1848	63797											
TMEM86B	255043	broad.mit.edu	37	chr19	55739642	55739642	+	Frame_Shift_Del	DEL	C	-	-																															cctggaggagctgggtgtagCccccgcttggggacatgacc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:55739642delC	uc002qju.2	-	2	738	c.215delG	c.(214-216)GGCfs	p.G72fs	TMEM86B_uc002qjt.2_Frame_Shift_Del_p.G71fs	NM_173804	NP_776165	Q8N661	TM86B_HUMAN	transmembrane protein 86B	72					ether lipid metabolic process	cytoplasmic part|integral to membrane	alkenylglycerophosphocholine hydrolase activity|alkenylglycerophosphoethanolamine hydrolase activity				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0443)		CTGGGTGTAGCCCCCGCTTGG	0.662													9	13	---	---	---	---						.	-	55739642	-	-	55739642	7	5	103	1	0	1	0	1	0	0	0	0	16234	739	26	0	473	0	TMEM86B	19	55739642	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	42675	55739642	3389341	1849	63798											
FIZ1	84922	broad.mit.edu	37	chr19	56104134	56104134	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttccctttcccgggcggcGgtcgccgcctcctccccgcc	0	8	12	21	6	0	0	0	0	0	0	5	0	4	0	8	4	0	1	8	4	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:56104134G>A	uc002qli.3	-	3	1263	c.1173C>T	c.(1171-1173)ACC>ACT	p.T391T	FIZ1_uc002qlj.3_Silent_p.T391T	NM_032836	NP_116225	Q96SL8	FIZ1_HUMAN	FLT3-interacting zinc finger 1	391					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein kinase binding|receptor binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		CCCGGGCGGCGGTCGCCGCCT	0.741													14	22					0	0	1	0	0		A	56104134	A	A	56104134	2	1	103	1	0	0	0	0	0	0	0	1	5914	1103	39	1		1	FIZ1	19	56104134	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	364492	56104134	3024849	1850	63799											
ZNF524	147807	broad.mit.edu	37	chr19	56113646	56113646	+	Frame_Shift_Del	DEL	C	-	-																															ctccctcgcaagcggggccgCccccccaagtcagggcagga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:56113646delC	uc002qlk.1	+	2	251	c.168delC	c.(166-168)CGCfs	p.R56fs	FIZ1_uc002qli.3_5'Flank|FIZ1_uc002qlj.3_5'Flank	NM_153219	NP_694951	Q96C55	ZN524_HUMAN	zinc finger protein 524	56	A.T hook.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		AGCGGGGCCGCCCCCCCAAGT	0.692													6	2	---	---	---	---						.	-	56113646	-	-	56113646	7	5	103	1	0	1	0	1	0	0	0	0	17991	726	26	0	170	0	ZNF524	19	56113646	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	9512	56113646	3015337	1851	63800											
NLRP4	147945	broad.mit.edu	37	chr19	56390204	56390204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgctgtaaggatctcgCgtctgttctcacctgcagta	7	12	9	13	2	3	0	1	0	3	0	5	1	3	1	2	1	2	5	2	1	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:56390204C>T	uc002qmd.3	+	9	3163	c.2741C>T	c.(2740-2742)GCG>GTG	p.A914V	NLRP4_uc002qmf.2_Missense_Mutation_p.A839V|NLRP4_uc010etf.2_Missense_Mutation_p.A689V	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	914							ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		AAGGATCTCGCGTCTGTTCTC	0.542													12	18					0	0	1	0	0		T	56390204	T	T	56390204	3	4	103	1	0	0	0	0	1	0	0	0	10498	768	27	1	2771	1	NLRP4	19	56390204	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	276558	56390204	2738779	1852	63801											
ZNF444	55311	broad.mit.edu	37	chr19	56671150	56671150	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgagtgcggcaaaacgtcCctgaaaccagctcacctgct	10	6	9	16	3	1	1	1	1	0	0	2	2	2	1	4	1	5	3	4	1	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:56671150C>A	uc002qmm.2	+	5	931	c.564C>A	c.(562-564)TCC>TCA	p.S188S	ZNF444_uc002qmn.1_Silent_p.S187S	NM_018337	NP_060807	Q8N0Y2	ZN444_HUMAN	zinc finger protein 444	188	C2H2-type 1.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0531)		GCAAAACGTCCCTGAAACCAG	0.716													4	4					0.217242	0.21756	1	1	0		A	56671150	A	A	56671150	2	1	103	1	0	0	0	0	0	0	0	1	17942	610	22	5		5	ZNF444	19	56671150	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	280946	56671150	2457833	1853	63802											
ZNF256	10172	broad.mit.edu	37	chr19	58452730	58452730	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgctccagtatgaactttCcagtgtgagatgaggtagga	10	12	12	7	0	0	3	0	3	0	1	2	5	2	4	2	2	2	3	2	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:58452730C>A	uc002qqu.2	-	3	1681	c.1446G>T	c.(1444-1446)TGG>TGT	p.W482C	ZNF256_uc010euj.2_Missense_Mutation_p.W329C	NM_005773	NP_005764	Q9Y2P7	ZN256_HUMAN	zinc finger protein 256	482	C2H2-type 10.				multicellular organismal development|negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0155)		TATGAACTTTCCAGTGTGAGA	0.448													30	38					1.39806e-14	1.48025e-14	1	1	0		A	58452730	A	A	58452730	3	1	103	1	0	0	0	0	1	0	0	0	17824	856	30	5	441	5	ZNF256	19	58452730	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1781580	58452730	676253	1854	63803											
ZNF497	162968	broad.mit.edu	37	chr19	58867745	58867745	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccgcggaaggccttgccGcattctgcgcaggcgaaggg	6	6	16	13	5	1	0	0	0	1	0	1	2	1	1	3	4	3	2	3	4	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:58867745G>A	uc002qsh.1	-	3	1446	c.1257C>T	c.(1255-1257)TGC>TGT	p.C419C	A1BG_uc002qsd.3_5'Flank|A1BG_uc002qsf.1_Intron|ZNF497_uc002qsi.1_Silent_p.C419C|uc002qsj.1_5'Flank|uc002qsk.1_5'Flank	NM_198458	NP_940860	Q6ZNH5	ZN497_HUMAN	zinc finger protein 497	419	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0278)		AGGCCTTGCCGCATTCTGCGC	0.711													3	6					0	0	1	0	0		A	58867745	A	A	58867745	2	1	103	1	0	0	0	0	0	0	0	1	17971	1079	38	1		1	ZNF497	19	58867745	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	415015	58867745	261238	1855	63804											
ZNF324	25799	broad.mit.edu	37	chr19	58982407	58982407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagacactcacagagcatgCgttgctggggaggcagccca	12	5	13	11	1	1	2	1	0	0	2	1	3	1	3	1	3	4	4	1	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr19:58982407C>T	uc002qsw.1	+	4	642	c.548C>T	c.(547-549)GCG>GTG	p.A183V	ZNF324_uc002qsx.1_5'UTR	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	183					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		ACAGAGCATGCGTTGCTGGGG	0.657													21	20					0	0	1	0	0		T	58982407	T	T	58982407	3	4	103	1	0	0	0	0	1	0	0	0	17869	768	27	1	558	1	ZNF324	19	58982407	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	114662	58982407	146576	1856	63805											
DEFB125	245938	broad.mit.edu	37	chr20	76799	76799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcgacgaccagcatttcCtgtgattcacctagaggata	11	11	8	11	2	1	2	1	1	0	1	3	5	2	3	3	1	2	1	3	1	3	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:76799C>T	uc002wcw.2	+	2	212	c.212C>T	c.(211-213)CCT>CTT	p.P71L		NM_153325	NP_697020	Q8N687	DB125_HUMAN	defensin, beta 125 preproprotein	71					defense response to bacterium	extracellular region				ovary(1)|central_nervous_system(1)|skin(1)	3		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.156)			CCAGCATTTCCTGTGATTCAC	0.363													57	107					0	0	1	0	0		T	76799	T	T	76799	3	4	103	1	0	0	0	0	1	0	0	0	4416	681	24	4	218	4	DEFB125	20	76799	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08		76799	62948721	1857	63806											
SIRPB1	10326	broad.mit.edu	37	chr20	1559235	1559235	+	Frame_Shift_Del	DEL	G	-	-																															accacatgatgggccccacaGggatcagggacgtcatagca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:1559235delG	uc010gai.2	-	2	281	c.182delC	c.(181-183)CCTfs	p.P61fs	SIRPB1_uc002wfk.3_Frame_Shift_Del_p.P61fs	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	61	Extracellular (Potential).|Ig-like V-type.				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						GGGCCCCACAGGGATCAGGGA	0.537													34	22	---	---	---	---						.	-	1559235	-	-	1559235	7	5	103	1	0	1	0	1	0	0	0	0	14358	1000	35	0	1030	0	SIRPB1	20	1559235	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	1482436	1559235	61466285	1858	63807											
TGM6	343641	broad.mit.edu	37	chr20	2384126	2384126	+	Frame_Shift_Del	DEL	C	-	-																															ctggcaggttctggatgccaCcccccaggaggagagtgaag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:2384126delC	uc002wfy.1	+	8	1134	c.1073delC	c.(1072-1074)ACCfs	p.T358fs	TGM6_uc010gal.1_Frame_Shift_Del_p.T358fs	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	358					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	CTGGATGCCACCCCCCAGGAG	0.582													30	67	---	---	---	---						.	-	2384126	-	-	2384126	7	5	103	1	0	1	0	1	0	0	0	0	15859	507	18	0	1103	0	TGM6	20	2384126	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	824891	2384126	60641394	1859	63808											
SLC4A11	83959	broad.mit.edu	37	chr20	3211445	3211445	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgcccagagaagagcgcGtagagcaggcccccgatgct	9	4	15	13	3	0	3	0	0	0	3	0	5	0	3	3	2	4	4	3	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:3211445G>A	uc002wig.2	-	10	1311	c.1263C>T	c.(1261-1263)TAC>TAT	p.Y421Y	SLC4A11_uc010zqe.1_Silent_p.Y448Y|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Silent_p.Y405Y	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	421	Helical; (Potential).|Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						AGAAGAGCGCGTAGAGCAGGC	0.682													21	38					0	0	1	0	0		A	3211445	A	A	3211445	2	1	103	1	0	0	0	0	0	0	0	1	14677	1140	40	1		1	SLC4A11	20	3211445	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	827319	3211445	59814075	1860	63809											
JAG1	182	broad.mit.edu	37	chr20	10629262	10629262	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgttgatttcattctgacAgtgacccccattcaaacagg	10	13	7	11	0	4	3	2	3	2	0	4	3	4	3	2	1	1	1	2	1	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:10629262A>G	uc002wnw.2	-	12	2020	c.1504T>C	c.(1504-1506)TGT>CGT	p.C502R	JAG1_uc010gcd.1_Missense_Mutation_p.C60R	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	502	EGF-like 8; calcium-binding (Potential).|Extracellular (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						TCATTCTGACAGTGACCCCCA	0.488									Alagille_Syndrome				16	25					0	0	1	0	0		G	10629262	G	G	10629262	3	3	103	1	0	0	0	0	1	0	0	0	7950	188	7	3	2212	3	JAG1	20	10629262	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	7417817	10629262	52396258	1861	63810											
ISM1	140862	broad.mit.edu	37	chr20	13279773	13279773	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaggacgccagcgggccCaaggagaagctggagatcta	12	4	16	9	2	1	2	0	0	1	2	1	6	1	4	2	5	2	1	2	5	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:13279773C>T	uc010gce.1	+	6	1068	c.1062C>T	c.(1060-1062)CCC>CCT	p.P354P	TASP1_uc010zri.1_Intron	NM_080826	NP_543016	B1AKI9	ISM1_HUMAN	isthmin 1 homolog precursor	354	AMOP.					extracellular region					0						CCAGCGGGCCCAAGGAGAAGC	0.647													5	16					0	0	1	0	0		T	13279773	T	T	13279773	2	4	103	1	0	0	0	0	0	0	0	1	7876	581	21	4		4	ISM1	20	13279773	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2650511	13279773	49745747	1862	63811											
DSTN	11034	broad.mit.edu	37	chr20	17581420	17581420	+	Frame_Shift_Del	DEL	T	-	-																															agctgatgaagtatgtcgcaTtttttatgacatgaaagttc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:17581420delT	uc002wpr.2	+	2	296	c.41delT	c.(40-42)ATTfs	p.I14fs	DSTN_uc002wpq.2_5'UTR|DSTN_uc010gck.2_5'UTR	NM_006870	NP_006861	P60981	DEST_HUMAN	destrin isoform a	14	ADF-H.				actin filament severing|actin polymerization or depolymerization		actin binding			large_intestine(1)|skin(1)	2						GTATGTCGCATTTTTTATGAC	0.348													24	29	---	---	---	---						.	-	17581420	-	-	17581420	7	5	103	1	0	1	0	1	0	0	0	0	4790	1493	52	0	47	0	DSTN	20	17581420	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	4301647	17581420	45444100	1863	63812											
GZF1	64412	broad.mit.edu	37	chr20	23346169	23346171	+	In_Frame_Del	DEL	GAA	-	-																															ttcccatgcgagctgtgcggGaagaagttcaagcgcaagaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:23346169_23346171delGAA	uc010gdb.2	+	3	1323_1325	c.1149_1151delGAA	c.(1147-1152)GGGAAG>GGG	p.K385del	GZF1_uc002wsy.2_In_Frame_Del_p.K385del|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_In_Frame_Del_p.K385del	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	385	C2H2-type 3.				transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					AGCTGTGCGGGAAGAAGTTCAAG	0.67													45	91	---	---	---	---						.	-	23346171	-	-	23346169	7	5	103	1	0	1	0	1	0	0	0	0	6930	1161	41	0	1151	0	GZF1	20	23346169	In_Frame_Del	DEL	GAA	TCGA-BR-A4QL-01A-31D-A25D-08	5764749	23346169	39679351	1864	63813											
NINL	22981	broad.mit.edu	37	chr20	25442243	25442243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgattcaggcattcaagtTcaactctaagtttttggatt	10	16	7	8	0	4	1	3	1	1	0	4	2	4	2	1	2	1	3	1	2	3	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:25442243T>C	uc002wux.1	-	21	3685	c.3611A>G	c.(3610-3612)GAA>GGA	p.E1204G	NINL_uc010gdn.1_Missense_Mutation_p.E855G|NINL_uc002wuw.1_5'Flank	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1204	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						GCATTCAAGTTCAACTCTAAG	0.438													27	32					0	0	1	0	0		C	25442243	C	C	25442243	3	2	103	1	0	0	0	0	1	0	0	0	10439	1783	62	3	553	3	NINL	20	25442243	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2096074	25442243	37583277	1865	63814											
DEFB118	117285	broad.mit.edu	37	chr20	29960908	29960908	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taagcagcaagaaagatatgGttgaagagtctgaggcggga	15	7	15	4	1	1	5	0	2	1	3	1	6	1	6	0	3	2	3	0	3	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:29960908G>T	uc002wvr.2	+	2	333	c.307G>T	c.(307-309)GTT>TTT	p.V103F		NM_054112	NP_473453	Q96PH6	DB118_HUMAN	beta-defensin 118 precursor	103					cell-matrix adhesion|defense response to bacterium|innate immune response|spermatogenesis	extracellular region				ovary(3)|pancreas(1)	4	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			GAAAGATATGGTTGAAGAGTC	0.458													33	33					6.53348e-20	6.99334e-20	1	1	0		T	29960908	T	T	29960908	3	4	103	1	0	0	0	0	1	0	0	0	4411	1261	44	5	313	5	DEFB118	20	29960908	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4518665	29960908	33064612	1866	63815											
SNTA1	6640	broad.mit.edu	37	chr20	32000508	32000508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcttggatggcagtcGcccacgacctcgcactagcc	6	7	12	16	3	0	0	0	0	0	0	2	2	0	1	4	3	1	3	4	3	1	2	rs139467962		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:32000508G>A	uc002wzd.1	-	4	1054	c.782C>T	c.(781-783)GCG>GTG	p.A261V	SNTA1_uc010zuf.1_Intron	NM_003098	NP_003089	Q13424	SNTA1_HUMAN	acidic alpha 1 syntrophin	261	PH 1.				muscle contraction	cell junction|cytoplasm|cytoskeleton|sarcolemma	actin binding|calmodulin binding			skin(1)	1						GATGGCAGTCGCCCACGACCT	0.607													27	24					0	0	1	0	0		A	32000508	A	A	32000508	3	1	103	1	0	0	0	0	1	0	0	0	14896	1087	38	1	755	1	SNTA1	20	32000508	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2039600	32000508	31025012	1867	63816											
CEP250	11190	broad.mit.edu	37	chr20	34092805	34092805	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacaagcctctgtcctggAgcgggactcagaacagcaaa	12	6	10	13	1	2	1	1	0	1	1	3	3	3	3	3	2	5	1	3	2	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:34092805A>C	uc002xcm.2	+	31	7279	c.6608A>C	c.(6607-6609)GAG>GCG	p.E2203A	CEP250_uc010zve.1_Missense_Mutation_p.E1571A	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	2203	Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			TCTGTCCTGGAGCGGGACTCA	0.607													10	22					0	0	1	0	0		C	34092805	C	C	34092805	3	2	103	1	0	0	0	0	1	0	0	0	3255	304	11	5	6714	5	CEP250	20	34092805	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	2092297	34092805	28932715	1868	63817											
DLGAP4	22839	broad.mit.edu	37	chr20	35127677	35127677	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaacggttcccacctctcGgaggacaacggacccaaagc	12	4	11	14	3	1	0	0	0	1	0	3	4	2	4	3	5	3	1	3	5	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:35127677G>A	uc002xff.2	+	9	2478	c.2043G>A	c.(2041-2043)TCG>TCA	p.S681S	DLGAP4_uc010zvp.1_Silent_p.S681S|DLGAP4_uc002xfg.2_Intron|DLGAP4_uc002xfh.2_Intron|DLGAP4_uc002xfi.2_5'UTR|DLGAP4_uc002xfj.2_5'UTR	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				CCCACCTCTCGGAGGACAACG	0.468													25	32					0	0	1	0	0		A	35127677	A	A	35127677	2	1	103	1	0	0	0	0	0	0	0	1	4568	1103	39	1		1	DLGAP4	20	35127677	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1034872	35127677	27897843	1869	63818											
C20orf117	140710	broad.mit.edu	37	chr20	35444330	35444330	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctctgccaagctctccccGcactctccgccacccagcgc	6	6	7	22	3	3	0	0	0	3	0	5	0	3	0	6	0	4	3	6	0	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:35444330G>A	uc002xgd.1	-	5	1128	c.801C>T	c.(799-801)TGC>TGT	p.C267C	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	267											0		Myeloproliferative disorder(115;0.00874)				AGCTCTCCCCGCACTCTCCGC	0.667													8	9					0	0	1	0	0		A	35444330	A	A	35444330	2	1	103	1	0	0	0	0	0	0	0	1	2086	1079	38	1		1	C20orf117	20	35444330	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	316653	35444330	27581190	1870	63819											
C20orf117	140710	broad.mit.edu	37	chr20	35444560	35444560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcctcggctgacagcgCgctgtccaggtccccataga	7	7	11	16	3	0	2	0	1	0	1	4	2	3	2	4	2	2	3	4	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:35444560C>T	uc002xgd.1	-	5	898	c.571G>A	c.(571-573)GCG>ACG	p.A191T	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	191											0		Myeloproliferative disorder(115;0.00874)				GCTGACAGCGCGCTGTCCAGG	0.617													21	40					0	0	1	0	0		T	35444560	T	T	35444560	3	4	103	1	0	0	0	0	1	0	0	0	2086	768	27	1	3806	1	C20orf117	20	35444560	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	230	35444560	27580960	1871	63820											
KIAA0406	9675	broad.mit.edu	37	chr20	36640541	36640541	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttgtgtattcttcaagtaTagatgtcacaatctctctca	11	16	5	9	0	5	1	3	0	3	1	7	1	5	1	0	0	0	2	0	0	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:36640541T>C	uc002xhl.2	-	3	1887	c.1678A>G	c.(1678-1680)ATA>GTA	p.I560V	KIAA0406_uc002xhm.2_Missense_Mutation_p.I560V	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	560							binding				0		Myeloproliferative disorder(115;0.00874)				TCTTCAAGTATAGATGTCACA	0.433													80	102					0	0	1	0	0		C	36640541	C	C	36640541	3	2	103	1	0	0	0	0	1	0	0	0	8189	1406	49	3	1619	3	KIAA0406	20	36640541	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1195981	36640541	26384979	1872	63821											
PPP1R16B	26051	broad.mit.edu	37	chr20	37536791	37536791	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcggacctccacctacaaCggggacatcagggagaccag	12	3	12	14	2	1	1	1	0	0	1	2	4	2	3	4	4	3	0	4	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:37536791C>T	uc002xje.2	+	10	1338	c.1149C>T	c.(1147-1149)AAC>AAT	p.N383N	PPP1R16B_uc010ggc.2_Silent_p.N341N	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	383					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CCACCTACAACGGGGACATCA	0.592													23	40					0	0	1	0	0		T	37536791	T	T	37536791	2	4	103	1	0	0	0	0	0	0	0	1	12388	535	19	1		1	PPP1R16B	20	37536791	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	896250	37536791	25488729	1873	63822											
PLCG1	5335	broad.mit.edu	37	chr20	39798904	39798904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggcccagacagcagacGccagggtgagattctgctgg	10	6	15	10	1	1	3	0	1	1	3	1	4	1	3	2	3	2	2	2	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:39798904G>A	uc002xjp.1	+	24	2924	c.2803G>A	c.(2803-2805)GCC>ACC	p.A935T	PLCG1_uc002xjo.1_Missense_Mutation_p.A935T|PLCG1_uc010zwe.1_Missense_Mutation_p.A561T|PLCG1_uc010ggf.2_Missense_Mutation_p.A259T	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	935					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				GACAGCAGACGCCAGGGTGAG	0.647													16	27					0	0	1	0	0		A	39798904	A	A	39798904	3	1	103	1	0	0	0	0	1	0	0	0	12054	1087	38	1	2897	1	PLCG1	20	39798904	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2262113	39798904	23226616	1874	63823											
CHD6	84181	broad.mit.edu	37	chr20	40045241	40045241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggctcaccttgtggatctggGccgccaatgctgcgccgttg	4	10	14	13	3	2	0	1	0	1	0	2	1	2	1	4	3	2	3	4	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:40045241G>A	uc002xka.1	-	33	6651	c.6473C>T	c.(6472-6474)GCC>GTC	p.A2158V	CHD6_uc002xjz.1_5'Flank	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2158					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				GTGGATCTGGGCCGCCAATGC	0.517													50	81					0	0	1	0	0		A	40045241	A	A	40045241	3	1	103	1	0	0	0	0	1	0	0	0	3332	1203	42	2	1694	2	CHD6	20	40045241	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	246337	40045241	22980279	1875	63824											
PABPC1L	80336	broad.mit.edu	37	chr20	43545401	43545401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccctgtggcccaggtggCgtgtgacgagcatggctccc	4	8	14	15	2	0	1	0	1	0	0	2	2	2	1	4	4	1	2	4	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:43545401C>T	uc010ggv.1	+	3	474	c.392C>T	c.(391-393)GCG>GTG	p.A131V	PABPC1L_uc010zwq.1_RNA	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	131	RRM 2.						nucleotide binding|RNA binding			ovary(1)	1						GCCCAGGTGGCGTGTGACGAG	0.562													55	115					0	0	1	0	0		T	43545401	T	T	43545401	3	4	103	1	0	0	0	0	1	0	0	0	11383	768	27	1	402	1	PABPC1L	20	43545401	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3500160	43545401	19480119	1876	63825											
C20orf165	128497	broad.mit.edu	37	chr20	44515246	44515246	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtgcctgctcccaccgCgccccctccacagcaccctc	5	6	7	23	2	0	0	0	0	0	0	3	0	2	0	7	0	3	3	7	0	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:44515246C>T	uc002xqf.2	-	2	603	c.594G>A	c.(592-594)GCG>GCA	p.A198A		NM_080608	NP_542175	Q9BR10	CT165_HUMAN	chromosome 20 open reading frame 165	198						integral to membrane					0		Myeloproliferative disorder(115;0.0122)				GCTCCCACCGCGCCCCCTCCA	0.622													45	58					0	0	1	0	0		T	44515246	T	T	44515246	2	4	103	1	0	0	0	0	0	0	0	1	2097	755	27	1		1	C20orf165	20	44515246	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	969845	44515246	18510274	1877	63826											
CTSA	5476	broad.mit.edu	37	chr20	44527008	44527008	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaacattgctcctcagggCgccggccacatggttcccac	8	7	10	16	3	1	0	1	0	0	0	3	1	3	0	4	3	2	2	4	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:44527008C>T	uc002xqj.3	+	15	1836	c.1362C>T	c.(1360-1362)GGC>GGT	p.G454G	CTSA_uc002xqh.2_Silent_p.G472G|CTSA_uc002xqi.2_RNA|CTSA_uc010zxi.1_Silent_p.G455G|CTSA_uc002xqk.3_Silent_p.G454G	NM_001127695	NP_001121167	P10619	PPGB_HUMAN	cathepsin A isoform b precursor	454					intracellular protein transport|proteolysis	endoplasmic reticulum|lysosome|nucleus	enzyme activator activity|protein binding|serine-type carboxypeptidase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CTCCTCAGGGCGCCGGCCACA	0.572													8	17					0	0	1	0	0		T	44527008	T	T	44527008	2	4	103	1	0	0	0	0	0	0	0	1	4032	755	27	1		1	CTSA	20	44527008	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	11762	44527008	18498512	1878	63827											
MMP9	4318	broad.mit.edu	37	chr20	44639150	44639150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actactcggaagacttgccgCgggcggtgattgacgacgcc	8	7	14	12	6	0	3	0	2	0	1	1	5	0	4	2	3	2	0	2	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:44639150C>T	uc002xqz.2	+	3	419	c.400C>T	c.(400-402)CGG>TGG	p.R134W		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	134					collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	AGACTTGCCGCGGGCGGTGAT	0.617													25	36					0	0	1	0	0		T	44639150	T	T	44639150	3	4	103	1	0	0	0	0	1	0	0	0	9687	759	27	1	410	1	MMP9	20	44639150	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	112142	44639150	18386370	1879	63828											
MMP9	4318	broad.mit.edu	37	chr20	44641102	44641102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtggcggcgcatgagttcgGccacgcgctgggcttagatc	5	8	16	12	6	0	2	0	1	0	1	2	2	0	2	1	4	0	4	1	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:44641102G>A	uc002xqz.2	+	8	1230	c.1211G>A	c.(1210-1212)GGC>GAC	p.G404D		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	404					collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	CATGAGTTCGGCCACGCGCTG	0.642													30	53					0	0	1	0	0		A	44641102	A	A	44641102	3	1	103	1	0	0	0	0	1	0	0	0	9687	1203	42	2	1241	2	MMP9	20	44641102	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1952	44641102	18384418	1880	63829											
SLC12A5	57468	broad.mit.edu	37	chr20	44669091	44669091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatgctgaacaacatgcGtgtttacggcacctgtgtgc	9	10	11	11	2	0	1	0	1	0	0	0	1	0	1	2	1	7	3	2	1	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:44669091G>A	uc010zxl.1	+	7	837	c.761G>A	c.(760-762)CGT>CAT	p.R254H	SLC12A5_uc002xra.2_Missense_Mutation_p.R231H|SLC12A5_uc010zxm.1_Intron|SLC12A5_uc002xrb.2_Missense_Mutation_p.R231H	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	254	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	AACAACATGCGTGTTTACGGC	0.547													29	42					0	0	1	0	0		A	44669091	A	A	44669091	3	1	103	1	0	0	0	0	1	0	0	0	14411	1145	40	1	843	1	SLC12A5	20	44669091	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	27989	44669091	18356429	1881	63830											
SLC12A5	57468	broad.mit.edu	37	chr20	44671923	44671923	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagtgatatgacctcctacTtcaccctgctggttggcatc	7	13	8	13	0	2	2	2	2	0	0	4	2	3	2	3	2	2	3	3	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:44671923T>G	uc010zxl.1	+	9	1343	c.1267T>G	c.(1267-1269)TTC>GTC	p.F423V	SLC12A5_uc010zxm.1_Intron|SLC12A5_uc002xrb.2_Missense_Mutation_p.F400V	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	423	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	GACCTCCTACTTCACCCTGCT	0.562													112	126					0	0	1	0	0		G	44671923	G	G	44671923	3	3	103	1	0	0	0	0	1	0	0	0	14411	1609	56	5	1357	5	SLC12A5	20	44671923	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2832	44671923	18353597	1882	63831											
ELMO2	63916	broad.mit.edu	37	chr20	44997547	44997547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacctcatatttattaggtgCgatgaagtttaaggtctcat	11	15	8	7	1	2	1	2	1	1	0	3	2	2	1	1	2	1	1	1	2	5	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:44997547C>T	uc002xrt.1	-	21	2155	c.1945G>A	c.(1945-1947)GCA>ACA	p.A649T	ELMO2_uc010zxq.1_Missense_Mutation_p.A381T|ELMO2_uc002xrs.1_Missense_Mutation_p.A396T|ELMO2_uc002xru.1_Missense_Mutation_p.A649T|ELMO2_uc010zxr.1_Missense_Mutation_p.A661T|ELMO2_uc010zxs.1_Missense_Mutation_p.A466T	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2	649	PH.				apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				TTATTAGGTGCGATGAAGTTT	0.458													41	94					0	0	1	0	0		T	44997547	T	T	44997547	3	4	103	1	0	0	0	0	1	0	0	0	5074	768	27	1	225	1	ELMO2	20	44997547	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	325624	44997547	18027973	1883	63832											
ELMO2	63916	broad.mit.edu	37	chr20	45017707	45017707	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttggttccactttccacGagccttgtcagcacaatgat	9	12	8	12	1	1	1	1	1	0	0	3	2	3	1	3	1	3	3	3	1	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:45017707G>T	uc002xrt.1	-	7	606	c.396C>A	c.(394-396)CTC>CTA	p.L132L	ELMO2_uc002xru.1_Silent_p.L132L|ELMO2_uc010zxr.1_Silent_p.L132L|ELMO2_uc010zxs.1_5'UTR|ELMO2_uc002xrw.2_5'Flank|ELMO2_uc002xrx.1_Silent_p.L132L	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2	132					apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CACTTTCCACGAGCCTTGTCA	0.522													24	43					7.07758e-08	7.29798e-08	1	1	0		T	45017707	T	T	45017707	2	4	103	1	0	0	0	0	0	0	0	1	5074	1045	37	5		5	ELMO2	20	45017707	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	20160	45017707	18007813	1884	63833											
SLC2A10	81031	broad.mit.edu	37	chr20	45354006	45354006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcgctgtggttggcttcGccatttccctctcctccatg	2	13	10	16	3	1	0	0	0	1	0	5	0	3	0	5	2	0	3	5	2	0	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:45354006G>A	uc002xsl.2	+	2	428	c.331G>A	c.(331-333)GCC>ACC	p.A111T		NM_030777	NP_110404	O95528	GTR10_HUMAN	solute carrier family 2 member 10	111	Helical; Name=4; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GGTTGGCTTCGCCATTTCCCT	0.652													35	52					0	0	1	0	0		A	45354006	A	A	45354006	3	1	103	1	0	0	0	0	1	0	0	0	14564	1087	38	1	337	1	SLC2A10	20	45354006	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	336299	45354006	17671514	1885	63834											
SULF2	55959	broad.mit.edu	37	chr20	46295140	46295140	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaggtttcggggctgggCggcatcacccaggcctacgt	5	8	17	11	3	1	1	1	1	0	0	2	1	1	1	2	7	1	3	2	7	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:46295140C>T	uc002xto.2	-	12	1999	c.1669G>A	c.(1669-1671)GCC>ACC	p.A557T	SULF2_uc002xtr.2_Missense_Mutation_p.A557T|SULF2_uc002xtq.2_Missense_Mutation_p.A557T|SULF2_uc010zyd.1_5'Flank	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	557					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						CGGGGCTGGGCGGCATCACCC	0.647													35	67					0	0	1	0	0		T	46295140	T	T	46295140	3	4	103	1	0	0	0	0	1	0	0	0	15396	768	27	1	983	1	SULF2	20	46295140	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	941134	46295140	16730380	1886	63835											
SULF2	55959	broad.mit.edu	37	chr20	46307454	46307454	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccgtgtccagcagcttgaGgatggatttcccgtccatat	7	12	10	12	2	0	1	0	1	0	0	4	3	4	3	4	2	2	2	4	2	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:46307454G>T	uc002xto.2	-	8	1489	c.1159C>A	c.(1159-1161)CTC>ATC	p.L387I	SULF2_uc002xtr.2_Missense_Mutation_p.L387I|SULF2_uc002xtq.2_Missense_Mutation_p.L387I	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	387					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						AGCAGCTTGAGGATGGATTTC	0.607													57	133					2.2129e-31	2.39488e-31	1	1	0		T	46307454	T	T	46307454	3	4	103	1	0	0	0	0	1	0	0	0	15396	1000	35	5	1509	5	SULF2	20	46307454	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	12314	46307454	16718066	1887	63836											
ARFGEF2	10564	broad.mit.edu	37	chr20	47605105	47605105	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtaaagatctgccagaagaGtatctctcaagcatctatga	15	10	8	8	0	4	4	1	1	3	3	5	4	4	4	1	0	2	3	1	0	6	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:47605105G>T	uc002xtx.3	+	18	2591	c.2439G>T	c.(2437-2439)GAG>GAT	p.E813D	ARFGEF2_uc010zyf.1_Missense_Mutation_p.E106D	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	813					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			TGCCAGAAGAGTATCTCTCAA	0.313													38	47					3.2961e-07	3.38175e-07	1	1	0		T	47605105	T	T	47605105	3	4	103	1	0	0	0	0	1	0	0	0	853	1020	36	5	2509	5	ARFGEF2	20	47605105	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1297651	47605105	15420415	1888	63837											
SLC9A8	23315	broad.mit.edu	37	chr20	48472053	48472053	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcacttcatgtggacccCgtgctcaacatgctggtctt	8	12	9	12	1	3	0	2	0	1	0	3	1	3	1	2	2	4	3	2	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:48472053C>T	uc002xuv.1	+	8	858	c.648C>T	c.(646-648)CCC>CCT	p.P216P	SLC9A8_uc010zym.1_5'UTR|SLC9A8_uc010zyj.1_Silent_p.P232P|SLC9A8_uc010zyk.1_Missense_Mutation_p.R205C|SLC9A8_uc010zyl.1_Missense_Mutation_p.R177C|SLC9A8_uc010gib.1_Missense_Mutation_p.R171C	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	216						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			ATGTGGACCCCGTGCTCAACA	0.473													37	55					0	0	1	0	0		T	48472053	T	T	48472053	2	4	103	1	0	0	0	0	0	0	0	1	14745	639	23	1		1	SLC9A8	20	48472053	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	866948	48472053	14553467	1889	63838											
PTPN1	5770	broad.mit.edu	37	chr20	49196318	49196318	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacctccccggccacccaaaCgaatcctggagccacacaat	12	4	6	19	2	0	0	0	0	0	0	2	2	2	1	7	2	2	0	7	2	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:49196318C>T	uc002xvl.2	+	8	1117	c.943C>T	c.(943-945)CGA>TGA	p.R315*	PTPN1_uc010zys.1_Nonsense_Mutation_p.R242*	NM_002827	NP_002818	P18031	PTN1_HUMAN	protein tyrosine phosphatase, non-receptor type	315					blood coagulation|interferon-gamma-mediated signaling pathway|negative regulation of insulin receptor signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol|endoplasmic reticulum membrane	protein tyrosine phosphatase activity|zinc ion binding				0		Lung NSC(126;0.163)			Clodronate(DB00720)|Tiludronate(DB01133)	GCCACCCAAACGAATCCTGGA	0.567											OREG0026029	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	59					0	0	1	0	0		T	49196318	T	T	49196318	4	4	103	1	0	0	0	0	0	1	0	0	12802	528	19	1	973	1	PTPN1	20	49196318	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	724265	49196318	13829202	1890	63839											
ADNP	23394	broad.mit.edu	37	chr20	49520470	49520470	+	Frame_Shift_Del	DEL	T	-	-																															caacccaatgtcactaagtaTttttttcacagttttccggg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:49520470delT	uc002xvt.1	-	3	409	c.64delA	c.(64-66)ATAfs	p.I22fs	ADNP_uc002xvu.1_Frame_Shift_Del_p.I22fs	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	22						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						TCACTAAGTATTTTTTTCACA	0.313													19	37	---	---	---	---						.	-	49520470	-	-	49520470	7	5	103	1	0	1	0	1	0	0	0	0	323	1493	52	0	3256	0	ADNP	20	49520470	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	324152	49520470	13505050	1891	63840											
C20orf43	51507	broad.mit.edu	37	chr20	55093208	55093208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagccacaaagaggtccatcGctgacagtgaagaatcggag	14	5	13	9	2	0	4	0	2	0	2	3	6	1	5	2	2	1	1	2	2	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:55093208G>A	uc002xxt.2	+	9	915	c.808G>A	c.(808-810)GCT>ACT	p.A270T	C20orf43_uc010zzf.1_Missense_Mutation_p.A300T|C20orf43_uc002xxu.2_Missense_Mutation_p.A269T|C20orf43_uc002xxv.2_3'UTR|GCNT7_uc010zzg.1_Intron	NM_016407	NP_057491	Q9BY42	CT043_HUMAN	hypothetical protein LOC51507	270										ovary(1)	1			Colorectal(105;0.202)			GAGGTCCATCGCTGACAGTGA	0.542													33	50					0	0	1	0	0		A	55093208	A	A	55093208	3	1	103	1	0	0	0	0	1	0	0	0	2115	1087	38	1	842	1	C20orf43	20	55093208	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5572738	55093208	7932312	1892	63841											
STX16	8675	broad.mit.edu	37	chr20	57246273	57246273	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatggtggaagagcgggaaCgagagattcgccagattgta	12	8	16	5	3	0	4	0	1	0	3	1	8	0	6	1	3	2	1	1	3	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:57246273C>T	uc002xzi.2	+	7	1447	c.712C>T	c.(712-714)CGA>TGA	p.R238*	STX16_uc010zzq.1_Nonsense_Mutation_p.R52*|STX16_uc002xzk.2_Nonsense_Mutation_p.R221*|STX16_uc002xzm.2_Nonsense_Mutation_p.R234*|STX16_uc002xzj.2_Nonsense_Mutation_p.R217*|STX16_uc002xzl.2_Nonsense_Mutation_p.R52*	NM_001001433	NP_001001433	O14662	STX16_HUMAN	syntaxin 16 isoform a	238	t-SNARE coiled-coil homology.|Cytoplasmic (Potential).				intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|microsome|SNARE complex	SNAP receptor activity			ovary(1)	1	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;3.73e-09)|Epithelial(14;8.54e-06)|all cancers(14;6.89e-05)			AGAGCGGGAACGAGAGATTCG	0.473													41	54					0	0	1	0	0		T	57246273	T	T	57246273	4	4	103	1	0	0	0	0	0	1	0	0	15364	528	19	1	738	1	STX16	20	57246273	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2153065	57246273	5779247	1893	63842											
GNAS	2778	broad.mit.edu	37	chr20	57485424	57485424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaggacccacgcgtgaccCgggccaagtacttcattcga	10	6	12	13	4	1	2	1	1	0	1	2	5	1	3	3	2	1	1	3	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:57485424C>T	uc002xzw.2	+	12	3220	c.2935C>T	c.(2935-2937)CGG>TGG	p.R979W	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Missense_Mutation_p.R277W|GNAS_uc002xzx.2_Missense_Mutation_p.R277W|GNAS_uc010gjr.2_Missense_Mutation_p.R227W|GNAS_uc002xzy.2_Missense_Mutation_p.R262W|GNAS_uc002yaa.2_Missense_Mutation_p.R322W|GNAS_uc010zzt.1_Missense_Mutation_p.R337W|GNAS_uc002yab.2_Intron|GNAS_uc002yad.2_Missense_Mutation_p.R227W|GNAS_uc002yae.2_Missense_Mutation_p.R261W	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	336					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			ACGCGTGACCCGGGCCAAGTA	0.443			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			16	37					0	0	1	0	0		T	57485424	T	T	57485424	3	4	103	1	0	0	0	0	1	0	0	0	6525	643	23	1	3869	1	GNAS	20	57485424	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	239151	57485424	5540096	1894	63843											
ZNF831	128611	broad.mit.edu	37	chr20	57766438	57766438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaacatcgtgggcactctgCctgtcctgtcgccgggcctg	4	10	13	14	3	1	1	0	1	1	0	4	1	2	1	4	2	2	1	4	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:57766438C>T	uc002yan.2	+	1	364	c.364C>T	c.(364-366)CCT>TCT	p.P122S		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	122						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGGCACTCTGCCTGTCCTGTC	0.682													14	25					0	0	1	0	0		T	57766438	T	T	57766438	3	4	103	1	0	0	0	0	1	0	0	0	18210	739	26	2	366	2	ZNF831	20	57766438	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	281014	57766438	5259082	1895	63844											
TAF4	6874	broad.mit.edu	37	chr20	60575303	60575303	+	Frame_Shift_Del	DEL	T	-	-																															tgtaattccgttataccatgTtttttacctaaaggtcaggc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:60575303delT	uc002ybs.2	-	11	2664	c.2664delA	c.(2662-2664)AAAfs	p.K888fs		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	888					interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			TTATACCATGTTTTTTACCTA	0.353													48	73	---	---	---	---						.	-	60575303	-	-	60575303	7	5	103	1	0	1	0	1	0	0	0	0	15551	1722	60	0	613	0	TAF4	20	60575303	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	2808865	60575303	2450217	1896	63845											
LAMA5	3911	broad.mit.edu	37	chr20	60887229	60887229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgggtgtgaggtctcacCggggacgcccggtagtagag	7	6	18	10	4	1	2	1	1	1	1	2	3	1	3	2	5	0	3	2	5	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:60887229C>T	uc002ycq.2	-	69	9571	c.9504G>A	c.(9502-9504)CCG>CCA	p.P3168P		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3168	Laminin G-like 3.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GAGGTCTCACCGGGGACGCCC	0.687													6	5					0	0	1	0	0		T	60887229	T	T	60887229	2	4	103	1	0	0	0	0	0	0	0	1	8625	666	23	1		1	LAMA5	20	60887229	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	311926	60887229	2138291	1897	63846											
DIDO1	11083	broad.mit.edu	37	chr20	61512527	61512528	+	Frame_Shift_Del	DEL	TC	-	-																															cgaggccacccctggaagcaTctctctcgggcagggcaccc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:61512527_61512528delTC	uc002ydr.1	-	16	5044_5045	c.4780_4781delGA	c.(4780-4782)GATfs	p.D1594fs	DIDO1_uc002yds.1_Frame_Shift_Del_p.D1594fs	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1594					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CCTGGAAGCATCTCTCTCGGGC	0.713													15	25	---	---	---	---						.	-	61512528	-	-	61512527	7	5	103	1	0	1	0	1	0	0	0	0	4528	1435	50	0	1945	0	DIDO1	20	61512527	Frame_Shift_Del	DEL	TC	TCGA-BR-A4QL-01A-31D-A25D-08	625298	61512527	1512993	1898	63847											
BHLHE23	128408	broad.mit.edu	37	chr20	61637728	61637728	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcagcccgtccagcgcgtcGtttaggtcgtgcatgcgccg	4	8	14	15	8	0	0	0	0	0	0	3	0	1	0	3	1	4	3	3	1	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:61637728G>A	uc002yeb.2	-	1	660	c.351C>T	c.(349-351)AAC>AAT	p.N117N		NM_080606	NP_542173	Q8NDY6	BHE23_HUMAN	basic helix-loop-helix domain containing, class	117	Helix-loop-helix motif.				transcription, DNA-dependent	nucleus	DNA binding				0						CCAGCGCGTCGTTTAGGTCGT	0.368													12	9					0	0	1	0	0		A	61637728	A	A	61637728	2	1	103	1	0	0	0	0	0	0	0	1	1423	1136	40	1		1	BHLHE23	20	61637728	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	125201	61637728	1387792	1899	63848											
COL20A1	57642	broad.mit.edu	37	chr20	61941805	61941805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagagtacctggtctccGtgttccccatctatgagggc	7	10	11	13	1	2	2	0	1	2	1	4	2	3	2	4	2	1	3	4	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:61941805G>A	uc011aau.1	+	11	1436	c.1336G>A	c.(1336-1338)GTG>ATG	p.V446M	COL20A1_uc011aav.1_Missense_Mutation_p.V267M	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	446	Fibronectin type-III 2.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CCTGGTCTCCGTGTTCCCCAT	0.687													7	12					0	0	1	0	0		A	61941805	A	A	61941805	3	1	103	1	0	0	0	0	1	0	0	0	3682	1145	40	1	1374	1	COL20A1	20	61941805	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	304077	61941805	1083715	1900	63849											
CHRNA4	1137	broad.mit.edu	37	chr20	61981737	61981737	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaagaccctgcgtacccaGgtgggcatggtgtgcgtgcg	7	7	17	10	3	0	1	0	0	0	1	0	2	0	2	2	4	4	2	2	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:61981737G>T	uc002yes.2	-	5	1204	c.1026C>A	c.(1024-1026)ACC>ACA	p.T342T	CHRNA4_uc002yet.1_Silent_p.T166T|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Silent_p.T271T|CHRNA4_uc002yev.1_Silent_p.T166T|CHRNA4_uc010gkf.1_Silent_p.T166T	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	342	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	TGCGTACCCAGGTGGGCATGG	0.617													4	72					0.00909568	0.00915813	1	1	0		T	61981737	T	T	61981737	2	4	103	1	0	0	0	0	0	0	0	1	3388	987	35	5		5	CHRNA4	20	61981737	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	39932	61981737	1043783	1901	63850											
DNAJC5	80331	broad.mit.edu	37	chr20	62560719	62560719	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgacaacccggaggccgcGgacaagtttaaggagatcaa	13	4	12	12	4	1	1	1	0	0	1	1	5	1	3	3	4	1	1	3	4	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:62560719G>A	uc002yhf.2	+	3	332	c.162G>A	c.(160-162)GCG>GCA	p.A54A	DNAJC5_uc002yhg.1_Silent_p.A54A|DNAJC5_uc002yhh.2_RNA	NM_025219	NP_079495	Q9H3Z4	DNJC5_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	54	J.				neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CGGAGGCCGCGGACAAGTTTA	0.552													24	31					0	0	1	0	0		A	62560719	A	A	62560719	2	1	103	1	0	0	0	0	0	0	0	1	4656	1103	39	1		1	DNAJC5	20	62560719	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	578982	62560719	464801	1902	63851											
UCKL1	54963	broad.mit.edu	37	chr20	62571561	62571561	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtccaccgccgtggtgatGattctcactcgcggaaatgc	7	11	11	12	4	1	2	1	2	1	0	4	3	2	3	3	2	1	0	3	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:62571561G>A	uc010gkn.2	-	14	1552	c.1509C>T	c.(1507-1509)ATC>ATT	p.I503I	UCKL1_uc002yhj.2_Silent_p.I146I|UCKL1_uc011abm.1_Silent_p.I488I|UCKL1_uc011abn.1_RNA	NM_017859	NP_060329	Q9NWZ5	UCKL1_HUMAN	uridine-cytidine kinase 1-like 1	503					interspecies interaction between organisms	endoplasmic reticulum|nucleus	ATP binding|phosphotransferase activity, alcohol group as acceptor|protein binding|uridine kinase activity				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CCGTGGTGATGATTCTCACTC	0.592													17	30					0	0	1	0	0		A	62571561	A	A	62571561	2	1	103	1	0	0	0	0	0	0	0	1	16951	1280	45	4		4	UCKL1	20	62571561	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	10842	62571561	453959	1903	63852											
ZNF512B	57473	broad.mit.edu	37	chr20	62597786	62597786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccggcatggccttggtgaCgggcatgggcctgctgactg	5	8	17	11	2	0	2	0	2	0	0	0	3	0	2	3	5	1	3	3	5	0	1	rs148308453		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr20:62597786C>T	uc002yhl.1	-	5	796	c.742G>A	c.(742-744)GTC>ATC	p.V248I		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	248					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					GCCTTGGTGACGGGCATGGGC	0.597													118	246					0	0	1	0	0		T	62597786	T	T	62597786	3	4	103	1	0	0	0	0	1	0	0	0	17982	536	19	1	1988	1	ZNF512B	20	62597786	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	26225	62597786	427734	1904	63853											
TPTE	7179	broad.mit.edu	37	chr21	10951271	10951271	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataatcaaacttacctttcTacaaatactcgaagaagaac	19	10	3	9	1	2	2	1	0	1	2	3	3	2	2	1	0	5	0	1	0	10	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:10951271T>C	uc002yip.1	-	10	809	c.441A>G	c.(439-441)GTA>GTG	p.V147V	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Silent_p.V129V|TPTE_uc002yir.1_Silent_p.V109V|TPTE_uc010gkv.1_Silent_p.V9V	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	147	Helical; (Potential).				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CTTACCTTTCTACAAATACTC	0.229													15	66					0	0	1	0	0		C	10951271	C	C	10951271	2	2	103	1	0	0	0	0	0	0	0	1	16456	1509	53	3		3	TPTE	21	10951271	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08		10951271	37178624	1905	63854											
TPTE	7179	broad.mit.edu	37	chr21	10996060	10996060	+	RNA	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctcagaaacagagcctgaGgaatcttttctgatcacaga	13	10	9	9	0	4	5	2	2	2	3	4	6	4	6	1	1	3	1	1	1	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:10996060G>T	uc002yis.1	-	12		c.2126C>A						P56180	TPTE_HUMAN	Homo sapiens putative tyrosine phosphatase mRNA, complete cds.						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CAGAGCCTGAGGAATCTTTTC	0.383													12	38					7.03913e-09	7.29497e-09	1	1	0		T	10996060	T	T	10996060	1	4	103	0	1	0	0	0	0	0	0	0	16456	1015	35	5		5	TPTE	21	10996060	RNA	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	44789	10996060	37133835	1906	63855											
NCAM2	4685	broad.mit.edu	37	chr21	22370819	22370819	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcggccggggcagcgaaaGgttctctctccagggctgga	7	6	17	11	3	2	0	0	0	2	0	4	2	2	1	2	7	1	3	2	7	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:22370819G>T	uc002yld.1	+	1	187	c.-62G>T	c.(-64--60)AAGGT>AATGT		NCAM2_uc011acb.1_Translation_Start_Site	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor						neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		GGCAGCGAAAGGTTCTCTCTC	0.423													8	8					1.06961e-07	1.10181e-07	1	1	0		T	22370819	T	T	22370819	1	4	103	1	0	0	0	0	0	0	0	0	10222	1015	35	5		5	NCAM2	21	22370819	Translation_Start_Site	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	11374759	22370819	25759076	1907	63856											
GABPA	2551	broad.mit.edu	37	chr21	27137032	27137032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatcagcctgaactggttgCacagaaatggggacagcgta	14	7	12	8	1	1	2	1	1	0	1	1	3	1	3	1	3	4	3	1	3	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:27137032C>T	uc002ylx.3	+	9	1597	c.1070C>T	c.(1069-1071)GCA>GTA	p.A357V	GABPA_uc002yly.3_Missense_Mutation_p.A357V	NM_002040	NP_002031	Q06546	GABPA_HUMAN	GA binding protein transcription factor, alpha	357	ETS.				positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding			ovary(1)|central_nervous_system(1)	2						GAACTGGTTGCACAGAAATGG	0.388													33	67					0	0	1	0	0		T	27137032	T	T	27137032	3	4	103	1	0	0	0	0	1	0	0	0	6171	710	25	2	1100	2	GABPA	21	27137032	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4766213	27137032	20992863	1908	63857											
SYNJ1	8867	broad.mit.edu	37	chr21	34058147	34058147	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acactatgtaatttttctgcCtttcctcccttaaccatttg	8	18	3	12	0	1	0	0	0	1	0	3	0	3	0	4	0	2	1	4	0	3	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:34058147C>A	uc002yqh.2	-	9	1146	c.1146G>T	c.(1144-1146)AAG>AAT	p.K382N	SYNJ1_uc011ads.1_Missense_Mutation_p.K343N|SYNJ1_uc002yqf.2_Missense_Mutation_p.K343N|SYNJ1_uc002yqg.2_Missense_Mutation_p.K343N|SYNJ1_uc002yqi.2_Missense_Mutation_p.K382N	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	343	SAC.						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						ATTTTTCTGCCTTTCCTCCCT	0.338													4	70					0.000602214	0.000609638	1	1	0		A	34058147	A	A	34058147	3	1	103	1	0	0	0	0	1	0	0	0	15477	680	24	5	3822	5	SYNJ1	21	34058147	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	6921115	34058147	14071748	1909	63858											
PIGP	51227	broad.mit.edu	37	chr21	38444815	38444815	+	Frame_Shift_Del	DEL	T	-	-																															cgacggtgaattttccaccaTttttcctggggctttagaca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:38444815delT	uc002yvw.1	-	1	289	c.73delA	c.(73-75)ATGfs	p.M25fs	TTC3_uc002yvz.2_5'Flank|TTC3_uc011aee.1_5'Flank|PIGP_uc002yvy.1_RNA|PIGP_uc002yvx.1_Frame_Shift_Del_p.M1fs|TTC3_uc011aed.1_5'Flank|TTC3_uc010gne.1_5'Flank	NM_153681	NP_710148	P57054	PIGP_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	25					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity				0		Myeloproliferative disorder(46;0.0412)				TTTTCCACCATTTTTCCTGGG	0.488													113	155	---	---	---	---						.	-	38444815	-	-	38444815	7	5	103	1	0	1	0	1	0	0	0	0	11914	1493	52	0	419	0	PIGP	21	38444815	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	4386668	38444815	9685080	1910	63859											
KCNJ6	3763	broad.mit.edu	37	chr21	38997730	38997730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaggacaggtgtgaaccGgtaaccccacaggatctcac	11	6	12	12	1	2	1	2	1	1	0	3	3	2	3	3	5	2	1	3	5	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:38997730G>A	uc011aej.1	-	4	1056	c.1003C>T	c.(1003-1005)CGG>TGG	p.R335W	KCNJ6_uc002ywo.2_Missense_Mutation_p.R335W	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	335	Cytoplasmic (By similarity).				synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	GGTGTGAACCGGTAACCCCAC	0.527													19	39					0	0	1	0	0		A	38997730	A	A	38997730	3	1	103	1	0	0	0	0	1	0	0	0	8071	1115	39	1	272	1	KCNJ6	21	38997730	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	552915	38997730	9132165	1911	63860											
BRWD1	54014	broad.mit.edu	37	chr21	40627704	40627704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaacttgtccactacgacGcagaccaatatttggagggg	11	10	10	10	2	1	1	1	0	0	1	2	3	2	2	2	3	2	1	2	3	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:40627704G>A	uc002yxk.1	-	19	2261	c.2122C>T	c.(2122-2124)CGT>TGT	p.R708C	BRWD1_uc010goc.1_5'UTR|BRWD1_uc002yxl.2_Missense_Mutation_p.R708C|BRWD1_uc010goe.1_RNA|BRWD1_uc010gof.1_Missense_Mutation_p.R161C|BRWD1_uc010gog.1_RNA|BRWD1_uc010goh.1_Intron|BRWD1_uc010goi.1_Missense_Mutation_p.R428C	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	708					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				CCACTACGACGCAGACCAATA	0.438													20	44					0	0	1	0	0		A	40627704	A	A	40627704	3	1	103	1	0	0	0	0	1	0	0	0	1528	1087	38	1	5175	1	BRWD1	21	40627704	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1629974	40627704	7502191	1912	63861											
MX1	4599	broad.mit.edu	37	chr21	42824678	42824680	+	In_Frame_Del	DEL	AGA	-	-																															tgcattgcagaaggtcagagAgaaggagctggaagaagaaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:42824678_42824680delAGA	uc002yzh.2	+	18	2587_2589	c.1640_1642delAGA	c.(1639-1644)GAGAAG>GAG	p.K548del	MX1_uc002yzi.2_In_Frame_Del_p.K548del|MX1_uc010goq.2_In_Frame_Del_p.K548del	NM_001144925	NP_001138397	P20591	MX1_HUMAN	myxovirus resistance protein 1	548					induction of apoptosis|response to virus|type I interferon-mediated signaling pathway	cytosol	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(19;3.18e-07)|all_epithelial(19;0.0277)				AAGGTCAGAGAGAAGGAGCTGGA	0.507													78	136	---	---	---	---						.	-	42824680	-	-	42824678	7	5	103	1	0	1	0	1	0	0	0	0	10015	304	11	0	1686	0	MX1	21	42824678	In_Frame_Del	DEL	AGA	TCGA-BR-A4QL-01A-31D-A25D-08	2196974	42824678	5305217	1913	63862											
ZNF295	49854	broad.mit.edu	37	chr21	43413803	43413803	+	Frame_Shift_Del	DEL	T	-	-																															tcatcatcttctacaaacacTttttttctattaggacacgt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:43413803delT	uc002zab.3	-	3	616	c.402delA	c.(400-402)AAAfs	p.K134fs	ZNF295_uc002yzz.3_Frame_Shift_Del_p.K134fs|ZNF295_uc002yzy.3_Frame_Shift_Del_p.K134fs|ZNF295_uc002zaa.3_Frame_Shift_Del_p.K134fs|ZNF295_uc010gov.1_Frame_Shift_Del_p.K134fs|ZNF295_uc002zac.2_Frame_Shift_Del_p.K134fs	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	134					negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CTACAAACACTTTTTTTCTAT	0.378													24	34	---	---	---	---						.	-	43413803	-	-	43413803	7	5	103	1	0	1	0	1	0	0	0	0	17852	1606	56	0	2802	0	ZNF295	21	43413803	Frame_Shift_Del	DEL	T	TCGA-BR-A4QL-01A-31D-A25D-08	589125	43413803	4716092	1914	63863											
UMODL1	89766	broad.mit.edu	37	chr21	43508547	43508547	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccaccctgctgggtgaCattgcgaagcgtgtctatga	7	11	12	11	2	2	2	0	2	2	0	3	3	2	2	2	1	3	1	2	1	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:43508547C>T	uc002zaf.1	+	5	747	c.747C>T	c.(745-747)GAC>GAT	p.D249D	UMODL1_uc002zad.1_Silent_p.D177D|UMODL1_uc002zae.1_Silent_p.D177D|UMODL1_uc002zag.1_Silent_p.D249D|UMODL1_uc010gow.1_Silent_p.D41D|UMODL1_uc002zai.1_5'UTR|UMODL1_uc010gox.1_RNA|UMODL1_uc010goy.1_Intron|UMODL1_uc002zaj.1_RNA|UMODL1_uc010goz.1_Silent_p.D41D	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	249	Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						TGCTGGGTGACATTGCGAAGC	0.637													9	24					0	0	1	0	0		T	43508547	T	T	43508547	2	4	103	1	0	0	0	0	0	0	0	1	17006	477	17	4		4	UMODL1	21	43508547	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	94744	43508547	4621348	1915	63864											
ABCG1	9619	broad.mit.edu	37	chr21	43702507	43702507	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgaacaaccctccagtcAtgttcttcgatgagcccacc	9	10	8	14	1	2	2	1	2	1	0	4	3	3	2	4	1	3	1	4	1	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:43702507A>G	uc002zaq.2	+	6	818	c.712A>G	c.(712-714)ATG>GTG	p.M238V	ABCG1_uc002zan.2_Missense_Mutation_p.M240V|ABCG1_uc002zam.2_Missense_Mutation_p.M216V|ABCG1_uc002zao.2_Missense_Mutation_p.M235V|ABCG1_uc002zap.2_Missense_Mutation_p.M238V|ABCG1_uc002zar.2_Missense_Mutation_p.M249V|ABCG1_uc011aev.1_Missense_Mutation_p.M249V	NM_004915	NP_004906	P45844	ABCG1_HUMAN	ATP-binding cassette sub-family G member 1	238	Cytoplasmic (Potential).|ABC transporter.				amyloid precursor protein catabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|detection of hormone stimulus|high-density lipoprotein particle remodeling|intracellular cholesterol transport|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|positive regulation of cholesterol biosynthetic process|regulation of cholesterol esterification|regulation of transcription, DNA-dependent|response to lipid|reverse cholesterol transport	endoplasmic reticulum membrane|external side of plasma membrane|Golgi membrane|recycling endosome	ADP binding|ATP binding|cholesterol transporter activity|glycoprotein transporter activity|phospholipid transporter activity|protein heterodimerization activity|protein homodimerization activity|sterol-transporting ATPase activity|toxin transporter activity			ovary(2)|central_nervous_system(1)	3					Adenosine triphosphate(DB00171)	CCCTCCAGTCATGTTCTTCGA	0.617													24	40					0	0	1	0	0		G	43702507	G	G	43702507	3	3	103	1	0	0	0	0	1	0	0	0	68	217	8	3	902	3	ABCG1	21	43702507	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	193960	43702507	4427388	1916	63865											
TRPM2	7226	broad.mit.edu	37	chr21	45784127	45784127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccaaccgatgcctttggcGacatcgtcttcacgggcctg	6	10	11	14	4	2	0	1	0	1	0	3	2	2	0	4	2	3	0	4	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:45784127G>A	uc002zet.1	+	4	598	c.385G>A	c.(385-387)GAC>AAC	p.D129N	TRPM2_uc002zeu.1_Missense_Mutation_p.D129N|TRPM2_uc002zew.1_Missense_Mutation_p.D129N|TRPM2_uc010gpt.1_Missense_Mutation_p.D129N	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	129	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TGCCTTTGGCGACATCGTCTT	0.567													24	59					0	0	1	0	0		A	45784127	A	A	45784127	3	1	103	1	0	0	0	0	1	0	0	0	16612	1058	37	1	395	1	TRPM2	21	45784127	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2081620	45784127	2345768	1917	63866											
TRPM2	7226	broad.mit.edu	37	chr21	45833790	45833790	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtgtgaacttcaacccGgagcactgcagccccaatgg	10	6	11	14	1	1	1	1	1	0	0	1	2	1	2	4	3	5	2	4	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:45833790G>A	uc002zet.1	+	21	3192	c.2979G>A	c.(2977-2979)CCG>CCA	p.P993P	TRPM2_uc002zeu.1_Silent_p.P993P|TRPM2_uc002zew.1_Silent_p.P993P|TRPM2_uc010gpt.1_Silent_p.P993P|TRPM2_uc002zex.1_Silent_p.P779P|TRPM2_uc002zey.1_Silent_p.P506P	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	993	Extracellular (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						ACTTCAACCCGGAGCACTGCA	0.642													87	132					0	0	1	0	0		A	45833790	A	A	45833790	2	1	103	1	0	0	0	0	0	0	0	1	16612	1103	39	1		1	TRPM2	21	45833790	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	49663	45833790	2296105	1918	63867											
C21orf29	54084	broad.mit.edu	37	chr21	45924736	45924736	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccaggaaataatcttctcCcaccgagaaaaactcccagt	15	7	5	14	1	2	1	0	0	2	1	4	3	3	2	4	1	1	0	4	1	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:45924736C>A	uc002zfe.1	-	11	1849	c.1783G>T	c.(1783-1785)GGA>TGA	p.G595*	C21orf29_uc010gpv.1_Nonsense_Mutation_p.G527*	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	595	EAR 6.				cell adhesion	extracellular region	structural molecule activity				0						TAATCTTCTCCCACCGAGAAA	0.453													24	44					7.01153e-11	7.33674e-11	1	1	0		A	45924736	A	A	45924736	4	1	103	1	0	0	0	0	0	1	0	0	2127	632	22	5	234	5	C21orf29	21	45924736	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	90946	45924736	2205159	1919	63868											
C21orf29	54084	broad.mit.edu	37	chr21	45947323	45947323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagccccacctgagggatgCggaacacctcaatgcccagg	11	4	12	14	1	1	2	1	1	0	1	1	4	1	4	5	3	4	0	5	3	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:45947323C>T	uc002zfe.1	-	7	1067	c.1001G>A	c.(1000-1002)CGC>CAC	p.R334H	C21orf29_uc010gpv.1_Missense_Mutation_p.R266H	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	334	EAR 1.				cell adhesion	extracellular region	structural molecule activity				0						CTGAGGGATGCGGAACACCTC	0.522													49	57					0	0	1	0	0		T	45947323	T	T	45947323	3	4	103	1	0	0	0	0	1	0	0	0	2127	768	27	1	1032	1	C21orf29	21	45947323	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	22587	45947323	2182572	1920	63869											
KRTAP10-10	353333	broad.mit.edu	37	chr21	46057780	46057780	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaggcctgctgtgtgcCtgtctgctctaagtccgtct	4	12	11	14	1	3	0	0	0	3	0	4	0	4	0	4	1	4	3	4	1	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:46057780C>A	uc002zfq.2	+	1	508	c.446C>A	c.(445-447)CCT>CAT	p.P149H	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_181688	NP_859016	P60014	KR10A_HUMAN	keratin associated protein 10-10	149	15 X 5 AA repeats of C-C-X(3).|10.					keratin filament					0						TGCTGTGTGCCTGTCTGCTCT	0.577													135	202					8.93811e-64	9.71925e-64	1	1	0		A	46057780	A	A	46057780	3	1	103	1	0	0	0	0	1	0	0	0	8522	681	24	5	448	5	KRTAP10-10	21	46057780	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	110457	46057780	2072115	1921	63870											
PCBP3	54039	broad.mit.edu	37	chr21	47333910	47333910	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaccgcccaaagcccgccTccacccctgtcatttttgca	7	9	5	20	2	1	0	1	0	0	0	2	0	2	0	8	0	3	1	8	0	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr21:47333910T>A	uc002zhq.1	+	8	771	c.646T>A	c.(646-648)TCC>ACC	p.S216T	PCBP3_uc010gqb.2_Missense_Mutation_p.S216T|PCBP3_uc002zhp.1_Missense_Mutation_p.S216T|PCBP3_uc010gqc.1_Intron|PCBP3_uc002zhs.1_Intron|PCBP3_uc002zhr.1_Missense_Mutation_p.S216T|PCBP3_uc002zht.1_Missense_Mutation_p.S184T	NM_020528	NP_065389	P57721	PCBP3_HUMAN	poly(rC) binding protein 3 isoform 1	216					mRNA metabolic process	cytosol|mitochondrion|nucleus|ribonucleoprotein complex	DNA binding|RNA binding			skin(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0411)|READ - Rectum adenocarcinoma(84;0.0649)		AAAGCCCGCCTCCACCCCTGT	0.622													31	43					0	0	1	0	0		A	47333910	A	A	47333910	3	1	103	1	0	0	0	0	1	0	0	0	11521	1551	54	5	676	5	PCBP3	21	47333910	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1276130	47333910	795985	1922	63871											
CECR1	51816	broad.mit.edu	37	chr22	17687997	17687997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgttctgcacccgcttcCgataatcctccagcagaatc	9	10	7	15	3	1	2	0	1	1	1	5	3	4	2	4	0	2	4	4	0	2	3	rs77563738	by1000genomes	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:17687997C>T	uc002zmk.1	-	2	718	c.506G>A	c.(505-507)CGG>CAG	p.R169Q	CECR1_uc010gqu.1_Missense_Mutation_p.R169Q|CECR1_uc011agi.1_Missense_Mutation_p.R127Q|CECR1_uc011agj.1_Missense_Mutation_p.R127Q	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	169	PRB domain.				adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				CACCCGCTTCCGATAATCCTC	0.512													24	35					0	0	1	0	0		T	17687997	T	T	17687997	3	4	103	1	0	0	0	0	1	0	0	0	3208	652	23	1	1095	1	CECR1	22	17687997	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08		17687997	33616569	1923	63872											
HIRA	7290	broad.mit.edu	37	chr22	19344515	19344515	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgggagagaggagacggCgaccacaggtggagaacact	13	3	18	7	2	0	3	0	0	0	3	0	9	0	5	1	6	1	0	1	6	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:19344515C>T	uc002zpf.1	-	19	2514	c.2294G>A	c.(2293-2295)CGC>CAC	p.R765H	HIRA_uc011agx.1_Missense_Mutation_p.R631H|HIRA_uc010grn.1_Intron|HIRA_uc010gro.1_Missense_Mutation_p.R721H|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	765	Interaction with PAX3 (By similarity).|Interaction with histone H2B.|Interaction with histone H4.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					GAGGAGACGGCGACCACAGGT	0.587													75	131					0	0	1	0	0		T	19344515	T	T	19344515	3	4	103	1	0	0	0	0	1	0	0	0	7136	768	27	1	787	1	HIRA	22	19344515	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1656518	19344515	31960051	1924	63873											
COMT	1312	broad.mit.edu	37	chr22	19956139	19956139	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccagacttcctagcacaCgtgcgcgggagcagctgctt	7	7	13	14	4	0	1	0	0	0	1	1	2	1	2	2	1	5	4	2	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:19956139C>T	uc002zqu.2	+	6	945	c.696C>T	c.(694-696)CAC>CAT	p.H232H	COMT_uc002zqv.2_Silent_p.H232H|COMT_uc002zqw.2_Silent_p.H232H|COMT_uc011ahd.1_Silent_p.H232H|COMT_uc002zqx.2_Silent_p.H232H	NM_000754	NP_000745	P21964	COMT_HUMAN	catechol-O-methyltransferase isoform MB-COMT	232					neurotransmitter biosynthetic process|neurotransmitter catabolic process|xenobiotic metabolic process	cytosol|integral to membrane|intracellular membrane-bounded organelle|microsome|plasma membrane|soluble fraction	catechol O-methyltransferase activity|magnesium ion binding|protein binding			ovary(1)	1	Colorectal(54;0.0993)				Carbidopa(DB00190)|Conjugated Estrogens(DB00286)|Diethylstilbestrol(DB00255)|Dobutamine(DB00841)|Dopamine(DB00988)|Entacapone(DB00494)|Folic Acid(DB00158)|L-Valine(DB00161)|Levodopa(DB01235)|Methyldopa(DB00968)|Modafinil(DB00745)|Morphine(DB00295)|S-Adenosylmethionine(DB00118)|Tolcapone(DB00323)	TCCTAGCACACGTGCGCGGGA	0.607													18	25					0	0	1	0	0		T	19956139	T	T	19956139	2	4	103	1	0	0	0	0	0	0	0	1	3728	535	19	1		1	COMT	22	19956139	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	611624	19956139	31348427	1925	63874											
ZNF74	7625	broad.mit.edu	37	chr22	20759882	20759882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcaggtgtcccctcttcGcccagcaacgcgttcccgag	5	8	9	19	4	2	0	1	0	1	0	5	1	4	0	5	1	2	2	5	1	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:20759882G>A	uc010gsm.2	+	6	771	c.559G>A	c.(559-561)GCC>ACC	p.A187T	ZNF74_uc002zsg.2_Missense_Mutation_p.A116T|ZNF74_uc002zsh.2_Missense_Mutation_p.A187T|ZNF74_uc002zsi.2_Missense_Mutation_p.A116T|ZNF74_uc010gsn.2_Missense_Mutation_p.A116T	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	187					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			TCCCCTCTTCGCCCAGCAACG	0.667													13	6					0	0	1	0	0		A	20759882	A	A	20759882	3	1	103	1	0	0	0	0	1	0	0	0	18152	1087	38	1	577	1	ZNF74	22	20759882	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	803743	20759882	30544684	1926	63875											
KLHL22	84861	broad.mit.edu	37	chr22	20796462	20796462	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcaggggtcccgcggggCggctcaaggagcagggagcg	6	3	21	11	5	2	0	2	0	0	0	3	2	3	2	1	8	2	2	1	8	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:20796462C>T	uc002zsl.1	-	7	1912	c.1803G>A	c.(1801-1803)CCG>CCA	p.P601P	KLHL22_uc011ahr.1_Silent_p.P458P	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	601					cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			TCCCGCGGGGCGGCTCAAGGA	0.652													10	19					0	0	1	0	0		T	20796462	T	T	20796462	2	4	103	1	0	0	0	0	0	0	0	1	8393	755	27	1		1	KLHL22	22	20796462	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	36580	20796462	30508104	1927	63876											
HIC2	23119	broad.mit.edu	37	chr22	21799658	21799658	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggtccactggcatggggcgGcccccccgcagccagcggct	4	4	16	17	3	0	0	0	0	0	0	1	0	1	0	5	6	2	3	5	6	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:21799658G>C	uc002zur.3	+	3	704	c.474G>C	c.(472-474)CGG>CGC	p.R158R	HIC2_uc002zus.3_Silent_p.R158R	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	158					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				GCATGGGGCGGCCCCCCCGCA	0.716													8	7					0	0	1	0	0		C	21799658	C	C	21799658	2	2	103	1	0	0	0	0	0	0	0	1	7118	1190	42	5		5	HIC2	22	21799658	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1003196	21799658	29504908	1928	63877											
CABIN1	23523	broad.mit.edu	37	chr22	24573647	24573647	+	Frame_Shift_Del	DEL	C	-	-																															cccagccgggctaagtcccgCcccctgcccaacatgccaaa																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:24573647delC	uc002zzi.1	+	36	6508	c.6381delC	c.(6379-6381)CGCfs	p.R2127fs	CABIN1_uc002zzj.1_Frame_Shift_Del_p.R2048fs|CABIN1_uc002zzl.1_Frame_Shift_Del_p.R2127fs|CABIN1_uc010gul.1_Frame_Shift_Del_p.R65fs	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	2127	Required for interaction with calcineurin (By similarity).				cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CTAAGTCCCGCCCCCTGCCCA	0.687													18	40	---	---	---	---						.	-	24573647	-	-	24573647	7	5	103	1	0	1	0	1	0	0	0	0	2531	726	26	0	6519	0	CABIN1	22	24573647	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	2773989	24573647	26730919	1929	63878											
UPB1	51733	broad.mit.edu	37	chr22	24911250	24911250	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgcggtgaacatttgctacGggcggcaccaccccctcaac	8	7	10	16	4	1	1	1	1	0	0	2	1	1	1	3	3	4	2	3	3	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:24911250G>A	uc003aaf.2	+	6	824	c.703G>A	c.(703-705)GGG>AGG	p.G235R	UPB1_uc003aae.2_Missense_Mutation_p.G167R|UPB1_uc011ajt.1_Missense_Mutation_p.G235R	NM_016327	NP_057411	Q9UBR1	BUP1_HUMAN	beta-ureidopropionase	235	CN hydrolase.				pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	beta-ureidopropionase activity|metal ion binding			ovary(2)	2	Colorectal(2;0.0339)					CATTTGCTACGGGCGGCACCA	0.557													46	69					0	0	1	0	0		A	24911250	A	A	24911250	3	1	103	1	0	0	0	0	1	0	0	0	17028	1116	39	1	725	1	UPB1	22	24911250	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	337603	24911250	26393316	1930	63879											
CRYBB1	1414	broad.mit.edu	37	chr22	27008142	27008142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccctggaagttttccagttCgaagaccaccagctgcagga	10	8	11	12	1	0	1	0	0	0	1	2	4	1	3	4	2	2	4	4	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:27008142C>T	uc003acy.1	-	3	263	c.193G>A	c.(193-195)GAA>AAA	p.E65K		NM_001887	NP_001878	P53674	CRBB1_HUMAN	crystallin, beta B1	65	Beta/gamma crystallin 'Greek key' 1.				visual perception		structural constituent of eye lens			ovary(1)	1						TTTTCCAGTTCGAAGACCACC	0.537													50	13					0	0	1	0	0		T	27008142	T	T	27008142	3	4	103	1	0	0	0	0	1	0	0	0	3913	893	31	1	581	1	CRYBB1	22	27008142	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2096892	27008142	24296424	1931	63880											
TBC1D10A	83874	broad.mit.edu	37	chr22	30690039	30690039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acggctgaggtgcttgtgggCcaccggcgacaccttctgca	6	8	14	13	3	1	1	0	1	1	0	1	2	1	1	3	4	2	3	3	4	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:30690039C>T	uc011akt.1	-	7	790	c.766G>A	c.(766-768)GCC>ACC	p.A256T	GATSL3_uc003ahf.2_RNA|GATSL3_uc003ahg.2_RNA|GATSL3_uc003ahh.2_RNA|GATSL3_uc010gvq.2_RNA|GATSL3_uc003ahi.2_Missense_Mutation_p.A114T|TBC1D10A_uc003ahj.3_Missense_Mutation_p.A168T|TBC1D10A_uc010gvu.2_Missense_Mutation_p.A263T|TBC1D10A_uc003ahk.3_Missense_Mutation_p.A256T	NM_031937	NP_114143	Q9BXI6	TB10A_HUMAN	TBC1 domain family, member 10A	256	Rab-GAP TBC.					intracellular|microvillus	guanyl-nucleotide exchange factor activity|PDZ domain binding|Rab GTPase activator activity			ovary(1)	1						TGCTTGTGGGCCACCGGCGAC	0.602													36	51					0	0	1	0	0		T	30690039	T	T	30690039	3	4	103	1	0	0	0	0	1	0	0	0	15623	739	26	2	772	2	TBC1D10A	22	30690039	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3681897	30690039	20614527	1932	63881											
PES1	23481	broad.mit.edu	37	chr22	30980630	30980630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtggcacttgccagtccgcGggaaggtggaaaacaggaag	11	5	16	9	3	0	0	0	0	0	0	1	3	1	3	2	5	2	1	2	5	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:30980630G>A	uc003aij.1	-	5	517	c.443C>T	c.(442-444)CCG>CTG	p.P148L	PES1_uc003aik.1_Missense_Mutation_p.P148L|PES1_uc003ail.1_Missense_Mutation_p.P148L|PES1_uc003aim.1_Missense_Mutation_p.P148L|PES1_uc003ain.1_Missense_Mutation_p.P9L|PES1_uc003aio.1_Missense_Mutation_p.P9L	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain	148	Sufficient for nucleolar localization.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						GCCAGTCCGCGGGAAGGTGGA	0.607													13	14					0	0	1	0	0		A	30980630	A	A	30980630	3	1	103	1	0	0	0	0	1	0	0	0	11752	1116	39	1	1367	1	PES1	22	30980630	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	290591	30980630	20323936	1933	63882											
OSBP2	23762	broad.mit.edu	37	chr22	31289120	31289120	+	Frame_Shift_Del	DEL	C	-	-																															tggtctcaggtgagccaccaCcccccctcagctgcgcacta																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:31289120delC	uc003aiy.1	+	9	1985	c.1881delC	c.(1879-1881)CACfs	p.H627fs	OSBP2_uc011ala.1_Frame_Shift_Del_p.H461fs|OSBP2_uc010gwc.1_Frame_Shift_Del_p.H454fs|OSBP2_uc011alb.1_Frame_Shift_Del_p.H578fs|OSBP2_uc003aiz.1_Frame_Shift_Del_p.H626fs|OSBP2_uc003aja.1_Frame_Shift_Del_p.H260fs|OSBP2_uc011alc.1_Frame_Shift_Del_p.H369fs|OSBP2_uc003ajb.2_Frame_Shift_Del_p.H172fs|OSBP2_uc011ald.1_Frame_Shift_Del_p.H171fs|OSBP2_uc010gwd.1_Frame_Shift_Del_p.H172fs	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	627					lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						TGAGCCACCACCCCCCCTCAG	0.597													28	13	---	---	---	---						.	-	31289120	-	-	31289120	7	5	103	1	0	1	0	1	0	0	0	0	11293	506	18	0	1915	0	OSBP2	22	31289120	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	308490	31289120	20015446	1934	63883											
SELM	140606	broad.mit.edu	37	chr22	31501001	31501001	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctgggggcttcgcgggCgcccacacgtactcgggggg	3	7	17	14	5	1	0	0	0	1	0	4	0	2	0	2	6	1	2	2	6	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:31501001C>T	uc011ali.1	-	6	453	c.393G>A	c.(391-393)GCG>GCA	p.A131A	SELM_uc011alj.1_RNA|INPP5J_uc010gwf.2_5'Flank	NM_080430	NP_536355	Q8WWX9	SELM_HUMAN	selenoprotein M precursor	131						endoplasmic reticulum|Golgi apparatus|nucleus|perinuclear region of cytoplasm					0						GCTTCGCGGGCGCCCACACGT	0.667													8	24					0	0	1	0	0		T	31501001	T	T	31501001	2	4	103	1	0	0	0	0	0	0	0	1	14042	755	27	1		1	SELM	22	31501001	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	211881	31501001	19803565	1935	63884											
RASD2	23551	broad.mit.edu	37	chr22	35943100	35943100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcaaccaccccttccccGccatgcgcaggctgtccatc	6	7	8	20	2	0	0	0	0	0	0	3	0	2	0	7	2	2	3	7	2	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:35943100G>A	uc003anx.2	+	2	449	c.244G>A	c.(244-246)GCC>ACC	p.A82T	RASD2_uc003any.2_Missense_Mutation_p.A82T	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	82					locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3						CCCCTTCCCCGCCATGCGCAG	0.642													65	26					0	0	1	0	0		A	35943100	A	A	35943100	3	1	103	1	0	0	0	0	1	0	0	0	13092	1087	38	1	246	1	RASD2	22	35943100	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	4442099	35943100	15361466	1936	63885											
TMPRSS6	164656	broad.mit.edu	37	chr22	37482393	37482393	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaggcccttcttccagacGaccgccatgatggcccccga	7	7	10	17	3	1	2	0	1	1	1	2	4	2	2	6	2	1	1	6	2	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:37482393G>A	uc003aqs.1	-	8	1044	c.930C>T	c.(928-930)GTC>GTT	p.V310V	TMPRSS6_uc003aqt.1_Silent_p.V301V|TMPRSS6_uc003aqu.2_Silent_p.V301V	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	310	CUB 1.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						TCTTCCAGACGACCGCCATGA	0.672													21	6					0	0	1	0	0		A	37482393	A	A	37482393	2	1	103	1	0	0	0	0	0	0	0	1	16276	1045	37	1		1	TMPRSS6	22	37482393	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1539293	37482393	13822173	1937	63886											
ELFN2	114794	broad.mit.edu	37	chr22	37769234	37769234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccatgtacacctcctcccGgtggtgcttcttgtagggcc	4	11	12	14	1	1	0	0	0	1	0	3	0	3	0	5	4	2	3	5	4	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:37769234G>A	uc003asq.3	-	3	3127	c.2341C>T	c.(2341-2343)CGG>TGG	p.R781W		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	781	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					ACCTCCTCCCGGTGGTGCTTC	0.602													61	14					0	0	1	0	0		A	37769234	A	A	37769234	3	1	103	1	0	0	0	0	1	0	0	0	5066	1115	39	1	125	1	ELFN2	22	37769234	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	286841	37769234	13535332	1938	63887											
ELFN2	114794	broad.mit.edu	37	chr22	37771065	37771065	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggctggcgaggctggcaaaGgtggcaccgtccaggcggct	7	5	18	11	3	0	0	0	0	0	0	1	1	1	0	2	8	0	5	2	8	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:37771065G>T	uc003asq.3	-	3	1296	c.510C>A	c.(508-510)ACC>ACA	p.T170T		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	170	LRR 5.|Extracellular (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					GGCTGGCAAAGGTGGCACCGT	0.647													29	48					3.93418e-24	4.22873e-24	1	1	0		T	37771065	T	T	37771065	2	4	103	1	0	0	0	0	0	0	0	1	5066	987	35	5		5	ELFN2	22	37771065	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1831	37771065	13533501	1939	63888											
SOX10	6663	broad.mit.edu	37	chr22	38373922	38373922	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catgggggagccctctcctgGgtgccggtggtccaagtggg	4	8	18	11	1	1	0	0	0	1	0	3	1	2	1	4	6	2	0	4	6	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:38373922G>T	uc003aun.1	-	3	927	c.649C>A	c.(649-651)CCA>ACA	p.P217T	POLR2F_uc003aum.2_Intron|SOX10_uc003auo.1_Missense_Mutation_p.P217T	NM_006941	NP_008872	P56693	SOX10_HUMAN	SRY (sex determining region Y)-box 10	217						cytoplasm|nucleus	DNA binding|identical protein binding|transcription coactivator activity				0	Melanoma(58;0.045)					CCCTCTCCTGGGTGCCGGTGG	0.687													5	49					0.248553	0.248795	1	1	0		T	38373922	T	T	38373922	3	4	103	1	0	0	0	0	1	0	0	0	14966	1232	43	5	759	5	SOX10	22	38373922	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	602857	38373922	12930644	1940	63889											
KCNJ4	3761	broad.mit.edu	37	chr22	38824088	38824088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgacgaagcggttgcggCgcttccgccggggcacgtgg	4	8	17	12	7	1	1	0	1	1	0	2	2	2	1	2	5	2	3	2	5	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:38824088C>T	uc003avs.1	-	2	147	c.50G>A	c.(49-51)CGC>CAC	p.R17H	KCNJ4_uc003avt.1_Missense_Mutation_p.R17H	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	17	Cytoplasmic (By similarity).			KR -> NG (in Ref. 3; AAC60632).	synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					GCGGTTGCGGCGCTTCCGCCG	0.642													144	218					0	0	1	0	0		T	38824088	T	T	38824088	3	4	103	1	0	0	0	0	1	0	0	0	8069	768	27	1	1291	1	KCNJ4	22	38824088	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	450166	38824088	12480478	1941	63890											
CBX6	23466	broad.mit.edu	37	chr22	39262729	39262729	+	Frame_Shift_Del	DEL	G	-	-																															gccgggggacggggctaccaGgggggcgggcggaggcttgt																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:39262729delG	uc003awl.2	-	5	787	c.724delC	c.(724-726)CTGfs	p.L242fs		NM_014292	NP_055107	O95503	CBX6_HUMAN	chromobox homolog 6	242					chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	PcG protein complex					0	Melanoma(58;0.04)					GGGGCTACCAGGGGGGCGGGC	0.687													27	51	---	---	---	---						.	-	39262729	-	-	39262729	7	5	103	1	0	1	0	1	0	0	0	0	2725	991	35	0	518	0	CBX6	22	39262729	Frame_Shift_Del	DEL	G	TCGA-BR-A4QL-01A-31D-A25D-08	438641	39262729	12041837	1942	63891											
CACNA1I	8911	broad.mit.edu	37	chr22	40055783	40055783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctccctctactttgtcGccctcatgaccttcggcaac	5	11	8	17	2	2	1	1	1	1	0	5	1	3	1	4	2	2	1	4	2	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:40055783G>A	uc003ayc.2	+	14	2530	c.2530G>A	c.(2530-2532)GCC>ACC	p.A844T	CACNA1I_uc003ayd.2_Missense_Mutation_p.A809T|CACNA1I_uc003aye.2_Missense_Mutation_p.A759T|CACNA1I_uc003ayf.2_Missense_Mutation_p.A724T	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	844	Helical; Name=S6 of repeat II; (Potential).|II.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CTACTTTGTCGCCCTCATGAC	0.582													15	95					0	0	1	0	0		A	40055783	A	A	40055783	3	1	103	1	0	0	0	0	1	0	0	0	2549	1087	38	1	2584	1	CACNA1I	22	40055783	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	793054	40055783	11248783	1943	63892											
EP300	2033	broad.mit.edu	37	chr22	41572350	41572350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgcgatctgatggatggtCgggatgcgtttctcacgctg	5	12	14	10	4	2	1	1	1	2	0	4	4	2	3	1	3	2	2	1	3	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:41572350C>T	uc003azl.3	+	30	5274	c.4879C>T	c.(4879-4881)CGG>TGG	p.R1627W		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1627	Binding region for E1A adenovirus.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding	p.R1627W(1)		haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						GATGGATGGTCGGGATGCGTT	0.577			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				6	111					0	0	1	0	0		T	41572350	T	T	41572350	3	4	103	1	0	0	0	0	1	0	0	0	5156	875	31	1	4997	1	EP300	22	41572350	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1516567	41572350	9732216	1944	63893											
RANGAP1	5905	broad.mit.edu	37	chr22	41650492	41650492	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctcctcctcgtcctcGtcatcactgcagaaagagct	7	11	6	17	2	2	2	2	0	0	2	9	2	7	2	5	0	2	2	5	0	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:41650492G>A	uc003azs.2	-	10	2550	c.1080C>T	c.(1078-1080)GAC>GAT	p.D360D	RANGAP1_uc003azt.2_Silent_p.D360D|RANGAP1_uc003azu.2_Silent_p.D360D|RANGAP1_uc003azr.2_5'Flank|RANGAP1_uc010gyk.2_5'Flank|RANGAP1_uc011aoz.1_Silent_p.D305D	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	360	Asp/Glu-rich (highly acidic).|Asp/Glu-rich (highly acidic).				mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						cctcgtcctcGTCATCACTGC	0.294													48	69					0	0	1	0	0		A	41650492	A	A	41650492	2	1	103	1	0	0	0	0	0	0	0	1	13058	1136	40	1		1	RANGAP1	22	41650492	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	78142	41650492	9654074	1945	63894											
ZC3H7B	23264	broad.mit.edu	37	chr22	41745305	41745305	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgctgcagcagtactcaGgtgaggggcaggcggtgcag	7	6	19	9	1	1	1	1	1	0	0	1	1	1	1	0	6	5	7	0	6	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:41745305G>T	uc003azw.2	+	16	2164	c.1948G>T	c.(1948-1950)GGC>TGC	p.G650C	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	666					interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						GCAGTACTCAGGTGAGGGGCA	0.672													6	83					0.0293803	0.0295531	1	1	0		T	41745305	T	T	41745305	3	4	103	1	0	0	0	0	1	0	0	0	17598	1014	35	5	2006	5	ZC3H7B	22	41745305	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	94813	41745305	9559261	1946	63895											
PHF5A	84844	broad.mit.edu	37	chr22	41864625	41864625	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaacaccagcctgcttgcgGcaaaagatcaaatcaggatg	14	6	9	12	1	2	1	2	0	0	1	2	2	2	2	3	2	4	2	3	2	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:41864625G>A	uc003bab.2	-	1	84	c.33C>T	c.(31-33)TGC>TGT	p.C11C	ACO2_uc003bac.2_5'Flank|ACO2_uc003bad.2_5'Flank	NM_032758	NP_116147	Q7RTV0	PHF5A_HUMAN	PHD-finger 5A	11					nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent	nuclear speck|U12-type spliceosomal complex|U2 snRNP	DNA binding|sequence-specific DNA binding transcription factor activity				0						CCTGCTTGCGGCAAAAGATCA	0.577													41	16					0	0	1	0	0		A	41864625	A	A	41864625	2	1	103	1	0	0	0	0	0	0	0	1	11856	1195	42	2		2	PHF5A	22	41864625	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	119320	41864625	9439941	1947	63896											
POLDIP3	84271	broad.mit.edu	37	chr22	42988010	42988011	+	Frame_Shift_Ins	INS	-	T	T																															atgcggtgatggcatcgtccINStttttcacaaacaccacctc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:42988010_42988011insT	uc003bcu.2	-	7	1070_1071	c.971_972insA	c.(970-972)AAGfs	p.K324fs	POLDIP3_uc011app.1_Frame_Shift_Ins_p.K245fs|POLDIP3_uc003bcv.2_Frame_Shift_Ins_p.K295fs|POLDIP3_uc011apq.1_Frame_Shift_Ins_p.K341fs|POLDIP3_uc010gza.2_RNA|POLDIP3_uc011apr.1_RNA|POLDIP3_uc010gzb.1_Intron	NM_032311	NP_115687	Q9BY77	PDIP3_HUMAN	DNA polymerase delta interacting protein 3	324	RRM.				positive regulation of translation	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding				0						TGGCATCGTCCTTTTTCACAAA	0.54													113	54	---	---	---	---						.	T	42988011	T	T	42988010	7	5	103	1	0	1	1	0	0	0	0	0	12214	680	24	0	305	0	POLDIP3	22	42988010	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	1123385	42988010	8316556	1948	63897											
A4GALT	53947	broad.mit.edu	37	chr22	43089474	43089474	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctcccagcgcccctgcaCggccgcgtaccagtcggcca	5	4	13	19	5	0	0	0	0	0	0	2	0	1	0	6	3	3	3	6	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:43089474C>T	uc003bdb.2	-	3	745	c.484G>A	c.(484-486)GTG>ATG	p.V162M	A4GALT_uc010gzd.2_Missense_Mutation_p.V162M	NM_017436	NP_059132	Q9NPC4	A4GAT_HUMAN	alpha 1,4-galactosyltransferase	162	Lumenal (Potential).				glycosphingolipid biosynthetic process|plasma membrane organization	Golgi stack|integral to Golgi membrane|membrane fraction	lactosylceramide 4-alpha-galactosyltransferase activity			central_nervous_system(2)	2						CGCCCCTGCACGGCCGCGTAC	0.657													18	45					0	0	1	0	0		T	43089474	T	T	43089474	3	4	103	1	0	0	0	0	1	0	0	0	6	536	19	1	581	1	A4GALT	22	43089474	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	101464	43089474	8215092	1949	63898											
EFCAB6	64800	broad.mit.edu	37	chr22	44004420	44004420	+	Frame_Shift_Del	DEL	C	-	-																															aatatcaaaaccgtacagtgCgttctttatgtcccggcgtc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:44004420delC	uc003bdy.1	-	22	2838	c.2623delG	c.(2623-2625)GCAfs	p.A875fs	EFCAB6_uc003bdz.1_Frame_Shift_Del_p.A723fs|EFCAB6_uc010gzi.1_Frame_Shift_Del_p.A723fs|EFCAB6_uc010gzj.1_Intron	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	875	EF-hand 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CCGTACAGTGCGTTCTTTATG	0.433													31	50	---	---	---	---						.	-	44004420	-	-	44004420	7	5	103	1	0	1	0	1	0	0	0	0	4945	768	27	0	1926	0	EFCAB6	22	44004420	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	914946	44004420	7300146	1950	63899											
C22orf9	23313	broad.mit.edu	37	chr22	45599828	45599828	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagccaccagctccacacaGaccatctctccttcccctac	9	8	3	21	0	1	1	0	0	1	1	5	1	4	1	7	0	3	1	7	0	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:45599828G>T	uc003bfx.1	-	6	621	c.555C>A	c.(553-555)GTC>GTA	p.V185V	C22orf9_uc010gzw.1_Silent_p.V37V|C22orf9_uc003bfv.1_Silent_p.V194V|C22orf9_uc003bfw.1_Silent_p.V190V|C22orf9_uc010gzx.2_Silent_p.V167V|MIR1249_hsa-mir-1249|MI0006384_5'Flank	NM_001009880	NP_001009880	Q6ICG6	K0930_HUMAN	hypothetical protein LOC23313 isoform b	185							protein binding				0		Ovarian(80;0.00965)|all_neural(38;0.0244)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|READ - Rectum adenocarcinoma(1;0.000617)|Colorectal(1;0.0024)		GCTCCACACAGACCATCTCTC	0.582													5	57					5.9392e-07	6.08442e-07	1	1	0		T	45599828	T	T	45599828	2	4	103	1	0	0	0	0	0	0	0	1	2154	929	33	5		5	C22orf9	22	45599828	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1595408	45599828	5704738	1951	63900											
FAM118A	55007	broad.mit.edu	37	chr22	45719261	45719261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaaagtgacaaaggacCgggacctgttggttgtcgcc	10	7	16	8	2	0	1	0	1	0	0	1	5	0	5	3	5	0	2	3	5	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:45719261C>T	uc003bfz.3	+	4	869	c.253C>T	c.(253-255)CGG>TGG	p.R85W	FAM118A_uc003bga.3_Missense_Mutation_p.R85W	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	85						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		GACAAAGGACCGGGACCTGTT	0.587													23	58					0	0	1	0	0		T	45719261	T	T	45719261	3	4	103	1	0	0	0	0	1	0	0	0	5422	643	23	1	259	1	FAM118A	22	45719261	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	119433	45719261	5585305	1952	63901											
CELSR1	9620	broad.mit.edu	37	chr22	46760452	46760452	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctagcaagcctggctgcGcccccgctctcctggtccgg	3	8	12	18	3	1	0	0	0	1	0	3	0	2	0	5	3	4	4	5	3	2	1	rs141928741		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:46760452G>A	uc003bhw.1	-	33	8736	c.8736C>T	c.(8734-8736)GGC>GGT	p.G2912G		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2912	Cytoplasmic (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GCCTGGCTGCGCCCCCGCTCT	0.692													18	32					0	0	1	0	0		A	46760452	A	A	46760452	2	1	103	1	0	0	0	0	0	0	0	1	3224	1074	38	1		1	CELSR1	22	46760452	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1041191	46760452	4544114	1953	63902											
TTLL8	164714	broad.mit.edu	37	chr22	50469119	50469120	+	Frame_Shift_Ins	INS	-	G	G																															taagggtgccagcaaggccaINSgggggagccccttctcttcc																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:50469119_50469120insG	uc011ark.1	-	12	1942_1943	c.1942_1943insC	c.(1942-1944)CTGfs	p.L648fs		NM_001080447	NP_001073916			tubulin tyrosine ligase-like family, member 8											ovary(2)	2		all_cancers(38;3.44e-07)|all_epithelial(38;2.44e-06)|all_lung(38;0.00141)|Breast(42;0.00519)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		READ - Rectum adenocarcinoma(2;0.000882)|Colorectal(2;0.00311)|BRCA - Breast invasive adenocarcinoma(115;0.226)		CAGCAAGGCCAGGGGGAGCCCC	0.703													7	2	---	---	---	---						.	G	50469120	G	G	50469119	7	5	103	1	0	1	1	0	0	0	0	0	16759	188	7	0	572	0	TTLL8	22	50469119	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	3708667	50469119	835447	1954	63903											
SBF1	6305	broad.mit.edu	37	chr22	50885769	50885769	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcaaagaaggccttctcGtccacagtcttaggggcacc	10	8	10	13	2	3	1	1	0	2	1	5	1	4	1	3	3	0	1	3	3	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chr22:50885769G>A	uc003blh.2	-	40	5760	c.5565C>T	c.(5563-5565)GAC>GAT	p.D1855D	SBF1_uc003ble.2_Silent_p.D319D|SBF1_uc003blf.2_Silent_p.D331D|SBF1_uc011arx.1_Silent_p.D1493D	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1829	PH.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		AGGCCTTCTCGTCCACAGTCT	0.652													26	47					0	0	1	0	0		A	50885769	A	A	50885769	2	1	103	1	0	0	0	0	0	0	0	1	13883	1136	40	1		1	SBF1	22	50885769	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	416650	50885769	418797	1955	63904											
PPP2R3B	28227	broad.mit.edu	37	chrX	306252	306252	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctgtgcccccacgcaccGtggtcattgtgccgcgccag	4	7	11	19	4	1	0	1	0	0	0	1	0	1	0	7	1	2	1	7	1	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:306252G>A	uc004cpg.2	-	7	1236	c.1035C>T	c.(1033-1035)CAC>CAT	p.H345H	PPP2R3B_uc011mha.1_Silent_p.H184H	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	345					cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCCACGCACCGTGGTCATTGT	0.667													17	20					0	0	1	0	0		A	306252	A	A	306252	2	1	103	1	0	0	0	0	0	0	0	1	12411	1159	40	1		1	PPP2R3B	23	306252	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08		306252	154964308	1956	63905											
SHOX	6473	broad.mit.edu	37	chrX	601806	601806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcaacatgggagccttacGgatgcctttccaacaggtag	10	9	11	11	2	1	0	1	0	0	0	2	2	2	2	3	3	5	1	3	3	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:601806G>A	uc004cph.1	+	5	1308	c.617G>A	c.(616-618)CGG>CAG	p.R206Q	SHOX_uc004cpi.2_Missense_Mutation_p.R206Q	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	206					skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GGAGCCTTACGGATGCCTTTC	0.567													35	31					0	0	1	0	0		A	601806	A	A	601806	3	1	103	1	0	0	0	0	1	0	0	0	14313	1116	39	1	631	1	SHOX	23	601806	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	295554	601806	154668754	1957	63906											
ARSF	416	broad.mit.edu	37	chrX	3002316	3002316	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcttgaactgcgactccCgaagtgaccagtgccaccat	11	7	10	13	2	0	2	0	2	0	0	1	4	1	2	4	1	3	1	4	1	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:3002316C>T	uc004cre.1	+	6	660	c.439C>T	c.(439-441)CGA>TGA	p.R147*	ARSF_uc004crf.1_Nonsense_Mutation_p.R147*	NM_004042	NP_004033	P54793	ARSF_HUMAN	arylsulfatase F precursor	147						extracellular region	arylsulfatase activity|metal ion binding			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CTGCGACTCCCGAAGTGACCA	0.478													34	64					0	0	1	0	0		T	3002316	T	T	3002316	4	4	103	1	0	0	0	0	0	1	0	0	992	644	23	1	457	1	ARSF	23	3002316	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	2400510	3002316	152268244	1958	63907											
MXRA5	25878	broad.mit.edu	37	chrX	3235295	3235295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgatgcgcgcgttggctgCtgcacgctgcacgttcagct	4	10	14	13	6	1	1	1	1	0	0	1	1	1	1	0	1	5	8	0	1	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:3235295C>T	uc004crg.3	-	6	6584	c.6427G>A	c.(6427-6429)GCA>ACA	p.A2143T		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2143						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GCGTTGGCTGCTGCACGCTGC	0.711													10	20					0	0	1	0	0		T	3235295	T	T	3235295	3	4	103	1	0	0	0	0	1	0	0	0	10021	797	28	2	2067	2	MXRA5	23	3235295	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	232979	3235295	152035265	1959	63908											
MXRA5	25878	broad.mit.edu	37	chrX	3240108	3240108	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtattaactgtgttatcCacccaagctgtaggaaccag	11	10	11	9	0	0	0	0	0	0	0	1	1	1	1	3	3	3	4	3	3	6	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:3240108C>T	uc004crg.3	-	5	3775	c.3618G>A	c.(3616-3618)GTG>GTA	p.V1206V		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1206						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				CTGTGTTATCCACCCAAGCTG	0.458													30	64					0	0	1	0	0		T	3240108	T	T	3240108	2	4	103	1	0	0	0	0	0	0	0	1	10021	581	21	4		4	MXRA5	23	3240108	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4813	3240108	152030452	1960	63909											
NLGN4X	57502	broad.mit.edu	37	chrX	5821129	5821129	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaacgtacccagttttggcGaagttcgtccagtaggtcat	9	12	11	9	3	1	1	1	1	0	0	3	2	2	1	2	2	2	4	2	2	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:5821129G>A	uc010ndh.2	-	5	2091	c.1590C>T	c.(1588-1590)TTC>TTT	p.F530F	NLGN4X_uc004crp.2_Silent_p.F550F|NLGN4X_uc004crq.2_Silent_p.F530F|NLGN4X_uc010ndi.2_Silent_p.F567F|NLGN4X_uc004crr.2_Silent_p.F530F|NLGN4X_uc010ndj.2_Silent_p.F530F	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	530	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						CAGTTTTGGCGAAGTTCGTCC	0.512													34	42					0	0	1	0	0		A	5821129	A	A	5821129	2	1	103	1	0	0	0	0	0	0	0	1	10483	1049	37	1		1	NLGN4X	23	5821129	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2581021	5821129	149449431	1961	63910											
STS	412	broad.mit.edu	37	chrX	7267953	7267953	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccatctggaaggccttttTcttcacccccaacttcaacc	9	12	4	16	0	4	0	2	0	2	0	5	1	5	1	5	2	2	0	5	2	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:7267953T>C	uc004cry.3	+	10	1648	c.1403T>C	c.(1402-1404)TTC>TCC	p.F468S		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	468	Lumenal.				female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)	AAGGCCTTTTTCTTCACCCCC	0.483									Ichthyosis				11	185					0	0	1	0	0		C	7267953	C	C	7267953	3	2	103	1	0	0	0	0	1	0	0	0	15357	1783	62	3	1441	3	STS	23	7267953	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	1446824	7267953	148002607	1962	63911											
SHROOM2	357	broad.mit.edu	37	chrX	9900722	9900722	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaaggccactgtctgtgaGcgtggaagccagcatgtgag	9	7	15	10	2	1	2	0	2	1	0	1	4	1	3	3	2	3	1	3	2	2	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:9900722G>A	uc004csu.1	+	6	3489	c.3399G>A	c.(3397-3399)GAG>GAA	p.E1133E	SHROOM2_uc004csv.2_5'UTR|SHROOM2_uc011mic.1_5'UTR|SHROOM2_uc004csw.1_5'UTR	NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	1133					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				CTGTCTGTGAGCGTGGAAGCC	0.657													28	42					0	0	1	0	0		A	9900722	A	A	9900722	2	1	103	1	0	0	0	0	0	0	0	1	14319	962	34	2		2	SHROOM2	23	9900722	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2632769	9900722	145369838	1963	63912											
WWC3	55841	broad.mit.edu	37	chrX	10094192	10094192	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccactggactcgggcaCgcccaacacttactgctcca	8	6	8	19	2	0	0	0	0	0	0	2	1	1	1	4	2	3	2	4	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:10094192C>T	uc004csx.3	+	15	2150	c.1952C>T	c.(1951-1953)ACG>ATG	p.T651M	WWC3_uc010nds.2_Missense_Mutation_p.T315M|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	651	C2.									ovary(4)	4						GACTCGGGCACGCCCAACACT	0.597													128	223					0	0	1	0	0		T	10094192	T	T	10094192	3	4	103	1	0	0	0	0	1	0	0	0	17439	536	19	1	2006	1	WWC3	23	10094192	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	193470	10094192	145176368	1964	63913											
TMSL3	7117	broad.mit.edu	37	chrX	12994449	12994449	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaactgaagaagacagagacGcaagagaaaaatccactgcc	20	3	9	9	1	0	5	0	1	0	4	1	7	1	5	2	0	2	1	2	0	6	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:12994449G>A	uc004cvf.2	+	2	147	c.69G>A	c.(67-69)ACG>ACA	p.T23T		NM_021109	NP_066932			thymosin, beta 4												0		all_cancers(2;6.48e-24)|all_epithelial(2;3.86e-25)|Colorectal(2;8.52e-12)|all_lung(2;3.73e-07)|Lung NSC(2;7.99e-07)|Renal(2;0.0243)|Hepatocellular(203;0.0411)		Epithelial(2;5.28e-11)|OV - Ovarian serous cystadenocarcinoma(123;8.9e-10)|all cancers(2;3.21e-09)|STAD - Stomach adenocarcinoma(1;0.0201)		AGACAGAGACGCAAGAGAAAA	0.547													39	53					0	0	1	0	0		A	12994449	A	A	12994449	2	1	103	1	0	0	0	0	0	0	0	1	16284	1074	38	1		1	TMSL3	23	12994449	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	2900257	12994449	142276111	1965	63914											
TXLNG	55787	broad.mit.edu	37	chrX	16850848	16850849	+	Frame_Shift_Ins	INS	-	AG	AG																															agaagctgatgaaaaacatcINSagagagagagagagtttgta																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:16850848_16850849insAG	uc004cxq.1	+	6	1018_1019	c.967_968insAG	c.(967-969)CAGfs	p.Q323fs	TXLNG_uc010ney.1_Frame_Shift_Ins_p.Q191fs|TXLNG_uc004cxr.1_5'Flank	NM_018360	NP_060830	Q9NUQ3	TXLNG_HUMAN	gamma-taxilin	323	Potential.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1						TGAAAAACATCAGAGAGAGAGA	0.386													30	55	---	---	---	---						.	AG	16850849	AG	AG	16850848	7	5	103	1	0	1	1	0	0	0	0	0	16815	827	29	0	989	0	TXLNG	23	16850848	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	3856399	16850848	138419712	1966	63915											
TXLNG	55787	broad.mit.edu	37	chrX	16859880	16859880	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgctccggccatcgagtcGgttgactaagatgaggtgtg	7	11	14	9	3	1	3	0	2	1	1	4	4	2	3	2	3	1	2	2	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:16859880G>A	uc004cxq.1	+	10	1629	c.1578G>A	c.(1576-1578)TCG>TCA	p.S526S	TXLNG_uc010ney.1_Silent_p.S394S	NM_018360	NP_060830	Q9NUQ3	TXLNG_HUMAN	gamma-taxilin	526					cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1						CCATCGAGTCGGTTGACTAAG	0.478													61	79					0	0	1	0	0		A	16859880	A	A	16859880	2	1	103	1	0	0	0	0	0	0	0	1	16815	1103	39	1		1	TXLNG	23	16859880	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	9032	16859880	138410680	1967	63916											
RBBP7	5931	broad.mit.edu	37	chrX	16870926	16870926	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtagggattgaatgagagGcagttgacttcggcagtgtg	9	11	16	5	1	0	3	0	3	0	1	1	5	0	4	0	3	0	4	0	3	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:16870926G>A	uc004cxt.2	-	7	1189	c.831C>T	c.(829-831)TGC>TGT	p.C277C	RBBP7_uc004cxs.1_Silent_p.C321C|RBBP7_uc004cxu.2_Silent_p.C268C|RBBP7_uc010nez.2_3'UTR	NM_002893	NP_002884	Q16576	RBBP7_HUMAN	retinoblastoma binding protein 7	277	WD 5.				cell proliferation|cellular heat acclimation|CenH3-containing nucleosome assembly at centromere|DNA replication|multicellular organismal development|negative regulation of cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex|NuRD complex	protein binding			upper_aerodigestive_tract(1)|ovary(1)	2	Hepatocellular(33;0.0997)					TGAATGAGAGGCAGTTGACTT	0.478													83	115					0	0	1	0	0		A	16870926	A	A	16870926	2	1	103	1	0	0	0	0	0	0	0	1	13129	1195	42	2		2	RBBP7	23	16870926	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	11046	16870926	138399634	1968	63917											
ZNF645	158506	broad.mit.edu	37	chrX	22291518	22291518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggctcatatcaaacgccGccataagagagctcgaaaac	16	5	8	12	3	2	1	2	0	0	1	3	3	2	1	2	1	3	2	2	1	5	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:22291518G>A	uc004dai.1	+	1	459	c.410G>A	c.(409-411)CGC>CAC	p.R137H		NM_152577	NP_689790	Q8N7E2	ZN645_HUMAN	zinc finger protein 645	137	C2H2-type.					intracellular	zinc ion binding			lung(1)|pancreas(1)	2						ATCAAACGCCGCCATAAGAGA	0.443													36	58					0	0	1	0	0		A	22291518	A	A	22291518	3	1	103	1	0	0	0	0	1	0	0	0	18086	1087	38	1	412	1	ZNF645	23	22291518	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5420592	22291518	132979042	1969	63918											
POLA1	5422	broad.mit.edu	37	chrX	24750565	24750565	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcctccctttcagtcacacTtctgtggtatgtattttttt	6	19	6	10	0	3	0	2	0	1	0	4	0	4	0	2	1	1	2	2	1	2	7			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:24750565T>C	uc004dbl.2	+	16	1770	c.1747T>C	c.(1747-1749)TTC>CTC	p.F583L	POLA1_uc004dbn.2_Missense_Mutation_p.F447L	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	583					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	TCAGTCACACTTCTGTGGTAT	0.368													19	30					0	0	1	0	0		C	24750565	C	C	24750565	3	2	103	1	0	0	0	0	1	0	0	0	12206	1609	56	3	1809	3	POLA1	23	24750565	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2459047	24750565	130519995	1970	63919											
IL1RAPL1	11141	broad.mit.edu	37	chrX	29973787	29973787	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctccataggcaatcagcaTacctactgtaacatccctat	13	10	4	14	0	1	0	1	0	0	0	3	0	3	0	4	1	4	3	4	1	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:29973787T>C	uc004dby.2	+	11	2449	c.1941T>C	c.(1939-1941)CAT>CAC	p.H647H		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	647	Cytoplasmic (Potential).				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						GCAATCAGCATACCTACTGTA	0.517													16	27					0	0	1	0	0		C	29973787	C	C	29973787	2	2	103	1	0	0	0	0	0	0	0	1	7677	1403	49	3		3	IL1RAPL1	23	29973787	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	5223222	29973787	125296773	1971	63920											
TAB3	257397	broad.mit.edu	37	chrX	30870981	30870981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attaacttcagacttcaaccGctctagctcctctttctcaa	10	14	3	14	1	5	1	3	0	3	1	7	1	6	1	2	0	3	2	2	0	4	5	rs147799245		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:30870981G>A	uc004dcj.2	-	7	2287	c.1624C>T	c.(1624-1626)CGG>TGG	p.R542W	TAB3_uc004dck.2_Missense_Mutation_p.R542W|TAB3_uc010ngl.2_Missense_Mutation_p.R542W	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	542	Potential.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						GACTTCAACCGCTCTAGCTCC	0.463													24	49					0	0	1	0	0		A	30870981	A	A	30870981	3	1	103	1	0	0	0	0	1	0	0	0	15522	1086	38	1	534	1	TAB3	23	30870981	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	897194	30870981	124399579	1972	63921											
CXorf22	170063	broad.mit.edu	37	chrX	35989784	35989784	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaccctcactctcagaagcGgaaatagaagaggagctgtc	13	7	10	11	1	3	3	3	0	1	3	5	5	3	5	1	2	2	1	1	2	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:35989784G>A	uc004ddj.2	+	12	2111	c.2052G>A	c.(2050-2052)GCG>GCA	p.A684A	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	684										large_intestine(1)|lung(1)|ovary(1)	3						TCTCAGAAGCGGAAATAGAAG	0.418													20	25					0	0	1	0	0		A	35989784	A	A	35989784	2	1	103	1	0	0	0	0	0	0	0	1	4105	1103	39	1		1	CXorf22	23	35989784	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5118803	35989784	119280776	1973	63922											
FAM47C	442444	broad.mit.edu	37	chrX	37027114	37027114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agactccggtgtccagtctcCgcccggagcctccagagact	7	7	11	16	3	1	2	0	0	1	2	5	4	4	3	6	2	1	0	6	2	0	0	rs143691874		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:37027114C>T	uc004ddl.1	+	1	645	c.631C>T	c.(631-633)CGC>TGC	p.R211C		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	211										ovary(3)	3						GTCCAGTCTCCGCCCGGAGCC	0.647													25	36					0	0	1	0	0		T	37027114	T	T	37027114	3	4	103	1	0	0	0	0	1	0	0	0	5585	652	23	1	633	1	FAM47C	23	37027114	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1037330	37027114	118243446	1974	63923											
FAM47C	442444	broad.mit.edu	37	chrX	37027775	37027775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatctctgcctggagcctcCcaagactcgcggatctcatc	7	9	8	17	2	2	1	1	0	2	1	7	3	3	3	4	2	2	0	4	2	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:37027775C>T	uc004ddl.1	+	1	1306	c.1292C>T	c.(1291-1293)CCC>CTC	p.P431L		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	431										ovary(3)	3						CTGGAGCCTCCCAAGACTCGC	0.612													33	71					0	0	1	0	0		T	37027775	T	T	37027775	3	4	103	1	0	0	0	0	1	0	0	0	5585	623	22	4	1294	4	FAM47C	23	37027775	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	661	37027775	118242785	1975	63924											
USP9X	8239	broad.mit.edu	37	chrX	41025387	41025387	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcaaagctgtgaattgtCgagaaggaaaactagtagca	15	10	10	6	1	2	2	1	1	1	1	3	4	2	3	0	1	3	3	0	1	7	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:41025387C>T	uc004dfb.2	+	16	2881	c.2248C>T	c.(2248-2250)CGA>TGA	p.R750*	USP9X_uc004dfc.2_Nonsense_Mutation_p.R750*	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	750					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						TGTGAATTGTCGAGAAGGAAA	0.373													21	50					0	0	1	0	0		T	41025387	T	T	41025387	4	4	103	1	0	0	0	0	0	1	0	0	17116	876	31	1	2306	1	USP9X	23	41025387	Nonsense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3997612	41025387	114245173	1976	63925											
USP9X	8239	broad.mit.edu	37	chrX	41075795	41075795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccattgagagaagtgtacGgaaacagaacgtacaattca	17	7	10	7	2	1	3	1	1	0	2	1	5	1	4	1	1	5	2	1	1	6	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:41075795G>A	uc004dfb.2	+	35	6608	c.5975G>A	c.(5974-5976)CGG>CAG	p.R1992Q	USP9X_uc004dfc.2_Missense_Mutation_p.R1992Q	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1992					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						AGAAGTGTACGGAAACAGAAC	0.368													44	63					0	0	1	0	0		A	41075795	A	A	41075795	3	1	103	1	0	0	0	0	1	0	0	0	17116	1116	39	1	6109	1	USP9X	23	41075795	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	50408	41075795	114194765	1977	63926											
NDUFB11	54539	broad.mit.edu	37	chrX	47003890	47003890	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttctcatacaagttttcGtcctcgggttctgggtcctc	5	15	8	13	2	2	0	1	0	2	0	8	0	4	0	3	2	1	2	3	2	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:47003890G>A	uc004dhd.2	-	1	720	c.189C>T	c.(187-189)GAC>GAT	p.D63D	NDUFB11_uc004dhc.2_Silent_p.D63D|RBM10_uc004dhe.1_5'Flank|RBM10_uc004dhf.2_5'Flank|RBM10_uc004dhg.2_5'Flank|RBM10_uc004dhh.2_5'Flank|RBM10_uc010nhq.2_5'Flank|RBM10_uc004dhi.2_5'Flank	NM_001135998	NP_001129470	Q9NX14	NDUBB_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	63					respiratory electron transport chain|transport	integral to membrane|mitochondrial respiratory chain complex I					0						ACAAGTTTTCGTCCTCGGGTT	0.657											OREG0019755	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	20					0	0	1	0	0		A	47003890	A	A	47003890	2	1	103	1	0	0	0	0	0	0	0	1	10299	1136	40	1		1	NDUFB11	23	47003890	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5928095	47003890	108266670	1978	63927											
GLOD5	392465	broad.mit.edu	37	chrX	48629416	48629416	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggaaaggaatttgaacccaAagccgctcacccagttcctg	12	7	10	12	1	1	1	1	1	0	0	2	3	2	3	4	2	2	2	4	2	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:48629416A>G	uc011mmh.1	+	3	316	c.275A>G	c.(274-276)AAA>AGA	p.K92R		NM_001080489	NP_001073958			glyoxalase domain containing 5												0						TTTGAACCCAAAGCCGCTCAC	0.512													8	15					0	0	1	0	0		G	48629416	G	G	48629416	3	3	103	1	0	0	0	0	1	0	0	0	6466	14	1	3	285	3	GLOD5	23	48629416	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1625526	48629416	106641144	1979	63928											
GATA1	2623	broad.mit.edu	37	chrX	48649621	48649621	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcaggggttttcttcccCtctgggcctgagggcttgga	5	12	14	10	0	3	1	1	1	2	0	4	3	4	2	3	5	0	2	3	5	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:48649621C>A	uc004dkq.3	+	2	196	c.105C>A	c.(103-105)CCC>CCA	p.P35P		NM_002049	NP_002040	P15976	GATA1_HUMAN	GATA binding protein 1	35					basophil differentiation|eosinophil differentiation|erythrocyte development|megakaryocyte differentiation|platelet aggregation|platelet formation|positive regulation of anti-apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|regulation of glycoprotein biosynthetic process|transcription from RNA polymerase II promoter	nuclear membrane|nucleolus|nucleoplasm	C2H2 zinc finger domain binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.M1fs(7)|p.F34fs*3(2)|p.P35fs*4(2)|p.F33fs*23(1)|p.F33fs*90(1)		haematopoietic_and_lymphoid_tissue(246)|lung(2)	248						TTTTCTTCCCCTCTGGGCCTG	0.647			Mis|F		megakaryoblastic leukemia of Downs Syndrome								5	10					1.23904e-05	1.26366e-05	1	1	0		A	48649621	A	A	48649621	2	1	103	1	0	0	0	0	0	0	0	1	6268	668	24	5		5	GATA1	23	48649621	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	20205	48649621	106620939	1980	63929											
HDAC6	10013	broad.mit.edu	37	chrX	48678589	48678589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctggggggctgccaggtgtCacctgagggttatgcccacc	5	8	16	12	0	1	1	1	1	0	0	1	1	1	1	4	5	2	3	4	5	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:48678589C>T	uc011mmi.1	+	23	2359	c.2264C>T	c.(2263-2265)TCA>TTA	p.S755L	HDAC6_uc004dks.1_Missense_Mutation_p.S755L|HDAC6_uc010nig.1_Missense_Mutation_p.S603L|HDAC6_uc004dkt.1_Missense_Mutation_p.S755L|HDAC6_uc011mmk.1_Missense_Mutation_p.S736L|HDAC6_uc004dkv.1_Missense_Mutation_p.S403L|HDAC6_uc004dkw.1_Missense_Mutation_p.S403L|HDAC6_uc004dkx.1_Missense_Mutation_p.S118L	NM_006044	NP_006035	Q9UBN7	HDAC6_HUMAN	histone deacetylase 6	755	Histone deacetylase 2.				aggresome assembly|cellular response to hydrogen peroxide|Hsp90 deacetylation|lysosome localization|macroautophagy|misfolded or incompletely synthesized protein catabolic process|negative regulation of proteolysis|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|polyubiquitinated misfolded protein transport|positive regulation of apoptosis|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of epithelial cell migration|positive regulation of receptor biosynthetic process|positive regulation of signal transduction|regulation of androgen receptor signaling pathway|regulation of receptor activity|response to growth factor stimulus|response to toxin|transcription, DNA-dependent|tubulin deacetylation	aggresome|caveola|cell leading edge|cytosol|histone deacetylase complex|microtubule associated complex|perinuclear region of cytoplasm	actin binding|alpha-tubulin binding|beta-catenin binding|dynein complex binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|Hsp90 protein binding|microtubule binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|polyubiquitin binding|tau protein binding|tubulin deacetylase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4					Vorinostat(DB02546)	TGCCAGGTGTCACCTGAGGGT	0.577													35	39					0	0	1	0	0		T	48678589	T	T	48678589	3	4	103	1	0	0	0	0	1	0	0	0	7027	838	29	4	2350	4	HDAC6	23	48678589	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	28968	48678589	106591971	1981	63930											
TFE3	7030	broad.mit.edu	37	chrX	48891050	48891050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgttgaatcgcctgcgacGctcaactttggagaggggag	10	9	14	8	3	1	2	1	1	0	1	2	5	1	3	1	3	2	2	1	3	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:48891050G>A	uc004dmb.3	-	8	1304	c.1066C>T	c.(1066-1068)CGT>TGT	p.R356C	TFE3_uc004dmc.3_Missense_Mutation_p.R251C|TFE3_uc004dme.1_RNA	NM_006521	NP_006512	P19532	TFE3_HUMAN	transcription factor E3	356	Basic motif.				humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding		ASPSCR1/TFE3(161)|PRCC/TFE3(25)|SFPQ/TFE3(6)|NONO/TFE3(2)|CLTC/TFE3(2)	soft_tissue(120)|kidney(76)|central_nervous_system(1)	197						CGCCTGCGACGCTCAACTTTG	0.527			T	SFPQ|ASPSCR1|PRCC|NONO|CLTC	papillary renal|alveolar soft part sarcoma|renal								29	22					0	0	1	0	0		A	48891050	A	A	48891050	3	1	103	1	0	0	0	0	1	0	0	0	15825	1087	38	1	673	1	TFE3	23	48891050	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	212461	48891050	106379510	1982	63931											
CCDC120	90060	broad.mit.edu	37	chrX	48925127	48925127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggcctgccccgcagtggcGgtggaacaggctggggggag	5	4	22	10	2	0	0	0	0	0	0	0	2	0	2	3	9	2	2	3	9	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:48925127G>A	uc010nik.2	+	10	1879	c.1372G>A	c.(1372-1374)GGT>AGT	p.G458S	CCDC120_uc011mmq.1_Missense_Mutation_p.G446S|CCDC120_uc004dmf.2_Missense_Mutation_p.G458S|CCDC120_uc010nil.2_Missense_Mutation_p.G458S|CCDC120_uc011mmr.1_Missense_Mutation_p.G458S|CCDC120_uc011mms.1_Missense_Mutation_p.G446S	NM_033626	NP_296375	Q96HB5	CC120_HUMAN	coiled-coil domain containing 120 isoform 3	458	Pro-rich.						protein binding			pancreas(1)	1						CCGCAGTGGCGGTGGAACAGG	0.706													18	20					0	0	1	0	0		A	48925127	A	A	48925127	3	1	103	1	0	0	0	0	1	0	0	0	2759	1116	39	1	1402	1	CCDC120	23	48925127	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	34077	48925127	106345433	1983	63932											
GPKOW	27238	broad.mit.edu	37	chrX	48972303	48972304	+	Frame_Shift_Ins	INS	-	C	C																															cacaaaccgcacacgcaggtINSccctgtgcaaccagtgctga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:48972303_48972304insC	uc004dmr.2	-	8	1088_1089	c.1081_1082insG	c.(1081-1083)GACfs	p.D361fs		NM_015698	NP_056513	Q92917	GPKOW_HUMAN	G patch domain and KOW motifs	361						nucleus	nucleic acid binding			ovary(2)	2						CACACGCAGGTCCCTGTGCAAC	0.574													21	29	---	---	---	---						.	C	48972304	C	C	48972303	7	5	103	1	0	1	1	0	0	0	0	0	6628	1667	58	0	364	0	GPKOW	23	48972303	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	47176	48972303	106298257	1984	63933											
GPKOW	27238	broad.mit.edu	37	chrX	48973476	48973476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggctccccacagccagaCgaaccatggcccgaacattg	10	4	9	18	3	0	1	0	0	0	1	1	3	1	1	6	2	3	1	6	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:48973476C>T	uc004dmr.2	-	6	828	c.821G>A	c.(820-822)CGT>CAT	p.R274H		NM_015698	NP_056513	Q92917	GPKOW_HUMAN	G patch domain and KOW motifs	274						nucleus	nucleic acid binding			ovary(2)	2						CACAGCCAGACGAACCATGGC	0.547													25	35					0	0	1	0	0		T	48973476	T	T	48973476	3	4	103	1	0	0	0	0	1	0	0	0	6628	536	19	1	633	1	GPKOW	23	48973476	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1173	48973476	106297084	1985	63934											
MAGIX	79917	broad.mit.edu	37	chrX	49021225	49021225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttggttagagacatgtaacGcacctccccaattgatccag	11	10	9	11	1	0	2	0	1	0	1	2	3	2	2	4	1	1	4	4	1	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:49021225G>A	uc010nin.1	+	4	351	c.304G>A	c.(304-306)GCA>ACA	p.A102T	MAGIX_uc010nio.1_Intron|MAGIX_uc004dmt.2_Intron|MAGIX_uc004dmu.2_Missense_Mutation_p.A43T|MAGIX_uc004dmw.2_Intron	NM_024859	NP_079135	Q9H6Y5	MAGIX_HUMAN	MAGI family member, X-linked isoform a	102											0						GACATGTAACGCACCTCCCCA	0.537													64	107					0	0	1	0	0		A	49021225	A	A	49021225	3	1	103	1	0	0	0	0	1	0	0	0	9211	1087	38	1	358	1	MAGIX	23	49021225	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	47749	49021225	106249335	1986	63935											
CACNA1F	778	broad.mit.edu	37	chrX	49078999	49078999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgcccttgtccttggcaGtgcctgcatctccactggcc	4	10	9	18	1	1	0	0	0	1	0	3	0	2	0	6	2	2	2	6	2	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:49078999G>A	uc004dnb.2	-	17	2365	c.2303C>T	c.(2302-2304)ACT>ATT	p.T768I	CACNA1F_uc010nip.2_Missense_Mutation_p.T757I	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	768	Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	GTCCTTGGCAGTGCCTGCATC	0.572													10	38					0	0	1	0	0		A	49078999	A	A	49078999	3	1	103	1	0	0	0	0	1	0	0	0	2546	1029	36	4	3758	4	CACNA1F	23	49078999	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	57774	49078999	106191561	1987	63936											
CACNA1F	778	broad.mit.edu	37	chrX	49079419	49079419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggagggcctgggggaacGtgtcaaaggtgcttcgcttg	7	9	18	7	2	1	1	1	1	0	0	2	3	1	3	1	5	2	2	1	5	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:49079419G>A	uc004dnb.2	-	15	2149	c.2087C>T	c.(2086-2088)ACG>ATG	p.T696M	CACNA1F_uc010nip.2_Missense_Mutation_p.T685M	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	696	Extracellular (Potential).|II.				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	CTGGGGGAACGTGTCAAAGGT	0.567													5	14					0	0	1	0	0		A	49079419	A	A	49079419	3	1	103	1	0	0	0	0	1	0	0	0	2546	1145	40	1	3982	1	CACNA1F	23	49079419	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	420	49079419	106191141	1988	63937											
CCNB3	85417	broad.mit.edu	37	chrX	50052149	50052149	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgagaaggagacactttTccaagagctatctgtattgc	12	11	9	9	0	1	3	0	1	1	3	2	5	2	3	1	1	2	2	1	1	4	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:50052149T>C	uc004dox.3	+	6	1278	c.980T>C	c.(979-981)TTC>TCC	p.F327S	CCNB3_uc004doy.2_Missense_Mutation_p.F327S|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	327					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					GAGACACTTTTCCAAGAGCTA	0.443													80	115					0	0	1	0	0		C	50052149	C	C	50052149	3	2	103	1	0	0	0	0	1	0	0	0	2917	1783	62	3	994	3	CCNB3	23	50052149	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	972730	50052149	105218411	1989	63938											
CCNB3	85417	broad.mit.edu	37	chrX	50090755	50090755	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttactcctggccctctacaTgaagaagctcggatactggg	9	10	10	12	1	1	2	0	1	1	1	3	3	2	3	2	3	4	1	2	3	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:50090755T>C	uc004dox.3	+	11	4239	c.3941T>C	c.(3940-3942)ATG>ACG	p.M1314T	CCNB3_uc004doy.2_Missense_Mutation_p.M1314T|CCNB3_uc004doz.2_Missense_Mutation_p.M210T|CCNB3_uc010njq.2_Missense_Mutation_p.M206T|CCNB3_uc004dpa.2_Missense_Mutation_p.M153T	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1314					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					GCCCTCTACATGAAGAAGCTC	0.498													12	27					0	0	1	0	0		C	50090755	C	C	50090755	3	2	103	1	0	0	0	0	1	0	0	0	2917	1464	51	3	3975	3	CCNB3	23	50090755	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	38606	50090755	105179805	1990	63939											
IQSEC2	23096	broad.mit.edu	37	chrX	53279669	53279669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggagctctcaaggctctCgttatctccaccatcagagt	8	11	9	13	1	4	1	2	0	3	1	7	2	4	2	2	2	1	4	2	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:53279669C>T	uc004dsd.2	-	5	2290	c.2089G>A	c.(2089-2091)GAG>AAG	p.E697K	IQSEC2_uc004dsc.2_Missense_Mutation_p.E492K	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	687					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						TCAAGGCTCTCGTTATCTCCA	0.582													27	42					0	0	1	0	0		T	53279669	T	T	53279669	3	4	103	1	0	0	0	0	1	0	0	0	7834	893	31	1	2421	1	IQSEC2	23	53279669	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3188914	53279669	101990891	1991	63940											
HUWE1	10075	broad.mit.edu	37	chrX	53657955	53657955	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtgattagaaaagccaTgggccagtcgtatgtgtgta	10	12	12	7	1	0	2	0	1	0	1	2	2	1	2	3	1	1	2	3	1	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:53657955T>C	uc004dsp.2	-	12	1196	c.794A>G	c.(793-795)CAT>CGT	p.H265R		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	265					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						AGAAAAGCCATGGGCCAGTCG	0.378													36	60					0	0	1	0	0		C	53657955	C	C	53657955	3	2	103	1	0	0	0	0	1	0	0	0	7477	1464	51	3	12622	3	HUWE1	23	53657955	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	378286	53657955	101612605	1992	63941											
TRO	7216	broad.mit.edu	37	chrX	54949891	54949891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caagaaggctgccagcagggGcccaaattctgtctctgaga	11	7	12	11	0	2	2	0	1	2	2	3	3	2	2	2	3	2	2	2	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:54949891G>A	uc004dtq.2	+	3	1033	c.926G>A	c.(925-927)GGC>GAC	p.G309D	TRO_uc011moj.1_Missense_Mutation_p.G252D|TRO_uc004dts.2_Missense_Mutation_p.G309D|TRO_uc004dtr.2_Missense_Mutation_p.G309D|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Intron|TRO_uc004dtw.2_Intron|TRO_uc004dtx.2_5'Flank	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	309					embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GCCAGCAGGGGCCCAAATTCT	0.562													7	6					0	0	1	0	0		A	54949891	A	A	54949891	3	1	103	1	0	0	0	0	1	0	0	0	16600	1203	42	2	932	2	TRO	23	54949891	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1291936	54949891	100320669	1993	63942											
MAGEH1	28986	broad.mit.edu	37	chrX	55478849	55478849	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgccgccgtaatgcgagAgccgcagaagagaaccgcaa	12	2	14	13	7	0	3	0	0	0	3	0	5	0	3	4	1	3	3	4	1	4	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:55478849A>G	uc004dum.2	+	1	312	c.42A>G	c.(40-42)AGA>AGG	p.R14R		NM_014061	NP_054780	Q9H213	MAGH1_HUMAN	melanoma antigen, family H, 1 protein	14	MAGE.				apoptosis					ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GTAATGCGAGAGCCGCAGAAG	0.602													7	10					0	0	1	0	0		G	55478849	G	G	55478849	2	3	103	1	0	0	0	0	0	0	0	1	9206	301	11	3		3	MAGEH1	23	55478849	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	528958	55478849	99791711	1994	63943											
MTMR8	55613	broad.mit.edu	37	chrX	63444306	63444306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcctggcacaaggctctgCggacgactaaacggacctgt	10	6	12	13	3	1	0	0	0	1	0	1	3	1	2	2	4	3	2	2	4	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:63444306C>T	uc011mou.1	-	11	2059	c.1991G>A	c.(1990-1992)CGC>CAC	p.R664H	ASB12_uc004dvp.1_Missense_Mutation_p.R280H|ASB12_uc004dvq.1_Missense_Mutation_p.R289H|ASB12_uc004dvr.1_Missense_Mutation_p.R289H	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	Error:Variant_position_missing_in_Q96EF0_after_alignment						nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						CAAGGCTCTGCGGACGACTAA	0.488													13	39					0	0	1	0	0		T	63444306	T	T	63444306	3	4	103	1	0	0	0	0	1	0	0	0	9967	768	27	1		1	MTMR8	23	63444306	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	7965457	63444306	91826254	1995	63944											
ZC3H12B	340554	broad.mit.edu	37	chrX	64722913	64722913	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggaatccttgggttggaAtgtgcaatgattccagggag	10	10	16	5	0	0	1	0	1	0	0	2	5	2	5	2	5	1	2	2	5	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:64722913A>G	uc010nko.2	+	5	2311	c.2302A>G	c.(2302-2304)ATG>GTG	p.M768V		NM_001010888	NP_001010888	Q5HYM0	ZC12B_HUMAN	zinc finger CCCH-type containing 12B	768							endonuclease activity|nucleic acid binding|zinc ion binding			lung(1)|kidney(1)|pancreas(1)	3						TTGGGTTGGAATGTGCAATGA	0.473													36	50					0	0	1	0	0		G	64722913	G	G	64722913	3	3	103	1	0	0	0	0	1	0	0	0	17587	101	4	3	2353	3	ZC3H12B	23	64722913	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	1278607	64722913	90547647	1996	63945											
MSN	4478	broad.mit.edu	37	chrX	64949377	64949377	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaccctgaggatgtgtcCgaggaattgattcaggacat	10	12	11	8	1	2	2	1	2	1	0	3	6	3	5	2	3	1	0	2	3	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:64949377C>T	uc004dwf.2	+	4	468	c.270C>T	c.(268-270)TCC>TCT	p.S90S		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	90	FERM.				leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						AGGATGTGTCCGAGGAATTGA	0.517			T	ALK	ALCL								38	65					0	0	1	0	0		T	64949377	T	T	64949377	2	4	103	1	0	0	0	0	0	0	0	1	9903	639	23	1		1	MSN	23	64949377	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	226464	64949377	90321183	1997	63946											
DLG3	1741	broad.mit.edu	37	chrX	69669611	69669611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagccgggcggtggaggCgctgaaggaggcaggccctg	8	3	19	11	3	0	1	0	1	0	0	0	3	0	3	2	7	1	2	2	7	1	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:69669611C>T	uc004dyi.1	+	4	933	c.605C>T	c.(604-606)GCG>GTG	p.A202V	DLG3_uc004dyj.1_5'Flank	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	202	PDZ 1.				axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					GCGGTGGAGGCGCTGAAGGAG	0.637													11	20					0	0	1	0	0		T	69669611	T	T	69669611	3	4	103	1	0	0	0	0	1	0	0	0	4562	768	27	1	619	1	DLG3	23	69669611	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	4720234	69669611	85600949	1998	63947											
NLGN3	54413	broad.mit.edu	37	chrX	70384062	70384062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaccagatccaggccctccGctgggtgagcgagaatattg	9	8	13	11	2	0	4	0	2	0	2	2	5	2	4	4	2	1	1	4	2	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:70384062G>A	uc004dzd.1	+	5	997	c.797G>A	c.(796-798)CGC>CAC	p.R266H	NLGN3_uc010nlb.1_Missense_Mutation_p.R226H|NLGN3_uc004dzb.2_Missense_Mutation_p.R246H|NLGN3_uc004dzc.2_Missense_Mutation_p.R129H|NLGN3_uc011mps.1_Missense_Mutation_p.R226H|NLGN3_uc004dze.2_Missense_Mutation_p.R64H|NLGN3_uc011mpr.1_Missense_Mutation_p.R226H	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	266	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					CAGGCCCTCCGCTGGGTGAGC	0.572													5	55					0	0	1	0	0		A	70384062	A	A	70384062	3	1	103	1	0	0	0	0	1	0	0	0	10482	1087	38	1	815	1	NLGN3	23	70384062	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	714451	70384062	84886498	1999	63948											
RGAG4	340526	broad.mit.edu	37	chrX	71349920	71349920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatgcacccaggaagttttCggcgtggtaaccacttgtgg	8	11	13	9	2	0	1	0	1	0	0	1	2	0	2	2	4	2	3	2	4	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:71349920C>T	uc010nlh.1	-	1	1832	c.1471G>A	c.(1471-1473)GAA>AAA	p.E491K	NHSL2_uc011mqa.1_Intron|RGAG4_uc004eaj.1_RNA	NM_001024455	NP_001019626	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	491										ovary(2)|skin(1)	3	Renal(35;0.156)					AGGAAGTTTTCGGCGTGGTAA	0.547													6	51					0	0	1	0	0		T	71349920	T	T	71349920	3	4	103	1	0	0	0	0	1	0	0	0	13300	893	31	1	242	1	RGAG4	23	71349920	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	965858	71349920	83920640	2000	63949											
KIAA2022	340533	broad.mit.edu	37	chrX	73963005	73963005	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaattagtgtcccgagccaTatagcgactacagtccttga	12	10	9	10	2	0	2	0	1	0	1	2	4	2	2	3	0	3	0	3	0	5	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:73963005T>C	uc004eby.2	-	3	2004	c.1387A>G	c.(1387-1389)ATG>GTG	p.M463V		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	463					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						TCCCGAGCCATATAGCGACTA	0.448													17	35					0	0	1	0	0		C	73963005	C	C	73963005	3	2	103	1	0	0	0	0	1	0	0	0	8285	1406	49	3	3171	3	KIAA2022	23	73963005	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2613085	73963005	81307555	2001	63950											
MAGT1	84061	broad.mit.edu	37	chrX	77112909	77112909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctcagctgaaaaacccCgcacctgtaactcatatgta	12	10	6	13	1	3	1	2	1	1	0	3	1	3	1	3	0	4	5	3	0	5	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:77112909C>T	uc004fof.2	-	4	634	c.572G>A	c.(571-573)CGG>CAG	p.R191Q	MAGT1_uc004fog.3_Intron	NM_032121	NP_115497	Q9H0U3	MAGT1_HUMAN	magnesium transporter 1	159					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				upper_aerodigestive_tract(1)	1						TGAAAAACCCCGCACCTGTAA	0.448													68	126					0	0	1	0	0		T	77112909	T	T	77112909	3	4	103	1	0	0	0	0	1	0	0	0	9214	652	23	1	559	1	MAGT1	23	77112909	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3149904	77112909	78157651	2002	63951											
P2RY10	27334	broad.mit.edu	37	chrX	78216537	78216537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcccatcctgagaagcacaGacttaaacaacaacaagtcc	16	7	5	13	0	0	2	0	1	0	2	3	3	3	2	3	0	4	1	3	0	6	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:78216537G>A	uc004ede.2	+	4	889	c.520G>A	c.(520-522)GAC>AAC	p.D174N	P2RY10_uc004edf.2_Missense_Mutation_p.D174N	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	174	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						GAGAAGCACAGACTTAAACAA	0.498													37	44					0	0	1	0	0		A	78216537	A	A	78216537	3	1	103	1	0	0	0	0	1	0	0	0	11366	942	33	4	522	4	P2RY10	23	78216537	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1103628	78216537	77054023	2003	63952											
ZNF711	7552	broad.mit.edu	37	chrX	84510642	84510642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagattgtgtttcaggagtcGactctcccacaatggtatca	11	12	9	9	1	3	1	2	0	1	1	5	3	3	2	1	2	0	2	1	2	3	3	rs3747423		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:84510642G>A	uc004eeo.2	+	4	804	c.457G>A	c.(457-459)GAC>AAC	p.D153N	ZNF711_uc004eep.2_Missense_Mutation_p.D153N|ZNF711_uc004eeq.2_Missense_Mutation_p.D153N	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	153					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						TTCAGGAGTCGACTCTCCCAC	0.448													42	67					0	0	1	0	0		A	84510642	A	A	84510642	3	1	103	1	0	0	0	0	1	0	0	0	18141	1058	37	1	463	1	ZNF711	23	84510642	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	6294105	84510642	70759918	2004	63953											
DACH2	117154	broad.mit.edu	37	chrX	85403798	85403798	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaacagtgccggaggcggCggcaggggcaacaccaacac	12	1	15	13	3	0	0	0	0	0	0	0	1	0	1	2	6	5	3	2	6	3	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:85403798C>T	uc004eew.2	+	1	344	c.174C>T	c.(172-174)GGC>GGT	p.G58G	DACH2_uc004eex.2_Silent_p.G58G|DACH2_uc010nmq.2_5'UTR	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	58	Poly-Gly.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						CCGGAGGCGGCGGCAGGGGCA	0.572													37	43					0	0	1	0	0		T	85403798	T	T	85403798	2	4	103	1	0	0	0	0	0	0	0	1	4224	755	27	1		1	DACH2	23	85403798	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	893156	85403798	69866762	2005	63954											
DIAPH2	1730	broad.mit.edu	37	chrX	96167391	96167391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgagctggaaaagcttctgGacaaaaaacagtaagaataa	20	7	9	5	0	1	2	0	1	1	1	1	4	1	4	0	2	3	3	0	2	8	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:96167391G>A	uc004efu.3	+	6	1048	c.652G>A	c.(652-654)GAC>AAC	p.D218N	DIAPH2_uc004eft.3_Missense_Mutation_p.D218N|DIAPH2_uc004efs.2_Missense_Mutation_p.D225N	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	218	GBD/FH3.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						AAAGCTTCTGGACAAAAAACA	0.313													4	12					0	0	1	0	0		A	96167391	A	A	96167391	3	1	103	1	0	0	0	0	1	0	0	0	4525	1174	41	4	674	4	DIAPH2	23	96167391	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	10763593	96167391	59103169	2006	63955											
SYTL4	94121	broad.mit.edu	37	chrX	99934400	99934400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctggagctctcccccttccCcacctttacctgtaagggat	6	11	7	17	0	1	0	0	0	1	0	3	2	2	2	7	2	2	2	7	2	2	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:99934400C>T	uc004egd.3	-	17	1924	c.1568G>A	c.(1567-1569)GGG>GAG	p.G523E	SYTL4_uc004egc.2_5'Flank|SYTL4_uc010nnb.2_Missense_Mutation_p.G195E|SYTL4_uc010nnc.2_Missense_Mutation_p.G523E|SYTL4_uc004ege.3_Missense_Mutation_p.G523E|SYTL4_uc004egf.3_Missense_Mutation_p.G523E	NM_080737	NP_542775	Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	523	C2 2.				exocytosis|intracellular protein transport	extrinsic to membrane|plasma membrane|synaptic vesicle|transport vesicle membrane	neurexin binding|phospholipid binding|Rab GTPase binding|transporter activity|zinc ion binding			ovary(2)	2					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TCCCCCTTCCCCACCTTTACC	0.512													8	30					0	0	1	0	0		T	99934400	T	T	99934400	3	4	103	1	0	0	0	0	1	0	0	0	15510	623	22	4	459	4	SYTL4	23	99934400	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	3767009	99934400	55336160	2007	63956											
DRP2	1821	broad.mit.edu	37	chrX	100492712	100492712	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggagttgtcagctcagcTgcccctacagggggatgtgg	7	9	16	9	0	2	1	2	1	0	0	2	3	2	3	2	4	4	3	2	4	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:100492712T>A	uc004egz.2	+	5	755	c.386T>A	c.(385-387)CTG>CAG	p.L129Q	DRP2_uc011mrh.1_Missense_Mutation_p.L51Q	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	129	Spectrin 1.				central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						TCAGCTCAGCTGCCCCTACAG	0.552													9	146					0	0	1	0	0		A	100492712	A	A	100492712	3	1	103	1	0	0	0	0	1	0	0	0	4770	1580	55	5	396	5	DRP2	23	100492712	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	558312	100492712	54777848	2008	63957											
ARMCX2	9823	broad.mit.edu	37	chrX	100911088	100911088	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagtcattagtaatagtcAtgtttgttagaaattttagt	12	18	9	2	0	2	1	2	0	0	1	2	1	2	1	0	1	0	4	0	1	7	8			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:100911088A>G	uc004eid.2	-	3	1842	c.1487T>C	c.(1486-1488)ATG>ACG	p.M496T	ARMCX2_uc004eie.3_Missense_Mutation_p.M496T|ARMCX2_uc004eif.3_Missense_Mutation_p.M496T|ARMCX2_uc004eig.3_Missense_Mutation_p.M496T|ARMCX2_uc010nnt.2_Missense_Mutation_p.M496T	NM_177949	NP_808818	Q7L311	ARMX2_HUMAN	ALEX2 protein	496						integral to membrane	binding			ovary(6)	6						AGTAATAGTCATGTTTGTTAG	0.403													81	96					0	0	1	0	0		G	100911088	G	G	100911088	3	3	103	1	0	0	0	0	1	0	0	0	961	217	8	3	415	3	ARMCX2	23	100911088	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	418376	100911088	54359472	2009	63958											
ARMCX2	9823	broad.mit.edu	37	chrX	100911473	100911473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggcgcttctgcatggcaaCgggtcttcttcccctccctc	3	11	11	16	2	3	0	0	0	3	0	6	0	5	0	3	4	2	3	3	4	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:100911473C>T	uc004eid.2	-	3	1457	c.1102G>A	c.(1102-1104)GTT>ATT	p.V368I	ARMCX2_uc004eie.3_Missense_Mutation_p.V368I|ARMCX2_uc004eif.3_Missense_Mutation_p.V368I|ARMCX2_uc004eig.3_Missense_Mutation_p.V368I|ARMCX2_uc010nnt.2_Missense_Mutation_p.V368I	NM_177949	NP_808818	Q7L311	ARMX2_HUMAN	ALEX2 protein	368						integral to membrane	binding			ovary(6)	6						TGCATGGCAACGGGTCTTCTT	0.552													37	63					0	0	1	0	0		T	100911473	T	T	100911473	3	4	103	1	0	0	0	0	1	0	0	0	961	536	19	1	800	1	ARMCX2	23	100911473	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	385	100911473	54359087	2010	63959											
TCEAL3	85012	broad.mit.edu	37	chrX	102864512	102864512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatgtacaggatccattcGccccaaggggacaacggggt	11	6	14	10	2	0	1	0	0	0	1	2	4	1	3	3	5	2	1	3	5	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:102864512G>A	uc004ekq.2	+	3	782	c.520G>A	c.(520-522)GCC>ACC	p.A174T	TCEAL3_uc004ekr.2_Missense_Mutation_p.A174T	NM_001006933	NP_001006934	Q969E4	TCAL3_HUMAN	transcription elongation factor A (SII)-like 3	174					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						GGATCCATTCGCCCCAAGGGG	0.512													41	220					0	0	1	0	0		A	102864512	A	A	102864512	3	1	103	1	0	0	0	0	1	0	0	0	15697	1087	38	1	522	1	TCEAL3	23	102864512	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1953039	102864512	52406048	2011	63960											
RNF128	79589	broad.mit.edu	37	chrX	105970199	105970199	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtggctgcggcttttccaGattgctggcatggtgcttcc	3	13	14	11	2	0	1	0	0	0	1	2	1	2	1	2	5	3	5	2	5	0	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:105970199G>T	uc004eml.2	+	1	306	c.56G>T	c.(55-57)AGA>ATA	p.R19I	RNF128_uc004emk.2_Intron	NM_194463	NP_919445	Q8TEB7	RN128_HUMAN	ring finger protein 128 isoform 1	19						endomembrane system|integral to membrane|perinuclear region of cytoplasm	zinc ion binding			ovary(1)|central_nervous_system(1)	2						GGCTTTTCCAGATTGCTGGCA	0.726													4	4					0.150653	0.151095	1	1	0		T	105970199	T	T	105970199	3	4	103	1	0	0	0	0	1	0	0	0	13461	942	33	5	468	5	RNF128	23	105970199	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3105687	105970199	49300361	2012	63961											
TSC22D3	1831	broad.mit.edu	37	chrX	106957756	106957756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggacagagccacttacaccGcagaaccaccaggggcctcg	12	3	11	15	2	0	2	0	0	0	2	1	3	0	3	5	3	3	1	5	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:106957756G>A	uc004eng.2	-	3	648	c.398C>T	c.(397-399)GCG>GTG	p.A133V	TSC22D3_uc004enf.2_Missense_Mutation_p.A76V|TSC22D3_uc004enh.2_Missense_Mutation_p.A199V|TSC22D3_uc004eni.2_Missense_Mutation_p.A199V|TSC22D3_uc004enj.2_Missense_Mutation_p.A199V	NM_004089	NP_004080	Q99576	T22D3_HUMAN	TSC22 domain family, member 3 isoform 2	133							sequence-specific DNA binding transcription factor activity				0						CACTTACACCGCAGAACCACC	0.562													15	38					0	0	1	0	0		A	106957756	A	A	106957756	3	1	103	1	0	0	0	0	1	0	0	0	16635	1087	38	1	10	1	TSC22D3	23	106957756	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	987557	106957756	48312804	2013	63962											
TEX13B	56156	broad.mit.edu	37	chrX	107224317	107224317	+	Frame_Shift_Del	DEL	C	-	-																															ccacaggctagcatcagaggCcccccagttgaaaggcatct																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:107224317delC	uc004enn.1	-	3	1025	c.932delG	c.(931-933)GGCfs	p.G311fs		NM_031273	NP_112563	Q9BXU2	TX13B_HUMAN	testis expressed 13B	311										ovary(1)	1						GCATCAGAGGCCCCCCAGTTG	0.562													64	108	---	---	---	---						.	-	107224317	-	-	107224317	7	5	103	1	0	1	0	1	0	0	0	0	15802	739	26	0	10	0	TEX13B	23	107224317	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	266561	107224317	48046243	2014	63963											
DCX	1641	broad.mit.edu	37	chrX	110653323	110653323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcaatggtgtaaatgtaacGcactccctgaggcaggttga	12	10	11	8	1	1	2	1	2	0	0	2	2	2	2	1	3	1	5	1	3	4	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:110653323G>A	uc004epd.2	-	2	719	c.547C>T	c.(547-549)CGT>TGT	p.R183C	DCX_uc011msv.1_Missense_Mutation_p.R183C|DCX_uc004epe.2_Missense_Mutation_p.R102C|DCX_uc004epf.2_Missense_Mutation_p.R102C|DCX_uc004epg.2_Missense_Mutation_p.R102C	NM_000555	NP_000546	O43602	DCX_HUMAN	doublecortin isoform a	183	Doublecortin 1.		R -> S (in LISX1).		axon guidance|central nervous system development|intracellular signal transduction	cytosol|microtubule associated complex	microtubule binding			central_nervous_system(2)|lung(1)|skin(1)	4						TAAATGTAACGCACTCCCTGA	0.522													45	61					0	0	1	0	0		A	110653323	A	A	110653323	3	1	103	1	0	0	0	0	1	0	0	0	4321	1087	38	1	817	1	DCX	23	110653323	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	3429006	110653323	44617237	2015	63964											
ALG13	79868	broad.mit.edu	37	chrX	110970903	110970904	+	Frame_Shift_Ins	INS	-	C	C																															ggagtcccagtatggatttaINSccccagggaatggacagatg																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:110970903_110970904insC	uc011msy.1	+	18	2186_2187	c.2152_2153insC	c.(2152-2154)ACCfs	p.T718fs	ALG13_uc011msx.1_Frame_Shift_Ins_p.T614fs|ALG13_uc011msz.1_Frame_Shift_Ins_p.T640fs|ALG13_uc011mta.1_Frame_Shift_Ins_p.T614fs|ALG13_uc011mtb.1_Frame_Shift_Ins_p.T614fs			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	718					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						GTATGGATTTACCCCAGGGAAT	0.396													18	31	---	---	---	---						.	C	110970904	C	C	110970903	7	5	103	1	0	1	1	0	0	0	0	0	515	391	14	0	2364	0	ALG13	23	110970903	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	317580	110970903	44299657	2016	63965											
TRPC5	7224	broad.mit.edu	37	chrX	111195335	111195335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcgcccaccacttccttgCgtatggcatagagcaatgca	10	8	9	14	2	0	1	0	0	0	1	1	1	1	1	3	1	4	4	3	1	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:111195335C>T	uc004epl.1	-	2	1233	c.314G>A	c.(313-315)CGC>CAC	p.R105H	TRPC5_uc004epm.1_Missense_Mutation_p.R105H	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	105	ANK 3.|Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						CACTTCCTTGCGTATGGCATA	0.542													62	97					0	0	1	0	0		T	111195335	T	T	111195335	3	4	103	1	0	0	0	0	1	0	0	0	16608	768	27	1	2647	1	TRPC5	23	111195335	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	224432	111195335	44075225	2017	63966											
SLC6A14	11254	broad.mit.edu	37	chrX	115572199	115572199	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctttgttctttctggagTgttcactgggacaatttgct	6	18	9	8	0	3	0	1	0	2	0	3	2	3	2	1	2	2	3	1	2	2	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:115572199T>G	uc004eqi.2	+	3	384	c.280T>G	c.(280-282)TGT>GGT	p.C94G	SLC6A14_uc011mtm.1_RNA	NM_007231	NP_009162	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid	94					cellular amino acid metabolic process|response to toxin	integral to membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)|pancreas(1)	3					L-Proline(DB00172)	CTTTCTGGAGTGTTCACTGGG	0.388													114	181					0	0	1	0	0		G	115572199	G	G	115572199	3	3	103	1	0	0	0	0	1	0	0	0	14702	1696	59	5	290	5	SLC6A14	23	115572199	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	4376864	115572199	39698361	2018	63967											
SLC6A14	11254	broad.mit.edu	37	chrX	115582694	115582694	+	Frame_Shift_Del	DEL	A	-	-																															tatcatcttacaataagttcAaaaacaactgcttctctgat																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:115582694delA	uc004eqi.2	+	8	1122	c.1018delA	c.(1018-1020)AAAfs	p.K340fs		NM_007231	NP_009162	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid	340					cellular amino acid metabolic process|response to toxin	integral to membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)|pancreas(1)	3					L-Proline(DB00172)	CAATAAGTTCAAAAACAACTG	0.398													70	111	---	---	---	---						.	-	115582694	-	-	115582694	7	5	103	1	0	1	0	1	0	0	0	0	14702	131	5	0	1048	0	SLC6A14	23	115582694	Frame_Shift_Del	DEL	A	TCGA-BR-A4QL-01A-31D-A25D-08	10495	115582694	39687866	2019	63968											
KLHL13	90293	broad.mit.edu	37	chrX	117043339	117043339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttaggtggaagaaggtgcGcttttcatttaaagatgcaa	13	12	11	5	1	1	2	1	0	0	2	1	3	1	3	0	3	2	2	0	3	6	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:117043339G>A	uc004eql.2	-	5	1353	c.1291C>T	c.(1291-1293)CGC>TGC	p.R431C	KLHL13_uc004eqk.2_Missense_Mutation_p.R380C|KLHL13_uc011mtn.1_Missense_Mutation_p.R271C|KLHL13_uc011mto.1_Missense_Mutation_p.R425C|KLHL13_uc011mtp.1_Missense_Mutation_p.R433C|KLHL13_uc004eqm.2_Missense_Mutation_p.R380C|KLHL13_uc011mtq.1_Missense_Mutation_p.R415C	NM_033495	NP_277030	Q9P2N7	KLH13_HUMAN	kelch-like 13	431	Kelch 2.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex				kidney(1)|skin(1)	2						AAGAAGGTGCGCTTTTCATTT	0.398													5	60					0	0	1	0	0		A	117043339	A	A	117043339	3	1	103	1	0	0	0	0	1	0	0	0	8385	1087	38	1	688	1	KLHL13	23	117043339	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1460645	117043339	38227221	2020	63969											
PGRMC1	10857	broad.mit.edu	37	chrX	118370513	118370513	+	Frame_Shift_Del	DEL	C	-	-																															acagcgacgacgacgagccgCcccctctgccccgcctcaag																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:118370513delC	uc004erb.2	+	1	303	c.187delC	c.(187-189)CCCfs	p.P63fs	PGRMC1_uc011mts.1_Frame_Shift_Del_p.P63fs	NM_006667	NP_006658	O00264	PGRC1_HUMAN	progesterone receptor membrane component 1	63	Cytoplasmic (Potential).					cell surface|endoplasmic reticulum membrane|integral to membrane|microsome|nucleolus	heme binding|protein binding|receptor activity|steroid binding				0						CGACGAGCCGCCCCCTCTGCC	0.697													21	46	---	---	---	---						.	-	118370513	-	-	118370513	7	5	103	1	0	1	0	1	0	0	0	0	11825	739	26	0	189	0	PGRMC1	23	118370513	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	1327174	118370513	36900047	2021	63970											
RNF113A	7737	broad.mit.edu	37	chrX	119005267	119005267	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccacgggtttcgccgaacGggtggatttataaaccacgc	9	9	11	12	5	0	0	0	0	0	0	2	2	1	1	3	3	2	1	3	3	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:119005267G>T	uc004esb.2	-	1	525	c.310C>A	c.(310-312)CGT>AGT	p.R104S	NDUFA1_uc004esc.3_5'Flank	NM_006978	NP_008909	O15541	R113A_HUMAN	ring finger protein 113A	104							nucleic acid binding|zinc ion binding			breast(2)	2						TTCGCCGAACGGGTGGATTTA	0.557													122	220					2.09629e-50	2.27588e-50	1	1	0		T	119005267	T	T	119005267	3	4	103	1	0	0	0	0	1	0	0	0	13452	1116	39	5	725	5	RNF113A	23	119005267	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	634754	119005267	36265293	2022	63971											
AKAP14	158798	broad.mit.edu	37	chrX	119037280	119037280	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaatacacaagacaagaacTacgaggatgaattgactcaa	19	6	8	8	2	1	4	1	2	0	2	1	7	1	5	0	1	3	0	0	1	8	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:119037280T>G	uc004ese.2	+	3	232	c.94T>G	c.(94-96)TAC>GAC	p.Y32D	AKAP14_uc004esd.2_Missense_Mutation_p.Y32D|AKAP14_uc004esf.2_Missense_Mutation_p.Y32D	NM_178813	NP_848928	Q86UN6	AKA28_HUMAN	A kinase (PRKA) anchor protein 14 isoform a	32						cytoplasm					0						AGACAAGAACTACGAGGATGA	0.408													40	61					0	0	1	0	0		G	119037280	G	G	119037280	3	3	103	1	0	0	0	0	1	0	0	0	450	1522	53	5	96	5	AKAP14	23	119037280	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	32013	119037280	36233280	2023	63972											
RHOXF2B	727940	broad.mit.edu	37	chrX	119293304	119293304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggagcgcattttccaaCgcgagcagttccccagtgag	9	8	12	12	3	0	1	0	1	0	0	2	3	2	2	3	1	4	4	3	1	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:119293304C>T	uc004esl.3	+	2	653	c.463C>T	c.(463-465)CGC>TGC	p.R155C		NM_001099685	NP_001093155	P0C7M4	RHF2B_HUMAN	Rhox homeobox family, member 2B	155	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CATTTTCCAACGCGAGCAGTT	0.657													17	18					0	0	1	0	0		T	119293304	T	T	119293304	3	4	103	1	0	0	0	0	1	0	0	0	13374	536	19	1	1352	1	RHOXF2B	23	119293304	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	256024	119293304	35977256	2024	63973											
FAM70A	55026	broad.mit.edu	37	chrX	119410901	119410901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaccagtgatctccacccGgctggacagggaggagcatg	9	5	13	14	1	1	1	0	1	1	0	2	4	1	4	4	4	1	2	4	4	0	0			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:119410901G>A	uc004eso.3	-	8	813	c.586C>T	c.(586-588)CGG>TGG	p.R196W	FAM70A_uc004esp.3_Missense_Mutation_p.R172W|FAM70A_uc010nqo.2_Intron	NM_017938	NP_060408	Q5JRV8	FA70A_HUMAN	hypothetical protein LOC55026 isoform 1	196						integral to membrane				lung(1)|breast(1)	2						ATCTCCACCCGGCTGGACAGG	0.582													26	76					0	0	1	0	0		A	119410901	A	A	119410901	3	1	103	1	0	0	0	0	1	0	0	0	5619	1130	39	1	475	1	FAM70A	23	119410901	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	117597	119410901	35859659	2025	63974											
CUL4B	8450	broad.mit.edu	37	chrX	119691798	119691798	+	Missense_Mutation	SNP	T	A	A																															cctggtagagttcttctaaaTtgtacttaattgaagtacta																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:119691798T>A	uc004esw.2	-	4	1144	c.707A>T	c.(706-708)AAT>ATT	p.N236I	CUL4B_uc004esv.2_Missense_Mutation_p.N218I	NM_003588	NP_003579	Q13620	CUL4B_HUMAN	cullin 4B isoform 1	236					cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3						TTCTTCTAAATTGTACTTAAT	0.328													12	18					0	0	1	0	0		A	119691798	A	A	119691798	3	1	103	1	0	0	0	0	1	0	0	0	4061	1493	52	5	2110	5	CUL4B	23	119691798	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	280897	119691798	35578762	2026	63975	120	2									
CUL4B	8450	broad.mit.edu	37	chrX	119691804	119691804	+	Missense_Mutation	SNP	T	C	C																															agagttcttctaaattgtacTtaattgaagtactattctga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:119691804T>C	uc004esw.2	-	4	1138	c.701A>G	c.(700-702)AAG>AGG	p.K234R	CUL4B_uc004esv.2_Missense_Mutation_p.K216R	NM_003588	NP_003579	Q13620	CUL4B_HUMAN	cullin 4B isoform 1	234					cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3						TAAATTGTACTTAATTGAAGT	0.323													11	21					0	0	1	0	0		C	119691804	C	C	119691804	3	2	103	1	0	0	0	0	1	0	0	0	4061	1609	56	3	2116	3	CUL4B	23	119691804	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	6	119691804	35578756	2027	63976	120	2									
GLUD2	2747	broad.mit.edu	37	chrX	120182193	120182193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggctttattggtcctggcGttgatgtgcctgctccagac	5	13	13	10	1	0	2	0	1	0	1	2	2	2	2	3	3	2	3	3	3	1	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:120182193G>A	uc004eto.2	+	1	732	c.655G>A	c.(655-657)GTT>ATT	p.V219I		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	219					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	TGGTCCTGGCGTTGATGTGCC	0.458													57	83					0	0	1	0	0		A	120182193	A	A	120182193	3	1	103	1	0	0	0	0	1	0	0	0	6492	1145	40	1	657	1	GLUD2	23	120182193	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	490389	120182193	35088367	2028	63977											
STAG2	10735	broad.mit.edu	37	chrX	123176474	123176475	+	Frame_Shift_Ins	INS	-	G	G																															actctgagataattcgaaaaINSatgactgaagaattcgatga																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:123176474_123176475insG	uc004etz.3	+	6	780_781	c.441_442insG	c.(439-444)AAAATGfs	p.K147fs	STAG2_uc004eua.2_Frame_Shift_Ins_p.K147fs|STAG2_uc004eub.2_Frame_Shift_Ins_p.K147fs|STAG2_uc004euc.2_Frame_Shift_Ins_p.K147fs|STAG2_uc004eud.2_Frame_Shift_Ins_p.K147fs|STAG2_uc004eue.2_Frame_Shift_Ins_p.K147fs	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	147_148					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						TAATTCGAAAAATGACTGAAGA	0.292													34	44	---	---	---	---						.	G	123176475	G	G	123176474	7	5	103	1	0	1	1	0	0	0	0	0	15268	11	1	0	459	0	STAG2	23	123176474	Frame_Shift_Ins	INS	-	TCGA-BR-A4QL-01A-31D-A25D-08	2994281	123176474	32094086	2029	63978											
ODZ1	10178	broad.mit.edu	37	chrX	123539072	123539072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgctggcaaaagtgacacGcagggaaccatctggattca	12	6	11	12	2	2	1	1	1	1	0	2	3	2	3	2	3	1	3	2	3	3	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:123539072G>A	uc004euj.2	-	26	5243	c.5179C>T	c.(5179-5181)CGT>TGT	p.R1727C	ODZ1_uc011muj.1_Missense_Mutation_p.R1733C|ODZ1_uc010nqy.2_Missense_Mutation_p.R1734C	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1727	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						AAAGTGACACGCAGGGAACCA	0.537													35	56					0	0	1	0	0		A	123539072	A	A	123539072	3	1	103	1	0	0	0	0	1	0	0	0	10853	1087	38	1	3022	1	ODZ1	23	123539072	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	362598	123539072	31731488	2030	63979											
OCRL	4952	broad.mit.edu	37	chrX	128703273	128703273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttccagcctggtgtgaccGaattctttggagaggaacaa	10	10	13	8	1	1	2	0	1	1	1	2	5	2	3	3	4	2	1	3	4	3	3	rs137853260		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:128703273G>A	uc004euq.2	+	15	1664	c.1499G>A	c.(1498-1500)CGA>CAA	p.R500Q	OCRL_uc004eur.2_Missense_Mutation_p.R500Q	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	500			R -> G (in OCRL).		regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TGGTGTGACCGAATTCTTTGG	0.428													57	93					0	0	1	0	0		A	128703273	A	A	128703273	3	1	103	1	0	0	0	0	1	0	0	0	10842	1058	37	1	1557	1	OCRL	23	128703273	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	5164201	128703273	26567287	2031	63980											
OCRL	4952	broad.mit.edu	37	chrX	128723844	128723844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctcccagcttccgagatGccatagaaatgttttccgtt	9	13	8	11	2	1	2	0	0	1	2	4	4	3	2	4	0	2	3	4	0	2	5			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:128723844G>A	uc004euq.2	+	23	2657	c.2492G>A	c.(2491-2493)TGC>TAC	p.C831Y	OCRL_uc004eur.2_Missense_Mutation_p.C823Y|OCRL_uc010nrb.2_Intron	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	831	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						CTTCCGAGATGCCATAGAAAT	0.413													44	59					0	0	1	0	0		A	128723844	A	A	128723844	3	1	103	1	0	0	0	0	1	0	0	0	10842	1319	46	2	2582	2	OCRL	23	128723844	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	20571	128723844	26546716	2032	63981											
UTP14A	10813	broad.mit.edu	37	chrX	129055422	129055422	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccagagcttgaggcccatGgagtttctgaaagtgaggga	10	9	15	7	0	1	4	0	3	1	1	1	6	1	6	2	3	2	2	2	3	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:129055422G>C	uc004euz.2	+	11	1235	c.1207G>C	c.(1207-1209)GGA>CGA	p.G403R	UTP14A_uc011mup.1_Missense_Mutation_p.G351R|UTP14A_uc011muq.1_Missense_Mutation_p.G349R|UTP14A_uc004eva.1_Missense_Mutation_p.G109R	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	403					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						TGAGGCCCATGGAGTTTCTGA	0.507													22	34					0	0	1	0	0		C	129055422	C	C	129055422	3	2	103	1	0	0	0	0	1	0	0	0	17121	1349	47	5	1249	5	UTP14A	23	129055422	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	331578	129055422	26215138	2033	63982											
BCORL1	63035	broad.mit.edu	37	chrX	129190011	129190011	+	Frame_Shift_Del	DEL	C	-	-																															tggaggcttggacgacagatCccccccaggctcctctgaga																								rs137862942		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:129190011delC	uc004evb.1	+	13	5150	c.5036delC	c.(5035-5037)TCCfs	p.S1679fs	BCORL1_uc004evc.1_Frame_Shift_Del_p.S515fs	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1679					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GACGACAGATCCCCCCCAGGC	0.602													40	58	---	---	---	---						.	-	129190011	-	-	129190011	7	5	103	1	0	1	0	1	0	0	0	0	1388	855	30	0	5308	0	BCORL1	23	129190011	Frame_Shift_Del	DEL	C	TCGA-BR-A4QL-01A-31D-A25D-08	134589	129190011	26080549	2034	63983											
RAB33A	9363	broad.mit.edu	37	chrX	129306239	129306239	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccagacaagactgaagccaCcatcggcgtggacttcaggg	11	5	12	13	2	1	3	1	1	0	2	2	4	1	4	3	3	1	0	3	3	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:129306239C>A	uc004evl.2	+	1	467	c.203C>A	c.(202-204)ACC>AAC	p.T68N	RAB33A_uc010nre.2_RNA	NM_004794	NP_004785	Q14088	RB33A_HUMAN	Ras-related protein Rab-33A	68					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding				0						ACTGAAGCCACCATCGGCGTG	0.592													37	70					2.32173e-10	2.42324e-10	1	1	0		A	129306239	A	A	129306239	3	1	103	1	0	0	0	0	1	0	0	0	12947	507	18	5	205	5	RAB33A	23	129306239	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	116228	129306239	25964321	2035	63984											
GPR119	139760	broad.mit.edu	37	chrX	129518465	129518465	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acgatgtgacaggaactttcCctgggcctctctgggccaca	8	9	11	13	1	1	1	0	1	1	0	3	3	2	2	3	3	1	0	3	3	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:129518465C>A	uc011muv.1	-	1	957	c.957G>T	c.(955-957)AGG>AGT	p.R319S		NM_178471	NP_848566	Q8TDV5	GP119_HUMAN	G protein-coupled receptor 119	319	Cytoplasmic (Potential).					integral to membrane|plasma membrane	lipid binding			ovary(2)	2						AGGAACTTTCCCTGGGCCTCT	0.537													41	65					8.20599e-20	8.779e-20	1	1	0		A	129518465	A	A	129518465	3	1	103	1	0	0	0	0	1	0	0	0	6649	622	22	5	54	5	GPR119	23	129518465	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	212226	129518465	25752095	2036	63985											
OR13H1	347468	broad.mit.edu	37	chrX	130678359	130678359	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggctcaaacgagtgtctcCttggctttggccacagcaga	8	11	11	11	1	2	1	1	0	1	1	3	2	2	1	2	3	2	3	2	3	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:130678359C>T	uc011muw.1	+	1	312	c.312C>T	c.(310-312)TCC>TCT	p.S104S	IGSF1_uc004ewf.2_Intron	NM_001004486	NP_001004486	Q8NG92	O13H1_HUMAN	olfactory receptor, family 13, subfamily H,	104	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Acute lymphoblastic leukemia(192;0.000636)					CGAGTGTCTCCTTGGCTTTGG	0.512													6	80					0	0	1	0	0		T	130678359	T	T	130678359	2	4	103	1	0	0	0	0	0	0	0	1	10962	668	24	4		4	OR13H1	23	130678359	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1159894	130678359	24592201	2037	63986											
RAP2C	57826	broad.mit.edu	37	chrX	131351264	131351264	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatttgccaacccctccActccctaacaccactacctt	10	9	3	19	0	0	1	0	0	0	1	2	1	2	1	7	0	4	1	7	0	3	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:131351264A>T	uc004ewp.2	-	2	817	c.33T>A	c.(31-33)AGT>AGA	p.S11R	uc004ewr.1_5'Flank|RAP2C_uc004ewo.2_Intron|RAP2C_uc010nrk.2_Intron|RAP2C_uc004ewq.3_Missense_Mutation_p.S11R	NM_021183	NP_067006	Q9Y3L5	RAP2C_HUMAN	RAP2C, member of RAS oncogene family precursor	11	GTP (By similarity).				negative regulation of cell migration|positive regulation of protein autophosphorylation|Rap protein signal transduction|regulation of protein tyrosine kinase activity	recycling endosome membrane	GTP binding|GTPase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					CAACCCCTCCACTCCCTAACA	0.517													118	179					0	0	1	0	0		T	131351264	T	T	131351264	3	4	103	1	0	0	0	0	1	0	0	0	13067	156	6	5	526	5	RAP2C	23	131351264	Missense_Mutation	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	672905	131351264	23919296	2038	63987											
GPC4	2239	broad.mit.edu	37	chrX	132439845	132439845	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtggttgggcgttcctcGgggtgatgtggtctgaagcg	3	12	19	7	3	1	2	0	2	1	0	3	2	2	2	1	5	1	3	1	5	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:132439845G>A	uc004exc.1	-	6	1322	c.1110C>T	c.(1108-1110)CCC>CCT	p.P370P	GPC4_uc011mvg.1_Silent_p.P300P	NM_001448	NP_001439	O75487	GPC4_HUMAN	glypican 4 precursor	370					anatomical structure morphogenesis|cell proliferation	anchored to membrane|external side of plasma membrane|extracellular space|insoluble fraction|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	Acute lymphoblastic leukemia(192;0.000127)					GGCGTTCCTCGGGGTGATGTG	0.542													108	207					0	0	1	0	0		A	132439845	A	A	132439845	2	1	103	1	0	0	0	0	0	0	0	1	6615	1103	39	1		1	GPC4	23	132439845	Silent	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1088581	132439845	22830715	2039	63988											
GPR112	139378	broad.mit.edu	37	chrX	135428783	135428783	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtgcttctaccacaaggaTatcagaaaccagtttctcca	12	10	8	11	0	3	1	1	0	2	1	4	2	3	2	3	2	3	2	3	2	4	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:135428783T>C	uc004ezu.1	+	6	3209	c.2918T>C	c.(2917-2919)ATA>ACA	p.I973T	GPR112_uc010nsb.1_Missense_Mutation_p.I768T|GPR112_uc010nsc.1_Missense_Mutation_p.I740T	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	973	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					ACCACAAGGATATCAGAAACC	0.498													85	134					0	0	1	0	0		C	135428783	C	C	135428783	3	2	103	1	0	0	0	0	1	0	0	0	6644	1406	49	3	2928	3	GPR112	23	135428783	Missense_Mutation	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	2988938	135428783	19841777	2040	63989											
VGLL1	51442	broad.mit.edu	37	chrX	135630815	135630815	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccacaaccagaagtaccTgtcacaaaccgtgccgccaa	15	4	7	15	2	1	1	1	0	0	1	1	1	1	1	6	0	5	1	6	0	6	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:135630815T>C	uc004ezy.2	+	3	452	c.282T>C	c.(280-282)CCT>CCC	p.P94P	MIR934_hsa-mir-934|MI0005756_5'Flank	NM_016267	NP_057351	Q99990	VGLL1_HUMAN	vestigial like 1	94					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	transcription coactivator activity				0	Acute lymphoblastic leukemia(192;0.000127)					CAGAAGTACCTGTCACAAACC	0.517													107	164					0	0	1	0	0		C	135630815	C	C	135630815	2	2	103	1	0	0	0	0	0	0	0	1	17184	1567	55	3		3	VGLL1	23	135630815	Silent	SNP	T	TCGA-BR-A4QL-01A-31D-A25D-08	202032	135630815	19639745	2041	63990											
MCF2	4168	broad.mit.edu	37	chrX	138729031	138729031	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacagttttctggaaacgtAatgatccaagcattgtcctt	11	15	7	8	1	1	1	0	1	1	0	3	2	3	2	2	1	3	3	2	1	4	6			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:138729031A>T	uc011mwn.1	-	3	318	c.312T>A	c.(310-312)ATT>ATA	p.I104I	MCF2_uc004faw.2_Silent_p.I19I|MCF2_uc011mwo.1_Silent_p.I19I			P10911	MCF2_HUMAN	SubName: Full=MCF.2 cell line derived transforming sequence;	Error:Variant_position_missing_in_P10911_after_alignment					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					CTGGAAACGTAATGATCCAAG	0.328													8	8					0	0	1	0	0		T	138729031	T	T	138729031	2	4	103	1	0	0	0	0	0	0	0	1	9396	358	13	5		5	MCF2	23	138729031	Silent	SNP	A	TCGA-BR-A4QL-01A-31D-A25D-08	3098216	138729031	16541529	2042	63991											
MAMLD1	10046	broad.mit.edu	37	chrX	149671777	149671777	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctccactactgcctagctgCgacgccacaggtaagtcact	9	8	9	15	2	1	0	1	0	0	0	2	1	2	0	3	1	4	3	3	1	3	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:149671777C>T	uc004fee.1	+	5	2350	c.2274C>T	c.(2272-2274)TGC>TGT	p.C758C	MAMLD1_uc011mxu.1_Intron|MAMLD1_uc011mxv.1_Silent_p.C733C|MAMLD1_uc011mxw.1_Silent_p.C644C	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	758					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					tgcctagctgcgacgccacag	0.199													6	10					0	0	1	0	0		T	149671777	T	T	149671777	2	4	103	1	0	0	0	0	0	0	0	1	9226	776	27	1		1	MAMLD1	23	149671777	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	10942746	149671777	5598783	2043	63992											
HMGB3	3149	broad.mit.edu	37	chrX	150154642	150154642	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaagaagaagaaggatcCtaatgctcccaaaaggccac	17	4	10	10	0	0	3	0	0	0	3	2	4	2	4	3	3	1	2	3	3	7	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:150154642C>A	uc004fep.2	+	3	361	c.269C>A	c.(268-270)CCT>CAT	p.P90H	HMGB3_uc004feq.2_Missense_Mutation_p.P90H|HMGB3_uc004fer.2_Missense_Mutation_p.P90H	NM_005342	NP_005333	O15347	HMGB3_HUMAN	high-mobility group box 3	90					DNA recombination|multicellular organismal development	chromosome|nucleus	DNA bending activity|double-stranded DNA binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					AAGAAGGATCCTAATGCTCCC	0.403													15	20					2.31682e-05	2.35817e-05	1	1	0		A	150154642	A	A	150154642	3	1	103	1	0	0	0	0	1	0	0	0	7243	681	24	5	275	5	HMGB3	23	150154642	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	482865	150154642	5115918	2044	63993											
GPR50	9248	broad.mit.edu	37	chrX	150349152	150349152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaccccgatgaatgtccGgaatgttccattacctggtg	10	10	11	10	2	0	1	0	1	0	0	2	4	2	3	5	3	2	1	5	3	4	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:150349152G>A	uc010ntg.1	+	2	1232	c.1097G>A	c.(1096-1098)CGG>CAG	p.R366Q	uc004fes.1_5'Flank	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	366	Cytoplasmic (Potential).|Pro-rich.				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					ATGAATGTCCGGAATGTTCCA	0.617													77	77					0	0	1	0	0		A	150349152	A	A	150349152	3	1	103	1	0	0	0	0	1	0	0	0	6712	1116	39	1	1103	1	GPR50	23	150349152	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	194510	150349152	4921408	2045	63994											
CETN2	1069	broad.mit.edu	37	chrX	151996414	151996414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggtctttttcatgatgcGcaggaactcttgctcactga	7	14	10	10	1	4	2	2	2	2	0	4	3	4	3	0	2	3	3	0	2	1	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:151996414G>A	uc004fgq.2	-	5	537	c.490C>T	c.(490-492)CGC>TGC	p.R164C	CETN2_uc004fgr.2_Missense_Mutation_p.R93C	NM_004344	NP_004335	P41208	CETN2_HUMAN	caltractin	164	EF-hand 4.				cell division|centriole replication|G2/M transition of mitotic cell cycle|mitosis|nucleotide-excision repair|regulation of cytokinesis	centriole|cytosol|XPC complex	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					TTCATGATGCGCAGGAACTCT	0.393								Direct_reversal_of_damage|NER					43	98					0	0	1	0	0		A	151996414	A	A	151996414	3	1	103	1	0	0	0	0	1	0	0	0	3278	1087	38	1	32	1	CETN2	23	151996414	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	1647262	151996414	3274146	2046	63995											
ATP2B3	492	broad.mit.edu	37	chrX	152825205	152825205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggactctcctctcaaagccGtgcagatgttgtgggtgaac	9	10	12	10	1	2	2	1	1	2	1	4	3	2	3	2	2	3	2	2	2	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:152825205G>A	uc004fht.1	+	16	2770	c.2644G>A	c.(2644-2646)GTG>ATG	p.V882M	ATP2B3_uc004fhs.1_Missense_Mutation_p.V882M|ATP2B3_uc010nuf.1_5'Flank|ATP2B3_uc004fhu.1_5'Flank	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	882	Helical; (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TCTCAAAGCCGTGCAGATGTT	0.617													29	57					0	0	1	0	0		A	152825205	A	A	152825205	3	1	103	1	0	0	0	0	1	0	0	0	1142	1145	40	1	2706	1	ATP2B3	23	152825205	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	828791	152825205	2445355	2047	63996											
IDH3G	3421	broad.mit.edu	37	chrX	153053016	153053018	+	In_Frame_Del	DEL	TGA	-	-																															gcgcagggacttggccttggTgatgatcttcaggctctcca																										TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:153053016_153053018delTGA	uc004fip.2	-	8	761_763	c.575_577delTCA	c.(574-579)ATCACC>ACC	p.I192del	IDH3G_uc004fio.2_In_Frame_Del_p.I134del|IDH3G_uc004fiq.2_In_Frame_Del_p.I192del|IDH3G_uc010num.2_In_Frame_Del_p.I134del|IDH3G_uc004fir.2_In_Frame_Del_p.I134del|IDH3G_uc004fit.1_In_Frame_Del_p.I192del|IDH3G_uc004fis.2_In_Frame_Del_p.I134del|IDH3G_uc004fiu.2_5'UTR	NM_004135	NP_004126	P51553	IDH3G_HUMAN	isocitrate dehydrogenase 3 (NAD+) gamma isoform	192					carbohydrate metabolic process|isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleolus	ATP binding|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	TTGGCCTTGGTGATGATCTTCAG	0.586													14	24	---	---	---	---						.	-	153053018	-	-	153053016	7	5	103	1	0	1	0	1	0	0	0	0	7514	1696	59	0	691	0	IDH3G	23	153053016	In_Frame_Del	DEL	TGA	TCGA-BR-A4QL-01A-31D-A25D-08	227811	153053016	2217544	2048	63997											
L1CAM	3897	broad.mit.edu	37	chrX	153131206	153131206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggccaggtccaccggccGccacttgaccagcacggcac	7	4	12	18	3	0	1	0	1	0	0	1	1	1	1	6	4	1	2	6	4	0	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:153131206G>A	uc004fjb.2	-	19	2608	c.2500C>T	c.(2500-2502)CGG>TGG	p.R834W	L1CAM_uc004fjc.2_Missense_Mutation_p.R834W|L1CAM_uc010nuo.2_Missense_Mutation_p.R829W	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	834	Extracellular (Potential).|Fibronectin type-III 3.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TCCACCGGCCGCCACTTGACC	0.587													89	138					0	0	1	0	0		A	153131206	A	A	153131206	3	1	103	1	0	0	0	0	1	0	0	0	8604	1086	38	1	1313	1	L1CAM	23	153131206	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	78190	153131206	2139354	2049	63998											
HCFC1	3054	broad.mit.edu	37	chrX	153219633	153219633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggaaaggagccagcagcGcggtgccagcctggggggtg	7	5	20	9	2	0	0	0	0	0	0	0	2	0	2	3	6	5	1	3	6	1	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:153219633G>A	uc004fjp.2	-	17	4745	c.4217C>T	c.(4216-4218)GCG>GTG	p.A1406V		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1406					cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGCCAGCAGCGCGGTGCCAGC	0.672													18	30					0	0	1	0	0		A	153219633	A	A	153219633	3	1	103	1	0	0	0	0	1	0	0	0	7007	1087	38	1	1930	1	HCFC1	23	153219633	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	88427	153219633	2050927	2050	63999											
HCFC1	3054	broad.mit.edu	37	chrX	153227748	153227748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagactgggcttattccacGtcagggtgtctgcagagaga	9	10	14	8	1	2	3	1	1	1	3	3	5	3	3	1	2	1	2	1	2	1	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:153227748G>A	uc004fjp.2	-	5	1250	c.722C>T	c.(721-723)ACG>ATG	p.T241M		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	241	Kelch 4.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTTATTCCACGTCAGGGTGTC	0.567													11	18					0	0	1	0	0		A	153227748	A	A	153227748	3	1	103	1	0	0	0	0	1	0	0	0	7007	1145	40	1	5473	1	HCFC1	23	153227748	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	8115	153227748	2042812	2051	64000											
MECP2	4204	broad.mit.edu	37	chrX	153296753	153296753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggagctttgggagatttggGcttcttaggtggtttctgct	4	17	15	5	0	2	1	0	0	2	1	2	3	2	2	0	5	2	4	0	5	1	5	rs62621666		TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:153296753G>A	uc004fjv.2	-	4	752	c.526C>T	c.(526-528)CCC>TCC	p.P176S	MECP2_uc004fjw.2_Missense_Mutation_p.P188S	NM_004992	NP_004983	P51608	MECP2_HUMAN	methyl CpG binding protein 2 isoform 1	176					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	heterochromatin|nucleus	double-stranded methylated DNA binding|protein domain specific binding|protein N-terminus binding|transcription corepressor activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGAGATTTGGGCTTCTTAGGT	0.607													54	58					0	0	1	0	0		A	153296753	A	A	153296753	3	1	103	1	0	0	0	0	1	0	0	0	9441	1203	42	2	938	2	MECP2	23	153296753	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	69005	153296753	1973807	2052	64001											
OPN1LW	5956	broad.mit.edu	37	chrX	153420113	153420113	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagcggcagctcgtaccccGgggtgcagtcttacatgatt	7	10	12	12	3	2	1	1	1	1	0	3	1	2	1	2	3	5	4	2	3	2	3			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:153420113G>A	uc004fjz.3	+	4	676	c.643G>A	c.(643-645)GGG>AGG	p.G215R		NM_020061	NP_064445	P04000	OPSR_HUMAN	opsin 1 (cone pigments), long-wave-sensitive	215	Extracellular.				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0	all_cancers(53;1.83e-16)|all_epithelial(53;2.73e-10)|all_lung(58;6.39e-07)|Lung NSC(58;8.37e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTCGTACCCCGGGGTGCAGTC	0.607													60	150					0	0	1	0	0		A	153420113	A	A	153420113	3	1	103	1	0	0	0	0	1	0	0	0	10896	1116	39	1	657	1	OPN1LW	23	153420113	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	123360	153420113	1850447	2053	64002											
OPN1LW	5956	broad.mit.edu	37	chrX	153421957	153421957	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgccggcctactttgcCaaaagtgccactatctacaa	10	9	7	15	1	1	0	0	0	1	0	1	0	1	0	5	1	5	0	5	1	6	4			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:153421957C>A	uc004fjz.3	+	5	966	c.933C>A	c.(931-933)GCC>GCA	p.A311A		NM_020061	NP_064445	P04000	OPSR_HUMAN	opsin 1 (cone pigments), long-wave-sensitive	311	Helical; Name=7; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0	all_cancers(53;1.83e-16)|all_epithelial(53;2.73e-10)|all_lung(58;6.39e-07)|Lung NSC(58;8.37e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCTACTTTGCCAAAAGTGCCA	0.537													113	304					2.32265e-44	2.51897e-44	1	1	0		A	153421957	A	A	153421957	2	1	103	1	0	0	0	0	0	0	0	1	10896	581	21	5		5	OPN1LW	23	153421957	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	1844	153421957	1848603	2054	64003											
FLNA	2316	broad.mit.edu	37	chrX	153593797	153593797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagctgtctccttcaccCgcacacccttgggctggagg	6	9	11	15	1	3	0	2	0	1	0	4	1	3	1	3	3	1	3	3	3	0	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:153593797C>T	uc004fkk.2	-	10	1736	c.1487G>A	c.(1486-1488)CGG>CAG	p.R496Q	FLNA_uc010nuu.1_Missense_Mutation_p.R496Q	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	496	Filamin 3.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTCCTTCACCCGCACACCCTT	0.667													21	42					0	0	1	0	0		T	153593797	T	T	153593797	3	4	103	1	0	0	0	0	1	0	0	0	5947	652	23	1	6612	1	FLNA	23	153593797	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	171840	153593797	1676763	2055	64004											
PLXNA3	55558	broad.mit.edu	37	chrX	153689624	153689624	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgagaaatttttcacgtcCaagatcgtgcgcatgtgcgc	9	10	12	10	5	1	2	1	0	0	2	3	3	2	2	1	1	2	1	1	1	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:153689624C>T	uc004flm.2	+	3	953	c.780C>T	c.(778-780)TCC>TCT	p.S260S		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	260	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TTTTCACGTCCAAGATCGTGC	0.592													38	71					0	0	1	0	0		T	153689624	T	T	153689624	2	4	103	1	0	0	0	0	0	0	0	1	12140	581	21	4		4	PLXNA3	23	153689624	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	95827	153689624	1580936	2056	64005											
SLC10A3	8273	broad.mit.edu	37	chrX	153715994	153715994	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atagctgcagcatggccaagGccagcaggctgttctgcacc	9	7	12	13	0	1	0	0	0	1	0	1	0	1	0	3	3	5	7	3	3	2	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:153715994G>T	uc004flq.2	-	3	1550	c.1286C>A	c.(1285-1287)GCC>GAC	p.A429D	UBL4A_uc004flo.2_5'Flank|SLC10A3_uc004flr.2_Missense_Mutation_p.A400D|SLC10A3_uc004flp.2_Missense_Mutation_p.A429D	NM_001142392	NP_001135864	P09131	P3_HUMAN	solute carrier family 10, member 3 isoform 1	429	Helical; (Potential).				organic anion transport	integral to membrane	bile acid:sodium symporter activity			ovary(1)|skin(1)	2	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CATGGCCAAGGCCAGCAGGCT	0.652													18	23					5.03518e-11	5.27141e-11	1	1	0		T	153715994	T	T	153715994	3	4	103	1	0	0	0	0	1	0	0	0	14400	1203	42	5	151	5	SLC10A3	23	153715994	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	26370	153715994	1554566	2057	64006											
DKC1	1736	broad.mit.edu	37	chrX	154001491	154001491	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtgatcatggagagagaCacttaccctcggaagtgggg	12	7	15	7	1	1	4	1	1	0	3	2	7	1	5	1	4	1	0	1	4	2	1			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:154001491C>T	uc004fmm.2	+	11	1332	c.1122C>T	c.(1120-1122)GAC>GAT	p.D374D	DKC1_uc010nvf.2_Silent_p.D374D|SNORA56_uc004fmo.2_5'Flank	NM_001363	NP_001354	O60832	DKC1_HUMAN	dyskerin isoform 1	374					cell proliferation|pseudouridine synthesis|rRNA processing|telomere maintenance via telomerase	Cajal body|nucleolus|telomerase holoenzyme complex	protein binding|pseudouridine synthase activity|RNA binding|telomerase activity				0	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TGGAGAGAGACACTTACCCTC	0.418									Congenital_Dyskeratosis				28	68					0	0	1	0	0		T	154001491	T	T	154001491	2	4	103	1	0	0	0	0	0	0	0	1	4548	477	17	4		4	DKC1	23	154001491	Silent	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	285497	154001491	1269069	2058	64007											
TMLHE	55217	broad.mit.edu	37	chrX	154754197	154754197	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactggcagtatccaggctgCgctggtgagtcttagagttg	7	11	14	9	1	1	2	0	1	1	1	2	2	2	2	1	3	1	5	1	3	2	3	rs145371120	byFrequency	TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:154754197C>T	uc004fnn.2	-	3	444	c.278G>A	c.(277-279)CGC>CAC	p.R93H	TMLHE_uc004fno.2_Missense_Mutation_p.R93H|TMLHE_uc004fnp.3_Missense_Mutation_p.R93H	NM_018196	NP_060666	Q9NVH6	TMLH_HUMAN	trimethyllysine hydroxylase, epsilon	93					carnitine biosynthetic process	mitochondrial matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|trimethyllysine dioxygenase activity			ovary(1)	1	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Succinic acid(DB00139)|Vitamin C(DB00126)	ATCCAGGCTGCGCTGGTGAGT	0.488													71	109					0	0	1	0	0		T	154754197	T	T	154754197	3	4	103	1	0	0	0	0	1	0	0	0	16257	768	27	1	1151	1	TMLHE	23	154754197	Missense_Mutation	SNP	C	TCGA-BR-A4QL-01A-31D-A25D-08	752706	154754197	516363	2059	64008											
SPRY3	10251	broad.mit.edu	37	chrX	155004342	155004342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggcacaccaacactgtgtGcagaaagatctcttctggta	12	9	10	10	0	2	2	0	0	2	2	3	3	2	2	1	2	2	3	1	2	3	2			TCGA-BR-A4QL-01A-31D-A25D-08	TCGA-BR-A4QL-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4185ac3-7bc5-4881-a6fc-c72a990ce069	99b2d1f8-974a-4bcf-ad2d-84d93081945a	g.chrX:155004342G>A	uc004fnq.1	+	2	1263	c.809G>A	c.(808-810)TGC>TAC	p.C270Y	SPRY3_uc010nvl.1_Missense_Mutation_p.C171Y	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	270	Cys-rich.				multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					AACACTGTGTGCAGAAAGATC	0.562													63	72					0	0	1	0	0		A	155004342	A	A	155004342	3	1	103	1	0	0	0	0	1	0	0	0	15132	1319	46	2	811	2	SPRY3	23	155004342	Missense_Mutation	SNP	G	TCGA-BR-A4QL-01A-31D-A25D-08	250145	155004342	266218	2060	64009											
C1QC	714	broad.mit.edu	37	chr1	22974057	22974057	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactttgtctaccacgcgtcGcatacagccaacctgtgcgt	8	11	8	14	4	1	0	0	0	1	0	2	0	1	0	3	0	6	1	3	0	4	4			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr1:22974057G>A	uc001bgc.3	+	3	622	c.519G>A	c.(517-519)TCG>TCA	p.S173S	C1QC_uc001bga.3_Silent_p.S173S|C1QC_uc001bgb.2_Silent_p.S173S	NM_172369	NP_758957	P02747	C1QC_HUMAN	complement component 1, q subcomponent, C chain	173	C1q.				complement activation, classical pathway|innate immune response|negative regulation of granulocyte differentiation|negative regulation of macrophage differentiation	collagen					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.21e-27)|Colorectal(126;1.5e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.61e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000538)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.196)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	ACCACGCGTCGCATACAGCCA	0.582													18	98					0	0	0.006122	0	0		A	22974057	A	A	22974057	2	1	104	1	0	0	0	0	0	0	0	1	1960	1074	38	1		1	C1QC	1	22974057	Silent	SNP	G	TCGA-CD-5798-01A-11D-1600-08		22974057	226276564	1	64010											
SMAP2	64744	broad.mit.edu	37	chr1	40887656	40887656	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccctttcagatgacccaGcagatggctgggatgaactt	9	11	10	11	0	2	4	1	2	1	2	3	5	2	5	2	2	2	2	2	2	1	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr1:40887656G>A	uc001cfj.2	+	10	1238	c.1173G>A	c.(1171-1173)CAG>CAA	p.Q391Q	SMAP2_uc001cfk.2_Silent_p.Q361Q|SMAP2_uc010oji.1_Silent_p.Q308Q|SMAP2_uc010ojj.1_Silent_p.Q207Q	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	391	Interaction with PICALM (By similarity).|Met-rich.				regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)			AGATGACCCAGCAGATGGCTG	0.517													4	59					0	0	0.000602	0	0		A	40887656	A	A	40887656	2	1	104	1	0	0	0	0	0	0	0	1	14792	962	34	2		2	SMAP2	1	40887656	Silent	SNP	G	TCGA-CD-5798-01A-11D-1600-08	17913599	40887656	208362965	2	64011											
NOTCH2	4853	broad.mit.edu	37	chr1	120539720	120539720	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcacatacaggctgtcacaGtactggcctgtgaagccctg	9	8	12	12	0	1	1	1	1	0	0	1	1	1	1	2	3	3	3	2	3	3	2	rs150410907		TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr1:120539720G>A	uc001eik.2	-	4	907	c.651C>T	c.(649-651)TAC>TAT	p.Y217Y	NOTCH2_uc001eil.2_Silent_p.Y217Y|NOTCH2_uc001eim.3_Silent_p.Y134Y	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	217	Extracellular (Potential).|EGF-like 5; calcium-binding (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGCTGTCACAGTACTGGCCTG	0.572			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				10	55					0	0	0.006214	0	0		A	120539720	A	A	120539720	2	1	104	1	0	0	0	0	0	0	0	1	10567	1024	36	4		4	NOTCH2	1	120539720	Silent	SNP	G	TCGA-CD-5798-01A-11D-1600-08	79652064	120539720	128710901	3	64012											
ECM1	1893	broad.mit.edu	37	chr1	150484934	150484934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tactcgggatgagtgctttgCccgtcgggctccttacccca	5	11	11	14	3	0	1	0	1	0	0	3	2	1	2	4	2	4	2	4	2	2	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr1:150484934C>T	uc001eus.2	+	8	1389	c.1190C>T	c.(1189-1191)GCC>GTC	p.A397V	ECM1_uc001eut.2_Missense_Mutation_p.A272V|ECM1_uc001euu.2_Missense_Mutation_p.A426V|ECM1_uc001euv.2_Missense_Mutation_p.A424V|ECM1_uc009wlu.2_Missense_Mutation_p.A157V	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	397	2 X approximate repeats.|2.				angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			GAGTGCTTTGCCCGTCGGGCT	0.567													13	121					0	0	0.001855	0	0		T	150484934	T	T	150484934	3	4	104	1	0	0	0	0	1	0	0	0	4903	739	26	2	1220	2	ECM1	1	150484934	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	29945214	150484934	98765687	4	64013											
NCSTN	23385	broad.mit.edu	37	chr1	160326122	160326122	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctatcctcaggcaggacCtaaggtcctacttgggtaag	10	10	11	10	0	2	0	1	0	1	0	4	1	4	1	3	4	1	2	3	4	4	5			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr1:160326122C>T	uc001fvx.2	+	14	1748	c.1624C>T	c.(1624-1626)CTA>TTA	p.L542L	NCSTN_uc001fvy.2_Silent_p.L522L|NCSTN_uc010pjf.1_Silent_p.L404L|NCSTN_uc001fvz.2_Silent_p.L322L|NCSTN_uc010pjg.1_Silent_p.L284L	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	542	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CAGGCAGGACCTAAGGTCCTA	0.428													15	121					0	0	0.003163	0	0		T	160326122	T	T	160326122	2	4	104	1	0	0	0	0	0	0	0	1	10260	680	24	4		4	NCSTN	1	160326122	Silent	SNP	C	TCGA-CD-5798-01A-11D-1600-08	9841188	160326122	88924499	5	64014											
TADA1	117143	broad.mit.edu	37	chr1	166833124	166833124	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttttccaggttttgctgcGgaaccccctggccaaggcaa	7	10	12	12	1	0	0	0	0	0	0	1	1	1	1	4	5	3	4	4	5	3	4	rs141542819		TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr1:166833124G>A	uc001gdw.2	-	4	451	c.267C>T	c.(265-267)TCC>TCT	p.S89S	TADA1_uc001gdv.2_5'Flank|TADA1_uc009wve.2_Silent_p.S89S	NM_053053	NP_444281	Q96BN2	TADA1_HUMAN	transcriptional adaptor 1-like	89					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(1)	1						GTTTTGCTGCGGAACCCCCTG	0.378													13	134					0	0	0.001855	0	0		A	166833124	A	A	166833124	2	1	104	1	0	0	0	0	0	0	0	1	15534	1103	39	1		1	TADA1	1	166833124	Silent	SNP	G	TCGA-CD-5798-01A-11D-1600-08	6507002	166833124	82417497	6	64015											
NAV1	89796	broad.mit.edu	37	chr1	201618003	201618003	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgaaggtcttcaagtcCggcagcgtggacagccgtgt	8	8	15	10	3	2	1	1	1	1	0	3	3	3	2	2	3	3	2	2	3	2	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr1:201618003C>T	uc001gwu.2	+	1	554	c.207C>T	c.(205-207)TCC>TCT	p.S69S		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	69					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						TCTTCAAGTCCGGCAGCGTGG	0.448													4	29					0	0	0.000602	0	0		T	201618003	T	T	201618003	2	4	104	1	0	0	0	0	0	0	0	1	10201	639	23	1		1	NAV1	1	201618003	Silent	SNP	C	TCGA-CD-5798-01A-11D-1600-08	34784879	201618003	47632618	7	64016											
TARBP1	6894	broad.mit.edu	37	chr1	234603278	234603278	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggtgaaaatggaagaatCtttgtttcatacagctccaa	13	13	8	7	0	3	2	1	1	2	1	4	3	4	3	1	2	2	2	1	2	6	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr1:234603278C>A	uc001hwd.2	-	4	1218	c.1218G>T	c.(1216-1218)AAG>AAT	p.K406N		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	406					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			ATGGAAGAATCTTTGTTTCAT	0.373													15	108					1.37285e-15	1.57541e-15	0.004007	1	0		A	234603278	A	A	234603278	3	1	104	1	0	0	0	0	1	0	0	0	15580	912	32	5	3755	5	TARBP1	1	234603278	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	32985275	234603278	14647343	8	64017											
PPPDE1	51029	broad.mit.edu	37	chr1	244855285	244855285	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgcttatcatttaatgcAtaaaaactgcaatcattttt	15	16	3	7	0	2	0	2	0	0	0	2	0	2	0	0	0	4	3	0	0	7	6			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr1:244855285A>G	uc001iao.2	+	4	578	c.314A>G	c.(313-315)CAT>CGT	p.H105R	PPPDE1_uc001iap.2_Missense_Mutation_p.H72R	NM_016076	NP_057160	Q9BSY9	PPDE1_HUMAN	PPPDE peptidase domain containing 1	105	PPPDE peptidase.									breast(3)	3						CATTTAATGCATAAAAACTGC	0.313													8	103					0	0	0.00308	0	0		G	244855285	G	G	244855285	3	3	104	1	0	0	0	0	1	0	0	0	12430	217	8	3	328	3	PPPDE1	1	244855285	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08	10252007	244855285	4395336	9	64018											
OR2L3	391192	broad.mit.edu	37	chr1	248224128	248224128	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatccatgattcttctcatcTtcttggacacccatctccac	8	15	3	15	0	5	1	1	1	5	0	8	2	6	2	3	1	0	0	3	1	1	5			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr1:248224128T>C	uc001idx.1	+	1	145	c.145T>C	c.(145-147)TTC>CTC	p.F49L	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	49	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TCTTCTCATCTTCTTGGACAC	0.413													9	851					0	0	0.006214	0	0		C	248224128	C	C	248224128	3	2	104	1	0	0	0	0	1	0	0	0	11027	1609	56	3	147	3	OR2L3	1	248224128	Missense_Mutation	SNP	T	TCGA-CD-5798-01A-11D-1600-08	3368843	248224128	1026493	10	64019											
LPIN1	23175	broad.mit.edu	37	chr2	11964841	11964841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agactttccctgttcggataCcttcagtaacttcacctttt	8	16	5	12	1	2	1	2	0	0	1	4	2	3	2	3	1	2	2	3	1	2	8			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr2:11964841C>T	uc010yjn.1	+	21	2871	c.2597C>T	c.(2596-2598)ACC>ATC	p.T866I	LPIN1_uc010yjm.1_Missense_Mutation_p.T951I|LPIN1_uc002rbt.2_Missense_Mutation_p.T866I|LPIN1_uc010yjo.1_Missense_Mutation_p.T367I	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	866					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		TGTTCGGATACCTTCAGTAAC	0.478													18	109					0	0	0.006122	0	0		T	11964841	T	T	11964841	3	4	104	1	0	0	0	0	1	0	0	0	8936	507	18	4	2671	4	LPIN1	2	11964841	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08		11964841	231234532	11	64020											
XDH	7498	broad.mit.edu	37	chr2	31572580	31572580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgtcaacctcactcttccGagcatgatactgagagcttg	9	12	8	12	1	3	2	2	2	1	1	4	4	4	2	2	0	4	2	2	0	2	4			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr2:31572580G>A	uc002rnv.1	-	26	3020	c.2941C>T	c.(2941-2943)CGG>TGG	p.R981W		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	981					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	TCACTCTTCCGAGCATGATAC	0.483													34	250					0	0	0.013726	0	0		A	31572580	A	A	31572580	3	1	104	1	0	0	0	0	1	0	0	0	17452	1057	37	1	1104	1	XDH	2	31572580	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	19607739	31572580	211626793	12	64021											
VIT	5212	broad.mit.edu	37	chr2	37035950	37035950	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaagcctgacatcctcaaCgccatcaagagggtgggcta	12	6	11	12	1	2	2	2	1	0	1	3	2	3	2	3	2	3	2	3	2	4	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr2:37035950C>T	uc002rpl.2	+	15	1946	c.1725C>T	c.(1723-1725)AAC>AAT	p.N575N	VIT_uc002rpm.2_Silent_p.N553N|VIT_uc010ezv.2_Silent_p.N531N|VIT_uc010ezw.2_Silent_p.N532N	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	560	VWFA 2.					proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				ACATCCTCAACGCCATCAAGA	0.592													8	73					0	0	0.00308	0	0		T	37035950	T	T	37035950	2	4	104	1	0	0	0	0	0	0	0	1	17197	535	19	1		1	VIT	2	37035950	Silent	SNP	C	TCGA-CD-5798-01A-11D-1600-08	5463370	37035950	206163423	13	64022											
NMS	129521	broad.mit.edu	37	chr2	101099720	101099720	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctttttttaggattcaGtggtgaaagaaagctggatc	10	17	10	4	0	2	2	1	1	1	1	3	4	2	4	0	3	1	1	0	3	3	7			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr2:101099720G>A	uc002tan.1	+	10	463	c.456G>A	c.(454-456)CAG>CAA	p.Q152Q		NM_001011717	NP_001011717	Q5H8A3	NMS_HUMAN	neuromedin S precursor	152					neuropeptide signaling pathway|regulation of smooth muscle contraction	extracellular region				ovary(1)	1						TTAGGATTCAGTGGTGAAAGA	0.348													4	69					0	0	0.009096	0	0		A	101099720	A	A	101099720	2	1	104	1	0	0	0	0	0	0	0	1	10521	1020	36	4		4	NMS	2	101099720	Silent	SNP	G	TCGA-CD-5798-01A-11D-1600-08	64063770	101099720	142099653	14	64023											
MFSD9	84804	broad.mit.edu	37	chr2	103335364	103335364	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccttgggccgcaccccaaAgcgctcctccagggccagga	8	4	11	18	2	0	0	0	0	0	0	2	1	2	1	7	3	1	2	7	3	1	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr2:103335364A>C	uc002tcb.2	-	6	1008	c.940T>G	c.(940-942)TTT>GTT	p.F314V	MFSD9_uc010fja.2_RNA	NM_032718	NP_116107	Q8NBP5	MFSD9_HUMAN	major facilitator superfamily domain containing	314					transmembrane transport	integral to membrane|plasma membrane	transporter activity			ovary(2)|breast(2)	4						CGCACCCCAAAGCGCTCCTCC	0.582													13	65					0	0	0.001855	0	0		C	103335364	C	C	103335364	3	2	104	1	0	0	0	0	1	0	0	0	9557	72	3	5	488	5	MFSD9	2	103335364	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08	2235644	103335364	139864009	15	64024											
TUBA3E	112714	broad.mit.edu	37	chr2	130951728	130951728	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacacgatctgcccaatcagGcgattgaggttggtgtacgt	9	10	13	9	3	2	1	1	1	1	0	2	4	2	1	1	3	2	2	1	3	2	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr2:130951728G>T	uc002tqv.2	-	4	788	c.687C>A	c.(685-687)CGC>CGA	p.R229R		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	229					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					GCCCAATCAGGCGATTGAGGT	0.537													10	251					0.000978159	0.00103744	0.010729	1	0		T	130951728	T	T	130951728	2	4	104	1	0	0	0	0	0	0	0	1	16774	1190	42	5		5	TUBA3E	2	130951728	Silent	SNP	G	TCGA-CD-5798-01A-11D-1600-08	27616364	130951728	112247645	16	64025											
YSK4	80122	broad.mit.edu	37	chr2	135745629	135745629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagagtcggatccatcaaCgacttaactagggctcccgg	10	8	11	12	3	1	1	1	1	0	1	4	4	3	2	2	3	2	1	2	3	3	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr2:135745629C>T	uc002tue.1	-	7	844	c.813G>A	c.(811-813)TCG>TCA	p.S271S	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Silent_p.S158S|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_5'UTR|YSK4_uc002tui.3_Silent_p.S288S	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	271							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		GATCCATCAACGACTTAACTA	0.483													22	135					0	0	0.014323	0	0		T	135745629	T	T	135745629	2	4	104	1	0	0	0	0	0	0	0	1	17521	523	19	1		1	YSK4	2	135745629	Silent	SNP	C	TCGA-CD-5798-01A-11D-1600-08	4793901	135745629	107453744	17	64026											
TTN	7273	broad.mit.edu	37	chr2	179402435	179402435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaggtataaacaccttcatCttcctgttcctctgtcatta	9	15	5	12	0	4	0	2	0	2	0	6	0	6	0	3	1	1	3	3	1	4	6			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr2:179402435C>T	uc010zfg.1	-	304	92019	c.91795G>A	c.(91795-91797)GAT>AAT	p.D30599N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D24294N|TTN_uc010zfi.1_Missense_Mutation_p.D24227N|TTN_uc010zfj.1_Missense_Mutation_p.D24102N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31526							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACACCTTCATCTTCCTGTTCC	0.438													7	84					0	0	0.001984	0	0		T	179402435	T	T	179402435	3	4	104	1	0	0	0	0	1	0	0	0	16761	913	32	4	8512	4	TTN	2	179402435	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	43656806	179402435	63796938	18	64027											
TTN	7273	broad.mit.edu	37	chr2	179472999	179472999	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgaagacataggtgagTccttctaataagccatctac	13	11	7	10	0	3	3	0	2	3	1	4	3	4	3	2	1	2	0	2	1	5	5			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr2:179472999T>C	uc010zfg.1	-	224	45131	c.44907A>G	c.(44905-44907)GGA>GGG	p.G14969G	uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G8664G|TTN_uc010zfi.1_Silent_p.G8597G|TTN_uc010zfj.1_Silent_p.G8472G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15896							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATAGGTGAGTCCTTCTAATA	0.428													5	57					0	0	0.000602	0	0		C	179472999	C	C	179472999	2	2	104	1	0	0	0	0	0	0	0	1	16761	1654	58	3		3	TTN	2	179472999	Silent	SNP	T	TCGA-CD-5798-01A-11D-1600-08	70564	179472999	63726374	19	64028											
ITGA4	3676	broad.mit.edu	37	chr2	182343498	182343498	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttagattatgtgaaaaaaTttggagaaaattttgcatca	16	16	7	2	0	1	3	1	1	0	2	1	4	1	3	0	1	1	1	0	1	7	6			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr2:182343498T>A	uc002unu.2	+	5	1334	c.571T>A	c.(571-573)TTT>ATT	p.F191I	ITGA4_uc010zfl.1_Missense_Mutation_p.F191I	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	191	FG-GAP 3.|Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	TGTGAAAAAATTTGGAGAAAA	0.244													6	34					0	0	0.001168	0	0		A	182343498	A	A	182343498	3	1	104	1	0	0	0	0	1	0	0	0	7894	1493	52	5	589	5	ITGA4	2	182343498	Missense_Mutation	SNP	T	TCGA-CD-5798-01A-11D-1600-08	2870499	182343498	60855875	20	64029											
DNER	92737	broad.mit.edu	37	chr2	230312248	230312248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcttcacaagcagatcCgaagtatcctgtgaaaaaac	14	11	6	10	1	2	2	1	1	1	1	4	3	4	2	2	0	2	2	2	0	6	4			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr2:230312248C>T	uc002vpv.2	-	8	1417	c.1270G>A	c.(1270-1272)GGA>AGA	p.G424R	DNER_uc010zly.1_Missense_Mutation_p.G152R	NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	424	Extracellular (Potential).|EGF-like 5.				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		CAAGCAGATCCGAAGTATCCT	0.453													4	50					0	0	0.009096	0	0		T	230312248	T	T	230312248	3	4	104	1	0	0	0	0	1	0	0	0	4673	661	23	1	967	1	DNER	2	230312248	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	47968750	230312248	12887125	21	64030											
COPG	22820	broad.mit.edu	37	chr3	128987415	128987415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagaaaaaccttttgacCtcaagtctgtgcccctggcc	10	10	7	14	0	3	2	2	1	1	1	3	2	3	2	5	1	2	0	5	1	3	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr3:128987415C>T	uc003els.2	+	17	1826	c.1726C>T	c.(1726-1728)CTC>TTC	p.L576F	COPG_uc010htb.2_Missense_Mutation_p.L482F	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	576					COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						ACCTTTTGACCTCAAGTCTGT	0.562													13	156					0	0	0.001855	0	0		T	128987415	T	T	128987415	3	4	104	1	0	0	0	0	1	0	0	0	3734	681	24	4	1792	4	COPG	3	128987415	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08		128987415	69035015	22	64031											
TRIML1	339976	broad.mit.edu	37	chr4	189061023	189061023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcccaccactgccaaggCgctctccgatgacgagcagg	9	5	12	15	3	1	1	0	1	1	0	2	4	1	1	4	2	3	2	4	2	1	0			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr4:189061023C>T	uc003izm.1	+	1	426	c.311C>T	c.(310-312)GCG>GTG	p.A104V		NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	104					multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		ACTGCCAAGGCGCTCTCCGAT	0.642													8	47					0	0	0.004482	0	0		T	189061023	T	T	189061023	3	4	104	1	0	0	0	0	1	0	0	0	16576	768	27	1	313	1	TRIML1	4	189061023	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08		189061023	2093253	23	64032											
SLC9A3	6550	broad.mit.edu	37	chr5	475096	475096	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgctgaggcggaagggcatCaggcggcagaaggtgccggg	8	4	20	9	3	1	2	1	1	0	1	1	3	1	3	1	7	2	3	1	7	2	0			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr5:475096C>T	uc003jbe.2	-	16	2515	c.2403G>A	c.(2401-2403)CTG>CTA	p.L801L	SLC9A3_uc011clx.1_Silent_p.L792L|LOC25845_uc003jbd.2_5'Flank|LOC25845_uc010itb.1_5'Flank	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	801	Cytoplasmic (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			GGAAGGGCATCAGGCGGCAGA	0.711													6	16					0	0	0.004482	0	0		T	475096	T	T	475096	2	4	104	1	0	0	0	0	0	0	0	1	14738	813	29	4		4	SLC9A3	5	475096	Silent	SNP	C	TCGA-CD-5798-01A-11D-1600-08		475096	180440164	24	64033			1	25		3	3	147	C		1.126383e-07
SLC9A3	6550	broad.mit.edu	37	chr5	475129	475129	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgccgggagagtagggaatCtgcgtgcgggccctctgcga	6	7	18	10	4	2	1	0	0	2	1	2	4	2	2	2	3	4	1	2	3	2	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr5:475129C>G	uc003jbe.2	-	16	2482	c.2370G>C	c.(2368-2370)CAG>CAC	p.Q790H	SLC9A3_uc011clx.1_Missense_Mutation_p.Q781H|LOC25845_uc003jbd.2_5'Flank|LOC25845_uc010itb.1_5'Flank	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	790	Cytoplasmic (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			AGTAGGGAATCTGCGTGCGGG	0.706													6	26					0	0	0.00308	0	0		G	475129	G	G	475129	3	3	104	1	0	0	0	0	1	0	0	0	14738	912	32	5	142	5	SLC9A3	5	475129	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	33	475129	180440131	25	64034			1	25		3	3	147	C		1.126383e-07
SLC9A3	6550	broad.mit.edu	37	chr5	475242	475242	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cggagaaaacacagggttgtCaattcctaggagagagggca	14	6	14	7	1	1	2	1	0	0	2	2	5	2	3	1	4	1	2	1	4	4	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr5:475242C>G	uc003jbe.2	-	16	2369	c.2257G>C	c.(2257-2259)GAC>CAC	p.D753H	SLC9A3_uc011clx.1_Missense_Mutation_p.D744H|LOC25845_uc003jbd.2_5'Flank|LOC25845_uc010itb.1_5'Flank	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	753	Cytoplasmic (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			ACAGGGTTGTCAATTCCTAGG	0.687													9	52					0	0	0.010729	0	0		G	475242	G	G	475242	3	3	104	1	0	0	0	0	1	0	0	0	14738	826	29	5	255	5	SLC9A3	5	475242	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	113	475242	180440018	26	64035			1	25		3	3	147	C		1.126383e-07
CTNND2	1501	broad.mit.edu	37	chr5	10992707	10992707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaggggagatggagggcGtgcgggaggaggagtagggc	9	3	24	5	2	0	1	0	0	0	1	0	6	0	5	0	8	1	2	0	8	1	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr5:10992707G>A	uc003jfa.1	-	19	3312	c.3167C>T	c.(3166-3168)ACG>ATG	p.T1056M	CTNND2_uc010itt.2_Missense_Mutation_p.T965M|CTNND2_uc011cmy.1_Missense_Mutation_p.T719M|CTNND2_uc011cmz.1_Missense_Mutation_p.T623M|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.T648M	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	1056					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GATGGAGGGCGTGCGGGAGGA	0.582													12	104					0	0	0.013537	0	0		A	10992707	A	A	10992707	3	1	104	1	0	0	0	0	1	0	0	0	4023	1145	40	1	526	1	CTNND2	5	10992707	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	10517465	10992707	169922553	27	64036											
DNAH5	1767	broad.mit.edu	37	chr5	13717530	13717530	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaccccagggcaccgaacTtgcgcctctcctggacagtg	7	7	10	17	2	1	0	0	0	1	0	3	2	2	1	6	2	2	1	6	2	1	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr5:13717530T>A	uc003jfd.2	-	73	12641	c.12599A>T	c.(12598-12600)AAG>ATG	p.K4200M	DNAH5_uc003jfc.2_Missense_Mutation_p.K368M	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4200	AAA 6 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity	p.K4200T(1)		ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GGCACCGAACTTGCGCCTCTC	0.552									Kartagener_syndrome				4	74					0	0	0.000602	0	0		A	13717530	A	A	13717530	3	1	104	1	0	0	0	0	1	0	0	0	4610	1609	56	5	1303	5	DNAH5	5	13717530	Missense_Mutation	SNP	T	TCGA-CD-5798-01A-11D-1600-08	2724823	13717530	167197730	28	64037											
ZFYVE16	9765	broad.mit.edu	37	chr5	79733463	79733463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttaaatgattcaaattcaaGagatgaaaatttcaaattac	19	13	4	5	0	3	3	3	2	0	1	3	4	3	3	0	0	1	0	0	0	8	5			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr5:79733463G>A	uc003kgr.3	+	4	1261	c.959G>A	c.(958-960)AGA>AAA	p.R320K	ZFYVE16_uc010jak.1_Missense_Mutation_p.R320K|ZFYVE16_uc003kgp.2_Missense_Mutation_p.R320K|ZFYVE16_uc003kgq.3_Missense_Mutation_p.R320K|ZFYVE16_uc003kgs.3_Missense_Mutation_p.R320K	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	320					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		TCAAATTCAAGAGATGAAAAT	0.343													13	101					0	0	0.00245	0	0		A	79733463	A	A	79733463	3	1	104	1	0	0	0	0	1	0	0	0	17689	942	33	4	965	4	ZFYVE16	5	79733463	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	66015933	79733463	101181797	29	64038											
PCDHA9	9752	broad.mit.edu	37	chr5	140229950	140229950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgagcatcccgttccgcGtggggctgtacacgggcgag	5	6	17	13	7	0	0	0	0	0	0	2	2	2	0	2	3	2	4	2	3	1	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr5:140229950G>A	uc003lhu.2	+	1	2594	c.1870G>A	c.(1870-1872)GTG>ATG	p.V624M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.V624M	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	624	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding	p.V624M(1)		large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCGTTCCGCGTGGGGCTGTA	0.672													6	76					0	0	0.001168	0	0		A	140229950	A	A	140229950	3	1	104	1	0	0	0	0	1	0	0	0	11550	1145	40	1	1872	1	PCDHA9	5	140229950	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	60496487	140229950	40685310	30	64039											
PCDHAC2	56134	broad.mit.edu	37	chr5	140346755	140346755	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggcggtgagcgccgttgAggtggaaatattggacatca	9	9	16	7	4	1	2	1	2	0	0	1	4	1	4	1	5	1	1	1	5	2	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr5:140346755A>T	uc003lii.2	+	1	644	c.404A>T	c.(403-405)GAG>GTG	p.E135V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Missense_Mutation_p.E135V	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	135	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCGCCGTTGAGGTGGAAATA	0.622													10	48					0	0	0.008291	0	0		T	140346755	T	T	140346755	3	4	104	1	0	0	0	0	1	0	0	0	11552	304	11	5	406	5	PCDHAC2	5	140346755	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08	116805	140346755	40568505	31	64040											
PCDHB15	56121	broad.mit.edu	37	chr5	140627003	140627003	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctgttcggcgtgtgggcGcacaatggcgaggtgcgcac	5	7	19	10	5	0	0	0	0	0	0	1	1	0	0	0	5	1	4	0	5	1	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr5:140627003G>A	uc003lje.2	+	1	1857	c.1857G>A	c.(1855-1857)GCG>GCA	p.A619A		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	619	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCGTGTGGGCGCACAATGGCG	0.687													6	52					0	0	0.001984	0	0		A	140627003	A	A	140627003	2	1	104	1	0	0	0	0	0	0	0	1	11559	1074	38	1		1	PCDHB15	5	140627003	Silent	SNP	G	TCGA-CD-5798-01A-11D-1600-08	280248	140627003	40288257	32	64041											
PCDHGA5	56110	broad.mit.edu	37	chr5	140745345	140745345	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgaccccgacagcggcgAcaacgctcgagtcacctact	10	5	9	17	5	1	1	1	1	0	0	2	4	1	1	4	1	3	1	4	1	2	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr5:140745345A>G	uc003lju.1	+	1	1448	c.1448A>G	c.(1447-1449)GAC>GGC	p.D483G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.D483G	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	483	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACAGCGGCGACAACGCTCGA	0.542													21	234					0	0	0.005443	0	0		G	140745345	G	G	140745345	3	3	104	1	0	0	0	0	1	0	0	0	11576	275	10	3	1450	3	PCDHGA5	5	140745345	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08	118342	140745345	40169915	33	64042											
GABRG2	2566	broad.mit.edu	37	chr5	161576230	161576230	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtttgtttcatctttgtcTtctctgctctggtggagtat	3	21	9	8	0	5	0	1	0	4	0	6	1	5	1	0	2	1	4	0	2	1	5			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr5:161576230T>G	uc003lyz.3	+	8	1397	c.1039T>G	c.(1039-1041)TTC>GTC	p.F347V	GABRG2_uc010jjc.2_Missense_Mutation_p.F387V|GABRG2_uc003lyy.3_Missense_Mutation_p.F347V|GABRG2_uc011dej.1_Missense_Mutation_p.F252V	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	347	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		CATCTTTGTCTTCTCTGCTCT	0.448													19	200					0	0	0.007413	0	0		G	161576230	G	G	161576230	3	3	104	1	0	0	0	0	1	0	0	0	6186	1609	56	5	1193	5	GABRG2	5	161576230	Missense_Mutation	SNP	T	TCGA-CD-5798-01A-11D-1600-08	20830885	161576230	19339030	34	64043											
TDP2	51567	broad.mit.edu	37	chr6	24654688	24654688	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggtacttggaaaaggaatAatctcttggctttttaattt	11	18	8	4	0	1	0	0	0	1	0	2	2	1	2	0	4	1	2	0	4	6	9			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr6:24654688A>C	uc003nej.2	-	5	613	c.588T>G	c.(586-588)ATT>ATG	p.I196M	TDP2_uc003nei.2_Missense_Mutation_p.I84M|TDP2_uc010jpu.1_Missense_Mutation_p.I196M	NM_016614	NP_057698	O95551	TYDP2_HUMAN	TRAF and TNF receptor-associated protein	196					cell surface receptor linked signaling pathway|double-strand break repair	PML body	5'-tyrosyl-DNA phosphodiesterase activity|magnesium ion binding|nuclease activity|protein binding|transcription corepressor activity			ovary(1)|lung(1)	2						GAAAAGGAATAATCTCTTGGC	0.284								Direct_reversal_of_damage|Editing_and_processing_nucleases					7	69					0	0	0.00308	0	0		C	24654688	C	C	24654688	3	2	104	1	0	0	0	0	1	0	0	0	15754	358	13	5	512	5	TDP2	6	24654688	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08		24654688	146460379	35	64044											
PRSS35	167681	broad.mit.edu	37	chr6	84233267	84233267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacttgagaaaggtaccccGgattgtcagtgaaaggactt	12	9	12	8	1	1	2	1	2	0	1	1	5	1	4	2	3	1	2	2	3	3	4			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr6:84233267G>A	uc003pjz.2	+	2	270	c.107G>A	c.(106-108)CGG>CAG	p.R36Q	PRSS35_uc010kbm.2_Missense_Mutation_p.R36Q	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	36					proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		AAGGTACCCCGGATTGTCAGT	0.453													13	166					0	0	0.004007	0	0		A	84233267	A	A	84233267	3	1	104	1	0	0	0	0	1	0	0	0	12646	1116	39	1	109	1	PRSS35	6	84233267	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	59578579	84233267	86881800	36	64045											
CNR1	1268	broad.mit.edu	37	chr6	88854252	88854252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggagaggcagcacggCgatcacaatggctatggtcc	10	5	14	12	2	1	1	1	0	0	1	2	3	2	1	2	5	1	3	2	5	2	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr6:88854252C>T	uc011dzq.1	-	2	4305	c.742G>A	c.(742-744)GCC>ACC	p.A248T	CNR1_uc010kbz.2_Missense_Mutation_p.A248T|CNR1_uc011dzr.1_Missense_Mutation_p.A248T|CNR1_uc011dzs.1_Missense_Mutation_p.A248T|CNR1_uc003pmq.3_Missense_Mutation_p.A248T|CNR1_uc011dzt.1_Missense_Mutation_p.A248T|CNR1_uc010kca.2_Missense_Mutation_p.A215T	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	248	Helical; Name=4; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	GGCAGCACGGCGATCACAATG	0.527													7	62					0	0	0.004482	0	0		T	88854252	T	T	88854252	3	4	104	1	0	0	0	0	1	0	0	0	3634	768	27	1	680	1	CNR1	6	88854252	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	4620985	88854252	82260815	37	64046											
MICAL1	64780	broad.mit.edu	37	chr6	109767510	109767510	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggagaggcggatctgccGacgggtgggctggctgggat	5	7	21	8	3	1	1	0	0	1	1	1	5	1	3	1	7	1	3	1	7	0	0			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr6:109767510G>A	uc003ptj.2	-	18	2664	c.2410C>T	c.(2410-2412)CGG>TGG	p.R804W	MICAL1_uc003ptk.2_Missense_Mutation_p.R804W|MICAL1_uc010kdr.2_Missense_Mutation_p.R718W|MICAL1_uc011eaq.1_Missense_Mutation_p.R823W	NM_022765	NP_073602	Q8TDZ2	MICA1_HUMAN	microtubule associated monoxygenase, calponin	804					cytoskeleton organization|signal transduction	cytoplasm|intermediate filament	SH3 domain binding|zinc ion binding			breast(2)|ovary(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		CGGATCTGCCGACGGGTGGGC	0.662													8	57					0	0	0.013537	0	0		A	109767510	A	A	109767510	3	1	104	1	0	0	0	0	1	0	0	0	9587	1057	37	1	821	1	MICAL1	6	109767510	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	20913258	109767510	61347557	38	64047											
DNAH11	8701	broad.mit.edu	37	chr7	21628979	21628979	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaacccttggttaaattCagtgccataaatggtcttct	12	14	6	9	0	4	0	2	0	2	0	4	0	4	0	2	2	2	1	2	2	6	5			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr7:21628979C>A	uc003svc.2	+	12	2158	c.2127C>A	c.(2125-2127)TTC>TTA	p.F709L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	709	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TGGTTAAATTCAGTGCCATAA	0.318									Kartagener_syndrome				15	135					1.15088e-07	1.28898e-07	0.004007	1	0		A	21628979	A	A	21628979	3	1	104	1	0	0	0	0	1	0	0	0	4605	825	29	5	2173	5	DNAH11	7	21628979	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08		21628979	137509684	39	64048											
INHBA	3624	broad.mit.edu	37	chr7	41739722	41739722	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctttctgatcgcgttcAgaagcgccgccttgggtacc	7	10	12	12	4	2	2	1	1	1	1	3	3	2	2	3	1	3	3	3	1	3	4			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr7:41739722A>T	uc003thq.2	-	1	486	c.251T>A	c.(250-252)CTG>CAG	p.L84Q	LOC285954_uc003tht.3_Intron|INHBA_uc003thr.2_Missense_Mutation_p.L84Q|LOC285954_uc003ths.2_Intron	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	84					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						GATCGCGTTCAGAAGCGCCGC	0.517										TSP Lung(11;0.080)			14	526					0	0	0.004007	0	0		T	41739722	T	T	41739722	3	4	104	1	0	0	0	0	1	0	0	0	7757	188	7	5	1037	5	INHBA	7	41739722	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08	20110743	41739722	117398941	40	64049											
DNAJC2	27000	broad.mit.edu	37	chr7	102968125	102968125	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagttatgcaagtgaagtaGtcattatctccttcttttat	10	19	6	6	0	3	1	1	1	2	0	4	1	3	1	1	0	1	3	1	0	7	7			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr7:102968125G>C	uc003vbo.2	-	4	659	c.408C>G	c.(406-408)GAC>GAG	p.D136E	PMPCB_uc011kll.1_Intron|DNAJC2_uc003vbn.2_5'UTR|DNAJC2_uc010lix.2_Missense_Mutation_p.D136E|DNAJC2_uc003vbp.2_5'UTR|DNAJC2_uc003vbq.1_RNA	NM_014377	NP_055192	Q99543	DNJC2_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 2	136	J.				'de novo' cotranslational protein folding|chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane	chromatin binding|DNA binding|histone binding|Hsp70 protein binding|ubiquitin binding			kidney(1)	1						AAGTGAAGTAGTCATTATCTC	0.338													9	102					0	0	0.008291	0	0		C	102968125	C	C	102968125	3	2	104	1	0	0	0	0	1	0	0	0	4645	1020	36	5	1513	5	DNAJC2	7	102968125	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	61228403	102968125	56170538	41	64050											
BLK	640	broad.mit.edu	37	chr8	11400743	11400743	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctccgacaggatggggctgGtaagtagcaaaaagccggac	12	6	14	9	2	1	0	0	0	1	0	2	3	1	2	2	5	2	4	2	5	4	2	rs151045602		TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr8:11400743G>C	uc003wty.2	+	2	591	c.10G>C	c.(10-12)GTA>CTA	p.V4L	BLK_uc003wtz.2_Intron	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	4					intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		GATGGGGCTGGTAAGTAGCAA	0.612													7	51					0	0	0.001984	0	0		C	11400743	C	C	11400743	3	2	104	1	0	0	0	0	1	0	0	0	1445	1261	44	5	12	5	BLK	8	11400743	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08		11400743	134963279	42	64051											
FZD3	7976	broad.mit.edu	37	chr8	28385012	28385012	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atattttatgcagtctgctaCatgatggtatccttaatttt	10	19	6	6	0	1	1	0	1	1	0	2	1	2	1	1	1	3	3	1	1	5	8			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr8:28385012C>T	uc003xgx.2	+	5	1213	c.735C>T	c.(733-735)TAC>TAT	p.Y245Y	FZD3_uc010lvb.2_Silent_p.Y245Y	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	245	Helical; Name=2; (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		CAGTCTGCTACATGATGGTAT	0.383													21	189					0	0	0.010504	0	0		T	28385012	T	T	28385012	2	4	104	1	0	0	0	0	0	0	0	1	6145	489	17	4		4	FZD3	8	28385012	Silent	SNP	C	TCGA-CD-5798-01A-11D-1600-08	16984269	28385012	117979010	43	64052											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37730604	37730604	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcagaggggacagatgcctgGccagagctagaaggaagagg	13	4	17	7	0	1	5	1	0	0	5	1	7	1	7	2	5	2	1	2	5	3	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr8:37730604G>A	uc003xkm.1	-	4	1760	c.1716C>T	c.(1714-1716)GGC>GGT	p.G572G	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_5'UTR|RAB11FIP1_uc003xko.1_5'UTR|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	572	Ser-rich.				protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			CAGATGCCTGGCCAGAGCTAG	0.557													5	108					0	0	0.001168	0	0		A	37730604	A	A	37730604	2	1	104	1	0	0	0	0	0	0	0	1	12918	1190	42	2		2	RAB11FIP1	8	37730604	Silent	SNP	G	TCGA-CD-5798-01A-11D-1600-08	9345592	37730604	108633418	44	64053											
C8orf86	389649	broad.mit.edu	37	chr8	38374012	38374012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatgcgagtctctcccagtGgcctgtattctcataagcct	8	12	9	12	1	2	1	1	0	2	1	5	2	3	1	3	1	2	1	3	1	2	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr8:38374012G>A	uc003xlx.1	-	2	359	c.334C>T	c.(334-336)CAC>TAC	p.H112Y		NM_207412	NP_997295	Q6ZUL3	CH086_HUMAN	hypothetical protein LOC389649	112											0						CTCTCCCAGTGGCCTGTATTC	0.448													6	103					0	0	0.008291	0	0		A	38374012	A	A	38374012	3	1	104	1	0	0	0	0	1	0	0	0	2445	1348	47	4	345	4	C8orf86	8	38374012	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	643408	38374012	107990010	45	64054											
CYP7B1	9420	broad.mit.edu	37	chr8	65509340	65509340	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagtataaccaacaattgTtttatttccataagtgcaaa	18	13	4	6	0	0	0	0	0	0	0	1	0	1	0	2	0	3	3	2	0	9	7			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr8:65509340T>G	uc003xvj.2	-	6	1584	c.1380A>C	c.(1378-1380)AAA>AAC	p.K460N		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	460					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				CCAACAATTGTTTTATTTCCA	0.353													6	85					0	0	0.001168	0	0		G	65509340	G	G	65509340	3	3	104	1	0	0	0	0	1	0	0	0	4200	1722	60	5	144	5	CYP7B1	8	65509340	Missense_Mutation	SNP	T	TCGA-CD-5798-01A-11D-1600-08	27135328	65509340	80854682	46	64055											
NIPAL2	79815	broad.mit.edu	37	chr8	99224702	99224702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttttatagaaatacaggaGaatgcagaaaattaatattt	18	14	6	3	0	1	3	0	0	1	3	1	4	1	3	0	1	2	1	0	1	9	7			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr8:99224702G>A	uc003yil.1	-	6	842	c.586C>T	c.(586-588)CTC>TTC	p.L196F	NIPAL2_uc011lgw.1_5'UTR|NIPAL2_uc003yim.1_Missense_Mutation_p.L196F	NM_024759	NP_079035	Q9H841	NPAL2_HUMAN	NIPA-like domain containing 2	196	Helical; (Potential).					integral to membrane					0						AAATACAGGAGAATGCAGAAA	0.299													7	78					0	0	0.001984	0	0		A	99224702	A	A	99224702	3	1	104	1	0	0	0	0	1	0	0	0	10444	942	33	4	548	4	NIPAL2	8	99224702	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	33715362	99224702	47139320	47	64056											
RECK	8434	broad.mit.edu	37	chr9	36087862	36087862	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttcttgaaagctcacaatCtgttcaccctggagtcactg	9	14	7	11	0	5	1	3	1	2	0	5	2	5	2	1	1	1	2	1	1	2	4			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr9:36087862C>T	uc003zyv.2	+	9	895	c.809C>T	c.(808-810)TCT>TTT	p.S270F	RECK_uc003zyw.2_Missense_Mutation_p.S142F|RECK_uc003zyx.2_RNA	NM_021111	NP_066934	O95980	RECK_HUMAN	RECK protein precursor	270	5 X Knot repeats.					anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)			AGCTCACAATCTGTTCACCCT	0.458													6	111					0	0	0.001168	0	0		T	36087862	T	T	36087862	3	4	104	1	0	0	0	0	1	0	0	0	13225	913	32	4	843	4	RECK	9	36087862	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08		36087862	105125569	48	64057											
ASTN2	23245	broad.mit.edu	37	chr9	119976957	119976957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcggcgacgcttctgccaaCgtcgctgggcgtacagcgcc	5	7	14	15	7	1	0	0	0	1	0	2	1	1	0	2	2	5	3	2	2	2	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr9:119976957C>T	uc004bjs.1	-	3	796	c.695G>A	c.(694-696)CGT>CAT	p.R232H	ASTN2_uc004bjr.1_Missense_Mutation_p.R232H|ASTN2_uc004bjt.1_Missense_Mutation_p.R232H	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	232	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CTTCTGCCAACGTCGCTGGGC	0.632													4	43					0	0	0.009096	0	0		T	119976957	T	T	119976957	3	4	104	1	0	0	0	0	1	0	0	0	1066	536	19	1	3483	1	ASTN2	9	119976957	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	83889095	119976957	21236474	49	64058											
CDK9	1025	broad.mit.edu	37	chr9	130551812	130551812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccagacggagtttgagcGcgtcttctgagggccggcgc	7	7	15	12	5	2	3	0	2	2	1	2	4	2	4	2	3	2	1	2	3	1	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr9:130551812G>A	uc004bse.2	+	7	1232	c.1109G>A	c.(1108-1110)CGC>CAC	p.R370H		NM_001261	NP_001252	P50750	CDK9_HUMAN	cyclin-dependent kinase 9	370					cell proliferation|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	transcription elongation factor complex	ATP binding|cyclin-dependent protein kinase activity|DNA binding|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(1)	1						GAGTTTGAGCGCGTCTTCTGA	0.562													5	60					0	0	0.001168	0	0		A	130551812	A	A	130551812	3	1	104	1	0	0	0	0	1	0	0	0	3154	1087	38	1	1135	1	CDK9	9	130551812	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	10574855	130551812	10661619	50	64059											
EHMT1	79813	broad.mit.edu	37	chr9	140646788	140646788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtggctgatcagatggaCggggagtccgaggaggagca	9	7	19	6	2	1	2	1	1	0	1	2	7	2	6	1	6	1	2	1	6	0	0			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr9:140646788C>T	uc011mfc.1	+	7	1213	c.1176C>T	c.(1174-1176)GAC>GAT	p.D392D	EHMT1_uc004coa.2_Silent_p.D392D|EHMT1_uc004cob.1_Silent_p.D361D	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	392					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		ATCAGATGGACGGGGAGTCCG	0.572													4	27					0	0	0.009096	0	0		T	140646788	T	T	140646788	2	4	104	1	0	0	0	0	0	0	0	1	4989	535	19	1		1	EHMT1	9	140646788	Silent	SNP	C	TCGA-CD-5798-01A-11D-1600-08	10094976	140646788	566643	51	64060											
ZNF33A	7581	broad.mit.edu	37	chr10	38345151	38345151	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaatgcaatgaatgtgggaAattcttcaggcacaaatcat	15	11	9	6	0	3	2	2	2	1	0	3	3	3	3	0	2	1	2	0	2	5	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr10:38345151A>C	uc001izh.2	+	5	2274	c.2096A>C	c.(2095-2097)AAA>ACA	p.K699T	ZNF33A_uc001izg.2_Missense_Mutation_p.K700T|ZNF33A_uc010qev.1_Missense_Mutation_p.K706T|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	699	C2H2-type 14.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						GAATGTGGGAAATTCTTCAGG	0.383													14	154					0	0	0.00245	0	0		C	38345151	C	C	38345151	3	2	104	1	0	0	0	0	1	0	0	0	17879	14	1	5	2113	5	ZNF33A	10	38345151	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08		38345151	97189596	52	64061											
GPAM	57678	broad.mit.edu	37	chr10	113917036	113917036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatctcgctgttcctcccCaaagtcactgtcttcatctt	7	14	5	15	1	5	0	2	0	3	0	8	0	7	0	3	0	0	3	3	0	2	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr10:113917036C>T	uc009xxy.1	-	19	2290	c.2092G>A	c.(2092-2094)GGG>AGG	p.G698R	GPAM_uc001kzp.2_Missense_Mutation_p.G698R|GPAM_uc001kzq.1_Missense_Mutation_p.G698R	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate	698	Mitochondrial intermembrane (Potential).|Mitochondrial intermembrane (Potential).				phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		TGTTCCTCCCCAAAGTCACTG	0.463													16	152					0	0	0.003163	0	0		T	113917036	T	T	113917036	3	4	104	1	0	0	0	0	1	0	0	0	6603	594	21	4	410	4	GPAM	10	113917036	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	75571885	113917036	21617711	53	64062											
STIM1	6786	broad.mit.edu	37	chr11	4112528	4112528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagggatttgacccattccGattcggagtcctccctccac	7	10	9	15	2	0	1	0	1	0	0	5	4	4	3	5	2	0	1	5	2	0	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr11:4112528G>A	uc001lyv.2	+	12	2126	c.1558G>A	c.(1558-1560)GAT>AAT	p.D520N	STIM1_uc009yef.2_Missense_Mutation_p.R532Q|STIM1_uc009yeg.2_Missense_Mutation_p.D347N	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	520	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		GACCCATTCCGATTCGGAGTC	0.468													16	143					0	0	0.004007	0	0		A	4112528	A	A	4112528	3	1	104	1	0	0	0	0	1	0	0	0	15308	1058	37	1	1604	1	STIM1	11	4112528	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08		4112528	130893988	54	64063											
CKAP5	9793	broad.mit.edu	37	chr11	46799045	46799045	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaattttttacatgttgctTaatatttgggcccatggcta	10	18	7	6	0	0	0	0	0	0	0	0	0	0	0	1	2	2	3	1	2	6	9			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr11:46799045T>G	uc001ndi.1	-	23	2916	c.2806A>C	c.(2806-2808)AAG>CAG	p.K936Q	CKAP5_uc009ylg.1_Missense_Mutation_p.K822Q|CKAP5_uc001ndj.1_Missense_Mutation_p.K936Q	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	936	HEAT 6.				cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						ACATGTTGCTTAATATTTGGG	0.428													6	87					0	0	0.001984	0	0		G	46799045	G	G	46799045	3	3	104	1	0	0	0	0	1	0	0	0	3448	1763	61	5	3380	5	CKAP5	11	46799045	Missense_Mutation	SNP	T	TCGA-CD-5798-01A-11D-1600-08	42686517	46799045	88207471	55	64064											
LRP4	4038	broad.mit.edu	37	chr11	46918479	46918479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcgtcctccccatcacagCgccaggacaggcggacacag	10	4	11	16	3	1	0	1	0	0	0	4	2	3	2	4	3	1	0	4	3	0	0			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr11:46918479C>T	uc001ndn.3	-	8	1009	c.863G>A	c.(862-864)CGC>CAC	p.R288H		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	288	Extracellular (Potential).|LDL-receptor class A 7.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		CCCATCACAGCGCCAGGACAG	0.577													12	96					0	0	0.00245	0	0		T	46918479	T	T	46918479	3	4	104	1	0	0	0	0	1	0	0	0	8977	768	27	1	4978	1	LRP4	11	46918479	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	119434	46918479	88088037	56	64065											
OR5T2	219464	broad.mit.edu	37	chr11	56000616	56000616	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagaatgaacaacaccatGactcaaggggatgttaactg	18	7	9	7	0	1	3	1	2	0	1	1	4	1	4	1	2	3	1	1	2	7	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr11:56000616G>T	uc010rjc.1	-	1	46	c.46C>A	c.(46-48)CAT>AAT	p.H16N		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					ACAACACCATGACTCAAGGGG	0.348													29	195					5.60225e-13	6.37654e-13	0.009535	1	0		T	56000616	T	T	56000616	3	4	104	1	0	0	0	0	1	0	0	0	11201	1290	45	5	1032	5	OR5T2	11	56000616	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	9082137	56000616	79005900	57	64066											
ATM	472	broad.mit.edu	37	chr11	108192027	108192027	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttttcttttttgctactaGagtaaaagaagtggaagaga	13	15	9	4	0	2	3	0	0	2	3	2	5	2	4	0	1	2	2	0	1	6	8			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr11:108192027G>A	uc001pkb.1	+	45	6838	c.6453_splice	c.e45-1	p.R2151_splice	ATM_uc009yxr.1_Splice_Site_p.R2151_splice|C11orf65_uc010rvx.1_Intron|ATM_uc001pke.1_Splice_Site_p.R803_splice|ATM_uc001pkg.1_Splice_Site_p.R508_splice	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1						cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TTTGCTACTAGAGTAAAAGAA	0.398			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			17	135					0	0	0.00499	0	0		A	108192027	A	A	108192027	5	1	104	1	0	0	0	0	0	0	1	0	1110	956	33	4	6626	4	ATM	11	108192027	Splice_Site	SNP	G	TCGA-CD-5798-01A-11D-1600-08	52191411	108192027	26814489	58	64067											
TNFRSF1A	7132	broad.mit.edu	37	chr12	6439826	6439826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttaaaccaatgaagaggaggGataaaaggcaaagaccaaag	21	4	11	5	0	0	3	0	1	0	2	0	5	0	5	2	3	1	1	2	3	8	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr12:6439826G>A	uc001qnu.2	-	7	958	c.677C>T	c.(676-678)TCC>TTC	p.S226F	TNFRSF1A_uc001qnt.2_Missense_Mutation_p.S118F|TNFRSF1A_uc010sey.1_5'UTR|TNFRSF1A_uc010sez.1_Missense_Mutation_p.S118F|TNFRSF1A_uc009zek.2_Missense_Mutation_p.S183F	NM_001065	NP_001056	P19438	TNR1A_HUMAN	tumor necrosis factor receptor 1 precursor	226	Helical; (Potential).				apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|inflammatory response|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of inflammatory response|positive regulation of transcription from RNA polymerase II promoter|prostaglandin metabolic process	extracellular region|integral to plasma membrane|membrane raft	tumor necrosis factor receptor activity			lung(2)|skin(1)	3						GAAGAGGAGGGATAAAAGGCA	0.562													3	41					0	0	0.004672	0	0		A	6439826	A	A	6439826	3	1	104	1	0	0	0	0	1	0	0	0	16318	1174	41	4	706	4	TNFRSF1A	12	6439826	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08		6439826	127412069	59	64068											
TAS2R9	50835	broad.mit.edu	37	chr12	10962536	10962536	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggccaagctgatcaggaTgatgtcaatcaaggaaatat	15	9	11	6	0	3	2	3	2	0	0	3	5	3	4	1	3	1	1	1	3	5	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr12:10962536T>C	uc001qyx.2	-	1	232	c.139A>G	c.(139-141)ATC>GTC	p.I47V	TAS2R8_uc010shh.1_5'Flank	NM_023917	NP_076406	Q9NYW1	TA2R9_HUMAN	taste receptor, type 2, member 9	47	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			skin(1)	1						CTGATCAGGATGATGTCAATC	0.413													32	170					0	0	0.010818	0	0		C	10962536	C	C	10962536	3	2	104	1	0	0	0	0	1	0	0	0	15613	1464	51	3	803	3	TAS2R9	12	10962536	Missense_Mutation	SNP	T	TCGA-CD-5798-01A-11D-1600-08	4522710	10962536	122889359	60	64069											
EPS8	2059	broad.mit.edu	37	chr12	15784459	15784459	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgctgttttgacgtgttAtatttgctgggacctttgac	6	17	11	7	1	0	2	0	2	0	0	0	3	0	3	1	1	3	5	1	1	2	6			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr12:15784459A>T	uc009zif.2	-	18	2055	c.1961T>A	c.(1960-1962)ATA>AAA	p.I654K	EPS8_uc001rdb.2_Missense_Mutation_p.I654K|EPS8_uc009zig.2_Missense_Mutation_p.I394K|EPS8_uc010shv.1_Missense_Mutation_p.I394K	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	654					cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		TTGACGTGTTATATTTGCTGG	0.557													32	226					0	0	0.003271	0	0		T	15784459	T	T	15784459	3	4	104	1	0	0	0	0	1	0	0	0	5202	449	16	5	523	5	EPS8	12	15784459	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08	4821923	15784459	118067436	61	64070											
KRAS	3845	broad.mit.edu	37	chr12	25398284	25398284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcactcttgcctacgccaCcagctccaactaccacaagt	11	7	6	17	1	1	0	0	0	1	0	2	0	2	0	5	1	5	2	5	1	4	3	rs121913529		TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr12:25398284C>T	uc001rgp.1	-	2	216	c.35G>A	c.(34-36)GGT>GAT	p.G12D	KRAS_uc001rgq.1_Missense_Mutation_p.G12D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12N(6)|p.G12G(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			GCCTACGCCACCAGCTCCAAC	0.348	G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			5	42					0	0	0.000602	0	0		T	25398284	T	T	25398284	3	4	104	1	0	0	0	0	1	0	0	0	8454	507	18	4	671	4	KRAS	12	25398284	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	9613825	25398284	108453611	62	64071											
SHMT2	6472	broad.mit.edu	37	chr12	57626616	57626616	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccactactcacaagactcttCgaggggccaggtcaggctcc	9	7	10	15	1	3	1	2	0	1	1	5	2	4	1	3	4	1	1	3	4	2	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr12:57626616C>T	uc001snf.1	+	7	857	c.847C>T	c.(847-849)CGA>TGA	p.R283*	SHMT2_uc001sng.1_Nonsense_Mutation_p.R179*|SHMT2_uc001snh.1_Nonsense_Mutation_p.R122*|SHMT2_uc009zpk.1_Nonsense_Mutation_p.R273*|SHMT2_uc001sni.1_Nonsense_Mutation_p.R262*|SHMT2_uc010srg.1_Nonsense_Mutation_p.R292*|SHMT2_uc001snj.1_Nonsense_Mutation_p.R187*|SHMT2_uc010srh.1_Nonsense_Mutation_p.R262*|SHMT2_uc001snk.1_Nonsense_Mutation_p.R187*|SHMT2_uc010sri.1_Nonsense_Mutation_p.R262*|SHMT2_uc001snl.2_Nonsense_Mutation_p.R187*|SHMT2_uc010srj.1_5'Flank	NM_005412	NP_005403	P34897	GLYM_HUMAN	serine hydroxymethyltransferase 2	283						microtubule cytoskeleton|mitochondrial nucleoid	glycine hydroxymethyltransferase activity|methyltransferase activity			ovary(1)|central_nervous_system(1)	2					Glycine(DB00145)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CAAGACTCTTCGAGGGGCCAG	0.602													9	76					0	0	0.006214	0	0		T	57626616	T	T	57626616	4	4	104	1	0	0	0	0	0	1	0	0	14311	876	31	1	873	1	SHMT2	12	57626616	Nonsense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	32228332	57626616	76225279	63	64072											
KCNC2	3747	broad.mit.edu	37	chr12	75444423	75444423	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccagagcacacagggcTcccaccagcatgcctgacca	11	3	9	18	0	0	2	0	1	0	1	1	2	1	2	6	1	4	3	6	1	0	0			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr12:75444423T>C	uc001sxg.1	-	3	1906	c.1362A>G	c.(1360-1362)GGA>GGG	p.G454G	KCNC2_uc009zry.2_Silent_p.G454G|KCNC2_uc001sxe.2_Silent_p.G454G|KCNC2_uc001sxf.2_Silent_p.G454G|KCNC2_uc010stw.1_Silent_p.G454G	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	454	Helical; Name=Segment S6; (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						CACACAGGGCTCCCACCAGCA	0.502													7	73					0	0	0.00308	0	0		C	75444423	C	C	75444423	2	2	104	1	0	0	0	0	0	0	0	1	8031	1538	54	3		3	KCNC2	12	75444423	Silent	SNP	T	TCGA-CD-5798-01A-11D-1600-08	17817807	75444423	58407472	64	64073											
PLXNC1	10154	broad.mit.edu	37	chr12	94562997	94562997	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatccattccgacctgacAtccgtttatggcaccgtggt	7	13	9	12	3	0	2	0	2	0	0	3	3	3	2	5	2	0	2	5	2	1	4			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr12:94562997A>T	uc001tdc.2	+	2	1380	c.1131A>T	c.(1129-1131)ACA>ACT	p.T377T		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	377	Extracellular (Potential).|Sema.				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						CCGACCTGACATCCGTTTATG	0.433													25	159					0	0	0.003954	0	0		T	94562997	T	T	94562997	2	4	104	1	0	0	0	0	0	0	0	1	12145	204	8	5		5	PLXNC1	12	94562997	Silent	SNP	A	TCGA-CD-5798-01A-11D-1600-08	19118574	94562997	39288898	65	64074											
ACACB	32	broad.mit.edu	37	chr12	109613985	109613985	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaattggttttccattgAtgatcaaagcttctgaaggt	13	14	9	5	0	2	4	1	3	1	1	3	4	3	4	1	2	1	2	1	2	4	5			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr12:109613985A>T	uc001tob.2	+	9	1473	c.1354A>T	c.(1354-1356)ATG>TTG	p.M452L	ACACB_uc001toc.2_Missense_Mutation_p.M452L	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	452	Biotin carboxylation.|ATP-grasp.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	TTTTCCATTGATGATCAAAGC	0.512													65	546					0	0	0.01441	0	0		T	109613985	T	T	109613985	3	4	104	1	0	0	0	0	1	0	0	0	107	333	12	5	1384	5	ACACB	12	109613985	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08	15050988	109613985	24237910	66	64075											
KCTD10	83892	broad.mit.edu	37	chr12	109889615	109889615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aatccgggcttcgggaaactCcacctgtgttcccacagtat	9	10	9	13	2	0	0	0	0	0	0	4	1	3	1	4	2	1	3	4	2	3	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr12:109889615C>T	uc001toi.1	-	7	815	c.727G>A	c.(727-729)GAG>AAG	p.E243K	KCTD10_uc001toh.1_RNA|KCTD10_uc009zvi.1_Missense_Mutation_p.E217K|KCTD10_uc001toj.1_Missense_Mutation_p.E252K|KCTD10_uc001tok.1_Missense_Mutation_p.E62K	NM_031954	NP_114160	Q9H3F6	BACD3_HUMAN	potassium channel tetramerisation domain	243	PCNA-binding (By similarity).				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0						TCGGGAAACTCCACCTGTGTT	0.582													6	28					0	0	0.001168	0	0		T	109889615	T	T	109889615	3	4	104	1	0	0	0	0	1	0	0	0	8113	864	30	4	218	4	KCTD10	12	109889615	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	275630	109889615	23962280	67	64076											
TMEM132D	121256	broad.mit.edu	37	chr12	129694077	129694077	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacttgccttaatcacgtcTtcatcagacgatctacactc	11	12	4	14	2	5	1	3	0	2	1	6	2	5	1	1	0	3	0	1	0	3	4			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr12:129694077T>C	uc009zyl.1	-	5	1759	c.1431A>G	c.(1429-1431)GAA>GAG	p.E477E		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	477	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TAATCACGTCTTCATCAGACG	0.532													3	38					0	0	0.009096	0	0		C	129694077	C	C	129694077	2	2	104	1	0	0	0	0	0	0	0	1	16072	1606	56	3		3	TMEM132D	12	129694077	Silent	SNP	T	TCGA-CD-5798-01A-11D-1600-08	19804462	129694077	4157818	68	64077											
TMEM132D	121256	broad.mit.edu	37	chr12	130184802	130184802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgcacctctcgggtctctCggaaagcaaagaccctcagg	9	6	10	16	3	3	1	1	0	2	1	6	2	3	2	3	3	1	2	3	3	2	0			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr12:130184802C>T	uc009zyl.1	-	2	849	c.521G>A	c.(520-522)CGA>CAA	p.R174Q		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	174	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TCGGGTCTCTCGGAAAGCAAA	0.682													6	27					0	0	0.00308	0	0		T	130184802	T	T	130184802	3	4	104	1	0	0	0	0	1	0	0	0	16072	884	31	1	2810	1	TMEM132D	12	130184802	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	490725	130184802	3667093	69	64078											
SACS	26278	broad.mit.edu	37	chr13	23910025	23910025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatctctaaacatgcgtcCgggactaatggatgtggccc	11	9	10	11	2	1	0	0	0	1	0	3	2	2	2	2	3	2	0	2	3	4	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr13:23910025C>T	uc001uon.2	-	10	8579	c.7990G>A	c.(7990-7992)GGA>AGA	p.G2664R	SACS_uc001uoo.2_Missense_Mutation_p.G2517R|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2664					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AACATGCGTCCGGGACTAATG	0.418													9	83					0	0	0.004482	0	0		T	23910025	T	T	23910025	3	4	104	1	0	0	0	0	1	0	0	0	13829	661	23	1	5753	1	SACS	13	23910025	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08		23910025	91259853	70	64079											
DCLK1	9201	broad.mit.edu	37	chr13	36700222	36700222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctcggctgtatctctgcGccttatcccgctcgtcgaag	5	11	9	16	5	1	0	0	0	1	0	6	1	2	0	3	1	1	3	3	1	3	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr13:36700222G>A	uc001uvf.2	-	2	286	c.53C>T	c.(52-54)GCG>GTG	p.A18V		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	18					cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		GTATCTCTGCGCCTTATCCCG	0.622													9	64					0	0	0.010729	0	0		A	36700222	A	A	36700222	3	1	104	1	0	0	0	0	1	0	0	0	4294	1087	38	1	2204	1	DCLK1	13	36700222	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	12790197	36700222	78469656	71	64080											
KLF12	11278	broad.mit.edu	37	chr13	74419995	74419995	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctcccatcctccaaaagCggcacgacaatagtgttgtt	10	10	7	14	2	1	0	0	0	1	0	4	1	3	0	4	1	1	3	4	1	4	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr13:74419995C>T	uc001vjf.2	-	4	861	c.639G>A	c.(637-639)CCG>CCA	p.P213P	KLF12_uc010aeq.2_Silent_p.P213P|KLF12_uc001vjg.3_Silent_p.P213P	NM_007249	NP_009180	Q9Y4X4	KLF12_HUMAN	Kruppel-like factor 12	213					negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Prostate(6;0.00217)|Breast(118;0.0838)		GBM - Glioblastoma multiforme(99;0.00677)		CCTCCAAAAGCGGCACGACAA	0.468													11	109					0	0	0.008291	0	0		T	74419995	T	T	74419995	2	4	104	1	0	0	0	0	0	0	0	1	8356	755	27	1		1	KLF12	13	74419995	Silent	SNP	C	TCGA-CD-5798-01A-11D-1600-08	37719773	74419995	40749883	72	64081											
POTEG	404785	broad.mit.edu	37	chr14	19553604	19553604	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcaggagcaagatgggcaAgtggtgccgccactgcttcc	9	7	13	12	1	1	1	1	0	0	1	2	2	2	2	3	3	3	3	3	3	2	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr14:19553604A>G	uc001vuz.1	+	1	240	c.188A>G	c.(187-189)AAG>AGG	p.K63R	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	63										ovary(1)	1						AAGATGGGCAAGTGGTGCCGC	0.602													21	501					0	0	0.007291	0	0		G	19553604	G	G	19553604	3	3	104	1	0	0	0	0	1	0	0	0	12285	72	3	3	190	3	POTEG	14	19553604	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08		19553604	87795936	73	64082											
LRFN5	145581	broad.mit.edu	37	chr14	42356791	42356791	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcctgcaattcactggatTtctcctgaagggaagcttat	10	12	10	9	0	2	1	1	1	1	0	3	4	2	3	2	2	3	2	2	2	4	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr14:42356791T>G	uc001wvm.2	+	3	2161	c.963T>G	c.(961-963)ATT>ATG	p.I321M	LRFN5_uc010ana.2_Missense_Mutation_p.I321M	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	321	Extracellular (Potential).|Ig-like.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TTCACTGGATTTCTCCTGAAG	0.453										HNSCC(30;0.082)			22	177					0	0	0.014323	0	0		G	42356791	G	G	42356791	3	3	104	1	0	0	0	0	1	0	0	0	8959	1829	64	5	965	5	LRFN5	14	42356791	Missense_Mutation	SNP	T	TCGA-CD-5798-01A-11D-1600-08	22803187	42356791	64992749	74	64083											
ATP6V1D	51382	broad.mit.edu	37	chr14	67815774	67815774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctacattatctttcttcGctcgaatcttcacttgcgct	6	17	5	13	3	4	0	1	0	3	0	6	1	4	0	0	0	3	3	0	0	3	6			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr14:67815774G>A	uc001xjf.2	-	4	463	c.287C>T	c.(286-288)GCG>GTG	p.A96V	ATP6V1D_uc001xje.2_RNA	NM_015994	NP_057078	Q9Y5K8	VATD_HUMAN	H(+)-transporting two-sector ATPase	96					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting two-sector ATPase complex, catalytic domain|vacuolar proton-transporting V-type ATPase complex	protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)|lung(1)	2				all cancers(60;0.000739)|OV - Ovarian serous cystadenocarcinoma(108;0.00597)|BRCA - Breast invasive adenocarcinoma(234;0.00957)		ATCTTTCTTCGCTCGAATCTT	0.358													14	92					0	0	0.003163	0	0		A	67815774	A	A	67815774	3	1	104	1	0	0	0	0	1	0	0	0	1183	1087	38	1	480	1	ATP6V1D	14	67815774	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	25458983	67815774	39533766	75	64084											
FLRT2	23768	broad.mit.edu	37	chr14	86088964	86088964	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgacccccggcctgcctcTcttcaccccagccccaagta	7	6	6	22	2	2	0	1	0	1	0	3	1	2	0	8	1	2	1	8	1	2	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr14:86088964T>G	uc001xvr.2	+	2	1873	c.1106T>G	c.(1105-1107)CTC>CGC	p.L369R	FLRT2_uc010atd.2_Missense_Mutation_p.L369R	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	369	Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GGCCTGCCTCTCTTCACCCCA	0.562													19	154					0	0	0.012319	0	0		G	86088964	G	G	86088964	3	3	104	1	0	0	0	0	1	0	0	0	5953	1551	54	5	1108	5	FLRT2	14	86088964	Missense_Mutation	SNP	T	TCGA-CD-5798-01A-11D-1600-08	18273190	86088964	21260576	76	64085											
RIN3	79890	broad.mit.edu	37	chr14	93118175	93118175	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttggaaattgccctgcacgcCctttgccgcccacctctgat	6	11	8	16	2	1	1	0	1	1	0	1	2	1	2	5	1	3	1	5	1	1	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr14:93118175C>A	uc001yap.2	+	6	933	c.781C>A	c.(781-783)CCT>ACT	p.P261T	RIN3_uc010auk.2_5'UTR|RIN3_uc001yaq.2_Missense_Mutation_p.P186T|RIN3_uc001yar.1_5'UTR|RIN3_uc001yas.1_5'UTR	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	261	Pro-rich.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				CCCTGCACGCCCTTTGCCGCC	0.468													4	67					3.59834e-05	3.93568e-05	0.001168	1	0		A	93118175	A	A	93118175	3	1	104	1	0	0	0	0	1	0	0	0	13398	623	22	5	803	5	RIN3	14	93118175	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	7029211	93118175	14231365	77	64086											
TRAF3	7187	broad.mit.edu	37	chr14	103371927	103371927	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatggatcaggggtcctctCgacgtcatttgggagatgca	8	11	14	8	2	3	2	2	1	1	1	5	5	4	3	1	4	1	1	1	4	0	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr14:103371927C>T	uc001ymc.1	+	12	1866	c.1513C>T	c.(1513-1515)CGA>TGA	p.R505*	TRAF3_uc001yme.1_Nonsense_Mutation_p.R480*|TRAF3_uc001ymd.1_Nonsense_Mutation_p.R505*|TRAF3_uc010txy.1_Nonsense_Mutation_p.R422*	NM_145725	NP_663777	Q13114	TRAF3_HUMAN	TNF receptor-associated factor 3 isoform 1	505	MATH.				apoptosis|induction of apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|regulation of defense response to virus|regulation of interferon-beta production|regulation of proteolysis|toll-like receptor signaling pathway|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|endosome|internal side of plasma membrane|mitochondrion	signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(154;7.87e-06)|all_epithelial(191;0.0024)		Epithelial(152;9.92e-24)|all cancers(159;2.23e-21)|OV - Ovarian serous cystadenocarcinoma(161;7.85e-12)|Colorectal(3;0.0971)		GGGGTCCTCTCGACGTCATTT	0.517													19	217					0	0	0.007413	0	0		T	103371927	T	T	103371927	4	4	104	1	0	0	0	0	0	1	0	0	16465	876	31	1	1551	1	TRAF3	14	103371927	Nonsense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	10253752	103371927	3977613	78	64087											
POLG	5428	broad.mit.edu	37	chr15	89872248	89872248	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggaccttgtgtttgccctGcttggctgctatccacagac	5	13	10	13	0	0	1	0	0	0	1	1	2	1	2	3	2	3	4	3	2	1	4			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr15:89872248G>A	uc002bns.3	-	4	1231	c.949C>T	c.(949-951)CAG>TAG	p.Q317*	POLG_uc002bnr.3_Nonsense_Mutation_p.Q317*	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	317					base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			TGTTTGCCCTGCTTGGCTGCT	0.592								DNA_polymerases_(catalytic_subunits)					5	59					0	0	0.001168	0	0		A	89872248	A	A	89872248	4	1	104	1	0	0	0	0	0	1	0	0	12219	1328	46	2	2850	2	POLG	15	89872248	Nonsense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08		89872248	12659144	79	64088											
TBL3	10607	broad.mit.edu	37	chr16	2028044	2028044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggatcggccccacaccGtgctgactgtcatccagggt	6	8	11	16	2	1	1	1	1	0	0	3	2	2	2	5	3	1	1	5	3	0	0	rs149719588	by1000genomes	TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr16:2028044G>A	uc002cnu.1	+	19	2146	c.2044G>A	c.(2044-2046)GTG>ATG	p.V682M	TBL3_uc002cnv.1_Missense_Mutation_p.V568M|TBL3_uc010bsb.1_Intron|TBL3_uc010bsc.1_Missense_Mutation_p.V549M|TBL3_uc010uvt.1_Missense_Mutation_p.V151M|TBL3_uc002cnw.1_RNA	NM_006453	NP_006444	Q12788	TBL3_HUMAN	transducin beta-like 3	682					G-protein signaling, coupled to cGMP nucleotide second messenger|rRNA processing	nucleolus|small-subunit processome	receptor signaling protein activity				0						GCCCCACACCGTGCTGACTGT	0.677													4	56					0	0	0.009096	0	0		A	2028044	A	A	2028044	3	1	104	1	0	0	0	0	1	0	0	0	15668	1145	40	1	2118	1	TBL3	16	2028044	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08		2028044	88326709	80	64089											
ZNF598	90850	broad.mit.edu	37	chr16	2048404	2048404	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctgccacgcgctcttcttGttcttcttggacttggtgct	2	16	10	13	2	4	0	0	0	4	0	4	1	4	1	2	2	2	3	2	2	0	6			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr16:2048404G>C	uc002cof.1	-	14	2559	c.2544C>G	c.(2542-2544)AAC>AAG	p.N848K	ZNF598_uc002coe.1_Missense_Mutation_p.N212K	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	848						intracellular	zinc ion binding			lung(1)|breast(1)	2						CGCTCTTCTTGTTCTTCTTGG	0.657													8	76					0	0	0.006214	0	0		C	2048404	C	C	2048404	3	2	104	1	0	0	0	0	1	0	0	0	18053	1368	48	5	174	5	ZNF598	16	2048404	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	20360	2048404	88306349	81	64090											
ABAT	18	broad.mit.edu	37	chr16	8866677	8866677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcggaaaaagaagaagaCggtggccgggatcatcgtgg	14	6	15	6	4	1	3	1	0	0	3	3	5	1	5	1	5	0	0	1	5	5	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr16:8866677C>T	uc002czc.3	+	12	1023	c.857C>T	c.(856-858)ACG>ATG	p.T286M	ABAT_uc002czd.3_Missense_Mutation_p.T286M|ABAT_uc010buh.2_Missense_Mutation_p.T228M|ABAT_uc010bui.2_Missense_Mutation_p.T286M	NM_020686	NP_065737	P80404	GABT_HUMAN	4-aminobutyrate aminotransferase precursor	286					behavioral response to cocaine|gamma-aminobutyric acid catabolic process|neurotransmitter catabolic process|neurotransmitter secretion	4-aminobutyrate transaminase complex|mitochondrial matrix	(S)-3-amino-2-methylpropionate transaminase activity|4-aminobutyrate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|succinate-semialdehyde dehydrogenase binding			upper_aerodigestive_tract(1)	1					Divalproex sodium(DB00510)|Isoniazid(DB00951)|L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)|Tiagabine(DB00906)|Valproic Acid(DB00313)|Vigabatrin(DB01080)	AAGAAGAAGACGGTGGCCGGG	0.552													6	57					0	0	0.001168	0	0		T	8866677	T	T	8866677	3	4	104	1	0	0	0	0	1	0	0	0	27	536	19	1	899	1	ABAT	16	8866677	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	6818273	8866677	81488076	82	64091											
TNRC6A	27327	broad.mit.edu	37	chr16	24816169	24816169	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaacttgaattctgttagAcaggtaagtccagatgtgta	14	12	9	6	0	1	3	0	1	1	2	2	3	2	3	1	1	1	3	1	1	6	5			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr16:24816169A>T	uc002dmm.2	+	13	4095	c.3981A>T	c.(3979-3981)AGA>AGT	p.R1327S	TNRC6A_uc010bxs.2_Missense_Mutation_p.R1074S|TNRC6A_uc002dmn.2_Intron|TNRC6A_uc002dmo.2_Intron|TNRC6A_uc002dmp.2_Intron|TNRC6A_uc002dmq.2_5'UTR	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1327	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		ATTCTGTTAGACAGGTAAGTC	0.403													19	163					0	0	0.008871	0	0		T	24816169	T	T	24816169	3	4	104	1	0	0	0	0	1	0	0	0	16365	272	10	5	4031	5	TNRC6A	16	24816169	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08	15949492	24816169	65538584	83	64092											
PSKH1	5681	broad.mit.edu	37	chr16	67943097	67943097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggagctgcgtgtgctgcgtCgggtgcgtcatgccaacatc	5	9	15	12	5	1	0	1	0	0	0	3	1	1	1	1	2	7	2	1	2	1	0			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr16:67943097C>T	uc002euv.2	+	2	615	c.445C>T	c.(445-447)CGG>TGG	p.R149W	PSKH1_uc010cet.2_Missense_Mutation_p.R149W	NM_006742	NP_006733	P11801	KPSH1_HUMAN	protein serine kinase H1	149	Protein kinase.					endoplasmic reticulum membrane|Golgi apparatus|microtubule organizing center|nuclear speck|plasma membrane	ATP binding|protein serine/threonine kinase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0044)|Epithelial(162;0.0197)|all cancers(182;0.128)		TGTGCTGCGTCGGGTGCGTCA	0.607													4	41					0	0	0.009096	0	0		T	67943097	T	T	67943097	3	4	104	1	0	0	0	0	1	0	0	0	12686	875	31	1	447	1	PSKH1	16	67943097	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	43126928	67943097	22411656	84	64093											
ATXN7L3	56970	broad.mit.edu	37	chr17	42271971	42271971	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgtcccactgaagccggCtgatcagggcctggctgtca	7	7	13	14	2	2	2	2	2	0	0	3	2	3	2	4	3	2	2	4	3	1	0			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr17:42271971C>A	uc002iga.2	-	11	900	c.809G>T	c.(808-810)AGC>ATC	p.S270I	ATXN7L3_uc010wiv.1_Missense_Mutation_p.S52I|ATXN7L3_uc002ifz.2_Missense_Mutation_p.S277I	NM_001098833	NP_001092303	Q14CW9	AT7L3_HUMAN	ataxin 7-like 3 isoform b	270					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|metal ion binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.113)		CTGAAGCCGGCTGATCAGGGC	0.557													7	35					3.09899e-07	3.44332e-07	0.004482	1	0		A	42271971	A	A	42271971	3	1	104	1	0	0	0	0	1	0	0	0	1219	797	28	5	242	5	ATXN7L3	17	42271971	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08		42271971	38923239	85	64094											
QRICH2	84074	broad.mit.edu	37	chr17	74288358	74288358	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttggaccaaaccacgctgaActgcaccaggttgcaccaaa	13	6	9	13	1	0	1	0	1	0	0	0	2	0	2	4	2	4	5	4	2	3	2	rs113162124	byFrequency	TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr17:74288358A>T	uc002jrd.1	-	4	2132	c.1952T>A	c.(1951-1953)GTT>GAT	p.V651D	QRICH2_uc010wsz.1_Missense_Mutation_p.V577D|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	651	Gln-rich.						protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						accacgctgaactgcaccagg	0.015													4	55					0	0	0.009096	0	0		T	74288358	T	T	74288358	3	4	104	1	0	0	0	0	1	0	0	0	12905	43	2	5	3103	5	QRICH2	17	74288358	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08	32016387	74288358	6906852	86	64095											
EPB41L3	23136	broad.mit.edu	37	chr18	5398077	5398077	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaattctgttggttttcgCgcagactctaataaactgaa	12	14	8	7	2	2	3	0	2	2	1	3	3	2	3	0	1	1	3	0	1	5	6			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr18:5398077C>T	uc002kmt.1	-	17	2501	c.2415G>A	c.(2413-2415)GCG>GCA	p.A805A	EPB41L3_uc010wzh.1_Silent_p.A636A|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Silent_p.A110A|EPB41L3_uc010wzf.1_Silent_p.A102A|EPB41L3_uc010wzg.1_Silent_p.A77A|EPB41L3_uc010dkr.2_Silent_p.A197A	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	805	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TTGGTTTTCGCGCAGACTCTA	0.448													41	386					0	0	0.006999	0	0		T	5398077	T	T	5398077	2	4	104	1	0	0	0	0	0	0	0	1	5162	755	27	1		1	EPB41L3	18	5398077	Silent	SNP	C	TCGA-CD-5798-01A-11D-1600-08		5398077	72679171	87	64096											
EPB41L3	23136	broad.mit.edu	37	chr18	5424307	5424307	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactttccataaacgcttggCagctcgatggtttggcagct	8	13	10	10	2	0	0	0	0	0	0	2	1	1	0	1	3	4	6	1	3	3	5			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr18:5424307C>A	uc002kmt.1	-	10	1203	c.1117G>T	c.(1117-1119)GCC>TCC	p.A373S	EPB41L3_uc010wzh.1_Missense_Mutation_p.A373S|EPB41L3_uc002kmu.1_Missense_Mutation_p.A373S|EPB41L3_uc010dkq.1_Missense_Mutation_p.A264S|EPB41L3_uc010dkr.2_5'Flank	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	373	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						AAACGCTTGGCAGCTCGATGG	0.294													44	214					4.21674e-32	4.87887e-32	0.01441	1	0		A	5424307	A	A	5424307	3	1	104	1	0	0	0	0	1	0	0	0	5162	710	25	5	2198	5	EPB41L3	18	5424307	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08	26230	5424307	72652941	88	64097											
ZNF90	7643	broad.mit.edu	37	chr19	20228877	20228877	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taagagatactggaaaaaaaCctttcaaatgtatagaatgt	19	11	7	4	0	1	2	1	0	0	2	1	4	1	3	1	1	2	1	1	1	9	5	rs149678958		TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr19:20228877C>A	uc002nor.2	+	4	653	c.514C>A	c.(514-516)CCT>ACT	p.P172T	ZNF90_uc002nos.1_Intron|ZNF90_uc002not.1_Intron	NM_007138	NP_009069	Q03938	ZNF90_HUMAN	zinc finger protein 90	172						Golgi apparatus|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.P172S(2)|p.?(1)		ovary(1)|skin(1)	2						TGGAAAAAAACCTTTCAAATG	0.343													6	30					0.00198382	0.00208823	0.001984	1	0		A	20228877	A	A	20228877	3	1	104	1	0	0	0	0	1	0	0	0	18224	507	18	5	528	5	ZNF90	19	20228877	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08		20228877	38900106	89	64098											
ZNF345	25850	broad.mit.edu	37	chr19	37367987	37367987	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacatcagcgaattcatacTggtgagaaaccttatgaatg	14	10	9	8	2	2	2	2	2	0	1	2	5	2	2	1	1	3	0	1	1	5	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr19:37367987T>A	uc002oex.2	+	3	633	c.255T>A	c.(253-255)ACT>ACA	p.T85T	ZNF345_uc002oey.3_Silent_p.T85T|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	85					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAATTCATACTGGTGAGAAAC	0.398													8	121					0	0	0.006214	0	0		A	37367987	A	A	37367987	2	1	104	1	0	0	0	0	0	0	0	1	17884	1567	55	5		5	ZNF345	19	37367987	Silent	SNP	T	TCGA-CD-5798-01A-11D-1600-08	17139110	37367987	21760996	90	64099											
ZNF585A	199704	broad.mit.edu	37	chr19	37643342	37643342	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatttctctcctgtatgagTtttctgatgtgtaatgagat	9	18	9	5	0	2	4	0	3	2	2	4	5	3	4	1	0	0	3	1	0	2	5			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr19:37643342T>G	uc002ofo.1	-	5	1690	c.1459A>C	c.(1459-1461)ACT>CCT	p.T487P	ZNF585A_uc002ofm.1_Missense_Mutation_p.T432P|ZNF585A_uc002ofn.1_Missense_Mutation_p.T432P	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	487	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CCTGTATGAGTTTTCTGATGT	0.408													28	233					0	0	0.00632	0	0		G	37643342	G	G	37643342	3	3	104	1	0	0	0	0	1	0	0	0	18042	1725	60	5	854	5	ZNF585A	19	37643342	Missense_Mutation	SNP	T	TCGA-CD-5798-01A-11D-1600-08	275355	37643342	21485641	91	64100											
EGLN2	112398	broad.mit.edu	37	chr19	41313417	41313417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgtctggtattttgatGccaaggagcgggcagcagcc	8	10	13	10	1	2	1	1	1	1	0	2	2	2	2	2	3	4	3	2	3	2	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr19:41313417G>A	uc010ehd.2	+	11	2130	c.1129G>A	c.(1129-1131)GCC>ACC	p.A377T	EGLN2_uc002opg.3_Missense_Mutation_p.A377T|EGLN2_uc002oph.2_Missense_Mutation_p.A377T|EGLN2_uc002opi.2_Missense_Mutation_p.A377T	NM_080732	NP_542770	Q96KS0	EGLN2_HUMAN	EGL nine (C.elegans) homolog 2	377					cell redox homeostasis|estrogen receptor signaling pathway|positive regulation of protein catabolic process|regulation of cell growth|response to hypoxia	cytoplasm|nucleus	ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|oxygen sensor activity			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Vitamin C(DB00126)	GTATTTTGATGCCAAGGAGCG	0.537											OREG0025478	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	156					0	0	0.00245	0	0		A	41313417	A	A	41313417	3	1	104	1	0	0	0	0	1	0	0	0	4975	1319	46	2	1143	2	EGLN2	19	41313417	Missense_Mutation	SNP	G	TCGA-CD-5798-01A-11D-1600-08	3670075	41313417	17815566	92	64101											
ZSCAN18	65982	broad.mit.edu	37	chr19	58596469	58596469	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtccccatcctcggggtgCggcctcttggttcccagttt	2	12	11	16	3	1	0	0	0	1	0	5	0	4	0	6	4	1	2	6	4	0	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr19:58596469C>T	uc002qri.2	-	7	1425	c.1116G>A	c.(1114-1116)CCG>CCA	p.P372P	ZSCAN18_uc002qrj.3_Silent_p.P371P|ZSCAN18_uc010yhs.1_Silent_p.P236P|ZSCAN18_uc002qrh.2_Silent_p.P372P|ZSCAN18_uc010yht.1_Silent_p.P428P|ZSCAN18_uc002qrk.1_3'UTR|ZSCAN18_uc002qrl.2_3'UTR	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	372					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		CCTCGGGGTGCGGCCTCTTGG	0.721													5	31					0	0	0.001168	0	0		T	58596469	T	T	58596469	2	4	104	1	0	0	0	0	0	0	0	1	18255	755	27	1		1	ZSCAN18	19	58596469	Silent	SNP	C	TCGA-CD-5798-01A-11D-1600-08	17283052	58596469	532514	93	64102											
GHRH	2691	broad.mit.edu	37	chr20	35884866	35884866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccagcaccttccggtagCtgttggtgaagatggcatct	7	10	13	11	1	1	2	0	1	1	1	2	2	2	2	3	4	2	5	3	4	2	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chr20:35884866C>T	uc002xgr.2	-	2	119	c.119G>A	c.(118-120)AGC>AAC	p.S40N	GHRH_uc002xgs.2_Missense_Mutation_p.S40N|GHRH_uc002xgt.2_Missense_Mutation_p.S40N	NM_021081	NP_066567	P01286	SLIB_HUMAN	growth hormone releasing hormone preproprotein	40					activation of adenylate cyclase activity by G-protein signaling pathway|adenohypophysis development|growth hormone secretion|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of circadian sleep/wake cycle, REM sleep|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to food	extracellular space|terminal button	growth hormone-releasing hormone activity|growth hormone-releasing hormone receptor binding			ovary(1)	1		Myeloproliferative disorder(115;0.00878)				CTTCCGGTAGCTGTTGGTGAA	0.622													6	68					0	0	0.001984	0	0		T	35884866	T	T	35884866	3	4	104	1	0	0	0	0	1	0	0	0	6387	797	28	2	219	2	GHRH	20	35884866	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08		35884866	27140654	94	64103											
NLGN4X	57502	broad.mit.edu	37	chrX	5811421	5811421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggttggccatatcttggCgggagatcgccgggtgccat	5	10	17	9	3	1	1	0	0	1	1	2	2	1	1	3	6	1	1	3	6	1	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chrX:5811421C>T	uc010ndh.2	-	6	2389	c.1888G>A	c.(1888-1890)GCC>ACC	p.A630T	NLGN4X_uc004crp.2_Missense_Mutation_p.A650T|NLGN4X_uc004crq.2_Missense_Mutation_p.A630T|NLGN4X_uc010ndi.2_Missense_Mutation_p.A667T|NLGN4X_uc004crr.2_Missense_Mutation_p.A630T|NLGN4X_uc010ndj.2_Missense_Mutation_p.A630T	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	630	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						CATATCTTGGCGGGAGATCGC	0.498													5	116					0	0	0.00308	0	0		T	5811421	T	T	5811421	3	4	104	1	0	0	0	0	1	0	0	0	10483	768	27	1	566	1	NLGN4X	23	5811421	Missense_Mutation	SNP	C	TCGA-CD-5798-01A-11D-1600-08		5811421	149459139	95	64104											
RBBP7	5931	broad.mit.edu	37	chrX	16870931	16870931	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggattgaatgagaggcagtTgacttcggcagtgtgcgcat	9	10	16	6	2	0	3	0	3	0	1	1	5	0	4	0	3	1	4	0	3	1	3			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chrX:16870931T>G	uc004cxt.2	-	7	1184	c.826A>C	c.(826-828)AAC>CAC	p.N276H	RBBP7_uc004cxs.1_Missense_Mutation_p.N320H|RBBP7_uc004cxu.2_Missense_Mutation_p.N267H|RBBP7_uc010nez.2_3'UTR	NM_002893	NP_002884	Q16576	RBBP7_HUMAN	retinoblastoma binding protein 7	276	WD 5.				cell proliferation|cellular heat acclimation|CenH3-containing nucleosome assembly at centromere|DNA replication|multicellular organismal development|negative regulation of cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex|NuRD complex	protein binding	p.N276S(1)		upper_aerodigestive_tract(1)|ovary(1)	2	Hepatocellular(33;0.0997)					GAGAGGCAGTTGACTTCGGCA	0.483													23	87					0	0	0.007291	0	0		G	16870931	G	G	16870931	3	3	104	1	0	0	0	0	1	0	0	0	13129	1812	63	5	475	5	RBBP7	23	16870931	Missense_Mutation	SNP	T	TCGA-CD-5798-01A-11D-1600-08	11059510	16870931	138399629	96	64105											
ITIH5L	347365	broad.mit.edu	37	chrX	54785304	54785304	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggtcgtcacgccggcCgtgggctccccatccgtcag	3	7	15	16	5	2	0	2	0	0	0	5	0	4	0	5	4	0	1	5	4	0	0			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chrX:54785304C>T	uc004dtj.2	-	8	1233	c.1203G>A	c.(1201-1203)ACG>ACA	p.T401T		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	401	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						TCACGCCGGCCGTGGGCTCCC	0.607													3	14					0	0	0.009096	0	0		T	54785304	T	T	54785304	2	4	104	1	0	0	0	0	0	0	0	1	7924	639	23	1		1	ITIH5L	23	54785304	Silent	SNP	C	TCGA-CD-5798-01A-11D-1600-08	37914373	54785304	100485256	97	64106											
MTMR8	55613	broad.mit.edu	37	chrX	63568644	63568644	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcgagtgtaaaatccagAgagaggctggctacagcggc	13	5	14	9	2	0	2	0	0	0	2	1	4	1	2	1	3	3	3	1	3	3	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chrX:63568644A>G	uc004dvs.2	-	6	696	c.628T>C	c.(628-630)TCT>CCT	p.S210P	MTMR8_uc011mou.1_Missense_Mutation_p.S210P|MTMR8_uc004dvt.1_Missense_Mutation_p.S210P	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	210	Myotubularin phosphatase.					nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						TAAAATCCAGAGAGAGGCTGG	0.453													3	45					0	0	0.004672	0	0		G	63568644	G	G	63568644	3	3	104	1	0	0	0	0	1	0	0	0	9967	304	11	3	1522	3	MTMR8	23	63568644	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08	8783340	63568644	91701916	98	64107											
DCAF12L1	139170	broad.mit.edu	37	chrX	125685736	125685736	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccggctttccacaggtggaAgtagccgtccaaggacaccg	9	6	12	14	3	0	0	0	0	0	0	2	2	2	2	5	4	1	2	5	4	3	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chrX:125685736A>C	uc004eul.2	-	1	1107	c.856T>G	c.(856-858)TTC>GTC	p.F286V		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	286	WD 3.									skin(3)|ovary(1)	4						CACAGGTGGAAGTAGCCGTCC	0.607													16	54					0	0	0.004007	0	0		C	125685736	C	C	125685736	3	2	104	1	0	0	0	0	1	0	0	0	4267	72	3	5	539	5	DCAF12L1	23	125685736	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08	62117092	125685736	29584824	99	64108											
CDR1	1038	broad.mit.edu	37	chrX	139865818	139865818	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcagtgtcttccagaaagaAatccaggtcttccagtcagt	12	11	8	10	0	4	2	2	0	2	2	7	2	7	2	3	1	0	0	3	1	2	2			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chrX:139865818A>C	uc004fbg.1	-	1	906	c.714T>G	c.(712-714)ATT>ATG	p.I238M	uc004fbf.1_RNA	NM_004065	NP_004056	P51861	CDR1_HUMAN	cerebellar degeneration-related protein 1,	238											0	Acute lymphoblastic leukemia(192;7.65e-05)	Lung SC(4;0.051)				TCCAGAAAGAAATCCAGGTCT	0.423													21	99					0	0	0.014323	0	0		C	139865818	C	C	139865818	3	2	104	1	0	0	0	0	1	0	0	0	3174	10	1	5	78	5	CDR1	23	139865818	Missense_Mutation	SNP	A	TCGA-CD-5798-01A-11D-1600-08	14180082	139865818	15404742	100	64109											
IRAK1	3654	broad.mit.edu	37	chrX	153284492	153284492	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagggcttgggaccaggccGagctcaggccctgaatgggt	7	6	17	11	1	1	1	1	1	0	0	1	3	1	2	3	5	1	3	3	5	1	1			TCGA-CD-5798-01A-11D-1600-08	TCGA-CD-5798-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0ea9a63-bf9e-42a8-bb3d-77580f4ba745	66b0705b-4698-4bae-a0a4-90724d7a16f1	g.chrX:153284492G>A	uc004fjs.1	-	4	553	c.474C>T	c.(472-474)CTC>CTT	p.L158L	IRAK1_uc004fjr.1_Silent_p.L158L|IRAK1_uc004fjt.1_Silent_p.L158L|IRAK1_uc010nur.2_Silent_p.L158L|IRAK1_uc004fju.2_Silent_p.L184L	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	158	ProST region.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGACCAGGCCGAGCTCAGGCC	0.622													5	13					0	0	0.000602	0	0		A	153284492	A	A	153284492	2	1	104	1	0	0	0	0	0	0	0	1	7837	1045	37	1		1	IRAK1	23	153284492	Silent	SNP	G	TCGA-CD-5798-01A-11D-1600-08	13418674	153284492	1986068	101	64110											
CROCC	9696	broad.mit.edu	37	chr1	17280823	17280823	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agatggagcggcagaaacgaGatgcccagagccggcaggag	13	2	17	9	3	0	4	0	0	0	4	0	7	0	6	2	4	4	2	2	4	1	0			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr1:17280823G>C	uc001azt.2	+	22	3361	c.3292G>C	c.(3292-3294)GAT>CAT	p.D1098H	CROCC_uc009voz.1_Missense_Mutation_p.D697H|CROCC_uc001azu.2_Missense_Mutation_p.D401H	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	1098	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		GCAGAAACGAGATGCCCAGAG	0.632													4	144					0	0	0.009096	0	0		C	17280823	C	C	17280823	3	2	105	1	0	0	0	0	1	0	0	0	3896	942	33	5	3378	5	CROCC	1	17280823	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08		17280823	231969798	1	64111											
OR6N1	128372	broad.mit.edu	37	chr1	158735615	158735615	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgcaagctgtagatgaagggGttgaggaagggtgtgagcac	11	7	18	5	1	0	4	0	3	0	1	0	5	0	5	0	4	2	5	0	4	4	2			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr1:158735615G>T	uc010piq.1	-	1	858	c.858C>A	c.(856-858)AAC>AAA	p.N286K		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AGATGAAGGGGTTGAGGAAGG	0.527													60	215					1.14385e-22	1.35628e-22	0.01441	1	0		T	158735615	T	T	158735615	3	4	105	1	0	0	0	0	1	0	0	0	11225	1252	44	5	83	5	OR6N1	1	158735615	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	141454792	158735615	90515006	2	64112											
PIGM	93183	broad.mit.edu	37	chr1	160001391	160001391	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggtagtcgatgtccgtatAcctcacgtgcagggtccggt	6	11	13	11	4	1	0	1	0	0	0	4	1	3	0	3	3	2	3	3	3	3	3			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr1:160001391A>G	uc001fuv.1	-	1	393	c.139T>C	c.(139-141)TAT>CAT	p.Y47H		NM_145167	NP_660150	Q9H3S5	PIGM_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	47	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			ATGTCCGTATACCTCACGTGC	0.622													5	114					0	0	0.000602	0	0		G	160001391	G	G	160001391	3	3	105	1	0	0	0	0	1	0	0	0	11911	391	14	3	1136	3	PIGM	1	160001391	Missense_Mutation	SNP	A	TCGA-CD-5799-01A-11D-1600-08	1265776	160001391	89249230	3	64113											
RGPD4	285190	broad.mit.edu	37	chr2	108475958	108475958	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaacagctttgtacagaaAgacaaaaatcttggtgggat	16	10	10	5	0	1	2	0	0	1	2	1	3	1	3	0	2	3	3	0	2	6	4	rs142985549	by1000genomes	TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr2:108475958A>G	uc010ywk.1	+	11	1664	c.1582A>G	c.(1582-1584)AGA>GGA	p.R528G	RGPD4_uc002tdu.2_5'UTR|RGPD4_uc010ywl.1_RNA	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	528					intracellular transport		binding			skin(2)	2						TTGTACAGAAAGACAAAAATC	0.393													7	489					0	0	0.001984	0	0		G	108475958	G	G	108475958	3	3	105	1	0	0	0	0	1	0	0	0	13313	64	3	3	1624	3	RGPD4	2	108475958	Missense_Mutation	SNP	A	TCGA-CD-5799-01A-11D-1600-08		108475958	134723415	4	64114											
WDR33	55339	broad.mit.edu	37	chr2	128477550	128477550	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtcccaaagggccatgAggtccaggatgcctctgcat	9	8	13	11	0	1	2	0	2	1	0	3	3	3	3	4	4	2	1	4	4	1	0			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr2:128477550A>G	uc002tpg.1	-	16	2232	c.2049T>C	c.(2047-2049)CCT>CCC	p.P683P		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	683	Collagen-like.				postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		AAGGGCCATGAGGTCCAGGAT	0.632													3	117					0	0	0.009096	0	0		G	128477550	G	G	128477550	2	3	105	1	0	0	0	0	0	0	0	1	17313	291	11	3		3	WDR33	2	128477550	Silent	SNP	A	TCGA-CD-5799-01A-11D-1600-08	20001592	128477550	114721823	5	64115											
CCDC141	285025	broad.mit.edu	37	chr2	179736940	179736940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttaagctgccatgccagccGaaggaggctaagttcttccc	9	10	10	12	1	1	0	0	0	1	0	2	2	2	1	4	2	4	3	4	2	3	5	rs146458136		TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr2:179736940G>A	uc002unf.1	-	3	331	c.274C>T	c.(274-276)CGG>TGG	p.R92W		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	92	Potential.						protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			CATGCCAGCCGAAGGAGGCTA	0.468													18	123					0	0	0.007413	0	0		A	179736940	A	A	179736940	3	1	105	1	0	0	0	0	1	0	0	0	2778	1057	37	1	2397	1	CCDC141	2	179736940	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	51259390	179736940	63462433	6	64116											
CTLA4	1493	broad.mit.edu	37	chr2	204735471	204735471	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcggcaacctacatgaTggggaatgagttgaccttcc	9	10	12	10	1	0	3	0	3	0	0	1	4	1	4	3	3	3	2	3	3	3	3	rs1065442		TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr2:204735471T>C	uc002vak.1	+	2	429	c.272T>C	c.(271-273)ATG>ACG	p.M91T	CTLA4_uc002val.1_Missense_Mutation_p.M91T|CTLA4_uc010fty.1_Intron|CTLA4_uc010ftz.1_Intron	NM_005214	NP_005205	P16410	CTLA4_HUMAN	cytotoxic T-lymphocyte-associated protein 4	91	Ig-like V-type.|Extracellular (Potential).				B cell receptor signaling pathway|immune response|negative regulation of B cell proliferation|negative regulation of regulatory T cell differentiation|positive regulation of apoptosis|response to DNA damage stimulus|T cell costimulation	clathrin-coated endocytic vesicle|external side of plasma membrane|Golgi apparatus|integral to plasma membrane|perinuclear region of cytoplasm					0					Abatacept(DB01281)	ACCTACATGATGGGGAATGAG	0.547													56	72					0	0	0.01441	0	0		C	204735471	C	C	204735471	3	2	105	1	0	0	0	0	1	0	0	0	4014	1464	51	3	278	3	CTLA4	2	204735471	Missense_Mutation	SNP	T	TCGA-CD-5799-01A-11D-1600-08	24998531	204735471	38463902	7	64117											
SLC16A14	151473	broad.mit.edu	37	chr2	230902153	230902153	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctataattcgaatgcaCggctgaataagtaaaaagag	16	11	9	5	2	1	2	0	1	1	1	2	3	1	2	0	1	1	4	0	1	8	6	rs111580291		TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr2:230902153C>T	uc002vqd.1	-	5	1839	c.1476G>A	c.(1474-1476)CCG>CCA	p.P492P	FBXO36_uc010fxi.1_Intron	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	492	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		TTCGAATGCACGGCTGAATAA	0.328													65	91					0	0	0.01441	0	0		T	230902153	T	T	230902153	2	4	105	1	0	0	0	0	0	0	0	1	14432	523	19	1		1	SLC16A14	2	230902153	Silent	SNP	C	TCGA-CD-5799-01A-11D-1600-08	26166682	230902153	12297220	8	64118											
CAND2	23066	broad.mit.edu	37	chr3	12858630	12858630	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctttggtggaggtcagTggccctgtgctctcagagct	4	12	14	11	0	3	1	2	0	2	1	4	2	3	2	2	4	2	2	2	4	0	1			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr3:12858630T>C	uc003bxk.2	+	10	2248	c.2199T>C	c.(2197-2199)AGT>AGC	p.S733S	CAND2_uc003bxj.2_Silent_p.S640S	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	733	HEAT 16.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						TGGAGGTCAGTGGCCCTGTGC	0.652													12	6					0	0	0.012319	0	0		C	12858630	C	C	12858630	2	2	105	1	0	0	0	0	0	0	0	1	2619	1693	59	3		3	CAND2	3	12858630	Silent	SNP	T	TCGA-CD-5799-01A-11D-1600-08		12858630	185163800	9	64119											
ITIH3	3699	broad.mit.edu	37	chr3	52837878	52837878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctcctcacagcaagaacGcccatggcgaggagaaggag	12	3	12	14	2	1	2	1	0	0	2	2	5	2	3	4	3	2	1	4	3	3	0			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr3:52837878G>A	uc003dfv.2	+	14	1753	c.1717G>A	c.(1717-1719)GCC>ACC	p.A573T	ITIH3_uc011bek.1_Intron	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	573					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		CAGCAAGAACGCCCATGGCGA	0.627													3	20					0	0	0.001168	0	0		A	52837878	A	A	52837878	3	1	105	1	0	0	0	0	1	0	0	0	7921	1087	38	1	1771	1	ITIH3	3	52837878	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	39979248	52837878	145184552	10	64120											
PLXNA1	5361	broad.mit.edu	37	chr3	126724992	126724992	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtttgcgtctgtggacttCgtcttctacaactgcagcgt	7	14	10	10	3	3	0	0	0	3	0	4	1	3	1	0	1	5	2	0	1	3	4			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr3:126724992C>T	uc003ejg.2	+	7	1903	c.1899C>T	c.(1897-1899)TTC>TTT	p.F633F		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	656	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CTGTGGACTTCGTCTTCTACA	0.607													6	142					0	0	0.001168	0	0		T	126724992	T	T	126724992	2	4	105	1	0	0	0	0	0	0	0	1	12138	883	31	1		1	PLXNA1	3	126724992	Silent	SNP	C	TCGA-CD-5799-01A-11D-1600-08	73887114	126724992	71297438	11	64121											
GHSR	2693	broad.mit.edu	37	chr3	172165804	172165804	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgacgctcagcgctgtgaTggtgagcaccgtggcgtagg	6	8	16	11	5	1	2	1	2	0	0	2	3	1	2	1	3	2	4	1	3	1	1			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr3:172165804T>A	uc003fib.1	-	1	400	c.400A>T	c.(400-402)ATC>TTC	p.I134F	GHSR_uc011bpv.1_Missense_Mutation_p.I134F	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	134	Helical; Name=3; (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			AGCGCTGTGATGGTGAGCACC	0.612													27	44					0	0	0.007291	0	0		A	172165804	A	A	172165804	3	1	105	1	0	0	0	0	1	0	0	0	6390	1464	51	5	782	5	GHSR	3	172165804	Missense_Mutation	SNP	T	TCGA-CD-5799-01A-11D-1600-08	45440812	172165804	25856626	12	64122											
PSMD2	5708	broad.mit.edu	37	chr3	184024196	184024196	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgtagcgaacactttgaCtccaaagagaaggaggaaga	16	8	11	6	1	0	3	0	1	0	2	1	7	1	5	1	2	2	1	1	2	5	3			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr3:184024196C>G	uc003fnn.1	+	15	1896	c.1863C>G	c.(1861-1863)GAC>GAG	p.D621E	PSMD2_uc011brj.1_Missense_Mutation_p.D462E|PSMD2_uc011brk.1_Missense_Mutation_p.D491E	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	621					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	AACACTTTGACTCCaaagaga	0.383													55	119					0	0	0.01441	0	0		G	184024196	G	G	184024196	3	3	105	1	0	0	0	0	1	0	0	0	12720	564	20	5	1921	5	PSMD2	3	184024196	Missense_Mutation	SNP	C	TCGA-CD-5799-01A-11D-1600-08	11858392	184024196	13998234	13	64123											
MAST4	375449	broad.mit.edu	37	chr5	66429354	66429354	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatagcttgttggttacCtccatggggcacataaagct	9	12	9	11	0	1	0	1	0	0	0	2	0	2	0	3	3	3	5	3	3	4	5			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr5:66429354C>T	uc003jut.1	+	16	1607	c.1539C>T	c.(1537-1539)ACC>ACT	p.T513T	MAST4_uc003juu.1_Silent_p.T523T|MAST4_uc011cra.1_Silent_p.T496T|MAST4_uc003juv.2_Silent_p.T508T|MAST4_uc003juw.2_Silent_p.T508T	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	705	Protein kinase.					cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		TGTTGGTTACCTCCATGGGGC	0.418													89	147					0	0	0.01441	0	0		T	66429354	T	T	66429354	2	4	105	1	0	0	0	0	0	0	0	1	9345	668	24	4		4	MAST4	5	66429354	Silent	SNP	C	TCGA-CD-5799-01A-11D-1600-08		66429354	114485906	14	64124											
PCDHA11	56138	broad.mit.edu	37	chr5	140249981	140249981	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcgcgggatgggggttcGccttctctgtgggccacggc	3	9	17	12	4	1	0	0	0	1	0	3	1	1	1	2	5	1	1	2	5	0	2			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr5:140249981G>A	uc003lia.2	+	1	2151	c.1293G>A	c.(1291-1293)TCG>TCA	p.S431S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Silent_p.S431S	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	431	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGGGGGTTCGCCTTCTCTGT	0.622													24	142					0	0	0.00333	0	0		A	140249981	A	A	140249981	2	1	105	1	0	0	0	0	0	0	0	1	11540	1074	38	1		1	PCDHA11	5	140249981	Silent	SNP	G	TCGA-CD-5799-01A-11D-1600-08	73820627	140249981	40665279	15	64125											
PCDHA11	56138	broad.mit.edu	37	chr5	140250857	140250857	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatacggcgctgtggtggtcGgcaacgcccactgagggcgc	6	7	16	12	5	0	1	0	1	0	0	1	1	0	1	1	5	2	2	1	5	3	2			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr5:140250857G>A	uc003lia.2	+	1	3027	c.2169G>A	c.(2167-2169)TCG>TCA	p.S723S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Silent_p.S723S	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	723	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTGGTGGTCGGCAACGCCCA	0.672													3	39					0	0	0.004672	0	0		A	140250857	A	A	140250857	2	1	105	1	0	0	0	0	0	0	0	1	11540	1103	39	1		1	PCDHA11	5	140250857	Silent	SNP	G	TCGA-CD-5799-01A-11D-1600-08	876	140250857	40664403	16	64126											
MXD3	83463	broad.mit.edu	37	chr5	176734800	176734800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttggtctgagtctgagcGctcagaggagaggcctgagg	8	8	16	9	1	3	5	1	3	2	2	3	6	3	5	2	4	1	1	2	4	0	1			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr5:176734800G>A	uc003mgb.2	-	5	948	c.487C>T	c.(487-489)CGC>TGC	p.R163C	MXD3_uc010jkk.2_Missense_Mutation_p.R163C|MXD3_uc003mga.3_Missense_Mutation_p.R163C|MXD3_uc003mgc.2_Missense_Mutation_p.R153C	NM_031300	NP_112590	Q9BW11	MAD3_HUMAN	MAX dimerization protein 3 isoform a	163					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0	all_cancers(89;2.49e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GAGTCTGAGCGCTCAGAGGAG	0.721													11	12					0	0	0.001855	0	0		A	176734800	A	A	176734800	3	1	105	1	0	0	0	0	1	0	0	0	10018	1087	38	1	222	1	MXD3	5	176734800	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	36483943	176734800	4180460	17	64127											
MBOAT1	154141	broad.mit.edu	37	chr6	20113188	20113188	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccatgccacaaagcagaCaggatgaaggttagcaccgt	15	5	10	11	1	0	2	0	1	0	1	0	3	0	3	3	2	3	3	3	2	3	1			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr6:20113188C>T	uc003ncx.1	-	11	1333	c.1128G>A	c.(1126-1128)CTG>CTA	p.L376L	MBOAT1_uc011dji.1_Silent_p.L227L	NM_001080480	NP_001073949	Q6ZNC8	MBOA1_HUMAN	membrane bound O-acyltransferase domain	376	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(95;0.244)|Breast(50;0.0379)|Ovarian(93;0.0473)|all_epithelial(95;0.109)		OV - Ovarian serous cystadenocarcinoma(7;0.00392)|all cancers(50;0.0117)|Epithelial(50;0.0454)			ACAAAGCAGACAGGATGAAGG	0.468													32	75					0	0	0.008361	0	0		T	20113188	T	T	20113188	2	4	105	1	0	0	0	0	0	0	0	1	9374	465	17	4		4	MBOAT1	6	20113188	Silent	SNP	C	TCGA-CD-5799-01A-11D-1600-08		20113188	151001879	18	64128											
HIST1H3J	8356	broad.mit.edu	37	chr6	27858469	27858469	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtggggcttcttcacaccGccagtcgctggagcgctttt	4	11	13	13	4	2	0	1	0	1	0	3	1	2	1	2	4	1	3	2	4	0	4			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr6:27858469G>A	uc003nka.2	-	1	102	c.102C>T	c.(100-102)GGC>GGT	p.G34G	HIST1H2BO_uc003nkc.1_5'Flank	NM_003535	NP_003526	P68431	H31_HUMAN	histone cluster 1, H3j	34					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1						TCTTCACACCGCCAGTCGCTG	0.642													3	52					0	0	0.004672	0	0		A	27858469	A	A	27858469	2	1	105	1	0	0	0	0	0	0	0	1	7180	1074	38	1		1	HIST1H3J	6	27858469	Silent	SNP	G	TCGA-CD-5799-01A-11D-1600-08	7745281	27858469	143256598	19	64129											
OPN5	221391	broad.mit.edu	37	chr6	47776100	47776100	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaaactggtggtttgaaaGcaaccaagaagaagtctctg	14	8	11	8	0	1	3	0	1	1	2	2	3	1	3	2	2	3	2	2	2	6	1			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr6:47776100G>T	uc003ozc.2	+	5	972	c.967G>T	c.(967-969)GCA>TCA	p.A323S	OPN5_uc003ozd.2_Missense_Mutation_p.A158S	NM_181744	NP_859528	Q6U736	OPN5_HUMAN	opsin 5 isoform 1	323	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1						TGGTTTGAAAGCAACCAAGAA	0.418													68	179					2.18329e-32	2.66489e-32	0.01441	1	0		T	47776100	T	T	47776100	3	4	105	1	0	0	0	0	1	0	0	0	10902	971	34	5	985	5	OPN5	6	47776100	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	19917631	47776100	123338967	20	64130											
WRN	7486	broad.mit.edu	37	chr8	31014945	31014945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcatgcacttatcccaagCggtgaaagctggctgccccc	8	8	11	14	1	0	1	0	1	0	0	1	1	1	1	3	3	4	4	3	3	3	1	rs146861737		TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr8:31014945C>T	uc003xio.3	+	33	4669	c.3881C>T	c.(3880-3882)GCG>GTG	p.A1294V	WRN_uc010lvk.2_Missense_Mutation_p.A761V	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	1294					base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		TTATCCCAAGCGGTGAAAGCT	0.488			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				9	80					0	0	0.004482	0	0		T	31014945	T	T	31014945	3	4	105	1	0	0	0	0	1	0	0	0	17428	768	27	1	4007	1	WRN	8	31014945	Missense_Mutation	SNP	C	TCGA-CD-5799-01A-11D-1600-08		31014945	115349077	21	64131											
CDKN2A	1029	broad.mit.edu	37	chr9	21971111	21971111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctcccgggcagcgtcgtGcacgggtcgggtgagagtgg	4	6	19	12	5	0	1	0	1	0	1	3	2	1	1	2	4	2	2	2	4	0	0	rs121913385		TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr9:21971111G>A	uc003zpk.2	-	2	459	c.247C>T	c.(247-249)CAC>TAC	p.H83Y	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.A138V	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	83	ANK 3.		H -> N (in a lung tumor).|H -> Y (in a pancreas and a head and neck tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.H83Y(28)|p.?(13)|p.H83fs*2(2)|p.H83P(2)|p.H83N(1)|p.V82fs*62(1)|p.V82_E88del(1)|p.V82_G89>G(1)|p.E61_L94del(1)|p.A138V(1)|p.R137fs*48(1)|p.A68fs*3(1)|p.P81_A85del(1)|p.R80fs*34(1)|p.H83R(1)|p.H83Q(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		GCAGCGTCGTGCACGGGTCGG	0.741	H83Y(CALU3_LUNG)|H83Y(JHH2_LIVER)|H83Y(HS944T_SKIN)|H83Y(SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|H83Y(OPM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			7	3					0	0	0.013537	0	0		A	21971111	A	A	21971111	3	1	105	1	0	0	0	0	1	0	0	0	3164	1319	46	2	231	2	CDKN2A	9	21971111	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08		21971111	119242320	22	64132											
LINGO2	158038	broad.mit.edu	37	chr9	27949698	27949698	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgagacacattgagcacGcgtaggaagcggagcccttg	10	8	13	10	3	1	2	0	2	1	1	1	5	1	4	1	2	3	2	1	2	2	4	rs138682295		TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr9:27949698G>A	uc003zqu.1	-	2	1166	c.972C>T	c.(970-972)CGC>CGT	p.R324R	LINGO2_uc010mjf.1_Silent_p.R324R|LINGO2_uc003zqv.1_Silent_p.R324R	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	324	Extracellular (Potential).|LRR 12.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		CATTGAGCACGCGTAGGAAGC	0.542													53	35					0	0	0.01441	0	0		A	27949698	A	A	27949698	2	1	105	1	0	0	0	0	0	0	0	1	8832	1074	38	1		1	LINGO2	9	27949698	Silent	SNP	G	TCGA-CD-5799-01A-11D-1600-08	5978587	27949698	113263733	23	64133											
NOL8	55035	broad.mit.edu	37	chr9	95073453	95073453	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccattcctctcctggatggCtctgctcctgagtcgatgtc	4	13	9	15	1	2	1	0	1	2	0	7	3	4	2	4	2	1	2	4	2	0	1			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr9:95073453C>G	uc004arv.2	-	8	2784	c.2447G>C	c.(2446-2448)AGC>ACC	p.S816T	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Missense_Mutation_p.S48T|NOL8_uc011ltw.1_Missense_Mutation_p.S748T	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	816					DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						TCCTGGATGGCTCTGCTCCTG	0.488													10	47					0	0	0.006214	0	0		G	95073453	G	G	95073453	3	3	105	1	0	0	0	0	1	0	0	0	10546	797	28	5	1096	5	NOL8	9	95073453	Missense_Mutation	SNP	C	TCGA-CD-5799-01A-11D-1600-08	67123755	95073453	46139978	24	64134											
OR1J4	26219	broad.mit.edu	37	chr9	125281714	125281714	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctttatgcagggtgtgtaActcagatgtattttttcata	9	19	8	5	0	3	1	2	0	1	1	3	1	3	1	0	1	2	3	0	1	4	9			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr9:125281714A>C	uc011lyw.1	+	1	295	c.295A>C	c.(295-297)ACT>CCT	p.T99P		NM_001004452	NP_001004452	Q8NGS1	OR1J4_HUMAN	olfactory receptor, family 1, subfamily J,	99	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGGGTGTGTAACTCAGATGTA	0.423													158	128					0	0	0.01441	0	0		C	125281714	C	C	125281714	3	2	105	1	0	0	0	0	1	0	0	0	10980	43	2	5	297	5	OR1J4	9	125281714	Missense_Mutation	SNP	A	TCGA-CD-5799-01A-11D-1600-08	30208261	125281714	15931717	25	64135											
KNDC1	85442	broad.mit.edu	37	chr10	135000076	135000076	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agccaggggccagcagaggcCcctgcagaccctcgagatgc	9	3	14	15	1	0	3	0	0	0	3	1	4	0	3	5	3	4	2	5	3	0	0			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr10:135000076C>T	uc001llz.1	+	6	1225	c.1224C>T	c.(1222-1224)GCC>GCT	p.A408A	KNDC1_uc001lma.1_Silent_p.A343A	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	408					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		CAGCAGAGGCCCCTGCAGACC	0.672													11	18					0	0	0.00245	0	0		T	135000076	T	T	135000076	2	4	105	1	0	0	0	0	0	0	0	1	8442	610	22	4		4	KNDC1	10	135000076	Silent	SNP	C	TCGA-CD-5799-01A-11D-1600-08		135000076	534671	26	64136											
OR52N4	390072	broad.mit.edu	37	chr11	5776432	5776432	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actgccaccttcctgagaggGgtattactcattattccctt	8	14	7	12	0	1	1	1	1	0	1	3	2	3	1	4	2	2	1	4	2	3	6			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr11:5776432G>A	uc001mbu.2	+	1	510	c.462G>A	c.(460-462)GGG>GGA	p.G154G	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005175	NP_001005175	Q8NGI2	O52N4_HUMAN	olfactory receptor, family 52, subfamily N,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;1.87e-10)|LUSC - Lung squamous cell carcinoma(625;0.114)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.197)		TCCTGAGAGGGGTATTACTCA	0.493													5	188					0	0	0.000602	0	0		A	5776432	A	A	5776432	2	1	105	1	0	0	0	0	0	0	0	1	11148	1219	43	4		4	OR52N4	11	5776432	Silent	SNP	G	TCGA-CD-5799-01A-11D-1600-08		5776432	129230084	27	64137											
CCDC34	91057	broad.mit.edu	37	chr11	27360462	27360462	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtggctgacttatcacaGgtcttttactcttccttcct	5	18	7	11	0	3	1	1	1	2	0	5	1	5	1	2	2	1	1	2	2	2	5			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr11:27360462G>T	uc001mrh.1	-	6	1082	c.1028C>A	c.(1027-1029)CCT>CAT	p.P343H		NM_030771	NP_110398	Q96HJ3	CCD34_HUMAN	coiled-coil domain containing 34 isoform 1	343											0						ACTTATCACAGGTCTTTTACT	0.418													101	73					7.62712e-44	9.44852e-44	0.01441	1	0		T	27360462	T	T	27360462	3	4	105	1	0	0	0	0	1	0	0	0	2810	1000	35	5	97	5	CCDC34	11	27360462	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	21584030	27360462	107646054	28	64138											
PICALM	8301	broad.mit.edu	37	chr11	85714475	85714475	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaatgttgttccaaagcaTcaagaagactgctaggggcc	13	9	10	9	0	1	2	1	0	0	2	2	2	2	2	2	2	2	4	2	2	6	4			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr11:85714475T>C	uc001pbm.2	-	9	1113	c.827A>G	c.(826-828)GAT>GGT	p.D276G	PICALM_uc001pbl.2_Missense_Mutation_p.D276G|PICALM_uc001pbn.2_Missense_Mutation_p.D276G|PICALM_uc010rtl.1_Missense_Mutation_p.D225G|PICALM_uc010rtk.1_5'UTR|PICALM_uc001pbo.1_5'UTR	NM_007166	NP_009097	Q13492	PICAL_HUMAN	phosphatidylinositol-binding clathrin assembly	276					clathrin coat assembly|endosome transport|negative regulation of receptor-mediated endocytosis|positive regulation of transcription, DNA-dependent|receptor internalization|regulation of protein localization	clathrin coat|clathrin-coated vesicle|coated pit|Golgi apparatus|nucleus|postsynaptic membrane|presynaptic membrane	1-phosphatidylinositol binding|clathrin heavy chain binding			urinary_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(157;7.42e-07)|all_hematologic(158;0.00092)				TTCCAAAGCATCAAGAAGACT	0.368			T	MLLT10|MLL	TALL|AML|								3	109					0	0	0.000602	0	0		C	85714475	C	C	85714475	3	2	105	1	0	0	0	0	1	0	0	0	11899	1435	50	3	1207	3	PICALM	11	85714475	Missense_Mutation	SNP	T	TCGA-CD-5799-01A-11D-1600-08	58354013	85714475	49292041	29	64139											
KSR2	283455	broad.mit.edu	37	chr12	118198881	118198881	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggatttgctccgatgcagCgcggtgaatcccgggatcaa	8	9	14	10	4	1	1	1	1	0	0	3	4	3	3	2	3	3	2	2	3	2	1			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr12:118198881C>T	uc001two.2	-	4	889	c.834G>A	c.(832-834)GCG>GCA	p.A278A		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	307					intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCCGATGCAGCGCGGTGAATC	0.662													6	177					0	0	0.001984	0	0		T	118198881	T	T	118198881	2	4	105	1	0	0	0	0	0	0	0	1	8598	755	27	1		1	KSR2	12	118198881	Silent	SNP	C	TCGA-CD-5799-01A-11D-1600-08		118198881	15653014	30	64140											
TUBGCP3	10426	broad.mit.edu	37	chr13	113176722	113176722	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgtggtccagcaagctgtActttttattgagaacatcca	11	13	8	9	0	0	1	0	1	0	1	2	2	2	1	2	1	4	3	2	1	4	5			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr13:113176722A>G	uc001vse.1	-	14	1844	c.1657T>C	c.(1657-1659)TAC>CAC	p.Y553H	TUBGCP3_uc010tjq.1_Missense_Mutation_p.Y543H|TUBGCP3_uc001vsf.2_Missense_Mutation_p.Y553H	NM_006322	NP_006313	Q96CW5	GCP3_HUMAN	tubulin, gamma complex associated protein 3	553					G2/M transition of mitotic cell cycle|microtubule nucleation|single fertilization	centriole|cytosol|polar microtubule	gamma-tubulin binding|structural constituent of cytoskeleton			central_nervous_system(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)					AGCAAGCTGTACTTTTTATTG	0.428													5	181					0	0	0.000602	0	0		G	113176722	G	G	113176722	3	3	105	1	0	0	0	0	1	0	0	0	16793	391	14	3	1102	3	TUBGCP3	13	113176722	Missense_Mutation	SNP	A	TCGA-CD-5799-01A-11D-1600-08		113176722	1993156	31	64141											
MCF2L	23263	broad.mit.edu	37	chr13	113742712	113742712	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaccagccagctgcaggcTtgtagaggtgaggctgtctt	7	10	14	10	0	1	3	0	2	1	1	1	3	1	3	2	3	3	5	2	3	1	3			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr13:113742712T>C	uc001vsu.2	+	24	2953	c.2931T>C	c.(2929-2931)GCT>GCC	p.A977A	MCF2L_uc001vsq.2_Silent_p.A977A|MCF2L_uc010tjr.1_Silent_p.A920A|MCF2L_uc001vsr.2_Silent_p.A924A|MCF2L_uc001vss.3_Silent_p.A918A|MCF2L_uc010tjs.1_Silent_p.A918A	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	950					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				AGCTGCAGGCTTGTAGAGGTG	0.547													3	106					0	0	0.004672	0	0		C	113742712	C	C	113742712	2	2	105	1	0	0	0	0	0	0	0	1	9397	1596	56	3		3	MCF2L	13	113742712	Silent	SNP	T	TCGA-CD-5799-01A-11D-1600-08	565990	113742712	1427166	32	64142											
GABRB3	2562	broad.mit.edu	37	chr15	26866506	26866506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggtgaagacggatcatgCggtttttcactgtcactcca	9	11	11	10	2	3	2	3	1	0	1	4	3	4	3	1	3	1	1	1	3	1	2			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr15:26866506C>T	uc001zaz.2	-	4	558	c.416G>A	c.(415-417)CGC>CAC	p.R139H	GABRB3_uc010uae.1_Missense_Mutation_p.R54H|GABRB3_uc001zba.2_Missense_Mutation_p.R139H|GABRB3_uc001zbb.2_Missense_Mutation_p.R195H|GABRB3_uc001zbc.2_RNA	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	139	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	ACGGATCATGCGGTTTTTCAC	0.488													68	138					0	0	0.01441	0	0		T	26866506	T	T	26866506	3	4	105	1	0	0	0	0	1	0	0	0	6182	768	27	1	1029	1	GABRB3	15	26866506	Missense_Mutation	SNP	C	TCGA-CD-5799-01A-11D-1600-08		26866506	75664886	33	64143											
OTUD7A	161725	broad.mit.edu	37	chr15	31818561	31818561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcacttaccccccgcccGtgccgccattcttgctgaag	6	8	9	18	3	1	1	0	1	1	0	1	1	1	1	6	0	4	3	6	0	2	3			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr15:31818561G>A	uc001zfq.2	-	6	956	c.863C>T	c.(862-864)ACG>ATG	p.T288M	OTUD7A_uc001zfr.2_Missense_Mutation_p.T295M	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	288	OTU.|Catalytic (By similarity).|TRAF-binding (By similarity).					cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		CCCCCCGCCCGTGCCGCCATT	0.672													3	6					0	0	0.004672	0	0		A	31818561	A	A	31818561	3	1	105	1	0	0	0	0	1	0	0	0	11337	1145	40	1	1941	1	OTUD7A	15	31818561	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	4952055	31818561	70712831	34	64144											
TTBK2	146057	broad.mit.edu	37	chr15	43102862	43102862	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagagatatggtctagaaAgatgctgaattctggaggga	15	9	14	3	0	2	5	0	1	2	4	2	8	2	7	0	3	1	1	0	3	5	3			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr15:43102862A>G	uc001zqo.2	-	9	1211	c.772T>C	c.(772-774)TTT>CTT	p.F258L	TTBK2_uc010bcy.2_Missense_Mutation_p.F189L|TTBK2_uc001zqp.2_Missense_Mutation_p.F258L|TTBK2_uc010bcz.1_Missense_Mutation_p.F223L	NM_173500	NP_775771	Q6IQ55	TTBK2_HUMAN	tau tubulin kinase 2	258	Protein kinase.				cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)		TGGTCTAGAAAGATGCTGAAT	0.393													6	151					0	0	0.001168	0	0		G	43102862	G	G	43102862	3	3	105	1	0	0	0	0	1	0	0	0	16703	72	3	3	2990	3	TTBK2	15	43102862	Missense_Mutation	SNP	A	TCGA-CD-5799-01A-11D-1600-08	11284301	43102862	59428530	35	64145											
FBN1	2200	broad.mit.edu	37	chr15	48787704	48787704	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggatccaaagtactttcaGaagaacattcacaaataaaa	19	10	5	7	0	2	2	2	0	0	2	3	3	3	3	1	1	2	1	1	1	7	5			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr15:48787704G>T	uc001zwx.1	-	21	2829	c.2501C>A	c.(2500-2502)TCT>TAT	p.S834Y		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	834	EGF-like 13; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		AGTACTTTCAGAAGAACATTC	0.348													6	444					0.00116845	0.00131055	0.001168	1	0		T	48787704	T	T	48787704	3	4	105	1	0	0	0	0	1	0	0	0	5716	942	33	5	6298	5	FBN1	15	48787704	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	5684842	48787704	53743688	36	64146											
AGBL1	123624	broad.mit.edu	37	chr15	86697783	86697783	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggctctgcgtgtgtttGcctccagtggtaagtgactc	4	14	13	10	1	2	1	0	1	2	0	4	1	3	1	2	2	2	3	2	2	1	2			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr15:86697783G>T	uc002blz.1	+	3	327	c.247G>T	c.(247-249)GCC>TCC	p.A83S		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	83					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						GCGTGTGTTTGCCTCCAGTGG	0.522													26	42					5.45727e-16	6.37962e-16	0.008361	1	0		T	86697783	T	T	86697783	3	4	105	1	0	0	0	0	1	0	0	0	375	1319	46	5	253	5	AGBL1	15	86697783	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	37910079	86697783	15833609	37	64147											
CDH1	999	broad.mit.edu	37	chr16	68847277	68847277	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacactgaaagtgactgAtgctgatgcccccaataccc	12	7	7	15	0	0	4	0	4	0	0	0	4	0	4	4	0	3	1	4	0	3	1			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr16:68847277A>T	uc002ewg.1	+	9	1323	c.1199A>T	c.(1198-1200)GAT>GTT	p.D400V	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Intron	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	400	Cadherin 3.|Extracellular (Potential).		Missing (in a gastric carcinoma sample; loss of heterozygosity).		adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.Y380_K440del(5)|p.T399fs*17(3)|p.D400del(1)|p.D400Y(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		AAAGTGACTGATGCTGATGCC	0.473			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				144	79					0	0	0.01441	0	0		T	68847277	T	T	68847277	3	4	105	1	0	0	0	0	1	0	0	0	3098	333	12	5	1233	5	CDH1	16	68847277	Missense_Mutation	SNP	A	TCGA-CD-5799-01A-11D-1600-08		68847277	21507476	38	64148											
TP53	7157	broad.mit.edu	37	chr17	7577538	7577538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggtgaggatgggcctcCggttcatgccgcccatgcag	6	9	15	11	2	1	2	1	2	0	0	2	3	2	3	4	4	2	2	4	4	0	1	rs11540652		TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr17:7577538C>T	uc002gim.2	-	7	937	c.743G>A	c.(742-744)CGG>CAG	p.R248Q	TP53_uc002gig.1_Missense_Mutation_p.R248Q|TP53_uc002gih.2_Missense_Mutation_p.R248Q|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R116Q|TP53_uc010cng.1_Missense_Mutation_p.R116Q|TP53_uc002gii.1_Missense_Mutation_p.R116Q|TP53_uc010cnh.1_Missense_Mutation_p.R248Q|TP53_uc010cni.1_Missense_Mutation_p.R248Q|TP53_uc002gij.2_Missense_Mutation_p.R248Q|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R155Q|TP53_uc002gio.2_Missense_Mutation_p.R116Q	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	248	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		R -> W (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|NR -> KW (in sporadic cancers; somatic mutation).|R -> C (in a sporadic cancer; somatic mutation).|NR -> IP (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R248Q(523)|p.R248W(443)|p.R248L(63)|p.R248P(12)|p.R248G(11)|p.R248R(10)|p.0?(7)|p.R155Q(4)|p.N247_R248delNR(2)|p.N247_R248>KW(2)|p.M246_P250delMNRRP(2)|p.R248fs*97(2)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.N247_P250delNRRP(1)|p.R249fs*96(1)|p.R248C(1)|p.G245fs*14(1)|p.N247_R248>IP(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GATGGGCCTCCGGTTCATGCC	0.572	R248Q(KASUMI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HS683_CENTRAL_NERVOUS_SYSTEM)|R248Q(NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HCC1143_BREAST)|R248Q(BL41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SKUT1_SOFT_TISSUE)|R248Q(HSC4_UPPER_AERODIGESTIVE_TRACT)|R248Q(HEC1A_ENDOMETRIUM)|R248Q(SF295_CENTRAL_NERVOUS_SYSTEM)|R248Q(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(WSUDLCL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIN87_STOMACH)|R248Q(P12ICHIKAWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(RT112_URINARY_TRACT)|R248Q(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PANC0203_PANCREAS)|R248Q(EM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(CI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(MOLM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NIHOVCAR3_OVARY)|R248Q(CA46_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SW1463_LARGE_INTESTINE)|R248Q(HCC70_BREAST)|R248Q(KYSE150_OESOPHAGUS)|R248Q(NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIH211_LUNG)|R248Q(KYO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PC14_LUNG)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			37	30					0	0	0.00623	0	0		T	7577538	T	T	7577538	3	4	105	1	0	0	0	0	1	0	0	0	16407	652	23	1	547	1	TP53	17	7577538	Missense_Mutation	SNP	C	TCGA-CD-5799-01A-11D-1600-08		7577538	73617672	39	64149											
KSR1	8844	broad.mit.edu	37	chr17	25936339	25936339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtttgggatctcaggcGtggtccgagagggacggtga	6	9	19	7	3	1	2	1	1	1	1	3	5	2	4	1	6	0	2	1	6	0	1			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr17:25936339G>A	uc010crg.2	+	17	2309	c.1864G>A	c.(1864-1866)GTG>ATG	p.V622M	KSR1_uc002gzm.2_Missense_Mutation_p.V401M|KSR1_uc002gzn.2_5'Flank	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	757	Protein kinase.				Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		GATCTCAGGCGTGGTCCGAGA	0.542													9	134					0	0	0.010729	0	0		A	25936339	A	A	25936339	3	1	105	1	0	0	0	0	1	0	0	0	8597	1145	40	1	1918	1	KSR1	17	25936339	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	18358801	25936339	55258871	40	64150											
CRYBA1	1411	broad.mit.edu	37	chr17	27581346	27581346	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagacttcgcagatccaatcGattcgccgaatccaacagta	13	8	7	13	4	0	2	0	0	0	2	5	4	2	2	3	0	1	2	3	0	4	3			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr17:27581346G>A	uc002hdw.2	+	6	634	c.627G>A	c.(625-627)TCG>TCA	p.S209S		NM_005208	NP_005199	P05813	CRBA1_HUMAN	crystallin, beta A3	209	Beta/gamma crystallin 'Greek key' 4.				visual perception	soluble fraction	structural constituent of eye lens				0			BRCA - Breast invasive adenocarcinoma(11;3.3e-05)|Colorectal(6;0.0178)|COAD - Colon adenocarcinoma(6;0.0551)			AGATCCAATCGATTCGCCGAA	0.438													33	157					0	0	0.010818	0	0		A	27581346	A	A	27581346	2	1	105	1	0	0	0	0	0	0	0	1	3910	1045	37	1		1	CRYBA1	17	27581346	Silent	SNP	G	TCGA-CD-5799-01A-11D-1600-08	1645007	27581346	53613864	41	64151											
EPB41L3	23136	broad.mit.edu	37	chr18	5438045	5438045	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaaatacctggtgatatcTtcagatagttgggcagggtc	10	13	11	7	0	3	2	2	1	1	1	4	2	3	2	1	3	1	2	1	3	4	6			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr18:5438045T>A	uc002kmt.1	-	6	680	c.594A>T	c.(592-594)GAA>GAT	p.E198D	EPB41L3_uc010wzh.1_Missense_Mutation_p.E198D|EPB41L3_uc002kmu.1_Missense_Mutation_p.E198D|EPB41L3_uc010dkq.1_Missense_Mutation_p.E89D|EPB41L3_uc010dks.1_Missense_Mutation_p.E220D|EPB41L3_uc002kmv.1_Missense_Mutation_p.E89D	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	198	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TGGTGATATCTTCAGATAGTT	0.408													52	66					0	0	0.01441	0	0		A	5438045	A	A	5438045	3	1	105	1	0	0	0	0	1	0	0	0	5162	1606	56	5	2737	5	EPB41L3	18	5438045	Missense_Mutation	SNP	T	TCGA-CD-5799-01A-11D-1600-08		5438045	72639203	42	64152											
SMAD4	4089	broad.mit.edu	37	chr18	48591917	48591931	+	In_Frame_Del	DEL	TCGCTTTTGTTTGGG	-	-																															gtggacccttctggaggagaTcgcttttgtttgggtcaact																								rs80338963	byFrequency	TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr18:48591917_48591931delTCGCTTTTGTTTGGG	uc010xdp.1	+	9	1618_1632	c.1080_1094delTCGCTTTTGTTTGGG	c.(1078-1095)GATCGCTTTTGTTTGGGT>GAT	p.RFCLG361del	SMAD4_uc002lfb.3_In_Frame_Del_p.RFCLG206del	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	361_365	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.R361C(6)|p.R361H(3)|p.?(2)|p.F362fs*2(1)|p.R361S(1)|p.C363R(1)|p.C363S(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		CTGGAGGAGATCGCTTTTGTTTGGGTCAACTCTCC	0.409									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				38	66	---	---	---	---						.	-	48591931	-	-	48591917	7	5	105	1	0	1	0	1	0	0	0	0	14785	1432	50	0	1110	0	SMAD4	18	48591917	In_Frame_Del	DEL	TCGCTTTTGTTTGGG	TCGA-CD-5799-01A-11D-1600-08	43153872	48591917	29485331	43	64153											
C3	718	broad.mit.edu	37	chr19	6710823	6710823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgggctctcgcacctggcGtcccgccttcaacagcctgc	4	7	11	19	4	2	0	1	0	1	0	4	0	3	0	5	2	3	2	5	2	1	1			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr19:6710823G>A	uc002mfm.2	-	13	1575	c.1513C>T	c.(1513-1515)CGC>TGC	p.R505C		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	505					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		CGCACCTGGCGTCCCGCCTTC	0.652													25	43					0	0	0.010818	0	0		A	6710823	A	A	6710823	3	1	105	1	0	0	0	0	1	0	0	0	2207	1145	40	1	3594	1	C3	19	6710823	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08		6710823	52418160	44	64154											
INSR	3643	broad.mit.edu	37	chr19	7132258	7132258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgcacgctgtagttccccGgtgacagcccacgcagcctg	6	8	11	16	4	0	1	0	1	0	0	2	1	1	1	4	1	2	5	4	1	1	3			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr19:7132258G>A	uc002mgd.1	-	14	2862	c.2753C>T	c.(2752-2754)CCG>CTG	p.P918L	INSR_uc002mge.1_Missense_Mutation_p.P906L	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	918	Fibronectin type-III 3.|Extracellular (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GTAGTTCCCCGGTGACAGCCC	0.607													4	42					0	0	0.009096	0	0		A	7132258	A	A	7132258	3	1	105	1	0	0	0	0	1	0	0	0	7789	1116	39	1	1431	1	INSR	19	7132258	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	421435	7132258	51996725	45	64155											
COL5A3	50509	broad.mit.edu	37	chr19	10100039	10100039	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccctcatgtcctgggtGaccctggggaagaaacattc	8	8	14	11	0	1	2	1	1	0	1	3	3	2	3	3	5	1	0	3	5	2	1			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr19:10100039G>T	uc002mmq.1	-	26	2136	c.2050C>A	c.(2050-2052)CAC>AAC	p.H684N		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	684	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			TGTCCTGGGTGACCCTGGGGA	0.582													37	49					1.58521e-26	1.90684e-26	0.005524	1	0		T	10100039	T	T	10100039	3	4	105	1	0	0	0	0	1	0	0	0	3701	1290	45	5	3355	5	COL5A3	19	10100039	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	2967781	10100039	49028944	46	64156											
ZNF257	113835	broad.mit.edu	37	chr19	22271685	22271685	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctacaaatgtgaagagtgtgGaaaagcctttaaccggtctt	13	11	10	7	1	1	2	0	1	1	1	1	3	1	3	2	2	3	0	2	2	6	4			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr19:22271685G>C	uc010ecx.2	+	4	1302	c.1133G>C	c.(1132-1134)GGA>GCA	p.G378A	ZNF257_uc010ecy.2_Missense_Mutation_p.G346A	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	378	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				GAAGAGTGTGGAAAAGCCTTT	0.373													11	48					0	0	0.008291	0	0		C	22271685	C	C	22271685	3	2	105	1	0	0	0	0	1	0	0	0	17825	1174	41	5	1147	5	ZNF257	19	22271685	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	12171646	22271685	36857298	47	64157											
TSKS	60385	broad.mit.edu	37	chr19	50249743	50249743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctcagctcttcgatgcCggtgaacagcttctgcaatt	8	11	8	14	2	3	1	1	1	2	0	4	2	3	1	3	1	5	3	3	1	2	3			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr19:50249743C>T	uc002ppm.2	-	6	987	c.976G>A	c.(976-978)GGC>AGC	p.G326S		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	326							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		TCTTCGATGCCGGTGAACAGC	0.697													4	38					0	0	0.000602	0	0		T	50249743	T	T	50249743	3	4	105	1	0	0	0	0	1	0	0	0	16652	652	23	1	826	1	TSKS	19	50249743	Missense_Mutation	SNP	C	TCGA-CD-5799-01A-11D-1600-08	27978058	50249743	8879240	48	64158											
AURKC	6795	broad.mit.edu	37	chr19	57746374	57746374	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatgagctgctggtgggatAtccaccctttgagagcgcct	7	11	12	11	1	0	2	0	2	0	1	1	4	1	3	3	2	3	2	3	2	2	3			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr19:57746374A>T	uc002qoe.2	+	6	896	c.707A>T	c.(706-708)TAT>TTT	p.Y236F	AURKC_uc002qoc.2_Missense_Mutation_p.Y217F|AURKC_uc002qod.2_Missense_Mutation_p.Y202F|AURKC_uc010etv.2_Missense_Mutation_p.Y233F	NM_001015878	NP_001015878	Q9UQB9	AURKC_HUMAN	aurora kinase C isoform 1	236	Protein kinase.				cell cycle|cytokinesis	condensed chromosome|cytoplasm|midbody|spindle midzone	ATP binding|protein serine/threonine kinase activity			lung(4)|ovary(2)	6		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0122)		CTGGTGGGATATCCACCCTTT	0.527													10	63					0	0	0.008291	0	0		T	57746374	T	T	57746374	3	4	105	1	0	0	0	0	1	0	0	0	1225	449	16	5	734	5	AURKC	19	57746374	Missense_Mutation	SNP	A	TCGA-CD-5799-01A-11D-1600-08	7496631	57746374	1382609	49	64159											
C20orf177	63939	broad.mit.edu	37	chr20	58519694	58519694	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaattgctagtgctctgtcCaagccactacctcaccagga	10	10	7	14	0	2	0	1	0	1	0	3	1	3	1	4	1	4	2	4	1	4	4			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr20:58519694C>A	uc002yba.2	+	5	1111	c.696C>A	c.(694-696)TCC>TCA	p.S232S	C20orf177_uc010zzx.1_Silent_p.S75S|C20orf177_uc002ybc.2_Silent_p.S232S	NM_022106	NP_071389	Q9NTX9	CT177_HUMAN	hypothetical protein LOC63939	232										ovary(2)|breast(1)	3	all_lung(29;0.00693)		BRCA - Breast invasive adenocarcinoma(7;1.22e-08)			GTGCTCTGTCCAAGCCACTAC	0.522													4	77					0.000147802	0.000170383	0.00632	1	0		A	58519694	A	A	58519694	2	1	105	1	0	0	0	0	0	0	0	1	2099	581	21	5		5	C20orf177	20	58519694	Silent	SNP	C	TCGA-CD-5799-01A-11D-1600-08		58519694	4505826	50	64160											
PRPF6	24148	broad.mit.edu	37	chr20	62658497	62658497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggagaaggcgcgggaaGcctataaccagggggtacgt	11	6	17	7	3	0	2	0	1	0	1	0	4	0	3	2	5	3	1	2	5	5	3			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr20:62658497G>A	uc002yho.2	+	16	2359	c.2191G>A	c.(2191-2193)GCC>ACC	p.A731T	PRPF6_uc002yhp.2_Missense_Mutation_p.A691T	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	731	HAT 8.				assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					GGCGCGGGAAGCCTATAACCA	0.617													5	36					0	0	0.000602	0	0		A	62658497	A	A	62658497	3	1	105	1	0	0	0	0	1	0	0	0	12596	971	34	2	2253	2	PRPF6	20	62658497	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08	4138803	62658497	367023	51	64161											
TIAM1	7074	broad.mit.edu	37	chr21	32493037	32493037	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtcagtgtccccaccaccGgggggctgctgggactcttt	4	9	14	14	2	2	0	1	0	1	0	3	1	3	1	4	5	1	2	4	5	0	1			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr21:32493037G>A	uc002yow.1	-	29	4897	c.4425C>T	c.(4423-4425)CCC>CCT	p.P1475P	TIAM1_uc011adk.1_3'UTR|TIAM1_uc011adl.1_Silent_p.P1415P	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1475					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CCCCACCACCGGGGGGCTGCT	0.572													31	72					0	0	0.005524	0	0		A	32493037	A	A	32493037	2	1	105	1	0	0	0	0	0	0	0	1	15915	1103	39	1		1	TIAM1	21	32493037	Silent	SNP	G	TCGA-CD-5799-01A-11D-1600-08		32493037	15636858	52	64162											
SFRS15	57466	broad.mit.edu	37	chr21	33044158	33044158	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaaaagatcttcttccaaAcctttcttggtctctacctg	9	15	4	13	0	4	1	0	0	4	1	7	1	6	1	4	1	2	0	4	1	4	5			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr21:33044158A>C	uc002ypd.2	-	20	3424	c.2998T>G	c.(2998-3000)TTT>GTT	p.F1000V	SFRS15_uc002ype.2_Missense_Mutation_p.F978V|SFRS15_uc010glu.2_Missense_Mutation_p.F985V	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	1000						nucleus	nucleotide binding|RNA binding				0						CTTCTTCCAAACCTTTCTTGG	0.443													15	367					0	0	0.003163	0	0		C	33044158	C	C	33044158	3	2	105	1	0	0	0	0	1	0	0	0	14196	43	2	5	449	5	SFRS15	21	33044158	Missense_Mutation	SNP	A	TCGA-CD-5799-01A-11D-1600-08	551121	33044158	15085737	53	64163											
GTPBP1	9567	broad.mit.edu	37	chr22	39122390	39122390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaatccatccatcgcaagcGcatgcctgtcaaggaggtgc	11	7	10	13	2	1	0	1	0	0	0	4	1	3	1	3	2	3	2	3	2	3	0			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chr22:39122390G>A	uc003awg.2	+	8	1500	c.1346G>A	c.(1345-1347)CGC>CAC	p.R449H		NM_004286	NP_004277	O00178	GTPB1_HUMAN	GTP binding protein 1	449					immune response|positive regulation of mRNA catabolic process|signal transduction	cytoplasmic exosome (RNase complex)|cytosol	GTP binding|GTPase activity			ovary(1)	1	Melanoma(58;0.04)					CATCGCAAGCGCATGCCTGTC	0.552													3	66					0	0	0.004672	0	0		A	39122390	A	A	39122390	3	1	105	1	0	0	0	0	1	0	0	0	6894	1087	38	1	1376	1	GTPBP1	22	39122390	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08		39122390	12182176	54	64164											
SSX1	6756	broad.mit.edu	37	chrX	48116745	48116745	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatcagagaagagaagcaaGgtgacgtgacctggaggggg	13	4	18	6	1	1	4	1	2	0	2	1	7	1	5	1	4	1	2	1	4	3	0			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chrX:48116745G>T	uc004djb.1	+	2	160	c.69G>T	c.(67-69)AAG>AAT	p.K23N		NM_005635	NP_005626	Q16384	SSX1_HUMAN	synovial sarcoma, X breakpoint 1	23	KRAB-related.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|transcription corepressor activity		SS18/SSX1(1169)	soft_tissue(1169)	1169						AGAGAAGCAAGGTGACGTGAC	0.562													3	33					0.004672	0.00517035	0.004672	1	0		T	48116745	T	T	48116745	3	4	105	1	0	0	0	0	1	0	0	0	15228	1014	35	5	71	5	SSX1	23	48116745	Missense_Mutation	SNP	G	TCGA-CD-5799-01A-11D-1600-08		48116745	107153815	55	64165											
SERPINA7	6906	broad.mit.edu	37	chrX	105279201	105279201	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggaagaacaaagagtgcCagagcattcttgctgtagtc	12	10	12	7	0	1	3	0	0	1	3	2	4	1	4	1	1	4	3	1	1	4	4			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chrX:105279201C>T	uc004eme.1	-	2	814	c.798G>A	c.(796-798)CTG>CTA	p.L266L	SERPINA7_uc010npd.2_Silent_p.L266L|SERPINA7_uc010npe.1_Silent_p.L266L	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	266					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	CAAAGAGTGCCAGAGCATTCT	0.463													12	195					0	0	0.010729	0	0		T	105279201	T	T	105279201	2	4	105	1	0	0	0	0	0	0	0	1	14119	581	21	4		4	SERPINA7	23	105279201	Silent	SNP	C	TCGA-CD-5799-01A-11D-1600-08	57162456	105279201	49991359	56	64166											
MAGEC1	9947	broad.mit.edu	37	chrX	140995215	140995215	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatgcactcccaatctccTctccagagtcctgagagtgc	8	9	10	14	0	2	2	0	1	2	2	6	4	4	3	4	1	2	1	4	1	1	0			TCGA-CD-5799-01A-11D-1600-08	TCGA-CD-5799-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb59b79f-bd36-4bf4-83e3-2af73bd1d30a	14228088-eadd-469e-890d-586176daf99f	g.chrX:140995215T>A	uc004fbt.2	+	4	2311	c.2025T>A	c.(2023-2025)CCT>CCA	p.P675P	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	675							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CCCAATCTCCTCTCCAGAGTC	0.572										HNSCC(15;0.026)			11	188					0	0	0.008291	0	0		A	140995215	A	A	140995215	2	1	105	1	0	0	0	0	0	0	0	1	9198	1538	54	5		5	MAGEC1	23	140995215	Silent	SNP	T	TCGA-CD-5799-01A-11D-1600-08	35716014	140995215	14275345	57	64167											
S100PBP	64766	broad.mit.edu	37	chr1	33291908	33291908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggaagatgacccatcatatGagcagtcttctggggaagat	13	9	12	7	0	3	4	1	2	2	2	3	6	3	6	1	3	1	1	1	3	3	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:33291908G>A	uc001bvz.2	+	3	485	c.208G>A	c.(208-210)GAG>AAG	p.E70K	S100PBP_uc001bwa.1_Missense_Mutation_p.E70K|S100PBP_uc001bwb.1_Missense_Mutation_p.E70K|S100PBP_uc001bwc.2_Missense_Mutation_p.E70K|S100PBP_uc001bwd.2_RNA	NM_022753	NP_073590	Q96BU1	S1PBP_HUMAN	S100P binding protein isoform a	70						nucleus	calcium-dependent protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				CCCATCATATGAGCAGTCTTC	0.453													8	99					0	0	0.00308	0	0		A	33291908	A	A	33291908	3	1	106	1	0	0	0	0	1	0	0	0	13816	1291	45	4	210	4	S100PBP	1	33291908	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08		33291908	215958713	1	64168											
MAP7D1	55700	broad.mit.edu	37	chr1	36645160	36645160	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaacggttccagcccaggTaaagcccccattcctctcgc	8	7	8	18	2	1	0	0	0	1	0	4	0	3	0	6	2	3	2	6	2	3	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:36645160T>C	uc001bzz.2	+	14	2446	c.2230_splice	c.e14+2	p.E744_splice	MAP7D1_uc001caa.2_Splice_Site_p.E711_splice|MAP7D1_uc001cab.2_Splice_Site_p.E706_splice|MAP7D1_uc001cac.2_Splice_Site_p.E443_splice|MAP7D1_uc001cad.2_Splice_Site_p.E280_splice	NM_018067	NP_060537	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1							cytoplasm|spindle				ovary(3)|breast(2)	5		Myeloproliferative disorder(586;0.0393)				CCAGCCCAGGTAAAGccccca	0.388													2	3					0	0	0.004672	0	0		C	36645160	C	C	36645160	5	2	106	1	0	0	0	0	0	0	1	0	9285	1652	57	3	2286	3	MAP7D1	1	36645160	Splice_Site	SNP	T	TCGA-CD-5800-01A-11D-1600-08	3353252	36645160	212605461	2	64169											
STK40	83931	broad.mit.edu	37	chr1	36807526	36807526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccagcagcagctgctgacGcatgtagttctcaaactcgt	9	9	11	12	2	1	1	1	1	1	0	3	1	1	1	1	1	5	7	1	1	2	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:36807526G>A	uc001cak.1	-	12	1545	c.1138C>T	c.(1138-1140)CGT>TGT	p.R380C	STK40_uc001cal.1_Missense_Mutation_p.R385C|STK40_uc001cam.1_Missense_Mutation_p.R380C|STK40_uc009vva.1_3'UTR|STK40_uc001can.1_3'UTR	NM_032017	NP_114406	Q8N2I9	STK40_HUMAN	serine/threonine kinase 40	380						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1		Myeloproliferative disorder(586;0.0393)				AGCTGCTGACGCATGTAGTTC	0.612													4	21					0	0	0.009096	0	0		A	36807526	A	A	36807526	3	1	106	1	0	0	0	0	1	0	0	0	15332	1087	38	1	173	1	STK40	1	36807526	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	162366	36807526	212443095	3	64170											
GLIS1	148979	broad.mit.edu	37	chr1	54059815	54059815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttctcgcccgagtgcactCgcatgtggatgagcagcttg	6	10	13	12	3	1	1	0	1	1	0	3	3	1	2	1	1	3	5	1	1	0	2	rs145199173		TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:54059815C>T	uc001cvr.1	-	3	1328	c.761G>A	c.(760-762)CGA>CAA	p.R254Q		NM_147193	NP_671726	Q8NBF1	GLIS1_HUMAN	GLIS family zinc finger 1	254	C2H2-type 2; atypical.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			skin(1)	1						CGAGTGCACTCGCATGTGGAT	0.652													3	28					0	0	0.004672	0	0		T	54059815	T	T	54059815	3	4	106	1	0	0	0	0	1	0	0	0	6460	884	31	1	1133	1	GLIS1	1	54059815	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	17252289	54059815	195190806	4	64171											
DIRAS3	9077	broad.mit.edu	37	chr1	68512693	68512693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcagagcgcggttgccGtcgccactcttgctgtcggt	3	10	14	14	6	1	1	0	0	1	1	3	1	1	1	2	2	4	4	2	2	0	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:68512693G>A	uc001ded.2	-	2	583	c.288C>T	c.(286-288)GAC>GAT	p.D96D	uc001deb.1_Intron|uc001dec.1_Intron	NM_004675	NP_004666	O95661	DIRA3_HUMAN	DIRAS family, GTP-binding RAS-like 3	96					regulation of cyclin-dependent protein kinase activity|regulation of gene expression by genetic imprinting|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						CGCGGTTGCCGTCGCCACTCT	0.592													16	165					0	0	0.006122	0	0		A	68512693	A	A	68512693	2	1	106	1	0	0	0	0	0	0	0	1	4538	1136	40	1		1	DIRAS3	1	68512693	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	14452878	68512693	180737928	5	64172											
ELTD1	64123	broad.mit.edu	37	chr1	79386012	79386012	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgcatatggcaagacaaatCagtgaaataattattcctag	17	11	7	6	0	1	2	1	1	0	1	2	2	2	2	1	1	1	2	1	1	7	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:79386012C>T	uc001diq.3	-	10	1473	c.1317G>A	c.(1315-1317)CTG>CTA	p.L439L		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	439	Helical; Name=1; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		CAAGACAAATCAGTGAAATAA	0.308													18	73					0	0	0.006122	0	0		T	79386012	T	T	79386012	2	4	106	1	0	0	0	0	0	0	0	1	5092	813	29	4		4	ELTD1	1	79386012	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	10873319	79386012	169864609	6	64173											
VAV3	10451	broad.mit.edu	37	chr1	108152584	108152584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaataatctactggtttggGcacctaggatataaaaaagc	16	10	9	6	0	1	1	0	0	1	1	1	2	1	2	1	3	2	2	1	3	8	6			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:108152584G>A	uc001dvk.1	-	22	2038	c.1984C>T	c.(1984-1986)CCC>TCC	p.P662S	VAV3_uc010ouu.1_Missense_Mutation_p.P66S|VAV3_uc001dvj.1_Missense_Mutation_p.P102S|VAV3_uc010ouv.1_Missense_Mutation_p.P66S|VAV3_uc010ouw.1_Missense_Mutation_p.P662S	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	662					angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		ACTGGTTTGGGCACCTAGGAT	0.348													7	75					0	0	0.001984	0	0		A	108152584	A	A	108152584	3	1	106	1	0	0	0	0	1	0	0	0	17159	1203	42	2	583	2	VAV3	1	108152584	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	28766572	108152584	141098037	7	64174											
TTF2	8458	broad.mit.edu	37	chr1	117618400	117618400	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagaaaggtgtctcctgcCtcaggtgtttccaagaaggt	11	10	11	9	0	2	2	1	0	1	2	4	2	3	2	3	3	1	1	3	3	4	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:117618400C>T	uc001egy.2	+	5	1214	c.1194C>T	c.(1192-1194)GCC>GCT	p.A398A	TTF2_uc001egx.1_Silent_p.A398A	NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	398					mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		TGTCTCCTGCCTCAGGTGTTT	0.493													8	31					0	0	0.006214	0	0		T	117618400	T	T	117618400	2	4	106	1	0	0	0	0	0	0	0	1	16745	668	24	4		4	TTF2	1	117618400	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	9465816	117618400	131632221	8	64175											
DENND4B	9909	broad.mit.edu	37	chr1	153914789	153914789	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgggcactgactcgggcagCgggaacgcctcattgtcctc	7	7	13	14	4	1	1	1	1	0	0	4	2	2	2	2	3	2	2	2	3	1	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:153914789C>T	uc001fdd.1	-	5	1085	c.684G>A	c.(682-684)CCG>CCA	p.P228P		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	228	UDENN.									ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			ACTCGGGCAGCGGGAACGCCT	0.637													6	37					0	0	0.001168	0	0		T	153914789	T	T	153914789	2	4	106	1	0	0	0	0	0	0	0	1	4440	755	27	1		1	DENND4B	1	153914789	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	36296389	153914789	95335832	9	64176											
HSPA6	3310	broad.mit.edu	37	chr1	161495096	161495096	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggttctctccattgacgcTggtgtctttgaggtgaaagc	6	14	12	9	2	2	3	0	3	2	0	5	3	3	3	1	3	1	2	1	3	1	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:161495096T>C	uc001gap.2	+	2	1308	c.648T>C	c.(646-648)GCT>GCC	p.A216A	HSPA6_uc001gaq.2_Silent_p.A216A	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	216					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			CCATTGACGCTGGTGTCTTTG	0.597													4	51					0	0	0.009096	0	0		C	161495096	C	C	161495096	2	2	106	1	0	0	0	0	0	0	0	1	7431	1567	55	3		3	HSPA6	1	161495096	Silent	SNP	T	TCGA-CD-5800-01A-11D-1600-08	7580307	161495096	87755525	10	64177											
TIPRL	261726	broad.mit.edu	37	chr1	168169139	168169139	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatgatttatgtatttcctAgcatgttccaccttccctct	8	18	4	11	0	1	1	0	1	1	0	4	1	4	1	4	0	1	3	4	0	4	8			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:168169139A>G	uc001gfg.2	+	7	821	c.676_splice	c.e7-2	p.H226_splice	TIPRL_uc001gfh.2_Splice_Site_p.T227_splice	NM_152902	NP_690866	O75663	TIPRL_HUMAN	TIP41, TOR signalling pathway regulator-like						DNA damage checkpoint|negative regulation of protein phosphatase type 2A activity	cytoplasm	protein binding			ovary(1)	1	all_hematologic(923;0.215)					TGTATTTCCTAGCATGTTCCA	0.313													5	66					0	0	0.000602	0	0		G	168169139	G	G	168169139	5	3	106	1	0	0	0	0	0	0	1	0	15951	434	15	3	725	3	TIPRL	1	168169139	Splice_Site	SNP	A	TCGA-CD-5800-01A-11D-1600-08	6674043	168169139	81081482	11	64178											
RABGAP1L	9910	broad.mit.edu	37	chr1	174606593	174606593	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactttaaagatactggaggAgatggtcaagaatcgctcta	14	11	10	6	1	2	3	1	0	1	3	3	5	2	4	0	3	2	1	0	3	7	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:174606593A>T	uc001gjx.2	+	14	1986	c.1791A>T	c.(1789-1791)GGA>GGT	p.G597G		NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	597	Rab-GAP TBC.				regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						ATACTGGAGGAGATGGTCAAG	0.363													7	100					0	0	0.001984	0	0		T	174606593	T	T	174606593	2	4	106	1	0	0	0	0	0	0	0	1	12990	291	11	5		5	RABGAP1L	1	174606593	Silent	SNP	A	TCGA-CD-5800-01A-11D-1600-08	6437454	174606593	74644028	12	64179											
CEP350	9857	broad.mit.edu	37	chr1	179989418	179989418	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacagctgcttctttgtccAgcagaattgaaagtgaagcc	12	10	9	10	0	1	3	0	2	1	1	2	3	2	3	2	0	5	3	2	0	4	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:179989418A>C	uc001gnt.2	+	12	2892	c.2509A>C	c.(2509-2511)AGC>CGC	p.S837R	CEP350_uc009wxl.2_Missense_Mutation_p.S836R|CEP350_uc001gnu.2_Missense_Mutation_p.S671R	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	837						centrosome|nucleus|spindle				ovary(4)	4						TTCTTTGTCCAGCAGAATTGA	0.443													17	224					0	0	0.004007	0	0		C	179989418	C	C	179989418	3	2	106	1	0	0	0	0	1	0	0	0	3257	188	7	5	2551	5	CEP350	1	179989418	Missense_Mutation	SNP	A	TCGA-CD-5800-01A-11D-1600-08	5382825	179989418	69261203	13	64180											
ASPM	259266	broad.mit.edu	37	chr1	197112225	197112225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggataaaataggattaactGactctgattctagatcctga	14	12	9	6	0	2	4	0	3	2	1	3	6	3	6	1	2	1	0	1	2	5	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:197112225G>A	uc001gtu.2	-	3	1414	c.1157C>T	c.(1156-1158)TCA>TTA	p.S386L	ASPM_uc001gtv.2_Missense_Mutation_p.S386L|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	386					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						AGGATTAACTGACTCTGATTC	0.279													9	77					0	0	0.008291	0	0		A	197112225	A	A	197112225	3	1	106	1	0	0	0	0	1	0	0	0	1057	1294	45	4	9380	4	ASPM	1	197112225	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	17122807	197112225	52138396	14	64181											
WDR64	128025	broad.mit.edu	37	chr1	241959588	241959588	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccactagtctaagatttctTccactgattggcgtagaagc	10	12	8	11	1	2	3	0	1	2	2	3	3	3	3	2	1	1	1	2	1	4	6			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr1:241959588T>A	uc001hzf.1	+	16	1890	c.1737T>A	c.(1735-1737)CTT>CTA	p.L579L	WDR64_uc001hzg.1_Silent_p.L492L	NM_144625	NP_653226	B1ANS9	WDR64_HUMAN	WD repeat domain 64	1026										skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			TAAGATTTCTTCCACTGATTG	0.398													8	53					0	0	0.006214	0	0		A	241959588	A	A	241959588	2	1	106	1	0	0	0	0	0	0	0	1	17341	1770	62	5		5	WDR64	1	241959588	Silent	SNP	T	TCGA-CD-5800-01A-11D-1600-08	44847363	241959588	7291033	15	64182											
PPM1B	5495	broad.mit.edu	37	chr2	44428441	44428441	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gcatgcaaggatggagagtgGaaatggaagatgcacacaca	16	5	14	6	0	0	2	0	0	0	2	0	6	0	5	0	4	2	3	0	4	3	0			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr2:44428441G>C	uc002rtt.2	+	2	531	c.103G>C	c.(103-105)GAA>CAA	p.E35Q	PPM1B_uc002rts.2_Missense_Mutation_p.E35Q|PPM1B_uc002rtu.2_Missense_Mutation_p.E35Q|PPM1B_uc002rtv.2_Intron|PPM1B_uc002rtw.2_Missense_Mutation_p.E35Q|PPM1B_uc002rtx.2_Missense_Mutation_p.E35Q	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	35					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				ATGGAGAGTGGAAATGGAAGA	0.463													17	212					0	0	0.00499	0	0		C	44428441	C	C	44428441	3	2	106	1	0	0	0	0	1	0	0	0	12358	1175	41	5	105	5	PPM1B	2	44428441	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08		44428441	198770932	16	64183											
PROM2	150696	broad.mit.edu	37	chr2	95952270	95952270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctgcaggaggaggcccaagGactcagaaaccttcaccagg	12	4	13	12	0	2	1	2	0	0	1	2	4	2	4	3	5	2	2	3	5	2	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr2:95952270G>A	uc002suh.1	+	17	2124	c.1991G>A	c.(1990-1992)GGA>GAA	p.G664E	PROM2_uc002sui.2_Missense_Mutation_p.G664E|PROM2_uc002suj.2_Missense_Mutation_p.G318E|PROM2_uc002suk.2_Missense_Mutation_p.G664E|PROM2_uc002sul.2_Missense_Mutation_p.G190E|PROM2_uc002sum.2_RNA	NM_144707	NP_653308	Q8N271	PROM2_HUMAN	prominin 2 precursor	664	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|cilium membrane|integral to membrane|microvillus membrane				ovary(1)	1						GAGGCCCAAGGACTCAGAAAC	0.627													4	41					0	0	0.000602	0	0		A	95952270	A	A	95952270	3	1	106	1	0	0	0	0	1	0	0	0	12578	1174	41	4	2057	4	PROM2	2	95952270	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	51523829	95952270	147247103	17	64184											
LONRF2	164832	broad.mit.edu	37	chr2	100912008	100912008	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgttaaagtttctgcttGccaataactgtaacaaaaaa	16	14	5	6	0	1	0	0	0	1	0	1	0	1	0	1	0	4	4	1	0	9	6			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr2:100912008G>T	uc002tal.3	-	8	2124	c.1484C>A	c.(1483-1485)GCA>GAA	p.A495E	LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	495					proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						GTTTCTGCTTGCCAATAACTG	0.368													21	80					2.54575e-18	2.76432e-18	0.010504	1	0		T	100912008	T	T	100912008	3	4	106	1	0	0	0	0	1	0	0	0	8913	1319	46	5	800	5	LONRF2	2	100912008	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	4959738	100912008	142287365	18	64185											
DPP10	57628	broad.mit.edu	37	chr2	116538567	116538567	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatttcttattattctgTgaaggtaagataatacatga	15	15	6	5	0	2	3	0	2	2	1	2	3	2	3	0	1	2	1	0	1	7	7			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr2:116538567T>C	uc002tla.1	+	16	1936	c.1479T>C	c.(1477-1479)TGT>TGC	p.C493C	DPP10_uc002tlb.1_Silent_p.C443C|DPP10_uc002tlc.1_Silent_p.C489C|DPP10_uc002tle.2_Silent_p.C497C|DPP10_uc002tlf.1_Silent_p.C486C	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	493	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TATTATTCTGTGAAGGTAAGA	0.279													27	55					0	0	0.005443	0	0		C	116538567	C	C	116538567	2	2	106	1	0	0	0	0	0	0	0	1	4733	1702	59	3		3	DPP10	2	116538567	Silent	SNP	T	TCGA-CD-5800-01A-11D-1600-08	15626559	116538567	126660806	19	64186											
KCNJ3	3760	broad.mit.edu	37	chr2	155566118	155566118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgtgtgcttgtctagtctCggcagacacctgagggtgag	6	12	14	9	1	3	3	0	2	3	1	4	3	3	3	1	2	1	2	1	2	1	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr2:155566118C>T	uc002tyv.1	+	2	901	c.706C>T	c.(706-708)CGG>TGG	p.R236W	KCNJ3_uc010zce.1_Intron	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	236	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	TGTCTAGTCTCGGCAGACACC	0.453													9	53					0	0	0.004482	0	0		T	155566118	T	T	155566118	3	4	106	1	0	0	0	0	1	0	0	0	8068	875	31	1	712	1	KCNJ3	2	155566118	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	39027551	155566118	87633255	20	64187											
SCN1A	6323	broad.mit.edu	37	chr2	166847826	166847826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aattggctttgtcacccggtCataggaaggtggacaagctg	10	10	13	8	1	2	0	2	0	0	0	2	2	2	2	1	5	1	2	1	5	4	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr2:166847826C>T	uc010zcz.1	-	26	5944	c.5926G>A	c.(5926-5928)GAC>AAC	p.D1976N		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1987						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GTCACCCGGTCATAGGAAGGT	0.343													8	47					0	0	0.00308	0	0		T	166847826	T	T	166847826	3	4	106	1	0	0	0	0	1	0	0	0	13939	826	29	4	74	4	SCN1A	2	166847826	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	11281708	166847826	76351547	21	64188											
XIRP2	129446	broad.mit.edu	37	chr2	168100087	168100087	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaagaaattaagggaaatGttaaaagaagtataaaatgt	22	10	8	1	0	1	2	1	0	0	2	1	3	1	3	0	1	0	2	0	1	10	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr2:168100087G>T	uc002udx.2	+	8	2203	c.2185G>T	c.(2185-2187)GTT>TTT	p.V729F	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.V554F|XIRP2_uc010fpq.2_Missense_Mutation_p.V507F|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	554	Xin 6.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TAAGGGAAATGTTAAAAGAAG	0.363													10	56					0.000442599	0.000453137	0.006214	1	0		T	168100087	T	T	168100087	3	4	106	1	0	0	0	0	1	0	0	0	17456	1377	48	5	2215	5	XIRP2	2	168100087	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	1252261	168100087	75099286	22	64189											
TTN	7273	broad.mit.edu	37	chr2	179482993	179482993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgtttcttgcactcacaCggaataggtactcaactcct	9	13	6	13	1	4	0	2	0	2	0	5	1	5	1	1	2	3	3	1	2	4	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr2:179482993C>T	uc010zfg.1	-	201	39712	c.39488G>A	c.(39487-39489)CGT>CAT	p.R13163H	TTN_uc010zfh.1_Missense_Mutation_p.R6858H|TTN_uc010zfi.1_Missense_Mutation_p.R6791H|TTN_uc010zfj.1_Missense_Mutation_p.R6666H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14090							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGCACTCACACGGAATAGGTA	0.438													23	114					0	0	0.014323	0	0		T	179482993	T	T	179482993	3	4	106	1	0	0	0	0	1	0	0	0	16761	536	19	1	60945	1	TTN	2	179482993	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	11382906	179482993	63716380	23	64190											
ADAM23	8745	broad.mit.edu	37	chr2	207429756	207429756	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccagaatgtgactgcaCagaatcctggggtggctgca	10	8	14	9	0	0	3	0	1	0	2	1	4	1	4	2	4	2	3	2	4	2	0			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr2:207429756C>A	uc002vbq.2	+	14	1581	c.1358C>A	c.(1357-1359)ACA>AAA	p.T453K	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	453	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		TGTGACTGCACAGAATCCTGG	0.353													12	58					5.50884e-06	5.69423e-06	0.013537	1	0		A	207429756	A	A	207429756	3	1	106	1	0	0	0	0	1	0	0	0	245	478	17	5	1412	5	ADAM23	2	207429756	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	27946763	207429756	35769617	24	64191											
ITGA9	3680	broad.mit.edu	37	chr3	37845379	37845379	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggggtggatcatcgccatCagtttgttggtgggaatcct	6	13	15	7	1	2	0	2	0	0	0	4	2	3	2	2	5	0	2	2	5	1	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr3:37845379C>T	uc003chd.2	+	27	3008	c.2955C>T	c.(2953-2955)ATC>ATT	p.I985I		NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	985	Helical; (Potential).				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		TCATCGCCATCAGTTTGTTGG	0.557													5	68					0	0	0.000602	0	0		T	37845379	T	T	37845379	2	4	106	1	0	0	0	0	0	0	0	1	7899	816	29	4		4	ITGA9	3	37845379	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08		37845379	160177051	25	64192											
CCDC13	152206	broad.mit.edu	37	chr3	42788762	42788762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagaccttctgtgccatcCgcagctcctgcttcacagac	9	9	8	15	1	2	2	1	0	1	2	4	3	4	2	4	0	3	3	4	0	1	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr3:42788762C>T	uc003cly.3	-	6	791	c.707G>A	c.(706-708)CGG>CAG	p.R236Q	CCDC13_uc003clz.2_Missense_Mutation_p.R236Q|CCDC13_uc011azq.1_3'UTR	NM_144719	NP_653320	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13	236	Potential.									ovary(1)	1						CTGTGCCATCCGCAGCTCCTG	0.592													9	56					0	0	0.004482	0	0		T	42788762	T	T	42788762	3	4	106	1	0	0	0	0	1	0	0	0	2768	652	23	1	1484	1	CCDC13	3	42788762	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	4943383	42788762	155233668	26	64193											
KLHL18	23276	broad.mit.edu	37	chr3	47378200	47378200	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgtggaggcctacaacccGgagacagacacatggaccag	13	4	12	12	1	0	2	0	0	0	2	0	5	0	4	3	4	2	0	3	4	2	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr3:47378200G>A	uc003crd.2	+	7	1200	c.1074G>A	c.(1072-1074)CCG>CCA	p.P358P	KLHL18_uc003crc.2_Silent_p.P358P|KLHL18_uc011bav.1_Silent_p.P246P|KLHL18_uc010hjq.1_Silent_p.P214P	NM_025010	NP_079286	O94889	KLH18_HUMAN	kelch-like 18	358	Kelch 2.										0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)		CCTACAACCCGGAGACAGACA	0.597													11	48					0	0	0.008291	0	0		A	47378200	A	A	47378200	2	1	106	1	0	0	0	0	0	0	0	1	8389	1103	39	1		1	KLHL18	3	47378200	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	4589438	47378200	150644230	27	64194											
MAP4	4134	broad.mit.edu	37	chr3	47913507	47913507	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcaacagtctgagtgctCttggacccagatctggaggc	8	11	12	10	0	3	2	0	1	3	1	3	4	3	4	1	3	3	2	1	3	1	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr3:47913507C>A	uc003csb.2	-	11	2932	c.2406G>T	c.(2404-2406)AAG>AAT	p.K802N	MAP4_uc003csc.3_Missense_Mutation_p.K802N|MAP4_uc003crw.2_5'Flank|MAP4_uc003crx.2_Missense_Mutation_p.K62N|MAP4_uc011bbe.1_Missense_Mutation_p.K553N|MAP4_uc003cry.2_Missense_Mutation_p.K537N|MAP4_uc003csa.3_Missense_Mutation_p.K537N|MAP4_uc003crz.3_RNA|MAP4_uc003csd.2_Missense_Mutation_p.K537N	NM_002375	NP_002366	P27816	MAP4_HUMAN	microtubule-associated protein 4 isoform 1	802					negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000721)|KIRC - Kidney renal clear cell carcinoma(197;0.00641)|Kidney(197;0.00736)		TCTGAGTGCTCTTGGACCCAG	0.577													19	147					7.41877e-09	7.78066e-09	0.012319	1	0		A	47913507	A	A	47913507	3	1	106	1	0	0	0	0	1	0	0	0	9276	912	32	5	1239	5	MAP4	3	47913507	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	535307	47913507	150108923	28	64195											
C3orf63	23272	broad.mit.edu	37	chr3	56657367	56657367	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactatatcaatagaagttcTctcttcagaatcaaggtaag	15	13	6	7	0	5	2	3	0	2	2	6	2	5	2	0	1	1	2	0	1	9	7			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr3:56657367T>C	uc003did.3	-	23	4629	c.4528A>G	c.(4528-4530)AGA>GGA	p.R1510G	C3orf63_uc003dib.3_Missense_Mutation_p.R629G|C3orf63_uc003dic.3_Missense_Mutation_p.R1134G|C3orf63_uc003die.3_3'UTR	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	1571										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		ATAGAAGTTCTCTCTTCAGAA	0.318													5	63					0	0	0.000602	0	0		C	56657367	C	C	56657367	3	2	106	1	0	0	0	0	1	0	0	0	2242	1559	54	3	305	3	C3orf63	3	56657367	Missense_Mutation	SNP	T	TCGA-CD-5800-01A-11D-1600-08	8743860	56657367	141365063	29	64196											
PROS1	5627	broad.mit.edu	37	chr3	93646135	93646135	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacctccctggcttcttcttTattgcacagttcttcgatgc	5	16	7	13	1	3	0	0	0	3	0	5	2	4	0	2	1	2	3	2	1	1	7			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr3:93646135T>C	uc003drb.3	-	2	534	c.193A>G	c.(193-195)AAA>GAA	p.K65E	PROS1_uc010hoo.2_Translation_Start_Site|PROS1_uc003dqz.3_Translation_Start_Site	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	65	Gla.				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	GCTTCTTCTTTATTGCACAGT	0.413													32	66					0	0	0.012213	0	0		C	93646135	C	C	93646135	3	2	106	1	0	0	0	0	1	0	0	0	12580	1763	61	3	1893	3	PROS1	3	93646135	Missense_Mutation	SNP	T	TCGA-CD-5800-01A-11D-1600-08	36988768	93646135	104376295	30	64197											
EPHB1	2047	broad.mit.edu	37	chr3	134851754	134851754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggcagctgggcctgaCggagtgccgcgtctccatca	6	6	14	15	3	2	1	1	1	1	0	3	2	2	2	4	3	2	2	4	3	0	0	rs56396912		TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr3:134851754C>T	uc003eqt.2	+	5	1380	c.1160C>T	c.(1159-1161)ACG>ATG	p.T387M	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_3'UTR|EPHB1_uc003equ.2_Translation_Start_Site	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	387	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding	p.T387M(4)|p.T387T(1)		lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						CTGGGCCTGACGGAGTGCCGC	0.612													5	32					0	0	0.000602	0	0		T	134851754	T	T	134851754	3	4	106	1	0	0	0	0	1	0	0	0	5182	536	19	1	1178	1	EPHB1	3	134851754	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	41205619	134851754	63170676	31	64198											
NLGN1	22871	broad.mit.edu	37	chr3	173322864	173322864	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcctatatttaaatatatAtgtcccgactgaggatggtg	11	14	9	7	1	0	1	0	1	0	0	1	3	1	2	2	2	1	0	2	2	7	7			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr3:173322864A>G	uc003fio.1	+	3	899	c.476A>G	c.(475-477)TAT>TGT	p.Y159C	NLGN1_uc010hww.1_Missense_Mutation_p.Y159C|NLGN1_uc003fip.1_Missense_Mutation_p.Y159C	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	159	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TTAAATATATATGTCCCGACT	0.343													12	99					0	0	0.001855	0	0		G	173322864	G	G	173322864	3	3	106	1	0	0	0	0	1	0	0	0	10480	449	16	3	478	3	NLGN1	3	173322864	Missense_Mutation	SNP	A	TCGA-CD-5800-01A-11D-1600-08	38471110	173322864	24699566	32	64199											
PIK3CA	5290	broad.mit.edu	37	chr3	178937410	178937410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcaaacctgaacaggctatgGaacttctggactgtaattac	13	11	8	9	0	2	1	1	1	1	0	2	3	2	3	1	3	4	2	1	3	6	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr3:178937410G>A	uc003fjk.2	+	12	1955	c.1798G>A	c.(1798-1800)GAA>AAA	p.E600K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	600	PI3K helical.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			ACAGGCTATGGAACTTCTGGA	0.363		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			5	44					0	0	0.001168	0	0		A	178937410	A	A	178937410	3	1	106	1	0	0	0	0	1	0	0	0	11932	1175	41	4	1840	4	PIK3CA	3	178937410	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	5614546	178937410	19085020	33	64200											
SPON2	10417	broad.mit.edu	37	chr4	1165840	1165840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggccttgcccagggcggcgGccgggctggggttttccatc	2	8	18	13	3	0	0	0	0	0	0	2	0	1	0	4	7	1	2	4	7	0	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr4:1165840G>A	uc003gcn.3	-	1	47	c.20C>T	c.(19-21)GCC>GTC	p.A7V	SPON2_uc003gco.3_Missense_Mutation_p.A7V|SPON2_uc010ibr.2_Missense_Mutation_p.A7V|SPON2_uc003gcm.1_5'Flank	NM_012445	NP_036577	Q9BUD6	SPON2_HUMAN	spondin 2, extracellular matrix protein	7					axon guidance|cell adhesion|innate immune response	proteinaceous extracellular matrix	metal ion binding			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00805)	UCEC - Uterine corpus endometrioid carcinoma (64;0.139)|Colorectal(103;0.19)		CAGGGCGGCGGCCGGGCTGGG	0.726													6	24					0	0	0.001984	0	0		A	1165840	A	A	1165840	3	1	106	1	0	0	0	0	1	0	0	0	15108	1203	42	2	995	2	SPON2	4	1165840	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08		1165840	189988436	34	64201											
FAM53A	152877	broad.mit.edu	37	chr4	1656730	1656730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcattttcaggaagtccaagGatgggcgtgtccacctggcg	8	10	13	10	2	2	0	2	0	0	0	4	2	4	2	3	4	0	0	3	4	2	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr4:1656730G>A	uc011bve.1	-	4	1055	c.857C>T	c.(856-858)TCC>TTC	p.S286F	FAM53A_uc010ibw.2_Missense_Mutation_p.S286F	NM_001013622	NP_001013644	Q6NSI3	FA53A_HUMAN	dorsal neural-tube nuclear protein	286						nucleus					0		all_epithelial(65;0.206)|Breast(71;0.212)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)			GAAGTCCAAGGATGGGCGTGT	0.637													5	46					0	0	0.000602	0	0		A	1656730	A	A	1656730	3	1	106	1	0	0	0	0	1	0	0	0	5593	1174	41	4	347	4	FAM53A	4	1656730	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	490890	1656730	189497546	35	64202											
LAP3	51056	broad.mit.edu	37	chr4	17609194	17609194	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgagttcttacttcgtttCagtcaagacaatgcttagtt	10	17	7	7	1	3	2	2	1	1	1	4	2	3	2	0	0	2	4	0	0	4	7			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr4:17609194C>T	uc003gph.1	+	13	1704	c.1542C>T	c.(1540-1542)TTC>TTT	p.F514F		NM_015907	NP_056991	P28838	AMPL_HUMAN	leucine aminopeptidase 3	514					proteolysis	nucleus	aminopeptidase activity|magnesium ion binding|manganese ion binding|metalloexopeptidase activity|zinc ion binding				0						TACTTCGTTTCAGTCAAGACA	0.393													12	70					0	0	0.013537	0	0		T	17609194	T	T	17609194	2	4	106	1	0	0	0	0	0	0	0	1	8639	825	29	4		4	LAP3	4	17609194	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	15952464	17609194	173545082	36	64203											
NCAPG	64151	broad.mit.edu	37	chr4	17814759	17814759	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggatgatgaatgcccaGtggttaatggtgtgtgtagt	10	12	14	5	0	0	2	0	2	0	0	0	3	0	3	2	3	1	2	2	3	4	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr4:17814759G>C	uc003gpp.2	+	3	711	c.535G>C	c.(535-537)GTG>CTG	p.V179L	NCAPG_uc011bxj.1_5'UTR|DCAF16_uc003gpn.2_5'Flank	NM_022346	NP_071741	Q9BPX3	CND3_HUMAN	chromosome condensation protein G	179	HEAT 3.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	protein binding			large_intestine(1)	1				STAD - Stomach adenocarcinoma(129;0.18)		TGAATGCCCAGTGGTTAATGG	0.318													13	69					0	0	0.00245	0	0		C	17814759	C	C	17814759	3	2	106	1	0	0	0	0	1	0	0	0	10226	1029	36	5	545	5	NCAPG	4	17814759	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	205565	17814759	173339517	37	64204											
PCDH7	5099	broad.mit.edu	37	chr4	31144151	31144151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtgcactcgtgagtgtgatGagtatggccactcagactcc	9	10	12	10	1	1	4	1	3	0	1	3	4	2	4	2	1	1	2	2	1	1	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr4:31144151G>A	uc011bxx.1	+	3	4432	c.3424G>A	c.(3424-3426)GAG>AAG	p.E1142K	PCDH7_uc011bxw.1_Missense_Mutation_p.E1095K	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	Error:Variant_position_missing_in_O60245_after_alignment					homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						TGAGTGTGATGAGTATGGCCA	0.507													12	118					0	0	0.013537	0	0		A	31144151	A	A	31144151	3	1	106	1	0	0	0	0	1	0	0	0	11535	1291	45	4	3543	4	PCDH7	4	31144151	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	13329392	31144151	160010125	38	64205											
ARAP2	116984	broad.mit.edu	37	chr4	36069743	36069743	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctctgtgtcctccaggcagTtgaaactccgatgttttcgg	6	13	11	11	2	1	1	0	1	1	0	5	2	4	1	3	2	1	4	3	2	1	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr4:36069743T>G	uc003gsq.1	-	33	5239	c.4901A>C	c.(4900-4902)AAC>ACC	p.N1634T	ARAP2_uc003gso.2_Intron	NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1634					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						CTCCAGGCAGTTGAAACTCCG	0.512													19	99					0	0	0.007413	0	0		G	36069743	G	G	36069743	3	3	106	1	0	0	0	0	1	0	0	0	839	1725	60	5	217	5	ARAP2	4	36069743	Missense_Mutation	SNP	T	TCGA-CD-5800-01A-11D-1600-08	4925592	36069743	155084533	39	64206											
EPHA5	2044	broad.mit.edu	37	chr4	66467877	66467877	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagtcccgcagggtaaatTtgagttctatgaagattctg	10	13	11	7	1	2	3	0	2	2	1	3	3	3	3	1	1	1	4	1	1	4	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr4:66467877T>G	uc003hcy.2	-	3	585	c.392A>C	c.(391-393)AAA>ACA	p.K131T	EPHA5_uc003hcx.2_Missense_Mutation_p.K62T|EPHA5_uc003hcz.2_Missense_Mutation_p.K131T|EPHA5_uc011cah.1_Missense_Mutation_p.K131T|EPHA5_uc011cai.1_Missense_Mutation_p.K131T|EPHA5_uc003hda.2_Missense_Mutation_p.K131T	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	131	Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CAGGGTAAATTTGAGTTCTAT	0.428										TSP Lung(17;0.13)			10	103					0	0	0.008291	0	0		G	66467877	G	G	66467877	3	3	106	1	0	0	0	0	1	0	0	0	5178	1841	64	5	2785	5	EPHA5	4	66467877	Missense_Mutation	SNP	T	TCGA-CD-5800-01A-11D-1600-08	30398134	66467877	124686399	40	64207											
BMP2K	55589	broad.mit.edu	37	chr4	79793071	79793071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcattcggtatatcaacCacaaccttctgcatcacagt	13	11	5	12	1	3	0	2	0	1	0	4	0	3	0	2	1	4	3	2	1	5	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr4:79793071C>T	uc003hlk.2	+	12	1743	c.1577C>T	c.(1576-1578)CCA>CTA	p.P526L	BMP2K_uc003hlj.2_Missense_Mutation_p.P526L|BMP2K_uc003hll.2_5'Flank	NM_198892	NP_942595	Q9NSY1	BMP2K_HUMAN	BMP-2 inducible kinase isoform a	526	Gln/His-rich.					nucleus	ATP binding|protein serine/threonine kinase activity			lung(1)	1						GTATATCAACCACAACCTTCT	0.323													8	56					0	0	0.004482	0	0		T	79793071	T	T	79793071	3	4	106	1	0	0	0	0	1	0	0	0	1461	594	21	4	1623	4	BMP2K	4	79793071	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	13325194	79793071	111361205	41	64208											
UNC5C	8633	broad.mit.edu	37	chr4	96127903	96127903	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctcctgggggcccacagCtcaccacaggggtcaaaagt	10	5	13	13	0	2	0	2	0	0	0	3	1	3	0	3	4	2	2	3	4	2	0			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr4:96127903C>A	uc003htp.1	-	11	1932	c.1778G>T	c.(1777-1779)AGC>ATC	p.S593I	UNC5C_uc010ilc.1_Missense_Mutation_p.S612I	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	593	Cytoplasmic (Potential).|ZU5.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		GGGCCCACAGCTCACCACAGG	0.532													11	32					1.58986e-06	1.65131e-06	0.008291	1	0		A	96127903	A	A	96127903	3	1	106	1	0	0	0	0	1	0	0	0	17019	797	28	5	1041	5	UNC5C	4	96127903	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	16334832	96127903	95026373	42	64209											
METTL14	57721	broad.mit.edu	37	chr4	119618350	119618350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaataggtacttacaagccGatatagaagcctttgacatc	15	10	7	9	1	0	2	0	1	0	1	1	3	0	2	2	1	4	1	2	1	8	6			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr4:119618350G>A	uc003icf.2	+	7	633	c.517G>A	c.(517-519)GAT>AAT	p.D173N	METTL14_uc003icg.2_Missense_Mutation_p.D135N	NM_020961	NP_066012	Q9HCE5	MTL14_HUMAN	methyltransferase like 14	173						nucleus	mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity				0						CTTACAAGCCGATATAGAAGC	0.323													8	40					0	0	0.004482	0	0		A	119618350	A	A	119618350	3	1	106	1	0	0	0	0	1	0	0	0	9516	1058	37	1	543	1	METTL14	4	119618350	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	23490447	119618350	71535926	43	64210											
MFAP3L	9848	broad.mit.edu	37	chr4	170913336	170913336	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccagaagtgaagatgacGcgcaaggtcaccgtgttgtt	10	10	12	9	3	2	4	1	2	1	2	3	4	2	4	2	1	0	3	2	1	3	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr4:170913336G>A	uc003isp.3	-	3	601	c.423C>T	c.(421-423)CGC>CGT	p.R141R	MFAP3L_uc003isn.3_Silent_p.R38R	NM_021647	NP_067679	O75121	MFA3L_HUMAN	microfibrillar-associated protein 3-like isoform	141	Extracellular (Potential).|Ig-like C2-type.					integral to membrane|plasma membrane				ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0201)|LUSC - Lung squamous cell carcinoma(193;0.116)		TGAAGATGACGCGCAAGGTCA	0.527													15	94					0	0	0.003163	0	0		A	170913336	A	A	170913336	2	1	106	1	0	0	0	0	0	0	0	1	9534	1074	38	1		1	MFAP3L	4	170913336	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	51294986	170913336	20240940	44	64211											
ODZ3	55714	broad.mit.edu	37	chr4	183696162	183696162	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacactaccaaacagagccGcacgttctggctggcaccgc	10	6	9	16	3	2	1	1	0	1	1	2	1	2	1	3	2	3	4	3	2	2	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr4:183696162G>A	uc003ivd.1	+	23	5197	c.5160G>A	c.(5158-5160)CCG>CCA	p.P1720P		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1720	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		AAACAGAGCCGCACGTTCTGG	0.493													11	20					0	0	0.010729	0	0		A	183696162	A	A	183696162	2	1	106	1	0	0	0	0	0	0	0	1	10855	1074	38	1		1	ODZ3	4	183696162	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	12782826	183696162	7458114	45	64212											
TERT	7015	broad.mit.edu	37	chr5	1264673	1264673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttccgcaagttcaccaCgcagccatactcagggacac	10	8	8	15	2	3	0	2	0	1	0	4	1	4	1	3	1	2	3	3	1	2	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr5:1264673C>T	uc003jcb.1	-	11	2747	c.2689G>A	c.(2689-2691)GTG>ATG	p.V897M	TERT_uc003jbz.1_Missense_Mutation_p.V93M|TERT_uc003jca.1_Missense_Mutation_p.V885M|TERT_uc003jcc.1_Intron|TERT_uc003jcd.1_Intron|TERT_uc003jce.1_Intron	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	897	Reverse transcriptase.				anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			AAGTTCACCACGCAGCCATAC	0.622									TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				69	86					0	0	0.01441	0	0		T	1264673	T	T	1264673	3	4	106	1	0	0	0	0	1	0	0	0	15789	536	19	1	733	1	TERT	5	1264673	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08		1264673	179650587	46	64213											
KIAA0947	23379	broad.mit.edu	37	chr5	5461956	5461956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaccaacacccaagcctgatCttcttagagaaaataacaat	17	8	5	11	0	2	2	0	1	2	1	2	4	2	2	3	0	3	0	3	0	7	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr5:5461956C>T	uc003jdm.3	+	13	2731	c.2509C>T	c.(2509-2511)CTT>TTT	p.L837F		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	837										ovary(1)|central_nervous_system(1)	2						CAAGCCTGATCTTCTTAGAGA	0.403													6	73					0	0	0.001168	0	0		T	5461956	T	T	5461956	3	4	106	1	0	0	0	0	1	0	0	0	8218	913	32	4	2559	4	KIAA0947	5	5461956	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	4197283	5461956	175453304	47	64214											
DNAH5	1767	broad.mit.edu	37	chr5	13754330	13754330	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctacaagtcttttagtttGtgcagcaaactcttggcttt	9	16	7	9	0	2	0	0	0	2	0	2	0	2	0	1	1	4	4	1	1	4	6			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr5:13754330G>A	uc003jfd.2	-	62	10579	c.10537C>T	c.(10537-10539)CAA>TAA	p.Q3513*	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3513					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CTTTTAGTTTGTGCAGCAAAC	0.393									Kartagener_syndrome				17	126					0	0	0.00499	0	0		A	13754330	A	A	13754330	4	1	106	1	0	0	0	0	0	1	0	0	4610	1386	48	4	3409	4	DNAH5	5	13754330	Nonsense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	8292374	13754330	167160930	48	64215											
CCNH	902	broad.mit.edu	37	chr5	86700776	86700776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aattctattaagaaagtcatCagctgttttcctcaaaatct	14	15	4	8	0	5	1	3	0	2	1	6	1	6	1	1	0	1	2	1	0	6	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr5:86700776C>T	uc003kjb.2	-	5	806	c.574G>A	c.(574-576)GAT>AAT	p.D192N	CCNH_uc003kiy.1_Intron|CCNH_uc003kiz.1_Missense_Mutation_p.D139N|CCNH_uc003kja.2_Missense_Mutation_p.D139N	NM_001239	NP_001230	P51946	CCNH_HUMAN	cyclin H	192					G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	cyclin-dependent protein kinase activating kinase holoenzyme complex|holo TFIIH complex	protein kinase binding			ovary(2)|kidney(1)	3		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;9.01e-39)|Epithelial(54;5.08e-33)|all cancers(79;4.28e-28)		AGAAAGTCATCAGCTGTTTTC	0.408								Direct_reversal_of_damage|NER					9	50					0	0	0.004482	0	0		T	86700776	T	T	86700776	3	4	106	1	0	0	0	0	1	0	0	0	2928	826	29	4	417	4	CCNH	5	86700776	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	72946446	86700776	94214484	49	64216											
SRFBP1	153443	broad.mit.edu	37	chr5	121356468	121356468	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagaatcagtgtttttccaCtctttatctggatctaaaag	11	17	6	7	0	4	1	1	0	3	1	5	2	5	2	1	1	0	1	1	1	5	6			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr5:121356468C>T	uc003kst.1	+	6	1110	c.1038C>T	c.(1036-1038)CAC>CAT	p.H346H		NM_152546	NP_689759	Q8NEF9	SRFB1_HUMAN	serum response factor binding protein 1	346					regulation of transcription, DNA-dependent|transcription, DNA-dependent	perinuclear region of cytoplasm					0		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000227)|Epithelial(69;0.000365)|all cancers(49;0.00517)		TGTTTTTCCACTCTTTATCTG	0.313													6	35					0	0	0.001168	0	0		T	121356468	T	T	121356468	2	4	106	1	0	0	0	0	0	0	0	1	15169	564	20	4		4	SRFBP1	5	121356468	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	34655692	121356468	59558792	50	64217											
PCDHB6	56130	broad.mit.edu	37	chr5	140530019	140530019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgggggagctggcttcgCggggcgctcgggttgttttc	1	11	21	8	4	0	0	0	0	0	0	3	1	0	1	0	7	1	5	0	7	0	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr5:140530019C>T	uc003lir.2	+	1	181	c.181C>T	c.(181-183)CGG>TGG	p.R61W	PCDHB6_uc011dah.1_Intron	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	61	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTGGCTTCGCGGGGCGCTCG	0.507													10	123					0	0	0.008291	0	0		T	140530019	T	T	140530019	3	4	106	1	0	0	0	0	1	0	0	0	11565	759	27	1	183	1	PCDHB6	5	140530019	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	19173551	140530019	40385241	51	64218											
PCDHGA3	56112	broad.mit.edu	37	chr5	140725213	140725213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtgacagccagcgacagcgGgaaccctccactcagcagca	11	3	12	15	2	1	1	1	1	0	0	2	3	2	2	3	2	6	2	3	2	1	0			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr5:140725213G>A	uc003ljm.1	+	1	1613	c.1613G>A	c.(1612-1614)GGG>GAG	p.G538E	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Missense_Mutation_p.G298E|PCDHGA3_uc011dap.1_Missense_Mutation_p.G538E	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	538	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCGACAGCGGGAACCCTCCA	0.572													24	122					0	0	0.014323	0	0		A	140725213	A	A	140725213	3	1	106	1	0	0	0	0	1	0	0	0	11574	1232	43	4	1615	4	PCDHGA3	5	140725213	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	195194	140725213	40190047	52	64219											
PCDHGA6	56109	broad.mit.edu	37	chr5	140755983	140755983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcccaactatgccgacaCgcttatcaaccaggagagct	12	6	8	15	2	1	1	1	0	0	1	1	3	1	1	4	1	5	2	4	1	4	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr5:140755983C>T	uc003ljy.1	+	1	2333	c.2333C>T	c.(2332-2334)ACG>ATG	p.T778M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.T778M	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	778	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TATGCCGACACGCTTATCAAC	0.507													15	84					0	0	0.004007	0	0		T	140755983	T	T	140755983	3	4	106	1	0	0	0	0	1	0	0	0	11577	536	19	1	2335	1	PCDHGA6	5	140755983	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	30770	140755983	40159277	53	64220											
CSF1R	1436	broad.mit.edu	37	chr5	149447874	149447874	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgaagaggaactcatcCgggggatgcgtgtgggctcc	7	8	18	8	2	1	2	1	1	0	1	3	4	3	4	2	5	2	1	2	5	2	0	rs145267004		TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr5:149447874C>T	uc003lrl.2	-	10	1725	c.1530G>A	c.(1528-1530)CCG>CCA	p.P510P	CSF1R_uc011dcd.1_Silent_p.P362P|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Silent_p.P510P	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	510	Extracellular (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	GGAACTCATCCGGGGGATGCG	0.458													4	47					0	0	0.009096	0	0		T	149447874	T	T	149447874	2	4	106	1	0	0	0	0	0	0	0	1	3935	639	23	1		1	CSF1R	5	149447874	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	8691891	149447874	31467386	54	64221											
DNAH8	1769	broad.mit.edu	37	chr6	38702323	38702323	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatatagacaatgcagccccGgataaactaaaaggactgtg	16	8	9	8	1	0	1	0	0	0	1	0	3	0	3	2	2	3	1	2	2	8	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr6:38702323G>A	uc003ooe.1	+	3	633	c.33G>A	c.(31-33)CCG>CCA	p.P11P	DNAH8_uc003ood.1_Silent_p.P228P	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8									p.P11P(1)		skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ATGCAGCCCCGGATAAACTAA	0.353													22	78					0	0	0.00278	0	0		A	38702323	A	A	38702323	2	1	106	1	0	0	0	0	0	0	0	1	4613	1103	39	1		1	DNAH8	6	38702323	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08		38702323	132412744	55	64222											
PGC	5225	broad.mit.edu	37	chr6	41711094	41711094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcccattggtggagtaggtgGacgactcgctggggttgaag	7	9	18	7	2	0	1	0	1	0	0	1	4	0	3	1	6	0	3	1	6	2	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr6:41711094G>A	uc003ora.1	-	4	411	c.362C>T	c.(361-363)TCC>TTC	p.S121F		NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor	121					digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GGAGTAGGTGGACGACTCGCT	0.642													42	41					0	0	0.009718	0	0		A	41711094	A	A	41711094	3	1	106	1	0	0	0	0	1	0	0	0	11804	1174	41	4	1137	4	PGC	6	41711094	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	3008771	41711094	129403973	56	64223											
CD164	8763	broad.mit.edu	37	chr6	109691643	109691643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taactgtcttggaagttgtaGaaggggagggctgaactgtg	10	11	16	4	0	1	2	0	1	1	1	1	4	1	4	0	4	2	3	0	4	5	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr6:109691643G>A	uc003pte.2	-	5	579	c.398C>T	c.(397-399)TCT>TTT	p.S133F	CD164_uc003ptd.2_Missense_Mutation_p.S133F|CD164_uc003ptf.2_Intron|CD164_uc011eap.1_Missense_Mutation_p.S133F|CD164_uc010kdn.2_Missense_Mutation_p.S120F	NM_006016	NP_006007	Q04900	MUC24_HUMAN	CD164 molecule, sialomucin isoform 1	133	Thr-rich.|Extracellular (Potential).				hemopoiesis|heterophilic cell-cell adhesion|immune response|muscle organ development|negative regulation of cell adhesion|negative regulation of cell proliferation|signal transduction	endosome membrane|extracellular region|integral to plasma membrane|lysosomal membrane	protein binding				0		all_cancers(87;4.65e-22)|all_epithelial(87;2.54e-20)|all_lung(197;1.6e-05)|Lung NSC(302;2.92e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.0175)		Epithelial(106;7.83e-46)|all cancers(137;1.15e-45)|OV - Ovarian serous cystadenocarcinoma(136;2.89e-26)|BRCA - Breast invasive adenocarcinoma(108;0.00128)|GBM - Glioblastoma multiforme(226;0.16)		GGAAGTTGTAGAAGGGGAGGG	0.378													4	50					0	0	0.009096	0	0		A	109691643	A	A	109691643	3	1	106	1	0	0	0	0	1	0	0	0	2972	942	33	4	254	4	CD164	6	109691643	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	67980549	109691643	61423424	57	64224											
SYNE1	23345	broad.mit.edu	37	chr6	152642497	152642497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccattttttcaatgttctgtCggtgatttgtggcttctgtt	4	21	9	7	1	3	1	1	1	2	0	4	1	3	1	1	2	0	3	1	2	1	7			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr6:152642497C>T	uc010kiw.2	-	84	16714	c.16112G>A	c.(16111-16113)CGA>CAA	p.R5371Q	SYNE1_uc003qot.3_Missense_Mutation_p.R5300Q|SYNE1_uc003qou.3_Missense_Mutation_p.R5371Q|SYNE1_uc010kiz.2_Missense_Mutation_p.R1126Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5371	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AATGTTCTGTCGGTGATTTGT	0.393										HNSCC(10;0.0054)			5	31					0	0	0.000602	0	0		T	152642497	T	T	152642497	3	4	106	1	0	0	0	0	1	0	0	0	15470	884	31	1	10606	1	SYNE1	6	152642497	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	42950854	152642497	18472570	58	64225											
ADAP1	11033	broad.mit.edu	37	chr7	944770	944770	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccggctcaaaaactgcccgTtgtcccggccacgcttccag	7	8	9	17	4	1	0	1	0	0	0	4	0	4	0	5	2	2	3	5	2	2	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:944770T>G	uc003sjo.3	-	5	604	c.428A>C	c.(427-429)AAC>ACC	p.N143T	ADAP1_uc003sjm.3_5'UTR|ADAP1_uc011jvs.1_Missense_Mutation_p.N48T|ADAP1_uc003sjn.3_Missense_Mutation_p.N71T|ADAP1_uc010ksc.2_Missense_Mutation_p.N71T	NM_006869	NP_006860	O75689	ADAP1_HUMAN	centaurin, alpha 1	143	PH 1.				cell surface receptor linked signaling pathway|regulation of ARF GTPase activity	cytoplasm|nucleus|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|protein binding|zinc ion binding			upper_aerodigestive_tract(1)	1						AAACTGCCCGTTGTCCCGGCC	0.562													8	52					0	0	0.004482	0	0		G	944770	G	G	944770	3	3	106	1	0	0	0	0	1	0	0	0	279	1725	60	5	724	5	ADAP1	7	944770	Missense_Mutation	SNP	T	TCGA-CD-5800-01A-11D-1600-08		944770	158193893	59	64226											
HIBADH	11112	broad.mit.edu	37	chr7	27672037	27672037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aataattctgtcagctttttCagcaacatctgctggggaag	11	13	9	8	0	4	0	2	0	2	0	4	1	4	1	0	2	4	3	0	2	4	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:27672037C>T	uc003szf.2	-	3	475	c.280G>A	c.(280-282)GAA>AAA	p.E94K	HIBADH_uc003szg.2_Missense_Mutation_p.E45K|HIBADH_uc003szh.2_5'UTR|HIBADH_uc003szi.2_Missense_Mutation_p.E45K	NM_152740	NP_689953	P31937	3HIDH_HUMAN	3-hydroxyisobutyrate dehydrogenase precursor	94					branched chain family amino acid catabolic process|pentose-phosphate shunt|valine metabolic process	mitochondrial matrix	3-hydroxyisobutyrate dehydrogenase activity|NAD binding|phosphogluconate dehydrogenase (decarboxylating) activity			ovary(2)	2			GBM - Glioblastoma multiforme(3;0.0368)		NADH(DB00157)	TCAGCTTTTTCAGCAACATCT	0.363													13	86					0	0	0.004007	0	0		T	27672037	T	T	27672037	3	4	106	1	0	0	0	0	1	0	0	0	7115	835	29	4	754	4	HIBADH	7	27672037	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	26727267	27672037	131466626	60	64227											
EEPD1	80820	broad.mit.edu	37	chr7	36194426	36194426	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagcatcgtggacttcCgccgtgagcatgggcccttt	5	10	11	15	3	1	1	1	1	0	0	3	2	2	2	4	2	2	2	4	2	0	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:36194426C>T	uc003tfa.2	+	2	1133	c.493C>T	c.(493-495)CGC>TGC	p.R165C		NM_030636	NP_085139	Q7L9B9	EEPD1_HUMAN	endonuclease/exonuclease/phosphatase family	165					DNA repair		DNA binding				0						CGTGGACTTCCGCCGTGAGCA	0.607													4	31					0	0	0.009096	0	0		T	36194426	T	T	36194426	3	4	106	1	0	0	0	0	1	0	0	0	4938	652	23	1	495	1	EEPD1	7	36194426	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	8522389	36194426	122944237	61	64228											
C7orf42	55069	broad.mit.edu	37	chr7	66410149	66410149	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggtgaatatctcagtctcaAtcaccctaaccctggaccca	11	9	6	15	1	3	1	3	1	2	0	5	2	3	2	3	2	1	0	3	2	4	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:66410149A>G	uc003tvk.2	+	3	610	c.346A>G	c.(346-348)ATC>GTC	p.I116V	C7orf42_uc010lah.2_RNA|C7orf42_uc003tvl.2_Missense_Mutation_p.I116V	NM_017994	NP_060464	Q9NWD8	CG042_HUMAN	hypothetical protein LOC55069	116						integral to membrane				ovary(1)	1						CTCAGTCTCAATCACCCTAAC	0.577													12	82					0	0	0.010729	0	0		G	66410149	G	G	66410149	3	3	106	1	0	0	0	0	1	0	0	0	2395	101	4	3	352	3	C7orf42	7	66410149	Missense_Mutation	SNP	A	TCGA-CD-5800-01A-11D-1600-08	30215723	66410149	92728514	62	64229											
HGF	3082	broad.mit.edu	37	chr7	81372669	81372669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatttgaccttcacttacCgcatgttttaattgcacagt	11	16	5	9	1	1	1	1	1	0	0	1	1	1	1	2	0	2	3	2	0	4	7			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:81372669C>T	uc003uhl.2	-	7	1030	c.865G>A	c.(865-867)GCT>ACT	p.A289T	HGF_uc003uhm.2_Missense_Mutation_p.A284T|HGF_uc003uhn.1_Missense_Mutation_p.E289K|HGF_uc003uho.1_Missense_Mutation_p.E284K	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	289					epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						CTTCACTTACCGCATGTTTTA	0.448													19	48					0	0	0.007413	0	0		T	81372669	T	T	81372669	3	4	106	1	0	0	0	0	1	0	0	0	7101	666	23	1	1381	1	HGF	7	81372669	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	14962520	81372669	77765994	63	64230											
MGC26647	219557	broad.mit.edu	37	chr7	88423644	88423644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttctgggaggagtaggtcagGtgcaacttggtgtaagttat	9	13	15	4	0	2	0	1	0	1	0	2	2	2	2	0	5	2	4	0	5	4	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:88423644G>A	uc003ujv.2	-	2	795	c.613C>T	c.(613-615)CCT>TCT	p.P205S	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	205											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			AGTAGGTCAGGTGCAACTTGG	0.408													20	91					0	0	0.010504	0	0		A	88423644	A	A	88423644	3	1	106	1	0	0	0	0	1	0	0	0	9568	1261	44	4	152	4	MGC26647	7	88423644	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	7050975	88423644	70715019	64	64231											
CDHR3	222256	broad.mit.edu	37	chr7	105658403	105658403	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagtatccaaatgtattttGgattaatcccaagacaggag	14	11	8	8	0	0	1	0	0	0	1	2	3	2	3	3	2	0	2	3	2	5	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:105658403G>C	uc003vdl.3	+	12	1646	c.1538G>C	c.(1537-1539)TGG>TCG	p.W513S	CDHR3_uc003vdk.2_Intron|CDHR3_uc003vdm.3_Missense_Mutation_p.W500S|CDHR3_uc011klt.1_Missense_Mutation_p.W425S|CDHR3_uc003vdn.2_Intron	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	513	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						AATGTATTTTGGATTAATCCC	0.512													5	16					0	0	0.000602	0	0		C	105658403	C	C	105658403	3	2	106	1	0	0	0	0	1	0	0	0	3123	1357	47	5	1584	5	CDHR3	7	105658403	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	17234759	105658403	53480260	65	64232											
PIK3CG	5294	broad.mit.edu	37	chr7	106508257	106508257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgctggagaccagcgtggCggcggacttctaccaccggc	7	5	15	14	5	1	1	0	0	1	1	1	3	1	2	3	5	3	1	3	5	1	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:106508257C>T	uc003vdv.3	+	2	336	c.251C>T	c.(250-252)GCG>GTG	p.A84V	PIK3CG_uc003vdu.2_Missense_Mutation_p.A84V|PIK3CG_uc003vdw.2_Missense_Mutation_p.A84V	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	84					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						ACCAGCGTGGCGGCGGACTTC	0.637													5	38					0	0	0.001168	0	0		T	106508257	T	T	106508257	3	4	106	1	0	0	0	0	1	0	0	0	11935	768	27	1	253	1	PIK3CG	7	106508257	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	849854	106508257	52630406	66	64233											
IMPDH1	3614	broad.mit.edu	37	chr7	128038597	128038597	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggccagagggtagtctcgGttcttcttcaggtcggtgcg	5	11	16	9	3	4	1	1	0	3	1	6	2	4	1	1	5	1	2	1	5	1	4	rs1042253		TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:128038597G>A	uc011kol.1	-	7	796	c.690C>T	c.(688-690)AAC>AAT	p.N230N	IMPDH1_uc011kom.1_Silent_p.N225N|IMPDH1_uc003vmt.2_Silent_p.N205N|IMPDH1_uc003vmu.2_Silent_p.N315N|IMPDH1_uc003vmw.2_Silent_p.N305N|IMPDH1_uc011kon.1_Silent_p.N282N|IMPDH1_uc003vmv.2_Silent_p.N279N|IMPDH1_uc003vmx.2_Silent_p.N238N|IMPDH1_uc003vmy.2_Silent_p.N246N	NM_001142573	NP_001136045	P20839	IMDH1_HUMAN	inosine monophosphate dehydrogenase 1 isoform e	230	CBS 2.				GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	DNA binding|IMP dehydrogenase activity|metal ion binding			skin(2)|lung(1)|central_nervous_system(1)	4					Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)|Ribavirin(DB00811)|Thioguanine(DB00352)	GGTAGTCTCGGTTCTTCTTCA	0.572											OREG0018292	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	116					0	0	0.010729	0	0		A	128038597	A	A	128038597	2	1	106	1	0	0	0	0	0	0	0	1	7742	1252	44	4		4	IMPDH1	7	128038597	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	21530340	128038597	31100066	67	64234											
C7orf49	78996	broad.mit.edu	37	chr7	134852517	134852517	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccagagcaacatcaactatCtcagcctcattcatgcagta	13	9	5	14	0	4	1	4	0	1	1	5	1	4	1	2	0	5	3	2	0	4	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:134852517C>T	uc003vsl.2	-	3	447	c.180G>A	c.(178-180)GAG>GAA	p.E60E	C7orf49_uc003vsh.2_Intron|C7orf49_uc003vsj.2_Silent_p.E31E|C7orf49_uc003vsk.2_RNA|C7orf49_uc003vsm.2_RNA|C7orf49_uc003vsn.2_Silent_p.E59E|C7orf49_uc003vso.2_Silent_p.E5E	NM_024033	NP_076938	Q9BWK5	MRI_HUMAN	modulator of retrovirus infection	60						cytoplasm				large_intestine(1)|ovary(1)	2						CATCAACTATCTCAGCCTCAT	0.478													10	50					0	0	0.008291	0	0		T	134852517	T	T	134852517	2	4	106	1	0	0	0	0	0	0	0	1	2401	912	32	4		4	C7orf49	7	134852517	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	6813920	134852517	24286146	68	64235											
TAS2R4	50832	broad.mit.edu	37	chr7	141478883	141478883	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtgacttctgcttccttgCtaatacactccttgaggaga	9	14	8	10	0	1	3	0	2	1	1	3	4	3	3	2	1	3	2	2	1	2	6			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:141478883C>A	uc003vwq.1	+	1	595	c.595C>A	c.(595-597)CTA>ATA	p.L199I		NM_016944	NP_058640	Q9NYW5	TA2R4_HUMAN	taste receptor T2R4	199	Cytoplasmic (Potential).				sensory perception of taste	cilium membrane	taste receptor activity				0	Melanoma(164;0.0171)			BRCA - Breast invasive adenocarcinoma(188;0.196)		TGCTTCCTTGCTAATACACTC	0.423													25	177					9.57634e-11	1.01424e-10	0.00333	1	0		A	141478883	A	A	141478883	3	1	106	1	0	0	0	0	1	0	0	0	15602	796	28	5	597	5	TAS2R4	7	141478883	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	6626366	141478883	17659780	69	64236											
SHH	6469	broad.mit.edu	37	chr7	155596246	155596246	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaccttcttggcgccgTcgtcgcggtccaggaaagtg	8	8	14	11	5	1	2	0	0	1	2	4	3	2	3	3	3	0	0	3	3	2	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:155596246T>C	uc003wmk.1	-	3	888	c.737A>G	c.(736-738)GAC>GGC	p.D246G	SHH_uc003wmh.1_Intron|SHH_uc003wmi.1_Intron|SHH_uc003wmj.1_Missense_Mutation_p.D159G	NM_000193	NP_000184	Q15465	SHH_HUMAN	sonic hedgehog preproprotein	246					androgen metabolic process|axon guidance|branching involved in ureteric bud morphogenesis|CD4-positive or CD8-positive, alpha-beta T cell lineage commitment|embryonic digit morphogenesis|hindbrain development|intein-mediated protein splicing|lymphoid progenitor cell differentiation|metanephric mesenchymal cell proliferation involved in metanephros development|midbrain development|negative regulation of cell migration|negative regulation of kidney smooth muscle cell differentiation|negative regulation of ureter smooth muscle cell differentiation|negative thymic T cell selection|neural crest cell migration|neuroblast proliferation|patterning of blood vessels|positive regulation of alpha-beta T cell differentiation|positive regulation of immature T cell proliferation in thymus|positive regulation of kidney smooth muscle cell differentiation|positive regulation of mesenchymal cell proliferation involved in ureter development|positive regulation of T cell differentiation in thymus|positive regulation of ureter smooth muscle cell differentiation|positive thymic T cell selection|proteolysis|sclerotome development|stem cell development|thymus development|vasculogenesis|ventral midline development	cell surface|extracellular space|membrane raft|plasma membrane	calcium ion binding|laminin-1 binding|peptidase activity|signal transducer activity|zinc ion binding			central_nervous_system(3)|lung(1)	4	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00882)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTTGGCGCCGTCGTCGCGGTC	0.687													3	15					0	0	0.004672	0	0		C	155596246	C	C	155596246	3	2	106	1	0	0	0	0	1	0	0	0	14304	1667	58	3	655	3	SHH	7	155596246	Missense_Mutation	SNP	T	TCGA-CD-5800-01A-11D-1600-08	14117363	155596246	3542417	70	64237											
PTPRN2	5799	broad.mit.edu	37	chr7	157874021	157874021	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacatcctcagtggtcacGttttggacattggcgctcac	7	12	9	13	2	3	0	3	0	0	0	5	1	5	1	2	3	0	2	2	3	0	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr7:157874021G>A	uc003wno.2	-	11	1813	c.1692C>T	c.(1690-1692)AAC>AAT	p.N564N	PTPRN2_uc003wnp.2_Silent_p.N547N|PTPRN2_uc003wnq.2_Silent_p.N535N|PTPRN2_uc003wnr.2_Silent_p.N526N|PTPRN2_uc011kwa.1_Silent_p.N587N	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	564	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CAGTGGTCACGTTTTGGACAT	0.363													7	54					0	0	0.001984	0	0		A	157874021	A	A	157874021	2	1	106	1	0	0	0	0	0	0	0	1	12833	1136	40	1		1	PTPRN2	7	157874021	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	2277775	157874021	1264642	71	64238											
RP1	6101	broad.mit.edu	37	chr8	55534700	55534700	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cccagcctccaggcagtgatCctgagctctggagctgtggt	6	9	13	13	0	1	2	0	2	1	0	3	3	3	3	4	3	3	3	4	3	0	0			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr8:55534700C>T	uc003xsd.1	+	3	787	c.639C>T	c.(637-639)ATC>ATT	p.I213I	RP1_uc011ldy.1_Silent_p.I213I	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	213	Doublecortin 2.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			AGGCAGTGATCCTGAGCTCTG	0.438													13	55					0	0	0.013537	0	0		T	55534700	T	T	55534700	2	4	106	1	0	0	0	0	0	0	0	1	13557	845	30	4		4	RP1	8	55534700	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08		55534700	90829322	72	64239											
RP1	6101	broad.mit.edu	37	chr8	55539117	55539117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacatgctacaaccagggCaaattctttagcttctttga	13	12	6	10	0	2	1	0	1	2	0	2	1	2	1	1	1	5	3	1	1	5	6			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr8:55539117C>T	uc003xsd.1	+	4	2823	c.2675C>T	c.(2674-2676)GCA>GTA	p.A892V	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	892					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			ACAACCAGGGCAAATTCTTTA	0.333													6	56					0	0	0.001168	0	0		T	55539117	T	T	55539117	3	4	106	1	0	0	0	0	1	0	0	0	13557	710	25	2	2685	2	RP1	8	55539117	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	4417	55539117	90824905	73	64240											
CHD7	55636	broad.mit.edu	37	chr8	61765949	61765949	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgaactgaaaggtgttgAggtcggcgcagacactgggt	12	8	15	6	2	0	4	0	3	0	1	1	4	0	4	0	4	1	2	0	4	3	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr8:61765949A>G	uc003xue.2	+	31	7142	c.6665A>G	c.(6664-6666)GAG>GGG	p.E2222G		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2222	Glu-rich.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			AAAGGTGTTGAGGTCGGCGCA	0.502													17	50					0	0	0.004007	0	0		G	61765949	G	G	61765949	3	3	106	1	0	0	0	0	1	0	0	0	3333	304	11	3	6783	3	CHD7	8	61765949	Missense_Mutation	SNP	A	TCGA-CD-5800-01A-11D-1600-08	6226832	61765949	84598073	74	64241											
MTFR1	9650	broad.mit.edu	37	chr8	66631645	66631645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctttattcagccccacGtgtccaagcattgtctggga	7	12	10	12	1	2	0	1	0	1	0	3	1	3	1	3	2	2	2	3	2	2	4	rs143063031		TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr8:66631645G>A	uc003xvo.1	+	7	1044	c.934G>A	c.(934-936)GTG>ATG	p.V312M	PDE7A_uc003xvq.2_Silent_p.H443H|PDE7A_uc003xvp.2_Silent_p.H417H	NM_014637	NP_055452	Q15390	MTFR1_HUMAN	mitochondrial fission regulator 1 isoform 1	Error:Variant_position_missing_in_Q15390_after_alignment						mitochondrion|plasma membrane				pancreas(1)	1			Epithelial(68;0.0526)|BRCA - Breast invasive adenocarcinoma(89;0.156)|all cancers(69;0.171)|OV - Ovarian serous cystadenocarcinoma(28;0.194)			TCAGCCCCACGTGTCCAAGCA	0.458													11	74					0	0	0.008291	0	0		A	66631645	A	A	66631645	3	1	106	1	0	0	0	0	1	0	0	0	9943	1136	40	1		1	MTFR1	8	66631645	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	4865696	66631645	79732377	75	64242											
DNAJC5B	85479	broad.mit.edu	37	chr8	66989024	66989024	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagcatatacgacaagtaCggatcgctgggactctacgt	13	8	11	9	4	1	1	0	0	1	1	2	4	1	3	0	2	4	3	0	2	6	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr8:66989024C>T	uc003xvs.1	+	4	540	c.249C>T	c.(247-249)TAC>TAT	p.Y83Y	DNAJC5B_uc003xvt.1_RNA	NM_033105	NP_149096	Q9UF47	DNJ5B_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	83	J.				protein folding	membrane	heat shock protein binding|unfolded protein binding				0		Lung NSC(129;0.114)|all_lung(136;0.188)	Epithelial(68;0.0213)|all cancers(69;0.0839)|BRCA - Breast invasive adenocarcinoma(89;0.0886)|OV - Ovarian serous cystadenocarcinoma(28;0.112)			ACGACAAGTACGGATCGCTGG	0.463													19	209					0	0	0.008871	0	0		T	66989024	T	T	66989024	2	4	106	1	0	0	0	0	0	0	0	1	4657	547	19	1		1	DNAJC5B	8	66989024	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	357379	66989024	79374998	76	64243											
TRIM55	84675	broad.mit.edu	37	chr8	67049353	67049353	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctcagtgatggcatcgcCatcctcgtgggcagcaacga	9	7	13	12	3	1	1	1	1	0	0	4	3	2	1	2	2	3	4	2	2	1	0			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr8:67049353C>T	uc003xvv.2	+	4	757	c.531C>T	c.(529-531)GCC>GCT	p.A177A	TRIM55_uc003xvu.2_Silent_p.A177A|TRIM55_uc003xvw.2_Silent_p.A177A|TRIM55_uc003xvx.2_Silent_p.A177A	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	177	Potential.					cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			ATGGCATCGCCATCCTCGTGG	0.507													8	41					0	0	0.004482	0	0		T	67049353	T	T	67049353	2	4	106	1	0	0	0	0	0	0	0	1	16555	581	21	4		4	TRIM55	8	67049353	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	60329	67049353	79314669	77	64244											
ZFHX4	79776	broad.mit.edu	37	chr8	77765033	77765033	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaattgttttccaatgttcTtattttaaagagtcaccaag	13	17	5	6	0	2	1	1	0	1	1	3	1	3	1	2	0	0	2	2	0	7	8			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr8:77765033T>G	uc003yav.2	+	10	6128	c.5741T>G	c.(5740-5742)CTT>CGT	p.L1914R	ZFHX4_uc003yau.1_Missense_Mutation_p.L1959R|ZFHX4_uc003yaw.1_Missense_Mutation_p.L1914R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1914	C2H2-type 14.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCCAATGTTCTTATTTTAAAG	0.398										HNSCC(33;0.089)			5	64					0	0	0.000602	0	0		G	77765033	G	G	77765033	3	3	106	1	0	0	0	0	1	0	0	0	17660	1609	56	5	5910	5	ZFHX4	8	77765033	Missense_Mutation	SNP	T	TCGA-CD-5800-01A-11D-1600-08	10715680	77765033	68598989	78	64245											
RALYL	138046	broad.mit.edu	37	chr8	85799972	85799972	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggagaagagatgacagatggGatagaggaggacttcgatga	15	6	17	3	1	0	6	0	2	0	4	1	12	0	9	0	4	0	0	0	4	2	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr8:85799972G>C	uc003ycq.3	+	9	1235	c.819G>C	c.(817-819)GGG>GGC	p.G273G	RALYL_uc003ycr.3_Silent_p.G273G|RALYL_uc003ycs.3_Silent_p.G273G|RALYL_uc010lzy.2_Silent_p.G262G|RALYL_uc003yct.3_Silent_p.G286G|RALYL_uc003ycu.3_Silent_p.G200G|RALYL_uc003ycv.3_Intron	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2	273							identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						TGACAGATGGGATAGAGGAGG	0.483													8	156					0	0	0.00308	0	0		C	85799972	C	C	85799972	2	2	106	1	0	0	0	0	0	0	0	1	13045	1161	41	5		5	RALYL	8	85799972	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	8034939	85799972	60564050	79	64246											
CA13	377677	broad.mit.edu	37	chr8	86171655	86171655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgttgttgtttagttctgCgtggtggtcctctcactgga	4	17	12	8	1	2	0	1	0	2	0	4	1	3	1	1	3	1	4	1	3	1	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr8:86171655C>T	uc003ydg.2	+	3	583	c.241C>T	c.(241-243)CGT>TGT	p.R81C	CA13_uc003ydf.1_RNA	NM_198584	NP_940986	Q8N1Q1	CAH13_HUMAN	carbonic anhydrase XIII	81					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0						TTTAGTTCTGCGTGGTGGTCC	0.458													10	127					0	0	0.008291	0	0		T	86171655	T	T	86171655	3	4	106	1	0	0	0	0	1	0	0	0	2517	768	27	1	251	1	CA13	8	86171655	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	371683	86171655	60192367	80	64247											
SLC26A7	115111	broad.mit.edu	37	chr8	92352728	92352728	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctatgtggcctcactggcTcttgctcaaggatctgccaa	7	11	11	12	0	4	0	2	0	2	0	4	1	4	1	2	4	2	3	2	4	3	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr8:92352728T>C	uc003yex.2	+	9	1253	c.975T>C	c.(973-975)GCT>GCC	p.A325A	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Silent_p.A325A|SLC26A7_uc003yfa.2_Silent_p.A325A	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	325	Helical; (Potential).					basolateral plasma membrane|integral to membrane|recycling endosome membrane	anion:anion antiporter activity|bicarbonate transmembrane transporter activity|chloride channel activity|oxalate transmembrane transporter activity|sulfate transmembrane transporter activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.00802)			CCTCACTGGCTCTTGCTCAAG	0.502													14	100					0	0	0.001855	0	0		C	92352728	C	C	92352728	2	2	106	1	0	0	0	0	0	0	0	1	14547	1538	54	3		3	SLC26A7	8	92352728	Silent	SNP	T	TCGA-CD-5800-01A-11D-1600-08	6181073	92352728	54011294	81	64248											
KCNK9	51305	broad.mit.edu	37	chr8	140630698	140630698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttctgcggtgccaccgagcGgccgccatagtcctgcgagc	5	7	14	15	5	1	0	0	0	1	0	2	2	2	0	5	2	5	1	5	2	1	2	rs145490321		TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr8:140630698G>A	uc003yvf.1	-	2	992	c.928C>T	c.(928-930)CGC>TGC	p.R310C	KCNK9_uc003yvg.1_Missense_Mutation_p.R310C|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	310	Cytoplasmic (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			GCCACCGAGCGGCCGCCATAG	0.622													15	84					0	0	0.00245	0	0		A	140630698	A	A	140630698	3	1	106	1	0	0	0	0	1	0	0	0	8088	1116	39	1	200	1	KCNK9	8	140630698	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	48277970	140630698	5733324	82	64249											
OR13C4	138804	broad.mit.edu	37	chr9	107289090	107289090	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccaccttgttcatgatgAtggggtatctcagagggtta	10	12	11	8	0	2	3	2	2	1	1	3	3	2	3	2	3	0	3	2	3	2	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr9:107289090A>G	uc011lvn.1	-	1	401	c.401T>C	c.(400-402)ATC>ACC	p.I134T		NM_001001919	NP_001001919	Q8NGS5	O13C4_HUMAN	olfactory receptor, family 13, subfamily C,	134	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GTTCATGATGATGGGGTATCT	0.453													12	145					0	0	0.010729	0	0		G	107289090	G	G	107289090	3	3	106	1	0	0	0	0	1	0	0	0	10955	333	12	3	557	3	OR13C4	9	107289090	Missense_Mutation	SNP	A	TCGA-CD-5800-01A-11D-1600-08		107289090	33924341	83	64250											
OR13D1	286365	broad.mit.edu	37	chr9	107457263	107457263	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatcataggctgtctgacCtccctattgcaaacagttct	9	13	8	11	0	3	1	1	1	2	0	4	2	4	2	2	2	2	3	2	2	3	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr9:107457263C>A	uc011lvs.1	+	1	561	c.561C>A	c.(559-561)ACC>ACA	p.T187T		NM_001004484	NP_001004484	Q8NGV5	O13D1_HUMAN	olfactory receptor, family 13, subfamily D,	187	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCTGTCTGACCTCCCTATTGC	0.438													54	112					6.14515e-18	6.63923e-18	0.01441	1	0		A	107457263	A	A	107457263	2	1	106	1	0	0	0	0	0	0	0	1	10959	668	24	5		5	OR13D1	9	107457263	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	168173	107457263	33756168	84	64251											
SURF2	6835	broad.mit.edu	37	chr9	136227269	136227269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccactgatgagagcaggagaGagacgaccgtgtaccgaggg	12	4	16	9	3	0	4	0	2	0	3	0	9	0	4	3	2	2	2	3	2	1	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr9:136227269G>A	uc004cdi.2	+	5	694	c.646G>A	c.(646-648)GAG>AAG	p.E216K		NM_017503	NP_059973	Q15527	SURF2_HUMAN	surfeit 2	216							protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.87e-07)|Epithelial(140;4.02e-06)|all cancers(34;3.71e-05)		GAGCAGGAGAGAGACGACCGT	0.552													7	37					0	0	0.001984	0	0		A	136227269	A	A	136227269	3	1	106	1	0	0	0	0	1	0	0	0	15429	943	33	4	664	4	SURF2	9	136227269	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	28770006	136227269	4986162	85	64252											
SEC16A	9919	broad.mit.edu	37	chr9	139342536	139342536	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtatttgacagcactcacCgatttgttcttgtcatctgg	7	15	9	10	2	4	1	2	1	2	0	4	2	4	1	1	1	1	3	1	1	1	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr9:139342536C>T	uc004chx.2	-	24	6699	c.6390G>A	c.(6388-6390)TCG>TCA	p.S2130S	SEC16A_uc004chp.2_5'Flank|SEC16A_uc004chq.2_5'Flank|SEC16A_uc011mea.1_5'Flank|SEC16A_uc004chr.2_Silent_p.S136S|SEC16A_uc004chs.2_5'UTR|SEC16A_uc004cht.2_Silent_p.S161S|SEC16A_uc004chu.2_Silent_p.S315S|SEC16A_uc004chv.3_Silent_p.S1520S|SEC16A_uc004chw.2_Silent_p.S2130S|SEC16A_uc010nbn.2_Silent_p.S2130S	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1952	Required for interaction with SEC23A.|Pro-rich.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		CAGCACTCACCGATTTGTTCT	0.388													4	20					0	0	0.009096	0	0		T	139342536	T	T	139342536	2	4	106	1	0	0	0	0	0	0	0	1	14011	666	23	1		1	SEC16A	9	139342536	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	3115267	139342536	1870895	86	64253											
ITIH2	3698	broad.mit.edu	37	chr10	7759715	7759715	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggctcctatgagcacaggatCtatctgcaacctggacggct	9	9	11	12	1	2	1	0	1	2	0	3	3	3	3	2	4	3	4	2	4	3	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr10:7759715C>T	uc001ijs.2	+	6	756	c.594C>T	c.(592-594)ATC>ATT	p.I198I		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	198					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						AGCACAGGATCTATCTGCAAC	0.507													28	124					0	0	0.004656	0	0		T	7759715	T	T	7759715	2	4	106	1	0	0	0	0	0	0	0	1	7920	903	32	4		4	ITIH2	10	7759715	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08		7759715	127775032	87	64254											
PGBD3	267004	broad.mit.edu	37	chr10	50732318	50732318	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctgccccctccacctcGtcatcttcctcctcttcctc	2	13	3	23	1	4	0	1	0	3	0	10	0	8	0	8	0	1	0	8	0	0	2	rs141391984	byFrequency	TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr10:50732318G>A	uc001jht.2	-	1	9	c.-246C>T	c.(-248--244)GACGA>GATGA		ERCC6_uc001jhs.3_Silent_p.D386D|PGBD3_uc009xoe.2_Silent_p.D386D|PGBD3_uc001jhu.2_Silent_p.D386D	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004											pancreas(1)|breast(1)|skin(1)	3						cctccacctcgtcatcttcct	0.423													4	39					0	0	0.009096	0	0		A	50732318	A	A	50732318	1	1	106	1	0	0	0	0	0	0	0	0	11801	1136	40	1		1	PGBD3	10	50732318	Translation_Start_Site	SNP	G	TCGA-CD-5800-01A-11D-1600-08	42972603	50732318	84802429	88	64255											
A1CF	29974	broad.mit.edu	37	chr10	52603780	52603780	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtataagctcatcctcaaAaaggtctcggggaagttttc	11	12	10	8	1	3	0	2	0	1	0	6	1	4	1	1	4	1	3	1	4	5	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr10:52603780A>C	uc001jjj.2	-	4	390	c.202T>G	c.(202-204)TTT>GTT	p.F68V	A1CF_uc010qhn.1_Missense_Mutation_p.F76V|A1CF_uc001jji.2_Missense_Mutation_p.F68V|A1CF_uc001jjh.2_Missense_Mutation_p.F76V|A1CF_uc010qho.1_Missense_Mutation_p.F76V|A1CF_uc009xov.2_Missense_Mutation_p.F68V|A1CF_uc001jjk.1_Missense_Mutation_p.F68V	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	68	RRM 1.				cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						TCATCCTCAAAAAGGTCTCGG	0.393													8	112					0	0	0.00308	0	0		C	52603780	C	C	52603780	3	2	106	1	0	0	0	0	1	0	0	0	2	14	1	5	1622	5	A1CF	10	52603780	Missense_Mutation	SNP	A	TCGA-CD-5800-01A-11D-1600-08	1871462	52603780	82930967	89	64256											
RUFY2	55680	broad.mit.edu	37	chr10	70143864	70143864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attttcacttcgtaattgatGattttcttcctggagtttaa	9	20	6	6	1	2	2	1	2	1	0	4	3	3	3	1	1	0	2	1	1	2	10			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr10:70143864G>A	uc001job.2	-	9	1198	c.871C>T	c.(871-873)CAT>TAT	p.H291Y	RUFY2_uc001jnz.1_RNA|RUFY2_uc001joc.2_Missense_Mutation_p.H222Y|RUFY2_uc010qiw.1_Missense_Mutation_p.H198Y|RUFY2_uc001jod.1_Missense_Mutation_p.H256Y|RUFY2_uc009xpv.1_Missense_Mutation_p.H139Y	NM_017987	NP_060457	Q8WXA3	RUFY2_HUMAN	RUN and FYVE domain-containing 2 isoform a	305	Potential.					nucleus	metal ion binding			ovary(1)	1						CGTAATTGATGATTTTCTTCC	0.318													7	28					0	0	0.001984	0	0		A	70143864	A	A	70143864	3	1	106	1	0	0	0	0	1	0	0	0	13764	1290	45	4	1207	4	RUFY2	10	70143864	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	17540084	70143864	65390883	90	64257											
BLNK	29760	broad.mit.edu	37	chr10	97983645	97983645	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcaaagcagtcagggcCggcagggtggaggtgagcct	8	7	17	9	1	2	1	1	1	1	0	2	2	2	2	2	5	3	3	2	5	1	1	rs149698554		TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr10:97983645C>T	uc001kls.3	-	6	640	c.462G>A	c.(460-462)CCG>CCA	p.P154P	BLNK_uc001kme.3_Silent_p.P72P|BLNK_uc001klt.3_Silent_p.P68P|BLNK_uc009xvc.2_Intron|BLNK_uc001klu.3_Silent_p.P72P|BLNK_uc001klv.3_Intron|BLNK_uc001klw.3_RNA|BLNK_uc001klx.3_Silent_p.P154P|BLNK_uc001kly.3_Silent_p.P154P|BLNK_uc001klz.3_Intron|BLNK_uc001kma.3_Silent_p.P154P|BLNK_uc001kmb.3_Intron|BLNK_uc001kmc.3_RNA|BLNK_uc001kmd.3_Silent_p.P72P|BLNK_uc009xvd.2_Intron	NM_013314	NP_037446	Q8WV28	BLNK_HUMAN	B-cell linker isoform 1	154	Pro-rich.				B cell differentiation|humoral immune response|inflammatory response|intracellular signal transduction	cytoplasm|plasma membrane	SH3/SH2 adaptor activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(2)	2		Colorectal(252;0.083)		Epithelial(162;7.89e-08)|all cancers(201;2.27e-06)		CAGTCAGGGCCGGCAGGGTGG	0.547													14	78					0	0	0.003163	0	0		T	97983645	T	T	97983645	2	4	106	1	0	0	0	0	0	0	0	1	1448	639	23	1		1	BLNK	10	97983645	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	27839781	97983645	37551102	91	64258											
HPS1	3257	broad.mit.edu	37	chr10	100183378	100183378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacaccatggtgatgttcCtcctgctcttcaccagcaag	9	11	8	13	0	2	2	1	2	1	0	4	2	4	2	4	1	2	3	4	1	1	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr10:100183378C>T	uc010qpf.1	-	16	1826	c.1580G>A	c.(1579-1581)AGG>AAG	p.R527K	HPS1_uc001kpi.1_Missense_Mutation_p.R527K|HPS1_uc001kpj.1_Missense_Mutation_p.R434K|HPS1_uc001kpk.1_Missense_Mutation_p.R351K|HPS1_uc010qpg.1_Missense_Mutation_p.R147K|HPS1_uc009xwb.2_RNA	NM_000195	NP_000186	Q92902	HPS1_HUMAN	Hermansky-Pudlak syndrome 1 protein isoform a	527					lysosome organization|response to stimulus|visual perception	cytoplasmic membrane-bounded vesicle|integral to plasma membrane|lysosome|membrane fraction|soluble fraction	protein dimerization activity			skin(1)	1		Colorectal(252;0.234)		Epithelial(162;3.87e-12)|all cancers(201;5.63e-10)		GGTGATGTTCCTCCTGCTCTT	0.617									Hermansky-Pudlak_syndrome				41	153					0	0	0.007835	0	0		T	100183378	T	T	100183378	3	4	106	1	0	0	0	0	1	0	0	0	7355	681	24	4	542	4	HPS1	10	100183378	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	2199733	100183378	35351369	92	64259											
ABLIM1	3983	broad.mit.edu	37	chr10	116361626	116361626	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atgtggaaatgtttggtctgGacccgaagcacttcaccctt	9	12	10	10	1	2	0	1	0	1	0	2	3	2	2	2	3	1	2	2	3	2	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr10:116361626G>C	uc010qsg.1	-	2	438	c.339C>G	c.(337-339)GTC>GTG	p.V113V	ABLIM1_uc010qsh.1_Silent_p.V53V|ABLIM1_uc010qsi.1_Silent_p.V53V|ABLIM1_uc010qsk.1_Silent_p.V37V|ABLIM1_uc009xyp.2_Silent_p.V47V|ABLIM1_uc001lbz.1_Silent_p.V36V	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	113	LIM zinc-binding 1.				axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		GTTTGGTCTGGACCCGAAGCA	0.557													6	85					0	0	0.001168	0	0		C	116361626	C	C	116361626	2	2	106	1	0	0	0	0	0	0	0	1	94	1161	41	5		5	ABLIM1	10	116361626	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	16178248	116361626	19173121	93	64260											
KNDC1	85442	broad.mit.edu	37	chr10	135015105	135015105	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcactgtcacggggaaacttCgaggtggggtttcggcctca	7	9	15	10	3	2	0	2	0	0	0	4	2	2	1	1	6	1	2	1	6	1	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr10:135015105C>T	uc001llz.1	+	17	3091	c.3090C>T	c.(3088-3090)TTC>TTT	p.F1030F	KNDC1_uc001lma.1_Silent_p.F965F|KNDC1_uc001lmb.1_Silent_p.F442F	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1030					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		GGGGAAACTTCGAGGTGGGGT	0.657													26	52					0	0	0.005443	0	0		T	135015105	T	T	135015105	2	4	106	1	0	0	0	0	0	0	0	1	8442	883	31	1		1	KNDC1	10	135015105	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	18653479	135015105	519642	94	64261											
ART1	417	broad.mit.edu	37	chr11	3681342	3681342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccgggccaccgtgaggctggGgggctttgcttctgcctccc	2	9	15	15	2	1	1	0	1	1	0	2	1	2	1	5	5	2	3	5	5	0	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr11:3681342G>A	uc001lye.1	+	3	694	c.593G>A	c.(592-594)GGG>GAG	p.G198E	ART1_uc009yeb.1_Missense_Mutation_p.G198E	NM_004314	NP_004305	P52961	NAR1_HUMAN	ADP-ribosyltransferase 1 precursor	198					protein ADP-ribosylation	anchored to membrane|integral to plasma membrane|sarcoplasmic reticulum membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity				0		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0351)|LUSC - Lung squamous cell carcinoma(625;0.195)	Becaplermin(DB00102)	GTGAGGCTGGGGGGCTTTGCT	0.682													6	23					0	0	0.001168	0	0		A	3681342	A	A	3681342	3	1	106	1	0	0	0	0	1	0	0	0	998	1232	43	4	599	4	ART1	11	3681342	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08		3681342	131325174	95	64262											
OR51M1	390059	broad.mit.edu	37	chr11	5410661	5410661	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tattcgctcagtcctcaattCatgctgctatccaacattac	10	14	4	13	1	3	0	3	0	0	0	6	0	5	0	2	0	4	3	2	0	5	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr11:5410661C>T	uc010qzc.1	+	1	33	c.33C>T	c.(31-33)TTC>TTT	p.F11F	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004756	NP_001004756	B2RNI9	B2RNI9_HUMAN	olfactory receptor, family 51, subfamily M,	11						integral to membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.98e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTCCTCAATTCATGCTGCTAT	0.398													17	114					0	0	0.008871	0	0		T	5410661	T	T	5410661	2	4	106	1	0	0	0	0	0	0	0	1	11122	825	29	4		4	OR51M1	11	5410661	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	1729319	5410661	129595855	96	64263											
MICAL2	9645	broad.mit.edu	37	chr11	12241844	12241844	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcagactttgccaccaacTaccagctgccatccttagac	10	9	6	16	0	0	2	0	0	0	2	1	2	1	2	5	0	6	2	5	0	3	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr11:12241844T>A	uc001mjz.2	+	9	1333	c.1045T>A	c.(1045-1047)TAC>AAC	p.Y349N	MICAL2_uc010rch.1_Missense_Mutation_p.Y349N|MICAL2_uc001mka.2_Missense_Mutation_p.Y349N|MICAL2_uc010rci.1_Missense_Mutation_p.Y349N|MICAL2_uc001mkb.2_Missense_Mutation_p.Y349N|MICAL2_uc001mkc.2_Missense_Mutation_p.Y349N|MICAL2_uc001mkd.2_Missense_Mutation_p.Y178N|MICAL2_uc010rcj.1_5'Flank	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	349						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		TGCCACCAACTACCAGCTGCC	0.537													13	65					0	0	0.004007	0	0		A	12241844	A	A	12241844	3	1	106	1	0	0	0	0	1	0	0	0	9588	1522	53	5	1071	5	MICAL2	11	12241844	Missense_Mutation	SNP	T	TCGA-CD-5800-01A-11D-1600-08	6831183	12241844	122764672	97	64264											
SPTY2D1	144108	broad.mit.edu	37	chr11	18636652	18636652	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagggccagaactaactGtgggtcgagcaacccctgtg	10	6	13	12	1	0	1	0	0	0	1	1	2	0	1	3	2	4	2	3	2	3	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr11:18636652G>T	uc001moy.2	-	3	1385	c.1169C>A	c.(1168-1170)ACA>AAA	p.T390K	SPTY2D1_uc010rdi.1_Missense_Mutation_p.T390K	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	390	Ser-rich.									breast(1)	1						AGAACTAACTGTGGGTCGAGC	0.587													34	70					8.88839e-20	9.70053e-20	0.010818	1	0		T	18636652	T	T	18636652	3	4	106	1	0	0	0	0	1	0	0	0	15151	1377	48	5	904	5	SPTY2D1	11	18636652	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	6394808	18636652	116369864	98	64265											
LIN7C	55327	broad.mit.edu	37	chr11	27520261	27520261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgactccatttcttctaagaCtttgggtgtgtatcgtacca	8	15	8	10	2	2	1	0	0	2	1	4	2	3	1	2	1	1	2	2	1	3	6			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr11:27520261C>T	uc001mrl.2	-	5	556	c.529G>A	c.(529-531)GTC>ATC	p.V177I	LIN7C_uc009yii.2_Missense_Mutation_p.V153I	NM_018362	NP_060832	Q9NUP9	LIN7C_HUMAN	lin-7 homolog C	177					exocytosis|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction					0						TCTTCTAAGACTTTGGGTGTG	0.388													17	99					0	0	0.00499	0	0		T	27520261	T	T	27520261	3	4	106	1	0	0	0	0	1	0	0	0	8829	565	20	4	68	4	LIN7C	11	27520261	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	8883609	27520261	107486255	99	64266											
KIF18A	81930	broad.mit.edu	37	chr11	28090850	28090850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taagagtcccatttctttttCgacacgatggagccaattag	11	13	8	9	2	1	1	0	0	1	1	3	4	2	2	2	1	1	0	2	1	3	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr11:28090850C>T	uc001msc.2	-	11	1728	c.1546G>A	c.(1546-1548)GAA>AAA	p.E516K		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	516					blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						ATTTCTTTTTCGACACGATGG	0.388													4	50					0	0	0.009096	0	0		T	28090850	T	T	28090850	3	4	106	1	0	0	0	0	1	0	0	0	8296	893	31	1	1178	1	KIF18A	11	28090850	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	570589	28090850	106915666	100	64267											
DDB1	1642	broad.mit.edu	37	chr11	61071504	61071504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttgtccactcatagagccGcacctgggaagggcattgtc	8	10	12	11	1	1	1	1	0	0	1	3	2	2	2	3	2	1	3	3	2	2	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr11:61071504G>A	uc001nrc.3	-	22	2891	c.2665C>T	c.(2665-2667)CGG>TGG	p.R889W	DDB1_uc010rle.1_Missense_Mutation_p.R200W|DDB1_uc010rlf.1_Missense_Mutation_p.R889W	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	889	Interaction with CDT1 and CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						TCATAGAGCCGCACCTGGGAA	0.547								NER					32	34					0	0	0.010818	0	0		A	61071504	A	A	61071504	3	1	106	1	0	0	0	0	1	0	0	0	4326	1086	38	1	781	1	DDB1	11	61071504	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	32980654	61071504	73935012	101	64268											
CST6	1474	broad.mit.edu	37	chr11	65780867	65780867	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcacaactgtgtgcagaTgtgataagtccccgagggcg	12	7	13	9	2	0	2	0	1	0	1	1	3	1	2	2	1	3	2	2	1	3	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr11:65780867T>A	uc001ogr.2	+	3	500	c.446T>A	c.(445-447)ATG>AAG	p.M149K	CST6_uc001ogs.1_3'UTR	NM_001323	NP_001314	Q15828	CYTM_HUMAN	cystatin M precursor	149					anatomical structure morphogenesis	extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1						TGTGTGCAGATGTGATAAGTC	0.562													14	64					0	0	0.003163	0	0		A	65780867	A	A	65780867	3	1	106	1	0	0	0	0	1	0	0	0	3979	1464	51	5	456	5	CST6	11	65780867	Missense_Mutation	SNP	T	TCGA-CD-5800-01A-11D-1600-08	4709363	65780867	69225649	102	64269											
CPT1A	1374	broad.mit.edu	37	chr11	68566686	68566686	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactgtgtatacagacttacGtaatttgtagcccaccagga	13	11	8	9	1	0	1	0	0	0	1	0	2	0	2	2	1	4	3	2	1	6	6	rs146551320		TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr11:68566686G>A	uc001oog.3	-	6	863	c.693C>T	c.(691-693)TAC>TAT	p.Y231Y	CPT1A_uc001oof.3_Silent_p.Y231Y|CPT1A_uc009ysj.2_Silent_p.Y231Y	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	231	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	ACAGACTTACGTAATTTGTAG	0.398													5	37					0	0	0.001168	0	0		A	68566686	A	A	68566686	2	1	106	1	0	0	0	0	0	0	0	1	3834	1159	40	1		1	CPT1A	11	68566686	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	2785819	68566686	66439830	103	64270											
INTS4	92105	broad.mit.edu	37	chr11	77635908	77635908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtacagcataagagttcatGaagagcctctcgaatatctc	14	10	8	9	1	3	3	1	1	2	2	5	4	3	3	1	0	3	3	1	0	5	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr11:77635908G>A	uc001oys.2	-	12	1430	c.1402C>T	c.(1402-1404)CAT>TAT	p.H468Y	INTS4_uc001oyt.2_RNA|INTS4_uc001oyu.1_Missense_Mutation_p.H468Y	NM_033547	NP_291025	Q96HW7	INT4_HUMAN	integrator complex subunit 4	468	HEAT 8.				snRNA processing	integrator complex	protein binding			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			AAGAGTTCATGAAGAGCCTCT	0.383													5	57					0	0	0.000602	0	0		A	77635908	A	A	77635908	3	1	106	1	0	0	0	0	1	0	0	0	7796	1290	45	4	1537	4	INTS4	11	77635908	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	9069222	77635908	57370608	104	64271											
DDI1	414301	broad.mit.edu	37	chr11	103907617	103907617	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttctctctccaggtcagcCccgactttgagctccgaaac	7	10	7	17	2	3	1	1	1	2	0	6	3	4	1	5	1	3	1	5	1	1	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr11:103907617C>A	uc001phr.2	+	1	310	c.67C>A	c.(67-69)CCC>ACC	p.P23T	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	23	Ubiquitin-like.				proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		CCAGGTCAGCCCCGACTTTGA	0.512													16	109					4.14922e-12	4.41625e-12	0.004007	1	0		A	103907617	A	A	103907617	3	1	106	1	0	0	0	0	1	0	0	0	4331	623	22	5	69	5	DDI1	11	103907617	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	26271709	103907617	31098899	105	64272											
LAYN	143903	broad.mit.edu	37	chr11	111414845	111414845	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcttgccatctgatggtGacttctggattgggctcagg	6	13	12	10	0	4	2	1	2	3	0	4	3	4	3	2	4	1	1	2	4	0	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr11:111414845G>T	uc001plr.1	+	3	643	c.307G>T	c.(307-309)GAC>TAC	p.D103Y	LAYN_uc001plp.1_Missense_Mutation_p.D95Y|LAYN_uc001plq.1_Missense_Mutation_p.D103Y|LAYN_uc001pls.1_Missense_Mutation_p.D95Y|LAYN_uc010rwg.1_Silent_p.V2V|LAYN_uc010rwh.1_5'UTR	NM_178834	NP_849156	Q6UX15	LAYN_HUMAN	layilin	103	C-type lectin.|Extracellular (Potential).					cell surface|integral to membrane|ruffle	hyaluronic acid binding|sugar binding				0		all_cancers(61;9.06e-10)|all_epithelial(67;1.34e-05)|Melanoma(852;1.74e-05)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.086)		Epithelial(105;1.5e-06)|BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|all cancers(92;2.45e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0476)		ATCTGATGGTGACTTCTGGAT	0.483													5	29					0.000602214	0.000613631	0.000602	1	0		T	111414845	T	T	111414845	3	4	106	1	0	0	0	0	1	0	0	0	8665	1290	45	5	289	5	LAYN	11	111414845	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	7507228	111414845	23591671	106	64273											
SLCO1C1	53919	broad.mit.edu	37	chr12	20903643	20903643	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccagtgtattttggagttttGattgatacttcatgcctcaa	9	17	8	7	0	2	2	2	2	0	0	2	3	2	3	2	1	2	2	2	1	3	8			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr12:20903643G>C	uc001rej.3	+	15	2188	c.1833G>C	c.(1831-1833)TTG>TTC	p.L611F	SLCO1C1_uc010sii.1_Missense_Mutation_p.L611F|SLCO1C1_uc010sij.1_Missense_Mutation_p.L562F|SLCO1C1_uc009zip.2_Missense_Mutation_p.L445F|SLCO1C1_uc001rei.2_Missense_Mutation_p.L611F|SLCO1C1_uc010sik.1_Missense_Mutation_p.L493F	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	611	Helical; Name=11; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					TTGGAGTTTTGATTGATACTT	0.343													7	63					0	0	0.004482	0	0		C	20903643	C	C	20903643	3	2	106	1	0	0	0	0	1	0	0	0	14750	1281	45	5	1883	5	SLCO1C1	12	20903643	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08		20903643	112948252	107	64274											
ALG10B	144245	broad.mit.edu	37	chr12	38714150	38714150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attttgtggcttcatgtttcGgcaaacaaatatcatctggg	10	15	9	7	1	3	0	2	0	1	0	4	0	3	0	0	3	1	3	0	3	3	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr12:38714150G>A	uc001rln.3	+	3	696	c.557G>A	c.(556-558)CGG>CAG	p.R186Q	ALG10B_uc001rlo.3_Missense_Mutation_p.R156Q|ALG10B_uc010skk.1_Missense_Mutation_p.R126Q	NM_001013620	NP_001013642	Q5I7T1	AG10B_HUMAN	asparagine-linked glycosylation 10 homolog B	186	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|plasma membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			ovary(2)|skin(1)	3	Esophageal squamous(101;0.187)	Lung NSC(34;0.204)|all_lung(34;0.235)				TTCATGTTTCGGCAAACAAAT	0.383													37	146					0	0	0.006999	0	0		A	38714150	A	A	38714150	3	1	106	1	0	0	0	0	1	0	0	0	512	1116	39	1	567	1	ALG10B	12	38714150	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	17810507	38714150	95137745	108	64275											
DNAJC22	79962	broad.mit.edu	37	chr12	49743129	49743129	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atactgcccattagcgtggcCgccagcattacagctcagag	10	8	10	13	2	1	1	1	0	0	1	1	1	1	1	3	1	6	2	3	1	3	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr12:49743129C>T	uc001rua.2	+	2	875	c.474C>T	c.(472-474)GCC>GCT	p.A158A	DNAJC22_uc001rub.2_Silent_p.A158A	NM_024902	NP_079178	Q8N4W6	DJC22_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 22	158	Helical; (Potential).				protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			ovary(1)	1						TTAGCGTGGCCGCCAGCATTA	0.547													16	95					0	0	0.004007	0	0		T	49743129	T	T	49743129	2	4	106	1	0	0	0	0	0	0	0	1	4647	639	23	1		1	DNAJC22	12	49743129	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	11028979	49743129	84108766	109	64276											
B4GALNT1	2583	broad.mit.edu	37	chr12	58024855	58024855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctatgagcagctggtcaGctggggactggctcctggca	6	8	17	10	0	1	1	1	1	0	0	2	2	2	2	1	6	3	6	1	6	1	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr12:58024855G>A	uc001spg.1	-	4	830	c.398C>T	c.(397-399)GCT>GTT	p.A133V	B4GALNT1_uc010sru.1_Missense_Mutation_p.A78V|B4GALNT1_uc010srv.1_Missense_Mutation_p.A133V|B4GALNT1_uc001sph.2_Missense_Mutation_p.A133V|B4GALNT1_uc001spi.2_Missense_Mutation_p.A133V	NM_001478	NP_001469	Q00973	B4GN1_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 1	133	Lumenal (Potential).				lipid glycosylation	integral to Golgi membrane|membrane fraction	(N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase activity				0	Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			CAGCTGGTCAGCTGGGGACTG	0.642													18	73					0	0	0.007413	0	0		A	58024855	A	A	58024855	3	1	106	1	0	0	0	0	1	0	0	0	1267	971	34	2	1235	2	B4GALNT1	12	58024855	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	8281726	58024855	75827040	110	64277											
TRHDE	29953	broad.mit.edu	37	chr12	73056851	73056851	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcaagaacttcatgaaaaActatgatggggtagctgctg	13	10	11	7	0	2	3	2	2	0	1	2	3	2	3	0	2	4	4	0	2	6	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr12:73056851A>T	uc001sxa.2	+	19	2981	c.2951A>T	c.(2950-2952)AAC>ATC	p.N984I		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	984	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TTCATGAAAAACTATGATGGG	0.398													5	38					0	0	0.000602	0	0		T	73056851	T	T	73056851	3	4	106	1	0	0	0	0	1	0	0	0	16505	43	2	5	3025	5	TRHDE	12	73056851	Missense_Mutation	SNP	A	TCGA-CD-5800-01A-11D-1600-08	15031996	73056851	60795044	111	64278											
SELPLG	6404	broad.mit.edu	37	chr12	109017971	109017971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtggcctgtctccggtccCgggcaagcaggggacccaag	6	5	16	14	3	1	0	0	0	1	0	3	1	2	1	4	6	1	2	4	6	2	0	rs149021318	byFrequency	TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr12:109017971C>T	uc001tni.2	-	2	273	c.113G>A	c.(112-114)CGG>CAG	p.R38Q	SELPLG_uc001tnh.2_Missense_Mutation_p.R38Q|SELPLG_uc010sxe.1_Missense_Mutation_p.R54Q	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	38	Extracellular (Potential).			Missing (in Ref. 3; BAC05283).	blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0						TCTCCGGTCCCGGGCAAGCAG	0.572													7	56					0	0	0.001984	0	0		T	109017971	T	T	109017971	3	4	106	1	0	0	0	0	1	0	0	0	14045	652	23	1	1103	1	SELPLG	12	109017971	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	35961120	109017971	24833924	112	64279											
WDR66	144406	broad.mit.edu	37	chr12	122398586	122398586	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcgctctcatcgcaaaagCattcgaagtctcctgtttgg	8	13	8	12	3	2	0	1	0	2	0	7	1	2	0	1	1	1	4	1	1	3	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr12:122398586C>G	uc009zxk.2	+	14	2371	c.2229C>G	c.(2227-2229)AGC>AGG	p.S743R		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	743							calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		ATCGCAAAAGCATTCGAAGTC	0.483													7	83					0	0	0.001984	0	0		G	122398586	G	G	122398586	3	3	106	1	0	0	0	0	1	0	0	0	17343	709	25	5	2279	5	WDR66	12	122398586	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	13380615	122398586	11453309	113	64280											
CLIP1	6249	broad.mit.edu	37	chr12	122845543	122845543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctgctgctcacagaggagGccactgagctcatggagctg	8	7	14	12	0	2	2	2	1	0	1	2	4	2	4	2	3	4	4	2	3	0	0			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr12:122845543G>A	uc001ucg.1	-	4	1074	c.968C>T	c.(967-969)GCC>GTC	p.A323V	CLIP1_uc001uch.1_Missense_Mutation_p.A323V|CLIP1_uc001uci.1_Missense_Mutation_p.A323V|CLIP1_uc001ucj.1_Missense_Mutation_p.A24V|CLIP1_uc010tae.1_Missense_Mutation_p.A323V	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	323	Ser-rich.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		CACAGAGGAGGCCACTGAGCT	0.617													4	31					0	0	0.009096	0	0		A	122845543	A	A	122845543	3	1	106	1	0	0	0	0	1	0	0	0	3535	1203	42	2	3399	2	CLIP1	12	122845543	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	446957	122845543	11006352	114	64281											
EP400	57634	broad.mit.edu	37	chr12	132514347	132514347	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatgaggatcttgaggcaggGcctgagagagcacgctgcgc	10	6	16	9	2	1	4	0	3	1	1	1	6	1	5	1	3	2	3	1	3	1	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr12:132514347G>A	uc001ujn.2	+	27	5518	c.5483G>A	c.(5482-5484)GGC>GAC	p.G1828D	EP400_uc001ujl.2_Missense_Mutation_p.G1827D|EP400_uc001ujm.2_Missense_Mutation_p.G1747D|SNORA49_uc001ujo.2_5'Flank	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1864					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		TTGAGGCAGGGCCTGAGAGAG	0.657													6	46					0	0	0.001984	0	0		A	132514347	A	A	132514347	3	1	106	1	0	0	0	0	1	0	0	0	5157	1203	42	2	5586	2	EP400	12	132514347	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	9668804	132514347	1337548	115	64282											
C1QTNF9	338872	broad.mit.edu	37	chr13	24895530	24895530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttcactgtggggctcaCggtgctgagcaagtttcctt	5	14	12	10	1	2	1	2	1	0	0	3	1	3	1	1	3	3	5	1	3	1	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr13:24895530C>T	uc001upj.2	+	4	687	c.626C>T	c.(625-627)ACG>ATG	p.T209M	C1QTNF9_uc001upe.2_RNA	NM_178540	NP_848635	P0C862	C1T9A_HUMAN	C1q and tumor necrosis factor related protein 9	209	C1q.					collagen	hormone activity				0		all_cancers(29;3.55e-20)|all_epithelial(30;4.25e-17)|all_lung(29;1.04e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.00565)|Epithelial(112;0.027)|OV - Ovarian serous cystadenocarcinoma(117;0.115)|Lung(94;0.159)		GTGGGGCTCACGGTGCTGAGC	0.458													6	100					0	0	0.004482	0	0		T	24895530	T	T	24895530	3	4	106	1	0	0	0	0	1	0	0	0	1973	536	19	1	636	1	C1QTNF9	13	24895530	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08		24895530	90274348	116	64283											
FREM2	341640	broad.mit.edu	37	chr13	39266549	39266549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tattgaaagtggaggacagaGacagcttacacatttctctt	13	12	9	7	0	1	2	0	1	1	1	2	5	1	4	0	2	2	1	0	2	3	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr13:39266549G>A	uc001uwv.2	+	1	5377	c.5068G>A	c.(5068-5070)GAC>AAC	p.D1690N		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1690	Extracellular (Potential).|CSPG 12.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GGAGGACAGAGACAGCTTACA	0.473													16	99					0	0	0.004007	0	0		A	39266549	A	A	39266549	3	1	106	1	0	0	0	0	1	0	0	0	6059	942	33	4	5070	4	FREM2	13	39266549	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	14371019	39266549	75903329	117	64284											
THSD1	55901	broad.mit.edu	37	chr13	52952350	52952350	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggaaatggggatttgatccgGaacttgtttgctgcagcttc	8	13	13	7	1	0	1	0	1	0	0	2	4	1	4	1	4	4	4	1	4	2	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr13:52952350G>C	uc001vgo.2	-	5	2300	c.1755C>G	c.(1753-1755)TTC>TTG	p.F585L	THSD1_uc001vgp.2_Missense_Mutation_p.F532L|THSD1_uc010tgz.1_Missense_Mutation_p.F206L|THSD1_uc010aea.2_Missense_Mutation_p.F46L	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	585	Cytoplasmic (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		ATTTGATCCGGAACTTGTTTG	0.572													32	120					0	0	0.009535	0	0		C	52952350	C	C	52952350	3	2	106	1	0	0	0	0	1	0	0	0	15902	1165	41	5	807	5	THSD1	13	52952350	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	13685801	52952350	62217528	118	64285											
DIAPH3	81624	broad.mit.edu	37	chr13	60240797	60240797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaagagccaagaagttccGtttccttttttctgttgctt	10	16	7	8	1	1	2	0	0	1	2	3	2	3	2	3	0	2	4	3	0	4	7			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr13:60240797G>A	uc001vht.2	-	28	3722	c.3503C>T	c.(3502-3504)ACG>ATG	p.T1168M	DIAPH3_uc001vhs.2_RNA	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	1168					actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		AAGAAGTTCCGTTTCCTTTTT	0.383													10	135					0	0	0.006214	0	0		A	60240797	A	A	60240797	3	1	106	1	0	0	0	0	1	0	0	0	4526	1145	40	1	82	1	DIAPH3	13	60240797	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	7288447	60240797	54929081	119	64286											
EDNRB	1910	broad.mit.edu	37	chr13	78492651	78492651	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccagatccgcgacaggcCgcaggcaagaaccagcgcaa	12	2	11	16	4	0	2	0	0	0	2	2	3	2	2	5	2	2	3	5	2	3	0			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr13:78492651C>T	uc001vko.2	-	1	316	c.58G>A	c.(58-60)GGC>AGC	p.G20S	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.G20S|EDNRB_uc010aez.1_Missense_Mutation_p.G20S|EDNRB_uc001vkp.1_Missense_Mutation_p.G103S|EDNRB_uc010afa.1_Missense_Mutation_p.G20S	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	20					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	CGCGACAGGCCGCAGGCAAGA	0.642											OREG0022452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	47					0	0	0.001168	0	0		T	78492651	T	T	78492651	3	4	106	1	0	0	0	0	1	0	0	0	4926	652	23	1	1419	1	EDNRB	13	78492651	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	18251854	78492651	36677227	120	64287											
OR4N2	390429	broad.mit.edu	37	chr14	20295827	20295827	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcctggatgcatcctacTccttcattgtggctccccgg	4	13	8	16	1	1	0	1	0	0	0	5	1	5	1	6	3	2	2	6	3	1	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr14:20295827T>G	uc010tkv.1	+	1	220	c.220T>G	c.(220-222)TCC>GCC	p.S74A		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGCATCCTACTCCTTCATTGT	0.483													19	380					0	0	0.008871	0	0		G	20295827	G	G	20295827	3	3	106	1	0	0	0	0	1	0	0	0	11096	1551	54	5	222	5	OR4N2	14	20295827	Missense_Mutation	SNP	T	TCGA-CD-5800-01A-11D-1600-08		20295827	87053713	121	64288											
LRFN5	145581	broad.mit.edu	37	chr14	42356201	42356201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgttcagtggtctttccaatCttcatcatttgatactgaac	9	17	6	9	0	5	2	3	2	2	0	6	2	6	2	1	1	2	1	1	1	3	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr14:42356201C>T	uc001wvm.2	+	3	1571	c.373C>T	c.(373-375)CTT>TTT	p.L125F	LRFN5_uc010ana.2_Missense_Mutation_p.L125F	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	125	Extracellular (Potential).|LRR 4.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TCTTTCCAATCTTCATCATTT	0.383										HNSCC(30;0.082)			8	64					0	0	0.00308	0	0		T	42356201	T	T	42356201	3	4	106	1	0	0	0	0	1	0	0	0	8959	913	32	4	375	4	LRFN5	14	42356201	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	22060374	42356201	64993339	122	64289											
COQ6	51004	broad.mit.edu	37	chr14	74428508	74428508	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acactgctcttctggctgctAcagacttactaaaaaggctc	11	11	7	12	0	2	1	0	0	2	1	3	1	2	1	0	2	4	4	0	2	5	4	rs150656371		TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr14:74428508A>G	uc001xph.2	+	11	1359	c.1279A>G	c.(1279-1281)ACA>GCA	p.T427A	ENTPD5_uc001xpi.2_Intron|COQ6_uc001xpe.2_Missense_Mutation_p.T352A|COQ6_uc001xpf.2_Missense_Mutation_p.T352A|COQ6_uc010tuk.1_Missense_Mutation_p.T402A|COQ6_uc001xpg.2_Intron	NM_182476	NP_872282	Q9Y2Z9	COQ6_HUMAN	coenzyme Q6 homolog isoform a	427					ubiquinone biosynthetic process	mitochondrion	flavin adenine dinucleotide binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen				0				BRCA - Breast invasive adenocarcinoma(234;0.00337)		TCTGGCTGCTACAGACTTACT	0.498													15	153					0	0	0.00245	0	0		G	74428508	G	G	74428508	3	3	106	1	0	0	0	0	1	0	0	0	3752	391	14	3	1321	3	COQ6	14	74428508	Missense_Mutation	SNP	A	TCGA-CD-5800-01A-11D-1600-08	32072307	74428508	32921032	123	64290											
TRIP11	9321	broad.mit.edu	37	chr14	92469890	92469890	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgtaacgcttgatattctGtttcctttcccctgtatgtt	5	20	6	10	1	1	1	0	1	1	0	3	1	3	1	3	0	1	5	3	0	3	9			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr14:92469890G>C	uc001xzy.2	-	11	5218	c.4430C>G	c.(4429-4431)ACA>AGA	p.T1477R	TRIP11_uc010auf.1_Missense_Mutation_p.T1213R	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	1477	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		TTGATATTCTGTTTCCTTTCC	0.368			T	PDGFRB	AML								18	184					0	0	0.007413	0	0		C	92469890	C	C	92469890	3	2	106	1	0	0	0	0	1	0	0	0	16581	1377	48	5	1553	5	TRIP11	14	92469890	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	18041382	92469890	14879650	124	64291											
SERPINA1	5265	broad.mit.edu	37	chr14	94847294	94847294	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agtttcccctcatcaggcagGaagaagatggcggtggcatt	10	9	13	9	1	2	2	2	0	0	2	3	3	3	3	2	5	0	3	2	5	2	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr14:94847294G>A	uc001ycx.3	-	3	1092	c.831C>T	c.(829-831)TTC>TTT	p.F277F	SERPINA1_uc001ycw.3_RNA|SERPINA1_uc010auw.2_Silent_p.F277F|SERPINA1_uc010aux.2_Silent_p.F277F|SERPINA1_uc001ycy.3_Silent_p.F277F|SERPINA1_uc010auy.2_Silent_p.F277F|SERPINA1_uc001ycz.3_Silent_p.F277F|SERPINA1_uc010auz.2_Silent_p.F277F|SERPINA1_uc010ava.2_Silent_p.F277F|SERPINA1_uc001ydb.3_Silent_p.F277F|SERPINA1_uc010avb.2_Silent_p.F277F|SERPINA1_uc001ydc.3_Silent_p.F277F|SERPINA1_uc001yda.1_Silent_p.F277F	NM_000295	NP_000286	P01009	A1AT_HUMAN	serine proteinase inhibitor, clade A, member 1	277					acute-phase response|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen|proteinaceous extracellular matrix	protease binding|serine-type endopeptidase inhibitor activity			skin(1)	1		all_cancers(154;0.0649)|all_epithelial(191;0.223)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)	Alpha-1-proteinase inhibitor(DB00058)	CATCAGGCAGGAAGAAGATGG	0.488									Alpha-1-Antitrypsin_Deficiency				5	83					0	0	0.000602	0	0		A	94847294	A	A	94847294	2	1	106	1	0	0	0	0	0	0	0	1	14111	1165	41	4		4	SERPINA1	14	94847294	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	2377404	94847294	12502246	125	64292											
RTL1	388015	broad.mit.edu	37	chr14	101349151	101349151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtgaaccactcggctcCgtgtaactggtcaaacagtt	9	13	9	10	2	1	1	1	1	0	0	3	1	2	1	2	2	3	3	2	2	3	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr14:101349151C>T	uc010txj.1	-	1	2034	c.1975G>A	c.(1975-1977)GGA>AGA	p.G659R	uc001yig.3_5'Flank|MIR127_hsa-mir-127|MI0000472_5'Flank|MIR432_hsa-mir-432|MI0003133_5'Flank|uc010txk.1_5'Flank|MIR136_hsa-mir-136|MI0000475_5'Flank	NM_001134888	NP_001128360	A6NKG5	RTL1_HUMAN	retrotransposon-like 1	659										pancreas(1)	1						CACTCGGCTCCGTGTAACTGG	0.532													3	5					0	0	0.004672	0	0		T	101349151	T	T	101349151	3	4	106	1	0	0	0	0	1	0	0	0	13749	661	23	1	2105	1	RTL1	14	101349151	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	6501857	101349151	6000389	126	64293											
CCPG1	9236	broad.mit.edu	37	chr15	55651934	55651934	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaaaaacttattgatgaaCtgatcaagttcgttccagtg	14	12	9	6	1	1	3	1	3	0	0	3	4	2	4	1	1	2	2	1	1	5	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr15:55651934C>T	uc002acv.1	-	8	2202	c.2037G>A	c.(2035-2037)CAG>CAA	p.Q679Q	CCPG1_uc002acy.2_Silent_p.Q679Q|CCPG1_uc002acu.1_Silent_p.Q535Q|CCPG1_uc002acw.1_Silent_p.Q404Q|CCPG1_uc002acx.2_Intron|CCPG1_uc010bfk.1_Silent_p.Q679Q|CCPG1_uc002acz.1_Silent_p.Q679Q	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2	679	Lumenal (Potential).				cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		TATTGATGAACTGATCAAGTT	0.333													15	47					0	0	0.003163	0	0		T	55651934	T	T	55651934	2	4	106	1	0	0	0	0	0	0	0	1	2941	564	20	4		4	CCPG1	15	55651934	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08		55651934	46879458	127	64294											
GTF3C1	2975	broad.mit.edu	37	chr16	27480772	27480772	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagttggtgtgggaggcttgCgcaggtttcacctccatgct	5	13	14	9	1	1	0	1	0	0	0	2	1	2	1	2	4	2	5	2	4	1	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr16:27480772C>T	uc002dov.1	-	32	4954	c.4914G>A	c.(4912-4914)GCG>GCA	p.A1638A	GTF3C1_uc002dou.2_Silent_p.A1638A	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1638						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						GGGAGGCTTGCGCAGGTTTCA	0.602													8	32					0	0	0.00308	0	0		T	27480772	T	T	27480772	2	4	106	1	0	0	0	0	0	0	0	1	6888	755	27	1		1	GTF3C1	16	27480772	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08		27480772	62873981	128	64295											
SLC9A5	6553	broad.mit.edu	37	chr16	67293838	67293838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctgcggaggcctctacaagCcgcgccgtagggtgagagca	8	6	15	12	4	2	1	0	1	2	1	2	3	2	2	3	3	4	2	3	3	3	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr16:67293838C>T	uc002esm.2	+	12	1894	c.1831C>T	c.(1831-1833)CCG>TCG	p.P611S	SLC9A5_uc010cee.2_Missense_Mutation_p.P316S|SLC9A5_uc010vji.1_Missense_Mutation_p.P115S|uc002esn.1_5'Flank	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	611					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		CCTCTACAAGCCGCGCCGTAG	0.597													5	19					0	0	0.001168	0	0		T	67293838	T	T	67293838	3	4	106	1	0	0	0	0	1	0	0	0	14742	739	26	2	1877	2	SLC9A5	16	67293838	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	39813066	67293838	23060915	129	64296											
NQO1	1728	broad.mit.edu	37	chr16	69745175	69745175	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttggaagccacagaaatgcaGaatgccactctgaggataca	15	7	10	9	0	1	3	0	1	1	2	1	5	1	5	2	2	4	1	2	2	4	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr16:69745175G>C	uc002exp.2	-	6	720	c.529C>G	c.(529-531)CTG>GTG	p.L177V	NQO1_uc010cfm.2_Missense_Mutation_p.L156V|NQO1_uc002exq.2_Missense_Mutation_p.L143V|NQO1_uc002exr.2_Missense_Mutation_p.L139V|NQO1_uc010vll.1_Missense_Mutation_p.L105V	NM_000903	NP_000894	P15559	NQO1_HUMAN	NAD(P)H menadione oxidoreductase 1,	177					nitric oxide biosynthetic process|regulation of cellular amino acid metabolic process|response to toxin|synaptic transmission, cholinergic|xenobiotic metabolic process	cytosol	coenzyme binding|cytochrome-b5 reductase activity|electron carrier activity|NAD(P)H dehydrogenase (quinone) activity				0					Dicumarol(DB00266)|Menadione(DB00170)	CAGAAATGCAGAATGCCACTC	0.453													20	119					0	0	0.007413	0	0		C	69745175	C	C	69745175	3	2	106	1	0	0	0	0	1	0	0	0	10630	933	33	5	299	5	NQO1	16	69745175	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	2451337	69745175	20609578	130	64297											
COG4	25839	broad.mit.edu	37	chr16	70515668	70515668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgacccctttaccttaccCggttaaaggtggatttcagc	9	12	8	12	1	1	1	1	1	0	0	1	2	1	2	4	3	3	1	4	3	4	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr16:70515668C>T	uc002ezc.2	-	17	2116	c.2105G>A	c.(2104-2106)CGG>CAG	p.R702Q	COG4_uc002eza.2_Missense_Mutation_p.R39Q|COG4_uc002ezb.2_Missense_Mutation_p.R158Q|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Missense_Mutation_p.R681Q|COG4_uc002eze.2_Missense_Mutation_p.R396Q	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	698	D domain.				Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)				TTACCTTACCCGGTTAAAGGT	0.572													3	14					0	0	0.004672	0	0		T	70515668	T	T	70515668	3	4	106	1	0	0	0	0	1	0	0	0	3663	666	23	1	276	1	COG4	16	70515668	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	770493	70515668	19839085	131	64298											
HPR	3250	broad.mit.edu	37	chr16	72110948	72110948	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaggtgacttccatccagCactgggttcagaagaccata	12	9	10	10	0	1	4	1	2	0	2	3	4	3	4	3	2	1	2	3	2	3	3	rs12646	by1000genomes	TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr16:72110948C>G	uc002fby.2	+	5	1045	c.1015C>G	c.(1015-1017)CAC>GAC	p.H339D	TXNL4B_uc010cgl.2_Intron	NM_020995	NP_066275	P00739	HPTR_HUMAN	haptoglobin-related protein precursor	339	Peptidase S1.				proteolysis	spherical high-density lipoprotein particle	hemoglobin binding|serine-type endopeptidase activity	p.H339D(1)		central_nervous_system(1)	1		Ovarian(137;0.125)				TTCCATCCAGCACTGGGTTCA	0.542													5	57					0	0	0.001168	0	0		G	72110948	G	G	72110948	3	3	106	1	0	0	0	0	1	0	0	0	7353	710	25	5	1033	5	HPR	16	72110948	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	1595280	72110948	18243805	132	64299											
ANKRD11	29123	broad.mit.edu	37	chr16	89350371	89350371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgtagtctgtcactggcGagtcccagctgtcctcccct	4	11	9	17	1	2	0	1	0	1	0	5	1	5	0	5	1	1	2	5	1	1	1	rs145730800		TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr16:89350371G>A	uc002fmx.1	-	9	3040	c.2579C>T	c.(2578-2580)TCG>TTG	p.S860L	ANKRD11_uc002fmy.1_Missense_Mutation_p.S860L|ANKRD11_uc002fnc.1_Missense_Mutation_p.S860L|ANKRD11_uc002fnb.1_Missense_Mutation_p.S817L	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	860	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TGTCACTGGCGAGTCCCAGCT	0.537													8	54					0	0	0.004482	0	0		A	89350371	A	A	89350371	3	1	106	1	0	0	0	0	1	0	0	0	639	1059	37	1	5432	1	ANKRD11	16	89350371	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	17239423	89350371	1004382	133	64300											
RPA1	6117	broad.mit.edu	37	chr17	1782886	1782886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaagagctatgaagacGccactaaaatcacagtgagg	15	7	10	9	1	2	4	1	2	1	2	2	4	2	4	1	1	2	2	1	1	5	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr17:1782886G>A	uc002fto.2	+	11	1100	c.985G>A	c.(985-987)GCC>ACC	p.A329T		NM_002945	NP_002936	P27694	RFA1_HUMAN	replication protein A1	329					cell cycle checkpoint|DNA recombinase assembly|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	actin cytoskeleton|cytoplasm|DNA replication factor A complex|PML body	metal ion binding|protein binding|single-stranded DNA binding				0						CTATGAAGACGCCACTAAAAT	0.488								NER					36	94					0	0	0.004289	0	0		A	1782886	A	A	1782886	3	1	106	1	0	0	0	0	1	0	0	0	13561	1087	38	1	1027	1	RPA1	17	1782886	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08		1782886	79412324	134	64301											
NUP88	4927	broad.mit.edu	37	chr17	5312217	5312217	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtctctcctagagatgcGgtatacgcccttctggaaag	8	11	11	11	2	2	1	0	0	2	1	4	3	3	2	2	2	2	2	2	2	4	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr17:5312217G>A	uc002gbo.1	-	5	719	c.693C>T	c.(691-693)ACC>ACT	p.T231T	NUP88_uc010vsx.1_Silent_p.T231T|NUP88_uc010cle.1_Silent_p.T230T|NUP88_uc010vsy.1_Silent_p.T231T	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	231					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1						CTAGAGATGCGGTATACGCCC	0.323													28	25					0	0	0.004656	0	0		A	5312217	A	A	5312217	2	1	106	1	0	0	0	0	0	0	0	1	10790	1103	39	1		1	NUP88	17	5312217	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	3529331	5312217	75882993	135	64302											
TP53	7157	broad.mit.edu	37	chr17	7578526	7578526	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggtcttggccagttggCaaaacatcttgttgagggca	9	10	14	8	0	2	1	0	1	2	0	2	1	2	1	1	5	1	5	1	5	2	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr17:7578526C>A	uc002gim.2	-	5	598	c.404G>T	c.(403-405)TGC>TTC	p.C135F	TP53_uc002gig.1_Missense_Mutation_p.C135F|TP53_uc002gih.2_Missense_Mutation_p.C135F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C3F|TP53_uc010cng.1_Missense_Mutation_p.C3F|TP53_uc002gii.1_Missense_Mutation_p.C3F|TP53_uc010cnh.1_Missense_Mutation_p.C135F|TP53_uc010cni.1_Missense_Mutation_p.C135F|TP53_uc002gij.2_Missense_Mutation_p.C135F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C42F|TP53_uc002gio.2_Missense_Mutation_p.C3F|TP53_uc010vug.1_Missense_Mutation_p.C96F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	135	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		C -> S (in sporadic cancers; somatic mutation).|C -> Y (in sporadic cancers; somatic mutation; decreased E6-mediated binding to E6-AP).|C -> T (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|C -> R (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> F (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C135Y(51)|p.C135F(34)|p.C135W(19)|p.C135S(10)|p.C135fs*35(9)|p.0?(7)|p.C135*(7)|p.C135G(6)|p.C135R(6)|p.C135C(5)|p.C135fs*14(2)|p.N131fs*27(2)|p.F134_T140>S(1)|p.K132_A138delKMFCQLA(1)|p.S127_Q136del10(1)|p.C135T(1)|p.V73fs*9(1)|p.C135fs*36(1)|p.C135fs*15(1)|p.Y126fs*11(1)|p.C135_A138delCQLA(1)|p.C42Y(1)|p.C3Y(1)|p.M133fs*13(1)|p.C135_T140delCQLAKT(1)|p.Q136fs*13(1)|p.C135_Q136insXXXXXX(1)|p.C135_Q136insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGCCAGTTGGCAAAACATCTT	0.572		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			15	14					2.62699e-14	2.80996e-14	0.003163	1	0		A	7578526	A	A	7578526	3	1	106	1	0	0	0	0	1	0	0	0	16407	710	25	5	894	5	TP53	17	7578526	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	2266309	7578526	73616684	136	64303											
KDM6B	23135	broad.mit.edu	37	chr17	7748912	7748912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggggcccgcgctgcaCgggaagcctttgcccttggg	4	7	15	15	3	0	0	0	0	0	0	1	1	1	1	4	4	3	2	4	4	1	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr17:7748912C>T	uc002giw.1	+	4	416	c.40C>T	c.(40-42)CGG>TGG	p.R14W	KDM6B_uc002gix.2_5'Flank	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	14					inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						CCGCGCTGCACGGGAAGCCTT	0.642													11	72					0	0	0.008291	0	0		T	7748912	T	T	7748912	3	4	106	1	0	0	0	0	1	0	0	0	8154	527	19	1	42	1	KDM6B	17	7748912	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	170386	7748912	73446298	137	64304											
MMP28	79148	broad.mit.edu	37	chr17	34093640	34093640	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcgccagtagcggtcatctCggaagaagatgatggagcca	11	6	15	9	3	2	3	1	1	1	2	3	5	2	5	2	4	2	1	2	4	3	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr17:34093640C>T	uc002hjy.1	-	10	1701	c.1442G>A	c.(1441-1443)CGA>CAA	p.R481Q	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	481	Hemopexin-like 4.				proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GCGGTCATCTCGGAAGAAGAT	0.672													11	18					0	0	0.008291	0	0		T	34093640	T	T	34093640	3	4	106	1	0	0	0	0	1	0	0	0	9683	884	31	1	124	1	MMP28	17	34093640	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	26344728	34093640	47101570	138	64305											
CCL5	6352	broad.mit.edu	37	chr17	34199417	34199417	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagttgatgtactcccgaacCcatttcttctctgggttggc	6	14	10	11	1	2	1	0	1	2	0	4	3	3	1	2	2	2	3	2	2	2	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr17:34199417C>G	uc002hkf.2	-	3	308	c.240G>C	c.(238-240)TGG>TGC	p.W80C		NM_002985	NP_002976	P13501	CCL5_HUMAN	small inducible cytokine A5 precursor	80					activation of phospholipase D activity|cell-cell signaling|cellular protein complex assembly|chemokine-mediated signaling pathway|dendritic cell chemotaxis|eosinophil chemotaxis|immune response|leukocyte cell-cell adhesion|macrophage chemotaxis|negative regulation of T cell apoptosis|negative regulation of viral genome replication|neutrophil activation|positive regulation of activation of JAK2 kinase activity|positive regulation of cell-cell adhesion mediated by integrin|positive regulation of homotypic cell-cell adhesion|positive regulation of innate immune response|positive regulation of macrophage chemotaxis|positive regulation of monocyte chemotaxis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of T cell apoptosis|positive regulation of T cell chemotaxis|positive regulation of T cell proliferation|positive regulation of translational initiation|positive regulation of tyrosine phosphorylation of STAT protein|positive regulation of viral genome replication|protein tetramerization|regulation of chronic inflammatory response|response to virus	extracellular space	CCR1 chemokine receptor binding|CCR4 chemokine receptor binding|CCR5 chemokine receptor binding|chemoattractant activity|chemokine activity|chemokine receptor antagonist activity|protein homodimerization activity|protein self-association|receptor signaling protein tyrosine kinase activator activity				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0183)		ACTCCCGAACCCATTTCTTCT	0.502													12	106					0	0	0.013537	0	0		G	34199417	G	G	34199417	3	3	106	1	0	0	0	0	1	0	0	0	2908	624	22	5	39	5	CCL5	17	34199417	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	105777	34199417	46995793	139	64306											
ACLY	47	broad.mit.edu	37	chr17	40049326	40049326	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccactgagggctcgtctcGggagcagacatagtcaaagt	11	7	13	10	2	2	2	1	1	1	1	4	3	2	3	1	2	2	2	1	2	2	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr17:40049326G>A	uc002hyg.2	-	15	1724	c.1561C>T	c.(1561-1563)CGA>TGA	p.R521*	ACLY_uc002hyh.2_Nonsense_Mutation_p.R511*|ACLY_uc002hyi.2_Nonsense_Mutation_p.R575*|ACLY_uc010wfx.1_Nonsense_Mutation_p.R565*|ACLY_uc010wfy.1_Nonsense_Mutation_p.R250*	NM_001096	NP_001087	P53396	ACLY_HUMAN	ATP citrate lyase isoform 1	521					ATP catabolic process|cellular carbohydrate metabolic process|citrate metabolic process|coenzyme A metabolic process|energy reserve metabolic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	citrate lyase complex|cytosol|nucleus	ATP binding|ATP citrate synthase activity|citrate (pro-3S)-lyase activity|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			ovary(2)|central_nervous_system(1)	3		Breast(137;0.000143)				GGCTCGTCTCGGGAGCAGACA	0.557													26	87					0	0	0.005443	0	0		A	40049326	A	A	40049326	4	1	106	1	0	0	0	0	0	1	0	0	143	1124	39	1	1804	1	ACLY	17	40049326	Nonsense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	5849909	40049326	41145884	140	64307											
DHX58	79132	broad.mit.edu	37	chr17	40261296	40261296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccgcgtacctggctgcGcctgtggcagaggttgtact	4	9	14	14	3	0	1	0	0	0	1	0	1	0	1	4	3	3	5	4	3	2	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr17:40261296G>A	uc002hyw.3	-	6	893	c.670C>T	c.(670-672)CGC>TGC	p.R224C	DHX58_uc002hyv.3_RNA|DHX58_uc010wgf.1_Missense_Mutation_p.R217C	NM_024119	NP_077024	Q96C10	DHX58_HUMAN	RNA helicase LGP2	224					innate immune response	cytoplasm	ATP binding|DNA binding|helicase activity|protein binding|RNA binding|zinc ion binding				0		all_cancers(22;9.73e-07)|all_epithelial(22;3.58e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		ACCTGGCTGCGCCTGTGGCAG	0.398													5	31					0	0	0.001984	0	0		A	40261296	A	A	40261296	3	1	106	1	0	0	0	0	1	0	0	0	4520	1087	38	1	1402	1	DHX58	17	40261296	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	211970	40261296	40933914	141	64308											
RUNDC1	146923	broad.mit.edu	37	chr17	41141403	41141403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aactggacatgaatctgaatGaggacatcagttccctgtcc	12	10	9	10	0	2	3	1	3	1	0	4	5	4	5	2	2	1	1	2	2	3	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr17:41141403G>A	uc002ici.1	+	3	715	c.703G>A	c.(703-705)GAG>AAG	p.E235K	RUNDC1_uc010whi.1_Missense_Mutation_p.E5K	NM_173079	NP_775102	Q96C34	RUND1_HUMAN	RUN domain containing 1	235	Potential.										0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		GAATCTGAATGAGGACATCAG	0.458													10	55					0	0	0.006214	0	0		A	41141403	A	A	41141403	3	1	106	1	0	0	0	0	1	0	0	0	13767	1291	45	4	713	4	RUNDC1	17	41141403	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	880107	41141403	40053807	142	64309											
PTPRM	5797	broad.mit.edu	37	chr18	7567872	7567872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacttttgctaactgcggCgggcgagacgttctcaggta	7	10	14	10	5	1	1	1	0	1	1	2	3	1	2	0	4	3	3	0	4	2	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr18:7567872C>T	uc002knn.3	+	1	559	c.56C>T	c.(55-57)GCG>GTG	p.A19V	PTPRM_uc010dkv.2_Missense_Mutation_p.A19V	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	19					homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				CTAACTGCGGCGGGCGAGACG	0.388													47	18					0	0	0.01441	0	0		T	7567872	T	T	7567872	3	4	106	1	0	0	0	0	1	0	0	0	12831	768	27	1	58	1	PTPRM	18	7567872	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08		7567872	70509376	143	64310											
PTPRM	5797	broad.mit.edu	37	chr18	8069752	8069752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggcaaatcactatccgctggGagccatttggatataatgta	12	11	10	8	1	1	0	1	0	0	0	2	2	2	2	2	3	1	3	2	3	5	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr18:8069752G>A	uc002knn.3	+	8	1704	c.1201G>A	c.(1201-1203)GAG>AAG	p.E401K	PTPRM_uc010dkv.2_Missense_Mutation_p.E401K|PTPRM_uc010wzl.1_Missense_Mutation_p.E188K	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	401	Fibronectin type-III 2.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				TATCCGCTGGGAGCCATTTGG	0.418													5	75					0	0	0.000602	0	0		A	8069752	A	A	8069752	3	1	106	1	0	0	0	0	1	0	0	0	12831	1175	41	4	1231	4	PTPRM	18	8069752	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	501880	8069752	70007496	144	64311											
NPC1	4864	broad.mit.edu	37	chr18	21124448	21124448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagccaccgagctcagcaCgatcaagatgcccgcgatgc	11	4	11	15	4	2	1	2	0	0	1	2	4	2	1	3	0	5	3	3	0	2	0			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr18:21124448C>T	uc002kum.3	-	13	2264	c.1990G>A	c.(1990-1992)GTG>ATG	p.V664M	NPC1_uc010xaz.1_Missense_Mutation_p.V397M|NPC1_uc010xba.1_Missense_Mutation_p.V509M	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	664	SSD.|Helical; (Potential).		V -> M (in NPC1).		autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					GAGCTCAGCACGATCAAGATG	0.532													9	57					0	0	0.004482	0	0		T	21124448	T	T	21124448	3	4	106	1	0	0	0	0	1	0	0	0	10589	536	19	1	1898	1	NPC1	18	21124448	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	13054696	21124448	56952800	145	64312											
ZNF521	25925	broad.mit.edu	37	chr18	22805849	22805849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggtaacatgcttcagcaagGattcttggttggggaattcc	9	13	12	7	0	2	0	1	0	1	0	3	2	3	2	1	5	3	4	1	5	3	6			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr18:22805849G>A	uc002kvk.2	-	4	2280	c.2033C>T	c.(2032-2034)TCC>TTC	p.S678F	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.S678F|ZNF521_uc002kvl.2_Missense_Mutation_p.S458F	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	678	C2H2-type 15.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					CTTCAGCAAGGATTCTTGGTT	0.423			T	PAX5	ALL								26	245					0	0	0.003954	0	0		A	22805849	A	A	22805849	3	1	106	1	0	0	0	0	1	0	0	0	17990	1174	41	4	1922	4	ZNF521	18	22805849	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	1681401	22805849	55271399	146	64313											
ZNF397OS	100101467	broad.mit.edu	37	chr18	32834016	32834016	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atagagcttttccctagtgtCaacgctctgttgtgtaatat	9	16	8	8	1	2	1	1	0	1	1	3	1	3	1	1	0	2	4	1	0	5	7			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr18:32834016C>G	uc002kym.2	-	4	1111	c.883G>C	c.(883-885)GAC>CAC	p.D295H	ZNF397_uc010dmq.2_Intron|ZNF397_uc010dmr.2_Intron|ZNF397_uc002kyj.2_Intron|ZNF397OS_uc002kyl.2_5'Flank|ZNF397OS_uc010xce.1_Missense_Mutation_p.D295H	NM_001112734	NP_001106205	Q86W11	ZSC30_HUMAN	zinc finger protein 397 opposite strand	295					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TCCCTAGTGTCAACGCTCTGT	0.428													17	254					0	0	0.004007	0	0		G	32834016	G	G	32834016	3	3	106	1	0	0	0	0	1	0	0	0	17909	826	29	5	605	5	ZNF397OS	18	32834016	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	10028167	32834016	45243232	147	64314											
KIAA1632	57724	broad.mit.edu	37	chr18	43438665	43438665	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccaaggtgaggcactcCtgcaggaactcttccatggt	8	9	11	13	0	1	1	0	1	1	0	3	2	3	2	3	4	3	2	3	4	2	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr18:43438665C>T	uc002lbm.2	-	41	7192	c.7092G>A	c.(7090-7092)CAG>CAA	p.Q2364Q	KIAA1632_uc010xcq.1_Silent_p.Q918Q|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Silent_p.Q1239Q	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	2364					autophagy						0						TGAGGCACTCCTGCAGGAACT	0.468													4	50					0	0	0.009096	0	0		T	43438665	T	T	43438665	2	4	106	1	0	0	0	0	0	0	0	1	8265	680	24	4		4	KIAA1632	18	43438665	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	10604649	43438665	34638583	148	64315											
C3	718	broad.mit.edu	37	chr19	6712411	6712411	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccatcagggttcgtcaCgaacacctgtgatgtggggt	9	9	14	9	2	2	2	2	1	0	1	3	3	2	2	2	3	2	1	2	3	1	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr19:6712411C>G	uc002mfm.2	-	11	1188	c.1126G>C	c.(1126-1128)GTG>CTG	p.V376L		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	376					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		GGGTTCGTCACGAACACCTGT	0.657													22	34					0	0	0.010504	0	0		G	6712411	G	G	6712411	3	3	106	1	0	0	0	0	1	0	0	0	2207	536	19	5	3989	5	C3	19	6712411	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08		6712411	52416572	149	64316											
VAV1	7409	broad.mit.edu	37	chr19	6833745	6833745	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcccaggaactatgaagaagGtaagactttcccgtggtcct	11	10	10	10	1	0	3	0	1	0	2	3	4	3	4	3	3	1	1	3	3	5	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr19:6833745G>A	uc002mfu.1	+	18	1828	c.1731_splice	c.e18+1	p.K577_splice	VAV1_uc010xjh.1_Splice_Site_p.K545_splice|VAV1_uc010dva.1_Splice_Site_p.K577_splice|VAV1_uc002mfv.1_Splice_Site_p.K522_splice	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						TATGAAGAAGGTAAGACTTTC	0.542													30	74					0	0	0.008361	0	0		A	6833745	A	A	6833745	5	1	106	1	0	0	0	0	0	0	1	0	17157	1275	44	4	1802	4	VAV1	19	6833745	Splice_Site	SNP	G	TCGA-CD-5800-01A-11D-1600-08	121334	6833745	52295238	150	64317											
CCDC151	115948	broad.mit.edu	37	chr19	11545634	11545634	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaactcagccacctgagaGtgcacagagggcttccctgc	9	8	11	13	0	1	2	1	1	0	2	2	3	2	2	3	1	4	3	3	1	1	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr19:11545634G>T	uc002mrs.2	-	1	347	c.204C>A	c.(202-204)CAC>CAA	p.H68Q	CCDC151_uc010dxz.2_Missense_Mutation_p.H68Q|PRKCSH_uc002mrt.2_5'Flank|PRKCSH_uc002mru.2_5'Flank|PRKCSH_uc010xlz.1_5'Flank|PRKCSH_uc010dya.2_5'Flank|PRKCSH_uc002mrv.1_5'Flank|PRKCSH_uc010dyb.2_5'Flank	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	68										ovary(1)	1						CCACCTGAGAGTGCACAGAGG	0.567											OREG0025257	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	373					4.7546e-09	5.01098e-09	0.004007	1	0		T	11545634	T	T	11545634	3	4	106	1	0	0	0	0	1	0	0	0	2789	1020	36	5	1635	5	CCDC151	19	11545634	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	4711889	11545634	47583349	151	64318											
MEF2B	100271849	broad.mit.edu	37	chr19	19261546	19261546	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatttttttcctccccatcGtcccaggctgagtggaatga	7	13	10	11	1	0	2	0	2	0	0	4	4	3	4	4	3	0	1	4	3	1	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr19:19261546G>A	uc002nlm.2	-	2	113	c.-1C>T	c.(-3-1)GACGA>GATGA		MEF2B_uc002nln.2_Missense_Mutation_p.T47M|MEF2B_uc002nll.2_Translation_Start_Site|LOC729991-MEF2B_uc010xqo.1_Translation_Start_Site|LOC729991-MEF2B_uc010xqp.1_Translation_Start_Site|LOC729991-MEF2B_uc002nlo.2_Translation_Start_Site|LOC729991-MEF2B_uc002nlp.2_Translation_Start_Site|MEF2B_uc002nlk.2_Translation_Start_Site	NM_001145785	NP_001139257			myocyte enhancer factor 2B isoform a											skin(1)	1			OV - Ovarian serous cystadenocarcinoma(5;0.00011)|Epithelial(12;0.00412)			CCTCCCCATCGTCCCAGGCTG	0.557													5	43					0	0	0.000602	0	0		A	19261546	A	A	19261546	1	1	106	1	0	0	0	0	0	0	0	0	9474	1160	40	1		1	MEF2B	19	19261546	Translation_Start_Site	SNP	G	TCGA-CD-5800-01A-11D-1600-08	7715912	19261546	39867437	152	64319											
ZNF208	7757	broad.mit.edu	37	chr19	22156661	22156661	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttgtagggtttctctccaGtatgaattttcttatgataa	10	19	7	5	0	2	2	0	2	2	0	4	2	3	2	1	1	0	3	1	1	5	8			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr19:22156661G>T	uc002nqp.2	-	4	1324	c.1175C>A	c.(1174-1176)ACT>AAT	p.T392N	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTTCTCTCCAGTATGAATTTT	0.388													10	80					3.86212e-05	3.97299e-05	0.008291	1	0		T	22156661	T	T	22156661	3	4	106	1	0	0	0	0	1	0	0	0	17791	1029	36	5	2671	5	ZNF208	19	22156661	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	2895115	22156661	36972322	153	64320											
HNRNPL	3191	broad.mit.edu	37	chr19	39321782	39321782	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagtcagcgtctctcgaaatCttgttgaagcactctaccat	10	12	7	12	2	4	1	1	1	3	0	6	2	4	1	1	0	3	2	1	0	3	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr19:39321782C>T	uc002ojj.1	-	7	992	c.912G>A	c.(910-912)AAG>AAA	p.K304K	ECH1_uc002oji.2_Silent_p.K95K|ECH1_uc010xuk.1_Silent_p.K95K|HNRNPL_uc010ege.1_Intron	NM_001005335	NP_001005335	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	Error:Variant_position_missing_in_P14866_after_alignment					nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			CTCTCGAAATCTTGTTGAAGC	0.537													9	57					0	0	0.008291	0	0		T	39321782	T	T	39321782	2	4	106	1	0	0	0	0	0	0	0	1	7286	912	32	4		4	HNRNPL	19	39321782	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	17165121	39321782	19807201	154	64321											
GRIK5	2901	broad.mit.edu	37	chr19	42558546	42558546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggccagaggcttcacacCgatctcctggctgcggttca	8	8	11	14	2	3	1	2	0	1	1	4	2	3	1	3	4	1	3	3	4	0	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr19:42558546C>T	uc002osj.1	-	8	1017	c.982G>A	c.(982-984)GGT>AGT	p.G328S	GRIK5_uc010eib.1_Missense_Mutation_p.G247S	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	328	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	GGCTTCACACCGATCTCCTGG	0.652													7	49					0	0	0.001984	0	0		T	42558546	T	T	42558546	3	4	106	1	0	0	0	0	1	0	0	0	6793	652	23	1	2008	1	GRIK5	19	42558546	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	3236764	42558546	16570437	155	64322											
CCDC61	729440	broad.mit.edu	37	chr19	46498688	46498688	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgaccaatcagaagcgAgaacgccggatcctggggcg	10	5	15	11	4	1	3	1	1	0	2	2	5	2	4	3	3	2	1	3	3	3	0			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr19:46498688A>G	uc002pdw.2	+	2	86	c.86A>G	c.(85-87)GAG>GGG	p.E29G		NM_001080402	NP_001073871			coiled-coil domain containing 61											ovary(1)	1		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00221)|GBM - Glioblastoma multiforme(486;0.0233)|Epithelial(262;0.164)		ATCAGAAGCGAGAACGCCGGA	0.612													3	7					0	0	0.004672	0	0		G	46498688	G	G	46498688	3	3	106	1	0	0	0	0	1	0	0	0	2835	304	11	3	92	3	CCDC61	19	46498688	Missense_Mutation	SNP	A	TCGA-CD-5800-01A-11D-1600-08	3940142	46498688	12630295	156	64323											
CHMP2A	27243	broad.mit.edu	37	chr19	59065483	59065483	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggtctctagtttctgtcGctcgcggtccagctcccgca	3	12	11	15	4	2	0	0	0	2	0	7	0	4	0	2	2	1	4	2	2	1	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr19:59065483G>A	uc002qti.2	-	1	523	c.97C>T	c.(97-99)CGA>TGA	p.R33*	CHMP2A_uc002qtj.2_Nonsense_Mutation_p.R33*|CHMP2A_uc002qtk.2_Nonsense_Mutation_p.R33*	NM_198426	NP_940818	O43633	CHM2A_HUMAN	chromatin modifying protein 2A	33	Potential.				cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein domain specific binding				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0434)|all cancers(4;1.39e-13)|Epithelial(4;1.01e-10)|OV - Ovarian serous cystadenocarcinoma(4;2.34e-09)|GBM - Glioblastoma multiforme(193;0.0102)|Lung(386;0.179)		AGTTTCTGTCGCTCGCGGTCC	0.582													10	102					0	0	0.006214	0	0		A	59065483	A	A	59065483	4	1	106	1	0	0	0	0	0	1	0	0	3357	1095	38	1	591	1	CHMP2A	19	59065483	Nonsense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	12566795	59065483	63500	157	64324											
TGM6	343641	broad.mit.edu	37	chr20	2384268	2384268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcagtcaccgccatccgcGagggtgatgtgcacctggct	6	8	12	15	3	2	1	2	1	0	0	3	2	3	1	5	2	1	2	5	2	0	0	rs148470870	byFrequency	TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr20:2384268G>A	uc002wfy.1	+	9	1196	c.1135G>A	c.(1135-1137)GAG>AAG	p.E379K	TGM6_uc010gal.1_Missense_Mutation_p.E379K	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	379					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	CGCCATCCGCGAGGGTGATGT	0.637													6	97					0	0	0.001168	0	0		A	2384268	A	A	2384268	3	1	106	1	0	0	0	0	1	0	0	0	15859	1059	37	1	1169	1	TGM6	20	2384268	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08		2384268	60641252	158	64325											
COMMD7	149951	broad.mit.edu	37	chr20	31291840	31291840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcacctatatacacattttCggtttgatttcctttcttaa	9	19	3	10	1	2	1	1	1	1	0	4	1	3	1	2	1	1	1	2	1	4	9			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr20:31291840C>T	uc002wya.3	-	8	1128	c.511G>A	c.(511-513)GAA>AAA	p.E171K	COMMD7_uc010ged.2_Missense_Mutation_p.E170K|COMMD7_uc002wyb.2_Missense_Mutation_p.E171K	NM_053041	NP_444269	Q86VX2	COMD7_HUMAN	COMM domain containing 7 isoform 1	171	COMM.			E -> K (in Ref. 1; AAS22244 and 5; AAH47440).	negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|tumor necrosis factor-mediated signaling pathway		NF-kappaB binding			breast(1)	1						TACACATTTTCGGTTTGATTT	0.368													4	55					0	0	0.000602	0	0		T	31291840	T	T	31291840	3	4	106	1	0	0	0	0	1	0	0	0	3724	893	31	1	99	1	COMMD7	20	31291840	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	28907572	31291840	31733680	159	64326											
DLGAP4	22839	broad.mit.edu	37	chr20	35060202	35060202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcccctgtttgcagggaccGaccgcaacccctacctgctg	7	7	10	17	2	0	0	0	0	0	0	0	2	0	1	7	1	5	4	7	1	2	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr20:35060202G>A	uc002xff.2	+	3	517	c.82G>A	c.(82-84)GAC>AAC	p.D28N	DLGAP4_uc010zvp.1_Missense_Mutation_p.D28N	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	28					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				TGCAGGGACCGACCGCAACCC	0.697													8	56					0	0	0.00308	0	0		A	35060202	A	A	35060202	3	1	106	1	0	0	0	0	1	0	0	0	4568	1058	37	1	84	1	DLGAP4	20	35060202	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	3768362	35060202	27965318	160	64327											
SALL4	57167	broad.mit.edu	37	chr20	50407885	50407885	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacttacacttgtgcttgtaGagggccgcctcgtctttggg	5	14	12	10	2	1	1	0	0	1	1	2	1	1	1	2	2	3	2	2	2	3	6			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr20:50407885G>A	uc002xwh.3	-	2	1238	c.1137C>T	c.(1135-1137)CTC>CTT	p.L379L	SALL4_uc010gii.2_Silent_p.L379L|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	379					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TGTGCTTGTAGAGGGCCGCCT	0.552													6	106					0	0	0.001984	0	0		A	50407885	A	A	50407885	2	1	106	1	0	0	0	0	0	0	0	1	13838	929	33	4		4	SALL4	20	50407885	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	15347683	50407885	12617635	161	64328											
SPO11	23626	broad.mit.edu	37	chr20	55918512	55918512	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attaaaatttggaggatggaTataaaaataaatcagaagaa	22	10	8	1	0	1	2	1	0	0	2	1	5	1	5	0	3	0	0	0	3	10	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr20:55918512T>C	uc002xye.2	+	13	1280	c.1187T>C	c.(1186-1188)ATA>ACA	p.I396T	SPO11_uc002xyf.2_Missense_Mutation_p.I358T	NM_012444	NP_036576	Q9Y5K1	SPO11_HUMAN	meiotic recombination protein SPO11 isoform a	396					female gamete generation|reciprocal meiotic recombination	chromosome|nucleus	ATP binding|DNA binding|hydrolase activity			breast(2)|skin(1)	3	Lung NSC(12;0.0066)|all_lung(29;0.0188)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;1.73e-14)|Epithelial(14;9.02e-10)|all cancers(14;9.31e-09)			GGAGGATGGATATAAAAATAA	0.303								Editing_and_processing_nucleases					8	115					0	0	0.008291	0	0		C	55918512	C	C	55918512	3	2	106	1	0	0	0	0	1	0	0	0	15102	1406	49	3	1237	3	SPO11	20	55918512	Missense_Mutation	SNP	T	TCGA-CD-5800-01A-11D-1600-08	5510627	55918512	7107008	162	64329											
GNAS	2778	broad.mit.edu	37	chr20	57430185	57430185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcgggggctgcttcggtcGatctgagagtccccagccca	5	9	13	14	3	1	1	0	1	1	1	5	3	2	1	3	3	2	2	3	3	0	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr20:57430185G>A	uc002xzw.2	+	1	2150	c.1865G>A	c.(1864-1866)CGA>CAA	p.R622Q	GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			TGCTTCGGTCGATCTGAGAGT	0.612			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			4	29					0	0	0.009096	0	0		A	57430185	A	A	57430185	3	1	106	1	0	0	0	0	1	0	0	0	6525	1058	37	1	2609	1	GNAS	20	57430185	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	1511673	57430185	5595335	163	64330											
LAMA5	3911	broad.mit.edu	37	chr20	60907448	60907448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggaagaagcgtgcctgttCggctgtgagcctcacgctgg	7	8	15	11	3	1	2	1	1	0	1	2	3	1	3	2	3	3	3	2	3	2	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr20:60907448C>T	uc002ycq.2	-	28	3599	c.3532G>A	c.(3532-3534)GAA>AAA	p.E1178K		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	1178	Domain IV 1 (domain IV B).				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CGTGCCTGTTCGGCTGTGAGC	0.622													14	66					0	0	0.00245	0	0		T	60907448	T	T	60907448	3	4	106	1	0	0	0	0	1	0	0	0	8625	893	31	1	7767	1	LAMA5	20	60907448	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	3477263	60907448	2118072	164	64331											
EEF1A2	1917	broad.mit.edu	37	chr20	62126392	62126392	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctcccgcgtctgcccattCttggagatgcccgcctcgaa	5	10	10	16	4	2	1	0	0	2	1	4	3	3	1	4	1	3	1	4	1	1	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr20:62126392C>T	uc002yfd.1	-	3	488	c.387G>A	c.(385-387)AAG>AAA	p.K129K	EEF1A2_uc002yfe.1_Silent_p.K129K|EEF1A2_uc010gkg.1_Silent_p.K129K	NM_001958	NP_001949	Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha	129						nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			TCTGCCCATTCTTGGAGATGC	0.672													15	109					0	0	0.003163	0	0		T	62126392	T	T	62126392	2	4	106	1	0	0	0	0	0	0	0	1	4930	912	32	4		4	EEF1A2	20	62126392	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	1218944	62126392	899128	165	64332											
C20orf135	140701	broad.mit.edu	37	chr20	62493340	62493340	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaagctggtggcctgtgaCggcaacgagatcgacactat	10	7	13	11	3	0	2	0	1	0	1	1	4	0	2	2	3	2	2	2	3	3	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr20:62493340C>G	uc002ygx.1	+	1	775	c.447C>G	c.(445-447)GAC>GAG	p.D149E		NM_080622	NP_542189	Q9H3Z7	ABHGB_HUMAN	hypothetical protein LOC140701	149							hydrolase activity				0	all_cancers(38;1.77e-12)|all_epithelial(29;3.12e-14)|Lung NSC(23;5.92e-10)|all_lung(23;2.08e-09)					TGGCCTGTGACGGCAACGAGA	0.701													6	26					0	0	0.001168	0	0		G	62493340	G	G	62493340	3	3	106	1	0	0	0	0	1	0	0	0	2091	535	19	5	449	5	C20orf135	20	62493340	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	366948	62493340	532180	166	64333											
TPTE	7179	broad.mit.edu	37	chr21	10970031	10970031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctttcgcaggtgcctcctCggttgctcctttaaattcac	5	16	7	13	2	2	0	1	0	1	0	6	0	4	0	3	2	2	3	3	2	2	6			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr21:10970031C>T	uc002yip.1	-	6	465	c.97G>A	c.(97-99)GAG>AAG	p.E33K	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.E33K|TPTE_uc002yir.1_Missense_Mutation_p.E33K|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	33					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		GGTGCCTCCTCGGTTGCTCCT	0.393													13	93					0	0	0.004007	0	0		T	10970031	T	T	10970031	3	4	106	1	0	0	0	0	1	0	0	0	16456	893	31	1	1634	1	TPTE	21	10970031	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08		10970031	37159864	167	64334											
RUNX1	861	broad.mit.edu	37	chr21	36171641	36171641	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagagagggttgtcatgccGctggcacgtccaggtgaaat	9	8	15	9	2	1	2	1	1	0	1	2	3	2	2	2	3	1	4	2	3	1	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr21:36171641G>A	uc002yuh.2	-	5	2421	c.843C>T	c.(841-843)AGC>AGT	p.S281S	RUNX1_uc002yui.2_Silent_p.S217S|RUNX1_uc010gmu.2_Silent_p.S308S|RUNX1_uc010gmv.2_Silent_p.S308S|RUNX1_uc002yuj.3_Silent_p.S176S|RUNX1_uc002yuk.3_Silent_p.S308S|RUNX1_uc002yul.1_Silent_p.S73S|RUNX1_uc002yum.1_Silent_p.S112S	NM_001001890	NP_001001890	Q01196	RUNX1_HUMAN	runt-related transcription factor 1 isoform	281	Pro/Ser/Thr-rich.			Missing: No DNA-binding.	myeloid cell differentiation|negative regulation of granulocyte differentiation|positive regulation of angiogenesis|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus|nucleus	ATP binding|calcium ion binding|DNA binding|DNA binding|protein binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding	p.Y281*(1)		haematopoietic_and_lymphoid_tissue(383)|lung(2)|ovary(1)|central_nervous_system(1)	387						TTGTCATGCCGCTGGCACGTC	0.547			T	RPL22|MDS1|EVI1|CBFA2T3|CBFA2T1|ETV6|LAF4	AML|preB- ALL|T-ALL				Platelet_disorder_associated_with_Myeloid_Malignancies				10	107					0	0	0.008291	0	0		A	36171641	A	A	36171641	2	1	106	1	0	0	0	0	0	0	0	1	13771	1078	38	1		1	RUNX1	21	36171641	Silent	SNP	G	TCGA-CD-5800-01A-11D-1600-08	25201610	36171641	11958254	168	64335											
DSCAM	1826	broad.mit.edu	37	chr21	41710048	41710048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcacggtcacgtggacgCtctggctggtggagagttgt	5	12	15	9	3	3	1	2	0	1	1	3	3	3	2	0	5	0	3	0	5	0	2			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr21:41710048C>T	uc002yyq.1	-	8	2215	c.1763G>A	c.(1762-1764)AGC>AAC	p.S588N	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	588	Extracellular (Potential).|Ig-like C2-type 6.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CACGTGGACGCTCTGGCTGGT	0.502													12	117					0	0	0.013537	0	0		T	41710048	T	T	41710048	3	4	106	1	0	0	0	0	1	0	0	0	4774	797	28	2	4379	2	DSCAM	21	41710048	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	5538407	41710048	6419847	169	64336											
C22orf31	25770	broad.mit.edu	37	chr22	29456681	29456681	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtagctggtgctggggcatTaatgttctgctttgcacatg	6	14	14	7	0	1	0	0	0	1	0	1	0	1	0	0	4	4	7	0	4	2	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr22:29456681T>C	uc003aej.1	-	2	281	c.154A>G	c.(154-156)AAT>GAT	p.N52D		NM_015370	NP_056185	O95567	CV031_HUMAN	hypothetical protein LOC25770	52											0						GCTGGGGCATTAATGTTCTGC	0.488													57	65					0	0	0.01441	0	0		C	29456681	C	C	29456681	3	2	106	1	0	0	0	0	1	0	0	0	2146	1754	61	3	726	3	C22orf31	22	29456681	Missense_Mutation	SNP	T	TCGA-CD-5800-01A-11D-1600-08		29456681	21847885	170	64337											
SSTR3	6753	broad.mit.edu	37	chr22	37602944	37602944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgttggcatagggcagcGccaccaccaggaagtagagc	11	5	14	11	1	0	1	0	0	0	1	0	2	0	2	3	3	3	5	3	3	3	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chr22:37602944G>A	uc003ara.2	-	2	961	c.899C>T	c.(898-900)GCG>GTG	p.A300V	SSTR3_uc003arb.2_Missense_Mutation_p.A300V	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	300	Helical; Name=7; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						ATAGGGCAGCGCCACCACCAG	0.622													34	30					0	0	0.003755	0	0		A	37602944	A	A	37602944	3	1	106	1	0	0	0	0	1	0	0	0	15224	1087	38	1	361	1	SSTR3	22	37602944	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	8146263	37602944	13701622	171	64338											
SHROOM2	357	broad.mit.edu	37	chrX	9905182	9905182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcatcttccagaattgagcGggtgatggacaacaacacca	13	9	9	10	1	2	3	1	2	1	1	3	4	3	4	2	2	3	0	2	2	3	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chrX:9905182G>A	uc004csu.1	+	7	3686	c.3596G>A	c.(3595-3597)CGG>CAG	p.R1199Q	SHROOM2_uc004csv.2_Missense_Mutation_p.R34Q|SHROOM2_uc011mic.1_Missense_Mutation_p.R34Q|SHROOM2_uc004csw.1_Missense_Mutation_p.R34Q	NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	1199					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				AGAATTGAGCGGGTGATGGAC	0.582													4	6					0	0	0.009096	0	0		A	9905182	A	A	9905182	3	1	106	1	0	0	0	0	1	0	0	0	14319	1116	39	1	3622	1	SHROOM2	23	9905182	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08		9905182	145365378	172	64339											
PHKA2	5256	broad.mit.edu	37	chrX	18926989	18926989	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acaatcttttagctgctcaaCcagcttctcacagtccacgt	10	12	5	14	1	3	0	2	0	2	0	5	0	4	0	2	0	4	3	2	0	3	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chrX:18926989C>G	uc004cyv.3	-	21	2720	c.2290G>C	c.(2290-2292)GTT>CTT	p.V764L	PHKA2_uc004cyu.3_Missense_Mutation_p.V62L	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	764					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					AGCTGCTCAACCAGCTTCTCA	0.403													13	230					0	0	0.004007	0	0		G	18926989	G	G	18926989	3	3	106	1	0	0	0	0	1	0	0	0	11863	507	18	5	1469	5	PHKA2	23	18926989	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	9021807	18926989	136343571	173	64340											
CXorf58	254158	broad.mit.edu	37	chrX	23953497	23953497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgttacagagaccagtaaCgcaagagatccataagcacc	15	7	8	11	1	1	2	0	0	1	2	2	4	2	2	3	0	3	4	3	0	4	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chrX:23953497C>T	uc004daz.1	+	7	1084	c.740C>T	c.(739-741)ACG>ATG	p.T247M	CXorf58_uc011mju.1_Missense_Mutation_p.T247M	NM_152761	NP_689974	Q96LI9	CX058_HUMAN	hypothetical protein LOC254158	247											0						AGACCAGTAACGCAAGAGATC	0.368													12	84					0	0	0.013537	0	0		T	23953497	T	T	23953497	3	4	106	1	0	0	0	0	1	0	0	0	4117	536	19	1	762	1	CXorf58	23	23953497	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	5026508	23953497	131317063	174	64341											
CCNB3	85417	broad.mit.edu	37	chrX	50051783	50051783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagagtgacagtgatgatgCgtttgttatagagccaatga	12	11	14	4	1	0	6	0	4	0	2	0	7	0	6	1	1	2	2	1	1	3	3			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chrX:50051783C>T	uc004dox.3	+	6	912	c.614C>T	c.(613-615)GCG>GTG	p.A205V	CCNB3_uc004doy.2_Missense_Mutation_p.A205V|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	205					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					AGTGATGATGCGTTTGTTATA	0.403													6	84					0	0	0.001168	0	0		T	50051783	T	T	50051783	3	4	106	1	0	0	0	0	1	0	0	0	2917	768	27	1	628	1	CCNB3	23	50051783	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	26098286	50051783	105218777	175	64342											
RAB40A	142684	broad.mit.edu	37	chrX	102755046	102755046	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcttaaggtactggggagCgggagcttgtccaccagatg	8	10	14	9	1	1	1	0	0	1	1	2	3	2	3	2	4	3	2	2	4	2	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chrX:102755046C>T	uc004ekk.2	-	3	981	c.639G>A	c.(637-639)CCG>CCA	p.P213P		NM_080879	NP_543155	Q8WXH6	RB40A_HUMAN	RAB40A, member RAS oncogene family	213	SOCS box.				protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0						TACTGGGGAGCGGGAGCTTGT	0.587													16	85					0	0	0.004007	0	0		T	102755046	T	T	102755046	2	4	106	1	0	0	0	0	0	0	0	1	12964	755	27	1		1	RAB40A	23	102755046	Silent	SNP	C	TCGA-CD-5800-01A-11D-1600-08	52703263	102755046	52515514	176	64343											
CT47B1	643311	broad.mit.edu	37	chrX	120008995	120008995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctggggctgcagcccctGcacccagcctctgggacagc	5	7	12	17	0	2	0	0	0	2	0	2	1	2	1	4	3	5	3	4	3	0	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chrX:120008995G>A	uc011muc.1	-	1	785	c.530C>T	c.(529-531)GCA>GTA	p.A177V		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	177											0						TGCAGCCCCTGCACCCAGCCT	0.706													16	41					0	0	0.003163	0	0		A	120008995	A	A	120008995	3	1	106	1	0	0	0	0	1	0	0	0	3992	1319	46	2	377	2	CT47B1	23	120008995	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	17253949	120008995	35261565	177	64344											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299837	125299837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgccgctaaaccctgcgacGacgagctcccggctcccgcc	6	4	10	21	7	0	0	0	0	0	0	2	3	2	0	6	1	3	3	6	1	2	1			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chrX:125299837G>A	uc004euk.1	-	1	98	c.71C>T	c.(70-72)TCG>TTG	p.S24L		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	24										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						ACCCTGCGACGACGAGCTCCC	0.652													11	17					0	0	0.010729	0	0		A	125299837	A	A	125299837	3	1	106	1	0	0	0	0	1	0	0	0	4268	1059	37	1	1324	1	DCAF12L2	23	125299837	Missense_Mutation	SNP	G	TCGA-CD-5800-01A-11D-1600-08	5290842	125299837	29970723	178	64345											
ZIC3	7547	broad.mit.edu	37	chrX	136652214	136652214	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacttcctcctaattttaaCgaatggtacgtctgaggaca	11	12	9	9	2	1	1	0	1	1	0	3	4	3	3	2	3	2	1	2	3	4	5			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chrX:136652214C>A	uc004fak.2	+	3	1894	c.1389C>A	c.(1387-1389)AAC>AAA	p.N463K		NM_003413	NP_003404	O60481	ZIC3_HUMAN	zinc finger protein of the cerebellum 3	463					cell differentiation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CTAATTTTAACGAATGGTACG	0.403													17	136					1.67942e-08	1.75279e-08	0.006122	1	0		A	136652214	A	A	136652214	3	1	106	1	0	0	0	0	1	0	0	0	17705	535	19	5	1399	5	ZIC3	23	136652214	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	11352377	136652214	18618346	179	64346											
PLXNB3	5365	broad.mit.edu	37	chrX	153036318	153036318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatttggccctacgcgtgCggaaccttcaacatttccga	8	10	9	14	4	1	0	1	0	0	0	2	2	2	1	4	2	4	0	4	2	3	4			TCGA-CD-5800-01A-11D-1600-08	TCGA-CD-5800-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4438b658-ee94-44a8-9623-8cc28409bd05	9e13e9e2-7455-414a-bf94-70929fe16f6b	g.chrX:153036318C>T	uc004fii.2	+	11	2290	c.2116C>T	c.(2116-2118)CGG>TGG	p.R706W	PLXNB3_uc011mzb.1_Intron|PLXNB3_uc011mzc.1_Missense_Mutation_p.R388W|PLXNB3_uc010nuk.2_Missense_Mutation_p.R729W|PLXNB3_uc011mzd.1_Missense_Mutation_p.R345W	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	706	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CCTACGCGTGCGGAACCTTCA	0.642													17	54					0	0	0.004007	0	0		T	153036318	T	T	153036318	3	4	106	1	0	0	0	0	1	0	0	0	12144	759	27	1	2272	1	PLXNB3	23	153036318	Missense_Mutation	SNP	C	TCGA-CD-5800-01A-11D-1600-08	16384104	153036318	2234242	180	64347											
WDR8	49856	broad.mit.edu	37	chr1	3553603	3553603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacgaagatgctcacgtaatCtttgcagtcgcgccgttctg	8	11	11	11	5	3	1	1	0	2	1	4	3	3	1	1	0	2	4	1	0	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:3553603C>T	uc001ako.2	-	5	580	c.472G>A	c.(472-474)GAT>AAT	p.D158N	WDR8_uc001akn.3_Missense_Mutation_p.D158N|WDR8_uc010nzi.1_Missense_Mutation_p.D158N	NM_017818	NP_060288	Q9P2S5	WRP73_HUMAN	WD repeat domain 8	158						centrosome	protein binding				0	all_cancers(77;0.0128)|all_epithelial(69;0.00526)|Ovarian(185;0.0634)|Lung NSC(156;0.162)|all_lung(157;0.172)	all_epithelial(116;7.37e-22)|all_lung(118;8.23e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;4.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;4.16e-22)|GBM - Glioblastoma multiforme(42;1.05e-14)|Colorectal(212;1.19e-05)|BRCA - Breast invasive adenocarcinoma(365;2.67e-05)|COAD - Colon adenocarcinoma(227;5.82e-05)|Kidney(185;0.000364)|KIRC - Kidney renal clear cell carcinoma(229;0.00223)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		CTCACGTAATCTTTGCAGTCG	0.567													4	19					0	0	0.009096	0	0		T	3553603	T	T	3553603	3	4	107	1	0	0	0	0	1	0	0	0	17355	913	32	4	942	4	WDR8	1	3553603	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08		3553603	245697018	1	64348											
TAS1R1	80835	broad.mit.edu	37	chr1	6631246	6631246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtgctgccaccacagccGccctgctgagccctttcctg	5	8	9	19	2	0	1	0	1	0	0	1	1	1	1	7	0	5	2	7	0	0	1	rs139619592		TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:6631246G>A	uc001ant.2	+	2	469	c.469G>A	c.(469-471)GCC>ACC	p.A157T	TAS1R1_uc001anu.2_Missense_Mutation_p.A157T|TAS1R1_uc001anv.2_Missense_Mutation_p.A157T|TAS1R1_uc001anw.2_Missense_Mutation_p.A157T	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	157	Extracellular (Potential).				sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;8.73e-34)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		CACCACAGCCGCCCTGCTGAG	0.607													10	67					0	0	0.028581	0	0		A	6631246	A	A	6631246	3	1	107	1	0	0	0	0	1	0	0	0	15587	1087	38	1	475	1	TAS1R1	1	6631246	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	3077643	6631246	242619375	2	64349											
MIIP	60672	broad.mit.edu	37	chr1	12091346	12091346	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcctgctgggctgggacatTtttcctccgaagtctgagaa	7	12	12	10	1	1	1	0	1	1	1	3	4	3	2	3	2	2	2	3	2	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:12091346T>G	uc001ato.1	+	9	1146	c.966T>G	c.(964-966)ATT>ATG	p.I322M		NM_021933	NP_068752	Q5JXC2	MIIP_HUMAN	invasion inhibitory protein 45	322										ovary(1)	1						GCTGGGACATTTTTCCTCCGA	0.612													6	50					0	0	0.021553	0	0		G	12091346	G	G	12091346	3	3	107	1	0	0	0	0	1	0	0	0	9603	1829	64	5	996	5	MIIP	1	12091346	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	5460100	12091346	237159275	3	64350											
VPS13D	55187	broad.mit.edu	37	chr1	12336474	12336474	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcattgtgttgttggagcaGcatacccgcgaggttctggt	7	12	14	8	2	1	0	0	0	1	0	1	2	1	1	1	3	4	6	1	3	1	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:12336474G>A	uc001atv.2	+	19	2970	c.2829G>A	c.(2827-2829)CAG>CAA	p.Q943Q	VPS13D_uc001atw.2_Silent_p.Q943Q|VPS13D_uc001atx.2_Silent_p.Q131Q	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	943					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TGTTGGAGCAGCATACCCGCG	0.488											OREG0013110	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	95					0	0	0.004672	0	0		A	12336474	A	A	12336474	2	1	107	1	0	0	0	0	0	0	0	1	17218	962	34	2		2	VPS13D	1	12336474	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	245128	12336474	236914147	4	64351											
VPS13D	55187	broad.mit.edu	37	chr1	12338075	12338075	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacgacatgatttctttgAatctttgcatagaggtcaag	12	13	8	8	1	3	3	1	2	2	1	3	4	3	3	0	1	1	1	0	1	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:12338075A>C	uc001atv.2	+	19	4571	c.4430A>C	c.(4429-4431)GAA>GCA	p.E1477A	VPS13D_uc001atw.2_Missense_Mutation_p.E1477A|VPS13D_uc001atx.2_Missense_Mutation_p.E665A	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	1477					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		GATTTCTTTGAATCTTTGCAT	0.463													19	130					0	0	0.012319	0	0		C	12338075	C	C	12338075	3	2	107	1	0	0	0	0	1	0	0	0	17218	246	9	5	4500	5	VPS13D	1	12338075	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1601	12338075	236912546	5	64352											
PRAMEF4	400735	broad.mit.edu	37	chr1	12942969	12942969	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatccagcccatcgagcaCagcttggaaggcctccagac	10	6	10	15	1	0	1	0	0	0	1	3	3	2	2	4	2	4	3	4	2	1	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:12942969C>A	uc001aun.2	-	2	318	c.247G>T	c.(247-249)GTG>TTG	p.V83L		NM_001009611	NP_001009611	O60810	PRAM4_HUMAN	PRAME family member 4	83										ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCATCGAGCACAGCTTGGAAG	0.622													12	75					6.40141e-05	6.58859e-05	0.010729	1	0		A	12942969	A	A	12942969	3	1	107	1	0	0	0	0	1	0	0	0	12459	478	17	5	1201	5	PRAMEF4	1	12942969	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	604894	12942969	236307652	6	64353											
SPEN	23013	broad.mit.edu	37	chr1	16255927	16255927	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatactgttgccagccccaaAgactgtcaggagcttgccag	11	8	10	12	0	1	1	1	0	0	1	1	2	1	2	4	1	5	2	4	1	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:16255927A>T	uc001axk.1	+	11	3396	c.3192A>T	c.(3190-3192)AAA>AAT	p.K1064N	SPEN_uc010obp.1_Missense_Mutation_p.K1023N	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1064					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CCAGCCCCAAAGACTGTCAGG	0.458													4	116					0	0	0.009096	0	0		T	16255927	T	T	16255927	3	4	107	1	0	0	0	0	1	0	0	0	15063	69	3	5	3234	5	SPEN	1	16255927	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3312958	16255927	232994694	7	64354											
KIF17	57576	broad.mit.edu	37	chr1	20998458	20998458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctggtttttgtgatgaCgggatgtgggatcttccaga	7	13	16	5	1	1	3	0	2	1	1	2	6	2	5	1	4	0	2	1	4	0	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:20998458C>T	uc001bdr.3	-	12	2813	c.2695G>A	c.(2695-2697)GTC>ATC	p.V899I	KIF17_uc001bdp.3_Missense_Mutation_p.V177I|KIF17_uc001bdq.3_Missense_Mutation_p.V177I|KIF17_uc009vpx.2_Missense_Mutation_p.V269I|KIF17_uc001bds.3_Missense_Mutation_p.V899I	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	899					microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		TTTGTGATGACGGGATGTGGG	0.577													22	74					0	0	0.016522	0	0		T	20998458	T	T	20998458	3	4	107	1	0	0	0	0	1	0	0	0	8295	536	19	1	410	1	KIF17	1	20998458	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	4742531	20998458	228252163	8	64355											
MAN1C1	57134	broad.mit.edu	37	chr1	26012981	26012981	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgttatgcaatggggaaaaaCgaactccgtccactaacaaa	16	7	8	10	3	0	0	0	0	0	0	2	2	2	1	2	2	4	2	2	2	7	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:26012981C>T	uc001bkm.2	+	2	921	c.591C>T	c.(589-591)AAC>AAT	p.N197N	MAN1C1_uc009vry.1_Silent_p.N17N	NM_020379	NP_065112	Q9NR34	MA1C1_HUMAN	mannosidase, alpha, class 1C, member 1	197	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(1)	1		Colorectal(325;3.78e-05)|Lung NSC(340;0.000181)|all_lung(284;0.000245)|Renal(390;0.000714)|Ovarian(437;0.00159)|Breast(348;0.0156)|Myeloproliferative disorder(586;0.0257)|all_neural(195;0.0515)|Esophageal squamous(538;0.232)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0574)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.15e-07)|COAD - Colon adenocarcinoma(152;4.31e-06)|STAD - Stomach adenocarcinoma(196;0.00125)|BRCA - Breast invasive adenocarcinoma(304;0.00141)|KIRC - Kidney renal clear cell carcinoma(1967;0.00146)|GBM - Glioblastoma multiforme(114;0.0149)|READ - Rectum adenocarcinoma(331;0.0803)		TGGGGAAAAACGAACTCCGTC	0.493													5	180					0	0	0.021553	0	0		T	26012981	T	T	26012981	2	4	107	1	0	0	0	0	0	0	0	1	9231	535	19	1		1	MAN1C1	1	26012981	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	5014523	26012981	223237640	9	64356											
YTHDF2	51441	broad.mit.edu	37	chr1	29069898	29069898	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggatggtaatggagtaggAcagtctcaggctggttctgg	8	11	17	5	0	2	0	1	0	2	0	3	3	2	3	0	7	0	4	0	7	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:29069898A>C	uc001brc.2	+	4	1613	c.1116A>C	c.(1114-1116)GGA>GGC	p.G372G	YTHDF2_uc001brd.2_Silent_p.G369G|YTHDF2_uc010ofx.1_Silent_p.G322G|YTHDF2_uc001bre.2_Silent_p.G322G	NM_016258	NP_057342	Q9Y5A9	YTHD2_HUMAN	high glucose-regulated protein 8	372					humoral immune response					ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000601)|all_lung(284;0.000771)|Breast(348;0.00502)|Renal(390;0.00758)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;5.46e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0221)|KIRC - Kidney renal clear cell carcinoma(1967;0.0296)|READ - Rectum adenocarcinoma(331;0.0649)		ATGGAGTAGGACAGTCTCAGG	0.522													29	163					0	0	0.027356	0	0		C	29069898	C	C	29069898	2	2	107	1	0	0	0	0	0	0	0	1	17525	262	10	5		5	YTHDF2	1	29069898	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3056917	29069898	220180723	10	64357											
CSMD2	114784	broad.mit.edu	37	chr1	33988919	33988919	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacttacatggccatctaaAgcccagtgatcatctttgaa	13	11	7	10	0	3	2	1	2	2	0	3	3	3	2	2	1	3	0	2	1	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:33988919A>C	uc001bxn.1	-	66	10094	c.10065T>G	c.(10063-10065)GCT>GCG	p.A3355A	CSMD2_uc001bxm.1_Silent_p.A3499A	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3355	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GGCCATCTAAAGCCCAGTGAT	0.468													7	72					0	0	0.00308	0	0		C	33988919	C	C	33988919	2	2	107	1	0	0	0	0	0	0	0	1	3948	59	3	5		5	CSMD2	1	33988919	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4919021	33988919	215261702	11	64358											
OSCP1	127700	broad.mit.edu	37	chr1	36888482	36888482	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcctcttcacttcttcaccTttgttgttgaacattctaca	8	18	3	12	0	5	1	2	1	3	0	6	1	6	1	2	0	2	2	2	0	2	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:36888482T>C	uc001cap.2	-	7	748	c.666A>G	c.(664-666)AAA>AAG	p.K222K	OSCP1_uc001caq.2_Silent_p.K212K	NM_145047	NP_659484	Q8WVF1	OSCP1_HUMAN	oxidored-nitro domain-containing protein isoform	222					transport	basal plasma membrane				ovary(2)|central_nervous_system(1)|pancreas(1)	4						CTTCTTCACCTTTGTTGTTGA	0.398													6	98					0	0	0.00308	0	0		C	36888482	C	C	36888482	2	2	107	1	0	0	0	0	0	0	0	1	11305	1606	56	3		3	OSCP1	1	36888482	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2899563	36888482	212362139	12	64359											
MACF1	23499	broad.mit.edu	37	chr1	39798125	39798125	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaagagccaccctaaggcCacagcaagccagagtgagaa	16	2	11	12	0	0	3	0	1	0	3	0	4	0	3	4	1	4	2	4	1	4	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:39798125C>T	uc010oiu.1	+	1	1316	c.1185C>T	c.(1183-1185)GCC>GCT	p.A395A	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1960					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			ACCCTAAGGCCACAGCAAGCC	0.468													17	91					0	0	0.00499	0	0		T	39798125	T	T	39798125	2	4	107	1	0	0	0	0	0	0	0	1	9162	581	21	4		4	MACF1	1	39798125	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	2909643	39798125	209452496	13	64360											
PIK3R3	8503	broad.mit.edu	37	chr1	46511630	46511630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctttcttgctactctcacGaattaagaatgcaccatcag	11	13	5	12	1	3	1	2	0	2	1	5	2	4	1	2	0	3	2	2	0	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:46511630G>A	uc001cpb.3	-	9	1903	c.1147C>T	c.(1147-1149)CGT>TGT	p.R383C	PIK3R3_uc009vyb.2_Missense_Mutation_p.R324C|PIK3R3_uc009vyc.2_Missense_Mutation_p.R400C|PIK3R3_uc001cpc.3_Missense_Mutation_p.R383C|PIK3R3_uc010olw.1_Missense_Mutation_p.R429C|PIK3R3_uc010olv.1_Missense_Mutation_p.R173C	NM_003629	NP_003620	Q92569	P55G_HUMAN	phosphoinositide-3-kinase, regulatory subunit 3	383	SH2 2.				insulin receptor signaling pathway|platelet activation|T cell costimulation		1-phosphatidylinositol-3-kinase activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					CTACTCTCACGAATTAAGAAT	0.393													31	242					0	0	0.012213	0	0		A	46511630	A	A	46511630	3	1	107	1	0	0	0	0	1	0	0	0	11939	1058	37	1	246	1	PIK3R3	1	46511630	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	6713505	46511630	202738991	14	64361											
CYP4A11	1579	broad.mit.edu	37	chr1	47403681	47403681	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcacctgatctccccagAatcaccttcatatagtcagg	11	11	5	14	0	5	2	4	1	2	1	7	2	5	2	4	1	0	0	4	1	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:47403681A>G	uc001cqp.3	-	2	375	c.324T>C	c.(322-324)ATT>ATC	p.I108I	CYP4A11_uc001cqq.2_Silent_p.I108I|CYP4A11_uc010omm.1_RNA	NM_000778	NP_000769	Q02928	CP4AB_HUMAN	cytochrome P450, family 4, subfamily A,	108					long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|oxygen binding			ovary(2)|skin(2)	4					NADH(DB00157)	ATCTCCCCAGAATCACCTTCA	0.502													4	147					0	0	0.014758	0	0		G	47403681	G	G	47403681	2	3	107	1	0	0	0	0	0	0	0	1	4186	242	9	3		3	CYP4A11	1	47403681	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	892051	47403681	201846940	15	64362											
C1orf168	199920	broad.mit.edu	37	chr1	57257967	57257967	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggagtaagccccatgccTttttgcccttccagatggat	7	13	9	12	0	1	1	0	0	1	1	2	3	2	3	5	2	3	1	5	2	1	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:57257967T>C	uc001cym.3	-	2	925	c.519A>G	c.(517-519)AAA>AAG	p.K173K	C1orf168_uc009vzu.1_RNA|C1orf168_uc009vzv.1_Silent_p.K173K	NM_001004303	NP_001004303	Q5VWT5	CA168_HUMAN	hypothetical protein LOC199920	173										ovary(3)|skin(2)	5						GCCCCATGCCTTTTTGCCCTT	0.493													3	212					0	0	0.004672	0	0		C	57257967	C	C	57257967	2	2	107	1	0	0	0	0	0	0	0	1	2015	1606	56	3		3	C1orf168	1	57257967	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	9854286	57257967	191992654	16	64363											
CACHD1	57685	broad.mit.edu	37	chr1	65146982	65146982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctggagaatgacagagatGaaagggacgacgacagccac	16	3	13	9	2	0	4	0	2	0	2	0	9	0	5	2	2	1	0	2	2	2	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:65146982G>A	uc001dbo.1	+	25	3400	c.3295G>A	c.(3295-3297)GAA>AAA	p.E1099K	CACHD1_uc001dbp.1_Missense_Mutation_p.E854K|CACHD1_uc001dbq.1_Missense_Mutation_p.E854K|CACHD1_uc010opa.1_Missense_Mutation_p.E343K	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	1150	Cytoplasmic (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						TGACAGAGATGAAAGGGACGA	0.428													11	91					0	0	0.010729	0	0		A	65146982	A	A	65146982	3	1	107	1	0	0	0	0	1	0	0	0	2540	1291	45	4	3393	4	CACHD1	1	65146982	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	7889015	65146982	184103639	17	64364											
IL12RB2	3595	broad.mit.edu	37	chr1	67793930	67793930	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagaagcaatgtaaagacaTttattgtgactatttggact	14	13	9	5	0	0	3	0	1	0	2	0	4	0	4	0	1	1	3	0	1	6	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:67793930T>G	uc001ddu.2	+	5	1167	c.527T>G	c.(526-528)ATT>AGT	p.I176S	IL12RB2_uc010oqi.1_Missense_Mutation_p.I176S|IL12RB2_uc010oqj.1_Missense_Mutation_p.I176S|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Missense_Mutation_p.I176S|IL12RB2_uc010oqm.1_Missense_Mutation_p.I176S|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	176	Extracellular (Potential).|Fibronectin type-III 1.				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						TGTAAAGACATTTATTGTGAC	0.398													7	303					0	0	0.006214	0	0		G	67793930	G	G	67793930	3	3	107	1	0	0	0	0	1	0	0	0	7643	1493	52	5	541	5	IL12RB2	1	67793930	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2646948	67793930	181456691	18	64365											
LRRC7	57554	broad.mit.edu	37	chr1	70555444	70555444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agaaaagaatcctggccttgGatttagtatcagtggtggaa	13	11	12	5	0	1	2	1	0	0	2	2	4	2	4	2	4	0	1	2	4	6	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:70555444G>A	uc001dep.2	+	23	4403	c.4373G>A	c.(4372-4374)GGA>GAA	p.G1458E	LRRC7_uc009wbg.2_Missense_Mutation_p.G742E|LRRC7_uc001deq.2_Missense_Mutation_p.G652E	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1458	PDZ.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CCTGGCCTTGGATTTAGTATC	0.289													10	121					0	0	0.013537	0	0		A	70555444	A	A	70555444	3	1	107	1	0	0	0	0	1	0	0	0	9038	1174	41	4	4463	4	LRRC7	1	70555444	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	2761514	70555444	178695177	19	64366											
WDR63	126820	broad.mit.edu	37	chr1	85546958	85546958	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtattaaccaccaagaccCaagaaatatttaactgccga	17	9	5	10	1	0	2	0	0	0	2	0	3	0	2	4	0	3	1	4	0	8	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:85546958C>A	uc001dkt.2	+	4	336	c.145C>A	c.(145-147)CAA>AAA	p.Q49K	WDR63_uc009wcl.2_Missense_Mutation_p.Q49K	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	49										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		CACCAAGACCCAAGAAATATT	0.343													12	137					1.61879e-10	1.70094e-10	0.013537	1	0		A	85546958	A	A	85546958	3	1	107	1	0	0	0	0	1	0	0	0	17340	595	21	5	155	5	WDR63	1	85546958	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	14991514	85546958	163703663	20	64367											
COL24A1	255631	broad.mit.edu	37	chr1	86487966	86487966	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccctggtggtcctggtaaaCcaacagcaccctaagagaag	12	7	10	12	0	0	1	0	0	0	1	2	2	2	1	4	3	3	2	4	3	5	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:86487966C>G	uc001dlj.2	-	18	2255	c.2213G>C	c.(2212-2214)GGT>GCT	p.G738A	COL24A1_uc010osd.1_Missense_Mutation_p.G38A|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	738					cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		TCCTGGTAAACCAACAGCACC	0.398													13	79					0	0	0.013537	0	0		G	86487966	G	G	86487966	3	3	107	1	0	0	0	0	1	0	0	0	3686	507	18	5	3103	5	COL24A1	1	86487966	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	941008	86487966	162762655	21	64368											
LRRC8C	84230	broad.mit.edu	37	chr1	90178825	90178825	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgcaggggctctggataaAaaggaaggtgagcaggctaa	14	6	15	6	0	1	1	0	1	1	0	1	3	1	3	0	6	2	4	0	6	5	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:90178825A>T	uc001dnl.3	+	3	938	c.696A>T	c.(694-696)AAA>AAT	p.K232N		NM_032270	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member	232						endoplasmic reticulum membrane|integral to membrane				ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		CTCTGGATAAAAAGGAAGGTG	0.448													27	135					0	0	0.00632	0	0		T	90178825	T	T	90178825	3	4	107	1	0	0	0	0	1	0	0	0	9041	11	1	5	702	5	LRRC8C	1	90178825	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3690859	90178825	159071796	22	64369											
BRDT	676	broad.mit.edu	37	chr1	92442816	92442816	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattaaggcactgtagtgagAttcttaaagaaatgcttgca	15	12	9	5	0	1	2	0	1	1	2	1	3	1	2	0	1	2	4	0	1	6	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:92442816A>G	uc001dok.3	+	6	1184	c.835A>G	c.(835-837)ATT>GTT	p.I279V	BRDT_uc001dol.3_Missense_Mutation_p.I279V|BRDT_uc010osz.1_Missense_Mutation_p.I283V|BRDT_uc009wdf.2_Missense_Mutation_p.I206V|BRDT_uc010ota.1_Missense_Mutation_p.I233V|BRDT_uc010otb.1_Missense_Mutation_p.I233V|BRDT_uc001dom.3_Missense_Mutation_p.I279V	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	279					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		CTGTAGTGAGATTCTTAAAGA	0.338													16	155					0	0	0.028581	0	0		G	92442816	G	G	92442816	3	3	107	1	0	0	0	0	1	0	0	0	1511	333	12	3	853	3	BRDT	1	92442816	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2263991	92442816	156807805	23	64370											
AMY2B	280	broad.mit.edu	37	chr1	104115765	104115765	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaagcagtacctgtggaagTtacttcaaccctggaagtag	13	9	10	9	0	1	0	1	0	0	0	1	2	1	2	2	2	4	4	2	2	7	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:104115765T>G	uc001duq.2	+	5	1012	c.396T>G	c.(394-396)AGT>AGG	p.S132R	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.S132R|AMY2B_uc001dus.1_5'Flank	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	132					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		CCTGTGGAAGTTACTTCAACC	0.403													81	630					0	0	0.01441	0	0		G	104115765	G	G	104115765	3	3	107	1	0	0	0	0	1	0	0	0	595	1722	60	5	406	5	AMY2B	1	104115765	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	11672949	104115765	145134856	24	64371											
AMY2B	280	broad.mit.edu	37	chr1	104117951	104117951	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggaggagcctctattcttAccttctgggatgctaggtag	7	13	12	9	0	3	0	0	0	3	0	3	3	3	3	2	4	3	2	2	4	4	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:104117951A>G	uc001duq.2	+	8	1601	c.985A>G	c.(985-987)ACC>GCC	p.T329A	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.T329A|AMY2B_uc001dus.1_5'Flank	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	329					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		CTCTATTCTTACCTTCTGGGA	0.388													10	411					0	0	0.013537	0	0		G	104117951	G	G	104117951	3	3	107	1	0	0	0	0	1	0	0	0	595	391	14	3	1007	3	AMY2B	1	104117951	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2186	104117951	145132670	25	64372											
AKNAD1	254268	broad.mit.edu	37	chr1	109394496	109394496	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattttcactttgggagcaAtcttagagaaatcagggagc	13	11	11	6	0	3	1	2	0	1	1	3	5	3	3	0	2	2	1	0	2	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:109394496A>C	uc001dwa.2	-	2	1060	c.791T>G	c.(790-792)ATT>AGT	p.I264S	AKNAD1_uc010ovb.1_Intron|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	264										ovary(3)	3						TTTGGGAGCAATCTTAGAGAA	0.398													56	321					0	0	0.01441	0	0		C	109394496	C	C	109394496	3	2	107	1	0	0	0	0	1	0	0	0	464	101	4	5	1779	5	AKNAD1	1	109394496	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	5276545	109394496	139856125	26	64373											
CAPZA1	829	broad.mit.edu	37	chr1	113212713	113212713	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaatcgactggaacaagAtactcagctacaagattggc	16	7	8	10	1	1	2	1	0	0	2	2	4	1	3	1	2	4	1	1	2	7	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:113212713A>G	uc001ecj.1	+	10	1212	c.820A>G	c.(820-822)ATA>GTA	p.I274V		NM_006135	NP_006126	P52907	CAZA1_HUMAN	F-actin capping protein alpha-1 subunit	274					actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement|innate immune response|protein complex assembly	cytosol|extracellular region|F-actin capping protein complex|WASH complex	actin binding				0	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTGGAACAAGATACTCAGCTA	0.428													4	113					0	0	0.009096	0	0		G	113212713	G	G	113212713	3	3	107	1	0	0	0	0	1	0	0	0	2643	333	12	3	858	3	CAPZA1	1	113212713	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3818217	113212713	136037908	27	64374											
LRIG2	9860	broad.mit.edu	37	chr1	113655213	113655213	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcagatttcctggcagaaAgatggtggtactgactttcc	9	12	10	10	0	1	4	1	1	0	3	3	4	3	4	3	3	1	2	3	3	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:113655213A>T	uc001edf.1	+	14	2109	c.1911A>T	c.(1909-1911)AAA>AAT	p.K637N	LRIG2_uc009wgn.1_Missense_Mutation_p.K534N	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	637	Ig-like C2-type 2.|Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		CCTGGCAGAAAGATGGTGGTA	0.493													17	202					0	0	0.007413	0	0		T	113655213	T	T	113655213	3	4	107	1	0	0	0	0	1	0	0	0	8963	69	3	5	1965	5	LRIG2	1	113655213	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	442500	113655213	135595408	28	64375											
TRIM45	80263	broad.mit.edu	37	chr1	117656011	117656011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctccacaggcgcagcgagCggttttctggcccccgctgg	4	7	14	16	4	1	0	0	0	1	0	2	1	2	0	4	4	2	3	4	4	0	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:117656011C>T	uc001egz.2	-	5	2152	c.1564G>A	c.(1564-1566)GCT>ACT	p.A522T	TRIM45_uc009whe.2_Missense_Mutation_p.A504T|TRIM45_uc001eha.2_Missense_Mutation_p.A418T	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	522						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		GCGCAGCGAGCGGTTTTCTGG	0.617													7	98					0	0	0.001984	0	0		T	117656011	T	T	117656011	3	4	107	1	0	0	0	0	1	0	0	0	16546	768	27	1	186	1	TRIM45	1	117656011	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	4000798	117656011	131594610	29	64376											
ADAM30	11085	broad.mit.edu	37	chr1	120436891	120436891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	taaggcgaaacattatgatgGacacaacccaaattgacgag	17	7	9	8	2	0	2	0	2	0	0	0	5	0	3	1	2	2	0	1	2	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:120436891G>A	uc001eij.2	-	1	2223	c.2069C>T	c.(2068-2070)TCC>TTC	p.S690F		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	690	Helical; (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		CATTATGATGGACACAACCCA	0.453													4	138					0	0	0.014758	0	0		A	120436891	A	A	120436891	3	1	107	1	0	0	0	0	1	0	0	0	248	1174	41	4	307	4	ADAM30	1	120436891	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	2780880	120436891	128813730	30	64377											
SETDB1	9869	broad.mit.edu	37	chr1	150936034	150936034	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcgtcaagtggcagtaaaAtcaacccgaggctttgctct	12	9	10	10	2	3	0	2	0	1	0	3	1	3	0	1	2	3	4	1	2	5	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:150936034A>T	uc001evu.2	+	20	3676	c.3486A>T	c.(3484-3486)AAA>AAT	p.K1162N	SETDB1_uc001evv.2_Missense_Mutation_p.K1162N|SETDB1_uc009wmg.1_Missense_Mutation_p.K1162N	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	1162	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			TGGCAGTAAAATCAACCCGAG	0.483													15	369					0	0	0.00499	0	0		T	150936034	T	T	150936034	3	4	107	1	0	0	0	0	1	0	0	0	14163	98	4	5	3560	5	SETDB1	1	150936034	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	30499143	150936034	98314587	31	64378											
POGZ	23126	broad.mit.edu	37	chr1	151378288	151378288	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtggtgccgcagcatgaAacgcacagcccactcatagg	11	5	12	13	2	1	1	1	1	0	0	1	1	1	1	2	3	4	3	2	3	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:151378288A>C	uc001eyd.1	-	19	3529	c.3223T>G	c.(3223-3225)TTC>GTC	p.F1075V	POGZ_uc001eye.1_Missense_Mutation_p.F1022V|POGZ_uc010pdb.1_Missense_Mutation_p.F1066V|POGZ_uc001eyf.1_Missense_Mutation_p.F1031V|POGZ_uc010pdc.1_Missense_Mutation_p.F1013V|POGZ_uc009wmv.1_Missense_Mutation_p.F980V|POGZ_uc010pdd.1_Missense_Mutation_p.F566V	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1075	HTH CENPB-type.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CGCAGCATGAAACGCACAGCC	0.522													11	113					0	0	0.008291	0	0		C	151378288	C	C	151378288	3	2	107	1	0	0	0	0	1	0	0	0	12205	14	1	5	1013	5	POGZ	1	151378288	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	442254	151378288	97872333	32	64379											
FLG	2312	broad.mit.edu	37	chr1	152286342	152286342	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgactggctctgtcttcAtcatgggacctggggtgtct	5	13	12	11	0	5	1	2	1	3	0	5	2	5	2	2	4	0	1	2	4	0	1	rs140261784	byFrequency	TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:152286342A>C	uc001ezu.1	-	3	1056	c.1020T>G	c.(1018-1020)GAT>GAG	p.D340E	uc001ezv.2_RNA	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	340	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTCTGTCTTCATCATGGGACC	0.562									Ichthyosis				57	401					0	0	0.01441	0	0		C	152286342	C	C	152286342	3	2	107	1	0	0	0	0	1	0	0	0	5936	214	8	5	11169	5	FLG	1	152286342	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	908054	152286342	96964279	33	64380											
FLG2	388698	broad.mit.edu	37	chr1	152325738	152325738	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcgagccccctgagtgcacTtcactgtcactggactcact	7	10	9	15	1	3	1	3	1	0	0	3	3	3	2	2	1	3	1	2	1	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:152325738T>G	uc001ezw.3	-	3	4597	c.4524A>C	c.(4522-4524)GAA>GAC	p.E1508D	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1508	Filaggrin 5.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGAGTGCACTTCACTGTCAC	0.502													11	579					0	0	0.008291	0	0		G	152325738	G	G	152325738	3	3	107	1	0	0	0	0	1	0	0	0	5937	1606	56	5	2655	5	FLG2	1	152325738	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	39396	152325738	96924883	34	64381											
C1orf43	25912	broad.mit.edu	37	chr1	154180073	154180073	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggggactgagttaggtcTttggctgctgactggtgatg	6	13	16	6	0	2	3	1	3	1	0	2	4	2	4	0	5	1	3	0	5	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:154180073T>C	uc001fei.2	-	7	1008	c.618A>G	c.(616-618)AAA>AAG	p.K206K	C1orf189_uc001fee.1_5'Flank|C1orf43_uc001fef.1_Silent_p.K103K|C1orf43_uc001feg.2_Silent_p.K172K|C1orf43_uc001feh.2_Silent_p.K154K|C1orf43_uc001fej.2_Silent_p.K188K|C1orf43_uc009wos.1_3'UTR	NM_001098616	NP_001092086	Q9BWL3	CA043_HUMAN	hypothetical protein LOC25912 isoform 3	206						integral to membrane	coenzyme binding|oxidoreductase activity				0	all_lung(78;1.98e-30)|Lung NSC(65;2.87e-28)|Hepatocellular(266;0.0877)					GAGTTAGGTCTTTGGCTGCTG	0.502													6	242					0	0	0.001984	0	0		C	154180073	C	C	154180073	2	2	107	1	0	0	0	0	0	0	0	1	2043	1606	56	3		3	C1orf43	1	154180073	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1854335	154180073	95070548	35	64382											
ADAR	103	broad.mit.edu	37	chr1	154574777	154574777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtggcagactcctgccaCgtggtgaaggatgctggaac	8	9	14	10	1	1	2	0	1	1	1	2	4	2	4	2	4	3	2	2	4	2	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:154574777C>T	uc001ffh.2	-	2	541	c.341G>A	c.(340-342)CGT>CAT	p.R114H	ADAR_uc001ffj.2_Missense_Mutation_p.R114H|ADAR_uc001ffi.2_Missense_Mutation_p.R114H|ADAR_uc001ffk.2_Translation_Start_Site|ADAR_uc001ffl.1_Translation_Start_Site|ADAR_uc001ffm.1_Intron|ADAR_uc001ffn.1_Intron	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	114					adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		ACTCCTGCCACGTGGTGAAGG	0.537													20	111					0	0	0.010504	0	0		T	154574777	T	T	154574777	3	4	107	1	0	0	0	0	1	0	0	0	281	536	19	1	3395	1	ADAR	1	154574777	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	394704	154574777	94675844	36	64383											
PBXIP1	57326	broad.mit.edu	37	chr1	154919262	154919262	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggtgcatcaggctctgAagctcttccttttgggccta	5	13	12	11	0	3	1	1	1	2	0	4	1	4	1	2	4	2	4	2	4	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:154919262A>C	uc001ffr.2	-	10	947	c.888T>G	c.(886-888)CTT>CTG	p.L296L	PBXIP1_uc001ffs.2_Silent_p.L267L|PBXIP1_uc010pep.1_Silent_p.L141L	NM_020524	NP_065385	Q96AQ6	PBIP1_HUMAN	pre-B-cell leukemia homeobox interacting protein	296	Potential.				cell differentiation|multicellular organismal development|negative regulation of transcription, DNA-dependent	cytosol|microtubule|nucleus	protein binding|transcription corepressor activity			large_intestine(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TCAGGCTCTGAAGCTCTTCCT	0.552													17	126					0	0	0.006122	0	0		C	154919262	C	C	154919262	2	2	107	1	0	0	0	0	0	0	0	1	11515	233	9	5		5	PBXIP1	1	154919262	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	344485	154919262	94331359	37	64384											
OR10Z1	128368	broad.mit.edu	37	chr1	158576882	158576882	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttcatcaccatctcctaCgcctacatcttggcagcaat	9	13	4	15	1	5	0	2	0	3	0	6	0	5	0	3	1	3	2	3	1	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:158576882C>T	uc010pio.1	+	1	654	c.654C>T	c.(652-654)TAC>TAT	p.Y218Y		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	218	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					CCATCTCCTACGCCTACATCT	0.512													29	273					0	0	0.007291	0	0		T	158576882	T	T	158576882	2	4	107	1	0	0	0	0	0	0	0	1	10942	547	19	1		1	OR10Z1	1	158576882	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	3657620	158576882	90673739	38	64385											
SPTA1	6708	broad.mit.edu	37	chr1	158614075	158614075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctttgtccaaatcgtcccGtttcttcatcaaagcctcca	8	14	5	14	2	3	0	2	0	1	0	7	0	6	0	4	0	2	2	4	0	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:158614075G>A	uc001fst.1	-	30	4505	c.4306C>T	c.(4306-4308)CGG>TGG	p.R1436W		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1436	Spectrin 14.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					AAATCGTCCCGTTTCTTCATC	0.368													9	134					0	0	0.010729	0	0		A	158614075	A	A	158614075	3	1	107	1	0	0	0	0	1	0	0	0	15141	1144	40	1	3045	1	SPTA1	1	158614075	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	37193	158614075	90636546	39	64386											
OLFML2B	25903	broad.mit.edu	37	chr1	161968040	161968040	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgtccctgacgggtggctGcaggcctccgggtgacactg	4	9	16	12	2	0	2	0	2	0	0	2	2	2	2	3	4	1	2	3	4	0	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:161968040G>T	uc001gbu.2	-	6	1473	c.1049C>A	c.(1048-1050)GCA>GAA	p.A350E	OLFML2B_uc010pkq.1_Missense_Mutation_p.A351E	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	350										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			ACGGGTGGCTGCAGGCCTCCG	0.587													27	162					3.65163e-15	3.86578e-15	0.00632	1	0		T	161968040	T	T	161968040	3	4	107	1	0	0	0	0	1	0	0	0	10877	1319	46	5	1215	5	OLFML2B	1	161968040	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	3353965	161968040	87282581	40	64387											
DUSP27	92235	broad.mit.edu	37	chr1	167096038	167096038	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaatccaatttggatttcAcaagaaagacttgggagcgg	14	9	12	6	1	1	3	1	0	0	3	2	6	2	5	1	3	1	0	1	3	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:167096038A>T	uc001geb.1	+	5	1670	c.1670A>T	c.(1669-1671)CAC>CTC	p.H557L		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	557					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						TTTGGATTTCACAAGAAAGAC	0.552													8	95					0	0	0.004482	0	0		T	167096038	T	T	167096038	3	4	107	1	0	0	0	0	1	0	0	0	4830	159	6	5	1688	5	DUSP27	1	167096038	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	5127998	167096038	82154583	41	64388											
SELE	6401	broad.mit.edu	37	chr1	169694904	169694904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttaaaggatgtaagaaggcTtttggtagcttccatctgat	11	14	10	6	0	1	2	0	1	1	1	2	3	2	3	1	3	1	4	1	3	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:169694904T>C	uc001ggm.3	-	13	1971	c.1814A>G	c.(1813-1815)AAG>AGG	p.K605R	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	605	Cytoplasmic (Potential).				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					GTAAGAAGGCTTTTGGTAGCT	0.388													15	129					0	0	0.028581	0	0		C	169694904	C	C	169694904	3	2	107	1	0	0	0	0	1	0	0	0	14038	1609	56	3	22	3	SELE	1	169694904	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2598866	169694904	79555717	42	64389											
C1orf156	92342	broad.mit.edu	37	chr1	169762022	169762022	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtacaagcttacaaaacTcagaccactcaccagaaaaa	19	7	4	11	0	2	2	2	0	0	2	2	2	2	2	2	0	4	2	2	0	8	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:169762022T>C	uc001ggn.2	-	2	1093	c.815A>G	c.(814-816)GAG>GGG	p.E272G	C1orf112_uc001ggj.2_Intron|C1orf112_uc001ggo.2_5'Flank|uc010plt.1_5'Flank|C1orf112_uc001ggp.2_5'Flank|C1orf112_uc001ggq.2_5'Flank|C1orf112_uc009wvt.2_5'Flank	NM_033418	NP_219486	O95568	MET18_HUMAN	hypothetical protein MGC9084	272						cytoplasm	protein methyltransferase activity				0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CTTACAAAACTCAGACCACTC	0.323													4	188					0	0	0.009096	0	0		C	169762022	C	C	169762022	3	2	107	1	0	0	0	0	1	0	0	0	2009	1551	54	3	307	3	C1orf156	1	169762022	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	67118	169762022	79488599	43	64390											
METTL13	51603	broad.mit.edu	37	chr1	171755119	171755119	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttgattacagtggccctTcaccgaggtcagcagtatga	10	10	12	9	1	2	2	2	2	0	0	2	3	2	2	2	3	2	3	2	3	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:171755119T>C	uc001ghz.2	+	3	1361	c.1014T>C	c.(1012-1014)CTT>CTC	p.L338L	METTL13_uc001gia.2_Silent_p.L252L|METTL13_uc001gib.2_Silent_p.L182L|METTL13_uc010pml.1_Silent_p.L337L	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	338							methyltransferase activity|protein binding			kidney(1)	1						CAGTGGCCCTTCACCGAGGTC	0.617													5	33					0	0	0.014758	0	0		C	171755119	C	C	171755119	2	2	107	1	0	0	0	0	0	0	0	1	9515	1770	62	3		3	METTL13	1	171755119	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1993097	171755119	77495502	44	64391											
SLC9A11	284525	broad.mit.edu	37	chr1	173570870	173570870	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctggctgcccgcagagtaAatcaggtctgttactttcat	9	12	10	10	1	3	1	2	0	1	1	3	1	3	1	1	2	3	5	1	2	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:173570870A>C	uc001giz.2	-	2	469	c.46T>G	c.(46-48)TTA>GTA	p.L16V	SLC9A11_uc010pmq.1_Intron	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	16					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						CCGCAGAGTAAATCAGGTCTG	0.418													43	265					0	0	0.009718	0	0		C	173570870	C	C	173570870	3	2	107	1	0	0	0	0	1	0	0	0	14736	11	1	5	3436	5	SLC9A11	1	173570870	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1815751	173570870	75679751	45	64392											
TNN	63923	broad.mit.edu	37	chr1	175054550	175054550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtttccaggtctgcaccCggggactgagtataagatca	9	11	11	10	1	2	2	1	1	1	1	3	3	3	3	2	3	1	3	2	3	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:175054550C>T	uc001gkl.1	+	6	1357	c.1244C>T	c.(1243-1245)CCG>CTG	p.P415L	TNN_uc010pmx.1_Missense_Mutation_p.P415L	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	415	Fibronectin type-III 2.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GGTCTGCACCCGGGGACTGAG	0.602													4	22					0	0	0.009096	0	0		T	175054550	T	T	175054550	3	4	107	1	0	0	0	0	1	0	0	0	16348	652	23	1	1262	1	TNN	1	175054550	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1483680	175054550	74196071	46	64393											
CEP350	9857	broad.mit.edu	37	chr1	180022921	180022921	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcaggaggacaagatagcTtttctaaatttactatggag	13	13	9	6	0	2	1	1	0	2	1	3	4	2	4	0	3	2	1	0	3	6	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:180022921T>G	uc001gnt.2	+	24	5409	c.5026T>G	c.(5026-5028)TTT>GTT	p.F1676V	CEP350_uc009wxl.2_Missense_Mutation_p.F1675V	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1676						centrosome|nucleus|spindle				ovary(4)	4						ACAAGATAGCTTTTCTAAATT	0.398													20	168					0	0	0.012319	0	0		G	180022921	G	G	180022921	3	3	107	1	0	0	0	0	1	0	0	0	3257	1609	56	5	5116	5	CEP350	1	180022921	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	4968371	180022921	69227700	47	64394											
FAM5C	339479	broad.mit.edu	37	chr1	190129816	190129816	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctttgtcttggcaggctgAtgaggggttgtttatgacac	7	14	13	7	0	1	3	0	3	1	0	1	3	1	3	1	4	0	4	1	4	1	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:190129816A>C	uc001gse.1	-	7	1398	c.1166T>G	c.(1165-1167)ATC>AGC	p.I389S	FAM5C_uc010pot.1_Missense_Mutation_p.I287S	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	389						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TGGCAGGCTGATGAGGGGTTG	0.383													4	131					0	0	0.014758	0	0		C	190129816	C	C	190129816	3	2	107	1	0	0	0	0	1	0	0	0	5608	333	12	5	1142	5	FAM5C	1	190129816	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	10106895	190129816	59120805	48	64395											
ASPM	259266	broad.mit.edu	37	chr1	197086984	197086984	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttttaacattaataattTtctctgtgctaagactcttc	10	20	3	8	0	2	1	0	0	2	1	4	1	2	1	0	0	2	1	0	0	4	9			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:197086984T>G	uc001gtu.2	-	17	4257	c.4000A>C	c.(4000-4002)AAA>CAA	p.K1334Q	ASPM_uc001gtv.2_Missense_Mutation_p.K1334Q|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1334					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						ATTAATAATTTTCTCTGTGCT	0.303													9	323					0	0	0.004482	0	0		G	197086984	G	G	197086984	3	3	107	1	0	0	0	0	1	0	0	0	1057	1850	64	5	6481	5	ASPM	1	197086984	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	6957168	197086984	52163637	49	64396											
KIF14	9928	broad.mit.edu	37	chr1	200587269	200587269	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaatgtttctttgtattTcttatcagccatcatttcaa	12	18	4	7	0	5	1	3	0	2	1	5	1	5	1	1	0	1	2	1	0	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:200587269T>G	uc010ppk.1	-	2	1022	c.583A>C	c.(583-585)AAA>CAA	p.K195Q	KIF14_uc010ppj.1_5'UTR	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	195	Required for PRC1-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						TCTTTGTATTTCTTATCAGCC	0.368													6	322					0	0	0.001984	0	0		G	200587269	G	G	200587269	3	3	107	1	0	0	0	0	1	0	0	0	8292	1792	62	5	4479	5	KIF14	1	200587269	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3500285	200587269	48663352	50	64397											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200816802	200816802	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcatctatgtcttatgtTgatggcttcatagggacatg	8	17	9	7	0	5	1	2	1	3	0	5	2	5	2	0	2	0	2	0	2	3	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:200816802T>G	uc001gvl.2	+	11	1530	c.1260T>G	c.(1258-1260)GTT>GTG	p.V420V	CAMSAP1L1_uc001gvk.2_Silent_p.V409V|CAMSAP1L1_uc001gvm.2_Silent_p.V393V	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	420						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TGTCTTATGTTGATGGCTTCA	0.318													26	156					0	0	0.027356	0	0		G	200816802	G	G	200816802	2	3	107	1	0	0	0	0	0	0	0	1	2615	1799	63	5		5	CAMSAP1L1	1	200816802	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	229533	200816802	48433819	51	64398											
LMOD1	25802	broad.mit.edu	37	chr1	201869385	201869385	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctctttttaccttctcAtcctcctttttcatgtctgt	3	22	3	13	0	4	0	2	0	3	0	8	0	7	0	4	0	1	1	4	0	1	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:201869385A>T	uc001gxb.2	-	2	1004	c.756T>A	c.(754-756)GAT>GAA	p.D252E	LMOD1_uc010ppu.1_Missense_Mutation_p.D201E	NM_012134	NP_036266	P29536	LMOD1_HUMAN	leiomodin 1 (smooth muscle)	252	8 X approximate tandem repeats.|6.				muscle contraction	cytoskeleton|cytosol|membrane fraction	tropomyosin binding			ovary(1)|pancreas(1)|skin(1)	3						TTACCTTCTCATCCTCCTTTT	0.383													3	75					0	0	0.004672	0	0		T	201869385	T	T	201869385	3	4	107	1	0	0	0	0	1	0	0	0	8873	214	8	5	1054	5	LMOD1	1	201869385	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1052583	201869385	47381236	52	64399											
FMOD	2331	broad.mit.edu	37	chr1	203317106	203317106	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggaacgaagggcaggtacTtgaggttgcgattgtcacag	11	8	16	6	2	1	1	1	1	0	0	1	4	1	2	0	4	3	3	0	4	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:203317106T>G	uc001gzr.2	-	2	429	c.293A>C	c.(292-294)AAG>ACG	p.K98T	FMOD_uc010pqi.1_RNA	NM_002023	NP_002014	Q06828	FMOD_HUMAN	fibromodulin precursor	98	LRRNT.				transforming growth factor beta receptor complex assembly	extracellular space|proteinaceous extracellular matrix				ovary(2)|breast(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.171)			GGGCAGGTACTTGAGGTTGCG	0.582													4	42					0	0	0.009096	0	0		G	203317106	G	G	203317106	3	3	107	1	0	0	0	0	1	0	0	0	5973	1609	56	5	845	5	FMOD	1	203317106	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1447721	203317106	45933515	53	64400											
TRAF3IP3	80342	broad.mit.edu	37	chr1	209950798	209950798	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgcctgcaaggggacagAgacctgtgcagcttggatac	11	7	14	9	0	0	1	0	0	0	1	0	5	0	3	2	3	5	3	2	3	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:209950798A>G	uc001hho.2	+	12	1445	c.1155A>G	c.(1153-1155)AGA>AGG	p.R385R	TRAF3IP3_uc001hhl.2_Silent_p.R365R|TRAF3IP3_uc001hhm.1_Intron|TRAF3IP3_uc001hhn.2_Silent_p.R365R|TRAF3IP3_uc009xcr.2_Silent_p.R385R	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	385	Cytoplasmic (Potential).|Potential.					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		AAGGGGACAGAGACCTGTGCA	0.512													4	76					0	0	0.009096	0	0		G	209950798	G	G	209950798	2	3	107	1	0	0	0	0	0	0	0	1	16468	301	11	3		3	TRAF3IP3	1	209950798	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	6633692	209950798	39299823	54	64401											
VASH2	79805	broad.mit.edu	37	chr1	213147373	213147373	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcccccagaaggagacAggcaagccccccgaggaggc	10	2	13	16	1	0	2	0	0	0	2	1	5	1	3	6	4	1	1	6	4	2	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:213147373A>T	uc001hjy.2	+	6	1160	c.956A>T	c.(955-957)CAG>CTG	p.Q319L	VASH2_uc001hjv.2_RNA|VASH2_uc001hjx.2_Missense_Mutation_p.Q254L|VASH2_uc010ptn.1_Missense_Mutation_p.Q215L|VASH2_uc001hjw.2_Missense_Mutation_p.Q275L	NM_001136475	NP_001129947	Q86V25	VASH2_HUMAN	vasohibin 2 isoform 3	319					positive regulation of angiogenesis|positive regulation of endothelial cell proliferation	cytoplasm					0				OV - Ovarian serous cystadenocarcinoma(81;0.00479)|all cancers(67;0.00844)|GBM - Glioblastoma multiforme(131;0.0496)|Epithelial(68;0.0986)		AGAAGGAGACAGGCAAGCCCC	0.552													7	50					0	0	0.006214	0	0		T	213147373	T	T	213147373	3	4	107	1	0	0	0	0	1	0	0	0	17152	188	7	5	978	5	VASH2	1	213147373	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3196575	213147373	36103248	55	64402											
CENPF	1063	broad.mit.edu	37	chr1	214815833	214815833	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtctttggctccattGgacgagagtaattcctacga	8	13	10	10	2	1	1	0	0	1	1	3	4	3	2	3	2	1	2	3	2	2	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:214815833G>A	uc001hkm.2	+	12	4326	c.4152G>A	c.(4150-4152)TTG>TTA	p.L1384L		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TGGCTCCATTGGACGAGAGTA	0.423													20	95					0	0	0.008871	0	0		A	214815833	A	A	214815833	2	1	107	1	0	0	0	0	0	0	0	1	3234	1339	47	4		4	CENPF	1	214815833	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1668460	214815833	34434788	56	64403											
TP53BP2	7159	broad.mit.edu	37	chr1	223971971	223971971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggttcataatcccaaagcGcataaatgactcctttattc	13	12	6	10	1	1	1	1	1	0	0	4	2	3	1	2	1	1	2	2	1	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:223971971G>A	uc010pvb.1	-	17	3501	c.3209C>T	c.(3208-3210)GCG>GTG	p.A1070V	TP53BP2_uc001hod.2_Missense_Mutation_p.A941V|TP53BP2_uc010puz.1_Missense_Mutation_p.A303V|TP53BP2_uc010pva.1_Missense_Mutation_p.A709V	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	1064	Mediates interaction with APC2.|SH3.				apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		ATCCCAAAGCGCATAAATGAC	0.403													4	177					0	0	0.009096	0	0		A	223971971	A	A	223971971	3	1	107	1	0	0	0	0	1	0	0	0	16410	1087	38	1	203	1	TP53BP2	1	223971971	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	9156138	223971971	25278650	57	64404											
PARP1	142	broad.mit.edu	37	chr1	226553738	226553738	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatctcggcttcttcagAatctctgtcaaccacctgga	9	12	8	12	1	5	2	2	1	3	1	7	4	5	3	2	2	1	1	2	2	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:226553738A>T	uc001hqd.3	-	18	2593	c.2422T>A	c.(2422-2424)TCT>ACT	p.S808T		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	808	PARP catalytic.				cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		GCTTCTTCAGAATCTCTGTCA	0.448								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					7	94					0	0	0.001984	0	0		T	226553738	T	T	226553738	3	4	107	1	0	0	0	0	1	0	0	0	11473	246	9	5	646	5	PARP1	1	226553738	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2581767	226553738	22696883	58	64405											
PARP1	142	broad.mit.edu	37	chr1	226570854	226570854	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcctgttttttaaccttcaAtttcttgaggtaagagattt	9	19	7	6	0	2	2	1	1	1	1	3	3	3	2	2	1	1	2	2	1	3	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:226570854A>C	uc001hqd.3	-	8	1213	c.1042T>G	c.(1042-1044)TTG>GTG	p.L348V		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	348					cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		TTAACCTTCAATTTCTTGAGG	0.498								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					5	413					0	0	0.021553	0	0		C	226570854	C	C	226570854	3	2	107	1	0	0	0	0	1	0	0	0	11473	98	4	5	2066	5	PARP1	1	226570854	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	17116	226570854	22679767	59	64406											
C1orf198	84886	broad.mit.edu	37	chr1	230979513	230979513	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtccaggctggaggaccTgctgccttgggaggacttga	6	8	17	10	1	0	1	0	1	0	0	1	5	1	5	3	6	2	2	3	6	0	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:230979513T>C	uc001hub.2	-	3	558	c.514A>G	c.(514-516)AGG>GGG	p.R172G	C1orf198_uc009xfh.1_Missense_Mutation_p.R42G|C1orf198_uc001huc.1_5'UTR|C1orf198_uc001hud.1_Missense_Mutation_p.R134G	NM_032800	NP_116189	Q9H425	CA198_HUMAN	hypothetical protein LOC84886 isoform 1	172											0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				CTGGAGGACCTGCTGCCTTGG	0.667													27	197					0	0	0.009535	0	0		C	230979513	C	C	230979513	3	2	107	1	0	0	0	0	1	0	0	0	2029	1579	55	3	477	3	C1orf198	1	230979513	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	4408659	230979513	18271108	60	64407											
SIPA1L2	57568	broad.mit.edu	37	chr1	232564266	232564266	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatctcccaccactgtcTgatgctgagttgctgtggac	7	11	10	13	0	2	2	0	2	2	0	3	3	2	3	2	1	3	4	2	1	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:232564266T>A	uc001hvg.2	-	15	4459	c.4301A>T	c.(4300-4302)CAG>CTG	p.Q1434L	SIPA1L2_uc001hvf.2_Missense_Mutation_p.Q508L	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1434					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				CACCACTGTCTGATGCTGAGT	0.438													20	119					0	0	0.014323	0	0		A	232564266	A	A	232564266	3	1	107	1	0	0	0	0	1	0	0	0	14355	1580	55	5	895	5	SIPA1L2	1	232564266	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1584753	232564266	16686355	61	64408											
RYR2	6262	broad.mit.edu	37	chr1	237730077	237730077	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctttgatggcttcaaggTgagtggactttgtcctgtgc	5	15	13	8	0	1	2	1	2	0	0	2	3	2	3	2	3	2	1	2	3	1	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:237730077T>C	uc001hyl.1	+	28	3543	c.3423_splice	c.e28+2	p.K1141_splice		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor						cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GGCTTCAAGGTGAGTGGACTT	0.532													8	197					0	0	0.008291	0	0		C	237730077	C	C	237730077	5	2	107	1	0	0	0	0	0	0	1	0	13794	1710	59	3	3535	3	RYR2	1	237730077	Splice_Site	SNP	T	TCGA-CD-5801-01A-11D-1600-08	5165811	237730077	11520544	62	64409											
RYR2	6262	broad.mit.edu	37	chr1	237806673	237806673	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagaattaggtccatttTgagatccctcattcccctgg	9	13	7	12	0	2	2	2	1	0	2	5	3	5	2	4	2	0	0	4	2	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:237806673T>C	uc001hyl.1	+	48	7388	c.7268T>C	c.(7267-7269)TTG>TCG	p.L2423S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2423	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AGGTCCATTTTGAGATCCCTC	0.418													35	238					0	0	0.021022	0	0		C	237806673	C	C	237806673	3	2	107	1	0	0	0	0	1	0	0	0	13794	1821	63	3	7458	3	RYR2	1	237806673	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	76596	237806673	11443948	63	64410											
ZNF496	84838	broad.mit.edu	37	chr1	247486469	247486469	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcaccgggggtagctggAgggtggtcacctgctgtgtg	5	9	17	10	1	2	0	2	0	0	0	2	1	2	1	2	5	2	3	2	5	1	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr1:247486469A>G	uc001ico.2	-	5	1103	c.638T>C	c.(637-639)CTC>CCC	p.L213P	ZNF496_uc009xgv.2_Missense_Mutation_p.L213P|ZNF496_uc001icp.2_Missense_Mutation_p.L213P|ZNF496_uc010pyv.1_Missense_Mutation_p.L213P	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	213					positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			GGGTAGCTGGAGGGTGGTCAC	0.522													3	107					0	0	0.004672	0	0		G	247486469	G	G	247486469	3	3	107	1	0	0	0	0	1	0	0	0	17970	304	11	3	1145	3	ZNF496	1	247486469	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	9679796	247486469	1764152	64	64411											
TPO	7173	broad.mit.edu	37	chr2	1507813	1507813	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccagtgtctctgcgcggAcccctacgagttaggagacg	7	9	12	13	4	1	1	0	0	1	1	3	4	2	2	3	2	2	1	3	2	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:1507813A>T	uc002qww.2	+	14	2571	c.2480A>T	c.(2479-2481)GAC>GTC	p.D827V	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.D770V|TPO_uc002qwr.2_Missense_Mutation_p.D827V|TPO_uc002qwx.2_Missense_Mutation_p.D770V|TPO_uc010yio.1_Missense_Mutation_p.D654V|TPO_uc010yip.1_Intron|TPO_uc002qwy.1_Intron|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	827	Extracellular (Potential).|EGF-like; calcium-binding (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CTCTGCGCGGACCCCTACGAG	0.572													16	66					0	0	0.00499	0	0		T	1507813	T	T	1507813	3	4	107	1	0	0	0	0	1	0	0	0	16436	275	10	5	2530	5	TPO	2	1507813	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08		1507813	241691560	65	64412											
TAF1B	9014	broad.mit.edu	37	chr2	10074061	10074061	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaaactttttgagaaaaAatacagtgtaaaaagaaaga	23	8	8	2	0	0	4	0	1	0	4	0	6	0	4	0	0	2	1	0	0	10	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:10074061A>C	uc002qzz.2	+	15	1815	c.1715A>C	c.(1714-1716)AAA>ACA	p.K572T	TAF1B_uc010yja.1_Missense_Mutation_p.K317T|TAF1B_uc010exd.2_Missense_Mutation_p.K317T	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	572					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TTTGAGAAAAAATACAGTGTA	0.303													14	81					0	0	0.020292	0	0		C	10074061	C	C	10074061	3	2	107	1	0	0	0	0	1	0	0	0	15545	14	1	5	1773	5	TAF1B	2	10074061	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	8566248	10074061	233125312	66	64413											
ODC1	4953	broad.mit.edu	37	chr2	10584276	10584276	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaacttcactatcaaaagTcatcatctggactccattat	13	13	3	12	0	6	0	5	0	1	0	7	1	7	1	1	1	1	0	1	1	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:10584276T>C	uc010exg.1	-	5	828	c.394A>G	c.(394-396)ACT>GCT	p.T132A	ODC1_uc002ran.1_5'Flank|ODC1_uc002rao.1_Missense_Mutation_p.T132A|ODC1_uc010yjd.1_Missense_Mutation_p.T2A	NM_002539	NP_002530	P11926	DCOR_HUMAN	ornithine decarboxylase 1	132					polyamine biosynthetic process|regulation of cellular amino acid metabolic process|response to virus	cytosol	ornithine decarboxylase activity|protein binding			ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.161)	Pyridoxal Phosphate(DB00114)|Spermine(DB00127)	CTATCAAAAGTCATCATCTGG	0.428													13	663					0	0	0.020292	0	0		C	10584276	C	C	10584276	3	2	107	1	0	0	0	0	1	0	0	0	10844	1667	58	3	1023	3	ODC1	2	10584276	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	510215	10584276	232615097	67	64414											
APOB	338	broad.mit.edu	37	chr2	21225959	21225959	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccttgataaacccactcaGcattgttctgcagatttctt	9	14	5	13	0	3	2	1	1	2	1	3	2	3	2	3	0	3	3	3	0	2	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:21225959G>T	uc002red.2	-	29	12463	c.12335C>A	c.(12334-12336)GCT>GAT	p.A4112D		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	4112					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AACCCACTCAGCATTGTTCTG	0.488													40	403					8.69298e-16	9.21665e-16	0.027894	1	0		T	21225959	T	T	21225959	3	4	107	1	0	0	0	0	1	0	0	0	785	971	34	5	1360	5	APOB	2	21225959	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	10641683	21225959	221973414	68	64415											
APOB	338	broad.mit.edu	37	chr2	21233516	21233516	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatattcttgcaaggtcTcaaaaaatgggaggttaatg	16	11	9	5	0	2	0	1	0	2	0	3	1	2	1	0	3	1	2	0	3	8	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:21233516T>A	uc002red.2	-	26	6352	c.6224A>T	c.(6223-6225)GAG>GTG	p.E2075V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2075	Heparin-binding.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTGCAAGGTCTCAAAAAATGG	0.353													7	239					0	0	0.001984	0	0		A	21233516	A	A	21233516	3	1	107	1	0	0	0	0	1	0	0	0	785	1551	54	5	7483	5	APOB	2	21233516	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	7557	21233516	221965857	69	64416											
APOB	338	broad.mit.edu	37	chr2	21233884	21233884	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcctagacacgagatgAtgacttgtggagcctttgta	9	14	10	8	1	0	4	0	2	0	2	1	6	1	5	2	1	1	1	2	1	2	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:21233884A>T	uc002red.2	-	26	5984	c.5856T>A	c.(5854-5856)CAT>CAA	p.H1952Q		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1952					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ACACGAGATGATGACTTGTGG	0.478													14	322					0	0	0.020292	0	0		T	21233884	T	T	21233884	3	4	107	1	0	0	0	0	1	0	0	0	785	330	12	5	7851	5	APOB	2	21233884	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	368	21233884	221965489	70	64417											
APOB	338	broad.mit.edu	37	chr2	21234742	21234742	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcattcagctcattctccagCaccaggagactacacttcaa	12	9	6	14	0	4	1	3	0	1	1	5	2	4	1	2	1	3	3	2	1	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:21234742C>T	uc002red.2	-	26	5126	c.4998G>A	c.(4996-4998)GTG>GTA	p.V1666V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1666					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CATTCTCCAGCACCAGGAGAC	0.463													6	121					0	0	0.021553	0	0		T	21234742	T	T	21234742	2	4	107	1	0	0	0	0	0	0	0	1	785	697	25	2		2	APOB	2	21234742	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	858	21234742	221964631	71	64418											
ITSN2	50618	broad.mit.edu	37	chr2	24523025	24523025	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcatagttggctttccgtTtgtcctcaaaagtaactgaa	10	14	8	9	1	2	1	2	1	0	0	4	1	4	1	2	1	1	5	2	1	5	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:24523025T>G	uc002rfe.2	-	12	1355	c.1097A>C	c.(1096-1098)AAA>ACA	p.K366T	ITSN2_uc002rff.2_Missense_Mutation_p.K366T|ITSN2_uc002rfg.2_Missense_Mutation_p.K366T|ITSN2_uc010eyd.2_Missense_Mutation_p.K391T	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	366	Potential.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCTTTCCGTTTGTCCTCAAA	0.458													29	279					0	0	0.008361	0	0		G	24523025	G	G	24523025	3	3	107	1	0	0	0	0	1	0	0	0	7943	1841	64	5	4163	5	ITSN2	2	24523025	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3288283	24523025	218676348	72	64419											
NLRC4	58484	broad.mit.edu	37	chr2	32476658	32476658	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagtctccttctgatgtcTgatgaaaaagacctattaga	13	12	7	9	0	3	5	0	3	3	2	4	5	3	5	3	0	0	0	3	0	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:32476658T>A	uc002roi.2	-	4	521	c.275A>T	c.(274-276)CAG>CTG	p.Q92L	NLRC4_uc002roj.1_Missense_Mutation_p.Q92L|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	92					activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TTCTGATGTCTGATGAAAAAG	0.438													15	157					0	0	0.028581	0	0		A	32476658	A	A	32476658	3	1	107	1	0	0	0	0	1	0	0	0	10488	1580	55	5	2823	5	NLRC4	2	32476658	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	7953633	32476658	210722715	73	64420											
YIPF4	84272	broad.mit.edu	37	chr2	32526534	32526534	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtacttttggtggttggAtcatttgaagtggtgtctac	6	17	12	6	0	2	1	1	1	1	0	2	2	2	2	1	4	2	2	1	4	3	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:32526534A>G	uc002rok.2	+	5	834	c.567A>G	c.(565-567)GGA>GGG	p.G189G		NM_032312	NP_115688	Q9BSR8	YIPF4_HUMAN	Yip1 domain family, member 4	189						endoplasmic reticulum|integral to membrane	protein binding				0	Acute lymphoblastic leukemia(172;0.155)					TGGTGGTTGGATCATTTGAAG	0.348													23	245					0	0	0.016522	0	0		G	32526534	G	G	32526534	2	3	107	1	0	0	0	0	0	0	0	1	17506	320	12	3		3	YIPF4	2	32526534	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	49876	32526534	210672839	74	64421											
BIRC6	57448	broad.mit.edu	37	chr2	32678936	32678936	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcacatctctcactggacTtttggaagttgaacctctgc	8	15	7	11	0	4	1	2	1	2	0	5	3	4	3	1	2	2	1	1	2	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:32678936T>C	uc010ezu.2	+	23	4813	c.4679T>C	c.(4678-4680)CTT>CCT	p.L1560P		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1560					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					CTCACTGGACTTTTGGAAGTT	0.398													29	315					0	0	0.008361	0	0		C	32678936	C	C	32678936	3	2	107	1	0	0	0	0	1	0	0	0	1439	1609	56	3	4769	3	BIRC6	2	32678936	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	152402	32678936	210520437	75	64422											
TTC27	55622	broad.mit.edu	37	chr2	32855667	32855667	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcaatgactcaaaatattTttaattcaacaacaaccgct	17	13	2	9	1	3	1	3	1	0	0	3	1	3	1	1	0	3	1	1	0	8	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:32855667T>C	uc002rom.2	+	2	397	c.166T>C	c.(166-168)TTT>CTT	p.F56L	TTC27_uc010ymx.1_Missense_Mutation_p.F6L	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	56							protein binding			central_nervous_system(1)	1						TCAAAATATTTTTAATTCAAC	0.358													5	119					0	0	0.021553	0	0		C	32855667	C	C	32855667	3	2	107	1	0	0	0	0	1	0	0	0	16721	1841	64	3	172	3	TTC27	2	32855667	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	176731	32855667	210343706	76	64423											
PLEKHH2	130271	broad.mit.edu	37	chr2	43924480	43924480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaacctgagttcactgaaGgaaaagacatggaaggtatt	17	8	11	5	0	1	4	1	2	0	2	1	6	1	6	1	3	1	2	1	3	7	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:43924480G>A	uc010yny.1	+	7	756	c.673G>A	c.(673-675)GGA>AGA	p.G225R	PLEKHH2_uc002rte.3_Missense_Mutation_p.G225R|PLEKHH2_uc002rtf.3_Missense_Mutation_p.G224R	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	225						cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				GTTCACTGAAGGAAAAGACAT	0.358													13	113					0	0	0.016723	0	0		A	43924480	A	A	43924480	3	1	107	1	0	0	0	0	1	0	0	0	12096	1001	35	4	695	4	PLEKHH2	2	43924480	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	11068813	43924480	199274893	77	64424											
PREPL	9581	broad.mit.edu	37	chr2	44549015	44549015	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcctccaggctgaatatctAgaataatattaggggtctga	12	12	10	7	0	2	3	0	2	2	1	3	3	3	3	2	3	1	1	2	3	7	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:44549015A>T	uc002ruf.2	-	13	2080	c.2045T>A	c.(2044-2046)CTA>CAA	p.L682Q	PREPL_uc002rug.2_Missense_Mutation_p.L616Q|PREPL_uc002ruh.2_Missense_Mutation_p.L620Q|PREPL_uc010fax.2_Missense_Mutation_p.L682Q|PREPL_uc002rui.3_Missense_Mutation_p.L593Q|PREPL_uc002ruj.1_Missense_Mutation_p.L593Q|PREPL_uc002ruk.1_Missense_Mutation_p.L682Q	NM_006036	NP_006027	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like isoform C	682					proteolysis	cytosol	serine-type endopeptidase activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CTGAATATCTAGAATAATATT	0.413													6	158					0	0	0.021553	0	0		T	44549015	T	T	44549015	3	4	107	1	0	0	0	0	1	0	0	0	12497	420	15	5	146	5	PREPL	2	44549015	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	624535	44549015	198650358	78	64425											
SOCS5	9655	broad.mit.edu	37	chr2	46986354	46986354	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggctcagatttagcccaaAaatggcatttgattaaacag	14	11	8	8	0	1	2	1	1	0	1	1	2	1	2	1	2	2	2	1	2	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:46986354A>C	uc002rvf.2	+	2	849	c.685A>C	c.(685-687)AAA>CAA	p.K229Q	SOCS5_uc010yoe.1_Missense_Mutation_p.K198Q|SOCS5_uc002rvg.2_Missense_Mutation_p.K229Q	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	229					cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			TTTAGCCCAAAAATGGCATTT	0.378													5	195					0	0	0.014758	0	0		C	46986354	C	C	46986354	3	2	107	1	0	0	0	0	1	0	0	0	14942	15	1	5	687	5	SOCS5	2	46986354	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2437339	46986354	196213019	79	64426											
FSHR	2492	broad.mit.edu	37	chr2	49191026	49191026	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtcttctgccagagaggAtctctgacccctagcctgag	8	11	10	12	0	3	3	0	2	3	1	4	5	3	4	4	1	2	0	4	1	1	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:49191026A>T	uc002rww.2	-	10	1008	c.934T>A	c.(934-936)TCC>ACC	p.S312T	FSHR_uc002rwx.2_Missense_Mutation_p.S250T|FSHR_uc010fbn.2_Missense_Mutation_p.S286T	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	312	Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	GCCAGAGAGGATCTCTGACCC	0.403									Gonadal_Dysgenesis_46_XX				6	348					0	0	0.00308	0	0		T	49191026	T	T	49191026	3	4	107	1	0	0	0	0	1	0	0	0	6087	333	12	5	1157	5	FSHR	2	49191026	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2204672	49191026	194008347	80	64427											
SPTBN1	6711	broad.mit.edu	37	chr2	54872493	54872493	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgcctcaccgtgcagaccaAgttcatggagttgctggagc	8	8	13	12	2	2	1	2	0	0	1	2	3	2	3	3	2	3	4	3	2	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:54872493A>C	uc002rxu.2	+	21	4646	c.4397A>C	c.(4396-4398)AAG>ACG	p.K1466T	SPTBN1_uc002rxx.2_Missense_Mutation_p.K1453T	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1466	Spectrin 12.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			GTGCAGACCAAGTTCATGGAG	0.557													17	162					0	0	0.00499	0	0		C	54872493	C	C	54872493	3	2	107	1	0	0	0	0	1	0	0	0	15144	72	3	5	4588	5	SPTBN1	2	54872493	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	5681467	54872493	188326880	81	64428											
REL	5966	broad.mit.edu	37	chr2	61145345	61145345	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgctccaaatactgcagaAttaaggatttgtcgtgtaaa	13	12	10	6	1	0	1	0	0	0	1	2	2	1	2	1	2	3	3	1	2	6	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:61145345A>C	uc002sam.1	+	6	779	c.555A>C	c.(553-555)GAA>GAC	p.E185D	REL_uc002san.1_Missense_Mutation_p.E185D	NM_002908	NP_002899	Q04864	REL_HUMAN	v-rel reticuloendotheliosis viral oncogene	185	RHD.				positive regulation of I-kappaB kinase/NF-kappaB cascade	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	all_hematologic(2;0.0797)	Ovarian(717;0.0728)	LUSC - Lung squamous cell carcinoma(5;6.2e-08)|Lung(5;1.65e-06)|Epithelial(17;0.064)|all cancers(80;0.221)			ATACTGCAGAATTAAGGATTT	0.308			A		Hodgkin Lymphoma								9	76					0	0	0.004482	0	0		C	61145345	C	C	61145345	3	2	107	1	0	0	0	0	1	0	0	0	13240	98	4	5	577	5	REL	2	61145345	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	6272852	61145345	182054028	82	64429											
ZNF638	27332	broad.mit.edu	37	chr2	71654264	71654264	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactttggatgaagtaacTgaagaggatgaagactctct	13	11	12	5	0	1	6	0	4	1	2	2	8	1	8	0	2	1	1	0	2	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:71654264T>C	uc002shx.2	+	24	5584	c.5265T>C	c.(5263-5265)ACT>ACC	p.T1755T	ZNF638_uc002shy.2_Silent_p.T1755T|ZNF638_uc002shz.2_Silent_p.T1755T|ZNF638_uc002sia.2_Silent_p.T1755T|ZNF638_uc002sib.1_3'UTR|ZNF638_uc010fed.2_Intron|ZNF638_uc002sic.2_Silent_p.T852T|ZNF638_uc002sid.2_Silent_p.T124T	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1755					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						ATGAAGTAACTGAAGAGGATG	0.388													7	308					0	0	0.001984	0	0		C	71654264	C	C	71654264	2	2	107	1	0	0	0	0	0	0	0	1	18080	1567	55	3		3	ZNF638	2	71654264	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	10508919	71654264	171545109	83	64430											
HK2	3099	broad.mit.edu	37	chr2	75104388	75104388	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctctttggggggaagcTcagcccagagcttctcaaca	8	9	12	12	0	3	1	2	0	2	1	4	2	3	2	1	3	5	4	1	3	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:75104388T>G	uc002snd.2	+	8	2897	c.971T>G	c.(970-972)CTC>CGC	p.L324R		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	324	Regulatory.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						GGGGGGAAGCTCAGCCCAGAG	0.547													12	521					0	0	0.010729	0	0		G	75104388	G	G	75104388	3	3	107	1	0	0	0	0	1	0	0	0	7207	1551	54	5	1001	5	HK2	2	75104388	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3450124	75104388	168094985	84	64431											
CHST10	9486	broad.mit.edu	37	chr2	101023091	101023091	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctagccaccatgaacatgAaaatcacccaaaagcatgcg	16	6	7	12	1	1	2	1	2	0	0	1	2	1	2	3	0	5	2	3	0	6	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:101023091A>G	uc002tam.2	-	3	406	c.47T>C	c.(46-48)TTC>TCC	p.F16S		NM_004854	NP_004845	O43529	CHSTA_HUMAN	HNK-1 sulfotransferase	16	Helical; Signal-anchor for type II membrane protein; (Potential).				carbohydrate biosynthetic process|cell adhesion	Golgi membrane|integral to membrane|membrane fraction				ovary(1)	1						CATGAACATGAAAATCACCCA	0.478													4	372					0	0	0.009096	0	0		G	101023091	G	G	101023091	3	3	107	1	0	0	0	0	1	0	0	0	3401	246	9	3	1043	3	CHST10	2	101023091	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	25918703	101023091	142176282	85	64432											
NPAS2	4862	broad.mit.edu	37	chr2	101582145	101582145	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccaatcataggataccTgccttttgaagtgctgggaa	11	11	9	10	0	1	1	1	1	0	0	2	3	2	3	4	2	3	1	4	2	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:101582145T>A	uc002tap.1	+	10	1110	c.824T>A	c.(823-825)CTG>CAG	p.L275Q	NPAS2_uc010yvt.1_Missense_Mutation_p.L340Q	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	275	PAS 2.				central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						ATAGGATACCTGCCTTTTGAA	0.562													5	245					0	0	0.021553	0	0		A	101582145	A	A	101582145	3	1	107	1	0	0	0	0	1	0	0	0	10582	1580	55	5	858	5	NPAS2	2	101582145	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	559054	101582145	141617228	86	64433											
SLC9A2	6549	broad.mit.edu	37	chr2	103281748	103281748	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatcgagccactgtttgttTtcctgtacagttatttgtcc	6	18	8	9	1	0	1	0	1	0	0	3	2	2	1	3	0	2	4	3	0	2	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:103281748T>G	uc002tca.2	+	3	1085	c.943T>G	c.(943-945)TTC>GTC	p.F315V		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	315	Helical; Name=I/M7; (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						ACTGTTTGTTTTCCTGTACAG	0.443													18	217					0	0	0.027356	0	0		G	103281748	G	G	103281748	3	3	107	1	0	0	0	0	1	0	0	0	14737	1841	64	5	953	5	SLC9A2	2	103281748	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1699603	103281748	139917625	87	64434											
RGPD4	285190	broad.mit.edu	37	chr2	108476224	108476224	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttagttcagcatgaaataAacactctaagagcccaggaa	16	10	7	8	0	2	2	1	1	1	1	2	3	2	3	1	1	3	2	1	1	6	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:108476224A>C	uc010ywk.1	+	12	1763	c.1681A>C	c.(1681-1683)AAC>CAC	p.N561H	RGPD4_uc002tdu.2_5'UTR|RGPD4_uc010ywl.1_RNA	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	561					intracellular transport		binding			skin(2)	2						GCATGAAATAAACACTCTAAG	0.358													15	204					0	0	0.008871	0	0		C	108476224	C	C	108476224	3	2	107	1	0	0	0	0	1	0	0	0	13313	14	1	5	1727	5	RGPD4	2	108476224	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	5194476	108476224	134723149	88	64435											
RANBP2	5903	broad.mit.edu	37	chr2	109371385	109371385	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgcccctggagtctgtaAaagagatgcttaattcagtc	10	12	10	9	0	2	1	1	0	1	1	3	3	2	2	2	1	2	2	2	1	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:109371385A>C	uc002tem.3	+	16	2353	c.2227A>C	c.(2227-2229)AAA>CAA	p.K743Q		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	743					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GGAGTCTGTAAAAGAGATGCT	0.333													52	434					0	0	0.01441	0	0		C	109371385	C	C	109371385	3	2	107	1	0	0	0	0	1	0	0	0	13053	15	1	5	2289	5	RANBP2	2	109371385	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	895161	109371385	133827988	89	64436											
THSD7B	80731	broad.mit.edu	37	chr2	138033526	138033526	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatggagcccttgcatcttAgtgccagagtctgtctggca	9	11	11	10	0	3	1	0	0	3	1	3	2	3	2	2	2	3	2	2	2	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:138033526A>G	uc002tva.1	+	11	2337	c.2337A>G	c.(2335-2337)TTA>TTG	p.L779L	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Silent_p.L669L	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CTTGCATCTTAGTGCCAGAGT	0.418													5	59					0	0	0.014758	0	0		G	138033526	G	G	138033526	2	3	107	1	0	0	0	0	0	0	0	1	15905	417	15	3		3	THSD7B	2	138033526	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	28662141	138033526	105165847	90	64437											
LRP1B	53353	broad.mit.edu	37	chr2	141032079	141032079	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaacctcacattttggtccTtcatagcgcgttggacagac	9	12	8	12	2	3	1	3	0	0	1	4	2	4	2	2	2	2	1	2	2	2	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:141032079T>A	uc002tvj.1	-	85	14028	c.13056A>T	c.(13054-13056)GAA>GAT	p.E4352D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4352	Extracellular (Potential).|EGF-like 13.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATTTTGGTCCTTCATAGCGCG	0.428										TSP Lung(27;0.18)			22	188					0	0	0.012319	0	0		A	141032079	A	A	141032079	3	1	107	1	0	0	0	0	1	0	0	0	8973	1606	56	5	771	5	LRP1B	2	141032079	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2998553	141032079	102167294	91	64438											
LRP1B	53353	broad.mit.edu	37	chr2	141128301	141128301	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcacagttctcttcatcActgccatccacacagtcatg	9	13	4	15	0	5	0	4	0	1	0	7	0	6	0	2	0	1	1	2	0	0	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:141128301A>G	uc002tvj.1	-	71	11958	c.10986T>C	c.(10984-10986)AGT>AGC	p.S3662S		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3662	Extracellular (Potential).|LDL-receptor class A 29.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TCTCTTCATCACTGCCATCCA	0.398										TSP Lung(27;0.18)			44	479					0	0	0.01441	0	0		G	141128301	G	G	141128301	2	3	107	1	0	0	0	0	0	0	0	1	8973	156	6	3		3	LRP1B	2	141128301	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	96222	141128301	102071072	92	64439											
RIF1	55183	broad.mit.edu	37	chr2	152319680	152319680	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaactcccccataccctacaAgtcggaggcaaacctttatt	12	9	6	14	1	0	0	0	0	0	0	2	2	1	1	4	2	4	1	4	2	6	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:152319680A>T	uc002txm.2	+	30	3776	c.3646A>T	c.(3646-3648)AGT>TGT	p.S1216C	RIF1_uc002txl.2_Missense_Mutation_p.S1216C|RIF1_uc002txn.2_Missense_Mutation_p.S1216C|RIF1_uc002txo.2_Missense_Mutation_p.S1216C|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	1216					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		ATACCCTACAAGTCGGAGGCA	0.388													9	243					0	0	0.004482	0	0		T	152319680	T	T	152319680	3	4	107	1	0	0	0	0	1	0	0	0	13384	72	3	5	3760	5	RIF1	2	152319680	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	11191379	152319680	90879693	93	64440											
NEB	4703	broad.mit.edu	37	chr2	152573961	152573961	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattggttactttcttggcaAattctatatctggaggatca	10	16	9	6	0	4	0	1	0	3	0	4	3	4	2	0	4	1	2	0	4	4	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:152573961A>C	uc010fnx.2	-	10	982	c.791T>G	c.(790-792)TTT>TGT	p.F264C		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	264	Nebulin 6.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TTTCTTGGCAAATTCTATATC	0.423													5	68					0	0	0.021553	0	0		C	152573961	C	C	152573961	3	2	107	1	0	0	0	0	1	0	0	0	10321	14	1	5	25587	5	NEB	2	152573961	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	254281	152573961	90625412	94	64441											
LY75	4065	broad.mit.edu	37	chr2	160706613	160706613	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagcgcaaaccaatccataAagtagcttccatatccggaa	15	7	6	13	2	0	0	0	0	0	0	3	1	3	1	5	1	3	3	5	1	7	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:160706613A>C	uc002ubc.3	-	23	3097	c.3028T>G	c.(3028-3030)TTA>GTA	p.L1010V	LY75_uc002ubb.3_Missense_Mutation_p.L1010V|LY75_uc010fos.2_Missense_Mutation_p.L1010V	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	1010	Extracellular (Potential).|C-type lectin 6.				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		CCAATCCATAAAGTAGCTTCC	0.338													4	107					0	0	0.021553	0	0		C	160706613	C	C	160706613	3	2	107	1	0	0	0	0	1	0	0	0	9117	11	1	5	2192	5	LY75	2	160706613	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	8132652	160706613	82492760	95	64442											
SLC38A11	151258	broad.mit.edu	37	chr2	165796034	165796034	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtggaaagtccaataatgaAgtggcgaccaataaacacgt	16	8	10	7	2	0	1	0	1	0	0	1	3	1	2	2	2	1	0	2	2	7	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:165796034A>C	uc002ucv.1	-	7	832	c.295T>G	c.(295-297)TTC>GTC	p.F99V	SLC38A11_uc002ucu.1_Missense_Mutation_p.F77V|SLC38A11_uc002ucw.1_Missense_Mutation_p.F99V	NM_173512	NP_775783	Q08AI6	S38AB_HUMAN	solute carrier family 38, member 11	99	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane		p.L99H(1)		ovary(1)	1						CCAATAATGAAGTGGCGACCA	0.333													16	143					0	0	0.006122	0	0		C	165796034	C	C	165796034	3	2	107	1	0	0	0	0	1	0	0	0	14628	72	3	5	953	5	SLC38A11	2	165796034	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	5089421	165796034	77403339	96	64443											
CSRNP3	80034	broad.mit.edu	37	chr2	166451672	166451672	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaagtttccagcagtgaaAgtgctgacagtggggacagt	12	9	14	6	0	0	3	0	3	0	0	1	4	1	4	1	2	2	3	1	2	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:166451672A>C	uc002udf.2	+	4	473	c.97A>C	c.(97-99)AGT>CGT	p.S33R	CSRNP3_uc002udg.2_Missense_Mutation_p.S33R	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	33	Ser-rich.				apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						CAGCAGTGAAAGTGCTGACAG	0.453													33	178					0	0	0.017118	0	0		C	166451672	C	C	166451672	3	2	107	1	0	0	0	0	1	0	0	0	3968	72	3	5	99	5	CSRNP3	2	166451672	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	655638	166451672	76747701	97	64444											
XIRP2	129446	broad.mit.edu	37	chr2	168099931	168099931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaagtcaagaagaatcaGcggtaactatcagtaaggac	18	7	9	7	1	4	2	4	0	0	2	4	3	4	3	0	2	2	2	0	2	7	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:168099931G>A	uc002udx.2	+	8	2047	c.2029G>A	c.(2029-2031)GCG>ACG	p.A677T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.A502T|XIRP2_uc010fpq.2_Missense_Mutation_p.A455T|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	502					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGAAGAATCAGCGGTAACTAT	0.433													28	134					0	0	0.007291	0	0		A	168099931	A	A	168099931	3	1	107	1	0	0	0	0	1	0	0	0	17456	971	34	2	2059	2	XIRP2	2	168099931	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1648259	168099931	75099442	98	64445											
B3GALT1	8708	broad.mit.edu	37	chr2	168725733	168725733	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgacctatcaacccacatTcttttgaatttcttatcaac	11	15	2	13	1	4	1	2	1	2	0	5	2	4	1	2	0	2	0	2	0	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:168725733T>G	uc002udz.1	+	2	535	c.184T>G	c.(184-186)TCT>GCT	p.S62A		NM_020981	NP_066191	Q9Y5Z6	B3GT1_HUMAN	UDP-Gal:betaGlcNAc beta	62	Lumenal (Potential).				lipid glycosylation|protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4						CAACCCACATTCTTTTGAATT	0.408													38	181					0	0	0.019004	0	0		G	168725733	G	G	168725733	3	3	107	1	0	0	0	0	1	0	0	0	1248	1783	62	5	186	5	B3GALT1	2	168725733	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	625802	168725733	74473640	99	64446											
KLHL23	151230	broad.mit.edu	37	chr2	170592685	170592685	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctccagcagaagaggctgaGttctatgatcctttaaaaga	13	10	10	8	0	1	5	0	2	1	3	3	5	3	5	2	1	1	4	2	1	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:170592685G>C	uc002ufh.1	+	4	1499	c.1161G>C	c.(1159-1161)GAG>GAC	p.E387D	KLHL23_uc002ufi.1_Missense_Mutation_p.E387D	NM_144711	NP_653312	Q8NBE8	KLH23_HUMAN	kelch-like 23	387	Kelch 3.										0						AAGAGGCTGAGTTCTATGATC	0.403													61	225					0	0	0.01441	0	0		C	170592685	C	C	170592685	3	2	107	1	0	0	0	0	1	0	0	0	8394	1020	36	5	1163	5	KLHL23	2	170592685	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1866952	170592685	72606688	100	64447											
MYO3B	140469	broad.mit.edu	37	chr2	171073866	171073866	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtacacgtctgcggagAaacacatctgttggcacccc	11	7	9	14	2	2	1	0	0	2	1	2	2	2	1	3	2	3	3	3	2	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:171073866A>G	uc002ufy.2	+	6	707	c.564A>G	c.(562-564)AGA>AGG	p.R188R	MYO3B_uc002ufv.2_Silent_p.R175R|MYO3B_uc010fqb.1_Silent_p.R175R|MYO3B_uc002ufz.2_Silent_p.R188R|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002uga.2_Silent_p.R175R	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	188	Protein kinase.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						GTCTGCGGAGAAACACATCTG	0.423													56	432					0	0	0.01441	0	0		G	171073866	G	G	171073866	2	3	107	1	0	0	0	0	0	0	0	1	10095	243	9	3		3	MYO3B	2	171073866	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	481181	171073866	72125507	101	64448											
DCAF17	80067	broad.mit.edu	37	chr2	172336628	172336628	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatagatgctgaaggaaaAgctcacctggatttccactg	14	9	9	9	0	1	2	1	1	0	1	2	4	2	4	2	2	2	2	2	2	5	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:172336628A>G	uc002ugx.2	+	13	1576	c.1347A>G	c.(1345-1347)AAA>AAG	p.K449K	DCAF17_uc010zdq.1_RNA|DCAF17_uc010fqf.1_Silent_p.K382K|DCAF17_uc010zdr.1_RNA|DCAF17_uc010fqg.2_Silent_p.K169K	NM_025000	NP_079276	Q5H9S7	DCA17_HUMAN	DDB1 and CUL4 associated factor 17 isoform 1	449						CUL4 RING ubiquitin ligase complex|integral to membrane|nucleolus					0						CTGAAGGAAAAGCTCACCTGG	0.383													6	192					0	0	0.021553	0	0		G	172336628	G	G	172336628	2	3	107	1	0	0	0	0	0	0	0	1	4272	69	3	3		3	DCAF17	2	172336628	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1262762	172336628	70862745	102	64449											
SLC25A12	8604	broad.mit.edu	37	chr2	172683315	172683315	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattactcatacctgtctcTgaagttctgccaggttgtaa	10	14	8	9	0	3	2	1	1	2	1	4	2	3	2	2	1	3	3	2	1	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:172683315T>C	uc002uhh.2	-	9	1012	c.923A>G	c.(922-924)CAG>CGG	p.Q308R	SLC25A12_uc010fqh.2_Missense_Mutation_p.Q201R	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12	308					gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)		L-Aspartic Acid(DB00128)	TACCTGTCTCTGAAGTTCTGC	0.398													4	117					0	0	0.009096	0	0		C	172683315	C	C	172683315	3	2	107	1	0	0	0	0	1	0	0	0	14499	1580	55	3	1153	3	SLC25A12	2	172683315	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	346687	172683315	70516058	103	64450											
HAT1	8520	broad.mit.edu	37	chr2	172822019	172822019	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaacaggaggagaaaactTtacctttcagatatataagg	16	10	8	7	0	1	2	1	0	0	2	2	4	2	3	2	3	3	0	2	3	7	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:172822019T>G	uc002uhi.2	+	5	546	c.470T>G	c.(469-471)TTT>TGT	p.F157C	HAT1_uc010fqi.2_5'UTR|HAT1_uc002uhj.2_Missense_Mutation_p.F72C	NM_003642	NP_003633	O14929	HAT1_HUMAN	histone acetyltransferase 1	157					chromatin silencing at telomere|DNA packaging	cytoplasm|nuclear matrix|nucleoplasm	histone acetyltransferase activity|protein binding			large_intestine(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.216)			GGAGAAAACTTTACCTTTCAG	0.323													3	111					0	0	0.004672	0	0		G	172822019	G	G	172822019	3	3	107	1	0	0	0	0	1	0	0	0	6980	1841	64	5	488	5	HAT1	2	172822019	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	138704	172822019	70377354	104	64451											
TTN	7273	broad.mit.edu	37	chr2	179435725	179435725	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccctcaggtaattctttcTtctcaacaatataaccagtg	11	13	6	11	0	4	0	2	0	3	0	5	0	4	0	2	2	2	1	2	2	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:179435725T>A	uc010zfg.1	-	275	67654	c.67430A>T	c.(67429-67431)AAG>ATG	p.K22477M	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K16172M|TTN_uc010zfi.1_Missense_Mutation_p.K16105M|TTN_uc010zfj.1_Missense_Mutation_p.K15980M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23404							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAATTCTTTCTTCTCAACAAT	0.418													11	494					0	0	0.016723	0	0		A	179435725	A	A	179435725	3	1	107	1	0	0	0	0	1	0	0	0	16761	1609	56	5	32993	5	TTN	2	179435725	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	6613706	179435725	63763648	105	64452											
TTN	7273	broad.mit.edu	37	chr2	179490044	179490044	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgaaatcttttgctgttAgttggacttccccagcatct	7	18	7	9	0	2	1	0	1	2	0	3	2	3	2	2	1	2	4	2	1	2	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:179490044A>C	uc010zfg.1	-	190	37024	c.36800T>G	c.(36799-36801)CTA>CGA	p.L12267R	TTN_uc010zfh.1_Missense_Mutation_p.L5962R|TTN_uc010zfi.1_Missense_Mutation_p.L5895R|TTN_uc010zfj.1_Missense_Mutation_p.L5770R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13194							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTTGCTGTTAGTTGGACTTC	0.378													51	489					0	0	0.01441	0	0		C	179490044	C	C	179490044	3	2	107	1	0	0	0	0	1	0	0	0	16761	420	15	5	63677	5	TTN	2	179490044	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	54319	179490044	63709329	106	64453											
TTN	7273	broad.mit.edu	37	chr2	179592845	179592845	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaaattctaacctttcacaGttaagatgccactgcatgca	14	11	6	10	0	2	2	1	0	1	2	2	2	2	2	2	0	4	3	2	0	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:179592845G>T	uc010zfg.1	-	64	16198	c.15974C>A	c.(15973-15975)ACT>AAT	p.T5325N	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T1986N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6252							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACCTTTCACAGTTAAGATGCC	0.368													13	51					1.52009e-12	1.60441e-12	0.024245	1	0		T	179592845	T	T	179592845	3	4	107	1	0	0	0	0	1	0	0	0	16761	1029	36	5	85007	5	TTN	2	179592845	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	102801	179592845	63606528	107	64454											
TTN	7273	broad.mit.edu	37	chr2	179598199	179598199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtgtggcgggatctcctGctgtcacctggatcagttct	5	12	12	12	1	4	0	2	0	2	0	5	2	4	2	3	3	1	2	3	3	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:179598199G>A	uc010zfg.1	-	51	12313	c.12089C>T	c.(12088-12090)GCA>GTA	p.A4030V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A691V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4957							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGGATCTCCTGCTGTCACCTG	0.473													24	238					0	0	0.007291	0	0		A	179598199	A	A	179598199	3	1	107	1	0	0	0	0	1	0	0	0	16761	1319	46	2	88944	2	TTN	2	179598199	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	5354	179598199	63601174	108	64455											
TTN	7273	broad.mit.edu	37	chr2	179600525	179600525	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtggcttatcaatgatgAtcaactctgcttggcagatg	11	13	10	7	0	3	3	2	2	1	1	3	3	3	3	0	2	2	3	0	2	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:179600525A>G	uc010zfg.1	-	47	11140	c.10916T>C	c.(10915-10917)ATC>ACC	p.I3639T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.I300T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4566							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATCAATGATGATCAACTCTGC	0.398													4	125					0	0	0.014758	0	0		G	179600525	G	G	179600525	3	3	107	1	0	0	0	0	1	0	0	0	16761	333	12	3	90133	3	TTN	2	179600525	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2326	179600525	63598848	109	64456											
TTN	7273	broad.mit.edu	37	chr2	179642153	179642153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatctcattttaccttccaCagttaaaatcactgaaattg	13	16	3	9	0	2	1	2	1	1	0	4	1	3	1	2	0	1	1	2	0	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:179642153C>T	uc010zfg.1	-	26	4863	c.4639G>A	c.(4639-4641)GTG>ATG	p.V1547M	TTN_uc010zfh.1_Missense_Mutation_p.V1501M|TTN_uc010zfi.1_Missense_Mutation_p.V1501M|TTN_uc010zfj.1_Missense_Mutation_p.V1501M|TTN_uc002unb.2_Missense_Mutation_p.V1547M|uc002unc.1_RNA	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1547							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTACCTTCCACAGTTAAAATC	0.378													7	77					0	0	0.001984	0	0		T	179642153	T	T	179642153	3	4	107	1	0	0	0	0	1	0	0	0	16761	478	17	4	106697	4	TTN	2	179642153	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	41628	179642153	63557220	110	64457											
ANKAR	150709	broad.mit.edu	37	chr2	190541514	190541514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctcttagactatagagagGtccatcaaatgataagagag	15	9	9	8	0	2	4	1	1	1	3	3	6	3	4	2	1	0	0	2	1	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:190541514G>A	uc002uqw.1	+	1	85	c.85G>A	c.(85-87)GTC>ATC	p.V29I	ANKAR_uc002uqu.2_Intron|ANKAR_uc002uqv.1_Missense_Mutation_p.V100I	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	100						integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			CTATAGAGAGGTCCATCAAAT	0.413													9	312					0	0	0.004482	0	0		A	190541514	A	A	190541514	3	1	107	1	0	0	0	0	1	0	0	0	623	1261	44	4	300	4	ANKAR	2	190541514	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	10899361	190541514	52657859	111	64458											
DNAH7	56171	broad.mit.edu	37	chr2	196682507	196682507	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccacaattcccagaagcTgatcttgcattccctcaggg	10	9	7	15	0	2	2	1	1	1	1	4	2	4	2	4	1	2	2	4	1	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:196682507T>G	uc002utj.3	-	50	9439	c.9338A>C	c.(9337-9339)CAG>CCG	p.Q3113P		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3113	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TCCCAGAAGCTGATCTTGCAT	0.333													11	110					0	0	0.010729	0	0		G	196682507	G	G	196682507	3	3	107	1	0	0	0	0	1	0	0	0	4612	1580	55	5	2800	5	DNAH7	2	196682507	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	6140993	196682507	46516866	112	64459											
DNAH7	56171	broad.mit.edu	37	chr2	196729698	196729698	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaatgtagttgatgagccaGcttctgtctgtattgtccag	8	15	11	7	0	2	3	0	3	2	0	3	3	3	3	2	0	2	4	2	0	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:196729698G>T	uc002utj.3	-	41	6782	c.6681C>A	c.(6679-6681)AGC>AGA	p.S2227R		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2227					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TGATGAGCCAGCTTCTGTCTG	0.348													39	199					9.39024e-22	1.00163e-21	0.009718	1	0		T	196729698	T	T	196729698	3	4	107	1	0	0	0	0	1	0	0	0	4612	962	34	5	5493	5	DNAH7	2	196729698	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	47191	196729698	46469675	113	64460											
HECW2	57520	broad.mit.edu	37	chr2	197183343	197183343	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggcctccccagcactgccTtcttcttgcggtgggctctc	2	12	11	16	1	3	0	0	0	3	0	5	0	4	0	4	3	3	2	4	3	0	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:197183343T>G	uc002utm.1	-	9	2454	c.2271A>C	c.(2269-2271)GAA>GAC	p.E757D	HECW2_uc002utl.1_Missense_Mutation_p.E401D	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	757	Interaction with TP73.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						CAGCACTGCCTTCTTCTTGCG	0.662													22	92					0	0	0.016522	0	0		G	197183343	G	G	197183343	3	3	107	1	0	0	0	0	1	0	0	0	7059	1606	56	5	2531	5	HECW2	2	197183343	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	453645	197183343	46016030	114	64461											
SGOL2	151246	broad.mit.edu	37	chr2	201434462	201434462	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacaatattaaatcaaagAcattacctgatattccctct	17	12	2	10	0	2	2	1	1	1	1	3	2	3	2	2	0	2	0	2	0	8	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:201434462A>C	uc002uvw.2	+	6	663	c.550A>C	c.(550-552)ACA>CCA	p.T184P	SGOL2_uc002uvv.3_Missense_Mutation_p.T184P|SGOL2_uc010zhd.1_Missense_Mutation_p.T184P|SGOL2_uc010zhe.1_Missense_Mutation_p.T184P	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	184					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						TAAATCAAAGACATTACCTGA	0.323													25	162					0	0	0.016522	0	0		C	201434462	C	C	201434462	3	2	107	1	0	0	0	0	1	0	0	0	14242	275	10	5	568	5	SGOL2	2	201434462	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4251119	201434462	41764911	115	64462											
SGOL2	151246	broad.mit.edu	37	chr2	201437583	201437583	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgtacatgacctagaaaaAgataacttcttctctctaac	14	12	6	9	0	3	3	0	1	3	2	4	3	3	3	1	1	3	1	1	1	6	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:201437583A>C	uc002uvw.2	+	7	2627	c.2514A>C	c.(2512-2514)AAA>AAC	p.K838N	SGOL2_uc010zhd.1_Missense_Mutation_p.K838N|SGOL2_uc010zhe.1_Missense_Mutation_p.K838N	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	838					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						ACCTAGAAAAAGATAACTTCT	0.313													30	245					0	0	0.008361	0	0		C	201437583	C	C	201437583	3	2	107	1	0	0	0	0	1	0	0	0	14242	69	3	5	2536	5	SGOL2	2	201437583	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3121	201437583	41761790	116	64463											
ALS2	57679	broad.mit.edu	37	chr2	202590090	202590090	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatgttacctgtagactccTtgaccgcacatttttccttc	8	15	5	13	1	0	2	0	1	0	1	3	2	2	2	4	0	1	3	4	0	3	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:202590090T>G	uc002uyo.2	-	20	3692	c.3336A>C	c.(3334-3336)CAA>CAC	p.Q1112H	ALS2_uc002uyp.3_Missense_Mutation_p.Q1112H|ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	1112	MORN 3.				cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						TGTAGACTCCTTGACCGCACA	0.388													13	643					0	0	0.020292	0	0		G	202590090	G	G	202590090	3	3	107	1	0	0	0	0	1	0	0	0	550	1606	56	5	1697	5	ALS2	2	202590090	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1152507	202590090	40609283	117	64464											
MAP2	4133	broad.mit.edu	37	chr2	210558070	210558070	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggcaatgaccttacccaaAgatgctcacattccagttgt	12	10	8	11	0	1	2	1	1	0	1	2	3	2	2	3	1	2	3	3	1	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:210558070A>G	uc002vde.1	+	7	1424	c.1176A>G	c.(1174-1176)AAA>AAG	p.K392K	MAP2_uc002vdc.1_Silent_p.K392K|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.K388K	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	392					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CCTTACCCAAAGATGCTCACA	0.433													3	141					0	0	0.009096	0	0		G	210558070	G	G	210558070	2	3	107	1	0	0	0	0	0	0	0	1	9253	69	3	3		3	MAP2	2	210558070	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	7967980	210558070	32641303	118	64465											
MAP2	4133	broad.mit.edu	37	chr2	210574811	210574811	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaacccccaagtctgccAtcttggtgccgagtgagaag	10	7	12	12	1	2	1	0	1	2	1	2	4	2	2	4	2	3	0	4	2	3	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:210574811A>G	uc002vde.1	+	12	5154	c.4906A>G	c.(4906-4908)ATC>GTC	p.I1636V	MAP2_uc002vdd.1_Missense_Mutation_p.I337V|MAP2_uc002vdf.1_Missense_Mutation_p.I280V|MAP2_uc002vdg.1_Missense_Mutation_p.I280V|MAP2_uc002vdh.1_Missense_Mutation_p.I337V|MAP2_uc002vdi.1_Missense_Mutation_p.I1632V	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1636					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CAAGTCTGCCATCTTGGTGCC	0.557													6	179					0	0	0.001984	0	0		G	210574811	G	G	210574811	3	3	107	1	0	0	0	0	1	0	0	0	9253	217	8	3	5115	3	MAP2	2	210574811	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	16741	210574811	32624562	119	64466											
C2orf67	151050	broad.mit.edu	37	chr2	211019060	211019060	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatgtagaattagatctcaTtaaaaaaacagtctggtaat	18	13	6	4	0	2	2	1	0	2	2	3	2	2	2	0	1	1	2	0	1	9	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:211019060T>G	uc002vds.2	-	2	455	c.247A>C	c.(247-249)ATG>CTG	p.M83L	C2orf67_uc002vdt.2_Missense_Mutation_p.M83L|C2orf67_uc002vdw.2_Missense_Mutation_p.M83L|C2orf67_uc002vdy.1_Missense_Mutation_p.M83L|C2orf67_uc002vdv.2_Missense_Mutation_p.M83L|C2orf67_uc002vdx.1_Missense_Mutation_p.M83L	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	83										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		TTAGATCTCATTAAAAAAACA	0.313													20	189					0	0	0.008871	0	0		G	211019060	G	G	211019060	3	3	107	1	0	0	0	0	1	0	0	0	2189	1493	52	5	2772	5	C2orf67	2	211019060	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	444249	211019060	32180313	120	64467											
CPS1	1373	broad.mit.edu	37	chr2	211540529	211540529	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagtggcatggccgtctcaAgaaggacagaatcccagcct	11	6	11	13	1	1	2	1	0	1	2	3	3	2	3	4	3	1	1	4	3	3	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:211540529A>G	uc002vee.3	+	36	4371	c.4239A>G	c.(4237-4239)CAA>CAG	p.Q1413Q	CPS1_uc010fur.2_Silent_p.Q1419Q|CPS1_uc010fus.2_Silent_p.Q962Q	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1413					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		GGCCGTCTCAAGAAGGACAGA	0.438													8	50					0	0	0.004482	0	0		G	211540529	G	G	211540529	2	3	107	1	0	0	0	0	0	0	0	1	3826	69	3	3		3	CPS1	2	211540529	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	521469	211540529	31658844	121	64468											
ERBB4	2066	broad.mit.edu	37	chr2	212566700	212566700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgtacttactacaatttTcagcttttctgttgtcccgg	8	18	6	9	1	2	0	1	0	1	0	3	0	3	0	1	1	4	3	1	1	5	9			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:212566700T>C	uc002veg.1	-	12	1579	c.1481A>G	c.(1480-1482)GAA>GGA	p.E494G	ERBB4_uc002veh.1_Missense_Mutation_p.E494G|ERBB4_uc010zji.1_Missense_Mutation_p.E494G|ERBB4_uc010zjj.1_Missense_Mutation_p.E494G|ERBB4_uc010fut.1_Missense_Mutation_p.E494G	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	494	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		ACTACAATTTTCAGCTTTTCT	0.343										TSP Lung(8;0.080)			33	242					0	0	0.012213	0	0		C	212566700	C	C	212566700	3	2	107	1	0	0	0	0	1	0	0	0	5217	1783	62	3	2513	3	ERBB4	2	212566700	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1026171	212566700	30632673	122	64469											
ABCA12	26154	broad.mit.edu	37	chr2	215840618	215840618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggcccatggcagtggtaaCaaagacgatggggaggataa	15	5	15	6	1	0	1	0	0	0	1	0	4	0	3	1	6	1	2	1	6	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:215840618C>T	uc002vew.2	-	34	5492	c.5272G>A	c.(5272-5274)GTT>ATT	p.V1758I	ABCA12_uc002vev.2_Missense_Mutation_p.V1440I|ABCA12_uc010zjn.1_Missense_Mutation_p.V685I	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1758	Helical; (Potential).				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GCAGTGGTAACAAAGACGATG	0.498													17	189					0	0	0.00499	0	0		T	215840618	T	T	215840618	3	4	107	1	0	0	0	0	1	0	0	0	30	478	17	4	2595	4	ABCA12	2	215840618	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	3273918	215840618	27358755	123	64470											
XRCC5	7520	broad.mit.edu	37	chr2	217001884	217001884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggccatagttcgatatgCttatgacaaaagagctaatc	13	11	10	7	1	0	2	0	1	0	1	2	3	0	2	1	2	2	3	1	2	6	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:217001884C>T	uc002vfy.2	+	11	1327	c.1187C>T	c.(1186-1188)GCT>GTT	p.A396V	XRCC5_uc002vfz.2_Missense_Mutation_p.A282V	NM_021141	NP_066964	P13010	XRCC5_HUMAN	ATP-dependent DNA helicase II	396	Ku.				double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|provirus integration|telomere maintenance|transcription, DNA-dependent	Ku70:Ku80 complex|nonhomologous end joining complex|nuclear telomere cap complex|nucleoplasm	ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|telomeric DNA binding|transcription regulatory region DNA binding			lung(1)|kidney(1)	2		Renal(323;0.0328)		Epithelial(149;9.78e-06)|all cancers(144;0.000632)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.0117)		GTTCGATATGCTTATGACAAA	0.398								Direct_reversal_of_damage|NHEJ					27	237					0	0	0.024334	0	0		T	217001884	T	T	217001884	3	4	107	1	0	0	0	0	1	0	0	0	17482	797	28	2	1229	2	XRCC5	2	217001884	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1161266	217001884	26197489	124	64471											
USP37	57695	broad.mit.edu	37	chr2	219341575	219341575	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacttactttttccaggtcTtcctgctgctgttcgttgcc	3	19	7	12	1	1	0	0	0	1	0	4	0	3	0	3	1	5	4	3	1	2	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:219341575T>C	uc002vie.2	-	19	2484	c.2031A>G	c.(2029-2031)GAA>GAG	p.E677E	USP37_uc010fvs.1_Silent_p.E677E|USP37_uc010zkf.1_Silent_p.E677E|USP37_uc002vif.2_Silent_p.E677E|USP37_uc002vig.2_Silent_p.E583E	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	677					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		TTTCCAGGTCTTCCTGCTGCT	0.383													21	136					0	0	0.014323	0	0		C	219341575	C	C	219341575	2	2	107	1	0	0	0	0	0	0	0	1	17094	1606	56	3		3	USP37	2	219341575	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2339691	219341575	23857798	125	64472											
ZFAND2B	130617	broad.mit.edu	37	chr2	220072471	220072471	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcacattgacagagactgTcgctctgatccagcacagca	12	7	10	12	1	1	3	0	2	1	1	3	5	2	3	1	0	3	4	1	0	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:220072471T>C	uc002vka.2	+	3	424	c.252T>C	c.(250-252)TGT>TGC	p.C84C	ZFAND2B_uc010zkt.1_Silent_p.C84C|ZFAND2B_uc010fwd.1_Silent_p.C84C|ZFAND2B_uc002vjy.1_Silent_p.C84C|ZFAND2B_uc002vjz.1_Silent_p.C84C|ZFAND2B_uc002vkb.1_5'UTR	NM_138802	NP_620157	Q8WV99	ZFN2B_HUMAN	zinc finger, AN1-type domain 2B	84						endoplasmic reticulum	protein binding|zinc ion binding				0		Renal(207;0.0915)		Epithelial(149;1.16e-06)|all cancers(144;0.000191)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACAGAGACTGTCGCTCTGATC	0.547													4	141					0	0	0.009096	0	0		C	220072471	C	C	220072471	2	2	107	1	0	0	0	0	0	0	0	1	17653	1673	58	3		3	ZFAND2B	2	220072471	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	730896	220072471	23126902	126	64473											
WDR69	164781	broad.mit.edu	37	chr2	228769686	228769686	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgtcatttaacacctcAggagacagaatcatcacggg	12	10	8	11	1	4	2	4	0	0	2	5	3	5	2	2	2	1	0	2	2	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:228769686A>C	uc002vpn.1	+	8	769	c.690A>C	c.(688-690)TCA>TCC	p.S230S	WDR69_uc010zlw.1_Silent_p.S215S|WDR69_uc002vpo.1_RNA	NM_178821	NP_849143	Q8N136	WDR69_HUMAN	WD repeat domain 69	230	WD 4.									breast(1)	1		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;1.22e-10)|all cancers(144;8.11e-08)|Lung(261;0.011)|LUSC - Lung squamous cell carcinoma(224;0.0148)		TTAACACCTCAGGAGACAGAA	0.408													27	265					0	0	0.007291	0	0		C	228769686	C	C	228769686	2	2	107	1	0	0	0	0	0	0	0	1	17345	175	7	5		5	WDR69	2	228769686	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	8697215	228769686	14429687	127	64474											
SPHKAP	80309	broad.mit.edu	37	chr2	228890176	228890176	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttaggacaacaatttcattTtcttttggttgttggacatt	9	19	7	6	0	2	0	1	0	1	0	2	2	2	2	0	3	1	2	0	3	3	9			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:228890176T>G	uc002vpq.2	-	5	422	c.375A>C	c.(373-375)GAA>GAC	p.E125D	SPHKAP_uc002vpp.2_Missense_Mutation_p.E125D|SPHKAP_uc010zlx.1_Missense_Mutation_p.E125D	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	125						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CAATTTCATTTTCTTTTGGTT	0.363													4	237					0	0	0.009096	0	0		G	228890176	G	G	228890176	3	3	107	1	0	0	0	0	1	0	0	0	15073	1838	64	5	4759	5	SPHKAP	2	228890176	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	120490	228890176	14309197	128	64475											
SLC16A14	151473	broad.mit.edu	37	chr2	230902235	230902235	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcatatttttgcgtgatgTcatagatccaccctacaaaa	14	13	5	9	1	2	2	2	1	0	1	3	2	3	2	2	0	2	0	2	0	6	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:230902235T>G	uc002vqd.1	-	5	1757	c.1394A>C	c.(1393-1395)GAC>GCC	p.D465A	FBXO36_uc010fxi.1_Intron	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	465	Cytoplasmic (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		TTGCGTGATGTCATAGATCCA	0.338													8	130					0	0	0.00308	0	0		G	230902235	G	G	230902235	3	3	107	1	0	0	0	0	1	0	0	0	14432	1667	58	5	142	5	SLC16A14	2	230902235	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2012059	230902235	12297138	129	64476											
CAB39	51719	broad.mit.edu	37	chr2	231678800	231678800	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagttacttcattcagaaAattatgtgacaaaaagacag	19	10	7	5	0	2	4	2	1	0	3	2	4	2	4	0	0	1	1	0	0	7	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:231678800A>C	uc002vqx.2	+	7	1096	c.664A>C	c.(664-666)AAT>CAT	p.N222H	CAB39_uc010fxr.2_Missense_Mutation_p.N222H|CAB39_uc010fxq.2_Missense_Mutation_p.N222H|CAB39_uc002vqy.2_5'UTR	NM_016289	NP_057373	Q9Y376	CAB39_HUMAN	calcium binding protein 39	222					cell cycle arrest|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol	kinase binding			central_nervous_system(1)	1		all_lung(227;4.63e-07)|all_hematologic(139;1.83e-06)|Lung NSC(271;2.11e-05)|Acute lymphoblastic leukemia(138;5.51e-05)|Hepatocellular(293;0.0207)|Lung SC(224;0.187)		all cancers(144;1.64e-12)|Epithelial(121;5.29e-11)|LUSC - Lung squamous cell carcinoma(224;0.0154)|Lung(119;0.0177)|COAD - Colon adenocarcinoma(134;0.226)		TCATTCAGAAAATTATGTGAC	0.204													4	160					0	0	0.009096	0	0		C	231678800	C	C	231678800	3	2	107	1	0	0	0	0	1	0	0	0	2528	14	1	5	686	5	CAB39	2	231678800	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	776565	231678800	11520573	130	64477											
COL6A3	1293	broad.mit.edu	37	chr2	238289663	238289663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgaacaccagggaggagtCgaaagcgatctcttccagct	12	7	12	10	2	1	1	0	1	1	0	4	6	2	3	2	2	3	1	2	2	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:238289663C>T	uc002vwl.2	-	5	2077	c.1792G>A	c.(1792-1794)GAC>AAC	p.D598N	COL6A3_uc002vwo.2_Missense_Mutation_p.D392N|COL6A3_uc010znj.1_Missense_Mutation_p.D191N|COL6A3_uc002vwq.2_Missense_Mutation_p.D392N|COL6A3_uc002vwr.2_Missense_Mutation_p.D191N|COL6A3_uc010znk.1_Missense_Mutation_p.D598N	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	598	VWFA 3.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AGGGAGGAGTCGAAAGCGATC	0.592													16	110					0	0	0.024245	0	0		T	238289663	T	T	238289663	3	4	107	1	0	0	0	0	1	0	0	0	3704	884	31	1	7948	1	COL6A3	2	238289663	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	6610863	238289663	4909710	131	64478											
PPP1R7	5510	broad.mit.edu	37	chr2	242105831	242105831	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttagccacaatggcatcgAggtcatcgagggcctggaga	10	7	13	11	2	1	1	1	0	0	1	3	4	1	1	3	4	1	1	3	4	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr2:242105831A>C	uc002wat.1	+	8	809	c.794A>C	c.(793-795)GAG>GCG	p.E265A	PPP1R7_uc010fzm.1_Missense_Mutation_p.E249A|PPP1R7_uc002war.2_Missense_Mutation_p.E259A|PPP1R7_uc002was.2_Missense_Mutation_p.E265A|PPP1R7_uc002wau.1_Missense_Mutation_p.E222A|PPP1R7_uc002wav.1_Missense_Mutation_p.E191A	NM_002712	NP_002703	Q15435	PP1R7_HUMAN	protein phosphatase 1, regulatory subunit 7	265	LRR 9.					cytoplasm|nucleus	protein binding|protein phosphatase type 1 regulator activity			ovary(3)	3		all_cancers(19;6.1e-33)|all_epithelial(40;1.07e-13)|Breast(86;0.000141)|Renal(207;0.00528)|all_lung(227;0.0446)|Ovarian(221;0.104)|Lung NSC(271;0.115)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.92e-32)|all cancers(36;5.35e-29)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-14)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.24e-08)|BRCA - Breast invasive adenocarcinoma(100;3.56e-06)|Lung(119;0.000588)|LUSC - Lung squamous cell carcinoma(224;0.0048)|Colorectal(34;0.0137)|COAD - Colon adenocarcinoma(134;0.096)		AATGGCATCGAGGTCATCGAG	0.617													5	45					0	0	0.001984	0	0		C	242105831	C	C	242105831	3	2	107	1	0	0	0	0	1	0	0	0	12398	304	11	5	824	5	PPP1R7	2	242105831	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3816168	242105831	1093542	132	64479											
CHL1	10752	broad.mit.edu	37	chr3	447378	447378	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaagttctacagcaacttTtccccttcgggcataaacac	11	11	7	12	1	1	0	0	0	1	0	3	1	2	1	2	2	4	3	2	2	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:447378T>A	uc003bou.2	+	27	3882	c.3611T>A	c.(3610-3612)TTT>TAT	p.F1204Y	CHL1_uc003bot.2_Missense_Mutation_p.F1220Y|CHL1_uc011asi.1_Missense_Mutation_p.F1167Y	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	1204	Cytoplasmic (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		ACAGCAACTTTTCCCCTTCGG	0.428													12	93					0	0	0.010729	0	0		A	447378	A	A	447378	3	1	107	1	0	0	0	0	1	0	0	0	3352	1841	64	5	3761	5	CHL1	3	447378	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08		447378	197575052	133	64480											
LMCD1	29995	broad.mit.edu	37	chr3	8543665	8543665	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcaacccaggagttaaaaAggtgagtggaaagctgtttg	13	9	12	7	0	1	1	1	1	0	0	1	3	1	3	2	3	2	3	2	3	5	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:8543665A>T	uc003bqq.2	+	1	155	c.41A>T	c.(40-42)AAG>ATG	p.K14M	uc003bqp.2_5'Flank|LMCD1_uc011atd.1_Translation_Start_Site|LMCD1_uc011ate.1_Translation_Start_Site	NM_014583	NP_055398	Q9NZU5	LMCD1_HUMAN	LIM and cysteine-rich domains 1	14					positive regulation of calcineurin-NFAT signaling pathway|regulation of cardiac muscle hypertrophy|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus	transcription corepressor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(96;0.124)		GGAGTTAAAAAGGTGAGTGGA	0.522													7	62					0	0	0.00308	0	0		T	8543665	T	T	8543665	3	4	107	1	0	0	0	0	1	0	0	0	8861	86	3	5	43	5	LMCD1	3	8543665	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	8096287	8543665	189478765	134	64481											
SRGAP3	9901	broad.mit.edu	37	chr3	9055164	9055164	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcatgagggtaggcccgaAgcagatggccaggttgtagg	9	7	18	7	1	0	2	0	1	0	1	0	3	0	2	2	5	2	5	2	5	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:9055164A>C	uc003brf.1	-	17	2651	c.1975T>G	c.(1975-1977)TTC>GTC	p.F659V	SRGAP3_uc003brg.1_Missense_Mutation_p.F635V	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	659	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		GTAGGCCCGAAGCAGATGGCC	0.527			T	RAF1	pilocytic astrocytoma								17	59					0	0	0.006122	0	0		C	9055164	C	C	9055164	3	2	107	1	0	0	0	0	1	0	0	0	15172	72	3	5	1348	5	SRGAP3	3	9055164	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	511499	9055164	188967266	135	64482											
SLC6A11	6538	broad.mit.edu	37	chr3	10861460	10861460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactacatcatcatcctggCatgggccattttttacctga	9	14	7	11	0	2	1	2	1	0	0	3	1	3	1	3	2	3	2	3	2	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:10861460C>T	uc003bvz.2	+	3	489	c.455C>T	c.(454-456)GCA>GTA	p.A152V	SLC6A11_uc003bvy.1_Missense_Mutation_p.A152V	NM_014229	NP_055044	P48066	S6A11_HUMAN	solute carrier family 6 (neurotransmitter	152	Extracellular (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.229)		ATCATCCTGGCATGGGCCATT	0.493													43	207					0	0	0.009718	0	0		T	10861460	T	T	10861460	3	4	107	1	0	0	0	0	1	0	0	0	14699	710	25	2	465	2	SLC6A11	3	10861460	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1806296	10861460	187160970	136	64483											
KCNH8	131096	broad.mit.edu	37	chr3	19492867	19492867	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgggctccatggaagttcTtaaagacagcatggtgctgg	9	10	13	9	1	1	1	0	0	1	1	3	2	2	2	1	4	2	4	1	4	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:19492867T>G	uc003cbk.1	+	10	1991	c.1796T>G	c.(1795-1797)CTT>CGT	p.L599R	KCNH8_uc011awe.1_3'UTR|KCNH8_uc010hex.1_Missense_Mutation_p.L60R|KCNH8_uc011awf.1_3'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	599	cNMP.|Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						ATGGAAGTTCTTAAAGACAGC	0.448													29	136					0	0	0.00632	0	0		G	19492867	G	G	19492867	3	3	107	1	0	0	0	0	1	0	0	0	8054	1609	56	5	1834	5	KCNH8	3	19492867	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	8631407	19492867	178529563	137	64484											
CMTM6	54918	broad.mit.edu	37	chr3	32525568	32525568	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtcaagtaggaacataaAacttgctataaatccaaaca	21	8	5	7	0	1	0	1	0	0	0	2	1	2	1	1	1	4	2	1	1	10	5	rs112118640		TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:32525568A>C	uc003cfa.1	-	4	602	c.436T>G	c.(436-438)TTT>GTT	p.F146V		NM_017801	NP_060271	Q9NX76	CKLF6_HUMAN	CKLF-like MARVEL transmembrane domain containing	146	MARVEL.|Helical; (Potential).				chemotaxis	extracellular space|integral to membrane	cytokine activity				0						AGGAACATAAAACTTGCTATA	0.378													18	202					0	0	0.006122	0	0		C	32525568	C	C	32525568	3	2	107	1	0	0	0	0	1	0	0	0	3590	14	1	5	119	5	CMTM6	3	32525568	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	13032701	32525568	165496862	138	64485											
GOLGA4	2803	broad.mit.edu	37	chr3	37368800	37368800	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagaaaaaaacaagaaatAttccttgatagtagcccagc	19	8	7	7	0	0	4	0	2	0	2	1	4	1	4	2	0	3	1	2	0	9	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:37368800A>G	uc003cgv.2	+	14	5727	c.5423A>G	c.(5422-5424)TAT>TGT	p.Y1808C	GOLGA4_uc010hgr.1_Missense_Mutation_p.Y1369C|GOLGA4_uc003cgw.2_Missense_Mutation_p.Y1830C|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.Y1689C	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1808	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						AACAAGAAATATTCCTTGATA	0.383													8	107					0	0	0.00308	0	0		G	37368800	G	G	37368800	3	3	107	1	0	0	0	0	1	0	0	0	6570	449	16	3	5547	3	GOLGA4	3	37368800	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4843232	37368800	160653630	139	64486											
ITGA9	3680	broad.mit.edu	37	chr3	37574896	37574896	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacgacggacagcagcctGtgaactgcctgaacgtcacc	10	6	11	14	3	2	2	2	2	0	0	2	4	2	3	3	1	5	1	3	1	2	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:37574896G>T	uc003chd.2	+	14	1518	c.1465G>T	c.(1465-1467)GTG>TTG	p.V489L	ITGA9_uc003chc.2_Missense_Mutation_p.V489L	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	489	Extracellular (Potential).				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		ACAGCAGCCTGTGAACTGCCT	0.567													11	24					0.00010058	0.000103069	0.013537	1	0		T	37574896	T	T	37574896	3	4	107	1	0	0	0	0	1	0	0	0	7899	1377	48	5	1519	5	ITGA9	3	37574896	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	206096	37574896	160447534	140	64487											
SCN11A	11280	broad.mit.edu	37	chr3	38950547	38950547	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttttccttggcctctaTctctgcagctacattcttgt	5	18	5	13	0	4	0	0	0	4	0	6	0	5	0	2	1	3	2	2	1	2	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:38950547T>A	uc011ays.1	-	9	1439	c.1240A>T	c.(1240-1242)ATA>TTA	p.I414L		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	414					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	TTGGCCTCTATCTCTGCAGCT	0.493													9	245					0	0	0.006214	0	0		A	38950547	A	A	38950547	3	1	107	1	0	0	0	0	1	0	0	0	13938	1435	50	5	4207	5	SCN11A	3	38950547	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1375651	38950547	159071883	141	64488											
SLC25A38	54977	broad.mit.edu	37	chr3	39433052	39433052	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcatgctgggggtgggcTctcgctctgttgcaggggtc	3	11	17	10	1	3	0	1	0	2	0	5	0	3	0	0	5	2	5	0	5	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:39433052T>C	uc003cjo.2	+	4	798	c.397T>C	c.(397-399)TCT>CCT	p.S133P		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	133	Solcar 2.|Helical; Name=3; (Potential).				erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		GGGGGTGGGCTCTCGCTCTGT	0.527													5	223					0	0	0.021553	0	0		C	39433052	C	C	39433052	3	2	107	1	0	0	0	0	1	0	0	0	14527	1551	54	3	411	3	SLC25A38	3	39433052	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	482505	39433052	158589378	142	64489											
ZNF621	285268	broad.mit.edu	37	chr3	40573631	40573631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctcaggaacgtttctcagCactttgattttaaaaggaag	12	14	8	7	1	2	1	2	1	2	0	4	3	2	3	0	2	2	2	0	2	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:40573631C>T	uc003ckm.2	+	5	586	c.370C>T	c.(370-372)CAC>TAC	p.H124Y	ZNF621_uc003ckn.2_Missense_Mutation_p.H124Y|ZNF621_uc003cko.2_Missense_Mutation_p.H89Y|ZNF621_uc011aze.1_Missense_Mutation_p.H116Y	NM_001098414	NP_001091884	Q6ZSS3	ZN621_HUMAN	zinc finger protein 621	124					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0515)|Kidney(284;0.0648)		CGTTTCTCAGCACTTTGATTT	0.403													4	147					0	0	0.009096	0	0		T	40573631	T	T	40573631	3	4	107	1	0	0	0	0	1	0	0	0	18070	710	25	2	384	2	ZNF621	3	40573631	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1140579	40573631	157448799	143	64490											
NME6	10201	broad.mit.edu	37	chr3	48336623	48336623	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactcccacggatagaatcTggggccacatggcgtgctcg	10	7	12	12	3	1	1	0	0	1	1	3	2	2	2	2	4	2	1	2	4	3	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:48336623T>C	uc003csp.3	-	5	387	c.336A>G	c.(334-336)CCA>CCG	p.P112P	NME6_uc003cso.2_Silent_p.P120P|NME6_uc011bbh.1_Missense_Mutation_p.Q99R|NME6_uc010hju.2_Silent_p.P14P|NME6_uc011bbi.1_Intron	NM_005793	NP_005784	O75414	NDK6_HUMAN	nucleoside diphosphate kinase type 6	112					anti-apoptosis|apoptosis|CTP biosynthetic process|GTP biosynthetic process|negative regulation of cell growth|negative regulation of mitosis|UTP biosynthetic process	mitochondrion	ATP binding|metal ion binding|nucleoside diphosphate kinase activity				0				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00609)		GGATAGAATCTGGGGCCACAT	0.587													13	63					0	0	0.016723	0	0		C	48336623	C	C	48336623	2	2	107	1	0	0	0	0	0	0	0	1	10514	1567	55	3		3	NME6	3	48336623	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	7762992	48336623	149685807	144	64491											
PBRM1	55193	broad.mit.edu	37	chr3	52620667	52620667	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcacagacaaaaacatccTcatctcggaagttttctggg	13	11	7	10	1	4	1	2	0	2	1	6	2	5	2	1	2	1	1	1	2	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:52620667T>A	uc003des.2	-	20	3173	c.3161A>T	c.(3160-3162)GAG>GTG	p.E1054V	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.E1054V|PBRM1_uc003der.2_Missense_Mutation_p.E1022V|PBRM1_uc003det.2_Missense_Mutation_p.E1069V|PBRM1_uc003deu.2_Missense_Mutation_p.E1069V|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.E1054V|PBRM1_uc010hmk.1_Missense_Mutation_p.E1029V|PBRM1_uc003dey.2_Missense_Mutation_p.E1029V|PBRM1_uc003dez.1_Missense_Mutation_p.E1053V|PBRM1_uc003dfb.1_Missense_Mutation_p.E966V|PBRM1_uc003dfa.1_Missense_Mutation_p.E400V	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	1054	BAH 1.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		AAAAACATCCTCATCTCGGAA	0.398			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								16	90					0	0	0.024245	0	0		A	52620667	A	A	52620667	3	1	107	1	0	0	0	0	1	0	0	0	11510	1551	54	5	1783	5	PBRM1	3	52620667	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	4284044	52620667	145401763	145	64492											
IL17RD	54756	broad.mit.edu	37	chr3	57131970	57131970	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcacatgacatcatttaaAaccaagcccgaatcaaattt	16	11	4	10	1	2	1	2	1	0	0	2	2	2	1	2	0	3	1	2	0	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:57131970A>C	uc003dil.2	-	12	1850	c.1761T>G	c.(1759-1761)GTT>GTG	p.V587V	IL17RD_uc003dik.2_Silent_p.V563V|IL17RD_uc010hna.2_Silent_p.V443V|IL17RD_uc011bex.1_Silent_p.V443V	NM_017563	NP_060033	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D precursor	587	Cytoplasmic (Potential).					Golgi membrane|integral to membrane|plasma membrane	receptor activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)		CATCATTTAAAACCAAGCCCG	0.557													8	37					0	0	0.004482	0	0		C	57131970	C	C	57131970	2	2	107	1	0	0	0	0	0	0	0	1	7658	1	1	5		5	IL17RD	3	57131970	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4511303	57131970	140890460	146	64493											
EPHA3	2042	broad.mit.edu	37	chr3	89498524	89498524	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagatgtccaatcaggaTgtaagtatttgtggtctatg	10	14	13	4	0	2	1	1	0	1	1	3	3	3	2	1	3	0	2	1	3	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:89498524T>C	uc003dqy.2	+	14	2721	c.2496T>C	c.(2494-2496)GAT>GAC	p.D832D	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	832	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		CCAATCAGGATGTAAGTATTT	0.438										TSP Lung(6;0.00050)			29	145					0	0	0.010818	0	0		C	89498524	C	C	89498524	2	2	107	1	0	0	0	0	0	0	0	1	5176	1478	51	3		3	EPHA3	3	89498524	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	32366554	89498524	108523906	147	64494											
PROS1	5627	broad.mit.edu	37	chr3	93596037	93596037	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacagataacagaatatccTgaagagcagagcaaagattc	19	6	8	8	0	0	6	0	1	0	5	2	6	1	6	1	0	4	2	1	0	6	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:93596037T>A	uc003drb.3	-	14	1986	c.1645_splice	c.e14-1	p.D549_splice	PROS1_uc010hoo.2_Splice_Site_p.D418_splice|PROS1_uc003dqz.3_Splice_Site_p.D418_splice	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein						leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	CAGAATATCCTGAAGAGCAGA	0.338													5	69					0	0	0.014758	0	0		A	93596037	A	A	93596037	5	1	107	1	0	0	0	0	0	0	1	0	12580	1594	55	5	395	5	PROS1	3	93596037	Splice_Site	SNP	T	TCGA-CD-5801-01A-11D-1600-08	4097513	93596037	104426393	148	64495											
OR5H1	26341	broad.mit.edu	37	chr3	97852429	97852429	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacagtctgagaaataagcaAgtcacagtttcattcacaaa	17	10	6	8	0	4	1	3	1	1	1	4	2	4	1	0	0	2	2	0	0	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:97852429A>T	uc011bgt.1	+	1	888	c.888A>T	c.(886-888)CAA>CAT	p.Q296H		NM_001005338	NP_001005338	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H,	296	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						GAAATAAGCAAGTCACAGTTT	0.323													21	174					0	0	0.008871	0	0		T	97852429	T	T	97852429	3	4	107	1	0	0	0	0	1	0	0	0	11178	69	3	5	890	5	OR5H1	3	97852429	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4256392	97852429	100170001	149	64496											
ZBTB11	27107	broad.mit.edu	37	chr3	101371354	101371354	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttaccttcatggttgttcAtgtgtctcctatactctctt	6	19	6	10	0	4	0	2	0	2	0	6	0	4	0	2	1	2	3	2	1	3	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:101371354A>C	uc003dve.3	-	10	2860	c.2630T>G	c.(2629-2631)ATG>AGG	p.M877R		NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	877	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						ATGGTTGTTCATGTGTCTCCT	0.398													28	209					0	0	0.009535	0	0		C	101371354	C	C	101371354	3	2	107	1	0	0	0	0	1	0	0	0	17549	217	8	5	539	5	ZBTB11	3	101371354	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3518925	101371354	96651076	150	64497											
ALCAM	214	broad.mit.edu	37	chr3	105243281	105243281	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgcaaggatcagtgatgAaaagagatttgtgtgcatgc	14	11	12	4	0	1	3	1	2	0	1	1	5	1	4	0	1	3	2	0	1	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:105243281A>C	uc003dvx.2	+	3	863	c.323A>C	c.(322-324)GAA>GCA	p.E108A	ALCAM_uc003dvv.2_Missense_Mutation_p.E108A|ALCAM_uc003dvw.1_Missense_Mutation_p.E108A|ALCAM_uc003dvy.2_Missense_Mutation_p.E108A|ALCAM_uc011bhh.1_Missense_Mutation_p.E57A	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	108	Extracellular (Potential).|Ig-like V-type 1.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						ATCAGTGATGAAAAGAGATTT	0.413													35	205					0	0	0.019004	0	0		C	105243281	C	C	105243281	3	2	107	1	0	0	0	0	1	0	0	0	487	246	9	5	333	5	ALCAM	3	105243281	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3871927	105243281	92779149	151	64498											
IFT57	55081	broad.mit.edu	37	chr3	107881466	107881466	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctacagtttcttgcttcAgttttgttaagctctgttta	6	21	6	8	0	4	0	1	0	3	0	5	0	4	0	0	0	3	6	0	0	3	9			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:107881466A>G	uc003dwx.3	-	11	1396	c.1148T>C	c.(1147-1149)CTG>CCG	p.L383P		NM_018010	NP_060480	Q9NWB7	IFT57_HUMAN	estrogen-related receptor beta like 1	383	pDED.				activation of caspase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cilium|microtubule basal body	DNA binding|protein binding			ovary(1)|skin(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(3;0.0428)|Epithelial(53;0.246)			TTCTTGCTTCAGTTTTGTTAA	0.363													17	120					0	0	0.00499	0	0		G	107881466	G	G	107881466	3	3	107	1	0	0	0	0	1	0	0	0	7578	188	7	3	145	3	IFT57	3	107881466	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2638185	107881466	90140964	152	64499											
MYH15	22989	broad.mit.edu	37	chr3	108118049	108118049	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcagccgggtaacctcaAttctgctcttagcttcagaa	9	13	7	12	1	6	1	3	0	3	1	6	1	6	1	2	1	4	3	2	1	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:108118049A>T	uc003dxa.1	-	35	4919	c.4862T>A	c.(4861-4863)ATT>AAT	p.I1621N		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1621	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						GGTAACCTCAATTCTGCTCTT	0.478													22	206					0	0	0.014323	0	0		T	108118049	T	T	108118049	3	4	107	1	0	0	0	0	1	0	0	0	10052	101	4	5	1010	5	MYH15	3	108118049	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	236583	108118049	89904381	153	64500											
GRAMD1C	54762	broad.mit.edu	37	chr3	113652477	113652477	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatactgtatcatccgatcTtcaaaacagaaatgcaggct	15	10	7	9	1	3	2	2	0	1	2	4	3	4	2	1	1	3	3	1	1	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:113652477T>G	uc003eaq.3	+	12	1405	c.1329T>G	c.(1327-1329)TCT>TCG	p.S443S	GRAMD1C_uc011bil.1_RNA|GRAMD1C_uc011bim.1_RNA|GRAMD1C_uc003ear.2_Silent_p.S276S|GRAMD1C_uc003eas.2_Silent_p.S238S|GRAMD1C_uc003eat.2_Silent_p.S102S	NM_017577	NP_060047	Q8IYS0	GRM1C_HUMAN	GRAM domain containing 1C	443						integral to membrane				ovary(2)|skin(1)	3						TCATCCGATCTTCAAAACAGA	0.299													23	176					0	0	0.024334	0	0		G	113652477	G	G	113652477	2	3	107	1	0	0	0	0	0	0	0	1	6765	1596	56	5		5	GRAMD1C	3	113652477	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	5534428	113652477	84369953	154	64501											
ZDHHC23	254887	broad.mit.edu	37	chr3	113672689	113672689	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcttgtcctgctgcctgtcTtccttcatgtggcttcctgg	1	16	10	14	1	2	0	1	0	1	0	5	0	5	0	4	2	2	3	4	2	0	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:113672689T>G	uc003eau.2	+	3	603	c.304T>G	c.(304-306)TTC>GTC	p.F102V	ZDHHC23_uc003eav.2_Missense_Mutation_p.F96V	NM_173570	NP_775841	Q8IYP9	ZDH23_HUMAN	zinc finger, DHHC domain containing 23	102	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			ovary(2)	2						GCTGCCTGTCTTCCTTCATGT	0.512													52	353					0	0	0.01441	0	0		G	113672689	G	G	113672689	3	3	107	1	0	0	0	0	1	0	0	0	17639	1609	56	5	310	5	ZDHHC23	3	113672689	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	20212	113672689	84349741	155	64502											
ZDHHC23	254887	broad.mit.edu	37	chr3	113675244	113675244	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatacttgcccttttgatcTtcttgctcacctcggtgtat	5	19	6	11	1	3	1	1	1	2	0	4	1	3	1	2	1	3	2	2	1	3	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:113675244T>G	uc003eau.2	+	4	1230	c.931T>G	c.(931-933)TTC>GTC	p.F311V	ZDHHC23_uc003eav.2_Missense_Mutation_p.F305V|ZDHHC23_uc003eaw.1_5'Flank	NM_173570	NP_775841	Q8IYP9	ZDH23_HUMAN	zinc finger, DHHC domain containing 23	311	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			ovary(2)	2						CCTTTTGATCTTCTTGCTCAC	0.388													5	370					0	0	0.021553	0	0		G	113675244	G	G	113675244	3	3	107	1	0	0	0	0	1	0	0	0	17639	1609	56	5	941	5	ZDHHC23	3	113675244	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2555	113675244	84347186	156	64503											
ADPRH	141	broad.mit.edu	37	chr3	119306346	119306346	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatgggaaaattacctaaAacttagagggattttggatg	16	11	10	4	0	0	1	0	0	0	1	0	4	0	4	1	3	2	0	1	3	7	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:119306346A>G	uc003ecs.2	+	5	993	c.695A>G	c.(694-696)AAA>AGA	p.K232R	ADPRH_uc010hqv.2_Missense_Mutation_p.K232R|ADPRH_uc011bjb.1_Missense_Mutation_p.K125R|ADPRH_uc003ect.2_Missense_Mutation_p.K232R	NM_001125	NP_001116	P54922	ADPRH_HUMAN	ADP-ribosylarginine hydrolase	232					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding			ovary(1)	1		Lung NSC(201;0.0977)		GBM - Glioblastoma multiforme(114;0.23)		AATTACCTAAAACTTAGAGGG	0.408													3	145					0	0	0.004672	0	0		G	119306346	G	G	119306346	3	3	107	1	0	0	0	0	1	0	0	0	331	14	1	3	705	3	ADPRH	3	119306346	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	5631102	119306346	78716084	157	64504											
PLA1A	51365	broad.mit.edu	37	chr3	119325745	119325745	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcctagctgtgggcagctAgtagaaggaagcagtgacct	12	8	13	8	0	0	2	0	1	0	1	1	3	1	3	2	2	3	5	2	2	6	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:119325745A>G	uc003ecu.2	+	2	237	c.198A>G	c.(196-198)CTA>CTG	p.L66L	PLA1A_uc003ecv.2_Silent_p.L66L|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_Intron	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	66					lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						GTGGGCAGCTAGTAGAAGGAA	0.483													4	373					0	0	0.009096	0	0		G	119325745	G	G	119325745	2	3	107	1	0	0	0	0	0	0	0	1	12007	407	15	3		3	PLA1A	3	119325745	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	19399	119325745	78696685	158	64505											
PARP9	83666	broad.mit.edu	37	chr3	122264287	122264287	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttactcaccactgtaaTtgttcaaactcagcatcttg	10	16	4	11	0	5	0	3	0	2	0	5	0	5	0	1	0	3	3	1	0	3	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:122264287T>G	uc010hri.2	-	7	1626	c.1481A>C	c.(1480-1482)AAT>ACT	p.N494T	PARP9_uc003eff.3_Missense_Mutation_p.N459T|PARP9_uc011bjs.1_Missense_Mutation_p.N459T|PARP9_uc003efg.2_Missense_Mutation_p.N39T|PARP9_uc003efi.2_Missense_Mutation_p.N459T|PARP9_uc003efh.2_Missense_Mutation_p.N494T|PARP9_uc003efj.2_Missense_Mutation_p.N459T	NM_001146102	NP_001139574	Q8IXQ6	PARP9_HUMAN	poly (ADP-ribose) polymerase family, member 9	494					cell migration	cytosol|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)|pancreas(1)|prostate(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0519)		ACCACTGTAATTGTTCAAACT	0.443													22	132					0	0	0.014323	0	0		G	122264287	G	G	122264287	3	3	107	1	0	0	0	0	1	0	0	0	11485	1493	52	5	1156	5	PARP9	3	122264287	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2938542	122264287	75758143	159	64506											
DIRC2	84925	broad.mit.edu	37	chr3	122591434	122591434	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttattttttctcacattTtatcatacaggtaagaaatt	12	20	3	6	0	2	1	2	0	1	1	3	1	2	1	0	1	1	1	0	1	5	10			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:122591434T>G	uc003efw.3	+	8	1450	c.1311T>G	c.(1309-1311)TTT>TTG	p.F437L	DIRC2_uc010hrl.2_RNA|DIRC2_uc010hrm.2_Missense_Mutation_p.F275L	NM_032839	NP_116228	Q96SL1	DIRC2_HUMAN	disrupted in renal carcinoma 2	437					transport	integral to membrane					0				GBM - Glioblastoma multiforme(114;0.0614)		TTCTCACATTTTATCATACAG	0.299													14	124					0	0	0.016723	0	0		G	122591434	G	G	122591434	3	3	107	1	0	0	0	0	1	0	0	0	4540	1838	64	5	1341	5	DIRC2	3	122591434	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	327147	122591434	75430996	160	64507											
PODXL2	50512	broad.mit.edu	37	chr3	127379476	127379476	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagaagaagccaagcctcAggtccgtgacttttctctca	11	9	8	13	1	3	3	2	1	1	2	5	3	4	3	4	1	2	0	4	1	4	2	rs115568415	byFrequency	TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:127379476A>C	uc003ejq.2	+	3	629	c.605A>C	c.(604-606)CAG>CCG	p.Q202P		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	202	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						GCCAAGCCTCAGGTCCGTGAC	0.418													4	137					0	0	0.009096	0	0		C	127379476	C	C	127379476	3	2	107	1	0	0	0	0	1	0	0	0	12200	188	7	5	615	5	PODXL2	3	127379476	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4788042	127379476	70642954	161	64508											
IFT122	55764	broad.mit.edu	37	chr3	129182431	129182431	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctcctgaacagaagtctgtCtccaaacacaaatcaagcag	15	8	6	12	0	4	2	1	1	3	1	6	2	4	2	2	0	3	1	2	0	5	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:129182431C>G	uc003emm.2	+	6	584	c.378C>G	c.(376-378)GTC>GTG	p.V126V	IFT122_uc003eml.2_Silent_p.V177V|IFT122_uc003emn.2_Silent_p.V126V|IFT122_uc003emo.2_Silent_p.V74V|IFT122_uc003emp.2_5'UTR|IFT122_uc010htc.2_Silent_p.V177V|IFT122_uc011bky.1_5'UTR|IFT122_uc003emq.2_Silent_p.V74V|IFT122_uc003emr.2_5'UTR|IFT122_uc011bla.1_5'UTR|IFT122_uc011bkx.1_Silent_p.V74V|IFT122_uc011bkz.1_RNA	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	126	WD 3.				camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						AGAAGTCTGTCTCCAAACACA	0.338													4	139					0	0	0.009096	0	0		G	129182431	G	G	129182431	2	3	107	1	0	0	0	0	0	0	0	1	7571	900	32	5		5	IFT122	3	129182431	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1802955	129182431	68839999	162	64509											
STAG1	10274	broad.mit.edu	37	chr3	136162135	136162135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaaaatactataccttcctCtccttgaacaggttcttcta	11	15	3	12	0	4	1	1	1	3	0	6	1	5	1	3	1	3	1	3	1	7	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:136162135C>T	uc003era.1	-	15	1832	c.1540G>A	c.(1540-1542)GAG>AAG	p.E514K	STAG1_uc003erb.1_Missense_Mutation_p.E514K|STAG1_uc003erc.1_Missense_Mutation_p.E288K|STAG1_uc010hua.1_Missense_Mutation_p.E377K	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	514					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						ATACCTTCCTCTCCTTGAACA	0.358													7	160					0	0	0.00308	0	0		T	136162135	T	T	136162135	3	4	107	1	0	0	0	0	1	0	0	0	15267	922	32	4	2316	4	STAG1	3	136162135	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	6979704	136162135	61860295	163	64510											
DZIP1L	199221	broad.mit.edu	37	chr3	137786411	137786411	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgggcattctcctccgagGtctctgtgtcagaccagtcc	5	11	11	14	1	3	1	1	0	2	1	7	2	5	1	4	2	0	2	4	2	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:137786411G>A	uc003erq.2	-	14	2327	c.1964C>T	c.(1963-1965)ACC>ATC	p.T655I		NM_173543	NP_775814	Q8IYY4	DZI1L_HUMAN	DAZ interacting protein 1-like	655						intracellular	zinc ion binding			ovary(1)|pancreas(1)	2						CTCCTCCGAGGTCTCTGTGTC	0.637													17	107					0	0	0.00499	0	0		A	137786411	A	A	137786411	3	1	107	1	0	0	0	0	1	0	0	0	4870	1261	44	4	351	4	DZIP1L	3	137786411	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1624276	137786411	60236019	164	64511											
CLSTN2	64084	broad.mit.edu	37	chr3	140275381	140275381	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcaacccctcgcagtccatCctggtgatggaaggtgacga	9	9	11	12	2	1	2	1	2	0	0	4	4	3	3	4	3	1	1	4	3	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:140275381C>T	uc003etn.2	+	11	1891	c.1701C>T	c.(1699-1701)ATC>ATT	p.I567I	CLSTN2_uc003etm.2_Silent_p.I567I	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	567	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						CGCAGTCCATCCTGGTGATGG	0.517										HNSCC(16;0.037)			37	326					0	0	0.00874	0	0		T	140275381	T	T	140275381	2	4	107	1	0	0	0	0	0	0	0	1	3565	845	30	4		4	CLSTN2	3	140275381	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	2488970	140275381	57747049	165	64512											
IGSF10	285313	broad.mit.edu	37	chr3	151155183	151155183	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaccattgcttgctatcAgatactgataactttgtggt	12	14	8	7	0	1	3	1	1	0	2	1	3	1	3	1	1	5	2	1	1	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:151155183A>G	uc011bod.1	-	6	7166	c.7166T>C	c.(7165-7167)CTG>CCG	p.L2389P	IGSF10_uc011bob.1_Missense_Mutation_p.L416P|IGSF10_uc011boc.1_Missense_Mutation_p.L368P	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	2389	Ig-like C2-type 10.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GCTTGCTATCAGATACTGATA	0.388													38	292					0	0	0.007835	0	0		G	151155183	G	G	151155183	3	3	107	1	0	0	0	0	1	0	0	0	7613	188	7	3	709	3	IGSF10	3	151155183	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	10879802	151155183	46867247	166	64513											
KCNAB1	7881	broad.mit.edu	37	chr3	156170727	156170727	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtcaaatttcagatgaggTaagttacctttggcctctat	11	14	9	7	0	3	2	2	1	1	1	3	2	3	2	2	3	1	2	2	3	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:156170727T>C	uc003far.2	+	3	421	c.357_splice	c.e3+2	p.E119_splice	KCNAB1_uc011bon.1_Splice_Site_p.E119_splice|KCNAB1_uc003fas.2_Splice_Site_p.E108_splice|KCNAB1_uc003fat.2_Splice_Site_p.E101_splice|KCNAB1_uc010hvt.1_Splice_Site_p.E101_splice	NM_172160	NP_751892	Q14722	KCAB1_HUMAN	potassium voltage-gated channel, shaker-related							cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			TCAGATGAGGTAAGTTACCTT	0.368													19	285					0	0	0.008871	0	0		C	156170727	C	C	156170727	5	2	107	1	0	0	0	0	0	0	1	0	8025	1652	57	3	840	3	KCNAB1	3	156170727	Splice_Site	SNP	T	TCGA-CD-5801-01A-11D-1600-08	5015544	156170727	41851703	167	64514											
SHOX2	6474	broad.mit.edu	37	chr3	157818055	157818055	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagcatacctttatggagttGattttcttgttttctacatt	9	20	6	6	0	2	1	0	1	2	0	2	2	2	2	1	1	3	3	1	1	4	11			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:157818055G>C	uc003fbr.2	-	3	740	c.601C>G	c.(601-603)CAA>GAA	p.Q201E	SHOX2_uc003fbs.2_Missense_Mutation_p.Q225E|SHOX2_uc010hvw.2_Missense_Mutation_p.Q201E	NM_006884	NP_006875	O60902	SHOX2_HUMAN	short stature homeobox 2 isoform a	201					nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			Lung(72;0.00318)|LUSC - Lung squamous cell carcinoma(72;0.0043)			TTATGGAGTTGATTTTCTTGT	0.308													26	148					0	0	0.012213	0	0		C	157818055	C	C	157818055	3	2	107	1	0	0	0	0	1	0	0	0	14314	1299	45	5	406	5	SHOX2	3	157818055	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1647328	157818055	40204375	168	64515											
PIK3CA	5290	broad.mit.edu	37	chr3	178921553	178921553	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtgcaacctacgtgaaTgtaaatattcgagacattga	13	13	8	7	2	0	3	0	2	0	1	1	4	0	3	1	0	3	2	1	0	6	6	rs121913284		TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:178921553T>A	uc003fjk.2	+	5	1192	c.1035T>A	c.(1033-1035)AAT>AAA	p.N345K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	345					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.N345K(29)|p.N345I(2)|p.N345S(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			CCTACGTGAATGTAAATATTC	0.308		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			32	188					0	0	0.010818	0	0		A	178921553	A	A	178921553	3	1	107	1	0	0	0	0	1	0	0	0	11932	1461	51	5	1049	5	PIK3CA	3	178921553	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	21103498	178921553	19100877	169	64516											
USP13	8975	broad.mit.edu	37	chr3	179426569	179426569	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggctttccagtggttggaAgtgtgccagatgcgacctgc	7	11	14	9	1	0	1	0	0	0	1	1	3	1	2	3	3	3	2	3	3	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:179426569A>T	uc003fkh.2	+	6	710	c.629A>T	c.(628-630)AAG>ATG	p.K210M	USP13_uc003fkf.2_Missense_Mutation_p.K210M	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	210	UBP-type.				ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			AGTGGTTGGAAGTGTGCCAGA	0.493													12	174					0	0	0.010729	0	0		T	179426569	T	T	179426569	3	4	107	1	0	0	0	0	1	0	0	0	17070	72	3	5	651	5	USP13	3	179426569	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	505016	179426569	18595861	170	64517											
EIF2B5	8893	broad.mit.edu	37	chr3	183861999	183861999	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagcatgaagctcttggtaTttccatggccaaggtgaata	12	11	11	7	0	1	3	0	2	1	1	2	3	2	3	2	3	2	3	2	3	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:183861999T>C	uc003fmp.2	+	14	2346	c.1982T>C	c.(1981-1983)ATT>ACT	p.I661T	EIF2B5_uc003fmq.2_Missense_Mutation_p.I382T|EIF2B5_uc003fmr.2_Missense_Mutation_p.I69T	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	661	W2.				astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			GCTCTTGGTATTTCCATGGCC	0.478													38	281					0	0	0.009718	0	0		C	183861999	C	C	183861999	3	2	107	1	0	0	0	0	1	0	0	0	5010	1493	52	3	2036	3	EIF2B5	3	183861999	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	4435430	183861999	14160431	171	64518											
PSMD2	5708	broad.mit.edu	37	chr3	184023845	184023845	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaatctgtcctgtagggaAgggtgaggccatcgaggcaa	10	9	15	7	1	1	2	0	2	1	0	3	4	2	3	2	4	0	2	2	4	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:184023845A>C	uc003fnn.1	+	14	1739	c.1706A>C	c.(1705-1707)AAG>ACG	p.K569T	PSMD2_uc011brj.1_Missense_Mutation_p.K410T|PSMD2_uc011brk.1_Missense_Mutation_p.K439T	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	569	PC 5.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	CCTGTAGGGAAGGGTGAGGCC	0.532											OREG0015947	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	142					0	0	0.008871	0	0		C	184023845	C	C	184023845	3	2	107	1	0	0	0	0	1	0	0	0	12720	72	3	5	1760	5	PSMD2	3	184023845	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	161846	184023845	13998585	172	64519											
VPS8	23355	broad.mit.edu	37	chr3	184700383	184700383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttccgttattggaggcaatGatggcccctcagaagctgtc	8	12	11	10	1	1	2	1	1	0	1	3	3	2	3	3	3	1	3	3	3	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:184700383G>A	uc003fpb.1	+	40	3615	c.3444G>A	c.(3442-3444)ATG>ATA	p.M1148I	VPS8_uc010hyd.1_Missense_Mutation_p.M1058I|VPS8_uc010hye.1_Missense_Mutation_p.M577I	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	1150							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TGGAGGCAATGATGGCCCCTC	0.393													22	96					0	0	0.016522	0	0		A	184700383	A	A	184700383	3	1	107	1	0	0	0	0	1	0	0	0	17244	1290	45	4	3604	4	VPS8	3	184700383	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	676538	184700383	13322047	173	64520											
MAP3K13	9175	broad.mit.edu	37	chr3	185191526	185191526	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacccctccagcgctacctCgaaaaacaaggcctctgcag	11	5	8	17	2	1	0	0	0	1	0	3	1	2	0	5	1	4	3	5	1	4	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr3:185191526C>T	uc010hyf.2	+	12	2673	c.2407C>T	c.(2407-2409)CGA>TGA	p.R803*	MAP3K13_uc011brt.1_Nonsense_Mutation_p.R596*|MAP3K13_uc011bru.1_Nonsense_Mutation_p.R659*|MAP3K13_uc003fpi.2_Nonsense_Mutation_p.R803*|MAP3K13_uc010hyg.2_Nonsense_Mutation_p.R493*	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	803					activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			AGCGCTACCTCGAAAAACAAG	0.507													21	179					0	0	0.008871	0	0		T	185191526	T	T	185191526	4	4	107	1	0	0	0	0	0	1	0	0	9265	876	31	1	2445	1	MAP3K13	3	185191526	Nonsense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	491143	185191526	12830904	174	64521											
POLN	353497	broad.mit.edu	37	chr4	2077220	2077220	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttccacttcaaacagcAgctcatcatggatctgggcc	10	10	8	13	0	5	0	3	0	2	0	6	2	6	1	2	2	3	2	2	2	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:2077220A>G	uc003ger.2	-	22	2414	c.2414T>C	c.(2413-2415)CTG>CCG	p.L805P	POLN_uc010icg.1_Missense_Mutation_p.L253P	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	805					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			TTCAAACAGCAGCTCATCATG	0.622								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					12	61					0	0	0.016723	0	0		G	2077220	G	G	2077220	3	3	107	1	0	0	0	0	1	0	0	0	12226	188	7	3	300	3	POLN	4	2077220	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08		2077220	189077056	175	64522											
JAKMIP1	152789	broad.mit.edu	37	chr4	6082037	6082037	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctgcgctgacagcttttcTttctgcagccacagggagac	7	10	11	13	1	2	2	0	1	2	1	2	3	2	2	2	1	4	3	2	1	0	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:6082037T>C	uc003giu.3	-	7	1380	c.1104A>G	c.(1102-1104)AAA>AAG	p.K368K	JAKMIP1_uc010idb.1_Silent_p.K368K|JAKMIP1_uc010idc.1_Silent_p.K203K|JAKMIP1_uc010idd.1_Silent_p.K368K|JAKMIP1_uc011bwc.1_Silent_p.K203K|JAKMIP1_uc003giv.3_Silent_p.K368K|JAKMIP1_uc010ide.2_Silent_p.K368K	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	368	Mediates interaction with TYK2 and GABBR1.|Potential.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						ACAGCTTTTCTTTCTGCAGCC	0.582													4	36					0	0	0.021553	0	0		C	6082037	C	C	6082037	2	2	107	1	0	0	0	0	0	0	0	1	7956	1606	56	3		3	JAKMIP1	4	6082037	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	4004817	6082037	185072239	176	64523											
SLC10A4	201780	broad.mit.edu	37	chr4	48490855	48490855	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatgaagatacagatattTcttataaaaaactaaaagaa	23	10	5	3	0	1	5	0	1	1	4	1	5	1	5	0	0	2	0	0	0	11	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:48490855T>C	uc003gyc.2	+	3	1432	c.1213T>C	c.(1213-1215)TCT>CCT	p.S405P	ZAR1_uc003gyd.2_5'Flank	NM_152679	NP_689892	Q96EP9	NTCP4_HUMAN	solute carrier family 10, member 4	405	Extracellular (Potential).					integral to membrane	bile acid:sodium symporter activity			central_nervous_system(1)	1						TACAGATATTTCTTATAAAAA	0.358													7	109					0	0	0.001984	0	0		C	48490855	C	C	48490855	3	2	107	1	0	0	0	0	1	0	0	0	14401	1783	62	3	1223	3	SLC10A4	4	48490855	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	42408818	48490855	142663421	177	64524											
UGT2B7	7364	broad.mit.edu	37	chr4	69964267	69964267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctgtcaggaagacccaCtacattatctgagacaatgg	13	10	8	10	0	2	2	1	1	1	2	3	4	3	3	2	2	1	0	2	2	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:69964267C>T	uc003heg.3	+	2	777	c.731C>T	c.(730-732)ACT>ATT	p.T244I	UGT2B7_uc010ihq.2_Missense_Mutation_p.T244I	NM_001074	NP_001065	P16662	UD2B7_HUMAN	UDP glucuronosyltransferase 2B7 precursor	244					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|skin(1)	2						GGAAGACCCACTACATTATCT	0.353													24	190					0	0	0.01892	0	0		T	69964267	T	T	69964267	3	4	107	1	0	0	0	0	1	0	0	0	16988	565	20	4	737	4	UGT2B7	4	69964267	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	21473412	69964267	121190009	178	64525											
UGT2B7	7364	broad.mit.edu	37	chr4	69973826	69973826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcatccaatcctaggtcatCcaaagaccagagcttttata	13	12	5	11	0	2	2	2	0	0	2	5	2	5	2	4	1	1	1	4	1	5	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:69973826C>T	uc003heg.3	+	5	1142	c.1096C>T	c.(1096-1098)CCA>TCA	p.P366S	UGT2B7_uc010ihq.2_Intron	NM_001074	NP_001065	P16662	UD2B7_HUMAN	UDP glucuronosyltransferase 2B7 precursor	366					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|skin(1)	2						CCTAGGTCATCCAAAGACCAG	0.418													26	204					0	0	0.00632	0	0		T	69973826	T	T	69973826	3	4	107	1	0	0	0	0	1	0	0	0	16988	855	30	4	1114	4	UGT2B7	4	69973826	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	9559	69973826	121180450	179	64526											
ANKRD17	26057	broad.mit.edu	37	chr4	74019707	74019707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttccacatgtccagcacttCcagcttccataagaggggta	10	10	8	13	0	0	1	0	0	0	1	4	1	4	1	4	2	2	3	4	2	2	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:74019707C>T	uc003hgp.2	-	6	1241	c.1124G>A	c.(1123-1125)GGA>GAA	p.G375E	ANKRD17_uc003hgo.2_Missense_Mutation_p.G262E|ANKRD17_uc003hgq.2_Missense_Mutation_p.G375E|ANKRD17_uc003hgr.2_Missense_Mutation_p.G375E|ANKRD17_uc011cbd.1_Missense_Mutation_p.G4E	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	375	ANK 5.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCCAGCACTTCCAGCTTCCAT	0.443													29	226					0	0	0.008361	0	0		T	74019707	T	T	74019707	3	4	107	1	0	0	0	0	1	0	0	0	646	855	30	4	6803	4	ANKRD17	4	74019707	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	4045881	74019707	117134569	180	64527											
NAAA	27163	broad.mit.edu	37	chr4	76846936	76846936	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctccgaaacagggcagcGatagcattctcccaccacca	11	7	8	15	2	2	0	0	0	2	0	4	2	2	0	4	1	3	2	4	1	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:76846936G>A	uc003hjb.2	-	5	682	c.618C>T	c.(616-618)ATC>ATT	p.I206I	NAAA_uc003hja.2_Silent_p.I206I|NAAA_uc003hjc.3_Silent_p.I206I|NAAA_uc003hjd.3_Intron|NAAA_uc011cbq.1_Silent_p.I105I	NM_014435	NP_055250	Q02083	NAAA_HUMAN	N-acylethanolamine acid amidase isoform 1	206					lipid metabolic process	lysosome	hydrolase activity			skin(1)	1						ACAGGGCAGCGATAGCATTCT	0.433													7	97					0	0	0.001984	0	0		A	76846936	A	A	76846936	2	1	107	1	0	0	0	0	0	0	0	1	10145	1048	37	1		1	NAAA	4	76846936	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	2827229	76846936	114307340	181	64528											
NUP54	53371	broad.mit.edu	37	chr4	77053844	77053844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaagtaccatttggcgaacGctcaacaacataaataacaa	18	8	6	9	2	1	1	1	1	0	0	1	2	1	1	1	1	5	2	1	1	9	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:77053844G>A	uc003hjs.2	-	6	867	c.739C>T	c.(739-741)CGT>TGT	p.R247C	NUP54_uc010ije.2_5'UTR|NUP54_uc011cbs.1_Missense_Mutation_p.R67C|NUP54_uc011cbt.1_Missense_Mutation_p.R199C|NUP54_uc003hjt.2_Missense_Mutation_p.R67C	NM_017426	NP_059122	Q7Z3B4	NUP54_HUMAN	nucleoporin 54kDa	247	9 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|mRNA transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleoplasm				ovary(1)|lung(1)	2						TTTGGCGAACGCTCAACAACA	0.373													24	124					0	0	0.016522	0	0		A	77053844	A	A	77053844	3	1	107	1	0	0	0	0	1	0	0	0	10786	1087	38	1	812	1	NUP54	4	77053844	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	206908	77053844	114100432	182	64529											
PRKG2	5593	broad.mit.edu	37	chr4	82064024	82064024	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaatggggatgatgaggaaAatctggccaccttctccttc	10	10	12	9	0	2	2	0	2	2	0	4	5	2	5	3	5	0	0	3	5	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:82064024A>C	uc003hmh.2	-	10	1345	c.1331T>G	c.(1330-1332)TTT>TGT	p.F444C	PRKG2_uc011ccf.1_Missense_Mutation_p.F24C|PRKG2_uc011ccg.1_Missense_Mutation_p.F24C|PRKG2_uc011cch.1_Intron	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	444					platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						TGATGAGGAAAATCTGGCCAC	0.468													6	236					0	0	0.021553	0	0		C	82064024	C	C	82064024	3	2	107	1	0	0	0	0	1	0	0	0	12545	14	1	5	993	5	PRKG2	4	82064024	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	5010180	82064024	109090252	183	64530											
SEC31A	22872	broad.mit.edu	37	chr4	83774845	83774845	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggaggctatctccttcatTttcaagcctggttcccaaaa	10	12	7	12	0	3	0	2	0	1	0	5	1	4	1	3	3	1	2	3	3	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:83774845T>A	uc003hnf.2	-	18	2196	c.2032A>T	c.(2032-2034)AAT>TAT	p.N678Y	SEC31A_uc003hne.2_Missense_Mutation_p.N411Y|SEC31A_uc011ccl.1_Missense_Mutation_p.N639Y|SEC31A_uc003hnl.2_Missense_Mutation_p.N639Y|SEC31A_uc003hng.2_Missense_Mutation_p.N678Y|SEC31A_uc003hnh.2_Missense_Mutation_p.N678Y|SEC31A_uc003hni.2_Missense_Mutation_p.N678Y|SEC31A_uc003hnj.2_Missense_Mutation_p.N639Y|SEC31A_uc011ccm.1_Missense_Mutation_p.N673Y|SEC31A_uc011ccn.1_Missense_Mutation_p.N678Y|SEC31A_uc003hnk.2_Missense_Mutation_p.N639Y|SEC31A_uc003hnm.2_Missense_Mutation_p.N678Y|SEC31A_uc003hnn.1_Missense_Mutation_p.N678Y	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	678	WD 7.				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				TCTCCTTCATTTTCAAGCCTG	0.388													23	128					0	0	0.01892	0	0		A	83774845	A	A	83774845	3	1	107	1	0	0	0	0	1	0	0	0	14023	1841	64	5	1670	5	SEC31A	4	83774845	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1710821	83774845	107379431	184	64531											
PTPN13	5783	broad.mit.edu	37	chr4	87684297	87684297	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggagattcagacatggAtgaagccacttactccagca	12	8	10	11	1	1	3	1	1	0	2	2	5	2	4	3	2	3	1	3	2	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:87684297A>T	uc003hpz.2	+	24	4451	c.3971A>T	c.(3970-3972)GAT>GTT	p.D1324V	PTPN13_uc003hpy.2_Missense_Mutation_p.D1324V|PTPN13_uc003hqa.2_Missense_Mutation_p.D1305V|PTPN13_uc003hqb.2_Missense_Mutation_p.D1133V	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1324						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		TCAGACATGGATGAAGCCACT	0.373													25	179					0	0	0.007291	0	0		T	87684297	T	T	87684297	3	4	107	1	0	0	0	0	1	0	0	0	12805	333	12	5	4061	5	PTPN13	4	87684297	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3909452	87684297	103469979	185	64532											
TACR3	6870	broad.mit.edu	37	chr4	104511116	104511116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaactttgatgaaaggaCaccagcgaaatgctctcttg	13	10	10	8	1	1	2	0	2	1	0	2	5	1	4	1	2	3	1	1	2	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:104511116C>T	uc003hxe.1	-	5	1264	c.1121G>A	c.(1120-1122)TGT>TAT	p.C374Y		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	374	Cytoplasmic (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		GATGAAAGGACACCAGCGAAA	0.453													19	118					0	0	0.007413	0	0		T	104511116	T	T	104511116	3	4	107	1	0	0	0	0	1	0	0	0	15532	478	17	4	280	4	TACR3	4	104511116	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	16826819	104511116	86643160	186	64533											
PPA2	27068	broad.mit.edu	37	chr4	106320269	106320269	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accttatataatctaaaccaAttaagagtagcttccaggta	16	12	5	8	0	1	1	0	0	1	1	2	1	2	1	3	1	2	3	3	1	9	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:106320269A>C	uc003hxl.2	-	8	728	c.708T>G	c.(706-708)AAT>AAG	p.N236K	PPA2_uc003hxm.2_Missense_Mutation_p.N218K|PPA2_uc003hxn.2_Missense_Mutation_p.N207K|PPA2_uc003hxo.2_Missense_Mutation_p.N134K|PPA2_uc003hxp.2_Missense_Mutation_p.N70K|PPA2_uc003hxq.2_Missense_Mutation_p.N143K|PPA2_uc003hxr.2_Missense_Mutation_p.N143K	NM_176869	NP_789845	Q9H2U2	IPYR2_HUMAN	inorganic pyrophosphatase 2 isoform 1 precursor	236					diphosphate metabolic process|tRNA aminoacylation for protein translation	mitochondrial matrix	inorganic diphosphatase activity|magnesium ion binding			pancreas(1)	1		Myeloproliferative disorder(5;0.0255)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.03e-07)		ATCTAAACCAATTAAGAGTAG	0.294													30	169					0	0	0.009535	0	0		C	106320269	C	C	106320269	3	2	107	1	0	0	0	0	1	0	0	0	12306	98	4	5	316	5	PPA2	4	106320269	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1809153	106320269	84834007	187	64534											
TBCK	93627	broad.mit.edu	37	chr4	107016730	107016730	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaagggccctgggtaagcTccccttctgcagtgaaggca	8	9	13	11	0	1	1	0	1	1	0	2	1	2	1	3	3	2	5	3	3	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:107016730T>A	uc010ilv.2	-	25	2845	c.2480A>T	c.(2479-2481)GAG>GTG	p.E827V	TBCK_uc003hyb.2_Missense_Mutation_p.E570V|TBCK_uc003hye.2_Missense_Mutation_p.E788V|TBCK_uc003hyc.2_Missense_Mutation_p.E764V|TBCK_uc003hyd.2_Missense_Mutation_p.E655V|TBCK_uc003hyf.2_Missense_Mutation_p.E827V	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like	827	Rhodanese.					intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						CTGGGTAAGCTCCCCTTCTGC	0.453													22	141					0	0	0.01892	0	0		A	107016730	A	A	107016730	3	1	107	1	0	0	0	0	1	0	0	0	15661	1551	54	5	209	5	TBCK	4	107016730	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	696461	107016730	84137546	188	64535											
ANK2	287	broad.mit.edu	37	chr4	114279513	114279513	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagatatcctgccccgacTcttctgaaccagctgtacaa	11	9	7	14	1	2	2	0	1	2	1	3	3	3	2	4	0	5	3	4	0	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:114279513T>C	uc003ibe.3	+	38	9839	c.9739T>C	c.(9739-9741)TCT>CCT	p.S3247P	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.S549P|ANK2_uc011cgb.1_Missense_Mutation_p.S3262P	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3214					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CTGCCCCGACTCTTCTGAACC	0.483													39	187					0	0	0.007835	0	0		C	114279513	C	C	114279513	3	2	107	1	0	0	0	0	1	0	0	0	621	1551	54	3	9954	3	ANK2	4	114279513	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	7262783	114279513	76874763	189	64536											
ANK2	287	broad.mit.edu	37	chr4	114302620	114302620	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttttctccaggacaacaAtgagtaaagccatcacacag	14	9	7	11	0	2	1	1	1	1	0	3	2	2	2	2	1	3	2	2	1	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:114302620A>T	uc003ibe.3	+	46	11967	c.11867A>T	c.(11866-11868)AAT>ATT	p.N3956I	ANK2_uc003ibd.3_Missense_Mutation_p.N1862I|ANK2_uc003ibf.3_Missense_Mutation_p.N1871I|ANK2_uc011cgc.1_Missense_Mutation_p.N1047I|ANK2_uc003ibg.3_Missense_Mutation_p.N947I|ANK2_uc003ibh.3_Missense_Mutation_p.N576I|ANK2_uc011cgd.1_Missense_Mutation_p.N1258I|ANK2_uc010imr.2_Missense_Mutation_p.M130L|ANK2_uc010ims.2_Missense_Mutation_p.M69L	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3923				NN -> SM (in Ref. 5; AC093879).	axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CAGGACAACAATGAGTAAAGC	0.478													11	87					0	0	0.008291	0	0		T	114302620	T	T	114302620	3	4	107	1	0	0	0	0	1	0	0	0	621	101	4	5	12114	5	ANK2	4	114302620	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	23107	114302620	76851656	190	64537											
MYOZ2	51778	broad.mit.edu	37	chr4	120107204	120107204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttgagctactattgctaaCagatcccaggtttatgtcct	9	16	7	9	0	0	2	0	1	0	1	2	2	2	2	2	1	4	3	2	1	4	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:120107204C>T	uc003icp.3	+	6	857	c.644C>T	c.(643-645)ACA>ATA	p.T215I		NM_016599	NP_057683	Q9NPC6	MYOZ2_HUMAN	myozenin 2	215							protein phosphatase 2B binding				0						CTATTGCTAACAGATCCCAGG	0.383													21	188					0	0	0.010504	0	0		T	120107204	T	T	120107204	3	4	107	1	0	0	0	0	1	0	0	0	10114	478	17	4	662	4	MYOZ2	4	120107204	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	5804584	120107204	71047072	191	64538											
PDE5A	8654	broad.mit.edu	37	chr4	120423782	120423782	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctctctgtctccttgatcaAaaaattcagttgctacaagt	11	15	5	10	0	5	1	2	1	3	0	7	1	5	1	1	0	2	2	1	0	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:120423782A>C	uc003idh.2	-	19	2515	c.2360T>G	c.(2359-2361)TTT>TGT	p.F787C	uc003ide.3_Intron|PDE5A_uc003idf.2_Missense_Mutation_p.F745C|PDE5A_uc003idg.2_Missense_Mutation_p.F735C	NM_001083	NP_001074	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 1	787	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)	TCCTTGATCAAAAAATTCAGT	0.313													3	184					0	0	0.004672	0	0		C	120423782	C	C	120423782	3	2	107	1	0	0	0	0	1	0	0	0	11663	14	1	5	279	5	PDE5A	4	120423782	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	316578	120423782	70730494	192	64539											
PDE5A	8654	broad.mit.edu	37	chr4	120488237	120488237	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttttggtaccttttcatcTttttcagtaaatgtcccacc	8	18	5	10	0	3	0	2	0	1	0	4	0	4	0	3	1	1	3	3	1	3	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:120488237T>G	uc003idh.2	-	4	1049	c.894A>C	c.(892-894)AAA>AAC	p.K298N	PDE5A_uc003idf.2_Missense_Mutation_p.K256N|PDE5A_uc003idg.2_Missense_Mutation_p.K246N	NM_001083	NP_001074	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 1	298	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)	CCTTTTCATCTTTTTCAGTAA	0.378													4	198					0	0	0.014758	0	0		G	120488237	G	G	120488237	3	3	107	1	0	0	0	0	1	0	0	0	11663	1606	56	5	1805	5	PDE5A	4	120488237	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	64455	120488237	70666039	193	64540											
DCLK2	166614	broad.mit.edu	37	chr4	151168778	151168778	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaatctccaggaagatcTcttcgaccagatcttggctg	11	10	9	11	1	3	2	0	0	3	2	6	5	3	3	2	2	1	1	2	2	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:151168778T>C	uc003ilm.3	+	13	1902	c.1802T>C	c.(1801-1803)CTC>CCC	p.L601P	DCLK2_uc003iln.3_Missense_Mutation_p.L600P|DCLK2_uc003ilo.3_Missense_Mutation_p.L618P|DCLK2_uc003ilp.3_RNA	NM_001040260	NP_001035350	Q8N568	DCLK2_HUMAN	doublecortin-like kinase 2 isoform a	601	Protein kinase.				intracellular signal transduction	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)					CAGGAAGATCTCTTCGACCAG	0.488													3	77					0	0	0.004672	0	0		C	151168778	C	C	151168778	3	2	107	1	0	0	0	0	1	0	0	0	4295	1551	54	3	1852	3	DCLK2	4	151168778	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	30680541	151168778	39985498	194	64541											
PET112L	5188	broad.mit.edu	37	chr4	152638205	152638205	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagcaattgggagcctctGctgggtaatttggtagcctg	8	11	13	9	0	1	0	0	0	1	0	1	1	1	1	2	3	4	4	2	3	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:152638205G>A	uc003iml.2	-	4	475	c.463C>T	c.(463-465)CAG>TAG	p.Q155*	PET112L_uc003imm.3_Nonsense_Mutation_p.Q155*	NM_004564	NP_004555	O75879	GATB_HUMAN	PET112-like precursor	155						mitochondrion	ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor|translation factor activity, nucleic acid binding				0	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)			L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GGGAGCCTCTGCTGGGTAATT	0.478													12	163					0	0	0.014323	0	0		A	152638205	A	A	152638205	4	1	107	1	0	0	0	0	0	1	0	0	11753	1328	46	2	1250	2	PET112L	4	152638205	Nonsense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1469427	152638205	38516071	195	64542											
TDO2	6999	broad.mit.edu	37	chr4	156841122	156841122	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgatagctcctacttcAgcagtgatgaatcagattaa	13	12	8	8	0	2	4	2	3	0	1	3	4	3	4	1	0	3	2	1	0	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:156841122A>G	uc003ipf.1	+	12	1265	c.1201A>G	c.(1201-1203)AGC>GGC	p.S401G		NM_005651	NP_005642	P48775	T23O_HUMAN	tryptophan 2,3-dioxygenase	401					tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)	CTCCTACTTCAGCAGTGATGA	0.353													6	113					0	0	0.001984	0	0		G	156841122	G	G	156841122	3	3	107	1	0	0	0	0	1	0	0	0	15752	188	7	3	1247	3	TDO2	4	156841122	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4202917	156841122	34313154	196	64543											
CCDC111	201973	broad.mit.edu	37	chr4	185593465	185593465	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaaggattttctttcaataAaatgttcacagaaaaggcta	17	12	6	6	0	3	1	2	0	1	1	3	2	3	2	0	2	0	2	0	2	7	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr4:185593465A>C	uc003iwk.2	+	7	1128	c.695A>C	c.(694-696)AAA>ACA	p.K232T	CCDC111_uc010isd.1_RNA|CCDC111_uc003iwj.2_Missense_Mutation_p.K232T|CCDC111_uc003iwl.2_Missense_Mutation_p.K232T|CCDC111_uc003iwm.2_Missense_Mutation_p.K103T|CCDC111_uc003iwn.2_Missense_Mutation_p.K57T	NM_152683	NP_689896	Q96LW4	CC111_HUMAN	coiled-coil domain containing 111	232					DNA replication, synthesis of RNA primer		DNA primase activity			central_nervous_system(1)	1		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.00531)|Hepatocellular(41;0.00932)|Renal(120;0.0246)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|all_neural(102;0.131)		all cancers(43;5.84e-27)|Epithelial(43;2.2e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.28e-11)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.03e-05)|Colorectal(24;7.57e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000249)|COAD - Colon adenocarcinoma(29;0.000502)|LUSC - Lung squamous cell carcinoma(40;0.00995)|READ - Rectum adenocarcinoma(43;0.173)		TCTTTCAATAAAATGTTCACA	0.448													22	123					0	0	0.010504	0	0		C	185593465	C	C	185593465	3	2	107	1	0	0	0	0	1	0	0	0	2751	14	1	5	713	5	CCDC111	4	185593465	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	28752343	185593465	5560811	197	64544											
IRX1	79192	broad.mit.edu	37	chr5	3599747	3599747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatcgacctggaaagcatcGacattgacaagatcgacgag	15	6	11	9	4	0	3	0	1	0	2	3	8	0	4	1	1	1	1	1	1	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:3599747G>A	uc003jde.2	+	2	737	c.685G>A	c.(685-687)GAC>AAC	p.D229N		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	229						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GGAAAGCATCGACATTGACAA	0.642													6	66					0	0	0.021553	0	0		A	3599747	A	A	3599747	3	1	107	1	0	0	0	0	1	0	0	0	7859	1058	37	1	691	1	IRX1	5	3599747	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08		3599747	177315513	198	64545											
FASTKD3	79072	broad.mit.edu	37	chr5	7868084	7868084	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaagggcacagacgctccTtgactaccttgtgaacatga	12	8	9	12	1	0	4	0	3	0	1	1	4	1	4	3	1	2	2	3	1	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:7868084T>C	uc003jeb.2	-	2	250	c.113A>G	c.(112-114)AAG>AGG	p.K38R	FASTKD3_uc011cmp.1_5'UTR|FASTKD3_uc003jec.2_Intron|MTRR_uc010itn.1_5'Flank|MTRR_uc003jee.3_5'Flank|MTRR_uc003jed.2_5'Flank|MTRR_uc003jef.3_5'Flank|MTRR_uc003jeg.3_5'Flank|MTRR_uc010ito.2_5'Flank	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	38					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						CAGACGCTCCTTGACTACCTT	0.403													6	186					0	0	0.021553	0	0		C	7868084	C	C	7868084	3	2	107	1	0	0	0	0	1	0	0	0	5701	1609	56	3	1899	3	FASTKD3	5	7868084	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	4268337	7868084	173047176	199	64546											
DNAH5	1767	broad.mit.edu	37	chr5	13769199	13769199	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccttctgtacctcagccTtgaccttttcagcagcctgt	6	14	6	15	0	4	1	3	1	1	0	4	1	4	1	5	0	4	2	5	0	1	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:13769199T>G	uc003jfd.2	-	58	9809	c.9767A>C	c.(9766-9768)AAG>ACG	p.K3256T	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3256	Stalk (By similarity).|Potential.				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TACCTCAGCCTTGACCTTTTC	0.428									Kartagener_syndrome				47	645					0	0	0.01441	0	0		G	13769199	G	G	13769199	3	3	107	1	0	0	0	0	1	0	0	0	4610	1609	56	5	4195	5	DNAH5	5	13769199	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	5901115	13769199	167146061	200	64547											
ANKH	56172	broad.mit.edu	37	chr5	14758683	14758683	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggtgcagtttattgataAtgtagtatcctaaatcacta	13	15	7	6	0	1	1	1	1	0	0	2	1	2	1	1	1	1	4	1	1	7	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:14758683A>C	uc003jfm.3	-	3	669	c.338T>G	c.(337-339)ATT>AGT	p.I113S		NM_054027	NP_473368	Q9HCJ1	ANKH_HUMAN	progressive ankylosis protein	113	Extracellular (Potential).				locomotory behavior|regulation of bone mineralization|skeletal system development	integral to plasma membrane|outer membrane	inorganic diphosphate transmembrane transporter activity|inorganic phosphate transmembrane transporter activity			upper_aerodigestive_tract(1)	1						TTTATTGATAATGTAGTATCC	0.413													5	159					0	0	0.021553	0	0		C	14758683	C	C	14758683	3	2	107	1	0	0	0	0	1	0	0	0	627	101	4	5	1180	5	ANKH	5	14758683	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	989484	14758683	166156577	201	64548											
PRDM9	56979	broad.mit.edu	37	chr5	23526783	23526783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagtcaagtatggagagtGtggacaaggtttcagtgtta	14	11	13	3	0	2	1	2	0	0	1	2	3	2	2	0	3	0	3	0	3	6	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:23526783G>A	uc003jgo.2	+	11	1768	c.1586G>A	c.(1585-1587)TGT>TAT	p.C529Y		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	529	C2H2-type 2; degenerate.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						TATGGAGAGTGTGGACAAGGT	0.468										HNSCC(3;0.000094)			15	146					0	0	0.020292	0	0		A	23526783	A	A	23526783	3	1	107	1	0	0	0	0	1	0	0	0	12485	1377	48	4	1624	4	PRDM9	5	23526783	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	8768100	23526783	157388477	202	64549											
PDZD2	23037	broad.mit.edu	37	chr5	32077580	32077580	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgccaggaatctctgggaAagctgaccactggagatgct	10	9	13	9	0	1	2	0	1	1	1	2	5	1	4	2	3	3	2	2	3	2	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:32077580A>C	uc003jhl.2	+	19	3938	c.3550A>C	c.(3550-3552)AAG>CAG	p.K1184Q	PDZD2_uc003jhm.2_Missense_Mutation_p.K1184Q|PDZD2_uc011cnx.1_Missense_Mutation_p.K1010Q	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1184					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						ATCTCTGGGAAAGCTGACCAC	0.498													9	132					0	0	0.004482	0	0		C	32077580	C	C	32077580	3	2	107	1	0	0	0	0	1	0	0	0	11720	15	1	5	3620	5	PDZD2	5	32077580	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	8550797	32077580	148837680	203	64550											
ADAMTS12	81792	broad.mit.edu	37	chr5	33616123	33616123	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttccagctccctcaattTccatcactcttatgtccctt	7	16	3	15	0	3	0	2	0	1	0	7	0	7	0	4	0	1	2	4	0	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:33616123T>C	uc003jia.1	-	15	2361	c.2198A>G	c.(2197-2199)GAA>GGA	p.E733G	ADAMTS12_uc010iuq.1_Missense_Mutation_p.E648G	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	733	Spacer 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TCCCTCAATTTCCATCACTCT	0.438										HNSCC(64;0.19)			80	148					0	0	0.01441	0	0		C	33616123	C	C	33616123	3	2	107	1	0	0	0	0	1	0	0	0	257	1783	62	3	2626	3	ADAMTS12	5	33616123	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1538543	33616123	147299137	204	64551											
ADAMTS12	81792	broad.mit.edu	37	chr5	33891900	33891900	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccatagcaaagcgccccaAagttaaggagctgagccacc	13	5	9	14	1	0	1	0	1	0	0	1	2	1	2	5	1	4	3	5	1	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:33891900A>C	uc003jia.1	-	1	225	c.62T>G	c.(61-63)TTT>TGT	p.F21C	ADAMTS12_uc010iuq.1_Missense_Mutation_p.F21C|ADAMTS12_uc003jib.1_Missense_Mutation_p.F21C	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	21					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						AAGCGCCCCAAAGTTAAGGAG	0.488										HNSCC(64;0.19)			41	198					0	0	0.007835	0	0		C	33891900	C	C	33891900	3	2	107	1	0	0	0	0	1	0	0	0	257	14	1	5	4818	5	ADAMTS12	5	33891900	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	275777	33891900	147023360	205	64552											
SPEF2	79925	broad.mit.edu	37	chr5	35654723	35654723	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagatgacgagtacattaaAaaaatccagaagcgccttga	17	8	8	8	2	1	4	1	2	0	2	2	5	2	4	2	0	2	1	2	0	6	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:35654723A>G	uc003jjo.2	+	7	984	c.873A>G	c.(871-873)AAA>AAG	p.K291K	SPEF2_uc003jjn.1_Silent_p.K291K|SPEF2_uc003jjq.3_Silent_p.K291K	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	291					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AGTACATTAAAAAAATCCAGA	0.398													13	163					0	0	0.020292	0	0		G	35654723	G	G	35654723	2	3	107	1	0	0	0	0	0	0	0	1	15060	11	1	3		3	SPEF2	5	35654723	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1762823	35654723	145260537	206	64553											
UGT3A1	133688	broad.mit.edu	37	chr5	35965721	35965721	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaactaaagaacatcagaaAattcttcactcggccccaga	17	7	6	11	1	3	3	2	0	1	3	4	4	3	3	2	1	2	0	2	1	6	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:35965721A>T	uc003jjv.1	-	4	767	c.610T>A	c.(610-612)TTT>ATT	p.F204I	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.F204I|UGT3A1_uc011cor.1_Missense_Mutation_p.F170I|UGT3A1_uc003jjy.1_Missense_Mutation_p.F150I	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	204	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AACATCAGAAAATTCTTCACT	0.473													10	147					0	0	0.010729	0	0		T	35965721	T	T	35965721	3	4	107	1	0	0	0	0	1	0	0	0	16989	14	1	5	1059	5	UGT3A1	5	35965721	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	310998	35965721	144949539	207	64554											
UGT3A2	167127	broad.mit.edu	37	chr5	36066860	36066860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaccccagggagaaggaagCccactagaagaagcactcgc	14	2	13	12	1	0	3	0	0	0	3	1	6	0	5	3	3	2	1	3	3	5	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:36066860C>T	uc003jjz.1	-	1	125	c.32G>A	c.(31-33)GGC>GAC	p.G11D	UGT3A2_uc011cos.1_Missense_Mutation_p.G11D|UGT3A2_uc011cot.1_5'UTR	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	11						integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GAGAAGGAAGCCCACTAGAAG	0.612													23	160					0	0	0.01892	0	0		T	36066860	T	T	36066860	3	4	107	1	0	0	0	0	1	0	0	0	16990	739	26	2	1567	2	UGT3A2	5	36066860	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	101139	36066860	144848400	208	64555											
C5orf42	65250	broad.mit.edu	37	chr5	37108536	37108536	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcccagcacttccatgtttTtttgtatgctgcagactatg	8	15	8	10	0	0	1	0	0	0	1	1	1	1	1	2	0	4	5	2	0	2	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:37108536T>C	uc011cpa.1	-	51	9507	c.9276A>G	c.(9274-9276)AAA>AAG	p.K3092K	C5orf42_uc003jko.1_Silent_p.K123K|C5orf42_uc003jkp.1_RNA|C5orf42_uc011coy.1_Silent_p.K1610K|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Silent_p.K2185K	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	3092										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			TTCCATGTTTTTTTGTATGCT	0.398													12	244					0	0	0.010729	0	0		C	37108536	C	C	37108536	2	2	107	1	0	0	0	0	0	0	0	1	2304	1838	64	3		3	C5orf42	5	37108536	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1041676	37108536	143806724	209	64556											
C5orf34	375444	broad.mit.edu	37	chr5	43503793	43503793	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaacacctttgtaccaaacCattttcactagttcaggata	13	13	5	10	0	2	0	2	0	0	0	2	1	2	1	3	1	3	3	3	1	5	8	rs145557336	byFrequency	TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:43503793C>T	uc003jnz.1	-	6	1319	c.1002G>A	c.(1000-1002)ATG>ATA	p.M334I		NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	334										breast(1)	1	Lung NSC(6;2.07e-05)					TGTACCAAACCATTTTCACTA	0.378													61	362					0	0	0.01441	0	0		T	43503793	T	T	43503793	3	4	107	1	0	0	0	0	1	0	0	0	2296	594	21	4	950	4	C5orf34	5	43503793	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	6395257	43503793	137411467	210	64557											
SFRS12	140890	broad.mit.edu	37	chr5	65458386	65458386	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtaccaagggcccttgctTttaatggagttatgtttgga	8	15	11	7	0	0	0	0	0	0	0	0	2	0	2	2	3	2	4	2	3	4	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:65458386T>G	uc003juo.2	+	6	1033	c.373T>G	c.(373-375)TTT>GTT	p.F125V	SFRS12_uc003jun.2_Missense_Mutation_p.F241V|SFRS12_uc010iwy.2_Missense_Mutation_p.F125V	NM_139168	NP_631907	Q8WXA9	SREK1_HUMAN	splicing factor, arginine/serine-rich 12 isoform	125	RRM.				mRNA processing|RNA splicing	spliceosomal complex	nucleic acid binding|nucleotide binding|protein binding				0		Lung NSC(167;9.34e-06)|Prostate(74;0.00187)|Ovarian(174;0.0545)|Breast(144;0.0928)|Colorectal(97;0.234)		Lung(70;0.00449)		GGCCCTTGCTTTTAATGGAGT	0.373													8	142					0	0	0.008291	0	0		G	65458386	G	G	65458386	3	3	107	1	0	0	0	0	1	0	0	0	14192	1841	64	5	739	5	SFRS12	5	65458386	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	21954593	65458386	115456874	211	64558											
ANKRA2	57763	broad.mit.edu	37	chr5	72858699	72858699	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatatccagatttgttgatGtatccatgatttcaactgta	12	16	6	7	0	1	3	1	2	0	1	3	3	3	3	2	0	1	3	2	0	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:72858699G>T	uc003kcu.1	-	2	654	c.8C>A	c.(7-9)ACA>AAA	p.T3K	UTP15_uc003kcw.1_5'Flank|UTP15_uc011cso.1_5'Flank|UTP15_uc011csp.1_5'Flank|ANKRA2_uc003kcv.2_Missense_Mutation_p.T3K	NM_023039	NP_075526	Q9H9E1	ANRA2_HUMAN	ankyrin repeat, family A (RFXANK-like), 2	3						cytoskeleton|cytosol|membrane	low-density lipoprotein particle binding				0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)		OV - Ovarian serous cystadenocarcinoma(47;3.71e-54)		ATTTGTTGATGTATCCATGAT	0.393													6	127					1.12685e-05	1.1632e-05	0.004482	1	0		T	72858699	T	T	72858699	3	4	107	1	0	0	0	0	1	0	0	0	636	1377	48	5	965	5	ANKRA2	5	72858699	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	7400313	72858699	108056561	212	64559											
ENC1	8507	broad.mit.edu	37	chr5	73931059	73931059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatttgttgattgtggggtCataatgttctacctgcttta	7	18	9	7	0	2	1	1	1	1	0	2	1	2	1	2	2	2	3	2	2	3	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:73931059C>T	uc003kdc.3	-	2	2383	c.1252G>A	c.(1252-1254)GAC>AAC	p.D418N	ENC1_uc011css.1_Missense_Mutation_p.D345N	NM_003633	NP_003624	O14682	ENC1_HUMAN	ectodermal-neural cortex (with BTB-like domain)	418	Kelch 3.				nervous system development	cytoplasm|cytoskeleton|nuclear matrix	actin binding			ovary(1)|pancreas(1)|skin(1)	3		all_lung(232;0.0154)|Lung NSC(167;0.0331)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.45e-59)		ATTGTGGGGTCATAATGTTCT	0.552													20	104					0	0	0.008871	0	0		T	73931059	T	T	73931059	3	4	107	1	0	0	0	0	1	0	0	0	5121	826	29	4	521	4	ENC1	5	73931059	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1072360	73931059	106984201	213	64560											
ARSK	153642	broad.mit.edu	37	chr5	94927138	94927138	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcccttcatcaattagatcTtcttcagaaaactattgtca	12	14	5	10	0	6	2	4	0	2	2	6	2	6	2	1	1	1	0	1	1	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:94927138T>G	uc003kld.2	+	6	1063	c.905T>G	c.(904-906)CTT>CGT	p.L302R	ARSK_uc010jbg.2_Missense_Mutation_p.L143R|ARSK_uc011cum.1_RNA	NM_198150	NP_937793	Q6UWY0	ARSK_HUMAN	arylsulfatase K precursor	302						extracellular region	arylsulfatase activity|metal ion binding			pancreas(1)	1		all_cancers(142;3.38e-06)|all_epithelial(76;6.57e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.00473)		all cancers(79;6.5e-16)		CAATTAGATCTTCTTCAGAAA	0.348													8	220					0	0	0.00308	0	0		G	94927138	G	G	94927138	3	3	107	1	0	0	0	0	1	0	0	0	997	1609	56	5	927	5	ARSK	5	94927138	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	20996079	94927138	85988122	214	64561											
PPIP5K2	23262	broad.mit.edu	37	chr5	102494226	102494226	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacagacatgacctcaaaatAtatgcctctgatgaaggacg	15	9	8	9	1	2	4	1	3	1	1	2	5	2	5	2	1	2	0	2	1	6	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:102494226A>G	uc003kod.3	+	16	2205	c.1686A>G	c.(1684-1686)ATA>ATG	p.I562M	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.I562M	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	562					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						ACCTCAAAATATATGCCTCTG	0.333													19	131					0	0	0.010504	0	0		G	102494226	G	G	102494226	3	3	107	1	0	0	0	0	1	0	0	0	12355	439	16	3	1744	3	PPIP5K2	5	102494226	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	7567088	102494226	78421034	215	64562											
PCDHGC4	56098	broad.mit.edu	37	chr5	140865158	140865158	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccgcggcagcagctggacTtggaaattggggaggcagct	8	8	16	9	2	0	0	0	0	0	0	1	3	1	3	1	6	3	5	1	6	1	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:140865158T>G	uc003lky.1	+	1	418	c.418T>G	c.(418-420)TTG>GTG	p.L140V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Missense_Mutation_p.L140V	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	140	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAGCTGGACTTGGAAATTGG	0.542													20	82					0	0	0.008871	0	0		G	140865158	G	G	140865158	3	3	107	1	0	0	0	0	1	0	0	0	11589	1606	56	5	420	5	PCDHGC4	5	140865158	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	38370932	140865158	40050102	216	64563											
NR3C1	2908	broad.mit.edu	37	chr5	142661596	142661596	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagcaatagttaaggagaTtttcaaccacctgcaagaga	16	8	10	7	0	1	2	1	0	0	2	1	5	1	3	2	2	3	3	2	2	6	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:142661596T>G	uc003lmz.2	-	9	2684	c.2192A>C	c.(2191-2193)AAT>ACT	p.N731T	NR3C1_uc003lmy.2_Missense_Mutation_p.N732T|NR3C1_uc003lna.2_Intron|NR3C1_uc003lnb.2_Missense_Mutation_p.N731T|NR3C1_uc011dbk.1_Missense_Mutation_p.N334T|NR3C1_uc003lnc.2_Missense_Mutation_p.N731T|NR3C1_uc003lnd.2_Missense_Mutation_p.N731T|NR3C1_uc003lne.2_Missense_Mutation_p.N731T|NR3C1_uc003lnf.2_Missense_Mutation_p.N732T	NM_000176	NP_000167	P04150	GCR_HUMAN	glucocorticoid receptor isoform alpha	731	Steroid-binding.				chromatin modification|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus|transcription from RNA polymerase II promoter	mitochondrial matrix|nucleoplasm	glucocorticoid receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(2;3.2e-05)|all_hematologic(2;0.000361)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)		Amcinonide(DB00288)|Betamethasone(DB00443)|Budesonide(DB01222)|Dexamethasone(DB01234)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluticasone Propionate(DB00588)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol Etabonate(DB00873)|Methylprednisolone(DB00959)|Mifepristone(DB00834)|Mometasone(DB00764)|Prednisone(DB00635)	GTTAAGGAGATTTTCAACCAC	0.358													7	110					0	0	0.00308	0	0		G	142661596	G	G	142661596	3	3	107	1	0	0	0	0	1	0	0	0	10649	1493	52	5	197	5	NR3C1	5	142661596	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1796438	142661596	38253664	217	64564											
WWC1	23286	broad.mit.edu	37	chr5	167841353	167841353	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cttgctttcttggcccccagGatcgccaacctgaagatcca	8	10	8	15	1	1	2	0	1	1	1	3	3	2	3	5	2	2	1	5	2	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr5:167841353G>A	uc003lzu.2	+	9	1035	c.942G>A	c.(940-942)AGG>AGA	p.R314R	WWC1_uc003lzv.2_Silent_p.R314R|WWC1_uc011den.1_Silent_p.R314R|WWC1_uc003lzw.2_Silent_p.R113R	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	314	Potential.				cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		TGGCCCCCAGGATCGCCAACC	0.547													9	16					0	0	0.006214	0	0		A	167841353	A	A	167841353	2	1	107	1	0	0	0	0	0	0	0	1	17437	1188	41	4		4	WWC1	5	167841353	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	25179757	167841353	13073907	218	64565											
MAK	4117	broad.mit.edu	37	chr6	10804105	10804105	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaactgaagatctcagtaAaacttcaggggcacgatacc	16	8	8	9	1	2	2	2	1	1	1	3	3	2	2	1	2	3	2	1	2	6	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:10804105A>G	uc003mzl.2	-	6	740	c.511T>C	c.(511-513)TTA>CTA	p.L171L	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Silent_p.L171L|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	171	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				GATCTCAGTAAAACTTCAGGG	0.418													5	156					0	0	0.014758	0	0		G	10804105	G	G	10804105	2	3	107	1	0	0	0	0	0	0	0	1	9215	11	1	3		3	MAK	6	10804105	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08		10804105	160310962	219	64566											
SLC17A1	6568	broad.mit.edu	37	chr6	25799054	25799054	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctttagcccagtcctgaaTttctgctgtagcaactataa	10	15	6	10	0	2	1	0	1	2	0	3	1	3	1	2	0	4	3	2	0	6	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:25799054T>G	uc003nfh.3	-	12	1479	c.1363A>C	c.(1363-1365)ATT>CTT	p.I455L	SLC17A1_uc011djy.1_RNA|SLC17A1_uc010jqb.1_Missense_Mutation_p.I453L|SLC17A1_uc010jqc.1_Missense_Mutation_p.I399L	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),	455					sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						CAGTCCTGAATTTCTGCTGTA	0.433													17	167					0	0	0.006122	0	0		G	25799054	G	G	25799054	3	3	107	1	0	0	0	0	1	0	0	0	14441	1493	52	5	44	5	SLC17A1	6	25799054	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	14994949	25799054	145316013	220	64567											
HIST1H2AC	8334	broad.mit.edu	37	chr6	26124540	26124540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcgctggtctccagttccCggtgggccgagtgcaccgcc	3	8	14	16	5	1	0	0	0	1	0	4	1	2	0	5	3	1	3	5	3	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:26124540C>T	uc003ngm.2	+	1	168	c.80C>T	c.(79-81)CCG>CTG	p.P27L	HIST1H2BC_uc003ngk.3_5'Flank|HIST1H2BC_uc003ngl.2_5'Flank|HIST1H2AC_uc003ngn.2_RNA|HIST1H2AC_uc003ngo.2_RNA|HIST1H2AC_uc003ngp.2_Missense_Mutation_p.P27L	NM_003512	NP_003503	Q93077	H2A1C_HUMAN	histone cluster 1, H2ac	27					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CTCCAGTTCCCGGTGGGCCGA	0.612													3	52					0	0	0.004672	0	0		T	26124540	T	T	26124540	3	4	107	1	0	0	0	0	1	0	0	0	7146	652	23	1	82	1	HIST1H2AC	6	26124540	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	325486	26124540	144990527	221	64568											
BTN3A1	11119	broad.mit.edu	37	chr6	26410259	26410259	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtatccagtatgcatcTcgtaagtgcctctgacattt	11	13	8	9	1	2	2	0	1	2	1	4	2	3	2	2	0	2	4	2	0	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:26410259T>C	uc003nhv.2	+	7	1331	c.963T>C	c.(961-963)TCT>TCC	p.S321S	BTN3A1_uc011dkj.1_Silent_p.S321S|BTN3A1_uc011dkk.1_Silent_p.S269S|BTN3A1_uc010jqj.2_Silent_p.S321S	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a	321	Cytoplasmic (Potential).				lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						AGTATGCATCTCGTAAGTGCC	0.468													32	238					0	0	0.017118	0	0		C	26410259	C	C	26410259	2	2	107	1	0	0	0	0	0	0	0	1	1565	1565	54	3		3	BTN3A1	6	26410259	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	285719	26410259	144704808	222	64569											
MAS1L	116511	broad.mit.edu	37	chr6	29455004	29455004	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggaagagcccagaaagctTtagaaatatgacacatgcct	16	8	9	8	0	0	4	0	1	0	3	0	5	0	5	2	1	3	1	2	1	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:29455004T>G	uc011dlq.1	-	1	676	c.676A>C	c.(676-678)AAG>CAG	p.K226Q		NM_052967	NP_443199	P35410	MAS1L_HUMAN	MAS1 oncogene-like	226	Helical; Name=5; (Potential).					cytoplasm|integral to membrane|nucleus|plasma membrane	G-protein coupled receptor activity			ovary(7)|lung(2)	9						CCAGAAAGCTTTAGAAATATG	0.443													4	87					0	0	0.009096	0	0		G	29455004	G	G	29455004	3	3	107	1	0	0	0	0	1	0	0	0	9339	1850	64	5	462	5	MAS1L	6	29455004	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3044745	29455004	141660063	223	64570											
DHX16	8449	broad.mit.edu	37	chr6	30630751	30630751	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacactcatggcagccacTctccggggttgggtgcaggc	6	7	14	14	1	2	0	1	0	1	0	3	0	2	0	3	5	2	3	3	5	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:30630751T>C	uc003nqz.2	-	8	1577	c.1365A>G	c.(1363-1365)AGA>AGG	p.R455R	DHX16_uc003nqy.2_5'Flank|DHX16_uc011dmo.1_Silent_p.R395R	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	455	Helicase ATP-binding.				mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4						TGGCAGCCACTCTCCGGGGTT	0.527													6	86					0	0	0.008291	0	0		C	30630751	C	C	30630751	2	2	107	1	0	0	0	0	0	0	0	1	4508	1548	54	3		3	DHX16	6	30630751	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1175747	30630751	140484316	224	64571											
ITPR3	3710	broad.mit.edu	37	chr6	33632880	33632880	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcctttgccatcgtgtcAgtgcccgtgtctgagatccg	5	11	13	12	3	2	1	1	1	1	1	4	3	3	1	4	1	2	0	4	1	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:33632880A>G	uc011drk.1	+	13	1518	c.1299A>G	c.(1297-1299)TCA>TCG	p.S433S		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	433	Cytoplasmic (Potential).|MIR 5.				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CCATCGTGTCAGTGCCCGTGT	0.567													19	92					0	0	0.014323	0	0		G	33632880	G	G	33632880	2	3	107	1	0	0	0	0	0	0	0	1	7938	175	7	3		3	ITPR3	6	33632880	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3002129	33632880	137482187	225	64572											
FTSJD2	23070	broad.mit.edu	37	chr6	37430704	37430704	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgcggaacacggattcCgacgtcaacttggtggtccc	8	8	12	13	4	1	0	1	0	0	0	3	3	3	2	2	4	4	1	2	4	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:37430704C>T	uc003ons.2	+	13	1678	c.1425C>T	c.(1423-1425)TCC>TCT	p.S475S		NM_015050	NP_055865	Q8N1G2	MTR1_HUMAN	FtsJ methyltransferase domain containing 2	475					mRNA capping	cytoplasm|nucleus	mRNA (nucleoside-2'-O-)-methyltransferase activity|nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						ACACGGATTCCGACGTCAACT	0.502													22	194					0	0	0.010504	0	0		T	37430704	T	T	37430704	2	4	107	1	0	0	0	0	0	0	0	1	6105	639	23	1		1	FTSJD2	6	37430704	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	3797824	37430704	133684363	226	64573											
DNAH8	1769	broad.mit.edu	37	chr6	38690577	38690577	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtataaagcattccgcaCgacgggggatggagaaggat	14	6	15	6	3	0	1	0	0	0	1	1	6	1	3	1	4	1	3	1	4	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:38690577C>T	uc003ooe.1	+	1	26	c.-574C>T	c.(-576--572)CACGA>CATGA		DNAH8_uc003ood.1_Translation_Start_Site	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GCATTCCGCACGACGGGGGAT	0.483													4	37					0	0	0.009096	0	0		T	38690577	T	T	38690577	1	4	107	1	0	0	0	0	0	0	0	0	4613	551	19	1		1	DNAH8	6	38690577	Translation_Start_Site	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1259873	38690577	132424490	227	64574											
DNAH8	1769	broad.mit.edu	37	chr6	38950132	38950132	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtttttaaggagcgacgaaAatttggccccttaggatgga	11	12	12	6	2	0	0	0	0	0	0	0	5	0	3	2	4	1	1	2	4	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:38950132A>C	uc003ooe.1	+	84	12794	c.12194A>C	c.(12193-12195)AAA>ACA	p.K4065T	DNAH8_uc003oog.1_Missense_Mutation_p.K514T	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GAGCGACGAAAATTTGGCCCC	0.343													8	280					0	0	0.004482	0	0		C	38950132	C	C	38950132	3	2	107	1	0	0	0	0	1	0	0	0	4613	14	1	5	12520	5	DNAH8	6	38950132	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	259555	38950132	132164935	228	64575											
HSP90AB1	3326	broad.mit.edu	37	chr6	44220806	44220806	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatctccaatagacttgtgTcttcaccttgctgcattgtg	8	15	7	11	0	3	1	1	0	2	1	4	1	3	1	2	0	2	2	2	0	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:44220806T>C	uc003oxa.1	+	11	1840	c.1756T>C	c.(1756-1758)TCT>CCT	p.S586P	HSP90AB1_uc011dvr.1_Missense_Mutation_p.S576P|HSP90AB1_uc003oxb.1_Missense_Mutation_p.S586P|HSP90AB1_uc011dvs.1_Missense_Mutation_p.S406P|HSP90AB1_uc003oxc.1_Missense_Mutation_p.S224P	NM_007355	NP_031381	P08238	HS90B_HUMAN	heat shock 90kDa protein 1, beta	586					axon guidance|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of nitric oxide biosynthetic process|protein folding|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to unfolded protein	cytosol|melanosome	ATP binding|nitric-oxide synthase regulator activity|TPR domain binding|unfolded protein binding			lung(3)|breast(1)	4	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TAGACTTGTGTCTTCACCTTG	0.473													6	115					0	0	0.001984	0	0		C	44220806	C	C	44220806	3	2	107	1	0	0	0	0	1	0	0	0	7418	1667	58	3	1794	3	HSP90AB1	6	44220806	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	5270674	44220806	126894261	229	64576											
TCTE1	202500	broad.mit.edu	37	chr6	44254189	44254189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctatcaggttggcggtcaCagccagtggtaggtcagggg	7	9	17	8	1	4	0	3	0	1	0	4	0	4	0	1	7	1	2	1	7	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:44254189C>T	uc003oxi.2	-	3	514	c.358G>A	c.(358-360)GTG>ATG	p.V120M	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_182539	NP_872345	Q5JU00	TCTE1_HUMAN	t-complex-associated testis expressed 1	120										ovary(2)|skin(2)	4	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TTGGCGGTCACAGCCAGTGGT	0.592													20	151					0	0	0.00632	0	0		T	44254189	T	T	44254189	3	4	107	1	0	0	0	0	1	0	0	0	15742	478	17	4	1159	4	TCTE1	6	44254189	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	33383	44254189	126860878	230	64577											
TDRD6	221400	broad.mit.edu	37	chr6	46661814	46661814	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaatttgtagagtataaAaacagggatgccatttcggc	15	10	11	5	1	0	2	0	0	0	2	1	4	0	3	1	2	2	2	1	2	7	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:46661814A>T	uc003oyj.2	+	1	5949	c.5949A>T	c.(5947-5949)AAA>AAT	p.K1983N	TDRD6_uc010jze.2_Missense_Mutation_p.K1977N	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1983					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			TAGAGTATAAAAACAGGGATG	0.393													6	153					0	0	0.001984	0	0		T	46661814	T	T	46661814	3	4	107	1	0	0	0	0	1	0	0	0	15759	11	1	5	5951	5	TDRD6	6	46661814	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2407625	46661814	124453253	231	64578											
TDRD6	221400	broad.mit.edu	37	chr6	46663629	46663629	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgttgtgtggtcaagtctaAgaaacacatggtctaaatgt	12	13	11	5	0	3	1	1	0	2	1	3	1	3	1	0	2	1	1	0	2	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:46663629A>C	uc003oyj.2	+	2	6118	c.6118A>C	c.(6118-6120)AGA>CGA	p.R2040R	TDRD6_uc010jze.2_Silent_p.R2034R	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	2040	Tudor 8.				cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			GTCAAGTCTAAGAAACACATG	0.363													5	240					0	0	0.014758	0	0		C	46663629	C	C	46663629	2	2	107	1	0	0	0	0	0	0	0	1	15759	64	3	5		5	TDRD6	6	46663629	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1815	46663629	124451438	232	64579											
EFHC1	114327	broad.mit.edu	37	chr6	52288746	52288746	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattcttttcttcttcagaaAacagccttccacagaagtca	12	13	4	12	0	5	2	2	0	3	2	6	2	6	2	2	0	2	0	2	0	3	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:52288746A>G	uc003pap.3	+	2	281	c.66A>G	c.(64-66)AAA>AAG	p.K22K	EFHC1_uc011dwv.1_5'UTR|EFHC1_uc011dww.1_Silent_p.K3K	NM_018100	NP_060570	Q5JVL4	EFHC1_HUMAN	EF-hand domain (C-terminal) containing 1	22						axoneme|neuronal cell body	calcium ion binding|protein C-terminus binding			ovary(2)|skin(1)	3	Lung NSC(77;0.109)					TTCTTCAGAAAACAGCCTTCC	0.378													4	122					0	0	0.014758	0	0		G	52288746	G	G	52288746	2	3	107	1	0	0	0	0	0	0	0	1	4952	11	1	3		3	EFHC1	6	52288746	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	5625117	52288746	118826321	233	64580											
DST	667	broad.mit.edu	37	chr6	56434681	56434681	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttccaaagattttcctaaAtcctctgcaccaaaagaagg	14	11	5	11	0	2	2	0	0	2	2	5	2	5	2	4	1	1	1	4	1	6	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:56434681A>C	uc003pdf.2	-	48	7522	c.7494T>G	c.(7492-7494)GAT>GAG	p.D2498E	DST_uc003pcz.3_Missense_Mutation_p.D2320E|DST_uc011dxj.1_Missense_Mutation_p.D2349E|DST_uc011dxk.1_Missense_Mutation_p.D2360E|DST_uc003pcy.3_Missense_Mutation_p.D1994E	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	4406					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			ATTTTCCTAAATCCTCTGCAC	0.313													24	190					0	0	0.024334	0	0		C	56434681	C	C	56434681	3	2	107	1	0	0	0	0	1	0	0	0	4789	98	4	5	9733	5	DST	6	56434681	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4145935	56434681	114680386	234	64581											
LCA5	167691	broad.mit.edu	37	chr6	80197201	80197201	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacttctaacatttcctgaAttctgaccttctccttttgg	7	17	6	11	0	3	2	0	2	3	0	5	3	4	3	3	2	1	0	3	2	2	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:80197201A>C	uc003pix.2	-	8	2049	c.1614T>G	c.(1612-1614)AAT>AAG	p.N538K	LCA5_uc003piy.2_Missense_Mutation_p.N538K	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	538					protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		CATTTCCTGAATTCTGACCTT	0.423													4	224					0	0	0.021553	0	0		C	80197201	C	C	80197201	3	2	107	1	0	0	0	0	1	0	0	0	8672	98	4	5	483	5	LCA5	6	80197201	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	23762520	80197201	90917866	235	64582											
GABRR1	2569	broad.mit.edu	37	chr6	89907959	89907959	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtagagggtcatcgtaaAgtcctgggagcagaagggca	12	6	16	7	1	1	2	1	0	0	2	3	3	2	3	1	4	1	4	1	4	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:89907959A>C	uc003pna.2	-	5	807	c.352T>G	c.(352-354)TTT>GTT	p.F118V	GABRR1_uc011dzv.1_Missense_Mutation_p.F95V	NM_002042	NP_002033	P24046	GBRR1_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 1	118	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			pancreas(1)	1		all_cancers(76;9.49e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.46e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00917)	Picrotoxin(DB00466)	GTCATCGTAAAGTCCTGGGAG	0.557													22	189					0	0	0.016522	0	0		C	89907959	C	C	89907959	3	2	107	1	0	0	0	0	1	0	0	0	6190	72	3	5	1111	5	GABRR1	6	89907959	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	9710758	89907959	81207108	236	64583											
ASCC3	10973	broad.mit.edu	37	chr6	101214491	101214491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcatgtcaccagtcaattCtttcacaatgatgcctagtg	10	13	7	11	0	4	1	3	1	1	0	4	1	4	1	2	0	2	1	2	0	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:101214491C>T	uc003pqk.2	-	10	2016	c.1687G>A	c.(1687-1689)GAA>AAA	p.E563K	ASCC3_uc011eai.1_Missense_Mutation_p.E465K|ASCC3_uc003pql.2_Missense_Mutation_p.E563K	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	563	Helicase ATP-binding 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CCAGTCAATTCTTTCACAATG	0.363													13	102					0	0	0.013537	0	0		T	101214491	T	T	101214491	3	4	107	1	0	0	0	0	1	0	0	0	1034	922	32	4	5053	4	ASCC3	6	101214491	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	11306532	101214491	69900576	237	64584											
GRIK2	2898	broad.mit.edu	37	chr6	102124587	102124587	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctgctgatacaaaggatGcaaaacccttactaaaagaa	18	8	6	9	0	0	2	0	1	0	1	0	3	0	3	2	1	6	2	2	1	9	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:102124587G>T	uc003pqp.3	+	4	880	c.631G>T	c.(631-633)GCA>TCA	p.A211S	GRIK2_uc003pqn.2_Missense_Mutation_p.A211S|GRIK2_uc003pqo.3_Missense_Mutation_p.A211S|GRIK2_uc010kcw.2_Missense_Mutation_p.A211S	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	211	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	TACAAAGGATGCAAAACCCTT	0.368													15	94					1.05317e-09	1.10005e-09	0.020292	1	0		T	102124587	T	T	102124587	3	4	107	1	0	0	0	0	1	0	0	0	6790	1319	46	5	645	5	GRIK2	6	102124587	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	910096	102124587	68990480	238	64585											
ZBTB24	9841	broad.mit.edu	37	chr6	109798005	109798005	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagcagtgagtgcttggTggtcagagccttgctgcaca	7	10	13	11	0	1	2	1	1	0	1	2	2	2	2	2	2	5	4	2	2	0	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:109798005T>C	uc003ptl.1	-	3	1249	c.1081A>G	c.(1081-1083)ACC>GCC	p.T361A	ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Intron|ZBTB24_uc010kdt.1_RNA	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	361	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		GAGTGCTTGGTGGTCAGAGCC	0.602													6	34					0	0	0.00308	0	0		C	109798005	C	C	109798005	3	2	107	1	0	0	0	0	1	0	0	0	17556	1696	59	3	1032	3	ZBTB24	6	109798005	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	7673418	109798005	61317062	239	64586											
AKD1	221264	broad.mit.edu	37	chr6	109954220	109954220	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttacatggtggtcctggcAtaggtggaagcagataggga	10	10	15	6	0	0	1	0	0	0	1	1	3	1	3	1	6	2	2	1	6	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:109954220A>C	uc003ptn.2	-	12	1237	c.1160T>G	c.(1159-1161)ATG>AGG	p.M387R	AKD1_uc003ptr.3_Missense_Mutation_p.M387R	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	387					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TGGTCCTGGCATAGGTGGAAG	0.368													21	102					0	0	0.01892	0	0		C	109954220	C	C	109954220	3	2	107	1	0	0	0	0	1	0	0	0	460	217	8	5	4707	5	AKD1	6	109954220	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	156215	109954220	61160847	240	64587											
SLC16A10	117247	broad.mit.edu	37	chr6	111543321	111543321	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatccatagtaagaagcaAagagagatcagtaaaaccac	19	6	9	7	0	1	3	1	0	0	3	2	5	2	4	2	1	2	3	2	1	6	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:111543321A>C	uc003pus.2	+	6	1606	c.1431A>C	c.(1429-1431)CAA>CAC	p.Q477H	SLC16A10_uc003put.2_Missense_Mutation_p.Q163H	NM_018593	NP_061063	Q8TF71	MOT10_HUMAN	solute carrier family 16, member 10	477	Extracellular (Potential).				aromatic amino acid transport|cellular nitrogen compound metabolic process|ion transport	basolateral plasma membrane|integral to membrane	amino acid transmembrane transporter activity				0		all_cancers(87;0.00172)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0313)|Colorectal(196;0.0466)		OV - Ovarian serous cystadenocarcinoma(136;0.0703)|Epithelial(106;0.12)|all cancers(137;0.132)		GTAAGAAGCAAAGAGAGATCA	0.433													12	206					0	0	0.013537	0	0		C	111543321	C	C	111543321	3	2	107	1	0	0	0	0	1	0	0	0	14428	11	1	5	1453	5	SLC16A10	6	111543321	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1589101	111543321	59571746	241	64588											
RFX6	222546	broad.mit.edu	37	chr6	117245856	117245856	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcatttgattcgaatgcTtctcgatgaatacattctcc	9	18	5	9	2	3	2	1	2	2	0	6	4	3	2	1	0	2	1	1	0	3	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:117245856T>G	uc003pxm.2	+	15	1643	c.1580T>G	c.(1579-1581)CTT>CGT	p.L527R		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	527					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						ATTCGAATGCTTCTCGATGAA	0.388													6	188					0	0	0.001984	0	0		G	117245856	G	G	117245856	3	3	107	1	0	0	0	0	1	0	0	0	13292	1609	56	5	1638	5	RFX6	6	117245856	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	5702535	117245856	53869211	242	64589											
ROS1	6098	broad.mit.edu	37	chr6	117715842	117715842	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcatctactaaatgttttaAagatctctttcttagagaag	13	17	5	6	0	4	2	1	0	3	2	5	3	4	2	0	0	1	1	0	0	7	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:117715842A>C	uc003pxp.1	-	9	1115	c.916T>G	c.(916-918)TTA>GTA	p.L306V	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	306	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		AAATGTTTTAAAGATCTCTTT	0.348			T	GOPC|ROS1	glioblastoma|NSCLC								4	115					0	0	0.009096	0	0		C	117715842	C	C	117715842	3	2	107	1	0	0	0	0	1	0	0	0	13556	11	1	5	6267	5	ROS1	6	117715842	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	469986	117715842	53399225	243	64590											
DCBLD1	285761	broad.mit.edu	37	chr6	117842710	117842710	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaataacatgtttggaacgAgctagccattatttgaagac	14	13	8	6	1	0	2	0	1	0	1	0	4	0	3	1	1	4	2	1	1	6	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:117842710A>C	uc003pxs.2	+	4	608	c.483A>C	c.(481-483)CGA>CGC	p.R161R	GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxr.1_Silent_p.R161R	NM_173674	NP_775945	Q8N8Z6	DCBD1_HUMAN	discoidin, CUB and LCCL domain containing 1	161	LCCL.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(1)	1		all_cancers(87;0.171)		GBM - Glioblastoma multiforme(226;0.0447)|OV - Ovarian serous cystadenocarcinoma(136;0.0921)|all cancers(137;0.125)		GTTTGGAACGAGCTAGCCATT	0.318													9	82					0	0	0.010729	0	0		C	117842710	C	C	117842710	2	2	107	1	0	0	0	0	0	0	0	1	4283	291	11	5		5	DCBLD1	6	117842710	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	126868	117842710	53272357	244	64591											
L3MBTL3	84456	broad.mit.edu	37	chr6	130407341	130407341	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaggttgtagacaaaaggaaCcctatgtttattagagtagc	14	11	11	5	0	0	2	0	0	0	2	0	4	0	3	1	2	2	4	1	2	8	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:130407341C>T	uc003qbt.2	+	16	1634	c.1464C>T	c.(1462-1464)AAC>AAT	p.N488N	L3MBTL3_uc003qbu.2_Silent_p.N463N	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	488	MBT 3.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		ACAAAAGGAACCCTATGTTTA	0.393													23	342					0	0	0.014323	0	0		T	130407341	T	T	130407341	2	4	107	1	0	0	0	0	0	0	0	1	8609	506	18	4		4	L3MBTL3	6	130407341	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	12564631	130407341	40707726	245	64592											
EPB41L2	2037	broad.mit.edu	37	chr6	131191232	131191232	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccaacctctgcccgcttcTtctcctccactatattcaga	7	13	3	18	1	4	1	1	0	3	1	7	1	6	1	5	0	2	1	5	0	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:131191232T>A	uc003qch.2	-	15	2260	c.2078A>T	c.(2077-2079)AAG>ATG	p.K693M	EPB41L2_uc003qce.1_Missense_Mutation_p.K71M|EPB41L2_uc003qcf.1_Intron|EPB41L2_uc003qcg.1_Intron|EPB41L2_uc011eby.1_Intron|EPB41L2_uc003qci.2_Missense_Mutation_p.K623M|EPB41L2_uc010kfk.2_Intron|EPB41L2_uc010kfl.1_Missense_Mutation_p.K623M|EPB41L2_uc003qcd.1_5'Flank|EPB41L2_uc003qcj.1_Missense_Mutation_p.K90M	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	693					cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		TGCCCGCTTCTTCTCCTCCAC	0.403													18	130					0	0	0.010504	0	0		A	131191232	A	A	131191232	3	1	107	1	0	0	0	0	1	0	0	0	5161	1609	56	5	959	5	EPB41L2	6	131191232	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	783891	131191232	39923835	246	64593											
UTRN	7402	broad.mit.edu	37	chr6	145069618	145069618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgtgggagacttactcattGactcgctgcaggatcacatt	9	11	10	11	2	2	2	2	1	0	1	3	4	2	3	1	2	2	2	1	2	1	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:145069618G>A	uc003qkt.2	+	54	8268	c.8176G>A	c.(8176-8178)GAC>AAC	p.D2726N		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	2726	Spectrin 20.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		CTTACTCATTGACTCGCTGCA	0.443													12	73					0	0	0.024245	0	0		A	145069618	A	A	145069618	3	1	107	1	0	0	0	0	1	0	0	0	17129	1290	45	4	8390	4	UTRN	6	145069618	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	13878386	145069618	26045449	247	64594											
ARID1B	57492	broad.mit.edu	37	chr6	157256693	157256693	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaacttaatacagcaagaaAgaccatcaagtttaccagta	18	9	6	8	0	1	3	1	1	0	2	1	3	1	3	2	0	4	3	2	0	8	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr6:157256693A>G	uc003qqn.2	+	4	1959	c.1807A>G	c.(1807-1809)AGA>GGA	p.R603G	ARID1B_uc003qqo.2_Missense_Mutation_p.R616G|ARID1B_uc003qqp.2_Missense_Mutation_p.R603G|ARID1B_uc003qqq.1_Missense_Mutation_p.R31G	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	661					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		ACAGCAAGAAAGACCATCAAG	0.373													4	139					0	0	0.009096	0	0		G	157256693	G	G	157256693	3	3	107	1	0	0	0	0	1	0	0	0	914	64	3	3	2038	3	ARID1B	6	157256693	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	12187075	157256693	13858374	248	64595											
SUN1	23353	broad.mit.edu	37	chr7	892458	892458	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttttagcaggtctctccTtacggggccagggcaatttc	6	13	10	12	1	2	0	0	0	2	0	5	0	3	0	2	4	2	2	2	4	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:892458T>G	uc011jvp.1	+	10	1001	c.922T>G	c.(922-924)TTA>GTA	p.L308V	GET4_uc003sjj.1_RNA|SUN1_uc003sjf.2_Missense_Mutation_p.L225V|SUN1_uc011jvq.1_Missense_Mutation_p.L205V|SUN1_uc003sjg.2_Missense_Mutation_p.L213V|SUN1_uc011jvr.1_Missense_Mutation_p.L117V|SUN1_uc003sji.2_Missense_Mutation_p.L146V|SUN1_uc003sjk.2_5'UTR	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	335	Helical.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						AGGTCTCTCCTTACGGGGCCA	0.493													5	460					0	0	0.001984	0	0		G	892458	G	G	892458	3	3	107	1	0	0	0	0	1	0	0	0	15416	1606	56	5	1139	5	SUN1	7	892458	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08		892458	158246205	249	64596											
GLCCI1	113263	broad.mit.edu	37	chr7	8125957	8125957	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttctgaccttatgctcaAgaactcccctaactctggcc	8	12	6	15	0	3	2	1	1	2	1	4	2	4	2	4	1	4	2	4	1	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:8125957A>G	uc003srk.2	+	8	1992	c.1433A>G	c.(1432-1434)AAG>AGG	p.K478R		NM_138426	NP_612435	Q86VQ1	GLCI1_HUMAN	glucocorticoid induced transcript 1	478											0		Ovarian(82;0.0608)		UCEC - Uterine corpus endometrioid carcinoma (126;0.206)		CTTATGCTCAAGAACTCCCCT	0.493													42	769					0	0	0.011902	0	0		G	8125957	G	G	8125957	3	3	107	1	0	0	0	0	1	0	0	0	6446	72	3	3	1463	3	GLCCI1	7	8125957	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	7233499	8125957	151012706	250	64597											
DNAH11	8701	broad.mit.edu	37	chr7	21779255	21779255	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatgtcgcctgcatgaatccGatggtgggcagcttcaccat	8	11	11	11	2	1	1	1	1	0	0	3	2	2	1	3	2	2	3	3	2	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:21779255G>A	uc003svc.2	+	49	7930	c.7899G>A	c.(7897-7899)CCG>CCA	p.P2633P		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2633	AAA 3 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GCATGAATCCGATGGTGGGCA	0.423									Kartagener_syndrome				8	136					0	0	0.006214	0	0		A	21779255	A	A	21779255	2	1	107	1	0	0	0	0	0	0	0	1	4605	1045	37	1		1	DNAH11	7	21779255	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	13653298	21779255	137359408	251	64598											
LOC402644	402644	broad.mit.edu	37	chr7	28319254	28319254	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttttctgcaaacagctcaAaggagacgtggtccaagggc	12	8	11	10	1	2	1	1	0	1	1	3	2	3	1	1	3	3	2	1	3	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:28319254A>C	uc010kuz.1	-	1	65	c.65T>G	c.(64-66)TTT>TGT	p.F22C		NM_001126493	NP_001119965			hypothetical protein LOC402644												0						AAACAGCTCAAAGGAGACGTG	0.502													3	120					0	0	0.004672	0	0		C	28319254	C	C	28319254	3	2	107	1	0	0	0	0	1	0	0	0	8896	14	1	5	415	5	LOC402644	7	28319254	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	6539999	28319254	130819409	252	64599											
CRHR2	1395	broad.mit.edu	37	chr7	30693214	30693214	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcctcacggctgagcgCacctgtggggaaggcagagg	7	7	15	12	2	2	2	1	1	1	1	3	3	3	3	2	5	1	3	2	5	1	1	rs143275254		TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:30693214C>T	uc003tbn.2	-	12	1342	c.1098G>A	c.(1096-1098)GTG>GTA	p.V366V	CRHR2_uc010kvw.1_3'UTR|CRHR2_uc010kvx.1_Silent_p.V365V|CRHR2_uc010kvy.1_Silent_p.V202V|CRHR2_uc003tbo.2_Silent_p.V352V|CRHR2_uc003tbp.2_Silent_p.V393V	NM_001883	NP_001874	Q13324	CRFR2_HUMAN	corticotropin releasing hormone receptor 2	366	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(2)|ovary(1)|skin(1)	4						CGGCTGAGCGCACCTGTGGGG	0.647													4	101					0	0	0.009096	0	0		T	30693214	T	T	30693214	2	4	107	1	0	0	0	0	0	0	0	1	3875	697	25	2		2	CRHR2	7	30693214	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	2373960	30693214	128445449	253	64600											
AMPH	273	broad.mit.edu	37	chr7	38530710	38530710	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaaggacccatccacgagTttttgatggaagtcttccca	11	10	9	11	1	1	1	0	1	1	0	3	4	3	3	3	2	1	2	3	2	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:38530710T>G	uc003tgu.2	-	5	405	c.336A>C	c.(334-336)AAA>AAC	p.K112N	AMPH_uc003tgv.2_Missense_Mutation_p.K112N	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	112	BAR.				endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						CATCCACGAGTTTTTGATGGA	0.393													44	396					0	0	0.01441	0	0		G	38530710	G	G	38530710	3	3	107	1	0	0	0	0	1	0	0	0	588	1722	60	5	1819	5	AMPH	7	38530710	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	7837496	38530710	120607953	254	64601											
C7orf36	57002	broad.mit.edu	37	chr7	39612132	39612132	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataatgctgagtttaacaaaAactgtagcaagagccatagt	17	10	8	6	0	0	2	0	1	0	1	0	2	0	2	1	0	5	4	1	0	7	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:39612132A>C	uc003thc.3	+	3	517	c.508A>C	c.(508-510)AAC>CAC	p.N170H		NM_020192	NP_064577	Q9NRH1	CG036_HUMAN	hypothetical protein LOC57002	170											0						GTTTAACAAAAACTGTAGCAA	0.383													3	237					0	0	0.004672	0	0		C	39612132	C	C	39612132	3	2	107	1	0	0	0	0	1	0	0	0	2393	14	1	5	518	5	C7orf36	7	39612132	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1081422	39612132	119526531	255	64602											
INHBA	3624	broad.mit.edu	37	chr7	41739626	41739626	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctccgaggtctgctccataAgttcattcatttctgccctc	6	15	6	14	1	5	0	2	0	3	0	8	1	6	0	3	1	2	2	3	1	1	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:41739626A>G	uc003thq.2	-	1	582	c.347T>C	c.(346-348)CTT>CCT	p.L116P	LOC285954_uc003tht.3_Intron|INHBA_uc003thr.2_Missense_Mutation_p.L116P|LOC285954_uc003ths.2_Intron	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	116					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						CTGCTCCATAAGTTCATTCAT	0.532										TSP Lung(11;0.080)			54	609					0	0	0.01441	0	0		G	41739626	G	G	41739626	3	3	107	1	0	0	0	0	1	0	0	0	7757	72	3	3	941	3	INHBA	7	41739626	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2127494	41739626	117399037	256	64603											
GLI3	2737	broad.mit.edu	37	chr7	42005486	42005486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgggaggacagggggacGagtggaagtttcgggactgg	8	7	21	5	2	0	0	0	0	0	0	1	6	0	5	0	7	1	2	0	7	1	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:42005486G>A	uc011kbh.1	-	15	3276	c.3185C>T	c.(3184-3186)TCG>TTG	p.S1062L	GLI3_uc011kbg.1_Missense_Mutation_p.S1003L	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1062					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						ACAGGGGGACGAGTGGAAGTT	0.637									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				9	78					0	0	0.004482	0	0		A	42005486	A	A	42005486	3	1	107	1	0	0	0	0	1	0	0	0	6454	1059	37	1	1561	1	GLI3	7	42005486	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	265860	42005486	117133177	257	64604											
HECW1	23072	broad.mit.edu	37	chr7	43490478	43490478	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaagccagcttccttcccTgaggcctgaacatcatcact	10	10	7	14	0	2	2	2	2	0	0	4	2	4	2	4	1	3	2	4	1	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:43490478T>G	uc003tid.1	+	12	3055	c.2450T>G	c.(2449-2451)CTG>CGG	p.L817R	HECW1_uc011kbi.1_Intron	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	817					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity	p.R817Q(1)		ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CTTCCTTCCCTGAGGCCTGAA	0.428													4	195					0	0	0.021553	0	0		G	43490478	G	G	43490478	3	3	107	1	0	0	0	0	1	0	0	0	7058	1580	55	5	2488	5	HECW1	7	43490478	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1484992	43490478	115648185	258	64605											
HECW1	23072	broad.mit.edu	37	chr7	43581478	43581478	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcacccaggccctgtgatTtgagtgacctggaatatttg	9	13	10	9	0	1	3	1	3	0	0	1	4	1	4	3	2	0	0	3	2	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:43581478T>G	uc003tid.1	+	26	4734	c.4129T>G	c.(4129-4131)TTG>GTG	p.L1377V	HECW1_uc011kbi.1_Missense_Mutation_p.L1343V	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1377	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GCCCTGTGATTTGAGTGACCT	0.423													11	158					0	0	0.008291	0	0		G	43581478	G	G	43581478	3	3	107	1	0	0	0	0	1	0	0	0	7058	1838	64	5	4223	5	HECW1	7	43581478	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	91000	43581478	115557185	259	64606											
URGCP	55665	broad.mit.edu	37	chr7	43918314	43918314	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccacgctgtcttcccggaAgctccccatgccccttgggg	5	8	11	17	2	1	0	0	0	1	0	3	2	3	1	6	3	2	2	6	3	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:43918314A>G	uc003tiw.2	-	6	805	c.748T>C	c.(748-750)TTC>CTC	p.F250L	URGCP_uc003tiu.2_Missense_Mutation_p.F207L|URGCP_uc003tiv.2_Missense_Mutation_p.F175L|URGCP_uc003tix.2_Missense_Mutation_p.F241L|URGCP_uc003tiy.2_Missense_Mutation_p.F207L|URGCP_uc003tiz.2_Missense_Mutation_p.F207L|URGCP_uc011kbj.1_Missense_Mutation_p.F207L	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	250					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						TCTTCCCGGAAGCTCCCCATG	0.617													7	49					0	0	0.001984	0	0		G	43918314	G	G	43918314	3	3	107	1	0	0	0	0	1	0	0	0	17052	72	3	3	2051	3	URGCP	7	43918314	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	336836	43918314	115220349	260	64607											
ADCY1	107	broad.mit.edu	37	chr7	45688316	45688316	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcggggactgctactactgCgtgtcgggcctcacccagcc	5	8	12	16	3	1	0	1	0	0	0	3	1	1	1	3	3	5	1	3	3	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:45688316C>T	uc003tne.3	+	5	1086	c.1068C>T	c.(1066-1068)TGC>TGT	p.C356C	ADCY1_uc003tnd.2_Silent_p.C131C	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	356	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GCTACTACTGCGTGTCGGGCC	0.577													6	88					0	0	0.021553	0	0		T	45688316	T	T	45688316	2	4	107	1	0	0	0	0	0	0	0	1	292	776	27	1		1	ADCY1	7	45688316	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1770002	45688316	113450347	261	64608											
ABCA13	154664	broad.mit.edu	37	chr7	48311482	48311482	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatcatttgtggaattttTtgagaaattattgttgccta	10	21	7	3	0	1	1	1	1	0	1	1	3	1	2	1	1	1	1	1	1	5	10			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:48311482T>G	uc003toq.2	+	17	2244	c.2219T>G	c.(2218-2220)TTT>TGT	p.F740C	ABCA13_uc010kyr.2_Missense_Mutation_p.F243C	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	740					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GTGGAATTTTTTGAGAAATTA	0.368													6	43					0	0	0.021553	0	0		G	48311482	G	G	48311482	3	3	107	1	0	0	0	0	1	0	0	0	31	1841	64	5	2114	5	ABCA13	7	48311482	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2623166	48311482	110827181	262	64609											
ABCA13	154664	broad.mit.edu	37	chr7	48319313	48319313	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaatggataacttccaCaagaactttgtttcagccac	12	12	6	11	0	2	2	1	1	1	1	3	3	3	3	2	1	3	1	2	1	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:48319313C>A	uc003toq.2	+	18	8547	c.8522C>A	c.(8521-8523)ACA>AAA	p.T2841K	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2841					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ATAACTTCCACAAGAACTTTG	0.353													25	224					4.72057e-08	4.9161e-08	0.021523	1	0		A	48319313	A	A	48319313	3	1	107	1	0	0	0	0	1	0	0	0	31	478	17	5	8421	5	ABCA13	7	48319313	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	7831	48319313	110819350	263	64610											
POM121L12	285877	broad.mit.edu	37	chr7	53104142	53104142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccgtgctggtccagcccGccccatccgccatctgggac	4	8	10	19	3	1	0	0	0	1	0	4	1	4	1	7	2	2	1	7	2	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:53104142G>A	uc003tpz.2	+	1	794	c.778G>A	c.(778-780)GCC>ACC	p.A260T		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	260											0						GGTCCAGCCCGCCCCATCCGC	0.657													10	89					0	0	0.008291	0	0		A	53104142	A	A	53104142	3	1	107	1	0	0	0	0	1	0	0	0	12260	1087	38	1	780	1	POM121L12	7	53104142	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	4784829	53104142	106034521	264	64611											
CHCHD2	51142	broad.mit.edu	37	chr7	56170610	56170610	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattgaaaccctcacagagcTtgatgtcaccctggttctgg	9	11	9	12	0	3	3	2	2	1	1	3	3	3	3	2	2	2	2	2	2	1	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:56170610T>G	uc003tsa.2	-	3	476	c.395A>C	c.(394-396)AAG>ACG	p.K132T	PSPH_uc003trj.2_Intron	NM_016139	NP_057223	Q9Y6H1	CHCH2_HUMAN	coiled-coil-helix-coiled-coil-helix domain	132	CHCH.					mitochondrion					0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CTCACAGAGCTTGATGTCACC	0.498													16	125					0	0	0.024245	0	0		G	56170610	G	G	56170610	3	3	107	1	0	0	0	0	1	0	0	0	3319	1609	56	5	68	5	CHCHD2	7	56170610	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3066468	56170610	102968053	265	64612											
GTF2IRD1	9569	broad.mit.edu	37	chr7	73950527	73950527	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccaaagacaccacgaagcTggagccagccagcccgccag	13	2	10	16	2	0	1	0	0	0	1	0	3	0	2	6	1	5	1	6	1	3	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:73950527T>C	uc003uaq.2	+	11	1724	c.1331T>C	c.(1330-1332)CTG>CCG	p.L444P	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.L476P|GTF2IRD1_uc003uap.2_Missense_Mutation_p.L444P|GTF2IRD1_uc003uar.1_Missense_Mutation_p.L444P	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	444						nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						ACCACGAAGCTGGAGCCAGCC	0.642													5	92					0	0	0.014758	0	0		C	73950527	C	C	73950527	3	2	107	1	0	0	0	0	1	0	0	0	6884	1580	55	3	1369	3	GTF2IRD1	7	73950527	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	17779917	73950527	85188136	266	64613											
NCF1	653361	broad.mit.edu	37	chr7	74193722	74193722	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtccccacctcctcgacTtcttcaaggtgcgccctgat	5	11	8	17	2	2	1	1	1	1	0	5	2	4	1	5	1	1	1	5	1	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:74193722T>G	uc003ubb.2	+	4	419	c.349T>G	c.(349-351)TTC>GTC	p.F117V	NCF1_uc010lbs.1_Missense_Mutation_p.F117V|NCF1_uc011kfh.1_Intron	NM_000265	NP_000256	P14598	NCF1_HUMAN	neutrophil cytosolic factor 1	117	PX.				cell communication|cellular defense response|innate immune response|protein targeting to membrane|respiratory burst|superoxide anion generation	cytosol|NADPH oxidase complex|soluble fraction	electron carrier activity|GTP binding|GTPase activity|phosphatidylinositol binding|SH3 domain binding|superoxide-generating NADPH oxidase activity			skin(1)	1						CCTCCTCGACTTCTTCAAGGT	0.502													5	69					0	0	0.021553	0	0		G	74193722	G	G	74193722	3	3	107	1	0	0	0	0	1	0	0	0	10235	1609	56	5	363	5	NCF1	7	74193722	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	243195	74193722	84944941	267	64614											
AKAP9	10142	broad.mit.edu	37	chr7	91667822	91667822	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatactgcatcatcaaagcaAgcacatgctgtgtgtcagca	14	9	8	10	0	3	0	3	0	0	0	3	0	3	0	0	0	6	5	0	0	4	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:91667822A>C	uc003ulg.2	+	17	4653	c.4428A>C	c.(4426-4428)CAA>CAC	p.Q1476H	AKAP9_uc003ule.2_Missense_Mutation_p.Q1488H|AKAP9_uc003ulf.2_Missense_Mutation_p.Q1476H|AKAP9_uc003uli.2_Missense_Mutation_p.Q1101H	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1488					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CATCAAAGCAAGCACATGCTG	0.338			T	BRAF	papillary thyroid								16	137					0	0	0.028581	0	0		C	91667822	C	C	91667822	3	2	107	1	0	0	0	0	1	0	0	0	459	69	3	5	4494	5	AKAP9	7	91667822	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	17474100	91667822	67470841	268	64615											
AKAP9	10142	broad.mit.edu	37	chr7	91730334	91730334	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaatgactctttacttcaAactctgagccctgattctga	12	13	6	10	0	4	5	1	4	3	1	4	5	4	5	1	0	3	0	1	0	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:91730334A>C	uc003ulg.2	+	45	11286	c.11061A>C	c.(11059-11061)CAA>CAC	p.Q3687H	AKAP9_uc003ulf.2_Missense_Mutation_p.Q3679H|AKAP9_uc003uli.2_Missense_Mutation_p.Q3310H|AKAP9_uc003ulj.2_Missense_Mutation_p.Q1457H|AKAP9_uc003ull.2_Missense_Mutation_p.Q583H	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3691					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CTTTACTTCAAACTCTGAGCC	0.388			T	BRAF	papillary thyroid								8	176					0	0	0.004482	0	0		C	91730334	C	C	91730334	3	2	107	1	0	0	0	0	1	0	0	0	459	11	1	5	11239	5	AKAP9	7	91730334	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	62512	91730334	67408329	269	64616											
SAMD9	54809	broad.mit.edu	37	chr7	92734770	92734770	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaaacctcattgctaaatTtcatcttgacatcctcttct	11	15	4	11	0	5	1	2	1	3	0	6	2	6	2	2	1	2	1	2	1	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:92734770T>G	uc003umf.2	-	3	897	c.641A>C	c.(640-642)AAA>ACA	p.K214T	SAMD9_uc003umg.2_Missense_Mutation_p.K214T	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	214						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			ATTGCTAAATTTCATCTTGAC	0.408													5	389					0	0	0.00308	0	0		G	92734770	G	G	92734770	3	3	107	1	0	0	0	0	1	0	0	0	13851	1841	64	5	4132	5	SAMD9	7	92734770	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1004436	92734770	66403893	270	64617											
SAMD9L	219285	broad.mit.edu	37	chr7	92764157	92764157	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcttcagcctcttttctAgatgctaccagtgactttaa	8	17	5	11	0	5	2	1	1	4	1	5	2	5	2	2	0	3	1	2	0	3	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:92764157A>G	uc003umh.1	-	5	2344	c.1128T>C	c.(1126-1128)TCT>TCC	p.S376S	SAMD9L_uc003umj.1_Silent_p.S376S|SAMD9L_uc003umi.1_Silent_p.S376S|SAMD9L_uc010lfb.1_Silent_p.S376S|SAMD9L_uc003umk.1_Silent_p.S376S|SAMD9L_uc010lfc.1_Silent_p.S376S|SAMD9L_uc010lfd.1_Silent_p.S376S|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	376										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			CCTCTTTTCTAGATGCTACCA	0.423													17	559					0	0	0.008871	0	0		G	92764157	G	G	92764157	2	3	107	1	0	0	0	0	0	0	0	1	13852	407	15	3		3	SAMD9L	7	92764157	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	29387	92764157	66374506	271	64618											
ARPC1B	10095	broad.mit.edu	37	chr7	98985726	98985726	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaccgcaacgcctacgtGtggacgctgaagggccgcac	10	4	13	14	5	0	2	0	1	0	1	0	3	0	3	3	2	2	3	3	2	3	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:98985726G>A	uc003upz.2	+	4	323	c.234G>A	c.(232-234)GTG>GTA	p.V78V	ARPC1A_uc011kit.1_RNA|ARPC1B_uc003uqa.2_Silent_p.V78V|ARPC1B_uc003uqb.2_Silent_p.V78V|ARPC1B_uc003uqc.2_Silent_p.V78V|ARPC1B_uc003uqd.2_5'Flank	NM_005720	NP_005711	O15143	ARC1B_HUMAN	actin related protein 2/3 complex subunit 1B	78	WD 2.				cellular component movement|regulation of actin filament polymerization	Arp2/3 protein complex|cytoplasm	actin binding|structural constituent of cytoskeleton				0	all_cancers(62;3.49e-09)|all_epithelial(64;2.57e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			ACGCCTACGTGTGGACGCTGA	0.642													9	125					0	0	0.013537	0	0		A	98985726	A	A	98985726	2	1	107	1	0	0	0	0	0	0	0	1	971	1364	48	4		4	ARPC1B	7	98985726	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	6221569	98985726	60152937	272	64619											
CYP3A43	64816	broad.mit.edu	37	chr7	99447302	99447302	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattggattttttggatcccTttttactcttaatatgtatg	9	21	6	5	0	1	0	0	0	1	0	2	2	2	2	1	2	1	1	1	2	5	10			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:99447302T>G	uc003urx.1	+	7	758	c.655T>G	c.(655-657)TTT>GTT	p.F219V	CYP3A43_uc003ury.1_Missense_Mutation_p.F219V|CYP3A43_uc003urz.1_Missense_Mutation_p.F219V|CYP3A43_uc003usa.1_RNA|CYP3A43_uc010lgi.1_Intron|CYP3A43_uc003usb.1_Missense_Mutation_p.L81R	NM_057095	NP_476436	Q9HB55	CP343_HUMAN	cytochrome P450, family 3, subfamily A,	219			Missing (in allele CYP3A43*2).		xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)				Cetirizine(DB00341)|Doxycycline(DB00254)	TTTGGATCCCTTTTTACTCTT	0.219													4	130					0	0	0.014758	0	0		G	99447302	G	G	99447302	3	3	107	1	0	0	0	0	1	0	0	0	4182	1609	56	5	681	5	CYP3A43	7	99447302	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	461576	99447302	59691361	273	64620											
MCM7	4176	broad.mit.edu	37	chr7	99693469	99693469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgggagagcagtgcagcaGgtagctgtatgttctgctcc	8	9	14	10	1	1	1	0	0	1	1	2	2	2	1	2	2	5	8	2	2	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:99693469G>A	uc003usw.1	-	11	2033	c.1523C>T	c.(1522-1524)CCT>CTT	p.P508L	MCM7_uc003usv.1_Missense_Mutation_p.P332L|MCM7_uc003usx.1_Missense_Mutation_p.P332L|uc003usy.1_5'Flank|MIR25_hsa-mir-25|MI0000082_5'Flank|uc003usz.1_5'Flank|MIR93_hsa-mir-93|MI0000095_5'Flank|uc003uta.1_5'Flank|MIR106B_hsa-mir-106b|MI0000734_5'Flank	NM_005916	NP_005907	P33993	MCM7_HUMAN	minichromosome maintenance complex component 7	508	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of phosphorylation|response to DNA damage stimulus|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)				Atorvastatin(DB01076)	CAGTGCAGCAGGTAGCTGTAT	0.607													28	218					0	0	0.024334	0	0		A	99693469	A	A	99693469	3	1	107	1	0	0	0	0	1	0	0	0	9410	1000	35	4	656	4	MCM7	7	99693469	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	246167	99693469	59445194	274	64621											
LAMB4	22798	broad.mit.edu	37	chr7	107748104	107748104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgttgagggttcaatatccGagtatttggagtcacaaaca	12	12	10	7	1	2	1	2	1	0	0	3	3	3	2	1	2	1	3	1	2	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:107748104G>A	uc010ljo.1	-	6	647	c.563C>T	c.(562-564)TCG>TTG	p.S188L	LAMB4_uc003vey.2_Missense_Mutation_p.S188L	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	188	Laminin N-terminal.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						TTCAATATCCGAGTATTTGGA	0.348													25	97					0	0	0.01892	0	0		A	107748104	A	A	107748104	3	1	107	1	0	0	0	0	1	0	0	0	8629	1059	37	1	4838	1	LAMB4	7	107748104	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	8054635	107748104	51390559	275	64622											
CFTR	1080	broad.mit.edu	37	chr7	117235072	117235072	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactgtccacaagagcttaaTttttgtgctaatttggtgct	9	17	8	7	0	0	1	0	0	0	1	1	1	1	1	1	1	4	3	1	1	4	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:117235072T>G	uc003vjd.2	+	15	2711	c.2579T>G	c.(2578-2580)ATT>AGT	p.I860S	CFTR_uc011knq.1_Missense_Mutation_p.I266S	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	860	Helical; Name=7; (Potential).|ABC transmembrane type-1 2.				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	AAGAGCTTAATTTTTGTGCTA	0.338									Cystic_Fibrosis				3	148					0	0	0.004672	0	0		G	117235072	G	G	117235072	3	3	107	1	0	0	0	0	1	0	0	0	3297	1493	52	5	2637	5	CFTR	7	117235072	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	9486968	117235072	41903591	276	64623											
CFTR	1080	broad.mit.edu	37	chr7	117243768	117243768	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaatcacagtgtcgaaaaTtttacaccacaaaatgttac	16	12	4	9	1	2	0	1	0	1	0	3	1	2	0	1	0	2	1	1	0	7	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:117243768T>G	uc003vjd.2	+	17	2972	c.2840T>G	c.(2839-2841)ATT>AGT	p.I947S	CFTR_uc011knq.1_Missense_Mutation_p.I353S	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	947	Cytoplasmic (Potential).|ABC transmembrane type-1 2.				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	GTGTCGAAAATTTTACACCAC	0.403									Cystic_Fibrosis				5	284					0	0	0.014758	0	0		G	117243768	G	G	117243768	3	3	107	1	0	0	0	0	1	0	0	0	3297	1493	52	5	2906	5	CFTR	7	117243768	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	8696	117243768	41894895	277	64624											
WNT16	51384	broad.mit.edu	37	chr7	120965524	120965524	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaggggcttctcaaaagAcctccctatggtgggttttg	8	12	11	10	0	2	1	2	0	1	1	4	1	3	1	2	4	0	2	2	4	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:120965524A>G	uc003vjv.2	+	1	104	c.55A>G	c.(55-57)ACC>GCC	p.T19A		NM_016087	NP_057171	Q9UBV4	WNT16_HUMAN	wingless-type MMTV integration site family,	Error:Variant_position_missing_in_Q9UBV4_after_alignment					anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|keratinocyte differentiation|keratinocyte proliferation|negative regulation of cell death|optic cup formation involved in camera-type eye development|oxidative stress-induced premature senescence|positive regulation of gene expression|positive regulation of JNK cascade|positive regulation of phosphatidylinositol 3-kinase cascade|replicative senescence|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			lung(2)|ovary(2)|large_intestine(1)	5	all_neural(327;0.117)					TTCTCAAAAGACCTCCCTATG	0.448													10	264					0	0	0.008291	0	0		G	120965524	G	G	120965524	3	3	107	1	0	0	0	0	1	0	0	0	17411	275	10	3	57	3	WNT16	7	120965524	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3721756	120965524	38173139	278	64625											
FEZF1	389549	broad.mit.edu	37	chr7	121942244	121942244	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgcttcttgaggtcaaagTtcctgcagaaacccttgccg	9	11	9	12	1	2	2	1	1	1	1	3	2	3	2	3	1	4	3	3	1	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:121942244T>G	uc003vkd.2	-	4	1309	c.1235A>C	c.(1234-1236)AAC>ACC	p.N412T	FEZF1_uc003vkc.2_Missense_Mutation_p.N362T|uc010lko.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	412	C2H2-type 6.				cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						GAGGTCAAAGTTCCTGCAGAA	0.542													5	176					0	0	0.021553	0	0		G	121942244	G	G	121942244	3	3	107	1	0	0	0	0	1	0	0	0	5839	1725	60	5	196	5	FEZF1	7	121942244	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	976720	121942244	37196419	279	64626											
LMOD2	442721	broad.mit.edu	37	chr7	123302476	123302476	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaaacgtcgagtccaactTcataacgggaaaggggatcc	13	7	11	10	4	1	0	1	0	0	0	4	3	3	2	2	3	3	1	2	3	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:123302476T>C	uc003vky.2	+	2	993	c.836T>C	c.(835-837)TTC>TCC	p.F279S		NM_207163	NP_997046	Q6P5Q4	LMOD2_HUMAN	leiomodin 2 (cardiac)	279						cytoskeleton	actin binding|tropomyosin binding				0						GAGTCCAACTTCATAACGGGA	0.547													4	142					0	0	0.009096	0	0		C	123302476	C	C	123302476	3	2	107	1	0	0	0	0	1	0	0	0	8874	1783	62	3	842	3	LMOD2	7	123302476	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1360232	123302476	35836187	280	64627											
PAX4	5078	broad.mit.edu	37	chr7	127253104	127253104	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcatttcccacttgagcttCtcttgccgacgccatttggc	5	14	8	14	2	1	1	0	1	1	0	3	2	2	1	3	1	3	2	3	1	0	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:127253104C>T	uc010lld.1	-	6	869	c.663G>A	c.(661-663)GAG>GAA	p.E221E	PAX4_uc003vmf.2_Silent_p.E219E|PAX4_uc003vmg.1_Silent_p.E221E|PAX4_uc003vmh.2_Silent_p.E219E	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	229	Homeobox.				cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ACTTGAGCTTCTCTTGCCGAC	0.448													30	68					0	0	0.015359	0	0		T	127253104	T	T	127253104	2	4	107	1	0	0	0	0	0	0	0	1	11500	912	32	4		4	PAX4	7	127253104	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	3950628	127253104	31885559	281	64628											
PLXNA4	91584	broad.mit.edu	37	chr7	131815261	131815261	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtctaagctcatgagggTtatgacttgttctagtttgt	7	17	11	6	0	3	2	1	2	2	0	3	2	3	2	0	1	1	5	0	1	3	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:131815261T>G	uc003vra.3	-	32	5891	c.5662A>C	c.(5662-5664)ACC>CCC	p.T1888P	PLXNA4_uc003vqz.3_Missense_Mutation_p.T173P	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1888	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CTCATGAGGGTTATGACTTGT	0.532													48	176					0	0	0.01441	0	0		G	131815261	G	G	131815261	3	3	107	1	0	0	0	0	1	0	0	0	12141	1725	60	5	26	5	PLXNA4	7	131815261	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	4562157	131815261	27323402	282	64629											
ATP6V0A4	50617	broad.mit.edu	37	chr7	138455901	138455901	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactgaaccaatccgagcTctccgagctcagccacacag	12	6	8	15	2	2	2	1	2	1	0	4	4	3	2	4	0	5	2	4	0	3	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:138455901T>C	uc003vuf.2	-	2	330	c.92A>G	c.(91-93)GAG>GGG	p.E31G	ATP6V0A4_uc003vug.2_Missense_Mutation_p.E31G|ATP6V0A4_uc003vuh.2_Missense_Mutation_p.E31G	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	31	Cytoplasmic (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						CAATCCGAGCTCTCCGAGCTC	0.478													41	514					0	0	0.01441	0	0		C	138455901	C	C	138455901	3	2	107	1	0	0	0	0	1	0	0	0	1171	1551	54	3	2510	3	ATP6V0A4	7	138455901	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	6640640	138455901	20682762	283	64630											
LUC7L2	51631	broad.mit.edu	37	chr7	139092001	139092001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtctgctctgcctatttaGgacttcatgataatgacaga	12	13	8	8	0	3	3	1	2	2	1	3	4	3	4	1	1	2	1	1	1	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:139092001G>A	uc003vux.2	+	6	966	c.592G>A	c.(592-594)GGA>AGA	p.G198R	LUC7L2_uc011kqs.1_Missense_Mutation_p.G195R|LUC7L2_uc011kqt.1_Missense_Mutation_p.G264R|LUC7L2_uc003vuy.2_Missense_Mutation_p.G197R|LUC7L2_uc003vuz.1_Missense_Mutation_p.G145R|LUC7L2_uc003vva.2_Missense_Mutation_p.G145R	NM_016019	NP_057103	Q9Y383	LC7L2_HUMAN	LUC7-like 2	198	C2H2-type; atypical.						enzyme binding|metal ion binding				0	Melanoma(164;0.242)					TGCCTATTTAGGACTTCATGA	0.398													15	196					0	0	0.024245	0	0		A	139092001	A	A	139092001	3	1	107	1	0	0	0	0	1	0	0	0	9101	1001	35	4	614	4	LUC7L2	7	139092001	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	636100	139092001	20046662	284	64631											
BRAF	673	broad.mit.edu	37	chr7	140453134	140453134	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacccactccatcgagattTcactgtagctagaccaaaat	13	9	7	12	1	1	2	1	0	0	2	3	4	2	3	3	1	1	2	3	1	4	3	rs121913377		TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:140453134T>C	uc003vwc.3	-	15	1862	c.1801A>G	c.(1801-1803)AAA>GAA	p.K601E		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	601	Protein kinase.		K -> Q (in CFC syndrome).|K -> E (in colorectal cancer).		activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.K601E(47)|p.V600_K601>E(8)|p.K601N(7)|p.K601del(4)|p.K601Q(3)|p.T599_R603>I(2)|p.V600_W604del(1)|p.K601K(1)|p.K601L(1)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.K601I(1)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	CATCGAGATTTCACTGTAGCT	0.368		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				19	150					0	0	0.008871	0	0		C	140453134	C	C	140453134	3	2	107	1	0	0	0	0	1	0	0	0	1499	1792	62	3	515	3	BRAF	7	140453134	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1361133	140453134	18685529	285	64632											
TAS2R5	54429	broad.mit.edu	37	chr7	141491039	141491039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtggaagacagtgtgtgCtcggagatgctggggcccat	7	9	16	9	1	0	2	0	0	0	2	1	4	0	3	2	4	2	2	2	4	1	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:141491039C>T	uc003vwr.1	+	1	1023	c.878C>T	c.(877-879)GCT>GTT	p.A293V		NM_018980	NP_061853	Q9NYW4	TA2R5_HUMAN	taste receptor T2R5	293	Cytoplasmic (Potential).				chemosensory behavior|sensory perception of taste		taste receptor activity				0	Melanoma(164;0.0171)					ACAGTGTGTGCTCGGAGATGC	0.493													6	220					0	0	0.021553	0	0		T	141491039	T	T	141491039	3	4	107	1	0	0	0	0	1	0	0	0	15608	797	28	2	880	2	TAS2R5	7	141491039	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1037905	141491039	17647624	286	64633											
PRSS1	5644	broad.mit.edu	37	chr7	142460771	142460771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acagctccaaggagttgtctCctggggtgatggctgtgccc	6	10	14	11	0	1	1	0	1	1	0	3	2	2	2	3	4	2	3	3	4	1	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:142460771C>T	uc003wak.2	+	5	661	c.644C>T	c.(643-645)TCC>TTC	p.S215F	uc011krr.1_Intron|uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|TRY6_uc011ksn.1_Intron|PRSS1_uc003wam.2_Missense_Mutation_p.S155F	NM_002769	NP_002760	P07477	TRY1_HUMAN	protease, serine, 1 preproprotein	215	Peptidase S1.				digestion|proteolysis	extracellular space	metal ion binding|protein binding|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)			GGAGTTGTCTCCTGGGGTGAT	0.502									Hereditary_Pancreatitis				7	207					0	0	0.001984	0	0		T	142460771	T	T	142460771	3	4	107	1	0	0	0	0	1	0	0	0	12636	855	30	4	662	4	PRSS1	7	142460771	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	969732	142460771	16677892	287	64634											
ZNF425	155054	broad.mit.edu	37	chr7	148801048	148801048	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgccgcacatcacacaagAgaatggcttttggccactgt	10	11	9	11	1	1	1	1	0	0	1	1	2	1	1	2	2	1	2	2	2	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:148801048A>T	uc003wfj.2	-	4	1988	c.1915T>A	c.(1915-1917)TCT>ACT	p.S639T		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	639	C2H2-type 16.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			ATCACACAAGAGAATGGCTTT	0.537													27	327					0	0	0.00632	0	0		T	148801048	T	T	148801048	3	4	107	1	0	0	0	0	1	0	0	0	17924	304	11	5	347	5	ZNF425	7	148801048	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	6340277	148801048	10337615	288	64635											
MLL3	58508	broad.mit.edu	37	chr7	151860106	151860106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccaacagggattgatggtGaatcaggaacaaatgaagga	16	8	12	5	0	1	3	1	3	0	0	2	6	2	6	1	4	2	0	1	4	5	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr7:151860106G>A	uc003wla.2	-	43	10775	c.10556C>T	c.(10555-10557)TCA>TTA	p.S3519L	MLL3_uc003wkz.2_Missense_Mutation_p.S2580L|MLL3_uc003wky.2_Missense_Mutation_p.S1028L	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3519					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GATTGATGGTGAATCAGGAAC	0.468			N		medulloblastoma								5	373					0	0	0.014758	0	0		A	151860106	A	A	151860106	3	1	107	1	0	0	0	0	1	0	0	0	9640	1294	45	4	4247	4	MLL3	7	151860106	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	3059058	151860106	7278557	289	64636											
MYOM2	9172	broad.mit.edu	37	chr8	2063895	2063895	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctagttcttattggagaTggtatgctatatcgaatatt	10	18	8	5	1	2	1	0	0	2	1	4	3	2	1	0	2	1	3	0	2	7	9			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:2063895T>A	uc003wpx.3	+	26	3462	c.3324T>A	c.(3322-3324)GAT>GAA	p.D1108E	MYOM2_uc011kwi.1_Missense_Mutation_p.D533E	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1108					muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		TTATTGGAGATGGTATGCTAT	0.343													22	120					0	0	0.01892	0	0		A	2063895	A	A	2063895	3	1	107	1	0	0	0	0	1	0	0	0	10110	1478	51	5	3422	5	MYOM2	8	2063895	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08		2063895	144300127	290	64637											
XKR6	286046	broad.mit.edu	37	chr8	10755462	10755462	+	Nonstop_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaacttggtcaagatgctcTtagagtgaagactcatactg	12	12	9	8	0	4	4	3	1	1	3	4	4	4	4	0	1	3	1	0	1	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:10755462T>G	uc003wtk.1	-	3	1953	c.1926A>C	c.(1924-1926)TAA>TAC	p.*642Y		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	642						integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		CAAGATGCTCTTAGAGTGAAG	0.448													21	131					0	0	0.01892	0	0		G	10755462	G	G	10755462	4	3	107	1	0	0	0	0	0	0	0	0	17461	1616	56	5	3	5	XKR6	8	10755462	Nonstop_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	8691567	10755462	135608560	291	64638											
FBXO16	157574	broad.mit.edu	37	chr8	28340913	28340913	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtccaggtgctcatcttTgtctgcattttgggaccatc	5	15	11	10	0	3	0	1	0	2	0	5	1	4	1	2	3	2	2	2	3	0	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:28340913T>A	uc003xgu.2	-	2	149	c.51A>T	c.(49-51)ACA>ACT	p.T17T	ZNF395_uc003xgt.2_5'UTR|FBXO16_uc003xgv.2_Silent_p.T16T|FBXO16_uc003xgw.2_Silent_p.T16T	NM_172366	NP_758954	Q8IX29	FBX16_HUMAN	F-box only protein 16	17										ovary(1)	1		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.121)|Kidney(114;0.144)|Colorectal(74;0.249)		TGCTCATCTTTGTCTGCATTT	0.398													8	313					0	0	0.006214	0	0		A	28340913	A	A	28340913	2	1	107	1	0	0	0	0	0	0	0	1	5743	1799	63	5		5	FBXO16	8	28340913	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	17585451	28340913	118023109	292	64639											
WHSC1L1	54904	broad.mit.edu	37	chr8	38146168	38146168	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacattctgttcaggcacTccgattccaagccacaaggg	11	8	9	13	1	2	0	1	0	1	0	4	1	4	0	3	2	2	3	3	2	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:38146168T>C	uc003xli.2	-	19	3856	c.3338A>G	c.(3337-3339)GAG>GGG	p.E1113G	WHSC1L1_uc011lbm.1_Missense_Mutation_p.E1113G|WHSC1L1_uc010lwe.2_Missense_Mutation_p.E1064G	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1113	AWS.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			GTTCAGGCACTCCGATTCCAA	0.498			T	NUP98	AML								3	117					0	0	0.014758	0	0		C	38146168	C	C	38146168	3	2	107	1	0	0	0	0	1	0	0	0	17389	1551	54	3	999	3	WHSC1L1	8	38146168	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	9805255	38146168	108217854	293	64640											
KCNB2	9312	broad.mit.edu	37	chr8	73848915	73848915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggagggaggctcttgagcGggccaaaaggaacggaagca	14	3	17	7	2	1	1	0	1	1	0	1	5	1	5	1	6	3	2	1	6	5	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:73848915G>A	uc003xzb.2	+	3	1913	c.1325G>A	c.(1324-1326)CGG>CAG	p.R442Q		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	442	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			GCTCTTGAGCGGGCCAAAAGG	0.448													26	144					0	0	0.021523	0	0		A	73848915	A	A	73848915	3	1	107	1	0	0	0	0	1	0	0	0	8029	1116	39	1	1331	1	KCNB2	8	73848915	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	35702747	73848915	72515107	294	64641											
MATN2	4147	broad.mit.edu	37	chr8	99030226	99030226	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctctcctgtcttcagggaaAgatgtctgccaagctataga	10	11	10	10	0	4	2	1	0	3	2	5	3	4	3	2	1	2	2	2	1	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:99030226A>G	uc003yic.2	+	12	1932	c.1701A>G	c.(1699-1701)AAA>AAG	p.K567K	MATN2_uc010mbh.1_Silent_p.K526K|MATN2_uc003yid.2_Silent_p.K567K|MATN2_uc003yie.1_Silent_p.K567K|MATN2_uc010mbi.1_Silent_p.K400K|MATN2_uc010mbj.1_Silent_p.K66K	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	567	EGF-like 9.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			CTTCAGGGAAAGATGTCTGCC	0.483													59	468					0	0	0.01441	0	0		G	99030226	G	G	99030226	2	3	107	1	0	0	0	0	0	0	0	1	9352	69	3	3		3	MATN2	8	99030226	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	25181311	99030226	47333796	295	64642											
RIMS2	9699	broad.mit.edu	37	chr8	105026758	105026758	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catcctcgtactgggtctgtCcagacaagcccatcaagtac	10	9	8	14	1	2	1	1	0	1	1	5	1	4	1	3	1	3	2	3	1	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:105026758C>T	uc003yls.2	+	17	2710	c.2469C>T	c.(2467-2469)GTC>GTT	p.V823V	RIMS2_uc003ylp.2_Silent_p.V1083V|RIMS2_uc003ylw.2_Silent_p.V897V|RIMS2_uc003ylq.2_Silent_p.V897V|RIMS2_uc003ylr.2_Silent_p.V922V	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1145					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CTGGGTCTGTCCAGACAAGCC	0.413										HNSCC(12;0.0054)			4	67					0	0	0.009096	0	0		T	105026758	T	T	105026758	2	4	107	1	0	0	0	0	0	0	0	1	13393	842	30	4		4	RIMS2	8	105026758	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	5996532	105026758	41337264	296	64643											
TM7SF4	81501	broad.mit.edu	37	chr8	105361784	105361784	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagcttgccagggtttgAggttcacttgaaactgcacg	10	11	11	9	1	2	2	2	2	0	0	2	2	2	2	1	2	4	4	1	2	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:105361784A>G	uc003ylx.1	+	2	1053	c.1004A>G	c.(1003-1005)GAG>GGG	p.E335G		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	335					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CCAGGGTTTGAGGTTCACTTG	0.363													39	290					0	0	0.021022	0	0		G	105361784	G	G	105361784	3	3	107	1	0	0	0	0	1	0	0	0	16001	304	11	3	1006	3	TM7SF4	8	105361784	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	335026	105361784	41002238	297	64644											
EBAG9	9166	broad.mit.edu	37	chr8	110569190	110569190	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaagaagagagaaccattGaattttggcatcccagatgg	15	10	10	6	0	0	5	0	1	0	4	1	6	1	5	2	2	1	1	2	2	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:110569190G>T	uc003ynf.2	+	5	583	c.348G>T	c.(346-348)TTG>TTT	p.L116F	EBAG9_uc010mcn.1_RNA|EBAG9_uc003yng.2_Missense_Mutation_p.L116F	NM_198120	NP_936056	O00559	RCAS1_HUMAN	estrogen receptor binding site associated	116	Cytoplasmic (Potential).				apoptosis|regulation of cell growth	focal adhesion|Golgi membrane|integral to membrane|soluble fraction	apoptotic protease activator activity				0			OV - Ovarian serous cystadenocarcinoma(57;1.39e-14)			GAGAACCATTGAATTTTGGCA	0.328													4	88					1.23904e-05	1.27714e-05	0.014758	1	0		T	110569190	T	T	110569190	3	4	107	1	0	0	0	0	1	0	0	0	4885	1281	45	5	362	5	EBAG9	8	110569190	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	5207406	110569190	35794832	298	64645											
KLHL38	340359	broad.mit.edu	37	chr8	124664441	124664441	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcatgcaggcgaggactgCaggagggcatcgttggcgat	8	7	18	8	3	0	0	0	0	0	0	1	4	0	2	0	6	2	5	0	6	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:124664441C>A	uc003yqs.1	-	1	750	c.726G>T	c.(724-726)CTG>CTT	p.L242L		NM_001081675	NP_001075144	Q2WGJ6	KLH38_HUMAN	kelch-like 38	242											0						GCGAGGACTGCAGGAGGGCAT	0.557													8	112					2.74318e-10	2.87809e-10	0.006214	1	0		A	124664441	A	A	124664441	2	1	107	1	0	0	0	0	0	0	0	1	8406	697	25	5		5	KLHL38	8	124664441	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	14095251	124664441	21699581	299	64646											
FAM91A1	157769	broad.mit.edu	37	chr8	124801950	124801950	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgtcataacaaagatctagTtgcgcaaactgcacagccag	14	7	9	11	2	2	1	1	0	1	1	2	1	2	1	1	0	5	3	1	0	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:124801950T>G	uc003yqv.2	+	15	1437	c.1376T>G	c.(1375-1377)GTT>GGT	p.V459G	FAM91A1_uc011lik.1_Missense_Mutation_p.V459G|FAM91A1_uc011lil.1_Missense_Mutation_p.V217G	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769	459										ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			AAAGATCTAGTTGCGCAAACT	0.348													25	113					0	0	0.016522	0	0		G	124801950	G	G	124801950	3	3	107	1	0	0	0	0	1	0	0	0	5665	1725	60	5	1434	5	FAM91A1	8	124801950	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	137509	124801950	21562072	300	64647											
FER1L6	654463	broad.mit.edu	37	chr8	124985675	124985675	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctctctctctcctcaggTctttcaccacaagctgatag	7	13	6	15	0	5	1	2	1	3	0	8	1	6	1	2	1	2	2	2	1	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:124985675T>C	uc003yqw.2	+	7	655	c.449T>C	c.(448-450)GTC>GCC	p.V150A		NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	150	C2 1.|Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TCTCCTCAGGTCTTTCACCAC	0.493													16	107					0	0	0.006122	0	0		C	124985675	C	C	124985675	3	2	107	1	0	0	0	0	1	0	0	0	5829	1681	58	3	471	3	FER1L6	8	124985675	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	183725	124985675	21378347	301	64648											
BAI1	575	broad.mit.edu	37	chr8	143623495	143623495	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcccggcgggcccctgccCgacttccccaaccactcact	6	7	7	21	3	1	0	1	0	0	0	3	1	3	0	7	2	2	0	7	2	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr8:143623495C>T	uc003ywm.2	+	27	4083	c.3900C>T	c.(3898-3900)CCC>CCT	p.P1300P		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1300	Cytoplasmic (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GGCCCCTGCCCGACTTCCCCA	0.647													6	39					0	0	0.001984	0	0		T	143623495	T	T	143623495	2	4	107	1	0	0	0	0	0	0	0	1	1299	639	23	1		1	BAI1	8	143623495	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	18637820	143623495	2740527	302	64649											
PTPRD	5789	broad.mit.edu	37	chr9	8521506	8521506	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctggcatgatttcatgAttagtgggtgggatagagaa	10	11	14	6	1	1	3	1	2	0	1	1	5	1	4	2	3	0	1	2	3	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:8521506A>T	uc003zkk.2	-	19	1443	c.732T>A	c.(730-732)AAT>AAA	p.N244K	PTPRD_uc003zkp.2_Missense_Mutation_p.N244K|PTPRD_uc003zkq.2_Missense_Mutation_p.N244K|PTPRD_uc003zkr.2_Missense_Mutation_p.N238K|PTPRD_uc003zks.2_Missense_Mutation_p.N234K|PTPRD_uc003zkl.2_Missense_Mutation_p.N244K|PTPRD_uc003zkm.2_Missense_Mutation_p.N231K|PTPRD_uc003zkn.2_Missense_Mutation_p.N244K|PTPRD_uc003zko.2_Missense_Mutation_p.N241K	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	244	Extracellular (Potential).|Ig-like C2-type 3.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TGATTTCATGATTAGTGGGTG	0.453										TSP Lung(15;0.13)			13	113					0	0	0.020292	0	0		T	8521506	T	T	8521506	3	4	107	1	0	0	0	0	1	0	0	0	12824	330	12	5	5182	5	PTPRD	9	8521506	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08		8521506	132691925	303	64650											
NFIB	4781	broad.mit.edu	37	chr9	14307364	14307364	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgatttcaggcttttcactGagaagctcatctttgactgc	8	16	8	9	0	4	3	3	3	1	1	4	4	4	3	0	1	2	2	0	1	1	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:14307364G>A	uc003zle.2	-	2	621	c.186C>T	c.(184-186)CTC>CTT	p.L62L	NFIB_uc003zlf.2_Silent_p.L62L|NFIB_uc011lmo.1_Silent_p.L62L	NM_005596	NP_005587	O00712	NFIB_HUMAN	nuclear factor I/B	62	CTF/NF-I.				anterior commissure morphogenesis|chondrocyte differentiation|Clara cell differentiation|commissural neuron axon guidance|DNA replication|glial cell differentiation|lung ciliated cell differentiation|negative regulation of DNA binding|negative regulation of epithelial cell proliferation involved in lung morphogenesis|negative regulation of mesenchymal cell proliferation involved in lung development|positive regulation of transcription from RNA polymerase II promoter|principal sensory nucleus of trigeminal nerve development|Type I pneumocyte differentiation|Type II pneumocyte differentiation	cerebellar mossy fiber|nucleolus|nucleus	RNA polymerase II transcription corepressor activity|sequence-specific DNA binding RNA polymerase II transcription factor activity				0				GBM - Glioblastoma multiforme(50;4.4e-08)|LUAD - Lung adenocarcinoma(58;0.119)|Lung(218;0.164)		GCTTTTCACTGAGAAGCTCAT	0.458			T	MYB|HGMA2	adenoid cystic carcinoma|lipoma								28	167					0	0	0.008361	0	0		A	14307364	A	A	14307364	2	1	107	1	0	0	0	0	0	0	0	1	10390	1277	45	4		4	NFIB	9	14307364	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	5785858	14307364	126906067	304	64651											
PTPLAD2	401494	broad.mit.edu	37	chr9	21029331	21029331	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatctgactgtcatatttgtAaatatccaagagtggccaca	14	12	7	8	0	2	2	1	1	1	1	3	2	3	2	2	1	0	1	2	1	6	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:21029331A>G	uc010miq.1	-	2	151	c.105T>C	c.(103-105)TTT>TTC	p.F35F	PTPLAD2_uc003zoj.1_5'UTR|PTPLAD2_uc010mir.1_Silent_p.F35F	NM_001010915	NP_001010915	Q5VWC8	HACD4_HUMAN	protein tyrosine phosphatase-like A domain	35	Helical; (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	lyase activity			skin(1)	1				Lung(24;6.02e-14)|LUSC - Lung squamous cell carcinoma(38;1.29e-10)		TCATATTTGTAAATATCCAAG	0.313													6	202					0	0	0.021553	0	0		G	21029331	G	G	21029331	2	3	107	1	0	0	0	0	0	0	0	1	12799	359	13	3		3	PTPLAD2	9	21029331	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	6721967	21029331	120184100	305	64652											
IFNA5	3442	broad.mit.edu	37	chr9	21304795	21304795	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtatttcttctctgtcAgatagagggtgattctttga	7	17	11	6	0	4	4	1	2	3	2	5	4	4	4	0	2	0	2	0	2	2	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:21304795A>G	uc011lnh.1	-	1	461	c.461T>C	c.(460-462)CTG>CCG	p.L154P		NM_002169	NP_002160	P01569	IFNA5_HUMAN	interferon, alpha 5 precursor	154					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding			ovary(1)	1				Lung(24;2.34e-24)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		CTTCTCTGTCAGATAGAGGGT	0.438													25	556					0	0	0.01892	0	0		G	21304795	G	G	21304795	3	3	107	1	0	0	0	0	1	0	0	0	7556	188	7	3	112	3	IFNA5	9	21304795	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	275464	21304795	119908636	306	64653											
UBAP2	55833	broad.mit.edu	37	chr9	33943446	33943446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cttcgaatacaagctgatggGaatctgattactattttcac	12	14	7	8	1	2	2	1	2	1	0	3	4	2	3	0	1	3	1	0	1	6	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:33943446G>A	uc003ztq.1	-	15	1800	c.1687C>T	c.(1687-1689)CCC>TCC	p.P563S	UBAP2_uc011loc.1_Missense_Mutation_p.P472S|UBAP2_uc011lod.1_Missense_Mutation_p.P296S|UBAP2_uc011loe.1_Missense_Mutation_p.P318S|UBAP2_uc011lof.1_Missense_Mutation_p.P488S|UBAP2_uc011log.1_Missense_Mutation_p.P509S|UBAP2_uc003ztr.2_Missense_Mutation_p.P435S|UBAP2_uc003zts.2_Missense_Mutation_p.P196S	NM_018449	NP_060919	Q5T6F2	UBAP2_HUMAN	ubiquitin associated protein 2	563										ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)		AAGCTGATGGGAATCTGATTA	0.393													4	168					0	0	0.009096	0	0		A	33943446	A	A	33943446	3	1	107	1	0	0	0	0	1	0	0	0	16863	1174	41	4	1732	4	UBAP2	9	33943446	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	12638651	33943446	107269985	307	64654											
TMEM8B	51754	broad.mit.edu	37	chr9	35846984	35846984	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctacaccttcaccatgttcTtctccacggtatgcggtggt	6	14	8	13	2	4	0	1	0	3	0	5	0	4	0	3	3	2	2	3	3	2	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:35846984T>G	uc003zym.2	+	11	1826	c.811T>G	c.(811-813)TTC>GTC	p.F271V	TMEM8B_uc003zyk.2_Missense_Mutation_p.F271V|TMEM8B_uc003zyl.2_Missense_Mutation_p.F438V|TMEM8B_uc003zyn.2_Missense_Mutation_p.L166R|TMEM8B_uc003zyo.2_Missense_Mutation_p.F271V	NM_001042589	NP_001036054	A6NDV4	TMM8B_HUMAN	transmembrane protein 8B isoform a	271	Helical; (Potential).				cell-matrix adhesion|regulation of growth|regulation of mitotic cell cycle	cell surface|endoplasmic reticulum|integral to membrane|mitochondrion|nucleus|plasma membrane	protein binding			ovary(1)	1						CACCATGTTCTTCTCCACGGT	0.547													5	257					0	0	0.014758	0	0		G	35846984	G	G	35846984	3	3	107	1	0	0	0	0	1	0	0	0	16240	1609	56	5	829	5	TMEM8B	9	35846984	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1903538	35846984	105366447	308	64655											
RECK	8434	broad.mit.edu	37	chr9	36112368	36112368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgggcgcacttaccccaGtgcctgcattgctcgctgtg	6	10	12	13	2	0	0	0	0	0	0	1	1	0	0	3	1	4	4	3	1	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:36112368G>A	uc003zyv.2	+	16	2041	c.1955G>A	c.(1954-1956)AGT>AAT	p.S652N	RECK_uc003zyw.2_Missense_Mutation_p.S524N|RECK_uc003zyx.2_RNA	NM_021111	NP_066934	O95980	RECK_HUMAN	RECK protein precursor	652	Kazal-like 1.					anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)			ACTTACCCCAGTGCCTGCATT	0.488													10	141					0	0	0.010729	0	0		A	36112368	A	A	36112368	3	1	107	1	0	0	0	0	1	0	0	0	13225	1029	36	4	2017	4	RECK	9	36112368	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	265384	36112368	105101063	309	64656											
ZCCHC7	84186	broad.mit.edu	37	chr9	37356915	37356915	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaacccccaccatgatataAggaagggccgtgcctcatgg	12	6	11	12	1	1	2	1	1	0	1	1	3	1	3	5	3	2	0	5	3	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:37356915A>G	uc003zzq.2	+	9	1455	c.1282A>G	c.(1282-1284)AGG>GGG	p.R428G	ZCCHC7_uc011lqh.1_Missense_Mutation_p.R138G|ZCCHC7_uc011lqi.1_Missense_Mutation_p.R427G|ZCCHC7_uc010mlt.2_Missense_Mutation_p.R427G	NM_032226	NP_115602	Q8N3Z6	ZCHC7_HUMAN	zinc finger, CCHC domain containing 7	428							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.0137)		CCATGATATAAGGAAGGGCCG	0.398													5	93					0	0	0.014758	0	0		G	37356915	G	G	37356915	3	3	107	1	0	0	0	0	1	0	0	0	17618	63	3	3	1312	3	ZCCHC7	9	37356915	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1244547	37356915	103856516	310	64657											
ZNF658	26149	broad.mit.edu	37	chr9	40784134	40784134	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctggttcaggaattcatCttctaaagaccatggctctt	9	14	7	11	0	6	1	2	0	4	1	6	2	6	2	2	3	0	2	2	3	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:40784134C>A	uc004abs.2	-	4	363	c.211G>T	c.(211-213)GAT>TAT	p.D71Y	ZNF658_uc010mmm.1_Missense_Mutation_p.D71Y|ZNF658_uc010mmn.1_Missense_Mutation_p.D71Y	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	71	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		AGGAATTCATCTTCTAAAGAC	0.433													12	72					0.000308642	0.000315361	0.024245	1	0		A	40784134	A	A	40784134	3	1	107	1	0	0	0	0	1	0	0	0	18094	913	32	5	2976	5	ZNF658	9	40784134	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	3427219	40784134	100429297	311	64658											
TRPM3	80036	broad.mit.edu	37	chr9	73151027	73151027	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcgagtttgtcactgaTggagaagctcttcctggtgt	6	14	12	9	1	2	2	1	1	1	1	4	4	3	2	2	2	1	2	2	2	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:73151027T>C	uc004aid.2	-	25	5210	c.4966A>G	c.(4966-4968)ATC>GTC	p.I1656V	TRPM3_uc004ahu.2_Missense_Mutation_p.I1498V|TRPM3_uc004ahv.2_Missense_Mutation_p.I1458V|TRPM3_uc004ahw.2_Missense_Mutation_p.I1528V|TRPM3_uc004ahx.2_Missense_Mutation_p.I1515V|TRPM3_uc004ahy.2_Missense_Mutation_p.I1518V|TRPM3_uc004ahz.2_Missense_Mutation_p.I1505V|TRPM3_uc004aia.2_Missense_Mutation_p.I1503V|TRPM3_uc004aib.2_Missense_Mutation_p.I1493V|TRPM3_uc004aic.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1681	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						TTGTCACTGATGGAGAAGCTC	0.577													10	536					0	0	0.013537	0	0		C	73151027	C	C	73151027	3	2	107	1	0	0	0	0	1	0	0	0	16613	1464	51	3	161	3	TRPM3	9	73151027	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	32366893	73151027	68062404	312	64659											
TRPM3	80036	broad.mit.edu	37	chr9	73151754	73151754	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattgtccagagggtctatAtcacagtggagctcatccat	11	11	10	9	0	3	1	2	0	1	1	5	3	5	2	2	2	1	1	2	2	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:73151754A>C	uc004aid.2	-	25	4483	c.4239T>G	c.(4237-4239)GAT>GAG	p.D1413E	TRPM3_uc004ahu.2_Missense_Mutation_p.D1255E|TRPM3_uc004ahv.2_Missense_Mutation_p.D1215E|TRPM3_uc004ahw.2_Missense_Mutation_p.D1285E|TRPM3_uc004ahx.2_Missense_Mutation_p.D1272E|TRPM3_uc004ahy.2_Missense_Mutation_p.D1275E|TRPM3_uc004ahz.2_Missense_Mutation_p.D1262E|TRPM3_uc004aia.2_Missense_Mutation_p.D1260E|TRPM3_uc004aib.2_Missense_Mutation_p.D1250E|TRPM3_uc004aic.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1438	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GAGGGTCTATATCACAGTGGA	0.507													7	174					0	0	0.00308	0	0		C	73151754	C	C	73151754	3	2	107	1	0	0	0	0	1	0	0	0	16613	446	16	5	888	5	TRPM3	9	73151754	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	727	73151754	68061677	313	64660											
ALDH1A1	216	broad.mit.edu	37	chr9	75567908	75567908	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtaagtctggcgtgcctgaGgatgacatttctgattcggc	7	12	14	8	2	2	3	0	3	2	0	3	4	2	4	1	4	1	1	1	4	1	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:75567908G>T	uc004ajd.2	-	1	62	c.9C>A	c.(7-9)TCC>TCA	p.S3S	ALDH1A1_uc011lsh.1_Intron	NM_000689	NP_000680	P00352	AL1A1_HUMAN	aldehyde dehydrogenase 1A1	3					cellular aldehyde metabolic process|ethanol oxidation|xenobiotic metabolic process	cytosol	aldehyde dehydrogenase (NAD) activity|androgen binding|Ras GTPase activator activity|retinal dehydrogenase activity			ovary(3)|lung(1)	4					NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	GCGTGCCTGAGGATGACATTT	0.428													13	103					1.5739e-10	1.65624e-10	0.028581	1	0		T	75567908	T	T	75567908	2	4	107	1	0	0	0	0	0	0	0	1	490	987	35	5		5	ALDH1A1	9	75567908	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	2416154	75567908	65645523	314	64661											
PRUNE2	158471	broad.mit.edu	37	chr9	79325825	79325825	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgtggtgaggcccagcAccttctcccacggggctgtc	5	8	15	13	1	1	1	0	1	1	0	3	1	1	1	3	5	1	2	3	5	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:79325825A>T	uc010mpk.2	-	8	1489	c.1365T>A	c.(1363-1365)GGT>GGA	p.G455G		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	455					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						GAGGCCCAGCACCTTCTCCCA	0.607													4	50					0	0	0.009096	0	0		T	79325825	T	T	79325825	2	4	107	1	0	0	0	0	0	0	0	1	12663	146	6	5		5	PRUNE2	9	79325825	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3757917	79325825	61887606	315	64662											
FLJ46321	389763	broad.mit.edu	37	chr9	84607680	84607680	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagctcaaatatgctttcCatggagaatgtggggaatta	13	11	12	5	0	1	1	1	0	0	1	2	4	2	3	1	4	2	2	1	4	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:84607680C>T	uc004amn.2	+	4	2342	c.2295C>T	c.(2293-2295)TCC>TCT	p.S765S		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	765						integral to membrane					0						ATATGCTTTCCATGGAGAATG	0.468													11	111					0	0	0.010729	0	0		T	84607680	T	T	84607680	2	4	107	1	0	0	0	0	0	0	0	1	5946	581	21	4		4	FLJ46321	9	84607680	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	5281855	84607680	56605751	316	64663											
C9orf103	414328	broad.mit.edu	37	chr9	86258448	86258448	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtagctctgaagtgtgAggagtcgggaaaggaagcaa	12	8	17	4	1	1	2	0	2	1	0	2	5	1	5	0	4	2	3	0	4	5	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:86258448A>G	uc004amu.1	+	5	331	c.317A>G	c.(316-318)GAG>GGG	p.E106G	C9orf103_uc004amt.1_Missense_Mutation_p.E60G|C9orf103_uc010mpv.1_Missense_Mutation_p.E60G	NM_001001551	NP_001001551	Q5T6J7	GNTK_HUMAN	gluconokinase-like protein	106					carbohydrate metabolic process	cytoplasm	ATP binding|gluconokinase activity|shikimate kinase activity				0						CTGAAGTGTGAGGAGTCGGGA	0.512													3	143					0	0	0.004672	0	0		G	86258448	G	G	86258448	3	3	107	1	0	0	0	0	1	0	0	0	2449	304	11	3	189	3	C9orf103	9	86258448	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1650768	86258448	54954983	317	64664											
KIF27	55582	broad.mit.edu	37	chr9	86457159	86457159	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaaagtcttacactctgaTggtgctagttgccgccgaat	10	12	9	10	2	2	1	0	1	2	0	2	2	2	1	2	1	3	2	2	1	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:86457159T>G	uc004ana.2	-	17	3858	c.3714A>C	c.(3712-3714)CCA>CCC	p.P1238P	KIF27_uc010mpw.2_Silent_p.P1172P|KIF27_uc010mpx.2_Silent_p.P1141P	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	1238					cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						TACACTCTGATGGTGCTAGTT	0.408													3	148					0	0	0.009096	0	0		G	86457159	G	G	86457159	2	3	107	1	0	0	0	0	0	0	0	1	8312	1451	51	5		5	KIF27	9	86457159	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	198711	86457159	54756272	318	64665											
FAM75C1	441452	broad.mit.edu	37	chr9	90536533	90536533	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcaggaagtgatttattaAgacgcacagagaggaatcat	16	9	10	6	1	2	3	2	1	0	2	2	6	2	5	0	2	0	1	0	2	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:90536533A>C	uc010mqi.2	+	4	1740	c.1711A>C	c.(1711-1713)AGA>CGA	p.R571R	FAM75C1_uc004apq.3_Silent_p.R554R	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						TGATTTATTAAGACGCACAGA	0.527													6	231					0	0	0.021553	0	0		C	90536533	C	C	90536533	2	2	107	1	0	0	0	0	0	0	0	1	5637	64	3	5		5	FAM75C1	9	90536533	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4079374	90536533	50676898	319	64666											
ZNF782	158431	broad.mit.edu	37	chr9	99580994	99580994	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggttctctggtgtattctTaggcctgactttgcactgaa	6	16	11	8	0	2	2	0	2	2	0	3	2	2	2	1	3	1	3	1	3	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:99580994T>G	uc004awp.1	-	6	1592	c.1311A>C	c.(1309-1311)CTA>CTC	p.L437L	ZNF782_uc011lup.1_Silent_p.L305L	NM_001001662	NP_001001662	Q6ZMW2	ZN782_HUMAN	zinc finger protein 782	437	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				GGTGTATTCTTAGGCCTGACT	0.418													6	403					0	0	0.021553	0	0		G	99580994	G	G	99580994	2	3	107	1	0	0	0	0	0	0	0	1	18180	1741	61	5		5	ZNF782	9	99580994	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	9044461	99580994	41632437	320	64667											
TEX10	54881	broad.mit.edu	37	chr9	103111616	103111616	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaattttactttttgaaaAtcatgttggcgttttctttt	8	23	5	5	1	3	1	2	1	1	0	3	1	3	1	0	1	1	2	0	1	4	10			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:103111616A>C	uc004bas.2	-	2	245	c.30T>G	c.(28-30)GAT>GAG	p.D10E	TEX10_uc011lvf.1_5'Flank|TEX10_uc011lvg.1_Missense_Mutation_p.D13E|TEX10_uc011lvh.1_Intron|TEX10_uc004bat.2_Missense_Mutation_p.D10E	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	10						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		CTTTTTGAAAATCATGTTGGC	0.294													5	75					0	0	0.014758	0	0		C	103111616	C	C	103111616	3	2	107	1	0	0	0	0	1	0	0	0	15797	98	4	5	2815	5	TEX10	9	103111616	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3530622	103111616	38101815	321	64668											
TMEFF1	8577	broad.mit.edu	37	chr9	103204421	103204421	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcgtgtccctgcgggatttCaaacagctgaagaagtgctg	10	9	13	9	2	1	2	1	1	0	1	2	3	2	3	1	1	5	2	1	1	3	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:103204421C>T	uc004bay.1	+	1	234	c.201C>T	c.(199-201)TTC>TTT	p.F67F	C9orf30_uc004baw.2_Silent_p.F67F|C9orf30_uc004bax.2_RNA	NM_003692	NP_003683	Q8IYR6	TEFF1_HUMAN	transmembrane protein with EGF-like and two	Error:Variant_position_missing_in_Q8IYR6_after_alignment					multicellular organismal development	integral to membrane|plasma membrane					0		Acute lymphoblastic leukemia(62;0.0452)				TGCGGGATTTCAAACAGCTGA	0.527													8	78					0	0	0.004482	0	0		T	103204421	T	T	103204421	2	4	107	1	0	0	0	0	0	0	0	1	16038	825	29	4		4	TMEFF1	9	103204421	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	92805	103204421	38009010	322	64669											
SLC44A1	23446	broad.mit.edu	37	chr9	108136917	108136917	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatcaacagcaccaacttCtgcacctcagcaaaggatgc	13	7	7	14	0	3	0	2	0	1	0	3	1	3	1	2	1	6	4	2	1	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:108136917C>A	uc004bcn.2	+	13	1754	c.1533C>A	c.(1531-1533)TTC>TTA	p.F511L	SLC44A1_uc010mtk.1_Missense_Mutation_p.F511L|SLC44A1_uc004bco.1_Missense_Mutation_p.F303L	NM_080546	NP_536856	Q8WWI5	CTL1_HUMAN	CDW92 antigen	511	Mitochondrial intermembrane (Potential).					integral to membrane|mitochondrial outer membrane|plasma membrane	choline transmembrane transporter activity			breast(3)|ovary(1)	4					Choline(DB00122)	GCACCAACTTCTGCACCTCAG	0.413													70	263					5.02462e-34	5.37589e-34	0.01441	1	0		A	108136917	A	A	108136917	3	1	107	1	0	0	0	0	1	0	0	0	14660	912	32	5	1583	5	SLC44A1	9	108136917	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	4932496	108136917	33076514	323	64670											
LPAR1	1902	broad.mit.edu	37	chr9	113637849	113637849	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaggtggcgctcatttctTtgtcgcggtaggagtaaatg	9	13	13	6	3	2	0	1	0	1	0	3	1	2	1	0	4	0	3	0	4	5	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:113637849T>G	uc004bfa.2	-	5	1202	c.947A>C	c.(946-948)AAA>ACA	p.K316T	LPAR1_uc011lwm.1_Missense_Mutation_p.K317T|LPAR1_uc004bfb.2_Missense_Mutation_p.K316T|LPAR1_uc004bfc.2_Missense_Mutation_p.K316T|LPAR1_uc011lwn.1_Missense_Mutation_p.K298T|LPAR1_uc011lwo.1_Missense_Mutation_p.K317T|LPAR1_uc010mub.2_Missense_Mutation_p.K316T	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	316	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						GCTCATTTCTTTGTCGCGGTA	0.557													7	234					0	0	0.001984	0	0		G	113637849	G	G	113637849	3	3	107	1	0	0	0	0	1	0	0	0	8922	1841	64	5	151	5	LPAR1	9	113637849	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	5500932	113637849	27575582	324	64671											
LPAR1	1902	broad.mit.edu	37	chr9	113704450	113704450	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcattcatggctgtgaacTaaaagaaaaaggagaaaaga	19	8	10	4	0	2	4	2	1	0	3	2	5	2	4	0	2	1	2	0	2	7	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:113704450T>C	uc004bfa.2	-	4	301	c.46_splice	c.e4-1	p.F16_splice	LPAR1_uc011lwm.1_Splice_Site_p.F17_splice|LPAR1_uc004bfb.2_Splice_Site_p.F16_splice|LPAR1_uc004bfc.2_Splice_Site_p.F16_splice|LPAR1_uc011lwn.1_Splice_Site|LPAR1_uc011lwo.1_Splice_Site_p.F17_splice|LPAR1_uc010mub.2_Splice_Site_p.F16_splice	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1						positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						GGCTGTGAACTAAAAGAAAAA	0.368													6	111					0	0	0.021553	0	0		C	113704450	C	C	113704450	5	2	107	1	0	0	0	0	0	0	1	0	8922	1536	53	3	1058	3	LPAR1	9	113704450	Splice_Site	SNP	T	TCGA-CD-5801-01A-11D-1600-08	66601	113704450	27508981	325	64672											
SNX30	401548	broad.mit.edu	37	chr9	115579987	115579987	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccattctcttctttgcagagTactcgggtggagtttgacct	6	15	10	10	1	2	2	0	1	2	1	4	3	2	3	2	2	2	3	2	2	1	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:115579987T>C	uc004bgj.3	+	3	499	c.351T>C	c.(349-351)AGT>AGC	p.S117S		NM_001012994	NP_001013012	Q5VWJ9	SNX30_HUMAN	sorting nexin family member 30	117	PX.				cell communication|protein transport	cytoplasm	phosphatidylinositol binding				0						CTTTGCAGAGTACTCGGGTGG	0.428													6	109					0	0	0.001984	0	0		C	115579987	C	C	115579987	2	2	107	1	0	0	0	0	0	0	0	1	14925	1635	57	3		3	SNX30	9	115579987	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1875537	115579987	25633444	326	64673											
DBC1	1620	broad.mit.edu	37	chr9	121929915	121929915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtagccaaattccccgaagGgcatgttccagccctccgaa	10	7	10	14	2	0	0	0	0	0	0	3	2	3	0	6	2	2	3	6	2	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:121929915G>A	uc004bkc.2	-	8	2189	c.1733C>T	c.(1732-1734)CCC>CTC	p.P578L		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	578					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						TTCCCCGAAGGGCATGTTCCA	0.542													13	118					0	0	0.013537	0	0		A	121929915	A	A	121929915	3	1	107	1	0	0	0	0	1	0	0	0	4250	1232	43	4	556	4	DBC1	9	121929915	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	6349928	121929915	19283516	327	64674											
NDUFA8	4702	broad.mit.edu	37	chr9	124914536	124914536	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttacctaaagaagtccAaagcacacttgttgaccagt	14	12	6	9	0	0	2	0	1	0	1	1	2	1	2	3	0	2	2	3	0	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:124914536A>G	uc004blv.2	-	2	345	c.203T>C	c.(202-204)TTG>TCG	p.L68S		NM_014222	NP_055037	P51970	NDUA8_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	68	CHCH 1.				mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			breast(1)	1					NADH(DB00157)	AAAGAAGTCCAAAGCACACTT	0.413													8	96					0	0	0.00308	0	0		G	124914536	G	G	124914536	3	3	107	1	0	0	0	0	1	0	0	0	10290	131	5	3	327	3	NDUFA8	9	124914536	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2984621	124914536	16298895	328	64675											
PTGES2	80142	broad.mit.edu	37	chr9	130884681	130884681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggccccccatgaagggcCggtccttgcccacagcagcc	6	6	11	18	1	1	1	0	1	1	0	2	1	2	1	7	3	3	1	7	3	1	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:130884681C>T	uc004bti.2	-	6	1443	c.965G>A	c.(964-966)CGG>CAG	p.R322Q	PTGES2_uc004btj.2_RNA|PTGES2_uc004btk.2_Missense_Mutation_p.R131Q|PTGES2_uc004btl.2_Missense_Mutation_p.R131Q|PTGES2_uc004btm.2_RNA	NM_025072	NP_079348	Q9H7Z7	PGES2_HUMAN	prostaglandin E synthase 2	322	GST C-terminal.|Cytoplasmic (Potential).				cell redox homeostasis|prostaglandin biosynthetic process	Golgi membrane|integral to membrane|mitochondrion|perinuclear region of cytoplasm	electron carrier activity|prostaglandin-E synthase activity|protein binding|protein disulfide oxidoreductase activity				0						CATGAAGGGCCGGTCCTTGCC	0.647													18	122					0	0	0.00499	0	0		T	130884681	T	T	130884681	3	4	107	1	0	0	0	0	1	0	0	0	12770	652	23	1	176	1	PTGES2	9	130884681	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	5970145	130884681	10328750	329	64676											
SPTAN1	6709	broad.mit.edu	37	chr9	131346634	131346634	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgatgcagaaaacatcaAgaagaaacaggaagccctcg	17	7	9	8	1	1	4	1	1	0	3	2	5	1	5	1	1	4	1	1	1	6	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:131346634A>C	uc004bvl.3	+	17	2380	c.2267A>C	c.(2266-2268)AAG>ACG	p.K756T	SPTAN1_uc011mbg.1_Missense_Mutation_p.K756T|SPTAN1_uc011mbh.1_Missense_Mutation_p.K768T|SPTAN1_uc004bvm.3_Missense_Mutation_p.K756T|SPTAN1_uc004bvn.3_Missense_Mutation_p.K756T	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	756	Spectrin 8.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						GAAAACATCAAGAAGAAACAG	0.547													5	84					0	0	0.001984	0	0		C	131346634	C	C	131346634	3	2	107	1	0	0	0	0	1	0	0	0	15142	72	3	5	2329	5	SPTAN1	9	131346634	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	461953	131346634	9866797	330	64677											
CCBL1	883	broad.mit.edu	37	chr9	131600576	131600576	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcaccagcacattcctgAgcgggtctatctcctgaccc	8	9	8	16	1	3	2	1	2	2	0	5	2	4	2	4	1	2	1	4	1	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:131600576A>G	uc004bwh.2	-	4	457	c.272T>C	c.(271-273)CTC>CCC	p.L91P	CCBL1_uc004bwf.2_Missense_Mutation_p.L125P|CCBL1_uc004bwg.2_Intron|CCBL1_uc010myn.2_Missense_Mutation_p.L91P|CCBL1_uc004bwj.2_Intron|CCBL1_uc011mbl.1_Missense_Mutation_p.L185P|CCBL1_uc004bwi.2_RNA|CCBL1_uc010myo.2_Missense_Mutation_p.L91P	NM_004059	NP_004050	Q16773	KAT1_HUMAN	kynurenine aminotransferase I isoform a	91					kynurenine metabolic process|L-phenylalanine catabolic process|tryptophan catabolic process	cytosol|nucleus	1-aminocyclopropane-1-carboxylate synthase activity|cysteine-S-conjugate beta-lyase activity|glutamine-phenylpyruvate transaminase activity|kynurenine-oxoglutarate transaminase activity|L-glutamine:pyruvate aminotransferase activity|L-phenylalanine:pyruvate aminotransferase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)	1					L-Glutamine(DB00130)|Pyridoxal Phosphate(DB00114)	CACATTCCTGAGCGGGTCTAT	0.592													6	81					0	0	0.021553	0	0		G	131600576	G	G	131600576	3	3	107	1	0	0	0	0	1	0	0	0	2735	304	11	3	1036	3	CCBL1	9	131600576	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	253942	131600576	9612855	331	64678											
OLFM1	10439	broad.mit.edu	37	chr9	138011358	138011358	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctctccacaggtgtggtaCatggacggctatcacaacaa	11	9	9	12	1	2	0	1	0	1	0	4	1	3	1	1	4	2	2	1	4	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:138011358C>T	uc010nar.2	+	6	1108	c.792C>T	c.(790-792)TAC>TAT	p.Y264Y	OLFM1_uc004cfl.3_Silent_p.Y246Y|OLFM1_uc004cfn.3_Silent_p.Y15Y	NM_014279	NP_055094	Q99784	NOE1_HUMAN	olfactomedin related ER localized protein	264	Olfactomedin-like.				nervous system development	endoplasmic reticulum lumen	protein binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(178;0.0333)		Epithelial(140;5.49e-08)|OV - Ovarian serous cystadenocarcinoma(145;9.68e-08)|all cancers(34;1.88e-07)		AGGTGTGGTACATGGACGGCT	0.532													21	141					0	0	0.014323	0	0		T	138011358	T	T	138011358	2	4	107	1	0	0	0	0	0	0	0	1	10871	489	17	4		4	OLFM1	9	138011358	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	6410782	138011358	3202073	332	64679											
MAMDC4	158056	broad.mit.edu	37	chr9	139748065	139748065	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccctgcgctcgccaaccCtgcgagaggcagcctcctct	6	6	10	19	3	1	1	0	0	1	1	3	2	2	1	5	1	5	2	5	1	1	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr9:139748065C>T	uc004cjs.2	+	4	447	c.397C>T	c.(397-399)CTG>TTG	p.L133L	MAMDC4_uc011mej.1_5'UTR	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	133	Extracellular (Potential).|MAM 1.				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		CTCGCCAACCCTGCGAGAGGC	0.682													10	43					0	0	0.008291	0	0		T	139748065	T	T	139748065	2	4	107	1	0	0	0	0	0	0	0	1	9222	680	24	4		4	MAMDC4	9	139748065	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1736707	139748065	1465366	333	64680											
DIP2C	22982	broad.mit.edu	37	chr10	408454	408454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgcttctgtcgaggcttagGcaagtttgtgacgcaggtgt	6	13	14	8	2	1	1	0	1	1	0	2	2	1	1	0	3	1	5	0	3	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:408454G>A	uc001ifp.2	-	22	2860	c.2770C>T	c.(2770-2772)CCT>TCT	p.P924S	DIP2C_uc009xhi.1_Missense_Mutation_p.P310S|DIP2C_uc010pzz.1_Missense_Mutation_p.P245S	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	924						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CGAGGCTTAGGCAAGTTTGTG	0.567													6	90					0	0	0.021553	0	0		A	408454	A	A	408454	3	1	107	1	0	0	0	0	1	0	0	0	4535	1203	42	2	1964	2	DIP2C	10	408454	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08		408454	135126293	334	64681											
UPF2	26019	broad.mit.edu	37	chr10	12077149	12077149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttgatgtttctttttttcttCctcttcttttttctttgatt	2	29	3	7	0	5	2	0	2	5	0	6	2	6	2	1	0	0	1	1	0	0	12			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:12077149C>T	uc001ila.2	-	1	748	c.274G>A	c.(274-276)GAA>AAA	p.E92K	UPF2_uc001ilb.2_Missense_Mutation_p.E92K|UPF2_uc001ilc.2_Missense_Mutation_p.E92K|UPF2_uc009xiz.1_Missense_Mutation_p.E92K	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	92	Potential.|Glu/Lys-rich.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				tttttttcttcctcttctttt	0.308													11	274					0	0	0.008291	0	0		T	12077149	T	T	12077149	3	4	107	1	0	0	0	0	1	0	0	0	17030	864	30	4	3628	4	UPF2	10	12077149	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	11668695	12077149	123457598	335	64682											
NMT2	9397	broad.mit.edu	37	chr10	15174868	15174868	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttatgaacccgaccagttTtttatttgaagacactctga	12	14	6	9	1	1	4	0	3	1	1	1	5	1	4	2	0	1	1	2	0	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:15174868T>G	uc001inz.1	-	6	751	c.667A>C	c.(667-669)AAA>CAA	p.K223Q	NMT2_uc001ioa.1_Missense_Mutation_p.K210Q|NMT2_uc009xjo.1_Missense_Mutation_p.K223Q|NMT2_uc010qbz.1_Missense_Mutation_p.K35Q	NM_004808	NP_004799	O60551	NMT2_HUMAN	N-myristoyltransferase 2	223					N-terminal protein myristoylation|protein lipoylation	Golgi apparatus|plasma membrane	glycylpeptide N-tetradecanoyltransferase activity			ovary(1)	1						CCGACCAGTTTTTTATTTGAA	0.468													35	143					0	0	0.017118	0	0		G	15174868	G	G	15174868	3	3	107	1	0	0	0	0	1	0	0	0	10523	1850	64	5	857	5	NMT2	10	15174868	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3097719	15174868	120359879	336	64683											
ITGA8	8516	broad.mit.edu	37	chr10	15639293	15639293	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcacagctcagtggtcgAaatccctacaattgcaaaga	14	9	7	11	1	2	1	2	0	0	1	4	2	3	1	1	1	4	2	1	1	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:15639293A>G	uc001ioc.1	-	21	2124	c.2124T>C	c.(2122-2124)TTT>TTC	p.F708F	ITGA8_uc010qcb.1_Silent_p.F693F	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	708	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						TCAGTGGTCGAAATCCCTACA	0.502													26	131					0	0	0.021523	0	0		G	15639293	G	G	15639293	2	3	107	1	0	0	0	0	0	0	0	1	7898	243	9	3		3	ITGA8	10	15639293	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	464425	15639293	119895454	337	64684											
MASTL	84930	broad.mit.edu	37	chr10	27470425	27470425	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagatatcccttggccagaAggtgaagaaaagttatctga	14	11	10	6	0	1	5	0	2	1	3	2	5	2	5	2	2	0	1	2	2	7	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:27470425A>C	uc001itm.2	+	11	3036	c.2397A>C	c.(2395-2397)GAA>GAC	p.E799D	MASTL_uc001itl.2_Missense_Mutation_p.E798D|MASTL_uc009xkw.1_Missense_Mutation_p.E760D|MASTL_uc009xkx.1_RNA	NM_032844	NP_116233	Q96GX5	GWL_HUMAN	microtubule associated serine/threonine	799	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|mitosis|negative regulation of protein phosphatase type 2A activity|regulation of cell cycle|response to DNA damage stimulus	centrosome|cleavage furrow|nucleus	ATP binding|protein phosphatase 2A binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						CTTGGCCAGAAGGTGAAGAAA	0.294													28	201					0	0	0.00632	0	0		C	27470425	C	C	27470425	3	2	107	1	0	0	0	0	1	0	0	0	9346	69	3	5	2439	5	MASTL	10	27470425	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	11831132	27470425	108064322	338	64685											
ERCC6	2074	broad.mit.edu	37	chr10	50678377	50678377	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttggcgtctctgcaatgcTtagagttcttaggcttttgc	6	16	10	9	1	2	1	0	0	2	1	3	1	2	1	0	2	3	4	0	2	3	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:50678377T>G	uc001jhs.3	-	18	3783	c.3629A>C	c.(3628-3630)AAG>ACG	p.K1210T	ERCC6_uc009xod.2_Missense_Mutation_p.K370T|ERCC6_uc010qgr.1_Missense_Mutation_p.K580T|ERCC6_uc001jhr.3_Missense_Mutation_p.K578T	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	1210					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						TCTGCAATGCTTAGAGTTCTT	0.423								Direct_reversal_of_damage|NER					76	788					0	0	0.01441	0	0		G	50678377	G	G	50678377	3	3	107	1	0	0	0	0	1	0	0	0	5225	1609	56	5	868	5	ERCC6	10	50678377	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	23207952	50678377	84856370	339	64686											
ANK3	288	broad.mit.edu	37	chr10	61828586	61828586	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcggactgcatcttttttTcttcttcagagaggcggtcc	6	15	9	11	2	4	1	1	0	3	1	6	3	5	2	1	3	1	1	1	3	0	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:61828586T>C	uc001jky.2	-	37	12245	c.12053A>G	c.(12052-12054)GAA>GGA	p.E4018G	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	4018					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CATCTTTTTTTCTTCTTCAGA	0.458													54	350					0	0	0.01441	0	0		C	61828586	C	C	61828586	3	2	107	1	0	0	0	0	1	0	0	0	622	1783	62	3	1421	3	ANK3	10	61828586	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	11150209	61828586	73706161	340	64687											
PCBD1	5092	broad.mit.edu	37	chr10	72644971	72644971	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcagcctgcagggccactcTtgtcatgaacccaaaggcct	9	8	9	15	0	3	1	2	1	1	0	3	1	3	1	4	2	3	1	4	2	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:72644971T>G	uc001jrn.1	-	3	405	c.154A>C	c.(154-156)AGA>CGA	p.R52R		NM_000281	NP_000272	P61457	PHS_HUMAN	pterin-4 alpha-carbinolamine	52					L-phenylalanine catabolic process|regulation of transcription, DNA-dependent|tetrahydrobiopterin biosynthetic process|transcription, DNA-dependent	cytosol|nucleus	4-alpha-hydroxytetrahydrobiopterin dehydratase activity|identical protein binding|transcription coactivator activity				0						AGGGCCACTCTTGTCATGAAC	0.507													10	98					0	0	0.006214	0	0		G	72644971	G	G	72644971	2	3	107	1	0	0	0	0	0	0	0	1	11517	1617	56	5		5	PCBD1	10	72644971	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	10816385	72644971	62889776	341	64688											
CDHR1	92211	broad.mit.edu	37	chr10	85955269	85955269	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcaggccaacttcgccccGcacttcttcgacaacggggt	7	8	10	16	4	2	0	1	0	1	0	4	1	2	0	3	3	2	2	3	3	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:85955269G>A	uc001kcv.2	+	2	75	c.75G>A	c.(73-75)CCG>CCA	p.P25P	CDHR1_uc001kcw.2_Silent_p.P25P	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	25	Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						ACTTCGCCCCGCACTTCTTCG	0.612													11	37					0	0	0.010729	0	0		A	85955269	A	A	85955269	2	1	107	1	0	0	0	0	0	0	0	1	3121	1074	38	1		1	CDHR1	10	85955269	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	13310298	85955269	49579478	342	64689											
GRID1	2894	broad.mit.edu	37	chr10	87628808	87628808	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgggggtcgcagagcaGggaggagatgcggtggttgt	6	9	20	6	2	0	2	0	0	0	2	2	4	1	3	1	6	2	3	1	6	0	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:87628808G>T	uc001kdl.1	-	6	1011	c.910C>A	c.(910-912)CTG>ATG	p.L304M	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	304	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	TCGCAGAGCAGGGAGGAGATG	0.577										Multiple Myeloma(13;0.14)			7	154					1.12685e-05	1.1632e-05	0.004482	1	0		T	87628808	T	T	87628808	3	4	107	1	0	0	0	0	1	0	0	0	6787	991	35	5	2163	5	GRID1	10	87628808	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1673539	87628808	47905939	343	64690											
TCTN3	26123	broad.mit.edu	37	chr10	97440352	97440352	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggtatgagacagcaggaAgtacagtttatagcctgcag	13	9	12	7	0	0	1	0	1	0	1	0	3	0	2	1	2	4	5	1	2	5	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:97440352A>C	uc001klb.3	-	13	1711	c.1467T>G	c.(1465-1467)ACT>ACG	p.T489T	TCTN3_uc001kla.3_Silent_p.T333T|TCTN3_uc010qoi.1_Silent_p.T341T	NM_015631	NP_056446	Q6NUS6	TECT3_HUMAN	tectonic 3 isoform a precursor	489	Extracellular (Potential).				apoptosis	integral to membrane					0		Colorectal(252;0.0815)		Epithelial(162;1.69e-07)|all cancers(201;5.63e-06)		GACAGCAGGAAGTACAGTTTA	0.458													55	176					0	0	0.01441	0	0		C	97440352	C	C	97440352	2	2	107	1	0	0	0	0	0	0	0	1	15749	59	3	5		5	TCTN3	10	97440352	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	9811544	97440352	38094395	344	64691											
ZNF518A	9849	broad.mit.edu	37	chr10	97919522	97919522	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaatattgctgaaaatttTtaaccctgttttaaatgtga	15	16	6	4	0	0	3	0	2	0	1	0	3	0	3	1	0	2	2	1	0	8	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:97919522T>G	uc001klp.2	+	6	4300	c.3443T>G	c.(3442-3444)TTT>TGT	p.F1148C	ZNF518A_uc001klo.1_Missense_Mutation_p.F618C|ZNF518A_uc001klq.2_Missense_Mutation_p.F1148C|ZNF518A_uc001klr.2_Missense_Mutation_p.F1148C	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	1148					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		CTGAAAATTTTTAACCCTGTT	0.353													3	194					0	0	0.004672	0	0		G	97919522	G	G	97919522	3	3	107	1	0	0	0	0	1	0	0	0	17987	1841	64	5	3445	5	ZNF518A	10	97919522	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	479170	97919522	37615225	345	64692											
C10orf28	27291	broad.mit.edu	37	chr10	99968636	99968636	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatgcaaacatcagatggAatattgaatcccagcagcgg	15	7	10	9	1	1	2	1	1	0	1	2	3	2	3	1	2	5	3	1	2	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:99968636A>C	uc001kow.3	+	4	1060	c.765A>C	c.(763-765)GGA>GGC	p.G255G	C10orf28_uc001kox.3_Silent_p.G255G|C10orf28_uc001koy.3_Silent_p.G255G|C10orf28_uc009xvx.2_Silent_p.G255G|C10orf28_uc009xvy.2_Intron|C10orf28_uc001koz.3_Intron	NM_014472	NP_055287	Q4KMY3	Q4KMY3_HUMAN	growth inhibition and differentiation related	255							nucleotide binding			large_intestine(1)|skin(1)	2		Colorectal(252;0.234)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)		CATCAGATGGAATATTGAATC	0.393													10	203					0	0	0.006214	0	0		C	99968636	C	C	99968636	2	2	107	1	0	0	0	0	0	0	0	1	1604	233	9	5		5	C10orf28	10	99968636	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2049114	99968636	35566111	346	64693											
GSTO2	119391	broad.mit.edu	37	chr10	106058933	106058933	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctctggatatcagccatgaAgtgggaccccacagtctgtg	9	9	12	11	0	3	1	1	1	2	0	3	3	3	3	3	2	1	1	3	2	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:106058933A>C	uc001kyb.2	+	7	1251	c.623A>C	c.(622-624)AAG>ACG	p.K208T	GSTO2_uc010qqx.1_Missense_Mutation_p.K174T|GSTO2_uc001kyc.2_Missense_Mutation_p.K180T|GSTO2_uc010qqy.1_Missense_Mutation_p.E110D	NM_183239	NP_899062	Q9H4Y5	GSTO2_HUMAN	glutathione S-transferase omega 2	208	GST C-terminal.				water-soluble vitamin metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.178)		Epithelial(162;1.14e-09)|all cancers(201;3.89e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0155)	Glutathione(DB00143)	TCAGCCATGAAGTGGGACCCC	0.517													13	165					0	0	0.00499	0	0		C	106058933	C	C	106058933	3	2	107	1	0	0	0	0	1	0	0	0	6859	72	3	5	645	5	GSTO2	10	106058933	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	6090297	106058933	29475814	347	64694											
TCF7L2	6934	broad.mit.edu	37	chr10	114710655	114710655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttagctgatgtcaaatcgtCtctagtcaatgaatcagaaa	14	13	7	7	1	4	3	3	2	1	1	6	3	4	3	0	0	1	1	0	0	6	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:114710655C>T	uc001lae.3	+	1	647	c.140C>T	c.(139-141)TCT>TTT	p.S47F	TCF7L2_uc001lac.3_Missense_Mutation_p.S47F|TCF7L2_uc010qrk.1_Missense_Mutation_p.S47F|TCF7L2_uc010qrl.1_Missense_Mutation_p.S47F|TCF7L2_uc010qrm.1_Missense_Mutation_p.S47F|TCF7L2_uc010qrn.1_Missense_Mutation_p.S47F|TCF7L2_uc001lad.3_Missense_Mutation_p.S47F|TCF7L2_uc001lag.3_Missense_Mutation_p.S47F|TCF7L2_uc001laf.3_Missense_Mutation_p.S47F|TCF7L2_uc010qro.1_Missense_Mutation_p.S47F|TCF7L2_uc001lah.2_Missense_Mutation_p.S47F|TCF7L2_uc010qrp.1_Missense_Mutation_p.S47F|TCF7L2_uc010qrq.1_Missense_Mutation_p.S47F|TCF7L2_uc010qrr.1_5'Flank|TCF7L2_uc010qrs.1_5'Flank|TCF7L2_uc010qrt.1_5'Flank	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	47	CTNNB1-binding (By similarity).				anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		GTCAAATCGTCTCTAGTCAAT	0.498													9	32					0	0	0.006214	0	0		T	114710655	T	T	114710655	3	4	107	1	0	0	0	0	1	0	0	0	15723	913	32	4	142	4	TCF7L2	10	114710655	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	8651722	114710655	20824092	348	64695											
NHLRC2	374354	broad.mit.edu	37	chr10	115636359	115636359	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacattaagagtgctgttctTcgatacaacatcacccaccc	13	10	5	13	1	2	1	1	0	1	1	3	2	2	1	2	0	4	2	2	0	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:115636359T>G	uc001lax.1	+	3	623	c.411T>G	c.(409-411)CTT>CTG	p.L137L		NM_198514	NP_940916	Q8NBF2	NHLC2_HUMAN	NHL repeat containing 2	137	Thioredoxin.				cell redox homeostasis					ovary(1)	1				Epithelial(162;0.017)|all cancers(201;0.0187)		GTGCTGTTCTTCGATACAACA	0.403													6	256					0	0	0.001984	0	0		G	115636359	G	G	115636359	2	3	107	1	0	0	0	0	0	0	0	1	10425	1770	62	5		5	NHLRC2	10	115636359	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	925704	115636359	19898388	349	64696											
ADRB1	153	broad.mit.edu	37	chr10	115804230	115804230	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggggctgctggtggtgccGttcggggccaccatcgtggt	3	10	18	10	3	0	0	0	0	0	0	2	0	0	0	3	7	2	3	3	7	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:115804230G>A	uc001lba.2	+	1	425	c.339G>A	c.(337-339)CCG>CCA	p.P113P		NM_000684	NP_000675	P08588	ADRB1_HUMAN	beta-1-adrenergic receptor	113	Helical; Name=2; (By similarity).				positive regulation of cAMP biosynthetic process	integral to plasma membrane	alpha-2A adrenergic receptor binding|beta1-adrenergic receptor activity|protein heterodimerization activity				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0124)|all cancers(201;0.0298)	Acebutolol(DB01193)|Alprenolol(DB00866)|Amiodarone(DB01118)|Arbutamine(DB01102)|Atenolol(DB00335)|Betaxolol(DB00195)|Bevantolol(DB01295)|Bisoprolol(DB00612)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Desipramine(DB01151)|Dobutamine(DB00841)|Dopamine(DB00988)|Epinephrine(DB00668)|Esmolol(DB00187)|Isoetharine(DB00221)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Metoprolol(DB00264)|Nadolol(DB01203)|Norepinephrine(DB00368)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Practolol(DB01297)|Propranolol(DB00571)|Risperidone(DB00734)|Timolol(DB00373)|Ziprasidone(DB00246)	TGGTGGTGCCGTTCGGGGCCA	0.667													21	76					0	0	0.024334	0	0		A	115804230	A	A	115804230	2	1	107	1	0	0	0	0	0	0	0	1	340	1132	40	1		1	ADRB1	10	115804230	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	167871	115804230	19730517	350	64697											
PRAP1	118471	broad.mit.edu	37	chr10	135165920	135165920	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggaccggaggaagaccaAgaccacatctaccaccccca	13	3	9	16	1	1	2	0	0	1	2	1	5	1	5	6	3	1	0	6	3	3	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr10:135165920A>G	uc001lmp.2	+	5	510	c.432A>G	c.(430-432)CAA>CAG	p.Q144Q	PRAP1_uc001lmr.2_Silent_p.Q135Q|PRAP1_uc001lmq.1_Silent_p.Q116Q	NM_145202	NP_660203	Q96NZ9	PRAP1_HUMAN	proline-rich acidic protein 1 isoform 1	144						extracellular region					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		all cancers(32;7.08e-06)|OV - Ovarian serous cystadenocarcinoma(35;7.88e-06)|Epithelial(32;9.48e-06)		AGGAAGACCAAGACCACATCT	0.672													3	135					0	0	0.004672	0	0		G	135165920	G	G	135165920	2	3	107	1	0	0	0	0	0	0	0	1	12463	69	3	3		3	PRAP1	10	135165920	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	19361690	135165920	368827	351	64698											
OR51A7	119687	broad.mit.edu	37	chr11	4928908	4928908	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttgctcaagaattcttCattcatggattcactgtcat	9	17	6	9	0	6	1	5	0	1	1	6	2	6	2	0	1	2	2	0	1	2	5	rs142232152	byFrequency	TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:4928908C>A	uc010qyq.1	+	1	309	c.309C>A	c.(307-309)TTC>TTA	p.F103L		NM_001004749	NP_001004749	Q8NH64	O51A7_HUMAN	olfactory receptor, family 51, subfamily A,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		AAGAATTCTTCATTCATGGAT	0.438													37	287					1.42033e-22	1.51732e-22	0.019004	1	0		A	4928908	A	A	4928908	3	1	107	1	0	0	0	0	1	0	0	0	11107	825	29	5	311	5	OR51A7	11	4928908	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08		4928908	130077608	352	64699											
UBQLNL	143630	broad.mit.edu	37	chr11	5536993	5536993	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcaaggttcctggccagctCcagagtctgcaataggatct	10	9	11	11	0	2	1	0	0	2	1	4	2	4	2	3	3	3	4	3	3	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:5536993C>A	uc001maz.3	-	1	964	c.679G>T	c.(679-681)GAG>TAG	p.E227*	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	227										large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		CTGGCCAGCTCCAGAGTCTGC	0.453													11	300					0.00010058	0.000103069	0.013537	1	0		A	5536993	A	A	5536993	4	1	107	1	0	0	0	0	0	1	0	0	16926	864	30	5	752	5	UBQLNL	11	5536993	Nonsense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	608085	5536993	129469523	353	64700											
DNHD1	144132	broad.mit.edu	37	chr11	6588890	6588890	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcgttctgcgacctgagTgcctggcaggtgccctggca	4	8	16	13	3	1	1	0	1	1	0	1	2	1	1	3	4	3	3	3	4	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:6588890T>C	uc001mdw.3	+	36	12715	c.12151T>C	c.(12151-12153)TGC>CGC	p.C4051R	DNHD1_uc001mea.3_Missense_Mutation_p.C320R|DNHD1_uc001meb.2_Missense_Mutation_p.C319R|DNHD1_uc001mec.2_Missense_Mutation_p.C319R|DNHD1_uc010rao.1_Missense_Mutation_p.C309R|DNHD1_uc009yfg.2_5'Flank	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	4051					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GCGACCTGAGTGCCTGGCAGG	0.612													8	44					0	0	0.00308	0	0		C	6588890	C	C	6588890	3	2	107	1	0	0	0	0	1	0	0	0	4674	1696	59	3	12294	3	DNHD1	11	6588890	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1051897	6588890	128417626	354	64701											
ST5	6764	broad.mit.edu	37	chr11	8732693	8732693	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatactctgacacaggaagcCagtccttggcatcagggaag	12	8	11	10	0	2	1	1	1	1	0	3	3	3	3	2	3	2	1	2	3	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:8732693C>T	uc001mgt.2	-	10	2444	c.2258G>A	c.(2257-2259)TGG>TAG	p.W753*	ST5_uc009yfr.2_Nonsense_Mutation_p.W333*|ST5_uc001mgu.2_Nonsense_Mutation_p.W333*|ST5_uc001mgv.2_Nonsense_Mutation_p.W753*|ST5_uc010rbq.1_RNA|ST5_uc010rbp.1_Nonsense_Mutation_p.W266*|ST5_uc009yfs.2_RNA	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	753	UDENN.				positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		CACAGGAAGCCAGTCCTTGGC	0.592													23	104					0	0	0.021523	0	0		T	8732693	T	T	8732693	4	4	107	1	0	0	0	0	0	1	0	0	15245	595	21	4	1199	4	ST5	11	8732693	Nonsense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	2143803	8732693	126273823	355	64702											
MICAL2	9645	broad.mit.edu	37	chr11	12262590	12262590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcctttcttctcccaggaaCgccgtgtctcagggataggt	6	11	11	13	3	3	0	1	0	3	0	5	2	3	2	3	3	1	0	3	3	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:12262590C>T	uc001mjz.2	+	18	2506	c.2218C>T	c.(2218-2220)CGC>TGC	p.R740C	MICAL2_uc010rch.1_Intron|MICAL2_uc001mka.2_Missense_Mutation_p.R740C|MICAL2_uc010rci.1_Missense_Mutation_p.R740C|MICAL2_uc001mkb.2_Intron|MICAL2_uc001mkc.2_Intron|MICAL2_uc001mkd.2_Intron|MICAL2_uc010rcj.1_Intron|MICAL2_uc001mkf.2_RNA	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	740						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		CTCCCAGGAACGCCGTGTCTC	0.577													19	185					0	0	0.008871	0	0		T	12262590	T	T	12262590	3	4	107	1	0	0	0	0	1	0	0	0	9588	536	19	1	2280	1	MICAL2	11	12262590	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	3529897	12262590	122743926	356	64703											
MICALCL	84953	broad.mit.edu	37	chr11	12345546	12345546	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagaagacacttagaagaAgaaagaagctagaaaaagca	24	3	10	4	0	0	8	0	0	0	8	0	8	0	8	0	0	2	2	0	0	10	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:12345546A>C	uc001mkg.1	+	5	1855	c.1564A>C	c.(1564-1566)AGA>CGA	p.R522R		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	522	Potential.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		ACTTAGAAGAAGAAAGAAGCT	0.338													15	87					0	0	0.024245	0	0		C	12345546	C	C	12345546	2	2	107	1	0	0	0	0	0	0	0	1	9590	64	3	5		5	MICALCL	11	12345546	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	82956	12345546	122660970	357	64704											
SAAL1	113174	broad.mit.edu	37	chr11	18124847	18124847	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatcaagctccgtcagcTgctcctcatcatctgagcta	8	12	6	15	1	6	1	5	1	1	0	8	1	8	1	2	0	4	4	2	0	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:18124847T>C	uc001mnq.2	-	2	232	c.182A>G	c.(181-183)CAG>CGG	p.Q61R	SAAL1_uc001mnr.2_Missense_Mutation_p.Q61R|SAAL1_uc001mns.2_RNA|SAAL1_uc009yhf.2_Missense_Mutation_p.Q61R	NM_138421	NP_612430	Q96ER3	SAAL1_HUMAN	serum amyloid A-like 1	61					acute-phase response	extracellular region	binding				0						CTCCGTCAGCTGCTCCTCATC	0.388													6	320					0	0	0.013537	0	0		C	18124847	C	C	18124847	3	2	107	1	0	0	0	0	1	0	0	0	13826	1580	55	3	1286	3	SAAL1	11	18124847	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	5779301	18124847	116881669	358	64705											
PRMT3	10196	broad.mit.edu	37	chr11	20473684	20473684	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttatgcagggctatttTcttctgtttgagtctatgtt	5	23	8	5	0	3	1	0	1	3	0	3	1	3	1	0	1	1	4	0	1	3	10			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:20473684T>A	uc001mqb.2	+	11	1219	c.1002T>A	c.(1000-1002)TTT>TTA	p.F334L	PRMT3_uc001mqc.2_Missense_Mutation_p.F257L|PRMT3_uc010rdn.1_Missense_Mutation_p.F272L	NM_005788	NP_005779	O60678	ANM3_HUMAN	protein arginine methyltransferase 3 isoform 1	334							zinc ion binding				0						AGGGCTATTTTCTTCTGTTTG	0.338													17	125					0	0	0.007413	0	0		A	20473684	A	A	20473684	3	1	107	1	0	0	0	0	1	0	0	0	12560	1780	62	5	1044	5	PRMT3	11	20473684	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2348837	20473684	114532832	359	64706											
ANO5	203859	broad.mit.edu	37	chr11	22301112	22301112	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgtgtttttagttaaatTtttgctggcctggatgatac	7	20	10	4	0	0	1	0	1	0	0	0	2	0	2	1	2	2	4	1	2	4	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:22301112T>G	uc001mqi.2	+	22	2860	c.2543T>G	c.(2542-2544)TTT>TGT	p.F848C	ANO5_uc001mqj.2_Missense_Mutation_p.F847C	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	848	Helical; (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						TTAGTTAAATTTTTGCTGGCC	0.363													13	99					0	0	0.013537	0	0		G	22301112	G	G	22301112	3	3	107	1	0	0	0	0	1	0	0	0	700	1841	64	5	2629	5	ANO5	11	22301112	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1827428	22301112	112705404	360	64707											
PAMR1	25891	broad.mit.edu	37	chr11	35454104	35454104	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatatcagaaggggcagTgggttcccagctggcacaga	11	6	15	9	0	1	3	1	0	0	3	2	3	2	3	1	4	1	5	1	4	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:35454104T>G	uc001mwg.2	-	11	2006	c.1963A>C	c.(1963-1965)ACT>CCT	p.T655P	PAMR1_uc001mwf.2_Missense_Mutation_p.T672P|PAMR1_uc010rew.1_Missense_Mutation_p.T544P|PAMR1_uc010rex.1_Missense_Mutation_p.T615P	NM_001001991	NP_001001991	Q6UXH9	PAMR1_HUMAN	regeneration associated muscle protease isoform	655	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						GAAGGGGCAGTGGGTTCCCAG	0.587													11	61					0	0	0.008291	0	0		G	35454104	G	G	35454104	3	3	107	1	0	0	0	0	1	0	0	0	11432	1696	59	5	203	5	PAMR1	11	35454104	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	13152992	35454104	99552412	361	64708											
OR5T3	390154	broad.mit.edu	37	chr11	56019824	56019824	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgacaggcttcacagatgAttttgagctgcaagtcttcc	10	13	9	9	0	2	4	1	3	1	1	3	4	3	4	1	1	2	3	1	1	1	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:56019824A>C	uc010rjd.1	+	1	149	c.149A>C	c.(148-150)GAT>GCT	p.D50A		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	50	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					TTCACAGATGATTTTGAGCTG	0.378													13	171					0	0	0.020292	0	0		C	56019824	C	C	56019824	3	2	107	1	0	0	0	0	1	0	0	0	11202	333	12	5	151	5	OR5T3	11	56019824	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	20565720	56019824	78986692	362	64709											
GLYAT	10249	broad.mit.edu	37	chr11	58480280	58480280	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgagttctggtgatccaAggaattcctgacagttttgg	9	14	12	6	0	1	4	0	4	1	0	3	5	3	5	2	3	0	2	2	3	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:58480280A>G	uc001nnb.2	-	4	424	c.269T>C	c.(268-270)CTT>CCT	p.L90P	GLYAT_uc001nnc.2_Missense_Mutation_p.L90P	NM_201648	NP_964011	Q6IB77	GLYAT_HUMAN	glycine-N-acyltransferase isoform a	90					acyl-CoA metabolic process|response to toxin|xenobiotic metabolic process	mitochondrial matrix	glycine N-acyltransferase activity|glycine N-benzoyltransferase activity				0		Breast(21;0.0044)|all_epithelial(135;0.0157)			Glycine(DB00145)	TGGTGATCCAAGGAATTCCTG	0.398													23	178					0	0	0.016522	0	0		G	58480280	G	G	58480280	3	3	107	1	0	0	0	0	1	0	0	0	6494	72	3	3	637	3	GLYAT	11	58480280	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2460456	58480280	76526236	363	64710											
GLYATL1	92292	broad.mit.edu	37	chr11	58723472	58723472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagtggcaccaatggacttGctacccacagaatctagttc	11	10	9	11	0	1	2	0	1	1	1	2	3	1	3	2	2	2	3	2	2	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:58723472G>A	uc001nnf.2	+	8	1257	c.881G>A	c.(880-882)TGC>TAC	p.C294Y	uc001nng.1_Intron|GLYATL1_uc001nnh.1_Missense_Mutation_p.C325Y|GLYATL1_uc001nni.1_Missense_Mutation_p.C294Y|GLYATL1_uc001nnj.1_Missense_Mutation_p.C294Y			Q969I3	GLYL1_HUMAN	SubName: Full=Glycine acyltransferase family-C; SubName: Full=Glycine-N-acyltransferase-like 1, isoform CRA_a;	294						mitochondrion	glycine N-acyltransferase activity			ovary(1)	1					Glycine(DB00145)	CAATGGACTTGCTACCCACAG	0.423													15	121					0	0	0.024245	0	0		A	58723472	A	A	58723472	3	1	107	1	0	0	0	0	1	0	0	0	6495	1319	46	2	1000	2	GLYATL1	11	58723472	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	243192	58723472	76283044	364	64711											
OR5A1	219982	broad.mit.edu	37	chr11	59211523	59211523	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaaccctctcatttacagTttgaggaacaaagagatcaa	15	10	7	9	0	2	3	2	2	1	1	3	5	2	4	1	1	3	1	1	1	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:59211523T>C	uc001nnx.1	+	1	882	c.882T>C	c.(880-882)AGT>AGC	p.S294S		NM_001004728	NP_001004728	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A,	294	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2						TCATTTACAGTTTGAGGAACA	0.453													9	323					0	0	0.004482	0	0		C	59211523	C	C	59211523	2	2	107	1	0	0	0	0	0	0	0	1	11158	1722	60	3		3	OR5A1	11	59211523	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	488051	59211523	75794993	365	64712											
RAB3IL1	5866	broad.mit.edu	37	chr11	61675527	61675527	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctactgcaggcacccaccTtctgcgctctgtgcagctcc	5	9	9	18	1	2	0	0	0	2	0	3	0	3	0	4	1	5	5	4	1	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:61675527T>G	uc001nso.2	-	2	421	c.263A>C	c.(262-264)AAG>ACG	p.K88T	RAB3IL1_uc001nsp.2_Missense_Mutation_p.K135T	NM_013401	NP_037533	Q8TBN0	R3GEF_HUMAN	RAB3A interacting protein (rabin3)-like 1	88	Potential.						protein binding			skin(2)|central_nervous_system(1)	3						GGCACCCACCTTCTGCGCTCT	0.637													4	81					0	0	0.009096	0	0		G	61675527	G	G	61675527	3	3	107	1	0	0	0	0	1	0	0	0	12962	1623	56	5	921	5	RAB3IL1	11	61675527	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2464004	61675527	73330989	366	64713											
AHNAK	79026	broad.mit.edu	37	chr11	62289401	62289401	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttggggcccttgatgtcaActtcagggcccttgaggtcg	5	12	13	11	1	2	2	2	2	0	0	3	2	2	2	2	4	1	0	2	4	1	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:62289401A>C	uc001ntl.2	-	5	12788	c.12488T>G	c.(12487-12489)GTT>GGT	p.V4163G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4163					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CTTGATGTCAACTTCAGGGCC	0.507													32	250					0	0	0.012213	0	0		C	62289401	C	C	62289401	3	2	107	1	0	0	0	0	1	0	0	0	414	43	2	5	5304	5	AHNAK	11	62289401	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	613874	62289401	72717115	367	64714											
AHNAK	79026	broad.mit.edu	37	chr11	62298592	62298592	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctctgatgtccacatcTggaacctgcatttcaccctc	8	11	7	15	0	3	1	1	1	2	0	5	3	4	3	4	2	2	1	4	2	1	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:62298592T>A	uc001ntl.2	-	5	3597	c.3297A>T	c.(3295-3297)CCA>CCT	p.P1099P	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1099					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TGTCCACATCTGGAACCTGCA	0.453													38	313					0	0	0.021022	0	0		A	62298592	A	A	62298592	2	1	107	1	0	0	0	0	0	0	0	1	414	1567	55	5		5	AHNAK	11	62298592	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	9191	62298592	72707924	368	64715											
EML3	256364	broad.mit.edu	37	chr11	62376884	62376884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcagctcctcaaggctgcGgatgccagacgggatgtaca	9	6	14	12	3	1	1	1	0	0	1	2	3	2	3	2	4	4	4	2	4	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:62376884G>A	uc001ntu.1	-	6	1008	c.700C>T	c.(700-702)CGC>TGC	p.R234C	EML3_uc001ntr.1_Missense_Mutation_p.R206C|EML3_uc001nts.1_Missense_Mutation_p.R206C|EML3_uc001ntt.1_Missense_Mutation_p.R118C|EML3_uc010rly.1_Missense_Mutation_p.R234C|EML3_uc009yny.1_Missense_Mutation_p.R17C	NM_153265	NP_694997	Q32P44	EMAL3_HUMAN	echinoderm microtubule associated protein like	234						cytoplasm|microtubule	protein binding			ovary(1)	1						TCAAGGCTGCGGATGCCAGAC	0.577													12	87					0	0	0.024245	0	0		A	62376884	A	A	62376884	3	1	107	1	0	0	0	0	1	0	0	0	5106	1116	39	1	2058	1	EML3	11	62376884	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	78292	62376884	72629632	369	64716											
RTN3	10313	broad.mit.edu	37	chr11	63521149	63521149	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagctgaactgctcatttTcagtgtcccgattgtctatg	8	15	8	10	1	3	1	2	1	1	0	4	2	4	1	1	0	4	2	1	0	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:63521149T>G	uc001nxq.2	+	7	3150	c.2963T>G	c.(2962-2964)TTC>TGC	p.F988C	RTN3_uc001nxo.2_Missense_Mutation_p.F192C|RTN3_uc001nxm.2_Missense_Mutation_p.F211C|RTN3_uc001nxn.2_Missense_Mutation_p.F969C|RTN3_uc001nxp.2_Missense_Mutation_p.F192C|RTN3_uc009yov.2_Missense_Mutation_p.F876C|RTN3_uc010rmt.1_RNA|RTN3_uc010rmu.1_Intron	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	988	Helical; (Potential).|Interaction with FADD.|Reticulon.				apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						CTGCTCATTTTCAGTGTCCCG	0.378													6	389					0	0	0.001984	0	0		G	63521149	G	G	63521149	3	3	107	1	0	0	0	0	1	0	0	0	13752	1783	62	5	2989	5	RTN3	11	63521149	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1144265	63521149	71485367	370	64717											
SF1	7536	broad.mit.edu	37	chr11	64536752	64536752	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaactcccgaagctgcatcTtccgtagatcattctggtcc	8	11	7	15	2	3	1	1	0	2	1	6	2	6	1	4	1	3	3	4	1	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:64536752T>G	uc001obb.1	-	7	1099	c.722A>C	c.(721-723)AAG>ACG	p.K241T	SF1_uc010rnm.1_5'Flank|SF1_uc010rnn.1_Missense_Mutation_p.K215T|SF1_uc001oaz.1_Missense_Mutation_p.K366T|SF1_uc001oba.1_Missense_Mutation_p.K241T|SF1_uc001obc.1_Missense_Mutation_p.K241T|SF1_uc001obd.1_Missense_Mutation_p.K241T|SF1_uc001obe.1_Missense_Mutation_p.K126T|SF1_uc010rno.1_Missense_Mutation_p.K126T	NM_004630	NP_004621	Q15637	SF01_HUMAN	splicing factor 1 isoform 1	241					nuclear mRNA 3'-splice site recognition|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ribosome|spliceosomal complex	protein binding|RNA binding|transcription corepressor activity|zinc ion binding			ovary(1)|breast(1)|skin(1)	3						AAGCTGCATCTTCCGTAGATC	0.473													23	119					0	0	0.021523	0	0		G	64536752	G	G	64536752	3	3	107	1	0	0	0	0	1	0	0	0	14170	1609	56	5	1363	5	SF1	11	64536752	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1015603	64536752	70469764	371	64718											
PPP2R5B	5526	broad.mit.edu	37	chr11	64694201	64694201	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagatgtgccggcttccgagCtgcacgagctgctgagccgg	6	7	15	13	4	0	2	0	1	0	1	1	4	1	2	3	2	6	5	3	2	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:64694201C>T	uc001oby.2	+	3	802	c.217C>T	c.(217-219)CTG>TTG	p.L73L	PPP2R5B_uc001obz.2_Silent_p.L73L	NM_006244	NP_006235	Q15173	2A5B_HUMAN	beta isoform of regulatory subunit B56, protein	73					signal transduction	cytoplasm|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(2)	2						GGCTTCCGAGCTGCACGAGCT	0.662													14	61					0	0	0.020292	0	0		T	64694201	T	T	64694201	2	4	107	1	0	0	0	0	0	0	0	1	12415	796	28	2		2	PPP2R5B	11	64694201	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	157449	64694201	70312315	372	64719											
B3GNT1	11041	broad.mit.edu	37	chr11	66113606	66113606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttattgtgctgattttcagCctccttttggggatggaact	6	17	10	8	0	1	1	1	1	0	0	2	3	2	3	2	3	3	1	2	3	2	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:66113606C>T	uc001ohr.2	-	2	1307	c.1162G>A	c.(1162-1164)GCT>ACT	p.A388T	BRMS1_uc001ohp.1_5'Flank|BRMS1_uc001oho.1_5'Flank	NM_006876	NP_006867	O43505	B3GN1_HUMAN	UDP-GlcNAc:betaGal	388	Lumenal (Potential).				poly-N-acetyllactosamine biosynthetic process	integral to Golgi membrane	N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase activity				0						TGATTTTCAGCCTCCTTTTGG	0.512													38	242					0	0	0.021022	0	0		T	66113606	T	T	66113606	3	4	107	1	0	0	0	0	1	0	0	0	1257	739	26	2	89	2	B3GNT1	11	66113606	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1419405	66113606	68892910	373	64720											
PC	5091	broad.mit.edu	37	chr11	66617526	66617526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcttcggcctctgcccggCtcaatccattctgcaccata	7	10	8	16	2	3	0	1	0	2	0	5	1	4	0	4	2	3	3	4	2	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:66617526C>T	uc001ojn.1	-	18	2829	c.2780G>A	c.(2779-2781)AGC>AAC	p.S927N	PC_uc001ojo.1_Missense_Mutation_p.S927N|PC_uc001ojp.1_Missense_Mutation_p.S927N|PC_uc001ojm.1_5'Flank	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	927					gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	CTCTGCCCGGCTCAATCCATT	0.642													10	145					0	0	0.016723	0	0		T	66617526	T	T	66617526	3	4	107	1	0	0	0	0	1	0	0	0	11516	797	28	2	772	2	PC	11	66617526	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	503920	66617526	68388990	374	64721											
KRTAP5-8	57830	broad.mit.edu	37	chr11	71249236	71249236	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgctgtgtgccagcctgTtcctgctccagctgtggctc	2	13	12	14	0	0	0	0	0	0	0	3	0	2	0	4	1	6	6	4	1	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:71249236T>G	uc001oqr.1	+	1	166	c.135T>G	c.(133-135)TGT>TGG	p.C45W		NM_021046	NP_066384	O75690	KRA58_HUMAN	keratin associated protein 5-8	45	9 X 4 AA repeats of C-C-X-P.					extracellular region|keratin filament	structural constituent of epidermis				0						TGCCAGCCTGTTCCTGCTCCA	0.692													28	168					0	0	0.019004	0	0		G	71249236	G	G	71249236	3	3	107	1	0	0	0	0	1	0	0	0	8583	1731	60	5	137	5	KRTAP5-8	11	71249236	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	4631710	71249236	63757280	375	64722											
KRTAP5-9	3846	broad.mit.edu	37	chr11	71259851	71259851	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcccgtgtgctgctgtgttCcagcctgttcctgctctagc	3	13	11	14	1	1	0	0	0	1	0	3	0	3	0	4	0	6	5	4	0	1	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:71259851C>A	uc001oqs.1	+	1	386	c.148C>A	c.(148-150)CCA>ACA	p.P50T		NM_005553	NP_005544	P26371	KRA59_HUMAN	keratin associated protein 5-9	50	3.|8 X 4 AA repeats of C-C-X-P.				epidermis development	keratin filament					0						CTGCTGTGTTCCAGCCTGTTC	0.647													38	180					1.57019e-19	1.67234e-19	0.007835	1	0		A	71259851	A	A	71259851	3	1	107	1	0	0	0	0	1	0	0	0	8584	855	30	5	150	5	KRTAP5-9	11	71259851	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	10615	71259851	63746665	376	64723											
INPPL1	3636	broad.mit.edu	37	chr11	71939801	71939801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaagcccccgctgccccCgcgctctggctccaccagca	6	5	10	20	3	1	1	0	1	1	1	2	2	2	1	6	1	3	4	6	1	1	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:71939801C>T	uc001osf.2	+	4	575	c.428C>T	c.(427-429)CCG>CTG	p.P143L	INPPL1_uc001osg.2_5'UTR	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	143					actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						CCGCTGCCCCCGCGCTCTGGC	0.672													11	43					0	0	0.008291	0	0		T	71939801	T	T	71939801	3	4	107	1	0	0	0	0	1	0	0	0	7777	652	23	1	442	1	INPPL1	11	71939801	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	679950	71939801	63066715	377	64724											
KCTD14	65987	broad.mit.edu	37	chr11	77727862	77727862	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaacacaggacctctgaaTaatatgcatcctgctcctca	14	9	6	12	0	2	1	1	1	1	0	4	3	4	2	3	1	3	2	3	1	5	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:77727862T>C	uc001oyw.3	-	2	570	c.545A>G	c.(544-546)TAT>TGT	p.Y182C		NM_023930	NP_076419	Q9BQ13	KCD14_HUMAN	potassium channel tetramerisation domain	182						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1e-24)			GACCTCTGAATAATATGCATC	0.532													46	280					0	0	0.013114	0	0		C	77727862	C	C	77727862	3	2	107	1	0	0	0	0	1	0	0	0	8117	1406	49	3	226	3	KCTD14	11	77727862	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	5788061	77727862	57278654	378	64725											
NOX4	50507	broad.mit.edu	37	chr11	89073338	89073338	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgtatggtttccagtcatCcctttaaaatgaaaataaca	14	14	5	8	0	1	1	1	1	0	0	3	1	3	1	2	1	1	2	2	1	6	6	rs55696571		TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:89073338C>A	uc001pct.2	-	15	1578	c.1339G>T	c.(1339-1341)GAT>TAT	p.D447Y	NOX4_uc009yvr.2_Missense_Mutation_p.D422Y|NOX4_uc001pcu.2_Missense_Mutation_p.D373Y|NOX4_uc001pcw.2_Missense_Mutation_p.D140Y|NOX4_uc001pcx.2_Missense_Mutation_p.D100Y|NOX4_uc001pcv.2_Missense_Mutation_p.D407Y|NOX4_uc009yvo.2_RNA|NOX4_uc010rtu.1_Missense_Mutation_p.D281Y|NOX4_uc009yvp.2_Missense_Mutation_p.D211Y|NOX4_uc010rtv.1_Missense_Mutation_p.D383Y|NOX4_uc009yvq.2_Missense_Mutation_p.D423Y	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	447	Cytoplasmic (Potential).|Mediates interaction with TLR4.				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				TTCCAGTCATCCCTTTAAAAT	0.328													18	165					8.00594e-06	8.2885e-06	0.007413	1	0		A	89073338	A	A	89073338	3	1	107	1	0	0	0	0	1	0	0	0	10577	869	30	5	413	5	NOX4	11	89073338	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	11345476	89073338	45933178	379	64726											
AMOTL1	154810	broad.mit.edu	37	chr11	94528193	94528193	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagggtccccttctgcttgTtatagccccagtagtcctgt	5	13	9	14	0	1	0	0	0	1	0	3	0	3	0	6	1	2	3	6	1	3	5	rs138638061	by1000genomes	TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:94528193T>C	uc001pfb.2	+	2	236	c.66T>C	c.(64-66)TGT>TGC	p.C22C	AMOTL1_uc001pfc.2_Intron	NM_130847	NP_570899	Q8IY63	AMOL1_HUMAN	angiomotin like 1	22						cytoplasm|tight junction	identical protein binding			ovary(1)|breast(1)	2		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				CTTCTGCTTGTTATAGCCCCA	0.507													4	126					0	0	0.014758	0	0		C	94528193	C	C	94528193	2	2	107	1	0	0	0	0	0	0	0	1	583	1731	60	3		3	AMOTL1	11	94528193	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	5454855	94528193	40478323	380	64727											
FAM76B	143684	broad.mit.edu	37	chr11	95516419	95516419	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagagccagcataataactTtccatcaaccttttaagaaa	17	10	4	10	0	1	2	1	0	0	2	2	2	2	2	3	0	4	1	3	0	5	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:95516419T>G	uc001pfn.2	-	5	685	c.373A>C	c.(373-375)AAG>CAG	p.K125Q	FAM76B_uc001pfm.2_RNA	NM_144664	NP_653265	Q5HYJ3	FA76B_HUMAN	hypothetical protein LOC143684	125											0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CATAATAACTTTCCATCAACC	0.348													4	122					0	0	0.014758	0	0		G	95516419	G	G	95516419	3	3	107	1	0	0	0	0	1	0	0	0	5639	1850	64	5	670	5	FAM76B	11	95516419	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	988226	95516419	39490097	381	64728											
JRKL	8690	broad.mit.edu	37	chr11	96125232	96125232	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaatagaactaattccagaGaaacatattaatcatgcagc	19	9	6	7	0	1	2	1	0	0	2	2	4	2	2	1	0	4	1	1	0	7	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:96125232G>A	uc009ywu.2	+	2	1671	c.1419G>A	c.(1417-1419)GAG>GAA	p.E473E	CCDC82_uc001pfx.3_5'Flank|CCDC82_uc009ywr.2_5'Flank|CCDC82_uc009ywt.1_5'Flank|JRKL_uc001pfy.2_Silent_p.E473E	NM_003772	NP_003763	Q9Y4A0	JERKL_HUMAN	jerky homolog-like	473					central nervous system development|regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)		BRCA - Breast invasive adenocarcinoma(274;0.148)		TAATTCCAGAGAAACATATTA	0.393													7	57					0	0	0.00308	0	0		A	96125232	A	A	96125232	2	1	107	1	0	0	0	0	0	0	0	1	7981	933	33	4		4	JRKL	11	96125232	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	608813	96125232	38881284	382	64729											
DYNC2H1	79659	broad.mit.edu	37	chr11	102984309	102984309	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagtgctggtgtttttcaAgctgcgacctgaagtaatta	11	14	10	6	1	1	1	1	1	0	0	1	2	1	1	1	1	3	4	1	1	6	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:102984309A>G	uc001pho.2	+	2	383	c.239A>G	c.(238-240)AAG>AGG	p.K80R	DYNC2H1_uc001phn.1_Missense_Mutation_p.K80R|DYNC2H1_uc009yxe.1_Missense_Mutation_p.K80R	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	80	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		GTGTTTTTCAAGCTGCGACCT	0.303													9	164					0	0	0.008291	0	0		G	102984309	G	G	102984309	3	3	107	1	0	0	0	0	1	0	0	0	4852	72	3	3	245	3	DYNC2H1	11	102984309	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	6859077	102984309	32022207	383	64730											
DYNC2H1	79659	broad.mit.edu	37	chr11	102984404	102984404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagttctctttaccaagcaGtacggcaagtattcgcacca	11	12	7	11	2	1	0	0	0	1	0	3	0	1	0	2	1	3	6	2	1	6	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:102984404G>A	uc001pho.2	+	2	478	c.334G>A	c.(334-336)GTA>ATA	p.V112I	DYNC2H1_uc001phn.1_Missense_Mutation_p.V112I|DYNC2H1_uc009yxe.1_Missense_Mutation_p.V112I	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	112	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TTACCAAGCAGTACGGCAAGT	0.328													12	78					0	0	0.013537	0	0		A	102984404	A	A	102984404	3	1	107	1	0	0	0	0	1	0	0	0	4852	1029	36	4	340	4	DYNC2H1	11	102984404	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	95	102984404	32022112	384	64731											
PDGFD	80310	broad.mit.edu	37	chr11	103814315	103814315	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtatcaaattctgcaatttTtttgtccagagcatccgcaa	11	15	6	9	1	2	1	1	0	1	1	4	1	4	1	2	0	2	4	2	0	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:103814315T>G	uc001phq.2	-	5	1009	c.637A>C	c.(637-639)AAA>CAA	p.K213Q	PDGFD_uc001php.2_Missense_Mutation_p.K207Q	NM_025208	NP_079484	Q9GZP0	PDGFD_HUMAN	platelet derived growth factor D isoform 1	213					positive regulation of cell division	endoplasmic reticulum lumen|extracellular region|Golgi membrane	growth factor activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Melanoma(852;0.0563)|all_neural(303;0.165)		BRCA - Breast invasive adenocarcinoma(274;0.00136)|Epithelial(105;0.111)		TCTGCAATTTTTTTGTCCAGA	0.433													12	60					0	0	0.013537	0	0		G	103814315	G	G	103814315	3	3	107	1	0	0	0	0	1	0	0	0	11679	1850	64	5	487	5	PDGFD	11	103814315	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	829911	103814315	31192201	385	64732											
ARHGAP20	57569	broad.mit.edu	37	chr11	110462822	110462822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggtgagtgctagaacctCgccagaaggcccagtttatg	10	8	12	11	1	0	3	0	1	0	2	1	3	0	3	4	2	2	2	4	2	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:110462822C>T	uc001pkz.1	-	11	1307	c.1022G>A	c.(1021-1023)CGA>CAA	p.R341Q	ARHGAP20_uc001pky.1_Missense_Mutation_p.R318Q|ARHGAP20_uc009yyb.1_Missense_Mutation_p.R305Q|ARHGAP20_uc001pla.1_Missense_Mutation_p.R305Q|ARHGAP20_uc001plb.2_5'Flank	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	341					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		GCTAGAACCTCGCCAGAAGGC	0.418													31	211					0	0	0.015359	0	0		T	110462822	T	T	110462822	3	4	107	1	0	0	0	0	1	0	0	0	870	884	31	1	2577	1	ARHGAP20	11	110462822	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	6648507	110462822	24543694	386	64733											
BCO2	83875	broad.mit.edu	37	chr11	112065392	112065392	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggtagattggagcaaatTtattgctgtgaatggagcaa	13	11	13	4	0	0	2	0	1	0	1	0	4	0	4	0	3	3	5	0	3	5	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:112065392T>G	uc001pnf.2	+	5	767	c.650T>G	c.(649-651)TTT>TGT	p.F217C	BCO2_uc001pne.1_Missense_Mutation_p.F44C|BCO2_uc001png.2_Intron|BCO2_uc001pnh.2_Missense_Mutation_p.F183C|BCO2_uc010rwt.1_Missense_Mutation_p.F112C|BCO2_uc009yyn.2_Missense_Mutation_p.F183C|BCO2_uc001pni.2_Missense_Mutation_p.F183C	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	217					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TGGAGCAAATTTATTGCTGTG	0.373													24	157					0	0	0.021523	0	0		G	112065392	G	G	112065392	3	3	107	1	0	0	0	0	1	0	0	0	1386	1841	64	5	668	5	BCO2	11	112065392	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1602570	112065392	22941124	387	64734											
FAM55D	54827	broad.mit.edu	37	chr11	114453400	114453400	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgaagcacctgccatcAgcgctggggaagacatcctg	9	8	11	13	1	1	2	1	1	0	1	3	3	3	3	4	2	3	2	4	2	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:114453400A>G	uc001ppc.2	-	3	621	c.440T>C	c.(439-441)CTG>CCG	p.L147P	FAM55D_uc001ppd.2_Intron	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	147						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		ACCTGCCATCAGCGCTGGGGA	0.587													10	55					0	0	0.006214	0	0		G	114453400	G	G	114453400	3	3	107	1	0	0	0	0	1	0	0	0	5601	188	7	3	1210	3	FAM55D	11	114453400	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2388008	114453400	20553116	388	64735											
C2CD2L	9854	broad.mit.edu	37	chr11	118981567	118981567	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtctgtagttggaagtcaAcctggaggaaatccctggtg	9	11	13	8	0	2	0	1	0	1	0	3	3	3	3	2	4	1	2	2	4	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:118981567A>C	uc001pvo.2	+	4	940	c.581A>C	c.(580-582)AAC>ACC	p.N194T	DPAGT1_uc010ryz.1_5'Flank|C2CD2L_uc001pvn.2_Missense_Mutation_p.N194T	NM_014807	NP_055622	O14523	C2C2L_HUMAN	transmembrane protein 24	194						integral to membrane					0						TTGGAAGTCAACCTGGAGGAA	0.547													36	281					0	0	0.021022	0	0		C	118981567	C	C	118981567	3	2	107	1	0	0	0	0	1	0	0	0	2156	43	2	5	595	5	C2CD2L	11	118981567	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4528167	118981567	16024949	389	64736											
GRIK4	2900	broad.mit.edu	37	chr11	120673464	120673464	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctccatcaccctggccAagaaccgcatcaaccgcgct	9	6	8	18	3	3	1	2	0	1	1	4	1	3	1	5	2	2	3	5	2	3	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:120673464A>G	uc001pxn.2	+	4	432	c.145A>G	c.(145-147)AAG>GAG	p.K49E	GRIK4_uc009zav.1_Missense_Mutation_p.K49E|GRIK4_uc009zaw.1_Missense_Mutation_p.K49E|GRIK4_uc009zax.1_Missense_Mutation_p.K49E	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	49	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	CACCCTGGCCAAGAACCGCAT	0.582											OREG0021427	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	105					0	0	0.00499	0	0		G	120673464	G	G	120673464	3	3	107	1	0	0	0	0	1	0	0	0	6792	131	5	3	151	3	GRIK4	11	120673464	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1691897	120673464	14333052	390	64737											
TBCEL	219899	broad.mit.edu	37	chr11	120916421	120916421	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatcaacctagtggaagaAgtttcatgcaagtattatgt	13	13	10	5	0	2	1	2	0	0	1	2	3	2	3	1	2	2	3	1	2	7	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:120916421A>C	uc009zay.2	+	2	100	c.22A>C	c.(22-24)AGT>CGT	p.S8R	TBCEL_uc001pxo.2_Missense_Mutation_p.S8R|TBCEL_uc001pxp.2_5'UTR|TBCEL_uc001pxq.2_RNA	NM_001130047	NP_001123519	Q5QJ74	TBCEL_HUMAN	tubulin folding cofactor E-like	8						cytoplasm|cytoskeleton				skin(1)	1		Breast(109;0.00526)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.89e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.121)		TAGTGGAAGAAGTTTCATGCA	0.353													10	96					0	0	0.010729	0	0		C	120916421	C	C	120916421	3	2	107	1	0	0	0	0	1	0	0	0	15660	72	3	5	24	5	TBCEL	11	120916421	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	242957	120916421	14090095	391	64738											
CHEK1	1111	broad.mit.edu	37	chr11	125513723	125513723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtcacttcaggtggtgtgtCagagtctcccagtggatttt	7	14	12	8	0	4	1	3	0	1	1	5	2	4	2	1	3	0	0	1	3	0	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:125513723C>T	uc009zbo.2	+	9	1743	c.851C>T	c.(850-852)TCA>TTA	p.S284L	CHEK1_uc010sbh.1_Missense_Mutation_p.S300L|CHEK1_uc010sbi.1_Missense_Mutation_p.S284L|CHEK1_uc001qcf.3_Missense_Mutation_p.S284L|CHEK1_uc009zbp.2_Missense_Mutation_p.S284L|CHEK1_uc001qcg.3_Missense_Mutation_p.S284L|CHEK1_uc009zbq.2_Missense_Mutation_p.S284L|CHEK1_uc001qci.1_RNA|CHEK1_uc001qcj.2_5'Flank	NM_001114122	NP_001107594	O14757	CHK1_HUMAN	checkpoint kinase 1	284					cellular response to mechanical stimulus|DNA repair|DNA replication|gamete generation|negative regulation of cell proliferation|reciprocal meiotic recombination|regulation of cyclin-dependent protein kinase activity|replicative senescence	condensed nuclear chromosome|microtubule organizing center|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|skin(1)	6	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0748)		GGTGGTGTGTCAGAGTCTCCC	0.378								Other_conserved_DNA_damage_response_genes					8	104					0	0	0.008291	0	0		T	125513723	T	T	125513723	3	4	107	1	0	0	0	0	1	0	0	0	3337	838	29	4	881	4	CHEK1	11	125513723	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	4597302	125513723	9492793	392	64739											
CDON	50937	broad.mit.edu	37	chr11	125864268	125864268	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgaatgggagtgttattgTtacttgatggaatgtactaa	11	16	11	3	0	0	2	0	2	0	0	0	4	0	4	0	2	2	3	0	2	6	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr11:125864268T>A	uc009zbw.2	-	14	2689	c.2561A>T	c.(2560-2562)AAC>ATC	p.N854I	CDON_uc001qdb.3_Missense_Mutation_p.N231I|CDON_uc001qdc.3_Missense_Mutation_p.N854I	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	854	Extracellular (Potential).|Fibronectin type-III 3.				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		AGTGTTATTGTTACTTGATGG	0.343													9	65					0	0	0.004482	0	0		A	125864268	A	A	125864268	3	1	107	1	0	0	0	0	1	0	0	0	3173	1725	60	5	1261	5	CDON	11	125864268	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	350545	125864268	9142248	393	64740											
KDM5A	5927	broad.mit.edu	37	chr12	401986	401986	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcattctcatcatcagacTcctctgctcctgaccagtca	9	11	5	16	0	5	2	4	1	2	1	8	2	7	2	3	0	2	2	3	0	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:401986T>C	uc001qif.1	-	27	5168	c.4805A>G	c.(4804-4806)GAG>GGG	p.E1602G	KDM5A_uc001qie.1_Missense_Mutation_p.E1607G	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	1602					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						ATCATCAGACTCCTCTGCTCC	0.478			T 	NUP98	AML								4	236					0	0	0.009096	0	0		C	401986	C	C	401986	3	2	107	1	0	0	0	0	1	0	0	0	8149	1551	54	3	275	3	KDM5A	12	401986	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08		401986	133449909	394	64741											
ITFG2	55846	broad.mit.edu	37	chr12	2929369	2929369	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggcagctggtgtccctcaAgaaatggatgctggagggtc	9	8	16	8	0	1	1	1	0	0	1	3	3	2	3	1	5	2	3	1	5	2	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:2929369A>C	uc001qlb.1	+	5	588	c.524A>C	c.(523-525)AAG>ACG	p.K175T	ITFG2_uc010seb.1_5'UTR|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	175											0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GTGTCCCTCAAGAAATGGATG	0.602													6	32					0	0	0.021553	0	0		C	2929369	C	C	2929369	3	2	107	1	0	0	0	0	1	0	0	0	7886	72	3	5	542	5	ITFG2	12	2929369	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2527383	2929369	130922526	395	64742											
GRIN2B	2904	broad.mit.edu	37	chr12	13717464	13717464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagccatgttcttggccgtgCgcagcaggcgcaggatgttg	6	10	15	10	3	1	0	0	0	1	0	1	1	1	1	2	3	3	5	2	3	1	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:13717464C>T	uc001rbt.2	-	13	2887	c.2708G>A	c.(2707-2709)CGC>CAC	p.R903H		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	903	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CTTGGCCGTGCGCAGCAGGCG	0.582													21	232					0	0	0.016522	0	0		T	13717464	T	T	13717464	3	4	107	1	0	0	0	0	1	0	0	0	6796	768	27	1	1750	1	GRIN2B	12	13717464	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	10788095	13717464	120134431	396	64743											
PIK3C2G	5288	broad.mit.edu	37	chr12	18691172	18691172	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccacagcattttcaagatTttgtggaactttgctgtcgt	9	15	8	9	1	1	1	1	0	0	1	2	2	1	2	1	1	3	2	1	1	2	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:18691172T>G	uc001rdt.2	+	24	3399	c.3283T>G	c.(3283-3285)TTT>GTT	p.F1095V	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.F1136V|PIK3C2G_uc010sic.1_Missense_Mutation_p.F914V	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	1095	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				TTTTCAAGATTTTGTGGAACT	0.393													3	123					0	0	0.004672	0	0		G	18691172	G	G	18691172	3	3	107	1	0	0	0	0	1	0	0	0	11930	1841	64	5	3373	5	PIK3C2G	12	18691172	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	4973708	18691172	115160723	397	64744											
KCNJ8	3764	broad.mit.edu	37	chr12	21918912	21918912	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaacagtgttgccaaatttGgagtaatccacagaatacac	15	11	7	8	0	0	1	0	0	0	1	1	2	1	2	2	1	3	2	2	1	5	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:21918912G>T	uc001rff.2	-	3	1358	c.1020C>A	c.(1018-1020)TCC>TCA	p.S340S		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	340	Cytoplasmic (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	TGCCAAATTTGGAGTAATCCA	0.493													20	163					1.2644e-06	1.31096e-06	0.010504	1	0		T	21918912	T	T	21918912	2	4	107	1	0	0	0	0	0	0	0	1	8072	1335	47	5		5	KCNJ8	12	21918912	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	3227740	21918912	111932983	398	64745											
ITPR2	3709	broad.mit.edu	37	chr12	26875410	26875410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcagcatccaaggacaCacgcatggcattcttctcca	10	9	7	15	1	2	0	0	0	2	0	5	1	4	1	3	2	2	4	3	2	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:26875410C>T	uc001rhg.2	-	5	862	c.445G>A	c.(445-447)GTG>ATG	p.V149M	ITPR2_uc001rhh.1_Missense_Mutation_p.V87M|ITPR2_uc001rhi.1_Missense_Mutation_p.V149M	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	149	MIR 1.|Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					TCCAAGGACACACGCATGGCA	0.383													25	187					0	0	0.007291	0	0		T	26875410	T	T	26875410	3	4	107	1	0	0	0	0	1	0	0	0	7937	478	17	4	7872	4	ITPR2	12	26875410	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	4956498	26875410	106976485	399	64746											
FGD4	121512	broad.mit.edu	37	chr12	32791654	32791654	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagtatatggagaagtcAaaaccttggcagaaagcttg	14	10	10	7	0	2	2	2	0	0	2	2	3	2	2	1	2	2	3	1	2	6	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:32791654A>C	uc001rkz.2	+	16	2445	c.1968A>C	c.(1966-1968)TCA>TCC	p.S656S	FGD4_uc001rlc.2_Silent_p.S741S|FGD4_uc001rky.2_Silent_p.S408S|FGD4_uc001rla.2_Silent_p.S312S|FGD4_uc010ske.1_Silent_p.S768S|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	656	PH 2.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					TGGAGAAGTCAAAACCTTGGC	0.433													3	122					0	0	0.004672	0	0		C	32791654	C	C	32791654	2	2	107	1	0	0	0	0	0	0	0	1	5849	117	5	5		5	FGD4	12	32791654	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	5916244	32791654	101060241	400	64747											
SFRS2IP	9169	broad.mit.edu	37	chr12	46320310	46320310	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaccaaagtttttattccaAgaatttcctgaattttcatt	13	17	4	7	0	1	2	1	1	0	1	3	3	3	2	3	0	1	1	3	0	6	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:46320310A>G	uc001rox.2	-	11	3461	c.3174T>C	c.(3172-3174)TCT>TCC	p.S1058S	SFRS2IP_uc001row.2_Silent_p.S743S|SFRS2IP_uc001roy.1_Silent_p.S1132S	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	1058					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		TTTTATTCCAAGAATTTCCTG	0.398													5	162					0	0	0.021553	0	0		G	46320310	G	G	46320310	2	3	107	1	0	0	0	0	0	0	0	1	14202	59	3	3		3	SFRS2IP	12	46320310	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	13528656	46320310	87531585	401	64748											
LACRT	90070	broad.mit.edu	37	chr12	55026976	55026976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggactcacaggtcccagcttCctgggcaggatcagcacccg	8	6	12	15	1	2	0	2	0	0	0	4	2	4	2	3	4	2	3	3	4	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:55026976C>T	uc001sgi.1	-	2	138	c.100G>A	c.(100-102)GAA>AAA	p.E34K		NM_033277	NP_150593	Q9GZZ8	LACRT_HUMAN	lacritin precursor	34					calcineurin-NFAT signaling pathway|positive regulation of epithelial cell proliferation|positive regulation of NFAT protein import into nucleus|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of secretion|protein localization in Golgi apparatus|tear secretion	extracellular region|stored secretory granule	collagen binding|fibronectin binding|glycoprotein binding|growth factor activity|laminin-1 binding|protein N-terminus binding			central_nervous_system(1)	1						GTCCCAGCTTCCTGGGCAGGA	0.582													55	321					0	0	0.01441	0	0		T	55026976	T	T	55026976	3	4	107	1	0	0	0	0	1	0	0	0	8612	864	30	4	332	4	LACRT	12	55026976	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	8706666	55026976	78824919	402	64749											
OR6C4	341418	broad.mit.edu	37	chr12	55945482	55945482	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctagcaatcttaccaccaAtcatcctgatgacccaggta	12	10	5	14	0	2	2	1	2	1	0	4	2	4	2	5	1	2	2	5	1	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:55945482A>C	uc010spp.1	+	1	472	c.472A>C	c.(472-474)ATC>CTC	p.I158L		NM_001005494	NP_001005494	Q8NGE1	OR6C4_HUMAN	olfactory receptor, family 6, subfamily C,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTACCACCAATCATCCTGAT	0.478													6	241					0	0	0.021553	0	0		C	55945482	C	C	55945482	3	2	107	1	0	0	0	0	1	0	0	0	11212	101	4	5	474	5	OR6C4	12	55945482	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	918506	55945482	77906413	403	64750											
ESYT1	23344	broad.mit.edu	37	chr12	56530645	56530645	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctcagcagctctggtccaAactccagactctatatgaaa	13	9	7	12	0	3	2	1	1	2	1	5	2	5	2	2	1	4	3	2	1	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:56530645A>C	uc001sjq.2	+	16	1800	c.1750A>C	c.(1750-1752)AAC>CAC	p.N584H	ESYT1_uc001sjr.2_Missense_Mutation_p.N594H	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	584						integral to membrane				ovary(4)|skin(1)	5						CTCTGGTCCAAACTCCAGACT	0.527													18	129					0	0	0.00499	0	0		C	56530645	C	C	56530645	3	2	107	1	0	0	0	0	1	0	0	0	5272	14	1	5	1842	5	ESYT1	12	56530645	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	585163	56530645	77321250	404	64751											
MYO1A	4640	broad.mit.edu	37	chr12	57437101	57437101	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaaagctctctctacttCttctgaattcaagcccacca	11	11	4	15	0	5	1	1	1	4	0	6	1	5	1	2	0	3	2	2	0	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:57437101C>A	uc001smw.3	-	11	1177	c.934G>T	c.(934-936)GAA>TAA	p.E312*	MYO1A_uc010sqz.1_Nonsense_Mutation_p.E150*|MYO1A_uc009zpd.2_Nonsense_Mutation_p.E312*	NM_005379	NP_005370	Q9UBC5	MYO1A_HUMAN	myosin IA	312	Myosin head-like.				sensory perception of sound|vesicle localization	brush border|cortical actin cytoskeleton|filamentous actin|lateral plasma membrane|microvillus|myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|urinary_tract(1)	7						CTCTCTACTTCTTCTGAATTC	0.507													19	107					2.94398e-08	3.07046e-08	0.007413	1	0		A	57437101	A	A	57437101	4	1	107	1	0	0	0	0	0	1	0	0	10086	922	32	5	2269	5	MYO1A	12	57437101	Nonsense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	906456	57437101	76414794	405	64752											
DPY19L2	283417	broad.mit.edu	37	chr12	64061913	64061913	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccggagctgcgccagggaAttacggacgaactggaaggg	10	5	16	10	4	0	0	0	0	0	0	1	5	1	4	2	5	4	1	2	5	4	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:64061913A>G	uc001srp.1	-	1	442	c.261T>C	c.(259-261)AAT>AAC	p.N87N	DPY19L2_uc009zqk.1_RNA	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	87					multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		GCGCCAGGGAATTACGGACGA	0.612													28	148					0	0	0.007291	0	0		G	64061913	G	G	64061913	2	3	107	1	0	0	0	0	0	0	0	1	4747	98	4	3		3	DPY19L2	12	64061913	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	6624812	64061913	69789982	406	64753											
WIF1	11197	broad.mit.edu	37	chr12	65460501	65460501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagtccaccattcatacatCgtggggtacaaagggcttat	13	10	9	9	1	1	0	1	0	0	0	3	0	2	0	2	3	2	2	2	3	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:65460501C>T	uc001ssk.2	-	6	795	c.650G>A	c.(649-651)CGA>CAA	p.R217Q		NM_007191	NP_009122	Q9Y5W5	WIF1_HUMAN	WNT inhibitory factor 1 precursor	217	EGF-like 2.				multicellular organismal development|Wnt receptor signaling pathway	extracellular region	protein tyrosine kinase activity			ovary(2)|lung(1)|skin(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0231)		ATTCATACATCGTGGGGTACA	0.423			T	HMGA2	pleomorphic salivary gland adenoma								7	46					0	0	0.001984	0	0		T	65460501	T	T	65460501	3	4	107	1	0	0	0	0	1	0	0	0	17392	884	31	1	509	1	WIF1	12	65460501	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1398588	65460501	68391394	407	64754											
NUP107	57122	broad.mit.edu	37	chr12	69085815	69085815	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgttccgggctgttcacaaAcacagagccccacagtataa	12	7	9	13	2	1	1	1	0	0	1	2	1	2	1	3	1	2	4	3	1	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:69085815A>C	uc001suf.2	+	5	486	c.371A>C	c.(370-372)AAC>ACC	p.N124T	NUP107_uc001sug.2_Intron|NUP107_uc010stj.1_Missense_Mutation_p.N95T	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	124					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			CTGTTCACAAACACAGAGCCC	0.403													3	140					0	0	0.004672	0	0		C	69085815	C	C	69085815	3	2	107	1	0	0	0	0	1	0	0	0	10772	43	2	5	389	5	NUP107	12	69085815	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3625314	69085815	64766080	408	64755											
SLC35E3	55508	broad.mit.edu	37	chr12	69141776	69141776	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtttaatttccttggaatgGtgtttgctgctcttggtgtt	5	20	11	5	0	1	0	0	0	1	0	2	1	2	1	1	3	2	5	1	3	2	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:69141776G>C	uc001suh.2	+	2	691	c.469G>C	c.(469-471)GTG>CTG	p.V157L		NM_018656	NP_061126	Q7Z769	S35E3_HUMAN	solute carrier family 35, member E2	157	Helical; (Potential).					integral to membrane					0	Breast(13;2.31e-06)|Renal(347;0.0684)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00372)			CCTTGGAATGGTGTTTGCTGC	0.308													4	312					0	0	0.009096	0	0		C	69141776	C	C	69141776	3	2	107	1	0	0	0	0	1	0	0	0	14611	1261	44	5	475	5	SLC35E3	12	69141776	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	55961	69141776	64710119	409	64756											
PTPRR	5801	broad.mit.edu	37	chr12	71092045	71092045	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tataaaatcaagaagcttacTtggtaaaatggtcttatagc	16	13	7	5	0	2	1	1	0	1	1	2	1	2	1	0	2	3	2	0	2	10	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:71092045T>G	uc001swi.1	-	8	1695	c.1279A>C	c.(1279-1281)AAT>CAT	p.N427H	PTPRR_uc001swh.1_Missense_Mutation_p.N182H|PTPRR_uc009zrs.2_Missense_Mutation_p.N276H|PTPRR_uc010stq.1_Missense_Mutation_p.N315H|PTPRR_uc010str.1_Missense_Mutation_p.N276H	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	427	Tyrosine-protein phosphatase.|Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		AGAAGCTTACTTGGTAAAATG	0.204													4	120					0	0	0.009096	0	0		G	71092045	G	G	71092045	3	3	107	1	0	0	0	0	1	0	0	0	12835	1623	56	5	722	5	PTPRR	12	71092045	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1950269	71092045	62759850	410	64757											
GLIPR1L2	144321	broad.mit.edu	37	chr12	75816695	75816695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgtagaggaacactgaCgagaagaccttatgaaccag	14	9	11	7	1	0	5	0	2	0	3	0	7	0	6	2	1	2	2	2	1	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:75816695C>T	uc001sxr.1	+	4	604	c.596C>T	c.(595-597)ACG>ATG	p.T199M	GLIPR1L2_uc001sxp.1_Missense_Mutation_p.T199M|GLIPR1L2_uc001sxq.1_Missense_Mutation_p.T92M	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	199						integral to membrane				ovary(1)	1						GGAACACTGACGAGAAGACCT	0.294													24	250					0	0	0.008361	0	0		T	75816695	T	T	75816695	3	4	107	1	0	0	0	0	1	0	0	0	6458	536	19	1	610	1	GLIPR1L2	12	75816695	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	4724650	75816695	58035200	411	64758											
E2F7	144455	broad.mit.edu	37	chr12	77423918	77423918	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagaggctgcagaagcaAgtgagacatccacttgtcca	13	6	11	11	0	0	3	0	1	0	3	2	4	2	3	2	1	3	4	2	1	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:77423918A>C	uc001sym.3	-	10	1813	c.1577T>G	c.(1576-1578)CTT>CGT	p.L526R	E2F7_uc009zse.2_Missense_Mutation_p.L13R	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	526					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						TGCAGAAGCAAGTGAGACATC	0.527													16	72					0	0	0.028581	0	0		C	77423918	C	C	77423918	3	2	107	1	0	0	0	0	1	0	0	0	4878	72	3	5	1174	5	E2F7	12	77423918	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1607223	77423918	56427977	412	64759											
SLC5A8	160728	broad.mit.edu	37	chr12	101576638	101576638	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgatctgaagtaaggttTgattagatcttccacagtta	12	13	10	6	1	2	3	0	2	2	1	3	5	3	3	1	1	1	3	1	1	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:101576638T>C	uc001thz.3	-	9	1498	c.1108A>G	c.(1108-1110)AAA>GAA	p.K370E		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	370	Cytoplasmic (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						AAGTAAGGTTTGATTAGATCT	0.358													16	130					0	0	0.00499	0	0		C	101576638	C	C	101576638	3	2	107	1	0	0	0	0	1	0	0	0	14696	1821	63	3	752	3	SLC5A8	12	101576638	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	24152720	101576638	32275257	413	64760											
NUP37	79023	broad.mit.edu	37	chr12	102512287	102512287	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcagcatttcttgaggcatCttgcttcatcttgtatgtca	7	16	9	9	0	5	1	2	1	3	0	5	1	5	1	0	2	2	5	0	2	1	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:102512287C>T	uc001tjc.2	-	1	75	c.10G>A	c.(10-12)GAT>AAT	p.D4N	NUP37_uc009zub.1_Missense_Mutation_p.D4N|C12orf48_uc001tjd.2_5'Flank|C12orf48_uc001tje.2_5'Flank|C12orf48_uc001tjg.2_5'Flank|C12orf48_uc010swa.1_5'Flank|C12orf48_uc001tjf.2_5'Flank|C12orf48_uc001tjh.2_5'Flank|C12orf48_uc010swb.1_5'Flank|C12orf48_uc001tji.2_5'Flank	NM_024057	NP_076962	Q8NFH4	NUP37_HUMAN	nucleoporin 37kDa	4					carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			ovary(1)	1						CTTGAGGCATCTTGCTTCATC	0.393													28	192					0	0	0.010818	0	0		T	102512287	T	T	102512287	3	4	107	1	0	0	0	0	1	0	0	0	10783	913	32	4	1006	4	NUP37	12	102512287	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	935649	102512287	31339608	414	64761											
MED13L	23389	broad.mit.edu	37	chr12	116446774	116446774	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaatggtattaagggtcTcttttgcagcttgtctcctt	7	17	10	7	0	2	1	0	1	2	0	4	1	2	1	1	2	2	3	1	2	3	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:116446774T>C	uc001tvw.2	-	10	1499	c.1444A>G	c.(1444-1446)AGA>GGA	p.R482G		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	482					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		ATTAAGGGTCTCTTTTGCAGC	0.463													27	216					0	0	0.024334	0	0		C	116446774	C	C	116446774	3	2	107	1	0	0	0	0	1	0	0	0	9449	1559	54	3	5276	3	MED13L	12	116446774	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	13934487	116446774	17405121	415	64762											
SBNO1	55206	broad.mit.edu	37	chr12	123805055	123805055	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggggaggtcttcagctaatTtttctagcttatcaagcagg	9	13	12	7	0	4	0	2	0	2	0	4	1	4	1	0	4	3	3	0	4	4	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:123805055T>G	uc010tap.1	-	18	2591	c.2591A>C	c.(2590-2592)AAA>ACA	p.K864T	SBNO1_uc010tao.1_Missense_Mutation_p.K863T|SBNO1_uc010taq.1_Intron	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	864	Potential.						ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		TTCAGCTAATTTTTCTAGCTT	0.453													34	181					0	0	0.015359	0	0		G	123805055	G	G	123805055	3	3	107	1	0	0	0	0	1	0	0	0	13887	1841	64	5	1646	5	SBNO1	12	123805055	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	7358281	123805055	10046840	416	64763											
GTF2H3	2967	broad.mit.edu	37	chr12	124130078	124130078	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgaatcgttccaacaaacTtgctgtgatagcaagtcaca	14	10	7	10	1	1	2	1	2	0	0	3	2	2	2	1	0	4	3	1	0	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:124130078T>C	uc001ufo.1	+	3	196	c.170T>C	c.(169-171)CTT>CCT	p.L57P	GTF2H3_uc010tau.1_Missense_Mutation_p.L16P	NM_001516	NP_001507	Q13889	TF2H3_HUMAN	general transcription factor IIH, polypeptide 3,	57					mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	core TFIIH complex|holo TFIIH complex	damaged DNA binding|metal ion binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|translation factor activity, nucleic acid binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.1e-05)|Epithelial(86;0.000388)|all cancers(50;0.00362)		TCCAACAAACTTGCTGTGATA	0.383								NER					3	81					0	0	0.004672	0	0		C	124130078	C	C	124130078	3	2	107	1	0	0	0	0	1	0	0	0	6880	1609	56	3	180	3	GTF2H3	12	124130078	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	325023	124130078	9721817	417	64764											
SCARB1	949	broad.mit.edu	37	chr12	125294827	125294827	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgcactgatcggaatgccaGaagtcaacctggggggaagc	11	7	14	9	1	1	2	1	1	0	1	2	4	1	4	2	4	4	1	2	4	4	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:125294827G>A	uc001ugo.3	-	6	988	c.735C>T	c.(733-735)TTC>TTT	p.F245F	SCARB1_uc001ugn.3_Silent_p.F245F|SCARB1_uc001ugm.3_Silent_p.F245F|SCARB1_uc010tbd.1_Silent_p.F245F|SCARB1_uc010tbe.1_Silent_p.F204F|SCARB1_uc001ugp.3_Silent_p.F245F	NM_005505	NP_005496	Q8WTV0	SCRB1_HUMAN	scavenger receptor class B, member 1 isoform 1	245	Extracellular (Potential).				adhesion to symbiont|cell adhesion|cholesterol efflux|cholesterol homeostasis|cholesterol import|detection of lipopolysaccharide|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|lipopolysaccharide transport|lipoprotein metabolic process|positive regulation of cholesterol storage|positive regulation of endothelial cell migration|positive regulation of nitric-oxide synthase activity|recognition of apoptotic cell|reverse cholesterol transport|triglyceride homeostasis|wound healing	caveola	1-phosphatidylinositol binding|apolipoprotein A-I binding|high-density lipoprotein particle receptor activity|lipopolysaccharide receptor activity|low-density lipoprotein particle binding|phosphatidylserine binding|transporter activity			kidney(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000116)|Epithelial(86;0.000415)|all cancers(50;0.00395)	Phosphatidylserine(DB00144)	CGGAATGCCAGAAGTCAACCT	0.567													9	41					0	0	0.006214	0	0		A	125294827	A	A	125294827	2	1	107	1	0	0	0	0	0	0	0	1	13906	933	33	4		4	SCARB1	12	125294827	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1164749	125294827	8557068	418	64765											
FZD10	11211	broad.mit.edu	37	chr12	130647613	130647613	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccatcgagatcccgatgtgCaaggacatcggctacaacat	12	7	9	13	3	0	1	0	0	0	1	3	4	1	2	2	2	3	2	2	2	3	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:130647613C>T	uc001uii.2	+	1	582	c.126C>T	c.(124-126)TGC>TGT	p.C42C	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	42	FZ.|Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		TCCCGATGTGCAAGGACATCG	0.642													3	19					0	0	0.021553	0	0		T	130647613	T	T	130647613	2	4	107	1	0	0	0	0	0	0	0	1	6143	718	25	2		2	FZD10	12	130647613	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	5352786	130647613	3204282	419	64766											
CHFR	55743	broad.mit.edu	37	chr12	133433083	133433083	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggactcactgtcaacgtcTgacagctccagcaggtcctc	9	8	10	14	1	3	1	2	1	1	0	6	3	5	2	2	2	3	2	2	2	1	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr12:133433083T>C	uc001ulf.2	-	10	1320	c.1236A>G	c.(1234-1236)TCA>TCG	p.S412S	CHFR_uc001ulc.1_RNA|CHFR_uc001ule.2_Silent_p.S400S|CHFR_uc010tbs.1_Silent_p.S412S|CHFR_uc001uld.2_Silent_p.S371S|CHFR_uc010tbt.1_Silent_p.S320S	NM_001161344	NP_001154816	Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains	412					cell division|mitosis|mitotic cell cycle checkpoint|modification-dependent protein catabolic process|protein polyubiquitination	PML body	nucleotide binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00552)|all_epithelial(31;0.226)		OV - Ovarian serous cystadenocarcinoma(86;2.59e-08)|Epithelial(86;6.38e-07)|all cancers(50;1.56e-05)		TGTCAACGTCTGACAGCTCCA	0.512													6	353					0	0	0.00308	0	0		C	133433083	C	C	133433083	2	2	107	1	0	0	0	0	0	0	0	1	3340	1567	55	3		3	CHFR	12	133433083	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2785470	133433083	418812	420	64767											
NBEA	26960	broad.mit.edu	37	chr13	35692531	35692531	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatgaaaatattcatgaTgtgctacagttactggtggc	12	12	11	6	0	1	2	1	2	0	0	1	3	1	3	0	3	3	2	0	3	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr13:35692531T>C	uc001uvb.2	+	17	2369	c.2163T>C	c.(2161-2163)GAT>GAC	p.D721D		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	721						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		ATATTCATGATGTGCTACAGT	0.318													12	12					0	0	0.016723	0	0		C	35692531	C	C	35692531	2	2	107	1	0	0	0	0	0	0	0	1	10205	1461	51	3		3	NBEA	13	35692531	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08		35692531	79477347	421	64768											
NBEA	26960	broad.mit.edu	37	chr13	36242525	36242525	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccattctcctgagcagtgaCggccagaacctggtcaccgg	8	7	12	14	2	2	3	1	2	1	1	3	3	2	3	5	3	2	1	5	3	1	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr13:36242525C>T	uc001uvb.2	+	57	8825	c.8619C>T	c.(8617-8619)GAC>GAT	p.D2873D	NBEA_uc010abi.2_Silent_p.D1531D|NBEA_uc010tef.1_Silent_p.D666D|NBEA_uc001uvd.2_Silent_p.D451D	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2873	WD 4.					cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TGAGCAGTGACGGCCAGAACC	0.423													6	23					0	0	0.021553	0	0		T	36242525	T	T	36242525	2	4	107	1	0	0	0	0	0	0	0	1	10205	535	19	1		1	NBEA	13	36242525	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	549994	36242525	78927353	422	64769											
FREM2	341640	broad.mit.edu	37	chr13	39338478	39338478	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccagaattttcgtctgaaTtgggcatggatctcctttga	9	15	9	8	1	2	3	0	2	2	1	4	4	2	4	2	2	1	1	2	2	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr13:39338478T>G	uc001uwv.2	+	3	5610	c.5301T>G	c.(5299-5301)AAT>AAG	p.N1767K		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1767	Calx-beta 1.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TTCGTCTGAATTGGGCATGGA	0.343													4	146					0	0	0.009096	0	0		G	39338478	G	G	39338478	3	3	107	1	0	0	0	0	1	0	0	0	6059	1490	52	5	5311	5	FREM2	13	39338478	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3095953	39338478	75831400	423	64770											
HNRNPA1L2	144983	broad.mit.edu	37	chr13	53216635	53216635	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaccttgccgtcatgtctaAgtcagcgtctccaaaagagc	10	10	8	13	2	5	1	3	0	2	1	6	1	5	1	3	0	3	0	3	0	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr13:53216635A>C	uc001vgx.1	+	7	1081	c.8A>C	c.(7-9)AAG>ACG	p.K3T	HNRNPA1L2_uc001vgy.1_Missense_Mutation_p.K3T|HNRNPA1L2_uc001vgz.1_Missense_Mutation_p.K3T	NM_001011724	NP_001011724	Q32P51	RA1L2_HUMAN	heterogeneous nuclear ribonucleoprotein A1-like	3					mRNA processing|mRNA transport|RNA splicing	cytoplasm|spliceosomal complex	nucleotide binding|RNA binding				0						GTCATGTCTAAGTCAGCGTCT	0.433													5	219					0	0	0.021553	0	0		C	53216635	C	C	53216635	3	2	107	1	0	0	0	0	1	0	0	0	7274	72	3	5	10	5	HNRNPA1L2	13	53216635	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	13878157	53216635	61953243	424	64771											
PCDH17	27253	broad.mit.edu	37	chr13	58298873	58298873	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccgcacaaatctctttgtAcctacagttgaagctaatgt	12	13	6	10	1	1	1	0	1	1	0	2	1	1	1	2	0	4	4	2	0	6	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr13:58298873A>C	uc001vhq.1	+	4	3817	c.2925A>C	c.(2923-2925)GTA>GTC	p.V975V	PCDH17_uc010aec.1_Silent_p.V974V|PCDH17_uc001vhr.1_Silent_p.V64V	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	975	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		ATCTCTTTGTACCTACAGTTG	0.448													12	120					0	0	0.020292	0	0		C	58298873	C	C	58298873	2	2	107	1	0	0	0	0	0	0	0	1	11531	378	14	5		5	PCDH17	13	58298873	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	5082238	58298873	56871005	425	64772											
PCDH9	5101	broad.mit.edu	37	chr13	67205388	67205388	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcagtcctcttgtccggAgaggcctggtcatagaattc	7	12	11	11	1	3	2	2	0	1	2	6	3	5	2	3	3	0	1	3	3	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr13:67205388A>G	uc001vik.2	-	4	3986	c.3294T>C	c.(3292-3294)TCT>TCC	p.S1098S	PCDH9_uc010aei.2_RNA|PCDH9_uc001vil.2_Silent_p.S1064S|PCDH9_uc010thl.1_Silent_p.S1056S	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	1098	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		TCTTGTCCGGAGAGGCCTGGT	0.512													42	113					0	0	0.01441	0	0		G	67205388	G	G	67205388	2	3	107	1	0	0	0	0	0	0	0	1	11537	291	11	3		3	PCDH9	13	67205388	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	8906515	67205388	47964490	426	64773											
MYCBP2	23077	broad.mit.edu	37	chr13	77715012	77715012	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggttcagactttggtttgAccaactgagttcctggtggt	7	14	13	7	0	1	3	1	2	0	1	2	4	2	3	2	4	1	3	2	4	1	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr13:77715012A>G	uc001vkf.2	-	51	7347	c.7256T>C	c.(7255-7257)GTC>GCC	p.V2419A	MYCBP2_uc010aev.2_Missense_Mutation_p.V1823A	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2419					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CTTTGGTTTGACCAACTGAGT	0.408													11	478					0	0	0.008291	0	0		G	77715012	G	G	77715012	3	3	107	1	0	0	0	0	1	0	0	0	10036	275	10	3	6802	3	MYCBP2	13	77715012	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	10509624	77715012	37454866	427	64774											
SLITRK5	26050	broad.mit.edu	37	chr13	88330472	88330472	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaactaaacgttgagccGgactacctcgaagtgctgga	13	7	11	10	3	0	1	0	1	0	0	1	4	0	3	2	2	5	3	2	2	6	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr13:88330472G>A	uc001vln.2	+	2	3048	c.2829G>A	c.(2827-2829)CCG>CCA	p.P943P	SLITRK5_uc010tic.1_Silent_p.P702P	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	943	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					ACGTTGAGCCGGACTACCTCG	0.468													46	142					0	0	0.013114	0	0		A	88330472	A	A	88330472	2	1	107	1	0	0	0	0	0	0	0	1	14771	1103	39	1		1	SLITRK5	13	88330472	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	10615460	88330472	26839406	428	64775											
DOCK9	23348	broad.mit.edu	37	chr13	99519764	99519764	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttgcacactacacggagAaattcaaacttgtattcaaa	15	11	7	8	1	2	1	2	0	0	1	2	2	2	1	0	2	3	3	0	2	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr13:99519764A>G	uc001vnt.2	-	30	3259	c.3204T>C	c.(3202-3204)TTT>TTC	p.F1068F	DOCK9_uc001vnw.2_Silent_p.F1067F|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Silent_p.F1068F|DOCK9_uc010tis.1_Silent_p.F1067F|DOCK9_uc010tit.1_Silent_p.F1068F|DOCK9_uc010tiq.1_Silent_p.F32F|DOCK9_uc010afu.1_Silent_p.F914F	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1068					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CTACACGGAGAAATTCAAACT	0.358													6	278					0	0	0.001984	0	0		G	99519764	G	G	99519764	2	3	107	1	0	0	0	0	0	0	0	1	4700	243	9	3		3	DOCK9	13	99519764	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	11189292	99519764	15650114	429	64776											
IRS2	8660	broad.mit.edu	37	chr13	110434788	110434788	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgccggctgcaactgtcGtggggaggtgggcggctcgt	3	7	21	10	5	0	0	0	0	0	0	2	1	0	1	1	7	2	3	1	7	1	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr13:110434788G>A	uc001vqv.2	-	1	4127	c.3613C>T	c.(3613-3615)CGA>TGA	p.R1205*		NM_003749	NP_003740	Q9Y4H2	IRS2_HUMAN	insulin receptor substrate 2	1205					fibroblast growth factor receptor signaling pathway|glucose metabolic process|insulin receptor signaling pathway|lipid homeostasis|negative regulation of B cell apoptosis|negative regulation of kinase activity|negative regulation of plasma membrane long-chain fatty acid transport|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of B cell proliferation|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|response to glucose stimulus	cytosol|plasma membrane	insulin receptor binding|signal transducer activity			large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)|skin(1)|ovary(1)|kidney(1)	8	all_cancers(4;7.57e-15)|all_epithelial(4;5.91e-09)|all_lung(23;7.64e-07)|Lung NSC(43;0.000183)|Colorectal(4;0.00159)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0155)	Breast(118;0.159)	all cancers(43;0.00815)|BRCA - Breast invasive adenocarcinoma(86;0.11)|Epithelial(84;0.127)|GBM - Glioblastoma multiforme(44;0.147)			TGCAACTGTCGTGGGGAGGTG	0.716													2	0					0	0	0.004672	0	0		A	110434788	A	A	110434788	4	1	107	1	0	0	0	0	0	1	0	0	7857	1153	40	1	411	1	IRS2	13	110434788	Nonsense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	10915024	110434788	4735090	430	64777											
OR4M1	441670	broad.mit.edu	37	chr14	20248901	20248901	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accatcatgaatcgacgtctCtgctgtatcctggtggctct	7	13	9	12	2	3	1	1	1	2	0	6	2	4	1	2	2	1	3	2	2	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:20248901C>T	uc010tku.1	+	1	420	c.420C>T	c.(418-420)CTC>CTT	p.L140L		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATCGACGTCTCTGCTGTATCC	0.517													39	848					0	0	0.009718	0	0		T	20248901	T	T	20248901	2	4	107	1	0	0	0	0	0	0	0	1	11094	900	32	4		4	OR4M1	14	20248901	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08		20248901	87100639	431	64778											
RPGRIP1	57096	broad.mit.edu	37	chr14	21794020	21794020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcttgggaacctcagaacGagctgtggattgaaatcacc	12	9	11	9	1	3	2	2	1	1	1	3	5	3	4	2	2	3	1	2	2	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:21794020G>A	uc001wag.2	+	16	2398	c.2398G>A	c.(2398-2400)GAG>AAG	p.E800K	RPGRIP1_uc001wah.2_Missense_Mutation_p.E442K|RPGRIP1_uc001wai.2_Intron|RPGRIP1_uc001wak.2_Missense_Mutation_p.E275K|RPGRIP1_uc010aim.2_Missense_Mutation_p.E183K|RPGRIP1_uc001wal.2_Missense_Mutation_p.E159K|RPGRIP1_uc001wam.2_Missense_Mutation_p.E117K	NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	800					response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		ACCTCAGAACGAGCTGTGGAT	0.502													15	53					0	0	0.00499	0	0		A	21794020	A	A	21794020	3	1	107	1	0	0	0	0	1	0	0	0	13574	1059	37	1	2460	1	RPGRIP1	14	21794020	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1545119	21794020	85555520	432	64779											
PSMB11	122706	broad.mit.edu	37	chr14	23511989	23511989	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggatctccctatgcctaCggcgtgctagaccgtggcta	6	11	11	13	3	2	1	0	0	2	1	3	2	2	2	3	3	3	2	3	3	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:23511989C>T	uc010ake.1	+	1	614	c.555C>T	c.(553-555)TAC>TAT	p.Y185Y		NM_001099780	NP_001093250	A5LHX3	PSB11_HUMAN	proteasome beta 11 subunit precursor	185					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00643)		CCTATGCCTACGGCGTGCTAG	0.642													12	73					0	0	0.016723	0	0		T	23511989	T	T	23511989	2	4	107	1	0	0	0	0	0	0	0	1	12698	547	19	1		1	PSMB11	14	23511989	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1717969	23511989	83837551	433	64780											
TGM1	7051	broad.mit.edu	37	chr14	24727813	24727813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgtccatggtaagggatGtgtctgtgtcgtgggcggag	7	11	18	5	2	1	1	0	0	1	1	3	3	2	3	1	4	0	1	1	4	1	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:24727813G>A	uc001wod.2	-	8	1350	c.1226C>T	c.(1225-1227)ACA>ATA	p.T409I	TGM1_uc010tog.1_Intron	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	409					cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	GGTAAGGGATGTGTCTGTGTC	0.577													10	62					0	0	0.006214	0	0		A	24727813	A	A	24727813	3	1	107	1	0	0	0	0	1	0	0	0	15854	1377	48	4	1259	4	TGM1	14	24727813	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1215824	24727813	82621727	434	64781											
NOVA1	4857	broad.mit.edu	37	chr14	26949249	26949249	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgactggttctgtcttggcCacattttggggcatttctcg	4	16	11	10	1	3	1	0	1	3	0	4	1	3	1	1	4	0	2	1	4	0	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:26949249C>A	uc001wpy.2	-	3	699	c.381G>T	c.(379-381)GTG>GTT	p.V127V	NOVA1_uc001wpz.2_Silent_p.V127V|NOVA1_uc001wqa.2_Silent_p.V5V|NOVA1_uc001wqb.2_Silent_p.V127V	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	130					locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		CTGTCTTGGCCACATTTTGGG	0.433													16	262					1.99824e-07	2.07793e-07	0.00499	1	0		A	26949249	A	A	26949249	2	1	107	1	0	0	0	0	0	0	0	1	10573	581	21	5		5	NOVA1	14	26949249	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	2221436	26949249	80400291	435	64782											
STRN3	29966	broad.mit.edu	37	chr14	31416341	31416341	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggagattcacctccattcAggatctgttctaaattcttt	10	16	6	9	0	5	1	2	0	3	1	6	3	6	2	2	2	0	1	2	2	3	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:31416341A>T	uc001wqu.2	-	5	887	c.671T>A	c.(670-672)CTG>CAG	p.L224Q	STRN3_uc001wqv.2_Missense_Mutation_p.L224Q|STRN3_uc010tpj.1_RNA	NM_001083893	NP_001077362	Q13033	STRN3_HUMAN	nuclear autoantigen isoform 1	224					negative regulation of estrogen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|response to estradiol stimulus	cytoplasm|dendrite|Golgi apparatus|neuronal cell body|nucleoplasm|nucleus|plasma membrane|protein complex	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.0124)		ACCTCCATTCAGGATCTGTTC	0.323													4	195					0	0	0.009096	0	0		T	31416341	T	T	31416341	3	4	107	1	0	0	0	0	1	0	0	0	15355	188	7	5	1778	5	STRN3	14	31416341	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4467092	31416341	75933199	436	64783											
ERO1L	30001	broad.mit.edu	37	chr14	53119797	53119797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tataatttacttgatttcatGaagtatttccagaagtaaca	15	16	5	5	0	1	3	1	2	0	1	2	3	2	3	1	0	2	2	1	0	7	9			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:53119797G>A	uc001wzv.2	-	12	1271	c.1045C>T	c.(1045-1047)CAT>TAT	p.H349Y	ERO1L_uc001wzw.2_RNA|ERO1L_uc010aof.2_RNA	NM_014584	NP_055399	Q96HE7	ERO1A_HUMAN	ERO1-like precursor	349					chaperone mediated protein folding requiring cofactor|electron transport chain|protein thiol-disulfide exchange|response to temperature stimulus|transport	endoplasmic reticulum lumen|endoplasmic reticulum membrane|microsome	disulfide oxidoreductase activity|flavin adenine dinucleotide binding|oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor				0	Breast(41;0.226)					TTGATTTCATGAAGTATTTCC	0.244													4	74					0	0	0.009096	0	0		A	53119797	A	A	53119797	3	1	107	1	0	0	0	0	1	0	0	0	5247	1290	45	4	381	4	ERO1L	14	53119797	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	21703456	53119797	54229743	437	64784											
TMEM30B	161291	broad.mit.edu	37	chr14	61747020	61747020	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggtgatgttgacgcggtaGgcgccccgcggcagcccggc	5	6	17	13	6	0	2	0	2	0	0	0	2	0	2	3	5	1	3	3	5	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:61747020G>T	uc001xfl.2	-	1	1511	c.846C>A	c.(844-846)GCC>GCA	p.A282A	PRKCH_uc010tsa.1_Intron|TMEM30B_uc010apr.1_RNA	NM_001017970	NP_001017970	Q3MIR4	CC50B_HUMAN	transmembrane protein 30B	282						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(108;0.107)|BRCA - Breast invasive adenocarcinoma(234;0.181)		TGACGCGGTAGGCGCCCCGCG	0.662													3	22					0.00024832	0.000254095	0.009096	1	0		T	61747020	T	T	61747020	2	4	107	1	0	0	0	0	0	0	0	1	16179	987	35	5		5	TMEM30B	14	61747020	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	8627223	61747020	45602520	438	64785											
SYNE2	23224	broad.mit.edu	37	chr14	64593322	64593322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctctccactccagacgctgGctcttgagttgaagaaactt	9	11	8	13	1	2	4	0	2	2	2	4	4	3	4	3	1	1	3	3	1	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:64593322G>A	uc001xgm.2	+	73	13944	c.13714G>A	c.(13714-13716)GCT>ACT	p.A4572T	SYNE2_uc001xgl.2_Missense_Mutation_p.A4572T|SYNE2_uc010apy.2_Missense_Mutation_p.A957T|SYNE2_uc010apz.1_Missense_Mutation_p.A464T	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	4572	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CCAGACGCTGGCTCTTGAGTT	0.498													6	216					0	0	0.001984	0	0		A	64593322	A	A	64593322	3	1	107	1	0	0	0	0	1	0	0	0	15471	1203	42	2	14000	2	SYNE2	14	64593322	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	2846302	64593322	42756218	439	64786											
PLEKHG3	26030	broad.mit.edu	37	chr14	65210268	65210268	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggccagggaccaagctcAccggtggccctgctggggca	7	5	16	13	1	1	0	1	0	0	0	1	1	1	1	4	6	2	3	4	6	1	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:65210268A>G	uc001xho.1	+	17	3776	c.3507A>G	c.(3505-3507)TCA>TCG	p.S1169S	PLEKHG3_uc001xhn.1_Silent_p.S1113S|PLEKHG3_uc001xhp.2_Silent_p.S1290S|PLEKHG3_uc010aqh.1_Silent_p.S711S|PLEKHG3_uc001xhq.1_Silent_p.S674S	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	1169					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GACCAAGCTCACCGGTGGCCC	0.662													4	31					0	0	0.001984	0	0		G	65210268	G	G	65210268	2	3	107	1	0	0	0	0	0	0	0	1	12089	146	6	3		3	PLEKHG3	14	65210268	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	616946	65210268	42139272	440	64787											
SPTB	6710	broad.mit.edu	37	chr14	65264532	65264532	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccgggactggatggtaaaaAgtagaacttccagattcccc	12	9	10	10	1	0	2	0	0	0	2	3	4	3	4	4	3	1	2	4	3	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:65264532A>C	uc001xht.2	-	9	1151	c.1097T>G	c.(1096-1098)CTT>CGT	p.L366R	SPTB_uc001xhr.2_Missense_Mutation_p.L366R|SPTB_uc001xhs.2_Missense_Mutation_p.L366R|SPTB_uc001xhu.2_Missense_Mutation_p.L366R	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	366	Spectrin 1.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		GATGGTAAAAAGTAGAACTTC	0.423													30	140					0	0	0.008361	0	0		C	65264532	C	C	65264532	3	2	107	1	0	0	0	0	1	0	0	0	15143	72	3	5	6066	5	SPTB	14	65264532	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	54264	65264532	42085008	441	64788											
NRXN3	9369	broad.mit.edu	37	chr14	79432563	79432563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgagctgaaggctcgttttgGactgaggaacatcatcgctg	9	11	13	8	2	1	3	1	3	0	0	3	5	1	5	0	3	2	4	0	3	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:79432563G>A	uc001xun.2	+	9	1963	c.1472G>A	c.(1471-1473)GGA>GAA	p.G491E	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.G616E	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	864	Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GCTCGTTTTGGACTGAGGAAC	0.468													15	103					0	0	0.028581	0	0		A	79432563	A	A	79432563	3	1	107	1	0	0	0	0	1	0	0	0	10686	1174	41	4	1498	4	NRXN3	14	79432563	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	14168031	79432563	27916977	442	64789											
STON2	85439	broad.mit.edu	37	chr14	81864716	81864716	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggcaatcacatggtccAaagtcgtcatgctaaaaagg	13	8	12	8	1	2	0	2	0	0	0	4	0	3	0	1	4	1	2	1	4	5	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:81864716A>G	uc010tvu.1	-	1	212	c.11T>C	c.(10-12)TTG>TCG	p.L4S	STON2_uc001xvk.1_Missense_Mutation_p.L4S|STON2_uc010atc.1_Missense_Mutation_p.L4S	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	4					endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		CACATGGTCCAAAGTCGTCAT	0.532													3	45					0	0	0.009096	0	0		G	81864716	G	G	81864716	3	3	107	1	0	0	0	0	1	0	0	0	15343	131	5	3	2724	3	STON2	14	81864716	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2432153	81864716	25484824	443	64790											
FLRT2	23768	broad.mit.edu	37	chr14	86089254	86089254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagtttagtagggggcatcGttcaggagcgcatagtcagc	10	9	14	8	2	2	0	2	0	0	0	3	1	2	1	0	3	2	5	0	3	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:86089254G>A	uc001xvr.2	+	2	2163	c.1396G>A	c.(1396-1398)GTT>ATT	p.V466I	FLRT2_uc010atd.2_Missense_Mutation_p.V466I	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	466	Fibronectin type-III.|Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		AGGGGGCATCGTTCAGGAGCG	0.498													11	162					0	0	0.008291	0	0		A	86089254	A	A	86089254	3	1	107	1	0	0	0	0	1	0	0	0	5953	1145	40	1	1398	1	FLRT2	14	86089254	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	4224538	86089254	21260286	444	64791											
KCNK13	56659	broad.mit.edu	37	chr14	90650597	90650597	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgcctacatcatgaagtcGtgccaccagcggcagctccg	9	7	10	15	4	1	1	1	1	0	0	4	1	2	1	4	1	4	2	4	1	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:90650597G>A	uc001xye.1	+	2	919	c.477G>A	c.(475-477)TCG>TCA	p.S159S		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	159	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				TCATGAAGTCGTGCCACCAGC	0.602													19	116					0	0	0.012319	0	0		A	90650597	A	A	90650597	2	1	107	1	0	0	0	0	0	0	0	1	8077	1132	40	1		1	KCNK13	14	90650597	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	4561343	90650597	16698943	445	64792											
TRIP11	9321	broad.mit.edu	37	chr14	92488050	92488050	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatgactaatcccataagcGaatgaagatgatgcagtggt	14	10	11	6	1	0	5	0	4	0	1	1	6	1	5	1	1	2	1	1	1	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:92488050G>A	uc001xzy.2	-	4	1226	c.438C>T	c.(436-438)TTC>TTT	p.F146F		NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	146	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		TCCCATAAGCGAATGAAGATG	0.448			T	PDGFRB	AML								11	76					0	0	0.008291	0	0		A	92488050	A	A	92488050	2	1	107	1	0	0	0	0	0	0	0	1	16581	1049	37	1		1	TRIP11	14	92488050	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1837453	92488050	14861490	446	64793											
TRIP11	9321	broad.mit.edu	37	chr14	92491681	92491681	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttgaagttgatttcggtaActtgtagattgctgctttat	8	19	10	4	1	0	3	0	2	0	1	1	3	0	3	0	1	3	6	0	1	4	9			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:92491681A>C	uc001xzy.2	-	3	1073	c.285T>G	c.(283-285)AGT>AGG	p.S95R		NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	95	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		GATTTCGGTAACTTGTAGATT	0.294			T	PDGFRB	AML								4	110					0	0	0.014758	0	0		C	92491681	C	C	92491681	3	2	107	1	0	0	0	0	1	0	0	0	16581	40	2	5	5730	5	TRIP11	14	92491681	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3631	92491681	14857859	447	64794											
KIAA1409	57578	broad.mit.edu	37	chr14	94063712	94063712	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttacattgcagtggaaaaAgttgctgtaatttgtagatt	12	17	9	3	0	0	1	0	0	0	1	0	2	0	2	0	1	3	5	0	1	5	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:94063712A>C	uc001ybv.1	+	21	2750	c.2667A>C	c.(2665-2667)AAA>AAC	p.K889N	KIAA1409_uc001ybs.1_Missense_Mutation_p.K889N	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1066						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CAGTGGAAAAAGTTGCTGTAA	0.423													8	169					0	0	0.00308	0	0		C	94063712	C	C	94063712	3	2	107	1	0	0	0	0	1	0	0	0	8246	69	3	5	2749	5	KIAA1409	14	94063712	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1572031	94063712	13285828	448	64795											
SETD3	84193	broad.mit.edu	37	chr14	99932051	99932051	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacttactctgcagcagcTcactggtcaggttcaagatt	10	11	10	10	0	4	1	3	0	1	1	4	2	4	2	0	3	4	4	0	3	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:99932051T>C	uc001ygc.2	-	2	262	c.92A>G	c.(91-93)GAG>GGG	p.E31G	SETD3_uc001ygd.2_Missense_Mutation_p.E31G|SETD3_uc001ygf.2_Missense_Mutation_p.E31G	NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	31					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				CTGCAGCAGCTCACTGGTCAG	0.498													4	90					0	0	0.009096	0	0		C	99932051	C	C	99932051	3	2	107	1	0	0	0	0	1	0	0	0	14157	1551	54	3	1786	3	SETD3	14	99932051	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	5868339	99932051	7417489	449	64796											
AHNAK2	113146	broad.mit.edu	37	chr14	105419971	105419971	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctgctctgtgtcttctGtggctttttctctgcctgtc	0	20	8	13	0	4	0	0	0	4	0	7	0	5	0	2	1	2	2	2	1	0	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr14:105419971G>T	uc010axc.1	-	7	1937	c.1817C>A	c.(1816-1818)ACA>AAA	p.T606K	AHNAK2_uc001ypx.2_Missense_Mutation_p.T506K	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	606						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			TGTGTCTTCTGTGGCTTTTTC	0.483													39	596					6.99958e-10	7.322e-10	0.027894	1	0		T	105419971	T	T	105419971	3	4	107	1	0	0	0	0	1	0	0	0	415	1377	48	5	15574	5	AHNAK2	14	105419971	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	5487920	105419971	1929569	450	64797											
RTF1	23168	broad.mit.edu	37	chr15	41772842	41772842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggatggggctccaaggagatCtctgaacttggaagactaca	12	8	13	8	0	1	3	0	1	1	2	3	6	2	5	1	5	2	1	1	5	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr15:41772842C>T	uc001zny.2	+	18	2102	c.2090C>T	c.(2089-2091)TCT>TTT	p.S697F		NM_015138	NP_055953	Q92541	RTF1_HUMAN	Paf1/RNA polymerase II complex component	697					histone modification|regulation of transcription, DNA-dependent|transcription initiation, DNA-dependent	nucleoplasm	protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(109;1.79e-19)|all_epithelial(112;8.18e-17)|Lung NSC(122;3.16e-11)|all_lung(180;8.14e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;1.15e-16)|GBM - Glioblastoma multiforme(113;1.81e-06)|BRCA - Breast invasive adenocarcinoma(123;0.119)		CCAAGGAGATCTCTGAACTTG	0.557													7	55					0	0	0.004482	0	0		T	41772842	T	T	41772842	3	4	107	1	0	0	0	0	1	0	0	0	13746	913	32	4	2160	4	RTF1	15	41772842	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08		41772842	60758550	451	64798											
MGA	23269	broad.mit.edu	37	chr15	42003309	42003309	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaggcatcatctcagaaaAtcaggcgaataactttgttg	13	12	8	8	1	4	1	4	0	1	1	5	2	4	1	0	2	1	2	0	2	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr15:42003309A>C	uc001zog.1	+	8	2937	c.2846A>C	c.(2845-2847)AAT>ACT	p.N949T	MGA_uc010ucy.1_Missense_Mutation_p.N949T|MGA_uc010ucz.1_Missense_Mutation_p.N949T	NM_001080541	NP_001074010	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 2	949						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		ATCTCAGAAAATCAGGCGAAT	0.408													16	215					0	0	0.028581	0	0		C	42003309	C	C	42003309	3	2	107	1	0	0	0	0	1	0	0	0	9558	101	4	5	2872	5	MGA	15	42003309	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	230467	42003309	60528083	452	64799											
MGA	23269	broad.mit.edu	37	chr15	42032110	42032110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacttgtttcaggttaatGgtaagagttacccgcaggct	9	12	11	9	1	1	1	1	0	0	1	1	1	1	1	2	3	1	6	2	3	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr15:42032110G>A	uc010uda.1	+	3	268	c.142G>A	c.(142-144)GGT>AGT	p.G48S	MGA_uc010ucy.1_Intron|MGA_uc010ucz.1_Intron	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1413						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		TCAGGTTAATGGTAAGAGTTA	0.443													24	207					0	0	0.027356	0	0		A	42032110	A	A	42032110	3	1	107	1	0	0	0	0	1	0	0	0	9558	1363	47	4		4	MGA	15	42032110	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	28801	42032110	60499282	453	64800											
SEMA6D	80031	broad.mit.edu	37	chr15	48056380	48056380	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccttttcagcatccctggTtctgctgtctgtgcatttag	4	18	8	11	0	3	0	1	0	2	0	5	0	5	0	2	1	3	4	2	1	1	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr15:48056380T>A	uc010bek.2	+	11	1335	c.975T>A	c.(973-975)GGT>GGA	p.G325G	SEMA6D_uc001zvw.2_Silent_p.G325G|SEMA6D_uc001zvx.1_Silent_p.G325G|SEMA6D_uc001zvy.2_Silent_p.G325G|SEMA6D_uc001zvz.2_Silent_p.G325G|SEMA6D_uc001zwa.2_Silent_p.G325G|SEMA6D_uc001zwb.2_Silent_p.G325G|SEMA6D_uc001zwc.2_Silent_p.G325G	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	325	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		GCATCCCTGGTTCTGCTGTCT	0.458													4	144					0	0	0.009096	0	0		A	48056380	A	A	48056380	2	1	107	1	0	0	0	0	0	0	0	1	14067	1712	60	5		5	SEMA6D	15	48056380	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	6024270	48056380	54475012	454	64801											
MYEF2	50804	broad.mit.edu	37	chr15	48435171	48435171	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttatgccattcattattctGcaggctttttcagctgattc	7	19	6	9	0	3	1	2	1	1	0	4	1	3	1	1	1	3	3	1	1	2	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr15:48435171G>T	uc001zwi.3	-	17	1861	c.1737C>A	c.(1735-1737)TGC>TGA	p.C579*	MYEF2_uc001zwg.3_Nonsense_Mutation_p.C117*|MYEF2_uc001zwh.3_Nonsense_Mutation_p.C167*|MYEF2_uc001zwj.3_Nonsense_Mutation_p.C555*	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	579	RRM 3.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		TCATTATTCTGCAGGCTTTTT	0.393													18	138					3.99206e-14	4.21983e-14	0.007413	1	0		T	48435171	T	T	48435171	4	4	107	1	0	0	0	0	0	1	0	0	10042	1311	46	5	69	5	MYEF2	15	48435171	Nonsense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	378791	48435171	54096221	455	64802											
UNC13C	440279	broad.mit.edu	37	chr15	54786926	54786926	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggatgctgttcctgaatActccttgtaagtagtgattt	10	15	9	7	0	0	2	0	2	0	0	2	3	2	3	2	1	2	4	2	1	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr15:54786926A>C	uc002ack.2	+	18	5054	c.5054A>C	c.(5053-5055)TAC>TCC	p.Y1685S		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1685	MHD1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GTTCCTGAATACTCCTTGTAA	0.353													11	252					0	0	0.008291	0	0		C	54786926	C	C	54786926	3	2	107	1	0	0	0	0	1	0	0	0	17012	391	14	5	5124	5	UNC13C	15	54786926	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	6351755	54786926	47744466	456	64803											
BBS4	585	broad.mit.edu	37	chr15	73029293	73029293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagcagctgcatacaggaCgctcccctcaggtaggacca	10	7	10	14	1	2	0	2	0	0	0	3	2	3	2	3	3	4	5	3	3	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr15:73029293C>T	uc002avb.2	+	15	1482	c.1439C>T	c.(1438-1440)ACG>ATG	p.T480M	BBS4_uc010ukv.1_Missense_Mutation_p.T468M|BBS4_uc002avc.2_Missense_Mutation_p.T308M|BBS4_uc002avd.2_Missense_Mutation_p.T488M	NM_033028	NP_149017	Q96RK4	BBS4_HUMAN	Bardet-Biedl syndrome 4	480	Required for localization to centrosomes.				adult behavior|brain morphogenesis|cell cycle cytokinesis|centrosome organization|cerebral cortex development|convergent extension involved in gastrulation|dendrite development|fat cell differentiation|heart looping|hippocampus development|intracellular transport|maintenance of protein location in nucleus|melanosome transport|microtubule anchoring at centrosome|neural tube closure|nonmotile primary cilium assembly|photoreceptor cell maintenance|pigment granule aggregation in cell center|positive regulation of flagellum assembly|regulation of cilium beat frequency involved in ciliary motility|regulation of cytokinesis|regulation of lipid metabolic process|retina homeostasis|retinal rod cell development|sensory perception of smell|sensory processing|spermatid development|striatum development	BBSome|centriolar satellite|centriole|cilium membrane|microtubule basal body|motile cilium|nonmotile primary cilium|nucleus|pericentriolar material	alpha-tubulin binding|beta-tubulin binding|dynactin binding|microtubule motor activity				0						GCATACAGGACGCTCCCCTCA	0.522									Bardet-Biedl_syndrome				16	139					0	0	0.024245	0	0		T	73029293	T	T	73029293	3	4	107	1	0	0	0	0	1	0	0	0	1340	536	19	1	1497	1	BBS4	15	73029293	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	18242367	73029293	29502099	457	64804											
CPEB1	64506	broad.mit.edu	37	chr15	83221347	83221347	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggacagacttctctagttcGaagaccagatacacataccc	13	8	7	13	2	1	3	0	0	1	3	3	5	1	4	2	1	2	1	2	1	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr15:83221347G>A	uc002bit.2	-	8	1415	c.1278C>T	c.(1276-1278)TTC>TTT	p.F426F	CPEB1_uc002biq.2_Silent_p.F286F|CPEB1_uc002bir.2_Silent_p.F291F|CPEB1_uc002bis.2_Silent_p.F286F|CPEB1_uc010uod.1_Silent_p.F135F|CPEB1_uc010uoe.1_Silent_p.F364F|CPEB1_uc002biu.2_Silent_p.F388F|CPEB1_uc010uof.1_Silent_p.F286F|CPEB1_uc002biv.2_Silent_p.F361F|CPEB1_uc002bip.2_Silent_p.F135F	NM_001079533	NP_001073001	Q9BZB8	CPEB1_HUMAN	cytoplasmic polyadenylation element binding	366	RRM 1.|Necessary for stress granule assembly and correct localization in dcp1 bodies.				mRNA processing|regulation of translation	cell junction|cytoplasmic mRNA processing body|dendrite|postsynaptic density|postsynaptic membrane	nucleotide binding|RNA binding			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(143;0.229)			TCTCTAGTTCGAAGACCAGAT	0.493													11	72					0	0	0.013537	0	0		A	83221347	A	A	83221347	2	1	107	1	0	0	0	0	0	0	0	1	3803	1049	37	1		1	CPEB1	15	83221347	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	10192054	83221347	19310045	458	64805											
AGBL1	123624	broad.mit.edu	37	chr15	87531292	87531292	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccattacaaactttttcaAgatgaaccttcttctgcatg	11	15	5	10	0	3	2	1	1	2	1	3	2	3	2	2	0	5	1	2	0	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr15:87531292A>C	uc002blz.1	+	23	3238	c.3158A>C	c.(3157-3159)AAG>ACG	p.K1053T		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	1053					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						aactttttcaagatgaacctt	0.045													40	282					0	0	0.007835	0	0		C	87531292	C	C	87531292	3	2	107	1	0	0	0	0	1	0	0	0	375	72	3	5	3244	5	AGBL1	15	87531292	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4309945	87531292	15000100	459	64806											
WDR93	56964	broad.mit.edu	37	chr15	90244983	90244983	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccaccttctgtgatgtcAttcccaagaggaagtcagac	10	10	10	11	0	3	3	2	1	1	2	4	4	4	4	3	1	1	0	3	1	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr15:90244983A>C	uc002boj.2	+	2	107	c.6A>C	c.(4-6)TCA>TCC	p.S2S	WDR93_uc002bok.3_Silent_p.S2S|WDR93_uc010bnr.2_Silent_p.S2S	NM_020212	NP_064597	Q6P2C0	WDR93_HUMAN	WD repeat domain 93	2					electron transport chain	mitochondrial inner membrane	oxidoreductase activity, acting on NADH or NADPH			ovary(2)	2	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			CTGTGATGTCATTCCCAAGAG	0.458													6	183					0	0	0.001984	0	0		C	90244983	C	C	90244983	2	2	107	1	0	0	0	0	0	0	0	1	17366	204	8	5		5	WDR93	15	90244983	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2713691	90244983	12286409	460	64807											
IFT140	9742	broad.mit.edu	37	chr16	1574665	1574665	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggtggtaggaggccgccAggtttcctgtctcgttggct	4	11	16	10	3	1	0	0	0	1	0	3	2	2	1	3	6	0	4	3	6	1	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:1574665A>C	uc002cmb.2	-	24	3391	c.3029T>G	c.(3028-3030)CTG>CGG	p.L1010R	IFT140_uc002clz.2_Missense_Mutation_p.L623R	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	1010	TPR 5.									ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				GGAGGCCGCCAGGTTTCCTGT	0.622													6	61					0	0	0.001984	0	0		C	1574665	C	C	1574665	3	2	107	1	0	0	0	0	1	0	0	0	7572	188	7	5	1391	5	IFT140	16	1574665	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08		1574665	88780088	461	64808											
TRAF7	84231	broad.mit.edu	37	chr16	2222327	2222327	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaagccccccatctttgAggtggacccccgagggtgcc	6	6	14	15	2	1	1	0	1	1	0	1	4	1	3	6	4	2	0	6	4	1	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:2222327A>C	uc002cow.2	+	8	710	c.611A>C	c.(610-612)GAG>GCG	p.E204A		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	204					activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						CCCATCTTTGAGGTGGACCCC	0.677													8	30					0	0	0.006214	0	0		C	2222327	C	C	2222327	3	2	107	1	0	0	0	0	1	0	0	0	16472	304	11	5	637	5	TRAF7	16	2222327	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	647662	2222327	88132426	462	64809											
ADCY9	115	broad.mit.edu	37	chr16	4016903	4016903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgagaaccacctcctggcCgatgaggctggcgggccgcc	7	4	15	15	4	0	2	0	1	0	1	1	5	1	2	6	4	1	1	6	4	1	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:4016903C>T	uc002cvx.2	-	11	3474	c.2935G>A	c.(2935-2937)GGC>AGC	p.G979S		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	979	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						ACCTCCTGGCCGATGAGGCTG	0.582													15	115					0	0	0.007413	0	0		T	4016903	T	T	4016903	3	4	107	1	0	0	0	0	1	0	0	0	301	652	23	1	1130	1	ADCY9	16	4016903	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1794576	4016903	86337850	463	64810											
TNP2	7142	broad.mit.edu	37	chr16	11362947	11362947	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgtgggctccagttgggTtgcggtggctggccgggctc	2	10	19	10	2	0	0	0	0	0	0	2	0	1	0	2	6	2	6	2	6	0	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:11362947T>A	uc002das.2	-	1	214	c.173A>T	c.(172-174)AAC>ATC	p.N58I	C16orf75_uc002daq.1_Intron	NM_005425	NP_005416	Q05952	STP2_HUMAN	transition protein 2 (during histone to	58					cell differentiation|multicellular organismal development|spermatogenesis	nucleosome|nucleus	DNA binding				0						TCCAGTTGGGTTGCGGTGGCT	0.612													6	125					0	0	0.001984	0	0		A	11362947	A	A	11362947	3	1	107	1	0	0	0	0	1	0	0	0	16359	1725	60	5	251	5	TNP2	16	11362947	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	7346044	11362947	78991806	464	64811											
TMC7	79905	broad.mit.edu	37	chr16	19041646	19041646	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccctggcgtatttgttaaGcacaatcgcctccctggccc	6	10	9	16	2	0	0	0	0	0	0	2	0	1	0	5	2	1	3	5	2	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:19041646G>T	uc002dfq.2	+	6	942	c.812G>T	c.(811-813)AGC>ATC	p.S271I	TMC7_uc010vao.1_Missense_Mutation_p.S271I|TMC7_uc002dfp.2_Missense_Mutation_p.S271I|TMC7_uc010vap.1_Missense_Mutation_p.S161I	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	271	Helical; (Potential).					integral to membrane				skin(2)|ovary(1)	3						TATTTGTTAAGCACAATCGCC	0.473													21	165					2.32416e-17	2.46788e-17	0.014323	1	0		T	19041646	T	T	19041646	3	4	107	1	0	0	0	0	1	0	0	0	16015	971	34	5	834	5	TMC7	16	19041646	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	7678699	19041646	71313107	465	64812											
GTF3C1	2975	broad.mit.edu	37	chr16	27492434	27492434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggagtgtgtctgggatttCaaggttagaattccttaggg	8	14	14	5	0	2	1	1	0	1	1	3	3	3	3	1	4	0	1	1	4	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:27492434C>T	uc002dov.1	-	27	4202	c.4162G>A	c.(4162-4164)GAA>AAA	p.E1388K	GTF3C1_uc002dou.2_Missense_Mutation_p.E1388K	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1388						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TCTGGGATTTCAAGGTTAGAA	0.478													19	182					0	0	0.008871	0	0		T	27492434	T	T	27492434	3	4	107	1	0	0	0	0	1	0	0	0	6888	835	29	4	2211	4	GTF3C1	16	27492434	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	8450788	27492434	62862319	466	64813											
SPN	6693	broad.mit.edu	37	chr16	29675643	29675643	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactctctggagacctccacTgggaccactggaccccctgt	7	8	10	16	0	1	1	0	0	1	1	3	5	2	3	5	3	0	0	5	3	0	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:29675643T>A	uc002dtm.2	+	2	730	c.594T>A	c.(592-594)ACT>ACA	p.T198T	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SPN_uc002dtn.2_Silent_p.T198T|SPN_uc010bzd.2_RNA	NM_001030288	NP_001025459	P16150	LEUK_HUMAN	sialophorin precursor	198	Extracellular (Potential).				blood coagulation|cellular defense response|chemotaxis|defense response to bacterium|establishment or maintenance of cell polarity|immune response|leukocyte migration|negative regulation of cell adhesion|positive regulation of tumor necrosis factor biosynthetic process	extracellular space|integral to plasma membrane	bacterial cell surface binding|transmembrane receptor activity			central_nervous_system(2)	2						AGACCTCCACTGGGACCACTG	0.572													5	299					0	0	0.021553	0	0		A	29675643	A	A	29675643	2	1	107	1	0	0	0	0	0	0	0	1	15098	1567	55	5		5	SPN	16	29675643	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2183209	29675643	60679110	467	64814											
MAZ	4150	broad.mit.edu	37	chr16	29818187	29818187	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtcccgcttctttgcctcCcagggctgcgcccagagtcc	4	9	10	18	2	1	1	0	0	1	1	4	1	4	1	5	1	2	2	5	1	0	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:29818187C>T	uc002dty.2	+	1	333	c.165C>T	c.(163-165)TCC>TCT	p.S55S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAZ_uc002dtv.1_Silent_p.S32S|MAZ_uc010vdx.1_Silent_p.S32S|MAZ_uc002dtw.2_Silent_p.S55S|MAZ_uc002dtx.2_Silent_p.S55S|MAZ_uc010bzg.2_Silent_p.S55S|MAZ_uc002dtz.1_5'Flank|MAZ_uc002dua.2_5'Flank|MAZ_uc010vdy.1_5'Flank	NM_002383	NP_002374	P56270	MAZ_HUMAN	MYC-associated zinc finger protein isoform 1	55					regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription|transcription initiation from RNA polymerase II promoter	nucleus	DNA binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1						TCTTTGCCTCCCAGGGCTGCG	0.453													3	29					0	0	0.004672	0	0		T	29818187	T	T	29818187	2	4	107	1	0	0	0	0	0	0	0	1	9358	610	22	4		4	MAZ	16	29818187	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	142544	29818187	60536566	468	64815											
NETO2	81831	broad.mit.edu	37	chr16	47143516	47143516	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccacagtgctgcaaaacTtggccttcaggttttcaata	10	12	9	10	0	2	0	2	0	0	0	2	0	2	0	2	3	3	3	2	3	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:47143516T>G	uc002eer.1	-	7	1146	c.761A>C	c.(760-762)AAG>ACG	p.K254T	NETO2_uc002eeq.1_Missense_Mutation_p.K27T|NETO2_uc010vgf.1_Missense_Mutation_p.K111T|NETO2_uc002ees.1_Missense_Mutation_p.K247T	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	254	Extracellular (Potential).|CUB 2.					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				GCTGCAAAACTTGGCCTTCAG	0.423										HNSCC(25;0.065)			18	200					0	0	0.007413	0	0		G	47143516	G	G	47143516	3	3	107	1	0	0	0	0	1	0	0	0	10359	1609	56	5	828	5	NETO2	16	47143516	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	17325329	47143516	43211237	469	64816											
CMIP	80790	broad.mit.edu	37	chr16	81641288	81641288	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acgattcctgggggaactgtCttactgcaggtaggagaaat	11	10	13	7	1	1	1	0	0	1	1	2	4	2	2	1	4	3	2	1	4	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:81641288C>T	uc002fgp.2	+	2	489	c.417C>T	c.(415-417)GTC>GTT	p.V139V	CMIP_uc002fgq.1_Silent_p.V45V|CMIP_uc010vnq.1_5'Flank	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	105	PH.					cytoplasm|nucleus					0						GGGGAACTGTCTTACTGCAGG	0.498													18	125					0	0	0.006122	0	0		T	81641288	T	T	81641288	2	4	107	1	0	0	0	0	0	0	0	1	3581	900	32	4		4	CMIP	16	81641288	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	34497772	81641288	8713465	470	64817											
PLCG2	5336	broad.mit.edu	37	chr16	81944213	81944213	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactgacaacctcaccttcAgcagcatctatgccctcatc	10	10	5	16	0	4	2	3	2	1	0	5	2	4	2	3	0	4	2	3	0	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:81944213A>C	uc002fgt.2	+	18	1974	c.1822A>C	c.(1822-1824)AGC>CGC	p.S608R	PLCG2_uc010chg.1_Missense_Mutation_p.S608R	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	608	SH2 1.			TFSSI -> RFRRM (in Ref. 1; CAA32194/ AAA60112 and 3; AAQ76815).	intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						CCTCACCTTCAGCAGCATCTA	0.652													8	289					0	0	0.00308	0	0		C	81944213	C	C	81944213	3	2	107	1	0	0	0	0	1	0	0	0	12055	188	7	5	1888	5	PLCG2	16	81944213	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	302925	81944213	8410540	471	64818											
USP10	9100	broad.mit.edu	37	chr16	84797843	84797843	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gattttgttcagactccaatCaccggcatttttggtggaca	9	14	9	9	1	2	1	2	0	0	1	3	3	3	2	2	3	0	2	2	3	1	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:84797843C>T	uc002fii.2	+	10	1948	c.1806C>T	c.(1804-1806)ATC>ATT	p.I602I	USP10_uc010voe.1_Silent_p.I606I|USP10_uc010vof.1_Silent_p.I164I|USP10_uc002fij.2_Silent_p.I128I	NM_005153	NP_005144	Q14694	UBP10_HUMAN	ubiquitin specific protease 10	602					DNA damage response, signal transduction by p53 class mediator|DNA repair|protein deubiquitination|ubiquitin-dependent protein catabolic process	early endosome|intermediate filament cytoskeleton|nucleus	cystic fibrosis transmembrane conductance regulator binding|p53 binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						AGACTCCAATCACCGGCATTT	0.488													38	177					0	0	0.00874	0	0		T	84797843	T	T	84797843	2	4	107	1	0	0	0	0	0	0	0	1	17067	816	29	4		4	USP10	16	84797843	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	2853630	84797843	5556910	472	64819											
FBXO31	79791	broad.mit.edu	37	chr16	87369863	87369863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctccctcagccacgtcCgaaactccttccaaaagaac	12	8	4	17	2	1	1	1	0	0	1	6	2	6	1	6	0	3	0	6	0	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr16:87369863C>T	uc002fjw.2	-	6	784	c.740G>A	c.(739-741)CGG>CAG	p.R247Q	FBXO31_uc010vot.1_Missense_Mutation_p.R75Q|FBXO31_uc002fjv.2_Missense_Mutation_p.R139Q	NM_024735	NP_079011	Q5XUX0	FBX31_HUMAN	F-box protein 31	247					cell cycle|cyclin catabolic process|mitotic cell cycle G1/S transition DNA damage checkpoint|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	SCF ubiquitin ligase complex	cyclin binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0272)		CAGCCACGTCCGAAACTCCTT	0.547													19	74					0	0	0.014323	0	0		T	87369863	T	T	87369863	3	4	107	1	0	0	0	0	1	0	0	0	5755	652	23	1	895	1	FBXO31	16	87369863	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	2572020	87369863	2984890	473	64820											
SMYD4	114826	broad.mit.edu	37	chr17	1703659	1703659	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtggcaaaagacacccagTgtgagaagcagccctcccag	13	5	11	12	0	0	2	0	1	0	2	1	3	1	2	3	1	2	2	3	1	3	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:1703659T>A	uc002ftm.3	-	5	1197	c.1029A>T	c.(1027-1029)ACA>ACT	p.T343T	SMYD4_uc002ftn.1_Silent_p.T198T	NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	343							zinc ion binding			skin(3)|kidney(2)	5						AGACACCCAGTGTGAGAAGCA	0.488													27	144					0	0	0.024334	0	0		A	1703659	A	A	1703659	2	1	107	1	0	0	0	0	0	0	0	1	14849	1683	59	5		5	SMYD4	17	1703659	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08		1703659	79491551	474	64821											
OR1A1	8383	broad.mit.edu	37	chr17	3119805	3119805	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatcgggacatgaaggcTgccctgcggaaactcttcaa	13	7	11	10	2	2	2	1	1	1	1	3	4	2	4	1	3	3	1	1	3	4	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:3119805T>C	uc010vrc.1	+	1	891	c.891T>C	c.(889-891)GCT>GCC	p.A297A		NM_014565	NP_055380	Q9P1Q5	OR1A1_HUMAN	olfactory receptor, family 1, subfamily A,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						ACATGAAGGCTGCCCTGCGGA	0.438													35	126					0	0	0.019004	0	0		C	3119805	C	C	3119805	2	2	107	1	0	0	0	0	0	0	0	1	10968	1567	55	3		3	OR1A1	17	3119805	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1416146	3119805	78075405	475	64822											
ALOX15	246	broad.mit.edu	37	chr17	4534935	4534935	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaccacgctgggccgcaggTactcgtagggcatgtccagc	7	6	13	15	3	0	0	0	0	0	0	2	0	1	0	4	3	2	5	4	3	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:4534935T>C	uc002fyh.2	-	14	1963	c.1949A>G	c.(1948-1950)TAC>TGC	p.Y650C	ALOX15_uc010vsd.1_Missense_Mutation_p.Y611C|ALOX15_uc010vse.1_Missense_Mutation_p.Y672C	NM_001140	NP_001131	P16050	LOX15_HUMAN	arachidonate 15-lipoxygenase	650	Lipoxygenase.				inflammatory response|leukotriene biosynthetic process	nucleus	arachidonate 15-lipoxygenase activity|iron ion binding|lipoxygenase activity			skin(3)|ovary(1)|lung(1)	5				READ - Rectum adenocarcinoma(115;0.0327)	Ciclopirox(DB01188)|Masoprocol(DB00179)|Zileuton(DB00744)	GGGCCGCAGGTACTCGTAGGG	0.567													14	148					0	0	0.028581	0	0		C	4534935	C	C	4534935	3	2	107	1	0	0	0	0	1	0	0	0	538	1638	57	3	43	3	ALOX15	17	4534935	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1415130	4534935	76660275	476	64823											
NUP88	4927	broad.mit.edu	37	chr17	5308509	5308509	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatcataaccatagttatcTtcagccgcaggatgcatggg	11	10	10	10	1	3	0	2	0	1	0	3	1	3	1	2	2	3	4	2	2	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:5308509T>G	uc002gbo.1	-	6	938	c.912A>C	c.(910-912)GAA>GAC	p.E304D	NUP88_uc010vsx.1_Missense_Mutation_p.E304D|NUP88_uc010cle.1_Missense_Mutation_p.E303D|NUP88_uc010vsy.1_Missense_Mutation_p.E304D	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	304					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1						CATAGTTATCTTCAGCCGCAG	0.443													12	84					0	0	0.013537	0	0		G	5308509	G	G	5308509	3	3	107	1	0	0	0	0	1	0	0	0	10790	1606	56	5	1361	5	NUP88	17	5308509	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	773574	5308509	75886701	477	64824											
CLEC10A	10462	broad.mit.edu	37	chr17	6978394	6978394	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagtgactctcctggctggtCtgacccaggccagcctcgca	6	8	11	16	1	2	2	0	2	2	0	4	2	2	2	4	3	1	2	4	3	0	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:6978394C>T	uc002gek.2	-	9	1233	c.930G>A	c.(928-930)CAG>CAA	p.Q310Q	CLEC10A_uc002gej.2_Silent_p.Q286Q|CLEC10A_uc002gel.2_Silent_p.Q283Q|CLEC10A_uc010clv.1_3'UTR	NM_182906	NP_878910	Q8IUN9	CLC10_HUMAN	C-type lectin, superfamily member 14 isoform 1	310	Extracellular (Potential).				endocytosis|innate immune response	integral to membrane|plasma membrane	sugar binding				0						CCTGGCTGGTCTGACCCAGGC	0.637													6	68					0	0	0.004482	0	0		T	6978394	T	T	6978394	2	4	107	1	0	0	0	0	0	0	0	1	3498	912	32	4		4	CLEC10A	17	6978394	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1669885	6978394	74216816	478	64825											
MYH10	4628	broad.mit.edu	37	chr17	8411923	8411923	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcctgattttggccaagtTtttcgccttttcttcctctt	4	21	5	11	1	2	1	0	1	2	0	5	1	4	1	4	1	0	1	4	1	1	9			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:8411923T>G	uc002gll.2	-	24	3166	c.3070A>C	c.(3070-3072)AAC>CAC	p.N1024H	MYH10_uc002glm.2_Missense_Mutation_p.N1055H|MYH10_uc010cnx.2_Missense_Mutation_p.N1033H	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1024	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TTGGCCAAGTTTTTCGCCTTT	0.423													7	371					0	0	0.00308	0	0		G	8411923	G	G	8411923	3	3	107	1	0	0	0	0	1	0	0	0	10048	1841	64	5	2932	5	MYH10	17	8411923	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1433529	8411923	72783287	479	64826											
MYH13	8735	broad.mit.edu	37	chr17	10215260	10215260	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctctcgcctcagtgtcTctaactggtccaccacctcc	5	13	6	17	1	3	0	1	0	2	0	8	0	5	0	5	1	1	1	5	1	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:10215260T>C	uc002gmk.1	-	32	4589	c.4499A>G	c.(4498-4500)GAG>GGG	p.E1500G		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1500	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						CCTCAGTGTCTCTAACTGGTC	0.542													15	121					0	0	0.028581	0	0		C	10215260	C	C	10215260	3	2	107	1	0	0	0	0	1	0	0	0	10050	1551	54	3	1357	3	MYH13	17	10215260	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1803337	10215260	70979950	480	64827											
MED9	55090	broad.mit.edu	37	chr17	17394653	17394653	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctcaaaagcaagttccaGgagatgcgcaagctcatcag	13	6	10	12	1	3	1	3	0	0	1	4	2	4	1	2	1	3	4	2	1	4	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:17394653G>A	uc002grh.1	+	2	341	c.285G>A	c.(283-285)CAG>CAA	p.Q95Q		NM_018019	NP_060489	Q9NWA0	MED9_HUMAN	mediator complex subunit 9	95					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		protein binding				0						GCAAGTTCCAGGAGATGCGCA	0.587													16	116					0	0	0.00499	0	0		A	17394653	A	A	17394653	2	1	107	1	0	0	0	0	0	0	0	1	9472	991	35	4		4	MED9	17	17394653	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	7179393	17394653	63800557	481	64828											
LRRC48	83450	broad.mit.edu	37	chr17	17900913	17900913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaaccaggagcagggcaaaCgcaagattgccaaattcgag	17	4	11	9	2	0	1	0	0	0	1	1	3	0	2	2	2	4	3	2	2	5	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:17900913C>T	uc010vxd.1	+	10	1343	c.964C>T	c.(964-966)CGC>TGC	p.R322C	LRRC48_uc002gsa.2_Missense_Mutation_p.R322C|LRRC48_uc010vxc.1_Missense_Mutation_p.R322C|LRRC48_uc002gsb.2_Missense_Mutation_p.R322C|LRRC48_uc010vxe.1_RNA	NM_001130090	NP_001123562	Q9H069	LRC48_HUMAN	leucine rich repeat containing 48 isoform a	322						cytoplasm				pancreas(1)	1	all_neural(463;0.228)					GCAGGGCAAACGCAAGATTGC	0.567													4	22					0	0	0.014758	0	0		T	17900913	T	T	17900913	3	4	107	1	0	0	0	0	1	0	0	0	9023	536	19	1	990	1	LRRC48	17	17900913	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	506260	17900913	63294297	482	64829											
CYTSB	92521	broad.mit.edu	37	chr17	20108508	20108508	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagatacaaaagatggaagaAaaccaccatagcactgcaga	21	4	8	8	0	0	4	0	0	0	4	0	5	0	5	2	1	4	2	2	1	8	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:20108508A>C	uc002gwq.2	+	4	1291	c.1146A>C	c.(1144-1146)GAA>GAC	p.E382D	CYTSB_uc010cqx.2_Missense_Mutation_p.E382D|CYTSB_uc002gwr.2_Missense_Mutation_p.E382D|CYTSB_uc002gws.2_Missense_Mutation_p.E382D|CYTSB_uc002gwv.2_Missense_Mutation_p.E301D|CYTSB_uc010vzf.1_Intron|CYTSB_uc002gww.2_Missense_Mutation_p.E158D|CYTSB_uc002gwt.2_Missense_Mutation_p.E301D|CYTSB_uc002gwu.2_Missense_Mutation_p.E301D	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	382				E -> G (in Ref. 2; AAW29999/AAW30000/ AAW30002).		nucleus					0						AGATGGAAGAAAACCACCATA	0.438													15	153					0	0	0.00499	0	0		C	20108508	C	C	20108508	3	2	107	1	0	0	0	0	1	0	0	0	4213	11	1	5	1200	5	CYTSB	17	20108508	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2207595	20108508	61086702	483	64830											
PROCA1	147011	broad.mit.edu	37	chr17	27031404	27031404	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgatgacatgggagcaggTtgggcccgcgccccgggagc	6	5	17	13	4	0	1	0	1	0	0	1	4	0	3	3	4	2	2	3	4	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:27031404T>G	uc002hcb.3	-	4	486	c.283A>C	c.(283-285)ACC>CCC	p.T95P	PROCA1_uc010crv.2_Missense_Mutation_p.T21P|PROCA1_uc002hca.1_Missense_Mutation_p.T93P	NM_152465	NP_689678	Q8NCQ7	PRCA1_HUMAN	protein interacting with cyclin A1	121					lipid catabolic process		calcium ion binding|phospholipase A2 activity			ovary(1)	1	Lung NSC(42;0.00431)					TGGGAGCAGGTTGGGCCCGCG	0.642													35	210					0	0	0.019004	0	0		G	27031404	G	G	27031404	3	3	107	1	0	0	0	0	1	0	0	0	12568	1725	60	5	741	5	PROCA1	17	27031404	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	6922896	27031404	54163806	484	64831											
CDK12	51755	broad.mit.edu	37	chr17	37627139	37627139	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatttttccagtaggaaaTccatgaagtccagaagtaga	14	13	8	6	0	0	3	0	1	0	2	3	4	3	4	3	1	0	2	3	1	6	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:37627139T>G	uc010cvv.2	+	2	1640	c.1054T>G	c.(1054-1056)TCC>GCC	p.S352A	CDK12_uc010wef.1_Missense_Mutation_p.S351A|CDK12_uc002hrw.3_Missense_Mutation_p.S352A	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	352					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity	p.S352F(1)		ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						CAGTAGGAAATCCATGAAGTC	0.353										TCGA Ovarian(9;0.13)			5	121					0	0	0.014758	0	0		G	37627139	G	G	37627139	3	3	107	1	0	0	0	0	1	0	0	0	3131	1435	50	5	1060	5	CDK12	17	37627139	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	10595735	37627139	43568071	485	64832											
GRB7	2886	broad.mit.edu	37	chr17	37901697	37901697	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgcctcagataatacccTggtggccatggacttctctg	9	11	10	11	0	2	1	1	0	1	1	3	2	2	2	3	3	2	0	3	3	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:37901697T>C	uc002hsr.2	+	11	1365	c.1115T>C	c.(1114-1116)CTG>CCG	p.L372P	GRB7_uc002hss.2_Missense_Mutation_p.L372P|GRB7_uc010cwc.2_Missense_Mutation_p.L372P|GRB7_uc002hst.2_Missense_Mutation_p.L372P	NM_005310	NP_005301	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	372					blood coagulation|epidermal growth factor receptor signaling pathway|leukocyte migration|negative regulation of translation|positive regulation of cell migration|stress granule assembly	cytosol|focal adhesion|stress granule	phosphatidylinositol binding|protein kinase binding|SH3/SH2 adaptor activity			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GATAATACCCTGGTGGCCATG	0.622													19	95					0	0	0.007413	0	0		C	37901697	C	C	37901697	3	2	107	1	0	0	0	0	1	0	0	0	6775	1580	55	3	1153	3	GRB7	17	37901697	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	274558	37901697	43293513	486	64833											
KRT40	125115	broad.mit.edu	37	chr17	39140420	39140420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggatgtagcacaggtacCggggagacaagctgtttcca	10	8	14	9	2	0	1	0	0	0	1	2	3	1	2	2	4	3	5	2	4	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:39140420C>T	uc010cxh.1	-	3	267	c.106G>A	c.(106-108)GGT>AGT	p.G36S	KRT40_uc002hvq.1_RNA	NM_182497	NP_872303	Q6A162	K1C40_HUMAN	type I hair keratin KA36	36	Head.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)				GCACAGGTACCGGGGAGACAA	0.572													19	74					0	0	0.007413	0	0		T	39140420	T	T	39140420	3	4	107	1	0	0	0	0	1	0	0	0	8494	652	23	1	1217	1	KRT40	17	39140420	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1238723	39140420	42054790	487	64834											
KRT34	3885	broad.mit.edu	37	chr17	39535633	39535633	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggcctgcagctcgatcTccagggcgttgactgtgcgt	4	10	15	12	3	1	1	0	1	1	0	3	2	1	1	2	2	3	4	2	2	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:39535633T>C	uc002hwm.2	-	5	986	c.974A>G	c.(973-975)GAG>GGG	p.E325G		NM_021013	NP_066293	O76011	KRT34_HUMAN	keratin 34	325	Rod.|Coil 2.				epidermis development	intermediate filament	protein binding|structural molecule activity			central_nervous_system(1)	1		Breast(137;0.000496)				CAGCTCGATCTCCAGGGCGTT	0.607													18	132					0	0	0.007413	0	0		C	39535633	C	C	39535633	3	2	107	1	0	0	0	0	1	0	0	0	8487	1551	54	3	348	3	KRT34	17	39535633	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	395213	39535633	41659577	488	64835											
RND2	8153	broad.mit.edu	37	chr17	41180175	41180175	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggccacactgagggagcTgtccaagcagaggcttatcc	9	7	12	13	0	0	2	0	1	0	1	2	3	2	3	4	3	2	3	4	3	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:41180175T>A	uc002icn.2	+	4	505	c.398T>A	c.(397-399)CTG>CAG	p.L133Q		NM_005440	NP_005431	P52198	RND2_HUMAN	Rho family GTPase 2 precursor	133					small GTPase mediated signal transduction	acrosomal membrane	GTP binding|GTPase activity				0		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.156)		CTGAGGGAGCTGTCCAAGCAG	0.562													7	84					0	0	0.00308	0	0		A	41180175	A	A	41180175	3	1	107	1	0	0	0	0	1	0	0	0	13445	1580	55	5	412	5	RND2	17	41180175	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1644542	41180175	40015035	489	64836											
SLC4A1	6521	broad.mit.edu	37	chr17	42338113	42338113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcctccagttgcacccagCgcgccgcctccatccatctc	5	9	6	21	3	2	0	0	0	2	0	7	0	5	0	7	0	2	2	7	0	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:42338113C>T	uc002igf.3	-	5	388	c.239G>A	c.(238-240)CGC>CAC	p.R80H	SLC4A1_uc002igg.3_Missense_Mutation_p.R80H	NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	80	Cytoplasmic.				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		TTGCACCCAGCGCGCCGCCTC	0.617													4	47					0	0	0.014758	0	0		T	42338113	T	T	42338113	3	4	107	1	0	0	0	0	1	0	0	0	14675	768	27	1	2560	1	SLC4A1	17	42338113	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1157938	42338113	38857097	490	64837											
CCDC43	124808	broad.mit.edu	37	chr17	42756257	42756257	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccctctctgtgtccttttTttttccttttccttgcgctc	0	22	4	15	1	1	0	0	0	1	0	7	0	5	0	5	0	1	1	5	0	0	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:42756257T>G	uc002ihc.2	-	5	686	c.642A>C	c.(640-642)AAA>AAC	p.K214N	CCDC43_uc010czw.1_3'UTR	NM_144609	NP_653210	Q96MW1	CCD43_HUMAN	coiled-coil domain containing 43 isoform 1	214	Potential.										0		Prostate(33;0.0322)				GTGTCCTTTTTTTTTCCTTTT	0.473													7	62					0	0	0.001984	0	0		G	42756257	G	G	42756257	3	3	107	1	0	0	0	0	1	0	0	0	2818	1838	64	5	36	5	CCDC43	17	42756257	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	418144	42756257	38438953	491	64838											
OSBPL7	114881	broad.mit.edu	37	chr17	45896428	45896428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggacatgaccgacagcCggacatcgatggagccatgg	11	6	14	10	3	0	2	0	2	0	0	1	7	0	5	3	4	2	0	3	4	0	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:45896428C>T	uc002ilx.1	-	5	496	c.293G>A	c.(292-294)CGG>CAG	p.R98Q	OSBPL7_uc002ilw.1_5'Flank	NM_145798	NP_665741	Q9BZF2	OSBL7_HUMAN	oxysterol-binding protein-like protein 7	98	PH.				lipid transport		lipid binding				0						GACCGACAGCCGGACATCGAT	0.557													5	100					0	0	0.014758	0	0		T	45896428	T	T	45896428	3	4	107	1	0	0	0	0	1	0	0	0	11301	652	23	1	2311	1	OSBPL7	17	45896428	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	3140171	45896428	35298782	492	64839											
SNX11	29916	broad.mit.edu	37	chr17	46189961	46189961	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattacagtgcgtgttcaggAcccccgagtgcagaatgagg	10	8	14	9	2	1	2	1	1	0	1	1	5	1	3	2	2	3	2	2	2	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:46189961A>G	uc002inf.1	+	4	422	c.68A>G	c.(67-69)GAC>GGC	p.D23G	SNX11_uc010wlg.1_Missense_Mutation_p.D15G|SNX11_uc010wlh.1_Missense_Mutation_p.D15G|SNX11_uc010wli.1_5'UTR|SNX11_uc010wlj.1_Intron|SNX11_uc002ing.1_Missense_Mutation_p.D23G|SNX11_uc002inh.1_Missense_Mutation_p.D23G	NM_152244	NP_689450	Q9Y5W9	SNX11_HUMAN	sorting nexin 11	23	PX.				cell communication|protein transport	membrane	phosphatidylinositol binding				0						CGTGTTCAGGACCCCCGAGTG	0.488													8	347					0	0	0.006214	0	0		G	46189961	G	G	46189961	3	3	107	1	0	0	0	0	1	0	0	0	14907	275	10	3	74	3	SNX11	17	46189961	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	293533	46189961	35005249	493	64840											
HOXB1	3211	broad.mit.edu	37	chr17	46607133	46607133	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccctccgggcccggctcaGgtacttgttgaaatggaact	8	9	11	13	2	1	1	1	1	0	0	2	2	2	2	3	4	2	3	3	4	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:46607133G>A	uc002ink.1	-	2	688	c.682C>T	c.(682-684)CTG>TTG	p.L228L		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	228	Homeobox.					nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCCCGGCTCAGGTACTTGTTG	0.572													11	260					0	0	0.010729	0	0		A	46607133	A	A	46607133	2	1	107	1	0	0	0	0	0	0	0	1	7315	991	35	4		4	HOXB1	17	46607133	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	417172	46607133	34588077	494	64841											
B4GALNT2	124872	broad.mit.edu	37	chr17	47241594	47241594	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagccagaagcccctggaaaTtaaagacaatcacgtggagt	15	6	10	10	1	1	2	1	0	0	2	1	4	1	4	3	2	2	0	3	2	5	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:47241594T>C	uc002ion.2	+	8	1150	c.1091T>C	c.(1090-1092)ATT>ACT	p.I364T	B4GALNT2_uc010wlt.1_Missense_Mutation_p.I278T|B4GALNT2_uc010wlu.1_Missense_Mutation_p.I304T	NM_153446	NP_703147	Q8NHY0	B4GN2_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 2	364	Lumenal (Potential).				lipid glycosylation|negative regulation of cell-cell adhesion|UDP-N-acetylgalactosamine metabolic process	integral to Golgi membrane	acetylgalactosaminyltransferase activity			large_intestine(1)|ovary(1)	2			all cancers(6;0.000316)			CCCCTGGAAATTAAAGACAAT	0.522													5	191					0	0	0.001984	0	0		C	47241594	C	C	47241594	3	2	107	1	0	0	0	0	1	0	0	0	1268	1493	52	3	1139	3	B4GALNT2	17	47241594	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	634461	47241594	33953616	495	64842											
DLX3	1747	broad.mit.edu	37	chr17	48069187	48069187	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctccccgttcttgtagagTttcttgaacttggaacggcg	7	13	10	11	3	2	2	0	1	2	1	3	3	3	3	3	2	2	3	3	2	3	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:48069187T>G	uc002ipy.2	-	3	784	c.558A>C	c.(556-558)AAA>AAC	p.K186N		NM_005220	NP_005211	O60479	DLX3_HUMAN	distal-less homeobox 3	186	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TCTTGTAGAGTTTCTTGAACT	0.532													5	107					0	0	0.001984	0	0		G	48069187	G	G	48069187	3	3	107	1	0	0	0	0	1	0	0	0	4578	1722	60	5	309	5	DLX3	17	48069187	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	827593	48069187	33126023	496	64843											
EPN3	55040	broad.mit.edu	37	chr17	48614290	48614290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accagggcgtcaacgtgcgcGagaaggtcaagcaggtgatg	11	5	16	9	4	2	2	2	1	0	1	2	3	2	2	1	3	3	1	1	3	3	0	rs141972412		TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:48614290G>A	uc002ira.3	+	2	808	c.373G>A	c.(373-375)GAG>AAG	p.E125K	EPN3_uc010wms.1_Missense_Mutation_p.E180K|EPN3_uc010wmt.1_RNA|EPN3_uc010wmu.1_Missense_Mutation_p.E125K	NM_017957	NP_060427	Q9H201	EPN3_HUMAN	epsin 3	125	ENTH.					clathrin-coated vesicle|nucleus|perinuclear region of cytoplasm	lipid binding			ovary(1)	1	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;2.88e-09)			CAACGTGCGCGAGAAGGTCAA	0.637													9	69					0	0	0.008291	0	0		A	48614290	A	A	48614290	3	1	107	1	0	0	0	0	1	0	0	0	5195	1059	37	1	375	1	EPN3	17	48614290	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	545103	48614290	32580920	497	64844											
DHX40	79665	broad.mit.edu	37	chr17	57652734	57652734	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaaaaagttgtgagttacTttttcagatggcagagtctg	13	13	11	4	0	2	4	1	1	1	3	2	4	2	4	0	1	1	3	0	1	4	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:57652734T>G	uc002ixn.1	+	7	1022	c.875T>G	c.(874-876)CTT>CGT	p.L292R	DHX40_uc010woe.1_Missense_Mutation_p.L215R|DHX40_uc002ixo.1_Missense_Mutation_p.L193R	NM_024612	NP_078888	Q8IX18	DHX40_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 40	292	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TGTGAGTTACTTTTTCAGATG	0.318													4	119					0	0	0.009096	0	0		G	57652734	G	G	57652734	3	3	107	1	0	0	0	0	1	0	0	0	4518	1609	56	5	901	5	DHX40	17	57652734	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	9038444	57652734	23542476	498	64845											
MRC2	9902	broad.mit.edu	37	chr17	60741993	60741993	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcagagtcaccccggcttGcaataccagcctccctgccc	7	7	9	18	1	2	1	2	0	0	1	3	1	3	1	6	2	4	2	6	2	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:60741993G>C	uc002jad.2	+	2	605	c.203G>C	c.(202-204)TGC>TCC	p.C68S	MRC2_uc002jac.2_Missense_Mutation_p.C68S	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	68	Extracellular (Potential).|Ricin B-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						ACCCCGGCTTGCAATACCAGC	0.637													7	113					0	0	0.00308	0	0		C	60741993	C	C	60741993	3	2	107	1	0	0	0	0	1	0	0	0	9776	1319	46	5	209	5	MRC2	17	60741993	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	3089259	60741993	20453217	499	64846											
ABCA5	23461	broad.mit.edu	37	chr17	67250625	67250625	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgaagaataatctcctaAaaatacctatagaaacacaa	20	9	3	9	0	2	3	0	1	2	2	3	3	2	3	2	0	2	0	2	0	11	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:67250625A>C	uc002jif.2	-	31	5293	c.4075T>G	c.(4075-4077)TTA>GTA	p.L1359V	ABCA5_uc002jib.2_Missense_Mutation_p.L325V|ABCA5_uc002jic.2_Missense_Mutation_p.L582V|ABCA5_uc002jid.2_Missense_Mutation_p.L276V|ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.L1359V	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	1359	ABC transporter 2.				cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					TAATCTCCTAAAAATACCTAT	0.358													3	105					0	0	0.009096	0	0		C	67250625	C	C	67250625	3	2	107	1	0	0	0	0	1	0	0	0	35	11	1	5	885	5	ABCA5	17	67250625	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	6508632	67250625	13944585	500	64847											
KCNJ16	3773	broad.mit.edu	37	chr17	68129047	68129047	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccgcaaagcagtagccaaAgataactttgagattttggt	14	10	10	7	1	0	2	0	1	0	2	0	4	0	2	2	1	3	3	2	1	4	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:68129047A>C	uc002jin.2	+	5	1305	c.819A>C	c.(817-819)AAA>AAC	p.K273N	KCNJ16_uc002jio.2_Missense_Mutation_p.K273N|KCNJ16_uc002jip.2_Missense_Mutation_p.K273N|KCNJ16_uc002jiq.2_Missense_Mutation_p.K305N	NM_018658	NP_061128	Q9NPI9	IRK16_HUMAN	potassium inwardly-rectifying channel J16	273	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Breast(10;2.96e-09)					CAGTAGCCAAAGATAACTTTG	0.448													48	288					0	0	0.01441	0	0		C	68129047	C	C	68129047	3	2	107	1	0	0	0	0	1	0	0	0	8066	69	3	5	821	5	KCNJ16	17	68129047	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	878422	68129047	13066163	501	64848											
C1QTNF1	114897	broad.mit.edu	37	chr17	77043792	77043793	+	Missense_Mutation	DNP	GC	AT	AT																															gtgggccggaagaagcccatGcacagcaaccactactacca																										TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:77043792_77043793GC>AT	uc002jwp.2	+	4	808_809	c.468_469GC>AT	c.(466-471)ATGCAC>ATATAC	p.156_157MH>IY	C1QTNF1_uc002jwq.2_Missense_Mutation_p.74_75MH>IY|C1QTNF1_uc002jwr.3_Missense_Mutation_p.166_167MH>IY|C1QTNF1_uc002jws.2_Missense_Mutation_p.156_157MH>IY|C1QTNF1_uc002jwt.2_Missense_Mutation_p.254_255MH>IY	NM_030968	NP_112230	Q9BXJ1	C1QT1_HUMAN	C1q and tumor necrosis factor related protein 1	156_157	C1q.					collagen				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.0294)|OV - Ovarian serous cystadenocarcinoma(97;0.201)			AGAAGCCCATGCACAGCAACCA	0.599													4	69					0	0	0.004672	0	0		AT	77043793	AT	AT	77043792	3	1	107	1	0	0	0	0	1	0	0	0	1965	1319	46	2	478	2	C1QTNF1	17	77043792	Missense_Mutation	DNP	GC	TCGA-CD-5801-01A-11D-1600-08	8914745	77043792	4151418	502	64849											
RNF213	57674	broad.mit.edu	37	chr17	78324165	78324165	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacagattttgaagatggaAtccgtagcgcccagctcatt	12	10	10	9	2	1	4	1	1	0	3	2	5	2	5	2	1	2	2	2	1	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr17:78324165A>T	uc002jyh.1	+	6	4595	c.4372A>T	c.(4372-4374)ATC>TTC	p.I1458F		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TGAAGATGGAATCCGTAGCGC	0.353													10	84					0	0	0.008291	0	0		T	78324165	T	T	78324165	3	4	107	1	0	0	0	0	1	0	0	0	13502	101	4	5	10590	5	RNF213	17	78324165	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1280373	78324165	2871045	503	64850											
MAPRE2	10982	broad.mit.edu	37	chr18	32707044	32707044	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacgcaggtcatacagcttaAtgaacaggtaatgcatcagc	15	8	9	9	1	2	1	2	1	0	0	2	1	2	1	0	2	6	4	0	2	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr18:32707044A>C	uc002kyg.2	+	5	923	c.743A>C	c.(742-744)AAT>ACT	p.N248T	MAPRE2_uc010xcb.1_Missense_Mutation_p.N205T|MAPRE2_uc010xcc.1_Missense_Mutation_p.N236T|MAPRE2_uc002kyf.2_Missense_Mutation_p.N248T|MAPRE2_uc002kyh.2_Missense_Mutation_p.N195T|MAPRE2_uc010xcd.1_Missense_Mutation_p.N205T	NM_014268	NP_055083	Q15555	MARE2_HUMAN	microtubule-associated protein, RP/EB family,	248	DCTN1-binding.|EB1 C-terminal.				cell division|cell proliferation|mitosis|signal transduction	cytoplasm|microtubule	microtubule binding			ovary(1)	1						ATACAGCTTAATGAACAGGTA	0.527													9	93					0	0	0.006214	0	0		C	32707044	C	C	32707044	3	2	107	1	0	0	0	0	1	0	0	0	9313	101	4	5	855	5	MAPRE2	18	32707044	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08		32707044	45370204	504	64851											
ZNF532	55205	broad.mit.edu	37	chr18	56587298	56587298	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgagcagtgtcaatccAgtccctgtttacatcccaaa	10	11	8	12	0	1	1	1	1	0	0	4	1	4	1	3	0	3	3	3	0	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr18:56587298A>G	uc002lho.2	+	4	2326	c.1779A>G	c.(1777-1779)CCA>CCG	p.P593P	ZNF532_uc002lhp.2_Silent_p.P591P|ZNF532_uc010xeg.1_Silent_p.P591P|ZNF532_uc002lhr.2_Silent_p.P591P|ZNF532_uc002lhs.2_Silent_p.P591P	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	593					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						GTGTCAATCCAGTCCCTGTTT	0.557													6	52					0	0	0.021553	0	0		G	56587298	G	G	56587298	2	3	107	1	0	0	0	0	0	0	0	1	17997	175	7	3		3	ZNF532	18	56587298	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	23880254	56587298	21489950	505	64852											
ZNF407	55628	broad.mit.edu	37	chr18	72344603	72344603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctacaaataggacagattTggaaatccatgtgaaaaggt	17	9	10	5	0	0	2	0	1	0	1	1	4	1	4	1	3	2	1	1	3	6	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr18:72344603T>C	uc002llw.2	+	1	1685	c.1628T>C	c.(1627-1629)TTG>TCG	p.L543S	ZNF407_uc010xfc.1_Missense_Mutation_p.L543S|ZNF407_uc010dqu.1_Missense_Mutation_p.L543S|ZNF407_uc002llu.2_Missense_Mutation_p.L542S	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	543	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		AGGACAGATTTGGAAATCCAT	0.463													50	333					0	0	0.01441	0	0		C	72344603	C	C	72344603	3	2	107	1	0	0	0	0	1	0	0	0	17912	1821	63	3	1630	3	ZNF407	18	72344603	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	15757305	72344603	5732645	506	64853											
JSRP1	126306	broad.mit.edu	37	chr19	2252554	2252554	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttccgcggcctctctttcTtaggtctctcctccttccgc	1	16	6	18	3	3	0	0	0	3	0	9	0	7	0	5	2	0	0	5	2	1	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:2252554T>G	uc002lvi.1	-	6	805	c.770A>C	c.(769-771)AAG>ACG	p.K257T	JSRP1_uc002lvj.1_Missense_Mutation_p.K257T	NM_144616	NP_653217	Q96MG2	JSPR1_HUMAN	junctional sarcoplasmic reticulum protein 1	257	Arg-rich.					sarcoplasmic reticulum membrane				pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCTCTTTCTTAGGTCTCTC	0.706													11	53					0	0	0.013537	0	0		G	2252554	G	G	2252554	3	3	107	1	0	0	0	0	1	0	0	0	7982	1609	56	5	229	5	JSRP1	19	2252554	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08		2252554	56876429	507	64854											
SPPL2B	56928	broad.mit.edu	37	chr19	2337467	2337467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagctgcgcaactggaCggcctccctgctctgctccg	4	8	11	18	3	1	0	0	0	1	0	3	1	3	1	4	2	6	5	4	2	1	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:2337467C>T	uc002lvs.2	+	3	292	c.212C>T	c.(211-213)ACG>ATG	p.T71M	SPPL2B_uc010dsw.1_Missense_Mutation_p.T43M|SPPL2B_uc010dsy.1_Missense_Mutation_p.T43M|SPPL2B_uc010dsz.1_Missense_Mutation_p.T71M|SPPL2B_uc002lvr.2_Missense_Mutation_p.T71M|SPPL2B_uc010dta.1_5'Flank|SPPL2B_uc002lvu.2_5'Flank	NM_152988	NP_694533	Q8TCT7	PSL1_HUMAN	signal peptide peptidase-like 2B isoform 2	71	Cytoplasmic (Potential).|PA.					Golgi membrane|integral to membrane	aspartic-type endopeptidase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCAACTGGACGGCCTCCCTG	0.642													22	75					0	0	0.01892	0	0		T	2337467	T	T	2337467	3	4	107	1	0	0	0	0	1	0	0	0	15114	536	19	1	222	1	SPPL2B	19	2337467	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	84913	2337467	56791516	508	64855											
MAP2K2	5605	broad.mit.edu	37	chr19	4117551	4117551	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggctttctgggtgagaaAggcttccagccgcttcttct	5	14	11	11	1	3	1	0	1	3	1	4	2	4	1	2	3	1	3	2	3	1	5	rs121434498		TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:4117551A>C	uc002lzk.2	-	2	423	c.169T>G	c.(169-171)TTT>GTT	p.F57V		NM_030662	NP_109587	P36507	MP2K2_HUMAN	mitogen-activated protein kinase kinase 2	57			F -> C (in CFC syndrome).		activation of MAPK activity|activation of MAPKK activity|axon guidance|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|extracellular region	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGGTGAGAAAGGCTTCCAGC	0.597									Cardiofaciocutaneous_syndrome				8	89					0	0	0.024245	0	0		C	4117551	C	C	4117551	3	2	107	1	0	0	0	0	1	0	0	0	9255	72	3	5	1073	5	MAP2K2	19	4117551	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1780084	4117551	55011432	509	64856											
KDM4B	23030	broad.mit.edu	37	chr19	5135478	5135478	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcttcacctctggcggtgaGaacacggagccgctgcctgc	6	8	13	14	3	2	1	1	1	1	1	2	3	2	2	3	3	5	2	3	3	1	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:5135478G>A	uc002mbq.3	+	15	2440	c.2214G>A	c.(2212-2214)GAG>GAA	p.E738E	KDM4B_uc010xim.1_Silent_p.E772E|KDM4B_uc002mbr.3_Silent_p.E496E	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	738	PHD-type 1.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						CTGGCGGTGAGAACACGGAGC	0.637													6	25					0	0	0.021553	0	0		A	5135478	A	A	5135478	2	1	107	1	0	0	0	0	0	0	0	1	8145	933	33	4		4	KDM4B	19	5135478	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1017927	5135478	53993505	510	64857											
PTPRS	5802	broad.mit.edu	37	chr19	5244113	5244113	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagacgcggtagccgcggaTcaggccgttgggctccaccg	6	6	16	13	6	1	1	1	0	0	1	2	2	2	2	4	4	1	4	4	4	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:5244113T>C	uc002mbv.2	-	11	1603	c.1369A>G	c.(1369-1371)ATC>GTC	p.I457V	PTPRS_uc002mbu.1_Missense_Mutation_p.I444V|PTPRS_uc010xin.1_Missense_Mutation_p.I444V|PTPRS_uc002mbw.2_Missense_Mutation_p.I444V|PTPRS_uc002mbx.2_Missense_Mutation_p.I448V|PTPRS_uc002mby.2_Missense_Mutation_p.I444V	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	457	Extracellular (Potential).|Fibronectin type-III 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		TAGCCGCGGATCAGGCCGTTG	0.682													7	60					0	0	0.016723	0	0		C	5244113	C	C	5244113	3	2	107	1	0	0	0	0	1	0	0	0	12836	1435	50	3	4589	3	PTPRS	19	5244113	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	108635	5244113	53884870	511	64858											
FBN3	84467	broad.mit.edu	37	chr19	8167646	8167646	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcctcacagggtctattcCaggcctggccaatgttgtag	8	10	12	11	0	2	0	1	0	1	0	3	0	3	0	4	4	0	2	4	4	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:8167646C>T	uc002mjf.2	-	39	5072	c.5051G>A	c.(5050-5052)TGG>TAG	p.W1684*		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1684	TB 7.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GGGTCTATTCCAGGCCTGGCC	0.542													4	120					0	0	0.009096	0	0		T	8167646	T	T	8167646	4	4	107	1	0	0	0	0	0	1	0	0	5718	595	21	4	3478	4	FBN3	19	8167646	Nonsense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	2923533	8167646	50961337	512	64859											
FBN3	84467	broad.mit.edu	37	chr19	8196690	8196690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggccgttcacgcagatgcCgggcgtctggcactcgtcaa	6	8	14	13	5	3	1	2	0	1	1	4	1	3	1	2	3	1	3	2	3	1	1	rs143761441		TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:8196690C>T	uc002mjf.2	-	14	1759	c.1738G>A	c.(1738-1740)GGC>AGC	p.G580S		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	580	EGF-like 7; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						ACGCAGATGCCGGGCGTCTGG	0.552													3	8					0	0	0.009096	0	0		T	8196690	T	T	8196690	3	4	107	1	0	0	0	0	1	0	0	0	5718	652	23	1	6891	1	FBN3	19	8196690	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	29044	8196690	50932293	513	64860											
MUC16	94025	broad.mit.edu	37	chr19	9048508	9048508	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagtgaccagagaggtcacCactcctggtacctcaggtga	10	8	11	12	0	2	3	2	2	0	1	3	4	3	3	4	3	1	1	4	3	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:9048508C>T	uc002mkp.2	-	5	33327	c.33123G>A	c.(33121-33123)GTG>GTA	p.V11041V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11043	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAGAGGTCACCACTCCTGGTA	0.488													12	143					0	0	0.010729	0	0		T	9048508	T	T	9048508	2	4	107	1	0	0	0	0	0	0	0	1	9991	581	21	4		4	MUC16	19	9048508	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	851818	9048508	50080475	514	64861											
MUC16	94025	broad.mit.edu	37	chr19	9069337	9069337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctttggaggtgtgtgtcCggatggctgggagtggattg	6	12	18	5	1	0	0	0	0	0	0	1	4	1	4	2	6	1	1	2	6	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:9069337C>T	uc002mkp.2	-	3	18313	c.18109G>A	c.(18109-18111)GGA>AGA	p.G6037R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6039	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTGTGTGTCCGGATGGCTGG	0.448													38	312					0	0	0.00874	0	0		T	9069337	T	T	9069337	3	4	107	1	0	0	0	0	1	0	0	0	9991	661	23	1	25742	1	MUC16	19	9069337	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	20829	9069337	50059646	515	64862											
MUC16	94025	broad.mit.edu	37	chr19	9076788	9076788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacttctgggttgggtgtgGtagttgagattgagttggtt	5	16	16	4	0	1	2	0	2	1	1	1	3	1	2	1	4	0	5	1	4	1	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:9076788G>A	uc002mkp.2	-	3	10862	c.10658C>T	c.(10657-10659)ACC>ATC	p.T3553I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3554	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTTGGGTGTGGTAGTTGAGAT	0.547													15	248					0	0	0.024245	0	0		A	9076788	A	A	9076788	3	1	107	1	0	0	0	0	1	0	0	0	9991	1261	44	4	33193	4	MUC16	19	9076788	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	7451	9076788	50052195	516	64863											
MUC16	94025	broad.mit.edu	37	chr19	9086693	9086693	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctgtgactccttcagtagTtgactcagaaaggacagagg	12	10	11	8	0	3	4	2	2	1	2	4	5	4	5	1	2	0	2	1	2	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:9086693T>G	uc002mkp.2	-	1	5326	c.5122A>C	c.(5122-5124)ACT>CCT	p.T1708P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1708	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCTTCAGTAGTTGACTCAGAA	0.488													23	247					0	0	0.024334	0	0		G	9086693	G	G	9086693	3	3	107	1	0	0	0	0	1	0	0	0	9991	1725	60	5	38737	5	MUC16	19	9086693	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	9905	9086693	50042290	517	64864											
MUC16	94025	broad.mit.edu	37	chr19	9090185	9090185	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgggggtctctctgtttTcatgctaggacttgtctcca	4	16	11	10	0	4	0	1	0	3	0	6	1	4	1	1	3	2	3	1	3	1	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:9090185T>C	uc002mkp.2	-	1	1834	c.1630A>G	c.(1630-1632)AAA>GAA	p.K544E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	544	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTCTCTGTTTTCATGCTAGGA	0.532													5	128					0	0	0.014758	0	0		C	9090185	C	C	9090185	3	2	107	1	0	0	0	0	1	0	0	0	9991	1792	62	3	42229	3	MUC16	19	9090185	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3492	9090185	50038798	518	64865											
ZNF560	147741	broad.mit.edu	37	chr19	9577597	9577597	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctctgctgcatgagtttTtaagtgttgagttagtacac	8	17	9	7	0	1	2	0	2	1	0	2	2	1	2	0	0	3	6	0	0	3	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:9577597T>G	uc002mlp.1	-	10	2236	c.2026A>C	c.(2026-2028)AAA>CAA	p.K676Q	ZNF560_uc010dwr.1_Missense_Mutation_p.K570Q	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	676	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						GCATGAGTTTTTAAGTGTTGA	0.358													40	379					0	0	0.009718	0	0		G	9577597	G	G	9577597	3	3	107	1	0	0	0	0	1	0	0	0	18016	1850	64	5	350	5	ZNF560	19	9577597	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	487412	9577597	49551386	519	64866											
ZNF846	162993	broad.mit.edu	37	chr19	9868802	9868802	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgtggatctagtgaaggcTtttccacattccatacatac	10	13	7	11	0	1	1	0	1	1	0	3	2	3	2	3	2	2	1	3	2	4	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:9868802T>C	uc002mmb.1	-	6	1482	c.951A>G	c.(949-951)AAA>AAG	p.K317K	ZNF846_uc010xky.1_RNA|ZNF846_uc010xkz.1_RNA|ZNF846_uc010dww.2_Silent_p.K188K|ZNF846_uc002mmc.1_Silent_p.K188K	NM_001077624	NP_001071092	Q147U1	ZN846_HUMAN	zinc finger protein 846	317	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TAGTGAAGGCTTTTCCACATT	0.398													27	211					0	0	0.024334	0	0		C	9868802	C	C	9868802	2	2	107	1	0	0	0	0	0	0	0	1	18217	1606	56	3		3	ZNF846	19	9868802	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	291205	9868802	49260181	520	64867											
OLFM2	93145	broad.mit.edu	37	chr19	9967528	9967528	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtcagtcatccaggagccGaagcgggaccccatggcccg	8	5	14	14	3	2	0	2	0	0	0	3	3	3	2	5	3	2	0	5	3	1	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:9967528G>A	uc002mmp.2	-	5	670	c.642C>T	c.(640-642)TTC>TTT	p.F214F	OLFM2_uc002mmo.2_Silent_p.F136F	NM_058164	NP_477512	O95897	NOE2_HUMAN	olfactomedin 2 precursor	214	Olfactomedin-like.					extracellular region				large_intestine(1)|skin(1)	2						TCCAGGAGCCGAAGCGGGACC	0.652													4	33					0	0	0.009096	0	0		A	9967528	A	A	9967528	2	1	107	1	0	0	0	0	0	0	0	1	10872	1049	37	1		1	OLFM2	19	9967528	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	98726	9967528	49161455	521	64868											
DNM2	1785	broad.mit.edu	37	chr19	10908118	10908118	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaaacagattgtaaaacTcaaagagccgagtttgaagt	19	8	9	5	1	1	3	1	1	0	2	1	5	1	3	1	0	3	2	1	0	7	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:10908118T>C	uc002mps.1	+	10	1423	c.1259T>C	c.(1258-1260)CTC>CCC	p.L420P	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Intron|DNM2_uc002mpv.1_Missense_Mutation_p.L420P|DNM2_uc002mpu.1_Intron|DNM2_uc010dxl.1_Intron|DNM2_uc002mpw.2_Missense_Mutation_p.L153P	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	420					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			ATTGTAAAACTCAAAGAGCCG	0.502													16	127					0	0	0.006122	0	0		C	10908118	C	C	10908118	3	2	107	1	0	0	0	0	1	0	0	0	4678	1551	54	3	1440	3	DNM2	19	10908118	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	940590	10908118	48220865	522	64869											
ZNF823	55552	broad.mit.edu	37	chr19	11832957	11832957	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggcttctctccagtgtgAgttgtctcatgattttgaaa	8	17	9	7	0	2	3	1	3	2	0	5	3	3	3	1	1	0	2	1	1	2	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:11832957A>G	uc002msm.2	-	4	1518	c.1392T>C	c.(1390-1392)ACT>ACC	p.T464T	ZNF823_uc010xmd.1_Silent_p.T282T|ZNF823_uc010dyi.1_Silent_p.T420T	NM_001080493	NP_001073962	P16415	ZN823_HUMAN	ZFP-36 for a zinc finger protein	464	C2H2-type 11; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTCCAGTGTGAGTTGTCTCAT	0.403										HNSCC(68;0.2)			26	174					0	0	0.021523	0	0		G	11832957	G	G	11832957	2	3	107	1	0	0	0	0	0	0	0	1	18204	291	11	3		3	ZNF823	19	11832957	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	924839	11832957	47296026	523	64870											
ZNF20	7568	broad.mit.edu	37	chr19	12246374	12246374	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgaactttccatgttttTcctaaaacacagacccggag	11	13	6	11	1	1	2	0	1	1	1	3	3	3	3	3	1	2	1	3	1	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:12246374T>C	uc002mtf.1	-	3	284	c.141A>G	c.(139-141)GGA>GGG	p.G47G	ZNF20_uc002mte.1_Silent_p.G12G|ZNF20_uc002mtg.1_Silent_p.G47G	NM_021143	NP_066966	P17024	ZNF20_HUMAN	zinc finger protein 20	47	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCCATGTTTTTCCTAAAACAC	0.358													10	101					0	0	0.013537	0	0		C	12246374	C	C	12246374	2	2	107	1	0	0	0	0	0	0	0	1	17786	1797	62	3		3	ZNF20	19	12246374	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	413417	12246374	46882609	524	64871											
ZNF564	163050	broad.mit.edu	37	chr19	12637395	12637395	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taactgaacgtttttccacaTtgcttacattcatagggttt	10	17	6	8	1	1	1	1	1	0	0	2	1	2	1	1	1	4	3	1	1	4	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:12637395T>G	uc002mty.2	-	4	1737	c.1527A>C	c.(1525-1527)CAA>CAC	p.Q509H	ZNF709_uc002mtx.3_Intron	NM_144976	NP_659413	Q8TBZ8	ZN564_HUMAN	zinc finger protein 564	509	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTTTTCCACATTGCTTACATT	0.353													31	202					0	0	0.009535	0	0		G	12637395	G	G	12637395	3	3	107	1	0	0	0	0	1	0	0	0	18020	1490	52	5	138	5	ZNF564	19	12637395	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	391021	12637395	46491588	525	64872											
DDX39	10212	broad.mit.edu	37	chr19	14521953	14521953	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaacacttcttcatccttcTtgatggagagaccaccgaag	11	11	7	12	1	4	2	2	1	2	1	5	5	5	3	3	1	1	0	3	1	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:14521953T>A	uc010xnp.1	-	5	506	c.461A>T	c.(460-462)AAG>ATG	p.K154M	DDX39_uc002myo.2_Missense_Mutation_p.K154M|DDX39_uc010dzl.2_RNA|DDX39_uc010dzm.1_Missense_Mutation_p.K154M	NM_005804	NP_005795	O00148	DX39A_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39	154	Helicase ATP-binding.				mRNA export from nucleus|nuclear mRNA splicing, via spliceosome	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding				0						TTCATCCTTCTTGATGGAGAG	0.587													5	247					0	0	0.014758	0	0		A	14521953	A	A	14521953	3	1	107	1	0	0	0	0	1	0	0	0	4360	1609	56	5	850	5	DDX39	19	14521953	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1884558	14521953	44607030	526	64873											
EMR3	84658	broad.mit.edu	37	chr19	14758024	14758024	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaagtcagcgtcacagacTtggagagagacacgttcctt	12	8	12	9	2	2	3	2	0	0	3	3	6	3	4	1	2	1	1	1	2	1	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:14758024T>C	uc002mzi.3	-	8	999	c.851A>G	c.(850-852)AAG>AGG	p.K284R	EMR3_uc010dzp.2_Missense_Mutation_p.K232R|EMR3_uc010xnv.1_Missense_Mutation_p.K158R	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	284	Extracellular (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						CGTCACAGACTTGGAGAGAGA	0.468													12	340					0	0	0.020292	0	0		C	14758024	C	C	14758024	3	2	107	1	0	0	0	0	1	0	0	0	5114	1609	56	3	1143	3	EMR3	19	14758024	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	236071	14758024	44370959	527	64874											
TSSK6	83983	broad.mit.edu	37	chr19	19625642	19625642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	catgacgtagagcacgacgcCcatgctccacacatcgtact	11	7	8	15	4	0	2	0	1	0	1	2	3	1	2	2	0	3	4	2	0	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:19625642C>T	uc002nmr.2	-	1	828	c.595G>A	c.(595-597)GGC>AGC	p.G199S	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	199	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						AGCACGACGCCCATGCTCCAC	0.657													24	57					0	0	0.01892	0	0		T	19625642	T	T	19625642	3	4	107	1	0	0	0	0	1	0	0	0	16698	623	22	4	230	4	TSSK6	19	19625642	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	4867618	19625642	39503341	528	64875											
ZNF14	7561	broad.mit.edu	37	chr19	19822523	19822523	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttatttccagtgtgaatttTttcatgttctcgaagggaac	9	17	8	7	1	2	1	1	1	1	0	4	3	3	2	1	1	1	1	1	1	4	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:19822523T>G	uc002nnk.1	-	4	1721	c.1567A>C	c.(1567-1569)AAA>CAA	p.K523Q		NM_021030	NP_066358	P17017	ZNF14_HUMAN	zinc finger protein 14	523	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Renal(1328;0.0474)				GTGTGAATTTTTTCATGTTCT	0.408													6	303					0	0	0.001984	0	0		G	19822523	G	G	19822523	3	3	107	1	0	0	0	0	1	0	0	0	17753	1850	64	5	365	5	ZNF14	19	19822523	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	196881	19822523	39306460	529	64876											
ZNF43	7594	broad.mit.edu	37	chr19	21991547	21991547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagttaaaggctttgccaCattcttcacatttgtagggt	9	14	9	9	0	2	0	1	0	1	0	2	0	2	0	2	2	1	3	2	2	3	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:21991547C>T	uc002nqj.2	-	4	1422	c.1292G>A	c.(1291-1293)TGT>TAT	p.C431Y	ZNF43_uc010ecv.2_Missense_Mutation_p.C425Y|ZNF43_uc002nql.2_Missense_Mutation_p.C425Y|ZNF43_uc002nqm.2_Missense_Mutation_p.C425Y|ZNF43_uc002nqk.2_Missense_Mutation_p.C361Y	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	431	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		GGCTTTGCCACATTCTTCACA	0.388													10	216					0	0	0.006214	0	0		T	21991547	T	T	21991547	3	4	107	1	0	0	0	0	1	0	0	0	17928	478	17	4	1141	4	ZNF43	19	21991547	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	2169024	21991547	37137436	530	64877											
ZNF208	7757	broad.mit.edu	37	chr19	22156857	22156857	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccttatgtgtaataagggTtgagaccttactgaaggctt	10	14	11	6	0	0	2	0	2	0	1	0	3	0	2	2	2	2	3	2	2	5	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:22156857T>C	uc002nqp.2	-	4	1128	c.979A>G	c.(979-981)ACC>GCC	p.T327A	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GTAATAAGGGTTGAGACCTTA	0.393													47	74					0	0	0.01441	0	0		C	22156857	C	C	22156857	3	2	107	1	0	0	0	0	1	0	0	0	17791	1725	60	3	2867	3	ZNF208	19	22156857	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	165310	22156857	36972126	531	64878											
ZNF257	113835	broad.mit.edu	37	chr19	22270892	22270892	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacatgagaatttacaattaAgaaagggctgtaaaagtgtg	18	10	10	3	0	0	2	0	1	0	2	0	3	0	2	0	1	2	2	0	1	8	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:22270892A>G	uc010ecx.2	+	4	509	c.340A>G	c.(340-342)AGA>GGA	p.R114G	ZNF257_uc010ecy.2_Missense_Mutation_p.R82G	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	114					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTTACAATTAAGAAAGGGCTG	0.358													12	86					0	0	0.010729	0	0		G	22270892	G	G	22270892	3	3	107	1	0	0	0	0	1	0	0	0	17825	64	3	3	354	3	ZNF257	19	22270892	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	114035	22270892	36858091	532	64879											
ZNF181	339318	broad.mit.edu	37	chr19	35232041	35232041	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttggcaaacagtcaatccTcaatcgccactggagaattc	12	10	7	12	1	2	1	2	0	0	1	5	2	3	1	2	2	1	1	2	2	4	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:35232041T>G	uc002nvu.3	+	4	1218	c.755T>G	c.(754-756)CTC>CGC	p.L252R	ZNF181_uc010xsa.1_Missense_Mutation_p.L251R|ZNF181_uc010xsb.1_Missense_Mutation_p.L251R|ZNF181_uc010xsc.1_Missense_Mutation_p.L187R	NM_001029997	NP_001025168	Q2M3W8	ZN181_HUMAN	zinc finger protein 181 isoform 1	252	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			CAGTCAATCCTCAATCGCCAC	0.448													6	281					0	0	0.021553	0	0		G	35232041	G	G	35232041	3	3	107	1	0	0	0	0	1	0	0	0	17774	1551	54	5	769	5	ZNF181	19	35232041	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	12961149	35232041	23896942	533	64880											
FFAR1	2864	broad.mit.edu	37	chr19	35842879	35842879	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtcacctgggtctggtctTtgggttggaggctccaggag	4	12	17	8	0	3	0	1	0	2	0	4	2	4	2	2	6	0	2	2	6	0	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:35842879T>G	uc002nzc.2	+	1	435	c.425T>G	c.(424-426)TTT>TGT	p.F142C		NM_005303	NP_005294	O14842	FFAR1_HUMAN	free fatty acid receptor 1	142	Helical; Name=4; (Potential).				energy reserve metabolic process|regulation of insulin secretion	integral to plasma membrane	G-protein coupled receptor activity|guanyl-nucleotide exchange factor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;4.58e-20)|OV - Ovarian serous cystadenocarcinoma(14;6.67e-19)|all cancers(14;2.01e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)		Icosapent(DB00159)	GGTCTGGTCTTTGGGTTGGAG	0.662													4	100					0	0	0.009096	0	0		G	35842879	G	G	35842879	3	3	107	1	0	0	0	0	1	0	0	0	5841	1841	64	5	427	5	FFAR1	19	35842879	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	610838	35842879	23286104	534	64881											
ZNF585A	199704	broad.mit.edu	37	chr19	37642537	37642537	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacactgatttctgaacgAagcctttcccacagatgcca	12	10	7	12	1	1	4	0	3	1	1	2	5	2	4	3	0	4	0	3	0	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:37642537A>C	uc002ofo.1	-	5	2495	c.2264T>G	c.(2263-2265)TTC>TGC	p.F755C	ZNF585A_uc002ofm.1_Missense_Mutation_p.F700C|ZNF585A_uc002ofn.1_Missense_Mutation_p.F700C	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	755	C2H2-type 22.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTTCTGAACGAAGCCTTTCCC	0.488													15	129					0	0	0.028581	0	0		C	37642537	C	C	37642537	3	2	107	1	0	0	0	0	1	0	0	0	18042	246	9	5	49	5	ZNF585A	19	37642537	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1799658	37642537	21486446	535	64882											
FCGBP	8857	broad.mit.edu	37	chr19	40366468	40366468	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtccccatcgaaagccAgcgagagccctgaggttgtg	9	7	13	12	2	0	2	0	1	0	1	2	4	1	2	4	1	4	2	4	1	1	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:40366468A>G	uc002omp.3	-	30	13774	c.13766T>C	c.(13765-13767)CTG>CCG	p.L4589P		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4589	VWFD 11.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			ATCGAAAGCCAGCGAGAGCCC	0.667													12	60					0	0	0.020292	0	0		G	40366468	G	G	40366468	3	3	107	1	0	0	0	0	1	0	0	0	5792	188	7	3	2479	3	FCGBP	19	40366468	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2723931	40366468	18762515	536	64883											
ZNF780A	284323	broad.mit.edu	37	chr19	40580508	40580508	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttccacattccttacatTcaaagggtttctcaccagta	10	14	4	13	0	2	0	2	0	1	0	5	0	4	0	4	1	1	2	4	1	3	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:40580508T>C	uc002omy.2	-	6	2066	c.1841A>G	c.(1840-1842)GAA>GGA	p.E614G	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.E614G|ZNF780A_uc010xvh.1_Missense_Mutation_p.E615G	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	614	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TTCCTTACATTCAAAGGGTTT	0.418													25	256					0	0	0.01892	0	0		C	40580508	C	C	40580508	3	2	107	1	0	0	0	0	1	0	0	0	18177	1783	62	3	215	3	ZNF780A	19	40580508	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	214040	40580508	18548475	537	64884											
CYP2B6	1555	broad.mit.edu	37	chr19	41518644	41518644	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactactttgaaaaaccagaCgccttcaatcctgaccactt	13	10	4	14	1	1	3	1	2	0	1	2	3	2	3	4	0	2	0	4	0	4	4	rs35661880	byFrequency	TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:41518644C>T	uc002opr.1	+	8	1225	c.1218C>T	c.(1216-1218)GAC>GAT	p.D406D	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Silent_p.D206D	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	406					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	AAAAACCAGACGCCTTCAATC	0.453													90	327					0	0	0.01441	0	0		T	41518644	T	T	41518644	2	4	107	1	0	0	0	0	0	0	0	1	4167	535	19	1		1	CYP2B6	19	41518644	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	938136	41518644	17610339	538	64885											
CYP2A13	1553	broad.mit.edu	37	chr19	41596320	41596320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacctgcaggcgccaatatcGatcccaccttcttcctgagc	8	9	7	17	2	1	1	0	1	1	0	4	2	3	1	5	1	2	1	5	1	2	3	rs146392271		TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:41596320G>A	uc002opt.2	+	4	514	c.505G>A	c.(505-507)GAT>AAT	p.D169N		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	169					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	CGCCAATATCGATCCCACCTT	0.552													10	126					0	0	0.020292	0	0		A	41596320	A	A	41596320	3	1	107	1	0	0	0	0	1	0	0	0	4164	1058	37	1	519	1	CYP2A13	19	41596320	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	77676	41596320	17532663	539	64886											
ZNF223	7766	broad.mit.edu	37	chr19	44564948	44564948	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccactttctaagggaggaAaagttttggatgatggatat	12	14	11	4	0	1	1	0	1	1	0	2	5	2	5	1	4	0	1	1	4	4	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:44564948A>C	uc002oyf.1	+	4	442	c.189A>C	c.(187-189)GAA>GAC	p.E63D	ZNF284_uc010ejd.2_RNA	NM_013361	NP_037493	Q9UK11	ZN223_HUMAN	zinc finger protein 223	63	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0352)				TAAGGGAGGAAAAGTTTTGGA	0.398													45	360					0	0	0.01441	0	0		C	44564948	C	C	44564948	3	2	107	1	0	0	0	0	1	0	0	0	17802	11	1	5	199	5	ZNF223	19	44564948	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2968628	44564948	14564035	540	64887											
ZNF225	7768	broad.mit.edu	37	chr19	44636097	44636097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaaaaggaggttggatcttGactttcatcagagggtccac	12	10	11	8	0	3	2	2	1	1	1	4	4	4	4	1	4	0	1	1	4	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:44636097G>A	uc002oyj.1	+	5	1573	c.1330G>A	c.(1330-1332)GAC>AAC	p.D444N	ZNF225_uc010eje.1_Missense_Mutation_p.D361N|ZNF225_uc010ejf.1_Missense_Mutation_p.D444N	NM_013362	NP_037494	Q9UK10	ZN225_HUMAN	zinc finger protein 225	444	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				GTTGGATCTTGACTTTCATCA	0.453													13	133					0	0	0.016723	0	0		A	44636097	A	A	44636097	3	1	107	1	0	0	0	0	1	0	0	0	17804	1290	45	4	1344	4	ZNF225	19	44636097	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	71149	44636097	14492886	541	64888											
ZFP112	7771	broad.mit.edu	37	chr19	44833807	44833807	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgtgccctccaagatggaTacccttgactttttatataa	11	14	7	9	0	0	2	0	1	0	1	1	4	1	3	3	1	2	0	3	1	5	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:44833807T>G	uc010ejj.2	-	5	634	c.521A>C	c.(520-522)TAT>TCT	p.Y174S	ZFP112_uc002ozc.3_Missense_Mutation_p.Y168S|ZFP112_uc010xwy.1_Missense_Mutation_p.Y191S|ZFP112_uc010xwz.1_Missense_Mutation_p.Y173S	NM_001083335	NP_001076804	Q9UJU3	ZF112_HUMAN	zinc finger protein 228 isoform 1	174					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)	5						CCAAGATGGATACCCTTGACT	0.368													16	247					0	0	0.00499	0	0		G	44833807	G	G	44833807	3	3	107	1	0	0	0	0	1	0	0	0	17663	1406	49	5	2224	5	ZFP112	19	44833807	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	197710	44833807	14295176	542	64889											
ZNF180	7733	broad.mit.edu	37	chr19	44981801	44981801	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattctttaaaatcaaaggtTtttcctcctccatgaatttt	11	18	3	9	0	2	1	1	1	1	0	5	1	5	1	3	1	0	1	3	1	4	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:44981801T>G	uc002ozf.3	-	5	1179	c.897A>C	c.(895-897)AAA>AAC	p.K299N	ZNF180_uc002ozh.3_5'UTR|ZNF180_uc002ozi.3_Missense_Mutation_p.K272N|ZNF180_uc002ozg.3_Missense_Mutation_p.K298N|ZNF180_uc010ejm.2_Missense_Mutation_p.K274N	NM_013256	NP_037388	Q9UJW8	ZN180_HUMAN	zinc finger protein 180	299					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				AATCAAAGGTTTTTCCTCCTC	0.343													8	218					0	0	0.004482	0	0		G	44981801	G	G	44981801	3	3	107	1	0	0	0	0	1	0	0	0	17773	1838	64	5	1185	5	ZNF180	19	44981801	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	147994	44981801	14147182	543	64890											
ZNF180	7733	broad.mit.edu	37	chr19	44982338	44982338	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgctttgaagttgaatcTttttttccaactgcagttgc	7	18	7	9	0	2	2	0	2	2	0	3	2	3	2	1	0	4	4	1	0	3	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:44982338T>C	uc002ozf.3	-	5	642	c.360A>G	c.(358-360)AAA>AAG	p.K120K	ZNF180_uc002ozh.3_5'UTR|ZNF180_uc002ozi.3_Silent_p.K93K|ZNF180_uc002ozg.3_Silent_p.K119K|ZNF180_uc010ejm.2_Silent_p.K95K	NM_013256	NP_037388	Q9UJW8	ZN180_HUMAN	zinc finger protein 180	120	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				AAGTTGAATCTTTTTTTCCAA	0.338													12	110					0	0	0.010729	0	0		C	44982338	C	C	44982338	2	2	107	1	0	0	0	0	0	0	0	1	17773	1606	56	3		3	ZNF180	19	44982338	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	537	44982338	14146645	544	64891											
PNMAL1	55228	broad.mit.edu	37	chr19	46973452	46973452	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggctctgagatcgccatgcTttcagcatcacccacctcag	8	9	8	16	2	4	1	3	1	1	1	5	2	4	1	3	1	2	3	3	1	0	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:46973452T>G	uc002peq.3	-	2	1147	c.841A>C	c.(841-843)AGC>CGC	p.S281R	PNMAL1_uc002per.3_Missense_Mutation_p.S281R	NM_018215	NP_060685	Q86V59	PNML1_HUMAN	PNMA-like 1 isoform a	281											0		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000166)|all cancers(93;0.0014)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		ATCGCCATGCTTTCAGCATCA	0.527													17	327					0	0	0.00499	0	0		G	46973452	G	G	46973452	3	3	107	1	0	0	0	0	1	0	0	0	12176	1609	56	5	508	5	PNMAL1	19	46973452	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1991114	46973452	12155531	545	64892											
DHDH	27294	broad.mit.edu	37	chr19	49447725	49447725	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacaacggggcaggcatgAgttatgaggccaagcacgtc	11	7	14	9	2	0	3	0	3	0	0	1	3	0	3	1	4	2	4	1	4	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:49447725A>T	uc002ple.1	+	6	896	c.856A>T	c.(856-858)AGT>TGT	p.S286C		NM_014475	NP_055290	Q9UQ10	DHDH_HUMAN	dimeric dihydrodiol dehydrogenase	286					carbohydrate metabolic process		binding|D-xylose 1-dehydrogenase (NADP+) activity|electron carrier activity|NAD(P)+ transhydrogenase activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000158)|all cancers(93;0.000258)|Epithelial(262;0.0173)|GBM - Glioblastoma multiforme(486;0.0179)		GGCAGGCATGAGTTATGAGGC	0.627													13	97					0	0	0.020292	0	0		T	49447725	T	T	49447725	3	4	107	1	0	0	0	0	1	0	0	0	4485	304	11	5	878	5	DHDH	19	49447725	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2474273	49447725	9681258	546	64893											
NR1H2	7376	broad.mit.edu	37	chr19	50881883	50881883	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgcagggcagcagcagcTcagcctctgggcctggggct	5	5	17	14	1	2	0	1	0	1	0	2	0	2	0	3	5	4	6	3	5	0	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:50881883T>C	uc010enw.2	+	7	856	c.580T>C	c.(580-582)TCA>CCA	p.S194P	NR1H2_uc002prv.3_RNA|NR1H2_uc002prz.3_Missense_Mutation_p.S193P|NR1H2_uc002psa.3_Missense_Mutation_p.S96P	NM_007121	NP_009052	P55055	NR1H2_HUMAN	nuclear receptor subfamily 1, group H, member 2	193	Poly-Ser.				negative regulation of cholesterol storage|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of pinocytosis|negative regulation of transcription, DNA-dependent|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		CAGCAGCAGCTCAGCCTCTGG	0.607													5	24					0	0	0.006214	0	0		C	50881883	C	C	50881883	3	2	107	1	0	0	0	0	1	0	0	0	10636	1551	54	3	591	3	NR1H2	19	50881883	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	1434158	50881883	8247100	547	64894											
ZNF880	400713	broad.mit.edu	37	chr19	52888022	52888022	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacaagttttgtctaaccAatcatcatagaatgcacacg	14	10	7	10	1	3	1	2	0	1	1	3	1	3	1	1	1	2	3	1	1	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:52888022A>G	uc002pzc.2	+	4	1238	c.1189A>G	c.(1189-1191)AAT>GAT	p.N397D		NM_001145434	NP_001138906	Q6PDB4	ZN880_HUMAN	zinc finger protein LOC400713	397	C2H2-type 8.				regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						TTGTCTAACCAATCATCATAG	0.403													4	76					0	0	0.014758	0	0		G	52888022	G	G	52888022	3	3	107	1	0	0	0	0	1	0	0	0	18222	130	5	3	1203	3	ZNF880	19	52888022	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2006139	52888022	6240961	548	64895											
ZNF808	388558	broad.mit.edu	37	chr19	53057134	53057134	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagtgtaatgagtgtggcaAggtctttcgtcaaaattcag	12	12	11	6	1	3	1	2	1	1	0	4	1	3	1	0	2	0	2	0	2	5	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:53057134A>C	uc010epq.1	+	5	1142	c.965A>C	c.(964-966)AAG>ACG	p.K322T	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	322	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		GAGTGTGGCAAGGTCTTTCGT	0.383													30	248					0	0	0.009535	0	0		C	53057134	C	C	53057134	3	2	107	1	0	0	0	0	1	0	0	0	18198	72	3	5	975	5	ZNF808	19	53057134	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	169112	53057134	6071849	549	64896											
ZNF160	90338	broad.mit.edu	37	chr19	53571418	53571418	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgccacactcattacatTtgtaacgcttttctccagtg	8	15	5	13	1	2	0	1	0	1	0	3	0	2	0	3	0	3	2	3	0	2	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:53571418T>G	uc010eqk.2	-	7	2785	c.2369A>C	c.(2368-2370)AAA>ACA	p.K790T	ZNF160_uc002qaq.3_Missense_Mutation_p.K790T|ZNF160_uc002qar.3_Missense_Mutation_p.K790T	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	790	C2H2-type 20.				hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		CTCATTACATTTGTAACGCTT	0.448													30	247					0	0	0.008361	0	0		G	53571418	G	G	53571418	3	3	107	1	0	0	0	0	1	0	0	0	17764	1841	64	5	91	5	ZNF160	19	53571418	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	514284	53571418	5557565	550	64897											
ZNF677	342926	broad.mit.edu	37	chr19	53741755	53741755	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaccagatggtataattcCtctttattattttcctttgg	9	19	5	8	0	2	1	1	0	1	1	4	1	4	1	3	2	0	1	3	2	4	9			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:53741755C>A	uc002qbf.1	-	5	410	c.225G>T	c.(223-225)GAG>GAT	p.E75D	ZNF677_uc002qbg.1_Missense_Mutation_p.E75D	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	75	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		GGTATAATTCCTCTTTATTAT	0.348													24	161					6.44725e-10	6.75426e-10	0.014323	1	0		A	53741755	A	A	53741755	3	1	107	1	0	0	0	0	1	0	0	0	18109	680	24	5	1533	5	ZNF677	19	53741755	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	170337	53741755	5387228	551	64898											
PRPF31	26121	broad.mit.edu	37	chr19	54627955	54627955	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggggcccagcgcaagacgCtgtcgggcttctcgtctacc	5	8	13	15	5	2	1	0	0	2	1	5	1	2	1	2	3	2	3	2	3	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:54627955C>T	uc002qdh.2	+	8	1171	c.775C>T	c.(775-777)CTG>TTG	p.L259L	PRPF31_uc010yek.1_Silent_p.L259L	NM_015629	NP_056444	Q8WWY3	PRP31_HUMAN	pre-mRNA processing factor 31 homolog	259	Nop.				assembly of spliceosomal tri-snRNP	Cajal body|MLL1 complex|nuclear speck|U4 snRNP|U4/U6 x U5 tri-snRNP complex|U4atac snRNP	RNA binding|snRNP binding			ovary(1)	1	all_cancers(19;0.00681)|all_epithelial(19;0.00362)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GCGCAAGACGCTGTCGGGCTT	0.652													5	65					0	0	0.001984	0	0		T	54627955	T	T	54627955	2	4	107	1	0	0	0	0	0	0	0	1	12588	796	28	2		2	PRPF31	19	54627955	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	886200	54627955	4501028	552	64899											
KIR3DL1	3811	broad.mit.edu	37	chr19	55341674	55341674	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccccctacagataccatcTtgtacacggaacttccaaat	13	9	4	15	1	1	1	0	0	1	1	2	2	2	2	4	1	4	1	4	1	5	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:55341674T>G	uc002qhk.3	+	9	1342	c.1279T>G	c.(1279-1281)TTG>GTG	p.L427V	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_Missense_Mutation_p.L352V|KIR3DL1_uc010esf.2_Missense_Mutation_p.L332V|KIR3DL1_uc010yfo.1_Missense_Mutation_p.L369V|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_5'Flank|KIR2DS4_uc002qhm.1_5'Flank	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	427	Cytoplasmic (Potential).				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		AGATACCATCTTGTACACGGA	0.512													14	496					0	0	0.028581	0	0		G	55341674	G	G	55341674	3	3	107	1	0	0	0	0	1	0	0	0	8336	1606	56	5	1313	5	KIR3DL1	19	55341674	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	713719	55341674	3787309	553	64900											
KIR2DS4	3809	broad.mit.edu	37	chr19	55349282	55349282	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acggttctgttcctcactccCcctatcagttgtcagctccc	5	13	6	17	1	4	0	3	0	1	0	7	0	7	0	4	1	1	4	4	1	1	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:55349282C>A	uc002qhm.1	+	3	368	c.322C>A	c.(322-324)CCC>ACC	p.P108T	KIR2DS4_uc010yfj.1_Missense_Mutation_p.P101T|KIR2DS4_uc010yfk.1_RNA|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_Missense_Mutation_p.P108T|KIR2DS4_uc002qhn.1_Missense_Mutation_p.P55T	NM_012314	NP_036446	P43632	KI2S4_HUMAN	killer cell immunoglobulin-like receptor, two	108	Extracellular (Potential).					integral to plasma membrane	receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		TCCTCACTCCCCCTATCAGTT	0.507													56	692					2.41709e-19	2.57044e-19	0.01441	1	0		A	55349282	A	A	55349282	3	1	107	1	0	0	0	0	1	0	0	0	8335	623	22	5	332	5	KIR2DS4	19	55349282	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	7608	55349282	3779701	554	64901											
BRSK1	84446	broad.mit.edu	37	chr19	55813018	55813018	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgaagtggagcccgaaaaaAggctcagtgtgagttgaggg	12	7	16	6	2	1	2	1	2	0	0	2	5	1	3	1	3	1	2	1	3	4	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:55813018A>C	uc002qkg.2	+	8	1094	c.817A>C	c.(817-819)AGG>CGG	p.R273R	BRSK1_uc002qkf.2_Silent_p.R289R|BRSK1_uc002qkh.2_5'Flank	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	273	Protein kinase.				establishment of cell polarity|G2/M transition DNA damage checkpoint|neuron differentiation|response to UV	cell junction|cytoplasm|nucleus	magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|lung(1)|breast(1)|skin(1)	6		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0474)		GCCCGAAAAAAGGCTCAGTGT	0.577													4	19					0	0	0.014758	0	0		C	55813018	C	C	55813018	2	2	107	1	0	0	0	0	0	0	0	1	1526	63	3	5		5	BRSK1	19	55813018	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	463736	55813018	3315965	555	64902											
NLRP9	338321	broad.mit.edu	37	chr19	56243492	56243492	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgttaccaatataaatgaAaacttcttcaaagaaattca	19	13	3	6	0	3	2	2	1	1	1	3	2	3	2	1	0	2	1	1	0	10	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:56243492A>C	uc002qly.2	-	2	1733	c.1705T>G	c.(1705-1707)TTC>GTC	p.F569V		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	569						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		ATATAAATGAAAACTTCTTCA	0.343													5	124					0	0	0.014758	0	0		C	56243492	C	C	56243492	3	2	107	1	0	0	0	0	1	0	0	0	10503	14	1	5	1302	5	NLRP9	19	56243492	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	430474	56243492	2885491	556	64903											
ZNF211	10520	broad.mit.edu	37	chr19	58152729	58152729	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaatgcaatgaatgtggaaAattctttacctactactcca	14	13	6	8	0	1	2	0	2	1	0	2	3	2	3	2	1	4	1	2	1	8	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr19:58152729A>G	uc002qpq.2	+	3	1055	c.875A>G	c.(874-876)AAA>AGA	p.K292R	ZNF211_uc010yhb.1_Missense_Mutation_p.K296R|ZNF211_uc002qpp.2_Missense_Mutation_p.K305R|ZNF211_uc002qpr.2_Missense_Mutation_p.K356R|ZNF211_uc002qps.2_Missense_Mutation_p.K357R|ZNF211_uc002qpt.2_Missense_Mutation_p.K304R|ZNF211_uc010yhc.1_Missense_Mutation_p.K304R|ZNF211_uc010yhd.1_Missense_Mutation_p.K231R|ZNF211_uc010yhe.1_Missense_Mutation_p.K283R	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	292	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GAATGTGGAAAATTCTTTACC	0.413													20	155					0	0	0.010504	0	0		G	58152729	G	G	58152729	3	3	107	1	0	0	0	0	1	0	0	0	17792	14	1	3	928	3	ZNF211	19	58152729	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1909237	58152729	976254	557	64904											
DEFB129	140881	broad.mit.edu	37	chr20	210029	210029	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaaaaaatgttgtgttggaCcaaaagtggttaaattgatt	15	14	10	2	0	0	2	0	2	0	0	0	3	0	3	1	2	0	3	1	2	7	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:210029C>A	uc002wda.2	+	2	174	c.169C>A	c.(169-171)CCA>ACA	p.P57T		NM_080831	NP_543021	Q9H1M3	DB129_HUMAN	beta defensin 129 precursor	57					defense response to bacterium	extracellular region				ovary(1)	1		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			TTGTGTTGGACCAAAAGTGGT	0.378													6	135					0.00198382	0.00202114	0.001984	1	0		A	210029	A	A	210029	3	1	107	1	0	0	0	0	1	0	0	0	4420	507	18	5	175	5	DEFB129	20	210029	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08		210029	62815491	558	64905											
TGM3	7053	broad.mit.edu	37	chr20	2315813	2315813	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagtatgagaagtacctgaAgtcagacaacatgatccgga	15	8	10	8	1	2	4	2	3	0	2	3	6	3	5	2	1	2	2	2	1	5	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:2315813A>G	uc002wfx.3	+	11	1791	c.1694A>G	c.(1693-1695)AAG>AGG	p.K565R		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	565					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity	p.K565K(1)		large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	AAGTACCTGAAGTCAGACAAC	0.557													18	164					0	0	0.006122	0	0		G	2315813	G	G	2315813	3	3	107	1	0	0	0	0	1	0	0	0	15856	72	3	3	1736	3	TGM3	20	2315813	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	2105784	2315813	60709707	559	64906											
GPCPD1	56261	broad.mit.edu	37	chr20	5559187	5559187	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatctccaagctattggacaTtttgtggagtacagtgggag	10	13	12	6	0	1	0	0	0	1	0	2	3	1	3	1	3	2	2	1	3	4	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:5559187T>G	uc002wme.3	-	8	757	c.544A>C	c.(544-546)ATG>CTG	p.M182L	GPCPD1_uc002wmd.3_Missense_Mutation_p.M1L	NM_019593	NP_062539	Q9NPB8	GPCP1_HUMAN	hypothetical protein LOC56261	182					glycerol metabolic process|lipid metabolic process		carbohydrate binding|glycerophosphodiester phosphodiesterase activity				0						CTATTGGACATTTTGTGGAGT	0.453													5	124					0	0	0.014758	0	0		G	5559187	G	G	5559187	3	3	107	1	0	0	0	0	1	0	0	0	6618	1493	52	5	1526	5	GPCPD1	20	5559187	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3243374	5559187	57466333	560	64907											
PLCB1	23236	broad.mit.edu	37	chr20	8630095	8630095	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagtcttccatcttcaaGggtgagcatgtgtgttatgc	7	16	11	7	0	3	1	1	1	2	0	4	1	4	1	1	1	2	3	1	1	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:8630095G>T	uc002wnb.2	+	7	596	c.593G>T	c.(592-594)AGG>ATG	p.R198M	PLCB1_uc010zrb.1_Missense_Mutation_p.R97M|PLCB1_uc010gbv.1_Missense_Mutation_p.R198M|PLCB1_uc002wmz.1_Missense_Mutation_p.R198M|PLCB1_uc002wna.2_Missense_Mutation_p.R198M|PLCB1_uc002wnc.1_Missense_Mutation_p.R97M	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	198					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						CCATCTTCAAGGGTGAGCATG	0.254													4	170					0.00909568	0.00925341	0.009096	1	0		T	8630095	T	T	8630095	3	4	107	1	0	0	0	0	1	0	0	0	12046	1014	35	5	619	5	PLCB1	20	8630095	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	3070908	8630095	54395425	561	64908											
ANKRD5	63926	broad.mit.edu	37	chr20	10035216	10035216	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattaccagtggttatactaAgaaagtggatatcacattta	15	13	8	5	0	1	1	1	0	0	1	1	3	1	2	1	2	2	1	1	2	7	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:10035216A>G	uc002wno.2	+	10	2534	c.2141A>G	c.(2140-2142)AAG>AGG	p.K714R	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Missense_Mutation_p.K714R|ANKRD5_uc010gbz.2_Missense_Mutation_p.K525R	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	714							calcium ion binding			ovary(1)|breast(1)	2						GGTTATACTAAGAAAGTGGAT	0.363													6	150					0	0	0.021553	0	0		G	10035216	G	G	10035216	3	3	107	1	0	0	0	0	1	0	0	0	676	72	3	3	2171	3	ANKRD5	20	10035216	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1405121	10035216	52990304	562	64909											
C20orf26	26074	broad.mit.edu	37	chr20	20056254	20056254	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcagctgcacgttcgcaaAgccaggtacagttggagtca	10	8	11	12	2	2	0	2	0	0	0	3	1	2	1	2	2	4	6	2	2	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:20056254A>G	uc002wru.2	+	6	637	c.561A>G	c.(559-561)AAA>AAG	p.K187K	C20orf26_uc010gcw.1_Silent_p.K141K|C20orf26_uc010zse.1_Silent_p.K187K|C20orf26_uc010zsf.1_Silent_p.K187K	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	187										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		ACGTTCGCAAAGCCAGGTACA	0.483													34	119					0	0	0.01441	0	0		G	20056254	G	G	20056254	2	3	107	1	0	0	0	0	0	0	0	1	2109	69	3	3		3	C20orf26	20	20056254	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	10021038	20056254	42969266	563	64910											
NKX2-2	4821	broad.mit.edu	37	chr20	21494272	21494272	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcaggtctaagatgtccttGaccgaaaaccccgtctttgt	9	11	10	11	2	2	2	0	1	2	1	3	3	3	2	4	2	1	1	4	2	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:21494272G>A	uc002wsi.2	-	1	393	c.36C>T	c.(34-36)GTC>GTT	p.V12V		NM_002509	NP_002500	O95096	NKX22_HUMAN	NK2 transcription factor related, locus 2	12					brain development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	chromatin binding|core promoter proximal region DNA binding|transcription coactivator activity			pancreas(1)|skin(1)	2						AGATGTCCTTGACCGAAAACC	0.572													23	123					0	0	0.024334	0	0		A	21494272	A	A	21494272	2	1	107	1	0	0	0	0	0	0	0	1	10469	1277	45	4		4	NKX2-2	20	21494272	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	1438018	21494272	41531248	564	64911											
TMEM90B	79953	broad.mit.edu	37	chr20	24523780	24523780	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctggtgcacagtaaaaTcagtgatgctggcaagagga	13	8	13	7	0	1	2	1	1	0	1	1	3	1	3	0	3	3	5	0	3	3	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:24523780T>C	uc002wtw.1	+	2	680	c.47T>C	c.(46-48)ATC>ACC	p.I16T		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	16	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						CACAGTAAAATCAGTGATGCT	0.517													20	141					0	0	0.007413	0	0		C	24523780	C	C	24523780	3	2	107	1	0	0	0	0	1	0	0	0	16244	1435	50	3	49	3	TMEM90B	20	24523780	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3029508	24523780	38501740	565	64912											
HCK	3055	broad.mit.edu	37	chr20	30674564	30674564	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcaaacttcatgcggtGgtcaccaaggagcccatcta	10	9	10	12	1	4	0	3	0	1	0	4	1	4	1	2	4	3	0	2	4	3	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:30674564G>A	uc002wxh.2	+	9	1140	c.969G>A	c.(967-969)GTG>GTA	p.V323V	HCK_uc010gdy.2_Silent_p.V302V|HCK_uc002wxi.2_Silent_p.V301V	NM_002110	NP_002101	P08631	HCK_HUMAN	hemopoietic cell kinase isoform p61HCK	323	Protein kinase.				interspecies interaction between organisms|mesoderm development|regulation of defense response to virus by virus|viral reproduction	caveola|cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|ovary(2)|central_nervous_system(2)|pancreas(1)	9			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			TTCATGCGGTGGTCACCAAGG	0.572													21	75					0	0	0.014323	0	0		A	30674564	A	A	30674564	2	1	107	1	0	0	0	0	0	0	0	1	7010	1335	47	4		4	HCK	20	30674564	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	6150784	30674564	32350956	566	64913											
RALY	22913	broad.mit.edu	37	chr20	32660008	32660008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agatgtggagaccatcttctCtaagtatggccgtgtggccg	8	11	13	9	2	2	2	0	0	2	2	3	3	2	2	3	3	0	1	3	3	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:32660008C>T	uc002xab.2	+	3	426	c.128C>T	c.(127-129)TCT>TTT	p.S43F	RALY_uc010zui.1_Missense_Mutation_p.S43F|RALY_uc002xac.2_Missense_Mutation_p.S43F|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Missense_Mutation_p.S43F	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	43	RRM.					catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1						ACCATCTTCTCTAAGTATGGC	0.512													29	145					0	0	0.013726	0	0		T	32660008	T	T	32660008	3	4	107	1	0	0	0	0	1	0	0	0	13044	913	32	4	130	4	RALY	20	32660008	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	1985444	32660008	30365512	567	64914											
C20orf152	140894	broad.mit.edu	37	chr20	34571996	34571996	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgcaataaccaaggacgAggatggcagcagtgccttcc	12	7	12	10	1	0	0	0	0	0	0	1	3	1	2	3	3	4	4	3	3	3	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:34571996A>C	uc002xes.1	+	5	656	c.500A>C	c.(499-501)GAG>GCG	p.E167A	C20orf152_uc002xer.1_Missense_Mutation_p.E167A|C20orf152_uc010gfp.1_Intron			Q96M20	CT152_HUMAN	SubName: Full=C20orf152 protein;	167	cNMP.										0	Breast(12;0.00631)					ACCAAGGACGAGGATGGCAGC	0.542													28	137					0	0	0.027356	0	0		C	34571996	C	C	34571996	3	2	107	1	0	0	0	0	1	0	0	0	2095	304	11	5	518	5	C20orf152	20	34571996	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	1911988	34571996	28453524	568	64915											
EMILIN3	90187	broad.mit.edu	37	chr20	39990482	39990482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccttgaagtgagctgcccGtcccttctgccagctgtccc	4	10	10	17	2	1	2	0	2	1	0	3	2	3	2	5	0	4	2	5	0	1	2	rs148759441		TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:39990482G>A	uc002xjy.1	-	4	1951	c.1727C>T	c.(1726-1728)ACG>ATG	p.T576M		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	576						proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				TGAGCTGCCCGTCCCTTCTGC	0.612													17	218					0	0	0.006122	0	0		A	39990482	A	A	39990482	3	1	107	1	0	0	0	0	1	0	0	0	5103	1145	40	1	577	1	EMILIN3	20	39990482	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	5418486	39990482	23035038	569	64916											
ADNP	23394	broad.mit.edu	37	chr20	49509420	49509420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttttatagggcactgcagCttgaggtgaactttttacag	9	16	10	6	0	0	2	0	2	0	0	0	2	0	2	0	2	4	3	0	2	4	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:49509420C>T	uc002xvt.1	-	5	2176	c.1831G>A	c.(1831-1833)GCT>ACT	p.A611T	ADNP_uc002xvu.1_Missense_Mutation_p.A611T	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	611						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						GGCACTGCAGCTTGAGGTGAA	0.433													15	575					0	0	0.024245	0	0		T	49509420	T	T	49509420	3	4	107	1	0	0	0	0	1	0	0	0	323	797	28	2	1481	2	ADNP	20	49509420	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	9518938	49509420	13516100	570	64917											
BCAS1	8537	broad.mit.edu	37	chr20	52601953	52601953	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttgcatcctttggaattcTtgccagccccttgggtctcc	4	14	10	13	0	2	0	0	0	2	0	4	1	3	1	5	3	3	2	5	3	1	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:52601953T>C	uc002xws.2	-	7	1351	c.1013A>G	c.(1012-1014)AAG>AGG	p.K338R	BCAS1_uc010zza.1_Missense_Mutation_p.K96R|BCAS1_uc010zzb.1_Missense_Mutation_p.K286R|BCAS1_uc010gim.2_Missense_Mutation_p.K286R|BCAS1_uc002xwt.2_Missense_Mutation_p.K338R|BCAS1_uc010gil.1_Missense_Mutation_p.K338R	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	338						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			TTTGGAATTCTTGCCAGCCCC	0.517													5	450					0	0	0.014758	0	0		C	52601953	C	C	52601953	3	2	107	1	0	0	0	0	1	0	0	0	1351	1609	56	3	765	3	BCAS1	20	52601953	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3092533	52601953	10423567	571	64918											
MC3R	4159	broad.mit.edu	37	chr20	54824097	54824097	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctggccgtggtcaggaaCggcaacctgcactccccgat	8	7	11	15	3	1	0	1	0	0	0	3	2	3	1	5	4	3	2	5	4	2	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:54824097C>T	uc002xxb.2	+	1	310	c.198C>T	c.(196-198)AAC>AAT	p.N66N		NM_019888	NP_063941	P41968	MC3R_HUMAN	melanocortin 3 receptor	103	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|protein binding	p.N103N(1)		ovary(2)|breast(2)	4			Colorectal(105;0.202)			TGGTCAGGAACGGCAACCTGC	0.562													13	112					0	0	0.016723	0	0		T	54824097	T	T	54824097	2	4	107	1	0	0	0	0	0	0	0	1	9383	535	19	1		1	MC3R	20	54824097	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	2222144	54824097	8201423	572	64919											
CASS4	57091	broad.mit.edu	37	chr20	55012519	55012519	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcccactccaggccccgtTtatgagcagatgaggagttg	8	9	11	13	1	0	3	0	2	0	1	2	4	2	4	5	2	1	3	5	2	1	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:55012519T>G	uc002xxp.2	+	3	561	c.336T>G	c.(334-336)GTT>GTG	p.V112V	CASS4_uc002xxq.3_Silent_p.V112V|CASS4_uc002xxr.2_Silent_p.V112V|CASS4_uc010zze.1_Intron|CASS4_uc010gio.2_Silent_p.V112V	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	112					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						CAGGCCCCGTTTATGAGCAGA	0.617													6	196					0	0	0.021553	0	0		G	55012519	G	G	55012519	2	3	107	1	0	0	0	0	0	0	0	1	2686	1828	64	5		5	CASS4	20	55012519	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	188422	55012519	8013001	573	64920											
CDH26	60437	broad.mit.edu	37	chr20	58559774	58559774	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcctttacttcctcattTctcaaacaccattactgaaa	13	14	2	12	0	2	1	2	1	1	0	5	1	4	1	3	0	3	0	3	0	5	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:58559774T>C	uc002ybe.2	+	6	922	c.622T>C	c.(622-624)TCT>CCT	p.S208P	CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	208	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			CTTCCTCATTTCTCAAACACC	0.373													33	257					0	0	0.010818	0	0		C	58559774	C	C	58559774	3	2	107	1	0	0	0	0	1	0	0	0	3113	1783	62	3	644	3	CDH26	20	58559774	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3547255	58559774	4465746	574	64921											
CDH26	60437	broad.mit.edu	37	chr20	58559811	58559811	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagaaagtggtttccgggTtgatcgccttagtggagaaa	12	10	14	5	2	0	3	0	1	0	2	2	5	1	3	2	3	0	2	2	3	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:58559811T>G	uc002ybe.2	+	6	959	c.659T>G	c.(658-660)GTT>GGT	p.V220G	CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	220	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			GGTTTCCGGGTTGATCGCCTT	0.378													37	261					0	0	0.023175	0	0		G	58559811	G	G	58559811	3	3	107	1	0	0	0	0	1	0	0	0	3113	1725	60	5	681	5	CDH26	20	58559811	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	37	58559811	4465709	575	64922											
TAF4	6874	broad.mit.edu	37	chr20	60587991	60587991	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgataggtgttccaggtgcCtgaaaaataagcagagtcac	14	9	11	7	0	1	3	1	2	0	1	2	3	2	3	2	2	2	2	2	2	4	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:60587991C>T	uc002ybs.2	-	3	1522	c.1522_splice	c.e3-1	p.A508_splice		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4						interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			TTCCAGGTGCCTGAAAAATAA	0.478													40	120					0	0	0.007835	0	0		T	60587991	T	T	60587991	5	4	107	1	0	0	0	0	0	0	1	0	15551	695	24	4	1788	4	TAF4	20	60587991	Splice_Site	SNP	C	TCGA-CD-5801-01A-11D-1600-08	2028180	60587991	2437529	576	64923											
TCFL5	10732	broad.mit.edu	37	chr20	61485451	61485451	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttgtggccttgtcagtctCggcattgcagaacggcacta	8	11	12	10	2	2	1	1	0	1	1	3	1	2	1	1	3	2	4	1	3	2	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:61485451C>T	uc002ydp.2	-	5	1390	c.1297G>A	c.(1297-1299)GAG>AAG	p.E433K	TCFL5_uc002ydo.2_Missense_Mutation_p.E206K|TCFL5_uc002ydq.2_Missense_Mutation_p.E432K	NM_006602	NP_006593	Q9UL49	TCFL5_HUMAN	transcription factor-like 5 protein	433	Helix-loop-helix motif.				cell differentiation|multicellular organismal development|regulation of cell differentiation|regulation of cell proliferation|spermatogenesis|transcription from RNA polymerase II promoter		DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)	1	Breast(26;5.68e-08)					TTGTCAGTCTCGGCATTGCAG	0.488													14	141					0	0	0.016723	0	0		T	61485451	T	T	61485451	3	4	107	1	0	0	0	0	1	0	0	0	15724	893	31	1	213	1	TCFL5	20	61485451	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	897460	61485451	1540069	577	64924											
DIDO1	11083	broad.mit.edu	37	chr20	61513128	61513128	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgagtgtcgaaggccctctCcgggtcgtactcctcctcag	5	10	11	15	3	2	1	1	1	1	0	7	2	4	1	4	2	1	1	4	2	2	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:61513128C>T	uc002ydr.1	-	16	4444	c.4180G>A	c.(4180-4182)GAG>AAG	p.E1394K	DIDO1_uc002yds.1_Missense_Mutation_p.E1394K	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1394					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					AAGGCCCTCTCCGGGTCGTAC	0.602													23	160					0	0	0.012319	0	0		T	61513128	T	T	61513128	3	4	107	1	0	0	0	0	1	0	0	0	4528	864	30	4	2546	4	DIDO1	20	61513128	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	27677	61513128	1512392	578	64925											
YTHDF1	54915	broad.mit.edu	37	chr20	61834292	61834292	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccaaacgccgcgtttcTgttgcgtggggcaacccagc	6	8	12	15	4	1	0	0	0	1	0	1	0	1	0	3	2	5	3	3	2	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr20:61834292T>C	uc002yeh.2	-	4	1294	c.1000A>G	c.(1000-1002)AGA>GGA	p.R334G	YTHDF1_uc011aaq.1_Missense_Mutation_p.R284G	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	334										ovary(2)	2						GCCGCGTTTCTGTTGCGTGGG	0.647													4	86					0	0	0.009096	0	0		C	61834292	C	C	61834292	3	2	107	1	0	0	0	0	1	0	0	0	17524	1588	55	3	687	3	YTHDF1	20	61834292	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	321164	61834292	1191228	579	64926											
GRIK1	2897	broad.mit.edu	37	chr21	31027143	31027143	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacttaccagggttgtgaaaAagtagtgatagtactcggtc	12	11	11	7	1	0	2	0	2	0	0	2	2	0	2	1	2	2	3	1	2	6	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr21:31027143A>C	uc002yno.1	-	5	1231	c.767T>G	c.(766-768)TTT>TGT	p.F256C	GRIK1_uc002ynn.2_Missense_Mutation_p.F256C|GRIK1_uc011acs.1_Missense_Mutation_p.F256C|GRIK1_uc011act.1_Missense_Mutation_p.F200C|GRIK1_uc010glq.1_Missense_Mutation_p.F114C|GRIK1_uc002ynr.2_Missense_Mutation_p.F256C	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	256	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	GGTTGTGAAAAAGTAGTGATA	0.408													33	319					0	0	0.013726	0	0		C	31027143	C	C	31027143	3	2	107	1	0	0	0	0	1	0	0	0	6789	14	1	5	2201	5	GRIK1	21	31027143	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08		31027143	17102752	580	64927											
ERG	2078	broad.mit.edu	37	chr21	39795341	39795341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacctgacctgctggcaCgataactctgcgctcgttcg	6	9	12	14	4	1	1	0	1	1	0	3	2	1	1	2	2	3	5	2	2	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr21:39795341C>T	uc010gnw.2	-	5	695	c.400G>A	c.(400-402)GTG>ATG	p.V134M	ERG_uc002yxa.2_Missense_Mutation_p.V127M|ERG_uc011aek.1_Missense_Mutation_p.V35M|ERG_uc010gnv.2_Missense_Mutation_p.V35M|ERG_uc010gnx.2_Missense_Mutation_p.V134M|ERG_uc011ael.1_Missense_Mutation_p.V134M|ERG_uc002yxb.2_Missense_Mutation_p.V134M|ERG_uc011aem.1_Missense_Mutation_p.V127M|ERG_uc002yxc.3_Missense_Mutation_p.V134M	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	134	PNT.				cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				CCTGCTGGCACGATAACTCTG	0.612													6	53					0	0	0.021553	0	0		T	39795341	T	T	39795341	3	4	107	1	0	0	0	0	1	0	0	0	5230	536	19	1	1092	1	ERG	21	39795341	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	8768198	39795341	8334554	581	64928											
BACE2	25825	broad.mit.edu	37	chr21	42647325	42647325	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgctgcagtgtctgaaaTttccgggcctttctcaacag	8	12	11	10	1	2	1	1	1	2	0	4	1	3	1	2	2	3	2	2	2	2	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr21:42647325T>G	uc002yyw.2	+	9	1794	c.1331T>G	c.(1330-1332)ATT>AGT	p.I444S	BACE2_uc002yyx.2_Missense_Mutation_p.I394S|BACE2_uc002yyy.2_Missense_Mutation_p.F388V|BACE2_uc010goo.2_RNA	NM_012105	NP_036237	Q9Y5Z0	BACE2_HUMAN	beta-site APP-cleaving enzyme 2 isoform A	444	Extracellular (Potential).				membrane protein ectodomain proteolysis|negative regulation of amyloid precursor protein biosynthetic process|peptide hormone processing	cell surface|endoplasmic reticulum|endosome|Golgi apparatus|integral to membrane	aspartic-type endopeptidase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0251)				GTGTCTGAAATTTCCGGGCCT	0.512													24	132					0	0	0.00632	0	0		G	42647325	G	G	42647325	3	3	107	1	0	0	0	0	1	0	0	0	1283	1493	52	5	1365	5	BACE2	21	42647325	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	2851984	42647325	5482570	582	64929											
COL6A2	1292	broad.mit.edu	37	chr21	47546039	47546039	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgagaagcacgagagtgaAaacctctactccatcgcctg	13	6	9	13	3	1	3	0	1	1	2	3	5	2	3	3	0	3	1	3	0	4	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr21:47546039A>C	uc002zia.1	+	26	2392	c.2310A>C	c.(2308-2310)GAA>GAC	p.E770D	COL6A2_uc002zhy.1_Missense_Mutation_p.E770D|COL6A2_uc002zhz.1_Missense_Mutation_p.E770D|COL6A2_uc002zib.1_Missense_Mutation_p.E176D|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	770	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		ACGAGAGTGAAAACCTCTACT	0.597													8	269					0	0	0.00308	0	0		C	47546039	C	C	47546039	3	2	107	1	0	0	0	0	1	0	0	0	3703	11	1	5	2408	5	COL6A2	21	47546039	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	4898714	47546039	583856	583	64930											
MYO18B	84700	broad.mit.edu	37	chr22	26423450	26423450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcccaaggaggatcccgctCacctgtctgactcgtcctca	8	8	9	16	2	3	1	2	1	1	0	6	3	5	3	4	2	1	1	4	2	1	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr22:26423450C>T	uc003abz.1	+	43	7760	c.7510C>T	c.(7510-7512)CAC>TAC	p.H2504Y	MYO18B_uc003aca.1_Missense_Mutation_p.H2385Y|MYO18B_uc010guy.1_Missense_Mutation_p.H2386Y|MYO18B_uc010guz.1_Missense_Mutation_p.H2384Y|MYO18B_uc011aka.1_Missense_Mutation_p.H1658Y|MYO18B_uc011akb.1_Missense_Mutation_p.H2017Y|MYO18B_uc010gva.1_Missense_Mutation_p.H487Y|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2504						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GGATCCCGCTCACCTGTCTGA	0.542													4	49					0	0	0.014758	0	0		T	26423450	T	T	26423450	3	4	107	1	0	0	0	0	1	0	0	0	10084	826	29	4	7676	4	MYO18B	22	26423450	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08		26423450	24881116	584	64931											
TRIOBP	11078	broad.mit.edu	37	chr22	38120199	38120199	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcccaatagagctgcaCgagacaaccccacaacatcc	13	5	5	18	1	1	2	0	0	1	2	3	3	2	2	5	0	4	2	5	0	4	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr22:38120199C>T	uc003atr.2	+	7	1907	c.1636C>T	c.(1636-1638)CGA>TGA	p.R546*	TRIOBP_uc003atu.2_Nonsense_Mutation_p.R374*|TRIOBP_uc003atq.1_Nonsense_Mutation_p.R546*|TRIOBP_uc003ats.1_Nonsense_Mutation_p.R374*	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	546					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					TAGAGCTGCACGAGACAACCC	0.587													17	213					0	0	0.006122	0	0		T	38120199	T	T	38120199	4	4	107	1	0	0	0	0	0	1	0	0	16579	528	19	1	1654	1	TRIOBP	22	38120199	Nonsense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	11696749	38120199	13184367	585	64932											
XRCC6	2547	broad.mit.edu	37	chr22	42054327	42054327	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttggccttggatttgaTggagccggaacaagcagtgg	8	9	16	8	1	0	1	0	1	0	0	0	4	0	4	3	6	3	1	3	6	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr22:42054327T>G	uc003bao.1	+	11	1563	c.1493T>G	c.(1492-1494)ATG>AGG	p.M498R	XRCC6_uc003bap.1_Missense_Mutation_p.M457R|XRCC6_uc011apc.1_Missense_Mutation_p.M448R|XRCC6_uc003baq.1_Missense_Mutation_p.M498R|XRCC6_uc003bar.1_Missense_Mutation_p.M498R|XRCC6_uc003bas.1_Missense_Mutation_p.M448R	NM_001469	NP_001460	P12956	XRCC6_HUMAN	ATP-dependent DNA helicase II, 70 kDa subunit	498					DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5						TTGGATTTGATGGAGCCGGAA	0.468								Direct_reversal_of_damage|NHEJ					27	80					0	0	0.024334	0	0		G	42054327	G	G	42054327	3	3	107	1	0	0	0	0	1	0	0	0	17483	1464	51	5	1531	5	XRCC6	22	42054327	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3934128	42054327	9250239	586	64933											
LMF2	91289	broad.mit.edu	37	chr22	50941834	50941834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacagctacttctttcgccGggtggtcctcgaactactgg	7	11	10	13	3	1	0	0	0	1	0	4	1	2	0	2	3	4	1	2	3	3	4	rs144527949		TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chr22:50941834G>A	uc003blp.2	-	14	2141	c.2110C>T	c.(2110-2112)CGG>TGG	p.R704W	LMF2_uc010hba.2_Missense_Mutation_p.R526W|LMF2_uc003blo.2_Missense_Mutation_p.R679W	NM_033200	NP_149977	Q9BU23	LMF2_HUMAN	lipase maturation factor 2	704						endoplasmic reticulum membrane|integral to membrane				breast(1)	1		all_cancers(38;1.31e-09)|all_epithelial(38;1.81e-08)|all_lung(38;0.000817)|Breast(42;0.00387)|Lung NSC(38;0.0124)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TTCTTTCGCCGGGTGGTCCTC	0.672													3	37					0	0	0.004672	0	0		A	50941834	A	A	50941834	3	1	107	1	0	0	0	0	1	0	0	0	8863	1115	39	1	17	1	LMF2	22	50941834	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	8887507	50941834	362732	587	64934											
MSL3	10943	broad.mit.edu	37	chrX	11779011	11779011	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcctggtgtggactctgtcTtaaaaggcctccccactgaa	8	11	10	12	0	2	1	0	1	2	0	3	2	3	2	4	3	1	0	4	3	3	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:11779011T>A	uc004cuw.2	+	4	442	c.337T>A	c.(337-339)TTA>ATA	p.L113I	MSL3_uc004cuv.1_Missense_Mutation_p.L113I|MSL3_uc004cux.2_Missense_Mutation_p.L54I|MSL3_uc011mig.1_5'UTR|MSL3_uc011mih.1_Missense_Mutation_p.L101I|MSL3_uc004cuy.2_5'UTR|MSL3_uc011mii.1_5'UTR	NM_078629	NP_523353	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	113					histone H4-K16 acetylation|multicellular organismal development|transcription from RNA polymerase II promoter	MSL complex	DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGACTCTGTCTTAAAAGGCCT	0.418													3	12					0	0	0.009096	0	0		A	11779011	A	A	11779011	3	1	107	1	0	0	0	0	1	0	0	0	9897	1606	56	5	351	5	MSL3	23	11779011	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08		11779011	143491549	588	64935											
KLHL15	80311	broad.mit.edu	37	chrX	24006435	24006435	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcatctcgcgtaattcatcTtgctcttattctcccaacag	9	14	5	13	2	5	0	1	0	4	0	7	0	5	0	1	0	3	3	1	0	3	5			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:24006435T>G	uc004dba.3	-	4	1674	c.1418A>C	c.(1417-1419)AAG>ACG	p.K473T		NM_030624	NP_085127	Q96M94	KLH15_HUMAN	kelch-like 15	473	Kelch 3.									ovary(1)|breast(1)	2						GTAATTCATCTTGCTCTTATT	0.458													44	147					0	0	0.013114	0	0		G	24006435	G	G	24006435	3	3	107	1	0	0	0	0	1	0	0	0	8387	1609	56	5	400	5	KLHL15	23	24006435	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	12227424	24006435	131264125	589	64936											
ZFX	7543	broad.mit.edu	37	chrX	24226360	24226360	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgaaatcgctgacgaagtTtatatggaagtgatcgtagg	12	11	13	5	3	0	3	0	3	0	0	2	5	0	4	0	2	0	4	0	2	6	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:24226360T>G	uc004dbf.2	+	7	1224	c.966T>G	c.(964-966)GTT>GTG	p.V322V	ZFX_uc004dbd.1_Silent_p.V322V|ZFX_uc010nfx.1_Silent_p.V93V|ZFX_uc004dbe.2_Silent_p.V322V|ZFX_uc011mjv.1_Silent_p.V361V|ZFX_uc010nfy.1_Intron|ZFX_uc010nfz.2_Silent_p.V25V	NM_003410	NP_003401	P17010	ZFX_HUMAN	zinc finger protein, X-linked	322					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(2)	2						CTGACGAAGTTTATATGGAAG	0.443													4	69					0	0	0.014758	0	0		G	24226360	G	G	24226360	2	3	107	1	0	0	0	0	0	0	0	1	17686	1828	64	5		5	ZFX	23	24226360	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	219925	24226360	131044200	590	64937											
IL1RAPL1	11141	broad.mit.edu	37	chrX	29301159	29301159	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttatggttatatcagaacaAattactcccttgcccaaagt	13	14	5	9	0	1	1	1	0	0	1	2	1	2	1	2	1	3	1	2	1	7	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:29301159A>C	uc004dby.2	+	3	695	c.187A>C	c.(187-189)AAT>CAT	p.N63H		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	63	Ig-like C2-type 1.|Extracellular (Potential).				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						TATCAGAACAAATTACTCCCT	0.418													22	81					0	0	0.014323	0	0		C	29301159	C	C	29301159	3	2	107	1	0	0	0	0	1	0	0	0	7677	14	1	5	193	5	IL1RAPL1	23	29301159	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	5074799	29301159	125969401	591	64938											
KDM6A	7403	broad.mit.edu	37	chrX	44928861	44928861	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttcacattcggcaggtcCtaatggtgaacgacctctct	9	11	10	11	2	2	1	1	1	1	0	5	3	3	1	2	3	1	2	2	3	2	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:44928861C>G	uc004dge.3	+	17	2336	c.1961C>G	c.(1960-1962)CCT>CGT	p.P654R	KDM6A_uc010nhk.2_Missense_Mutation_p.P620R|KDM6A_uc011mkz.1_Missense_Mutation_p.P706R|KDM6A_uc011mla.1_Missense_Mutation_p.P609R|KDM6A_uc011mlb.1_Missense_Mutation_p.P661R|KDM6A_uc011mlc.1_Missense_Mutation_p.P358R|KDM6A_uc011mld.1_Missense_Mutation_p.P293R	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	654					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						TCGGCAGGTCCTAATGGTGAA	0.443			D|N|F|S		renal|oesophageal SCC|MM								8	18					0	0	0.013537	0	0		G	44928861	G	G	44928861	3	3	107	1	0	0	0	0	1	0	0	0	8153	681	24	5	2027	5	KDM6A	23	44928861	Missense_Mutation	SNP	C	TCGA-CD-5801-01A-11D-1600-08	15627702	44928861	110341699	592	64939											
FGD1	2245	broad.mit.edu	37	chrX	54472631	54472632	+	Frame_Shift_Ins	INS	-	G	G																															tcctccatctccctgtcctcINSagacagtgtgggccccgggc																										TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:54472631_54472632insG	uc004dtg.2	-	18	3530_3531	c.2796_2797insC	c.(2794-2799)TCTGAGfs	p.S932fs		NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	932_933					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						TCCCTGTCCTCAGACAGTGTGG	0.644													10	23	---	---	---	---						.	G	54472632	G	G	54472631	7	5	107	1	0	1	1	0	0	0	0	0	5846	835	29	0	92	0	FGD1	23	54472631	Frame_Shift_Ins	INS	-	TCGA-CD-5801-01A-11D-1600-08	9543770	54472631	100797929	593	64940											
ITIH5L	347365	broad.mit.edu	37	chrX	54785174	54785174	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgccgggctattccccggtTttccagggacaggcggcgca	5	7	15	14	5	0	0	0	0	0	0	2	1	2	1	4	5	0	3	4	5	1	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:54785174T>C	uc004dtj.2	-	8	1363	c.1333A>G	c.(1333-1335)AAC>GAC	p.N445D		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	445	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						ATTCCCCGGTTTTCCAGGGAC	0.582													3	19					0	0	0.004672	0	0		C	54785174	C	C	54785174	3	2	107	1	0	0	0	0	1	0	0	0	7924	1841	64	3	2632	3	ITIH5L	23	54785174	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	312543	54785174	100485386	594	64941											
TRO	7216	broad.mit.edu	37	chrX	54955296	54955296	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgaggccagagcccaagaAaatgcagatgccagcaccaa	16	4	10	11	0	0	4	0	1	0	3	0	4	0	4	4	1	4	2	4	1	4	1			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:54955296A>C	uc004dtq.2	+	12	2246	c.2139A>C	c.(2137-2139)GAA>GAC	p.E713D	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Missense_Mutation_p.E244D|TRO_uc004dtw.2_Missense_Mutation_p.E316D|TRO_uc004dtx.2_Missense_Mutation_p.E96D	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	713					embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GAGCCCAAGAAAATGCAGATG	0.493													6	16					0	0	0.021553	0	0		C	54955296	C	C	54955296	3	2	107	1	0	0	0	0	1	0	0	0	16600	11	1	5	2181	5	TRO	23	54955296	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	170122	54955296	100315264	595	64942											
ZC4H2	55906	broad.mit.edu	37	chrX	64140008	64140008	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaagtcagggagcctctgCaggcccagagtcatgcgcag	10	5	13	13	1	3	1	2	0	1	1	3	2	3	2	2	2	3	2	2	2	1	0			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:64140008C>T	uc004dvu.2	-	3	439	c.351G>A	c.(349-351)CTG>CTA	p.L117L	ZC4H2_uc004dvv.2_Silent_p.L94L|ZC4H2_uc011mov.1_Silent_p.L94L|ZC4H2_uc011mow.1_Silent_p.L117L|ZC4H2_uc004dvw.1_Silent_p.L117L	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	117							metal ion binding|protein binding			ovary(1)	1						GGAGCCTCTGCAGGCCCAGAG	0.522													15	56					0	0	0.020292	0	0		T	64140008	T	T	64140008	2	4	107	1	0	0	0	0	0	0	0	1	17603	697	25	2		2	ZC4H2	23	64140008	Silent	SNP	C	TCGA-CD-5801-01A-11D-1600-08	9184712	64140008	91130552	596	64943											
RLIM	51132	broad.mit.edu	37	chrX	73812787	73812787	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccgactcactgctctccaAgattggtttcctctttgccc	5	14	7	15	1	3	1	1	0	2	1	6	2	5	1	4	1	2	2	4	1	1	3			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:73812787A>G	uc004ebu.2	-	5	653	c.363T>C	c.(361-363)TCT>TCC	p.S121S	RLIM_uc004ebw.2_Silent_p.S121S	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	121					random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CTGCTCTCCAAGATTGGTTTC	0.393													17	195					0	0	0.007413	0	0		G	73812787	G	G	73812787	2	3	107	1	0	0	0	0	0	0	0	1	13415	59	3	3		3	RLIM	23	73812787	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	9672779	73812787	81457773	597	64944											
KLHL4	56062	broad.mit.edu	37	chrX	86773290	86773290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagatttggagatgatggctGatgacaatatagaagattct	15	12	11	3	0	1	7	0	3	1	4	1	8	1	7	0	2	0	1	0	2	5	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:86773290G>A	uc004efb.2	+	1	576	c.394G>A	c.(394-396)GAT>AAT	p.D132N	KLHL4_uc004efa.2_Missense_Mutation_p.D132N	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	132						cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GATGATGGCTGATGACAATAT	0.363													11	73					0	0	0.024245	0	0		A	86773290	A	A	86773290	3	1	107	1	0	0	0	0	1	0	0	0	8407	1290	45	4	396	4	KLHL4	23	86773290	Missense_Mutation	SNP	G	TCGA-CD-5801-01A-11D-1600-08	12960503	86773290	68497270	598	64945											
TCEAL5	340543	broad.mit.edu	37	chrX	102529262	102529262	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgtcctcaccttcagacTtgccctgcttttcctggttt	3	17	7	14	0	2	1	2	0	0	1	4	1	4	1	4	1	2	3	4	1	0	6			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:102529262T>G	uc004ejz.1	-	3	525	c.230A>C	c.(229-231)AAG>ACG	p.K77T		NM_001012979	NP_001012997	Q5H9L2	TCAL5_HUMAN	transcription elongation factor A (SII)-like 5	77	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(1)|breast(1)	2						ACCTTCAGACTTGCCCTGCTT	0.418													3	98					0	0	0.004672	0	0		G	102529262	G	G	102529262	3	3	107	1	0	0	0	0	1	0	0	0	15699	1609	56	5	394	5	TCEAL5	23	102529262	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	15755972	102529262	52741298	599	64946											
CXorf57	55086	broad.mit.edu	37	chrX	105855681	105855681	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtatatcaaaatattcttaAagttggcattcaaatgagaa	17	13	6	5	1	3	1	2	1	1	1	3	2	3	1	0	1	0	3	0	1	9	7			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:105855681A>G	uc004emi.3	+	1	522	c.371A>G	c.(370-372)AAA>AGA	p.K124R	CXorf57_uc004emj.3_Missense_Mutation_p.K124R|CXorf57_uc004emh.2_Missense_Mutation_p.K124R	NM_018015	NP_060485	Q6NSI4	CX057_HUMAN	hypothetical protein LOC55086	124										ovary(1)|lung(1)|breast(1)	3						AATATTCTTAAAGTTGGCATT	0.453													8	213					0	0	0.00308	0	0		G	105855681	G	G	105855681	3	3	107	1	0	0	0	0	1	0	0	0	4116	14	1	3	373	3	CXorf57	23	105855681	Missense_Mutation	SNP	A	TCGA-CD-5801-01A-11D-1600-08	3326419	105855681	49414879	600	64947											
KIAA1210	57481	broad.mit.edu	37	chrX	118221482	118221482	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccctgaatctgagaaaacTtggtgcttgacttcaggctt	9	13	9	10	0	2	3	1	3	1	1	3	4	3	3	1	2	2	2	1	2	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:118221482T>C	uc004era.3	-	11	3711	c.3711A>G	c.(3709-3711)CAA>CAG	p.Q1237Q		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1237										ovary(4)|skin(1)	5						CTGAGAAAACTTGGTGCTTGA	0.478													7	28					0	0	0.00308	0	0		C	118221482	C	C	118221482	2	2	107	1	0	0	0	0	0	0	0	1	8230	1606	56	3		3	KIAA1210	23	118221482	Silent	SNP	T	TCGA-CD-5801-01A-11D-1600-08	12365801	118221482	37049078	601	64948											
THOC2	57187	broad.mit.edu	37	chrX	122830587	122830587	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacaagagttttgtcttgaTtttaactgacttttgattga	10	20	7	4	0	1	5	0	4	1	1	1	5	1	5	0	0	2	1	0	0	3	9			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:122830587T>G	uc004etu.2	-	6	483	c.451A>C	c.(451-453)ATC>CTC	p.I151L	THOC2_uc011muh.1_Missense_Mutation_p.I72L|THOC2_uc011mui.1_Missense_Mutation_p.I36L	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	151					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TTTGTCTTGATTTTAACTGAC	0.358													12	98					0	0	0.010729	0	0		G	122830587	G	G	122830587	3	3	107	1	0	0	0	0	1	0	0	0	15890	1493	52	5	4462	5	THOC2	23	122830587	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	4609105	122830587	32439973	602	64949											
USP26	83844	broad.mit.edu	37	chrX	132162027	132162027	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagccattattattttgtaaAgttaaatgcaggtgattttg	13	17	8	3	0	0	1	0	1	0	0	0	1	0	1	1	1	2	3	1	1	7	8			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:132162027A>C	uc010nrm.1	-	6	692	c.222T>G	c.(220-222)ACT>ACG	p.T74T	USP26_uc011mvf.1_Silent_p.T74T	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	74					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					TATTTTGTAAAGTTAAATGCA	0.328													19	71					0	0	0.012319	0	0		C	132162027	C	C	132162027	2	2	107	1	0	0	0	0	0	0	0	1	17083	59	3	5		5	USP26	23	132162027	Silent	SNP	A	TCGA-CD-5801-01A-11D-1600-08	9331440	132162027	23108533	603	64950											
ARHGEF6	9459	broad.mit.edu	37	chrX	135862980	135862980	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccggatcacagatggtctttTtaggggactctaaaactccc	10	11	9	11	1	3	1	1	0	2	1	4	3	4	3	2	4	1	0	2	4	3	4			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:135862980T>G	uc004fab.2	-	1	524	c.62A>C	c.(61-63)AAA>ACA	p.K21T		NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	21	CH.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					GATGGTCTTTTTAGGGGACTC	0.458													17	155					0	0	0.00499	0	0		G	135862980	G	G	135862980	3	3	107	1	0	0	0	0	1	0	0	0	910	1841	64	5	2356	5	ARHGEF6	23	135862980	Missense_Mutation	SNP	T	TCGA-CD-5801-01A-11D-1600-08	3700953	135862980	19407580	604	64951											
SPANXN2	494119	broad.mit.edu	37	chrX	142795330	142795330	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaagatccttcagatgaGtccaggtcttcgtcctcctg	7	13	10	11	1	2	4	1	2	1	2	7	4	6	4	4	1	0	0	4	1	1	2			TCGA-CD-5801-01A-11D-1600-08	TCGA-CD-5801-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6097aab1-54ce-4157-85fd-3543fe555da7	797549d4-068f-4f51-9d73-4f187492e0bf	g.chrX:142795330G>A	uc004fbz.2	-	2	1102	c.348C>T	c.(346-348)GAC>GAT	p.D116D		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	116										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CTTCAGATGAGTCCAGGTCTT	0.522													13	408					0	0	0.024334	0	0		A	142795330	A	A	142795330	2	1	107	1	0	0	0	0	0	0	0	1	15016	1020	36	4		4	SPANXN2	23	142795330	Silent	SNP	G	TCGA-CD-5801-01A-11D-1600-08	6932350	142795330	12475230	605	64952											
NEXN	91624	broad.mit.edu	37	chr1	78395101	78395101	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agaaatggaaaggcaaagaaGagaagatgaaaaaaggaaag	25	2	13	1	0	0	5	0	1	0	4	0	8	0	7	0	3	0	1	0	3	9	0			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr1:78395101G>C	uc001dic.3	+	9	1262	c.965G>C	c.(964-966)AGA>ACA	p.R322T	NEXN_uc001dia.3_Missense_Mutation_p.R308T|NEXN_uc009wcb.1_Missense_Mutation_p.R244T|NEXN_uc001dib.3_Missense_Mutation_p.R258T|NEXN_uc001did.1_Missense_Mutation_p.R232T|NEXN_uc001dif.1_Missense_Mutation_p.R214T	NM_144573	NP_653174	Q0ZGT2	NEXN_HUMAN	nexilin (F actin binding protein)	322	Glu-rich.				regulation of cell migration|regulation of cytoskeleton organization	cytoskeleton|Z disc	actin filament binding|structural constituent of muscle			ovary(2)	2				Colorectal(170;0.114)		aggcaaagaagagaagatgaa	0.229													29	69					0	0	0.005443	0	0		C	78395101	C	C	78395101	3	2	108	1	0	0	0	0	1	0	0	0	10374	942	33	5	995	5	NEXN	1	78395101	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08		78395101	170855520	1	64953											
COL24A1	255631	broad.mit.edu	37	chr1	86591541	86591541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaatgagtgccattgctcatCatgaacactgtagttgaaaa	15	11	8	7	0	2	3	2	3	0	0	2	3	2	3	1	0	3	3	1	0	5	3			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr1:86591541C>T	uc001dlj.2	-	3	520	c.478G>A	c.(478-480)GAT>AAT	p.D160N	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.D160N	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	160	TSP N-terminal.|Laminin G-like.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		CATTGCTCATCATGAACACTG	0.343													6	91					0	0	0.001168	0	0		T	86591541	T	T	86591541	3	4	108	1	0	0	0	0	1	0	0	0	3686	826	29	4	4898	4	COL24A1	1	86591541	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08	8196440	86591541	162659080	2	64954											
BPNT1	10380	broad.mit.edu	37	chr1	220242771	220242771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggatcaacccagaccaCgagctaaaattaaaaagaga	20	4	8	9	1	1	3	1	0	0	3	1	6	1	4	2	1	2	1	2	1	6	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr1:220242771C>T	uc001hma.2	-	5	509	c.337G>A	c.(337-339)GTG>ATG	p.V113M	BPNT1_uc010pug.1_Missense_Mutation_p.V58M|BPNT1_uc010puh.1_Missense_Mutation_p.V77M|BPNT1_uc001hmb.3_Missense_Mutation_p.V113M	NM_006085	NP_006076	O95861	BPNT1_HUMAN	3'(2'), 5'-bisphosphate nucleotidase 1	113					3'-phosphoadenosine 5'-phosphosulfate metabolic process|nervous system development|xenobiotic metabolic process	cytosol	3'(2'),5'-bisphosphate nucleotidase activity			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0558)		ACCCAGACCACGAGCTAAAAT	0.313													27	95					0	0	0.004656	0	0		T	220242771	T	T	220242771	3	4	108	1	0	0	0	0	1	0	0	0	1497	536	19	1	609	1	BPNT1	1	220242771	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08	133651230	220242771	29007850	3	64955											
KCNF1	3754	broad.mit.edu	37	chr2	11053370	11053370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacgtgagcctcacgctcaCgcacctgggtgcccgcatga	7	7	11	16	4	2	2	2	2	0	0	2	2	2	2	3	1	3	3	3	1	1	1			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr2:11053370C>T	uc002rax.2	+	1	1308	c.818C>T	c.(817-819)ACG>ATG	p.T273M		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	273						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		CTCACGCTCACGCACCTGGGT	0.632													13	51					0	0	0.013537	0	0		T	11053370	T	T	11053370	3	4	108	1	0	0	0	0	1	0	0	0	8042	536	19	1	820	1	KCNF1	2	11053370	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08		11053370	232146003	4	64956											
GDF7	151449	broad.mit.edu	37	chr2	20871059	20871059	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactccatggcaccagacgcGgcgccggcctcctgctgtgt	6	7	12	16	4	0	1	0	0	0	1	2	1	2	1	5	3	2	2	5	3	1	0			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr2:20871059G>A	uc002rdz.1	+	2	1803	c.1227G>A	c.(1225-1227)GCG>GCA	p.A409A		NM_182828	NP_878248	Q7Z4P5	GDF7_HUMAN	growth differentiation factor 7 preproprotein	409					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CACCAGACGCGGCGCCGGCCT	0.612													6	20					0	0	0.001984	0	0		A	20871059	A	A	20871059	2	1	108	1	0	0	0	0	0	0	0	1	6333	1103	39	1		1	GDF7	2	20871059	Silent	SNP	G	TCGA-CD-5802-01A-11D-1600-08	9817689	20871059	222328314	5	64957											
TCF23	150921	broad.mit.edu	37	chr2	27373194	27373194	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctggccctgcctggccGcccttcctgcgtggactccg	1	10	12	18	3	0	0	0	0	0	0	2	1	2	1	7	3	3	0	7	3	0	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr2:27373194G>A	uc010ylg.1	+	2	426	c.426G>A	c.(424-426)CCG>CCA	p.P142P		NM_175769	NP_786951	Q7RTU1	TCF23_HUMAN	transcription factor 23	142					cell differentiation|muscle organ development|regulation of transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGCCTGGCCGCCCTTCCTGC	0.622													48	240					0	0	0.01441	0	0		A	27373194	A	A	27373194	2	1	108	1	0	0	0	0	0	0	0	1	15717	1074	38	1		1	TCF23	2	27373194	Silent	SNP	G	TCGA-CD-5802-01A-11D-1600-08	6502135	27373194	215826179	6	64958											
GPR39	2863	broad.mit.edu	37	chr2	133175294	133175294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtccagcatcttcggcGccttcgtggtctacctcgtg	4	12	10	15	4	2	0	0	0	2	0	7	0	4	0	4	2	2	1	4	2	1	3			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr2:133175294G>A	uc002ttl.2	+	1	1148	c.679G>A	c.(679-681)GCC>ACC	p.A227T		NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	227	Helical; Name=5; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						CATCTTCGGCGCCTTCGTGGT	0.612													12	54					0	0	0.008871	0	0		A	133175294	A	A	133175294	3	1	108	1	0	0	0	0	1	0	0	0	6708	1087	38	1	681	1	GPR39	2	133175294	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08	105802100	133175294	110024079	7	64959											
TNS1	7145	broad.mit.edu	37	chr2	218683433	218683433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaggctgggtgggcgtccGgggaccctggtcactgctct	4	8	17	12	2	2	1	1	0	1	1	3	2	3	2	2	6	1	2	2	6	0	0			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr2:218683433G>A	uc002vgt.2	-	24	3708	c.3310C>T	c.(3310-3312)CGG>TGG	p.R1104W	TNS1_uc002vgr.2_Missense_Mutation_p.R1091W|TNS1_uc002vgs.2_Missense_Mutation_p.R1083W|TNS1_uc010zjv.1_Missense_Mutation_p.R1083W	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1104	Ser-rich.					cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GTGGGCGTCCGGGGACCCTGG	0.612													10	39					0	0	0.006214	0	0		A	218683433	A	A	218683433	3	1	108	1	0	0	0	0	1	0	0	0	16368	1115	39	1	1937	1	TNS1	2	218683433	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08	85508139	218683433	24515940	8	64960											
KCNH8	131096	broad.mit.edu	37	chr3	19384207	19384207	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaattgaaaataaataacGtaggtggtatgtgtgtacag	17	11	10	3	1	0	1	0	1	0	0	0	1	0	1	0	2	2	3	0	2	9	6			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr3:19384207G>A	uc003cbk.1	+	4	765	c.570_splice	c.e4+1	p.N190_splice	KCNH8_uc011awe.1_Splice_Site_p.N190_splice|KCNH8_uc010hex.1_Splice_Site	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,							integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						AATAAATAACGTAGGTGGTAT	0.453													26	93					0	0	0.004656	0	0		A	19384207	A	A	19384207	5	1	108	1	0	0	0	0	0	0	1	0	8054	1159	40	1	585	1	KCNH8	3	19384207	Splice_Site	SNP	G	TCGA-CD-5802-01A-11D-1600-08		19384207	178638223	9	64961											
C3orf72	401089	broad.mit.edu	37	chr3	138669287	138669287	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gctgtcccctttcctagcggGaccccgaaacacccggcggc	6	6	11	18	4	0	0	0	0	0	0	2	2	2	1	6	3	2	1	6	3	2	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr3:138669287G>C	uc003esx.1	+	3	532	c.401G>C	c.(400-402)GGA>GCA	p.G134A	C3orf72_uc011bmr.1_3'UTR	NM_001040061	NP_001035150	Q6ZUU3	CC072_HUMAN	chromosome 3 open reading frame 72	134											0						TTCCTAGCGGGACCCCGAAAC	0.667													4	28					0	0	0.008291	0	0		C	138669287	C	C	138669287	3	2	108	1	0	0	0	0	1	0	0	0	2247	1174	41	5	411	5	C3orf72	3	138669287	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08	119285080	138669287	59353143	10	64962											
GHSR	2693	broad.mit.edu	37	chr3	172165669	172165669	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaccccgactagcacgaAgatgggcccggcgctgcaga	9	4	12	16	4	0	2	0	0	0	2	1	4	1	2	4	2	2	3	4	2	2	1			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr3:172165669A>T	uc003fib.1	-	1	535	c.535T>A	c.(535-537)TTC>ATC	p.F179I	GHSR_uc011bpv.1_Missense_Mutation_p.F179I	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	179	Helical; Name=4; (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			ACTAGCACGAAGATGGGCCCG	0.662													5	41					0	0	0.014758	0	0		T	172165669	T	T	172165669	3	4	108	1	0	0	0	0	1	0	0	0	6390	72	3	5	647	5	GHSR	3	172165669	Missense_Mutation	SNP	A	TCGA-CD-5802-01A-11D-1600-08	33496382	172165669	25856761	11	64963											
TBCCD1	55171	broad.mit.edu	37	chr3	186272346	186272346	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgaaaaggggcaaaagttActgtctggttcccagagaga	14	9	12	6	0	1	3	0	1	1	2	2	4	2	3	1	3	1	3	1	3	6	3			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr3:186272346A>G	uc003fqg.2	-	6	1370	c.1241T>C	c.(1240-1242)GTA>GCA	p.V414A	TBCCD1_uc011bry.1_Missense_Mutation_p.V414A|TBCCD1_uc003fqh.2_Missense_Mutation_p.V318A	NM_018138	NP_060608	Q9NVR7	TBCC1_HUMAN	TBCC domain containing 1	414	C-CAP/cofactor C-like.				cell morphogenesis|maintenance of centrosome location|maintenance of Golgi location|regulation of cell migration|regulation of cell shape	spindle pole centrosome	binding			large_intestine(1)|ovary(1)	2	all_cancers(143;3.75e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.3e-21)	GBM - Glioblastoma multiforme(93;0.0474)		GGCAAAAGTTACTGTCTGGTT	0.458													14	58					0	0	0.016723	0	0		G	186272346	G	G	186272346	3	3	108	1	0	0	0	0	1	0	0	0	15657	391	14	3	440	3	TBCCD1	3	186272346	Missense_Mutation	SNP	A	TCGA-CD-5802-01A-11D-1600-08	14106677	186272346	11750084	12	64964											
RFC4	5984	broad.mit.edu	37	chr3	186509621	186509621	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagtctccttctgacacttTaacaagataagctattccct	12	14	4	11	0	2	2	0	1	2	1	4	2	3	2	2	0	2	1	2	0	5	7			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr3:186509621T>C	uc003fqz.2	-	8	917	c.694A>G	c.(694-696)AAA>GAA	p.K232E	RFC4_uc011bsc.1_Missense_Mutation_p.K232E|RFC4_uc011bsd.1_Missense_Mutation_p.K232E	NM_002916	NP_002907	P35249	RFC4_HUMAN	replication factor C 4	232					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|phosphatidylinositol-mediated signaling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|large_intestine(1)	5	all_cancers(143;2.92e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)	GBM - Glioblastoma multiforme(93;0.0739)		TCTGACACTTTAACAAGATAA	0.323													10	172					0	0	0.006214	0	0		C	186509621	C	C	186509621	3	2	108	1	0	0	0	0	1	0	0	0	13272	1763	61	3	413	3	RFC4	3	186509621	Missense_Mutation	SNP	T	TCGA-CD-5802-01A-11D-1600-08	237275	186509621	11512809	13	64965											
MUC4	4585	broad.mit.edu	37	chr3	195505861	195505861	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggatgctgaggaagtgTcggtgacaggaagaggggtg	9	8	20	4	1	0	3	0	2	0	1	1	6	0	6	0	6	1	1	0	6	2	0			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr3:195505861T>C	uc011bto.1	-	3	12666	c.12206A>G	c.(12205-12207)GAC>GGC	p.D4069G	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_Intron|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Intron|MUC4_uc011bti.1_Intron|MUC4_uc011btj.1_Intron|MUC4_uc011btk.1_Intron|MUC4_uc011btl.1_Intron|MUC4_uc011btm.1_Intron|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TGAGGAAGTGTCGGTGACAGG	0.602													2	10					0	0	0.004672	0	0		C	195505861	C	C	195505861	3	2	108	1	0	0	0	0	1	0	0	0	9996	1667	58	3		3	MUC4	3	195505861	Missense_Mutation	SNP	T	TCGA-CD-5802-01A-11D-1600-08	8996240	195505861	2516569	14	64966											
C4orf50	389197	broad.mit.edu	37	chr4	5969171	5969171	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgtcatctcagacttgaCgtccaggtggtggcttgtct	5	13	12	11	2	3	2	2	1	2	1	5	2	4	2	2	3	1	1	2	3	0	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr4:5969171C>T	uc003git.1	-	5	517	c.427G>A	c.(427-429)GTC>ATC	p.V143I		NM_207405	NP_997288	Q6ZRC1	CD050_HUMAN	hypothetical protein LOC389197	143										pancreas(2)|breast(1)	3						TCAGACTTGACGTCCAGGTGG	0.512													22	54					0	0	0.021523	0	0		T	5969171	T	T	5969171	3	4	108	1	0	0	0	0	1	0	0	0	2279	536	19	1	415	1	C4orf50	4	5969171	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08		5969171	185185105	15	64967											
ASB5	140458	broad.mit.edu	37	chr4	177142387	177142387	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcccaaatgaggaatttCttggtcaacatctatgcccc	11	12	7	11	0	3	1	1	1	2	0	4	2	4	2	3	2	2	1	3	2	4	4			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr4:177142387C>A	uc003iuq.1	-	5	605	c.589G>T	c.(589-591)GAA>TAA	p.E197*	ASB5_uc003iup.1_Nonsense_Mutation_p.E144*	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	197					intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		TGAGGAATTTCTTGGTCAACA	0.418													9	91					4.68919e-08	5.0746e-08	0.008291	1	0		A	177142387	A	A	177142387	4	1	108	1	0	0	0	0	0	1	0	0	1027	922	32	5	412	5	ASB5	4	177142387	Nonsense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08	171173216	177142387	14011889	16	64968											
KIAA0947	23379	broad.mit.edu	37	chr5	5463022	5463022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggattatagttcaggggactCtgtttctgaatgttctagta	9	16	11	5	0	4	1	1	1	3	0	4	3	4	3	0	3	0	4	0	3	5	7			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr5:5463022C>T	uc003jdm.3	+	13	3797	c.3575C>T	c.(3574-3576)TCT>TTT	p.S1192F		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1192										ovary(1)|central_nervous_system(1)	2						TCAGGGGACTCTGTTTCTGAA	0.373													3	16					0	0	0.004672	0	0		T	5463022	T	T	5463022	3	4	108	1	0	0	0	0	1	0	0	0	8218	913	32	4	3625	4	KIAA0947	5	5463022	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08		5463022	175452238	17	64969											
ENC1	8507	broad.mit.edu	37	chr5	73931260	73931260	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atcttttgagaccccattttCagacccccgccccccagtaa	9	10	5	17	1	2	2	1	1	1	2	2	3	2	2	7	0	0	1	7	0	1	5	rs144525141		TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr5:73931260C>G	uc003kdc.3	-	2	2182	c.1051G>C	c.(1051-1053)GAA>CAA	p.E351Q	ENC1_uc011css.1_Missense_Mutation_p.E278Q	NM_003633	NP_003624	O14682	ENC1_HUMAN	ectodermal-neural cortex (with BTB-like domain)	351	Kelch 2.				nervous system development	cytoplasm|cytoskeleton|nuclear matrix	actin binding			ovary(1)|pancreas(1)|skin(1)	3		all_lung(232;0.0154)|Lung NSC(167;0.0331)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.45e-59)		ACCCCATTTTCAGACCCCCGC	0.532													11	113					0	0	0.020292	0	0		G	73931260	G	G	73931260	3	3	108	1	0	0	0	0	1	0	0	0	5121	835	29	5	722	5	ENC1	5	73931260	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08	68468238	73931260	106984000	18	64970											
F12	2161	broad.mit.edu	37	chr5	176832124	176832124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctggccacagctgcttgctCagttctataccatatctcat	8	14	6	13	0	4	0	2	0	3	0	5	0	4	0	2	1	4	4	2	1	3	5			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr5:176832124C>T	uc003mgo.3	-	6	509	c.460G>A	c.(460-462)GAG>AAG	p.E154K	F12_uc011dfy.1_5'Flank|F12_uc003mgn.3_5'Flank|F12_uc010jkl.2_RNA	NM_000505	NP_000496	P00748	FA12_HUMAN	coagulation factor XII precursor	154	Fibronectin type-I.				Factor XII activation|fibrinolysis|innate immune response|positive regulation of blood coagulation|positive regulation of fibrinolysis|positive regulation of plasminogen activation|protein autoprocessing|response to misfolded protein|zymogen activation	extracellular space|plasma membrane	serine-type endopeptidase activity				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCTGCTTGCTCAGTTCTATAC	0.562									Hereditary_Angioedema				22	79					0	0	0.010504	0	0		T	176832124	T	T	176832124	3	4	108	1	0	0	0	0	1	0	0	0	5347	835	29	4	1423	4	F12	5	176832124	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08	102900864	176832124	4083136	19	64971											
HIST1H1E	3008	broad.mit.edu	37	chr6	26156976	26156976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggggaagccaagcctaagGctaaaaaggcaggcgcggcc	12	3	15	11	2	0	0	0	0	0	0	0	1	0	1	3	6	2	2	3	6	6	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr6:26156976G>A	uc003ngq.2	+	1	418	c.358G>A	c.(358-360)GCT>ACT	p.A120T	HIST1H2BD_uc003ngr.2_5'Flank|HIST1H2BD_uc003ngs.2_5'Flank	NM_005321	NP_005312	P10412	H14_HUMAN	histone cluster 1, H1e	120					nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			large_intestine(1)|ovary(1)	2						CAAGCCTAAGGCTAAAAAGGC	0.642													7	10					0	0	0.004482	0	0		A	26156976	A	A	26156976	3	1	108	1	0	0	0	0	1	0	0	0	7142	1203	42	2	360	2	HIST1H1E	6	26156976	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08		26156976	144958091	20	64972											
ZNF187	7741	broad.mit.edu	37	chr6	28240525	28240525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtacaggaacagcaggttCggcatgagtgtgaagttaca	13	8	14	6	1	0	2	0	2	0	0	1	4	0	3	0	3	4	5	0	3	4	3			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr6:28240525C>T	uc011dld.1	+	4	766	c.496C>T	c.(496-498)CGG>TGG	p.R166W	ZNF187_uc011dlc.1_Missense_Mutation_p.R167W|ZNF187_uc003nku.3_Missense_Mutation_p.R32W|ZNF187_uc003nkw.3_Missense_Mutation_p.R13W|ZNF187_uc011dle.1_Missense_Mutation_p.R13W|ZNF187_uc011dlf.1_Intron|ZNF187_uc011dlg.1_Missense_Mutation_p.R13W	NM_001111039	NP_001104509	Q16670	ZN187_HUMAN	zinc finger protein 187 isoform b	166					viral reproduction	nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ACAGCAGGTTCGGCATGAGTG	0.478													4	14					0	0	0.014758	0	0		T	28240525	T	T	28240525	3	4	108	1	0	0	0	0	1	0	0	0	17778	875	31	1	504	1	ZNF187	6	28240525	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08	2083549	28240525	142874542	21	64973											
ZFP57	346171	broad.mit.edu	37	chr6	29643828	29643828	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgccacatcctcaaaggtGactggcttctggaagaacag	12	8	10	11	0	2	2	1	1	1	1	3	3	3	3	2	3	2	1	2	3	3	1			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr6:29643828G>A	uc011dlw.1	-	2	283	c.132C>T	c.(130-132)GTC>GTT	p.V44V	ZFP57_uc003nnl.3_Silent_p.V24V	NM_001109809	NP_001103279	Q9NU63	ZFP57_HUMAN	zinc finger protein 57 homolog	16	KRAB.				DNA methylation involved in embryo development|regulation of gene expression by genetic imprinting|transcription, DNA-dependent		DNA binding|zinc ion binding			ovary(3)|skin(2)	5						CCTCAAAGGTGACTGGCTTCT	0.378													59	176					0	0	0.01441	0	0		A	29643828	A	A	29643828	2	1	108	1	0	0	0	0	0	0	0	1	17676	1277	45	4		4	ZFP57	6	29643828	Silent	SNP	G	TCGA-CD-5802-01A-11D-1600-08	1403303	29643828	141471239	22	64974											
RING1	6015	broad.mit.edu	37	chr6	33177736	33177736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagaagctggtgtccaagcGatccctacggccagacccca	12	5	10	14	2	0	2	0	0	0	2	2	3	2	2	5	2	3	1	5	2	4	1			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr6:33177736G>A	uc003odk.2	+	4	478	c.284G>A	c.(283-285)CGA>CAA	p.R95Q	RING1_uc011dqx.1_Missense_Mutation_p.R95Q|RING1_uc003odl.2_Missense_Mutation_p.R66Q	NM_002931	NP_002922	Q06587	RING1_HUMAN	ring finger protein 1	95	Necessary for transcriptional repression (By similarity).				histone H2A monoubiquitination|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear speck|PcG protein complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						GTGTCCAAGCGATCCCTACGG	0.562													10	34					0	0	0.008291	0	0		A	33177736	A	A	33177736	3	1	108	1	0	0	0	0	1	0	0	0	13399	1058	37	1	294	1	RING1	6	33177736	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08	3533908	33177736	137937331	23	64975											
SMOC2	64094	broad.mit.edu	37	chr6	168910683	168910683	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctctgcgcatctgacggaaGgaccttcctttcccgttgtg	5	13	10	13	3	2	1	0	1	2	0	5	3	4	3	3	2	1	2	3	2	1	3			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr6:168910683G>T	uc003qws.1	+	2	193	c.173G>T	c.(172-174)AGG>ATG	p.R58M	SMOC2_uc003qwr.1_Missense_Mutation_p.R58M	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	58	Kazal-like.				signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		TCTGACGGAAGGACCTTCCTT	0.468													37	125					6.53348e-20	7.26964e-20	0.017118	1	0		T	168910683	T	T	168910683	3	4	108	1	0	0	0	0	1	0	0	0	14827	1000	35	5	179	5	SMOC2	6	168910683	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08	135732947	168910683	2204384	24	64976											
RNF216	54476	broad.mit.edu	37	chr7	5781105	5781105	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagaaggctaccttcttcCaagatgatgactttctgctc	11	13	7	10	0	2	4	0	2	2	2	4	4	3	4	2	1	2	2	2	1	5	5			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr7:5781105C>A	uc003soy.1	-	4	562	c.372G>T	c.(370-372)TTG>TTT	p.L124F	RNF216_uc010ksz.1_5'UTR|RNF216_uc010kta.1_Intron|RNF216_uc011jwj.1_Intron|RNF216_uc003sox.1_Missense_Mutation_p.L181F	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	124					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		TACCTTCTTCCAAGATGATGA	0.458													103	446					2.25052e-35	2.53987e-35	0.01441	1	0		A	5781105	A	A	5781105	3	1	108	1	0	0	0	0	1	0	0	0	13505	593	21	5	2284	5	RNF216	7	5781105	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08		5781105	153357558	25	64977											
CREB5	9586	broad.mit.edu	37	chr7	28844124	28844124	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatccgcccctgcacacCggcaaccaagcacaggtaga	12	3	8	18	2	0	1	0	0	0	1	1	1	1	1	6	2	3	4	6	2	3	1			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr7:28844124C>T	uc003szq.2	+	8	1401	c.1011C>T	c.(1009-1011)ACC>ACT	p.T337T	CREB5_uc003szo.2_Silent_p.T304T|CREB5_uc003szr.2_Silent_p.T330T|CREB5_uc003szs.2_Silent_p.T198T	NM_182898	NP_878901	Q02930	CREB5_HUMAN	cAMP responsive element binding protein 5	337					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						CCCTGCACACCGGCAACCAAG	0.363													39	209					0	0	0.010771	0	0		T	28844124	T	T	28844124	2	4	108	1	0	0	0	0	0	0	0	1	3863	639	23	1		1	CREB5	7	28844124	Silent	SNP	C	TCGA-CD-5802-01A-11D-1600-08	23063019	28844124	130294539	26	64978											
ESCO2	157570	broad.mit.edu	37	chr8	27660907	27660907	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcaagttatttgcaacCaagtactgcaacacccctaa	14	9	7	11	0	0	0	0	0	0	0	0	1	0	0	3	1	5	5	3	1	7	4			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr8:27660907C>G	uc003xgg.2	+	11	1841	c.1758C>G	c.(1756-1758)ACC>ACG	p.T586T	ESCO2_uc010luy.1_Intron	NM_001017420	NP_001017420	Q56NI9	ESCO2_HUMAN	establishment of cohesion 1 homolog 2	586					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding			central_nervous_system(1)	1		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|KIRC - Kidney renal clear cell carcinoma(542;0.0955)|Kidney(114;0.115)|Colorectal(74;0.132)		TATTTGCAACCAAGTACTGCA	0.358									SC_Phocomelia_syndrome				39	192					0	0	0.00874	0	0		G	27660907	G	G	27660907	2	3	108	1	0	0	0	0	0	0	0	1	5257	581	21	5		5	ESCO2	8	27660907	Silent	SNP	C	TCGA-CD-5802-01A-11D-1600-08		27660907	118703115	27	64979											
SULF1	23213	broad.mit.edu	37	chr8	70536309	70536309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagaaacattgctaagcGtcatgatgaaggccacaagg	16	6	10	9	1	1	3	1	2	0	1	1	3	1	3	2	2	3	1	2	2	5	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr8:70536309G>A	uc010lza.1	+	15	2444	c.1727G>A	c.(1726-1728)CGT>CAT	p.R576H	SULF1_uc003xyd.2_Missense_Mutation_p.R576H|SULF1_uc003xye.2_Missense_Mutation_p.R576H|SULF1_uc003xyf.2_Missense_Mutation_p.R576H|SULF1_uc003xyg.2_Missense_Mutation_p.R576H|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	576					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			ATTGCTAAGCGTCATGATGAA	0.498													20	80					0	0	0.008871	0	0		A	70536309	A	A	70536309	3	1	108	1	0	0	0	0	1	0	0	0	15395	1145	40	1	1769	1	SULF1	8	70536309	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08	42875402	70536309	75827713	28	64980											
FREM1	158326	broad.mit.edu	37	chr9	14748594	14748594	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaatgcccttctcccatgtGctgtgcttgctttggttgga	5	15	10	11	0	1	0	0	0	1	0	2	1	1	1	2	2	4	4	2	2	1	4			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr9:14748594G>A	uc003zlm.2	-	31	6191	c.5601C>T	c.(5599-5601)AGC>AGT	p.S1867S	FREM1_uc010mic.2_RNA|FREM1_uc003zlk.2_Intron|FREM1_uc003zll.2_Silent_p.S403S	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1867					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		TCTCCCATGTGCTGTGCTTGC	0.493													75	324					0	0	0.01441	0	0		A	14748594	A	A	14748594	2	1	108	1	0	0	0	0	0	0	0	1	6058	1310	46	2		2	FREM1	9	14748594	Silent	SNP	G	TCGA-CD-5802-01A-11D-1600-08		14748594	126464837	29	64981											
C9orf131	138724	broad.mit.edu	37	chr9	35045805	35045805	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccttaccaggggtttgcAaaaggtgttagccaaatgcc	10	11	10	10	0	0	0	0	0	0	0	1	0	1	0	4	3	4	3	4	3	5	4			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr9:35045805A>G	uc003zvw.2	+	2	3208	c.3179A>G	c.(3178-3180)CAA>CGA	p.Q1060R	C9orf131_uc003zvu.2_Missense_Mutation_p.Q1012R|C9orf131_uc003zvv.2_Missense_Mutation_p.Q987R|C9orf131_uc003zvx.2_Missense_Mutation_p.Q1025R	NM_203299	NP_976044	Q5VYM1	CI131_HUMAN	hypothetical protein LOC138724 isoform A	1060											0	all_epithelial(49;0.22)		LUSC - Lung squamous cell carcinoma(32;0.00117)|Lung(28;0.00309)			AGGGGTTTGCAAAAGGTGTTA	0.512													55	193					0	0	0.01441	0	0		G	35045805	G	G	35045805	3	3	108	1	0	0	0	0	1	0	0	0	2460	130	5	3	3201	3	C9orf131	9	35045805	Missense_Mutation	SNP	A	TCGA-CD-5802-01A-11D-1600-08	20297211	35045805	106167626	30	64982											
DAPK1	1612	broad.mit.edu	37	chr9	90321137	90321137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggggaagttgctgtccGtggagaccccacgggcgctg	5	8	16	12	3	0	1	0	0	0	1	2	3	2	2	4	4	1	3	4	4	1	1			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr9:90321137G>A	uc004apc.2	+	26	3289	c.3151G>A	c.(3151-3153)GTG>ATG	p.V1051M	DAPK1_uc004apd.2_Missense_Mutation_p.V1051M|DAPK1_uc011ltg.1_Missense_Mutation_p.V985M|DAPK1_uc011lth.1_Missense_Mutation_p.V788M|DAPK1_uc004apg.2_Missense_Mutation_p.V28M	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	1051					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						GTTGCTGTCCGTGGAGACCCC	0.642									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				10	24					0	0	0.006214	0	0		A	90321137	A	A	90321137	3	1	108	1	0	0	0	0	1	0	0	0	4238	1145	40	1	3249	1	DAPK1	9	90321137	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08	55275332	90321137	50892294	31	64983											
ANKS6	203286	broad.mit.edu	37	chr9	101536246	101536246	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtctgccttcccgttgtgAcgcgtccgggaccgatcaga	5	9	14	13	5	2	2	1	1	1	1	4	4	4	3	4	2	1	1	4	2	0	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr9:101536246A>G	uc004ayu.2	-	9	1755	c.1734T>C	c.(1732-1734)CGT>CGC	p.R578R	ANKS6_uc004ayt.2_Silent_p.R277R|ANKS6_uc004ayv.1_Silent_p.R40R|ANKS6_uc004ayw.1_Silent_p.R160R|ANKS6_uc004ayx.1_RNA|ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	578										ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				TCCCGTTGTGACGCGTCCGGG	0.627													4	50					0	0	0.009096	0	0		G	101536246	G	G	101536246	2	3	108	1	0	0	0	0	0	0	0	1	692	262	10	3		3	ANKS6	9	101536246	Silent	SNP	A	TCGA-CD-5802-01A-11D-1600-08	11215109	101536246	39677185	32	64984											
USP54	159195	broad.mit.edu	37	chr10	75258563	75258563	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgaggaccaggggttcGggaccctggaacaggatctg	8	8	15	10	2	2	0	0	0	2	0	4	5	2	4	2	6	1	1	2	6	1	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr10:75258563G>A	uc001juo.2	-	22	4896	c.4879C>T	c.(4879-4881)CGA>TGA	p.R1627*	PPP3CB_uc001juf.2_5'Flank|PPP3CB_uc001jue.2_5'Flank|PPP3CB_uc001jug.2_5'Flank|PPP3CB_uc001jui.2_5'Flank|PPP3CB_uc001juh.2_5'Flank|USP54_uc010qkk.1_Nonsense_Mutation_p.R762*|USP54_uc001juk.2_Nonsense_Mutation_p.R715*|USP54_uc001jul.2_Nonsense_Mutation_p.R668*|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	1627					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					CCAGGGGTTCGGGACCCTGGA	0.552													31	93					0	0	0.009535	0	0		A	75258563	A	A	75258563	4	1	108	1	0	0	0	0	0	1	0	0	17111	1124	39	1	179	1	USP54	10	75258563	Nonsense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08		75258563	60276184	33	64985											
PRR5L	79899	broad.mit.edu	37	chr11	36484155	36484155	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaacaagtgcctgctcctgCcacccagcttccccccgccc	7	6	7	21	1	0	1	0	0	0	1	2	1	2	1	8	0	5	2	8	0	2	1			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr11:36484155C>A	uc001mwo.3	+	9	1365	c.976C>A	c.(976-978)CCA>ACA	p.P326T	PRR5L_uc001mwp.2_Missense_Mutation_p.P326T|PRR5L_uc009ykk.2_Missense_Mutation_p.P198T|PRR5L_uc010rfc.1_3'UTR	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	326										ovary(1)	1						CCTGCTCCTGCCACCCAGCTT	0.677													6	23					0.00116845	0.00123076	0.001168	1	0		A	36484155	A	A	36484155	3	1	108	1	0	0	0	0	1	0	0	0	12624	739	26	5	1012	5	PRR5L	11	36484155	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08		36484155	98522361	34	64986											
ARFGAP2	84364	broad.mit.edu	37	chr11	47196833	47196833	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atttggtgttggcatcattgGctgtgcatccatgttggcga	6	15	13	7	1	1	0	1	0	0	0	2	1	2	0	1	4	1	5	1	4	0	4			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr11:47196833G>C	uc001ndt.2	-	4	311	c.296C>G	c.(295-297)GCC>GGC	p.A99G	ARFGAP2_uc010rha.1_5'Flank|ARFGAP2_uc010rhb.1_Missense_Mutation_p.A99G|ARFGAP2_uc001ndu.2_Intron|ARFGAP2_uc010rhc.1_Intron|ARFGAP2_uc010rhd.1_Missense_Mutation_p.A99G|ARFGAP2_uc001ndv.1_3'UTR	NM_032389	NP_115765	Q8N6H7	ARFG2_HUMAN	ADP-ribosylation factor GTPase activating	99	Required for interaction with coatomer.|Arf-GAP.				protein transport|regulation of ARF GTPase activity|vesicle-mediated transport	Golgi membrane|nucleolus|plasma membrane	ARF GTPase activator activity|zinc ion binding			ovary(1)	1						GGCATCATTGGCTGTGCATCC	0.547													43	158					0	0	0.011902	0	0		C	47196833	C	C	47196833	3	2	108	1	0	0	0	0	1	0	0	0	850	1203	42	5	1321	5	ARFGAP2	11	47196833	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08	10712678	47196833	87809683	35	64987											
MS4A14	84689	broad.mit.edu	37	chr11	60183690	60183690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatcagcgcatgccatattaCctgaagcctcaacatcccat	12	10	5	14	1	2	1	2	1	0	0	3	1	3	1	4	0	5	1	4	0	5	3			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr11:60183690C>T	uc001npj.2	+	5	1814	c.1249C>T	c.(1249-1251)CCT>TCT	p.P417S	MS4A14_uc001npi.2_Missense_Mutation_p.P305S|MS4A14_uc001npn.2_Missense_Mutation_p.P155S|MS4A14_uc001npk.2_Missense_Mutation_p.P400S|MS4A14_uc001npl.2_Missense_Mutation_p.P155S|MS4A14_uc001npm.2_Missense_Mutation_p.P155S	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	417						integral to membrane	receptor activity			breast(1)	1						tgccatATTACCTGAAGCCTC	0.234													22	55					0	0	0.012319	0	0		T	60183690	T	T	60183690	3	4	108	1	0	0	0	0	1	0	0	0	9876	507	18	4	1267	4	MS4A14	11	60183690	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08	12986857	60183690	74822826	36	64988											
FIBP	9158	broad.mit.edu	37	chr11	65655421	65655421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcacctctcgatgagtagtgCctgccgggagggcggaatct	7	8	15	11	3	2	1	0	1	2	0	3	4	2	3	3	3	2	2	3	3	2	1			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr11:65655421C>T	uc001ogd.2	-	2	389	c.268G>A	c.(268-270)GCA>ACA	p.A90T	FIBP_uc009yqu.2_Missense_Mutation_p.A87T|FIBP_uc001oge.2_Missense_Mutation_p.A90T|FIBP_uc010roq.1_Missense_Mutation_p.A90T|FIBP_uc010ror.1_Missense_Mutation_p.A90T|CCDC85B_uc001ogf.2_5'Flank	NM_198897	NP_942600	O43427	FIBP_HUMAN	FGF intracellular binding protein isoform a	90					fibroblast growth factor receptor signaling pathway	endomembrane system|membrane|microsome|mitochondrion|nucleus	fibroblast growth factor binding			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.166)		ATGAGTAGTGCCTGCCGGGAG	0.433													4	15					0	0	0.014758	0	0		T	65655421	T	T	65655421	3	4	108	1	0	0	0	0	1	0	0	0	5900	739	26	2	862	2	FIBP	11	65655421	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08	5471731	65655421	69351095	37	64989											
WNK1	65125	broad.mit.edu	37	chr12	1005298	1005298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taagtcagaagatgcaaagtCtgttcattttgaatccagca	14	12	8	7	0	3	3	2	1	1	2	4	3	4	3	1	0	2	3	1	0	4	4			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr12:1005298C>T	uc001qio.3	+	24	6152	c.5645C>T	c.(5644-5646)TCT>TTT	p.S1882F	WNK1_uc001qip.3_Missense_Mutation_p.S1634F|WNK1_uc001qir.3_Missense_Mutation_p.S1055F	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1882					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GATGCAAAGTCTGTTCATTTT	0.423													20	166					0	0	0.007413	0	0		T	1005298	T	T	1005298	3	4	108	1	0	0	0	0	1	0	0	0	17403	913	32	4	7241	4	WNK1	12	1005298	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08		1005298	132846597	38	64990											
GALNT8	26290	broad.mit.edu	37	chr12	4853826	4853826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagctgccacagcagacgtgGtcgccatcttggatgctcac	9	8	11	13	2	2	1	1	0	1	1	3	2	2	2	2	2	4	3	2	2	1	1			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr12:4853826G>A	uc001qne.1	+	4	912	c.820G>A	c.(820-822)GTC>ATC	p.V274I		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	274	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						AGCAGACGTGGTCGCCATCTT	0.498													20	32					0	0	0.004656	0	0		A	4853826	A	A	4853826	3	1	108	1	0	0	0	0	1	0	0	0	6234	1261	44	4	834	4	GALNT8	12	4853826	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08	3848528	4853826	128998069	39	64991											
GSG1	83445	broad.mit.edu	37	chr12	13241798	13241798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagtagtcctttctcacctCtcttggctggtggtgtaagt	5	15	10	11	0	2	0	1	0	2	0	5	0	3	0	3	3	0	3	3	3	2	4			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr12:13241798C>T	uc001rbn.2	-	4	652	c.479G>A	c.(478-480)AGA>AAA	p.R160K	GSG1_uc001rbj.2_Missense_Mutation_p.R124K|GSG1_uc001rbk.2_Missense_Mutation_p.R124K|GSG1_uc001rbl.2_Missense_Mutation_p.R147K|GSG1_uc001rbm.2_Missense_Mutation_p.R124K|GSG1_uc001rbo.2_Missense_Mutation_p.R160K|GSG1_uc001rbp.2_Missense_Mutation_p.R137K|GSG1_uc001rbq.1_Missense_Mutation_p.R160K	NM_001080555	NP_001074024	Q2KHT4	GSG1_HUMAN	germ cell associated 1 isoform 4	147						endoplasmic reticulum membrane|integral to membrane					0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		TTTCTCACCTCTCTTGGCTGG	0.527													16	53					0	0	0.006122	0	0		T	13241798	T	T	13241798	3	4	108	1	0	0	0	0	1	0	0	0	6836	913	32	4	749	4	GSG1	12	13241798	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08	8387972	13241798	120610097	40	64992											
DGKA	1606	broad.mit.edu	37	chr12	56334503	56334503	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcttccatctatcccagtgtCctggtgagaccctcggcagc	6	11	9	15	1	2	1	0	1	2	1	6	2	5	1	4	2	1	1	4	2	1	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr12:56334503C>T	uc001sij.2	+	12	1278	c.1014C>T	c.(1012-1014)GTC>GTT	p.V338V	DGKA_uc009zoc.1_Silent_p.V338V|DGKA_uc001sih.1_Silent_p.V226V|DGKA_uc001sii.1_Silent_p.V196V|DGKA_uc009zod.1_Silent_p.V257V|DGKA_uc001sik.2_Silent_p.V338V|DGKA_uc001sil.2_Silent_p.V338V|DGKA_uc001sim.2_Silent_p.V338V|DGKA_uc001sin.2_Silent_p.V338V|DGKA_uc009zof.2_5'UTR|DGKA_uc001sio.2_Silent_p.V80V	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	338					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	ATCCCAGTGTCCTGGTGAGAC	0.572											OREG0021913	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	48	349					0	0	0.01441	0	0		T	56334503	T	T	56334503	2	4	108	1	0	0	0	0	0	0	0	1	4471	842	30	4		4	DGKA	12	56334503	Silent	SNP	C	TCGA-CD-5802-01A-11D-1600-08	43092705	56334503	77517392	41	64993											
DGKA	1606	broad.mit.edu	37	chr12	56335359	56335359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacctcctaaaggatggtcCtgagatagggtgagcacagg	12	7	13	9	0	0	2	0	2	0	1	2	4	2	3	3	4	2	1	3	4	4	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr12:56335359C>T	uc001sij.2	+	15	1505	c.1241C>T	c.(1240-1242)CCT>CTT	p.P414L	DGKA_uc001sih.1_Missense_Mutation_p.P302L|DGKA_uc001sii.1_Missense_Mutation_p.P272L|DGKA_uc009zod.1_Missense_Mutation_p.P333L|DGKA_uc001sik.2_Missense_Mutation_p.P414L|DGKA_uc001sil.2_Missense_Mutation_p.P414L|DGKA_uc001sim.2_Missense_Mutation_p.P414L|DGKA_uc001sin.2_Missense_Mutation_p.P414L|DGKA_uc009zof.2_Missense_Mutation_p.P60L|DGKA_uc001sio.2_Missense_Mutation_p.P156L	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	414	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	AAGGATGGTCCTGAGATAGGG	0.473													64	747					0	0	0.01441	0	0		T	56335359	T	T	56335359	3	4	108	1	0	0	0	0	1	0	0	0	4471	681	24	4	1295	4	DGKA	12	56335359	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08	856	56335359	77516536	42	64994											
SUOX	6821	broad.mit.edu	37	chr12	56397752	56397752	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtcaacagccagcggccCtttaatgcagagcctccccc	10	6	9	16	1	1	1	1	0	0	1	2	1	2	1	5	2	5	1	5	2	3	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr12:56397752C>T	uc001six.2	+	6	905	c.579C>T	c.(577-579)CCC>CCT	p.P193P	SUOX_uc001siy.2_Silent_p.P193P|SUOX_uc001siz.2_Silent_p.P193P|SUOX_uc001sja.2_Silent_p.P193P	NM_000456	NP_000447	P51687	SUOX_HUMAN	sulfite oxidase precursor	193	Molybdenum-pterin domain (By similarity).					mitochondrial intermembrane space	electron carrier activity|molybdenum ion binding|sulfite oxidase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.119)			GCCAGCGGCCCTTTAATGCAG	0.547													18	377					0	0	0.006122	0	0		T	56397752	T	T	56397752	2	4	108	1	0	0	0	0	0	0	0	1	15420	668	24	4		4	SUOX	12	56397752	Silent	SNP	C	TCGA-CD-5802-01A-11D-1600-08	62393	56397752	77454143	43	64995											
MLXIP	22877	broad.mit.edu	37	chr12	122615390	122615390	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctctctgtgattcttgcaGcacatctgggaaatgcagac	9	12	9	11	0	4	2	0	1	4	1	5	3	4	3	0	1	3	3	0	1	1	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr12:122615390G>A	uc001ubq.2	+	7	911	c.911_splice	c.e7-1	p.A304_splice	MLXIP_uc001ubr.2_Splice_Site_p.A55_splice|MLXIP_uc001ubs.1_5'Flank|MLXIP_uc001ubt.2_5'Flank	NM_014938	NP_055753	Q9HAP2	MLXIP_HUMAN	MLX interacting protein						regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)		GATTCTTGCAGCACATCTGGG	0.502											OREG0022218	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	93					0	0	0.004672	0	0		A	122615390	A	A	122615390	5	1	108	1	0	0	0	0	0	0	1	0	9654	985	34	2	936	2	MLXIP	12	122615390	Splice_Site	SNP	G	TCGA-CD-5802-01A-11D-1600-08	66217638	122615390	11236505	44	64996											
MYCBP2	23077	broad.mit.edu	37	chr13	77671839	77671839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaagaggagacttagacttCattgtgttatgcatggacat	12	12	12	5	0	1	3	1	0	0	3	1	6	1	5	0	3	1	2	0	3	3	4			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr13:77671839C>T	uc001vkf.2	-	57	9427	c.9336G>A	c.(9334-9336)ATG>ATA	p.M3112I	MYCBP2_uc010aev.2_Missense_Mutation_p.M2516I|MYCBP2_uc001vkg.1_Missense_Mutation_p.M635I|MYCBP2_uc010aew.2_Missense_Mutation_p.M498I	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3112					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		ACTTAGACTTCATTGTGTTAT	0.388													46	202					0	0	0.011902	0	0		T	77671839	T	T	77671839	3	4	108	1	0	0	0	0	1	0	0	0	10036	826	29	4	4698	4	MYCBP2	13	77671839	Missense_Mutation	SNP	C	TCGA-CD-5802-01A-11D-1600-08		77671839	37498039	45	64997											
FANCM	57697	broad.mit.edu	37	chr14	45657009	45657009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaatgagagctatttacatGaaatctttgcgtagtccaat	14	13	8	6	1	1	2	0	2	1	1	2	4	2	2	1	0	3	2	1	0	6	5			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr14:45657009G>A	uc001wwd.3	+	19	4797	c.4698G>A	c.(4696-4698)ATG>ATA	p.M1566I	FANCM_uc010anf.2_Missense_Mutation_p.M1540I|FANCM_uc001wwe.3_Missense_Mutation_p.M1102I|FANCM_uc010ang.2_Missense_Mutation_p.M780I	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1566					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						CTATTTACATGAAATCTTTGC	0.259								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				14	43					0	0	0.003163	0	0		A	45657009	A	A	45657009	3	1	108	1	0	0	0	0	1	0	0	0	5685	1290	45	4	4772	4	FANCM	14	45657009	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08		45657009	61692531	46	64998											
ZFYVE26	23503	broad.mit.edu	37	chr14	68250043	68250043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agggttctcagttgtcctcgGggagctcggtgtagaaagtg	7	11	16	7	2	1	1	1	0	1	1	5	2	2	2	1	4	1	4	1	4	2	3			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr14:68250043G>A	uc001xka.2	-	21	3965	c.3826C>T	c.(3826-3828)CCG>TCG	p.P1276S	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.P1276S	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1276					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		GTTGTCCTCGGGGAGCTCGGT	0.577													49	184					0	0	0.01441	0	0		A	68250043	A	A	68250043	3	1	108	1	0	0	0	0	1	0	0	0	17693	1232	43	4	3881	4	ZFYVE26	14	68250043	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08	22593034	68250043	39099497	47	64999											
MAPKBP1	23005	broad.mit.edu	37	chr15	42115796	42115796	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaccaccagttccatggcCaagatatcccgcagtatctc	10	8	6	17	1	1	1	0	0	1	1	4	1	3	1	6	1	0	3	6	1	3	3			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr15:42115796C>A	uc001zok.3	+	30	4054	c.3768C>A	c.(3766-3768)GCC>GCA	p.A1256A	MAPKBP1_uc001zoj.3_Silent_p.A1250A|MAPKBP1_uc010bcj.2_Silent_p.A757A|MAPKBP1_uc010bci.2_Intron|MAPKBP1_uc010udb.1_Silent_p.A1089A|MAPKBP1_uc010bck.2_Silent_p.A467A|MAPKBP1_uc010bcl.2_Silent_p.A757A	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	1256										central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		GTTCCATGGCCAAGATATCCC	0.617													14	50					1.5842e-08	1.73822e-08	0.016723	1	0		A	42115796	A	A	42115796	2	1	108	1	0	0	0	0	0	0	0	1	9310	581	21	5		5	MAPKBP1	15	42115796	Silent	SNP	C	TCGA-CD-5802-01A-11D-1600-08		42115796	60415596	48	65000											
C17orf85	55421	broad.mit.edu	37	chr17	3716433	3716434	+	Nonsense_Mutation	DNP	GC	AT	AT																															gctcttcttttggcgagactGctctttctccttaatcagag																										TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr17:3716433_3716434GC>AT	uc010ckl.1	-	13	1790_1791	c.1767_1768GC>AT	c.(1765-1770)GAGCAG>GAATAG	p.Q590*	C17orf85_uc002fwr.2_Nonsense_Mutation_p.Q300*|C17orf85_uc002fwq.2_Nonsense_Mutation_p.Q310*	NM_001114118	NP_001107590	Q53F19	CQ085_HUMAN	ELG protein isoform a	590							nucleotide binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (3;0.0725)		TGGCGAGACTGCTCTTTCTCCT	0.515													40	177					0	0	0.004672	0	0		AT	3716434	AT	AT	3716433	4	1	108	1	0	0	0	0	0	1	0	0	1891	1328	46	2	98	2	C17orf85	17	3716433	Nonsense_Mutation	DNP	GC	TCGA-CD-5802-01A-11D-1600-08		3716433	77478777	49	65001											
RHBDL3	162494	broad.mit.edu	37	chr17	30615917	30615917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggctgagcctctcgcagcGacttatccgccatgtggcct	5	9	13	14	3	1	1	0	1	1	0	3	2	2	1	4	3	2	2	4	3	1	1			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr17:30615917G>A	uc002hhe.1	+	4	415	c.401G>A	c.(400-402)CGA>CAA	p.R134Q	RHBDL3_uc010csw.1_Missense_Mutation_p.R126Q|RHBDL3_uc010csx.1_Missense_Mutation_p.R134Q|RHBDL3_uc010csy.1_Missense_Mutation_p.R36Q|RHBDL3_uc002hhf.1_Missense_Mutation_p.R36Q	NM_138328	NP_612201	P58872	RHBL3_HUMAN	rhomboid protease 3	134					proteolysis	integral to membrane	calcium ion binding|serine-type endopeptidase activity			ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)				CTCTCGCAGCGACTTATCCGC	0.602													11	38					0	0	0.010729	0	0		A	30615917	A	A	30615917	3	1	108	1	0	0	0	0	1	0	0	0	13348	1058	37	1	415	1	RHBDL3	17	30615917	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08	26899484	30615917	50579293	50	65002											
EFTUD2	9343	broad.mit.edu	37	chr17	42940215	42940215	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcacccggccaaaggcGtgaaactggactccatcatc	11	6	9	15	2	2	1	2	1	0	0	4	2	3	2	3	3	2	1	3	3	2	0	rs149288120		TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr17:42940215G>A	uc002ihn.2	-	16	1734	c.1473C>T	c.(1471-1473)CAC>CAT	p.H491H	EFTUD2_uc010wje.1_Silent_p.H456H|EFTUD2_uc010wjf.1_Silent_p.H481H	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	491						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				GGCCAAAGGCGTGAAACTGGA	0.557													29	71					0	0	0.00632	0	0		A	42940215	A	A	42940215	2	1	108	1	0	0	0	0	0	0	0	1	4967	1136	40	1		1	EFTUD2	17	42940215	Silent	SNP	G	TCGA-CD-5802-01A-11D-1600-08	12324298	42940215	38254995	51	65003											
PPP4R1	9989	broad.mit.edu	37	chr18	9595144	9595144	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactctgagctgtagtcatcCacaccaactatcagagacat	13	9	7	12	0	3	2	2	1	1	1	4	4	4	2	2	0	2	2	2	0	3	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr18:9595144C>T	uc002koe.1	-	3	178	c.60G>A	c.(58-60)GTG>GTA	p.V20V	PPP4R1_uc010wzo.1_5'UTR|PPP4R1_uc002kod.1_Intron|PPP4R1_uc010wzp.1_Intron	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	20	HEAT 1.				protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						TGTAGTCATCCACACCAACTA	0.423													24	107					0	0	0.016522	0	0		T	9595144	T	T	9595144	2	4	108	1	0	0	0	0	0	0	0	1	12425	581	21	4		4	PPP4R1	18	9595144	Silent	SNP	C	TCGA-CD-5802-01A-11D-1600-08		9595144	68482104	52	65004											
SUPT5H	6829	broad.mit.edu	37	chr19	39960816	39960816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcaagatgggggaccacGtgaaggtgattgctggccga	10	8	15	8	2	1	3	1	2	0	1	1	5	1	4	2	4	1	1	2	4	2	2			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr19:39960816G>A	uc002olo.3	+	17	1611	c.1432G>A	c.(1432-1434)GTG>ATG	p.V478M	SUPT5H_uc002olp.3_Missense_Mutation_p.V478M|SUPT5H_uc002olq.3_Missense_Mutation_p.V474M|SUPT5H_uc002oln.3_Missense_Mutation_p.V478M|SUPT5H_uc002olr.3_Missense_Mutation_p.V478M|SUPT5H_uc002ols.1_Missense_Mutation_p.V101M|SUPT5H_uc010egp.1_5'Flank	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	478	KOW 3.				cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GGGGGACCACGTGAAGGTGAT	0.537													56	194					0	0	0.01441	0	0		A	39960816	A	A	39960816	3	1	108	1	0	0	0	0	1	0	0	0	15424	1145	40	1	1494	1	SUPT5H	19	39960816	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08		39960816	19168167	53	65005											
CKM	1158	broad.mit.edu	37	chr19	45815134	45815134	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttctccgtcatgctcttcaGagggtagtacttccctttga	6	15	8	12	1	4	2	2	1	2	1	6	2	5	2	2	1	2	3	2	1	2	6			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr19:45815134G>A	uc002pbd.2	-	5	600	c.526C>T	c.(526-528)CTG>TTG	p.L176L		NM_001824	NP_001815	P06732	KCRM_HUMAN	muscle creatine kinase	176	Phosphagen kinase C-terminal.				creatine metabolic process	cytosol	ATP binding|creatine kinase activity			skin(1)	1		Ovarian(192;0.0336)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;2.29e-44)|Epithelial(262;1.05e-38)|GBM - Glioblastoma multiforme(486;3.56e-07)	Creatine(DB00148)	ATGCTCTTCAGAGGGTAGTAC	0.607													9	34					0	0	0.008291	0	0		A	45815134	A	A	45815134	2	1	108	1	0	0	0	0	0	0	0	1	3451	933	33	4		4	CKM	19	45815134	Silent	SNP	G	TCGA-CD-5802-01A-11D-1600-08	5854318	45815134	13313849	54	65006											
KIR2DL3	3804	broad.mit.edu	37	chr19	55263828	55263828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctctctccaggactctgatGaacaagaccctcaggaggtg	10	8	10	13	0	3	3	1	2	2	1	5	5	4	5	3	3	1	0	3	3	2	0			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr19:55263828G>A	uc002qgv.2	+	8	901	c.883G>A	c.(883-885)GAA>AAA	p.E295K	KIR2DS4_uc010yfj.1_5'Flank|KIR2DL3_uc002qgx.2_Missense_Mutation_p.E295K|KIR2DL3_uc002qgy.2_Missense_Mutation_p.E197K|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_Intron|KIR3DP1_uc010yfi.1_5'Flank	NM_015868	NP_056952	P43628	KI2L3_HUMAN	killer cell immunoglobulin-like receptor, two	295	Cytoplasmic (Potential).				immune response|regulation of immune response	integral to plasma membrane	antigen binding|protein binding|receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		GGACTCTGATGAACAAGACCC	0.527													7	448					0	0	0.001984	0	0		A	55263828	A	A	55263828	3	1	108	1	0	0	0	0	1	0	0	0	8333	1291	45	4	913	4	KIR2DL3	19	55263828	Missense_Mutation	SNP	G	TCGA-CD-5802-01A-11D-1600-08	9448694	55263828	3865155	55	65007											
EMILIN3	90187	broad.mit.edu	37	chr20	39991532	39991532	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccctcagggatgaccccaAagcccacagggacagcagga	12	2	12	15	0	1	1	1	1	0	0	1	4	1	4	5	3	2	1	5	3	1	0			TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chr20:39991532A>G	uc002xjy.1	-	4	901	c.677T>C	c.(676-678)TTT>TCT	p.F226S		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	226						proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				GATGACCCCAAAGCCCACAGG	0.607													14	43					0	0	0.016723	0	0		G	39991532	G	G	39991532	3	3	108	1	0	0	0	0	1	0	0	0	5103	14	1	3	1627	3	EMILIN3	20	39991532	Missense_Mutation	SNP	A	TCGA-CD-5802-01A-11D-1600-08		39991532	23033988	56	65008											
IDH3G	3421	broad.mit.edu	37	chrX	153052343	153052343	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgcgcagacattgttgacGatgttgccatagagattggg	9	10	13	9	3	0	3	0	1	0	2	0	5	0	3	2	1	1	3	2	1	1	5	rs141309746		TCGA-CD-5802-01A-11D-1600-08	TCGA-CD-5802-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	c1b44966-0f72-4c4f-8783-ab3ffe7f17b2	af722e36-4912-45c4-b431-a2ceff596bac	g.chrX:153052343G>A	uc004fip.2	-	10	1023	c.837C>T	c.(835-837)ATC>ATT	p.I279I	IDH3G_uc004fio.2_Silent_p.I221I|IDH3G_uc004fiq.2_Silent_p.I279I|IDH3G_uc010num.2_Silent_p.I221I|IDH3G_uc004fir.2_Silent_p.I221I|IDH3G_uc004fit.1_Silent_p.I279I|IDH3G_uc004fis.2_Silent_p.I221I|IDH3G_uc004fiu.2_Silent_p.I55I	NM_004135	NP_004126	P51553	IDH3G_HUMAN	isocitrate dehydrogenase 3 (NAD+) gamma isoform	279					carbohydrate metabolic process|isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleolus	ATP binding|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	CATTGTTGACGATGTTGCCAT	0.607													38	47					0	0	0.00874	0	0		A	153052343	A	A	153052343	2	1	108	1	0	0	0	0	0	0	0	1	7514	1048	37	1		1	IDH3G	23	153052343	Silent	SNP	G	TCGA-CD-5802-01A-11D-1600-08		153052343	2218217	57	65009											
ARID1A	8289	broad.mit.edu	37	chr1	27059176	27059176	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttgttgtaggagctatctCaagattcatttgggtctcag	8	16	10	7	0	4	1	3	0	3	1	6	2	4	2	0	2	1	3	0	2	3	6			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr1:27059176C>T	uc001bmv.1	+	4	2186	c.1813C>T	c.(1813-1815)CAA>TAA	p.Q605*	ARID1A_uc001bmt.1_Nonsense_Mutation_p.Q605*|ARID1A_uc001bmu.1_Nonsense_Mutation_p.Q605*|ARID1A_uc001bmw.1_Nonsense_Mutation_p.Q222*	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	605					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		GGAGCTATCTCAAGATTCATT	0.483			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								16	124					0	0	0.160694	0	0		T	27059176	T	T	27059176	4	4	109	1	0	0	0	0	0	1	0	0	913	827	29	4	1827	4	ARID1A	1	27059176	Nonsense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08		27059176	222191445	1	65010											
VAV3	10451	broad.mit.edu	37	chr1	108247235	108247235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttgtgtgctctcgctcCacacttaaaacataaatagc	11	14	5	11	1	2	0	0	0	2	0	4	0	3	0	1	0	3	2	1	0	5	5			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr1:108247235C>T	uc001dvk.1	-	17	1696	c.1642G>A	c.(1642-1644)GGA>AGA	p.G548R	VAV3_uc010ouw.1_Missense_Mutation_p.G548R|VAV3_uc001dvl.1_Missense_Mutation_p.G372R|VAV3_uc010oux.1_Missense_Mutation_p.G548R	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	548	Phorbol-ester/DAG-type.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		GCTCTCGCTCCACACTTAAAA	0.353													8	150					0	0	0.038147	0	0		T	108247235	T	T	108247235	3	4	109	1	0	0	0	0	1	0	0	0	17159	603	21	4	970	4	VAV3	1	108247235	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08	81188059	108247235	141003386	2	65011											
OR2T27	403239	broad.mit.edu	37	chr1	248813773	248813773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatcaaccagcagatcttgCggctcatgaggacaggatag	13	7	11	10	1	3	2	2	1	1	1	3	4	3	4	1	3	3	2	1	3	3	2			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr1:248813773C>T	uc010pzo.1	-	1	413	c.413G>A	c.(412-414)CGC>CAC	p.R138H		NM_001001824	NP_001001824	Q8NH04	O2T27_HUMAN	olfactory receptor, family 2, subfamily T,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;1.15e-05)|all_epithelial(71;5.29e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.089)|Lung NSC(105;0.0969)|Melanoma(84;0.199)	all_cancers(173;0.237)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GCAGATCTTGCGGCTCATGAG	0.557													14	73					0	0	0.204396	0	0		T	248813773	T	T	248813773	3	4	109	1	0	0	0	0	1	0	0	0	11040	768	27	1	543	1	OR2T27	1	248813773	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08	140566538	248813773	436848	3	65012											
CNTNAP5	129684	broad.mit.edu	37	chr2	125660527	125660527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctggatgcatgtcttccGtccagtacaaccacatagca	10	11	8	12	1	1	0	0	0	1	0	3	1	3	1	3	1	5	4	3	1	3	4			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr2:125660527G>A	uc002tno.2	+	22	3866	c.3502G>A	c.(3502-3504)GTC>ATC	p.V1168I	CNTNAP5_uc010flu.2_Missense_Mutation_p.V1169I	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	1168	Extracellular (Potential).|Laminin G-like 4.				cell adhesion|signal transduction	integral to membrane	receptor binding	p.V1168I(1)		ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		CATGTCTTCCGTCCAGTACAA	0.493													4	32					0	0	0.021553	0	0		A	125660527	A	A	125660527	3	1	109	1	0	0	0	0	1	0	0	0	3653	1145	40	1	3588	1	CNTNAP5	2	125660527	Missense_Mutation	SNP	G	TCGA-CD-5803-01A-11D-1600-08		125660527	117538846	4	65013											
FANCD2	2177	broad.mit.edu	37	chr3	10081483	10081483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acatcatcaccagcctacctGagatcctaggggattcccag	11	8	8	14	0	2	1	2	1	0	1	4	3	4	2	5	2	2	0	5	2	2	3			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr3:10081483G>A	uc003buw.2	+	9	727	c.649G>A	c.(649-651)GAG>AAG	p.E217K	FANCD2_uc003bux.1_Missense_Mutation_p.E217K|FANCD2_uc003buy.1_Missense_Mutation_p.E217K|FANCD2_uc003buv.2_Missense_Mutation_p.E217K	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	217	Interaction with FANCE.				DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		CAGCCTACCTGAGATCCTAGG	0.502			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				16	143					0	0	0.175082	0	0		A	10081483	A	A	10081483	3	1	109	1	0	0	0	0	1	0	0	0	5679	1291	45	4	679	4	FANCD2	3	10081483	Missense_Mutation	SNP	G	TCGA-CD-5803-01A-11D-1600-08		10081483	187940947	5	65014											
SLC6A20	54716	broad.mit.edu	37	chr3	45814049	45814049	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggctccgtggagcgtgaggCccctgatgaggtagatgatg	7	9	17	8	2	0	5	0	4	0	1	1	6	1	6	3	4	1	2	3	4	1	1			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr3:45814049C>A	uc011bai.1	-	5	765	c.641G>T	c.(640-642)GGC>GTC	p.G214V	SLC6A20_uc003cow.2_5'Flank|SLC6A20_uc011baj.1_Intron	NM_020208	NP_064593	Q9NP91	S6A20_HUMAN	solute carrier family 6, member 20 isoform 1	214	Helical; Name=5; (Potential).				cellular nitrogen compound metabolic process|glycine transport|proline transport	apical plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;0.01)|KIRC - Kidney renal clear cell carcinoma(197;0.0225)|Kidney(197;0.0267)		GAGCGTGAGGCCCCTGATGAG	0.607													8	53					5.18039e-06	5.43106e-06	0.038147	1	0		A	45814049	A	A	45814049	3	1	109	1	0	0	0	0	1	0	0	0	14709	739	26	5	1165	5	SLC6A20	3	45814049	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08	35732566	45814049	152208381	6	65015											
RASA2	5922	broad.mit.edu	37	chr3	141305519	141305519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagagctcaaggaagaactCggattggaaaaaagaatttt	19	8	10	4	1	1	3	1	0	0	3	2	6	1	6	0	3	2	1	0	3	8	3			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr3:141305519C>T	uc003etz.1	+	19	1858	c.1858C>T	c.(1858-1860)CGG>TGG	p.R620W	RASA2_uc010huq.1_Missense_Mutation_p.R620W|RASA2_uc003eua.1_Missense_Mutation_p.R620W|RASA2_uc011bnc.1_Missense_Mutation_p.R212W	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	620	PH.				intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6						AGGAAGAACTCGGATTGGAAA	0.348													9	52					0	0	0.047766	0	0		T	141305519	T	T	141305519	3	4	109	1	0	0	0	0	1	0	0	0	13086	875	31	1	1932	1	RASA2	3	141305519	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08	95491470	141305519	56716911	7	65016											
OTOL1	131149	broad.mit.edu	37	chr3	161221712	161221712	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttgtacccagaggaaacTtctggaatttcaccataaat	13	13	6	9	0	2	1	1	0	1	1	2	3	2	3	2	2	2	1	2	2	5	6			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr3:161221712T>C	uc011bpb.1	+	4	1416	c.1416T>C	c.(1414-1416)ACT>ACC	p.T472T		NM_001080440	NP_001073909	A6NHN0	OTOL1_HUMAN	otolin-1 precursor	472	C1q.					collagen					0						CAGAGGAAACTTCTGGAATTT	0.393													5	61					0	0	0.02938	0	0		C	161221712	C	C	161221712	2	2	109	1	0	0	0	0	0	0	0	1	11323	1596	56	3		3	OTOL1	3	161221712	Silent	SNP	T	TCGA-CD-5803-01A-11D-1600-08	19916193	161221712	36800718	8	65017											
SPATA18	132671	broad.mit.edu	37	chr4	52945045	52945045	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttgatctatatgattctCaaagcagtgtcaatgtaagt	13	15	7	6	0	4	2	2	2	3	0	5	2	4	2	0	0	1	2	0	0	5	5			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr4:52945045C>A	uc003gzl.2	+	8	1443	c.1165C>A	c.(1165-1167)CAA>AAA	p.Q389K	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.Q357K|SPATA18_uc003gzk.1_Missense_Mutation_p.Q389K	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	389					mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			ATATGATTCTCAAAGCAGTGT	0.383													18	288					3.32936e-07	3.66794e-07	0.175082	1	0		A	52945045	A	A	52945045	3	1	109	1	0	0	0	0	1	0	0	0	15028	827	29	5	1195	5	SPATA18	4	52945045	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08		52945045	138209231	9	65018											
PDGFRA	5156	broad.mit.edu	37	chr4	55155048	55155048	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taccggatggccaagcctgaCcacgctaccagtgaagtgtg	10	7	12	12	2	0	2	0	2	0	0	0	3	0	3	5	2	3	1	5	2	4	2			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr4:55155048C>T	uc003han.3	+	20	3088	c.2757C>T	c.(2755-2757)GAC>GAT	p.D919D	PDGFRA_uc003haa.2_Silent_p.D679D	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	919	Protein kinase.|Cytoplasmic (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	CCAAGCCTGACCACGCTACCA	0.562			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			4	74					0	0	0.021553	0	0		T	55155048	T	T	55155048	2	4	109	1	0	0	0	0	0	0	0	1	11680	506	18	4		4	PDGFRA	4	55155048	Silent	SNP	C	TCGA-CD-5803-01A-11D-1600-08	2210003	55155048	135999228	10	65019											
KIAA1211	57482	broad.mit.edu	37	chr4	57189672	57189672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcgggagcagcaggcgaCgcgggaggagagaaagcaag	12	3	19	7	4	0	1	0	0	0	1	1	6	0	4	0	4	3	4	0	4	2	1			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr4:57189672C>T	uc003hbk.2	+	9	3708	c.3317C>T	c.(3316-3318)ACG>ATG	p.T1106M	KIAA1211_uc010iha.2_Missense_Mutation_p.T1099M	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	1106										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					CAGCAGGCGACGCGGGAGGAG	0.507													5	36					0	0	0.184627	0	0		T	57189672	T	T	57189672	3	4	109	1	0	0	0	0	1	0	0	0	8231	536	19	1	3339	1	KIAA1211	4	57189672	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08	2034624	57189672	133964604	11	65020											
AGXT2	64902	broad.mit.edu	37	chr5	35033593	35033593	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctgtcccaccagggagtTccatcttgtaggtccctacg	8	10	9	14	1	1	0	0	0	1	0	4	1	4	1	5	2	2	2	5	2	3	4			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr5:35033593T>C	uc003jjf.2	-	6	726	c.647A>G	c.(646-648)GAA>GGA	p.E216G	AGXT2_uc011com.1_Missense_Mutation_p.E216G|AGXT2_uc011con.1_Missense_Mutation_p.E124G	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	216					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	ACCAGGGAGTTCCATCTTGTA	0.473													18	108					0	0	0.204396	0	0		C	35033593	C	C	35033593	3	2	109	1	0	0	0	0	1	0	0	0	405	1783	62	3	933	3	AGXT2	5	35033593	Missense_Mutation	SNP	T	TCGA-CD-5803-01A-11D-1600-08		35033593	145881667	12	65021											
WNT8A	7478	broad.mit.edu	37	chr5	137426675	137426675	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggtgctgtacggtcaaGtgtgaccagtgtaggcatgt	8	11	15	7	1	1	1	1	1	0	0	1	1	1	1	1	3	2	4	1	3	3	2			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr5:137426675G>A	uc003lcd.1	+	6	974	c.969G>A	c.(967-969)AAG>AAA	p.K323K	BRD8_uc003lcc.1_Intron|WNT8A_uc011cyj.1_Silent_p.K341K|WNT8A_uc011cyk.1_Silent_p.K341K	NM_058244	NP_490645	Q9H1J5	WNT8A_HUMAN	wingless-type MMTV integration site family,	323					brain segmentation|canonical Wnt receptor signaling pathway involved in neural crest cell differentiation|cell migration involved in gastrulation|dorsal/ventral pattern formation|ectoderm development|endoderm development|eye development|hindbrain development|mesodermal cell fate commitment|negative regulation of Wnt receptor signaling pathway|neural crest cell fate commitment|neural plate pattern specification|notochord development|palate development|polarity specification of anterior/posterior axis|polarity specification of proximal/distal axis|positive regulation of fibroblast growth factor receptor signaling pathway|regulation of transcription involved in anterior/posterior axis specification|response to retinoic acid|somitogenesis|spinal cord anterior/posterior patterning|tail morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			ovary(1)|lung(1)|breast(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GTACGGTCAAGTGTGACCAGT	0.562													14	120					0	0	0.105934	0	0		A	137426675	A	A	137426675	2	1	109	1	0	0	0	0	0	0	0	1	17422	1020	36	4		4	WNT8A	5	137426675	Silent	SNP	G	TCGA-CD-5803-01A-11D-1600-08	102393082	137426675	43488585	13	65022											
KDM3B	51780	broad.mit.edu	37	chr5	137734048	137734048	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctgccagctcgtaatgtctGagaaggaggccatgatgatg	10	10	13	8	1	2	3	0	3	2	1	3	5	2	4	2	2	2	2	2	2	2	1			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr5:137734048G>C	uc003lcy.1	+	10	3213	c.3013G>C	c.(3013-3015)GAG>CAG	p.E1005Q	KDM3B_uc010jew.1_Missense_Mutation_p.E661Q|KDM3B_uc011cys.1_Missense_Mutation_p.E37Q	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	1005					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						CGTAATGTCTGAGAAGGAGGC	0.473													17	107					0	0	0.160694	0	0		C	137734048	C	C	137734048	3	2	109	1	0	0	0	0	1	0	0	0	8143	1291	45	5	3051	5	KDM3B	5	137734048	Missense_Mutation	SNP	G	TCGA-CD-5803-01A-11D-1600-08	307373	137734048	43181212	14	65023											
PCDHA8	56140	broad.mit.edu	37	chr5	140222519	140222519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttccaggtgagcgcgcGcgacgcgggcgtgccgcctc	4	5	17	15	8	0	1	0	1	0	0	2	2	1	1	3	2	2	2	3	2	0	1			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr5:140222519G>A	uc003lhs.2	+	1	1613	c.1613G>A	c.(1612-1614)CGC>CAC	p.R538H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.R538H	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	538	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGAGCGCGCGCGACGCGGGC	0.667													18	35					0	0	0.175082	0	0		A	140222519	A	A	140222519	3	1	109	1	0	0	0	0	1	0	0	0	11549	1087	38	1	1615	1	PCDHA8	5	140222519	Missense_Mutation	SNP	G	TCGA-CD-5803-01A-11D-1600-08	2488471	140222519	40692741	15	65024											
CNR1	1268	broad.mit.edu	37	chr6	88854334	88854334	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcctcttataggccaggggCctgtgaatggatatgtacct	9	12	11	9	0	1	1	0	1	1	0	2	2	2	2	4	4	1	1	4	4	5	4			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr6:88854334C>A	uc011dzq.1	-	2	4223	c.660G>T	c.(658-660)AGG>AGT	p.R220S	CNR1_uc010kbz.2_Missense_Mutation_p.R220S|CNR1_uc011dzr.1_Missense_Mutation_p.R220S|CNR1_uc011dzs.1_Missense_Mutation_p.R220S|CNR1_uc003pmq.3_Missense_Mutation_p.R220S|CNR1_uc011dzt.1_Missense_Mutation_p.R220S|CNR1_uc010kca.2_Missense_Mutation_p.R187S	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	220	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	AGGCCAGGGGCCTGTGAATGG	0.582													12	58					7.93312e-07	8.59421e-07	0.11911	1	0		A	88854334	A	A	88854334	3	1	109	1	0	0	0	0	1	0	0	0	3634	738	26	5	762	5	CNR1	6	88854334	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08		88854334	82260733	16	65025											
KRIT1	889	broad.mit.edu	37	chr7	91864228	91864228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtatggatttattaccaCtttatctacctagaaaggga	15	13	7	6	0	1	1	0	0	1	1	1	3	1	3	2	2	2	1	2	2	8	8			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr7:91864228C>T	uc003ulq.1	-	7	910	c.739G>A	c.(739-741)GTG>ATG	p.V247M	KRIT1_uc010lev.1_Missense_Mutation_p.V40M|KRIT1_uc003ulr.1_Missense_Mutation_p.V247M|KRIT1_uc003uls.1_Missense_Mutation_p.V247M|KRIT1_uc003ult.1_Missense_Mutation_p.V247M|KRIT1_uc003ulu.1_Missense_Mutation_p.V247M|KRIT1_uc003ulv.1_Missense_Mutation_p.V247M	NM_194456	NP_919438	O00522	KRIT1_HUMAN	krev interaction trapped 1 isoform 1	247					angiogenesis|cell redox homeostasis|negative regulation of angiogenesis|negative regulation of endothelial cell apoptosis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|regulation of establishment of cell polarity|small GTPase mediated signal transduction	cell-cell junction|cytoskeleton	protein binding|small GTPase regulator activity			ovary(2)|lung(1)	3	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTTATTACCACTTTATCTACC	0.308									Familial_Cerebral_Cavernous_Angioma				10	110					0	0	0.069234	0	0		T	91864228	T	T	91864228	3	4	109	1	0	0	0	0	1	0	0	0	8461	565	20	4	1515	4	KRIT1	7	91864228	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08		91864228	67274435	17	65026											
ORAI2	80228	broad.mit.edu	37	chr7	102079422	102079422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgagtgctgagcttaacGtgcctatcgacccctctgct	7	11	9	14	2	1	2	0	2	1	0	2	3	1	2	4	0	5	3	4	0	2	2			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr7:102079422G>A	uc010lhz.1	+	3	254	c.19G>A	c.(19-21)GTG>ATG	p.V7M	ORAI2_uc003uzj.2_Missense_Mutation_p.V7M|ORAI2_uc003uzk.2_Missense_Mutation_p.V7M|ORAI2_uc011kks.1_Intron	NM_001126340	NP_001119812	Q96SN7	ORAI2_HUMAN	ORAI calcium release-activated calcium modulator	7						integral to membrane	protein binding			ovary(1)|kidney(1)	2						TGAGCTTAACGTGCCTATCGA	0.607													24	206					0	0	0.108266	0	0		A	102079422	A	A	102079422	3	1	109	1	0	0	0	0	1	0	0	0	11277	1145	40	1	21	1	ORAI2	7	102079422	Missense_Mutation	SNP	G	TCGA-CD-5803-01A-11D-1600-08	10215194	102079422	57059241	18	65027											
JHDM1D	80853	broad.mit.edu	37	chr7	139829297	139829297	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaataaagttcgtacctacAtaacgttccacatccatcac	15	10	4	12	2	1	0	1	0	0	0	4	1	3	0	3	0	3	3	3	0	6	6			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr7:139829297A>G	uc003vvm.2	-	4	559	c.555T>C	c.(553-555)TAT>TAC	p.Y185Y		NM_030647	NP_085150	Q6ZMT4	KDM7_HUMAN	jumonji C domain containing histone demethylase	185					midbrain development|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1	Melanoma(164;0.0142)					TCGTACCTACATAACGTTCCA	0.348													21	121					0	0	0.069288	0	0		G	139829297	G	G	139829297	2	3	109	1	0	0	0	0	0	0	0	1	7964	224	8	3		3	JHDM1D	7	139829297	Silent	SNP	A	TCGA-CD-5803-01A-11D-1600-08	37749875	139829297	19309366	19	65028											
ATAD2	29028	broad.mit.edu	37	chr8	124357296	124357296	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacttggtgctgttctcttaGcttcacgaatcacctagtag	8	15	8	10	1	3	0	2	0	1	0	4	1	3	0	1	1	3	4	1	1	5	7			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr8:124357296G>C	uc003yqh.3	-	19	2654	c.2546C>G	c.(2545-2547)GCT>GGT	p.A849G	ATAD2_uc011lii.1_Missense_Mutation_p.A640G|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.A849G	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	849					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TGTTCTCTTAGCTTCACGAAT	0.388													16	323					0	0	0.132662	0	0		C	124357296	C	C	124357296	3	2	109	1	0	0	0	0	1	0	0	0	1072	971	34	5	1666	5	ATAD2	8	124357296	Missense_Mutation	SNP	G	TCGA-CD-5803-01A-11D-1600-08		124357296	22006726	20	65029											
TG	7038	broad.mit.edu	37	chr8	133906122	133906122	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgccccgggaggctttcgcGgagcagtttctgcgtgggag	4	8	17	12	5	1	0	0	0	1	0	2	3	1	3	3	4	2	3	3	4	0	2			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr8:133906122G>A	uc003ytw.2	+	11	2990	c.2949G>A	c.(2947-2949)GCG>GCA	p.A983A		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	983	Thyroglobulin type-1 8.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AGGCTTTCGCGGAGCAGTTTC	0.602													4	164					0	0	0.150653	0	0		A	133906122	A	A	133906122	2	1	109	1	0	0	0	0	0	0	0	1	15838	1103	39	1		1	TG	8	133906122	Silent	SNP	G	TCGA-CD-5803-01A-11D-1600-08	9548826	133906122	12457900	21	65030											
FAM75A6	389730	broad.mit.edu	37	chr9	43626820	43626820	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tgtccctggtgattcgtcccGaagctgcatcagatccagag	8	10	11	12	2	1	3	1	1	0	2	5	4	4	3	3	1	2	2	3	1	1	1	rs138779714	by1000genomes	TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr9:43626820G>C	uc011lrb.1	-	4	1896	c.1867C>G	c.(1867-1869)CGG>GGG	p.R623G		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	623						integral to membrane					0						GATTCGTCCCGAAGCTGCATC	0.542													3	56					0	0	0.115264	0	0		C	43626820	C	C	43626820	3	2	109	1	0	0	0	0	1	0	0	0	5636	1057	37	5	2168	5	FAM75A6	9	43626820	Missense_Mutation	SNP	G	TCGA-CD-5803-01A-11D-1600-08		43626820	97586611	22	65031											
RGS3	5998	broad.mit.edu	37	chr9	116346507	116346507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcagaactcgctgcggCgccggacgcacagcgagggc	7	4	17	13	6	0	1	0	0	0	1	1	3	0	2	1	3	4	3	1	3	1	0			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr9:116346507C>T	uc004bhq.2	+	21	3024	c.2815C>T	c.(2815-2817)CGC>TGC	p.R939C	RGS3_uc004bhs.2_Missense_Mutation_p.R829C|RGS3_uc004bht.2_Missense_Mutation_p.R658C|RGS3_uc010muy.2_Intron|RGS3_uc004bhv.2_Missense_Mutation_p.R260C|RGS3_uc010muz.1_Missense_Mutation_p.R278C|RGS3_uc004bhw.2_Intron|RGS3_uc011lxh.1_Missense_Mutation_p.R249C|RGS3_uc004bhx.2_Missense_Mutation_p.R260C|RGS3_uc004bhy.1_Missense_Mutation_p.R249C|RGS3_uc004bhz.2_Missense_Mutation_p.R281C	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	939					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						CTCGCTGCGGCGCCGGACGCA	0.692													4	61					0	0	0.150653	0	0		T	116346507	T	T	116346507	3	4	109	1	0	0	0	0	1	0	0	0	13331	768	27	1	3146	1	RGS3	9	116346507	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08	72719687	116346507	24866924	23	65032											
ADARB2	105	broad.mit.edu	37	chr10	1230815	1230815	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctaccctgccatacagccGcgcccaccgtgcagacagca	10	4	8	19	3	0	1	0	0	0	1	0	1	0	1	6	0	6	2	6	0	2	2			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr10:1230815G>A	uc009xhq.2	-	9	2403	c.2029C>T	c.(2029-2031)CGG>TGG	p.R677W	ADARB2_uc009xhp.2_Missense_Mutation_p.R61W|ADARB2_uc001igl.3_Missense_Mutation_p.R39W|ADARB2_uc001igm.3_Missense_Mutation_p.R186W	NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	677	A to I editase.				mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		CCATACAGCCGCGCCCACCGT	0.662													3	15					0	0	0.115264	0	0		A	1230815	A	A	1230815	3	1	109	1	0	0	0	0	1	0	0	0	283	1086	38	1	198	1	ADARB2	10	1230815	Missense_Mutation	SNP	G	TCGA-CD-5803-01A-11D-1600-08		1230815	134303932	24	65033											
OR56B4	196335	broad.mit.edu	37	chr11	6129249	6129249	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggacattggcctggccAccaccatcatgcccaagatc	9	8	10	14	0	1	1	1	0	0	1	2	2	1	2	5	4	1	0	5	4	1	1			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr11:6129249A>T	uc010qzx.1	+	1	241	c.241A>T	c.(241-243)ACC>TCC	p.T81S		NM_001005181	NP_001005181	Q8NH76	O56B4_HUMAN	olfactory receptor, family 56, subfamily B,	81	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.31e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGGCCTGGCCACCACCATCAT	0.493													6	146					0	0	0.02938	0	0		T	6129249	T	T	6129249	3	4	109	1	0	0	0	0	1	0	0	0	11157	159	6	5	243	5	OR56B4	11	6129249	Missense_Mutation	SNP	A	TCGA-CD-5803-01A-11D-1600-08		6129249	128877267	25	65034											
NLRP14	338323	broad.mit.edu	37	chr11	7064427	7064427	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagggtggtgatgtcacAttgacctgccaaacaaccac	13	7	11	10	0	1	3	1	2	0	1	1	4	1	3	3	2	3	0	3	2	3	1			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr11:7064427A>T	uc001mfb.1	+	4	1493	c.1170A>T	c.(1168-1170)ACA>ACT	p.T390T		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	390	NACHT.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		GTGATGTCACATTGACCTGCC	0.498													23	270					0	0	0.069288	0	0		T	7064427	T	T	7064427	2	4	109	1	0	0	0	0	0	0	0	1	10495	204	8	5		5	NLRP14	11	7064427	Silent	SNP	A	TCGA-CD-5803-01A-11D-1600-08	935178	7064427	127942089	26	65035											
KBTBD4	55709	broad.mit.edu	37	chr11	47595060	47595060	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atatatggcatctttcccggGcacagacaccagggtgtgct	9	10	11	11	1	1	1	0	0	1	1	2	1	2	1	2	3	1	3	2	3	2	3			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr11:47595060G>A	uc001nfx.2	-	4	1150	c.979C>T	c.(979-981)CCC>TCC	p.P327S	NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_Missense_Mutation_p.P352S|KBTBD4_uc001nfz.2_Missense_Mutation_p.P343S|KBTBD4_uc001nfy.2_Missense_Mutation_p.P327S	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4	327	Kelch 2.									ovary(1)|central_nervous_system(1)	2						TCTTTCCCGGGCACAGACACC	0.547													4	79					0	0	0.150653	0	0		A	47595060	A	A	47595060	3	1	109	1	0	0	0	0	1	0	0	0	8011	1203	42	2	581	2	KBTBD4	11	47595060	Missense_Mutation	SNP	G	TCGA-CD-5803-01A-11D-1600-08	40530633	47595060	87411456	27	65036											
SLC22A8	9376	broad.mit.edu	37	chr11	62763206	62763206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagacagaaggtcatgcggCgcagcatgggtatccggaac	13	5	14	9	3	1	2	1	0	0	2	2	3	2	3	1	4	3	3	1	4	4	1			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr11:62763206C>T	uc001nwo.2	-	7	1107	c.971G>A	c.(970-972)CGC>CAC	p.R324H	SLC22A8_uc001nwn.1_3'UTR|SLC22A8_uc001nwp.2_Missense_Mutation_p.R324H|SLC22A8_uc009yom.2_Missense_Mutation_p.R201H|SLC22A8_uc010rmm.1_Missense_Mutation_p.R233H|SLC22A8_uc009yon.2_Missense_Mutation_p.R324H	NM_004254	NP_004245	Q8TCC7	S22A8_HUMAN	solute carrier family 22 member 8	324	Cytoplasmic (Potential).				response to toxin	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|organic anion transmembrane transporter activity			skin(2)|ovary(1)	3						GGTCATGCGGCGCAGCATGGG	0.592													18	126					0	0	0.160694	0	0		T	62763206	T	T	62763206	3	4	109	1	0	0	0	0	1	0	0	0	14485	768	27	1	677	1	SLC22A8	11	62763206	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08	15168146	62763206	72243310	28	65037											
PYROXD1	79912	broad.mit.edu	37	chr12	21593302	21593302	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctctttttaaaaataagTtggctactcactttccatcg	10	17	4	10	1	3	0	1	0	2	0	6	0	4	0	1	1	1	2	1	1	5	7			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr12:21593302T>G	uc001rew.2	+	2	212	c.85T>G	c.(85-87)TTG>GTG	p.L29V	PYROXD1_uc009ziq.2_5'UTR|PYROXD1_uc009zir.2_Intron	NM_024854	NP_079130	Q8WU10	PYRD1_HUMAN	pyridine nucleotide-disulphide oxidoreductase	29							oxidoreductase activity			ovary(1)	1						TAAAAATAAGTTGGCTACTCA	0.299													6	129					0	0	0.038147	0	0		G	21593302	G	G	21593302	3	3	109	1	0	0	0	0	1	0	0	0	12891	1739	60	5	91	5	PYROXD1	12	21593302	Missense_Mutation	SNP	T	TCGA-CD-5803-01A-11D-1600-08		21593302	112258593	29	65038											
AVIL	10677	broad.mit.edu	37	chr12	58193602	58193602	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttggcagggtttacatcCtcaggcagctcctgattctg	6	15	10	10	0	2	1	1	1	1	0	4	1	4	1	2	3	2	4	2	3	1	5			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr12:58193602C>G	uc001sqj.1	-	18	2351	c.2322G>C	c.(2320-2322)GAG>GAC	p.E774D	AVIL_uc009zqe.1_Missense_Mutation_p.E767D	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	774	Headpiece (By similarity).|HP.				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					GGTTTACATCCTCAGGCAGCT	0.443													27	292					0	0	0.116897	0	0		G	58193602	G	G	58193602	3	3	109	1	0	0	0	0	1	0	0	0	1228	680	24	5	145	5	AVIL	12	58193602	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08	36600300	58193602	75658293	30	65039											
NOS1	4842	broad.mit.edu	37	chr12	117768788	117768788	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgctccttcaccagaaaTcccaggcccccaactttgcg	9	7	6	19	2	1	1	1	0	0	1	3	1	3	1	6	1	2	1	6	1	2	2			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr12:117768788T>A	uc001twm.1	-	2	773	c.87A>T	c.(85-87)GGA>GGT	p.G29G		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	29	Interaction with NOSIP (By similarity).|PDZ.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	TCACCAGAAATCCCAGGCCCC	0.562													15	114					0	0	0.132662	0	0		A	117768788	A	A	117768788	2	1	109	1	0	0	0	0	0	0	0	1	10560	1422	50	5		5	NOS1	12	117768788	Silent	SNP	T	TCGA-CD-5803-01A-11D-1600-08	59575186	117768788	16083107	31	65040											
CABP1	9478	broad.mit.edu	37	chr12	121098064	121098064	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acatcaactgccgggatctgGgcaactgcatgcgcaccatg	10	7	11	13	2	2	0	1	0	1	0	2	1	2	1	2	2	5	3	2	2	2	0			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr12:121098064G>T	uc001tyu.2	+	3	818	c.751G>T	c.(751-753)GGC>TGC	p.G251C	CABP1_uc001tyv.2_Missense_Mutation_p.G108C|CABP1_uc001tyw.2_Missense_Mutation_p.G48C|CABP1_uc001tyx.2_Missense_Mutation_p.G93C	NM_001033677	NP_001028849	Q9NZU7	CABP1_HUMAN	calcium binding protein 1 isoform 3	251	EF-hand 1.					cell cortex|cell junction|Golgi apparatus|perinuclear region of cytoplasm|postsynaptic density|postsynaptic membrane	calcium ion binding|calcium-dependent protein binding|enzyme inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CCGGGATCTGGGCAACTGCAT	0.567													6	58					0.00198382	0.00201482	0.02938	1	0		T	121098064	T	T	121098064	3	4	109	1	0	0	0	0	1	0	0	0	2534	1232	43	5	994	5	CABP1	12	121098064	Missense_Mutation	SNP	G	TCGA-CD-5803-01A-11D-1600-08	3329276	121098064	12753831	32	65041											
ERCC5	2073	broad.mit.edu	37	chr13	103515071	103515071	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggaagggaactgacaccGgcatctccaacttgtacaaa	15	7	9	10	1	1	1	0	1	1	0	2	3	1	3	2	3	3	2	2	3	6	2			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr13:103515071G>A	uc001vpw.2	+	8	2015	c.1572G>A	c.(1570-1572)CCG>CCA	p.P524P	ERCC5_uc001vpu.1_Silent_p.P978P|ERCC5_uc010tjb.1_Silent_p.P524P|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Silent_p.P356P	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	524					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AACTGACACCGGCATCTCCAA	0.463			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				4	112					0	0	0.150653	0	0		A	103515071	A	A	103515071	2	1	109	1	0	0	0	0	0	0	0	1	5224	1103	39	1		1	ERCC5	13	103515071	Silent	SNP	G	TCGA-CD-5803-01A-11D-1600-08		103515071	11654807	33	65042											
SPG11	80208	broad.mit.edu	37	chr15	44867122	44867122	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaagatcatacagacagAggacctgtcgacagtagttc	13	8	11	9	1	1	3	1	0	0	3	3	5	1	4	1	2	1	3	1	2	3	3			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr15:44867122A>G	uc001ztx.2	-	31	6015	c.5984T>C	c.(5983-5985)CTC>CCC	p.L1995P	SPG11_uc010bdw.2_Intron|SPG11_uc010ueh.1_Intron|SPG11_uc010uei.1_Missense_Mutation_p.L1995P|SPG11_uc001zty.1_Missense_Mutation_p.L724P	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	1995	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		ATACAGACAGAGGACCTGTCG	0.488													28	151					0	0	0.144211	0	0		G	44867122	G	G	44867122	3	3	109	1	0	0	0	0	1	0	0	0	15066	304	11	3	1387	3	SPG11	15	44867122	Missense_Mutation	SNP	A	TCGA-CD-5803-01A-11D-1600-08		44867122	57664270	34	65043											
MYEF2	50804	broad.mit.edu	37	chr15	48460981	48460981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctattggccttcttacttcCtgtagatttttcctttaagt	6	21	5	9	0	2	1	0	0	2	1	4	1	4	1	3	1	1	1	3	1	4	10			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr15:48460981C>T	uc001zwi.3	-	2	341	c.217G>A	c.(217-219)GGA>AGA	p.G73R	MYEF2_uc001zwj.3_Missense_Mutation_p.G73R|MYEF2_uc001zwl.2_5'UTR	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	73					transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		TTCTTACTTCCTGTAGATTTT	0.363													10	135					0	0	0.058154	0	0		T	48460981	T	T	48460981	3	4	109	1	0	0	0	0	1	0	0	0	10042	690	24	4	1649	4	MYEF2	15	48460981	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08	3593859	48460981	54070411	35	65044											
CHRNA3	1136	broad.mit.edu	37	chr15	78909415	78909416	+	Missense_Mutation	DNP	GC	CT	CT																															gatcttctgtgcagggacacGcatgaactctgccccaccat																										TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr15:78909415_78909416GC>CT	uc002bec.2	-	4	513_514	c.327_328GC>AG	c.(325-330)ATGCGT>ATAGGT	p.109_110MR>IG	CHRNA3_uc002bea.2_RNA|CHRNA3_uc002beb.2_Missense_Mutation_p.109_110MR>IG	NM_000743	NP_000734	P32297	ACHA3_HUMAN	cholinergic receptor, nicotinic, alpha 3	109_110	Extracellular (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|behavioral response to nicotine|locomotory behavior|regulation of acetylcholine secretion|regulation of dendrite morphogenesis|regulation of excitatory postsynaptic membrane potential|regulation of smooth muscle contraction|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|dendrite|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic density|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(3)|ovary(1)	4						GCAGGGACACGCATGAACTCTG	0.559													3	47					0	0	0.115264	0	0		CT	78909416	CT	CT	78909415	3	2	109	1	0	0	0	0	1	0	0	0	3387	1087	38	5	1286	5	CHRNA3	15	78909415	Missense_Mutation	DNP	GC	TCGA-CD-5803-01A-11D-1600-08	30448434	78909415	23621977	36	65045											
SCNN1G	6340	broad.mit.edu	37	chr16	23197794	23197794	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactgccgtggccctcatcCtctggcagtgcgccctcctc	3	10	10	18	2	2	1	1	1	1	0	5	1	4	1	5	2	2	1	5	2	0	0			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr16:23197794C>G	uc002dlm.1	+	2	341	c.202C>G	c.(202-204)CTC>GTC	p.L68V		NM_001039	NP_001030	P51170	SCNNG_HUMAN	sodium channel, nonvoltage-gated 1, gamma	68	Helical; (By similarity).				excretion|sensory perception of taste	apical plasma membrane|integral to plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(48;0.0366)	Amiloride(DB00594)|Triamterene(DB00384)	GGCCCTCATCCTCTGGCAGTG	0.592													15	79					0	0	0.146539	0	0		G	23197794	G	G	23197794	3	3	109	1	0	0	0	0	1	0	0	0	13955	681	24	5	204	5	SCNN1G	16	23197794	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08		23197794	67156959	37	65046											
ADAMTS18	170692	broad.mit.edu	37	chr16	77369692	77369692	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tctcctggaacttgactcctCcaccacatgtccgggaacat	9	10	7	15	1	1	1	0	1	1	0	5	3	4	3	5	2	2	0	5	2	2	1			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr16:77369692C>G	uc002ffc.3	-	12	2239	c.1820G>C	c.(1819-1821)GGA>GCA	p.G607A	ADAMTS18_uc010chc.1_Missense_Mutation_p.G195A|ADAMTS18_uc002ffe.1_Missense_Mutation_p.G303A	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	607	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						CTTGACTCCTCCACCACATGT	0.567													6	285					0	0	0.021553	0	0		G	77369692	G	G	77369692	3	3	109	1	0	0	0	0	1	0	0	0	263	855	30	5	1893	5	ADAMTS18	16	77369692	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08	54171898	77369692	12985061	38	65047											
DSC2	1824	broad.mit.edu	37	chr18	28671077	28671077	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttctcttggcgcgccttaGaactttttctttagtatgtc	5	19	7	10	2	3	1	0	0	3	1	5	1	3	1	1	1	1	1	1	1	4	8			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr18:28671077G>A	uc002kwl.3	-	4	842	c.388C>T	c.(388-390)CTA>TTA	p.L130L	DSC2_uc002kwk.3_Silent_p.L130L	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	130					homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			GCGCGCCTTAGAACTTTTTCT	0.363													8	79					0	0	0.038147	0	0		A	28671077	A	A	28671077	2	1	109	1	0	0	0	0	0	0	0	1	4772	933	33	4		4	DSC2	18	28671077	Silent	SNP	G	TCGA-CD-5803-01A-11D-1600-08		28671077	49406171	39	65048											
TMPRSS9	360200	broad.mit.edu	37	chr19	2389803	2389803	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggagcccactgtggctgAcgtacacctcgtgcccagga	8	7	12	14	2	0	1	0	1	0	0	1	3	0	3	3	3	3	2	3	3	1	1			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr19:2389803A>G	uc010xgx.1	+	1	20	c.20A>G	c.(19-21)GAC>GGC	p.D7G	TMPRSS9_uc002lvv.1_Missense_Mutation_p.D7G	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	7	Cytoplasmic (Potential).				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACTGTGGCTGACGTACACCTC	0.622													5	21					0	0	0.146539	0	0		G	2389803	G	G	2389803	3	3	109	1	0	0	0	0	1	0	0	0	16278	275	10	3	22	3	TMPRSS9	19	2389803	Missense_Mutation	SNP	A	TCGA-CD-5803-01A-11D-1600-08		2389803	56739180	40	65049											
PTPRS	5802	broad.mit.edu	37	chr19	5258067	5258067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgaggagtagcgcacgcCggcgctgttggtggccacac	7	6	17	11	4	0	1	0	1	0	0	0	2	0	2	2	5	1	4	2	5	1	2			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr19:5258067C>T	uc002mbv.2	-	8	901	c.667G>A	c.(667-669)GGC>AGC	p.G223S	PTPRS_uc002mbu.1_Missense_Mutation_p.G214S|PTPRS_uc010xin.1_Missense_Mutation_p.G214S|PTPRS_uc002mbw.2_Missense_Mutation_p.G214S|PTPRS_uc002mbx.2_Missense_Mutation_p.G214S|PTPRS_uc002mby.2_Missense_Mutation_p.G214S	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	223	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		TAGCGCACGCCGGCGCTGTTG	0.617													19	112					0	0	0.055883	0	0		T	5258067	T	T	5258067	3	4	109	1	0	0	0	0	1	0	0	0	12836	652	23	1	5303	1	PTPRS	19	5258067	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08	2868264	5258067	53870916	41	65050											
SLC5A5	6528	broad.mit.edu	37	chr19	18001723	18001723	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcgcagcaccctggccccGggattgttgtggtgggacct	6	8	15	12	2	0	0	0	0	0	0	0	2	0	2	4	4	2	3	4	4	1	2	rs149937279		TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr19:18001723G>A	uc002nhr.3	+	14	2027	c.1680G>A	c.(1678-1680)CCG>CCA	p.P560P		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	560	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						CCCTGGCCCCGGGATTGTTGT	0.602													19	166					0	0	0.076483	0	0		A	18001723	A	A	18001723	2	1	109	1	0	0	0	0	0	0	0	1	14693	1103	39	1		1	SLC5A5	19	18001723	Silent	SNP	G	TCGA-CD-5803-01A-11D-1600-08	12743656	18001723	41127260	42	65051											
ZNF461	92283	broad.mit.edu	37	chr19	37130636	37130636	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggtgactaaaaaataaaTggtaactgaagatttttcta	16	14	8	3	0	1	3	0	2	1	1	1	3	1	3	0	2	1	1	0	2	8	6			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr19:37130636T>A	uc002oem.2	-	6	839	c.611A>T	c.(610-612)CAT>CTT	p.H204L	ZNF461_uc002oen.2_Missense_Mutation_p.H173L|ZNF461_uc010xtj.1_Missense_Mutation_p.H181L	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	204	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AAAAAATAAATGGTAACTGAA	0.299													23	158					0	0	0.062417	0	0		A	37130636	A	A	37130636	3	1	109	1	0	0	0	0	1	0	0	0	17950	1464	51	5	1084	5	ZNF461	19	37130636	Missense_Mutation	SNP	T	TCGA-CD-5803-01A-11D-1600-08	19128913	37130636	21998347	43	65052											
CCDC114	93233	broad.mit.edu	37	chr19	48806042	48806042	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accttgtccatgcgctgctgCaacaccttctgctgctgctc	5	12	8	16	1	1	0	0	0	1	0	3	0	2	0	3	0	7	6	3	0	1	2			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr19:48806042C>A	uc002pir.2	-	10	1721	c.1038G>T	c.(1036-1038)TTG>TTT	p.L346F	CCDC114_uc002piq.2_Missense_Mutation_p.L155F|CCDC114_uc002pio.2_Missense_Mutation_p.L383F|CCDC114_uc002pis.1_Missense_Mutation_p.L26F|CCDC114_uc002pit.1_Missense_Mutation_p.L383F	NM_144577	NP_653178	Q96M63	CC114_HUMAN	coiled-coil domain containing 114 isoform 2	346	Potential.									ovary(1)	1		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000162)|Epithelial(262;0.0134)|GBM - Glioblastoma multiforme(486;0.0143)		TGCGCTGCTGCAACACCTTCT	0.617													25	140					2.12542e-12	2.42372e-12	0.116897	1	0		A	48806042	A	A	48806042	3	1	109	1	0	0	0	0	1	0	0	0	2754	709	25	5	994	5	CCDC114	19	48806042	Missense_Mutation	SNP	C	TCGA-CD-5803-01A-11D-1600-08	11675406	48806042	10322941	44	65053											
ZNF132	7691	broad.mit.edu	37	chr19	58946280	58946280	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagagctcttcataagtgcGtccctgtccttgtaccatct	7	15	7	12	1	3	1	1	0	2	1	5	1	5	1	3	0	3	2	3	0	3	5	rs150467107	byFrequency	TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chr19:58946280G>A	uc002qst.3	-	3	932	c.531C>T	c.(529-531)GAC>GAT	p.D177D		NM_003433	NP_003424	P52740	ZN132_HUMAN	zinc finger protein 132	177						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0171)|Lung(386;0.182)		TCATAAGTGCGTCCCTGTCCT	0.537													21	189					0	0	0.055883	0	0		A	58946280	A	A	58946280	2	1	109	1	0	0	0	0	0	0	0	1	17747	1136	40	1		1	ZNF132	19	58946280	Silent	SNP	G	TCGA-CD-5803-01A-11D-1600-08	10140238	58946280	182703	45	65054											
TLR8	51311	broad.mit.edu	37	chrX	12939190	12939190	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataaatgataatatgttaaaGttttttaactggacattact	16	17	5	3	0	0	1	0	1	0	0	0	2	0	2	0	1	2	2	0	1	8	8			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chrX:12939190G>T	uc004cve.2	+	2	2099	c.2031G>T	c.(2029-2031)AAG>AAT	p.K677N	TLR8_uc004cvd.2_Missense_Mutation_p.K695N	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	677	Extracellular (Potential).|LRR 20.				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						ATATGTTAAAGTTTTTTAACT	0.368													12	233					9.31168e-06	9.60729e-06	0.105934	1	0		T	12939190	T	T	12939190	3	4	109	1	0	0	0	0	1	0	0	0	15982	1020	36	5	2037	5	TLR8	23	12939190	Missense_Mutation	SNP	G	TCGA-CD-5803-01A-11D-1600-08		12939190	142331370	46	65055											
COL4A5	1287	broad.mit.edu	37	chrX	107802349	107802349	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggattgcctggatttccagGtccagaagggcctccggggc	7	8	15	11	1	0	1	0	0	0	1	3	3	3	3	5	6	1	0	5	6	1	2			TCGA-CD-5803-01A-11D-1600-08	TCGA-CD-5803-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1243c079-6330-4100-a59d-7710770aaa84	b68a283f-dd10-44d6-b5c5-594ef218d469	g.chrX:107802349G>T	uc004enz.1	+	3	399	c.197G>T	c.(196-198)GGT>GTT	p.G66V	COL4A5_uc011mso.1_Missense_Mutation_p.G66V	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	66	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						GGATTTCCAGGTCCAGAAGGG	0.468									Alport_syndrome_with_Diffuse_Leiomyomatosis				24	153					4.59853e-10	5.15352e-10	0.108266	1	0		T	107802349	T	T	107802349	3	4	109	1	0	0	0	0	1	0	0	0	3697	1261	44	5	207	5	COL4A5	23	107802349	Missense_Mutation	SNP	G	TCGA-CD-5803-01A-11D-1600-08	94863159	107802349	47468211	47	65056											
KAZ	23254	broad.mit.edu	37	chr1	15386799	15386799	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacacactccctctgcaacGtaaggccagcagcagcgggg	10	4	13	14	2	1	0	0	0	1	0	2	1	2	1	2	4	5	4	2	4	2	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr1:15386799G>A	uc001avm.3	+	6	1328	c.1047_splice	c.e6+1	p.N349_splice	KAZ_uc009vog.1_Splice_Site_p.N349_splice|KAZ_uc010obj.1_Splice_Site_p.N349_splice|KAZ_uc001avo.2_Splice_Site_p.N343_splice|KAZ_uc001avp.2_Splice_Site_p.N255_splice|KAZ_uc001avq.2_Splice_Site_p.N255_splice|KAZ_uc001avr.2_Intron	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E						keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						CCTCTGCAACGTAAGGCCAGC	0.677													22	95					0	0	0.654019	0	0		A	15386799	A	A	15386799	5	1	110	1	0	0	0	0	0	0	1	0	8004	1159	40	1	1282	1	KAZ	1	15386799	Splice_Site	SNP	G	TCGA-CD-5804-01A-12D-2053-08		15386799	233863822	1	65057											
ZYG11B	79699	broad.mit.edu	37	chr1	53262458	53262458	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagctcttcattgtcagggTaagtctataatctcctccat	9	15	7	10	0	5	1	2	1	3	0	7	1	6	1	2	1	1	2	2	1	3	5			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr1:53262458T>C	uc001cuj.2	+	8	1680	c.1485_splice	c.e8+2	p.R495_splice	ZYG11B_uc009vzg.2_Splice_Site|ZYG11B_uc010onj.1_Splice_Site_p.R486_splice|ZYG11B_uc009vzh.2_Splice_Site	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B								protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						ATTGTCAGGGTAAGTCTATAA	0.323													10	58					0	0	0.38729	0	0		C	53262458	C	C	53262458	5	2	110	1	0	0	0	0	0	0	1	0	18278	1652	57	3	1517	3	ZYG11B	1	53262458	Splice_Site	SNP	T	TCGA-CD-5804-01A-12D-2053-08	37875659	53262458	195988163	2	65058											
KIAA0907	22889	broad.mit.edu	37	chr1	155903624	155903624	+	Frame_Shift_Del	DEL	C	-	-																															tggggctggagctggttggtCccatttgctgcggcgcctac																										TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr1:155903624delC	uc001fmi.1	-	2	79	c.55delG	c.(55-57)GACfs	p.D19fs	KIAA0907_uc001fmj.1_Frame_Shift_Del_p.D19fs|KIAA0907_uc009wrk.1_Frame_Shift_Del_p.D19fs|KIAA0907_uc009wrl.1_RNA|KIAA0907_uc001fml.1_Frame_Shift_Del_p.D19fs|KIAA0907_uc001fmm.2_Frame_Shift_Del_p.D19fs|KIAA0907_uc001fmo.2_Frame_Shift_Del_p.D19fs	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	19											0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			GCTGGTTGGTCCCATTTGCTG	0.572													2	4	---	---	---	---						.	-	155903624	-	-	155903624	7	5	110	1	0	1	0	1	0	0	0	0	8215	855	30	0	1841	0	KIAA0907	1	155903624	Frame_Shift_Del	DEL	C	TCGA-CD-5804-01A-12D-2053-08	102641166	155903624	93346997	3	65059											
MNDA	4332	broad.mit.edu	37	chr1	158813155	158813155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcggcacctgcacccaccGcaagaaacaaactgacatcg	13	5	8	15	3	0	2	0	1	0	1	1	2	0	2	3	1	4	3	3	1	3	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr1:158813155G>A	uc001fsz.1	+	3	552	c.352G>A	c.(352-354)GCA>ACA	p.A118T		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	118					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					TGCACCCACCGCAAGAAACAA	0.443													3	20					0	0	0.184627	0	0		A	158813155	A	A	158813155	3	1	110	1	0	0	0	0	1	0	0	0	9694	1087	38	1	358	1	MNDA	1	158813155	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	2909531	158813155	90437466	4	65060											
GPR161	23432	broad.mit.edu	37	chr1	168066199	168066199	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttgcgtgccttgacccTggccacgcggaagatgaagc	8	7	12	14	3	0	3	0	2	0	1	0	4	0	4	4	2	3	0	4	2	2	2			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr1:168066199T>C	uc001gfc.2	-	5	960	c.646A>G	c.(646-648)AGG>GGG	p.R216G	GPR161_uc001gfb.2_Missense_Mutation_p.R84G|GPR161_uc010pll.1_Missense_Mutation_p.R126G|GPR161_uc010plm.1_Missense_Mutation_p.R102G|GPR161_uc009wvo.2_Missense_Mutation_p.R233G|GPR161_uc001gfd.2_Missense_Mutation_p.R216G|GPR161_uc010pln.1_Missense_Mutation_p.R236G|GPR161_uc001gfe.1_Missense_Mutation_p.R216G	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2	216	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)					GCCTTGACCCTGGCCACGCGG	0.612													24	49					0	0	0.639603	0	0		C	168066199	C	C	168066199	3	2	110	1	0	0	0	0	1	0	0	0	6680	1579	55	3	959	3	GPR161	1	168066199	Missense_Mutation	SNP	T	TCGA-CD-5804-01A-12D-2053-08	9253044	168066199	81184422	5	65061											
LAMC1	3915	broad.mit.edu	37	chr1	183094538	183094538	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcctgccttagcctgcaAttgcaatctgtatgggacca	8	13	8	12	0	2	0	0	0	2	0	3	1	3	1	4	1	4	3	4	1	4	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr1:183094538A>C	uc001gpy.3	+	15	2911	c.2654A>C	c.(2653-2655)AAT>ACT	p.N885T		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	885	Laminin EGF-like 9.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTAGCCTGCAATTGCAATCTG	0.428													17	93					0	0	0.557998	0	0		C	183094538	C	C	183094538	3	2	110	1	0	0	0	0	1	0	0	0	8630	101	4	5	2712	5	LAMC1	1	183094538	Missense_Mutation	SNP	A	TCGA-CD-5804-01A-12D-2053-08	15028339	183094538	66156083	6	65062											
MAP4K4	9448	broad.mit.edu	37	chr2	102460728	102460729	+	Frame_Shift_Ins	INS	-	T	T																															aactgctggcagagagacagINSaagcggattgagcagcagaa																										TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr2:102460728_102460729insT	uc002tbg.2	+	12	1243_1244	c.1188_1189insT	c.(1186-1191)CAGAAGfs	p.Q396fs	MAP4K4_uc002tbc.2_Frame_Shift_Ins_p.Q396fs|MAP4K4_uc002tbd.2_Frame_Shift_Ins_p.Q396fs|MAP4K4_uc002tbe.2_Frame_Shift_Ins_p.Q396fs|MAP4K4_uc002tbf.2_Frame_Shift_Ins_p.Q396fs|MAP4K4_uc010yvy.1_Frame_Shift_Ins_p.Q396fs|MAP4K4_uc002tbh.2_Frame_Shift_Ins_p.Q396fs|MAP4K4_uc002tbi.2_Frame_Shift_Ins_p.Q249fs|MAP4K4_uc010yvz.1_Frame_Shift_Ins_p.Q376fs|MAP4K4_uc002tbk.2_5'UTR|MAP4K4_uc002tbj.1_Frame_Shift_Ins_p.Q292fs	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	396_397					intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CAGAGAGACAGAAGCGGATTGA	0.48													2	4	---	---	---	---						.	T	102460729	T	T	102460728	7	5	110	1	0	1	1	0	0	0	0	0	9280	933	33	0	1234	0	MAP4K4	2	102460728	Frame_Shift_Ins	INS	-	TCGA-CD-5804-01A-12D-2053-08		102460728	140738645	7	65063											
MAP2	4133	broad.mit.edu	37	chr2	210560612	210560612	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agagtgaggaagaagagataGaagcccagggagaatatgat	18	5	15	3	0	0	7	0	2	0	5	0	10	0	8	1	2	1	0	1	2	6	2			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr2:210560612G>C	uc002vde.1	+	7	3966	c.3718G>C	c.(3718-3720)GAA>CAA	p.E1240Q	MAP2_uc002vdc.1_Missense_Mutation_p.E1240Q|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.E1236Q	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1240					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	AGAAGAGATAGAAGCCCAGGG	0.493													9	51					0	0	0.361761	0	0		C	210560612	C	C	210560612	3	2	110	1	0	0	0	0	1	0	0	0	9253	943	33	5	3732	5	MAP2	2	210560612	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	108099884	210560612	32638761	8	65064											
IRS1	3667	broad.mit.edu	37	chr2	227662551	227662551	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgctctcagtgcgtgatcGgcgggtcagccccacctggc	5	8	14	14	3	2	1	2	1	1	0	4	2	2	1	3	3	3	1	3	3	0	0			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr2:227662551G>A	uc002voh.3	-	1	956	c.904C>T	c.(904-906)CGA>TGA	p.R302*		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	302	Ser-rich.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GTGCGTGATCGGCGGGTCAGC	0.682											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	74					0	0	0.706142	0	0		A	227662551	A	A	227662551	4	1	110	1	0	0	0	0	0	1	0	0	7856	1124	39	1	2828	1	IRS1	2	227662551	Nonsense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	17101939	227662551	15536822	9	65065											
ANO7	50636	broad.mit.edu	37	chr2	242147068	242147068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctggctgctctccagcGcctgtgccctggcccaggta	3	11	11	16	1	2	0	0	0	2	0	3	0	2	0	4	3	3	3	4	3	1	2	rs137878201		TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr2:242147068G>A	uc002wax.2	+	11	1325	c.1222G>A	c.(1222-1224)GCC>ACC	p.A408T		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	408	Extracellular (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						GCTCTCCAGCGCCTGTGCCCT	0.622													75	89					0	0	0.870114	0	0		A	242147068	A	A	242147068	3	1	110	1	0	0	0	0	1	0	0	0	702	1087	38	1	1336	1	ANO7	2	242147068	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	14484517	242147068	1052305	10	65066											
COL8A1	1295	broad.mit.edu	37	chr3	99513454	99513454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taccaggacctcaaggccttCggggtcctaaaggagacaag	12	6	12	11	1	1	1	1	0	0	1	3	3	2	2	4	5	1	0	4	5	5	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr3:99513454C>T	uc003dtg.1	+	5	954	c.709C>T	c.(709-711)CGG>TGG	p.R237W	COL8A1_uc003dth.1_Missense_Mutation_p.R237W|COL8A1_uc003dti.1_Missense_Mutation_p.R238W	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	237	Triple-helical region (COL1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						TCAAGGCCTTCGGGGTCCTAA	0.632													18	68					0	0	0.592651	0	0		T	99513454	T	T	99513454	3	4	110	1	0	0	0	0	1	0	0	0	3708	875	31	1	715	1	COL8A1	3	99513454	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08		99513454	98508976	11	65067											
C3orf22	152065	broad.mit.edu	37	chr3	126272213	126272213	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcttactctggtgagacttCttgcaggcactggagtccat	7	14	10	10	0	3	1	0	1	3	1	4	3	4	2	1	3	2	2	1	3	1	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr3:126272213C>G	uc003ejb.2	-	2	350	c.21G>C	c.(19-21)AAG>AAC	p.K7N		NM_152533	NP_689746	Q8N5N4	CC022_HUMAN	hypothetical protein LOC152065	7											0				GBM - Glioblastoma multiforme(114;0.147)		GGTGAGACTTCTTGCAGGCAC	0.572													111	143					0	0	0.870114	0	0		G	126272213	G	G	126272213	3	3	110	1	0	0	0	0	1	0	0	0	2218	912	32	5	416	5	C3orf22	3	126272213	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	26758759	126272213	71750217	12	65068											
EHHADH	1962	broad.mit.edu	37	chr3	184911202	184911202	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgctagctggtttttgtcCgagtctacagcaatcacagg	8	13	11	9	1	2	0	1	0	1	0	3	1	3	0	1	2	4	5	1	2	3	5			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr3:184911202C>T	uc003fpf.2	-	7	1011	c.984G>A	c.(982-984)TCG>TCA	p.S328S	EHHADH_uc011brs.1_Silent_p.S232S	NM_001966	NP_001957	Q08426	ECHP_HUMAN	enoyl-Coenzyme A, hydratase/3-hydroxyacyl	328	3-hydroxyacyl-CoA dehydrogenase.					peroxisome	3-hydroxyacyl-CoA dehydrogenase activity|coenzyme binding|dodecenoyl-CoA delta-isomerase activity|enoyl-CoA hydratase activity			ovary(3)	3	all_cancers(143;4.04e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.98e-32)|OV - Ovarian serous cystadenocarcinoma(80;5.55e-21)		NADH(DB00157)	GGTTTTTGTCCGAGTCTACAG	0.463													28	109					0	0	0.750413	0	0		T	184911202	T	T	184911202	2	4	110	1	0	0	0	0	0	0	0	1	4988	639	23	1		1	EHHADH	3	184911202	Silent	SNP	C	TCGA-CD-5804-01A-12D-2053-08	58638989	184911202	13111228	13	65069											
CCKAR	886	broad.mit.edu	37	chr4	26483541	26483541	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcggtgtcgtaggcccGccaggcgttggcgctgaaga	6	6	19	10	5	0	2	0	1	0	1	1	3	0	3	2	6	0	3	2	6	2	2			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr4:26483541G>T	uc003gse.1	-	5	1159	c.1006C>A	c.(1006-1008)CGG>AGG	p.R336R		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	336	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	TCGTAGGCCCGCCAGGCGTTG	0.602													11	50					4.68919e-08	5.0499e-08	0.361761	1	0		T	26483541	T	T	26483541	2	4	110	1	0	0	0	0	0	0	0	1	2883	1086	38	5		5	CCKAR	4	26483541	Silent	SNP	G	TCGA-CD-5804-01A-12D-2053-08		26483541	164670735	14	65070											
LPHN3	23284	broad.mit.edu	37	chr4	62845476	62845476	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctgattgggatcaacCgaactgaccaaccagtaagc	12	9	8	12	1	2	2	1	2	1	0	3	4	3	3	4	1	4	1	4	1	4	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr4:62845476C>T	uc010ihh.2	+	15	2970	c.2797C>T	c.(2797-2799)CGA>TGA	p.R933*	LPHN3_uc003hcq.3_Nonsense_Mutation_p.R933*|LPHN3_uc003hct.2_Nonsense_Mutation_p.R326*	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	920	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						TGGGATCAACCGAACTGACCA	0.443													16	86					0	0	0.539581	0	0		T	62845476	T	T	62845476	4	4	110	1	0	0	0	0	0	1	0	0	8935	644	23	1	2855	1	LPHN3	4	62845476	Nonsense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	36361935	62845476	128308800	15	65071											
AGPAT9	84803	broad.mit.edu	37	chr4	84502749	84502749	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgagtcacccatggaaaaAgggctctctggtctacgagg	11	8	13	9	1	3	1	1	1	2	0	4	4	3	2	1	4	1	1	1	4	3	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr4:84502749A>G	uc003how.2	+	4	461	c.243A>G	c.(241-243)AAA>AAG	p.K81K	AGPAT9_uc003hox.2_Silent_p.K81K|AGPAT9_uc003hoy.2_Silent_p.K81K	NM_032717	NP_116106	Q53EU6	GPAT3_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 9	81					phospholipid biosynthetic process|regulation of TOR signaling cascade|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	glycerol-3-phosphate O-acyltransferase activity			skin(1)	1		Hepatocellular(203;0.114)				CCATGGAAAAAGGGCTCTCTG	0.433													3	94					0	0	0.150653	0	0		G	84502749	G	G	84502749	2	3	110	1	0	0	0	0	0	0	0	1	392	69	3	3		3	AGPAT9	4	84502749	Silent	SNP	A	TCGA-CD-5804-01A-12D-2053-08	21657273	84502749	106651527	16	65072											
DNAH5	1767	broad.mit.edu	37	chr5	13753603	13753603	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttaacagaagatcacgaaaCtcttggttaaatggaccaga	16	10	8	7	1	2	3	1	0	1	3	2	5	2	4	1	2	2	1	1	2	5	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr5:13753603C>A	uc003jfd.2	-	63	10653	c.10611G>T	c.(10609-10611)GAG>GAT	p.E3537D	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3537					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GATCACGAAACTCTTGGTTAA	0.383									Kartagener_syndrome				20	126					9.57634e-11	1.05152e-10	0.654019	1	0		A	13753603	A	A	13753603	3	1	110	1	0	0	0	0	1	0	0	0	4610	564	20	5	3331	5	DNAH5	5	13753603	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08		13753603	167161657	17	65073											
DNAH5	1767	broad.mit.edu	37	chr5	13844951	13844951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagaattaggcgaaccttttCgtggaacttgacagatttaa	13	13	9	6	2	0	3	0	1	0	2	1	5	0	4	1	2	2	0	1	2	6	7	rs116524991	byFrequency	TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr5:13844951C>T	uc003jfd.2	-	32	5308	c.5266G>A	c.(5266-5268)GAA>AAA	p.E1756K		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1756	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CGAACCTTTTCGTGGAACTTG	0.463									Kartagener_syndrome				20	175					0	0	0.717897	0	0		T	13844951	T	T	13844951	3	4	110	1	0	0	0	0	1	0	0	0	4610	893	31	1	8800	1	DNAH5	5	13844951	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	91348	13844951	167070309	18	65074											
CDH10	1008	broad.mit.edu	37	chr5	24509821	24509821	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttctatagagattttcacTatggtagtatctttaaatgg	11	18	7	5	0	4	1	1	0	3	1	4	2	4	1	0	2	0	2	0	2	7	10			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr5:24509821T>C	uc003jgr.1	-	7	1442	c.1110A>G	c.(1108-1110)ATA>ATG	p.I370M	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	370	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AGATTTTCACTATGGTAGTAT	0.383										HNSCC(23;0.051)			5	64					0	0	0.184627	0	0		C	24509821	C	C	24509821	3	2	110	1	0	0	0	0	1	0	0	0	3099	1512	53	3	1280	3	CDH10	5	24509821	Missense_Mutation	SNP	T	TCGA-CD-5804-01A-12D-2053-08	10664870	24509821	156405439	19	65075											
C5orf20	140947	broad.mit.edu	37	chr5	134782298	134782298	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagaaaaatgaagtctcGgatgggcagagcttaactgc	14	8	11	8	1	2	3	1	1	1	2	3	4	2	4	0	2	3	2	0	2	5	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr5:134782298G>A	uc003lav.2	-	1	741	c.501C>T	c.(499-501)TCC>TCT	p.S167S		NM_130848	NP_570900	Q8TF63	DCNP1_HUMAN	dendritic cell nuclear protein 1	167	Ser-rich.					nucleus					0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ATGAAGTCTCGGATGGGCAGA	0.473													19	61					0	0	0.608945	0	0		A	134782298	A	A	134782298	2	1	110	1	0	0	0	0	0	0	0	1	2287	1103	39	1		1	C5orf20	5	134782298	Silent	SNP	G	TCGA-CD-5804-01A-12D-2053-08	110272477	134782298	46132962	20	65076											
PCDHA6	56142	broad.mit.edu	37	chr5	140207815	140207815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacggcaccttcgtgggcCggatcgcgcaggacctgggg	7	5	16	13	5	0	0	0	0	0	0	2	2	0	2	3	6	1	2	3	6	1	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr5:140207815C>T	uc003lho.2	+	1	166	c.139C>T	c.(139-141)CGG>TGG	p.R47W	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.R47W|PCDHA6_uc011dab.1_Missense_Mutation_p.R47W	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	47	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTCGTGGGCCGGATCGCGCA	0.662													15	74					0	0	0.520397	0	0		T	140207815	T	T	140207815	3	4	110	1	0	0	0	0	1	0	0	0	11547	643	23	1	141	1	PCDHA6	5	140207815	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	5425517	140207815	40707445	21	65077											
PCDHB10	56126	broad.mit.edu	37	chr5	140573466	140573466	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctccgacgtcaatgacaaCgcccccgccttcacccaaac	10	6	6	19	4	3	1	2	1	1	0	4	2	3	1	5	0	2	0	5	0	3	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr5:140573466C>T	uc003lix.2	+	1	1515	c.1341C>T	c.(1339-1341)AAC>AAT	p.N447N		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	447	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCAATGACAACGCCCCCGCCT	0.597													28	96					0	0	0.847076	0	0		T	140573466	T	T	140573466	2	4	110	1	0	0	0	0	0	0	0	1	11554	535	19	1		1	PCDHB10	5	140573466	Silent	SNP	C	TCGA-CD-5804-01A-12D-2053-08	365651	140573466	40341794	22	65078											
PCDHB14	56122	broad.mit.edu	37	chr5	140604275	140604275	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaaccgaccttcaagaacTttttcactctagtttctgaa	12	14	5	10	1	4	3	2	2	2	1	4	4	4	3	2	0	2	1	2	0	5	5			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr5:140604275T>A	uc003ljb.2	+	1	1198	c.1198T>A	c.(1198-1200)TTT>ATT	p.F400I	PCDHB14_uc011dal.1_Missense_Mutation_p.F247I	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	400	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTTCAAGAACTTTTTCACTCT	0.448													21	102					0	0	0.639603	0	0		A	140604275	A	A	140604275	3	1	110	1	0	0	0	0	1	0	0	0	11558	1609	56	5	1200	5	PCDHB14	5	140604275	Missense_Mutation	SNP	T	TCGA-CD-5804-01A-12D-2053-08	30809	140604275	40310985	23	65079											
STK32A	202374	broad.mit.edu	37	chr5	146752830	146752830	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgggatgcagtttttcagaaGaggctcattccaggtttcat	9	14	11	7	0	3	2	3	0	0	2	4	3	4	3	1	3	1	4	1	3	1	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr5:146752830G>C	uc010jgn.1	+	10	1156	c.876G>C	c.(874-876)AAG>AAC	p.K292N	STK32A_uc003lom.2_Missense_Mutation_p.K292N|STK32A_uc011dbw.1_Missense_Mutation_p.K292N	NM_001112724	NP_001106195	Q8WU08	ST32A_HUMAN	serine/threonine kinase 32A isoform 1	292							ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTTTCAGAAGAGGCTCATTC	0.303													8	62					0	0	0.27861	0	0		C	146752830	C	C	146752830	3	2	110	1	0	0	0	0	1	0	0	0	15322	933	33	5	943	5	STK32A	5	146752830	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	6148555	146752830	34162430	24	65080											
GPX6	257202	broad.mit.edu	37	chr6	28478622	28478622	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattggatgtactcctcgccGttgagggtgagggctccata	8	11	13	9	2	0	2	0	2	0	0	3	3	2	3	3	3	1	3	3	3	3	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr6:28478622G>A	uc011dlj.1	-	2	197	c.147C>T	c.(145-147)AAC>AAT	p.N49N	GPX6_uc010jrg.1_RNA	NM_182701	NP_874360	P59796	GPX6_HUMAN	glutathione peroxidase 6 precursor	49					response to oxidative stress	extracellular region	glutathione peroxidase activity			ovary(3)|pancreas(1)|skin(1)	5					Glutathione(DB00143)	ACTCCTCGCCGTTGAGGGTGA	0.458													9	63					0	0	0.335167	0	0		A	28478622	A	A	28478622	2	1	110	1	0	0	0	0	0	0	0	1	6760	1136	40	1		1	GPX6	6	28478622	Silent	SNP	G	TCGA-CD-5804-01A-12D-2053-08		28478622	142636445	25	65081											
PRIM2	5558	broad.mit.edu	37	chr6	57512667	57512667	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctctctggaaatggatatgGaaggactagaggattacttt	12	12	11	6	0	1	1	0	0	1	1	2	6	1	6	1	5	1	0	1	5	5	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr6:57512667G>T	uc003pdx.2	+	15	1582	c.1495G>T	c.(1495-1497)GAA>TAA	p.E499*		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	499					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		AATGGATATGGAAGGACTAGA	0.388													18	430					1.2644e-06	1.33597e-06	0.592651	1	0		T	57512667	T	T	57512667	4	4	110	1	0	0	0	0	0	1	0	0	12513	1175	41	5	1545	5	PRIM2	6	57512667	Nonsense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	29034045	57512667	113602400	26	65082											
BAI3	577	broad.mit.edu	37	chr6	70070788	70070788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaggatattggtccttgccGagcagccacaataacaggaa	14	8	10	9	1	0	0	0	0	0	0	1	3	1	2	3	3	4	1	3	3	5	5	rs144968426		TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr6:70070788G>A	uc003pev.3	+	29	4071	c.3623G>A	c.(3622-3624)CGA>CAA	p.R1208Q	BAI3_uc010kak.2_Missense_Mutation_p.R1208Q|BAI3_uc011dxx.1_Missense_Mutation_p.R414Q	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1208	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				GGTCCTTGCCGAGCAGCCACA	0.358													8	92					0	0	0.361761	0	0		A	70070788	A	A	70070788	3	1	110	1	0	0	0	0	1	0	0	0	1301	1058	37	1	3729	1	BAI3	6	70070788	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	12558121	70070788	101044279	27	65083											
COL12A1	1303	broad.mit.edu	37	chr6	75828817	75828817	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggaccgaccgtccgtGaccacaaccaacaccttagg	10	6	9	16	3	0	1	0	1	0	0	2	3	2	2	7	2	2	0	7	2	3	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr6:75828817G>T	uc003phs.2	-	46	7462	c.7296C>A	c.(7294-7296)GTC>GTA	p.V2432V	COL12A1_uc003pht.2_Silent_p.V1268V	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2432	VWFA 4.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GACCGTCCGTGACCACAACCA	0.493													8	47					0.00829132	0.00836601	0.361761	1	0		T	75828817	T	T	75828817	2	4	110	1	0	0	0	0	0	0	0	1	3672	1277	45	5		5	COL12A1	6	75828817	Silent	SNP	G	TCGA-CD-5804-01A-12D-2053-08	5758029	75828817	95286250	28	65084											
LAMA4	3910	broad.mit.edu	37	chr6	112499358	112499358	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatatcatgggcttgctctAccagctgacttgcgtggtta	7	14	10	10	1	3	1	2	1	1	0	3	1	3	1	1	2	4	4	1	2	3	5			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr6:112499358A>G	uc003pvu.2	-	10	1463	c.1154T>C	c.(1153-1155)GTA>GCA	p.V385A	LAMA4_uc003pvv.2_Missense_Mutation_p.V378A|LAMA4_uc003pvt.2_Missense_Mutation_p.V378A	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	385	Potential.|Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		GGCTTGCTCTACCAGCTGACT	0.378													10	44					0	0	0.361761	0	0		G	112499358	G	G	112499358	3	3	110	1	0	0	0	0	1	0	0	0	8624	391	14	3	4437	3	LAMA4	6	112499358	Missense_Mutation	SNP	A	TCGA-CD-5804-01A-12D-2053-08	36670541	112499358	58615709	29	65085											
WBSCR17	64409	broad.mit.edu	37	chr7	70800611	70800611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttccggctactctttcccCggctgaagaagaaaaggcta	10	9	9	13	2	1	3	0	1	1	2	3	3	3	3	4	3	1	3	4	3	6	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr7:70800611C>T	uc003tvy.2	+	2	314	c.314C>T	c.(313-315)CCG>CTG	p.P105L	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	105	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				ACTCTTTCCCCGGCTGAAGAA	0.473													13	47					0	0	0.435327	0	0		T	70800611	T	T	70800611	3	4	110	1	0	0	0	0	1	0	0	0	17290	652	23	1	320	1	WBSCR17	7	70800611	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08		70800611	88338052	30	65086											
AP4M1	9179	broad.mit.edu	37	chr7	99699356	99699356	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgatttcccaattcttcAttctgtcctccaagggggac	8	13	7	13	0	3	1	1	1	2	0	6	2	6	2	4	2	0	0	4	2	2	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr7:99699356A>G	uc003utb.3	+	1	227	c.19A>G	c.(19-21)ATT>GTT	p.I7V	MCM7_uc003usv.1_5'Flank|MCM7_uc003usw.1_5'UTR|MCM7_uc003usx.1_5'UTR|AP4M1_uc011kjg.1_Missense_Mutation_p.I7V|AP4M1_uc010lgl.1_Missense_Mutation_p.I7V|AP4M1_uc003utc.3_Missense_Mutation_p.I7V|AP4M1_uc010lgm.2_5'UTR|AP4M1_uc003utd.2_Missense_Mutation_p.I7V|AP4M1_uc011kjh.1_5'Flank|AP4M1_uc003ute.3_5'Flank|AP4M1_uc003utf.3_5'Flank	NM_004722	NP_004713	O00189	AP4M1_HUMAN	adaptor-related protein complex 4, mu 1 subunit	7					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|coated pit|Golgi trans cisterna	transporter activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CCAATTCTTCATTCTGTCCTC	0.632													17	51					0	0	0.575678	0	0		G	99699356	G	G	99699356	3	3	110	1	0	0	0	0	1	0	0	0	753	217	8	3	21	3	AP4M1	7	99699356	Missense_Mutation	SNP	A	TCGA-CD-5804-01A-12D-2053-08	28898745	99699356	59439307	31	65087											
MOGAT3	346606	broad.mit.edu	37	chr7	100842085	100842085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcacgtagttccgatcCgggggcagctctgctgtttt	5	11	12	13	3	1	0	0	0	1	0	3	1	3	0	3	2	3	7	3	2	1	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr7:100842085C>T	uc003uyc.2	-	4	482	c.315G>A	c.(313-315)CCG>CCA	p.P105P	MOGAT3_uc010lhr.2_Silent_p.P105P	NM_178176	NP_835470	Q86VF5	MOGT3_HUMAN	monoacylglycerol O-acyltransferase 3	105					glycerol metabolic process|lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity|diacylglycerol O-acyltransferase activity			ovary(2)	2	Lung NSC(181;0.168)|all_lung(186;0.215)					AGTTCCGATCCGGGGGCAGCT	0.587													14	112					0	0	0.539581	0	0		T	100842085	T	T	100842085	2	4	110	1	0	0	0	0	0	0	0	1	9714	639	23	1		1	MOGAT3	7	100842085	Silent	SNP	C	TCGA-CD-5804-01A-12D-2053-08	1142729	100842085	58296578	32	65088											
TMEM140	55281	broad.mit.edu	37	chr7	134849342	134849342	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacctgagaatcggcttctAtaacttctgcctgtggaatg	10	12	9	10	1	2	1	0	1	2	1	3	3	2	2	2	2	3	1	2	2	5	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr7:134849342A>G	uc003vsi.2	+	2	430	c.149A>G	c.(148-150)TAT>TGT	p.Y50C	C7orf49_uc003vsh.2_Intron	NM_018295	NP_060765	Q9NV12	TM140_HUMAN	transmembrane protein 140	50	Extracellular (Potential).					integral to membrane				large_intestine(1)	1						ATCGGCTTCTATAACTTCTGC	0.572													19	98					0	0	0.592651	0	0		G	134849342	G	G	134849342	3	3	110	1	0	0	0	0	1	0	0	0	16080	449	16	3	151	3	TMEM140	7	134849342	Missense_Mutation	SNP	A	TCGA-CD-5804-01A-12D-2053-08	34007257	134849342	24289321	33	65089											
CNTNAP2	26047	broad.mit.edu	37	chr7	147092772	147092772	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaggatgcatgcagctcAttcaagtggacgatcaactt	12	10	9	10	1	3	0	3	0	0	0	4	3	4	2	1	2	4	3	1	2	3	2			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr7:147092772A>C	uc003weu.1	+	10	2086	c.1570A>C	c.(1570-1572)ATT>CTT	p.I524L		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	524	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CATGCAGCTCATTCAAGTGGA	0.428										HNSCC(39;0.1)			39	181					0	0	0.840704	0	0		C	147092772	C	C	147092772	3	2	110	1	0	0	0	0	1	0	0	0	3650	217	8	5	1608	5	CNTNAP2	7	147092772	Missense_Mutation	SNP	A	TCGA-CD-5804-01A-12D-2053-08	12243430	147092772	12045891	34	65090											
PXDNL	137902	broad.mit.edu	37	chr8	52721826	52721826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcttaaagcaaaggcaccGgctggggcagggcaaccctg	10	5	14	12	1	1	0	0	0	1	0	1	0	1	0	2	5	2	6	2	5	4	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr8:52721826G>A	uc003xqu.3	-	1	180	c.79C>T	c.(79-81)CGG>TGG	p.R27W		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	27	LRRNT.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CAAAGGCACCGGCTGGGGCAG	0.582													3	12					0	0	0.115264	0	0		A	52721826	A	A	52721826	3	1	110	1	0	0	0	0	1	0	0	0	12873	1115	39	1	4404	1	PXDNL	8	52721826	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08		52721826	93642196	35	65091											
CHD7	55636	broad.mit.edu	37	chr8	61757606	61757606	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggatggccagactcgagcCttggtcaaccattccggtag	8	8	13	12	3	1	1	1	0	0	1	3	3	2	2	4	4	2	1	4	4	2	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr8:61757606C>T	uc003xue.2	+	22	5511	c.5034C>T	c.(5032-5034)GCC>GCT	p.A1678A		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1678					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			AGACTCGAGCCTTGGTCAACC	0.478													38	187					0	0	0.864702	0	0		T	61757606	T	T	61757606	2	4	110	1	0	0	0	0	0	0	0	1	3333	668	24	4		4	CHD7	8	61757606	Silent	SNP	C	TCGA-CD-5804-01A-12D-2053-08	9035780	61757606	84606416	36	65092											
TTPA	7274	broad.mit.edu	37	chr8	63973833	63973833	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgaatgctctcagaaatgCtgctgagataatcttcagac	13	12	8	8	0	3	4	2	2	2	3	4	5	3	4	0	0	3	3	0	0	3	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr8:63973833C>A	uc003xux.1	-	5	847	c.815G>T	c.(814-816)AGC>ATC	p.S272I		NM_000370	NP_000361	P49638	TTPA_HUMAN	tocopherol (alpha) transfer protein	272					lipid metabolic process		transporter activity|vitamin E binding				0	Breast(64;0.0716)	all_cancers(86;0.145)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.123)			Vitamin E(DB00163)	CTCAGAAATGCTGCTGAGATA	0.358													10	58					0.000151284	0.000155448	0.435327	1	0		A	63973833	A	A	63973833	3	1	110	1	0	0	0	0	1	0	0	0	16762	797	28	5	25	5	TTPA	8	63973833	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	2216227	63973833	82390189	37	65093											
VCPIP1	80124	broad.mit.edu	37	chr8	67578740	67578740	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagttcgccctggttcaTgtcccggagaagcttggccc	7	9	12	13	2	1	1	1	0	0	1	3	3	2	1	3	3	2	3	3	3	2	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr8:67578740T>A	uc003xwn.2	-	1	713	c.454A>T	c.(454-456)ATG>TTG	p.M152L	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	152					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			CCCTGGTTCATGTCCCGGAGA	0.542													21	97					0	0	0.592651	0	0		A	67578740	A	A	67578740	3	1	110	1	0	0	0	0	1	0	0	0	17167	1464	51	5	3226	5	VCPIP1	8	67578740	Missense_Mutation	SNP	T	TCGA-CD-5804-01A-12D-2053-08	3604907	67578740	78785282	38	65094											
LINGO2	158038	broad.mit.edu	37	chr9	27949433	27949433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgctgcaacttcttttcacGgattttgggttttttgcagg	6	18	10	7	1	2	0	1	0	1	0	2	1	2	1	0	3	4	4	0	3	1	8			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr9:27949433G>A	uc003zqu.1	-	2	1431	c.1237C>T	c.(1237-1239)CGT>TGT	p.R413C	LINGO2_uc010mjf.1_Missense_Mutation_p.R413C|LINGO2_uc003zqv.1_Missense_Mutation_p.R413C	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	413	Ig-like C2-type.|Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		TTCTTTTCACGGATTTTGGGT	0.488													15	60					0	0	0.500413	0	0		A	27949433	A	A	27949433	3	1	110	1	0	0	0	0	1	0	0	0	8832	1116	39	1	587	1	LINGO2	9	27949433	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08		27949433	113263998	39	65095											
ANKRD20A3	441425	broad.mit.edu	37	chr9	42368565	42368565	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgacgccgcggaggtggagCgctgcttggcgcgcaggagc	5	4	20	12	7	0	0	0	0	0	0	0	4	0	3	1	5	3	3	1	5	0	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr9:42368565C>T	uc004acd.2	+	1	263	c.151C>T	c.(151-153)CGC>TGC	p.R51C	ANKRD20A3_uc010mmv.2_Missense_Mutation_p.R51C	NM_001012419	NP_001012419	Q5VUR7	A20A3_HUMAN	ankyrin repeat domain 20 family, member A3	51											0						GGAGGTGGAGCGCTGCTTGGC	0.682													5	73					0	0	0.307466	0	0		T	42368565	T	T	42368565	3	4	110	1	0	0	0	0	1	0	0	0	649	768	27	1	153	1	ANKRD20A3	9	42368565	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	14419132	42368565	98844866	40	65096											
CDK20	23552	broad.mit.edu	37	chr9	90584120	90584120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccccctaccttggaagctgCgatgcgctggtgaggagggt	6	9	15	11	2	0	1	0	1	0	0	1	4	1	3	3	4	4	2	3	4	2	2			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr9:90584120C>T	uc004apr.2	-	7	1138	c.832G>A	c.(832-834)GCA>ACA	p.A278T	CDK20_uc004aps.2_Missense_Mutation_p.A257T|CDK20_uc004apt.2_Missense_Mutation_p.A270T|CDK20_uc004apu.2_Silent_p.S215S	NM_001039803	NP_001034892	Q8IZL9	CDK20_HUMAN	cell cycle related kinase isoform 3	278	Protein kinase.				cell division|multicellular organismal development	cilium|mitochondrion|nucleus	ATP binding|cyclin-dependent protein kinase activity			skin(1)	1						TTGGAAGCTGCGATGCGCTGG	0.602													41	175					0	0	0.864702	0	0		T	90584120	T	T	90584120	3	4	110	1	0	0	0	0	1	0	0	0	3140	768	27	1	216	1	CDK20	9	90584120	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	48215555	90584120	50629311	41	65097											
WNK2	65268	broad.mit.edu	37	chr9	96061535	96061535	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgatggaggcggagcgcGtggccaaggtgatttccagc	8	7	17	9	3	0	2	0	2	0	0	1	4	1	4	2	5	2	0	2	5	1	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr9:96061535G>A	uc004ati.1	+	25	6218	c.6218G>A	c.(6217-6219)CGT>CAT	p.R2073H	WNK2_uc011lud.1_Missense_Mutation_p.R2036H|WNK2_uc004atj.2_Missense_Mutation_p.R2036H|WNK2_uc004atk.2_Intron|WNK2_uc004atl.1_Missense_Mutation_p.R630H	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	2073					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						GGCGGAGCGCGTGGCCAAGGT	0.647													5	45					0	0	0.248553	0	0		A	96061535	A	A	96061535	3	1	110	1	0	0	0	0	1	0	0	0	17404	1145	40	1	6201	1	WNK2	9	96061535	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	5477415	96061535	45151896	42	65098											
COL15A1	1306	broad.mit.edu	37	chr9	101824554	101824554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactgatccccattcctgccGacagccctccaccccctgcg	7	7	6	21	2	0	1	0	1	0	0	3	2	3	1	8	0	4	0	8	0	1	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr9:101824554G>A	uc004azb.1	+	38	3765	c.3559G>A	c.(3559-3561)GAC>AAC	p.D1187N		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1187	Nonhelical region 10 (NC10).			Missing (in Ref. 2; AAC78500).	angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				CATTCCTGCCGACAGCCCTCC	0.438													14	89					0	0	0.479597	0	0		A	101824554	A	A	101824554	3	1	110	1	0	0	0	0	1	0	0	0	3675	1058	37	1	3709	1	COL15A1	9	101824554	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	5763019	101824554	39388877	43	65099											
IKBKAP	8518	broad.mit.edu	37	chr9	111642444	111642444	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatgccatataatttttctgGgctggagatgcagaatggaa	13	12	11	5	0	1	2	0	0	1	2	1	4	1	3	1	3	2	2	1	3	5	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr9:111642444G>A	uc004bdm.3	-	32	3868	c.3348C>T	c.(3346-3348)GCC>GCT	p.A1116A	IKBKAP_uc004bdl.2_Silent_p.A767A|IKBKAP_uc011lwc.1_Silent_p.A1002A|IKBKAP_uc010mtq.2_Silent_p.A767A|IKBKAP_uc004bdk.2_Silent_p.A120A|IKBKAP_uc010mtp.2_RNA	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	1116					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						AATTTTTCTGGGCTGGAGATG	0.438													7	48					0	0	0.27861	0	0		A	111642444	A	A	111642444	2	1	110	1	0	0	0	0	0	0	0	1	7626	1246	43	4		4	IKBKAP	9	111642444	Silent	SNP	G	TCGA-CD-5804-01A-12D-2053-08	9817890	111642444	29570987	44	65100											
HSDL2	84263	broad.mit.edu	37	chr9	115221775	115221775	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatctgaaaagcaagggtggGaatgtcggatatggagagcc	13	7	16	5	1	1	2	0	1	1	1	2	6	1	4	1	4	2	1	1	4	5	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr9:115221775G>T	uc004bga.1	+	10	1155	c.1062G>T	c.(1060-1062)GGG>GGT	p.G354G	HSDL2_uc011lwv.1_Silent_p.G233G|HSDL2_uc004bgb.1_Silent_p.G188G|HSDL2_uc004bgc.1_Silent_p.G281G|HSDL2_uc011lww.1_Silent_p.G149G	NM_032303	NP_115679	Q6YN16	HSDL2_HUMAN	hydroxysteroid dehydrogenase like 2	354	SCP2.					peroxisome	oxidoreductase activity|sterol binding				0						GCAAGGGTGGGAATGTCGGAT	0.398													23	121					1.12875e-08	1.22738e-08	0.706142	1	0		T	115221775	T	T	115221775	2	4	110	1	0	0	0	0	0	0	0	1	7410	1161	41	5		5	HSDL2	9	115221775	Silent	SNP	G	TCGA-CD-5804-01A-12D-2053-08	3579331	115221775	25991656	45	65101											
PAPPA	5069	broad.mit.edu	37	chr9	119106854	119106854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcatgtgagaaaactgactGtccagagctggctgtggaga	11	8	14	8	1	0	4	0	2	0	3	1	6	1	4	1	2	2	3	1	2	2	0			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr9:119106854G>A	uc004bjn.2	+	14	4025	c.3644G>A	c.(3643-3645)TGT>TAT	p.C1215Y	PAPPA_uc011lxq.1_Missense_Mutation_p.C590Y	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1215	Sushi 1.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						AAAACTGACTGTCCAGAGCTG	0.557													4	162					0	0	0.217242	0	0		A	119106854	A	A	119106854	3	1	110	1	0	0	0	0	1	0	0	0	11451	1377	48	4	3698	4	PAPPA	9	119106854	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	3885079	119106854	22106577	46	65102											
UBAC1	10422	broad.mit.edu	37	chr9	138838155	138838155	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccactgcatctgggttcagCgctaacagcttctgcgccac	7	10	9	15	2	3	0	1	0	2	0	4	0	4	0	2	1	5	4	2	1	1	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr9:138838155C>T	uc004cgt.2	-	5	722	c.504G>A	c.(502-504)GCG>GCA	p.A168A	UBAC1_uc004cgs.1_Silent_p.A168A|UBAC1_uc004cgu.2_RNA	NM_016172	NP_057256	Q9BSL1	UBAC1_HUMAN	ubiquitin associated domain containing 1	168						Golgi apparatus|plasma membrane	protein binding			skin(2)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.1e-06)|Epithelial(140;7.79e-06)		CTGGGTTCAGCGCTAACAGCT	0.512													19	85					0	0	0.624587	0	0		T	138838155	T	T	138838155	2	4	110	1	0	0	0	0	0	0	0	1	16860	755	27	1		1	UBAC1	9	138838155	Silent	SNP	C	TCGA-CD-5804-01A-12D-2053-08	19731301	138838155	2375276	47	65103											
PRKCQ	5588	broad.mit.edu	37	chr10	6520982	6520982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgtacaaaacatgtgcGtcagaaacggatgctcccag	14	7	11	9	2	1	1	1	0	0	1	2	3	2	3	1	2	5	2	1	2	5	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr10:6520982G>A	uc001ijj.1	-	12	1400	c.1325C>T	c.(1324-1326)ACG>ATG	p.T442M	PRKCQ_uc009xim.1_Missense_Mutation_p.T442M|PRKCQ_uc001iji.1_Missense_Mutation_p.T475M|PRKCQ_uc009xin.1_Missense_Mutation_p.T406M|PRKCQ_uc010qax.1_Missense_Mutation_p.T317M	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	442	Protein kinase.				axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						AAACATGTGCGTCAGAAACGG	0.498													14	51					0	0	0.520397	0	0		A	6520982	A	A	6520982	3	1	110	1	0	0	0	0	1	0	0	0	12537	1145	40	1	823	1	PRKCQ	10	6520982	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08		6520982	129013765	48	65104											
COL17A1	1308	broad.mit.edu	37	chr10	105819938	105819938	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtccttggtcatgatgagCagctccatctccttcttggc	5	14	9	13	0	3	2	1	2	2	0	6	2	5	2	3	2	2	2	3	2	0	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr10:105819938C>A	uc001kxr.2	-	14	1249	c.1080G>T	c.(1078-1080)CTG>CTT	p.L360L	COL17A1_uc010qqv.1_Silent_p.L344L	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	360	Cytoplasmic (Potential).|Nonhelical region (NC16).				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TCATGATGAGCAGCTCCATCT	0.532													15	93					2.23348e-06	2.33785e-06	0.500413	1	0		A	105819938	A	A	105819938	2	1	110	1	0	0	0	0	0	0	0	1	3677	697	25	5		5	COL17A1	10	105819938	Silent	SNP	C	TCGA-CD-5804-01A-12D-2053-08	99298956	105819938	29714809	49	65105											
SORCS3	22986	broad.mit.edu	37	chr10	106970990	106970990	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactgcagccttggtcaaaGctaccttaacagcactgggt	10	9	11	11	0	1	0	1	0	0	0	1	1	1	1	2	3	6	3	2	3	3	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr10:106970990G>T	uc001kyi.1	+	17	2584	c.2357G>T	c.(2356-2358)AGC>ATC	p.S786I	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	786	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		CTTGGTCAAAGCTACCTTAAC	0.473													13	31					9.05144e-12	1.01376e-11	0.435327	1	0		T	106970990	T	T	106970990	3	4	110	1	0	0	0	0	1	0	0	0	14957	971	34	5	2423	5	SORCS3	10	106970990	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	1151052	106970990	28563757	50	65106											
PWWP2B	170394	broad.mit.edu	37	chr10	134219292	134219292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcagcgacagcctggacGaggccagatcgtccggctcg	8	4	15	14	5	0	1	0	0	0	1	3	4	1	2	3	3	3	3	3	3	0	0			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr10:134219292G>A	uc001lll.3	+	2	1317	c.1288G>A	c.(1288-1290)GAG>AAG	p.E430K	PWWP2B_uc009ybe.2_Missense_Mutation_p.E430K	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	430											0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		CAGCCTGGACGAGGCCAGATC	0.697													12	19					0	0	0.457914	0	0		A	134219292	A	A	134219292	3	1	110	1	0	0	0	0	1	0	0	0	12871	1059	37	1	1294	1	PWWP2B	10	134219292	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	27248302	134219292	1315455	51	65107											
NLRP6	171389	broad.mit.edu	37	chr11	281566	281566	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccagaggaggaggaggAgggagaggagcccaactacc	14	1	18	8	0	0	3	0	0	0	3	0	9	0	8	3	6	4	0	3	6	2	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr11:281566A>G	uc010qvs.1	+	4	1832	c.1832A>G	c.(1831-1833)GAG>GGG	p.E611G	NLRP6_uc010qvt.1_Missense_Mutation_p.E611G	NM_138329	NP_612202	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	611	Poly-Glu.					cytoplasm	ATP binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.28e-28)|Epithelial(43;2.47e-27)|OV - Ovarian serous cystadenocarcinoma(40;4.66e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.0485)|LUSC - Lung squamous cell carcinoma(625;0.122)		GAGGAGGAGGAGGGAGAGGAG	0.662													4	114					0	0	0.184627	0	0		G	281566	G	G	281566	3	3	110	1	0	0	0	0	1	0	0	0	10500	304	11	3	1846	3	NLRP6	11	281566	Missense_Mutation	SNP	A	TCGA-CD-5804-01A-12D-2053-08		281566	134724950	52	65108											
MICALCL	84953	broad.mit.edu	37	chr11	12316180	12316180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcacttttttcctccctcaGactcaaagacaaatcttttg	10	15	3	13	0	4	2	3	0	1	2	6	2	6	2	2	0	0	0	2	0	2	5			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr11:12316180G>A	uc001mkg.1	+	3	1493	c.1202G>A	c.(1201-1203)AGA>AAA	p.R401K		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	401					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		TCCTCCCTCAGACTCAAAGAC	0.463													23	108					0	0	0.654019	0	0		A	12316180	A	A	12316180	3	1	110	1	0	0	0	0	1	0	0	0	9590	942	33	4	1208	4	MICALCL	11	12316180	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	12034614	12316180	122690336	53	65109											
ANO3	63982	broad.mit.edu	37	chr11	26552873	26552873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccccttcagccgtgcaCggattcaccagtgagttccc	6	9	10	16	2	2	1	2	1	0	0	3	2	3	2	5	2	2	2	5	2	0	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr11:26552873C>T	uc001mqt.3	+	8	1004	c.859C>T	c.(859-861)CGG>TGG	p.R287W	ANO3_uc010rdr.1_Missense_Mutation_p.R271W|ANO3_uc010rds.1_Missense_Mutation_p.R126W|ANO3_uc010rdt.1_Missense_Mutation_p.R141W	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	287	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CAGCCGTGCACGGATTCACCA	0.453													9	252					0	0	0.38729	0	0		T	26552873	T	T	26552873	3	4	110	1	0	0	0	0	1	0	0	0	698	527	19	1	889	1	ANO3	11	26552873	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	14236693	26552873	108453643	54	65110											
TTC17	55761	broad.mit.edu	37	chr11	43515387	43515387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcagcccgagtttgtccCagccaagaaccgaatccaga	11	7	9	14	2	1	2	1	0	0	2	3	4	3	2	5	0	3	2	5	0	3	2			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr11:43515387C>T	uc001mxi.2	+	24	3373	c.3359C>T	c.(3358-3360)CCA>CTA	p.P1120L	TTC17_uc010rfj.1_Missense_Mutation_p.P1120L|TTC17_uc001mxl.2_Missense_Mutation_p.P176L|TTC17_uc001mxm.2_Missense_Mutation_p.P101L	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	1120							binding			ovary(5)	5						GAGTTTGTCCCAGCCAAGAAC	0.488													69	264					0	0	0.870114	0	0		T	43515387	T	T	43515387	3	4	110	1	0	0	0	0	1	0	0	0	16710	594	21	4	3453	4	TTC17	11	43515387	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	16962514	43515387	91491129	55	65111											
SCGB1D4	404552	broad.mit.edu	37	chr11	62064987	62064987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcttaaaagatatctgatCggtgcagtgcttcacttcca	10	15	7	9	1	3	2	1	1	2	1	5	2	4	2	1	1	2	2	1	1	3	5	rs149931773	byFrequency	TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr11:62064987C>T	uc001ntd.1	-	2	253	c.199G>A	c.(199-201)GAT>AAT	p.D67N		NM_206998	NP_996881	Q6XE38	SG1D4_HUMAN	secretoglobin family 1D member 4 precursor	67						extracellular region	binding				0						GATATCTGATCGGTGCAGTGC	0.443													50	213					0	0	0.870114	0	0		T	62064987	T	T	62064987	3	4	110	1	0	0	0	0	1	0	0	0	13923	884	31	1	60	1	SCGB1D4	11	62064987	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	18549600	62064987	72941529	56	65112											
PYGM	5837	broad.mit.edu	37	chr11	64519413	64519413	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggttgtacagggtgatgAcatggaggcagttgaggagc	10	8	17	6	1	0	3	0	3	0	0	0	5	0	5	0	5	2	4	0	5	1	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr11:64519413A>G	uc001oax.3	-	14	2568	c.1751T>C	c.(1750-1752)GTC>GCC	p.V584A	PYGM_uc001oay.3_Missense_Mutation_p.V496A	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	584					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	CAGGGTGATGACATGGAGGCA	0.498													3	75					0	0	0.115264	0	0		G	64519413	G	G	64519413	3	3	110	1	0	0	0	0	1	0	0	0	12887	275	10	3	805	3	PYGM	11	64519413	Missense_Mutation	SNP	A	TCGA-CD-5804-01A-12D-2053-08	2454426	64519413	70487103	57	65113											
FAT3	120114	broad.mit.edu	37	chr11	92532764	92532764	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccttttatacagcatctgtCaatgaagacatcagaatgaa	15	11	6	9	0	3	4	2	2	1	2	3	4	3	4	1	0	2	1	1	0	6	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr11:92532764C>T	uc001pdj.3	+	9	6602	c.6585C>T	c.(6583-6585)GTC>GTT	p.V2195V		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2195	Cadherin 20.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CAGCATCTGTCAATGAAGACA	0.428										TCGA Ovarian(4;0.039)			4	19					0	0	0.150653	0	0		T	92532764	T	T	92532764	2	4	110	1	0	0	0	0	0	0	0	1	5705	813	29	4		4	FAT3	11	92532764	Silent	SNP	C	TCGA-CD-5804-01A-12D-2053-08	28013351	92532764	42473752	58	65114											
DBX2	440097	broad.mit.edu	37	chr12	45444341	45444341	+	Frame_Shift_Del	DEL	C	-	-																															ctggaaggtacagtctcggtCccccggagcccggcccggca																										TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr12:45444341delC	uc001rok.1	-	1	542	c.370delG	c.(370-372)GACfs	p.D124fs		NM_001004329	NP_001004329	Q6ZNG2	DBX2_HUMAN	developing brain homeobox 2	124						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Lung SC(27;0.192)	Lung NSC(34;0.142)		GBM - Glioblastoma multiforme(48;0.0515)		CAGTCTCGGTCCCCCGGAGCC	0.716													2	4	---	---	---	---						.	-	45444341	-	-	45444341	7	5	110	1	0	1	0	1	0	0	0	0	4263	855	30	0	665	0	DBX2	12	45444341	Frame_Shift_Del	DEL	C	TCGA-CD-5804-01A-12D-2053-08		45444341	88407554	59	65115											
ARL1	400	broad.mit.edu	37	chr12	101799750	101799750	+	Frame_Shift_Del	DEL	A	-	-																															gactggaaaatatacttgagAaaaagccacctaaaaaataa																										TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr12:101799750delA	uc001tib.2	-	2	163	c.14delT	c.(13-15)TTCfs	p.F5fs	ARL1_uc010svn.1_Intron|ARL1_uc010svo.1_RNA|ARL1_uc001tic.2_Frame_Shift_Del_p.F5fs	NM_001177	NP_001168	P40616	ARL1_HUMAN	ADP-ribosylation factor-like 1	5					small GTPase mediated signal transduction	Golgi membrane	enzyme activator activity|GTP binding|GTPase activity|metal ion binding|protein binding			central_nervous_system(1)	1		Lung NSC(355;2.1e-05)|Breast(359;0.00015)|Myeloproliferative disorder(1001;0.163)		GBM - Glioblastoma multiforme(134;1.67e-09)|BRCA - Breast invasive adenocarcinoma(302;0.0125)		TATACTTGAGAAAAAGCCACC	0.313													2	4	---	---	---	---						.	-	101799750	-	-	101799750	7	5	110	1	0	1	0	1	0	0	0	0	925	246	9	0	551	0	ARL1	12	101799750	Frame_Shift_Del	DEL	A	TCGA-CD-5804-01A-12D-2053-08	56355409	101799750	32052145	60	65116											
TMEM132D	121256	broad.mit.edu	37	chr12	129558572	129558572	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctgaggagacggcggtgaAggtggtaaattttacccttt	9	12	14	6	2	1	3	0	2	1	1	1	4	1	3	1	5	1	1	1	5	4	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr12:129558572A>G	uc009zyl.1	-	9	3476	c.3148T>C	c.(3148-3150)TTC>CTC	p.F1050L	TMEM132D_uc001uia.2_Missense_Mutation_p.F588L	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	1050	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		ACGGCGGTGAAGGTGGTAAAT	0.507													12	69					0	0	0.435327	0	0		G	129558572	G	G	129558572	3	3	110	1	0	0	0	0	1	0	0	0	16072	72	3	3	155	3	TMEM132D	12	129558572	Missense_Mutation	SNP	A	TCGA-CD-5804-01A-12D-2053-08	27758822	129558572	4293323	61	65117											
ANKLE2	23141	broad.mit.edu	37	chr12	133304712	133304712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgtctgcacattcaagagCggccaaaacatcctgatcga	13	7	9	12	3	2	2	1	1	1	1	4	4	3	2	2	1	3	1	2	1	3	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr12:133304712C>T	uc001ukx.2	-	12	2588	c.2521G>A	c.(2521-2523)GCT>ACT	p.A841T	ANKLE2_uc009zyw.1_Missense_Mutation_p.A196T	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	841						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		CATTCAAGAGCGGCCAAAACA	0.463													14	127					0	0	0.457914	0	0		T	133304712	T	T	133304712	3	4	110	1	0	0	0	0	1	0	0	0	633	768	27	1	303	1	ANKLE2	12	133304712	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	3746140	133304712	547183	62	65118											
MIPEP	4285	broad.mit.edu	37	chr13	24384033	24384033	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaacctttttagattcacAaagacgagacaccatatttt	16	12	4	9	1	1	3	1	0	0	3	1	4	1	3	2	0	1	0	2	0	4	7			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr13:24384033A>C	uc001uox.3	-	15	1784	c.1684T>G	c.(1684-1686)TGT>GGT	p.C562G		NM_005932	NP_005923	Q99797	MIPEP_HUMAN	mitochondrial intermediate peptidase precursor	562					protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)		TTAGATTCACAAAGACGAGAC	0.358													18	71					0	0	0.667858	0	0		C	24384033	C	C	24384033	3	2	110	1	0	0	0	0	1	0	0	0	9610	130	5	5	477	5	MIPEP	13	24384033	Missense_Mutation	SNP	A	TCGA-CD-5804-01A-12D-2053-08		24384033	90785845	63	65119											
USPL1	10208	broad.mit.edu	37	chr13	31231880	31231880	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctaaagatatatcagttGcccctcgtactctttcacag	11	12	5	13	1	3	1	2	0	1	1	4	1	3	1	3	0	2	2	3	0	5	6			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr13:31231880G>T	uc001utc.2	+	9	2098	c.1666G>T	c.(1666-1668)GCC>TCC	p.A556S	USPL1_uc001utd.2_Missense_Mutation_p.A227S|USPL1_uc001ute.1_Missense_Mutation_p.A227S	NM_005800	NP_005791	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	556					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			pancreas(2)|skin(1)	3		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0306)|Epithelial(112;0.131)|OV - Ovarian serous cystadenocarcinoma(117;0.134)		TATATCAGTTGCCCCTCGTAC	0.423													29	299					8.88839e-20	1.00556e-19	0.750413	1	0		T	31231880	T	T	31231880	3	4	110	1	0	0	0	0	1	0	0	0	17118	1319	46	5	1696	5	USPL1	13	31231880	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	6847847	31231880	83937998	64	65120											
KL	9365	broad.mit.edu	37	chr13	33638175	33638175	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctggaaagattttgtcCagaagaattcaccgtgtgta	13	12	9	7	1	2	3	1	0	1	3	3	4	3	4	2	1	1	1	2	1	5	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr13:33638175C>A	uc001uus.2	+	5	2899	c.2891C>A	c.(2890-2892)CCA>CAA	p.P964Q		NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	964	Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		AGATTTTGTCCAGAAGAATTC	0.408													190	90					7.35133e-72	8.40152e-72	0.870114	1	0		A	33638175	A	A	33638175	3	1	110	1	0	0	0	0	1	0	0	0	8347	594	21	5	2909	5	KL	13	33638175	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	2406295	33638175	81531703	65	65121											
OR4K1	79544	broad.mit.edu	37	chr14	20404281	20404281	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatttcctgggcggtgggCgttcttcattctgtgagcca	4	15	12	10	2	4	1	1	1	3	0	5	1	5	1	2	3	1	1	2	3	1	5			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr14:20404281C>T	uc001vwj.1	+	1	456	c.456C>T	c.(454-456)GGC>GGT	p.G152G		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		GGGCGGTGGGCGTTCTTCATT	0.458													21	72					0	0	0.608945	0	0		T	20404281	T	T	20404281	2	4	110	1	0	0	0	0	0	0	0	1	11086	755	27	1		1	OR4K1	14	20404281	Silent	SNP	C	TCGA-CD-5804-01A-12D-2053-08		20404281	86945259	66	65122											
MDGA2	161357	broad.mit.edu	37	chr14	47314968	47314968	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctcaagcaaagatacttaCtcttagttgctaggtcttgt	11	15	7	8	0	3	1	1	0	3	1	4	1	3	1	0	1	4	3	0	1	6	6			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr14:47314968C>T	uc001wwj.3	-	16	2978	c.2782_splice	c.e16+1	p.N928_splice	MDGA2_uc001wwh.3_Splice_Site_p.N130_splice|MDGA2_uc001wwi.3_Splice_Site_p.N699_splice	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1						spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						AAGATACTTACTCTTAGTTGC	0.299													20	30					0	0	0.592651	0	0		T	47314968	T	T	47314968	5	4	110	1	0	0	0	0	0	0	1	0	9425	579	20	4	95	4	MDGA2	14	47314968	Splice_Site	SNP	C	TCGA-CD-5804-01A-12D-2053-08	26910687	47314968	60034572	67	65123											
NIN	51199	broad.mit.edu	37	chr14	51219348	51219348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatagcatttctgttagaCgttgattaagttcttgcagt	9	16	10	6	1	2	2	0	1	2	1	2	2	2	2	0	1	2	6	0	1	3	7			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr14:51219348C>T	uc001wym.2	-	21	5029	c.4838G>A	c.(4837-4839)CGT>CAT	p.R1613H	NIN_uc001wyi.2_Missense_Mutation_p.R1613H|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.R900H|NIN_uc010tqp.1_Missense_Mutation_p.R1619H|NIN_uc001wyo.2_Missense_Mutation_p.R1613H	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1613	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					TTCTGTTAGACGTTGATTAAG	0.368			T	PDGFRB	MPD								39	157					0	0	0.840704	0	0		T	51219348	T	T	51219348	3	4	110	1	0	0	0	0	1	0	0	0	10436	536	19	1	1755	1	NIN	14	51219348	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	3904380	51219348	56130192	68	65124											
RGS6	9628	broad.mit.edu	37	chr14	72941366	72941366	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaacagaaatggatatcCgaaaatgtcgacgtttgaag	17	8	9	7	3	0	2	0	1	0	1	2	5	1	3	1	1	1	1	1	1	6	2			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr14:72941366C>T	uc001xna.3	+	10	1175	c.652C>T	c.(652-654)CGA>TGA	p.R218*	RGS6_uc010ttn.1_Nonsense_Mutation_p.R218*|RGS6_uc001xmx.3_Nonsense_Mutation_p.R218*|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Nonsense_Mutation_p.R218*|RGS6_uc010ttp.1_Nonsense_Mutation_p.R149*|RGS6_uc001xmz.1_Nonsense_Mutation_p.R79*	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	218					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		AATGGATATCCGAAAATGTCG	0.363													9	41					0	0	0.361761	0	0		T	72941366	T	T	72941366	4	4	110	1	0	0	0	0	0	1	0	0	13334	644	23	1	686	1	RGS6	14	72941366	Nonsense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	21722018	72941366	34408174	69	65125											
EIF2B2	8892	broad.mit.edu	37	chr14	75469999	75469999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagctgatggagctgatccGcagagagggcaggaggatga	11	5	19	6	1	0	4	0	3	0	1	1	9	1	8	1	5	2	4	1	5	0	0			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr14:75469999G>A	uc001xrc.1	+	2	267	c.185G>A	c.(184-186)CGC>CAC	p.R62H		NM_014239	NP_055054	P49770	EI2BB_HUMAN	eukaryotic translation initiation factor 2B,	62					cellular response to stimulus|myelination|oligodendrocyte development|ovarian follicle development|regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	ATP binding|GTP binding|protein binding|translation initiation factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00661)		GAGCTGATCCGCAGAGAGGGC	0.592													3	26					0	0	0.115264	0	0		A	75469999	A	A	75469999	3	1	110	1	0	0	0	0	1	0	0	0	5007	1087	38	1	191	1	EIF2B2	14	75469999	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	2528633	75469999	31879541	70	65126											
GABRB3	2562	broad.mit.edu	37	chr15	26793117	26793117	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gggaggcttctgtcccccagGaatcgcccatgcccttctcg	5	9	11	16	2	2	0	0	0	2	0	5	2	3	2	4	3	1	1	4	3	1	2			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr15:26793117G>C	uc001zaz.2	-	9	1387	c.1245C>G	c.(1243-1245)TTC>TTG	p.F415L	GABRB3_uc010uae.1_Missense_Mutation_p.F330L|GABRB3_uc001zba.2_Missense_Mutation_p.F415L|GABRB3_uc001zbb.2_Missense_Mutation_p.F471L	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	415	Cytoplasmic (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TGTCCCCCAGGAATCGCCCAT	0.502													6	41					0	0	0.27861	0	0		C	26793117	C	C	26793117	3	2	110	1	0	0	0	0	1	0	0	0	6182	1165	41	5	180	5	GABRB3	15	26793117	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08		26793117	75738275	71	65127											
SLC12A1	6557	broad.mit.edu	37	chr15	48533736	48533736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaagatgccatccccagaGgaaccatgctggccattttc	10	8	8	15	0	0	2	0	0	0	2	2	3	1	3	6	2	3	1	6	2	2	2			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr15:48533736G>A	uc001zwn.3	+	10	1456	c.1240G>A	c.(1240-1242)GGA>AGA	p.G414R	SLC12A1_uc010uew.1_Missense_Mutation_p.G220R|SLC12A1_uc010bem.2_Missense_Mutation_p.G414R|SLC12A1_uc001zwq.3_Missense_Mutation_p.G185R|SLC12A1_uc001zwr.3_Missense_Mutation_p.G141R	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	414	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	CATCCCCAGAGGAACCATGCT	0.418													32	179					0	0	0.812448	0	0		A	48533736	A	A	48533736	3	1	110	1	0	0	0	0	1	0	0	0	14407	1001	35	4	1374	4	SLC12A1	15	48533736	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	21740619	48533736	53997656	72	65128											
DNAH3	55567	broad.mit.edu	37	chr16	21073986	21073986	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagatttccagcagctcatcGtttgataggaagaagaatct	14	11	9	7	1	2	4	1	1	1	3	4	5	3	5	1	1	2	3	1	1	5	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr16:21073986G>A	uc010vbe.1	-	25	3537	c.3537C>T	c.(3535-3537)AAC>AAT	p.N1179N		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1179	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GCAGCTCATCGTTTGATAGGA	0.433													10	24					0	0	0.38729	0	0		A	21073986	A	A	21073986	2	1	110	1	0	0	0	0	0	0	0	1	4609	1136	40	1		1	DNAH3	16	21073986	Silent	SNP	G	TCGA-CD-5804-01A-12D-2053-08		21073986	69280767	73	65129											
TP53	7157	broad.mit.edu	37	chr17	7574018	7574018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctcggaacatctcgaagcGctcacgcccacggatctgca	9	7	9	16	5	4	0	1	0	3	0	6	3	4	2	1	2	3	2	1	2	2	0			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr17:7574018G>A	uc002gim.2	-	10	1203	c.1009C>T	c.(1009-1011)CGC>TGC	p.R337C	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_Missense_Mutation_p.R205C|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_Missense_Mutation_p.R337C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	337	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Interaction with HIPK2.		R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R337C(12)|p.0?(7)|p.R337L(5)|p.R337H(2)|p.?(1)|p.I332fs*5(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ATCTCGAAGCGCTCACGCCCA	0.448		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			15	18					0	0	0.539581	0	0		A	7574018	A	A	7574018	3	1	110	1	0	0	0	0	1	0	0	0	16407	1087	38	1	180	1	TP53	17	7574018	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08		7574018	73621192	74	65130											
CHD3	1107	broad.mit.edu	37	chr17	7809236	7809236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgatgcgctgggggatGccaccacaggatgccttcac	7	8	14	12	1	1	1	1	1	0	0	1	3	1	3	3	3	3	2	3	3	0	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr17:7809236G>A	uc002gje.2	+	28	4437	c.4287G>A	c.(4285-4287)ATG>ATA	p.M1429I	CHD3_uc002gjd.2_Missense_Mutation_p.M1488I|CHD3_uc002gjf.2_Missense_Mutation_p.M1429I|CHD3_uc002gjh.2_Missense_Mutation_p.M5I|SCARNA21_uc002gji.1_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1429					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GCTGGGGGATGCCACCACAGG	0.582													12	86					0	0	0.435327	0	0		A	7809236	A	A	7809236	3	1	110	1	0	0	0	0	1	0	0	0	3329	1319	46	2	4678	2	CHD3	17	7809236	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	235218	7809236	73385974	75	65131											
RPL26	6154	broad.mit.edu	37	chr17	8280949	8280949	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttcctacttggcgagatTtggctttccgttcgaggatc	5	15	10	11	3	0	1	0	0	0	1	4	4	2	2	3	3	1	2	3	3	1	6			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr17:8280949T>C	uc002glh.1	-	4	467	c.371A>G	c.(370-372)AAA>AGA	p.K124R	KRBA2_uc002glg.1_5'Flank	NM_000987	NP_000978	P61254	RL26_HUMAN	ribosomal protein L26	124					endocrine pancreas development|ribosomal large subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0						TTGGCGAGATTTGGCTTTCCG	0.368													13	46					0	0	0.479597	0	0		C	8280949	C	C	8280949	3	2	110	1	0	0	0	0	1	0	0	0	13598	1841	64	3	70	3	RPL26	17	8280949	Missense_Mutation	SNP	T	TCGA-CD-5804-01A-12D-2053-08	471713	8280949	72914261	76	65132											
DNAH9	1770	broad.mit.edu	37	chr17	11532791	11532791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggtggagttcagcggcGtcagagggaatgctctgagt	10	8	17	6	2	3	2	2	1	1	1	3	5	3	4	0	4	2	2	0	4	2	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr17:11532791G>A	uc002gne.2	+	7	1476	c.1408G>A	c.(1408-1410)GTC>ATC	p.V470I		NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	470	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GTTCAGCGGCGTCAGAGGGAA	0.458													18	93					0	0	0.624587	0	0		A	11532791	A	A	11532791	3	1	110	1	0	0	0	0	1	0	0	0	4614	1145	40	1	1434	1	DNAH9	17	11532791	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	3251842	11532791	69662419	77	65133											
SGK494	124923	broad.mit.edu	37	chr17	26940280	26940280	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggtatctacgcccctacCttcactgcaaatacagcttt	9	13	6	13	1	2	0	1	0	1	0	2	0	2	0	3	1	5	3	3	1	5	6			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr17:26940280C>T	uc002hbr.1	-	3	440	c.408G>A	c.(406-408)AAG>AAA	p.K136K	SGK494_uc010waq.1_Silent_p.K136K|SGK494_uc010war.1_RNA|uc010crq.1_5'Flank|uc002hbs.1_Intron	NM_144610	NP_653211			uncharacterized serine/threonine-protein kinase												0						ACGCCCCTACCTTCACTGCAA	0.443											OREG0024279	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	56					0	0	0.248553	0	0		T	26940280	T	T	26940280	2	4	110	1	0	0	0	0	0	0	0	1	14238	695	24	4		4	SGK494	17	26940280	Silent	SNP	C	TCGA-CD-5804-01A-12D-2053-08	15407489	26940280	54254930	78	65134											
SMAD4	4089	broad.mit.edu	37	chr18	48591825	48591825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtgttccattgcttactttGaaatggatgttcaggtagga	9	15	12	5	0	1	1	1	1	0	0	2	3	2	3	1	4	2	4	1	4	3	6			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr18:48591825G>A	uc010xdp.1	+	9	1526	c.988G>A	c.(988-990)GAA>AAA	p.E330K	SMAD4_uc002lfb.3_Missense_Mutation_p.E175K	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	330	MH2.		E -> G (in JPS).		BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)|p.E330A(2)|p.E330Q(1)|p.E330*(1)|p.E330K(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TGCTTACTTTGAAATGGATGT	0.428									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				16	73					0	0	0.557998	0	0		A	48591825	A	A	48591825	3	1	110	1	0	0	0	0	1	0	0	0	14785	1291	45	4	1018	4	SMAD4	18	48591825	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08		48591825	29485423	79	65135											
CYP4F2	8529	broad.mit.edu	37	chr19	15989716	15989716	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggaccaccttcatctcCgccatcgcgaacgtctgccc	7	7	8	19	4	3	0	1	0	2	0	5	2	3	1	6	1	2	0	6	1	1	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr19:15989716C>T	uc002nbs.1	-	13	1478	c.1428G>A	c.(1426-1428)GCG>GCA	p.A476A	CYP4F2_uc010xot.1_Silent_p.A327A	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	476					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						CCTTCATCTCCGCCATCGCGA	0.672													22	26					0	0	0.654019	0	0		T	15989716	T	T	15989716	2	4	110	1	0	0	0	0	0	0	0	1	4191	639	23	1		1	CYP4F2	19	15989716	Silent	SNP	C	TCGA-CD-5804-01A-12D-2053-08		15989716	43139267	80	65136											
UNC13A	23025	broad.mit.edu	37	chr19	17751464	17751464	+	Frame_Shift_Del	DEL	A	-	-																															tacttggaggagaggcaggcAaagtggctggagagagggag																										TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr19:17751464delA	uc002nhd.2	-	22	2907	c.2907delT	c.(2905-2907)TTTfs	p.F969fs		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	881					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						AGAGGCAGGCAAAGTGGCTGG	0.597													2	4	---	---	---	---						.	-	17751464	-	-	17751464	7	5	110	1	0	1	0	1	0	0	0	0	17010	127	5	0	2556	0	UNC13A	19	17751464	Frame_Shift_Del	DEL	A	TCGA-CD-5804-01A-12D-2053-08	1761748	17751464	41377519	81	65137											
JAK3	3718	broad.mit.edu	37	chr19	17951134	17951134	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccagtcttgagcttgtTgatggcaaagtccagactgt	8	11	11	11	0	1	3	0	2	1	1	2	3	2	3	3	1	1	3	3	1	1	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr19:17951134T>C	uc002nhn.3	-	9	1259	c.1159A>G	c.(1159-1161)AAC>GAC	p.N387D	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Missense_Mutation_p.N387D|JAK3_uc010xpx.1_Missense_Mutation_p.N387D	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	387	SH2; atypical.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						TTGAGCTTGTTGATGGCAAAG	0.567		2	Mis		acute megakaryocytic leukemia|								8	19					0	0	0.307466	0	0		C	17951134	C	C	17951134	3	2	110	1	0	0	0	0	1	0	0	0	7955	1812	63	3	2279	3	JAK3	19	17951134	Missense_Mutation	SNP	T	TCGA-CD-5804-01A-12D-2053-08	199670	17951134	41177849	82	65138											
RYR1	6261	broad.mit.edu	37	chr19	38939333	38939333	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgggatgtggagggcatgggCccccctgagatcaagtacgg	8	6	17	10	2	1	1	1	1	0	1	1	4	1	3	3	5	1	2	3	5	2	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr19:38939333C>T	uc002oit.2	+	11	1132	c.1002C>T	c.(1000-1002)GGC>GGT	p.G334G	RYR1_uc002oiu.2_Silent_p.G334G	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	334	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AGGGCATGGGCCCCCCTGAGA	0.637													11	118					0	0	0.457914	0	0		T	38939333	T	T	38939333	2	4	110	1	0	0	0	0	0	0	0	1	13793	726	26	2		2	RYR1	19	38939333	Silent	SNP	C	TCGA-CD-5804-01A-12D-2053-08	20988199	38939333	20189650	83	65139											
DHX34	9704	broad.mit.edu	37	chr19	47878931	47878931	+	Frame_Shift_Del	DEL	C	-	-																															cgaggacagggctggcccagCccccccaggggccagtgatg																										TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr19:47878931delC	uc010xyn.1	+	10	2614	c.2273delC	c.(2272-2274)GCCfs	p.A758fs	DHX34_uc010xyo.1_5'Flank	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	758						intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		GCTGGCCCAGCCCCCCCAGGG	0.716													2	4	---	---	---	---						.	-	47878931	-	-	47878931	7	5	110	1	0	1	0	1	0	0	0	0	4513	739	26	0	2307	0	DHX34	19	47878931	Frame_Shift_Del	DEL	C	TCGA-CD-5804-01A-12D-2053-08	8939598	47878931	11250052	84	65140											
GLTSCR1	29998	broad.mit.edu	37	chr19	48184530	48184531	+	Frame_Shift_Ins	INS	-	T	T																															ccctgcagatgttcctgcccINScaggtaagcagggcggggca																										TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr19:48184530_48184531insT	uc002phh.3	+	6	2297_2298	c.2103_2104insT	c.(2101-2106)CCCCAGfs	p.P701fs	GLTSCR1_uc002phi.3_Frame_Shift_Ins_p.P459fs	NM_015711	NP_056526	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	701_702							protein binding			pancreas(3)	3		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		TGTTCCTGCCCCAGGTAAGCAG	0.668													2	4	---	---	---	---						.	T	48184531	T	T	48184530	7	5	110	1	0	1	1	0	0	0	0	0	6489	610	22	0	2117	0	GLTSCR1	19	48184530	Frame_Shift_Ins	INS	-	TCGA-CD-5804-01A-12D-2053-08	305599	48184530	10944453	85	65141											
SHANK1	50944	broad.mit.edu	37	chr19	51170296	51170296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggatgggggtccccaggagCggcggaggccccctgggtca	5	5	19	12	2	1	0	1	0	0	0	2	3	2	3	4	8	1	0	4	8	0	0			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr19:51170296C>T	uc002psx.1	-	22	4940	c.4921G>A	c.(4921-4923)GCT>ACT	p.A1641T	SHANK1_uc002psw.1_Missense_Mutation_p.A1025T	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1641					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		TCCCCAGGAGCGGCGGAGGCC	0.741													5	11					0	0	0.184627	0	0		T	51170296	T	T	51170296	3	4	110	1	0	0	0	0	1	0	0	0	14289	768	27	1	1572	1	SHANK1	19	51170296	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	2985766	51170296	7958687	86	65142											
HAS1	3036	broad.mit.edu	37	chr19	52216778	52216778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccagtagcccacgtaggCgccggcccccgcggccaagt	7	3	12	19	5	0	0	0	0	0	0	0	0	0	0	6	3	1	2	6	3	3	2			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr19:52216778C>T	uc002pxo.1	-	5	1674	c.1639G>A	c.(1639-1641)GCC>ACC	p.A547T	HAS1_uc010epc.1_Missense_Mutation_p.A147T|HAS1_uc010epd.1_3'UTR|HAS1_uc002pxn.1_Missense_Mutation_p.A554T|HAS1_uc002pxp.1_Missense_Mutation_p.A546T	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1	547	Helical; Name=7; (Potential).				cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding			ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		CCCACGTAGGCGCCGGCCCCC	0.731													4	10					0	0	0.150653	0	0		T	52216778	T	T	52216778	3	4	110	1	0	0	0	0	1	0	0	0	6977	768	27	1	101	1	HAS1	19	52216778	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	1046482	52216778	6912205	87	65143											
ZNF808	388558	broad.mit.edu	37	chr19	53056403	53056403	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaggaggtcttgtcaacaggGcaaggcaatagagaagtgat	15	7	14	5	0	2	2	1	1	1	1	2	4	2	3	0	4	1	2	0	4	6	2			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr19:53056403G>A	uc010epq.1	+	5	411	c.234G>A	c.(232-234)GGG>GGA	p.G78G	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	78	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		TGTCAACAGGGCAAGGCAATA	0.363													4	174					0	0	0.150653	0	0		A	53056403	A	A	53056403	2	1	110	1	0	0	0	0	0	0	0	1	18198	1190	42	2		2	ZNF808	19	53056403	Silent	SNP	G	TCGA-CD-5804-01A-12D-2053-08	839625	53056403	6072580	88	65144											
BRSK1	84446	broad.mit.edu	37	chr19	55800942	55800942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggcccgaaagttcttcCgccagattgtgtctgcgctg	7	10	13	11	3	2	1	0	0	2	1	3	3	3	2	3	2	1	2	3	2	1	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr19:55800942C>T	uc002qkg.2	+	4	689	c.412C>T	c.(412-414)CGC>TGC	p.R138C	BRSK1_uc002qkf.2_Missense_Mutation_p.R154C	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	138	Protein kinase.				establishment of cell polarity|G2/M transition DNA damage checkpoint|neuron differentiation|response to UV	cell junction|cytoplasm|nucleus	magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|lung(1)|breast(1)|skin(1)	6		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0474)		AAAGTTCTTCCGCCAGATTGT	0.602													5	64					0	0	0.217242	0	0		T	55800942	T	T	55800942	3	4	110	1	0	0	0	0	1	0	0	0	1526	652	23	1	426	1	BRSK1	19	55800942	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	2744539	55800942	3328041	89	65145											
C20orf7	79133	broad.mit.edu	37	chr20	13775515	13775515	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaacagaaatacctactgTcagcgttttagctgatgaag	15	10	9	7	1	1	4	1	2	0	2	1	4	1	4	1	0	5	2	1	0	6	4			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr20:13775515T>C	uc002wom.2	+	5	440	c.407T>C	c.(406-408)GTC>GCC	p.V136A	C20orf7_uc002wol.1_Missense_Mutation_p.V136A|C20orf7_uc002won.2_Intron|C20orf7_uc002woo.2_RNA	NM_024120	NP_077025	Q5TEU4	CT007_HUMAN	hypothetical protein LOC79133 isoform 1	136					mitochondrial respiratory chain complex I assembly	extrinsic to mitochondrial inner membrane	methyltransferase activity				0		Myeloproliferative disorder(85;0.00878)				ATACCTACTGTCAGCGTTTTA	0.323													3	23					0	0	0.184627	0	0		C	13775515	C	C	13775515	3	2	110	1	0	0	0	0	1	0	0	0	2118	1667	58	3	445	3	C20orf7	20	13775515	Missense_Mutation	SNP	T	TCGA-CD-5804-01A-12D-2053-08		13775515	49250005	90	65146											
CBFA2T2	9139	broad.mit.edu	37	chr20	32232209	32232209	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtggctgcaatatcgcGcgatactgtggctctttctg	6	13	12	10	3	2	0	0	0	2	0	3	1	2	0	0	2	3	4	0	2	3	3	rs150139351	byFrequency	TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr20:32232209G>A	uc002wzg.1	+	12	2109	c.1572G>A	c.(1570-1572)GCG>GCA	p.A524A	CBFA2T2_uc010zug.1_Silent_p.A298A|CBFA2T2_uc002wze.1_Silent_p.A515A|CBFA2T2_uc002wzf.1_RNA|CBFA2T2_uc002wzh.1_Silent_p.A495A|CBFA2T2_uc002wzi.1_RNA|CBFA2T2_uc002wzj.1_RNA|CBFA2T2_uc002wzk.1_Silent_p.A72A	NM_005093	NP_005084	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit	524	MYND-type.					nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2						GCAATATCGCGCGATACTGTG	0.617													19	120					0	0	0.624587	0	0		A	32232209	A	A	32232209	2	1	110	1	0	0	0	0	0	0	0	1	2700	1074	38	1		1	CBFA2T2	20	32232209	Silent	SNP	G	TCGA-CD-5804-01A-12D-2053-08	18456694	32232209	30793311	91	65147											
BMP7	655	broad.mit.edu	37	chr20	55748277	55748277	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcgtctgcacgatggcgtgGttggtggcgttcatgtagga	6	11	17	7	4	2	0	1	0	1	0	2	2	2	1	0	5	2	4	0	5	1	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr20:55748277G>A	uc010gip.1	-	6	1654	c.1125C>T	c.(1123-1125)AAC>AAT	p.N375N	BMP7_uc010giq.1_Silent_p.N309N|BMP7_uc002xyc.2_Silent_p.N375N	NM_001719	NP_001710	P18075	BMP7_HUMAN	bone morphogenetic protein 7 precursor	375					BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)			CGATGGCGTGGTTGGTGGCGT	0.642													16	75					0	0	0.575678	0	0		A	55748277	A	A	55748277	2	1	110	1	0	0	0	0	0	0	0	1	1466	1252	44	4		4	BMP7	20	55748277	Silent	SNP	G	TCGA-CD-5804-01A-12D-2053-08	23516068	55748277	7277243	92	65148											
FBXO7	25793	broad.mit.edu	37	chr22	32881120	32881120	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcggggtgtataagctgcaGtacatgcatcctctctgcga	9	10	12	10	2	1	0	0	0	1	0	3	1	2	0	1	2	6	5	1	2	3	3			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr22:32881120G>T	uc003amq.2	+	4	994	c.711G>T	c.(709-711)CAG>CAT	p.Q237H	FBXO7_uc003amp.1_Missense_Mutation_p.Q123H|FBXO7_uc003amr.2_Missense_Mutation_p.Q123H|FBXO7_uc003ams.2_Missense_Mutation_p.Q81H|FBXO7_uc003amt.2_Missense_Mutation_p.Q158H|FBXO7_uc003amu.2_Missense_Mutation_p.Q123H	NM_012179	NP_036311	Q9Y3I1	FBX7_HUMAN	F-box only protein 7 isoform 1	237					cell death|regulation of protein stability|ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)	1						ATAAGCTGCAGTACATGCATC	0.493													23	66					5.35356e-11	5.93662e-11	0.639603	1	0		T	32881120	T	T	32881120	3	4	110	1	0	0	0	0	1	0	0	0	5774	1020	36	5	766	5	FBXO7	22	32881120	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08		32881120	18423446	93	65149											
ZC3H7B	23264	broad.mit.edu	37	chr22	41752693	41752693	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcaagaacagcaacagcaaGaagcagtggcagcagcacat	17	2	12	10	0	0	2	0	0	0	2	0	2	0	2	0	2	7	7	0	2	5	0			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr22:41752693G>A	uc003azw.2	+	22	2778	c.2562G>A	c.(2560-2562)AAG>AAA	p.K854K	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	870	C2H2-type.				interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						GCAACAGCAAGAAGCAGTGGC	0.637													22	116					0	0	0.624587	0	0		A	41752693	A	A	41752693	2	1	110	1	0	0	0	0	0	0	0	1	17598	933	33	4		4	ZC3H7B	22	41752693	Silent	SNP	G	TCGA-CD-5804-01A-12D-2053-08	8871573	41752693	9551873	94	65150											
PANX2	56666	broad.mit.edu	37	chr22	50616142	50616142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggcatcaagacgcgccGgcagtggcgccgctcgcagt	6	5	17	13	6	1	1	1	0	0	1	2	1	1	1	2	4	0	4	2	4	1	0	rs139331786		TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr22:50616142G>A	uc003bjn.3	+	2	1001	c.1001G>A	c.(1000-1002)CGG>CAG	p.R334Q	PANX2_uc003bjp.3_Missense_Mutation_p.R200Q|PANX2_uc003bjo.3_Missense_Mutation_p.R334Q	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	334	Cytoplasmic (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		AAGACGCGCCGGCAGTGGCGC	0.557													20	82					0	0	0.639603	0	0		A	50616142	A	A	50616142	3	1	110	1	0	0	0	0	1	0	0	0	11440	1116	39	1	1007	1	PANX2	22	50616142	Missense_Mutation	SNP	G	TCGA-CD-5804-01A-12D-2053-08	8863449	50616142	688424	95	65151											
PLXNB2	23654	broad.mit.edu	37	chr22	50728614	50728614	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccccgctgccgtcctcgtAgaacaggcggagggagatgt	7	7	14	13	4	0	2	0	0	0	2	3	4	2	3	4	3	2	2	4	3	2	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chr22:50728614A>T	uc003bkv.3	-	3	506	c.400T>A	c.(400-402)TAC>AAC	p.Y134N		NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	134	Extracellular (Potential).|Sema.				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CCGTCCTCGTAGAACAGGCGG	0.662													11	17					0	0	0.38729	0	0		T	50728614	T	T	50728614	3	4	110	1	0	0	0	0	1	0	0	0	12143	420	15	5	5256	5	PLXNB2	22	50728614	Missense_Mutation	SNP	A	TCGA-CD-5804-01A-12D-2053-08	112472	50728614	575952	96	65152											
MAP3K15	389840	broad.mit.edu	37	chrX	19390935	19390935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcttccaaggctgagctctCgtctggaacactgtggacaa	9	10	11	11	1	3	1	0	1	3	0	5	3	4	3	1	3	2	2	1	3	3	1			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chrX:19390935C>T	uc004czk.1	-	23	3006	c.1369G>A	c.(1369-1371)GAG>AAG	p.E457K	MAP3K15_uc004czj.1_Missense_Mutation_p.E417K|MAP3K15_uc004czi.1_5'UTR	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	982							ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					GCTGAGCTCTCGTCTGGAACA	0.622													15	42					0	0	0.520397	0	0		T	19390935	T	T	19390935	3	4	110	1	0	0	0	0	1	0	0	0	9267	893	31	1	1029	1	MAP3K15	23	19390935	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08		19390935	135879625	97	65153											
DIAPH2	1730	broad.mit.edu	37	chrX	96136668	96136668	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatatcagatgagaaacttCttaattgcctagaatccctc	13	13	6	9	0	2	3	1	1	1	3	4	4	3	3	2	0	2	1	2	0	6	6			TCGA-CD-5804-01A-12D-2053-08	TCGA-CD-5804-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	36609c37-a039-4fb8-97cc-d492e92f3b05	cd0ff572-f125-478b-b186-f3cb523f39be	g.chrX:96136668C>A	uc004efu.3	+	5	934	c.538C>A	c.(538-540)CTT>ATT	p.L180I	DIAPH2_uc004eft.3_Missense_Mutation_p.L180I|DIAPH2_uc004efs.2_Missense_Mutation_p.L187I|RPA4_uc004efv.3_5'Flank	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	180	GBD/FH3.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						TGAGAAACTTCTTAATTGCCT	0.378													5	45					8.12818e-05	8.42923e-05	0.248553	1	0		A	96136668	A	A	96136668	3	1	110	1	0	0	0	0	1	0	0	0	4525	913	32	5	556	5	DIAPH2	23	96136668	Missense_Mutation	SNP	C	TCGA-CD-5804-01A-12D-2053-08	76745733	96136668	59133892	98	65154											
CAMTA1	23261	broad.mit.edu	37	chr1	7805036	7805036	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacaatgagctggctggccAgttatctagcggatgctgac	9	10	13	9	1	1	2	0	2	1	0	1	3	1	3	1	3	4	5	1	3	4	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:7805036A>T	uc001aoi.2	+	17	4531	c.4324A>T	c.(4324-4326)AGT>TGT	p.S1442C	CAMTA1_uc010nzv.1_Missense_Mutation_p.S529C|CAMTA1_uc001aok.3_Missense_Mutation_p.S485C|CAMTA1_uc001aoj.2_Missense_Mutation_p.S398C|CAMTA1_uc009vmf.2_Missense_Mutation_p.S46C	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1442					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		CTGGCTGGCCAGTTATCTAGC	0.517													9	75					0	0	0.010729	0	0		T	7805036	T	T	7805036	3	4	111	1	0	0	0	0	1	0	0	0	2616	188	7	5	4390	5	CAMTA1	1	7805036	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08		7805036	241445585	1	65155											
VPS13D	55187	broad.mit.edu	37	chr1	12336690	12336690	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcagacatatggtgctgaTtttgaccttttgatggcttc	8	16	10	7	0	0	4	0	3	0	1	1	4	0	4	1	2	2	3	1	2	1	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:12336690T>A	uc001atv.2	+	19	3186	c.3045T>A	c.(3043-3045)GAT>GAA	p.D1015E	VPS13D_uc001atw.2_Missense_Mutation_p.D1015E|VPS13D_uc001atx.2_Missense_Mutation_p.D203E	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	1015					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		ATGGTGCTGATTTTGACCTTT	0.478											OREG0013110	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	82	189					0	0	0.01441	0	0		A	12336690	A	A	12336690	3	1	111	1	0	0	0	0	1	0	0	0	17218	1490	52	5	3115	5	VPS13D	1	12336690	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	4531654	12336690	236913931	2	65156											
NBPF1	55672	broad.mit.edu	37	chr1	16907317	16907317	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagctgagttgactttgTcttcctcaaaggtgatgttg	8	14	11	8	0	2	4	1	3	1	1	3	4	3	4	2	1	1	3	2	1	1	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:16907317T>C	uc009vos.1	-	16	2402	c.1514A>G	c.(1513-1515)GAC>GGC	p.D505G	NBPF1_uc009vot.1_Intron|NBPF1_uc001ayz.1_Intron|NBPF1_uc010oce.1_Missense_Mutation_p.D234G	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	505	NBPF 2.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		GTTGACTTTGTCTTCCTCAAA	0.468													17	728					0	0	0.012319	0	0		C	16907317	C	C	16907317	3	2	111	1	0	0	0	0	1	0	0	0	10210	1667	58	3	1966	3	NBPF1	1	16907317	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	4570627	16907317	232343304	3	65157											
HP1BP3	50809	broad.mit.edu	37	chr1	21072091	21072091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcttctgatgactcatcttCatcttcatcctcatctctag	7	18	3	13	0	9	2	4	2	5	0	11	2	10	2	1	0	0	0	1	0	1	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:21072091C>T	uc001bdw.1	-	12	1452	c.1312G>A	c.(1312-1314)GAA>AAA	p.E438K	HP1BP3_uc001bdv.1_Missense_Mutation_p.E400K|HP1BP3_uc010odh.1_Missense_Mutation_p.E400K|HP1BP3_uc001bdy.1_Missense_Mutation_p.E438K|HP1BP3_uc010odf.1_Missense_Mutation_p.E97K|HP1BP3_uc010odg.1_Missense_Mutation_p.E286K	NM_016287	NP_057371	Q5SSJ5	HP1B3_HUMAN	HP1-BP74	438					nucleosome assembly	nucleosome|nucleus	DNA binding			central_nervous_system(1)|skin(1)	2		all_lung(284;6.55e-06)|Lung NSC(340;6.59e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.26e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00015)|GBM - Glioblastoma multiforme(114;0.000521)|Kidney(64;0.000529)|STAD - Stomach adenocarcinoma(196;0.00311)|KIRC - Kidney renal clear cell carcinoma(64;0.00687)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.201)		GACTCATCTTCATCTTCATCC	0.438													29	148					0	0	0.013726	0	0		T	21072091	T	T	21072091	3	4	111	1	0	0	0	0	1	0	0	0	7344	835	29	4	357	4	HP1BP3	1	21072091	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	4164774	21072091	228178530	4	65158											
HSPG2	3339	broad.mit.edu	37	chr1	22203131	22203131	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcacattcattgcacaagcgCcccaccacattgttctgcag	10	9	7	15	1	2	0	1	0	1	0	2	0	2	0	3	0	3	4	3	0	1	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:22203131C>A	uc001bfj.2	-	22	2740	c.2700G>T	c.(2698-2700)GGG>GGT	p.G900G	HSPG2_uc009vqd.2_Silent_p.G901G	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	900	Laminin EGF-like 4; truncated.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TGCACAAGCGCCCCACCACAT	0.582													8	25					0.000274275	0.000288046	0.004482	1	0		A	22203131	A	A	22203131	2	1	111	1	0	0	0	0	0	0	0	1	7446	726	26	5		5	HSPG2	1	22203131	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	1131040	22203131	227047490	5	65159											
LUZP1	7798	broad.mit.edu	37	chr1	23419314	23419314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctttactgtgctcctgagCagccggggggtagcgactca	6	9	14	12	3	1	1	1	1	0	0	2	2	2	1	2	3	5	4	2	3	2	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:23419314C>T	uc001bgk.2	-	4	1825	c.1441G>A	c.(1441-1443)GCT>ACT	p.A481T	LUZP1_uc010odv.1_Missense_Mutation_p.A481T|LUZP1_uc001bgl.2_Missense_Mutation_p.A481T|LUZP1_uc001bgm.1_Missense_Mutation_p.A481T	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	481						nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		TGCTCCTGAGCAGCCGGGGGG	0.567													48	206					0	0	0.01441	0	0		T	23419314	T	T	23419314	3	4	111	1	0	0	0	0	1	0	0	0	9104	710	25	2	1797	2	LUZP1	1	23419314	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	1216183	23419314	225831307	6	65160											
EIF3I	8668	broad.mit.edu	37	chr1	32694410	32694410	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgccctctcccccaactAtgaccatgtaagagaacccc	11	7	6	17	0	1	2	0	1	1	1	2	3	1	2	6	0	4	2	6	0	4	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:32694410A>G	uc001bur.3	+	9	1255	c.722A>G	c.(721-723)TAT>TGT	p.Y241C	EIF3I_uc009vuc.2_Missense_Mutation_p.Y241C|EIF3I_uc001bus.2_Missense_Mutation_p.Y193C	NM_003757	NP_003748	Q13347	EIF3I_HUMAN	eukaryotic translation initiation factor 3,	241						cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)				TCCCCCAACTATGACCATGTA	0.517													14	309					0	0	0.020292	0	0		G	32694410	G	G	32694410	3	3	111	1	0	0	0	0	1	0	0	0	5027	449	16	3	752	3	EIF3I	1	32694410	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	9275096	32694410	216556211	7	65161											
ZFYVE9	9372	broad.mit.edu	37	chr1	52734219	52734219	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgatgcagccaaattaaCaatgaatggaacttcctctg	13	11	8	9	0	1	2	0	2	1	0	2	3	2	3	2	1	5	2	2	1	5	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:52734219C>A	uc001cto.2	+	7	2712	c.2540C>A	c.(2539-2541)ACA>AAA	p.T847K	ZFYVE9_uc001ctp.2_Missense_Mutation_p.T788K	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	847					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						GCCAAATTAACAATGAATGGA	0.507													3	92					0.004672	0.00482581	0.004672	1	0		A	52734219	A	A	52734219	3	1	111	1	0	0	0	0	1	0	0	0	17696	478	17	5	2569	5	ZFYVE9	1	52734219	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	20039809	52734219	196516402	8	65162											
LRRC7	57554	broad.mit.edu	37	chr1	70504992	70504992	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctggtgagcgccacagAaatggccatgtttagaaggg	10	8	13	10	1	0	3	0	1	0	2	1	3	1	3	3	3	1	1	3	3	3	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:70504992A>T	uc001dep.2	+	19	3401	c.3371A>T	c.(3370-3372)GAA>GTA	p.E1124V	LRRC7_uc009wbg.2_Missense_Mutation_p.E408V|LRRC7_uc001deq.2_Missense_Mutation_p.E365V	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1124						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						AGCGCCACAGAAATGGCCATG	0.592													25	135					0	0	0.005443	0	0		T	70504992	T	T	70504992	3	4	111	1	0	0	0	0	1	0	0	0	9038	246	9	5	3445	5	LRRC7	1	70504992	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	17770773	70504992	178745629	9	65163											
CD2	914	broad.mit.edu	37	chr1	117297531	117297531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatcaatatatgatacaaaaGgaaaaaatgtgttggaaaaa	22	10	7	2	0	1	1	1	1	0	0	1	3	1	3	0	2	1	1	0	2	12	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:117297531G>A	uc001egu.3	+	2	369	c.340G>A	c.(340-342)GGA>AGA	p.G114R	CD2_uc010owz.1_Missense_Mutation_p.G114R|CD2_uc010oxa.1_Missense_Mutation_p.G114R	NM_001767	NP_001758	P06729	CD2_HUMAN	CD2 molecule precursor	114	Extracellular (Potential).|LFA-3 (CD58) binding region 2.|Ig-like V-type.				blood coagulation|cell surface receptor linked signaling pathway|cell-cell adhesion|induction of apoptosis|leukocyte migration|membrane raft polarization|natural killer cell activation|positive regulation of myeloid dendritic cell activation|regulation of T cell differentiation|T cell activation	integral to plasma membrane	receptor activity			breast(1)	1	Lung SC(450;0.225)	all_cancers(81;3.15e-06)|Acute lymphoblastic leukemia(138;1.7e-08)|all_epithelial(167;8.38e-07)|all_lung(203;3.37e-06)|Lung NSC(69;2.31e-05)		Epithelial(280;6.71e-26)|OV - Ovarian serous cystadenocarcinoma(397;4.74e-24)|all cancers(265;1.93e-22)|Lung(183;0.0543)|Kidney(133;0.0813)|Colorectal(144;0.174)|KIRC - Kidney renal clear cell carcinoma(1967;0.176)|LUSC - Lung squamous cell carcinoma(189;0.189)|BRCA - Breast invasive adenocarcinoma(282;0.201)	Alefacept(DB00092)	TGATACAAAAGGAAAAAATGT	0.308													6	81					0	0	0.001984	0	0		A	117297531	A	A	117297531	3	1	111	1	0	0	0	0	1	0	0	0	2982	1001	35	4	346	4	CD2	1	117297531	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	46792539	117297531	131953090	10	65164											
ANXA9	8416	broad.mit.edu	37	chr1	150955588	150955588	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccagtagcaccatgtctGtgactggcgggaagatggca	11	7	13	10	1	1	2	0	1	1	1	1	3	1	3	2	3	2	3	2	3	3	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:150955588G>C	uc001ewa.2	+	3	477	c.7G>C	c.(7-9)GTG>CTG	p.V3L		NM_003568	NP_003559	O76027	ANXA9_HUMAN	annexin A9	3					cell-cell adhesion	cell surface|cytosol	acetylcholine receptor activity|calcium ion binding|calcium-dependent phospholipid binding|phosphatidylserine binding|protein homodimerization activity				0	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CACCATGTCTGTGACTGGCGG	0.592													20	34					0	0	0.005524	0	0		C	150955588	C	C	150955588	3	2	111	1	0	0	0	0	1	0	0	0	725	1377	48	5	9	5	ANXA9	1	150955588	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	33658057	150955588	98295033	11	65165											
ZNF687	57592	broad.mit.edu	37	chr1	151260227	151260227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgggccaagtacagggggcgGcacagtgatatcacggaccc	10	5	15	11	2	1	1	1	1	0	0	1	2	1	2	2	5	1	2	2	5	3	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:151260227G>A	uc001exq.2	+	2	1558	c.1460G>A	c.(1459-1461)GGC>GAC	p.G487D	ZNF687_uc001exp.1_Missense_Mutation_p.G496D|ZNF687_uc009wmo.2_Missense_Mutation_p.G487D|ZNF687_uc009wmp.2_Missense_Mutation_p.G487D	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	487					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			ACAGGGGGCGGCACAGTGATA	0.602													4	139					0	0	0.009096	0	0		A	151260227	A	A	151260227	3	1	111	1	0	0	0	0	1	0	0	0	18117	1203	42	2	1462	2	ZNF687	1	151260227	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	304639	151260227	97990394	12	65166											
HRNR	388697	broad.mit.edu	37	chr1	152187485	152187485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgggccacggctggaagaaCgacctgagccagacccatgt	11	5	13	12	2	0	3	0	1	0	2	0	5	0	4	4	3	2	1	4	3	2	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:152187485C>T	uc001ezt.1	-	3	6696	c.6620G>A	c.(6619-6621)CGT>CAT	p.R2207H		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2207	24.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTGGAAGAACGACCTGAGCC	0.597													31	276					0	0	0.01441	0	0		T	152187485	T	T	152187485	3	4	111	1	0	0	0	0	1	0	0	0	7375	536	19	1	1936	1	HRNR	1	152187485	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	927258	152187485	97063136	13	65167											
FLG	2312	broad.mit.edu	37	chr1	152281606	152281606	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgactgtcactgtcctggCtaacactggatccctggttc	6	12	9	14	0	1	1	1	1	0	0	4	2	3	2	3	3	1	2	3	3	1	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:152281606C>A	uc001ezu.1	-	3	5792	c.5756G>T	c.(5755-5757)AGC>ATC	p.S1919I		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1919	Ser-rich.|Filaggrin 11.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACTGTCCTGGCTAACACTGGA	0.562									Ichthyosis				132	568					3.47496e-60	3.9289e-60	0.01441	1	0		A	152281606	A	A	152281606	3	1	111	1	0	0	0	0	1	0	0	0	5936	797	28	5	6433	5	FLG	1	152281606	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	94121	152281606	96969015	14	65168											
SEMA4A	64218	broad.mit.edu	37	chr1	156128511	156128511	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctctctccccatttaggAacttcaagattcctacctgt	9	13	5	14	0	2	1	1	0	1	1	5	2	4	2	5	1	3	0	5	1	4	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:156128511A>T	uc001fnl.2	+	6	568	c.464A>T	c.(463-465)GAA>GTA	p.E155V	SEMA4A_uc009wrq.2_Missense_Mutation_p.E155V|SEMA4A_uc001fnm.2_Missense_Mutation_p.E155V|SEMA4A_uc001fnn.2_Missense_Mutation_p.E23V|SEMA4A_uc001fno.2_Missense_Mutation_p.E155V	NM_022367	NP_071762	Q9H3S1	SEM4A_HUMAN	semaphorin B precursor	155	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					CCCATTTAGGAACTTCAAGAT	0.542													29	248					0	0	0.009535	0	0		T	156128511	T	T	156128511	3	4	111	1	0	0	0	0	1	0	0	0	14056	260	9	5	482	5	SEMA4A	1	156128511	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	3846905	156128511	93122110	15	65169											
MEF2D	4209	broad.mit.edu	37	chr1	156452386	156452386	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcacatagcacgctcagcTcatacgccttcttcatcagg	10	10	7	14	2	6	0	5	0	1	0	6	0	6	0	1	1	3	3	1	1	2	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:156452386T>G	uc001fpc.2	-	3	491	c.101A>C	c.(100-102)GAG>GCG	p.E34A	MEF2D_uc001fpb.2_Missense_Mutation_p.E34A|MEF2D_uc001fpd.2_Missense_Mutation_p.E34A|MEF2D_uc001fpe.1_Missense_Mutation_p.E34A|MEF2D_uc009wsa.2_RNA	NM_005920	NP_005911	Q14814	MEF2D_HUMAN	myocyte enhancer factor 2D	34	MADS-box.				apoptosis|muscle organ development|nervous system development|positive regulation of transcription from RNA polymerase II promoter	nucleus	activating transcription factor binding|histone deacetylase binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CACGCTCAGCTCATACGCCTT	0.547													21	270					0	0	0.008871	0	0		G	156452386	G	G	156452386	3	3	111	1	0	0	0	0	1	0	0	0	9476	1551	54	5	1504	5	MEF2D	1	156452386	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	323875	156452386	92798235	16	65170											
SPTA1	6708	broad.mit.edu	37	chr1	158621190	158621190	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccttctggtgttagaagTccttcaaatagtagatcatc	10	14	8	9	0	3	2	2	0	1	2	6	2	5	2	2	1	0	3	2	1	5	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:158621190T>C	uc001fst.1	-	24	3643	c.3444A>G	c.(3442-3444)GGA>GGG	p.G1148G		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1148	Spectrin 11.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					GTGTTAGAAGTCCTTCAAATA	0.453													42	346					0	0	0.009718	0	0		C	158621190	C	C	158621190	2	2	111	1	0	0	0	0	0	0	0	1	15141	1654	58	3		3	SPTA1	1	158621190	Silent	SNP	T	TCGA-CD-5813-01A-11D-1600-08	2168804	158621190	90629431	17	65171											
PBX1	5087	broad.mit.edu	37	chr1	164815824	164815824	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctttttcccttctaggctAatggaggttggcaggatgct	6	14	11	10	0	1	0	0	0	1	0	2	2	2	2	2	5	1	4	2	5	2	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:164815824A>G	uc001gct.2	+	9	1462	c.1204A>G	c.(1204-1206)AAT>GAT	p.N402D	PBX1_uc010pku.1_Intron|PBX1_uc010pkv.1_Missense_Mutation_p.N319D|PBX1_uc001gcs.2_3'UTR|PBX1_uc010pkw.1_Intron	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	402					negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						CTTCTAGGCTAATGGAGGTTG	0.438			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								29	121					0	0	0.017118	0	0		G	164815824	G	G	164815824	3	3	111	1	0	0	0	0	1	0	0	0	11511	362	13	3	1238	3	PBX1	1	164815824	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	6194634	164815824	84434797	18	65172											
HMCN1	83872	broad.mit.edu	37	chr1	186092230	186092230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggaatctatccgccagcGcgtcctcagctctggctctc	5	11	10	15	3	4	0	1	0	3	0	7	1	6	1	3	2	2	2	3	2	2	1	rs141573564	by1000genomes	TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:186092230G>A	uc001grq.1	+	81	12606	c.12377G>A	c.(12376-12378)CGC>CAC	p.R4126H		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4126	Ig-like C2-type 40.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						ATCCGCCAGCGCGTCCTCAGC	0.537													39	89					0	0	0.00874	0	0		A	186092230	A	A	186092230	3	1	111	1	0	0	0	0	1	0	0	0	7236	1087	38	1	12699	1	HMCN1	1	186092230	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	21276406	186092230	63158391	19	65173											
REN	5972	broad.mit.edu	37	chr1	204125386	204125386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgagatgtaggatgcacCggtgtctaccaatgccaggc	10	8	12	11	1	1	1	0	1	1	1	1	3	1	2	4	3	3	2	4	3	3	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:204125386C>T	uc001haq.2	-	8	924	c.880G>A	c.(880-882)GGT>AGT	p.G294S		NM_000537	NP_000528	P00797	RENI_HUMAN	renin preproprotein	294					angiotensin maturation|regulation of MAPKKK cascade	extracellular space|membrane	aspartic-type endopeptidase activity			skin(3)|central_nervous_system(1)	4	all_cancers(21;0.00965)|Breast(84;0.116)|all_epithelial(62;0.157)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)		Aliskiren(DB01258)|Remikiren(DB00212)	TAGGATGCACCGGTGTCTACC	0.483													21	266					0	0	0.008871	0	0		T	204125386	T	T	204125386	3	4	111	1	0	0	0	0	1	0	0	0	13249	652	23	1	352	1	REN	1	204125386	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	18033156	204125386	45125235	20	65174											
TMCC2	9911	broad.mit.edu	37	chr1	205210799	205210799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccccagatgagaaggagcGctctccggagatgcatcgcg	9	6	13	13	4	1	3	0	1	1	3	4	6	2	4	3	2	2	2	3	2	1	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:205210799G>A	uc001hbz.1	+	3	818	c.374G>A	c.(373-375)CGC>CAC	p.R125H	TMCC2_uc010prf.1_Missense_Mutation_p.R47H	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	125						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			GAGAAGGAGCGCTCTCCGGAG	0.652													12	33					0	0	0.016723	0	0		A	205210799	A	A	205210799	3	1	111	1	0	0	0	0	1	0	0	0	16018	1087	38	1	380	1	TMCC2	1	205210799	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	1085413	205210799	44039822	21	65175											
CAPN2	824	broad.mit.edu	37	chr1	223958166	223958166	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaaaatttaccgagaaatCgacgttgacaggtctggtac	14	9	10	8	3	1	3	0	1	1	2	2	5	1	3	1	2	2	2	1	2	5	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:223958166C>T	uc001hob.3	+	18	2066	c.1842C>T	c.(1840-1842)ATC>ATT	p.I614I	CAPN2_uc010puy.1_Silent_p.I536I|CAPN2_uc001hoc.2_Silent_p.I195I	NM_001748	NP_001739	P17655	CAN2_HUMAN	calpain 2 isoform 1	614	Domain IV.|EF-hand 2.				proteolysis	cytoplasm|plasma membrane				lung(3)|breast(1)|skin(1)	5				GBM - Glioblastoma multiforme(131;0.109)		ACCGAGAAATCGACGTTGACA	0.418													9	91					0	0	0.006214	0	0		T	223958166	T	T	223958166	2	4	111	1	0	0	0	0	0	0	0	1	2630	874	31	1		1	CAPN2	1	223958166	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	18747367	223958166	25292455	22	65176											
KIAA1804	84451	broad.mit.edu	37	chr1	233511747	233511748	+	Frame_Shift_Ins	INS	-	A	A																															atgtaaaaaggaattttaagINSaaaaaaggttgtacctgggg																										TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:233511747_233511748insA	uc001hvt.3	+	7	2022_2023	c.1761_1762insA	c.(1759-1764)AAGAAAfs	p.K587fs	KIAA1804_uc001hvu.3_Frame_Shift_Ins_p.K33fs	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	587_588					activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				GGAATTTTAAGAAAAAAGGTTG	0.351													40	92	---	---	---	---						.	A	233511748	A	A	233511747	7	5	111	1	0	1	1	0	0	0	0	0	8275	933	33	0	1787	0	KIAA1804	1	233511747	Frame_Shift_Ins	INS	-	TCGA-CD-5813-01A-11D-1600-08	9553581	233511747	15738874	23	65177											
KCNK1	3775	broad.mit.edu	37	chr1	233802387	233802387	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggaggtaaggccttctgCatcatctactccgtcattgg	8	12	11	10	1	4	0	2	0	2	0	5	2	5	1	2	4	2	2	2	4	2	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:233802387C>T	uc010pxo.1	+	2	570	c.402C>T	c.(400-402)TGC>TGT	p.C134C	KCNK1_uc001hvw.2_RNA|KCNK1_uc001hvx.2_RNA	NM_002245	NP_002236	O00180	KCNK1_HUMAN	potassium channel, subfamily K, member 1	134	Helical; (Potential).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			central_nervous_system(1)	1		all_cancers(173;0.00217)|all_epithelial(177;0.121)|Prostate(94;0.122)|Acute lymphoblastic leukemia(190;0.175)			Ibutilide(DB00308)|Quinidine(DB00908)	AGGCCTTCTGCATCATCTACT	0.567													24	70					0	0	0.016522	0	0		T	233802387	T	T	233802387	2	4	111	1	0	0	0	0	0	0	0	1	8074	718	25	2		2	KCNK1	1	233802387	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	290640	233802387	15448234	24	65178											
NLRP3	114548	broad.mit.edu	37	chr1	247587155	247587155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtctttgccgtagattaccGtaagaagtacagaaagtacg	13	11	10	7	3	1	3	0	0	1	3	1	3	1	3	2	0	4	4	2	0	7	6	rs138946894	byFrequency	TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr1:247587155G>A	uc001icr.2	+	5	548	c.410G>A	c.(409-411)CGT>CAT	p.R137H	NLRP3_uc001ics.2_Missense_Mutation_p.R137H|NLRP3_uc001icu.2_Missense_Mutation_p.R137H|NLRP3_uc001icw.2_Missense_Mutation_p.R137H|NLRP3_uc001icv.2_Missense_Mutation_p.R137H|NLRP3_uc010pyw.1_Missense_Mutation_p.R135H|NLRP3_uc001ict.1_Missense_Mutation_p.R135H	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	137					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			GTAGATTACCGTAAGAAGTAC	0.507													3	40					0	0	0.004672	0	0		A	247587155	A	A	247587155	3	1	111	1	0	0	0	0	1	0	0	0	10497	1145	40	1	420	1	NLRP3	1	247587155	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	13784768	247587155	1663466	25	65179											
ROCK2	9475	broad.mit.edu	37	chr2	11332458	11332458	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agaatttgctagtaataacaGattctttgccgttgaaatat	14	15	7	5	1	1	3	0	1	1	2	1	3	1	3	1	0	3	3	1	0	6	8			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:11332458G>C	uc002rbd.1	-	32	4428	c.3979C>G	c.(3979-3981)CTG>GTG	p.L1327V		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	1327	PH.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		AGTAATAACAGATTCTTTGCC	0.358													39	252					0	0	0.007835	0	0		C	11332458	C	C	11332458	3	2	111	1	0	0	0	0	1	0	0	0	13543	933	33	5	195	5	ROCK2	2	11332458	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08		11332458	231866915	26	65180											
AGBL5	60509	broad.mit.edu	37	chr2	27278683	27278683	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgaactcccagagttccTctgagcaccagcccagttcc	8	9	8	16	0	2	3	0	2	2	1	5	3	5	3	5	0	3	3	5	0	1	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:27278683T>C	uc002rie.2	+	7	1259	c.1042T>C	c.(1042-1044)TCT>CCT	p.S348P	AGBL5_uc002ric.2_Missense_Mutation_p.S348P|AGBL5_uc002rid.2_Missense_Mutation_p.S348P|AGBL5_uc002rif.2_RNA	NM_021831	NP_068603	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5 isoform 1	348					protein branching point deglutamylation|proteolysis	cytosol|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCAGAGTTCCTCTGAGCACCA	0.557													18	113					0	0	0.006122	0	0		C	27278683	C	C	27278683	3	2	111	1	0	0	0	0	1	0	0	0	378	1551	54	3	1064	3	AGBL5	2	27278683	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	15946225	27278683	215920690	27	65181											
ALK	238	broad.mit.edu	37	chr2	29416542	29416542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcacgtgtcccccttccaCggccggccctctagggactc	5	9	9	18	3	2	0	1	0	1	0	5	1	4	1	5	3	0	0	5	3	1	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:29416542C>T	uc002rmy.2	-	29	5318	c.4411G>A	c.(4411-4413)GTG>ATG	p.V1471M	ALK_uc010ymo.1_Missense_Mutation_p.V403M	NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	1471	Cytoplasmic (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity	p.V1471fs*45(1)	NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	CCCCCTTCCACGGCCGGCCCT	0.587			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				17	143					0	0	0.007413	0	0		T	29416542	T	T	29416542	3	4	111	1	0	0	0	0	1	0	0	0	525	536	19	1	455	1	ALK	2	29416542	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	2137859	29416542	213782831	28	65182											
QPCT	25797	broad.mit.edu	37	chr2	37580008	37580008	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccagtatctctgaaatgtGgcaaaatgacttacagccat	14	10	7	10	0	1	2	0	2	1	0	2	2	1	2	2	1	2	2	2	1	5	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:37580008G>T	uc002rqg.2	+	2	319	c.197G>T	c.(196-198)TGG>TTG	p.W66L	QPCT_uc002rqh.2_Intron	NM_012413	NP_036545	Q16769	QPCT_HUMAN	glutaminyl-peptide cyclotransferase precursor	66					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	extracellular region	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|zinc ion binding			central_nervous_system(1)	1		Ovarian(717;0.051)|all_hematologic(82;0.21)				TCTGAAATGTGGCAAAATGAC	0.463													21	127					4.63292e-17	5.14541e-17	0.008871	1	0		T	37580008	T	T	37580008	3	4	111	1	0	0	0	0	1	0	0	0	12899	1357	47	5	203	5	QPCT	2	37580008	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	8163466	37580008	205619365	29	65183											
PRKCE	5581	broad.mit.edu	37	chr2	46386767	46386767	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgacgaagaatccccacaAgcgcctgggctgtgtggcat	10	7	12	12	2	0	2	0	1	0	1	1	3	1	2	3	2	1	2	3	2	3	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:46386767A>C	uc002rut.2	+	14	2140	c.1943A>C	c.(1942-1944)AAG>ACG	p.K648T		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	648	Protein kinase.				activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			AATCCCCACAAGCGCCTGGGC	0.547													15	136					0	0	0.006122	0	0		C	46386767	C	C	46386767	3	2	111	1	0	0	0	0	1	0	0	0	12533	72	3	5	1997	5	PRKCE	2	46386767	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	8806759	46386767	196812606	30	65184											
CALM2	805	broad.mit.edu	37	chr2	47388867	47388867	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactgaaacatttaccttcaTagtttacttgaccatcacca	13	13	4	11	0	2	2	2	2	0	0	2	3	2	2	3	0	3	1	3	0	4	7			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:47388867T>C	uc002rvt.2	-	5	574	c.416A>G	c.(415-417)TAT>TGT	p.Y139C	C2orf61_uc010fbd.2_Intron|CALM2_uc010fbe.2_RNA	NM_001743	NP_001734	P62158	CALM_HUMAN	calmodulin 2	139	4.|EF-hand 4.				activation of phospholipase C activity|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen catabolic process|muscle contraction|negative regulation of ryanodine-sensitive calcium-release channel activity|nerve growth factor receptor signaling pathway|nitric oxide metabolic process|platelet activation|platelet degranulation|positive regulation of ryanodine-sensitive calcium-release channel activity|regulation of cytokinesis|regulation of nitric-oxide synthase activity|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to calcium ion|synaptic transmission	centrosome|cytosol|extracellular region|nucleoplasm|plasma membrane|spindle microtubule|spindle pole	calcium ion binding|N-terminal myristoylation domain binding|phospholipase binding|protein domain specific binding|thioesterase binding|titin binding	p.0?(2)			0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)		Aprindine(DB01429)|Bepridil(DB01244)|Dibucaine(DB00527)|Felodipine(DB01023)|Flunarizine(DB04841)|Fluphenazine(DB00623)|Isoflurane(DB00753)|Loperamide(DB00836)|Miconazole(DB01110)|Perphenazine(DB00850)|Phenoxybenzamine(DB00925)|Pimozide(DB01100)|Promethazine(DB01069)	TTTACCTTCATAGTTTACTTG	0.398													28	173					0	0	0.005443	0	0		C	47388867	C	C	47388867	3	2	111	1	0	0	0	0	1	0	0	0	2588	1406	49	3	41	3	CALM2	2	47388867	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	1002100	47388867	195810506	31	65185											
GTDC1	79712	broad.mit.edu	37	chr2	144966261	144966261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgcaggaagggtataaaCgacacagtctcctaactctt	12	11	8	10	1	2	0	0	0	2	0	3	2	2	1	1	2	3	2	1	2	5	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:144966261C>T	uc002tvp.2	-	4	367	c.88G>A	c.(88-90)GTT>ATT	p.V30I	GTDC1_uc002tvo.2_Missense_Mutation_p.V30I|GTDC1_uc002tvq.2_Missense_Mutation_p.V30I|GTDC1_uc002tvr.2_Missense_Mutation_p.V30I|GTDC1_uc010fnn.2_Missense_Mutation_p.V30I|GTDC1_uc002tvs.2_5'UTR|GTDC1_uc010fno.2_Intron|GTDC1_uc002tvt.1_Missense_Mutation_p.V30I	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	30					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		AGGGTATAAACGACACAGTCT	0.433													22	121					0	0	0.012319	0	0		T	144966261	T	T	144966261	3	4	111	1	0	0	0	0	1	0	0	0	6867	536	19	1	1324	1	GTDC1	2	144966261	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	97577394	144966261	98233112	32	65186											
PHOSPHO2	493911	broad.mit.edu	37	chr2	170557915	170557915	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatcatactcattcttgcaAtagatgcccaaagaatcttt	13	15	4	9	0	4	2	2	0	2	2	4	2	4	2	1	0	3	1	1	0	6	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:170557915A>G	uc002ufg.2	+	4	822	c.434A>G	c.(433-435)AAT>AGT	p.N145S	KLHL23_uc002ufh.1_Intron	NM_001008489	NP_001008489	Q8TCD6	PHOP2_HUMAN	phosphatase, orphan 2	145							metal ion binding|pyridoxal phosphatase activity			skin(1)	1						CATTCTTGCAATAGATGCCCA	0.313													21	129					0	0	0.008871	0	0		G	170557915	G	G	170557915	3	3	111	1	0	0	0	0	1	0	0	0	11876	101	4	3	436	3	PHOSPHO2	2	170557915	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	25591654	170557915	72641458	33	65187											
TTN	7273	broad.mit.edu	37	chr2	179395102	179395102	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggttttgaggaaattggttCaggagcttttggttcagttt	7	18	13	3	0	2	1	2	1	0	0	2	3	2	3	0	5	1	5	0	5	1	8			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:179395102C>G	uc010zfg.1	-	307	98760	c.98536G>C	c.(98536-98538)GAA>CAA	p.E32846Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E26541Q|TTN_uc010zfi.1_Missense_Mutation_p.E26474Q|TTN_uc010zfj.1_Missense_Mutation_p.E26349Q|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33773							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAAATTGGTTCAGGAGCTTTT	0.383													28	235					0	0	0.00632	0	0		G	179395102	G	G	179395102	3	3	111	1	0	0	0	0	1	0	0	0	16761	835	29	5	1759	5	TTN	2	179395102	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	8837187	179395102	63804271	34	65188											
TTN	7273	broad.mit.edu	37	chr2	179411375	179411375	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagattcagaccctttgcTaattacgcctgctgcattct	8	15	7	11	1	2	2	1	0	1	2	2	2	2	2	2	0	4	4	2	0	3	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:179411375T>G	uc010zfg.1	-	290	87300	c.87076A>C	c.(87076-87078)AGC>CGC	p.S29026R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S22721R|TTN_uc010zfi.1_Missense_Mutation_p.S22654R|TTN_uc010zfj.1_Missense_Mutation_p.S22529R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29953							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GACCCTTTGCTAATTACGCCT	0.413													10	74					0	0	0.006214	0	0		G	179411375	G	G	179411375	3	3	111	1	0	0	0	0	1	0	0	0	16761	1522	53	5	13287	5	TTN	2	179411375	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	16273	179411375	63787998	35	65189											
HIBCH	26275	broad.mit.edu	37	chr2	191069954	191069954	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggactctggtctttatcaatTaaaactgtcaagagaagata	15	12	8	6	0	4	2	2	0	2	2	4	4	4	3	0	2	1	0	0	2	7	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:191069954T>C	uc002uru.2	-	14	1133	c.1050A>G	c.(1048-1050)TTA>TTG	p.L350L	HIBCH_uc002urv.2_Silent_p.*339*	NM_014362	NP_055177	Q6NVY1	HIBCH_HUMAN	3-hydroxyisobutyryl-Coenzyme A hydrolase isoform	350					branched chain family amino acid catabolic process	mitochondrial matrix	3-hydroxyisobutyryl-CoA hydrolase activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000586)|Epithelial(96;0.0286)|all cancers(119;0.0814)			CTTTATCAATTAAAACTGTCA	0.308													5	93					0	0	0.014758	0	0		C	191069954	C	C	191069954	2	2	111	1	0	0	0	0	0	0	0	1	7116	1761	61	3		3	HIBCH	2	191069954	Silent	SNP	T	TCGA-CD-5813-01A-11D-1600-08	11658579	191069954	52129419	36	65190											
HECW2	57520	broad.mit.edu	37	chr2	197172769	197172769	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctgtttacgtgatccacGtagaagatcctgccgtggct	7	13	11	10	3	1	3	0	1	1	2	3	3	3	3	3	1	2	4	3	1	3	4	rs141027520		TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:197172769G>A	uc002utm.1	-	11	2658	c.2475C>T	c.(2473-2475)TAC>TAT	p.Y825Y	HECW2_uc002utl.1_Silent_p.Y469Y	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	825	Interaction with TP73.|WW 1.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						CGTGATCCACGTAGAAGATCC	0.552													8	32					0	0	0.004482	0	0		A	197172769	A	A	197172769	2	1	111	1	0	0	0	0	0	0	0	1	7059	1140	40	1		1	HECW2	2	197172769	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	6102815	197172769	46026604	37	65191											
ERBB4	2066	broad.mit.edu	37	chr2	212295795	212295795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgccaaatcccgatgaaCgagtcgtctttcttccaggt	8	11	10	12	3	2	1	0	1	2	0	5	3	4	1	3	2	2	1	3	2	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:212295795C>T	uc002veg.1	-	21	2616	c.2518G>A	c.(2518-2520)GTT>ATT	p.V840I	ERBB4_uc002veh.1_Missense_Mutation_p.V840I|ERBB4_uc010zji.1_Missense_Mutation_p.V830I|ERBB4_uc010zjj.1_Missense_Mutation_p.V830I	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	840	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TCCCGATGAACGAGTCGTCTT	0.393										TSP Lung(8;0.080)			32	151					0	0	0.012213	0	0		T	212295795	T	T	212295795	3	4	111	1	0	0	0	0	1	0	0	0	5217	536	19	1	1440	1	ERBB4	2	212295795	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	15123026	212295795	30903578	38	65192											
ABCA12	26154	broad.mit.edu	37	chr2	215884365	215884365	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtaagctggctgctatttcGgtgcccagctctgccgcttc	5	12	11	13	2	1	0	0	0	1	0	3	0	1	0	2	2	5	6	2	2	2	4	rs143605938		TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:215884365G>A	uc002vew.2	-	12	1663	c.1443C>T	c.(1441-1443)ACC>ACT	p.T481T	ABCA12_uc002vev.2_Silent_p.T163T|ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	481					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		CTGCTATTTCGGTGCCCAGCT	0.433													14	90					0	0	0.016723	0	0		A	215884365	A	A	215884365	2	1	111	1	0	0	0	0	0	0	0	1	30	1103	39	1		1	ABCA12	2	215884365	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	3588570	215884365	27315008	39	65193											
SP100	6672	broad.mit.edu	37	chr2	231371119	231371119	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catccaagaactggaagctaAgtatacgctgcggtggatat	13	9	11	8	2	0	1	0	0	0	1	1	3	1	3	1	3	4	3	1	3	7	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:231371119A>C	uc002vqt.2	+	22	2113	c.1972A>C	c.(1972-1974)AGT>CGT	p.S658R	SP100_uc002vqs.2_Missense_Mutation_p.S658R|SP100_uc002vqu.1_Missense_Mutation_p.S658R|SP100_uc010fxp.1_5'UTR	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	658	SAND.				DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CTGGAAGCTAAGTATACGCTG	0.448													11	73					0	0	0.010729	0	0		C	231371119	C	C	231371119	3	2	111	1	0	0	0	0	1	0	0	0	14985	72	3	5	2058	5	SP100	2	231371119	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	15486754	231371119	11828254	40	65194											
UGT1A5	54579	broad.mit.edu	37	chr2	234622228	234622228	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctcctatattcctagattActaacgaccaattcagacca	13	12	3	13	1	1	2	1	0	0	2	4	3	4	2	5	0	2	0	5	0	6	7			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:234622228A>G	uc002vuw.2	+	1	591	c.591A>G	c.(589-591)TTA>TTG	p.L197L	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Silent_p.L197L	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	197					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		TTCCTAGATTACTAACGACCA	0.458													44	319					0	0	0.013114	0	0		G	234622228	G	G	234622228	2	3	111	1	0	0	0	0	0	0	0	1	16974	388	14	3		3	UGT1A5	2	234622228	Silent	SNP	A	TCGA-CD-5813-01A-11D-1600-08	3251109	234622228	8577145	41	65195											
KLHL30	377007	broad.mit.edu	37	chr2	239059620	239059620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccacggcgccctgcccCggctctggctctaccacggg	3	5	12	21	5	2	0	0	0	2	0	2	0	2	0	6	4	2	2	6	4	1	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr2:239059620C>T	uc002vxr.1	+	7	1630	c.1597C>T	c.(1597-1599)CGG>TGG	p.R533W		NM_198582	NP_940984	Q0D2K2	KLH30_HUMAN	kelch-like 30	551	Kelch 6.										0		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;4.71e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.02e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.63e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000109)|Lung(119;0.0108)|LUSC - Lung squamous cell carcinoma(224;0.0253)		CGCCCTGCCCCGGCTCTGGCT	0.692													2	1					0	0	0.004672	0	0		T	239059620	T	T	239059620	3	4	111	1	0	0	0	0	1	0	0	0	8400	643	23	1	1677	1	KLHL30	2	239059620	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	4437392	239059620	4139753	42	65196											
CNTN4	152330	broad.mit.edu	37	chr3	2861193	2861193	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgacaactttaaaacaagaAcaagaagcactgtgtctgtc	16	10	7	8	0	1	3	0	1	1	2	2	3	1	3	0	0	4	1	0	0	7	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:2861193A>G	uc003bpc.2	+	6	603	c.382A>G	c.(382-384)ACA>GCA	p.T128A	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Missense_Mutation_p.T128A	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	128	Ig-like C2-type 2.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		TAAAACAAGAACAAGAAGCAC	0.408													10	70					0	0	0.006214	0	0		G	2861193	G	G	2861193	3	3	111	1	0	0	0	0	1	0	0	0	3646	43	2	3	396	3	CNTN4	3	2861193	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08		2861193	195161237	43	65197											
KAT2B	8850	broad.mit.edu	37	chr3	20193869	20193869	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caagaataggtactacgtgtCtaagaaattattcatggcag	15	11	9	6	1	2	2	1	0	1	2	2	2	2	2	0	2	2	2	0	2	8	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:20193869C>G	uc003cbq.2	+	18	2797	c.2351C>G	c.(2350-2352)TCT>TGT	p.S784C		NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	784	Bromo.				cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TACTACGTGTCTAAGAAATTA	0.403													12	96					0	0	0.020292	0	0		G	20193869	G	G	20193869	3	3	111	1	0	0	0	0	1	0	0	0	7998	913	32	5	2421	5	KAT2B	3	20193869	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	17332676	20193869	177828561	44	65198											
LAMB2	3913	broad.mit.edu	37	chr3	49162318	49162318	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggccacctggccttgatggGtccccaaagtgcccaggggc	6	6	14	15	1	0	1	0	1	0	0	1	1	1	1	6	5	1	0	6	5	1	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:49162318G>A	uc003cwe.2	-	21	3224	c.2925C>T	c.(2923-2925)GAC>GAT	p.D975D	LAMB2_uc003cwf.1_Silent_p.D975D	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	975	Laminin EGF-like 9.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GCCTTGATGGGTCCCCAAAGT	0.612													21	73					0	0	0.016522	0	0		A	49162318	A	A	49162318	2	1	111	1	0	0	0	0	0	0	0	1	8627	1252	44	4		4	LAMB2	3	49162318	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	28968449	49162318	148860112	45	65199											
GRM2	2912	broad.mit.edu	37	chr3	51749896	51749896	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctggctggtggtggaggcaCcgggcacaggcaaggagaca	9	4	18	10	1	0	1	0	0	0	1	0	3	0	2	2	8	0	4	2	8	1	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:51749896C>G	uc010hlv.2	+	4	2346	c.2107C>G	c.(2107-2109)CCG>GCG	p.P703A	GRM2_uc003dbo.3_Missense_Mutation_p.P85A|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	703	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	GGTGGAGGCACCGGGCACAGG	0.647													3	20					0	0	0.014758	0	0		G	51749896	G	G	51749896	3	3	111	1	0	0	0	0	1	0	0	0	6813	507	18	5	2117	5	GRM2	3	51749896	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	2587578	51749896	146272534	46	65200											
PBRM1	55193	broad.mit.edu	37	chr3	52613217	52613217	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggacatcttctttttccTgttgtaaagaaaactggctg	10	14	9	8	0	2	1	0	0	2	1	3	2	3	2	1	2	1	3	1	2	4	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:52613217T>G	uc003des.2	-	21	3400	c.3388_splice	c.e21-1	p.E1130_splice	PBRM1_uc003dex.2_Splice_Site|PBRM1_uc003deq.2_Splice_Site_p.E1130_splice|PBRM1_uc003der.2_Splice_Site_p.E1098_splice|PBRM1_uc003det.2_Splice_Site_p.E1145_splice|PBRM1_uc003deu.2_Splice_Site_p.E1145_splice|PBRM1_uc003dev.2_Splice_Site|PBRM1_uc003dew.2_Splice_Site_p.E1130_splice|PBRM1_uc010hmk.1_Splice_Site_p.E1105_splice|PBRM1_uc003dey.2_Splice_Site_p.E1105_splice|PBRM1_uc003dez.1_Splice_Site_p.E1129_splice	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4						chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TTCTTTTTCCTGTTGTAAAGA	0.398			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								29	155					0	0	0.007291	0	0		G	52613217	G	G	52613217	5	3	111	1	0	0	0	0	0	0	1	0	11510	1594	55	5	1554	5	PBRM1	3	52613217	Splice_Site	SNP	T	TCGA-CD-5813-01A-11D-1600-08	863321	52613217	145409213	47	65201											
CADPS	8618	broad.mit.edu	37	chr3	62739191	62739191	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaacatctcatagagttgCtccttgctcagaatcagctc	10	12	8	11	0	3	2	3	0	1	2	6	3	4	3	1	1	4	4	1	1	3	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:62739191C>T	uc003dll.2	-	3	1173	c.813G>A	c.(811-813)GAG>GAA	p.E271E	CADPS_uc003dlm.2_Silent_p.E271E|CADPS_uc003dln.2_Silent_p.E271E	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	271					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		CATAGAGTTGCTCCTTGCTCA	0.537													14	109					0	0	0.020292	0	0		T	62739191	T	T	62739191	2	4	111	1	0	0	0	0	0	0	0	1	2573	796	28	2		2	CADPS	3	62739191	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	10125974	62739191	135283239	48	65202											
PRICKLE2	166336	broad.mit.edu	37	chr3	64133178	64133178	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgggactccttggcccTggcgttctggaaggcggaat	5	8	16	12	4	1	0	0	0	1	0	2	3	2	3	3	6	0	1	3	6	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:64133178T>C	uc003dmf.2	-	7	1574	c.988A>G	c.(988-990)AGG>GGG	p.R330G		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	330						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		TCCTTGGCCCTGGCGTTCTGG	0.582													22	166					0	0	0.012319	0	0		C	64133178	C	C	64133178	3	2	111	1	0	0	0	0	1	0	0	0	12509	1579	55	3	1554	3	PRICKLE2	3	64133178	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	1393987	64133178	133889252	49	65203											
MAGI1	9223	broad.mit.edu	37	chr3	66023967	66023967	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtccagtggttcttcttcTggatcactttggacatgatg	7	16	10	8	0	4	1	1	1	3	0	5	3	5	3	1	3	0	1	1	3	1	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:66023967T>A	uc003dmn.2	-	1	543	c.17A>T	c.(16-18)CAG>CTG	p.Q6L	MAGI1_uc003dmm.2_Missense_Mutation_p.Q6L|MAGI1_uc003dmo.2_Missense_Mutation_p.Q6L|MAGI1_uc003dmp.2_Missense_Mutation_p.Q6L|MAGI1_uc003dmr.2_Missense_Mutation_p.Q6L	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	6					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		GTTCTTCTTCTGGATCACTTT	0.597													15	110					0	0	0.003163	0	0		A	66023967	A	A	66023967	3	1	111	1	0	0	0	0	1	0	0	0	9208	1580	55	5	4697	5	MAGI1	3	66023967	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	1890789	66023967	131998463	50	65204											
CRYBG3	131544	broad.mit.edu	37	chr3	97596094	97596094	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtatgcttccgcagaagcaaGacaaacacagtctgtcttgt	12	10	9	10	1	2	2	0	0	2	2	3	2	3	2	1	0	3	4	1	0	4	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:97596094G>C	uc003drx.2	+	1	276	c.212G>C	c.(211-213)AGA>ACA	p.R71T		NM_153605	NP_705833			beta-gamma crystallin domain containing 3												0						GCAGAAGCAAGACAAACACAG	0.423													18	85					0	0	0.008871	0	0		C	97596094	C	C	97596094	3	2	111	1	0	0	0	0	1	0	0	0	3916	942	33	5	214	5	CRYBG3	3	97596094	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	31572127	97596094	100426336	51	65205											
EPHB1	2047	broad.mit.edu	37	chr3	134514496	134514496	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctggattatctactacTgctcctcctggcatccgcag	6	11	9	15	1	1	0	0	0	1	0	4	1	4	1	4	3	3	3	4	3	3	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:134514496T>A	uc003eqt.2	+	1	243	c.23T>A	c.(22-24)CTG>CAG	p.L8Q	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_Missense_Mutation_p.L8Q	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	8						integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						TATCTACTACTGCTCCTCCTG	0.697													6	44					0	0	0.016723	0	0		A	134514496	A	A	134514496	3	1	111	1	0	0	0	0	1	0	0	0	5182	1580	55	5	25	5	EPHB1	3	134514496	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	36918402	134514496	63507934	52	65206											
EPHB1	2047	broad.mit.edu	37	chr3	134968251	134968251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggatgactggctcagcGccatcaaaatggtccagtac	10	8	11	12	2	2	1	2	1	0	0	3	2	3	2	3	3	2	2	3	3	3	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:134968251G>A	uc003eqt.2	+	15	2984	c.2764G>A	c.(2764-2766)GCC>ACC	p.A922T	EPHB1_uc003equ.2_Missense_Mutation_p.A483T	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	922	Cytoplasmic (Potential).|SAM.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						CTGGCTCAGCGCCATCAAAAT	0.577													30	107					0	0	0.008361	0	0		A	134968251	A	A	134968251	3	1	111	1	0	0	0	0	1	0	0	0	5182	1087	38	1	2822	1	EPHB1	3	134968251	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	453755	134968251	63054179	53	65207											
PPP2R3A	5523	broad.mit.edu	37	chr3	135801212	135801212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aattctgggaactagatactGatcacgacctctacatcagc	13	10	7	11	1	4	2	2	1	2	1	4	4	4	3	1	1	4	0	1	1	5	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:135801212G>A	uc003eqv.1	+	8	3302	c.2737G>A	c.(2737-2739)GAT>AAT	p.D913N	PPP2R3A_uc011blz.1_Missense_Mutation_p.D177N|PPP2R3A_uc003eqw.1_Missense_Mutation_p.D292N|PPP2R3A_uc011bma.1_RNA	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	913					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						ACTAGATACTGATCACGACCT	0.358													23	151					0	0	0.014323	0	0		A	135801212	A	A	135801212	3	1	111	1	0	0	0	0	1	0	0	0	12410	1290	45	4	2899	4	PPP2R3A	3	135801212	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	832961	135801212	62221218	54	65208											
STAG1	10274	broad.mit.edu	37	chr3	136062737	136062737	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttgaatctggtctcccatgGgccgactgttctcccgcagt	5	12	10	14	2	3	1	0	1	3	0	5	2	3	1	3	2	0	2	3	2	1	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr3:136062737G>T	uc003era.1	-	30	3675	c.3383C>A	c.(3382-3384)CCC>CAC	p.P1128H	STAG1_uc003erb.1_Missense_Mutation_p.P1128H	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	1128					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						GTCTCCCATGGGCCGACTGTT	0.468													14	99					0.000422831	0.000442211	0.004007	1	0		T	136062737	T	T	136062737	3	4	111	1	0	0	0	0	1	0	0	0	15267	1232	43	5	413	5	STAG1	3	136062737	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	261525	136062737	61959693	55	65209											
HAUS3	79441	broad.mit.edu	37	chr4	2242267	2242267	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttctttagcatttaacCtcagagatttgtggctagtt	8	18	7	8	0	3	1	1	0	2	1	3	2	3	1	1	1	2	3	1	1	3	9			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr4:2242267C>G	uc003ges.1	-	2	637	c.407G>C	c.(406-408)AGG>ACG	p.R136T	POLN_uc011bvi.1_Intron|HAUS3_uc011bvj.1_Missense_Mutation_p.R136T|HAUS3_uc003get.1_Missense_Mutation_p.R136T	NM_024511	NP_078787	Q68CZ6	HAUS3_HUMAN	HAUS augmin-like complex, subunit 3	136	Potential.				cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				large_intestine(2)|breast(2)	4						AGCATTTAACCTCAGAGATTT	0.333													25	111					0	0	0.007291	0	0		G	2242267	G	G	2242267	3	3	111	1	0	0	0	0	1	0	0	0	6983	681	24	5	1420	5	HAUS3	4	2242267	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08		2242267	188912009	56	65210											
REST	5978	broad.mit.edu	37	chr4	57797539	57797539	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggagcaagtccttattGaagttggcttagtgcctgtt	9	13	13	6	0	0	1	0	1	0	0	1	3	1	3	2	3	2	4	2	3	5	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr4:57797539G>T	uc003hch.2	+	4	2862	c.2515G>T	c.(2515-2517)GAA>TAA	p.E839*	REST_uc003hci.2_Nonsense_Mutation_p.E839*|REST_uc010ihf.2_Nonsense_Mutation_p.E513*	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	839					cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					AGTCCTTATTGAAGTTGGCTT	0.438													37	253					2.87052e-16	3.17401e-16	0.005524	1	0		T	57797539	T	T	57797539	4	4	111	1	0	0	0	0	0	1	0	0	13259	1291	45	5	2525	5	REST	4	57797539	Nonsense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	55555272	57797539	133356737	57	65211											
TET2	54790	broad.mit.edu	37	chr4	106158510	106158510	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatcttgcagatgtgtaggTaagtgccagaaatgtactga	12	11	11	7	0	1	3	0	1	1	2	1	3	1	3	2	1	3	4	2	1	4	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr4:106158510T>C	uc003hxk.2	+	3	3795	c.3409_splice	c.e3+2	p.E1137_splice	TET2_uc011cez.1_Splice_Site_p.E1158_splice|TET2_uc003hxj.2_Splice_Site|TET2_uc010ilp.1_Splice_Site_p.E1137_splice|TET2_uc003hxi.1_Silent_p.G1137G	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a						cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		GATGTGTAGGTAAGTGCCAGA	0.343			Mis N|F		MDS								24	136					0	0	0.01892	0	0		C	106158510	C	C	106158510	5	2	111	1	0	0	0	0	0	0	1	0	15795	1652	57	3	3413	3	TET2	4	106158510	Splice_Site	SNP	T	TCGA-CD-5813-01A-11D-1600-08	48360971	106158510	84995766	58	65212											
ANKRD50	57182	broad.mit.edu	37	chr4	125590479	125590479	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggcatttgtttaggtGgtgcagcagtcccggatttg	5	14	14	8	1	0	0	0	0	0	0	1	1	1	1	1	4	3	5	1	4	1	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr4:125590479G>A	uc003ifg.3	-	3	4219	c.3953C>T	c.(3952-3954)CCA>CTA	p.P1318L	ANKRD50_uc011cgo.1_Missense_Mutation_p.P1139L|ANKRD50_uc010inw.2_Missense_Mutation_p.P1318L	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	1318										central_nervous_system(1)	1						TTGTTTAGGTGGTGCAGCAGT	0.398													63	277					0	0	0.01441	0	0		A	125590479	A	A	125590479	3	1	111	1	0	0	0	0	1	0	0	0	677	1348	47	4	340	4	ANKRD50	4	125590479	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	19431969	125590479	65563797	59	65213											
CCT5	22948	broad.mit.edu	37	chr5	10262642	10262642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatgctttgtgtgtcatccGgaacctcatccgcgataatc	8	12	9	12	4	2	0	2	0	0	0	5	3	4	1	3	1	2	1	3	1	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr5:10262642G>A	uc003jeq.2	+	9	1400	c.1229G>A	c.(1228-1230)CGG>CAG	p.R410Q	CCT5_uc003jer.2_Missense_Mutation_p.R410Q|CCT5_uc010its.2_Missense_Mutation_p.R410Q|CCT5_uc011cmr.1_Missense_Mutation_p.R355Q|CCT5_uc011cms.1_Missense_Mutation_p.R372Q|CCT5_uc011cmt.1_Missense_Mutation_p.R317Q	NM_012073	NP_036205	P48643	TCPE_HUMAN	chaperonin containing TCP1, subunit 5 (epsilon)	410					'de novo' posttranslational protein folding|response to virus	microtubule organizing center|nucleolus	ATP binding|unfolded protein binding			ovary(2)	2						TGTGTCATCCGGAACCTCATC	0.483													5	105					0	0	0.001168	0	0		A	10262642	A	A	10262642	3	1	111	1	0	0	0	0	1	0	0	0	2959	1116	39	1	1263	1	CCT5	5	10262642	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08		10262642	170652618	60	65214											
CDH18	1016	broad.mit.edu	37	chr5	19591325	19591325	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctgaaccaacttgagcTgactcaggaacatatagctg	14	8	9	10	0	1	3	1	3	0	0	1	4	1	4	1	1	6	3	1	1	5	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr5:19591325T>C	uc003jgc.2	-	6	1217	c.840A>G	c.(838-840)TCA>TCG	p.S280S	CDH18_uc003jgd.2_Silent_p.S280S|CDH18_uc011cnm.1_Silent_p.S280S	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	280	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CAACTTGAGCTGACTCAGGAA	0.353													36	80					0	0	0.00623	0	0		C	19591325	C	C	19591325	2	2	111	1	0	0	0	0	0	0	0	1	3106	1567	55	3		3	CDH18	5	19591325	Silent	SNP	T	TCGA-CD-5813-01A-11D-1600-08	9328683	19591325	161323935	61	65215											
CDH9	1007	broad.mit.edu	37	chr5	26889953	26889953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gattttatttacctgcccagGttttgcattttcacaaacaa	11	16	5	9	0	1	0	1	0	0	0	1	1	1	0	2	1	4	2	2	1	4	8			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr5:26889953G>A	uc003jgs.1	-	9	1673	c.1504C>T	c.(1504-1506)CCT>TCT	p.P502S	CDH9_uc011cnv.1_Missense_Mutation_p.P95S	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	502	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						ACCTGCCCAGGTTTTGCATTT	0.308													23	67					0	0	0.016522	0	0		A	26889953	A	A	26889953	3	1	111	1	0	0	0	0	1	0	0	0	3120	1261	44	4	881	4	CDH9	5	26889953	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	7298628	26889953	154025307	62	65216											
TTC37	9652	broad.mit.edu	37	chr5	94849310	94849310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgtagtgtgcctgaagagatCcatggtgtcataacttccaa	11	12	10	8	0	1	2	1	1	0	1	3	3	3	2	3	1	2	1	3	1	4	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr5:94849310C>T	uc003klb.2	-	27	3013	c.2743G>A	c.(2743-2745)GAT>AAT	p.D915N		NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	915							binding			ovary(3)|pancreas(1)	4						CTGAAGAGATCCATGGTGTCA	0.333													28	88					0	0	0.008361	0	0		T	94849310	T	T	94849310	3	4	111	1	0	0	0	0	1	0	0	0	16731	855	30	4	2019	4	TTC37	5	94849310	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	67959357	94849310	86065950	63	65217											
SLC25A46	91137	broad.mit.edu	37	chr5	110091222	110091222	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacaccttctactgaaatcGtaagtatcaaaaaatggcat	17	10	6	8	1	2	1	1	1	1	0	3	2	2	1	1	1	2	3	1	1	8	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr5:110091222G>A	uc003koz.2	+	6	687	c.620_splice	c.e6+1	p.S207_splice	SLC25A46_uc011cvi.1_Splice_Site_p.S116_splice	NM_138773	NP_620128	Q96AG3	S2546_HUMAN	solute carrier family 25, member 46						transport	integral to membrane|mitochondrial inner membrane					0		all_cancers(142;0.00203)|all_epithelial(76;4.52e-05)|Prostate(80;0.0115)|Colorectal(57;0.0676)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;2.58e-09)|Epithelial(69;7.29e-08)|all cancers(49;9.35e-06)|COAD - Colon adenocarcinoma(37;0.211)		TACTGAAATCGTAAGTATCAA	0.269													15	55					0	0	0.007413	0	0		A	110091222	A	A	110091222	5	1	111	1	0	0	0	0	0	0	1	0	14536	1159	40	1	643	1	SLC25A46	5	110091222	Splice_Site	SNP	G	TCGA-CD-5813-01A-11D-1600-08	15241912	110091222	70824038	64	65218											
YTHDC2	64848	broad.mit.edu	37	chr5	112884712	112884712	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgtggatcttctagaatcTtacaggtaaaactttgtact	12	16	7	6	0	3	1	0	0	3	1	3	2	3	2	0	2	3	2	0	2	6	7			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr5:112884712T>A	uc003kqn.2	+	12	1866	c.1683T>A	c.(1681-1683)TCT>TCA	p.S561S	YTHDC2_uc010jce.1_Silent_p.S561S|YTHDC2_uc010jcf.1_Silent_p.S261S	NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	561	ANK 2.						ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		TTCTAGAATCTTACAGGTAAA	0.318													17	128					0	0	0.00499	0	0		A	112884712	A	A	112884712	2	1	111	1	0	0	0	0	0	0	0	1	17523	1596	56	5		5	YTHDC2	5	112884712	Silent	SNP	T	TCGA-CD-5813-01A-11D-1600-08	2793490	112884712	68030548	65	65219											
KCNN2	3781	broad.mit.edu	37	chr5	113822818	113822818	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatacaaagctagtgaaaaaGatagatcatgcaaaagtaag	22	7	8	4	0	1	3	1	1	0	2	1	3	1	3	0	0	3	3	0	0	10	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr5:113822818G>C	uc003kqo.2	+	6	1783	c.1326G>C	c.(1324-1326)AAG>AAC	p.K442N	KCNN2_uc003kqp.2_Missense_Mutation_p.K94N|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	442	Calmodulin-binding (By similarity).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		TAGTGAAAAAGATAGATCATG	0.338													47	126					0	0	0.010771	0	0		C	113822818	C	C	113822818	3	2	111	1	0	0	0	0	1	0	0	0	8095	933	33	5	1348	5	KCNN2	5	113822818	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	938106	113822818	67092442	66	65220											
PCDH12	51294	broad.mit.edu	37	chr5	141334943	141334943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgccttgattacgcagcGtcctgtacagggtcggggtg	5	11	16	9	3	0	1	0	1	0	0	2	1	1	1	2	4	4	3	2	4	2	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr5:141334943G>A	uc003llx.2	-	1	3685	c.2474C>T	c.(2473-2475)ACG>ATG	p.T825M		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	825	Cytoplasmic (Potential).				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTACGCAGCGTCCTGTACAG	0.622													8	45					0	0	0.006214	0	0		A	141334943	A	A	141334943	3	1	111	1	0	0	0	0	1	0	0	0	11529	1145	40	1	1096	1	PCDH12	5	141334943	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	27512125	141334943	39580317	67	65221											
JAKMIP2	9832	broad.mit.edu	37	chr5	147024547	147024547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acattgcttttcggtttcccGcacacgttttaactgggaag	8	14	9	10	3	0	0	0	0	0	0	2	1	1	1	1	2	2	4	1	2	2	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr5:147024547G>A	uc003loq.1	-	6	1331	c.949C>T	c.(949-951)CGG>TGG	p.R317W	JAKMIP2_uc011dbx.1_Missense_Mutation_p.R275W|JAKMIP2_uc003lor.1_Missense_Mutation_p.R317W|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.R317W	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	317	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGGTTTCCCGCACACGTTTT	0.498													6	214					0	0	0.001168	0	0		A	147024547	A	A	147024547	3	1	111	1	0	0	0	0	1	0	0	0	7957	1086	38	1	1547	1	JAKMIP2	5	147024547	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	5689604	147024547	33890713	68	65222											
ODZ2	57451	broad.mit.edu	37	chr5	167643779	167643779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgtcttgctcaggtattgCagtagacaagaatgggctca	10	12	11	8	0	3	2	2	0	1	2	3	2	3	2	0	2	2	5	0	2	4	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr5:167643779C>T	uc010jjd.2	+	22	4058	c.4058C>T	c.(4057-4059)GCA>GTA	p.A1353V	ODZ2_uc003lzr.3_Missense_Mutation_p.A1123V|ODZ2_uc003lzt.3_Missense_Mutation_p.A726V|ODZ2_uc010jje.2_Missense_Mutation_p.A617V	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		TCAGGTATTGCAGTAGACAAG	0.517													8	66					0	0	0.008291	0	0		T	167643779	T	T	167643779	3	4	111	1	0	0	0	0	1	0	0	0	10854	710	25	2	4144	2	ODZ2	5	167643779	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	20619232	167643779	13271481	69	65223											
DDX41	51428	broad.mit.edu	37	chr5	176941731	176941731	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctccatctgctctttcacGgacatgcccccaatgcagag	8	10	8	15	1	4	1	1	0	3	1	5	2	4	2	3	1	3	2	3	1	1	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr5:176941731G>A	uc003mho.2	-	9	927	c.906C>T	c.(904-906)TCC>TCT	p.S302S	DDX41_uc003mhm.2_Silent_p.S82S|DDX41_uc003mhn.2_Silent_p.S171S|DDX41_uc003mhp.2_Silent_p.S171S|DDX41_uc003mhq.1_Silent_p.S82S	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	302	Helicase ATP-binding.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			GCTCTTTCACGGACATGCCCC	0.622													46	237					0	0	0.01441	0	0		A	176941731	A	A	176941731	2	1	111	1	0	0	0	0	0	0	0	1	4364	1103	39	1		1	DDX41	5	176941731	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	9297952	176941731	3973529	70	65224											
GCM2	9247	broad.mit.edu	37	chr6	10876784	10876784	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaatgacagttagggcatGccttctctgcaaagcccaga	12	8	10	11	0	1	3	0	1	1	2	2	3	1	3	2	1	3	3	2	1	3	2	rs35786951	byFrequency	TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr6:10876784G>T	uc003mzn.3	-	3	422	c.350C>A	c.(349-351)GCA>GAA	p.A117E	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	117	GCM.				cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				GTTAGGGCATGCCTTCTCTGC	0.493													9	88					2.17888e-05	2.31737e-05	0.006214	1	0		T	10876784	T	T	10876784	3	4	111	1	0	0	0	0	1	0	0	0	6313	1319	46	5	1182	5	GCM2	6	10876784	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08		10876784	160238283	71	65225											
BAI3	577	broad.mit.edu	37	chr6	70049307	70049307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctggccatgacagataaaCgctccatattgtttcaaata	13	13	6	9	1	2	2	1	1	1	1	3	2	3	2	2	1	1	2	2	1	5	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr6:70049307C>T	uc003pev.3	+	26	3818	c.3370C>T	c.(3370-3372)CGC>TGC	p.R1124C	BAI3_uc010kak.2_Missense_Mutation_p.R1124C|BAI3_uc011dxx.1_Missense_Mutation_p.R330C|BAI3_uc003pex.1_Missense_Mutation_p.R254C	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1124	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity	p.R1124C(1)		lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				GACAGATAAACGCTCCATATT	0.468													51	342					0	0	0.01441	0	0		T	70049307	T	T	70049307	3	4	111	1	0	0	0	0	1	0	0	0	1301	536	19	1	3464	1	BAI3	6	70049307	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	59172523	70049307	101065760	72	65226											
LMBRD1	55788	broad.mit.edu	37	chr6	70428852	70428852	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caaaacatcaactcacttttGatttaatcgtttgaatgtgt	13	16	5	7	1	2	2	2	2	0	0	3	2	2	2	0	0	2	1	0	0	5	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr6:70428852G>C	uc003pfa.2	-	8	873	c.758C>G	c.(757-759)TCA>TGA	p.S253*	LMBRD1_uc003pey.2_Nonsense_Mutation_p.S49*|LMBRD1_uc003pez.2_Nonsense_Mutation_p.S180*|LMBRD1_uc010kal.2_Nonsense_Mutation_p.S180*|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	253	Cytoplasmic (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						ACTCACTTTTGATTTAATCGT	0.353													4	116					0	0	0.001168	0	0		C	70428852	C	C	70428852	4	2	111	1	0	0	0	0	0	1	0	0	8859	1294	45	5	900	5	LMBRD1	6	70428852	Nonsense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	379545	70428852	100686215	73	65227											
DOPEY1	23033	broad.mit.edu	37	chr6	83847707	83847707	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acaagaaaaaatcttcaaatGaaaaactcaaacaaaccagt	24	6	3	8	0	3	2	2	1	1	1	3	2	3	2	1	0	3	0	1	0	9	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr6:83847707G>C	uc003pjs.1	+	21	4206	c.3946G>C	c.(3946-3948)GAA>CAA	p.E1316Q	DOPEY1_uc011dyy.1_Missense_Mutation_p.E1307Q|DOPEY1_uc010kbl.1_Missense_Mutation_p.E1307Q|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1316					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		ATCTTCAAATGAAAAACTCAA	0.368													15	93					0	0	0.004007	0	0		C	83847707	C	C	83847707	3	2	111	1	0	0	0	0	1	0	0	0	4713	1291	45	5	4020	5	DOPEY1	6	83847707	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	13418855	83847707	87267360	74	65228											
C6orf168	84553	broad.mit.edu	37	chr6	99797102	99797102	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgccatgatcccaccgtaAtcctgcaaagggaaagcgat	12	7	9	13	2	0	1	0	1	0	0	2	3	2	2	5	1	3	2	5	1	3	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr6:99797102A>C	uc003ppj.3	-	1	430	c.147T>G	c.(145-147)GAT>GAG	p.D49E		NM_032511	NP_115900	Q5TGI0	CF168_HUMAN	hypothetical protein LOC84553	49										ovary(2)|central_nervous_system(1)	3		all_cancers(76;1.63e-06)|Acute lymphoblastic leukemia(125;5.12e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00898)|Colorectal(196;0.0699)|Lung NSC(302;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.073)		TCCCACCGTAATCCTGCAAAG	0.587													7	80					0	0	0.00308	0	0		C	99797102	C	C	99797102	3	2	111	1	0	0	0	0	1	0	0	0	2346	98	4	5	1106	5	C6orf168	6	99797102	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	15949395	99797102	71317965	75	65229											
DGKB	1607	broad.mit.edu	37	chr7	14775679	14775679	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttaccgcctgataggagAgcaggcttactttttaccat	11	12	8	10	1	0	2	0	1	0	1	0	3	0	2	3	2	5	2	3	2	5	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr7:14775679A>T	uc003ssz.2	-	4	496	c.309T>A	c.(307-309)GCT>GCA	p.A103A	DGKB_uc011jxt.1_Silent_p.A96A|DGKB_uc003sta.2_Silent_p.A103A|DGKB_uc011jxu.1_Silent_p.A103A|DGKB_uc011jxv.1_Silent_p.A103A	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	103					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	CTGATAGGAGAGCAGGCTTAC	0.343													4	30					0	0	0.009096	0	0		T	14775679	T	T	14775679	2	4	111	1	0	0	0	0	0	0	0	1	4472	291	11	5		5	DGKB	7	14775679	Silent	SNP	A	TCGA-CD-5813-01A-11D-1600-08		14775679	144362984	76	65230											
PRPS1L1	221823	broad.mit.edu	37	chr7	18067043	18067043	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatggtgatgatatgatcCgcacctgctatagagagcat	11	11	10	9	1	0	4	0	3	0	1	2	5	2	4	3	1	2	3	3	1	3	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr7:18067043C>T	uc003stz.2	-	1	444	c.363G>A	c.(361-363)GCG>GCA	p.A121A		NM_175886	NP_787082	P21108	PRPS3_HUMAN	phosphoribosyl pyrophosphate synthetase 1-like	121					nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			ovary(1)	1	Lung NSC(10;0.0385)|all_lung(11;0.0736)					TGATATGATCCGCACCTGCTA	0.468													58	159					0	0	0.01441	0	0		T	18067043	T	T	18067043	2	4	111	1	0	0	0	0	0	0	0	1	12601	639	23	1		1	PRPS1L1	7	18067043	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	3291364	18067043	141071620	77	65231											
C7orf31	136895	broad.mit.edu	37	chr7	25176344	25176344	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcctccagagaacgtcggttCtgaattaatcgggcaattcg	10	10	11	10	4	1	2	0	1	1	1	5	3	2	2	2	2	1	2	2	2	4	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr7:25176344C>G	uc003sxn.1	-	10	1581	c.1020G>C	c.(1018-1020)CAG>CAC	p.Q340H	C7orf31_uc003sxm.1_Missense_Mutation_p.Q182H	NM_138811	NP_620166	Q8N865	CG031_HUMAN	hypothetical protein LOC136895	340											0						AACGTCGGTTCTGAATTAATC	0.428													11	392					0	0	0.008291	0	0		G	25176344	G	G	25176344	3	3	111	1	0	0	0	0	1	0	0	0	2390	912	32	5	756	5	C7orf31	7	25176344	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	7109301	25176344	133962319	78	65232											
PDE1C	5137	broad.mit.edu	37	chr7	31815302	31815302	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgtaaggcgacacgtggAgctggtgcttggggctggtg	7	8	18	8	3	0	0	0	0	0	0	0	2	0	1	0	6	3	4	0	6	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr7:31815302A>T	uc003tcm.1	-	17	2405	c.1936T>A	c.(1936-1938)TCC>ACC	p.S646T	PDE1C_uc003tcn.1_Missense_Mutation_p.S646T|PDE1C_uc003tco.1_Missense_Mutation_p.S706T	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	646					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			CGACACGTGGAGCTGGTGCTT	0.498													9	49					0	0	0.008291	0	0		T	31815302	T	T	31815302	3	4	111	1	0	0	0	0	1	0	0	0	11654	319	11	5		5	PDE1C	7	31815302	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	6638958	31815302	127323361	79	65233											
HECW1	23072	broad.mit.edu	37	chr7	43547678	43547678	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaggtgatggcctattcgCggaaagagctccagcgaaac	12	7	12	10	3	1	2	1	1	0	1	3	4	2	3	2	3	3	1	2	3	3	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr7:43547678C>T	uc003tid.1	+	23	4419	c.3814C>T	c.(3814-3816)CGG>TGG	p.R1272W	HECW1_uc011kbi.1_Missense_Mutation_p.R1238W	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1272	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GGCCTATTCGCGGAAAGAGCT	0.542													11	70					0	0	0.013537	0	0		T	43547678	T	T	43547678	3	4	111	1	0	0	0	0	1	0	0	0	7058	759	27	1	3896	1	HECW1	7	43547678	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	11732376	43547678	115590985	80	65234											
VWC2	375567	broad.mit.edu	37	chr7	49951740	49951740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggcacatggagaatcgagCggcaggccatgtgcacgaga	13	4	15	9	3	0	2	0	0	0	2	1	5	0	2	1	4	2	3	1	4	2	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr7:49951740C>T	uc003tot.1	+	4	1493	c.937C>T	c.(937-939)CGG>TGG	p.R313W		NM_198570	NP_940972	Q2TAL6	VWC2_HUMAN	von Willebrand factor C domain containing 2	313					negative regulation of BMP signaling pathway|positive regulation of neuron differentiation	basement membrane|extracellular space					0						GAGAATCGAGCGGCAGGCCAT	0.483													9	62					0	0	0.008291	0	0		T	49951740	T	T	49951740	3	4	111	1	0	0	0	0	1	0	0	0	17269	759	27	1	947	1	VWC2	7	49951740	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	6404062	49951740	109186923	81	65235											
GBAS	2631	broad.mit.edu	37	chr7	56062651	56062651	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggattcttctctcagattGggcagctgtacatggtgcac	8	12	12	9	0	3	1	1	0	2	1	4	3	3	2	0	3	3	4	0	3	1	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr7:56062651G>T	uc003tre.1	+	8	690	c.682G>T	c.(682-684)GGG>TGG	p.G228W	GBAS_uc003trf.1_Missense_Mutation_p.G189W	NM_001483	NP_001474	O75323	NIPS2_HUMAN	nipsnap homolog 2	228						integral to plasma membrane|membrane fraction|mitochondrion	protein binding			central_nervous_system(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CTCTCAGATTGGGCAGCTGTA	0.448													32	234					4.74835e-14	5.1819e-14	0.010818	1	0		T	56062651	T	T	56062651	3	4	111	1	0	0	0	0	1	0	0	0	6284	1348	47	5	712	5	GBAS	7	56062651	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	6110911	56062651	103076012	82	65236											
TYW1	55253	broad.mit.edu	37	chr7	66474641	66474641	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccattattaatctaaaagaAtatgatccagatgatcatct	16	13	5	7	0	3	4	1	2	2	2	4	4	4	4	2	0	0	0	2	0	6	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr7:66474641A>T	uc003tvn.2	+	4	494	c.345A>T	c.(343-345)GAA>GAT	p.E115D	TYW1_uc010lai.2_RNA	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	115	Flavodoxin-like.				tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				ATCTAAAAGAATATGATCCAG	0.348													20	136					0	0	0.008871	0	0		T	66474641	T	T	66474641	3	4	111	1	0	0	0	0	1	0	0	0	16844	98	4	5	359	5	TYW1	7	66474641	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	10411990	66474641	92664022	83	65237											
SLC26A3	1811	broad.mit.edu	37	chr7	107408210	107408210	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagtcaccaaagagctgataCctgactgggattaaactttg	14	10	9	8	0	1	3	1	2	0	1	1	4	1	4	2	1	3	1	2	1	5	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr7:107408210C>T	uc003ver.2	-	19	2416	c.2205_splice	c.e19+1	p.Q735_splice	SLC26A3_uc003ves.2_Splice_Site_p.Q622_splice	NM_000111	NP_000102	P40879	S26A3_HUMAN	solute carrier family 26, member 3						excretion	integral to membrane|membrane fraction	inorganic anion exchanger activity|secondary active sulfate transmembrane transporter activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(3)|skin(1)	4						AGAGCTGATACCTGACTGGGA	0.333													29	177					0	0	0.010818	0	0		T	107408210	T	T	107408210	5	4	111	1	0	0	0	0	0	0	1	0	14543	521	18	4	100	4	SLC26A3	7	107408210	Splice_Site	SNP	C	TCGA-CD-5813-01A-11D-1600-08	40933569	107408210	51730453	84	65238											
NUP205	23165	broad.mit.edu	37	chr7	135301844	135301844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttattatttctagtacgtcGaaaaattctaaatattcttg	13	19	4	5	2	3	0	0	0	3	0	4	1	3	0	0	0	1	1	0	0	9	11			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr7:135301844G>A	uc003vsw.2	+	26	3570	c.3539G>A	c.(3538-3540)CGA>CAA	p.R1180Q	NUP205_uc003vsx.2_5'Flank	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1180					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						CTAGTACGTCGAAAAATTCTA	0.343													5	58					0	0	0.014758	0	0		A	135301844	A	A	135301844	3	1	111	1	0	0	0	0	1	0	0	0	10778	1058	37	1	3641	1	NUP205	7	135301844	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	27893634	135301844	23836819	85	65239											
TRIM24	8805	broad.mit.edu	37	chr7	138269538	138269538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacttgaaaattattttgaaGaacttctaaagaacctctat	17	14	4	6	0	2	4	0	2	2	2	2	4	2	4	1	0	3	0	1	0	10	7			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr7:138269538G>A	uc003vuc.2	+	19	3210	c.2995G>A	c.(2995-2997)GAA>AAA	p.E999K	TRIM24_uc003vub.2_Missense_Mutation_p.E965K	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	999					cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						TTATTTTGAAGAACTTCTAAA	0.313													10	117					0	0	0.010729	0	0		A	138269538	A	A	138269538	3	1	111	1	0	0	0	0	1	0	0	0	16524	943	33	4	3069	4	TRIM24	7	138269538	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	2967694	138269538	20869125	86	65240											
CASP2	835	broad.mit.edu	37	chr7	143000938	143000938	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgcaggatcccctgggtgCgaggagagtgatgccggtaa	9	6	16	10	3	0	2	0	1	0	1	1	5	1	3	3	4	2	2	3	4	1	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr7:143000938C>T	uc003wco.2	+	9	1176	c.1029C>T	c.(1027-1029)TGC>TGT	p.C343C	CASP2_uc003wcp.2_3'UTR|CASP2_uc011kta.1_Silent_p.C227C|CASP2_uc003wcq.2_RNA|CASP2_uc011ktb.1_Silent_p.C93C	NM_032982	NP_116764	P42575	CASP2_HUMAN	caspase 2 isoform 1 preproprotein	343					apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|protein maturation by peptide bond cleavage	cytosol	cysteine-type endopeptidase activity|enzyme binding|protein binding|protein domain specific binding			lung(2)|ovary(1)	3	Melanoma(164;0.059)					CCCCTGGGTGCGAGGAGAGTG	0.498													12	29					0	0	0.020292	0	0		T	143000938	T	T	143000938	2	4	111	1	0	0	0	0	0	0	0	1	2674	776	27	1		1	CASP2	7	143000938	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	4731400	143000938	16137725	87	65241											
ARFGEF1	10565	broad.mit.edu	37	chr8	68123821	68123821	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggttgaatagaatcatgAatatctacagacttctgtga	13	14	8	6	0	3	5	1	3	2	2	3	5	3	5	0	1	1	1	0	1	6	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr8:68123821A>T	uc003xxo.1	-	34	5106	c.4716T>A	c.(4714-4716)ATT>ATA	p.I1572I	ARFGEF1_uc003xxl.1_Silent_p.I1026I|ARFGEF1_uc003xxn.1_Silent_p.I549I	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	1572					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding	p.I1572V(1)		ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			TAGAATCATGAATATCTACAG	0.323													20	122					0	0	0.010504	0	0		T	68123821	T	T	68123821	2	4	111	1	0	0	0	0	0	0	0	1	852	242	9	5		5	ARFGEF1	8	68123821	Silent	SNP	A	TCGA-CD-5813-01A-11D-1600-08		68123821	78240201	88	65242											
PREX2	80243	broad.mit.edu	37	chr8	68999988	68999988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aattccagattcagctgatgGacttggcttccagatccggg	9	11	11	10	1	1	3	1	1	0	2	4	4	4	4	3	3	1	2	3	3	1	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr8:68999988G>A	uc003xxv.1	+	19	2084	c.2057G>A	c.(2056-2058)GGA>GAA	p.G686E	PREX2_uc003xxu.1_Missense_Mutation_p.G686E|PREX2_uc011lez.1_Missense_Mutation_p.G621E	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	686	PDZ 2.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TCAGCTGATGGACTTGGCTTC	0.433													36	538					0	0	0.006999	0	0		A	68999988	A	A	68999988	3	1	111	1	0	0	0	0	1	0	0	0	12499	1174	41	4	2131	4	PREX2	8	68999988	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	876167	68999988	77364034	89	65243											
PAG1	55824	broad.mit.edu	37	chr8	81897177	81897177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctacattaacactttgaCgacattttttgtttctgtcc	8	19	4	10	1	2	1	0	1	2	0	4	2	3	1	1	0	2	1	1	0	2	7	rs138317242		TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr8:81897177C>T	uc003ybz.2	-	7	1421	c.710G>A	c.(709-711)CGT>CAT	p.R237H		NM_018440	NP_060910	Q9NWQ8	PAG1_HUMAN	phosphoprotein associated with glycosphingolipid	237	Cytoplasmic (Potential).				epidermal growth factor receptor signaling pathway|intracellular signal transduction|T cell receptor signaling pathway	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding|SH3/SH2 adaptor activity				0	Lung NSC(7;5.76e-06)|all_lung(9;2e-05)		BRCA - Breast invasive adenocarcinoma(6;0.0567)|Epithelial(68;0.0634)|all cancers(69;0.197)			AACACTTTGACGACATTTTTT	0.473													80	432					0	0	0.01441	0	0		T	81897177	T	T	81897177	3	4	111	1	0	0	0	0	1	0	0	0	11407	536	19	1	600	1	PAG1	8	81897177	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	12897189	81897177	64466845	90	65244											
CDH17	1015	broad.mit.edu	37	chr8	95186360	95186360	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagagatggctcccgtttTgttgttgatctgaaagtaca	11	13	11	6	1	1	4	0	2	1	2	2	5	2	4	1	1	1	5	1	1	3	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr8:95186360T>A	uc003ygh.2	-	6	678	c.553A>T	c.(553-555)AAA>TAA	p.K185*	CDH17_uc011lgo.1_Intron|CDH17_uc011lgp.1_Nonsense_Mutation_p.K185*	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	185	Extracellular (Potential).|Cadherin 2.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			GCTCCCGTTTTGTTGTTGATC	0.493													40	583					0	0	0.009718	0	0		A	95186360	A	A	95186360	4	1	111	1	0	0	0	0	0	1	0	0	3105	1821	63	5	1997	5	CDH17	8	95186360	Nonsense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	13289183	95186360	51177662	91	65245											
PTDSS1	9791	broad.mit.edu	37	chr8	97318782	97318782	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcatcacagctcccacagtGaggtaattctgcacaagcct	11	8	9	13	0	2	1	1	1	1	0	3	1	3	1	2	2	3	4	2	2	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr8:97318782G>A	uc003yht.1	+	8	1107	c.1005G>A	c.(1003-1005)GTG>GTA	p.V335V	PTDSS1_uc003yhu.1_Silent_p.V189V	NM_014754	NP_055569	P48651	PTSS1_HUMAN	phosphatidylserine synthase 1	335					phosphatidylserine biosynthetic process	integral to membrane	transferase activity			ovary(1)	1	Breast(36;6.18e-05)				Phosphatidylserine(DB00144)	CTCCCACAGTGAGGTAATTCT	0.393													64	367					0	0	0.01441	0	0		A	97318782	A	A	97318782	2	1	111	1	0	0	0	0	0	0	0	1	12758	1277	45	4		4	PTDSS1	8	97318782	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	2132422	97318782	49045240	92	65246											
DPYS	1807	broad.mit.edu	37	chr8	105441868	105441868	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcatggtgccattctttattCcagtagtgagtgccatctgt	7	15	10	9	0	2	1	0	1	2	0	3	1	3	1	3	1	2	2	3	1	2	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr8:105441868C>A	uc003yly.3	-	5	984	c.855G>T	c.(853-855)TGG>TGT	p.W285C		NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	285					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			ATTCTTTATTCCAGTAGTGAG	0.468													24	191					3.6726e-16	4.04308e-16	0.021523	1	0		A	105441868	A	A	105441868	3	1	111	1	0	0	0	0	1	0	0	0	4752	856	30	5	724	5	DPYS	8	105441868	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	8123086	105441868	40922154	93	65247											
ZFPM2	23414	broad.mit.edu	37	chr8	106456569	106456569	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacacacagtcagagaaaccGgggcaacctggagttgagac	14	4	13	10	1	1	2	1	1	0	2	1	6	1	3	2	3	2	2	2	3	2	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr8:106456569G>A	uc003ymd.2	+	3	284	c.261G>A	c.(259-261)CCG>CCA	p.P87P		NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	87					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			CAGAGAAACCGGGGCAACCTG	0.443													5	38					0	0	0.001984	0	0		A	106456569	A	A	106456569	2	1	111	1	0	0	0	0	0	0	0	1	17683	1103	39	1		1	ZFPM2	8	106456569	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	1014701	106456569	39907453	94	65248											
KCNV1	27012	broad.mit.edu	37	chr8	110984700	110984700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgcacacacaggaagcGgaggacaaactccccggtga	12	3	12	14	3	0	1	0	1	0	0	2	4	2	4	3	4	2	1	3	4	2	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr8:110984700G>A	uc003ynr.3	-	2	1120	c.778C>T	c.(778-780)CGC>TGC	p.R260C	KCNV1_uc010mcw.2_Missense_Mutation_p.R260C	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	260	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			CACAGGAAGCGGAGGACAAAC	0.532													63	95					0	0	0.01441	0	0		A	110984700	A	A	110984700	3	1	111	1	0	0	0	0	1	0	0	0	8110	1116	39	1	732	1	KCNV1	8	110984700	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	4528131	110984700	35379322	95	65249											
CSMD3	114788	broad.mit.edu	37	chr8	114326985	114326985	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggctttctatagtgccattAagtccttttaaagttccacc	9	15	7	10	0	1	0	0	0	1	0	3	0	3	0	4	1	1	2	4	1	5	7			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr8:114326985A>G	uc003ynu.2	-	2	375	c.216T>C	c.(214-216)CTT>CTC	p.L72L	CSMD3_uc003ynt.2_Silent_p.L32L|CSMD3_uc011lhx.1_Silent_p.L72L|CSMD3_uc010mcx.1_Silent_p.L72L|CSMD3_uc003ynx.3_Silent_p.L72L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	72	Extracellular (Potential).|CUB 1.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TAGTGCCATTAAGTCCTTTTA	0.318										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			45	543					0	0	0.01441	0	0		G	114326985	G	G	114326985	2	3	111	1	0	0	0	0	0	0	0	1	3949	349	13	3		3	CSMD3	8	114326985	Silent	SNP	A	TCGA-CD-5813-01A-11D-1600-08	3342285	114326985	32037037	96	65250											
ASAP1	50807	broad.mit.edu	37	chr8	131073151	131073151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagttctcctggcttaggcgGcaaatctccaatttggggct	7	12	11	11	1	2	0	0	0	2	0	4	0	2	0	2	5	0	4	2	5	3	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr8:131073151G>A	uc003yta.1	-	27	2894	c.2866C>T	c.(2866-2868)CCG>TCG	p.P956S	ASAP1_uc003ysz.1_Missense_Mutation_p.P767S|ASAP1_uc011liw.1_Missense_Mutation_p.P949S	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	956	Pro-rich.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						GGCTTAGGCGGCAAATCTCCA	0.572													7	348					0	0	0.001984	0	0		A	131073151	A	A	131073151	3	1	111	1	0	0	0	0	1	0	0	0	1011	1203	42	2	535	2	ASAP1	8	131073151	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	16746166	131073151	15290871	97	65251											
KIAA1432	57589	broad.mit.edu	37	chr9	5763255	5763255	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctctggctgagctgtggtgGtgcagggatgaaagtttggc	6	11	17	7	0	1	2	0	2	1	0	1	3	1	3	1	5	2	4	1	5	1	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr9:5763255G>C	uc003zji.2	+	18	2084	c.1991G>C	c.(1990-1992)GGT>GCT	p.G664A	KIAA1432_uc003zjh.2_Missense_Mutation_p.G664A|KIAA1432_uc003zjl.3_Missense_Mutation_p.G627A|KIAA1432_uc003zjj.1_Missense_Mutation_p.G206A	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	743						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		AGCTGTGGTGGTGCAGGGATG	0.522													10	236					0	0	0.006214	0	0		C	5763255	C	C	5763255	3	2	111	1	0	0	0	0	1	0	0	0	8249	1261	44	5	2061	5	KIAA1432	9	5763255	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08		5763255	135450176	98	65252											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18777842	18777842	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttctgcactgtgaggccatCggccacccaaggcctaccat	8	8	9	16	1	1	1	0	1	1	0	2	1	1	1	5	3	2	1	5	3	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr9:18777842C>T	uc003zne.3	+	19	3742	c.3615C>T	c.(3613-3615)ATC>ATT	p.I1205I		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	1205	Ig-like C2-type 2.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		GTGAGGCCATCGGCCACCCAA	0.622													12	35					0	0	0.020292	0	0		T	18777842	T	T	18777842	2	4	111	1	0	0	0	0	0	0	0	1	274	874	31	1		1	ADAMTSL1	9	18777842	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	13014587	18777842	122435589	99	65253											
TRPM6	140803	broad.mit.edu	37	chr9	77397699	77397699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcttttggcgaaaggatgGccttgcgtgccactccaaag	8	10	12	11	2	1	0	0	0	1	0	2	2	2	1	3	3	2	1	3	3	2	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr9:77397699G>A	uc004ajl.1	-	22	3228	c.2990C>T	c.(2989-2991)GCC>GTC	p.A997V	TRPM6_uc004ajk.1_Missense_Mutation_p.A992V|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_Missense_Mutation_p.A283V	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	997	Extracellular (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						CGAAAGGATGGCCTTGCGTGC	0.438													27	99					0	0	0.004656	0	0		A	77397699	A	A	77397699	3	1	111	1	0	0	0	0	1	0	0	0	16616	1203	42	2	3150	2	TRPM6	9	77397699	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	58619857	77397699	63815732	100	65254											
CYLC2	1539	broad.mit.edu	37	chr9	105767382	105767382	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaagaagaaaagctagatGcaaagaaagatagcaaaaaa	26	3	9	3	0	0	5	0	0	0	5	0	6	0	5	0	0	3	3	0	0	12	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr9:105767382G>C	uc004bbs.2	+	5	539	c.469G>C	c.(469-471)GCA>CCA	p.A157P		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	157	3 X approximate tandem repeats.|31 X 3 AA repeats of K-K-X.|1.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				aaagctagatgcaaagaaaga	0.065													8	35					0	0	0.004482	0	0		C	105767382	C	C	105767382	3	2	111	1	0	0	0	0	1	0	0	0	4145	1319	46	5	487	5	CYLC2	9	105767382	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	28369683	105767382	35446049	101	65255											
OR13C8	138802	broad.mit.edu	37	chr9	107332160	107332160	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaaggaaaacataaggccTtctccacctgctcagcccac	12	7	7	15	0	2	1	1	1	1	0	3	2	2	2	4	2	3	1	4	2	4	2	rs150811269	byFrequency	TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr9:107332160T>C	uc011lvo.1	+	1	712	c.712T>C	c.(712-714)TTC>CTC	p.F238L		NM_001004483	NP_001004483	Q8NGS7	O13C8_HUMAN	olfactory receptor, family 13, subfamily C,	238	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						ACATAAGGCCTTCTCCACCTG	0.413													7	197					0	0	0.001984	0	0		C	107332160	C	C	107332160	3	2	111	1	0	0	0	0	1	0	0	0	10957	1609	56	3	714	3	OR13C8	9	107332160	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	1564778	107332160	33881271	102	65256											
DFNB31	25861	broad.mit.edu	37	chr9	117188662	117188662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggatgttgagaaagctcCgcccattcacttctagaatc	11	11	9	10	1	2	2	1	1	1	2	4	4	3	3	2	1	1	3	2	1	4	5	rs139193948	byFrequency	TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr9:117188662C>T	uc004biz.3	-	4	1644	c.995G>A	c.(994-996)CGG>CAG	p.R332Q	DFNB31_uc004bix.2_5'Flank|DFNB31_uc004biy.3_5'UTR|DFNB31_uc004bja.3_Missense_Mutation_p.R332Q	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	332	PDZ 2.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						GAGAAAGCTCCGCCCATTCAC	0.557													6	58					0	0	0.00308	0	0		T	117188662	T	T	117188662	3	4	111	1	0	0	0	0	1	0	0	0	4461	652	23	1	1764	1	DFNB31	9	117188662	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	9856502	117188662	24024769	103	65257											
TNC	3371	broad.mit.edu	37	chr9	117786383	117786383	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccttgtcaaaggtggagaAggatctgccattgtggtagg	9	11	15	6	0	2	1	1	0	1	1	3	3	3	2	2	5	1	1	2	5	3	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr9:117786383A>T	uc004bjj.3	-	27	6726	c.6364T>A	c.(6364-6366)TTC>ATC	p.F2122I	TNC_uc010mvf.2_Missense_Mutation_p.F1849I	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	2122	Fibrinogen C-terminal.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						AAGGTGGAGAAGGATCTGCCA	0.498													31	120					0	0	0.008361	0	0		T	117786383	T	T	117786383	3	4	111	1	0	0	0	0	1	0	0	0	16295	72	3	5	249	5	TNC	9	117786383	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	597721	117786383	23427048	104	65258											
SCAI	286205	broad.mit.edu	37	chr9	127733666	127733666	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccgaaaaatcttgtgcaTcctcatggtggctgaacaaa	13	10	8	10	1	2	1	1	1	1	0	3	2	3	1	2	2	3	2	2	2	5	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr9:127733666T>G	uc004bpe.2	-	17	1738	c.1657A>C	c.(1657-1659)ATG>CTG	p.M553L	SCAI_uc004bpd.2_Missense_Mutation_p.M576L|SCAI_uc010mwu.2_RNA	NM_001144877	NP_001138349	Q8N9R8	SCAI_HUMAN	suppressor of cancer cell invasion isoform 2	553				M -> T (in Ref. 1; BAC05217).	negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|integral to membrane|nucleus	protein binding|transcription corepressor activity			ovary(2)|breast(2)|central_nervous_system(1)	5						ATCTTGTGCATCCTCATGGTG	0.333													21	123					0	0	0.021523	0	0		G	127733666	G	G	127733666	3	3	111	1	0	0	0	0	1	0	0	0	13894	1435	50	5	171	5	SCAI	9	127733666	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	9947283	127733666	13479765	105	65259											
HSPA14	51182	broad.mit.edu	37	chr10	14881921	14881921	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggatggccgggctggtgtGgttgcaaatgatgccggtga	7	10	18	6	2	0	2	0	2	0	0	0	3	0	3	2	6	2	3	2	6	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr10:14881921G>A	uc001inf.2	+	2	216	c.75G>A	c.(73-75)GTG>GTA	p.V25V	CDNF_uc001inb.1_5'Flank|CDNF_uc010qbv.1_5'Flank|CDNF_uc001inc.1_5'Flank|HSPA14_uc001ind.2_5'UTR|HSPA14_uc001ine.2_Silent_p.V25V|HSPA14_uc010qbw.1_Silent_p.V25V	NM_016299	NP_057383	Q0VDF9	HSP7E_HUMAN	heat shock 70kDa protein 14 isoform 1	25					'de novo' cotranslational protein folding	cytosol	ATP binding|protein binding			ovary(2)|breast(2)|lung(1)	5						GGGCTGGTGTGGTTGCAAATG	0.433													20	146					0	0	0.012319	0	0		A	14881921	A	A	14881921	2	1	111	1	0	0	0	0	0	0	0	1	7423	1335	47	4		4	HSPA14	10	14881921	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08		14881921	120652826	106	65260											
PCDH15	65217	broad.mit.edu	37	chr10	56424016	56424016	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtccagagataaaactgtcGaaacatcttctgtcaaagtt	14	12	7	8	1	3	1	1	0	2	1	5	3	4	1	1	0	2	1	1	0	4	3	rs137853001		TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr10:56424016G>A	uc001jju.1	-	2	402	c.7C>T	c.(7-9)CGA>TGA	p.R3*	PCDH15_uc010qhq.1_Nonsense_Mutation_p.R3*|PCDH15_uc010qhr.1_Nonsense_Mutation_p.R3*|PCDH15_uc010qhs.1_Nonsense_Mutation_p.R3*|PCDH15_uc010qht.1_Nonsense_Mutation_p.R3*|PCDH15_uc010qhu.1_Nonsense_Mutation_p.R3*|PCDH15_uc001jjv.1_Nonsense_Mutation_p.R3*|PCDH15_uc010qhv.1_Nonsense_Mutation_p.R3*|PCDH15_uc010qhw.1_Nonsense_Mutation_p.R3*|PCDH15_uc010qhx.1_Nonsense_Mutation_p.R3*|PCDH15_uc010qhy.1_Nonsense_Mutation_p.R3*|PCDH15_uc010qhz.1_Nonsense_Mutation_p.R3*|PCDH15_uc010qia.1_Nonsense_Mutation_p.R3*|PCDH15_uc010qib.1_Nonsense_Mutation_p.R3*|PCDH15_uc001jjw.2_Nonsense_Mutation_p.R3*	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	3					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TAAAACTGTCGAAACATCTTC	0.373										HNSCC(58;0.16)			18	27					0	0	0.00499	0	0		A	56424016	A	A	56424016	4	1	111	1	0	0	0	0	0	1	0	0	11530	1066	37	1	7651	1	PCDH15	10	56424016	Nonsense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	41542095	56424016	79110731	107	65261											
KIAA1274	27143	broad.mit.edu	37	chr10	72299481	72299481	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctggcctcacctaccaccGcatccccatgccggacttct	6	9	6	20	2	2	0	1	0	1	0	4	1	4	1	8	2	2	1	8	2	1	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr10:72299481G>A	uc001jrd.3	+	15	2152	c.1871G>A	c.(1870-1872)CGC>CAC	p.R624H	KIAA1274_uc001jre.3_5'UTR	NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	624										ovary(2)|central_nervous_system(1)	3						ACCTACCACCGCATCCCCATG	0.667													5	105					0	0	0.014758	0	0		A	72299481	A	A	72299481	3	1	111	1	0	0	0	0	1	0	0	0	8236	1087	38	1	1925	1	KIAA1274	10	72299481	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	15875465	72299481	63235266	108	65262											
UNC5B	219699	broad.mit.edu	37	chr10	73048388	73048388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgagtgtgcccactggcGtagccgcgagtgcatggcgc	6	7	15	13	4	0	1	0	1	0	0	0	2	0	1	2	2	3	2	2	2	1	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr10:73048388G>A	uc001jro.2	+	7	1410	c.965G>A	c.(964-966)CGT>CAT	p.R322H	UNC5B_uc001jrp.2_Missense_Mutation_p.R322H	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	322	TSP type-1 2.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						GCCCACTGGCGTAGCCGCGAG	0.627													56	44					0	0	0.01441	0	0		A	73048388	A	A	73048388	3	1	111	1	0	0	0	0	1	0	0	0	17018	1145	40	1	991	1	UNC5B	10	73048388	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	748907	73048388	62486359	109	65263											
CNNM1	26507	broad.mit.edu	37	chr10	101147700	101147700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccccacaacccggggcacaCcccagacccctaaggatgac	11	2	8	20	1	0	2	0	1	0	1	0	3	0	3	7	3	1	1	7	3	2	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr10:101147700C>T	uc001kpp.3	+	8	2753	c.2464C>T	c.(2464-2466)CCC>TCC	p.P822S	CNNM1_uc010qpi.1_Missense_Mutation_p.P843S|CNNM1_uc009xwf.2_Missense_Mutation_p.P822S|CNNM1_uc009xwg.2_Missense_Mutation_p.P222S	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	822					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		CCGGGGCACACCCCAGACCCC	0.642													6	45					0	0	0.001168	0	0		T	101147700	T	T	101147700	3	4	111	1	0	0	0	0	1	0	0	0	3615	507	18	4	2494	4	CNNM1	10	101147700	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	28099312	101147700	34387047	110	65264											
ABCC2	1244	broad.mit.edu	37	chr10	101590609	101590609	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aattcatagaaactggaaagGtgaacaccacacagaaaagt	20	6	8	7	0	1	3	1	1	0	2	1	4	1	4	1	2	2	0	1	2	7	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr10:101590609G>A	uc001kqf.2	+	21	3022	c.2883_splice	c.e21+1	p.K961_splice		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),							apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	AACTGGAAAGGTGAACACCAC	0.343													14	89					0	0	0.003163	0	0		A	101590609	A	A	101590609	5	1	111	1	0	0	0	0	0	0	1	0	53	1275	44	4	2966	4	ABCC2	10	101590609	Splice_Site	SNP	G	TCGA-CD-5813-01A-11D-1600-08	442909	101590609	33944138	111	65265											
TRIM5	85363	broad.mit.edu	37	chr11	5686494	5686494	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatgccagtacaataatTgaaattcacaaatgtctggt	15	11	8	7	0	2	1	1	1	1	0	2	2	2	2	1	2	2	1	1	2	5	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr11:5686494T>A	uc001mbm.1	-	8	1284	c.1027A>T	c.(1027-1029)AAT>TAT	p.N343Y	TRIM78P_uc009yer.2_RNA|TRIM5_uc001mbl.1_RNA|TRIM5_uc001mbn.2_Intron|TRIM5_uc001mbo.2_Intron|TRIM5_uc001mbp.2_3'UTR	NM_033034	NP_149023	Q9C035	TRIM5_HUMAN	tripartite motif protein TRIM5 isoform alpha	343	B30.2/SPRY.				interspecies interaction between organisms|protein trimerization|response to virus	cytoplasm|cytoplasmic mRNA processing body	ligase activity|protein binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)|Lung NSC(207;0.138)|all_lung(207;0.221)		Epithelial(150;7.21e-09)|BRCA - Breast invasive adenocarcinoma(625;0.139)		GTACAATAATTGAAATTCACA	0.443													7	181					0	0	0.004482	0	0		A	5686494	A	A	5686494	3	1	111	1	0	0	0	0	1	0	0	0	16551	1812	63	5	548	5	TRIM5	11	5686494	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08		5686494	129320022	112	65266											
OR10A4	283297	broad.mit.edu	37	chr11	6898541	6898541	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgggatcctatgtccgCatcctctccactatcttcag	7	13	6	15	1	3	0	1	0	2	0	8	1	7	1	5	1	0	1	5	1	2	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr11:6898541C>T	uc010rat.1	+	1	663	c.663C>T	c.(661-663)CGC>CGT	p.R221R		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	221	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CCTATGTCCGCATCCTCTCCA	0.512													7	142					0	0	0.001984	0	0		T	6898541	T	T	6898541	2	4	111	1	0	0	0	0	0	0	0	1	10911	697	25	2		2	OR10A4	11	6898541	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	1212047	6898541	128107975	113	65267											
AHNAK	79026	broad.mit.edu	37	chr11	62291859	62291859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatttctttgacttgccttCgatattaagcttaggaccgg	9	15	9	8	2	1	2	0	1	1	1	2	4	1	3	2	2	2	1	2	2	3	7			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr11:62291859C>T	uc001ntl.2	-	5	10330	c.10030G>A	c.(10030-10032)GAA>AAA	p.E3344K	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3344					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GACTTGCCTTCGATATTAAGC	0.428													48	108					0	0	0.011902	0	0		T	62291859	T	T	62291859	3	4	111	1	0	0	0	0	1	0	0	0	414	893	31	1	7762	1	AHNAK	11	62291859	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	55393318	62291859	72714657	114	65268											
CCDC88B	283234	broad.mit.edu	37	chr11	64108164	64108164	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagccgcccctttggtTggagaagagattcctgcgcc	8	8	14	11	2	0	3	0	0	0	3	1	6	1	4	5	3	2	1	5	3	2	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr11:64108164T>C	uc001nzy.2	+	2	190	c.146T>C	c.(145-147)TTG>TCG	p.L49S	CCDC88B_uc009ypo.1_Missense_Mutation_p.L49S|CCDC88B_uc001nzz.1_5'Flank	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	49					microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						CCCCTTTGGTTGGAGAAGAGA	0.527													8	63					0	0	0.006214	0	0		C	64108164	C	C	64108164	3	2	111	1	0	0	0	0	1	0	0	0	2867	1821	63	3	152	3	CCDC88B	11	64108164	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	1816305	64108164	70898352	115	65269											
SNX15	29907	broad.mit.edu	37	chr11	64802601	64802601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccaccccctctgatccccaCcccgccccctgatgaccccc	5	5	5	26	1	1	3	0	3	1	0	2	3	2	3	11	0	0	0	11	0	0	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr11:64802601C>T	uc001oci.3	+	8	1096	c.443C>T	c.(442-444)ACC>ATC	p.T148I	SNX15_uc009ypy.2_Missense_Mutation_p.T148I|SNX15_uc001ocj.2_Missense_Mutation_p.T148I|SNX15_uc001ock.2_Missense_Mutation_p.T148I	NM_013306	NP_037438	Q9NRS6	SNX15_HUMAN	sorting nexin 15 isoform A	148					cell communication|intracellular protein transport	cytoplasmic vesicle membrane|cytosol	phosphatidylinositol binding|protein transporter activity			ovary(1)	1						CTGATCCCCACCCCGCCCCCT	0.642													7	17					0	0	0.001984	0	0		T	64802601	T	T	64802601	3	4	111	1	0	0	0	0	1	0	0	0	14911	507	18	4	461	4	SNX15	11	64802601	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	694437	64802601	70203915	116	65270											
GRM5	2915	broad.mit.edu	37	chr11	88780945	88780945	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaataatgatgtcaccCggcatgtgagccaccaccct	10	8	8	15	1	1	2	1	2	0	0	2	2	2	2	5	1	1	2	5	1	2	1	rs78028403	byFrequency	TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr11:88780945C>T	uc001pcq.2	-	1	296	c.96G>A	c.(94-96)CCG>CCA	p.P32P	GRM5_uc009yvm.2_Silent_p.P32P|GRM5_uc009yvn.1_Silent_p.P32P	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	32	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity	p.P32L(1)		central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	TGATGTCACCCGGCATGTGAG	0.498													34	42					0	0	0.013726	0	0		T	88780945	T	T	88780945	2	4	111	1	0	0	0	0	0	0	0	1	6816	639	23	1		1	GRM5	11	88780945	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	23978344	88780945	46225571	117	65271											
FAT3	120114	broad.mit.edu	37	chr11	92495088	92495088	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggtggttcaggttctaGatgaaaatgacaacaagccc	12	9	13	7	0	2	3	1	2	1	1	2	3	2	3	1	4	2	2	1	4	5	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr11:92495088G>T	uc001pdj.3	+	4	3753	c.3736G>T	c.(3736-3738)GAT>TAT	p.D1246Y		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1246	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCAGGTTCTAGATGAAAATGA	0.473										TCGA Ovarian(4;0.039)			30	225					7.11191e-15	7.79515e-15	0.013726	1	0		T	92495088	T	T	92495088	3	4	111	1	0	0	0	0	1	0	0	0	5705	942	33	5	3750	5	FAT3	11	92495088	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	3714143	92495088	42511428	118	65272											
TBCEL	219899	broad.mit.edu	37	chr11	120957792	120957792	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agataaaatttacgtggaatCcaaaacaaaataacctctac	20	9	4	8	1	1	1	0	0	1	1	2	2	2	2	2	1	4	0	2	1	10	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr11:120957792C>A	uc009zay.2	+	8	1340	c.1262C>A	c.(1261-1263)TCC>TAC	p.S421Y	TBCEL_uc001pxo.2_Missense_Mutation_p.S421Y|TBCEL_uc001pxp.2_Missense_Mutation_p.S277Y|TBCEL_uc001pxq.2_RNA	NM_001130047	NP_001123519	Q5QJ74	TBCEL_HUMAN	tubulin folding cofactor E-like	421	Ubiquitin-like.					cytoplasm|cytoskeleton				skin(1)	1		Breast(109;0.00526)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.89e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.121)		TACGTGGAATCCAAAACAAAA	0.418													26	64					8.58068e-18	9.57223e-18	0.007291	1	0		A	120957792	A	A	120957792	3	1	111	1	0	0	0	0	1	0	0	0	15660	855	30	5	1288	5	TBCEL	11	120957792	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	28462704	120957792	14048724	119	65273											
HSPA8	3312	broad.mit.edu	37	chr11	122931927	122931927	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacatagcttggagtggttcGgtttccctgatcattggcaa	8	13	12	8	1	1	1	1	1	0	0	3	3	2	2	1	4	1	4	1	4	2	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr11:122931927G>C	uc001pyo.2	-	2	184	c.106C>G	c.(106-108)CGA>GGA	p.R36G	HSPA8_uc009zbc.2_5'Flank|HSPA8_uc001pyp.2_Missense_Mutation_p.R36G|HSPA8_uc010rzu.1_Missense_Mutation_p.R36G|HSPA8_uc009zbd.1_Missense_Mutation_p.R36G|HSPA8_uc010rzv.1_Missense_Mutation_p.R36G	NM_006597	NP_006588	P11142	HSP7C_HUMAN	heat shock 70kDa protein 8 isoform 1	36					cellular membrane organization|interspecies interaction between organisms|mRNA metabolic process|negative regulation of transcription, DNA-dependent|neurotransmitter secretion|post-Golgi vesicle-mediated transport|protein folding|response to unfolded protein|transcription, DNA-dependent	cell surface|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|melanosome|plasma membrane|ribonucleoprotein complex	ATP binding|ATPase activity, coupled|protein binding			central_nervous_system(7)|lung(1)	8		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		GGAGTGGTTCGGTTTCCCTGA	0.488													16	79					0	0	0.004007	0	0		C	122931927	C	C	122931927	3	2	111	1	0	0	0	0	1	0	0	0	7432	1124	39	5	1866	5	HSPA8	11	122931927	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	1974135	122931927	12074589	120	65274											
OR10S1	219873	broad.mit.edu	37	chr11	123847671	123847671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgccggccctgggctgtgCggatgcgcaacacagctgcc	5	6	15	15	3	0	0	0	0	0	0	0	1	0	1	3	3	6	4	3	3	1	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr11:123847671C>T	uc001pzm.1	-	1	728	c.728G>A	c.(727-729)CGC>CAC	p.R243H		NM_001004474	NP_001004474	Q8NGN2	O10S1_HUMAN	olfactory receptor, family 10, subfamily S,	243	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CTGGGCTGTGCGGATGCGCAA	0.602													8	63					0	0	0.008291	0	0		T	123847671	T	T	123847671	3	4	111	1	0	0	0	0	1	0	0	0	10937	768	27	1	271	1	OR10S1	11	123847671	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	915744	123847671	11158845	121	65275											
CD163	9332	broad.mit.edu	37	chr12	7649556	7649556	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccttactggcgttaactcGaccaatggctgtgacggcag	8	10	11	12	3	0	1	0	1	0	0	2	2	1	1	2	3	2	3	2	3	3	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr12:7649556G>A	uc001qsz.3	-	5	1080	c.952C>T	c.(952-954)CGA>TGA	p.R318*	CD163_uc001qta.3_Nonsense_Mutation_p.R318*|CD163_uc009zfw.2_Nonsense_Mutation_p.R318*	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	318	SRCR 3.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						GCGTTAACTCGACCAATGGCT	0.517													4	73					0	0	0.001168	0	0		A	7649556	A	A	7649556	4	1	111	1	0	0	0	0	0	1	0	0	2970	1066	37	1	2566	1	CD163	12	7649556	Nonsense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08		7649556	126202339	122	65276											
LOH12CR1	118426	broad.mit.edu	37	chr12	12618516	12618516	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaactctgttcagcttcatgCaggagcgccagaaaagatac	14	8	9	10	1	3	2	2	0	1	2	3	3	3	3	1	1	5	3	1	1	4	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr12:12618516C>A	uc001ral.2	+	4	763	c.397C>A	c.(397-399)CAG>AAG	p.Q133K	LOH12CR1_uc009zhu.2_Missense_Mutation_p.Q85K	NM_058169	NP_477517	Q969J3	L12R1_HUMAN	LOH1CR12	133										ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.0205)		CAGCTTCATGCAGGAGCGCCA	0.512													9	50					5.4927e-09	5.91703e-09	0.004482	1	0		A	12618516	A	A	12618516	3	1	111	1	0	0	0	0	1	0	0	0	8909	711	25	5	411	5	LOH12CR1	12	12618516	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	4968960	12618516	121233379	123	65277											
C12orf39	80763	broad.mit.edu	37	chr12	21684076	21684077	+	Frame_Shift_Ins	INS	-	A	A																															tttttttcttacagatgaagINSaaaaaaactttgatcaaacc																										TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr12:21684076_21684077insA	uc001rfa.1	+	6	449_450	c.298_299insA	c.(298-300)GAAfs	p.E100fs	C12orf39_uc009ziv.1_RNA|C12orf39_uc009ziw.1_RNA	NM_030572	NP_085049	Q9BT56	SPXN_HUMAN	spexin precursor	100						extracellular region|nucleus|transport vesicle					0						TACAGATGAAGAAAAAAACTTT	0.282													13	28	---	---	---	---						.	A	21684077	A	A	21684076	7	5	111	1	0	1	1	0	0	0	0	0	1687	943	33	0	320	0	C12orf39	12	21684076	Frame_Shift_Ins	INS	-	TCGA-CD-5813-01A-11D-1600-08	9065560	21684076	112167819	124	65278											
BHLHE41	79365	broad.mit.edu	37	chr12	26277452	26277452	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcgggaacttacacttacCttggtgtcgtctcgtttcat	7	16	8	10	3	2	0	1	0	1	0	5	1	2	1	1	2	3	1	1	2	4	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr12:26277452C>T	uc001rhb.2	-	2	417	c.126G>A	c.(124-126)AAG>AAA	p.K42K		NM_030762	NP_110389	Q9C0J9	BHE41_HUMAN	basic helix-loop-helix domain containing, class	42					cell differentiation|cell proliferation|organ morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						TTACACTTACCTTGGTGTCGT	0.448													11	138					0	0	0.008291	0	0		T	26277452	T	T	26277452	2	4	111	1	0	0	0	0	0	0	0	1	1425	695	24	4		4	BHLHE41	12	26277452	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	4593376	26277452	107574443	125	65279											
ATP5B	506	broad.mit.edu	37	chr12	57037245	57037245	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcatttcatggtataaaTcattgccttcacgggtcctc	10	14	6	11	1	4	0	4	0	0	0	6	0	5	0	2	2	1	1	2	2	4	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr12:57037245T>C	uc001slr.2	-	5	839	c.734A>G	c.(733-735)GAT>GGT	p.D245G		NM_001686	NP_001677	P06576	ATPB_HUMAN	mitochondrial ATP synthase beta subunit	245					angiogenesis|ATP hydrolysis coupled proton transport|regulation of intracellular pH|respiratory electron transport chain	cell surface|mitochondrial nucleoid|mitochondrial proton-transporting ATP synthase, catalytic core|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|hydrogen-exporting ATPase activity, phosphorylative mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)	1						ATGGTATAAATCATTGCCTTC	0.428													52	190					0	0	0.01441	0	0		C	57037245	C	C	57037245	3	2	111	1	0	0	0	0	1	0	0	0	1149	1435	50	3	879	3	ATP5B	12	57037245	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	30759793	57037245	76814650	126	65280											
NACA	4666	broad.mit.edu	37	chr12	57106973	57106973	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctgggataaatcttcgAtctacagggtagaaaataca	14	11	9	7	1	2	1	0	0	2	1	3	3	2	2	0	2	3	2	0	2	7	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr12:57106973A>G	uc001slz.2	-	6	732	c.383T>C	c.(382-384)ATC>ACC	p.I128T	NACA_uc001sly.2_Missense_Mutation_p.I128T|NACA_uc009zoy.1_Missense_Mutation_p.I1991T|NACA_uc001smc.2_Missense_Mutation_p.I128T|NACA_uc001sma.2_Missense_Mutation_p.I838T|NACA_uc001smb.2_Missense_Mutation_p.I128T|NACA_uc010squ.1_RNA	NM_001113201	NP_001106672	Q13765	NACA_HUMAN	nascent polypeptide-associated complex alpha	128	NAC-A/B.				interspecies interaction between organisms|protein transport|transcription, DNA-dependent|translation	nascent polypeptide-associated complex|nucleus	DNA binding	p.I128M(1)		ovary(1)	1						TAAATCTTCGATCTACAGGGT	0.378			T	BCL6	NHL								19	80					0	0	0.007413	0	0		G	57106973	G	G	57106973	3	3	111	1	0	0	0	0	1	0	0	0	10151	347	12	3	276	3	NACA	12	57106973	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	69728	57106973	76744922	127	65281											
CAND1	55832	broad.mit.edu	37	chr12	67675753	67675753	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatcaagttggatgatgaTagtgaaaggaaagtagtgaa	16	10	12	3	0	1	4	1	4	0	0	2	6	2	6	1	2	0	2	1	2	6	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr12:67675753T>C	uc001stn.2	+	2	569	c.132T>C	c.(130-132)GAT>GAC	p.D44D		NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	44	HEAT 2.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		TGGATGATGATAGTGAAAGGA	0.284													5	117					0	0	0.001168	0	0		C	67675753	C	C	67675753	2	2	111	1	0	0	0	0	0	0	0	1	2618	1403	49	3		3	CAND1	12	67675753	Silent	SNP	T	TCGA-CD-5813-01A-11D-1600-08	10568780	67675753	66176142	128	65282											
LRRIQ1	84125	broad.mit.edu	37	chr12	85500366	85500366	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaattgtctcttactggaaAcccacttcttcaagaaacaa	14	12	5	10	0	3	2	1	1	2	1	4	3	3	3	1	1	3	0	1	1	6	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr12:85500366A>C	uc001tac.2	+	15	3461	c.3350A>C	c.(3349-3351)AAC>ACC	p.N1117T	LRRIQ1_uc001tab.1_Missense_Mutation_p.N1117T	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1117	LRRCT.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		CTTACTGGAAACCCACTTCTT	0.333													51	152					0	0	0.01441	0	0		C	85500366	C	C	85500366	3	2	111	1	0	0	0	0	1	0	0	0	9047	43	2	5	3404	5	LRRIQ1	12	85500366	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	17824613	85500366	48351529	129	65283											
NR1H4	9971	broad.mit.edu	37	chr12	100897210	100897210	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaatccaattcaaattagTcctcactgcagctgtacgcc	13	10	6	12	1	2	0	2	0	0	0	4	1	4	0	3	0	3	3	3	0	6	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr12:100897210T>C	uc001tht.1	+	1	73	c.45T>C	c.(43-45)AGT>AGC	p.S15S	NR1H4_uc001thp.1_Intron|NR1H4_uc001thq.1_Intron|NR1H4_uc010svj.1_Intron|NR1H4_uc001thr.1_Intron|NR1H4_uc010svk.1_Intron|NR1H4_uc001ths.1_Silent_p.S15S	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	15					bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						TTCAAATTAGTCCTCACTGCA	0.448													3	36					0	0	0.009096	0	0		C	100897210	C	C	100897210	2	2	111	1	0	0	0	0	0	0	0	1	10638	1682	58	3		3	NR1H4	12	100897210	Silent	SNP	T	TCGA-CD-5813-01A-11D-1600-08	15396844	100897210	32954685	130	65284											
IFT81	28981	broad.mit.edu	37	chr12	110600787	110600787	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaggaggccaaggagaagTtagccagcctagagagagaa	15	5	14	7	0	1	3	1	0	0	3	1	7	1	4	3	3	2	1	3	3	5	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr12:110600787T>C	uc001tqi.2	+	11	1235	c.1105T>C	c.(1105-1107)TTA>CTA	p.L369L	IFT81_uc001tqh.2_Silent_p.L369L|IFT81_uc001tqj.2_RNA|IFT81_uc001tqg.2_Silent_p.L369L	NM_001143779	NP_001137251	Q8WYA0	IFT81_HUMAN	intraflagellar transport 81-like isoform 1	369	Potential.				cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1						CAAGGAGAAGTTAGCCAGCCT	0.408													22	117					0	0	0.010504	0	0		C	110600787	C	C	110600787	2	2	111	1	0	0	0	0	0	0	0	1	7581	1722	60	3		3	IFT81	12	110600787	Silent	SNP	T	TCGA-CD-5813-01A-11D-1600-08	9703577	110600787	23251108	131	65285											
RNF17	56163	broad.mit.edu	37	chr13	25367266	25367266	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgttacgatacataccCaccgctagaaaagaaaaagg	16	9	7	9	2	1	2	0	0	1	2	1	3	1	2	2	1	3	2	2	1	8	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr13:25367266C>G	uc001upr.2	+	10	1063	c.1022C>G	c.(1021-1023)CCA>CGA	p.P341R	RNF17_uc010tdd.1_Missense_Mutation_p.P200R|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.P341R|RNF17_uc001ups.2_Missense_Mutation_p.P280R|RNF17_uc001upq.1_Missense_Mutation_p.P341R	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	341					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		GATACATACCCACCGCTAGAA	0.348													11	241					0	0	0.010729	0	0		G	25367266	G	G	25367266	3	3	111	1	0	0	0	0	1	0	0	0	13486	594	21	5	1060	5	RNF17	13	25367266	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08		25367266	89802612	132	65286											
CPB2	1361	broad.mit.edu	37	chr13	46632517	46632517	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaactggatgcaccttcctCtgtaacgaaattgttaaggt	11	12	10	8	1	1	0	0	0	1	0	2	3	2	2	2	3	3	3	2	3	4	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr13:46632517C>T	uc001vaw.2	-	9	864	c.797_splice	c.e9-1	p.E266_splice	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Splice_Site_p.E229_splice	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a						blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		GCACCTTCCTCTGTAACGAAA	0.428													26	124					0	0	0.01892	0	0		T	46632517	T	T	46632517	5	4	111	1	0	0	0	0	0	0	1	0	3800	927	32	4	487	4	CPB2	13	46632517	Splice_Site	SNP	C	TCGA-CD-5813-01A-11D-1600-08	21265251	46632517	68537361	133	65287											
TMTC4	84899	broad.mit.edu	37	chr13	101266575	101266575	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagctttctgtacctgtaTtgtcgaggagtataatcatg	9	15	9	8	1	2	0	1	0	1	0	4	2	3	1	2	1	2	4	2	1	4	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr13:101266575T>C	uc001vou.2	-	15	2049	c.1889A>G	c.(1888-1890)AAT>AGT	p.N630S	TMTC4_uc001vot.2_Missense_Mutation_p.N649S|TMTC4_uc010tja.1_Missense_Mutation_p.N519S	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	630	TPR 6.					integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TGTACCTGTATTGTCGAGGAG	0.463													8	141					0	0	0.00308	0	0		C	101266575	C	C	101266575	3	2	111	1	0	0	0	0	1	0	0	0	16288	1493	52	3	352	3	TMTC4	13	101266575	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	54634058	101266575	13903303	134	65288											
ARID4A	5926	broad.mit.edu	37	chr14	58811468	58811468	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcctccagcagctttataAgtttatggaagacagaggta	12	12	9	8	0	0	2	0	0	0	2	2	3	2	3	2	2	2	4	2	2	5	7			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr14:58811468A>C	uc001xdp.2	+	12	1216	c.962A>C	c.(961-963)AAG>ACG	p.K321T	ARID4A_uc001xdo.2_Missense_Mutation_p.K321T|ARID4A_uc001xdq.2_Missense_Mutation_p.K321T|ARID4A_uc010apg.1_5'UTR	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	321	ARID.				negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						CAGCTTTATAAGTTTATGGAA	0.328													26	74					0	0	0.005443	0	0		C	58811468	C	C	58811468	3	2	111	1	0	0	0	0	1	0	0	0	919	72	3	5	1004	5	ARID4A	14	58811468	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08		58811468	48538072	135	65289											
C14orf115	55237	broad.mit.edu	37	chr14	74824989	74824989	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggggagctcctgccactaagGatgcccctgtcccgttggca	6	8	13	14	1	0	0	0	0	0	0	2	2	2	2	5	4	3	3	5	4	1	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr14:74824989G>T	uc001xpw.3	+	2	1694	c.1503G>T	c.(1501-1503)AGG>AGT	p.R501S		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	501					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		TGCCACTAAGGATGCCCCTGT	0.672													30	86					6.53348e-20	7.32099e-20	0.017118	1	0		T	74824989	T	T	74824989	3	4	111	1	0	0	0	0	1	0	0	0	1743	1165	41	5	1505	5	C14orf115	14	74824989	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	16013521	74824989	32524551	136	65290											
DYNC1H1	1778	broad.mit.edu	37	chr14	102507909	102507909	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccctctgtacctgtttcAgcacccattggccaggccat	7	10	7	17	0	2	0	1	0	1	0	2	0	2	0	6	2	2	3	6	2	1	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr14:102507909A>G	uc001yks.2	+	65	12106	c.11942_splice	c.e65-2	p.T3981_splice		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1						cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						TACCTGTTTCAGCACCCATTG	0.587													73	205					0	0	0.01441	0	0		G	102507909	G	G	102507909	5	3	111	1	0	0	0	0	0	0	1	0	4847	202	7	3	12198	3	DYNC1H1	14	102507909	Splice_Site	SNP	A	TCGA-CD-5813-01A-11D-1600-08	27682920	102507909	4841631	137	65291											
APBA2	321	broad.mit.edu	37	chr15	29346923	29346923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccccagcaggcacgaggCgaggcccaagtcgctgaacc	10	2	13	16	3	0	1	0	1	0	0	1	3	0	1	4	3	3	3	4	3	2	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr15:29346923C>T	uc001zck.2	+	3	1043	c.836C>T	c.(835-837)GCG>GTG	p.A279V	APBA2_uc010azj.2_Missense_Mutation_p.A279V|APBA2_uc010uat.1_Missense_Mutation_p.A279V|APBA2_uc001zcl.2_Missense_Mutation_p.A279V|APBA2_uc010uas.1_Missense_Mutation_p.A279V	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	279					nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		AGGCACGAGGCGAGGCCCAAG	0.667													5	14					0	0	0.014758	0	0		T	29346923	T	T	29346923	3	4	111	1	0	0	0	0	1	0	0	0	757	768	27	1	838	1	APBA2	15	29346923	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08		29346923	73184469	138	65292											
TRPM1	4308	broad.mit.edu	37	chr15	31355442	31355442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaagacgatggacaccaCgttagggcccccctccacca	10	6	8	17	2	0	1	0	0	0	1	2	3	2	2	7	2	0	1	7	2	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr15:31355442C>T	uc001zfm.2	-	7	906	c.778G>A	c.(778-780)GTG>ATG	p.V260M	TRPM1_uc010azy.2_Missense_Mutation_p.V173M|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	260	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		ATGGACACCACGTTAGGGCCC	0.607													15	120					0	0	0.004007	0	0		T	31355442	T	T	31355442	3	4	111	1	0	0	0	0	1	0	0	0	16611	536	19	1	4117	1	TRPM1	15	31355442	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	2008519	31355442	71175950	139	65293											
RYR3	6263	broad.mit.edu	37	chr15	34105725	34105725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaactgttatcaaagcaaCggaaacgggcagtggtggcc	14	6	12	9	2	1	0	1	0	0	0	1	1	1	1	1	4	4	3	1	4	5	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr15:34105725C>T	uc001zhi.2	+	74	10517	c.10447C>T	c.(10447-10449)CGG>TGG	p.R3483W	RYR3_uc010bar.2_Missense_Mutation_p.R3478W	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3483					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity	p.R3483W(1)		ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		ATCAAAGCAACGGAAACGGGC	0.512													13	125					0	0	0.003163	0	0		T	34105725	T	T	34105725	3	4	111	1	0	0	0	0	1	0	0	0	13795	527	19	1	10741	1	RYR3	15	34105725	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	2750283	34105725	68425667	140	65294											
SLC12A6	9990	broad.mit.edu	37	chr15	34543254	34543254	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaggtaattactccaaagAttctctgcagtgggaaaaat	14	11	10	6	0	1	1	0	0	1	1	3	2	2	2	1	3	2	3	1	3	6	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr15:34543254A>T	uc001zhw.2	-	10	1502	c.1338T>A	c.(1336-1338)AAT>AAA	p.N446K	SLC12A6_uc001zhv.2_Missense_Mutation_p.N395K|SLC12A6_uc001zhx.2_Missense_Mutation_p.N431K|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.N387K|SLC12A6_uc001zib.2_Missense_Mutation_p.N437K|SLC12A6_uc001zic.2_Missense_Mutation_p.N446K|SLC12A6_uc010bau.2_Missense_Mutation_p.N446K|SLC12A6_uc001zid.2_Missense_Mutation_p.N387K|SLC12A6_uc001zht.2_5'Flank|SLC12A6_uc001zhu.2_Missense_Mutation_p.N258K	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	446	Cytoplasmic (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	TACTCCAAAGATTCTCTGCAG	0.368													5	115					0	0	0.001168	0	0		T	34543254	T	T	34543254	3	4	111	1	0	0	0	0	1	0	0	0	14412	330	12	5	2178	5	SLC12A6	15	34543254	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	437529	34543254	67988138	141	65295											
LCMT2	9836	broad.mit.edu	37	chr15	43621774	43621774	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgccagaatgaaataaTgggcgcacttcagatgccac	14	7	10	10	1	1	3	1	1	0	2	1	3	1	3	2	1	3	2	2	1	4	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr15:43621774T>C	uc001zrg.2	-	1	1118	c.914A>G	c.(913-915)CAT>CGT	p.H305R	LCMT2_uc010udn.1_5'UTR|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	305					tRNA processing		methyltransferase activity|protein binding				0		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.1e-07)	L-Leucine(DB00149)	AATGAAATAATGGGCGCACTT	0.498													14	74					0	0	0.020292	0	0		C	43621774	C	C	43621774	3	2	111	1	0	0	0	0	1	0	0	0	8695	1464	51	3	1150	3	LCMT2	15	43621774	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	9078520	43621774	58909618	142	65296											
MYO1E	4643	broad.mit.edu	37	chr15	59506484	59506484	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagtttttcattaacaaaAttgatacaaaactgttcaaa	17	14	4	6	0	2	1	2	1	0	0	2	1	2	1	0	0	4	3	0	0	7	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr15:59506484A>C	uc002aga.2	-	12	1590	c.1218T>G	c.(1216-1218)AAT>AAG	p.N406K		NM_004998	NP_004989	Q12965	MYO1E_HUMAN	myosin IE	406	Myosin head-like.				actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)		CATTAACAAAATTGATACAAA	0.289													12	61					0	0	0.016723	0	0		C	59506484	C	C	59506484	3	2	111	1	0	0	0	0	1	0	0	0	10090	98	4	5	2176	5	MYO1E	15	59506484	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	15884710	59506484	43024908	143	65297											
CORO2B	10391	broad.mit.edu	37	chr15	69011828	69011828	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctcccatcaaagaaaaGaagagtgttgtggtcaacgg	15	7	12	7	1	2	3	2	0	0	3	3	3	3	3	1	3	1	2	1	3	6	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr15:69011828G>T	uc002arj.3	+	11	1277	c.1248G>T	c.(1246-1248)AAG>AAT	p.K416N	CORO2B_uc010bic.2_Missense_Mutation_p.K411N|CORO2B_uc002ark.2_Missense_Mutation_p.K183N	NM_006091	NP_006082	Q9UQ03	COR2B_HUMAN	coronin, actin binding protein, 2B	416					actin cytoskeleton organization	actin cytoskeleton|cytoplasm|membrane	actin filament binding			ovary(3)|skin(2)|large_intestine(1)	6						TCAAAGAAAAGAAGAGTGTTG	0.423													22	141					1.96292e-10	2.12368e-10	0.010504	1	0		T	69011828	T	T	69011828	3	4	111	1	0	0	0	0	1	0	0	0	3760	933	33	5	1290	5	CORO2B	15	69011828	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	9505344	69011828	33519564	144	65298											
MYO9A	4649	broad.mit.edu	37	chr15	72338496	72338496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctgtggaagaaaaccccGttccatcatcctgcgacgtt	10	9	10	12	3	1	1	1	0	0	1	3	3	3	2	4	2	2	3	4	2	3	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr15:72338496G>A	uc002atl.3	-	2	882	c.409C>T	c.(409-411)CGG>TGG	p.R137W	MYO9A_uc010biq.2_Intron|MYO9A_uc002ato.2_Missense_Mutation_p.R137W|MYO9A_uc002atn.1_Missense_Mutation_p.R137W	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	137					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						AGAAAACCCCGTTCCATCATC	0.428													30	154					0	0	0.010818	0	0		A	72338496	A	A	72338496	3	1	111	1	0	0	0	0	1	0	0	0	10102	1144	40	1	7401	1	MYO9A	15	72338496	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	3326668	72338496	30192896	145	65299											
CSPG4	1464	broad.mit.edu	37	chr15	75980816	75980816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgactgcctctgaggcacGtgctgtggccccataggtca	6	9	12	14	2	2	1	1	1	1	0	3	2	2	1	3	3	2	2	3	3	1	1	rs140979403		TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr15:75980816G>A	uc002baw.2	-	3	2683	c.2590C>T	c.(2590-2592)CGT>TGT	p.R864C		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	864	CSPG 4.|Extracellular (Potential).|Gly/Ser-rich (glycosaminoglycan attachment domain).|Interaction with COL5A1 (By similarity).|Interaction with COL6A2 (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						TCTGAGGCACGTGCTGTGGCC	0.577													11	59					0	0	0.010729	0	0		A	75980816	A	A	75980816	3	1	111	1	0	0	0	0	1	0	0	0	3963	1145	40	1	4410	1	CSPG4	15	75980816	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	3642320	75980816	26550576	146	65300											
C16orf42	115939	broad.mit.edu	37	chr16	1400082	1400082	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctcctcctgggggctcTccttggcattggccaagaac	5	11	10	15	0	2	1	0	0	2	1	6	1	4	1	5	4	1	2	5	4	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr16:1400082T>C	uc002cll.2	-	4	748	c.680A>G	c.(679-681)GAG>GGG	p.E227G	GNPTG_uc002clm.2_5'Flank	NM_001001410	NP_001001410	Q9UJK0	TSR3_HUMAN	hypothetical protein LOC115939	227					rRNA processing						0		Hepatocellular(780;0.0893)				CTGGGGGCTCTCCTTGGCATT	0.662													11	13					0	0	0.010729	0	0		C	1400082	C	C	1400082	3	2	111	1	0	0	0	0	1	0	0	0	1816	1551	54	3	270	3	C16orf42	16	1400082	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08		1400082	88954671	147	65301											
ATXN2L	11273	broad.mit.edu	37	chr16	28844803	28844803	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctaatgctaaggagttcAatcctacaaagcctctgctg	12	10	7	12	0	2	0	1	0	1	0	3	1	3	1	3	1	4	3	3	1	5	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr16:28844803A>T	uc002drc.2	+	15	2167	c.1999A>T	c.(1999-2001)AAT>TAT	p.N667Y	uc010vct.1_Intron|ATXN2L_uc002drb.2_Missense_Mutation_p.N667Y|ATXN2L_uc002dqy.2_Missense_Mutation_p.N667Y|ATXN2L_uc002dra.2_Missense_Mutation_p.N667Y|ATXN2L_uc002dqz.2_Missense_Mutation_p.N667Y|ATXN2L_uc010vdb.1_Missense_Mutation_p.N673Y|ATXN2L_uc002dre.2_Missense_Mutation_p.N667Y|ATXN2L_uc002drf.2_Missense_Mutation_p.N76Y|ATXN2L_uc002drg.2_5'Flank	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	667						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						TAAGGAGTTCAATCCTACAAA	0.473													15	74					0	0	0.004007	0	0		T	28844803	T	T	28844803	3	4	111	1	0	0	0	0	1	0	0	0	1213	130	5	5	2057	5	ATXN2L	16	28844803	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	27444721	28844803	61509950	148	65302											
KCTD19	146212	broad.mit.edu	37	chr16	67325250	67325250	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaccaccttggctgtgaTggctttggggtccttttgcc	4	13	14	10	0	0	2	0	1	0	1	1	3	1	2	4	5	1	2	4	5	0	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr16:67325250T>C	uc002esu.2	-	14	2578	c.2527A>G	c.(2527-2529)ATC>GTC	p.I843V	KCTD19_uc002est.2_Missense_Mutation_p.I615V|KCTD19_uc010vjj.1_Missense_Mutation_p.I586V	NM_001100915	NP_001094385	Q17RG1	KCD19_HUMAN	potassium channel tetramerisation domain	843						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0311)|Epithelial(162;0.0906)		TTGGCTGTGATGGCTTTGGGG	0.552													9	45					0	0	0.004482	0	0		C	67325250	C	C	67325250	3	2	111	1	0	0	0	0	1	0	0	0	8122	1464	51	3	265	3	KCTD19	16	67325250	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	38480447	67325250	23029503	149	65303											
FAM65A	79567	broad.mit.edu	37	chr16	67573777	67573777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccattgaacgcttcctgcGacgactggagttccatgcca	8	10	10	13	3	0	1	0	1	0	0	3	4	3	2	4	1	3	2	4	1	1	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr16:67573777G>A	uc010vjp.1	+	6	545	c.449G>A	c.(448-450)CGA>CAA	p.R150Q	FAM65A_uc010cei.1_5'UTR|FAM65A_uc002eth.2_Missense_Mutation_p.R130Q|FAM65A_uc010cej.2_Missense_Mutation_p.R133Q|FAM65A_uc002eti.1_Missense_Mutation_p.R93Q|FAM65A_uc010vjq.1_Missense_Mutation_p.R144Q|FAM65A_uc002etj.1_Missense_Mutation_p.R129Q|FAM65A_uc002etk.2_Missense_Mutation_p.R129Q	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	134						cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		CGCTTCCTGCGACGACTGGAG	0.617													40	172					0	0	0.00874	0	0		A	67573777	A	A	67573777	3	1	111	1	0	0	0	0	1	0	0	0	5613	1058	37	1	407	1	FAM65A	16	67573777	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	248527	67573777	22780976	150	65304											
CDH1	999	broad.mit.edu	37	chr16	68845760	68845760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaccactgggctggaccgaGaggtcaggggtcaggaggat	9	6	17	9	1	3	1	3	0	0	1	3	5	3	4	2	7	0	1	2	7	0	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr16:68845760G>A	uc002ewg.1	+	7	1130	c.1006G>A	c.(1006-1008)GAG>AAG	p.E336K	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.E336K	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	336	Cadherin 2.|Extracellular (Potential).		E -> D.		adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.E336E(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		GCTGGACCGAGAGGTCAGGGG	0.507			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				12	48					0	0	0.010729	0	0		A	68845760	A	A	68845760	3	1	111	1	0	0	0	0	1	0	0	0	3098	943	33	4	1032	4	CDH1	16	68845760	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	1271983	68845760	21508993	151	65305											
CYB5B	80777	broad.mit.edu	37	chr16	69458604	69458604	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatgtccggttcaatggcGactgcggaagctagcggcag	9	8	15	9	4	1	0	1	0	0	0	2	2	2	1	1	4	3	4	1	4	4	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr16:69458604G>T	uc002exg.1	+	1	107	c.18G>T	c.(16-18)GCG>GCT	p.A6A	CYB5B_uc002exf.2_Silent_p.A6A|CYB5B_uc010cfl.1_Silent_p.A6A	NM_030579	NP_085056	O43169	CYB5B_HUMAN	cytochrome b5 outer mitochondrial membrane	2					electron transport chain|transport	integral to membrane|mitochondrial outer membrane	heme binding				0		Ovarian(137;0.101)				GTTCAATGGCGACTGCGGAAG	0.582													15	26					1.64293e-13	1.78518e-13	0.01892	1	0		T	69458604	T	T	69458604	2	4	111	1	0	0	0	0	0	0	0	1	4126	1045	37	5		5	CYB5B	16	69458604	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	612844	69458604	20896149	152	65306											
PDPR	55066	broad.mit.edu	37	chr16	70177509	70177509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcatactggcatgctcaacGagggtggagggtatgaaaat	12	9	14	6	1	1	1	1	1	0	0	1	3	1	2	0	4	4	4	0	4	5	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr16:70177509G>A	uc002eyf.1	+	14	2659	c.1702G>A	c.(1702-1704)GAG>AAG	p.E568K	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.E468K|PDPR_uc002eyg.1_Missense_Mutation_p.E296K|PDPR_uc002eyh.2_5'Flank|PDPR_uc010vls.1_5'Flank	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	568					glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		CATGCTCAACGAGGGTGGAGG	0.537													9	21					0	0	0.006214	0	0		A	70177509	A	A	70177509	3	1	111	1	0	0	0	0	1	0	0	0	11708	1059	37	1	1748	1	PDPR	16	70177509	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	718905	70177509	20177244	153	65307											
DHX38	9785	broad.mit.edu	37	chr16	72139930	72139930	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccccaggattggcatggaTgctctgcagatctatcccat	10	10	9	12	0	2	1	0	0	2	1	3	3	3	3	3	3	3	3	3	3	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr16:72139930T>C	uc002fcb.2	+	19	2869	c.2514T>C	c.(2512-2514)GAT>GAC	p.D838D	DHX38_uc010vmp.1_Silent_p.D150D	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	838	Helicase C-terminal.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				TTGGCATGGATGCTCTGCAGA	0.587													32	54					0	0	0.009535	0	0		C	72139930	C	C	72139930	2	2	111	1	0	0	0	0	0	0	0	1	4517	1461	51	3		3	DHX38	16	72139930	Silent	SNP	T	TCGA-CD-5813-01A-11D-1600-08	1962421	72139930	18214823	154	65308											
IRF8	3394	broad.mit.edu	37	chr16	85948116	85948116	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtacaccacctacgacgcGcaccattcaggtacggggtg	9	6	13	13	4	1	0	1	0	0	0	1	1	1	0	3	4	3	3	3	4	3	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr16:85948116G>A	uc002fjh.2	+	6	648	c.591G>A	c.(589-591)GCG>GCA	p.A197A	IRF8_uc010chp.2_Intron	NM_002163	NP_002154	Q02556	IRF8_HUMAN	interferon regulatory factor 8	197			A -> T (in a breast cancer sample; somatic mutation).		interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity	p.A197T(1)		breast(2)|ovary(1)	3		Prostate(104;0.0771)				CCTACGACGCGCACCATTCAG	0.607													7	35					0	0	0.001984	0	0		A	85948116	A	A	85948116	2	1	111	1	0	0	0	0	0	0	0	1	7852	1074	38	1		1	IRF8	16	85948116	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	13808186	85948116	4406637	155	65309											
ZNF594	84622	broad.mit.edu	37	chr17	5086827	5086827	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaagccttcccacatttaTtgcataaatatggcttcccc	11	13	5	12	0	0	1	0	1	0	0	2	1	2	1	4	1	2	2	4	1	5	7			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr17:5086827T>C	uc010cla.1	-	2	881	c.725A>G	c.(724-726)AAT>AGT	p.N242S		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	242	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						CCCACATTTATTGCATAAATA	0.428													76	179					0	0	0.01441	0	0		C	5086827	C	C	5086827	3	2	111	1	0	0	0	0	1	0	0	0	18049	1493	52	3	1702	3	ZNF594	17	5086827	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08		5086827	76108383	156	65310											
TP53	7157	broad.mit.edu	37	chr17	7577094	7577094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attctcttcctctgtgcgccGgtctctcccaggacaggcac	5	11	9	16	2	3	0	0	0	3	0	7	1	5	1	3	3	1	1	3	3	0	2	rs28934574		TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr17:7577094G>A	uc002gim.2	-	8	1038	c.844C>T	c.(844-846)CGG>TGG	p.R282W	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R282W|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R150W|TP53_uc010cng.1_Missense_Mutation_p.R150W|TP53_uc002gii.1_Missense_Mutation_p.R150W|TP53_uc010cnh.1_Missense_Mutation_p.R282W|TP53_uc010cni.1_Missense_Mutation_p.R282W|TP53_uc002gij.2_Missense_Mutation_p.R282W	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	282	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|DR -> EW (in sporadic cancers; somatic mutation).|R -> Q (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> H (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R282W(367)|p.R282G(27)|p.R282Q(20)|p.R282P(14)|p.R282R(8)|p.0?(7)|p.R282L(3)|p.D281fs*63(2)|p.?(2)|p.R282fs*24(2)|p.D281_R282>EW(2)|p.A276_R283delACPGRDRR(1)|p.R280fs*62(1)|p.R282_E287delRRTEEE(1)|p.G279fs*59(1)|p.S269fs*21(1)|p.C275_R283delCACPGRDRR(1)|p.D281_R282insXX(1)|p.L265_K305del41(1)|p.R282H(1)|p.R283_T284>T(1)|p.V272_K292del21(1)|p.R282fs*63(1)|p.C275fs*20(1)|p.D281_R282delDR(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TCTGTGCGCCGGTCTCTCCCA	0.557		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			25	32					0	0	0.005443	0	0		A	7577094	A	A	7577094	3	1	111	1	0	0	0	0	1	0	0	0	16407	1115	39	1	442	1	TP53	17	7577094	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	2490267	7577094	73618116	157	65311											
KSR1	8844	broad.mit.edu	37	chr17	25932711	25932711	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcgcctgctggagatggaCggccacaaccaggaccacct	10	6	11	14	2	0	1	0	0	0	1	1	4	0	3	5	4	2	1	5	4	1	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr17:25932711C>T	uc010crg.2	+	15	1966	c.1521C>T	c.(1519-1521)GAC>GAT	p.D507D	KSR1_uc002gzj.1_RNA|KSR1_uc002gzm.2_Silent_p.D286D	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	642	Protein kinase.				Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		TGGAGATGGACGGCCACAACC	0.652													3	12					0	0	0.009096	0	0		T	25932711	T	T	25932711	2	4	111	1	0	0	0	0	0	0	0	1	8597	535	19	1		1	KSR1	17	25932711	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	18355617	25932711	55262499	158	65312											
SLC25A39	51629	broad.mit.edu	37	chr17	42397752	42397752	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccatcgctcccagagcgAcctggcgttgggtctttacc	5	10	10	16	3	1	1	0	0	1	1	4	2	3	1	5	2	2	2	5	2	1	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr17:42397752A>G	uc002ign.2	-	10	1008	c.854T>C	c.(853-855)GTC>GCC	p.V285A	SLC25A39_uc002igm.2_Missense_Mutation_p.V277A|SLC25A39_uc002igo.2_Missense_Mutation_p.V277A|SLC25A39_uc010wiw.1_Missense_Mutation_p.V262A|SLC25A39_uc010czu.2_Missense_Mutation_p.V153A	NM_001143780	NP_001137252	Q9BZJ4	S2539_HUMAN	solute carrier family 25, member 39 isoform a	285	Solcar 3.				heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane				upper_aerodigestive_tract(1)	1		Prostate(33;0.0233)		BRCA - Breast invasive adenocarcinoma(366;0.189)		TCCCAGAGCGACCTGGCGTTG	0.662													15	44					0	0	0.006122	0	0		G	42397752	G	G	42397752	3	3	111	1	0	0	0	0	1	0	0	0	14528	275	10	3	237	3	SLC25A39	17	42397752	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08	16465041	42397752	38797458	159	65313											
COL1A1	1277	broad.mit.edu	37	chr17	48265261	48265261	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggccagggggaccctggagGccagagaagccacggtgacc	9	2	18	12	1	0	2	0	1	0	1	0	5	0	4	5	6	1	0	5	6	1	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr17:48265261G>T	uc002iqm.2	-	45	3471	c.3345C>A	c.(3343-3345)GGC>GGA	p.G1115G		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	1115	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	GACCCTGGAGGCCAGAGAAGC	0.632			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						6	100					8.12818e-05	8.57216e-05	0.001984	1	0		T	48265261	T	T	48265261	2	4	111	1	0	0	0	0	0	0	0	1	3680	1190	42	5		5	COL1A1	17	48265261	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	5867509	48265261	32929949	160	65314											
MYCBPAP	84073	broad.mit.edu	37	chr17	48600347	48600347	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctttgaaaccctagaaggCgagaaaacctcctcagaact	15	7	7	12	1	1	4	1	1	0	3	2	5	2	4	4	1	3	0	4	1	6	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr17:48600347C>T	uc010wmr.1	+	11	1596	c.1434C>T	c.(1432-1434)GGC>GGT	p.G478G	MYCBPAP_uc002iqz.2_RNA	NM_032133	NP_115509	Q8TBZ2	MYBPP_HUMAN	Myc-binding protein-associated protein	441					cell differentiation|multicellular organismal development|spermatogenesis|synaptic transmission	cytoplasm|membrane	protein binding			urinary_tract(2)|skin(2)|ovary(1)|pancreas(1)	6	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;1.23e-09)			CCCTAGAAGGCGAGAAAACCT	0.512													39	118					0	0	0.006999	0	0		T	48600347	T	T	48600347	2	4	111	1	0	0	0	0	0	0	0	1	10037	755	27	1		1	MYCBPAP	17	48600347	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	335086	48600347	32594863	161	65315											
ASXL3	80816	broad.mit.edu	37	chr18	31226286	31226286	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggatggtacagatatggcCgaggcaaatgcccatggaga	12	8	14	7	1	0	2	0	0	0	2	0	5	0	3	2	5	2	2	2	5	3	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr18:31226286C>T	uc010dmg.1	+	4	379	c.324C>T	c.(322-324)GCC>GCT	p.A108A	ASXL3_uc002kxq.2_5'UTR	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CAGATATGGCCGAGGCAAATG	0.388													4	72					0	0	0.009096	0	0		T	31226286	T	T	31226286	2	4	111	1	0	0	0	0	0	0	0	1	1069	639	23	1		1	ASXL3	18	31226286	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08		31226286	46850962	162	65316											
NOL4	8715	broad.mit.edu	37	chr18	31685107	31685107	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgcttctcttggtaggaaGgcatagctctctgaaatctg	9	12	10	10	1	3	1	0	1	3	0	5	2	3	2	1	3	1	4	1	3	4	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr18:31685107G>C	uc010dmi.2	-	3	661	c.432C>G	c.(430-432)GCC>GCG	p.A144A	NOL4_uc002kxr.3_5'UTR|NOL4_uc010xbt.1_Silent_p.A70A|NOL4_uc010dmh.2_Silent_p.A70A|NOL4_uc010xbu.1_Silent_p.A144A|NOL4_uc002kxt.3_Silent_p.A144A|NOL4_uc010xbw.1_Silent_p.A30A	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	144						nucleolus	RNA binding			ovary(3)	3						TTGGTAGGAAGGCATAGCTCT	0.373													14	177					0	0	0.020292	0	0		C	31685107	C	C	31685107	2	2	111	1	0	0	0	0	0	0	0	1	10543	987	35	5		5	NOL4	18	31685107	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	458821	31685107	46392141	163	65317											
ELP2	55250	broad.mit.edu	37	chr18	33725918	33725918	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttttattttttagatggtgtCctacagcagccagtgagatt	9	17	9	6	0	0	2	0	1	0	2	1	3	1	2	2	1	3	1	2	1	3	7			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr18:33725918C>T	uc002kzk.1	+	10	910	c.900C>T	c.(898-900)GTC>GTT	p.V300V	ELP2_uc010xcg.1_Silent_p.V365V|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Silent_p.V274V|ELP2_uc010xch.1_Silent_p.V339V|ELP2_uc002kzn.1_Silent_p.V274V|ELP2_uc002kzo.1_Silent_p.V230V	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	300	WD 6.				regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						TAGATGGTGTCCTACAGCAGC	0.373													22	240					0	0	0.012319	0	0		T	33725918	T	T	33725918	2	4	111	1	0	0	0	0	0	0	0	1	5088	842	30	4		4	ELP2	18	33725918	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	2040811	33725918	44351330	164	65318											
NARS	4677	broad.mit.edu	37	chr18	55270137	55270137	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaagattggttcattaatGgtgtctgtcatcagtctctc	9	15	9	8	0	5	1	3	0	2	1	7	1	5	1	0	2	1	2	0	2	2	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr18:55270137G>A	uc002lgs.2	-	12	1518	c.1290C>T	c.(1288-1290)ACC>ACT	p.T430T	NARS_uc002lgt.2_Silent_p.T429T|NARS_uc010xea.1_Silent_p.T181T	NM_004539	NP_004530	O43776	SYNC_HUMAN	asparaginyl-tRNA synthetase	430					asparaginyl-tRNA aminoacylation	cytosol|soluble fraction	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding				0		Colorectal(73;0.227)			L-Asparagine(DB00174)	GTTCATTAATGGTGTCTGTCA	0.443													13	149					0	0	0.016723	0	0		A	55270137	A	A	55270137	2	1	111	1	0	0	0	0	0	0	0	1	10188	1335	47	4		4	NARS	18	55270137	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	21544219	55270137	22807111	165	65319											
KIAA1543	57662	broad.mit.edu	37	chr19	7673088	7673088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccagcctccaggacctggCcagtggggccgcgctggccg	5	4	16	16	3	0	0	0	0	0	0	1	2	1	1	7	5	1	1	7	5	0	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr19:7673088C>T	uc002mgv.3	+	5	799	c.698C>T	c.(697-699)GCC>GTC	p.A233V	KIAA1543_uc002mgu.3_Missense_Mutation_p.A260V	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	233	CH.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						CAGGACCTGGCCAGTGGGGCC	0.637													4	53					0	0	0.009096	0	0		T	7673088	T	T	7673088	3	4	111	1	0	0	0	0	1	0	0	0	8259	739	26	2	805	2	KIAA1543	19	7673088	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08		7673088	51455895	166	65320											
ZNF708	7562	broad.mit.edu	37	chr19	21476317	21476317	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgagaggacagaataaagCttttgccacattcttcacac	14	10	8	9	0	2	2	1	1	1	2	2	5	2	3	1	1	2	1	1	1	3	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr19:21476317C>G	uc002npq.1	-	4	1649	c.1451G>C	c.(1450-1452)AGC>ACC	p.S484T	ZNF708_uc002npr.1_Missense_Mutation_p.S420T|ZNF708_uc010ecs.1_Missense_Mutation_p.S420T	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	484	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						CAGAATAAAGCTTTTGCCACA	0.338													10	89					0	0	0.006214	0	0		G	21476317	G	G	21476317	3	3	111	1	0	0	0	0	1	0	0	0	18137	797	28	5	244	5	ZNF708	19	21476317	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	13803229	21476317	37652666	167	65321											
ERF	2077	broad.mit.edu	37	chr19	42752808	42752808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagtcttcactccagcgccGcttaaagcgtagcttgaggg	9	9	11	12	3	2	1	1	1	1	0	3	1	3	1	2	1	3	3	2	1	3	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr19:42752808G>A	uc002ote.3	-	4	1614	c.1456C>T	c.(1456-1458)CGG>TGG	p.R486W	ERF_uc002otd.3_Missense_Mutation_p.R217W	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	486					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				CTCCAGCGCCGCTTAAAGCGT	0.682													42	93					0	0	0.009718	0	0		A	42752808	A	A	42752808	3	1	111	1	0	0	0	0	1	0	0	0	5229	1086	38	1	194	1	ERF	19	42752808	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	21276491	42752808	16376175	168	65322											
RELB	5971	broad.mit.edu	37	chr19	45540895	45540895	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtggttggggagaccccCggccctgaaccactgacact	7	6	13	15	2	0	3	0	2	0	1	0	4	0	3	5	4	1	1	5	4	1	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr19:45540895C>T	uc002paj.1	+	13	1713	c.1587C>T	c.(1585-1587)CCC>CCT	p.P529P	SFRS16_uc002pak.2_5'Flank|SFRS16_uc002pal.2_5'Flank|SFRS16_uc010xxh.1_5'Flank|SFRS16_uc002pam.2_5'Flank|SFRS16_uc002pan.1_5'Flank	NM_006509	NP_006500	Q01201	RELB_HUMAN	reticuloendotheliosis viral oncogene homolog B	529						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00986)		GGGAGACCCCCGGCCCTGAAC	0.677													16	14					0	0	0.00499	0	0		T	45540895	T	T	45540895	2	4	111	1	0	0	0	0	0	0	0	1	13242	639	23	1		1	RELB	19	45540895	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	2788087	45540895	13588088	169	65323											
RSPH6A	81492	broad.mit.edu	37	chr19	46303761	46303761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggagcgcacaacggccactGagtactgcgggcagaggctg	9	5	16	11	3	0	2	0	1	0	1	0	3	0	3	1	4	4	4	1	4	2	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr19:46303761G>A	uc002pdm.2	-	5	2002	c.1859C>T	c.(1858-1860)TCA>TTA	p.S620L	RSPH6A_uc002pdl.2_Missense_Mutation_p.S356L	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	620	Glu-rich.					intracellular				ovary(1)|central_nervous_system(1)	2						AACGGCCACTGAGTACTGCGG	0.652													4	51					0	0	0.010729	0	0		A	46303761	A	A	46303761	3	1	111	1	0	0	0	0	1	0	0	0	13732	1294	45	4	302	4	RSPH6A	19	46303761	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	762866	46303761	12825222	170	65324											
LIG1	3978	broad.mit.edu	37	chr19	48626468	48626468	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaactcggcgatctgctcGatgtccttggtgtccaggga	7	10	14	10	3	1	0	0	0	1	0	5	4	3	2	2	4	2	1	2	4	1	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr19:48626468G>A	uc002pia.1	-	22	2232	c.2112C>T	c.(2110-2112)ATC>ATT	p.I704I	LIG1_uc010xze.1_Silent_p.I397I|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Silent_p.I636I|LIG1_uc010xzg.1_Silent_p.I673I	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	704					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	CGATCTGCTCGATGTCCTTGG	0.617								NER					43	115					0	0	0.011902	0	0		A	48626468	A	A	48626468	2	1	111	1	0	0	0	0	0	0	0	1	8797	1048	37	1		1	LIG1	19	48626468	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	2322707	48626468	10502515	171	65325											
PRMT1	3276	broad.mit.edu	37	chr19	50189487	50189487	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacgctgccacaagaggacCggcttctccaccagtgaggc	10	5	11	15	2	1	2	0	1	1	1	2	3	1	3	4	3	1	2	4	3	1	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr19:50189487C>T	uc010enf.1	+	9	939	c.897C>T	c.(895-897)ACC>ACT	p.T299T	PRMT1_uc002ppc.1_RNA|PRMT1_uc002ppd.2_Silent_p.T275T|PRMT1_uc002ppe.2_Silent_p.T281T|PRMT1_uc002ppf.2_RNA|PRMT1_uc002ppg.2_Silent_p.T246T|PRMT1_uc010yba.1_RNA|PRMT1_uc010ybb.1_5'Flank|C19orf76_uc002pph.2_5'Flank	NM_001536	NP_001527	Q8WUW5	Q8WUW5_HUMAN	HMT1 hnRNP methyltransferase-like 2 isoform 1	280						cytoplasm	protein methyltransferase activity			ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00103)|GBM - Glioblastoma multiforme(134;0.012)		ACAAGAGGACCGGCTTCTCCA	0.507													3	14					0	0	0.009096	0	0		T	50189487	T	T	50189487	2	4	111	1	0	0	0	0	0	0	0	1	12557	639	23	1		1	PRMT1	19	50189487	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	1563019	50189487	8939496	172	65326											
ZNF615	284370	broad.mit.edu	37	chr19	52496341	52496341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtaataagatcatttttgCgcaaagagaattttccacat	14	14	7	6	1	1	2	1	0	0	2	2	3	2	2	1	0	1	2	1	0	4	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr19:52496341C>T	uc002pye.1	-	6	2280	c.1988G>A	c.(1987-1989)CGC>CAC	p.R663H	ZNF615_uc002pyf.1_Missense_Mutation_p.R674H|ZNF615_uc002pyg.1_Missense_Mutation_p.R555H|ZNF615_uc002pyh.1_Missense_Mutation_p.R674H|ZNF615_uc010epi.1_Missense_Mutation_p.R670H|ZNF615_uc010ydg.1_Missense_Mutation_p.R668H	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	663	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		ATCATTTTTGCGCAAAGAGAA	0.408													157	517					0	0	0.01441	0	0		T	52496341	T	T	52496341	3	4	111	1	0	0	0	0	1	0	0	0	18065	768	27	1	211	1	ZNF615	19	52496341	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	2306854	52496341	6632642	173	65327											
NLRP12	91662	broad.mit.edu	37	chr19	54304551	54304551	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaccccgaggtcccccaGctcattcaggctcaggtcca	8	6	9	18	1	3	0	3	0	0	0	5	1	5	0	5	3	2	3	5	3	0	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr19:54304551G>T	uc002qch.3	-	7	2906	c.2686C>A	c.(2686-2688)CTG>ATG	p.L896M	NLRP12_uc010eqw.2_Missense_Mutation_p.L179M|NLRP12_uc002qci.3_Missense_Mutation_p.L896M|NLRP12_uc002qcj.3_Missense_Mutation_p.L897M|NLRP12_uc002qck.3_Intron|NLRP12_uc010eqx.2_Intron	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	896	LRR 3.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		AGGTCCCCCAGCTCATTCAGG	0.622													6	142					3.59834e-05	3.8109e-05	0.001168	1	0		T	54304551	T	T	54304551	3	4	111	1	0	0	0	0	1	0	0	0	10493	962	34	5	515	5	NLRP12	19	54304551	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	1808210	54304551	4824432	174	65328											
NLRP2	55655	broad.mit.edu	37	chr19	55493754	55493754	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaaactaatgctagacTgggcagaggacaacctcatc	14	6	9	12	0	1	3	1	0	0	3	2	4	1	4	2	2	3	2	2	2	4	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr19:55493754T>G	uc002qij.2	+	6	774	c.688T>G	c.(688-690)TGG>GGG	p.W230G	NLRP2_uc010yfp.1_Missense_Mutation_p.W207G|NLRP2_uc010esn.2_Missense_Mutation_p.W206G|NLRP2_uc010eso.2_Missense_Mutation_p.W227G|NLRP2_uc010esp.2_Missense_Mutation_p.W208G	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	230	NACHT.				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		AATGCTAGACTGGGCAGAGGA	0.572													11	171					0	0	0.008291	0	0		G	55493754	G	G	55493754	3	3	111	1	0	0	0	0	1	0	0	0	10496	1580	55	5	706	5	NLRP2	19	55493754	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	1189203	55493754	3635229	175	65329											
BRSK1	84446	broad.mit.edu	37	chr19	55816953	55816953	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	catcgtccatgcctttctgtCggtgaggggcctgggtcccc	3	11	13	14	2	1	1	0	1	1	0	5	1	3	1	5	4	1	0	5	4	0	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr19:55816953C>G	uc002qkg.2	+	16	2166	c.1889C>G	c.(1888-1890)TCG>TGG	p.S630W	BRSK1_uc002qkf.2_Missense_Mutation_p.S646W|BRSK1_uc002qkh.2_Missense_Mutation_p.S325W	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	630					establishment of cell polarity|G2/M transition DNA damage checkpoint|neuron differentiation|response to UV	cell junction|cytoplasm|nucleus	magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|lung(1)|breast(1)|skin(1)	6		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0474)		GCCTTTCTGTCGGTGAGGGGC	0.557													77	360					0	0	0.01441	0	0		G	55816953	G	G	55816953	3	3	111	1	0	0	0	0	1	0	0	0	1526	898	31	5	1951	5	BRSK1	19	55816953	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	323199	55816953	3312030	176	65330											
ZNF154	7710	broad.mit.edu	37	chr19	58213860	58213860	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttctgtagtgagggttcTctgctgctgaacaagtgtgt	6	16	12	7	0	3	2	0	2	3	0	4	2	3	2	0	1	3	4	0	1	3	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr19:58213860T>A	uc010euf.2	-	3	697	c.457A>T	c.(457-459)AGA>TGA	p.R153*	ZNF776_uc002qpx.2_Intron|ZNF154_uc002qpy.2_RNA	NM_001085384	NP_001078853	Q13106	ZN154_HUMAN	zinc finger protein 154	153	C2H2-type 2; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GTGAGGGTTCTCTGCTGCTGA	0.448													113	787					0	0	0.01441	0	0		A	58213860	A	A	58213860	4	1	111	1	0	0	0	0	0	1	0	0	17760	1559	54	5	860	5	ZNF154	19	58213860	Nonsense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	2396907	58213860	915123	177	65331											
C20orf26	26074	broad.mit.edu	37	chr20	20079326	20079326	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagctgttgggttcatgAgtgtgtgctcaagagtgaac	9	11	14	7	0	2	3	2	2	0	1	2	3	2	3	0	1	3	5	0	1	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr20:20079326A>C	uc002wru.2	+	8	803	c.727A>C	c.(727-729)AGT>CGT	p.S243R	C20orf26_uc010gcw.1_Missense_Mutation_p.S197R|C20orf26_uc010zse.1_Missense_Mutation_p.S243R|C20orf26_uc010zsf.1_Missense_Mutation_p.S243R	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	243										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TGGGTTCATGAGTGTGTGCTC	0.368													33	379					0	0	0.010818	0	0		C	20079326	C	C	20079326	3	2	111	1	0	0	0	0	1	0	0	0	2109	304	11	5	753	5	C20orf26	20	20079326	Missense_Mutation	SNP	A	TCGA-CD-5813-01A-11D-1600-08		20079326	42946194	178	65332											
SEMG1	6406	broad.mit.edu	37	chr20	43836886	43836886	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccaaagcagtatttatagCcaaactgaagagaaagcaca	18	7	7	9	0	0	2	0	1	0	1	1	3	1	2	2	0	4	3	2	0	7	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr20:43836886C>G	uc002xni.2	+	2	1005	c.948C>G	c.(946-948)AGC>AGG	p.S316R	SEMG1_uc002xnj.2_Intron|SEMG2_uc010ggz.2_Intron|SEMG1_uc002xnh.2_Missense_Mutation_p.S316R	NM_003007	NP_002998	P04279	SEMG1_HUMAN	semenogelin I preproprotein	316	58 AA repeat 1.				insemination|sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(2)	2		Myeloproliferative disorder(115;0.0122)				GTATTTATAGCCAAACTGAAG	0.368													11	168					0	0	0.008291	0	0		G	43836886	G	G	43836886	3	3	111	1	0	0	0	0	1	0	0	0	14069	738	26	5	954	5	SEMG1	20	43836886	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	23757560	43836886	19188634	179	65333											
TPTE	7179	broad.mit.edu	37	chr21	10996084	10996084	+	RNA	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttttctgatcacagatctTttggttttcccttgcccagt	5	19	6	11	0	4	2	1	1	3	1	5	2	5	2	2	1	1	1	2	1	0	7			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr21:10996084T>A	uc002yis.1	-	12		c.2102A>T						P56180	TPTE_HUMAN	Homo sapiens putative tyrosine phosphatase mRNA, complete cds.						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TCACAGATCTTTTGGTTTTCC	0.368													9	130					0	0	0.004482	0	0		A	10996084	A	A	10996084	1	1	111	0	1	0	0	0	0	0	0	0	16456	1856	64	5		5	TPTE	21	10996084	RNA	SNP	T	TCGA-CD-5813-01A-11D-1600-08		10996084	37133811	180	65334											
SAMSN1	64092	broad.mit.edu	37	chr21	15858410	15858410	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctcaaggataggggctcAggttcattttcttgctcttg	7	14	12	8	0	5	0	3	0	2	0	5	2	5	1	0	4	2	4	0	4	2	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr21:15858410A>G	uc002yju.1	-	8	1027	c.945T>C	c.(943-945)CCT>CCC	p.P315P	SAMSN1_uc010gky.1_Silent_p.P147P|SAMSN1_uc002yjv.1_Silent_p.P383P	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	315					negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		ATAGGGGCTCAGGTTCATTTT	0.388													11	81					0	0	0.008291	0	0		G	15858410	G	G	15858410	2	3	111	1	0	0	0	0	0	0	0	1	13855	175	7	3		3	SAMSN1	21	15858410	Silent	SNP	A	TCGA-CD-5813-01A-11D-1600-08	4862326	15858410	32271485	181	65335											
DOPEY2	9980	broad.mit.edu	37	chr21	37603142	37603142	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgggagcccaagcccaTcactgtgcctcagttcaagc	8	9	9	15	0	4	0	3	0	1	0	4	1	4	1	3	1	4	1	3	1	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr21:37603142T>A	uc002yvg.2	+	14	2139	c.2060T>A	c.(2059-2061)ATC>AAC	p.I687N	DOPEY2_uc011aeb.1_Missense_Mutation_p.I687N	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	687					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						CCCAAGCCCATCACTGTGCCT	0.557													6	87					0	0	0.001984	0	0		A	37603142	A	A	37603142	3	1	111	1	0	0	0	0	1	0	0	0	4714	1435	50	5	2110	5	DOPEY2	21	37603142	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	21744732	37603142	10526753	182	65336											
COL18A1	80781	broad.mit.edu	37	chr21	46900409	46900409	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacatggagggatctggctTcgggggcgatctggaggccc	6	8	18	9	2	2	1	0	1	2	0	3	5	2	4	1	7	0	1	1	7	0	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr21:46900409T>C	uc011afs.1	+	11	2693	c.2672T>C	c.(2671-2673)TTC>TCC	p.F891S	COL18A1_uc002zhg.2_Missense_Mutation_p.F476S|COL18A1_uc002zhi.2_Missense_Mutation_p.F656S	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	891	Nonhelical region 3 (NC3).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		GGATCTGGCTTCGGGGGCGAT	0.637													13	81					0	0	0.020292	0	0		C	46900409	C	C	46900409	3	2	111	1	0	0	0	0	1	0	0	0	3678	1783	62	3	2828	3	COL18A1	21	46900409	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	9297267	46900409	1229486	183	65337											
YDJC	150223	broad.mit.edu	37	chr22	21982820	21982820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgcacgccatcctgggCaagctgggcccgcagcgtgg	7	5	15	14	3	0	0	0	0	0	0	1	0	1	0	3	3	4	5	3	3	2	0			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr22:21982820C>T	uc002zvb.2	-	5	896	c.859G>A	c.(859-861)GCC>ACC	p.A287T	YDJC_uc002zvc.2_RNA|YDJC_uc002zvd.2_3'UTR	NM_001017964	NP_001017964	A8MPS7	YDJC_HUMAN	YdjC homolog	287					carbohydrate metabolic process		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds				0	Colorectal(54;0.105)					CCATCCTGGGCAAGCTGGGCC	0.687													28	46					0	0	0.004656	0	0		T	21982820	T	T	21982820	3	4	111	1	0	0	0	0	1	0	0	0	17497	710	25	2	116	2	YDJC	22	21982820	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08		21982820	29321746	184	65338											
GGT1	2678	broad.mit.edu	37	chr22	25019156	25019156	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacatcagcctgggagacgtGgtgctgtacatgcccagtgc	9	8	13	11	1	1	1	1	0	0	1	1	2	1	1	2	2	6	2	2	2	2	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr22:25019156G>A	uc003aan.1	+	10	1303	c.816G>A	c.(814-816)GTG>GTA	p.V272V	GGT1_uc003aas.1_Silent_p.V272V|GGT1_uc003aat.1_Silent_p.V272V|GGT1_uc003aau.1_Silent_p.V272V|GGT1_uc003aav.1_Silent_p.V272V|GGT1_uc003aaw.1_Silent_p.V272V|GGT1_uc003aax.1_Silent_p.V272V	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor	272	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	TGGGAGACGTGGTGCTGTACA	0.617													7	13					0	0	0.001984	0	0		A	25019156	A	A	25019156	2	1	111	1	0	0	0	0	0	0	0	1	6376	1335	47	4		4	GGT1	22	25019156	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	3036336	25019156	26285410	185	65339											
FBXO7	25793	broad.mit.edu	37	chr22	32894361	32894361	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctggtcctggggagacGcccagccagtttcctccact	6	10	10	15	1	0	1	0	0	0	1	4	2	4	1	6	3	1	1	6	3	0	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr22:32894361G>A	uc003amq.2	+	9	1696	c.1413G>A	c.(1411-1413)ACG>ACA	p.T471T	FBXO7_uc003amr.2_Silent_p.T357T|FBXO7_uc003ams.2_Silent_p.T315T|FBXO7_uc003amt.2_Silent_p.T392T|FBXO7_uc003amu.2_Silent_p.T357T|FBXO7_uc003amv.2_Silent_p.T170T	NM_012179	NP_036311	Q9Y3I1	FBX7_HUMAN	F-box only protein 7 isoform 1	471					cell death|regulation of protein stability|ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)	1						CTGGGGAGACGCCCAGCCAGT	0.557													16	67					0	0	0.008871	0	0		A	32894361	A	A	32894361	2	1	111	1	0	0	0	0	0	0	0	1	5774	1074	38	1		1	FBXO7	22	32894361	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	7875205	32894361	18410205	186	65340											
TCF20	6942	broad.mit.edu	37	chr22	42609403	42609403	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaccattgctaggtggccTttgagtggctgcaggatcat	7	11	12	11	0	1	1	1	1	0	0	1	2	1	2	3	4	2	3	3	4	1	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr22:42609403T>G	uc003bcj.1	-	1	2043	c.1909A>C	c.(1909-1911)AGG>CGG	p.R637R	TCF20_uc003bck.1_Silent_p.R637R|TCF20_uc003bnt.2_Silent_p.R637R	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	637					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						CTAGGTGGCCTTTGAGTGGCT	0.552													14	80					0	0	0.01892	0	0		G	42609403	G	G	42609403	2	3	111	1	0	0	0	0	0	0	0	1	15715	1608	56	5		5	TCF20	22	42609403	Silent	SNP	T	TCGA-CD-5813-01A-11D-1600-08	9715042	42609403	8695163	187	65341											
TCF20	6942	broad.mit.edu	37	chr22	42611293	42611293	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttccgtggtaactgctttGctcccgaaaggactgcatac	8	12	10	11	2	0	0	0	0	0	0	2	2	2	1	2	2	5	5	2	2	3	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr22:42611293G>A	uc003bcj.1	-	1	153	c.19C>T	c.(19-21)CAA>TAA	p.Q7*	TCF20_uc003bck.1_Nonsense_Mutation_p.Q7*|TCF20_uc003bnt.2_Nonsense_Mutation_p.Q7*	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	7					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						TAACTGCTTTGCTCCCGAAAG	0.517													19	73					0	0	0.008871	0	0		A	42611293	A	A	42611293	4	1	111	1	0	0	0	0	0	1	0	0	15715	1328	46	2	5901	2	TCF20	22	42611293	Nonsense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	1890	42611293	8693273	188	65342											
PKDREJ	10343	broad.mit.edu	37	chr22	46654383	46654383	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagaatgaacaaaaagatgCaaagagccattctattgact	19	8	7	7	0	1	5	0	2	1	3	1	5	1	5	1	0	3	1	1	0	6	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chr22:46654383C>A	uc003bhh.2	-	1	4837	c.4837G>T	c.(4837-4839)GCA>TCA	p.A1613S		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1613	Helical; (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		CAAAAAGATGCAAAGAGCCAT	0.373													3	80					0.00909568	0.00931843	0.009096	1	0		A	46654383	A	A	46654383	3	1	111	1	0	0	0	0	1	0	0	0	11989	710	25	5	1928	5	PKDREJ	22	46654383	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08	4043090	46654383	4650183	189	65343											
MXRA5	25878	broad.mit.edu	37	chrX	3238447	3238447	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaataacttttctctctCtcattactggggcaggagaa	10	13	9	9	0	3	1	1	0	2	1	5	3	3	2	0	4	2	1	0	4	4	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chrX:3238447C>A	uc004crg.3	-	5	5436	c.5279G>T	c.(5278-5280)AGA>ATA	p.R1760I		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1760						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TTTTCTCTCTCTCATTACTGG	0.502													12	24					1.5842e-08	1.69929e-08	0.016723	1	0		A	3238447	A	A	3238447	3	1	111	1	0	0	0	0	1	0	0	0	10021	913	32	5	3219	5	MXRA5	23	3238447	Missense_Mutation	SNP	C	TCGA-CD-5813-01A-11D-1600-08		3238447	152032113	190	65344											
ASB11	140456	broad.mit.edu	37	chrX	15315756	15315756	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacctccaaggcatgcctcGtggagagaagacacccggtt	10	7	12	12	2	0	3	0	1	0	2	2	5	1	4	4	3	1	2	4	3	2	1			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chrX:15315756G>T	uc004cwp.1	-	3	309	c.309C>A	c.(307-309)CAC>CAA	p.H103Q	ASB11_uc004cwo.1_Missense_Mutation_p.H82Q|ASB11_uc010nes.1_RNA|ASB11_uc010net.1_Intron	NM_080873	NP_543149	Q8WXH4	ASB11_HUMAN	ankyrin repeat and SOCS box-containing protein	103	ANK 2.				intracellular signal transduction					breast(2)|skin(1)	3	Hepatocellular(33;0.183)					GGCATGCCTCGTGGAGAGAAG	0.433													15	75					1.15088e-07	1.22924e-07	0.004007	1	0		T	15315756	T	T	15315756	3	4	111	1	0	0	0	0	1	0	0	0	1016	1136	40	5	682	5	ASB11	23	15315756	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	12077309	15315756	139954804	191	65345											
PHEX	5251	broad.mit.edu	37	chrX	22050995	22050995	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgaggggagatttcctgaCggcagtttcttaagctgtcc	7	11	14	9	2	1	2	0	1	1	1	3	4	3	2	2	4	1	3	2	4	1	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chrX:22050995C>T	uc004dah.2	+	1	75	c.-128C>T	c.(-130--126)GACGG>GATGG		PHEX_uc011mjr.1_Translation_Start_Site	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase						biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						GATTTCCTGACGGCAGTTTCT	0.438													18	14					0	0	0.006122	0	0		T	22050995	T	T	22050995	1	4	111	1	0	0	0	0	0	0	0	0	11838	551	19	1		1	PHEX	23	22050995	Translation_Start_Site	SNP	C	TCGA-CD-5813-01A-11D-1600-08	6735239	22050995	133219565	192	65346											
ZCCHC16	340595	broad.mit.edu	37	chrX	111698562	111698562	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagagtgtcactgatatgatGgacaatcttccagacctgat	12	11	10	8	0	2	5	1	3	1	2	3	7	3	6	2	1	0	0	2	1	2	2			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chrX:111698562G>T	uc004epo.1	+	3	1047	c.606G>T	c.(604-606)ATG>ATT	p.M202I		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	202							nucleic acid binding|zinc ion binding			ovary(1)	1						CTGATATGATGGACAATCTTC	0.468													6	138					0.00116845	0.00121693	0.001168	1	0		T	111698562	T	T	111698562	3	4	111	1	0	0	0	0	1	0	0	0	17609	1348	47	5	608	5	ZCCHC16	23	111698562	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	89647567	111698562	43571998	193	65347											
KIAA1210	57481	broad.mit.edu	37	chrX	118221772	118221772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgcctcaatagcagcccGctcgaaatttgaggacagtt	10	10	10	11	2	2	1	1	1	1	0	3	3	2	2	2	1	3	3	2	1	3	3			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chrX:118221772G>A	uc004era.3	-	11	3421	c.3421C>T	c.(3421-3423)CGG>TGG	p.R1141W		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1141										ovary(4)|skin(1)	5						ATAGCAGCCCGCTCGAAATTT	0.468													57	36					0	0	0.01441	0	0		A	118221772	A	A	118221772	3	1	111	1	0	0	0	0	1	0	0	0	8230	1086	38	1	1724	1	KIAA1210	23	118221772	Missense_Mutation	SNP	G	TCGA-CD-5813-01A-11D-1600-08	6523210	118221772	37048788	194	65348											
C1GALT1C1	29071	broad.mit.edu	37	chrX	119760150	119760150	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctaaggcggtataccccaTacatcatcacatgcatctga	12	9	6	14	1	3	1	2	1	1	0	3	1	3	1	3	2	3	2	3	2	4	4			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chrX:119760150T>C	uc004esy.2	-	3	1219	c.872A>G	c.(871-873)TAT>TGT	p.Y291C	C1GALT1C1_uc004esz.2_Missense_Mutation_p.Y291C	NM_152692	NP_689905	Q96EU7	C1GLC_HUMAN	C1GALT1-specific chaperone 1	291	Lumenal (Potential).					integral to membrane					0						GTATACCCCATACATCATCAC	0.418													5	97					0	0	0.014758	0	0		C	119760150	C	C	119760150	3	2	111	1	0	0	0	0	1	0	0	0	1956	1406	49	3	88	3	C1GALT1C1	23	119760150	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	1538378	119760150	35510410	195	65349											
XIAP	331	broad.mit.edu	37	chrX	123019704	123019704	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagataccgtgcggtgcttTagttgtcatgcagctgtaga	8	12	14	7	2	1	2	1	0	0	2	1	3	1	2	1	2	5	5	1	2	3	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chrX:123019704T>G	uc010nqu.2	+	2	318	c.192T>G	c.(190-192)TTT>TTG	p.F64L	XIAP_uc004etx.2_Missense_Mutation_p.F64L|XIAP_uc010nqv.2_Intron	NM_001167	NP_001158	P98170	XIAP_HUMAN	baculoviral IAP repeat-containing protein 4	64	BIR 1.				anti-apoptosis|apoptosis|induction of apoptosis by intracellular signals|response to DNA damage stimulus	cytosol	caspase inhibitor activity|ligase activity|protein binding|zinc ion binding			ovary(1)|lung(1)	2						TGCGGTGCTTTAGTTGTCATG	0.433									X-linked_Lymphoproliferative_syndrome				6	137					0	0	0.001168	0	0		G	123019704	G	G	123019704	3	3	111	1	0	0	0	0	1	0	0	0	17454	1751	61	5	194	5	XIAP	23	123019704	Missense_Mutation	SNP	T	TCGA-CD-5813-01A-11D-1600-08	3259554	123019704	32250856	196	65350											
CXorf40B	541578	broad.mit.edu	37	chrX	149101841	149101841	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtacattgtcacttaccCgctatcactcctcgaccaaa	10	12	5	14	2	2	0	2	0	0	0	4	1	3	0	3	1	2	2	3	1	4	5			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chrX:149101841C>T	uc004fdy.2	-	4	768	c.252G>A	c.(250-252)GCG>GCA	p.A84A	CXorf40B_uc011mxs.1_RNA	NM_001013845	NP_001013867	Q96DE9	CX04B_HUMAN	hypothetical protein LOC541578	84											0	Acute lymphoblastic leukemia(192;6.56e-05)					GTCACTTACCCGCTATCACTC	0.532													19	125					0	0	0.012319	0	0		T	149101841	T	T	149101841	2	4	111	1	0	0	0	0	0	0	0	1	4112	666	23	1		1	CXorf40B	23	149101841	Silent	SNP	C	TCGA-CD-5813-01A-11D-1600-08	26082137	149101841	6168719	197	65351											
FLNA	2316	broad.mit.edu	37	chrX	153594996	153594996	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggttcttgtcgttattggcGgtcacttttgcctgcagtgg	3	16	13	9	3	2	0	1	0	1	0	3	0	2	0	1	4	2	3	1	4	1	6			TCGA-CD-5813-01A-11D-1600-08	TCGA-CD-5813-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a778f73-34b4-41f5-a6eb-26fe3fc275d3	291659ca-12d2-4907-8c16-0b3b8b2b294c	g.chrX:153594996G>A	uc004fkk.2	-	7	1248	c.999C>T	c.(997-999)ACC>ACT	p.T333T	FLNA_uc010nuu.1_Silent_p.T333T	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	333	Filamin 1.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CGTTATTGGCGGTCACTTTTG	0.627													16	46					0	0	0.00499	0	0		A	153594996	A	A	153594996	2	1	111	1	0	0	0	0	0	0	0	1	5947	1103	39	1		1	FLNA	23	153594996	Silent	SNP	G	TCGA-CD-5813-01A-11D-1600-08	4493155	153594996	1675564	198	65352											
CSMD2	114784	broad.mit.edu	37	chr1	34008458	34008458	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatcactgaacacaactcGggcattacttggagtcccag	11	8	9	13	1	1	1	1	1	0	0	3	2	2	2	2	2	3	1	2	2	3	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:34008458G>A	uc001bxn.1	-	57	8736	c.8707C>T	c.(8707-8709)CGA>TGA	p.R2903*	CSMD2_uc001bxm.1_Nonsense_Mutation_p.R3047*	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2903	Sushi 21.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AACACAACTCGGGCATTACTT	0.512													18	21					0	0	0.008871	0	0		A	34008458	A	A	34008458	4	1	112	1	0	0	0	0	0	1	0	0	3948	1124	39	1	1808	1	CSMD2	1	34008458	Nonsense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08		34008458	215242163	1	65353											
NDUFS5	4725	broad.mit.edu	37	chr1	39500125	39500125	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gataaaggaaggaaagtacaCccctccacctcaccacattg	15	6	7	13	0	1	0	1	0	0	0	2	3	2	2	5	2	1	1	5	2	5	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:39500125C>G	uc001ccx.2	+	3	349	c.278C>G	c.(277-279)ACC>AGC	p.T93S	NDUFS5_uc001ccy.2_Missense_Mutation_p.T93S	NM_004552	NP_004543	O43920	NDUS5_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 5,	93					mitochondrial electron transport, NADH to ubiquinone|mitochondrial respiratory chain complex I assembly|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.93e-18)		NADH(DB00157)	GGAAAGTACACCCCTCCACCT	0.512													7	36					0	0	0.00308	0	0		G	39500125	G	G	39500125	3	3	112	1	0	0	0	0	1	0	0	0	10314	507	18	5	284	5	NDUFS5	1	39500125	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	5491667	39500125	209750496	2	65354											
SYT6	148281	broad.mit.edu	37	chr1	114682479	114682479	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagggactggaggcctccttGttcctccagggcatccagca	7	8	13	13	0	0	0	0	0	0	0	4	3	4	2	5	4	1	3	5	4	0	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:114682479G>C	uc001eev.2	-	2	265	c.15C>G	c.(13-15)AAC>AAG	p.N5K		NM_205848	NP_995320	Q5T7P8	SYT6_HUMAN	synaptotagmin VI	90	Cytoplasmic (Potential).				acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGGCCTCCTTGTTCCTCCAGG	0.572													16	78					0	0	0.003163	0	0		C	114682479	C	C	114682479	3	2	112	1	0	0	0	0	1	0	0	0	15503	1368	48	5	1286	5	SYT6	1	114682479	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	75182354	114682479	134568142	3	65355											
NBPF9	400818	broad.mit.edu	37	chr1	144828640	144828640	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtactttgaactacctgaCtcattccagcactacagaag	13	11	6	11	0	1	3	1	2	0	1	2	3	2	3	2	0	5	2	2	0	5	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:144828640C>G	uc009wig.1	+	23	2761	c.2685C>G	c.(2683-2685)GAC>GAG	p.D895E	NBPF9_uc010oxn.1_Missense_Mutation_p.D793E|NBPF9_uc010oxo.1_Missense_Mutation_p.D820E|NBPF9_uc010oxr.1_Missense_Mutation_p.D922E|NBPF9_uc010oxt.1_Missense_Mutation_p.D710E|NBPF9_uc001ekg.1_Missense_Mutation_p.D222E|NBPF9_uc001ekk.1_Missense_Mutation_p.D466E|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Missense_Mutation_p.D222E|NBPF9_uc010oye.1_Intron|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Missense_Mutation_p.D555E|uc001elr.3_5'Flank	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	895	NBPF 7.					cytoplasm					0						AACTACCTGACTCATTCCAGC	0.458													16	224					0	0	0.00874	0	0		G	144828640	G	G	144828640	3	3	112	1	0	0	0	0	1	0	0	0	10218	564	20	5	2761	5	NBPF9	1	144828640	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	30146161	144828640	104421981	4	65356											
SETDB1	9869	broad.mit.edu	37	chr1	150900360	150900361	+	Missense_Mutation	DNP	GC	AA	AA																															gatggattgtgtacagcaacGcaagaagcagctagcagagt																										TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:150900360_150900361GC>AA	uc001evu.2	+	2	360_361	c.170_171GC>AA	c.(169-171)CGC>CAA	p.R57Q	SETDB1_uc009wmf.2_Missense_Mutation_p.R57Q|SETDB1_uc001evv.2_Missense_Mutation_p.R57Q|SETDB1_uc001evw.3_Missense_Mutation_p.R57Q|SETDB1_uc009wmg.1_Missense_Mutation_p.R57Q	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	57	Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			GTACAGCAACGCAAGAAGCAGC	0.48													19	135					0	0	0.004672	0	0		AA	150900361	AA	AA	150900360	3	1	112	1	0	0	0	0	1	0	0	0	14163	1087	38	1	172	1	SETDB1	1	150900360	Missense_Mutation	DNP	GC	TCGA-CD-8524-01A-11D-2340-08	6071720	150900360	98350261	5	65357											
TCHH	7062	broad.mit.edu	37	chr1	152080373	152080373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggagctgttcctcctcgcGgaattttctgtcgcgctcct	3	13	11	14	5	1	0	0	0	1	0	6	2	4	2	3	2	1	3	3	2	1	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:152080373G>A	uc001ezp.2	-	2	5320	c.5320C>T	c.(5320-5322)CGC>TGC	p.R1774C	TCHH_uc009wne.1_Missense_Mutation_p.R1774C	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1774	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCTCCTCGCGGAATTTTCTG	0.597													6	88					0	0	0.001984	0	0		A	152080373	A	A	152080373	3	1	112	1	0	0	0	0	1	0	0	0	15725	1116	39	1	515	1	TCHH	1	152080373	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	1180013	152080373	97170248	6	65358											
LMNA	4000	broad.mit.edu	37	chr1	156106743	156106743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaattggcagatcaagcGccagaatggagatgatccct	12	7	13	9	1	1	4	1	1	0	3	2	5	2	4	2	3	1	2	2	3	3	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:156106743G>A	uc001fni.2	+	8	1661	c.1412G>A	c.(1411-1413)CGC>CAC	p.R471H	LMNA_uc001fnf.1_Missense_Mutation_p.R471H|LMNA_uc001fng.2_Missense_Mutation_p.R471H|LMNA_uc001fnh.2_Missense_Mutation_p.R471H|LMNA_uc009wro.1_Missense_Mutation_p.R471H|LMNA_uc010pgz.1_Missense_Mutation_p.R359H|LMNA_uc001fnj.2_Missense_Mutation_p.R390H|LMNA_uc001fnk.2_Missense_Mutation_p.R372H|LMNA_uc009wrp.2_3'UTR|LMNA_uc010pha.1_Missense_Mutation_p.R127H	NM_170707	NP_733821	P02545	LMNA_HUMAN	lamin A/C isoform 1 precursor	471	Tail.				cellular component disassembly involved in apoptosis|cellular response to hypoxia|establishment or maintenance of microtubule cytoskeleton polarity|muscle organ development|positive regulation of cell aging|regulation of apoptosis|regulation of cell migration	cytoplasm|lamin filament|nuclear envelope|nuclear envelope|perinuclear region of cytoplasm	protein binding|structural molecule activity|structural molecule activity			ovary(2)	2	Hepatocellular(266;0.158)					CAGATCAAGCGCCAGAATGGA	0.582									Werner_syndrome|Hutchinson-Gilford_Progeria_Syndrome				3	17					0	0	0.004672	0	0		A	156106743	A	A	156106743	3	1	112	1	0	0	0	0	1	0	0	0	8865	1087	38	1	1442	1	LMNA	1	156106743	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	4026370	156106743	93143878	7	65359											
OR10T2	128360	broad.mit.edu	37	chr1	158368662	158368662	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgctgaggctaaataaagCcagctctttcacatgggtgt	11	11	11	8	0	2	1	1	1	1	0	2	2	2	1	1	2	3	3	1	2	4	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:158368662C>A	uc010pih.1	-	1	595	c.595G>T	c.(595-597)GCT>TCT	p.A199S		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	199	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					CTAAATAAAGCCAGCTCTTTC	0.448													24	36					1.10513e-12	1.278e-12	0.014323	1	0		A	158368662	A	A	158368662	3	1	112	1	0	0	0	0	1	0	0	0	10938	739	26	5	351	5	OR10T2	1	158368662	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	2261919	158368662	90881959	8	65360											
ADCY10	55811	broad.mit.edu	37	chr1	167847720	167847720	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccaatactgatacaatggtCcagaatctgcaacacctttc	13	10	5	13	0	1	2	0	1	1	1	3	2	2	2	3	1	4	1	3	1	6	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:167847720C>A	uc001ger.2	-	12	1668	c.1370G>T	c.(1369-1371)GGA>GTA	p.G457V	ADCY10_uc009wvk.2_Missense_Mutation_p.G365V|ADCY10_uc010plj.1_Missense_Mutation_p.G304V|ADCY10_uc009wvl.2_Missense_Mutation_p.G456V	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	457					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						ATACAATGGTCCAGAATCTGC	0.403													7	85					0.00307968	0.00317161	0.00308	1	0		A	167847720	A	A	167847720	3	1	112	1	0	0	0	0	1	0	0	0	293	855	30	5	3550	5	ADCY10	1	167847720	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	9479058	167847720	81402901	9	65361											
C1orf156	92342	broad.mit.edu	37	chr1	169762816	169762816	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagatggtcttctatagtGaaattaaactgaaaggtcat	14	13	8	6	0	3	3	1	2	2	1	4	3	4	3	1	2	1	0	1	2	6	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:169762816G>A	uc001ggn.2	-	2	299	c.21C>T	c.(19-21)TTC>TTT	p.F7F	C1orf112_uc001ggj.2_Intron|C1orf112_uc001ggo.2_5'Flank|uc010plt.1_5'Flank|C1orf112_uc001ggp.2_5'Flank|C1orf112_uc001ggq.2_5'Flank|C1orf112_uc009wvt.2_5'Flank	NM_033418	NP_219486	O95568	MET18_HUMAN	hypothetical protein MGC9084	7						cytoplasm	protein methyltransferase activity				0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CTTCTATAGTGAAATTAAACT	0.358													5	49					0	0	0.014758	0	0		A	169762816	A	A	169762816	2	1	112	1	0	0	0	0	0	0	0	1	2009	1281	45	4		4	C1orf156	1	169762816	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	1915096	169762816	79487805	10	65362											
ASTN1	460	broad.mit.edu	37	chr1	176926896	176926896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttatctttgctgcagtcgCgcaccggcccaaaggaatct	8	10	10	13	4	2	0	0	0	2	0	3	1	2	1	2	2	2	4	2	2	3	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:176926896C>T	uc001glc.2	-	11	2017	c.1805G>A	c.(1804-1806)CGC>CAC	p.R602H	ASTN1_uc001glb.1_Missense_Mutation_p.R602H|ASTN1_uc001gld.1_Missense_Mutation_p.R602H|ASTN1_uc009wwx.1_Missense_Mutation_p.R602H	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	610	EGF-like 2.				cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GCTGCAGTCGCGCACCGGCCC	0.552													5	31					0	0	0.014758	0	0		T	176926896	T	T	176926896	3	4	112	1	0	0	0	0	1	0	0	0	1065	768	27	1	2135	1	ASTN1	1	176926896	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	7164080	176926896	72323725	11	65363											
PGBD5	79605	broad.mit.edu	37	chr1	230472930	230472930	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatgtagttcttgcctgcCgcgttccggcacaggctcct	5	12	11	13	3	1	1	0	1	1	0	3	1	3	1	4	2	2	5	4	2	1	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:230472930C>T	uc010pwb.1	-	4	792	c.792G>A	c.(790-792)GCG>GCA	p.A264A	PGBD5_uc001htv.2_Silent_p.A363A	NM_024554	NP_078830	Q8N414	PGBD5_HUMAN	piggyBac transposable element derived 5	264						integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(184;0.0397)	Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;0.201)		TCTTGCCTGCCGCGTTCCGGC	0.577													12	33					0	0	0.016723	0	0		T	230472930	T	T	230472930	2	4	112	1	0	0	0	0	0	0	0	1	11803	639	23	1		1	PGBD5	1	230472930	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08	53546034	230472930	18777691	12	65364											
RYR2	6262	broad.mit.edu	37	chr1	237586436	237586436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacagccattccgactacGccatgtcacaacaggaaaat	14	6	9	12	2	1	0	1	0	0	0	2	3	2	2	3	2	3	0	3	2	4	2	rs35041432		TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:237586436G>A	uc001hyl.1	+	12	1013	c.893G>A	c.(892-894)CGC>CAC	p.R298H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	298	Cytoplasmic (By similarity).|MIR 4.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTCCGACTACGCCATGTCACA	0.428													20	64					0	0	0.010504	0	0		A	237586436	A	A	237586436	3	1	112	1	0	0	0	0	1	0	0	0	13794	1087	38	1	939	1	RYR2	1	237586436	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	7113506	237586436	11664185	13	65365											
RYR2	6262	broad.mit.edu	37	chr1	237947447	237947447	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggaagcgccaaacgcatCgagagggtctattttgaaat	13	9	12	7	3	1	2	0	1	1	1	2	4	1	3	1	2	2	1	1	2	4	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:237947447C>A	uc001hyl.1	+	90	12555	c.12435C>A	c.(12433-12435)ATC>ATA	p.I4145I	RYR2_uc010pya.1_Silent_p.I560I	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4145					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CCAAACGCATCGAGAGGGTCT	0.498													9	65					2.17888e-05	2.41191e-05	0.006214	1	0		A	237947447	A	A	237947447	2	1	112	1	0	0	0	0	0	0	0	1	13794	874	31	5		5	RYR2	1	237947447	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08	361011	237947447	11303174	14	65366											
OR2M3	127062	broad.mit.edu	37	chr1	248367138	248367138	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtactatggagcagctttgTtcatgtacatacggcccaca	10	12	9	10	1	1	0	1	0	0	0	1	1	1	1	1	2	5	5	1	2	4	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr1:248367138T>G	uc010pzg.1	+	1	769	c.769T>G	c.(769-771)TTC>GTC	p.F257V		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	257	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AGCAGCTTTGTTCATGTACAT	0.493													26	183					0	0	0.004656	0	0		G	248367138	G	G	248367138	3	3	112	1	0	0	0	0	1	0	0	0	11030	1725	60	5	771	5	OR2M3	1	248367138	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	10419691	248367138	883483	15	65367											
NTSR2	23620	broad.mit.edu	37	chr2	11800223	11800223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagcctgcgggcatggtacGgcagccagcagatgacatac	10	6	14	11	2	0	3	0	2	0	1	0	3	0	3	2	3	6	4	2	3	2	2	rs139725500		TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:11800223G>A	uc002rbq.3	-	3	1009	c.935C>T	c.(934-936)CCG>CTG	p.P312L		NM_012344	NP_036476	O95665	NTR2_HUMAN	neurotensin receptor 2	312	Helical; Name=6; (Potential).				sensory perception	integral to plasma membrane					0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.129)|OV - Ovarian serous cystadenocarcinoma(76;0.24)	Levocabastine(DB01106)	GGCATGGTACGGCAGCCAGCA	0.562													7	29					0	0	0.00308	0	0		A	11800223	A	A	11800223	3	1	112	1	0	0	0	0	1	0	0	0	10730	1116	39	1	305	1	NTSR2	2	11800223	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08		11800223	231399150	16	65368											
SNX17	9784	broad.mit.edu	37	chr2	27598553	27598553	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttccgggtcacccgcatgCgatgctggcgggtcacctcc	4	8	12	17	4	2	0	2	0	0	0	4	1	4	0	5	3	2	2	5	3	0	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:27598553C>T	uc002rkg.1	+	10	1177	c.955C>T	c.(955-957)CGA>TGA	p.R319*	SNX17_uc010ylj.1_Nonsense_Mutation_p.R299*|SNX17_uc010ylk.1_Nonsense_Mutation_p.R105*|SNX17_uc010eza.1_Nonsense_Mutation_p.R105*|SNX17_uc002rki.1_RNA|SNX17_uc002rkh.1_Nonsense_Mutation_p.R105*|SNX17_uc010yll.1_Nonsense_Mutation_p.R105*|SNX17_uc010ylm.1_Nonsense_Mutation_p.R105*|SNX17_uc010yln.1_Nonsense_Mutation_p.R307*|SNX17_uc010ylo.1_Nonsense_Mutation_p.R237*|SNX17_uc010ylp.1_Nonsense_Mutation_p.R294*|SNX17_uc010ylq.1_Nonsense_Mutation_p.R105*	NM_014748	NP_055563	Q15036	SNX17_HUMAN	sorting nexin 17	319					cell communication|endosome transport|intracellular protein transport|regulation of endocytosis|signal transduction	cytoplasmic vesicle membrane|cytosol|early endosome|Golgi apparatus	low-density lipoprotein particle receptor binding|phosphatidylinositol binding|protein C-terminus binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CACCCGCATGCGATGCTGGCG	0.672													6	53					0	0	0.001984	0	0		T	27598553	T	T	27598553	4	4	112	1	0	0	0	0	0	1	0	0	14913	760	27	1	993	1	SNX17	2	27598553	Nonsense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	15798330	27598553	215600820	17	65369											
PEX13	5194	broad.mit.edu	37	chr2	61259050	61259050	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctttacagacggctacagCggatgttaggtttaagaaga	13	11	11	6	2	1	3	0	0	1	3	1	4	1	4	0	3	3	3	0	3	5	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:61259050C>T	uc002sau.3	+	2	672	c.589C>T	c.(589-591)CGG>TGG	p.R197W		NM_002618	NP_002609	Q92968	PEX13_HUMAN	peroxisomal biogenesis factor 13	197	Targeting to peroxisomes.|Lumenal (Potential).				cerebral cortex cell migration|fatty acid alpha-oxidation|locomotory behavior|microtubule-based peroxisome localization|neuron migration|protein import into peroxisome matrix, docking|suckling behavior	integral to peroxisomal membrane|membrane fraction	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(5;2.05e-06)|Lung(5;3.13e-05)|Epithelial(17;0.114)			ACGGCTACAGCGGATGTTAGG	0.453													17	55					0	0	0.00499	0	0		T	61259050	T	T	61259050	3	4	112	1	0	0	0	0	1	0	0	0	11760	759	27	1	595	1	PEX13	2	61259050	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	33660497	61259050	181940323	18	65370											
GYPC	2995	broad.mit.edu	37	chr2	127413868	127413868	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgagaagccccaacagcaCggcgtggcctctcagcctcg	9	4	12	16	4	1	1	1	0	1	1	3	3	1	1	4	2	4	1	4	2	2	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:127413868C>T	uc002tnq.2	+	1	185	c.29C>T	c.(28-30)ACG>ATG	p.T10M	GYPC_uc002tnr.2_Missense_Mutation_p.T10M|GYPC_uc010flv.2_RNA|GYPC_uc010flw.1_Missense_Mutation_p.T10M	NM_002101	NP_002092	P04921	GLPC_HUMAN	glycophorin C isoform 1	10	Extracellular.					cortical cytoskeleton|integral to plasma membrane	protein binding			central_nervous_system(1)	1	Colorectal(110;0.0533)			BRCA - Breast invasive adenocarcinoma(221;0.075)		CCCAACAGCACGGCGTGGCCT	0.637													3	5					0	0	0.004672	0	0		T	127413868	T	T	127413868	3	4	112	1	0	0	0	0	1	0	0	0	6926	536	19	1	31	1	GYPC	2	127413868	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	66154818	127413868	115785505	19	65371											
LRP1B	53353	broad.mit.edu	37	chr2	141243057	141243057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttttccaatccaatcgaCagcaagtgcattggggaccg	10	11	10	10	2	0	0	0	0	0	0	3	2	2	1	3	2	2	3	3	2	3	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:141243057C>T	uc002tvj.1	-	59	10252	c.9280G>A	c.(9280-9282)GTC>ATC	p.V3094I		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3094	Extracellular (Potential).|LDL-receptor class B 28.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATCCAATCGACAGCAAGTGCA	0.378										TSP Lung(27;0.18)			12	25					0	0	0.010729	0	0		T	141243057	T	T	141243057	3	4	112	1	0	0	0	0	1	0	0	0	8973	478	17	4	4651	4	LRP1B	2	141243057	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	13829189	141243057	101956316	20	65372											
GALNT13	114805	broad.mit.edu	37	chr2	155115621	155115621	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatgcaggaatggatatctgGggtggagagaatcttgaaat	13	10	15	3	0	2	2	0	1	2	1	2	7	2	5	0	5	1	1	0	5	4	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:155115621G>A	uc002tyr.3	+	8	1512	c.945G>A	c.(943-945)TGG>TGA	p.W315*	GALNT13_uc002tyt.3_Nonsense_Mutation_p.W315*|GALNT13_uc010foc.1_Nonsense_Mutation_p.W134*|GALNT13_uc010fod.2_Nonsense_Mutation_p.W68*	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	315	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						TGGATATCTGGGGTGGAGAGA	0.383													23	47					0	0	0.016522	0	0		A	155115621	A	A	155115621	4	1	112	1	0	0	0	0	0	1	0	0	6226	1241	43	4	967	4	GALNT13	2	155115621	Nonsense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	13872564	155115621	88083752	21	65373											
SCN1A	6323	broad.mit.edu	37	chr2	166848014	166848014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggtggcgtctgtaagcaCgctgaataatgacagcagat	14	8	12	7	2	1	3	0	2	1	1	1	3	1	3	0	2	2	4	0	2	4	2	rs3749029		TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:166848014C>T	uc010zcz.1	-	26	5756	c.5738G>A	c.(5737-5739)CGT>CAT	p.R1913H		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1924						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TCTGTAAGCACGCTGAATAAT	0.388													23	56					0	0	0.021523	0	0		T	166848014	T	T	166848014	3	4	112	1	0	0	0	0	1	0	0	0	13939	536	19	1	262	1	SCN1A	2	166848014	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	11732393	166848014	76351359	22	65374											
TTN	7273	broad.mit.edu	37	chr2	179473038	179473038	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acattggctttcaaggcattCagaaggcttttgttgacacg	10	13	10	8	1	2	2	2	1	0	1	2	2	2	2	0	3	0	4	0	3	2	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:179473038C>G	uc010zfg.1	-	224	45092	c.44868G>C	c.(44866-44868)CTG>CTC	p.L14956L	uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.L8651L|TTN_uc010zfi.1_Silent_p.L8584L|TTN_uc010zfj.1_Silent_p.L8459L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15883							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCAAGGCATTCAGAAGGCTTT	0.428													5	25					0	0	0.014758	0	0		G	179473038	G	G	179473038	2	3	112	1	0	0	0	0	0	0	0	1	16761	813	29	5		5	TTN	2	179473038	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08	12625024	179473038	63726335	23	65375											
TTN	7273	broad.mit.edu	37	chr2	179482698	179482698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtctcttaattcaatgaCgtagtttgtgatctcagcac	9	16	7	9	1	3	2	2	2	2	0	5	2	3	2	0	0	1	3	0	0	3	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:179482698C>T	uc010zfg.1	-	202	39900	c.39676G>A	c.(39676-39678)GTC>ATC	p.V13226I	TTN_uc010zfh.1_Missense_Mutation_p.V6921I|TTN_uc010zfi.1_Missense_Mutation_p.V6854I|TTN_uc010zfj.1_Missense_Mutation_p.V6729I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14153							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATTCAATGACGTAGTTTGTG	0.453													10	113					0	0	0.006214	0	0		T	179482698	T	T	179482698	3	4	112	1	0	0	0	0	1	0	0	0	16761	536	19	1	60753	1	TTN	2	179482698	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	9660	179482698	63716675	24	65376											
TTN	7273	broad.mit.edu	37	chr2	179640548	179640548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgagacttgagctccacagCggtaatggcttcataatagc	11	10	10	10	2	1	2	1	1	0	1	3	3	2	2	1	2	3	3	1	2	3	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:179640548C>T	uc010zfg.1	-	28	6267	c.6043G>A	c.(6043-6045)GCT>ACT	p.A2015T	TTN_uc010zfh.1_Missense_Mutation_p.A1969T|TTN_uc010zfi.1_Missense_Mutation_p.A1969T|TTN_uc010zfj.1_Missense_Mutation_p.A1969T|TTN_uc002unb.2_Missense_Mutation_p.A2015T|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2015							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGCTCCACAGCGGTAATGGCT	0.453													48	86					0	0	0.01441	0	0		T	179640548	T	T	179640548	3	4	112	1	0	0	0	0	1	0	0	0	16761	768	27	1	105285	1	TTN	2	179640548	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	157850	179640548	63558825	25	65377											
ERBB4	2066	broad.mit.edu	37	chr2	212251665	212251665	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttctggggcaaacacggtggGgtcagcactgtacctctggg	7	9	15	10	1	3	0	1	0	2	0	3	0	3	0	1	6	3	3	1	6	2	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:212251665G>A	uc002veg.1	-	27	3492	c.3394C>T	c.(3394-3396)CCC>TCC	p.P1132S	ERBB4_uc002veh.1_Missense_Mutation_p.P1116S|ERBB4_uc010zji.1_Missense_Mutation_p.P1122S|ERBB4_uc010zjj.1_Missense_Mutation_p.P1106S	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1132	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		AACACGGTGGGGTCAGCACTG	0.532										TSP Lung(8;0.080)			12	52					0	0	0.016723	0	0		A	212251665	A	A	212251665	3	1	112	1	0	0	0	0	1	0	0	0	5217	1232	43	4	540	4	ERBB4	2	212251665	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	32611117	212251665	30947708	26	65378											
SMARCAL1	50485	broad.mit.edu	37	chr2	217297484	217297484	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgctgctcgctgacgacAtgggcctggggaagaccatc	7	7	14	13	2	0	2	0	1	0	1	2	4	0	3	3	3	2	3	3	3	1	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:217297484A>G	uc002vgc.3	+	8	1708	c.1378A>G	c.(1378-1380)ATG>GTG	p.M460V	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.M460V|SMARCAL1_uc010fvg.2_Missense_Mutation_p.M460V	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	460	Helicase ATP-binding.|ATP (By similarity).				chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		CGCTGACGACATGGGCCTGGG	0.602									Schimke_Immuno-Osseous_Dysplasia				8	41					0	0	0.00308	0	0		G	217297484	G	G	217297484	3	3	112	1	0	0	0	0	1	0	0	0	14798	217	8	3	1400	3	SMARCAL1	2	217297484	Missense_Mutation	SNP	A	TCGA-CD-8524-01A-11D-2340-08	5045819	217297484	25901889	27	65379											
PTPRN	5798	broad.mit.edu	37	chr2	220162661	220162661	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaggccccagggctgccagGcgctccttgtcttgctgccg	3	9	13	16	2	2	0	1	0	1	0	3	0	3	0	5	3	3	3	5	3	0	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:220162661G>A	uc002vkz.2	-	13	1922	c.1833C>T	c.(1831-1833)CGC>CGT	p.R611R	PTPRN_uc010zlc.1_Silent_p.R521R|PTPRN_uc002vla.2_Silent_p.R582R	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	611	Cytoplasmic (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		GGGCTGCCAGGCGCTCCTTGT	0.642													11	13					0	0	0.013537	0	0		A	220162661	A	A	220162661	2	1	112	1	0	0	0	0	0	0	0	1	12832	1190	42	2		2	PTPRN	2	220162661	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	2865177	220162661	23036712	28	65380											
ARMC9	80210	broad.mit.edu	37	chr2	232141438	232141438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactgcctgtctgactacaCgctggagtactcggtggctt	6	12	12	11	2	1	2	0	2	1	0	2	3	1	3	1	3	3	3	1	3	2	3	rs116712981	byFrequency	TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:232141438C>T	uc002vrq.3	+	15	1536	c.1424C>T	c.(1423-1425)ACG>ATG	p.T475M	ARMC9_uc002vrp.3_Missense_Mutation_p.T475M|ARMC9_uc002vrr.1_RNA	NM_025139	NP_079415	Q7Z3E5	ARMC9_HUMAN	armadillo repeat containing 9	475							binding			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0744)|all_hematologic(139;0.0749)|Acute lymphoblastic leukemia(138;0.167)|Medulloblastoma(418;0.184)|Lung NSC(271;0.205)		Epithelial(121;1.43e-10)|LUSC - Lung squamous cell carcinoma(224;0.017)|Lung(119;0.0189)		TCTGACTACACGCTGGAGTAC	0.562													9	58					0	0	0.010729	0	0		T	232141438	T	T	232141438	3	4	112	1	0	0	0	0	1	0	0	0	959	536	19	1	1478	1	ARMC9	2	232141438	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	11978777	232141438	11057935	29	65381											
UGT1A10	54575	broad.mit.edu	37	chr2	234545590	234545590	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatacttaaaggagagttCttttgatgcagtgtttctgg	11	15	11	4	0	2	3	0	1	2	2	2	4	2	3	0	2	2	3	0	2	4	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:234545590C>A	uc002vur.2	+	1	468	c.422C>A	c.(421-423)TCT>TAT	p.S141Y	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Missense_Mutation_p.S141Y	NM_019075	NP_061948	Q9HAW8	UD110_HUMAN	UDP glycosyltransferase 1 family, polypeptide	141					flavone metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding			ovary(2)|skin(1)	3		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;1.96e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000468)|Lung(119;0.00381)|LUSC - Lung squamous cell carcinoma(224;0.008)		AAGGAGAGTTCTTTTGATGCA	0.373													44	72					1.61572e-30	1.91117e-30	0.010771	1	0		A	234545590	A	A	234545590	3	1	112	1	0	0	0	0	1	0	0	0	16971	913	32	5	424	5	UGT1A10	2	234545590	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	2404152	234545590	8653783	30	65382											
KLHL30	377007	broad.mit.edu	37	chr2	239049766	239049766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgcagaaggtctgcggccGctacctgcagcagcaactgg	8	6	15	12	2	1	1	0	0	1	1	1	1	1	1	2	4	7	5	2	4	3	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr2:239049766G>A	uc002vxr.1	+	1	350	c.317G>A	c.(316-318)CGC>CAC	p.R106H		NM_198582	NP_940984	Q0D2K2	KLH30_HUMAN	kelch-like 30	124											0		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;4.71e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.02e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.63e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000109)|Lung(119;0.0108)|LUSC - Lung squamous cell carcinoma(224;0.0253)		GTCTGCGGCCGCTACCTGCAG	0.677													15	36					0	0	0.020292	0	0		A	239049766	A	A	239049766	3	1	112	1	0	0	0	0	1	0	0	0	8400	1087	38	1	373	1	KLHL30	2	239049766	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	4504176	239049766	4149607	31	65383											
SCN5A	6331	broad.mit.edu	37	chr3	38651357	38651357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccatgaagagctgcaggcCgatgagggcaaagacgctga	12	4	15	10	2	0	5	0	3	0	2	0	6	0	5	2	2	2	4	2	2	2	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr3:38651357C>T	uc003cio.2	-	7	996	c.802G>A	c.(802-804)GGC>AGC	p.G268S	SCN5A_uc003cin.2_Missense_Mutation_p.G268S|SCN5A_uc003cil.3_Missense_Mutation_p.G268S|SCN5A_uc010hhi.2_Missense_Mutation_p.G268S|SCN5A_uc010hhk.2_Missense_Mutation_p.G268S|SCN5A_uc011ayr.1_Missense_Mutation_p.G268S|SCN5A_uc010hhl.1_Missense_Mutation_p.G91S	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	268	Helical; Name=S5 of repeat I; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	AGCTGCAGGCCGATGAGGGCA	0.602													6	34					0	0	0.001168	0	0		T	38651357	T	T	38651357	3	4	112	1	0	0	0	0	1	0	0	0	13947	652	23	1	5336	1	SCN5A	3	38651357	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08		38651357	159371073	32	65384											
GRM2	2912	broad.mit.edu	37	chr3	51749144	51749144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttggtgatggtattggccGctacaacatcttcacctatc	8	14	8	11	1	2	1	1	1	1	0	3	1	2	1	2	3	2	2	2	3	4	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr3:51749144G>A	uc010hlv.2	+	4	1594	c.1355G>A	c.(1354-1356)CGC>CAC	p.R452H	GRM2_uc003dbo.3_5'UTR|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	452	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	GGTATTGGCCGCTACAACATC	0.577													7	40					0	0	0.006214	0	0		A	51749144	A	A	51749144	3	1	112	1	0	0	0	0	1	0	0	0	6813	1087	38	1	1365	1	GRM2	3	51749144	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	13097787	51749144	146273286	33	65385											
SFMBT1	51460	broad.mit.edu	37	chr3	52946639	52946639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacggctgggtttgtaggCtgcattgataagtaaagtga	11	11	14	5	1	0	2	0	2	0	0	0	3	0	2	0	3	1	6	0	3	4	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr3:52946639C>T	uc003dgf.2	-	17	2214	c.1645G>A	c.(1645-1647)GCC>ACC	p.A549T	SFMBT1_uc010hmr.2_Missense_Mutation_p.A496T|SFMBT1_uc003dgg.2_Missense_Mutation_p.A549T|SFMBT1_uc003dgh.2_Missense_Mutation_p.A549T	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	549					regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		GGTTTGTAGGCTGCATTGATA	0.478													9	29					0	0	0.004482	0	0		T	52946639	T	T	52946639	3	4	112	1	0	0	0	0	1	0	0	0	14182	797	28	2	979	2	SFMBT1	3	52946639	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	1197495	52946639	145075791	34	65386											
SENP7	57337	broad.mit.edu	37	chr3	101062557	101062557	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgatttcagcttcatttcTtcagcaacagcaacaccagc	12	11	5	13	0	4	1	3	1	1	0	4	1	4	1	1	0	6	3	1	0	2	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr3:101062557T>G	uc003dut.2	-	14	2190	c.2079A>C	c.(2077-2079)GAA>GAC	p.E693D	SENP7_uc003duu.2_Missense_Mutation_p.E628D|SENP7_uc003duv.2_Missense_Mutation_p.E660D|SENP7_uc003duw.2_Missense_Mutation_p.E627D|SENP7_uc003dux.2_Missense_Mutation_p.E529D	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	693					proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						GCTTCATTTCTTCAGCAACAG	0.353													12	61					0	0	0.016723	0	0		G	101062557	G	G	101062557	3	3	112	1	0	0	0	0	1	0	0	0	14076	1606	56	5	1117	5	SENP7	3	101062557	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	48115918	101062557	96959873	35	65387											
SEC61A1	29927	broad.mit.edu	37	chr3	127785877	127785877	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcaagctcttctatacGtccaacatccccatcatcct	10	11	2	18	1	4	0	2	0	2	0	7	0	7	0	5	0	3	1	5	0	4	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr3:127785877G>A	uc003ekb.2	+	9	1042	c.858G>A	c.(856-858)ACG>ACA	p.T286T	RUVBL1_uc003eke.2_Intron|RUVBL1_uc003ekf.2_Intron|SEC61A1_uc003ekc.2_Silent_p.T233T|SEC61A1_uc003ekd.2_Silent_p.T166T|SEC61A1_uc003ekg.2_5'UTR	NM_013336	NP_037468	P61619	S61A1_HUMAN	Sec61 alpha 1 subunit	286	Cytoplasmic (Potential).				protein targeting to ER	integral to endoplasmic reticulum membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity|protein binding|ribosome binding			ovary(1)	1						TCTTCTATACGTCCAACATCC	0.547													13	71					0	0	0.013537	0	0		A	127785877	A	A	127785877	2	1	112	1	0	0	0	0	0	0	0	1	14025	1132	40	1		1	SEC61A1	3	127785877	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	26723320	127785877	70236553	36	65388											
SEC61A1	29927	broad.mit.edu	37	chr3	127785925	127785925	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctggtgtccaacctttaTgtcatctcccaaatgctctc	7	13	6	15	0	3	0	1	0	2	0	6	0	4	0	4	1	2	1	4	1	3	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr3:127785925T>C	uc003ekb.2	+	9	1090	c.906T>C	c.(904-906)TAT>TAC	p.Y302Y	RUVBL1_uc003eke.2_Intron|RUVBL1_uc003ekf.2_Intron|SEC61A1_uc003ekc.2_Silent_p.Y249Y|SEC61A1_uc003ekd.2_Silent_p.Y182Y|SEC61A1_uc003ekg.2_5'UTR	NM_013336	NP_037468	P61619	S61A1_HUMAN	Sec61 alpha 1 subunit	302	Helical; (Potential).				protein targeting to ER	integral to endoplasmic reticulum membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity|protein binding|ribosome binding			ovary(1)	1						CCAACCTTTATGTCATCTCCC	0.542													6	92					0	0	0.001168	0	0		C	127785925	C	C	127785925	2	2	112	1	0	0	0	0	0	0	0	1	14025	1471	51	3		3	SEC61A1	3	127785925	Silent	SNP	T	TCGA-CD-8524-01A-11D-2340-08	48	127785925	70236505	37	65389											
MRPS22	56945	broad.mit.edu	37	chr3	139067023	139067023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctacaagacaggcagttgagGcagctaaagtacgattaaaa	17	7	10	7	1	0	2	0	1	0	1	0	3	0	2	0	2	3	5	0	2	7	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr3:139067023G>A	uc003etb.2	+	3	369	c.361G>A	c.(361-363)GCA>ACA	p.A121T	MRPS22_uc003etc.2_RNA|MRPS22_uc003etd.2_Missense_Mutation_p.A120T|MRPS22_uc003ete.2_Missense_Mutation_p.A80T	NM_020191	NP_064576	P82650	RT22_HUMAN	mitochondrial ribosomal protein S22	121						mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(2)|skin(1)	3						GGCAGTTGAGGCAGCTAAAGT	0.358													6	41					0	0	0.001168	0	0		A	139067023	A	A	139067023	3	1	112	1	0	0	0	0	1	0	0	0	9851	1203	42	2	371	2	MRPS22	3	139067023	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	11281098	139067023	58955407	38	65390											
ZNF595	152687	broad.mit.edu	37	chr4	60009	60009	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcaaataaaagagccctgCaatttgaagatacatgagac	18	7	9	7	0	0	4	0	2	0	3	0	6	0	4	1	0	4	2	1	0	6	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:60009C>A	uc003fzv.1	+	3	345	c.189C>A	c.(187-189)TGC>TGA	p.C63*	ZNF595_uc003fzu.1_RNA|ZNF718_uc003fzt.3_Nonsense_Mutation_p.Y63*|ZNF595_uc010iay.1_RNA|ZNF595_uc011bus.1_Intron|ZNF595_uc011but.1_Intron	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	63					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		AAGAGCCCTGCAATTTGAAGA	0.458													8	97					0.000157383	0.00016793	0.00308	1	0		A	60009	A	A	60009	4	1	112	1	0	0	0	0	0	1	0	0	18050	718	25	5	199	5	ZNF595	4	60009	Nonsense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08		60009	191094267	39	65391											
PDE6B	5158	broad.mit.edu	37	chr4	619713	619713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcttcatgtaccgccagCgcaacggcgtggccgagctg	6	7	13	15	5	2	0	1	0	1	0	2	1	2	0	4	2	4	3	4	2	2	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:619713C>T	uc003gap.2	+	1	351	c.298C>T	c.(298-300)CGC>TGC	p.R100C	PDE6B_uc003gao.3_Missense_Mutation_p.R100C	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	100	GAF 1.				cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						GTACCGCCAGCGCAACGGCGT	0.672													5	7					0	0	0.001984	0	0		T	619713	T	T	619713	3	4	112	1	0	0	0	0	1	0	0	0	11665	768	27	1	300	1	PDE6B	4	619713	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	559704	619713	190534563	40	65392											
CPLX1	10815	broad.mit.edu	37	chr4	780405	780405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggcgggatggccttcttggGccgcgtcaagctcccctcgg	3	8	15	15	5	2	0	1	0	1	0	4	1	3	1	4	5	1	1	4	5	1	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:780405G>A	uc003gbi.2	-	4	480	c.289C>T	c.(289-291)CCC>TCC	p.P97S	CPLX1_uc003gbj.2_Missense_Mutation_p.P76S	NM_006651	NP_006642	O14810	CPLX1_HUMAN	complexin 1	97					glutamate secretion	cytosol					0				Colorectal(103;0.187)		GCCTTCTTGGGCCGCGTCAAG	0.697													3	15					0	0	0.004672	0	0		A	780405	A	A	780405	3	1	112	1	0	0	0	0	1	0	0	0	3807	1203	42	2	119	2	CPLX1	4	780405	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	160692	780405	190373871	41	65393											
TLR1	7096	broad.mit.edu	37	chr4	38799339	38799339	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataagtgtctccaactcagTaaggtgcccacaattttcaa	14	11	6	10	0	3	0	2	0	1	0	4	0	3	0	2	1	2	1	2	1	6	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:38799339T>C	uc003gtl.2	-	4	1388	c.1114A>G	c.(1114-1116)ACT>GCT	p.T372A		NM_003263	NP_003254	Q15399	TLR1_HUMAN	toll-like receptor 1 precursor	372	Extracellular (Potential).|LRR 6.				cellular response to triacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|inflammatory response|innate immune response|macrophage activation|positive regulation of interleukin-6 biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	integral to plasma membrane|phagocytic vesicle membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	protein heterodimerization activity|transmembrane receptor activity			lung(2)|skin(2)|prostate(1)	5						TCCAACTCAGTAAGGTGCCCA	0.363													5	46					0	0	0.001168	0	0		C	38799339	C	C	38799339	3	2	112	1	0	0	0	0	1	0	0	0	15974	1638	57	3	1250	3	TLR1	4	38799339	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	38018934	38799339	152354937	42	65394											
POLR2B	5431	broad.mit.edu	37	chr4	57873014	57873014	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcttaaagaagtgcggaTctatgcacagaaatttattg	13	14	9	5	1	1	2	0	0	1	2	1	3	1	3	0	1	3	2	0	1	6	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:57873014T>A	uc003hcl.1	+	10	1293	c.1250T>A	c.(1249-1251)ATC>AAC	p.I417N	POLR2B_uc011cae.1_Missense_Mutation_p.I410N|POLR2B_uc011caf.1_Missense_Mutation_p.I342N|POLR2B_uc003hcm.1_5'Flank	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	417					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					GAAGTGCGGATCTATGCACAG	0.333													10	46					0	0	0.008291	0	0		A	57873014	A	A	57873014	3	1	112	1	0	0	0	0	1	0	0	0	12234	1435	50	5	1288	5	POLR2B	4	57873014	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	19073675	57873014	133281262	43	65395											
FAM13A	10144	broad.mit.edu	37	chr4	89912232	89912232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaaggtacttgaggaggCagtagtgggtgtctggcagc	9	8	18	6	0	1	1	0	1	1	0	1	2	1	2	0	6	2	5	0	6	3	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:89912232C>T	uc003hse.1	-	4	705	c.497G>A	c.(496-498)TGC>TAC	p.C166Y	FAM13A_uc003hsf.1_Intron|FAM13A_uc003hsh.1_5'UTR|FAM13A_uc003hsi.2_Missense_Mutation_p.C166Y|FAM13A_uc003hsj.2_Missense_Mutation_p.C166Y	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	166	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						CTTGAGGAGGCAGTAGTGGGT	0.408													7	39					0	0	0.001984	0	0		T	89912232	T	T	89912232	3	4	112	1	0	0	0	0	1	0	0	0	5463	710	25	2	2691	2	FAM13A	4	89912232	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	32039218	89912232	101242044	44	65396											
COL25A1	84570	broad.mit.edu	37	chr4	109841761	109841761	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggaggccctagaggaccCtaaaaaagaaaaacgattca	17	4	9	11	2	1	2	1	0	0	2	1	5	1	4	3	3	1	0	3	3	6	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:109841761C>T	uc003hze.1	-	11	1240	c.709_splice	c.e11-1	p.G237_splice	COL25A1_uc003hzg.2_Splice_Site_p.G237_splice|COL25A1_uc003hzd.2_Splice_Site|COL25A1_uc003hzf.2_Splice_Site_p.G18_splice	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1							collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		CTAGAGGACCCTAAAAAAGAA	0.368													7	23					0	0	0.001984	0	0		T	109841761	T	T	109841761	5	4	112	1	0	0	0	0	0	0	1	0	3687	695	24	4	1448	4	COL25A1	4	109841761	Splice_Site	SNP	C	TCGA-CD-8524-01A-11D-2340-08	19929529	109841761	81312515	45	65397											
SEC24B	10427	broad.mit.edu	37	chr4	110437729	110437729	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgtttgttttagatgtgTctcataatgcagtggaagct	9	17	10	5	0	1	1	1	0	1	1	2	2	1	2	0	1	2	4	0	1	3	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:110437729T>A	uc003hzk.2	+	11	2114	c.2059T>A	c.(2059-2061)TCT>ACT	p.S687T	SEC24B_uc003hzl.2_Missense_Mutation_p.S652T|SEC24B_uc011cfp.1_Missense_Mutation_p.S717T|SEC24B_uc011cfq.1_Missense_Mutation_p.S686T|SEC24B_uc011cfr.1_Missense_Mutation_p.S651T	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	687					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		TTTAGATGTGTCTCATAATGC	0.318													4	13					0	0	0.009096	0	0		A	110437729	A	A	110437729	3	1	112	1	0	0	0	0	1	0	0	0	14020	1667	58	5	2101	5	SEC24B	4	110437729	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	595968	110437729	80716547	46	65398											
C4orf31	79625	broad.mit.edu	37	chr4	121966864	121966864	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccatctggaattactgaCgaatcatgaaaaaatgcctt	14	11	7	9	1	2	2	1	2	1	0	3	4	3	3	2	1	2	1	2	1	6	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:121966864C>T	uc003idq.1	-	2	656	c.129G>A	c.(127-129)TCG>TCA	p.S43S		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	43											0						GAATTACTGACGAATCATGAA	0.428													9	54					0	0	0.006214	0	0		T	121966864	T	T	121966864	2	4	112	1	0	0	0	0	0	0	0	1	2264	523	19	1		1	C4orf31	4	121966864	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08	11529135	121966864	69187412	47	65399											
TRPC3	7222	broad.mit.edu	37	chr4	122853759	122853759	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcgtaagcgtagaagtcGtcgtcctgcagctcctgctc	6	11	11	13	5	0	1	0	0	0	1	7	1	2	1	2	0	4	5	2	0	3	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:122853759G>A	uc003ieg.2	-	2	728	c.654C>T	c.(652-654)GAC>GAT	p.D218D	TRPC3_uc010inr.2_Silent_p.D145D|TRPC3_uc003ief.2_Silent_p.D145D|TRPC3_uc011cgl.1_Translation_Start_Site	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	133	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						CGTAGAAGTCGTCGTCCTGCA	0.627													6	27					0	0	0.001168	0	0		A	122853759	A	A	122853759	2	1	112	1	0	0	0	0	0	0	0	1	16605	1136	40	1		1	TRPC3	4	122853759	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	886895	122853759	68300517	48	65400											
PCDH10	57575	broad.mit.edu	37	chr4	134072543	134072543	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaattactacaccatcgtTaccgaagcccccctggaccg	12	7	7	15	3	0	1	0	0	0	1	1	3	0	2	6	1	4	1	6	1	6	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:134072543T>A	uc003iha.2	+	1	2074	c.1248T>A	c.(1246-1248)GTT>GTA	p.V416V	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.V416V	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	416	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		ACACCATCGTTACCGAAGCCC	0.607													24	142					0	0	0.00632	0	0		A	134072543	A	A	134072543	2	1	112	1	0	0	0	0	0	0	0	1	11526	1741	61	5		5	PCDH10	4	134072543	Silent	SNP	T	TCGA-CD-8524-01A-11D-2340-08	11218784	134072543	57081733	49	65401											
PCDH10	57575	broad.mit.edu	37	chr4	134073243	134073243	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagtcccggccaagcgcgacCcccagcggccttatgagctg	7	5	13	16	4	0	1	0	1	0	0	1	3	1	1	5	2	3	1	5	2	2	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:134073243C>A	uc003iha.2	+	1	2774	c.1948C>A	c.(1948-1950)CCC>ACC	p.P650T	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.P650T	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	650	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CAAGCGCGACCCCCAGCGGCC	0.662													6	32					3.59834e-05	3.92029e-05	0.001168	1	0		A	134073243	A	A	134073243	3	1	112	1	0	0	0	0	1	0	0	0	11526	623	22	5	1950	5	PCDH10	4	134073243	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	700	134073243	57081033	50	65402											
CTSO	1519	broad.mit.edu	37	chr4	156849542	156849542	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accatctactccccaagaacTtccccaggaattccgcacaa	13	7	4	17	1	1	1	0	0	1	1	4	2	4	2	6	1	2	1	6	1	5	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:156849542T>C	uc003ipg.2	-	7	926	c.877A>G	c.(877-879)AGT>GGT	p.S293G		NM_001334	NP_001325	P43234	CATO_HUMAN	cathepsin O preproprotein	293					proteolysis	lysosome	cysteine-type endopeptidase activity				0	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.05)|Kidney(143;0.0627)|COAD - Colon adenocarcinoma(41;0.148)		CCCCAAGAACTTCCCCAGGAA	0.348													7	45					0	0	0.001984	0	0		C	156849542	C	C	156849542	3	2	112	1	0	0	0	0	1	0	0	0	4043	1609	56	3	96	3	CTSO	4	156849542	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	22776299	156849542	34304734	51	65403											
NEIL3	55247	broad.mit.edu	37	chr4	178231192	178231192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggcggtgaccggcgtgcggGgaagcgctctgcggagtctg	5	6	20	10	6	2	1	0	1	2	0	2	3	2	3	1	6	3	1	1	6	1	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:178231192G>A	uc003iut.2	+	1	202	c.85G>A	c.(85-87)GGA>AGA	p.G29R	NEIL3_uc010irs.2_5'UTR	NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	29					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		CGGCGTGCGGGGAAGCGCTCT	0.672								BER_DNA_glycosylases					5	7					0	0	0.001168	0	0		A	178231192	A	A	178231192	3	1	112	1	0	0	0	0	1	0	0	0	10339	1233	43	4	87	4	NEIL3	4	178231192	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	21381650	178231192	12923084	52	65404											
CLDN22	53842	broad.mit.edu	37	chr4	184240855	184240855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctagcagaagagaaagtcCagcaaaccagcccagaaaca	18	3	8	12	0	0	3	0	0	0	3	2	4	2	3	4	0	5	2	4	0	5	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr4:184240855C>T	uc010isa.1	-	1	1073	c.517G>A	c.(517-519)GGA>AGA	p.G173R	WWC2_uc010irx.2_3'UTR|WWC2_uc003ivk.3_3'UTR|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_3'UTR|WWC2_uc003ivn.3_3'UTR|WWC2_uc010irz.2_3'UTR|WWC2_uc003ivo.3_3'UTR	NM_001111319	NP_001104789	Q8N7P3	CLD22_HUMAN	claudin 22	173	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0		all_lung(41;6.9e-12)|Lung NSC(41;1.28e-11)|Colorectal(36;0.0172)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|Esophageal squamous(56;0.176)		all cancers(43;4.1e-26)|Epithelial(43;6.45e-22)|OV - Ovarian serous cystadenocarcinoma(60;7.64e-10)|Colorectal(24;5.87e-06)|GBM - Glioblastoma multiforme(59;6.5e-06)|STAD - Stomach adenocarcinoma(60;2.09e-05)|COAD - Colon adenocarcinoma(29;5.15e-05)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		AGAGAAAGTCCAGCAAACCAG	0.587													12	63					0	0	0.013537	0	0		T	184240855	T	T	184240855	3	4	112	1	0	0	0	0	1	0	0	0	3486	603	21	4	149	4	CLDN22	4	184240855	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	6009663	184240855	6913421	53	65405											
THBS4	7060	broad.mit.edu	37	chr5	79355588	79355588	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccggctccccctgcaccgCcaacacgcccacctcgtcgg	5	4	8	24	5	0	0	0	0	0	0	3	0	1	0	8	2	2	2	8	2	1	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr5:79355588C>A	uc003kgh.2	+	8	1170	c.847C>A	c.(847-849)CCA>ACA	p.P283T		NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	283					endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		CCCTGCACCGCCAACACGCCC	0.607													37	83					8.73648e-17	1.02172e-16	0.019004	1	0		A	79355588	A	A	79355588	3	1	112	1	0	0	0	0	1	0	0	0	15881	739	26	5	873	5	THBS4	5	79355588	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08		79355588	101559672	54	65406											
KCNN2	3781	broad.mit.edu	37	chr5	113699632	113699632	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tattccttagctctgaaatgCcttatcagtctctccacgat	9	15	5	12	1	3	1	1	1	2	0	6	2	5	1	3	0	2	1	3	0	4	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr5:113699632C>A	uc003kqo.2	+	2	973	c.516C>A	c.(514-516)TGC>TGA	p.C172*		NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	172	Helical; Name=Segment S2; (Potential).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		CTCTGAAATGCCTTATCAGTC	0.483													13	33					0.00316338	0.00324168	0.003163	1	0		A	113699632	A	A	113699632	4	1	112	1	0	0	0	0	0	1	0	0	8095	747	26	5	522	5	KCNN2	5	113699632	Nonsense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	34344044	113699632	67215628	55	65407											
MEGF10	84466	broad.mit.edu	37	chr5	126754837	126754837	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactgctctaccccatgccCtctgggaacctatgggataa	9	10	9	13	0	2	1	0	1	2	0	2	3	2	3	4	2	4	1	4	2	4	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr5:126754837C>G	uc003kuh.3	+	12	1693	c.1331C>G	c.(1330-1332)CCT>CGT	p.P444R	MEGF10_uc010jdc.1_Missense_Mutation_p.P444R|MEGF10_uc010jdd.1_Missense_Mutation_p.P444R|MEGF10_uc003kui.3_Missense_Mutation_p.P444R	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	444	Extracellular (Potential).|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		ACCCCATGCCCTCTGGGAACC	0.448													8	93					0	0	0.00308	0	0		G	126754837	G	G	126754837	3	3	112	1	0	0	0	0	1	0	0	0	9478	681	24	5	1369	5	MEGF10	5	126754837	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	13055205	126754837	54160423	56	65408											
TGFBI	7045	broad.mit.edu	37	chr5	135391437	135391437	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtacgggaccctgttcacGatggaccgggtgctgacccc	7	7	14	13	3	1	1	1	1	0	0	1	4	1	3	4	4	2	3	4	4	1	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr5:135391437G>A	uc003lbf.3	+	11	1640	c.1479G>A	c.(1477-1479)ACG>ACA	p.T493T	TGFBI_uc003lbg.3_Silent_p.T226T|TGFBI_uc003lbh.3_Silent_p.T319T|TGFBI_uc011cyb.1_Silent_p.T319T|TGFBI_uc010jed.2_Silent_p.T226T	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	493	FAS1 3.				angiogenesis|cell adhesion|cell proliferation|negative regulation of cell adhesion|response to stimulus|visual perception	extracellular space|proteinaceous extracellular matrix	integrin binding			breast(3)|ovary(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CCCTGTTCACGATGGACCGGG	0.572													5	12					0	0	0.014758	0	0		A	135391437	A	A	135391437	2	1	112	1	0	0	0	0	0	0	0	1	15845	1045	37	1		1	TGFBI	5	135391437	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	8636600	135391437	45523823	57	65409											
PCDHA12	56137	broad.mit.edu	37	chr5	140256590	140256590	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagctacgtgtcggtgcaCgcggagagcggcaaggtgta	8	7	17	9	6	0	1	0	0	0	1	2	3	0	1	0	4	4	4	0	4	3	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr5:140256590C>T	uc003lic.2	+	1	1660	c.1533C>T	c.(1531-1533)CAC>CAT	p.H511H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.H511H	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	511	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCGGTGCACGCGGAGAGCG	0.706													13	72					0	0	0.020292	0	0		T	140256590	T	T	140256590	2	4	112	1	0	0	0	0	0	0	0	1	11541	535	19	1		1	PCDHA12	5	140256590	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08	4865153	140256590	40658670	58	65410											
PCDHAC1	56135	broad.mit.edu	37	chr5	140308104	140308104	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcaacagtgactataaacTtgtttgtggtagataggaat	13	13	11	4	0	0	2	0	1	0	1	0	3	0	3	0	2	3	3	0	2	7	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr5:140308104T>G	uc003lih.2	+	1	1803	c.1627T>G	c.(1627-1629)TTG>GTG	p.L543V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.L543V	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	543	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACTATAAACTTGTTTGTGGT	0.478													30	65					0	0	0.008361	0	0		G	140308104	G	G	140308104	3	3	112	1	0	0	0	0	1	0	0	0	11551	1606	56	5	1629	5	PCDHAC1	5	140308104	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	51514	140308104	40607156	59	65411											
PCDHB2	56133	broad.mit.edu	37	chr5	140475135	140475135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctatgaggtgcagatccCggaggacagccccgttggat	8	8	14	11	2	1	2	0	1	1	1	2	5	2	5	3	4	2	3	3	4	1	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr5:140475135C>T	uc003lil.2	+	1	899	c.761C>T	c.(760-762)CCG>CTG	p.P254L	PCDHB2_uc003lim.1_5'UTR	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	254	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTGCAGATCCCGGAGGACAGC	0.517													19	24					0	0	0.007413	0	0		T	140475135	T	T	140475135	3	4	112	1	0	0	0	0	1	0	0	0	11561	652	23	1	763	1	PCDHB2	5	140475135	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	167031	140475135	40440125	60	65412											
POU4F3	5459	broad.mit.edu	37	chr5	145719186	145719186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggcggcggtggatatcGtctcccacggcaagaaccat	8	8	12	13	4	2	1	0	0	2	1	4	2	2	2	2	5	1	1	2	5	3	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr5:145719186G>A	uc003loa.2	+	2	285	c.196G>A	c.(196-198)GTC>ATC	p.V66I		NM_002700	NP_002691	Q15319	PO4F3_HUMAN	POU class 4 homeobox 3	66					sensory perception of sound|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGTGGATATCGTCTCCCACGG	0.602													21	50					0	0	0.010504	0	0		A	145719186	A	A	145719186	3	1	112	1	0	0	0	0	1	0	0	0	12299	1145	40	1	202	1	POU4F3	5	145719186	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	5244051	145719186	35196074	61	65413											
HIST1H4H	8365	broad.mit.edu	37	chr6	26285677	26285677	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaaaaccttgcgatgacgCttagctcctcccttacccaa	10	9	6	16	3	0	1	0	1	0	0	2	2	2	1	4	0	4	3	4	0	5	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr6:26285677C>A	uc003nhm.2	-	1	51	c.51G>T	c.(49-51)AAG>AAT	p.K17N	HIST1H4H_uc003nhl.1_RNA	NM_003543	NP_003534	P62805	H4_HUMAN	histone cluster 1, H4h	17					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						TGCGATGACGCTTAGCTCCTC	0.507										HNSCC(76;0.23)			9	48					0.00136819	0.00141608	0.013537	1	0		A	26285677	A	A	26285677	3	1	112	1	0	0	0	0	1	0	0	0	7188	796	28	5	264	5	HIST1H4H	6	26285677	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08		26285677	144829390	62	65414											
OR2W1	26692	broad.mit.edu	37	chr6	29012625	29012625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccaggagaaggcactcaaCtgagcccaaccacatgtaaa	16	4	9	12	0	1	2	1	1	0	1	1	3	1	2	3	2	4	2	3	2	5	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr6:29012625C>T	uc003nlw.2	-	1	328	c.328G>A	c.(328-330)GTT>ATT	p.V110I		NM_030903	NP_112165	Q9Y3N9	OR2W1_HUMAN	olfactory receptor, family 2, subfamily W,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						AGGCACTCAACTGAGCCCAAC	0.433													5	45					0	0	0.014758	0	0		T	29012625	T	T	29012625	3	4	112	1	0	0	0	0	1	0	0	0	11051	565	20	4	638	4	OR2W1	6	29012625	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	2726948	29012625	142102442	63	65415											
C6orf153	88745	broad.mit.edu	37	chr6	42995125	42995125	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaaatggcacagcaggaaCgaaagcaacagcaggagctg	18	2	13	8	1	0	1	0	0	0	1	0	4	0	3	0	3	6	5	0	3	5	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr6:42995125C>T	uc003otp.1	+	6	561	c.553C>T	c.(553-555)CGA>TGA	p.R185*		NM_033112	NP_149103	Q96EU6	RRP36_HUMAN	hypothetical protein LOC88745	185	Potential.				ribosomal small subunit biogenesis|rRNA processing	nucleolus					0			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			ACAGCAGGAACGAAAGCAACA	0.532													9	56					0	0	0.004482	0	0		T	42995125	T	T	42995125	4	4	112	1	0	0	0	0	0	1	0	0	2341	528	19	1	575	1	C6orf153	6	42995125	Nonsense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	13982500	42995125	128119942	64	65416											
RCAN2	10231	broad.mit.edu	37	chr6	46190976	46190976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcttcctctatgtcactgtCgcacacgtgcacgacgacac	8	11	7	15	4	3	0	1	0	2	0	5	2	4	0	1	0	1	2	1	0	1	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr6:46190976C>T	uc003oyb.1	-	4	811	c.496G>A	c.(496-498)GAC>AAC	p.D166N	RCAN2_uc003oyc.1_Missense_Mutation_p.D212N|RCAN2_uc003oyd.1_Missense_Mutation_p.D212N	NM_005822	NP_005813	Q14206	RCAN2_HUMAN	Down syndrome critical region gene 1-like 1	166					calcium-mediated signaling|central nervous system development		nucleotide binding|protein phosphatase 2B binding				0						ATGTCACTGTCGCACACGTGC	0.537													44	36					0	0	0.013114	0	0		T	46190976	T	T	46190976	3	4	112	1	0	0	0	0	1	0	0	0	13194	884	31	1	101	1	RCAN2	6	46190976	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	3195851	46190976	124924091	65	65417											
PKHD1	5314	broad.mit.edu	37	chr6	51913367	51913367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgctgtcgtctctgtgtcGtcaccaggaccagtccagat	6	11	10	14	3	2	1	1	0	1	1	7	2	4	2	4	1	0	1	4	1	0	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr6:51913367G>A	uc003pah.1	-	23	2606	c.2330C>T	c.(2329-2331)ACG>ATG	p.T777M	PKHD1_uc003pai.2_Missense_Mutation_p.T777M	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	777	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TCTCTGTGTCGTCACCAGGAC	0.527													7	50					0	0	0.001984	0	0		A	51913367	A	A	51913367	3	1	112	1	0	0	0	0	1	0	0	0	11990	1145	40	1	10113	1	PKHD1	6	51913367	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	5722391	51913367	119201700	66	65418											
TMEM30A	55754	broad.mit.edu	37	chr6	75968636	75968636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	taaaatcctcatttatgaatCcattattatctgggtcagaa	14	15	5	7	0	3	2	2	1	1	1	5	2	5	2	2	1	0	0	2	1	7	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr6:75968636C>T	uc003phw.2	-	6	1030	c.752G>A	c.(751-753)GGA>GAA	p.G251E	TMEM30A_uc003phx.2_Missense_Mutation_p.G215E	NM_018247	NP_060717	Q9NV96	CC50A_HUMAN	transmembrane protein 30A isoform 1	251						integral to membrane					0						ATTTATGAATCCATTATTATC	0.388													8	27					0	0	0.00308	0	0		T	75968636	T	T	75968636	3	4	112	1	0	0	0	0	1	0	0	0	16178	855	30	4	341	4	TMEM30A	6	75968636	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	24055269	75968636	95146431	67	65419											
ASCC3	10973	broad.mit.edu	37	chr6	101076966	101076966	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttgccagcttctgctgaCtccatcccacttctctggcg	5	14	7	15	1	2	1	0	1	2	0	5	1	4	1	3	1	3	2	3	1	0	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr6:101076966C>A	uc003pqk.2	-	27	4629	c.4300G>T	c.(4300-4302)GTC>TTC	p.V1434F		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1434	Helicase ATP-binding 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CTTCTGCTGACTCCATCCCAC	0.453													9	23					0.000442599	0.000469836	0.006214	1	0		A	101076966	A	A	101076966	3	1	112	1	0	0	0	0	1	0	0	0	1034	565	20	5	2372	5	ASCC3	6	101076966	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	25108330	101076966	70038101	68	65420											
FIG4	9896	broad.mit.edu	37	chr6	110048334	110048334	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtcaggttcttagaaggCtattatattgtgttaataac	11	18	8	4	0	2	1	1	0	1	1	2	1	2	1	0	2	1	3	0	2	7	9			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr6:110048334C>G	uc003ptt.2	+	4	527	c.312C>G	c.(310-312)GGC>GGG	p.G104G	FIG4_uc011eau.1_Intron	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	104					cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		TCTTAGAAGGCTATTATATTG	0.323													14	99					0	0	0.020292	0	0		G	110048334	G	G	110048334	2	3	112	1	0	0	0	0	0	0	0	1	5902	784	28	5		5	FIG4	6	110048334	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08	8971368	110048334	61066733	69	65421											
HIVEP2	3097	broad.mit.edu	37	chr6	143092978	143092978	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagttgctttcttggctgggGctgcgggagaggcctgtgcc	4	11	17	9	1	1	1	0	0	1	1	1	2	1	1	2	5	3	4	2	5	1	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr6:143092978G>C	uc003qjd.2	-	5	3641	c.2898C>G	c.(2896-2898)AGC>AGG	p.S966R		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	966	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CTTGGCTGGGGCTGCGGGAGA	0.512													27	43					0	0	0.00632	0	0		C	143092978	C	C	143092978	3	2	112	1	0	0	0	0	1	0	0	0	7203	1194	42	5	4466	5	HIVEP2	6	143092978	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	33044644	143092978	28022089	70	65422											
STX11	8676	broad.mit.edu	37	chr6	144508051	144508051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccaaggccatcaaggcccGgggcgaggtcatccactgca	9	4	13	15	3	2	0	2	0	0	0	3	1	3	0	4	5	1	1	4	5	2	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr6:144508051G>A	uc003qks.3	+	2	479	c.287G>A	c.(286-288)CGG>CAG	p.R96Q		NM_003764	NP_003755	O75558	STX11_HUMAN	syntaxin 11	96				RG -> PP (in Ref. 1; AAD02107).	cellular membrane fusion|intracellular protein transport|vesicle-mediated transport	Golgi apparatus|membrane	SNAP receptor activity			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(155;2.17e-06)|GBM - Glioblastoma multiforme(68;0.0492)		ATCAAGGCCCGGGGCGAGGTC	0.677									Familial_Hemophagocytic_Lymphohistiocytosis				7	28					0	0	0.001984	0	0		A	144508051	A	A	144508051	3	1	112	1	0	0	0	0	1	0	0	0	15362	1116	39	1	289	1	STX11	6	144508051	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	1415073	144508051	26607016	71	65423											
MAP3K4	4216	broad.mit.edu	37	chr6	161512447	161512447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcaacaggataagcaatGccattgaccgcgtggaccac	13	7	10	11	2	0	1	0	1	0	0	0	3	0	3	3	2	4	2	3	2	4	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr6:161512447G>A	uc003qtn.2	+	12	3152	c.3010G>A	c.(3010-3012)GCC>ACC	p.A1004T	MAP3K4_uc010kkc.1_Missense_Mutation_p.A1004T|MAP3K4_uc003qto.2_Missense_Mutation_p.A1004T|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.A457T|MAP3K4_uc003qtp.2_5'UTR	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	1004					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		GATAAGCAATGCCATTGACCG	0.398													52	88					0	0	0.01441	0	0		A	161512447	A	A	161512447	3	1	112	1	0	0	0	0	1	0	0	0	9270	1319	46	2	3056	2	MAP3K4	6	161512447	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	17004396	161512447	9602620	72	65424											
SDK1	221935	broad.mit.edu	37	chr7	4188957	4188957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgaccgcacgcagcctccGgctccagtgggtcccgggca	6	5	14	16	4	0	1	0	1	0	0	3	1	3	1	5	3	1	4	5	3	0	0	rs141114121		TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr7:4188957G>A	uc003smx.2	+	30	4626	c.4487G>A	c.(4486-4488)CGG>CAG	p.R1496Q	SDK1_uc010kso.2_Missense_Mutation_p.R772Q|SDK1_uc003smy.2_5'UTR	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1496	Fibronectin type-III 9.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CGCAGCCTCCGGCTCCAGTGG	0.672													6	6					0	0	0.001984	0	0		A	4188957	A	A	4188957	3	1	112	1	0	0	0	0	1	0	0	0	13993	1116	39	1	4605	1	SDK1	7	4188957	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08		4188957	154949706	73	65425											
SLC29A4	222962	broad.mit.edu	37	chr7	5327609	5327609	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggggcgtcccagctttcacGgatactagtaagtaggcgtg	9	9	14	9	3	1	0	1	0	0	0	2	1	2	1	1	4	2	3	1	4	4	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr7:5327609G>A	uc003sod.2	+	2	323	c.162G>A	c.(160-162)ACG>ACA	p.T54T	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Silent_p.T54T|SLC29A4_uc003soe.2_Silent_p.T54T	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	54	Extracellular (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		CAGCTTTCACGGATACTAGTA	0.647													7	12					0	0	0.001984	0	0		A	5327609	A	A	5327609	2	1	112	1	0	0	0	0	0	0	0	1	14562	1103	39	1		1	SLC29A4	7	5327609	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	1138652	5327609	153811054	74	65426											
CCDC129	223075	broad.mit.edu	37	chr7	31682400	31682400	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggactgtcagctagagtcGgatgggccagattccaaaag	12	7	13	9	1	1	2	1	0	0	2	3	4	2	4	2	3	1	1	2	3	3	2	rs146986060		TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr7:31682400G>A	uc003tcj.1	+	11	2409	c.1416G>A	c.(1414-1416)TCG>TCA	p.S472S	CCDC129_uc011kad.1_Silent_p.S482S|CCDC129_uc003tci.1_Silent_p.S323S|CCDC129_uc011kae.1_Silent_p.S498S|CCDC129_uc003tck.1_Silent_p.S380S	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	472											0						AGCTAGAGTCGGATGGGCCAG	0.502													22	40					0	0	0.014323	0	0		A	31682400	A	A	31682400	2	1	112	1	0	0	0	0	0	0	0	1	2767	1103	39	1		1	CCDC129	7	31682400	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	26354791	31682400	127456263	75	65427											
GRB10	2887	broad.mit.edu	37	chr7	50737431	50737431	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acactcacctgctttgcggcGgcctggctcggaggtaaaga	8	8	13	12	3	1	1	1	0	0	1	2	2	1	2	2	5	2	3	2	5	2	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr7:50737431G>A	uc003tpi.2	-	4	523	c.492C>T	c.(490-492)GCC>GCT	p.A164A	GRB10_uc003tph.3_Silent_p.A106A|GRB10_uc003tpj.2_Silent_p.A164A|GRB10_uc003tpk.2_Silent_p.A164A|GRB10_uc010kzb.2_Silent_p.A106A|GRB10_uc003tpl.2_Silent_p.A158A|GRB10_uc003tpm.2_Silent_p.A106A|GRB10_uc003tpn.2_Silent_p.A106A	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	164					insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					GCTTTGCGGCGGCCTGGCTCG	0.587									Russell-Silver_syndrome				4	16					0	0	0.009096	0	0		A	50737431	A	A	50737431	2	1	112	1	0	0	0	0	0	0	0	1	6772	1103	39	1		1	GRB10	7	50737431	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	19055031	50737431	108401232	76	65428											
FZD1	8321	broad.mit.edu	37	chr7	90895618	90895618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggacggcgatgtgctgagcGgagtgtgcttcgtggggctt	4	11	19	7	4	0	1	0	1	0	0	1	4	0	3	0	5	3	3	0	5	0	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr7:90895618G>A	uc003ula.2	+	1	1836	c.1423G>A	c.(1423-1425)GGA>AGA	p.G475R		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	475	Extracellular (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			TGTGCTGAGCGGAGTGTGCTT	0.622													23	112					0	0	0.021523	0	0		A	90895618	A	A	90895618	3	1	112	1	0	0	0	0	1	0	0	0	6142	1117	39	1	1425	1	FZD1	7	90895618	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	40158187	90895618	68243045	77	65429											
ABP1	26	broad.mit.edu	37	chr7	150557647	150557647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcagcagcagcatctacCaccagaacgacccctggcac	11	5	9	16	1	1	1	0	0	1	1	1	2	1	1	4	1	6	5	4	1	2	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr7:150557647C>T	uc003why.1	+	5	6133	c.1915C>T	c.(1915-1917)CAC>TAC	p.H639Y	ABP1_uc003whz.1_Missense_Mutation_p.H639Y|ABP1_uc003wia.1_Missense_Mutation_p.H658Y	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	639					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	CAGCATCTACCACCAGAACGA	0.617													16	34					0	0	0.003163	0	0		T	150557647	T	T	150557647	3	4	112	1	0	0	0	0	1	0	0	0	98	594	21	4	1925	4	ABP1	7	150557647	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	59662029	150557647	8581016	78	65430											
CSMD1	64478	broad.mit.edu	37	chr8	3855478	3855478	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaaatcatatccttcttcTagctgaaagtcagtgaagac	15	11	7	8	0	4	4	2	2	2	2	5	4	5	4	1	0	1	1	1	0	6	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr8:3855478T>C	uc011kwk.1	-	5	1155	c.765A>G	c.(763-765)CTA>CTG	p.L255L		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	255	Extracellular (Potential).|CUB 2.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ATCCTTCTTCTAGCTGAAAGT	0.522													3	11					0	0	0.004672	0	0		C	3855478	C	C	3855478	2	2	112	1	0	0	0	0	0	0	0	1	3947	1509	53	3		3	CSMD1	8	3855478	Silent	SNP	T	TCGA-CD-8524-01A-11D-2340-08		3855478	142508544	79	65431											
TUSC3	7991	broad.mit.edu	37	chr8	15480610	15480610	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttttagctgaaaaagtaGagcagctgatggaatggagt	14	11	12	4	0	1	3	0	2	1	1	1	5	1	5	0	2	3	4	0	2	5	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr8:15480610G>T	uc003wwt.2	+	2	370	c.160G>T	c.(160-162)GAG>TAG	p.E54*	TUSC3_uc003wwr.2_Nonsense_Mutation_p.E54*|TUSC3_uc003wws.2_Nonsense_Mutation_p.E54*|TUSC3_uc003wwu.2_Nonsense_Mutation_p.E54*|TUSC3_uc003wwv.2_Nonsense_Mutation_p.E54*|TUSC3_uc003www.2_Nonsense_Mutation_p.E54*|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Nonsense_Mutation_p.E54*	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	54					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		TGAAAAAGTAGAGCAGCTGAT	0.333													5	36					0.000602214	0.000632784	0.014758	1	0		T	15480610	T	T	15480610	4	4	112	1	0	0	0	0	0	1	0	0	16804	943	33	5	166	5	TUSC3	8	15480610	Nonsense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	11625132	15480610	130883412	80	65432											
ADRA1A	148	broad.mit.edu	37	chr8	26721669	26721669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccgaccacgatgcccagcGttttggccgctttcttctcc	5	11	9	16	4	2	0	0	0	2	0	3	2	2	0	5	1	3	2	5	1	0	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr8:26721669G>A	uc003xfh.1	-	1	1254	c.818C>T	c.(817-819)ACG>ATG	p.T273M	ADRA1A_uc003xfc.1_Missense_Mutation_p.T273M|ADRA1A_uc010lul.1_Missense_Mutation_p.T273M|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.T273M|ADRA1A_uc010lum.1_Missense_Mutation_p.T273M|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.T273M	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	273	Cytoplasmic (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	GATGCCCAGCGTTTTGGCCGC	0.582													6	31					0	0	0.001168	0	0		A	26721669	A	A	26721669	3	1	112	1	0	0	0	0	1	0	0	0	334	1145	40	1	881	1	ADRA1A	8	26721669	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	11241059	26721669	119642353	81	65433											
ZNF395	55893	broad.mit.edu	37	chr8	28206254	28206254	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctcagtccagaaagcgctgGcaggccttcttccaccggca	8	7	11	15	2	2	1	1	0	1	1	4	1	4	1	4	3	1	4	4	3	1	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr8:28206254G>A	uc003xgq.2	-	10	1612	c.1524C>T	c.(1522-1524)TGC>TGT	p.C508C	ZNF395_uc003xgt.2_Silent_p.C508C|ZNF395_uc003xgr.2_Silent_p.C508C|ZNF395_uc003xgs.2_Silent_p.C508C	NM_018660	NP_061130	Q9H8N7	ZN395_HUMAN	zinc finger protein 395	508					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.102)|Kidney(114;0.123)|Colorectal(74;0.142)		GAAAGCGCTGGCAGGCCTTCT	0.627													7	42					0	0	0.00308	0	0		A	28206254	A	A	28206254	2	1	112	1	0	0	0	0	0	0	0	1	17906	1195	42	2		2	ZNF395	8	28206254	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	1484585	28206254	118157768	82	65434											
UNC5D	137970	broad.mit.edu	37	chr8	35588560	35588560	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcataccacacggtgccaTcccagaggagaattcttggg	11	8	10	12	1	2	2	1	0	1	2	3	3	3	2	3	3	2	0	3	3	2	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr8:35588560T>A	uc003xjr.1	+	11	2040	c.1712T>A	c.(1711-1713)ATC>AAC	p.I571N	UNC5D_uc003xjs.1_Missense_Mutation_p.I566N|UNC5D_uc003xju.1_Missense_Mutation_p.I147N	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	571	ZU5.|Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CACGGTGCCATCCCAGAGGAG	0.378													5	25					0	0	0.001168	0	0		A	35588560	A	A	35588560	3	1	112	1	0	0	0	0	1	0	0	0	17021	1435	50	5	1754	5	UNC5D	8	35588560	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	7382306	35588560	110775462	83	65435											
ZMAT4	79698	broad.mit.edu	37	chr8	40554921	40554921	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgtcggcatcacttccCtgcgcagggagaaagaaagg	12	6	12	11	2	1	2	1	0	0	2	3	3	2	2	2	3	1	2	2	3	2	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr8:40554921C>T	uc003xnr.2	-	4	339	c.193_splice	c.e4-1	p.G65_splice	ZMAT4_uc003xns.2_Splice_Site_p.G65_splice	NM_024645	NP_078921	Q9H898	ZMAT4_HUMAN	zinc finger, matrin type 4 isoform a							nucleus	DNA binding|zinc ion binding			pancreas(1)|central_nervous_system(1)|skin(1)	3	Ovarian(28;0.00724)|Colorectal(14;0.0468)	all_cancers(7;0.00936)|all_epithelial(6;3.53e-06)|all_lung(54;0.0318)|Lung NSC(58;0.0919)|Esophageal squamous(32;0.15)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;0.00722)			CATCACTTCCCTGCGCAGGGA	0.453													9	21					0	0	0.004482	0	0		T	40554921	T	T	40554921	5	4	112	1	0	0	0	0	0	0	1	0	17719	695	24	4	513	4	ZMAT4	8	40554921	Splice_Site	SNP	C	TCGA-CD-8524-01A-11D-2340-08	4966361	40554921	105809101	84	65436											
SNTG1	54212	broad.mit.edu	37	chr8	51571221	51571221	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattatgtgcaagatcctcAaggtatgatcaatatgtagt	14	13	9	5	0	2	3	2	1	0	2	3	3	3	3	1	1	1	3	1	1	7	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr8:51571221A>T	uc010lxy.1	+	16	1407	c.1036A>T	c.(1036-1038)AAG>TAG	p.K346*	SNTG1_uc003xqs.1_Nonsense_Mutation_p.K346*|SNTG1_uc010lxz.1_Nonsense_Mutation_p.K346*|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	346	PH.				cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				CAAGATCCTCAAGGTATGATC	0.368													7	45					0	0	0.00308	0	0		T	51571221	T	T	51571221	4	4	112	1	0	0	0	0	0	1	0	0	14899	131	5	5	1086	5	SNTG1	8	51571221	Nonsense_Mutation	SNP	A	TCGA-CD-8524-01A-11D-2340-08	11016300	51571221	94792801	85	65437											
SDCBP	6386	broad.mit.edu	37	chr8	59484832	59484832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttaaatgaagaagaaataCgtgcaaatgtggccgtggtt	14	11	12	4	2	0	3	0	1	0	2	0	3	0	3	1	2	2	3	1	2	7	4	rs144425100	byFrequency	TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr8:59484832C>T	uc003xtn.2	+	4	349	c.199C>T	c.(199-201)CGT>TGT	p.R67C	SDCBP_uc003xto.2_Missense_Mutation_p.R67C|SDCBP_uc003xtr.2_Missense_Mutation_p.R67C|SDCBP_uc003xtp.2_Missense_Mutation_p.R61C|SDCBP_uc003xtq.2_Missense_Mutation_p.R67C|SDCBP_uc003xts.2_Missense_Mutation_p.R74C|SDCBP_uc011led.1_Missense_Mutation_p.R67C	NM_005625	NP_005616	O00560	SDCB1_HUMAN	syntenin isoform 1	67					actin cytoskeleton organization|axon guidance|positive regulation of phosphorylation|protein targeting to membrane|substrate-dependent cell migration, cell extension|synaptic transmission	cytoskeleton|cytosol|endoplasmic reticulum membrane|focal adhesion|interleukin-5 receptor complex|melanosome|nucleus	cytoskeletal adaptor activity|frizzled binding|interleukin-5 receptor binding|protein heterodimerization activity|protein N-terminus binding|syndecan binding				0		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				AGAAGAAATACGTGCAAATGT	0.338													15	101					0	0	0.003163	0	0		T	59484832	T	T	59484832	3	4	112	1	0	0	0	0	1	0	0	0	13980	536	19	1	209	1	SDCBP	8	59484832	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	7913611	59484832	86879190	86	65438											
TRIM55	84675	broad.mit.edu	37	chr8	67040664	67040664	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtatatggacttcagaggaaCctgctggtggaaaatatcat	13	11	11	6	0	2	1	2	0	0	1	2	4	2	4	1	4	2	2	1	4	6	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr8:67040664C>A	uc003xvv.2	+	2	520	c.294C>A	c.(292-294)AAC>AAA	p.N98K	TRIM55_uc003xvu.2_Missense_Mutation_p.N98K|TRIM55_uc003xvw.2_Missense_Mutation_p.N98K|TRIM55_uc003xvx.2_Missense_Mutation_p.N98K	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	98						cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			TTCAGAGGAACCTGCTGGTGG	0.488													13	79					0.00136819	0.00141608	0.013537	1	0		A	67040664	A	A	67040664	3	1	112	1	0	0	0	0	1	0	0	0	16555	506	18	5	300	5	TRIM55	8	67040664	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	7555832	67040664	79323358	87	65439											
C8orf34	116328	broad.mit.edu	37	chr8	69621266	69621266	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagaaaggacagaagagTcactaccaatactccattct	16	8	8	9	0	2	3	1	0	1	3	3	5	3	5	2	2	2	0	2	2	6	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr8:69621266T>C	uc010lyz.2	+	9	1070	c.1021T>C	c.(1021-1023)TCA>CCA	p.S341P	C8orf34_uc003xyb.2_Missense_Mutation_p.S316P	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	341					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			GACAGAAGAGTCACTACCAAT	0.333													4	26					0	0	0.014758	0	0		C	69621266	C	C	69621266	3	2	112	1	0	0	0	0	1	0	0	0	2425	1667	58	3	976	3	C8orf34	8	69621266	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	2580602	69621266	76742756	88	65440											
XKR9	389668	broad.mit.edu	37	chr8	71646321	71646321	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgtataagtatggaattcTtatataggattgttgttgga	11	18	10	2	0	1	0	0	0	1	0	1	3	1	3	0	3	0	4	0	3	7	11			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr8:71646321T>C	uc003xyq.2	+	5	1318	c.784T>C	c.(784-786)TTA>CTA	p.L262L	XKR9_uc010lze.2_Silent_p.L262L|XKR9_uc010lzd.2_Silent_p.L130L	NM_001011720	NP_001011720	Q5GH70	XKR9_HUMAN	XK, Kell blood group complex subunit-related	262	Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2	Breast(64;0.0716)		Epithelial(68;0.00301)|all cancers(69;0.0165)|OV - Ovarian serous cystadenocarcinoma(28;0.0524)|BRCA - Breast invasive adenocarcinoma(89;0.166)			TATGGAATTCTTATATAGGAT	0.284													8	38					0	0	0.00308	0	0		C	71646321	C	C	71646321	2	2	112	1	0	0	0	0	0	0	0	1	17464	1606	56	3		3	XKR9	8	71646321	Silent	SNP	T	TCGA-CD-8524-01A-11D-2340-08	2025055	71646321	74717701	89	65441											
ATAD2	29028	broad.mit.edu	37	chr8	124371477	124371477	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaccttgggggttgaatttTaaatttttcaaagacttctg	10	18	8	5	0	2	2	1	1	1	1	2	2	2	2	1	2	1	1	1	2	5	8			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr8:124371477T>C	uc003yqh.3	-	11	1474	c.1366A>G	c.(1366-1368)AAA>GAA	p.K456E	ATAD2_uc011lii.1_Missense_Mutation_p.K247E|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.K456E	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	456					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			GGTTGAATTTTAAATTTTTCA	0.323													15	84					0	0	0.004007	0	0		C	124371477	C	C	124371477	3	2	112	1	0	0	0	0	1	0	0	0	1072	1763	61	3	2878	3	ATAD2	8	124371477	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	52725156	124371477	21992545	90	65442											
BNC2	54796	broad.mit.edu	37	chr9	16435946	16435946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcatcaggactttttcaCtcacttcgctgtgaatgtgc	8	16	7	10	1	4	1	4	1	0	0	5	2	4	2	0	1	1	1	0	1	2	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr9:16435946C>T	uc003zml.2	-	6	2386	c.2246G>A	c.(2245-2247)AGT>AAT	p.S749N	BNC2_uc011lmw.1_Missense_Mutation_p.S654N|BNC2_uc003zmm.2_Missense_Mutation_p.S707N|BNC2_uc003zmq.1_Missense_Mutation_p.S763N|BNC2_uc003zmr.1_Missense_Mutation_p.S786N|BNC2_uc003zmp.1_Missense_Mutation_p.S777N|BNC2_uc010mij.1_Missense_Mutation_p.S671N|BNC2_uc011lmv.1_Missense_Mutation_p.S575N|BNC2_uc003zmo.1_Missense_Mutation_p.S671N|BNC2_uc003zmj.2_Missense_Mutation_p.S514N|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.S514N|BNC2_uc003zmn.1_Missense_Mutation_p.S514N	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	749					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		GACTTTTTCACTCACTTCGCT	0.512													18	27					0	0	0.006122	0	0		T	16435946	T	T	16435946	3	4	112	1	0	0	0	0	1	0	0	0	1476	565	20	4	1061	4	BNC2	9	16435946	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08		16435946	124777485	91	65443											
BNC2	54796	broad.mit.edu	37	chr9	16436469	16436469	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcccctggagtgagtaaacTtctataaaatggaggaactg	13	11	10	7	0	1	1	0	1	1	0	2	4	2	4	2	3	2	1	2	3	6	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr9:16436469T>G	uc003zml.2	-	6	1863	c.1723A>C	c.(1723-1725)AGT>CGT	p.S575R	BNC2_uc011lmw.1_Missense_Mutation_p.S480R|BNC2_uc003zmm.2_Missense_Mutation_p.S533R|BNC2_uc003zmq.1_Missense_Mutation_p.S589R|BNC2_uc003zmr.1_Missense_Mutation_p.S612R|BNC2_uc003zmp.1_Missense_Mutation_p.S603R|BNC2_uc010mij.1_Missense_Mutation_p.S497R|BNC2_uc011lmv.1_Missense_Mutation_p.S401R|BNC2_uc003zmo.1_Missense_Mutation_p.S497R|BNC2_uc003zmj.2_Missense_Mutation_p.S340R|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.S340R|BNC2_uc003zmn.1_Missense_Mutation_p.S340R	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	575	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		GTGAGTAAACTTCTATAAAAT	0.517													36	34					0	0	0.015359	0	0		G	16436469	G	G	16436469	3	3	112	1	0	0	0	0	1	0	0	0	1476	1609	56	5	1584	5	BNC2	9	16436469	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	523	16436469	124776962	92	65444											
APBA1	320	broad.mit.edu	37	chr9	72131493	72131493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcgtagagccgcaggcCgtcgcgtgcgtccagctcgg	4	7	15	15	7	0	1	0	0	0	1	4	1	1	1	3	2	4	4	3	2	1	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr9:72131493C>T	uc004ahh.2	-	2	910	c.634G>A	c.(634-636)GGC>AGC	p.G212S		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	212					axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						AGCCGCAGGCCGTCGCGTGCG	0.716													5	11					0	0	0.001168	0	0		T	72131493	T	T	72131493	3	4	112	1	0	0	0	0	1	0	0	0	756	652	23	1	1927	1	APBA1	9	72131493	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	55695024	72131493	69081938	93	65445											
ASTN2	23245	broad.mit.edu	37	chr9	120053656	120053656	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcaacaatctccgagggCtcctggagagtgggggcggt	7	8	15	11	2	2	1	1	0	1	1	5	3	4	1	3	5	1	1	3	5	2	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr9:120053656C>A	uc004bjs.1	-	2	680	c.579G>T	c.(577-579)GAG>GAT	p.E193D	ASTN2_uc004bjr.1_Missense_Mutation_p.E193D|ASTN2_uc004bjt.1_Missense_Mutation_p.E193D	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	193	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TCTCCGAGGGCTCCTGGAGAG	0.612													6	50					8.12818e-05	8.7632e-05	0.001984	1	0		A	120053656	A	A	120053656	3	1	112	1	0	0	0	0	1	0	0	0	1066	796	28	5	3603	5	ASTN2	9	120053656	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	47922163	120053656	21159775	94	65446											
TLR4	7099	broad.mit.edu	37	chr9	120475046	120475046	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctttagacctgtccctgaacCctatgaactttatccaacca	11	12	4	14	0	0	3	0	2	0	1	2	3	2	3	5	0	3	0	5	0	6	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr9:120475046C>G	uc004bjz.2	+	3	931	c.640C>G	c.(640-642)CCT>GCT	p.P214A	TLR4_uc004bka.2_Missense_Mutation_p.P174A|TLR4_uc004bkb.2_Missense_Mutation_p.P14A	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	214	LRR 7.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						GTCCCTGAACCCTATGAACTT	0.358													9	62					0	0	0.006214	0	0		G	120475046	G	G	120475046	3	3	112	1	0	0	0	0	1	0	0	0	15978	623	22	5	650	5	TLR4	9	120475046	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	421390	120475046	20738385	95	65447											
NR6A1	2649	broad.mit.edu	37	chr9	127298387	127298387	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcggcaaagcagggcaaaTagttctgcctgtgtcacagc	11	7	13	10	1	2	0	1	0	1	0	2	0	2	0	1	3	3	4	1	3	3	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr9:127298387T>C	uc004bor.1	-	7	1027	c.849A>G	c.(847-849)CTA>CTG	p.L283L	NR6A1_uc004boq.1_Silent_p.L278L|NR6A1_uc010mwq.1_Silent_p.L279L	NM_033334	NP_201591	Q15406	NR6A1_HUMAN	nuclear receptor subfamily 6, group A, member 1	283					cell proliferation|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	transcription factor complex	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						GCAGGGCAAATAGTTCTGCCT	0.527													10	67					0	0	0.006214	0	0		C	127298387	C	C	127298387	2	2	112	1	0	0	0	0	0	0	0	1	10656	1393	49	3		3	NR6A1	9	127298387	Silent	SNP	T	TCGA-CD-8524-01A-11D-2340-08	6823341	127298387	13915044	96	65448											
ENG	2022	broad.mit.edu	37	chr9	130587127	130587127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggccagcggtagctccaCgaaggatgccacaatgctgg	9	6	14	12	2	0	0	0	0	0	0	1	2	1	1	3	4	4	4	3	4	3	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr9:130587127C>T	uc004bsj.3	-	7	1356	c.943G>A	c.(943-945)GTG>ATG	p.V315M	ENG_uc011mam.1_Missense_Mutation_p.V126M|ENG_uc004bsk.3_Missense_Mutation_p.V315M	NM_001114753	NP_001108225	P17813	EGLN_HUMAN	endoglin isoform 1 precursor	315	Extracellular (Potential).				artery morphogenesis|BMP signaling pathway|cell adhesion|cell chemotaxis|central nervous system vasculogenesis|chronological cell aging|detection of hypoxia|extracellular matrix disassembly|heart looping|negative regulation of endothelial cell proliferation|negative regulation of nitric-oxide synthase activity|negative regulation of pathway-restricted SMAD protein phosphorylation|negative regulation of protein autophosphorylation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|patterning of blood vessels|positive regulation of BMP signaling pathway|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of systemic arterial blood pressure|positive regulation of transcription from RNA polymerase II promoter|regulation of cell adhesion|regulation of cell proliferation|regulation of transcription, DNA-dependent|regulation of transforming growth factor beta receptor signaling pathway|smooth muscle tissue development|transforming growth factor beta receptor signaling pathway|venous blood vessel morphogenesis|wound healing	cell surface|external side of plasma membrane|extracellular space|membrane fraction	activin binding|galactose binding|glycosaminoglycan binding|protein homodimerization activity|transforming growth factor beta binding|transforming growth factor beta receptor activity|transforming growth factor beta receptor, cytoplasmic mediator activity|transmembrane receptor activity|type I transforming growth factor beta receptor binding|type II transforming growth factor beta receptor binding				0						GGTAGCTCCACGAAGGATGCC	0.473									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				8	20					0	0	0.004482	0	0		T	130587127	T	T	130587127	3	4	112	1	0	0	0	0	1	0	0	0	5125	536	19	1	1095	1	ENG	9	130587127	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	3288740	130587127	10626304	97	65449											
SETX	23064	broad.mit.edu	37	chr9	135205035	135205035	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacactgtcttgcactttCattggttctttagaaaatgt	11	17	6	7	0	3	1	1	0	2	1	3	1	3	1	0	1	2	2	0	1	5	7			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr9:135205035C>A	uc004cbk.2	-	10	2133	c.1950G>T	c.(1948-1950)ATG>ATT	p.M650I	SETX_uc004cbj.2_Missense_Mutation_p.M269I|SETX_uc010mzt.2_Missense_Mutation_p.M269I	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	650					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		CTTGCACTTTCATTGGTTCTT	0.348													9	37					1.12685e-05	1.25408e-05	0.004482	1	0		A	135205035	A	A	135205035	3	1	112	1	0	0	0	0	1	0	0	0	14166	826	29	5	6151	5	SETX	9	135205035	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	4617908	135205035	6008396	98	65450											
KCNT1	57582	broad.mit.edu	37	chr9	138683644	138683644	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggctgtgtcctttgcagaCgagatgaacgaccaccagaa	11	7	11	12	3	0	4	0	1	0	3	1	6	1	4	4	1	2	2	4	1	2	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr9:138683644C>T	uc011mdq.1	+	30	3578	c.3504C>T	c.(3502-3504)GAC>GAT	p.D1168D	KCNT1_uc011mdr.1_Silent_p.D1016D|KCNT1_uc010nbf.2_Silent_p.D1144D	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	1168						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		CCTTTGCAGACGAGATGAACG	0.642													14	50					0	0	0.016723	0	0		T	138683644	T	T	138683644	2	4	112	1	0	0	0	0	0	0	0	1	8107	550	19	1		1	KCNT1	9	138683644	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08	3478609	138683644	2529787	99	65451											
PNPLA7	375775	broad.mit.edu	37	chr9	140437937	140437937	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggtgagaattcttcacGtcaaactccgtgaggtcggc	9	9	13	10	3	3	2	2	2	1	1	5	3	4	2	1	4	1	1	1	4	2	2	rs139510260	byFrequency	TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr9:140437937G>A	uc004cnf.2	-	5	715	c.378C>T	c.(376-378)GAC>GAT	p.D126D	PNPLA7_uc010ncj.1_Silent_p.D151D	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	126					lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		AATTCTTCACGTCAAACTCCG	0.602													4	45					0	0	0.014758	0	0		A	140437937	A	A	140437937	2	1	112	1	0	0	0	0	0	0	0	1	12189	1136	40	1		1	PNPLA7	9	140437937	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	1754293	140437937	775494	100	65452											
CALML3	810	broad.mit.edu	37	chr10	5567124	5567124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgacaaggatggggacGgctgcatcaccacccgcgag	9	7	14	11	3	1	1	1	1	0	0	1	4	1	3	2	4	1	3	2	4	1	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr10:5567124G>A	uc001iie.1	+	1	201	c.76G>A	c.(76-78)GGC>AGC	p.G26S	uc001iid.1_5'Flank	NM_005185	NP_005176	P27482	CALL3_HUMAN	calmodulin-like 3	26	1.|EF-hand 1.						calcium ion binding				0						GGATGGGGACGGCTGCATCAC	0.652													5	15					0	0	0.014758	0	0		A	5567124	A	A	5567124	3	1	112	1	0	0	0	0	1	0	0	0	2590	1116	39	1	78	1	CALML3	10	5567124	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08		5567124	129967623	101	65453											
GDF2	2658	broad.mit.edu	37	chr10	48413661	48413661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtcatccttgtagaggaCggagatggggctcagtttgg	8	11	15	7	1	2	2	2	0	0	2	3	4	3	3	1	5	0	3	1	5	1	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr10:48413661C>T	uc001jfa.1	-	2	1370	c.1207G>A	c.(1207-1209)GTC>ATC	p.V403I		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	403					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						TTGTAGAGGACGGAGATGGGG	0.597													11	28					0	0	0.008291	0	0		T	48413661	T	T	48413661	3	4	112	1	0	0	0	0	1	0	0	0	6329	536	19	1	86	1	GDF2	10	48413661	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	42846537	48413661	87121086	102	65454											
MAPK8	5599	broad.mit.edu	37	chr10	49635141	49635141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agccaccaccaaagatccctGacaagcagttagatgaaagg	16	5	9	11	0	0	4	0	2	0	2	1	4	1	4	4	1	2	2	4	1	4	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr10:49635141G>A	uc009xnz.2	+	10	1239	c.1015G>A	c.(1015-1017)GAC>AAC	p.D339N	MAPK8_uc001jgl.2_Missense_Mutation_p.D339N|MAPK8_uc001jgm.2_Missense_Mutation_p.D339N|MAPK8_uc001jgo.2_Missense_Mutation_p.D339N|MAPK8_uc009xoa.2_Missense_Mutation_p.D263N|MAPK8_uc001jgn.2_Missense_Mutation_p.D339N|MAPK8_uc010qgk.1_Missense_Mutation_p.D339N|MAPK8_uc001jgp.2_Missense_Mutation_p.D339N|MAPK8_uc001jgq.2_Missense_Mutation_p.D339N	NM_139047	NP_620635	P45983	MK08_HUMAN	mitogen-activated protein kinase 8 isoform JNK1	339					activation of pro-apoptotic gene products|cellular response to mechanical stimulus|induction of apoptosis by intracellular signals|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of apoptosis|negative regulation of protein binding|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of deacetylase activity|regulation of protein localization|regulation of sequence-specific DNA binding transcription factor activity|response to UV|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|histone deacetylase binding|histone deacetylase regulator activity|JUN kinase activity|protein binding			central_nervous_system(3)|lung(2)|stomach(1)|ovary(1)|kidney(1)	8		Ovarian(717;0.0221)|Lung SC(717;0.113)|all_neural(218;0.116)		Epithelial(53;3.46e-65)|Lung(62;0.125)		AAAGATCCCTGACAAGCAGTT	0.388													8	28					0	0	0.004482	0	0		A	49635141	A	A	49635141	3	1	112	1	0	0	0	0	1	0	0	0	9301	1290	45	4	1125	4	MAPK8	10	49635141	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	1221480	49635141	85899606	103	65455											
C10orf54	64115	broad.mit.edu	37	chr10	73521515	73521515	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaggccgactccagcccGtggcgctgagccaggtcgtg	5	6	16	14	5	0	1	0	1	0	0	3	3	1	2	4	4	2	1	4	4	0	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr10:73521515G>A	uc001jsd.2	-	2	492	c.351C>T	c.(349-351)CAC>CAT	p.H117H	CDH23_uc001jrx.3_Intron|C10orf54_uc001jse.2_Translation_Start_Site|C10orf54_uc009xqm.2_Intron|C10orf54_uc001jsf.1_Silent_p.H117H	NM_022153	NP_071436	Q9H7M9	GI24_HUMAN	platelet receptor Gi24 precursor	117	Ig-like.|Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)|central_nervous_system(1)	3						ACTCCAGCCCGTGGCGCTGAG	0.652													13	19					0	0	0.016723	0	0		A	73521515	A	A	73521515	2	1	112	1	0	0	0	0	0	0	0	1	1610	1136	40	1		1	C10orf54	10	73521515	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	23886374	73521515	62013232	104	65456											
ZCCHC24	219654	broad.mit.edu	37	chr10	81146112	81146112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagcccgtcactgcacgcGacggcagtagtagcccagga	9	4	14	14	4	1	0	1	0	0	0	1	2	1	1	2	3	3	5	2	3	2	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr10:81146112G>A	uc001kak.2	-	4	902	c.715C>T	c.(715-717)CGC>TGC	p.R239C	ZCCHC24_uc010qlr.1_Missense_Mutation_p.S179L|ZCCHC24_uc009xrw.2_RNA	NM_153367	NP_699198	Q8N2G6	ZCH24_HUMAN	zinc finger, CCHC domain containing 24	239							nucleic acid binding|zinc ion binding			breast(1)	1						CACTGCACGCGACGGCAGTAG	0.701													11	15					0	0	0.010729	0	0		A	81146112	A	A	81146112	3	1	112	1	0	0	0	0	1	0	0	0	17613	1058	37	1	14	1	ZCCHC24	10	81146112	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	7624597	81146112	54388635	105	65457											
NRG3	10718	broad.mit.edu	37	chr10	83635660	83635660	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accacagcacggaacactgcGgcccctgcgacggtcccgtc	8	4	11	18	5	0	0	0	0	0	0	2	2	1	1	4	3	4	1	4	3	1	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr10:83635660G>A	uc001kco.2	+	1	591	c.564G>A	c.(562-564)GCG>GCA	p.A188A	NRG3_uc010qlz.1_Silent_p.A188A|NRG3_uc001kcp.2_5'Flank|NRG3_uc001kcq.2_5'Flank	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	188	Ser/Thr-rich.|Extracellular (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		GGAACACTGCGGCCCCTGCGA	0.716													13	48					0	0	0.003163	0	0		A	83635660	A	A	83635660	2	1	112	1	0	0	0	0	0	0	0	1	10668	1103	39	1		1	NRG3	10	83635660	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	2489548	83635660	51899087	106	65458											
FAM22D	728130	broad.mit.edu	37	chr10	89118032	89118032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctggggtcctatgttccagGaacctgtttactttcaaatt	8	16	8	9	0	2	0	1	0	1	0	4	1	4	1	3	3	2	2	3	3	4	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr10:89118032G>A	uc001kes.2	+	1	556	c.10G>A	c.(10-12)GAA>AAA	p.E4K	FAM22D_uc009xte.1_Missense_Mutation_p.E4K	NM_001009610	NP_001009610	Q5VT03	FA22D_HUMAN	hypothetical protein LOC728130	4											0						TATGTTCCAGGAACCTGTTTA	0.532													11	94					0	0	0.008291	0	0		A	89118032	A	A	89118032	3	1	112	1	0	0	0	0	1	0	0	0	5555	1175	41	4	12	4	FAM22D	10	89118032	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	5482372	89118032	46416715	107	65459											
SORCS1	114815	broad.mit.edu	37	chr10	108923823	108923823	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcagtctcagctcctccatCcggaagcgggtggctttgtc	5	11	12	13	2	2	0	2	0	1	0	7	1	5	1	3	3	2	2	3	3	1	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr10:108923823C>A	uc001kym.2	-	1	470	c.462G>T	c.(460-462)CGG>CGT	p.R154R	SORCS1_uc001kyl.2_Silent_p.R154R|SORCS1_uc009xxs.2_Silent_p.R154R|SORCS1_uc001kyn.1_Silent_p.R154R|SORCS1_uc001kyo.2_Silent_p.R154R	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	154	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		GCTCCTCCATCCGGAAGCGGG	0.652													11	30					0.000673444	0.000704055	0.008291	1	0		A	108923823	A	A	108923823	2	1	112	1	0	0	0	0	0	0	0	1	14955	842	30	5		5	SORCS1	10	108923823	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08	19805791	108923823	26610924	108	65460											
BBOX1	8424	broad.mit.edu	37	chr11	27148884	27148884	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcttacttcatggccgaCgtagctatgaagcaggaact	10	9	12	10	3	1	1	1	1	0	0	1	3	1	2	1	3	4	4	1	3	5	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr11:27148884C>G	uc001mre.1	+	9	1416	c.1048C>G	c.(1048-1050)CGT>GGT	p.R350G	BBOX1_uc009yih.1_Missense_Mutation_p.R350G|BBOX1_uc001mrg.1_Missense_Mutation_p.R350G	NM_003986	NP_003977	O75936	BODG_HUMAN	gamma-butyrobetaine dioxygenase	350					carnitine biosynthetic process	actin cytoskeleton|cytosol|intracellular membrane-bounded organelle	gamma-butyrobetaine dioxygenase activity|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1					Succinic acid(DB00139)|Vitamin C(DB00126)	TCATGGCCGACGTAGCTATGA	0.413													5	36					0	0	0.014758	0	0		G	27148884	G	G	27148884	3	3	112	1	0	0	0	0	1	0	0	0	1335	536	19	5	1074	5	BBOX1	11	27148884	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08		27148884	107857632	109	65461											
OR4C13	283092	broad.mit.edu	37	chr11	49974634	49974634	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctcctgcgtggtcatactGtactccttaaagacccacag	9	11	8	13	1	2	1	1	0	1	1	4	1	3	1	3	1	3	1	3	1	4	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr11:49974634G>T	uc010rhz.1	+	1	660	c.660G>T	c.(658-660)CTG>CTT	p.L220L		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						TGGTCATACTGTACTCCTTAA	0.483													13	112					1.5842e-08	1.80181e-08	0.016723	1	0		T	49974634	T	T	49974634	2	4	112	1	0	0	0	0	0	0	0	1	11066	1364	48	5		5	OR4C13	11	49974634	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	22825750	49974634	85031882	110	65462											
SSRP1	6749	broad.mit.edu	37	chr11	57099148	57099148	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggaggttctcacctctcaAtgctgctgaaggtatactga	9	12	11	9	0	2	2	2	2	2	0	4	3	2	3	1	3	3	4	1	3	4	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr11:57099148A>G	uc001njt.2	-	9	1484	c.1217T>C	c.(1216-1218)ATT>ACT	p.I406T		NM_003146	NP_003137	Q08945	SSRP1_HUMAN	structure specific recognition protein 1	406					DNA repair|DNA replication|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|cytoplasm|nucleoplasm	DNA binding|protein binding			ovary(2)	2						TCACCTCTCAATGCTGCTGAA	0.532													4	41					0	0	0.009096	0	0		G	57099148	G	G	57099148	3	3	112	1	0	0	0	0	1	0	0	0	15219	101	4	3	948	3	SSRP1	11	57099148	Missense_Mutation	SNP	A	TCGA-CD-8524-01A-11D-2340-08	7124514	57099148	77907368	111	65463											
OR5B12	390191	broad.mit.edu	37	chr11	58206946	58206946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcgtccttcaggtgagcGcatcttcatgatggtgataa	8	12	12	9	2	3	3	2	3	1	0	4	3	4	3	1	3	1	1	1	3	1	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr11:58206946G>A	uc010rkh.1	-	1	679	c.679C>T	c.(679-681)CGC>TGC	p.R227C		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TCAGGTGAGCGCATCTTCATG	0.403													4	40					0	0	0.009096	0	0		A	58206946	A	A	58206946	3	1	112	1	0	0	0	0	1	0	0	0	11167	1087	38	1	269	1	OR5B12	11	58206946	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	1107798	58206946	76799570	112	65464											
C11orf2	738	broad.mit.edu	37	chr11	64876186	64876186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccacctgcagggtctcCgggcggccttcctgggctgc	3	7	14	17	2	1	0	0	0	1	0	3	0	2	0	6	4	2	2	6	4	0	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr11:64876186C>T	uc001ocr.1	+	5	1283	c.1243C>T	c.(1243-1245)CGG>TGG	p.R415W	C11orf2_uc001ocs.1_Missense_Mutation_p.R291W	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	415					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						GCAGGGTCTCCGGGCGGCCTT	0.741													3	6					0	0	0.004672	0	0		T	64876186	T	T	64876186	3	4	112	1	0	0	0	0	1	0	0	0	1636	643	23	1	1261	1	C11orf2	11	64876186	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	6669240	64876186	70130330	113	65465											
TYR	7299	broad.mit.edu	37	chr11	88961040	88961040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgcctctcaaagcagcatGcacaatgccttgcacatcta	12	9	7	13	0	2	0	1	0	2	0	3	1	2	0	2	0	6	4	2	0	3	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr11:88961040G>A	uc001pcs.2	+	3	1168	c.1086G>A	c.(1084-1086)ATG>ATA	p.M362I		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	362	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	AAAGCAGCATGCACAATGCCT	0.393									Oculocutaneous_Albinism				7	54					0	0	0.004482	0	0		A	88961040	A	A	88961040	3	1	112	1	0	0	0	0	1	0	0	0	16839	1319	46	2	1096	2	TYR	11	88961040	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	24084854	88961040	46045476	114	65466											
MMP7	4316	broad.mit.edu	37	chr11	102395690	102395690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgctaccatccgtccagCgttcatcctcatcgaagtga	9	10	8	14	3	2	1	2	1	0	0	6	3	5	1	4	0	3	2	4	0	2	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr11:102395690C>T	uc001phb.2	-	4	637	c.590G>A	c.(589-591)CGC>CAC	p.R197H	MMP7_uc009yxd.2_Missense_Mutation_p.R197H	NM_002423	NP_002414	P09237	MMP7_HUMAN	matrix metalloproteinase 7 preproprotein	197					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(1)	1	all_cancers(8;2.04e-05)|all_epithelial(12;0.00053)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0105)|all cancers(10;0.0496)|Lung(13;0.109)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0147)		ATCCGTCCAGCGTTCATCCTC	0.478													12	38					0	0	0.010729	0	0		T	102395690	T	T	102395690	3	4	112	1	0	0	0	0	1	0	0	0	9685	768	27	1	225	1	MMP7	11	102395690	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	13434650	102395690	32610826	115	65467											
BCO2	83875	broad.mit.edu	37	chr11	112070509	112070509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggtgatatgttctattgCttctacagagaaagggaaac	13	11	10	7	0	2	2	0	1	2	1	2	4	2	3	1	2	3	2	1	2	5	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr11:112070509C>T	uc001pnf.2	+	6	941	c.824C>T	c.(823-825)GCT>GTT	p.A275V	BCO2_uc001pne.1_Missense_Mutation_p.A102V|BCO2_uc001png.2_Missense_Mutation_p.A202V|BCO2_uc001pnh.2_Missense_Mutation_p.A241V|BCO2_uc010rwt.1_Missense_Mutation_p.A170V|BCO2_uc009yyn.2_Missense_Mutation_p.A241V|BCO2_uc001pni.2_Missense_Mutation_p.A241V	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	275					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TGTTCTATTGCTTCTACAGAG	0.443													24	57					0	0	0.021523	0	0		T	112070509	T	T	112070509	3	4	112	1	0	0	0	0	1	0	0	0	1386	797	28	2	846	2	BCO2	11	112070509	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	9674819	112070509	22936007	116	65468											
PPFIBP1	8496	broad.mit.edu	37	chr12	27841317	27841317	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacttggcagaatatgcGcccaatctcagaggcagtgg	10	8	14	9	1	1	2	1	0	1	2	2	3	1	3	1	4	1	2	1	4	3	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr12:27841317G>A	uc001ric.1	+	25	2852	c.2475G>A	c.(2473-2475)GCG>GCA	p.A825A	PPFIBP1_uc010sjr.1_Silent_p.A656A|PPFIBP1_uc001rib.1_Silent_p.A819A|PPFIBP1_uc001ria.2_Silent_p.A794A|PPFIBP1_uc001rid.1_Silent_p.A672A|PPFIBP1_uc001rif.1_Silent_p.A332A	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	825	SAM 3.				cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					CAGAATATGCGCCCAATCTCA	0.473													750	149					0	0	0.01441	0	0		A	27841317	A	A	27841317	2	1	112	1	0	0	0	0	0	0	0	1	12332	1074	38	1		1	PPFIBP1	12	27841317	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08		27841317	106010578	117	65469											
IGFBP6	3489	broad.mit.edu	37	chr12	53495871	53495871	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgaggtccctgctggtgtGtggatcggatgggcaagtcc	5	9	17	10	2	0	0	0	0	0	0	3	3	2	2	3	5	1	2	3	5	1	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr12:53495871G>A	uc001sbu.1	+	4	709	c.643G>A	c.(643-645)GTG>ATG	p.V215M	SOAT2_uc001sbv.2_5'Flank|SOAT2_uc009zms.2_5'Flank	NM_002178	NP_002169	P24592	IBP6_HUMAN	insulin-like growth factor binding protein 6	215	Thyroglobulin type-1.				negative regulation of cell proliferation|regulation of cell growth|signal transduction					ovary(1)	1						CTGCTGGTGTGTGGATCGGAT	0.637													5	28					0	0	0.001168	0	0		A	53495871	A	A	53495871	3	1	112	1	0	0	0	0	1	0	0	0	7599	1377	48	4	657	4	IGFBP6	12	53495871	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	25654554	53495871	80356024	118	65470											
CAPS2	84698	broad.mit.edu	37	chr12	75693618	75693618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaataaaatcacaattaccGtgatacgatcctaccatcaa	17	11	3	10	2	2	1	2	1	0	0	3	2	3	1	3	0	3	0	3	0	8	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr12:75693618G>A	uc001sxk.3	-	10	1107	c.910C>T	c.(910-912)CGT>TGT	p.R304C	CAPS2_uc001sxm.3_Missense_Mutation_p.R72C|CAPS2_uc009zsa.2_Intron|CAPS2_uc001sxi.3_Nonsense_Mutation_p.R72*|CAPS2_uc001sxj.3_Nonsense_Mutation_p.R247*|CAPS2_uc001sxl.3_Missense_Mutation_p.R285C	NM_032606	NP_115995	Q9BXY5	CAYP2_HUMAN	calcyphosine 2	304							calcium ion binding			ovary(2)	2						CACAATTACCGTGATACGATC	0.269													3	22					0	0	0.004672	0	0		A	75693618	A	A	75693618	3	1	112	1	0	0	0	0	1	0	0	0	2641	1159	40	1	799	1	CAPS2	12	75693618	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	22197747	75693618	58158277	119	65471											
NAV3	89795	broad.mit.edu	37	chr12	78401201	78401201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatagccacccgaataccgCgacagtggcaccattcattt	12	8	7	14	3	1	0	1	0	0	0	1	2	1	0	4	1	2	1	4	1	3	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr12:78401201C>T	uc001syp.2	+	8	2056	c.1883C>T	c.(1882-1884)GCG>GTG	p.A628V	NAV3_uc001syo.2_Missense_Mutation_p.A628V	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	628						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CCGAATACCGCGACAGTGGCA	0.488										HNSCC(70;0.22)			20	63					0	0	0.008871	0	0		T	78401201	T	T	78401201	3	4	112	1	0	0	0	0	1	0	0	0	10203	768	27	1	1913	1	NAV3	12	78401201	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	2707583	78401201	55450694	120	65472											
NAV3	89795	broad.mit.edu	37	chr12	78513089	78513089	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatctctacaaagatctcCttcagatgcaggaaaaagca	16	9	6	10	0	4	2	2	0	2	2	6	3	4	3	1	1	3	2	1	1	4	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr12:78513089C>A	uc001syp.2	+	15	3286	c.3113C>A	c.(3112-3114)CCT>CAT	p.P1038H	NAV3_uc001syo.2_Missense_Mutation_p.P1038H|NAV3_uc010sub.1_Missense_Mutation_p.P538H|NAV3_uc009zsf.2_Missense_Mutation_p.P46H	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1038	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CAAAGATCTCCTTCAGATGCA	0.433										HNSCC(70;0.22)			19	109					1.01871e-10	1.17152e-10	0.008871	1	0		A	78513089	A	A	78513089	3	1	112	1	0	0	0	0	1	0	0	0	10203	681	24	5	3171	5	NAV3	12	78513089	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	111888	78513089	55338806	121	65473											
C12orf12	196477	broad.mit.edu	37	chr12	91347392	91347392	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtgcagcttataaagttCtctctcttttcttcagcctc	9	16	5	11	0	4	0	1	0	3	0	7	0	4	0	1	0	3	3	1	0	4	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr12:91347392C>A	uc001tbj.2	-	1	1562	c.1128G>T	c.(1126-1128)GAG>GAT	p.E376D		NM_152638	NP_689851	Q8TC90	CL012_HUMAN	hypothetical protein LOC196477	376	Glu-rich.									central_nervous_system(1)|pancreas(1)	2						TTATAAAGTTCTCTCTCTTTT	0.418													8	63					0.000157383	0.00016793	0.00308	1	0		A	91347392	A	A	91347392	3	1	112	1	0	0	0	0	1	0	0	0	1679	912	32	5	96	5	C12orf12	12	91347392	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	12834303	91347392	42504503	122	65474											
SGCG	6445	broad.mit.edu	37	chr13	23777913	23777913	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcagtatgtctacaaaattgGcatttatggctggagaaagc	13	12	10	6	0	2	1	1	0	1	1	2	2	2	1	0	3	2	3	0	3	6	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr13:23777913G>T	uc001uom.2	+	2	235	c.80G>T	c.(79-81)GGC>GTC	p.G27V	SGCG_uc009zzv.2_Missense_Mutation_p.G27V|SGCG_uc009zzw.2_Missense_Mutation_p.G27V	NM_000231	NP_000222	Q13326	SGCG_HUMAN	gamma sarcoglycan	27	Cytoplasmic (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0		all_cancers(29;4.34e-23)|all_epithelial(30;4.4e-19)|all_lung(29;2.45e-18)|Lung SC(185;0.0228)|Breast(139;0.188)		all cancers(112;0.00255)|Epithelial(112;0.0129)|OV - Ovarian serous cystadenocarcinoma(117;0.0365)|Lung(94;0.205)		TACAAAATTGGCATTTATGGC	0.438													5	34					0.000602214	0.000632784	0.014758	1	0		T	23777913	T	T	23777913	3	4	112	1	0	0	0	0	1	0	0	0	14228	1203	42	5	82	5	SGCG	13	23777913	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08		23777913	91391965	123	65475											
EDNRB	1910	broad.mit.edu	37	chr13	78477310	78477310	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcatgaaagctgtcttcTgaacgggatgaagcaagcag	12	8	12	9	1	2	3	0	3	2	0	2	4	2	4	1	1	5	4	1	1	4	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr13:78477310T>G	uc001vko.2	-	3	1040	c.782A>C	c.(781-783)CAG>CCG	p.Q261P	EDNRB_uc001vkq.1_Missense_Mutation_p.Q261P|uc001vkn.1_Intron|EDNRB_uc010aez.1_Missense_Mutation_p.Q261P|EDNRB_uc001vkp.1_Missense_Mutation_p.Q344P	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	261	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	AGCTGTCTTCTGAACGGGATG	0.403													31	69					0	0	0.007291	0	0		G	78477310	G	G	78477310	3	3	112	1	0	0	0	0	1	0	0	0	4926	1580	55	5	687	5	EDNRB	13	78477310	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	54699397	78477310	36692568	124	65476											
DNAJC3	5611	broad.mit.edu	37	chr13	96416105	96416105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggacgagaagcctgttgaaGctattagggtttgttctgaa	11	12	13	5	1	1	3	0	2	1	1	1	5	1	4	1	2	2	4	1	2	5	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr13:96416105G>A	uc001vmq.2	+	9	1081	c.973G>A	c.(973-975)GCT>ACT	p.A325T	DNAJC3_uc001vmr.2_Missense_Mutation_p.A274T	NM_006260	NP_006251	Q13217	DNJC3_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 3	325	TPR 8.				protein folding|response to unfolded protein|response to virus		heat shock protein binding|protein kinase inhibitor activity|unfolded protein binding				0	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.126)			GCCTGTTGAAGCTATTAGGGT	0.398													34	97					0	0	0.017118	0	0		A	96416105	A	A	96416105	3	1	112	1	0	0	0	0	1	0	0	0	4653	971	34	2	1007	2	DNAJC3	13	96416105	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	17938795	96416105	18753773	125	65477											
NUDT14	256281	broad.mit.edu	37	chr14	105643099	105643099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcggcgctccacctcacccGcatacacagctgcgtgggaa	9	5	11	16	4	1	0	1	0	0	0	2	1	2	1	3	2	4	3	3	2	2	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr14:105643099G>A	uc010tyn.1	-	4	314	c.200C>T	c.(199-201)GCG>GTG	p.A67V	NUDT14_uc001yqi.2_RNA	NM_177533	NP_803877	O95848	NUD14_HUMAN	nudix-type motif 14	67	Nudix hydrolase.					cytoplasm	metal ion binding|protein binding|UDP-sugar diphosphatase activity			skin(1)	1		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		CACCTCACCCGCATACACAGC	0.682										HNSCC(42;0.11)			11	33					0	0	0.020292	0	0		A	105643099	A	A	105643099	3	1	112	1	0	0	0	0	1	0	0	0	10749	1087	38	1	476	1	NUDT14	14	105643099	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08		105643099	1706441	126	65478											
THBS1	7057	broad.mit.edu	37	chr15	39879632	39879632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaatggaattcagcagcGcggccgctcctgcgatagcc	8	7	13	13	4	1	0	1	0	0	0	2	2	2	1	3	3	4	3	3	3	3	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr15:39879632G>A	uc001zkh.2	+	8	1384	c.1205G>A	c.(1204-1206)CGC>CAC	p.R402H	THBS1_uc010bbi.2_5'Flank	NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	402	TSP type-1 1.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	ATTCAGCAGCGCGGCCGCTCC	0.582													7	18					0	0	0.001984	0	0		A	39879632	A	A	39879632	3	1	112	1	0	0	0	0	1	0	0	0	15878	1087	38	1	1231	1	THBS1	15	39879632	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08		39879632	62651760	127	65479											
ACAN	176	broad.mit.edu	37	chr15	89401508	89401508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccggaattcagtggcctaCcaagtggcatagctgaggtc	9	9	12	11	1	1	1	1	1	0	0	3	2	2	2	3	4	2	2	3	4	4	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr15:89401508C>T	uc010upo.1	+	12	6066	c.5692C>T	c.(5692-5694)CCA>TCA	p.P1898S	ACAN_uc010upp.1_Missense_Mutation_p.P1898S|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	1898					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CAGTGGCCTACCAAGTGGCAT	0.517													16	20					0	0	0.003163	0	0		T	89401508	T	T	89401508	3	4	112	1	0	0	0	0	1	0	0	0	117	507	18	4	5734	4	ACAN	15	89401508	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	49521876	89401508	13129884	128	65480											
COQ7	10229	broad.mit.edu	37	chr16	19083427	19083427	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgtcgggccagtcattcAggtgggtgcttcttcatctc	5	12	12	12	2	5	0	3	0	2	0	7	0	5	0	1	3	2	1	1	3	0	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr16:19083427A>G	uc002dfr.2	+	2	311	c.251A>G	c.(250-252)CAG>CGG	p.Q84R	COQ7_uc002dfs.2_Missense_Mutation_p.Q70R	NM_016138	NP_057222	Q99807	COQ7_HUMAN	COQ7 protein	84	1.|2 X approximate tandem repeats.				ubiquinone biosynthetic process	mitochondrial inner membrane|nucleus	oxidoreductase activity|transition metal ion binding			skin(1)	1						CCAGTCATTCAGGTGGGTGCT	0.498											OREG0023656	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	54					0	0	0.004482	0	0		G	19083427	G	G	19083427	3	3	112	1	0	0	0	0	1	0	0	0	3753	202	7	3	257	3	COQ7	16	19083427	Missense_Mutation	SNP	A	TCGA-CD-8524-01A-11D-2340-08		19083427	71271326	129	65481											
JPH3	57338	broad.mit.edu	37	chr16	87678214	87678214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcaagcagagctcctttCgcagcgaggcgggcatgagc	9	5	15	12	3	0	2	0	1	0	1	2	3	1	2	1	2	5	6	1	2	1	1	rs142136496		TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr16:87678214C>T	uc002fkd.2	+	2	987	c.733C>T	c.(733-735)CGC>TGC	p.R245C	JPH3_uc010vou.1_RNA	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	245	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		GAGCTCCTTTCGCAGCGAGGC	0.662													13	34					0	0	0.016723	0	0		T	87678214	T	T	87678214	3	4	112	1	0	0	0	0	1	0	0	0	7978	884	31	1	739	1	JPH3	16	87678214	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	68594787	87678214	2676539	130	65482											
TP53	7157	broad.mit.edu	37	chr17	7578212	7578212	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcaccaccacactatgtcGaaaagtgtttctgtcatcca	11	10	8	12	1	2	0	1	0	1	0	4	1	3	0	3	1	0	2	3	1	3	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr17:7578212G>A	uc002gim.2	-	6	831	c.637C>T	c.(637-639)CGA>TGA	p.R213*	TP53_uc002gig.1_Nonsense_Mutation_p.R213*|TP53_uc002gih.2_Nonsense_Mutation_p.R213*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R81*|TP53_uc010cng.1_Nonsense_Mutation_p.R81*|TP53_uc002gii.1_Nonsense_Mutation_p.R81*|TP53_uc010cnh.1_Nonsense_Mutation_p.R213*|TP53_uc010cni.1_Nonsense_Mutation_p.R213*|TP53_uc002gij.2_Nonsense_Mutation_p.R213*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.R120*|TP53_uc002gio.2_Nonsense_Mutation_p.R81*|TP53_uc010vug.1_Nonsense_Mutation_p.R174*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	213	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(186)|p.R213L(25)|p.R213Q(22)|p.R213fs*34(10)|p.0?(7)|p.R213P(5)|p.R81*(2)|p.R120*(2)|p.R213G(2)|p.K164_P219del(1)|p.D208_V216delDRNTFRHSV(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R213*33(1)|p.D208fs*1(1)|p.R213>L(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ACACTATGTCGAAAAGTGTTT	0.532		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			6	19					0	0	0.001168	0	0		A	7578212	A	A	7578212	4	1	112	1	0	0	0	0	0	1	0	0	16407	1066	37	1	657	1	TP53	17	7578212	Nonsense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08		7578212	73616998	131	65483											
MYH10	4628	broad.mit.edu	37	chr17	8526399	8526399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caactccaccataacttcatCtccccgttcttctttgatac	9	14	2	16	1	4	1	1	1	3	0	6	1	5	1	4	0	3	1	4	0	3	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr17:8526399C>T	uc002gll.2	-	2	262	c.166G>A	c.(166-168)GAT>AAT	p.D56N	MYH10_uc002glm.2_Missense_Mutation_p.D56N|MYH10_uc010cnx.2_Missense_Mutation_p.D56N	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	56	Myosin head-like.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						ATAACTTCATCTCCCCGTTCT	0.448													24	173					0	0	0.021523	0	0		T	8526399	T	T	8526399	3	4	112	1	0	0	0	0	1	0	0	0	10048	913	32	4	5924	4	MYH10	17	8526399	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	948187	8526399	72668811	132	65484											
MYH1	4619	broad.mit.edu	37	chr17	10399670	10399670	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctccatcttcttcttgAgcctaatggcatcattcctg	6	15	5	15	0	4	1	1	1	3	0	7	1	7	1	4	1	1	1	4	1	1	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr17:10399670A>G	uc002gmo.2	-	34	4947	c.4853T>C	c.(4852-4854)CTC>CCC	p.L1618P	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1618	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CTTCTTCTTGAGCCTAATGGC	0.493													7	103					0	0	0.001984	0	0		G	10399670	G	G	10399670	3	3	112	1	0	0	0	0	1	0	0	0	10047	304	11	3	994	3	MYH1	17	10399670	Missense_Mutation	SNP	A	TCGA-CD-8524-01A-11D-2340-08	1873271	10399670	70795540	133	65485											
MYH3	4621	broad.mit.edu	37	chr17	10545981	10545981	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacagcttgttcttgaaggaGgtgtctgttgccttggggaa	7	14	14	6	0	2	1	0	1	2	0	2	3	2	3	1	4	3	3	1	4	3	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr17:10545981G>A	uc002gmq.1	-	15	1718	c.1641C>T	c.(1639-1641)ACC>ACT	p.T547T		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	547	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TCTTGAAGGAGGTGTCTGTTG	0.507													32	72					0	0	0.010818	0	0		A	10545981	A	A	10545981	2	1	112	1	0	0	0	0	0	0	0	1	10054	987	35	4		4	MYH3	17	10545981	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	146311	10545981	70649229	134	65486											
DUSP14	11072	broad.mit.edu	37	chr17	35872423	35872423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaggactctcatggcccctCggatgatttccgagggagac	9	8	12	12	2	1	2	1	1	1	1	4	6	2	4	3	4	0	0	3	4	1	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr17:35872423C>T	uc002hnx.2	+	3	343	c.49C>T	c.(49-51)CGG>TGG	p.R17W	DUSP14_uc002hny.2_Missense_Mutation_p.R4W|DUSP14_uc002hnz.2_Missense_Mutation_p.R4W	NM_007026	NP_008957	O95147	DUS14_HUMAN	dual specificity phosphatase 14	17							MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Breast(25;0.00637)|Ovarian(249;0.15)				CATGGCCCCTCGGATGATTTC	0.567													5	22					0	0	0.001168	0	0		T	35872423	T	T	35872423	3	4	112	1	0	0	0	0	1	0	0	0	4820	875	31	1	51	1	DUSP14	17	35872423	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	25326442	35872423	45322787	135	65487											
GPR179	440435	broad.mit.edu	37	chr17	36495312	36495312	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atccttacctgggtgctgttGagatcacacaggtgtgtgtt	7	14	12	8	0	1	1	1	1	0	1	2	2	2	1	2	2	2	3	2	2	1	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr17:36495312G>A	uc002hpz.2	-	2	912	c.891C>T	c.(889-891)CTC>CTT	p.L297L		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	297	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				GGGTGCTGTTGAGATCACACA	0.582													8	25					0	0	0.004482	0	0		A	36495312	A	A	36495312	2	1	112	1	0	0	0	0	0	0	0	1	6689	1277	45	4		4	GPR179	17	36495312	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	622889	36495312	44699898	136	65488											
PLCD3	113026	broad.mit.edu	37	chr17	43192475	43192475	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctacctgcctcccgaatGagtttcttggctttgcgctc	4	14	8	15	2	1	1	0	1	1	0	4	2	3	1	4	1	3	3	4	1	2	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr17:43192475G>T	uc002iib.2	-	11	1812	c.1698C>A	c.(1696-1698)CTC>CTA	p.L566L		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	566	PI-PLC Y-box.				intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	CCTCCCGAATGAGTTTCTTGG	0.652													4	3					3.59834e-05	3.92029e-05	0.001168	1	0		T	43192475	T	T	43192475	2	4	112	1	0	0	0	0	0	0	0	1	12051	1294	45	5		5	PLCD3	17	43192475	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	6697163	43192475	38002735	137	65489											
NUP85	79902	broad.mit.edu	37	chr17	73227457	73227457	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgccctgagcaactggtggTttgtggcccacctgacagac	7	9	12	13	1	0	3	0	2	0	1	1	3	0	3	3	3	2	2	3	3	1	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr17:73227457T>C	uc002jng.1	+	12	1377	c.1117T>C	c.(1117-1119)TTT>CTT	p.F373L	NUP85_uc010dgd.1_Missense_Mutation_p.F328L|NUP85_uc010wrv.1_Missense_Mutation_p.F327L|NUP85_uc002jnh.1_5'UTR	NM_024844	NP_079120	Q9BW27	NUP85_HUMAN	nucleoporin 85	373					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|nuclear membrane|Nup107-160 complex|spindle	protein binding			ovary(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		all cancers(21;3.45e-06)			CAACTGGTGGTTTGTGGCCCA	0.572													48	41					0	0	0.01441	0	0		C	73227457	C	C	73227457	3	2	112	1	0	0	0	0	1	0	0	0	10789	1725	60	3	1163	3	NUP85	17	73227457	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	30034982	73227457	7967753	138	65490											
UNC13D	201294	broad.mit.edu	37	chr17	73838569	73838569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtgatgacctgcgtgcGgtgggtctcctcctcgggga	3	10	17	11	3	1	2	0	2	1	0	4	3	2	3	3	5	2	0	3	5	0	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr17:73838569G>A	uc002jpp.2	-	6	894	c.514C>T	c.(514-516)CGC>TGC	p.R172C	UNC13D_uc010wsk.1_Missense_Mutation_p.R172C|UNC13D_uc002jpq.1_5'UTR|UNC13D_uc010dgq.1_5'UTR	NM_199242	NP_954712	Q70J99	UN13D_HUMAN	unc-13 homolog D	172	C2 1.				positive regulation of exocytosis|regulation of mast cell degranulation	exocytic vesicle|late endosome|lysosome|membrane|recycling endosome	protein binding			upper_aerodigestive_tract(1)|skin(1)	2			all cancers(21;2.11e-06)|Epithelial(20;2.32e-06)|BRCA - Breast invasive adenocarcinoma(9;0.000618)|LUSC - Lung squamous cell carcinoma(166;0.154)			ACCTGCGTGCGGTGGGTCTCC	0.657									Familial_Hemophagocytic_Lymphohistiocytosis				9	44					0	0	0.006214	0	0		A	73838569	A	A	73838569	3	1	112	1	0	0	0	0	1	0	0	0	17013	1116	39	1	2866	1	UNC13D	17	73838569	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	611112	73838569	7356641	139	65491											
CYTH1	9267	broad.mit.edu	37	chr17	76677070	76677070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cactggttttttggagtcctCcacttcccggatactcagat	7	14	8	12	1	1	1	1	0	0	1	4	3	4	3	3	3	1	1	3	3	1	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr17:76677070C>T	uc002jvw.2	-	11	1014	c.943G>A	c.(943-945)GAG>AAG	p.E315K	CYTH1_uc010wtv.1_RNA	NM_017456	NP_059430	Q15438	CYH1_HUMAN	cytohesin 1 isoform 2	316	PH.				regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						TTGGAGTCCTCCACTTCCCGG	0.393													48	63					0	0	0.01441	0	0		T	76677070	T	T	76677070	3	4	112	1	0	0	0	0	1	0	0	0	4206	864	30	4	262	4	CYTH1	17	76677070	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	2838501	76677070	4518140	140	65492											
CSNK1D	1453	broad.mit.edu	37	chr17	80209374	80209374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtcaaaacgcaaggaacGgcagaaattcaggtatgtgg	14	7	13	7	3	2	1	2	0	0	1	3	2	2	2	0	4	2	3	0	4	6	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr17:80209374G>A	uc002kej.2	-	6	1082	c.766C>T	c.(766-768)CGT>TGT	p.R256C	SLC16A3_uc002kee.2_Intron|CSNK1D_uc002kef.2_Missense_Mutation_p.R256C|CSNK1D_uc002kei.2_Missense_Mutation_p.R256C|CSNK1D_uc010wvj.1_Missense_Mutation_p.R53C|CSNK1D_uc010dil.2_RNA|CSNK1D_uc002keh.2_Missense_Mutation_p.R121C|CSNK1D_uc010dim.1_Missense_Mutation_p.R53C	NM_001893	NP_001884	P48730	KC1D_HUMAN	casein kinase 1, delta isoform 1	256	Protein kinase.				circadian regulation of gene expression|DNA repair|G2/M transition of mitotic cell cycle|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|regulation of circadian rhythm|Wnt receptor signaling pathway	centrosome|cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			breast(2)	2	Breast(20;0.00136)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.227)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0155)			CGCAAGGAACGGCAGAAATTC	0.498													9	13					0	0	0.004482	0	0		A	80209374	A	A	80209374	3	1	112	1	0	0	0	0	1	0	0	0	3955	1116	39	1	534	1	CSNK1D	17	80209374	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	3532304	80209374	985836	141	65493											
ZNF750	79755	broad.mit.edu	37	chr17	80789023	80789023	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgcgctggaggctgcCttgttggagaggtcgtacag	6	9	16	10	2	0	1	0	0	0	1	1	3	0	2	2	4	3	4	2	4	1	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr17:80789023C>T	uc002kga.2	-	2	1619	c.1308G>A	c.(1306-1308)AAG>AAA	p.K436K	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	436						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			TGGAGGCTGCCTTGTTGGAGA	0.632													25	41					0	0	0.016522	0	0		T	80789023	T	T	80789023	2	4	112	1	0	0	0	0	0	0	0	1	18157	680	24	4		4	ZNF750	17	80789023	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08	579649	80789023	406187	142	65494											
POTEC	388468	broad.mit.edu	37	chr18	14542980	14542980	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccatcttgctcctgagcaTcttcataaaggagtcgtcgt	8	12	9	12	2	3	1	1	1	2	0	6	2	4	2	2	1	2	2	2	1	2	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr18:14542980T>C	uc010dln.2	-	1	620	c.166A>G	c.(166-168)ATG>GTG	p.M56V	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	56										skin(3)	3						CTCCTGAGCATCTTCATAAAG	0.587													25	340					0	0	0.005443	0	0		C	14542980	C	C	14542980	3	2	112	1	0	0	0	0	1	0	0	0	12281	1435	50	3	1506	3	POTEC	18	14542980	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08		14542980	63534268	143	65495											
LAMA3	3909	broad.mit.edu	37	chr18	21422634	21422634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgggatcaagtgattgccGaaggccagattgagtttgac	10	9	14	8	2	1	4	1	3	0	1	1	6	1	5	3	2	1	1	3	2	2	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr18:21422634G>A	uc002kuq.2	+	29	3609	c.3523G>A	c.(3523-3525)GAA>AAA	p.E1175K	LAMA3_uc002kur.2_Missense_Mutation_p.E1175K	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1175	Domain IV 1 (domain IV B).				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGTGATTGCCGAAGGCCAGAT	0.537													29	48					0	0	0.00632	0	0		A	21422634	A	A	21422634	3	1	112	1	0	0	0	0	1	0	0	0	8623	1059	37	1	3637	1	LAMA3	18	21422634	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	6879654	21422634	56654614	144	65496											
TCEB3B	51224	broad.mit.edu	37	chr18	44561290	44561290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctcctgggggccgtcgCgttttctgggaagccccagg	3	9	17	12	3	1	0	0	0	1	0	3	1	2	1	4	5	1	2	4	5	1	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr18:44561290C>T	uc002lcr.1	-	1	699	c.346G>A	c.(346-348)GCG>ACG	p.A116T	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	116					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GGGGCCGTCGCGTTTTCTGGG	0.662													20	62					0	0	0.010504	0	0		T	44561290	T	T	44561290	3	4	112	1	0	0	0	0	1	0	0	0	15707	768	27	1	1919	1	TCEB3B	18	44561290	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	23138656	44561290	33515958	145	65497											
GTF2F1	2962	broad.mit.edu	37	chr19	6380962	6380963	+	Frame_Shift_Del	DEL	CC	-	-																															gcagggtggaggaggtgctgCcaccctctgcgctgggcgtg																										TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr19:6380962_6380963delCC	uc002meq.2	-	11	1468_1469	c.1183_1184delGG	c.(1183-1185)GGCfs	p.G395fs	GTF2F1_uc010xjb.1_Frame_Shift_Del_p.G216fs|GTF2F1_uc010xjc.1_Frame_Shift_Del_p.G310fs	NM_002096	NP_002087	P35269	T2FA_HUMAN	general transcription factor IIF, polypeptide 1,	395					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|response to virus|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cell junction|transcription factor TFIIF complex	catalytic activity|DNA binding|phosphatase activator activity|transcription coactivator activity|transcription factor binding				0						GGAGGTGCTGCCACCCTCTGCG	0.683													2	4	---	---	---	---						.	-	6380963	-	-	6380962	7	5	112	1	0	1	0	1	0	0	0	0	6874	739	26	0	381	0	GTF2F1	19	6380962	Frame_Shift_Del	DEL	CC	TCGA-CD-8524-01A-11D-2340-08		6380962	52748021	146	65498											
ACTL9	284382	broad.mit.edu	37	chr19	8808509	8808509	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcgtagacagacagcacCgactgcgatgccacgtacat	11	6	12	12	4	0	2	0	0	0	2	0	4	0	2	2	1	4	3	2	1	2	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr19:8808509C>T	uc002mkl.2	-	1	664	c.543G>A	c.(541-543)TCG>TCA	p.S181S		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	181						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						CAGACAGCACCGACTGCGATG	0.657													10	46					0	0	0.008291	0	0		T	8808509	T	T	8808509	2	4	112	1	0	0	0	0	0	0	0	1	203	639	23	1		1	ACTL9	19	8808509	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08	2427547	8808509	50320474	147	65499											
MUC16	94025	broad.mit.edu	37	chr19	9015690	9015690	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatgcatgtcctcctcgtaCttcaggttggtgatggtgaa	8	13	11	9	1	1	2	1	2	0	0	4	2	3	2	2	3	2	3	2	3	3	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr19:9015690C>T	uc002mkp.2	-	29	38337	c.38133G>A	c.(38131-38133)AAG>AAA	p.K12711K	MUC16_uc010xki.1_5'Flank	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCTCCTCGTACTTCAGGTTGG	0.517													17	33					0	0	0.00499	0	0		T	9015690	T	T	9015690	2	4	112	1	0	0	0	0	0	0	0	1	9991	564	20	4		4	MUC16	19	9015690	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08	207181	9015690	50113293	148	65500											
PRX	57716	broad.mit.edu	37	chr19	40900469	40900469	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgctcggcccctgggggctGctcctcagcaccctcgcccc	3	6	11	21	3	1	0	1	0	0	0	4	0	2	0	6	3	2	4	6	3	0	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr19:40900469G>T	uc002onr.2	-	7	4059	c.3790C>A	c.(3790-3792)CAG>AAG	p.Q1264K	PRX_uc002onq.2_Missense_Mutation_p.Q1125K|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	1264					axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCTGGGGGCTGCTCCTCAGCA	0.711													8	7					3.09899e-07	3.50541e-07	0.004482	1	0		T	40900469	T	T	40900469	3	4	112	1	0	0	0	0	1	0	0	0	12664	1328	46	5	599	5	PRX	19	40900469	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	31884779	40900469	18228514	149	65501											
ZNF284	342909	broad.mit.edu	37	chr19	44590963	44590963	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtaagtttaatcttgacttGcaccagagggtccacacggg	11	10	11	9	1	1	2	0	1	1	1	2	2	2	2	2	2	1	3	2	2	2	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr19:44590963G>T	uc002oyg.1	+	5	1548	c.1332G>T	c.(1330-1332)TTG>TTT	p.L444F	ZNF284_uc010ejd.2_RNA	NM_001037813	NP_001032902	Q2VY69	ZN284_HUMAN	zinc finger protein 284	444	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				ATCTTGACTTGCACCAGAGGG	0.433													45	70					1.02687e-29	1.20773e-29	0.013114	1	0		T	44590963	T	T	44590963	3	4	112	1	0	0	0	0	1	0	0	0	17846	1310	46	5	1346	5	ZNF284	19	44590963	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	3690494	44590963	14538020	150	65502											
ZNF613	79898	broad.mit.edu	37	chr19	52448840	52448840	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatacaggataaagactcTgttaacatggtgactctgca	13	11	8	9	0	3	2	1	1	2	1	3	3	3	3	0	2	3	2	0	2	4	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr19:52448840T>G	uc002pxz.1	+	6	2127	c.1704T>G	c.(1702-1704)TCT>TCG	p.S568S	ZNF613_uc002pya.1_Silent_p.S532S	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	568					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		ATAAAGACTCTGTTAACATGG	0.443													4	45					0	0	0.009096	0	0		G	52448840	G	G	52448840	2	3	112	1	0	0	0	0	0	0	0	1	18063	1567	55	5		5	ZNF613	19	52448840	Silent	SNP	T	TCGA-CD-8524-01A-11D-2340-08	7857877	52448840	6680143	151	65503											
TTYH1	57348	broad.mit.edu	37	chr19	54930476	54930476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcattgtcgcccttctcgccGgctggtaatggggccccagg	4	9	14	14	3	1	0	0	0	1	0	3	0	1	0	4	5	0	3	4	5	1	3			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr19:54930476G>A	uc002qfq.2	+	2	393	c.301G>A	c.(301-303)GGC>AGC	p.G101S	TTYH1_uc010yey.1_Missense_Mutation_p.G150S|TTYH1_uc002qfr.2_Missense_Mutation_p.G101S|TTYH1_uc002qft.2_Missense_Mutation_p.G101S|TTYH1_uc002qfu.1_5'UTR	NM_020659	NP_065710	Q9H313	TTYH1_HUMAN	tweety 1 isoform 1	101	Helical; Name=2; (Potential).				cell adhesion	chloride channel complex|plasma membrane	chloride channel activity|iron ion transmembrane transporter activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0767)		CCTTCTCGCCGGCTGGTAATG	0.716													14	11					0	0	0.003163	0	0		A	54930476	A	A	54930476	3	1	112	1	0	0	0	0	1	0	0	0	16765	1116	39	1	307	1	TTYH1	19	54930476	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	2481636	54930476	4198507	152	65504											
SBK2	646643	broad.mit.edu	37	chr19	56041244	56041244	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcccccgcagaagcgcGtcggccgcggcggccaggcc	6	1	16	18	7	0	1	0	0	0	1	1	1	0	1	5	4	3	2	5	4	1	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr19:56041244G>A	uc010ygc.1	-	3	903	c.903C>T	c.(901-903)GAC>GAT	p.D301D		NM_001101401	NP_001094871	P0C263	SBK2_HUMAN	SH3-binding domain kinase family, member 2	301	Protein kinase.						ATP binding|protein serine/threonine kinase activity				0						GCAGAAGCGCGTCGGCCGCGG	0.746													8	9					0	0	0.004482	0	0		A	56041244	A	A	56041244	2	1	112	1	0	0	0	0	0	0	0	1	13886	1136	40	1		1	SBK2	19	56041244	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08	1110768	56041244	3087739	153	65505											
ZNF446	55663	broad.mit.edu	37	chr19	58989053	58989053	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccctgcagcccagaagaCagaggaaccacttgggagcc	11	4	12	14	0	0	3	0	0	0	3	1	5	1	5	4	2	4	2	4	2	2	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr19:58989053C>G	uc002qsz.2	+	3	509	c.392C>G	c.(391-393)ACA>AGA	p.T131R	ZNF446_uc002qta.2_Missense_Mutation_p.T131R|ZNF446_uc010eur.2_Missense_Mutation_p.T131R	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	131					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		GCCCAGAAGACAGAGGAACCA	0.607													30	32					0	0	0.008361	0	0		G	58989053	G	G	58989053	3	3	112	1	0	0	0	0	1	0	0	0	17944	478	17	5	398	5	ZNF446	19	58989053	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	2947809	58989053	139930	154	65506											
NEURL2	140825	broad.mit.edu	37	chr20	44519149	44519149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agagccctggccggctgcggCccaccaggcggtcccgggga	5	3	17	16	4	0	1	0	0	0	1	1	2	1	2	5	7	2	1	5	7	0	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr20:44519149C>T	uc002xqg.1	-	1	753	c.482G>A	c.(481-483)GGC>GAC	p.G161D	C20orf165_uc002xqf.2_5'Flank|CTSA_uc002xqh.2_5'Flank|CTSA_uc002xqj.3_5'Flank|CTSA_uc002xqi.2_5'Flank|CTSA_uc010zxi.1_5'Flank|CTSA_uc002xqk.3_5'Flank	NM_080749	NP_542787	Q9BR09	NEUL2_HUMAN	neuralized-like protein 2	161	NHR.				intracellular signal transduction						0		Myeloproliferative disorder(115;0.0122)				CCGGCTGCGGCCCACCAGGCG	0.672													14	60					0	0	0.020292	0	0		T	44519149	T	T	44519149	3	4	112	1	0	0	0	0	1	0	0	0	10365	739	26	2	383	2	NEURL2	20	44519149	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08		44519149	18506371	155	65507											
ZBTB46	140685	broad.mit.edu	37	chr20	62421650	62421650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccgagatgagagcttccGtgctgctgctggacgaggcg	6	7	17	11	5	0	2	0	1	0	2	1	6	1	3	2	3	4	4	2	3	0	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr20:62421650G>A	uc002ygv.1	-	2	662	c.461C>T	c.(460-462)ACG>ATG	p.T154M	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	154					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					GAGAGCTTCCGTGCTGCTGCT	0.632													7	34					0	0	0.001984	0	0		A	62421650	A	A	62421650	3	1	112	1	0	0	0	0	1	0	0	0	17572	1145	40	1	1324	1	ZBTB46	20	62421650	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	17902501	62421650	603870	156	65508											
OLIG2	10215	broad.mit.edu	37	chr21	34399314	34399314	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccccgagtgactgcccGccggagctgagcgccgagct	6	5	13	17	5	0	2	0	2	0	0	1	5	1	3	6	1	4	2	6	1	0	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr21:34399314G>A	uc002yqx.1	+	2	302	c.144G>A	c.(142-144)CCG>CCA	p.P48P		NM_005806	NP_005797	Q13516	OLIG2_HUMAN	oligodendrocyte lineage transcription factor 2	48						cytoplasm|nucleus|plasma membrane	DNA binding			central_nervous_system(2)	2						GTGACTGCCCGCCGGAGCTGA	0.682			T	TRA@	T-ALL								6	13					0	0	0.001168	0	0		A	34399314	A	A	34399314	2	1	112	1	0	0	0	0	0	0	0	1	10880	1074	38	1		1	OLIG2	21	34399314	Silent	SNP	G	TCGA-CD-8524-01A-11D-2340-08		34399314	13730581	157	65509											
SMARCB1	6598	broad.mit.edu	37	chr22	24135750	24135750	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgtctgttacagatcaCggatacacgactctagccac	10	12	8	11	2	3	1	1	0	2	1	3	3	3	2	1	1	3	2	1	1	3	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr22:24135750C>T	uc002zyb.2	+	3	444	c.237C>T	c.(235-237)CAC>CAT	p.H79H	SMARCB1_uc002zyg.2_Silent_p.H79H|SMARCB1_uc011ajb.1_Silent_p.H70H|SMARCB1_uc002zya.2_Silent_p.H79H|SMARCB1_uc002zyc.2_Silent_p.H70H|SMARCB1_uc002zyd.2_Silent_p.H70H|SMARCB1_uc002zye.1_Silent_p.H42H|SMARCB1_uc002zyf.1_RNA|SMARCB1_uc010gue.1_Intron	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	79					cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.?(2)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				TTACAGATCACGGATACACGA	0.537			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				9	104					0	0	0.004482	0	0		T	24135750	T	T	24135750	2	4	112	1	0	0	0	0	0	0	0	1	14799	535	19	1		1	SMARCB1	22	24135750	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08		24135750	27168816	158	65510											
ELFN2	114794	broad.mit.edu	37	chr22	37770469	37770469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggcaggtgtggttgaagCggcggctgttgcgcagcgag	6	8	19	8	4	1	1	1	1	0	0	1	2	1	1	0	5	3	5	0	5	1	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chr22:37770469C>T	uc003asq.3	-	3	1892	c.1106G>A	c.(1105-1107)CGC>CAC	p.R369H		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	369	Fibronectin type-III.|Extracellular (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					GTGGTTGAAGCGGCGGCTGTT	0.617													5	50					0	0	0.001168	0	0		T	37770469	T	T	37770469	3	4	112	1	0	0	0	0	1	0	0	0	5066	768	27	1	1360	1	ELFN2	22	37770469	Missense_Mutation	SNP	C	TCGA-CD-8524-01A-11D-2340-08	13634719	37770469	13534097	159	65511											
SHROOM2	357	broad.mit.edu	37	chrX	9864517	9864517	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagcctcaacgctcacagcGcagcggagaaggcagggact	12	3	13	13	3	2	1	2	0	0	1	2	3	2	2	1	3	4	3	1	3	2	0			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chrX:9864517G>A	uc004csu.1	+	4	2659	c.2569G>A	c.(2569-2571)GCA>ACA	p.A857T		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	857					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				CGCTCACAGCGCAGCGGAGAA	0.652													5	20					0	0	0.001168	0	0		A	9864517	A	A	9864517	3	1	112	1	0	0	0	0	1	0	0	0	14319	1087	38	1	2583	1	SHROOM2	23	9864517	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08		9864517	145406043	160	65512											
PHEX	5251	broad.mit.edu	37	chrX	22244602	22244602	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaaaatattgctgataatGgaggcctgcgggaagctttt	12	11	13	5	1	0	2	0	1	0	1	0	5	0	4	1	3	3	2	1	3	5	5			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chrX:22244602G>T	uc004dah.2	+	19	2145	c.1942G>T	c.(1942-1944)GGA>TGA	p.G648*	PHEX_uc011mjr.1_Nonsense_Mutation_p.G648*|PHEX_uc011mjs.1_Nonsense_Mutation_p.G551*	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	648					biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						TGCTGATAATGGAGGCCTGCG	0.418													8	60					2.74318e-10	3.13723e-10	0.006214	1	0		T	22244602	T	T	22244602	4	4	112	1	0	0	0	0	0	1	0	0	11838	1349	47	5	2016	5	PHEX	23	22244602	Nonsense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	12380085	22244602	133025958	161	65513											
DMD	1756	broad.mit.edu	37	chrX	32490330	32490330	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcatagtcggtgacactaAgttgaggtatggagagtttg	10	14	13	4	1	1	3	1	2	0	1	2	4	1	3	0	3	0	3	0	3	3	6			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chrX:32490330A>C	uc004dda.1	-	22	3144	c.2900T>G	c.(2899-2901)CTT>CGT	p.L967R	DMD_uc004dcz.2_Missense_Mutation_p.L844R|DMD_uc004dcy.1_Missense_Mutation_p.L963R|DMD_uc004ddb.1_Missense_Mutation_p.L959R|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	967	Spectrin 6.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GGTGACACTAAGTTGAGGTAT	0.443													18	54					0	0	0.008871	0	0		C	32490330	C	C	32490330	3	2	112	1	0	0	0	0	1	0	0	0	4586	72	3	5	8632	5	DMD	23	32490330	Missense_Mutation	SNP	A	TCGA-CD-8524-01A-11D-2340-08	10245728	32490330	122780230	162	65514											
ATRX	546	broad.mit.edu	37	chrX	76939922	76939922	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgttacatgcagtgaccaAgtccaacaaaggctctgggt	11	9	11	10	0	1	1	0	1	1	0	2	1	2	1	2	2	3	4	2	2	4	1			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chrX:76939922A>C	uc004ecp.3	-	9	1058	c.826T>G	c.(826-828)TTG>GTG	p.L276V	ATRX_uc004ecq.3_Missense_Mutation_p.L238V|ATRX_uc004eco.3_Missense_Mutation_p.L61V|ATRX_uc004ecr.2_Missense_Mutation_p.L237V|ATRX_uc010nlx.1_Missense_Mutation_p.L276V|ATRX_uc010nly.1_Missense_Mutation_p.L221V	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	276	ADD.				DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	GCAGTGACCAAGTCCAACAAA	0.373			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						63	86					0	0	0.01441	0	0		C	76939922	C	C	76939922	3	2	112	1	0	0	0	0	1	0	0	0	1209	69	3	5	6760	5	ATRX	23	76939922	Missense_Mutation	SNP	A	TCGA-CD-8524-01A-11D-2340-08	44449592	76939922	78330638	163	65515											
TRPC5	7224	broad.mit.edu	37	chrX	111195328	111195328	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctccacagcgcccaccacTtccttgcgtatggcatagag	9	8	9	15	2	0	1	0	0	0	1	2	1	2	1	4	1	3	3	4	1	2	4			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chrX:111195328T>G	uc004epl.1	-	2	1240	c.321A>C	c.(319-321)GAA>GAC	p.E107D	TRPC5_uc004epm.1_Missense_Mutation_p.E107D	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	107	ANK 3.|Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						CGCCCACCACTTCCTTGCGTA	0.532													18	73					0	0	0.007413	0	0		G	111195328	G	G	111195328	3	3	112	1	0	0	0	0	1	0	0	0	16608	1606	56	5	2640	5	TRPC5	23	111195328	Missense_Mutation	SNP	T	TCGA-CD-8524-01A-11D-2340-08	34255406	111195328	44075232	164	65516											
CT47B1	643311	broad.mit.edu	37	chrX	120008778	120008778	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccacggcctcctctgaggtCggttcctctgcggccggttc	2	10	13	16	4	2	1	0	1	2	0	6	1	4	1	5	5	1	2	5	5	0	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chrX:120008778C>T	uc011muc.1	-	1	1002	c.747G>A	c.(745-747)CCG>CCA	p.P249P		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	249											0						CCTCTGAGGTCGGTTCCTCTG	0.552													45	71					0	0	0.01441	0	0		T	120008778	T	T	120008778	2	4	112	1	0	0	0	0	0	0	0	1	3992	871	31	1		1	CT47B1	23	120008778	Silent	SNP	C	TCGA-CD-8524-01A-11D-2340-08	8813450	120008778	35261782	165	65517											
ODZ1	10178	broad.mit.edu	37	chrX	124030034	124030034	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccatgccgagaaacgctgtGcatgtctgtttggtagccag	8	10	13	10	2	1	1	0	0	1	1	1	2	1	1	3	1	4	4	3	1	2	2			TCGA-CD-8524-01A-11D-2340-08	TCGA-CD-8524-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	e14ace57-4067-4f59-8bec-b9876d7d51e4	491cdfeb-f845-481d-8d6a-962773c82b69	g.chrX:124030034G>T	uc004euj.2	-	2	338	c.274C>A	c.(274-276)CAC>AAC	p.H92N	ODZ1_uc011muj.1_Missense_Mutation_p.H92N|ODZ1_uc010nqy.2_Missense_Mutation_p.H92N	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	92	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GAAACGCTGTGCATGTCTGTT	0.468													25	106					6.32553e-13	7.35609e-13	0.004656	1	0		T	124030034	T	T	124030034	3	4	112	1	0	0	0	0	1	0	0	0	10853	1319	46	5	8048	5	ODZ1	23	124030034	Missense_Mutation	SNP	G	TCGA-CD-8524-01A-11D-2340-08	4021256	124030034	31240526	166	65518											
GPATCH3	63906	broad.mit.edu	37	chr1	27223851	27223851	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcctcaggctctccacAggggctggctggtatatctg	5	13	11	12	0	4	0	1	0	3	0	6	0	5	0	2	5	0	4	2	5	2	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr1:27223851A>G	uc001bne.2	-	2	846	c.817T>C	c.(817-819)TGT>CGT	p.C273R	GPATCH3_uc009vsp.1_Missense_Mutation_p.C84R	NM_022078	NP_071361	Q96I76	GPTC3_HUMAN	G patch domain containing 3	273	Glu-rich.					intracellular	nucleic acid binding				0		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.97e-51)|OV - Ovarian serous cystadenocarcinoma(117;9.55e-30)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|STAD - Stomach adenocarcinoma(196;0.000595)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|READ - Rectum adenocarcinoma(331;0.0419)		GGCTCTCCACAGGGGCTGGCT	0.527													17	119					0	0	1	0	0		G	27223851	G	G	27223851	3	3	113	1	0	0	0	0	1	0	0	0	6607	188	7	3	784	3	GPATCH3	1	27223851	Missense_Mutation	SNP	A	TCGA-CD-8525-01A-11D-2340-08		27223851	222026770	1	65519											
ERI3	79033	broad.mit.edu	37	chr1	44785405	44785405	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttagctttaggatggggaaCtcgatgatttcctggagtgc	8	14	13	6	1	0	1	0	1	0	0	2	5	1	4	1	4	3	1	1	4	3	5			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr1:44785405C>T	uc001clt.2	-	4	742	c.501G>A	c.(499-501)GAG>GAA	p.E167E	ERI3_uc010okv.1_5'UTR|ERI3_uc009vxg.2_Silent_p.E167E|ERI3_uc010okw.1_Silent_p.E89E|ERI3_uc001clu.2_Silent_p.E89E	NM_024066	NP_076971	O43414	ERI3_HUMAN	prion protein interacting protein	167	Exonuclease.					intracellular	exonuclease activity|metal ion binding|nucleic acid binding			ovary(2)|large_intestine(1)	3						GGATGGGGAACTCGATGATTT	0.423													5	64					0	0	1	0	0		T	44785405	T	T	44785405	2	4	113	1	0	0	0	0	0	0	0	1	5237	564	20	4		4	ERI3	1	44785405	Silent	SNP	C	TCGA-CD-8525-01A-11D-2340-08	17561554	44785405	204465216	2	65520											
SPATA1	64173	broad.mit.edu	37	chr1	84991560	84991560	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattatatttgcttcctgtAatggaccatttaggaaatgt	12	16	8	5	0	0	0	0	0	0	0	1	3	1	2	2	2	1	2	2	2	6	7			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr1:84991560A>G	uc001djz.1	+	6	613	c.414A>G	c.(412-414)GTA>GTG	p.V138V	SPATA1_uc001djx.2_Silent_p.V138V|SPATA1_uc001djy.1_RNA	NM_001081472	NP_001074941			spermatogenesis associated 1											central_nervous_system(1)	1				Epithelial(280;4.36e-10)|all cancers(265;7.1e-09)|BRCA - Breast invasive adenocarcinoma(282;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(397;0.00286)|KIRC - Kidney renal clear cell carcinoma(1967;0.0111)		TGCTTCCTGTAATGGACCATT	0.333													6	33					0	0	1	0	0		G	84991560	G	G	84991560	2	3	113	1	0	0	0	0	0	0	0	1	15023	349	13	3		3	SPATA1	1	84991560	Silent	SNP	A	TCGA-CD-8525-01A-11D-2340-08	40206155	84991560	164259061	3	65521											
ADAM30	11085	broad.mit.edu	37	chr1	120438121	120438121	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcatttaatacactttttTtatatattacaaatctgcct	13	18	3	7	0	1	0	0	0	1	0	1	1	1	0	1	0	4	1	1	0	7	10			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr1:120438121T>A	uc001eij.2	-	1	993	c.839A>T	c.(838-840)AAA>ATA	p.K280I		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	280	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		TACACTTTTTTTATATATTAC	0.343													12	52					0	0	1	0	0		A	120438121	A	A	120438121	3	1	113	1	0	0	0	0	1	0	0	0	248	1841	64	5	1537	5	ADAM30	1	120438121	Missense_Mutation	SNP	T	TCGA-CD-8525-01A-11D-2340-08	35446561	120438121	128812500	4	65522											
RC3H1	149041	broad.mit.edu	37	chr1	173931083	173931083	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggtatataggtgggtacTgctgtggctgtgtgccatac	7	13	15	6	0	0	0	0	0	0	0	0	0	0	0	1	4	4	4	1	4	5	5			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr1:173931083T>C	uc001gju.3	-	11	2069	c.1982A>G	c.(1981-1983)CAG>CGG	p.Q661R	RC3H1_uc010pms.1_Missense_Mutation_p.Q661R|RC3H1_uc001gjv.2_Missense_Mutation_p.Q661R|RC3H1_uc010pmt.1_Missense_Mutation_p.Q661R	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	661	Pro-rich.				cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						AGGTGGGTACTGCTGTGGCTG	0.498													48	122					0	0	1	0	0		C	173931083	C	C	173931083	3	2	113	1	0	0	0	0	1	0	0	0	13191	1580	55	3	1455	3	RC3H1	1	173931083	Missense_Mutation	SNP	T	TCGA-CD-8525-01A-11D-2340-08	53492962	173931083	75319538	5	65523											
ACTN2	88	broad.mit.edu	37	chr1	236902782	236902782	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacgctgcagaccaagctgCggatcagcaaccgtcctgcc	10	5	10	16	3	1	1	1	0	0	1	2	2	2	2	4	1	6	4	4	1	2	0	rs1150181		TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr1:236902782C>T	uc001hyf.2	+	10	1261	c.1057C>T	c.(1057-1059)CGG>TGG	p.R353W	ACTN2_uc001hyg.2_Missense_Mutation_p.R145W|ACTN2_uc009xgi.1_Missense_Mutation_p.R353W|ACTN2_uc010pxu.1_Intron|ACTN2_uc001hyh.2_Missense_Mutation_p.R41W	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	353	Spectrin 1.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GACCAAGCTGCGGATCAGCAA	0.612													7	42					0	0	1	0	0		T	236902782	T	T	236902782	3	4	113	1	0	0	0	0	1	0	0	0	205	759	27	1	1095	1	ACTN2	1	236902782	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	62971699	236902782	12347839	6	65524											
OR2L8	391190	broad.mit.edu	37	chr1	248112505	248112505	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagcactacttttggcaTctatggcctatgatcgttac	10	13	8	10	1	1	2	0	1	1	1	2	2	1	2	1	2	3	3	1	2	5	6			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr1:248112505T>G	uc001idt.1	+	1	346	c.346T>G	c.(346-348)TCT>GCT	p.S116A	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			ACTTTTGGCATCTATGGCCTA	0.438													30	228					0	0	1	0	0		G	248112505	G	G	248112505	3	3	113	1	0	0	0	0	1	0	0	0	11028	1435	50	5	348	5	OR2L8	1	248112505	Missense_Mutation	SNP	T	TCGA-CD-8525-01A-11D-2340-08	11209723	248112505	1138116	7	65525											
OR2M4	26245	broad.mit.edu	37	chr1	248402353	248402353	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctcactggcattgatggaAaatatttccatggttctcct	9	16	7	9	0	2	1	1	1	2	0	5	2	3	2	2	3	0	2	2	3	3	5			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr1:248402353A>C	uc010pzh.1	+	1	123	c.123A>C	c.(121-123)GAA>GAC	p.E41D		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	41	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CATTGATGGAAAATATTTCCA	0.473													20	138					0	0	1	0	0		C	248402353	C	C	248402353	3	2	113	1	0	0	0	0	1	0	0	0	11031	11	1	5	125	5	OR2M4	1	248402353	Missense_Mutation	SNP	A	TCGA-CD-8525-01A-11D-2340-08	289848	248402353	848268	8	65526											
PXDN	7837	broad.mit.edu	37	chr2	1677555	1677555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtccagcaagtttaggCgggaatctgtcttcatgctc	8	12	10	11	2	3	0	1	0	2	0	6	1	4	1	1	2	2	3	1	2	3	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr2:1677555C>T	uc002qxa.2	-	9	942	c.878G>A	c.(877-879)CGC>CAC	p.R293H	PXDN_uc002qxb.1_Missense_Mutation_p.R293H|PXDN_uc002qxc.1_Missense_Mutation_p.R110H	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	293	Ig-like C2-type 1.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CAAGTTTAGGCGGGAATCTGT	0.507													22	77					0	0	1	0	0		T	1677555	T	T	1677555	3	4	113	1	0	0	0	0	1	0	0	0	12872	768	27	1	3621	1	PXDN	2	1677555	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08		1677555	241521818	9	65527											
WDR35	57539	broad.mit.edu	37	chr2	20113327	20113327	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatcattcctttatcccaCtggactatggcataaggggc	9	14	8	10	0	1	0	1	0	0	0	3	1	3	1	2	4	0	1	2	4	4	7			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr2:20113327C>T	uc002rdi.2	-	28	3646	c.3538G>A	c.(3538-3540)GTG>ATG	p.V1180M	WDR35_uc002rdj.2_Missense_Mutation_p.V1169M|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_3'UTR	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	1180										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTTATCCCACTGGACTATGG	0.368													15	94					0	0	1	0	0		T	20113327	T	T	20113327	3	4	113	1	0	0	0	0	1	0	0	0	17315	565	20	4	11	4	WDR35	2	20113327	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	18435772	20113327	223086046	10	65528											
BAZ2B	29994	broad.mit.edu	37	chr2	160303427	160303427	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagcagtagtggatagtaCagatgtgttgataccaatta	14	12	11	4	0	0	3	0	2	0	1	0	4	0	4	1	1	3	4	1	1	7	6			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr2:160303427C>G	uc002uao.2	-	6	914	c.562G>C	c.(562-564)GTA>CTA	p.V188L	BAZ2B_uc002uap.2_Missense_Mutation_p.V186L|BAZ2B_uc002uas.1_Missense_Mutation_p.V125L|BAZ2B_uc002uau.1_Missense_Mutation_p.V186L|BAZ2B_uc002uaq.1_Missense_Mutation_p.V116L|BAZ2B_uc002uat.3_Missense_Mutation_p.V125L|BAZ2B_uc010fop.1_Missense_Mutation_p.V186L	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	188	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						GTGGATAGTACAGATGTGTTG	0.318													11	104					0	0	1	0	0		G	160303427	G	G	160303427	3	3	113	1	0	0	0	0	1	0	0	0	1333	478	17	5	6072	5	BAZ2B	2	160303427	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	140190100	160303427	82895946	11	65529											
XIRP2	129446	broad.mit.edu	37	chr2	168105100	168105100	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcaacaatattcccaaaaaGaagcctcgaactctcagaat	17	8	5	11	1	1	2	1	0	1	2	4	3	2	2	2	0	4	1	2	0	8	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr2:168105100G>C	uc002udx.2	+	8	7216	c.7198G>C	c.(7198-7200)GAA>CAA	p.E2400Q	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E2225Q|XIRP2_uc010fpq.2_Missense_Mutation_p.E2178Q|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2225					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TTCCCAAAAAGAAGCCTCGAA	0.473													9	69					0	0	1	0	0		C	168105100	C	C	168105100	3	2	113	1	0	0	0	0	1	0	0	0	17456	943	33	5	7228	5	XIRP2	2	168105100	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	7801673	168105100	75094273	12	65530											
TTN	7273	broad.mit.edu	37	chr2	179407078	179407078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agccacacggaacacatactCatttccttcggtgagtctgg	10	10	9	12	2	2	1	1	1	1	0	4	2	3	2	2	3	3	0	2	3	2	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr2:179407078C>T	uc010zfg.1	-	298	89925	c.89701G>A	c.(89701-89703)GAG>AAG	p.E29901K	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E23596K|TTN_uc010zfi.1_Missense_Mutation_p.E23529K|TTN_uc010zfj.1_Missense_Mutation_p.E23404K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30828							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AACACATACTCATTTCCTTCG	0.512													3	23					0	0	1	0	0		T	179407078	T	T	179407078	3	4	113	1	0	0	0	0	1	0	0	0	16761	835	29	4	10630	4	TTN	2	179407078	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	11301978	179407078	63792295	13	65531											
DGKD	8527	broad.mit.edu	37	chr2	234356752	234356752	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtacagcagattctcttctAtgaagactcggttgcagccc	9	11	10	11	1	2	3	0	1	2	2	4	3	2	3	1	2	4	4	1	2	3	5			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr2:234356752A>G	uc002vui.1	+	13	1451	c.1439A>G	c.(1438-1440)TAT>TGT	p.Y480C	DGKD_uc002vuj.1_Missense_Mutation_p.Y436C|DGKD_uc010fyh.1_Missense_Mutation_p.Y347C|DGKD_uc010fyi.1_RNA	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	480					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	ATTCTCTTCTATGAAGACTCG	0.562													14	38					0	0	1	0	0		G	234356752	G	G	234356752	3	3	113	1	0	0	0	0	1	0	0	0	4473	449	16	3	1513	3	DGKD	2	234356752	Missense_Mutation	SNP	A	TCGA-CD-8525-01A-11D-2340-08	54949674	234356752	8842621	14	65532											
CCDC71	64925	broad.mit.edu	37	chr3	49200783	49200783	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcagctttggccagtgttcGagctaccttggcctgggctg	5	11	14	11	1	0	0	0	0	0	0	1	1	0	0	3	3	4	5	3	3	1	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr3:49200783G>A	uc003cwg.3	-	2	997	c.859C>T	c.(859-861)CGA>TGA	p.R287*		NM_022903	NP_075054	Q8IV32	CCD71_HUMAN	coiled-coil domain containing 71	287	Potential.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GCCAGTGTTCGAGCTACCTTG	0.547													8	59					0	0	1	0	0		A	49200783	A	A	49200783	4	1	113	1	0	0	0	0	0	1	0	0	2847	1066	37	1	548	1	CCDC71	3	49200783	Nonsense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08		49200783	148821647	15	65533											
TMEM45A	55076	broad.mit.edu	37	chr3	100275725	100275725	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtatttcttctttgggctGttgggtgtggcagatatctt	5	19	12	5	0	3	1	0	0	3	1	3	1	3	1	0	3	0	4	0	3	2	7			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr3:100275725G>C	uc003dtz.1	+	3	625	c.312G>C	c.(310-312)CTG>CTC	p.L104L	TMEM45A_uc003dua.1_Silent_p.L120L	NM_018004	NP_060474	Q9NWC5	TM45A_HUMAN	transmembrane protein 45A	104	Helical; (Potential).					integral to membrane				skin(2)|ovary(1)	3						TCTTTGGGCTGTTGGGTGTGG	0.428													18	111					0	0	1	0	0		C	100275725	C	C	100275725	2	2	113	1	0	0	0	0	0	0	0	1	16194	1364	48	5		5	TMEM45A	3	100275725	Silent	SNP	G	TCGA-CD-8525-01A-11D-2340-08	51074942	100275725	97746705	16	65534											
ALG1L	200810	broad.mit.edu	37	chr3	125648331	125648331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacccagctctcatcccatCggagctgctgcgactcccgc	6	7	9	19	3	1	0	1	0	1	0	5	2	3	1	3	1	4	4	3	1	0	0	rs145742427	byFrequency	TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr3:125648331C>T	uc003eig.1	-	6	592	c.428G>A	c.(427-429)CGA>CAA	p.R143Q	LOC100125556_uc003eif.3_RNA|LOC100125556_uc003eid.3_RNA|LOC100125556_uc003eie.3_RNA	NM_001015050	NP_001015050	Q6GMV1	ALG1L_HUMAN	asparagine-linked glycosylation 1-like	143							transferase activity, transferring glycosyl groups				0						CTCATCCCATCGGAGCTGCTG	0.532													19	28					0	0	1	0	0		T	125648331	T	T	125648331	3	4	113	1	0	0	0	0	1	0	0	0	517	884	31	1	139	1	ALG1L	3	125648331	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	25372606	125648331	72374099	17	65535											
PIK3CB	5291	broad.mit.edu	37	chr3	138426123	138426123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattggattcaacatttcttCgagttcatctaaaacatgca	13	14	5	9	1	4	0	2	0	2	0	5	2	4	1	0	1	3	2	0	1	3	6			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr3:138426123C>T	uc011bmq.1	-	9	1408	c.1408G>A	c.(1408-1410)GAA>AAA	p.E470K	PIK3CB_uc011bmn.1_5'UTR|PIK3CB_uc011bmo.1_Intron|PIK3CB_uc011bmp.1_Missense_Mutation_p.E74K	NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta	470	C2 PI3K-type.				activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						AACATTTCTTCGAGTTCATCT	0.313													12	37					0	0	1	0	0		T	138426123	T	T	138426123	3	4	113	1	0	0	0	0	1	0	0	0	11933	893	31	1	1858	1	PIK3CB	3	138426123	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	12777792	138426123	59596307	18	65536											
PACRGL	133015	broad.mit.edu	37	chr4	20714515	20714515	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagctattcctttgctaccTagactgattcctgtgctaaa	11	14	6	10	0	0	2	0	1	0	1	2	2	2	2	3	0	4	3	3	0	6	7			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr4:20714515T>A	uc010iek.2	+	6	862	c.471T>A	c.(469-471)CCT>CCA	p.P157P	PACRGL_uc003gpu.2_RNA|PACRGL_uc010iei.1_Silent_p.P205P|PACRGL_uc003gpz.2_Silent_p.P157P|PACRGL_uc011bxm.1_Silent_p.P104P|PACRGL_uc003gqa.2_Intron|PACRGL_uc003gpx.3_RNA|PACRGL_uc003gpv.2_Silent_p.P157P|PACRGL_uc003gpw.2_RNA|PACRGL_uc010iej.1_RNA|PACRGL_uc011bxn.1_Intron|PACRGL_uc003gpy.2_Silent_p.P104P	NM_145048	NP_659485	Q8N7B6	PACRL_HUMAN	PARK2 co-regulated-like isoform 1	157							binding				0						CTTTGCTACCTAGACTGATTC	0.348													36	105					0	0	1	0	0		A	20714515	A	A	20714515	2	1	113	1	0	0	0	0	0	0	0	1	11390	1509	53	5		5	PACRGL	4	20714515	Silent	SNP	T	TCGA-CD-8525-01A-11D-2340-08		20714515	170439761	19	65537											
HEATR7B2	133558	broad.mit.edu	37	chr5	41000403	41000403	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtctaataccccatagagCtcctggaggcccaaaaaggg	12	6	11	12	1	1	1	0	0	1	1	2	2	2	2	4	4	2	1	4	4	5	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr5:41000403C>G	uc003jmj.3	-	39	4891	c.4401G>C	c.(4399-4401)GAG>GAC	p.E1467D	HEATR7B2_uc003jmi.3_Missense_Mutation_p.E1022D	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1467							binding			ovary(6)|central_nervous_system(2)	8						CCCCATAGAGCTCCTGGAGGC	0.488													11	45					0	0	1	0	0		G	41000403	G	G	41000403	3	3	113	1	0	0	0	0	1	0	0	0	7051	796	28	5	372	5	HEATR7B2	5	41000403	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08		41000403	139914857	20	65538											
HCN1	348980	broad.mit.edu	37	chr5	45303801	45303801	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatttttttacccacggcTccttctcgtatgatataatc	9	17	4	11	2	1	1	0	1	1	0	4	1	2	1	2	1	2	2	2	1	5	9			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr5:45303801T>C	uc003jok.2	-	6	1543	c.1518A>G	c.(1516-1518)GGA>GGG	p.G506G		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	506	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TACCCACGGCTCCTTCTCGTA	0.403													12	120					0	0	1	0	0		C	45303801	C	C	45303801	2	2	113	1	0	0	0	0	0	0	0	1	7012	1538	54	3		3	HCN1	5	45303801	Silent	SNP	T	TCGA-CD-8525-01A-11D-2340-08	4303398	45303801	135611459	21	65539											
BRD8	10902	broad.mit.edu	37	chr5	137488173	137488173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ataagagctcactgttacctCagagagaaagtggaggaggt	14	8	13	6	0	2	3	2	0	0	3	2	6	2	5	1	3	2	2	1	3	3	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr5:137488173C>T	uc003lcf.1	-	21	2909	c.2854G>A	c.(2854-2856)GAG>AAG	p.E952K	BRD8_uc003lcc.1_Intron	NM_139199	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 2	952					cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			ACTGTTACCTCAGAGAGAAAG	0.448													16	120					0	0	1	0	0		T	137488173	T	T	137488173	3	4	113	1	0	0	0	0	1	0	0	0	1509	835	29	4	881	4	BRD8	5	137488173	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	92184372	137488173	43427087	22	65540											
PCDHAC1	56135	broad.mit.edu	37	chr5	140308819	140308819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtacaatgctgccgacctgcGaaatcttgccactggggtag	9	9	12	11	2	1	0	0	0	1	0	1	2	1	0	3	2	5	3	3	2	4	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr5:140308819G>A	uc003lih.2	+	1	2518	c.2342G>A	c.(2341-2343)CGA>CAA	p.R781Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.R781Q	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	781	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCGACCTGCGAAATCTTGCC	0.468													37	77					0	0	1	0	0		A	140308819	A	A	140308819	3	1	113	1	0	0	0	0	1	0	0	0	11551	1058	37	1	2344	1	PCDHAC1	5	140308819	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	2820646	140308819	40606441	23	65541											
PCDHB11	56125	broad.mit.edu	37	chr5	140580416	140580416	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	catcaattaccagtccaatcCcagaaaatacgccagagacc	16	6	5	14	1	1	2	1	0	0	2	3	3	3	2	5	0	2	0	5	0	6	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr5:140580416C>A	uc003liy.2	+	1	1069	c.1069C>A	c.(1069-1071)CCA>ACA	p.P357T	PCDHB11_uc011daj.1_5'UTR	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	357	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGTCCAATCCCAGAAAATAC	0.423													7	94					8.12818e-05	8.20076e-05	1	1	0		A	140580416	A	A	140580416	3	1	113	1	0	0	0	0	1	0	0	0	11555	623	22	5	1071	5	PCDHB11	5	140580416	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	271597	140580416	40334844	24	65542											
PCDHGA11	56105	broad.mit.edu	37	chr5	140803086	140803086	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctctctcattgcggactcGcagaagagtcacctgatttt	8	13	9	11	2	3	3	2	1	2	2	6	4	3	4	1	1	1	1	1	1	1	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr5:140803086G>A	uc003lkq.1	+	1	2550	c.2292G>A	c.(2290-2292)TCG>TCA	p.S764S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Silent_p.S764S|PCDHGA11_uc003lkp.1_Intron|PCDHGB8P_uc011daz.1_5'Flank	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	764	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGCGGACTCGCAGAAGAGTC	0.552													24	64					0	0	1	0	0		A	140803086	A	A	140803086	2	1	113	1	0	0	0	0	0	0	0	1	11571	1074	38	1		1	PCDHGA11	5	140803086	Silent	SNP	G	TCGA-CD-8525-01A-11D-2340-08	222670	140803086	40112174	25	65543											
HAVCR2	84868	broad.mit.edu	37	chr5	156514152	156514152	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacccaaaggttgtgagggTtgctgcctgctgctgacata	9	10	12	10	0	0	2	0	2	0	0	0	2	0	2	2	2	5	5	2	2	3	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr5:156514152T>C	uc003lwk.1	-	7	1011	c.867A>G	c.(865-867)CAA>CAG	p.Q289Q		NM_032782	NP_116171	Q8TDQ0	HAVR2_HUMAN	T cell immunoglobulin mucin 3 precursor	289	Cytoplasmic (Potential).					integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GTTGTGAGGGTTGCTGCCTGC	0.428													13	35					0	0	1	0	0		C	156514152	C	C	156514152	2	2	113	1	0	0	0	0	0	0	0	1	6990	1722	60	3		3	HAVCR2	5	156514152	Silent	SNP	T	TCGA-CD-8525-01A-11D-2340-08	15711066	156514152	24401108	26	65544											
BTN3A3	10384	broad.mit.edu	37	chr6	26452383	26452383	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctatatcctgttttcaGaattttgaccttggagccca	8	15	7	11	0	2	2	1	1	1	1	3	3	3	3	4	1	1	1	4	1	3	7			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr6:26452383G>T	uc003nhz.2	+	11	1679	c.1499G>T	c.(1498-1500)AGA>ATA	p.R500I	BTN3A3_uc003nia.2_Missense_Mutation_p.R458I|BTN3A3_uc011dkn.1_Missense_Mutation_p.R451I	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	500	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane					0						CCTGTTTTCAGAATTTTGACC	0.478													28	93					2.16457e-27	2.37473e-27	1	1	0		T	26452383	T	T	26452383	3	4	113	1	0	0	0	0	1	0	0	0	1567	942	33	5	1533	5	BTN3A3	6	26452383	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08		26452383	144662684	27	65545											
TNXB	7148	broad.mit.edu	37	chr6	32029369	32029369	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgaagcggccctgggggaCggtccaggagaggctcagcg	7	4	19	11	4	1	1	1	0	0	1	3	4	2	2	2	6	2	1	2	6	1	0			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr6:32029369C>T	uc003nzl.2	-	21	7499	c.7297G>A	c.(7297-7299)GTC>ATC	p.V2433I		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2493	Fibronectin type-III 17.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CCCTGGGGGACGGTCCAGGAG	0.682													6	76					0	0	1	0	0		T	32029369	T	T	32029369	3	4	113	1	0	0	0	0	1	0	0	0	16371	536	19	1	7512	1	TNXB	6	32029369	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	5576986	32029369	139085698	28	65546											
KCNQ5	56479	broad.mit.edu	37	chr6	73900379	73900379	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agatgtcattgaacaatattCtgctggtcatctggacatgt	11	14	9	7	0	4	2	2	1	2	1	4	3	4	3	0	2	2	1	0	2	3	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr6:73900379C>G	uc003pgk.2	+	12	2008	c.1661C>G	c.(1660-1662)TCT>TGT	p.S554C	KCNQ5_uc011dyh.1_Missense_Mutation_p.S573C|KCNQ5_uc011dyi.1_Missense_Mutation_p.S564C|KCNQ5_uc010kat.2_Missense_Mutation_p.S545C|KCNQ5_uc011dyj.1_Missense_Mutation_p.S444C|KCNQ5_uc011dyk.1_Missense_Mutation_p.S304C	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	554					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		GAACAATATTCTGCTGGTCAT	0.343													18	50					0	0	1	0	0		G	73900379	G	G	73900379	3	3	113	1	0	0	0	0	1	0	0	0	8102	913	32	5	1768	5	KCNQ5	6	73900379	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	41871010	73900379	97214688	29	65547											
COL10A1	1300	broad.mit.edu	37	chr6	116442804	116442804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtgggtccctgttgtcCaggttttcctggcacagaaa	6	13	11	11	0	0	1	0	0	0	1	4	1	4	1	4	3	0	3	4	3	1	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr6:116442804C>T	uc003pwm.2	-	3	571	c.475G>A	c.(475-477)GGA>AGA	p.G159R	NT5DC1_uc003pwj.2_Intron|NT5DC1_uc003pwk.2_Intron|NT5DC1_uc003pwl.2_Intron	NM_000493	NP_000484	Q03692	COAA1_HUMAN	type X collagen alpha 1 precursor	159	Triple-helical region.				skeletal system development	collagen	metal ion binding			central_nervous_system(1)	1		all_cancers(87;0.0176)|all_epithelial(87;0.0263)|Colorectal(196;0.234)		all cancers(137;0.0157)|OV - Ovarian serous cystadenocarcinoma(136;0.0325)|GBM - Glioblastoma multiforme(226;0.0446)|Epithelial(106;0.0711)		CCCTGTTGTCCAGGTTTTCCT	0.597													7	26					0	0	1	0	0		T	116442804	T	T	116442804	3	4	113	1	0	0	0	0	1	0	0	0	3669	603	21	4	1571	4	COL10A1	6	116442804	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	42542425	116442804	54672263	30	65548											
RNF146	81847	broad.mit.edu	37	chr6	127608243	127608243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggagaaatgaacatggacGtcgcaggaagattaagcgag	16	6	14	5	3	0	3	0	1	0	2	1	7	0	5	0	3	2	1	0	3	5	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr6:127608243G>A	uc003qav.2	+	3	644	c.485G>A	c.(484-486)CGT>CAT	p.R162H	RNF146_uc003qat.2_Missense_Mutation_p.R161H|RNF146_uc003qau.2_Missense_Mutation_p.R161H|RNF146_uc003qaw.2_Missense_Mutation_p.R161H	NM_030963	NP_112225	Q9NTX7	RN146_HUMAN	ring finger protein 146	162	WWE.				positive regulation of canonical Wnt receptor signaling pathway|protein autoubiquitination|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol	poly-ADP-D-ribose binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1				GBM - Glioblastoma multiforme(226;0.0407)|all cancers(137;0.2)		GAACATGGACGTCGCAGGAAG	0.388													6	49					0	0	1	0	0		A	127608243	A	A	127608243	3	1	113	1	0	0	0	0	1	0	0	0	13473	1145	40	1	484	1	RNF146	6	127608243	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	11165439	127608243	43506824	31	65549											
PTPRK	5796	broad.mit.edu	37	chr6	128388735	128388735	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccaaaggagggttccaaaAgccttggtaggtccgattgt	11	9	13	8	1	0	0	0	0	0	0	2	2	2	1	4	4	2	2	4	4	4	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr6:128388735A>C	uc003qbk.2	-	12	2453	c.2086T>G	c.(2086-2088)TTT>GTT	p.F696V	PTPRK_uc003qbj.2_Missense_Mutation_p.F696V|PTPRK_uc010kfc.2_Missense_Mutation_p.F696V|PTPRK_uc011ebu.1_Missense_Mutation_p.F696V|PTPRK_uc003qbl.1_Missense_Mutation_p.F566V|PTPRK_uc011ebv.1_Missense_Mutation_p.F696V	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	696	Extracellular (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		GGGTTCCAAAAGCCTTGGTAG	0.547													10	59					0	0	1	0	0		C	128388735	C	C	128388735	3	2	113	1	0	0	0	0	1	0	0	0	12830	72	3	5	2334	5	PTPRK	6	128388735	Missense_Mutation	SNP	A	TCGA-CD-8525-01A-11D-2340-08	780492	128388735	42726332	32	65550											
SUMO4	387082	broad.mit.edu	37	chr6	149721793	149721793	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaattgatgtgtttcaacAgcctacgggaggtgtctact	10	13	10	8	1	2	1	1	1	1	0	2	2	2	2	1	2	5	1	1	2	5	5			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr6:149721793A>C	uc003qml.2	+	1	299	c.266A>C	c.(265-267)CAG>CCG	p.Q89P	TAB2_uc011eec.1_Intron|TAB2_uc003qmj.2_Intron|TAB2_uc003qmk.3_Intron	NM_001002255	NP_001002255	Q6EEV6	SUMO4_HUMAN	SMT3 suppressor of mif two 3 homolog 4	89	Ubiquitin-like.										0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;7.91e-12)|GBM - Glioblastoma multiforme(68;0.0282)		GTGTTTCAACAGCCTACGGGA	0.423													13	125					0	0	1	0	0		C	149721793	C	C	149721793	3	2	113	1	0	0	0	0	1	0	0	0	15415	188	7	5	268	5	SUMO4	6	149721793	Missense_Mutation	SNP	A	TCGA-CD-8525-01A-11D-2340-08	21333058	149721793	21393274	33	65551											
RSPH3	83861	broad.mit.edu	37	chr6	159401861	159401861	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggctgccaaaaacagaCgggagaaggtcagccaggta	14	4	14	9	1	1	3	1	1	0	2	1	4	1	3	2	4	3	2	2	4	4	1	rs148058820	by1000genomes	TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr6:159401861C>T	uc003qrx.2	-	6	1420	c.1230G>A	c.(1228-1230)CCG>CCA	p.P410P	RSPH3_uc010kju.2_Silent_p.P314P	NM_031924	NP_114130	Q86UC2	RSPH3_HUMAN	radial spoke 3 homolog	410										ovary(1)|skin(1)	2		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.36e-16)|BRCA - Breast invasive adenocarcinoma(81;5.92e-06)		CAAAAACAGACGGGAGAAGGT	0.423													12	38					0	0	1	0	0		T	159401861	T	T	159401861	2	4	113	1	0	0	0	0	0	0	0	1	13730	523	19	1		1	RSPH3	6	159401861	Silent	SNP	C	TCGA-CD-8525-01A-11D-2340-08	9680068	159401861	11713206	34	65552											
IQUB	154865	broad.mit.edu	37	chr7	123143002	123143002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaataaaaacattacctgcGtatccctacaaaatatactg	18	10	3	10	1	0	0	0	0	0	0	1	0	1	0	2	0	5	1	2	0	11	6			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr7:123143002G>A	uc003vkn.2	-	5	1440	c.863C>T	c.(862-864)ACG>ATG	p.T288M	IQUB_uc003vko.2_Missense_Mutation_p.T288M|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Missense_Mutation_p.T288M|IQUB_uc003vkq.2_3'UTR	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	288										ovary(3)|large_intestine(1)	4						CATTACCTGCGTATCCCTACA	0.343													21	66					0	0	1	0	0		A	123143002	A	A	123143002	3	1	113	1	0	0	0	0	1	0	0	0	7836	1145	40	1	1548	1	IQUB	7	123143002	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08		123143002	35995661	35	65553											
GPR37	2861	broad.mit.edu	37	chr7	124404795	124404795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggagggtcccgcaagaaacGctgccccctgctcctccctg	7	6	11	17	2	0	1	0	0	0	1	3	2	3	2	5	2	3	3	5	2	2	0			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr7:124404795G>A	uc003vli.2	-	1	887	c.236C>T	c.(235-237)GCG>GTG	p.A79V		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	79	Extracellular (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CGCAAGAAACGCTGCCCCCTG	0.731													9	21					0	0	1	0	0		A	124404795	A	A	124404795	3	1	113	1	0	0	0	0	1	0	0	0	6706	1087	38	1	1613	1	GPR37	7	124404795	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	1261793	124404795	34733868	36	65554											
GRM8	2918	broad.mit.edu	37	chr7	126882910	126882910	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taatgcctgcacgaatgttaGagactgctccaaagcatagg	13	9	10	9	1	0	1	0	0	0	1	1	3	1	1	2	1	4	4	2	1	5	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr7:126882910G>C	uc003vlr.2	-	1	660	c.349C>G	c.(349-351)CTA>GTA	p.L117V	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.L117V|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	117	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	ACGAATGTTAGAGACTGCTCC	0.488										HNSCC(24;0.065)			7	51					0	0	1	0	0		C	126882910	C	C	126882910	3	2	113	1	0	0	0	0	1	0	0	0	6819	933	33	5	2467	5	GRM8	7	126882910	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	2478115	126882910	32255753	37	65555											
PHYHIP	9796	broad.mit.edu	37	chr8	22085733	22085733	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaacttgttggaattcttAttctccttcttgttaaggtc	7	20	7	7	0	3	1	0	1	3	0	5	2	3	2	1	2	1	2	1	2	4	9			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr8:22085733A>C	uc003xbk.3	-	3	832	c.138T>G	c.(136-138)AAT>AAG	p.N46K	PHYHIP_uc003xbj.3_Missense_Mutation_p.N46K	NM_001099335	NP_001092805	Q92561	PHYIP_HUMAN	phytanoyl-CoA 2-hydroxylase interacting protein	46	Fibronectin type-III.										0				Colorectal(74;0.0152)|COAD - Colon adenocarcinoma(73;0.0629)		TGGAATTCTTATTCTCCTTCT	0.537													10	28					0	0	1	0	0		C	22085733	C	C	22085733	3	2	113	1	0	0	0	0	1	0	0	0	11885	446	16	5	870	5	PHYHIP	8	22085733	Missense_Mutation	SNP	A	TCGA-CD-8525-01A-11D-2340-08		22085733	124278289	38	65556											
ANK1	286	broad.mit.edu	37	chr8	41548080	41548080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttcacaggcaccaggttcCcagagagttctgcaaacagg	11	8	10	12	0	3	1	1	0	2	1	4	2	4	1	2	3	2	4	2	3	1	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr8:41548080C>T	uc003xok.2	-	32	3980	c.3896G>A	c.(3895-3897)GGG>GAG	p.G1299E	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Missense_Mutation_p.G615E|ANK1_uc003xoi.2_Missense_Mutation_p.G1299E|ANK1_uc003xoj.2_Missense_Mutation_p.G1299E|ANK1_uc003xol.2_Missense_Mutation_p.G1299E|ANK1_uc003xom.2_Missense_Mutation_p.G1340E	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1299					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			CACCAGGTTCCCAGAGAGTTC	0.567													11	107					0	0	1	0	0		T	41548080	T	T	41548080	3	4	113	1	0	0	0	0	1	0	0	0	620	623	22	4	2119	4	ANK1	8	41548080	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	19462347	41548080	104815942	39	65557											
RP1	6101	broad.mit.edu	37	chr8	55533671	55533671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagcggagacccccaattcGgcggggtcagggtggtggtc	7	6	18	10	3	1	2	1	0	0	2	3	3	1	2	2	7	1	0	2	7	1	1			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr8:55533671G>A	uc003xsd.1	+	2	293	c.145G>A	c.(145-147)GGC>AGC	p.G49S	RP1_uc011ldy.1_Missense_Mutation_p.G49S	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	49	Doublecortin 1.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CCCCCAATTCGGCGGGGTCAG	0.547													36	80					0	0	1	0	0		A	55533671	A	A	55533671	3	1	113	1	0	0	0	0	1	0	0	0	13557	1116	39	1	147	1	RP1	8	55533671	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	13985591	55533671	90830351	40	65558											
TMEM64	169200	broad.mit.edu	37	chr8	91643833	91643833	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgttctgcaatgacatcttCcattgtccgcagggtggtac	7	13	10	11	1	2	1	0	1	2	0	4	1	4	1	2	2	2	4	2	2	2	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr8:91643833C>A	uc003yen.2	-	2	898	c.898G>T	c.(898-900)GAA>TAA	p.E300*	TMEM64_uc003yeo.2_Nonsense_Mutation_p.E39*|TMEM64_uc011lgf.1_Intron	NM_001008495	NP_001008495	Q6YI46	TMM64_HUMAN	transmembrane protein 64 isoform 1	300						integral to membrane					0			BRCA - Breast invasive adenocarcinoma(11;0.0598)			ATGACATCTTCCATTGTCCGC	0.418													19	101					2.5808e-16	2.75123e-16	1	1	0		A	91643833	A	A	91643833	4	1	113	1	0	0	0	0	0	1	0	0	16218	864	30	5	252	5	TMEM64	8	91643833	Nonsense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	36110162	91643833	54720189	41	65559											
MAMDC2	256691	broad.mit.edu	37	chr9	72785529	72785529	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctacacaggaccaaagggaGatcacactactggggtaggt	13	6	12	10	0	1	1	1	0	0	1	1	3	1	2	2	5	2	1	2	5	4	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr9:72785529G>C	uc004ahm.2	+	11	2250	c.1633G>C	c.(1633-1635)GAT>CAT	p.D545H	MAMDC2_uc004ahn.2_RNA|uc004aho.1_Intron|uc004ahp.1_RNA	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	545	MAM 4.					endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						ACCAAAGGGAGATCACACTAC	0.463													10	28					0	0	1	0	0		C	72785529	C	C	72785529	3	2	113	1	0	0	0	0	1	0	0	0	9221	942	33	5	1675	5	MAMDC2	9	72785529	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08		72785529	68427902	42	65560											
ITIH2	3698	broad.mit.edu	37	chr10	7745363	7745363	+	Translation_Start_Site	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgatatcctccccagaccatCtgctttggggagcttggcaa	8	11	10	12	0	1	2	0	1	1	1	3	3	3	3	4	3	2	3	4	3	2	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr10:7745363C>G	uc001ijs.2	+	1	128	c.-34C>G	c.(-36--32)ATCTG>ATGTG			NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide						hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						CCCAGACCATCTGCTTTGGGG	0.418													5	48					0	0	1	0	0		G	7745363	G	G	7745363	1	3	113	1	0	0	0	0	0	0	0	0	7920	928	32	5		5	ITIH2	10	7745363	Translation_Start_Site	SNP	C	TCGA-CD-8525-01A-11D-2340-08		7745363	127789384	43	65561											
SLC16A9	220963	broad.mit.edu	37	chr10	61432672	61432672	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagactgcagacaggacCtaaaaaaagaaatgaaacct	21	4	8	8	0	0	4	0	1	0	3	0	6	0	5	2	1	2	1	2	1	6	1			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr10:61432672C>A	uc010qig.1	-	3	646	c.197_splice	c.e3-1	p.S66_splice		NM_194298	NP_919274	Q7RTY1	MOT9_HUMAN	solute carrier family 16 (monocarboxylic acid						urate metabolic process	integral to membrane|plasma membrane	symporter activity			skin(2)|ovary(1)	3						CAGACAGGACCTAAAAAAAGA	0.363													23	68					2.27525e-19	2.44861e-19	1	1	0		A	61432672	A	A	61432672	5	1	113	1	0	0	0	0	0	0	1	0	14440	695	24	5	1349	5	SLC16A9	10	61432672	Splice_Site	SNP	C	TCGA-CD-8525-01A-11D-2340-08	53687309	61432672	74102075	44	65562											
SCGB1C1	147199	broad.mit.edu	37	chr11	193135	193135	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccctcctgctggtggccctCaccctgttctgcatctgccg	2	11	10	18	1	3	0	1	0	2	0	4	0	4	0	5	2	3	3	5	2	0	1			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr11:193135C>T	uc001loa.1	+	1	56	c.36C>T	c.(34-36)CTC>CTT	p.L12L		NM_145651	NP_663626	Q8TD33	SG1C1_HUMAN	secretoglobin, family 1C, member 1 precursor	12						extracellular region	binding			skin(1)	1		all_cancers(49;1.58e-09)|all_epithelial(84;2.71e-06)|Breast(177;0.000162)|Ovarian(85;0.000626)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;3.95e-27)|Epithelial(43;2.66e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.55e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		TGGTGGCCCTCACCCTGTTCT	0.612													5	32					0	0	1	0	0		T	193135	T	T	193135	2	4	113	1	0	0	0	0	0	0	0	1	13920	813	29	4		4	SCGB1C1	11	193135	Silent	SNP	C	TCGA-CD-8525-01A-11D-2340-08		193135	134813381	45	65563											
OR2AG1	144125	broad.mit.edu	37	chr11	6806527	6806527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcccttgcggactttctgCgcagagaaaacaccatctcc	10	8	9	14	2	2	1	0	0	2	1	3	3	2	2	3	2	3	1	3	2	2	2	rs147955834	byFrequency	TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr11:6806527C>T	uc001mer.1	+	1	259	c.259C>T	c.(259-261)CGC>TGC	p.R87C		NM_001004489	NP_001004489	Q9H205	O2AG1_HUMAN	olfactory receptor, family 2, subfamily AG,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.19e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GGACTTTCTGCGCAGAGAAAA	0.567													35	69					0	0	1	0	0		T	6806527	T	T	6806527	3	4	113	1	0	0	0	0	1	0	0	0	11003	768	27	1	261	1	OR2AG1	11	6806527	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	6613392	6806527	128199989	46	65564											
SPTY2D1	144108	broad.mit.edu	37	chr11	18637507	18637507	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgttgcctgcctcttctttGacttttcctcaataggaatc	6	17	6	12	0	3	1	1	1	2	0	5	2	4	2	3	1	2	1	3	1	3	6			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr11:18637507G>C	uc001moy.2	-	3	530	c.314C>G	c.(313-315)TCA>TGA	p.S105*	SPTY2D1_uc010rdi.1_Nonsense_Mutation_p.S105*	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	105										breast(1)	1						CCTCTTCTTTGACTTTTCCTC	0.438													15	115					0	0	1	0	0		C	18637507	C	C	18637507	4	2	113	1	0	0	0	0	0	1	0	0	15151	1294	45	5	1759	5	SPTY2D1	11	18637507	Nonsense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	11830980	18637507	116369009	47	65565											
NUP160	23279	broad.mit.edu	37	chr11	47819349	47819349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccttgcggtaattgtggcGatagatgtgaaaggcataca	12	10	12	7	2	0	2	0	1	0	1	0	3	0	2	1	3	2	2	1	3	4	5			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr11:47819349G>A	uc001ngm.2	-	27	3356	c.3271C>T	c.(3271-3273)CGC>TGC	p.R1091C	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	1091					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						TAATTGTGGCGATAGATGTGA	0.413													20	59					0	0	1	0	0		A	47819349	A	A	47819349	3	1	113	1	0	0	0	0	1	0	0	0	10776	1058	37	1	1079	1	NUP160	11	47819349	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	29181842	47819349	87187167	48	65566											
MMP20	9313	broad.mit.edu	37	chr11	102482570	102482570	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacggcgctactccaggcctGcaaggccatctccactgctt	7	8	10	16	2	1	0	0	0	1	0	3	1	2	0	4	3	3	3	4	3	2	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr11:102482570G>T	uc001phc.2	-	3	452	c.439C>A	c.(439-441)CAG>AAG	p.Q147K		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein	147					proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		CTCCAGGCCTGCAAGGCCATC	0.438													7	48					0.00198382	0.00198382	1	1	0		T	102482570	T	T	102482570	3	4	113	1	0	0	0	0	1	0	0	0	9677	1328	46	5	1044	5	MMP20	11	102482570	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	54663221	102482570	32523946	49	65567											
SIK3	23387	broad.mit.edu	37	chr11	116719989	116719989	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctatccatgcagttcccTatgacaggctctgaggagac	9	11	9	12	0	2	3	0	2	2	1	4	4	4	3	2	2	1	3	2	2	2	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr11:116719989T>G	uc001ppy.2	-	21	3384	c.3348A>C	c.(3346-3348)ATA>ATC	p.I1116I	SIK3_uc001ppz.2_Silent_p.I955I|SIK3_uc001pqa.2_Silent_p.I1056I|SIK3_uc001ppw.2_Silent_p.I473I|SIK3_uc001ppx.2_Silent_p.I494I	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	1116						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						TGCAGTTCCCTATGACAGGCT	0.552													4	50					0	0	1	0	0		G	116719989	G	G	116719989	2	3	113	1	0	0	0	0	0	0	0	1	14344	1512	53	5		5	SIK3	11	116719989	Silent	SNP	T	TCGA-CD-8525-01A-11D-2340-08	14237419	116719989	18286527	50	65568											
CDON	50937	broad.mit.edu	37	chr11	125891151	125891151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aattaaactcacctgccacaGatactgtcgcagggccactc	12	8	7	14	1	1	1	1	0	0	1	3	1	1	1	3	1	3	1	3	1	4	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr11:125891151G>A	uc009zbw.2	-	3	469	c.341C>T	c.(340-342)TCT>TTT	p.S114F	CDON_uc001qdc.3_Missense_Mutation_p.S114F|CDON_uc001qdd.3_RNA|CDON_uc009zbx.2_Missense_Mutation_p.S114F	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	114	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		ACCTGCCACAGATACTGTCGC	0.383													17	42					0	0	1	0	0		A	125891151	A	A	125891151	3	1	113	1	0	0	0	0	1	0	0	0	3173	942	33	4	3525	4	CDON	11	125891151	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	9171162	125891151	9115365	51	65569											
OS9	10956	broad.mit.edu	37	chr12	58114598	58114598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaggcccagaaggaacGccagcggcagaaagagctgg	14	2	16	9	2	0	5	0	1	0	4	0	6	0	6	2	4	3	2	2	4	4	0			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr12:58114598G>A	uc001spj.2	+	15	1969	c.1910G>A	c.(1909-1911)CGC>CAC	p.R637H	OS9_uc010srx.1_Missense_Mutation_p.R376H|OS9_uc001spk.2_Missense_Mutation_p.R622H|OS9_uc001spl.2_Missense_Mutation_p.R582H|OS9_uc001spm.2_Missense_Mutation_p.R567H|OS9_uc001spn.2_Missense_Mutation_p.R583H|OS9_uc010sry.1_Missense_Mutation_p.R550H|OS9_uc010srz.1_Missense_Mutation_p.R508H	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	637					ER-associated protein catabolic process|protein retention in ER lumen|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to endoplasmic reticulum stress	endoplasmic reticulum lumen|Hrd1p ubiquitin ligase complex	glycoprotein binding|protein binding|sugar binding			ovary(1)	1	all_neural(12;0.00548)|Glioma(12;0.0126)|Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			CAGAAGGAACGCCAGCGGCAG	0.637													6	34					0	0	1	0	0		A	58114598	A	A	58114598	3	1	113	1	0	0	0	0	1	0	0	0	11291	1087	38	1	1968	1	OS9	12	58114598	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08		58114598	75737297	52	65570											
FAM71C	196472	broad.mit.edu	37	chr12	100042226	100042226	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatgctgctggcccgaccaGctgctgtctgtgacaatgcc	6	10	11	14	1	2	1	1	1	1	0	2	2	2	1	3	1	5	4	3	1	1	0			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr12:100042226G>T	uc001tgn.2	+	1	696	c.274G>T	c.(274-276)GCT>TCT	p.A92S	ANKS1B_uc001tge.1_Intron|ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Intron	NM_153364	NP_699195	Q8NEG0	FA71C_HUMAN	hypothetical protein LOC196472	92											0				OV - Ovarian serous cystadenocarcinoma(2;0.00733)|Epithelial(2;0.0385)|all cancers(2;0.19)		GGCCCGACCAGCTGCTGTCTG	0.552													26	84					1.42536e-11	1.50528e-11	1	1	0		T	100042226	T	T	100042226	3	4	113	1	0	0	0	0	1	0	0	0	5623	971	34	5	276	5	FAM71C	12	100042226	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	41927628	100042226	33809669	53	65571											
MED13L	23389	broad.mit.edu	37	chr12	116424993	116424993	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgctggatgttctcccaggtCctgcccgtgcgcttcttttg	2	15	11	13	2	2	0	0	0	2	0	4	1	3	1	3	2	3	3	3	2	0	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr12:116424993C>T	uc001tvw.2	-	18	4090	c.4035G>A	c.(4033-4035)AGG>AGA	p.R1345R		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1345					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		TCTCCCAGGTCCTGCCCGTGC	0.547													9	57					0	0	1	0	0		T	116424993	T	T	116424993	2	4	113	1	0	0	0	0	0	0	0	1	9449	854	30	4		4	MED13L	12	116424993	Silent	SNP	C	TCGA-CD-8525-01A-11D-2340-08	16382767	116424993	17426902	54	65572											
SOHLH2	54937	broad.mit.edu	37	chr13	36764191	36764191	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgccattccttaaagattcaGagctagaaacaagagaaaat	18	9	7	7	0	1	4	1	0	0	4	2	5	2	4	2	0	3	1	2	0	7	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr13:36764191G>C	uc001uvj.2	-	6	622	c.533C>G	c.(532-534)TCT>TGT	p.S178C	SOHLH2_uc010tei.1_Missense_Mutation_p.S255C	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	178					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;4.63e-08)|Epithelial(112;2.67e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|BRCA - Breast invasive adenocarcinoma(63;0.00685)|GBM - Glioblastoma multiforme(144;0.0273)		TAAAGATTCAGAGCTAGAAAC	0.353													15	50					0	0	1	0	0		C	36764191	C	C	36764191	3	2	113	1	0	0	0	0	1	0	0	0	14949	942	33	5	768	5	SOHLH2	13	36764191	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08		36764191	78405687	55	65573											
FAM48A	55578	broad.mit.edu	37	chr13	37598543	37598543	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgatgttttacacccttccCcaataccgaagactgaactg	11	11	6	13	2	0	2	0	1	0	1	2	4	1	2	4	0	3	1	4	0	5	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr13:37598543C>G	uc001uwg.2	-	18	1614	c.1366G>C	c.(1366-1368)GGG>CGG	p.G456R	FAM48A_uc010abt.2_Missense_Mutation_p.G457R|FAM48A_uc001uwh.2_Missense_Mutation_p.G457R|FAM48A_uc001uwi.2_Missense_Mutation_p.G456R|FAM48A_uc001uwj.2_Missense_Mutation_p.G457R|FAM48A_uc001uwk.2_Missense_Mutation_p.G456R|FAM48A_uc010tes.1_Missense_Mutation_p.G420R|FAM48A_uc001uwl.1_Missense_Mutation_p.G456R|FAM48A_uc001uwd.2_5'Flank|FAM48A_uc001uwe.2_5'UTR|FAM48A_uc001uwf.2_Missense_Mutation_p.G34R	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A	456					autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		ACACCCTTCCCCAATACCGAA	0.378													16	24					0	0	1	0	0		G	37598543	G	G	37598543	3	3	113	1	0	0	0	0	1	0	0	0	5586	623	22	5	1009	5	FAM48A	13	37598543	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	834352	37598543	77571335	56	65574											
CPB2	1361	broad.mit.edu	37	chr13	46656606	46656606	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtgatactgttcatagtaCgatgcggaggctcgggggct	8	10	16	7	3	1	1	1	1	0	0	2	4	1	2	0	4	3	4	0	4	3	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr13:46656606C>T	uc001vaw.2	-	4	421	c.354G>A	c.(352-354)TCG>TCA	p.S118S	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Silent_p.S118S	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	118					blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		GTTCATAGTACGATGCGGAGG	0.438													16	57					0	0	1	0	0		T	46656606	T	T	46656606	2	4	113	1	0	0	0	0	0	0	0	1	3800	523	19	1		1	CPB2	13	46656606	Silent	SNP	C	TCGA-CD-8525-01A-11D-2340-08	9058063	46656606	68513272	57	65575											
TTLL5	23093	broad.mit.edu	37	chr14	76368562	76368562	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctttgtgcccatcaccagctCtacaggttagtgggcaccag	8	10	10	13	0	2	0	1	0	1	0	2	0	2	0	3	2	3	3	3	2	2	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr14:76368562C>G	uc001xrx.2	+	31	4023	c.3818C>G	c.(3817-3819)TCT>TGT	p.S1273C	TTLL5_uc001xsa.2_Missense_Mutation_p.S347C	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	1273					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		ATCACCAGCTCTACAGGTTAG	0.557													6	33					0	0	1	0	0		G	76368562	G	G	76368562	3	3	113	1	0	0	0	0	1	0	0	0	16756	913	32	5	3936	5	TTLL5	14	76368562	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08		76368562	30980978	58	65576											
SNW1	22938	broad.mit.edu	37	chr14	78217691	78217691	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactgtccttgtcgagcaaTtgcatcatatttaatttttc	9	18	6	8	1	1	1	1	1	0	0	4	2	2	1	1	0	2	2	1	0	3	7			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr14:78217691T>C	uc001xuf.2	-	3	328	c.301A>G	c.(301-303)ATT>GTT	p.I101V	SNW1_uc010tvm.1_Missense_Mutation_p.I26V|SNW1_uc010asu.2_Intron|SNW1_uc010tvn.1_Missense_Mutation_p.I101V	NM_012245	NP_036377	Q13573	SNW1_HUMAN	SKI-interacting protein	101					negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|regulation of transcription from RNA polymerase II promoter	catalytic step 2 spliceosome|nucleoplasm	Notch binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		TGTCGAGCAATTGCATCATAT	0.378													11	88					0	0	1	0	0		C	78217691	C	C	78217691	3	2	113	1	0	0	0	0	1	0	0	0	14904	1493	52	3	1357	3	SNW1	14	78217691	Missense_Mutation	SNP	T	TCGA-CD-8525-01A-11D-2340-08	1849129	78217691	29131849	59	65577											
C14orf177	283598	broad.mit.edu	37	chr14	99182681	99182681	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacctgcagagcctaagAcataacaagcagcatgccct	14	5	8	14	0	0	2	0	0	0	2	0	2	0	2	3	0	7	4	3	0	3	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr14:99182681A>G	uc001yfz.1	+	3	572	c.153A>G	c.(151-153)AGA>AGG	p.R51R		NM_182560	NP_872366	Q52M58	CN177_HUMAN	hypothetical protein LOC283598	51											0		Melanoma(154;0.128)				AGAGCCTAAGACATAACAAGC	0.488													5	31					0	0	1	0	0		G	99182681	G	G	99182681	2	3	113	1	0	0	0	0	0	0	0	1	1763	272	10	3		3	C14orf177	14	99182681	Silent	SNP	A	TCGA-CD-8525-01A-11D-2340-08	20964990	99182681	8166859	60	65578											
OTUD7A	161725	broad.mit.edu	37	chr15	31776753	31776753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggccacggagtcggcgcGcgtcttgtccttctccttgc	2	12	13	14	5	2	0	0	0	2	0	5	1	3	1	3	3	1	1	3	3	0	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr15:31776753G>A	uc001zfq.2	-	11	1618	c.1525C>T	c.(1525-1527)CGC>TGC	p.R509C	OTUD7A_uc001zfr.2_Missense_Mutation_p.R516C	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	509	Nuclear localization signal (Potential).					cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		GAGTCGGCGCGCGTcttgtcc	0.483													3	12					0	0	1	0	0		A	31776753	A	A	31776753	3	1	113	1	0	0	0	0	1	0	0	0	11337	1087	38	1	1259	1	OTUD7A	15	31776753	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08		31776753	70754639	61	65579											
VPS18	57617	broad.mit.edu	37	chr15	41192978	41192978	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacatggagttctgcgtgaaCgtgctgggggagactgagca	9	9	16	7	2	1	3	0	2	1	1	1	5	1	4	0	3	5	3	0	3	2	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr15:41192978C>T	uc001zne.2	+	4	2301	c.1962C>T	c.(1960-1962)AAC>AAT	p.N654N		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	654	Clathrin.				endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		TCTGCGTGAACGTGCTGGGGG	0.617													13	71					0	0	1	0	0		T	41192978	T	T	41192978	2	4	113	1	0	0	0	0	0	0	0	1	17220	535	19	1		1	VPS18	15	41192978	Silent	SNP	C	TCGA-CD-8525-01A-11D-2340-08	9416225	41192978	61338414	62	65580											
ASB7	140460	broad.mit.edu	37	chr15	101170193	101170193	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaccccattggctgtttcaAtaagtatttctggaagtagt	11	14	9	7	0	2	1	1	0	1	1	2	2	2	2	2	2	0	4	2	2	5	6			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr15:101170193A>G	uc002bwk.2	+	5	1532	c.763A>G	c.(763-765)ATA>GTA	p.I255V	ASB7_uc002bwj.2_Missense_Mutation_p.I255V	NM_198243	NP_937886	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box-containing protein 7	255					intracellular signal transduction					skin(1)	1	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			GGCTGTTTCAATAAGTATTTC	0.368													14	61					0	0	1	0	0		G	101170193	G	G	101170193	3	3	113	1	0	0	0	0	1	0	0	0	1029	101	4	3	769	3	ASB7	15	101170193	Missense_Mutation	SNP	A	TCGA-CD-8525-01A-11D-2340-08	59977215	101170193	1361199	63	65581											
KIAA0430	9665	broad.mit.edu	37	chr16	15732982	15732982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcagcgtctgctcaggacGagaaaagcaattagagaatt	14	8	12	7	2	2	2	1	0	1	2	2	5	2	3	0	2	3	3	0	2	5	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr16:15732982G>A	uc002ddr.2	-	2	302	c.109C>T	c.(109-111)CGT>TGT	p.R37C	KIAA0430_uc002ddq.2_Missense_Mutation_p.R36C|KIAA0430_uc010uzv.1_Missense_Mutation_p.R36C|KIAA0430_uc010uzw.1_Missense_Mutation_p.R36C|KIAA0430_uc010uzx.1_Missense_Mutation_p.R36C	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	36						peroxisome	nucleotide binding|RNA binding				0						TGCTCAGGACGAGAAAAGCAA	0.443													23	58					0	0	1	0	0		A	15732982	A	A	15732982	3	1	113	1	0	0	0	0	1	0	0	0	8193	1058	37	1	5226	1	KIAA0430	16	15732982	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08		15732982	74621771	64	65582											
RABEP2	79874	broad.mit.edu	37	chr16	28926046	28926046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcttcgccttcagctcctCgatctccttttccatgggca	5	13	7	16	2	2	0	1	0	1	0	7	1	4	0	4	1	2	3	4	1	0	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr16:28926046C>T	uc002drq.2	-	4	538	c.490G>A	c.(490-492)GAG>AAG	p.E164K	uc010vct.1_Intron|RABEP2_uc010vdf.1_Missense_Mutation_p.E93K|RABEP2_uc010byn.2_Missense_Mutation_p.E164K|RABEP2_uc002drr.2_Missense_Mutation_p.E164K	NM_024816	NP_079092	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	164	Potential.				endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3						TTCAGCTCCTCGATCTCCTTT	0.642													29	65					0	0	1	0	0		T	28926046	T	T	28926046	3	4	113	1	0	0	0	0	1	0	0	0	12987	893	31	1	1259	1	RABEP2	16	28926046	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	13193064	28926046	61428707	65	65583											
OSGIN1	29948	broad.mit.edu	37	chr16	83998836	83998836	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaggactccagccccctcTtccaggtgagcggcttcctg	5	8	10	18	1	1	1	0	1	1	0	4	2	4	2	6	3	2	1	6	3	0	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr16:83998836T>G	uc002fha.2	+	7	1290	c.907T>G	c.(907-909)TTC>GTC	p.F303V	OSGIN1_uc002fhb.2_Missense_Mutation_p.F220V|OSGIN1_uc002fhc.2_Missense_Mutation_p.F220V	NM_013370	NP_037502	Q9UJX0	OSGI1_HUMAN	oxidative stress induced growth inhibitor 1	303					cell differentiation|multicellular organismal development|negative regulation of cell growth		growth factor activity				0						CAGCCCCCTCTTCCAGGTGAG	0.677													29	89					0	0	1	0	0		G	83998836	G	G	83998836	3	3	113	1	0	0	0	0	1	0	0	0	11308	1609	56	5	933	5	OSGIN1	16	83998836	Missense_Mutation	SNP	T	TCGA-CD-8525-01A-11D-2340-08	55072790	83998836	6355917	66	65584											
FOXF1	2294	broad.mit.edu	37	chr16	86544645	86544645	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaagcccatgtacagcaTgatgaacgggctcggcttca	10	8	11	12	2	2	2	2	2	0	0	3	2	2	2	1	2	4	5	1	2	3	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr16:86544645T>C	uc002fjl.2	+	1	513	c.470T>C	c.(469-471)ATG>ACG	p.M157T	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	157					branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						ATGTACAGCATGATGAACGGG	0.682													37	53					0	0	1	0	0		C	86544645	C	C	86544645	3	2	113	1	0	0	0	0	1	0	0	0	6019	1464	51	3	472	3	FOXF1	16	86544645	Missense_Mutation	SNP	T	TCGA-CD-8525-01A-11D-2340-08	2545809	86544645	3810108	67	65585											
TP53	7157	broad.mit.edu	37	chr17	7578190	7578190	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagacctcaggcggctcaTagggcaccaccacactatgt	11	6	9	15	1	2	1	2	0	0	1	2	1	2	1	4	3	0	2	4	3	2	2	rs121912666		TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr17:7578190T>C	uc002gim.2	-	6	853	c.659A>G	c.(658-660)TAT>TGT	p.Y220C	TP53_uc002gig.1_Missense_Mutation_p.Y220C|TP53_uc002gih.2_Missense_Mutation_p.Y220C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y88C|TP53_uc010cng.1_Missense_Mutation_p.Y88C|TP53_uc002gii.1_Missense_Mutation_p.Y88C|TP53_uc010cnh.1_Missense_Mutation_p.Y220C|TP53_uc010cni.1_Missense_Mutation_p.Y220C|TP53_uc002gij.2_Missense_Mutation_p.Y220C|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.Y127C|TP53_uc002gio.2_Missense_Mutation_p.Y88C|TP53_uc010vug.1_Missense_Mutation_p.Y181C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	220	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> N (in sporadic cancers; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> S (in a brain tumor with no family history; germline mutation and in sporadic cancers; somatic mutation).|Y -> F (in a sporadic cancer; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Y220C(205)|p.Y220N(12)|p.Y220H(9)|p.Y220S(9)|p.0?(7)|p.Y220fs*27(4)|p.Y220*(3)|p.Y220D(2)|p.Y127C(2)|p.D208fs*1(1)|p.Y220_P223delYEPP(1)|p.?(1)|p.V218_E224delVPYEPPE(1)|p.V218_E221delVPYE(1)|p.V218_Y220delVPY(1)|p.Y220fs*25(1)|p.V216_Y220delVVVPY(1)|p.Y220fs*1(1)|p.Y220fs*2(1)|p.V218fs*26(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		AGGCGGCTCATAGGGCACCAC	0.557		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	15					0	0	1	0	0		C	7578190	C	C	7578190	3	2	113	1	0	0	0	0	1	0	0	0	16407	1406	49	3	635	3	TP53	17	7578190	Missense_Mutation	SNP	T	TCGA-CD-8525-01A-11D-2340-08		7578190	73617020	68	65586											
KRT28	162605	broad.mit.edu	37	chr17	38954574	38954574	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgcagagcgtcagctcGtccaggactcgccgtaatcc	7	8	11	15	4	1	1	1	0	0	1	6	2	4	2	4	1	3	3	4	1	1	1			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr17:38954574G>A	uc002hvh.1	-	3	669	c.603C>T	c.(601-603)GAC>GAT	p.D201D		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	201	Rod.|Coil 1B.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				GCGTCAGCTCGTCCAGGACTC	0.502													10	69					0	0	1	0	0		A	38954574	A	A	38954574	2	1	113	1	0	0	0	0	0	0	0	1	8481	1136	40	1		1	KRT28	17	38954574	Silent	SNP	G	TCGA-CD-8525-01A-11D-2340-08	31376384	38954574	42240636	69	65587											
TTC25	83538	broad.mit.edu	37	chr17	40094927	40094927	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagaagccgatctacgccaGggagcgggaccggaagctga	11	3	16	11	4	1	2	0	1	1	1	1	6	1	5	3	3	4	2	3	3	3	1			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr17:40094927G>C	uc002hyj.3	+	6	832	c.743G>C	c.(742-744)AGG>ACG	p.R248T	TTC25_uc010cxt.2_RNA|TTC25_uc010cxs.1_Intron	NM_031421	NP_113609	Q96NG3	TTC25_HUMAN	tetratricopeptide repeat domain 25	248						cytoplasm	protein binding			ovary(1)	1		all_cancers(22;8.16e-06)|Breast(137;0.000143)|all_epithelial(22;0.000236)				ATCTACGCCAGGGAGCGGGAC	0.572													20	94					0	0	1	0	0		C	40094927	C	C	40094927	3	2	113	1	0	0	0	0	1	0	0	0	16719	1000	35	5	765	5	TTC25	17	40094927	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	1140353	40094927	41100283	70	65588											
C17orf55	284185	broad.mit.edu	37	chr17	79279118	79279119	+	Frame_Shift_Ins	INS	-	G	G																															gtgggaaacagcaggaggccINSgggggagcagtgaacggagc																										TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr17:79279118_79279119insG	uc002kac.1	-	4	475_476	c.46_47insC	c.(46-48)CGGfs	p.R16fs		NM_178519	NP_848614			hypothetical protein LOC284185												0	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			AGCAGGAGGCCGGGGGAGCAGT	0.624													2	4	---	---	---	---						.	G	79279119	G	G	79279118	7	5	113	1	0	1	1	0	0	0	0	0	1866	652	23	0	751	0	C17orf55	17	79279118	Frame_Shift_Ins	INS	-	TCGA-CD-8525-01A-11D-2340-08	39184191	79279118	1916092	71	65589											
CNDP2	55748	broad.mit.edu	37	chr18	72173101	72173101	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagctccctgatggctcggaGatcccgctccctcctattct	5	11	8	17	2	1	2	0	1	1	1	6	3	5	2	4	2	1	3	4	2	1	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr18:72173101G>C	uc002llm.1	+	4	384	c.222G>C	c.(220-222)GAG>GAC	p.E74D	CNDP2_uc002lln.1_Intron|CNDP2_uc002llo.2_Missense_Mutation_p.E74D|CNDP2_uc002llp.1_5'Flank	NM_018235	NP_060705	Q96KP4	CNDP2_HUMAN	CNDP dipeptidase 2	74						cytoplasm	carboxypeptidase activity|metal ion binding|metallopeptidase activity|protein binding|tripeptidase activity			ovary(2)|skin(1)	3		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.22)		ATGGCTCGGAGATCCCGCTCC	0.542													7	19					0	0	1	0	0		C	72173101	C	C	72173101	3	2	113	1	0	0	0	0	1	0	0	0	3597	933	33	5	232	5	CNDP2	18	72173101	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08		72173101	5904147	72	65590											
LONP1	9361	broad.mit.edu	37	chr19	5694792	5694792	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctccacttgcttctgcaGgttgcggacaccgctctcgc	4	12	9	16	3	3	0	0	0	3	0	5	1	3	1	2	2	3	4	2	2	0	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr19:5694792G>A	uc002mcx.2	-	14	2167	c.2134C>T	c.(2134-2136)CTG>TTG	p.L712L	LONP1_uc002mcy.2_Silent_p.L648L|LONP1_uc010duh.2_Silent_p.L453L|LONP1_uc010dui.2_Silent_p.L696L|LONP1_uc002mcz.2_Silent_p.L516L	NM_004793	NP_004784	P36776	LONM_HUMAN	mitochondrial lon peptidase 1 precursor	712					cellular chaperone-mediated protein complex assembly|cellular response to oxidative stress|misfolded or incompletely synthesized protein catabolic process|mitochondrial DNA metabolic process|oxidation-dependent protein catabolic process|protein homooligomerization|response to hypoxia	mitochondrial nucleoid	ADP binding|ATP binding|ATP-dependent peptidase activity|DNA polymerase binding|G-quadruplex DNA binding|mitochondrial heavy strand promoter anti-sense binding|mitochondrial light strand promoter anti-sense binding|sequence-specific DNA binding|serine-type endopeptidase activity|single-stranded DNA binding|single-stranded RNA binding				0						TGCTTCTGCAGGTTGCGGACA	0.637													17	29					0	0	1	0	0		A	5694792	A	A	5694792	2	1	113	1	0	0	0	0	0	0	0	1	8910	991	35	4		4	LONP1	19	5694792	Silent	SNP	G	TCGA-CD-8525-01A-11D-2340-08		5694792	53434191	73	65591											
NDUFA13	51079	broad.mit.edu	37	chr19	19645850	19645850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctaccaccaggcgttccCgttgcccgctctctcccgga	4	8	8	21	4	1	0	0	0	1	0	4	1	3	1	7	2	2	3	7	2	1	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr19:19645850C>T	uc010xqy.1	+	5	831	c.572C>T	c.(571-573)CCG>CTG	p.P191L	NDUFA13_uc010xqx.1_3'UTR|YJEFN3_uc002nmt.1_Missense_Mutation_p.P109L|YJEFN3_uc010ecf.1_Missense_Mutation_p.P59L|YJEFN3_uc002nmu.1_RNA	NM_015965	NP_057049	Q9P0J0	NDUAD_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	Error:Variant_position_missing_in_Q9P0J0_after_alignment					apoptotic nuclear change|induction of apoptosis by extracellular signals|negative regulation of cell growth|negative regulation of transcription, DNA-dependent|negative regulation of translation|protein import into nucleus|reactive oxygen species metabolic process|respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex I|nucleoplasm	ATP binding|NADH dehydrogenase (ubiquinone) activity|protein binding				0					NADH(DB00157)	CAGGCGTTCCCGTTGCCCGCT	0.498													22	66					0	0	1	0	0		T	19645850	T	T	19645850	3	4	113	1	0	0	0	0	1	0	0	0	10282	652	23	1		1	NDUFA13	19	19645850	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	13951058	19645850	39483133	74	65592											
ZNF226	7769	broad.mit.edu	37	chr19	44680182	44680182	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatcgtaccagtgtaatgAgtgtaaaaaacccttcagtg	15	10	9	7	1	1	1	1	1	0	0	2	2	1	1	2	0	2	3	2	0	6	4			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr19:44680182A>G	uc002oyp.2	+	6	911	c.767A>G	c.(766-768)GAG>GGG	p.E256G	ZNF226_uc002oyq.2_Missense_Mutation_p.E139G|ZNF226_uc002oyr.2_Missense_Mutation_p.E139G|ZNF226_uc010ejg.2_3'UTR|ZNF226_uc002oys.2_Missense_Mutation_p.E256G|ZNF226_uc002oyt.2_Missense_Mutation_p.E256G	NM_001032373	NP_001027545	Q9NYT6	ZN226_HUMAN	zinc finger protein 226 isoform a	256	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				CAGTGTAATGAGTGTAAAAAA	0.383													10	72					0	0	1	0	0		G	44680182	G	G	44680182	3	3	113	1	0	0	0	0	1	0	0	0	17805	304	11	3	835	3	ZNF226	19	44680182	Missense_Mutation	SNP	A	TCGA-CD-8525-01A-11D-2340-08	25034332	44680182	14448801	75	65593											
TPRX1	284355	broad.mit.edu	37	chr19	48305321	48305321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgggattggagctgggactGagcctgagcctgggcctgag	6	8	18	9	0	0	3	0	3	0	0	0	6	0	6	3	4	3	1	3	4	0	1			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr19:48305321G>A	uc002php.1	-	2	1018	c.947C>T	c.(946-948)TCA>TTA	p.S316L		NM_198479	NP_940881	Q8N7U7	TPRX1_HUMAN	tetra-peptide repeat homeobox	316	Gly-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(25;3.02e-09)|all_epithelial(76;7e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000241)|all cancers(93;0.00036)|Epithelial(262;0.0127)|GBM - Glioblastoma multiforme(486;0.048)		agctgggactgagcctgagcc	0.368													9	25					0	0	1	0	0		A	48305321	A	A	48305321	3	1	113	1	0	0	0	0	1	0	0	0	16448	1294	45	4	292	4	TPRX1	19	48305321	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	3625139	48305321	10823662	76	65594											
LILRA3	11026	broad.mit.edu	37	chr19	54802685	54802685	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtacagaacaaatctgtcGtagccggcatcagagccaca	13	8	9	11	2	2	2	1	0	1	2	3	2	2	2	2	1	4	3	2	1	4	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr19:54802685G>A	uc002qfd.2	-	5	821	c.756C>T	c.(754-756)TAC>TAT	p.Y252Y	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Silent_p.Y188Y	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	252	Ig-like C2-type 3.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CAAATCTGTCGTAGCCGGCAT	0.627													22	40					0	0	1	0	0		A	54802685	A	A	54802685	2	1	113	1	0	0	0	0	0	0	0	1	8802	1140	40	1		1	LILRA3	19	54802685	Silent	SNP	G	TCGA-CD-8525-01A-11D-2340-08	6497364	54802685	4326298	77	65595											
YDJC	150223	broad.mit.edu	37	chr22	21984216	21984216	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctggtcacagccccggccaGaaaggcctccacgataccct	9	5	10	17	2	1	1	1	0	0	1	2	2	2	1	6	3	2	1	6	3	2	1			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr22:21984216G>C	uc002zvb.2	-	1	125	c.88C>G	c.(88-90)CTG>GTG	p.L30V	YDJC_uc002zvc.2_RNA|YDJC_uc002zvd.2_Missense_Mutation_p.L30V|CCDC116_uc011aih.1_5'Flank|CCDC116_uc002zve.2_5'Flank	NM_001017964	NP_001017964	A8MPS7	YDJC_HUMAN	YdjC homolog	30					carbohydrate metabolic process		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds				0	Colorectal(54;0.105)					GCCCCGGCCAGAAAGGCCTCC	0.706													3	9					0	0	1	0	0		C	21984216	C	C	21984216	3	2	113	1	0	0	0	0	1	0	0	0	17497	933	33	5	903	5	YDJC	22	21984216	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08		21984216	29320350	78	65596											
MKL1	57591	broad.mit.edu	37	chr22	40859227	40859227	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagagagaggcacttacgcGgcatgatcccttggctcacc	10	7	12	12	2	1	3	1	1	0	2	2	5	2	3	2	3	1	3	2	3	1	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chr22:40859227G>C	uc003ayv.1	-	1	212	c.5C>G	c.(4-6)CCG>CGG	p.P2R	MKL1_uc003ayw.1_Missense_Mutation_p.P2R|MKL1_uc010gye.1_Missense_Mutation_p.P2R|MKL1_uc010gyf.1_Missense_Mutation_p.P2R|MKL1_uc003ayy.1_RNA	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	2	Mediates interaction with SCAI and ACTB (By similarity).				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GCACTTACGCGGCATGATCCC	0.527			T	RBM15	acute megakaryocytic leukemia								9	110					0	0	1	0	0		C	40859227	C	C	40859227	3	2	113	1	0	0	0	0	1	0	0	0	9619	1116	39	5	2838	5	MKL1	22	40859227	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	18875011	40859227	10445339	79	65597											
AWAT1	158833	broad.mit.edu	37	chrX	69454559	69454559	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaatcatggctcattccaAgcagcctagtcacttccaga	12	9	8	12	0	3	2	3	0	0	2	5	3	5	2	3	1	2	2	3	1	3	3			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chrX:69454559A>G	uc004dxy.2	+	1	55	c.14A>G	c.(13-15)AAG>AGG	p.K5R		NM_001013579	NP_001013597	Q58HT5	AWAT1_HUMAN	wax synthase 1	5					lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	long-chain-alcohol O-fatty-acyltransferase activity			ovary(3)	3						GCTCATTCCAAGCAGCCTAGT	0.502													6	48					0	0	1	0	0		G	69454559	G	G	69454559	3	3	113	1	0	0	0	0	1	0	0	0	1235	72	3	3	16	3	AWAT1	23	69454559	Missense_Mutation	SNP	A	TCGA-CD-8525-01A-11D-2340-08		69454559	85816001	80	65598											
PCDH19	57526	broad.mit.edu	37	chrX	99662948	99662948	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacggtgcccaggcgcggCgggtcgccaccgtctagcgc	5	4	15	17	7	1	0	0	0	1	0	2	0	1	0	4	4	3	0	4	4	2	1			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chrX:99662948C>T	uc010nmz.2	-	1	2324	c.648G>A	c.(646-648)CCG>CCA	p.P216P	PCDH19_uc004efw.3_Silent_p.P216P|PCDH19_uc004efx.3_Silent_p.P216P	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	216	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CCAGGCGCGGCGGGTCGCCAC	0.612													9	88					0	0	1	0	0		T	99662948	T	T	99662948	2	4	113	1	0	0	0	0	0	0	0	1	11533	755	27	1		1	PCDH19	23	99662948	Silent	SNP	C	TCGA-CD-8525-01A-11D-2340-08	30208389	99662948	55607612	81	65599											
DRP2	1821	broad.mit.edu	37	chrX	100490873	100490873	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctgctgtcaccagccctGcacctcctcaagatggtgct	7	9	10	15	0	2	1	2	0	0	1	3	2	3	1	4	1	5	4	4	1	1	0			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chrX:100490873G>T	uc004egz.2	+	4	511	c.142G>T	c.(142-144)GCA>TCA	p.A48S	DRP2_uc011mrh.1_5'UTR	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	48					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						CACCAGCCCTGCACCTCCTCA	0.557													18	158					2.35188e-11	2.46076e-11	1	1	0		T	100490873	T	T	100490873	3	4	113	1	0	0	0	0	1	0	0	0	4770	1319	46	5	148	5	DRP2	23	100490873	Missense_Mutation	SNP	G	TCGA-CD-8525-01A-11D-2340-08	827925	100490873	54779687	82	65600											
SLC6A14	11254	broad.mit.edu	37	chrX	115574828	115574828	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtaactcactgtaatgtgAgtacagtgaataaaggaata	17	11	9	4	0	1	2	1	2	0	0	1	3	1	3	0	1	2	3	0	1	9	6			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chrX:115574828A>G	uc004eqi.2	+	5	630	c.526A>G	c.(526-528)AGT>GGT	p.S176G	SLC6A14_uc011mtm.1_RNA	NM_007231	NP_009162	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid	176	Extracellular (Potential).				cellular amino acid metabolic process|response to toxin	integral to membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)|pancreas(1)	3					L-Proline(DB00172)	CTGTAATGTGAGTACAGTGAA	0.323													12	40					0	0	1	0	0		G	115574828	G	G	115574828	3	3	113	1	0	0	0	0	1	0	0	0	14702	304	11	3	544	3	SLC6A14	23	115574828	Missense_Mutation	SNP	A	TCGA-CD-8525-01A-11D-2340-08	15083955	115574828	39695732	83	65601											
ODZ1	10178	broad.mit.edu	37	chrX	123554435	123554435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggtgaagttataaacatagtCccttgttatcaagttcaggg	12	13	10	6	0	2	1	2	1	0	0	3	1	3	1	1	2	1	3	1	2	7	6			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chrX:123554435C>T	uc004euj.2	-	24	4751	c.4687G>A	c.(4687-4689)GAC>AAC	p.D1563N	ODZ1_uc011muj.1_Missense_Mutation_p.D1569N|ODZ1_uc010nqy.2_Missense_Mutation_p.D1570N	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1563	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TAAACATAGTCCCTTGTTATC	0.458													7	57					0	0	1	0	0		T	123554435	T	T	123554435	3	4	113	1	0	0	0	0	1	0	0	0	10853	855	30	4	3522	4	ODZ1	23	123554435	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	7979607	123554435	31716125	84	65602											
ATP11C	286410	broad.mit.edu	37	chrX	138845548	138845548	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgacagagttattgggctGccttttaaattcttcaccat	10	15	7	9	1	2	1	1	0	1	1	3	2	2	1	2	1	1	2	2	1	3	6			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chrX:138845548G>T	uc004faz.2	-	21	2529	c.2430C>A	c.(2428-2430)GGC>GGA	p.G810G	ATP11C_uc004fax.2_Silent_p.G18G|ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Silent_p.G810G	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	810	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					TTATTGGGCTGCCTTTTAAAT	0.378													9	45					7.48243e-07	7.68649e-07	1	1	0		T	138845548	T	T	138845548	2	4	113	1	0	0	0	0	0	0	0	1	1122	1306	46	5		5	ATP11C	23	138845548	Silent	SNP	G	TCGA-CD-8525-01A-11D-2340-08	15291113	138845548	16425012	85	65603											
GPR50	9248	broad.mit.edu	37	chrX	150349598	150349598	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagctaccagccatgctgagCccaccactgctgactatccc	9	7	7	18	0	0	2	0	2	0	0	1	2	1	2	5	0	6	3	5	0	2	2			TCGA-CD-8525-01A-11D-2340-08	TCGA-CD-8525-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	6b58103d-f934-4cc7-b0c1-68ce4fbbbb5e	2ca85522-f4ea-47ff-aa32-d5adbdbd1ce2	g.chrX:150349598C>A	uc010ntg.1	+	2	1678	c.1543C>A	c.(1543-1545)CCC>ACC	p.P515T		NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	515	Cytoplasmic (Potential).|Pro-rich.				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CCATGCTGAGCCCACCACTGC	0.612													29	145					9.80776e-20	1.06565e-19	1	1	0		A	150349598	A	A	150349598	3	1	113	1	0	0	0	0	1	0	0	0	6712	739	26	5	1549	5	GPR50	23	150349598	Missense_Mutation	SNP	C	TCGA-CD-8525-01A-11D-2340-08	11504050	150349598	4920962	86	65604											
PRKAA2	5563	broad.mit.edu	37	chr1	57140083	57140083	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaattaacaggccataaaGtggcagttaaaatcttaaat	18	11	6	6	0	2	0	1	0	1	0	2	0	2	0	1	2	1	2	1	2	8	4			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr1:57140083G>C	uc001cyk.3	+	2	195	c.124G>C	c.(124-126)GTG>CTG	p.V42L		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	42	Protein kinase.				carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						AGGCCATAAAGTGGCAGTTAA	0.303													15	84					0	0	0.003163	0	0		C	57140083	C	C	57140083	3	2	114	1	0	0	0	0	1	0	0	0	12516	1029	36	5	130	5	PRKAA2	1	57140083	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08		57140083	192110538	1	65605											
AMY2B	280	broad.mit.edu	37	chr1	104120126	104120126	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attaaggatgttaatgattgGgttgggccaccaaataataa	15	12	10	4	0	0	1	0	1	0	0	0	2	0	2	2	3	0	2	2	3	5	6			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr1:104120126G>T	uc001duq.2	+	10	1732	c.1116G>T	c.(1114-1116)TGG>TGT	p.W372C	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.W372C|AMY2B_uc001dus.1_RNA	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	372					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		TTAATGATTGGGTTGGGCCAC	0.378													51	184					1.83081e-24	2.089e-24	0.01441	1	0		T	104120126	T	T	104120126	3	4	114	1	0	0	0	0	1	0	0	0	595	1241	43	5	1146	5	AMY2B	1	104120126	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08	46980043	104120126	145130495	2	65606											
OR10J1	26476	broad.mit.edu	37	chr1	159410369	159410369	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcctacctcaagcccaagtCagagaacaccagagaacatg	15	5	8	13	0	2	2	2	0	0	2	2	4	2	2	4	0	5	0	4	0	5	1			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr1:159410369C>G	uc010piv.1	+	1	821	c.821C>G	c.(820-822)TCA>TGA	p.S274*	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	274	Extracellular (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)					AAGCCCAAGTCAGAGAACACC	0.527													6	90					0	0	0.001168	0	0		G	159410369	G	G	159410369	4	3	114	1	0	0	0	0	0	1	0	0	10929	838	29	5	823	5	OR10J1	1	159410369	Nonsense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08	55290243	159410369	89840252	3	65607											
OR2T12	127064	broad.mit.edu	37	chr1	248458178	248458178	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaagagcaggtggcaaaggCcttcttgcgggcttctgtag	8	10	15	8	1	2	2	0	1	2	1	2	2	2	2	1	4	2	4	1	4	3	4			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr1:248458178C>A	uc010pzj.1	-	1	703	c.703G>T	c.(703-705)GCC>TCC	p.A235S		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	235	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			GTGGCAAAGGCCTTCTTGCGG	0.517													15	88					2.23348e-06	2.36643e-06	0.004007	1	0		A	248458178	A	A	248458178	3	1	114	1	0	0	0	0	1	0	0	0	11038	739	26	5	262	5	OR2T12	1	248458178	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08	89047809	248458178	792443	4	65608											
CNNM4	26504	broad.mit.edu	37	chr2	97474375	97474375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accgcacagacgtctcaactGcagcaaccttggcaggcagc	11	5	10	15	2	1	1	1	0	1	1	2	1	1	1	2	2	5	5	2	2	2	1			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr2:97474375G>A	uc002swx.2	+	6	2124	c.2026G>A	c.(2026-2028)GCA>ACA	p.A676T	CNNM4_uc010yuy.1_Missense_Mutation_p.A163T	NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	676					biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						CGTCTCAACTGCAGCAACCTT	0.607													16	47					0	0	0.00499	0	0		A	97474375	A	A	97474375	3	1	114	1	0	0	0	0	1	0	0	0	3618	1319	46	2	2048	2	CNNM4	2	97474375	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08		97474375	145724998	5	65609											
TTN	7273	broad.mit.edu	37	chr2	179641252	179641252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctgttccatatttgttaGtggctctgcaagtaatgata	10	16	9	6	0	2	1	0	1	2	0	3	2	3	1	1	1	1	5	1	1	5	6			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr2:179641252G>A	uc010zfg.1	-	28	5563	c.5339C>T	c.(5338-5340)ACT>ATT	p.T1780I	TTN_uc010zfh.1_Missense_Mutation_p.T1734I|TTN_uc010zfi.1_Missense_Mutation_p.T1734I|TTN_uc010zfj.1_Missense_Mutation_p.T1734I|TTN_uc002unb.2_Missense_Mutation_p.T1780I|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1780							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATATTTGTTAGTGGCTCTGCA	0.433													17	111					0	0	0.00499	0	0		A	179641252	A	A	179641252	3	1	114	1	0	0	0	0	1	0	0	0	16761	1029	36	4	105989	4	TTN	2	179641252	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08	82166877	179641252	63558121	6	65610											
TRAIP	10293	broad.mit.edu	37	chr3	49867138	49867138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacaaaaatagggaaggcaCcaaccagttcctcatctggc	14	6	10	11	0	2	0	1	0	1	0	3	2	3	2	3	4	1	2	3	4	5	2			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr3:49867138C>T	uc003cxs.1	-	13	1254	c.1148G>A	c.(1147-1149)GGT>GAT	p.G383D	TRAIP_uc010hla.1_Missense_Mutation_p.G284D	NM_005879	NP_005870	Q9BWF2	TRAIP_HUMAN	TRAF interacting protein	383	Interaction with CYLD.				cell proliferation|induction of apoptosis	perinuclear region of cytoplasm	protein binding|zinc ion binding			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		AGGGAAGGCACCAACCAGTTC	0.577													9	42					0	0	0.004482	0	0		T	49867138	T	T	49867138	3	4	114	1	0	0	0	0	1	0	0	0	16474	507	18	4	273	4	TRAIP	3	49867138	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08		49867138	148155292	7	65611											
GPR171	29909	broad.mit.edu	37	chr3	150916325	150916325	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tttgagaggtgatagtacagGataggatcaaagcacaggtt	14	10	13	4	0	1	2	1	2	0	1	1	5	1	4	0	4	2	3	0	4	4	5			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr3:150916325G>C	uc003eyq.3	-	3	1089	c.849C>G	c.(847-849)ATC>ATG	p.I283M	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_013308	NP_037440	O14626	GP171_HUMAN	G protein-coupled receptor 171	283	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GATAGTACAGGATAGGATCAA	0.438													11	47					0	0	0.010729	0	0		C	150916325	C	C	150916325	3	2	114	1	0	0	0	0	1	0	0	0	6683	1164	41	5	114	5	GPR171	3	150916325	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08	101049187	150916325	47106105	8	65612											
MED12L	116931	broad.mit.edu	37	chr3	151129252	151129252	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccgagtggctatgttcagCagcaggcctcgccgtacctg	7	8	13	13	3	1	0	1	0	0	0	2	1	1	0	4	2	4	5	4	2	2	3			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr3:151129252C>A	uc003eyp.2	+	39	6030	c.5992C>A	c.(5992-5994)CAG>AAG	p.Q1998K	MED12L_uc011bnz.1_Intron	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1998	Gln-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTATGTTCAGCAGCAGGCCTC	0.527													9	75					0.00621372	0.00650613	0.006214	1	0		A	151129252	A	A	151129252	3	1	114	1	0	0	0	0	1	0	0	0	9447	711	25	5	6146	5	MED12L	3	151129252	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08	212927	151129252	46893178	9	65613											
FAM175A	84142	broad.mit.edu	37	chr4	84383771	84383771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcttgtgtatctaacaaccGagatctcttgaattgccatc	10	14	7	10	1	3	2	0	1	3	1	5	3	3	2	2	0	3	1	2	0	4	5			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr4:84383771G>A	uc003hou.2	-	9	1146	c.1081C>T	c.(1081-1083)CGG>TGG	p.R361W	MRPS18C_uc011ccu.1_Intron|FAM175A_uc003hot.2_Missense_Mutation_p.R189W|FAM175A_uc003hov.2_Missense_Mutation_p.R252W	NM_139076	NP_620775	Q6UWZ7	F175A_HUMAN	coiled-coil domain containing 98	361					chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of DNA repair|response to ionizing radiation	BRCA1-A complex	polyubiquitin binding			kidney(1)	1						TCTAACAACCGAGATCTCTTG	0.393													41	96					0	0	0.006999	0	0		A	84383771	A	A	84383771	3	1	114	1	0	0	0	0	1	0	0	0	5508	1057	37	1	152	1	FAM175A	4	84383771	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08		84383771	106770505	10	65614											
RXFP3	51289	broad.mit.edu	37	chr5	33938220	33938220	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtggtctacagcggggggCgctacgacctgctgcccagc	5	7	15	14	4	1	0	0	0	1	0	2	1	1	0	2	4	6	2	2	4	2	2			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr5:33938220C>A	uc003jic.1	+	1	1732	c.1375C>A	c.(1375-1377)CGC>AGC	p.R459S		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	459	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CAGCGGGGGGCGCTACGACCT	0.597													9	27					4.68919e-08	5.02817e-08	0.008291	1	0		A	33938220	A	A	33938220	3	1	114	1	0	0	0	0	1	0	0	0	13786	768	27	5	1377	5	RXFP3	5	33938220	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08		33938220	146977040	11	65615											
REEP2	51308	broad.mit.edu	37	chr5	137781275	137781275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaacccatcaaaaaagcGcccaaagctgaggtgagggc	15	3	11	12	1	1	2	1	2	0	0	1	2	1	2	3	2	3	1	3	2	5	0			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr5:137781275G>A	uc003lcz.2	+	7	800	c.678G>A	c.(676-678)GCG>GCA	p.A226A	REEP2_uc003lda.2_Silent_p.A228A|REEP2_uc011cyt.1_Silent_p.A187A	NM_016606	NP_057690	Q9BRK0	REEP2_HUMAN	receptor accessory protein 2	226						integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			TCAAAAAAGCGCCCAAAGCTG	0.592													14	27					0	0	0.00245	0	0		A	137781275	A	A	137781275	2	1	114	1	0	0	0	0	0	0	0	1	13230	1074	38	1		1	REEP2	5	137781275	Silent	SNP	G	TCGA-CD-8526-01A-11D-2340-08	103843055	137781275	43133985	12	65616											
PCDHB8	56128	broad.mit.edu	37	chr5	140559227	140559227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtgggcgcttcagaccgcGgctccccggctttgagcagc	4	7	16	14	4	1	2	1	1	0	1	2	2	2	2	3	4	2	4	3	4	0	2			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr5:140559227G>A	uc011dai.1	+	1	1798	c.1612G>A	c.(1612-1614)GGC>AGC	p.G538S	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	538	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCAGACCGCGGCTCCCCGGC	0.667													42	157					0	0	0.011902	0	0		A	140559227	A	A	140559227	3	1	114	1	0	0	0	0	1	0	0	0	11567	1116	39	1	1614	1	PCDHB8	5	140559227	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08	2777952	140559227	40356033	13	65617											
SYNPO	11346	broad.mit.edu	37	chr5	150029689	150029689	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccctgcctcggccctcgCgctcctcaccgggcctctac	2	8	9	22	4	2	0	1	0	1	0	5	0	3	0	6	2	3	1	6	2	1	1			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr5:150029689C>T	uc003lsn.2	+	3	2958	c.2584C>T	c.(2584-2586)CGC>TGC	p.R862C	SYNPO_uc003lso.3_Missense_Mutation_p.R618C|SYNPO_uc003lsp.2_Missense_Mutation_p.R618C	NM_001109974	NP_001103444	Q8N3V7	SYNPO_HUMAN	synaptopodin isoform B	862	Pro-rich.				positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCGGCCCTCGCGCTCCTCACC	0.701													21	58					0	0	0.003954	0	0		T	150029689	T	T	150029689	3	4	114	1	0	0	0	0	1	0	0	0	15481	768	27	1	2590	1	SYNPO	5	150029689	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08	9470462	150029689	30885571	14	65618											
RPS18	6222	broad.mit.edu	37	chr6	33244009	33244009	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacctggagcgactgaagaaGattcgggcccatagagggct	11	6	15	9	2	0	4	0	1	0	3	1	7	0	5	2	3	1	1	2	3	3	2			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr6:33244009G>A	uc003odp.1	+	5	393	c.348G>A	c.(346-348)AAG>AAA	p.K116K	RPS18_uc010jum.1_RNA|RPS18_uc003odq.1_RNA|B3GALT4_uc003odr.2_5'Flank	NM_022551	NP_072045	P62269	RS18_HUMAN	ribosomal protein S18	116					endocrine pancreas development|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	rRNA binding|structural constituent of ribosome				0						GACTGAAGAAGATTCGGGCCC	0.562													8	58					0	0	0.004482	0	0		A	33244009	A	A	33244009	2	1	114	1	0	0	0	0	0	0	0	1	13653	933	33	4		4	RPS18	6	33244009	Silent	SNP	G	TCGA-CD-8526-01A-11D-2340-08		33244009	137871058	15	65619											
PHIP	55023	broad.mit.edu	37	chr6	79655835	79655835	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cactcggttgcttctggttcGaaccacagaactagattctg	9	12	9	11	2	2	2	0	0	2	2	4	3	2	2	1	2	3	3	1	2	3	5			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr6:79655835G>C	uc003pir.2	-	38	4739	c.4513C>G	c.(4513-4515)CGA>GGA	p.R1505G	PHIP_uc003piq.2_Missense_Mutation_p.R529G|PHIP_uc011dyp.1_Missense_Mutation_p.R1504G|IRAK1BP1_uc010kbg.1_RNA|PHIP_uc003pio.3_Missense_Mutation_p.R391G	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1505					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		CTTCTGGTTCGAACCACAGAA	0.433													28	71					0	0	0.00632	0	0		C	79655835	C	C	79655835	3	2	114	1	0	0	0	0	1	0	0	0	11861	1066	37	5	964	5	PHIP	6	79655835	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08	46411826	79655835	91459232	16	65620											
UTRN	7402	broad.mit.edu	37	chr6	144858781	144858781	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctagatgagattatctgttgGttaacaaaggctgagcatgc	12	12	11	6	0	1	3	0	2	1	2	1	4	1	3	0	2	3	4	0	2	4	4			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr6:144858781G>C	uc003qkt.2	+	43	6389	c.6297G>C	c.(6295-6297)TGG>TGC	p.W2099C		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	2099					muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TTATCTGTTGGTTAACAAAGG	0.348													11	42					0	0	0.008291	0	0		C	144858781	C	C	144858781	3	2	114	1	0	0	0	0	1	0	0	0	17129	1270	44	5	6467	5	UTRN	6	144858781	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08	65202946	144858781	26256286	17	65621											
PURB	5814	broad.mit.edu	37	chr7	44924114	44924114	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgttcctggatttctttcatCtcatccgcataccggcaaaa	9	13	6	13	3	3	0	2	0	2	0	6	1	5	1	3	2	1	3	3	2	3	4			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr7:44924114C>G	uc003tme.2	-	1	847	c.834G>C	c.(832-834)GAG>GAC	p.E278D		NM_033224	NP_150093	Q96QR8	PURB_HUMAN	purine-rich element binding protein B	278					regulation of myeloid cell differentiation	DNA replication factor A complex	mRNA binding|single-stranded DNA binding|transcription factor binding				0						TTTCTTTCATCTCATCCGCAT	0.592													18	155					0	0	0.007413	0	0		G	44924114	G	G	44924114	3	3	114	1	0	0	0	0	1	0	0	0	12853	912	32	5	108	5	PURB	7	44924114	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08		44924114	114214549	18	65622											
NOS3	4846	broad.mit.edu	37	chr7	150706297	150706297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgatccacgtgcacaggCggaagatgttccaggctaca	10	8	12	11	2	1	2	0	1	1	1	3	3	3	3	2	3	2	3	2	3	2	2			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr7:150706297C>T	uc003wif.2	+	19	2562	c.2266C>T	c.(2266-2268)CGG>TGG	p.R756W	NOS3_uc011kuy.1_Missense_Mutation_p.R550W	NM_000603	NP_000594	P29474	NOS3_HUMAN	nitric oxide synthase 3 isoform 1	756	FAD-binding FR-type.				anti-apoptosis|arginine catabolic process|blood vessel remodeling|endothelial cell migration|mitochondrion organization|negative regulation of muscle hyperplasia|negative regulation of platelet activation|nitric oxide biosynthetic process|platelet activation|positive regulation of angiogenesis|positive regulation of guanylate cyclase activity|positive regulation of vasodilation|regulation of blood vessel size|regulation of nitric-oxide synthase activity|regulation of systemic arterial blood pressure by endothelin|response to fluid shear stress|response to heat|smooth muscle hyperplasia	caveola|cytoskeleton|cytosol|Golgi membrane	actin monomer binding|arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			central_nervous_system(5)|large_intestine(2)|skin(1)	8	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	L-Arginine(DB00125)|L-Citrulline(DB00155)|Rosuvastatin(DB01098)|Tetrahydrobiopterin(DB00360)	CGTGCACAGGCGGAAGATGTT	0.627											OREG0018442	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	39					0	0	0.004482	0	0		T	150706297	T	T	150706297	3	4	114	1	0	0	0	0	1	0	0	0	10563	759	27	1	2618	1	NOS3	7	150706297	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08	105782183	150706297	8432366	19	65623											
TERF1	7013	broad.mit.edu	37	chr8	73934526	73934526	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagaatatttggtgatccaAattctcatatggtaattatt	15	16	6	4	0	1	2	1	1	1	1	3	2	2	2	1	2	0	1	1	2	7	7	rs147608592	byFrequency	TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr8:73934526A>G	uc003xzd.2	+	4	638	c.613A>G	c.(613-615)AAT>GAT	p.N205D	TERF1_uc003xze.2_Missense_Mutation_p.N205D	NM_017489	NP_059523	P54274	TERF1_HUMAN	telomeric repeat binding factor 1 isoform 1	205	TRFH dimerization.				age-dependent telomere shortening|cell division|G2/M transition of mitotic cell cycle|induction of apoptosis|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of telomere maintenance via semi-conservative replication|negative regulation of telomere maintenance via telomerase|positive regulation of microtubule polymerization|positive regulation of mitosis|positive regulation of mitotic cell cycle|protein homooligomerization|regulation of transcription, DNA-dependent|telomere maintenance via telomerase|telomere maintenance via telomerase|telomere maintenance via telomere shortening	chromosome, telomeric region|cytoplasm|nuclear telomere cap complex|nucleoplasm|nucleus|spindle	caspase activator activity|DNA bending activity|double-stranded telomeric DNA binding|identical protein binding|microtubule binding|protein heterodimerization activity|protein homodimerization activity|telomerase inhibitor activity|telomeric DNA binding			ovary(1)|lung(1)|skin(1)	3	Breast(64;0.218)		Epithelial(68;0.0984)			TGGTGATCCAAATTCTCATAT	0.299													48	40					0	0	0.01441	0	0		G	73934526	G	G	73934526	3	3	114	1	0	0	0	0	1	0	0	0	15786	14	1	3	627	3	TERF1	8	73934526	Missense_Mutation	SNP	A	TCGA-CD-8526-01A-11D-2340-08		73934526	72429496	20	65624											
FAM135B	51059	broad.mit.edu	37	chr8	139263141	139263141	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacggtcaccgagatcacaGacaggtggaaatagtcgaac	14	5	13	9	3	2	2	2	0	0	2	3	6	2	4	1	4	1	0	1	4	3	1			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr8:139263141G>T	uc003yuy.2	-	6	656	c.485C>A	c.(484-486)TCT>TAT	p.S162Y	FAM135B_uc003yux.2_Missense_Mutation_p.S63Y|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	162										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CGAGATCACAGACAGGTGGAA	0.597										HNSCC(54;0.14)			29	103					9.80776e-20	1.10492e-19	0.00632	1	0		T	139263141	T	T	139263141	3	4	114	1	0	0	0	0	1	0	0	0	5460	942	33	5	3795	5	FAM135B	8	139263141	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08	65328615	139263141	7100881	21	65625											
PTPRD	5789	broad.mit.edu	37	chr9	8486014	8486014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttgccaagataactggaCggaggttgaagtggtgcctt	9	11	15	6	1	0	2	0	1	0	1	0	4	0	4	2	5	3	2	2	5	3	4			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr9:8486014C>T	uc003zkk.2	-	27	3514	c.2803G>A	c.(2803-2805)GTC>ATC	p.V935I	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Missense_Mutation_p.V926I|PTPRD_uc003zkm.2_Missense_Mutation_p.V922I|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	935	Fibronectin type-III 7.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		GATAACTGGACGGAGGTTGAA	0.483										TSP Lung(15;0.13)			18	71					0	0	0.007413	0	0		T	8486014	T	T	8486014	3	4	114	1	0	0	0	0	1	0	0	0	12824	536	19	1	3079	1	PTPRD	9	8486014	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08		8486014	132727417	22	65626											
PLIN2	123	broad.mit.edu	37	chr9	19120904	19120904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcctcagtgagagggaggTactgttctaccaacagctct	9	11	10	11	0	3	1	1	1	2	1	4	3	4	2	2	2	4	3	2	2	3	4			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr9:19120904T>C	uc003zno.2	-	5	748	c.569A>G	c.(568-570)TAC>TGC	p.Y190C	PLIN2_uc011lna.1_Missense_Mutation_p.Y162C|PLIN2_uc011lnb.1_Intron	NM_001122	NP_001113	Q99541	PLIN2_HUMAN	adipose differentiation-related protein	190					cellular lipid metabolic process	endoplasmic reticulum|extracellular region|lipid particle				ovary(2)	2						GAGAGGGAGGTACTGTTCTAC	0.413													16	83					0	0	0.003163	0	0		C	19120904	C	C	19120904	3	2	114	1	0	0	0	0	1	0	0	0	12109	1638	57	3	760	3	PLIN2	9	19120904	Missense_Mutation	SNP	T	TCGA-CD-8526-01A-11D-2340-08	10634890	19120904	122092527	23	65627											
CNTNAP3	79937	broad.mit.edu	37	chr9	39103860	39103860	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctccgtggaaagcagggAaatgaaggtatgaagtctca	13	9	13	6	1	2	2	1	2	2	0	4	4	2	4	1	3	1	3	1	3	5	2			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr9:39103860A>T	uc004abi.2	-	16	2656	c.2417T>A	c.(2416-2418)TTC>TAC	p.F806Y	CNTNAP3_uc004abj.2_Missense_Mutation_p.F805Y|CNTNAP3_uc011lqr.1_RNA|CNTNAP3_uc004abk.1_Missense_Mutation_p.F806Y	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor	806	Extracellular (Potential).|Laminin G-like 3.				cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		GAAAGCAGGGAAATGAAGGTA	0.418													13	28					0	0	0.006122	0	0		T	39103860	T	T	39103860	3	4	114	1	0	0	0	0	1	0	0	0	3651	246	9	5	1485	5	CNTNAP3	9	39103860	Missense_Mutation	SNP	A	TCGA-CD-8526-01A-11D-2340-08	19982956	39103860	102109571	24	65628											
PCGF6	84108	broad.mit.edu	37	chr10	105108736	105108736	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaagatgtatggggtcagCtcagagagattaatcaggcg	13	8	13	7	1	3	3	3	0	0	3	3	4	3	3	0	3	1	2	0	3	3	2			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr10:105108736C>G	uc001kwt.2	-	2	449	c.381G>C	c.(379-381)GAG>GAC	p.E127D	PCGF6_uc001kwu.2_Missense_Mutation_p.E127D|PCGF6_uc009xxk.2_RNA|PCGF6_uc009xxl.2_RNA|PCGF6_uc009xxm.2_RNA	NM_001011663	NP_001011663	Q9BYE7	PCGF6_HUMAN	polycomb group ring finger 6 isoform a	127					negative regulation of transcription, DNA-dependent	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			kidney(1)	1		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;2.57e-09)|all cancers(201;7.21e-08)|BRCA - Breast invasive adenocarcinoma(275;0.205)		ATGGGGTCAGCTCAGAGAGAT	0.323													16	96					0	0	0.004007	0	0		G	105108736	G	G	105108736	3	3	114	1	0	0	0	0	1	0	0	0	11597	796	28	5	707	5	PCGF6	10	105108736	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08		105108736	30426011	25	65629											
PDCD11	22984	broad.mit.edu	37	chr10	105202182	105202182	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcgagaaggcccgtgcCgtggctgagagggcccttaa	9	6	16	10	3	0	3	0	1	0	3	1	6	0	3	3	3	1	1	3	3	2	1	rs140340054	by1000genomes	TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr10:105202182C>T	uc001kwy.1	+	32	5007	c.4920C>T	c.(4918-4920)GCC>GCT	p.A1640A		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1640					mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		AGGCCCGTGCCGTGGCTGAGA	0.582													19	55					0	0	0.008871	0	0		T	105202182	T	T	105202182	2	4	114	1	0	0	0	0	0	0	0	1	11636	639	23	1		1	PDCD11	10	105202182	Silent	SNP	C	TCGA-CD-8526-01A-11D-2340-08	93446	105202182	30332565	26	65630											
TCERG1L	256536	broad.mit.edu	37	chr10	132944832	132944832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcctgttgaggtctccgcGgtccttcaggtccatgggct	4	12	13	12	2	2	1	1	1	1	0	6	2	5	1	4	4	0	2	4	4	0	2			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr10:132944832G>A	uc001lkp.2	-	7	1212	c.1126C>T	c.(1126-1128)CGC>TGC	p.R376C	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	376										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		AGGTCTCCGCGGTCCTTCAGG	0.547													21	43					0	0	0.010504	0	0		A	132944832	A	A	132944832	3	1	114	1	0	0	0	0	1	0	0	0	15711	1116	39	1	658	1	TCERG1L	10	132944832	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08	27742650	132944832	2589915	27	65631											
PKP3	11187	broad.mit.edu	37	chr11	404544	404544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccactgtagaagggctatcGgaaggaggacttcctgggcc	9	8	14	10	1	0	1	0	0	0	1	3	4	2	4	3	5	0	2	3	5	4	3			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr11:404544G>A	uc001lpc.2	+	13	2445	c.2369G>A	c.(2368-2370)CGG>CAG	p.R790Q		NM_007183	NP_009114	Q9Y446	PKP3_HUMAN	plakophilin 3	790					cell adhesion	desmosome|nucleus	binding			skin(1)	1		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AAGGGCTATCGGAAGGAGGAC	0.632													18	34					0	0	0.008871	0	0		A	404544	A	A	404544	3	1	114	1	0	0	0	0	1	0	0	0	12005	1116	39	1	2419	1	PKP3	11	404544	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08		404544	134601972	28	65632											
CDKN1C	1028	broad.mit.edu	37	chr11	2906683	2906699	+	Frame_Shift_Del	DEL	CCATCGTGGATGTGCTG	-	-																															cccacgggcgacaagacgctCcatcgtggatgtgctgcgga																										TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr11:2906683_2906699delCCATCGTGGATGTGCTG	uc001lws.3	-	1	297_313	c.21_37delCAGCACATCCACGATGG	c.(19-39)CGCAGCACATCCACGATGGAGfs	p.R7fs	CDKN1C_uc001lwu.3_Splice_Site|CDKN1C_uc009ydr.2_Splice_Site|CDKN1C_uc001lwt.3_Splice_Site|CDKN1C_uc001lwr.3_Frame_Shift_Del_p.R7fs	NM_000076	NP_000067	P49918	CDN1C_HUMAN	cyclin-dependent kinase inhibitor 1C isoform a	7_13					cell cycle arrest|G1 phase of mitotic cell cycle|negative regulation of epithelial cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of cyclin-dependent protein kinase activity	cytoplasm|nucleus	cyclin-dependent protein kinase inhibitor activity|protein binding			central_nervous_system(1)	1		all_epithelial(84;0.000187)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|Breast(177;0.00328)|all_neural(188;0.00681)|all_lung(207;0.157)|Lung NSC(207;0.216)		BRCA - Breast invasive adenocarcinoma(625;0.0025)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACAAGACGCTCCATCGTGGATGTGCTGCGGAGGGACG	0.539									Beckwith-Wiedemann_syndrome				4	7	---	---	---	---						.	-	2906699	-	-	2906683	7	5	114	1	0	1	0	1	0	0	0	0	3163	864	30	0	921	0	CDKN1C	11	2906683	Frame_Shift_Del	DEL	CCATCGTGGATGTGCTG	TCGA-CD-8526-01A-11D-2340-08	2502139	2906683	132099833	29	65633											
TRIM48	79097	broad.mit.edu	37	chr11	55036792	55036792	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggcccatcactggactgaGggacaggctcaaccaattct	11	7	11	12	0	3	1	2	1	1	0	3	3	3	3	2	4	1	1	2	4	2	1			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr11:55036792G>C	uc010rid.1	+	5	739	c.653G>C	c.(652-654)AGG>ACG	p.R218T		NM_024114	NP_077019	Q8IWZ4	TRI48_HUMAN	tripartite motif-containing 48	202						intracellular	zinc ion binding				0						ACTGGACTGAGGGACAGGCTC	0.498													5	57					0	0	0.000602	0	0		C	55036792	C	C	55036792	3	2	114	1	0	0	0	0	1	0	0	0	16549	1000	35	5	671	5	TRIM48	11	55036792	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08	52130109	55036792	79969724	30	65634											
NAALADL1	10004	broad.mit.edu	37	chr11	64822123	64822123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggagttgggaaaggtttCgtcgggtgagctcagcccat	8	9	15	9	2	1	1	1	1	0	0	3	3	1	3	2	4	2	3	2	4	1	2			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr11:64822123C>T	uc001ocn.2	-	5	707	c.691G>A	c.(691-693)GAA>AAA	p.E231K	NAALADL1_uc010rnw.1_5'UTR	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	231	Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						GGAAAGGTTTCGTCGGGTGAG	0.612											OREG0032001	type=REGULATORY REGION|TFbs=RELA|Dataset=RELA (p65) ChIP-PET Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with paired-end diTag sequencing (ChIP-PET)	9	26					0	0	0.004482	0	0		T	64822123	T	T	64822123	3	4	114	1	0	0	0	0	1	0	0	0	10147	893	31	1	1587	1	NAALADL1	11	64822123	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08	9785331	64822123	70184393	31	65635											
ABCB9	23457	broad.mit.edu	37	chr12	123430687	123430687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcattggcgaagctcCggacagtcttcatggcactg	7	10	10	14	2	3	0	2	0	1	0	5	2	5	1	3	3	1	2	3	3	1	2			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr12:123430687C>T	uc001udm.3	-	6	1446	c.1136G>A	c.(1135-1137)CGG>CAG	p.R379Q	ABCB9_uc010tai.1_5'Flank|ABCB9_uc009zxr.2_Intron|ABCB9_uc001udo.3_Missense_Mutation_p.R379Q|ABCB9_uc010taj.1_Missense_Mutation_p.R379Q|ABCB9_uc001udp.2_Missense_Mutation_p.R379Q|ABCB9_uc001udq.2_Missense_Mutation_p.R161Q|ABCB9_uc001udr.2_Missense_Mutation_p.R379Q	NM_019625	NP_062571	Q9NP78	ABCB9_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	379	ABC transmembrane type-1.				positive regulation of T cell mediated cytotoxicity|protein transport	lysosomal membrane|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.84e-05)|Epithelial(86;0.000152)|BRCA - Breast invasive adenocarcinoma(302;0.111)		GGCGAAGCTCCGGACAGTCTT	0.587													16	43					0	0	0.004007	0	0		T	123430687	T	T	123430687	3	4	114	1	0	0	0	0	1	0	0	0	48	652	23	1	1192	1	ABCB9	12	123430687	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08		123430687	10421208	32	65636											
NALCN	259232	broad.mit.edu	37	chr13	101707679	101707679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggtcatccccactttcgtCgctctccacagtcagctgcc	7	10	7	17	2	3	0	2	0	1	0	7	0	4	0	4	1	2	2	4	1	1	1			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr13:101707679C>T	uc001vox.1	-	44	5374	c.5185G>A	c.(5185-5187)GAC>AAC	p.D1729N		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1729	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CCACTTTCGTCGCTCTCCACA	0.473													9	71					0	0	0.006214	0	0		T	101707679	T	T	101707679	3	4	114	1	0	0	0	0	1	0	0	0	10166	884	31	1	35	1	NALCN	13	101707679	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08		101707679	13462199	33	65637											
TTLL5	23093	broad.mit.edu	37	chr14	76330134	76330134	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctatcagcttcaatttGccctgcagcaacttgaacaa	12	10	7	12	0	2	1	2	1	0	0	2	1	2	1	1	0	7	5	1	0	5	4			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr14:76330134G>T	uc001xrx.2	+	29	3656	c.3451G>T	c.(3451-3453)GCC>TCC	p.A1151S	TTLL5_uc010ask.1_Missense_Mutation_p.A1166S|TTLL5_uc001xrz.2_Missense_Mutation_p.A726S|TTLL5_uc001xsa.2_Missense_Mutation_p.A225S	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	1151					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		GCTTCAATTTGCCCTGCAGCA	0.522													25	73					4.26978e-12	4.63427e-12	0.00333	1	0		T	76330134	T	T	76330134	3	4	114	1	0	0	0	0	1	0	0	0	16756	1319	46	5	3561	5	TTLL5	14	76330134	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08		76330134	31019406	34	65638											
ZFP106	64397	broad.mit.edu	37	chr15	42743712	42743712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattccaattatttgtactaCgtacactggatttccagttt	11	17	5	8	1	0	0	0	0	0	0	2	1	2	1	2	1	3	3	2	1	6	8			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr15:42743712C>T	uc001zpw.2	-	2	1024	c.689G>A	c.(688-690)CGT>CAT	p.R230H	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Missense_Mutation_p.R13H|ZFP106_uc001zpy.1_Missense_Mutation_p.R253H	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	230						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		ATTTGTACTACGTACACTGGA	0.413													49	82					0	0	0.01441	0	0		T	42743712	T	T	42743712	3	4	114	1	0	0	0	0	1	0	0	0	17662	536	19	1	5034	1	ZFP106	15	42743712	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08		42743712	59787680	35	65639											
FAH	2184	broad.mit.edu	37	chr15	80450463	80450463	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctcagcatcatcaagcAcctctttactggtcctgtcc	8	11	7	15	0	4	0	3	0	1	0	6	1	6	1	4	2	3	2	4	2	2	2			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr15:80450463A>G	uc002bfj.2	+	3	225	c.143A>G	c.(142-144)CAC>CGC	p.H48R	FAH_uc002bfk.1_Missense_Mutation_p.H48R|FAH_uc002bfm.1_Missense_Mutation_p.H48R|FAH_uc002bfn.1_5'UTR|FAH_uc010unl.1_Missense_Mutation_p.H48R|FAH_uc002bfl.1_Missense_Mutation_p.H48R	NM_000137	NP_000128	P16930	FAAA_HUMAN	fumarylacetoacetase	48					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	fumarylacetoacetase activity|metal ion binding				0						ATCATCAAGCACCTCTTTACT	0.532									Tyrosinemia_type_1				18	79					0	0	0.008871	0	0		G	80450463	G	G	80450463	3	3	114	1	0	0	0	0	1	0	0	0	5382	159	6	3	149	3	FAH	15	80450463	Missense_Mutation	SNP	A	TCGA-CD-8526-01A-11D-2340-08	37706751	80450463	22080929	36	65640											
DVL2	1856	broad.mit.edu	37	chr17	7133213	7133213	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagaggagctctcgtatccGgccaggtggcgctccagcct	6	8	14	13	3	1	1	0	0	1	1	4	2	3	2	4	4	2	4	4	4	2	2	rs150085753		TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr17:7133213G>A	uc002gez.1	-	5	852	c.570C>T	c.(568-570)GCC>GCT	p.A190A	DVL2_uc010vtr.1_Silent_p.A184A|DVL2_uc010vts.1_Silent_p.A92A|DVL2_uc010clz.1_3'UTR	NM_004422	NP_004413	O14641	DVL2_HUMAN	dishevelled 2	190					canonical Wnt receptor signaling pathway involved in regulation of cell proliferation|intracellular signal transduction|neural tube closure|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|segment specification|transcription from RNA polymerase II promoter	cytosol|nucleus|plasma membrane	frizzled binding|identical protein binding|signal transducer activity			lung(1)|kidney(1)	2						TCTCGTATCCGGCCAGGTGGC	0.637													11	64					0	0	0.010729	0	0		A	7133213	A	A	7133213	2	1	114	1	0	0	0	0	0	0	0	1	4842	1103	39	1		1	DVL2	17	7133213	Silent	SNP	G	TCGA-CD-8526-01A-11D-2340-08		7133213	74061997	37	65641											
TP53	7157	broad.mit.edu	37	chr17	7577124	7577124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggacaggcacaaacacgcaCctcaaagctgttccgtccca	13	5	8	15	2	1	0	1	0	0	0	3	1	3	1	3	2	2	4	3	2	2	1	rs121912657		TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr17:7577124C>T	uc002gim.2	-	8	1008	c.814G>A	c.(814-816)GTG>ATG	p.V272M	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.V272M|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.V140M|TP53_uc010cng.1_Missense_Mutation_p.V140M|TP53_uc002gii.1_Missense_Mutation_p.V140M|TP53_uc010cnh.1_Missense_Mutation_p.V272M|TP53_uc010cni.1_Missense_Mutation_p.V272M|TP53_uc002gij.2_Missense_Mutation_p.V272M	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	272	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> M (in sporadic cancers; somatic mutation).|V -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|V -> A (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).|V -> E (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.V272M(67)|p.V272L(24)|p.V272E(8)|p.0?(7)|p.V272A(7)|p.V272G(4)|p.V272fs*73(4)|p.V272V(3)|p.?(2)|p.F270fs*72(1)|p.E271fs*73(1)|p.V272fs*34(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.E258fs*71(1)|p.G266_E271delGRNSFE(1)|p.V272fs*74(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CAAACACGCACCTCAAAGCTG	0.527		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			9	21					0	0	0.004482	0	0		T	7577124	T	T	7577124	3	4	114	1	0	0	0	0	1	0	0	0	16407	507	18	4	472	4	TP53	17	7577124	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08	443911	7577124	73618086	38	65642											
XAB2	56949	broad.mit.edu	37	chr19	7684501	7684501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcaggctcccaaacactgCggctggcacgctctgctgct	6	9	10	16	2	2	0	1	0	1	0	3	0	3	0	1	3	4	6	1	3	1	1			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr19:7684501C>T	uc002mgx.2	-	19	2565	c.2539G>A	c.(2539-2541)GCA>ACA	p.A847T		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	847					transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						CCAAACACTGCGGCTGGCACG	0.647								Direct_reversal_of_damage|NER					9	27					0	0	0.006214	0	0		T	7684501	T	T	7684501	3	4	114	1	0	0	0	0	1	0	0	0	17444	768	27	1	32	1	XAB2	19	7684501	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08		7684501	51444482	39	65643											
FFAR3	2865	broad.mit.edu	37	chr19	35850476	35850476	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggtggcggggctgttggcGgccacgctgctcaacttcct	4	9	16	12	3	1	0	1	0	0	0	2	0	2	0	2	6	2	4	2	6	1	2			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr19:35850476G>A	uc002nzd.2	+	2	759	c.684G>A	c.(682-684)GCG>GCA	p.A228A	FFAR3_uc010xsu.1_Intron	NM_005304	NP_005295	O14843	FFAR3_HUMAN	free fatty acid receptor 3	228	Helical; Name=6; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding				0	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;1.29e-19)|OV - Ovarian serous cystadenocarcinoma(14;4.63e-18)|all cancers(14;5.19e-17)|LUSC - Lung squamous cell carcinoma(66;0.0221)			GGCTGTTGGCGGCCACGCTGC	0.637													39	181					0	0	0.00623	0	0		A	35850476	A	A	35850476	2	1	114	1	0	0	0	0	0	0	0	1	5843	1103	39	1		1	FFAR3	19	35850476	Silent	SNP	G	TCGA-CD-8526-01A-11D-2340-08	28165975	35850476	23278507	40	65644											
CYP2A6	1548	broad.mit.edu	37	chr19	41352841	41352841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaattgggatccagcgtgCgctggttgtgctccaccttc	5	11	14	11	2	0	0	0	0	0	0	3	2	2	2	3	3	3	3	3	3	1	3			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr19:41352841C>T	uc002opl.3	-	5	791	c.770G>A	c.(769-771)CGC>CAC	p.R257H	CYP2A6_uc010ehe.1_Missense_Mutation_p.R53H|CYP2A6_uc010ehf.1_RNA	NM_000762	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A,	257					coumarin catabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|enzyme binding|heme binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Chlorzoxazone(DB00356)|Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Formoterol(DB00983)|Halothane(DB01159)|Letrozole(DB01006)|Methoxsalen(DB00553)|Metyrapone(DB01011)|Nicotine(DB00184)|Pilocarpine(DB01085)|Tolbutamide(DB01124)|Tranylcypromine(DB00752)	ATCCAGCGTGCGCTGGTTGTG	0.572													4	17					0	0	0.009096	0	0		T	41352841	T	T	41352841	3	4	114	1	0	0	0	0	1	0	0	0	4165	768	27	1	734	1	CYP2A6	19	41352841	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08	5502365	41352841	17776142	41	65645											
ZNF772	400720	broad.mit.edu	37	chr19	57985198	57985198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgagcaagtatgggtttgCggctaaaggttttcccacat	9	12	12	8	1	0	1	0	1	0	0	1	1	1	1	1	3	2	6	1	3	4	5			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr19:57985198C>T	uc002qot.2	-	5	1175	c.914G>A	c.(913-915)CGC>CAC	p.R305H	ZNF547_uc002qpm.3_Intron|ZNF772_uc010ygy.1_Missense_Mutation_p.R264H|ZNF772_uc010ygz.1_Missense_Mutation_p.R193H|ZNF772_uc010yha.1_Missense_Mutation_p.R251H|ZNF772_uc002qou.2_Missense_Mutation_p.R193H	NM_001024596	NP_001019767	Q68DY9	ZN772_HUMAN	zinc finger protein 772 isoform 1	305	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)|Lung(386;0.174)		TATGGGTTTGCGGCTAAAGGT	0.458													95	111					0	0	0.01441	0	0		T	57985198	T	T	57985198	3	4	114	1	0	0	0	0	1	0	0	0	18170	768	27	1	559	1	ZNF772	19	57985198	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08	16632357	57985198	1143785	42	65646											
AP1B1	162	broad.mit.edu	37	chr22	29747700	29747700	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacacgcagctgacctgggcGatgttggcctgagaggccag	8	6	15	12	2	0	2	0	2	0	1	0	4	0	2	3	3	1	3	3	3	0	1	rs147984110		TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr22:29747700G>A	uc003afj.2	-	8	1237	c.1053C>T	c.(1051-1053)ATC>ATT	p.I351I	AP1B1_uc003afi.2_Silent_p.I351I|AP1B1_uc003afk.2_Silent_p.I351I|AP1B1_uc003afl.2_Silent_p.I351I|AP1B1_uc011ako.1_5'Flank	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	351					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						TGACCTGGGCGATGTTGGCCT	0.572													13	26					0	0	0.013537	0	0		A	29747700	A	A	29747700	2	1	114	1	0	0	0	0	0	0	0	1	731	1048	37	1		1	AP1B1	22	29747700	Silent	SNP	G	TCGA-CD-8526-01A-11D-2340-08		29747700	21556866	43	65647											
PPPDE2	27351	broad.mit.edu	37	chr22	41997112	41997112	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtcctgttagctctggcCgttgggtctgcccacggagc	4	10	14	13	2	2	0	0	0	2	0	3	1	3	1	3	3	3	4	3	3	1	2	rs144622202		TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr22:41997112C>T	uc003ban.1	-	6	569	c.496G>A	c.(496-498)GGC>AGC	p.G166S	uc003bam.1_5'Flank|PPPDE2_uc011apb.1_RNA	NM_015704	NP_056519	Q6ICB0	PPDE2_HUMAN	PPPDE peptidase domain containing 2	166											0						TAGCTCTGGCCGTTGGGTCTG	0.532													4	10					0	0	0.009096	0	0		T	41997112	T	T	41997112	3	4	114	1	0	0	0	0	1	0	0	0	12431	652	23	1	14	1	PPPDE2	22	41997112	Missense_Mutation	SNP	C	TCGA-CD-8526-01A-11D-2340-08	12249412	41997112	9307454	44	65648											
C22orf40	150383	broad.mit.edu	37	chr22	46644115	46644115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgtcccacatagctgtacgGagctgtcaaggtacagagtt	10	10	11	10	1	1	1	1	0	0	1	2	2	2	2	1	2	4	5	1	2	4	4			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chr22:46644115G>A	uc003bhe.2	-	2	108	c.67C>T	c.(67-69)CCG>TCG	p.P23S	C22orf40_uc003bhc.2_Missense_Mutation_p.P23S|C22orf40_uc003bhd.2_Missense_Mutation_p.P23S|C22orf40_uc003bhf.2_RNA|uc003bhg.1_5'Flank	NM_207327	NP_997210	Q6NVV7	CV040_HUMAN	hypothetical protein LOC150383	23											0						TAGCTGTACGGAGCTGTCAAG	0.582													7	24					0	0	0.00308	0	0		A	46644115	A	A	46644115	3	1	114	1	0	0	0	0	1	0	0	0	2151	1174	41	4	316	4	C22orf40	22	46644115	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08	4647003	46644115	4660451	45	65649											
NLGN4X	57502	broad.mit.edu	37	chrX	5811225	5811225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctttttgtagtacagcGccgcaaaagctaagatgttg	10	13	10	8	2	0	1	0	0	0	1	1	1	1	1	2	0	3	5	2	0	5	6			TCGA-CD-8526-01A-11D-2340-08	TCGA-CD-8526-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	da9892ce-21ca-435e-a73c-38ba1612bebb	bf2b79e2-2d4d-4714-ba49-9da643c998a5	g.chrX:5811225G>A	uc010ndh.2	-	6	2585	c.2084C>T	c.(2083-2085)GCG>GTG	p.A695V	NLGN4X_uc004crp.2_Missense_Mutation_p.A715V|NLGN4X_uc004crq.2_Missense_Mutation_p.A695V|NLGN4X_uc010ndi.2_Missense_Mutation_p.A732V|NLGN4X_uc004crr.2_Missense_Mutation_p.A695V|NLGN4X_uc010ndj.2_Missense_Mutation_p.A695V	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	695	Helical; (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						GTAGTACAGCGCCGCAAAAGC	0.507													15	78					0	0	0.003163	0	0		A	5811225	A	A	5811225	3	1	114	1	0	0	0	0	1	0	0	0	10483	1087	38	1	370	1	NLGN4X	23	5811225	Missense_Mutation	SNP	G	TCGA-CD-8526-01A-11D-2340-08		5811225	149459335	46	65650											
ATAD3A	55210	broad.mit.edu	37	chr1	1454367	1454367	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcaggaagccatgcggCgaggtaggctgtctgctctc	9	7	15	10	2	2	1	0	0	2	1	3	3	2	2	1	4	4	4	1	4	3	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:1454367C>T	uc001afz.1	+	5	749	c.655C>T	c.(655-657)CGA>TGA	p.R219*	ATAD3A_uc001aga.1_Nonsense_Mutation_p.R171*|ATAD3A_uc001agb.1_Nonsense_Mutation_p.R92*	NM_018188	NP_060658	Q9NVI7	ATD3A_HUMAN	ATPase family, AAA domain containing 3A	219	Potential.						ATP binding|nucleoside-triphosphatase activity|protein binding			skin(1)	1	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.12e-36)|OV - Ovarian serous cystadenocarcinoma(86;2.18e-22)|Colorectal(212;0.000164)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00233)|BRCA - Breast invasive adenocarcinoma(365;0.00469)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0347)|Lung(427;0.147)		AGCCATGCGGCGAGGTAGGCT	0.607													7	53					0	0	0.006214	0	0		T	1454367	T	T	1454367	4	4	115	1	0	0	0	0	0	1	0	0	1074	760	27	1	673	1	ATAD3A	1	1454367	Nonsense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08		1454367	247796254	1	65651											
SLC45A1	50651	broad.mit.edu	37	chr1	8390936	8390936	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaccttggccatcccggaCgcagccggaggagggggtcc	7	4	16	14	3	0	1	0	0	0	1	2	4	2	4	5	6	1	1	5	6	0	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:8390936C>T	uc001apb.2	+	4	1383	c.1383C>T	c.(1381-1383)GAC>GAT	p.D461D	SLC45A1_uc001apc.2_Silent_p.D159D	NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	461					carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		CCATCCCGGACGCAGCCGGAG	0.607													14	53					0	0	0.00499	0	0		T	8390936	T	T	8390936	2	4	115	1	0	0	0	0	0	0	0	1	14665	535	19	1		1	SLC45A1	1	8390936	Silent	SNP	C	TCGA-CD-8528-01A-11D-2340-08	6936569	8390936	240859685	2	65652											
PRAMEF12	390999	broad.mit.edu	37	chr1	12837182	12837182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcccccttggagacagtcGtaatgaccgaatgcctgctg	9	8	12	12	2	0	2	0	1	0	1	1	4	0	2	4	2	2	2	4	2	2	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:12837182G>A	uc001aui.2	+	3	919	c.892G>A	c.(892-894)GTA>ATA	p.V298I		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	298										ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GGAGACAGTCGTAATGACCGA	0.542													26	79					0	0	0.007291	0	0		A	12837182	A	A	12837182	3	1	115	1	0	0	0	0	1	0	0	0	12450	1145	40	1	902	1	PRAMEF12	1	12837182	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	4446246	12837182	236413439	3	65653											
PRAMEF1	65121	broad.mit.edu	37	chr1	12855952	12855952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaagttaagcctggagaCgtatcctgcccctgaggaga	11	7	13	10	1	0	3	0	1	0	2	1	6	1	3	4	2	3	3	4	2	3	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:12855952C>T	uc001auj.1	+	4	1335	c.1232C>T	c.(1231-1233)ACG>ATG	p.T411M		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	411											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AGCCTGGAGACGTATCCTGCC	0.532													11	168					0	0	0.003163	0	0		T	12855952	T	T	12855952	3	4	115	1	0	0	0	0	1	0	0	0	12447	536	19	1	1242	1	PRAMEF1	1	12855952	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	18770	12855952	236394669	4	65654											
PRAMEF2	65122	broad.mit.edu	37	chr1	12921441	12921441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaagttaagcctggagaCgtatcctgcccctgaggaga	11	7	13	10	1	0	3	0	1	0	2	1	6	1	3	4	2	3	3	4	2	3	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:12921441C>T	uc001aum.1	+	4	1319	c.1232C>T	c.(1231-1233)ACG>ATG	p.T411M		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	411											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AGCCTGGAGACGTATCCTGCC	0.532													7	129					0	0	0.020292	0	0		T	12921441	T	T	12921441	3	4	115	1	0	0	0	0	1	0	0	0	12457	536	19	1	1242	1	PRAMEF2	1	12921441	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	65489	12921441	236329180	5	65655											
PRAMEF13	400736	broad.mit.edu	37	chr1	13448233	13448233	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaattcaaactctcctcaggGgcaggatacgtctccaggct	10	9	10	12	1	4	0	2	0	2	0	6	2	4	1	2	4	2	2	2	4	3	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:13448233G>A	uc010obi.1	-	4	1345	c.1242C>T	c.(1240-1242)GCC>GCT	p.A414A	PRAMEF14_uc009vnt.1_Silent_p.A366A	NM_001024661	NP_001019832	Q5VWM6	PRA13_HUMAN	PRAME family member 13	414											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;9.86e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|COAD - Colon adenocarcinoma(227;0.000502)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TCTCCTCAGGGGCAGGATACG	0.537													3	21					0	0	0.004482	0	0		A	13448233	A	A	13448233	2	1	115	1	0	0	0	0	0	0	0	1	12451	1219	43	4		4	PRAMEF13	1	13448233	Silent	SNP	G	TCGA-CD-8528-01A-11D-2340-08	526792	13448233	235802388	6	65656											
ATP13A2	23400	broad.mit.edu	37	chr1	17323520	17323520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcccggctcatacctgtgCgggtcaccactgccaggacg	6	7	11	17	3	2	0	2	0	0	0	3	1	3	1	5	3	3	1	5	3	1	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:17323520C>T	uc001baa.2	-	12	1380	c.1190G>A	c.(1189-1191)CGC>CAC	p.R397H	ATP13A2_uc001bab.2_Missense_Mutation_p.R392H|ATP13A2_uc001bac.2_Missense_Mutation_p.R392H|ATP13A2_uc009vpa.1_Missense_Mutation_p.R110H|ATP13A2_uc001bad.1_Missense_Mutation_p.R110H	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	397	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		CATACCTGTGCGGGTCACCAC	0.527													5	10					0	0	0.014758	0	0		T	17323520	T	T	17323520	3	4	115	1	0	0	0	0	1	0	0	0	1125	768	27	1	2660	1	ATP13A2	1	17323520	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	3875287	17323520	231927101	7	65657											
COL11A1	1301	broad.mit.edu	37	chr1	103488310	103488310	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacttacgcttgtttctgtAatatcagtttctgctggtac	8	17	7	9	1	3	0	1	0	2	0	3	0	3	0	0	1	4	6	0	1	5	7			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:103488310A>G	uc001dul.2	-	8	1551	c.1233T>C	c.(1231-1233)ATT>ATC	p.I411I	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Silent_p.I423I|COL11A1_uc001dun.2_Silent_p.I372I|COL11A1_uc009weh.2_Intron	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	411	Nonhelical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TTGTTTCTGTAATATCAGTTT	0.338													9	41					0	0	0.004482	0	0		G	103488310	G	G	103488310	2	3	115	1	0	0	0	0	0	0	0	1	3670	358	13	3		3	COL11A1	1	103488310	Silent	SNP	A	TCGA-CD-8528-01A-11D-2340-08	86164790	103488310	145762311	8	65658											
MAN1A2	10905	broad.mit.edu	37	chr1	117963257	117963257	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctacttgcagcatattacCtatcaggagaggaggtgagc	11	9	12	9	0	1	2	1	1	0	1	1	4	1	3	2	3	5	2	2	3	4	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:117963257C>A	uc001ehd.1	+	5	1562	c.841C>A	c.(841-843)CTA>ATA	p.L281I	MAN1A2_uc009whg.1_Missense_Mutation_p.L71I	NM_006699	NP_006690	O60476	MA1A2_HUMAN	mannosidase, alpha, class 1A, member 2	281	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity				0	Lung SC(450;0.225)	all_cancers(81;7.9e-06)|all_epithelial(167;7.39e-07)|all_lung(203;2.84e-06)|Lung NSC(69;1.99e-05)		Lung(183;0.0688)|Kidney(133;0.114)|LUSC - Lung squamous cell carcinoma(189;0.223)|KIRC - Kidney renal clear cell carcinoma(1967;0.237)|Colorectal(144;0.243)		AGCATATTACCTATCAGGAGA	0.363													5	32					2.0095e-06	2.11739e-06	0.001984	1	0		A	117963257	A	A	117963257	3	1	115	1	0	0	0	0	1	0	0	0	9229	680	24	5	859	5	MAN1A2	1	117963257	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	14474947	117963257	131287364	9	65659											
HSD3B2	3284	broad.mit.edu	37	chr1	119964589	119964589	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatggcccactccatacccGtacagcaaaaagcttgctga	13	7	7	14	1	0	1	0	1	0	0	1	1	1	1	3	1	5	4	3	1	4	3	rs114527791	by1000genomes	TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:119964589G>A	uc001ehs.2	+	3	1238	c.465G>A	c.(463-465)CCG>CCA	p.P155P	HSD3B2_uc001eht.2_Silent_p.P155P|HSD3B2_uc001ehu.2_Intron	NM_000198	NP_000189	P26439	3BHS2_HUMAN	3 beta-hydroxysteroid dehydrogenase 2	155			P -> L (in AH2; nonsalt-wasting form).		androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)	CTCCATACCCGTACAGCAAAA	0.498													15	53					0	0	0.020292	0	0		A	119964589	A	A	119964589	2	1	115	1	0	0	0	0	0	0	0	1	7407	1132	40	1		1	HSD3B2	1	119964589	Silent	SNP	G	TCGA-CD-8528-01A-11D-2340-08	2001332	119964589	129286032	10	65660											
FMO5	2330	broad.mit.edu	37	chr1	146696558	146696558	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaagccttcttctacgcAgcacttgatggaagagagcc	10	10	9	12	1	2	2	0	1	2	1	3	4	3	3	3	1	4	2	3	1	3	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:146696558A>G	uc001epi.2	-	2	453	c.64T>C	c.(64-66)TGC>CGC	p.C22R	FMO5_uc001eph.3_Missense_Mutation_p.C22R|FMO5_uc001epj.2_Missense_Mutation_p.C22R|FMO5_uc001epk.3_Missense_Mutation_p.C22R	NM_001461	NP_001452	P49326	FMO5_HUMAN	flavin containing monooxygenase 5 isoform 1	22						integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			ovary(3)	3	all_hematologic(923;0.0487)					TCTTCTACGCAGCACTTGATG	0.502													14	79					0	0	0.016723	0	0		G	146696558	G	G	146696558	3	3	115	1	0	0	0	0	1	0	0	0	5972	188	7	3	1712	3	FMO5	1	146696558	Missense_Mutation	SNP	A	TCGA-CD-8528-01A-11D-2340-08	26731969	146696558	102554063	11	65661											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150532570	150532570	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacagctctccacattgcccCctggtggtacaggcccggct	6	8	11	16	1	1	0	0	0	1	0	2	1	1	0	4	4	3	3	4	4	1	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:150532570C>T	uc001eux.2	+	19	3359	c.3123C>T	c.(3121-3123)CCC>CCT	p.P1041P	ADAMTSL4_uc009wlw.2_Silent_p.P1064P|ADAMTSL4_uc010pcg.1_Silent_p.P1002P|ADAMTSL4_uc009wlx.2_Silent_p.P204P	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	1041	PLAC.				apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CACATTGCCCCCTGGTGGTAC	0.617											OREG0013787	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	78					0	0	0.006122	0	0		T	150532570	T	T	150532570	2	4	115	1	0	0	0	0	0	0	0	1	277	610	22	4		4	ADAMTSL4	1	150532570	Silent	SNP	C	TCGA-CD-8528-01A-11D-2340-08	3836012	150532570	98718051	12	65662											
FLG	2312	broad.mit.edu	37	chr1	152277422	152277422	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcggaatgcctgagtgtcTggagctgtctgctgactgct	6	11	14	10	2	2	2	0	2	2	0	2	4	2	4	1	2	4	3	1	2	1	0			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:152277422T>A	uc001ezu.1	-	3	9976	c.9940A>T	c.(9940-9942)AGA>TGA	p.R3314*		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3314	Filaggrin 20.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGAGTGTCTGGAGCTGTCT	0.562									Ichthyosis				86	498					0	0	0.01441	0	0		A	152277422	A	A	152277422	4	1	115	1	0	0	0	0	0	1	0	0	5936	1588	55	5	2249	5	FLG	1	152277422	Nonsense_Mutation	SNP	T	TCGA-CD-8528-01A-11D-2340-08	1744852	152277422	96973199	13	65663											
FLG	2312	broad.mit.edu	37	chr1	152285533	152285533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggttcctacttgtcctgggcCccgatgattgtccctggccc	3	12	11	15	1	0	1	0	1	0	0	3	2	3	1	6	3	1	1	6	3	1	4			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:152285533C>T	uc001ezu.1	-	3	1865	c.1829G>A	c.(1828-1830)GGG>GAG	p.G610E	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	610	Filaggrin 3.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTCCTGGGCCCCGATGATTG	0.572									Ichthyosis				145	201					0	0	0.01441	0	0		T	152285533	T	T	152285533	3	4	115	1	0	0	0	0	1	0	0	0	5936	623	22	4	10360	4	FLG	1	152285533	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	8111	152285533	96965088	14	65664											
DEDD	9191	broad.mit.edu	37	chr1	161092952	161092952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctctccctcgggctggccGcttgctacacatctgaggac	5	9	12	15	2	2	1	0	1	2	0	4	2	2	2	2	4	2	4	2	4	1	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:161092952G>A	uc001fxz.2	-	5	666	c.493C>T	c.(493-495)CGG>TGG	p.R165W	NIT1_uc001fxw.2_Intron|DEDD_uc009wty.2_Missense_Mutation_p.R165W|DEDD_uc001fya.2_Missense_Mutation_p.R165W|DEDD_uc001fyb.2_Missense_Mutation_p.R165W|DEDD_uc010pkb.1_Missense_Mutation_p.R122W|DEDD_uc001fyc.2_Missense_Mutation_p.R5W	NM_001039712	NP_001034801	O75618	DEDD_HUMAN	death effector domain-containing protein	165					apoptosis|induction of apoptosis via death domain receptors|negative regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding				0	all_cancers(52;3.39e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			CGGGCTGGCCGCTTGCTACAC	0.547													29	69					0	0	0.00632	0	0		A	161092952	A	A	161092952	3	1	115	1	0	0	0	0	1	0	0	0	4387	1086	38	1	471	1	DEDD	1	161092952	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	8807419	161092952	88157669	15	65665											
SLC9A11	284525	broad.mit.edu	37	chr1	173556830	173556830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttagtgaattcacagaaCgaagaggatctataatgcca	15	12	8	6	1	2	3	1	1	1	2	2	5	2	4	1	1	2	0	1	1	6	6			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:173556830C>T	uc001giz.2	-	5	920	c.497G>A	c.(496-498)CGT>CAT	p.R166H	SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	166					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						ATTCACAGAACGAAGAGGATC	0.294													14	36					0	0	0.003163	0	0		T	173556830	T	T	173556830	3	4	115	1	0	0	0	0	1	0	0	0	14736	536	19	1	2973	1	SLC9A11	1	173556830	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	12463878	173556830	75693791	16	65666											
SRGAP2	23380	broad.mit.edu	37	chr1	206566910	206566910	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccttttcagcgtcaagcCaagtacacggagaataagct	12	11	8	10	2	2	1	2	0	0	1	3	2	3	1	2	1	4	2	2	1	5	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:206566910C>G	uc001hdy.2	+	4	783	c.450C>G	c.(448-450)GCC>GCG	p.A150A	SRGAP2_uc009xbt.2_Silent_p.A74A|SRGAP2_uc010prt.1_Silent_p.A74A|SRGAP2_uc001hdx.2_Silent_p.A150A|SRGAP2_uc010pru.1_Silent_p.A74A|SRGAP2_uc010prv.1_Silent_p.A74A	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	237					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					AGCGTCAAGCCAAGTACACGG	0.413													9	32					0	0	0.004482	0	0		G	206566910	G	G	206566910	2	3	115	1	0	0	0	0	0	0	0	1	15171	581	21	5		5	SRGAP2	1	206566910	Silent	SNP	C	TCGA-CD-8528-01A-11D-2340-08	33010080	206566910	42683711	17	65667											
CENPF	1063	broad.mit.edu	37	chr1	214819047	214819047	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtttggaaaaggactcacAggcactgtctttgacaaaat	14	10	10	7	0	2	1	1	1	1	0	2	4	2	3	0	3	0	2	0	3	4	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:214819047A>G	uc001hkm.2	+	13	6308	c.6134A>G	c.(6133-6135)CAG>CGG	p.Q2045R		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2141	Potential.|Interaction with NDE1 and NDEL1.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		AAGGACTCACAGGCACTGTCT	0.428													48	61					0	0	0.01441	0	0		G	214819047	G	G	214819047	3	3	115	1	0	0	0	0	1	0	0	0	3234	188	7	3	6180	3	CENPF	1	214819047	Missense_Mutation	SNP	A	TCGA-CD-8528-01A-11D-2340-08	8252137	214819047	34431574	18	65668											
ZNF124	7678	broad.mit.edu	37	chr1	247320073	247320073	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagggtttctgtgcaataTgagttttctcgtgtttctga	7	18	10	6	1	3	2	0	2	3	0	4	2	3	2	0	1	1	4	0	1	3	6			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:247320073T>A	uc001ick.2	-	4	990	c.851A>T	c.(850-852)CAT>CTT	p.H284L	ZNF124_uc001ici.2_Intron|ZNF124_uc001icj.1_Missense_Mutation_p.H222L	NM_003431	NP_003422	Q15973	ZN124_HUMAN	zinc finger protein 124	284	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	all_cancers(71;5.07e-05)|all_epithelial(71;8.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00739)			CTGTGCAATATGAGTTTTCTC	0.443													26	79					0	0	0.021523	0	0		A	247320073	A	A	247320073	3	1	115	1	0	0	0	0	1	0	0	0	17745	1464	51	5	208	5	ZNF124	1	247320073	Missense_Mutation	SNP	T	TCGA-CD-8528-01A-11D-2340-08	32501026	247320073	1930548	19	65669											
OR2T1	26696	broad.mit.edu	37	chr1	248569964	248569964	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttctgcaattcccgggaGattaaccacttcttctgtga	8	13	7	13	1	3	2	0	1	3	1	4	3	4	2	3	1	2	1	3	1	2	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr1:248569964G>T	uc010pzm.1	+	1	669	c.669G>T	c.(667-669)GAG>GAT	p.E223D		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	223	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATTCCCGGGAGATTAACCACT	0.507													30	54					5.60225e-13	6.28252e-13	0.009535	1	0		T	248569964	T	T	248569964	3	4	115	1	0	0	0	0	1	0	0	0	11035	933	33	5	671	5	OR2T1	1	248569964	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	1249891	248569964	680657	20	65670											
TPO	7173	broad.mit.edu	37	chr2	1507810	1507810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcttccagtgtctctgcgCggacccctacgagttaggag	6	9	13	13	4	1	0	0	0	1	0	3	3	2	2	3	3	2	2	3	3	2	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr2:1507810C>T	uc002qww.2	+	14	2568	c.2477C>T	c.(2476-2478)GCG>GTG	p.A826V	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.A769V|TPO_uc002qwr.2_Missense_Mutation_p.A826V|TPO_uc002qwx.2_Missense_Mutation_p.A769V|TPO_uc010yio.1_Missense_Mutation_p.A653V|TPO_uc010yip.1_Intron|TPO_uc002qwy.1_Intron|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	826	Extracellular (Potential).|EGF-like; calcium-binding (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	TGTCTCTGCGCGGACCCCTAC	0.572													9	38					0	0	0.004482	0	0		T	1507810	T	T	1507810	3	4	115	1	0	0	0	0	1	0	0	0	16436	768	27	1	2527	1	TPO	2	1507810	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08		1507810	241691563	21	65671											
C2orf44	80304	broad.mit.edu	37	chr2	24261172	24261172	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctaccaaaattagtaatAgttggtctgtcaagaaacat	15	13	6	7	0	2	1	1	0	1	1	3	1	3	1	2	1	2	2	2	1	8	6			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr2:24261172A>C	uc002rep.2	-	2	1324	c.1193T>G	c.(1192-1194)CTA>CGA	p.L398R	C2orf44_uc010eya.2_Missense_Mutation_p.L398R	NM_025203	NP_079479	Q9H6R7	CB044_HUMAN	hypothetical protein LOC80304 isoform 1	398							protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AATTAGTAATAGTTGGTCTGT	0.353													43	46					0	0	0.00874	0	0		C	24261172	C	C	24261172	3	2	115	1	0	0	0	0	1	0	0	0	2171	420	15	5	984	5	C2orf44	2	24261172	Missense_Mutation	SNP	A	TCGA-CD-8528-01A-11D-2340-08	22753362	24261172	218938201	22	65672											
NCOA1	8648	broad.mit.edu	37	chr2	24964833	24964833	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaacccccgtcttcctcagGgtgctccacagcaattcccc	7	8	8	18	1	2	0	1	0	1	0	5	1	5	1	6	2	3	2	6	2	2	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr2:24964833G>A	uc002rfk.2	+	17	3742	c.3484G>A	c.(3484-3486)GGT>AGT	p.G1162S	NCOA1_uc010eye.2_Missense_Mutation_p.G1162S|NCOA1_uc002rfi.2_Missense_Mutation_p.G1011S|NCOA1_uc002rfj.2_Missense_Mutation_p.G1162S|NCOA1_uc002rfl.2_Missense_Mutation_p.G1162S|NCOA1_uc010eyf.2_Missense_Mutation_p.G55S	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	1162									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCTTCCTCAGGGTGCTCCACA	0.522			T	PAX3	alveolar rhadomyosarcoma								25	48					0	0	0.016522	0	0		A	24964833	A	A	24964833	3	1	115	1	0	0	0	0	1	0	0	0	10247	1232	43	4	3542	4	NCOA1	2	24964833	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	703661	24964833	218234540	23	65673											
C2orf39	92749	broad.mit.edu	37	chr2	26677608	26677608	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccacagtgatcccttcCtccaagcagaacctctggga	10	8	8	15	0	1	3	0	2	1	1	4	4	4	4	5	1	2	1	5	1	2	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr2:26677608C>T	uc002rhg.2	+	15	2087	c.2013C>T	c.(2011-2013)TCC>TCT	p.S671S		NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	671											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGATCCCTTCCTCCAAGCAGA	0.592													24	31					0	0	0.01892	0	0		T	26677608	T	T	26677608	2	4	115	1	0	0	0	0	0	0	0	1	2167	668	24	4		4	C2orf39	2	26677608	Silent	SNP	C	TCGA-CD-8528-01A-11D-2340-08	1712775	26677608	216521765	24	65674											
TTN	7273	broad.mit.edu	37	chr2	179417913	179417913	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatatattttcctgtatcaTtgcgagtaacttgaggaatg	12	15	9	5	1	1	1	1	1	0	0	2	4	2	2	1	1	2	2	1	1	6	8			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr2:179417913T>C	uc010zfg.1	-	284	82234	c.82010A>G	c.(82009-82011)AAT>AGT	p.N27337S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.N21032S|TTN_uc010zfi.1_Missense_Mutation_p.N20965S|TTN_uc010zfj.1_Missense_Mutation_p.N20840S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28264							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCCTGTATCATTGCGAGTAAC	0.408													6	75					0	0	0.001168	0	0		C	179417913	C	C	179417913	3	2	115	1	0	0	0	0	1	0	0	0	16761	1493	52	3	18377	3	TTN	2	179417913	Missense_Mutation	SNP	T	TCGA-CD-8528-01A-11D-2340-08	152740305	179417913	63781460	25	65675											
CRYGD	1421	broad.mit.edu	37	chr2	208988895	208988895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccatccactgctggtggtCggcatagtcgccgcggcgca	5	7	14	15	5	0	0	0	0	0	0	3	0	1	0	3	4	1	3	3	4	1	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr2:208988895C>T	uc002vcn.3	-	2	309	c.193G>A	c.(193-195)GAC>AAC	p.D65N		NM_006891	NP_008822	P07320	CRGD_HUMAN	crystallin, gamma D	65	Beta/gamma crystallin 'Greek key' 2.				cellular response to reactive oxygen species|visual perception	soluble fraction	protein binding|structural constituent of eye lens				0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.0858)|Lung(261;0.133)		TGCTGGTGGTCGGCATAGTCG	0.662													6	9					0	0	0.001984	0	0		T	208988895	T	T	208988895	3	4	115	1	0	0	0	0	1	0	0	0	3920	884	31	1	339	1	CRYGD	2	208988895	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	29570982	208988895	34210478	26	65676											
SCG2	7857	broad.mit.edu	37	chr2	224463718	224463718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcgggcaagtggctttcatCgccattttctttttgctgaa	6	16	9	10	2	2	1	1	1	1	0	4	1	2	1	1	2	1	3	1	2	2	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr2:224463718C>T	uc002vnm.2	-	2	416	c.283G>A	c.(283-285)GAT>AAT	p.D95N		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	95					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		TGGCTTTCATCGCCATTTTCT	0.463													17	79					0	0	0.006122	0	0		T	224463718	T	T	224463718	3	4	115	1	0	0	0	0	1	0	0	0	13916	884	31	1	1574	1	SCG2	2	224463718	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	15474823	224463718	18735655	27	65677											
CNTN6	27255	broad.mit.edu	37	chr3	1414148	1414148	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggagtggctcattttgaaaGgattggaggagtaagttact	12	12	14	3	0	1	1	1	1	0	0	1	5	1	5	0	5	1	3	0	5	3	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr3:1414148G>T	uc003boz.2	+	13	1925	c.1658G>T	c.(1657-1659)AGG>ATG	p.R553M	CNTN6_uc011asj.1_Missense_Mutation_p.R481M|CNTN6_uc003bpa.2_Missense_Mutation_p.R553M	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	553	Ig-like C2-type 6.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		CATTTTGAAAGGATTGGAGGA	0.358													8	35					0.00307968	0.00318098	0.00308	1	0		T	1414148	T	T	1414148	3	4	115	1	0	0	0	0	1	0	0	0	3648	1000	35	5	1704	5	CNTN6	3	1414148	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08		1414148	196608282	28	65678											
CPNE9	151835	broad.mit.edu	37	chr3	9756630	9756630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtgtacgactgggaccGggatggaaggtagaactgcc	10	8	16	7	2	0	2	0	1	0	1	0	6	0	5	2	4	3	2	2	4	4	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr3:9756630G>A	uc003bsd.2	+	10	854	c.683G>A	c.(682-684)CGG>CAG	p.R228Q		NM_153635	NP_705899	Q8IYJ1	CPNE9_HUMAN	copine-like protein	228	C2 2.									ovary(2)	2	Medulloblastoma(99;0.227)					GACTGGGACCGGGATGGAAGG	0.453													9	40					0	0	0.004482	0	0		A	9756630	A	A	9756630	3	1	115	1	0	0	0	0	1	0	0	0	3822	1116	39	1	721	1	CPNE9	3	9756630	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	8342482	9756630	188265800	29	65679											
BSN	8927	broad.mit.edu	37	chr3	49680203	49680203	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacccagggccagcctgcccCcagcaaggggacacctaaga	11	2	11	17	0	0	1	0	0	0	1	0	2	0	2	6	3	3	1	6	3	2	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr3:49680203C>A	uc003cxe.3	+	3	1250	c.1136C>A	c.(1135-1137)CCC>CAC	p.P379H		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	379					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CAGCCTGCCCCCAGCAAGGGG	0.652													22	41					7.41877e-09	7.97772e-09	0.012319	1	0		A	49680203	A	A	49680203	3	1	115	1	0	0	0	0	1	0	0	0	1533	623	22	5	1146	5	BSN	3	49680203	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	39923573	49680203	148342227	30	65680											
PCOLCE2	26577	broad.mit.edu	37	chr3	142567080	142567080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttcgtttggttcagcagCggagaacatggccatgaagc	9	11	12	9	2	2	2	1	1	1	1	3	3	2	2	1	3	4	3	1	3	2	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr3:142567080C>T	uc003evd.2	-	3	623	c.427G>A	c.(427-429)GCT>ACT	p.A143T		NM_013363	NP_037495	Q9UKZ9	PCOC2_HUMAN	procollagen C-endopeptidase enhancer 2	143	CUB 1.					extracellular region	collagen binding|heparin binding|peptidase activator activity			ovary(2)|skin(1)	3						GGTTCAGCAGCGGAGAACATG	0.458													9	51					0	0	0.006214	0	0		T	142567080	T	T	142567080	3	4	115	1	0	0	0	0	1	0	0	0	11614	768	27	1	848	1	PCOLCE2	3	142567080	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	92886877	142567080	55455350	31	65681											
MME	4311	broad.mit.edu	37	chr3	154832866	154832866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgcggaggctggttgaaaCgtaatgtcattcccgagacc	9	10	12	10	3	1	2	1	1	0	1	2	4	2	3	2	3	2	3	2	3	2	4			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr3:154832866C>T	uc010hvr.1	+	4	491	c.280C>T	c.(280-282)CGT>TGT	p.R94C	MME_uc003fab.1_Missense_Mutation_p.R94C|MME_uc003fac.1_Missense_Mutation_p.R94C|MME_uc003fad.1_Missense_Mutation_p.R94C|MME_uc003fae.1_Missense_Mutation_p.R94C	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	94	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	CTGGTTGAAACGTAATGTCAT	0.448													12	74					0	0	0.010729	0	0		T	154832866	T	T	154832866	3	4	115	1	0	0	0	0	1	0	0	0	9663	536	19	1	290	1	MME	3	154832866	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	12265786	154832866	43189564	32	65682											
FGF12	2257	broad.mit.edu	37	chr3	192053209	192053209	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggctagccttcactccttGgatggccactacacgcaggc	8	8	11	14	1	1	0	1	0	0	0	2	2	2	1	3	4	2	2	3	4	2	4			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr3:192053209G>A	uc003fsx.2	-	3	1181	c.355C>T	c.(355-357)CAA>TAA	p.Q119*	FGF12_uc003fsy.2_Nonsense_Mutation_p.Q57*	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	119					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		TTCACTCCTTGGATGGCCACT	0.458													22	38					0	0	0.012319	0	0		A	192053209	A	A	192053209	4	1	115	1	0	0	0	0	0	1	0	0	5855	1357	47	4	388	4	FGF12	3	192053209	Nonsense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	37220343	192053209	5969221	33	65683											
MUC4	4585	broad.mit.edu	37	chr3	195505783	195505783	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggctggtgacaggaagagggGtggcgtgacctgtggatgct	7	8	20	6	1	0	3	0	2	0	1	0	5	0	5	1	7	1	2	1	7	1	0			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr3:195505783G>C	uc011bto.1	-	3	12744	c.12284C>G	c.(12283-12285)ACC>AGC	p.T4095S	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_Intron|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Intron|MUC4_uc011bti.1_Intron|MUC4_uc011btj.1_Intron|MUC4_uc011btk.1_Intron|MUC4_uc011btl.1_Intron|MUC4_uc011btm.1_Intron|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	980	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGGAAGAGGGGTGGCGTGACC	0.592													6	6					0	0	0.001168	0	0		C	195505783	C	C	195505783	3	2	115	1	0	0	0	0	1	0	0	0	9996	1261	44	5		5	MUC4	3	195505783	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	3452574	195505783	2516647	34	65684											
KIAA1530	57654	broad.mit.edu	37	chr4	1345537	1345537	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgaatgctcggagtctggCagaaaggaagagagaagagg	15	4	16	6	2	1	4	0	0	1	4	2	8	1	6	0	4	1	2	0	4	4	0			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr4:1345537C>G	uc003gde.3	+	4	911	c.464C>G	c.(463-465)GCA>GGA	p.A155G		NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	155											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			CGGAGTCTGGCAGAAAGGAAG	0.373											OREG0016033	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	16					0	0	0.004482	0	0		G	1345537	G	G	1345537	3	3	115	1	0	0	0	0	1	0	0	0	8257	710	25	5	474	5	KIAA1530	4	1345537	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08		1345537	189808739	35	65685											
FRAS1	80144	broad.mit.edu	37	chr4	79396677	79396677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatatgccatcgtcctgtgtCgcaccgagcaaggcaccgcc	9	7	10	15	4	0	0	0	0	0	0	3	1	1	0	5	1	2	3	5	1	3	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr4:79396677C>T	uc003hlb.2	+	54	8208	c.7768C>T	c.(7768-7770)CGC>TGC	p.R2590C		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2589	Calx-beta 1.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						CGTCCTGTGTCGCACCGAGCA	0.577													5	28					0	0	0.001168	0	0		T	79396677	T	T	79396677	3	4	115	1	0	0	0	0	1	0	0	0	6056	884	31	1	8057	1	FRAS1	4	79396677	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	78051140	79396677	111757599	36	65686											
LEF1	51176	broad.mit.edu	37	chr4	108991888	108991888	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctttccgtgctaattcAtaatatttagcctgctcttc	7	19	4	11	1	3	0	1	0	2	0	5	0	4	0	2	0	3	2	2	0	4	9			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr4:108991888A>G	uc003hyt.1	-	9	1702	c.1047T>C	c.(1045-1047)TAT>TAC	p.Y349Y	LEF1_uc011cfj.1_Silent_p.Y206Y|LEF1_uc011cfk.1_Silent_p.Y253Y|LEF1_uc003hyu.1_Silent_p.Y321Y|LEF1_uc003hyv.1_Silent_p.Y321Y|LEF1_uc010imb.1_RNA|LEF1_uc003hys.1_RNA|LEF1_uc010ima.1_Silent_p.Y37Y|LEF1_uc003hyw.1_RNA	NM_016269	NP_057353	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1 isoform 1	349	HMG box.				canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		GTGCTAATTCATAATATTTAG	0.418													7	45					0	0	0.001984	0	0		G	108991888	G	G	108991888	2	3	115	1	0	0	0	0	0	0	0	1	8730	224	8	3		3	LEF1	4	108991888	Silent	SNP	A	TCGA-CD-8528-01A-11D-2340-08	29595211	108991888	82162388	37	65687											
HAND2	9464	broad.mit.edu	37	chr4	174450016	174450016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtagctggtggccaggCgcagggtcttgattttggag	6	11	17	7	2	1	1	0	1	1	0	1	3	1	2	1	5	1	3	1	5	1	4			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr4:174450016C>T	uc003ith.1	-	1	1363	c.425G>A	c.(424-426)CGC>CAC	p.R142H	NBLA00301_uc011ckd.1_5'Flank|NBLA00301_uc003itl.3_5'Flank|NBLA00301_uc003itj.2_5'Flank|NBLA00301_uc010irf.2_5'Flank|NBLA00301_uc010irg.2_5'Flank|NBLA00301_uc010irh.2_5'Flank|NBLA00301_uc010iri.2_5'Flank|NBLA00301_uc010irj.2_5'Flank|NBLA00301_uc010irk.2_5'Flank|NBLA00301_uc010irl.2_5'Flank|NBLA00301_uc010irm.2_5'Flank|NBLA00301_uc010irn.2_5'Flank|NBLA00301_uc003itk.2_5'Flank|HAND2_uc003itg.1_Silent_p.A107A|HAND2_uc010ire.1_Missense_Mutation_p.R142H	NM_021973	NP_068808	P61296	HAND2_HUMAN	basic helix-loop-helix transcription factor	142	Helix-loop-helix motif.				adult heart development|angiogenesis|apoptosis|cardiac neural crest cell development involved in outflow tract morphogenesis|heart looping|in utero embryonic development|negative regulation of cardiac muscle cell apoptosis|noradrenergic neuron differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|regulation of secondary heart field cardioblast proliferation|thymus development	nuclear chromatin|transcription factor complex	activating transcription factor binding|protein homodimerization activity|RNA polymerase II regulatory region sequence-specific DNA binding|transcription coactivator activity			skin(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0837)|all_hematologic(60;0.107)		all cancers(43;1.37e-18)|Epithelial(43;5.5e-17)|OV - Ovarian serous cystadenocarcinoma(60;3.3e-10)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		GGTGGCCAGGCGCAGGGTCTT	0.612													22	28					0	0	0.01892	0	0		T	174450016	T	T	174450016	3	4	115	1	0	0	0	0	1	0	0	0	6966	768	27	1	236	1	HAND2	4	174450016	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	65458128	174450016	16704260	38	65688											
FAT1	2195	broad.mit.edu	37	chr4	187557880	187557880	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggggccctcatccttgtcGgtggctatgacgtgatagag	6	12	14	9	2	1	3	1	2	0	1	3	3	2	3	2	4	0	1	2	4	2	4			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr4:187557880G>A	uc003izf.2	-	5	4019	c.3831C>T	c.(3829-3831)ACC>ACT	p.T1277T		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1277	Extracellular (Potential).|Cadherin 11.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CATCCTTGTCGGTGGCTATGA	0.493										HNSCC(5;0.00058)			43	127					0	0	0.009718	0	0		A	187557880	A	A	187557880	2	1	115	1	0	0	0	0	0	0	0	1	5703	1103	39	1		1	FAT1	4	187557880	Silent	SNP	G	TCGA-CD-8528-01A-11D-2340-08	13107864	187557880	3596396	39	65689											
UGT3A1	133688	broad.mit.edu	37	chr5	35965682	35965682	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtcaaatgtagactgcaTgtcccattggctcctggaga	9	12	11	9	0	1	2	1	0	0	2	3	3	3	2	2	2	1	4	2	2	2	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr5:35965682T>C	uc003jjv.1	-	4	806	c.649A>G	c.(649-651)ATG>GTG	p.M217V	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.M217V|UGT3A1_uc011cor.1_Missense_Mutation_p.M183V|UGT3A1_uc003jjy.1_Missense_Mutation_p.M163V	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	217	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GTAGACTGCATGTCCCATTGG	0.448													32	52					0	0	0.008361	0	0		C	35965682	C	C	35965682	3	2	115	1	0	0	0	0	1	0	0	0	16989	1464	51	3	1020	3	UGT3A1	5	35965682	Missense_Mutation	SNP	T	TCGA-CD-8528-01A-11D-2340-08		35965682	144949578	40	65690											
C5orf42	65250	broad.mit.edu	37	chr5	37170433	37170433	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgaagttgatctgttgcaGcttgaataaaacaaaaattg	16	12	8	5	0	1	3	0	3	1	0	1	3	1	3	0	0	3	4	0	0	6	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr5:37170433G>A	uc011cpa.1	-	33	6403	c.6172C>T	c.(6172-6174)CTG>TTG	p.L2058L	C5orf42_uc011coy.1_Silent_p.L558L|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Silent_p.L1133L|C5orf42_uc003jkr.1_Silent_p.L91L	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2058										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			ATCTGTTGCAGCTTGAATAAA	0.338													34	51					0	0	0.012213	0	0		A	37170433	A	A	37170433	2	1	115	1	0	0	0	0	0	0	0	1	2304	985	34	2		2	C5orf42	5	37170433	Silent	SNP	G	TCGA-CD-8528-01A-11D-2340-08	1204751	37170433	143744827	41	65691											
CHSY3	337876	broad.mit.edu	37	chr5	129241195	129241195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccacccctgcctgtcatcGcgctaccgggtgtggacgac	5	7	12	17	5	1	0	1	0	0	0	2	2	1	1	5	2	2	1	5	2	1	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr5:129241195G>A	uc003kvd.2	+	1	673	c.673G>A	c.(673-675)GCG>ACG	p.A225T		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	225	Lumenal (Potential).|Pro-rich.					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		GCCTGTCATCGCGCTACCGGG	0.612													8	34					0	0	0.00308	0	0		A	129241195	A	A	129241195	3	1	115	1	0	0	0	0	1	0	0	0	3416	1087	38	1	675	1	CHSY3	5	129241195	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	92070762	129241195	51674065	42	65692											
FBXO38	81545	broad.mit.edu	37	chr5	147806940	147806940	+	Frame_Shift_Del	DEL	A	-	-																															ctagggatattcctgaaaagAaaaaaaacaaggatgtttat																								rs78530338		TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr5:147806940delA	uc003lpf.1	+	15	2203	c.2083delA	c.(2083-2085)AAAfs	p.K695fs	FBXO38_uc003lpg.1_Frame_Shift_Del_p.K695fs|FBXO38_uc003lph.2_Intron	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	695						cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCTGAAAAGAAAAAAAACAA	0.502													13	10	---	---	---	---						.	-	147806940	-	-	147806940	7	5	115	1	0	1	0	1	0	0	0	0	5760	247	9	0	2137	0	FBXO38	5	147806940	Frame_Shift_Del	DEL	A	TCGA-CD-8528-01A-11D-2340-08	18565745	147806940	33108320	43	65693											
SLC36A2	153201	broad.mit.edu	37	chr5	150696616	150696616	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccaccagggagatgaccAggtccaggcgggggatgagg	10	3	18	10	1	0	3	0	2	0	1	1	5	1	4	4	6	1	0	4	6	0	0			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr5:150696616A>C	uc003lty.2	-	10	1344	c.1214T>G	c.(1213-1215)CTG>CGG	p.L405R	GM2A_uc011dcs.1_Intron|SLC36A2_uc003ltz.2_RNA|SLC36A2_uc003lua.2_Missense_Mutation_p.L207R	NM_181776	NP_861441	Q495M3	S36A2_HUMAN	solute carrier family 36, member 2	405	Helical; (Potential).				cellular nitrogen compound metabolic process	cytoplasm|integral to membrane|plasma membrane	glycine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGAGATGACCAGGTCCAGGCG	0.607													4	14					0	0	0.009096	0	0		C	150696616	C	C	150696616	3	2	115	1	0	0	0	0	1	0	0	0	14619	188	7	5	241	5	SLC36A2	5	150696616	Missense_Mutation	SNP	A	TCGA-CD-8528-01A-11D-2340-08	2889676	150696616	30218644	44	65694											
EEF1E1	9521	broad.mit.edu	37	chr6	8097522	8097522	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaacagtgtgtggatgtcaTttttactggagtgcccatct	8	15	10	8	0	3	0	2	0	1	0	3	2	3	2	1	2	3	0	1	2	2	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr6:8097522T>C	uc003mxz.2	-	2	340	c.266A>G	c.(265-267)AAT>AGT	p.N89S	EEF1E1_uc011dic.1_Missense_Mutation_p.N89S	NM_004280	NP_004271	O43324	MCA3_HUMAN	eukaryotic translation elongation factor 1	89	GST C-terminal.				negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of DNA damage response, signal transduction by p53 class mediator|tRNA aminoacylation for protein translation	cytosol|nucleus					0	Ovarian(93;0.0398)					GTGGATGTCATTTTTACTGGA	0.403													20	90					0	0	0.012319	0	0		C	8097522	C	C	8097522	3	2	115	1	0	0	0	0	1	0	0	0	4933	1493	52	3	310	3	EEF1E1	6	8097522	Missense_Mutation	SNP	T	TCGA-CD-8528-01A-11D-2340-08		8097522	163017545	45	65695											
HIVEP1	3096	broad.mit.edu	37	chr6	12125570	12125570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggatgctctaaatttgtcGttatagaacctataagtgaa	14	13	8	6	1	1	2	0	1	1	1	2	3	1	3	1	1	2	2	1	1	8	6			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr6:12125570G>A	uc003nac.2	+	4	5721	c.5542G>A	c.(5542-5544)GTT>ATT	p.V1848I	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1848					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				TAAATTTGTCGTTATAGAACC	0.338													15	67					0	0	0.003163	0	0		A	12125570	A	A	12125570	3	1	115	1	0	0	0	0	1	0	0	0	7202	1145	40	1	5552	1	HIVEP1	6	12125570	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	4028048	12125570	158989497	46	65696											
CRISP3	10321	broad.mit.edu	37	chr6	49704128	49704128	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcagcatgtttctggcaggGggagatactgctctcctcag	7	12	12	10	0	4	1	2	0	2	1	5	2	4	1	1	3	3	4	1	3	1	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr6:49704128G>C	uc003ozs.2	-	3	180	c.165C>G	c.(163-165)CCC>CCG	p.P55P		NM_006061	NP_006052	P54108	CRIS3_HUMAN	cysteine-rich secretory protein 3 precursor	55					innate immune response	proteinaceous extracellular matrix|specific granule				skin(2)	2	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			TTCTGGCAGGGGGAGATACTG	0.473													18	87					0	0	0.006122	0	0		C	49704128	C	C	49704128	2	2	115	1	0	0	0	0	0	0	0	1	3884	1219	43	5		5	CRISP3	6	49704128	Silent	SNP	G	TCGA-CD-8528-01A-11D-2340-08	37578558	49704128	121410939	47	65697											
REV3L	5980	broad.mit.edu	37	chr6	111652933	111652933	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatcatgcctaacttggtaAagtaaatctggaggtactct	13	13	8	7	0	3	0	1	0	2	0	3	1	3	1	1	3	3	3	1	3	7	6			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr6:111652933A>G	uc003puy.3	-	24	8303	c.7980T>C	c.(7978-7980)CTT>CTC	p.L2660L	REV3L_uc003pux.3_Silent_p.L2582L|REV3L_uc003puz.3_Silent_p.L2582L|REV3L_uc003pva.1_RNA	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2660					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TAACTTGGTAAAGTAAATCTG	0.363								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					30	42					0	0	0.009535	0	0		G	111652933	G	G	111652933	2	3	115	1	0	0	0	0	0	0	0	1	13265	1	1	3		3	REV3L	6	111652933	Silent	SNP	A	TCGA-CD-8528-01A-11D-2340-08	61948805	111652933	59462134	48	65698											
PDE1C	5137	broad.mit.edu	37	chr7	31917586	31917586	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttcactcgtattaccttTaatgcctcaataacagctgg	10	15	5	11	1	2	0	2	0	0	0	3	0	2	0	2	1	4	2	2	1	5	7			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr7:31917586T>G	uc003tcm.1	-	5	958	c.489A>C	c.(487-489)TTA>TTC	p.L163F	PDE1C_uc003tcn.1_Missense_Mutation_p.L163F|PDE1C_uc003tco.1_Missense_Mutation_p.L223F|PDE1C_uc003tcr.2_Missense_Mutation_p.L163F|PDE1C_uc003tcs.2_Missense_Mutation_p.L163F	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	163					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			GTATTACCTTTAATGCCTCAA	0.333													5	39					0	0	0.001168	0	0		G	31917586	G	G	31917586	3	3	115	1	0	0	0	0	1	0	0	0	11654	1751	61	5	1467	5	PDE1C	7	31917586	Missense_Mutation	SNP	T	TCGA-CD-8528-01A-11D-2340-08		31917586	127221077	49	65699											
KIAA1324L	222223	broad.mit.edu	37	chr7	86542424	86542424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacccgactgttcagaacCgagggcacaggcacggcatg	11	5	13	12	3	1	2	1	1	0	1	1	4	1	2	2	3	2	4	2	3	2	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr7:86542424C>T	uc011kha.1	-	14	2013	c.1828G>A	c.(1828-1830)GGT>AGT	p.G610S	KIAA1324L_uc003uif.1_Missense_Mutation_p.G370S|KIAA1324L_uc011kgz.1_Missense_Mutation_p.G496S|KIAA1324L_uc003uie.2_Missense_Mutation_p.G443S	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	610	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					TGTTCAGAACCGAGGGCACAG	0.507													23	30					0	0	0.014323	0	0		T	86542424	T	T	86542424	3	4	115	1	0	0	0	0	1	0	0	0	8240	652	23	1	1297	1	KIAA1324L	7	86542424	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	54624838	86542424	72596239	50	65700											
OR2F2	135948	broad.mit.edu	37	chr7	143632642	143632642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagttatttttctccctggCcttgggtgggattgagtttg	4	17	12	8	0	1	1	0	1	1	0	2	2	1	2	3	3	0	2	3	3	1	6			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr7:143632642C>T	uc011ktv.1	+	1	317	c.317C>T	c.(316-318)GCC>GTC	p.A106V		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	106	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					TTCTCCCTGGCCTTGGGTGGG	0.547													13	55					0	0	0.003163	0	0		T	143632642	T	T	143632642	3	4	115	1	0	0	0	0	1	0	0	0	11016	739	26	2	319	2	OR2F2	7	143632642	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	57090218	143632642	15506021	51	65701											
PDIA4	9601	broad.mit.edu	37	chr7	148701057	148701057	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatagcggtcgctggggacGtcgttggcagtggcgtccat	5	11	16	9	5	0	0	0	0	0	0	3	1	1	1	1	5	1	3	1	5	2	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr7:148701057G>A	uc003wff.2	-	10	2049	c.1767C>T	c.(1765-1767)GAC>GAT	p.D589D		NM_004911	NP_004902	P13667	PDIA4_HUMAN	protein disulfide isomerase A4 precursor	589	Thioredoxin 3.				cell redox homeostasis|glycerol ether metabolic process|protein secretion	endoplasmic reticulum lumen|melanosome	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			lung(5)|ovary(1)	6	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00385)			CGCTGGGGACGTCGTTGGCAG	0.577													15	30					0	0	0.020292	0	0		A	148701057	A	A	148701057	2	1	115	1	0	0	0	0	0	0	0	1	11689	1136	40	1		1	PDIA4	7	148701057	Silent	SNP	G	TCGA-CD-8528-01A-11D-2340-08	5068415	148701057	10437606	52	65702											
GALNTL5	168391	broad.mit.edu	37	chr7	151684285	151684285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actatcacctggaaacttttCggggaaaggttaaaataata	16	11	8	6	1	1	0	1	0	0	0	2	2	1	2	1	4	1	1	1	4	7	6			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr7:151684285C>T	uc003wkp.2	+	5	800	c.577C>T	c.(577-579)CGG>TGG	p.R193W	GALNTL5_uc003wkq.2_Intron|GALNTL5_uc003wkr.2_RNA|GALNTL5_uc003wks.2_RNA|GALNTL5_uc010lqf.2_Missense_Mutation_p.R82W	NM_145292	NP_660335	Q7Z4T8	GLTL5_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	193	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2	all_neural(206;0.187)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00427)	UCEC - Uterine corpus endometrioid carcinoma (81;0.18)|BRCA - Breast invasive adenocarcinoma(188;0.166)		GGAAACTTTTCGGGGAAAGGT	0.378													7	8					0	0	0.00308	0	0		T	151684285	T	T	151684285	3	4	115	1	0	0	0	0	1	0	0	0	6239	875	31	1	591	1	GALNTL5	7	151684285	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	2983228	151684285	7454378	53	65703											
PTPRN2	5799	broad.mit.edu	37	chr7	157931093	157931093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagctactccatggtccacgCcttgcatcaggccagccatc	8	8	9	16	1	1	0	1	0	0	0	4	1	3	0	5	2	4	2	5	2	1	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr7:157931093C>T	uc003wno.2	-	7	1146	c.1025G>A	c.(1024-1026)GGC>GAC	p.G342D	PTPRN2_uc003wnp.2_Missense_Mutation_p.G325D|PTPRN2_uc003wnq.2_Missense_Mutation_p.G342D|PTPRN2_uc003wnr.2_Missense_Mutation_p.G304D|PTPRN2_uc011kwa.1_Missense_Mutation_p.G365D	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	342	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		ATGGTCCACGCCTTGCATCAG	0.672													9	14					0	0	0.006214	0	0		T	157931093	T	T	157931093	3	4	115	1	0	0	0	0	1	0	0	0	12833	739	26	2	2090	2	PTPRN2	7	157931093	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	6246808	157931093	1207570	54	65704											
PTPRN2	5799	broad.mit.edu	37	chr7	157959936	157959936	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggtaggtcagcgcagaCgtgtgggccacataggtcag	9	6	18	8	2	2	1	2	0	0	1	2	2	2	2	1	5	1	2	1	5	2	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr7:157959936C>T	uc003wno.2	-	6	718	c.597G>A	c.(595-597)ACG>ACA	p.T199T	PTPRN2_uc003wnp.2_Silent_p.T182T|PTPRN2_uc003wnq.2_Silent_p.T199T|PTPRN2_uc003wnr.2_Silent_p.T161T|PTPRN2_uc011kwa.1_Silent_p.T222T	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	199	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		TCAGCGCAGACGTGTGGGCCA	0.622													4	18					0	0	0.014758	0	0		T	157959936	T	T	157959936	2	4	115	1	0	0	0	0	0	0	0	1	12833	523	19	1		1	PTPRN2	7	157959936	Silent	SNP	C	TCGA-CD-8528-01A-11D-2340-08	28843	157959936	1178727	55	65705											
SLC25A37	51312	broad.mit.edu	37	chr8	23429083	23429083	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatctcaggcgggctggcCggggccctcgccgcggccgc	3	5	16	17	6	2	0	2	0	1	0	4	0	2	0	4	6	0	1	4	6	0	0			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr8:23429083C>T	uc003xdo.2	+	4	885	c.732C>T	c.(730-732)GCC>GCT	p.A244A	SLC25A37_uc003xdp.2_RNA|SLC25A37_uc010ltz.2_RNA|SLC25A37_uc003xdq.2_RNA|SLC25A37_uc003xdr.1_RNA|uc003xds.2_5'Flank	NM_016612	NP_057696	Q9NYZ2	MFRN1_HUMAN	solute carrier family 25, member 37	244	Solcar 3.|Helical; Name=5; (Potential).				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Prostate(55;0.114)		Colorectal(74;0.0198)|COAD - Colon adenocarcinoma(73;0.0751)		GCGGGCTGGCCGGGGCCCTCG	0.647													5	20					0	0	0.014758	0	0		T	23429083	T	T	23429083	2	4	115	1	0	0	0	0	0	0	0	1	14526	639	23	1		1	SLC25A37	8	23429083	Silent	SNP	C	TCGA-CD-8528-01A-11D-2340-08		23429083	122934939	56	65706											
KCNU1	157855	broad.mit.edu	37	chr8	36698509	36698509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaatacaagtccctctttaCggatggtttctggtaccaat	10	13	8	10	2	2	0	0	0	2	0	3	2	3	1	2	3	3	2	2	3	6	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr8:36698509C>T	uc010lvw.2	+	16	1778	c.1691C>T	c.(1690-1692)ACG>ATG	p.T564M	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	564	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		TCCCTCTTTACGGATGGTTTC	0.403													3	18					0	0	0.004672	0	0		T	36698509	T	T	36698509	3	4	115	1	0	0	0	0	1	0	0	0	8109	536	19	1	1753	1	KCNU1	8	36698509	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	13269426	36698509	109665513	57	65707											
MCM4	4173	broad.mit.edu	37	chr8	48889314	48889314	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatttcctgacagtgacTgggaagaccgtgcgcttgct	8	11	13	9	2	0	4	0	3	0	1	1	6	1	5	2	1	2	2	2	1	1	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr8:48889314T>C	uc003xqk.1	+	17	2663	c.2568T>C	c.(2566-2568)ACT>ACC	p.T856T	MCM4_uc003xql.1_Silent_p.T856T|MCM4_uc011ldi.1_Silent_p.T843T	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	856					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				TGACAGTGACTGGGAAGACCG	0.493													8	33					0	0	0.00308	0	0		C	48889314	C	C	48889314	2	2	115	1	0	0	0	0	0	0	0	1	9407	1567	55	3		3	MCM4	8	48889314	Silent	SNP	T	TCGA-CD-8528-01A-11D-2340-08	12190805	48889314	97474708	58	65708											
NSMAF	8439	broad.mit.edu	37	chr8	59535981	59535981	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggcaggatgctctgtgAagctacagtatcataaacag	14	9	10	8	0	3	1	2	1	1	0	3	2	3	2	0	2	4	4	0	2	6	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr8:59535981A>T	uc003xtt.2	-	8	673	c.459T>A	c.(457-459)CTT>CTA	p.L153L	NSMAF_uc011lee.1_Silent_p.L184L|NSMAF_uc003xtu.2_Silent_p.L153L	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	153					ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				ATGCTCTGTGAAGCTACAGTA	0.338													23	61					0	0	0.01892	0	0		T	59535981	T	T	59535981	2	4	115	1	0	0	0	0	0	0	0	1	10693	233	9	5		5	NSMAF	8	59535981	Silent	SNP	A	TCGA-CD-8528-01A-11D-2340-08	10646667	59535981	86828041	59	65709											
EFR3A	23167	broad.mit.edu	37	chr8	132997219	132997219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taatttgccaatgttccatcGttgtggaatcatggcactgg	9	14	10	8	1	1	0	1	0	0	0	3	1	2	1	2	3	1	3	2	3	3	4			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr8:132997219G>A	uc003yte.2	+	16	1982	c.1781G>A	c.(1780-1782)CGT>CAT	p.R594H		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	594						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			ATGTTCCATCGTTGTGGAATC	0.383													13	51					0	0	0.016723	0	0		A	132997219	A	A	132997219	3	1	115	1	0	0	0	0	1	0	0	0	4964	1145	40	1	1843	1	EFR3A	8	132997219	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	73461238	132997219	13366803	60	65710											
ZNF658	26149	broad.mit.edu	37	chr9	40774433	40774433	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtattcaacagcggtggttTtgtcacaggatgtcccatat	9	14	10	8	1	2	0	2	0	0	0	3	1	3	1	1	3	2	2	1	3	3	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr9:40774433T>A	uc004abs.2	-	5	994	c.842A>T	c.(841-843)AAA>ATA	p.K281I	ZNF658_uc010mmm.1_Missense_Mutation_p.K281I|ZNF658_uc010mmn.1_Missense_Mutation_p.K281I	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	281					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		AGCGGTGGTTTTGTCACAGGA	0.373													72	76					0	0	0.01441	0	0		A	40774433	A	A	40774433	3	1	115	1	0	0	0	0	1	0	0	0	18094	1841	64	5	2341	5	ZNF658	9	40774433	Missense_Mutation	SNP	T	TCGA-CD-8528-01A-11D-2340-08		40774433	100438998	61	65711											
PHF2	5253	broad.mit.edu	37	chr9	96428068	96428068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggatgagtatgagtacGtgtcggatgacggtgagctc	8	10	17	6	4	0	4	0	4	0	0	2	6	0	6	0	3	3	3	0	3	2	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr9:96428068G>A	uc004aub.2	+	15	2185	c.2038G>A	c.(2038-2040)GTG>ATG	p.V680M	PHF2_uc011lug.1_Missense_Mutation_p.V563M|PHF2_uc004auc.2_Missense_Mutation_p.V99M	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	680					liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		GTATGAGTACGTGTCGGATGA	0.587													40	35					0	0	0.007835	0	0		A	96428068	A	A	96428068	3	1	115	1	0	0	0	0	1	0	0	0	11849	1145	40	1	2096	1	PHF2	9	96428068	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	55653635	96428068	44785363	62	65712											
TNC	3371	broad.mit.edu	37	chr9	117825304	117825304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctgggatttccatggaacGcaggctgccaggaaccgtga	9	7	14	11	2	0	1	0	1	0	0	1	4	1	4	4	4	3	2	4	4	2	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr9:117825304G>A	uc004bjj.3	-	13	4287	c.3925C>T	c.(3925-3927)CGT>TGT	p.R1309C	TNC_uc010mvf.2_Missense_Mutation_p.R1309C	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1309	Fibronectin type-III 8.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TCCATGGAACGCAGGCTGCCA	0.592													5	23					0	0	0.014758	0	0		A	117825304	A	A	117825304	3	1	115	1	0	0	0	0	1	0	0	0	16295	1087	38	1	2744	1	TNC	9	117825304	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	21397236	117825304	23388127	63	65713											
ASTN2	23245	broad.mit.edu	37	chr9	119976939	119976939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcgctcttctgggggatgCggcgacgcttctgccaacgt	4	11	14	12	5	3	0	0	0	3	0	3	2	3	1	1	3	4	2	1	3	1	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr9:119976939C>T	uc004bjs.1	-	3	814	c.713G>A	c.(712-714)CGC>CAC	p.R238H	ASTN2_uc004bjr.1_Missense_Mutation_p.R238H|ASTN2_uc004bjt.1_Missense_Mutation_p.R238H	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	238	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CTGGGGGATGCGGCGACGCTT	0.637													5	24					0	0	0.014758	0	0		T	119976939	T	T	119976939	3	4	115	1	0	0	0	0	1	0	0	0	1066	768	27	1	3465	1	ASTN2	9	119976939	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	2151635	119976939	21236492	64	65714											
CACNA1B	774	broad.mit.edu	37	chr9	140777327	140777327	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcatggacttcgtggtcgtCctcacagggtaggcaagctg	7	10	14	10	2	2	0	2	0	0	0	5	1	3	1	1	4	1	3	1	4	2	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr9:140777327C>T	uc004cog.2	+	3	667	c.522C>T	c.(520-522)GTC>GTT	p.V174V	uc004cof.1_RNA	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	174	Helical; Name=S3 of repeat I; (Potential).|I.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TCGTGGTCGTCCTCACAGGGT	0.612													28	128					0	0	0.008361	0	0		T	140777327	T	T	140777327	2	4	115	1	0	0	0	0	0	0	0	1	2542	842	30	4		4	CACNA1B	9	140777327	Silent	SNP	C	TCGA-CD-8528-01A-11D-2340-08	20800388	140777327	436104	65	65715											
OSBPL5	114879	broad.mit.edu	37	chr11	3115056	3115056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgatgctggtgctaccccCgaagaagggctgcggggcca	7	7	16	11	2	0	2	0	1	0	1	0	3	0	2	3	4	4	4	3	4	3	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr11:3115056C>T	uc001lxk.2	-	16	1887	c.1729G>A	c.(1729-1731)GGG>AGG	p.G577R	OSBPL5_uc010qxq.1_Missense_Mutation_p.G488R|OSBPL5_uc009ydw.2_Missense_Mutation_p.G509R|OSBPL5_uc001lxl.2_Missense_Mutation_p.G509R|OSBPL5_uc009ydx.2_Missense_Mutation_p.G601R|OSBPL5_uc001lxj.2_Missense_Mutation_p.G31R	NM_020896	NP_065947	Q9H0X9	OSBL5_HUMAN	oxysterol-binding protein-like protein 5 isoform	577					cholesterol metabolic process|cholesterol transport|Golgi to plasma membrane transport	cytosol	oxysterol binding|protein binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		GTGCTACCCCCGAAGAAGGGC	0.627													7	9					0	0	0.001984	0	0		T	3115056	T	T	3115056	3	4	115	1	0	0	0	0	1	0	0	0	11299	652	23	1	938	1	OSBPL5	11	3115056	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08		3115056	131891460	66	65716											
OR4A47	403253	broad.mit.edu	37	chr11	48510483	48510483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgctcattgtagtgaccGtaactgtcagtgagaccctg	9	11	10	11	1	2	2	2	2	0	1	2	3	2	2	3	0	2	3	3	0	2	3	rs142333570	byFrequency	TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr11:48510483G>A	uc010rhx.1	+	1	139	c.139G>A	c.(139-141)GTA>ATA	p.V47I		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	47	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGTAGTGACCGTAACTGTCAG	0.418													18	29					0	0	0.00499	0	0		A	48510483	A	A	48510483	3	1	115	1	0	0	0	0	1	0	0	0	11061	1145	40	1	141	1	OR4A47	11	48510483	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	45395427	48510483	86496033	67	65717											
OR5M3	219482	broad.mit.edu	37	chr11	56237295	56237295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccttccttctgctgagcGcattcgcagaatggcaatga	8	11	10	12	2	1	3	0	2	1	1	3	3	2	3	2	1	3	4	2	1	2	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr11:56237295G>A	uc010rjk.1	-	1	679	c.679C>T	c.(679-681)CGC>TGC	p.R227C		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TCTGCTGAGCGCATTCGCAGA	0.418													21	23					0	0	0.012319	0	0		A	56237295	A	A	56237295	3	1	115	1	0	0	0	0	1	0	0	0	11194	1087	38	1	246	1	OR5M3	11	56237295	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	7726812	56237295	78769221	68	65718											
DSCAML1	57453	broad.mit.edu	37	chr11	117651260	117651260	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgccggcagcgttctccgcGgtgcagaagtagtcattgtc	6	11	13	11	4	2	1	1	0	1	1	4	1	2	1	2	2	3	4	2	2	2	4			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr11:117651260G>A	uc001prh.1	-	2	494	c.492C>T	c.(490-492)ACC>ACT	p.T164T	DSCAML1_uc001pri.1_5'UTR	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	104	Extracellular (Potential).|Ig-like C2-type 1.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CGTTCTCCGCGGTGCAGAAGT	0.622													46	58					0	0	0.01441	0	0		A	117651260	A	A	117651260	2	1	115	1	0	0	0	0	0	0	0	1	4775	1103	39	1		1	DSCAML1	11	117651260	Silent	SNP	G	TCGA-CD-8528-01A-11D-2340-08	61413965	117651260	17355256	69	65719											
CACNA1C	775	broad.mit.edu	37	chr12	2788847	2788847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaacaacaccgccctgggtCgcctccctcgccccgccggc	5	4	9	23	5	0	0	0	0	0	0	3	0	1	0	8	2	2	0	8	2	2	0			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr12:2788847C>T	uc009zdu.1	+	44	5786	c.5473C>T	c.(5473-5475)CGC>TGC	p.R1825C	CACNA1C_uc009zdv.1_Missense_Mutation_p.R1774C|CACNA1C_uc001qkb.2_Missense_Mutation_p.R1777C|CACNA1C_uc001qkc.2_Missense_Mutation_p.R1796C|CACNA1C_uc001qke.2_Missense_Mutation_p.R1766C|CACNA1C_uc001qkf.2_Missense_Mutation_p.R1785C|CACNA1C_uc001qjz.2_Missense_Mutation_p.R1777C|CACNA1C_uc001qkd.2_Missense_Mutation_p.R1796C|CACNA1C_uc001qkg.2_Missense_Mutation_p.R1783C|CACNA1C_uc009zdw.1_Missense_Mutation_p.R1818C|CACNA1C_uc001qkh.2_Missense_Mutation_p.R1785C|CACNA1C_uc001qkl.2_Missense_Mutation_p.R1825C|CACNA1C_uc001qkn.2_Missense_Mutation_p.R1777C|CACNA1C_uc001qko.2_Missense_Mutation_p.R1797C|CACNA1C_uc001qkp.2_Missense_Mutation_p.R1777C|CACNA1C_uc001qkr.2_Missense_Mutation_p.R1794C|CACNA1C_uc001qku.2_Missense_Mutation_p.R1777C|CACNA1C_uc001qkq.2_Missense_Mutation_p.R1805C|CACNA1C_uc001qks.2_Missense_Mutation_p.R1777C|CACNA1C_uc001qkt.2_Missense_Mutation_p.R1796C|CACNA1C_uc001qki.1_Missense_Mutation_p.R1513C|CACNA1C_uc001qkj.1_Missense_Mutation_p.R1513C|CACNA1C_uc001qkk.1_Missense_Mutation_p.R1513C|CACNA1C_uc001qkm.1_Missense_Mutation_p.R1502C|CACNA1C_uc010sea.1_Missense_Mutation_p.R468C|uc001qkx.1_Intron|CACNA1C_uc001qky.1_Missense_Mutation_p.R95C	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1825	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CGCCCTGGGTCGCCTCCCTCG	0.677													5	6					0	0	0.014758	0	0		T	2788847	T	T	2788847	3	4	115	1	0	0	0	0	1	0	0	0	2543	884	31	1	5878	1	CACNA1C	12	2788847	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08		2788847	131063048	70	65720											
ACRBP	84519	broad.mit.edu	37	chr12	6748124	6748124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaggggtgctcaccttcCgattgcggtttctcatcaga	6	11	13	11	2	3	1	3	0	1	1	5	2	4	1	2	4	2	3	2	4	0	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr12:6748124C>T	uc001qpu.1	-	9	1553	c.1505G>A	c.(1504-1506)CGG>CAG	p.R502Q	LPAR5_uc001qps.2_5'Flank|LPAR5_uc010sff.1_5'UTR|ACRBP_uc001qpt.1_5'Flank|ACRBP_uc010sfg.1_Missense_Mutation_p.R469Q	NM_032489	NP_115878	Q8NEB7	ACRBP_HUMAN	proacrosin binding protein sp32 precursor	502						acrosomal vesicle|extracellular region				central_nervous_system(1)	1						GCTCACCTTCCGATTGCGGTT	0.532													10	45					0	0	0.006214	0	0		T	6748124	T	T	6748124	3	4	115	1	0	0	0	0	1	0	0	0	170	652	23	1	134	1	ACRBP	12	6748124	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	3959277	6748124	127103771	71	65721											
CDCA3	83461	broad.mit.edu	37	chr12	6958779	6958779	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcttgtcggagctctggCtggccacaggggtttctgtg	4	11	17	9	1	2	0	0	0	2	0	3	1	2	1	1	6	1	4	1	6	0	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr12:6958779C>G	uc001qrg.2	-	4	622	c.494G>C	c.(493-495)AGC>ACC	p.S165T	CDCA3_uc001qre.2_Missense_Mutation_p.S165T|uc001qrf.1_5'Flank|USP5_uc001qri.3_5'Flank|USP5_uc001qrh.3_5'Flank	NM_031299	NP_112589	Q99618	CDCA3_HUMAN	cell division cycle associated 3	165					cell division|mitosis	cytosol					0						GGAGCTCTGGCTGGCCACAGG	0.512													28	55					0	0	0.00632	0	0		G	6958779	G	G	6958779	3	3	115	1	0	0	0	0	1	0	0	0	3090	797	28	5	324	5	CDCA3	12	6958779	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	210655	6958779	126893116	72	65722											
ABCC9	10060	broad.mit.edu	37	chr12	22001093	22001093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaagatctaccttcgtcttCgtcctccatctgggctttgg	7	14	8	12	2	3	1	0	0	3	1	7	1	5	1	3	2	1	1	3	2	3	4	rs143685061		TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr12:22001093C>T	uc001rfi.1	-	23	2877	c.2857G>A	c.(2857-2859)GAA>AAA	p.E953K	ABCC9_uc001rfh.2_Missense_Mutation_p.E953K|ABCC9_uc001rfj.1_Missense_Mutation_p.E917K	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	953	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CCTTCGTCTTCGTCCTCCATC	0.418													4	26					0	0	0.009096	0	0		T	22001093	T	T	22001093	3	4	115	1	0	0	0	0	1	0	0	0	59	893	31	1	1998	1	ABCC9	12	22001093	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	15042314	22001093	111850802	73	65723											
C12orf40	283461	broad.mit.edu	37	chr12	40114807	40114807	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtttccacagttgcagtgCaattcagcccacattttgca	10	12	7	12	0	1	0	1	0	0	0	2	0	2	0	2	0	4	5	2	0	1	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr12:40114807C>T	uc001rmc.2	+	13	1880	c.1713C>T	c.(1711-1713)TGC>TGT	p.C571C	C12orf40_uc009zjv.1_Intron	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	571								p.C571G(1)		ovary(6)	6						AGTTGCAGTGCAATTCAGCCC	0.388													20	39					0	0	0.008871	0	0		T	40114807	T	T	40114807	2	4	115	1	0	0	0	0	0	0	0	1	1689	718	25	2		2	C12orf40	12	40114807	Silent	SNP	C	TCGA-CD-8528-01A-11D-2340-08	18113714	40114807	93737088	74	65724											
TMTC2	160335	broad.mit.edu	37	chr12	83251144	83251144	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgatgtcggggccagtctcTtctttctcctctccttgctc	2	15	8	16	2	4	0	0	0	4	0	9	1	4	0	4	2	1	1	4	2	0	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr12:83251144T>G	uc001szt.2	+	2	871	c.439T>G	c.(439-441)TTC>GTC	p.F147V	TMTC2_uc001szr.1_Missense_Mutation_p.F147V|TMTC2_uc001szs.1_Missense_Mutation_p.F147V|TMTC2_uc010suk.1_Intron	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	147	Helical; (Potential).					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						GGCCAGTCTCTTCTTTCTCCT	0.552													8	38					0	0	0.016723	0	0		G	83251144	G	G	83251144	3	3	115	1	0	0	0	0	1	0	0	0	16286	1609	56	5	445	5	TMTC2	12	83251144	Missense_Mutation	SNP	T	TCGA-CD-8528-01A-11D-2340-08	43136337	83251144	50600751	75	65725											
DNAH10	196385	broad.mit.edu	37	chr12	124416550	124416550	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggccaggtctctttttatCgggcatatccctaatatctg	7	15	9	10	1	2	0	0	0	2	0	5	0	3	0	2	3	0	1	2	3	4	6			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr12:124416550C>T	uc001uft.3	+	75	12862	c.12837C>T	c.(12835-12837)ATC>ATT	p.I4279I	DNAH10_uc001ufu.3_Silent_p.I192I	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	4279					microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		CTCTTTTTATCGGGCATATCC	0.478													21	39					0	0	0.010504	0	0		T	124416550	T	T	124416550	2	4	115	1	0	0	0	0	0	0	0	1	4604	874	31	1		1	DNAH10	12	124416550	Silent	SNP	C	TCGA-CD-8528-01A-11D-2340-08	41165406	124416550	9435345	76	65726											
NUPL1	9818	broad.mit.edu	37	chr13	25883397	25883397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccccaggaatagcaacaaCtataactacaggattaactc	16	8	6	11	0	0	0	0	0	0	0	2	2	1	2	2	2	6	1	2	2	8	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr13:25883397C>T	uc001uqi.2	+	3	509	c.263C>T	c.(262-264)ACT>ATT	p.T88I	NUPL1_uc001uqg.1_Missense_Mutation_p.T88I|NUPL1_uc001uqj.2_Intron	NM_014089	NP_054808	Q9BVL2	NUPL1_HUMAN	nucleoporin like 1 isoform a	88	14 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore					0		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.0092)|Epithelial(112;0.0477)|OV - Ovarian serous cystadenocarcinoma(117;0.165)|GBM - Glioblastoma multiforme(144;0.244)		ATAGCAACAACTATAACTACA	0.318													10	11					0	0	0.013537	0	0		T	25883397	T	T	25883397	3	4	115	1	0	0	0	0	1	0	0	0	10793	565	20	4	273	4	NUPL1	13	25883397	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08		25883397	89286481	77	65727											
TUBGCP3	10426	broad.mit.edu	37	chr13	113212621	113212621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggctgactgggcactcCgatcttggtagctcagggga	6	10	15	10	1	3	1	1	1	2	0	4	3	4	2	1	5	1	4	1	5	1	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr13:113212621C>T	uc001vse.1	-	5	624	c.437G>A	c.(436-438)CGG>CAG	p.R146Q	TUBGCP3_uc010tjq.1_Missense_Mutation_p.R136Q|TUBGCP3_uc001vsf.2_Missense_Mutation_p.R146Q|TUBGCP3_uc001vsg.1_Missense_Mutation_p.R146Q	NM_006322	NP_006313	Q96CW5	GCP3_HUMAN	tubulin, gamma complex associated protein 3	146					G2/M transition of mitotic cell cycle|microtubule nucleation|single fertilization	centriole|cytosol|polar microtubule	gamma-tubulin binding|structural constituent of cytoskeleton			central_nervous_system(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)					CTGGGCACTCCGATCTTGGTA	0.602													7	16					0	0	0.001984	0	0		T	113212621	T	T	113212621	3	4	115	1	0	0	0	0	1	0	0	0	16793	652	23	1	2358	1	TUBGCP3	13	113212621	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	87329224	113212621	1957257	78	65728											
MAPK1IP1L	93487	broad.mit.edu	37	chr14	55529793	55529793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgggcgccaggaatgggagGgcagtatcctacccctaata	10	8	13	10	1	0	0	0	0	0	0	1	2	1	2	4	4	1	2	4	4	5	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr14:55529793G>A	uc001xbq.1	+	3	640	c.476G>A	c.(475-477)GGG>GAG	p.G159E		NM_144578	NP_653179	Q8NDC0	MISSL_HUMAN	MAPK-interacting and spindle-stabilizing	159	Pro-rich.										0						GGAATGGGAGGGCAGTATCCT	0.597													14	39					0	0	0.016723	0	0		A	55529793	A	A	55529793	3	1	115	1	0	0	0	0	1	0	0	0	9296	1232	43	4	482	4	MAPK1IP1L	14	55529793	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08		55529793	51819747	79	65729											
PLD4	122618	broad.mit.edu	37	chr14	105398406	105398406	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcggcaagggcgtgcgCgtgcgcctgctggtcggctg	2	8	18	13	6	0	0	0	0	0	0	2	0	0	0	2	4	3	3	2	4	1	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr14:105398406C>T	uc001ypu.1	+	9	1257	c.1116C>T	c.(1114-1116)CGC>CGT	p.R372R	PLD4_uc010tyl.1_Silent_p.R379R	NM_138790	NP_620145	Q96BZ4	PLD4_HUMAN	phospholipase D4	372					lipid catabolic process	integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity			central_nervous_system(1)|skin(1)	2		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.00067)|OV - Ovarian serous cystadenocarcinoma(23;0.00976)|Epithelial(46;0.0201)|GBM - Glioblastoma multiforme(11;0.116)		Choline(DB00122)	AGGGCGTGCGCGTGCGCCTGC	0.711													3	7					0	0	0.009096	0	0		T	105398406	T	T	105398406	2	4	115	1	0	0	0	0	0	0	0	1	12067	755	27	1		1	PLD4	14	105398406	Silent	SNP	C	TCGA-CD-8528-01A-11D-2340-08	49868613	105398406	1951134	80	65730											
ATP10A	57194	broad.mit.edu	37	chr15	25928567	25928567	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagaagattagataccactGgtcaatcatggtagatgcag	16	9	10	6	0	2	4	2	0	0	4	2	4	2	4	1	2	2	2	1	2	6	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr15:25928567G>T	uc010ayu.2	-	17	3464	c.3358C>A	c.(3358-3360)CAG>AAG	p.Q1120K		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1120	Helical; (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		AGATACCACTGGTCAATCATG	0.498													10	28					3.86212e-05	4.04235e-05	0.008291	1	0		T	25928567	T	T	25928567	3	4	115	1	0	0	0	0	1	0	0	0	1117	1357	47	5	1161	5	ATP10A	15	25928567	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08		25928567	76602825	81	65731											
HBQ1	3049	broad.mit.edu	37	chr16	231013	231013	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctggtaaccctcgcccGgcactaccccggagacttca	7	7	9	18	3	1	1	1	0	0	1	2	2	1	1	5	3	3	3	5	3	2	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr16:231013G>A	uc002cfz.2	+	3	486	c.335G>A	c.(334-336)CGG>CAG	p.R112Q		NM_005331	NP_005322	P09105	HBAT_HUMAN	theta 1 globin	112						hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		all_cancers(16;2.03e-06)|all_epithelial(16;5.16e-06)|Hepatocellular(16;0.000325)|Lung NSC(18;0.0138)|all_lung(18;0.0306)				ACCCTCGCCCGGCACTACCCC	0.701													7	19					0	0	0.00308	0	0		A	231013	A	A	231013	3	1	115	1	0	0	0	0	1	0	0	0	7002	1116	39	1	345	1	HBQ1	16	231013	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08		231013	90123740	82	65732											
ACSM3	6296	broad.mit.edu	37	chr16	20793081	20793081	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcagcaccaactgtatacCgaatgcttgtacagaatgat	13	11	8	9	1	1	2	1	1	0	1	1	3	1	2	2	0	5	5	2	0	6	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr16:20793081C>T	uc002dhr.2	+	7	1178	c.991C>T	c.(991-993)CGA>TGA	p.R331*	ACSM3_uc002dhq.2_Nonsense_Mutation_p.R331*|ACSM3_uc010vba.1_Nonsense_Mutation_p.R360*|ERI2_uc002dhs.2_Intron	NM_005622	NP_005613	Q53FZ2	ACSM3_HUMAN	SA hypertension-associated homolog isoform 1	331					regulation of blood pressure	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			ovary(1)	1						AACTGTATACCGAATGCTTGT	0.378													14	33					0	0	0.020292	0	0		T	20793081	T	T	20793081	4	4	115	1	0	0	0	0	0	1	0	0	185	644	23	1	1013	1	ACSM3	16	20793081	Nonsense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	20562068	20793081	69561672	83	65733											
MYST1	84148	broad.mit.edu	37	chr16	31131779	31131779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctcgcagagcagcctgagCgcaagatcactcgcaaccaa	13	4	10	14	3	1	3	1	1	0	2	3	3	1	3	2	0	5	5	2	0	3	0			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr16:31131779C>T	uc002eay.2	+	3	424	c.406C>T	c.(406-408)CGC>TGC	p.R136C	MYST1_uc002eax.2_Missense_Mutation_p.R136C	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	136					histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						GCAGCCTGAGCGCAAGATCAC	0.567													10	40					0	0	0.006214	0	0		T	31131779	T	T	31131779	3	4	115	1	0	0	0	0	1	0	0	0	10120	768	27	1	416	1	MYST1	16	31131779	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	10338698	31131779	59222974	84	65734											
ABCC11	85320	broad.mit.edu	37	chr16	48247385	48247385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgcagacttggaattcGtgagacctttgactgcaata	11	12	9	9	1	1	3	1	2	0	2	2	5	1	4	1	1	2	2	1	1	3	4	rs148839428		TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr16:48247385G>A	uc002eff.1	-	9	1675	c.1325C>T	c.(1324-1326)ACG>ATG	p.T442M	ABCC11_uc002efg.1_Missense_Mutation_p.T442M|ABCC11_uc002efh.1_Missense_Mutation_p.T442M|ABCC11_uc010vgk.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	442	Cytoplasmic (Potential).|ABC transmembrane type-1 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				CTTGGAATTCGTGAGACCTTT	0.552									Cerumen_Type				5	23					0	0	0.001168	0	0		A	48247385	A	A	48247385	3	1	115	1	0	0	0	0	1	0	0	0	51	1145	40	1	2907	1	ABCC11	16	48247385	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	17115606	48247385	42107368	85	65735											
NEURL4	84461	broad.mit.edu	37	chr17	7231011	7231011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgtgcgctccacgcccaCgcggtccccttcaccaagct	7	7	8	19	4	1	0	1	0	0	0	3	0	3	0	5	1	3	2	5	1	2	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr17:7231011C>T	uc002gga.1	-	2	482	c.475G>A	c.(475-477)GTG>ATG	p.V159M	NEURL4_uc002ggb.1_Missense_Mutation_p.V159M|NEURL4_uc002ggc.1_5'Flank	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	159	NHR 1.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						TCCACGCCCACGCGGTCCCCT	0.657													4	42					0	0	0.009096	0	0		T	7231011	T	T	7231011	3	4	115	1	0	0	0	0	1	0	0	0	10366	536	19	1	4325	1	NEURL4	17	7231011	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08		7231011	73964199	86	65736											
TP53	7157	broad.mit.edu	37	chr17	7578479	7578479	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacgcgggtgccgggcggggGtgtggaatcaacccacagct	7	5	18	11	4	1	0	1	0	0	0	1	2	1	1	2	5	3	1	2	5	2	0	rs28934874		TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr17:7578479G>T	uc002gim.2	-	5	645	c.451C>A	c.(451-453)CCC>ACC	p.P151T	TP53_uc002gig.1_Missense_Mutation_p.P151T|TP53_uc002gih.2_Missense_Mutation_p.P151T|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.P19T|TP53_uc010cng.1_Missense_Mutation_p.P19T|TP53_uc002gii.1_Missense_Mutation_p.P19T|TP53_uc010cnh.1_Missense_Mutation_p.P151T|TP53_uc010cni.1_Missense_Mutation_p.P151T|TP53_uc002gij.2_Missense_Mutation_p.P151T|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.P58T|TP53_uc002gio.2_Missense_Mutation_p.P19T|TP53_uc010vug.1_Missense_Mutation_p.P112T	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	151	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> R (in sporadic cancers; somatic mutation).|P -> A (in sporadic cancers; somatic mutation).|P -> L (in sporadic cancers; somatic mutation).|P -> H (in sporadic cancers; somatic mutation).|P -> T (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P151S(61)|p.P151H(25)|p.P151T(13)|p.P151P(12)|p.P151A(10)|p.P152fs*18(9)|p.0?(7)|p.P151fs*30(7)|p.P151L(6)|p.P151R(6)|p.T150fs*16(3)|p.P151_V173del23(1)|p.P152_P153del(1)|p.P152fs*28(1)|p.P151del(1)|p.D148_T155delDSTPPPGT(1)|p.T150_P153delTPPP(1)|p.P58A(1)|p.D148fs*23(1)|p.S149fs*72(1)|p.S149fs*17(1)|p.Q144_G154del11(1)|p.P19A(1)|p.P152fs*14(1)|p.T150_P151delTP(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CCGGGCGGGGGTGTGGAATCA	0.612		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			13	6					4.36969e-10	4.73132e-10	0.016723	1	0		T	7578479	T	T	7578479	3	4	115	1	0	0	0	0	1	0	0	0	16407	1261	44	5	847	5	TP53	17	7578479	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	347468	7578479	73616731	87	65737											
ULK2	9706	broad.mit.edu	37	chr17	19689396	19689396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccaccacaggctcctgccGgagctacaacaaaaagttta	14	6	7	14	1	0	0	0	0	0	0	1	1	1	1	4	2	4	3	4	2	5	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr17:19689396G>A	uc002gwm.3	-	21	2614	c.2105C>T	c.(2104-2106)CCG>CTG	p.P702L	ULK2_uc002gwn.2_Missense_Mutation_p.P702L	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	702					signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					GGCTCCTGCCGGAGCTACAAC	0.498													12	8					0	0	0.020292	0	0		A	19689396	A	A	19689396	3	1	115	1	0	0	0	0	1	0	0	0	17002	1116	39	1	1033	1	ULK2	17	19689396	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	12110917	19689396	61505814	88	65738											
TAOK1	57551	broad.mit.edu	37	chr17	27844528	27844528	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaggagtggctttcaaagCagaaggagaatatacagcat	17	7	11	6	0	1	2	1	0	0	2	1	4	1	3	0	3	4	3	0	3	6	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr17:27844528C>T	uc002hdz.1	+	16	1956	c.1762C>T	c.(1762-1764)CAG>TAG	p.Q588*	TAOK1_uc010wbe.1_Intron|TAOK1_uc010wbf.1_Nonsense_Mutation_p.Q588*	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	588	Potential.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			GCTTTCAAAGCAGAAGGAGAA	0.388													27	29					0	0	0.007291	0	0		T	27844528	T	T	27844528	4	4	115	1	0	0	0	0	0	1	0	0	15572	711	25	2	1820	2	TAOK1	17	27844528	Nonsense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	8155132	27844528	53350682	89	65739											
ADAP2	55803	broad.mit.edu	37	chr17	29281526	29281526	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcaagaaaaggtggttcGccctggattgccatgagcgg	9	10	13	9	2	1	2	1	1	0	1	2	3	1	3	2	4	2	1	2	4	3	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr17:29281526G>T	uc002hfx.2	+	9	1114	c.835G>T	c.(835-837)GCC>TCC	p.A279S	ADAP2_uc010csk.2_Missense_Mutation_p.A285S|ADAP2_uc002hfy.2_Missense_Mutation_p.A278S|ADAP2_uc010csl.2_RNA	NM_018404	NP_060874	Q9NPF8	ADAP2_HUMAN	centaurin-alpha 2 protein	279	PH 2.				heart development|regulation of ARF GTPase activity	mitochondrial envelope|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding, bridging|zinc ion binding	p.?(1)		ovary(1)	1						AAGGTGGTTCGCCCTGGATTG	0.537													55	40					2.82306e-37	3.23519e-37	0.01441	1	0		T	29281526	T	T	29281526	3	4	115	1	0	0	0	0	1	0	0	0	280	1087	38	5	869	5	ADAP2	17	29281526	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	1436998	29281526	51913684	90	65740											
EZH1	2145	broad.mit.edu	37	chr17	40864502	40864503	+	Frame_Shift_Del	DEL	CT	-	-																															gtctgacagcgagagttagcCtctgagaagggaagaaataa																										TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr17:40864502_40864503delCT	uc002iaz.2	-	12	1350_1351	c.1205_1206delAG	c.(1204-1206)GAGfs	p.E402fs	EZH1_uc002iba.2_Frame_Shift_Del_p.E393fs|EZH1_uc010wgt.1_Frame_Shift_Del_p.E332fs|EZH1_uc010wgu.1_Frame_Shift_Del_p.E408fs|EZH1_uc010wgv.1_Frame_Shift_Del_p.E362fs|EZH1_uc010wgw.1_Frame_Shift_Del_p.E263fs|EZH1_uc010cyp.2_Frame_Shift_Del_p.E303fs|EZH1_uc010cyq.2_Frame_Shift_Del_p.E319fs|EZH1_uc010cyo.1_Frame_Shift_Del_p.E65fs|EZH1_uc010cyr.1_Frame_Shift_Del_p.E54fs	NM_001991	NP_001982	Q92800	EZH1_HUMAN	enhancer of zeste homolog 1	402					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	chromatin binding|DNA binding			ovary(3)	3		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0784)		GAGAGTTAGCCTCTGAGAAGGG	0.465													23	16	---	---	---	---						.	-	40864503	-	-	40864502	7	5	115	1	0	1	0	1	0	0	0	0	5341	695	24	0	1077	0	EZH1	17	40864502	Frame_Shift_Del	DEL	CT	TCGA-CD-8528-01A-11D-2340-08	11582976	40864502	40330708	91	65741											
MED13	9969	broad.mit.edu	37	chr17	60061595	60061595	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaattttccaacagtccaaCtctgacggtaaatacactct	13	11	4	13	1	2	1	0	1	2	0	4	1	4	1	3	1	3	1	3	1	6	4			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr17:60061595C>G	uc002izo.2	-	15	2902	c.2825G>C	c.(2824-2826)AGT>ACT	p.S942T		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	942					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						AACAGTCCAACTCTGACGGTA	0.403													9	36					0	0	0.006214	0	0		G	60061595	G	G	60061595	3	3	115	1	0	0	0	0	1	0	0	0	9448	565	20	5	3763	5	MED13	17	60061595	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	19197093	60061595	21133615	92	65742											
SYNGR2	9144	broad.mit.edu	37	chr17	76168001	76168001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaccgagggctaccagcCgccccctgtgtactgagcgg	7	5	13	16	3	0	1	0	1	0	0	0	3	0	1	6	2	4	2	6	2	2	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr17:76168001C>T	uc002juu.1	+	4	686	c.659C>T	c.(658-660)CCG>CTG	p.P220L	SYNGR2_uc002jut.2_Missense_Mutation_p.R250C|SYNGR2_uc002juv.1_3'UTR|SYNGR2_uc010dhi.1_RNA	NM_004710	NP_004701	O43760	SNG2_HUMAN	synaptogyrin 2	220						integral to plasma membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.0994)			GGCTACCAGCCGCCCCCTGTG	0.647													28	25					0	0	0.00632	0	0		T	76168001	T	T	76168001	3	4	115	1	0	0	0	0	1	0	0	0	15474	652	23	1	673	1	SYNGR2	17	76168001	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	16106406	76168001	5027209	93	65743											
DSEL	92126	broad.mit.edu	37	chr18	65181679	65181679	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaagcatacttttcttcAgcttttggttgggtctgaaa	9	16	10	6	0	3	2	1	2	2	0	3	3	3	2	0	2	3	3	0	2	3	7			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr18:65181679A>G	uc002lke.1	-	2	1421	c.197T>C	c.(196-198)CTG>CCG	p.L66P		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	56						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				ACTTTTCTTCAGCTTTTGGTT	0.378													14	34					0	0	0.020292	0	0		G	65181679	G	G	65181679	3	3	115	1	0	0	0	0	1	0	0	0	4781	188	7	3	3475	3	DSEL	18	65181679	Missense_Mutation	SNP	A	TCGA-CD-8528-01A-11D-2340-08		65181679	12895569	94	65744											
NFATC1	4772	broad.mit.edu	37	chr18	77171139	77171139	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcccacgccgtccccgcaCggctccccgcgggtcagcgt	3	5	12	21	8	1	0	1	0	0	0	4	0	3	0	6	2	1	2	6	2	0	0			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr18:77171139C>T	uc010xfg.1	+	2	1317	c.864C>T	c.(862-864)CAC>CAT	p.H288H	NFATC1_uc002lnc.1_Silent_p.H288H|NFATC1_uc010xff.1_Silent_p.H288H|NFATC1_uc002lnd.2_Silent_p.H288H|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Silent_p.H288H|NFATC1_uc010xfi.1_Silent_p.H275H|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Silent_p.H275H|NFATC1_uc002lng.2_Silent_p.H275H|NFATC1_uc010xfk.1_Silent_p.H275H	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	288	3 X SP repeats.|3.				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CGTCCCCGCACGGCTCCCCGC	0.692													7	18					0	0	0.001984	0	0		T	77171139	T	T	77171139	2	4	115	1	0	0	0	0	0	0	0	1	10380	535	19	1		1	NFATC1	18	77171139	Silent	SNP	C	TCGA-CD-8528-01A-11D-2340-08	11989460	77171139	906109	95	65745											
ELANE	1991	broad.mit.edu	37	chr19	853309	853309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggagcccataacctctcgcGgcgggagcccacccggcagg	7	3	15	16	4	1	0	0	0	1	0	2	2	1	2	4	5	3	1	4	5	1	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr19:853309G>A	uc002lqb.2	+	3	310	c.272G>A	c.(271-273)CGG>CAG	p.R91Q		NM_001972	NP_001963	P08246	ELNE_HUMAN	neutrophil elastase preproprotein	91	Peptidase S1.				cellular calcium ion homeostasis|negative regulation of chemokine biosynthetic process|negative regulation of chemotaxis|negative regulation of inflammatory response|negative regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of MAP kinase activity|positive regulation of smooth muscle cell proliferation|protein catabolic process|proteolysis|response to UV	cell surface|extracellular region|stored secretory granule	bacterial cell surface binding|cytokine binding|heparin binding			pancreas(1)	1					Alpha-1-proteinase inhibitor(DB00058)|Filgrastim(DB00099)|Pegfilgrastim(DB00019)	AACCTCTCGCGGCGGGAGCCC	0.672									Kostmann_syndrome				4	9					0	0	0.009096	0	0		A	853309	A	A	853309	3	1	115	1	0	0	0	0	1	0	0	0	5056	1116	39	1	282	1	ELANE	19	853309	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08		853309	58275674	96	65746											
HMHA1	23526	broad.mit.edu	37	chr19	1079752	1079752	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgtggccgacgcgaagacGcagaagcaggagctggagga	11	3	18	9	5	0	2	0	0	0	2	0	7	0	5	1	4	3	3	1	4	2	0			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr19:1079752G>T	uc002lqz.1	+	12	1656	c.1425G>T	c.(1423-1425)ACG>ACT	p.T475T	HMHA1_uc010xgd.1_Silent_p.T491T|HMHA1_uc010xge.1_Silent_p.T315T|HMHA1_uc002lra.1_Silent_p.T315T|HMHA1_uc002lrb.1_Silent_p.T358T|HMHA1_uc002lrc.1_Silent_p.T110T	NM_012292	NP_036424	Q92619	HMHA1_HUMAN	minor histocompatibility antigen HA-1	475	Potential.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGCGAAGACGCAGAAGCAGG	0.682													18	23					2.35188e-11	2.60032e-11	0.006122	1	0		T	1079752	T	T	1079752	2	4	115	1	0	0	0	0	0	0	0	1	7256	1074	38	5		5	HMHA1	19	1079752	Silent	SNP	G	TCGA-CD-8528-01A-11D-2340-08	226443	1079752	58049231	97	65747											
CLEC17A	388512	broad.mit.edu	37	chr19	14705596	14705596	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcgccgctgtcacctgTccacctcctcaactgggtga	6	9	9	17	2	2	1	2	1	0	0	5	2	4	1	6	1	1	1	6	1	1	0			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr19:14705596T>C	uc010dzn.1	+	7	464	c.387T>C	c.(385-387)TGT>TGC	p.C129C	CLEC17A_uc002mzh.1_Silent_p.C112C|CLEC17A_uc010xnt.1_RNA|CLEC17A_uc010xnu.1_Silent_p.C129C|CLEC17A_uc010dzo.1_Silent_p.C129C			Q6ZS10	CL17A_HUMAN	SubName: Full=CLEC17A protein;	129	Cytoplasmic (Potential).					cell surface|integral to membrane	fucose binding|mannose binding|metal ion binding|receptor activity				0						CTGTCACCTGTCCACCTCCTC	0.488													4	12					0	0	0.014758	0	0		C	14705596	C	C	14705596	2	2	115	1	0	0	0	0	0	0	0	1	3504	1673	58	3		3	CLEC17A	19	14705596	Silent	SNP	T	TCGA-CD-8528-01A-11D-2340-08	13625844	14705596	44423387	98	65748											
ZNF568	374900	broad.mit.edu	37	chr19	37488168	37488168	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcacatcttattcgacaTcagagtgtccatactgggga	11	12	9	9	1	3	1	2	0	1	1	5	4	4	2	1	2	1	0	1	2	2	4			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr19:37488168T>C	uc010efg.2	+	10	2090	c.1533T>C	c.(1531-1533)CAT>CAC	p.H511H	ZNF568_uc010xtn.1_Silent_p.H449H|uc010efi.2_Silent_p.H329H|uc010efj.2_Silent_p.H329H			Q3ZCX4	ZN568_HUMAN	SubName: Full=cDNA FLJ57578, moderately similar to Mus musculus zinc finger protein 568 (Zfp568), mRNA;	548	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTATTCGACATCAGAGTGTCC	0.448													11	11					0	0	0.008291	0	0		C	37488168	C	C	37488168	2	2	115	1	0	0	0	0	0	0	0	1	18024	1450	50	3		3	ZNF568	19	37488168	Silent	SNP	T	TCGA-CD-8528-01A-11D-2340-08	22782572	37488168	21640815	99	65749											
CYP2A13	1553	broad.mit.edu	37	chr19	41600977	41600977	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagaaggggcagtttaagaaGagtgatgcttttgtgccctt	11	12	13	5	0	0	4	0	1	0	3	0	4	0	4	1	2	2	3	1	2	4	5			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr19:41600977G>C	uc002opt.2	+	8	1284	c.1275G>C	c.(1273-1275)AAG>AAC	p.K425N		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	425					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	AGTTTAAGAAGAGTGATGCTT	0.577													32	68					0	0	0.017118	0	0		C	41600977	C	C	41600977	3	2	115	1	0	0	0	0	1	0	0	0	4164	933	33	5	1305	5	CYP2A13	19	41600977	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	4112809	41600977	17528006	100	65750											
SHANK1	50944	broad.mit.edu	37	chr19	51171798	51171798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcggccacggcgggcggcGgctgcggggaggccggggac	3	1	24	13	8	0	0	0	0	0	0	0	2	0	2	2	10	1	1	2	10	0	0			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr19:51171798G>A	uc002psx.1	-	22	3438	c.3419C>T	c.(3418-3420)CCG>CTG	p.P1140L	SHANK1_uc002psw.1_Missense_Mutation_p.P524L	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1140					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		ggcgggcggcggctgcgggga	0.443													3	6					0	0	0.004672	0	0		A	51171798	A	A	51171798	3	1	115	1	0	0	0	0	1	0	0	0	14289	1116	39	1	3074	1	SHANK1	19	51171798	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	9570821	51171798	7957185	101	65751											
LILRA5	353514	broad.mit.edu	37	chr19	54823401	54823401	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggctcagcccagagggTggctttggagaggttccctg	5	9	16	11	0	1	2	1	0	0	2	2	3	2	2	3	5	1	3	3	5	0	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr19:54823401T>C	uc002qfe.2	-	4	262	c.142A>G	c.(142-144)ACC>GCC	p.T48A	LILRA5_uc002qff.2_Missense_Mutation_p.T36A|LILRA5_uc010yev.1_Missense_Mutation_p.T48A|LILRA5_uc010yew.1_Missense_Mutation_p.T36A|LILRA5_uc002qfh.1_Missense_Mutation_p.T36A|LILRA5_uc002qfg.1_Missense_Mutation_p.T48A	NM_021250	NP_067073	A6NI73	LIRA5_HUMAN	leukocyte immunoglobulin-like receptor subfamily	48	Extracellular (Potential).				innate immune response	extracellular region|integral to membrane	receptor activity			upper_aerodigestive_tract(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GCCCAGAGGGTGGCTTTGGAG	0.617													7	38					0	0	0.001984	0	0		C	54823401	C	C	54823401	3	2	115	1	0	0	0	0	1	0	0	0	8804	1696	59	3	859	3	LILRA5	19	54823401	Missense_Mutation	SNP	T	TCGA-CD-8528-01A-11D-2340-08	3651603	54823401	4305582	102	65752											
JAG1	182	broad.mit.edu	37	chr20	10639259	10639259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagtcatcacaggtcacgCggatctgatactcaaagtgg	12	9	11	9	2	5	1	4	1	1	0	5	2	5	2	0	3	1	1	0	3	3	2	rs121918351		TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr20:10639259C>T	uc002wnw.2	-	4	1067	c.551G>A	c.(550-552)CGC>CAC	p.R184H		NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	184	Extracellular (Potential).		R -> C (in ALGS1).|R -> H (in ALGS1).|R -> G (in ALGS1).|R -> L (in ALGS1).		angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						ACAGGTCACGCGGATCTGATA	0.522									Alagille_Syndrome				25	50					0	0	0.016522	0	0		T	10639259	T	T	10639259	3	4	115	1	0	0	0	0	1	0	0	0	7950	768	27	1	3197	1	JAG1	20	10639259	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08		10639259	52386261	103	65753											
SSTR4	6754	broad.mit.edu	37	chr20	23016919	23016919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgctgatggtcgtggtcGtctttgtgctctgctggatg	2	16	16	7	2	2	1	0	1	2	0	4	2	2	2	0	4	3	3	0	4	0	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr20:23016919G>A	uc002wsr.2	+	1	863	c.799G>A	c.(799-801)GTC>ATC	p.V267I		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	267	Helical; Name=6; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GGTCGTGGTCGTCTTTGTGCT	0.607													20	49					0	0	0.007413	0	0		A	23016919	A	A	23016919	3	1	115	1	0	0	0	0	1	0	0	0	15225	1145	40	1	801	1	SSTR4	20	23016919	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	12377660	23016919	40008601	104	65754											
SEMG2	6407	broad.mit.edu	37	chr20	43850987	43850987	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtaaactacaaacttcactCcatcctgcacatcaagacag	16	8	4	13	0	2	1	2	0	0	1	4	1	4	1	2	0	4	2	2	0	5	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr20:43850987C>A	uc010ggz.2	+	2	771	c.714C>A	c.(712-714)CTC>CTA	p.L238L	SEMG2_uc002xnk.2_Silent_p.L238L|SEMG2_uc002xnl.2_Silent_p.L238L	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	238	2-2.|Repeat-rich region.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				AAACTTCACTCCATCCTGCAC	0.378													17	103					1.99824e-07	2.13417e-07	0.00499	1	0		A	43850987	A	A	43850987	2	1	115	1	0	0	0	0	0	0	0	1	14070	842	30	5		5	SEMG2	20	43850987	Silent	SNP	C	TCGA-CD-8528-01A-11D-2340-08	20834068	43850987	19174533	105	65755											
ARFGEF2	10564	broad.mit.edu	37	chr20	47639687	47639687	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaccctgcgacgagcaaaaAggaggatgcagagcacatgg	14	4	13	10	2	0	1	0	0	0	1	0	5	0	3	1	3	5	3	1	3	3	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr20:47639687A>C	uc002xtx.3	+	35	4876	c.4724A>C	c.(4723-4725)AAG>ACG	p.K1575T	ARFGEF2_uc010zyf.1_Missense_Mutation_p.K868T	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1575					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			ACGAGCAAAAAGGAGGATGCA	0.478													20	38					0	0	0.007413	0	0		C	47639687	C	C	47639687	3	2	115	1	0	0	0	0	1	0	0	0	853	72	3	5	4862	5	ARFGEF2	20	47639687	Missense_Mutation	SNP	A	TCGA-CD-8528-01A-11D-2340-08	3788700	47639687	15385833	106	65756											
CBLN4	140689	broad.mit.edu	37	chr20	54579014	54579014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccgcaccgccgagaaggCgaccttggagttggccgccc	6	5	14	16	5	0	1	0	0	0	1	1	4	1	2	6	3	0	3	6	3	1	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr20:54579014C>T	uc002xxa.2	-	1	999	c.214G>A	c.(214-216)GCC>ACC	p.A72T		NM_080617	NP_542184	Q9NTU7	CBLN4_HUMAN	cerebellin 4 precursor	72	C1q.					cell junction|extracellular region|synapse		p.A72T(1)		ovary(3)|pancreas(1)	4			Colorectal(105;0.202)			GCCGAGAAGGCGACCTTGGAG	0.637													23	80					0	0	0.016522	0	0		T	54579014	T	T	54579014	3	4	115	1	0	0	0	0	1	0	0	0	2710	768	27	1	403	1	CBLN4	20	54579014	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	6939327	54579014	8446506	107	65757											
ZNF831	128611	broad.mit.edu	37	chr20	57766931	57766931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggactctgcccccatggCgtcacctgggctcccagcgg	4	8	13	16	2	2	0	1	0	1	0	3	1	3	1	4	4	2	1	4	4	0	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr20:57766931C>T	uc002yan.2	+	1	857	c.857C>T	c.(856-858)GCG>GTG	p.A286V		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	286						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GCCCCCATGGCGTCACCTGGG	0.662													14	52					0	0	0.004007	0	0		T	57766931	T	T	57766931	3	4	115	1	0	0	0	0	1	0	0	0	18210	768	27	1	859	1	ZNF831	20	57766931	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	3187917	57766931	5258589	108	65758											
GTPBP5	26164	broad.mit.edu	37	chr20	60768650	60768650	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaagcatcaggaactcccGgggaagaagctgctctctga	11	6	12	12	1	2	2	1	1	1	1	4	4	3	4	2	3	4	3	2	3	4	0			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr20:60768650G>A	uc002yce.3	+	2	212	c.174G>A	c.(172-174)CCG>CCA	p.P58P	GTPBP5_uc011aab.1_Intron|GTPBP5_uc011aac.1_Intron|GTPBP5_uc011aad.1_5'UTR|GTPBP5_uc011aae.1_Intron|GTPBP5_uc011aaf.1_Silent_p.P58P|GTPBP5_uc011aag.1_Silent_p.P58P	NM_015666	NP_056481	Q9H4K7	GTPB5_HUMAN	GTP binding protein 5	58	Localized in the mitocondria.|Not localized in the mitocondria.				ribosome biogenesis	mitochondrion	GTP binding|GTPase activity|magnesium ion binding				0	Breast(26;3.52e-09)		BRCA - Breast invasive adenocarcinoma(19;2.5e-08)			AGGAACTCCCGGGGAAGAAGC	0.627													15	17					0	0	0.020292	0	0		A	60768650	A	A	60768650	2	1	115	1	0	0	0	0	0	0	0	1	6899	1103	39	1		1	GTPBP5	20	60768650	Silent	SNP	G	TCGA-CD-8528-01A-11D-2340-08	3001719	60768650	2256870	109	65759											
TIAM1	7074	broad.mit.edu	37	chr21	32493107	32493107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatcaatggtaaacctgtttCgagccagccgccgcctcctc	9	9	8	15	3	1	0	1	0	0	0	4	1	2	0	6	1	3	2	6	1	4	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr21:32493107C>T	uc002yow.1	-	29	4827	c.4355G>A	c.(4354-4356)CGA>CAA	p.R1452Q	TIAM1_uc011adk.1_3'UTR|TIAM1_uc011adl.1_Missense_Mutation_p.R1392Q	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1452					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						AAACCTGTTTCGAGCCAGCCG	0.552													6	18					0	0	0.001168	0	0		T	32493107	T	T	32493107	3	4	115	1	0	0	0	0	1	0	0	0	15915	884	31	1	424	1	TIAM1	21	32493107	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08		32493107	15636788	110	65760											
C21orf63	59271	broad.mit.edu	37	chr21	33867373	33867373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctttgcaagtcctatcccGaaggtgctatgggaagcaga	11	9	12	9	1	0	1	0	0	0	1	2	3	2	2	2	2	4	4	2	2	5	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr21:33867373G>A	uc002ypr.1	+	5	1081	c.671G>A	c.(670-672)CGA>CAA	p.R224Q	C21orf63_uc002yps.1_RNA|C21orf63_uc010glw.1_Missense_Mutation_p.R224Q|C21orf63_uc002ypt.1_RNA|C21orf63_uc002ypu.1_Missense_Mutation_p.R129Q|C21orf63_uc011adq.1_5'UTR	NM_058187	NP_478067	P58658	CU063_HUMAN	hypothetical protein LOC59271 precursor	224	SUEL-type lectin 2.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(2)|pancreas(1)	3						GTCCTATCCCGAAGGTGCTAT	0.488													11	30					0	0	0.010729	0	0		A	33867373	A	A	33867373	3	1	115	1	0	0	0	0	1	0	0	0	2134	1058	37	1	689	1	C21orf63	21	33867373	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	1374266	33867373	14262522	111	65761											
SEC14L2	23541	broad.mit.edu	37	chr22	30812329	30812329	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagaggtgctgcccaacCagaggtacaactcccacctg	11	6	10	14	0	0	3	0	1	0	2	1	3	1	3	4	2	5	2	4	2	3	1			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr22:30812329C>T	uc003ahr.2	+	11	1191	c.1018C>T	c.(1018-1020)CAG>TAG	p.Q340*	SEC14L2_uc003ahq.2_Nonsense_Mutation_p.Q340*|SEC14L2_uc011akx.1_Nonsense_Mutation_p.Q286*|SEC14L2_uc003ahs.2_Nonsense_Mutation_p.Q266*|SEC14L2_uc011aky.1_Nonsense_Mutation_p.Q257*|SEC14L2_uc003aht.2_RNA|SEC14L2_uc003ahu.3_Intron|SEC14L2_uc010gvv.2_RNA|SEC14L2_uc010gvw.1_Intron|MTP18_uc010gvx.1_Nonsense_Mutation_p.Q33*|MTP18_uc003ahv.1_Nonsense_Mutation_p.Q164*|MTP18_uc010gvy.1_Intron	NM_012429	NP_036561	O76054	S14L2_HUMAN	SEC14-like 2 isoform 1	340	GOLD.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	phospholipid binding|transporter activity|vitamin E binding				0					Vitamin E(DB00163)	GCTGCCCAACCAGAGGTACAA	0.547													12	40					0	0	0.010729	0	0		T	30812329	T	T	30812329	4	4	115	1	0	0	0	0	0	1	0	0	14007	595	21	4	1060	4	SEC14L2	22	30812329	Nonsense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08		30812329	20492237	112	65762											
SEC14L4	284904	broad.mit.edu	37	chr22	30891385	30891385	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtacacagggcagccttcGtagtcgtagccacaaagacc	13	6	10	12	2	0	1	0	0	0	1	2	1	0	1	3	1	3	4	3	1	5	4			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chr22:30891385G>A	uc003aid.2	-	5	379	c.279C>T	c.(277-279)TAC>TAT	p.Y93Y	SEC14L4_uc011akz.1_Silent_p.Y93Y|SEC14L4_uc003aie.2_Silent_p.Y78Y|SEC14L4_uc003aif.2_Silent_p.Y39Y	NM_174977	NP_777637	Q9UDX3	S14L4_HUMAN	SEC14p-like protein TAP3 isoform a	93	CRAL-TRIO.					integral to membrane|intracellular	lipid binding|transporter activity			skin(1)	1					Vitamin E(DB00163)	GGCAGCCTTCGTAGTCGTAGC	0.562													18	51					0	0	0.007413	0	0		A	30891385	A	A	30891385	2	1	115	1	0	0	0	0	0	0	0	1	14009	1140	40	1		1	SEC14L4	22	30891385	Silent	SNP	G	TCGA-CD-8528-01A-11D-2340-08	79056	30891385	20413181	113	65763											
GRPR	2925	broad.mit.edu	37	chrX	16142390	16142390	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggtacctggctgacaGatggctatttggcaggattg	9	10	14	8	0	0	2	0	1	0	1	0	3	0	3	1	5	2	5	1	5	2	4			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chrX:16142390G>T	uc004cxj.2	+	1	967	c.314G>T	c.(313-315)AGA>ATA	p.R105I		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	105	Extracellular (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					CTGGCTGACAGATGGCTATTT	0.532											OREG0019682	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	67					7.01153e-11	7.64452e-11	0.007291	1	0		T	16142390	T	T	16142390	3	4	115	1	0	0	0	0	1	0	0	0	6824	942	33	5	316	5	GRPR	23	16142390	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08		16142390	139128170	114	65764											
FAM47C	442444	broad.mit.edu	37	chrX	37029349	37029349	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaagctaagaagtgatgaaCctttgattgaccccaagctc	15	9	8	9	0	0	5	0	4	0	1	1	5	0	5	3	0	3	2	3	0	6	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chrX:37029349C>A	uc004ddl.1	+	1	2880	c.2866C>A	c.(2866-2868)CCT>ACT	p.P956T		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	956										ovary(3)	3						AAGTGATGAACCTTTGATTGA	0.443													17	105					2.35188e-11	2.60032e-11	0.006122	1	0		A	37029349	A	A	37029349	3	1	115	1	0	0	0	0	1	0	0	0	5585	507	18	5	2868	5	FAM47C	23	37029349	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	20886959	37029349	118241211	115	65765											
NUDT10	170685	broad.mit.edu	37	chrX	51076024	51076024	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccgagaggtgtacgaagaGgcgggagtcaaggggaagtt	11	6	19	5	3	1	2	1	0	0	2	2	6	2	4	1	5	1	2	1	5	4	2	rs143435240	byFrequency	TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chrX:51076024G>A	uc004dph.2	+	2	427	c.207G>A	c.(205-207)GAG>GAA	p.E69E	NUDT10_uc004dpi.3_Silent_p.E69E	NM_153183	NP_694853	Q8NFP7	NUD10_HUMAN	nudix-type motif 10	69	Nudix box.|Nudix hydrolase.	Magnesium 1 (By similarity).				cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|metal ion binding				0	Ovarian(276;0.236)					TGTACGAAGAGGCGGGAGTCA	0.657													4	46					0	0	0.009096	0	0		A	51076024	A	A	51076024	2	1	115	1	0	0	0	0	0	0	0	1	10745	991	35	4		4	NUDT10	23	51076024	Silent	SNP	G	TCGA-CD-8528-01A-11D-2340-08	14046675	51076024	104194536	116	65766											
RPS6KA6	27330	broad.mit.edu	37	chrX	83359569	83359569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagtatatcactagcctcccGttccgagaaacatttttgtt	10	15	6	10	2	1	1	1	0	0	1	3	2	3	1	3	0	2	3	3	0	5	8			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chrX:83359569G>A	uc004eej.1	-	17	1629	c.1552C>T	c.(1552-1554)CGG>TGG	p.R518W	RPS6KA6_uc011mqt.1_Missense_Mutation_p.R518W|RPS6KA6_uc011mqu.1_Missense_Mutation_p.R415W	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	518	Protein kinase 2.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						CTAGCCTCCCGTTCCGAGAAA	0.353													6	13					0	0	0.001984	0	0		A	83359569	A	A	83359569	3	1	115	1	0	0	0	0	1	0	0	0	13680	1144	40	1	709	1	RPS6KA6	23	83359569	Missense_Mutation	SNP	G	TCGA-CD-8528-01A-11D-2340-08	32283545	83359569	71910991	117	65767											
MUM1L1	139221	broad.mit.edu	37	chrX	105450999	105450999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgaagatgccagggaacCgatggctgtaacttcccaga	13	8	11	9	1	0	3	0	1	0	2	1	5	1	4	3	2	3	2	3	2	4	3			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chrX:105450999C>T	uc004emf.1	+	4	2223	c.1574C>T	c.(1573-1575)CCG>CTG	p.P525L	MUM1L1_uc004emg.1_Missense_Mutation_p.P525L	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	525										ovary(2)|pancreas(1)|skin(1)	4						GCCAGGGAACCGATGGCTGTA	0.448													5	19					0	0	0.014758	0	0		T	105450999	T	T	105450999	3	4	115	1	0	0	0	0	1	0	0	0	10004	652	23	1	1576	1	MUM1L1	23	105450999	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	22091430	105450999	49819561	118	65768											
ODZ1	10178	broad.mit.edu	37	chrX	123540329	123540329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcattggtcaggtgtccctCggggtcatacctgaggaatg	7	11	14	9	1	2	1	2	1	0	0	4	2	3	2	2	5	2	1	2	5	2	2			TCGA-CD-8528-01A-11D-2340-08	TCGA-CD-8528-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1428870-65bf-45a5-b321-578ad94288c1	07bd0343-e5c6-48bf-ae2a-1d3d56b624ea	g.chrX:123540329C>T	uc004euj.2	-	25	5036	c.4972G>A	c.(4972-4974)GAG>AAG	p.E1658K	ODZ1_uc011muj.1_Missense_Mutation_p.E1664K|ODZ1_uc010nqy.2_Missense_Mutation_p.E1665K	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1658	Extracellular (Potential).|YD 5.				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						AGGTGTCCCTCGGGGTCATAC	0.488													11	58					0	0	0.013537	0	0		T	123540329	T	T	123540329	3	4	115	1	0	0	0	0	1	0	0	0	10853	893	31	1	3233	1	ODZ1	23	123540329	Missense_Mutation	SNP	C	TCGA-CD-8528-01A-11D-2340-08	18089330	123540329	31730231	119	65769											
KAZ	23254	broad.mit.edu	37	chr1	15386779	15386779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcaactcccctcgacaccGgacacactccctctgcaacg	10	6	5	20	3	2	0	1	0	1	0	5	2	4	1	4	1	3	1	4	1	2	0	rs147538261		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:15386779G>A	uc001avm.3	+	6	1309	c.1028G>A	c.(1027-1029)CGG>CAG	p.R343Q	KAZ_uc009vog.1_Missense_Mutation_p.R343Q|KAZ_uc010obj.1_Missense_Mutation_p.R343Q|KAZ_uc001avo.2_Missense_Mutation_p.R337Q|KAZ_uc001avp.2_Missense_Mutation_p.R249Q|KAZ_uc001avq.2_Missense_Mutation_p.R249Q|KAZ_uc001avr.2_Missense_Mutation_p.R246Q	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	343					keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						CCTCGACACCGGACACACTCC	0.692													20	151					0	0	0.012319	0	0		A	15386779	A	A	15386779	3	1	116	1	0	0	0	0	1	0	0	0	8004	1116	39	1	1262	1	KAZ	1	15386779	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08		15386779	233863842	1	65770											
MAP3K6	9064	broad.mit.edu	37	chr1	27689455	27689455	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgccacagagccctcaagCtgtaccagcggcagcagcac	10	3	12	16	2	1	1	1	0	0	1	1	1	1	1	3	2	6	5	3	2	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:27689455C>T	uc001bny.1	-	7	1278	c.1029G>A	c.(1027-1029)CAG>CAA	p.Q343Q	MAP3K6_uc009vsw.1_Silent_p.Q335Q|MAP3K6_uc001bnz.1_5'Flank	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	343					activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		AGCCCTCAAGCTGTACCAGCG	0.632													8	46					0	0	0.008291	0	0		T	27689455	T	T	27689455	2	4	116	1	0	0	0	0	0	0	0	1	9272	796	28	2		2	MAP3K6	1	27689455	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	12302676	27689455	221561166	2	65771											
CSMD2	114784	broad.mit.edu	37	chr1	34049315	34049315	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgagggagatgttatagtcGggctccactctcaccagcca	9	9	12	11	1	1	2	1	1	1	1	4	3	2	2	3	2	1	2	3	2	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:34049315G>C	uc001bxn.1	-	48	7202	c.7173C>G	c.(7171-7173)CCC>CCG	p.P2391P	CSMD2_uc001bxm.1_Silent_p.P2389P	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2391	CUB 14.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TGTTATAGTCGGGCTCCACTC	0.502													14	126					0	0	0.001855	0	0		C	34049315	C	C	34049315	2	2	116	1	0	0	0	0	0	0	0	1	3948	1103	39	5		5	CSMD2	1	34049315	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	6359860	34049315	215201306	3	65772											
MACF1	23499	broad.mit.edu	37	chr1	39797109	39797109	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agcagctccgggagctacagGatgccctggccttaataagc	10	7	12	12	1	0	0	0	0	0	0	1	2	1	2	3	3	6	3	3	3	3	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:39797109G>C	uc010oiu.1	+	1	300	c.169G>C	c.(169-171)GAT>CAT	p.D57H	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1622					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GGAGCTACAGGATGCCCTGGC	0.507													13	104					0	0	0.001855	0	0		C	39797109	C	C	39797109	3	2	116	1	0	0	0	0	1	0	0	0	9162	1174	41	5	4940	5	MACF1	1	39797109	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	5747794	39797109	209453512	4	65773											
TIE1	7075	broad.mit.edu	37	chr1	43774661	43774661	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtcctttctccccagaccgGatcccccagatcctcaacat	8	10	5	18	1	2	2	1	0	1	2	6	3	5	3	7	1	1	0	7	1	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:43774661G>T	uc001ciu.2	+	8	1126	c.1047G>T	c.(1045-1047)CGG>CGT	p.R349R	TIE1_uc010okd.1_Silent_p.R349R|TIE1_uc010oke.1_Silent_p.R304R|TIE1_uc009vwq.2_Silent_p.R305R|TIE1_uc010okf.1_5'UTR|TIE1_uc010okg.1_5'UTR|TIE1_uc010okc.1_Intron	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	349	Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCCCAGACCGGATCCCCCAGA	0.592													5	61					0.00198382	0.00206512	0.001984	1	0		T	43774661	T	T	43774661	2	4	116	1	0	0	0	0	0	0	0	1	15918	1161	41	5		5	TIE1	1	43774661	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	3977552	43774661	205475960	5	65774											
TIE1	7075	broad.mit.edu	37	chr1	43783012	43783012	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catcggggaggggaacttcgGccaggtcatccgggccatga	8	6	16	11	3	1	1	1	1	0	0	4	3	2	3	3	7	1	0	3	7	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:43783012G>T	uc001ciu.2	+	15	2631	c.2552G>T	c.(2551-2553)GGC>GTC	p.G851V	TIE1_uc010oke.1_Missense_Mutation_p.G806V|TIE1_uc009vwq.2_Missense_Mutation_p.G807V|TIE1_uc010okg.1_Missense_Mutation_p.G496V	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	851	ATP (By similarity).|Cytoplasmic (Potential).|Protein kinase.				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GGGAACTTCGGCCAGGTCATC	0.612													6	75					1.06961e-07	1.22104e-07	0.00308	1	0		T	43783012	T	T	43783012	3	4	116	1	0	0	0	0	1	0	0	0	15918	1203	42	5	2610	5	TIE1	1	43783012	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	8351	43783012	205467609	6	65775											
MAST2	23139	broad.mit.edu	37	chr1	46495141	46495141	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccctgatgacttcagatgAgattgtgtggcctgagggtg	8	11	14	8	0	1	5	1	4	0	2	1	6	1	5	3	2	0	0	3	2	0	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:46495141A>C	uc001cov.2	+	19	2505	c.2222A>C	c.(2221-2223)GAG>GCG	p.E741A	MAST2_uc001cow.2_Missense_Mutation_p.E741A|MAST2_uc001coy.1_Missense_Mutation_p.E415A|MAST2_uc001coz.1_Missense_Mutation_p.E626A|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	741	Protein kinase.				regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					ACTTCAGATGAGATTGTGTGG	0.547													5	35					0	0	0.000602	0	0		C	46495141	C	C	46495141	3	2	116	1	0	0	0	0	1	0	0	0	9343	304	11	5	2296	5	MAST2	1	46495141	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	2712129	46495141	202755480	7	65776											
PODN	127435	broad.mit.edu	37	chr1	53542984	53542984	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgccacgtgcccaagcAcctgccgcctgccctgtaca	6	6	9	20	3	0	0	0	0	0	0	0	0	0	0	7	0	6	2	7	0	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:53542984A>T	uc001cuv.2	+	6	855	c.848A>T	c.(847-849)CAC>CTC	p.H283L	PODN_uc001cuw.2_Missense_Mutation_p.H264L|PODN_uc010onr.1_Missense_Mutation_p.H264L|PODN_uc010ons.1_Intron	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	235	LRR 6.				negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding			ovary(1)|pancreas(1)	2						GTGCCCAAGCACCTGCCGCCT	0.662													9	119					0	0	0.004482	0	0		T	53542984	T	T	53542984	3	4	116	1	0	0	0	0	1	0	0	0	12197	159	6	5	870	5	PODN	1	53542984	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	7047843	53542984	195707637	8	65777											
LRRC7	57554	broad.mit.edu	37	chr1	70303923	70303923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgtagacttgtcaaattgCggatcttggagttaagagaa	12	13	11	5	1	3	2	1	0	2	2	3	5	3	4	0	2	1	2	0	2	4	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:70303923C>T	uc001dep.2	+	5	520	c.490C>T	c.(490-492)CGG>TGG	p.R164W	LRRC7_uc001deo.1_Missense_Mutation_p.R202W|LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	164	LRR 7.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TGTCAAATTGCGGATCTTGGA	0.244													5	51					0	0	0.001168	0	0		T	70303923	T	T	70303923	3	4	116	1	0	0	0	0	1	0	0	0	9038	759	27	1	508	1	LRRC7	1	70303923	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	16760939	70303923	178946698	9	65778											
LRRC8B	23507	broad.mit.edu	37	chr1	90058373	90058373	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcagtgcaaaaagctgcAgtgtttacttttggggaaaa	12	13	11	5	0	1	0	1	0	0	0	1	1	1	1	0	2	4	5	0	2	5	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:90058373A>G	uc001dni.2	+	8	2690	c.2183A>G	c.(2182-2184)CAG>CGG	p.Q728R	LRRC8B_uc001dnh.2_Missense_Mutation_p.Q728R|LRRC8B_uc001dnj.2_Missense_Mutation_p.Q728R	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	728	LRR 12.					integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		AAAAAGCTGCAGTGTTTACTT	0.413													9	99					0	0	0.004482	0	0		G	90058373	G	G	90058373	3	3	116	1	0	0	0	0	1	0	0	0	9040	188	7	3	2189	3	LRRC8B	1	90058373	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	19754450	90058373	159192248	10	65779											
RTCD1	8634	broad.mit.edu	37	chr1	100741243	100741243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catccagcctgttcaagaacCtaaagaccaagcatttggca	14	8	7	12	0	1	2	1	0	0	2	2	2	2	2	4	1	3	3	4	1	5	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:100741243C>T	uc001dtc.2	+	7	922	c.704C>T	c.(703-705)CCT>CTT	p.P235L	RTCD1_uc001dtd.2_Missense_Mutation_p.P248L	NM_003729	NP_003720	O00442	RTC1_HUMAN	RNA terminal phosphate cyclase domain 1 isoform	235					RNA processing	mitochondrion|nucleoplasm	ATP binding|protein binding|RNA binding|RNA-3'-phosphate cyclase activity				0		all_epithelial(167;0.000686)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0513)|all cancers(265;0.0902)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)		GTTCAAGAACCTAAAGACCAA	0.363													8	80					0	0	0.004482	0	0		T	100741243	T	T	100741243	3	4	116	1	0	0	0	0	1	0	0	0	13743	681	24	4	773	4	RTCD1	1	100741243	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	10682870	100741243	148509378	11	65780											
GPSM2	29899	broad.mit.edu	37	chr1	109465061	109465061	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aatcagtgcagatactattgGagatgaagggttctttgact	12	13	11	5	0	2	4	1	2	1	2	2	5	2	4	0	2	2	2	0	2	4	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:109465061G>C	uc010ovc.1	+	13	1959	c.1463G>C	c.(1462-1464)GGA>GCA	p.G488A	AKNAD1_uc010ovb.1_Intron|GPSM2_uc010ovd.1_Missense_Mutation_p.G488A|GPSM2_uc010ove.1_Missense_Mutation_p.G488A	NM_013296	NP_037428	P81274	GPSM2_HUMAN	LGN protein	488					G-protein coupled receptor protein signaling pathway	cell cortex|nucleus	GTPase activator activity|identical protein binding			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0353)|Lung(183;0.0984)|COAD - Colon adenocarcinoma(174;0.129)|Epithelial(280;0.175)|all cancers(265;0.209)		GATACTATTGGAGATGAAGGG	0.338													10	103					0	0	0.008291	0	0		C	109465061	C	C	109465061	3	2	116	1	0	0	0	0	1	0	0	0	6751	1174	41	5	1509	5	GPSM2	1	109465061	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	8723818	109465061	139785560	12	65781											
KCND3	3752	broad.mit.edu	37	chr1	112525166	112525166	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgcccagcagggtgtccggGtagcgctccagcgtggtcct	4	8	15	14	3	0	0	0	0	0	0	3	0	3	0	4	3	4	3	4	3	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:112525166G>C	uc001ebu.1	-	2	663	c.183C>G	c.(181-183)TAC>TAG	p.Y61*	KCND3_uc001ebv.1_Nonsense_Mutation_p.Y61*	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	61	Cytoplasmic (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		GGGTGTCCGGGTAGCGCTCCA	0.632													7	69					0	0	0.004482	0	0		C	112525166	C	C	112525166	4	2	116	1	0	0	0	0	0	1	0	0	8036	1256	44	5	1812	5	KCND3	1	112525166	Nonsense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	3060105	112525166	136725455	13	65782											
PDZK1	5174	broad.mit.edu	37	chr1	145747082	145747082	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgagaatgtaaactgtcCaagcaagaagggcaaaacta	17	5	9	10	1	0	2	0	0	0	2	1	3	1	2	3	1	3	3	3	1	9	2	rs150154026		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:145747082C>G	uc001eon.1	+	3	136	c.39C>G	c.(37-39)TCC>TCG	p.S13S	NBPF10_uc001emp.3_Intron|PDZK1_uc001eoo.1_Silent_p.S13S|PDZK1_uc010oza.1_Silent_p.S13S	NM_002614	NP_002605	Q5T2W1	NHRF3_HUMAN	PDZ domain containing 1	13	PDZ 1.				carnitine transport|cell proliferation|drug transport|positive regulation of ion transmembrane transport	brush border membrane|cytoplasm	PDZ domain binding|transporter activity				0	all_hematologic(18;0.00473)|Acute lymphoblastic leukemia(18;0.0786)		KIRC - Kidney renal clear cell carcinoma(6;0.0764)|Kidney(552;0.118)|Colorectal(543;0.229)			GTAAACTGTCCAAGCAAGAAG	0.453													12	208					0	0	0.001855	0	0		G	145747082	G	G	145747082	2	3	116	1	0	0	0	0	0	0	0	1	11726	581	21	5		5	PDZK1	1	145747082	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	33221916	145747082	103503539	14	65783											
THEM5	284486	broad.mit.edu	37	chr1	151820670	151820670	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacttactttttgaacctgAtgttgagacttagtgtgaac	11	16	8	6	0	0	4	0	4	0	1	0	5	0	4	1	0	4	1	1	0	5	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:151820670A>T	uc009wnd.2	-	4	695	c.563T>A	c.(562-564)ATC>AAC	p.I188N		NM_182578	NP_872384	Q8N1Q8	THEM5_HUMAN	thioesterase superfamily member 5	188							hydrolase activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			TTTGAACCTGATGTTGAGACT	0.552													39	119					0	0	0.00623	0	0		T	151820670	T	T	151820670	3	4	116	1	0	0	0	0	1	0	0	0	15884	333	12	5	192	5	THEM5	1	151820670	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	6073588	151820670	97429951	15	65784											
ADAM15	8751	broad.mit.edu	37	chr1	155034398	155034398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggctgagctggctgaccgaCccaatccccctacccgccct	7	6	9	19	2	0	2	0	2	0	0	1	3	1	2	6	2	2	3	6	2	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:155034398C>T	uc001fgr.1	+	21	2472	c.2371C>T	c.(2371-2373)CCC>TCC	p.P791S	EFNA3_uc010pew.1_5'Flank|ADAM15_uc001fgq.1_Missense_Mutation_p.P475S|ADAM15_uc001fgt.1_Missense_Mutation_p.P790S|ADAM15_uc010pev.1_Intron|ADAM15_uc001fgs.1_Intron|ADAM15_uc001fgu.1_Missense_Mutation_p.P766S|ADAM15_uc001fgw.1_Intron|ADAM15_uc001fgv.1_Intron|ADAM15_uc001fgx.1_Intron|ADAM15_uc001fgz.1_RNA|ADAM15_uc001fgy.1_RNA|ADAM15_uc001fha.1_RNA|ADAM15_uc001fhb.1_Intron|EFNA4_uc001fhc.2_5'Flank|EFNA4_uc001fhd.2_5'Flank|EFNA4_uc001fhe.2_5'Flank	NM_207197	NP_997080	Q13444	ADA15_HUMAN	a disintegrin and metalloproteinase domain 15	791	Cytoplasmic (Potential).				angiogenesis|cell-matrix adhesion|collagen catabolic process|proteolysis	acrosomal vesicle|adherens junction|endomembrane system|flagellum|integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			central_nervous_system(3)|skin(2)|ovary(1)	6	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			GGCTGACCGACCCAATCCCCC	0.647											OREG0013848	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	194					0	0	0.013537	0	0		T	155034398	T	T	155034398	3	4	116	1	0	0	0	0	1	0	0	0	237	507	18	4	2453	4	ADAM15	1	155034398	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	3213728	155034398	94216223	16	65785											
ASH1L	55870	broad.mit.edu	37	chr1	155490999	155490999	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaggtcgacatacatagttCtccaagttctttggaggttt	9	14	10	8	1	2	0	0	0	2	0	4	2	2	1	1	3	1	4	1	3	3	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:155490999C>T	uc009wqq.2	-	2	792	c.312G>A	c.(310-312)GAG>GAA	p.E104E	ASH1L_uc001fkt.2_Silent_p.E104E|ASH1L_uc009wqr.1_Silent_p.E104E	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	104					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			ATACATAGTTCTCCAAGTTCT	0.363													24	288					0	0	0.00333	0	0		T	155490999	T	T	155490999	2	4	116	1	0	0	0	0	0	0	0	1	1042	912	32	4		4	ASH1L	1	155490999	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	456601	155490999	93759622	17	65786											
KIAA0907	22889	broad.mit.edu	37	chr1	155895441	155895441	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgatgtaaatatacataGgttcaaaagcttctcggcca	14	11	7	9	1	2	1	1	1	1	0	3	1	2	1	2	2	2	3	2	2	7	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:155895441G>C	uc001fmi.1	-	7	899	c.875C>G	c.(874-876)CCT>CGT	p.P292R	KIAA0907_uc001fmj.1_Missense_Mutation_p.P292R|KIAA0907_uc009wrk.1_Intron|KIAA0907_uc009wrl.1_RNA|KIAA0907_uc001fml.1_Missense_Mutation_p.P292R|KIAA0907_uc001fmm.2_3'UTR	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	292											0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			AATATACATAGGTTCAAAAGC	0.463													14	137					0	0	0.006122	0	0		C	155895441	C	C	155895441	3	2	116	1	0	0	0	0	1	0	0	0	8215	1000	35	5	1001	5	KIAA0907	1	155895441	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	404442	155895441	93355180	18	65787											
ARHGEF2	9181	broad.mit.edu	37	chr1	155935499	155935499	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgggagcccaggagggactgCcggaagctgtcggaggggta	8	4	20	9	3	0	0	0	0	0	0	1	5	0	5	2	7	3	2	2	7	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:155935499C>T	uc001fmt.2	-	5	511	c.393G>A	c.(391-393)CGG>CGA	p.R131R	ARHGEF2_uc001fmr.2_Silent_p.R104R|ARHGEF2_uc001fms.2_Silent_p.R131R|ARHGEF2_uc001fmu.2_Silent_p.R176R|ARHGEF2_uc010pgt.1_Silent_p.R104R|ARHGEF2_uc010pgu.1_Silent_p.R176R	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	131					actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					GGAGGGACTGCCGGAAGCTGT	0.612													9	46					0	0	0.006214	0	0		T	155935499	T	T	155935499	2	4	116	1	0	0	0	0	0	0	0	1	903	726	26	2		2	ARHGEF2	1	155935499	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	40058	155935499	93315122	19	65788											
FCRL3	115352	broad.mit.edu	37	chr1	157667565	157667565	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agactgaattcactgtgatcTtctctaaattataactatta	14	16	4	7	0	3	3	1	2	2	1	4	3	3	3	0	0	1	0	0	0	7	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:157667565T>C	uc001frb.2	-	5	735	c.443A>G	c.(442-444)AAG>AGG	p.K148R	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.K148R|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_5'UTR|FCRL3_uc001frc.1_Missense_Mutation_p.K148R	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	148	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					CACTGTGATCTTCTCTAAATT	0.343													18	172					0	0	0.012319	0	0		C	157667565	C	C	157667565	3	2	116	1	0	0	0	0	1	0	0	0	5810	1609	56	3	1805	3	FCRL3	1	157667565	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	1732066	157667565	91583056	20	65789											
OR10K1	391109	broad.mit.edu	37	chr1	158435864	158435864	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catctgcccttccactcctcCaaccagctccatcacttctt	7	12	2	20	0	3	0	1	0	2	0	7	0	7	0	6	0	3	1	6	0	1	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:158435864C>A	uc010pij.1	+	1	513	c.513C>A	c.(511-513)TCC>TCA	p.S171S		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	171	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TCCACTCCTCCAACCAGCTCC	0.527													18	316					1.56452e-12	1.86568e-12	0.007413	1	0		A	158435864	A	A	158435864	2	1	116	1	0	0	0	0	0	0	0	1	10932	581	21	5		5	OR10K1	1	158435864	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	768299	158435864	90814757	21	65790											
SPTA1	6708	broad.mit.edu	37	chr1	158581078	158581078	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccaaagtaggaattggtGaagccaacgtagtcatagcc	13	9	11	8	1	1	1	1	1	0	0	1	2	1	2	3	2	4	2	3	2	7	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:158581078G>T	uc001fst.1	-	52	7435	c.7236C>A	c.(7234-7236)TTC>TTA	p.F2412L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2412				GRSHLSGYDYVGFTNSYFGN -> VEAISLAMTTLASPIPT LATNKQLLVDRRKS (in Ref. 1; AAA60577/ AAA60994).	actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					AGGAATTGGTGAAGCCAACGT	0.483													9	77					2.74318e-10	3.22578e-10	0.006214	1	0		T	158581078	T	T	158581078	3	4	116	1	0	0	0	0	1	0	0	0	15141	1281	45	5	27	5	SPTA1	1	158581078	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	145214	158581078	90669543	22	65791											
POU2F1	5451	broad.mit.edu	37	chr1	167334762	167334762	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgcctgtaggaggagcaatCtcaacagcccaggcgcaggc	10	5	14	12	1	1	0	1	0	1	0	2	2	1	2	2	4	4	3	2	4	3	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:167334762C>G	uc001gec.2	+	4	279	c.117C>G	c.(115-117)ATC>ATG	p.I39M	POU2F1_uc010plg.1_RNA|POU2F1_uc001ged.2_Missense_Mutation_p.I37M|POU2F1_uc001gee.2_Missense_Mutation_p.I39M|POU2F1_uc010plh.1_Missense_Mutation_p.I39M|POU2F1_uc001gef.2_Missense_Mutation_p.I51M	NM_002697	NP_002688	P14859	PO2F1_HUMAN	POU class 2 homeobox 1	39					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|skin(2)|breast(1)	5						GAGGAGCAATCTCAACAGCCC	0.448													7	64					0	0	0.001984	0	0		G	167334762	G	G	167334762	3	3	116	1	0	0	0	0	1	0	0	0	12290	903	32	5	123	5	POU2F1	1	167334762	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	8753684	167334762	81915859	23	65792											
TIPRL	261726	broad.mit.edu	37	chr1	168165873	168165873	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgaatgacacgagactttAccatgaggtatttattgttg	13	14	9	5	1	0	4	0	3	0	1	0	5	0	4	1	1	1	2	1	1	5	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:168165873A>C	uc001gfg.2	+	5	750	c.605A>C	c.(604-606)TAC>TCC	p.Y202S	TIPRL_uc001gfh.2_Missense_Mutation_p.Y202S	NM_152902	NP_690866	O75663	TIPRL_HUMAN	TIP41, TOR signalling pathway regulator-like	202	Interaction with PPP2CA.				DNA damage checkpoint|negative regulation of protein phosphatase type 2A activity	cytoplasm	protein binding			ovary(1)	1	all_hematologic(923;0.215)					ACGAGACTTTACCATGAGGTA	0.328													6	57					0	0	0.001984	0	0		C	168165873	C	C	168165873	3	2	116	1	0	0	0	0	1	0	0	0	15951	391	14	5	648	5	TIPRL	1	168165873	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	831111	168165873	81084748	24	65793											
NME7	29922	broad.mit.edu	37	chr1	169267893	169267893	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaagcatctgtgcgtgcCactccagagtttgcaggtcc	8	10	11	12	1	2	2	1	0	1	2	4	2	4	2	3	1	4	3	3	1	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:169267893C>T	uc001gfu.2	-	6	787	c.549G>A	c.(547-549)GTG>GTA	p.V183V	NME7_uc010plq.1_RNA|NME7_uc001gft.2_Silent_p.V147V|NME7_uc001gfv.1_Silent_p.V183V	NM_013330	NP_037462	Q9Y5B8	NDK7_HUMAN	nucleoside diphosphate kinase 7 isoform a	183					CTP biosynthetic process|GTP biosynthetic process|UTP biosynthetic process	centrosome	ATP binding|metal ion binding|nucleoside diphosphate kinase activity			central_nervous_system(1)	1	all_hematologic(923;0.208)					CTGTGCGTGCCACTCCAGAGT	0.458													7	63					0	0	0.00308	0	0		T	169267893	T	T	169267893	2	4	116	1	0	0	0	0	0	0	0	1	10515	581	21	4		4	NME7	1	169267893	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1102020	169267893	79982728	25	65794											
F5	2153	broad.mit.edu	37	chr1	169511612	169511612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctaggaaggtcctcccaggGcctcattccggaaggagaac	10	6	13	12	1	1	1	1	0	0	1	4	4	4	3	4	5	1	1	4	5	4	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:169511612G>A	uc001ggg.1	-	13	2861	c.2716C>T	c.(2716-2718)CCC>TCC	p.P906S		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	906	2 X 17 AA tandem repeats.|1-1.|B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TCCTCCCAGGGCCTCATTCCG	0.488													21	166					0	0	0.012319	0	0		A	169511612	A	A	169511612	3	1	116	1	0	0	0	0	1	0	0	0	5356	1203	42	2	4010	2	F5	1	169511612	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	243719	169511612	79739009	26	65795											
SELP	6403	broad.mit.edu	37	chr1	169580849	169580849	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctggagccataggcaaaaGcagtgagcggatgaacacag	15	4	14	8	1	0	2	0	2	0	0	0	4	0	4	1	3	5	3	1	3	4	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:169580849G>T	uc001ggi.3	-	7	1093	c.1028C>A	c.(1027-1029)GCT>GAT	p.A343D	SELP_uc001ggh.2_Missense_Mutation_p.A178D|SELP_uc009wvr.2_Missense_Mutation_p.A343D	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	343	Sushi 3.|Extracellular (Potential).				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	ATAGGCAAAAGCAGTGAGCGG	0.527													15	90					1.52009e-12	1.81696e-12	0.003163	1	0		T	169580849	T	T	169580849	3	4	116	1	0	0	0	0	1	0	0	0	14044	971	34	5	1504	5	SELP	1	169580849	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	69237	169580849	79669772	27	65796											
FASLG	356	broad.mit.edu	37	chr1	172635113	172635113	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctgagctctctctggtcaAttttgaggaatctcagacgt	9	14	9	9	1	5	3	2	2	4	1	7	4	5	4	0	2	1	1	0	2	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:172635113A>T	uc001gis.2	+	4	960	c.803A>T	c.(802-804)AAT>ATT	p.N268I	FASLG_uc001git.2_3'UTR	NM_000639	NP_000630	P48023	TNFL6_HUMAN	fas ligand	268	Extracellular (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of necroptosis by extracellular signals|induction of necroptosis of activated-T cells|necrotic cell death|negative regulation of angiogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane	cytokine activity			lung(2)|breast(1)	3						TCTCTGGTCAATTTTGAGGAA	0.448													10	85					0	0	0.006214	0	0		T	172635113	T	T	172635113	3	4	116	1	0	0	0	0	1	0	0	0	5696	101	4	5	817	5	FASLG	1	172635113	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	3054264	172635113	76615508	28	65797											
TNN	63923	broad.mit.edu	37	chr1	175087841	175087841	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaccagggaggttccagtggGgaaggagcagagcagcactg	11	4	18	8	0	0	1	0	0	0	1	1	5	1	4	2	5	3	4	2	5	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:175087841G>T	uc001gkl.1	+	11	2644	c.2531G>T	c.(2530-2532)GGG>GTG	p.G844V		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	844	Fibronectin type-III 7.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GTTCCAGTGGGGAAGGAGCAG	0.617													5	62					3.59834e-05	3.97381e-05	0.001168	1	0		T	175087841	T	T	175087841	3	4	116	1	0	0	0	0	1	0	0	0	16348	1232	43	5	2569	5	TNN	1	175087841	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	2452728	175087841	74162780	29	65798											
MR1	3140	broad.mit.edu	37	chr1	181022743	181022743	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctcttgtgatgaaagctgtCtctgggtccattgtccttgt	5	16	10	10	0	2	2	0	2	2	0	5	2	4	2	3	1	1	1	3	1	1	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:181022743C>G	uc001goq.1	+	5	920	c.915C>G	c.(913-915)GTC>GTG	p.V305V	MR1_uc001gor.1_Silent_p.V260V|MR1_uc001gos.1_Silent_p.V213V|MR1_uc010pns.1_Intron	NM_001531	NP_001522	Q95460	HMR1_HUMAN	major histocompatibility complex, class	305	Helical; (Potential).				antigen processing and presentation of peptide antigen via MHC class I|immune response	endoplasmic reticulum|extracellular region|integral to membrane|MHC class I protein complex	MHC class I receptor activity			skin(1)	1						TGAAAGCTGTCTCTGGGTCCA	0.493													7	62					0	0	0.00308	0	0		G	181022743	G	G	181022743	2	3	116	1	0	0	0	0	0	0	0	1	9770	900	32	5		5	MR1	1	181022743	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	5934902	181022743	68227878	30	65799											
PTGS2	5743	broad.mit.edu	37	chr1	186645623	186645623	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtattagcctgcttgtctGgaacaactgctcatcacccc	9	11	7	14	0	3	0	2	0	1	0	3	1	3	1	3	1	5	3	3	1	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:186645623G>A	uc001gsb.2	-	7	1083	c.946C>T	c.(946-948)CAG>TAG	p.Q316*	PTGS2_uc009wyo.2_Nonsense_Mutation_p.Q163*	NM_000963	NP_000954	P35354	PGH2_HUMAN	prostaglandin-endoperoxide synthase 2 precursor	316					cellular component movement|cyclooxygenase pathway|hormone biosynthetic process|positive regulation of brown fat cell differentiation|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of fever generation|positive regulation of fibroblast growth factor production|positive regulation of nitric oxide biosynthetic process|positive regulation of platelet-derived growth factor production|positive regulation of prostaglandin biosynthetic process|positive regulation of transforming growth factor-beta production|positive regulation vascular endothelial growth factor production|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|microsome|neuron projection|nucleus	enzyme binding|heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|central_nervous_system(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Carprofen(DB00821)|Celecoxib(DB00482)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Epoprostenol(DB01240)|Etodolac(DB00749)|Etoricoxib(DB01628)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ginseng(DB01404)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lenalidomide(DB00480)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mesalazine(DB00244)|Nabumetone(DB00461)|Naproxen(DB00788)|Oxaprozin(DB00991)|Phenylbutazone(DB00812)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Thalidomide(DB01041)|Tiaprofenic acid(DB01600)|Tolmetin(DB00500)|Valdecoxib(DB00580)	CTGCTTGTCTGGAACAACTGC	0.418													12	123					0	0	0.010729	0	0		A	186645623	A	A	186645623	4	1	116	1	0	0	0	0	0	1	0	0	12779	1357	47	4	884	4	PTGS2	1	186645623	Nonsense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	5622880	186645623	62604998	31	65800											
FAM5C	339479	broad.mit.edu	37	chr1	190195232	190195232	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgattcctcaaagtcactgTtgtaagctttccaggtttca	9	15	7	10	0	3	1	3	1	0	0	5	1	5	1	2	1	1	4	2	1	2	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:190195232T>C	uc001gse.1	-	6	1173	c.941A>G	c.(940-942)AAC>AGC	p.N314S	FAM5C_uc010pot.1_Missense_Mutation_p.N212S	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	314						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					AAAGTCACTGTTGTAAGCTTT	0.353													10	45					0	0	0.008291	0	0		C	190195232	C	C	190195232	3	2	116	1	0	0	0	0	1	0	0	0	5608	1725	60	3	1371	3	FAM5C	1	190195232	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	3549609	190195232	59055389	32	65801											
RGS18	64407	broad.mit.edu	37	chr1	192127852	192127852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaagttaatacatggttcaGgaaaagaagaaacaagcaaa	21	7	8	5	0	2	2	2	0	0	2	2	3	2	3	0	2	3	3	0	2	9	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:192127852G>A	uc001gsg.2	+	1	261	c.85G>A	c.(85-87)GGA>AGA	p.G29R		NM_130782	NP_570138	Q9NS28	RGS18_HUMAN	regulator of G-protein signalling 18	29					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)	3						ACATGGTTCAGGAAAAGAAGA	0.279													13	52					0	0	0.001855	0	0		A	192127852	A	A	192127852	3	1	116	1	0	0	0	0	1	0	0	0	13325	1001	35	4	87	4	RGS18	1	192127852	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1932620	192127852	57122769	33	65802											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200819236	200819236	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaaaatgttaatctgatTgaagtttccctctcagattt	13	15	5	8	0	2	3	1	2	2	1	4	3	3	3	2	0	0	2	2	0	5	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:200819236T>G	uc001gvl.2	+	12	3642	c.3372T>G	c.(3370-3372)ATT>ATG	p.I1124M	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.I1113M|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.I1097M	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	1124						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TTAATCTGATTGAAGTTTCCC	0.413													29	114					0	0	0.007291	0	0		G	200819236	G	G	200819236	3	3	116	1	0	0	0	0	1	0	0	0	2615	1800	63	5	3381	5	CAMSAP1L1	1	200819236	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	8691384	200819236	48431385	34	65803											
CENPF	1063	broad.mit.edu	37	chr1	214795534	214795534	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaactggagaaagcaaaAgtggaattaattgaaaaaga	20	7	9	5	0	0	3	0	1	0	2	1	5	1	4	1	2	2	1	1	2	8	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:214795534A>T	uc001hkm.2	+	7	1152	c.978A>T	c.(976-978)AAA>AAT	p.K326N		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	326	Interaction with SNAP25 and required for localization to the cytoplasm (By similarity).|Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		AGAAAGCAAAAGTGGAATTAA	0.388													8	48					0	0	0.00308	0	0		T	214795534	T	T	214795534	3	4	116	1	0	0	0	0	1	0	0	0	3234	69	3	5	1000	5	CENPF	1	214795534	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	13976298	214795534	34455087	35	65804											
USH2A	7399	broad.mit.edu	37	chr1	215848522	215848522	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacaggtatgcccagctgaaTtccaagtgtagattttatat	12	14	8	7	0	0	2	0	1	0	1	1	2	1	2	2	1	3	3	2	1	7	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:215848522T>C	uc001hku.1	-	63	13118	c.12731A>G	c.(12730-12732)AAT>AGT	p.N4244S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4244	Extracellular (Potential).|Fibronectin type-III 27.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CCCAGCTGAATTCCAAGTGTA	0.318										HNSCC(13;0.011)			9	63					0	0	0.004482	0	0		C	215848522	C	C	215848522	3	2	116	1	0	0	0	0	1	0	0	0	17062	1493	52	3	2917	3	USH2A	1	215848522	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	1052988	215848522	33402099	36	65805											
ESRRG	2104	broad.mit.edu	37	chr1	216680463	216680463	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcttcataatcctgcaGcgcttcatgtaagacatcct	10	11	7	13	1	2	1	2	0	0	1	4	1	4	1	3	0	3	4	3	0	2	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:216680463G>A	uc001hkw.1	-	7	1361	c.1195C>T	c.(1195-1197)CTG>TTG	p.L399L	ESRRG_uc001hky.1_Silent_p.L376L|ESRRG_uc009xdp.1_Silent_p.L376L|ESRRG_uc001hkz.1_Silent_p.L337L|ESRRG_uc010puc.1_Silent_p.L376L|ESRRG_uc001hla.1_Silent_p.L376L|ESRRG_uc001hlb.1_Silent_p.L376L|ESRRG_uc010pud.1_Silent_p.L207L|ESRRG_uc001hlc.1_Silent_p.L376L|ESRRG_uc001hld.1_Silent_p.L376L|ESRRG_uc001hkx.1_Silent_p.L411L|ESRRG_uc009xdo.1_Silent_p.L376L	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	399					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	TAATCCTGCAGCGCTTCATGT	0.478													17	102					0	0	0.007413	0	0		A	216680463	A	A	216680463	2	1	116	1	0	0	0	0	0	0	0	1	5270	962	34	2		2	ESRRG	1	216680463	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	831941	216680463	32570158	37	65806											
URB2	9816	broad.mit.edu	37	chr1	229772997	229772997	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacttactgtccctggtcaaGagtgacttccctatccagct	9	12	7	13	0	1	2	1	1	0	1	4	2	4	2	3	1	3	1	3	1	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:229772997G>A	uc001hts.1	+	4	2773	c.2637G>A	c.(2635-2637)AAG>AAA	p.K879K	URB2_uc009xfd.1_Silent_p.K879K	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	879						nucleolus				central_nervous_system(2)|ovary(1)	3						CCCTGGTCAAGAGTGACTTCC	0.502													16	119					0	0	0.003163	0	0		A	229772997	A	A	229772997	2	1	116	1	0	0	0	0	0	0	0	1	17051	933	33	4		4	URB2	1	229772997	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	13092534	229772997	19477624	38	65807											
LYST	1130	broad.mit.edu	37	chr1	235976313	235976313	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aggtatcttccataccagtgGaaggagagacagaagaagag	16	6	13	6	0	1	4	0	0	1	4	2	7	2	6	2	3	1	1	2	3	5	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:235976313G>C	uc001hxj.2	-	4	416	c.241C>G	c.(241-243)CCA>GCA	p.P81A	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Missense_Mutation_p.P81A	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	81					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			CATACCAGTGGAAGGAGAGAC	0.378									Chediak-Higashi_syndrome				4	40					0	0	0.000602	0	0		C	235976313	C	C	235976313	3	2	116	1	0	0	0	0	1	0	0	0	9146	1174	41	5	11364	5	LYST	1	235976313	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	6203316	235976313	13274308	39	65808											
OPN3	23596	broad.mit.edu	37	chr1	241761205	241761205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcatccaacagaccaggaagGtgaatatcattaaaaagcac	18	6	8	9	0	1	2	1	1	0	1	2	3	2	3	2	2	2	2	2	2	7	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:241761205G>A	uc001hza.2	-	3	933	c.788C>T	c.(787-789)ACC>ATC	p.T263I	OPN3_uc001hzb.2_RNA|OPN3_uc001hzc.2_RNA	NM_014322	NP_055137	Q9H1Y3	OPN3_HUMAN	opsin 3	263	Helical; Name=6; (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|visual perception	integral to plasma membrane	G-protein coupled photoreceptor activity				0	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			GACCAGGAAGGTGAATATCAT	0.393													23	92					0	0	0.014323	0	0		A	241761205	A	A	241761205	3	1	116	1	0	0	0	0	1	0	0	0	10900	1261	44	4	428	4	OPN3	1	241761205	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	5784892	241761205	7489416	40	65809											
PGBD2	267002	broad.mit.edu	37	chr1	249212076	249212076	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgggcatagagccagtGaggctgaccagtcgtcactc	8	8	14	11	1	1	3	1	2	0	1	3	3	1	3	2	2	1	3	2	2	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr1:249212076G>T	uc001ifh.2	+	3	1440	c.1293G>T	c.(1291-1293)GTG>GTT	p.V431V	PGBD2_uc001ifg.2_Silent_p.V180V|PGBD2_uc009xhd.2_Silent_p.V428V	NM_170725	NP_733843	Q6P3X8	PGBD2_HUMAN	hypothetical protein LOC267002 isoform a	431										ovary(1)	1	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.012)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			TAGAGCCAGTGAGGCTGACCA	0.542													7	67					8.12818e-05	8.84179e-05	0.001984	1	0		T	249212076	T	T	249212076	2	4	116	1	0	0	0	0	0	0	0	1	11800	1277	45	5		5	PGBD2	1	249212076	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	7450871	249212076	38545	41	65810											
CALM2	805	broad.mit.edu	37	chr2	47389473	47389473	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcttcttcactgtctgtGtctttcatttttcttgccat	4	23	4	10	0	7	0	2	0	5	0	7	0	7	0	1	0	1	0	1	0	0	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:47389473G>T	uc002rvt.2	-	4	395	c.237C>A	c.(235-237)GAC>GAA	p.D79E	C2orf61_uc010fbd.2_Intron|CALM2_uc010fbe.2_Intron	NM_001743	NP_001734	P62158	CALM_HUMAN	calmodulin 2	79	EF-hand 2.				activation of phospholipase C activity|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen catabolic process|muscle contraction|negative regulation of ryanodine-sensitive calcium-release channel activity|nerve growth factor receptor signaling pathway|nitric oxide metabolic process|platelet activation|platelet degranulation|positive regulation of ryanodine-sensitive calcium-release channel activity|regulation of cytokinesis|regulation of nitric-oxide synthase activity|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to calcium ion|synaptic transmission	centrosome|cytosol|extracellular region|nucleoplasm|plasma membrane|spindle microtubule|spindle pole	calcium ion binding|N-terminal myristoylation domain binding|phospholipase binding|protein domain specific binding|thioesterase binding|titin binding	p.0?(2)			0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)		Aprindine(DB01429)|Bepridil(DB01244)|Dibucaine(DB00527)|Felodipine(DB01023)|Flunarizine(DB04841)|Fluphenazine(DB00623)|Isoflurane(DB00753)|Loperamide(DB00836)|Miconazole(DB01110)|Perphenazine(DB00850)|Phenoxybenzamine(DB00925)|Pimozide(DB01100)|Promethazine(DB01069)	CACTGTCTGTGTCTTTCATTT	0.368													9	46					7.48243e-07	8.52259e-07	0.006214	1	0		T	47389473	T	T	47389473	3	4	116	1	0	0	0	0	1	0	0	0	2588	1368	48	5	224	5	CALM2	2	47389473	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08		47389473	195809900	42	65811											
NRXN1	9378	broad.mit.edu	37	chr2	50318609	50318609	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatctgtcccaacattaaaCttaactccaatttttccctg	11	15	2	13	0	2	0	1	0	1	0	5	0	5	0	3	0	3	0	3	0	5	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:50318609C>T	uc010fbp.2	-	3	1272	c.465G>A	c.(463-465)AAG>AAA	p.K155K	NRXN1_uc002rxb.3_Silent_p.K862K|NRXN1_uc010fbq.2_Silent_p.K1230K|NRXN1_uc002rxe.3_Silent_p.K1190K	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	155	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CAACATTAAACTTAACTCCAA	0.378													8	99					0	0	0.006214	0	0		T	50318609	T	T	50318609	2	4	116	1	0	0	0	0	0	0	0	1	10684	564	20	4		4	NRXN1	2	50318609	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	2929136	50318609	192880764	43	65812											
CLEC4F	165530	broad.mit.edu	37	chr2	71039583	71039583	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcgcagctctgacctgcTcctccttggaggccacagat	6	10	10	15	1	1	2	0	1	1	1	4	3	3	3	4	2	3	4	4	2	0	1	rs145897327	byFrequency	TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:71039583T>A	uc002shf.2	-	5	1612	c.1535A>T	c.(1534-1536)GAG>GTG	p.E512V	CLEC4F_uc010yqv.1_Missense_Mutation_p.E512V	NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	512	Extracellular (Potential).|C-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5						TCTGACCTGCTCCTCCTTGGA	0.522													5	80					0	0	0.000602	0	0		A	71039583	A	A	71039583	3	1	116	1	0	0	0	0	1	0	0	0	3519	1551	54	5	246	5	CLEC4F	2	71039583	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	20720974	71039583	172159790	44	65813											
RTKN	6242	broad.mit.edu	37	chr2	74659594	74659594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtctcccccttgctcacCgccggcttgtcttccccagc	2	11	7	21	3	3	0	1	0	2	0	6	0	4	0	6	1	2	2	6	1	0	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:74659594C>T	uc002sle.2	-	2	428	c.311G>A	c.(310-312)CGG>CAG	p.R104Q	RTKN_uc002slc.2_Missense_Mutation_p.R91Q|RTKN_uc002sld.2_Missense_Mutation_p.R54Q|RTKN_uc010ffe.1_Intron|RTKN_uc010fff.1_Missense_Mutation_p.R91Q|RTKN_uc010ffg.1_Missense_Mutation_p.R104Q	NM_001015055	NP_001015055	Q9BST9	RTKN_HUMAN	rhotekin isoform a	104					apoptosis|regulation of anti-apoptosis|Rho protein signal transduction	intracellular	GTP binding|GTP-Rho binding|GTPase inhibitor activity			skin(1)	1						CCTTGCTCACCGCCGGCTTGT	0.637													7	98					0	0	0.00308	0	0		T	74659594	T	T	74659594	3	4	116	1	0	0	0	0	1	0	0	0	13747	666	23	1	1424	1	RTKN	2	74659594	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	3620011	74659594	168539779	45	65814											
CNGA3	1261	broad.mit.edu	37	chr2	99013226	99013226	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagctggccgtggtggcTgatgatggggtcacccagtt	6	9	17	9	1	1	2	1	2	0	0	1	2	1	2	2	6	1	4	2	6	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:99013226T>A	uc002syt.2	+	8	2010	c.1593T>A	c.(1591-1593)GCT>GCA	p.A531A	CNGA3_uc002syu.2_Silent_p.A513A|CNGA3_uc010fij.2_Silent_p.A535A	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	531	cGMP.				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						CCGTGGTGGCTGATGATGGGG	0.557													13	135					0	0	0.013537	0	0		A	99013226	A	A	99013226	2	1	116	1	0	0	0	0	0	0	0	1	3601	1567	55	5		5	CNGA3	2	99013226	Silent	SNP	T	TCGA-CD-8529-01A-11D-2340-08	24353632	99013226	144186147	46	65815											
AFF3	3899	broad.mit.edu	37	chr2	100185340	100185340	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctgctttatgcttcattcGtttagcttcttgcataaaat	9	19	5	8	1	3	0	1	0	2	0	4	0	3	0	0	0	4	5	0	0	4	9			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:100185340G>C	uc002tag.2	-	18	3192	c.2956C>G	c.(2956-2958)CGA>GGA	p.R986G	AFF3_uc002taf.2_Missense_Mutation_p.R1011G	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	986					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						TGCTTCATTCGTTTAGCTTCT	0.378													8	125					0	0	0.006214	0	0		C	100185340	C	C	100185340	3	2	116	1	0	0	0	0	1	0	0	0	358	1153	40	5	752	5	AFF3	2	100185340	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1172114	100185340	143014033	47	65816											
ST6GAL2	84620	broad.mit.edu	37	chr2	107460196	107460196	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgggtgggcgcggggcaGcgcctggcgtgcgtccaggc	2	5	22	12	5	0	0	0	0	0	0	1	0	1	0	2	7	2	2	2	7	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:107460196G>T	uc002tdq.2	-	2	357	c.238C>A	c.(238-240)CTG>ATG	p.L80M	ST6GAL2_uc002tdr.2_Missense_Mutation_p.L80M|ST6GAL2_uc002tds.3_Missense_Mutation_p.L80M	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	80	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						GCGCGGGGCAGCGCCTGGCGT	0.662													5	36					0.000602214	0.000636019	0.000602	1	0		T	107460196	T	T	107460196	3	4	116	1	0	0	0	0	1	0	0	0	15247	962	34	5	1458	5	ST6GAL2	2	107460196	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	7274856	107460196	135739177	48	65817											
RANBP2	5903	broad.mit.edu	37	chr2	109389389	109389389	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgaagagaaggcaaaagcaGatacgttaaaacttccacct	17	8	8	8	1	0	3	0	1	0	2	1	4	1	3	2	1	3	3	2	1	7	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:109389389G>C	uc002tem.3	+	23	8305	c.8179G>C	c.(8179-8181)GAT>CAT	p.D2727H		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2727	Interaction with SUMO1.|2 X 50 AA approximate repeats.|2.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GGCAAAAGCAGATACGTTAAA	0.348													4	39					0	0	0.000602	0	0		C	109389389	C	C	109389389	3	2	116	1	0	0	0	0	1	0	0	0	13053	942	33	5	8269	5	RANBP2	2	109389389	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1929193	109389389	133809984	49	65818											
BUB1	699	broad.mit.edu	37	chr2	111395577	111395577	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacattctaagagcagtacAattagcctattacgtagggc	13	12	8	8	1	1	1	0	0	1	1	1	1	1	1	1	1	5	3	1	1	8	8			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:111395577A>C	uc002tgc.2	-	25	3334	c.3222T>G	c.(3220-3222)ATT>ATG	p.I1074M	BUB1_uc010yxh.1_Missense_Mutation_p.I1054M|BUB1_uc010fkb.2_Missense_Mutation_p.I1017M	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	1074	Protein kinase.				apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		AGAGCAGTACAATTAGCCTAT	0.343													6	69					0	0	0.001984	0	0		C	111395577	C	C	111395577	3	2	116	1	0	0	0	0	1	0	0	0	1573	126	5	5	39	5	BUB1	2	111395577	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	2006188	111395577	131803796	50	65819											
RIF1	55183	broad.mit.edu	37	chr2	152320512	152320512	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagaagactcttggggaaaCtagtgctaatgcagaaactg	14	9	12	6	0	1	3	0	1	1	3	1	5	1	4	0	2	4	2	0	2	5	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:152320512C>G	uc002txm.2	+	30	4608	c.4478C>G	c.(4477-4479)ACT>AGT	p.T1493S	RIF1_uc002txl.2_Missense_Mutation_p.T1493S|RIF1_uc002txn.2_Missense_Mutation_p.T1493S|RIF1_uc002txo.2_Missense_Mutation_p.T1493S|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	1493					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		CTTGGGGAAACTAGTGCTAAT	0.378													9	78					0	0	0.004482	0	0		G	152320512	G	G	152320512	3	3	116	1	0	0	0	0	1	0	0	0	13384	565	20	5	4592	5	RIF1	2	152320512	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	40924935	152320512	90878861	51	65820											
SCN3A	6328	broad.mit.edu	37	chr2	165987898	165987898	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcaatgatcttgagaacCatttctgctgtgaaaatccc	12	12	8	9	0	2	3	0	3	2	1	3	4	3	3	2	1	2	2	2	1	4	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:165987898C>G	uc002ucx.2	-	16	2913	c.2421G>C	c.(2419-2421)ATG>ATC	p.M807I	SCN3A_uc002ucy.2_Missense_Mutation_p.M758I|SCN3A_uc002ucz.2_Missense_Mutation_p.M758I|SCN3A_uc002uda.1_Missense_Mutation_p.M627I|SCN3A_uc002udb.1_Missense_Mutation_p.M627I	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	807	Helical; Name=S2 of repeat II; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	TCTTGAGAACCATTTCTGCTG	0.373													6	52					0	0	0.001984	0	0		G	165987898	G	G	165987898	3	3	116	1	0	0	0	0	1	0	0	0	13943	594	21	5	3633	5	SCN3A	2	165987898	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	13667386	165987898	77211475	52	65821											
SCN2A	6326	broad.mit.edu	37	chr2	166201292	166201292	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatgcatgactttttccaCtccttcctgatcgtgttccg	6	15	6	14	2	0	2	0	2	0	0	5	2	4	2	4	0	1	2	4	0	0	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:166201292C>A	uc002udc.2	+	16	3080	c.2790C>A	c.(2788-2790)CAC>CAA	p.H930Q	SCN2A_uc002udd.2_Missense_Mutation_p.H930Q|SCN2A_uc002ude.2_Missense_Mutation_p.H930Q	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	930	II.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ACTTTTTCCACTCCTTCCTGA	0.502													18	149					2.94398e-08	3.39896e-08	0.007413	1	0		A	166201292	A	A	166201292	3	1	116	1	0	0	0	0	1	0	0	0	13941	564	20	5	2944	5	SCN2A	2	166201292	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	213394	166201292	76998081	53	65822											
PHOSPHO2	493911	broad.mit.edu	37	chr2	170558070	170558070	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagaatgatgatgttgccAtgccacggaaaggatatacc	15	9	10	7	1	0	3	0	2	0	1	0	5	0	5	3	2	3	1	3	2	6	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:170558070A>T	uc002ufg.2	+	4	977	c.589A>T	c.(589-591)ATG>TTG	p.M197L	KLHL23_uc002ufh.1_Intron	NM_001008489	NP_001008489	Q8TCD6	PHOP2_HUMAN	phosphatase, orphan 2	197							metal ion binding|pyridoxal phosphatase activity			skin(1)	1						TGATGTTGCCATGCCACGGAA	0.378													13	102					0	0	0.001855	0	0		T	170558070	T	T	170558070	3	4	116	1	0	0	0	0	1	0	0	0	11876	217	8	5	591	5	PHOSPHO2	2	170558070	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	4356778	170558070	72641303	54	65823											
DCAF17	80067	broad.mit.edu	37	chr2	172337582	172337582	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtttaccagatgatatgTgacactggggaagaagaaga	15	10	12	4	0	0	6	0	2	0	4	0	7	0	7	1	2	1	1	1	2	6	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:172337582T>G	uc002ugx.2	+	14	1750	c.1521T>G	c.(1519-1521)TGT>TGG	p.C507W	DCAF17_uc010zdq.1_RNA|DCAF17_uc010zdr.1_RNA|DCAF17_uc010fqg.2_Missense_Mutation_p.C227W	NM_025000	NP_079276	Q5H9S7	DCA17_HUMAN	DDB1 and CUL4 associated factor 17 isoform 1	507						CUL4 RING ubiquitin ligase complex|integral to membrane|nucleolus					0						AGATGATATGTGACACTGGGG	0.418													27	97					0	0	0.007291	0	0		G	172337582	G	G	172337582	3	3	116	1	0	0	0	0	1	0	0	0	4272	1702	59	5	1575	5	DCAF17	2	172337582	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	1779512	172337582	70861791	55	65824											
DLX1	1745	broad.mit.edu	37	chr2	172950413	172950413	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcgagaagagatgaccaTgaccaccatgccagaaagtc	14	4	10	13	2	0	5	0	2	0	3	1	7	0	5	5	0	1	0	5	0	2	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:172950413T>A	uc002uhl.2	+	1	206	c.8T>A	c.(7-9)ATG>AAG	p.M3K	DLX1_uc010fqj.1_Missense_Mutation_p.M3K|DLX1_uc002uhm.2_Missense_Mutation_p.M3K	NM_178120	NP_835221	P56177	DLX1_HUMAN	distal-less homeobox 1 isoform 1	3						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)			GAGATGACCATGACCACCATG	0.547													9	119					0	0	0.008291	0	0		A	172950413	A	A	172950413	3	1	116	1	0	0	0	0	1	0	0	0	4576	1464	51	5	10	5	DLX1	2	172950413	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	612831	172950413	70248960	56	65825											
TTC30A	92104	broad.mit.edu	37	chr2	178481441	178481441	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atcagtcataactacttattCcatcctataatctcataaat	15	15	1	10	0	3	0	3	0	1	0	6	0	5	0	2	0	2	0	2	0	7	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:178481441C>G	uc002ulo.2	-	1	2254	c.1989G>C	c.(1987-1989)TGG>TGC	p.W663C		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	663					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			ACTACTTATTCCATCCTATAA	0.348													7	115					0	0	0.00308	0	0		G	178481441	G	G	178481441	3	3	116	1	0	0	0	0	1	0	0	0	16724	856	30	5	12	5	TTC30A	2	178481441	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	5531028	178481441	64717932	57	65826											
SSFA2	6744	broad.mit.edu	37	chr2	182763743	182763743	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctgattttgttcgtagcaAtaatatcttggccaaagaga	13	14	8	6	1	2	2	0	1	2	1	3	3	2	2	1	1	1	3	1	1	5	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:182763743A>T	uc002uoi.2	+	6	729	c.407A>T	c.(406-408)AAT>ATT	p.N136I	SSFA2_uc002uoh.2_Missense_Mutation_p.N136I|SSFA2_uc002uoj.2_Missense_Mutation_p.N136I|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_5'UTR|SSFA2_uc002uol.2_5'UTR	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	136						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			GTTCGTAGCAATAATATCTTG	0.313													18	82					0	0	0.006122	0	0		T	182763743	T	T	182763743	3	4	116	1	0	0	0	0	1	0	0	0	15208	101	4	5	429	5	SSFA2	2	182763743	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	4282302	182763743	60435630	58	65827											
PMS1	5378	broad.mit.edu	37	chr2	190742011	190742011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacagggagaagcagtgcGtctatccagacaattaccca	13	7	11	10	1	1	2	0	0	1	2	2	4	2	3	2	2	3	1	2	2	4	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:190742011G>A	uc002urh.3	+	13	3177	c.2648G>A	c.(2647-2649)CGT>CAT	p.R883H	PMS1_uc002urk.3_Missense_Mutation_p.R844H|PMS1_uc002uri.3_Missense_Mutation_p.R721H|PMS1_uc010zgc.1_Missense_Mutation_p.R707H|PMS1_uc010zgd.1_Missense_Mutation_p.R707H|PMS1_uc002urj.2_RNA|PMS1_uc010frz.2_Missense_Mutation_p.R199H|PMS1_uc002url.2_Missense_Mutation_p.R506H|PMS1_uc002urm.2_RNA	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	883					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			GAAGCAGTGCGTCTATCCAGA	0.388			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					8	56					0	0	0.00308	0	0		A	190742011	A	A	190742011	3	1	116	1	0	0	0	0	1	0	0	0	12161	1145	40	1	2694	1	PMS1	2	190742011	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	7978268	190742011	52457362	59	65828											
MYO1B	4430	broad.mit.edu	37	chr2	192141703	192141703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcttttagaacctctcaatGaggagaccttcatcaacaac	13	12	5	11	0	4	3	3	1	2	2	5	4	4	3	2	1	3	0	2	1	5	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:192141703G>A	uc010fsg.2	+	2	337	c.82G>A	c.(82-84)GAG>AAG	p.E28K	MYO1B_uc002usq.2_Missense_Mutation_p.E28K|MYO1B_uc002usr.2_Missense_Mutation_p.E28K|MYO1B_uc002uss.1_Missense_Mutation_p.E28K	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	28	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			ACCTCTCAATGAGGAGACCTT	0.418													8	106					0	0	0.006214	0	0		A	192141703	A	A	192141703	3	1	116	1	0	0	0	0	1	0	0	0	10087	1291	45	4	84	4	MYO1B	2	192141703	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1399692	192141703	51057670	60	65829											
ABCA12	26154	broad.mit.edu	37	chr2	215866456	215866456	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttctctaatttcagtcttaGaatatctaaagaggcaaagc	14	13	7	7	0	4	2	1	0	3	2	5	2	4	2	0	1	1	2	0	1	7	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:215866456G>C	uc002vew.2	-	21	2909	c.2689C>G	c.(2689-2691)CTA>GTA	p.L897V	ABCA12_uc002vev.2_Missense_Mutation_p.L579V|ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	897					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TTCAGTCTTAGAATATCTAAA	0.313													12	48					0	0	0.013537	0	0		C	215866456	C	C	215866456	3	2	116	1	0	0	0	0	1	0	0	0	30	933	33	5	5230	5	ABCA12	2	215866456	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	23724753	215866456	27332917	61	65830											
PECR	55825	broad.mit.edu	37	chr2	216930156	216930156	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccattgttcaccaagaaattGatcttaccaaaagtatctaa	16	12	4	9	0	3	2	1	1	2	1	3	2	3	2	3	0	1	2	3	0	7	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:216930156G>A	uc002vft.2	-	3	371	c.303C>T	c.(301-303)ATC>ATT	p.I101I	PECR_uc010zjq.1_RNA|PECR_uc002vfr.2_5'UTR|PECR_uc002vfs.2_5'UTR|PECR_uc002vfu.1_Silent_p.I120I	NM_018441	NP_060911	Q9BY49	PECR_HUMAN	peroxisomal trans-2-enoyl-CoA reductase	101					fatty acid biosynthetic process|regulation of apoptosis	peroxisome	binding|trans-2-enoyl-CoA reductase (NADPH) activity				0		Renal(323;0.0327)		Epithelial(149;3.8e-06)|all cancers(144;0.000272)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Adenine(DB00173)	CCAAGAAATTGATCTTACCAA	0.403													7	76					0	0	0.001984	0	0		A	216930156	A	A	216930156	2	1	116	1	0	0	0	0	0	0	0	1	11736	1280	45	4		4	PECR	2	216930156	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1063700	216930156	26269217	62	65831											
TNS1	7145	broad.mit.edu	37	chr2	218713225	218713225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccataggctccatggggtagGacttgtccagaccgttggtc	7	10	13	11	1	0	1	0	0	0	1	3	2	2	2	4	5	0	3	4	5	2	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:218713225G>A	uc002vgt.2	-	17	2038	c.1640C>T	c.(1639-1641)TCC>TTC	p.S547F	TNS1_uc002vgr.2_Missense_Mutation_p.S547F|TNS1_uc002vgs.2_Missense_Mutation_p.S547F|TNS1_uc010zjv.1_Missense_Mutation_p.S547F|TNS1_uc010fvj.1_Missense_Mutation_p.S615F|TNS1_uc010fvk.1_Missense_Mutation_p.S672F|TNS1_uc010fvi.1_Missense_Mutation_p.S234F	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	547						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		CATGGGGTAGGACTTGTCCAG	0.667													10	56					0	0	0.008291	0	0		A	218713225	A	A	218713225	3	1	116	1	0	0	0	0	1	0	0	0	16368	1174	41	4	3635	4	TNS1	2	218713225	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1783069	218713225	24486148	63	65832											
SLC11A1	6556	broad.mit.edu	37	chr2	219254705	219254705	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcatcaacctctttgtcaTggctgtctttgggcaggcct	6	15	9	11	0	5	0	3	0	2	0	5	0	5	0	2	3	1	2	2	3	2	3	rs138751863		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:219254705T>C	uc002vhv.2	+	9	1248	c.908T>C	c.(907-909)ATG>ACG	p.M303T	SLC11A1_uc010fvp.1_Missense_Mutation_p.M303T|SLC11A1_uc010fvq.1_Missense_Mutation_p.M236T|SLC11A1_uc010zkc.1_Missense_Mutation_p.M236T|SLC11A1_uc002vhu.1_Missense_Mutation_p.M98T|SLC11A1_uc002vhw.2_Missense_Mutation_p.M185T|SLC11A1_uc010fvr.2_Missense_Mutation_p.M98T	NM_000578	NP_000569	P49279	NRAM1_HUMAN	natural resistance-associated macrophage protein	303	Helical; (Potential).				activation of protein kinase activity|antigen processing and presentation of peptide antigen|cadmium ion transmembrane transport|cellular cadmium ion homeostasis|cellular iron ion homeostasis|defense response to Gram-negative bacterium|defense response to protozoan|divalent metal ion export|inflammatory response|interleukin-2 production|interleukin-3 production|iron ion transport|L-arginine import|macrophage activation|MHC class II biosynthetic process|mRNA stabilization|multicellular organismal iron ion homeostasis|negative regulation of cytokine production|nitrite transport|phagocytosis|positive regulation of dendritic cell antigen processing and presentation|positive regulation of interferon-gamma production|positive regulation of phagocytosis|positive regulation of T-helper 1 type immune response|positive regulation of transcription from RNA polymerase II promoter|respiratory burst|response to interferon-gamma|response to lipopolysaccharide|T cell cytokine production|T cell proliferation involved in immune response|vacuolar acidification|wound healing	integral to plasma membrane|late endosome membrane|lysosome|phagocytic vesicle membrane|tertiary granule membrane	manganese ion transmembrane transporter activity|metal ion:hydrogen antiporter activity|protein homodimerization activity			ovary(3)|central_nervous_system(1)	4		Renal(207;0.0474)		Epithelial(149;1.16e-06)|all cancers(144;0.000195)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTCTTTGTCATGGCTGTCTTT	0.557													5	45					0	0	0.000602	0	0		C	219254705	C	C	219254705	3	2	116	1	0	0	0	0	1	0	0	0	14405	1464	51	3	942	3	SLC11A1	2	219254705	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	541480	219254705	23944668	64	65833											
CCDC108	255101	broad.mit.edu	37	chr2	219868898	219868898	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcttcttcctcctcttcCtcctccaactcttcttcttc	2	19	0	20	0	6	0	0	0	6	0	13	0	12	0	6	0	1	0	6	0	1	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:219868898C>G	uc002vjl.1	-	33	5415	c.5331G>C	c.(5329-5331)GAG>GAC	p.E1777D	uc010fvz.1_5'Flank|MIR375_hsa-mir-375|MI0000783_5'Flank	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	1777	Glu-rich.					integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		cctcctcttcctcctccaact	0.144													6	63					0	0	0.001168	0	0		G	219868898	G	G	219868898	3	3	116	1	0	0	0	0	1	0	0	0	2746	680	24	5	458	5	CCDC108	2	219868898	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	614193	219868898	23330475	65	65834											
CCDC108	255101	broad.mit.edu	37	chr2	219892492	219892492	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgcagctctctggagtcacCcagaaggggcagtcagacct	9	7	12	13	1	3	2	2	0	1	2	5	3	3	3	2	3	1	3	2	3	1	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:219892492C>T	uc002vjl.1	-	13	2175	c.2091G>A	c.(2089-2091)TGG>TGA	p.W697*	CCDC108_uc010fwa.1_Nonsense_Mutation_p.W140*|CCDC108_uc010zkp.1_Nonsense_Mutation_p.W686*|CCDC108_uc010zkq.1_Nonsense_Mutation_p.W632*	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	697						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTGGAGTCACCCAGAAGGGGC	0.632													5	71					0	0	0.000602	0	0		T	219892492	T	T	219892492	4	4	116	1	0	0	0	0	0	1	0	0	2746	624	22	4	3778	4	CCDC108	2	219892492	Nonsense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	23594	219892492	23306881	66	65835											
MYEOV2	150678	broad.mit.edu	37	chr2	241066106	241066106	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgatattgtgctgtcttcGctgacctctcgcctgcttct	4	16	8	13	2	3	2	0	2	3	0	5	2	3	2	2	0	2	3	2	0	1	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr2:241066106G>T	uc002vyu.1	-	5	633	c.633C>A	c.(631-633)AGC>AGA	p.S211R		NM_138336	NP_612209	Q8WXC6	MYOV2_HUMAN	hypothetical protein LOC150678 isoform 1	Error:Variant_position_missing_in_Q8WXC6_after_alignment											0		all_epithelial(40;1.56e-11)|Breast(86;0.0002)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.81e-30)|all cancers(36;1.1e-27)|OV - Ovarian serous cystadenocarcinoma(60;2.74e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;8.54e-06)|Lung(119;0.00361)|LUSC - Lung squamous cell carcinoma(224;0.0153)|Colorectal(34;0.0202)|COAD - Colon adenocarcinoma(134;0.143)		TGCTGTCTTCGCTGACCTCTC	0.473													11	100					0.000673444	0.000709771	0.008291	1	0		T	241066106	T	T	241066106	3	4	116	1	0	0	0	0	1	0	0	0	10044	1078	38	5	129	5	MYEOV2	2	241066106	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	21173614	241066106	2133267	67	65836											
ATP2B2	491	broad.mit.edu	37	chr3	10430045	10430045	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagagttcacacccacagCagtcaccaacatccgtcctg	11	7	7	16	1	2	1	2	1	0	1	4	2	4	1	4	0	2	2	4	0	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:10430045C>A	uc003bvt.2	-	6	1262	c.823G>T	c.(823-825)GCT>TCT	p.A275S	ATP2B2_uc003bvv.2_Missense_Mutation_p.A275S|ATP2B2_uc003bvw.2_Missense_Mutation_p.A275S|ATP2B2_uc010hdp.2_Missense_Mutation_p.A275S|ATP2B2_uc010hdo.2_Missense_Mutation_p.A11S	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	275	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						ACACCCACAGCAGTCACCAAC	0.527													11	190					1.58986e-06	1.79878e-06	0.008291	1	0		A	10430045	A	A	10430045	3	1	116	1	0	0	0	0	1	0	0	0	1141	710	25	5	2980	5	ATP2B2	3	10430045	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08		10430045	187592385	68	65837											
VGLL4	9686	broad.mit.edu	37	chr3	11600159	11600159	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctttgatctggagccaCgtgtcacccagagctttggc	6	10	12	13	2	2	2	1	1	1	1	2	3	2	3	3	2	2	2	3	2	0	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:11600159C>G	uc003bwf.2	-	6	1110	c.744G>C	c.(742-744)ACG>ACC	p.T248T	VGLL4_uc010hdx.1_Silent_p.T254T|VGLL4_uc003bwg.2_Silent_p.T253T|VGLL4_uc010hdv.1_Silent_p.T164T|VGLL4_uc010hdw.1_Silent_p.T168T|VGLL4_uc011aun.1_Silent_p.T189T	NM_014667	NP_055482	Q14135	VGLL4_HUMAN	vestigial like 4 isoform b	248					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1				LUSC - Lung squamous cell carcinoma(1;0.089)|Lung(1;0.111)		TCTGGAGCCACGTGTCACCCA	0.657													10	123					0	0	0.006214	0	0		G	11600159	G	G	11600159	2	3	116	1	0	0	0	0	0	0	0	1	17187	523	19	5		5	VGLL4	3	11600159	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1170114	11600159	186422271	69	65838											
KAT2B	8850	broad.mit.edu	37	chr3	20168959	20168959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taaagatggccgtgttattgGtggtatctgtttccgtatgt	7	17	12	5	2	1	1	0	0	1	1	2	1	2	1	2	3	0	4	2	3	5	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:20168959G>A	uc003cbq.2	+	11	2113	c.1667G>A	c.(1666-1668)GGT>GAT	p.G556D		NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	556	N-acetyltransferase.				cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CGTGTTATTGGTGGTATCTGT	0.368													9	91					0	0	0.004482	0	0		A	20168959	A	A	20168959	3	1	116	1	0	0	0	0	1	0	0	0	7998	1261	44	4	1709	4	KAT2B	3	20168959	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	8568800	20168959	177853471	70	65839											
STT3B	201595	broad.mit.edu	37	chr3	31663715	31663715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtttttgagcactatttggGggatgacatgaaaagggaaa	13	12	13	3	0	0	3	0	3	0	0	0	5	0	5	0	3	1	2	0	3	4	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:31663715G>A	uc011axe.1	+	10	1454	c.1454G>A	c.(1453-1455)GGG>GAG	p.G485E		NM_178862	NP_849193	Q8TCJ2	STT3B_HUMAN	source of immunodominant MHC-associated	485					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding				0						CACTATTTGGGGGATGACATG	0.428													13	71					0	0	0.001855	0	0		A	31663715	A	A	31663715	3	1	116	1	0	0	0	0	1	0	0	0	15359	1232	43	4	1492	4	STT3B	3	31663715	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	11494756	31663715	166358715	71	65840											
SCN11A	11280	broad.mit.edu	37	chr3	38950566	38950566	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctctgcagctacattcttGttctgctcctcatatgccat	7	16	5	13	0	4	0	1	0	3	0	6	0	5	0	2	0	5	4	2	0	2	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:38950566G>C	uc011ays.1	-	9	1420	c.1221C>G	c.(1219-1221)AAC>AAG	p.N407K		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	407					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CTACATTCTTGTTCTGCTCCT	0.468													15	143					0	0	0.004007	0	0		C	38950566	C	C	38950566	3	2	116	1	0	0	0	0	1	0	0	0	13938	1368	48	5	4226	5	SCN11A	3	38950566	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	7286851	38950566	159071864	72	65841											
SCN11A	11280	broad.mit.edu	37	chr3	38951693	38951694	+	Missense_Mutation	DNP	CA	GC	GC																															tacattcatattgtatggaaCaggcactagatattggaaac																										TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:38951693_38951694CA>GC	uc011ays.1	-	8	1163_1164	c.964_965TG>GC	c.(964-966)TGT>GCT	p.C322A		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	322	I.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	TTGTATGGAACAGGCACTAGAT	0.396													6	59					0	0	0.004672	0	0		GC	38951694	GC	GC	38951693	3	3	116	1	0	0	0	0	1	0	0	0	13938	478	17	5	4486	5	SCN11A	3	38951693	Missense_Mutation	DNP	CA	TCGA-CD-8529-01A-11D-2340-08	1127	38951693	159070737	73	65842											
COL7A1	1294	broad.mit.edu	37	chr3	48614351	48614351	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cgcctgaatctcctttctctCcctaaggaagacaaggatgc	10	10	8	13	1	2	2	0	1	2	1	5	4	3	4	3	2	1	0	3	2	4	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:48614351C>G	uc003ctz.2	-	66	5571	c.5570G>C	c.(5569-5571)GGA>GCA	p.G1857A		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1857	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TCCTTTCTCTCCCTAAGGAAG	0.562													9	112					0	0	0.006214	0	0		G	48614351	G	G	48614351	3	3	116	1	0	0	0	0	1	0	0	0	3707	869	30	5	3476	5	COL7A1	3	48614351	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	9662658	48614351	149408079	74	65843											
COL7A1	1294	broad.mit.edu	37	chr3	48614432	48614432	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggggactttaccttcctcCcgtcttctccagggtcccca	4	12	9	16	1	2	0	0	0	2	0	6	1	5	1	6	3	1	0	6	3	1	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:48614432C>G	uc003ctz.2	-	65	5562	c.5561G>C	c.(5560-5562)GGG>GCG	p.G1854A		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1854	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TACCTTCCTCCCGTCTTCTCC	0.552													12	118					0	0	0.013537	0	0		G	48614432	G	G	48614432	3	3	116	1	0	0	0	0	1	0	0	0	3707	623	22	5	3489	5	COL7A1	3	48614432	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	81	48614432	149407998	75	65844											
COL7A1	1294	broad.mit.edu	37	chr3	48625317	48625317	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtcgctggctccagcccGtccaggtgatagctgctgag	5	10	14	12	2	0	2	0	2	0	0	3	2	2	2	3	2	3	4	3	2	1	1	rs138537589	by1000genomes	TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:48625317G>A	uc003ctz.2	-	21	2767	c.2766C>T	c.(2764-2766)GAC>GAT	p.D922D		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	922	Fibronectin type-III 8.|Nonhelical region (NC1).				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCTCCAGCCCGTCCAGGTGAT	0.667													3	17					0	0	0.004672	0	0		A	48625317	A	A	48625317	2	1	116	1	0	0	0	0	0	0	0	1	3707	1136	40	1		1	COL7A1	3	48625317	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	10885	48625317	149397113	76	65845											
BSN	8927	broad.mit.edu	37	chr3	49700849	49700849	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcaaggtcggcaggcagCtccaggaccacagcagtcac	10	4	13	14	1	1	0	1	0	0	0	3	1	2	1	2	4	3	6	2	4	1	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:49700849C>A	uc003cxe.3	+	7	11372	c.11258C>A	c.(11257-11259)GCT>GAT	p.A3753D		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	3753					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CGGCAGGCAGCTCCAGGACCA	0.642													4	46					0.00024832	0.000265572	0.009096	1	0		A	49700849	A	A	49700849	3	1	116	1	0	0	0	0	1	0	0	0	1533	797	28	5	11284	5	BSN	3	49700849	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1075532	49700849	148321581	77	65846											
UBA7	7318	broad.mit.edu	37	chr3	49847796	49847796	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatccagtgggtaggtgagCgggatcacctgtaagtctgg	8	9	17	7	1	2	1	1	1	1	0	3	3	3	3	2	5	1	2	2	5	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:49847796C>G	uc003cxr.2	-	13	1704	c.1533G>C	c.(1531-1533)CCG>CCC	p.P511P		NM_003335	NP_003326	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7	511	1-2.|2 approximate repeats.				ISG15-protein conjugation|negative regulation of type I interferon production	cytosol	ATP binding|ISG15 activating enzyme activity|ligase activity			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GGTAGGTGAGCGGGATCACCT	0.597													9	109					0	0	0.004482	0	0		G	49847796	G	G	49847796	2	3	116	1	0	0	0	0	0	0	0	1	16859	755	27	5		5	UBA7	3	49847796	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	146947	49847796	148174634	78	65847											
LMOD3	56203	broad.mit.edu	37	chr3	69171378	69171378	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgtcagtttgatctttctGaatcattcccacgggaaggc	8	14	9	10	1	4	2	2	2	2	0	5	3	5	3	1	2	0	1	1	2	2	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:69171378G>A	uc003dns.2	-	1	369	c.160C>T	c.(160-162)CAG>TAG	p.Q54*	LMOD3_uc003dnt.2_Nonsense_Mutation_p.Q54*	NM_198271	NP_938012	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	54						cytoplasm|cytoskeleton	tropomyosin binding			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		TGATCTTTCTGAATCATTCCC	0.458													3	26					0	0	0.009096	0	0		A	69171378	A	A	69171378	4	1	116	1	0	0	0	0	0	1	0	0	8875	1299	45	4	1534	4	LMOD3	3	69171378	Nonsense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	19323582	69171378	128851052	79	65848											
OR5K4	403278	broad.mit.edu	37	chr3	98073414	98073414	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagaggtaaagcattttcTacctgtgcatcccactttct	10	13	8	10	0	2	1	0	0	2	1	3	2	3	2	2	2	3	3	2	2	4	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:98073414T>A	uc011bgv.1	+	1	717	c.717T>A	c.(715-717)TCT>TCA	p.S239S		NM_001005517	NP_001005517	A6NMS3	OR5K4_HUMAN	olfactory receptor, family 5, subfamily K,	239	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						AAGCATTTTCTACCTGTGCAT	0.373													10	117					0	0	0.010729	0	0		A	98073414	A	A	98073414	2	1	116	1	0	0	0	0	0	0	0	1	11188	1509	53	5		5	OR5K4	3	98073414	Silent	SNP	T	TCGA-CD-8529-01A-11D-2340-08	28902036	98073414	99949016	80	65849											
MYH15	22989	broad.mit.edu	37	chr3	108135665	108135665	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagatacattactttggtCtccttttccagctgccctct	8	16	5	12	0	2	1	0	0	2	1	4	1	3	1	3	1	4	1	3	1	4	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:108135665C>A	uc003dxa.1	-	30	4059	c.4002G>T	c.(4000-4002)GAG>GAT	p.E1334D		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1334	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TTACTTTGGTCTCCTTTTCCA	0.393													12	93					2.80697e-09	3.27051e-09	0.010729	1	0		A	108135665	A	A	108135665	3	1	116	1	0	0	0	0	1	0	0	0	10052	912	32	5	1890	5	MYH15	3	108135665	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	10062251	108135665	89886765	81	65850											
DPPA4	55211	broad.mit.edu	37	chr3	109050752	109050752	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcttcaattgttggcacCaggcccgcagaatgtcccgg	8	9	11	13	2	2	1	2	0	0	1	3	1	3	1	3	3	1	4	3	3	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:109050752C>A	uc003dxq.3	-	3	360	c.305G>T	c.(304-306)TGG>TTG	p.W102L	DPPA4_uc011bho.1_Missense_Mutation_p.W102L|DPPA4_uc011bhp.1_Missense_Mutation_p.W102L	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	102						nucleus	protein binding			upper_aerodigestive_tract(1)	1						TTGTTGGCACCAGGCCCGCAG	0.532													13	134					4.36969e-10	5.12657e-10	0.001855	1	0		A	109050752	A	A	109050752	3	1	116	1	0	0	0	0	1	0	0	0	4742	595	21	5	629	5	DPPA4	3	109050752	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	915087	109050752	88971678	82	65851											
DPPA4	55211	broad.mit.edu	37	chr3	109050776	109050776	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgcagaatgtcccggtgaAtcagattaacaggtggcagt	11	8	12	10	2	1	3	1	1	0	2	2	3	2	3	2	3	1	2	2	3	3	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:109050776A>C	uc003dxq.3	-	3	336	c.281T>G	c.(280-282)ATT>AGT	p.I94S	DPPA4_uc011bho.1_Missense_Mutation_p.I94S|DPPA4_uc011bhp.1_Missense_Mutation_p.I94S	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	94						nucleus	protein binding			upper_aerodigestive_tract(1)	1						GTCCCGGTGAATCAGATTAAC	0.547													18	139					0	0	0.006122	0	0		C	109050776	C	C	109050776	3	2	116	1	0	0	0	0	1	0	0	0	4742	101	4	5	653	5	DPPA4	3	109050776	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	24	109050776	88971654	83	65852											
NDUFB4	4710	broad.mit.edu	37	chr3	120315275	120315275	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accctcgacccagccgaataCaacatatctccggaaacccg	13	5	6	17	4	1	0	0	0	1	0	3	3	1	1	5	1	4	0	5	1	5	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:120315275C>T	uc003edu.2	+	1	148	c.69C>T	c.(67-69)TAC>TAT	p.Y23Y	NDUFB4_uc003edt.2_Silent_p.Y23Y	NM_004547	NP_004538	O95168	NDUB4_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	23					mitochondrial electron transport, NADH to ubiquinone|response to oxidative stress|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0				GBM - Glioblastoma multiforme(114;0.14)	NADH(DB00157)	CAGCCGAATACAACATATCTC	0.597													5	30					0	0	0.000602	0	0		T	120315275	T	T	120315275	2	4	116	1	0	0	0	0	0	0	0	1	10302	489	17	4		4	NDUFB4	3	120315275	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	11264499	120315275	77707155	84	65853											
COL6A6	131873	broad.mit.edu	37	chr3	130300458	130300458	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaactcaggagaaagggCagactttgcttgaaggtcag	12	9	12	8	0	3	3	3	1	1	2	4	4	3	3	0	3	2	2	0	3	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:130300458C>A	uc010htl.2	+	8	3632	c.3601C>A	c.(3601-3603)CAG>AAG	p.Q1201K	COL6A6_uc003eni.3_5'Flank	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1201	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GGAGAAAGGGCAGACTTTGCT	0.458													7	73					5.18039e-06	5.82221e-06	0.00308	1	0		A	130300458	A	A	130300458	3	1	116	1	0	0	0	0	1	0	0	0	3706	711	25	5	3631	5	COL6A6	3	130300458	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	9985183	130300458	67721972	85	65854											
RAB6B	51560	broad.mit.edu	37	chr3	133558433	133558433	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgacgtcgtcgatccaCttagaggtctgttggaagga	8	11	13	9	3	1	2	0	1	1	1	5	5	3	4	2	3	0	1	2	3	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:133558433C>T	uc003epy.2	-	5	699	c.318G>A	c.(316-318)AAG>AAA	p.K106K	RAB6B_uc011blu.1_Silent_p.K93K	NM_016577	NP_057661	Q9NRW1	RAB6B_HUMAN	RAB6B, member RAS oncogene family	106					protein transport|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|Golgi membrane	GTP binding|GTPase activity|protein binding			pancreas(1)	1						CGTCGATCCACTTAGAGGTCT	0.547													16	103					0	0	0.007413	0	0		T	133558433	T	T	133558433	2	4	116	1	0	0	0	0	0	0	0	1	12977	564	20	4		4	RAB6B	3	133558433	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	3257975	133558433	64463997	86	65855											
XRN1	54464	broad.mit.edu	37	chr3	142141456	142141456	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaggatggtaacatatgttCcataaagaagaggcagtgca	15	8	12	6	0	0	2	0	0	0	2	1	3	1	3	1	3	2	5	1	3	5	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:142141456C>A	uc003eus.2	-	8	1002	c.935G>T	c.(934-936)GGA>GTA	p.G312V	XRN1_uc003eut.2_Missense_Mutation_p.G312V|XRN1_uc003euu.2_Missense_Mutation_p.G312V|XRN1_uc003euv.1_Missense_Mutation_p.G173V|XRN1_uc003euw.2_Missense_Mutation_p.G312V|XRN1_uc011bnh.1_Missense_Mutation_p.G102V	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	312					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						AACATATGTTCCATAAAGAAG	0.358													10	83					6.40141e-05	7.03878e-05	0.010729	1	0		A	142141456	A	A	142141456	3	1	116	1	0	0	0	0	1	0	0	0	17485	855	30	5	4325	5	XRN1	3	142141456	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	8583023	142141456	55880974	87	65856											
CP	1356	broad.mit.edu	37	chr3	148899805	148899805	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtacctggtaatgttggAgtaactgtagaactctctgt	10	14	11	6	0	1	2	0	1	1	1	2	3	1	3	1	2	3	5	1	2	5	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:148899805A>T	uc003ewy.3	-	14	2794	c.2541T>A	c.(2539-2541)ACT>ACA	p.T847T	CP_uc011bnr.1_RNA|CP_uc003eww.3_5'Flank|CP_uc003ewx.3_Silent_p.T628T|CP_uc003ewz.2_Silent_p.T847T	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	847	Plastocyanin-like 5.|F5/8 type A 3.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	GTAATGTTGGAGTAACTGTAG	0.468													8	74					0	0	0.00308	0	0		T	148899805	T	T	148899805	2	4	116	1	0	0	0	0	0	0	0	1	3790	291	11	5		5	CP	3	148899805	Silent	SNP	A	TCGA-CD-8529-01A-11D-2340-08	6758349	148899805	49122625	88	65857											
TSC22D2	9819	broad.mit.edu	37	chr3	150127780	150127780	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttgaccagactgcggagcggGacagcggcctgggcgccacc	7	4	16	14	4	0	2	0	1	0	1	0	4	0	4	4	4	3	0	4	4	0	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:150127780G>C	uc003exv.2	+	1	993	c.643G>C	c.(643-645)GAC>CAC	p.D215H	TSC22D2_uc003exw.2_RNA|TSC22D2_uc003exx.2_Missense_Mutation_p.D215H	NM_014779	NP_055594	O75157	T22D2_HUMAN	TSC22 domain family, member 2	215							sequence-specific DNA binding transcription factor activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			TGCGGAGCGGGACAGCGGCCT	0.607													7	86					0	0	0.00308	0	0		C	150127780	C	C	150127780	3	2	116	1	0	0	0	0	1	0	0	0	16634	1174	41	5	645	5	TSC22D2	3	150127780	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1227975	150127780	47894650	89	65858											
CCNL1	57018	broad.mit.edu	37	chr3	156867644	156867644	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggcttggaggctggagaAaatccacccagggttgaaag	12	7	14	8	0	0	2	0	1	0	1	1	4	1	3	2	5	0	3	2	5	3	2	rs148365707	byFrequency	TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:156867644A>C	uc003fbf.2	-	8	1601	c.1002T>G	c.(1000-1002)TTT>TTG	p.F334L	CCNL1_uc003fbd.1_Missense_Mutation_p.F334L|CCNL1_uc003fbe.2_Missense_Mutation_p.F128L|CCNL1_uc003fbg.2_RNA|CCNL1_uc011bor.1_RNA|CCNL1_uc003fbi.1_Missense_Mutation_p.F179L	NM_020307	NP_064703	Q9UK58	CCNL1_HUMAN	cyclin L1	334					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			lung(3)|breast(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(72;0.0295)|Lung(72;0.0308)			AGGCTGGAGAAAATCCACCCA	0.393													9	65					0	0	0.006214	0	0		C	156867644	C	C	156867644	3	2	116	1	0	0	0	0	1	0	0	0	2934	11	1	5	594	5	CCNL1	3	156867644	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	6739864	156867644	41154786	90	65859											
TRA2B	6434	broad.mit.edu	37	chr3	185643391	185643391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaccgggtataatgccttCgggagcttcttctggatcta	7	13	12	9	2	3	1	0	1	3	0	4	3	3	3	2	3	2	2	2	3	3	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:185643391C>T	uc003fpv.2	-	3	470	c.194G>A	c.(193-195)CGA>CAA	p.R65Q	TRA2B_uc003fpt.2_5'Flank|TRA2B_uc003fpu.2_RNA|TRA2B_uc010hym.2_5'UTR|TRA2B_uc003fpw.2_Missense_Mutation_p.R65Q	NM_004593	NP_004584	P62995	TRA2B_HUMAN	splicing factor, arginine/serine-rich 10	65	Arg/Ser-rich (RS1 domain).				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)	2						ATAATGCCTTCGGGAGCTTCT	0.463													5	79					0	0	0.000602	0	0		T	185643391	T	T	185643391	3	4	116	1	0	0	0	0	1	0	0	0	16460	884	31	1	700	1	TRA2B	3	185643391	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	28775747	185643391	12379039	91	65860											
AHSG	197	broad.mit.edu	37	chr3	186334974	186334974	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtttcctctctccgagcAgactcagccgaggacgtgcg	6	9	12	14	4	2	1	1	0	1	1	5	4	4	2	3	2	3	2	3	2	0	1	rs145054587		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:186334974A>G	uc003fqk.3	+	4	491	c.410_splice	c.e4-2	p.D137_splice	AHSG_uc003fqj.2_Splice_Site_p.D137_splice|AHSG_uc003fql.3_Silent_p.A137A|AHSG_uc003fqm.3_Splice_Site_p.D136_splice|AHSG_uc010hyp.2_Splice_Site_p.D100_splice	NM_001622	NP_001613	P02765	FETUA_HUMAN	alpha-2-HS-glycoprotein						acute-phase response|negative regulation of bone mineralization|negative regulation of insulin receptor signaling pathway|pinocytosis|positive regulation of phagocytosis|regulation of inflammatory response|skeletal system development	extracellular space	cysteine-type endopeptidase inhibitor activity|protein binding				0	all_cancers(143;3.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.27e-20)	GBM - Glioblastoma multiforme(93;0.0463)		CTCTCCGAGCAGACTCAGCCG	0.642											OREG0015968	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	78					0	0	0.001168	0	0		G	186334974	G	G	186334974	5	3	116	1	0	0	0	0	0	0	1	0	420	202	7	3	422	3	AHSG	3	186334974	Splice_Site	SNP	A	TCGA-CD-8529-01A-11D-2340-08	691583	186334974	11687456	92	65861											
PPP1R2	5504	broad.mit.edu	37	chr3	195269755	195269755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcgtcgacattcccgcgggGctgttcggccgacgccacca	5	7	12	17	7	0	0	0	0	0	0	4	2	1	0	4	3	0	2	4	3	0	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr3:195269755G>A	uc003fup.2	-	1	470	c.94C>T	c.(94-96)CCC>TCC	p.P32S	PPP1R2_uc003fuq.3_Missense_Mutation_p.P32S	NM_006241	NP_006232	P41236	IPP2_HUMAN	protein phosphatase 1, regulatory subunit 2	32					glycogen metabolic process|regulation of phosphoprotein phosphatase activity|regulation of signal transduction		protein binding|protein serine/threonine phosphatase inhibitor activity			urinary_tract(1)	1	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)		Epithelial(36;2.64e-22)|all cancers(36;2.69e-20)|OV - Ovarian serous cystadenocarcinoma(49;3.52e-19)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;9.55e-05)		TTCCCGCGGGGCTGTTCGGCC	0.682													4	9					0	0	0.009096	0	0		A	195269755	A	A	195269755	3	1	116	1	0	0	0	0	1	0	0	0	12392	1203	42	2	547	2	PPP1R2	3	195269755	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	8934781	195269755	2752675	93	65862											
PIGG	54872	broad.mit.edu	37	chr4	533012	533012	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccagttttcacgtacatcGttttggtgacatctctgcgt	6	17	8	10	3	2	1	1	1	1	0	5	1	3	1	1	1	2	3	1	1	1	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:533012G>T	uc003gak.3	+	13	2942	c.2806G>T	c.(2806-2808)GTT>TTT	p.V936F	PIGG_uc003gaj.3_Missense_Mutation_p.V928F|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Missense_Mutation_p.V803F|PIGG_uc003gal.3_Missense_Mutation_p.V847F	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	936	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity	p.V928I(1)		central_nervous_system(2)|ovary(1)|skin(1)	4						CACGTACATCGTTTTGGTGAC	0.398													7	90					1.06961e-07	1.22104e-07	0.00308	1	0		T	533012	T	T	533012	3	4	116	1	0	0	0	0	1	0	0	0	11907	1145	40	5	2856	5	PIGG	4	533012	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08		533012	190621264	94	65863											
HTT	3064	broad.mit.edu	37	chr4	3190712	3190712	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggttggtattcttttagaaGacattgttacaaaacagctg	12	15	9	5	0	1	2	0	0	1	2	1	2	1	2	0	2	3	4	0	2	6	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:3190712G>C	uc011bvq.1	+	41	5411	c.5266G>C	c.(5266-5268)GAC>CAC	p.D1756H		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1754					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		TCTTTTAGAAGACATTGTTAC	0.378													12	94					0	0	0.010729	0	0		C	3190712	C	C	3190712	3	2	116	1	0	0	0	0	1	0	0	0	7473	942	33	5	5418	5	HTT	4	3190712	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	2657700	3190712	187963564	95	65864											
HGFAC	3083	broad.mit.edu	37	chr4	3446393	3446393	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacgggggcacctgccacctGatcgtggccaccgggaccac	8	4	13	16	3	0	1	0	1	0	0	1	2	0	2	6	4	2	1	6	4	1	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:3446393G>A	uc003ghc.2	+	7	777	c.774G>A	c.(772-774)CTG>CTA	p.L258L	HGFAC_uc010icw.2_Silent_p.L258L	NM_001528	NP_001519	Q04756	HGFA_HUMAN	HGF activator preproprotein	258	EGF-like 2.				proteolysis	extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(2)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		CCTGCCACCTGATCGTGGCCA	0.721													4	18					0	0	0.001984	0	0		A	3446393	A	A	3446393	2	1	116	1	0	0	0	0	0	0	0	1	7102	1277	45	4		4	HGFAC	4	3446393	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	255681	3446393	187707883	96	65865											
CRMP1	1400	broad.mit.edu	37	chr4	5830377	5830377	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggcactccataccctcgaAgatgttgtactccaccgcct	8	10	8	15	2	0	1	0	0	0	1	3	2	2	1	5	1	2	3	5	1	3	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:5830377A>G	uc003gip.2	-	13	1401	c.1300T>C	c.(1300-1302)TTC>CTC	p.F434L	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Missense_Mutation_p.F346L|CRMP1_uc003giq.2_Missense_Mutation_p.F434L|CRMP1_uc003gir.2_Missense_Mutation_p.F429L|CRMP1_uc003gis.2_Missense_Mutation_p.F548L	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	434					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		ATACCCTCGAAGATGTTGTAC	0.512													4	33					0	0	0.009096	0	0		G	5830377	G	G	5830377	3	3	116	1	0	0	0	0	1	0	0	0	3893	72	3	3	430	3	CRMP1	4	5830377	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	2383984	5830377	185323899	97	65866											
KIAA0232	9778	broad.mit.edu	37	chr4	6862720	6862720	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtctaaagtctgttcttactCtagctcttcttcatcatcca	8	17	4	12	0	8	0	2	0	6	0	9	0	9	0	1	0	2	2	1	0	4	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:6862720C>G	uc003gjr.3	+	7	1074	c.611C>G	c.(610-612)TCT>TGT	p.S204C	KIAA0232_uc003gjq.3_Missense_Mutation_p.S204C	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	204	Poly-Ser.						ATP binding			ovary(2)	2						TGTTCTTACTCTAGCTCTTCT	0.438													7	125					0	0	0.00308	0	0		G	6862720	G	G	6862720	3	3	116	1	0	0	0	0	1	0	0	0	8179	913	32	5	629	5	KIAA0232	4	6862720	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1032343	6862720	184291556	98	65867											
GABRA2	2555	broad.mit.edu	37	chr4	46307710	46307711	+	Missense_Mutation	DNP	TC	AA	AA																															aagtccaaatataagtgaccTctgaagttgtatatgcatct																										TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:46307710_46307711TC>AA	uc003gxc.3	-	6	1250_1251	c.577_578GA>TT	c.(577-579)GAG>TTG	p.E193L	GABRA2_uc010igc.2_Missense_Mutation_p.E193L|GABRA2_uc011bzc.1_Missense_Mutation_p.E138L|GABRA2_uc003gxe.2_Missense_Mutation_p.E193L	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	193	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ATAAGTGACCTCTGAAGTTGTA	0.366													8	61					0	0	0.004672	0	0		AA	46307711	AA	AA	46307710	3	1	116	1	0	0	0	0	1	0	0	0	6175	1551	54	5	793	5	GABRA2	4	46307710	Missense_Mutation	DNP	TC	TCGA-CD-8529-01A-11D-2340-08	39444990	46307710	144846566	99	65868											
KDR	3791	broad.mit.edu	37	chr4	55980320	55980320	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggtattcccagttgaaGtcaatccccacatttagttc	11	12	8	10	0	1	1	1	1	0	0	4	2	3	1	3	1	0	3	3	1	5	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:55980320G>A	uc003has.2	-	6	1073	c.771C>T	c.(769-771)GAC>GAT	p.D257D	KDR_uc003hat.1_Silent_p.D257D|KDR_uc011bzx.1_Silent_p.D257D	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	257	Ig-like C2-type 3.|Extracellular (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	CCCAGTTGAAGTCAATCCCCA	0.403			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			10	163					0	0	0.006214	0	0		A	55980320	A	A	55980320	2	1	116	1	0	0	0	0	0	0	0	1	8155	1020	36	4		4	KDR	4	55980320	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	9672610	55980320	135173956	100	65869											
IGJ	3512	broad.mit.edu	37	chr4	71522076	71522076	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagcaggcatctggggttaaGgctgtttccaccattttggt	7	14	12	8	0	1	0	0	0	1	0	2	0	2	0	2	5	1	5	2	5	2	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:71522076G>C	uc003hfn.3	-	4	591	c.450C>G	c.(448-450)GCC>GCG	p.A150A	IGJ_uc010ihz.2_Silent_p.A166A	NM_144646	NP_653247	P01591	IGJ_HUMAN	immunoglobulin J chain	150					immune response	extracellular region	antigen binding				0			Lung(101;0.235)			CTGGGGTTAAGGCTGTTTCCA	0.443													6	59					0	0	0.001984	0	0		C	71522076	C	C	71522076	2	2	116	1	0	0	0	0	0	0	0	1	7608	987	35	5		5	IGJ	4	71522076	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	15541756	71522076	119632200	101	65870											
MRPL1	65008	broad.mit.edu	37	chr4	78871018	78871018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taatgaagtttgtaggcacaGaccgctgaatttgggtaagt	12	12	12	5	1	0	3	0	2	0	1	0	3	0	3	1	2	0	5	1	2	5	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:78871018G>A	uc003hku.2	+	8	1043	c.845G>A	c.(844-846)AGA>AAA	p.R282K	MRPL1_uc010iji.1_Intron	NM_020236	NP_064621	Q9BYD6	RM01_HUMAN	mitochondrial ribosomal protein L1 precursor	282							RNA binding				0						TGTAGGCACAGACCGCTGAAT	0.348													8	82					0	0	0.00308	0	0		A	78871018	A	A	78871018	3	1	116	1	0	0	0	0	1	0	0	0	9792	942	33	4	875	4	MRPL1	4	78871018	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	7348942	78871018	112283258	102	65871											
HELQ	113510	broad.mit.edu	37	chr4	84342825	84342825	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacagtccaaatgttggtcTctttgagcaaggtataaaga	14	12	9	6	0	1	2	0	1	1	1	3	2	2	2	1	2	2	3	1	2	6	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:84342825T>A	uc003hom.2	-	15	3019	c.2840A>T	c.(2839-2841)GAG>GTG	p.E947V	HELQ_uc010ikb.2_Missense_Mutation_p.E880V|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	947							ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						AATGTTGGTCTCTTTGAGCAA	0.353								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					4	50					0	0	0.000602	0	0		A	84342825	A	A	84342825	3	1	116	1	0	0	0	0	1	0	0	0	7063	1551	54	5	481	5	HELQ	4	84342825	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	5471807	84342825	106811451	103	65872											
GPRIN3	285513	broad.mit.edu	37	chr4	90170714	90170714	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaactcacaggacacctgaTctttgctgctactgaggacg	11	9	10	11	1	2	2	1	2	1	0	2	5	2	4	1	2	4	2	1	2	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:90170714T>G	uc003hsm.1	-	2	1067	c.548A>C	c.(547-549)GAT>GCT	p.D183A		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	183										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		GGACACCTGATCTTTGCTGCT	0.507													7	110					0	0	0.00308	0	0		G	90170714	G	G	90170714	3	3	116	1	0	0	0	0	1	0	0	0	6747	1435	50	5	1786	5	GPRIN3	4	90170714	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	5827889	90170714	100983562	104	65873											
DKK2	27123	broad.mit.edu	37	chr4	107956604	107956604	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgcagatcgattggcggcctGaccaggcgtctccccgccca	6	6	12	17	5	1	2	0	1	1	1	3	3	1	2	5	3	0	1	5	3	0	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:107956604G>A	uc003hyi.2	-	1	850	c.145C>T	c.(145-147)CAG>TAG	p.Q49*	DKK2_uc010ilw.1_Intron|DKK2_uc003hyj.1_Nonsense_Mutation_p.Q49*	NM_014421	NP_055236	Q9UBU2	DKK2_HUMAN	dickkopf homolog 2 precursor	49					multicellular organismal development|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular space				ovary(3)|lung(1)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.34e-06)		TTGGCGGCCTGACCAGGCGTC	0.597													8	76					0	0	0.008291	0	0		A	107956604	A	A	107956604	4	1	116	1	0	0	0	0	0	1	0	0	4551	1299	45	4	650	4	DKK2	4	107956604	Nonsense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	17785890	107956604	83197672	105	65874											
CFI	3426	broad.mit.edu	37	chr4	110663684	110663684	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttcatagaaacgatttccGtaaaacttagagcagttgct	13	14	7	7	2	1	2	1	0	0	2	2	3	2	2	1	0	4	4	1	0	5	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:110663684G>T	uc003hzr.3	-	12	1705	c.1497C>A	c.(1495-1497)TAC>TAA	p.Y499*	CFI_uc003hzq.2_Nonsense_Mutation_p.Y296*|CFI_uc011cft.1_Nonsense_Mutation_p.Y507*|CFI_uc003hzs.3_Nonsense_Mutation_p.Y492*	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	499	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		AACGATTTCCGTAAAACTTAG	0.358													7	73					2.0095e-06	2.26347e-06	0.001984	1	0		T	110663684	T	T	110663684	4	4	116	1	0	0	0	0	0	1	0	0	3292	1140	40	5	262	5	CFI	4	110663684	Nonsense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	2707080	110663684	80490592	106	65875											
CFI	3426	broad.mit.edu	37	chr4	110663715	110663715	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcagttgcttattagtttaActtcaccccactgaagtgaa	12	13	7	9	0	1	2	1	2	0	0	1	2	1	2	2	0	3	4	2	0	5	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:110663715A>G	uc003hzr.3	-	12	1674	c.1466T>C	c.(1465-1467)GTT>GCT	p.V489A	CFI_uc003hzq.2_Missense_Mutation_p.V286A|CFI_uc011cft.1_Missense_Mutation_p.V497A|CFI_uc003hzs.3_Missense_Mutation_p.V482A	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	489	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		TATTAGTTTAACTTCACCCCA	0.343													9	79					0	0	0.004482	0	0		G	110663715	G	G	110663715	3	3	116	1	0	0	0	0	1	0	0	0	3292	43	2	3	293	3	CFI	4	110663715	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	31	110663715	80490561	107	65876											
ENPEP	2028	broad.mit.edu	37	chr4	111397885	111397885	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtccactacgacctgcaCgtgaagcccctgttggagga	9	7	11	14	2	0	1	0	1	0	0	1	4	1	3	5	2	3	2	5	2	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:111397885C>T	uc003iab.3	+	1	657	c.315C>T	c.(313-315)CAC>CAT	p.H105H		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	105	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	ACGACCTGCACGTGAAGCCCC	0.617													22	94					0	0	0.010504	0	0		T	111397885	T	T	111397885	2	4	116	1	0	0	0	0	0	0	0	1	5136	535	19	1		1	ENPEP	4	111397885	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	734170	111397885	79756391	108	65877											
TLL1	7092	broad.mit.edu	37	chr4	166935594	166935594	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctttttttcagggggatGtttctggataccattctccc	5	17	9	10	0	3	0	1	0	2	0	4	2	3	2	2	3	2	2	2	3	1	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr4:166935594G>C	uc003irh.1	+	8	1571	c.924G>C	c.(922-924)ATG>ATC	p.M308I	TLL1_uc011cjn.1_Missense_Mutation_p.M308I|TLL1_uc011cjo.1_Missense_Mutation_p.M132I	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	308	Metalloprotease (By similarity).				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		TCAGGGGGATGTTTCTGGATA	0.418													20	243					0	0	0.008871	0	0		C	166935594	C	C	166935594	3	2	116	1	0	0	0	0	1	0	0	0	15970	1377	48	5	954	5	TLL1	4	166935594	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	55537709	166935594	24218682	109	65878											
CDH10	1008	broad.mit.edu	37	chr5	24537494	24537494	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaaatgaacttacctacaAcagacatttcgggaacacta	16	10	6	9	1	0	2	0	1	0	1	1	3	0	3	1	1	5	1	1	1	8	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:24537494A>T	uc003jgr.1	-	3	853	c.521T>A	c.(520-522)GTT>GAT	p.V174D	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	174	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CTTACCTACAACAGACATTTC	0.323										HNSCC(23;0.051)			17	178					0	0	0.007413	0	0		T	24537494	T	T	24537494	3	4	116	1	0	0	0	0	1	0	0	0	3099	43	2	5	1885	5	CDH10	5	24537494	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08		24537494	156377766	110	65879											
UGT3A1	133688	broad.mit.edu	37	chr5	35955903	35955903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccatgggcacaccatgaCggatggcctccattacgctg	9	7	10	15	2	0	1	0	1	0	0	1	2	1	2	5	3	1	2	5	3	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:35955903C>T	uc003jjv.1	-	6	1296	c.1139G>A	c.(1138-1140)CGT>CAT	p.R380H	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.R380H|UGT3A1_uc011cor.1_Missense_Mutation_p.R346H	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	380	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CACACCATGACGGATGGCCTC	0.493													7	95					0	0	0.001984	0	0		T	35955903	T	T	35955903	3	4	116	1	0	0	0	0	1	0	0	0	16989	536	19	1	440	1	UGT3A1	5	35955903	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	11418409	35955903	144959357	111	65880											
EGFLAM	133584	broad.mit.edu	37	chr5	38407142	38407142	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctctttgacatgccttgTgatgaaactctctgctctgc	7	14	9	11	0	3	3	0	3	3	0	4	3	3	3	1	1	4	2	1	1	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:38407142T>G	uc003jlc.1	+	8	1365	c.1041T>G	c.(1039-1041)TGT>TGG	p.C347W	EGFLAM_uc003jlb.1_Missense_Mutation_p.C347W|EGFLAM_uc003jle.1_Missense_Mutation_p.C113W|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	347	EGF-like 1.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					ACATGCCTTGTGATGAAACTC	0.557													10	67					0	0	0.008291	0	0		G	38407142	G	G	38407142	3	3	116	1	0	0	0	0	1	0	0	0	4972	1702	59	5	1085	5	EGFLAM	5	38407142	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	2451239	38407142	142508118	112	65881											
C6	729	broad.mit.edu	37	chr5	41161823	41161823	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatcacagcaggattttccTtcactgattctaaccactca	12	12	4	13	0	4	1	3	1	1	0	5	2	5	2	2	1	2	1	2	1	2	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:41161823T>C	uc003jmk.2	-	10	1640	c.1430A>G	c.(1429-1431)AAG>AGG	p.K477R	C6_uc003jml.1_Missense_Mutation_p.K477R	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	477	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				AGGATTTTCCTTCACTGATTC	0.428													8	128					0	0	0.004482	0	0		C	41161823	C	C	41161823	3	2	116	1	0	0	0	0	1	0	0	0	2318	1609	56	3	1410	3	C6	5	41161823	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	2754681	41161823	139753437	113	65882											
ANKRD55	79722	broad.mit.edu	37	chr5	55471985	55471985	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacaagtcagtaccaggtaGgtggccaggcataaacttgt	12	8	12	9	0	1	0	1	0	0	0	1	0	1	0	2	4	2	4	2	4	5	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:55471985G>A	uc003jqu.2	-	4	458	c.306C>T	c.(304-306)ACC>ACT	p.T102T		NM_024669	NP_078945	Q3KP44	ANR55_HUMAN	ankyrin repeat domain 55 isoform 1	101	ANK 3.									skin(1)	1		Lung NSC(810;8.69e-05)|Prostate(74;0.00634)|Breast(144;0.0334)|Ovarian(174;0.223)				GTACCAGGTAGGTGGCCAGGC	0.517													10	108					0	0	0.006214	0	0		A	55471985	A	A	55471985	2	1	116	1	0	0	0	0	0	0	0	1	681	987	35	4		4	ANKRD55	5	55471985	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	14310162	55471985	125443275	114	65883											
DIMT1L	27292	broad.mit.edu	37	chr5	61690434	61690434	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaaacataagtatagcacaCctgaaaagaaagcagaaagg	21	5	9	6	0	0	4	0	2	0	2	0	4	0	4	1	1	3	3	1	1	8	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:61690434C>T	uc003jta.2	-	7	576	c.447G>A	c.(445-447)AGG>AGA	p.R149R	DIMT1L_uc011cqq.1_Silent_p.R149R	NM_014473	NP_055288	Q9UNQ2	DIMT1_HUMAN	dimethyladenosine transferase	149						nucleolus	RNA binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			central_nervous_system(1)	1		Lung NSC(810;8.94e-06)|Prostate(74;0.0235)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.122)		GTATAGCACACCTGAAAAGAA	0.358													13	58					0	0	0.001855	0	0		T	61690434	T	T	61690434	2	4	116	1	0	0	0	0	0	0	0	1	4529	521	18	4		4	DIMT1L	5	61690434	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	6218449	61690434	119224826	115	65884											
SLCO4C1	353189	broad.mit.edu	37	chr5	101631698	101631698	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaggatggaagttcctcCagccgtaagacccctcctca	10	9	9	13	1	1	2	1	1	0	1	4	4	4	4	6	2	1	2	6	2	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:101631698C>T	uc003knm.2	-	1	556	c.269G>A	c.(268-270)TGG>TAG	p.W90*		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	90	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		GAAGTTCCTCCAGCCGTAAGA	0.572													6	50					0	0	0.001168	0	0		T	101631698	T	T	101631698	4	4	116	1	0	0	0	0	0	1	0	0	14755	595	21	4	1957	4	SLCO4C1	5	101631698	Nonsense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	39941264	101631698	79283562	116	65885											
SEC24A	10802	broad.mit.edu	37	chr5	134010858	134010858	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cgtcaacacctttgaagcctCcagttccaaatttgcatgaa	12	11	6	12	1	1	2	1	2	0	0	3	2	3	2	4	0	3	2	4	0	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:134010858C>G	uc003kzs.2	+	6	1390	c.1102C>G	c.(1102-1104)CCA>GCA	p.P368A	SEC24A_uc011cxu.1_Missense_Mutation_p.P132A	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A	368					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTTGAAGCCTCCAGTTCCAAA	0.408													6	68					0	0	0.00308	0	0		G	134010858	G	G	134010858	3	3	116	1	0	0	0	0	1	0	0	0	14019	855	30	5	1124	5	SEC24A	5	134010858	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	32379160	134010858	46904402	117	65886											
GFRA3	2676	broad.mit.edu	37	chr5	137600131	137600131	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttatgctagaggtgcaGgaatccaggtggtggtaggc	8	10	17	6	0	0	1	0	0	0	1	1	2	1	2	1	6	3	4	1	6	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:137600131G>T	uc003lcn.2	-	2	338	c.198C>A	c.(196-198)TCC>TCA	p.S66S	GFRA3_uc003lco.2_Silent_p.S66S	NM_001496	NP_001487	O60609	GFRA3_HUMAN	GDNF family receptor alpha 3 preproprotein	66					peripheral nervous system development	anchored to membrane|cytoplasm|extrinsic to membrane|intracellular membrane-bounded organelle	receptor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			TAGAGGTGCAGGAATCCAGGT	0.597													8	53					0.00307968	0.00318631	0.00308	1	0		T	137600131	T	T	137600131	2	4	116	1	0	0	0	0	0	0	0	1	6364	987	35	5		5	GFRA3	5	137600131	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	3589273	137600131	43315129	118	65887											
HBEGF	1839	broad.mit.edu	37	chr5	139715520	139715520	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acagcaccacagccaccacgGccaggatggttgtgtggtca	10	6	12	13	1	1	0	1	0	0	0	1	1	1	1	4	4	2	2	4	4	0	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:139715520G>C	uc003lfi.2	-	4	766	c.491C>G	c.(490-492)GCC>GGC	p.A164G	HBEGF_uc010jfj.2_RNA	NM_001945	NP_001936	Q99075	HBEGF_HUMAN	heparin-binding EGF-like growth factor	164	Helical; (Potential).				epidermal growth factor receptor signaling pathway|muscle organ development|positive regulation of protein kinase B signaling cascade|positive regulation of wound healing	cell surface|extracellular space|integral to plasma membrane	epidermal growth factor receptor binding|eukaryotic cell surface binding|growth factor activity|heparin binding|receptor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCCACCACGGCCAGGATGGT	0.547													11	82					0	0	0.013537	0	0		C	139715520	C	C	139715520	3	2	116	1	0	0	0	0	1	0	0	0	6997	1203	42	5	143	5	HBEGF	5	139715520	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	2115389	139715520	41199740	119	65888											
IK	3550	broad.mit.edu	37	chr5	140038627	140038627	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtgatcgggaaagagacAgagaccgtgaccgagagcga	14	3	16	8	5	0	5	0	2	0	3	1	10	0	6	2	1	2	0	2	1	1	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:140038627A>G	uc003lgq.2	+	12	1164	c.1054A>G	c.(1054-1056)AGA>GGA	p.R352G		NM_006083	NP_006074	Q13123	RED_HUMAN	RED protein	352	17 X 2 AA tandem repeats of R-[ED].|6.				cell-cell signaling|immune response	extracellular space|nucleus|soluble fraction				large_intestine(1)	1		all_hematologic(541;4.8e-07)|all_lung(500;0.000434)|Lung NSC(810;0.00161)|Breast(839;0.128)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ggaaagagacagagaccgtga	0.139													4	41					0	0	0.009096	0	0		G	140038627	G	G	140038627	3	3	116	1	0	0	0	0	1	0	0	0	7624	180	7	3	1100	3	IK	5	140038627	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	323107	140038627	40876633	120	65889											
PCDHA2	56146	broad.mit.edu	37	chr5	140176641	140176641	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacgctggtggatgtcaacGtgtacctgatcatcgccatc	8	11	10	12	3	2	1	2	1	0	0	4	2	2	2	2	2	3	2	2	2	3	2	rs151049201		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:140176641G>C	uc003lhd.2	+	1	2198	c.2092G>C	c.(2092-2094)GTG>CTG	p.V698L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.V698L|PCDHA2_uc011czy.1_Missense_Mutation_p.V698L	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	698	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGATGTCAACGTGTACCTGAT	0.657													13	125					0	0	0.001855	0	0		C	140176641	C	C	140176641	3	2	116	1	0	0	0	0	1	0	0	0	11543	1145	40	5	2094	5	PCDHA2	5	140176641	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	138014	140176641	40738619	121	65890											
PCDHA4	56144	broad.mit.edu	37	chr5	140187452	140187452	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagttgactggcaccgttcAgttactcatcacagtactgg	9	11	10	11	2	3	1	3	1	0	0	3	2	3	1	1	2	2	5	1	2	2	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:140187452A>C	uc003lhi.2	+	1	781	c.680A>C	c.(679-681)CAG>CCG	p.Q227P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.Q227P|PCDHA4_uc011daa.1_Missense_Mutation_p.Q227P	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	227	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCACCGTTCAGTTACTCATC	0.423													11	94					0	0	0.010729	0	0		C	140187452	C	C	140187452	3	2	116	1	0	0	0	0	1	0	0	0	11545	188	7	5	682	5	PCDHA4	5	140187452	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	10811	140187452	40727808	122	65891											
PCDHA5	56143	broad.mit.edu	37	chr5	140202534	140202534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgctccctaatgccccacGttcccttcaagctggtgtcc	5	11	7	18	1	1	0	1	0	0	0	4	0	4	0	6	1	3	3	6	1	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:140202534G>A	uc003lhl.2	+	1	1174	c.1174G>A	c.(1174-1176)GTT>ATT	p.V392I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.V392I|PCDHA5_uc003lhj.1_Missense_Mutation_p.V392I	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	392	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATGCCCCACGTTCCCTTCAA	0.587													18	199					0	0	0.008871	0	0		A	140202534	A	A	140202534	3	1	116	1	0	0	0	0	1	0	0	0	11546	1145	40	1	1176	1	PCDHA5	5	140202534	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	15082	140202534	40712726	123	65892											
PCDHA12	56137	broad.mit.edu	37	chr5	140255711	140255711	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgatggtaatcgatggcggTaaaccagaactaacagggtc	13	8	12	8	2	0	2	0	1	0	1	2	3	0	2	1	4	3	2	1	4	5	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:140255711T>A	uc003lic.2	+	1	781	c.654T>A	c.(652-654)GGT>GGA	p.G218G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.G218G	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	218	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGATGGCGGTAAACCAGAAC	0.403													6	71					0	0	0.001168	0	0		A	140255711	A	A	140255711	2	1	116	1	0	0	0	0	0	0	0	1	11541	1625	57	5		5	PCDHA12	5	140255711	Silent	SNP	T	TCGA-CD-8529-01A-11D-2340-08	53177	140255711	40659549	124	65893											
PCDHB16	57717	broad.mit.edu	37	chr5	140564258	140564258	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttttcggtgctcctgttCgtggcggtgcggctgtgcag	1	14	15	11	4	1	0	0	0	1	0	4	0	2	0	1	4	3	4	1	4	0	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:140564258C>T	uc003liv.2	+	1	3279	c.2124C>T	c.(2122-2124)TTC>TTT	p.F708F	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	708	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGCTCCTGTTCGTGGCGGTGC	0.687													16	185					0	0	0.004007	0	0		T	140564258	T	T	140564258	2	4	116	1	0	0	0	0	0	0	0	1	11560	883	31	1		1	PCDHB16	5	140564258	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	308547	140564258	40351002	125	65894											
PCDHB14	56122	broad.mit.edu	37	chr5	140603844	140603844	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaagtccccgaggacagacCccttggctcctggattgcca	8	7	11	15	1	0	1	0	0	0	1	2	4	2	3	6	3	1	2	6	3	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:140603844C>A	uc003ljb.2	+	1	767	c.767C>A	c.(766-768)CCC>CAC	p.P256H	PCDHB14_uc011dal.1_Missense_Mutation_p.P103H	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	256	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGGACAGACCCCTTGGCTCC	0.458													7	87					8.12818e-05	8.84179e-05	0.001984	1	0		A	140603844	A	A	140603844	3	1	116	1	0	0	0	0	1	0	0	0	11558	623	22	5	769	5	PCDHB14	5	140603844	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	39586	140603844	40311416	126	65895											
PCDHB15	56121	broad.mit.edu	37	chr5	140627303	140627303	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcaggaggagcagggcGgcctcagtgggtcgctgctc	5	7	18	11	2	1	0	1	0	0	0	3	2	1	2	1	5	3	4	1	5	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:140627303G>A	uc003lje.2	+	1	2157	c.2157G>A	c.(2155-2157)GCG>GCA	p.A719A		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	719	Cytoplasmic (Potential).		A -> V (in a breast cancer sample; somatic mutation).		homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding	p.A719V(1)		ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGAGCAGGGCGGCCTCAGTGG	0.647													16	230					0	0	0.004007	0	0		A	140627303	A	A	140627303	2	1	116	1	0	0	0	0	0	0	0	1	11559	1103	39	1		1	PCDHB15	5	140627303	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	23459	140627303	40287957	127	65896											
PCDHGA7	56108	broad.mit.edu	37	chr5	140763604	140763604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagagattctggaaagaatGgtgaggtgacctgcaccatt	13	9	12	7	0	1	4	0	2	1	2	1	6	1	5	2	3	1	1	2	3	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:140763604G>A	uc003lka.1	+	1	1138	c.1138G>A	c.(1138-1140)GGT>AGT	p.G380S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.G380S	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	380	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGAAAGAATGGTGAGGTGAC	0.393													6	31					0	0	0.001168	0	0		A	140763604	A	A	140763604	3	1	116	1	0	0	0	0	1	0	0	0	11578	1348	47	4	1140	4	PCDHGA7	5	140763604	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	136301	140763604	40151656	128	65897											
PCDHGA12	26025	broad.mit.edu	37	chr5	140810919	140810919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgaattggtgctgaaacGcgccctggaccgcgaagaaa	11	5	12	13	5	0	2	0	1	0	1	0	5	0	3	4	2	2	1	4	2	4	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:140810919G>A	uc003lkt.1	+	1	762	c.593G>A	c.(592-594)CGC>CAC	p.R198H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.R198H	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	198	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCTGAAACGCGCCCTGGAC	0.622													17	132					0	0	0.012319	0	0		A	140810919	A	A	140810919	3	1	116	1	0	0	0	0	1	0	0	0	11572	1087	38	1	595	1	PCDHGA12	5	140810919	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	47315	140810919	40104341	129	65898											
PCDHGC4	56098	broad.mit.edu	37	chr5	140864787	140864787	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaaatctggcggtgggctaCccttttgttcctcttttacc	6	15	9	11	1	2	1	0	0	2	1	3	1	3	1	3	3	2	2	3	3	3	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:140864787C>A	uc003lky.1	+	1	47	c.47C>A	c.(46-48)ACC>AAC	p.T16N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Missense_Mutation_p.T16N	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	16					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGTGGGCTACCCTTTTGTTC	0.562													12	66					1.49906e-05	1.66271e-05	0.00245	1	0		A	140864787	A	A	140864787	3	1	116	1	0	0	0	0	1	0	0	0	11589	507	18	5	49	5	PCDHGC4	5	140864787	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	53868	140864787	40050473	130	65899											
ABLIM3	22885	broad.mit.edu	37	chr5	148630060	148630060	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctaccgaagaaatgggCtgcacagggtaagaagctgt	12	7	13	9	1	0	2	0	0	0	2	0	3	0	2	2	2	4	4	2	2	5	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:148630060C>T	uc003lpy.2	+	20	2031	c.1780C>T	c.(1780-1782)CTG>TTG	p.L594L	ABLIM3_uc003lpz.1_Silent_p.L594L|ABLIM3_uc003lqa.1_Silent_p.L491L|ABLIM3_uc003lqb.2_Silent_p.L483L|ABLIM3_uc003lqc.1_Silent_p.L561L|ABLIM3_uc003lqd.1_Silent_p.L499L|ABLIM3_uc003lqf.2_Silent_p.L483L|ABLIM3_uc003lqe.1_Silent_p.L483L	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3	594					axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGAAATGGGCTGCACAGGGT	0.488													4	46					0	0	0.009096	0	0		T	148630060	T	T	148630060	2	4	116	1	0	0	0	0	0	0	0	1	96	796	28	2		2	ABLIM3	5	148630060	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	7765273	148630060	32285200	131	65900											
NMUR2	56923	broad.mit.edu	37	chr5	151771908	151771908	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagtggcattctgtcaggaaGatgttccgctgggcaggtgg	8	10	16	7	1	2	1	1	0	1	1	3	2	3	2	1	5	0	4	1	5	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:151771908G>C	uc003luv.2	-	4	1258	c.1092C>G	c.(1090-1092)ATC>ATG	p.I364M		NM_020167	NP_064552	Q9GZQ4	NMUR2_HUMAN	neuromedin U receptor 2	364	Cytoplasmic (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|arachidonic acid secretion|calcium ion transport|central nervous system development|elevation of cytosolic calcium ion concentration|regulation of smooth muscle contraction	integral to membrane|plasma membrane	GTP binding|intracellular calcium activated chloride channel activity|neuromedin U receptor activity			ovary(3)|skin(2)|lung(1)|breast(1)|pancreas(1)	8		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)	Kidney(363;0.000106)|KIRC - Kidney renal clear cell carcinoma(527;0.000672)			CTGTCAGGAAGATGTTCCGCT	0.542													6	110					0	0	0.001168	0	0		C	151771908	C	C	151771908	3	2	116	1	0	0	0	0	1	0	0	0	10526	932	33	5	159	5	NMUR2	5	151771908	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	3141848	151771908	29143352	132	65901											
FAM114A2	10827	broad.mit.edu	37	chr5	153406876	153406876	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtccgtatctcttctttctCcttcgcctctcgtaaaacct	5	16	5	15	3	4	0	0	0	4	0	9	0	5	0	4	1	1	2	4	1	3	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:153406876C>A	uc003lvb.2	-	7	1237	c.649G>T	c.(649-651)GAG>TAG	p.E217*	FAM114A2_uc003lvc.2_Nonsense_Mutation_p.E217*|FAM114A2_uc003lvd.2_Nonsense_Mutation_p.E217*|FAM114A2_uc003lve.2_Nonsense_Mutation_p.E33*|FAM114A2_uc011dda.1_Nonsense_Mutation_p.E147*	NM_018691	NP_061161	Q9NRY5	F1142_HUMAN	hypothetical protein LOC10827	217							purine nucleotide binding				0						TCTTCTTTCTCCTTCGCCTCT	0.423													6	36					4.096e-09	4.75061e-09	0.001168	1	0		A	153406876	A	A	153406876	4	1	116	1	0	0	0	0	0	1	0	0	5415	864	30	5	900	5	FAM114A2	5	153406876	Nonsense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1634968	153406876	27508384	133	65902											
GALNT10	55568	broad.mit.edu	37	chr5	153760070	153760070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgatgtaattgaccatgacGactttcggtacgagacacag	12	11	10	8	3	0	4	0	3	0	1	1	6	0	4	1	1	1	2	1	1	2	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:153760070G>A	uc003lvh.2	+	6	949	c.817G>A	c.(817-819)GAC>AAC	p.D273N	GALNT10_uc003lvg.1_Missense_Mutation_p.D273N|GALNT10_uc010jic.2_RNA|GALNT10_uc010jid.2_Missense_Mutation_p.D114N	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	273	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			TGACCATGACGACTTTCGGTA	0.532													14	130					0	0	0.004007	0	0		A	153760070	A	A	153760070	3	1	116	1	0	0	0	0	1	0	0	0	6223	1058	37	1	839	1	GALNT10	5	153760070	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	353194	153760070	27155190	134	65903											
DRD1	1812	broad.mit.edu	37	chr5	174868997	174868997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgatggctggaaaacatcGcggccccattgttattgata	11	11	10	9	2	0	2	0	2	0	0	1	3	0	3	2	3	1	2	2	3	4	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr5:174868997G>A	uc003mcz.2	-	2	2051	c.1106C>T	c.(1105-1107)GCG>GTG	p.A369V		NM_000794	NP_000785	P21728	DRD1_HUMAN	dopamine receptor D1	369	Cytoplasmic (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|adult walking behavior|cerebral cortex GABAergic interneuron migration|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|mating behavior|positive regulation of cAMP biosynthetic process|positive regulation of cell migration|positive regulation of potassium ion transport|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of synaptic transmission, glutamatergic|prepulse inhibition|response to drug|synapse assembly|visual learning	endoplasmic reticulum membrane|membrane fraction	protein binding			ovary(2)|skin(1)	3	all_cancers(89;0.00895)|Renal(175;0.000159)|Lung NSC(126;0.00625)|all_lung(126;0.0104)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)		Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Carphenazine(DB01038)|Chlorprothixene(DB01239)|Clozapine(DB00363)|Cocaine(DB00907)|Dopamine(DB00988)|Fenoldopam(DB00800)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Methylergonovine(DB00353)|Minaprine(DB00805)|Olanzapine(DB00334)|Pegademase bovine(DB00061)|Pergolide(DB01186)|Perphenazine(DB00850)|Prochlorperazine(DB00433)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Triflupromazine(DB00508)|Zuclopenthixol(DB01624)	GGAAAACATCGCGGCCCCATT	0.502													7	103					0	0	0.004482	0	0		A	174868997	A	A	174868997	3	1	116	1	0	0	0	0	1	0	0	0	4762	1087	38	1	238	1	DRD1	5	174868997	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	21108927	174868997	6046263	135	65904											
MYLK4	340156	broad.mit.edu	37	chr6	2678542	2678542	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctctaagtcccacctgcAggccaggatgttgttcagcg	8	10	10	13	1	2	0	1	0	1	0	4	1	4	1	4	2	2	3	4	2	1	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:2678542A>C	uc003mty.3	-	10	1249	c.952T>G	c.(952-954)TGC>GGC	p.C318G	MYLK4_uc003mtx.3_Missense_Mutation_p.C33G	NM_001012418	NP_001012418	Q86YV6	MYLK4_HUMAN	myosin light chain kinase family, member 4	318	Protein kinase.						ATP binding|protein serine/threonine kinase activity			breast(3)|ovary(1)	4	Ovarian(93;0.0412)	all_hematologic(90;0.0897)				TCCCACCTGCAGGCCAGGATG	0.488													19	87					0	0	0.012319	0	0		C	2678542	C	C	2678542	3	2	116	1	0	0	0	0	1	0	0	0	10077	188	7	5	226	5	MYLK4	6	2678542	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08		2678542	168436525	136	65905											
MAK	4117	broad.mit.edu	37	chr6	10796386	10796386	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctggggttgtccaacaacctGatcgattatatccggcagag	10	10	11	10	2	0	2	0	1	0	1	3	3	2	2	3	3	2	2	3	3	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:10796386G>C	uc003mzl.2	-	8	1217	c.988C>G	c.(988-990)CAG>GAG	p.Q330E	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Missense_Mutation_p.Q330E|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	330	Glu/Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				CCAACAACCTGATCGATTATA	0.488													10	92					0	0	0.006214	0	0		C	10796386	C	C	10796386	3	2	116	1	0	0	0	0	1	0	0	0	9215	1299	45	5	907	5	MAK	6	10796386	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	8117844	10796386	160318681	137	65906											
SCAND3	114821	broad.mit.edu	37	chr6	28547186	28547186	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaacttcctgcccatatgtgCcctgtgagacctgtggacaa	10	10	9	12	0	0	1	0	1	0	1	1	3	1	2	4	1	3	0	4	1	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:28547186C>A	uc003nlo.2	-	2	1049	c.431G>T	c.(430-432)GGC>GTC	p.G144V		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	144					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCCATATGTGCCCTGTGAGAC	0.393													8	114					1.12685e-05	1.25535e-05	0.004482	1	0		A	28547186	A	A	28547186	3	1	116	1	0	0	0	0	1	0	0	0	13901	739	26	5	3558	5	SCAND3	6	28547186	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	17750800	28547186	142567881	138	65907											
ZFP57	346171	broad.mit.edu	37	chr6	29643777	29643777	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaccctctggctggcatcTagacagtcccactcttcctg	7	10	9	15	0	3	1	0	0	3	1	5	2	5	2	3	3	0	2	3	3	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:29643777T>A	uc011dlw.1	-	2	334	c.183A>T	c.(181-183)CTA>CTT	p.L61L	ZFP57_uc003nnl.3_Silent_p.L41L	NM_001109809	NP_001103279	Q9NU63	ZFP57_HUMAN	zinc finger protein 57 homolog	33	KRAB.				DNA methylation involved in embryo development|regulation of gene expression by genetic imprinting|transcription, DNA-dependent		DNA binding|zinc ion binding			ovary(3)|skin(2)	5						GGCTGGCATCTAGACAGTCCC	0.473													25	247					0	0	0.003954	0	0		A	29643777	A	A	29643777	2	1	116	1	0	0	0	0	0	0	0	1	17676	1509	53	5		5	ZFP57	6	29643777	Silent	SNP	T	TCGA-CD-8529-01A-11D-2340-08	1096591	29643777	141471290	139	65908											
VARS2	57176	broad.mit.edu	37	chr6	30884912	30884912	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgtgactgaagcttttGtgcggctctacaaggcgggg	6	11	16	8	2	1	2	0	2	1	0	1	2	1	2	0	5	3	3	0	5	3	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:30884912G>C	uc003nsc.1	+	8	1416	c.784G>C	c.(784-786)GTG>CTG	p.V262L	VARS2_uc003nsd.2_Missense_Mutation_p.V262L|VARS2_uc011dmx.1_Missense_Mutation_p.V262L|VARS2_uc011dmy.1_Missense_Mutation_p.V122L|VARS2_uc011dmz.1_Missense_Mutation_p.V292L|VARS2_uc011dna.1_Missense_Mutation_p.V262L|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_5'Flank|VARS2_uc010jsg.1_5'Flank	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	262					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						TGAAGCTTTTGTGCGGCTCTA	0.562													10	121					0	0	0.008291	0	0		C	30884912	C	C	30884912	3	2	116	1	0	0	0	0	1	0	0	0	17150	1377	48	5	908	5	VARS2	6	30884912	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1241135	30884912	140230155	140	65909											
NEU1	4758	broad.mit.edu	37	chr6	31827959	31827959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcacaggcatcatagctgCggaggacaattcggcagtgg	11	8	13	9	2	2	0	2	0	0	0	3	2	2	2	0	5	2	3	0	5	3	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:31827959C>T	uc003nxq.3	-	5	1037	c.881G>A	c.(880-882)CGC>CAC	p.R294H	NEU1_uc010jtg.2_RNA|NEU1_uc003nxr.3_Intron|NEU1_uc010jth.2_Missense_Mutation_p.R125H|NEU1_uc003nxs.3_3'UTR	NM_000434	NP_000425	Q99519	NEUR1_HUMAN	neuraminidase precursor	294			R -> S (in SIALIDOSIS; type 1; mild mutation as residual activity is still measurable).			cytoplasmic membrane-bounded vesicle|lysosomal lumen|lysosomal membrane|plasma membrane	exo-alpha-sialidase activity|protein binding	p.R294C(1)		ovary(1)	1					Oseltamivir(DB00198)|Zanamivir(DB00558)	ATCATAGCTGCGGAGGACAAT	0.577													5	78					0	0	0.000602	0	0		T	31827959	T	T	31827959	3	4	116	1	0	0	0	0	1	0	0	0	10360	768	27	1	374	1	NEU1	6	31827959	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	943047	31827959	139287108	141	65910											
SLC26A8	116369	broad.mit.edu	37	chr6	35927520	35927520	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcttatgctttaggtagtAaacatttacaaatgtaattg	14	15	7	5	0	0	0	0	0	0	0	0	0	0	0	0	1	4	5	0	1	8	9			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:35927520A>C	uc003olm.2	-	15	1813	c.1702T>G	c.(1702-1704)TAC>GAC	p.Y568D	SLC26A8_uc010jwa.2_RNA|SLC26A8_uc003olk.2_Missense_Mutation_p.Y150D|SLC26A8_uc003oln.2_Missense_Mutation_p.Y568D|SLC26A8_uc003oll.2_Missense_Mutation_p.Y463D	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	568	STAS.|Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						TTTAGGTAGTAAACATTTACA	0.463													13	113					0	0	0.00245	0	0		C	35927520	C	C	35927520	3	2	116	1	0	0	0	0	1	0	0	0	14548	362	13	5	1234	5	SLC26A8	6	35927520	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	4099561	35927520	135187547	142	65911											
DNAH8	1769	broad.mit.edu	37	chr6	38905858	38905858	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagaaactgagatcaagaTcaacgcggctcaggaggagt	14	6	13	8	2	3	3	3	1	0	3	3	6	3	5	0	3	3	2	0	3	3	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:38905858T>C	uc003ooe.1	+	76	11621	c.11021T>C	c.(11020-11022)ATC>ACC	p.I3674T	DNAH8_uc003oog.1_Missense_Mutation_p.I123T|uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GAGATCAAGATCAACGCGGCT	0.512													6	81					0	0	0.001168	0	0		C	38905858	C	C	38905858	3	2	116	1	0	0	0	0	1	0	0	0	4613	1435	50	3	11315	3	DNAH8	6	38905858	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	2978338	38905858	132209209	143	65912											
TREM2	54209	broad.mit.edu	37	chr6	41126729	41126729	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agggcgctggctgctagaatCttgatgagaaagatgcaggc	11	8	15	7	1	1	4	0	2	1	3	1	5	1	4	0	3	2	4	0	3	3	2	rs28937876		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:41126729C>T	uc003opy.2	-	4	660	c.558G>A	c.(556-558)AAG>AAA	p.K186K	TREM2_uc003opz.2_Missense_Mutation_p.D230N|TREM2_uc010jxl.1_Intron	NM_018965	NP_061838	Q9NZC2	TREM2_HUMAN	triggering receptor expressed on myeloid cells 2	186	Helical; (Potential).		K -> N (in PLOSL).		axon guidance|humoral immune response	extracellular region|integral to membrane|plasma membrane	receptor activity			ovary(1)	1	Ovarian(28;0.0418)|Colorectal(47;0.196)					CTGCTAGAATCTTGATGAGAA	0.572													5	47					0	0	0.000602	0	0		T	41126729	T	T	41126729	2	4	116	1	0	0	0	0	0	0	0	1	16497	912	32	4		4	TREM2	6	41126729	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	2220871	41126729	129988338	144	65913											
PRPH2	5961	broad.mit.edu	37	chr6	42689828	42689828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggtccagggcgtcgtagCagatcttcccagccagcgag	7	7	14	13	3	1	1	0	0	1	1	4	2	3	1	3	2	3	2	3	2	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:42689828C>T	uc003osk.2	-	1	531	c.245G>A	c.(244-246)TGC>TAC	p.C82Y		NM_000322	NP_000313	P23942	PRPH2_HUMAN	peripherin 2	82	Cytoplasmic (Potential).				cell adhesion|visual perception	integral to membrane				ovary(4)|central_nervous_system(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.00178)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0904)			GGCGTCGTAGCAGATCTTCCC	0.517													6	77					0	0	0.001168	0	0		T	42689828	T	T	42689828	3	4	116	1	0	0	0	0	1	0	0	0	12599	710	25	2	807	2	PRPH2	6	42689828	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1563099	42689828	128425239	145	65914											
KIAA0240	23506	broad.mit.edu	37	chr6	42797574	42797574	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggtggacagatgcccttGcagcaggcatccccaactgt	8	8	13	12	0	0	1	0	0	0	1	1	2	1	2	3	3	4	3	3	3	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:42797574G>C	uc003osn.1	+	6	1654	c.1503G>C	c.(1501-1503)TTG>TTC	p.L501F	KIAA0240_uc003osm.1_Missense_Mutation_p.L501F|KIAA0240_uc011duw.1_Missense_Mutation_p.L501F|KIAA0240_uc003oso.1_Missense_Mutation_p.L501F|KIAA0240_uc003osp.1_Missense_Mutation_p.L501F	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	501										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			AGATGCCCTTGCAGCAGGCAT	0.557													9	88					0	0	0.006214	0	0		C	42797574	C	C	42797574	3	2	116	1	0	0	0	0	1	0	0	0	8180	1310	46	5	1517	5	KIAA0240	6	42797574	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	107746	42797574	128317493	146	65915											
CUL9	23113	broad.mit.edu	37	chr6	43173834	43173834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctctgttttcccaaccGcctcccacagctgatgctgc	5	11	8	17	1	1	1	0	1	1	0	3	1	3	1	5	1	4	3	5	1	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:43173834G>A	uc003ouk.2	+	25	4958	c.4883G>A	c.(4882-4884)CGC>CAC	p.R1628H	CUL9_uc003oul.2_Missense_Mutation_p.R1628H|CUL9_uc010jyk.2_Missense_Mutation_p.R780H	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1628					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TTTCCCAACCGCCTCCCACAG	0.582													6	50					0	0	0.001168	0	0		A	43173834	A	A	43173834	3	1	116	1	0	0	0	0	1	0	0	0	4064	1087	38	1	4977	1	CUL9	6	43173834	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	376260	43173834	127941233	147	65916											
TTBK1	84630	broad.mit.edu	37	chr6	43223579	43223579	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcctcgactacttcacCaagcccgactaccaggtggg	9	6	10	16	2	1	0	1	0	0	0	2	2	1	0	5	2	4	0	5	2	3	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:43223579C>G	uc003ouq.1	+	9	1125	c.846C>G	c.(844-846)ACC>ACG	p.T282T		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	282	Protein kinase.					cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			ACTACTTCACCAAGCCCGACT	0.602													12	79					0	0	0.010729	0	0		G	43223579	G	G	43223579	2	3	116	1	0	0	0	0	0	0	0	1	16702	581	21	5		5	TTBK1	6	43223579	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	49745	43223579	127891488	148	65917											
HMGCLL1	54511	broad.mit.edu	37	chr6	55364066	55364066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgcggtgtaatacttccttCatatggacagcccagagcac	10	11	9	11	1	1	1	1	0	0	1	2	2	2	2	2	2	4	2	2	2	3	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:55364066C>T	uc003pcn.2	-	7	823	c.664G>A	c.(664-666)GAA>AAA	p.E222K	HMGCLL1_uc003pco.2_Missense_Mutation_p.E192K|HMGCLL1_uc010jzx.2_Missense_Mutation_p.E93K|HMGCLL1_uc011dxc.1_Missense_Mutation_p.E160K|HMGCLL1_uc011dxd.1_Intron|HMGCLL1_uc011dxe.1_Intron	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	222							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			ATACTTCCTTCATATGGACAG	0.308													8	76					0	0	0.006214	0	0		T	55364066	T	T	55364066	3	4	116	1	0	0	0	0	1	0	0	0	7246	835	29	4	464	4	HMGCLL1	6	55364066	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	12140487	55364066	115751001	149	65918											
C6orf57	135154	broad.mit.edu	37	chr6	71298420	71298420	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaaaaggacgctgtattgAtttttaagtcgcatattctt	12	15	8	6	3	1	1	0	1	1	0	2	3	1	2	0	1	0	3	0	1	5	8			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:71298420A>G	uc003pfq.1	+	3	340	c.320A>G	c.(319-321)GAT>GGT	p.D107G		NM_145267	NP_660310	Q5VUM1	CF057_HUMAN	hypothetical protein LOC135154 precursor	107						extracellular region					0						CGCTGTATTGATTTTTAAGTC	0.348													7	67					0	0	0.001984	0	0		G	71298420	G	G	71298420	3	3	116	1	0	0	0	0	1	0	0	0	2369	333	12	3	330	3	C6orf57	6	71298420	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	15934354	71298420	99816647	150	65919											
SH3BGRL2	83699	broad.mit.edu	37	chr6	80383441	80383441	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcaatggatgtacaaaaaCgtccccccggaaaagaaacc	17	4	9	11	2	0	1	0	0	0	1	1	3	1	3	4	3	3	2	4	3	7	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:80383441C>A	uc003piz.1	+	2	335	c.156C>A	c.(154-156)AAC>AAA	p.N52K		NM_031469	NP_113657	Q9UJC5	SH3L2_HUMAN	SH3 domain binding glutamic acid-rich protein	52						nucleus	SH3 domain binding				0		all_cancers(76;0.00188)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.174)		BRCA - Breast invasive adenocarcinoma(397;0.0278)		TGTACAAAAACGTCCCCCCGG	0.473													12	110					0.00010058	0.000108944	0.013537	1	0		A	80383441	A	A	80383441	3	1	116	1	0	0	0	0	1	0	0	0	14267	535	19	5	162	5	SH3BGRL2	6	80383441	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	9085021	80383441	90731626	151	65920											
ELOVL4	6785	broad.mit.edu	37	chr6	80629160	80629160	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcaacatagtcaggtatcGtttccaccaaagatatttct	12	14	6	9	1	2	1	1	0	1	1	4	1	3	1	2	1	2	3	2	1	5	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:80629160G>A	uc003pja.3	-	5	965	c.646C>T	c.(646-648)CGA>TGA	p.R216*	ELOVL4_uc011dyt.1_Intron	NM_022726	NP_073563	Q9GZR5	ELOV4_HUMAN	elongation of very long chain fatty acids-like	216					fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	G-protein coupled photoreceptor activity|protein binding|transferase activity, transferring acyl groups other than amino-acyl groups			ovary(1)|skin(1)	2		all_cancers(76;1.83e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.011)		BRCA - Breast invasive adenocarcinoma(397;0.0168)	Alpha-Linolenic Acid(DB00132)	GTCAGGTATCGTTTCCACCAA	0.343													5	63					0	0	0.001168	0	0		A	80629160	A	A	80629160	4	1	116	1	0	0	0	0	0	1	0	0	5084	1153	40	1	306	1	ELOVL4	6	80629160	Nonsense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	245719	80629160	90485907	152	65921											
DOPEY1	23033	broad.mit.edu	37	chr6	83863234	83863234	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttatgttttcataggtttTggctcatcttttggatatgg	6	22	9	4	0	3	0	2	0	1	0	3	1	3	1	0	4	0	3	0	4	3	10			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:83863234T>G	uc003pjs.1	+	31	6394	c.6134T>G	c.(6133-6135)TTG>TGG	p.L2045W	DOPEY1_uc011dyy.1_Missense_Mutation_p.L2036W|DOPEY1_uc010kbl.1_Missense_Mutation_p.L2036W|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	2045					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		TCATAGGTTTTGGCTCATCTT	0.338													8	86					0	0	0.006214	0	0		G	83863234	G	G	83863234	3	3	116	1	0	0	0	0	1	0	0	0	4713	1821	63	5	6248	5	DOPEY1	6	83863234	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	3234074	83863234	87251833	153	65922											
SLC22A16	85413	broad.mit.edu	37	chr6	110746263	110746263	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtgttaacactccactcAggagggccatagtcccaaca	12	9	8	12	0	1	0	1	0	0	0	3	1	3	1	3	2	2	1	3	2	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:110746263A>C	uc003puf.2	-	8	1614	c.1547T>G	c.(1546-1548)CTG>CGG	p.L516R	SLC22A16_uc003pue.2_Missense_Mutation_p.L497R	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	516	Helical; (Potential).				acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		CACTCCACTCAGGAGGGCCAT	0.428													10	86					0	0	0.006214	0	0		C	110746263	C	C	110746263	3	2	116	1	0	0	0	0	1	0	0	0	14472	188	7	5	190	5	SLC22A16	6	110746263	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	26883029	110746263	60368804	154	65923											
RFPL4B	442247	broad.mit.edu	37	chr6	112670980	112670980	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttctcctgttccatttctCtctcttgtacacacgtgttc	4	20	4	13	1	3	0	0	0	3	0	8	0	4	0	2	0	1	3	2	0	1	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:112670980C>G	uc003pvx.1	+	3	382	c.70C>G	c.(70-72)CTC>GTC	p.L24V		NM_001013734	NP_001013756	Q6ZWI9	RFPLB_HUMAN	ret finger protein-like 4B	24	RING-type.						zinc ion binding				0		all_cancers(87;9.44e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00265)|Colorectal(196;0.0209)		all cancers(137;0.0202)|OV - Ovarian serous cystadenocarcinoma(136;0.0477)|Epithelial(106;0.0646)|GBM - Glioblastoma multiforme(226;0.0866)|BRCA - Breast invasive adenocarcinoma(108;0.244)		TTCCATTTCTCTCTCTTGTAC	0.463													5	39					0	0	0.000602	0	0		G	112670980	G	G	112670980	3	3	116	1	0	0	0	0	1	0	0	0	13281	913	32	5	72	5	RFPL4B	6	112670980	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1924717	112670980	58444087	155	65924											
MED23	9439	broad.mit.edu	37	chr6	131929185	131929185	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccacataagatgatctctGcctttaatcagtcctcgccc	10	11	5	15	1	2	2	1	1	1	1	5	2	3	2	4	0	1	0	4	0	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:131929185G>C	uc003qcs.1	-	12	1278	c.1104C>G	c.(1102-1104)GGC>GGG	p.G368G	MED23_uc003qcq.2_Silent_p.G374G|MED23_uc011eca.1_Intron|MED23_uc003qct.1_Silent_p.G374G|MED23_uc011ecb.1_RNA	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	368					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		GATGATCTCTGCCTTTAATCA	0.358													6	68					0	0	0.001984	0	0		C	131929185	C	C	131929185	2	2	116	1	0	0	0	0	0	0	0	1	9459	1306	46	5		5	MED23	6	131929185	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	19258205	131929185	39185882	156	65925											
IFNGR1	3459	broad.mit.edu	37	chr6	137524711	137524711	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaccccacacatgtaagaCtccttctgctgaaacacagt	14	8	5	14	0	1	2	0	1	1	1	2	2	2	2	3	0	3	2	3	0	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:137524711C>G	uc003qho.2	-	5	761	c.658G>C	c.(658-660)GTC>CTC	p.V220L	IFNGR1_uc011edm.1_Missense_Mutation_p.V192L|IFNGR1_uc011edn.1_3'UTR	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	220	Extracellular (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	ACATGTAAGACTCCTTCTGCT	0.378													5	65					0	0	0.000602	0	0		G	137524711	G	G	137524711	3	3	116	1	0	0	0	0	1	0	0	0	7565	565	20	5	823	5	IFNGR1	6	137524711	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	5595526	137524711	33590356	157	65926											
GRM1	2911	broad.mit.edu	37	chr6	146351337	146351337	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaattggacctatgtctcTgcagtccacacggaaggtag	11	10	10	10	1	1	0	0	0	1	0	3	2	2	2	2	3	2	2	2	3	5	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:146351337T>C	uc010khw.1	+	2	1154	c.684T>C	c.(682-684)TCT>TCC	p.S228S	GRM1_uc010khu.1_Silent_p.S228S|GRM1_uc010khv.1_Silent_p.S228S|GRM1_uc003qll.2_Silent_p.S228S|GRM1_uc011edz.1_Silent_p.S228S|GRM1_uc011eea.1_Silent_p.S228S	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	228	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CCTATGTCTCTGCAGTCCACA	0.453													10	78					0	0	0.008291	0	0		C	146351337	C	C	146351337	2	2	116	1	0	0	0	0	0	0	0	1	6812	1567	55	3		3	GRM1	6	146351337	Silent	SNP	T	TCGA-CD-8529-01A-11D-2340-08	8826626	146351337	24763730	158	65927											
SNX9	51429	broad.mit.edu	37	chr6	158330999	158330999	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gactggttatatgagcgtctCctggttaagtttgggtcagc	7	14	13	7	1	2	1	1	1	1	0	3	2	2	1	1	3	2	3	1	3	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:158330999C>T	uc003qqv.1	+	9	1064	c.891C>T	c.(889-891)CTC>CTT	p.L297L		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	297	PX.				cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)		ATGAGCGTCTCCTGGTTAAGT	0.413													18	85					0	0	0.006122	0	0		T	158330999	T	T	158330999	2	4	116	1	0	0	0	0	0	0	0	1	14934	842	30	4		4	SNX9	6	158330999	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	11979662	158330999	12784068	159	65928											
C6orf118	168090	broad.mit.edu	37	chr6	165715612	165715612	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaggctggtagagcttgtTggggttcaggtgtccagaga	7	10	18	6	1	1	2	1	0	0	2	2	4	2	3	1	6	1	5	1	6	1	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr6:165715612T>C	uc003qum.3	-	2	235	c.199A>G	c.(199-201)AAC>GAC	p.N67D	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	67											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		TAGAGCTTGTTGGGGTTCAGG	0.592													13	85					0	0	0.00245	0	0		C	165715612	C	C	165715612	3	2	116	1	0	0	0	0	1	0	0	0	2326	1812	63	3	1242	3	C6orf118	6	165715612	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	7384613	165715612	5399455	160	65929											
GPR146	115330	broad.mit.edu	37	chr7	1097511	1097511	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggccatgtactccacCgccctgctgagcctcgacca	6	8	10	17	2	0	1	0	1	0	0	2	2	1	1	6	2	3	2	6	2	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:1097511C>A	uc003sjw.2	+	2	436	c.360C>A	c.(358-360)ACC>ACA	p.T120T	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPR146_uc003sjx.3_Silent_p.T120T|GPR146_uc003sjy.1_Silent_p.T120T	NM_138445	NP_612454	Q96CH1	GP146_HUMAN	G protein-coupled receptor 146	120	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		TGTACTCCACCGCCCTGCTGA	0.657													8	75					0.00448238	0.00461876	0.004482	1	0		A	1097511	A	A	1097511	2	1	116	1	0	0	0	0	0	0	0	1	6667	639	23	5		5	GPR146	7	1097511	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08		1097511	158041152	161	65930											
NXPH1	30010	broad.mit.edu	37	chr7	8790784	8790784	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagacttttcgtggcaaagaGaatgatacagatttggacct	13	11	10	7	1	0	4	0	1	0	3	1	6	0	5	1	2	1	1	1	2	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:8790784G>C	uc003srv.2	+	3	1112	c.201G>C	c.(199-201)GAG>GAC	p.E67D	NXPH1_uc011jxh.1_5'UTR	NM_152745	NP_689958	P58417	NXPH1_HUMAN	neurexophilin 1 precursor	67	II.					extracellular region				ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0628)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)		GTGGCAAAGAGAATGATACAG	0.473													6	59					0	0	0.001168	0	0		C	8790784	C	C	8790784	3	2	116	1	0	0	0	0	1	0	0	0	10809	933	33	5	207	5	NXPH1	7	8790784	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	7693273	8790784	150347879	162	65931											
SCIN	85477	broad.mit.edu	37	chr7	12680057	12680057	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tatttacaagaatggaacatCaaagaaaggaggtcaggcac	18	7	10	6	0	2	2	2	0	0	2	2	4	2	4	0	4	2	1	0	4	7	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:12680057C>G	uc003ssn.3	+	11	1706	c.1496C>G	c.(1495-1497)TCA>TGA	p.S499*	SCIN_uc010ktt.2_RNA|SCIN_uc003sso.3_Nonsense_Mutation_p.S252*	NM_001112706	NP_001106177	Q9Y6U3	ADSV_HUMAN	scinderin isoform 1	499	Ca(2+)-dependent actin binding.				actin filament capping|actin filament severing|actin nucleation|calcium ion-dependent exocytosis|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of megakaryocyte differentiation|positive regulation of secretion|regulation of chondrocyte differentiation	cell cortex|cytoskeleton	1-phosphatidylinositol binding|actin filament binding|calcium ion binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		AATGGAACATCAAAGAAAGGA	0.483													4	44					0	0	0.009096	0	0		G	12680057	G	G	12680057	4	3	116	1	0	0	0	0	0	1	0	0	13930	838	29	5	1538	5	SCIN	7	12680057	Nonsense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	3889273	12680057	146458606	163	65932											
TAX1BP1	8887	broad.mit.edu	37	chr7	27825103	27825103	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggatgaaaaggaacttTataaggtaatttatttttta	17	15	8	1	0	0	2	0	1	0	1	0	4	0	4	0	3	1	1	0	3	9	9			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:27825103T>C	uc003szl.2	+	7	1005	c.847T>C	c.(847-849)TAT>CAT	p.Y283H	TAX1BP1_uc011jzo.1_Missense_Mutation_p.Y283H|TAX1BP1_uc003szk.2_Missense_Mutation_p.Y283H|TAX1BP1_uc011jzp.1_Missense_Mutation_p.Y126H	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	283	Potential.				anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)			AAAGGAACTTTATAAGGTAAT	0.204													14	88					0	0	0.003163	0	0		C	27825103	C	C	27825103	3	2	116	1	0	0	0	0	1	0	0	0	15619	1754	61	3	869	3	TAX1BP1	7	27825103	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	15145046	27825103	131313560	164	65933											
NOD1	10392	broad.mit.edu	37	chr7	30490931	30490931	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccagccgcttggggaagTgatgcaggacgaaggagagg	10	4	20	7	2	0	2	0	1	0	1	0	6	0	4	2	6	2	2	2	6	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:30490931T>C	uc003tav.2	-	6	2625	c.2102A>G	c.(2101-2103)CAC>CGC	p.H701R		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	701					activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						CTTGGGGAAGTGATGCAGGAC	0.637													8	77					0	0	0.004482	0	0		C	30490931	C	C	30490931	3	2	116	1	0	0	0	0	1	0	0	0	10535	1696	59	3	795	3	NOD1	7	30490931	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	2665828	30490931	128647732	165	65934											
AMPH	273	broad.mit.edu	37	chr7	38534085	38534085	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtcaggctcatagactTcatgcagcgactctgtgagc	10	9	10	12	1	4	2	3	1	1	1	4	3	4	2	1	1	3	2	1	1	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:38534085T>A	uc003tgu.2	-	4	317	c.248A>T	c.(247-249)GAA>GTA	p.E83V	AMPH_uc003tgv.2_Missense_Mutation_p.E83V	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	83	BAR.|Potential.				endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						CTCATAGACTTCATGCAGCGA	0.527													18	120					0	0	0.007413	0	0		A	38534085	A	A	38534085	3	1	116	1	0	0	0	0	1	0	0	0	588	1783	62	5	1911	5	AMPH	7	38534085	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	8043154	38534085	120604578	166	65935											
AUTS2	26053	broad.mit.edu	37	chr7	69364275	69364275	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttcttttctacagaaaGatgtagcacttaagcctcag	11	14	6	10	0	4	2	1	0	3	2	5	2	4	2	1	0	3	2	1	0	4	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:69364275G>T	uc003tvw.3	+	2	1056	c.313G>T	c.(313-315)GAT>TAT	p.D105Y	AUTS2_uc003tvv.3_Missense_Mutation_p.D105Y|AUTS2_uc003tvx.3_Missense_Mutation_p.D105Y	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	105										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		TCTACAGAAAGATGTAGCACT	0.433													9	60					0.00448238	0.00461876	0.004482	1	0		T	69364275	T	T	69364275	3	4	116	1	0	0	0	0	1	0	0	0	1226	942	33	5	319	5	AUTS2	7	69364275	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	30830190	69364275	89774388	167	65936											
HGF	3082	broad.mit.edu	37	chr7	81381461	81381461	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacactgaggaatgtcacaGacttcgtagcgtacctctgg	11	9	11	10	2	2	2	1	1	1	1	3	4	2	3	1	2	3	2	1	2	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:81381461G>T	uc003uhl.2	-	5	765	c.600C>A	c.(598-600)GTC>GTA	p.V200V	HGF_uc003uhm.2_Silent_p.V195V|HGF_uc003uhn.1_Silent_p.V200V|HGF_uc003uho.1_Silent_p.V195V|HGF_uc003uhp.2_Silent_p.V200V	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	200	Kringle 1.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						GAATGTCACAGACTTCGTAGC	0.458													5	70					0.000602214	0.000636019	0.000602	1	0		T	81381461	T	T	81381461	2	4	116	1	0	0	0	0	0	0	0	1	7101	929	33	5		5	HGF	7	81381461	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	12017186	81381461	77757202	168	65937											
CROT	54677	broad.mit.edu	37	chr7	87006686	87006686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttattgcagccatccttattGgagatccaacagtacgctgg	10	12	9	10	1	0	1	0	0	0	1	2	2	2	1	3	2	4	3	3	2	4	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:87006686G>A	uc003uit.2	+	10	1143	c.898G>A	c.(898-900)GGA>AGA	p.G300R	CROT_uc003uiu.2_Missense_Mutation_p.G328R	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	300					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	CATCCTTATTGGAGATCCAAC	0.294													4	45					0	0	0.009096	0	0		A	87006686	A	A	87006686	3	1	116	1	0	0	0	0	1	0	0	0	3897	1349	47	4	1016	4	CROT	7	87006686	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	5625225	87006686	72131977	169	65938											
ZKSCAN5	23660	broad.mit.edu	37	chr7	99123675	99123675	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacagacatcagccctaagCaaagcacacatggcgagaga	16	4	9	12	1	2	2	2	0	0	2	2	4	2	2	1	1	3	2	1	1	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:99123675C>G	uc003uqv.2	+	6	1136	c.1012C>G	c.(1012-1014)CAA>GAA	p.Q338E	ZKSCAN5_uc010lfx.2_Missense_Mutation_p.Q338E|ZKSCAN5_uc003uqw.2_Missense_Mutation_p.Q338E|ZKSCAN5_uc003uqx.2_Missense_Mutation_p.Q265E|ZKSCAN5_uc003uqy.2_Missense_Mutation_p.Q74E	NM_145102	NP_659570	Q9Y2L8	ZKSC5_HUMAN	zinc finger with KRAB and SCAN domains 5	338					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					CAGCCCTAAGCAAAGCACACA	0.512													13	57					0	0	0.001855	0	0		G	99123675	G	G	99123675	3	3	116	1	0	0	0	0	1	0	0	0	17715	711	25	5	1030	5	ZKSCAN5	7	99123675	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	12116989	99123675	60014988	170	65939											
SERPINE1	5054	broad.mit.edu	37	chr7	100771774	100771774	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatcctacgtggcccacCtggcctcagacttcggggtg	5	8	11	17	2	1	1	1	0	0	1	3	1	2	1	6	4	1	0	6	4	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:100771774C>G	uc003uxt.2	+	2	248	c.100C>G	c.(100-102)CTG>GTG	p.L34V	SERPINE1_uc011kkj.1_Intron	NM_000602	NP_000593	P05121	PAI1_HUMAN	plasminogen activator inhibitor-1 isoform 1	34					angiogenesis|cellular response to chemical stimulus|cellular response to lipopolysaccharide|chronological cell aging|defense response to Gram-negative bacterium|fibrinolysis|negative regulation of apoptosis|negative regulation of cell adhesion mediated by integrin|negative regulation of fibrinolysis|negative regulation of plasminogen activation|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell-matrix adhesion|negative regulation of vascular wound healing|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of interleukin-8 production|positive regulation of leukotriene production involved in inflammatory response|positive regulation of monocyte chemotaxis|positive regulation of receptor-mediated endocytosis|regulation of receptor activity	extracellular matrix|extracellular space|plasma membrane|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Lung NSC(181;0.136)|all_lung(186;0.182)				Atorvastatin(DB01076)|Dimethyl sulfoxide(DB01093)|Drotrecogin alfa(DB00055)|Simvastatin(DB00641)|Tenecteplase(DB00031)|Troglitazone(DB00197)|Urokinase(DB00013)	CGTGGCCCACCTGGCCTCAGA	0.627													14	49					0	0	0.00245	0	0		G	100771774	G	G	100771774	3	3	116	1	0	0	0	0	1	0	0	0	14136	680	24	5	102	5	SERPINE1	7	100771774	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1648099	100771774	58366889	171	65940											
PLOD3	8985	broad.mit.edu	37	chr7	100859523	100859523	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cactcgggccagcagaagctCtctgcagagaagagcaggcg	11	4	14	12	2	1	3	0	0	1	3	3	4	1	3	1	2	4	4	1	2	2	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:100859523C>T	uc003uyd.2	-	4	879	c.423G>A	c.(421-423)GAG>GAA	p.E141E	ZNHIT1_uc003uye.2_5'Flank|ZNHIT1_uc003uyf.2_5'Flank	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	141					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	AGCAGAAGCTCTCTGCAGAGA	0.637													10	30					0	0	0.006214	0	0		T	100859523	T	T	100859523	2	4	116	1	0	0	0	0	0	0	0	1	12122	912	32	4		4	PLOD3	7	100859523	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	87749	100859523	58279140	172	65941											
LAMB1	3912	broad.mit.edu	37	chr7	107572669	107572669	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcactcaggacatcttggtCcaagtccatggctttctgcc	7	11	10	13	0	3	0	1	0	2	0	5	1	5	1	3	4	1	2	3	4	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:107572669C>A	uc003vew.2	-	28	4677	c.4342G>T	c.(4342-4344)GAC>TAC	p.D1448Y	LAMB1_uc003vev.2_Missense_Mutation_p.D1472Y|LAMB1_uc003veu.2_5'Flank	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1448	Potential.|Domain I.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACATCTTGGTCCAAGTCCATG	0.517													24	148					5.35047e-06	6.00009e-06	0.00333	1	0		A	107572669	A	A	107572669	3	1	116	1	0	0	0	0	1	0	0	0	8626	855	30	5	1046	5	LAMB1	7	107572669	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	6713146	107572669	51565994	173	65942											
THAP5	168451	broad.mit.edu	37	chr7	108204790	108204790	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaactctagaagagttaTctttgaatgtagcttagaga	13	16	8	4	0	2	4	0	1	2	3	2	5	2	4	0	0	2	3	0	0	7	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:108204790T>G	uc003vfm.2	-	3	1187	c.1033A>C	c.(1033-1035)ATA>CTA	p.I345L	THAP5_uc003vfl.2_Missense_Mutation_p.I303L	NM_001130475	NP_001123947	Q7Z6K1	THAP5_HUMAN	THAP domain containing 5 isoform 1	345					cell cycle|negative regulation of cell cycle	nucleus	DNA binding|metal ion binding|protease binding				0						AGAAGAGTTATCTTTGAATGT	0.363													7	96					0	0	0.004482	0	0		G	108204790	G	G	108204790	3	3	116	1	0	0	0	0	1	0	0	0	15872	1435	50	5	158	5	THAP5	7	108204790	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	632121	108204790	50933873	174	65943											
PAX4	5078	broad.mit.edu	37	chr7	127255565	127255565	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcacaaagagccccccaaGctggttcatgctgctgatcc	10	9	8	14	0	2	2	2	1	0	1	3	2	3	2	4	1	4	4	4	1	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:127255565G>T	uc010lld.1	-	1	216	c.10C>A	c.(10-12)CTT>ATT	p.L4I	PAX4_uc003vmf.2_5'UTR|PAX4_uc003vmg.1_Missense_Mutation_p.L4I|PAX4_uc003vmh.2_5'UTR	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	12	Paired.				cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGCCCCCCAAGCTGGTTCATG	0.632													7	85					8.12818e-05	8.84179e-05	0.001984	1	0		T	127255565	T	T	127255565	3	4	116	1	0	0	0	0	1	0	0	0	11500	971	34	5	1057	5	PAX4	7	127255565	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	19050775	127255565	31883098	175	65944											
LRRC4	64101	broad.mit.edu	37	chr7	127670273	127670273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaggtattcaaaggcccCgctagggatgactgtcagcc	10	7	13	11	1	2	1	2	1	0	0	2	3	2	3	3	4	1	2	3	4	3	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:127670273C>T	uc003vmk.2	-	2	558	c.421G>A	c.(421-423)GGG>AGG	p.G141R	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	141	LRR 3.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		TCAAAGGCCCCGCTAGGGATG	0.602													11	99					0	0	0.008291	0	0		T	127670273	T	T	127670273	3	4	116	1	0	0	0	0	1	0	0	0	9015	652	23	1	1544	1	LRRC4	7	127670273	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	414708	127670273	31468390	176	65945											
MLL3	58508	broad.mit.edu	37	chr7	151875009	151875009	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttcttagctgtggagaaActccagatccctgtatttgc	9	14	8	10	0	2	2	0	0	2	2	4	3	4	2	2	1	3	2	2	1	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:151875009A>G	uc003wla.2	-	38	7748	c.7529T>C	c.(7528-7530)GTT>GCT	p.V2510A	MLL3_uc003wkz.2_Missense_Mutation_p.V1571A|MLL3_uc003wky.2_Missense_Mutation_p.V19A	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2510	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CTGTGGAGAAACTCCAGATCC	0.413			N		medulloblastoma								10	93					0	0	0.010729	0	0		G	151875009	G	G	151875009	3	3	116	1	0	0	0	0	1	0	0	0	9640	43	2	3	7294	3	MLL3	7	151875009	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	24204736	151875009	7263654	177	65946											
MLL3	58508	broad.mit.edu	37	chr7	151945673	151945673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcattagaaatctgtttttCcaattcagtattcactgtat	11	19	4	7	0	4	1	3	0	1	1	5	1	5	1	1	0	0	3	1	0	5	8			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr7:151945673C>T	uc003wla.2	-	14	2065	c.1846G>A	c.(1846-1848)GAA>AAA	p.E616K		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	616					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ATCTGTTTTTCCAATTCAGTA	0.294			N		medulloblastoma								8	43					0	0	0.00308	0	0		T	151945673	T	T	151945673	3	4	116	1	0	0	0	0	1	0	0	0	9640	864	30	4	13073	4	MLL3	7	151945673	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	70664	151945673	7192990	178	65947											
PPP2R2A	5520	broad.mit.edu	37	chr8	26227693	26227693	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ataatttcttcagaatgtttGacagaaacacaaagcgagac	17	10	7	7	1	2	4	1	1	1	3	2	5	2	4	0	0	2	1	0	0	4	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:26227693G>C	uc003xeu.2	+	10	1410	c.1108G>C	c.(1108-1110)GAC>CAC	p.D370H	PPP2R2A_uc003xek.2_Missense_Mutation_p.D371H|PPP2R2A_uc011laf.1_Missense_Mutation_p.D380H	NM_002717	NP_002708	P63151	2ABA_HUMAN	alpha isoform of regulatory subunit B55, protein	370	WD 6.				protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)		CAGAATGTTTGACAGAAACAC	0.418													4	52					0	0	0.000602	0	0		C	26227693	C	C	26227693	3	2	116	1	0	0	0	0	1	0	0	0	12406	1290	45	5	1187	5	PPP2R2A	8	26227693	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08		26227693	120136329	179	65948											
ADRA1A	148	broad.mit.edu	37	chr8	26628134	26628134	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttagatatccgagccaaaaTactattttaaaaactgtttc	15	15	4	7	1	0	1	0	0	0	1	2	2	1	1	2	0	3	1	2	0	9	8			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:26628134T>G	uc003xfh.1	-	2	1369	c.933A>C	c.(931-933)GTA>GTC	p.V311V	ADRA1A_uc003xfc.1_Silent_p.V311V|ADRA1A_uc010lul.1_Intron|ADRA1A_uc003xfd.1_Intron|ADRA1A_uc003xfe.1_Silent_p.V311V|ADRA1A_uc010lum.1_Intron|ADRA1A_uc003xff.1_Intron|ADRA1A_uc003xfg.1_Silent_p.V311V	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	311	Helical; Name=7; (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity	p.V311I(1)		breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	CGAGCCAAAATACTATTTTAA	0.398													11	83					0	0	0.008291	0	0		G	26628134	G	G	26628134	2	3	116	1	0	0	0	0	0	0	0	1	334	1393	49	5		5	ADRA1A	8	26628134	Silent	SNP	T	TCGA-CD-8529-01A-11D-2340-08	400441	26628134	119735888	180	65949											
PRKDC	5591	broad.mit.edu	37	chr8	48852143	48852143	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatatccacggatagcaaTagataactccttgttgttcg	11	13	7	10	2	0	1	0	0	0	1	4	2	3	2	3	1	2	3	3	1	5	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:48852143T>C	uc003xqi.2	-	11	1138	c.1081A>G	c.(1081-1083)ATT>GTT	p.I361V	PRKDC_uc003xqj.2_Missense_Mutation_p.I361V|PRKDC_uc011ldh.1_Missense_Mutation_p.I361V	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	361					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CGGATAGCAATAGATAACTCC	0.343								NHEJ					8	80					0	0	0.006214	0	0		C	48852143	C	C	48852143	3	2	116	1	0	0	0	0	1	0	0	0	12543	1406	49	3	11608	3	PRKDC	8	48852143	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	22224009	48852143	97511879	181	65950											
ASPH	444	broad.mit.edu	37	chr8	62479816	62479816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggctggccacctcttggtagGtctcgatggctccacgtagc	5	10	13	13	2	2	0	0	0	2	0	4	1	3	0	3	5	1	4	3	5	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:62479816G>A	uc003xuj.2	-	17	1480	c.1211C>T	c.(1210-1212)ACC>ATC	p.T404I	ASPH_uc011leg.1_Missense_Mutation_p.T375I|ASPH_uc003xuo.2_Missense_Mutation_p.T385I	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	404	Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	CTCTTGGTAGGTCTCGATGGC	0.502													8	75					0	0	0.00308	0	0		A	62479816	A	A	62479816	3	1	116	1	0	0	0	0	1	0	0	0	1054	1261	44	4	1101	4	ASPH	8	62479816	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	13627673	62479816	83884206	182	65951											
ADHFE1	137872	broad.mit.edu	37	chr8	67356836	67356836	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttttcttgtaggacctaaAaaacatgggtgctaaaaatg	14	12	10	5	0	1	0	0	0	1	0	1	1	1	1	1	3	2	3	1	3	7	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:67356836A>G	uc003xwb.3	+	5	240	c.206A>G	c.(205-207)AAA>AGA	p.K69R	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Missense_Mutation_p.K21R|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_RNA|ADHFE1_uc011les.1_5'UTR|ADHFE1_uc011leq.1_RNA|ADHFE1_uc011ler.1_RNA	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	69					2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			TAGGACCTAAAAAACATGGGT	0.408													36	141					0	0	0.00623	0	0		G	67356836	G	G	67356836	3	3	116	1	0	0	0	0	1	0	0	0	314	14	1	3	224	3	ADHFE1	8	67356836	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	4877020	67356836	79007186	183	65952											
ADHFE1	137872	broad.mit.edu	37	chr8	67361172	67361172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccctccacatgcctgcccGagtggtcgccaacagtggct	7	7	10	17	2	0	0	0	0	0	0	2	1	1	0	5	2	3	1	5	2	1	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:67361172G>A	uc003xwb.3	+	8	735	c.701G>A	c.(700-702)CGA>CAA	p.R234Q	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Missense_Mutation_p.R186Q|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_RNA|ADHFE1_uc011les.1_Missense_Mutation_p.R164Q|ADHFE1_uc011leq.1_RNA|ADHFE1_uc011ler.1_RNA	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	234					2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			ATGCCTGCCCGAGTGGTCGCC	0.498													32	156					0	0	0.013726	0	0		A	67361172	A	A	67361172	3	1	116	1	0	0	0	0	1	0	0	0	314	1058	37	1	731	1	ADHFE1	8	67361172	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	4336	67361172	79002850	184	65953											
PDP1	54704	broad.mit.edu	37	chr8	94934857	94934857	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgggcactgctacccattctCcagtggcacaagcaccccaa	10	6	8	17	1	1	0	0	0	1	0	2	0	1	0	4	2	3	4	4	2	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:94934857C>T	uc003yge.2	+	2	839	c.570C>T	c.(568-570)CTC>CTT	p.L190L	PDP1_uc003ygf.2_Silent_p.L215L|PDP1_uc010max.2_Silent_p.L215L|PDP1_uc011lgm.1_Silent_p.L190L|PDP1_uc011lgn.1_Silent_p.L249L	NM_018444	NP_060914	Q9P0J1	PDP1_HUMAN	pyruvate dehyrogenase phosphatase catalytic	190					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						TACCCATTCTCCAGTGGCACA	0.438													6	92					0	0	0.001168	0	0		T	94934857	T	T	94934857	2	4	116	1	0	0	0	0	0	0	0	1	11704	842	30	4		4	PDP1	8	94934857	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	27573685	94934857	51429165	185	65954											
VPS13B	157680	broad.mit.edu	37	chr8	100026063	100026063	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttaatgagctatgtgaatcGctacatcaagaacttaaagc	15	12	7	7	1	1	3	1	2	0	1	2	3	1	3	0	0	4	2	0	0	8	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:100026063G>C	uc003yiv.2	+	2	158	c.47G>C	c.(46-48)CGC>CCC	p.R16P	VPS13B_uc003yiw.2_Missense_Mutation_p.R16P|VPS13B_uc003yit.2_Missense_Mutation_p.R16P|VPS13B_uc003yiu.1_Missense_Mutation_p.R16P|VPS13B_uc003yis.2_Missense_Mutation_p.R16P|VPS13B_uc011lgy.1_5'UTR	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	16					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TATGTGAATCGCTACATCAAG	0.438													11	182					0	0	0.008291	0	0		C	100026063	C	C	100026063	3	2	116	1	0	0	0	0	1	0	0	0	17216	1087	38	5	49	5	VPS13B	8	100026063	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	5091206	100026063	46337959	186	65955											
RIMS2	9699	broad.mit.edu	37	chr8	104930682	104930682	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcagagatataccgcgaAtacctgatagcacacatgca	15	9	7	10	2	1	2	1	1	0	1	1	4	1	2	2	0	4	2	2	0	5	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:104930682A>T	uc003yls.2	+	7	1625	c.1384A>T	c.(1384-1386)ATA>TTA	p.I462L	RIMS2_uc003ylp.2_Missense_Mutation_p.I684L|RIMS2_uc003ylw.2_Missense_Mutation_p.I492L|RIMS2_uc003ylq.2_Missense_Mutation_p.I492L|RIMS2_uc003ylr.2_Missense_Mutation_p.I539L|RIMS2_uc003ylt.2_Missense_Mutation_p.I85L|RIMS2_uc003ylu.1_Missense_Mutation_p.I75L|RIMS2_uc003ylv.1_Missense_Mutation_p.I75L	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	762					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TATACCGCGAATACCTGATAG	0.294										HNSCC(12;0.0054)			6	37					0	0	0.001984	0	0		T	104930682	T	T	104930682	3	4	116	1	0	0	0	0	1	0	0	0	13393	101	4	5	2210	5	RIMS2	8	104930682	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	4904619	104930682	41433340	187	65956											
ABRA	137735	broad.mit.edu	37	chr8	107781917	107781917	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcccttggttagctcagAcaccaggttggcacattttc	8	11	9	13	0	1	1	1	0	0	1	2	1	1	1	3	3	2	4	3	3	1	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:107781917A>G	uc003ymm.3	-	1	556	c.502T>C	c.(502-504)TCT>CCT	p.S168P		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	168					positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			GTTAGCTCAGACACCAGGTTG	0.577													20	186					0	0	0.007413	0	0		G	107781917	G	G	107781917	3	3	116	1	0	0	0	0	1	0	0	0	100	275	10	3	651	3	ABRA	8	107781917	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	2851235	107781917	38582105	188	65957											
PKHD1L1	93035	broad.mit.edu	37	chr8	110509186	110509186	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagtggtttgacaatgaaGcccatggaggtttatatggg	13	11	13	4	0	0	2	0	2	0	0	0	3	0	3	1	4	1	2	1	4	6	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:110509186G>T	uc003yne.2	+	64	10470	c.10366G>T	c.(10366-10368)GCC>TCC	p.A3456S		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3456	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TGACAATGAAGCCCATGGAGG	0.378										HNSCC(38;0.096)			10	96					1.58986e-06	1.79878e-06	0.008291	1	0		T	110509186	T	T	110509186	3	4	116	1	0	0	0	0	1	0	0	0	11991	971	34	5	10620	5	PKHD1L1	8	110509186	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	2727269	110509186	35854836	189	65958											
CSMD3	114788	broad.mit.edu	37	chr8	113259259	113259259	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatacttacgtatgcattcAggctgaatcccactccacgt	11	12	6	12	2	1	1	1	1	0	0	3	1	3	1	2	1	3	3	2	1	5	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:113259259A>T	uc003ynu.2	-	64	10371	c.10212T>A	c.(10210-10212)CCT>CCA	p.P3404P	CSMD3_uc003yns.2_Silent_p.P2606P|CSMD3_uc003ynt.2_Silent_p.P3364P|CSMD3_uc011lhx.1_Silent_p.P3235P	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3404	Extracellular (Potential).|Sushi 27.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GTATGCATTCAGGCTGAATCC	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			5	57					0	0	0.00308	0	0		T	113259259	T	T	113259259	2	4	116	1	0	0	0	0	0	0	0	1	3949	175	7	5		5	CSMD3	8	113259259	Silent	SNP	A	TCGA-CD-8529-01A-11D-2340-08	2750073	113259259	33104763	190	65959											
CSMD3	114788	broad.mit.edu	37	chr8	113871387	113871387	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttaccttatttgtattcActgctgtgatgacccagaca	9	15	6	11	0	2	3	1	2	1	1	2	3	2	3	2	0	2	2	2	0	3	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:113871387A>C	uc003ynu.2	-	11	1901	c.1742T>G	c.(1741-1743)GTG>GGG	p.V581G	CSMD3_uc003ynt.2_Missense_Mutation_p.V541G|CSMD3_uc011lhx.1_Missense_Mutation_p.V477G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	581	Extracellular (Potential).|CUB 3.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ATTTGTATTCACTGCTGTGAT	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			6	72					0	0	0.001168	0	0		C	113871387	C	C	113871387	3	2	116	1	0	0	0	0	1	0	0	0	3949	159	6	5	9625	5	CSMD3	8	113871387	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	612128	113871387	32492635	191	65960											
SLC30A8	169026	broad.mit.edu	37	chr8	118175718	118175718	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcttttccatcctggtcTtggccagcaccatcactatc	7	14	5	15	0	4	0	2	0	2	0	7	0	6	0	4	2	1	1	4	2	1	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:118175718T>A	uc003yoh.2	+	6	1008	c.778T>A	c.(778-780)TTG>ATG	p.L260M	SLC30A8_uc010mcz.2_Missense_Mutation_p.L211M|SLC30A8_uc011lia.1_Missense_Mutation_p.L211M|SLC30A8_uc003yog.2_Missense_Mutation_p.L211M	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	260	Helical; (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			CATCCTGGTCTTGGCCAGCAC	0.403													6	107					0	0	0.00308	0	0		A	118175718	A	A	118175718	3	1	116	1	0	0	0	0	1	0	0	0	14586	1606	56	5	800	5	SLC30A8	8	118175718	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	4304331	118175718	28188304	192	65961											
FER1L6	654463	broad.mit.edu	37	chr8	125029939	125029939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttagataagaagcgacttaCgctctgctggcaggagctgg	10	10	13	8	2	1	2	0	0	1	2	1	4	1	3	0	3	4	4	0	3	4	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr8:125029939C>T	uc003yqw.2	+	16	2200	c.1994C>T	c.(1993-1995)ACG>ATG	p.T665M	uc003yqx.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	665	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			AAGCGACTTACGCTCTGCTGG	0.378													9	77					0	0	0.004482	0	0		T	125029939	T	T	125029939	3	4	116	1	0	0	0	0	1	0	0	0	5829	536	19	1	2052	1	FER1L6	8	125029939	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	6854221	125029939	21334083	193	65962											
KANK1	23189	broad.mit.edu	37	chr9	712605	712605	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggagtctgtgaacgacctCacactcctcaagacaaactt	13	8	8	12	1	3	2	2	1	1	1	4	5	4	3	2	1	2	0	2	1	3	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:712605C>T	uc003zgl.1	+	7	2488	c.1839C>T	c.(1837-1839)CTC>CTT	p.L613L	KANK1_uc003zgm.2_Silent_p.L613L|KANK1_uc003zgn.1_Silent_p.L613L|KANK1_uc003zgo.1_Silent_p.L613L|KANK1_uc003zgp.1_Silent_p.L613L|KANK1_uc003zgq.2_Silent_p.L455L|KANK1_uc003zgr.1_Silent_p.L455L|KANK1_uc003zgs.1_Silent_p.L455L	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	613					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		TGAACGACCTCACACTCCTCA	0.512													11	73					0	0	0.008291	0	0		T	712605	T	T	712605	2	4	116	1	0	0	0	0	0	0	0	1	7992	813	29	4		4	KANK1	9	712605	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08		712605	140500826	194	65963											
INSL6	11172	broad.mit.edu	37	chr9	5164104	5164104	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttttaattttgtttctacGtttcttctgaaattttgcat	7	23	6	5	1	3	1	0	1	3	0	3	1	3	1	0	1	2	4	0	1	3	10			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:5164104G>T	uc003zix.2	-	2	467	c.451C>A	c.(451-453)CGT>AGT	p.R151S		NM_007179	NP_009110	Q9Y581	INSL6_HUMAN	insulin-like 6 precursor	151						extracellular region	hormone activity				0	all_hematologic(13;0.137)	Breast(48;0.147)|Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0128)|Lung(218;0.145)		TTGTTTCTACGTTTCTTCTGA	0.338													6	66					0.00198382	0.00206512	0.001984	1	0		T	5164104	T	T	5164104	3	4	116	1	0	0	0	0	1	0	0	0	7786	1145	40	5	194	5	INSL6	9	5164104	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	4451499	5164104	136049327	195	65964											
FREM1	158326	broad.mit.edu	37	chr9	14859323	14859323	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggctagccatcctatcAtaatcgaatctgagcagatt	12	11	7	11	1	2	2	1	1	1	1	5	3	4	2	3	1	2	2	3	1	4	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:14859323A>C	uc003zlm.2	-	4	1079	c.489T>G	c.(487-489)TAT>TAG	p.Y163*	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	163					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		CCATCCTATCATAATCGAATC	0.507													11	140					0	0	0.001855	0	0		C	14859323	C	C	14859323	4	2	116	1	0	0	0	0	0	1	0	0	6058	224	8	5	6236	5	FREM1	9	14859323	Nonsense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	9695219	14859323	126354108	196	65965											
KIAA1045	23349	broad.mit.edu	37	chr9	34972446	34972446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatgatggctgcctgcgccGcatgggctacatccaaggag	8	7	13	13	2	0	1	0	1	0	0	1	2	1	2	4	3	3	3	4	3	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:34972446G>A	uc003zvq.2	+	3	660	c.482G>A	c.(481-483)CGC>CAC	p.R161H	KIAA1045_uc003zvr.2_Missense_Mutation_p.R161H	NM_015297	NP_056112	Q9UPV7	K1045_HUMAN	hypothetical protein LOC23349	161	PHD-type.						calcium ion binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00575)			TGCCTGCGCCGCATGGGCTAC	0.577													10	106					0	0	0.008291	0	0		A	34972446	A	A	34972446	3	1	116	1	0	0	0	0	1	0	0	0	8223	1087	38	1	488	1	KIAA1045	9	34972446	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	20113123	34972446	106240985	197	65966											
CD72	971	broad.mit.edu	37	chr9	35612891	35612891	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggccagcttggaagacagaGtttcacattgtttttggctc	8	14	11	8	0	1	2	1	0	0	2	2	3	1	3	1	3	1	4	1	3	1	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:35612891G>T	uc003zxb.2	-	6	912	c.788C>A	c.(787-789)ACT>AAT	p.T263N	CD72_uc003zxc.1_Missense_Mutation_p.T48N|CD72_uc010mkt.1_Missense_Mutation_p.T48N|CD72_uc010mku.2_Missense_Mutation_p.T263N	NM_001782	NP_001773	P21854	CD72_HUMAN	CD72 molecule	263	C-type lectin.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	receptor binding|sugar binding|transmembrane receptor activity				0			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GGAAGACAGAGTTTCACATTG	0.423													15	158					3.27435e-08	3.76328e-08	0.00245	1	0		T	35612891	T	T	35612891	3	4	116	1	0	0	0	0	1	0	0	0	3037	1029	36	5	303	5	CD72	9	35612891	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	640445	35612891	105600540	198	65967											
TLN1	7094	broad.mit.edu	37	chr9	35704345	35704345	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaccggtggtcagcgaaagTttcagtaccctcacgattga	10	11	10	10	3	3	1	3	1	0	0	3	3	3	1	2	2	3	2	2	2	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:35704345T>A	uc003zxt.2	-	45	6385	c.6031A>T	c.(6031-6033)ACT>TCT	p.T2011S		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	2011					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TCAGCGAAAGTTTCAGTACCC	0.587													19	136					0	0	0.007413	0	0		A	35704345	A	A	35704345	3	1	116	1	0	0	0	0	1	0	0	0	15972	1725	60	5	1646	5	TLN1	9	35704345	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	91454	35704345	105509086	199	65968											
SHC3	53358	broad.mit.edu	37	chr9	91628480	91628480	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactgtcaaagactctgtccTttgtccggatctatgaatga	10	14	8	9	1	3	3	1	2	2	1	5	4	5	4	2	1	1	0	2	1	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:91628480T>C	uc004aqg.2	-	12	1974	c.1667A>G	c.(1666-1668)AAG>AGG	p.K556R		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	556	SH2.				central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						GACTCTGTCCTTTGTCCGGAT	0.488													8	86					0	0	0.00308	0	0		C	91628480	C	C	91628480	3	2	116	1	0	0	0	0	1	0	0	0	14297	1609	56	3	121	3	SHC3	9	91628480	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	55924135	91628480	49584951	200	65969											
AUH	549	broad.mit.edu	37	chr9	93983218	93983218	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcgaggactcgcgcagagaAtatgagctccttggccaggg	10	7	14	10	3	0	2	0	1	0	1	3	5	1	3	2	3	1	2	2	3	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:93983218A>G	uc004arf.3	-	7	747	c.712T>C	c.(712-714)TTC>CTC	p.F238L	AUH_uc004arg.3_Missense_Mutation_p.F209L	NM_001698	NP_001689	Q13825	AUHM_HUMAN	AU RNA binding protein/enoyl-Coenzyme A	238					branched chain family amino acid catabolic process|mRNA catabolic process	mitochondrial matrix	enoyl-CoA hydratase activity|methylglutaconyl-CoA hydratase activity|mRNA 3'-UTR binding				0						CGCGCAGAGAATATGAGCTCC	0.557													9	95					0	0	0.008291	0	0		G	93983218	G	G	93983218	3	3	116	1	0	0	0	0	1	0	0	0	1220	101	4	3	323	3	AUH	9	93983218	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	2354738	93983218	47230213	201	65970											
ECM2	1842	broad.mit.edu	37	chr9	95258657	95258657	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcttatgcatgaaaatgtGtaagatggtatttctctaat	13	16	8	4	0	2	2	0	1	2	1	3	3	2	2	0	1	1	3	0	1	6	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:95258657G>C	uc004ash.2	-	10	2105	c.2040C>G	c.(2038-2040)TAC>TAG	p.Y680*	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ECM2_uc004asf.3_Intron|ECM2_uc011lty.1_Nonsense_Mutation_p.Y680*|ECM2_uc004asg.2_Nonsense_Mutation_p.Y658*|ECM2_uc010mqz.1_Nonsense_Mutation_p.Y102*	NM_001393	NP_001384	O94769	ECM2_HUMAN	extracellular matrix protein 2 precursor	680	LRR 13.				cell-matrix adhesion		integrin binding			ovary(1)|skin(1)	2						ATGAAAATGTGTAAGATGGTA	0.303													8	92					0	0	0.00308	0	0		C	95258657	C	C	95258657	4	2	116	1	0	0	0	0	0	1	0	0	4904	1372	48	5	63	5	ECM2	9	95258657	Nonsense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1275439	95258657	45954774	202	65971											
FAM120A	23196	broad.mit.edu	37	chr9	96312912	96312912	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcggcgtcaggagctagatgCcttcctggctcaggcgctgt	5	10	14	12	3	2	1	2	0	0	1	4	2	3	2	2	4	2	3	2	4	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:96312912C>G	uc004atw.2	+	12	2238	c.2213C>G	c.(2212-2214)GCC>GGC	p.A738G	FAM120A_uc004aty.2_Missense_Mutation_p.A519G|FAM120A_uc004atz.2_Missense_Mutation_p.A387G|FAM120A_uc010mrg.2_Missense_Mutation_p.A51G	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	738						cytoplasm|plasma membrane	RNA binding				0						GAGCTAGATGCCTTCCTGGCT	0.557													9	54					0	0	0.004482	0	0		G	96312912	G	G	96312912	3	3	116	1	0	0	0	0	1	0	0	0	5426	739	26	5	2259	5	FAM120A	9	96312912	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1054255	96312912	44900519	203	65972											
GRIN3A	116443	broad.mit.edu	37	chr9	104335715	104335715	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttttgtccttcctcatcaCtaaagatgtatttccgtcgg	7	16	8	10	2	2	1	2	0	0	1	6	1	5	1	3	2	0	2	3	2	3	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:104335715C>G	uc004bbp.1	-	9	3690	c.3089G>C	c.(3088-3090)AGT>ACT	p.S1030T	GRIN3A_uc004bbo.1_Missense_Mutation_p.S105T	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	1030	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	TTCCTCATCACTAAAGATGTA	0.512													7	131					0	0	0.00308	0	0		G	104335715	G	G	104335715	3	3	116	1	0	0	0	0	1	0	0	0	6799	565	20	5	262	5	GRIN3A	9	104335715	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	8022803	104335715	36877716	204	65973											
FKTN	2218	broad.mit.edu	37	chr9	108337325	108337325	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacagactaatgagtagaatCaataagaacgtggttttggc	15	10	10	6	1	1	4	1	1	0	3	1	4	1	4	0	2	1	2	0	2	6	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:108337325C>G	uc004bcr.2	+	3	228	c.12C>G	c.(10-12)ATC>ATG	p.I4M	FKTN_uc011lvx.1_Missense_Mutation_p.I4M|FKTN_uc004bcs.2_Missense_Mutation_p.I4M|FKTN_uc011lvy.1_Missense_Mutation_p.I4M|FKTN_uc010mtm.2_Translation_Start_Site	NM_001079802	NP_001073270	O75072	FKTN_HUMAN	fukutin	4	Cytoplasmic (Potential).				muscle organ development|negative regulation of cell proliferation|negative regulation of JNK cascade|nervous system development|regulation of protein glycosylation	cis-Golgi network|endoplasmic reticulum|extracellular space|Golgi membrane|integral to membrane|nucleus	transferase activity			breast(2)|ovary(1)	3						TGAGTAGAATCAATAAGAACG	0.353													7	84					0	0	0.00308	0	0		G	108337325	G	G	108337325	3	3	116	1	0	0	0	0	1	0	0	0	5933	816	29	5	14	5	FKTN	9	108337325	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	4001610	108337325	32876106	205	65974											
TMEM38B	55151	broad.mit.edu	37	chr9	108484874	108484874	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taaaaggagattggaaaccaGaaggtgatgaatggctgaag	17	7	14	3	0	0	5	0	3	0	2	0	7	0	6	1	4	1	1	1	4	6	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:108484874G>C	uc004bcu.1	+	4	631	c.514G>C	c.(514-516)GAA>CAA	p.E172Q	TMEM38B_uc010mtn.1_Intron	NM_018112	NP_060582	Q9NVV0	TM38B_HUMAN	transmembrane protein 38B	172	Lumenal (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			ovary(1)|skin(1)	2						TTGGAAACCAGAAGGTGATGA	0.323													9	110					0	0	0.010729	0	0		C	108484874	C	C	108484874	3	2	116	1	0	0	0	0	1	0	0	0	16185	943	33	5	528	5	TMEM38B	9	108484874	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	147549	108484874	32728557	206	65975											
LPAR1	1902	broad.mit.edu	37	chr9	113703796	113703796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattctcatagtcctctggCgaacatagccaaagatgtga	13	10	8	10	1	2	2	1	1	2	1	4	3	3	2	2	1	2	0	2	1	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:113703796C>T	uc004bfa.2	-	4	953	c.698G>A	c.(697-699)CGC>CAC	p.R233H	LPAR1_uc011lwm.1_Missense_Mutation_p.R234H|LPAR1_uc004bfb.2_Missense_Mutation_p.R233H|LPAR1_uc004bfc.2_Missense_Mutation_p.R233H|LPAR1_uc011lwn.1_Missense_Mutation_p.R215H|LPAR1_uc011lwo.1_Missense_Mutation_p.R234H|LPAR1_uc010mub.2_Missense_Mutation_p.R233H	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	233	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						AGTCCTCTGGCGAACATAGCC	0.483													19	81					0	0	0.007413	0	0		T	113703796	T	T	113703796	3	4	116	1	0	0	0	0	1	0	0	0	8922	768	27	1	404	1	LPAR1	9	113703796	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	5218922	113703796	27509635	207	65976											
ZNF883	169834	broad.mit.edu	37	chr9	115759828	115759828	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctttccacatgcattacactCatagggtttttctccagtat	9	16	5	11	0	2	0	1	0	1	0	4	0	3	0	2	1	2	3	2	1	3	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:115759828C>G	uc011lwy.1	-	5	1951	c.712G>C	c.(712-714)GAG>CAG	p.E238Q		NM_001101338	NP_001094808	P0CG24	ZN883_HUMAN	hypothetical protein LOC169834	238	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCATTACACTCATAGGGTTTT	0.418													5	61					0	0	0.001984	0	0		G	115759828	G	G	115759828	3	3	116	1	0	0	0	0	1	0	0	0	18223	835	29	5	429	5	ZNF883	9	115759828	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	2056032	115759828	25453603	208	65977											
DFNB31	25861	broad.mit.edu	37	chr9	117266496	117266496	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtgggtcacccgggccaGggatttgtcgttgacgcgca	5	8	16	12	6	1	1	1	1	0	0	2	2	1	2	2	3	0	2	2	3	0	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:117266496G>C	uc004biz.3	-	1	1235	c.586C>G	c.(586-588)CTG>GTG	p.L196V	DFNB31_uc004biy.3_5'Flank|DFNB31_uc004bja.3_Missense_Mutation_p.L196V|DFNB31_uc004bjb.2_Missense_Mutation_p.L196V	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	196	PDZ 1.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						ACCCGGGCCAGGGATTTGTCG	0.443													6	109					0	0	0.001168	0	0		C	117266496	C	C	117266496	3	2	116	1	0	0	0	0	1	0	0	0	4461	991	35	5	2185	5	DFNB31	9	117266496	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1506668	117266496	23946935	209	65978											
OR1L1	26737	broad.mit.edu	37	chr9	125423975	125423975	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgttacagtgttagtttatCtttaggtgaacccacaacta	11	15	7	8	0	1	1	0	1	1	0	1	1	1	1	1	1	3	3	1	1	7	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:125423975C>G	uc011lza.1	+	1	131	c.131C>G	c.(130-132)TCT>TGT	p.S44C		NM_001005236	NP_001005236	Q8NH94	OR1L1_HUMAN	olfactory receptor, family 1, subfamily L,	44	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						GTTAGTTTATCTTTAGGTGAA	0.378													10	72					0	0	0.006214	0	0		G	125423975	G	G	125423975	3	3	116	1	0	0	0	0	1	0	0	0	10982	928	32	5		5	OR1L1	9	125423975	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	8157479	125423975	15789456	210	65979											
RABGAP1	23637	broad.mit.edu	37	chr9	125863928	125863928	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataagctcaaccaaggaggtTttagatgaggacacggatga	15	8	12	6	1	1	3	1	2	0	1	1	6	1	6	1	4	2	2	1	4	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:125863928T>A	uc011lzh.1	+	25	3107	c.2973T>A	c.(2971-2973)GTT>GTA	p.V991V	RABGAP1_uc004bnl.3_RNA|RABGAP1_uc011lzj.1_Silent_p.V330V	NM_012197	NP_036329	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	991	Potential.				cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5						CCAAGGAGGTTTTAGATGAGG	0.478													7	45					0	0	0.001984	0	0		A	125863928	A	A	125863928	2	1	116	1	0	0	0	0	0	0	0	1	12989	1828	64	5		5	RABGAP1	9	125863928	Silent	SNP	T	TCGA-CD-8529-01A-11D-2340-08	439953	125863928	15349503	211	65980											
SPTAN1	6709	broad.mit.edu	37	chr9	131394978	131394978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgagttcgaggcaatcctgGacacggtggatccgaacagg	10	7	14	10	3	0	1	0	1	0	0	3	5	2	3	2	5	1	2	2	5	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:131394978G>A	uc004bvl.3	+	54	7239	c.7126G>A	c.(7126-7128)GAC>AAC	p.D2376N	SPTAN1_uc004bvm.3_Missense_Mutation_p.D2381N|SPTAN1_uc004bvn.3_Missense_Mutation_p.D2356N|SPTAN1_uc004bvo.3_Missense_Mutation_p.D143N|SPTAN1_uc004bvp.3_Missense_Mutation_p.D119N	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	2376	EF-hand 2.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						GGCAATCCTGGACACGGTGGA	0.597													7	64					0	0	0.001984	0	0		A	131394978	A	A	131394978	3	1	116	1	0	0	0	0	1	0	0	0	15142	1174	41	4	7355	4	SPTAN1	9	131394978	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	5531050	131394978	9818453	212	65981											
DOLK	22845	broad.mit.edu	37	chr9	131708695	131708695	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	taggctaggaggtagatgcgGgtgtctgtctggaagagaaa	11	9	17	4	1	2	2	0	0	2	2	2	5	2	4	0	5	1	2	0	5	5	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:131708695G>A	uc004bwr.2	-	1	1318	c.888C>T	c.(886-888)ACC>ACT	p.T296T	NUP188_uc004bws.1_5'Flank|NUP188_uc004bwq.1_Intron	NM_014908	NP_055723	Q9UPQ8	DOLK_HUMAN	dolichol kinase	296	Lumenal (Potential).				dolichyl diphosphate biosynthetic process|dolichyl monophosphate biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to endoplasmic reticulum membrane|membrane fraction	dolichol kinase activity				0						GGTAGATGCGGGTGTCTGTCT	0.587													13	134					0	0	0.001855	0	0		A	131708695	A	A	131708695	2	1	116	1	0	0	0	0	0	0	0	1	4709	1219	43	4		4	DOLK	9	131708695	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	313717	131708695	9504736	213	65982											
BRD3	8019	broad.mit.edu	37	chr9	136910450	136910450	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggccacaacctcgtggtCtgggggattgtatttgtagc	7	12	13	9	1	1	0	0	0	1	0	2	1	1	1	2	4	2	2	2	4	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:136910450C>A	uc004cew.2	-	7	1368	c.1180G>T	c.(1180-1182)GAC>TAC	p.D394Y	BRD3_uc004cex.2_Missense_Mutation_p.D394Y	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	394	Bromo 2.					nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		ACCTCGTGGTCTGGGGGATTG	0.602			T	NUT|C15orf55	lethal midline carcinoma of young people								16	89					0.000308642	0.0003287	0.003163	1	0		A	136910450	A	A	136910450	3	1	116	1	0	0	0	0	1	0	0	0	1506	913	32	5	1024	5	BRD3	9	136910450	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	5201755	136910450	4302981	214	65983											
CACNA1B	774	broad.mit.edu	37	chr9	141015241	141015241	+	Frame_Shift_Del	DEL	T	-	-																															gcttctactcctgcgaccgcTttgggggccgtgagcccccg																										TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr9:141015241delT	uc004cog.2	+	45	6542	c.6397delT	c.(6397-6399)TTTfs	p.F2133fs	CACNA1B_uc004coi.2_Frame_Shift_Del_p.F1345fs	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	2133	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	CTGCGACCGCTTTGGGGGCCG	0.706													2	4	---	---	---	---						.	-	141015241	-	-	141015241	7	5	116	1	0	1	0	1	0	0	0	0	2542	1609	56	0	6575	0	CACNA1B	9	141015241	Frame_Shift_Del	DEL	T	TCGA-CD-8529-01A-11D-2340-08	4104791	141015241	198190	215	65984											
OPTN	10133	broad.mit.edu	37	chr10	13154606	13154606	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgaactccagcggctcctcaGaagattcctttgttgaaatt	10	13	8	10	1	1	4	1	2	0	2	4	4	4	4	3	1	2	2	3	1	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:13154606G>C	uc001ilu.1	+	6	961	c.523G>C	c.(523-525)GAA>CAA	p.E175Q	OPTN_uc001ilv.1_Missense_Mutation_p.E175Q|OPTN_uc001ilw.1_Missense_Mutation_p.E175Q|OPTN_uc001ilx.1_Missense_Mutation_p.E175Q|OPTN_uc001ily.1_Missense_Mutation_p.E175Q|OPTN_uc010qbr.1_Missense_Mutation_p.E118Q|OPTN_uc001ilz.1_Missense_Mutation_p.E175Q	NM_001008213	NP_001008214	Q96CV9	OPTN_HUMAN	optineurin	175	Interaction with Rab8.				cell death|Golgi ribbon formation|Golgi to plasma membrane protein transport|protein targeting to Golgi|signal transduction	perinuclear region of cytoplasm|trans-Golgi network	protein C-terminus binding			ovary(2)	2						CGGCTCCTCAGAAGATTCCTT	0.468													8	97					0	0	0.004482	0	0		C	13154606	C	C	13154606	3	2	116	1	0	0	0	0	1	0	0	0	10908	943	33	5	533	5	OPTN	10	13154606	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08		13154606	122380141	216	65985											
PTER	9317	broad.mit.edu	37	chr10	16553049	16553049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaacatttttcacagggtgCgtctcctggtggaagagggc	8	12	13	8	1	2	1	1	0	1	1	3	2	2	2	1	4	2	0	1	4	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:16553049C>T	uc001iog.1	+	6	1051	c.844C>T	c.(844-846)CGT>TGT	p.R282C	PTER_uc001ioh.1_Missense_Mutation_p.R282C|PTER_uc001ioi.1_Missense_Mutation_p.R282C|PTER_uc009xjp.1_Missense_Mutation_p.R235C	NM_030664	NP_109589	Q96BW5	PTER_HUMAN	phosphotriesterase related	282					catabolic process		hydrolase activity, acting on ester bonds|zinc ion binding			ovary(2)	2						TCACAGGGTGCGTCTCCTGGT	0.413													5	16					0	0	0.000602	0	0		T	16553049	T	T	16553049	3	4	116	1	0	0	0	0	1	0	0	0	12761	768	27	1	858	1	PTER	10	16553049	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	3398443	16553049	118981698	217	65986											
VIM	7431	broad.mit.edu	37	chr10	17277193	17277193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccctggaacgccagatgcGtgaaatggaagagaactttg	12	8	13	8	2	0	3	0	1	0	2	1	6	1	5	2	2	3	0	2	2	4	1	rs116370722	by1000genomes	TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:17277193G>A	uc001iou.2	+	7	1447	c.1034G>A	c.(1033-1035)CGT>CAT	p.R345H	VIM_uc001iov.1_Missense_Mutation_p.R345H|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.R345H|VIM_uc001ioy.1_Intron|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.R303H|VIM_uc001ipc.1_Missense_Mutation_p.R345H	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	345	Rod.|Coil 2.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						CGCCAGATGCGTGAAATGGAA	0.478													8	58					0	0	0.004482	0	0		A	17277193	A	A	17277193	3	1	116	1	0	0	0	0	1	0	0	0	17192	1145	40	1	1056	1	VIM	10	17277193	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	724144	17277193	118257554	218	65987											
ARHGAP21	57584	broad.mit.edu	37	chr10	24874802	24874802	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgctgttttctttggcaatGatgatcttctgttttctgcc	4	20	9	8	0	4	2	0	2	4	0	4	2	4	2	1	1	2	4	1	1	1	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:24874802G>A	uc001isb.2	-	26	4903	c.4416C>T	c.(4414-4416)ATC>ATT	p.I1472I	ARHGAP21_uc010qdb.1_RNA	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	1471					signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						CTTTGGCAATGATGATCTTCT	0.398													24	175					0	0	0.00278	0	0		A	24874802	A	A	24874802	2	1	116	1	0	0	0	0	0	0	0	1	871	1280	45	4		4	ARHGAP21	10	24874802	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	7597609	24874802	110659945	219	65988											
GDF10	2662	broad.mit.edu	37	chr10	48438481	48438481	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagagcctgtgcatgtggAcagcgaccatgtcctgggcg	8	8	14	11	2	0	1	0	0	0	1	1	3	1	2	3	2	3	1	3	2	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:48438481A>G	uc001jfb.2	-	1	686	c.230T>C	c.(229-231)GTC>GCC	p.V77A	GDF10_uc009xnp.2_Missense_Mutation_p.V77A|GDF10_uc009xnq.1_Missense_Mutation_p.V77A	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	77					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						GTGCATGTGGACAGCGACCAT	0.721													4	2					0	0	0.000602	0	0		G	48438481	G	G	48438481	3	3	116	1	0	0	0	0	1	0	0	0	6326	275	10	3	1218	3	GDF10	10	48438481	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	23563679	48438481	87096266	220	65989											
CHAT	1103	broad.mit.edu	37	chr10	50872977	50872977	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaagtttgcaaaagctgTggaagaaagcctcattgaca	15	9	10	7	0	1	2	1	1	0	1	1	3	1	3	1	1	4	4	1	1	6	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:50872977T>C	uc001jhz.2	+	15	2285	c.2132T>C	c.(2131-2133)GTG>GCG	p.V711A	CHAT_uc001jhv.1_Missense_Mutation_p.V593A|CHAT_uc001jhx.1_Missense_Mutation_p.V593A|CHAT_uc001jhy.1_Missense_Mutation_p.V593A|CHAT_uc001jia.2_Missense_Mutation_p.V593A|CHAT_uc010qgs.1_Intron	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	711					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	GCAAAAGCTGTGGAAGAAAGC	0.512													20	166					0	0	0.007413	0	0		C	50872977	C	C	50872977	3	2	116	1	0	0	0	0	1	0	0	0	3316	1696	59	3	2234	3	CHAT	10	50872977	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	2434496	50872977	84661770	221	65990											
PCDH15	65217	broad.mit.edu	37	chr10	55955580	55955580	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaaatatggactttgatTgttttcatccagtatttcaa	12	18	6	5	0	2	1	2	1	0	0	3	2	3	2	1	1	0	3	1	1	5	8			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:55955580T>A	uc001jju.1	-	11	1563	c.1168A>T	c.(1168-1170)AAT>TAT	p.N390Y	PCDH15_uc010qhq.1_Missense_Mutation_p.N395Y|PCDH15_uc010qhr.1_Missense_Mutation_p.N390Y|PCDH15_uc010qhs.1_Missense_Mutation_p.N395Y|PCDH15_uc010qht.1_Missense_Mutation_p.N390Y|PCDH15_uc010qhu.1_Missense_Mutation_p.N390Y|PCDH15_uc001jjv.1_Missense_Mutation_p.N368Y|PCDH15_uc010qhv.1_Missense_Mutation_p.N390Y|PCDH15_uc010qhw.1_Missense_Mutation_p.N353Y|PCDH15_uc010qhx.1_Missense_Mutation_p.N390Y|PCDH15_uc010qhy.1_Missense_Mutation_p.N395Y|PCDH15_uc010qhz.1_Missense_Mutation_p.N390Y|PCDH15_uc010qia.1_Missense_Mutation_p.N368Y|PCDH15_uc010qib.1_Missense_Mutation_p.N368Y|PCDH15_uc001jjw.2_Missense_Mutation_p.N390Y	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	390	Cadherin 3.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GGACTTTGATTGTTTTCATCC	0.398										HNSCC(58;0.16)			9	64					0	0	0.006214	0	0		A	55955580	A	A	55955580	3	1	116	1	0	0	0	0	1	0	0	0	11530	1812	63	5	6435	5	PCDH15	10	55955580	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	5082603	55955580	79579167	222	65991											
TMEM26	219623	broad.mit.edu	37	chr10	63170177	63170177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgccagtcccgctgagagGgcccactctcagaggtctgt	6	9	12	14	1	3	2	1	1	3	2	5	3	4	2	3	2	1	1	3	2	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:63170177G>A	uc001jlo.2	-	6	1379	c.1010C>T	c.(1009-1011)CCC>CTC	p.P337L	TMEM26_uc010qij.1_RNA|TMEM26_uc001jlp.1_RNA	NM_178505	NP_848600	Q6ZUK4	TMM26_HUMAN	transmembrane protein 26	337						integral to membrane					0	Prostate(12;0.0112)					CCGCTGAGAGGGCCCACTCTC	0.592													5	74					0	0	0.001168	0	0		A	63170177	A	A	63170177	3	1	116	1	0	0	0	0	1	0	0	0	16176	1232	43	4	100	4	TMEM26	10	63170177	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	7214597	63170177	72364570	223	65992											
CCAR1	55749	broad.mit.edu	37	chr10	70507010	70507010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttaaatggaatgcacagaGaattcaaacactaccaaatc	18	10	5	8	0	1	1	1	0	0	1	2	3	1	2	1	1	3	1	1	1	7	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:70507010G>A	uc001joo.2	+	7	730	c.611G>A	c.(610-612)AGA>AAA	p.R204K	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Missense_Mutation_p.R9K|CCAR1_uc009xpx.1_Missense_Mutation_p.R178K|CCAR1_uc001jon.1_Missense_Mutation_p.R150K|CCAR1_uc010qiz.1_Missense_Mutation_p.R189K|CCAR1_uc010qja.1_Missense_Mutation_p.R189K|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	204					apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						AATGCACAGAGAATTCAAACA	0.338													5	59					0	0	0.000602	0	0		A	70507010	A	A	70507010	3	1	116	1	0	0	0	0	1	0	0	0	2733	942	33	4	633	4	CCAR1	10	70507010	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	7336833	70507010	65027737	224	65993											
OPN4	94233	broad.mit.edu	37	chr10	88419067	88419067	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccaggcgcctacgtgccCgaggggttgctgacatcctg	5	8	13	15	3	0	1	0	1	0	0	2	2	2	1	4	3	3	2	4	3	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:88419067C>T	uc001kdq.2	+	5	869	c.642C>T	c.(640-642)CCC>CCT	p.P214P	OPN4_uc001kdp.2_Silent_p.P225P|OPN4_uc010qmk.1_Silent_p.P225P|OPN4_uc009xsx.1_5'Flank	NM_033282	NP_150598	Q9UHM6	OPN4_HUMAN	opsin 4 isoform 1	214	Extracellular (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|rhythmic process|visual perception	integral to membrane|plasma membrane	11-cis retinal binding|G-protein coupled photoreceptor activity			ovary(1)	1						CCTACGTGCCCGAGGGGTTGC	0.622													5	60					0	0	0.001168	0	0		T	88419067	T	T	88419067	2	4	116	1	0	0	0	0	0	0	0	1	10901	639	23	1		1	OPN4	10	88419067	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	17912057	88419067	47115680	225	65994											
TM9SF3	56889	broad.mit.edu	37	chr10	98325076	98325076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttaccccatattggtaaatCatctatgtacatctggtacc	11	14	5	11	0	3	0	1	0	2	0	3	0	3	0	3	2	3	3	3	2	7	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:98325076C>T	uc001kmm.3	-	3	623	c.406G>A	c.(406-408)GAT>AAT	p.D136N	TM9SF3_uc010qot.1_Missense_Mutation_p.D136N	NM_020123	NP_064508	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3 precursor	136						integral to membrane	binding				0		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		ATTGGTAAATCATCTATGTAC	0.308													16	134					0	0	0.006122	0	0		T	98325076	T	T	98325076	3	4	116	1	0	0	0	0	1	0	0	0	16004	826	29	4	1415	4	TM9SF3	10	98325076	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	9906009	98325076	37209671	226	65995											
PKD2L1	9033	broad.mit.edu	37	chr10	102056924	102056924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgactgtgcggatttgccagGatgggatggcacctcctgta	7	11	14	9	1	0	1	0	1	0	0	1	4	1	4	3	4	2	2	3	4	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:102056924G>A	uc001kqx.1	-	6	1381	c.998C>T	c.(997-999)TCC>TTC	p.S333F	PKD2L1_uc009xwm.1_Missense_Mutation_p.S286F	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	333	Helical; (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		GATTTGCCAGGATGGGATGGC	0.557													8	86					0	0	0.00308	0	0		A	102056924	A	A	102056924	3	1	116	1	0	0	0	0	1	0	0	0	11986	1174	41	4	1463	4	PKD2L1	10	102056924	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	3731848	102056924	33477823	227	65996											
SEMA4G	57715	broad.mit.edu	37	chr10	102739929	102739929	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaattcatcccaagacttGccatccctggtcctggactt	9	12	6	14	0	1	1	1	0	0	1	4	2	4	2	4	2	2	0	4	2	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:102739929G>A	uc010qpt.1	+	11	1622	c.1179G>A	c.(1177-1179)TTG>TTA	p.L393L	SEMA4G_uc001krv.2_RNA|SEMA4G_uc001krw.1_Silent_p.L393L|SEMA4G_uc001krx.2_Silent_p.L393L|MRPL43_uc001kry.1_Intron|MRPL43_uc010qpu.1_Intron	NM_017893	NP_060363	Q9NTN9	SEM4G_HUMAN	semaphorin 4G	393	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3.71e-09)|all cancers(201;2.1e-07)		CCCAAGACTTGCCATCCCTGG	0.587													6	48					0	0	0.001984	0	0		A	102739929	A	A	102739929	2	1	116	1	0	0	0	0	0	0	0	1	14061	1310	46	2		2	SEMA4G	10	102739929	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	683005	102739929	32794818	228	65997											
ADRA2A	150	broad.mit.edu	37	chr10	112838907	112838907	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggcggcagaaccgcgagAagcgcttcacgttcgtgctg	7	6	16	12	7	1	2	1	0	0	2	2	3	1	2	1	2	3	4	1	2	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:112838907A>C	uc001kzo.2	+	1	2118	c.1153A>C	c.(1153-1155)AAG>CAG	p.K385Q		NM_000681	NP_000672	P08913	ADA2A_HUMAN	alpha-2A-adrenergic receptor	370	Cytoplasmic (By similarity).				actin cytoskeleton organization|activation of MAPK activity by adrenergic receptor signaling pathway|activation of phospholipase C activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cellular component movement|cellular response to hormone stimulus|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|glucose homeostasis|inhibition of adenylate cyclase activity by adrenergic receptor signaling pathway|intestinal absorption|negative regulation of adrenergic receptor signaling pathway|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cAMP biosynthetic process|negative regulation of epinephrine secretion|negative regulation of insulin secretion involved in cellular response to glucose stimulus|negative regulation of lipid catabolic process|negative regulation of norepinephrine secretion|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cytokine production|positive regulation of membrane protein ectodomain proteolysis|positive regulation of potassium ion transport|positive regulation of wound healing|Rho protein signal transduction	basolateral plasma membrane|cytoplasm|integral to plasma membrane|receptor complex	alpha-1B adrenergic receptor binding|alpha-2C adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|heterotrimeric G-protein binding|norepinephrine binding|protein heterodimerization activity|protein homodimerization activity|protein kinase binding|thioesterase binding				0		Breast(234;0.0735)|Lung NSC(174;0.238)		Epithelial(162;0.000316)|all cancers(201;0.00501)|BRCA - Breast invasive adenocarcinoma(275;0.118)	Amitriptyline(DB00321)|Amphetamine(DB00182)|Apraclonidine(DB00964)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Brimonidine(DB00484)|Clonidine(DB00575)|Debrisoquin(DB04840)|Dexmedetomidine(DB00633)|Dipivefrin(DB00449)|Epinastine(DB00751)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanabenz(DB00629)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Lofexidine(DB04948)|Methyldopa(DB00968)|Mianserin(DB06148)|Mirtazapine(DB00370)|Norepinephrine(DB00368)|Oxymetazoline(DB00935)|Phentolamine(DB00692)|Phenylpropanolamine(DB00397)|Pseudoephedrine(DB00852)|Tizanidine(DB00697)|Trazodone(DB00656)|Yohimbine(DB01392)	GAACCGCGAGAAGCGCTTCAC	0.667													6	58					0	0	0.001168	0	0		C	112838907	C	C	112838907	3	2	116	1	0	0	0	0	1	0	0	0	337	247	9	5	1155	5	ADRA2A	10	112838907	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	10098978	112838907	22695840	229	65998											
TCF7L2	6934	broad.mit.edu	37	chr10	114799863	114799863	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccctcaaggatgcccggtCcccatcaccggcacacattg	9	6	9	17	2	2	0	2	0	0	0	3	1	3	1	5	3	2	1	5	3	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:114799863C>A	uc001lae.3	+	5	1037	c.530C>A	c.(529-531)TCC>TAC	p.S177Y	TCF7L2_uc001lac.3_Missense_Mutation_p.S154Y|TCF7L2_uc010qrk.1_Missense_Mutation_p.S154Y|TCF7L2_uc010qrl.1_Missense_Mutation_p.S154Y|TCF7L2_uc010qrm.1_Missense_Mutation_p.S177Y|TCF7L2_uc010qrn.1_Intron|TCF7L2_uc001lad.3_Missense_Mutation_p.S154Y|TCF7L2_uc001lag.3_Missense_Mutation_p.S154Y|TCF7L2_uc001laf.3_Missense_Mutation_p.S154Y|TCF7L2_uc010qro.1_Missense_Mutation_p.S154Y|TCF7L2_uc001lah.2_Missense_Mutation_p.S154Y|TCF7L2_uc010qrp.1_Missense_Mutation_p.S154Y|TCF7L2_uc010qrq.1_Missense_Mutation_p.S154Y|TCF7L2_uc010qrr.1_Missense_Mutation_p.S48Y|TCF7L2_uc010qrs.1_Missense_Mutation_p.S48Y|TCF7L2_uc010qrt.1_Missense_Mutation_p.S48Y|TCF7L2_uc010qru.1_Missense_Mutation_p.S24Y	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	177					anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		GATGCCCGGTCCCCATCACCG	0.498													14	47					4.14922e-12	4.93631e-12	0.004007	1	0		A	114799863	A	A	114799863	3	1	116	1	0	0	0	0	1	0	0	0	15723	855	30	5	548	5	TCF7L2	10	114799863	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1960956	114799863	20734884	230	65999											
GFRA1	2674	broad.mit.edu	37	chr10	117884837	117884837	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctgtcgcctccgctctGtgcaggcgatgtcccggcag	3	10	14	14	4	2	0	0	0	2	0	5	1	4	0	3	3	1	3	3	3	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:117884837G>T	uc001lcj.2	-	6	1363	c.665C>A	c.(664-666)ACA>AAA	p.T222K	GFRA1_uc001lci.2_Missense_Mutation_p.T217K|GFRA1_uc009xyr.2_Missense_Mutation_p.T217K	NM_005264	NP_005255	P56159	GFRA1_HUMAN	GDNF family receptor alpha 1 isoform a	222	2.				axon guidance	anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity	p.Q222P(1)		ovary(1)|pancreas(1)	2		Lung NSC(174;0.21)		all cancers(201;0.0337)		CCTCCGCTCTGTGCAGGCGAT	0.577													18	42					4.75885e-15	5.72866e-15	0.00499	1	0		T	117884837	T	T	117884837	3	4	116	1	0	0	0	0	1	0	0	0	6362	1377	48	5	756	5	GFRA1	10	117884837	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	3084974	117884837	17649910	231	66000											
BTBD16	118663	broad.mit.edu	37	chr10	124036316	124036316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccaagcagcacaaagctcGgctggaacgccgggtcactg	11	5	12	13	3	1	0	1	0	0	0	2	1	1	1	2	3	5	4	2	3	4	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:124036316G>A	uc001lgc.1	+	3	280	c.29G>A	c.(28-30)CGG>CAG	p.R10Q	BTBD16_uc001lgd.1_Missense_Mutation_p.R9Q	NM_144587	NP_653188	Q32M84	BTBDG_HUMAN	BTB (POZ) domain containing 16	10										skin(1)	1		all_neural(114;0.107)|Lung NSC(174;0.175)|all_lung(145;0.222)|Breast(234;0.238)				CACAAAGCTCGGCTGGAACGC	0.473													8	73					0	0	0.00308	0	0		A	124036316	A	A	124036316	3	1	116	1	0	0	0	0	1	0	0	0	1544	1116	39	1	35	1	BTBD16	10	124036316	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	6151479	124036316	11498431	232	66001											
C10orf137	26098	broad.mit.edu	37	chr10	127418920	127418920	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggttggacaacttgatatgCaatgtgccagagcttgtgat	10	13	12	6	0	0	3	0	2	0	1	0	4	0	4	1	2	4	3	1	2	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr10:127418920C>T	uc001liq.1	+	9	1373	c.1080C>T	c.(1078-1080)TGC>TGT	p.C360C	C10orf137_uc001lin.2_Silent_p.C326C|C10orf137_uc001lio.1_Silent_p.C326C|C10orf137_uc001lip.1_Silent_p.C64C	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	360					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				ACTTGATATGCAATGTGCCAG	0.328													11	118					0	0	0.001855	0	0		T	127418920	T	T	127418920	2	4	116	1	0	0	0	0	0	0	0	1	1597	718	25	2		2	C10orf137	10	127418920	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	3382604	127418920	8115827	233	66002											
RRM1	6240	broad.mit.edu	37	chr11	4156468	4156468	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagcctaactatggcaaaCtcactagtatgcacttctac	12	11	6	12	0	2	1	1	1	1	0	2	1	2	1	1	1	5	3	1	1	6	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:4156468C>G	uc001lyw.3	+	18	2477	c.2158C>G	c.(2158-2160)CTC>GTC	p.L720V	RRM1_uc009yej.2_RNA|RRM1_uc009yei.2_Missense_Mutation_p.L680V|RRM1_uc010qyc.1_Missense_Mutation_p.L623V|RRM1_uc010qyd.1_Missense_Mutation_p.L382V	NM_001033	NP_001024	P23921	RIR1_HUMAN	ribonucleoside-diphosphate reductase M1 chain	720					deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion	cytosol|nucleoplasm|ribonucleoside-diphosphate reductase complex	ATP binding|ribonucleoside-diphosphate reductase activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00502)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0848)|LUSC - Lung squamous cell carcinoma(625;0.205)	Clofarabine(DB00631)|Fludarabine(DB01073)|Gemcitabine(DB00441)|Hydroxyurea(DB01005)	CTATGGCAAACTCACTAGTAT	0.413													6	54					0	0	0.001984	0	0		G	4156468	G	G	4156468	3	3	116	1	0	0	0	0	1	0	0	0	13706	565	20	5	2228	5	RRM1	11	4156468	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08		4156468	130850048	234	66003											
OR56B1	387748	broad.mit.edu	37	chr11	5757906	5757906	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttgctgcaaacaccctcAtcctcatcatcatctggcag	10	10	5	16	0	5	0	4	0	1	0	6	0	6	0	2	1	3	3	2	1	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:5757906A>T	uc001mbt.1	+	1	160	c.160A>T	c.(160-162)ATC>TTC	p.I54F	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|OR56B1_uc001mbs.1_Missense_Mutation_p.I54F|OR56B1_uc009yev.1_Missense_Mutation_p.I54F	NM_001005180	NP_001005180	Q8NGI3	O56B1_HUMAN	olfactory receptor, family 56, subfamily B,	54	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.086)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.184)		AAACACCCTCATCCTCATCAT	0.507													4	54					0	0	0.000602	0	0		T	5757906	T	T	5757906	3	4	116	1	0	0	0	0	1	0	0	0	11156	217	8	5	162	5	OR56B1	11	5757906	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	1601438	5757906	129248610	235	66004											
NLRP14	338323	broad.mit.edu	37	chr11	7060959	7060959	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcagggtcggcccagactAtaggaccagatgatgccaag	11	7	13	10	1	0	3	0	1	0	2	1	4	0	4	3	3	2	1	3	3	3	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:7060959A>C	uc001mfb.1	+	3	627	c.304A>C	c.(304-306)ATA>CTA	p.I102L		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	102					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		GGCCCAGACTATAGGACCAGA	0.473													11	117					0	0	0.010729	0	0		C	7060959	C	C	7060959	3	2	116	1	0	0	0	0	1	0	0	0	10495	449	16	5	310	5	NLRP14	11	7060959	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	1303053	7060959	127945557	236	66005											
NLRP14	338323	broad.mit.edu	37	chr11	7064426	7064426	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagggtggtgatgtcaCattgacctgccaaacaacca	13	7	12	9	0	1	3	1	2	0	1	1	4	1	3	3	3	3	0	3	3	3	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:7064426C>A	uc001mfb.1	+	4	1492	c.1169C>A	c.(1168-1170)ACA>AAA	p.T390K		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	390	NACHT.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		GGTGATGTCACATTGACCTGC	0.493													13	161					1.05317e-09	1.22991e-09	0.00245	1	0		A	7064426	A	A	7064426	3	1	116	1	0	0	0	0	1	0	0	0	10495	478	17	5	1179	5	NLRP14	11	7064426	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	3467	7064426	127942090	237	66006											
SBF2	81846	broad.mit.edu	37	chr11	9878123	9878123	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatgaggtttgcaaagtGaatggcctgactaaagacag	14	8	11	8	0	0	4	0	3	0	1	0	4	0	4	2	2	1	2	2	2	4	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:9878123G>T	uc001mib.2	-	19	2383	c.2245C>A	c.(2245-2247)CAC>AAC	p.H749N	SBF2_uc001mif.3_Missense_Mutation_p.H505N|uc001mig.2_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	749					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		TTTGCAAAGTGAATGGCCTGA	0.507													13	175					5.50884e-06	6.15053e-06	0.013537	1	0		T	9878123	T	T	9878123	3	4	116	1	0	0	0	0	1	0	0	0	13884	1290	45	5	3392	5	SBF2	11	9878123	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	2813697	9878123	125128393	238	66007											
SBF2	81846	broad.mit.edu	37	chr11	10024150	10024150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccagggctctacaagcatCactaagtctctggaaacttg	11	11	8	11	0	3	0	1	0	2	0	5	1	4	1	1	2	3	2	1	2	4	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:10024150C>T	uc001mib.2	-	7	844	c.706G>A	c.(706-708)GAT>AAT	p.D236N	SBF2_uc001mif.3_5'UTR	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	236	DENN.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		CTACAAGCATCACTAAGTCTC	0.348													6	55					0	0	0.001984	0	0		T	10024150	T	T	10024150	3	4	116	1	0	0	0	0	1	0	0	0	13884	826	29	4	4979	4	SBF2	11	10024150	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	146027	10024150	124982366	239	66008											
AMPD3	272	broad.mit.edu	37	chr11	10506555	10506555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacacggtggacatgagcCacatcctggctctcatcacc	9	8	8	16	1	2	1	2	1	1	0	4	2	3	2	4	3	2	1	4	3	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:10506555C>T	uc001mio.1	+	5	1113	c.778C>T	c.(778-780)CAC>TAC	p.H260Y	AMPD3_uc010rbz.1_Missense_Mutation_p.H101Y|AMPD3_uc001min.1_Missense_Mutation_p.H269Y|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfx.1_Missense_Mutation_p.H260Y|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.H267Y|AMPD3_uc009yfy.2_Missense_Mutation_p.H260Y	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	260					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		GGACATGAGCCACATCCTGGC	0.567													4	39					0	0	0.000602	0	0		T	10506555	T	T	10506555	3	4	116	1	0	0	0	0	1	0	0	0	587	594	21	4	843	4	AMPD3	11	10506555	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	482405	10506555	124499961	240	66009											
SPTY2D1	144108	broad.mit.edu	37	chr11	18636837	18636837	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttctgagtcctgctagcAgaagtctttgggacacttgg	8	13	12	8	0	2	2	0	1	2	1	3	4	3	3	1	2	2	2	1	2	2	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:18636837A>T	uc001moy.2	-	3	1200	c.984T>A	c.(982-984)TCT>TCA	p.S328S	SPTY2D1_uc010rdi.1_Silent_p.S328S	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	328	Ser-rich.									breast(1)	1						TCCTGCTAGCAGAAGTCTTTG	0.517													18	202					0	0	0.00499	0	0		T	18636837	T	T	18636837	2	4	116	1	0	0	0	0	0	0	0	1	15151	175	7	5		5	SPTY2D1	11	18636837	Silent	SNP	A	TCGA-CD-8529-01A-11D-2340-08	8130282	18636837	116369679	241	66010											
IGSF22	283284	broad.mit.edu	37	chr11	18738373	18738373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttaatcttaagcgtgtgcGtcagaccatcttcggacacc	9	11	8	13	3	3	1	1	0	2	1	4	2	3	2	3	1	2	0	3	1	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:18738373G>A	uc009yht.2	-	10	1338	c.1148C>T	c.(1147-1149)ACG>ATG	p.T383M	IGSF22_uc001mpa.2_RNA	NM_173588	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	383										ovary(4)|large_intestine(2)|kidney(1)	7						AAGCGTGTGCGTCAGACCATC	0.527													14	167					0	0	0.003163	0	0		A	18738373	A	A	18738373	3	1	116	1	0	0	0	0	1	0	0	0	7616	1145	40	1	2888	1	IGSF22	11	18738373	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	101536	18738373	116268143	242	66011											
NELL1	4745	broad.mit.edu	37	chr11	21250984	21250984	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaccgggctacgtggggaaCgggaccatctgcagaggtag	11	5	16	9	3	1	1	0	0	1	1	1	3	1	3	2	5	4	3	2	5	4	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:21250984C>T	uc001mqe.2	+	14	1686	c.1533C>T	c.(1531-1533)AAC>AAT	p.N511N	NELL1_uc001mqf.2_Silent_p.N511N|NELL1_uc009yid.2_Silent_p.N539N|NELL1_uc010rdo.1_Silent_p.N454N|NELL1_uc010rdp.1_Silent_p.N271N	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	511	EGF-like 3.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						ACGTGGGGAACGGGACCATCT	0.572													9	39					0	0	0.004482	0	0		T	21250984	T	T	21250984	2	4	116	1	0	0	0	0	0	0	0	1	10352	535	19	1		1	NELL1	11	21250984	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	2512611	21250984	113755532	243	66012											
PAX6	5080	broad.mit.edu	37	chr11	31815288	31815288	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaggtgtgttgctggcctgTcttctctgattcctcagttt	3	18	10	10	0	3	1	1	1	2	0	5	1	4	1	2	2	1	3	2	2	1	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:31815288T>C	uc001mtd.3	-	9	1718	c.828A>G	c.(826-828)AGA>AGG	p.R276R	PAX6_uc001mte.3_Silent_p.R276R|PAX6_uc001mtg.3_Silent_p.R290R|PAX6_uc001mtf.3_Silent_p.R276R|PAX6_uc001mth.3_Silent_p.R276R|PAX6_uc009yjr.2_Silent_p.R276R	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	276					blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					TGCTGGCCTGTCTTCTCTGAT	0.458									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				11	108					0	0	0.010729	0	0		C	31815288	C	C	31815288	2	2	116	1	0	0	0	0	0	0	0	1	11502	1664	58	3		3	PAX6	11	31815288	Silent	SNP	T	TCGA-CD-8529-01A-11D-2340-08	10564304	31815288	103191228	244	66013											
PAX6	5080	broad.mit.edu	37	chr11	31816307	31816307	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actgatggagttggtattctCtccccctccttcctgttgct	4	16	8	13	0	1	1	0	1	1	0	5	2	4	2	4	2	1	4	4	2	1	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:31816307C>G	uc001mtd.3	-	7	1443	c.553G>C	c.(553-555)GAG>CAG	p.E185Q	PAX6_uc001mte.3_Missense_Mutation_p.E185Q|PAX6_uc001mtg.3_Missense_Mutation_p.E199Q|PAX6_uc001mtf.3_Missense_Mutation_p.E185Q|PAX6_uc001mth.3_Missense_Mutation_p.E185Q|PAX6_uc009yjr.2_Missense_Mutation_p.E185Q	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	185	Gln/Gly-rich.				blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					TTGGTATTCTCTCCCCCTCCT	0.463									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				10	64					0	0	0.010729	0	0		G	31816307	G	G	31816307	3	3	116	1	0	0	0	0	1	0	0	0	11502	922	32	5	739	5	PAX6	11	31816307	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1019	31816307	103190209	245	66014											
WT1	7490	broad.mit.edu	37	chr11	32417870	32417870	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcttattgcagcctgggtaAgcacacatgaaggggcgttt	9	11	12	9	1	1	1	0	1	1	0	1	1	1	1	1	3	3	4	1	3	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:32417870A>T	uc001mtn.1	-	7	1378	c.1182T>A	c.(1180-1182)GCT>GCA	p.A394A	WT1_uc001mtl.1_Silent_p.A182A|WT1_uc001mtm.1_Silent_p.A165A|WT1_uc001mto.1_Silent_p.A394A|WT1_uc001mtp.1_Silent_p.A377A|WT1_uc001mtq.1_Silent_p.A377A|WT1_uc009yjs.1_RNA	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D	326	C2H2-type 1.				adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding	p.R394P(6)|p.R394Q(4)|p.R394W(4)|p.R394G(2)|p.V380_S410del(1)	EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			AGCCTGGGTAAGCACACATGA	0.537			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				5	53					0	0	0.000602	0	0		T	32417870	T	T	32417870	2	4	116	1	0	0	0	0	0	0	0	1	17434	59	3	5		5	WT1	11	32417870	Silent	SNP	A	TCGA-CD-8529-01A-11D-2340-08	601563	32417870	102588646	246	66015											
C11orf74	119710	broad.mit.edu	37	chr11	36680701	36680701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcaagcagcagaagagaaagGacaccagcccagacttagag	17	2	12	10	0	0	4	0	0	0	4	0	6	0	5	2	1	3	3	2	1	4	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:36680701G>A	uc001mwy.1	+	6	704	c.631G>A	c.(631-633)GAC>AAC	p.D211N	C11orf74_uc010rfd.1_RNA|C11orf74_uc001mww.1_Missense_Mutation_p.D137N|C11orf74_uc001mwx.1_Intron|C11orf74_uc001mwz.1_Missense_Mutation_p.D137N|C11orf74_uc010rfe.1_Intron	NM_138787	NP_620142	Q86VG3	CK074_HUMAN	hypothetical protein LOC119710	211											0	all_lung(20;0.226)	all_hematologic(20;0.0118)				GAAGAGAAAGGACACCAGCCC	0.383													4	50					0	0	0.009096	0	0		A	36680701	A	A	36680701	3	1	116	1	0	0	0	0	1	0	0	0	1665	1174	41	4	649	4	C11orf74	11	36680701	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	4262831	36680701	98325815	247	66016											
TSPAN18	90139	broad.mit.edu	37	chr11	44931284	44931284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcctgcctgctggccatcgGcatctgggtcatggtggacc	4	9	15	13	1	2	0	1	0	1	0	3	1	2	1	4	6	2	2	4	6	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:44931284G>A	uc001mye.3	+	3	253	c.92G>A	c.(91-93)GGC>GAC	p.G31D	TP53I11_uc001myf.1_Intron|TSPAN18_uc001myg.2_Missense_Mutation_p.G31D	NM_130783	NP_570139	Q96SJ8	TSN18_HUMAN	tetraspanin 18 isoform 2	31	Helical; (Potential).					integral to membrane					0						CTGGCCATCGGCATCTGGGTC	0.662													8	62					0	0	0.00308	0	0		A	44931284	A	A	44931284	3	1	116	1	0	0	0	0	1	0	0	0	16668	1203	42	2	98	2	TSPAN18	11	44931284	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	8250583	44931284	90075232	248	66017											
AMBRA1	55626	broad.mit.edu	37	chr11	46419435	46419435	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgccgccctccgccatCagcctctggatcctgctgag	5	9	10	17	2	3	1	2	1	1	0	5	2	5	2	6	1	3	1	6	1	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:46419435C>A	uc010rgu.1	-	18	3822	c.3462G>T	c.(3460-3462)CTG>CTT	p.L1154L	AMBRA1_uc010rgt.1_3'UTR|AMBRA1_uc009ylc.1_Silent_p.L1125L|AMBRA1_uc001ncu.1_Silent_p.L1064L|AMBRA1_uc001ncv.2_Silent_p.L1157L|AMBRA1_uc001ncw.2_Silent_p.L1035L|AMBRA1_uc001ncx.2_Silent_p.L1094L	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	1154					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		CCTCCGCCATCAGCCTCTGGA	0.607													4	44					0.00909568	0.00933456	0.009096	1	0		A	46419435	A	A	46419435	2	1	116	1	0	0	0	0	0	0	0	1	565	813	29	5		5	AMBRA1	11	46419435	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1488151	46419435	88587081	249	66018											
PSMC3	5702	broad.mit.edu	37	chr11	47447454	47447454	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcagccgtgtgcgctggatGatctcctccgtggacatctt	6	11	12	12	3	2	1	0	1	2	0	4	3	3	3	3	2	3	2	3	2	0	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:47447454G>A	uc001nfh.2	-	2	317	c.123C>T	c.(121-123)ATC>ATT	p.I41I	PSMC3_uc009ylr.1_Silent_p.I41I	NM_002804	NP_002795	P17980	PRS6A_HUMAN	proteasome 26S ATPase subunit 3	41					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|nucleoside-triphosphatase activity|protein binding|transcription coactivator activity|transcription corepressor activity			ovary(4)	4				Lung(87;0.0932)|BRCA - Breast invasive adenocarcinoma(625;0.13)		TGCGCTGGATGATCTCCTCCG	0.517													12	113					0	0	0.003163	0	0		A	47447454	A	A	47447454	2	1	116	1	0	0	0	0	0	0	0	1	12709	1280	45	4		4	PSMC3	11	47447454	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1028019	47447454	87559062	250	66019											
OR5M1	390168	broad.mit.edu	37	chr11	56380424	56380424	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgtcagagcaggccagcatGataagaggaggatcagcgca	13	5	15	8	1	2	3	2	1	0	2	2	5	2	5	1	3	3	3	1	3	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:56380424G>A	uc001nja.1	-	1	555	c.555C>T	c.(553-555)ATC>ATT	p.I185I		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						AGGCCAGCATGATAAGAGGAG	0.448													6	59					0	0	0.001168	0	0		A	56380424	A	A	56380424	2	1	116	1	0	0	0	0	0	0	0	1	11191	1280	45	4		4	OR5M1	11	56380424	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	8932970	56380424	78626092	251	66020											
OR5AR1	219493	broad.mit.edu	37	chr11	56431887	56431887	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggctttctccacctgcggGtctcaccttactggcatcac	7	11	8	15	1	3	0	2	0	2	0	5	0	3	0	3	3	2	2	3	3	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:56431887G>T	uc010rjm.1	+	1	726	c.726G>T	c.(724-726)GGG>GGT	p.G242G		NM_001004730	NP_001004730	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCACCTGCGGGTCTCACCTTA	0.507													12	95					6.40141e-05	7.03878e-05	0.010729	1	0		T	56431887	T	T	56431887	2	4	116	1	0	0	0	0	0	0	0	1	11164	1248	44	5		5	OR5AR1	11	56431887	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	51463	56431887	78574629	252	66021											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57076370	57076371	+	Missense_Mutation	DNP	CT	AC	AC																															cctgtccaactccacgctccCttgatttaaggaactctccg																										TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:57076370_57076371CT>AC	uc001njr.2	-	5	4126_4127	c.3814_3815AG>GT	c.(3814-3816)AGG>GTG	p.R1272V	TNKS1BP1_uc001njs.2_Missense_Mutation_p.R1272V|TNKS1BP1_uc009ymd.1_Missense_Mutation_p.R723V	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	1272	Gly-rich.|Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				TCCACGCTCCCTTGATTTAAGG	0.624													12	197					0	0	0.004672	0	0		AC	57076371	AC	AC	57076370	3	1	116	1	0	0	0	0	1	0	0	0	16345	681	24	5	1398	5	TNKS1BP1	11	57076370	Missense_Mutation	DNP	CT	TCGA-CD-8529-01A-11D-2340-08	644483	57076370	77930146	253	66022											
OR9Q1	219956	broad.mit.edu	37	chr11	57946985	57946985	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcactgaatatcctgaatgGgcactccctctcttcctctt	7	15	5	14	0	3	2	1	2	2	0	7	2	6	2	3	1	0	1	3	1	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:57946985G>C	uc001nmj.2	+	3	385	c.69G>C	c.(67-69)TGG>TGC	p.W23C		NM_001005212	NP_001005212	Q8NGQ5	OR9Q1_HUMAN	olfactory receptor, family 9, subfamily Q,	23	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.222)				ATCCTGAATGGGCACTCCCTC	0.458													16	144					0	0	0.00499	0	0		C	57946985	C	C	57946985	3	2	116	1	0	0	0	0	1	0	0	0	11274	1241	43	5	71	5	OR9Q1	11	57946985	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	870615	57946985	77059531	254	66023											
SCYL1	57410	broad.mit.edu	37	chr11	65298186	65298186	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggatttctgtcggcacaaGgtgctgccccagctgctgac	7	9	13	12	1	1	1	0	1	1	0	2	3	1	2	2	3	4	4	2	3	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:65298186G>C	uc001oea.1	+	7	1013	c.936G>C	c.(934-936)AAG>AAC	p.K312N	SCYL1_uc009yqk.2_Missense_Mutation_p.K312N|SCYL1_uc001oeb.1_Missense_Mutation_p.K312N|SCYL1_uc001oec.1_Missense_Mutation_p.K312N|SCYL1_uc001oed.1_Missense_Mutation_p.K169N|SCYL1_uc001oee.1_5'UTR	NM_020680	NP_065731	Q96KG9	NTKL_HUMAN	SCY1-like 1 isoform A	312	Protein kinase.				regulation of transcription, DNA-dependent|retrograde vesicle-mediated transport, Golgi to ER|transcription, DNA-dependent	cis-Golgi network|COPI vesicle coat|ER-Golgi intermediate compartment|microtubule organizing center|nucleus	ATP binding|DNA binding|protein tyrosine kinase activity			skin(1)	1						GTCGGCACAAGGTGCTGCCCC	0.592													13	69					0	0	0.001855	0	0		C	65298186	C	C	65298186	3	2	116	1	0	0	0	0	1	0	0	0	13972	991	35	5	962	5	SCYL1	11	65298186	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	7351201	65298186	69708330	255	66024											
B3GNT1	11041	broad.mit.edu	37	chr11	66114059	66114059	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcccaggggtcctgccaagGtaccacgtaggcgggccgca	7	5	14	15	3	0	0	0	0	0	0	2	0	2	0	5	5	2	3	5	5	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:66114059G>T	uc001ohr.2	-	1	1103	c.958C>A	c.(958-960)CCT>ACT	p.P320T	BRMS1_uc001ohp.1_5'Flank|BRMS1_uc001oho.1_5'Flank	NM_006876	NP_006867	O43505	B3GN1_HUMAN	UDP-GlcNAc:betaGal	320	Lumenal (Potential).				poly-N-acetyllactosamine biosynthetic process	integral to Golgi membrane	N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase activity				0						TCCTGCCAAGGTACCACGTAG	0.617													8	86					5.4927e-09	6.35602e-09	0.004482	1	0		T	66114059	T	T	66114059	3	4	116	1	0	0	0	0	1	0	0	0	1257	1261	44	5	297	5	B3GNT1	11	66114059	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	815873	66114059	68892457	256	66025											
FAT3	120114	broad.mit.edu	37	chr11	92577512	92577512	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaatgtgtcccctgaggActtcgtggggctgcacatgc	8	10	13	10	1	0	2	0	2	0	0	2	3	1	3	2	3	2	2	2	3	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:92577512A>C	uc001pdj.3	+	18	10996	c.10979A>C	c.(10978-10980)GAC>GCC	p.D3660A	FAT3_uc001pdi.3_Missense_Mutation_p.D100A	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3660	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCCCCTGAGGACTTCGTGGGG	0.577										TCGA Ovarian(4;0.039)			9	71					0	0	0.004482	0	0		C	92577512	C	C	92577512	3	2	116	1	0	0	0	0	1	0	0	0	5705	275	10	5	11049	5	FAT3	11	92577512	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	26463453	92577512	42429004	257	66026											
CASP4	837	broad.mit.edu	37	chr11	104825631	104825631	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttcctcttccttccagttCagtacattttgttccaccaa	7	18	3	13	0	2	0	1	0	1	0	6	0	6	0	5	0	1	3	5	0	2	9			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:104825631C>T	uc001pid.1	-	2	178	c.105G>A	c.(103-105)CTG>CTA	p.L35L	CASP4_uc001pib.1_5'UTR|CASP4_uc009yxg.1_5'UTR|CASP4_uc010rux.1_Silent_p.L35L|CASP4_uc010ruy.1_Silent_p.L35L	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor	35	CARD.				apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		CCTTCCAGTTCAGTACATTTT	0.423													10	76					0	0	0.006214	0	0		T	104825631	T	T	104825631	2	4	116	1	0	0	0	0	0	0	0	1	2676	813	29	4		4	CASP4	11	104825631	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	12248119	104825631	30180885	258	66027											
CEP164	22897	broad.mit.edu	37	chr11	117261589	117261589	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tcctggctccgagctcaggtCcagtccagcacacaagcaga	10	6	10	15	1	1	1	1	0	0	1	5	2	5	1	4	2	3	4	4	2	1	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:117261589C>G	uc001prc.2	+	16	2178	c.2031C>G	c.(2029-2031)GTC>GTG	p.V677V	CEP164_uc001prb.2_Silent_p.V680V|CEP164_uc010rxk.1_Silent_p.V651V|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Silent_p.V110V	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	677	Glu-rich.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		GAGCTCAGGTCCAGTCCAGCA	0.612													9	66					0	0	0.004482	0	0		G	117261589	G	G	117261589	2	3	116	1	0	0	0	0	0	0	0	1	3252	842	30	5		5	CEP164	11	117261589	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	12435958	117261589	17744927	259	66028											
DDX6	1656	broad.mit.edu	37	chr11	118630742	118630742	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcacaaaatcctgtgacagCaacttatctgcctgcagtag	12	10	8	11	0	1	1	0	1	1	0	2	1	2	1	2	0	5	4	2	0	5	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr11:118630742C>G	uc001pub.2	-	8	1114	c.753G>C	c.(751-753)TTG>TTC	p.L251F	DDX6_uc001pua.2_5'Flank|DDX6_uc001puc.2_Missense_Mutation_p.L251F	NM_004397	NP_004388	P26196	DDX6_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	251	Helicase ATP-binding.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|RNA-induced silencing complex|stress granule	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|RNA helicase activity			ovary(1)	1	all_hematologic(175;0.0839)	Renal(330;0.0183)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)|Hepatocellular(160;0.0893)|Breast(348;0.0979)|all_hematologic(192;0.103)		OV - Ovarian serous cystadenocarcinoma(223;3.39e-06)|BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Colorectal(284;0.0377)		CCTGTGACAGCAACTTATCTG	0.353			T	IGH@	B-NHL								8	35					0	0	0.00308	0	0		G	118630742	G	G	118630742	3	3	116	1	0	0	0	0	1	0	0	0	4380	709	25	5	722	5	DDX6	11	118630742	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1369153	118630742	16375774	260	66029											
CACNA2D4	93589	broad.mit.edu	37	chr12	2019093	2019093	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagggattcattgaattcGtggttcaggtcggcctcctc	7	12	11	11	2	2	1	2	1	0	0	6	2	3	2	3	4	0	1	3	4	1	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:2019093G>A	uc001qjp.2	-	4	696	c.465C>T	c.(463-465)CAC>CAT	p.H155H	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Silent_p.H155H	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	155	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		CATTGAATTCGTGGTTCAGGT	0.547													5	26					0	0	0.000602	0	0		A	2019093	A	A	2019093	2	1	116	1	0	0	0	0	0	0	0	1	2554	1136	40	1		1	CACNA2D4	12	2019093	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08		2019093	131832802	261	66030											
GPRC5D	55507	broad.mit.edu	37	chr12	13103126	13103126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggacactcaggaggaagaGgagctgggtggggaggacat	12	4	19	6	0	1	1	1	0	0	1	1	7	1	7	0	8	1	1	0	8	1	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:13103126G>A	uc010shp.1	-	1	193	c.193C>T	c.(193-195)CTC>TTC	p.L65F		NM_018654	NP_061124	Q9NZD1	GPC5D_HUMAN	G protein-coupled receptor, family C, group 5,	65	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		AGGAGGAAGAGGAGCTGGGTG	0.522													5	49					0	0	0.000602	0	0		A	13103126	A	A	13103126	3	1	116	1	0	0	0	0	1	0	0	0	6743	1000	35	4	854	4	GPRC5D	12	13103126	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	11084033	13103126	120748769	262	66031											
CNTN1	1272	broad.mit.edu	37	chr12	41410613	41410613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccgatatgtccataaagatGaaaccatgagcccttccact	13	9	7	12	1	0	3	0	2	0	1	2	4	2	3	5	0	2	0	5	0	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:41410613G>A	uc001rmm.1	+	19	2427	c.2314G>A	c.(2314-2316)GAA>AAA	p.E772K	CNTN1_uc001rmn.1_Missense_Mutation_p.E761K	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	772	Fibronectin type-III 2.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				CCATAAAGATGAAACCATGAG	0.398													9	107					0	0	0.004482	0	0		A	41410613	A	A	41410613	3	1	116	1	0	0	0	0	1	0	0	0	3643	1291	45	4	2384	4	CNTN1	12	41410613	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	28307487	41410613	92441282	263	66032											
GXYLT1	283464	broad.mit.edu	37	chr12	42491366	42491366	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggcaattgcttccatataTacaatgatctggtcgataat	12	15	7	7	1	1	1	0	1	1	0	3	2	2	1	1	2	2	2	1	2	6	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:42491366T>A	uc001rms.3	-	7	1264	c.1039A>T	c.(1039-1041)ATA>TTA	p.I347L	GXYLT1_uc001rmt.3_Missense_Mutation_p.I316L	NM_173601	NP_775872	Q4G148	GXLT1_HUMAN	glycosyltransferase 8 domain containing 3	347	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						CTTCCATATATACAATGATCT	0.383													13	112					0	0	0.004007	0	0		A	42491366	A	A	42491366	3	1	116	1	0	0	0	0	1	0	0	0	6919	1406	49	5	291	5	GXYLT1	12	42491366	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	1080753	42491366	91360529	264	66033											
KRT83	3889	broad.mit.edu	37	chr12	52714937	52714937	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagctgcgtccgcaggagccGgcgcggaagcccccgcacac	8	2	14	17	6	0	0	0	0	0	0	1	2	1	2	4	3	4	3	4	3	2	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:52714937G>A	uc001saf.2	-	1	246	c.183C>T	c.(181-183)GCC>GCT	p.A61A		NM_002282	NP_002273	P78385	KRT83_HUMAN	keratin 83	61	Head.				epidermis development	keratin filament	structural molecule activity			skin(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		CGCAGGAGCCGGCGCGGAAGC	0.731													6	55					0	0	0.001168	0	0		A	52714937	A	A	52714937	2	1	116	1	0	0	0	0	0	0	0	1	8513	1103	39	1		1	KRT83	12	52714937	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	10223571	52714937	81136958	265	66034											
NEUROD4	58158	broad.mit.edu	37	chr12	55421124	55421124	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attcaactccttttcaggctGgtaccccccgttatgatgtt	7	15	7	12	1	2	1	2	1	0	0	3	1	3	1	4	2	2	4	4	2	3	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:55421124G>T	uc001sgp.3	+	2	1279	c.901G>T	c.(901-903)GGT>TGT	p.G301C		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	301					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						TTTTCAGGCTGGTACCCCCCG	0.473													51	506					4.17328e-34	5.05973e-34	0.01441	1	0		T	55421124	T	T	55421124	3	4	116	1	0	0	0	0	1	0	0	0	10369	1348	47	5	903	5	NEUROD4	12	55421124	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	2706187	55421124	78430771	266	66035											
OR10P1	121130	broad.mit.edu	37	chr12	56030784	56030784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtgcttctggtctacctgGtcaccttgctgggtaactcc	4	14	11	12	0	3	0	1	0	2	0	4	0	4	0	3	4	4	3	3	4	2	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:56030784G>A	uc010spq.1	+	1	109	c.109G>A	c.(109-111)GTC>ATC	p.V37I		NM_206899	NP_996782	Q8NGE3	O10P1_HUMAN	olfactory receptor, family 10, subfamily P,	37	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						GGTCTACCTGGTCACCTTGCT	0.572													11	116					0	0	0.008291	0	0		A	56030784	A	A	56030784	3	1	116	1	0	0	0	0	1	0	0	0	10934	1261	44	4	111	4	OR10P1	12	56030784	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	609660	56030784	77821111	267	66036											
PAN2	9924	broad.mit.edu	37	chr12	56718164	56718164	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agaatgaagcgattccacctCtgaatgagcctggccagatt	12	9	10	10	1	1	5	0	3	1	2	2	6	2	5	4	1	2	0	4	1	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:56718164C>G	uc001skx.2	-	12	2215	c.1842G>C	c.(1840-1842)CAG>CAC	p.Q614H	PAN2_uc001skw.2_5'Flank|PAN2_uc001skz.2_Missense_Mutation_p.Q614H|PAN2_uc001sky.2_Missense_Mutation_p.Q614H	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	614					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						GATTCCACCTCTGAATGAGCC	0.527													7	84					0	0	0.001984	0	0		G	56718164	G	G	56718164	3	3	116	1	0	0	0	0	1	0	0	0	11433	912	32	5	1826	5	PAN2	12	56718164	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	687380	56718164	77133731	268	66037											
PPFIA2	8499	broad.mit.edu	37	chr12	81657147	81657147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttctccaggttgatccaCgtctgaagttcttgtcatca	7	14	8	12	1	5	2	2	2	3	0	7	2	6	2	3	1	0	2	3	1	1	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:81657147C>T	uc001szo.1	-	31	3739	c.3578G>A	c.(3577-3579)CGT>CAT	p.R1193H	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	1092										ovary(3)|lung(2)|pancreas(1)	6						GGTTGATCCACGTCTGAAGTT	0.433													4	43					0	0	0.009096	0	0		T	81657147	T	T	81657147	3	4	116	1	0	0	0	0	1	0	0	0	12329	536	19	1	203	1	PPFIA2	12	81657147	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	24938983	81657147	52194748	269	66038											
STAB2	55576	broad.mit.edu	37	chr12	104149101	104149101	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagtaccacctgtgctcaGcaggctggctggagaccggg	8	6	14	13	1	1	1	1	0	0	1	1	2	1	1	4	4	3	5	4	4	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:104149101G>C	uc001tjw.2	+	62	6922	c.6736G>C	c.(6736-6738)GCA>CCA	p.A2246P	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2246	Extracellular (Potential).|Link.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CCTGTGCTCAGCAGGCTGGCT	0.498													13	122					0	0	0.013537	0	0		C	104149101	C	C	104149101	3	2	116	1	0	0	0	0	1	0	0	0	15263	971	34	5	6982	5	STAB2	12	104149101	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	22491954	104149101	29702794	270	66039											
POLR3B	55703	broad.mit.edu	37	chr12	106824074	106824074	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattggtctttaaagagattTaaaatggaccgccagggtgt	13	12	11	5	1	1	1	0	0	1	1	1	3	1	2	2	3	0	0	2	3	5	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:106824074T>A	uc001tlp.2	+	14	1509	c.1287T>A	c.(1285-1287)TTT>TTA	p.F429L	POLR3B_uc001tlq.2_Missense_Mutation_p.F371L	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	429					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						TAAAGAGATTTAAAATGGACC	0.433													21	175					0	0	0.014323	0	0		A	106824074	A	A	106824074	3	1	116	1	0	0	0	0	1	0	0	0	12248	1751	61	5	1341	5	POLR3B	12	106824074	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	2674973	106824074	27027821	271	66040											
IQCD	115811	broad.mit.edu	37	chr12	113633586	113633586	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttggagttgatctcccgctCttcccggatctgcgcaaact	6	12	9	14	3	3	1	0	1	3	0	5	3	4	3	2	2	2	3	2	2	1	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:113633586C>G	uc001tuu.2	-	3	1010	c.838G>C	c.(838-840)GAG>CAG	p.E280Q		NM_138451	NP_612460	Q96DY2	IQCD_HUMAN	IQ motif containing D	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(1)	1						ATCTCCCGCTCTTCCCGGATC	0.597													10	105					0	0	0.006214	0	0		G	113633586	G	G	113633586	3	3	116	1	0	0	0	0	1	0	0	0	7821	922	32	5	209	5	IQCD	12	113633586	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	6809512	113633586	20218309	272	66041											
MED13L	23389	broad.mit.edu	37	chr12	116429002	116429002	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagcttacacagggaagagTttggcgattgttagaggaaa	13	9	13	6	1	0	2	0	0	0	2	0	5	0	4	1	3	2	3	1	3	4	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:116429002T>A	uc001tvw.2	-	17	3812	c.3757A>T	c.(3757-3759)ACT>TCT	p.T1253S		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1253					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		CAGGGAAGAGTTTGGCGATTG	0.478													13	101					0	0	0.003163	0	0		A	116429002	A	A	116429002	3	1	116	1	0	0	0	0	1	0	0	0	9449	1725	60	5	2935	5	MED13L	12	116429002	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	2795416	116429002	17422893	273	66042											
LRRC43	254050	broad.mit.edu	37	chr12	122669241	122669241	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcagaagacagtttcctgaGagaattggccatccggaacc	12	8	11	10	1	0	4	0	1	0	3	2	6	2	5	4	2	2	2	4	2	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:122669241G>C	uc009zxm.2	+	2	351	c.326G>C	c.(325-327)AGA>ACA	p.R109T	LRRC43_uc001ubw.3_5'UTR|LRRC43_uc009zxl.1_RNA	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	109											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		AGTTTCCTGAGAGAATTGGCC	0.602													3	24					0	0	0.009096	0	0		C	122669241	C	C	122669241	3	2	116	1	0	0	0	0	1	0	0	0	9019	942	33	5	332	5	LRRC43	12	122669241	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	6240239	122669241	11182654	274	66043											
TCTN2	79867	broad.mit.edu	37	chr12	124156631	124156631	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaattccgacgtgtggagtGctgaacaatgagacggaaga	13	7	13	8	3	0	3	0	2	0	2	1	7	1	5	2	2	2	1	2	2	4	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr12:124156631G>T	uc001ufp.2	+	3	347	c.219G>T	c.(217-219)GTG>GTT	p.V73V	TCTN2_uc009zya.2_Silent_p.V73V	NM_024809	NP_079085	Q96GX1	TECT2_HUMAN	tectonic family member 2 isoform 1	73	Extracellular (Potential).				cilium assembly|smoothened signaling pathway	integral to membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000163)|Epithelial(86;0.000502)|all cancers(50;0.00451)		CGTGTGGAGTGCTGAACAATG	0.502													7	111					0.00198382	0.00206512	0.001984	1	0		T	124156631	T	T	124156631	2	4	116	1	0	0	0	0	0	0	0	1	15748	1306	46	5		5	TCTN2	12	124156631	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1487390	124156631	9695264	275	66044											
FAM123A	219287	broad.mit.edu	37	chr13	25743820	25743820	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccccggttgctgactctgcgGaccagcactttggaaaccgg	7	8	12	14	3	1	1	0	1	1	0	1	3	1	3	4	4	4	3	4	4	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr13:25743820G>A	uc001uqb.2	-	1	2038	c.1938C>T	c.(1936-1938)GTC>GTT	p.V646V	FAM123A_uc001uqa.2_Silent_p.V527V|FAM123A_uc001uqc.2_Silent_p.V527V	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	646										ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		TGACTCTGCGGACCAGCACTT	0.577													9	95					0	0	0.004482	0	0		A	25743820	A	A	25743820	2	1	116	1	0	0	0	0	0	0	0	1	5433	1161	41	4		4	FAM123A	13	25743820	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08		25743820	89426058	276	66045											
FREM2	341640	broad.mit.edu	37	chr13	39264430	39264430	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gatgacttgatgttgactttCctcttggaagatccaccttt	8	16	8	9	0	1	4	0	3	1	1	3	6	3	5	3	1	0	1	3	1	1	5	rs149341036		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr13:39264430C>G	uc001uwv.2	+	1	3258	c.2949C>G	c.(2947-2949)TTC>TTG	p.F983L		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	983	CSPG 6.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TGTTGACTTTCCTCTTGGAAG	0.428													12	137					0	0	0.00245	0	0		G	39264430	G	G	39264430	3	3	116	1	0	0	0	0	1	0	0	0	6059	854	30	5	2951	5	FREM2	13	39264430	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	13520610	39264430	75905448	277	66046											
PCDH20	64881	broad.mit.edu	37	chr13	61986911	61986911	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgggttccagttctttcaGataaaccacaccatctatct	12	12	5	12	1	4	1	1	0	3	1	5	1	5	1	3	1	2	2	3	1	4	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr13:61986911G>T	uc001vid.3	-	2	1685	c.1321C>A	c.(1321-1323)CTG>ATG	p.L441M	PCDH20_uc010thj.1_Missense_Mutation_p.L441M	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	414	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		AGTTCTTTCAGATAAACCACA	0.423													12	102					0.00244969	0.00254488	0.00245	1	0		T	61986911	T	T	61986911	3	4	116	1	0	0	0	0	1	0	0	0	11534	933	33	5	1538	5	PCDH20	13	61986911	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	22722481	61986911	53182967	278	66047											
PCDH9	5101	broad.mit.edu	37	chr13	67801945	67801945	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctttctgttctctatccaAgttttgctgaacaatcagtt	9	18	5	9	0	4	1	1	1	3	0	6	1	5	1	1	0	2	4	1	0	4	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr13:67801945A>G	uc001vik.2	-	2	1320	c.628T>C	c.(628-630)TTG>CTG	p.L210L	PCDH9_uc001vil.2_Silent_p.L210L|PCDH9_uc010thl.1_Silent_p.L210L|PCDH9_uc001vin.3_Silent_p.L210L	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	210	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		TCTCTATCCAAGTTTTGCTGA	0.433													13	113					0	0	0.013537	0	0		G	67801945	G	G	67801945	2	3	116	1	0	0	0	0	0	0	0	1	11537	69	3	3		3	PCDH9	13	67801945	Silent	SNP	A	TCGA-CD-8529-01A-11D-2340-08	5815034	67801945	47367933	279	66048											
MYCBP2	23077	broad.mit.edu	37	chr13	77651284	77651284	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttgtaaggacactcactTgagacgtaatcagtctgaat	13	12	9	7	1	3	2	2	2	1	1	3	4	3	3	0	1	0	3	0	1	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr13:77651284T>G	uc001vkf.2	-	68	11700	c.11609A>C	c.(11608-11610)CAA>CCA	p.Q3870P	MYCBP2_uc010aev.2_Missense_Mutation_p.Q3274P|MYCBP2_uc001vke.2_Missense_Mutation_p.Q490P	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3870					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GACACTCACTTGAGACGTAAT	0.383													5	59					0	0	0.000602	0	0		G	77651284	G	G	77651284	3	3	116	1	0	0	0	0	1	0	0	0	10036	1826	63	5	2381	5	MYCBP2	13	77651284	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	9849339	77651284	37518594	280	66049											
MYCBP2	23077	broad.mit.edu	37	chr13	77834716	77834716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttataaggtttggattgccGtctgctcttagctttaaaaa	10	17	8	6	1	2	0	0	0	2	0	2	1	2	1	1	2	3	3	1	2	6	8			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr13:77834716G>A	uc001vkf.2	-	14	1841	c.1750C>T	c.(1750-1752)CGG>TGG	p.R584W	MYCBP2_uc010aev.2_Translation_Start_Site	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	584	RCC1 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TTGGATTGCCGTCTGCTCTTA	0.279													12	56					0	0	0.010729	0	0		A	77834716	A	A	77834716	3	1	116	1	0	0	0	0	1	0	0	0	10036	1144	40	1	12456	1	MYCBP2	13	77834716	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	183432	77834716	37335162	281	66050											
CLDN10	9071	broad.mit.edu	37	chr13	96086276	96086276	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttctttccattgccgaccGcattttactatcttcaaagt	8	16	6	11	2	3	0	1	0	2	0	4	1	4	0	3	1	2	2	3	1	3	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr13:96086276G>A	uc001vmg.2	+	1	424	c.189G>A	c.(187-189)CCG>CCA	p.P63P	CLDN10_uc010tii.1_Intron	NM_182848	NP_878268	P78369	CLD10_HUMAN	claudin 10 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.18)			ATTGCCGACCGCATTTTACTA	0.488													11	55					0	0	0.008291	0	0		A	96086276	A	A	96086276	2	1	116	1	0	0	0	0	0	0	0	1	3475	1074	38	1		1	CLDN10	13	96086276	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	18251560	96086276	19083602	282	66051											
TMTC4	84899	broad.mit.edu	37	chr13	101278038	101278038	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattataaaaacaatgcttaCtgtatttgaacagccaaaga	19	11	5	6	0	0	2	0	1	0	1	0	2	0	2	1	0	5	2	1	0	10	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr13:101278038C>A	uc001vou.2	-	13	1797	c.1637_splice	c.e13+1	p.Q546_splice	TMTC4_uc001vot.2_Splice_Site_p.Q565_splice|TMTC4_uc010tja.1_Splice_Site_p.Q435_splice|TMTC4_uc001vov.1_Splice_Site_p.Q291_splice|TMTC4_uc001vow.1_Splice_Site_p.Q329_splice	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat							integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					ACAATGCTTACTGTATTTGAA	0.373													25	38					1.66031e-10	1.96148e-10	0.003954	1	0		A	101278038	A	A	101278038	5	1	116	1	0	0	0	0	0	0	1	0	16288	579	20	5	611	5	TMTC4	13	101278038	Splice_Site	SNP	C	TCGA-CD-8529-01A-11D-2340-08	5191762	101278038	13891840	283	66052											
COL4A1	1282	broad.mit.edu	37	chr13	110826862	110826862	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacctttttctccaggtaGcccaggacttcctaaagaaa	11	11	7	12	0	2	1	1	0	1	1	4	2	3	2	4	2	1	1	4	2	4	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr13:110826862G>A	uc001vqw.3	-	39	3459	c.3337C>T	c.(3337-3339)CTA>TTA	p.L1113L	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1113	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			TCTCCAGGTAGCCCAGGACTT	0.498													7	85					0	0	0.001984	0	0		A	110826862	A	A	110826862	2	1	116	1	0	0	0	0	0	0	0	1	3692	962	34	2		2	COL4A1	13	110826862	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	9548824	110826862	4343016	284	66053											
OR4K1	79544	broad.mit.edu	37	chr14	20404690	20404690	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaccccatcatctactctCtgaggaatgaagatgttaaa	14	11	7	9	0	3	4	1	3	2	1	4	5	3	5	2	1	2	1	2	1	6	2	rs2792147		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:20404690C>A	uc001vwj.1	+	1	865	c.865C>A	c.(865-867)CTG>ATG	p.L289M		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	289	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		CATCTACTCTCTGAGGAATGA	0.408													13	137					1.05317e-09	1.22991e-09	0.00245	1	0		A	20404690	A	A	20404690	3	1	116	1	0	0	0	0	1	0	0	0	11086	912	32	5	867	5	OR4K1	14	20404690	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08		20404690	86944850	285	66054											
OR4K15	81127	broad.mit.edu	37	chr14	20444560	20444560	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttactcagttgacaaagtcCttgctgtattctacaccatc	10	14	6	11	0	2	1	1	1	1	0	4	1	3	1	2	0	3	4	2	0	4	6	rs145393308		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:20444560C>G	uc010tkx.1	+	1	883	c.883C>G	c.(883-885)CTT>GTT	p.L295V		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	295	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGACAAAGTCCTTGCTGTATT	0.418													6	103					0	0	0.001984	0	0		G	20444560	G	G	20444560	3	3	116	1	0	0	0	0	1	0	0	0	11089	681	24	5	885	5	OR4K15	14	20444560	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	39870	20444560	86904980	286	66055											
RNASE10	338879	broad.mit.edu	37	chr14	20978867	20978867	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaagtggtgcaacctggCtggccagaagatcccatcct	12	7	11	11	0	0	3	0	0	0	3	2	3	2	3	4	3	2	2	4	3	4	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:20978867C>A	uc010tlj.1	+	1	237	c.237C>A	c.(235-237)GGC>GGA	p.G79G	RNASE10_uc001vxp.2_Silent_p.G107G	NM_001012975	NP_001012993	Q5GAN6	RNS10_HUMAN	ribonuclease, RNase A family, 10 (non-active)	79						extracellular region	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00123)		Epithelial(56;1.81e-07)|all cancers(55;1.86e-06)	GBM - Glioblastoma multiforme(265;0.022)|READ - Rectum adenocarcinoma(17;0.191)		TGCAACCTGGCTGGCCAGAAG	0.532													7	46					8.12818e-05	8.84179e-05	0.001984	1	0		A	20978867	A	A	20978867	2	1	116	1	0	0	0	0	0	0	0	1	13425	784	28	5		5	RNASE10	14	20978867	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	534307	20978867	86370673	287	66056											
OXA1L	5018	broad.mit.edu	37	chr14	23235817	23235817	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgcctgatctgcggctacaAttctggcttcatgcccgcct	5	11	9	16	3	3	1	1	1	2	0	3	1	3	1	4	2	3	2	4	2	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:23235817A>T	uc001wgn.2	+	1	87	c.87A>T	c.(85-87)CAA>CAT	p.Q29H	OXA1L_uc010tnc.1_Missense_Mutation_p.Q29H|OXA1L_uc001wgo.2_RNA|OXA1L_uc010akc.2_Missense_Mutation_p.Q29H|OXA1L_uc001wgp.2_5'Flank|OXA1L_uc001wgq.2_5'Flank	NM_005015	NP_005006	Q15070	OXA1L_HUMAN	oxidase (cytochrome c) assembly 1-like	Error:Variant_position_missing_in_Q15070_after_alignment					aerobic respiration|mitochondrial proton-transporting ATP synthase complex assembly|mitochondrial respiratory chain complex I assembly|negative regulation of ATPase activity|negative regulation of oxidoreductase activity|protein insertion into membrane|protein tetramerization	integral to mitochondrial membrane|mitochondrial respiratory chain|protein complex	protein homodimerization activity|ribosome binding			central_nervous_system(1)	1	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.0096)		TGCGGCTACAATTCTGGCTTC	0.522													14	164					0	0	0.003163	0	0		T	23235817	T	T	23235817	3	4	116	1	0	0	0	0	1	0	0	0	11347	98	4	5	89	5	OXA1L	14	23235817	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	2256950	23235817	84113723	288	66057											
NFATC4	4776	broad.mit.edu	37	chr14	24843060	24843060	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtacaggcagcatcggtGcccatcgagtgctgtgagca	9	8	13	11	2	1	1	1	1	0	0	3	2	1	1	1	2	5	5	1	2	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:24843060G>A	uc001wpc.2	+	5	2040	c.1719G>A	c.(1717-1719)GTG>GTA	p.V573V	NFATC4_uc010tok.1_Silent_p.V636V|NFATC4_uc010tol.1_Silent_p.V636V|NFATC4_uc010alr.2_Silent_p.V636V|NFATC4_uc010als.2_Silent_p.V586V|NFATC4_uc010tom.1_Silent_p.V586V|NFATC4_uc010ton.1_Silent_p.V586V|NFATC4_uc010too.1_Silent_p.V586V|NFATC4_uc010alt.2_Silent_p.V605V|NFATC4_uc010top.1_Silent_p.V605V|NFATC4_uc010toq.1_Silent_p.V605V|NFATC4_uc010alu.2_Silent_p.V265V|NFATC4_uc010tor.1_Silent_p.V573V|NFATC4_uc010tos.1_Silent_p.V503V|NFATC4_uc010tot.1_Silent_p.V561V|NFATC4_uc010tou.1_Silent_p.V503V|NFATC4_uc010tov.1_Silent_p.V561V|NFATC4_uc010tow.1_Silent_p.V503V|NFATC4_uc010alv.2_Silent_p.V561V|NFATC4_uc010tox.1_Silent_p.V503V|NFATC4_uc001wpd.2_Silent_p.V108V|NFATC4_uc010toy.1_Silent_p.V108V|NFATC4_uc010toz.1_Silent_p.V108V|NFATC4_uc010tpa.1_5'UTR|NFATC4_uc010tpb.1_5'UTR	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	573	RHD.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		CAGCATCGGTGCCCATCGAGT	0.592													8	36					0	0	0.006214	0	0		A	24843060	A	A	24843060	2	1	116	1	0	0	0	0	0	0	0	1	10384	1306	46	2		2	NFATC4	14	24843060	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1607243	24843060	82506480	289	66058											
ARHGAP5	394	broad.mit.edu	37	chr14	32560468	32560468	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaacctgtaataatagcagCaactaaatgtgatgaatgcg	18	9	8	6	1	0	2	0	2	0	0	0	2	0	2	1	0	5	3	1	0	9	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:32560468C>G	uc001wrl.2	+	2	832	c.593C>G	c.(592-594)GCA>GGA	p.A198G	ARHGAP5_uc001wrm.2_Missense_Mutation_p.A198G|ARHGAP5_uc001wrn.2_Missense_Mutation_p.A198G|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	198					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		ATAATAGCAGCAACTAAATGT	0.328													12	116					0	0	0.010729	0	0		G	32560468	G	G	32560468	3	3	116	1	0	0	0	0	1	0	0	0	886	710	25	5	595	5	ARHGAP5	14	32560468	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	7717408	32560468	74789072	290	66059											
PSMA6	5687	broad.mit.edu	37	chr14	35782239	35782239	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaaagtgaagaagaaatttGattggacatttgaacagaca	20	9	9	3	0	0	6	0	3	0	3	0	7	0	7	0	1	1	0	0	1	6	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:35782239G>C	uc001wtd.2	+	5	671	c.562G>C	c.(562-564)GAT>CAT	p.D188H	KIAA0391_uc001wta.2_RNA|PSMA6_uc010tpt.1_Missense_Mutation_p.D109H|PSMA6_uc010tpu.1_Missense_Mutation_p.D109H	NM_002791	NP_002782	P60900	PSA6_HUMAN	proteasome alpha 6 subunit	188					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nuclear matrix|polysome|proteasome core complex, alpha-subunit complex|sarcomere	NF-kappaB binding|purine ribonucleoside triphosphate binding|RNA binding|threonine-type endopeptidase activity				0	Breast(36;0.0519)|Hepatocellular(127;0.158)		Lung(238;3.81e-05)|LUAD - Lung adenocarcinoma(48;5.59e-05)|Epithelial(34;0.00342)|all cancers(34;0.00973)	GBM - Glioblastoma multiforme(112;0.0234)		GAAGAAATTTGATTGGACATT	0.373													14	112					0	0	0.003163	0	0		C	35782239	C	C	35782239	3	2	116	1	0	0	0	0	1	0	0	0	12693	1290	45	5	580	5	PSMA6	14	35782239	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	3221771	35782239	71567301	291	66060											
SEC23A	10484	broad.mit.edu	37	chr14	39510066	39510066	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	actcaggcatatcctggtatCctgacttccgccactgtgct	7	12	8	14	1	1	1	1	1	0	0	4	1	4	1	4	2	1	3	4	2	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:39510066C>G	uc001wup.1	-	18	2235	c.2012G>C	c.(2011-2013)GGA>GCA	p.G671A	SEC23A_uc010tqa.1_Missense_Mutation_p.G557A|SEC23A_uc010tqb.1_Missense_Mutation_p.G642A	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	671					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		ATCCTGGTATCCTGACTTCCG	0.388													10	65					0	0	0.006214	0	0		G	39510066	G	G	39510066	3	3	116	1	0	0	0	0	1	0	0	0	14016	855	30	5	297	5	SEC23A	14	39510066	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	3727827	39510066	67839474	292	66061											
PPIL5	122769	broad.mit.edu	37	chr14	50074222	50074222	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacaccagtgaagacttcAgaatttgaaaactttaaaac	17	10	5	9	0	2	4	2	2	0	2	2	4	2	4	1	0	2	0	1	0	6	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:50074222A>G	uc001wwn.2	+	3	711	c.387A>G	c.(385-387)TCA>TCG	p.S129S	SDCCAG1_uc010anj.1_Intron|PPIL5_uc001wwo.2_Intron|PPIL5_uc010ank.2_Silent_p.S70S|PPIL5_uc001wwp.2_RNA	NM_152329	NP_689542	Q96L50	LLR1_HUMAN	peptidylprolyl isomerase (cyclophilin)-like 5	129											0	all_epithelial(31;0.0021)|Breast(41;0.0124)					TGAAGACTTCAGAATTTGAAA	0.358													5	64					0	0	0.000602	0	0		G	50074222	G	G	50074222	2	3	116	1	0	0	0	0	0	0	0	1	12352	175	7	3		3	PPIL5	14	50074222	Silent	SNP	A	TCGA-CD-8529-01A-11D-2340-08	10564156	50074222	57275318	293	66062											
NAA30	122830	broad.mit.edu	37	chr14	57858401	57858401	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccgaaccctactccatttaTacctatagatattttatcca	12	15	2	12	1	0	1	0	0	0	1	3	2	3	1	5	0	3	0	5	0	8	9			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:57858401T>A	uc001xcx.3	+	2	880	c.726T>A	c.(724-726)TAT>TAA	p.Y242*	NAA30_uc010trk.1_Intron|NAA30_uc010aow.2_Intron	NM_001011713	NP_001011713	Q147X3	NAA30_HUMAN	N-acetyltransferase 12	242	N-acetyltransferase.					cytoplasm	peptide alpha-N-acetyltransferase activity			skin(1)	1						ACTCCATTTATACCTATAGAT	0.453													33	255					0	0	0.013726	0	0		A	57858401	A	A	57858401	4	1	116	1	0	0	0	0	0	1	0	0	10140	1413	49	5	728	5	NAA30	14	57858401	Nonsense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	7784179	57858401	49491139	294	66063											
ZFYVE26	23503	broad.mit.edu	37	chr14	68234421	68234421	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcattttattgctattacCtgctcatagtaaaattcact	11	18	4	8	0	2	0	2	0	0	0	2	0	2	0	1	0	4	4	1	0	6	9			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:68234421C>A	uc001xka.2	-	31	5929	c.5790G>T	c.(5788-5790)CAG>CAT	p.Q1930H	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.Q1930H	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1930					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		TTGCTATTACCTGCTCATAGT	0.418													11	120					1.58986e-06	1.79878e-06	0.008291	1	0		A	68234421	A	A	68234421	3	1	116	1	0	0	0	0	1	0	0	0	17693	695	24	5	1877	5	ZFYVE26	14	68234421	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	10376020	68234421	39115119	295	66064											
ADAM21	8747	broad.mit.edu	37	chr14	70925356	70925356	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaattcaccaattgcagttaCgctgattttatgaagaccac	14	12	6	9	1	1	3	1	2	0	1	1	3	1	3	2	0	2	3	2	0	5	5	rs145696569		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:70925356C>T	uc001xmd.2	+	1	1140	c.1140C>T	c.(1138-1140)TAC>TAT	p.Y380Y		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	380	Peptidase M12B.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		ATTGCAGTTACGCTGATTTTA	0.423													10	100					0	0	0.010729	0	0		T	70925356	T	T	70925356	2	4	116	1	0	0	0	0	0	0	0	1	243	547	19	1		1	ADAM21	14	70925356	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	2690935	70925356	36424184	296	66065											
RBM25	58517	broad.mit.edu	37	chr14	73544115	73544115	+	Missense_Mutation	SNP	G	C	C																															tctatggttggaaagcatttGggcgcaagaaaggatcatcc																										TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:73544115G>C	uc001xno.2	+	4	403	c.195G>C	c.(193-195)TTG>TTC	p.L65F	RBM25_uc001xnn.3_Missense_Mutation_p.L65F|RBM25_uc010ttu.1_Missense_Mutation_p.L65F|RBM25_uc001xnp.2_5'UTR	NM_021239	NP_067062	P49756	RBM25_HUMAN	RNA binding motif protein 25	65					apoptosis|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|RNA splicing	cytoplasm|nuclear speck	mRNA binding|nucleotide binding|protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)		GAAAGCATTTGGGCGCAAGAA	0.373													10	51					0	0	0.013537	0	0		C	73544115	C	C	73544115	3	2	116	1	0	0	0	0	1	0	0	0	13150	1339	47	5	205	5	RBM25	14	73544115	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	2618759	73544115	33805425	297	66066	121	2									
RBM25	58517	broad.mit.edu	37	chr14	73544125	73544125	+	Missense_Mutation	SNP	A	C	C																															gaaagcatttgggcgcaagaAaggatcatccaggcttaaag																										TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:73544125A>C	uc001xno.2	+	4	413	c.205A>C	c.(205-207)AAG>CAG	p.K69Q	RBM25_uc001xnn.3_Missense_Mutation_p.K69Q|RBM25_uc010ttu.1_Missense_Mutation_p.K69Q|RBM25_uc001xnp.2_5'UTR	NM_021239	NP_067062	P49756	RBM25_HUMAN	RNA binding motif protein 25	69					apoptosis|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|RNA splicing	cytoplasm|nuclear speck	mRNA binding|nucleotide binding|protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)		GGGCGCAAGAAAGGATCATCC	0.388													6	46					0	0	0.00308	0	0		C	73544125	C	C	73544125	3	2	116	1	0	0	0	0	1	0	0	0	13150	15	1	5	215	5	RBM25	14	73544125	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	10	73544125	33805415	298	66067	121	2									
ZNF410	57862	broad.mit.edu	37	chr14	74388851	74388851	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctatgaattcccagcccagCcttggtggagagtccttgaa	9	11	10	11	0	1	3	0	2	1	1	3	4	3	3	4	2	2	0	4	2	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:74388851C>T	uc001xoz.1	+	10	1394	c.1212C>T	c.(1210-1212)AGC>AGT	p.S404S	ZNF410_uc001xoy.1_RNA|ZNF410_uc010tuf.1_Intron|ZNF410_uc010tug.1_Silent_p.S135S|ZNF410_uc010tuh.1_Silent_p.S331S|ZNF410_uc010tui.1_RNA|ZNF410_uc010arz.1_Silent_p.S421S|ZNF410_uc001xpa.1_Silent_p.S208S|ZNF410_uc001xpb.1_Intron|ZNF410_uc001xpc.1_Silent_p.S351S|ZNF410_uc010tuj.1_Silent_p.S208S	NM_021188	NP_067011	Q86VK4	ZN410_HUMAN	zinc finger protein 410	404					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00369)		CCCAGCCCAGCCTTGGTGGAG	0.463													8	58					0	0	0.00308	0	0		T	74388851	T	T	74388851	2	4	116	1	0	0	0	0	0	0	0	1	17915	738	26	2		2	ZNF410	14	74388851	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	844726	74388851	32960689	299	66068											
TTLL5	23093	broad.mit.edu	37	chr14	76249678	76249678	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatccccagcatgcctcacCagccaacaattttactgaac	12	9	4	16	0	1	1	1	1	0	0	2	1	2	1	5	0	6	1	5	0	5	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:76249678C>G	uc001xrx.2	+	26	2996	c.2791C>G	c.(2791-2793)CAG>GAG	p.Q931E	TTLL5_uc010ask.1_Missense_Mutation_p.Q945E|TTLL5_uc001xrz.2_Missense_Mutation_p.Q506E|TTLL5_uc001xsa.2_Missense_Mutation_p.Q4E|TTLL5_uc001xry.1_RNA	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	931					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		CATGCCTCACCAGCCAACAAT	0.532													12	104					0	0	0.013537	0	0		G	76249678	G	G	76249678	3	3	116	1	0	0	0	0	1	0	0	0	16756	595	21	5	2889	5	TTLL5	14	76249678	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1860827	76249678	31099862	300	66069											
KCNK10	54207	broad.mit.edu	37	chr14	88729835	88729835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggagtcggagccggagccGggggttgcccgttagtggcg	4	8	20	9	5	0	0	0	0	0	0	1	3	0	3	3	6	3	2	3	6	1	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:88729835G>A	uc001xwo.2	-	2	555	c.98C>T	c.(97-99)CCG>CTG	p.P33L	KCNK10_uc001xwm.2_Missense_Mutation_p.P38L|KCNK10_uc001xwn.2_Missense_Mutation_p.P38L	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	33	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						AGCCGGAGCCGGGGGTTGCCC	0.647													7	78					0	0	0.001984	0	0		A	88729835	A	A	88729835	3	1	116	1	0	0	0	0	1	0	0	0	8075	1116	39	1	1542	1	KCNK10	14	88729835	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	12480157	88729835	18619705	301	66070											
ZC3H14	79882	broad.mit.edu	37	chr14	89076102	89076102	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtagtcagctctgccgttaCttccctgcttgtaagaagat	9	13	9	10	1	2	2	1	0	1	2	3	2	3	2	2	0	4	5	2	0	4	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:89076102C>T	uc001xww.2	+	15	2277	c.2052C>T	c.(2050-2052)TAC>TAT	p.Y684Y	ZC3H14_uc010twd.1_Silent_p.Y683Y|ZC3H14_uc010twe.1_Silent_p.Y678Y|ZC3H14_uc001xwx.2_Silent_p.Y527Y|ZC3H14_uc010twf.1_Silent_p.Y397Y|ZC3H14_uc001xwy.2_Silent_p.Y519Y|ZC3H14_uc010twg.1_Silent_p.Y373Y|ZC3H14_uc001xxa.2_Silent_p.Y229Y|ZC3H14_uc001xxc.2_Silent_p.Y228Y|ZC3H14_uc001xxb.2_Silent_p.Y254Y	NM_024824	NP_079100	Q6PJT7	ZC3HE_HUMAN	zinc finger CCCH-type containing 14 isoform 1	684	C3H1-type 4.					cytoplasm|cytoplasm|nuclear speck	protein binding|RNA binding|zinc ion binding			ovary(2)|skin(1)	3						TCTGCCGTTACTTCCCTGCTT	0.393													6	60					0	0	0.00308	0	0		T	89076102	T	T	89076102	2	4	116	1	0	0	0	0	0	0	0	1	17591	576	20	4		4	ZC3H14	14	89076102	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	346267	89076102	18273438	302	66071											
TDP1	55775	broad.mit.edu	37	chr14	90429519	90429519	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtagtgatgaaagtgaggaaGaaaagccaaaaccagacaag	20	4	12	5	0	0	5	0	3	0	2	0	6	0	6	2	1	2	1	2	1	8	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:90429519G>C	uc001xxy.2	+	3	360	c.61G>C	c.(61-63)GAA>CAA	p.E21Q	TDP1_uc010atm.2_RNA|TDP1_uc001xxz.2_Missense_Mutation_p.E21Q|TDP1_uc010atn.2_Missense_Mutation_p.E21Q|TDP1_uc001xya.2_5'UTR|TDP1_uc001xyb.2_RNA|TDP1_uc010ato.2_Missense_Mutation_p.E21Q|TDP1_uc001xyc.1_Missense_Mutation_p.E21Q	NM_018319	NP_060789	Q9NUW8	TYDP1_HUMAN	tyrosyl-DNA phosphodiesterase 1	21					cell death|double-strand break repair|single strand break repair	cytoplasm|nucleus	3'-tyrosyl-DNA phosphodiesterase activity|double-stranded DNA binding|exonuclease activity|protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(154;0.185)		COAD - Colon adenocarcinoma(157;0.23)		AAGTGAGGAAGAAAAGCCAAA	0.478								Repair_of_DNA-protein_crosslinks					7	84					0	0	0.006214	0	0		C	90429519	C	C	90429519	3	2	116	1	0	0	0	0	1	0	0	0	15753	943	33	5	63	5	TDP1	14	90429519	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1353417	90429519	16920021	303	66072											
KIAA1409	57578	broad.mit.edu	37	chr14	94044294	94044294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctttgcgtagtccgtttcGtagccctttcaagaattttg	6	17	8	10	3	1	1	1	0	0	1	4	1	3	1	3	0	2	3	3	0	4	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:94044294G>A	uc001ybv.1	+	15	1870	c.1787G>A	c.(1786-1788)CGT>CAT	p.R596H	KIAA1409_uc001ybs.1_Missense_Mutation_p.R596H	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	773						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		AGTCCGTTTCGTAGCCCTTTC	0.433													11	150					0	0	0.008291	0	0		A	94044294	A	A	94044294	3	1	116	1	0	0	0	0	1	0	0	0	8246	1145	40	1	1845	1	KIAA1409	14	94044294	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	3614775	94044294	13305246	304	66073											
KIAA1409	57578	broad.mit.edu	37	chr14	94088842	94088842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctccttcagaagtcgtttGctctccccgagatgtcgctg	6	12	9	14	3	2	2	1	0	1	2	6	3	3	2	4	0	1	3	4	0	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:94088842G>A	uc001ybv.1	+	28	4881	c.4798G>A	c.(4798-4800)GCT>ACT	p.A1600T	KIAA1409_uc001ybs.1_Missense_Mutation_p.A1578T	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1755						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GAAGTCGTTTGCTCTCCCCGA	0.592													11	89					0	0	0.010729	0	0		A	94088842	A	A	94088842	3	1	116	1	0	0	0	0	1	0	0	0	8246	1319	46	2	4838	2	KIAA1409	14	94088842	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	44548	94088842	13260698	305	66074											
DYNC1H1	1778	broad.mit.edu	37	chr14	102493538	102493538	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtcaacctcaaggccacttGcttctgattggtgttagtgg	7	13	11	10	1	3	1	2	1	1	0	3	1	3	1	2	3	2	2	2	3	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:102493538G>C	uc001yks.2	+	45	8963	c.8799G>C	c.(8797-8799)TTG>TTC	p.L2933F		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2933	AAA 4 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						AAGGCCACTTGCTTCTGATTG	0.448													27	285					0	0	0.004656	0	0		C	102493538	C	C	102493538	3	2	116	1	0	0	0	0	1	0	0	0	4847	1310	46	5	8977	5	DYNC1H1	14	102493538	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	8404696	102493538	4856002	306	66075											
DYNC1H1	1778	broad.mit.edu	37	chr14	102510823	102510823	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacattcaaatgccagatggCatcaggtatgctgctgcctg	10	10	11	10	0	2	1	2	0	0	1	2	2	2	1	2	2	4	4	2	2	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:102510823C>A	uc001yks.2	+	71	13061	c.12897C>A	c.(12895-12897)GGC>GGA	p.G4299G		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	4299					cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						TGCCAGATGGCATCAGGTATG	0.517													8	61					0.000274275	0.000292714	0.004482	1	0		A	102510823	A	A	102510823	2	1	116	1	0	0	0	0	0	0	0	1	4847	697	25	5		5	DYNC1H1	14	102510823	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	17285	102510823	4838717	307	66076											
AHNAK2	113146	broad.mit.edu	37	chr14	105416425	105416425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgacgtccacctccacgCtgggcagagacacctccacg	8	5	9	19	4	0	1	0	0	0	1	4	3	3	1	6	1	0	2	6	1	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr14:105416425C>T	uc010axc.1	-	7	5483	c.5363G>A	c.(5362-5364)AGC>AAC	p.S1788N	AHNAK2_uc001ypx.2_Missense_Mutation_p.S1688N	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1788						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CACCTCCACGCTGGGCAGAGA	0.662													23	262					0	0	0.014323	0	0		T	105416425	T	T	105416425	3	4	116	1	0	0	0	0	1	0	0	0	415	797	28	2	12028	2	AHNAK2	14	105416425	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	2905602	105416425	1933115	308	66077											
MKRN3	7681	broad.mit.edu	37	chr15	23811185	23811185	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggaggagcctggcccagtCcgttgccaagccgaagcagc	9	4	15	13	2	0	0	0	0	0	0	1	4	1	2	5	3	5	2	5	3	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr15:23811185C>A	uc001ywh.3	+	1	732	c.256C>A	c.(256-258)CCG>ACG	p.P86T	MKRN3_uc001ywi.2_Missense_Mutation_p.P86T|MKRN3_uc010ayi.1_Missense_Mutation_p.P86T	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	86						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding	p.P86P(1)		lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		CTGGCCCAGTCCGTTGCCAAG	0.617													5	48					0.000602214	0.000636019	0.000602	1	0		A	23811185	A	A	23811185	3	1	116	1	0	0	0	0	1	0	0	0	9626	855	30	5	258	5	MKRN3	15	23811185	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08		23811185	78720207	309	66078											
HERC2	8924	broad.mit.edu	37	chr15	28358272	28358272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcctgggcagcctcgtcCggccccagacgaagcgaagg	7	5	15	14	4	0	1	0	0	0	1	3	3	2	1	5	4	2	1	5	4	2	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr15:28358272C>T	uc001zbj.2	-	92	14283	c.14177G>A	c.(14176-14178)CGG>CAG	p.R4726Q	HERC2_uc001zbi.2_Missense_Mutation_p.R415Q	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4726	HECT.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CAGCCTCGTCCGGCCCCAGAC	0.647													5	49					0	0	0.000602	0	0		T	28358272	T	T	28358272	3	4	116	1	0	0	0	0	1	0	0	0	7074	652	23	1	335	1	HERC2	15	28358272	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	4547087	28358272	74173120	310	66079											
HERC2	8924	broad.mit.edu	37	chr15	28515891	28515891	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggcatacagggcgtagccaGacggtctaaatgggccatga	12	6	14	9	2	1	2	0	1	1	1	1	2	1	2	2	4	2	2	2	4	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr15:28515891G>C	uc001zbj.2	-	10	1313	c.1207C>G	c.(1207-1209)CTG>GTG	p.L403V	HERC2_uc001zbl.1_Missense_Mutation_p.L98V	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	403					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GGCGTAGCCAGACGGTCTAAA	0.512													5	64					0	0	0.000602	0	0		C	28515891	C	C	28515891	3	2	116	1	0	0	0	0	1	0	0	0	7074	933	33	5	13633	5	HERC2	15	28515891	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	157619	28515891	74015501	311	66080											
PLA2G4D	283748	broad.mit.edu	37	chr15	42374530	42374530	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaatggtcaagggcctcaGgggcacagtgaggtacccag	10	5	14	12	0	2	1	2	1	0	0	2	1	2	1	3	5	1	2	3	5	3	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr15:42374530G>A	uc001zox.2	-	9	825	c.730C>T	c.(730-732)CTG>TTG	p.L244L		NM_178034	NP_828848	Q86XP0	PA24D_HUMAN	phospholipase A2, group IVD	244					phospholipid catabolic process	cytoplasmic vesicle membrane|cytosol	metal ion binding|phospholipase A2 activity			large_intestine(1)|skin(1)	2		all_cancers(109;6.37e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.019)|Ovarian(310;0.143)|Colorectal(260;0.245)		OV - Ovarian serous cystadenocarcinoma(18;4.9e-17)|GBM - Glioblastoma multiforme(94;1.02e-06)		AAGGGCCTCAGGGGCACAGTG	0.443													10	42					0	0	0.010729	0	0		A	42374530	A	A	42374530	2	1	116	1	0	0	0	0	0	0	0	1	12023	991	35	4		4	PLA2G4D	15	42374530	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	13858639	42374530	60156862	312	66081											
SPPL2A	84888	broad.mit.edu	37	chr15	51031977	51031977	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaagttaaatattcttccttCtttttcctcatttctctatc	9	21	1	10	0	4	0	1	0	3	0	8	0	6	0	2	0	0	1	2	0	5	9			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr15:51031977C>G	uc001zyv.2	-	6	813	c.633G>C	c.(631-633)AAG>AAC	p.K211N		NM_032802	NP_116191	Q8TCT8	PSL2_HUMAN	signal peptide peptidase-like 2A	211						integral to membrane	aspartic-type endopeptidase activity				0				all cancers(107;0.000712)|GBM - Glioblastoma multiforme(94;0.00314)		ATTCTTCCTTCTTTTTCCTCA	0.338													7	51					0	0	0.001984	0	0		G	51031977	G	G	51031977	3	3	116	1	0	0	0	0	1	0	0	0	15113	912	32	5	969	5	SPPL2A	15	51031977	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	8657447	51031977	51499415	313	66082											
MTFMT	123263	broad.mit.edu	37	chr15	65319186	65319186	+	Silent	SNP	A	G	G																															tactagggaaatttaagaatAagagcctcattcaaaagtcg																										TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr15:65319186A>G	uc002aof.3	-	2	428	c.402T>C	c.(400-402)CTT>CTC	p.L134L		NM_139242	NP_640335	Q96DP5	FMT_HUMAN	mitochondrial methionyl-tRNA formyltransferase	134						mitochondrion	methionyl-tRNA formyltransferase activity|methyltransferase activity			ovary(2)	2					Tetrahydrofolic acid(DB00116)	ATTTAAGAATAAGAGCCTCAT	0.373													8	54					0	0	0.00308	0	0		G	65319186	G	G	65319186	2	3	116	1	0	0	0	0	0	0	0	1	9942	349	13	3		3	MTFMT	15	65319186	Silent	SNP	A	TCGA-CD-8529-01A-11D-2340-08	14287209	65319186	37212206	314	66083	122	2									
MTFMT	123263	broad.mit.edu	37	chr15	65319188	65319188	+	Missense_Mutation	SNP	G	C	C																															ctagggaaatttaagaataaGagcctcattcaaaagtcggc																										TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr15:65319188G>C	uc002aof.3	-	2	426	c.400C>G	c.(400-402)CTT>GTT	p.L134V		NM_139242	NP_640335	Q96DP5	FMT_HUMAN	mitochondrial methionyl-tRNA formyltransferase	134						mitochondrion	methionyl-tRNA formyltransferase activity|methyltransferase activity			ovary(2)	2					Tetrahydrofolic acid(DB00116)	TTAAGAATAAGAGCCTCATTC	0.378													8	54					0	0	0.00308	0	0		C	65319188	C	C	65319188	3	2	116	1	0	0	0	0	1	0	0	0	9942	942	33	5	801	5	MTFMT	15	65319188	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	2	65319188	37212204	315	66084	122	2									
GOLGA6C	653641	broad.mit.edu	37	chr15	75557726	75557726	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaacacataaaaggagagagGgcccggtggcaggagaggat	16	3	16	6	1	0	2	0	0	0	2	0	6	0	4	1	6	1	1	1	6	3	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr15:75557726G>T	uc002azs.1	+	9	761	c.684G>T	c.(682-684)AGG>AGT	p.R228S	uc002azt.1_5'Flank	NM_001145224	NP_001138696	A6NDK9	GOG6C_HUMAN	golgi autoantigen, golgin subfamily a, 6D	240	Potential.									ovary(1)	1						AAGGAGAGAGGGCCCGGTGGC	0.433													12	96					3.45872e-05	3.82795e-05	0.004007	1	0		T	75557726	T	T	75557726	3	4	116	1	0	0	0	0	1	0	0	0	6574	1223	43	5	754	5	GOLGA6C	15	75557726	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	10238538	75557726	26973666	316	66085											
POLG	5428	broad.mit.edu	37	chr15	89868908	89868908	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctagccgggggcagagcttCcggtaccatctacgtcccag	7	8	12	14	3	2	1	0	0	2	1	4	1	4	1	4	3	4	3	4	3	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr15:89868908C>A	uc002bns.3	-	10	2004	c.1722G>T	c.(1720-1722)CGG>CGT	p.R574R	POLG_uc002bnr.3_Silent_p.R574R	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	574			R -> W (in PEOB; sporadic case).		base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			GGCAGAGCTTCCGGTACCATC	0.612								DNA_polymerases_(catalytic_subunits)					5	71					4.096e-09	4.75061e-09	0.001168	1	0		A	89868908	A	A	89868908	2	1	116	1	0	0	0	0	0	0	0	1	12219	842	30	5		5	POLG	15	89868908	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	14311182	89868908	12662484	317	66086											
FURIN	5045	broad.mit.edu	37	chr15	91424172	91424172	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaacagggacgctgaccaAgttcaccctcgtactctatg	10	9	10	12	2	2	1	1	1	1	0	3	3	2	3	2	2	2	3	2	2	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr15:91424172A>C	uc002bpu.1	+	15	1910	c.1694A>C	c.(1693-1695)AAG>ACG	p.K565T		NM_002569	NP_002560	P09958	FURIN_HUMAN	furin preproprotein	565	Cys-rich.				cell proliferation|negative regulation of low-density lipoprotein particle receptor catabolic process|negative regulation of transforming growth factor-beta1 production|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|Notch signaling pathway|peptide biosynthetic process|peptidyl-glutamic acid carboxylation|post-translational protein modification|secretion by cell|signal peptide processing|transforming growth factor beta receptor signaling pathway|viral assembly, maturation, egress, and release	cell surface|Golgi lumen|Golgi membrane|integral to membrane|membrane raft|plasma membrane|trans-Golgi network|trans-Golgi network transport vesicle	metal ion binding|nerve growth factor binding|peptide binding|protease binding|serine-type endopeptidase activity|serine-type endopeptidase inhibitor activity			central_nervous_system(4)|lung(2)|breast(1)	7	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			ACGCTGACCAAGTTCACCCTC	0.622													8	116					0	0	0.006214	0	0		C	91424172	C	C	91424172	3	2	116	1	0	0	0	0	1	0	0	0	6113	72	3	5	1748	5	FURIN	15	91424172	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	1555264	91424172	11107220	318	66087											
HDDC3	374659	broad.mit.edu	37	chr15	91475027	91475027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gctactgtggggcgcttgctCcacctgcagcctctttctct	3	13	10	15	1	2	0	0	0	2	0	4	0	3	0	3	2	4	4	3	2	1	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr15:91475027C>T	uc002bqf.3	-	3	320	c.316G>A	c.(316-318)GAG>AAG	p.E106K	UNC45A_uc002bqd.2_Intron|HDDC3_uc002bqe.3_Missense_Mutation_p.E106K	NM_198527	NP_940929	Q8N4P3	MESH1_HUMAN	HD domain containing 3	106	HD.						guanosine-3',5'-bis(diphosphate) 3'-diphosphatase activity|metal ion binding|phosphoric diester hydrolase activity			ovary(1)	1	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			GGCGCTTGCTCCACCTGCAGC	0.597											OREG0023475	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	145					0	0	0.008291	0	0		T	91475027	T	T	91475027	3	4	116	1	0	0	0	0	1	0	0	0	7033	864	30	4	114	4	HDDC3	15	91475027	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	50855	91475027	11056365	319	66088											
PIGQ	9091	broad.mit.edu	37	chr16	629087	629087	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggctgtactgcctgaagatCcatggcctgtcctcactgtg	7	11	11	12	0	1	2	1	1	0	1	3	2	3	2	4	2	2	2	4	2	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:629087C>T	uc002cho.2	+	7	1344	c.1242C>T	c.(1240-1242)ATC>ATT	p.I414I	PIGQ_uc010bqw.2_Silent_p.I414I|PIGQ_uc002chn.2_Silent_p.I414I|PIGQ_uc010uui.1_Silent_p.I428I|PIGQ_uc002chp.2_5'Flank	NM_148920	NP_683721	Q9BRB3	PIGQ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	414	Leu-rich.				C-terminal protein lipidation|carbohydrate metabolic process|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity			central_nervous_system(1)	1		Hepatocellular(780;0.00335)				GCCTGAAGATCCATGGCCTGT	0.512													9	55					0	0	0.004482	0	0		T	629087	T	T	629087	2	4	116	1	0	0	0	0	0	0	0	1	11915	845	30	4		4	PIGQ	16	629087	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08		629087	89725666	320	66089											
STUB1	10273	broad.mit.edu	37	chr16	731803	731803	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caacccccagggagctggaaGagtgccagcgaaaccacgag	13	2	13	13	2	0	1	0	0	0	1	0	5	0	3	4	2	5	1	4	2	3	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:731803G>C	uc002cit.2	+	4	946	c.535G>C	c.(535-537)GAG>CAG	p.E179Q	STUB1_uc002ciu.2_Missense_Mutation_p.E107Q|STUB1_uc010bqz.2_RNA|STUB1_uc002civ.2_RNA|JMJD8_uc002ciw.1_3'UTR|JMJD8_uc002cix.1_3'UTR|JMJD8_uc002ciy.1_3'UTR	NM_005861	NP_005852	Q9UNE7	CHIP_HUMAN	STIP1 homology and U-box containing protein 1	179					cellular response to misfolded protein|DNA repair|misfolded or incompletely synthesized protein catabolic process|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein K63-linked ubiquitination|protein maturation|regulation of glucocorticoid metabolic process|ubiquitin-dependent SMAD protein catabolic process	cytoplasm|nuclear inclusion body|ubiquitin conjugating enzyme complex|ubiquitin ligase complex	Hsp70 protein binding|Hsp90 protein binding|kinase binding|misfolded protein binding|protein binding, bridging|protein homodimerization activity|SMAD binding|TPR domain binding|ubiquitin-ubiquitin ligase activity				0		Hepatocellular(780;0.00335)				GGAGCTGGAAGAGTGCCAGCG	0.627													8	65					0	0	0.004482	0	0		C	731803	C	C	731803	3	2	116	1	0	0	0	0	1	0	0	0	15360	943	33	5	549	5	STUB1	16	731803	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	102716	731803	89622950	321	66090											
NAT15	79903	broad.mit.edu	37	chr16	3533413	3533413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acatatcaaccaccgcccagGaccactgcaaagccatttac	14	6	5	16	1	1	0	1	0	0	0	1	1	1	1	5	1	4	1	5	1	4	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:3533413G>A	uc002cvh.3	+	6	634	c.388G>A	c.(388-390)GAC>AAC	p.D130N	NAT15_uc010uxb.1_Missense_Mutation_p.D137N|NAT15_uc010btk.1_Missense_Mutation_p.D65N|NAT15_uc010btl.2_Intron|NAT15_uc010btm.2_Missense_Mutation_p.D130N|NAT15_uc010uxc.1_Missense_Mutation_p.D130N|NAT15_uc010uxd.1_Intron|NAT15_uc010uxe.1_Intron|NAT15_uc002cvg.1_Missense_Mutation_p.D130N	NM_001083601	NP_001077070	Q9H7X0	NAT15_HUMAN	N-acetyltransferase 15	130	N-acetyltransferase.						N-acetyltransferase activity				0						CACCGCCCAGGACCACTGCAA	0.463													6	30					0	0	0.001168	0	0		A	3533413	A	A	3533413	3	1	116	1	0	0	0	0	1	0	0	0	10194	1174	41	4	402	4	NAT15	16	3533413	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	2801610	3533413	86821340	322	66091											
GRIN2A	2903	broad.mit.edu	37	chr16	9892258	9892258	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatggtcaccagcttgcaGccttcatccctcccagcctt	6	10	7	18	1	2	0	2	0	0	0	4	1	4	0	6	1	4	2	6	1	0	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:9892258G>A	uc002czo.3	-	11	2780	c.2232C>T	c.(2230-2232)GGC>GGT	p.G744G	GRIN2A_uc010uym.1_Silent_p.G744G|GRIN2A_uc010uyn.1_Silent_p.G587G|GRIN2A_uc002czr.3_Silent_p.G744G	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	744	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CCAGCTTGCAGCCTTCATCCC	0.542													8	88					0	0	0.004482	0	0		A	9892258	A	A	9892258	2	1	116	1	0	0	0	0	0	0	0	1	6795	958	34	2		2	GRIN2A	16	9892258	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	6358845	9892258	80462495	323	66092											
PDXDC1	23042	broad.mit.edu	37	chr16	15098145	15098145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagctgagaaaacttacaaCtaggatactttcagatacca	17	9	7	8	0	1	2	1	1	0	2	1	5	1	3	1	1	6	1	1	1	8	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:15098145C>T	uc002dda.3	+	5	568	c.344C>T	c.(343-345)ACT>ATT	p.T115I	PDXDC1_uc010uzl.1_Missense_Mutation_p.T100I|PDXDC1_uc010uzm.1_Intron|PDXDC1_uc010bvc.1_Missense_Mutation_p.T56I|PDXDC1_uc002dcz.2_Missense_Mutation_p.T115I|PDXDC1_uc002ddb.3_Missense_Mutation_p.T88I|PDXDC1_uc010uzn.1_Missense_Mutation_p.T87I|PDXDC1_uc002ddc.2_Missense_Mutation_p.T115I	NM_015027	NP_055842	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain	115					carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	AAACTTACAACTAGGATACTT	0.388													15	264					0	0	0.004007	0	0		T	15098145	T	T	15098145	3	4	116	1	0	0	0	0	1	0	0	0	11715	565	20	4	362	4	PDXDC1	16	15098145	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	5205887	15098145	75256608	324	66093											
TMC5	79838	broad.mit.edu	37	chr16	19477458	19477458	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacaccaattccaccatcCagcacgggaacagcggggca	12	6	9	14	2	0	0	0	0	0	0	2	1	2	1	4	3	4	2	4	3	3	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:19477458C>A	uc002dgc.3	+	9	2289	c.1540C>A	c.(1540-1542)CAG>AAG	p.Q514K	TMC5_uc010vaq.1_Missense_Mutation_p.Q514K|TMC5_uc002dgb.3_Missense_Mutation_p.Q514K|TMC5_uc010var.1_Missense_Mutation_p.Q514K|TMC5_uc002dgd.1_Missense_Mutation_p.Q268K|TMC5_uc002dge.3_Missense_Mutation_p.Q268K|TMC5_uc002dgf.3_Missense_Mutation_p.Q197K|TMC5_uc002dgg.3_Missense_Mutation_p.Q155K	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	514	Extracellular (Potential).					integral to membrane				skin(1)	1						TTCCACCATCCAGCACGGGAA	0.468													7	60					2.0095e-06	2.26347e-06	0.001984	1	0		A	19477458	A	A	19477458	3	1	116	1	0	0	0	0	1	0	0	0	16013	595	21	5	1880	5	TMC5	16	19477458	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	4379313	19477458	70877295	325	66094											
DNAH3	55567	broad.mit.edu	37	chr16	20970669	20970669	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggccttggccttggccaaggGagatggtctgtgttctggta	5	12	16	8	0	2	1	0	0	2	1	2	2	2	1	3	6	0	2	3	6	2	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:20970669G>C	uc010vbe.1	-	54	10658	c.10658C>G	c.(10657-10659)TCC>TGC	p.S3553C	DNAH3_uc010vbd.1_Missense_Mutation_p.S988C	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3553	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TTGGCCAAGGGAGATGGTCTG	0.532													15	119					0	0	0.003163	0	0		C	20970669	C	C	20970669	3	2	116	1	0	0	0	0	1	0	0	0	4609	1174	41	5	1727	5	DNAH3	16	20970669	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1493211	20970669	69384084	326	66095											
DNAH3	55567	broad.mit.edu	37	chr16	20999373	20999373	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggaaatgatattcagatGgcgagtgaatcgtcctgggg	11	10	15	5	2	1	3	1	2	0	1	3	6	2	4	1	4	0	0	1	4	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:20999373G>C	uc010vbe.1	-	45	6616	c.6616C>G	c.(6616-6618)CAT>GAT	p.H2206D	DNAH3_uc010vbd.1_5'Flank	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2206	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ATATTCAGATGGCGAGTGAAT	0.438													8	114					0	0	0.004482	0	0		C	20999373	C	C	20999373	3	2	116	1	0	0	0	0	1	0	0	0	4609	1348	47	5	5805	5	DNAH3	16	20999373	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	28704	20999373	69355380	327	66096											
DNAH3	55567	broad.mit.edu	37	chr16	21042585	21042585	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgatgatcttgtactccaCagcaaactcctccatctgat	10	13	6	12	0	2	3	0	3	2	0	5	3	5	3	3	0	3	3	3	0	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:21042585C>G	uc010vbe.1	-	37	5221	c.5221G>C	c.(5221-5223)GTG>CTG	p.V1741L		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1741	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TTGTACTCCACAGCAAACTCC	0.493													9	61					0	0	0.004482	0	0		G	21042585	G	G	21042585	3	3	116	1	0	0	0	0	1	0	0	0	4609	478	17	5	7232	5	DNAH3	16	21042585	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	43212	21042585	69312168	328	66097											
ANKS4B	257629	broad.mit.edu	37	chr16	21261950	21261950	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagtgttcttgctgtctCagcacctggaagaattcctg	8	13	11	9	0	2	1	1	0	2	1	4	3	3	3	2	2	2	3	2	2	3	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:21261950C>A	uc010bwp.1	+	2	1106	c.1063C>A	c.(1063-1065)CAG>AAG	p.Q355K	CRYM_uc010bwq.1_Intron	NM_145865	NP_665872	Q8N8V4	ANS4B_HUMAN	harmonin-interacting ankyrin-repeat containing	355	SAM.									ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0565)		CTTGCTGTCTCAGCACCTGGA	0.512													4	49					0.00909568	0.00933456	0.009096	1	0		A	21261950	A	A	21261950	3	1	116	1	0	0	0	0	1	0	0	0	691	827	29	5	1069	5	ANKS4B	16	21261950	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	219365	21261950	69092803	329	66098											
KIF22	3835	broad.mit.edu	37	chr16	29816605	29816605	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacatcctgggtctcgccGccggccagcgctgtggcgcc	5	6	13	17	5	1	0	0	0	1	0	3	0	2	0	5	3	2	1	5	3	1	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:29816605G>T	uc002dts.3	+	14	1996	c.1972G>T	c.(1972-1974)GCC>TCC	p.A658S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|KIF22_uc010vdv.1_Missense_Mutation_p.A590S|KIF22_uc010vdw.1_Missense_Mutation_p.A590S|KIF22_uc010bzf.2_Missense_Mutation_p.A604S|KIF22_uc002dtt.1_3'UTR|KIF22_uc002frc.1_RNA|MAZ_uc002dtv.1_5'Flank|MAZ_uc010vdx.1_5'Flank|MAZ_uc002dtw.2_5'Flank|MAZ_uc002dtx.2_5'Flank|MAZ_uc002dty.2_5'Flank|MAZ_uc010bzg.2_5'Flank|MAZ_uc002dtz.1_5'Flank|MAZ_uc002dua.2_5'Flank|MAZ_uc010vdy.1_5'Flank	NM_007317	NP_015556	Q14807	KIF22_HUMAN	kinesin family member 22	658					blood coagulation|DNA repair|microtubule-based movement|mitosis	cytosol|kinetochore|microtubule|nucleus	ATP binding|DNA binding|microtubule motor activity|protein binding				0						GGGTCTCGCCGCCGGCCAGCG	0.612													15	186					8.10497e-08	9.29419e-08	0.010504	1	0		T	29816605	T	T	29816605	3	4	116	1	0	0	0	0	1	0	0	0	8306	1087	38	5	2026	5	KIF22	16	29816605	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	8554655	29816605	60538148	330	66099											
CD2BP2	10421	broad.mit.edu	37	chr16	30364910	30364910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagccggtccaggcgctgaGgggaactgggttgcccaggc	7	5	18	11	2	0	2	0	1	0	1	1	3	1	3	3	6	3	2	3	6	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:30364910G>A	uc002dxr.2	-	4	840	c.587C>T	c.(586-588)CCT>CTT	p.P196L	CD2BP2_uc002dxs.2_Missense_Mutation_p.P196L	NM_006110	NP_006101	O95400	CD2B2_HUMAN	CD2 antigen (cytoplasmic tail) binding protein	196					assembly of spliceosomal tri-snRNP	cytoplasm|nucleoplasm|U5 snRNP	protein binding|ribonucleoprotein binding			ovary(1)	1						CAGGCGCTGAGGGGAACTGGG	0.647													4	27					0	0	0.009096	0	0		A	30364910	A	A	30364910	3	1	116	1	0	0	0	0	1	0	0	0	2998	1000	35	4	450	4	CD2BP2	16	30364910	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	548305	30364910	59989843	331	66100											
BCL7C	9274	broad.mit.edu	37	chr16	30904233	30904233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccgacgttcccggccacGggatctctctgccccgccac	4	6	10	21	5	2	0	0	0	2	0	4	2	3	1	7	2	1	1	7	2	0	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:30904233G>A	uc002dzv.2	-	3	342	c.208C>T	c.(208-210)CGT>TGT	p.R70C	BCL7C_uc002dzt.1_Missense_Mutation_p.R70C|uc002dzu.2_Intron|MIR762_hsa-mir-762|MI0003892_5'Flank	NM_004765	NP_004756	Q8WUZ0	BCL7C_HUMAN	B-cell CLL/lymphoma 7C	70					apoptosis						0			Colorectal(24;0.198)			TCCCGGCCACGGGATCTCTCT	0.637													17	74					0	0	0.006122	0	0		A	30904233	A	A	30904233	3	1	116	1	0	0	0	0	1	0	0	0	1381	1116	39	1	461	1	BCL7C	16	30904233	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	539323	30904233	59450520	332	66101											
ITGAX	3687	broad.mit.edu	37	chr16	31382721	31382721	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgagatccccaggtctgcGtttgagtgtcgggagcaggt	6	9	16	10	3	1	2	0	1	1	1	3	4	2	3	3	3	2	2	3	3	0	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:31382721G>A	uc002ebu.1	+	16	1975	c.1908G>A	c.(1906-1908)GCG>GCA	p.A636A	ITGAX_uc002ebt.2_Silent_p.A636A	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	636	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CCAGGTCTGCGTTTGAGTGTC	0.587													7	45					0	0	0.00308	0	0		A	31382721	A	A	31382721	2	1	116	1	0	0	0	0	0	0	0	1	7905	1132	40	1		1	ITGAX	16	31382721	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	478488	31382721	58972032	333	66102											
ITGAD	3681	broad.mit.edu	37	chr16	31424270	31424270	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acctggccgtgggggcccggGgccaggtgctcctgctcagg	3	6	18	14	2	1	0	1	0	0	0	2	0	2	0	5	7	2	2	5	7	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:31424270G>C	uc002ebv.1	+	15	1868	c.1819G>C	c.(1819-1821)GGC>CGC	p.G607R	ITGAD_uc010cap.1_Missense_Mutation_p.G608R	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	607	Extracellular (Potential).|FG-GAP 7.				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						GGGGGCCCGGGGCCAGGTGCT	0.667													10	69					0	0	0.006214	0	0		C	31424270	C	C	31424270	3	2	116	1	0	0	0	0	1	0	0	0	7900	1232	43	5	1877	5	ITGAD	16	31424270	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	41549	31424270	58930483	334	66103											
MYLK3	91807	broad.mit.edu	37	chr16	46746663	46746663	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcaggagtgccgaagttcaCcttcagcttctctcgaggct	7	11	10	13	2	4	0	3	0	1	0	6	3	4	1	2	2	2	3	2	2	1	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:46746663C>G	uc002eei.3	-	10	2127	c.2011G>C	c.(2011-2013)GTG>CTG	p.V671L	MYLK3_uc010vge.1_Missense_Mutation_p.V330L	NM_182493	NP_872299	Q32MK0	MYLK3_HUMAN	myosin light chain kinase 3	671	Protein kinase.				cardiac myofibril assembly|cellular response to interleukin-1|positive regulation of sarcomere organization|regulation of vascular permeability involved in acute inflammatory response|sarcomere organization|sarcomerogenesis	cytosol	ATP binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			stomach(2)|skin(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	7		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				CCGAAGTTCACCTTCAGCTTC	0.542													6	58					0	0	0.001984	0	0		G	46746663	G	G	46746663	3	3	116	1	0	0	0	0	1	0	0	0	10076	507	18	5	464	5	MYLK3	16	46746663	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	15322393	46746663	43608090	335	66104											
ABCC11	85320	broad.mit.edu	37	chr16	48212523	48212523	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaccttcatgtactgcagTatcctctctacagccgtgaa	9	11	6	15	1	2	1	1	1	1	0	4	1	3	1	4	0	4	3	4	0	4	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:48212523T>A	uc002eff.1	-	23	3683	c.3333A>T	c.(3331-3333)ATA>ATT	p.I1111I	ABCC11_uc002efg.1_Silent_p.I1111I|ABCC11_uc002efh.1_Silent_p.I1111I|ABCC11_uc010cbg.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	1111	Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				TGTACTGCAGTATCCTCTCTA	0.582									Cerumen_Type				9	86					0	0	0.004482	0	0		A	48212523	A	A	48212523	2	1	116	1	0	0	0	0	0	0	0	1	51	1628	57	5		5	ABCC11	16	48212523	Silent	SNP	T	TCGA-CD-8529-01A-11D-2340-08	1465860	48212523	42142230	336	66105											
CYLD	1540	broad.mit.edu	37	chr16	50813850	50813850	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggaactcacatggtctagaAgtgggctcattggctgaagt	10	10	14	7	0	3	2	2	1	1	1	3	3	3	3	0	4	1	2	0	4	4	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:50813850A>T	uc002egp.1	+	9	1828	c.1413A>T	c.(1411-1413)GAA>GAT	p.E471D	CYLD_uc002ego.2_Missense_Mutation_p.E468D|CYLD_uc010cbs.1_Missense_Mutation_p.E468D|CYLD_uc002egq.1_Missense_Mutation_p.E468D|CYLD_uc002egr.1_Missense_Mutation_p.E468D|CYLD_uc002egs.1_Missense_Mutation_p.E468D	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	471	Interaction with TRIP.|Interaction with IKBKG/NEMO.				cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				ATGGTCTAGAAGTGGGCTCAT	0.532			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				21	72					0	0	0.008871	0	0		T	50813850	T	T	50813850	3	4	116	1	0	0	0	0	1	0	0	0	4146	69	3	5	1439	5	CYLD	16	50813850	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	2601327	50813850	39540903	337	66106											
FTO	79068	broad.mit.edu	37	chr16	54145683	54145683	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcttccaggtgccagtcAcgaattgcccgaacattacc	10	10	7	14	2	2	0	1	0	1	0	3	2	3	0	4	1	5	0	4	1	4	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:54145683A>G	uc002ehr.2	+	9	1596	c.1374A>G	c.(1372-1374)TCA>TCG	p.S458S	FTO_uc010vha.1_Silent_p.S162S|FTO_uc010cbz.2_Silent_p.S59S|FTO_uc002ehs.2_RNA	NM_001080432	NP_001073901	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	458					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GGTGCCAGTCACGAATTGCCC	0.512													21	169					0	0	0.010504	0	0		G	54145683	G	G	54145683	2	3	116	1	0	0	0	0	0	0	0	1	6100	146	6	3		3	FTO	16	54145683	Silent	SNP	A	TCGA-CD-8529-01A-11D-2340-08	3331833	54145683	36209070	338	66107											
SLC6A2	6530	broad.mit.edu	37	chr16	55690822	55690822	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgctgtccgtagtcggcttCgcagtggacctggccaacgt	5	10	13	13	4	0	0	0	0	0	0	3	1	1	1	3	3	2	4	3	3	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:55690822C>T	uc002eif.2	+	2	327	c.216C>T	c.(214-216)TTC>TTT	p.F72F	SLC6A2_uc010ccd.2_Silent_p.F72F|SLC6A2_uc002eig.2_Silent_p.F72F|SLC6A2_uc002eih.2_Silent_p.F72F	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	72	Helical; Name=1; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	TAGTCGGCTTCGCAGTGGACC	0.672													14	111					0	0	0.003163	0	0		T	55690822	T	T	55690822	2	4	116	1	0	0	0	0	0	0	0	1	14708	883	31	1		1	SLC6A2	16	55690822	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1545139	55690822	34663931	339	66108											
CNGB1	1258	broad.mit.edu	37	chr16	57931344	57931344	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgagactcaggataatgcaCcaaaatctcattcaggtcct	13	10	7	11	0	3	1	3	1	1	1	5	3	4	2	2	2	1	1	2	2	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:57931344C>T	uc002emt.2	-	31	3264	c.3199G>A	c.(3199-3201)GTG>ATG	p.V1067M	CNGB1_uc010cdh.2_Missense_Mutation_p.V1061M	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	1067	Cytoplasmic (Potential).|cAMP (By similarity).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						GGATAATGCACCAAAATCTCA	0.463													8	53					0	0	0.00308	0	0		T	57931344	T	T	57931344	3	4	116	1	0	0	0	0	1	0	0	0	3603	507	18	4	568	4	CNGB1	16	57931344	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	2240522	57931344	32423409	340	66109											
CNOT1	23019	broad.mit.edu	37	chr16	58562514	58562514	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	taatcacaaaggaactctggGaaatcatgcaaaagaaccag	19	6	8	8	0	3	1	2	0	1	1	3	3	3	3	1	2	3	1	1	2	7	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:58562514G>A	uc002env.2	-	44	6611	c.6318C>T	c.(6316-6318)TTC>TTT	p.F2106F	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Silent_p.F2101F|CNOT1_uc002ent.2_Silent_p.F44F|CNOT1_uc010vik.1_Silent_p.F1063F	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	2106					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		GGAACTCTGGGAAATCATGCA	0.358													23	50					0	0	0.012319	0	0		A	58562514	A	A	58562514	2	1	116	1	0	0	0	0	0	0	0	1	3620	1165	41	4		4	CNOT1	16	58562514	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	631170	58562514	31792239	341	66110											
CDH16	1014	broad.mit.edu	37	chr16	66948278	66948278	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgacctgtaccaacagctgGtaggtcctctccagggcgtg	7	10	12	12	1	1	1	0	1	1	0	3	1	2	1	4	3	3	3	4	3	3	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:66948278G>A	uc002eql.2	-	7	694	c.621C>T	c.(619-621)TAC>TAT	p.Y207Y	CDH16_uc010cdy.2_Silent_p.Y207Y|CDH16_uc002eqm.2_Intron	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	207	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		CCAACAGCTGGTAGGTCCTCT	0.622													9	37					0	0	0.004482	0	0		A	66948278	A	A	66948278	2	1	116	1	0	0	0	0	0	0	0	1	3104	1256	44	4		4	CDH16	16	66948278	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	8385764	66948278	23406475	342	66111											
DUS2L	54920	broad.mit.edu	37	chr16	68100496	68100496	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataccctgagccttgtgaagCggatagagaggactggcatt	11	9	13	8	1	0	3	0	2	0	1	0	6	0	5	2	3	3	1	2	3	3	4	rs143329208		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:68100496C>A	uc002evi.2	+	10	660	c.511C>A	c.(511-513)CGG>AGG	p.R171R	DUS2L_uc002evj.2_Silent_p.R171R|DUS2L_uc010vkk.1_Silent_p.R136R|DUS2L_uc010cez.2_Silent_p.R84R	NM_017803	NP_060273	Q9NX74	DUS2L_HUMAN	dihydrouridine synthase 2-like, SMM1 homolog	171					tRNA processing	endoplasmic reticulum	double-stranded RNA binding|flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0131)|Epithelial(162;0.0564)		CCTTGTGAAGCGGATAGAGAG	0.542													15	247					7.05477e-17	8.51264e-17	0.00499	1	0		A	68100496	A	A	68100496	2	1	116	1	0	0	0	0	0	0	0	1	4812	759	27	5		5	DUS2L	16	68100496	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1152218	68100496	22254257	343	66112											
WWP2	11060	broad.mit.edu	37	chr16	69832599	69832599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccagtggtgtccgcaaagCccaaggtgcataatcgtcaa	11	8	10	12	2	1	0	1	0	0	0	4	0	3	0	3	2	2	2	3	2	4	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr16:69832599C>T	uc002exu.1	+	4	174	c.85C>T	c.(85-87)CCC>TCC	p.P29S	WWP2_uc002ext.2_Missense_Mutation_p.P29S|WWP2_uc002exv.1_Missense_Mutation_p.P29S	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	29	C2.				entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						GTCCGCAAAGCCCAAGGTGCA	0.537											OREG0023909	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	129					0	0	0.006214	0	0		T	69832599	T	T	69832599	3	4	116	1	0	0	0	0	1	0	0	0	17442	739	26	2	91	2	WWP2	16	69832599	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1732103	69832599	20522154	344	66113											
INPP5K	51763	broad.mit.edu	37	chr17	1416808	1416808	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgctccacgagtcattaaagGcagcatcggaaaggaggctt	12	8	12	9	2	1	0	1	0	0	0	3	3	2	2	1	4	2	4	1	4	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:1416808G>T	uc002fsr.2	-	3	589	c.200C>A	c.(199-201)GCC>GAC	p.A67D	INPP5K_uc002fss.2_5'UTR|INPP5K_uc002fsq.2_5'UTR|INPP5K_uc010cjr.2_5'UTR|INPP5K_uc010vql.1_Intron|INPP5K_uc010vqm.1_Missense_Mutation_p.A67D|INPP5K_uc010cjs.2_Intron	NM_016532	NP_057616	Q9BT40	INP5K_HUMAN	inositol polyphosphate-5-phosphatase K isoform	67	Catalytic (Potential).				actin cytoskeleton organization	cytosol|endoplasmic reticulum|membrane fraction|neuron projection|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol bisphosphate phosphatase activity|inositol bisphosphate phosphatase activity|inositol trisphosphate phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|lipid phosphatase activity|protein binding				0						GTCATTAAAGGCAGCATCGGA	0.512													13	118					1.52009e-12	1.81696e-12	0.003163	1	0		T	1416808	T	T	1416808	3	4	116	1	0	0	0	0	1	0	0	0	7776	1203	42	5	1186	5	INPP5K	17	1416808	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08		1416808	79778402	345	66114											
RAP1GAP2	23108	broad.mit.edu	37	chr17	2901595	2901596	+	Missense_Mutation	DNP	GA	TG	TG																															acgccgtttgtcccagacatGatagcctccaatttcttaca																										TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:2901595_2901596GA>TG	uc010ckd.2	+	14	1215_1216	c.1125_1126GA>TG	c.(1123-1128)ATGATA>ATTGTA	p.375_376MI>IV	RAP1GAP2_uc010cke.2_Missense_Mutation_p.360_361MI>IV	NM_015085	NP_055900	Q684P5	RPGP2_HUMAN	RAP1 GTPase activating protein 2 isoform 1	375_376	Rap-GAP.				regulation of small GTPase mediated signal transduction	centrosome|cytosol|perinuclear region of cytoplasm	GTPase activator activity			ovary(1)	1						TCCCAGACATGATAGCCTCCAA	0.485													8	107					0	0	0.004672	0	0		TG	2901596	TG	TG	2901595	3	4	116	1	0	0	0	0	1	0	0	0	13063	1290	45	5	1179	5	RAP1GAP2	17	2901595	Missense_Mutation	DNP	GA	TCGA-CD-8529-01A-11D-2340-08	1484787	2901595	78293615	346	66115											
OR1G1	8390	broad.mit.edu	37	chr17	3030266	3030266	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatcaccagctcattggTgaaggggtctgtgcaggaca	11	8	14	8	0	3	2	2	1	1	1	3	4	3	3	1	4	2	2	1	4	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:3030266T>G	uc002fvc.1	-	1	580	c.580A>C	c.(580-582)ACC>CCC	p.T194P		NM_003555	NP_003546	P47890	OR1G1_HUMAN	olfactory receptor, family 1, subfamily G,	194	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGCTCATTGGTGAAGGGGTCT	0.493													6	90					0	0	0.001168	0	0		G	3030266	G	G	3030266	3	3	116	1	0	0	0	0	1	0	0	0	10976	1696	59	5	365	5	OR1G1	17	3030266	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	128671	3030266	78164944	347	66116											
MYH3	4621	broad.mit.edu	37	chr17	10544004	10544004	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcattcagcactcggtatCtgcattgtagacatggaaat	11	12	10	8	1	2	1	1	0	1	1	3	2	2	2	0	3	2	5	0	3	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:10544004C>A	uc002gmq.1	-	19	2243	c.2166_splice	c.e19-1	p.R722_splice		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,						muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						cactcggtatctgcattgtag	0.164													7	32					0.00198382	0.00206512	0.001984	1	0		A	10544004	A	A	10544004	5	1	116	1	0	0	0	0	0	0	1	0	10054	927	32	5	3745	5	MYH3	17	10544004	Splice_Site	SNP	C	TCGA-CD-8529-01A-11D-2340-08	7513738	10544004	70651206	348	66117											
DNAH9	1770	broad.mit.edu	37	chr17	11696840	11696840	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcattctcttctcctcagtGgaatgtgtgaaatccacatg	9	13	9	10	0	3	1	1	1	2	0	6	2	4	2	2	2	0	1	2	2	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:11696840G>A	uc002gne.2	+	42	8150	c.8082G>A	c.(8080-8082)GTG>GTA	p.V2694V	DNAH9_uc010coo.2_Silent_p.V1988V	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2694					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TCTCCTCAGTGGAATGTGTGA	0.393													11	70					0	0	0.008291	0	0		A	11696840	A	A	11696840	2	1	116	1	0	0	0	0	0	0	0	1	4614	1335	47	4		4	DNAH9	17	11696840	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1152836	11696840	69498370	349	66118											
MYOCD	93649	broad.mit.edu	37	chr17	12649277	12649277	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaatccaaactcttcttCaacgccactgagcaataccc	14	8	4	15	1	3	2	1	1	2	1	4	2	4	2	3	0	4	1	3	0	5	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:12649277C>A	uc002gnn.2	+	9	1312	c.1013C>A	c.(1012-1014)TCA>TAA	p.S338*	MYOCD_uc002gno.2_Nonsense_Mutation_p.S338*|MYOCD_uc002gnp.1_Nonsense_Mutation_p.S242*|MYOCD_uc002gnq.2_Nonsense_Mutation_p.S57*	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	338					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		AACTCTTCTTCAACGCCACTG	0.423													13	134					0.00010058	0.000108944	0.013537	1	0		A	12649277	A	A	12649277	4	1	116	1	0	0	0	0	0	1	0	0	10105	838	29	5	1047	5	MYOCD	17	12649277	Nonsense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	952437	12649277	68545933	350	66119											
EVI2B	2124	broad.mit.edu	37	chr17	29632128	29632128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagttgatgttggttgtgtgGatggattatgaacagttatt	9	17	13	2	0	0	2	0	2	0	0	0	4	0	4	0	3	1	4	0	3	3	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:29632128G>A	uc002hgk.2	-	2	655	c.500C>T	c.(499-501)TCC>TTC	p.S167F	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2B_uc010csq.2_Missense_Mutation_p.S182F	NM_006495	NP_006486	P34910	EVI2B_HUMAN	ecotropic viral integration site 2B precursor	167	Extracellular (Potential).					cytoplasm|integral to plasma membrane				ovary(2)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;6.88e-13)|Epithelial(4;8.95e-12)|OV - Ovarian serous cystadenocarcinoma(4;1.01e-11)|GBM - Glioblastoma multiforme(4;0.184)		TGGTTGTGTGGATGGATTATG	0.353													30	211					0	0	0.00632	0	0		A	29632128	A	A	29632128	3	1	116	1	0	0	0	0	1	0	0	0	5296	1174	41	4	850	4	EVI2B	17	29632128	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	16982851	29632128	51563082	351	66120											
SRCIN1	80725	broad.mit.edu	37	chr17	36717777	36717777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggcccagggaagagctccGaagggggagctccggccgtc	8	3	17	13	3	0	1	0	0	0	1	3	4	2	3	4	5	2	2	4	5	2	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:36717777G>A	uc002hqd.2	-	7	1847	c.1622C>T	c.(1621-1623)TCG>TTG	p.S541L	SRCIN1_uc002hqf.1_Missense_Mutation_p.S413L|SRCIN1_uc002hqe.2_Missense_Mutation_p.S395L|SRCIN1_uc002hqg.2_5'Flank|SRCIN1_uc002hqh.1_Missense_Mutation_p.S601L	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	413					exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						GAAGAGCTCCGAAGGGGGAGC	0.687													5	18					0	0	0.001168	0	0		A	36717777	A	A	36717777	3	1	116	1	0	0	0	0	1	0	0	0	15161	1059	37	1	1981	1	SRCIN1	17	36717777	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	7085649	36717777	44477433	352	66121											
THRA	7067	broad.mit.edu	37	chr17	38233842	38233842	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttatcactaccgctgtaTcacttgtgagggctgcaagg	8	12	12	9	1	2	1	2	1	0	0	2	1	2	1	1	3	2	5	1	3	4	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:38233842T>C	uc002htw.2	+	4	686	c.203T>C	c.(202-204)ATC>ACC	p.I68T	THRA_uc010cwp.1_Missense_Mutation_p.I68T|THRA_uc002htv.2_Missense_Mutation_p.I68T|THRA_uc002htx.2_Missense_Mutation_p.I68T	NM_003250	NP_003241	P10827	THA_HUMAN	thyroid hormone receptor, alpha isoform 2	68	Nuclear receptor.|NR C4-type.				negative regulation of RNA polymerase II transcriptional preinitiation complex assembly|negative regulation of transcription initiation, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription from RNA polymerase II promoter	cytosol|nucleoplasm	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|TBP-class protein binding|thyroid hormone binding|thyroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding				0	Colorectal(19;0.000442)	Myeloproliferative disorder(1115;0.0255)			Levothyroxine(DB00451)|Liothyronine(DB00279)	TACCGCTGTATCACTTGTGAG	0.542													11	114					0	0	0.001855	0	0		C	38233842	C	C	38233842	3	2	116	1	0	0	0	0	1	0	0	0	15898	1435	50	3	213	3	THRA	17	38233842	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	1516065	38233842	42961368	353	66122											
WIPF2	147179	broad.mit.edu	37	chr17	38434461	38434461	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggagccccacctctgcCacccattctcaggtgaagcc	7	7	9	18	1	2	1	1	1	2	0	3	2	2	2	7	2	3	0	7	2	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:38434461C>A	uc002hug.1	+	8	1547	c.1307C>A	c.(1306-1308)CCA>CAA	p.P436Q	WIPF2_uc002huh.1_Missense_Mutation_p.P286Q|WIPF2_uc010cww.1_Missense_Mutation_p.P286Q|WIPF2_uc002hui.1_Missense_Mutation_p.P436Q|WIPF2_uc010cwx.1_Missense_Mutation_p.P178Q|WIPF2_uc010cwy.1_Missense_Mutation_p.P436Q	NM_133264	NP_573571	Q8TF74	WIPF2_HUMAN	WIRE protein	436						cytoplasm|cytoskeleton	actin binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						CCACCTCTGCCACCCATTCTC	0.502										HNSCC(43;0.11)			3	25					0.00024832	0.000265572	0.009096	1	0		A	38434461	A	A	38434461	3	1	116	1	0	0	0	0	1	0	0	0	17394	594	21	5	1333	5	WIPF2	17	38434461	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	200619	38434461	42760749	354	66123											
CDC6	990	broad.mit.edu	37	chr17	38450635	38450635	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtattgctaataccctggaTctcacagatagaattctacc	12	12	7	10	0	2	2	1	0	2	2	3	3	2	3	2	2	3	2	2	2	6	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:38450635T>A	uc002huj.1	+	7	1173	c.963T>A	c.(961-963)GAT>GAA	p.D321E		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	321					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						ATACCCTGGATCTCACAGATA	0.363													7	75					0	0	0.00308	0	0		A	38450635	A	A	38450635	3	1	116	1	0	0	0	0	1	0	0	0	3086	1432	50	5	985	5	CDC6	17	38450635	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	16174	38450635	42744575	355	66124											
KRT12	3859	broad.mit.edu	37	chr17	39019794	39019794	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaggcgcgacgcaggtcGgtgacctcgctcttgctgga	7	8	15	11	5	1	2	0	2	1	0	3	4	1	3	1	4	1	3	1	4	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:39019794G>A	uc002hvk.2	-	5	1062	c.1038C>T	c.(1036-1038)ACC>ACT	p.T346T		NM_000223	NP_000214	Q99456	K1C12_HUMAN	keratin 12	346	Rod.|Coil 2.				visual perception	intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				GACGCAGGTCGGTGACCTCGC	0.592													6	81					0	0	0.001168	0	0		A	39019794	A	A	39019794	2	1	116	1	0	0	0	0	0	0	0	1	8465	1103	39	1		1	KRT12	17	39019794	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	569159	39019794	42175416	356	66125											
KRT20	54474	broad.mit.edu	37	chr17	39041093	39041093	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaatatgcactgtagtcGcgaccagccctcggggcgtt	7	10	12	12	4	0	0	0	0	0	0	2	1	0	0	2	2	2	4	2	2	3	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:39041093G>A	uc002hvl.2	-	1	387	c.345C>T	c.(343-345)CGC>CGT	p.R115R		NM_019010	NP_061883	P35900	K1C20_HUMAN	keratin 20	115	Rod.|Linker 1.				apoptosis|intermediate filament organization	Golgi apparatus|intermediate filament	protein binding|structural constituent of cytoskeleton			large_intestine(1)|kidney(1)|skin(1)	3		Breast(137;0.000301)|Ovarian(249;0.15)				CACTGTAGTCGCGACCAGCCC	0.483													6	68					0	0	0.001168	0	0		A	39041093	A	A	39041093	2	1	116	1	0	0	0	0	0	0	0	1	8474	1074	38	1		1	KRT20	17	39041093	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	21299	39041093	42154117	357	66126											
KRT19	3880	broad.mit.edu	37	chr17	39684234	39684234	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtaggaggccaggcggTcgttgaggttctgcatggtt	6	10	17	8	2	1	1	0	1	1	0	2	2	1	2	2	7	1	5	2	7	1	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:39684234T>A	uc002hxd.3	-	1	408	c.266A>T	c.(265-267)GAC>GTC	p.D89V	JUP_uc010wfs.1_Intron	NM_002276	NP_002267	P08727	K1C19_HUMAN	keratin 19	89	Coil 1A.|Rod.				interspecies interaction between organisms|response to estrogen stimulus|sarcomere organization	costamere|intermediate filament	protein binding|structural constituent of cytoskeleton|structural constituent of muscle				0		Breast(137;0.00038)				GGCCAGGCGGTCGTTGAGGTT	0.692													9	132					0	0	0.004482	0	0		A	39684234	A	A	39684234	3	1	116	1	0	0	0	0	1	0	0	0	8472	1667	58	5	960	5	KRT19	17	39684234	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	643141	39684234	41510976	358	66127											
KRT16	3868	broad.mit.edu	37	chr17	39767353	39767353	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtctcagcgtctctgcGgtttttctctgccatctgct	3	15	9	14	2	4	0	1	0	4	0	7	0	4	0	2	2	4	2	2	2	0	2	rs140428349		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:39767353G>T	uc002hxg.3	-	4	1040	c.901C>A	c.(901-903)CGC>AGC	p.R301S	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	301	Rod.|Coil 2.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				GCGTCTCTGCGGTTTTTCTCT	0.607													19	225					1.00905e-13	1.21181e-13	0.008871	1	0		T	39767353	T	T	39767353	3	4	116	1	0	0	0	0	1	0	0	0	8469	1116	39	5	540	5	KRT16	17	39767353	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	83119	39767353	41427857	359	66128											
EIF1	10209	broad.mit.edu	37	chr17	39846155	39846155	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccaagggatcgctgatGattacgataaaaagaaacta	16	9	9	7	2	0	3	0	2	0	1	2	5	1	4	1	1	2	1	1	1	7	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:39846155G>T	uc002hxj.2	+	2	321	c.157G>T	c.(157-159)GAT>TAT	p.D53Y	JUP_uc010wfs.1_Intron|EIF1_uc002hxk.2_Intron	NM_005801	NP_005792	P41567	EIF1_HUMAN	eukaryotic translation initiation factor 1	53					regulation of translational initiation|response to stress	cytoplasm	translation initiation factor activity				0		Breast(137;0.000307)	BRCA - Breast invasive adenocarcinoma(4;0.0677)			GATCGCTGATGATTACGATAA	0.433											OREG0024409	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	111					0.000566183	0.000601718	0.00499	1	0		T	39846155	T	T	39846155	3	4	116	1	0	0	0	0	1	0	0	0	4996	1290	45	5	163	5	EIF1	17	39846155	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	78802	39846155	41349055	360	66129											
CNP	1267	broad.mit.edu	37	chr17	40125917	40125917	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtagccggaaggggggcgCcttgcagtcctgcaccatca	8	6	15	12	2	1	0	1	0	0	0	2	1	2	1	4	5	3	3	4	5	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:40125917C>G	uc002hyl.1	+	4	1385	c.1241C>G	c.(1240-1242)GCC>GGC	p.A414G	CNP_uc010wfz.1_Missense_Mutation_p.A291G|CNP_uc002hym.1_Missense_Mutation_p.A394G|CNP_uc010wga.1_Missense_Mutation_p.A179G|CNP_uc002hyn.1_Missense_Mutation_p.A179G	NM_033133	NP_149124	P09543	CN37_HUMAN	2',3'-cyclic nucleotide 3' phosphodiesterase	414					cell killing|cyclic nucleotide catabolic process|RNA metabolic process|synaptic transmission	extracellular space|melanosome	2',3'-cyclic-nucleotide 3'-phosphodiesterase activity|ATP binding|protein binding				0		all_cancers(22;2.38e-06)|all_epithelial(22;6.79e-05)|Breast(137;0.000143)		UCEC - Uterine corpus endometrioid carcinoma (308;0.171)		AAGGGGGGCGCCTTGCAGTCC	0.567													6	37					0	0	0.001168	0	0		G	40125917	G	G	40125917	3	3	116	1	0	0	0	0	1	0	0	0	3629	739	26	5	1255	5	CNP	17	40125917	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	279762	40125917	41069293	361	66130											
NFE2L1	4779	broad.mit.edu	37	chr17	46136555	46136555	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccgagccatgaagatccCtttcaccaatgacaaaatca	15	7	6	13	1	2	3	2	2	0	1	3	4	3	3	4	0	2	0	4	0	4	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:46136555C>G	uc002imz.3	+	6	2522	c.1871C>G	c.(1870-1872)CCT>CGT	p.P624R	NFE2L1_uc002ina.3_Missense_Mutation_p.P594R|NFE2L1_uc002inb.3_Missense_Mutation_p.P594R|NFE2L1_uc010wle.1_Missense_Mutation_p.P436R|NFE2L1_uc010wlf.1_Missense_Mutation_p.P468R	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	624					anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						ATGAAGATCCCTTTCACCAAT	0.542													6	69					0	0	0.001168	0	0		G	46136555	G	G	46136555	3	3	116	1	0	0	0	0	1	0	0	0	10386	681	24	5	1889	5	NFE2L1	17	46136555	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	6010638	46136555	35058655	362	66131											
C17orf71	55181	broad.mit.edu	37	chr17	57290168	57290168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caagtactccagatcctgctCctgctaaaaatgaatcctct	12	11	5	13	0	1	2	0	1	1	1	5	2	5	2	4	0	3	3	4	0	6	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:57290168C>T	uc002ixi.2	+	3	2026	c.1984C>T	c.(1984-1986)CCT>TCT	p.P662S		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	662					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					AGATCCTGCTCCTGCTAAAAA	0.403													21	200					0	0	0.014323	0	0		T	57290168	T	T	57290168	3	4	116	1	0	0	0	0	1	0	0	0	1881	855	30	4	1994	4	C17orf71	17	57290168	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	11153613	57290168	23905042	363	66132											
GNA13	10672	broad.mit.edu	37	chr17	63010790	63010790	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaaaagtattgatgtcAcactgtcgaaacattcaaac	17	9	7	8	1	2	1	2	1	0	0	3	3	2	2	0	1	2	1	0	1	6	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:63010790A>G	uc002jfc.2	-	4	928	c.719T>C	c.(718-720)GTG>GCG	p.V240A	GNA13_uc010wqh.1_Missense_Mutation_p.V145A	NM_006572	NP_006563	Q14344	GNA13_HUMAN	guanine nucleotide binding protein (G protein),	240					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase D activity|cellular component movement|platelet activation|Rho protein signal transduction	brush border membrane|heterotrimeric G-protein complex|melanosome	D5 dopamine receptor binding|G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|signal transducer activity|type 1 angiotensin receptor binding				0						TATTGATGTCACACTGTCGAA	0.378													13	115					0	0	0.013537	0	0		G	63010790	G	G	63010790	3	3	116	1	0	0	0	0	1	0	0	0	6516	159	6	3	418	3	GNA13	17	63010790	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	5720622	63010790	18184420	364	66133											
CCDC46	201134	broad.mit.edu	37	chr17	64092744	64092744	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtctcaggtatcgaggatTttctatctgaaaatttaaaa	13	15	7	6	1	3	1	1	1	3	0	5	3	3	2	0	2	0	1	0	2	6	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr17:64092744T>A	uc002jfl.2	-	7	868	c.649A>T	c.(649-651)AAT>TAT	p.N217Y	CCDC46_uc002jfm.2_Missense_Mutation_p.N217Y|CCDC46_uc010dep.2_Intron	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	217						centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			TATCGAGGATTTTCTATCTGa	0.239													4	48					0	0	0.000602	0	0		A	64092744	A	A	64092744	3	1	116	1	0	0	0	0	1	0	0	0	2820	1841	64	5	2468	5	CCDC46	17	64092744	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	1081954	64092744	17102466	365	66134											
IMPA2	3613	broad.mit.edu	37	chr18	12009979	12009979	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacggcacctgcaattttGtgcacaggtgagctgagcag	9	9	13	10	2	0	2	0	2	0	0	1	3	0	2	1	2	4	5	1	2	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr18:12009979G>C	uc002kqp.1	+	3	542	c.328G>C	c.(328-330)GTG>CTG	p.V110L	IMPA2_uc002kqo.1_5'UTR|IMPA2_uc010dlb.1_Missense_Mutation_p.V94L|IMPA2_uc002kqq.1_5'UTR	NM_014214	NP_055029	O14732	IMPA2_HUMAN	inositol(myo)-1(or 4)-monophosphatase 2	110					inositol phosphate dephosphorylation|signal transduction	cytoplasm	inositol-1(or 4)-monophosphatase activity|metal ion binding|protein homodimerization activity			skin(2)	2					Lithium(DB01356)	CTGCAATTTTGTGCACAGGTG	0.542													12	93					0	0	0.010729	0	0		C	12009979	C	C	12009979	3	2	116	1	0	0	0	0	1	0	0	0	7739	1377	48	5	338	5	IMPA2	18	12009979	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08		12009979	66067269	366	66135											
DSG4	147409	broad.mit.edu	37	chr18	28968948	28968948	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtcttttcgcaaagtgtaTacacagccagcattgaagaa	14	10	8	9	1	1	2	0	1	1	1	2	2	1	2	1	0	3	3	1	0	5	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr18:28968948T>G	uc002kwq.2	+	5	619	c.484T>G	c.(484-486)TAC>GAC	p.Y162D	DSG4_uc002kwr.2_Missense_Mutation_p.Y162D	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	162	Cadherin 2.|Extracellular (Potential).		Missing (in LAH1).		homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GCAAAGTGTATACACAGCCAG	0.408													9	83					0	0	0.008291	0	0		G	28968948	G	G	28968948	3	3	116	1	0	0	0	0	1	0	0	0	4785	1406	49	5	502	5	DSG4	18	28968948	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	16958969	28968948	49108300	367	66136											
CELF4	56853	broad.mit.edu	37	chr18	35145451	35145451	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	aatgaacagcttgatggcatCgtggtccttcatgggaatgg	10	11	13	7	1	1	2	1	2	0	0	3	3	2	3	1	4	2	2	1	4	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr18:35145451C>G	uc002lae.2	-	1	550	c.154G>C	c.(154-156)GAT>CAT	p.D52H	CELF4_uc010dnd.1_Missense_Mutation_p.D52H|CELF4_uc002lag.2_Missense_Mutation_p.D52H|CELF4_uc002laf.2_Missense_Mutation_p.D48H|CELF4_uc002lai.2_Missense_Mutation_p.D48H	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	52	Sufficient for RNA-binding and MSE- dependent splicing activity.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						TTGATGGCATCGTGGTCCTTC	0.592													4	49					0	0	0.009096	0	0		G	35145451	G	G	35145451	3	3	116	1	0	0	0	0	1	0	0	0	3221	884	31	5	1354	5	CELF4	18	35145451	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	6176503	35145451	42931797	368	66137											
SMAD4	4089	broad.mit.edu	37	chr18	48591892	48591892	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccctattgttactgttgatgGatacgtggacccttctggag	7	14	11	9	1	1	1	0	1	1	0	1	4	1	4	2	3	2	2	2	3	3	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr18:48591892G>C	uc010xdp.1	+	9	1593	c.1055G>C	c.(1054-1056)GGA>GCA	p.G352A	SMAD4_uc002lfb.3_Missense_Mutation_p.G197A	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	352	MH2.		G -> R (in JP/HHT and JPS).		BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		ACTGTTGATGGATACGTGGAC	0.443									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				6	80					0	0	0.001984	0	0		C	48591892	C	C	48591892	3	2	116	1	0	0	0	0	1	0	0	0	14785	1174	41	5	1085	5	SMAD4	18	48591892	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	13446441	48591892	29485356	369	66138											
FUT5	2527	broad.mit.edu	37	chr19	5866954	5866954	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tagtcggggtgcaaggagttCtcgaaggccagatagaactt	11	9	14	7	2	1	2	0	0	1	2	3	4	1	3	1	4	2	2	1	4	5	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:5866954C>G	uc002mdo.3	-	2	871	c.783G>C	c.(781-783)GAG>GAC	p.E261D	FUT5_uc010duo.2_Missense_Mutation_p.E261D	NM_002034	NP_002025	Q11128	FUT5_HUMAN	fucosyltransferase 5	261	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity|alpha(1,3)-fucosyltransferase activity				0						GCAAGGAGTTCTCGAAGGCCA	0.622													13	61					0	0	0.003163	0	0		G	5866954	G	G	5866954	3	3	116	1	0	0	0	0	1	0	0	0	6121	912	32	5	345	5	FUT5	19	5866954	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08		5866954	53262029	370	66139											
MUC16	94025	broad.mit.edu	37	chr19	9011337	9011337	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccattgacatagagacTgttcctgtccagggtgtagg	9	12	11	9	0	1	2	1	1	0	1	3	3	3	2	3	2	0	2	3	2	2	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:9011337T>A	uc002mkp.2	-	36	39100	c.38896A>T	c.(38896-38898)AGT>TGT	p.S12966C	MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12968	SEA 6.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACATAGAGACTGTTCCTGTCC	0.557													17	205					0	0	0.007413	0	0		A	9011337	A	A	9011337	3	1	116	1	0	0	0	0	1	0	0	0	9991	1580	55	5	4823	5	MUC16	19	9011337	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	3144383	9011337	50117646	371	66140											
MUC16	94025	broad.mit.edu	37	chr19	9046424	9046424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatctctggtgcaccaggtGagattgttgtcagtacagct	8	12	11	10	0	2	1	1	1	1	1	3	2	2	1	2	2	3	4	2	2	1	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:9046424G>A	uc002mkp.2	-	5	35411	c.35207C>T	c.(35206-35208)TCA>TTA	p.S11736L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11738	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGCACCAGGTGAGATTGTTGT	0.493													9	76					0	0	0.004482	0	0		A	9046424	A	A	9046424	3	1	116	1	0	0	0	0	1	0	0	0	9991	1294	45	4	8636	4	MUC16	19	9046424	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	35087	9046424	50082559	372	66141											
ATG4D	84971	broad.mit.edu	37	chr19	10657566	10657566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccccctgagctgtcagggtCagcctctcccagccggtacc	5	7	10	19	1	3	1	2	1	1	0	4	1	3	1	7	2	4	2	7	2	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:10657566C>T	uc002mov.2	+	4	665	c.545C>T	c.(544-546)TCA>TTA	p.S182L	ATG4D_uc010xlg.1_Missense_Mutation_p.S205L|ATG4D_uc010xlh.1_Missense_Mutation_p.S119L|ATG4D_uc010dxh.2_RNA|ATG4D_uc010dxi.2_Intron|ATG4D_uc010dxj.2_Intron	NM_032885	NP_116274	Q86TL0	ATG4D_HUMAN	APG4 autophagy 4 homolog D	182					autophagy|protein transport	cytoplasm	cysteine-type endopeptidase activity				0			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			CTGTCAGGGTCAGCCTCTCCC	0.677													4	31					0	0	0.009096	0	0		T	10657566	T	T	10657566	3	4	116	1	0	0	0	0	1	0	0	0	1100	838	29	4	559	4	ATG4D	19	10657566	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1611142	10657566	48471417	373	66142											
OR10H1	26539	broad.mit.edu	37	chr19	15918371	15918371	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggtggaaaatggccgaggtCaccaccatccccatgaccaa	13	5	10	13	1	1	1	1	1	0	0	2	3	2	2	6	4	0	0	6	4	3	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:15918371C>G	uc002nbq.2	-	1	566	c.477G>C	c.(475-477)GTG>GTC	p.V159V		NM_013940	NP_039228	Q9Y4A9	O10H1_HUMAN	olfactory receptor, family 10, subfamily H,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGGCCGAGGTCACCACCATCC	0.617													6	50					0	0	0.001168	0	0		G	15918371	G	G	15918371	2	3	116	1	0	0	0	0	0	0	0	1	10924	813	29	5		5	OR10H1	19	15918371	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	5260805	15918371	43210612	374	66143											
SFRS14	10147	broad.mit.edu	37	chr19	19135888	19135888	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatgtacttgtcaaaaggCtttatgatttcaaaaaagca	16	14	6	5	0	2	1	2	1	0	0	2	1	2	1	0	1	2	3	0	1	8	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:19135888C>G	uc002nkx.2	-	3	1415	c.1269G>C	c.(1267-1269)AAG>AAC	p.K423N	SFRS14_uc002nkz.1_Missense_Mutation_p.K437N|SFRS14_uc002nla.1_Missense_Mutation_p.K423N|SFRS14_uc002nlb.2_Missense_Mutation_p.K423N|SFRS14_uc010xqk.1_Missense_Mutation_p.K192N	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	423					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			TGTCAAAAGGCTTTATGATTT	0.388													7	112					0	0	0.001984	0	0		G	19135888	G	G	19135888	3	3	116	1	0	0	0	0	1	0	0	0	14195	796	28	5	2011	5	SFRS14	19	19135888	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	3217517	19135888	39993095	375	66144											
NDUFA13	51079	broad.mit.edu	37	chr19	19626962	19626962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcctagccgtgccgcggaCcatctcaagtgcttccgcca	6	9	9	17	4	1	0	1	0	1	0	4	1	3	1	6	1	3	1	6	1	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:19626962C>T	uc010xqy.1	+	1	423	c.164C>T	c.(163-165)ACC>ATC	p.T55I	TSSK6_uc002nmq.2_5'Flank|TSSK6_uc002nmr.2_5'Flank|NDUFA13_uc002nms.2_Missense_Mutation_p.T55I|NDUFA13_uc010xqx.1_Missense_Mutation_p.T55I	NM_015965	NP_057049	Q9P0J0	NDUAD_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	Error:Variant_position_missing_in_Q9P0J0_after_alignment					apoptotic nuclear change|induction of apoptosis by extracellular signals|negative regulation of cell growth|negative regulation of transcription, DNA-dependent|negative regulation of translation|protein import into nucleus|reactive oxygen species metabolic process|respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex I|nucleoplasm	ATP binding|NADH dehydrogenase (ubiquinone) activity|protein binding				0					NADH(DB00157)	GTGCCGCGGACCATCTCAAGT	0.632													8	37					0	0	0.004482	0	0		T	19626962	T	T	19626962	3	4	116	1	0	0	0	0	1	0	0	0	10282	522	18	4		4	NDUFA13	19	19626962	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	491074	19626962	39502021	376	66145											
TSHZ3	57616	broad.mit.edu	37	chr19	31767827	31767827	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgttccacctgtccttcGaagctggtatttcacgttgg	5	16	9	11	2	1	0	1	0	0	0	4	1	3	0	3	2	1	4	3	2	2	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:31767827G>T	uc002nsy.3	-	2	2937	c.2872C>A	c.(2872-2874)CGA>AGA	p.R958R		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	958	Homeobox; atypical.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CCTGTCCTTCGAAGCTGGTAT	0.542													5	69					0.00116845	0.00122638	0.001168	1	0		T	31767827	T	T	31767827	2	4	116	1	0	0	0	0	0	0	0	1	16651	1066	37	5		5	TSHZ3	19	31767827	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	12140865	31767827	27361156	377	66146											
ANKRD27	84079	broad.mit.edu	37	chr19	33140660	33140660	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tcaaactgacaagtagactgGatgctgctcgacaggcttcc	11	9	10	11	1	1	2	1	1	0	1	3	4	2	3	1	2	3	4	1	2	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:33140660G>C	uc002ntn.1	-	3	297	c.141C>G	c.(139-141)ATC>ATG	p.I47M	ANKRD27_uc002nto.1_Missense_Mutation_p.I47M	NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	47					early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					AAGTAGACTGGATGCTGCTCG	0.448													16	165					0	0	0.003163	0	0		C	33140660	C	C	33140660	3	2	116	1	0	0	0	0	1	0	0	0	655	1164	41	5	3119	5	ANKRD27	19	33140660	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1372833	33140660	25988323	378	66147											
NPHS1	4868	broad.mit.edu	37	chr19	36336428	36336428	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggctctccggggtggggcgGccacgccctccagcctgtgg	2	6	18	15	3	1	0	0	0	1	0	3	0	2	0	5	7	1	1	5	7	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:36336428G>C	uc002oby.2	-	14	1772	c.1772C>G	c.(1771-1773)GCC>GGC	p.A591G		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	591	Ig-like C2-type 6.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGGTGGGGCGGCCACGCCCTC	0.716													4	7					0	0	0.009096	0	0		C	36336428	C	C	36336428	3	2	116	1	0	0	0	0	1	0	0	0	10601	1203	42	5	2017	5	NPHS1	19	36336428	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	3195768	36336428	22792555	379	66148											
LRFN3	79414	broad.mit.edu	37	chr19	36430947	36430947	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcccgcctgcacaagctggCccggctggacatgacctcca	7	7	10	17	2	0	1	0	1	0	0	2	2	2	2	5	3	2	3	5	3	1	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:36430947C>A	uc002oco.2	+	2	1072	c.620C>A	c.(619-621)GCC>GAC	p.A207D		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	207	Extracellular (Potential).|LRR 7.				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CACAAGCTGGCCCGGCTGGAC	0.701													11	145					5.50884e-06	6.15053e-06	0.013537	1	0		A	36430947	A	A	36430947	3	1	116	1	0	0	0	0	1	0	0	0	8957	739	26	5	622	5	LRFN3	19	36430947	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	94519	36430947	22698036	380	66149											
ZNF793	390927	broad.mit.edu	37	chr19	38028263	38028263	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtagtgagtgtgggaaaGccttctgctacaagtctgaa	10	12	12	7	0	3	2	0	2	3	0	3	3	3	3	1	1	3	2	1	1	5	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:38028263G>C	uc010efm.2	+	8	1145	c.703G>C	c.(703-705)GCC>CCC	p.A235P	ZNF793_uc010xts.1_Missense_Mutation_p.A235P|ZNF793_uc010efo.2_Intron	NM_001013659	NP_001013681	Q6ZN11	ZN793_HUMAN	zinc finger protein 793	235	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTGTGGGAAAGCCTTCTGCTA	0.463													5	16					0	0	0.001168	0	0		C	38028263	C	C	38028263	3	2	116	1	0	0	0	0	1	0	0	0	18190	971	34	5	717	5	ZNF793	19	38028263	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1597316	38028263	21100720	381	66150											
ZFP30	22835	broad.mit.edu	37	chr19	38126854	38126854	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgactgaggtgggcacactgTctaaaggcttttccacattc	9	11	10	11	1	1	1	0	1	1	0	3	2	2	1	1	3	0	2	1	3	2	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:38126854T>C	uc002ogv.1	-	6	1104	c.588A>G	c.(586-588)AGA>AGG	p.R196R	ZFP30_uc002ogw.1_Silent_p.R196R|ZFP30_uc002ogx.1_Silent_p.R196R|ZFP30_uc010xtt.1_Silent_p.R195R	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog	196	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GGGCACACTGTCTAAAGGCTT	0.398													7	100					0	0	0.00308	0	0		C	38126854	C	C	38126854	2	2	116	1	0	0	0	0	0	0	0	1	17669	1664	58	3		3	ZFP30	19	38126854	Silent	SNP	T	TCGA-CD-8529-01A-11D-2340-08	98591	38126854	21002129	382	66151											
RYR1	6261	broad.mit.edu	37	chr19	38946294	38946294	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctggaggtcctgtactGtgtcctcattgagagtccag	7	12	11	11	0	1	1	1	1	0	1	5	3	5	2	4	2	1	1	4	2	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:38946294G>T	uc002oit.2	+	16	1824	c.1694G>T	c.(1693-1695)TGT>TTT	p.C565F	RYR1_uc002oiu.2_Missense_Mutation_p.C565F	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	565	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GTCCTGTACTGTGTCCTCATT	0.572													7	54					8.12818e-05	8.84179e-05	0.001984	1	0		T	38946294	T	T	38946294	3	4	116	1	0	0	0	0	1	0	0	0	13793	1377	48	5	1756	5	RYR1	19	38946294	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	819440	38946294	20182689	383	66152											
LTBP4	8425	broad.mit.edu	37	chr19	41117887	41117887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acactgctggctccgagtgcGagggtgaggccggggaggga	7	5	20	9	3	0	1	0	1	0	0	1	5	1	3	2	6	2	2	2	6	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:41117887G>A	uc002ooh.1	+	17	2377	c.2377G>A	c.(2377-2379)GAG>AAG	p.E793K	LTBP4_uc002oog.1_Missense_Mutation_p.E756K|LTBP4_uc002ooi.1_Missense_Mutation_p.E726K|LTBP4_uc002ooj.1_5'UTR|LTBP4_uc010xvo.1_Intron|LTBP4_uc010ehb.1_Missense_Mutation_p.E13K|LTBP4_uc002ook.1_Missense_Mutation_p.E13K|LTBP4_uc002ool.1_5'Flank|LTBP4_uc002oom.1_5'Flank|LTBP4_uc010xvp.1_5'Flank	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	793	Cys-rich.|EGF-like 8; calcium-binding (Potential).				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CTCCGAGTGCGAGGGTGAGGC	0.652													4	22					0	0	0.000602	0	0		A	41117887	A	A	41117887	3	1	116	1	0	0	0	0	1	0	0	0	9094	1059	37	1	2736	1	LTBP4	19	41117887	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	2171593	41117887	18011096	384	66153											
CYP2F1	1572	broad.mit.edu	37	chr19	41622244	41622244	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctttgctcccaagacAtgctgacttctctcactaag	8	13	7	13	0	2	2	1	1	1	1	4	2	3	2	1	0	4	4	1	0	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:41622244A>C	uc002opu.1	+	2	207	c.151A>C	c.(151-153)ATG>CTG	p.M51L	CYP2F1_uc010xvw.1_Intron|CYP2F1_uc010xvv.1_Missense_Mutation_p.M51L|CYP2F1_uc002opv.1_RNA	NM_000774	NP_000765	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F,	51					naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0						CTCCCAAGACATGCTGACTTC	0.567													32	276					0	0	0.013726	0	0		C	41622244	C	C	41622244	3	2	116	1	0	0	0	0	1	0	0	0	4174	217	8	5	153	5	CYP2F1	19	41622244	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	504357	41622244	17506739	385	66154											
AXL	558	broad.mit.edu	37	chr19	41749531	41749531	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcccccccagagaagtgtttGaaccaacagtggaaagaggt	13	7	11	10	0	0	3	0	1	0	2	1	5	1	4	4	2	2	1	4	2	4	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:41749531G>C	uc010ehj.2	+	12	1646	c.1456G>C	c.(1456-1458)GAA>CAA	p.E486Q	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Missense_Mutation_p.E486Q|AXL_uc010ehk.2_Missense_Mutation_p.E477Q	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	486	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						AGAAGTGTTTGAACCAACAGT	0.557													11	143					0	0	0.008291	0	0		C	41749531	C	C	41749531	3	2	116	1	0	0	0	0	1	0	0	0	1239	1291	45	5	1502	5	AXL	19	41749531	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	127287	41749531	17379452	386	66155											
BCKDHA	593	broad.mit.edu	37	chr19	41884322	41884322	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctggggtcccccttaagAgagatagcctttgccgagtc	8	9	13	11	1	0	2	0	0	0	2	2	5	1	2	4	2	3	1	4	2	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:41884322A>G	uc002oqm.3	+	2	459	c.108A>G	c.(106-108)AGA>AGG	p.R36R	CYP2F1_uc010xvw.1_Intron|TMEM91_uc002oqi.2_Silent_p.R36R|TMEM91_uc010ehq.2_Silent_p.R36R|TMEM91_uc002oql.2_Silent_p.R36R|TMEM91_uc010ehr.2_Silent_p.R36R|TMEM91_uc010ehs.2_Silent_p.R36R|TMEM91_uc010eht.2_Silent_p.R36R|TMEM91_uc002oqk.3_Silent_p.R36R|TMEM91_uc002oqn.2_Silent_p.R36R	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	Error:Variant_position_missing_in_P12694_after_alignment					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						CCCCCTTAAGAGAGATAGCCT	0.617													11	96					0	0	0.010729	0	0		G	41884322	G	G	41884322	2	3	116	1	0	0	0	0	0	0	0	1	1360	301	11	3		3	BCKDHA	19	41884322	Silent	SNP	A	TCGA-CD-8529-01A-11D-2340-08	134791	41884322	17244661	387	66156											
PSG7	5676	broad.mit.edu	37	chr19	43430815	43430815	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgaaggttgagacatcctTattctccctggggtttaagt	8	14	12	7	0	1	2	0	2	1	1	3	3	2	2	2	4	0	2	2	4	3	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:43430815T>C	uc002ovl.3	-	5	865	c.763A>G	c.(763-765)AAG>GAG	p.K255E	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_RNA|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Missense_Mutation_p.K133E	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	255	Ig-like C2-type 2.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				GAGACATCCTTATTCTCCCTG	0.483													36	311					0	0	0.013726	0	0		C	43430815	C	C	43430815	3	2	116	1	0	0	0	0	1	0	0	0	12682	1763	61	3	508	3	PSG7	19	43430815	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	1546493	43430815	15698168	388	66157											
RELB	5971	broad.mit.edu	37	chr19	45540843	45540843	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccggcaccgccacacgCtagcgctgttgtgtgcagcg	5	6	13	17	5	0	0	0	0	0	0	0	0	0	0	4	1	3	5	4	1	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:45540843C>G	uc002paj.1	+	13	1661	c.1535C>G	c.(1534-1536)GCT>GGT	p.A512G	SFRS16_uc002pak.2_5'Flank|SFRS16_uc002pal.2_5'Flank|SFRS16_uc010xxh.1_5'Flank|SFRS16_uc002pam.2_5'Flank|SFRS16_uc002pan.1_5'Flank	NM_006509	NP_006500	Q01201	RELB_HUMAN	reticuloendotheliosis viral oncogene homolog B	512						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00986)		CCGCCACACGCTAGCGCTGTT	0.706													7	29					0	0	0.00308	0	0		G	45540843	G	G	45540843	3	3	116	1	0	0	0	0	1	0	0	0	13242	797	28	5	1573	5	RELB	19	45540843	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	2110028	45540843	13588140	389	66158											
OPA3	80207	broad.mit.edu	37	chr19	46056952	46056952	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccacctcgtcccgcagcgcGttccaggcagcacgctgctc	5	6	10	20	5	0	0	0	0	0	0	4	0	2	0	4	1	3	6	4	1	0	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:46056952G>A	uc002pck.3	-	2	460	c.360C>T	c.(358-360)AAC>AAT	p.N120N	OPA3_uc002pcj.3_Intron|OPA3_uc010xxk.1_Silent_p.N67N	NM_025136	NP_079412	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform b	120	Potential.				response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)		CCCGCAGCGCGTTCCAGGCAG	0.721													6	18					0	0	0.001168	0	0		A	46056952	A	A	46056952	2	1	116	1	0	0	0	0	0	0	0	1	10891	1136	40	1		1	OPA3	19	46056952	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	516109	46056952	13072031	390	66159											
NOVA2	4858	broad.mit.edu	37	chr19	46457192	46457192	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctgtactaggcataccCgctctgtggttcctgttgag	5	13	11	12	1	1	1	0	1	1	0	2	1	2	1	3	2	3	5	3	2	3	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:46457192C>T	uc002pdv.2	-	3	290	c.242G>A	c.(241-243)CGG>CAG	p.R81Q		NM_002516	NP_002507	Q9UNW9	NOVA2_HUMAN	neuro-oncological ventral antigen 2	81	KH 1.					nucleus	RNA binding				0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00245)|GBM - Glioblastoma multiforme(486;0.0782)|Epithelial(262;0.179)		TAGGCATACCCGCTCTGTGGT	0.443													7	85					0	0	0.001984	0	0		T	46457192	T	T	46457192	3	4	116	1	0	0	0	0	1	0	0	0	10574	652	23	1	1244	1	NOVA2	19	46457192	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	400240	46457192	12671791	391	66160											
SLC6A16	28968	broad.mit.edu	37	chr19	49812135	49812135	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caaaggggccggccttacctCtcacagcagcgatgtgtgat	9	8	12	12	2	1	1	1	1	1	0	2	2	1	1	3	3	3	1	3	3	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:49812135C>G	uc002pmz.2	-	7	1461	c.1227G>C	c.(1225-1227)GAG>GAC	p.E409D	SLC6A16_uc002pna.2_Missense_Mutation_p.E409D|hsa-mir-4324|MI0015854_5'Flank	NM_014037	NP_054756	Q9GZN6	S6A16_HUMAN	solute carrier family 6, member 16	409	Extracellular (Potential).					integral to membrane|intracellular	neurotransmitter:sodium symporter activity			skin(2)|ovary(1)|kidney(1)	4		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00099)|GBM - Glioblastoma multiforme(486;0.0336)		GGCCTTACCTCTCACAGCAGC	0.493													9	113					0	0	0.008291	0	0		G	49812135	G	G	49812135	3	3	116	1	0	0	0	0	1	0	0	0	14704	912	32	5	1007	5	SLC6A16	19	49812135	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	3354943	49812135	9316848	392	66161											
IL4I1	259307	broad.mit.edu	37	chr19	50397628	50397628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttctccaccacatagttgCgcagcttcacttcgtgcacc	7	11	6	17	2	2	0	1	0	1	0	4	0	2	0	4	0	3	4	4	0	1	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:50397628C>T	uc002pqt.1	-	5	542	c.464G>A	c.(463-465)CGC>CAC	p.R155H	IL4I1_uc002pqv.1_Missense_Mutation_p.R164H|IL4I1_uc010eno.1_Missense_Mutation_p.R163H|IL4I1_uc002pqw.1_Missense_Mutation_p.R163H|IL4I1_uc002pqu.1_Missense_Mutation_p.R177H	NM_152899	NP_690863	Q96RQ9	OXLA_HUMAN	interleukin 4 induced 1 isoform 1 precursor	155						lysosome	L-amino-acid oxidase activity			lung(1)|ovary(1)|prostate(1)	3		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00245)|OV - Ovarian serous cystadenocarcinoma(262;0.0169)		CACATAGTTGCGCAGCTTCAC	0.592													5	61					0	0	0.001168	0	0		T	50397628	T	T	50397628	3	4	116	1	0	0	0	0	1	0	0	0	7713	768	27	1	1255	1	IL4I1	19	50397628	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	585493	50397628	8731355	393	66162											
ZNF473	25888	broad.mit.edu	37	chr19	50548172	50548172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aattaaagagaggactcagtCctgtgtccaccgtttccacg	11	10	9	11	2	1	1	1	0	0	1	4	3	4	2	4	1	0	1	4	1	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:50548172C>T	uc002prn.2	+	5	709	c.472C>T	c.(472-474)CCT>TCT	p.P158S	ZNF473_uc002prm.2_Missense_Mutation_p.P158S|ZNF473_uc010ybo.1_Missense_Mutation_p.P146S	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	158					histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		AGGACTCAGTCCTGTGTCCAC	0.463													8	58					0	0	0.00308	0	0		T	50548172	T	T	50548172	3	4	116	1	0	0	0	0	1	0	0	0	17956	855	30	4	486	4	ZNF473	19	50548172	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	150544	50548172	8580811	394	66163											
POLD1	5424	broad.mit.edu	37	chr19	50910318	50910318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccactgcggctgctggagCggctcatggtgctggtgaac	5	9	16	11	2	1	1	1	1	0	0	1	2	1	2	1	5	6	4	1	5	1	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:50910318C>T	uc002psb.3	+	13	1629	c.1573C>T	c.(1573-1575)CGG>TGG	p.R525W	POLD1_uc002psc.3_Missense_Mutation_p.R525W|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Missense_Mutation_p.R525W	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	525					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		GCTGCTGGAGCGGCTCATGGT	0.582								DNA_polymerases_(catalytic_subunits)					9	78					0	0	0.006214	0	0		T	50910318	T	T	50910318	3	4	116	1	0	0	0	0	1	0	0	0	12209	759	27	1	1619	1	POLD1	19	50910318	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	362146	50910318	8218665	395	66164											
MYBPC2	4606	broad.mit.edu	37	chr19	50957402	50957402	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtcaccaaccccgtcggCgaggacgtggcttccatctt	8	8	11	14	4	2	0	1	0	1	0	4	2	3	1	4	4	1	1	4	4	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:50957402C>G	uc002psf.2	+	17	1926	c.1875C>G	c.(1873-1875)GGC>GGG	p.G625G		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	625	Ig-like C2-type 5.				cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		ACCCCGTCGGCGAGGACGTGG	0.632													3	21					0	0	0.004672	0	0		G	50957402	G	G	50957402	2	3	116	1	0	0	0	0	0	0	0	1	10030	755	27	5		5	MYBPC2	19	50957402	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	47084	50957402	8171581	396	66165											
ZNF615	284370	broad.mit.edu	37	chr19	52496905	52496905	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgcagtatgagttcgcTgatgtacaatgaggtcactc	9	13	10	9	1	2	3	1	3	1	0	5	3	2	3	0	1	2	5	0	1	3	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:52496905T>G	uc002pye.1	-	6	1716	c.1424A>C	c.(1423-1425)CAG>CCG	p.Q475P	ZNF615_uc002pyf.1_Missense_Mutation_p.Q486P|ZNF615_uc002pyg.1_Missense_Mutation_p.Q367P|ZNF615_uc002pyh.1_Missense_Mutation_p.Q486P|ZNF615_uc010epi.1_Missense_Mutation_p.Q482P|ZNF615_uc010ydg.1_Missense_Mutation_p.Q480P	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	475	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		ATGAGTTCGCTGATGTACAAT	0.448													6	51					0	0	0.001168	0	0		G	52496905	G	G	52496905	3	3	116	1	0	0	0	0	1	0	0	0	18065	1580	55	5	775	5	ZNF615	19	52496905	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	1539503	52496905	6632078	397	66166											
ZNF614	80110	broad.mit.edu	37	chr19	52520497	52520497	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcactataggaaaatgtgtCttgctgagatgtacaatatt	13	14	9	5	0	1	1	0	1	1	1	1	3	1	2	0	1	3	3	0	1	7	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:52520497C>G	uc002pyj.2	-	5	756	c.354G>C	c.(352-354)AAG>AAC	p.K118N	ZNF614_uc002pyi.3_Missense_Mutation_p.K118N|ZNF614_uc010epj.2_5'UTR	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	118					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		GAAAATGTGTCTTGCTGAGAT	0.358													5	47					0	0	0.000602	0	0		G	52520497	G	G	52520497	3	3	116	1	0	0	0	0	1	0	0	0	18064	912	32	5	1407	5	ZNF614	19	52520497	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	23592	52520497	6608486	398	66167											
ZNF320	162967	broad.mit.edu	37	chr19	53384030	53384030	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaggtgtgaaggtgaattaAaggctttaccacaatcacca	15	10	9	7	0	1	2	1	2	0	0	1	2	1	2	2	3	1	1	2	3	7	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:53384030A>G	uc002qag.2	-	4	1540	c.1349T>C	c.(1348-1350)TTT>TCT	p.F450S	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.F396S|ZNF320_uc002qai.2_Missense_Mutation_p.F450S	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	450	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		AGGTGAATTAAAGGCTTTACC	0.408													9	82					0	0	0.004482	0	0		G	53384030	G	G	53384030	3	3	116	1	0	0	0	0	1	0	0	0	17864	14	1	3	184	3	ZNF320	19	53384030	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	863533	53384030	5744953	399	66168											
ZNF665	79788	broad.mit.edu	37	chr19	53668165	53668165	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgtatagttaggcttgaAtgaacactaaaggctttgcc	12	13	10	6	0	0	3	0	3	0	0	0	3	0	3	1	2	2	4	1	2	7	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:53668165A>T	uc010eqm.1	-	4	1678	c.1578T>A	c.(1576-1578)CAT>CAA	p.H526Q		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	461	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		TTAGGCTTGAATGAACACTAA	0.393													12	168					0	0	0.013537	0	0		T	53668165	T	T	53668165	3	4	116	1	0	0	0	0	1	0	0	0	18098	98	4	5	462	5	ZNF665	19	53668165	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	284135	53668165	5460818	400	66169											
ZSCAN18	65982	broad.mit.edu	37	chr19	58596573	58596573	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtcggactccgcgtcctgggGgtcctgcgggtccggggcct	1	8	18	14	5	0	0	0	0	0	0	5	1	4	1	5	6	1	0	5	6	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr19:58596573G>C	uc002qri.2	-	7	1321	c.1012C>G	c.(1012-1014)CCC>GCC	p.P338A	ZSCAN18_uc002qrj.3_Missense_Mutation_p.P337A|ZSCAN18_uc010yhs.1_Missense_Mutation_p.P202A|ZSCAN18_uc002qrh.2_Missense_Mutation_p.P338A|ZSCAN18_uc010yht.1_Missense_Mutation_p.P394A|ZSCAN18_uc002qrk.1_3'UTR|ZSCAN18_uc002qrl.2_3'UTR	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	338					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		GCGTCCTGGGGGTCCTGCGGG	0.711													4	23					0	0	0.009096	0	0		C	58596573	C	C	58596573	3	2	116	1	0	0	0	0	1	0	0	0	18255	1232	43	5	524	5	ZSCAN18	19	58596573	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	4928408	58596573	532410	401	66170											
PSMF1	9491	broad.mit.edu	37	chr20	1145715	1145715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgccgggctacgatgacatGtacctgtgaaggcctcaaga	10	7	12	12	3	1	3	1	2	0	1	1	4	1	3	4	2	2	2	4	2	4	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:1145715G>A	uc002wel.3	+	8	975	c.807G>A	c.(805-807)ATG>ATA	p.M269I	PSMF1_uc010zpo.1_Intron|PSMF1_uc002wem.3_Intron|PSMF1_uc010zpp.1_Intron|PSMF1_uc002wen.3_Missense_Mutation_p.M269I|PSMF1_uc002wep.3_Missense_Mutation_p.M220I	NM_178578	NP_848693	Q92530	PSMF1_HUMAN	proteasome inhibitor subunit 1	269	Pro-rich.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome core complex	endopeptidase inhibitor activity|protein binding				0						ACGATGACATGTACCTGTGAA	0.572													5	69					0	0	0.001984	0	0		A	1145715	A	A	1145715	3	1	116	1	0	0	0	0	1	0	0	0	12732	1377	48	4	833	4	PSMF1	20	1145715	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08		1145715	61879805	402	66171											
FKBP1A	2280	broad.mit.edu	37	chr20	1352875	1352875	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcagtttggctctctgacCcacactcatctgtgaaaaga	11	11	8	11	0	4	3	2	2	2	1	5	3	4	3	1	1	0	2	1	1	2	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:1352875C>A	uc002wey.2	-	4	382	c.208G>T	c.(208-210)GGT>TGT	p.G70C	FKBP1A_uc010gac.2_Intron|uc002wew.2_Intron|uc002wex.2_Intron|FKBP1A_uc002wez.2_Missense_Mutation_p.G32V|FKBP1A_uc010gad.2_Intron|FKBP1A_uc002wfa.2_Missense_Mutation_p.G70C|FKBP1A_uc002wfb.2_Missense_Mutation_p.G32V|FKBP1A_uc010gae.2_Missense_Mutation_p.G54C|FKBP1A_uc010gaf.2_RNA	NM_000801	NP_000792	P62942	FKB1A_HUMAN	FK506 binding protein 1A, 12kDa	70	PPIase FKBP-type.				'de novo' protein folding|beta-amyloid formation|fibril organization|heart trabecula formation|negative regulation of protein phosphatase type 2B activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of protein binding|positive regulation of protein ubiquitination|protein maturation by protein folding|protein refolding|regulation of activin receptor signaling pathway|regulation of immune response|regulation of ryanodine-sensitive calcium-release channel activity|SMAD protein complex assembly|T cell activation|ventricular cardiac muscle tissue morphogenesis	axon|cytosol|sarcoplasmic reticulum membrane|terminal cisterna	activin binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity|signal transducer activity|SMAD binding|type I transforming growth factor beta receptor binding				0					Pimecrolimus(DB00337)|Sirolimus(DB00877)|Tacrolimus(DB00864)	GCTCTCTGACCCACACTCATC	0.498													9	72					2.74318e-10	3.22578e-10	0.006214	1	0		A	1352875	A	A	1352875	3	1	116	1	0	0	0	0	1	0	0	0	5920	623	22	5	122	5	FKBP1A	20	1352875	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	207160	1352875	61672645	403	66172											
MCM8	84515	broad.mit.edu	37	chr20	5932800	5932800	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagtaaaaccacaggaaaaCgtacttctggtaggtgaggt	14	9	12	6	1	1	2	0	2	1	0	1	3	1	3	1	4	3	3	1	4	6	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:5932800C>A	uc002wmi.2	+	2	516	c.139C>A	c.(139-141)CGT>AGT	p.R47S	TRMT6_uc002wmh.1_5'Flank|TRMT6_uc010zra.1_5'Flank|TRMT6_uc010gbn.1_5'Flank|TRMT6_uc010gbo.1_5'Flank|MCM8_uc002wmj.2_Missense_Mutation_p.R47S|MCM8_uc002wmk.2_Missense_Mutation_p.R47S|MCM8_uc002wml.2_Missense_Mutation_p.R47S|MCM8_uc010gbp.2_Missense_Mutation_p.R47S	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	47					cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						CACAGGAAAACGTACTTCTGG	0.403													14	58					3.27435e-08	3.76328e-08	0.00245	1	0		A	5932800	A	A	5932800	3	1	116	1	0	0	0	0	1	0	0	0	9411	536	19	5	141	5	MCM8	20	5932800	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	4579925	5932800	57092720	404	66173											
FERMT1	55612	broad.mit.edu	37	chr20	6088221	6088221	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaataatatttaaatcgtaaGagcagctgctcatcctcttg	13	13	7	8	1	2	1	1	0	1	1	4	2	3	1	1	0	3	4	1	0	6	6	rs148551084		TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:6088221G>C	uc002wmr.2	-	6	1596	c.807C>G	c.(805-807)CTC>CTG	p.L269L	FERMT1_uc010gbt.2_Silent_p.L12L|FERMT1_uc002wms.2_Silent_p.L269L|FERMT1_uc002wmt.2_Silent_p.L12L	NM_017671	NP_060141	Q9BQL6	FERM1_HUMAN	kindlin-1	269	FERM.				cell adhesion|establishment of epithelial cell polarity|keratinocyte migration|keratinocyte proliferation	cytosol|focal adhesion|ruffle membrane	binding			ovary(1)|pancreas(1)|skin(1)	3						TAAATCGTAAGAGCAGCTGCT	0.363													5	37					0	0	0.001984	0	0		C	6088221	C	C	6088221	2	2	116	1	0	0	0	0	0	0	0	1	5831	929	33	5		5	FERMT1	20	6088221	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	155421	6088221	56937299	405	66174											
CRNKL1	51340	broad.mit.edu	37	chr20	20026089	20026089	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtttttcttcaaagcgggCatacttgatccagttcttaa	10	16	7	8	1	3	1	1	1	2	0	4	1	4	1	1	1	2	3	1	1	3	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:20026089C>G	uc002wrs.2	-	7	1179	c.1147G>C	c.(1147-1149)GCC>CCC	p.A383P		NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	383	HAT 5.				spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						TCAAAGCGGGCATACTTGATC	0.413													12	138					0	0	0.013537	0	0		G	20026089	G	G	20026089	3	3	116	1	0	0	0	0	1	0	0	0	3894	710	25	5	1435	5	CRNKL1	20	20026089	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	13937868	20026089	42999431	406	66175											
XRN2	22803	broad.mit.edu	37	chr20	21307129	21307129	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtttggttgtcattatagaCcagcaccaaaaaatgaagat	15	12	8	6	0	1	3	1	1	0	2	1	3	1	3	2	1	1	3	2	1	6	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:21307129C>G	uc002wsf.1	+	3	300	c.205C>G	c.(205-207)CCA>GCA	p.P69A	XRN2_uc002wsg.1_5'UTR|XRN2_uc010zsk.1_Missense_Mutation_p.P15A	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	69					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						TCATTATAGACCAGCACCAAA	0.338													10	76					0	0	0.006214	0	0		G	21307129	G	G	21307129	3	3	116	1	0	0	0	0	1	0	0	0	17486	521	18	5	215	5	XRN2	20	21307129	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1281040	21307129	41718391	407	66176											
REM1	28954	broad.mit.edu	37	chr20	30064443	30064443	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttcacctgccccagatgaTtggtcttctgaatccagcga	8	11	8	14	1	3	3	1	2	2	1	4	4	4	3	5	1	2	0	5	1	1	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:30064443T>A	uc002wwa.2	+	2	479	c.195T>A	c.(193-195)GAT>GAA	p.D65E		NM_014012	NP_054731	O75628	REM1_HUMAN	RAS-like GTP-binding protein REM	65					small GTPase mediated signal transduction	membrane	calmodulin binding|GTP binding|GTPase activity			lung(2)|pancreas(2)	4	all_cancers(5;0.000119)|Lung NSC(7;1.32e-05)|all_lung(7;2.14e-05)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			CCCCAGATGATTGGTCTTCTG	0.602													9	77					0	0	0.008291	0	0		A	30064443	A	A	30064443	3	1	116	1	0	0	0	0	1	0	0	0	13247	1490	52	5	197	5	REM1	20	30064443	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	8757314	30064443	32961077	408	66177											
TRPC4AP	26133	broad.mit.edu	37	chr20	33657209	33657209	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatggagagaagaggagAaatttcctagtttttttaaa	14	13	9	5	0	0	3	0	0	0	3	2	6	2	4	2	2	0	1	2	2	5	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:33657209A>T	uc002xbk.2	-	3	338	c.304T>A	c.(304-306)TCT>ACT	p.S102T	TRPC4AP_uc002xbl.2_Missense_Mutation_p.S102T|TRPC4AP_uc010zur.1_Intron|TRPC4AP_uc002xbm.1_Missense_Mutation_p.S102T	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	102	Interaction with TNFRSF1A (By similarity).				protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			AGAAGAGGAGAAATTTCCTAG	0.363													5	74					0	0	0.000602	0	0		T	33657209	T	T	33657209	3	4	116	1	0	0	0	0	1	0	0	0	16607	246	9	5	2157	5	TRPC4AP	20	33657209	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	3592766	33657209	29368311	409	66178											
DLGAP4	22839	broad.mit.edu	37	chr20	35060579	35060579	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcggcttttcttcaccaaGgcaccctcactggagggcac	8	8	10	15	1	3	0	2	0	1	0	3	1	3	1	2	4	1	3	2	4	1	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:35060579G>A	uc002xff.2	+	3	894	c.459G>A	c.(457-459)AAG>AAA	p.K153K	DLGAP4_uc010zvp.1_Silent_p.K153K	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	153					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				TCTTCACCAAGGCACCCTCAC	0.657													5	62					0	0	0.000602	0	0		A	35060579	A	A	35060579	2	1	116	1	0	0	0	0	0	0	0	1	4568	991	35	4		4	DLGAP4	20	35060579	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1403370	35060579	27964941	410	66179											
BLCAP	10904	broad.mit.edu	37	chr20	36147487	36147487	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagctgagcaggtagaaGcccatgaacatggagtggct	13	6	15	7	0	0	3	0	2	0	1	0	5	0	5	1	4	4	4	1	4	4	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:36147487G>C	uc002xha.2	-	2	293	c.90C>G	c.(88-90)GGC>GGG	p.G30G	BLCAP_uc002xhb.2_Silent_p.G30G|BLCAP_uc002xhc.2_Silent_p.G30G|NNAT_uc002xhd.2_5'Flank|NNAT_uc002xhe.2_5'Flank	NM_006698	NP_006689	P62952	BLCAP_HUMAN	bladder cancer associated protein	30	Helical; (Potential).				apoptosis|cell cycle	integral to membrane					0		Myeloproliferative disorder(115;0.00878)				GCAGGTAGAAGCCCATGAACA	0.572													4	34					0	0	0.009096	0	0		C	36147487	C	C	36147487	2	2	116	1	0	0	0	0	0	0	0	1	1443	958	34	5		5	BLCAP	20	36147487	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1086908	36147487	26878033	411	66180											
CHD6	84181	broad.mit.edu	37	chr20	40049384	40049384	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttttgaacagatctgggAtataagccttgggtttctcg	9	15	10	7	1	2	2	0	1	2	1	3	3	2	3	1	2	3	1	1	2	4	7			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:40049384A>C	uc002xka.1	-	31	6069	c.5891T>G	c.(5890-5892)ATC>AGC	p.I1964S		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1964					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				CAGATCTGGGATATAAGCCTT	0.463													12	251					0	0	0.001855	0	0		C	40049384	C	C	40049384	3	2	116	1	0	0	0	0	1	0	0	0	3332	333	12	5	2284	5	CHD6	20	40049384	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	3901897	40049384	22976136	412	66181											
PTPRT	11122	broad.mit.edu	37	chr20	40743892	40743892	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaggggctctgtttcaaTcagggtgactttaatgtctc	7	14	11	9	0	4	1	2	1	2	0	5	1	4	1	1	3	1	2	1	3	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:40743892T>C	uc002xkg.2	-	22	3230	c.3046A>G	c.(3046-3048)ATT>GTT	p.I1016V	PTPRT_uc010ggj.2_Missense_Mutation_p.I1035V|PTPRT_uc010ggi.2_Missense_Mutation_p.I219V	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1016	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TCTGTTTCAATCAGGGTGACT	0.478													8	96					0	0	0.006214	0	0		C	40743892	C	C	40743892	3	2	116	1	0	0	0	0	1	0	0	0	12837	1435	50	3	1319	3	PTPRT	20	40743892	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	694508	40743892	22281628	413	66182											
MATN4	8785	broad.mit.edu	37	chr20	43933364	43933364	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactgccgcatggtctcgaaCtcgaaagggcgcacgctgcg	9	6	13	13	6	1	0	0	0	1	0	3	2	1	0	1	2	4	3	1	2	3	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:43933364C>T	uc002xnn.2	-	3	334	c.147G>A	c.(145-147)GAG>GAA	p.E49E	MATN4_uc002xno.2_Silent_p.E49E|MATN4_uc002xnp.2_Silent_p.E49E|MATN4_uc010zwr.1_5'UTR|MATN4_uc002xnr.1_Silent_p.E49E|RBPJL_uc002xns.2_5'Flank|RBPJL_uc002xnt.2_5'Flank	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	49	VWFA 1.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				TGGTCTCGAACTCGAAAGGGC	0.632													6	50					0	0	0.001984	0	0		T	43933364	T	T	43933364	2	4	116	1	0	0	0	0	0	0	0	1	9354	564	20	4		4	MATN4	20	43933364	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	3189472	43933364	19092156	414	66183											
ZMYND8	23613	broad.mit.edu	37	chr20	45867752	45867752	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggggccggggccgtgacggtGaccgtggaggacgtgctggt	4	6	22	9	5	0	2	0	2	0	0	0	4	0	4	3	8	1	1	3	8	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:45867752G>A	uc002xta.1	-	15	2609	c.2355C>T	c.(2353-2355)GTC>GTT	p.V785V	ZMYND8_uc010ghq.1_Silent_p.V462V|ZMYND8_uc010ghr.1_Silent_p.V760V|ZMYND8_uc002xst.1_Silent_p.V713V|ZMYND8_uc002xsu.1_Intron|ZMYND8_uc002xsv.1_Silent_p.V713V|ZMYND8_uc002xsw.1_Silent_p.V537V|ZMYND8_uc002xsx.1_Silent_p.V537V|ZMYND8_uc002xsy.1_Silent_p.V760V|ZMYND8_uc002xsz.1_Silent_p.V722V|ZMYND8_uc010zxy.1_Silent_p.V812V|ZMYND8_uc002xtb.1_Silent_p.V805V|ZMYND8_uc002xss.2_Silent_p.V785V|ZMYND8_uc010zxz.1_Intron|ZMYND8_uc002xtc.1_Silent_p.V805V|ZMYND8_uc002xtd.1_Silent_p.V780V|ZMYND8_uc002xte.1_Silent_p.V785V|ZMYND8_uc010zya.1_Silent_p.V785V|ZMYND8_uc002xtf.1_Silent_p.V805V|ZMYND8_uc002xtg.2_Silent_p.V779V|ZMYND8_uc010ghs.1_Silent_p.V779V|ZMYND8_uc002xsr.1_5'UTR	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	785							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			CCGTGACGGTGACCGTGGAGG	0.687													12	129					0	0	0.013537	0	0		A	45867752	A	A	45867752	2	1	116	1	0	0	0	0	0	0	0	1	17736	1277	45	4		4	ZMYND8	20	45867752	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	1934388	45867752	17157768	415	66184											
ZMYND8	23613	broad.mit.edu	37	chr20	45875236	45875236	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgtgctctacggccgtataGacatcttccgagatttcatt	8	14	8	11	3	3	2	1	0	2	2	4	3	4	2	2	1	2	2	2	1	3	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:45875236G>C	uc002xta.1	-	14	1994	c.1740C>G	c.(1738-1740)GTC>GTG	p.V580V	ZMYND8_uc010ghq.1_Silent_p.V257V|ZMYND8_uc010ghr.1_Silent_p.V555V|ZMYND8_uc002xst.1_Silent_p.V508V|ZMYND8_uc002xsu.1_Silent_p.V580V|ZMYND8_uc002xsv.1_Silent_p.V508V|ZMYND8_uc002xsw.1_Silent_p.V332V|ZMYND8_uc002xsx.1_Silent_p.V332V|ZMYND8_uc002xsy.1_Silent_p.V555V|ZMYND8_uc002xsz.1_Silent_p.V517V|ZMYND8_uc010zxy.1_Silent_p.V607V|ZMYND8_uc002xtb.1_Silent_p.V600V|ZMYND8_uc002xss.2_Silent_p.V580V|ZMYND8_uc010zxz.1_Silent_p.V575V|ZMYND8_uc002xtc.1_Silent_p.V600V|ZMYND8_uc002xtd.1_Silent_p.V575V|ZMYND8_uc002xte.1_Silent_p.V580V|ZMYND8_uc010zya.1_Silent_p.V580V|ZMYND8_uc002xtf.1_Silent_p.V600V|ZMYND8_uc002xtg.2_Silent_p.V574V|ZMYND8_uc010ghs.1_Silent_p.V574V	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	580							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			CGGCCGTATAGACATCTTCCG	0.403													9	115					0	0	0.006214	0	0		C	45875236	C	C	45875236	2	2	116	1	0	0	0	0	0	0	0	1	17736	929	33	5		5	ZMYND8	20	45875236	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	7484	45875236	17150284	416	66185											
PREX1	57580	broad.mit.edu	37	chr20	47274717	47274717	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggacttcaccaccacagccTtgttcttctcctcgatgtca	7	12	6	16	2	4	0	2	0	2	0	6	2	4	1	4	1	1	1	4	1	0	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:47274717T>G	uc002xtw.1	-	17	1954	c.1931A>C	c.(1930-1932)AAG>ACG	p.K644T	PREX1_uc002xtv.1_5'Flank	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	644	PDZ.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			CACCACAGCCTTGTTCTTCTC	0.662											OREG0026010	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	289					0	0	0.010504	0	0		G	47274717	G	G	47274717	3	3	116	1	0	0	0	0	1	0	0	0	12498	1609	56	5	3144	5	PREX1	20	47274717	Missense_Mutation	SNP	T	TCGA-CD-8529-01A-11D-2340-08	1399481	47274717	15750803	417	66186											
CASS4	57091	broad.mit.edu	37	chr20	55033451	55033451	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acagactcctgagaggaaacCccgcttatctgaacactgcc	12	7	8	14	1	1	3	0	2	1	2	2	5	2	4	4	1	3	1	4	1	3	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:55033451C>A	uc002xxp.2	+	7	2234	c.2009C>A	c.(2008-2010)CCC>CAC	p.P670H	CASS4_uc002xxr.2_Missense_Mutation_p.P670H|CASS4_uc010zze.1_Missense_Mutation_p.P616H|CASS4_uc010gio.2_Missense_Mutation_p.P233H	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	670					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						GAGAGGAAACCCCGCTTATCT	0.522													6	79					0.00116845	0.00122638	0.001168	1	0		A	55033451	A	A	55033451	3	1	116	1	0	0	0	0	1	0	0	0	2686	623	22	5	2031	5	CASS4	20	55033451	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	7758734	55033451	7992069	418	66187											
C20orf151	140893	broad.mit.edu	37	chr20	60986024	60986024	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccctcagtggctgtcagtttCcttctccctctggatggctt	3	15	9	14	0	4	0	2	0	2	0	6	1	5	1	3	3	0	3	3	3	0	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:60986024C>T	uc002ycw.1	-	14	2062	c.1905G>A	c.(1903-1905)AGG>AGA	p.R635R		NM_080833	NP_543023	Q8NC74	CT151_HUMAN	hypothetical protein LOC140893	635											0	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;6.43e-06)			CTGTCAGTTTCCTTCTCCCTC	0.637													9	153					0	0	0.006214	0	0		T	60986024	T	T	60986024	2	4	116	1	0	0	0	0	0	0	0	1	2094	854	30	4		4	C20orf151	20	60986024	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	5952573	60986024	2039496	419	66188											
C20orf11	54994	broad.mit.edu	37	chr20	61574443	61574443	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaagatccgggagatgataCtgaaaggtcagattcaggag	14	8	13	6	1	3	5	3	2	0	3	4	7	4	6	1	3	1	0	1	3	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:61574443C>G	uc002ydy.2	+	3	400	c.223C>G	c.(223-225)CTG>GTG	p.L75V		NM_017896	NP_060366	Q9NWU2	CT011_HUMAN	chromosome 20 open reading frame 11	75	CTLH.					nucleus	protein binding				0	Breast(26;5.68e-08)					GGAGATGATACTGAAAGGTCA	0.463													7	128					0	0	0.00308	0	0		G	61574443	G	G	61574443	3	3	116	1	0	0	0	0	1	0	0	0	2082	564	20	5	229	5	C20orf11	20	61574443	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	588419	61574443	1451077	420	66189											
ZGPAT	84619	broad.mit.edu	37	chr20	62367201	62367201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgccagctggggcagctccGggctcaggaagccggcctgc	5	4	17	15	3	1	0	1	0	0	0	2	1	2	1	4	5	4	4	4	5	1	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr20:62367201G>A	uc002ygk.2	+	7	1704	c.1526G>A	c.(1525-1527)CGG>CAG	p.R509Q	ZGPAT_uc002ygi.2_Missense_Mutation_p.R489Q|ZGPAT_uc002ygj.2_Missense_Mutation_p.R489Q|ZGPAT_uc010gkk.1_Missense_Mutation_p.R66Q|ZGPAT_uc010gkl.1_Missense_Mutation_p.R489Q|ZGPAT_uc002ygm.2_Missense_Mutation_p.R480Q|ZGPAT_uc002ygn.3_RNA|LIME1_uc011abi.1_5'UTR|LIME1_uc002ygp.3_5'Flank	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	509					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					GGGCAGCTCCGGGCTCAGGAA	0.642													4	41					0	0	0.009096	0	0		A	62367201	A	A	62367201	3	1	116	1	0	0	0	0	1	0	0	0	17699	1116	39	1	1548	1	ZGPAT	20	62367201	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	792758	62367201	658319	421	66190											
IFNAR2	3455	broad.mit.edu	37	chr21	34621112	34621112	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgaggaagaattacagtttGatttatctctcgtcattgaa	12	16	8	5	1	2	4	1	3	1	1	4	5	2	5	0	1	1	1	0	1	5	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr21:34621112G>C	uc002yrd.2	+	6	821	c.493G>C	c.(493-495)GAT>CAT	p.D165H	IFNAR2_uc002yrb.2_Missense_Mutation_p.D165H|IFNAR2_uc002yrc.2_Missense_Mutation_p.D165H|IFNAR2_uc002yre.2_Missense_Mutation_p.D165H|IFNAR2_uc002yrf.2_Missense_Mutation_p.D165H|IFNAR2_uc002yrg.2_Missense_Mutation_p.D34H|IL10RB_uc002yrh.1_Missense_Mutation_p.D15H|IL10RB_uc002yri.1_5'UTR	NM_207585	NP_997468	P48551	INAR2_HUMAN	interferon alpha/beta receptor 2 isoform a	165	Extracellular (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to interferon-alpha|response to virus|type I interferon-mediated signaling pathway	extracellular region|extracellular space|integral to plasma membrane	protein kinase binding|type I interferon binding|type I interferon receptor activity				0					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	ATTACAGTTTGATTTATCTCT	0.383													14	157					0	0	0.003163	0	0		C	34621112	C	C	34621112	3	2	116	1	0	0	0	0	1	0	0	0	7561	1290	45	5	511	5	IFNAR2	21	34621112	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08		34621112	13508783	422	66191											
TFF3	7033	broad.mit.edu	37	chr21	43733598	43733598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccactggggccttacctgCttcctgcaggggcttgaaac	6	10	12	13	0	0	1	0	1	0	0	1	1	1	1	4	4	5	3	4	4	2	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr21:43733598C>T	uc002zav.2	-	2	448	c.376G>A	c.(376-378)GCA>ACA	p.A126T		NM_003226	NP_003217	Q07654	TFF3_HUMAN	trefoil factor 3 precursor	76				QEA -> TRKT (in Ref. 7; AAA36766).	defense response|digestion	apical lamina of hyaline layer				skin(1)	1						GCCTTACCTGCTTCCTGCAGG	0.632													10	43					0	0	0.008291	0	0		T	43733598	T	T	43733598	3	4	116	1	0	0	0	0	1	0	0	0	15830	797	28	2	24	2	TFF3	21	43733598	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	9112486	43733598	4396297	423	66192											
TMPRSS3	64699	broad.mit.edu	37	chr21	43795903	43795903	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgttcacctctgcgcagccGatgccaaagctggtcgctcc	6	10	10	15	3	2	0	1	0	1	0	4	1	3	0	4	1	4	4	4	1	1	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr21:43795903G>A	uc002zbb.2	-	12	1470	c.1269C>T	c.(1267-1269)ATC>ATT	p.I423I	TMPRSS3_uc002zay.2_Silent_p.I180I|TMPRSS3_uc002zaz.2_Silent_p.I296I|TMPRSS3_uc002zba.2_Silent_p.I296I|TMPRSS3_uc002zbc.2_Silent_p.I422I	NM_024022	NP_076927	P57727	TMPS3_HUMAN	transmembrane protease, serine 3 isoform 1	423	Peptidase S1.|Extracellular (Potential).				cellular sodium ion homeostasis|proteolysis	endoplasmic reticulum membrane|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity|sodium channel regulator activity			ovary(2)|breast(1)	3						CTGCGCAGCCGATGCCAAAGC	0.627													15	167					0	0	0.00499	0	0		A	43795903	A	A	43795903	2	1	116	1	0	0	0	0	0	0	0	1	16273	1048	37	1		1	TMPRSS3	21	43795903	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	62305	43795903	4333992	424	66193											
KRTAP12-3	386683	broad.mit.edu	37	chr21	46078067	46078067	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccctccgtgtgcgtgccCgtgagctgcaggcccatcat	5	8	12	16	3	1	1	1	1	0	0	2	1	2	1	4	1	5	2	4	1	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr21:46078067C>T	uc002zft.2	+	1	219	c.171C>T	c.(169-171)CCC>CCT	p.P57P	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198697	NP_941970	P60328	KR123_HUMAN	keratin associated protein 12-3	57	8.|14 X 5 AA approximate repeats.					intermediate filament				central_nervous_system(1)	1						TGTGCGTGCCCGTGAGCTGCA	0.647													10	101					0	0	0.013537	0	0		T	46078067	T	T	46078067	2	4	116	1	0	0	0	0	0	0	0	1	8536	639	23	1		1	KRTAP12-3	21	46078067	Silent	SNP	C	TCGA-CD-8529-01A-11D-2340-08	2282164	46078067	2051828	425	66194											
KRTAP10-12	386685	broad.mit.edu	37	chr21	46117179	46117179	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccttcctggttcctgtgaCtcttgctccgactcctggca	3	14	9	15	1	1	1	0	1	1	0	5	2	5	1	5	2	2	3	5	2	0	3			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr21:46117179C>A	uc002zfw.1	+	1	93	c.63C>A	c.(61-63)GAC>GAA	p.D21E	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198699	NP_941972	P60413	KR10C_HUMAN	keratin associated protein 10-12	21						keratin filament					0						GTTCCTGTGACTCTTGCTCCG	0.682													12	128					1.49906e-05	1.66271e-05	0.00245	1	0		A	46117179	A	A	46117179	3	1	116	1	0	0	0	0	1	0	0	0	8524	564	20	5	65	5	KRTAP10-12	21	46117179	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	39112	46117179	2012716	426	66195											
DIP2A	23181	broad.mit.edu	37	chr21	47918594	47918594	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgtcgagccctggctcgAccgggtcattcagggctcgt	5	8	14	14	5	2	0	2	0	0	0	5	2	2	0	2	3	2	2	2	3	0	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr21:47918594A>T	uc002zjo.2	+	5	686	c.503A>T	c.(502-504)GAC>GTC	p.D168V	DIP2A_uc011afy.1_Missense_Mutation_p.D104V|DIP2A_uc011afz.1_Missense_Mutation_p.D168V|DIP2A_uc002zjl.2_Missense_Mutation_p.D168V|DIP2A_uc002zjm.2_Missense_Mutation_p.D168V|DIP2A_uc010gql.2_Missense_Mutation_p.D168V|DIP2A_uc002zjn.2_Missense_Mutation_p.D168V	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	168					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		CCCTGGCTCGACCGGGTCATT	0.652													15	158					0	0	0.003163	0	0		T	47918594	T	T	47918594	3	4	116	1	0	0	0	0	1	0	0	0	4533	275	10	5	521	5	DIP2A	21	47918594	Missense_Mutation	SNP	A	TCGA-CD-8529-01A-11D-2340-08	1801415	47918594	211301	427	66196											
ZDHHC8	29801	broad.mit.edu	37	chr22	20128487	20128487	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccgagctgcaccgctcaaGgtcaagcttagtgacaacgg	11	6	12	12	3	2	1	2	1	0	0	2	3	2	1	2	2	4	4	2	2	4	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr22:20128487G>T	uc002zrq.2	+	7	952	c.846G>T	c.(844-846)AAG>AAT	p.K282N	ZDHHC8_uc002zrr.1_Missense_Mutation_p.K282N|ZDHHC8_uc010gsa.2_Missense_Mutation_p.K88N	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	282	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					CACCGCTCAAGGTCAAGCTTA	0.647													13	85					2.61681e-11	3.10594e-11	0.00245	1	0		T	20128487	T	T	20128487	3	4	116	1	0	0	0	0	1	0	0	0	17646	991	35	5	872	5	ZDHHC8	22	20128487	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08		20128487	31176079	428	66197											
AP1B1	162	broad.mit.edu	37	chr22	29736691	29736691	+	Frame_Shift_Del	DEL	A	-	-																															ggtccacagctcccatctgcAccgaggaggtggccaggggt																										TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr22:29736691delA	uc003afj.2	-	14	2136	c.1952delT	c.(1951-1953)GTGfs	p.V651fs	AP1B1_uc003afi.2_Frame_Shift_Del_p.V651fs|AP1B1_uc003afk.2_Frame_Shift_Del_p.V651fs|AP1B1_uc003afl.2_Frame_Shift_Del_p.V651fs|AP1B1_uc011ako.1_Frame_Shift_Del_p.V204fs	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	651	Pro-rich (stalk region).				endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						TCCCATCTGCACCGAGGAGGT	0.627													2	4	---	---	---	---						.	-	29736691	-	-	29736691	7	5	116	1	0	1	0	1	0	0	0	0	731	159	6	0	937	0	AP1B1	22	29736691	Frame_Shift_Del	DEL	A	TCGA-CD-8529-01A-11D-2340-08	9608204	29736691	21567875	429	66198											
DDX17	10521	broad.mit.edu	37	chr22	38889732	38889732	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taccattaagtacccaatctCtttctggttgactcttgtct	8	17	5	11	0	4	1	0	1	4	0	5	1	4	1	2	1	2	2	2	1	4	6			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr22:38889732C>G	uc003avy.3	-	10	1473	c.1370G>C	c.(1369-1371)AGA>ACA	p.R457T	DDX17_uc003avx.3_Missense_Mutation_p.R457T|DDX17_uc011anu.1_Missense_Mutation_p.R370T	NM_001098504	NP_001091974	Q92841	DDX17_HUMAN	DEAD box polypeptide 17 isoform 3	378	Helicase C-terminal.				RNA processing	nucleus	ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity|RNA-dependent ATPase activity			skin(3)|upper_aerodigestive_tract(1)	4	Melanoma(58;0.0286)					TACCCAATCTCTTTCTGGTTG	0.348													5	64					0	0	0.001984	0	0		G	38889732	G	G	38889732	3	3	116	1	0	0	0	0	1	0	0	0	4347	913	32	5	841	5	DDX17	22	38889732	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	9153041	38889732	12414834	430	66199											
PARVG	64098	broad.mit.edu	37	chr22	44585079	44585079	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagctcacagtggtgctggaGgccgtgaaccggagtctgca	9	7	15	10	2	2	1	1	1	1	0	2	3	2	3	2	4	4	3	2	4	2	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr22:44585079G>T	uc011aqe.1	+	6	757	c.333G>T	c.(331-333)GAG>GAT	p.E111D	PARVG_uc003bep.2_Missense_Mutation_p.E111D|PARVG_uc011aqf.1_Missense_Mutation_p.E111D|PARVG_uc003beq.2_RNA|PARVG_uc003ber.2_RNA	NM_001137605	NP_001131077	Q9HBI0	PARVG_HUMAN	parvin, gamma	111	CH 1.				cell-matrix adhesion	cytoplasm|cytoskeleton|focal adhesion	actin binding				0		Ovarian(80;0.024)|all_neural(38;0.0299)				TGGTGCTGGAGGCCGTGAACC	0.652													4	39					0.00024832	0.000265572	0.009096	1	0		T	44585079	T	T	44585079	3	4	116	1	0	0	0	0	1	0	0	0	11489	991	35	5	347	5	PARVG	22	44585079	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08	5695347	44585079	6719487	431	66200											
CELSR1	9620	broad.mit.edu	37	chr22	46930239	46930239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcacaccggacgtgggctcGatgtagaagtccccatcgcc	9	7	11	14	4	1	1	1	0	0	1	4	3	2	2	4	2	0	2	4	2	2	1	rs35087594	byFrequency	TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chr22:46930239G>A	uc003bhw.1	-	1	2829	c.2829C>T	c.(2827-2829)ATC>ATT	p.I943I		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	943	Extracellular (Potential).|Cadherin 7.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		ACGTGGGCTCGATGTAGAAGT	0.647													4	40					0	0	0.000602	0	0		A	46930239	A	A	46930239	2	1	116	1	0	0	0	0	0	0	0	1	3224	1048	37	1		1	CELSR1	22	46930239	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	2345160	46930239	4374327	432	66201											
IL3RA	3563	broad.mit.edu	37	chrX	1460718	1460718	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtctcctgcaaacgaaGgaaggtaagaactggagaaa	15	6	11	9	1	1	2	0	0	1	2	2	5	1	3	2	3	3	2	2	3	6	1			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chrX:1460718G>C	uc004cps.2	+	2	409	c.60G>C	c.(58-60)AAG>AAC	p.K20N	IL3RA_uc011mhd.1_Missense_Mutation_p.K20N	NM_002183	NP_002174	P26951	IL3RA_HUMAN	interleukin 3 receptor, alpha precursor	20	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-3 receptor activity			skin(2)|lung(1)	3		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	TGCAAACGAAGGAAGGTAAGA	0.572													13	123					0	0	0.00245	0	0		C	1460718	C	C	1460718	3	2	116	1	0	0	0	0	1	0	0	0	7711	991	35	5	62	5	IL3RA	23	1460718	Missense_Mutation	SNP	G	TCGA-CD-8529-01A-11D-2340-08		1460718	153809842	433	66202											
GK	2710	broad.mit.edu	37	chrX	30686201	30686201	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaaacatgtgagaaactTggacagctcaatattgatat	17	10	9	5	0	1	3	1	2	0	2	1	6	1	4	0	1	3	1	0	1	6	4			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chrX:30686201T>G	uc004dch.3	+	3	404	c.225T>G	c.(223-225)CTT>CTG	p.L75L	GK_uc010ngj.2_Silent_p.L75L|GK_uc004dci.3_Silent_p.L75L|GK_uc011mjz.1_5'UTR|GK_uc011mka.1_Intron|GK_uc010ngk.2_Intron	NM_203391	NP_976325	P32189	GLPK_HUMAN	glycerol kinase isoform a	75					glycerol-3-phosphate metabolic process|triglyceride biosynthetic process	cytosol|mitochondrial outer membrane	ATP binding|glycerol kinase activity			central_nervous_system(1)	1						GTGAGAAACTTGGACAGCTCA	0.313													7	27					0	0	0.001984	0	0		G	30686201	G	G	30686201	2	3	116	1	0	0	0	0	0	0	0	1	6435	1799	63	5		5	GK	23	30686201	Silent	SNP	T	TCGA-CD-8529-01A-11D-2340-08	29225483	30686201	124584359	434	66203											
DGKK	139189	broad.mit.edu	37	chrX	50146111	50146111	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtctttgataactgccaCagctctcatgacacactgca	12	10	7	12	0	2	2	1	2	2	0	3	3	2	2	1	0	4	2	1	0	2	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chrX:50146111C>G	uc010njr.1	-	7	1316	c.1256G>C	c.(1255-1257)TGT>TCT	p.C419S		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	419	Phorbol-ester/DAG-type 2.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					ATAACTGCCACAGCTCTCATG	0.463													4	15					0	0	0.000602	0	0		G	50146111	G	G	50146111	3	3	116	1	0	0	0	0	1	0	0	0	4478	478	17	5	2646	5	DGKK	23	50146111	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	19459910	50146111	105124449	435	66204											
ERCC6L	54821	broad.mit.edu	37	chrX	71425290	71425290	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcaagtctttcctccatGtcctccacgtggtctaaaac	8	13	6	14	2	3	0	1	0	2	0	8	0	7	0	4	1	1	0	4	1	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chrX:71425290G>A	uc004eaq.1	-	2	3424	c.3327C>T	c.(3325-3327)GAC>GAT	p.D1109D	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Silent_p.D986D	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	1109					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					TTTCCTCCATGTCCTCCACGT	0.448													24	52					0	0	0.00278	0	0		A	71425290	A	A	71425290	2	1	116	1	0	0	0	0	0	0	0	1	5226	1368	48	4		4	ERCC6L	23	71425290	Silent	SNP	G	TCGA-CD-8529-01A-11D-2340-08	21279179	71425290	83845270	436	66205											
ATP7A	538	broad.mit.edu	37	chrX	77267114	77267114	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttcctggagcgccagatTcttccaggattgtctgttat	7	15	10	9	1	2	1	0	0	2	1	4	3	4	3	3	2	1	2	3	2	1	5			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chrX:77267114T>C	uc004ecx.3	+	9	2275	c.2115T>C	c.(2113-2115)ATT>ATC	p.I705I	ATP7A_uc004ecw.2_3'UTR	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	705	Extracellular (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						AGCGCCAGATTCTTCCAGGAT	0.343													20	133					0	0	0.00333	0	0		C	77267114	C	C	77267114	2	2	116	1	0	0	0	0	0	0	0	1	1191	1771	62	3		3	ATP7A	23	77267114	Silent	SNP	T	TCGA-CD-8529-01A-11D-2340-08	5841824	77267114	78003446	437	66206											
NSDHL	50814	broad.mit.edu	37	chrX	152014936	152014936	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatttgacagaggacactcCcaaagtgaatgctgacatag	14	9	9	9	0	1	4	1	3	0	1	2	5	2	5	1	1	1	1	1	1	3	2			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chrX:152014936C>A	uc004fgt.1	+	3	329	c.68C>A	c.(67-69)CCC>CAC	p.P23H	NSDHL_uc004fgs.1_Missense_Mutation_p.P23H	NM_001129765	NP_001123237	Q15738	NSDHL_HUMAN	NAD(P) dependent steroid dehydrogenase-like	23					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity|sterol-4-alpha-carboxylate 3-dehydrogenase (decarboxylating) activity				0	Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	GAGGACACTCCCAAAGTGAAT	0.438													23	31					7.76418e-22	9.39097e-22	0.005443	1	0		A	152014936	A	A	152014936	3	1	116	1	0	0	0	0	1	0	0	0	10689	623	22	5	70	5	NSDHL	23	152014936	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	74747822	152014936	3255624	438	66207											
HCFC1	3054	broad.mit.edu	37	chrX	153220024	153220024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgaggggcacagcagtgcctCcagggctgtcacagtcactg	8	6	14	13	1	2	0	2	0	0	0	3	1	3	0	2	3	2	3	2	3	0	0			TCGA-CD-8529-01A-11D-2340-08	TCGA-CD-8529-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	931b24da-5d6d-4c2d-8de9-ef32d6eb8565	5faa05c2-24b8-4af2-8552-4d60486c0bcd	g.chrX:153220024C>T	uc004fjp.2	-	17	4354	c.3826G>A	c.(3826-3828)GAG>AAG	p.E1276K		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1276					cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGCAGTGCCTCCAGGGCTGTC	0.662													12	58					0	0	0.010729	0	0		T	153220024	T	T	153220024	3	4	116	1	0	0	0	0	1	0	0	0	7007	864	30	4	2321	4	HCFC1	23	153220024	Missense_Mutation	SNP	C	TCGA-CD-8529-01A-11D-2340-08	1205088	153220024	2050536	439	66208											
VPS13D	55187	broad.mit.edu	37	chr1	12414216	12414216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaatgccaattaatgggaCgctgaaacctggcaaggagg	14	6	14	7	1	0	1	0	1	0	0	0	4	0	4	2	5	2	2	2	5	5	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr1:12414216C>T	uc001atv.2	+	47	9758	c.9617C>T	c.(9616-9618)ACG>ATG	p.T3206M	VPS13D_uc001atw.2_Missense_Mutation_p.T3181M|VPS13D_uc001atx.2_Missense_Mutation_p.T2393M	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3205					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		ATTAATGGGACGCTGAAACCT	0.438													7	61					0	0	0.00308	0	0		T	12414216	T	T	12414216	3	4	117	1	0	0	0	0	1	0	0	0	17218	536	19	1	9799	1	VPS13D	1	12414216	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08		12414216	236836405	1	66209											
LOC649330	649330	broad.mit.edu	37	chr1	12907860	12907860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgatcgtttcacacctgCgtttcctcggttcacttttg	4	17	8	12	3	2	1	2	1	0	0	5	1	3	1	2	1	2	4	2	1	0	5			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr1:12907860C>T	uc009vno.2	-	1	378	c.283G>A	c.(283-285)GCA>ACA	p.A95T	HNRNPCL1_uc010obf.1_Missense_Mutation_p.A95T	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	95							nucleic acid binding|nucleotide binding				0						TTCACACCTGCGTTTCCTCGG	0.493													12	165					0	0	0.013537	0	0		T	12907860	T	T	12907860	3	4	117	1	0	0	0	0	1	0	0	0	8903	768	27	1	602	1	LOC649330	1	12907860	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	493644	12907860	236342761	2	66210											
ZCCHC11	23318	broad.mit.edu	37	chr1	52901122	52901122	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgagcatttacaaggttgCggaccagctgggctgctaag	9	10	14	8	1	0	1	0	1	0	0	0	2	0	2	1	3	5	6	1	3	3	5			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr1:52901122C>T	uc001ctx.2	-	27	4409	c.4175G>A	c.(4174-4176)CGC>CAC	p.R1392H	ZCCHC11_uc001cty.2_Missense_Mutation_p.R1393H|ZCCHC11_uc001ctz.2_Missense_Mutation_p.R1388H|ZCCHC11_uc001cua.1_Missense_Mutation_p.R310H	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	1392					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						TACAAGGTTGCGGACCAGCTG	0.428													6	27					0	0	0.001984	0	0		T	52901122	T	T	52901122	3	4	117	1	0	0	0	0	1	0	0	0	17605	768	27	1	775	1	ZCCHC11	1	52901122	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	39993262	52901122	196349499	3	66211											
NBPF10	100132406	broad.mit.edu	37	chr1	145328417	145328417	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaagacgaagaccaagAcccaccatgccccaggtaac	16	2	10	13	1	0	4	0	0	0	4	0	6	0	5	5	2	2	1	5	2	5	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr1:145328417A>G	uc001end.3	+	35	4525	c.4490A>G	c.(4489-4491)GAC>GGC	p.D1497G	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF10_uc001emp.3_Intron|NBPF10_uc010oyi.1_Intron|NBPF10_uc010oyk.1_Intron|NBPF10_uc010oyl.1_Intron|NBPF10_uc001enc.2_Intron|NBPF10_uc010oym.1_Intron|NBPF10_uc010oyn.1_Intron|NBPF10_uc010oyo.1_Intron|NBPF10_uc010oyp.1_Intron	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	1422											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		GAAGACCAAGACCCACCATGC	0.458													5	74					0	0	0.000602	0	0		G	145328417	G	G	145328417	3	3	117	1	0	0	0	0	1	0	0	0	10211	275	10	3	4395	3	NBPF10	1	145328417	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08	92427295	145328417	103922204	4	66212											
SPTA1	6708	broad.mit.edu	37	chr1	158592943	158592943	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagtgatctcgggaagtcTctcttgctggaaactctgca	8	12	11	10	1	5	1	1	1	4	0	7	3	5	3	0	2	3	2	0	2	2	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr1:158592943T>C	uc001fst.1	-	43	6149	c.5950A>G	c.(5950-5952)AGA>GGA	p.R1984G		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1984	Spectrin 19.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCGGGAAGTCTCTCTTGCTGG	0.498													17	354					0	0	0.00499	0	0		C	158592943	C	C	158592943	3	2	117	1	0	0	0	0	1	0	0	0	15141	1559	54	3	1349	3	SPTA1	1	158592943	Missense_Mutation	SNP	T	TCGA-CD-8530-01A-11D-2340-08	13264526	158592943	90657678	5	66213											
RYR2	6262	broad.mit.edu	37	chr1	237494273	237494273	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggctaacaccgtggagaaAtcagaaggggcaagtaccca	14	5	12	10	1	1	2	1	0	0	2	1	3	1	2	2	4	2	3	2	4	5	2	rs148850606	by1000genomes	TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr1:237494273A>T	uc001hyl.1	+	3	384	c.264A>T	c.(262-264)AAA>AAT	p.K88N		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	88	Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CCGTGGAGAAATCAGAAGGGG	0.478													23	41					0	0	0.004656	0	0		T	237494273	T	T	237494273	3	4	117	1	0	0	0	0	1	0	0	0	13794	98	4	5	274	5	RYR2	1	237494273	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08	78901330	237494273	11756348	6	66214											
DHX57	90957	broad.mit.edu	37	chr2	39075508	39075508	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttgaagacctggcctctgCgatacaatgtccttcaaaac	12	10	7	12	1	2	2	1	1	1	1	3	3	3	2	3	1	3	0	3	1	5	3	rs147299842		TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr2:39075508C>T	uc002rrf.2	-	10	2166	c.2067G>A	c.(2065-2067)TCG>TCA	p.S689S	DHX57_uc002rrd.3_Silent_p.S73S|DHX57_uc002rre.2_Silent_p.S122S	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	689	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				CTGGCCTCTGCGATACAATGT	0.363													24	49					0	0	0.003954	0	0		T	39075508	T	T	39075508	2	4	117	1	0	0	0	0	0	0	0	1	4519	755	27	1		1	DHX57	2	39075508	Silent	SNP	C	TCGA-CD-8530-01A-11D-2340-08		39075508	204123865	7	66215											
RTN4	57142	broad.mit.edu	37	chr2	55254410	55254410	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttgccttctctgagacCtctttagaagcttcactgac	7	16	7	11	0	3	3	1	2	2	2	4	4	3	3	2	0	2	2	2	0	2	6			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr2:55254410C>G	uc002rye.2	-	3	1123	c.825G>C	c.(823-825)GAG>GAC	p.E275D	RTN4_uc002ryd.2_Missense_Mutation_p.E69D|RTN4_uc002ryf.2_Intron|RTN4_uc002ryg.2_Intron	NM_020532	NP_065393	Q9NQC3	RTN4_HUMAN	reticulon 4 isoform A	275	Cytoplasmic (Potential).				apoptosis|axonal fasciculation|cerebral cortex radial glia guided migration|endoplasmic reticulum tubular network organization|negative regulation of anti-apoptosis|negative regulation of axon extension|nerve growth factor receptor signaling pathway|regulation of apoptosis|regulation of branching morphogenesis of a nerve|regulation of cell migration	integral to endoplasmic reticulum membrane|nuclear envelope|plasma membrane	protein binding			ovary(2)|large_intestine(1)	3						TCTCTGAGACCTCTTTAGAAG	0.378													20	54					0	0	0.010504	0	0		G	55254410	G	G	55254410	3	3	117	1	0	0	0	0	1	0	0	0	13753	680	24	5	2819	5	RTN4	2	55254410	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	16178902	55254410	187944963	8	66216			1	26		2	2	15	C		4.477118e-05
RTN4	57142	broad.mit.edu	37	chr2	55254424	55254424	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgagacctctttagaagcttCactgacattttcttgaagtg	10	15	8	8	0	3	4	1	3	2	2	3	5	3	4	1	0	1	1	1	0	3	6			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr2:55254424C>G	uc002rye.2	-	3	1109	c.811G>C	c.(811-813)GAA>CAA	p.E271Q	RTN4_uc002ryd.2_Missense_Mutation_p.E65Q|RTN4_uc002ryf.2_Intron|RTN4_uc002ryg.2_Intron	NM_020532	NP_065393	Q9NQC3	RTN4_HUMAN	reticulon 4 isoform A	271	Cytoplasmic (Potential).				apoptosis|axonal fasciculation|cerebral cortex radial glia guided migration|endoplasmic reticulum tubular network organization|negative regulation of anti-apoptosis|negative regulation of axon extension|nerve growth factor receptor signaling pathway|regulation of apoptosis|regulation of branching morphogenesis of a nerve|regulation of cell migration	integral to endoplasmic reticulum membrane|nuclear envelope|plasma membrane	protein binding			ovary(2)|large_intestine(1)	3						TTAGAAGCTTCACTGACATTT	0.378													17	60					0	0	0.00499	0	0		G	55254424	G	G	55254424	3	3	117	1	0	0	0	0	1	0	0	0	13753	835	29	5	2833	5	RTN4	2	55254424	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	14	55254424	187944949	9	66217			1	26		2	2	15	C		4.477118e-05
MKI67IP	84365	broad.mit.edu	37	chr2	122489750	122489750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aacatcctcagactcaaactCcacaaatgcatagcctttgc	14	9	4	14	0	2	1	2	0	0	1	4	1	4	1	3	0	5	1	3	0	4	2	rs144818693	byFrequency	TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr2:122489750C>T	uc002tnk.2	-	3	351	c.274G>A	c.(274-276)GAG>AAG	p.E92K	MKI67IP_uc010fls.2_Missense_Mutation_p.E92K	NM_032390	NP_115766	Q9BYG3	MK67I_HUMAN	MKI67 interacting nucleolar phosphoprotein	92	RRM.				protein complex assembly|rRNA metabolic process|rRNA transcription	condensed nuclear chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						GACTCAAACTCCACAAATGCA	0.403													4	51					0	0	0.009096	0	0		T	122489750	T	T	122489750	3	4	117	1	0	0	0	0	1	0	0	0	9617	864	30	4	627	4	MKI67IP	2	122489750	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	67235326	122489750	120709623	10	66218											
CNTNAP5	129684	broad.mit.edu	37	chr2	125530443	125530443	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcttgtagtccagtctccTtctcttctgaatgacaacca	9	13	7	12	0	3	2	0	2	3	0	6	3	4	2	3	0	2	2	3	0	3	4			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr2:125530443T>G	uc002tno.2	+	17	2962	c.2598T>G	c.(2596-2598)CCT>CCG	p.P866P	CNTNAP5_uc010flu.2_Silent_p.P867P	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	866	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TCCAGTCTCCTTCTCTTCTGA	0.522													21	63					0	0	0.010504	0	0		G	125530443	G	G	125530443	2	3	117	1	0	0	0	0	0	0	0	1	3653	1596	56	5		5	CNTNAP5	2	125530443	Silent	SNP	T	TCGA-CD-8530-01A-11D-2340-08	3040693	125530443	117668930	11	66219											
LRP1B	53353	broad.mit.edu	37	chr2	141641574	141641574	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccatgctccacaaccacTtcaatggcactgacacctac	12	7	6	16	0	1	1	1	1	0	0	2	1	2	1	4	2	3	2	4	2	3	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr2:141641574T>A	uc002tvj.1	-	25	4953	c.3981A>T	c.(3979-3981)GAA>GAT	p.E1327D	LRP1B_uc010fnl.1_Missense_Mutation_p.E509D	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1327	Extracellular (Potential).|LDL-receptor class B 9.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CCACAACCACTTCAATGGCAC	0.473										TSP Lung(27;0.18)			5	63					0	0	0.001168	0	0		A	141641574	A	A	141641574	3	1	117	1	0	0	0	0	1	0	0	0	8973	1606	56	5	10086	5	LRP1B	2	141641574	Missense_Mutation	SNP	T	TCGA-CD-8530-01A-11D-2340-08	16111131	141641574	101557799	12	66220											
TTN	7273	broad.mit.edu	37	chr2	179428698	179428698	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgggttccatgccaggtaAcatttttccgcagtaactcc	8	12	10	11	1	0	0	0	0	0	0	3	0	3	0	4	3	3	4	4	3	2	5			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr2:179428698A>C	uc010zfg.1	-	275	74681	c.74457T>G	c.(74455-74457)TGT>TGG	p.C24819W	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.C18514W|TTN_uc010zfi.1_Missense_Mutation_p.C18447W|TTN_uc010zfj.1_Missense_Mutation_p.C18322W	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25746							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGCCAGGTAACATTTTTCCG	0.468													15	73					0	0	0.00245	0	0		C	179428698	C	C	179428698	3	2	117	1	0	0	0	0	1	0	0	0	16761	41	2	5	25966	5	TTN	2	179428698	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08	37787124	179428698	63770675	13	66221											
PLCL1	5334	broad.mit.edu	37	chr2	198949824	198949824	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcagaatcctacctccCatcaccagaaaaattaaaaa	17	7	3	14	0	2	2	2	0	0	2	4	2	4	2	5	0	1	0	5	0	7	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr2:198949824C>A	uc010fsp.2	+	2	1874	c.1583C>A	c.(1582-1584)CCA>CAA	p.P528Q	PLCL1_uc002uuv.3_Missense_Mutation_p.P449Q	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	528	PI-PLC X-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TCCTACCTCCCATCACCAGAA	0.408													8	43					5.18039e-06	5.54751e-06	0.00308	1	0		A	198949824	A	A	198949824	3	1	117	1	0	0	0	0	1	0	0	0	12058	594	21	5	1589	5	PLCL1	2	198949824	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	19521126	198949824	44249549	14	66222											
C2orf60	129450	broad.mit.edu	37	chr2	200820176	200820176	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccctccagccggggtaccggGaggtgctgcccggccatggt	4	6	16	15	3	0	0	0	0	0	0	1	1	1	1	6	6	4	2	6	6	1	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr2:200820176G>C	uc002uvi.3	-	1	284	c.18C>G	c.(16-18)CTC>CTG	p.L6L	C2orf60_uc002uvj.3_5'UTR|C2orf60_uc002uvk.3_RNA|C2orf60_uc010fss.2_5'UTR|C2orf60_uc002uvl.2_Silent_p.L6L|C2orf47_uc002uvm.2_Intron	NM_001039693	NP_001034782	A2RUC4	TYW5_HUMAN	hypothetical protein LOC129450	6					wybutosine biosynthetic process		iron ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein homodimerization activity|tRNA binding				0						GGGGTACCGGGAGGTGCTGCC	0.652													5	17					0	0	0.001168	0	0		C	200820176	C	C	200820176	2	2	117	1	0	0	0	0	0	0	0	1	2182	1161	41	5		5	C2orf60	2	200820176	Silent	SNP	G	TCGA-CD-8530-01A-11D-2340-08	1870352	200820176	42379197	15	66223											
HDLBP	3069	broad.mit.edu	37	chr2	242178175	242178175	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgatggaatttctggggtaTagcacattctaatgtcacct	10	14	9	8	1	3	0	1	0	2	0	4	2	3	1	1	3	1	2	1	3	4	5			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr2:242178175T>C	uc002waz.2	-	20	2866	c.2638A>G	c.(2638-2640)ATA>GTA	p.I880V	HDLBP_uc002wba.2_Missense_Mutation_p.I880V|HDLBP_uc002wbb.2_Missense_Mutation_p.I832V	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	880	KH 10.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		TTCTGGGGTATAGCACATTCT	0.423													64	205					0	0	0.01441	0	0		C	242178175	C	C	242178175	3	2	117	1	0	0	0	0	1	0	0	0	7041	1406	49	3	1204	3	HDLBP	2	242178175	Missense_Mutation	SNP	T	TCGA-CD-8530-01A-11D-2340-08	41357999	242178175	1021198	16	66224											
PLCL2	23228	broad.mit.edu	37	chr3	17051550	17051550	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttgccaactccgcagatGttgcaaacatctgggttaca	10	11	10	10	1	1	1	0	0	1	1	2	1	2	1	2	2	5	5	2	2	3	3			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr3:17051550G>T	uc011awc.1	+	5	793	c.688G>T	c.(688-690)GTT>TTT	p.V230F	PLCL2_uc010het.1_Missense_Mutation_p.V112F|PLCL2_uc011awd.1_Missense_Mutation_p.V112F	NM_001144382	NP_001137854	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2 isoform 1	238	PH.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(2)|ovary(1)|lung(1)	4						CTCCGCAGATGTTGCAAACAT	0.408													14	117					7.93312e-07	8.63124e-07	0.00245	1	0		T	17051550	T	T	17051550	3	4	117	1	0	0	0	0	1	0	0	0	12059	1377	48	5	712	5	PLCL2	3	17051550	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08		17051550	180970880	17	66225											
SACM1L	22908	broad.mit.edu	37	chr3	45746628	45746628	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctttcctttcttttaaagtCaagaaagatgttcctccttc	9	18	4	10	0	3	2	1	0	2	2	7	2	6	2	3	0	0	1	3	0	4	6			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr3:45746628C>T	uc003cos.2	+	3	336	c.132C>T	c.(130-132)GTC>GTT	p.V44V	SACM1L_uc011bag.1_5'UTR|SACM1L_uc011bah.1_Missense_Mutation_p.S21L	NM_014016	NP_054735	Q9NTJ5	SAC1_HUMAN	suppressor of actin 1	44						Golgi apparatus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0102)|KIRC - Kidney renal clear cell carcinoma(197;0.0234)|Kidney(197;0.0277)		CTTTTAAAGTCAAGAAAGATG	0.358													16	31					0	0	0.004007	0	0		T	45746628	T	T	45746628	2	4	117	1	0	0	0	0	0	0	0	1	13828	840	29	4		4	SACM1L	3	45746628	Silent	SNP	C	TCGA-CD-8530-01A-11D-2340-08	28695078	45746628	152275802	18	66226											
CELSR3	1951	broad.mit.edu	37	chr3	48699919	48699919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgatatgcgcccttggccccGtagtggcagctaagcctggg	6	8	14	13	3	0	0	0	0	0	0	0	1	0	0	4	3	3	3	4	3	3	4			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr3:48699919G>A	uc003cul.2	-	1	430	c.149C>T	c.(148-150)ACG>ATG	p.T50M	CELSR3_uc003cuf.1_Missense_Mutation_p.T120M	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	50	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CCTTGGCCCCGTAGTGGCAGC	0.677													6	23					0	0	0.001984	0	0		A	48699919	A	A	48699919	3	1	117	1	0	0	0	0	1	0	0	0	3226	1145	40	1	9929	1	CELSR3	3	48699919	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08	2953291	48699919	149322511	19	66227											
DOCK3	1795	broad.mit.edu	37	chr3	51112789	51112789	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctttctctttactagacAtttgggcctggacctggtgc	5	15	11	10	0	2	1	0	0	2	1	3	2	2	2	2	4	2	0	2	4	2	5			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr3:51112789A>C	uc011bds.1	+	7	490	c.467A>C	c.(466-468)CAT>CCT	p.H156P		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	156						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		TTTACTAGACATTTGGGCCTG	0.448													3	12					0	0	0.004672	0	0		C	51112789	C	C	51112789	3	2	117	1	0	0	0	0	1	0	0	0	4694	217	8	5	493	5	DOCK3	3	51112789	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08	2412870	51112789	146909641	20	66228											
ZBTB49	166793	broad.mit.edu	37	chr4	4301776	4301776	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttggtggtaaaaggagtctGctttaaagcgcataagaatg	13	11	13	4	1	1	1	0	0	1	1	1	2	1	2	0	3	2	4	0	3	6	5			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr4:4301776G>T	uc003ghu.2	+	2	279	c.104G>T	c.(103-105)TGC>TTC	p.C35F	ZBTB49_uc003ghv.2_5'UTR|ZBTB49_uc010icy.2_RNA|ZBTB49_uc010icz.2_5'Flank	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	35	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						AAAGGAGTCTGCTTTAAAGCG	0.468													33	88					9.17885e-22	1.06694e-21	0.003271	1	0		T	4301776	T	T	4301776	3	4	117	1	0	0	0	0	1	0	0	0	17575	1319	46	5	106	5	ZBTB49	4	4301776	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08		4301776	186852500	21	66229											
TECRL	253017	broad.mit.edu	37	chr4	65175598	65175598	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaactttgtgaacaaataaGgtttccaaaaggtatcggat	16	11	9	5	1	0	1	0	1	0	0	2	3	1	2	1	3	2	2	1	3	7	4			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr4:65175598G>T	uc003hcv.2	-	6	712	c.603C>A	c.(601-603)ACC>ACA	p.T201T	TECRL_uc003hcw.2_Silent_p.T201T	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	201					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						GAACAAATAAGGTTTCCAAAA	0.323													16	84					1.33834e-09	1.50425e-09	0.007413	1	0		T	65175598	T	T	65175598	2	4	117	1	0	0	0	0	0	0	0	1	15771	987	35	5		5	TECRL	4	65175598	Silent	SNP	G	TCGA-CD-8530-01A-11D-2340-08	60873822	65175598	125978678	22	66230											
SPP1	6696	broad.mit.edu	37	chr4	88902928	88902928	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgaggtcaaaatctaagaAgtttcgcagacctgacatcc	14	9	8	10	1	2	4	1	2	1	2	4	4	3	4	2	1	0	2	2	1	4	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr4:88902928A>C	uc003hra.2	+	6	683	c.518A>C	c.(517-519)AAG>ACG	p.K173T	SPP1_uc003hrb.2_Missense_Mutation_p.K146T|SPP1_uc003hrc.2_Missense_Mutation_p.K159T|SPP1_uc011cde.1_Missense_Mutation_p.K186T|SPP1_uc003hrd.2_Missense_Mutation_p.K132T	NM_001040058	NP_001035147	P10451	OSTP_HUMAN	secreted phosphoprotein 1 isoform a	173					biomineral tissue development|cell adhesion|decidualization|embryo implantation|ossification|response to vitamin D	extracellular space	cytokine activity			ovary(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-05)		AAATCTAAGAAGTTTCGCAGA	0.443													10	52					0	0	0.006214	0	0		C	88902928	C	C	88902928	3	2	117	1	0	0	0	0	1	0	0	0	15111	72	3	5	536	5	SPP1	4	88902928	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08	23727330	88902928	102251348	23	66231											
ODZ3	55714	broad.mit.edu	37	chr4	183603102	183603102	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagtgctccggccacggaaCgtatcttcaagaaagtggct	10	8	11	12	3	2	1	1	0	1	1	3	2	3	2	3	3	2	3	3	3	4	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr4:183603102C>T	uc003ivd.1	+	10	2007	c.1970C>T	c.(1969-1971)ACG>ATG	p.T657M	ODZ3_uc003ive.1_Missense_Mutation_p.T63M	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	657	EGF-like 5.|Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GGCCACGGAACGTATCTTCAA	0.512													9	29					0	0	0.006214	0	0		T	183603102	T	T	183603102	3	4	117	1	0	0	0	0	1	0	0	0	10855	536	19	1	2008	1	ODZ3	4	183603102	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	94700174	183603102	7551174	24	66232											
PCDHGB1	56104	broad.mit.edu	37	chr5	140731511	140731511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccacgggtgctgtaccccGcgctggggcctgatggctcc	3	7	15	16	4	0	1	0	1	0	0	1	1	1	1	5	4	2	4	5	4	1	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr5:140731511G>A	uc003ljo.1	+	1	1684	c.1684G>A	c.(1684-1686)GCG>ACG	p.A562T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Missense_Mutation_p.A562T	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	562	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGTACCCCGCGCTGGGGCC	0.697													17	40					0	0	0.012319	0	0		A	140731511	A	A	140731511	3	1	117	1	0	0	0	0	1	0	0	0	11581	1087	38	1	1686	1	PCDHGB1	5	140731511	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08		140731511	40183749	25	66233											
PCDHGB2	56103	broad.mit.edu	37	chr5	140741192	140741192	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcgtagcgagcgacctgaAgccgcgggagattttatcct	9	9	12	11	5	0	2	0	1	0	1	2	5	1	2	3	1	3	1	3	1	3	3			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr5:140741192A>C	uc003ljs.1	+	1	1490	c.1490A>C	c.(1489-1491)AAG>ACG	p.K497T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Missense_Mutation_p.K497T|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	497	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCGACCTGAAGCCGCGGGAG	0.612													12	48					0	0	0.013537	0	0		C	140741192	C	C	140741192	3	2	117	1	0	0	0	0	1	0	0	0	11582	72	3	5	1492	5	PCDHGB2	5	140741192	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08	9681	140741192	40174068	26	66234											
EBF1	1879	broad.mit.edu	37	chr5	158250238	158250238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaagcctccgagccctccGcccatgcttggaattattat	8	11	8	14	2	1	0	1	0	0	0	3	2	3	1	5	1	3	1	5	1	4	3			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr5:158250238G>A	uc010jip.2	-	8	1026	c.724C>T	c.(724-726)CGG>TGG	p.R242W	EBF1_uc011ddw.1_Missense_Mutation_p.R109W|EBF1_uc011ddx.1_Missense_Mutation_p.R242W|EBF1_uc003lxl.3_Missense_Mutation_p.R219W	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	242					multicellular organismal development	nucleus	DNA binding|metal ion binding	p.R242Q(1)	HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CGAGCCCTCCGCCCATGCTTG	0.493			T	HMGA2	lipoma								12	24					0	0	0.010729	0	0		A	158250238	A	A	158250238	3	1	117	1	0	0	0	0	1	0	0	0	4886	1086	38	1	1087	1	EBF1	5	158250238	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08	17509046	158250238	22665022	27	66235											
DDX41	51428	broad.mit.edu	37	chr5	176942189	176942189	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccacagtccacactcacatGgtggggatgccctggatctg	8	9	11	13	0	2	0	1	0	1	0	4	2	4	2	3	4	1	0	3	4	0	0			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr5:176942189G>A	uc003mho.2	-	7	663	c.642C>T	c.(640-642)ACC>ACT	p.T214T	DDX41_uc003mhm.2_5'UTR|DDX41_uc003mhn.2_Silent_p.T83T|DDX41_uc003mhp.2_Silent_p.T83T|DDX41_uc003mhq.1_5'UTR	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	214	Helicase ATP-binding.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			ACACTCACATGGTGGGGATGC	0.542													15	64					0	0	0.003163	0	0		A	176942189	A	A	176942189	2	1	117	1	0	0	0	0	0	0	0	1	4364	1335	47	4		4	DDX41	5	176942189	Silent	SNP	G	TCGA-CD-8530-01A-11D-2340-08	18691951	176942189	3973071	28	66236											
COL23A1	91522	broad.mit.edu	37	chr5	177987741	177987741	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccggatcttcgctagtccGtccaacttctgagccggaaa	8	10	10	13	4	2	1	0	1	2	0	6	3	5	3	4	2	2	1	4	2	3	3			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr5:177987741G>A	uc003mje.2	-	2	661	c.303C>T	c.(301-303)GAC>GAT	p.D101D		NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	101	Extracellular (Potential).|Gly-rich.					collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		TCGCTAGTCCGTCCAACTTCT	0.493													4	9					0	0	0.009096	0	0		A	177987741	A	A	177987741	2	1	117	1	0	0	0	0	0	0	0	1	3685	1136	40	1		1	COL23A1	5	177987741	Silent	SNP	G	TCGA-CD-8530-01A-11D-2340-08	1045552	177987741	2927519	29	66237											
PRL	5617	broad.mit.edu	37	chr6	22294767	22294767	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagatgggcaagggggccacGctctggcacaggagcaggtt	9	5	17	10	1	1	1	0	0	1	1	1	2	1	2	1	6	1	5	1	6	1	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr6:22294767G>A	uc003ndp.2	-	2	594	c.75C>T	c.(73-75)AGC>AGT	p.S25S	PRL_uc003ndo.2_Silent_p.S26S|PRL_uc003ndq.2_Silent_p.S25S|PRL_uc003ndr.1_RNA	NM_000948	NP_000939	P01236	PRL_HUMAN	prolactin precursor	25					cell proliferation|cell surface receptor linked signaling pathway|female pregnancy|lactation|positive regulation of JAK-STAT cascade|regulation of multicellular organism growth	cytosol|extracellular region	hormone activity|prolactin receptor binding				0	Ovarian(93;0.163)					AGGGGGCCACGCTCTGGCACA	0.592													10	14					0	0	0.008291	0	0		A	22294767	A	A	22294767	2	1	117	1	0	0	0	0	0	0	0	1	12550	1078	38	1		1	PRL	6	22294767	Silent	SNP	G	TCGA-CD-8530-01A-11D-2340-08		22294767	148820300	30	66238											
MUC21	394263	broad.mit.edu	37	chr6	30955037	30955037	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggccagcacagccaccaActctgggtccagcacgacct	9	5	11	16	1	1	0	0	0	1	0	2	1	2	0	5	3	4	2	5	3	1	0			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr6:30955037A>T	uc003nsh.2	+	2	1336	c.1085A>T	c.(1084-1086)AAC>ATC	p.N362I	MUC21_uc003nsi.1_RNA	NM_001010909	NP_001010909	Q5SSG8	MUC21_HUMAN	mucin 21 precursor	362	23.|Ser-rich.|28 X 15 AA approximate tandem repeats.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(1)|skin(1)	2						ACAGCCACCAACTCTGGGTCC	0.632													13	188					0	0	0.013537	0	0		T	30955037	T	T	30955037	3	4	117	1	0	0	0	0	1	0	0	0	9995	43	2	5	1091	5	MUC21	6	30955037	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08	8660270	30955037	140160030	31	66239											
COL12A1	1303	broad.mit.edu	37	chr6	75797464	75797464	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggattctccttgtggacCtagtgtggagttaaaacaaa	11	13	10	7	0	2	0	0	0	2	0	3	3	2	3	2	3	1	1	2	3	4	4			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr6:75797464C>T	uc003phs.2	-	65	9177	c.9011_splice	c.e65-1	p.G3004_splice	COL12A1_uc003pht.2_Splice_Site_p.G1840_splice	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform						cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CCTTGTGGACCTAGTGTGGAG	0.507													7	30					0	0	0.001984	0	0		T	75797464	T	T	75797464	5	4	117	1	0	0	0	0	0	0	1	0	3672	695	24	4	189	4	COL12A1	6	75797464	Splice_Site	SNP	C	TCGA-CD-8530-01A-11D-2340-08	44842427	75797464	95317603	32	66240											
GJA10	84694	broad.mit.edu	37	chr6	90605670	90605670	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatggaactatcacaagagCtgttccattctggatgcttt	10	14	8	9	0	3	1	2	0	1	1	4	3	4	3	1	2	3	3	1	2	3	4			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr6:90605670C>G	uc011eaa.1	+	1	1483	c.1483C>G	c.(1483-1485)CTG>GTG	p.L495V		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	495	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		ATCACAAGAGCTGTTCCATTC	0.473													24	63					0	0	0.003954	0	0		G	90605670	G	G	90605670	3	3	117	1	0	0	0	0	1	0	0	0	6416	796	28	5	1485	5	GJA10	6	90605670	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	14808206	90605670	80509397	33	66241											
SGK1	6446	broad.mit.edu	37	chr6	134492172	134492172	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcactcacgaagtcatcctTggccccgagccgctttgtcc	7	10	8	16	3	3	0	3	0	0	0	5	2	5	0	5	1	1	1	5	1	1	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr6:134492172T>C	uc003qen.3	-	10	1116	c.1027A>G	c.(1027-1029)AAG>GAG	p.K343E	SGK1_uc003qeo.3_Missense_Mutation_p.K438E|SGK1_uc011ect.1_Missense_Mutation_p.K333E|SGK1_uc011ecu.1_Missense_Mutation_p.K299E|SGK1_uc011ecv.1_Missense_Mutation_p.K357E|SGK1_uc011ecw.1_Missense_Mutation_p.K371E	NM_005627	NP_005618	O00141	SGK1_HUMAN	serum/glucocorticoid regulated kinase 1 isoform	343	Protein kinase.				apoptosis|response to stress|sodium ion transport	endoplasmic reticulum|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(3)|stomach(1)|lung(1)|central_nervous_system(1)	6	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00317)|GBM - Glioblastoma multiforme(68;0.00847)		AAGTCATCCTTGGCCCCGAGC	0.532													13	37					0	0	0.013537	0	0		C	134492172	C	C	134492172	3	2	117	1	0	0	0	0	1	0	0	0	14232	1821	63	3	280	3	SGK1	6	134492172	Missense_Mutation	SNP	T	TCGA-CD-8530-01A-11D-2340-08	43886502	134492172	36622895	34	66242											
IGF2R	3482	broad.mit.edu	37	chr6	160482581	160482581	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	actggcctaagcacagtcagGaaaccttggacggctgttga	11	8	12	10	1	1	1	1	1	0	0	1	3	1	3	2	4	2	3	2	4	2	3			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr6:160482581G>C	uc003qta.2	+	24	3457	c.3309G>C	c.(3307-3309)AGG>AGC	p.R1103S		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1103	8.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GCACAGTCAGGAAACCTTGGA	0.507													19	74					0	0	0.007413	0	0		C	160482581	C	C	160482581	3	2	117	1	0	0	0	0	1	0	0	0	7592	1165	41	5	3403	5	IGF2R	6	160482581	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08	25990409	160482581	10632486	35	66243											
MAD1L1	8379	broad.mit.edu	37	chr7	2041726	2041726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctctttgtttctggcctcCcagctcctccagggcctgcg	2	13	10	16	1	2	0	0	0	2	0	5	0	5	0	5	2	3	3	5	2	0	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr7:2041726C>T	uc003slh.1	-	14	1656	c.1390G>A	c.(1390-1392)GGA>AGA	p.G464R	MAD1L1_uc003sle.1_Missense_Mutation_p.G193R|MAD1L1_uc003slf.1_Missense_Mutation_p.G464R|MAD1L1_uc003slg.1_Missense_Mutation_p.G464R|MAD1L1_uc010ksh.1_Missense_Mutation_p.G464R|MAD1L1_uc003sli.1_Missense_Mutation_p.G372R|MAD1L1_uc010ksi.1_Missense_Mutation_p.G417R|MAD1L1_uc010ksj.2_Missense_Mutation_p.G464R	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	464	Necessary for interaction with NEK2.|Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		TTCTGGCCTCCCAGCTCCTCC	0.627													8	155					0	0	0.004482	0	0		T	2041726	T	T	2041726	3	4	117	1	0	0	0	0	1	0	0	0	9165	632	22	4	790	4	MAD1L1	7	2041726	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08		2041726	157096937	36	66244											
FIGNL1	63979	broad.mit.edu	37	chr7	50514332	50514332	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacatttccaaacaatggTgtgacatggaattttgcagt	12	14	9	6	0	0	2	0	2	0	0	1	3	1	3	1	2	2	1	1	2	3	4			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr7:50514332T>C	uc003tpc.2	-	4	1031	c.654A>G	c.(652-654)ACA>ACG	p.T218T	FIGNL1_uc003tpb.2_Silent_p.T107T|FIGNL1_uc003tpd.2_Silent_p.T218T|FIGNL1_uc003tpe.2_Silent_p.T218T|FIGNL1_uc010kyy.2_Silent_p.T218T	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	218					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)				CAAACAATGGTGTGACATGGA	0.423													17	109					0	0	0.00499	0	0		C	50514332	C	C	50514332	2	2	117	1	0	0	0	0	0	0	0	1	5906	1683	59	3		3	FIGNL1	7	50514332	Silent	SNP	T	TCGA-CD-8530-01A-11D-2340-08	48472606	50514332	108624331	37	66245											
PCLO	27445	broad.mit.edu	37	chr7	82545485	82545485	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggttggtgtaggttgaacTtgaggtgtgaaggacattgt	8	13	18	2	0	0	3	0	3	0	0	0	4	0	4	0	6	1	3	0	6	3	5			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr7:82545485T>C	uc003uhx.2	-	7	12106	c.11817A>G	c.(11815-11817)CAA>CAG	p.Q3939Q	PCLO_uc003uhv.2_Silent_p.Q3939Q|PCLO_uc010lec.2_Silent_p.Q904Q	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3870	Gln-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TAGGTTGAACTTGAGGTGTGA	0.438													84	326					0	0	0.01441	0	0		C	82545485	C	C	82545485	2	2	117	1	0	0	0	0	0	0	0	1	11602	1606	56	3		3	PCLO	7	82545485	Silent	SNP	T	TCGA-CD-8530-01A-11D-2340-08	32031153	82545485	76593178	38	66246											
SRRT	51593	broad.mit.edu	37	chr7	100485890	100485890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatagctggtgctgtccGccctgcagtccccacaggag	6	9	12	14	1	1	0	1	0	0	0	3	1	3	1	4	2	3	3	4	2	1	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr7:100485890G>A	uc003uwy.2	+	20	2709	c.2441G>A	c.(2440-2442)CGC>CAC	p.R814H	SRRT_uc010lhl.1_Missense_Mutation_p.R813H|SRRT_uc003uxa.2_Missense_Mutation_p.R809H|SRRT_uc003uwz.2_Missense_Mutation_p.R810H|uc010lhm.1_5'Flank	NM_015908	NP_056992	Q9BXP5	SRRT_HUMAN	arsenate resistance protein 2 isoform a	814	Pro-rich.				cell proliferation|primary miRNA processing|response to arsenic-containing substance	cytoplasm|nucleoplasm	protein binding			ovary(2)	2						GGTGCTGTCCGCCCTGCAGTC	0.557													5	57					0	0	0.000602	0	0		A	100485890	A	A	100485890	3	1	117	1	0	0	0	0	1	0	0	0	15197	1087	38	1	2511	1	SRRT	7	100485890	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08	17940405	100485890	58652773	39	66247											
PRKRIP1	79706	broad.mit.edu	37	chr7	102065546	102065546	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagtgcccagtttcacCatggggcgatgacaatgttt	10	10	13	8	1	1	1	1	1	0	0	1	4	1	2	2	3	1	2	2	3	2	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr7:102065546C>A	uc003uzh.2	+	6	598	c.543C>A	c.(541-543)ACC>ACA	p.T181T	PRKRIP1_uc003uzf.2_Silent_p.T130T|PRKRIP1_uc003uzg.2_Silent_p.T130T|PRKRIP1_uc011kkq.1_Silent_p.T124T|PRKRIP1_uc011kkr.1_Missense_Mutation_p.H160N|PRKRIP1_uc003uzi.1_3'UTR	NM_024653	NP_078929	Q9H875	PKRI1_HUMAN	PRKR interacting protein 1 (IL11 inducible)	181						nucleolus				ovary(1)	1						CCAGTTTCACCATGGGGCGAT	0.607													6	13					0.00116845	0.0011948	0.001168	1	0		A	102065546	A	A	102065546	2	1	117	1	0	0	0	0	0	0	0	1	12547	581	21	5		5	PRKRIP1	7	102065546	Silent	SNP	C	TCGA-CD-8530-01A-11D-2340-08	1579656	102065546	57073117	40	66248											
LHFPL3	375612	broad.mit.edu	37	chr7	104377350	104377350	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagaggaactgaaggcagAaaacaaaggtaagattgctt	17	6	13	5	0	0	4	0	1	0	3	0	5	0	5	0	4	3	4	0	4	6	3			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr7:104377350A>G	uc003vce.2	+	2	798	c.674A>G	c.(673-675)GAA>GGA	p.E225G	LHFPL3_uc003vcf.2_Missense_Mutation_p.E225G	NM_199000	NP_945351	Q86UP9	LHPL3_HUMAN	lipoma HMGIC fusion partner-like 3	211						integral to membrane					0						CTGAAGGCAGAAAACAAAGGT	0.433													4	14					0	0	0.009096	0	0		G	104377350	G	G	104377350	3	3	117	1	0	0	0	0	1	0	0	0	8782	246	9	3	680	3	LHFPL3	7	104377350	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08	2311804	104377350	54761313	41	66249											
SVOPL	136306	broad.mit.edu	37	chr7	138314822	138314822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagatctgtaatgtggtccGtaaatatttagcatccaata	13	13	7	8	1	1	1	0	0	1	1	3	1	3	1	3	1	1	3	3	1	7	6	rs149009334	by1000genomes	TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr7:138314822G>A	uc011kqh.1	-	9	835	c.835C>T	c.(835-837)CGG>TGG	p.R279W	SVOPL_uc003vue.2_Missense_Mutation_p.R127W	NM_001139456	NP_001132928	Q8N434	SVOPL_HUMAN	SVOP-like isoform 1	279						integral to membrane	transmembrane transporter activity				0						AATGTGGTCCGTAAATATTTA	0.378													6	54					0	0	0.001168	0	0		A	138314822	A	A	138314822	3	1	117	1	0	0	0	0	1	0	0	0	15449	1144	40	1	671	1	SVOPL	7	138314822	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08	33937472	138314822	20823841	42	66250											
CHRNB3	1142	broad.mit.edu	37	chr8	42587391	42587391	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaccctgtccatcattgttaCcgtgtttgtcattaacgttc	7	16	7	11	2	2	0	2	0	0	0	4	1	3	0	3	0	2	3	3	0	2	5			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr8:42587391C>G	uc003xpi.1	+	5	1069	c.941C>G	c.(940-942)ACC>AGC	p.T314S		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	314	Helical; (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			ATCATTGTTACCGTGTTTGTC	0.443													58	132					0	0	0.01441	0	0		G	42587391	G	G	42587391	3	3	117	1	0	0	0	0	1	0	0	0	3395	507	18	5	959	5	CHRNB3	8	42587391	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08		42587391	103776631	43	66251											
KCNB2	9312	broad.mit.edu	37	chr8	73480086	73480086	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctccaggagagttaagatCaatgtggggggcctcaacca	11	8	13	9	0	2	2	2	0	0	2	3	3	3	2	3	4	2	2	3	4	3	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr8:73480086C>A	uc003xzb.2	+	2	705	c.117C>A	c.(115-117)ATC>ATA	p.I39I		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	39	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			GAGTTAAGATCAATGTGGGGG	0.572													11	117					0.000673444	0.000704526	0.008291	1	0		A	73480086	A	A	73480086	2	1	117	1	0	0	0	0	0	0	0	1	8029	816	29	5		5	KCNB2	8	73480086	Silent	SNP	C	TCGA-CD-8530-01A-11D-2340-08	30892695	73480086	72883936	44	66252											
RIMS2	9699	broad.mit.edu	37	chr8	104898096	104898096	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggctcagggaccaagttcTtatgcacaaaggaccacaaa	15	6	10	10	0	2	0	1	0	1	0	2	3	2	2	2	3	1	3	2	3	4	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr8:104898096T>C	uc003yls.2	+	2	844	c.603T>C	c.(601-603)TCT>TCC	p.S201S	RIMS2_uc003ylp.2_Silent_p.S423S|RIMS2_uc003ylw.2_Silent_p.S231S|RIMS2_uc003ylq.2_Silent_p.S231S|RIMS2_uc003ylr.2_Silent_p.S231S	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	454					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding	p.S231S(1)		ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GACCAAGTTCTTATGCACAAA	0.478										HNSCC(12;0.0054)			6	62					0	0	0.001168	0	0		C	104898096	C	C	104898096	2	2	117	1	0	0	0	0	0	0	0	1	13393	1596	56	3		3	RIMS2	8	104898096	Silent	SNP	T	TCGA-CD-8530-01A-11D-2340-08	31418010	104898096	41465926	45	66253											
SYK	6850	broad.mit.edu	37	chr9	93640013	93640013	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgagtcctggatgctggttAtggagatggcagaacttggt	8	11	15	7	1	0	2	0	0	0	2	1	5	1	3	2	5	2	3	2	5	2	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr9:93640013A>T	uc004aqz.2	+	10	1547	c.1342A>T	c.(1342-1344)ATG>TTG	p.M448L	SYK_uc004ara.2_Missense_Mutation_p.M425L|SYK_uc004arb.2_Missense_Mutation_p.M425L|SYK_uc004arc.2_Missense_Mutation_p.M448L|SYK_uc011ltr.1_RNA|SYK_uc011lts.1_RNA|SYK_uc011ltt.1_RNA	NM_003177	NP_003168	P43405	KSYK_HUMAN	spleen tyrosine kinase isoform 1	448	Protein kinase.				cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						GATGCTGGTTATGGAGATGGC	0.517			T	ETV6|ITK	MDS|peripheral T-cell lymphoma								10	47					0	0	0.008291	0	0		T	93640013	T	T	93640013	3	4	117	1	0	0	0	0	1	0	0	0	15463	449	16	5	1376	5	SYK	9	93640013	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08		93640013	47573418	46	66254											
PTCH1	5727	broad.mit.edu	37	chr9	98220421	98220421	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactgctcccagaagaggaaGgggtagccgttggggtaact	10	8	15	8	1	0	2	0	0	0	2	1	3	1	3	2	5	4	4	2	5	5	4			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr9:98220421G>A	uc004avk.3	-	18	3230	c.3042C>T	c.(3040-3042)CCC>CCT	p.P1014P	PTCH1_uc010mro.2_Silent_p.P863P|PTCH1_uc010mrp.2_Silent_p.P863P|PTCH1_uc010mrq.2_Silent_p.P863P|PTCH1_uc004avl.3_Silent_p.P863P|PTCH1_uc010mrr.2_Silent_p.P948P|PTCH1_uc004avm.3_Silent_p.P1013P	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	1014	Extracellular (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity	p.I963fs*2(1)		skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				AGAAGAGGAAGGGGTAGCCGT	0.567									Basal_Cell_Nevus_syndrome				5	54					0	0	0.00308	0	0		A	98220421	A	A	98220421	2	1	117	1	0	0	0	0	0	0	0	1	12752	987	35	4		4	PTCH1	9	98220421	Silent	SNP	G	TCGA-CD-8530-01A-11D-2340-08	4580408	98220421	42993010	47	66255											
SVEP1	79987	broad.mit.edu	37	chr9	113238531	113238531	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattatattctaggcaatatTttttggtcaggttctcctcc	9	18	6	8	0	3	0	1	0	2	0	5	0	4	0	2	3	0	2	2	3	6	9			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr9:113238531T>G	uc010mtz.2	-	14	2889	c.2552A>C	c.(2551-2553)AAA>ACA	p.K851T	SVEP1_uc010mua.1_Missense_Mutation_p.K851T|SVEP1_uc004beu.2_Missense_Mutation_p.K851T	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	851					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TAGGCAATATTTTTTGGTCAG	0.363													10	53					0	0	0.008291	0	0		G	113238531	G	G	113238531	3	3	117	1	0	0	0	0	1	0	0	0	15445	1841	64	5	8303	5	SVEP1	9	113238531	Missense_Mutation	SNP	T	TCGA-CD-8530-01A-11D-2340-08	15018110	113238531	27974900	48	66256											
ADD3	120	broad.mit.edu	37	chr10	111860580	111860580	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatgatggagcagaggaaaCgagttactcagatcctgcaa	15	7	11	8	1	1	3	1	1	0	2	2	6	2	5	1	2	4	3	1	2	3	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr10:111860580C>T	uc001kyt.3	+	3	483	c.169C>T	c.(169-171)CGA>TGA	p.R57*	ADD3_uc001kys.3_Nonsense_Mutation_p.R57*|ADD3_uc001kyu.2_Nonsense_Mutation_p.R57*|ADD3_uc001kyv.2_Nonsense_Mutation_p.R57*|ADD3_uc001kyw.2_Nonsense_Mutation_p.R57*	NM_016824	NP_058432	Q9UEY8	ADDG_HUMAN	adducin 3 (gamma) isoform a	57						cytoskeleton	actin binding|calmodulin binding|metal ion binding|structural constituent of cytoskeleton			ovary(2)|skin(2)|large_intestine(1)	5		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;4.15e-05)|all cancers(201;0.000587)|BRCA - Breast invasive adenocarcinoma(275;0.0742)		GCAGAGGAAACGAGTTACTCA	0.388													9	33					0	0	0.004482	0	0		T	111860580	T	T	111860580	4	4	117	1	0	0	0	0	0	1	0	0	306	528	19	1	171	1	ADD3	10	111860580	Nonsense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08		111860580	23674167	49	66257											
SMC3	9126	broad.mit.edu	37	chr10	112350788	112350788	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattcagatgaagtcagcacGaagattttaatggagtttaa	15	12	10	4	1	2	3	2	1	0	2	2	6	2	4	0	1	1	2	0	1	4	5			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr10:112350788G>A	uc001kze.2	+	17	1836	c.1710G>A	c.(1708-1710)ACG>ACA	p.T570T		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	570	Flexible hinge.				cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		AAGTCAGCACGAAGATTTTAA	0.363													12	50					0	0	0.001855	0	0		A	112350788	A	A	112350788	2	1	117	1	0	0	0	0	0	0	0	1	14809	1045	37	1		1	SMC3	10	112350788	Silent	SNP	G	TCGA-CD-8530-01A-11D-2340-08	490208	112350788	23183959	50	66258											
HBG2	3048	broad.mit.edu	37	chr11	5275627	5275627	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttatggcatctcccaaggaAgtcagcaccttcttgccatg	9	12	8	12	0	3	0	1	0	2	0	4	1	3	1	3	2	2	2	3	2	3	4			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr11:5275627A>C	uc001mai.1	-	2	647	c.210T>G	c.(208-210)ACT>ACG	p.T70T	HBG2_uc001mak.1_RNA|HBG2_uc001maj.1_Silent_p.T70T	NM_000559	NP_000550	P69892	HBG2_HUMAN	A-gamma globin	70					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTCCCAAGGAAGTCAGCACCT	0.532													14	150					0	0	0.00499	0	0		C	5275627	C	C	5275627	2	2	117	1	0	0	0	0	0	0	0	1	6999	59	3	5		5	HBG2	11	5275627	Silent	SNP	A	TCGA-CD-8530-01A-11D-2340-08		5275627	129730889	51	66259											
OR52E6	390078	broad.mit.edu	37	chr11	5862875	5862875	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatattgaaccagaagatgcCcagcattttgggaatggtgg	12	10	13	6	0	0	3	0	1	0	2	0	5	0	4	2	3	3	1	2	3	4	4			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr11:5862875C>G	uc010qzq.1	-	1	253	c.253G>C	c.(253-255)GGC>CGC	p.G85R	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAGAAGATGCCCAGCATTTTG	0.463													8	138					0	0	0.00308	0	0		G	5862875	G	G	5862875	3	3	117	1	0	0	0	0	1	0	0	0	11136	623	22	5	690	5	OR52E6	11	5862875	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	587248	5862875	129143641	52	66260											
OR2D3	120775	broad.mit.edu	37	chr11	6942565	6942565	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaaaccatttctttttaTgggtgtatgacacagataat	14	14	8	5	0	1	2	0	1	1	1	1	3	1	3	1	2	1	1	1	2	5	6			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr11:6942565T>C	uc010rav.1	+	1	333	c.333T>C	c.(331-333)TAT>TAC	p.Y111Y		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	111	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TTTCTTTTTATGGGTGTATGA	0.438													14	109					0	0	0.001855	0	0		C	6942565	C	C	6942565	2	2	117	1	0	0	0	0	0	0	0	1	11014	1471	51	3		3	OR2D3	11	6942565	Silent	SNP	T	TCGA-CD-8530-01A-11D-2340-08	1079690	6942565	128063951	53	66261											
OR4A15	81328	broad.mit.edu	37	chr11	55135904	55135904	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcctggattggaggctttcTtcactcattggttcaatttc	6	16	10	9	0	4	0	3	0	1	0	5	2	4	2	1	5	0	2	1	5	1	6			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr11:55135904T>G	uc010rif.1	+	1	545	c.545T>G	c.(544-546)CTT>CGT	p.L182R		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	182	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GGAGGCTTTCTTCACTCATTG	0.423													25	138					0	0	0.00333	0	0		G	55135904	G	G	55135904	3	3	117	1	0	0	0	0	1	0	0	0	11059	1609	56	5	547	5	OR4A15	11	55135904	Missense_Mutation	SNP	T	TCGA-CD-8530-01A-11D-2340-08	48193339	55135904	79870612	54	66262											
OR5D13	390142	broad.mit.edu	37	chr11	55541046	55541046	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtcactgtagtggggaacTtgggcatgataataatcatc	12	11	11	7	0	2	1	2	1	0	0	3	2	2	2	0	3	1	2	0	3	4	4	rs112091941	byFrequency	TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr11:55541046T>G	uc010ril.1	+	1	133	c.133T>G	c.(133-135)TTG>GTG	p.L45V		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				AGTGGGGAACTTGGGCATGAT	0.398													26	116					0	0	0.003954	0	0		G	55541046	G	G	55541046	3	3	117	1	0	0	0	0	1	0	0	0	11173	1606	56	5	135	5	OR5D13	11	55541046	Missense_Mutation	SNP	T	TCGA-CD-8530-01A-11D-2340-08	405142	55541046	79465470	55	66263											
OR5I1	10798	broad.mit.edu	37	chr11	55703785	55703785	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catacaatgtcagaaacatgAggaacaggacaatctgcagt	17	7	9	8	0	2	2	1	1	1	1	2	4	2	4	0	2	4	1	0	2	5	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr11:55703785A>G	uc010ris.1	-	1	92	c.92T>C	c.(91-93)CTC>CCC	p.L31P		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	31	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CAGAAACATGAGGAACAGGAC	0.393													14	44					0	0	0.00245	0	0		G	55703785	G	G	55703785	3	3	117	1	0	0	0	0	1	0	0	0	11183	304	11	3	855	3	OR5I1	11	55703785	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08	162739	55703785	79302731	56	66264											
B3GAT3	26229	broad.mit.edu	37	chr11	62384793	62384793	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctcagtgtctgggacagtCgtaccagctctgccttctgt	5	12	12	12	1	4	0	1	0	3	0	5	1	4	1	2	2	3	3	2	2	1	2	rs144327434		TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr11:62384793C>T	uc001ntw.2	-	3	313	c.284G>A	c.(283-285)CGA>CAA	p.R95Q	B3GAT3_uc009ynz.2_Missense_Mutation_p.R88Q|B3GAT3_uc001ntx.2_RNA|B3GAT3_uc010rlz.1_Missense_Mutation_p.R95Q	NM_012200	NP_036332	O94766	B3GA3_HUMAN	beta-1,3-glucuronyltransferase 3	95	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|manganese ion binding				0						CTGGGACAGTCGTACCAGCTC	0.637													3	17					0	0	0.004672	0	0		T	62384793	T	T	62384793	3	4	117	1	0	0	0	0	1	0	0	0	1256	884	31	1	735	1	B3GAT3	11	62384793	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	6681008	62384793	72621723	57	66265											
KRTAP5-10	387273	broad.mit.edu	37	chr11	71276865	71276865	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggggactgtggctcttgtGggggctccaaagggggctgt	5	9	20	7	0	1	0	0	0	1	0	2	1	2	1	1	7	0	3	1	7	1	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr11:71276865G>C	uc001oqt.1	+	1	257	c.232G>C	c.(232-234)GGG>CGG	p.G78R		NM_001012710	NP_001012728	Q6L8G5	KR510_HUMAN	keratin associated protein 5-10	78	7 X 4 AA repeats of C-C-X-P.					keratin filament				skin(1)	1						TGGCTCTTGTGGGGGCTCCAA	0.677													9	160					0	0	0.004482	0	0		C	71276865	C	C	71276865	3	2	117	1	0	0	0	0	1	0	0	0	8575	1348	47	5	234	5	KRTAP5-10	11	71276865	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08	8892072	71276865	63729651	58	66266											
CACNA1C	775	broad.mit.edu	37	chr12	2693707	2693707	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggccattgctgtggacAacctggctgatgctgagagc	7	11	13	10	0	1	2	0	2	1	1	1	4	1	3	2	3	4	3	2	3	1	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr12:2693707A>G	uc009zdu.1	+	16	2576	c.2263A>G	c.(2263-2265)AAC>GAC	p.N755D	CACNA1C_uc009zdv.1_Missense_Mutation_p.N752D|CACNA1C_uc001qkb.2_Missense_Mutation_p.N755D|CACNA1C_uc001qkc.2_Missense_Mutation_p.N755D|CACNA1C_uc001qke.2_Missense_Mutation_p.N755D|CACNA1C_uc001qkf.2_Missense_Mutation_p.N755D|CACNA1C_uc001qjz.2_Missense_Mutation_p.N755D|CACNA1C_uc001qkd.2_Missense_Mutation_p.N755D|CACNA1C_uc001qkg.2_Missense_Mutation_p.N755D|CACNA1C_uc009zdw.1_Missense_Mutation_p.N755D|CACNA1C_uc001qkh.2_Missense_Mutation_p.N755D|CACNA1C_uc001qkl.2_Missense_Mutation_p.N755D|CACNA1C_uc001qkn.2_Missense_Mutation_p.N755D|CACNA1C_uc001qko.2_Missense_Mutation_p.N755D|CACNA1C_uc001qkp.2_Missense_Mutation_p.N755D|CACNA1C_uc001qkr.2_Missense_Mutation_p.N755D|CACNA1C_uc001qku.2_Missense_Mutation_p.N755D|CACNA1C_uc001qkq.2_Missense_Mutation_p.N755D|CACNA1C_uc001qks.2_Missense_Mutation_p.N755D|CACNA1C_uc001qkt.2_Missense_Mutation_p.N755D|CACNA1C_uc001qka.1_Missense_Mutation_p.N290D|CACNA1C_uc001qki.1_Missense_Mutation_p.N491D|CACNA1C_uc001qkj.1_Missense_Mutation_p.N491D|CACNA1C_uc001qkk.1_Missense_Mutation_p.N491D|CACNA1C_uc001qkm.1_Missense_Mutation_p.N491D|CACNA1C_uc001qkw.2_Missense_Mutation_p.N44D	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	755	II.|Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	TGCTGTGGACAACCTGGCTGA	0.433													9	31					0	0	0.006214	0	0		G	2693707	G	G	2693707	3	3	117	1	0	0	0	0	1	0	0	0	2543	130	5	3	2433	3	CACNA1C	12	2693707	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08		2693707	131158188	59	66267											
PTPRB	5787	broad.mit.edu	37	chr12	70963671	70963671	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttcaccgtcaggctatCtgttgctccattgggagaaa	9	11	10	11	1	3	1	2	0	1	1	4	2	4	1	3	2	1	4	3	2	2	4			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr12:70963671C>A	uc001swb.3	-	12	2794	c.2764G>T	c.(2764-2766)GAT>TAT	p.D922Y	PTPRB_uc010sto.1_Missense_Mutation_p.D922Y|PTPRB_uc010stp.1_Missense_Mutation_p.D832Y|PTPRB_uc001swc.3_Missense_Mutation_p.D1140Y|PTPRB_uc001swa.3_Missense_Mutation_p.D1052Y|PTPRB_uc001swd.3_Missense_Mutation_p.D1139Y|PTPRB_uc009zrr.1_Missense_Mutation_p.D1019Y	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	922	Fibronectin type-III 11.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			GTCAGGCTATCTGTTGCTCCA	0.423													19	20					1.67942e-08	1.85691e-08	0.006122	1	0		A	70963671	A	A	70963671	3	1	117	1	0	0	0	0	1	0	0	0	12821	913	32	5	3313	5	PTPRB	12	70963671	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	68269964	70963671	62888224	60	66268											
ZFC3H1	196441	broad.mit.edu	37	chr12	72025967	72025967	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagtaaaataattggattCtaaaaaagatcttcttcgct	15	16	5	5	1	3	1	0	0	3	1	4	2	3	2	0	1	0	2	0	1	7	9			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr12:72025967C>A	uc001swo.2	-	15	3504	c.3145G>T	c.(3145-3147)GAA>TAA	p.E1049*		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	1049					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						TAATTGGATTCTAAAAAAGAT	0.318													9	113					1.12685e-05	1.188e-05	0.004482	1	0		A	72025967	A	A	72025967	4	1	117	1	0	0	0	0	0	1	0	0	17658	922	32	5	2908	5	ZFC3H1	12	72025967	Nonsense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	1062296	72025967	61825928	61	66269											
MLXIP	22877	broad.mit.edu	37	chr12	122618125	122618125	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctgctgtctcccagcccCgccccaccgcccatctcccc	3	6	5	27	2	2	0	0	0	2	0	4	0	2	0	11	0	2	1	11	0	0	0			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr12:122618125C>T	uc001ubq.2	+	9	1323	c.1323C>T	c.(1321-1323)CCC>CCT	p.P441P	MLXIP_uc001ubr.2_Silent_p.P192P|MLXIP_uc001ubs.1_Silent_p.P48P|MLXIP_uc001ubt.2_Silent_p.P48P	NM_014938	NP_055753	Q9HAP2	MLXIP_HUMAN	MLX interacting protein	441	Transactivation domain.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)		CTCCCAGCCCCGCCCCACCGC	0.642													12	3					0	0	0.010729	0	0		T	122618125	T	T	122618125	2	4	117	1	0	0	0	0	0	0	0	1	9654	639	23	1		1	MLXIP	12	122618125	Silent	SNP	C	TCGA-CD-8530-01A-11D-2340-08	50592158	122618125	11233770	62	66270											
NUPL1	9818	broad.mit.edu	37	chr13	25887119	25887119	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgctctacctattacctctAcctcagctagcggtctgact	7	14	6	14	1	4	1	1	1	3	0	4	1	4	1	3	1	6	2	3	1	5	6			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr13:25887119A>G	uc001uqi.2	+	4	631	c.385A>G	c.(385-387)ACC>GCC	p.T129A	NUPL1_uc001uqg.1_Missense_Mutation_p.T129A|NUPL1_uc001uqj.2_Missense_Mutation_p.T117A	NM_014089	NP_054808	Q9BVL2	NUPL1_HUMAN	nucleoporin like 1 isoform a	129	14 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore					0		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.0092)|Epithelial(112;0.0477)|OV - Ovarian serous cystadenocarcinoma(117;0.165)|GBM - Glioblastoma multiforme(144;0.244)		TATTACCTCTACCTCAGCTAG	0.448													4	47					0	0	0.000602	0	0		G	25887119	G	G	25887119	3	3	117	1	0	0	0	0	1	0	0	0	10793	391	14	3	399	3	NUPL1	13	25887119	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08		25887119	89282759	63	66271											
TDRD3	81550	broad.mit.edu	37	chr13	61103242	61103242	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tagtgggcccaaacgaagatCtgggccaattaagccagaaa	15	6	11	9	1	1	2	0	0	1	2	1	3	1	2	3	2	2	0	3	2	6	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr13:61103242C>G	uc001via.2	+	11	2392	c.1604C>G	c.(1603-1605)TCT>TGT	p.S535C	TDRD3_uc010aef.2_Missense_Mutation_p.S360C|TDRD3_uc001vhz.3_Missense_Mutation_p.S535C|TDRD3_uc010aeg.2_Missense_Mutation_p.S628C|TDRD3_uc001vib.3_Missense_Mutation_p.S534C	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	535					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		AAACGAAGATCTGGGCCAATT	0.398													15	39					0	0	0.00245	0	0		G	61103242	G	G	61103242	3	3	117	1	0	0	0	0	1	0	0	0	15757	913	32	5	1925	5	TDRD3	13	61103242	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	35216123	61103242	54066636	64	66272											
NALCN	259232	broad.mit.edu	37	chr13	101755585	101755585	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcctcatctggggcaccaGtttgaatatgcgcagaggtc	8	12	11	10	1	2	2	1	1	1	1	4	2	3	2	2	3	1	3	2	3	2	3			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr13:101755585G>C	uc001vox.1	-	26	3184	c.2995C>G	c.(2995-2997)CTG>GTG	p.L999V		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	999	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TGGGGCACCAGTTTGAATATG	0.438													6	84					0	0	0.001168	0	0		C	101755585	C	C	101755585	3	2	117	1	0	0	0	0	1	0	0	0	10166	1020	36	5	2297	5	NALCN	13	101755585	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08	40652343	101755585	13414293	65	66273											
AKAP6	9472	broad.mit.edu	37	chr14	33292089	33292089	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcggcatctctaacagaActtagcagcagtgacgagct	12	8	10	11	2	2	2	1	1	1	1	3	3	2	2	0	1	6	4	0	1	3	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr14:33292089A>C	uc001wrq.2	+	13	5240	c.5070A>C	c.(5068-5070)GAA>GAC	p.E1690D		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1690	Ser-rich.				protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CTCTAACAGAACTTAGCAGCA	0.453													9	71					0	0	0.004482	0	0		C	33292089	C	C	33292089	3	2	117	1	0	0	0	0	1	0	0	0	455	40	2	5	5116	5	AKAP6	14	33292089	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08		33292089	74057451	66	66274											
SIX1	6495	broad.mit.edu	37	chr14	61113012	61113012	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctccccacttaggaccccaAgtccaccagactggaggtga	10	6	9	16	0	0	2	0	1	0	1	2	4	2	4	7	3	0	0	7	3	2	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr14:61113012A>C	uc001xfb.3	-	2	1092	c.844T>G	c.(844-846)TTG>GTG	p.L282V		NM_005982	NP_005973	Q15475	SIX1_HUMAN	SIX homeobox 1	282					branching involved in ureteric bud morphogenesis|embryonic cranial skeleton morphogenesis|epithelial cell differentiation|inner ear morphogenesis|mesonephric tubule formation|metanephric mesenchyme development|myoblast migration|negative regulation of neuron apoptosis|organ induction|pattern specification process|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|protein localization to nucleus|regulation of branch elongation involved in ureteric bud branching|regulation of neuron differentiation|skeletal muscle tissue development|thymus development|thyroid gland development	nucleolus|transcription factor complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.0201)		TAGGACCCCAAGTCCACCAGA	0.597													5	37					0	0	0.000602	0	0		C	61113012	C	C	61113012	3	2	117	1	0	0	0	0	1	0	0	0	14371	69	3	5	14	5	SIX1	14	61113012	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08	27820923	61113012	46236528	67	66275											
KIAA1409	57578	broad.mit.edu	37	chr14	94044282	94044282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgtttcggagtcctttgcGtagtccgtttcgtagccctt	3	16	10	12	5	0	0	0	0	0	0	5	1	3	1	4	1	2	4	4	1	2	6			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr14:94044282G>A	uc001ybv.1	+	15	1858	c.1775G>A	c.(1774-1776)CGT>CAT	p.R592H	KIAA1409_uc001ybs.1_Missense_Mutation_p.R592H	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	769						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		AGTCCTTTGCGTAGTCCGTTT	0.438													35	124					0	0	0.004289	0	0		A	94044282	A	A	94044282	3	1	117	1	0	0	0	0	1	0	0	0	8246	1145	40	1	1833	1	KIAA1409	14	94044282	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08	32931270	94044282	13305258	68	66276											
KIAA1409	57578	broad.mit.edu	37	chr14	94069764	94069764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaccctgacctccaaaattCgttgagtatcttctttcatc	10	14	5	12	1	3	3	1	2	2	1	6	3	4	3	3	0	0	2	3	0	3	5			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr14:94069764C>T	uc001ybv.1	+	23	3306	c.3223C>T	c.(3223-3225)CCT>TCT	p.P1075S	KIAA1409_uc001ybs.1_Nonsense_Mutation_p.R1075*	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CTCCAAAATTCGTTGAGTATC	0.473													4	23					0	0	0.000602	0	0		T	94069764	T	T	94069764	3	4	117	1	0	0	0	0	1	0	0	0	8246	898	31	1	3313	1	KIAA1409	14	94069764	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	25482	94069764	13279776	69	66277											
CES2	8824	broad.mit.edu	37	chr16	66974398	66974398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaccaagtggctgcactaCgctgggtccagcagaatatc	10	8	12	11	1	0	1	0	0	0	1	2	2	1	2	2	3	3	4	2	3	4	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr16:66974398C>T	uc002eqr.2	+	5	1808	c.808C>T	c.(808-810)CGC>TGC	p.R270C	CES2_uc002eqq.2_Missense_Mutation_p.R270C|CES2_uc002eqs.2_Missense_Mutation_p.R113C	NM_003869	NP_003860	O00748	EST2_HUMAN	carboxylesterase 2 isoform 1	206			R -> H.		catabolic process	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0663)|Epithelial(162;0.166)		GGCTGCACTACGCTGGGTCCA	0.592													5	55					0	0	0.000602	0	0		T	66974398	T	T	66974398	3	4	117	1	0	0	0	0	1	0	0	0	3273	536	19	1	826	1	CES2	16	66974398	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08		66974398	23380355	70	66278											
DPEP3	64180	broad.mit.edu	37	chr16	68011862	68011862	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaccaaagcttgtcaatccGctgacgttggtgtacatgtg	9	12	10	10	2	2	1	2	1	0	0	3	1	3	1	2	1	2	4	2	1	3	3			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr16:68011862G>A	uc002evc.3	-	5	904	c.810C>T	c.(808-810)AGC>AGT	p.S270S	DPEP3_uc010cex.2_Silent_p.S270S	NM_022357	NP_071752	Q9H4B8	DPEP3_HUMAN	dipeptidase 3 isoform a	245					meiosis	anchored to membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			breast(3)	3		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0117)|Epithelial(162;0.0481)|all cancers(182;0.236)		TTGTCAATCCGCTGACGTTGG	0.537													6	27					0	0	0.001168	0	0		A	68011862	A	A	68011862	2	1	117	1	0	0	0	0	0	0	0	1	4721	1078	38	1		1	DPEP3	16	68011862	Silent	SNP	G	TCGA-CD-8530-01A-11D-2340-08	1037464	68011862	22342891	71	66279											
GLG1	2734	broad.mit.edu	37	chr16	74487138	74487138	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccaatcaggaacaatataCagatgctcccactgatcaca	15	7	7	12	0	2	2	2	1	0	1	3	3	3	3	2	2	3	1	2	2	5	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr16:74487138C>A	uc002fcy.3	-	26	3517	c.3467G>T	c.(3466-3468)TGT>TTT	p.C1156F	GLG1_uc002fcx.2_Missense_Mutation_p.C1156F|GLG1_uc002fcw.3_Missense_Mutation_p.C1145F|GLG1_uc002fcz.3_Missense_Mutation_p.C573F	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	1156	Helical; (Potential).					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						GAACAATATACAGATGCTCCC	0.498													24	39					2.14196e-07	2.34924e-07	0.007291	1	0		A	74487138	A	A	74487138	3	1	117	1	0	0	0	0	1	0	0	0	6451	478	17	5	156	5	GLG1	16	74487138	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	6475276	74487138	15867615	72	66280											
TP53	7157	broad.mit.edu	37	chr17	7579355	7579355	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagaatgcaagaagcccAgacggaaaccgtagctgccc	13	4	10	14	2	0	3	0	0	0	3	1	4	1	4	4	1	5	3	4	1	5	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr17:7579355A>T	uc002gim.2	-	4	526	c.332T>A	c.(331-333)CTG>CAG	p.L111Q	TP53_uc002gig.1_Missense_Mutation_p.L111Q|TP53_uc002gih.2_Missense_Mutation_p.L111Q|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Missense_Mutation_p.L111Q|TP53_uc010cni.1_Missense_Mutation_p.L111Q|TP53_uc002gij.2_Missense_Mutation_p.L111Q|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Missense_Mutation_p.L72Q|TP53_uc010cnk.1_Missense_Mutation_p.L126Q	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	111	|Interaction with HIPK1 (By similarity).		L -> Q (in sporadic cancers; somatic mutation).|L -> P (in sporadic cancers; somatic mutation).|L -> M (in a sporadic cancer; somatic mutation).|L -> R (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.L111P(6)|p.L111Q(4)|p.L111R(4)|p.G59fs*23(3)|p.V73fs*9(1)|p.G105_T125del21(1)|p.G112_V122delGFLHSGTAKSV(1)|p.Y107fs*44(1)|p.L111L(1)|p.L111M(1)|p.L111fs*10(1)|p.Y103_G112>C(1)|p.P13fs*18(1)|p.S33fs*23(1)|p.Y103_L111>L(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CAAGAAGCCCAGACGGAAACC	0.617		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			24	39					0	0	0.00278	0	0		T	7579355	T	T	7579355	3	4	117	1	0	0	0	0	1	0	0	0	16407	188	7	5	970	5	TP53	17	7579355	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08		7579355	73615855	73	66281											
DNAH2	146754	broad.mit.edu	37	chr17	7699901	7699901	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctggacatgtacaacacCgtggtacagcgcttcctgcc	9	8	9	15	2	0	0	0	0	0	0	1	1	1	1	4	2	5	3	4	2	3	3			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr17:7699901C>T	uc002giu.1	+	49	7808	c.7794C>T	c.(7792-7794)ACC>ACT	p.T2598T		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2598	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TGTACAACACCGTGGTACAGC	0.552													6	35					0	0	0.001168	0	0		T	7699901	T	T	7699901	2	4	117	1	0	0	0	0	0	0	0	1	4608	639	23	1		1	DNAH2	17	7699901	Silent	SNP	C	TCGA-CD-8530-01A-11D-2340-08	120546	7699901	73495309	74	66282											
KRT16	3868	broad.mit.edu	37	chr17	39767724	39767724	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgacgtcggcctccacaGtctgccgcagggccagttca	7	8	11	15	3	2	1	1	1	1	0	4	1	3	1	4	2	1	2	4	2	0	2	rs147423442	byFrequency	TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr17:39767724G>C	uc002hxg.3	-	3	783	c.644C>G	c.(643-645)ACT>AGT	p.T215S	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	215	Coil 1B.|Rod.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				GGCCTCCACAGTCTGCCGCAG	0.637													4	51					0	0	0.000602	0	0		C	39767724	C	C	39767724	3	2	117	1	0	0	0	0	1	0	0	0	8469	1029	36	5	801	5	KRT16	17	39767724	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08	32067823	39767724	41427486	75	66283											
COMP	1311	broad.mit.edu	37	chr19	18893969	18893969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccaagaccacgttgctgtCggccaccagctcagggccct	7	7	11	16	2	1	1	1	0	0	1	3	1	2	1	5	2	2	3	5	2	1	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr19:18893969C>T	uc002nke.2	-	18	2158	c.2122G>A	c.(2122-2124)GAC>AAC	p.D708N	COMP_uc002nkd.2_Missense_Mutation_p.D675N|COMP_uc010xqj.1_Missense_Mutation_p.D655N	NM_000095	NP_000086	P49747	COMP_HUMAN	cartilage oligomeric matrix protein precursor	708	Mediates cell survival and induction of the IAP family of survival proteins.|TSP C-terminal.				anti-apoptosis|apoptosis|cell adhesion|limb development	extracellular space|proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent|heparan sulfate proteoglycan binding|heparin binding				0						ACGTTGCTGTCGGCCACCAGC	0.627													8	24					0	0	0.004482	0	0		T	18893969	T	T	18893969	3	4	117	1	0	0	0	0	1	0	0	0	3727	884	31	1	159	1	COMP	19	18893969	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08		18893969	40235014	76	66284											
ZFP14	57677	broad.mit.edu	37	chr19	36832099	36832099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaataagatgtgcacgctgtCtaaaggcctgcccacattcc	11	9	9	12	1	1	1	0	0	1	1	2	2	2	1	3	1	2	2	3	1	4	3			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr19:36832099C>T	uc002odx.1	-	4	722	c.629G>A	c.(628-630)AGA>AAA	p.R210K	ZFP14_uc010xtd.1_Missense_Mutation_p.R211K|ZFP14_uc010eex.1_Missense_Mutation_p.R210K	NM_020917	NP_065968	Q9HCL3	ZFP14_HUMAN	zinc finger protein 14-like	210	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.162)					TGCACGCTGTCTAAAGGCCTG	0.443													27	105					0	0	0.004656	0	0		T	36832099	T	T	36832099	3	4	117	1	0	0	0	0	1	0	0	0	17664	913	32	4	976	4	ZFP14	19	36832099	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	17938130	36832099	22296884	77	66285											
ZFP82	284406	broad.mit.edu	37	chr19	36884060	36884060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccagcattccttacattcGtaaggtttttcaccagtatg	9	16	6	10	1	1	0	1	0	0	0	4	0	3	0	3	1	2	4	3	1	3	8	rs113215509	byFrequency	TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr19:36884060G>A	uc002ody.1	-	5	1417	c.1182C>T	c.(1180-1182)TAC>TAT	p.Y394Y		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	394	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						CCTTACATTCGTAAGGTTTTT	0.398													28	95					0	0	0.00632	0	0		A	36884060	A	A	36884060	2	1	117	1	0	0	0	0	0	0	0	1	17678	1140	40	1		1	ZFP82	19	36884060	Silent	SNP	G	TCGA-CD-8530-01A-11D-2340-08	51961	36884060	22244923	78	66286											
PSG8	440533	broad.mit.edu	37	chr19	43268240	43268240	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccatatataattatttgAccgtctactacatatgatgt	12	15	6	8	1	1	2	0	2	1	0	1	2	1	2	2	1	2	0	2	1	7	8			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr19:43268240A>G	uc002ouo.2	-	2	356	c.258T>C	c.(256-258)GGT>GGC	p.G86G	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc002oui.2_Intron|PSG8_uc002ouh.2_Silent_p.G86G|PSG8_uc010ein.2_Intron|PSG8_uc002ouj.3_5'UTR|PSG8_uc002ouk.3_Intron|PSG8_uc002oul.3_Silent_p.G86G|PSG8_uc002oum.3_Silent_p.G86G|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Silent_p.G86G	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	86	Ig-like V-type.					extracellular region					0		Prostate(69;0.00899)				TAATTATTTGACCGTCTACTA	0.433													91	223					0	0	0.01441	0	0		G	43268240	G	G	43268240	2	3	117	1	0	0	0	0	0	0	0	1	12683	262	10	3		3	PSG8	19	43268240	Silent	SNP	A	TCGA-CD-8530-01A-11D-2340-08	6384180	43268240	15860743	79	66287											
PSG11	5680	broad.mit.edu	37	chr19	43522985	43522985	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgagttccatatttcacattCatagggtcctgcagtatact	10	15	7	9	0	2	1	2	1	0	0	4	1	4	1	2	1	2	3	2	1	4	7			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr19:43522985C>G	uc002ovm.1	-	3	753	c.646G>C	c.(646-648)GAA>CAA	p.E216Q	PSG11_uc002ouw.2_Missense_Mutation_p.E222Q|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Missense_Mutation_p.E222Q|PSG11_uc002ovn.1_Missense_Mutation_p.E222Q|PSG11_uc002ovo.1_Missense_Mutation_p.E94Q|PSG11_uc002ovp.1_Missense_Mutation_p.E94Q	NM_002785	NP_002776	Q9UQ72	PSG11_HUMAN	pregnancy specific beta-1-glycoprotein 11	216	Ig-like C2-type 1.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				ATTTCACATTCATAGGGTCCT	0.507													73	196					0	0	0.01441	0	0		G	43522985	G	G	43522985	3	3	117	1	0	0	0	0	1	0	0	0	12676	835	29	5	373	5	PSG11	19	43522985	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	254745	43522985	15605998	80	66288											
PLA2G4C	8605	broad.mit.edu	37	chr19	48598787	48598787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccttcttgaatttgcttcCgaagtgggttatggaaacaa	10	14	9	8	1	1	1	0	1	1	0	3	3	3	2	2	2	2	2	2	2	5	5			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr19:48598787C>T	uc002phx.2	-	7	1041	c.643G>A	c.(643-645)GGA>AGA	p.G215R	PLA2G4C_uc002phw.2_Missense_Mutation_p.G150R|PLA2G4C_uc010elr.2_Missense_Mutation_p.G215R|PLA2G4C_uc010xzd.1_Missense_Mutation_p.G225R	NM_003706	NP_003697	Q9UP65	PA24C_HUMAN	phospholipase A2, group IVC isoform 1 precursor	215	PLA2c.				arachidonic acid metabolic process|glycerophospholipid catabolic process|inflammatory response|intracellular signal transduction|parturition	cytosol|membrane	calcium-independent phospholipase A2 activity|phospholipid binding			ovary(1)|skin(1)	2		all_cancers(25;2.84e-05)|all_lung(116;4.62e-05)|Lung NSC(112;7.61e-05)|all_epithelial(76;0.000192)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;8.09e-05)|all cancers(93;0.000517)|Epithelial(262;0.0135)|GBM - Glioblastoma multiforme(486;0.0717)		AATTTGCTTCCGAAGTGGGTT	0.542													30	107					0	0	0.008361	0	0		T	48598787	T	T	48598787	3	4	117	1	0	0	0	0	1	0	0	0	12022	661	23	1	1030	1	PLA2G4C	19	48598787	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	5075802	48598787	10530196	81	66289											
ZNF776	284309	broad.mit.edu	37	chr19	58265398	58265398	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggagaatgtgataaatcTtttagtcataagcacagtct	13	14	9	5	0	3	2	1	1	2	1	3	3	3	2	0	1	1	1	0	1	5	4			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr19:58265398T>G	uc002qpx.2	+	3	1123	c.900T>G	c.(898-900)TCT>TCG	p.S300S	ZNF587_uc002qqb.2_Intron|ZNF776_uc002qqa.2_Silent_p.S300S	NM_173632	NP_775903	Q68DI1	ZN776_HUMAN	zinc finger protein 776	300	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0256)		GTGATAAATCTTTTAGTCATA	0.418													26	85					0	0	0.003954	0	0		G	58265398	G	G	58265398	2	3	117	1	0	0	0	0	0	0	0	1	18174	1596	56	5		5	ZNF776	19	58265398	Silent	SNP	T	TCGA-CD-8530-01A-11D-2340-08	9666611	58265398	863585	82	66290											
ZNF446	55663	broad.mit.edu	37	chr19	58992030	58992030	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcagtgactgtggccgCgccttcgactggaagtcgca	6	10	13	12	4	1	1	0	1	1	0	3	3	1	2	2	2	1	2	2	2	1	2	rs35861454		TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr19:58992030C>T	uc002qsz.2	+	7	1407	c.1290C>T	c.(1288-1290)CGC>CGT	p.R430R	ZNF446_uc002qta.2_3'UTR|ZNF446_uc010eur.2_3'UTR|SLC27A5_uc002qtb.2_RNA	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	430	C2H2-type 3.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		ACTGTGGCCGCGCCTTCGACT	0.652													4	46					0	0	0.009096	0	0		T	58992030	T	T	58992030	2	4	117	1	0	0	0	0	0	0	0	1	17944	755	27	1		1	ZNF446	19	58992030	Silent	SNP	C	TCGA-CD-8530-01A-11D-2340-08	726632	58992030	136953	83	66291											
CST8	10047	broad.mit.edu	37	chr20	23473638	23473638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattgatgtagaaattgcccGcagcgattgcagaaagcctt	12	11	10	8	2	0	3	0	1	0	2	0	4	0	3	2	0	4	3	2	0	4	6	rs149763863	by1000genomes	TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr20:23473638G>A	uc002wth.1	+	3	632	c.275G>A	c.(274-276)CGC>CAC	p.R92H		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	92						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					GAAATTGCCCGCAGCGATTGC	0.383													20	155					0	0	0.010504	0	0		A	23473638	A	A	23473638	3	1	117	1	0	0	0	0	1	0	0	0	3981	1087	38	1	281	1	CST8	20	23473638	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08		23473638	39551882	84	66292											
CST1	1469	broad.mit.edu	37	chr20	23729745	23729745	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccacctctacgtcgaagaAgtaattcacccccccaacgg	11	6	7	17	3	2	1	1	0	1	1	3	2	2	1	5	1	2	1	5	1	5	3			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr20:23729745A>C	uc002wtp.2	-	2	321	c.250T>G	c.(250-252)TTC>GTC	p.F84V		NM_001898	NP_001889	P01037	CYTN_HUMAN	cystatin SN precursor	84						extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1	Lung NSC(19;0.0676)|all_lung(19;0.148)					ACGTCGAAGAAGTAATTCACC	0.552													21	186					0	0	0.012319	0	0		C	23729745	C	C	23729745	3	2	117	1	0	0	0	0	1	0	0	0	3973	72	3	5	183	5	CST1	20	23729745	Missense_Mutation	SNP	A	TCGA-CD-8530-01A-11D-2340-08	256107	23729745	39295775	85	66293											
NPEPL1	79716	broad.mit.edu	37	chr20	57268953	57268953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtgcggacctgcctgcCgcccggagcgcatcgctgca	4	6	15	16	5	0	0	0	0	0	0	1	2	0	2	4	3	5	4	4	3	0	0			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr20:57268953C>T	uc010zzs.1	+	2	406	c.311C>T	c.(310-312)CCG>CTG	p.P104L	NPEPL1_uc010zzr.1_Missense_Mutation_p.P56L|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Missense_Mutation_p.P76L|NPEPL1_uc002xzp.2_5'UTR	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	104					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			ACCTGCCTGCCGCCCGGAGCG	0.697													5	16					0	0	0.000602	0	0		T	57268953	T	T	57268953	3	4	117	1	0	0	0	0	1	0	0	0	10593	652	23	1	163	1	NPEPL1	20	57268953	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	33539208	57268953	5756567	86	66294											
CRYZL1	9946	broad.mit.edu	37	chr21	34971477	34971477	+	Missense_Mutation	SNP	C	T	T																															tccagcatctaggacaatatCtactcccaggccacctgttt																										TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr21:34971477C>T	uc011adw.1	-	9	835	c.655G>A	c.(655-657)GAT>AAT	p.D219N	DONSON_uc002ysn.1_Intron|CRYZL1_uc002ysr.1_Missense_Mutation_p.D243N|CRYZL1_uc002yss.1_RNA|CRYZL1_uc002yst.1_RNA|CRYZL1_uc002ysq.2_5'Flank	NM_145858	NP_665857	O95825	QORL1_HUMAN	crystallin, zeta-like 1	219					quinone cofactor metabolic process	cytosol	NADP binding|NADPH:quinone reductase activity|zinc ion binding				0						AGGACAATATCTACTCCCAGG	0.393													6	41					0	0	0.001984	0	0		T	34971477	T	T	34971477	3	4	117	1	0	0	0	0	1	0	0	0	3926	913	32	4	414	4	CRYZL1	21	34971477	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08		34971477	13158418	87	66295	123	2									
CRYZL1	9946	broad.mit.edu	37	chr21	34971482	34971482	+	Missense_Mutation	SNP	C	A	A																															catctaggacaatatctactCccaggccacctgtttcttcc																										TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr21:34971482C>A	uc011adw.1	-	9	830	c.650G>T	c.(649-651)GGA>GTA	p.G217V	DONSON_uc002ysn.1_Intron|CRYZL1_uc002ysr.1_Missense_Mutation_p.G241V|CRYZL1_uc002yss.1_RNA|CRYZL1_uc002yst.1_RNA|CRYZL1_uc002ysq.2_5'Flank	NM_145858	NP_665857	O95825	QORL1_HUMAN	crystallin, zeta-like 1	217					quinone cofactor metabolic process	cytosol	NADP binding|NADPH:quinone reductase activity|zinc ion binding				0						AATATCTACTCCCAGGCCACC	0.383													5	41					0.00116845	0.0011948	0.001168	1	0		A	34971482	A	A	34971482	3	1	117	1	0	0	0	0	1	0	0	0	3926	855	30	5	419	5	CRYZL1	21	34971482	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	5	34971482	13158413	88	66296	123	2									
CRYZL1	9946	broad.mit.edu	37	chr21	34971513	34971513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtttcttccaaacagctttCagcaacatgaactttcccat	11	14	4	12	0	2	1	1	1	1	0	4	1	4	1	2	0	5	3	2	0	3	4			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr21:34971513C>T	uc011adw.1	-	9	799	c.619G>A	c.(619-621)GAA>AAA	p.E207K	DONSON_uc002ysn.1_Intron|CRYZL1_uc002ysr.1_Missense_Mutation_p.E231K|CRYZL1_uc002yss.1_RNA|CRYZL1_uc002yst.1_RNA|CRYZL1_uc002ysq.2_5'Flank	NM_145858	NP_665857	O95825	QORL1_HUMAN	crystallin, zeta-like 1	207					quinone cofactor metabolic process	cytosol	NADP binding|NADPH:quinone reductase activity|zinc ion binding				0						AAACAGCTTTCAGCAACATGA	0.403													7	43					0	0	0.001984	0	0		T	34971513	T	T	34971513	3	4	117	1	0	0	0	0	1	0	0	0	3926	835	29	4	450	4	CRYZL1	21	34971513	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	31	34971513	13158382	89	66297											
UMODL1	89766	broad.mit.edu	37	chr21	43546460	43546460	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgctttgtgctcagaacatGacgaacaccgtggtgaggac	10	8	12	11	3	1	3	1	2	0	1	1	5	1	4	2	2	3	2	2	2	2	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr21:43546460G>A	uc002zaf.1	+	18	3153	c.3153G>A	c.(3151-3153)ATG>ATA	p.M1051I	UMODL1_uc002zad.1_Missense_Mutation_p.M979I|UMODL1_uc002zae.1_Missense_Mutation_p.M1107I|UMODL1_uc002zag.1_Missense_Mutation_p.M1179I|UMODL1_uc002zal.1_Missense_Mutation_p.M1I|UMODL1_uc010gpa.1_5'Flank	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	1051	Extracellular (Potential).|ZP.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						CTCAGAACATGACGAACACCG	0.652													12	26					0	0	0.013537	0	0		A	43546460	A	A	43546460	3	1	117	1	0	0	0	0	1	0	0	0	17006	1290	45	4	3603	4	UMODL1	21	43546460	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08	8574947	43546460	4583435	90	66298			2	27		3	3	67	G		2.193446e-08
UMODL1	89766	broad.mit.edu	37	chr21	43546475	43546475	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacatgacgaacaccgtggtGaggaccacgctgaggaacga	14	4	13	10	4	0	3	0	3	0	0	0	7	0	5	2	3	3	1	2	3	3	0			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr21:43546475G>A	uc002zaf.1	+	18	3168	c.3168G>A	c.(3166-3168)GTG>GTA	p.V1056V	UMODL1_uc002zad.1_Silent_p.V984V|UMODL1_uc002zae.1_Silent_p.V1112V|UMODL1_uc002zag.1_Silent_p.V1184V|UMODL1_uc002zal.1_Silent_p.V6V|UMODL1_uc010gpa.1_5'Flank	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	1056	Extracellular (Potential).|ZP.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						ACACCGTGGTGAGGACCACGC	0.627													12	27					0	0	0.010729	0	0		A	43546475	A	A	43546475	2	1	117	1	0	0	0	0	0	0	0	1	17006	1277	45	4		4	UMODL1	21	43546475	Silent	SNP	G	TCGA-CD-8530-01A-11D-2340-08	15	43546475	4583420	91	66299			2	27		3	3	67	G		2.193446e-08
UMODL1	89766	broad.mit.edu	37	chr21	43546526	43546526	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagggcatcatccaccacctGaagatcctgagccccatcta	11	7	8	15	0	2	3	1	2	1	1	4	4	4	3	6	1	1	1	6	1	2	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr21:43546526G>A	uc002zaf.1	+	18	3219	c.3219G>A	c.(3217-3219)CTG>CTA	p.L1073L	UMODL1_uc002zad.1_Silent_p.L1001L|UMODL1_uc002zae.1_Silent_p.L1129L|UMODL1_uc002zag.1_Silent_p.L1201L|UMODL1_uc002zal.1_Silent_p.L23L|UMODL1_uc010gpa.1_5'Flank	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	1073	Extracellular (Potential).|ZP.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						TCCACCACCTGAAGATCCTGA	0.602													10	28					0	0	0.006214	0	0		A	43546526	A	A	43546526	2	1	117	1	0	0	0	0	0	0	0	1	17006	1277	45	4		4	UMODL1	21	43546526	Silent	SNP	G	TCGA-CD-8530-01A-11D-2340-08	51	43546526	4583369	92	66300			2	27		3	3	67	G		2.193446e-08
APOL6	80830	broad.mit.edu	37	chr22	36055314	36055314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgaccaaaaatgctcgcGtgctgggaggtgtgatgtcc	9	9	14	9	3	0	2	0	2	0	0	2	4	1	3	2	2	2	2	2	2	2	0	rs149179370		TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr22:36055314G>A	uc003aoe.2	+	3	997	c.703G>A	c.(703-705)GTG>ATG	p.V235M	APOL6_uc003aod.2_RNA	NM_030641	NP_085144	Q9BWW8	APOL6_HUMAN	apolipoprotein L6	235					lipoprotein metabolic process	cytoplasm|extracellular region	lipid binding|lipid transporter activity				0						AAATGCTCGCGTGCTGGGAGG	0.562													12	60					0	0	0.010729	0	0		A	36055314	A	A	36055314	3	1	117	1	0	0	0	0	1	0	0	0	810	1145	40	1	709	1	APOL6	22	36055314	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08		36055314	15249252	93	66301											
CERK	64781	broad.mit.edu	37	chr22	47103812	47103812	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggttctggtcgaccccggCgctcctctgcgtcctcccaa	3	10	11	17	4	2	0	0	0	2	0	6	1	5	0	5	3	1	2	5	3	1	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chr22:47103812C>A	uc003bia.2	-	6	750	c.643G>T	c.(643-645)GCC>TCC	p.A215S	CERK_uc010hae.2_Missense_Mutation_p.A17S	NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	215	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TCGACCCCGGCGCTCCTCTGC	0.632													4	48					2.56e-06	2.76317e-06	0.009096	1	0		A	47103812	A	A	47103812	3	1	117	1	0	0	0	0	1	0	0	0	3270	768	27	5	1002	5	CERK	22	47103812	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	11048498	47103812	4200754	94	66302											
KIAA2022	340533	broad.mit.edu	37	chrX	73961323	73961323	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgggccaggaagtcatcAgtgatatcatcatcgccatc	12	9	9	11	1	4	1	4	1	0	0	6	2	4	2	2	2	0	0	2	2	3	1			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chrX:73961323A>C	uc004eby.2	-	3	3686	c.3069T>G	c.(3067-3069)ACT>ACG	p.T1023T		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1023					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GGAAGTCATCAGTGATATCAT	0.458													21	30					0	0	0.014323	0	0		C	73961323	C	C	73961323	2	2	117	1	0	0	0	0	0	0	0	1	8285	175	7	5		5	KIAA2022	23	73961323	Silent	SNP	A	TCGA-CD-8530-01A-11D-2340-08		73961323	81309237	95	66303											
UPRT	139596	broad.mit.edu	37	chrX	74494178	74494178	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagtcccgagcagctgcGacctggcgatctgatcctgg	7	7	12	15	3	1	1	0	1	1	0	3	4	3	1	4	2	3	2	4	2	1	0			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chrX:74494178G>T	uc004ecb.1	+	1	218	c.89G>T	c.(88-90)CGA>CTA	p.R30L	UPRT_uc010nlu.1_Missense_Mutation_p.R30L|UPRT_uc004ecc.1_RNA|UPRT_uc004ecd.1_Missense_Mutation_p.R30L|UPRT_uc004ece.1_5'Flank	NM_145052	NP_659489	Q96BW1	UPP_HUMAN	uracil phosphoribosyltransferase (FUR1) homolog	30					nucleoside metabolic process	cytoplasm|nucleus					0						GAGCAGCTGCGACCTGGCGAT	0.627													4	10					0.00909568	0.00916306	0.009096	1	0		T	74494178	T	T	74494178	3	4	117	1	0	0	0	0	1	0	0	0	17040	1058	37	5	91	5	UPRT	23	74494178	Missense_Mutation	SNP	G	TCGA-CD-8530-01A-11D-2340-08	532855	74494178	80776382	96	66304											
ARMCX1	51309	broad.mit.edu	37	chrX	100809059	100809059	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctttaataaagaatgggaTagagagattcttcttaatat	15	15	7	4	0	3	3	0	0	3	3	3	5	3	4	0	1	0	0	0	1	7	8			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chrX:100809059T>G	uc004ehv.2	+	4	1517	c.1146T>G	c.(1144-1146)GAT>GAG	p.D382E	ARMCX1_uc004ehw.2_Missense_Mutation_p.D382E	NM_016608	NP_057692	Q9P291	ARMX1_HUMAN	armadillo repeat containing, X-linked 1	382	ARM 3.					integral to membrane	binding			ovary(3)|pancreas(1)	4						AAGAATGGGATAGAGAGATTC	0.338													10	26					0	0	0.006214	0	0		G	100809059	G	G	100809059	3	3	117	1	0	0	0	0	1	0	0	0	960	1403	49	5	1148	5	ARMCX1	23	100809059	Missense_Mutation	SNP	T	TCGA-CD-8530-01A-11D-2340-08	26314881	100809059	54461501	97	66305											
ARMCX3	51566	broad.mit.edu	37	chrX	100880290	100880290	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacgtcgggctgtccagaaAcgggcttcccccaattcaga	9	7	11	14	3	1	2	1	0	0	2	4	2	3	2	3	2	1	3	3	2	2	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chrX:100880290A>G	uc004ehz.1	+	5	854	c.321A>G	c.(319-321)AAA>AAG	p.K107K	ARMCX3_uc004eia.1_Silent_p.K107K|ARMCX3_uc004eib.1_Silent_p.K107K|ARMCX3_uc004eic.1_Silent_p.K107K	NM_016607	NP_057691	Q9UH62	ARMX3_HUMAN	armadillo repeat containing, X-linked 3	107						integral to membrane	binding			ovary(1)|lung(1)	2						CTGTCCAGAAACGGGCTTCCC	0.433													12	51					0	0	0.010729	0	0		G	100880290	G	G	100880290	2	3	117	1	0	0	0	0	0	0	0	1	962	40	2	3		3	ARMCX3	23	100880290	Silent	SNP	A	TCGA-CD-8530-01A-11D-2340-08	71231	100880290	54390270	98	66306											
PNMA3	29944	broad.mit.edu	37	chrX	152226073	152226073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggtggtcagtgggctcCgggccagcaatgcttccata	7	9	13	12	1	1	0	1	0	0	0	4	0	4	0	4	4	2	3	4	4	2	2			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chrX:152226073C>T	uc004fhc.2	+	2	997	c.661C>T	c.(661-663)CGG>TGG	p.R221W	PNMA5_uc004fha.3_5'Flank|PNMA3_uc004fhd.2_5'Flank	NM_013364	NP_037496	Q9UL41	PNMA3_HUMAN	paraneoplastic cancer-testis-brain antigen	221					apoptosis	nucleolus	nucleic acid binding|zinc ion binding			skin(2)|large_intestine(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					cagtgggctccgggccagcaa	0													33	34					0	0	0.009535	0	0		T	152226073	T	T	152226073	3	4	117	1	0	0	0	0	1	0	0	0	12174	643	23	1	663	1	PNMA3	23	152226073	Missense_Mutation	SNP	C	TCGA-CD-8530-01A-11D-2340-08	51345783	152226073	3044487	99	66307											
H2AFB1	474382	broad.mit.edu	37	chrX	154113540	154113540	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtcccggagctggcgggCaacgaggcccagaacagcgg	10	2	17	12	4	0	1	0	0	0	1	1	3	1	2	2	6	4	2	2	6	3	0			TCGA-CD-8530-01A-11D-2340-08	TCGA-CD-8530-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8c14adb-46f6-4c64-b47d-49e42e87fb4f	112c8f9d-0430-48be-90ed-8f427b4ec20b	g.chrX:154113540C>T	uc004fmu.2	+	1	224	c.216C>T	c.(214-216)GGC>GGT	p.G72G	F8_uc004fmt.2_Intron|F8_uc004fms.2_Intron|F8A1_uc004fmv.2_5'Flank	NM_080720	NP_542451	P0C5Y9	H2AB1_HUMAN	H2A histone family, member B3	72					nucleosome assembly	nucleosome|nucleus	DNA binding				0	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					AGCTGGCGGGCAACGAGGCCC	0.627													11	21					0	0	0.001855	0	0		T	154113540	T	T	154113540	2	4	117	1	0	0	0	0	0	0	0	1	6940	697	25	2		2	H2AFB1	23	154113540	Silent	SNP	C	TCGA-CD-8530-01A-11D-2340-08	1887467	154113540	1157020	100	66308											
UBE4B	10277	broad.mit.edu	37	chr1	10239484	10239484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccccgcagaccctctgatGgacaccctcatgacagaccc	9	6	8	18	1	2	4	1	2	1	2	3	5	3	5	5	1	0	1	5	1	0	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:10239484G>A	uc001aqs.3	+	27	4424	c.3711G>A	c.(3709-3711)ATG>ATA	p.M1237I	UBE4B_uc001aqr.3_Missense_Mutation_p.M1108I|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Missense_Mutation_p.M692I|UBE4B_uc001aqu.2_Missense_Mutation_p.M118I	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	1237	U-box.				apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		ACCCTCTGATGGACACCCTCA	0.552													31	49					0	0	0.007291	0	0		A	10239484	A	A	10239484	3	1	118	1	0	0	0	0	1	0	0	0	16909	1348	47	4	3817	4	UBE4B	1	10239484	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08		10239484	239011137	1	66309											
VPS13D	55187	broad.mit.edu	37	chr1	12337490	12337490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagagatctaaacaggagtGttttctcaacctgaagatgg	13	11	11	6	0	2	4	1	2	2	2	3	6	2	5	1	2	2	1	1	2	4	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:12337490G>A	uc001atv.2	+	19	3986	c.3845G>A	c.(3844-3846)TGT>TAT	p.C1282Y	VPS13D_uc001atw.2_Missense_Mutation_p.C1282Y|VPS13D_uc001atx.2_Missense_Mutation_p.C470Y	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	1282					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AAACAGGAGTGTTTTCTCAAC	0.388													76	91					0	0	0.01441	0	0		A	12337490	A	A	12337490	3	1	118	1	0	0	0	0	1	0	0	0	17218	1377	48	4	3915	4	VPS13D	1	12337490	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	2098006	12337490	236913131	2	66310											
SPEN	23013	broad.mit.edu	37	chr1	16254749	16254749	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagactactatgaatcaCgatactacgatgatcctcgg	14	9	9	9	3	1	3	1	2	0	1	3	6	2	3	1	2	3	0	1	2	6	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:16254749C>T	uc001axk.1	+	11	2218	c.2014C>T	c.(2014-2016)CGA>TGA	p.R672*	SPEN_uc010obp.1_Nonsense_Mutation_p.R631*	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	672	Arg-rich.|Tyr-rich.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CTATGAATCACGATACTACGA	0.438													51	46					0	0	0.01441	0	0		T	16254749	T	T	16254749	4	4	118	1	0	0	0	0	0	1	0	0	15063	528	19	1	2056	1	SPEN	1	16254749	Nonsense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	3917259	16254749	232995872	3	66311											
UBR4	23352	broad.mit.edu	37	chr1	19448467	19448467	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctgccagttgatggttcGctgggcggcaatctctgcac	5	13	12	11	2	2	1	0	1	2	0	4	1	2	1	1	3	2	5	1	3	1	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:19448467G>A	uc001bbi.2	-	67	9860	c.9856C>T	c.(9856-9858)CGA>TGA	p.R3286*	UBR4_uc001bbk.1_Nonsense_Mutation_p.R933*	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3286					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TTGATGGTTCGCTGGGCGGCA	0.418													19	28					0	0	0.010504	0	0		A	19448467	A	A	19448467	4	1	118	1	0	0	0	0	0	1	0	0	16930	1095	38	1	5855	1	UBR4	1	19448467	Nonsense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	3193718	19448467	229802154	4	66312											
UBR4	23352	broad.mit.edu	37	chr1	19499975	19499975	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgatccggagccgagaagaCcatcgcagagtgtgcaagat	12	6	13	10	3	0	5	0	1	0	4	2	7	1	6	3	1	2	2	3	1	2	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:19499975C>T	uc001bbi.2	-	23	3127	c.3123G>A	c.(3121-3123)TGG>TGA	p.W1041*	UBR4_uc001bbm.1_Nonsense_Mutation_p.W252*	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	1041					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GCCGAGAAGACCATCGCAGAG	0.453													11	23					0	0	0.010729	0	0		T	19499975	T	T	19499975	4	4	118	1	0	0	0	0	0	1	0	0	16930	508	18	4	12764	4	UBR4	1	19499975	Nonsense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	51508	19499975	229750646	5	66313											
KIAA0754	643314	broad.mit.edu	37	chr1	39879387	39879387	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcccagctcctgcagtGcccaccccagaggaatccgc	7	6	9	19	1	0	1	0	0	0	1	3	2	3	2	7	1	3	2	7	1	1	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:39879387G>A	uc009vvt.1	+	1	4212	c.3450G>A	c.(3448-3450)GTG>GTA	p.V1150V	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc010oiu.1_Intron	NM_015038	NP_055853	O94854	K0754_HUMAN	hypothetical protein LOC643314	1014	11.|Ala-rich.										0	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CTCCTGCAGTGCCCACCCCAG	0.697													13	14					0	0	0.016723	0	0		A	39879387	A	A	39879387	2	1	118	1	0	0	0	0	0	0	0	1	8208	1306	46	2		2	KIAA0754	1	39879387	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	20379412	39879387	209371234	6	66314											
BSND	7809	broad.mit.edu	37	chr1	55464928	55464928	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctgctggccctcggtacGttcctcatgagccatgatcg	5	12	10	14	3	1	2	1	2	0	0	5	2	3	2	4	2	3	3	4	2	1	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:55464928G>A	uc001cye.2	+	1	312	c.69G>A	c.(67-69)ACG>ACA	p.T23T		NM_057176	NP_476517	Q8WZ55	BSND_HUMAN	barttin	23	Helical; (Potential).					basolateral plasma membrane|cytoplasm|integral to plasma membrane|protein complex				ovary(1)|skin(1)	2						CCCTCGGTACGTTCCTCATGA	0.617													28	36					0	0	0.00632	0	0		A	55464928	A	A	55464928	2	1	118	1	0	0	0	0	0	0	0	1	1534	1132	40	1		1	BSND	1	55464928	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	15585541	55464928	193785693	7	66315											
SGIP1	84251	broad.mit.edu	37	chr1	67145427	67145427	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaggatcccccttaacaaTtggaccaggtacgcttttgt	11	11	8	11	1	0	0	0	0	0	0	1	2	1	2	3	3	3	2	3	3	4	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:67145427T>C	uc001dcr.2	+	14	1023	c.806T>C	c.(805-807)ATT>ACT	p.I269T	SGIP1_uc010opd.1_Missense_Mutation_p.I36T|SGIP1_uc001dcs.2_Missense_Mutation_p.I36T|SGIP1_uc001dct.2_Missense_Mutation_p.I36T|uc010ope.1_5'Flank|SGIP1_uc009wat.2_Missense_Mutation_p.I36T	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	269	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						CCCTTAACAATTGGACCAGGT	0.473													24	34					0	0	0.005443	0	0		C	67145427	C	C	67145427	3	2	118	1	0	0	0	0	1	0	0	0	14231	1493	52	3	860	3	SGIP1	1	67145427	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	11680499	67145427	182105194	8	66316											
GBP6	163351	broad.mit.edu	37	chr1	89848368	89848368	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgttcctggagggcacaAgctctacatggaaacaaagg	12	8	11	10	0	2	0	0	0	2	0	3	2	3	2	1	4	3	3	1	4	4	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:89848368A>C	uc001dnf.2	+	8	1572	c.1298A>C	c.(1297-1299)AAG>ACG	p.K433T	GBP6_uc010ost.1_Missense_Mutation_p.K303T	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	433							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		GGAGGGCACAAGCTCTACATG	0.443													31	38					0	0	0.008361	0	0		C	89848368	C	C	89848368	3	2	118	1	0	0	0	0	1	0	0	0	6293	72	3	5	1324	5	GBP6	1	89848368	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	22702941	89848368	159402253	9	66317											
HFM1	164045	broad.mit.edu	37	chr1	91817190	91817190	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatgataactgcagtagctGtagtgtcaaactggggagaa	13	10	12	6	0	2	2	2	1	0	1	2	3	2	2	0	2	4	4	0	2	5	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:91817190G>C	uc001doa.3	-	17	2088	c.1988C>G	c.(1987-1989)ACA>AGA	p.T663R	HFM1_uc009wdb.2_Intron|HFM1_uc010osu.1_Missense_Mutation_p.T342R|HFM1_uc010osv.1_Missense_Mutation_p.T347R	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	663	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		TGCAGTAGCTGTAGTGTCAAA	0.368													28	34					0	0	0.015359	0	0		C	91817190	C	C	91817190	3	2	118	1	0	0	0	0	1	0	0	0	7099	1377	48	5	2411	5	HFM1	1	91817190	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	1968822	91817190	157433431	10	66318											
COL11A1	1301	broad.mit.edu	37	chr1	103427470	103427470	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctcctttcagtccaggTgcaccctgggaaaagtgaaa	10	9	9	13	0	1	1	1	1	0	0	4	2	4	2	5	2	1	1	5	2	3	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:103427470T>C	uc001dul.2	-	41	3438	c.3120A>G	c.(3118-3120)GCA>GCG	p.A1040A	COL11A1_uc001duk.2_Silent_p.A236A|COL11A1_uc001dum.2_Silent_p.A1052A|COL11A1_uc001dun.2_Silent_p.A1001A|COL11A1_uc009weh.2_Silent_p.A924A	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1040	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TCAGTCCAGGTGCACCCTGGG	0.398													3	6					0	0	0.004672	0	0		C	103427470	C	C	103427470	2	2	118	1	0	0	0	0	0	0	0	1	3670	1683	59	3		3	COL11A1	1	103427470	Silent	SNP	T	TCGA-CD-8531-01A-11D-2340-08	11610280	103427470	145823151	11	66319											
SV2A	9900	broad.mit.edu	37	chr1	149883495	149883495	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcagccagacctccccagagGaaggctcccaccatcatgcc	10	5	8	18	0	2	2	2	0	0	2	4	3	4	3	7	2	2	1	7	2	1	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:149883495G>T	uc001etg.2	-	3	1151	c.660C>A	c.(658-660)TTC>TTA	p.F220L	SV2A_uc001eth.2_Missense_Mutation_p.F220L	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	220	Helical; (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	CTCCCCAGAGGAAGGCTCCCA	0.582													11	18					3.27435e-08	3.38797e-08	0.020292	1	0		T	149883495	T	T	149883495	3	4	118	1	0	0	0	0	1	0	0	0	15442	1165	41	5	1612	5	SV2A	1	149883495	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	46456025	149883495	99367126	12	66320											
LCE1B	353132	broad.mit.edu	37	chr1	152785212	152785212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagctctggctgctgcaGccagccctccgggggctcca	5	6	13	17	1	1	1	0	0	1	1	3	1	3	1	5	3	5	5	5	3	0	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:152785212G>A	uc001faq.2	+	1	766	c.290G>A	c.(289-291)AGC>AAC	p.S97N		NM_178349	NP_848126	Q5T7P3	LCE1B_HUMAN	late cornified envelope 1B	97	Gly-rich.				keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGCTGCTGCAGCCAGCCCTCC	0.647													34	25					0	0	0.010818	0	0		A	152785212	A	A	152785212	3	1	118	1	0	0	0	0	1	0	0	0	8676	971	34	2	292	2	LCE1B	1	152785212	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	2901717	152785212	96465409	13	66321											
TDRD10	126668	broad.mit.edu	37	chr1	154514512	154514512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttcccaggtgttggagaagGcttctggtgaaggatttggc	7	12	15	7	0	1	2	0	1	1	1	2	4	2	3	1	6	0	2	1	6	2	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:154514512G>A	uc009wow.2	+	7	1220	c.382G>A	c.(382-384)GCT>ACT	p.A128T	TDRD10_uc001ffd.2_Missense_Mutation_p.A128T|TDRD10_uc001ffe.2_Missense_Mutation_p.A49T	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	128							nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			GTTGGAGAAGGCTTCTGGTGA	0.498													13	14					0	0	0.020292	0	0		A	154514512	A	A	154514512	3	1	118	1	0	0	0	0	1	0	0	0	15756	1203	42	2	404	2	TDRD10	1	154514512	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	1729300	154514512	94736109	14	66322											
LRRN2	10446	broad.mit.edu	37	chr1	204588977	204588977	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtccacagtggtagcctcGcggtaggacgagcggggcgt	7	6	17	11	5	0	0	0	0	0	0	2	2	1	1	2	5	2	2	2	5	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:204588977G>A	uc001hbe.1	-	3	532	c.144C>T	c.(142-144)CGC>CGT	p.R48R	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Silent_p.R48R|LRRN2_uc009xbf.1_Silent_p.R48R|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	48	Extracellular (Potential).|LRRNT.				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			TGGTAGCCTCGCGGTAGGACG	0.657													17	16					0	0	0.004007	0	0		A	204588977	A	A	204588977	2	1	118	1	0	0	0	0	0	0	0	1	9053	1074	38	1		1	LRRN2	1	204588977	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	50074465	204588977	44661644	15	66323											
PTPN14	5784	broad.mit.edu	37	chr1	214576291	214576291	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacagcctcttccagggcCaaatcctataagaatagaaa	17	7	7	10	0	1	3	0	0	1	3	3	3	3	3	4	1	2	0	4	1	7	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:214576291C>T	uc001hkk.1	-	6	787	c.516G>A	c.(514-516)TTG>TTA	p.L172L	PTPN14_uc010pty.1_Silent_p.L73L	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	172	FERM.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		CTTCCAGGGCCAAATCCTATA	0.502													32	45					0	0	0.008361	0	0		T	214576291	T	T	214576291	2	4	118	1	0	0	0	0	0	0	0	1	12806	593	21	4		4	PTPN14	1	214576291	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	9987314	214576291	34674330	16	66324											
LBR	3930	broad.mit.edu	37	chr1	225599126	225599126	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattcacggccaatgaagaaAtcatagacagcatttcctga	16	9	7	9	1	2	4	2	2	0	2	3	4	3	4	2	1	1	1	2	1	5	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:225599126A>G	uc001hoy.2	-	9	1244	c.1101T>C	c.(1099-1101)GAT>GAC	p.D367D	LBR_uc001hoz.2_Silent_p.D367D|LBR_uc001hpa.1_Silent_p.D367D	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	367					cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		CAATGAAGAAATCATAGACAG	0.448													28	32					0	0	0.00632	0	0		G	225599126	G	G	225599126	2	3	118	1	0	0	0	0	0	0	0	1	8668	98	4	3		3	LBR	1	225599126	Silent	SNP	A	TCGA-CD-8531-01A-11D-2340-08	11022835	225599126	23651495	17	66325											
OBSCN	84033	broad.mit.edu	37	chr1	228437876	228437876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcagcaggcatgccaggCggacaccggggagtatagct	9	5	17	10	2	0	0	0	0	0	0	0	2	0	2	2	6	4	5	2	6	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:228437876C>T	uc009xez.1	+	14	4288	c.4244C>T	c.(4243-4245)GCG>GTG	p.A1415V	OBSCN_uc001hsn.2_Missense_Mutation_p.A1415V	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1415	Ig-like 14.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCATGCCAGGCGGACACCGGG	0.647													41	43					0	0	0.005524	0	0		T	228437876	T	T	228437876	3	4	118	1	0	0	0	0	1	0	0	0	10831	768	27	1	4294	1	OBSCN	1	228437876	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	2838750	228437876	20812745	18	66326											
C1orf101	257044	broad.mit.edu	37	chr1	244662322	244662322	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttatcactgtgtgggcaTatgatccagaaagtgcagat	12	11	11	7	0	1	3	1	1	0	2	2	3	2	3	1	1	2	3	1	1	3	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr1:244662322T>C	uc001iam.2	+	7	429	c.370T>C	c.(370-372)TAT>CAT	p.Y124H	C1orf101_uc001iak.1_Intron|C1orf101_uc001ial.2_Missense_Mutation_p.Y124H|C1orf101_uc010pym.1_Intron|C1orf101_uc010pyn.1_Intron	NM_001130957	NP_001124429	Q5SY80	CA101_HUMAN	hypothetical protein LOC257044 isoform 1	124	Extracellular (Potential).					integral to membrane				ovary(1)|breast(1)	2	all_cancers(71;2.99e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)		all cancers(7;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.001)|GBM - Glioblastoma multiforme(7;0.0154)			TGTGTGGGCATATGATCCAGA	0.343													10	19					0	0	0.010729	0	0		C	244662322	C	C	244662322	3	2	118	1	0	0	0	0	1	0	0	0	1979	1406	49	3	396	3	C1orf101	1	244662322	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	16224446	244662322	4588299	19	66327											
C2orf39	92749	broad.mit.edu	37	chr2	26678055	26678055	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacagttctctggagcagcAgaacacagagctgcaggcgc	13	5	12	11	1	1	2	0	0	1	2	2	3	1	3	0	2	6	5	0	2	2	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:26678055A>T	uc002rhg.2	+	16	2194	c.2120A>T	c.(2119-2121)CAG>CTG	p.Q707L		NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	707	Potential.										0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGGAGCAGCAGAACACAGAG	0.597													39	55					0	0	0.00623	0	0		T	26678055	T	T	26678055	3	4	118	1	0	0	0	0	1	0	0	0	2167	188	7	5	2182	5	C2orf39	2	26678055	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08		26678055	216521318	20	66328											
NRBP1	29959	broad.mit.edu	37	chr2	27656863	27656863	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccttgctttcaggaaaaggTtcgtgctgtgtttgataatc	8	15	10	8	1	1	1	1	1	0	0	3	2	1	2	1	2	2	4	1	2	3	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:27656863T>G	uc002rko.2	+	5	1173	c.341T>G	c.(340-342)GTT>GGT	p.V114G	NRBP1_uc002rkq.2_Missense_Mutation_p.V114G|NRBP1_uc002rkp.2_Missense_Mutation_p.V114G|NRBP1_uc002rkr.2_5'Flank	NM_013392	NP_037524	Q9UHY1	NRBP_HUMAN	nuclear receptor binding protein	114	Protein kinase.				ER to Golgi vesicle-mediated transport|gene expression|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cell cortex|endomembrane system|lamellipodium|membrane|nucleoplasm	ATP binding|protein homodimerization activity|protein kinase activity			ovary(2)|lung(1)	3	Acute lymphoblastic leukemia(172;0.155)					CAGGAAAAGGTTCGTGCTGTG	0.403													88	147					0	0	0.01441	0	0		G	27656863	G	G	27656863	3	3	118	1	0	0	0	0	1	0	0	0	10661	1725	60	5	351	5	NRBP1	2	27656863	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	978808	27656863	215542510	21	66329											
ALK	238	broad.mit.edu	37	chr2	30142909	30142909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggaggcgcgaattgccGcggacagccttccctctctg	5	8	14	14	4	1	0	0	0	1	0	3	3	2	2	3	3	2	1	3	3	1	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:30142909G>A	uc002rmy.2	-	1	1524	c.617C>T	c.(616-618)GCG>GTG	p.A206V		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	206	Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	GCGAATTGCCGCGGACAGCCT	0.602			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				14	25					0	0	0.016723	0	0		A	30142909	A	A	30142909	3	1	118	1	0	0	0	0	1	0	0	0	525	1087	38	1	4361	1	ALK	2	30142909	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	2486046	30142909	213056464	22	66330											
BCL11A	53335	broad.mit.edu	37	chr2	60688687	60688687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggcgctgcccaccaagtCgctggtgccgggttccgggg	3	7	17	14	4	0	0	0	0	0	0	2	0	1	0	4	5	2	4	4	5	1	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:60688687C>T	uc002sae.1	-	4	1588	c.1360G>A	c.(1360-1362)GAC>AAC	p.D454N	BCL11A_uc002sab.2_Missense_Mutation_p.D454N|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.D123N|BCL11A_uc010ypj.1_Missense_Mutation_p.D420N|BCL11A_uc002sad.1_Missense_Mutation_p.D302N|BCL11A_uc002saf.1_Missense_Mutation_p.D420N	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	454					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			CCCACCAAGTCGCTGGTGCCG	0.572			T	IGH@	B-CLL								12	14					0	0	0.013537	0	0		T	60688687	T	T	60688687	3	4	118	1	0	0	0	0	1	0	0	0	1364	884	31	1	1257	1	BCL11A	2	60688687	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	30545778	60688687	182510686	23	66331											
PUS10	150962	broad.mit.edu	37	chr2	61188647	61188647	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaatttcaagaacagcgcaTacagcctttggtgagtttgg	11	12	10	8	1	2	2	2	1	0	1	2	2	2	2	1	2	4	2	1	2	4	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:61188647T>C	uc010fci.2	-	10	885	c.825A>G	c.(823-825)GTA>GTG	p.V275V	PUS10_uc002sao.2_Silent_p.V275V|PUS10_uc010ypk.1_Silent_p.V52V	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	275					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)			GAACAGCGCATACAGCCTTTG	0.353													97	233					0	0	0.01441	0	0		C	61188647	C	C	61188647	2	2	118	1	0	0	0	0	0	0	0	1	12856	1393	49	3		3	PUS10	2	61188647	Silent	SNP	T	TCGA-CD-8531-01A-11D-2340-08	499960	61188647	182010726	24	66332											
TMEM127	55654	broad.mit.edu	37	chr2	96920726	96920726	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcactgtctggggattcAtgcagaaatctgtagaggga	11	9	14	7	0	3	2	1	0	2	2	3	4	3	4	0	3	2	4	0	3	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:96920726A>G	uc002svq.2	-	3	511	c.254T>C	c.(253-255)ATG>ACG	p.M85T	TMEM127_uc002svr.2_Missense_Mutation_p.M85T	NM_017849	NP_060319	O75204	TM127_HUMAN	transmembrane protein 127	85					negative regulation of cell proliferation|negative regulation of TOR signaling cascade	cytoplasm|integral to membrane|plasma membrane					0						CTGGGGATTCATGCAGAAATC	0.542									Pheochromocytoma_(Adrenal)_Familial				15	26					0	0	0.020292	0	0		G	96920726	G	G	96920726	3	3	118	1	0	0	0	0	1	0	0	0	16065	217	8	3	470	3	TMEM127	2	96920726	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	35732079	96920726	146278647	25	66333											
SNRNP200	23020	broad.mit.edu	37	chr2	96949033	96949033	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagcgtttccttgagcgtGctgtcacttagcttctccag	6	13	10	12	2	2	1	1	1	1	0	4	1	3	1	2	0	5	4	2	0	1	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:96949033G>A	uc002svu.2	-	34	4907	c.4821C>T	c.(4819-4821)AGC>AGT	p.S1607S	SNRNP200_uc002svt.2_Silent_p.S217S|SNRNP200_uc010yuj.1_RNA|SNRNP200_uc002svv.1_Silent_p.S134S	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1607	Helicase C-terminal 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						CCTTGAGCGTGCTGTCACTTA	0.562													24	48					0	0	0.016522	0	0		A	96949033	A	A	96949033	2	1	118	1	0	0	0	0	0	0	0	1	14877	1310	46	2		2	SNRNP200	2	96949033	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	28307	96949033	146250340	26	66334											
RALB	5899	broad.mit.edu	37	chr2	121043489	121043489	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaccaaagctgacagttatAgaaagaaagtggttcttgat	15	11	9	6	0	1	4	0	2	1	2	1	4	1	4	1	1	2	3	1	1	6	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:121043489A>G	uc002tmk.2	+	3	344	c.154A>G	c.(154-156)AGA>GGA	p.R52G	RALB_uc010yys.1_Missense_Mutation_p.R74G|RALB_uc002tml.2_Missense_Mutation_p.R73G|RALB_uc002tmm.2_Intron|RALB_uc010yyt.1_Intron	NM_002881	NP_002872	P11234	RALB_HUMAN	v-ral simian leukemia viral oncogene homolog B	52					apoptosis|cell cycle|cytokinesis|nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of exocyst assembly|regulation of exocyst localization	cytosol|midbody|plasma membrane	GTP binding|GTPase activity|protein binding			lung(3)	3		Prostate(154;0.122)				TGACAGTTATAGAAAGAAAGT	0.403													27	25					0	0	0.004656	0	0		G	121043489	G	G	121043489	3	3	118	1	0	0	0	0	1	0	0	0	13036	412	15	3	160	3	RALB	2	121043489	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	24094456	121043489	122155884	27	66335											
CCDC115	84317	broad.mit.edu	37	chr2	131099517	131099517	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttggcgagcgagagccagcCctgcagggagaggaaagcgg	10	3	18	10	3	0	2	0	0	0	2	0	6	0	3	2	4	5	1	2	4	1	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:131099517C>A	uc002tqy.1	-	2	336	c.112G>T	c.(112-114)GGC>TGC	p.G38C	CCDC115_uc002tqw.1_Missense_Mutation_p.G30C|CCDC115_uc010zaf.1_Missense_Mutation_p.G33C|CCDC115_uc002tqx.2_Missense_Mutation_p.G33C|CCDC115_uc002tqz.1_Missense_Mutation_p.G38C|IMP4_uc002tra.1_5'Flank	NM_032357	NP_115733	Q96NT0	CC115_HUMAN	coiled-coil domain containing 115	38						endosome|lysosome					0	Colorectal(110;0.1)					GAGAGCCAGCCCTGCAGGGAG	0.672													8	18					1.12685e-05	1.15142e-05	0.004482	1	0		A	131099517	A	A	131099517	3	1	118	1	0	0	0	0	1	0	0	0	2755	637	22	5	446	5	CCDC115	2	131099517	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	10056028	131099517	112099856	28	66336											
GPR39	2863	broad.mit.edu	37	chr2	133174980	133174980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaggcctgcagctacgctaCgctgctgcacgtgctgacac	7	7	12	15	4	0	1	0	1	0	0	0	2	0	1	1	1	7	7	1	1	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:133174980C>T	uc002ttl.2	+	1	834	c.365C>T	c.(364-366)ACG>ATG	p.T122M		NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	122	Helical; Name=3; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						AGCTACGCTACGCTGCTGCAC	0.572													19	34					0	0	0.006122	0	0		T	133174980	T	T	133174980	3	4	118	1	0	0	0	0	1	0	0	0	6708	536	19	1	367	1	GPR39	2	133174980	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	2075463	133174980	110024393	29	66337											
GTDC1	79712	broad.mit.edu	37	chr2	144764846	144764846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattttgtttattttcacCatgatgagagcttgaattat	11	18	7	5	0	1	4	1	3	0	2	1	5	1	4	1	0	1	2	1	0	3	8			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:144764846C>T	uc002tvp.2	-	7	1057	c.778G>A	c.(778-780)GGT>AGT	p.G260S	GTDC1_uc002tvo.2_Missense_Mutation_p.G260S|GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Missense_Mutation_p.G260S|GTDC1_uc010fnn.2_Missense_Mutation_p.G260S|GTDC1_uc002tvs.2_Missense_Mutation_p.G228S|GTDC1_uc010fno.2_Missense_Mutation_p.G131S|GTDC1_uc002tvt.1_Missense_Mutation_p.G260S	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	260					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		TTATTTTCACCATGATGAGAG	0.408													22	33					0	0	0.010504	0	0		T	144764846	T	T	144764846	3	4	118	1	0	0	0	0	1	0	0	0	6867	594	21	4	622	4	GTDC1	2	144764846	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	11589866	144764846	98434527	30	66338											
RBM43	375287	broad.mit.edu	37	chr2	152107671	152107671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaatgagctcttttacatGttttgcattgtttggctgag	7	18	9	7	0	2	2	1	2	1	0	2	2	2	2	0	1	3	5	0	1	2	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:152107671G>A	uc002txh.2	-	4	971	c.823C>T	c.(823-825)CAT>TAT	p.H275Y		NM_198557	NP_940959	Q6ZSC3	RBM43_HUMAN	RNA binding motif protein 43	275							nucleotide binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(221;0.131)		TCTTTTACATGTTTTGCATTG	0.348													23	41					0	0	0.016522	0	0		A	152107671	A	A	152107671	3	1	118	1	0	0	0	0	1	0	0	0	13162	1377	48	4	254	4	RBM43	2	152107671	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	7342825	152107671	91091702	31	66339											
ZAK	51776	broad.mit.edu	37	chr2	174047623	174047623	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctatgattacattaacagtAacagaagtgaggagatggat	16	11	10	4	0	1	4	0	2	1	2	1	6	1	5	0	2	3	1	0	2	5	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:174047623A>T	uc002uhz.2	+	4	489	c.289A>T	c.(289-291)AAC>TAC	p.N97Y	ZAK_uc002uhx.2_Missense_Mutation_p.N97Y|ZAK_uc002uhy.2_Missense_Mutation_p.N97Y|ZAK_uc010zei.1_5'UTR|ZAK_uc002uia.1_Missense_Mutation_p.N97Y	NM_016653	NP_057737	Q9NYL2	MLTK_HUMAN	MLK-related kinase isoform 1	97	Protein kinase.				activation of JUN kinase activity|activation of MAPKK activity|cell cycle arrest|cell death|cell differentiation|cell proliferation|DNA damage checkpoint|positive regulation of apoptosis|response to radiation	cytoplasm|nucleus	ATP binding|identical protein binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			lung(3)|stomach(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.176)			CATTAACAGTAACAGAAGTGA	0.323													14	17					0	0	0.006122	0	0		T	174047623	T	T	174047623	3	4	118	1	0	0	0	0	1	0	0	0	17538	362	13	5	299	5	ZAK	2	174047623	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	21939952	174047623	69151750	32	66340											
ATF2	1386	broad.mit.edu	37	chr2	175976308	175976308	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttaccatttttgcttcTgactgtactggttggggaga	6	16	12	7	0	1	2	0	1	1	1	1	3	1	2	1	4	3	4	1	4	2	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:175976308T>C	uc002ujl.2	-	10	1078	c.816A>G	c.(814-816)TCA>TCG	p.S272S	ATF2_uc010fqv.2_Silent_p.S223S|ATF2_uc002ujv.2_Silent_p.S19S|ATF2_uc002ujm.2_Silent_p.S214S|ATF2_uc002ujn.2_RNA|ATF2_uc002ujo.2_Intron|ATF2_uc002ujp.2_RNA|ATF2_uc002ujq.2_Silent_p.S272S|ATF2_uc002ujr.2_RNA|ATF2_uc010fqu.2_Silent_p.S254S|ATF2_uc002ujs.2_Silent_p.S214S|ATF2_uc002ujt.2_RNA|ATF2_uc002uju.2_RNA|ATF2_uc002ujw.1_Silent_p.S214S|ATF2_uc002ujx.1_RNA	NM_001880	NP_001871	P15336	ATF2_HUMAN	activating transcription factor 2	272					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nucleoplasm	protein dimerization activity|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(1)|breast(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.125)			TTTTTGCTTCTGACTGTACTG	0.408													19	32					0	0	0.008871	0	0		C	175976308	C	C	175976308	2	2	118	1	0	0	0	0	0	0	0	1	1081	1567	55	3		3	ATF2	2	175976308	Silent	SNP	T	TCGA-CD-8531-01A-11D-2340-08	1928685	175976308	67223065	33	66341											
TTN	7273	broad.mit.edu	37	chr2	179407894	179407894	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaataagtattgttcacctTcatttaaggaagtaacagtg	15	14	7	5	0	2	0	2	0	0	0	2	1	2	1	1	1	1	3	1	1	7	9			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:179407894T>C	uc010zfg.1	-	296	89326	c.89102A>G	c.(89101-89103)GAA>GGA	p.E29701G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E23396G|TTN_uc010zfi.1_Missense_Mutation_p.E23329G|TTN_uc010zfj.1_Missense_Mutation_p.E23204G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30628							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGTTCACCTTCATTTAAGGA	0.448													14	161					0	0	0.016723	0	0		C	179407894	C	C	179407894	3	2	118	1	0	0	0	0	1	0	0	0	16761	1783	62	3	11237	3	TTN	2	179407894	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	3431586	179407894	63791479	34	66342											
IHH	3549	broad.mit.edu	37	chr2	219920533	219920533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgcgccccactctccaggCgtacctgggctccggcaggg	5	5	13	18	4	1	0	0	0	1	0	3	0	2	0	5	4	1	3	5	4	1	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:219920533C>T	uc002vjo.1	-	3	632	c.632G>A	c.(631-633)CGC>CAC	p.R211H		NM_002181	NP_002172	Q14623	IHH_HUMAN	Indian hedgehog homolog precursor	211					cell-cell signaling|intein-mediated protein splicing|proteolysis	extracellular space|plasma membrane	cholesterol binding|patched binding|peptidase activity			breast(1)	1		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000188)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACTCTCCAGGCGTACCTGGGC	0.667													12	14					0	0	0.013537	0	0		T	219920533	T	T	219920533	3	4	118	1	0	0	0	0	1	0	0	0	7623	768	27	1	607	1	IHH	2	219920533	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	40512639	219920533	23278840	35	66343											
CAPN10	11132	broad.mit.edu	37	chr2	241530408	241530408	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgtgttctggctccccttActggaaaaggtctacgccaa	9	11	10	11	1	2	0	0	0	2	0	3	2	3	1	3	3	2	2	3	3	5	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr2:241530408A>G	uc002vzk.1	+	3	634	c.450A>G	c.(448-450)TTA>TTG	p.L150L	CAPN10_uc010zoh.1_Silent_p.L150L|CAPN10_uc002vzl.1_Silent_p.L150L|CAPN10_uc002vzm.1_Intron|CAPN10_uc002vzn.1_Missense_Mutation_p.Y26C|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_RNA|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	150	Calpain catalytic.				actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		GGCTCCCCTTACTGGAAAAGG	0.642													13	21					0	0	0.013537	0	0		G	241530408	G	G	241530408	2	3	118	1	0	0	0	0	0	0	0	1	2626	388	14	3		3	CAPN10	2	241530408	Silent	SNP	A	TCGA-CD-8531-01A-11D-2340-08	21609875	241530408	1668965	36	66344											
CNTN4	152330	broad.mit.edu	37	chr3	3095653	3095653	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaattcgaattccaaagAtatcaagtgagaatgccttt	17	11	6	7	1	1	2	1	1	0	2	3	4	2	2	2	0	2	0	2	0	7	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr3:3095653A>G	uc003bpc.2	+	23	3195	c.2974A>G	c.(2974-2976)ATA>GTA	p.I992V	CNTN4_uc003bpe.2_Missense_Mutation_p.I664V|CNTN4_uc003bpf.2_Missense_Mutation_p.I663V|CNTN4_uc003bpg.2_Missense_Mutation_p.I248V	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	992					axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		AATTCCAAAGATATCAAGTGA	0.418													11	33					0	0	0.008291	0	0		G	3095653	G	G	3095653	3	3	118	1	0	0	0	0	1	0	0	0	3646	333	12	3	3056	3	CNTN4	3	3095653	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08		3095653	194926777	37	66345											
TGFBR2	7048	broad.mit.edu	37	chr3	30713931	30713931	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggctaacagtgggcaggTaagttagagctagtgctaga	11	9	14	7	0	0	2	0	0	0	2	0	2	0	2	1	3	3	6	1	3	5	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr3:30713931T>G	uc003ceo.2	+	4	1636	c.1254_splice	c.e4+2	p.Q418_splice	TGFBR2_uc003cen.2_Splice_Site_p.Q443_splice	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II						activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						AGTGGGCAGGTAAGTTAGAGC	0.527													45	64					0	0	0.009718	0	0		G	30713931	G	G	30713931	5	3	118	1	0	0	0	0	0	0	1	0	15847	1652	57	5	1349	5	TGFBR2	3	30713931	Splice_Site	SNP	T	TCGA-CD-8531-01A-11D-2340-08	27618278	30713931	167308499	38	66346											
IFT122	55764	broad.mit.edu	37	chr3	129231237	129231237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcctgcccaaggacacccCctcgggcatctctaaagtgt	9	7	9	16	1	1	0	0	0	1	0	3	1	1	1	4	2	2	1	4	2	3	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr3:129231237C>T	uc003emm.2	+	24	3175	c.2969C>T	c.(2968-2970)CCC>CTC	p.P990L	IFT122_uc003eml.2_Missense_Mutation_p.P1041L|IFT122_uc003emn.2_Missense_Mutation_p.P931L|IFT122_uc003emo.2_Missense_Mutation_p.P880L|IFT122_uc003emp.2_Missense_Mutation_p.P840L|IFT122_uc010htc.2_Missense_Mutation_p.P983L|IFT122_uc011bky.1_Missense_Mutation_p.P781L|IFT122_uc003emq.2_Missense_Mutation_p.P830L|IFT122_uc003emr.2_Missense_Mutation_p.P743L|IFT122_uc011bla.1_Missense_Mutation_p.P764L|IFT122_uc010hte.2_Missense_Mutation_p.P316L|IFT122_uc003ems.2_Missense_Mutation_p.P372L|IFT122_uc011bkx.1_Missense_Mutation_p.P831L	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	990					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						AAGGACACCCCCTCGGGCATC	0.517													9	128					0	0	0.006214	0	0		T	129231237	T	T	129231237	3	4	118	1	0	0	0	0	1	0	0	0	7571	623	22	4	3223	4	IFT122	3	129231237	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	98517306	129231237	68791193	39	66347											
PIK3R4	30849	broad.mit.edu	37	chr3	130424447	130424451	+	Frame_Shift_Del	DEL	TCTGC	-	-																															ccattcagcattttccatcaTctgcttagctattctctcag																										TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr3:130424447_130424451delTCTGC	uc003enj.2	-	12	3467_3471	c.2886_2890delGCAGA	c.(2884-2892)AAGCAGATGfs	p.K962fs		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	962_964					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						TTTTCCATCATCTGCTTAGCTATTC	0.424													33	76	---	---	---	---						.	-	130424451	-	-	130424447	7	5	118	1	0	1	0	1	0	0	0	0	11940	1435	50	0	1222	0	PIK3R4	3	130424447	Frame_Shift_Del	DEL	TCTGC	TCGA-CD-8531-01A-11D-2340-08	1193210	130424447	67597983	40	66348											
SIAH2	6478	broad.mit.edu	37	chr3	150480426	150480427	+	Missense_Mutation	DNP	GC	CA	CA																															gagcgaggtcagctcgtggtGctgcggggacaccgggccgg																										TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr3:150480426_150480427GC>CA	uc003eyi.2	-	1	837_838	c.210_211GC>TG	c.(208-213)CAGCAC>CATGAC	p.70_71QH>HD		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	70_71					apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			AGCTCGTGGTGCTGCGGGGACA	0.559													6	10					0	0	0.004672	0	0		CA	150480427	CA	CA	150480426	3	2	118	1	0	0	0	0	1	0	0	0	14325	1319	46	5	771	5	SIAH2	3	150480426	Missense_Mutation	DNP	GC	TCGA-CD-8531-01A-11D-2340-08	20055979	150480426	47542004	41	66349											
PIGZ	80235	broad.mit.edu	37	chr3	196674283	196674283	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcttttcagggtttggcaCagggcccagtcctcagtccc	7	10	11	13	0	2	0	2	0	0	0	4	0	4	0	3	3	1	3	3	3	1	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr3:196674283C>T	uc003fxh.2	-	3	1632	c.1485G>A	c.(1483-1485)CTG>CTA	p.L495L		NM_025163	NP_079439	Q86VD9	PIGZ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	495					GPI anchor biosynthetic process	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			ovary(3)	3	all_cancers(143;1.05e-08)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.29e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00603)		GGGTTTGGCACAGGGCCCAGT	0.647													31	34					0	0	0.009535	0	0		T	196674283	T	T	196674283	2	4	118	1	0	0	0	0	0	0	0	1	11924	465	17	4		4	PIGZ	3	196674283	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	46193857	196674283	1348147	42	66350											
PDS5A	23244	broad.mit.edu	37	chr4	39904078	39904078	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagattttctctaccaacAgtctaggaaataacaacaac	18	9	4	10	0	2	1	0	0	2	1	3	2	2	2	1	1	5	0	1	1	8	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:39904078A>T	uc003guv.3	-	13	1928	c.1388T>A	c.(1387-1389)CTG>CAG	p.L463Q	PDS5A_uc010ifo.2_Missense_Mutation_p.L423Q|PDS5A_uc003guw.3_Missense_Mutation_p.L463Q	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	463					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						CTCTACCAACAGTCTAGGAAA	0.279													12	17					0	0	0.016723	0	0		T	39904078	T	T	39904078	3	4	118	1	0	0	0	0	1	0	0	0	11710	188	7	5	2742	5	PDS5A	4	39904078	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08		39904078	151250198	43	66351											
PHOX2B	8929	broad.mit.edu	37	chr4	41748140	41748140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgccgccgcctccattcGccccgcagctgggggtgggg	2	5	16	18	6	0	0	0	0	0	0	2	0	1	0	7	4	1	2	7	4	0	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:41748140G>A	uc003gwf.3	-	3	989	c.629C>T	c.(628-630)GCG>GTG	p.A210V		NM_003924	NP_003915	Q99453	PHX2B_HUMAN	paired-like homeobox 2b	210					positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			autonomic_ganglia(7)|lung(2)|ovary(2)|central_nervous_system(1)	12						gccTCCATTCGCCCCGCAGCT	0.408			Mis|F		neuroblastoma	neuroblastoma	congenital central hypoventilation syndrome		Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				13	15					0	0	0.016723	0	0		A	41748140	A	A	41748140	3	1	118	1	0	0	0	0	1	0	0	0	11878	1087	38	1	319	1	PHOX2B	4	41748140	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	1844062	41748140	149406136	44	66352											
LPHN3	23284	broad.mit.edu	37	chr4	62775347	62775347	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacaagaaatcacttgaatGctggggacatcacctactct	14	9	8	10	0	3	3	2	1	1	2	3	4	3	4	1	2	2	1	1	2	4	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:62775347G>T	uc010ihh.2	+	9	1926	c.1753G>T	c.(1753-1755)GCT>TCT	p.A585S	LPHN3_uc003hcq.3_Missense_Mutation_p.A585S|LPHN3_uc003hct.2_5'UTR|LPHN3_uc003hcs.1_Missense_Mutation_p.A414S	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	585	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						TCACTTGAATGCTGGGGACAT	0.468													6	9					5.18039e-06	5.32655e-06	0.00308	1	0		T	62775347	T	T	62775347	3	4	118	1	0	0	0	0	1	0	0	0	8935	1319	46	5	1787	5	LPHN3	4	62775347	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	21027207	62775347	128378929	45	66353											
FRAS1	80144	broad.mit.edu	37	chr4	79402981	79402981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtaaagattccagttatcCgccatggtactgacctctct	10	12	7	12	1	1	2	0	1	1	1	4	2	3	2	4	1	1	3	4	1	4	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:79402981C>T	uc003hlb.2	+	57	8907	c.8467C>T	c.(8467-8469)CGC>TGC	p.R2823C		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2818	Calx-beta 3.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TCCAGTTATCCGCCATGGTAC	0.473													72	130					0	0	0.01441	0	0		T	79402981	T	T	79402981	3	4	118	1	0	0	0	0	1	0	0	0	6056	652	23	1	8768	1	FRAS1	4	79402981	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	16627634	79402981	111751295	46	66354											
DSPP	1834	broad.mit.edu	37	chr4	88534064	88534064	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctggcctggataattcCgatgggagtcctagtgggaa	9	10	15	7	1	0	0	0	0	0	0	2	5	2	3	3	4	1	1	3	4	3	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:88534064C>T	uc003hqu.2	+	4	846	c.726C>T	c.(724-726)TCC>TCT	p.S242S		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	242					biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		TGGATAATTCCGATGGGAGTC	0.458													20	30					0	0	0.007413	0	0		T	88534064	T	T	88534064	2	4	118	1	0	0	0	0	0	0	0	1	4788	639	23	1		1	DSPP	4	88534064	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	9131083	88534064	102620212	47	66355											
FAM190A	401145	broad.mit.edu	37	chr4	91549260	91549260	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcccaacagtccatctgcGgattggcctctacaaggtgt	9	10	10	12	1	2	0	0	0	2	0	3	1	3	1	3	3	4	0	3	3	3	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:91549260G>A	uc003hsv.3	+	6	2149	c.1809G>A	c.(1807-1809)GCG>GCA	p.A603A	FAM190A_uc010ikv.2_RNA|FAM190A_uc003hsw.2_Silent_p.A603A	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1	603										large_intestine(1)|ovary(1)	2						GTCCATCTGCGGATTGGCCTC	0.443													29	35					0	0	0.007291	0	0		A	91549260	A	A	91549260	2	1	118	1	0	0	0	0	0	0	0	1	5532	1103	39	1		1	FAM190A	4	91549260	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	3015196	91549260	99605016	48	66356											
NFKB1	4790	broad.mit.edu	37	chr4	103517342	103517342	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accctgaaggttgtgacaaaAgtgatgacaaaaacactgta	17	8	9	7	0	0	4	0	4	0	0	0	4	0	4	1	1	1	2	1	1	6	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:103517342A>C	uc011ceq.1	+	14	1812	c.1345A>C	c.(1345-1347)AGT>CGT	p.S449R	NFKB1_uc011cep.1_Missense_Mutation_p.S450R|NFKB1_uc011cer.1_Missense_Mutation_p.S269R	NM_003998	NP_003989	P19838	NFKB1_HUMAN	nuclear factor kappa-B, subunit 1 isoform 1	449	Interaction with CFLAR.				anti-apoptosis|apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of calcidiol 1-monooxygenase activity|nerve growth factor receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter	cytosol|I-kappaB/NF-kappaB complex|mitochondrion|nucleoplasm	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|breast(2)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.59e-08)	Dexamethasone(DB01234)|Pranlukast(DB01411)|Thalidomide(DB01041)	TTGTGACAAAAGTGATGACAA	0.408													22	36					0	0	0.014323	0	0		C	103517342	C	C	103517342	3	2	118	1	0	0	0	0	1	0	0	0	10394	72	3	5	1398	5	NFKB1	4	103517342	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	11968082	103517342	87636934	49	66357											
EGF	1950	broad.mit.edu	37	chr4	110915908	110915908	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gactctactccaccccctcaCctcagggaagatgaccacca	11	6	6	18	0	3	2	2	1	1	1	4	4	4	3	6	1	1	0	6	1	2	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:110915908C>T	uc003hzy.3	+	20	3329	c.2877C>T	c.(2875-2877)CAC>CAT	p.H959H	EGF_uc011cfu.1_Silent_p.H917H|EGF_uc011cfv.1_Silent_p.H918H|EGF_uc010imk.2_Silent_p.H107H	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	959	Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	CACCCCCTCACCTCAGGGAAG	0.433													35	45					0	0	0.017118	0	0		T	110915908	T	T	110915908	2	4	118	1	0	0	0	0	0	0	0	1	4968	506	18	4		4	EGF	4	110915908	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	7398566	110915908	80238368	50	66358											
ANK2	287	broad.mit.edu	37	chr4	114195727	114195727	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggtacacaccactgcaCatctctgcccgggagggcca	10	6	11	14	1	1	0	0	0	1	0	2	1	1	1	3	3	3	2	3	3	2	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:114195727C>T	uc003ibe.3	+	15	1705	c.1605C>T	c.(1603-1605)CAC>CAT	p.H535H	ANK2_uc003ibd.3_Silent_p.H514H|ANK2_uc003ibf.3_Silent_p.H535H|ANK2_uc003ibc.2_Silent_p.H511H|ANK2_uc011cgb.1_Silent_p.H550H	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	535	ANK 16.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CACCACTGCACATCTCTGCCC	0.527													34	63					0	0	0.013726	0	0		T	114195727	T	T	114195727	2	4	118	1	0	0	0	0	0	0	0	1	621	477	17	4		4	ANK2	4	114195727	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	3279819	114195727	76958549	51	66359											
ANKRD50	57182	broad.mit.edu	37	chr4	125592169	125592169	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacatgtccttcataggcagCtaccagcagtggagtcatgc	11	9	10	11	0	2	0	2	0	0	0	3	1	3	1	2	2	5	3	2	2	3	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:125592169C>A	uc003ifg.3	-	3	2529	c.2263G>T	c.(2263-2265)GCT>TCT	p.A755S	ANKRD50_uc011cgo.1_Missense_Mutation_p.A576S|ANKRD50_uc010inw.2_Missense_Mutation_p.A755S	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	755	ANK 9.									central_nervous_system(1)	1						TCATAGGCAGCTACCAGCAGT	0.473													33	48					8.88839e-20	9.59011e-20	0.010818	1	0		A	125592169	A	A	125592169	3	1	118	1	0	0	0	0	1	0	0	0	677	797	28	5	2030	5	ANKRD50	4	125592169	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	11396442	125592169	65562107	52	66360											
FAT4	79633	broad.mit.edu	37	chr4	126241663	126241663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacggaacttttagcattaGcccaaacactgggagtattt	12	11	8	10	1	0	0	0	0	0	0	0	2	0	2	2	2	4	2	2	2	5	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:126241663G>A	uc003ifj.3	+	1	4097	c.4097G>A	c.(4096-4098)AGC>AAC	p.S1366N		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1366	Cadherin 13.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TTTAGCATTAGCCCAAACACT	0.383													70	82					0	0	0.01441	0	0		A	126241663	A	A	126241663	3	1	118	1	0	0	0	0	1	0	0	0	5706	971	34	2	4099	2	FAT4	4	126241663	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	649494	126241663	64912613	53	66361											
FAT4	79633	broad.mit.edu	37	chr4	126370525	126370525	+	Frame_Shift_Del	DEL	C	-	-																															tgcccatgttcctgaaaattCccccttaggatacacagtta																										TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:126370525delC	uc003ifj.3	+	9	8354	c.8354delC	c.(8353-8355)TCCfs	p.S2785fs	FAT4_uc011cgp.1_Frame_Shift_Del_p.S1083fs|FAT4_uc003ifi.1_Frame_Shift_Del_p.S263fs	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2785	Cadherin 27.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CCTGAAAATTCCCCCTTAGGA	0.363													47	102	---	---	---	---						.	-	126370525	-	-	126370525	7	5	118	1	0	1	0	1	0	0	0	0	5706	855	30	0	8388	0	FAT4	4	126370525	Frame_Shift_Del	DEL	C	TCGA-CD-8531-01A-11D-2340-08	128862	126370525	64783751	54	66362											
FAT4	79633	broad.mit.edu	37	chr4	126412365	126412365	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagaagtggagaggctcaaCacacctcgccctagaaaccc	14	4	10	13	1	1	3	1	0	0	3	2	5	1	3	3	2	2	1	3	2	5	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:126412365C>T	uc003ifj.3	+	17	14388	c.14388C>T	c.(14386-14388)AAC>AAT	p.N4796N	FAT4_uc011cgp.1_Silent_p.N3037N|FAT4_uc003ifi.1_Silent_p.N2273N	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4796	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AGAGGCTCAACACACCTCGCC	0.522													28	47					0	0	0.00632	0	0		T	126412365	T	T	126412365	2	4	118	1	0	0	0	0	0	0	0	1	5706	477	17	4		4	FAT4	4	126412365	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	41840	126412365	64741911	55	66363											
PCDH10	57575	broad.mit.edu	37	chr4	134072395	134072395	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaccgtgaaggaagcggTgagtgagggcgcggcgcccg	8	3	19	11	6	0	3	0	3	0	0	0	4	0	4	2	4	2	1	2	4	2	0	rs146215385		TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:134072395T>C	uc003iha.2	+	1	1926	c.1100T>C	c.(1099-1101)GTG>GCG	p.V367A	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.V367A	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	367	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AAGGAAGCGGTGAGTGAGGGC	0.632													39	53					0	0	0.00623	0	0		C	134072395	C	C	134072395	3	2	118	1	0	0	0	0	1	0	0	0	11526	1696	59	3	1102	3	PCDH10	4	134072395	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	7660030	134072395	57081881	56	66364											
PCDH10	57575	broad.mit.edu	37	chr4	134073610	134073610	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggaggttcgacctgctgtgGccgccaagcccgggcgcgca	5	5	16	15	6	0	0	0	0	0	0	1	2	0	1	4	4	2	3	4	4	1	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:134073610G>C	uc003iha.2	+	1	3141	c.2315G>C	c.(2314-2316)GGC>GCC	p.G772A	PCDH10_uc003igz.2_Missense_Mutation_p.G772A	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	772	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		ACCTGCTGTGGCCGCCAAGCC	0.582													9	20					0	0	0.006214	0	0		C	134073610	C	C	134073610	3	2	118	1	0	0	0	0	1	0	0	0	11526	1203	42	5	2317	5	PCDH10	4	134073610	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	1215	134073610	57080666	57	66365											
POU4F2	5458	broad.mit.edu	37	chr4	147561803	147561803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcgctgcgccagagaagcGctcgctcgaagcctactttg	8	8	11	14	5	0	1	0	0	0	1	3	3	0	1	2	0	4	3	2	0	3	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:147561803G>A	uc003ikv.2	+	2	1321	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	358	Homeobox.				estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					CCAGAGAAGCGCTCGCTCGAA	0.607													43	52					0	0	0.010771	0	0		A	147561803	A	A	147561803	3	1	118	1	0	0	0	0	1	0	0	0	12298	1087	38	1	1079	1	POU4F2	4	147561803	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	13488193	147561803	43592473	58	66366											
WDR17	116966	broad.mit.edu	37	chr4	177081171	177081171	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccaattaatccaggaagAtaaggatgatgtcattccat	15	11	8	7	0	1	3	1	2	0	1	3	5	3	5	3	2	0	0	3	2	4	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:177081171A>G	uc003iuj.2	+	20	2780	c.2624A>G	c.(2623-2625)GAT>GGT	p.D875G	WDR17_uc003iuk.2_Missense_Mutation_p.D851G|WDR17_uc003ium.3_Missense_Mutation_p.D851G|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.D94G	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	875										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		ATCCAGGAAGATAAGGATGAT	0.333													17	31					0	0	0.007413	0	0		G	177081171	G	G	177081171	3	3	118	1	0	0	0	0	1	0	0	0	17303	333	12	3	2698	3	WDR17	4	177081171	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	29519368	177081171	14073105	59	66367											
WDR17	116966	broad.mit.edu	37	chr4	177081215	177081215	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatagccattggtgatgtgAaaaagctagtccattttttc	11	14	9	7	0	0	2	0	2	0	0	2	2	1	2	2	1	2	2	2	1	4	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:177081215A>C	uc003iuj.2	+	20	2824	c.2668A>C	c.(2668-2670)AAA>CAA	p.K890Q	WDR17_uc003iuk.2_Missense_Mutation_p.K866Q|WDR17_uc003ium.3_Missense_Mutation_p.K866Q|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.K109Q	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	890										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TGGTGATGTGAAAAAGCTAGT	0.383													25	32					0	0	0.021523	0	0		C	177081215	C	C	177081215	3	2	118	1	0	0	0	0	1	0	0	0	17303	247	9	5	2742	5	WDR17	4	177081215	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	44	177081215	14073061	60	66368											
ODZ3	55714	broad.mit.edu	37	chr4	183672997	183672997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgcaacggatccagtcaCgggagatctgtacgtttctg	8	11	11	11	3	3	1	1	0	2	1	4	3	4	2	2	2	3	3	2	2	2	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr4:183672997C>T	uc003ivd.1	+	19	3711	c.3674C>T	c.(3673-3675)ACG>ATG	p.T1225M	ODZ3_uc003ive.1_Missense_Mutation_p.T638M	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1225	Extracellular (Potential).|NHL 1.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GATCCAGTCACGGGAGATCTG	0.458													31	45					0	0	0.015359	0	0		T	183672997	T	T	183672997	3	4	118	1	0	0	0	0	1	0	0	0	10855	536	19	1	3748	1	ODZ3	4	183672997	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	6591782	183672997	7481279	61	66369											
CDH18	1016	broad.mit.edu	37	chr5	19721471	19721471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaacctgttttagggtcgaCggagaagtagggttgtcctt	8	13	13	7	2	0	1	0	0	0	1	2	3	1	1	2	3	1	3	2	3	4	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr5:19721471C>T	uc003jgc.2	-	4	1005	c.628G>A	c.(628-630)GTC>ATC	p.V210I	CDH18_uc003jgd.2_Missense_Mutation_p.V210I|CDH18_uc011cnm.1_Missense_Mutation_p.V210I	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	210	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TTAGGGTCGACGGAGAAGTAG	0.448													44	67					0	0	0.01441	0	0		T	19721471	T	T	19721471	3	4	118	1	0	0	0	0	1	0	0	0	3106	536	19	1	1780	1	CDH18	5	19721471	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08		19721471	161193789	62	66370											
ZMAT2	153527	broad.mit.edu	37	chr5	140081626	140081626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtcaagcgagagcttttaCggcatagggactacaaggtg	11	9	13	8	2	1	1	1	0	0	1	1	3	1	2	0	3	4	2	0	3	5	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr5:140081626C>T	uc003lgy.1	+	3	162	c.148C>T	c.(148-150)CGG>TGG	p.R50W		NM_144723	NP_653324	Q96NC0	ZMAT2_HUMAN	zinc finger, matrin type 2	50						nucleus	DNA binding|zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAGCTTTTACGGCATAGGGA	0.443													28	46					0	0	0.007291	0	0		T	140081626	T	T	140081626	3	4	118	1	0	0	0	0	1	0	0	0	17717	527	19	1	158	1	ZMAT2	5	140081626	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	120360155	140081626	40833634	63	66371											
PCDHA11	56138	broad.mit.edu	37	chr5	140250985	140250985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggagggcccacctaagaCggacctcatggccttcagcc	9	6	12	14	1	2	2	2	1	0	1	2	4	2	4	5	4	1	0	5	4	1	2	rs146613275	by1000genomes	TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr5:140250985C>T	uc003lia.2	+	1	3155	c.2297C>T	c.(2296-2298)ACG>ATG	p.T766M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.T766M	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	766	Cytoplasmic (Potential).|6 X 4 AA repeats of P-X-X-P.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCACCTAAGACGGACCTCATG	0.627													7	14					0	0	0.00308	0	0		T	140250985	T	T	140250985	3	4	118	1	0	0	0	0	1	0	0	0	11540	536	19	1	2299	1	PCDHA11	5	140250985	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	169359	140250985	40664275	64	66372											
FAT2	2196	broad.mit.edu	37	chr5	150885490	150885490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcttgttttccatctccaggGggaaggggaagcccccatag	8	9	13	11	0	1	0	0	0	1	0	3	2	2	2	4	4	1	2	4	4	3	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr5:150885490G>A	uc003lue.3	-	23	12699	c.12686C>T	c.(12685-12687)CCC>CTC	p.P4229L	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.P836L	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	4229	Cytoplasmic (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CATCTCCAGGGGGAAGGGGAA	0.642													61	100					0	0	0.01441	0	0		A	150885490	A	A	150885490	3	1	118	1	0	0	0	0	1	0	0	0	5704	1232	43	4	367	4	FAT2	5	150885490	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	10634505	150885490	30029770	65	66373											
ATP10B	23120	broad.mit.edu	37	chr5	160047922	160047922	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgaatcttctccagggaCgtccccagagccttgcttga	7	11	10	13	1	2	3	0	2	2	1	4	4	3	4	4	1	3	2	4	1	1	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr5:160047922C>T	uc003lym.1	-	15	2695	c.1848G>A	c.(1846-1848)ACG>ACA	p.T616T	ATP10B_uc010jit.1_5'UTR|ATP10B_uc003lyn.2_Silent_p.T174T	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	616	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCTCCAGGGACGTCCCCAGAG	0.483													63	111					0	0	0.01441	0	0		T	160047922	T	T	160047922	2	4	118	1	0	0	0	0	0	0	0	1	1118	523	19	1		1	ATP10B	5	160047922	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	9162432	160047922	20867338	66	66374											
HMP19	51617	broad.mit.edu	37	chr5	173473785	173473785	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagctgaacagtaaccccagCgagaagggaaccaagccgcc	15	2	11	13	2	0	2	0	1	0	1	0	4	0	3	5	1	6	2	5	1	6	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr5:173473785C>T	uc003mcx.2	+	2	172	c.27C>T	c.(25-27)AGC>AGT	p.S9S		NM_015980	NP_057064	Q9Y328	NSG2_HUMAN	HMP19 protein	9	Cytoplasmic (Potential).				dopamine receptor signaling pathway	cytoplasmic vesicle membrane|Golgi cisterna membrane|integral to membrane|multivesicular body membrane	dopamine receptor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00925)|all_lung(126;0.0148)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GTAACCCCAGCGAGAAGGGAA	0.532													39	57					0	0	0.005524	0	0		T	173473785	T	T	173473785	2	4	118	1	0	0	0	0	0	0	0	1	7261	767	27	1		1	HMP19	5	173473785	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	13425863	173473785	7441475	67	66375											
HK3	3101	broad.mit.edu	37	chr5	176314553	176314553	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttccgcatctgtgcctgaAccgcagccagttgatcatgg	7	10	10	14	2	2	2	1	2	1	0	3	2	3	2	5	1	3	3	5	1	1	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr5:176314553A>C	uc003mfa.2	-	11	1591	c.1499T>G	c.(1498-1500)GTT>GGT	p.V500G	HK3_uc003mez.2_Missense_Mutation_p.V56G	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	500	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTGTGCCTGAACCGCAGCCAG	0.682													13	20					0	0	0.016723	0	0		C	176314553	C	C	176314553	3	2	118	1	0	0	0	0	1	0	0	0	7208	43	2	5	1308	5	HK3	5	176314553	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	2840768	176314553	4600707	68	66376											
DBN1	1627	broad.mit.edu	37	chr5	176894259	176894259	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctcagggttccataccttGgcctgctcccagaactgctc	6	10	10	15	0	1	1	1	0	0	1	4	1	3	1	4	3	4	4	4	3	2	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr5:176894259G>A	uc003mgy.2	-	6	724	c.552C>T	c.(550-552)GCC>GCT	p.A184A	DBN1_uc003mgx.2_Silent_p.A186A|DBN1_uc010jkn.1_Silent_p.A134A|DBN1_uc003mgz.1_Silent_p.A121A	NM_004395	NP_004386	Q16643	DREB_HUMAN	drebrin 1 isoform a	184					actin filament organization|regulation of dendrite development|regulation of neuronal synaptic plasticity	actomyosin|cytoplasm|dendrite	actin binding|profilin binding			breast(3)|ovary(1)|lung(1)|skin(1)	6	all_cancers(89;2.17e-05)|Renal(175;0.000269)|Lung NSC(126;0.0014)|all_lung(126;0.0025)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCCATACCTTGGCCTGCTCCC	0.607													54	94					0	0	0.01441	0	0		A	176894259	A	A	176894259	2	1	118	1	0	0	0	0	0	0	0	1	4255	1335	47	4		4	DBN1	5	176894259	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	579706	176894259	4021001	69	66377											
NUP153	9972	broad.mit.edu	37	chr6	17629625	17629625	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccagaatcggatgacacAcctattttgaatcctccctg	11	10	7	13	1	0	3	0	2	0	1	3	5	2	4	4	1	0	0	4	1	3	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:17629625A>C	uc003ncd.1	-	18	3005	c.2805T>G	c.(2803-2805)GGT>GGG	p.G935G	NUP153_uc011dje.1_Silent_p.G966G|NUP153_uc010jpl.1_Silent_p.G893G	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	935					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			CGGATGACACACCTATTTTGA	0.378													28	39					0	0	0.00632	0	0		C	17629625	C	C	17629625	2	2	118	1	0	0	0	0	0	0	0	1	10774	146	6	5		5	NUP153	6	17629625	Silent	SNP	A	TCGA-CD-8531-01A-11D-2340-08		17629625	153485442	70	66378											
HIST1H1C	3006	broad.mit.edu	37	chr6	26056223	26056223	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcgctcttcttcggagttGcgccgccagccgccttcttg	3	12	11	15	5	3	0	0	0	3	0	4	1	3	1	4	1	3	2	4	1	1	6	rs141266449		TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:26056223G>C	uc003nfw.2	-	1	477	c.434C>G	c.(433-435)GCA>GGA	p.A145G		NM_005319	NP_005310	P16403	H12_HUMAN	histone cluster 1, H1c	145					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)|skin(2)	5						CTTCGGAGTTGCGCCGCCAGC	0.582													53	45					0	0	0.01441	0	0		C	26056223	C	C	26056223	3	2	118	1	0	0	0	0	1	0	0	0	7140	1319	46	5	211	5	HIST1H1C	6	26056223	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	8426598	26056223	145058844	71	66379			1	28		3	3	102	N	TGCCTTCTTGT_T_G	3.587727e-07
HIST1H1C	3006	broad.mit.edu	37	chr6	26056250	26056250	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagccgccttcttgggcttcTtggctgccccaactggcttc	3	12	10	16	1	2	0	0	0	2	0	3	0	2	0	4	3	3	3	4	3	1	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:26056250T>A	uc003nfw.2	-	1	450	c.407A>T	c.(406-408)AAG>ATG	p.K136M		NM_005319	NP_005310	P16403	H12_HUMAN	histone cluster 1, H1c	136					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)|skin(2)	5						CTTGGGCTTCTTGGCTGCCCC	0.567													33	57					0	0	0.012213	0	0		A	26056250	A	A	26056250	3	1	118	1	0	0	0	0	1	0	0	0	7140	1609	56	5	238	5	HIST1H1C	6	26056250	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	27	26056250	145058817	72	66380			1	28		3	3	102	N	TGCCTTCTTGT_T_G	3.587727e-07
HIST1H1C	3006	broad.mit.edu	37	chr6	26056324	26056334	+	Frame_Shift_Del	DEL	TGCCTTCTTGT	-	-																															ggcttggcttccccggaggcTgccttcttgttgagtttaaa																								rs141268909	byFrequency	TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:26056324_26056334delTGCCTTCTTGT	uc003nfw.2	-	1	366_376	c.323_333delACAAGAAGGCA	c.(322-333)AACAAGAAGGCAfs	p.N108fs		NM_005319	NP_005310	P16403	H12_HUMAN	histone cluster 1, H1c	108_111					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)|skin(2)	5						CCCCGGAGGCTGCCTTCTTGTTGAGTTTAAA	0.559													30	63	---	---	---	---						.	-	26056334	-	-	26056324	7	5	118	1	0	1	0	1	0	0	0	0	7140	1567	55	0	312	0	HIST1H1C	6	26056324	Frame_Shift_Del	DEL	TGCCTTCTTGT	TCGA-CD-8531-01A-11D-2340-08	74	26056324	145058743	73	66381			1	28		3	3	102	N	TGCCTTCTTGT_T_G	3.587727e-07
HIST1H2BK	85236	broad.mit.edu	37	chr6	27114211	27114211	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagtttacttagcgctggTgtacttggtgacggccttgg	6	13	14	8	2	0	1	0	1	0	0	0	1	0	1	1	4	3	4	1	4	4	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:27114211T>C	uc003nix.1	-	1	409	c.367A>G	c.(367-369)ACC>GCC	p.T123A	HIST1H2AH_uc003niz.2_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080593	NP_542160	O60814	H2B1K_HUMAN	histone cluster 1, H2bk	123					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						TTAGCGCTGGTGTACTTGGTG	0.547													7	55					0	0	0.014323	0	0		C	27114211	C	C	27114211	3	2	118	1	0	0	0	0	1	0	0	0	7166	1696	59	3	17	3	HIST1H2BK	6	27114211	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	1057887	27114211	144000856	74	66382											
HIST1H2BK	85236	broad.mit.edu	37	chr6	27114498	27114498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggctgcgcttgcgcttcttgCcgtccttcttctgcgcctta	1	15	10	15	4	3	0	0	0	3	0	4	0	4	0	3	1	4	3	3	1	1	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:27114498C>T	uc003nix.1	-	1	122	c.80G>A	c.(79-81)GGC>GAC	p.G27D	HIST1H2AH_uc003niz.2_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080593	NP_542160	O60814	H2B1K_HUMAN	histone cluster 1, H2bk	27					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						GCGCTTCTTGCCGTCCTTCTT	0.602													56	129					0	0	0.01441	0	0		T	27114498	T	T	27114498	3	4	118	1	0	0	0	0	1	0	0	0	7166	739	26	2	304	2	HIST1H2BK	6	27114498	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	287	27114498	144000569	75	66383											
HIST1H2AJ	8331	broad.mit.edu	37	chr6	27782505	27782505	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagctttgcctccctgcttaCcacgcccagacatggcaaaa	10	8	8	15	1	0	1	0	0	0	1	1	2	1	1	4	1	4	3	4	1	3	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:27782505C>A	uc003njn.1	-	1	14	c.14G>T	c.(13-15)GGT>GTT	p.G5V	HIST1H2BM_uc003njo.2_5'Flank	NM_021066	NP_066544	Q99878	H2A1J_HUMAN	histone cluster 1, H2aj	5					nucleosome assembly	nucleosome|nucleus	DNA binding				0						TCCCTGCTTACCACGCCCAGA	0.537													17	44					0.000958276	0.000970106	0.007413	1	0		A	27782505	A	A	27782505	3	1	118	1	0	0	0	0	1	0	0	0	7152	507	18	5	376	5	HIST1H2AJ	6	27782505	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	668007	27782505	143332562	76	66384											
OR2J2	26707	broad.mit.edu	37	chr6	29142227	29142227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaaaattctcctgatcaggGcaagttcattgccctctttt	10	14	7	10	0	4	2	2	1	2	1	5	2	4	2	2	1	1	2	2	1	3	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:29142227G>A	uc011dlm.1	+	1	917	c.815G>A	c.(814-816)GGC>GAC	p.G272D		NM_030905	NP_112167	O76002	OR2J2_HUMAN	olfactory receptor, family 2, subfamily J,	272	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCTGATCAGGGCAAGTTCATT	0.428													36	58					0	0	0.015359	0	0		A	29142227	A	A	29142227	3	1	118	1	0	0	0	0	1	0	0	0	11022	1203	42	2	817	2	OR2J2	6	29142227	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	1359722	29142227	141972840	77	66385											
HLA-B	3106	broad.mit.edu	37	chr6	31324659	31324659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actgggtgtcgtccacgtagCccactgagatgaagcggggc	8	7	15	11	3	0	2	0	2	0	1	2	3	1	2	2	3	2	1	2	3	2	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:31324659C>T	uc003nth.2	-	2	203	c.149G>A	c.(148-150)GGC>GAC	p.G50D	HLA-C_uc003ntb.2_5'Flank|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_5'Flank|HLA-B_uc011dnk.1_5'Flank|HLA-B_uc003ntf.2_Missense_Mutation_p.G50D|HLA-B_uc003ntg.1_5'Flank|HLA-B_uc003nti.1_5'Flank|HLA-B_uc010jsn.1_5'Flank|HLA-B_uc010jso.2_Missense_Mutation_p.G22D	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B	50	Alpha-1.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						GTCCACGTAGCCCACTGAGAT	0.677									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				17	2					0	0	0.006122	0	0		T	31324659	T	T	31324659	3	4	118	1	0	0	0	0	1	0	0	0	7212	739	26	2	963	2	HLA-B	6	31324659	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	2182432	31324659	139790408	78	66386											
RDBP	7936	broad.mit.edu	37	chr6	31922644	31922644	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tccatctggtcctagttctcGaagtcgatcactagaagaca	11	11	8	11	2	3	2	1	0	2	2	7	4	5	2	2	1	0	1	2	1	4	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:31922644G>C	uc003nyk.2	-	7	634	c.430C>G	c.(430-432)CGA>GGA	p.R144G	RDBP_uc011dot.1_Intron|RDBP_uc003nyl.1_Missense_Mutation_p.R84G|RDBP_uc003nym.1_Missense_Mutation_p.R139G	NM_002904	NP_002895	P18615	NELFE_HUMAN	RD RNA-binding protein	144					positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	mitochondrion|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						CCTAGTTCTCGAAGTCGATCA	0.547													47	58					0	0	0.01441	0	0		C	31922644	C	C	31922644	3	2	118	1	0	0	0	0	1	0	0	0	13213	1066	37	5	732	5	RDBP	6	31922644	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	597985	31922644	139192423	79	66387											
SYNGAP1	8831	broad.mit.edu	37	chr6	33411705	33411705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggggcagcggtggcggagggGgtggggggctgaagccctcc	4	4	24	9	2	0	1	0	1	0	0	1	2	1	2	2	10	2	2	2	10	1	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:33411705G>A	uc011dri.1	+	15	3571	c.3376G>A	c.(3376-3378)GGT>AGT	p.G1126S	SYNGAP1_uc010juy.2_Missense_Mutation_p.G1097S|SYNGAP1_uc010juz.2_Missense_Mutation_p.G838S	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	1126					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						TGGCGGAGGGGGTGGGGGGCT	0.682													8	6					0	0	0.00308	0	0		A	33411705	A	A	33411705	3	1	118	1	0	0	0	0	1	0	0	0	15472	1232	43	4	3434	4	SYNGAP1	6	33411705	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	1489061	33411705	137703362	80	66388											
LHFPL5	222662	broad.mit.edu	37	chr6	35773520	35773520	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgcggaactcgcgagccGtgggcgtgatgtggggtacc	6	8	18	9	5	0	1	0	1	0	0	1	3	0	2	2	4	4	1	2	4	2	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:35773520G>C	uc003olg.1	+	1	450	c.73G>C	c.(73-75)GTG>CTG	p.V25L		NM_182548	NP_872354	Q8TAF8	TMHS_HUMAN	lipoma HMGIC fusion partner-like 5	25	Helical; (Potential).					integral to membrane				skin(1)	1						CTCGCGAGCCGTGGGCGTGAT	0.617													39	51					0	0	0.005524	0	0		C	35773520	C	C	35773520	3	2	118	1	0	0	0	0	1	0	0	0	8784	1145	40	5	75	5	LHFPL5	6	35773520	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	2361815	35773520	135341547	81	66389											
RNF8	9025	broad.mit.edu	37	chr6	37344811	37344811	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagaatacttcattgaggTaattatgaacagttgctcac	13	14	7	7	0	3	3	3	2	0	1	3	3	3	3	0	1	3	3	0	1	5	7			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:37344811T>G	uc003onq.3	+	6	1429	c.1236_splice	c.e6+2	p.E412_splice	RNF8_uc003onr.3_Splice_Site_p.E412_splice|RNF8_uc011dtx.1_Splice_Site_p.E344_splice	NM_003958	NP_003949	O76064	RNF8_HUMAN	ring finger protein 8 isoform 1						cell division|double-strand break repair|histone H2A ubiquitination|histone H2B ubiquitination|mitosis|positive regulation of DNA repair|response to ionizing radiation	midbody|nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1						TTCATTGAGGTAATTATGAAC	0.249													7	18					0	0	0.006214	0	0		G	37344811	G	G	37344811	5	3	118	1	0	0	0	0	0	0	1	0	13525	1652	57	5	1260	5	RNF8	6	37344811	Splice_Site	SNP	T	TCGA-CD-8531-01A-11D-2340-08	1571291	37344811	133770256	82	66390											
KLC4	89953	broad.mit.edu	37	chr6	43029177	43029177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcagccaagggctagaggCcctacgcagtgaacaccagg	11	4	14	12	1	1	2	1	1	0	1	1	2	1	2	3	4	3	2	3	4	4	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:43029177C>T	uc003otv.1	+	2	181	c.104C>T	c.(103-105)GCC>GTC	p.A35V	KLC4_uc003otr.1_RNA|MRPL2_uc003ots.1_5'Flank|MRPL2_uc011dvc.1_5'Flank|MRPL2_uc010jyi.2_5'Flank|MRPL2_uc003ott.3_5'Flank|KLC4_uc011dvd.1_Missense_Mutation_p.A35V|KLC4_uc003otu.2_Missense_Mutation_p.A35V|KLC4_uc003otw.1_Missense_Mutation_p.A53V|KLC4_uc003otx.1_Missense_Mutation_p.A35V|KLC4_uc003oty.1_Missense_Mutation_p.A35V|KLC4_uc003otz.1_Missense_Mutation_p.A35V	NM_201521	NP_958929	Q9NSK0	KLC4_HUMAN	kinesin-like 8 isoform a	35	Potential.					cytoplasm|kinesin complex|microtubule	microtubule motor activity|protein binding			skin(3)|ovary(1)	4			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)			GGGCTAGAGGCCCTACGCAGT	0.642													15	18					0	0	0.020292	0	0		T	43029177	T	T	43029177	3	4	118	1	0	0	0	0	1	0	0	0	8352	739	26	2	164	2	KLC4	6	43029177	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	5684366	43029177	128085890	83	66391											
PRSS35	167681	broad.mit.edu	37	chr6	84234217	84234217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggttcgggggtctatctgCgtctgaaagatccagacaaa	10	9	12	10	3	3	3	0	1	3	2	5	3	4	3	2	3	1	1	2	3	3	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:84234217C>T	uc003pjz.2	+	2	1220	c.1057C>T	c.(1057-1059)CGT>TGT	p.R353C	PRSS35_uc010kbm.2_Missense_Mutation_p.R353C	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	353	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		GGTCTATCTGCGTCTGAAAGA	0.512													19	45					0	0	0.007413	0	0		T	84234217	T	T	84234217	3	4	118	1	0	0	0	0	1	0	0	0	12646	768	27	1	1059	1	PRSS35	6	84234217	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	41205040	84234217	86880850	84	66392											
HECA	51696	broad.mit.edu	37	chr6	139488008	139488008	+	Frame_Shift_Del	DEL	G	-	-																															tctctcctgcccacttcagcGgcccccgctcctccagatac																										TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:139488008delG	uc003qin.2	+	2	1144	c.859delG	c.(859-861)GGCfs	p.G287fs		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	287					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		CCACTTCAGCGGCCCCCGCTC	0.652													10	21	---	---	---	---						.	-	139488008	-	-	139488008	7	5	118	1	0	1	0	1	0	0	0	0	7054	1116	39	0	865	0	HECA	6	139488008	Frame_Shift_Del	DEL	G	TCGA-CD-8531-01A-11D-2340-08	55253791	139488008	31627059	85	66393											
HECA	51696	broad.mit.edu	37	chr6	139488378	139488378	+	Frame_Shift_Del	DEL	A	-	-																															ggcgctcccggtgttcgaacAgttcccactggtggatggaa																										TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:139488378delA	uc003qin.2	+	2	1514	c.1229delA	c.(1228-1230)CAGfs	p.Q410fs		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	410					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		GTGTTCGAACAGTTCCCACTG	0.527													16	30	---	---	---	---						.	-	139488378	-	-	139488378	7	5	118	1	0	1	0	1	0	0	0	0	7054	188	7	0	1235	0	HECA	6	139488378	Frame_Shift_Del	DEL	A	TCGA-CD-8531-01A-11D-2340-08	370	139488378	31626689	86	66394											
TIAM2	26230	broad.mit.edu	37	chr6	155451015	155451015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccaggagggggtccagcGccgattccctgcccagccat	8	5	13	15	2	0	0	0	0	0	0	2	2	2	1	6	3	4	0	6	3	1	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:155451015G>A	uc003qqb.2	+	6	1931	c.658G>A	c.(658-660)GCC>ACC	p.A220T	TIAM2_uc003qqe.2_Missense_Mutation_p.A220T	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	220					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		GGGGTCCAGCGCCGATTCCCT	0.642													23	35					0	0	0.014323	0	0		A	155451015	A	A	155451015	3	1	118	1	0	0	0	0	1	0	0	0	15916	1087	38	1	660	1	TIAM2	6	155451015	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	15962637	155451015	15664052	87	66395											
CCR6	1235	broad.mit.edu	37	chr6	167550723	167550723	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagatcttgaaggacctgtgGtgtgtgagaaggaagtacaa	14	9	14	4	0	1	3	0	2	1	2	1	6	1	5	1	3	1	1	1	3	6	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr6:167550723G>A	uc003qvl.2	+	13	3481	c.1005G>A	c.(1003-1005)TGG>TGA	p.W335*	CCR6_uc010kkm.2_Nonsense_Mutation_p.W335*|CCR6_uc003qvn.3_Nonsense_Mutation_p.W335*|CCR6_uc003qvm.3_Nonsense_Mutation_p.W335*	NM_031409	NP_113597	P51684	CCR6_HUMAN	chemokine (C-C motif) receptor 6	335	Cytoplasmic (Potential).				cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|humoral immune response	integral to plasma membrane	C-C chemokine receptor activity			ovary(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;8.21e-20)|BRCA - Breast invasive adenocarcinoma(81;4.55e-06)|GBM - Glioblastoma multiforme(31;0.00507)		AGGACCTGTGGTGTGTGAGAA	0.498													24	38					0	0	0.014323	0	0		A	167550723	A	A	167550723	4	1	118	1	0	0	0	0	0	1	0	0	2948	1270	44	4	1011	4	CCR6	6	167550723	Nonsense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	12099708	167550723	3564344	88	66396											
MAD1L1	8379	broad.mit.edu	37	chr7	1937852	1937852	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccttgaagatgaggcagTcgcctgggtgctcggcgtac	7	8	14	12	3	0	3	0	2	0	1	2	3	0	3	3	3	2	3	3	3	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:1937852T>C	uc003slh.1	-	18	2248	c.1982A>G	c.(1981-1983)GAC>GGC	p.D661G	MAD1L1_uc003sle.1_Missense_Mutation_p.D390G|MAD1L1_uc003slf.1_Missense_Mutation_p.D661G|MAD1L1_uc003slg.1_Missense_Mutation_p.D661G|MAD1L1_uc010ksh.1_Missense_Mutation_p.D661G|MAD1L1_uc003sli.1_Missense_Mutation_p.D569G|MAD1L1_uc010ksi.1_Missense_Mutation_p.D614G|MAD1L1_uc010ksj.2_Missense_Mutation_p.D661G|MAD1L1_uc003sld.1_Missense_Mutation_p.D117G	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	661					cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		GATGAGGCAGTCGCCTGGGTG	0.627													6	11					0	0	0.001984	0	0		C	1937852	C	C	1937852	3	2	118	1	0	0	0	0	1	0	0	0	9165	1667	58	3	182	3	MAD1L1	7	1937852	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08		1937852	157200811	89	66397											
BBS9	27241	broad.mit.edu	37	chr7	33217127	33217127	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaacatgggaaccaatgtcaGatgaaattgatgtatgaaca	17	9	10	5	0	1	4	1	3	0	1	1	6	1	5	1	1	3	1	1	1	6	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:33217127G>C	uc003tdn.1	+	5	879	c.366G>C	c.(364-366)CAG>CAC	p.Q122H	BBS9_uc003tdo.1_Missense_Mutation_p.Q122H|BBS9_uc003tdp.1_Missense_Mutation_p.Q122H|BBS9_uc003tdq.1_Missense_Mutation_p.Q122H|BBS9_uc010kwn.1_RNA|BBS9_uc011kan.1_Missense_Mutation_p.Q122H|BBS9_uc011kao.1_5'UTR	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	122					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			ACCAATGTCAGATGAAATTGA	0.323									Bardet-Biedl_syndrome				25	52					0	0	0.00632	0	0		C	33217127	C	C	33217127	3	2	118	1	0	0	0	0	1	0	0	0	1343	933	33	5	380	5	BBS9	7	33217127	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	31279275	33217127	125921536	90	66398											
DDC	1644	broad.mit.edu	37	chr7	50566911	50566911	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcctgcgtaggctgcatCaacgtgcagccatatgtctt	8	11	10	12	2	2	0	1	0	1	0	2	0	2	0	2	1	6	4	2	1	3	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:50566911C>A	uc003tpf.3	-	8	897	c.811G>T	c.(811-813)GAT>TAT	p.D271Y	DDC_uc010kza.2_Missense_Mutation_p.D186Y|DDC_uc003tpg.3_Missense_Mutation_p.D271Y	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	271					cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	TAGGCTGCATCAACGTGCAGC	0.552													11	13					3.86212e-05	3.9219e-05	0.008291	1	0		A	50566911	A	A	50566911	3	1	118	1	0	0	0	0	1	0	0	0	4328	826	29	5	659	5	DDC	7	50566911	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	17349784	50566911	108571752	91	66399											
SEMA3C	10512	broad.mit.edu	37	chr7	80418653	80418653	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaggacatggtatctcccAtcagcagcgttcactcgatc	11	9	8	13	2	3	0	2	0	1	0	6	2	3	1	1	2	3	3	1	2	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:80418653A>G	uc003uhj.2	-	12	1885	c.1323T>C	c.(1321-1323)GAT>GAC	p.D441D	SEMA3C_uc011kgw.1_Silent_p.D459D	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	441	Sema.				immune response|response to drug	membrane	receptor activity			ovary(1)	1						GGTATCTCCCATCAGCAGCGT	0.393													33	70					0	0	0.019004	0	0		G	80418653	G	G	80418653	2	3	118	1	0	0	0	0	0	0	0	1	14051	214	8	3		3	SEMA3C	7	80418653	Silent	SNP	A	TCGA-CD-8531-01A-11D-2340-08	29851742	80418653	78720010	92	66400											
PPP1R9A	55607	broad.mit.edu	37	chr7	94539579	94539579	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaagaaggtgagggctccCagcagagcagggggaggaaa	15	2	17	7	0	0	3	0	1	0	2	1	5	1	5	1	5	2	3	1	5	4	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:94539579C>T	uc003unp.2	+	2	436	c.154C>T	c.(154-156)CAG>TAG	p.Q52*	PPP1R9A_uc010lfj.2_Nonsense_Mutation_p.Q52*|PPP1R9A_uc011kif.1_Nonsense_Mutation_p.Q52*|PPP1R9A_uc003unq.2_Nonsense_Mutation_p.Q52*|PPP1R9A_uc011kig.1_Nonsense_Mutation_p.Q52*	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	52	Actin-binding.					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			TGAGGGCTCCCAGCAGAGCAG	0.448										HNSCC(28;0.073)			13	24					0	0	0.013537	0	0		T	94539579	T	T	94539579	4	4	118	1	0	0	0	0	0	1	0	0	12400	595	21	4	156	4	PPP1R9A	7	94539579	Nonsense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	14120926	94539579	64599084	93	66401											
BAIAP2L1	55971	broad.mit.edu	37	chr7	97991713	97991713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccccaggtttattaaatttCgcagcccaggattgaactgt	10	13	8	10	1	0	1	0	1	0	0	2	2	1	2	3	2	2	2	3	2	4	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:97991713C>T	uc003upj.2	-	2	346	c.83G>A	c.(82-84)CGA>CAA	p.R28Q		NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1	28	IMD.				filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			TATTAAATTTCGCAGCCCAGG	0.299													25	58					0	0	0.00632	0	0		T	97991713	T	T	97991713	3	4	118	1	0	0	0	0	1	0	0	0	1303	884	31	1	1504	1	BAIAP2L1	7	97991713	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	3452134	97991713	61146950	94	66402											
ACHE	43	broad.mit.edu	37	chr7	100491479	100491479	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgttgaggtacaggcagtcCtcgctcagctcacggttggg	7	9	14	11	3	2	1	2	1	0	0	4	1	3	1	1	4	2	6	1	4	1	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:100491479C>A	uc003uxd.2	-	1	531	c.375G>T	c.(373-375)GAG>GAT	p.E125D	ACHE_uc003uxe.2_Missense_Mutation_p.E125D|ACHE_uc003uxf.2_Missense_Mutation_p.E125D|ACHE_uc003uxg.2_Missense_Mutation_p.E125D|ACHE_uc003uxh.2_Missense_Mutation_p.E125D|ACHE_uc003uxi.2_Missense_Mutation_p.E125D|ACHE_uc003uxj.1_Missense_Mutation_p.E244D	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	125					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	ACAGGCAGTCCTCGCTCAGCT	0.582													26	48					4.87955e-14	5.21333e-14	0.005443	1	0		A	100491479	A	A	100491479	3	1	118	1	0	0	0	0	1	0	0	0	141	680	24	5	1620	5	ACHE	7	100491479	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	2499766	100491479	58647184	95	66403											
DOCK4	9732	broad.mit.edu	37	chr7	111430549	111430549	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgcctctgctcccagtcCatcatatcatgaaaaattgg	10	11	6	14	1	3	1	2	1	1	0	6	1	6	1	4	1	1	1	4	1	3	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:111430549C>A	uc003vfx.2	-	31	3548	c.3279G>T	c.(3277-3279)ATG>ATT	p.M1093I	DOCK4_uc011kmm.1_5'Flank|DOCK4_uc003vfw.2_Missense_Mutation_p.M534I|DOCK4_uc003vfy.2_Missense_Mutation_p.M1129I	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1093	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				GCTCCCAGTCCATCATATCAT	0.473													9	22					2.17888e-05	2.21948e-05	0.006214	1	0		A	111430549	A	A	111430549	3	1	118	1	0	0	0	0	1	0	0	0	4695	594	21	5	2709	5	DOCK4	7	111430549	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	10939070	111430549	47708114	96	66404											
PTPRZ1	5803	broad.mit.edu	37	chr7	121653617	121653617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagtcctggtaaatcacCatcagcaaatgggctatccc	13	8	8	12	0	2	1	2	0	0	1	4	1	4	1	3	2	1	3	3	2	5	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:121653617C>T	uc003vjy.2	+	12	4912	c.4517C>T	c.(4516-4518)CCA>CTA	p.P1506L	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1506	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						GGTAAATCACCATCAGCAAAT	0.418													20	33					0	0	0.007413	0	0		T	121653617	T	T	121653617	3	4	118	1	0	0	0	0	1	0	0	0	12839	594	21	4	4563	4	PTPRZ1	7	121653617	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	10223068	121653617	37485046	97	66405											
PTPRZ1	5803	broad.mit.edu	37	chr7	121698906	121698906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcctaaatggccaaatcCagatagccccattagtaaaa	15	9	7	10	0	0	1	0	0	0	1	2	1	2	1	5	1	1	1	5	1	7	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:121698906C>T	uc003vjy.2	+	28	6976	c.6581C>T	c.(6580-6582)CCA>CTA	p.P2194L	PTPRZ1_uc003vjz.2_Missense_Mutation_p.P1327L|PTPRZ1_uc011knt.1_Missense_Mutation_p.P784L	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	2194	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						TGGCCAAATCCAGATAGCCCC	0.363													29	39					0	0	0.007291	0	0		T	121698906	T	T	121698906	3	4	118	1	0	0	0	0	1	0	0	0	12839	594	21	4	6691	4	PTPRZ1	7	121698906	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	45289	121698906	37439757	98	66406											
LMOD2	442721	broad.mit.edu	37	chr7	123296099	123296099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctcgcctccctgtcagccGaggagctgaaggagctagag	8	7	13	13	2	1	2	1	1	0	1	4	5	3	4	4	2	3	2	4	2	2	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:123296099G>A	uc003vky.2	+	1	239	c.82G>A	c.(82-84)GAG>AAG	p.E28K		NM_207163	NP_997046	Q6P5Q4	LMOD2_HUMAN	leiomodin 2 (cardiac)	28	Tropomyosin-binding (By similarity).|Potential.|Glu-rich.					cytoskeleton	actin binding|tropomyosin binding				0						CCTGTCAGCCGAGGAGCTGAA	0.537													6	11					0	0	0.001168	0	0		A	123296099	A	A	123296099	3	1	118	1	0	0	0	0	1	0	0	0	8874	1059	37	1	84	1	LMOD2	7	123296099	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	1597193	123296099	35842564	99	66407											
MKLN1	4289	broad.mit.edu	37	chr7	131151138	131151138	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagaccttcaaaagattattTactgaggcattgcaagtacc	14	12	7	8	0	1	3	1	1	0	2	1	3	1	3	2	1	3	3	2	1	7	7			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:131151138T>G	uc011kpm.1	+	15	1956	c.1892T>G	c.(1891-1893)TTA>TGA	p.L631*	MKLN1_uc011kpl.1_Nonsense_Mutation_p.L608*|MKLN1_uc010lmh.2_Nonsense_Mutation_p.L631*|MKLN1_uc003vqs.2_Nonsense_Mutation_p.L424*|MKLN1_uc003vqu.2_Nonsense_Mutation_p.L121*	NM_013255	NP_037387	Q9UL63	MKLN1_HUMAN	muskelin 1, intracellular mediator containing	631	Kelch 6.				signal transduction	cytoplasm	protein binding			breast(1)	1	Melanoma(18;0.162)					AAAGATTATTTACTGAGGCAT	0.333													33	47					0	0	0.012213	0	0		G	131151138	G	G	131151138	4	3	118	1	0	0	0	0	0	1	0	0	9621	1764	61	5	1983	5	MKLN1	7	131151138	Nonsense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	7855039	131151138	27987525	100	66408											
KEL	3792	broad.mit.edu	37	chr7	142650947	142650947	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tgacatgtttttcaaatattCcacgtcatggaccacgaggg	11	12	9	9	2	2	1	2	1	0	0	3	3	3	2	2	2	0	1	2	2	2	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:142650947C>G	uc003wcb.2	-	9	1231	c.1021G>C	c.(1021-1023)GAA>CAA	p.E341Q		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	341	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					TTCAAATATTCCACGTCATGG	0.537													82	146					0	0	0.01441	0	0		G	142650947	G	G	142650947	3	3	118	1	0	0	0	0	1	0	0	0	8158	864	30	5	1221	5	KEL	7	142650947	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	11499809	142650947	16487716	101	66409											
CNTNAP2	26047	broad.mit.edu	37	chr7	146805422	146805422	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaactgaaaaaagccaagcTggtcctcagtttaaacttag	15	9	9	8	0	1	1	1	1	0	0	2	2	2	2	2	2	4	2	2	2	8	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:146805422T>C	uc003weu.1	+	5	1250	c.734T>C	c.(733-735)CTG>CCG	p.L245P		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	245	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			AAAGCCAAGCTGGTCCTCAGT	0.398										HNSCC(39;0.1)			22	20					0	0	0.012319	0	0		C	146805422	C	C	146805422	3	2	118	1	0	0	0	0	1	0	0	0	3650	1580	55	3	752	3	CNTNAP2	7	146805422	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	4154475	146805422	12333241	102	66410											
ZNF862	643641	broad.mit.edu	37	chr7	149558351	149558351	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggacggatggctcagccaTgttgagctgcagaggaggcc	8	6	18	9	1	1	2	1	1	0	1	1	5	1	5	2	6	3	4	2	6	0	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:149558351T>C	uc010lpn.2	+	7	2294	c.2102T>C	c.(2101-2103)ATG>ACG	p.M701T	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	701					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						GGCTCAGCCATGTTGAGCTGC	0.632													3	21					0	0	0.004672	0	0		C	149558351	C	C	149558351	3	2	118	1	0	0	0	0	1	0	0	0	18220	1464	51	3	2128	3	ZNF862	7	149558351	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	2752929	149558351	9580312	103	66411											
MLL3	58508	broad.mit.edu	37	chr7	151845319	151845319	+	Frame_Shift_Del	DEL	G	-	-																															agaatggaatgcttgcatctGctgtggaagcagctgaccaa																										TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:151845319delG	uc003wla.2	-	52	13912	c.13693delC	c.(13693-13695)CAGfs	p.Q4565fs	MLL3_uc003wkz.2_Frame_Shift_Del_p.Q3683fs|MLL3_uc003wkx.2_Frame_Shift_Del_p.Q723fs|MLL3_uc003wky.2_Frame_Shift_Del_p.Q2129fs	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4565	FYR N-terminal.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GCTTGCATCTGCTGTGGAAGC	0.552			N		medulloblastoma								24	44	---	---	---	---						.	-	151845319	-	-	151845319	7	5	118	1	0	1	0	1	0	0	0	0	9640	1328	46	0	1074	0	MLL3	7	151845319	Frame_Shift_Del	DEL	G	TCGA-CD-8531-01A-11D-2340-08	2286968	151845319	7293344	104	66412											
MLL3	58508	broad.mit.edu	37	chr7	151878910	151878910	+	Frame_Shift_Del	DEL	G	-	-																															tttgaaacacatctgccctaGgagatggtttagtaaagtga																										TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:151878910delG	uc003wla.2	-	36	6254	c.6035delC	c.(6034-6036)CCTfs	p.P2012fs	MLL3_uc003wkz.2_Frame_Shift_Del_p.P1073fs	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2012	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ATCTGCCCTAGGAGATGGTTT	0.473			N		medulloblastoma								70	99	---	---	---	---						.	-	151878910	-	-	151878910	7	5	118	1	0	1	0	1	0	0	0	0	9640	1000	35	0	8796	0	MLL3	7	151878910	Frame_Shift_Del	DEL	G	TCGA-CD-8531-01A-11D-2340-08	33591	151878910	7259753	105	66413											
MLL3	58508	broad.mit.edu	37	chr7	151893050	151893050	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccaagaatgtcatcatcTgtgtttaaaacttcagaaat	15	14	5	7	0	4	2	3	0	1	2	5	2	5	2	1	0	1	1	1	0	5	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr7:151893050T>C	uc003wla.2	-	28	4539	c.4320A>G	c.(4318-4320)ACA>ACG	p.T1440T	MLL3_uc003wkz.2_Silent_p.T501T	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1440					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TGTCATCATCTGTGTTTAAAA	0.299			N		medulloblastoma								22	22					0	0	0.021523	0	0		C	151893050	C	C	151893050	2	2	118	1	0	0	0	0	0	0	0	1	9640	1567	55	3		3	MLL3	7	151893050	Silent	SNP	T	TCGA-CD-8531-01A-11D-2340-08	14140	151893050	7245613	106	66414											
NRG1	3084	broad.mit.edu	37	chr8	32621289	32621289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtcagccatgaccacccCggctcgtatgtcacctgtag	7	10	10	14	2	2	1	2	1	0	0	3	1	2	1	5	1	1	3	5	1	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr8:32621289C>T	uc003xiv.2	+	12	1809	c.1292C>T	c.(1291-1293)CCG>CTG	p.P431L	NRG1_uc010lvo.2_3'UTR|NRG1_uc003xiu.2_Missense_Mutation_p.P436L|NRG1_uc003xiw.2_Missense_Mutation_p.P428L|NRG1_uc003xit.2_3'UTR|NRG1_uc010lvr.2_Missense_Mutation_p.P173L|NRG1_uc010lvs.2_Missense_Mutation_p.P173L|NRG1_uc010lvp.2_Missense_Mutation_p.P385L|NRG1_uc010lvq.2_Missense_Mutation_p.P368L|NRG1_uc011lbg.1_3'UTR|NRG1_uc011lbh.1_Missense_Mutation_p.P274L|NRG1_uc003xja.2_Missense_Mutation_p.P242L	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	431	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		ATGACCACCCCGGCTCGTATG	0.547													35	53					0	0	0.013726	0	0		T	32621289	T	T	32621289	3	4	118	1	0	0	0	0	1	0	0	0	10666	652	23	1	3063	1	NRG1	8	32621289	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08		32621289	113742733	107	66415											
UNC5D	137970	broad.mit.edu	37	chr8	35453072	35453072	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctcatgcttctttgcagAtttacggaaaaactttgaac	12	15	6	8	1	2	2	1	1	2	1	3	3	2	3	0	1	5	2	0	1	5	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr8:35453072A>C	uc003xjr.1	+	4	795	c.467A>C	c.(466-468)TAT>TCT	p.Y156S	UNC5D_uc003xjs.1_Missense_Mutation_p.Y151S	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	156	Extracellular (Potential).|Ig-like C2-type.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		TTCTTTGCAGATTTACGGAAA	0.433													32	52					0	0	0.010818	0	0		C	35453072	C	C	35453072	3	2	118	1	0	0	0	0	1	0	0	0	17021	347	12	5	481	5	UNC5D	8	35453072	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	2831783	35453072	110910950	108	66416											
GPR124	25960	broad.mit.edu	37	chr8	37688342	37688342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacctgggcaacgacacccGcatccgctggtaccacaacc	10	5	8	18	3	0	0	0	0	0	0	1	1	1	0	5	2	4	4	5	2	4	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr8:37688342G>A	uc003xkj.2	+	7	1196	c.833G>A	c.(832-834)CGC>CAC	p.R278H	GPR124_uc010lvy.2_Missense_Mutation_p.R278H	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	278	Extracellular (Potential).|Ig-like.				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			AACGACACCCGCATCCGCTGG	0.642													3	1					0	0	0.004672	0	0		A	37688342	A	A	37688342	3	1	118	1	0	0	0	0	1	0	0	0	6653	1087	38	1	838	1	GPR124	8	37688342	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	2235270	37688342	108675680	109	66417											
LYN	4067	broad.mit.edu	37	chr8	56912001	56912001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagttccctattaagtggaCggctccagaagcaatcaact	13	10	8	10	1	1	1	1	0	0	1	3	2	3	2	2	2	2	3	2	2	6	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr8:56912001C>T	uc003xsk.3	+	12	1511	c.1229C>T	c.(1228-1230)ACG>ATG	p.T410M	LYN_uc003xsl.3_Missense_Mutation_p.T389M	NM_002350	NP_002341	P07948	LYN_HUMAN	Yamaguchi sarcoma viral (v-yes-1) oncogene	410	Protein kinase.				erythrocyte differentiation|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of cellular component movement|positive regulation of stress-activated protein kinase signaling cascade|positive regulation of tyrosine phosphorylation of STAT protein|response to DNA damage stimulus|T cell costimulation	cytosol|Golgi apparatus|membrane raft|nucleus|perinuclear region of cytoplasm	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|receptor signaling protein tyrosine kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_lung(136;0.0555)|Lung NSC(129;0.0726)|all_epithelial(80;0.0772)	Epithelial(17;0.000834)|all cancers(17;0.00598)			ATTAAGTGGACGGCTCCAGAA	0.393													26	9					0	0	0.004656	0	0		T	56912001	T	T	56912001	3	4	118	1	0	0	0	0	1	0	0	0	9125	536	19	1	1271	1	LYN	8	56912001	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	19223659	56912001	89452021	110	66418											
TRPA1	8989	broad.mit.edu	37	chr8	72950287	72950287	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaacactaaaatcatacaAgtttttattagatatgaatt	20	14	3	4	0	1	2	1	1	0	1	1	2	1	2	0	0	2	1	0	0	10	8			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr8:72950287A>T	uc003xza.2	-	20	2491	c.2316T>A	c.(2314-2316)ACT>ACA	p.T772T	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	772	Extracellular (Potential).					integral to plasma membrane		p.T772T(1)		ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AAATCATACAAGTTTTTATTA	0.259													8	15					0	0	0.004482	0	0		T	72950287	T	T	72950287	2	4	118	1	0	0	0	0	0	0	0	1	16603	59	3	5		5	TRPA1	8	72950287	Silent	SNP	A	TCGA-CD-8531-01A-11D-2340-08	16038286	72950287	73413735	111	66419											
NECAB1	64168	broad.mit.edu	37	chr8	91929744	91929744	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accaagaagcctccaatttgGaacaattcgtaactagattt	15	11	6	9	1	0	2	0	0	0	2	2	3	1	3	3	1	3	1	3	1	7	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr8:91929744G>T	uc011lgg.1	+	6	576	c.382G>T	c.(382-384)GAA>TAA	p.E128*		NM_022351	NP_071746	Q8N987	NECA1_HUMAN	N-terminal EF-hand calcium binding protein 1	128					antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity			central_nervous_system(1)	1			BRCA - Breast invasive adenocarcinoma(11;0.0499)			CTCCAATTTGGAACAATTCGT	0.378													12	19					7.03913e-09	7.35297e-09	0.013537	1	0		T	91929744	T	T	91929744	4	4	118	1	0	0	0	0	0	1	0	0	10323	1175	41	5	404	5	NECAB1	8	91929744	Nonsense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	18979457	91929744	54434278	112	66420											
YWHAZ	7534	broad.mit.edu	37	chr8	101936211	101936211	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtctctcagtaattgcattAttagcgtgctgtctttgtat	7	19	8	7	1	3	0	1	0	2	0	4	0	3	0	0	0	3	4	0	0	4	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr8:101936211A>C	uc011lhe.1	-	5	827	c.650T>G	c.(649-651)ATA>AGA	p.I217R	YWHAZ_uc003yjv.2_Missense_Mutation_p.I217R|YWHAZ_uc011lhf.1_Missense_Mutation_p.I217R|YWHAZ_uc003yjw.2_Missense_Mutation_p.I217R|YWHAZ_uc010mbq.2_Missense_Mutation_p.I140R|YWHAZ_uc011lhg.1_Missense_Mutation_p.I97R|YWHAZ_uc010mbr.2_Missense_Mutation_p.I217R|YWHAZ_uc003yjx.2_Missense_Mutation_p.I217R|YWHAZ_uc003yjy.2_Missense_Mutation_p.I217R	NM_001135702	NP_001129174	P63104	1433Z_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	217					anti-apoptosis|mRNA metabolic process|platelet activation|signal transduction	cytosol|melanosome	transcription factor binding				0	all_cancers(14;7.43e-06)|all_epithelial(15;2.77e-08)|Lung NSC(17;6.08e-05)|all_lung(17;0.000197)		Epithelial(11;2.79e-11)|all cancers(13;5.45e-09)|OV - Ovarian serous cystadenocarcinoma(57;4.75e-05)		Ginkgo biloba(DB01381)	TAATTGCATTATTAGCGTGCT	0.333													39	59					0	0	0.009718	0	0		C	101936211	C	C	101936211	3	2	118	1	0	0	0	0	1	0	0	0	17532	449	16	5	95	5	YWHAZ	8	101936211	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	10006467	101936211	44427811	113	66421											
LRP12	29967	broad.mit.edu	37	chr8	105503072	105503072	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggttgtctaagcccttgTccttgatctgaggcaagatc	8	14	10	9	0	2	3	0	2	2	1	4	3	3	3	2	2	1	2	2	2	3	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr8:105503072T>C	uc003yma.2	-	7	2504	c.2409A>G	c.(2407-2409)GGA>GGG	p.G803G	LRP12_uc003ymb.2_Silent_p.G784G|LRP12_uc003ylz.2_Silent_p.G209G	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	803	Cytoplasmic (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			TAAGCCCTTGTCCTTGATCTG	0.448													37	50					0	0	0.019004	0	0		C	105503072	C	C	105503072	2	2	118	1	0	0	0	0	0	0	0	1	8972	1654	58	3		3	LRP12	8	105503072	Silent	SNP	T	TCGA-CD-8531-01A-11D-2340-08	3566861	105503072	40860950	114	66422											
RSPO2	340419	broad.mit.edu	37	chr8	109001352	109001352	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggcaggaatgcaggcactctCcatactggcgcatcccttct	8	9	10	14	1	2	0	0	0	2	0	4	1	3	1	2	4	2	4	2	4	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr8:109001352C>G	uc003yms.2	-	3	873	c.215G>C	c.(214-216)GGA>GCA	p.G72A	RSPO2_uc003ymq.2_Missense_Mutation_p.G5A|RSPO2_uc003ymr.2_Intron	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	72					Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			CAGGCACTCTCCATACTGGCG	0.478													14	24					0	0	0.016723	0	0		G	109001352	G	G	109001352	3	3	118	1	0	0	0	0	1	0	0	0	13735	855	30	5	532	5	RSPO2	8	109001352	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	3498280	109001352	37362670	115	66423											
CSMD3	114788	broad.mit.edu	37	chr8	113694863	113694863	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggcattcattatgtccaaAtgctttagaataatatgcaa	15	13	7	6	0	1	1	1	0	0	1	2	1	2	1	1	1	2	3	1	1	7	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr8:113694863A>G	uc003ynu.2	-	16	2644	c.2485T>C	c.(2485-2487)TTT>CTT	p.F829L	CSMD3_uc003yns.2_Missense_Mutation_p.F101L|CSMD3_uc003ynt.2_Missense_Mutation_p.F789L|CSMD3_uc011lhx.1_Missense_Mutation_p.F725L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	829	Extracellular (Potential).|CUB 4.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TTATGTCCAAATGCTTTAGAA	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			28	44					0	0	0.005443	0	0		G	113694863	G	G	113694863	3	3	118	1	0	0	0	0	1	0	0	0	3949	101	4	3	8862	3	CSMD3	8	113694863	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	4693511	113694863	32669159	116	66424											
FLJ43860	389690	broad.mit.edu	37	chr8	142506543	142506543	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgtccctgcgggcagagtCctggtgtaccttcatgcaag	6	11	12	12	1	2	1	1	0	1	1	4	1	4	1	3	2	3	3	3	2	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr8:142506543C>A	uc003ywi.2	-	2	220	c.139G>T	c.(139-141)GAC>TAC	p.D47Y	FLJ43860_uc011ljs.1_5'Flank|FLJ43860_uc010meu.1_5'Flank	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	47							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CGGGCAGAGTCCTGGTGTACC	0.577													13	22					1.05317e-09	1.10718e-09	0.020292	1	0		A	142506543	A	A	142506543	3	1	118	1	0	0	0	0	1	0	0	0	5944	855	30	5	3933	5	FLJ43860	8	142506543	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	28811680	142506543	3857479	117	66425											
FRMPD1	22844	broad.mit.edu	37	chr9	37745995	37745995	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggttttgcaggcatgaaTgagatggtggctcccaggat	8	12	15	6	0	0	2	0	2	0	1	1	4	1	3	1	5	1	4	1	5	1	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr9:37745995T>G	uc004aag.1	+	16	4010	c.3966T>G	c.(3964-3966)AAT>AAG	p.N1322K	FRMPD1_uc004aah.1_Missense_Mutation_p.N1322K	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1322						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		CAGGCATGAATGAGATGGTGG	0.537													37	57					0	0	0.019004	0	0		G	37745995	G	G	37745995	3	3	118	1	0	0	0	0	1	0	0	0	6071	1461	51	5	4024	5	FRMPD1	9	37745995	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08		37745995	103467436	118	66426											
ALDH1B1	219	broad.mit.edu	37	chr9	38397141	38397141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacccaggcactccaggccGggaccgtgtgggtaaacacc	9	5	12	15	2	1	0	1	0	0	0	2	1	2	1	5	4	1	2	5	4	2	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr9:38397141G>A	uc004aay.2	+	2	1508	c.1396G>A	c.(1396-1398)GGG>AGG	p.G466R		NM_000692	NP_000683	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1B1 precursor	466					carbohydrate metabolic process	mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity			skin(1)	1				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)	NADH(DB00157)	ACTCCAGGCCGGGACCGTGTG	0.592													17	22					0	0	0.006122	0	0		A	38397141	A	A	38397141	3	1	118	1	0	0	0	0	1	0	0	0	493	1116	39	1	1398	1	ALDH1B1	9	38397141	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	651146	38397141	102816290	119	66427											
SEMA4D	10507	broad.mit.edu	37	chr9	91996119	91996119	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcggtctggtgcagagccAcgcaggtcgctgtgggcggg	4	8	18	11	4	2	1	0	0	2	1	4	1	2	1	1	5	2	3	1	5	0	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr9:91996119A>T	uc004aqo.1	-	16	2161	c.1589T>A	c.(1588-1590)GTG>GAG	p.V530E	SEMA4D_uc011ltm.1_Missense_Mutation_p.V530E|SEMA4D_uc011ltn.1_Intron|SEMA4D_uc011lto.1_Intron|SEMA4D_uc004aqp.1_Missense_Mutation_p.V528E	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	530	PSI.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						GTGCAGAGCCACGCAGGTCGC	0.677													15	18					0	0	0.003163	0	0		T	91996119	T	T	91996119	3	4	118	1	0	0	0	0	1	0	0	0	14059	159	6	5	1581	5	SEMA4D	9	91996119	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	53598978	91996119	49217312	120	66428											
SEMA4D	10507	broad.mit.edu	37	chr9	91996153	91996153	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcgggctccaggcgcagtAggggtcccgcgccagcacac	6	3	17	15	4	0	0	0	0	0	0	2	0	2	0	3	5	1	4	3	5	1	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr9:91996153A>G	uc004aqo.1	-	16	2127	c.1555T>C	c.(1555-1557)TAC>CAC	p.Y519H	SEMA4D_uc011ltm.1_Missense_Mutation_p.Y519H|SEMA4D_uc011ltn.1_Intron|SEMA4D_uc011lto.1_Intron|SEMA4D_uc004aqp.1_Missense_Mutation_p.Y517H	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	519	PSI.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						CAGGCGCAGTAGGGGTCCCGC	0.692													10	16					0	0	0.008291	0	0		G	91996153	G	G	91996153	3	3	118	1	0	0	0	0	1	0	0	0	14059	420	15	3	1615	3	SEMA4D	9	91996153	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	34	91996153	49217278	121	66429											
OR13C9	286362	broad.mit.edu	37	chr9	107380453	107380453	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatgtcccttcagaaaaaaTtccaccagaatggtttggtt	13	12	8	8	0	1	2	1	0	0	2	3	3	3	2	3	2	0	2	3	2	5	4	rs144981085		TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr9:107380453T>A	uc011lvr.1	-	1	33	c.33A>T	c.(31-33)GAA>GAT	p.E11D		NM_001001956	NP_001001956	Q8NGT0	O13C9_HUMAN	olfactory receptor, family 13, subfamily C,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCAGAAAAAATTCCACCAGAA	0.343													29	58					0	0	0.010818	0	0		A	107380453	A	A	107380453	3	1	118	1	0	0	0	0	1	0	0	0	10958	1490	52	5	926	5	OR13C9	9	107380453	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	15384300	107380453	33832978	122	66430											
ZBTB26	57684	broad.mit.edu	37	chr9	125681733	125681733	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaatacaaggtgagtcctGctttggggagcctctggcat	9	11	13	8	0	1	2	0	2	1	0	2	3	2	3	2	4	3	2	2	4	3	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr9:125681733G>A	uc004bnj.2	-	2	693	c.481C>T	c.(481-483)CAG>TAG	p.Q161*	ZBTB26_uc004bnk.2_Nonsense_Mutation_p.Q161*	NM_020924	NP_065975	Q9HCK0	ZBT26_HUMAN	zinc finger and BTB domain containing 26	161					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGTGAGTCCTGCTTTGGGGAG	0.448													36	35					0	0	0.005524	0	0		A	125681733	A	A	125681733	4	1	118	1	0	0	0	0	0	1	0	0	17558	1328	46	2	848	2	ZBTB26	9	125681733	Nonsense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	18301280	125681733	15531698	123	66431											
AKR1C1	1645	broad.mit.edu	37	chr10	5008166	5008166	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaagctggcttccgccatAttgattctgctcatttatac	8	16	7	10	1	2	2	1	2	1	0	3	2	3	2	2	1	3	3	2	1	4	8			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:5008166A>G	uc001iho.2	+	7	986	c.145A>G	c.(145-147)ATT>GTT	p.I49V	AKR1E2_uc001ihl.1_Intron|AKR1C2_uc010qan.1_Intron|AKR1C3_uc001ihr.2_Missense_Mutation_p.I49V|AKR1C1_uc009xhx.2_Missense_Mutation_p.I49V|AKR1C1_uc001ihq.2_Missense_Mutation_p.I49V	NM_001353	NP_001344	Q04828	AK1C1_HUMAN	aldo-keto reductase family 1, member C1	49					bile acid and bile salt transport|bile acid metabolic process|cholesterol homeostasis|intestinal cholesterol absorption|protein homooligomerization|response to organophosphorus|xenobiotic metabolic process	cytosol	17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity|aldo-keto reductase (NADP) activity|androsterone dehydrogenase (B-specific) activity|bile acid binding|indanol dehydrogenase activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity			ovary(2)	2					NADH(DB00157)	CTTCCGCCATATTGATTCTGC	0.433													31	55					0	0	0.008361	0	0		G	5008166	G	G	5008166	3	3	118	1	0	0	0	0	1	0	0	0	469	449	16	3	151	3	AKR1C1	10	5008166	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08		5008166	130526581	124	66432											
KIAA1217	56243	broad.mit.edu	37	chr10	24832186	24832186	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actagactaacagaatcaagCgtgcatgattttaaaacaga	18	9	7	7	1	1	4	1	1	0	3	1	4	1	4	0	0	4	1	0	0	6	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:24832186C>T	uc001iru.3	+	19	4390	c.3987C>T	c.(3985-3987)AGC>AGT	p.S1329S	KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron|KIAA1217_uc001irw.2_Intron|KIAA1217_uc001irz.2_Intron|KIAA1217_uc001irx.2_Silent_p.S1012S|KIAA1217_uc001iry.2_Intron|KIAA1217_uc001isa.1_Silent_p.S165S	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	1329					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						CAGAATCAAGCGTGCATGATT	0.433													43	48					0	0	0.00874	0	0		T	24832186	T	T	24832186	2	4	118	1	0	0	0	0	0	0	0	1	8232	767	27	1		1	KIAA1217	10	24832186	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	19824020	24832186	110702561	125	66433											
GAD2	2572	broad.mit.edu	37	chr10	26506781	26506781	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttacccagccctgctctaCggagacgccgagaagccggc	8	5	11	17	4	1	2	0	0	1	2	1	4	1	2	5	2	5	1	5	2	3	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:26506781C>T	uc001isp.2	+	3	650	c.147C>T	c.(145-147)TAC>TAT	p.Y49Y	GAD2_uc009xkr.2_Silent_p.Y49Y|GAD2_uc001isq.2_Silent_p.Y49Y	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	49					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	CCCTGCTCTACGGAGACGCCG	0.642													6	9					0	0	0.001984	0	0		T	26506781	T	T	26506781	2	4	118	1	0	0	0	0	0	0	0	1	6194	547	19	1		1	GAD2	10	26506781	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	1674595	26506781	109027966	126	66434											
OGDHL	55753	broad.mit.edu	37	chr10	50950980	50950980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacgcccagtccaccgtccGgttcttggtcatgtccgcac	6	9	9	17	4	2	0	1	0	1	0	5	0	5	0	5	2	1	2	5	2	1	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:50950980G>A	uc001jie.2	-	15	2048	c.1906C>T	c.(1906-1908)CGG>TGG	p.R636W	OGDHL_uc009xog.2_Missense_Mutation_p.R663W|OGDHL_uc010qgt.1_Missense_Mutation_p.R579W|OGDHL_uc010qgu.1_Missense_Mutation_p.R427W|OGDHL_uc009xoh.2_Missense_Mutation_p.R427W	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	636					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						TCCACCGTCCGGTTCTTGGTC	0.662													13	19					0	0	0.016723	0	0		A	50950980	A	A	50950980	3	1	118	1	0	0	0	0	1	0	0	0	10859	1115	39	1	1162	1	OGDHL	10	50950980	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	24444199	50950980	84583767	127	66435											
PCDH15	65217	broad.mit.edu	37	chr10	55571328	55571328	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccatgctcataactgtaatAatcttgtccatattcctggc	10	14	5	12	0	2	0	1	0	1	0	4	0	4	0	3	1	2	2	3	1	4	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:55571328A>C	uc010qhu.1	-	34	4820	c.4425T>G	c.(4423-4425)ATT>ATG	p.I1475M	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron	NM_001142770	NP_001136242	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TAACTGTAATAATCTTGTCCA	0.254										HNSCC(58;0.16)			6	8					0	0	0.001168	0	0		C	55571328	C	C	55571328	3	2	118	1	0	0	0	0	1	0	0	0	11530	358	13	5	1551	5	PCDH15	10	55571328	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	4620348	55571328	79963419	128	66436											
KIAA0913	23053	broad.mit.edu	37	chr10	75557209	75557209	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttaagccggagaccacttCgagggggctgggcccccacc	7	5	13	16	2	0	1	0	0	0	1	1	3	0	1	6	4	1	1	6	4	1	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:75557209C>T	uc009xrl.2	+	18	3525	c.3493C>T	c.(3493-3495)CGA>TGA	p.R1165*	KIAA0913_uc001jve.2_Nonsense_Mutation_p.R1170*|KIAA0913_uc001jvf.2_Nonsense_Mutation_p.R1165*|KIAA0913_uc001jvh.2_RNA|KIAA0913_uc001jvi.2_Nonsense_Mutation_p.R600*|KIAA0913_uc010qkr.1_Nonsense_Mutation_p.R588*|KIAA0913_uc001jvj.2_Nonsense_Mutation_p.R588*|KIAA0913_uc009xrn.1_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	1165	Ser-rich.			R -> Q (in Ref. 4; BAB14664).			zinc ion binding			breast(1)	1	Prostate(51;0.0112)					GAGACCACTTCGAGGGGGCTG	0.592													22	42					0	0	0.014323	0	0		T	75557209	T	T	75557209	4	4	118	1	0	0	0	0	0	1	0	0	8216	876	31	1	3578	1	KIAA0913	10	75557209	Nonsense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	19985881	75557209	59977538	129	66437											
SAMD8	142891	broad.mit.edu	37	chr10	76928353	76928353	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaactgtattcttgcttcgCtgctttaccatgtttgtgac	6	17	9	9	1	1	1	0	1	1	0	2	2	1	2	1	1	4	5	1	1	3	7			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:76928353C>T	uc001jwx.1	+	4	832	c.729C>T	c.(727-729)CGC>CGT	p.R243R	SAMD8_uc001jwy.1_Silent_p.R243R	NM_144660	NP_653261	Q96LT4	SAMD8_HUMAN	sterile alpha motif domain containing 8	243	Helical; (Potential).				sphingomyelin biosynthetic process	integral to membrane					0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					TCTTGCTTCGCTGCTTTACCA	0.448													34	57					0	0	0.012213	0	0		T	76928353	T	T	76928353	2	4	118	1	0	0	0	0	0	0	0	1	13850	784	28	2		2	SAMD8	10	76928353	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	1371144	76928353	58606394	130	66438											
VDAC2	7417	broad.mit.edu	37	chr10	76970891	76970891	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcttgtccctcccgcaGattcccctcttcccgcggcc	3	11	6	21	3	2	1	0	0	2	1	6	1	6	1	6	1	0	1	6	1	0	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:76970891G>T	uc001jwz.2	+	2	135	c.-24_splice	c.e2-1		VDAC2_uc010qld.1_Splice_Site|VDAC2_uc001jxa.2_Splice_Site|VDAC2_uc010qle.1_Splice_Site	NM_003375	NP_003366	P45880	VDAC2_HUMAN	voltage-dependent anion channel 2							mitochondrial nucleoid|mitochondrial outer membrane|pore complex	nucleotide binding|porin activity|protein binding|voltage-gated anion channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.0642)|all_epithelial(25;0.00604)|Prostate(51;0.0112)|Ovarian(15;0.183)				Dihydroxyaluminium(DB01375)	CCCTCCCGCAGATTCCCCTCT	0.672													3	3					0.004672	0.00471513	0.004672	1	0		T	76970891	T	T	76970891	5	4	118	1	0	0	0	0	0	0	1	0	17173	956	33	5		5	VDAC2	10	76970891	Splice_Site	SNP	G	TCGA-CD-8531-01A-11D-2340-08	42538	76970891	58563856	131	66439											
PTEN	5728	broad.mit.edu	37	chr10	89624242	89624242	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacatgacagccatcatcAaagagatcgttagcagaaac	17	6	8	10	1	2	4	2	1	0	3	3	5	2	4	1	0	3	2	1	0	3	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:89624242A>G	uc001kfb.2	+	2	1047	c.16A>G	c.(16-18)AAA>GAA	p.K6E	KILLIN_uc009xti.2_5'Flank	NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	6					activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(13)|p.0?(12)|p.K6fs*4(10)|p.K6I(1)|p.K6N(1)|p.K6R(1)|p.A3fs*14(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		AGCCATCATCAAAGAGATCGT	0.488		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			49	65					0	0	0.01441	0	0		G	89624242	G	G	89624242	3	3	118	1	0	0	0	0	1	0	0	0	12760	131	5	3	18	3	PTEN	10	89624242	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	12653351	89624242	45910505	132	66440			2	29		3	3	56	A		1.055278e-07
PTEN	5728	broad.mit.edu	37	chr10	89624286	89624286	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagatatcaagaggatggAttcgacttagacttgacctg	13	10	12	6	1	1	4	1	1	0	3	2	8	1	6	1	3	0	0	1	3	3	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:89624286A>G	uc001kfb.2	+	2	1091	c.60A>G	c.(58-60)GGA>GGG	p.G20G	KILLIN_uc009xti.2_5'Flank	NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	20	Phosphatase tensin-type.		G -> E (reduced phosphatase activity towards Ins(1,3,4,5)P4; retains phosphatase activity towards PtdIns(3,4,5)P3).		activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(13)|p.0?(12)|p.F21fs*3(1)|p.G20*(1)|p.Y16fs*21(1)|p.R14_D22del(1)|p.G20E(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		AAGAGGATGGATTCGACTTAG	0.468		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			34	61					0	0	0.013726	0	0		G	89624286	G	G	89624286	2	3	118	1	0	0	0	0	0	0	0	1	12760	320	12	3		3	PTEN	10	89624286	Silent	SNP	A	TCGA-CD-8531-01A-11D-2340-08	44	89624286	45910461	133	66441			2	29		3	3	56	A		1.055278e-07
PTEN	5728	broad.mit.edu	37	chr10	89624297	89624297	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggatggattcgacttagActtgacctgtatccatttct	10	14	9	8	1	1	3	0	1	1	2	3	6	2	5	2	2	0	1	2	2	2	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:89624297A>T	uc001kfb.2	+	2	1102	c.71A>T	c.(70-72)GAC>GTC	p.D24V	KILLIN_uc009xti.2_5'Flank	NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	24	Phosphatase tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(13)|p.0?(12)|p.D24G(4)|p.D24E(2)|p.D24N(2)|p.D24fs*19(2)|p.D24Y(2)|p.D24fs*20(2)|p.D24_L25del(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TTCGACTTAGACTTGACCTGT	0.463		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			29	51					0	0	0.007291	0	0		T	89624297	T	T	89624297	3	4	118	1	0	0	0	0	1	0	0	0	12760	275	10	5	73	5	PTEN	10	89624297	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	11	89624297	45910450	134	66442			2	29		3	3	56	A		1.055278e-07
FAS	355	broad.mit.edu	37	chr10	90773891	90773892	+	Frame_Shift_Ins	INS	-	T	T																															tcagatgttgacttgagtaaINSatatatcaccactattgctg																										TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:90773891_90773892insT	uc001kfr.2	+	9	1038_1039	c.692_693insT	c.(691-693)AAAfs	p.K231fs	FAS_uc010qna.1_RNA|FAS_uc001kfs.2_3'UTR|FAS_uc001kft.2_Frame_Shift_Ins_p.K210fs|FAS_uc010qnb.1_RNA|FAS_uc010qnc.1_RNA|FAS_uc001kfw.2_3'UTR|FAS_uc010qnd.1_RNA|FAS_uc010qne.1_RNA|FAS_uc009xtp.2_RNA	NM_000043	NP_000034	P25445	TNR6_HUMAN	tumor necrosis factor receptor superfamily,	231	Death.|Interaction with HIPK3 (By similarity).|Cytoplasmic (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|anti-apoptosis|cellular response to mechanical stimulus|positive regulation of necrotic cell death	cytosol|extracellular region|integral to membrane|soluble fraction	identical protein binding|kinase binding			upper_aerodigestive_tract(1)|breast(1)	2		Colorectal(252;0.0161)		Colorectal(12;0.000136)|COAD - Colon adenocarcinoma(12;0.000193)		GACTTGAGTAAATATATCACCA	0.307									Autoimmune_Lymphoproliferative_syndrome_type_I				33	56	---	---	---	---						.	T	90773892	T	T	90773891	7	5	118	1	0	1	1	0	0	0	0	0	5695	14	1	0	726	0	FAS	10	90773891	Frame_Shift_Ins	INS	-	TCGA-CD-8531-01A-11D-2340-08	1149594	90773891	44760856	135	66443											
GBF1	8729	broad.mit.edu	37	chr10	104140096	104140096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttcatggacaagtacatgCacgcaggctccagcgactta	12	8	9	12	2	1	0	1	0	0	0	2	2	2	1	1	2	3	4	1	2	3	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr10:104140096C>T	uc001kux.1	+	37	5206	c.4966C>T	c.(4966-4968)CAC>TAC	p.H1656Y	GBF1_uc001kuy.1_Missense_Mutation_p.H1652Y|GBF1_uc001kuz.1_Missense_Mutation_p.H1653Y	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1656					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CAAGTACATGCACGCAGGCTC	0.567													40	66					0	0	0.00623	0	0		T	104140096	T	T	104140096	3	4	118	1	0	0	0	0	1	0	0	0	6286	710	25	2	5108	2	GBF1	10	104140096	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	13366205	104140096	31394651	136	66444											
MUC5B	727897	broad.mit.edu	37	chr11	1275470	1275470	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggacaaccactactgcacGgcctctgccactgccgctgc	7	7	9	18	2	1	0	0	0	1	0	1	1	1	1	4	2	6	2	4	2	2	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:1275470G>A	uc009ycr.1	+	55	16497	c.16371G>A	c.(16369-16371)ACG>ACA	p.T5457T	MUC5B_uc001ltb.2_Silent_p.T5125T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5122	VWFD 4.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACTACTGCACGGCCTCTGCCA	0.597													15	11					0	0	0.004007	0	0		A	1275470	A	A	1275470	2	1	118	1	0	0	0	0	0	0	0	1	9997	1103	39	1		1	MUC5B	11	1275470	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08		1275470	133731046	137	66445											
TRPM5	29850	broad.mit.edu	37	chr11	2435376	2435376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgctccagcagcggttcCggcgcaccagcagggcgaag	7	6	14	14	4	1	0	0	0	1	0	3	1	3	0	3	3	4	5	3	3	1	2	rs140559697	byFrequency	TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:2435376C>T	uc001lwm.3	-	12	1814	c.1805G>A	c.(1804-1806)CGG>CAG	p.R602Q	TRPM5_uc010qxl.1_Missense_Mutation_p.R602Q|TRPM5_uc009ydn.2_Missense_Mutation_p.R604Q	NM_014555	NP_055370	Q9NZQ8	TRPM5_HUMAN	transient receptor potential cation channel,	602	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity|voltage-gated ion channel activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Medulloblastoma(188;0.0049)|Breast(177;0.00586)|all_epithelial(84;0.0075)|Ovarian(85;0.0256)|all_neural(188;0.0311)		BRCA - Breast invasive adenocarcinoma(625;0.00147)|LUSC - Lung squamous cell carcinoma(625;0.191)		GCAGCGGTTCCGGCGCACCAG	0.677													4	8					0	0	0.014758	0	0		T	2435376	T	T	2435376	3	4	118	1	0	0	0	0	1	0	0	0	16615	652	23	1	1744	1	TRPM5	11	2435376	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	1159906	2435376	132571140	138	66446											
OR2D3	120775	broad.mit.edu	37	chr11	6942645	6942645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtgatgtcctatgaccGgtatgtggctgtctgcaagc	7	11	14	9	1	1	2	0	2	1	0	2	2	2	2	2	3	2	4	2	3	3	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:6942645G>A	uc010rav.1	+	1	413	c.413G>A	c.(412-414)CGG>CAG	p.R138Q		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TCCTATGACCGGTATGTGGCT	0.507													49	70					0	0	0.01441	0	0		A	6942645	A	A	6942645	3	1	118	1	0	0	0	0	1	0	0	0	11014	1116	39	1	415	1	OR2D3	11	6942645	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	4507269	6942645	128063871	139	66447											
ST5	6764	broad.mit.edu	37	chr11	8728732	8728732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatgaaaggatagaccaatGcagcggagatcccacgccgg	13	5	12	11	3	1	3	1	1	0	2	2	5	2	4	3	3	2	1	3	3	3	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:8728732G>A	uc001mgt.2	-	13	2657	c.2471C>T	c.(2470-2472)GCA>GTA	p.A824V	ST5_uc009yfr.2_Missense_Mutation_p.A404V|ST5_uc001mgu.2_Missense_Mutation_p.A404V|ST5_uc001mgv.2_Missense_Mutation_p.A824V|ST5_uc010rbq.1_RNA|ST5_uc010rbp.1_Missense_Mutation_p.A337V|ST5_uc009yfs.2_RNA	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	824	DENN.				positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		ATAGACCAATGCAGCGGAGAT	0.602													19	23					0	0	0.006122	0	0		A	8728732	A	A	8728732	3	1	118	1	0	0	0	0	1	0	0	0	15245	1319	46	2	974	2	ST5	11	8728732	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	1786087	8728732	126277784	140	66448											
MICAL2	9645	broad.mit.edu	37	chr11	12231128	12231128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcattggtgccgatggccGcaggaacaccctggaaggtg	9	7	14	11	2	1	0	1	0	0	0	1	3	1	2	3	5	2	1	3	5	2	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:12231128G>A	uc001mjz.2	+	6	962	c.674G>A	c.(673-675)CGC>CAC	p.R225H	MICAL2_uc010rch.1_Missense_Mutation_p.R225H|MICAL2_uc001mka.2_Missense_Mutation_p.R225H|MICAL2_uc010rci.1_Missense_Mutation_p.R225H|MICAL2_uc001mkb.2_Missense_Mutation_p.R225H|MICAL2_uc001mkc.2_Missense_Mutation_p.R225H|MICAL2_uc001mkd.2_Missense_Mutation_p.R54H	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	225						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		GCCGATGGCCGCAGGAACACC	0.527													27	33					0	0	0.021523	0	0		A	12231128	A	A	12231128	3	1	118	1	0	0	0	0	1	0	0	0	9588	1087	38	1	688	1	MICAL2	11	12231128	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	3502396	12231128	122775388	141	66449											
MICAL2	9645	broad.mit.edu	37	chr11	12244261	12244261	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggacacggtacccaaacCtcaactcacactgtgtcagg	12	6	9	14	1	3	0	3	0	0	0	3	1	3	1	2	3	3	1	2	3	3	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:12244261C>G	uc001mjz.2	+	11	1708	c.1420C>G	c.(1420-1422)CTC>GTC	p.L474V	MICAL2_uc010rch.1_Missense_Mutation_p.L474V|MICAL2_uc001mka.2_Missense_Mutation_p.L474V|MICAL2_uc010rci.1_Missense_Mutation_p.L474V|MICAL2_uc001mkb.2_Missense_Mutation_p.L474V|MICAL2_uc001mkc.2_Missense_Mutation_p.L474V|MICAL2_uc001mkd.2_Missense_Mutation_p.L303V|MICAL2_uc010rcj.1_5'UTR	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	474						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		GTACCCAAACCTCAACTCACA	0.557													10	14					0	0	0.008291	0	0		G	12244261	G	G	12244261	3	3	118	1	0	0	0	0	1	0	0	0	9588	681	24	5	1454	5	MICAL2	11	12244261	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	13133	12244261	122762255	142	66450											
PIK3C2A	5286	broad.mit.edu	37	chr11	17156677	17156677	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccctagttgaactcctgctAgtgtcttctcctccaaacaa	9	12	5	15	0	2	1	0	1	2	0	5	1	4	1	5	0	3	2	5	0	5	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:17156677A>T	uc001mmq.3	-	9	1944	c.1878T>A	c.(1876-1878)ACT>ACA	p.T626T	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Silent_p.T246T|PIK3C2A_uc001mmr.3_Intron|PIK3C2A_uc010rcx.1_Silent_p.T626T	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	626					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	AACTCCTGCTAGTGTCTTCTC	0.328													46	77					0	0	0.013114	0	0		T	17156677	T	T	17156677	2	4	118	1	0	0	0	0	0	0	0	1	11928	407	15	5		5	PIK3C2A	11	17156677	Silent	SNP	A	TCGA-CD-8531-01A-11D-2340-08	4912416	17156677	117849839	143	66451											
BBOX1	8424	broad.mit.edu	37	chr11	27114876	27114876	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggagaagtttcaaaacttGggaaaaggatgggtttcctc	13	10	12	6	0	1	1	1	0	0	1	3	4	2	3	1	4	1	2	1	4	5	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:27114876G>T	uc001mre.1	+	5	864	c.496G>T	c.(496-498)GGG>TGG	p.G166W	BBOX1_uc009yih.1_Missense_Mutation_p.G166W|BBOX1_uc001mrg.1_Missense_Mutation_p.G166W	NM_003986	NP_003977	O75936	BODG_HUMAN	gamma-butyrobetaine dioxygenase	166					carnitine biosynthetic process	actin cytoskeleton|cytosol|intracellular membrane-bounded organelle	gamma-butyrobetaine dioxygenase activity|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1					Succinic acid(DB00139)|Vitamin C(DB00126)	TTCAAAACTTGGGAAAAGGAT	0.423													20	37					7.41877e-09	7.72494e-09	0.012319	1	0		T	27114876	T	T	27114876	3	4	118	1	0	0	0	0	1	0	0	0	1335	1348	47	5	506	5	BBOX1	11	27114876	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	9958199	27114876	107891640	144	66452											
LGR4	55366	broad.mit.edu	37	chr11	27434338	27434338	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcaaagtaatacttacagCtcttctagaaaaggaaagtt	16	12	6	7	0	3	1	1	0	3	1	4	2	3	2	0	1	3	3	0	1	8	6	rs144168526	byFrequency	TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:27434338C>G	uc001mrj.3	-	2	740	c.255G>C	c.(253-255)GAG>GAC	p.E85D	LGR4_uc001mrk.3_Intron	NM_018490	NP_060960	Q9BXB1	LGR4_HUMAN	leucine-rich repeat-containing G protein-coupled	85	LRR 2.|Extracellular (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1						ATACTTACAGCTCTTCTAGAA	0.333													25	48					0	0	0.005443	0	0		G	27434338	G	G	27434338	3	3	118	1	0	0	0	0	1	0	0	0	8772	796	28	5	2668	5	LGR4	11	27434338	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	319462	27434338	107572178	145	66453											
MADD	8567	broad.mit.edu	37	chr11	47303141	47303141	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggccttggccagcatgAgtctcaacacccagcccatc	10	6	8	17	0	1	1	1	1	1	0	3	1	1	1	4	2	3	1	4	2	1	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:47303141A>T	uc001ner.1	+	8	1497	c.1306A>T	c.(1306-1308)AGT>TGT	p.S436C	MADD_uc001neq.2_Missense_Mutation_p.S436C|MADD_uc001nev.1_Missense_Mutation_p.S436C|MADD_uc001nes.1_Missense_Mutation_p.S436C|MADD_uc001net.1_Missense_Mutation_p.S436C|MADD_uc009yln.1_Missense_Mutation_p.S436C|MADD_uc001neu.1_Missense_Mutation_p.S436C|MADD_uc001nex.2_Missense_Mutation_p.S436C|MADD_uc001nez.2_Missense_Mutation_p.S436C|MADD_uc001new.2_Missense_Mutation_p.S436C	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	436					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		GGCCAGCATGAGTCTCAACAC	0.512													13	25					0	0	0.016723	0	0		T	47303141	T	T	47303141	3	4	118	1	0	0	0	0	1	0	0	0	9170	304	11	5	1332	5	MADD	11	47303141	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	19868803	47303141	87703375	146	66454											
SLC22A8	9376	broad.mit.edu	37	chr11	62762176	62762176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatgtagaggttgactcCaaattcttccacacccatag	12	10	9	10	0	1	2	0	1	1	1	3	4	3	3	3	2	0	2	3	2	3	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:62762176C>T	uc001nwo.2	-	8	1190	c.1054G>A	c.(1054-1056)GGA>AGA	p.G352R	SLC22A8_uc001nwn.1_3'UTR|SLC22A8_uc001nwp.2_Missense_Mutation_p.G352R|SLC22A8_uc009yom.2_Missense_Mutation_p.G229R|SLC22A8_uc010rmm.1_Missense_Mutation_p.G261R|SLC22A8_uc009yon.2_Missense_Mutation_p.G352R	NM_004254	NP_004245	Q8TCC7	S22A8_HUMAN	solute carrier family 22 member 8	352	Extracellular (Potential).				response to toxin	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|organic anion transmembrane transporter activity			skin(2)|ovary(1)	3						AGGTTGACTCCAAATTCTTCC	0.527													20	23					0	0	0.016522	0	0		T	62762176	T	T	62762176	3	4	118	1	0	0	0	0	1	0	0	0	14485	603	21	4	590	4	SLC22A8	11	62762176	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	15459035	62762176	72244340	147	66455											
CDC42BPG	55561	broad.mit.edu	37	chr11	64603908	64603908	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccctcacccggtgaagTcggtcaagctcctgccgtag	7	7	11	16	3	2	1	2	1	0	0	4	1	3	1	5	2	3	2	5	2	3	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:64603908T>C	uc001obs.3	-	12	1479	c.1479A>G	c.(1477-1479)CGA>CGG	p.R493R		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	493	Potential.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						cccGGTGAAGTCGGTCAAGCT	0.443											OREG0004017	type=REGULATORY REGION|Gene=CDC42BPG|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	15	34					0	0	0.020292	0	0		C	64603908	C	C	64603908	2	2	118	1	0	0	0	0	0	0	0	1	3077	1654	58	3		3	CDC42BPG	11	64603908	Silent	SNP	T	TCGA-CD-8531-01A-11D-2340-08	1841732	64603908	70402608	148	66456											
MRPL49	740	broad.mit.edu	37	chr11	64889890	64889890	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagcggggctgcgggctacgGctgttggtgagagcgctgag	5	7	20	9	4	0	2	0	2	0	1	0	3	0	2	0	5	4	5	0	5	1	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:64889890G>A	uc001oda.1	+	1	163	c.72G>A	c.(70-72)CGG>CGA	p.R24R	FAU_uc001ocx.2_5'Flank|FAU_uc001ocy.1_5'Flank|MRPL49_uc001ocz.1_RNA	NM_004927	NP_004918	Q13405	RM49_HUMAN	mitochondrial ribosomal protein L49	24					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0						GCGGGCTACGGCTGTTGGTGA	0.592													10	9					0	0	0.010729	0	0		A	64889890	A	A	64889890	2	1	118	1	0	0	0	0	0	0	0	1	9831	1190	42	2		2	MRPL49	11	64889890	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	285982	64889890	70116626	149	66457											
ODZ4	26011	broad.mit.edu	37	chr11	78413244	78413244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgtgtgaaacagccaaagCggtggctgactccagggttg	10	9	14	8	1	0	2	0	2	0	0	1	2	1	2	2	3	3	2	2	3	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:78413244C>T	uc001ozl.3	-	28	4877	c.4414G>A	c.(4414-4416)GCT>ACT	p.A1472T	ODZ4_uc009yvb.1_Missense_Mutation_p.A56T	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1472	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						ACAGCCAAAGCGGTGGCTGAC	0.557													15	19					0	0	0.003163	0	0		T	78413244	T	T	78413244	3	4	118	1	0	0	0	0	1	0	0	0	10856	768	27	1	3923	1	ODZ4	11	78413244	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	13523354	78413244	56593272	150	66458											
FAT3	120114	broad.mit.edu	37	chr11	92086032	92086032	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtgagcagtactgcaaagCtttatgttcacattgagcgc	11	11	11	8	1	1	2	1	2	0	0	1	3	1	2	0	0	5	5	0	0	3	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:92086032C>A	uc001pdj.3	+	1	771	c.754C>A	c.(754-756)CTT>ATT	p.L252I		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	252	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TACTGCAAAGCTTTATGTTCA	0.403										TCGA Ovarian(4;0.039)			48	61					3.39706e-21	3.67734e-21	0.01441	1	0		A	92086032	A	A	92086032	3	1	118	1	0	0	0	0	1	0	0	0	5705	797	28	5	756	5	FAT3	11	92086032	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	13672788	92086032	42920484	151	66459											
FAT3	120114	broad.mit.edu	37	chr11	92088462	92088462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacgcattggaacaagcGtgctgcaggtgactgctcga	10	8	12	11	3	1	1	1	1	0	0	2	3	1	2	0	2	5	4	0	2	2	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:92088462G>A	uc001pdj.3	+	1	3201	c.3184G>A	c.(3184-3186)GTG>ATG	p.V1062M		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1062	Cadherin 10.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TGGAACAAGCGTGCTGCAGGT	0.498										TCGA Ovarian(4;0.039)			21	28					0	0	0.012319	0	0		A	92088462	A	A	92088462	3	1	118	1	0	0	0	0	1	0	0	0	5705	1145	40	1	3186	1	FAT3	11	92088462	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	2430	92088462	42918054	152	66460											
KBTBD3	143879	broad.mit.edu	37	chr11	105924893	105924893	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagtgatgttgtacaaagtGtaatgcatgatcaaacaaac	18	10	8	5	0	1	2	1	2	0	0	1	2	1	2	0	0	4	4	0	0	6	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr11:105924893G>C	uc001pja.2	-	4	1163	c.523C>G	c.(523-525)CAC>GAC	p.H175D	KBTBD3_uc001pjb.2_Missense_Mutation_p.H175D|KBTBD3_uc009yxm.2_Missense_Mutation_p.H96D	NM_198439	NP_940841	Q8NAB2	KBTB3_HUMAN	BTB and kelch domain containing 3	171	BACK.									ovary(1)|central_nervous_system(1)	2		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.43e-05)|Epithelial(105;0.00418)|all cancers(92;0.0299)		TGTACAAAGTGTAATGCATGA	0.289													12	19					0	0	0.010729	0	0		C	105924893	C	C	105924893	3	2	118	1	0	0	0	0	1	0	0	0	8010	1377	48	5	1319	5	KBTBD3	11	105924893	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	13836431	105924893	29081623	153	66461											
TMTC1	83857	broad.mit.edu	37	chr12	29757182	29757182	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttgctggctggaatgaaCgggaacaccaggaacaacaa	15	5	13	8	1	0	1	0	1	0	0	0	4	0	4	1	5	5	3	1	5	6	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:29757182C>T	uc001rjb.2	-	7	1329	c.855G>A	c.(853-855)CCG>CCA	p.P285P	TMTC1_uc001riz.2_Silent_p.P42P|TMTC1_uc001rja.2_Silent_p.P129P|TMTC1_uc001rjc.1_Silent_p.P347P	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	393	Helical; (Potential).					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					CTGGAATGAACGGGAACACCA	0.468													16	48					0	0	0.004007	0	0		T	29757182	T	T	29757182	2	4	118	1	0	0	0	0	0	0	0	1	16285	523	19	1		1	TMTC1	12	29757182	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08		29757182	104094713	154	66462											
SYT10	341359	broad.mit.edu	37	chr12	33538177	33538177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgtcatacgcccagccGtcggtaggtaacaaagggaa	13	7	11	10	3	2	0	2	0	0	0	3	1	2	1	2	3	3	2	2	3	6	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:33538177G>A	uc001rll.1	-	4	1424	c.1127C>T	c.(1126-1128)ACG>ATG	p.T376M	SYT10_uc009zju.1_Missense_Mutation_p.T186M	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	376	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					ACGCCCAGCCGTCGGTAGGTA	0.443													24	48					0	0	0.01892	0	0		A	33538177	A	A	33538177	3	1	118	1	0	0	0	0	1	0	0	0	15491	1145	40	1	460	1	SYT10	12	33538177	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	3780995	33538177	100313718	155	66463											
KIF21A	55605	broad.mit.edu	37	chr12	39726475	39726475	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgaccctgcgctcaaggAgctgccacttcatgcgagct	7	9	11	14	2	2	1	2	1	0	0	2	3	2	2	2	1	5	3	2	1	1	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:39726475A>C	uc001rly.2	-	20	2920	c.2774T>G	c.(2773-2775)CTC>CGC	p.L925R	KIF21A_uc001rlv.2_5'Flank|KIF21A_uc001rlw.2_Missense_Mutation_p.L242R|KIF21A_uc001rlx.2_Missense_Mutation_p.L912R|KIF21A_uc001rlz.2_Missense_Mutation_p.L889R|KIF21A_uc010skl.1_Missense_Mutation_p.L912R	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	925					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				GCGCTCAAGGAGCTGCCACTT	0.428													31	39					0	0	0.009535	0	0		C	39726475	C	C	39726475	3	2	118	1	0	0	0	0	1	0	0	0	8304	304	11	5	2326	5	KIF21A	12	39726475	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	6188298	39726475	94125420	156	66464											
SENP1	29843	broad.mit.edu	37	chr12	48441861	48441861	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttctttctaaagtccacAacctgagaataagaaaaaaa	18	11	4	8	0	3	2	0	1	3	2	4	3	4	2	2	0	1	0	2	0	8	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:48441861A>G	uc001rqx.2	-	15	2060	c.1614T>C	c.(1612-1614)GTT>GTC	p.V538V	SENP1_uc001rqw.2_Silent_p.V538V|SENP1_uc001rqy.2_Silent_p.V339V|SENP1_uc001rqz.2_Silent_p.V339V|SENP1_uc009zkx.2_Silent_p.V538V	NM_014554	NP_055369	Q9P0U3	SENP1_HUMAN	sentrin/SUMO-specific protease 1	538	Protease.				activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)				TAAAGTCCACAACCTGAGAAT	0.398													7	10					0	0	0.001984	0	0		G	48441861	G	G	48441861	2	3	118	1	0	0	0	0	0	0	0	1	14071	117	5	3		3	SENP1	12	48441861	Silent	SNP	A	TCGA-CD-8531-01A-11D-2340-08	8715386	48441861	85410034	157	66465											
ATP5B	506	broad.mit.edu	37	chr12	57037231	57037231	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gataacaccagattcaatcaTttcatggtataaatcattgc	15	13	5	8	0	4	1	4	0	0	1	4	2	4	1	1	1	2	1	1	1	5	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:57037231T>A	uc001slr.2	-	5	853	c.748A>T	c.(748-750)ATG>TTG	p.M250L		NM_001686	NP_001677	P06576	ATPB_HUMAN	mitochondrial ATP synthase beta subunit	250					angiogenesis|ATP hydrolysis coupled proton transport|regulation of intracellular pH|respiratory electron transport chain	cell surface|mitochondrial nucleoid|mitochondrial proton-transporting ATP synthase, catalytic core|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|hydrogen-exporting ATPase activity, phosphorylative mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)	1						GATTCAATCATTTCATGGTAT	0.433													44	59					0	0	0.01441	0	0		A	57037231	A	A	57037231	3	1	118	1	0	0	0	0	1	0	0	0	1149	1493	52	5	865	5	ATP5B	12	57037231	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	8595370	57037231	76814664	158	66466											
GRIP1	23426	broad.mit.edu	37	chr12	66788079	66788079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgatgccaaggggcccccCgtagcgtttaagctccacgg	7	8	13	13	3	0	1	0	1	0	0	1	1	1	1	5	3	3	3	5	3	3	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:66788079C>T	uc001stk.2	-	16	2123	c.1882G>A	c.(1882-1884)GGG>AGG	p.G628R	GRIP1_uc010sta.1_Missense_Mutation_p.G572R|GRIP1_uc001stj.2_Missense_Mutation_p.G410R|GRIP1_uc001stl.1_Missense_Mutation_p.G520R|GRIP1_uc001stm.2_Missense_Mutation_p.G628R	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	680	PDZ 6.				androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		AGGGGCCCCCCGTAGCGTTTA	0.408													30	88					0	0	0.00632	0	0		T	66788079	T	T	66788079	3	4	118	1	0	0	0	0	1	0	0	0	6803	652	23	1	1384	1	GRIP1	12	66788079	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	9750848	66788079	67063816	159	66467											
PTPRB	5787	broad.mit.edu	37	chr12	70960283	70960283	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttaggatctgtatcttgTatttcttgcctggtgttaga	7	18	10	6	0	3	1	0	0	3	1	3	2	3	2	1	2	1	4	1	2	4	7			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:70960283T>A	uc001swb.3	-	13	3212	c.3182A>T	c.(3181-3183)TAC>TTC	p.Y1061F	PTPRB_uc010sto.1_Intron|PTPRB_uc010stp.1_Missense_Mutation_p.Y971F|PTPRB_uc001swc.3_Missense_Mutation_p.Y1279F|PTPRB_uc001swa.3_Missense_Mutation_p.Y1191F|PTPRB_uc001swd.3_Missense_Mutation_p.Y1278F|PTPRB_uc009zrr.1_Missense_Mutation_p.Y1158F	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1061	Fibronectin type-III 12.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CTGTATCTTGTATTTCTTGCC	0.443													16	33					0	0	0.004007	0	0		A	70960283	A	A	70960283	3	1	118	1	0	0	0	0	1	0	0	0	12821	1638	57	5	2891	5	PTPRB	12	70960283	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	4172204	70960283	62891612	160	66468											
LRRIQ1	84125	broad.mit.edu	37	chr12	85441135	85441135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagataaagagaaacaaactCtcaaagctcagagggataga	21	5	9	6	0	2	4	2	0	1	4	3	6	2	5	0	1	3	1	0	1	7	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:85441135C>T	uc001tac.2	+	6	676	c.565C>T	c.(565-567)CTC>TTC	p.L189F	LRRIQ1_uc001tab.1_Missense_Mutation_p.L189F|LRRIQ1_uc001taa.1_Missense_Mutation_p.L189F|LRRIQ1_uc001tad.2_Missense_Mutation_p.L97F	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	189	Glu-rich.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		GAAACAAACTCTCAAAGCTCA	0.328													52	43					0	0	0.01441	0	0		T	85441135	T	T	85441135	3	4	118	1	0	0	0	0	1	0	0	0	9047	913	32	4	583	4	LRRIQ1	12	85441135	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	14480852	85441135	48410760	161	66469											
TRPV4	59341	broad.mit.edu	37	chr12	110221548	110221548	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggttcgagttcttgttcaGttccaccacgcggggtacca	6	11	12	12	4	2	0	1	0	1	0	4	1	3	0	3	3	1	5	3	3	1	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:110221548G>A	uc001tpj.1	-	15	2589	c.2494C>T	c.(2494-2496)CTG>TTG	p.L832L	TRPV4_uc001tpg.1_Silent_p.L798L|TRPV4_uc001tph.1_Silent_p.L785L|TRPV4_uc001tpi.1_Silent_p.L725L|TRPV4_uc001tpk.1_Silent_p.L832L|TRPV4_uc001tpl.1_Silent_p.L772L	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	832	Cytoplasmic (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						TTCTTGTTCAGTTCCACCACG	0.587													10	29					0	0	0.006214	0	0		A	110221548	A	A	110221548	2	1	118	1	0	0	0	0	0	0	0	1	16624	1020	36	4		4	TRPV4	12	110221548	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	24780413	110221548	23630347	162	66470											
CUX2	23316	broad.mit.edu	37	chr12	111745053	111745053	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactatgaggaaattaaaacGgagctgaggtaccatgtggg	14	8	14	5	1	0	2	0	2	0	0	0	5	0	4	1	4	3	2	1	4	5	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:111745053G>A	uc001tsa.1	+	12	1254	c.1101G>A	c.(1099-1101)ACG>ACA	p.T367T		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	367	Potential.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						AAATTAAAACGGAGCTGAGGT	0.527													12	13					0	0	0.016723	0	0		A	111745053	A	A	111745053	2	1	118	1	0	0	0	0	0	0	0	1	4068	1103	39	1		1	CUX2	12	111745053	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	1523505	111745053	22106842	163	66471											
DTX1	1840	broad.mit.edu	37	chr12	113496170	113496170	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgaaggaggacgctcgcgGttccgtggtcctggggcagg	5	7	19	10	4	0	1	0	1	0	0	3	3	2	3	2	7	0	4	2	7	1	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:113496170G>C	uc001tuk.1	+	1	509	c.173G>C	c.(172-174)GGT>GCT	p.G58A		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	58	WWE 1.				negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						GACGCTCGCGGTTCCGTGGTC	0.637													24	44					0	0	0.014323	0	0		C	113496170	C	C	113496170	3	2	118	1	0	0	0	0	1	0	0	0	4799	1261	44	5	175	5	DTX1	12	113496170	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	1751117	113496170	20355725	164	66472											
DTX1	1840	broad.mit.edu	37	chr12	113496241	113496241	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctgcagtccatgcaccagTttcgccaggacacaggtgag	10	7	11	13	1	0	1	0	1	0	0	2	2	1	2	4	2	2	3	4	2	0	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:113496241T>C	uc001tuk.1	+	1	580	c.244T>C	c.(244-246)TTT>CTT	p.F82L		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	82	WWE 1.				negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						CATGCACCAGTTTCGCCAGGA	0.607													20	46					0	0	0.01892	0	0		C	113496241	C	C	113496241	3	2	118	1	0	0	0	0	1	0	0	0	4799	1725	60	3	246	3	DTX1	12	113496241	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	71	113496241	20355654	165	66473											
TBX5	6910	broad.mit.edu	37	chr12	114832618	114832618	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagtgcagaacgctgtattTtttgagccaaatccattatt	11	15	8	7	1	0	3	0	2	0	1	1	3	1	3	2	0	3	3	2	0	4	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:114832618T>G	uc001tvo.2	-	6	1086	c.591A>C	c.(589-591)AAA>AAC	p.K197N	TBX5_uc001tvp.2_Missense_Mutation_p.K197N|TBX5_uc001tvq.2_Missense_Mutation_p.K147N|TBX5_uc010syv.1_Missense_Mutation_p.K197N	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	197	T-box.				cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		ACGCTGTATTTTTTGAGCCAA	0.403													58	171					0	0	0.01441	0	0		G	114832618	G	G	114832618	3	3	118	1	0	0	0	0	1	0	0	0	15686	1838	64	5	1048	5	TBX5	12	114832618	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	1336377	114832618	19019277	166	66474											
CCDC64	92558	broad.mit.edu	37	chr12	120530908	120530908	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggccacagcgctgggcggggGgatgagcccagcatcgctga	7	4	18	12	3	0	2	0	2	0	0	1	3	0	3	2	5	3	3	2	5	0	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:120530908G>A	uc001txl.1	+	9	1690	c.1665G>A	c.(1663-1665)GGG>GGA	p.G555G	CCDC64_uc009zwv.1_RNA|CCDC64_uc010sze.1_Silent_p.G226G|CCDC64_uc010szf.1_Silent_p.G252G	NM_207311	NP_997194	Q6ZP65	BICR1_HUMAN	coiled-coil domain containing 64	555					Golgi to secretory granule transport|neuron projection development	centrosome	dynactin binding|Rab GTPase binding			ovary(2)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTGGGCGGGGGGATGAGCCCA	0.592													9	31					0	0	0.004482	0	0		A	120530908	A	A	120530908	2	1	118	1	0	0	0	0	0	0	0	1	2838	1219	43	4		4	CCDC64	12	120530908	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	5698290	120530908	13320987	167	66475											
FZD10	11211	broad.mit.edu	37	chr12	130648561	130648561	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctacttccacctggcagcCtgggccatcccggcggtgaa	7	7	12	15	2	0	1	0	1	0	0	2	1	2	1	5	4	3	2	5	4	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:130648561C>A	uc001uii.2	+	1	1530	c.1074C>A	c.(1072-1074)GCC>GCA	p.A358A	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	358	Helical; Name=4; (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		ACCTGGCAGCCTGGGCCATCC	0.662													16	49					4.75885e-15	5.11771e-15	0.00499	1	0		A	130648561	A	A	130648561	2	1	118	1	0	0	0	0	0	0	0	1	6143	668	24	5		5	FZD10	12	130648561	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	10117653	130648561	3203334	168	66476											
RIMBP2	23504	broad.mit.edu	37	chr12	130923044	130923044	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctggacggtaacatcttGtgggggtgctgggggtcctg	5	10	18	8	1	1	0	0	0	1	0	2	1	2	1	2	6	3	2	2	6	1	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr12:130923044G>A	uc001uil.2	-	9	1635	c.1471C>T	c.(1471-1473)CAA>TAA	p.Q491*	RIMBP2_uc001uim.2_Nonsense_Mutation_p.Q399*|RIMBP2_uc001uin.1_Nonsense_Mutation_p.Q150*	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	491	Fibronectin type-III 3.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		GTAACATCTTGTGGGGGTGCT	0.667													4	5					0	0	0.014758	0	0		A	130923044	A	A	130923044	4	1	118	1	0	0	0	0	0	1	0	0	13388	1386	48	4	1731	4	RIMBP2	12	130923044	Nonsense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	274483	130923044	2928851	169	66477											
FRY	10129	broad.mit.edu	37	chr13	32868606	32868606	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcagacggcgcgtggtcCgagcccaccttcacgtccac	7	8	10	16	5	2	1	2	0	0	1	4	2	4	1	4	2	1	0	4	2	1	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr13:32868606C>T	uc001utx.2	+	60	9178	c.8682C>T	c.(8680-8682)TCC>TCT	p.S2894S	FRY_uc010tdw.1_RNA|FRY_uc001utz.2_Silent_p.S425S|FRY_uc010tdx.1_Silent_p.S264S	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2894					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		GCGCGTGGTCCGAGCCCACCT	0.547													21	30					0	0	0.008871	0	0		T	32868606	T	T	32868606	2	4	118	1	0	0	0	0	0	0	0	1	6077	639	23	1		1	FRY	13	32868606	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08		32868606	82301272	170	66478											
SMAD9	4093	broad.mit.edu	37	chr13	37439852	37439852	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagttcatagtaggcgacCgagcaccagtgctggggctc	8	9	13	11	2	2	0	2	0	0	0	3	2	2	0	2	3	2	5	2	3	2	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr13:37439852C>T	uc001uvw.2	-	5	1168	c.825G>A	c.(823-825)TCG>TCA	p.S275S	SMAD9_uc001uvx.2_Silent_p.S238S|SMAD9_uc010tep.1_Silent_p.S68S	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	275	MH2.				BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		AGTAGGCGACCGAGCACCAGT	0.507													14	27					0	0	0.020292	0	0		T	37439852	T	T	37439852	2	4	118	1	0	0	0	0	0	0	0	1	14789	639	23	1		1	SMAD9	13	37439852	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	4571246	37439852	77730026	171	66479											
CAB39L	81617	broad.mit.edu	37	chr13	49906110	49906110	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acatgaaaggcttcaaactgGatgttgggacttttatcccg	11	12	10	8	1	1	1	1	1	0	0	2	3	2	3	1	3	1	2	1	3	3	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr13:49906110G>A	uc001vcw.2	-	8	1305	c.807C>T	c.(805-807)ATC>ATT	p.I269I	CAB39L_uc001vcx.2_Silent_p.I269I|CAB39L_uc010adf.2_Silent_p.I266I	NM_030925	NP_112187	Q9H9S4	CB39L_HUMAN	calcium binding protein 39-like	269					cell cycle arrest|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol	protein binding				0		Lung NSC(96;2.11e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.66e-09)|COAD - Colon adenocarcinoma(199;0.226)		CTTCAAACTGGATGTTGGGAC	0.418													51	68					0	0	0.01441	0	0		A	49906110	A	A	49906110	2	1	118	1	0	0	0	0	0	0	0	1	2529	1164	41	4		4	CAB39L	13	49906110	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	12466258	49906110	65263768	172	66480											
C13orf1	57213	broad.mit.edu	37	chr13	50495695	50495695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcaagtatacatttaattCgacatggtcataagtaatac	16	14	5	6	1	2	0	2	0	0	0	3	1	2	0	0	1	2	2	0	1	7	9			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr13:50495695C>T	uc001vdl.2	-	4	674	c.412G>A	c.(412-414)GAA>AAA	p.E138K	C13orf1_uc001vdm.2_Missense_Mutation_p.E99K|C13orf1_uc010tgm.1_RNA|C13orf1_uc010adj.2_Missense_Mutation_p.E138K	NM_020456	NP_065189	Q5W111	SPRY7_HUMAN	chromosome 13 open reading frame 1 isoform 1	138	B30.2/SPRY.										0		Lung NSC(96;7.5e-06)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Acute lymphoblastic leukemia(7;0.117)		GBM - Glioblastoma multiforme(99;1.72e-10)|COAD - Colon adenocarcinoma(199;0.208)		ACATTTAATTCGACATGGTCA	0.368													23	24					0	0	0.01892	0	0		T	50495695	T	T	50495695	3	4	118	1	0	0	0	0	1	0	0	0	1720	893	31	1	186	1	C13orf1	13	50495695	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	589585	50495695	64674183	173	66481											
PCDH20	64881	broad.mit.edu	37	chr13	61985915	61985915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacagcattcatgcctgtgtCtttgtcgacagcatagactt	9	13	9	10	1	2	1	1	0	1	1	3	3	2	1	1	0	3	2	1	0	1	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr13:61985915C>T	uc001vid.3	-	2	2681	c.2317G>A	c.(2317-2319)GAC>AAC	p.D773N	PCDH20_uc010thj.1_Missense_Mutation_p.D773N	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	746	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		ATGCCTGTGTCTTTGTCGACA	0.453													24	53					0	0	0.01892	0	0		T	61985915	T	T	61985915	3	4	118	1	0	0	0	0	1	0	0	0	11534	913	32	4	542	4	PCDH20	13	61985915	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	11490220	61985915	53183963	174	66482											
KLF12	11278	broad.mit.edu	37	chr13	74420392	74420392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtttattgacaagtccactGgctcagtttgtgtttggaag	8	16	11	6	0	1	1	1	1	0	0	2	2	2	2	1	2	0	4	1	2	3	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr13:74420392G>A	uc001vjf.2	-	4	464	c.242C>T	c.(241-243)CCA>CTA	p.P81L	KLF12_uc010aeq.2_Missense_Mutation_p.P81L|KLF12_uc001vjg.3_Missense_Mutation_p.P81L	NM_007249	NP_009180	Q9Y4X4	KLF12_HUMAN	Kruppel-like factor 12	81					negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Prostate(6;0.00217)|Breast(118;0.0838)		GBM - Glioblastoma multiforme(99;0.00677)		CAAGTCCACTGGCTCAGTTTG	0.498													25	58					0	0	0.005443	0	0		A	74420392	A	A	74420392	3	1	118	1	0	0	0	0	1	0	0	0	8356	1348	47	4	986	4	KLF12	13	74420392	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	12434477	74420392	40749486	175	66483											
SLITRK1	114798	broad.mit.edu	37	chr13	84454002	84454002	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcagcacttcggaaccCaagcgttctgcccactgctt	8	10	7	16	2	3	0	2	0	1	0	4	1	3	1	2	1	5	3	2	1	2	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr13:84454002C>T	uc001vlk.2	-	1	2527	c.1641G>A	c.(1639-1641)TTG>TTA	p.L547L		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	547	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CTTCGGAACCCAAGCGTTCTG	0.532													5	40					0	0	0.014758	0	0		T	84454002	T	T	84454002	2	4	118	1	0	0	0	0	0	0	0	1	14767	593	21	4		4	SLITRK1	13	84454002	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	10033610	84454002	30715876	176	66484											
SLITRK5	26050	broad.mit.edu	37	chr13	88329436	88329436	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaaggcgcccaaaaaatTcgctgagaccgacatgcgct	12	7	10	12	4	0	1	0	1	0	1	1	3	0	1	2	1	1	3	2	1	4	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr13:88329436T>A	uc001vln.2	+	2	2012	c.1793T>A	c.(1792-1794)TTC>TAC	p.F598Y	SLITRK5_uc010tic.1_Missense_Mutation_p.F357Y	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	598	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CCCAAAAAATTCGCTGAGACC	0.542													58	87					0	0	0.01441	0	0		A	88329436	A	A	88329436	3	1	118	1	0	0	0	0	1	0	0	0	14771	1783	62	5	1795	5	SLITRK5	13	88329436	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	3875434	88329436	26840442	177	66485											
FAM155A	728215	broad.mit.edu	37	chr13	108518853	108518853	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttctgagccctctcggaaTcgatgaacggtttctcgttc	7	14	9	11	4	3	2	0	2	3	0	7	4	3	3	1	2	2	2	1	2	2	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr13:108518853T>C	uc001vql.2	-	1	608	c.92A>G	c.(91-93)GAT>GGT	p.D31G		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	31						integral to membrane	binding			skin(1)	1						CCTCTCGGAATCGATGAACGG	0.527													51	113					0	0	0.01441	0	0		C	108518853	C	C	108518853	3	2	118	1	0	0	0	0	1	0	0	0	5476	1435	50	3	1296	3	FAM155A	13	108518853	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	20189417	108518853	6651025	178	66486											
ATP11A	23250	broad.mit.edu	37	chr13	113470426	113470426	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtcatggttaaggaggaCgagacctttccctgcgactt	9	12	11	9	2	1	1	1	0	0	1	2	5	2	3	2	3	1	1	2	3	1	4	rs140428971		TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr13:113470426C>T	uc001vsi.3	+	6	559	c.471C>T	c.(469-471)GAC>GAT	p.D157D	ATP11A_uc001vsj.3_Silent_p.D157D|ATP11A_uc001vsm.1_Silent_p.D33D	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	157	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				TTAAGGAGGACGAGACCTTTC	0.557													15	30					0	0	0.004007	0	0		T	113470426	T	T	113470426	2	4	118	1	0	0	0	0	0	0	0	1	1120	535	19	1		1	ATP11A	13	113470426	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	4951573	113470426	1699452	179	66487											
NFATC4	4776	broad.mit.edu	37	chr14	24845265	24845265	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttttatgtctccaatgggCggaggaaacgcagtcctacc	10	10	10	11	2	1	0	0	0	1	0	3	2	2	2	3	3	2	1	3	3	4	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr14:24845265C>T	uc001wpc.2	+	8	2335	c.2014C>T	c.(2014-2016)CGG>TGG	p.R672W	NFATC4_uc010tok.1_Missense_Mutation_p.R735W|NFATC4_uc010tol.1_Missense_Mutation_p.R735W|NFATC4_uc010alr.2_Missense_Mutation_p.R735W|NFATC4_uc010tom.1_Missense_Mutation_p.R685W|NFATC4_uc010ton.1_Missense_Mutation_p.R685W|NFATC4_uc010too.1_Missense_Mutation_p.R685W|NFATC4_uc010alt.2_Missense_Mutation_p.R704W|NFATC4_uc010top.1_Missense_Mutation_p.R704W|NFATC4_uc010toq.1_Missense_Mutation_p.R704W|NFATC4_uc010tor.1_Missense_Mutation_p.R672W|NFATC4_uc010tos.1_Missense_Mutation_p.R602W|NFATC4_uc010tot.1_Missense_Mutation_p.R660W|NFATC4_uc010tou.1_Missense_Mutation_p.R602W|NFATC4_uc010tov.1_Missense_Mutation_p.R660W|NFATC4_uc010tow.1_Missense_Mutation_p.R602W|NFATC4_uc010alv.2_Missense_Mutation_p.R660W|NFATC4_uc010tox.1_Missense_Mutation_p.R602W|NFATC4_uc001wpd.2_Missense_Mutation_p.R207W|NFATC4_uc010toy.1_Missense_Mutation_p.R207W|NFATC4_uc010toz.1_Missense_Mutation_p.R207W|NFATC4_uc010tpa.1_5'UTR|NFATC4_uc010tpb.1_5'UTR	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	672	Nuclear localization signal.|IPT/TIG.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		CTCCAATGGGCGGAGGAAACG	0.567													48	65					0	0	0.01441	0	0		T	24845265	T	T	24845265	3	4	118	1	0	0	0	0	1	0	0	0	10384	759	27	1	2237	1	NFATC4	14	24845265	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08		24845265	82504275	180	66488											
PLEKHH1	57475	broad.mit.edu	37	chr14	68045912	68045912	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagcggaccctgcggaccGgggagcgggaagccaggcca	8	2	19	12	4	0	0	0	0	0	0	0	5	0	5	4	7	4	0	4	7	1	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr14:68045912G>A	uc001xjl.1	+	21	3053	c.2911G>A	c.(2911-2913)GGG>AGG	p.G971R	PLEKHH1_uc010tsw.1_Missense_Mutation_p.G539R|PLEKHH1_uc001xjn.1_Missense_Mutation_p.G486R|PLEKHH1_uc010tsx.1_5'UTR|PLEKHH1_uc001xjo.1_5'Flank|PLEKHH1_uc001xjp.1_5'Flank	NM_020715	NP_065766	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H	971	MyTH4.					cytoskeleton	binding				0				all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)		CCTGCGGACCGGGGAGCGGGA	0.602													3	8					0	0	0.004672	0	0		A	68045912	A	A	68045912	3	1	118	1	0	0	0	0	1	0	0	0	12095	1116	39	1	2989	1	PLEKHH1	14	68045912	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	43200647	68045912	39303628	181	66489											
ZFYVE1	53349	broad.mit.edu	37	chr14	73459883	73459883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgactcccgggtgccGgggagaacgggtggtgttat	8	8	18	7	3	0	3	0	1	0	2	1	5	1	3	2	5	2	1	2	5	3	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr14:73459883G>A	uc001xnm.2	-	4	1811	c.1171C>T	c.(1171-1173)CGG>TGG	p.R391W	ZFYVE1_uc010arj.2_Missense_Mutation_p.R391W	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	391						endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		CCCGGGTGCCGGGGAGAACGG	0.567													18	34					0	0	0.006122	0	0		A	73459883	A	A	73459883	3	1	118	1	0	0	0	0	1	0	0	0	17688	1115	39	1	1198	1	ZFYVE1	14	73459883	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	5413971	73459883	33889657	182	66490											
BCL11B	64919	broad.mit.edu	37	chr14	99641074	99641074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttctcggacgggatgagcGcggcgggcggcagctccagg	5	5	19	12	7	1	1	0	1	1	0	3	3	2	3	1	6	2	3	1	6	0	1	rs115625258	by1000genomes	TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr14:99641074G>A	uc001yga.2	-	4	2366	c.2099C>T	c.(2098-2100)GCG>GTG	p.A700V	BCL11B_uc001ygb.2_Missense_Mutation_p.A629V	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	700						nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		CGGGATGAGCGCGGCGGGCGG	0.701			T	TLX3	T-ALL								8	10					0	0	0.006214	0	0		A	99641074	A	A	99641074	3	1	118	1	0	0	0	0	1	0	0	0	1365	1087	38	1	589	1	BCL11B	14	99641074	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	26181191	99641074	7708466	183	66491											
YY1	7528	broad.mit.edu	37	chr14	100728767	100728767	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggaatacctggcattgAcctctcagatcccaaacaac	13	8	8	12	0	1	2	1	1	1	1	3	4	2	4	3	3	3	1	3	3	4	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr14:100728767A>G	uc001ygy.1	+	2	1286	c.806A>G	c.(805-807)GAC>GGC	p.D269G		NM_003403	NP_003394	P25490	TYY1_HUMAN	YY1 transcription factor	269	Involved in nuclear matrix association.				cell differentiation|cellular response to UV|double-strand break repair via homologous recombination|negative regulation of transcription from RNA polymerase II promoter|response to UV-C|spermatogenesis	Ino80 complex|nuclear matrix|plasma membrane	four-way junction DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding				0		Melanoma(154;0.152)				CCTGGCATTGACCTCTCAGAT	0.393													24	35					0	0	0.01892	0	0		G	100728767	G	G	100728767	3	3	118	1	0	0	0	0	1	0	0	0	17533	275	10	3	812	3	YY1	14	100728767	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	1087693	100728767	6620773	184	66492											
CDC42BPB	9578	broad.mit.edu	37	chr14	103430900	103430900	+	Frame_Shift_Del	DEL	C	-	-																															ctcctggacaagctgcttggCccggatctccgcctccaggg																										TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr14:103430900delC	uc001ymi.1	-	19	2897	c.2665delG	c.(2665-2667)GCCfs	p.A889fs	CDC42BPB_uc001ymj.1_Frame_Shift_Del_p.A17fs	NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	889	Potential.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		AGCTGCTTGGCCCGGATCTCC	0.637													11	12	---	---	---	---						.	-	103430900	-	-	103430900	7	5	118	1	0	1	0	1	0	0	0	0	3076	739	26	0	2546	0	CDC42BPB	14	103430900	Frame_Shift_Del	DEL	C	TCGA-CD-8531-01A-11D-2340-08	2702133	103430900	3918640	185	66493											
AHNAK2	113146	broad.mit.edu	37	chr14	105412335	105412335	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcagacaccccgaacgaCggcatcttgaacttgggcat	10	6	13	12	3	1	2	0	1	1	1	1	4	1	2	2	4	2	3	2	4	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr14:105412335C>T	uc010axc.1	-	7	9573	c.9453G>A	c.(9451-9453)CCG>CCA	p.P3151P	AHNAK2_uc001ypx.2_Silent_p.P3051P	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3151						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCCCGAACGACGGCATCTTGA	0.602													128	207					0	0	0.01441	0	0		T	105412335	T	T	105412335	2	4	118	1	0	0	0	0	0	0	0	1	415	523	19	1		1	AHNAK2	14	105412335	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	1981435	105412335	1937205	186	66494											
OR4M2	390538	broad.mit.edu	37	chr15	22368747	22368747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tagaccctcatctgacctctCctatgtatttcctgttggct	6	16	6	13	0	3	2	1	1	2	1	5	2	4	2	4	1	0	3	4	1	3	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr15:22368747C>T	uc010tzu.1	+	1	172	c.172C>T	c.(172-174)CCT>TCT	p.P58S	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TCTGACCTCTCCTATGTATTT	0.398													96	423					0	0	0.01441	0	0		T	22368747	T	T	22368747	3	4	118	1	0	0	0	0	1	0	0	0	11095	855	30	4	174	4	OR4M2	15	22368747	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08		22368747	80162645	187	66495											
TJP1	7082	broad.mit.edu	37	chr15	30010720	30010720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctcaaaatgacctgctctaGaggtaaatccttggggtggt	10	11	12	8	0	2	2	1	1	1	1	3	2	3	2	2	4	1	3	2	4	5	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr15:30010720G>A	uc001zcr.2	-	21	4101	c.3626C>T	c.(3625-3627)TCT>TTT	p.S1209F	TJP1_uc010azl.2_Missense_Mutation_p.S1197F|TJP1_uc001zcq.2_Missense_Mutation_p.S1133F|TJP1_uc001zcs.2_Missense_Mutation_p.S1129F	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	1209					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		ACCTGCTCTAGAGGTAAATCC	0.522													24	39					0	0	0.016522	0	0		A	30010720	A	A	30010720	3	1	118	1	0	0	0	0	1	0	0	0	15954	942	33	4	1652	4	TJP1	15	30010720	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	7641973	30010720	72520672	188	66496											
THBS1	7057	broad.mit.edu	37	chr15	39874438	39874438	+	Frame_Shift_Del	DEL	G	-	-																															ttgacatctttgaactcaccGgggccgcccgcaaggggtct																										TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr15:39874438delG	uc001zkh.2	+	3	291	c.112delG	c.(112-114)GGGfs	p.G38fs		NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	38	TSP N-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	TGAACTCACCGGGGCCGCCCG	0.612													14	23	---	---	---	---						.	-	39874438	-	-	39874438	7	5	118	1	0	1	0	1	0	0	0	0	15878	1116	39	0	118	0	THBS1	15	39874438	Frame_Shift_Del	DEL	G	TCGA-CD-8531-01A-11D-2340-08	9863718	39874438	62656954	189	66497											
PLCB2	5330	broad.mit.edu	37	chr15	40590080	40590080	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggcctggatacgcacgaGtccacatggttctcaaacga	11	8	11	11	3	1	0	1	0	1	0	3	3	2	1	2	3	2	2	2	3	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr15:40590080G>A	uc001zld.2	-	12	1537	c.1236C>T	c.(1234-1236)GAC>GAT	p.D412D	PLCB2_uc010bbo.2_Silent_p.D412D|PLCB2_uc010ucm.1_Silent_p.D412D	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	412	PI-PLC X-box.				activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		ATACGCACGAGTCCACATGGT	0.557													9	17					0	0	0.008291	0	0		A	40590080	A	A	40590080	2	1	118	1	0	0	0	0	0	0	0	1	12047	1020	36	4		4	PLCB2	15	40590080	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	715642	40590080	61941312	190	66498											
MGA	23269	broad.mit.edu	37	chr15	42003115	42003115	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttccccttctacctcttaTtctttgaaacctcattctgt	7	19	2	13	0	5	1	1	1	4	0	6	1	6	1	4	0	2	0	4	0	3	7			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr15:42003115T>G	uc001zog.1	+	8	2743	c.2652T>G	c.(2650-2652)TAT>TAG	p.Y884*	MGA_uc010ucy.1_Nonsense_Mutation_p.Y884*|MGA_uc010ucz.1_Nonsense_Mutation_p.Y884*	NM_001080541	NP_001074010	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 2	884						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		CTACCTCTTATTCTTTGAAAC	0.418													41	64					0	0	0.00874	0	0		G	42003115	G	G	42003115	4	3	118	1	0	0	0	0	0	1	0	0	9558	1500	52	5	2678	5	MGA	15	42003115	Nonsense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	1413035	42003115	60528277	191	66499											
MAPKBP1	23005	broad.mit.edu	37	chr15	42111038	42111038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgcatatttgtgtggcGcctgagctctgagatgacca	8	11	12	10	1	1	3	0	3	1	1	1	4	1	3	2	1	3	3	2	1	1	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr15:42111038G>A	uc001zok.3	+	21	2478	c.2192G>A	c.(2191-2193)CGC>CAC	p.R731H	MAPKBP1_uc001zoj.3_Missense_Mutation_p.R725H|MAPKBP1_uc010bcj.2_Missense_Mutation_p.R232H|MAPKBP1_uc010bci.2_Missense_Mutation_p.R725H|MAPKBP1_uc010udb.1_Missense_Mutation_p.R564H|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_Missense_Mutation_p.R232H	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	731	WD 12.									central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		TTTGTGTGGCGCCTGAGCTCT	0.592													22	24					0	0	0.016522	0	0		A	42111038	A	A	42111038	3	1	118	1	0	0	0	0	1	0	0	0	9310	1087	38	1	2270	1	MAPKBP1	15	42111038	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	107923	42111038	60420354	192	66500											
WDR76	79968	broad.mit.edu	37	chr15	44120184	44120184	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaatgaatataaagaaaatCaaaacatcgcttatgtgtct	19	12	5	5	1	2	2	1	1	1	1	3	2	2	2	0	0	1	1	0	0	11	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr15:44120184C>T	uc001zti.1	+	2	105	c.82C>T	c.(82-84)CAA>TAA	p.Q28*		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	28											0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)		TAAAGAAAATCAAAACATCGC	0.358													12	15					0	0	0.016723	0	0		T	44120184	T	T	44120184	4	4	118	1	0	0	0	0	0	1	0	0	17352	827	29	4	88	4	WDR76	15	44120184	Nonsense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	2009146	44120184	58411208	193	66501											
SIN3A	25942	broad.mit.edu	37	chr15	75703974	75703974	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggatggggccgttcccaaCgagattgtcactggtgtgtg	8	10	15	8	2	1	1	1	0	0	1	2	3	2	2	2	4	1	1	2	4	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr15:75703974C>T	uc002bai.2	-	6	1126	c.867G>A	c.(865-867)TCG>TCA	p.S289S	SIN3A_uc002baj.2_Silent_p.S289S|SIN3A_uc010uml.1_Silent_p.S289S	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	289	Interaction with REST (By similarity).				blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						CCGTTCCCAACGAGATTGTCA	0.522													61	85					0	0	0.01441	0	0		T	75703974	T	T	75703974	2	4	118	1	0	0	0	0	0	0	0	1	14350	523	19	1		1	SIN3A	15	75703974	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	31583790	75703974	26827418	194	66502											
RLBP1	6017	broad.mit.edu	37	chr15	89760390	89760390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcccacgttgaacttccGtgcgcggatgaagcgcagga	9	6	14	12	6	0	2	0	2	0	0	1	4	1	4	2	3	3	2	2	3	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr15:89760390G>A	uc002bnl.2	-	5	687	c.307C>T	c.(307-309)CGG>TGG	p.R103W		NM_000326	NP_000317	P12271	RLBP1_HUMAN	retinaldehyde binding protein 1	103					response to stimulus|visual perception|vitamin A metabolic process	cytoplasm|soluble fraction	retinol binding|transporter activity			central_nervous_system(1)	1	Lung NSC(78;0.0472)|all_lung(78;0.089)				Vitamin A(DB00162)	TTGAACTTCCGTGCGCGGATG	0.672													12	20					0	0	0.010729	0	0		A	89760390	A	A	89760390	3	1	118	1	0	0	0	0	1	0	0	0	13413	1144	40	1	666	1	RLBP1	15	89760390	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	14056416	89760390	12771002	195	66503											
TRAF7	84231	broad.mit.edu	37	chr16	2223541	2223541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatggagttccggcgggacGcatccatgttaaatgtgagc	9	10	13	9	3	1	1	1	1	0	0	3	3	3	3	2	3	1	3	2	3	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr16:2223541G>A	uc002cow.2	+	11	1171	c.1072G>A	c.(1072-1074)GCA>ACA	p.A358T		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	358					activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						CCGGCGGGACGCATCCATGTT	0.672													15	17					0	0	0.003163	0	0		A	2223541	A	A	2223541	3	1	118	1	0	0	0	0	1	0	0	0	16472	1087	38	1	1110	1	TRAF7	16	2223541	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08		2223541	88131212	196	66504											
SYT17	51760	broad.mit.edu	37	chr16	19278368	19278368	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgagctgagtgtgaccgCgtgtctcctgcctccctgga	4	10	12	15	3	1	2	0	2	1	0	4	4	3	3	5	1	2	1	5	1	0	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr16:19278368C>T	uc002dfw.2	+	8	1726	c.1395C>T	c.(1393-1395)CGC>CGT	p.R465R	SYT17_uc002dfx.2_Silent_p.R404R|SYT17_uc002dfy.2_Silent_p.R461R	NM_016524	NP_057608	Q9BSW7	SYT17_HUMAN	B/K protein	465						membrane|synaptic vesicle	transporter activity			ovary(1)	1						AGTGTGACCGCGTGTCTCCTG	0.542													9	11					0	0	0.004482	0	0		T	19278368	T	T	19278368	2	4	118	1	0	0	0	0	0	0	0	1	15498	755	27	1		1	SYT17	16	19278368	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	17054827	19278368	71076385	197	66505											
GPR139	124274	broad.mit.edu	37	chr16	20043163	20043163	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggggctacttgttatggaaAagttatgattggtgtagaac	12	13	13	3	0	0	2	0	1	0	1	0	3	0	3	0	4	2	4	0	4	7	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr16:20043163A>T	uc002dgu.1	-	2	1118	c.956T>A	c.(955-957)TTT>TAT	p.F319Y	GPR139_uc010vaw.1_Missense_Mutation_p.F226Y	NM_001002911	NP_001002911	Q6DWJ6	GP139_HUMAN	G protein-coupled receptor 139	319	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)	2						TGTTATGGAAAAGTTATGATT	0.478													32	53					0	0	0.017118	0	0		T	20043163	T	T	20043163	3	4	118	1	0	0	0	0	1	0	0	0	6663	14	1	5	109	5	GPR139	16	20043163	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	764795	20043163	70311590	198	66506											
CORO1A	11151	broad.mit.edu	37	chr16	30199729	30199729	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacccaccgcagggcccgaCcctgccctcacggctgagga	7	3	11	20	3	1	1	1	1	0	0	1	3	1	2	6	3	1	2	6	3	0	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr16:30199729C>A	uc002dww.2	+	10	1235	c.1113C>A	c.(1111-1113)GAC>GAA	p.D371E	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|CORO1A_uc010bzq.2_Missense_Mutation_p.D371E|CORO1A_uc010bzr.2_Intron|CORO1A_uc002dwx.2_Missense_Mutation_p.D265E|CORO1A_uc002dwy.1_3'UTR|LOC606724_uc002dwz.1_5'Flank	NM_007074	NP_009005	P31146	COR1A_HUMAN	coronin, actin binding protein, 1A	371					cell-substrate adhesion|innate immune response|leukocyte chemotaxis|negative regulation of actin nucleation|phagolysosome assembly|positive chemotaxis|regulation of cell shape|uropod organization	actin filament|cortical actin cytoskeleton|lamellipodium|phagocytic cup|phagocytic vesicle membrane	actin filament binding|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein homodimerization activity				0						CAGGGCCCGACCCTGCCCTCA	0.662													34	49					2.48696e-23	2.70107e-23	0.015359	1	0		A	30199729	A	A	30199729	3	1	118	1	0	0	0	0	1	0	0	0	3756	506	18	5	1147	5	CORO1A	16	30199729	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	10156566	30199729	60155024	199	66507											
MT1M	4499	broad.mit.edu	37	chr16	56667308	56667308	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagtgcaaatgcacctccTgcaagaagagtgagtgcggg	13	6	14	8	1	0	4	0	1	0	3	1	4	1	4	2	1	4	3	2	1	4	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr16:56667308T>A	uc002ejn.2	+	2	195	c.85T>A	c.(85-87)TGC>AGC	p.C29S	MT1A_uc002eji.2_Intron|MT1M_uc010vhe.1_RNA|uc002ejo.1_5'Flank|uc002ejp.1_5'Flank	NM_176870	NP_789846	Q8N339	MT1M_HUMAN	metallothionein 1M	29	Beta.	Divalent metal cation; cluster B.					metal ion binding			ovary(1)	1						ATGCACCTCCTGCAAGAAGAG	0.587													33	44					0	0	0.010818	0	0		A	56667308	A	A	56667308	3	1	118	1	0	0	0	0	1	0	0	0	9921	1580	55	5	91	5	MT1M	16	56667308	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	26467579	56667308	33687445	200	66508											
ANKRD11	29123	broad.mit.edu	37	chr16	89337295	89337295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggcgttgaaacggtcgCgcactgacttgttctcgtca	6	10	14	11	6	2	2	1	2	1	0	4	2	2	2	0	3	1	3	0	3	1	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr16:89337295C>T	uc002fmx.1	-	12	8197	c.7736G>A	c.(7735-7737)CGC>CAC	p.R2579H	ANKRD11_uc002fmy.1_Missense_Mutation_p.R2579H|uc002fmz.1_RNA	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	2579						nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		GAAACGGTCGCGCACTGACTT	0.597													10	17					0	0	0.006214	0	0		T	89337295	T	T	89337295	3	4	118	1	0	0	0	0	1	0	0	0	639	768	27	1	263	1	ANKRD11	16	89337295	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	32669987	89337295	1017458	201	66509											
TNFSF12-TNFSF13	407977	broad.mit.edu	37	chr17	7463198	7463198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacctggttcccattaacGccacctccaagggtgagcac	9	8	9	15	1	0	1	0	1	0	0	2	1	2	1	5	2	3	3	5	2	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr17:7463198G>A	uc002ghi.1	+	8	668	c.613G>A	c.(613-615)GCC>ACC	p.A205T	SENP3_uc002ghm.2_5'Flank|TNFSF13_uc002ghj.2_Missense_Mutation_p.A125T|TNFSF13_uc002ghk.2_Missense_Mutation_p.A125T|TNFSF13_uc002ghl.2_Intron|TNFSF13_uc010cmk.2_Missense_Mutation_p.A98T|TNFSF13_uc010vua.1_Missense_Mutation_p.A97T	NM_172089	NP_742086	Q8IZK7	Q8IZK7_HUMAN	TNFSF12-TNFSF13 protein	205					immune response	extracellular space|membrane	cytokine activity|tumor necrosis factor receptor binding				0		Prostate(122;0.157)				TCCCATTAACGCCACCTCCAA	0.557											OREG0024138	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	40					0	0	0.00499	0	0		A	7463198	A	A	7463198	3	1	118	1	0	0	0	0	1	0	0	0	16329	1087	38	1	643	1	TNFSF12-TNFSF13	17	7463198	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08		7463198	73732012	202	66510											
TP53	7157	broad.mit.edu	37	chr17	7577556	7577556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccggttcatgccgcccatgCaggaactgttacacatgtag	9	10	10	12	2	1	0	1	0	0	0	2	1	2	1	3	2	4	4	3	2	3	3	rs121912655		TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr17:7577556C>T	uc002gim.2	-	7	919	c.725G>A	c.(724-726)TGC>TAC	p.C242Y	TP53_uc002gig.1_Missense_Mutation_p.C242Y|TP53_uc002gih.2_Missense_Mutation_p.C242Y|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C110Y|TP53_uc010cng.1_Missense_Mutation_p.C110Y|TP53_uc002gii.1_Missense_Mutation_p.C110Y|TP53_uc010cnh.1_Missense_Mutation_p.C242Y|TP53_uc010cni.1_Missense_Mutation_p.C242Y|TP53_uc002gij.2_Missense_Mutation_p.C242Y|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C149Y|TP53_uc002gio.2_Missense_Mutation_p.C110Y	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	242	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).	Zinc.	C -> F (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C242F(63)|p.C242Y(37)|p.C242S(25)|p.C242fs*5(16)|p.C242R(11)|p.C242W(7)|p.0?(7)|p.N239_C242delNSSC(3)|p.C242*(3)|p.C242C(2)|p.C242G(2)|p.C242fs*20(1)|p.C242fs*23(1)|p.Y236_M243delYMCNSSCM(1)|p.C242_M246>L(1)|p.N239fs*4(1)|p.C238_M246delCNSSCMGGM(1)|p.S241_C242insX(1)|p.C238fs*21(1)|p.C242fs*98(1)|p.H233_C242del10(1)|p.N239_C242>S(1)|p.S241_G245delSCMGG(1)|p.N239_C242del(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCCGCCCATGCAGGAACTGTT	0.577		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			16	17					0	0	0.00499	0	0		T	7577556	T	T	7577556	3	4	118	1	0	0	0	0	1	0	0	0	16407	710	25	2	565	2	TP53	17	7577556	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	114358	7577556	73617654	203	66511											
TMEM97	27346	broad.mit.edu	37	chr17	26646362	26646362	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttcatggacctgcaggcgGtgctgccgcgcgagctctac	5	9	14	13	4	2	0	1	0	1	0	2	2	2	1	2	3	5	4	2	3	1	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr17:26646362G>C	uc002hat.2	+	1	242	c.97G>C	c.(97-99)GTG>CTG	p.V33L		NM_014573	NP_055388	Q5BJF2	TMM97_HUMAN	transmembrane protein 97	33	Extracellular (Potential).				cholesterol homeostasis|regulation of cell growth	integral to membrane|lysosome|nuclear membrane|plasma membrane|rough endoplasmic reticulum	protein binding				0	all_lung(13;0.000238)|Lung NSC(42;0.000789)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		CCTGCAGGCGGTGCTGCCGCG	0.687													5	22					0	0	0.014758	0	0		C	26646362	C	C	26646362	3	2	118	1	0	0	0	0	1	0	0	0	16249	1261	44	5	99	5	TMEM97	17	26646362	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	19068806	26646362	54548848	204	66512											
SLC13A2	9058	broad.mit.edu	37	chr17	26817568	26817568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacctgcataaacgcatcGccctccgtgtcctcctcatc	8	9	7	17	3	1	0	1	0	0	0	6	1	4	1	5	1	3	2	5	1	3	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr17:26817568G>A	uc002hbh.2	+	3	395	c.328G>A	c.(328-330)GCC>ACC	p.A110T	SLC13A2_uc010wal.1_Missense_Mutation_p.A67T|SLC13A2_uc010wam.1_Missense_Mutation_p.A66T|SLC13A2_uc010wan.1_Missense_Mutation_p.A159T|SLC13A2_uc010wao.1_Missense_Mutation_p.A67T|SLC13A2_uc002hbi.2_Missense_Mutation_p.A39T	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	110						integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	TAAACGCATCGCCCTCCGTGT	0.607													30	67					0	0	0.009535	0	0		A	26817568	A	A	26817568	3	1	118	1	0	0	0	0	1	0	0	0	14417	1087	38	1	485	1	SLC13A2	17	26817568	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	171206	26817568	54377642	205	66513											
GRN	2896	broad.mit.edu	37	chr17	42426659	42426659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccagctacagctgctgcCgtccccttctggtgagtgcc	5	9	12	15	1	1	1	0	1	1	0	2	2	2	1	5	1	7	3	5	1	1	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr17:42426659C>T	uc002igp.1	+	2	346	c.127C>T	c.(127-129)CGT>TGT	p.R43C	GRN_uc002igq.1_Missense_Mutation_p.R43C|GRN_uc002igr.1_5'Flank	NM_002087	NP_002078	P28799	GRN_HUMAN	granulin precursor	43					signal transduction	extracellular space	cytokine activity|growth factor activity			ovary(2)|central_nervous_system(2)|skin(1)	5		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		CAGCTGCTGCCGTCCCCTTCT	0.637													38	4					0	0	0.021022	0	0		T	42426659	T	T	42426659	3	4	118	1	0	0	0	0	1	0	0	0	6820	652	23	1	129	1	GRN	17	42426659	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	15609091	42426659	38768551	206	66514											
C17orf82	388407	broad.mit.edu	37	chr17	59489668	59489668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtccgagcacgcccggggcgGttttgcacttggacttcctt	4	11	13	13	4	0	0	0	0	0	0	2	2	2	1	3	4	2	3	3	4	0	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr17:59489668G>A	uc002izh.1	+	1	557	c.332G>A	c.(331-333)GGT>GAT	p.G111D		NM_203425	NP_982249	Q86X59	CQ082_HUMAN	hypothetical protein LOC388407	111											0						GCCCGGGGCGGTTTTGCACTT	0.667											OREG0024630	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	6					0	0	0.004007	0	0		A	59489668	A	A	59489668	3	1	118	1	0	0	0	0	1	0	0	0	1890	1261	44	4	334	4	C17orf82	17	59489668	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	17063009	59489668	21705542	207	66515											
GNA13	10672	broad.mit.edu	37	chr17	63052588	63052588	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagccgcttcacataggtctTttcccgagacaggcatttgt	8	12	9	12	2	2	1	1	0	1	1	3	2	3	1	2	2	1	2	2	2	1	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr17:63052588T>C	uc002jfc.2	-	1	333	c.124A>G	c.(124-126)AAG>GAG	p.K42E	GNA13_uc010wqh.1_5'Flank	NM_006572	NP_006563	Q14344	GNA13_HUMAN	guanine nucleotide binding protein (G protein),	42					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase D activity|cellular component movement|platelet activation|Rho protein signal transduction	brush border membrane|heterotrimeric G-protein complex|melanosome	D5 dopamine receptor binding|G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|signal transducer activity|type 1 angiotensin receptor binding				0						ACATAGGTCTTTTCCCGAGAC	0.622													97	28					0	0	0.01441	0	0		C	63052588	C	C	63052588	3	2	118	1	0	0	0	0	1	0	0	0	6516	1850	64	3	1025	3	GNA13	17	63052588	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	3562920	63052588	18142622	208	66516											
GNA13	10672	broad.mit.edu	37	chr17	63052626	63052626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcgatctccttggacttgCgttgctgctcggcctcgcca	3	13	11	14	4	1	0	0	0	1	0	5	2	1	1	3	2	3	3	3	2	0	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr17:63052626C>T	uc002jfc.2	-	1	295	c.86G>A	c.(85-87)CGC>CAC	p.R29H	GNA13_uc010wqh.1_5'Flank	NM_006572	NP_006563	Q14344	GNA13_HUMAN	guanine nucleotide binding protein (G protein),	29					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase D activity|cellular component movement|platelet activation|Rho protein signal transduction	brush border membrane|heterotrimeric G-protein complex|melanosome	D5 dopamine receptor binding|G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|signal transducer activity|type 1 angiotensin receptor binding				0						CTTGGACTTGCGTTGCTGCTC	0.597													103	28					0	0	0.01441	0	0		T	63052626	T	T	63052626	3	4	118	1	0	0	0	0	1	0	0	0	6516	768	27	1	1063	1	GNA13	17	63052626	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	38	63052626	18142584	209	66517											
GRB2	2885	broad.mit.edu	37	chr17	73389691	73389691	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagtagctttgaagtcatAtttggcgatggcttccattc	8	15	10	8	1	1	1	1	1	0	0	3	2	2	1	1	2	2	4	1	2	3	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr17:73389691A>C	uc002jnx.3	-	2	376	c.19T>G	c.(19-21)TAT>GAT	p.Y7D	GRB2_uc002jny.3_Missense_Mutation_p.Y7D	NM_002086	NP_002077	P62993	GRB2_HUMAN	growth factor receptor-bound protein 2 isoform	7	SH3 1.				axon guidance|blood coagulation|cell junction assembly|cell-cell signaling|cellular response to ionizing radiation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of reactive oxygen species metabolic process|Ras protein signal transduction|receptor internalization|signal transduction in response to DNA damage|T cell costimulation	cytosol|Golgi apparatus	epidermal growth factor receptor binding|insulin receptor substrate binding|SH3/SH2 adaptor activity			ovary(3)	3	all_cancers(13;5.44e-09)|all_epithelial(9;1.1e-09)|Breast(9;1.85e-09)|all_lung(278;0.222)		all cancers(21;1.09e-07)|Epithelial(20;1.23e-06)|Lung(188;0.185)		Pegademase bovine(DB00061)	TTGAAGTCATATTTGGCGATG	0.562													107	20					0	0	0.01441	0	0		C	73389691	C	C	73389691	3	2	118	1	0	0	0	0	1	0	0	0	6774	449	16	5	654	5	GRB2	17	73389691	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	10337065	73389691	7805519	210	66518											
SLC16A3	9123	broad.mit.edu	37	chr17	80194605	80194605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcagctgctgccctctccagGtccgctctgcagtgtgtgcg	3	11	12	15	2	3	0	1	0	2	0	5	0	4	0	3	1	5	4	3	1	0	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr17:80194605G>A	uc002kea.2	+	3	363	c.224G>A	c.(223-225)GGT>GAT	p.G75D	SLC16A3_uc002kee.2_Missense_Mutation_p.G75D|SLC16A3_uc002keb.2_Missense_Mutation_p.G75D|SLC16A3_uc002kec.2_Missense_Mutation_p.G75D|SLC16A3_uc002ked.2_Missense_Mutation_p.G75D	NM_001042422	NP_001035887	O15427	MOT4_HUMAN	solute carrier family 16, member 3	75	Helical; (Potential).				blood coagulation|leukocyte migration|organic anion transport|pyruvate metabolic process	actin cytoskeleton|integral to plasma membrane|membrane fraction|nuclear membrane	secondary active monocarboxylate transmembrane transporter activity|symporter activity			upper_aerodigestive_tract(1)|lung(1)	2	Breast(20;0.00285)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.227)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0149)		Pyruvic acid(DB00119)	CCCTCTCCAGGTCCGCTCTGC	0.682											OREG0024821	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	35					0	0	0.005443	0	0		A	80194605	A	A	80194605	3	1	118	1	0	0	0	0	1	0	0	0	14434	1275	44	4	230	4	SLC16A3	17	80194605	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	6804914	80194605	1000605	211	66519											
PTPRM	5797	broad.mit.edu	37	chr18	7926570	7926570	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctttttctttatgtagccagGactcctcacttcctgcggat	6	16	7	12	1	2	0	1	0	1	0	4	2	4	2	3	2	2	1	3	2	2	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr18:7926570G>T	uc002knn.3	+	5	1055	c.552G>T	c.(550-552)AGG>AGT	p.R184S	PTPRM_uc010dkv.2_Missense_Mutation_p.R184S	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	184	MAM.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				ATGTAGCCAGGACTCCTCACT	0.418													16	29					4.14922e-12	4.40435e-12	0.004007	1	0		T	7926570	T	T	7926570	3	4	118	1	0	0	0	0	1	0	0	0	12831	1165	41	5	570	5	PTPRM	18	7926570	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08		7926570	70150678	212	66520											
ABHD3	171586	broad.mit.edu	37	chr18	19283682	19283682	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaaggaagcggctgaaactCtcacccccggtcactaactg	11	7	10	13	2	2	2	2	2	1	0	3	3	2	3	2	3	3	1	2	3	4	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr18:19283682C>T	uc002ktl.2	-	2	329	c.189G>A	c.(187-189)GAG>GAA	p.E63E	ABHD3_uc002ktm.2_Silent_p.E63E|ABHD3_uc010xao.1_Intron|MIB1_uc002ktp.2_5'Flank|ABHD3_uc002kto.2_Silent_p.E63E	NM_138340	NP_612213	Q8WU67	ABHD3_HUMAN	alpha/beta hydrolase domain containing protein	63						integral to membrane	carboxylesterase activity			central_nervous_system(1)	1						GGCTGAAACTCTCACCCCCGG	0.547													17	29					0	0	0.00499	0	0		T	19283682	T	T	19283682	2	4	118	1	0	0	0	0	0	0	0	1	83	912	32	4		4	ABHD3	18	19283682	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	11357112	19283682	58793566	213	66521											
RIT2	6014	broad.mit.edu	37	chr18	40323568	40323568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcatggactccttcttgcGaatttccctcactaagccat	8	13	7	13	1	2	0	1	0	1	0	4	2	4	1	3	2	2	1	3	2	2	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr18:40323568G>A	uc002lav.2	-	5	717	c.544C>T	c.(544-546)CGC>TGC	p.R182C	RIT2_uc010dnf.2_3'UTR	NM_002930	NP_002921	Q99578	RIT2_HUMAN	Ras-like without CAAX 2	182					nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1						TCCTTCTTGCGAATTTCCCTC	0.413													30	47					0	0	0.008361	0	0		A	40323568	A	A	40323568	3	1	118	1	0	0	0	0	1	0	0	0	13412	1058	37	1	113	1	RIT2	18	40323568	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	21039886	40323568	37753680	214	66522											
DOT1L	84444	broad.mit.edu	37	chr19	2191099	2191099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcaggtctacaaccactCggtgaccgaccccgagaagc	11	4	11	15	3	1	2	0	1	1	1	2	4	1	2	4	2	4	2	4	2	3	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:2191099C>T	uc002lvb.3	+	5	389	c.353C>T	c.(352-354)TCG>TTG	p.S118L		NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	118						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TACAACCACTCGGTGACCGAC	0.617													14	22					0	0	0.020292	0	0		T	2191099	T	T	2191099	3	4	118	1	0	0	0	0	1	0	0	0	4715	893	31	1	371	1	DOT1L	19	2191099	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08		2191099	56937884	215	66523											
ZNF77	58492	broad.mit.edu	37	chr19	2934551	2934551	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtccttgagtcctggcAattacagggtttctctacag	7	14	10	10	0	1	1	0	1	1	0	4	1	3	1	2	2	3	3	2	2	3	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:2934551A>T	uc002lws.3	-	4	705	c.574T>A	c.(574-576)TGC>AGC	p.C192S		NM_021217	NP_067040	Q15935	ZNF77_HUMAN	zinc finger protein 77	192					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|GBM - Glioblastoma multiforme(1328;2.11e-07)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.174)|STAD - Stomach adenocarcinoma(1328;0.18)		GAGTCCTGGCAATTACAGGGT	0.473													34	56					0	0	0.015359	0	0		T	2934551	T	T	2934551	3	4	118	1	0	0	0	0	1	0	0	0	18167	130	5	5	1067	5	ZNF77	19	2934551	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	743452	2934551	56194432	216	66524											
CD209	30835	broad.mit.edu	37	chr19	7809857	7809857	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacttttgattacgacgagCtgggcccccacttctttgca	7	12	9	13	2	1	1	0	1	1	0	1	3	1	1	2	1	3	3	2	1	1	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:7809857C>G	uc002mht.2	-	5	937	c.870G>C	c.(868-870)CAG>CAC	p.Q290H	CD209_uc010xju.1_Missense_Mutation_p.Q129H|CD209_uc010dvp.2_Missense_Mutation_p.Q266H|CD209_uc002mhr.2_Missense_Mutation_p.Q266H|CD209_uc002mhs.2_Missense_Mutation_p.Q220H|CD209_uc002mhu.2_Missense_Mutation_p.Q198H|CD209_uc010dvq.2_Missense_Mutation_p.Q290H|CD209_uc002mhq.2_Missense_Mutation_p.Q290H|CD209_uc002mhv.2_Missense_Mutation_p.Q266H|CD209_uc002mhx.2_Missense_Mutation_p.Q246H|CD209_uc002mhw.2_Missense_Mutation_p.Q154H|CD209_uc010dvr.2_Intron	NM_021155	NP_066978	Q9NNX6	CD209_HUMAN	CD209 molecule isoform 1	290	Extracellular (Probable).|C-type lectin.				cell-cell recognition|endocytosis|heterophilic cell-cell adhesion|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to membrane|plasma membrane	mannose binding|metal ion binding|peptide antigen binding|receptor activity|virion binding			skin(1)	1						TTACGACGAGCTGGGCCCCCA	0.582													20	34					0	0	0.010504	0	0		G	7809857	G	G	7809857	3	3	118	1	0	0	0	0	1	0	0	0	2987	796	28	5	356	5	CD209	19	7809857	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	4875306	7809857	51319126	217	66525											
MYO1F	4542	broad.mit.edu	37	chr19	8613174	8613174	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgatgctgtactcttcctGgggtttctgcatagcacggt	6	13	11	11	2	2	0	0	0	2	0	3	1	3	0	2	3	4	5	2	3	2	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:8613174G>C	uc002mkg.2	-	11	1243	c.1129C>G	c.(1129-1131)CAG>GAG	p.Q377E	MYO1F_uc002mkh.2_Missense_Mutation_p.P378R	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	377	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						TACTCTTCCTGGGGTTTCTGC	0.607													21	32					0	0	0.008871	0	0		C	8613174	C	C	8613174	3	2	118	1	0	0	0	0	1	0	0	0	10091	1357	47	5	2239	5	MYO1F	19	8613174	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	803317	8613174	50515809	218	66526											
MUC16	94025	broad.mit.edu	37	chr19	8995977	8995977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggtggacacagagctcCgatgagtgaaacctgcatag	11	8	14	8	1	0	3	0	2	0	1	1	5	1	4	2	3	3	2	2	3	2	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:8995977C>T	uc002mkp.2	-	62	41468	c.41264G>A	c.(41263-41265)CGG>CAG	p.R13755Q	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.R572Q|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13757	Extracellular (Potential).			Missing (in Ref. 3; AAK74120).	cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CACAGAGCTCCGATGAGTGAA	0.537													12	31					0	0	0.016723	0	0		T	8995977	T	T	8995977	3	4	118	1	0	0	0	0	1	0	0	0	9991	652	23	1	2351	1	MUC16	19	8995977	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	382803	8995977	50133006	219	66527											
ZNF700	90592	broad.mit.edu	37	chr19	12060673	12060673	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaccttcgaaagcatggtAggactcacactggagagaaa	16	6	10	9	1	1	1	1	0	0	1	2	5	1	3	1	3	2	2	1	3	4	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:12060673A>T	uc002msu.2	+	4	1960	c.1834A>T	c.(1834-1836)AGG>TGG	p.R612W	ZNF700_uc010xme.1_Missense_Mutation_p.R630W|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	612	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAAGCATGGTAGGACTCACAC	0.473													42	62					0	0	0.009718	0	0		T	12060673	T	T	12060673	3	4	118	1	0	0	0	0	1	0	0	0	18129	411	15	5	1848	5	ZNF700	19	12060673	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	3064696	12060673	47068310	220	66528											
NOTCH3	4854	broad.mit.edu	37	chr19	15299139	15299139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acactcgtcaatgtccacctCgcaataggttcctgtgaagc	10	10	8	13	2	1	1	1	1	0	0	5	1	3	1	3	1	1	2	3	1	4	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:15299139C>T	uc002nan.2	-	9	1475	c.1399G>A	c.(1399-1401)GAG>AAG	p.E467K	NOTCH3_uc002nao.1_Missense_Mutation_p.E467K	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	467	Extracellular (Potential).|EGF-like 11; calcium-binding (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			ATGTCCACCTCGCAATAGGTT	0.587													3	14					0	0	0.009096	0	0		T	15299139	T	T	15299139	3	4	118	1	0	0	0	0	1	0	0	0	10569	893	31	1	5666	1	NOTCH3	19	15299139	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	3238466	15299139	43829844	221	66529											
SCN1B	6324	broad.mit.edu	37	chr19	35524615	35524615	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacaacaccagcgtcgtcaaGaagatccacattgaggtagt	14	7	9	11	2	1	3	1	1	0	2	3	3	2	3	2	1	2	1	2	1	4	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:35524615G>C	uc002nxp.2	+	3	611	c.420G>C	c.(418-420)AAG>AAC	p.K140N	SCN1B_uc002nxo.1_Missense_Mutation_p.K140N|SCN1B_uc010xsg.1_Splice_Site_p.K70_splice	NM_001037	NP_001028	Q07699	SCN1B_HUMAN	sodium channel, voltage-gated, type I, beta	140	Extracellular (Potential).|Ig-like C2-type.				axon guidance|synaptic transmission	integral to membrane	voltage-gated sodium channel activity			ovary(1)|central_nervous_system(1)	2	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			GCGTCGTCAAGAAGATCCACA	0.567													39	67					0	0	0.006999	0	0		C	35524615	C	C	35524615	3	2	118	1	0	0	0	0	1	0	0	0	13940	933	33	5	430	5	SCN1B	19	35524615	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	20225476	35524615	23604368	222	66530											
MLL4	9757	broad.mit.edu	37	chr19	36214856	36214856	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttcgaggattcggatgaCtcggagcccgggggcccccc	6	7	14	14	4	1	1	0	1	1	0	4	5	1	4	4	5	1	0	4	5	0	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:36214856C>T	uc010eei.2	+	9	3282	c.3282C>T	c.(3280-3282)GAC>GAT	p.D1094D		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1094					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			ATTCGGATGACTCGGAGCCCG	0.592													6	9					0	0	0.001984	0	0		T	36214856	T	T	36214856	2	4	118	1	0	0	0	0	0	0	0	1	9641	564	20	4		4	MLL4	19	36214856	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	690241	36214856	22914127	223	66531											
FCGBP	8857	broad.mit.edu	37	chr19	40421393	40421393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgctgcagcgctcacccGccgggcagctctgcttgtcg	4	7	14	16	5	2	0	1	0	1	0	3	1	2	1	2	2	4	6	2	2	0	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:40421393G>A	uc002omp.3	-	5	2536	c.2528C>T	c.(2527-2529)GCG>GTG	p.A843V		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	843	Cys-rich.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GCGCTCACCCGCCGGGCAGCT	0.687													6	7					0	0	0.00308	0	0		A	40421393	A	A	40421393	3	1	118	1	0	0	0	0	1	0	0	0	5792	1087	38	1	13817	1	FCGBP	19	40421393	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	4206537	40421393	18707590	224	66532											
CEACAM5	1048	broad.mit.edu	37	chr19	42222079	42222079	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accccaccatttccccctcaTacacctattaccgtccaggg	9	9	4	19	1	1	0	1	0	0	0	3	0	3	0	8	1	2	0	8	1	3	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:42222079T>C	uc002ork.2	+	6	1391	c.1270T>C	c.(1270-1272)TAC>CAC	p.Y424H	CEACAM5_uc002orj.1_Missense_Mutation_p.Y423H|CEACAM5_uc002orl.2_Missense_Mutation_p.Y424H	NM_004363	NP_004354	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion	424	Ig-like 5.					anchored to membrane|basolateral plasma membrane|integral to plasma membrane				skin(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		TTCCCCCTCATACACCTATTA	0.542													36	66					0	0	0.005524	0	0		C	42222079	C	C	42222079	3	2	118	1	0	0	0	0	1	0	0	0	3198	1406	49	3	1292	3	CEACAM5	19	42222079	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	1800686	42222079	16906904	225	66533											
PLAUR	5329	broad.mit.edu	37	chr19	44169538	44169538	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctggtgatcttcaagccagtCcgatagctcagggtcctgtt	7	12	11	11	1	3	1	2	1	1	0	5	2	5	1	3	2	2	2	3	2	2	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:44169538C>G	uc002oxf.1	-	3	470	c.240G>C	c.(238-240)CGG>CGC	p.R80R	PLAUR_uc002oxd.1_Silent_p.R80R|PLAUR_uc002oxe.1_Silent_p.R75R|PLAUR_uc002oxg.1_Silent_p.R80R	NM_002659	NP_002650	Q03405	UPAR_HUMAN	plasminogen activator, urokinase receptor	80	UPAR/Ly6 1.				attachment of GPI anchor to protein|blood coagulation|C-terminal protein lipidation|cellular component movement|chemotaxis|fibrinolysis|regulation of proteolysis	anchored to membrane|cell surface|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|extrinsic to membrane|integral to membrane|plasma membrane	enzyme binding|U-plasminogen activator receptor activity			ovary(1)	1		Prostate(69;0.0153)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Streptokinase(DB00086)|Tenecteplase(DB00031)|Urokinase(DB00013)	TCAAGCCAGTCCGATAGCTCA	0.527													29	24					0	0	0.009535	0	0		G	44169538	G	G	44169538	2	3	118	1	0	0	0	0	0	0	0	1	12042	842	30	5		5	PLAUR	19	44169538	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	1947459	44169538	14959445	226	66534											
KIR2DL3	3804	broad.mit.edu	37	chr19	55250954	55250954	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcatgatctttctttccaggGttcttcttgctgcagggggc	4	16	11	10	0	5	1	1	1	4	0	6	1	6	1	1	3	2	3	1	3	0	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:55250954G>A	uc002qgv.2	+	2	54	c.36G>A	c.(34-36)GGG>GGA	p.G12G	KIR2DL3_uc002qgx.2_Silent_p.G12G|KIR2DL3_uc002qgy.2_Silent_p.G12G|KIR2DL3_uc010erw.1_Silent_p.G12G|KIR2DL1_uc002qgz.1_5'UTR|KIR2DL3_uc002qha.1_5'Flank	NM_015868	NP_056952	P43628	KI2L3_HUMAN	killer cell immunoglobulin-like receptor, two	12					immune response|regulation of immune response	integral to plasma membrane	antigen binding|protein binding|receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		TCTTTCCAGGGTTCTTCTTGC	0.567													25	57					0	0	0.00623	0	0		A	55250954	A	A	55250954	2	1	118	1	0	0	0	0	0	0	0	1	8333	1275	44	4		4	KIR2DL3	19	55250954	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	11081416	55250954	3878029	227	66535											
NLRP2	55655	broad.mit.edu	37	chr19	55494276	55494276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccgcggtgtgctggatcGtgtgcacgactctgaagctg	5	9	14	13	4	1	1	0	1	1	0	2	3	1	2	2	2	3	3	2	2	1	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr19:55494276G>A	uc002qij.2	+	6	1296	c.1210G>A	c.(1210-1212)GTG>ATG	p.V404M	NLRP2_uc010yfp.1_Missense_Mutation_p.V381M|NLRP2_uc010esn.2_Missense_Mutation_p.V380M|NLRP2_uc010eso.2_Missense_Mutation_p.V401M|NLRP2_uc010esp.2_Missense_Mutation_p.V382M	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	404	NACHT.				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		GTGCTGGATCGTGTGCACGAC	0.642													18	24					0	0	0.010504	0	0		A	55494276	A	A	55494276	3	1	118	1	0	0	0	0	1	0	0	0	10496	1145	40	1	1228	1	NLRP2	19	55494276	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	243322	55494276	3634707	228	66536											
FKBP1A	2280	broad.mit.edu	37	chr20	1356212	1356212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagggcttgtttctgtcccGggaggaatcaaatttctttc	9	14	10	8	1	3	0	1	0	2	0	5	2	4	2	1	3	0	2	1	3	3	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr20:1356212G>A	uc002wey.2	-	3	295	c.121C>T	c.(121-123)CGG>TGG	p.R41W	FKBP1A_uc010gac.2_Intron|uc002wew.2_Intron|uc002wex.2_Intron|FKBP1A_uc002wez.2_Intron|FKBP1A_uc010gad.2_Intron|FKBP1A_uc002wfa.2_Missense_Mutation_p.R41W|FKBP1A_uc002wfb.2_Intron|FKBP1A_uc010gae.2_Missense_Mutation_p.R25W|FKBP1A_uc010gaf.2_RNA	NM_000801	NP_000792	P62942	FKB1A_HUMAN	FK506 binding protein 1A, 12kDa	41	PPIase FKBP-type.				'de novo' protein folding|beta-amyloid formation|fibril organization|heart trabecula formation|negative regulation of protein phosphatase type 2B activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of protein binding|positive regulation of protein ubiquitination|protein maturation by protein folding|protein refolding|regulation of activin receptor signaling pathway|regulation of immune response|regulation of ryanodine-sensitive calcium-release channel activity|SMAD protein complex assembly|T cell activation|ventricular cardiac muscle tissue morphogenesis	axon|cytosol|sarcoplasmic reticulum membrane|terminal cisterna	activin binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity|signal transducer activity|SMAD binding|type I transforming growth factor beta receptor binding				0					Pimecrolimus(DB00337)|Sirolimus(DB00877)|Tacrolimus(DB00864)	TTTCTGTCCCGGGAGGAATCA	0.463													15	19					0	0	0.003163	0	0		A	1356212	A	A	1356212	3	1	118	1	0	0	0	0	1	0	0	0	5920	1115	39	1	213	1	FKBP1A	20	1356212	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08		1356212	61669308	229	66537											
PAK7	57144	broad.mit.edu	37	chr20	9520159	9520159	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgatgcaagacggtggacCtgctagttttaagaatggat	12	10	13	6	2	0	2	0	0	0	2	0	6	0	4	1	3	2	3	1	3	4	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr20:9520159C>G	uc002wnl.2	-	11	2655	c.2110G>C	c.(2110-2112)GGT>CGT	p.G704R	PAK7_uc002wnk.2_Missense_Mutation_p.G704R|PAK7_uc002wnj.2_Missense_Mutation_p.G704R|PAK7_uc010gby.1_Missense_Mutation_p.G617R	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	704			G -> S (in a metastatic melanoma sample; somatic mutation).				ATP binding|protein binding|protein serine/threonine kinase activity	p.G704S(1)		lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			GACGGTGGACCTGCTAGTTTT	0.507													15	151					0	0	0.020292	0	0		G	9520159	G	G	9520159	3	3	118	1	0	0	0	0	1	0	0	0	11424	681	24	5	53	5	PAK7	20	9520159	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	8163947	9520159	53505361	230	66538											
TH1L	51497	broad.mit.edu	37	chr20	57569712	57569712	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagctcactgcaaatctaActtcatcatggtgaactaat	15	12	5	9	0	4	1	3	1	1	0	4	1	4	1	0	1	4	2	0	1	6	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr20:57569712A>C	uc002yag.2	+	15	1781	c.1754A>C	c.(1753-1755)AAC>ACC	p.N585T	TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_3'UTR	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	585					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			TGCAAATCTAACTTCATCATG	0.343													30	45					0	0	0.012213	0	0		C	57569712	C	C	57569712	3	2	118	1	0	0	0	0	1	0	0	0	15864	43	2	5	1812	5	TH1L	20	57569712	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	48049553	57569712	5455808	231	66539											
ZNF831	128611	broad.mit.edu	37	chr20	57766977	57766977	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaaccctggcgtaagttGccagagcagaagtcgccgac	12	5	11	13	3	0	2	0	0	0	2	1	3	0	2	3	1	3	3	3	1	3	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr20:57766977G>A	uc002yan.2	+	1	903	c.903G>A	c.(901-903)TTG>TTA	p.L301L		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	301						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGCGTAAGTTGCCAGAGCAGA	0.701													22	31					0	0	0.016522	0	0		A	57766977	A	A	57766977	2	1	118	1	0	0	0	0	0	0	0	1	18210	1310	46	2		2	ZNF831	20	57766977	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	197265	57766977	5258543	232	66540											
CDH4	1002	broad.mit.edu	37	chr20	60509180	60509180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaagcaaagcccctggcGtgcgtcgcgtggatgagcgg	7	6	16	12	5	0	1	0	1	0	0	1	2	0	2	3	3	5	1	3	3	2	0			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr20:60509180G>A	uc002ybn.1	+	15	2460	c.2446G>A	c.(2446-2448)GTG>ATG	p.V816M	CDH4_uc002ybp.1_Missense_Mutation_p.V742M	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	816	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			AGCCCCTGGCGTGCGTCGCGT	0.677													14	25					0	0	0.016723	0	0		A	60509180	A	A	60509180	3	1	118	1	0	0	0	0	1	0	0	0	3115	1145	40	1	2504	1	CDH4	20	60509180	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	2742203	60509180	2516340	233	66541											
LAMA5	3911	broad.mit.edu	37	chr20	60921763	60921763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcgatacagacacccccaCcctgataggtgccatccagg	11	6	9	15	1	0	2	0	1	0	1	2	3	1	2	5	2	2	0	5	2	2	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr20:60921763C>T	uc002ycq.2	-	8	1233	c.1166G>A	c.(1165-1167)GGT>GAT	p.G389D		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	389	Laminin EGF-like 2.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GACACCCCCACCCTGATAGGT	0.647													10	12					0	0	0.008291	0	0		T	60921763	T	T	60921763	3	4	118	1	0	0	0	0	1	0	0	0	8625	507	18	4	10213	4	LAMA5	20	60921763	Missense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	412583	60921763	2103757	234	66542											
LGALS1	3956	broad.mit.edu	37	chr22	38075624	38075624	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccaggtgtgcatcaccttCgaccaggccaacctgaccgt	8	7	9	17	2	1	1	1	1	0	0	2	2	1	1	7	2	2	1	7	2	1	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr22:38075624C>T	uc003atn.2	+	4	373	c.276C>T	c.(274-276)TTC>TTT	p.F92F		NM_002305	NP_002296	P09382	LEG1_HUMAN	galectin-1	92	Galectin.				apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of apoptosis	cytoplasm|extracellular space|proteinaceous extracellular matrix	galactoside binding|signal transducer activity				0	Melanoma(58;0.0574)					GCATCACCTTCGACCAGGCCA	0.607													4	43					0	0	0.009096	0	0		T	38075624	T	T	38075624	2	4	118	1	0	0	0	0	0	0	0	1	8754	883	31	1		1	LGALS1	22	38075624	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08		38075624	13228942	235	66543											
TNFRSF13C	115650	broad.mit.edu	37	chr22	42321376	42321376	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgccggctccctgctattGttgctcagggccggccgtct	2	11	12	16	3	2	0	1	0	1	0	3	0	3	0	5	3	3	4	5	3	1	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr22:42321376G>A	uc003bbl.2	-	3	594	c.550C>T	c.(550-552)CAA>TAA	p.Q184*	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|TNFRSF13C_uc010gyp.1_Nonsense_Mutation_p.Q185*	NM_052945	NP_443177	Q96RJ3	TR13C_HUMAN	BAFF receptor	184	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						CCCTGCTATTGTTGCTCAGGG	0.632													4	11					0	0	0.014758	0	0		A	42321376	A	A	42321376	4	1	118	1	0	0	0	0	0	1	0	0	16313	1386	48	4	8	4	TNFRSF13C	22	42321376	Nonsense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	4245752	42321376	8983190	236	66544											
FAM116B	414918	broad.mit.edu	37	chr22	50753285	50753285	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagggtgccaggactagcAggggctccccgaggagcatg	8	4	18	11	2	0	0	0	0	0	0	1	4	1	2	3	5	3	3	3	5	1	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chr22:50753285A>T	uc011aru.1	-	11	896	c.824T>A	c.(823-825)CTG>CAG	p.L275Q	FAM116B_uc011arv.1_Missense_Mutation_p.L275Q	NM_001001794	NP_001001794	Q8NEG7	F116B_HUMAN	family with sequence similarity 116, member B	275											0		all_cancers(38;4.34e-09)|all_epithelial(38;3.03e-08)|all_lung(38;0.00141)|Breast(42;0.00387)|Lung NSC(38;0.0199)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CAGGACTAGCAGGGGCTCCCC	0.672													6	7					0	0	0.001168	0	0		T	50753285	T	T	50753285	3	4	118	1	0	0	0	0	1	0	0	0	5419	188	7	5	977	5	FAM116B	22	50753285	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	8431909	50753285	551281	237	66545											
MAGEB4	4115	broad.mit.edu	37	chrX	30260943	30260943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaatatgctggggatctatGatggaaagaggcaccttatc	12	11	12	6	0	1	3	0	2	1	1	2	5	1	5	1	4	1	2	1	4	5	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:30260943G>A	uc004dcb.2	+	1	775	c.691G>A	c.(691-693)GAT>AAT	p.D231N	MAGEB1_uc004dcc.2_5'Flank|MAGEB1_uc004dcd.2_5'Flank	NM_002367	NP_002358	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	231	MAGE.									ovary(1)	1						GGGGATCTATGATGGAAAGAG	0.473													7	95					0	0	0.001984	0	0		A	30260943	A	A	30260943	3	1	118	1	0	0	0	0	1	0	0	0	9196	1290	45	4	693	4	MAGEB4	23	30260943	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08		30260943	125009617	238	66546											
FAM47A	158724	broad.mit.edu	37	chrX	34148536	34148536	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgatggattcttcatcAgctcccaggtctccagccca	7	12	7	15	0	4	1	2	1	2	0	7	2	6	2	4	2	2	1	4	2	0	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:34148536A>G	uc004ddg.2	-	1	1893	c.1860T>C	c.(1858-1860)GCT>GCC	p.A620A		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	620										ovary(4)|central_nervous_system(1)	5						ATTCTTCATCAGCTCCCAGGT	0.438													28	71					0	0	0.004656	0	0		G	34148536	G	G	34148536	2	3	118	1	0	0	0	0	0	0	0	1	5583	175	7	3		3	FAM47A	23	34148536	Silent	SNP	A	TCGA-CD-8531-01A-11D-2340-08	3887593	34148536	121122024	239	66547											
FAM47C	442444	broad.mit.edu	37	chrX	37028756	37028756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagagcctcttgagactcGcgtatctcatctccgcccgg	6	9	9	17	4	3	2	1	1	3	2	6	3	3	2	4	1	1	1	4	1	1	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:37028756G>A	uc004ddl.1	+	1	2287	c.2273G>A	c.(2272-2274)CGC>CAC	p.R758H		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	758										ovary(3)	3						CTTGAGACTCGCGTATCTCAT	0.637													88	62					0	0	0.01441	0	0		A	37028756	A	A	37028756	3	1	118	1	0	0	0	0	1	0	0	0	5585	1087	38	1	2275	1	FAM47C	23	37028756	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	2880220	37028756	118241804	240	66548											
WDR45	11152	broad.mit.edu	37	chrX	48934088	48934088	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgtatctgagccctctcaCccttggggttgtcccgggta	4	13	12	12	1	2	1	1	1	2	0	4	1	3	1	3	3	1	3	3	3	2	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:48934088C>T	uc004dmk.1	-	6	608	c.436_splice	c.e6+1	p.G146_splice	PRAF2_uc004dmi.2_5'Flank|PRAF2_uc011mmt.1_Intron|WDR45_uc004dmj.1_Splice_Site_p.A96_splice|WDR45_uc004dml.1_Splice_Site_p.G147_splice|WDR45_uc004dmm.1_Splice_Site_p.G111_splice|WDR45_uc010nim.1_Splice_Site_p.G146_splice|WDR45_uc004dmn.1_Splice_Site_p.G37_splice|WDR45_uc004dmo.1_Splice_Site_p.G169_splice|WDR45_uc004dmp.1_Splice_Site_p.G147_splice	NM_001029896	NP_001025067	Q9Y484	WIPI4_HUMAN	WD repeat domain 45 isoform 2						autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1						AGCCCTCTCACCCTTGGGGTT	0.532													114	10					0	0	0.01441	0	0		T	48934088	T	T	48934088	5	4	118	1	0	0	0	0	0	0	1	0	17323	521	18	4	669	4	WDR45	23	48934088	Splice_Site	SNP	C	TCGA-CD-8531-01A-11D-2340-08	11905332	48934088	106336472	241	66549											
AR	367	broad.mit.edu	37	chrX	66941680	66941680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtatctccttcccaggtaccGcatgcacaagtcccggatgt	8	10	9	14	2	1	0	0	0	1	0	4	1	3	1	4	2	2	4	4	2	3	3	rs137852572		TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:66941680G>A	uc004dwu.1	+	6	3439	c.2324G>A	c.(2323-2325)CGC>CAC	p.R775H	AR_uc004dwv.1_Missense_Mutation_p.R243H	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	774	Ligand-binding.|Interaction with MYST2.		R -> H (in AIS and PAIS; almost complete loss of androgen binding).|R -> C (in AIS; loss of androgen binding; frequent mutation).		cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	CCCAGGTACCGCATGCACAAG	0.517									Androgen_Insensitivity_Syndrome				32	76					0	0	0.013726	0	0		A	66941680	A	A	66941680	3	1	118	1	0	0	0	0	1	0	0	0	836	1087	38	1	2370	1	AR	23	66941680	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	18007592	66941680	88328880	242	66550											
FAM155B	27112	broad.mit.edu	37	chrX	68749751	68749751	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagggtggtgggggattgggGctggagacactgcctgccct	5	8	19	9	0	0	1	0	0	0	1	0	3	0	2	2	7	2	1	2	7	0	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:68749751G>C	uc004dxk.2	+	3	1419	c.1371G>C	c.(1369-1371)GGG>GGC	p.G457G		NM_015686	NP_056501	O75949	F155B_HUMAN	transmembrane protein 28	458	Poly-Gly.					integral to membrane				ovary(1)|breast(1)	2						GGGGATTGGGGCTGGAGACAC	0.627													18	18					0	0	0.007413	0	0		C	68749751	C	C	68749751	2	2	118	1	0	0	0	0	0	0	0	1	5477	1190	42	5		5	FAM155B	23	68749751	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	1808071	68749751	86520809	243	66551											
AWAT2	158835	broad.mit.edu	37	chrX	69261763	69261763	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgtgtgatatttagccacGatctcctggcttggattctc	7	15	10	9	1	2	1	0	1	2	0	4	3	2	2	2	2	1	1	2	2	2	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:69261763G>A	uc004dxt.1	-	7	903	c.897C>T	c.(895-897)ATC>ATT	p.I299I		NM_001002254	NP_001002254	Q6E213	AWAT2_HUMAN	wax synthase 2	299						endoplasmic reticulum membrane|integral to membrane	long-chain-alcohol O-fatty-acyltransferase activity				0						ATTTAGCCACGATCTCCTGGC	0.468													60	38					0	0	0.01441	0	0		A	69261763	A	A	69261763	2	1	118	1	0	0	0	0	0	0	0	1	1236	1048	37	1		1	AWAT2	23	69261763	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	512012	69261763	86008797	244	66552											
GDPD2	54857	broad.mit.edu	37	chrX	69646220	69646220	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattcatccctggccccccaGgtgctgctgctcctcattat	5	12	7	17	0	2	0	2	0	0	0	4	0	4	0	5	2	3	3	5	2	1	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:69646220G>C	uc004dyh.2	+	6	615	c.364_splice	c.e6-1	p.V122_splice	GDPD2_uc010nkx.1_Splice_Site_p.V122_splice|GDPD2_uc010nky.1_Splice_Site|GDPD2_uc011mpk.1_Splice_Site_p.V122_splice|GDPD2_uc011mpl.1_Splice_Site_p.V43_splice|GDPD2_uc011mpm.1_Splice_Site_p.V43_splice	NM_017711	NP_060181	Q9HCC8	GDPD2_HUMAN	osteoblast differentiation promoting factor						glycerol metabolic process|lipid metabolic process	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol inositolphosphodiesterase activity|metal ion binding			ovary(2)	2	Renal(35;0.156)					TGGCCCCCCAGGTGCTGCTGC	0.582													8	14					0	0	0.006214	0	0		C	69646220	C	C	69646220	5	2	118	1	0	0	0	0	0	0	1	0	6339	1014	35	5	381	5	GDPD2	23	69646220	Splice_Site	SNP	G	TCGA-CD-8531-01A-11D-2340-08	384457	69646220	85624340	245	66553											
PHKA1	5255	broad.mit.edu	37	chrX	71932636	71932636	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtacctgctccaattcataGgcctttgccttatcctcatc	8	14	5	14	0	2	0	2	0	0	0	5	0	4	0	5	1	3	2	5	1	4	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:71932636G>T	uc004eax.3	-	2	523	c.222C>A	c.(220-222)GCC>GCA	p.A74A	PHKA1_uc004eay.3_Silent_p.A74A|PHKA1_uc011mqi.1_Silent_p.A74A	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	74					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					CCAATTCATAGGCCTTTGCCT	0.498													15	36					1.52009e-12	1.6188e-12	0.003163	1	0		T	71932636	T	T	71932636	2	4	118	1	0	0	0	0	0	0	0	1	11862	987	35	5		5	PHKA1	23	71932636	Silent	SNP	G	TCGA-CD-8531-01A-11D-2340-08	2286416	71932636	83337924	246	66554											
ZCCHC13	389874	broad.mit.edu	37	chrX	73524221	73524221	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggttctcaatgtggttcCaccaccctatcttacacctg	9	12	7	13	0	2	1	1	0	2	1	4	1	3	1	4	2	1	2	4	2	3	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:73524221C>T	uc004ebs.3	+	1	197	c.120C>T	c.(118-120)TCC>TCT	p.S40S		NM_203303	NP_976048	Q8WW36	ZCH13_HUMAN	zinc finger, CCHC domain containing 13	40							nucleic acid binding|zinc ion binding				0						AATGTGGTTCCACCACCCTAT	0.562													32	25					0	0	0.010818	0	0		T	73524221	T	T	73524221	2	4	118	1	0	0	0	0	0	0	0	1	17607	581	21	4		4	ZCCHC13	23	73524221	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	1591585	73524221	81746339	247	66555											
ATRX	546	broad.mit.edu	37	chrX	76938019	76938019	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcacttgcttgctgcttcTtaggaagtcgatctcttaat	9	15	8	9	1	2	0	0	0	2	0	4	2	2	1	0	1	4	4	0	1	4	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:76938019T>G	uc004ecp.3	-	9	2961	c.2729A>C	c.(2728-2730)AAG>ACG	p.K910T	ATRX_uc004ecq.3_Missense_Mutation_p.K872T|ATRX_uc004eco.3_Missense_Mutation_p.K695T|ATRX_uc004ecr.2_Missense_Mutation_p.K842T|ATRX_uc010nlx.1_Missense_Mutation_p.K881T|ATRX_uc010nly.1_Missense_Mutation_p.K855T	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	910					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TTGCTGCTTCTTAGGAAGTCG	0.408			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						116	294					0	0	0.01441	0	0		G	76938019	G	G	76938019	3	3	118	1	0	0	0	0	1	0	0	0	1209	1609	56	5	4857	5	ATRX	23	76938019	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	3413798	76938019	78332541	248	66556											
BRWD3	254065	broad.mit.edu	37	chrX	79955467	79955467	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaacttaccctgagatccaTtttgttccatggctgttttt	8	17	6	10	0	0	1	0	1	0	1	2	2	2	1	3	1	2	3	3	1	2	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:79955467T>A	uc004edt.2	-	25	3195	c.2932A>T	c.(2932-2934)ATG>TTG	p.M978L	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.M574L|BRWD3_uc004edp.2_Missense_Mutation_p.M807L|BRWD3_uc004edq.2_Missense_Mutation_p.M574L|BRWD3_uc010nmj.1_Missense_Mutation_p.M574L|BRWD3_uc004edr.2_Missense_Mutation_p.M648L|BRWD3_uc004eds.2_Missense_Mutation_p.M574L|BRWD3_uc004edu.2_Missense_Mutation_p.M648L|BRWD3_uc004edv.2_Missense_Mutation_p.M574L|BRWD3_uc004edw.2_Missense_Mutation_p.M574L|BRWD3_uc004edx.2_Missense_Mutation_p.M574L|BRWD3_uc004edy.2_Missense_Mutation_p.M574L|BRWD3_uc004edz.2_Missense_Mutation_p.M648L|BRWD3_uc004eea.2_Missense_Mutation_p.M648L|BRWD3_uc004eeb.2_Missense_Mutation_p.M574L	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	978										ovary(4)	4						CTGAGATCCATTTTGTTCCAT	0.358													11	8					0	0	0.008291	0	0		A	79955467	A	A	79955467	3	1	118	1	0	0	0	0	1	0	0	0	1529	1493	52	5	2544	5	BRWD3	23	79955467	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	3017448	79955467	75315093	249	66557											
CYLC1	1538	broad.mit.edu	37	chrX	83129480	83129480	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcatccaaaaagactacattCaatgaaaaaggggaaaaagc	21	6	7	7	0	2	2	2	1	0	1	3	3	3	3	1	2	2	0	1	2	8	2			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:83129480C>T	uc004eei.1	+	4	1785	c.1764C>T	c.(1762-1764)TTC>TTT	p.F588F	CYLC1_uc004eeh.1_Silent_p.F587F	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	588					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						AGACTACATTCAATGAAAAAG	0.408													18	44					0	0	0.00499	0	0		T	83129480	T	T	83129480	2	4	118	1	0	0	0	0	0	0	0	1	4144	825	29	4		4	CYLC1	23	83129480	Silent	SNP	C	TCGA-CD-8531-01A-11D-2340-08	3174013	83129480	72141080	250	66558											
PABPC5	140886	broad.mit.edu	37	chrX	90691722	90691722	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccaggccaggcgcaggtgCtgagaataagaatgctcagt	11	6	15	9	1	1	2	1	1	0	2	1	3	1	2	2	4	2	3	2	4	3	1			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:90691722C>A	uc004efg.2	+	2	1586	c.1146C>A	c.(1144-1146)TGC>TGA	p.C382*	PABPC5_uc004eff.1_Nonsense_Mutation_p.C218*	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	382						cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						GGCGCAGGTGCTGAGAATAAG	0.493													13	27					5.50884e-06	5.64656e-06	0.013537	1	0		A	90691722	A	A	90691722	4	1	118	1	0	0	0	0	0	1	0	0	11386	805	28	5	1148	5	PABPC5	23	90691722	Nonsense_Mutation	SNP	C	TCGA-CD-8531-01A-11D-2340-08	7562242	90691722	64578838	251	66559											
PCDH11X	27328	broad.mit.edu	37	chrX	91132325	91132325	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacataagatacatcgtcaaTcctgtcaatgacacagttgt	14	11	7	9	1	2	2	2	1	0	1	4	3	3	2	1	0	1	1	1	0	4	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:91132325T>C	uc004efk.1	+	2	1931	c.1086T>C	c.(1084-1086)AAT>AAC	p.N362N	PCDH11X_uc004efl.1_Silent_p.N362N|PCDH11X_uc004efo.1_Silent_p.N362N|PCDH11X_uc010nmv.1_Silent_p.N362N|PCDH11X_uc004efm.1_Silent_p.N362N|PCDH11X_uc004efn.1_Silent_p.N362N|PCDH11X_uc004efh.1_Silent_p.N362N|PCDH11X_uc004efj.1_Silent_p.N362N	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	362	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ACATCGTCAATCCTGTCAATG	0.418													25	60					0	0	0.010771	0	0		C	91132325	C	C	91132325	2	2	118	1	0	0	0	0	0	0	0	1	11527	1432	50	3		3	PCDH11X	23	91132325	Silent	SNP	T	TCGA-CD-8531-01A-11D-2340-08	440603	91132325	64138235	252	66560											
TCEAL7	56849	broad.mit.edu	37	chrX	102586597	102586597	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttagggctctgcattctaAccataggcattctcgggacc	9	12	9	11	1	3	0	0	0	3	0	4	1	3	1	2	3	2	3	2	3	3	6			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:102586597A>C	uc004ekc.1	+	3	479	c.266A>C	c.(265-267)AAC>ACC	p.N89T		NM_152278	NP_689491	Q9BRU2	TCAL7_HUMAN	transcription elongation factor A (SII)-like 7	89					negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				upper_aerodigestive_tract(1)	1						CTGCATTCTAACCATAGGCAT	0.065													50	137					0	0	0.01441	0	0		C	102586597	C	C	102586597	3	2	118	1	0	0	0	0	1	0	0	0	15701	43	2	5	268	5	TCEAL7	23	102586597	Missense_Mutation	SNP	A	TCGA-CD-8531-01A-11D-2340-08	11454272	102586597	52683963	253	66561											
MID2	11043	broad.mit.edu	37	chrX	107147196	107147196	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcttggcaggtgaatacTgctatgcatgaggcaaaact	12	12	10	7	0	1	2	0	2	1	0	1	2	1	2	0	3	4	4	0	3	5	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:107147196T>G	uc004enl.2	+	4	1398	c.825T>G	c.(823-825)ACT>ACG	p.T275T	MID2_uc004enk.2_Silent_p.T275T	NM_012216	NP_036348	Q9UJV3	TRIM1_HUMAN	midline 2 isoform 1	275	Potential.					centrosome|microtubule	ligase activity|zinc ion binding			ovary(1)	1						AGGTGAATACTGCTATGCATG	0.438													21	55					0	0	0.016522	0	0		G	107147196	G	G	107147196	2	3	118	1	0	0	0	0	0	0	0	1	9596	1567	55	5		5	MID2	23	107147196	Silent	SNP	T	TCGA-CD-8531-01A-11D-2340-08	4560599	107147196	48123364	254	66562											
ODZ1	10178	broad.mit.edu	37	chrX	123779095	123779095	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcaatgcattgttcttccgGaacgtcacactctggcccct	8	12	7	14	2	4	0	2	0	2	0	5	1	5	1	3	2	2	2	3	2	2	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:123779095G>T	uc004euj.2	-	10	1838	c.1774C>A	c.(1774-1776)CCG>ACG	p.P592T	ODZ1_uc011muj.1_Missense_Mutation_p.P591T|ODZ1_uc010nqy.2_Missense_Mutation_p.P592T	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	592	Extracellular (Potential).|EGF-like 3.				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TGTTCTTCCGGAACGTCACAC	0.532													81	329					8.40228e-50	9.21722e-50	0.01441	1	0		T	123779095	T	T	123779095	3	4	118	1	0	0	0	0	1	0	0	0	10853	1174	41	5	6516	5	ODZ1	23	123779095	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	16631899	123779095	31491465	255	66563											
ARHGAP36	158763	broad.mit.edu	37	chrX	130218272	130218272	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctttcaaaaatttccttTccaattggccaacgacttct	11	14	4	12	1	2	0	1	0	1	0	4	1	4	0	3	1	2	1	3	1	4	5			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:130218272T>C	uc004evz.2	+	5	984	c.639T>C	c.(637-639)TTT>TTC	p.F213F	ARHGAP36_uc004ewa.2_Silent_p.F201F|ARHGAP36_uc004ewb.2_Silent_p.F182F|ARHGAP36_uc004ewc.2_Silent_p.F77F	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	213					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						AAATTTCCTTTCCAATTGGCC	0.502													17	46					0	0	0.004007	0	0		C	130218272	C	C	130218272	2	2	118	1	0	0	0	0	0	0	0	1	883	1780	62	3		3	ARHGAP36	23	130218272	Silent	SNP	T	TCGA-CD-8531-01A-11D-2340-08	6439177	130218272	25052288	256	66564											
FGF13	2258	broad.mit.edu	37	chrX	138286220	138286220	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggactcggcgggcgggcttaCccttagaagcatctttctcc	6	10	12	13	3	2	1	0	0	2	1	4	2	2	2	2	4	2	2	2	4	3	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:138286220C>T	uc011mwj.1	-	2	316	c.49_splice	c.e2+1	p.V17_splice	FGF13_uc004faq.2_Intron|FGF13_uc004far.2_Splice_Site|FGF13_uc011mwk.1_Splice_Site_p.E17_splice	NM_001139500	NP_001132972	Q92913	FGF13_HUMAN	fibroblast growth factor 13 isoform 2						cell-cell signaling|MAPKKK cascade|nervous system development	cytoplasm|nucleus	growth factor activity|protein kinase activator activity			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GGCGGGCTTACCCTTAGAAGC	0.622													11	41					0	0	0.013537	0	0		T	138286220	T	T	138286220	5	4	118	1	0	0	0	0	0	0	1	0	5856	521	18	4	964	4	FGF13	23	138286220	Splice_Site	SNP	C	TCGA-CD-8531-01A-11D-2340-08	8067948	138286220	16984340	257	66565											
F9	2158	broad.mit.edu	37	chrX	138642958	138642958	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctatcgttaatgaaaaatGgattgtaactgctgcccact	12	13	7	9	1	1	1	0	1	1	0	2	2	1	2	1	1	3	3	1	1	5	4			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:138642958G>T	uc004fas.1	+	7	811	c.782G>T	c.(781-783)TGG>TTG	p.W261L	F9_uc004fat.1_Missense_Mutation_p.W223L	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	261	Peptidase S1.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	AATGAAAAATGGATTGTAACT	0.363													73	110					7.62596e-35	8.33771e-35	0.01441	1	0		T	138642958	T	T	138642958	3	4	118	1	0	0	0	0	1	0	0	0	5362	1357	47	5	808	5	F9	23	138642958	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	356738	138642958	16627602	258	66566											
CXorf66	347487	broad.mit.edu	37	chrX	139038690	139038690	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagttaactttcctgcacTgtttggtatggatggctttt	6	18	9	8	0	0	0	0	0	0	0	1	1	1	1	2	3	2	5	2	3	3	7			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:139038690T>A	uc004fbb.2	-	3	473	c.451A>T	c.(451-453)AGT>TGT	p.S151C		NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor	151	Ser-rich.|Cytoplasmic (Potential).					integral to membrane					0						TTTCCTGCACTGTTTGGTATG	0.413													304	161					0	0	0.01441	0	0		A	139038690	A	A	139038690	3	1	118	1	0	0	0	0	1	0	0	0	4121	1580	55	5	638	5	CXorf66	23	139038690	Missense_Mutation	SNP	T	TCGA-CD-8531-01A-11D-2340-08	395732	139038690	16231870	259	66567											
MAGEC3	139081	broad.mit.edu	37	chrX	140984913	140984913	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttgcccaggtatgccctgGatgaaaaggtggctgagttg	8	10	14	9	0	0	2	0	2	0	0	0	3	0	3	3	4	2	3	3	4	3	3			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:140984913G>T	uc011mwp.1	+	7	1369	c.1369G>T	c.(1369-1371)GAT>TAT	p.D457Y	MAGEC3_uc004fbs.2_Missense_Mutation_p.D159Y|MAGEC3_uc010nsj.2_Missense_Mutation_p.D159Y	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	457	MAGE 2.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GTATGCCCTGGATGAAAAGGT	0.483													86	34					2.84431e-33	3.09945e-33	0.01441	1	0		T	140984913	T	T	140984913	3	4	118	1	0	0	0	0	1	0	0	0	9200	1174	41	5	1624	5	MAGEC3	23	140984913	Missense_Mutation	SNP	G	TCGA-CD-8531-01A-11D-2340-08	1946223	140984913	14285647	260	66568											
F8	2157	broad.mit.edu	37	chrX	154194356	154194356	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtatgccataaatcggacTtttttgtacttcctaccaat	10	16	6	9	1	0	0	0	0	0	0	2	1	1	1	3	1	3	2	3	1	6	8			TCGA-CD-8531-01A-11D-2340-08	TCGA-CD-8531-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d3f6a86-acc9-489a-a234-2e8d9eaab714	043a9106-b708-4e9b-ac15-2f2e05619468	g.chrX:154194356T>C	uc004fmt.2	-	9	1503	c.1332A>G	c.(1330-1332)AAA>AAG	p.K444K		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	444	F5/8 type A 2.|Plastocyanin-like 3.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TAAATCGGACTTTTTTGTACT	0.378													38	150					0	0	0.005524	0	0		C	154194356	C	C	154194356	2	2	118	1	0	0	0	0	0	0	0	1	5358	1606	56	3		3	F8	23	154194356	Silent	SNP	T	TCGA-CD-8531-01A-11D-2340-08	13209443	154194356	1076204	261	66569											
FAM5B	57795	broad.mit.edu	37	chr1	177245464	177245464	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgcaagtgcagccccacCttccctgaatgcaactgccc	8	8	9	16	0	0	1	0	1	0	0	1	1	1	1	5	1	6	3	5	1	3	1			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr1:177245464C>A	uc001glf.2	+	6	1218	c.906C>A	c.(904-906)ACC>ACA	p.T302T	FAM5B_uc010pna.1_Silent_p.T52T|FAM5B_uc001glg.2_Silent_p.T197T	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	302						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						GCAGCCCCACCTTCCCTGAAT	0.577													10	40					3.86212e-05	3.91361e-05	1	1	0		A	177245464	A	A	177245464	2	1	119	1	0	0	0	0	0	0	0	1	5607	668	24	5		5	FAM5B	1	177245464	Silent	SNP	C	TCGA-CD-8532-01A-11D-2340-08		177245464	72005157	1	66570											
HS1BP3	64342	broad.mit.edu	37	chr2	20840801	20840801	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacacagcgcaggatctcaTtgaacacggctctcctctcc	10	8	8	15	2	3	2	1	1	3	1	6	3	3	3	2	2	2	2	2	2	1	1			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr2:20840801T>C	uc002rdw.1	-	3	379	c.338A>G	c.(337-339)AAT>AGT	p.N113S	HS1BP3_uc002rdx.2_Missense_Mutation_p.N113S|HS1BP3_uc002rdy.2_Missense_Mutation_p.N113S	NM_022460	NP_071905	Q53T59	H1BP3_HUMAN	HCLS1 binding protein 3	113	PX.				cell communication		phosphatidylinositol binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGGATCTCATTGAACACGGC	0.582													30	116					0	0	1	0	0		C	20840801	C	C	20840801	3	2	119	1	0	0	0	0	1	0	0	0	7377	1493	52	3	860	3	HS1BP3	2	20840801	Missense_Mutation	SNP	T	TCGA-CD-8532-01A-11D-2340-08		20840801	222358572	2	66571											
STRN	6801	broad.mit.edu	37	chr2	37076928	37076928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttctaggtgggctaccatcGagtggatcagtttgcctttg	6	14	12	9	1	2	0	1	0	1	0	3	2	2	1	2	3	2	2	2	3	2	5			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr2:37076928G>A	uc002rpn.2	-	17	2111	c.2102C>T	c.(2101-2103)TCG>TTG	p.S701L	STRN_uc010ezx.2_Missense_Mutation_p.S664L	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	701	WD 4.				dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				GGCTACCATCGAGTGGATCAG	0.413													15	41					0	0	1	0	0		A	37076928	A	A	37076928	3	1	119	1	0	0	0	0	1	0	0	0	15354	1059	37	1	248	1	STRN	2	37076928	Missense_Mutation	SNP	G	TCGA-CD-8532-01A-11D-2340-08	16236127	37076928	206122445	3	66572											
C2orf78	388960	broad.mit.edu	37	chr2	74042710	74042710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtggaggatacttacctcCccccgatcttcagttcctta	7	12	9	13	1	2	0	1	0	1	0	4	3	4	2	5	3	2	1	5	3	3	5			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr2:74042710C>T	uc002sjr.1	+	3	1481	c.1360C>T	c.(1360-1362)CCC>TCC	p.P454S		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	454										ovary(2)	2						TACTTACCTCCCCCCGATCTT	0.463													9	34					0	0	1	0	0		T	74042710	T	T	74042710	3	4	119	1	0	0	0	0	1	0	0	0	2198	623	22	4	1370	4	C2orf78	2	74042710	Missense_Mutation	SNP	C	TCGA-CD-8532-01A-11D-2340-08	36965782	74042710	169156663	4	66573											
CXCR2	3579	broad.mit.edu	37	chr2	218999840	218999840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccttgcccatctgggccGcctccaaggtgaatggctgg	6	9	13	13	1	1	2	0	2	1	0	2	2	2	2	5	4	1	1	5	4	2	1			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr2:218999840G>A	uc002vgz.1	+	4	541	c.316G>A	c.(316-318)GCC>ACC	p.A106T	CXCR2_uc002vha.1_Missense_Mutation_p.A106T|CXCR2_uc002vhb.1_Missense_Mutation_p.A106T	NM_001557	NP_001548	P25025	CXCR2_HUMAN	interleukin 8 receptor beta	106	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cellular defense response|dendritic cell chemotaxis|inflammatory response|neutrophil activation|neutrophil chemotaxis|positive regulation of cell proliferation	cell surface|integral to plasma membrane|mast cell granule	interleukin-8 receptor activity			lung(1)|breast(1)	2						CATCTGGGCCGCCTCCAAGGT	0.552													19	70					0	0	1	0	0		A	218999840	A	A	218999840	3	1	119	1	0	0	0	0	1	0	0	0	4094	1087	38	1	318	1	CXCR2	2	218999840	Missense_Mutation	SNP	G	TCGA-CD-8532-01A-11D-2340-08	144957130	218999840	24199533	5	66574											
AZI2	64343	broad.mit.edu	37	chr3	28373891	28373891	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtttttggagatctctgcTcttcagattgtcttcctgat	6	19	8	8	0	4	3	1	1	3	2	6	4	5	3	1	1	1	2	1	1	1	6			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr3:28373891T>A	uc003ceb.2	-	6	1148	c.616A>T	c.(616-618)AGC>TGC	p.S206C	AZI2_uc003cec.2_Missense_Mutation_p.S94C|AZI2_uc003ced.2_Missense_Mutation_p.S206C|AZI2_uc003cee.3_Missense_Mutation_p.S206C|AZI2_uc003ceg.2_Missense_Mutation_p.S206C|AZI2_uc011axd.1_Missense_Mutation_p.S206C|AZI2_uc003cef.2_Missense_Mutation_p.S206C	NM_022461	NP_071906	Q9H6S1	AZI2_HUMAN	5-azacytidine induced 2 isoform a	206	Interaction with TBK1.					mitochondrion|plasma membrane				ovary(2)	2						AGATCTCTGCTCTTCAGATTG	0.328													12	40					0	0	1	0	0		A	28373891	A	A	28373891	3	1	119	1	0	0	0	0	1	0	0	0	1242	1551	54	5	663	5	AZI2	3	28373891	Missense_Mutation	SNP	T	TCGA-CD-8532-01A-11D-2340-08		28373891	169648539	6	66575											
SNTN	132203	broad.mit.edu	37	chr3	63649696	63649696	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagctagattttgaagacttCatgatcttgctcttaagcat	12	15	7	7	0	3	4	1	2	2	2	3	4	3	4	0	0	3	3	0	0	4	6			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr3:63649696C>T	uc003dlr.2	+	4	389	c.369C>T	c.(367-369)TTC>TTT	p.F123F		NM_001080537	NP_001074006	A6NMZ2	SNTAN_HUMAN	sentan, cilia apical structure protein	123						cilium	calcium ion binding			ovary(1)	1						TTGAAGACTTCATGATCTTGC	0.338													4	52					0	0	1	0	0		T	63649696	T	T	63649696	2	4	119	1	0	0	0	0	0	0	0	1	14901	825	29	4		4	SNTN	3	63649696	Silent	SNP	C	TCGA-CD-8532-01A-11D-2340-08	35275805	63649696	134372734	7	66576											
ROBO2	6092	broad.mit.edu	37	chr3	77526676	77526676	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagaacccaccatctactGgaaaaaagacaaagttcgaa	18	5	6	12	1	1	2	0	0	1	2	2	4	1	3	3	1	2	1	3	1	7	2			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr3:77526676G>A	uc003dpy.3	+	3	1143	c.500G>A	c.(499-501)TGG>TAG	p.W167*	ROBO2_uc003dpz.2_Nonsense_Mutation_p.W167*|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Nonsense_Mutation_p.W167*	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	167	Ig-like C2-type 2.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		ACCATCTACTGGAAAAAAGAC	0.453													17	86					0	0	1	0	0		A	77526676	A	A	77526676	4	1	119	1	0	0	0	0	0	1	0	0	13539	1357	47	4	512	4	ROBO2	3	77526676	Nonsense_Mutation	SNP	G	TCGA-CD-8532-01A-11D-2340-08	13876980	77526676	120495754	8	66577											
TFG	10342	broad.mit.edu	37	chr3	100463762	100463762	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcagcctcaacagtatggTattcagtattcaggtgagca	12	10	10	9	0	3	1	3	1	0	0	3	1	3	1	1	2	4	5	1	2	4	5			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr3:100463762T>C	uc003due.2	+	7	1256	c.807T>C	c.(805-807)GGT>GGC	p.G269G	TFG_uc003duf.2_Silent_p.G269G|TFG_uc003dug.2_Silent_p.G265G|TFG_uc003duh.2_Silent_p.G265G|TFG_uc003dui.2_Silent_p.G269G	NM_006070	NP_006061	Q92734	TFG_HUMAN	TRK-fused	269					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm	signal transducer activity		TFG/ALK(7)	haematopoietic_and_lymphoid_tissue(7)|lung(2)|large_intestine(1)|prostate(1)	11						AACAGTATGGTATTCAGTATT	0.448			T	NTRK1|ALK	papillary thyroid|ALCL|NSCLC								19	74					0	0	1	0	0		C	100463762	C	C	100463762	2	2	119	1	0	0	0	0	0	0	0	1	15831	1625	57	3		3	TFG	3	100463762	Silent	SNP	T	TCGA-CD-8532-01A-11D-2340-08	22937086	100463762	97558668	9	66578											
SOX14	8403	broad.mit.edu	37	chr3	137484052	137484052	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactccctgctggaccccgcGcagtttagctcgagcgccat	6	9	10	16	4	0	0	0	0	0	0	2	2	1	1	4	1	4	4	4	1	2	3			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr3:137484052G>T	uc003erm.1	+	1	474	c.426G>T	c.(424-426)GCG>GCT	p.A142A		NM_004189	NP_004180	O95416	SOX14_HUMAN	SRY-box 14	142					negative regulation of transcription from RNA polymerase II promoter|nervous system development|transcription, DNA-dependent	nucleus	sequence-specific DNA binding				0						TGGACCCCGCGCAGTTTAGCT	0.716													5	11					3.59834e-05	3.69559e-05	1	1	0		T	137484052	T	T	137484052	2	4	119	1	0	0	0	0	0	0	0	1	14970	1074	38	5		5	SOX14	3	137484052	Silent	SNP	G	TCGA-CD-8532-01A-11D-2340-08	37020290	137484052	60538378	10	66579											
EHHADH	1962	broad.mit.edu	37	chr3	184966304	184966304	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgtcacggagtaaagtcgTactaaaagaaaacaaaatac	20	8	7	6	2	1	1	1	0	0	1	2	2	1	2	0	1	3	2	0	1	11	5			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr3:184966304T>C	uc003fpf.2	-	2	103	c.76A>G	c.(76-78)ACG>GCG	p.T26A	EHHADH_uc011brs.1_5'UTR	NM_001966	NP_001957	Q08426	ECHP_HUMAN	enoyl-Coenzyme A, hydratase/3-hydroxyacyl	26	Enoyl-CoA hydratase / isomerase.					peroxisome	3-hydroxyacyl-CoA dehydrogenase activity|coenzyme binding|dodecenoyl-CoA delta-isomerase activity|enoyl-CoA hydratase activity			ovary(3)	3	all_cancers(143;4.04e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.98e-32)|OV - Ovarian serous cystadenocarcinoma(80;5.55e-21)		NADH(DB00157)	AGTAAAGTCGTACTAAAAGAA	0.333													28	55					0	0	1	0	0		C	184966304	C	C	184966304	3	2	119	1	0	0	0	0	1	0	0	0	4988	1652	57	3	2119	3	EHHADH	3	184966304	Missense_Mutation	SNP	T	TCGA-CD-8532-01A-11D-2340-08	47482252	184966304	13056126	11	66580											
EVC2	132884	broad.mit.edu	37	chr4	5578019	5578019	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgctcagggcttggtgcaGgacagtagagacctgccttt	7	11	13	10	0	1	1	1	0	0	1	1	3	1	2	2	3	3	4	2	3	1	4			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr4:5578019G>C	uc003gij.2	-	18	3274	c.3220C>G	c.(3220-3222)CTG>GTG	p.L1074V	EVC2_uc011bwb.1_Missense_Mutation_p.L514V|EVC2_uc003gik.2_Missense_Mutation_p.L994V	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1074	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						GCTTGGTGCAGGACAGTAGAG	0.592													19	44					0	0	1	0	0		C	5578019	C	C	5578019	3	2	119	1	0	0	0	0	1	0	0	0	5294	991	35	5	726	5	EVC2	4	5578019	Missense_Mutation	SNP	G	TCGA-CD-8532-01A-11D-2340-08		5578019	185576257	12	66581											
APBB2	323	broad.mit.edu	37	chr4	40824002	40824002	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaggcaaatgtgtggacGtccttcccaacacccatgaa	13	8	9	11	1	0	2	0	2	0	0	2	3	2	3	3	2	1	1	3	2	4	1			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr4:40824002G>A	uc003gvl.2	-	17	2625	c.1995C>T	c.(1993-1995)GAC>GAT	p.D665D	APBB2_uc010ifu.2_Silent_p.D237D|APBB2_uc003gvm.2_Silent_p.D643D|APBB2_uc003gvn.2_Silent_p.D666D|APBB2_uc003gvk.2_Silent_p.D117D	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	665	PID 2.				cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						ATGTGTGGACGTCCTTCCCAA	0.522													15	42					0	0	1	0	0		A	40824002	A	A	40824002	2	1	119	1	0	0	0	0	0	0	0	1	761	1136	40	1		1	APBB2	4	40824002	Silent	SNP	G	TCGA-CD-8532-01A-11D-2340-08	35245983	40824002	150330274	13	66582											
TXK	7294	broad.mit.edu	37	chr4	48116415	48116415	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaaaaccgactggatggtGttatctgaaaagcagatcat	15	9	10	7	1	2	3	1	1	1	2	2	5	2	4	1	2	2	2	1	2	5	1			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr4:48116415G>A	uc003gxx.3	-	2	107	c.21C>T	c.(19-21)AAC>AAT	p.N7N	TXK_uc003gxy.1_Silent_p.N7N	NM_003328	NP_003319	P42681	TXK_HUMAN	TXK tyrosine kinase	7						cytoplasm	ATP binding|non-membrane spanning protein tyrosine kinase activity				0						ACTGGATGGTGTTATCTGAAA	0.418													17	26					0	0	1	0	0		A	48116415	A	A	48116415	2	1	119	1	0	0	0	0	0	0	0	1	16812	1368	48	4		4	TXK	4	48116415	Silent	SNP	G	TCGA-CD-8532-01A-11D-2340-08	7292413	48116415	143037861	14	66583											
C4orf33	132321	broad.mit.edu	37	chr4	130030829	130030829	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggacaaaaacctgatttgTaagtagaaaataaatgaaga	22	8	8	3	0	0	4	0	2	0	2	0	5	0	5	1	1	1	2	1	1	10	4			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr4:130030829T>G	uc003igu.3	+	5	858	c.494_splice	c.e5+2	p.F165_splice	C4orf33_uc010ioc.1_Nonstop_Mutation_p.*166E|C4orf33_uc010iod.2_Splice_Site_p.F165_splice	NM_173487	NP_775758	Q8N1A6	CD033_HUMAN	hypothetical protein LOC132321											upper_aerodigestive_tract(1)	1						ACCTGATTTGTAAGTAGAAAA	0.338													6	21					0	0	1	0	0		G	130030829	G	G	130030829	5	3	119	1	0	0	0	0	0	0	1	0	2266	1652	57	5	510	5	C4orf33	4	130030829	Splice_Site	SNP	T	TCGA-CD-8532-01A-11D-2340-08	81914414	130030829	61123447	15	66584											
TTC29	83894	broad.mit.edu	37	chr4	147724798	147724798	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagctctactgttgtgtcaaAagcttgctgaaagcattcag	11	13	9	8	0	3	1	2	1	1	0	3	1	3	1	0	0	5	5	0	0	5	5			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr4:147724798A>T	uc003ikw.3	-	11	1368	c.1141T>A	c.(1141-1143)TTT>ATT	p.F381I	TTC29_uc010ipc.2_RNA|TTC29_uc003ikx.3_Missense_Mutation_p.F407I|TTC29_uc010ipd.1_Missense_Mutation_p.F381I	NM_031956	NP_114162	Q8NA56	TTC29_HUMAN	tetratricopeptide repeat domain 29	381	TPR 5.						binding				0	all_hematologic(180;0.151)					GTTGTGTCAAAAGCTTGCTGA	0.348													3	6					0	0	1	0	0		T	147724798	T	T	147724798	3	4	119	1	0	0	0	0	1	0	0	0	16722	14	1	5	298	5	TTC29	4	147724798	Missense_Mutation	SNP	A	TCGA-CD-8532-01A-11D-2340-08	17693969	147724798	43429478	16	66585											
CDSN	1041	broad.mit.edu	37	chr6	31084714	31084714	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgatgggccctccactgcaGggagagtcggggatgtccga	8	6	16	11	3	0	1	0	0	0	1	3	5	2	2	3	4	1	1	3	4	0	0	rs145637055	byFrequency	TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr6:31084714G>A	uc003nsm.1	-	2	705	c.678C>T	c.(676-678)CCC>CCT	p.P226P	PSORS1C1_uc003nsl.1_Intron|PSORS1C1_uc010jsj.1_Intron	NM_001264	NP_001255	Q15517	CDSN_HUMAN	corneodesmosin precursor	226	Ser-rich.				cell-cell adhesion|keratinocyte differentiation|skin morphogenesis	cornified envelope|desmosome|extracellular region	protein homodimerization activity			ovary(1)|pancreas(1)	2						CTCCACTGCAGGGAGAGTCGG	0.627													4	51					0	0	1	0	0		A	31084714	A	A	31084714	2	1	119	1	0	0	0	0	0	0	0	1	3182	987	35	4		4	CDSN	6	31084714	Silent	SNP	G	TCGA-CD-8532-01A-11D-2340-08		31084714	140030353	17	66586											
BCLAF1	9774	broad.mit.edu	37	chr6	136594263	136594263	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagtactatgttcttcagTggctttctgatacgaagtga	9	14	10	8	2	3	2	1	2	2	0	3	4	3	2	1	1	2	3	1	1	4	6			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr6:136594263T>A	uc003qgx.1	-	7	2168	c.1915A>T	c.(1915-1917)ACT>TCT	p.T639S	BCLAF1_uc003qgw.1_Missense_Mutation_p.T466S|BCLAF1_uc003qgy.1_Missense_Mutation_p.T637S|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.T637S	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	639					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TGTTCTTCAGTGGCTTTCTGA	0.403													12	170					0	0	1	0	0		A	136594263	A	A	136594263	3	1	119	1	0	0	0	0	1	0	0	0	1384	1696	59	5	875	5	BCLAF1	6	136594263	Missense_Mutation	SNP	T	TCGA-CD-8532-01A-11D-2340-08	105509549	136594263	34520804	18	66587											
INTS1	26173	broad.mit.edu	37	chr7	1535799	1535799	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccacatccttactcctcttTtctcctttgtcccaggcgat	5	15	4	17	1	2	0	0	0	2	0	6	1	5	0	5	1	1	0	5	1	1	4			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr7:1535799T>C	uc003skn.2	-	12	1805	c.1704A>G	c.(1702-1704)GAA>GAG	p.E568E	INTS1_uc003skp.1_5'Flank	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	568					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		TACTCCTCTTTTCTCCTTTGT	0.652													6	22					0	0	1	0	0		C	1535799	C	C	1535799	2	2	119	1	0	0	0	0	0	0	0	1	7791	1838	64	3		3	INTS1	7	1535799	Silent	SNP	T	TCGA-CD-8532-01A-11D-2340-08		1535799	157602864	19	66588											
ZAN	7455	broad.mit.edu	37	chr7	100350373	100350373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaaactcaccatccccaCggaaaaacccaccatcccca	16	3	4	18	1	1	0	1	0	0	0	3	2	3	2	7	2	2	0	7	2	4	0			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr7:100350373C>T	uc003uwj.2	+	14	2810	c.2645C>T	c.(2644-2646)ACG>ATG	p.T882M	ZAN_uc003uwk.2_Missense_Mutation_p.T882M|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	882	66 X heptapeptide repeats (approximate) (mucin-like domain).|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			ACCATCCCCACGGAAAAACCC	0.502													22	85					0	0	1	0	0		T	100350373	T	T	100350373	3	4	119	1	0	0	0	0	1	0	0	0	17539	536	19	1	2695	1	ZAN	7	100350373	Missense_Mutation	SNP	C	TCGA-CD-8532-01A-11D-2340-08	98814574	100350373	58788290	20	66589											
KCND2	3751	broad.mit.edu	37	chr7	119914783	119914783	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgccggctcccccgaggCaggagaggaaaaggacccaa	12	3	13	13	2	0	1	0	0	0	1	1	5	1	3	4	5	1	2	4	5	4	1			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr7:119914783C>G	uc003vjj.1	+	1	1062	c.97C>G	c.(97-99)CAG>GAG	p.Q33E		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	33	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TCCCCCGAGGCAGGAGAGGAA	0.627													42	179					0	0	1	0	0		G	119914783	G	G	119914783	3	3	119	1	0	0	0	0	1	0	0	0	8035	711	25	5	99	5	KCND2	7	119914783	Missense_Mutation	SNP	C	TCGA-CD-8532-01A-11D-2340-08	19564410	119914783	39223880	21	66590											
CNOT4	4850	broad.mit.edu	37	chr7	135079154	135079154	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccagtctgtagaggatgaTactgggattgtttctgttgg	7	15	14	5	0	2	2	0	1	2	1	2	4	2	4	1	3	2	3	1	3	2	5			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr7:135079154T>C	uc003vsv.1	-	10	1450	c.1143A>G	c.(1141-1143)GTA>GTG	p.V381V	CNOT4_uc003vss.2_Silent_p.V378V|CNOT4_uc011kpz.1_Silent_p.V378V|CNOT4_uc003vst.2_Silent_p.V381V|CNOT4_uc003vsu.1_Silent_p.V378V|CNOT4_uc011kpy.1_Silent_p.V381V	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	381					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						TAGAGGATGATACTGGGATTG	0.383													22	78					0	0	1	0	0		C	135079154	C	C	135079154	2	2	119	1	0	0	0	0	0	0	0	1	3624	1393	49	3		3	CNOT4	7	135079154	Silent	SNP	T	TCGA-CD-8532-01A-11D-2340-08	15164371	135079154	24059509	22	66591											
RP1	6101	broad.mit.edu	37	chr8	55542840	55542840	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgtttgagggtgaaaatcTtttcatttgggaagaggaag	12	14	13	2	0	2	3	1	2	1	1	2	5	2	5	0	3	0	1	0	3	5	5			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr8:55542840T>C	uc003xsd.1	+	4	6546	c.6398T>C	c.(6397-6399)CTT>CCT	p.L2133P	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	2133					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GGTGAAAATCTTTTCATTTGG	0.323													5	58					0	0	1	0	0		C	55542840	C	C	55542840	3	2	119	1	0	0	0	0	1	0	0	0	13557	1609	56	3	6408	3	RP1	8	55542840	Missense_Mutation	SNP	T	TCGA-CD-8532-01A-11D-2340-08		55542840	90821182	23	66592											
SMARCA2	6595	broad.mit.edu	37	chr9	2047441	2047441	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccccatccagaaaccgCaaggcctggaccccgtggaa	11	4	10	16	2	1	1	1	0	0	1	2	3	2	3	7	3	2	1	7	3	3	0			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr9:2047441C>T	uc003zhc.2	+	5	1102	c.1003C>T	c.(1003-1005)CAA>TAA	p.Q335*	SMARCA2_uc003zhd.2_Nonsense_Mutation_p.Q335*|SMARCA2_uc010mha.2_Nonsense_Mutation_p.Q326*	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	335					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		CCAGAAACCGCAAGGCCTGGA	0.692													3	7					0	0	1	0	0		T	2047441	T	T	2047441	4	4	119	1	0	0	0	0	0	1	0	0	14794	711	25	2	1017	2	SMARCA2	9	2047441	Nonsense_Mutation	SNP	C	TCGA-CD-8532-01A-11D-2340-08		2047441	139165990	24	66593											
ABCA1	19	broad.mit.edu	37	chr9	107571749	107571749	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggctaaagtggcactcacggGattgggtttccttccataca	9	11	11	10	1	1	0	1	0	0	0	3	1	3	1	2	4	1	3	2	4	3	5			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr9:107571749G>A	uc004bcl.2	-	30	4585	c.4272C>T	c.(4270-4272)ATC>ATT	p.I1424I		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1424	Extracellular.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GCACTCACGGGATTGGGTTTC	0.507													11	15					0	0	1	0	0		A	107571749	A	A	107571749	2	1	119	1	0	0	0	0	0	0	0	1	28	1164	41	4		4	ABCA1	9	107571749	Silent	SNP	G	TCGA-CD-8532-01A-11D-2340-08	105524308	107571749	33641682	25	66594											
RBP3	5949	broad.mit.edu	37	chr10	48388390	48388390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagccgtagcgctggccggCgacctggggcaaggtccaca	7	5	16	13	4	0	1	0	1	0	0	1	2	1	1	4	5	2	3	4	5	2	1			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr10:48388390C>T	uc001jez.2	-	1	2602	c.2488G>A	c.(2488-2490)GCC>ACC	p.A830T		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	830	4 X approximate tandem repeats.|3.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	CGCTGGCCGGCGACCTGGGGC	0.607													3	22					0	0	1	0	0		T	48388390	T	T	48388390	3	4	119	1	0	0	0	0	1	0	0	0	13182	768	27	1	1271	1	RBP3	10	48388390	Missense_Mutation	SNP	C	TCGA-CD-8532-01A-11D-2340-08		48388390	87146357	26	66595											
BRSK2	9024	broad.mit.edu	37	chr11	1472605	1472605	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcctgtgtgcacagttccGacgccggaggagatgtccaa	9	8	12	12	3	0	1	0	0	0	1	3	4	3	2	4	2	1	2	4	2	1	1	rs3793971		TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr11:1472605G>A	uc001lti.2	+	15	1886	c.1500G>A	c.(1498-1500)CCG>CCA	p.P500P	BRSK2_uc009ycv.1_Silent_p.P522P|BRSK2_uc001lth.1_Silent_p.P500P|BRSK2_uc001ltj.2_Silent_p.P500P|BRSK2_uc001ltk.2_RNA|BRSK2_uc001ltl.2_Silent_p.P500P|BRSK2_uc001ltm.2_Silent_p.P546P|BRSK2_uc001ltn.2_RNA|BRSK2_uc010qwx.1_RNA|BRSK2_uc009ycw.2_5'UTR	NM_003957	NP_003948	Q8IWQ3	BRSK2_HUMAN	BR serine/threonine kinase 2	500					establishment of cell polarity|neuron differentiation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)		GCACAGTTCCGACGCCGGAGG	0.637													5	79					0	0	1	0	0		A	1472605	A	A	1472605	2	1	119	1	0	0	0	0	0	0	0	1	1527	1045	37	1		1	BRSK2	11	1472605	Silent	SNP	G	TCGA-CD-8532-01A-11D-2340-08		1472605	133533911	27	66596											
SERPING1	710	broad.mit.edu	37	chr11	57381843	57381843	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttaacctgtgtgggctgaCagaggacccagatcttcagg	9	9	12	11	0	2	3	1	1	1	2	2	4	2	4	3	3	1	1	3	3	1	2			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr11:57381843C>A	uc001nkp.1	+	8	1483	c.1292C>A	c.(1291-1293)ACA>AAA	p.T431K	SERPING1_uc001nkq.1_Missense_Mutation_p.T394K|SERPING1_uc010rju.1_Missense_Mutation_p.T379K|SERPING1_uc010rjv.1_Missense_Mutation_p.T436K|SERPING1_uc001nkr.1_Missense_Mutation_p.T431K|SERPING1_uc009ymi.1_Missense_Mutation_p.T440K|SERPING1_uc009ymj.1_3'UTR|SERPING1_uc001nks.1_Missense_Mutation_p.T122K	NM_000062	NP_000053	P05155	IC1_HUMAN	serpin peptidase inhibitor, clade G, member 1	431					blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1						TGTGGGCTGACAGAGGACCCA	0.522									Hereditary_Angioedema				23	65					1.10923e-09	1.20431e-09	1	1	0		A	57381843	A	A	57381843	3	1	119	1	0	0	0	0	1	0	0	0	14141	478	17	5	1318	5	SERPING1	11	57381843	Missense_Mutation	SNP	C	TCGA-CD-8532-01A-11D-2340-08	55909238	57381843	77624673	28	66597											
C11orf2	738	broad.mit.edu	37	chr11	64863866	64863866	+	Frame_Shift_Del	DEL	G	-	-																															ggcctctcggaaggggaggcGgcgggacgccccgcggggcc																										TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr11:64863866delG	uc001ocr.1	+	1	184	c.144delG	c.(142-144)GCGfs	p.A48fs		NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	48					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						AAGGGGAGGCGGCGGGACGCC	0.701													2	4	---	---	---	---						.	-	64863866	-	-	64863866	7	5	119	1	0	1	0	1	0	0	0	0	1636	1103	39	0	146	0	C11orf2	11	64863866	Frame_Shift_Del	DEL	G	TCGA-CD-8532-01A-11D-2340-08	7482023	64863866	70142650	29	66598											
ODZ4	26011	broad.mit.edu	37	chr11	78413143	78413143	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccactgggggccccagcaacGagtgagatctctccactagt	9	7	11	14	1	1	1	0	1	1	1	3	3	2	1	4	2	2	1	4	2	2	1			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr11:78413143G>A	uc001ozl.3	-	28	4978	c.4515C>T	c.(4513-4515)CTC>CTT	p.L1505L	ODZ4_uc009yvb.1_Silent_p.L89L	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1505	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CCCCAGCAACGAGTGAGATCT	0.473													4	35					0	0	1	0	0		A	78413143	A	A	78413143	2	1	119	1	0	0	0	0	0	0	0	1	10856	1045	37	1		1	ODZ4	11	78413143	Silent	SNP	G	TCGA-CD-8532-01A-11D-2340-08	13549277	78413143	56593373	30	66599											
ETNK1	55500	broad.mit.edu	37	chr12	22796905	22796905	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggactatgctatgaatttaTacaaggagaagcactggatc	14	11	10	6	0	0	2	0	1	0	1	1	5	0	4	0	3	3	2	0	3	7	5			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr12:22796905T>C	uc001rft.2	+	2	654	c.632T>C	c.(631-633)ATA>ACA	p.I211T	ETNK1_uc009ziz.2_Missense_Mutation_p.I211T|ETNK1_uc001rfs.2_Missense_Mutation_p.I211T	NM_018638	NP_061108	Q9HBU6	EKI1_HUMAN	ethanolamine kinase 1 isoform A	211					phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|ethanolamine kinase activity				0						TATGAATTTATACAAGGAGAA	0.398													21	78					0	0	1	0	0		C	22796905	C	C	22796905	3	2	119	1	0	0	0	0	1	0	0	0	5281	1406	49	3	638	3	ETNK1	12	22796905	Missense_Mutation	SNP	T	TCGA-CD-8532-01A-11D-2340-08		22796905	111054990	31	66600											
ATF7	11016	broad.mit.edu	37	chr12	53918448	53918448	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcgggaggctgcagcccggTtgcgctccagaaagcgctgc	7	5	16	13	4	0	1	0	0	0	1	1	2	1	2	2	3	6	5	2	3	1	1			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr12:53918448T>C	uc001sdy.2	-	9	1079	c.1058A>G	c.(1057-1059)AAC>AGC	p.N353S	ATF7_uc010sok.1_RNA|ATF7_uc001sdz.2_Missense_Mutation_p.N342S|ATF7_uc010sol.1_Missense_Mutation_p.N321S	NM_001130059	NP_001123531	P17544	ATF7_HUMAN	activating transcription factor 7 isoform 1	353	Basic motif.|Essential for binding adenovirus 2 E1A.				interspecies interaction between organisms	cytoplasm|nuclear periphery|nucleoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						TGCAGCCCGGTTGCGCTCCAG	0.607													11	33					0	0	1	0	0		C	53918448	C	C	53918448	3	2	119	1	0	0	0	0	1	0	0	0	1087	1725	60	3	438	3	ATF7	12	53918448	Missense_Mutation	SNP	T	TCGA-CD-8532-01A-11D-2340-08	31121543	53918448	79933447	32	66601											
TMX1	81542	broad.mit.edu	37	chr14	51713861	51713861	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccaaggactaagaaggaCttcataaactttataagtga	16	10	9	6	0	1	2	1	1	0	1	2	4	2	4	1	3	1	0	1	3	7	6			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr14:51713861C>T	uc001wza.3	+	4	491	c.366C>T	c.(364-366)GAC>GAT	p.D122D	TMX1_uc010aoa.2_Silent_p.D38D	NM_030755	NP_110382	Q9H3N1	TMX1_HUMAN	thioredoxin domain containing 1 precursor	122	Thioredoxin.|Extracellular (Potential).				anti-apoptosis|cell proliferation|cell redox homeostasis|DNA replication|electron transport chain|ER to Golgi vesicle-mediated transport|leukocyte activation|positive regulation of growth|positive regulation of transcription, DNA-dependent|response to stress|signal transduction	endoplasmic reticulum membrane|integral to membrane|membrane fraction	arsenate reductase (thioredoxin) activity|disulfide oxidoreductase activity				0						CTAAGAAGGACTTCATAAACT	0.363													14	54					0	0	1	0	0		T	51713861	T	T	51713861	2	4	119	1	0	0	0	0	0	0	0	1	16291	564	20	4		4	TMX1	14	51713861	Silent	SNP	C	TCGA-CD-8532-01A-11D-2340-08		51713861	55635679	33	66602											
DLST	1743	broad.mit.edu	37	chr14	75361090	75361090	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacatgtgcaatgctgacaActtttaatgagattgacatg	14	13	8	6	0	0	3	0	3	0	1	0	4	0	3	0	0	4	2	0	0	4	4			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr14:75361090A>G	uc001xqv.2	+	10	811	c.748A>G	c.(748-750)ACT>GCT	p.T250A	DLST_uc001xqu.2_Missense_Mutation_p.T162A|DLST_uc001xqt.2_Missense_Mutation_p.T166A|DLST_uc010tuw.1_Missense_Mutation_p.T164A|DLST_uc001xqs.2_RNA|DLST_uc010tuv.1_Missense_Mutation_p.T250A	NM_001933	NP_001924	P36957	ODO2_HUMAN	dihydrolipoamide S-succinyltransferase (E2	250					lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	dihydrolipoyllysine-residue succinyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00698)		AATGCTGACAACTTTTAATGA	0.468													34	112					0	0	1	0	0		G	75361090	G	G	75361090	3	3	119	1	0	0	0	0	1	0	0	0	4575	43	2	3	786	3	DLST	14	75361090	Missense_Mutation	SNP	A	TCGA-CD-8532-01A-11D-2340-08	23647229	75361090	31988450	34	66603											
DENND4A	10260	broad.mit.edu	37	chr15	65989678	65989678	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgtatcccctcttctaacTtcatctttagataatgaatt	11	17	4	9	0	4	2	1	1	3	1	5	3	5	2	2	0	1	1	2	0	5	8			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr15:65989678T>C	uc002aph.2	-	20	3123	c.2745A>G	c.(2743-2745)GAA>GAG	p.E915E	DENND4A_uc002api.2_Silent_p.E958E|DENND4A_uc002apj.3_Silent_p.E915E	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	915					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CTCTTCTAACTTCATCTTTAG	0.318													12	68					0	0	1	0	0		C	65989678	C	C	65989678	2	2	119	1	0	0	0	0	0	0	0	1	4439	1606	56	3		3	DENND4A	15	65989678	Silent	SNP	T	TCGA-CD-8532-01A-11D-2340-08		65989678	36541714	35	66604											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84611717	84611717	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgtcggcagctgctaacGgatggcagctttttgaatct	8	12	11	10	2	1	1	0	1	1	0	2	2	1	2	1	3	4	5	1	3	2	3			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr15:84611717G>A	uc002bjz.3	+	19	2597	c.2373G>A	c.(2371-2373)ACG>ACA	p.T791T	ADAMTSL3_uc010bmt.1_Silent_p.T791T|ADAMTSL3_uc010bmu.1_Silent_p.T791T	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	791	TSP type-1 6.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			AGCTGCTAACGGATGGCAGCT	0.547													8	23					0	0	1	0	0		A	84611717	A	A	84611717	2	1	119	1	0	0	0	0	0	0	0	1	276	1103	39	1		1	ADAMTSL3	15	84611717	Silent	SNP	G	TCGA-CD-8532-01A-11D-2340-08	18622039	84611717	17919675	36	66605											
ADAD2	161931	broad.mit.edu	37	chr16	84228960	84228960	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctggtggctctgggcacCggcagcagctgctgtgctgg	5	8	17	11	1	1	0	0	0	1	0	1	0	1	0	1	5	5	8	1	5	1	0			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr16:84228960C>T	uc002fhr.2	+	5	906	c.792C>T	c.(790-792)ACC>ACT	p.T264T	ADAD2_uc002fhq.2_Silent_p.T346T|uc002fhs.1_5'UTR	NM_001145400	NP_001138872	Q8NCV1	ADAD2_HUMAN	adenosine deaminase domain containing 2 isoform	264	A to I editase.				RNA processing	intracellular	adenosine deaminase activity|double-stranded RNA binding				0						CTCTGGGCACCGGCAGCAGCT	0.677													9	11					0	0	1	0	0		T	84228960	T	T	84228960	2	4	119	1	0	0	0	0	0	0	0	1	232	639	23	1		1	ADAD2	16	84228960	Silent	SNP	C	TCGA-CD-8532-01A-11D-2340-08		84228960	6125793	37	66606											
SLC35B1	10237	broad.mit.edu	37	chr17	47783608	47783608	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtagtgctgaattgctggaGaccatggcacccagatagga	11	9	13	8	0	0	3	0	1	0	2	0	5	0	4	2	3	2	4	2	3	3	3			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr17:47783608G>A	uc002iph.1	-	3	384	c.297C>T	c.(295-297)GTC>GTT	p.V99V	SLC35B1_uc002ipi.1_Silent_p.V32V|SLC35B1_uc002ipj.1_5'UTR|SLC35B1_uc010wly.1_Silent_p.V99V	NM_005827	NP_005818	P78383	S35B1_HUMAN	solute carrier family 35, member B1	99	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome	UDP-galactose transmembrane transporter activity				0						AATTGCTGGAGACCATGGCAC	0.498													12	31					0	0	1	0	0		A	47783608	A	A	47783608	2	1	119	1	0	0	0	0	0	0	0	1	14600	929	33	4		4	SLC35B1	17	47783608	Silent	SNP	G	TCGA-CD-8532-01A-11D-2340-08		47783608	33411602	38	66607											
ATP8B3	148229	broad.mit.edu	37	chr19	1785587	1785587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtgtcatgaagaagttgaCcagagaggtggtcacaccat	13	8	12	8	0	2	4	2	2	0	2	2	5	2	4	2	2	0	1	2	2	2	1			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr19:1785587C>T	uc002ltw.2	-	26	3508	c.3274G>A	c.(3274-3276)GTC>ATC	p.V1092I	ATP8B3_uc002ltv.2_Missense_Mutation_p.V1055I|ATP8B3_uc002ltx.2_RNA	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	1092	Helical; (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGAAGTTGACCAGAGAGGTG	0.612													3	34					0	0	1	0	0		T	1785587	T	T	1785587	3	4	119	1	0	0	0	0	1	0	0	0	1197	507	18	4	644	4	ATP8B3	19	1785587	Missense_Mutation	SNP	C	TCGA-CD-8532-01A-11D-2340-08		1785587	57343396	39	66608											
ZNF567	163081	broad.mit.edu	37	chr19	37210533	37210533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcattgatcatcagagaactCacacaggagagaaacccttt	15	9	7	10	0	4	3	4	1	0	2	4	6	4	4	1	1	2	0	1	1	2	2			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr19:37210533C>T	uc010xtl.1	+	6	1129	c.907C>T	c.(907-909)CAC>TAC	p.H303Y	ZNF567_uc002oeo.1_Missense_Mutation_p.H303Y|ZNF567_uc010xtk.1_Missense_Mutation_p.H303Y|ZNF567_uc002oep.3_Missense_Mutation_p.H272Y|ZNF567_uc002oeq.1_Missense_Mutation_p.H272Y	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	303	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TCAGAGAACTCACACAGGAGA	0.423													5	51					0	0	1	0	0		T	37210533	T	T	37210533	3	4	119	1	0	0	0	0	1	0	0	0	18023	826	29	4	824	4	ZNF567	19	37210533	Missense_Mutation	SNP	C	TCGA-CD-8532-01A-11D-2340-08	35424946	37210533	21918450	40	66609											
PSG3	5671	broad.mit.edu	37	chr19	43242982	43242982	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcccgggtgacattctggatCagcagggatgcattggaata	10	10	13	8	1	2	1	1	1	1	0	3	4	3	4	1	4	2	2	1	4	2	3			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr19:43242982C>T	uc002oue.2	-	2	456	c.324G>A	c.(322-324)CTG>CTA	p.L108L	PSG3_uc002ouf.2_RNA|PSG1_uc002oug.1_Intron|PSG3_uc010eil.2_Silent_p.L130L	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	108	Ig-like V-type.				defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				CATTCTGGATCAGCAGGGATG	0.448													92	324					0	0	1	0	0		T	43242982	T	T	43242982	2	4	119	1	0	0	0	0	0	0	0	1	12678	813	29	4		4	PSG3	19	43242982	Silent	SNP	C	TCGA-CD-8532-01A-11D-2340-08	6032449	43242982	15886001	41	66610											
SLC8A2	6543	broad.mit.edu	37	chr19	47969473	47969473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgccttgtcacccagcgacGggtcgtcgggctcccacacg	5	6	12	18	6	1	0	1	0	0	0	4	1	2	0	4	2	1	1	4	2	0	1			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr19:47969473G>A	uc002pgx.2	-	2	466	c.188C>T	c.(187-189)CCG>CTG	p.P63L	SLC8A2_uc010xyq.1_Intron|SLC8A2_uc010xyr.1_Intron|SLC8A2_uc010ele.2_Missense_Mutation_p.P63L	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	63	Extracellular (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		ACCCAGCGACGGGTCGTCGGG	0.672													9	29					0	0	1	0	0		A	47969473	A	A	47969473	3	1	119	1	0	0	0	0	1	0	0	0	14732	1116	39	1	2613	1	SLC8A2	19	47969473	Missense_Mutation	SNP	G	TCGA-CD-8532-01A-11D-2340-08	4726491	47969473	11159510	42	66611											
BIRC8	112401	broad.mit.edu	37	chr19	53793270	53793270	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgaaatcaaatcccattcGtatagcttcttgtagcatag	12	14	6	9	1	2	1	1	1	1	0	4	1	3	1	1	0	2	4	1	0	6	8	rs113838023	byFrequency	TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr19:53793270G>A	uc002qbk.2	-	1	1606	c.358C>T	c.(358-360)CGA>TGA	p.R120*		NM_033341	NP_203127	Q96P09	BIRC8_HUMAN	baculoviral IAP repeat-containing 8	120					apoptosis		zinc ion binding	p.R120*(1)		lung(1)	1				GBM - Glioblastoma multiforme(134;0.00304)		AATCCCATTCGTATAGCTTCT	0.383													37	135					0	0	1	0	0		A	53793270	A	A	53793270	4	1	119	1	0	0	0	0	0	1	0	0	1441	1153	40	1	356	1	BIRC8	19	53793270	Nonsense_Mutation	SNP	G	TCGA-CD-8532-01A-11D-2340-08	5823797	53793270	5335713	43	66612											
ZNF470	388566	broad.mit.edu	37	chr19	57089694	57089694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgggaaagcctttagccatCgtaaatcccttactctgcat	10	12	8	11	1	1	0	0	0	1	0	3	1	2	1	3	1	4	2	3	1	5	4	rs143160710		TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr19:57089694C>T	uc002qnl.3	+	6	2573	c.1897C>T	c.(1897-1899)CGT>TGT	p.R633C	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	633	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		CTTTAGCCATCGTAAATCCCT	0.433													6	52					0	0	1	0	0		T	57089694	T	T	57089694	3	4	119	1	0	0	0	0	1	0	0	0	17954	884	31	1	1911	1	ZNF470	19	57089694	Missense_Mutation	SNP	C	TCGA-CD-8532-01A-11D-2340-08	3296424	57089694	2039289	44	66613											
ATRN	8455	broad.mit.edu	37	chr20	3541448	3541448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtatgcagtggttgggcactCtgcacacattgttacactga	9	12	11	9	0	1	1	0	1	1	0	1	1	1	1	0	2	3	6	0	2	2	4			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr20:3541448C>T	uc002wim.2	+	8	1433	c.1343C>T	c.(1342-1344)TCT>TTT	p.S448F	ATRN_uc002wil.2_Missense_Mutation_p.S448F	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	448	Extracellular (Potential).|Kelch 2.				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						GTTGGGCACTCTGCACACATT	0.453													16	61					0	0	1	0	0		T	3541448	T	T	3541448	3	4	119	1	0	0	0	0	1	0	0	0	1207	913	32	4	1373	4	ATRN	20	3541448	Missense_Mutation	SNP	C	TCGA-CD-8532-01A-11D-2340-08		3541448	59484072	45	66614											
GDF5	8200	broad.mit.edu	37	chr20	34021881	34021881	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctggatgactgcatgattCgtgggctccaggtgggagcg	6	10	17	8	2	1	2	0	2	1	0	3	4	2	4	1	4	2	2	1	4	0	1			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr20:34021881C>T	uc010gfc.1	-	2	1573	c.1332G>A	c.(1330-1332)ACG>ACA	p.T444T	uc002xcj.2_Missense_Mutation_p.R98C|GDF5_uc002xck.1_Silent_p.T444T|GDF5_uc010zvc.1_Silent_p.T444T	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	444					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			CTGCATGATTCGTGGGCTCCA	0.612													17	30					0	0	1	0	0		T	34021881	T	T	34021881	2	4	119	1	0	0	0	0	0	0	0	1	6331	871	31	1		1	GDF5	20	34021881	Silent	SNP	C	TCGA-CD-8532-01A-11D-2340-08	30480433	34021881	29003639	46	66615											
CLDN8	9073	broad.mit.edu	37	chr21	31587979	31587979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagccaagaaggacatcaCggaagcagcacacatcagtc	17	3	10	11	1	2	1	2	0	0	1	3	4	2	3	1	2	3	2	1	2	4	0			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr21:31587979C>T	uc002ynu.1	-	1	340	c.265G>A	c.(265-267)GTG>ATG	p.V89M		NM_199328	NP_955360	P56748	CLD8_HUMAN	claudin 8	89	Helical; (Potential).				calcium-independent cell-cell adhesion	endoplasmic reticulum|integral to membrane|tight junction	identical protein binding|structural molecule activity				0						AAGGACATCACGGAAGCAGCA	0.537													17	47					0	0	1	0	0		T	31587979	T	T	31587979	3	4	119	1	0	0	0	0	1	0	0	0	3494	536	19	1	416	1	CLDN8	21	31587979	Missense_Mutation	SNP	C	TCGA-CD-8532-01A-11D-2340-08		31587979	16541916	47	66616											
SAPS2	9701	broad.mit.edu	37	chr22	50878172	50878172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgagccagcgaactcaaCgcccacagccccaggagtgg	11	4	12	14	2	1	2	1	2	0	0	1	4	1	3	4	2	5	0	4	2	2	0	rs148549099		TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chr22:50878172C>T	uc003blb.1	+	21	2593	c.2171C>T	c.(2170-2172)ACG>ATG	p.T724M	SAPS2_uc003bky.1_Missense_Mutation_p.T698M|SAPS2_uc003bkz.1_Missense_Mutation_p.T697M|SAPS2_uc003blc.2_Missense_Mutation_p.T724M|SAPS2_uc003bla.1_Missense_Mutation_p.T698M|SAPS2_uc003bld.1_Missense_Mutation_p.T257M	NM_014678	NP_055493	O75170	PP6R2_HUMAN	SAPS domain family, member 2	724						cytoplasm|intracellular membrane-bounded organelle	protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.222)		GCGAACTCAACGCCCACAGCC	0.632													4	10					0	0	1	0	0		T	50878172	T	T	50878172	3	4	119	1	0	0	0	0	1	0	0	0	13862	536	19	1	2156	1	SAPS2	22	50878172	Missense_Mutation	SNP	C	TCGA-CD-8532-01A-11D-2340-08		50878172	426394	48	66617											
ZNF157	7712	broad.mit.edu	37	chrX	47272403	47272403	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggggagtgtgggaaaaacTtccgtgcaaagaaatcccta	13	8	13	7	1	0	1	0	0	0	1	2	3	2	3	2	3	2	1	2	3	5	2			TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chrX:47272403T>A	uc004dhr.1	+	4	1000	c.931T>A	c.(931-933)TTC>ATC	p.F311I		NM_003446	NP_003437	P51786	ZN157_HUMAN	zinc finger protein 157	311	C2H2-type 6.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TGGGAAAAACTTCCGTGCAAA	0.423													5	8					0	0	1	0	0		A	47272403	A	A	47272403	3	1	119	1	0	0	0	0	1	0	0	0	17762	1609	56	5	945	5	ZNF157	23	47272403	Missense_Mutation	SNP	T	TCGA-CD-8532-01A-11D-2340-08		47272403	107998157	49	66618											
KDM5C	8242	broad.mit.edu	37	chrX	53228037	53228038	+	Frame_Shift_Ins	INS	-	A	A																															gaaccttcagcttatgcagcINSatggcaggaagctcatccaa																										TCGA-CD-8532-01A-11D-2340-08	TCGA-CD-8532-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	5a078dcc-ae7b-4b2d-a013-2183a7dc39a3	6fcf7d26-e5d1-4d82-8d07-8fa6927d3c03	g.chrX:53228037_53228038insA	uc004drz.2	-	16	2809_2810	c.2276_2277insT	c.(2275-2277)ATGfs	p.M759fs	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Frame_Shift_Ins_p.M692fs|KDM5C_uc004dsa.2_Frame_Shift_Ins_p.M758fs	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	759					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						GCTTATGCAGCATGGCAGGAAG	0.579			N|F|S		clear cell renal carcinoma								26	32	---	---	---	---						.	A	53228038	A	A	53228037	7	5	119	1	0	1	1	0	0	0	0	0	8151	710	25	0	2547	0	KDM5C	23	53228037	Frame_Shift_Ins	INS	-	TCGA-CD-8532-01A-11D-2340-08	5955634	53228037	102042523	50	66619											
DNAJC11	55735	broad.mit.edu	37	chr1	6712953	6712953	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taatggaacctcctccatttCcattctgggttgagaggctt	8	14	9	10	0	1	1	0	1	1	1	4	3	4	2	4	3	1	2	4	3	2	5			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr1:6712953C>A	uc001aof.2	-	6	672	c.566G>T	c.(565-567)GGA>GTA	p.G189V	DNAJC11_uc010nzt.1_Missense_Mutation_p.G151V|DNAJC11_uc001aog.2_Missense_Mutation_p.G189V|DNAJC11_uc010nzu.1_Missense_Mutation_p.G99V	NM_018198	NP_060668	Q9NVH1	DJC11_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 11	189					protein folding		heat shock protein binding|unfolded protein binding			ovary(1)|skin(1)	2	Ovarian(185;0.0265)|all_lung(157;0.154)	all_cancers(23;1.97e-27)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;2.34e-07)|COAD - Colon adenocarcinoma(227;2.05e-05)|Kidney(185;7.67e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000639)|KIRC - Kidney renal clear cell carcinoma(229;0.00128)|STAD - Stomach adenocarcinoma(132;0.00179)|READ - Rectum adenocarcinoma(331;0.0649)		TCCTCCATTTCCATTCTGGGT	0.463													21	49					2.98393e-07	3.15656e-07	1	1	0		A	6712953	A	A	6712953	3	1	120	1	0	0	0	0	1	0	0	0	4636	855	30	5	1157	5	DNAJC11	1	6712953	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08		6712953	242537668	1	66620											
SPEN	23013	broad.mit.edu	37	chr1	16260713	16260713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcactggcctggtgaacGtctccctggtcccggtgaat	6	10	11	14	2	2	2	1	2	1	0	4	2	3	2	3	4	1	0	3	4	2	0			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr1:16260713G>A	uc001axk.1	+	11	8182	c.7978G>A	c.(7978-7980)GTC>ATC	p.V2660I	SPEN_uc010obp.1_Missense_Mutation_p.V2619I	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2660	RID.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CCTGGTGAACGTCTCCCTGGT	0.562													8	105					0	0	1	0	0		A	16260713	A	A	16260713	3	1	120	1	0	0	0	0	1	0	0	0	15063	1145	40	1	8020	1	SPEN	1	16260713	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	9547760	16260713	232989908	2	66621											
TXLNA	200081	broad.mit.edu	37	chr1	32660744	32660744	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacccaggagcaccgagcaCagaagcatcaggccagactg	13	3	11	14	1	1	2	1	0	0	2	1	4	1	3	3	2	4	3	3	2	2	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr1:32660744C>T	uc001bui.2	+	11	1654	c.1589C>T	c.(1588-1590)ACA>ATA	p.T530I	TXLNA_uc001buj.2_Missense_Mutation_p.T530I	NM_175852	NP_787048	P40222	TXLNA_HUMAN	taxilin	530				T -> A (in Ref. 2; CAD91138).	cell proliferation|exocytosis	cytoplasm|extracellular region	cytokine activity|high molecular weight B cell growth factor receptor binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GCACCGAGCACAGAAGCATCA	0.667													7	31					0	0	1	0	0		T	32660744	T	T	32660744	3	4	120	1	0	0	0	0	1	0	0	0	16813	478	17	4	1627	4	TXLNA	1	32660744	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	16400031	32660744	216589877	3	66622											
NBPF9	400818	broad.mit.edu	37	chr1	144823868	144823868	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtcttgcaggactcactgTatagatgttattcaactcct	11	14	7	9	0	3	1	2	0	1	1	4	2	4	2	1	1	2	3	1	1	5	5			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr1:144823868T>G	uc009wig.1	+	17	1985	c.1909T>G	c.(1909-1911)TAT>GAT	p.Y637D	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Intron|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Missense_Mutation_p.Y438D|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Missense_Mutation_p.Y297D	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	637	NBPF 4.					cytoplasm					0						GGACTCACTGTATAGATGTTA	0.478													4	4					0	0	1	0	0		G	144823868	G	G	144823868	3	3	120	1	0	0	0	0	1	0	0	0	10218	1638	57	5	1961	5	NBPF9	1	144823868	Missense_Mutation	SNP	T	TCGA-CD-8534-01A-11D-2340-08	112163124	144823868	104426753	4	66623											
HIST2H2BF	440689	broad.mit.edu	37	chr1	149398947	149398947	+	RNA	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagtgcgccaggcgggacGcctctcccgcgatgcgctcg	4	7	15	15	7	1	0	0	0	1	0	3	2	1	1	3	2	2	2	3	2	1	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr1:149398947G>A	uc010pbi.1	-	1		c.283C>T						Q5QNW6	H2B2F_HUMAN	Homo sapiens histone cluster 2, H3, pseudogene 2, mRNA (cDNA clone IMAGE:5190019).						nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)					CAGGCGGGACGCCTCTCCCGC	0.657													5	128					0	0	1	0	0		A	149398947	A	A	149398947	1	1	120	0	1	0	0	0	0	0	0	0	7196	1087	38	1		1	HIST2H2BF	1	149398947	RNA	SNP	G	TCGA-CD-8534-01A-11D-2340-08	4575079	149398947	99851674	5	66624											
SEMA6C	10500	broad.mit.edu	37	chr1	151110229	151110229	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagacctcgcggaagaaGaagtagacatggtctccatg	14	6	12	9	2	1	4	0	0	1	4	3	6	1	5	2	2	0	1	2	2	4	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr1:151110229G>T	uc001ewu.2	-	10	1014	c.714C>A	c.(712-714)TTC>TTA	p.F238L	SEMA6C_uc001ewv.2_Missense_Mutation_p.F238L|SEMA6C_uc001eww.2_Missense_Mutation_p.F198L|SEMA6C_uc010pcq.1_Missense_Mutation_p.F238L|SEMA6C_uc009wml.1_RNA	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	238	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CGCGGAAGAAGAAGTAGACAT	0.557													11	88					5.50884e-06	5.68654e-06	1	1	0		T	151110229	T	T	151110229	3	4	120	1	0	0	0	0	1	0	0	0	14066	933	33	5	2218	5	SEMA6C	1	151110229	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	1711282	151110229	98140392	6	66625											
ISG20L2	81875	broad.mit.edu	37	chr1	156696911	156696911	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcacagtcaattgccaccatCttccgtggcaacttctggga	9	11	8	13	1	4	0	2	0	2	0	5	1	5	1	3	2	2	1	3	2	2	3			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr1:156696911C>T	uc001fps.1	-	1	795	c.534G>A	c.(532-534)AAG>AAA	p.K178K	ISG20L2_uc001fpt.1_Silent_p.K178K|C1orf66_uc001fpu.2_5'Flank|C1orf66_uc001fpv.2_5'Flank	NM_030980	NP_112242	Q9H9L3	I20L2_HUMAN	interferon stimulated exonuclease gene	178	Exonuclease.				ribosome biogenesis	nucleolus	exonuclease activity|nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TTGCCACCATCTTCCGTGGCA	0.493											OREG0013885	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	84					0	0	1	0	0		T	156696911	T	T	156696911	2	4	120	1	0	0	0	0	0	0	0	1	7871	912	32	4		4	ISG20L2	1	156696911	Silent	SNP	C	TCGA-CD-8534-01A-11D-2340-08	5586682	156696911	92553710	7	66626											
ARHGAP30	257106	broad.mit.edu	37	chr1	161023088	161023088	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagagctggtccacgtgtgtGaggatgaactccacgacgat	11	8	13	9	3	0	3	0	2	0	1	2	6	2	4	2	2	2	1	2	2	2	0			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr1:161023088G>A	uc001fxl.2	-	6	970	c.624C>T	c.(622-624)CTC>CTT	p.L208L	ARHGAP30_uc001fxk.2_Silent_p.L208L|ARHGAP30_uc001fxm.2_Silent_p.L54L|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_Silent_p.L54L	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	208	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			CCACGTGTGTGAGGATGAACT	0.557													24	49					0	0	1	0	0		A	161023088	A	A	161023088	2	1	120	1	0	0	0	0	0	0	0	1	879	1277	45	4		4	ARHGAP30	1	161023088	Silent	SNP	G	TCGA-CD-8534-01A-11D-2340-08	4326177	161023088	88227533	8	66627											
TDRD5	163589	broad.mit.edu	37	chr1	179631422	179631422	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtaaagaaatgccacagaagGttagatccttggaaaaatag	18	8	10	5	0	0	3	0	0	0	3	1	4	1	4	2	2	1	2	2	2	8	4			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr1:179631422G>T	uc001gnf.1	+	14	2593	c.2343_splice	c.e14+1	p.K781_splice	TDRD5_uc010pnp.1_Splice_Site_p.K835_splice|TDRD5_uc001gnh.1_Splice_Site_p.K336_splice	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5						DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						GCCACAGAAGGTTAGATCCTT	0.269													8	48					5.18039e-06	5.39098e-06	1	1	0		T	179631422	T	T	179631422	5	4	120	1	0	0	0	0	0	0	1	0	15758	1275	44	5	2394	5	TDRD5	1	179631422	Splice_Site	SNP	G	TCGA-CD-8534-01A-11D-2340-08	18608334	179631422	69619199	9	66628											
KIF21B	23046	broad.mit.edu	37	chr1	200969033	200969033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccgcctcgttctcatccGtctcctcgctgttctcctgt	1	15	6	19	4	3	0	1	0	3	0	10	0	5	0	6	0	0	3	6	0	0	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr1:200969033G>A	uc001gvs.1	-	12	2062	c.1745C>T	c.(1744-1746)ACG>ATG	p.T582M	KIF21B_uc001gvr.1_Missense_Mutation_p.T582M|KIF21B_uc009wzl.1_Missense_Mutation_p.T582M|KIF21B_uc010ppn.1_Missense_Mutation_p.T582M	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	582	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						GTTCTCATCCGTCTCCTCGCT	0.627													30	81					0	0	1	0	0		A	200969033	A	A	200969033	3	1	120	1	0	0	0	0	1	0	0	0	8305	1145	40	1	3221	1	KIF21B	1	200969033	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	21337611	200969033	48281588	10	66629											
RYR2	6262	broad.mit.edu	37	chr1	237617837	237617837	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacaaacagaacagactacGagccctgaagaatcggcaaa	19	3	9	10	2	0	5	0	1	0	4	1	6	0	5	1	1	4	1	1	1	6	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr1:237617837G>T	uc001hyl.1	+	15	1559	c.1439G>T	c.(1438-1440)CGA>CTA	p.R480L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	480	Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AACAGACTACGAGCCCTGAAG	0.443													7	31					0.00307968	0.00307968	1	1	0		T	237617837	T	T	237617837	3	4	120	1	0	0	0	0	1	0	0	0	13794	1058	37	5	1497	5	RYR2	1	237617837	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	36648804	237617837	11632784	11	66630											
RYR2	6262	broad.mit.edu	37	chr1	237765353	237765353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtacaaaattatttcctgCggtttttgcacaagctacaa	13	13	7	8	1	0	0	0	0	0	0	1	1	1	0	1	1	5	4	1	1	7	6			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr1:237765353C>T	uc001hyl.1	+	35	4745	c.4625C>T	c.(4624-4626)GCG>GTG	p.A1542V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1542	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTATTTCCTGCGGTTTTTGCA	0.299													3	23					0	0	1	0	0		T	237765353	T	T	237765353	3	4	120	1	0	0	0	0	1	0	0	0	13794	768	27	1	4763	1	RYR2	1	237765353	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	147516	237765353	11485268	12	66631											
LTBP1	4052	broad.mit.edu	37	chr2	33589405	33589405	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtcagaaaaaagatgtataCgaccggctgagtcaaacggt	15	7	11	8	4	2	3	2	1	0	2	2	4	2	3	1	2	2	2	1	2	6	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr2:33589405C>T	uc002ros.2	+	30	4525	c.4525C>T	c.(4525-4527)CGA>TGA	p.R1509*	LTBP1_uc002rot.2_Nonsense_Mutation_p.R1183*|LTBP1_uc002rou.2_Nonsense_Mutation_p.R1182*|LTBP1_uc002rov.2_Nonsense_Mutation_p.R1129*|LTBP1_uc010ymz.1_Nonsense_Mutation_p.R1140*|LTBP1_uc010yna.1_Nonsense_Mutation_p.R1087*|LTBP1_uc010ynb.1_Nonsense_Mutation_p.R406*	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1508					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				AAGATGTATACGACCGGCTGA	0.408													17	29					0	0	1	0	0		T	33589405	T	T	33589405	4	4	120	1	0	0	0	0	0	1	0	0	9091	528	19	1	4695	1	LTBP1	2	33589405	Nonsense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08		33589405	209609968	13	66632											
ZNF638	27332	broad.mit.edu	37	chr2	71591185	71591185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagtcacagattccgtcGgtctcgaagcccaatgcatt	10	10	8	13	3	3	1	2	0	1	1	6	2	4	1	2	1	2	1	2	1	3	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr2:71591185G>A	uc002shx.2	+	5	1839	c.1520G>A	c.(1519-1521)CGG>CAG	p.R507Q	ZNF638_uc010fec.2_Missense_Mutation_p.R613Q|ZNF638_uc010yqw.1_Missense_Mutation_p.R86Q|ZNF638_uc002shw.2_Missense_Mutation_p.R507Q|ZNF638_uc002shy.2_Missense_Mutation_p.R507Q|ZNF638_uc002shz.2_Missense_Mutation_p.R507Q|ZNF638_uc002sia.2_Missense_Mutation_p.R507Q|ZNF638_uc002sib.1_Missense_Mutation_p.R507Q|ZNF638_uc010fed.2_5'Flank	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	507	Arg-rich.				RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AGATTCCGTCGGTCTCGAAGC	0.453													47	82					0	0	1	0	0		A	71591185	A	A	71591185	3	1	120	1	0	0	0	0	1	0	0	0	18080	1116	39	1	1534	1	ZNF638	2	71591185	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	38001780	71591185	171608188	14	66633											
IWS1	55677	broad.mit.edu	37	chr2	128244161	128244161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catttccacattccatttggGcctgacaacatagtccttgt	9	14	6	12	0	0	1	0	1	0	0	3	1	3	1	4	1	1	0	4	1	2	5			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr2:128244161G>A	uc002ton.2	-	13	2599	c.2296C>T	c.(2296-2298)CCC>TCC	p.P766S		NM_017969	NP_060439	Q96ST2	IWS1_HUMAN	IWS1 homolog	766					transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0735)		TTCCATTTGGGCCTGACAACA	0.493													3	40					0	0	1	0	0		A	128244161	A	A	128244161	3	1	120	1	0	0	0	0	1	0	0	0	7947	1203	42	2	171	2	IWS1	2	128244161	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	56652976	128244161	114955212	15	66634											
SGOL2	151246	broad.mit.edu	37	chr2	201437550	201437550	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaaccaaccaaatatatgaGaatgataacaaaggtgtaca	21	7	7	6	0	0	2	0	2	0	1	0	4	0	2	2	1	4	1	2	1	9	4	rs150234762	by1000genomes	TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr2:201437550G>C	uc002uvw.2	+	7	2594	c.2481G>C	c.(2479-2481)GAG>GAC	p.E827D	SGOL2_uc010zhd.1_Missense_Mutation_p.E827D|SGOL2_uc010zhe.1_Missense_Mutation_p.E827D	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	827					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						AAATATATGAGAATGATAACA	0.323													4	79					0	0	1	0	0		C	201437550	C	C	201437550	3	2	120	1	0	0	0	0	1	0	0	0	14242	933	33	5	2503	5	SGOL2	2	201437550	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	73193389	201437550	41761823	16	66635											
PTPRN	5798	broad.mit.edu	37	chr2	220164444	220164444	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttgatgaagctgcctgAggacatgtgcacatgctcag	10	10	13	8	0	1	3	1	3	0	0	1	5	1	4	1	1	4	4	1	1	1	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr2:220164444A>G	uc002vkz.2	-	10	1590	c.1501T>C	c.(1501-1503)TCA>CCA	p.S501P	PTPRN_uc010zlc.1_Missense_Mutation_p.S411P|PTPRN_uc002vla.2_Intron	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	501	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		AAGCTGCCTGAGGACATGTGC	0.602													20	43					0	0	1	0	0		G	220164444	G	G	220164444	3	3	120	1	0	0	0	0	1	0	0	0	12832	304	11	3	1494	3	PTPRN	2	220164444	Missense_Mutation	SNP	A	TCGA-CD-8534-01A-11D-2340-08	18726894	220164444	23034929	17	66636											
CHL1	10752	broad.mit.edu	37	chr3	439943	439943	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagatatcaggagtaaatcTtactcaaaagactcacccaa	18	8	6	9	0	4	2	3	0	1	2	4	4	4	3	1	1	1	1	1	1	8	3			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr3:439943T>A	uc003bou.2	+	24	3351	c.3080T>A	c.(3079-3081)CTT>CAT	p.L1027H	CHL1_uc003bot.2_Missense_Mutation_p.L1043H|CHL1_uc003bow.1_Missense_Mutation_p.L1027H|CHL1_uc011asi.1_Intron	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	1027	Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		GGAGTAAATCTTACTCAAAAG	0.348													16	47					0	0	1	0	0		A	439943	A	A	439943	3	1	120	1	0	0	0	0	1	0	0	0	3352	1609	56	5	3218	5	CHL1	3	439943	Missense_Mutation	SNP	T	TCGA-CD-8534-01A-11D-2340-08		439943	197582487	18	66637											
CACNA1D	776	broad.mit.edu	37	chr3	53757546	53757546	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcctccaagcatatttcgtCtctcttttcaaccggtttga	7	15	7	12	2	3	1	1	1	2	0	6	1	4	1	3	2	2	2	3	2	3	5			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr3:53757546C>T	uc003dgv.3	+	13	1915	c.1752C>T	c.(1750-1752)GTC>GTT	p.V584V	CACNA1D_uc003dgu.3_Silent_p.V604V|CACNA1D_uc003dgy.3_Silent_p.V584V|CACNA1D_uc003dgw.3_Silent_p.V251V	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	584	Cytoplasmic (Potential).|II.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	CATATTTCGTCTCTCTTTTCA	0.478													57	131					0	0	1	0	0		T	53757546	T	T	53757546	2	4	120	1	0	0	0	0	0	0	0	1	2544	900	32	4		4	CACNA1D	3	53757546	Silent	SNP	C	TCGA-CD-8534-01A-11D-2340-08	53317603	53757546	144264884	19	66638											
IGSF10	285313	broad.mit.edu	37	chr3	151155062	151155062	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtaagaataactggcttctgGccaatttctaatatgactaa	14	13	7	7	0	2	2	0	1	2	1	2	2	2	2	1	2	1	2	1	2	7	7			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr3:151155062G>C	uc011bod.1	-	6	7287	c.7287C>G	c.(7285-7287)GGC>GGG	p.G2429G	IGSF10_uc011bob.1_Silent_p.G456G|IGSF10_uc011boc.1_Silent_p.G408G	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	2429					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTGGCTTCTGGCCAATTTCTA	0.403													44	120					0	0	1	0	0		C	151155062	C	C	151155062	2	2	120	1	0	0	0	0	0	0	0	1	7613	1190	42	5		5	IGSF10	3	151155062	Silent	SNP	G	TCGA-CD-8534-01A-11D-2340-08	97397516	151155062	46867368	20	66639											
EIF4G1	1981	broad.mit.edu	37	chr3	184046450	184046450	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggaattggctgaggacAtggaaattgacatcccccac	11	10	10	10	0	1	2	0	2	1	0	2	5	2	5	2	4	0	1	2	4	2	3	rs112809828		TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr3:184046450A>G	uc003fnp.2	+	27	4183	c.3985A>G	c.(3985-3987)ATG>GTG	p.M1329V	EIF4G1_uc003fnt.2_Missense_Mutation_p.M1040V|EIF4G1_uc003fnq.2_Missense_Mutation_p.M1242V|EIF4G1_uc003fnr.2_Missense_Mutation_p.M1165V|EIF4G1_uc010hxx.2_Missense_Mutation_p.M1336V|EIF4G1_uc003fns.2_Missense_Mutation_p.M1289V|EIF4G1_uc010hxy.2_Missense_Mutation_p.M1336V|EIF4G1_uc003fnv.3_Missense_Mutation_p.M1330V|EIF4G1_uc003fnu.3_Missense_Mutation_p.M1329V|EIF4G1_uc003fnw.2_Missense_Mutation_p.M1336V|EIF4G1_uc003fnx.2_Missense_Mutation_p.M1134V|EIF4G1_uc003fny.3_Missense_Mutation_p.M1133V|EIF4G1_uc003foa.2_Missense_Mutation_p.M1V	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1329	MI.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GGCTGAGGACATGGAAATTGA	0.532													6	197					0	0	1	0	0		G	184046450	G	G	184046450	3	3	120	1	0	0	0	0	1	0	0	0	5044	217	8	3	4083	3	EIF4G1	3	184046450	Missense_Mutation	SNP	A	TCGA-CD-8534-01A-11D-2340-08	32891388	184046450	13975980	21	66640											
PPP2R2C	5522	broad.mit.edu	37	chr4	6325201	6325201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccccacgcacacgcgcCgtggcttgagcacagcccgg	6	4	12	19	5	0	1	0	1	0	0	0	1	0	1	5	2	3	3	5	2	0	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr4:6325201C>T	uc003gjc.2	-	9	1542	c.1172G>A	c.(1171-1173)CGG>CAG	p.R391Q	PPP2R2C_uc003gjb.2_Missense_Mutation_p.R374Q|PPP2R2C_uc011bwd.1_Missense_Mutation_p.R384Q|PPP2R2C_uc011bwe.1_Missense_Mutation_p.R384Q|PPP2R2C_uc003gja.2_Missense_Mutation_p.R391Q	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	391					signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						GCACACGCGCCGTGGCTTGAG	0.627													11	18					0	0	1	0	0		T	6325201	T	T	6325201	3	4	120	1	0	0	0	0	1	0	0	0	12408	652	23	1	175	1	PPP2R2C	4	6325201	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08		6325201	184829075	22	66641											
TLL1	7092	broad.mit.edu	37	chr4	166981211	166981211	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacttcttaccaaacttaaCggcaccataaccacccctgg	12	8	6	15	1	1	0	0	0	1	0	1	1	1	1	5	3	4	1	5	3	4	4	rs114032464	by1000genomes	TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr4:166981211C>T	uc003irh.1	+	15	2525	c.1878C>T	c.(1876-1878)AAC>AAT	p.N626N	TLL1_uc011cjn.1_Silent_p.N649N|TLL1_uc011cjo.1_Silent_p.N450N	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	626	CUB 3.				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		CCAAACTTAACGGCACCATAA	0.463													17	18					0	0	1	0	0		T	166981211	T	T	166981211	2	4	120	1	0	0	0	0	0	0	0	1	15970	535	19	1		1	TLL1	4	166981211	Silent	SNP	C	TCGA-CD-8534-01A-11D-2340-08	160656010	166981211	24173065	23	66642											
MYO10	4651	broad.mit.edu	37	chr5	16671582	16671582	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttggcacgttgtctgtGtccaggaagcagtaaagttt	8	15	11	7	1	2	0	0	0	2	0	3	1	3	1	1	2	1	5	1	2	3	5			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr5:16671582G>A	uc003jft.3	-	38	5847	c.5379C>T	c.(5377-5379)GAC>GAT	p.D1793D	MYO10_uc011cnb.1_Silent_p.D422D|MYO10_uc011cnc.1_Silent_p.D672D|MYO10_uc011cnd.1_Silent_p.D1150D|MYO10_uc011cne.1_Silent_p.D1150D|MYO10_uc010itx.2_Silent_p.D1415D	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1793	FERM.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CGTTGTCTGTGTCCAGGAAGC	0.463													4	47					0	0	1	0	0		A	16671582	A	A	16671582	2	1	120	1	0	0	0	0	0	0	0	1	10080	1368	48	4		4	MYO10	5	16671582	Silent	SNP	G	TCGA-CD-8534-01A-11D-2340-08		16671582	164243678	24	66643											
MAST4	375449	broad.mit.edu	37	chr5	66430464	66430464	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgaatttctggttggatgCgtgccattctttggggatac	7	16	12	6	1	2	1	0	1	2	0	2	3	2	3	1	4	3	1	1	4	3	6			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr5:66430464C>T	uc003jut.1	+	17	1841	c.1773C>T	c.(1771-1773)TGC>TGT	p.C591C	MAST4_uc003juu.1_Silent_p.C601C|MAST4_uc011cra.1_Silent_p.C574C|MAST4_uc003juv.2_Silent_p.C586C|MAST4_uc003juw.2_Silent_p.C586C	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	783	Protein kinase.					cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		TGGTTGGATGCGTGCCATTCT	0.468													9	121					0	0	1	0	0		T	66430464	T	T	66430464	2	4	120	1	0	0	0	0	0	0	0	1	9345	776	27	1		1	MAST4	5	66430464	Silent	SNP	C	TCGA-CD-8534-01A-11D-2340-08	49758882	66430464	114484796	25	66644											
FTSJD2	23070	broad.mit.edu	37	chr6	37440259	37440259	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgaagttctttgagctaaTccaggtaagactggtatctg	11	13	10	7	1	2	2	0	1	2	1	4	3	3	2	1	2	1	4	1	2	4	5			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr6:37440259T>C	uc003ons.2	+	16	1938	c.1685T>C	c.(1684-1686)ATC>ACC	p.I562T		NM_015050	NP_055865	Q8N1G2	MTR1_HUMAN	FtsJ methyltransferase domain containing 2	562					mRNA capping	cytoplasm|nucleus	mRNA (nucleoside-2'-O-)-methyltransferase activity|nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						TTTGAGCTAATCCAGGTAAGA	0.468													4	72					0	0	1	0	0		C	37440259	C	C	37440259	3	2	120	1	0	0	0	0	1	0	0	0	6105	1435	50	3	1743	3	FTSJD2	6	37440259	Missense_Mutation	SNP	T	TCGA-CD-8534-01A-11D-2340-08		37440259	133674808	26	66645											
GPR115	221393	broad.mit.edu	37	chr6	47675062	47675062	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgttcccactatagatccaaGattcacctaaaagtaagttt	14	13	5	9	0	1	2	1	0	0	2	3	2	3	2	3	0	0	3	3	0	6	7			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr6:47675062G>A	uc003oza.1	+	2	339	c.81G>A	c.(79-81)AAG>AAA	p.K27K	GPR115_uc003oyz.1_Silent_p.K84K|GPR115_uc003ozb.1_Silent_p.K25K	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	27	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						ATAGATCCAAGATTCACCTAA	0.398													18	58					0	0	1	0	0		A	47675062	A	A	47675062	2	1	120	1	0	0	0	0	0	0	0	1	6647	933	33	4		4	GPR115	6	47675062	Silent	SNP	G	TCGA-CD-8534-01A-11D-2340-08	10234803	47675062	123440005	27	66646											
COL10A1	1300	broad.mit.edu	37	chr6	116442355	116442355	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccagcaggtcctctttcTcccttcaggcctggcaagcc	6	9	10	16	0	3	0	1	0	2	0	5	0	4	0	5	4	2	2	5	4	1	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr6:116442355T>G	uc003pwm.2	-	3	1020	c.924A>C	c.(922-924)GGA>GGC	p.G308G	NT5DC1_uc003pwj.2_Intron|NT5DC1_uc003pwk.2_Intron|NT5DC1_uc003pwl.2_Intron	NM_000493	NP_000484	Q03692	COAA1_HUMAN	type X collagen alpha 1 precursor	308	Triple-helical region.				skeletal system development	collagen	metal ion binding			central_nervous_system(1)	1		all_cancers(87;0.0176)|all_epithelial(87;0.0263)|Colorectal(196;0.234)		all cancers(137;0.0157)|OV - Ovarian serous cystadenocarcinoma(136;0.0325)|GBM - Glioblastoma multiforme(226;0.0446)|Epithelial(106;0.0711)		GTCCTCTTTCTCCCTTCAGGC	0.632													4	64					0	0	1	0	0		G	116442355	G	G	116442355	2	3	120	1	0	0	0	0	0	0	0	1	3669	1538	54	5		5	COL10A1	6	116442355	Silent	SNP	T	TCGA-CD-8534-01A-11D-2340-08	68767293	116442355	54672712	28	66647											
SYNE1	23345	broad.mit.edu	37	chr6	152711422	152711422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataggttctgtacctttgagCgtggacggaggagctcatga	9	11	14	7	2	2	2	1	2	1	0	2	5	2	5	1	4	3	3	1	4	2	4			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr6:152711422C>T	uc010kiw.2	-	53	8772	c.8170G>A	c.(8170-8172)GCT>ACT	p.A2724T	SYNE1_uc003qot.3_Missense_Mutation_p.A2731T|SYNE1_uc003qou.3_Missense_Mutation_p.A2724T|SYNE1_uc010kjb.1_Missense_Mutation_p.A2707T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2724	Cytoplasmic (Potential).|HAT 5.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TACCTTTGAGCGTGGACGGAG	0.463										HNSCC(10;0.0054)			16	52					0	0	1	0	0		T	152711422	T	T	152711422	3	4	120	1	0	0	0	0	1	0	0	0	15470	768	27	1	18672	1	SYNE1	6	152711422	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	36269067	152711422	18403645	29	66648											
ACHE	43	broad.mit.edu	37	chr7	100489999	100489999	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatcgcatcagtcgctgggcGaagattttctcctctgccgt	6	13	10	12	4	3	1	1	0	2	1	6	2	3	1	2	1	1	2	2	1	2	3			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr7:100489999G>A	uc003uxd.2	-	2	1665	c.1509C>T	c.(1507-1509)TTC>TTT	p.F503F	UFSP1_uc003uxc.3_5'Flank|ACHE_uc003uxe.2_Silent_p.F503F|ACHE_uc003uxf.2_Silent_p.F503F|ACHE_uc003uxg.2_Silent_p.F503F|ACHE_uc003uxh.2_Silent_p.F415F|ACHE_uc003uxi.2_Silent_p.F503F	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	503					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	GTCGCTGGGCGAAGATTTTCT	0.627													12	124					0	0	1	0	0		A	100489999	A	A	100489999	2	1	120	1	0	0	0	0	0	0	0	1	141	1049	37	1		1	ACHE	7	100489999	Silent	SNP	G	TCGA-CD-8534-01A-11D-2340-08		100489999	58648664	30	66649											
CASP2	835	broad.mit.edu	37	chr7	143001838	143001838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgctcaagtgttttctgagCgggcttgtgatatgcacgtg	6	15	13	7	2	2	2	1	2	1	0	2	2	2	2	0	1	3	4	0	1	2	5			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr7:143001838C>T	uc003wco.2	+	10	1336	c.1189C>T	c.(1189-1191)CGG>TGG	p.R397W	CASP2_uc003wcp.2_3'UTR|CASP2_uc011kta.1_Missense_Mutation_p.R281W|CASP2_uc003wcq.2_RNA|CASP2_uc011ktb.1_Missense_Mutation_p.R147W	NM_032982	NP_116764	P42575	CASP2_HUMAN	caspase 2 isoform 1 preproprotein	397					apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|protein maturation by peptide bond cleavage	cytosol	cysteine-type endopeptidase activity|enzyme binding|protein binding|protein domain specific binding			lung(2)|ovary(1)	3	Melanoma(164;0.059)					GTTTTCTGAGCGGGCTTGTGA	0.552													4	64					0	0	1	0	0		T	143001838	T	T	143001838	3	4	120	1	0	0	0	0	1	0	0	0	2674	759	27	1	1227	1	CASP2	7	143001838	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	42511839	143001838	16136825	31	66650											
SNTG1	54212	broad.mit.edu	37	chr8	51617181	51617181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgacctgctggaccgaCggaaacagtgcttcaccgtg	10	7	12	12	3	1	1	1	1	0	0	1	4	1	3	3	2	3	2	3	2	1	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr8:51617181C>T	uc010lxy.1	+	17	1431	c.1060C>T	c.(1060-1062)CGG>TGG	p.R354W	SNTG1_uc003xqs.1_Missense_Mutation_p.R354W|SNTG1_uc010lxz.1_Missense_Mutation_p.R354W|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	354	PH.				cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				GCTGGACCGACGGAAACAGTG	0.557													25	79					0	0	1	0	0		T	51617181	T	T	51617181	3	4	120	1	0	0	0	0	1	0	0	0	14899	527	19	1	1114	1	SNTG1	8	51617181	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08		51617181	94746841	32	66651											
CHD7	55636	broad.mit.edu	37	chr8	61693580	61693580	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attccccgtcggagccctttCtagagaaaccagtgccggat	9	9	10	13	3	1	1	0	0	1	1	3	4	2	3	5	2	3	0	5	2	2	3			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr8:61693580C>G	uc003xue.2	+	3	2164	c.1687C>G	c.(1687-1689)CTA>GTA	p.L563V		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	563	Pro-rich.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity	p.556_871dup(1)		ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GGAGCCCTTTCTAGAGAAACC	0.433													3	16					0	0	1	0	0		G	61693580	G	G	61693580	3	3	120	1	0	0	0	0	1	0	0	0	3333	912	32	5	1693	5	CHD7	8	61693580	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	10076399	61693580	84670442	33	66652											
FAM92A1	137392	broad.mit.edu	37	chr8	94717228	94717228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagcgaaacccatctgatcGacatgttattgtatcctttg	10	14	7	10	2	2	1	1	1	1	0	4	3	3	1	2	0	2	2	2	0	3	4			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr8:94717228G>A	uc010maq.2	+	4	525	c.422G>A	c.(421-423)CGA>CAA	p.R141Q	FAM92A1_uc003yfu.1_RNA|FAM92A1_uc003yfv.3_RNA	NM_145269	NP_660312	A1XBS5	F92A1_HUMAN	hypothetical protein LOC137392	141	Potential.										0	Breast(36;2.4e-06)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			CCATCTGATCGACATGTTATT	0.338													16	28					0	0	1	0	0		A	94717228	A	A	94717228	3	1	120	1	0	0	0	0	1	0	0	0	5666	1058	37	1	436	1	FAM92A1	8	94717228	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	33023648	94717228	51646794	34	66653											
CSMD3	114788	broad.mit.edu	37	chr8	113318352	113318352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacaaaaataggtaactcgcGttcctaccaaatagtctgtt	14	12	6	9	2	1	0	0	0	1	0	3	0	2	0	2	1	3	3	2	1	8	7			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr8:113318352G>A	uc003ynu.2	-	51	8114	c.7955C>T	c.(7954-7956)ACG>ATG	p.T2652M	CSMD3_uc003yns.2_Missense_Mutation_p.T1854M|CSMD3_uc003ynt.2_Missense_Mutation_p.T2612M|CSMD3_uc011lhx.1_Missense_Mutation_p.T2548M	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2652	Extracellular (Potential).|Sushi 15.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GGTAACTCGCGTTCCTACCAA	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			17	61					0	0	1	0	0		A	113318352	A	A	113318352	3	1	120	1	0	0	0	0	1	0	0	0	3949	1145	40	1	3252	1	CSMD3	8	113318352	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	18601124	113318352	33045670	35	66654											
DMRT2	10655	broad.mit.edu	37	chr9	1056234	1056234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggctatcgccccattccagCggagacttatgtaggaggga	10	8	13	10	2	0	1	0	0	0	1	2	4	1	3	3	4	1	2	3	4	3	4	rs150037258	byFrequency	TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr9:1056234C>T	uc003zha.2	+	4	847	c.647C>T	c.(646-648)GCG>GTG	p.A216V	DMRT2_uc003zgx.3_5'UTR|DMRT2_uc010mgz.2_5'UTR|DMRT2_uc003zgy.3_Missense_Mutation_p.A60V|DMRT2_uc003zhb.3_3'UTR|DMRT2_uc011llt.1_3'UTR|DMRT2_uc011llu.1_3'UTR|DMRT2_uc011llv.1_Missense_Mutation_p.A216V	NM_181872	NP_870987	Q9Y5R5	DMRT2_HUMAN	doublesex and mab-3 related transcription factor	216					male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0		all_lung(10;1.49e-09)|Lung NSC(10;1.86e-09)		Lung(218;0.0195)|GBM - Glioblastoma multiforme(50;0.0388)		CCCATTCCAGCGGAGACTTAT	0.448													35	61					0	0	1	0	0		T	1056234	T	T	1056234	3	4	120	1	0	0	0	0	1	0	0	0	4592	768	27	1	714	1	DMRT2	9	1056234	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08		1056234	140157197	36	66655											
KIAA2026	158358	broad.mit.edu	37	chr9	5968714	5968714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatttctccaatttaatcCgaggtactctttgtatttta	10	19	4	8	1	3	0	1	0	2	0	5	1	4	0	2	1	1	2	2	1	6	8			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr9:5968714C>T	uc003zjq.3	-	3	1733	c.1517G>A	c.(1516-1518)CGG>CAG	p.R506Q		NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	506										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		CAATTTAATCCGAGGTACTCT	0.408													4	64					0	0	1	0	0		T	5968714	T	T	5968714	3	4	120	1	0	0	0	0	1	0	0	0	8286	652	23	1	4818	1	KIAA2026	9	5968714	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	4912480	5968714	135244717	37	66656											
DIRAS2	54769	broad.mit.edu	37	chr9	93375892	93375892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctttggagatggacagcCgctgcatggccgggaactgg	7	7	16	11	2	0	1	0	0	0	1	0	4	0	3	3	5	3	2	3	5	1	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr9:93375892C>T	uc004aqx.1	-	2	329	c.218G>A	c.(217-219)CGG>CAG	p.R73Q		NM_017594	NP_060064	Q96HU8	DIRA2_HUMAN	Di-Ras2	73					small GTPase mediated signal transduction	intracellular|plasma membrane	GTP binding|GTPase activity				0						GATGGACAGCCGCTGCATGGC	0.567													39	115					0	0	1	0	0		T	93375892	T	T	93375892	3	4	120	1	0	0	0	0	1	0	0	0	4537	652	23	1	385	1	DIRAS2	9	93375892	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	87407178	93375892	47837539	38	66657											
GLT6D1	360203	broad.mit.edu	37	chr9	138516139	138516139	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgcaagctgctgaggtcGgcctcctctcataagggaag	9	8	14	10	1	1	1	1	1	1	0	4	3	2	3	2	4	3	3	2	4	3	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr9:138516139G>T	uc010nbd.1	-	5	889	c.635C>A	c.(634-636)CCG>CAG	p.P212Q		NM_182974	NP_892019	Q7Z4J2	GL6D1_HUMAN	glycosyltransferase 6 domain containing 1	212	Lumenal (Potential).				carbohydrate metabolic process	integral to membrane	transferase activity, transferring hexosyl groups			ovary(1)	1		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;4.3e-07)|Epithelial(140;1.58e-06)|all cancers(34;5.36e-05)		TGCTGAGGTCGGCCTCCTCTC	0.512													29	79					3.73148e-12	4.0477e-12	1	1	0		T	138516139	T	T	138516139	3	4	120	1	0	0	0	0	1	0	0	0	6483	1116	39	5	199	5	GLT6D1	9	138516139	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	45140247	138516139	2697292	39	66658											
JMJD1C	221037	broad.mit.edu	37	chr10	64958456	64958456	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagaagagaaaccatctaTtctaactactccgtttttac	14	12	6	9	1	2	2	0	0	2	2	3	4	3	2	2	1	4	1	2	1	6	7			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr10:64958456T>C	uc001jmn.2	-	12	5608	c.5308A>G	c.(5308-5310)ATA>GTA	p.I1770V	JMJD1C_uc001jml.2_Missense_Mutation_p.I1551V|JMJD1C_uc001jmm.2_Missense_Mutation_p.I1482V|JMJD1C_uc010qiq.1_Missense_Mutation_p.I1588V|JMJD1C_uc009xpi.2_Missense_Mutation_p.I1588V|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Intron	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1770					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					AAACCATCTATTCTAACTACT	0.303													36	86					0	0	1	0	0		C	64958456	C	C	64958456	3	2	120	1	0	0	0	0	1	0	0	0	7966	1493	52	3	2374	3	JMJD1C	10	64958456	Missense_Mutation	SNP	T	TCGA-CD-8534-01A-11D-2340-08		64958456	70576291	40	66659											
IFIT2	3433	broad.mit.edu	37	chr10	91066746	91066746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccattcttgccagcctccatGctctagcagatcagtatgaa	10	11	7	13	0	3	2	1	1	2	1	4	2	4	2	4	0	4	3	4	0	3	4			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr10:91066746G>A	uc009xts.2	+	2	1208	c.1033G>A	c.(1033-1035)GCT>ACT	p.A345T	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron	NM_001547	NP_001538	P09913	IFIT2_HUMAN	interferon-induced protein with	345	TPR 5.				negative regulation of protein binding|response to virus|type I interferon-mediated signaling pathway		protein binding			ovary(1)|skin(1)	2		Colorectal(252;0.0161)				CAGCCTCCATGCTCTAGCAGA	0.458													24	48					0	0	1	0	0		A	91066746	A	A	91066746	3	1	120	1	0	0	0	0	1	0	0	0	7539	1319	46	2	1039	2	IFIT2	10	91066746	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	26108290	91066746	44468001	41	66660											
AFAP1L2	84632	broad.mit.edu	37	chr10	116061162	116061162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcatacagctcctcctggCggtcctggctaggcaggcca	6	8	12	15	2	1	0	1	0	0	0	4	0	4	0	4	5	2	3	4	5	2	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr10:116061162C>T	uc001lbn.2	-	13	1794	c.1493G>A	c.(1492-1494)CGC>CAC	p.R498H	AFAP1L2_uc001lbo.2_Missense_Mutation_p.R498H|AFAP1L2_uc010qse.1_Missense_Mutation_p.R551H|AFAP1L2_uc001lbp.2_Missense_Mutation_p.R526H|AFAP1L2_uc001lbr.1_Missense_Mutation_p.R498H|AFAP1L2_uc001lbm.2_Missense_Mutation_p.R20H|AFAP1L2_uc010qsd.1_Missense_Mutation_p.R64H|AFAP1L2_uc001lbq.1_Missense_Mutation_p.R20H	NM_001001936	NP_001001936	Q8N4X5	AF1L2_HUMAN	KIAA1914 protein isoform 1	498					inflammatory response|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of transcription, DNA-dependent|regulation of interleukin-6 production|regulation of mitotic cell cycle	cytoplasm	protein tyrosine kinase activator activity|SH2 domain binding|SH3 domain binding			ovary(1)|breast(1)	2		Colorectal(252;0.175)|Breast(234;0.231)		Epithelial(162;0.0219)|all cancers(201;0.0561)		CTCCTCCTGGCGGTCCTGGCT	0.617													4	65					0	0	1	0	0		T	116061162	T	T	116061162	3	4	120	1	0	0	0	0	1	0	0	0	355	768	27	1	991	1	AFAP1L2	10	116061162	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	24994416	116061162	19473585	42	66661											
DMBT1	1755	broad.mit.edu	37	chr10	124361496	124361496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcagccccaggaaatgcccGgtttggccagggttcaggac	8	7	14	12	1	2	0	2	0	0	0	2	2	2	2	4	5	2	2	4	5	1	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr10:124361496G>A	uc001lgk.1	+	29	3633	c.3527G>A	c.(3526-3528)CGG>CAG	p.R1176Q	DMBT1_uc001lgl.1_Missense_Mutation_p.R1166Q|DMBT1_uc001lgm.1_Missense_Mutation_p.R677Q|DMBT1_uc009xzz.1_Missense_Mutation_p.R1176Q|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yab.1_Intron	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1176	SRCR 9.		R -> W.		epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				GGAAATGCCCGGTTTGGCCAG	0.597													2	1					0	0	1	0	0		A	124361496	A	A	124361496	3	1	120	1	0	0	0	0	1	0	0	0	4583	1116	39	1	3641	1	DMBT1	10	124361496	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	8300334	124361496	11173251	43	66662											
SSRP1	6749	broad.mit.edu	37	chr11	57100226	57100226	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggtagatccgaatgtcaTaacgaccacgaggagtcaga	13	7	13	8	3	2	2	2	0	0	2	3	6	3	3	2	3	1	1	2	3	3	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr11:57100226T>C	uc001njt.2	-	6	908	c.641A>G	c.(640-642)TAT>TGT	p.Y214C	SSRP1_uc010rjq.1_Missense_Mutation_p.Y214C	NM_003146	NP_003137	Q08945	SSRP1_HUMAN	structure specific recognition protein 1	214					DNA repair|DNA replication|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|cytoplasm|nucleoplasm	DNA binding|protein binding			ovary(2)	2						CCGAATGTCATAACGACCACG	0.522													7	46					0	0	1	0	0		C	57100226	C	C	57100226	3	2	120	1	0	0	0	0	1	0	0	0	15219	1406	49	3	1536	3	SSRP1	11	57100226	Missense_Mutation	SNP	T	TCGA-CD-8534-01A-11D-2340-08		57100226	77906290	44	66663											
DDB1	1642	broad.mit.edu	37	chr11	61076454	61076454	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accaagtggtccaggcctcaCcgtgctattgatgctggcta	8	10	11	12	1	1	1	1	1	0	0	2	1	2	1	4	3	2	3	4	3	3	3			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr11:61076454C>T	uc001nrc.3	-	21	2887	c.2661_splice	c.e21+1	p.T887_splice	DDB1_uc010rle.1_Splice_Site_p.T198_splice|DDB1_uc010rlf.1_Splice_Site_p.T887_splice	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1						cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						CCAGGCCTCACCGTGCTATTG	0.502								NER					5	83					0	0	1	0	0		T	61076454	T	T	61076454	5	4	120	1	0	0	0	0	0	0	1	0	4326	521	18	4	788	4	DDB1	11	61076454	Splice_Site	SNP	C	TCGA-CD-8534-01A-11D-2340-08	3976228	61076454	73930062	45	66664											
CCDC87	55231	broad.mit.edu	37	chr11	66360392	66360392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggggcgcttctgaggctctGgggacgtcgtcctagtgggg	3	9	20	9	3	2	1	0	1	2	0	4	2	3	2	1	7	0	2	1	7	1	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr11:66360392G>A	uc001oiq.3	-	1	163	c.95C>T	c.(94-96)CCA>CTA	p.P32L	CCS_uc001oir.2_5'Flank	NM_018219	NP_060689	Q9NVE4	CCD87_HUMAN	coiled-coil domain containing 87	32										ovary(1)|skin(1)	2						CTGAGGCTCTGGGGACGTCGT	0.672											OREG0021111	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	13					0	0	1	0	0		A	66360392	A	A	66360392	3	1	120	1	0	0	0	0	1	0	0	0	2865	1348	47	4	2458	4	CCDC87	11	66360392	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	5283938	66360392	68646124	46	66665											
MMP27	64066	broad.mit.edu	37	chr11	102575437	102575437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgaattttgtcatctatgaGactcctattcttgctttgaa	9	17	6	9	1	3	2	1	2	2	1	4	4	4	2	2	0	1	1	2	0	4	7			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr11:102575437G>A	uc001phd.1	-	2	195	c.172C>T	c.(172-174)CTC>TTC	p.L58F		NM_022122	NP_071405	Q9H306	MMP27_HUMAN	matrix metalloproteinase 27 precursor	58					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3	all_cancers(8;0.000843)|all_epithelial(12;0.00362)|Lung NSC(15;0.21)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0509)|Lung(13;0.0696)|LUSC - Lung squamous cell carcinoma(19;0.13)|all cancers(10;0.176)	BRCA - Breast invasive adenocarcinoma(274;0.0151)		TCATCTATGAGACTCCTATTC	0.378													12	44					0	0	1	0	0		A	102575437	A	A	102575437	3	1	120	1	0	0	0	0	1	0	0	0	9682	942	33	4	1405	4	MMP27	11	102575437	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	36215045	102575437	32431079	47	66666											
ATM	472	broad.mit.edu	37	chr11	108205742	108205742	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggtgactatacagtcatTtaaagcagaatttcgcttag	12	14	8	7	1	2	2	1	1	1	1	3	2	2	2	0	1	2	2	0	1	6	6			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr11:108205742T>G	uc001pkb.1	+	55	8442	c.8057T>G	c.(8056-8058)TTT>TGT	p.F2686C	ATM_uc009yxr.1_Missense_Mutation_p.F2686C|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.F1338C	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2686					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		ATACAGTCATTTAAAGCAGAA	0.373			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			41	28					0	0	1	0	0		G	108205742	G	G	108205742	3	3	120	1	0	0	0	0	1	0	0	0	1110	1841	64	5	8271	5	ATM	11	108205742	Missense_Mutation	SNP	T	TCGA-CD-8534-01A-11D-2340-08	5630305	108205742	26800774	48	66667											
KDM5A	5927	broad.mit.edu	37	chr12	427605	427605	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagcacgttcatgaaacTcttccacatcatctagcaga	12	10	6	13	1	4	3	2	2	2	1	5	3	5	3	2	0	3	3	2	0	2	3			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr12:427605T>A	uc001qif.1	-	19	2927	c.2564A>T	c.(2563-2565)GAG>GTG	p.E855V	KDM5A_uc001qie.1_Missense_Mutation_p.E855V|KDM5A_uc010sdn.1_Missense_Mutation_p.E814V	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	855					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						TTCATGAAACTCTTCCACATC	0.368			T 	NUP98	AML								31	70					0	0	1	0	0		A	427605	A	A	427605	3	1	120	1	0	0	0	0	1	0	0	0	8149	1551	54	5	2548	5	KDM5A	12	427605	Missense_Mutation	SNP	T	TCGA-CD-8534-01A-11D-2340-08		427605	133424290	49	66668											
KCNA6	3742	broad.mit.edu	37	chr12	4920527	4920527	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggaaagatcgtgggctcGctgtgtgccatcgctggggt	5	9	19	8	3	0	1	0	0	0	1	3	2	0	2	1	5	1	3	1	5	1	0			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr12:4920527G>A	uc001qng.2	+	1	2186	c.1320G>A	c.(1318-1320)TCG>TCA	p.S440S		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	440	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						TCGTGGGCTCGCTGTGTGCCA	0.602										HNSCC(72;0.22)			26	62					0	0	1	0	0		A	4920527	A	A	4920527	2	1	120	1	0	0	0	0	0	0	0	1	8023	1074	38	1		1	KCNA6	12	4920527	Silent	SNP	G	TCGA-CD-8534-01A-11D-2340-08	4492922	4920527	128931368	50	66669											
LEPREL2	10536	broad.mit.edu	37	chr12	6948180	6948180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggctcgggtgcgtcctcGctgtgggcgccttgtggcct	1	10	16	14	4	0	0	0	0	0	0	3	0	1	0	4	4	1	2	4	4	0	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr12:6948180G>A	uc001qra.1	+	16	1956	c.1922G>A	c.(1921-1923)CGC>CAC	p.R641H	LEPREL2_uc001qqz.1_Missense_Mutation_p.R448H|LEPREL2_uc001qrb.1_Missense_Mutation_p.R448H|GNB3_uc001qrc.2_5'Flank|GNB3_uc001qrd.2_5'Flank|GNB3_uc009zfe.2_5'Flank	NM_014262	NP_055077	Q8IVL6	P3H3_HUMAN	leprecan-like 2 precursor	641	Fe2OG dioxygenase.				negative regulation of cell proliferation	endoplasmic reticulum	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity				0					L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GTGCGTCCTCGCTGTGGGCGC	0.657													11	30					0	0	1	0	0		A	6948180	A	A	6948180	3	1	120	1	0	0	0	0	1	0	0	0	8747	1087	38	1	1975	1	LEPREL2	12	6948180	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	2027653	6948180	126903715	51	66670											
ENDOU	8909	broad.mit.edu	37	chr12	48105513	48105513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacttccttatagtagcCgtcccagttgaactgcattg	8	12	8	13	1	0	1	0	1	0	0	2	1	2	1	4	0	3	3	4	0	4	6			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr12:48105513C>T	uc001rpu.1	-	9	1172	c.1018G>A	c.(1018-1020)GGC>AGC	p.G340S	ENDOU_uc010sll.1_Intron|ENDOU_uc001rpt.1_Missense_Mutation_p.G299S|ENDOU_uc010slm.1_Missense_Mutation_p.G277S	NM_006025	NP_006016	P21128	ENDOU_HUMAN	placental protein 11 precursor	340					female pregnancy|immune response|proteolysis	cytoplasm|extracellular space|plasma membrane	endoribonuclease activity|growth factor activity|manganese ion binding|polysaccharide binding|RNA binding|scavenger receptor activity|serine-type peptidase activity			ovary(2)|pancreas(1)	3						TTATAGTAGCCGTCCCAGTTG	0.547													14	36					0	0	1	0	0		T	48105513	T	T	48105513	3	4	120	1	0	0	0	0	1	0	0	0	5124	652	23	1	222	1	ENDOU	12	48105513	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	41157333	48105513	85746382	52	66671											
OR6C1	390321	broad.mit.edu	37	chr12	55715045	55715045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcctacatatacattatcaGaacaattttgagaattcctt	14	15	4	8	0	1	2	1	1	0	2	3	3	3	2	2	0	3	0	2	0	7	8			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr12:55715045G>A	uc010spi.1	+	1	662	c.662G>A	c.(661-663)AGA>AAA	p.R221K		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	221	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						TACATTATCAGAACAATTTTG	0.383													15	65					0	0	1	0	0		A	55715045	A	A	55715045	3	1	120	1	0	0	0	0	1	0	0	0	11209	942	33	4	664	4	OR6C1	12	55715045	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	7609532	55715045	78136850	53	66672											
LRP1	4035	broad.mit.edu	37	chr12	57591339	57591339	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaatccagggcctgaacaaCgccgttgccttggattttga	10	10	10	11	2	0	2	0	2	0	0	1	3	1	3	4	2	3	1	4	2	3	4	rs138786816		TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr12:57591339C>T	uc001snd.2	+	58	9640	c.9174C>T	c.(9172-9174)AAC>AAT	p.N3058N		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3058	Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GCCTGAACAACGCCGTTGCCT	0.557													4	94					0	0	1	0	0		T	57591339	T	T	57591339	2	4	120	1	0	0	0	0	0	0	0	1	8969	535	19	1		1	LRP1	12	57591339	Silent	SNP	C	TCGA-CD-8534-01A-11D-2340-08	1876294	57591339	76260556	54	66673											
SLC5A8	160728	broad.mit.edu	37	chr12	101603479	101603479	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcactgcggtcattctgcGgccgcccatcaggaagtcct	6	8	13	14	3	3	0	2	0	1	0	4	1	4	1	3	4	2	1	3	4	1	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr12:101603479G>A	uc001thz.3	-	1	538	c.148C>T	c.(148-150)CGC>TGC	p.R50C		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	50	Cytoplasmic (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						GTCATTCTGCGGCCGCCCATC	0.662													6	31					0	0	1	0	0		A	101603479	A	A	101603479	3	1	120	1	0	0	0	0	1	0	0	0	14696	1116	39	1	1744	1	SLC5A8	12	101603479	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	44012140	101603479	32248416	55	66674											
NAA25	80018	broad.mit.edu	37	chr12	112528652	112528652	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctttccagttctctgtaaaCcaattgcctttaaaacctga	11	14	5	11	0	1	1	0	1	1	0	3	1	2	1	4	0	3	3	4	0	5	6			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr12:112528652C>A	uc001ttm.2	-	3	181	c.161G>T	c.(160-162)GGT>GTT	p.G54V	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Missense_Mutation_p.G26V|NAA25_uc009zwa.1_Missense_Mutation_p.G54V	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	54	TPR 2.					cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						TCTCTGTAAACCAATTGCCTT	0.408													23	78					3.01185e-09	3.21264e-09	1	1	0		A	112528652	A	A	112528652	3	1	120	1	0	0	0	0	1	0	0	0	10139	507	18	5	2845	5	NAA25	12	112528652	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	10925173	112528652	21323243	56	66675											
P2RX4	5025	broad.mit.edu	37	chr12	121659754	121659754	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcatgaccaacgtgatcctCaccatgaaccagacacaggg	13	6	9	13	1	2	4	2	3	0	1	3	4	3	4	4	1	2	0	4	1	2	0			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr12:121659754C>T	uc001tzr.2	+	3	625	c.321C>T	c.(319-321)CTC>CTT	p.L107L	P2RX4_uc010szr.1_RNA|P2RX4_uc010szs.1_Intron|P2RX4_uc009zxc.2_Silent_p.L107L|P2RX4_uc001tzs.2_Silent_p.L123L|P2RX4_uc009zxb.2_RNA|P2RX4_uc010szt.1_Silent_p.L6L	NM_002560	NP_002551	Q99571	P2RX4_HUMAN	purinergic receptor P2X4	107	Extracellular (Potential).				endothelial cell activation|negative regulation of cardiac muscle hypertrophy|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|regulation of apoptosis|regulation of blood pressure|regulation of sodium ion transport|relaxation of cardiac muscle|response to ATP|response to fluid shear stress|sensory perception of pain|tissue homeostasis	cell junction|perinuclear region of cytoplasm	cadherin binding|copper ion binding|extracellular ATP-gated cation channel activity|protein homodimerization activity|purinergic nucleotide receptor activity|receptor binding|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ACGTGATCCTCACCATGAACC	0.637													9	198					0	0	1	0	0		T	121659754	T	T	121659754	2	4	120	1	0	0	0	0	0	0	0	1	11361	813	29	4		4	P2RX4	12	121659754	Silent	SNP	C	TCGA-CD-8534-01A-11D-2340-08	9131102	121659754	12192141	57	66676											
RBM26	64062	broad.mit.edu	37	chr13	79911413	79911413	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcctctgccccgaccagAtgaaagaatccctcgtttgg	10	10	8	13	2	1	3	0	1	1	2	4	4	3	3	5	1	1	1	5	1	3	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr13:79911413A>G	uc001vkz.2	-	19	2577	c.2563T>C	c.(2563-2565)TCT>CCT	p.S855P	RBM26_uc001vky.2_Missense_Mutation_p.S826P|RBM26_uc001vla.2_Missense_Mutation_p.S829P|RBM26_uc010tia.1_Missense_Mutation_p.S210P|RBM26_uc001vkx.2_Missense_Mutation_p.S565P	NM_022118	NP_071401	Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26	853					mRNA processing		nucleotide binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)		GBM - Glioblastoma multiforme(99;0.0188)		CCCCGACCAGATGAAAGAATC	0.532													4	87					0	0	1	0	0		G	79911413	G	G	79911413	3	3	120	1	0	0	0	0	1	0	0	0	13151	333	12	3	482	3	RBM26	13	79911413	Missense_Mutation	SNP	A	TCGA-CD-8534-01A-11D-2340-08		79911413	35258465	58	66677											
SDR39U1	56948	broad.mit.edu	37	chr14	24912008	24912008	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaacgcgcctgcgtaaagtTtagagtttacctcacctcag	10	11	8	12	3	2	1	2	0	0	1	2	1	2	1	3	0	3	3	3	0	5	6	rs17184766	by1000genomes	TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr14:24912008T>C	uc001wpm.2	-	1	1	c.-31_splice	c.e1-1		SDR39U1_uc001wpi.2_5'Flank|SDR39U1_uc001wpj.2_5'Flank|SDR39U1_uc001wpk.2_5'Flank|SDR39U1_uc001wpl.2_5'Flank|SDR39U1_uc001wpn.2_Intron|uc001wpo.1_5'Flank	NM_020195	NP_064580	Q9NRG7	D39U1_HUMAN	short chain dehydrogenase/reductase family 39U,								binding			pancreas(1)	1						TGCGTAAAGTTTAGAGTTTAC	0.582													5	100					0	0	1	0	0		C	24912008	C	C	24912008	5	2	120	1	0	0	0	0	0	0	1	0	13997	1856	64	3		3	SDR39U1	14	24912008	Splice_Site	SNP	T	TCGA-CD-8534-01A-11D-2340-08		24912008	82437532	59	66678											
KLHDC1	122773	broad.mit.edu	37	chr14	50206898	50206898	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgacttacttgccttggatAcagtaagaaaatcttatatc	14	14	6	7	0	1	2	0	1	1	1	2	3	1	3	1	1	3	1	1	1	7	7			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr14:50206898A>G	uc001www.2	+	11	1007	c.979A>G	c.(979-981)ACA>GCA	p.T327A	SDCCAG1_uc010anj.1_Intron|KLHDC1_uc010tqg.1_Missense_Mutation_p.T282A|KLHDC1_uc010tqh.1_Missense_Mutation_p.T242A	NM_172193	NP_751943	Q8N7A1	KLDC1_HUMAN	kelch domain containing 1	327	Kelch 6.					cytoplasm				pancreas(1)	1	all_epithelial(31;0.00244)|Breast(41;0.00964)					TGCCTTGGATACAGTAAGAAA	0.323													11	27					0	0	1	0	0		G	50206898	G	G	50206898	3	3	120	1	0	0	0	0	1	0	0	0	8370	391	14	3	1021	3	KLHDC1	14	50206898	Missense_Mutation	SNP	A	TCGA-CD-8534-01A-11D-2340-08	25294890	50206898	57142642	60	66679											
SCAMP2	10066	broad.mit.edu	37	chr15	75137840	75137840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaggaagactgagagcaCggcacagagggtgaagaagc	15	2	17	7	1	0	5	0	2	0	4	0	8	0	7	0	4	2	2	0	4	3	0			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr15:75137840C>T	uc002azb.1	-	8	903	c.829G>A	c.(829-831)GTG>ATG	p.V277M	ULK3_uc010ulp.1_5'Flank|ULK3_uc010ulq.1_5'Flank|ULK3_uc010ulr.1_5'Flank|ULK3_uc010bkf.1_5'Flank|ULK3_uc002ayv.2_5'Flank|ULK3_uc010uls.1_5'Flank|ULK3_uc010ult.1_5'Flank|ULK3_uc010ulu.1_5'Flank|SCAMP2_uc002aza.1_Missense_Mutation_p.V127M|SCAMP2_uc010bkg.1_RNA	NM_005697	NP_005688	O15127	SCAM2_HUMAN	secretory carrier membrane protein 2	277	Helical; (Potential).				post-Golgi vesicle-mediated transport|protein transport	integral to membrane|nucleus|recycling endosome membrane|trans-Golgi network membrane	protein binding			ovary(1)	1						ACTGAGAGCACGGCACAGAGG	0.562													32	79					0	0	1	0	0		T	75137840	T	T	75137840	3	4	120	1	0	0	0	0	1	0	0	0	13896	536	19	1	168	1	SCAMP2	15	75137840	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08		75137840	27393552	61	66680											
LINGO1	84894	broad.mit.edu	37	chr15	77906417	77906417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgttgaacttgcggggcGcgtcggcggagctgatgcct	5	10	16	10	5	1	2	1	2	0	0	2	3	1	3	1	4	4	2	1	4	1	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr15:77906417G>A	uc002bct.1	-	2	1884	c.1832C>T	c.(1831-1833)GCG>GTG	p.A611V	LINGO1_uc002bcu.1_Missense_Mutation_p.A605V	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	611	Cytoplasmic (Potential).				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						CTTGCGGGGCGCGTCGGCGGA	0.483													10	23					0	0	1	0	0		A	77906417	A	A	77906417	3	1	120	1	0	0	0	0	1	0	0	0	8831	1087	38	1	34	1	LINGO1	15	77906417	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	2768577	77906417	24624975	62	66681											
ZNF710	374655	broad.mit.edu	37	chr15	90610422	90610422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggacgccgtggtggtgctgtCcttggctcaggccgccgtgc	2	9	17	13	4	1	0	1	0	0	0	2	1	2	1	4	5	2	2	4	5	0	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr15:90610422C>T	uc002bov.1	+	2	176	c.53C>T	c.(52-54)TCC>TTC	p.S18F		NM_198526	NP_940928	Q8N1W2	ZN710_HUMAN	zinc finger protein 710	18					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	Melanoma(11;0.00551)|Lung NSC(78;0.0196)|all_lung(78;0.04)		BRCA - Breast invasive adenocarcinoma(143;0.00769)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.129)			GTGGTGCTGTCCTTGGCTCAG	0.632													9	31					0	0	1	0	0		T	90610422	T	T	90610422	3	4	120	1	0	0	0	0	1	0	0	0	18140	855	30	4	55	4	ZNF710	15	90610422	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	12704005	90610422	11920970	63	66682											
ST8SIA2	8128	broad.mit.edu	37	chr15	92977597	92977597	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cataaccagacgctctctctGaggatcaggtactggtaatt	11	11	9	10	1	3	2	1	1	2	1	4	3	3	3	1	3	2	3	1	3	3	4			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr15:92977597G>A	uc002bra.2	+	3	437	c.282G>A	c.(280-282)CTG>CTA	p.L94L	ST8SIA2_uc002brb.2_Silent_p.L73L	NM_006011	NP_006002	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide	94	Lumenal (Potential).				axon guidance|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity				0	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			CGCTCTCTCTGAGGATCAGGT	0.468													19	88					0	0	1	0	0		A	92977597	A	A	92977597	2	1	120	1	0	0	0	0	0	0	0	1	15257	1277	45	4		4	ST8SIA2	15	92977597	Silent	SNP	G	TCGA-CD-8534-01A-11D-2340-08	2367175	92977597	9553795	64	66683											
CACNA1H	8912	broad.mit.edu	37	chr16	1260449	1260449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcatcttcctcaactgcGtcaccatcgccctggagagg	7	11	8	15	2	5	1	3	0	2	1	7	2	6	1	3	2	2	0	3	2	1	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr16:1260449G>A	uc002cks.2	+	19	4173	c.3925G>A	c.(3925-3927)GTC>ATC	p.V1309I	CACNA1H_uc002ckt.2_Missense_Mutation_p.V1309I|CACNA1H_uc002cku.2_Missense_Mutation_p.V15I|CACNA1H_uc010brj.2_Missense_Mutation_p.V15I|CACNA1H_uc002ckv.2_Missense_Mutation_p.V15I	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1309	III.|Helical; Name=S1 of repeat III; (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	CCTCAACTGCGTCACCATCGC	0.637													7	12					0	0	1	0	0		A	1260449	A	A	1260449	3	1	120	1	0	0	0	0	1	0	0	0	2548	1145	40	1	3995	1	CACNA1H	16	1260449	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08		1260449	89094304	65	66684											
KIAA0430	9665	broad.mit.edu	37	chr16	15718973	15718973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggtacgaccagcctcaggtGaccttgctggtgctcactgt	6	10	13	12	1	2	1	2	1	0	0	2	2	2	1	3	3	4	3	3	3	1	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr16:15718973G>A	uc002ddr.2	-	9	2204	c.2011C>T	c.(2011-2013)CAC>TAC	p.H671Y	KIAA0430_uc002ddq.2_Missense_Mutation_p.H527Y|KIAA0430_uc010uzv.1_Missense_Mutation_p.H667Y|KIAA0430_uc010uzw.1_Missense_Mutation_p.H669Y	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	670						peroxisome	nucleotide binding|RNA binding				0						AGCCTCAGGTGACCTTGCTGG	0.507													25	68					0	0	1	0	0		A	15718973	A	A	15718973	3	1	120	1	0	0	0	0	1	0	0	0	8193	1290	45	4	3296	4	KIAA0430	16	15718973	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	14458524	15718973	74635780	66	66685											
CDH5	1003	broad.mit.edu	37	chr16	66422264	66422264	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacagcagtggatgcagaCgaccccactgtgggagacca	11	5	14	11	1	0	3	0	1	0	2	0	6	0	4	3	2	2	2	3	2	0	0	rs112611173		TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr16:66422264C>T	uc002eom.3	+	4	693	c.537C>T	c.(535-537)GAC>GAT	p.D179D	CDH5_uc002eon.1_Silent_p.D179D	NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	179	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		TGGATGCAGACGACCCCACTG	0.527													5	86					0	0	1	0	0		T	66422264	T	T	66422264	2	4	120	1	0	0	0	0	0	0	0	1	3116	535	19	1		1	CDH5	16	66422264	Silent	SNP	C	TCGA-CD-8534-01A-11D-2340-08	50703291	66422264	23932489	67	66686											
MAP2K4	6416	broad.mit.edu	37	chr17	12043162	12043162	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttatgttattttagccttacGaaggatgaatccaaaaggcc	13	13	8	7	1	0	1	0	1	0	0	1	3	1	2	3	2	2	1	3	2	8	5	rs55794822	by1000genomes	TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr17:12043162G>A	uc002gnj.2	+	10	1116	c.1047G>A	c.(1045-1047)ACG>ACA	p.T349T	MAP2K4_uc002gnk.2_Silent_p.T360T|MAP2K4_uc010vvi.1_Silent_p.T231T|MAP2K4_uc010vvj.1_Silent_p.T221T	NM_003010	NP_003001	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4	349	Protein kinase.				cellular response to mechanical stimulus|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|JUN kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.?(2)		large_intestine(14)|breast(12)|lung(8)|ovary(8)|pancreas(8)|stomach(2)|central_nervous_system(1)|biliary_tract(1)|testis(1)|endometrium(1)|urinary_tract(1)|skin(1)	58		all_cancers(5;0.0413)|Breast(5;0.000625)|all_epithelial(5;0.00978)|all_lung(20;0.0449)|Lung NSC(33;0.163)		Epithelial(2;4.12e-09)|all cancers(2;6.86e-07)|BRCA - Breast invasive adenocarcinoma(2;8.74e-07)|Colorectal(4;5.32e-05)|COAD - Colon adenocarcinoma(4;0.0039)|READ - Rectum adenocarcinoma(10;0.0681)		TTAGCCTTACGAAGGATGAAT	0.338			D|Mis|N		pancreatic|breast|colorectal								5	161					0	0	1	0	0		A	12043162	A	A	12043162	2	1	120	1	0	0	0	0	0	0	0	1	9257	1045	37	1		1	MAP2K4	17	12043162	Silent	SNP	G	TCGA-CD-8534-01A-11D-2340-08		12043162	69152048	68	66687											
TMEM132E	124842	broad.mit.edu	37	chr17	32961845	32961845	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaaagcgaggatgaggaTgaggaggaggaggagcggcg	12	2	23	4	4	0	2	0	2	0	0	0	10	0	9	0	8	2	0	0	8	1	0			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr17:32961845T>G	uc002hif.2	+	8	1774	c.1446T>G	c.(1444-1446)GAT>GAG	p.D482E		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	482	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		AGGATGAGGATGAGGAGGAGG	0.617													7	30					0	0	1	0	0		G	32961845	G	G	32961845	3	3	120	1	0	0	0	0	1	0	0	0	16073	1461	51	5	1476	5	TMEM132E	17	32961845	Missense_Mutation	SNP	T	TCGA-CD-8534-01A-11D-2340-08	20918683	32961845	48233365	69	66688											
UBTF	7343	broad.mit.edu	37	chr17	42287592	42287592	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggctttcaaggccttcAcccggtcattctggggacca	7	10	10	14	1	4	0	3	0	1	0	4	1	4	1	4	5	0	1	4	5	1	3			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr17:42287592A>G	uc002igb.2	-	14	1593	c.1526T>C	c.(1525-1527)GTG>GCG	p.V509A	UBTF_uc002igc.2_Missense_Mutation_p.V472A|UBTF_uc010czs.2_Missense_Mutation_p.V509A|UBTF_uc002igd.2_Missense_Mutation_p.V472A|UBTF_uc010czt.2_Missense_Mutation_p.V509A|UBTF_uc002ige.2_Missense_Mutation_p.V472A	NM_014233	NP_055048	P17480	UBF1_HUMAN	upstream binding transcription factor, RNA	509	HMG box 5.				positive regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm	DNA binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		CAAGGCCTTCACCCGGTCATT	0.522											OREG0024456	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	59	113					0	0	1	0	0		G	42287592	G	G	42287592	3	3	120	1	0	0	0	0	1	0	0	0	16935	159	6	3	796	3	UBTF	17	42287592	Missense_Mutation	SNP	A	TCGA-CD-8534-01A-11D-2340-08	9325747	42287592	38907618	70	66689											
OR7A10	390892	broad.mit.edu	37	chr19	14952341	14952341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccggtcataggccatcaCggtcagaaggaagttatcca	14	7	10	10	2	3	1	3	0	0	1	4	2	4	2	3	4	1	1	3	4	5	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr19:14952341C>T	uc002mzx.1	-	1	349	c.349G>A	c.(349-351)GTG>ATG	p.V117M		NM_001005190	NP_001005190	O76100	OR7AA_HUMAN	olfactory receptor, family 7, subfamily A,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					TAGGCCATCACGGTCAGAAGG	0.483													25	67					0	0	1	0	0		T	14952341	T	T	14952341	3	4	120	1	0	0	0	0	1	0	0	0	11233	536	19	1	584	1	OR7A10	19	14952341	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08		14952341	44176642	71	66690											
ZFP82	284406	broad.mit.edu	37	chr19	36884862	36884862	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggtctctcctgtccttcaAtttttcctgtggattcccaa	6	16	7	12	0	2	0	1	0	1	0	7	2	6	1	4	2	0	0	4	2	2	4			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr19:36884862A>G	uc002ody.1	-	5	615	c.380T>C	c.(379-381)ATT>ACT	p.I127T		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	127					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						CTGTCCTTCAATTTTTCCTGT	0.378													5	91					0	0	1	0	0		G	36884862	G	G	36884862	3	3	120	1	0	0	0	0	1	0	0	0	17678	101	4	3	1222	3	ZFP82	19	36884862	Missense_Mutation	SNP	A	TCGA-CD-8534-01A-11D-2340-08	21932521	36884862	22244121	72	66691											
CATSPERG	57828	broad.mit.edu	37	chr19	38861176	38861176	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctgcaggtgtcagctaGcgtgtttgtgggcctggtga	4	12	15	10	1	1	1	1	1	0	0	2	1	2	1	2	3	3	3	2	3	1	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr19:38861176G>C	uc002oih.3	+	29	3311	c.3224G>C	c.(3223-3225)AGC>ACC	p.S1075T	CATSPERG_uc002oig.3_Missense_Mutation_p.S1035T|CATSPERG_uc002oif.3_Missense_Mutation_p.S715T|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	1075	Helical; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						GTGTCAGCTAGCGTGTTTGTG	0.522													34	64					0	0	1	0	0		C	38861176	C	C	38861176	3	2	120	1	0	0	0	0	1	0	0	0	2695	971	34	5	3334	5	CATSPERG	19	38861176	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	1976314	38861176	20267807	73	66692											
SPTBN4	57731	broad.mit.edu	37	chr19	41063215	41063215	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcggaggcggctgccccGcctgaccaccccgcctgagc	6	3	14	18	4	0	2	0	2	0	0	0	4	0	3	7	3	3	1	7	3	1	0			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr19:41063215G>A	uc002ony.2	+	26	5662	c.5576G>A	c.(5575-5577)CGC>CAC	p.R1859H	SPTBN4_uc002onx.2_Missense_Mutation_p.R1859H|SPTBN4_uc002onz.2_Missense_Mutation_p.R1859H|SPTBN4_uc010egx.2_Missense_Mutation_p.R602H|SPTBN4_uc002ooa.2_Missense_Mutation_p.R535H	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1859	Spectrin 16.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CGGCTGCCCCGCCTGACCACC	0.657													4	74					0	0	1	0	0		A	41063215	A	A	41063215	3	1	120	1	0	0	0	0	1	0	0	0	15146	1087	38	1	5674	1	SPTBN4	19	41063215	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	2202039	41063215	18065768	74	66693											
LIG1	3978	broad.mit.edu	37	chr19	48647219	48647219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtaaccagatggatccagggGtctacggaggcaaaacggag	13	5	15	8	2	1	1	0	0	1	1	2	4	2	4	2	6	3	2	2	6	4	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr19:48647219G>A	uc002pia.1	-	10	898	c.778C>T	c.(778-780)CCC>TCC	p.P260S	LIG1_uc010xze.1_5'UTR|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.P192S|LIG1_uc010xzg.1_Missense_Mutation_p.P229S|LIG1_uc010xzh.1_RNA	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	260					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	GGATCCAGGGGTCTACGGAGG	0.433								NER					4	98					0	0	1	0	0		A	48647219	A	A	48647219	3	1	120	1	0	0	0	0	1	0	0	0	8797	1275	44	4	2057	4	LIG1	19	48647219	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	7584004	48647219	10481764	75	66694											
CEACAM18	729767	broad.mit.edu	37	chr19	51983739	51983739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actggggtgcaaacgacagcGcaggaaacatgattatcagc	14	6	12	9	2	1	1	1	1	0	0	1	3	1	2	0	3	5	2	0	3	3	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr19:51983739G>A	uc002pwv.1	+	3	388	c.388G>A	c.(388-390)GCA>ACA	p.A130T		NM_001080405	NP_001073874	A8MTB9	CEA18_HUMAN	carcinoembryonic antigen-related cell adhesion	130						integral to membrane				skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		AAACGACAGCGCAGGAAACAT	0.562													11	35					0	0	1	0	0		A	51983739	A	A	51983739	3	1	120	1	0	0	0	0	1	0	0	0	3192	1087	38	1	398	1	CEACAM18	19	51983739	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08	3336520	51983739	7145244	76	66695											
IL11	3589	broad.mit.edu	37	chr19	55877404	55877404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcttcagcagcagcagtcCcctcacggcccagtcaagtg	9	7	10	15	1	4	0	3	0	1	0	5	0	5	0	3	1	3	3	3	1	1	1			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr19:55877404C>T	uc002qks.1	-	5	707	c.571G>A	c.(571-573)GGA>AGA	p.G191R	FAM71E2_uc002qkr.2_5'Flank|FAM71E2_uc002qkq.2_5'Flank|IL11_uc010yfx.1_Missense_Mutation_p.G112R	NM_000641	NP_000632	P20809	IL11_HUMAN	interleukin 11 precursor	191					B cell differentiation|fat cell differentiation|megakaryocyte differentiation|negative regulation of hormone secretion|platelet activation|positive regulation of cell proliferation|positive regulation of MAPKKK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	extracellular space	cytokine activity|growth factor activity|interleukin-11 receptor binding				0	Breast(117;0.191)	Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)	Oprelvekin(DB00038)	AGCAGCAGTCCCCTCACGGCC	0.542													4	8					0	0	1	0	0		T	55877404	T	T	55877404	3	4	120	1	0	0	0	0	1	0	0	0	7638	632	22	4	32	4	IL11	19	55877404	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	3893665	55877404	3251579	77	66696											
TMEM190	147744	broad.mit.edu	37	chr19	55889178	55889178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccttgtccagaaaacgtgCggaggaagcacatgtgggcg	10	7	14	10	3	0	1	0	0	0	1	2	3	2	3	2	3	3	1	2	3	3	1	rs146395464		TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr19:55889178C>T	uc002qkt.1	+	4	247	c.229C>T	c.(229-231)CGG>TGG	p.R77W		NM_139172	NP_631911	Q8WZ59	TM190_HUMAN	transmembrane protein 190 precursor	77	Extracellular (Potential).					integral to membrane					0	Breast(117;0.191)		BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		AGAAAACGTGCGGAGGAAGCA	0.677													5	60					0	0	1	0	0		T	55889178	T	T	55889178	3	4	120	1	0	0	0	0	1	0	0	0	16139	759	27	1	243	1	TMEM190	19	55889178	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08	11774	55889178	3239805	78	66697											
ZSCAN18	65982	broad.mit.edu	37	chr19	58601554	58601554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttcttcctgctggactccGgctgctgaccccggcgtggg	2	10	15	14	3	1	1	0	1	1	0	3	2	3	2	4	5	2	4	4	5	0	2	rs149865437	byFrequency	TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr19:58601554G>A	uc002qri.2	-	2	390	c.81C>T	c.(79-81)GCC>GCT	p.A27A	ZSCAN18_uc002qrj.3_Silent_p.A27A|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Silent_p.A27A|ZSCAN18_uc010yht.1_Silent_p.A83A|ZSCAN18_uc002qrk.1_Silent_p.A27A|ZSCAN18_uc002qrl.2_Silent_p.A27A	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	27					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		GCTGGACTCCGGCTGCTGACC	0.632													39	46					0	0	1	0	0		A	58601554	A	A	58601554	2	1	120	1	0	0	0	0	0	0	0	1	18255	1103	39	1		1	ZSCAN18	19	58601554	Silent	SNP	G	TCGA-CD-8534-01A-11D-2340-08	2712376	58601554	527429	79	66698											
TOX2	84969	broad.mit.edu	37	chr20	42695404	42695404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctgagttccccagcagctCgggatcctgctcacctggcc	5	9	10	17	1	2	1	1	1	1	0	5	2	4	2	5	2	3	4	5	2	0	1	rs149010935		TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr20:42695404C>T	uc002xlf.3	+	7	1354	c.1337C>T	c.(1336-1338)TCG>TTG	p.S446L	TOX2_uc010ggo.2_Missense_Mutation_p.S464L|TOX2_uc002xle.3_Missense_Mutation_p.S422L|TOX2_uc010ggp.2_Missense_Mutation_p.S422L|TOX2_uc002xlg.2_Missense_Mutation_p.S263L|TOX2_uc010zwk.1_Missense_Mutation_p.S342L	NM_001098798	NP_001092268	Q96NM4	TOX2_HUMAN	TOX high mobility group box family member 2	446	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)			CCCAGCAGCTCGGGATCCTGC	0.632													6	142					0	0	1	0	0		T	42695404	T	T	42695404	3	4	120	1	0	0	0	0	1	0	0	0	16404	893	31	1	1551	1	TOX2	20	42695404	Missense_Mutation	SNP	C	TCGA-CD-8534-01A-11D-2340-08		42695404	20330116	80	66699											
DIDO1	11083	broad.mit.edu	37	chr20	61512983	61512983	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcctgttgggcaggtcaTcaacagtcactttcgcttct	8	13	8	12	1	4	0	3	0	1	0	6	0	5	0	1	2	1	3	1	2	1	3			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chr20:61512983T>A	uc002ydr.1	-	16	4589	c.4325A>T	c.(4324-4326)GAT>GTT	p.D1442V	DIDO1_uc002yds.1_Missense_Mutation_p.D1442V	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1442					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GGGCAGGTCATCAACAGTCAC	0.622													5	161					0	0	1	0	0		A	61512983	A	A	61512983	3	1	120	1	0	0	0	0	1	0	0	0	4528	1435	50	5	2401	5	DIDO1	20	61512983	Missense_Mutation	SNP	T	TCGA-CD-8534-01A-11D-2340-08	18817579	61512983	1512537	81	66700											
KDM6A	7403	broad.mit.edu	37	chrX	44942724	44942724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtggaagttgcagctacatGagctgactaaacttcctgct	10	11	11	9	0	0	2	0	2	0	0	1	3	1	3	1	2	6	5	1	2	4	4			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chrX:44942724G>A	uc004dge.3	+	23	3679	c.3304G>A	c.(3304-3306)GAG>AAG	p.E1102K	KDM6A_uc011mkz.1_Missense_Mutation_p.E1154K|KDM6A_uc011mla.1_Missense_Mutation_p.E1057K|KDM6A_uc011mlb.1_Missense_Mutation_p.E1109K|KDM6A_uc011mlc.1_Missense_Mutation_p.E806K|KDM6A_uc011mld.1_Missense_Mutation_p.E741K	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	1102	JmjC.				histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						GCAGCTACATGAGCTGACTAA	0.398			D|N|F|S		renal|oesophageal SCC|MM								4	22					0	0	1	0	0		A	44942724	A	A	44942724	3	1	120	1	0	0	0	0	1	0	0	0	8153	1291	45	4	3394	4	KDM6A	23	44942724	Missense_Mutation	SNP	G	TCGA-CD-8534-01A-11D-2340-08		44942724	110327836	82	66701											
DNASE1L1	1774	broad.mit.edu	37	chrX	153631879	153631879	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctaccattgctgggcaaagaGaactgggccacaaatggctc	12	7	11	11	0	0	1	0	0	0	1	1	2	0	1	2	3	3	3	2	3	4	2			TCGA-CD-8534-01A-11D-2340-08	TCGA-CD-8534-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	0530d3ac-b94b-406c-8edf-9e0539358a3d	cb35c60a-d9cc-4eaa-ad47-fef2ef766697	g.chrX:153631879G>A	uc004fks.1	-	5	587	c.396C>T	c.(394-396)TTC>TTT	p.F132F	RPL10_uc004fkq.1_RNA|RPL10_uc004fkr.1_3'UTR|DNASE1L1_uc004fkt.1_Silent_p.F132F|DNASE1L1_uc004fku.1_Silent_p.F132F|DNASE1L1_uc004fkv.1_Silent_p.F132F|DNASE1L1_uc004fkw.1_Silent_p.F132F	NM_006730	NP_006721	P49184	DNSL1_HUMAN	deoxyribonuclease I-like 1 precursor	132					DNA catabolic process	endoplasmic reticulum	DNA binding|endodeoxyribonuclease activity, producing 5'-phosphomonoesters				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGGGCAAAGAGAACTGGGCCA	0.577													16	12					0	0	1	0	0		A	153631879	A	A	153631879	2	1	120	1	0	0	0	0	0	0	0	1	4667	933	33	4		4	DNASE1L1	23	153631879	Silent	SNP	G	TCGA-CD-8534-01A-11D-2340-08	108689155	153631879	1638681	83	66702											
H6PD	9563	broad.mit.edu	37	chr1	9322285	9322285	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgctgcggggcctgcagAggggcagtgccgtcgtgggc	4	5	21	11	4	0	1	0	0	0	1	1	1	0	1	2	6	3	3	2	6	0	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:9322285A>C	uc001apt.2	+	4	1186	c.913A>C	c.(913-915)AGG>CGG	p.R305R		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	305	Glucose 1-dehydrogenase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	GGGCCTGCAGAGGGGCAGTGC	0.652													8	3					0	0	0.004482	0	0		C	9322285	C	C	9322285	2	2	121	1	0	0	0	0	0	0	0	1	6952	295	11	5		5	H6PD	1	9322285	Silent	SNP	A	TCGA-CD-8535-01A-11D-2340-08		9322285	239928336	1	66703											
PRAMEF4	400735	broad.mit.edu	37	chr1	12939698	12939698	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggcaagatggcgttgacTtgggagtctatgatgccaca	10	9	14	8	1	1	3	0	2	1	1	1	4	1	4	1	3	1	3	1	3	2	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:12939698T>G	uc001aun.2	-	4	1175	c.1104A>C	c.(1102-1104)CAA>CAC	p.Q368H		NM_001009611	NP_001009611	O60810	PRAM4_HUMAN	PRAME family member 4	368	LRR 5.									ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TGGCGTTGACTTGGGAGTCTA	0.507													119	163					0	0	0.01441	0	0		G	12939698	G	G	12939698	3	3	121	1	0	0	0	0	1	0	0	0	12459	1606	56	5	336	5	PRAMEF4	1	12939698	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	3617413	12939698	236310923	2	66704											
UBR4	23352	broad.mit.edu	37	chr1	19489100	19489100	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catgtgcactccaagatcatCacatgctgtaagagaagccc	13	8	8	12	0	2	2	2	0	0	2	3	3	3	2	2	0	3	3	2	0	3	1	rs145868131	by1000genomes	TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:19489100C>T	uc001bbi.2	-	35	4774	c.4770G>A	c.(4768-4770)GTG>GTA	p.V1590V	UBR4_uc001bbm.1_Silent_p.V801V	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	1590					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CCAAGATCATCACATGCTGTA	0.433													13	21					0	0	0.013537	0	0		T	19489100	T	T	19489100	2	4	121	1	0	0	0	0	0	0	0	1	16930	813	29	4		4	UBR4	1	19489100	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	6549402	19489100	229761521	3	66705											
MYOM3	127294	broad.mit.edu	37	chr1	24413270	24413270	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaatctcggggatctcacAgggctttccgagctgatggc	7	9	14	11	3	2	1	1	1	2	0	5	4	3	2	1	4	1	2	1	4	1	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:24413270A>G	uc001bin.3	-	15	1825	c.1662T>C	c.(1660-1662)CCT>CCC	p.P554P	MYOM3_uc001bim.3_Silent_p.P211P|MYOM3_uc001bio.2_Silent_p.P554P|MYOM3_uc001bip.1_Silent_p.P211P	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	554	Fibronectin type-III 2.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		GGGATCTCACAGGGCTTTCCG	0.557													4	43					0	0	0.014758	0	0		G	24413270	G	G	24413270	2	3	121	1	0	0	0	0	0	0	0	1	10111	175	7	3		3	MYOM3	1	24413270	Silent	SNP	A	TCGA-CD-8535-01A-11D-2340-08	4924170	24413270	224837351	4	66706											
COL16A1	1307	broad.mit.edu	37	chr1	32120438	32120438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgatgaacctcttgatttCatcataattcaccatgtctc	10	16	4	11	0	6	3	3	3	3	0	7	3	6	3	2	0	1	0	2	0	2	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:32120438C>T	uc001btk.1	-	68	4677	c.4312G>A	c.(4312-4314)GAA>AAA	p.E1438K	COL16A1_uc001bti.1_Missense_Mutation_p.E52K|COL16A1_uc001btj.1_Missense_Mutation_p.E1236K	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	1438	Nonhelical region 2 (NC2).				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		CTCTTGATTTCATCATAATTC	0.448													55	90					0	0	0.01441	0	0		T	32120438	T	T	32120438	3	4	121	1	0	0	0	0	1	0	0	0	3676	835	29	4	518	4	COL16A1	1	32120438	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	7707168	32120438	217130183	5	66707											
PTPRF	5792	broad.mit.edu	37	chr1	44086848	44086848	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacgagggcgtggtcgacaTgtttcagaccgtgaagaccc	9	8	13	11	4	1	3	1	1	0	2	2	5	1	3	2	2	1	1	2	2	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:44086848T>A	uc001cjr.2	+	33	5940	c.5600T>A	c.(5599-5601)ATG>AAG	p.M1867K	PTPRF_uc001cjs.2_Missense_Mutation_p.M1858K|PTPRF_uc001cju.2_Missense_Mutation_p.M1256K|PTPRF_uc009vwt.2_Missense_Mutation_p.M1427K|PTPRF_uc001cjv.2_Missense_Mutation_p.M1338K|PTPRF_uc001cjw.2_Missense_Mutation_p.M1093K	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1867	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GTGGTCGACATGTTTCAGACC	0.627													7	12					0	0	0.00308	0	0		A	44086848	A	A	44086848	3	1	121	1	0	0	0	0	1	0	0	0	12826	1464	51	5	5722	5	PTPRF	1	44086848	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	11966410	44086848	205163773	6	66708											
LRRIQ3	127255	broad.mit.edu	37	chr1	74507054	74507054	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagtgcgctcattatttaAgttttgaactaataaacgct	14	14	7	6	2	1	2	1	1	0	1	1	2	1	2	0	0	3	3	0	0	7	7			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:74507054A>C	uc001dfy.3	-	7	1753	c.1561T>G	c.(1561-1563)TTA>GTA	p.L521V	LRRIQ3_uc001dfz.3_Intron	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	521										ovary(2)	2						TCATTATTTAAGTTTTGAACT	0.368													39	40					0	0	0.009718	0	0		C	74507054	C	C	74507054	3	2	121	1	0	0	0	0	1	0	0	0	9048	69	3	5	321	5	LRRIQ3	1	74507054	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	30420206	74507054	174743567	7	66709											
SPATA1	64173	broad.mit.edu	37	chr1	85009959	85009959	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgttctttcttcaggaatAactgatatatctttattaca	11	18	4	8	0	4	1	1	1	3	0	4	2	4	2	1	1	2	1	1	1	6	9			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:85009959A>G	uc001djz.1	+	9	1057	c.858A>G	c.(856-858)ATA>ATG	p.I286M	SPATA1_uc001djy.1_RNA	NM_001081472	NP_001074941			spermatogenesis associated 1											central_nervous_system(1)	1				Epithelial(280;4.36e-10)|all cancers(265;7.1e-09)|BRCA - Breast invasive adenocarcinoma(282;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(397;0.00286)|KIRC - Kidney renal clear cell carcinoma(1967;0.0111)		CTTCAGGAATAACTGATATAT	0.323													4	2					0	0	0.009096	0	0		G	85009959	G	G	85009959	3	3	121	1	0	0	0	0	1	0	0	0	15023	352	13	3	888	3	SPATA1	1	85009959	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	10502905	85009959	164240662	8	66710											
LPPR4	9890	broad.mit.edu	37	chr1	99772202	99772202	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccgtccactgaaggtgaagGcagtggctcctggaagtgga	9	7	15	10	1	0	2	0	2	0	0	2	4	2	4	3	5	0	2	3	5	3	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:99772202G>C	uc001dse.2	+	7	2034	c.1928G>C	c.(1927-1929)GGC>GCC	p.G643A	LPPR4_uc010oue.1_Missense_Mutation_p.G585A	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	643							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		GAAGGTGAAGGCAGTGGCTCC	0.537													7	15					0	0	0.001984	0	0		C	99772202	C	C	99772202	3	2	121	1	0	0	0	0	1	0	0	0	8945	1203	42	5	1954	5	LPPR4	1	99772202	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	14762243	99772202	149478419	9	66711											
FLG2	388698	broad.mit.edu	37	chr1	152327439	152327439	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatccaaaagtctgtcctgaActtgacccatgttgaccata	13	11	6	11	0	1	3	0	3	1	0	3	3	3	3	4	0	1	1	4	0	5	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:152327439A>C	uc001ezw.3	-	3	2896	c.2823T>G	c.(2821-2823)AGT>AGG	p.S941R	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	941	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTGTCCTGAACTTGACCCAT	0.493													110	353					0	0	0.01441	0	0		C	152327439	C	C	152327439	3	2	121	1	0	0	0	0	1	0	0	0	5937	40	2	5	4356	5	FLG2	1	152327439	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	52555237	152327439	96923182	10	66712											
CD1C	911	broad.mit.edu	37	chr1	158259869	158259869	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgacatgctgtttctgcaGtttctgctgctagctcttct	6	17	8	10	0	4	1	0	1	4	0	4	1	4	1	0	0	5	7	0	0	2	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:158259869G>A	uc001fru.2	+	1	307	c.15G>A	c.(13-15)CAG>CAA	p.Q5Q	CD1C_uc001frv.2_5'Flank	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	5					antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					TGTTTCTGCAGTTTCTGCTGC	0.448													26	56					0	0	0.005443	0	0		A	158259869	A	A	158259869	2	1	121	1	0	0	0	0	0	0	0	1	2979	1020	36	4		4	CD1C	1	158259869	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	5932430	158259869	90990752	11	66713											
CD1B	910	broad.mit.edu	37	chr1	158298772	158298772	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caaggaaggcactattattgCcaaaacaattgagccaatgg	16	8	9	8	0	0	1	0	1	0	0	0	2	0	2	2	3	3	1	2	3	8	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:158298772C>G	uc001frx.2	-	5	1027	c.919G>C	c.(919-921)GCA>CCA	p.A307P	CD1B_uc001frw.2_Missense_Mutation_p.A145P	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	307	Helical; (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					ACTATTATTGCCAAAACAATT	0.428													11	54					0	0	0.010729	0	0		G	158298772	G	G	158298772	3	3	121	1	0	0	0	0	1	0	0	0	2978	739	26	5	90	5	CD1B	1	158298772	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	38903	158298772	90951849	12	66714											
OR6Y1	391112	broad.mit.edu	37	chr1	158517014	158517014	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatggttcctcagacagtaAatgatggggttgaggagtgg	10	11	15	5	0	2	3	2	2	0	1	3	4	3	4	1	5	0	3	1	5	2	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:158517014A>C	uc010pil.1	-	1	882	c.882T>G	c.(880-882)ATT>ATG	p.I294M		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	294	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TCAGACAGTAAATGATGGGGT	0.453													31	70					0	0	0.010818	0	0		C	158517014	C	C	158517014	3	2	121	1	0	0	0	0	1	0	0	0	11232	10	1	5	97	5	OR6Y1	1	158517014	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	218242	158517014	90733607	13	66715											
OR10J3	441911	broad.mit.edu	37	chr1	159283665	159283665	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaactctgggacttaggcTtcaggtagatgatggaggca	10	9	16	6	0	2	2	1	1	1	1	2	5	2	5	0	6	1	3	0	6	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:159283665T>G	uc010piu.1	-	1	785	c.785A>C	c.(784-786)AAG>ACG	p.K262T		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					GGACTTAGGCTTCAGGTAGAT	0.532													28	76					0	0	0.004656	0	0		G	159283665	G	G	159283665	3	3	121	1	0	0	0	0	1	0	0	0	10930	1609	56	5	206	5	OR10J3	1	159283665	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	766651	159283665	89966956	14	66716											
OR10J3	441911	broad.mit.edu	37	chr1	159284373	159284373	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagacaacaaagaagacaAgtttgtgctgccgcctgaag	15	6	12	8	1	0	4	0	1	0	3	0	5	0	5	2	1	3	2	2	1	6	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:159284373A>C	uc010piu.1	-	1	77	c.77T>G	c.(76-78)CTT>CGT	p.L26R		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	26	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					AAAGAAGACAAGTTTGTGCTG	0.448													48	133					0	0	0.01441	0	0		C	159284373	C	C	159284373	3	2	121	1	0	0	0	0	1	0	0	0	10930	72	3	5	914	5	OR10J3	1	159284373	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	708	159284373	89966248	15	66717											
OLFML2B	25903	broad.mit.edu	37	chr1	161987209	161987209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcctccagtttatccactCgccccaccagtttggtggtg	5	12	8	16	1	0	0	0	0	0	0	4	0	3	0	7	2	0	2	7	2	1	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:161987209C>T	uc001gbu.2	-	3	951	c.527G>A	c.(526-528)CGA>CAA	p.R176Q	OLFML2B_uc010pkq.1_Missense_Mutation_p.R176Q	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	176										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			TTTATCCACTCGCCCCACCAG	0.438													45	35					0	0	0.013114	0	0		T	161987209	T	T	161987209	3	4	121	1	0	0	0	0	1	0	0	0	10877	884	31	1	1749	1	OLFML2B	1	161987209	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	2702836	161987209	87263412	16	66718											
DDR2	4921	broad.mit.edu	37	chr1	162741933	162741933	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacacatactcagtgcctGccgtcaccatggacctgctc	9	8	8	16	1	2	0	2	0	0	0	3	1	2	1	4	1	5	2	4	1	2	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:162741933G>A	uc001gcf.2	+	14	2089	c.1624G>A	c.(1624-1626)GCC>ACC	p.A542T	DDR2_uc001gcg.2_Missense_Mutation_p.A542T	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	542	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			CTCAGTGCCTGCCGTCACCAT	0.562													11	22					0	0	0.010729	0	0		A	162741933	A	A	162741933	3	1	121	1	0	0	0	0	1	0	0	0	4340	1319	46	2	1666	2	DDR2	1	162741933	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	754724	162741933	86508688	17	66719											
SELP	6403	broad.mit.edu	37	chr1	169562867	169562867	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtctgaaacgctttcttaGcaaagccaggagcgtcccac	10	10	9	12	2	2	1	0	1	2	0	3	2	3	2	2	1	4	2	2	1	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:169562867G>A	uc001ggi.3	-	14	2448	c.2383C>T	c.(2383-2385)CTA>TTA	p.L795L	SELP_uc001ggh.2_Intron|SELP_uc009wvr.2_Silent_p.L794L	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	795	Helical; (Potential).				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	CGCTTTCTTAGCAAAGCCAGG	0.423													17	43					0	0	0.006122	0	0		A	169562867	A	A	169562867	2	1	121	1	0	0	0	0	0	0	0	1	14044	962	34	2		2	SELP	1	169562867	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	6820934	169562867	79687754	18	66720											
TNN	63923	broad.mit.edu	37	chr1	175046771	175046771	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgacgatggggcttcgctcTtggccctgggggaggccagg	4	8	19	10	2	1	1	0	1	1	0	2	3	1	2	2	7	0	2	2	7	0	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:175046771T>C	uc001gkl.1	+	2	330	c.217T>C	c.(217-219)TTG>CTG	p.L73L	TNN_uc010pmx.1_Silent_p.L73L	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	73					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GGCTTCGCTCTTGGCCCTGGG	0.592													12	34					0	0	0.010729	0	0		C	175046771	C	C	175046771	2	2	121	1	0	0	0	0	0	0	0	1	16348	1606	56	3		3	TNN	1	175046771	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	5483904	175046771	74203850	19	66721											
PAPPA2	60676	broad.mit.edu	37	chr1	176681096	176681096	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagaaggtagcctgaagaaAgaggatgaggtttggctcaa	14	7	14	6	0	1	5	1	2	0	3	1	6	1	6	2	4	1	3	2	4	5	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:176681096A>G	uc001gkz.2	+	12	4941	c.3777A>G	c.(3775-3777)AAA>AAG	p.K1259K	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1259					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GCCTGAAGAAAGAGGATGAGG	0.398													26	48					0	0	0.021523	0	0		G	176681096	G	G	176681096	2	3	121	1	0	0	0	0	0	0	0	1	11452	69	3	3		3	PAPPA2	1	176681096	Silent	SNP	A	TCGA-CD-8535-01A-11D-2340-08	1634325	176681096	72569525	20	66722											
KCNT2	343450	broad.mit.edu	37	chr1	196227371	196227371	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttcattctatttttcacaAgttcagcaagctcttgtctt	8	19	5	9	0	6	0	3	0	3	0	6	0	6	0	0	0	2	4	0	0	3	8			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:196227371A>G	uc001gtd.1	-	26	3224	c.3164T>C	c.(3163-3165)CTT>CCT	p.L1055P	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.L988P|KCNT2_uc001gtf.1_Missense_Mutation_p.L1031P|KCNT2_uc001gtg.1_RNA|KCNT2_uc001gth.1_Missense_Mutation_p.L559P	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	1055	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						ATTTTTCACAAGTTCAGCAAG	0.403													22	64					0	0	0.01892	0	0		G	196227371	G	G	196227371	3	3	121	1	0	0	0	0	1	0	0	0	8108	72	3	3	255	3	KCNT2	1	196227371	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	19546275	196227371	53023250	21	66723											
KCNT2	343450	broad.mit.edu	37	chr1	196250004	196250004	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaaacctcagatgtagtaaGtttctgagactcagtcctgt	11	12	8	10	0	3	2	2	1	1	2	4	3	4	2	3	0	1	3	3	0	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:196250004G>T	uc001gtd.1	-	25	2956	c.2896C>A	c.(2896-2898)CTT>ATT	p.L966I	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.L892I|KCNT2_uc001gtf.1_Missense_Mutation_p.L942I|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.L942I|KCNT2_uc001gth.1_Missense_Mutation_p.L463I	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	966	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						GATGTAGTAAGTTTCTGAGAC	0.328													17	36					3.32936e-07	3.42904e-07	0.006122	1	0		T	196250004	T	T	196250004	3	4	121	1	0	0	0	0	1	0	0	0	8108	1029	36	5	527	5	KCNT2	1	196250004	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	22633	196250004	53000617	22	66724											
FMOD	2331	broad.mit.edu	37	chr1	203317143	203317143	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagtacatggccgtggggaAgttgggtgggcagtcgcact	8	8	17	8	2	0	0	0	0	0	0	1	1	0	1	1	5	1	4	1	5	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:203317143A>G	uc001gzr.2	-	2	392	c.256T>C	c.(256-258)TTC>CTC	p.F86L	FMOD_uc010pqi.1_RNA	NM_002023	NP_002014	Q06828	FMOD_HUMAN	fibromodulin precursor	86	Cys-rich.|LRRNT.				transforming growth factor beta receptor complex assembly	extracellular space|proteinaceous extracellular matrix				ovary(2)|breast(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.171)			GCCGTGGGGAAGTTGGGTGGG	0.587													8	18					0	0	0.004482	0	0		G	203317143	G	G	203317143	3	3	121	1	0	0	0	0	1	0	0	0	5973	72	3	3	882	3	FMOD	1	203317143	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	7067139	203317143	45933478	23	66725											
PCNXL2	80003	broad.mit.edu	37	chr1	233344423	233344423	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtctgctatatgttatgaTttggttgtgtccctagaaaa	9	17	10	5	0	1	2	0	1	1	1	2	2	2	2	1	2	1	3	1	2	6	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:233344423T>G	uc001hvl.2	-	13	2939	c.2704A>C	c.(2704-2706)ATC>CTC	p.I902L	PCNXL2_uc009xfu.2_RNA|PCNXL2_uc001hvp.1_RNA|PCNXL2_uc009xfv.1_RNA|PCNXL2_uc001hvq.1_Missense_Mutation_p.I201L	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	902	Helical; (Potential).					integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				TATGTTATGATTTGGTTGTGT	0.368													16	39					0	0	0.003163	0	0		G	233344423	G	G	233344423	3	3	121	1	0	0	0	0	1	0	0	0	11611	1493	52	5	3797	5	PCNXL2	1	233344423	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	30027280	233344423	15906198	24	66726											
RYR2	6262	broad.mit.edu	37	chr1	237608821	237608821	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttttcaatagatttataAggtactttttcttttgtagg	9	21	6	5	0	2	1	1	0	1	1	3	1	3	1	1	2	1	2	1	2	6	12			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr1:237608821A>T	uc001hyl.1	+	14	1411	c.1291A>T	c.(1291-1293)AGG>TGG	p.R431W		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	431	Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TAGATTTATAAGGTACTTTTT	0.363													6	34					0	0	0.021553	0	0		T	237608821	T	T	237608821	3	4	121	1	0	0	0	0	1	0	0	0	13794	86	3	5	1345	5	RYR2	1	237608821	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	4264398	237608821	11641800	25	66727											
NBAS	51594	broad.mit.edu	37	chr2	15307367	15307367	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaacaatacgtggatagaaGggagtggagacacacttcac	15	7	11	8	1	2	2	2	0	0	2	2	5	2	4	0	3	2	0	0	3	5	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:15307367G>C	uc002rcc.1	-	52	6947	c.6921C>G	c.(6919-6921)CCC>CCG	p.P2307P	NBAS_uc002rcb.1_Silent_p.P147P|NBAS_uc010exl.1_Silent_p.P1379P|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	2307										ovary(2)|liver(1)|skin(1)	4						GTGGATAGAAGGGAGTGGAGA	0.547													12	13					0	0	0.010729	0	0		C	15307367	C	C	15307367	2	2	121	1	0	0	0	0	0	0	0	1	10204	987	35	5		5	NBAS	2	15307367	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08		15307367	227892006	26	66728											
TTC27	55622	broad.mit.edu	37	chr2	33036126	33036126	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtcagggcagtgattgatggGatgactgatcgaagtggaga	11	9	17	4	1	1	5	1	4	0	1	2	8	1	6	0	3	0	1	0	3	1	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:33036126G>A	uc002rom.2	+	17	2265	c.2034G>A	c.(2032-2034)GGG>GGA	p.G678G	TTC27_uc010ymx.1_Silent_p.G628G|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	678							protein binding			central_nervous_system(1)	1						TGATTGATGGGATGACTGATC	0.398													21	37					0	0	0.012319	0	0		A	33036126	A	A	33036126	2	1	121	1	0	0	0	0	0	0	0	1	16721	1161	41	4		4	TTC27	2	33036126	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	17728759	33036126	210163247	27	66729											
SLC8A1	6546	broad.mit.edu	37	chr2	40657171	40657171	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagaaacatgtagaccatggCcacaaaatacacagtagctc	18	6	7	10	0	0	2	0	0	0	2	1	2	0	2	2	1	3	3	2	1	7	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:40657171C>A	uc002rrx.2	-	1	274	c.250G>T	c.(250-252)GCC>TCC	p.A84S	SLC8A1_uc002rry.2_Missense_Mutation_p.A84S|SLC8A1_uc002rrz.2_Missense_Mutation_p.A84S|SLC8A1_uc002rsa.2_Missense_Mutation_p.A84S|SLC8A1_uc002rsd.3_Missense_Mutation_p.A84S|SLC8A1_uc002rsb.1_Missense_Mutation_p.A84S|SLC8A1_uc010fan.1_Missense_Mutation_p.A84S|SLC8A1_uc002rsc.1_Missense_Mutation_p.A84S	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	84	Helical; (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	TAGACCATGGCCACAAAATAC	0.398													40	64					1.60099e-16	1.68938e-16	0.021022	1	0		A	40657171	A	A	40657171	3	1	121	1	0	0	0	0	1	0	0	0	14731	739	26	5	2819	5	SLC8A1	2	40657171	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	7621045	40657171	202542202	28	66730											
REG3G	130120	broad.mit.edu	37	chr2	79255359	79255359	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgaagtggaaagattataActgtgatgcaaagttaccct	14	12	9	6	0	1	3	0	2	1	1	1	4	1	4	1	1	3	2	1	1	6	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:79255359A>C	uc002snw.2	+	6	570	c.485A>C	c.(484-486)AAC>ACC	p.N162T	REG3G_uc002snx.2_Missense_Mutation_p.N162T|REG3G_uc010ffu.2_Missense_Mutation_p.N116T	NM_198448	NP_940850	Q6UW15	REG3G_HUMAN	regenerating islet-derived 3 gamma precursor	162	C-type lectin.				acute-phase response	extracellular region	sugar binding				0						AAAGATTATAACTGTGATGCA	0.493													13	25					0	0	0.020292	0	0		C	79255359	C	C	79255359	3	2	121	1	0	0	0	0	1	0	0	0	13238	43	2	5	503	5	REG3G	2	79255359	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	38598188	79255359	163944014	29	66731											
LYG2	254773	broad.mit.edu	37	chr2	99860569	99860569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtgctctttgctatcccagGcaccgacagggtggtacgtt	6	11	13	11	2	1	0	0	0	1	0	2	1	2	0	2	4	3	5	2	4	2	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:99860569G>A	uc002szw.1	-	5	526	c.413C>T	c.(412-414)GCC>GTC	p.A138V	MRPL30_uc002szl.1_Intron|LYG2_uc010fip.1_Missense_Mutation_p.A138V|LYG2_uc002szx.1_Missense_Mutation_p.A138V	NM_175735	NP_783862	Q86SG7	LYG2_HUMAN	lysozyme G-like 2 precursor	138					cell wall macromolecule catabolic process|peptidoglycan catabolic process	extracellular region	lysozyme activity			ovary(1)	1						GCTATCCCAGGCACCGACAGG	0.428													24	24					0	0	0.01892	0	0		A	99860569	A	A	99860569	3	1	121	1	0	0	0	0	1	0	0	0	9123	1203	42	2	233	2	LYG2	2	99860569	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	20605210	99860569	143338804	30	66732											
AFF3	3899	broad.mit.edu	37	chr2	100368730	100368730	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccactttgccaggtgcttGaatagcagaaagtggtggaa	11	11	12	7	0	0	2	0	1	0	1	1	3	1	3	2	3	3	2	2	3	4	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:100368730G>A	uc002tag.2	-	8	1191	c.955C>T	c.(955-957)CAA>TAA	p.Q319*	AFF3_uc002taf.2_Nonsense_Mutation_p.Q344*|AFF3_uc010fiq.1_Nonsense_Mutation_p.Q319*|AFF3_uc010yvr.1_Nonsense_Mutation_p.Q473*|AFF3_uc002tah.1_Nonsense_Mutation_p.Q344*|AFF3_uc010fir.1_Nonsense_Mutation_p.Q396*	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	319					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						CCAGGTGCTTGAATAGCAGAA	0.408													13	14					0	0	0.016723	0	0		A	100368730	A	A	100368730	4	1	121	1	0	0	0	0	0	1	0	0	358	1299	45	4	2793	4	AFF3	2	100368730	Nonsense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	508161	100368730	142830643	31	66733											
RGPD4	285190	broad.mit.edu	37	chr2	108488148	108488148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcaggtacaggtgcggccGgtgcctcagacacaacaata	11	7	12	11	2	2	1	2	0	0	1	2	1	2	1	2	4	4	2	2	4	4	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:108488148G>A	uc010ywk.1	+	20	3770	c.3688G>A	c.(3688-3690)GGT>AGT	p.G1230S	RGPD4_uc002tdu.2_Missense_Mutation_p.G417S|RGPD4_uc010ywl.1_Intron	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	1230					intracellular transport		binding			skin(2)	2						AGGTGCGGCCGGTGCCTCAGA	0.403													167	37					0	0	0.01441	0	0		A	108488148	A	A	108488148	3	1	121	1	0	0	0	0	1	0	0	0	13313	1116	39	1	3766	1	RGPD4	2	108488148	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	8119418	108488148	134711225	32	66734											
RANBP2	5903	broad.mit.edu	37	chr2	109347834	109347834	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgttgaagattgcagaattGctttgtaaaaatgatgttac	13	15	10	3	0	0	4	0	2	0	2	0	4	0	4	0	0	3	5	0	0	6	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:109347834G>A	uc002tem.3	+	4	435	c.309G>A	c.(307-309)TTG>TTA	p.L103L		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	103					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TTGCAGAATTGCTTTGTAAAA	0.323													54	61					0	0	0.01441	0	0		A	109347834	A	A	109347834	2	1	121	1	0	0	0	0	0	0	0	1	13053	1310	46	2		2	RANBP2	2	109347834	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	859686	109347834	133851539	33	66735											
RANBP2	5903	broad.mit.edu	37	chr2	109356991	109356991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatctttgggtggaaatgatGaactgtcagctactttctta	11	15	9	6	0	3	2	1	2	2	0	3	3	3	3	0	2	3	1	0	2	5	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:109356991G>A	uc002tem.3	+	7	955	c.829G>A	c.(829-831)GAA>AAA	p.E277K		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	277					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TGGAAATGATGAACTGTCAGC	0.363													235	41					0	0	0.01441	0	0		A	109356991	A	A	109356991	3	1	121	1	0	0	0	0	1	0	0	0	13053	1291	45	4	855	4	RANBP2	2	109356991	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	9157	109356991	133842382	34	66736											
MCM6	4175	broad.mit.edu	37	chr2	136626249	136626249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctcctgttggcacaaactgGatttcggcagatgtttggct	7	13	11	10	1	0	1	0	0	0	1	2	2	1	2	2	4	1	5	2	4	1	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:136626249G>A	uc002tuw.2	-	4	623	c.547C>T	c.(547-549)CCA>TCA	p.P183S		NM_005915	NP_005906	Q14566	MCM6_HUMAN	minichromosome maintenance complex component 6	183					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|identical protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.166)	Atorvastatin(DB01076)	GCACAAACTGGATTTCGGCAG	0.393													24	53					0	0	0.016522	0	0		A	136626249	A	A	136626249	3	1	121	1	0	0	0	0	1	0	0	0	9409	1174	41	4	1974	4	MCM6	2	136626249	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	27269258	136626249	106573124	35	66737											
THSD7B	80731	broad.mit.edu	37	chr2	138320844	138320844	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcagtattcctgggttgtAgaacactggtcttcatgcaa	11	13	9	8	0	3	1	2	0	1	1	4	1	4	1	1	2	2	4	1	2	5	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:138320844A>G	uc002tva.1	+	15	3105	c.3105A>G	c.(3103-3105)GTA>GTG	p.V1035V	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CCTGGGTTGTAGAACACTGGT	0.433													7	15					0	0	0.00308	0	0		G	138320844	G	G	138320844	2	3	121	1	0	0	0	0	0	0	0	1	15905	407	15	3		3	THSD7B	2	138320844	Silent	SNP	A	TCGA-CD-8535-01A-11D-2340-08	1694595	138320844	104878529	36	66738											
LRP1B	53353	broad.mit.edu	37	chr2	141598520	141598520	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagctgcaagacactgtggcTtatcgattccatggataatt	11	12	10	8	1	0	1	0	0	0	1	2	4	1	2	1	2	2	3	1	2	3	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:141598520T>G	uc002tvj.1	-	30	6053	c.5081A>C	c.(5080-5082)AAG>ACG	p.K1694T		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1694	Extracellular (Potential).|LDL-receptor class B 15.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACACTGTGGCTTATCGATTCC	0.353										TSP Lung(27;0.18)			35	30					0	0	0.023175	0	0		G	141598520	G	G	141598520	3	3	121	1	0	0	0	0	1	0	0	0	8973	1609	56	5	8966	5	LRP1B	2	141598520	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	3277676	141598520	101600853	37	66739											
SCN2A	6326	broad.mit.edu	37	chr2	166210751	166210751	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagttccttcagttctgacaAtcttgctgccactgatgatg	8	14	9	10	0	3	3	1	3	2	0	4	4	4	3	2	0	2	3	2	0	1	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:166210751A>C	uc002udc.2	+	17	3259	c.2969A>C	c.(2968-2970)AAT>ACT	p.N990T	SCN2A_uc002udd.2_Missense_Mutation_p.N990T|SCN2A_uc002ude.2_Missense_Mutation_p.N990T	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	990	II.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	AGTTCTGACAATCTTGCTGCC	0.383													75	134					0	0	0.01441	0	0		C	166210751	C	C	166210751	3	2	121	1	0	0	0	0	1	0	0	0	13941	101	4	5	3127	5	SCN2A	2	166210751	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	24612231	166210751	76988622	38	66740											
CSRNP3	80034	broad.mit.edu	37	chr2	166535567	166535567	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgggagcagcttttgcagCggagtcacagattctagcac	10	9	13	9	1	2	1	1	0	1	1	2	4	2	3	0	2	5	4	0	2	1	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:166535567C>T	uc002udf.2	+	7	1438	c.1062C>T	c.(1060-1062)AGC>AGT	p.S354S	CSRNP3_uc002udg.2_Silent_p.S354S	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	354	Glu-rich.				apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						GCTTTTGCAGCGGAGTCACAG	0.438													26	33					0	0	0.005443	0	0		T	166535567	T	T	166535567	2	4	121	1	0	0	0	0	0	0	0	1	3968	767	27	1		1	CSRNP3	2	166535567	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	324816	166535567	76663806	39	66741											
TTN	7273	broad.mit.edu	37	chr2	179431873	179431873	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagtccaggcaagtcgactgGtttctcgcttttcaacaaca	10	11	8	12	2	2	0	1	0	1	0	5	1	3	0	1	2	2	3	1	2	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:179431873G>C	uc010zfg.1	-	275	71506	c.71282C>G	c.(71281-71283)ACC>AGC	p.T23761S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T17456S|TTN_uc010zfi.1_Missense_Mutation_p.T17389S|TTN_uc010zfj.1_Missense_Mutation_p.T17264S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24688							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAGTCGACTGGTTTCTCGCTT	0.403													41	51					0	0	0.00623	0	0		C	179431873	C	C	179431873	3	2	121	1	0	0	0	0	1	0	0	0	16761	1261	44	5	29141	5	TTN	2	179431873	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	12896306	179431873	63767500	40	66742											
TTN	7273	broad.mit.edu	37	chr2	179498022	179498022	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaacaaacacctctactccGtacagaggcttttccacttt	11	11	4	15	1	1	1	0	0	1	1	3	1	3	1	4	1	4	2	4	1	4	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:179498022G>A	uc010zfg.1	-	182	35498	c.35274C>T	c.(35272-35274)TAC>TAT	p.Y11758Y	TTN_uc010zfh.1_Silent_p.Y5453Y|TTN_uc010zfi.1_Silent_p.Y5386Y|TTN_uc010zfj.1_Silent_p.Y5261Y	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12685							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCTCTACTCCGTACAGAGGCT	0.408													44	56					0	0	0.01441	0	0		A	179498022	A	A	179498022	2	1	121	1	0	0	0	0	0	0	0	1	16761	1140	40	1		1	TTN	2	179498022	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	66149	179498022	63701351	41	66743											
TTN	7273	broad.mit.edu	37	chr2	179560121	179560121	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggtactttggctggaacTtttctctcatgtgattctga	7	17	9	8	0	4	2	2	2	2	0	5	3	4	3	0	3	2	2	0	3	2	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:179560121T>A	uc010zfg.1	-	112	27716	c.27492A>T	c.(27490-27492)AAA>AAT	p.K9164N	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K5825N|TTN_uc010fre.1_Missense_Mutation_p.K275N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10091							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGCTGGAACTTTTCTCTCAT	0.343													22	38					0	0	0.016522	0	0		A	179560121	A	A	179560121	3	1	121	1	0	0	0	0	1	0	0	0	16761	1606	56	5	73297	5	TTN	2	179560121	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	62099	179560121	63639252	42	66744											
TTN	7273	broad.mit.edu	37	chr2	179593353	179593353	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgttattttcaaaacTcattgaaaagtatctactgg	13	13	7	8	1	3	1	2	1	1	0	3	1	3	1	1	2	2	2	1	2	7	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:179593353T>C	uc010zfg.1	-	63	15792	c.15568A>G	c.(15568-15570)AGT>GGT	p.S5190G	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S1851G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6117							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTTCAAAACTCATTGAAAAG	0.418													15	14					0	0	0.020292	0	0		C	179593353	C	C	179593353	3	2	121	1	0	0	0	0	1	0	0	0	16761	1551	54	3	85417	3	TTN	2	179593353	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	33232	179593353	63606020	43	66745											
KCTD18	130535	broad.mit.edu	37	chr2	201363767	201363767	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacccaaactgttggtttaTtgcagactaagccatatgaa	14	11	8	8	0	0	2	0	1	0	1	0	3	0	2	2	1	4	3	2	1	6	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:201363767T>C	uc002uvs.2	-	4	930	c.413A>G	c.(412-414)AAT>AGT	p.N138S	KCTD18_uc002uvt.2_Missense_Mutation_p.N138S|KCTD18_uc002uvu.1_Missense_Mutation_p.N138S	NM_152387	NP_689600	Q6PI47	KCD18_HUMAN	potassium channel tetramerization domain	138						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1						TGTTGGTTTATTGCAGACTAA	0.323													38	22					0	0	0.017118	0	0		C	201363767	C	C	201363767	3	2	121	1	0	0	0	0	1	0	0	0	8121	1493	52	3	883	3	KCTD18	2	201363767	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	21770414	201363767	41835606	44	66746											
INO80D	54891	broad.mit.edu	37	chr2	206927685	206927685	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcacagtttggggctatatGagcacaagggcttattgtca	10	12	12	7	0	1	1	1	1	0	0	1	1	1	1	0	3	2	5	0	3	4	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:206927685G>A	uc002vaz.3	-	3	461	c.56C>T	c.(55-57)TCA>TTA	p.S19L		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	19					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						GGGGCTATATGAGCACAAGGG	0.478													5	11					0	0	0.021553	0	0		A	206927685	A	A	206927685	3	1	121	1	0	0	0	0	1	0	0	0	7765	1294	45	4	3063	4	INO80D	2	206927685	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	5563918	206927685	36271688	45	66747											
MAP2	4133	broad.mit.edu	37	chr2	210574735	210574735	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaccccaccaagttattcTtcacgcacaccaggcactcc	10	7	6	18	1	2	0	1	0	1	0	3	0	3	0	5	2	0	4	5	2	2	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:210574735T>A	uc002vde.1	+	12	5078	c.4830T>A	c.(4828-4830)TCT>TCA	p.S1610S	MAP2_uc002vdd.1_Silent_p.S311S|MAP2_uc002vdf.1_Silent_p.S254S|MAP2_uc002vdg.1_Silent_p.S254S|MAP2_uc002vdh.1_Silent_p.S311S|MAP2_uc002vdi.1_Silent_p.S1606S	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1610					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CAAGTTATTCTTCACGCACAC	0.582													32	41					0	0	0.010818	0	0		A	210574735	A	A	210574735	2	1	121	1	0	0	0	0	0	0	0	1	9253	1596	56	5		5	MAP2	2	210574735	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	3647050	210574735	32624638	46	66748											
CPS1	1373	broad.mit.edu	37	chr2	211465397	211465397	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttcagataaactaaatgaGatcaatgaaaagattgctcc	17	12	6	6	0	2	4	2	2	0	3	3	5	3	4	1	0	2	1	1	0	7	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:211465397G>A	uc002vee.3	+	15	1800	c.1668G>A	c.(1666-1668)GAG>GAA	p.E556E	CPS1_uc010fur.2_Silent_p.E562E|CPS1_uc010fus.2_Silent_p.E105E	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	556	ATP-grasp 1.				carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		AACTAAATGAGATCAATGAAA	0.413													27	58					0	0	0.007291	0	0		A	211465397	A	A	211465397	2	1	121	1	0	0	0	0	0	0	0	1	3826	933	33	4		4	CPS1	2	211465397	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	890662	211465397	31733976	47	66749											
UGT1A5	54579	broad.mit.edu	37	chr2	234681146	234681146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgttgtgcttatggctacCggaaatgcttggggaaaaaa	13	11	12	5	1	0	0	0	0	0	0	0	2	0	2	1	4	3	4	1	4	7	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr2:234681146C>T	uc002vuw.2	+	5	1546	c.1546C>T	c.(1546-1548)CGG>TGG	p.R516W	UGT1A8_uc002vup.2_Missense_Mutation_p.R512W|UGT1A10_uc002vur.2_Missense_Mutation_p.R512W|UGT1A9_uc002vus.2_Missense_Mutation_p.R512W|UGT1A7_uc002vut.2_Missense_Mutation_p.R512W|UGT1A6_uc002vuu.2_Missense_Mutation_p.R247W|UGT1A6_uc002vuv.3_Missense_Mutation_p.R514W|UGT1A4_uc002vux.2_Missense_Mutation_p.R516W|UGT1A3_uc002vuy.2_Missense_Mutation_p.R516W|UGT1A9_uc002vva.2_RNA|UGT1A1_uc002vvb.2_Missense_Mutation_p.R515W	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	516					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		TTATGGCTACCGGAAATGCTT	0.468													20	22					0	0	0.007413	0	0		T	234681146	T	T	234681146	3	4	121	1	0	0	0	0	1	0	0	0	16974	643	23	1	1564	1	UGT1A5	2	234681146	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	23215749	234681146	8518227	48	66750											
GRM7	2917	broad.mit.edu	37	chr3	6903438	6903438	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgctcgaacagtcgcttacTttcgtccaggcgctcatcca	7	10	9	15	5	1	0	1	0	0	0	6	1	3	0	2	1	2	3	2	1	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr3:6903438T>C	uc003bqm.2	+	1	637	c.363T>C	c.(361-363)ACT>ACC	p.T121T	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Silent_p.T121T|GRM7_uc003bql.2_Silent_p.T121T	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	121	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	AGTCGCTTACTTTCGTCCAGG	0.582													14	35					0	0	0.020292	0	0		C	6903438	C	C	6903438	2	2	121	1	0	0	0	0	0	0	0	1	6818	1596	56	3		3	GRM7	3	6903438	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08		6903438	191118992	49	66751											
ARPP21	10777	broad.mit.edu	37	chr3	35835432	35835432	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaagtatgagcaatgctggTtggcaggtcaaattctgaga	12	10	13	6	0	2	2	1	2	1	1	2	3	2	2	0	3	2	6	0	3	4	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr3:35835432T>A	uc003cgb.2	+	20	2685	c.2421T>A	c.(2419-2421)GGT>GGA	p.G807G	ARPP21_uc003cga.2_Silent_p.G788G|ARPP21_uc011axy.1_Silent_p.G808G|ARPP21_uc003cgf.2_Silent_p.G643G|ARPP21_uc003cgg.2_Silent_p.G330G	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	807						cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						GCAATGCTGGTTGGCAGGTCA	0.498													16	13					0	0	0.003163	0	0		A	35835432	A	A	35835432	2	1	121	1	0	0	0	0	0	0	0	1	979	1712	60	5		5	ARPP21	3	35835432	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	28931994	35835432	162186998	50	66752											
NISCH	11188	broad.mit.edu	37	chr3	52521668	52521668	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgatccatgtgcagggCagtatccgccagttcgccgc	6	10	11	14	3	0	1	0	1	0	0	4	1	3	1	5	1	1	4	5	1	1	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr3:52521668C>T	uc011beg.1	+	17	2232	c.2160C>T	c.(2158-2160)GGC>GGT	p.G720G	NISCH_uc003ded.3_Silent_p.G720G|NISCH_uc003dee.3_Silent_p.G209G|NISCH_uc003deg.1_RNA	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	720	Interaction with LIMK (By similarity).|Interaction with ITGA5 (By similarity).|Interaction with PAK1 (By similarity).				apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		ATGTGCAGGGCAGTATCCGCC	0.642													32	20					0	0	0.010818	0	0		T	52521668	T	T	52521668	2	4	121	1	0	0	0	0	0	0	0	1	10451	697	25	2		2	NISCH	3	52521668	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	16686236	52521668	145500762	51	66753											
EPHA3	2042	broad.mit.edu	37	chr3	89468410	89468410	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccttcaaaaaaagagatTtcagtggccattaagaccct	14	11	6	10	0	2	2	2	0	0	2	3	3	3	2	3	1	0	0	3	1	4	4	rs138119313		TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr3:89468410T>C	uc003dqy.2	+	11	2169	c.1944T>C	c.(1942-1944)ATT>ATC	p.I648I	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	648	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		AAAAAGAGATTTCAGTGGCCA	0.413										TSP Lung(6;0.00050)			42	27					0	0	0.007835	0	0		C	89468410	C	C	89468410	2	2	121	1	0	0	0	0	0	0	0	1	5176	1829	64	3		3	EPHA3	3	89468410	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	36946742	89468410	108554020	52	66754											
LNP1	348801	broad.mit.edu	37	chr3	100170656	100170656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gatgccgtagccacgtacggGattacagaaaatactcagag	14	7	11	9	3	1	2	1	0	0	2	1	4	1	3	2	1	5	2	2	1	6	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr3:100170656G>A	uc003dtx.3	+	3	1530	c.250G>A	c.(250-252)GAT>AAT	p.D84N	LNP1_uc003dty.3_RNA|LNP1_uc011bhb.1_RNA	NM_001085451	NP_001078920	A1A4G5	LNP1_HUMAN	leukemia NUP98 fusion partner 1	84											0						CCACGTACGGGATTACAGAAA	0.448													41	32					0	0	0.013114	0	0		A	100170656	A	A	100170656	3	1	121	1	0	0	0	0	1	0	0	0	8880	1174	41	4	256	4	LNP1	3	100170656	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	10702246	100170656	97851774	53	66755											
CD200R1L	344807	broad.mit.edu	37	chr3	112548191	112548191	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaaattgttgaatagttCtgtgtcatctgctttccacc	10	15	7	9	0	3	1	1	1	2	0	4	1	4	1	2	0	1	4	2	0	4	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr3:112548191C>A	uc003dzi.1	-	2	313	c.87G>T	c.(85-87)CAG>CAT	p.Q29H	CD200R1L_uc011bhw.1_Missense_Mutation_p.Q8H|CD200R1L_uc010hqf.1_Missense_Mutation_p.Q8H	NM_001008784	NP_001008784	Q6Q8B3	MO2R2_HUMAN	CD200 cell surface glycoprotein receptor 2	29	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)	1						TTGAATAGTTCTGTGTCATCT	0.383													23	36					9.04412e-07	9.25946e-07	0.004656	1	0		A	112548191	A	A	112548191	3	1	121	1	0	0	0	0	1	0	0	0	2985	912	32	5	748	5	CD200R1L	3	112548191	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	12377535	112548191	85474239	54	66756											
CASR	846	broad.mit.edu	37	chr3	121981057	121981057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caacagctcgacagccttccGacccctctgtacaggggatg	9	7	10	15	2	1	0	0	0	1	0	3	3	2	1	4	2	4	2	4	2	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr3:121981057G>A	uc003eev.3	+	4	1547	c.1175G>A	c.(1174-1176)CGA>CAA	p.R392Q	CASR_uc003eew.3_Missense_Mutation_p.R392Q	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	392	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	ACAGCCTTCCGACCCCTCTGT	0.493													32	22					0	0	0.012213	0	0		A	121981057	A	A	121981057	3	1	121	1	0	0	0	0	1	0	0	0	2685	1058	37	1	1185	1	CASR	3	121981057	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	9432866	121981057	76041373	55	66757											
P2RY13	53829	broad.mit.edu	37	chr3	151046346	151046346	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagaacaaaaagaaccagatGaagattgagaccgtttttgc	18	8	9	6	1	0	6	0	2	0	5	0	7	0	6	2	0	3	1	2	0	6	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr3:151046346G>A	uc003eyv.2	-	2	519	c.498C>T	c.(496-498)TTC>TTT	p.F166F	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_176894	NP_795713	Q9BPV8	P2Y13_HUMAN	purinergic receptor P2Y, G-protein coupled, 13	166	Helical; Name=4; (Potential).					integral to membrane|plasma membrane				ovary(3)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0189)|Lung(72;0.0278)			AGAACCAGATGAAGATTGAGA	0.398													39	28					0	0	0.023175	0	0		A	151046346	A	A	151046346	2	1	121	1	0	0	0	0	0	0	0	1	11369	1281	45	4		4	P2RY13	3	151046346	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	29065289	151046346	46976084	56	66758											
GHSR	2693	broad.mit.edu	37	chr3	172165990	172165990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtggtgcgcagctcgcGgaagcgcgacaccaccagca	8	4	16	13	5	0	0	0	0	0	0	1	2	0	1	2	4	4	3	2	4	1	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr3:172165990G>A	uc003fib.1	-	1	214	c.214C>T	c.(214-216)CGC>TGC	p.R72C	GHSR_uc011bpv.1_Missense_Mutation_p.R72C	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	72	Cytoplasmic (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			CGCAGCTCGCGGAAGCGCGAC	0.662													20	21					0	0	0.010504	0	0		A	172165990	A	A	172165990	3	1	121	1	0	0	0	0	1	0	0	0	6390	1116	39	1	968	1	GHSR	3	172165990	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	21119644	172165990	25856440	57	66759											
NLGN1	22871	broad.mit.edu	37	chr3	173997382	173997382	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccttgcaatttctccaaaAatgatgtgatgctgagtgca	11	14	8	8	0	1	3	0	3	1	0	3	3	2	3	2	0	3	3	2	0	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr3:173997382A>T	uc003fio.1	+	6	2014	c.1591A>T	c.(1591-1593)AAT>TAT	p.N531Y	NLGN1_uc010hww.1_Missense_Mutation_p.N571Y|NLGN1_uc003fip.1_Missense_Mutation_p.N531Y	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	548	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TTTCTCCAAAAATGATGTGAT	0.403													19	37					0	0	0.007413	0	0		T	173997382	T	T	173997382	3	4	121	1	0	0	0	0	1	0	0	0	10480	14	1	5	1605	5	NLGN1	3	173997382	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	1831392	173997382	24025048	58	66760											
NAALADL2	254827	broad.mit.edu	37	chr3	174814991	174814991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtacatacaaattgcccttCagatgctccatcttcaggaa	12	12	6	11	0	3	1	2	0	1	1	4	2	4	2	2	1	4	2	2	1	4	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr3:174814991C>T	uc003fit.2	+	2	542	c.455C>T	c.(454-456)TCA>TTA	p.S152L	NAALADL2_uc003fiu.1_Missense_Mutation_p.S145L	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	152	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		AATTGCCCTTCAGATGCTCCA	0.373													45	69					0	0	0.011902	0	0		T	174814991	T	T	174814991	3	4	121	1	0	0	0	0	1	0	0	0	10148	838	29	4	461	4	NAALADL2	3	174814991	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	817609	174814991	23207439	59	66761											
IL1RAP	3556	broad.mit.edu	37	chr3	190366294	190366294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcattttagtacagtacaaaGctgtgaaggaaacgaaggtg	15	10	11	5	1	1	1	1	1	0	0	1	3	1	2	0	2	4	3	0	2	7	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr3:190366294G>A	uc003fsm.1	+	12	1719	c.1513G>A	c.(1513-1515)GCT>ACT	p.A505T	IL1RAP_uc010hzg.1_Missense_Mutation_p.A505T|IL1RAP_uc003fsn.1_RNA|IL1RAP_uc003fso.1_Missense_Mutation_p.A505T|IL1RAP_uc003fsp.1_RNA|IL1RAP_uc003fsq.2_Intron	NM_002182	NP_002173	Q9NPH3	IL1AP_HUMAN	interleukin 1 receptor accessory protein isoform	505	Cytoplasmic (Potential).|TIR.				inflammatory response|innate immune response|protein complex assembly	extracellular region|integral to plasma membrane				ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0733)|Breast(254;0.21)		Lung(62;1.95e-06)|LUSC - Lung squamous cell carcinoma(58;2.05e-06)	GBM - Glioblastoma multiforme(93;0.00851)		ACAGTACAAAGCTGTGAAGGA	0.502													25	82					0	0	0.01892	0	0		A	190366294	A	A	190366294	3	1	121	1	0	0	0	0	1	0	0	0	7676	971	34	2	1571	2	IL1RAP	3	190366294	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	15551303	190366294	7656136	60	66762											
WHSC1	7468	broad.mit.edu	37	chr4	1980505	1980505	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccggacgggcggtcctacTgctgtgagcatgacttaggg	6	8	15	12	3	0	2	0	2	0	0	1	3	1	3	3	4	3	2	3	4	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr4:1980505T>C	uc003gdz.3	+	22	4143	c.3967T>C	c.(3967-3969)TGC>CGC	p.C1323R	WHSC1_uc003geb.3_Missense_Mutation_p.C1323R|WHSC1_uc003gec.3_Missense_Mutation_p.C1323R|WHSC1_uc003ged.3_Missense_Mutation_p.C1323R|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gei.3_Missense_Mutation_p.C542R|WHSC1_uc011bvh.1_Missense_Mutation_p.C384R|WHSC1_uc010icf.2_Missense_Mutation_p.C671R	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	1323					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		GCGGTCCTACTGCTGTGAGCA	0.622			T	IGH@	MM								18	10					0	0	0.014323	0	0		C	1980505	C	C	1980505	3	2	121	1	0	0	0	0	1	0	0	0	17388	1580	55	3	4125	3	WHSC1	4	1980505	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08		1980505	189173771	61	66763											
CLRN2	645104	broad.mit.edu	37	chr4	17528460	17528460	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgtcgtggcgttagccAtcgccagcttcgtggctgcg	3	9	16	13	7	0	0	0	0	0	0	3	0	0	0	2	3	3	3	2	3	1	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr4:17528460A>G	uc003gpg.1	+	3	556	c.454A>G	c.(454-456)ATC>GTC	p.I152V		NM_001079827	NP_001073296	A0PK11	CLRN2_HUMAN	clarin 2	152	Helical; (Potential).					integral to membrane					0						GGCGTTAGCCATCGCCAGCTT	0.522													12	9					0	0	0.020292	0	0		G	17528460	G	G	17528460	3	3	121	1	0	0	0	0	1	0	0	0	3561	217	8	3	464	3	CLRN2	4	17528460	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	15547955	17528460	173625816	62	66764											
KLB	152831	broad.mit.edu	37	chr4	39439358	39439358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgtgcagcaataaggttaGatgaaatacgagtgtttggt	12	13	12	4	1	1	2	0	1	1	1	1	3	1	2	0	2	3	4	0	2	5	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr4:39439358G>A	uc003gua.2	+	3	1445	c.1348G>A	c.(1348-1350)GAT>AAT	p.D450N	KLB_uc011byj.1_Missense_Mutation_p.D450N	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	450	Extracellular (Potential).|Glycosyl hydrolase-1 1.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						AATAAGGTTAGATGAAATACG	0.418													33	55					0	0	0.017118	0	0		A	39439358	A	A	39439358	3	1	121	1	0	0	0	0	1	0	0	0	8348	942	33	4	1358	4	KLB	4	39439358	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	21910898	39439358	151714918	63	66765											
NPFFR2	10886	broad.mit.edu	37	chr4	73012916	73012916	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaaatcaggaaatgaggaAgatctacaccactgtgctgt	14	8	10	9	0	2	2	1	1	1	1	2	4	2	4	2	2	2	1	2	2	4	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr4:73012916A>G	uc003hgg.2	+	4	1054	c.956A>G	c.(955-957)AAG>AGG	p.K319R	NPFFR2_uc010iig.1_Missense_Mutation_p.K101R|NPFFR2_uc003hgi.2_Missense_Mutation_p.K220R|NPFFR2_uc003hgh.2_Missense_Mutation_p.K217R|NPFFR2_uc003hgj.2_RNA	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	319	Extracellular (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			GAAATGAGGAAGATCTACACC	0.473													28	35					0	0	0.00632	0	0		G	73012916	G	G	73012916	3	3	121	1	0	0	0	0	1	0	0	0	10597	72	3	3	976	3	NPFFR2	4	73012916	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	33573558	73012916	118141360	64	66766											
STBD1	8987	broad.mit.edu	37	chr4	77230709	77230709	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggtgcctaggcactcatcTtggggggatgttggtgtggg	5	12	18	6	0	2	0	1	0	1	0	2	1	2	1	1	7	1	2	1	7	1	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr4:77230709T>C	uc003hka.2	+	2	879	c.633T>C	c.(631-633)TCT>TCC	p.S211S	STBD1_uc003hjy.2_3'UTR|STBD1_uc011cbv.1_3'UTR|STBD1_uc011cbw.1_Silent_p.S62S	NM_003943	NP_003934	O95210	STBD1_HUMAN	starch binding domain 1	211	Cytoplasmic (Potential).				carbohydrate metabolic process|muscle contraction	integral to plasma membrane|membrane fraction	carbohydrate binding|catalytic activity|protein binding			ovary(1)	1			Lung(101;0.196)			GGCACTCATCTTGGGGGGATG	0.502													13	25					0	0	0.016723	0	0		C	77230709	C	C	77230709	2	2	121	1	0	0	0	0	0	0	0	1	15299	1596	56	3		3	STBD1	4	77230709	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	4217793	77230709	113923567	65	66767											
MTTP	4547	broad.mit.edu	37	chr4	100528022	100528022	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttccagaaggcatcccaAgtcttctgaagtatgcagaa	12	10	9	10	0	2	3	0	1	2	2	4	3	4	3	2	1	2	4	2	1	5	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr4:100528022A>G	uc003hvc.3	+	12	1718	c.1462A>G	c.(1462-1464)AGT>GGT	p.S488G	MTTP_uc011cej.1_Missense_Mutation_p.S515G	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	488	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	AGGCATCCCAAGTCTTCTGAA	0.478													14	24					0	0	0.020292	0	0		G	100528022	G	G	100528022	3	3	121	1	0	0	0	0	1	0	0	0	9982	72	3	3	1504	3	MTTP	4	100528022	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	23297313	100528022	90626254	66	66768											
H2AFZ	3015	broad.mit.edu	37	chr4	100870839	100870839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgcaagccggctctctgcGagcgggaaaccgcctttgtc	6	8	12	15	4	1	0	0	0	1	0	3	2	1	1	4	2	5	2	4	2	2	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr4:100870839G>A	uc003hvo.1	-	2	247	c.62C>T	c.(61-63)TCG>TTG	p.S21L	DNAJB14_uc003hvl.2_5'Flank|DNAJB14_uc010ili.2_5'Flank|DNAJB14_uc003hvm.2_5'Flank|H2AFZ_uc003hvn.1_Missense_Mutation_p.S21L|LOC256880_uc003hvp.1_5'Flank	NM_002106	NP_002097	P0C0S5	H2AZ_HUMAN	H2A histone family, member Z	21					nucleosome assembly	nucleosome|nucleus	DNA binding				0				OV - Ovarian serous cystadenocarcinoma(123;2.32e-08)		GGCTCTCTGCGAGCGGGAAAC	0.567													28	49					0	0	0.009535	0	0		A	100870839	A	A	100870839	3	1	121	1	0	0	0	0	1	0	0	0	6947	1059	37	1	340	1	H2AFZ	4	100870839	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	342817	100870839	90283437	67	66769											
NDST3	9348	broad.mit.edu	37	chr4	119158338	119158338	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaagattatcaccattcTcattgacccttcagaccgag	12	10	6	13	1	3	3	3	1	1	2	4	4	3	3	4	0	1	0	4	0	2	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr4:119158338T>G	uc003ibx.2	+	10	2484	c.2081T>G	c.(2080-2082)CTC>CGC	p.L694R	NDST3_uc011cgf.1_3'UTR	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	694	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						ATCACCATTCTCATTGACCCT	0.443													14	19					0	0	0.020292	0	0		G	119158338	G	G	119158338	3	3	121	1	0	0	0	0	1	0	0	0	10276	1551	54	5	2115	5	NDST3	4	119158338	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	18287499	119158338	71995938	68	66770											
PDGFC	56034	broad.mit.edu	37	chr4	157732094	157732094	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttagaaatctgttttccTggtacagtaccagaaccaca	12	12	6	11	0	1	2	0	0	1	2	2	2	2	2	4	1	3	3	4	1	5	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr4:157732094T>A	uc003iph.1	-	3	881	c.390A>T	c.(388-390)CCA>CCT	p.P130P	PDGFC_uc003ipi.1_5'UTR|PDGFC_uc011cis.1_5'UTR|PDGFC_uc011cir.1_Intron	NM_016205	NP_057289	Q9NRA1	PDGFC_HUMAN	platelet-derived growth factor C precursor	130	CUB.				central nervous system development|platelet-derived growth factor receptor signaling pathway|positive regulation of cell division|positive regulation of DNA replication|positive regulation of fibroblast proliferation|vascular endothelial growth factor receptor signaling pathway	endoplasmic reticulum lumen|extracellular space|Golgi membrane|nucleus	cell surface binding|growth factor activity|platelet-derived growth factor receptor binding|protein homodimerization activity			ovary(1)|lung(1)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.08)|Kidney(143;0.0977)|COAD - Colon adenocarcinoma(41;0.212)		TCTGTTTTCCTGGTACAGTAC	0.388													23	42					0	0	0.014323	0	0		A	157732094	A	A	157732094	2	1	121	1	0	0	0	0	0	0	0	1	11678	1567	55	5		5	PDGFC	4	157732094	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	38573756	157732094	33422182	69	66771											
VEGFC	7424	broad.mit.edu	37	chr4	177713384	177713384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactcgaaggcggcggcggCggcgggcgcctcgcgaggac	5	2	21	13	9	0	0	0	0	0	0	2	4	0	2	1	8	0	0	1	8	1	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr4:177713384C>T	uc003ius.1	-	1	512	c.82G>A	c.(82-84)GCC>ACC	p.A28T		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	28					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		gcggcggcggcggcgggcgcc	0.562													7	5					0	0	0.001984	0	0		T	177713384	T	T	177713384	3	4	121	1	0	0	0	0	1	0	0	0	17178	768	27	1	1208	1	VEGFC	4	177713384	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	19981290	177713384	13440892	70	66772											
AGA	175	broad.mit.edu	37	chr4	178363527	178363527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagttcgacttccgcgcCatccctgaccaccgaagaga	10	6	10	15	4	0	2	0	1	0	1	3	5	2	2	5	1	0	2	5	1	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr4:178363527C>T	uc003iuu.1	-	1	65	c.3G>A	c.(1-3)ATG>ATA	p.M1I	uc003iux.1_5'Flank|AGA_uc003iuv.1_5'Flank|AGA_uc003iuw.2_5'Flank	NM_000027	NP_000018	P20933	ASPG_HUMAN	aspartylglucosaminidase precursor	1					asparagine catabolic process via L-aspartate|protein deglycosylation|protein maturation	endoplasmic reticulum|intermediate filament cytoskeleton|lysosome|microtubule cytoskeleton	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0		all_lung(41;1.27e-09)|Lung NSC(41;1.1e-08)|Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Hepatocellular(41;0.148)|all_neural(102;0.164)|Colorectal(36;0.245)		all cancers(43;1.37e-22)|Epithelial(43;3.86e-20)|OV - Ovarian serous cystadenocarcinoma(60;3.8e-11)|Colorectal(24;6.98e-05)|GBM - Glioblastoma multiforme(59;0.000362)|COAD - Colon adenocarcinoma(29;0.000462)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0328)|READ - Rectum adenocarcinoma(43;0.163)		ACTTCCGCGCCATCCCTGACC	0.657													14	17					0	0	0.003163	0	0		T	178363527	T	T	178363527	3	4	121	1	0	0	0	0	1	0	0	0	365	594	21	4	1073	4	AGA	4	178363527	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	650143	178363527	12790749	71	66773											
CTNND2	1501	broad.mit.edu	37	chr5	11411757	11411757	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctcatcttcgatatctttTtgaccatctgaaatgaaata	13	15	5	8	1	4	3	1	3	3	0	5	4	4	3	1	0	1	1	1	0	4	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr5:11411757T>G	uc003jfa.1	-	5	475	c.330A>C	c.(328-330)CAA>CAC	p.Q110H	CTNND2_uc010itt.2_Missense_Mutation_p.Q19H|CTNND2_uc011cmy.1_Missense_Mutation_p.Q19H|CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	110					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						CGATATCTTTTTGACCATCTG	0.343													19	27					0	0	0.007413	0	0		G	11411757	G	G	11411757	3	3	121	1	0	0	0	0	1	0	0	0	4023	1838	64	5	3419	5	CTNND2	5	11411757	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08		11411757	169503503	72	66774											
FBXL7	23194	broad.mit.edu	37	chr5	15937126	15937126	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcaagcggctcagcctcaAgtcctgcgagagcatcaccg	9	6	10	16	3	4	1	4	0	0	1	5	2	5	1	4	1	4	2	4	1	2	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr5:15937126A>G	uc003jfn.1	+	4	1788	c.1307A>G	c.(1306-1308)AAG>AGG	p.K436R		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	436	LRR 10.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						CTCAGCCTCAAGTCCTGCGAG	0.592													22	12					0	0	0.010504	0	0		G	15937126	G	G	15937126	3	3	121	1	0	0	0	0	1	0	0	0	5738	72	3	3	1321	3	FBXL7	5	15937126	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	4525369	15937126	164978134	73	66775											
MYO10	4651	broad.mit.edu	37	chr5	16671582	16671582	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttggcacgttgtctgtGtccaggaagcagtaaagttt	8	15	11	7	1	2	0	0	0	2	0	3	1	3	1	1	2	1	5	1	2	3	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr5:16671582G>A	uc003jft.3	-	38	5847	c.5379C>T	c.(5377-5379)GAC>GAT	p.D1793D	MYO10_uc011cnb.1_Silent_p.D422D|MYO10_uc011cnc.1_Silent_p.D672D|MYO10_uc011cnd.1_Silent_p.D1150D|MYO10_uc011cne.1_Silent_p.D1150D|MYO10_uc010itx.2_Silent_p.D1415D	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1793	FERM.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CGTTGTCTGTGTCCAGGAAGC	0.463													14	31					0	0	0.016723	0	0		A	16671582	A	A	16671582	2	1	121	1	0	0	0	0	0	0	0	1	10080	1368	48	4		4	MYO10	5	16671582	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	734456	16671582	164243678	74	66776											
PARP8	79668	broad.mit.edu	37	chr5	50117139	50117139	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatccttctgtggtagatccTaatgatcctcagatgttggc	8	15	9	9	0	2	3	1	1	1	2	5	3	5	3	3	2	0	2	3	2	3	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr5:50117139T>C	uc003jon.3	+	17	1943	c.1761T>C	c.(1759-1761)CCT>CCC	p.P587P	PARP8_uc011cpz.1_Silent_p.P479P|PARP8_uc003joo.2_Silent_p.P587P|PARP8_uc003jop.2_Intron	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	587						intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				TGGTAGATCCTAATGATCCTC	0.393													27	8					0	0	0.009535	0	0		C	50117139	C	C	50117139	2	2	121	1	0	0	0	0	0	0	0	1	11484	1509	53	3		3	PARP8	5	50117139	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	33445557	50117139	130798121	75	66777											
APC	324	broad.mit.edu	37	chr5	112175951	112175952	+	Frame_Shift_Ins	INS	-	A	A																															aaaccaagagaaagaggcagINSaaaaaactattgattctgaa																										TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr5:112175951_112175952insA	uc010jby.2	+	16	5040_5041	c.4660_4661insA	c.(4660-4662)GAAfs	p.E1554fs	APC_uc011cvt.1_Frame_Shift_Ins_p.E1536fs|APC_uc003kpz.3_Frame_Shift_Ins_p.E1554fs|APC_uc003kpy.3_Frame_Shift_Ins_p.E1554fs|APC_uc010jbz.2_Frame_Shift_Ins_p.E1271fs|APC_uc010jca.2_Frame_Shift_Ins_p.E854fs	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1554	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.T1556fs*3(35)|p.E1554fs*5(2)|p.E1554*(2)|p.?(1)|p.T1556fs*9(1)|p.K1192fs*3(1)|p.?fs(1)|p.E1554fs*11(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		GAAAGAGGCAGAAAAAACTATT	0.342		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			43	21	---	---	---	---						.	A	112175952	A	A	112175951	7	5	121	1	0	1	1	0	0	0	0	0	763	943	33	0	4718	0	APC	5	112175951	Frame_Shift_Ins	INS	-	TCGA-CD-8535-01A-11D-2340-08	62058812	112175951	68739309	76	66778											
PCDHB3	56132	broad.mit.edu	37	chr5	140481367	140481367	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatctagactctggagacaaCggaagagtgatgtgttccat	12	10	12	7	1	2	4	0	1	2	3	3	7	3	5	1	2	1	1	1	2	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr5:140481367C>T	uc003lio.2	+	1	1134	c.1134C>T	c.(1132-1134)AAC>AAT	p.N378N	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	378	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGGAGACAACGGAAGAGTGA	0.473													20	37					0	0	0.012319	0	0		T	140481367	T	T	140481367	2	4	121	1	0	0	0	0	0	0	0	1	11562	535	19	1		1	PCDHB3	5	140481367	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	28305416	140481367	40433893	77	66779											
FCHSD1	89848	broad.mit.edu	37	chr5	141026260	141026260	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccactcttgccagccacGccttctgctccccactccag	6	8	7	20	1	2	0	0	0	2	0	4	0	4	0	7	1	3	1	7	1	0	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr5:141026260G>A	uc003llk.2	-	11	1005	c.954C>T	c.(952-954)GGC>GGT	p.G318G	FCHSD1_uc010jgg.2_5'UTR|FCHSD1_uc003llj.2_RNA	NM_033449	NP_258260	Q86WN1	FCSD1_HUMAN	FCH and double SH3 domains 1	318									FCHSD1/BRAF(2)	skin(2)|ovary(1)|central_nervous_system(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCCAGCCACGCCTTCTGCTC	0.602													9	13					0	0	0.008291	0	0		A	141026260	A	A	141026260	2	1	121	1	0	0	0	0	0	0	0	1	5803	1074	38	1		1	FCHSD1	5	141026260	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	544893	141026260	39889000	78	66780											
GABRA6	2559	broad.mit.edu	37	chr5	161113263	161113263	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgccctagggaaactcgaAgttgaaggcaacttctactc	13	9	9	10	1	1	1	0	1	1	0	3	3	1	2	1	2	4	2	1	2	7	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr5:161113263A>C	uc003lyu.2	+	2	404	c.66A>C	c.(64-66)GAA>GAC	p.E22D		NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	22	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GGAAACTCGAAGTTGAAGGCA	0.478										TCGA Ovarian(5;0.080)			24	40					0	0	0.016522	0	0		C	161113263	C	C	161113263	3	2	121	1	0	0	0	0	1	0	0	0	6179	69	3	5	72	5	GABRA6	5	161113263	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	20087003	161113263	19801997	79	66781											
ELOVL2	54898	broad.mit.edu	37	chr6	10995345	10995345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcgtttttttccgcaaaaCgaagaaaattgtgtccagga	13	12	8	8	3	0	1	0	0	0	1	3	3	2	2	2	1	1	2	2	1	5	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:10995345C>T	uc003mzp.3	-	5	561	c.400G>A	c.(400-402)GTT>ATT	p.V134I		NM_017770	NP_060240	Q9NXB9	ELOV2_HUMAN	elongation of very long chain fatty acids-like	134					fatty acid elongation, polyunsaturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding				0	Breast(50;0.0418)|Ovarian(93;0.0919)	all_hematologic(90;0.117)	Epithelial(50;0.176)			TTCCGCAAAACGAAGAAAATT	0.393													27	42					0	0	0.004656	0	0		T	10995345	T	T	10995345	3	4	121	1	0	0	0	0	1	0	0	0	5082	536	19	1	506	1	ELOVL2	6	10995345	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08		10995345	160119722	80	66782											
MYLIP	29116	broad.mit.edu	37	chr6	16143326	16143326	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagttttgcagattgtgtcGgcaatggaaaactatggcat	12	12	11	6	1	0	1	0	0	0	1	1	2	0	2	0	3	2	4	0	3	5	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:16143326G>A	uc003nbq.2	+	4	777	c.540G>A	c.(538-540)TCG>TCA	p.S180S	MYLIP_uc003nbr.2_5'UTR	NM_013262	NP_037394	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting	180	FERM.				cellular component movement|nervous system development	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)			AGATTGTGTCGGCAATGGAAA	0.478													20	33					0	0	0.007413	0	0		A	16143326	A	A	16143326	2	1	121	1	0	0	0	0	0	0	0	1	10073	1103	39	1		1	MYLIP	6	16143326	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	5147981	16143326	154971741	81	66783											
SLC17A1	6568	broad.mit.edu	37	chr6	25820066	25820066	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaagtatccaacaggaacTtggatgatgatgacaccata	16	8	10	7	0	0	4	0	3	0	1	1	7	1	6	2	2	2	1	2	2	5	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:25820066T>C	uc003nfh.3	-	4	401	c.285A>G	c.(283-285)CAA>CAG	p.Q95Q	SLC17A1_uc011djy.1_RNA|SLC17A1_uc010jqb.1_Silent_p.Q93Q|SLC17A1_uc010jqc.1_Silent_p.Q93Q	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),	95	Helical; (Potential).				sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						CAACAGGAACTTGGATGATGA	0.438													34	42					0	0	0.021022	0	0		C	25820066	C	C	25820066	2	2	121	1	0	0	0	0	0	0	0	1	14441	1606	56	3		3	SLC17A1	6	25820066	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	9676740	25820066	145295001	82	66784											
SLC17A3	10786	broad.mit.edu	37	chr6	25850086	25850086	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgactgacacaatgtgctTaatccgcaagagagcgtcag	12	8	10	11	2	1	3	1	2	0	1	2	4	2	3	2	0	2	2	2	0	3	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:25850086T>A	uc003nfi.3	-	9	1094	c.984A>T	c.(982-984)TTA>TTT	p.L328F	SLC17A3_uc003nfk.3_Missense_Mutation_p.L406F	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	328	Helical; (Potential).				glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						ACAATGTGCTTAATCCGCAAG	0.433													27	34					0	0	0.004656	0	0		A	25850086	A	A	25850086	3	1	121	1	0	0	0	0	1	0	0	0	14443	1751	61	5	290	5	SLC17A3	6	25850086	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	30020	25850086	145264981	83	66785											
VARS2	57176	broad.mit.edu	37	chr6	30890003	30890003	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggacccagctcacagggcaGctgcccttcagcaaggtaag	10	5	13	13	0	2	0	2	0	0	0	2	1	2	1	2	3	4	5	2	3	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:30890003G>A	uc003nsc.1	+	19	2549	c.1917G>A	c.(1915-1917)CAG>CAA	p.Q639Q	VARS2_uc011dmx.1_Silent_p.Q639Q|VARS2_uc011dmy.1_Silent_p.Q499Q|VARS2_uc011dmz.1_Silent_p.Q669Q|VARS2_uc011dna.1_Silent_p.Q637Q|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_Missense_Mutation_p.A55T|VARS2_uc010jsg.1_Silent_p.Q11Q|VARS2_uc010jsh.1_5'Flank	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	639					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						TCACAGGGCAGCTGCCCTTCA	0.577													26	27					0	0	0.021523	0	0		A	30890003	A	A	30890003	2	1	121	1	0	0	0	0	0	0	0	1	17150	962	34	2		2	VARS2	6	30890003	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	5039917	30890003	140225064	84	66786											
SLC26A8	116369	broad.mit.edu	37	chr6	35965625	35965625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgacgaaagatcccatgaCcagttgaccgttgttgaatg	11	11	10	9	2	0	5	0	4	0	1	1	6	1	5	3	0	0	3	3	0	2	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:35965625C>T	uc003olm.2	-	5	628	c.517G>A	c.(517-519)GTC>ATC	p.V173I	SLC26A8_uc003oln.2_Missense_Mutation_p.V173I|SLC26A8_uc003oll.2_Missense_Mutation_p.V173I	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	173	Extracellular (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						GATCCCATGACCAGTTGACCG	0.473													23	38					0	0	0.014323	0	0		T	35965625	T	T	35965625	3	4	121	1	0	0	0	0	1	0	0	0	14548	507	18	4	2459	4	SLC26A8	6	35965625	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	5075622	35965625	135149442	85	66787											
PKHD1	5314	broad.mit.edu	37	chr6	51484093	51484093	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtatctgagcaactgcTcttggccctccttccagttc	5	13	9	14	0	2	1	0	1	2	0	5	1	4	1	3	2	3	5	3	2	2	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:51484093T>C	uc003pah.1	-	67	12287	c.12011A>G	c.(12010-12012)GAG>GGG	p.E4004G		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	4004	Cytoplasmic (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GAGCAACTGCTCTTGGCCCTC	0.572													28	28					0	0	0.005443	0	0		C	51484093	C	C	51484093	3	2	121	1	0	0	0	0	1	0	0	0	11990	1551	54	3	217	3	PKHD1	6	51484093	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	15518468	51484093	119630974	86	66788											
MANEA	79694	broad.mit.edu	37	chr6	96054138	96054138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcagattgaaaaagctgttCccaaaagaaccagtaataca	18	8	6	9	0	1	3	1	1	0	2	2	3	2	3	2	0	3	3	2	0	7	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:96054138C>T	uc003poo.1	+	5	1386	c.1246C>T	c.(1246-1248)CCC>TCC	p.P416S		NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	416	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		AAAAGCTGTTCCCAAAAGAAC	0.423													19	31					0	0	0.007413	0	0		T	96054138	T	T	96054138	3	4	121	1	0	0	0	0	1	0	0	0	9239	855	30	4	1260	4	MANEA	6	96054138	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	44570045	96054138	75060929	87	66789											
C6orf167	253714	broad.mit.edu	37	chr6	97629852	97629852	+	Missense_Mutation	SNP	T	A	A																															tatcatcccaaccaaaaagtTgaataattgatataactggc																										TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:97629852T>A	uc003ppb.2	-	16	2578	c.2312A>T	c.(2311-2313)CAA>CTA	p.Q771L	C6orf167_uc011eaf.1_Missense_Mutation_p.Q731L	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	771					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		ACCAAAAAGTTGAATAATTGA	0.378													44	64					0	0	0.01441	0	0		A	97629852	A	A	97629852	3	1	121	1	0	0	0	0	1	0	0	0	2345	1812	63	5	1459	5	C6orf167	6	97629852	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	1575714	97629852	73485215	88	66790	124	2									
C6orf167	253714	broad.mit.edu	37	chr6	97629859	97629859	+	Missense_Mutation	SNP	T	G	G																															ccaaccaaaaagttgaataaTtgatataactggctgaggct																										TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:97629859T>G	uc003ppb.2	-	16	2571	c.2305A>C	c.(2305-2307)ATT>CTT	p.I769L	C6orf167_uc011eaf.1_Missense_Mutation_p.I729L	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	769					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		AGTTGAATAATTGATATAACT	0.373													50	65					0	0	0.01441	0	0		G	97629859	G	G	97629859	3	3	121	1	0	0	0	0	1	0	0	0	2345	1493	52	5	1466	5	C6orf167	6	97629859	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	7	97629859	73485208	89	66791	124	2									
RFPL4B	442247	broad.mit.edu	37	chr6	112671377	112671377	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttgaagtgggagaggtgaAgtcatggtccctgggcgtct	7	10	18	6	1	2	3	1	2	1	1	3	4	3	3	1	5	0	1	1	5	2	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:112671377A>C	uc003pvx.1	+	3	779	c.467A>C	c.(466-468)AAG>ACG	p.K156T		NM_001013734	NP_001013756	Q6ZWI9	RFPLB_HUMAN	ret finger protein-like 4B	156	B30.2/SPRY.						zinc ion binding				0		all_cancers(87;9.44e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00265)|Colorectal(196;0.0209)		all cancers(137;0.0202)|OV - Ovarian serous cystadenocarcinoma(136;0.0477)|Epithelial(106;0.0646)|GBM - Glioblastoma multiforme(226;0.0866)|BRCA - Breast invasive adenocarcinoma(108;0.244)		GGAGAGGTGAAGTCATGGTCC	0.552													18	31					0	0	0.00499	0	0		C	112671377	C	C	112671377	3	2	121	1	0	0	0	0	1	0	0	0	13281	72	3	5	469	5	RFPL4B	6	112671377	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	15041518	112671377	58443690	90	66792											
ROS1	6098	broad.mit.edu	37	chr6	117710930	117710930	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgcaactctccacaatacGcacagcttctgcacaccggc	10	7	7	17	3	2	0	0	0	2	0	3	0	2	0	2	1	5	4	2	1	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:117710930G>C	uc003pxp.1	-	12	1541	c.1342C>G	c.(1342-1344)CGT>GGT	p.R448G	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	448	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TCCACAATACGCACAGCTTCT	0.448			T	GOPC|ROS1	glioblastoma|NSCLC								17	29					0	0	0.007413	0	0		C	117710930	C	C	117710930	3	2	121	1	0	0	0	0	1	0	0	0	13556	1087	38	5	5829	5	ROS1	6	117710930	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	5039553	117710930	53404137	91	66793											
MYB	4602	broad.mit.edu	37	chr6	135539112	135539112	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcagcccggacgctggtCatgtgagacatttccagaaa	10	10	10	11	2	2	2	2	1	1	2	4	4	3	3	2	2	1	1	2	2	1	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:135539112C>A	uc003qfc.2	+	15	2116	c.1917C>A	c.(1915-1917)GTC>GTA	p.V639V	MYB_uc003qfh.2_Silent_p.V760V|MYB_uc003qfi.2_Silent_p.V744V|MYB_uc010kgi.2_Silent_p.V602V|MYB_uc003qfq.2_Silent_p.V757V|MYB_uc010kgj.2_Silent_p.V604V|MYB_uc003qfo.2_Silent_p.V554V|MYB_uc003qfu.2_Silent_p.V636V|MYB_uc003qfl.2_RNA|MYB_uc003qfv.2_RNA|MYB_uc003qfz.2_RNA|MYB_uc003qfx.2_RNA|MYB_uc003qga.2_RNA|MYB_uc003qgb.2_RNA|MYB_uc010kgk.2_RNA|MYB_uc003qfd.2_RNA|MYB_uc003qfe.2_RNA|MYB_uc003qfg.2_RNA|MYB_uc003qff.2_RNA|MYB_uc003qfj.2_RNA|MYB_uc003qfm.2_RNA|MYB_uc003qfp.2_RNA|MYB_uc003qfn.2_RNA|MYB_uc003qfk.2_RNA|MYB_uc003qfr.2_RNA|MYB_uc003qfs.2_Silent_p.V265V|MYB_uc003qft.2_RNA|MYB_uc003qfw.2_Silent_p.V451V|MYB_uc003qfy.2_RNA|MYB_uc003qgc.2_RNA	NM_005375	NP_005366	P10242	MYB_HUMAN	v-myb myeloblastosis viral oncogene homolog	639					blood coagulation|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone H3-K4 methylation|positive regulation of histone H3-K9 methylation|positive regulation of T-helper cell differentiation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear matrix	DNA binding|protein binding			lung(1)	1	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)		GGACGCTGGTCATGTGAGACA	0.438			T	NFIB	adenoid cystic carcinoma								20	24					5.35267e-07	5.49647e-07	0.007413	1	0		A	135539112	A	A	135539112	2	1	121	1	0	0	0	0	0	0	0	1	10025	813	29	5		5	MYB	6	135539112	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	17828182	135539112	35575955	92	66794											
KATNA1	11104	broad.mit.edu	37	chr6	149916259	149916259	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaaccttttttaaagccatCtcgaaatcctccatagttgt	12	14	5	10	1	1	0	0	0	1	0	4	2	3	0	4	0	2	1	4	0	5	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:149916259C>T	uc003qmr.1	-	10	1434	c.1389G>A	c.(1387-1389)GAG>GAA	p.E463E	KATNA1_uc003qms.2_Silent_p.E463E|KATNA1_uc003qmt.2_3'UTR	NM_007044	NP_008975	O75449	KTNA1_HUMAN	katanin p60 subunit A 1	463					cell division|interphase of mitotic cell cycle|mitosis	microtubule|microtubule organizing center|spindle pole	ATP binding|microtubule binding|microtubule-severing ATPase activity|protein heterodimerization activity			skin(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;2.95e-12)|GBM - Glioblastoma multiforme(68;0.173)		TTAAAGCCATCTCGAAATCCT	0.393													18	26					0	0	0.00499	0	0		T	149916259	T	T	149916259	2	4	121	1	0	0	0	0	0	0	0	1	8000	912	32	4		4	KATNA1	6	149916259	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	14377147	149916259	21198808	93	66795											
SYNE1	23345	broad.mit.edu	37	chr6	152751256	152751256	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catactcttaccatatgttcTtgaagaactttgtatgtttc	10	18	5	8	0	2	2	0	1	2	1	3	2	2	2	1	0	3	3	1	0	6	8			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:152751256T>A	uc010kiw.2	-	36	5381	c.4779A>T	c.(4777-4779)CAA>CAT	p.Q1593H	SYNE1_uc003qot.3_Missense_Mutation_p.Q1600H|SYNE1_uc003qou.3_Missense_Mutation_p.Q1593H|SYNE1_uc010kjb.1_Missense_Mutation_p.Q1576H|SYNE1_uc003qow.2_Missense_Mutation_p.Q888H	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1593	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CCATATGTTCTTGAAGAACTT	0.294										HNSCC(10;0.0054)			7	6					0	0	0.001984	0	0		A	152751256	A	A	152751256	3	1	121	1	0	0	0	0	1	0	0	0	15470	1606	56	5	22131	5	SYNE1	6	152751256	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	2834997	152751256	18363811	94	66796											
TIAM2	26230	broad.mit.edu	37	chr6	155465823	155465823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtgtgctctgtttgcagaaGacagcatagtgcagtctgtt	8	13	13	7	0	2	2	0	0	2	2	2	2	2	2	0	1	4	6	0	1	2	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:155465823G>A	uc003qqb.2	+	8	2987	c.1714G>A	c.(1714-1716)GAC>AAC	p.D572N	TIAM2_uc003qqe.2_Missense_Mutation_p.D572N|TIAM2_uc010kjj.2_Missense_Mutation_p.D105N	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	572	PH 1.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		GTTTGCAGAAGACAGCATAGT	0.488													28	30					0	0	0.005443	0	0		A	155465823	A	A	155465823	3	1	121	1	0	0	0	0	1	0	0	0	15916	942	33	4	1724	4	TIAM2	6	155465823	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	2714567	155465823	15649244	95	66797											
TIAM2	26230	broad.mit.edu	37	chr6	155485683	155485683	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgccagccgcccctccaaGctggccctcggcaggctggg	4	4	14	19	3	0	0	0	0	0	0	2	0	1	0	7	4	2	3	7	4	1	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:155485683G>A	uc003qqb.2	+	10	3436	c.2163G>A	c.(2161-2163)AAG>AAA	p.K721K	TIAM2_uc003qqe.2_Silent_p.K721K|TIAM2_uc010kjj.2_Silent_p.K254K|TIAM2_uc003qqf.2_Silent_p.K73K|TIAM2_uc011efl.1_Silent_p.K33K|TIAM2_uc003qqg.2_Silent_p.K33K	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	721					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		GCCCCTCCAAGCTGGCCCTCG	0.592													35	49					0	0	0.013726	0	0		A	155485683	A	A	155485683	2	1	121	1	0	0	0	0	0	0	0	1	15916	962	34	2		2	TIAM2	6	155485683	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	19860	155485683	15629384	96	66798											
PNLDC1	154197	broad.mit.edu	37	chr6	160225002	160225002	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgttttattataggtataTagcccattcttgtaacttct	9	21	5	6	0	2	0	0	0	2	0	2	0	2	0	1	1	2	3	1	1	7	12			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr6:160225002T>G	uc003qsx.1	+	5	392	c.221T>G	c.(220-222)ATA>AGA	p.I74R	PNLDC1_uc003qsy.1_Missense_Mutation_p.I85R	NM_173516	NP_775787	Q8NA58	PNDC1_HUMAN	poly(A)-specific ribonuclease (PARN)-like domain	74	Cytoplasmic (Potential).					integral to membrane|nucleus	nucleic acid binding				0		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;1.55e-18)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		TATAGGTATATAGCCCATTCT	0.408													36	63					0	0	0.015359	0	0		G	160225002	G	G	160225002	3	3	121	1	0	0	0	0	1	0	0	0	12167	1406	49	5	235	5	PNLDC1	6	160225002	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	4739319	160225002	10890065	97	66799											
VPS41	27072	broad.mit.edu	37	chr7	38783011	38783011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttatgcttacgtggtttgtCaatggaatataaaatcaaat	14	16	7	4	1	2	0	2	0	0	0	2	1	2	1	0	2	2	2	0	2	8	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:38783011C>T	uc003tgy.2	-	24	2139	c.2113G>A	c.(2113-2115)GAC>AAC	p.D705N	VPS41_uc003tgz.2_Missense_Mutation_p.D680N|VPS41_uc010kxn.2_Missense_Mutation_p.D616N|VPS41_uc003tgx.2_RNA	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	705	Clathrin.				Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						CGTGGTTTGTCAATGGAATAT	0.343													28	66					0	0	0.005443	0	0		T	38783011	T	T	38783011	3	4	121	1	0	0	0	0	1	0	0	0	17236	826	29	4	475	4	VPS41	7	38783011	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08		38783011	120355652	98	66800											
MLXIPL	51085	broad.mit.edu	37	chr7	73008307	73008307	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctggcgtagggagttcAggacagctgggtgggagaca	9	6	18	8	1	1	1	1	0	0	1	1	4	1	3	1	5	2	4	1	5	1	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:73008307A>C	uc003tyn.1	-	17	2495	c.2447T>G	c.(2446-2448)CTG>CGG	p.L816R	MLXIPL_uc003tyj.1_Missense_Mutation_p.L195R|MLXIPL_uc003tyk.1_Missense_Mutation_p.L795R|MLXIPL_uc003tyl.1_Missense_Mutation_p.L814R|MLXIPL_uc003tym.1_Missense_Mutation_p.L797R|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_3'UTR	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	816					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				TAGGGAGTTCAGGACAGCTGG	0.607													20	28					0	0	0.012319	0	0		C	73008307	C	C	73008307	3	2	121	1	0	0	0	0	1	0	0	0	9655	188	7	5	115	5	MLXIPL	7	73008307	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	34225296	73008307	86130356	99	66801											
MAGI2	9863	broad.mit.edu	37	chr7	78636484	78636484	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaacccttttgaaatcgtaAgttgaggtagtgacgaaggt	13	11	12	5	2	0	4	0	3	0	1	1	5	0	4	1	2	1	3	1	2	5	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:78636484A>C	uc003ugx.2	-	2	594	c.340T>G	c.(340-342)TTA>GTA	p.L114V	MAGI2_uc003ugy.2_Missense_Mutation_p.L114V	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	114	Guanylate kinase-like.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TGAAATCGTAAGTTGAGGTAG	0.388													34	48					0	0	0.013726	0	0		C	78636484	C	C	78636484	3	2	121	1	0	0	0	0	1	0	0	0	9209	69	3	5	4111	5	MAGI2	7	78636484	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	5628177	78636484	80502179	100	66802											
CACNA2D1	781	broad.mit.edu	37	chr7	81746398	81746398	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggaatatggactgctgcgTgctgataagatatttgtcgt	10	14	12	5	2	0	2	0	1	0	1	1	4	0	4	0	2	3	2	0	2	5	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:81746398T>C	uc003uhr.1	-	6	744	c.488A>G	c.(487-489)CAC>CGC	p.H163R		NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	163	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	GACTGCTGCGTGCTGATAAGA	0.408													48	76					0	0	0.01441	0	0		C	81746398	C	C	81746398	3	2	121	1	0	0	0	0	1	0	0	0	2551	1696	59	3	2923	3	CACNA2D1	7	81746398	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	3109914	81746398	77392265	101	66803											
PCLO	27445	broad.mit.edu	37	chr7	82545288	82545288	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaagtctaaactattgtacTtactaccaagatgggaaaca	16	11	6	8	0	2	1	1	0	1	1	2	2	2	2	1	1	5	1	1	1	9	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:82545288T>G	uc003uhx.2	-	7	12303	c.12014A>C	c.(12013-12015)AAG>ACG	p.K4005T	PCLO_uc003uhv.2_Missense_Mutation_p.K4005T|PCLO_uc010lec.2_Missense_Mutation_p.K970T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3936					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ACTATTGTACTTACTACCAAG	0.393													205	231					0	0	0.01441	0	0		G	82545288	G	G	82545288	3	3	121	1	0	0	0	0	1	0	0	0	11602	1609	56	5	3507	5	PCLO	7	82545288	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	798890	82545288	76593375	102	66804											
ABCB1	5243	broad.mit.edu	37	chr7	87148690	87148690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tatgtgccaccaagtaggctCcaaaccggaaacatccagca	14	6	8	13	1	0	0	0	0	0	0	2	1	2	1	5	2	4	3	5	2	5	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:87148690C>T	uc003uiz.1	-	24	3297	c.2879G>A	c.(2878-2880)GGA>GAA	p.G960E	ABCB1_uc011khc.1_Missense_Mutation_p.G896E	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	960	ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	CAAGTAGGCTCCAAACCGGAA	0.313													26	56					0	0	0.01892	0	0		T	87148690	T	T	87148690	3	4	121	1	0	0	0	0	1	0	0	0	40	855	30	4	987	4	ABCB1	7	87148690	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	4603402	87148690	71989973	103	66805											
CCDC132	55610	broad.mit.edu	37	chr7	92983058	92983058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtatacgattggctaatcGaactattgtagaagggtaag	13	13	11	4	2	0	1	0	0	0	1	1	3	0	1	0	2	2	4	0	2	8	9			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:92983058G>A	uc003umo.2	+	26	2698	c.2570G>A	c.(2569-2571)CGA>CAA	p.R857Q	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.R827Q|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Missense_Mutation_p.R577Q	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	857											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			TTGGCTAATCGAACTATTGTA	0.338													28	153					0	0	0.004656	0	0		A	92983058	A	A	92983058	3	1	121	1	0	0	0	0	1	0	0	0	2770	1058	37	1	2714	1	CCDC132	7	92983058	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	5834368	92983058	66155605	104	66806											
MUC17	140453	broad.mit.edu	37	chr7	100674400	100674400	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actcccctttgtctctttcaGacctcagtgtgaacagggct	7	13	8	13	0	3	2	2	1	1	1	5	2	4	2	3	1	1	1	3	1	1	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:100674400G>C	uc003uxp.1	+	2	136	c.83_splice	c.e2-1	p.D28_splice	MUC17_uc010lho.1_Splice_Site	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor							extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GTCTCTTTCAGACCTCAGTGT	0.547													55	58					0	0	0.01441	0	0		C	100674400	C	C	100674400	5	2	121	1	0	0	0	0	0	0	1	0	9992	956	33	5	88	5	MUC17	7	100674400	Splice_Site	SNP	G	TCGA-CD-8535-01A-11D-2340-08	7691342	100674400	58464263	105	66807			1	30		3	3	1470	G		9.964347e-05
MUC17	140453	broad.mit.edu	37	chr7	100675338	100675338	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaatcaactaacagtgaagGaagcactccattaacaagta	19	7	6	9	0	1	1	1	1	0	0	2	2	2	2	1	1	4	2	1	1	8	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:100675338G>T	uc003uxp.1	+	3	694	c.641G>T	c.(640-642)GGA>GTA	p.G214V	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	214	Extracellular (Potential).|1.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AACAGTGAAGGAAGCACTCCA	0.473													136	105					8.39346e-61	9.10836e-61	0.01441	1	0		T	100675338	T	T	100675338	3	4	121	1	0	0	0	0	1	0	0	0	9992	1174	41	5	651	5	MUC17	7	100675338	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	938	100675338	58463325	106	66808			1	30		3	3	1470	G		9.964347e-05
MUC17	140453	broad.mit.edu	37	chr7	100675869	100675869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aacctcaactcttagtgaagGaagcactccattaacaaata	17	9	5	10	0	2	1	1	1	1	0	3	2	3	2	2	1	4	1	2	1	8	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:100675869G>A	uc003uxp.1	+	3	1225	c.1172G>A	c.(1171-1173)GGA>GAA	p.G391E	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	391	Extracellular (Potential).|59 X approximate tandem repeats.|4.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CTTAGTGAAGGAAGCACTCCA	0.463													177	145					0	0	0.01441	0	0		A	100675869	A	A	100675869	3	1	121	1	0	0	0	0	1	0	0	0	9992	1174	41	4	1182	4	MUC17	7	100675869	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	531	100675869	58462794	107	66809			1	30		3	3	1470	G		9.964347e-05
PIK3CG	5294	broad.mit.edu	37	chr7	106508581	106508581	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggaggtggccagccgcgAccccaagctctacgccatgc	7	4	14	16	4	1	0	0	0	1	0	1	2	1	1	5	4	4	1	5	4	2	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:106508581A>G	uc003vdv.3	+	2	660	c.575A>G	c.(574-576)GAC>GGC	p.D192G	PIK3CG_uc003vdu.2_Missense_Mutation_p.D192G|PIK3CG_uc003vdw.2_Missense_Mutation_p.D192G	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	192					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						GCCAGCCGCGACCCCAAGCTC	0.617													22	34					0	0	0.014323	0	0		G	106508581	G	G	106508581	3	3	121	1	0	0	0	0	1	0	0	0	11935	275	10	3	577	3	PIK3CG	7	106508581	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	5832712	106508581	52630082	108	66810											
PIK3CG	5294	broad.mit.edu	37	chr7	106508825	106508825	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaggattttgtgctgcgCgtctgtggccgggatgagta	7	11	16	7	3	1	1	0	1	1	0	1	4	1	3	1	3	3	2	1	3	2	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:106508825C>T	uc003vdv.3	+	2	904	c.819C>T	c.(817-819)CGC>CGT	p.R273R	PIK3CG_uc003vdu.2_Silent_p.R273R|PIK3CG_uc003vdw.2_Silent_p.R273R	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	273					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						TTGTGCTGCGCGTCTGTGGCC	0.547													16	43					0	0	0.004007	0	0		T	106508825	T	T	106508825	2	4	121	1	0	0	0	0	0	0	0	1	11935	755	27	1		1	PIK3CG	7	106508825	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	244	106508825	52629838	109	66811											
GPR37	2861	broad.mit.edu	37	chr7	124404054	124404054	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagtcctccagcagccacTtcttggtcagctcgtggaag	9	9	11	12	1	2	1	1	0	1	1	5	2	4	2	3	2	3	2	3	2	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:124404054T>C	uc003vli.2	-	1	1628	c.977A>G	c.(976-978)AAG>AGG	p.K326R		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	326	Extracellular (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CAGCAGCCACTTCTTGGTCAG	0.522													38	131					0	0	0.023175	0	0		C	124404054	C	C	124404054	3	2	121	1	0	0	0	0	1	0	0	0	6706	1609	56	3	872	3	GPR37	7	124404054	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	17895229	124404054	34734609	110	66812											
GRM8	2918	broad.mit.edu	37	chr7	126409924	126409924	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgttgtaacttaccattaAaatttacagcccgaatataa	16	12	4	9	2	0	0	0	0	0	0	0	1	0	0	2	0	4	2	2	0	8	8			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:126409924A>C	uc003vlr.2	-	6	1663	c.1352T>G	c.(1351-1353)TTT>TGT	p.F451C	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.F451C|GRM8_uc010lkz.1_RNA|GRM8_uc003vlu.1_Missense_Mutation_p.F172C	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	451	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	CTTACCATTAAAATTTACAGC	0.398										HNSCC(24;0.065)			18	45					0	0	0.006122	0	0		C	126409924	C	C	126409924	3	2	121	1	0	0	0	0	1	0	0	0	6819	14	1	5	1444	5	GRM8	7	126409924	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	2005870	126409924	32728739	111	66813											
PLXNA4	91584	broad.mit.edu	37	chr7	131859619	131859619	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctatagtccaggaacggaAtcccggctccatccaggtca	10	9	9	13	2	2	0	1	0	1	0	6	2	6	2	4	4	1	1	4	4	4	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:131859619A>C	uc003vra.3	-	21	4164	c.3935T>G	c.(3934-3936)ATT>AGT	p.I1312S		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1312	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CAGGAACGGAATCCCGGCTCC	0.577													26	47					0	0	0.021523	0	0		C	131859619	C	C	131859619	3	2	121	1	0	0	0	0	1	0	0	0	12141	101	4	5	1797	5	PLXNA4	7	131859619	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	5449695	131859619	27279044	112	66814											
LRGUK	136332	broad.mit.edu	37	chr7	133948719	133948719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctccaatccctcagggcCgcaggtagactagcacttga	9	8	9	15	1	1	2	1	1	0	1	4	2	4	2	4	2	1	3	4	2	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:133948719C>T	uc003vrm.1	+	20	2486	c.2470C>T	c.(2470-2472)CGC>TGC	p.R824C		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	824							ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						CCCTCAGGGCCGCAGGTAGAC	0.527													17	19					0	0	0.010504	0	0		T	133948719	T	T	133948719	3	4	121	1	0	0	0	0	1	0	0	0	8961	652	23	1	2548	1	LRGUK	7	133948719	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	2089100	133948719	25189944	113	66815											
JHDM1D	80853	broad.mit.edu	37	chr7	139791694	139791694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaggaagtttcaccaactgGcctttctgggcttagactgc	9	11	11	10	0	2	1	1	0	1	1	2	3	2	2	2	3	2	2	2	3	4	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr7:139791694G>A	uc003vvm.2	-	19	2645	c.2641C>T	c.(2641-2643)CCA>TCA	p.P881S	JHDM1D_uc010lng.2_RNA	NM_030647	NP_085150	Q6ZMT4	KDM7_HUMAN	jumonji C domain containing histone demethylase	881					midbrain development|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1	Melanoma(164;0.0142)					TCACCAACTGGCCTTTCTGGG	0.507													72	21					0	0	0.01441	0	0		A	139791694	A	A	139791694	3	1	121	1	0	0	0	0	1	0	0	0	7964	1203	42	2	192	2	JHDM1D	7	139791694	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	5842975	139791694	19346969	114	66816											
SOX7	83595	broad.mit.edu	37	chr8	10683705	10683705	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacggtttttggagattttGgacttttcctcaaggctaaa	10	15	9	7	1	1	1	1	0	0	1	2	3	2	2	1	4	0	2	1	4	3	7			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:10683705G>A	uc011kwz.1	-	5	384	c.351C>T	c.(349-351)TCC>TCT	p.S117S	PINX1_uc003wth.2_Silent_p.S117S|PINX1_uc003wti.2_Silent_p.S117S|MIR1322_hsa-mir-1322|MI0006653_5'Flank	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding	p.R117C(1)		breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		TGGAGATTTTGGACTTTTCCT	0.313													3	11					0	0	0.004672	0	0		A	10683705	A	A	10683705	2	1	121	1	0	0	0	0	0	0	0	1	14981	1335	47	4		4	SOX7	8	10683705	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08		10683705	135680317	115	66817											
ANK1	286	broad.mit.edu	37	chr8	41552795	41552795	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgctcctcagaaccacgagCtcgcggtctccacggccatg	7	7	10	17	5	2	1	1	0	1	1	6	2	3	1	4	2	2	2	4	2	1	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:41552795C>T	uc003xok.2	-	27	3099	c.3015G>A	c.(3013-3015)GAG>GAA	p.E1005E	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Silent_p.E321E|ANK1_uc003xoi.2_Silent_p.E1005E|ANK1_uc003xoj.2_Silent_p.E1005E|ANK1_uc003xol.2_Silent_p.E1005E|ANK1_uc003xom.2_Silent_p.E1046E	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1005	ZU5.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			GAACCACGAGCTCGCGGTCTC	0.597													49	44					0	0	0.01441	0	0		T	41552795	T	T	41552795	2	4	121	1	0	0	0	0	0	0	0	1	620	796	28	2		2	ANK1	8	41552795	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	30869090	41552795	104811227	116	66818											
PRKDC	5591	broad.mit.edu	37	chr8	48733370	48733370	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagactcagctcttgactGtaatgaagctctagaatcgc	12	10	9	10	1	3	4	1	2	2	2	4	4	3	4	0	0	3	4	0	0	4	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:48733370G>A	uc003xqi.2	-	67	9303	c.9246C>T	c.(9244-9246)TAC>TAT	p.Y3082Y	PRKDC_uc003xqj.2_Silent_p.Y3082Y|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3082	KIP-binding.|FAT.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				GCTCTTGACTGTAATGAAGCT	0.453								NHEJ					8	29					0	0	0.00308	0	0		A	48733370	A	A	48733370	2	1	121	1	0	0	0	0	0	0	0	1	12543	1372	48	4		4	PRKDC	8	48733370	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	7180575	48733370	97630652	117	66819											
PCMTD1	115294	broad.mit.edu	37	chr8	52733168	52733168	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctttcttttccttttgggtgGagccctttgaggaatcccct	4	17	9	11	0	1	1	0	1	1	0	3	3	3	3	4	3	1	0	4	3	1	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:52733168G>T	uc003xqx.3	-	6	1158	c.817C>A	c.(817-819)CCA>ACA	p.P273T	PCMTD1_uc011ldm.1_Missense_Mutation_p.P143T|PCMTD1_uc003xqw.3_Missense_Mutation_p.P273T|PCMTD1_uc011ldn.1_Missense_Mutation_p.P85T|PCMTD1_uc010lya.2_Missense_Mutation_p.P197T	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	273						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				CTTTTGGGTGGAGCCCTTTGA	0.393													11	194					9.7654e-05	9.88029e-05	0.007413	1	0		T	52733168	T	T	52733168	3	4	121	1	0	0	0	0	1	0	0	0	11605	1174	41	5	260	5	PCMTD1	8	52733168	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	3999798	52733168	93630854	118	66820											
CYP7B1	9420	broad.mit.edu	37	chr8	65527645	65527645	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggaaatccagaccctttcTtttgacctgttgactgcagc	8	13	9	11	0	1	3	0	2	1	1	2	4	2	4	3	1	2	2	3	1	1	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:65527645T>G	uc003xvj.2	-	4	1199	c.995A>C	c.(994-996)AAG>ACG	p.K332T		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	332					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				AGACCCTTTCTTTTGACCTGT	0.443													13	72					0	0	0.016723	0	0		G	65527645	G	G	65527645	3	3	121	1	0	0	0	0	1	0	0	0	4200	1609	56	5	537	5	CYP7B1	8	65527645	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	12794477	65527645	80836377	119	66821											
EYA1	2138	broad.mit.edu	37	chr8	72184108	72184108	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatctttaatgggtgttGatgggctgtggattgtgctg	6	16	15	4	0	1	2	0	2	1	0	1	3	1	3	0	3	1	3	0	3	2	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:72184108G>T	uc003xys.3	-	9	1138	c.851C>A	c.(850-852)TCA>TAA	p.S284*	EYA1_uc003xyr.3_Nonsense_Mutation_p.S279*|EYA1_uc003xyt.3_Nonsense_Mutation_p.S251*|EYA1_uc010lzf.2_Nonsense_Mutation_p.S211*|EYA1_uc003xyu.2_Nonsense_Mutation_p.S284*|EYA1_uc011lfe.1_Nonsense_Mutation_p.S278*|EYA1_uc003xyv.2_Nonsense_Mutation_p.S162*	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	284					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			AATGGGTGTTGATGGGCTGTG	0.448													79	281					2.56221e-42	2.7717e-42	0.01441	1	0		T	72184108	T	T	72184108	4	4	121	1	0	0	0	0	0	1	0	0	5336	1294	45	5	963	5	EYA1	8	72184108	Nonsense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	6656463	72184108	74179914	120	66822											
TRPA1	8989	broad.mit.edu	37	chr8	72970017	72970017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgctaatataagtggagagCgtccttcagaatcgatctta	12	13	9	7	2	2	2	1	0	1	2	4	4	3	2	1	1	2	1	1	1	5	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:72970017C>T	uc003xza.2	-	9	1203	c.1028G>A	c.(1027-1029)CGC>CAC	p.R343H		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	343	Cytoplasmic (Potential).|ANK 9.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AAGTGGAGAGCGTCCTTCAGA	0.343													34	51					0	0	0.017118	0	0		T	72970017	T	T	72970017	3	4	121	1	0	0	0	0	1	0	0	0	16603	768	27	1	2407	1	TRPA1	8	72970017	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	785909	72970017	73394005	121	66823											
JPH1	56704	broad.mit.edu	37	chr8	75227106	75227106	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttacttaccttgaatttgCtatttccactttggttctgg	7	20	6	8	0	1	1	0	1	1	0	2	1	2	1	2	2	3	2	2	2	4	9			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:75227106C>G	uc003yae.2	-	2	1169	c.1129G>C	c.(1129-1131)GCA>CCA	p.A377P	JPH1_uc003yaf.2_Missense_Mutation_p.A377P|JPH1_uc003yag.1_Missense_Mutation_p.A241P	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	377	Ala-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			CTTGAATTTGCTATTTCCACT	0.443													68	101					0	0	0.01441	0	0		G	75227106	G	G	75227106	3	3	121	1	0	0	0	0	1	0	0	0	7976	797	28	5	872	5	JPH1	8	75227106	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	2257089	75227106	71136916	122	66824											
LRRCC1	85444	broad.mit.edu	37	chr8	86041417	86041417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acttctgctttaggctaaagGaaattatttttagagagaga	14	14	9	4	0	1	2	0	0	1	2	1	5	1	3	0	2	1	2	0	2	6	8			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:86041417G>A	uc003ycw.2	+	10	1583	c.1429G>A	c.(1429-1431)GAA>AAA	p.E477K	LRRCC1_uc010lzz.1_Intron|LRRCC1_uc010maa.1_Missense_Mutation_p.E178K|LRRCC1_uc003ycx.2_Missense_Mutation_p.E384K|LRRCC1_uc003ycy.2_Missense_Mutation_p.E457K	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	477	Potential.				cell division|mitosis	centriole|nucleus					0						TAGGCTAAAGGAAATTATTTT	0.303													36	132					0	0	0.021022	0	0		A	86041417	A	A	86041417	3	1	121	1	0	0	0	0	1	0	0	0	9044	1175	41	4	1467	4	LRRCC1	8	86041417	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	10814311	86041417	60322605	123	66825											
RIMS2	9699	broad.mit.edu	37	chr8	104955056	104955056	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagccacattggtacaaacTtcagacgcatgatgtctctt	11	12	8	10	1	2	3	1	2	1	1	3	3	2	3	1	1	3	2	1	1	2	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:104955056T>C	uc003yls.2	+	12	2178	c.1937T>C	c.(1936-1938)CTT>CCT	p.L646P	RIMS2_uc003ylp.2_Missense_Mutation_p.L868P|RIMS2_uc003ylw.2_Missense_Mutation_p.L660P|RIMS2_uc003ylq.2_Missense_Mutation_p.L660P|RIMS2_uc003ylr.2_Missense_Mutation_p.L707P|RIMS2_uc003ylt.2_Missense_Mutation_p.L253P	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	930					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TGGTACAAACTTCAGACGCAT	0.413										HNSCC(12;0.0054)			11	46					0	0	0.008291	0	0		C	104955056	C	C	104955056	3	2	121	1	0	0	0	0	1	0	0	0	13393	1609	56	3	2783	3	RIMS2	8	104955056	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	18913639	104955056	41408966	124	66826											
ZFPM2	23414	broad.mit.edu	37	chr8	106813708	106813708	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaataaacaaagcttttcTtacacaaaaataaagtctga	21	10	3	7	0	2	1	0	1	2	0	2	1	2	1	0	0	3	1	0	0	9	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:106813708T>C	uc003ymd.2	+	8	1421	c.1398T>C	c.(1396-1398)TCT>TCC	p.S466S	ZFPM2_uc011lhs.1_Silent_p.S197S	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	466					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AAAGCTTTTCTTACACAAAAA	0.458													20	89					0	0	0.007413	0	0		C	106813708	C	C	106813708	2	2	121	1	0	0	0	0	0	0	0	1	17683	1596	56	3		3	ZFPM2	8	106813708	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	1858652	106813708	39550314	125	66827											
PKHD1L1	93035	broad.mit.edu	37	chr8	110476639	110476639	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatattaagggaggagcattTtttatagaagatggtattga	14	14	12	1	0	0	3	0	1	0	2	0	6	0	5	0	3	1	2	0	3	6	8			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:110476639T>G	uc003yne.2	+	49	7682	c.7578T>G	c.(7576-7578)TTT>TTG	p.F2526L		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2526	PbH1 1.|Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GAGGAGCATTTTTTATAGAAG	0.388										HNSCC(38;0.096)			19	19					0	0	0.006122	0	0		G	110476639	G	G	110476639	3	3	121	1	0	0	0	0	1	0	0	0	11991	1838	64	5	7772	5	PKHD1L1	8	110476639	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	3662931	110476639	35887383	126	66828											
CSMD3	114788	broad.mit.edu	37	chr8	113237068	113237068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcccttccactgactttgCgttggtgtcatacatgggat	6	15	9	11	1	1	1	1	1	0	0	3	2	3	2	2	2	2	1	2	2	1	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:113237068C>T	uc003ynu.2	-	71	11215	c.11056G>A	c.(11056-11058)GCA>ACA	p.A3686T	CSMD3_uc003yns.2_Missense_Mutation_p.A2888T|CSMD3_uc003ynt.2_Missense_Mutation_p.A3646T|CSMD3_uc011lhx.1_Missense_Mutation_p.A3517T	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3686	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ACTGACTTTGCGTTGGTGTCA	0.443										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			80	117					0	0	0.01441	0	0		T	113237068	T	T	113237068	3	4	121	1	0	0	0	0	1	0	0	0	3949	768	27	1	71	1	CSMD3	8	113237068	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	2760429	113237068	33126954	127	66829											
CSMD3	114788	broad.mit.edu	37	chr8	113256779	113256779	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacatttgcatgagcaggagTttctggctgtttacagctgt	8	14	12	7	0	1	1	0	1	1	0	1	3	1	2	0	2	4	6	0	2	1	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:113256779T>A	uc003ynu.2	-	65	10405	c.10246A>T	c.(10246-10248)ACT>TCT	p.T3416S	CSMD3_uc003yns.2_Missense_Mutation_p.T2618S|CSMD3_uc003ynt.2_Missense_Mutation_p.T3376S|CSMD3_uc011lhx.1_Missense_Mutation_p.T3247S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3416	Extracellular (Potential).|Sushi 28.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TGAGCAGGAGTTTCTGGCTGT	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			26	56					0	0	0.00632	0	0		A	113256779	A	A	113256779	3	1	121	1	0	0	0	0	1	0	0	0	3949	1725	60	5	905	5	CSMD3	8	113256779	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	19711	113256779	33107243	128	66830											
ZFAT	57623	broad.mit.edu	37	chr8	135521911	135521911	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatggcaaccaccgaggcaAgggcagtggcgtcatgggtc	9	5	15	12	2	1	0	1	0	0	0	2	1	1	0	3	5	1	3	3	5	2	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:135521911A>G	uc003yup.2	-	15	3618	c.3443T>C	c.(3442-3444)CTT>CCT	p.L1148P	ZFAT_uc011ljj.1_Missense_Mutation_p.L267P|ZFAT_uc003yun.2_Missense_Mutation_p.L1136P|ZFAT_uc003yuo.2_Missense_Mutation_p.L1136P|ZFAT_uc010meh.2_Intron|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.L1136P|ZFAT_uc010mej.2_Missense_Mutation_p.L1086P	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	1148					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			CACCGAGGCAAGGGCAGTGGC	0.577													23	74					0	0	0.014323	0	0		G	135521911	G	G	135521911	3	3	121	1	0	0	0	0	1	0	0	0	17657	72	3	3	296	3	ZFAT	8	135521911	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	22265132	135521911	10842111	129	66831											
FAM135B	51059	broad.mit.edu	37	chr8	139164740	139164740	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgctcttctgtgtgagagtCctttagggaagacctaatat	9	14	10	8	0	2	2	0	1	2	2	3	4	3	3	2	1	1	1	2	1	4	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:139164740C>A	uc003yuy.2	-	13	2149	c.1978G>T	c.(1978-1980)GAC>TAC	p.D660Y	FAM135B_uc003yux.2_Missense_Mutation_p.D561Y|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.D222Y|FAM135B_uc003yvb.2_Missense_Mutation_p.D222Y	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	660										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			GTGTGAGAGTCCTTTAGGGAA	0.493										HNSCC(54;0.14)			28	78					4.87955e-14	5.13323e-14	0.005443	1	0		A	139164740	A	A	139164740	3	1	121	1	0	0	0	0	1	0	0	0	5460	855	30	5	2274	5	FAM135B	8	139164740	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	3642829	139164740	7199282	130	66832											
BAI1	575	broad.mit.edu	37	chr8	143569806	143569806	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgggccacgggtgactGggccaaggtgccagaggaca	8	4	18	11	2	0	2	0	1	0	1	0	3	0	3	3	6	1	0	3	6	1	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr8:143569806G>A	uc003ywm.2	+	13	2573	c.2390G>A	c.(2389-2391)TGG>TAG	p.W797*		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	797	Extracellular (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					ACGGGTGACTGGGCCAAGGTG	0.637													21	60					0	0	0.010504	0	0		A	143569806	A	A	143569806	4	1	121	1	0	0	0	0	0	1	0	0	1299	1357	47	4	2440	4	BAI1	8	143569806	Nonsense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	4405066	143569806	2794216	131	66833											
SPAG8	26206	broad.mit.edu	37	chr9	35811809	35811809	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgaactcagaacagggCgctggggtctttgtagataa	11	10	12	8	1	2	3	1	1	1	2	3	3	3	3	1	3	2	2	1	3	4	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr9:35811809C>T	uc003zye.2	-	2	349	c.234G>A	c.(232-234)GCG>GCA	p.A78A	SPAG8_uc003zyf.2_5'UTR|SPAG8_uc003zyg.2_Silent_p.A78A	NM_172312	NP_758516	Q99932	SPAG8_HUMAN	sperm associated antigen 8 isoform 2	78						acrosomal vesicle|membrane				ovary(1)	1	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			CAGAACAGGGCGCTGGGGTCT	0.418													33	66					0	0	0.010818	0	0		T	35811809	T	T	35811809	2	4	121	1	0	0	0	0	0	0	0	1	15009	755	27	1		1	SPAG8	9	35811809	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08		35811809	105401622	132	66834											
TRPM6	140803	broad.mit.edu	37	chr9	77454993	77454993	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgttgtctctgcagctttaAccaaaccttggctgaaaatc	10	13	7	11	0	1	1	0	1	1	0	3	1	1	1	2	1	4	4	2	1	4	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr9:77454993A>C	uc004ajl.1	-	5	729	c.491T>G	c.(490-492)GTT>GGT	p.V164G	TRPM6_uc004ajk.1_Missense_Mutation_p.V159G|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.V164G|TRPM6_uc010mpd.1_Missense_Mutation_p.V164G|TRPM6_uc010mpe.1_Missense_Mutation_p.V164G|TRPM6_uc004ajn.1_Missense_Mutation_p.V164G	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	164	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						TGCAGCTTTAACCAAACCTTG	0.348													43	54					0	0	0.013114	0	0		C	77454993	C	C	77454993	3	2	121	1	0	0	0	0	1	0	0	0	16616	43	2	5	5717	5	TRPM6	9	77454993	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	41643184	77454993	63758438	133	66835											
AGTPBP1	23287	broad.mit.edu	37	chr9	88203282	88203282	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataagattctcgtaagctcTgagcagtggggttattgctc	9	14	11	7	1	2	2	0	1	2	1	4	2	2	2	0	2	3	5	0	2	4	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr9:88203282T>G	uc011ltd.1	-	20	2867	c.2834A>C	c.(2833-2835)CAG>CCG	p.Q945P	AGTPBP1_uc004aod.3_Missense_Mutation_p.Q571P|AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Missense_Mutation_p.Q905P|AGTPBP1_uc011lte.1_Missense_Mutation_p.Q957P	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	945					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						TCGTAAGCTCTGAGCAGTGGG	0.368													12	43					0	0	0.010729	0	0		G	88203282	G	G	88203282	3	3	121	1	0	0	0	0	1	0	0	0	400	1580	55	5	870	5	AGTPBP1	9	88203282	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	10748289	88203282	53010149	134	66836											
S1PR3	1903	broad.mit.edu	37	chr9	91616715	91616715	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaagtacattgccttctgCatcagcatcttcacggccat	11	11	7	12	1	4	1	2	0	2	1	4	1	4	1	2	1	4	3	2	1	3	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr9:91616715C>T	uc004aqe.2	+	2	996	c.600C>T	c.(598-600)TGC>TGT	p.C200C		NM_005226	NP_005217	Q99500	S1PR3_HUMAN	sphingosine-1-phosphate receptor 3	200	Helical; Name=5; (By similarity).				anatomical structure morphogenesis|elevation of cytosolic calcium ion concentration|inflammatory response|positive regulation of cell proliferation	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)|central_nervous_system(1)|skin(1)	5						TTGCCTTCTGCATCAGCATCT	0.572											OREG0019291	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	80					0	0	0.008871	0	0		T	91616715	T	T	91616715	2	4	121	1	0	0	0	0	0	0	0	1	13820	718	25	2		2	S1PR3	9	91616715	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	3413433	91616715	49596716	135	66837											
IPPK	64768	broad.mit.edu	37	chr9	95400381	95400381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcctgcccggcccttgtccGagccactcagcagcacccgt	5	7	10	19	3	1	0	1	0	0	0	2	1	2	0	6	1	5	2	6	1	0	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr9:95400381G>A	uc004asl.1	-	9	1095	c.818C>T	c.(817-819)TCG>TTG	p.S273L	IPPK_uc004ask.1_5'Flank	NM_022755	NP_073592	Q9H8X2	IPPK_HUMAN	inositol 1,3,4,5,6-pentakisphosphate 2-kinase	273					inositol or phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol pentakisphosphate 2-kinase activity			ovary(2)	2						GCCCTTGTCCGAGCCACTCAG	0.662													6	23					0	0	0.021553	0	0		A	95400381	A	A	95400381	3	1	121	1	0	0	0	0	1	0	0	0	7817	1059	37	1	677	1	IPPK	9	95400381	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	3783666	95400381	45813050	136	66838											
ABCA1	19	broad.mit.edu	37	chr9	107645431	107645431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgagcatctgagaacaggcGagccacactgtaaagggtgc	12	5	13	11	2	1	1	0	1	1	1	1	4	1	1	2	2	4	2	2	2	3	1	rs141348278		TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr9:107645431G>A	uc004bcl.2	-	5	623	c.310C>T	c.(310-312)CGC>TGC	p.R104C	ABCA1_uc004bcm.2_Missense_Mutation_p.R44C	NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	104	Extracellular.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GAGAACAGGCGAGCCACACTG	0.483													42	42					0	0	0.009718	0	0		A	107645431	A	A	107645431	3	1	121	1	0	0	0	0	1	0	0	0	28	1058	37	1	6659	1	ABCA1	9	107645431	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	12245050	107645431	33568000	137	66839											
PAPPA	5069	broad.mit.edu	37	chr9	118949686	118949686	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggccacctctggggaacaAgtgggtggcatattcagccc	8	8	14	11	0	2	0	1	0	1	0	2	1	2	1	3	5	2	1	3	5	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr9:118949686A>C	uc004bjn.2	+	2	1050	c.669A>C	c.(667-669)CAA>CAC	p.Q223H	PAPPA_uc011lxp.1_Missense_Mutation_p.Q16H|PAPPA_uc011lxq.1_Missense_Mutation_p.Q16H	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	223					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CTGGGGAACAAGTGGGTGGCA	0.557													13	55					0	0	0.013537	0	0		C	118949686	C	C	118949686	3	2	121	1	0	0	0	0	1	0	0	0	11451	69	3	5	675	5	PAPPA	9	118949686	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	11304255	118949686	22263745	138	66840											
ASTN2	23245	broad.mit.edu	37	chr9	119903754	119903754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcctgagtcgcctcagctGctgctataaggtagcaatgg	8	11	11	11	1	2	1	1	1	1	0	4	1	2	1	2	2	4	5	2	2	4	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr9:119903754G>A	uc004bjs.1	-	4	1120	c.1019C>T	c.(1018-1020)GCA>GTA	p.A340V	ASTN2_uc004bjr.1_Missense_Mutation_p.A340V|ASTN2_uc004bjt.1_Intron	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	340	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CGCCTCAGCTGCTGCTATAAG	0.587													32	18					0	0	0.012213	0	0		A	119903754	A	A	119903754	3	1	121	1	0	0	0	0	1	0	0	0	1066	1334	46	2		2	ASTN2	9	119903754	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	954068	119903754	21309677	139	66841											
NUP214	8021	broad.mit.edu	37	chr9	134015972	134015972	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctgctccagttctcaTgttactttcaacagatggtg	7	15	7	12	0	2	1	2	0	1	1	6	1	5	1	3	1	3	3	3	1	2	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr9:134015972T>C	uc004cag.2	+	11	1280	c.1169T>C	c.(1168-1170)ATG>ACG	p.M390T	NUP214_uc004cah.2_Missense_Mutation_p.M390T|NUP214_uc004caf.1_Missense_Mutation_p.M390T	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	390					carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		CCAGTTCTCATGTTACTTTCA	0.373			T	DEK|SET|ABL1	AML|T-ALL								121	74					0	0	0.01441	0	0		C	134015972	C	C	134015972	3	2	121	1	0	0	0	0	1	0	0	0	10781	1464	51	3	1211	3	NUP214	9	134015972	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	14112218	134015972	7197459	140	66842											
C9orf98	158067	broad.mit.edu	37	chr9	135742311	135742311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgttgttttccctgaggCgggtggacctaatattacaa	9	15	10	7	1	0	1	0	1	0	0	1	2	1	2	2	3	1	2	2	3	5	8	rs115599655	by1000genomes	TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr9:135742311C>T	uc004cbu.1	-	3	755	c.199G>A	c.(199-201)GCC>ACC	p.A67T	C9orf98_uc010mzx.1_RNA|C9orf98_uc004cbv.1_5'UTR	NM_152572	NP_689785	Q96MA6	KAD8_HUMAN	putative adenylate kinase-like protein C9orf98	67						cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;4.89e-06)|Epithelial(140;0.00016)		TTCCCTGAGGCGGGTGGACCT	0.458													76	41					0	0	0.01441	0	0		T	135742311	T	T	135742311	3	4	121	1	0	0	0	0	1	0	0	0	2512	768	27	1	1284	1	C9orf98	9	135742311	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	1726339	135742311	5471120	141	66843											
GTF3C5	9328	broad.mit.edu	37	chr9	135926199	135926199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caacaatccccccatctcagGtgagaatctgattggcctga	11	9	8	13	0	2	3	1	3	2	1	4	4	3	3	4	2	1	0	4	2	3	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr9:135926199G>A	uc004cci.3	+	4	939	c.602G>A	c.(601-603)GGT>GAT	p.G201D	GTF3C5_uc010mzz.2_Missense_Mutation_p.G76D|GTF3C5_uc004ccj.3_Missense_Mutation_p.G201D	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	201						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		CCCATCTCAGGTGAGAATCTG	0.607													21	110					0	0	0.01892	0	0		A	135926199	A	A	135926199	3	1	121	1	0	0	0	0	1	0	0	0	6892	1261	44	4	616	4	GTF3C5	9	135926199	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	183888	135926199	5287232	142	66844											
LARP4B	23185	broad.mit.edu	37	chr10	888940	888940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtggtcgaggttagccaccGttgtgattggcacatactgg	7	12	14	8	2	0	1	0	1	0	0	1	2	0	1	2	4	2	3	2	4	2	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr10:888940G>A	uc001ifs.1	-	6	619	c.578C>T	c.(577-579)ACG>ATG	p.T193M		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	193	HTH La-type RNA-binding.						nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						GTTAGCCACCGTTGTGATTGG	0.378													12	34					0	0	0.010729	0	0		A	888940	A	A	888940	3	1	121	1	0	0	0	0	1	0	0	0	8647	1145	40	1	1686	1	LARP4B	10	888940	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08		888940	134645807	143	66845											
ITIH5	80760	broad.mit.edu	37	chr10	7618705	7618705	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtccccctctccatcgccTccaggcctggggcttcctgt	2	11	10	18	1	1	0	0	0	1	0	6	0	4	0	7	3	0	1	7	3	0	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr10:7618705T>G	uc001ijq.2	-	10	1768	c.1689A>C	c.(1687-1689)GGA>GGC	p.G563G	ITIH5_uc001ijp.2_Silent_p.G349G|ITIH5_uc001ijr.1_Silent_p.G563G	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	563					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CTCCATCGCCTCCAGGCCTGG	0.572													25	31					0	0	0.021523	0	0		G	7618705	G	G	7618705	2	3	121	1	0	0	0	0	0	0	0	1	7923	1538	54	5		5	ITIH5	10	7618705	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	6729765	7618705	127916042	144	66846											
PTF1A	256297	broad.mit.edu	37	chr10	23481522	23481522	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctttccttcttcgtacttCgacgaggacgacttcttcac	6	14	7	14	4	3	0	1	0	2	0	6	4	4	1	2	1	1	1	2	1	1	7			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr10:23481522C>T	uc001irp.2	+	1	63	c.63C>T	c.(61-63)TTC>TTT	p.F21F		NM_178161	NP_835455	Q7RTS3	PTF1A_HUMAN	pancreas specific transcription factor, 1a	21					endocrine pancreas development|exocrine pancreas development|regulation of transcription, DNA-dependent|tissue development|transcription, DNA-dependent	cytoplasm|transcription factor complex				pancreas(1)|skin(1)	2						CTTCGTACTTCGACGAGGACG	0.667													13	46					0	0	0.020292	0	0		T	23481522	T	T	23481522	2	4	121	1	0	0	0	0	0	0	0	1	12762	883	31	1		1	PTF1A	10	23481522	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	15862817	23481522	112053225	145	66847											
GPR158	57512	broad.mit.edu	37	chr10	25888082	25888082	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggtttgtccttgggagtTtgagaccccagctcaaccaa	10	10	11	10	0	1	2	1	1	0	2	2	4	2	3	4	2	2	3	4	2	2	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr10:25888082T>G	uc001isj.2	+	11	3587	c.3527T>G	c.(3526-3528)TTT>TGT	p.F1176C	GPR158_uc001isk.2_Missense_Mutation_p.F551C	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1176	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						CCTTGGGAGTTTGAGACCCCA	0.453													17	28					0	0	0.004007	0	0		G	25888082	G	G	25888082	3	3	121	1	0	0	0	0	1	0	0	0	6678	1841	64	5	3569	5	GPR158	10	25888082	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	2406560	25888082	109646665	146	66848											
MYO3A	53904	broad.mit.edu	37	chr10	26432425	26432425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctagagttattgaatatgagGataactggcccctcttagat	12	13	9	7	0	1	4	0	2	1	2	1	5	1	5	2	2	1	1	2	2	6	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr10:26432425G>A	uc001isn.2	+	21	2671	c.2311G>A	c.(2311-2313)GAT>AAT	p.D771N	MYO3A_uc009xko.1_Missense_Mutation_p.D771N|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	771	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						TGAATATGAGGATAACTGGCC	0.358													13	30					0	0	0.013537	0	0		A	26432425	A	A	26432425	3	1	121	1	0	0	0	0	1	0	0	0	10094	1174	41	4	2385	4	MYO3A	10	26432425	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	544343	26432425	109102322	147	66849											
ANK3	288	broad.mit.edu	37	chr10	61832206	61832206	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgacatttcagttctctgTtttttcacattatcagagcc	8	18	5	10	0	4	2	3	1	1	1	5	2	4	2	1	0	1	2	1	0	1	7			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr10:61832206T>G	uc001jky.2	-	37	8625	c.8433A>C	c.(8431-8433)AAA>AAC	p.K2811N	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2811					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CAGTTCTCTGTTTTTTCACAT	0.368													33	65					0	0	0.013726	0	0		G	61832206	G	G	61832206	3	3	121	1	0	0	0	0	1	0	0	0	622	1722	60	5	5041	5	ANK3	10	61832206	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	35399781	61832206	73702541	148	66850											
ANK3	288	broad.mit.edu	37	chr10	61834976	61834976	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaagatggtgtagacaacTtaagggcagagggtgcaagg	15	6	16	4	0	0	4	0	0	0	4	0	4	0	4	0	4	2	3	0	4	6	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr10:61834976T>G	uc001jky.2	-	37	5855	c.5663A>C	c.(5662-5664)AAG>ACG	p.K1888T	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1888	Ser-rich.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TGTAGACAACTTAAGGGCAGA	0.433													28	57					0	0	0.00632	0	0		G	61834976	G	G	61834976	3	3	121	1	0	0	0	0	1	0	0	0	622	1609	56	5	7811	5	ANK3	10	61834976	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	2770	61834976	73699771	149	66851											
JMJD1C	221037	broad.mit.edu	37	chr10	64974609	64974609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcttcttcatgttttttatCttcctgtatttgatcccagg	5	21	6	9	0	3	1	1	1	2	0	5	1	5	1	2	1	1	3	2	1	2	8			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr10:64974609C>T	uc001jmn.2	-	8	1618	c.1318G>A	c.(1318-1320)GAT>AAT	p.D440N	JMJD1C_uc001jml.2_Missense_Mutation_p.D221N|JMJD1C_uc001jmm.2_Missense_Mutation_p.D152N|JMJD1C_uc010qiq.1_Missense_Mutation_p.D258N|JMJD1C_uc009xpi.2_Missense_Mutation_p.D258N|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmp.1_Missense_Mutation_p.D152N	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	440					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TGTTTTTTATCTTCCTGTATT	0.393													30	81					0	0	0.008361	0	0		T	64974609	T	T	64974609	3	4	121	1	0	0	0	0	1	0	0	0	7966	913	32	4	6380	4	JMJD1C	10	64974609	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	3139633	64974609	70560138	150	66852											
CUZD1	50624	broad.mit.edu	37	chr10	124594423	124594423	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaaagagccatgctggtgTtatatttgcccagtgcattt	11	13	9	8	0	0	1	0	0	0	1	0	1	0	1	2	1	4	3	2	1	4	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr10:124594423T>A	uc001lgq.2	-	7	1513	c.1181A>T	c.(1180-1182)AAC>ATC	p.N394I	CUZD1_uc001lgp.2_Missense_Mutation_p.N113I|CUZD1_uc009yad.2_Missense_Mutation_p.N113I|CUZD1_uc009yaf.2_Missense_Mutation_p.N28I|CUZD1_uc001lgr.2_Missense_Mutation_p.N113I|CUZD1_uc010qty.1_Missense_Mutation_p.N113I|CUZD1_uc009yae.2_Missense_Mutation_p.N113I|CUZD1_uc001lgs.2_Missense_Mutation_p.N394I|CUZD1_uc010qtz.1_Missense_Mutation_p.N394I	NM_022034	NP_071317	Q86UP6	CUZD1_HUMAN	CUB and zona pellucida-like domains 1 precursor	394	Extracellular (Potential).|ZP.				cell cycle|cell division|cell proliferation|substrate-dependent cell migration, cell attachment to substrate|trypsinogen activation	integral to membrane|transport vesicle membrane|zymogen granule membrane				ovary(1)|skin(1)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.126)|COAD - Colon adenocarcinoma(40;0.141)		CATGCTGGTGTTATATTTGCC	0.318													26	50					0	0	0.01892	0	0		A	124594423	A	A	124594423	3	1	121	1	0	0	0	0	1	0	0	0	4069	1725	60	5	654	5	CUZD1	10	124594423	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	59619814	124594423	10940324	151	66853											
LRDD	55367	broad.mit.edu	37	chr11	799408	799408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgctgtcctggtacttgcGgcggccgagctccaagactg	6	9	14	12	3	0	1	0	0	0	1	2	3	2	1	3	3	4	3	3	3	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:799408G>A	uc001lro.1	-	16	2774	c.2632C>T	c.(2632-2634)CGC>TGC	p.R878C	SLC25A22_uc009yci.2_5'Flank|SLC25A22_uc001lrj.2_5'Flank|LRDD_uc009yck.1_RNA|LRDD_uc001lrk.1_Missense_Mutation_p.R861C|LRDD_uc001lrl.1_Missense_Mutation_p.R721C|LRDD_uc001lrm.1_Missense_Mutation_p.R565C|LRDD_uc001lrn.1_Missense_Mutation_p.R721C|LRDD_uc001lrp.1_3'UTR	NM_145886	NP_665893	Q9HB75	PIDD_HUMAN	leucine rich repeat and death domain containing	878					apoptosis|signal transduction	cytoplasm|nucleus	death receptor binding				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGGTACTTGCGGCGGCCGAGC	0.701													21	40					0	0	0.010504	0	0		A	799408	A	A	799408	3	1	121	1	0	0	0	0	1	0	0	0	8954	1116	39	1	104	1	LRDD	11	799408	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08		799408	134207108	152	66854											
OR51F1	256892	broad.mit.edu	37	chr11	4790367	4790367	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatagcgatacaccaaggAcaggctcagcatgtggatgt	13	7	11	10	1	1	0	1	0	0	0	1	3	1	2	2	3	3	2	2	3	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:4790367A>G	uc010qyl.1	-	1	781	c.781T>C	c.(781-783)TCC>CCC	p.S261P		NM_001004752	NP_001004752	A6NLW9	A6NLW9_HUMAN	olfactory receptor, family 51, subfamily F,	261						integral to membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.87e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0045)|LUSC - Lung squamous cell carcinoma(625;0.192)		TACACCAAGGACAGGCTCAGC	0.522													26	57					0	0	0.01892	0	0		G	4790367	G	G	4790367	3	3	121	1	0	0	0	0	1	0	0	0	11115	275	10	3	160	3	OR51F1	11	4790367	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	3990959	4790367	130216149	153	66855											
OR51S1	119692	broad.mit.edu	37	chr11	4869842	4869842	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtaggctgcaccccaagcTtctgggcaggccaaacgagc	9	6	12	14	1	1	0	0	0	1	0	1	1	1	0	3	3	4	5	3	3	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:4869842T>C	uc010qyo.1	-	1	597	c.597A>G	c.(595-597)GAA>GAG	p.E199E		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	199	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		CACCCCAAGCTTCTGGGCAGG	0.542													24	61					0	0	0.021523	0	0		C	4869842	C	C	4869842	2	2	121	1	0	0	0	0	0	0	0	1	11124	1606	56	3		3	OR51S1	11	4869842	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	79475	4869842	130136674	154	66856											
OR51G1	79324	broad.mit.edu	37	chr11	4945136	4945136	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcactgagcttagccccatcTtgacaatacatgcaggtgtc	10	10	9	12	0	1	2	0	2	1	0	2	2	1	2	2	1	4	3	2	1	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:4945136T>A	uc010qyr.1	-	1	434	c.434A>T	c.(433-435)AAG>ATG	p.K145M		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		TAGCCCCATCTTGACAATACA	0.532													17	40					0	0	0.004007	0	0		A	4945136	A	A	4945136	3	1	121	1	0	0	0	0	1	0	0	0	11117	1609	56	5	533	5	OR51G1	11	4945136	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	75294	4945136	130061380	155	66857											
OR51A4	401666	broad.mit.edu	37	chr11	4967541	4967541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagacatgccgggcaaagcGgtggacaacggccaggttga	12	4	16	9	3	0	2	0	1	0	1	0	4	0	3	2	5	3	2	2	5	2	1	rs147925897	byFrequency	TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:4967541G>A	uc010qys.1	-	1	790	c.790C>T	c.(790-792)CGC>TGC	p.R264C		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		CGGGCAAAGCGGTGGACAACG	0.458													23	213					0	0	0.016522	0	0		A	4967541	A	A	4967541	3	1	121	1	0	0	0	0	1	0	0	0	11106	1116	39	1	153	1	OR51A4	11	4967541	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	22405	4967541	130038975	156	66858											
OR52H1	390067	broad.mit.edu	37	chr11	5565929	5565929	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtggaaggtgcgagagacAttgtgtccaaagcgatgggc	11	8	16	6	2	0	1	0	0	0	1	1	5	1	2	1	3	2	0	1	3	2	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:5565929A>T	uc010qzh.1	-	1	825	c.825T>A	c.(823-825)AAT>AAA	p.N275K	HBG2_uc001mak.1_Intron	NM_001005289	NP_001005289	Q8NGJ2	O52H1_HUMAN	olfactory receptor, family 52, subfamily H,	275	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;5.33e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGCGAGAGACATTGTGTCCAA	0.493													27	63					0	0	0.005443	0	0		T	5565929	T	T	5565929	3	4	121	1	0	0	0	0	1	0	0	0	11138	214	8	5	140	5	OR52H1	11	5565929	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	598388	5565929	129440587	157	66859											
OR10A3	26496	broad.mit.edu	37	chr11	7960149	7960149	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtgtaaaatcacttttcTtcgccatagttttatcaaag	11	17	6	7	1	3	0	2	0	1	0	4	0	3	0	1	0	0	2	1	0	5	7			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:7960149T>G	uc010rbi.1	-	1	919	c.919A>C	c.(919-921)AGA>CGA	p.R307R		NM_001003745	NP_001003745	P58181	O10A3_HUMAN	olfactory receptor, family 10, subfamily A,	307	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1				Epithelial(150;1.38e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ATCACTTTTCTTCGCCATAGT	0.393													13	43					0	0	0.013537	0	0		G	7960149	G	G	7960149	2	3	121	1	0	0	0	0	0	0	0	1	10910	1617	56	5		5	OR10A3	11	7960149	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	2394220	7960149	127046367	158	66860											
OR4A47	403253	broad.mit.edu	37	chr11	48511002	48511002	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatctcttatggtgtcatcTtgcactctttaaagaacctt	9	17	5	10	0	5	1	2	0	3	1	6	1	5	1	1	1	2	1	1	1	4	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:48511002T>G	uc010rhx.1	+	1	658	c.658T>G	c.(658-660)TTG>GTG	p.L220V		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGGTGTCATCTTGCACTCTTT	0.463													36	78					0	0	0.013726	0	0		G	48511002	G	G	48511002	3	3	121	1	0	0	0	0	1	0	0	0	11061	1606	56	5	660	5	OR4A47	11	48511002	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	40550853	48511002	86495514	159	66861											
OR4A5	81318	broad.mit.edu	37	chr11	51412307	51412307	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcaccaagtatgtgagtAaaaacatgacaaataatgct	17	10	7	7	0	1	2	1	2	0	0	1	2	1	2	1	0	2	3	1	0	7	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:51412307A>T	uc001nhi.1	-	1	89	c.89T>A	c.(88-90)TTA>TAA	p.L30*		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				GTATGTGAGTAAAAACATGAC	0.423													15	37					0	0	0.004007	0	0		T	51412307	T	T	51412307	4	4	121	1	0	0	0	0	0	1	0	0	11062	372	13	5	862	5	OR4A5	11	51412307	Nonsense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	2901305	51412307	83594209	160	66862											
OR4P4	81300	broad.mit.edu	37	chr11	55406423	55406423	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacatgataggtctcttagTcattgctaattcaggcttaa	12	14	7	8	0	3	1	2	1	1	0	4	1	3	1	0	2	1	2	0	2	4	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:55406423T>G	uc010rij.1	+	1	590	c.590T>G	c.(589-591)GTC>GGC	p.V197G		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	197	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						GGTCTCTTAGTCATTGCTAAT	0.368													29	33					0	0	0.005443	0	0		G	55406423	G	G	55406423	3	3	121	1	0	0	0	0	1	0	0	0	11099	1667	58	5	592	5	OR4P4	11	55406423	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	3994116	55406423	79600093	161	66863											
OR5D14	219436	broad.mit.edu	37	chr11	55563048	55563048	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aattatgatgatggttttaaGgaatctgagcatggagccca	13	12	11	5	0	1	3	0	3	1	0	1	5	1	5	1	3	2	2	1	3	4	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:55563048G>T	uc010rim.1	+	1	17	c.17G>T	c.(16-18)AGG>ATG	p.R6M		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				ATGGTTTTAAGGAATCTGAGC	0.393													44	89					2.00842e-17	2.1324e-17	0.010771	1	0		T	55563048	T	T	55563048	3	4	121	1	0	0	0	0	1	0	0	0	11174	1000	35	5	19	5	OR5D14	11	55563048	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	156625	55563048	79443468	162	66864											
OR8J3	81168	broad.mit.edu	37	chr11	55904446	55904446	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagcattgtcccatagaaaAccgtgactgctatcatatgc	13	11	7	10	1	1	2	1	1	0	1	2	2	2	2	2	0	4	2	2	0	6	5	rs146359186	by1000genomes	TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:55904446A>C	uc010riz.1	-	1	749	c.749T>G	c.(748-750)GTT>GGT	p.V250G		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	250	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					CCCATAGAAAACCGTGACTGC	0.403													24	69					0	0	0.021523	0	0		C	55904446	C	C	55904446	3	2	121	1	0	0	0	0	1	0	0	0	11261	43	2	5	200	5	OR8J3	11	55904446	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	341398	55904446	79102070	163	66865											
OR8K1	390157	broad.mit.edu	37	chr11	56113874	56113874	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatctctgagctctttatTctatcagcaatggcctatga	10	15	6	10	0	5	2	2	2	3	0	6	2	5	2	1	1	2	2	1	1	4	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:56113874T>G	uc010rjg.1	+	1	360	c.360T>G	c.(358-360)ATT>ATG	p.I120M		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	120	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					AGCTCTTTATTCTATCAGCAA	0.393										HNSCC(65;0.19)			66	181					0	0	0.01441	0	0		G	56113874	G	G	56113874	3	3	121	1	0	0	0	0	1	0	0	0	11262	1771	62	5	362	5	OR8K1	11	56113874	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	209428	56113874	78892642	164	66866											
P2RX3	5024	broad.mit.edu	37	chr11	57114108	57114108	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaagggctccggactctaCgccaacagagtcatggatgt	10	8	13	10	2	2	2	1	1	1	1	3	4	3	4	2	3	2	1	2	3	3	1	rs149738072		TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:57114108C>T	uc001nju.2	+	2	286	c.210C>T	c.(208-210)TAC>TAT	p.Y70Y		NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3	70	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						CCGGACTCTACGCCAACAGAG	0.572													10	29					0	0	0.006214	0	0		T	57114108	T	T	57114108	2	4	121	1	0	0	0	0	0	0	0	1	11360	547	19	1		1	P2RX3	11	57114108	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	1000234	57114108	77892408	165	66867											
AHNAK	79026	broad.mit.edu	37	chr11	62287621	62287621	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacttttgggcccttgatGtcagcttctgggcccttgag	4	14	11	12	0	2	2	1	2	1	0	3	2	3	2	3	2	1	1	3	2	0	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:62287621G>A	uc001ntl.2	-	5	14568	c.14268C>T	c.(14266-14268)GAC>GAT	p.D4756D	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4756					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GGCCCTTGATGTCAGCTTCTG	0.502													77	188					0	0	0.01441	0	0		A	62287621	A	A	62287621	2	1	121	1	0	0	0	0	0	0	0	1	414	1368	48	4		4	AHNAK	11	62287621	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	5173513	62287621	72718895	166	66868											
CCDC88B	283234	broad.mit.edu	37	chr11	64109148	64109148	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggcacctgccgagctggaGatgctgtcccggagcctgat	6	8	14	13	2	0	2	0	1	0	1	1	5	1	3	4	3	4	3	4	3	0	0	rs139000172		TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:64109148G>A	uc001nzy.2	+	7	653	c.609G>A	c.(607-609)GAG>GAA	p.E203E	CCDC88B_uc009ypo.1_Silent_p.E200E|CCDC88B_uc001nzz.1_5'Flank	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	203					microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						CCGAGCTGGAGATGCTGTCCC	0.692													3	22					0	0	0.004672	0	0		A	64109148	A	A	64109148	2	1	121	1	0	0	0	0	0	0	0	1	2867	933	33	4		4	CCDC88B	11	64109148	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	1821527	64109148	70897368	167	66869											
MAP4K2	5871	broad.mit.edu	37	chr11	64564487	64564487	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttggggggagcccgtggcaGgatgacctctgggagggagg	6	6	22	7	1	1	1	0	1	1	0	1	5	1	5	2	8	1	2	2	8	0	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:64564487G>C	uc001obh.2	-	20	1466	c.1374C>G	c.(1372-1374)TCC>TCG	p.S458S	MAP4K2_uc001obg.2_5'Flank|MAP4K2_uc001obi.2_Silent_p.S450S	NM_004579	NP_004570	Q12851	M4K2_HUMAN	mitogen-activated protein kinase kinase kinase	458					activation of JUN kinase activity|immune response|positive regulation of JNK cascade|vesicle targeting	basolateral plasma membrane|Golgi membrane|soluble fraction	ATP binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(1)|pancreas(1)	2						GCCCGTGGCAGGATGACCTCT	0.637													15	37					0	0	0.003163	0	0		C	64564487	C	C	64564487	2	2	121	1	0	0	0	0	0	0	0	1	9278	987	35	5		5	MAP4K2	11	64564487	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	455339	64564487	70442029	168	66870											
NUMA1	4926	broad.mit.edu	37	chr11	71733400	71733400	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctgaattttatattcAaactgttcccagtccctggg	9	15	6	11	0	1	1	1	1	0	0	3	1	3	1	3	1	2	1	3	1	5	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:71733400A>T	uc001orl.1	-	7	529	c.357T>A	c.(355-357)TTT>TTA	p.F119L	NUMA1_uc001ork.1_Missense_Mutation_p.F119L|NUMA1_uc001orm.1_Missense_Mutation_p.F119L|NUMA1_uc009ysx.1_Missense_Mutation_p.F119L|NUMA1_uc001oro.1_Missense_Mutation_p.F119L|NUMA1_uc009ysy.1_Missense_Mutation_p.F119L|NUMA1_uc001orp.2_Missense_Mutation_p.F119L|NUMA1_uc001orq.2_Missense_Mutation_p.F119L	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	119					G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						TTTTATATTCAAACTGTTCCC	0.493			T	RARA	APL								42	142					0	0	0.011902	0	0		T	71733400	T	T	71733400	3	4	121	1	0	0	0	0	1	0	0	0	10769	127	5	5	6074	5	NUMA1	11	71733400	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	7168913	71733400	63273116	169	66871											
USP35	57558	broad.mit.edu	37	chr11	77921035	77921035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agagggagaaagaggaggagGtggaagaggaagaagagaag	19	1	21	0	0	0	6	0	0	0	6	0	12	0	10	0	6	0	0	0	6	5	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:77921035G>A	uc009yva.1	+	10	2380	c.2134G>A	c.(2134-2136)GTG>ATG	p.V712M	USP35_uc001oze.2_Missense_Mutation_p.V468M|USP35_uc001ozc.2_Missense_Mutation_p.V280M|USP35_uc010rsp.1_Missense_Mutation_p.V144M|USP35_uc001ozd.2_Missense_Mutation_p.V323M|USP35_uc001ozf.2_Missense_Mutation_p.V443M	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	712					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			agaggaggaggtggaagagga	0.124													10	16					0	0	0.006214	0	0		A	77921035	A	A	77921035	3	1	121	1	0	0	0	0	1	0	0	0	17092	1261	44	4	2168	4	USP35	11	77921035	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	6187635	77921035	57085481	170	66872											
PICALM	8301	broad.mit.edu	37	chr11	85712081	85712081	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaatgcacaaacttaccttTaaagctttcaaacgtgcctg	14	11	6	10	1	1	1	1	0	0	1	1	1	1	1	2	0	6	2	2	0	6	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:85712081T>C	uc001pbm.2	-	10	1300	c.1014A>G	c.(1012-1014)TTA>TTG	p.L338L	PICALM_uc001pbl.2_Silent_p.L338L|PICALM_uc001pbn.2_Silent_p.L338L|PICALM_uc010rtl.1_Silent_p.L287L|PICALM_uc010rtk.1_5'UTR|PICALM_uc001pbo.1_5'UTR	NM_007166	NP_009097	Q13492	PICAL_HUMAN	phosphatidylinositol-binding clathrin assembly	338					clathrin coat assembly|endosome transport|negative regulation of receptor-mediated endocytosis|positive regulation of transcription, DNA-dependent|receptor internalization|regulation of protein localization	clathrin coat|clathrin-coated vesicle|coated pit|Golgi apparatus|nucleus|postsynaptic membrane|presynaptic membrane	1-phosphatidylinositol binding|clathrin heavy chain binding			urinary_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(157;7.42e-07)|all_hematologic(158;0.00092)				AACTTACCTTTAAAGCTTTCA	0.428			T	MLLT10|MLL	TALL|AML|								61	139					0	0	0.01441	0	0		C	85712081	C	C	85712081	2	2	121	1	0	0	0	0	0	0	0	1	11899	1751	61	3		3	PICALM	11	85712081	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	7791046	85712081	49294435	171	66873											
GRM5	2915	broad.mit.edu	37	chr11	88781002	88781002	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcactcccacggacatcttcTttcaaaagtaagactgacag	13	9	7	12	1	3	2	1	1	2	1	4	3	4	3	1	1	0	2	1	1	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:88781002T>C	uc001pcq.2	-	1	239	c.39A>G	c.(37-39)AAA>AAG	p.K13K	GRM5_uc009yvm.2_Silent_p.K13K|GRM5_uc009yvn.1_Silent_p.K13K	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	13					activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	GGACATCTTCTTTCAAAAGTA	0.473													8	37					0	0	0.006214	0	0		C	88781002	C	C	88781002	2	2	121	1	0	0	0	0	0	0	0	1	6816	1606	56	3		3	GRM5	11	88781002	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	3068921	88781002	46225514	172	66874											
PGR	5241	broad.mit.edu	37	chr11	100999459	100999459	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcgccaacagagtgtccaAgacactgtccagcagtccgc	10	5	12	14	2	0	2	0	0	0	2	3	2	3	2	4	1	2	1	4	1	2	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:100999459A>G	uc001pgh.2	-	1	1086	c.343T>C	c.(343-345)TTG>CTG	p.L115L	PGR_uc001pgi.2_Silent_p.L115L|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	115	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	AGAGTGTCCAAGACACTGTCC	0.627													3	15					0	0	0.004672	0	0		G	100999459	G	G	100999459	2	3	121	1	0	0	0	0	0	0	0	1	11824	69	3	3		3	PGR	11	100999459	Silent	SNP	A	TCGA-CD-8535-01A-11D-2340-08	12218457	100999459	34007057	173	66875											
DDI1	414301	broad.mit.edu	37	chr11	103908222	103908222	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccggcagcaaaacattgaAgaaaacatgaatatagcgat	19	7	8	7	2	0	3	0	2	0	1	1	4	1	3	1	1	4	2	1	1	8	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:103908222A>G	uc001phr.2	+	1	915	c.672A>G	c.(670-672)GAA>GAG	p.E224E	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	224					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		AAAACATTGAAGAAAACATGA	0.478													43	82					0	0	0.00874	0	0		G	103908222	G	G	103908222	2	3	121	1	0	0	0	0	0	0	0	1	4331	69	3	3		3	DDI1	11	103908222	Silent	SNP	A	TCGA-CD-8535-01A-11D-2340-08	2908763	103908222	31098294	174	66876											
RDX	5962	broad.mit.edu	37	chr11	110126036	110126036	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcctttttgtcgattggcTttataacaaattttttgtca	8	20	7	6	1	1	0	1	0	0	0	2	1	1	0	1	1	2	1	1	1	3	9			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:110126036T>G	uc001pku.2	-	8	1083	c.773A>C	c.(772-774)AAG>ACG	p.K258T	RDX_uc009yxx.1_RNA|RDX_uc009yxy.2_Missense_Mutation_p.K258T|RDX_uc009yxz.2_Intron|RDX_uc009yya.2_Intron|RDX_uc010rwe.1_Missense_Mutation_p.K122T	NM_002906	NP_002897	P35241	RADI_HUMAN	radixin	258	FERM.				actin filament capping	cleavage furrow|cytoskeleton|extrinsic to membrane|Golgi apparatus|nucleolus|plasma membrane	actin binding				0		all_cancers(61;7.18e-13)|all_epithelial(67;2.61e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.13e-06)|BRCA - Breast invasive adenocarcinoma(274;9.75e-06)|all cancers(92;5.9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0248)		GTCGATTGGCTTTATAACAAA	0.284													8	35					0	0	0.00308	0	0		G	110126036	G	G	110126036	3	3	121	1	0	0	0	0	1	0	0	0	13223	1609	56	5	1006	5	RDX	11	110126036	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	6217814	110126036	24880480	175	66877											
ZBTB16	7704	broad.mit.edu	37	chr11	113934258	113934258	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacttcctctcgccaaagaCcttccagcagattctggagt	9	10	9	13	1	2	2	0	0	2	2	5	4	4	4	4	2	1	1	4	2	1	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:113934258C>G	uc001pop.2	+	2	500	c.236C>G	c.(235-237)ACC>AGC	p.T79S	ZBTB16_uc001poo.1_Missense_Mutation_p.T79S|ZBTB16_uc001poq.2_Missense_Mutation_p.T79S	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	79	BTB.				apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		TCGCCAAAGACCTTCCAGCAG	0.557													8	43					0	0	0.00308	0	0		G	113934258	G	G	113934258	3	3	121	1	0	0	0	0	1	0	0	0	17551	507	18	5	238	5	ZBTB16	11	113934258	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	3808222	113934258	21072258	176	66878											
PHLDB1	23187	broad.mit.edu	37	chr11	118509945	118509945	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagggggcaggcctttcccGaagaccacatcgaccctcaa	11	5	10	15	2	1	1	1	0	0	1	3	3	2	1	4	3	0	1	4	3	2	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:118509945G>A	uc001ptr.1	+	13	3065	c.2712G>A	c.(2710-2712)CCG>CCA	p.P904P	PHLDB1_uc001pts.2_Silent_p.P904P|PHLDB1_uc001ptt.2_Silent_p.P904P|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Silent_p.P704P|PHLDB1_uc001ptw.1_Silent_p.P306P|PHLDB1_uc009zai.1_5'UTR|PHLDB1_uc001ptx.1_5'UTR|PHLDB1_uc010ryi.1_5'Flank|PHLDB1_uc010ryj.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	904											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		GGCCTTTCCCGAAGACCACAT	0.552													14	52					0	0	0.020292	0	0		A	118509945	A	A	118509945	2	1	121	1	0	0	0	0	0	0	0	1	11870	1045	37	1		1	PHLDB1	11	118509945	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	4575687	118509945	16496571	177	66879											
GRAMD1B	57476	broad.mit.edu	37	chr11	123477446	123477446	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaactccccttcactggacTtcaatgacaatgaggacatc	12	10	7	12	0	2	3	2	3	0	0	4	5	3	5	2	2	1	0	2	2	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:123477446T>G	uc001pyx.2	+	10	1353	c.1024T>G	c.(1024-1026)TTC>GTC	p.F342V	GRAMD1B_uc001pyw.2_Missense_Mutation_p.F349V|GRAMD1B_uc010rzw.1_Missense_Mutation_p.F302V|GRAMD1B_uc010rzx.1_Missense_Mutation_p.F302V|GRAMD1B_uc009zbe.1_Missense_Mutation_p.F338V|GRAMD1B_uc001pyy.2_5'Flank	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	342						integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		TTCACTGGACTTCAATGACAA	0.537													5	12					0	0	0.014758	0	0		G	123477446	G	G	123477446	3	3	121	1	0	0	0	0	1	0	0	0	6764	1609	56	5	1062	5	GRAMD1B	11	123477446	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	4967501	123477446	11529070	178	66880											
OR6M1	390261	broad.mit.edu	37	chr11	123676403	123676403	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatacgcaggatggtagaaaTtatgtacacgtaggacccag	14	8	12	7	2	0	1	0	0	0	1	0	4	0	3	1	3	2	4	1	3	6	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:123676403T>G	uc010rzz.1	-	1	655	c.655A>C	c.(655-657)ATT>CTT	p.I219L		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	219	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		ATGGTAGAAATTATGTACACG	0.488													13	36					0	0	0.013537	0	0		G	123676403	G	G	123676403	3	3	121	1	0	0	0	0	1	0	0	0	11224	1493	52	5	289	5	OR6M1	11	123676403	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	198957	123676403	11330113	179	66881											
OR10G8	219869	broad.mit.edu	37	chr11	123900377	123900377	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcatcctcatgggccttccCcatgccccagcgctggacgc	5	9	9	18	2	2	0	2	0	0	0	4	1	4	1	6	2	2	1	6	2	0	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:123900377C>T	uc001pzp.1	+	1	48	c.48C>T	c.(46-48)CCC>CCT	p.P16P		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		TGGGCCTTCCCCATGCCCCAG	0.577													39	124					0	0	0.009718	0	0		T	123900377	T	T	123900377	2	4	121	1	0	0	0	0	0	0	0	1	10922	610	22	4		4	OR10G8	11	123900377	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	223974	123900377	11106139	180	66882											
NTM	50863	broad.mit.edu	37	chr11	132016335	132016335	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaacgtggatgtgtatgaCgagggcccttacacctgctc	9	9	12	11	2	0	2	0	1	0	1	1	4	0	3	2	2	3	2	2	2	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:132016335C>T	uc001qgp.2	+	2	991	c.327C>T	c.(325-327)GAC>GAT	p.D109D	NTM_uc001qgm.2_Silent_p.D109D|NTM_uc010sch.1_Silent_p.D100D|NTM_uc010sci.1_Silent_p.D109D|NTM_uc010scj.1_Silent_p.D68D|NTM_uc001qgo.2_Silent_p.D109D|NTM_uc001qgq.2_Silent_p.D109D	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	109	Ig-like C2-type 1.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						ATGTGTATGACGAGGGCCCTT	0.577													29	17					0	0	0.008361	0	0		T	132016335	T	T	132016335	2	4	121	1	0	0	0	0	0	0	0	1	10718	535	19	1		1	NTM	11	132016335	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	8115958	132016335	2990181	181	66883											
THYN1	29087	broad.mit.edu	37	chr11	134121176	134121176	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacctgagttctcagtttTggtgcgttttcctgatagtc	5	17	9	10	1	2	2	2	2	1	0	5	2	3	2	2	1	1	3	2	1	1	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:134121176T>G	uc001qhf.2	-	3	172	c.70A>C	c.(70-72)AAA>CAA	p.K24Q	THYN1_uc001qhg.2_Missense_Mutation_p.K24Q|THYN1_uc001qhh.2_Missense_Mutation_p.K24Q|THYN1_uc001qhi.2_Missense_Mutation_p.K24Q|THYN1_uc001qhj.2_Missense_Mutation_p.K24Q|THYN1_uc009zdb.2_Missense_Mutation_p.K24Q|ACAD8_uc009zdc.2_5'Flank|ACAD8_uc010sco.1_5'Flank|ACAD8_uc010scp.1_5'Flank|ACAD8_uc010scq.1_5'Flank|ACAD8_uc001qhk.2_5'Flank|ACAD8_uc001qhl.2_5'Flank	NM_001037305	NP_001032382	Q9P016	THYN1_HUMAN	thymocyte nuclear protein 1 isoform 1	24						nucleus					0	all_hematologic(175;0.127)	all_cancers(12;1.1e-21)|all_epithelial(12;3.77e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;1.68e-10)|all cancers(11;1.95e-09)|BRCA - Breast invasive adenocarcinoma(10;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00148)|Lung(977;0.207)		TTCTCAGTTTTGGTGCGTTTT	0.358													67	228					0	0	0.01441	0	0		G	134121176	G	G	134121176	3	3	121	1	0	0	0	0	1	0	0	0	15911	1821	63	5	631	5	THYN1	11	134121176	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	2104841	134121176	885340	182	66884											
B3GAT1	27087	broad.mit.edu	37	chr11	134253751	134253751	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcttgtagttgcggggCgtctccacgtgcaggtgcgt	4	10	16	11	5	1	0	0	0	1	0	2	0	1	0	1	3	4	5	1	3	1	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr11:134253751C>T	uc001qhq.2	-	4	705	c.444G>A	c.(442-444)ACG>ACA	p.T148T	B3GAT1_uc001qhr.2_Silent_p.T148T|B3GAT1_uc010scv.1_Silent_p.T161T	NM_018644	NP_061114	Q9P2W7	B3GA1_HUMAN	beta-1,3-glucuronyltransferase 1	148	Lumenal (Potential).				carbohydrate metabolic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.39e-23)|all_epithelial(12;7.17e-17)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|Medulloblastoma(222;0.0125)|all_neural(223;0.0137)|Esophageal squamous(93;0.0559)		Epithelial(10;2.58e-11)|all cancers(11;5.75e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.000879)|Lung(977;0.0864)		AGTTGCGGGGCGTCTCCACGT	0.726													3	7					0	0	0.009096	0	0		T	134253751	T	T	134253751	2	4	121	1	0	0	0	0	0	0	0	1	1254	755	27	1		1	B3GAT1	11	134253751	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	132575	134253751	752765	183	66885											
SLCO1C1	53919	broad.mit.edu	37	chr12	20854340	20854340	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcactcagatagagagaaGgtttgatatcccttcttcac	12	12	7	10	0	4	4	3	1	1	3	5	5	5	4	1	1	0	1	1	1	3	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr12:20854340G>T	uc001rej.3	+	4	573	c.218G>T	c.(217-219)AGG>ATG	p.R73M	SLCO1C1_uc010sii.1_Missense_Mutation_p.R73M|SLCO1C1_uc010sij.1_Missense_Mutation_p.R73M|SLCO1C1_uc009zip.2_Intron|SLCO1C1_uc001rei.2_Missense_Mutation_p.R73M|SLCO1C1_uc010sik.1_Intron	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	73	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					ATAGAGAGAAGGTTTGATATC	0.398													58	12					1.14385e-22	1.22581e-22	0.01441	1	0		T	20854340	T	T	20854340	3	4	121	1	0	0	0	0	1	0	0	0	14750	1000	35	5	224	5	SLCO1C1	12	20854340	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08		20854340	112997555	184	66886											
SLCO1B1	10599	broad.mit.edu	37	chr12	21370153	21370153	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgatgcttgtacaaggaAattttacttttttgttgcaa	12	17	8	4	0	0	2	0	1	0	1	0	3	0	3	0	1	4	4	0	1	5	8			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr12:21370153A>C	uc001req.3	+	12	1702	c.1598A>C	c.(1597-1599)AAA>ACA	p.K533T		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	533	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	TGTACAAGGAAATTTTACTTT	0.373													35	5					0	0	0.021022	0	0		C	21370153	C	C	21370153	3	2	121	1	0	0	0	0	1	0	0	0	14748	14	1	5	1640	5	SLCO1B1	12	21370153	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	515813	21370153	112481742	185	66887											
ABCC9	10060	broad.mit.edu	37	chr12	22047092	22047092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattgtttccactggcatacGcatgggtcacaaatgtctgt	9	13	10	9	1	2	0	1	0	1	0	3	1	3	0	1	2	1	3	1	2	2	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr12:22047092G>A	uc001rfi.1	-	12	1696	c.1676C>T	c.(1675-1677)GCG>GTG	p.A559V	ABCC9_uc001rfh.2_Missense_Mutation_p.A559V|ABCC9_uc001rfj.1_Missense_Mutation_p.A559V	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	559	Extracellular (Potential).|ABC transmembrane type-1 1.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ACTGGCATACGCATGGGTCAC	0.463													40	4					0	0	0.023175	0	0		A	22047092	A	A	22047092	3	1	121	1	0	0	0	0	1	0	0	0	59	1087	38	1	3223	1	ABCC9	12	22047092	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	676939	22047092	111804803	186	66888											
KRAS	3845	broad.mit.edu	37	chr12	25398281	25398281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaggcactcttgcctacgCcaccagctccaactaccaca	11	7	5	18	1	2	0	1	0	1	0	3	0	3	0	5	1	5	2	5	1	4	3	rs112445441		TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr12:25398281C>T	uc001rgp.1	-	2	219	c.38G>A	c.(37-39)GGC>GAC	p.G13D	KRAS_uc001rgq.1_Missense_Mutation_p.G13D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	13	GTP.		G -> R (in pylocytic astrocytoma; somatic mutation; increase activation of the Ras pathway).|G -> D (in a breast carcinoma cell line and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G13D(2647)|p.G13C(182)|p.G13S(58)|p.G13R(41)|p.G13V(27)|p.G13A(24)|p.G13G(11)|p.G13E(4)|p.G12_G13insG(4)|p.G13N(3)|p.G13I(1)|p.G13_V14>DI(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CTTGCCTACGCCACCAGCTCC	0.338	G13D(NCIH647_LUNG)|G13D(MDAMB231_BREAST)|G13D(NCIH747_LARGE_INTESTINE)|G13D(T84_LARGE_INTESTINE)|G13D(LOVO_LARGE_INTESTINE)|G13D(DLD1_LARGE_INTESTINE)|G13D(DV90_LUNG)|G13D(HCT15_LARGE_INTESTINE)|G13D(HCT116_LARGE_INTESTINE)|G13D(TOLEDO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G13D(NOMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			11	1					0	0	0.016723	0	0		T	25398281	T	T	25398281	3	4	121	1	0	0	0	0	1	0	0	0	8454	739	26	2	668	2	KRAS	12	25398281	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	3351189	25398281	108453614	187	66889											
SFRS2IP	9169	broad.mit.edu	37	chr12	46355485	46355485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaatgtgtcagacttacctCtgcccatttaagaatacaag	13	13	6	9	0	2	2	1	0	1	2	2	2	2	2	2	0	3	0	2	0	6	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr12:46355485C>T	uc001rox.2	-	3	504	c.217G>A	c.(217-219)GAG>AAG	p.E73K	SFRS2IP_uc001roy.1_Missense_Mutation_p.E137K|SFRS2IP_uc009zki.1_RNA|SFRS2IP_uc001roz.2_Missense_Mutation_p.E73K	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	73	RING-type; degenerate.				spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		AGACTTACCTCTGCCCATTTA	0.323													40	47					0	0	0.00623	0	0		T	46355485	T	T	46355485	3	4	121	1	0	0	0	0	1	0	0	0	14202	922	32	4	4226	4	SFRS2IP	12	46355485	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	20957204	46355485	87496410	188	66890											
KIAA0748	9840	broad.mit.edu	37	chr12	55360985	55360985	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accctccgctcccagggtcaAgtcatcttcaaagctggtcc	8	9	8	16	1	4	0	3	0	1	0	7	0	7	0	4	2	1	2	4	2	2	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr12:55360985A>T	uc001sgn.3	-	5	402	c.292T>A	c.(292-294)TTG>ATG	p.L98M	KIAA0748_uc001sgl.3_Translation_Start_Site|KIAA0748_uc001sgm.3_Translation_Start_Site|KIAA0748_uc010spb.1_Translation_Start_Site|KIAA0748_uc010spc.1_Translation_Start_Site|KIAA0748_uc010spd.1_Missense_Mutation_p.L98M|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	98										ovary(1)|central_nervous_system(1)	2						CCCAGGGTCAAGTCATCTTCA	0.468													8	28					0	0	0.004482	0	0		T	55360985	T	T	55360985	3	4	121	1	0	0	0	0	1	0	0	0	8206	69	3	5	1297	5	KIAA0748	12	55360985	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	9005500	55360985	78490910	189	66891											
IKZF4	64375	broad.mit.edu	37	chr12	56415326	56415326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttccaaggcggcggccgcGttcgcaccccagggtctcac	5	7	13	16	5	1	0	1	0	1	0	4	0	2	0	4	4	0	3	4	4	1	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr12:56415326G>A	uc001sjb.1	+	2	208	c.49G>A	c.(49-51)GTT>ATT	p.V17I	IKZF4_uc010sqa.1_Intron|IKZF4_uc001sjc.1_Missense_Mutation_p.V17I|IKZF4_uc001sjd.1_5'UTR|IKZF4_uc009zoi.1_Intron	NM_022465	NP_071910	Q9H2S9	IKZF4_HUMAN	zinc finger protein, subfamily 1A, 4	17					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (6;0.025)|OV - Ovarian serous cystadenocarcinoma(18;0.123)			CGGCGGCCGCGTTCGCACCCC	0.647													8	6					0	0	0.006214	0	0		A	56415326	A	A	56415326	3	1	121	1	0	0	0	0	1	0	0	0	7633	1145	40	1	51	1	IKZF4	12	56415326	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	1054341	56415326	77436569	190	66892											
CAPS2	84698	broad.mit.edu	37	chr12	75698628	75698628	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctttttgctcaatggctaAattttgctctggatcactga	8	18	7	8	0	4	1	2	1	2	0	4	2	4	2	0	2	2	3	0	2	3	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr12:75698628A>C	uc001sxk.3	-	9	942	c.745T>G	c.(745-747)TTA>GTA	p.L249V	CAPS2_uc001sxm.3_Missense_Mutation_p.L17V|CAPS2_uc009zsa.2_Translation_Start_Site|CAPS2_uc001sxi.3_Missense_Mutation_p.L17V|CAPS2_uc001sxj.3_Missense_Mutation_p.L192V|CAPS2_uc001sxl.3_Missense_Mutation_p.L230V	NM_032606	NP_115995	Q9BXY5	CAYP2_HUMAN	calcyphosine 2	249							calcium ion binding			ovary(2)	2						TCAATGGCTAAATTTTGCTCT	0.313													28	26					0	0	0.00632	0	0		C	75698628	C	C	75698628	3	2	121	1	0	0	0	0	1	0	0	0	2641	11	1	5	968	5	CAPS2	12	75698628	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	19283302	75698628	58153267	191	66893											
NAV3	89795	broad.mit.edu	37	chr12	78443823	78443823	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttaaaaacatagcagacTtgaggcagaatttagaagag	18	8	10	5	0	0	5	0	1	0	4	0	5	0	5	0	1	2	3	0	1	7	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr12:78443823T>C	uc001syp.2	+	10	2247	c.2074T>C	c.(2074-2076)TTG>CTG	p.L692L	NAV3_uc001syo.2_Silent_p.L692L|NAV3_uc010sub.1_Silent_p.L192L	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	692	Potential.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CATAGCAGACTTGAGGCAGAA	0.348										HNSCC(70;0.22)			19	34					0	0	0.014323	0	0		C	78443823	C	C	78443823	2	2	121	1	0	0	0	0	0	0	0	1	10203	1606	56	3		3	NAV3	12	78443823	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	2745195	78443823	55408072	192	66894											
C12orf50	160419	broad.mit.edu	37	chr12	88383059	88383059	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctttagtatttgaacattTtgatatggtgatttctttct	9	21	6	5	0	2	3	0	3	2	0	2	3	2	3	1	1	1	1	1	1	4	9			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr12:88383059T>G	uc001tam.1	-	8	850	c.682A>C	c.(682-684)AAA>CAA	p.K228Q	C12orf50_uc001tan.2_Missense_Mutation_p.K282Q	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	228										skin(2)|ovary(1)	3						TTTGAACATTTTGATATGGTG	0.313													13	28					0	0	0.013537	0	0		G	88383059	G	G	88383059	3	3	121	1	0	0	0	0	1	0	0	0	1698	1850	64	5	586	5	C12orf50	12	88383059	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	9939236	88383059	45468836	193	66895											
KSR2	283455	broad.mit.edu	37	chr12	118198972	118198972	+	Frame_Shift_Del	DEL	G	-	-																															tgttcttcttcctcatgggcGgcgtgcccggcggggtcacg																										TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr12:118198972delG	uc001two.2	-	4	798	c.743delC	c.(742-744)CCGfs	p.P248fs		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	277	Pro-rich.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CCTCATGGGCGGCGTGCCCGG	0.706													85	151	---	---	---	---						.	-	118198972	-	-	118198972	7	5	121	1	0	1	0	1	0	0	0	0	8598	1116	39	0	2090	0	KSR2	12	118198972	Frame_Shift_Del	DEL	G	TCGA-CD-8535-01A-11D-2340-08	29815913	118198972	15652923	194	66896											
FGF9	2254	broad.mit.edu	37	chr13	22245965	22245965	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaactgcagtaagggaGgggagttggatatacctcgc	10	9	14	8	1	1	0	0	0	1	0	2	3	1	3	1	4	4	4	1	4	4	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr13:22245965G>T	uc001uog.2	+	1	751	c.-86G>T	c.(-88--84)GAGGG>GATGG			NM_002010	NP_002001	P31371	FGF9_HUMAN	fibroblast growth factor 9 precursor						cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|male gonad development|positive regulation of cell division	extracellular space	growth factor activity|heparin binding				0		all_cancers(29;1.23e-20)|all_epithelial(30;9.83e-19)|all_lung(29;9.64e-17)|Lung SC(185;0.0262)|Breast(139;0.106)		all cancers(112;3.92e-05)|Epithelial(112;0.000166)|OV - Ovarian serous cystadenocarcinoma(117;0.00314)|Lung(94;0.163)		CAGTAAGGGAGGGGAGTTGGA	0.423													15	33					1.49906e-05	1.52117e-05	0.020292	1	0		T	22245965	T	T	22245965	1	4	121	1	0	0	0	0	0	0	0	0	5873	1015	35	5		5	FGF9	13	22245965	Translation_Start_Site	SNP	G	TCGA-CD-8535-01A-11D-2340-08		22245965	92923913	195	66897											
FRY	10129	broad.mit.edu	37	chr13	32699009	32699009	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cattggagtgttggcacaagCcaagtaagtgaatgccagaa	14	8	12	7	0	0	2	0	1	0	1	0	3	0	3	2	2	2	3	2	2	5	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr13:32699009C>A	uc001utx.2	+	7	1209	c.713C>A	c.(712-714)GCC>GAC	p.A238D	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	238					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		TTGGCACAAGCCAAGTAAGTG	0.458													44	78					2.61675e-31	2.82183e-31	0.013114	1	0		A	32699009	A	A	32699009	3	1	121	1	0	0	0	0	1	0	0	0	6077	739	26	5	739	5	FRY	13	32699009	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	10453044	32699009	82470869	196	66898											
SMAD9	4093	broad.mit.edu	37	chr13	37439801	37439801	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctatgagcacacttcgggaGgaagcctggaatgtctcccc	9	9	11	12	1	2	1	0	1	2	0	4	4	2	4	3	3	2	1	3	3	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr13:37439801G>A	uc001uvw.2	-	5	1219	c.876C>T	c.(874-876)TCC>TCT	p.S292S	SMAD9_uc001uvx.2_Silent_p.S255S|SMAD9_uc010tep.1_Silent_p.S85S	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	292	MH2.				BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		CACTTCGGGAGGAAGCCTGGA	0.483													18	48					0	0	0.00499	0	0		A	37439801	A	A	37439801	2	1	121	1	0	0	0	0	0	0	0	1	14789	987	35	4		4	SMAD9	13	37439801	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	4740792	37439801	77730077	197	66899											
POSTN	10631	broad.mit.edu	37	chr13	38158997	38158997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtatttccttccagcgtctCaaagactgctcctcccataa	9	13	5	14	1	1	1	1	0	1	1	6	1	5	1	4	0	2	2	4	0	3	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr13:38158997C>T	uc001uwo.3	-	8	1082	c.964G>A	c.(964-966)GAG>AAG	p.E322K	POSTN_uc001uwp.3_Missense_Mutation_p.E322K|POSTN_uc001uwr.2_Missense_Mutation_p.E322K|POSTN_uc001uwq.2_Missense_Mutation_p.E322K|POSTN_uc010teu.1_Missense_Mutation_p.E322K|POSTN_uc010tev.1_Missense_Mutation_p.E322K|POSTN_uc010tew.1_Missense_Mutation_p.E322K|POSTN_uc010tex.1_Missense_Mutation_p.E237K	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	322	FAS1 2.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		TCCAGCGTCTCAAAGACTGCT	0.373													19	51					0	0	0.008871	0	0		T	38158997	T	T	38158997	3	4	121	1	0	0	0	0	1	0	0	0	12278	835	29	4	1610	4	POSTN	13	38158997	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	719196	38158997	77010881	198	66900											
SPERT	220082	broad.mit.edu	37	chr13	46287490	46287490	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgccccatgtcccaggcCgacctggagctggactacaa	9	5	12	15	2	0	0	0	0	0	0	1	4	1	2	5	3	3	1	5	3	2	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr13:46287490C>T	uc001van.1	+	3	410	c.330C>T	c.(328-330)GCC>GCT	p.A110A	SPERT_uc001vao.2_Silent_p.A74A	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	110						cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		TGTCCCAGGCCGACCTGGAGC	0.647													23	69					0	0	0.01892	0	0		T	46287490	T	T	46287490	2	4	121	1	0	0	0	0	0	0	0	1	15064	639	23	1		1	SPERT	13	46287490	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	8128493	46287490	68882388	199	66901											
HTR2A	3356	broad.mit.edu	37	chr13	47409677	47409677	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaaatgacacaaaagagccGatcaggacaaagttatcatc	20	6	7	8	1	2	2	2	1	0	1	3	4	2	3	1	1	1	1	1	1	6	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr13:47409677G>A	uc001vbq.2	-	3	845	c.711C>T	c.(709-711)ATC>ATT	p.I237I	HTR2A_uc001vbr.2_Silent_p.I137I|HTR2A_uc010acr.2_Silent_p.I237I	NM_000621	NP_000612	P28223	5HT2A_HUMAN	5-hydroxytryptamine receptor 2A isoform 1	237	Helical; Name=5; (By similarity).				ERK1 and ERK2 cascade|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	integral to plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|serotonin binding|serotonin receptor activity			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		all_lung(13;7.2e-10)|Lung NSC(96;3.77e-07)|Breast(56;2.06e-05)|Prostate(109;0.00116)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Myeloproliferative disorder(33;0.0333)		GBM - Glioblastoma multiforme(144;4.67e-05)|COAD - Colon adenocarcinoma(199;0.224)	Aripiprazole(DB01238)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cisapride(DB00604)|Clomipramine(DB01242)|Clozapine(DB00363)|Cyclobenzaprine(DB00924)|Cyproheptadine(DB00434)|Dihydroergotamine(DB00320)|Donepezil(DB00843)|Epinastine(DB00751)|Ergotamine(DB00696)|Fluvoxamine(DB00176)|Mesoridazine(DB00933)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Olanzapine(DB00334)|Paliperidone(DB01267)|Paroxetine(DB00715)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	CAAAAGAGCCGATCAGGACAA	0.433													37	30					0	0	0.017118	0	0		A	47409677	A	A	47409677	2	1	121	1	0	0	0	0	0	0	0	1	7457	1048	37	1		1	HTR2A	13	47409677	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	1122187	47409677	67760201	200	66902											
THSD1	55901	broad.mit.edu	37	chr13	52952250	52952250	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcagagtctggctggggcTtatggcacaactggcctgag	8	9	15	9	0	2	2	1	1	1	1	2	3	2	2	1	5	1	3	1	5	2	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr13:52952250T>G	uc001vgo.2	-	5	2400	c.1855A>C	c.(1855-1857)AGC>CGC	p.S619R	THSD1_uc001vgp.2_Missense_Mutation_p.S566R|THSD1_uc010tgz.1_Missense_Mutation_p.S240R|THSD1_uc010aea.2_Missense_Mutation_p.S80R	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	619	Cytoplasmic (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		TGGCTGGGGCTTATGGCACAA	0.622													18	65					0	0	0.006122	0	0		G	52952250	G	G	52952250	3	3	121	1	0	0	0	0	1	0	0	0	15902	1609	56	5	707	5	THSD1	13	52952250	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	5542573	52952250	62217628	201	66903											
OR4N2	390429	broad.mit.edu	37	chr14	20295670	20295670	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggtctgacccagtctcaAgatattcagctcctggtctt	7	14	8	12	0	4	2	2	1	3	1	6	2	5	2	2	2	1	1	2	2	2	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr14:20295670A>T	uc010tkv.1	+	1	63	c.63A>T	c.(61-63)CAA>CAT	p.Q21H		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	21	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CCCAGTCTCAAGATATTCAGC	0.408													44	524					0	0	0.007835	0	0		T	20295670	T	T	20295670	3	4	121	1	0	0	0	0	1	0	0	0	11096	69	3	5	65	5	OR4N2	14	20295670	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08		20295670	87053870	202	66904											
RNF31	55072	broad.mit.edu	37	chr14	24617255	24617255	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacggccgcaaccttctcaGccctcagcggcctcggtact	7	8	9	17	4	2	0	2	0	1	0	4	0	2	0	4	3	5	2	4	3	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr14:24617255G>A	uc001wmn.1	+	2	512	c.263G>A	c.(262-264)AGC>AAC	p.S88N	PSME2_uc001wmj.2_5'Flank|PSME2_uc001wmk.2_5'Flank|RNF31_uc001wml.1_5'UTR|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_5'UTR|RNF31_uc001wmo.1_5'Flank	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	88	Polyubiquitin-binding.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		AACCTTCTCAGCCCTCAGCGG	0.577													40	6					0	0	0.00623	0	0		A	24617255	A	A	24617255	3	1	121	1	0	0	0	0	1	0	0	0	13512	971	34	2	269	2	RNF31	14	24617255	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	4321585	24617255	82732285	203	66905											
PRKD1	5587	broad.mit.edu	37	chr14	30046521	30046521	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgtcactgtggctagcacTtggattgatcaggtgtgtgg	7	13	15	6	0	2	1	2	1	0	0	2	2	2	2	0	4	1	2	0	4	1	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr14:30046521T>G	uc001wqh.2	-	18	2843	c.2662A>C	c.(2662-2664)AGT>CGT	p.S888R		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	888					cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TGGCTAGCACTTGGATTGATC	0.522													50	14					0	0	0.01441	0	0		G	30046521	G	G	30046521	3	3	121	1	0	0	0	0	1	0	0	0	12540	1609	56	5	80	5	PRKD1	14	30046521	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	5429266	30046521	77303019	204	66906											
AKAP6	9472	broad.mit.edu	37	chr14	33291387	33291387	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccctgactgtttgggagaAgaattacaaggaaaacatga	16	8	10	7	0	0	4	0	2	0	2	0	6	0	5	2	2	2	1	2	2	6	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr14:33291387A>C	uc001wrq.2	+	13	4538	c.4368A>C	c.(4366-4368)GAA>GAC	p.E1456D		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1456					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		GTTTGGGAGAAGAATTACAAG	0.368													5	26					0	0	0.014758	0	0		C	33291387	C	C	33291387	3	2	121	1	0	0	0	0	1	0	0	0	455	69	3	5	4414	5	AKAP6	14	33291387	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	3244866	33291387	74058153	205	66907											
LRFN5	145581	broad.mit.edu	37	chr14	42360793	42360793	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttattcccaaactaacgggGctcaaatacaaggctgtagt	13	11	8	9	1	1	0	1	0	0	0	2	0	2	0	1	3	3	3	1	3	7	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr14:42360793G>T	uc001wvm.2	+	4	2924	c.1726G>T	c.(1726-1728)GCT>TCT	p.A576S	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	576	Cytoplasmic (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AACTAACGGGGCTCAAATACA	0.453										HNSCC(30;0.082)			24	91					3.28513e-13	3.44538e-13	0.021523	1	0		T	42360793	T	T	42360793	3	4	121	1	0	0	0	0	1	0	0	0	8959	1203	42	5	1732	5	LRFN5	14	42360793	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	9069406	42360793	64988747	206	66908											
PTGDR	5729	broad.mit.edu	37	chr14	52741454	52741454	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttcaaaacagtatcgCgcttactatggagcatttaa	12	15	6	8	2	2	0	1	0	1	0	3	1	2	1	0	1	3	3	0	1	6	8			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr14:52741454C>T	uc001wzq.2	+	2	954	c.852C>T	c.(850-852)CGC>CGT	p.R284R		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	284	Extracellular (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	AACAGTATCGCGCTTACTATG	0.398													12	19					0	0	0.013537	0	0		T	52741454	T	T	52741454	2	4	121	1	0	0	0	0	0	0	0	1	12763	755	27	1		1	PTGDR	14	52741454	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	10380661	52741454	54608086	207	66909											
TTLL5	23093	broad.mit.edu	37	chr14	76238105	76238105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccgaatagcattctctGcctatctccagcatgttcaa	10	11	7	13	1	3	0	1	0	2	0	5	1	3	0	3	1	3	3	3	1	4	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr14:76238105G>A	uc001xrx.2	+	21	2249	c.2044G>A	c.(2044-2046)GCC>ACC	p.A682T	TTLL5_uc010ask.1_Missense_Mutation_p.A696T|TTLL5_uc001xrz.2_Missense_Mutation_p.A257T|TTLL5_uc001xry.1_RNA	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	682					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		AGCATTCTCTGCCTATCTCCA	0.443													33	50					0	0	0.013726	0	0		A	76238105	A	A	76238105	3	1	121	1	0	0	0	0	1	0	0	0	16756	1319	46	2	2122	2	TTLL5	14	76238105	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	23496651	76238105	31111435	208	66910											
C14orf118	55668	broad.mit.edu	37	chr14	76621146	76621146	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctagccttcagcagaagcTgaaggtgtcagattggagct	10	10	13	8	0	2	3	2	1	0	2	2	4	2	4	1	2	5	4	1	2	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr14:76621146T>C	uc001xsh.2	+	2	526	c.440T>C	c.(439-441)CTG>CCG	p.L147P	C14orf118_uc001xsi.2_Missense_Mutation_p.L147P|C14orf118_uc001xsj.1_Missense_Mutation_p.L147P|C14orf118_uc001xsk.1_Missense_Mutation_p.L147P|C14orf118_uc001xsl.2_RNA	NM_017926	NP_060396	Q9NWQ4	CN118_HUMAN	hypothetical protein LOC55668 isoform 1	147										ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.0172)		CAGCAGAAGCTGAAGGTGTCA	0.537													22	29					0	0	0.012319	0	0		C	76621146	C	C	76621146	3	2	121	1	0	0	0	0	1	0	0	0	1744	1580	55	3	442	3	C14orf118	14	76621146	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	383041	76621146	30728394	209	66911											
C14orf177	283598	broad.mit.edu	37	chr14	99182660	99182660	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggaaatgcccaagttcTcagcacctgcagagcctaag	13	6	11	11	0	1	1	1	0	1	1	2	3	1	2	3	1	4	3	3	1	4	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr14:99182660T>C	uc001yfz.1	+	3	551	c.132T>C	c.(130-132)TCT>TCC	p.S44S		NM_182560	NP_872366	Q52M58	CN177_HUMAN	hypothetical protein LOC283598	44											0		Melanoma(154;0.128)				GCCCAAGTTCTCAGCACCTGC	0.527													12	12					0	0	0.013537	0	0		C	99182660	C	C	99182660	2	2	121	1	0	0	0	0	0	0	0	1	1763	1538	54	3		3	C14orf177	14	99182660	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	22561514	99182660	8166880	210	66912											
OR4N4	283694	broad.mit.edu	37	chr15	22383400	22383400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgacatgtagtctgtcaaGtggattttataataagaaac	14	13	9	5	1	2	1	1	0	1	1	3	3	2	2	0	1	1	1	0	1	6	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr15:22383400G>A	uc001yuc.1	+	7	1909	c.928G>A	c.(928-930)GTG>ATG	p.V310M	LOC727924_uc001yub.1_RNA|OR4N4_uc010tzv.1_Missense_Mutation_p.V310M	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		AGTCTGTCAAGTGGATTTTAT	0.284													10	16					0	0	0.006214	0	0		A	22383400	A	A	22383400	3	1	121	1	0	0	0	0	1	0	0	0	11097	1029	36	4	930	4	OR4N4	15	22383400	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08		22383400	80147992	211	66913											
ZNF770	54989	broad.mit.edu	37	chr15	35275157	35275157	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccacagattgtacatgcaTgaatattctttcttcttttc	9	18	5	9	0	3	2	0	1	3	1	4	2	3	2	1	0	3	2	1	0	3	8			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr15:35275157T>A	uc001ziw.2	-	3	790	c.479A>T	c.(478-480)CAT>CTT	p.H160L		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	160	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		TGTACATGCATGAATATTCTT	0.383													24	32					0	0	0.016522	0	0		A	35275157	A	A	35275157	3	1	121	1	0	0	0	0	1	0	0	0	18168	1464	51	5	1600	5	ZNF770	15	35275157	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	12891757	35275157	67256235	212	66914											
EHD4	30844	broad.mit.edu	37	chr15	42211597	42211597	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcgggcgtgttgatgacCttgcctagggaccacatgag	8	9	13	11	2	0	3	0	3	0	0	1	4	0	4	4	2	1	1	4	2	1	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr15:42211597C>A	uc001zot.2	-	4	798	c.735G>T	c.(733-735)AAG>AAT	p.K245N		NM_139265	NP_644670	Q9H223	EHD4_HUMAN	EH-domain containing 4	245					endocytic recycling|protein homooligomerization	early endosome membrane|endoplasmic reticulum|nucleus|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			ovary(2)	2		all_cancers(109;2.54e-12)|all_epithelial(112;6.59e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		OV - Ovarian serous cystadenocarcinoma(18;1.6e-19)|GBM - Glioblastoma multiforme(94;3.77e-06)|COAD - Colon adenocarcinoma(120;0.0474)|Colorectal(105;0.0538)		TGTTGATGACCTTGCCTAGGG	0.637													13	27					3.27435e-08	3.38251e-08	0.020292	1	0		A	42211597	A	A	42211597	3	1	121	1	0	0	0	0	1	0	0	0	4986	680	24	5	902	5	EHD4	15	42211597	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	6936440	42211597	60319795	213	66915											
SEMA6D	80031	broad.mit.edu	37	chr15	48055225	48055225	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttcagagccacactttcTtcatgccatagaatatggaa	12	13	6	10	0	4	2	2	0	2	2	4	3	4	3	2	1	2	0	2	1	4	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr15:48055225T>G	uc010bek.2	+	9	1031	c.671T>G	c.(670-672)CTT>CGT	p.L224R	SEMA6D_uc001zvw.2_Missense_Mutation_p.L224R|SEMA6D_uc001zvx.1_Missense_Mutation_p.L224R|SEMA6D_uc001zvy.2_Missense_Mutation_p.L224R|SEMA6D_uc001zvz.2_Missense_Mutation_p.L224R|SEMA6D_uc001zwa.2_Missense_Mutation_p.L224R|SEMA6D_uc001zwb.2_Missense_Mutation_p.L224R|SEMA6D_uc001zwc.2_Missense_Mutation_p.L224R	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	224	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		CCACACTTTCTTCATGCCATA	0.358													10	14					0	0	0.008291	0	0		G	48055225	G	G	48055225	3	3	121	1	0	0	0	0	1	0	0	0	14067	1609	56	5	701	5	SEMA6D	15	48055225	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	5843628	48055225	54476167	214	66916											
SLC12A1	6557	broad.mit.edu	37	chr15	48594956	48594956	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtcattaggagccttccCgtggcaagaaagggatccat	11	9	11	10	1	1	1	1	0	0	1	3	3	3	3	3	3	1	1	3	3	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr15:48594956C>T	uc001zwn.3	+	27	3390	c.3174C>T	c.(3172-3174)CCC>CCT	p.P1058P	SLC12A1_uc001zwq.3_Silent_p.P829P|SLC12A1_uc001zwr.3_Silent_p.P785P	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	1058	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	GGAGCCTTCCCGTGGCAAGAA	0.383													22	26					0	0	0.021523	0	0		T	48594956	T	T	48594956	2	4	121	1	0	0	0	0	0	0	0	1	14407	639	23	1		1	SLC12A1	15	48594956	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	539731	48594956	53936436	215	66917											
GLDN	342035	broad.mit.edu	37	chr15	51687172	51687172	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtccaacgacgtgctcCtggcaggtaagaggggtacg	9	8	15	9	3	0	1	0	0	0	1	2	2	2	1	2	4	3	4	2	4	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr15:51687172C>T	uc002aba.2	+	5	851	c.682C>T	c.(682-684)CTG>TTG	p.L228L	GLDN_uc002abb.2_Silent_p.L104L	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	228	Extracellular (Potential).				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		CGACGTGCTCCTGGCAGGTAA	0.587													8	4					0	0	0.00308	0	0		T	51687172	T	T	51687172	2	4	121	1	0	0	0	0	0	0	0	1	6449	680	24	4		4	GLDN	15	51687172	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	3092216	51687172	50844220	216	66918											
ZNF280D	54816	broad.mit.edu	37	chr15	56924164	56924164	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatttgaatcacaactgacGatgttttttgagccagtttc	11	16	7	7	1	1	3	1	3	0	0	2	4	1	3	1	0	2	2	1	0	3	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr15:56924164G>T	uc002adu.2	-	22	2689	c.2472C>A	c.(2470-2472)ATC>ATA	p.I824I	uc002ads.2_5'Flank|ZNF280D_uc002adv.2_Silent_p.I811I|ZNF280D_uc010bfq.2_Silent_p.I824I|ZNF280D_uc002adt.2_Silent_p.I65I|ZNF280D_uc010bfp.2_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	824					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		CACAACTGACGATGTTTTTTG	0.368													45	68					4.64027e-19	4.94195e-19	0.01441	1	0		T	56924164	T	T	56924164	2	4	121	1	0	0	0	0	0	0	0	1	17842	1048	37	5		5	ZNF280D	15	56924164	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	5236992	56924164	45607228	217	66919											
RORA	6095	broad.mit.edu	37	chr15	60919479	60919479	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgggtgtggcagacattCtggcctgtccagttcgaaga	7	11	15	8	1	1	2	0	0	1	2	3	3	2	2	2	3	0	2	2	3	1	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr15:60919479C>A	uc002agv.2	-	1	251	c.95G>T	c.(94-96)AGA>ATA	p.R32I	RORA_uc002agw.2_Missense_Mutation_p.R32I|RORA_uc002agx.2_Intron	NM_134260	NP_599022	P35398	RORA_HUMAN	RAR-related orphan receptor A isoform b	32	Modulating.				positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			large_intestine(1)|ovary(1)	2						GGCAGACATTCTGGCCTGTCC	0.373													19	34					1.2644e-06	1.29067e-06	0.010504	1	0		A	60919479	A	A	60919479	3	1	121	1	0	0	0	0	1	0	0	0	13553	913	32	5	1796	5	RORA	15	60919479	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	3995315	60919479	41611913	218	66920											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84659886	84659886	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatatcaccaaaccagagcAcaaccatctgtctgttgtgg	14	9	7	11	0	3	1	1	0	2	1	3	1	3	1	3	1	3	2	3	1	4	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr15:84659886A>C	uc002bjz.3	+	23	4117	c.3893A>C	c.(3892-3894)CAC>CCC	p.H1298P	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.H1298P|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.H1298P	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	1298	Ig-like C2-type 3.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			AAACCAGAGCACAACCATCTG	0.458													66	90					0	0	0.01441	0	0		C	84659886	C	C	84659886	3	2	121	1	0	0	0	0	1	0	0	0	276	159	6	5	3979	5	ADAMTSL3	15	84659886	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	23740407	84659886	17871506	219	66921											
MESP2	145873	broad.mit.edu	37	chr15	90321444	90321444	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caactcagaggaccagggacCgggcgccgccttccagctca	9	4	12	16	3	2	1	2	0	0	1	3	3	3	3	5	3	2	1	5	3	1	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr15:90321444C>A	uc002bon.2	+	2	1073	c.1073C>A	c.(1072-1074)CCG>CAG	p.P358Q	MESP2_uc010uqa.1_Missense_Mutation_p.P60Q	NM_001039958	NP_001035047	Q0VG99	MESP2_HUMAN	mesoderm posterior 2 homolog	358					Notch signaling pathway	nucleus	DNA binding				0	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)			GACCAGGGACCGGGCGCCGCC	0.657													10	9					0.00829132	0.00836426	0.008291	1	0		A	90321444	A	A	90321444	3	1	121	1	0	0	0	0	1	0	0	0	9501	652	23	5	1079	5	MESP2	15	90321444	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	5661558	90321444	12209948	220	66922											
RAB11FIP3	9727	broad.mit.edu	37	chr16	511421	511421	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtgaaggacttaactaaGtacttggatcccagtgggct	11	10	12	8	0	0	1	0	1	0	0	1	3	1	3	1	4	2	2	1	4	4	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr16:511421G>C	uc002chf.2	+	2	1071	c.732G>C	c.(730-732)AAG>AAC	p.K244N		NM_014700	NP_055515	O75154	RFIP3_HUMAN	rab11-family interacting protein 3 isoform 1	244	EF-hand 2.				cell cycle|cytokinesis|endocytic recycling|protein transport	centrosome|cleavage furrow|midbody|recycling endosome membrane	ADP-ribosylation factor binding|calcium ion binding|protein homodimerization activity|Rab GTPase binding				0		Hepatocellular(16;0.0218)				ACTTAACTAAGTACTTGGATC	0.398													4	50					0	0	0.014758	0	0		C	511421	C	C	511421	3	2	121	1	0	0	0	0	1	0	0	0	12920	1020	36	5	738	5	RAB11FIP3	16	511421	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08		511421	89843332	221	66923											
HS3ST2	9956	broad.mit.edu	37	chr16	22926778	22926778	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaatcaaaagggagaacTcatgtacagattgatcctga	16	8	10	7	0	2	4	2	2	0	2	3	5	3	4	1	2	2	2	1	2	5	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr16:22926778T>C	uc002dli.2	+	2	1071	c.999T>C	c.(997-999)ACT>ACC	p.T333T	HS3ST2_uc002dlj.2_RNA	NM_006043	NP_006034	Q9Y278	HS3S2_HUMAN	heparan sulfate D-glucosaminyl	333	PAPS and substrate (By similarity).|Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 2 activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(48;0.0299)		AAGGGAGAACTCATGTACAGA	0.423													55	115					0	0	0.01441	0	0		C	22926778	C	C	22926778	2	2	121	1	0	0	0	0	0	0	0	1	7380	1538	54	3		3	HS3ST2	16	22926778	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	22415357	22926778	67427975	222	66924											
PRKCB	5579	broad.mit.edu	37	chr16	24104114	24104114	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctttttctttttcagtaAgagatgctaaaaaccttgta	11	17	6	7	0	2	1	1	0	1	1	2	2	2	1	1	0	3	4	1	0	5	8			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr16:24104114A>C	uc002dmd.2	+	6	729	c.532A>C	c.(532-534)AGA>CGA	p.R178R	PRKCB_uc002dme.2_Silent_p.R178R	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	178	C2.				apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	TTTTTCAGTAAGAGATGCTAA	0.418													53	43					0	0	0.01441	0	0		C	24104114	C	C	24104114	2	2	121	1	0	0	0	0	0	0	0	1	12530	64	3	5		5	PRKCB	16	24104114	Silent	SNP	A	TCGA-CD-8535-01A-11D-2340-08	1177336	24104114	66250639	223	66925											
TMEM231	79583	broad.mit.edu	37	chr16	75575315	75575315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcatctgcggccctgcccaCcagccagatggggttgggat	7	7	14	13	1	1	1	0	0	1	1	1	2	1	2	4	4	4	2	4	4	0	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr16:75575315C>T	uc002fem.2	-	6	766	c.703G>A	c.(703-705)GTG>ATG	p.V235M	CHST5_uc002fej.1_Intron|TMEM231_uc002fek.2_Missense_Mutation_p.V264M|TMEM231_uc002fel.2_Missense_Mutation_p.V119M|TMEM231_uc010vne.1_Missense_Mutation_p.V88M|TMEM231_uc010cgx.1_Missense_Mutation_p.V199M	NM_001077418	NP_001070886	Q9H6L2	TM231_HUMAN	transmembrane protein 231 isoform 2	235						integral to membrane					0						GCCCTGCCCACCAGCCAGATG	0.453													15	15					0	0	0.00499	0	0		T	75575315	T	T	75575315	3	4	121	1	0	0	0	0	1	0	0	0	16174	507	18	4	255	4	TMEM231	16	75575315	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	51471201	75575315	14779438	224	66926											
ADAMTS18	170692	broad.mit.edu	37	chr16	77334269	77334269	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgggaagtgcatacttccaAgctatccctggatttttgcc	8	14	9	10	0	0	0	0	0	0	0	2	2	2	2	3	2	4	2	3	2	4	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr16:77334269A>T	uc002ffc.3	-	17	2984	c.2565T>A	c.(2563-2565)GCT>GCA	p.A855A	ADAMTS18_uc010chc.1_Silent_p.A443A|ADAMTS18_uc002ffe.1_Silent_p.A551A	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	855	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						CATACTTCCAAGCTATCCCTG	0.458													20	55					0	0	0.007413	0	0		T	77334269	T	T	77334269	2	4	121	1	0	0	0	0	0	0	0	1	263	59	3	5		5	ADAMTS18	16	77334269	Silent	SNP	A	TCGA-CD-8535-01A-11D-2340-08	1758954	77334269	13020484	225	66927											
OR1E1	8387	broad.mit.edu	37	chr17	3301149	3301149	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtcagagaaggccagctTcagcagagcagacatatcac	14	6	11	10	0	3	3	3	0	0	3	3	4	3	3	1	1	3	3	1	1	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:3301149T>G	uc002fvj.1	-	1	556	c.556A>C	c.(556-558)AAG>CAG	p.K186Q		NM_003553	NP_003544	P30953	OR1E1_HUMAN	olfactory receptor, family 1, subfamily E,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AAGGCCAGCTTCAGCAGAGCA	0.463													24	22					0	0	0.016522	0	0		G	3301149	G	G	3301149	3	3	121	1	0	0	0	0	1	0	0	0	10973	1792	62	5	392	5	OR1E1	17	3301149	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08		3301149	77894061	226	66928											
TRPV1	7442	broad.mit.edu	37	chr17	3495503	3495503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcacccttcccaaagagccGggtgcggctcttggccgtgg	5	8	14	14	3	2	1	1	0	1	1	3	1	3	1	4	4	2	1	4	4	1	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:3495503G>A	uc010vrr.1	-	1	669	c.142C>T	c.(142-144)CGG>TGG	p.R48W	TRPV1_uc010vro.1_Missense_Mutation_p.R48W|TRPV1_uc010vrp.1_Missense_Mutation_p.R48W|TRPV1_uc010vrq.1_Silent_p.P22P|TRPV1_uc010vrs.1_Missense_Mutation_p.R48W|TRPV1_uc010vrt.1_Missense_Mutation_p.R48W|TRPV1_uc010vru.1_Missense_Mutation_p.R48W	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	48	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	CCAAAGAGCCGGGTGCGGCTC	0.642													5	2					0	0	0.001984	0	0		A	3495503	A	A	3495503	3	1	121	1	0	0	0	0	1	0	0	0	16621	1115	39	1	2110	1	TRPV1	17	3495503	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	194354	3495503	77699707	227	66929											
C17orf74	201243	broad.mit.edu	37	chr17	7330106	7330106	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgccacggttcccaatccCgactgtggggcaatgtggag	7	7	15	12	3	0	0	0	0	0	0	2	2	2	1	3	5	0	2	3	5	2	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:7330106C>T	uc002ggw.2	+	3	869	c.796C>T	c.(796-798)CGA>TGA	p.R266*	FGF11_uc010vtw.1_Intron	NM_175734	NP_783861	Q0P670	CQ074_HUMAN	hypothetical protein LOC201243	266						integral to membrane					0		Prostate(122;0.157)				TTCCCAATCCCGACTGTGGGG	0.662													9	21					0	0	0.004482	0	0		T	7330106	T	T	7330106	4	4	121	1	0	0	0	0	0	1	0	0	1882	644	23	1	806	1	C17orf74	17	7330106	Nonsense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	3834603	7330106	73865104	228	66930											
TP53	7157	broad.mit.edu	37	chr17	7577022	7577022	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtcctgcttgcttacctcGcttagtgctccctgggggca	3	14	11	13	1	0	0	0	0	0	0	3	0	2	0	3	2	4	5	3	2	2	4	rs121913344		TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:7577022G>A	uc002gim.2	-	8	1110	c.916C>T	c.(916-918)CGA>TGA	p.R306*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.R306*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R174*|TP53_uc010cng.1_Nonsense_Mutation_p.R174*|TP53_uc002gii.1_Nonsense_Mutation_p.R174*|TP53_uc010cnh.1_Nonsense_Mutation_p.R306*|TP53_uc010cni.1_Nonsense_Mutation_p.R306*|TP53_uc002gij.2_Nonsense_Mutation_p.R306*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	306	Bipartite nuclear localization signal.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.		R -> Q (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R306*(99)|p.0?(7)|p.?(3)|p.R306R(2)|p.R306fs*39(2)|p.K305fs*1(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TGCTTACCTCGCTTAGTGCTC	0.562	R306*(MFE296_ENDOMETRIUM)|R306*(HCC1937_BREAST)|R306*(MOLT4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R306*(RCM1_LARGE_INTESTINE)|R306*(JURLMK1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			37	7					0	0	0.006999	0	0		A	7577022	A	A	7577022	4	1	121	1	0	0	0	0	0	1	0	0	16407	1095	38	1	370	1	TP53	17	7577022	Nonsense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	246916	7577022	73618188	229	66931											
RCVRN	5957	broad.mit.edu	37	chr17	9808171	9808171	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcccgttaccgtccacgtcGtagagggagaaggcccactc	8	7	12	14	4	0	2	0	0	0	2	4	3	2	2	4	2	1	2	4	2	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:9808171G>A	uc002gme.1	-	1	514	c.327C>T	c.(325-327)TAC>TAT	p.Y109Y		NM_002903	NP_002894	P35243	RECO_HUMAN	recoverin	109	EF-hand 3.				visual perception		calcium ion binding|calcium sensitive guanylate cyclase activator activity				0						CGTCCACGTCGTAGAGGGAGA	0.617													24	47					0	0	0.005443	0	0		A	9808171	A	A	9808171	2	1	121	1	0	0	0	0	0	0	0	1	13211	1140	40	1		1	RCVRN	17	9808171	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	2231149	9808171	71387039	230	66932											
MYH4	4622	broad.mit.edu	37	chr17	10346803	10346803	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcctcctccagctcgtgctgGagcttgcggaacttggcaag	6	9	13	13	2	0	0	0	0	0	0	3	2	2	2	3	3	5	4	3	3	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:10346803G>A	uc002gmn.2	-	40	5820	c.5709C>T	c.(5707-5709)CTC>CTT	p.L1903L	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1903	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						GCTCGTGCTGGAGCTTGCGGA	0.468													33	48					0	0	0.013726	0	0		A	10346803	A	A	10346803	2	1	121	1	0	0	0	0	0	0	0	1	10055	1161	41	4		4	MYH4	17	10346803	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	538632	10346803	70848407	231	66933											
ZNF286A	57335	broad.mit.edu	37	chr17	15619704	15619704	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttccatacacttgaaaaAagcttgaaacaaaaatcaaa	20	8	4	9	0	1	2	1	2	0	0	2	2	2	2	2	0	3	1	2	0	8	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:15619704A>T	uc010cot.2	+	6	1062	c.666A>T	c.(664-666)AAA>AAT	p.K222N	ZNF286A_uc002goz.3_Missense_Mutation_p.K110N|ZNF286A_uc010vwa.1_Missense_Mutation_p.K222N|ZNF286A_uc002gpa.2_Missense_Mutation_p.K222N	NM_001130842	NP_001124314	Q9HBT8	Z286A_HUMAN	zinc finger protein 286	222					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(1115;0.0222)|BRCA - Breast invasive adenocarcinoma(8;0.0781)		CACTTGAAAAAAGCTTGAAAC	0.333													11	19					0	0	0.013537	0	0		T	15619704	T	T	15619704	3	4	121	1	0	0	0	0	1	0	0	0	17848	11	1	5	684	5	ZNF286A	17	15619704	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	5272901	15619704	65575506	232	66934											
PIGL	9487	broad.mit.edu	37	chr17	16221220	16221220	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagaagtggcacaggccAaggtgaggattgtaaattcc	14	7	13	7	0	0	2	0	1	0	1	1	3	1	3	2	4	0	3	2	4	5	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:16221220A>C	uc002gpv.2	+	6	690	c.658A>C	c.(658-660)AAG>CAG	p.K220Q		NM_004278	NP_004269	Q9Y2B2	PIGL_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	220	Cytoplasmic (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	N-acetylglucosaminylphosphatidylinositol deacetylase activity				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0934)		GGCACAGGCCAAGGTGAGGAT	0.542													36	6					0	0	0.015359	0	0		C	16221220	C	C	16221220	3	2	121	1	0	0	0	0	1	0	0	0	11910	131	5	5	680	5	PIGL	17	16221220	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	601516	16221220	64973990	233	66935											
CYTSB	92521	broad.mit.edu	37	chr17	19999988	19999988	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cggagtgcagccaagccctgGaacccagccatcagagcagg	11	3	13	14	1	1	1	1	0	0	1	1	3	1	3	4	3	6	2	4	3	2	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:19999988G>A	uc002gwq.2	+	2	169	c.24G>A	c.(22-24)TGG>TGA	p.W8*	CYTSB_uc010cqx.2_Nonsense_Mutation_p.W8*|CYTSB_uc002gwr.2_Nonsense_Mutation_p.W8*|CYTSB_uc002gws.2_Nonsense_Mutation_p.W8*	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	8						nucleus					0						CCAAGCCCTGGAACCCAGCCA	0.567													32	46					0	0	0.009535	0	0		A	19999988	A	A	19999988	4	1	121	1	0	0	0	0	0	1	0	0	4213	1183	41	4	26	4	CYTSB	17	19999988	Nonsense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	3778768	19999988	61195222	234	66936											
KCNJ12	3768	broad.mit.edu	37	chr17	21319358	21319358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgcgcagctcatcaagcCgcgggtcaccgaggagggcg	7	3	17	14	7	3	0	3	0	0	0	3	2	3	1	2	3	2	2	2	3	1	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:21319358C>T	uc002gyv.1	+	3	1409	c.704C>T	c.(703-705)CCG>CTG	p.P235L		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	235	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	CTCATCAAGCCGCGGGTCACC	0.637										Prostate(3;0.18)			3	20					0	0	0.004672	0	0		T	21319358	T	T	21319358	3	4	121	1	0	0	0	0	1	0	0	0	8062	652	23	1	706	1	KCNJ12	17	21319358	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	1319370	21319358	59875852	235	66937											
VTN	7448	broad.mit.edu	37	chr17	26695926	26695926	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacccgctcccggccactgtAgctatgggcagggagggcca	7	5	15	14	2	0	0	0	0	0	0	1	2	1	1	4	4	1	4	4	4	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:26695926A>G	uc002hbc.2	-	5	942	c.793T>C	c.(793-795)TAC>CAC	p.Y265H	SARM1_uc010wah.1_Intron|SEBOX_uc010crk.1_5'Flank|SARM1_uc010waj.1_Intron	NM_000638	NP_000629	P04004	VTNC_HUMAN	vitronectin precursor	265	Hemopexin-like 3.				cell adhesion mediated by integrin|immune response|negative regulation of endopeptidase activity|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein binding|positive regulation of receptor-mediated endocytosis|positive regulation of smooth muscle cell migration|positive regulation of vascular endothelial growth factor receptor signaling pathway|smooth muscle cell-matrix adhesion	alphav-beta3 integrin-vitronectin complex|extracellular space	heparin binding|integrin binding|scavenger receptor activity			ovary(1)|kidney(1)	2	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Urokinase(DB00013)	CGGCCACTGTAGCTATGGGCA	0.577													34	59					0	0	0.010818	0	0		G	26695926	G	G	26695926	3	3	121	1	0	0	0	0	1	0	0	0	17263	420	15	3	659	3	VTN	17	26695926	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	5376568	26695926	54499284	236	66938											
TMEM132E	124842	broad.mit.edu	37	chr17	32953468	32953468	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaaggtgcgggccttcatCgtccgctcgcacgtgcccgc	4	8	14	15	6	1	0	1	0	0	0	4	1	2	1	3	3	2	2	3	3	1	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:32953468C>T	uc002hif.2	+	2	718	c.390C>T	c.(388-390)ATC>ATT	p.I130I		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	130	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		GGGCCTTCATCGTCCGCTCGC	0.701													8	16					0	0	0.00308	0	0		T	32953468	T	T	32953468	2	4	121	1	0	0	0	0	0	0	0	1	16073	874	31	1		1	TMEM132E	17	32953468	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	6257542	32953468	48241742	237	66939											
AP2B1	163	broad.mit.edu	37	chr17	33951554	33951554	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatggggccagattttcAtcctggactgcctgtctaat	8	13	10	10	0	2	2	1	1	1	1	3	3	3	3	3	3	1	0	3	3	2	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:33951554A>T	uc002hjr.2	+	6	853	c.664A>T	c.(664-666)ATC>TTC	p.I222F	AP2B1_uc002hjq.2_Missense_Mutation_p.I222F|AP2B1_uc010wci.1_Missense_Mutation_p.I184F|AP2B1_uc002hjs.2_Missense_Mutation_p.I165F|AP2B1_uc002hjt.2_Missense_Mutation_p.I222F|AP2B1_uc010ctv.2_Missense_Mutation_p.I222F|AP2B1_uc010wcj.1_5'UTR	NM_001282	NP_001273	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1	222					axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|coated pit|cytosol|endocytic vesicle membrane|plasma membrane	clathrin binding|protein transporter activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		CCAGATTTTCATCCTGGACTG	0.468													31	54					0	0	0.010818	0	0		T	33951554	T	T	33951554	3	4	121	1	0	0	0	0	1	0	0	0	741	217	8	5	682	5	AP2B1	17	33951554	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	998086	33951554	47243656	238	66940											
KCNH4	23415	broad.mit.edu	37	chr17	40315668	40315668	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaggttcccagtgggggaatGagaagctgagggggcttcca	10	7	17	7	0	0	2	0	2	0	1	2	4	2	3	2	5	1	3	2	5	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:40315668G>C	uc002hzb.2	-	13	2766	c.2433C>G	c.(2431-2433)CTC>CTG	p.L811L		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	811	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	two-component sensor activity|voltage-gated potassium channel activity			large_intestine(1)	1		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		GTGGGGGAATGAGAAGCTGAG	0.652													7	9					0	0	0.001984	0	0		C	40315668	C	C	40315668	2	2	121	1	0	0	0	0	0	0	0	1	8050	1277	45	5		5	KCNH4	17	40315668	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	6364114	40315668	40879542	239	66941											
UBE2Z	65264	broad.mit.edu	37	chr17	46998578	46998578	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtatccggcacgagaccatCagagttgcagtctgtgacat	10	10	11	10	2	2	3	1	1	1	2	3	4	3	3	2	1	1	4	2	1	1	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:46998578C>G	uc002ioi.2	+	5	846	c.747C>G	c.(745-747)ATC>ATG	p.I249M		NM_023079	NP_075567	Q9H832	UBE2Z_HUMAN	ubiquitin-conjugating enzyme E2Z	249					apoptosis	cytoplasm|nucleus	ATP binding|ubiquitin-protein ligase activity				0						ACGAGACCATCAGAGTTGCAG	0.448													4	16					0	0	0.014758	0	0		G	46998578	G	G	46998578	3	3	121	1	0	0	0	0	1	0	0	0	16904	816	29	5	765	5	UBE2Z	17	46998578	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	6682910	46998578	34196632	240	66942											
CACNA1G	8913	broad.mit.edu	37	chr17	48646631	48646631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgggagacacttggaacCggcttgactttttcatcgtc	8	12	10	11	2	1	2	1	1	0	1	3	4	1	3	2	3	1	1	2	3	1	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:48646631C>T	uc002irk.1	+	3	832	c.460C>T	c.(460-462)CGG>TGG	p.R154W	CACNA1G_uc002iri.1_Missense_Mutation_p.R154W|CACNA1G_uc002irj.1_Missense_Mutation_p.R154W|CACNA1G_uc002irl.1_Missense_Mutation_p.R154W|CACNA1G_uc002irm.1_Missense_Mutation_p.R154W|CACNA1G_uc002irn.1_Missense_Mutation_p.R154W|CACNA1G_uc002iro.1_Missense_Mutation_p.R154W|CACNA1G_uc002irp.1_Missense_Mutation_p.R154W|CACNA1G_uc002irq.1_Missense_Mutation_p.R154W|CACNA1G_uc002irr.1_Missense_Mutation_p.R154W|CACNA1G_uc002irs.1_Missense_Mutation_p.R154W|CACNA1G_uc002irt.1_Missense_Mutation_p.R154W|CACNA1G_uc002irv.1_Missense_Mutation_p.R154W|CACNA1G_uc002irw.1_Missense_Mutation_p.R154W|CACNA1G_uc002iru.1_Missense_Mutation_p.R154W|CACNA1G_uc002irx.1_Missense_Mutation_p.R67W|CACNA1G_uc002iry.1_Missense_Mutation_p.R67W|CACNA1G_uc002irz.1_Missense_Mutation_p.R67W|CACNA1G_uc002isa.1_Missense_Mutation_p.R67W|CACNA1G_uc002isb.1_Missense_Mutation_p.R67W|CACNA1G_uc002isc.1_Missense_Mutation_p.R67W|CACNA1G_uc002isd.1_Missense_Mutation_p.R67W|CACNA1G_uc002ise.1_Missense_Mutation_p.R67W|CACNA1G_uc002isf.1_Missense_Mutation_p.R67W|CACNA1G_uc002isg.1_Missense_Mutation_p.R67W|CACNA1G_uc002ish.1_Missense_Mutation_p.R67W|CACNA1G_uc002isi.1_Missense_Mutation_p.R67W	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	154	I.|Helical; Name=S3 of repeat I; (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	CACTTGGAACCGGCTTGACTT	0.562													16	55					0	0	0.004007	0	0		T	48646631	T	T	48646631	3	4	121	1	0	0	0	0	1	0	0	0	2547	643	23	1	470	1	CACNA1G	17	48646631	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	1648053	48646631	32548579	241	66943											
TLK2	11011	broad.mit.edu	37	chr17	60637416	60637416	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcagattgatgaacagcaaAagatgctagagaaatacaag	19	6	11	5	0	0	5	0	2	0	3	0	6	0	5	0	1	4	3	0	1	7	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:60637416A>C	uc010ddp.2	+	10	1028	c.760A>C	c.(760-762)AAG>CAG	p.K254Q	TLK2_uc002izx.3_Missense_Mutation_p.K102Q|TLK2_uc002izz.3_Missense_Mutation_p.K254Q|TLK2_uc002jaa.3_Missense_Mutation_p.K222Q|TLK2_uc010wpd.1_Missense_Mutation_p.K222Q	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	254	Potential.				cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						TGAACAGCAAAAGATGCTAGA	0.343													15	40					0	0	0.008871	0	0		C	60637416	C	C	60637416	3	2	121	1	0	0	0	0	1	0	0	0	15969	15	1	5	794	5	TLK2	17	60637416	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	11990785	60637416	20557794	242	66944											
PSMC5	5705	broad.mit.edu	37	chr17	61907794	61907796	+	In_Frame_Del	DEL	AAG	-	-																															caaacagatcaaggagatcaAagaagtgatcgagctgcctg																										TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:61907794_61907796delAAG	uc002jcb.2	+	6	526_528	c.485_487delAAG	c.(484-489)AAAGAA>AAA	p.E163del	FTSJ3_uc002jca.2_5'Flank|PSMC5_uc010ddy.2_In_Frame_Del_p.E140del|PSMC5_uc010ddz.2_In_Frame_Del_p.E84del|PSMC5_uc002jcc.2_In_Frame_Del_p.E155del|PSMC5_uc002jcd.2_In_Frame_Del_p.E155del	NM_002805	NP_002796	P62195	PRS8_HUMAN	proteasome 26S ATPase subunit 5	163					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of programmed cell death|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|thyrotropin-releasing hormone receptor binding|transcription cofactor activity|transcription factor binding			large_intestine(1)	1						AAGGAGATCAAAGAAGTGATCGA	0.493													26	31	---	---	---	---						.	-	61907796	-	-	61907794	7	5	121	1	0	1	0	1	0	0	0	0	12712	14	1	0	507	0	PSMC5	17	61907794	In_Frame_Del	DEL	AAG	TCGA-CD-8535-01A-11D-2340-08	1270378	61907794	19287416	243	66945											
EVPL	2125	broad.mit.edu	37	chr17	74006521	74006521	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccgcttcctctcctctTccagctgggccttcagggcc	3	10	8	20	1	3	0	1	0	2	0	6	0	5	0	7	2	1	2	7	2	0	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:74006521T>A	uc002jqi.2	-	22	2993	c.2765A>T	c.(2764-2766)GAA>GTA	p.E922V	EVPL_uc010wss.1_Missense_Mutation_p.E944V|EVPL_uc010wst.1_Missense_Mutation_p.E392V	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	922	Central fibrous rod domain.|Potential.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CCTCTCCTCTTCCAGCTGGGC	0.652													8	19					0	0	0.004482	0	0		A	74006521	A	A	74006521	3	1	121	1	0	0	0	0	1	0	0	0	5300	1783	62	5	3340	5	EVPL	17	74006521	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	12098727	74006521	7188689	244	66946											
ENPP7	339221	broad.mit.edu	37	chr17	77708875	77708875	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccttcttctacccgggcGggaacgtcacctaccaaggg	7	8	11	15	3	3	0	1	0	2	0	4	1	4	1	4	3	3	1	4	3	4	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr17:77708875G>A	uc002jxa.2	+	3	453	c.433G>A	c.(433-435)GGG>AGG	p.G145R		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	145					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CTACCCGGGCGGGAACGTCAC	0.592													12	14					0	0	0.016723	0	0		A	77708875	A	A	77708875	3	1	121	1	0	0	0	0	1	0	0	0	5143	1116	39	1	443	1	ENPP7	17	77708875	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	3702354	77708875	3486335	245	66947											
LAMA1	284217	broad.mit.edu	37	chr18	6943298	6943298	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatacggtgtttgcttttgTtagcttgaagagtgtgccat	7	17	12	5	1	0	3	0	2	0	1	0	3	0	3	1	1	4	4	1	1	3	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr18:6943298T>G	uc002knm.2	-	62	9042	c.8948A>C	c.(8947-8949)AAC>ACC	p.N2983T	LAMA1_uc002knk.2_Missense_Mutation_p.N313T|LAMA1_uc002knl.2_Missense_Mutation_p.N436T|LAMA1_uc010wzj.1_Missense_Mutation_p.N2459T	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2983	Laminin G-like 5.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTTGCTTTTGTTAGCTTGAAG	0.488													64	48					0	0	0.01441	0	0		G	6943298	G	G	6943298	3	3	121	1	0	0	0	0	1	0	0	0	8621	1725	60	5	287	5	LAMA1	18	6943298	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08		6943298	71133950	246	66948											
LAMA1	284217	broad.mit.edu	37	chr18	7034595	7034595	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgctgtgaaaatcttggAagttttcaggcacaagtcta	11	15	9	6	0	3	1	1	1	2	0	3	2	3	2	0	2	1	3	0	2	5	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr18:7034595A>T	uc002knm.2	-	14	2028	c.1934T>A	c.(1933-1935)TTC>TAC	p.F645Y	LAMA1_uc010wzj.1_Missense_Mutation_p.F121Y	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	645	Laminin IV type A 1.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAAATCTTGGAAGTTTTCAGG	0.448													53	38					0	0	0.01441	0	0		T	7034595	T	T	7034595	3	4	121	1	0	0	0	0	1	0	0	0	8621	246	9	5	7493	5	LAMA1	18	7034595	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	91297	7034595	71042653	247	66949											
LAMA3	3909	broad.mit.edu	37	chr18	21357584	21357584	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtagctggagatataaaagGcaagtaacctcccttttggt	13	11	10	7	0	0	1	0	0	0	1	1	2	1	1	2	3	2	4	2	3	6	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr18:21357584G>T	uc002kuq.2	+	11	1554	c.1468_splice	c.e11+1	p.G490_splice	LAMA3_uc010dlv.1_Splice_Site_p.G490_splice|LAMA3_uc002kur.2_Splice_Site_p.G490_splice	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1						cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GATATAAAAGGCAAGTAACCT	0.388													9	58					9.70103e-10	1.0082e-09	0.008291	1	0		T	21357584	T	T	21357584	5	4	121	1	0	0	0	0	0	0	1	0	8623	1217	42	5	1511	5	LAMA3	18	21357584	Splice_Site	SNP	G	TCGA-CD-8535-01A-11D-2340-08	14322989	21357584	56719664	248	66950											
RIT2	6014	broad.mit.edu	37	chr18	40323528	40323528	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggctgtcttttctcttcAgtttcttttccatcaaggat	7	18	6	10	0	5	0	2	0	3	0	7	1	6	1	1	2	0	2	1	2	1	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr18:40323528A>C	uc002lav.2	-	5	757	c.584T>G	c.(583-585)CTG>CGG	p.L195R	RIT2_uc010dnf.2_3'UTR	NM_002930	NP_002921	Q99578	RIT2_HUMAN	Ras-like without CAAX 2	195					nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1						TTTTCTCTTCAGTTTCTTTTC	0.423													24	82					0	0	0.01892	0	0		C	40323528	C	C	40323528	3	2	121	1	0	0	0	0	1	0	0	0	13412	188	7	5	73	5	RIT2	18	40323528	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	18965944	40323528	37753720	249	66951											
PIAS2	9063	broad.mit.edu	37	chr18	44470842	44470842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaaagtccttcaagagttCgtggatatcggcgtctatac	11	11	10	9	3	2	2	1	0	1	2	5	3	3	3	1	2	1	1	1	2	5	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr18:44470842C>T	uc002lck.2	-	2	358	c.200G>A	c.(199-201)CGA>CAA	p.R67Q	PIAS2_uc010dnp.2_5'UTR|PIAS2_uc002lcl.2_Missense_Mutation_p.R67Q|PIAS2_uc010xda.1_Intron|PIAS2_uc002lcm.2_Missense_Mutation_p.R67Q|PIAS2_uc002lcn.1_Missense_Mutation_p.R71Q	NM_004671	NP_004662	O75928	PIAS2_HUMAN	protein inhibitor of activated STAT X isoform	67					androgen receptor signaling pathway|negative regulation of androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|PML body	androgen receptor binding|DNA binding|protein binding|SUMO ligase activity|transcription coactivator activity|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						TTCAAGAGTTCGTGGATATCG	0.478													32	72					0	0	0.013726	0	0		T	44470842	T	T	44470842	3	4	121	1	0	0	0	0	1	0	0	0	11895	884	31	1	1792	1	PIAS2	18	44470842	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	4147314	44470842	33606406	250	66952											
PIGN	23556	broad.mit.edu	37	chr18	59742019	59742021	+	In_Frame_Del	DEL	ATA	-	-																															agtaatgccttaccaaagccAtaatgtctgatatgacgaga																										TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr18:59742019_59742021delATA	uc002lii.3	-	30	3058_3060	c.2610_2612delTAT	c.(2608-2613)ATTATG>ATG	p.I870del	PIGN_uc002lij.3_In_Frame_Del_p.I870del	NM_176787	NP_789744	O95427	PIGN_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	870	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphotransferase activity, for other substituted phosphate groups			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5		Colorectal(73;0.187)				TACCAAAGCCATAATGTCTGATA	0.315													19	10	---	---	---	---						.	-	59742021	-	-	59742019	7	5	121	1	0	1	0	1	0	0	0	0	11912	217	8	0	195	0	PIGN	18	59742019	In_Frame_Del	DEL	ATA	TCGA-CD-8535-01A-11D-2340-08	15271177	59742019	18335229	251	66953											
LASS4	79603	broad.mit.edu	37	chr19	8326872	8326872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagtgaggaggcggcggCggcccaggaacctctgcagc	7	4	16	14	3	1	1	0	1	1	0	2	3	2	3	3	6	3	1	3	6	1	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:8326872C>T	uc002mjg.2	+	12	1384	c.1064C>T	c.(1063-1065)GCG>GTG	p.A355V	LASS4_uc002mjh.2_Missense_Mutation_p.A304V|LASS4_uc002mji.2_Missense_Mutation_p.A191V|LASS4_uc010dvz.2_Missense_Mutation_p.A267V	NM_024552	NP_078828	Q9HA82	CERS4_HUMAN	LAG1 homolog, ceramide synthase 4	355						endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(1)	1						GAGGCGGCGGCGGCCCAGGAA	0.632													10	11					0	0	0.008291	0	0		T	8326872	T	T	8326872	3	4	121	1	0	0	0	0	1	0	0	0	8657	768	27	1	1102	1	LASS4	19	8326872	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08		8326872	50802111	252	66954											
COL5A3	50509	broad.mit.edu	37	chr19	10071440	10071440	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtagtcacccgtggcttCgtccagccaggcagctgcat	6	9	12	14	2	1	0	1	0	0	0	3	0	2	0	3	2	3	6	3	2	1	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:10071440C>A	uc002mmq.1	-	66	5064	c.4978G>T	c.(4978-4980)GAA>TAA	p.E1660*		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1660	Fibrillar collagen NC1.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			CCCGTGGCTTCGTCCAGCCAG	0.592													26	40					2.41591e-17	2.55715e-17	0.004656	1	0		A	10071440	A	A	10071440	4	1	121	1	0	0	0	0	0	1	0	0	3701	893	31	5	267	5	COL5A3	19	10071440	Nonsense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	1744568	10071440	49057543	253	66955											
ELAVL3	1995	broad.mit.edu	37	chr19	11577597	11577597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgttgggcagggccgggcCggccgggcccccccccacct	2	3	15	21	4	0	0	0	0	0	0	0	0	0	0	9	5	0	2	9	5	0	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:11577597C>T	uc002mry.1	-	2	435	c.55G>A	c.(55-57)GGC>AGC	p.G19S	ELAVL3_uc002mrx.1_Missense_Mutation_p.G19S	NM_001420	NP_001411	Q14576	ELAV3_HUMAN	ELAV-like protein 3 isoform 1	19					cell differentiation|nervous system development		AU-rich element binding|nucleotide binding			ovary(1)|breast(1)|skin(1)	3						Agggccgggccggccgggccc	0.522													5	13					0	0	0.014758	0	0		T	11577597	T	T	11577597	3	4	121	1	0	0	0	0	1	0	0	0	5059	652	23	1	1072	1	ELAVL3	19	11577597	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	1506157	11577597	47551386	254	66956											
KLF1	10661	broad.mit.edu	37	chr19	12996345	12996345	+	Frame_Shift_Del	DEL	G	-	-																															cccaaacaactcaggaaggaGggggacgtggcgggaccggg																										TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:12996345delG	uc002mvo.2	-	2	762	c.699delC	c.(697-699)CCCfs	p.P233fs		NM_006563	NP_006554	Q13351	KLF1_HUMAN	erythroid Kruppel-like factor	233	Pro-rich.				erythrocyte differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0		Hepatocellular(1079;0.137)		GBM - Glioblastoma multiforme(1328;0.00016)|Lung(535;0.171)|STAD - Stomach adenocarcinoma(1328;0.18)		TCAGGAAGGAGGGGGACGTGG	0.687													2	4	---	---	---	---						.	-	12996345	-	-	12996345	7	5	121	1	0	1	0	1	0	0	0	0	8353	987	35	0	397	0	KLF1	19	12996345	Frame_Shift_Del	DEL	G	TCGA-CD-8535-01A-11D-2340-08	1418748	12996345	46132638	255	66957											
CILP2	148113	broad.mit.edu	37	chr19	19655402	19655402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaggccctcaagctgtggtCgctgaaccccgagaccggct	7	6	14	14	3	1	2	1	1	0	1	2	4	1	3	4	4	2	3	4	4	2	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:19655402C>T	uc002nmv.3	+	8	2133	c.2048C>T	c.(2047-2049)TCG>TTG	p.S683L	CILP2_uc002nmw.3_Missense_Mutation_p.S689L	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	683						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						AAGCTGTGGTCGCTGAACCCC	0.746													5	9					0	0	0.021553	0	0		T	19655402	T	T	19655402	3	4	121	1	0	0	0	0	1	0	0	0	3433	893	31	1	2078	1	CILP2	19	19655402	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	6659057	19655402	39473581	256	66958											
ZNF626	199777	broad.mit.edu	37	chr19	20808024	20808024	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctccagtatgaattttcTtatgtctagtaaggctacaa	11	16	6	8	0	3	1	0	1	3	0	5	1	4	1	1	1	1	3	1	1	7	7			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:20808024T>G	uc002npb.1	-	4	809	c.659A>C	c.(658-660)AAG>ACG	p.K220T	ZNF626_uc002npc.1_Missense_Mutation_p.K144T	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	220	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						ATGAATTTTCTTATGTCTAGT	0.383													18	29					0	0	0.00499	0	0		G	20808024	G	G	20808024	3	3	121	1	0	0	0	0	1	0	0	0	18075	1609	56	5	931	5	ZNF626	19	20808024	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08	1152622	20808024	38320959	257	66959											
ZNF85	7639	broad.mit.edu	37	chr19	21117821	21117821	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagaggcctggagtatgaAgagacatgagatcatggtgg	14	7	16	4	0	1	4	1	2	0	3	1	8	1	5	1	4	0	1	1	4	3	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:21117821A>C	uc002npg.3	+	3	324	c.197A>C	c.(196-198)AAG>ACG	p.K66T	ZNF85_uc002npf.2_RNA|ZNF85_uc002nph.1_RNA|ZNF85_uc010ecn.2_Intron|ZNF85_uc010eco.2_5'Flank|ZNF85_uc002npi.2_5'Flank	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	66	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						TGGAGTATGAAGAGACATGAG	0.413													8	15					0	0	0.006214	0	0		C	21117821	C	C	21117821	3	2	121	1	0	0	0	0	1	0	0	0	18218	72	3	5	207	5	ZNF85	19	21117821	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	309797	21117821	38011162	258	66960											
ZNF99	7652	broad.mit.edu	37	chr19	22941160	22941160	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggctgagaaatgcttaaaAgctttgccacattcttcaca	13	11	8	9	0	2	1	1	1	1	1	2	2	2	1	1	1	3	3	1	1	3	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:22941160A>G	uc010xrh.1	-	5	1278	c.1278T>C	c.(1276-1278)GCT>GCC	p.A426A		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				AATGCTTAAAAGCTTTGCCAC	0.343													14	23					0	0	0.004007	0	0		G	22941160	G	G	22941160	2	3	121	1	0	0	0	0	0	0	0	1	18229	59	3	3		3	ZNF99	19	22941160	Silent	SNP	A	TCGA-CD-8535-01A-11D-2340-08	1823339	22941160	36187823	259	66961											
LRFN3	79414	broad.mit.edu	37	chr19	36430970	36430970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggacatgacctccaacCgcctgaccacaatcccaccc	10	5	7	19	1	0	2	0	2	0	0	2	3	2	3	7	2	1	1	7	2	2	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:36430970C>T	uc002oco.2	+	2	1095	c.643C>T	c.(643-645)CGC>TGC	p.R215C		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	215	Extracellular (Potential).|LRR 7.				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GACCTCCAACCGCCTGACCAC	0.697													46	353					0	0	0.01441	0	0		T	36430970	T	T	36430970	3	4	121	1	0	0	0	0	1	0	0	0	8957	652	23	1	645	1	LRFN3	19	36430970	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	13489810	36430970	22698013	260	66962											
WDR62	284403	broad.mit.edu	37	chr19	36583682	36583682	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggcagcagcagcagcacAcaaatgacaagaagcggagt	16	2	12	11	2	0	2	0	1	0	1	0	3	0	3	1	2	5	5	1	2	3	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:36583682A>G	uc002odc.2	+	19	2393	c.2302A>G	c.(2302-2304)ACA>GCA	p.T768A	WDR62_uc002odd.2_Missense_Mutation_p.T768A	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	768					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GCAGCAGCACACAAATGACAA	0.537													26	180					0	0	0.00632	0	0		G	36583682	G	G	36583682	3	3	121	1	0	0	0	0	1	0	0	0	17339	159	6	3	2376	3	WDR62	19	36583682	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	152712	36583682	22545301	261	66963											
ZNF529	57711	broad.mit.edu	37	chr19	37037814	37037814	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattttcggttggcaagtaAgatgcccaacaacactaaag	16	9	8	8	1	0	1	0	0	0	1	1	1	0	1	1	2	3	3	1	2	7	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:37037814A>G	uc002oeh.3	-	5	1848	c.1646T>C	c.(1645-1647)CTT>CCT	p.L549P	ZNF529_uc010xth.1_Missense_Mutation_p.L549P|ZNF529_uc010xti.1_Missense_Mutation_p.L531P|ZNF529_uc002oeg.3_Missense_Mutation_p.L444P	NM_020951	NP_066002	Q6P280	ZN529_HUMAN	zinc finger protein 529 isoform a	516	C2H2-type 12; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	Esophageal squamous(110;0.198)					TTGGCAAGTAAGATGCCCAAC	0.353													22	139					0	0	0.016522	0	0		G	37037814	G	G	37037814	3	3	121	1	0	0	0	0	1	0	0	0	17995	72	3	3	49	3	ZNF529	19	37037814	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	454132	37037814	22091169	262	66964											
ZNF382	84911	broad.mit.edu	37	chr19	37117657	37117657	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctgtttttattatgccTcagagacctcaaacagaaga	14	11	7	9	0	2	3	2	0	0	3	2	4	2	3	3	0	3	1	3	0	5	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:37117657T>G	uc002oek.2	+	5	971	c.858T>G	c.(856-858)CCT>CCG	p.P286P	ZNF382_uc010efa.2_Silent_p.P237P|ZNF382_uc010efb.2_Silent_p.P285P|ZNF382_uc002oel.2_Silent_p.P285P	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	286					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TTATTATGCCTCAGAGACCTC	0.418													40	296					0	0	0.007835	0	0		G	37117657	G	G	37117657	2	3	121	1	0	0	0	0	0	0	0	1	17898	1538	54	5		5	ZNF382	19	37117657	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	79843	37117657	22011326	263	66965											
RYR1	6261	broad.mit.edu	37	chr19	38966081	38966081	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaccccgagatcatcctcaaCaccaccacggtgtggaccag	11	5	9	16	2	2	1	2	0	0	1	3	4	3	2	6	2	1	0	6	2	1	0	rs139622869		TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:38966081C>T	uc002oit.2	+	29	4414	c.4284C>T	c.(4282-4284)AAC>AAT	p.N1428N	RYR1_uc002oiu.2_Silent_p.N1428N	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1428	Cytoplasmic.|B30.2/SPRY 3.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TCATCCTCAACACCACCACGG	0.597													5	64					0	0	0.014758	0	0		T	38966081	T	T	38966081	2	4	121	1	0	0	0	0	0	0	0	1	13793	477	17	4		4	RYR1	19	38966081	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	1848424	38966081	20162902	264	66966											
PAF1	54623	broad.mit.edu	37	chr19	39876874	39876874	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcactgccaaagatctcCtctttgtcacgggcagcccg	8	9	9	15	2	4	1	2	0	2	1	5	1	4	1	3	1	2	2	3	1	1	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:39876874C>T	uc002old.2	-	14	1528	c.1353G>A	c.(1351-1353)GAG>GAA	p.E451E	PAF1_uc002ole.1_Intron	NM_019088	NP_061961	Q8N7H5	PAF1_HUMAN	Paf1, RNA polymerase II associated factor,	451	Glu-rich.				histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			pancreas(1)	1	all_cancers(60;9.14e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.88e-06)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			CAAAGATCTCCTCTTTGTCAC	0.582													52	238					0	0	0.01441	0	0		T	39876874	T	T	39876874	2	4	121	1	0	0	0	0	0	0	0	1	11402	680	24	4		4	PAF1	19	39876874	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	910793	39876874	19252109	265	66967											
TIMM50	92609	broad.mit.edu	37	chr19	39980387	39980387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcagcgcctggccgagctctCcaagtccaacaagcagaacc	11	4	10	16	2	1	1	0	0	1	1	3	2	2	1	5	1	5	3	5	1	4	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:39980387C>T	uc002olu.1	+	11	1431	c.1298C>T	c.(1297-1299)TCC>TTC	p.S433F	TIMM50_uc002olt.1_RNA|TIMM50_uc002olv.1_Missense_Mutation_p.S132F	NM_001001563	NP_001001563	Q3ZCQ8	TIM50_HUMAN	translocase of inner mitochondrial membrane 50	330	Mitochondrial intermembrane (Potential).				mitochondrial membrane organization|protein transport|release of cytochrome c from mitochondria|transmembrane transport	integral to membrane|mitochondrial inner membrane presequence translocase complex|nuclear speck	interleukin-2 receptor binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|ribonucleoprotein binding|RNA binding			ovary(1)	1	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GCCGAGCTCTCCAAGTCCAAC	0.632													14	21					0	0	0.020292	0	0		T	39980387	T	T	39980387	3	4	121	1	0	0	0	0	1	0	0	0	15938	855	30	4	1340	4	TIMM50	19	39980387	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	103513	39980387	19148596	266	66968											
FCGBP	8857	broad.mit.edu	37	chr19	40392045	40392045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacattgctggatgggcaCgcaggcttggccgttgtaga	7	9	15	10	2	0	1	0	0	0	1	0	2	0	2	2	4	1	6	2	4	1	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:40392045C>T	uc002omp.3	-	17	8349	c.8341G>A	c.(8341-8343)GTG>ATG	p.V2781M		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	2781	Cys-rich.|TIL 6.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			TGGATGGGCACGCAGGCTTGG	0.607													12	95					0	0	0.020292	0	0		T	40392045	T	T	40392045	3	4	121	1	0	0	0	0	1	0	0	0	5792	536	19	1	7956	1	FCGBP	19	40392045	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	411658	40392045	18736938	267	66969											
FCGBP	8857	broad.mit.edu	37	chr19	40433051	40433051	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttggtggtggcctcggcCgtgtggatcatgtcagctgt	5	12	16	8	2	2	0	2	0	0	0	3	1	2	1	2	5	1	2	2	5	1	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:40433051C>T	uc002omp.3	-	2	1226	c.1218G>A	c.(1216-1218)ACG>ACA	p.T406T		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	406	IgGFc-binding.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			TGGCCTCGGCCGTGTGGATCA	0.592													10	76					0	0	0.006214	0	0		T	40433051	T	T	40433051	2	4	121	1	0	0	0	0	0	0	0	1	5792	639	23	1		1	FCGBP	19	40433051	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	41006	40433051	18695932	268	66970											
GRIK5	2901	broad.mit.edu	37	chr19	42509893	42509893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagcggcatgccaatgcCgtagcccttggtgtcgagga	8	7	13	13	3	0	0	0	0	0	0	1	2	0	1	4	3	4	2	4	3	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:42509893C>T	uc002osj.1	-	16	2280	c.2245G>A	c.(2245-2247)GGC>AGC	p.G749S	GRIK5_uc002osi.1_Missense_Mutation_p.G321S	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	749	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	ATGCCAATGCCGTAGCCCTTG	0.647													4	14					0	0	0.009096	0	0		T	42509893	T	T	42509893	3	4	121	1	0	0	0	0	1	0	0	0	6793	652	23	1	713	1	GRIK5	19	42509893	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	2076842	42509893	16619090	269	66971											
BCAM	4059	broad.mit.edu	37	chr19	45321843	45321843	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctctaaacagcagtgcagtCgtgaactgctccgtgcacgg	9	8	11	13	3	1	1	0	1	1	0	3	1	2	1	2	1	6	4	2	1	3	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:45321843C>T	uc002ozu.2	+	9	1187	c.1143C>T	c.(1141-1143)GTC>GTT	p.V381V	BCAM_uc002ozt.1_Silent_p.V381V	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	381	Extracellular (Potential).|Ig-like C2-type 2.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				GCAGTGCAGTCGTGAACTGCT	0.647													15	22					0	0	0.020292	0	0		T	45321843	T	T	45321843	2	4	121	1	0	0	0	0	0	0	0	1	1345	871	31	1		1	BCAM	19	45321843	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	2811950	45321843	13807140	270	66972											
ZNF577	84765	broad.mit.edu	37	chr19	52376330	52376330	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacttaaaatagaaggttcTtccacaatcactgcatttat	14	14	5	8	0	2	2	1	1	1	1	3	2	3	2	1	1	1	2	1	1	6	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:52376330T>G	uc010yde.1	-	7	1304	c.913A>C	c.(913-915)AGA>CGA	p.R305R	ZNF577_uc010ydd.1_Intron|ZNF577_uc002pxx.3_Silent_p.R246R|ZNF577_uc002pxv.2_Silent_p.R298R|ZNF577_uc002pxw.2_Silent_p.R239R	NM_032679	NP_116068	Q9BSK1	ZN577_HUMAN	zinc finger protein 577 isoform a	305	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TAGAAGGTTCTTCCACAATCA	0.433													50	44					0	0	0.01441	0	0		G	52376330	G	G	52376330	2	3	121	1	0	0	0	0	0	0	0	1	18034	1617	56	5		5	ZNF577	19	52376330	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	7054487	52376330	6752653	271	66973											
VN1R4	317703	broad.mit.edu	37	chr19	53770759	53770759	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttacagcggagagctaagaAgttggctacaatcaggtgct	12	10	12	7	1	1	2	1	0	0	2	1	3	1	2	0	3	5	4	0	3	5	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:53770759A>C	uc010ydu.1	-	1	160	c.160T>G	c.(160-162)TTC>GTC	p.F54V		NM_173857	NP_776256	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	54	Helical; Name=2; (Potential).				response to pheromone	actin cytoskeleton|cytoplasm|integral to membrane|plasma membrane	pheromone receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.00294)		AGAGCTAAGAAGTTGGCTACA	0.453										HNSCC(26;0.072)			7	47					0	0	0.004482	0	0		C	53770759	C	C	53770759	3	2	121	1	0	0	0	0	1	0	0	0	17206	72	3	5	748	5	VN1R4	19	53770759	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	1394429	53770759	5358224	272	66974											
ZNF835	90485	broad.mit.edu	37	chr19	57175393	57175393	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggccccgcattgcaggcAcctgtagggccgctcaccgg	5	5	15	16	4	1	0	1	0	0	0	1	0	1	0	5	5	1	5	5	5	1	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr19:57175393A>T	uc010ygo.1	-	2	1240	c.1240T>A	c.(1240-1242)TGC>AGC	p.C414S	ZNF835_uc010ygn.1_Missense_Mutation_p.C392S	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						CATTGCAGGCACCTGTAGGGC	0.662													22	19					0	0	0.016522	0	0		T	57175393	T	T	57175393	3	4	121	1	0	0	0	0	1	0	0	0	18211	159	6	5	441	5	ZNF835	19	57175393	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	3404634	57175393	1953590	273	66975											
PROKR2	128674	broad.mit.edu	37	chr20	5282999	5282999	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacagcacataggccgtgAgaatgcacatgagcaccagg	14	4	12	11	1	0	2	0	2	0	1	0	3	0	2	2	2	4	4	2	2	2	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr20:5282999A>C	uc010zqw.1	-	2	842	c.842T>G	c.(841-843)CTC>CGC	p.L281R	PROKR2_uc010zqx.1_Missense_Mutation_p.L281R|PROKR2_uc010zqy.1_Missense_Mutation_p.L281R	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	281	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						ATAGGCCGTGAGAATGCACAT	0.587										HNSCC(71;0.22)			23	79					0	0	0.012319	0	0		C	5282999	C	C	5282999	3	2	121	1	0	0	0	0	1	0	0	0	12575	304	11	5	315	5	PROKR2	20	5282999	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08		5282999	57742521	274	66976											
PYGB	5834	broad.mit.edu	37	chr20	25276278	25276278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgaagcctacatgcagtGccaggcacaggtggaccagc	11	6	12	12	0	0	1	0	1	0	0	0	2	0	2	3	3	5	2	3	3	3	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr20:25276278G>A	uc002wup.2	+	19	2460	c.2351G>A	c.(2350-2352)TGC>TAC	p.C784Y	ABHD12_uc002wuq.2_Intron|ABHD12_uc002wur.2_Intron	NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	784					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	TACATGCAGTGCCAGGCACAG	0.607													18	104					0	0	0.007413	0	0		A	25276278	A	A	25276278	3	1	121	1	0	0	0	0	1	0	0	0	12885	1319	46	2	2425	2	PYGB	20	25276278	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	19993279	25276278	37749242	275	66977											
FAM83C	128876	broad.mit.edu	37	chr20	33874645	33874645	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cattgggcccaggcccctcaCcacggaatgggccgaacttt	8	7	11	15	2	1	0	1	0	0	0	1	2	1	1	5	4	1	0	5	4	2	2			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr20:33874645C>A	uc010zux.1	-	4	2055	c.1937G>T	c.(1936-1938)GGT>GTT	p.G646V	EIF6_uc002xbv.1_5'Flank|EIF6_uc002xbx.1_5'Flank|EIF6_uc002xbz.1_5'Flank|EIF6_uc002xby.1_5'Flank|FAM83C_uc002xcb.1_Missense_Mutation_p.G301V	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	646										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			AGGCCCCTCACCACGGAATGG	0.642													14	71					6.72482e-11	7.01012e-11	0.003163	1	0		A	33874645	A	A	33874645	3	1	121	1	0	0	0	0	1	0	0	0	5649	507	18	5	310	5	FAM83C	20	33874645	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	8598367	33874645	29150875	276	66978											
CHD6	84181	broad.mit.edu	37	chr20	40049347	40049347	+	Silent	SNP	G	A	A																															gcagtgggttcaccctccatGgcgatagtattggttttact																										TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr20:40049347G>A	uc002xka.1	-	31	6106	c.5928C>T	c.(5926-5928)GCC>GCT	p.A1976A		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1976					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				CACCCTCCATGGCGATAGTAT	0.433													38	296					0	0	0.007835	0	0		A	40049347	A	A	40049347	2	1	121	1	0	0	0	0	0	0	0	1	3332	1335	47	4		4	CHD6	20	40049347	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	6174702	40049347	22976173	277	66979	125	2									
CHD6	84181	broad.mit.edu	37	chr20	40049356	40049356	+	Missense_Mutation	SNP	A	C	C																															tcaccctccatggcgatagtAttggttttacttttgaacag																										TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr20:40049356A>C	uc002xka.1	-	31	6097	c.5919T>G	c.(5917-5919)AAT>AAG	p.N1973K		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1973					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TGGCGATAGTATTGGTTTTAC	0.443													48	313					0	0	0.01441	0	0		C	40049356	C	C	40049356	3	2	121	1	0	0	0	0	1	0	0	0	3332	446	16	5	2256	5	CHD6	20	40049356	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	9	40049356	22976164	278	66980	125	2									
MMP9	4318	broad.mit.edu	37	chr20	44639165	44639165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccgcgggcggtgattgacGacgcctttgcccgcgccttc	3	9	14	15	7	0	2	0	2	0	0	1	3	0	2	4	2	2	0	4	2	0	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr20:44639165G>A	uc002xqz.2	+	3	434	c.415G>A	c.(415-417)GAC>AAC	p.D139N		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	139					collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	GGTGATTGACGACGCCTTTGC	0.612													11	100					0	0	0.020292	0	0		A	44639165	A	A	44639165	3	1	121	1	0	0	0	0	1	0	0	0	9687	1058	37	1	425	1	MMP9	20	44639165	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	4589809	44639165	18386355	279	66981											
TPTE	7179	broad.mit.edu	37	chr21	10908834	10908834	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatattcatacctgttatttTcaataaaagatgtgtgcaac	14	16	5	6	0	2	1	2	0	0	1	2	1	2	1	1	0	3	2	1	0	8	8			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr21:10908834T>A	uc002yip.1	-	23	1879	c.1511A>T	c.(1510-1512)GAA>GTA	p.E504V	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.E486V|TPTE_uc002yir.1_Missense_Mutation_p.E466V|TPTE_uc010gkv.1_Missense_Mutation_p.E366V	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	504	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CCTGTTATTTTCAATAAAAGA	0.299													18	33					0	0	0.008871	0	0		A	10908834	A	A	10908834	3	1	121	1	0	0	0	0	1	0	0	0	16456	1783	62	5	152	5	TPTE	21	10908834	Missense_Mutation	SNP	T	TCGA-CD-8535-01A-11D-2340-08		10908834	37221061	280	66982											
TPTE	7179	broad.mit.edu	37	chr21	10934995	10934995	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatctagaaaccgcacaacTtcctaaaaaagacaaacaca	20	7	3	11	1	1	2	0	0	1	2	2	2	2	2	2	0	3	1	2	0	8	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr21:10934995T>C	uc002yip.1	-	15	1166	c.798A>G	c.(796-798)GAA>GAG	p.E266E	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Silent_p.E248E|TPTE_uc002yir.1_Silent_p.E228E|TPTE_uc010gkv.1_Silent_p.E128E	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	266	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ACCGCACAACTTCCTAAAAAA	0.333													13	123					0	0	0.020292	0	0		C	10934995	C	C	10934995	2	2	121	1	0	0	0	0	0	0	0	1	16456	1606	56	3		3	TPTE	21	10934995	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08	26161	10934995	37194900	281	66983											
TPTE	7179	broad.mit.edu	37	chr21	10971302	10971302	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tataactcacctgtcattggGgccgagctcaatgatgactc	10	11	9	11	1	3	2	3	2	0	0	4	3	3	2	2	2	2	1	2	2	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr21:10971302G>A	uc002yip.1	-	5	423	c.55C>T	c.(55-57)CCC>TCC	p.P19S	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.P19S|TPTE_uc002yir.1_Missense_Mutation_p.P19S|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	19					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CTGTCATTGGGGCCGAGCTCA	0.303													7	33					0	0	0.001984	0	0		A	10971302	A	A	10971302	3	1	121	1	0	0	0	0	1	0	0	0	16456	1232	43	4	1680	4	TPTE	21	10971302	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	36307	10971302	37158593	282	66984											
TRPM2	7226	broad.mit.edu	37	chr21	45820246	45820246	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgctcctcaccggcctcatCtccttcaggtgctgcagggc	4	10	10	17	1	4	0	3	0	1	0	6	0	5	0	4	3	3	3	4	3	0	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr21:45820246C>T	uc002zet.1	+	16	2526	c.2313C>T	c.(2311-2313)ATC>ATT	p.I771I	TRPM2_uc002zeu.1_Silent_p.I771I|TRPM2_uc002zew.1_Silent_p.I771I|TRPM2_uc010gpt.1_Silent_p.I771I|TRPM2_uc002zex.1_Silent_p.I557I|TRPM2_uc002zey.1_Silent_p.I284I	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	771	Helical; (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCGGCCTCATCTCCTTCAGGT	0.488													7	13					0	0	0.001984	0	0		T	45820246	T	T	45820246	2	4	121	1	0	0	0	0	0	0	0	1	16612	903	32	4		4	TRPM2	21	45820246	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08	34848944	45820246	2309649	283	66985											
PCBP3	54039	broad.mit.edu	37	chr21	47321018	47321018	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgccatgatcgcatacaaGtttgaggaggtaacctgcac	11	11	10	9	1	0	2	0	2	0	0	1	3	0	3	2	2	4	4	2	2	3	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr21:47321018G>C	uc002zhq.1	+	5	455	c.330G>C	c.(328-330)AAG>AAC	p.K110N	PCBP3_uc010gqb.2_Missense_Mutation_p.K110N|PCBP3_uc002zhp.1_Missense_Mutation_p.K110N|PCBP3_uc010gqc.1_Missense_Mutation_p.K110N|PCBP3_uc002zhs.1_Missense_Mutation_p.K110N|PCBP3_uc002zhr.1_Missense_Mutation_p.K110N|PCBP3_uc002zht.1_Missense_Mutation_p.K78N	NM_020528	NP_065389	P57721	PCBP3_HUMAN	poly(rC) binding protein 3 isoform 1	110					mRNA metabolic process	cytosol|mitochondrion|nucleus|ribonucleoprotein complex	DNA binding|RNA binding			skin(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0411)|READ - Rectum adenocarcinoma(84;0.0649)		TCGCATACAAGTTTGAGGAGG	0.597													14	32					0	0	0.003163	0	0		C	47321018	C	C	47321018	3	2	121	1	0	0	0	0	1	0	0	0	11521	1020	36	5	348	5	PCBP3	21	47321018	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	1500772	47321018	808877	284	66986											
PRAME	23532	broad.mit.edu	37	chr22	22891014	22891014	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcatcacatccccttcCgaaagccggcagttagttat	11	10	8	12	2	1	1	1	0	0	1	3	2	3	1	4	1	2	4	4	1	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr22:22891014C>T	uc002zwf.2	-	5	1161	c.1005G>A	c.(1003-1005)TCG>TCA	p.S335S	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Silent_p.S319S|PRAME_uc010gtr.2_Silent_p.S335S|PRAME_uc002zwg.2_Silent_p.S335S|PRAME_uc002zwh.2_Silent_p.S335S|PRAME_uc002zwi.2_Silent_p.S335S|PRAME_uc002zwj.2_Silent_p.S335S|PRAME_uc002zwk.2_Silent_p.S335S	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	335	LRR 1.				apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		CATCCCCTTCCGAAAGCCGGC	0.542													33	112					0	0	0.012213	0	0		T	22891014	T	T	22891014	2	4	121	1	0	0	0	0	0	0	0	1	12446	639	23	1		1	PRAME	22	22891014	Silent	SNP	C	TCGA-CD-8535-01A-11D-2340-08		22891014	28413552	285	66987											
ZNF70	7621	broad.mit.edu	37	chr22	24087318	24087318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accaaactttgttgctggggGaacctccattgtgaatctgc	9	12	10	10	0	1	1	0	1	1	0	2	2	2	2	3	2	4	2	3	2	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr22:24087318G>A	uc002zxs.2	-	2	471	c.10C>T	c.(10-12)CCC>TCC	p.P4S	ZNF70_uc002zxr.1_5'Flank	NM_021916	NP_068735	Q9UC06	ZNF70_HUMAN	zinc finger protein 70	4						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						GTTGCTGGGGGAACCTCCATT	0.438													9	94					0	0	0.006214	0	0		A	24087318	A	A	24087318	3	1	121	1	0	0	0	0	1	0	0	0	18128	1174	41	4	1334	4	ZNF70	22	24087318	Missense_Mutation	SNP	G	TCGA-CD-8535-01A-11D-2340-08	1196304	24087318	27217248	286	66988											
C22orf36	388886	broad.mit.edu	37	chr22	24985869	24985869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccgggttgaggaaggccaCatctctgtagaggatatcag	11	8	14	8	1	2	2	1	1	1	1	3	5	2	4	2	4	0	2	2	4	3	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chr22:24985869C>T	uc003aaq.2	-	2	255	c.226G>A	c.(226-228)GTG>ATG	p.V76M	GGT1_uc003aan.1_Intron|C22orf36_uc003aao.2_5'Flank|C22orf36_uc003aap.2_RNA	NM_207644	NP_997527	Q2VPJ9	LRC6X_HUMAN	hypothetical protein LOC388886	76											0						AGGAAGGCCACATCTCTGTAG	0.607													3	10					0	0	0.004672	0	0		T	24985869	T	T	24985869	3	4	121	1	0	0	0	0	1	0	0	0	2149	478	17	4	733	4	C22orf36	22	24985869	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	898551	24985869	26318697	287	66989											
DMD	1756	broad.mit.edu	37	chrX	32490353	32490353	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggtatggagagtttggtTtctgactgctggacccatgt	7	14	14	6	0	1	3	0	2	1	1	1	5	1	4	1	4	1	4	1	4	1	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:32490353T>C	uc004dda.1	-	22	3121	c.2877A>G	c.(2875-2877)GAA>GAG	p.E959E	DMD_uc004dcz.2_Silent_p.E836E|DMD_uc004dcy.1_Silent_p.E955E|DMD_uc004ddb.1_Silent_p.E951E|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	959	Spectrin 6.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AGAGTTTGGTTTCTGACTGCT	0.433													32	36					0	0	0.008361	0	0		C	32490353	C	C	32490353	2	2	121	1	0	0	0	0	0	0	0	1	4586	1838	64	3		3	DMD	23	32490353	Silent	SNP	T	TCGA-CD-8535-01A-11D-2340-08		32490353	122780207	288	66990											
TIMM17B	10245	broad.mit.edu	37	chrX	48754135	48754135	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgcaatcatccacaattcgCcatgggctgcaagcaggaag	12	6	10	13	2	1	0	1	0	0	0	3	1	2	1	3	2	2	4	3	2	4	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:48754135C>T	uc004dlc.1	-	3	182	c.33G>A	c.(31-33)TGG>TGA	p.W11*	PQBP1_uc004dle.2_5'Flank|PQBP1_uc004dlf.2_5'Flank|PQBP1_uc004dlg.2_5'Flank|PQBP1_uc004dld.2_5'Flank|PQBP1_uc004dlh.2_5'Flank|PQBP1_uc004dli.2_5'Flank|PQBP1_uc004dlj.1_5'Flank|PQBP1_uc004dln.2_5'Flank|PQBP1_uc010nih.2_5'Flank|PQBP1_uc010nii.2_5'Flank|PQBP1_uc004dlk.2_5'Flank|PQBP1_uc004dll.2_5'Flank|PQBP1_uc004dlm.2_5'Flank|PQBP1_uc010nij.2_5'Flank|TIMM17B_uc004dla.1_Nonsense_Mutation_p.W11*|TIMM17B_uc004dlb.1_5'UTR	NM_005834	NP_005825	O60830	TI17B_HUMAN	translocase of inner mitochondrial membrane 17	11					protein targeting to mitochondrion	integral to membrane|microtubule cytoskeleton|mitochondrial inner membrane presequence translocase complex	P-P-bond-hydrolysis-driven protein transmembrane transporter activity			ovary(1)	1						CCACAATTCGCCATGGGCTGC	0.557													16	22					0	0	0.003163	0	0		T	48754135	T	T	48754135	4	4	121	1	0	0	0	0	0	1	0	0	15934	740	26	2	659	2	TIMM17B	23	48754135	Nonsense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	16263782	48754135	106516425	289	66991											
HUWE1	10075	broad.mit.edu	37	chrX	53610583	53610583	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttaagagaagggtgaccaGgggagtaaacccattgaagc	14	7	13	7	0	1	3	0	2	1	1	1	5	1	4	2	3	2	1	2	3	5	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:53610583G>A	uc004dsp.2	-	42	5857	c.5455C>T	c.(5455-5457)CTG>TTG	p.L1819L	HUWE1_uc004dsn.2_Silent_p.L644L	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	1819					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						AGGGTGACCAGGGGAGTAAAC	0.468													32	19					0	0	0.010818	0	0		A	53610583	A	A	53610583	2	1	121	1	0	0	0	0	0	0	0	1	7477	991	35	4		4	HUWE1	23	53610583	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	4856448	53610583	101659977	290	66992											
USP51	158880	broad.mit.edu	37	chrX	55513611	55513611	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaacaagccacaatgggtaAttttttcattgtgagctgtt	13	14	8	6	0	1	1	1	1	0	0	1	1	1	1	1	1	3	3	1	1	5	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:55513611A>C	uc004dun.1	-	2	1841	c.1762T>G	c.(1762-1764)TTA>GTA	p.L588V	USP51_uc011moo.1_Missense_Mutation_p.L292V	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	588					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						ACAATGGGTAATTTTTTCATT	0.433													21	29					0	0	0.012319	0	0		C	55513611	C	C	55513611	3	2	121	1	0	0	0	0	1	0	0	0	17109	98	4	5	377	5	USP51	23	55513611	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	1903028	55513611	99756949	291	66993											
ATRX	546	broad.mit.edu	37	chrX	76937769	76937770	+	Frame_Shift_Ins	INS	-	T	T																															tcttaaagtctgaaggtttcINStttttttcttcagttccctt																										TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:76937769_76937770insT	uc004ecp.3	-	9	3210_3211	c.2978_2979insA	c.(2977-2979)AAGfs	p.K993fs	ATRX_uc004ecq.3_Frame_Shift_Ins_p.K955fs|ATRX_uc004eco.3_Frame_Shift_Ins_p.K778fs|ATRX_uc004ecr.2_Frame_Shift_Ins_p.K925fs|ATRX_uc010nlx.1_Frame_Shift_Ins_p.K964fs|ATRX_uc010nly.1_Frame_Shift_Ins_p.K938fs	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	993					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	CTGAAGGTTTCTTTTTTTCTTC	0.347			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						63	83	---	---	---	---						.	T	76937770	T	T	76937769	7	5	121	1	0	1	1	0	0	0	0	0	1209	912	32	0	4607	0	ATRX	23	76937769	Frame_Shift_Ins	INS	-	TCGA-CD-8535-01A-11D-2340-08	21424158	76937769	78332791	292	66994											
LPAR4	2846	broad.mit.edu	37	chrX	78011422	78011422	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttccagctattcaagaggaAgtgagtgatcaaacaacaaa	17	8	8	8	0	2	3	2	2	0	1	3	4	3	4	1	1	3	1	1	1	6	3			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:78011422A>C	uc010nme.2	+	2	1461	c.1056A>C	c.(1054-1056)GAA>GAC	p.E352D		NM_005296	NP_005287	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	352	Cytoplasmic (Potential).					integral to plasma membrane	lipid binding|purinergic nucleotide receptor activity, G-protein coupled			ovary(3)	3						TTCAAGAGGAAGTGAGTGATC	0.403													35	34					0	0	0.015359	0	0		C	78011422	C	C	78011422	3	2	121	1	0	0	0	0	1	0	0	0	8925	69	3	5	1058	5	LPAR4	23	78011422	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	1073653	78011422	77259138	293	66995											
POU3F4	5456	broad.mit.edu	37	chrX	82763585	82763585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggacgtgaagcccgggCgcgaagacctgcaactgggt	10	4	16	11	4	0	2	0	1	0	1	0	4	0	3	2	3	4	2	2	3	3	0			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:82763585C>T	uc004eeg.2	+	1	317	c.253C>T	c.(253-255)CGC>TGC	p.R85C		NM_000307	NP_000298	P49335	PO3F4_HUMAN	POU domain, class 3, transcription factor 4	85					sensory perception of sound	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GAAGCCCGGGCGCGAAGACCT	0.682													4	4					0	0	0.009096	0	0		T	82763585	T	T	82763585	3	4	121	1	0	0	0	0	1	0	0	0	12296	768	27	1	255	1	POU3F4	23	82763585	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	4752163	82763585	72506975	294	66996											
CYLC1	1538	broad.mit.edu	37	chrX	83129336	83129336	+	Frame_Shift_Del	DEL	T	-	-																															acatctacaaaaatcaaaggTtcagatactgaatctgaaga																										TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:83129336delT	uc004eei.1	+	4	1641	c.1620delT	c.(1618-1620)GGTfs	p.G540fs	CYLC1_uc004eeh.1_Frame_Shift_Del_p.G539fs	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	540	8.|8 X approximate tandem repeats.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						AAATCAAAGGTTCAGATACTG	0.373													17	29	---	---	---	---						.	-	83129336	-	-	83129336	7	5	121	1	0	1	0	1	0	0	0	0	4144	1712	60	0	1634	0	CYLC1	23	83129336	Frame_Shift_Del	DEL	T	TCGA-CD-8535-01A-11D-2340-08	365751	83129336	72141224	295	66997											
XKRX	402415	broad.mit.edu	37	chrX	100177864	100177864	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	actgagcccaggaaggcttgGatctgtgacatacgtttgta	10	11	12	8	1	1	2	0	2	1	0	1	4	1	4	1	3	2	3	1	3	3	4			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:100177864G>A	uc004egn.2	-	2	1127	c.522C>T	c.(520-522)ATC>ATT	p.I174I	XKRX_uc011mre.1_Intron	NM_212559	NP_997724	Q6PP77	XKR2_HUMAN	XK, Kell blood group complex subunit-related,	174	Helical; (Potential).					integral to membrane|plasma membrane				breast(1)	1						GGAAGGCTTGGATCTGTGACA	0.567													31	47					0	0	0.010818	0	0		A	100177864	A	A	100177864	2	1	121	1	0	0	0	0	0	0	0	1	17465	1164	41	4		4	XKRX	23	100177864	Silent	SNP	G	TCGA-CD-8535-01A-11D-2340-08	17048528	100177864	55092696	296	66998											
COL4A5	1287	broad.mit.edu	37	chrX	107936061	107936061	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtttgcaactttgcttcaAgaaatgactattcttactgg	11	16	7	7	0	2	2	1	1	1	1	2	2	2	2	0	1	4	3	0	1	5	6			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:107936061A>G	uc004enz.1	+	49	4814	c.4612A>G	c.(4612-4614)AGA>GGA	p.R1538G	COL4A5_uc011mso.1_Missense_Mutation_p.R1535G|COL4A5_uc011msp.1_Missense_Mutation_p.R214G	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	1532	Collagen IV NC1.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						CTTTGCTTCAAGAAATGACTA	0.478									Alport_syndrome_with_Diffuse_Leiomyomatosis				31	27					0	0	0.008361	0	0		G	107936061	G	G	107936061	3	3	121	1	0	0	0	0	1	0	0	0	3697	64	3	3	4795	3	COL4A5	23	107936061	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	7758197	107936061	47334499	297	66999											
CT47B1	643311	broad.mit.edu	37	chrX	120009284	120009284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatctgagtcctcctcggCgctcccgccctgggggactg	4	9	13	15	3	1	1	0	1	1	0	5	3	4	2	4	3	0	1	4	3	1	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:120009284C>T	uc011muc.1	-	1	496	c.241G>A	c.(241-243)GCC>ACC	p.A81T		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	81											0						TCCTCCTCGGCGCTCCCGCCC	0.612													23	22					0	0	0.012319	0	0		T	120009284	T	T	120009284	3	4	121	1	0	0	0	0	1	0	0	0	3992	768	27	1	666	1	CT47B1	23	120009284	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	12073223	120009284	35261276	298	67000											
DCAF12L2	340578	broad.mit.edu	37	chrX	125298575	125298575	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagaggccccccagccaCaaagagcttcatctccggcc	10	4	11	16	1	2	2	1	0	1	2	3	3	2	2	6	3	2	1	6	3	1	1			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:125298575C>G	uc004euk.1	-	1	1360	c.1333G>C	c.(1333-1335)GTG>CTG	p.V445L		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	445										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						CCCCCAGCCACAAAGAGCTTC	0.552													34	57					0	0	0.019004	0	0		G	125298575	G	G	125298575	3	3	121	1	0	0	0	0	1	0	0	0	4268	478	17	5	62	5	DCAF12L2	23	125298575	Missense_Mutation	SNP	C	TCGA-CD-8535-01A-11D-2340-08	5289291	125298575	29971985	299	67001											
PASD1	139135	broad.mit.edu	37	chrX	150840247	150840247	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagccttgtgttgccttcaAccaggtatggaaaggctgtt	8	12	13	8	0	1	0	1	0	0	0	1	2	1	2	3	4	3	4	3	4	3	5			TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:150840247A>C	uc004fev.3	+	13	1765	c.1433A>C	c.(1432-1434)AAC>ACC	p.N478T		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	478						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GTTGCCTTCAACCAGGTATGG	0.453													23	16					0	0	0.012319	0	0		C	150840247	C	C	150840247	3	2	121	1	0	0	0	0	1	0	0	0	11490	43	2	5	1479	5	PASD1	23	150840247	Missense_Mutation	SNP	A	TCGA-CD-8535-01A-11D-2340-08	25541672	150840247	4430313	300	67002											
DUSP9	1852	broad.mit.edu	37	chrX	152915673	152915674	+	Frame_Shift_Ins	INS	-	G	G																															actcgcaggagcagggcagtINSggggggcaggcatctgcggc																										TCGA-CD-8535-01A-11D-2340-08	TCGA-CD-8535-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	2bf27b50-c850-413f-8c3c-c70f47612721	10b5ccce-a8cf-45c5-bef4-4b452366c67e	g.chrX:152915673_152915674insG	uc004fhx.3	+	4	1272_1273	c.1068_1069insG	c.(1066-1071)AGTGGGfs	p.S356fs	DUSP9_uc004fhy.3_Frame_Shift_Ins_p.S356fs	NM_001395	NP_001386	Q99956	DUS9_HUMAN	dual specificity phosphatase 9	356_357	Tyrosine-protein phosphatase.				inactivation of MAPK activity|JNK cascade	cytosol|endoplasmic reticulum|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)	2	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGCAGGGCAGTGGGGGGCAGGC	0.658													36	52	---	---	---	---						.	G	152915674	G	G	152915673	7	5	121	1	0	1	1	0	0	0	0	0	4838	1693	59	0	1078	0	DUSP9	23	152915673	Frame_Shift_Ins	INS	-	TCGA-CD-8535-01A-11D-2340-08	2075426	152915673	2354887	301	67003											
ACAP3	116983	broad.mit.edu	37	chr1	1229825	1229825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcttgccctcatcctccGcgtccgcccagttgacctcg	3	10	9	19	5	2	1	1	1	1	0	6	1	5	1	6	0	1	1	6	0	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:1229825G>A	uc001aeb.2	-	21	2170	c.2096C>T	c.(2095-2097)GCG>GTG	p.A699V	ACAP3_uc001ady.2_Missense_Mutation_p.A429V|ACAP3_uc001aea.2_Missense_Mutation_p.A624V	NM_030649	NP_085152	Q96P50	ACAP3_HUMAN	ArfGAP with coiled-coil, ankyrin repeat and PH	699					filopodium assembly|regulation of ARF GTPase activity|signal transduction		ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding				0						CTCATCCTCCGCGTCCGCCCA	0.736													4	10					0	0	1	0	0		A	1229825	A	A	1229825	3	1	122	1	0	0	0	0	1	0	0	0	120	1087	38	1	424	1	ACAP3	1	1229825	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08		1229825	248020796	1	67004											
CPSF3L	54973	broad.mit.edu	37	chr1	1248918	1248918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtttccggcccatttccGgaagatctgcagggactgcc	6	11	11	13	3	1	1	0	0	1	1	4	3	3	3	4	3	2	2	4	3	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:1248918G>A	uc001aee.1	-	10	1070	c.1012C>T	c.(1012-1014)CGG>TGG	p.R338W	CPSF3L_uc009vjy.1_RNA|CPSF3L_uc001aef.1_Missense_Mutation_p.R344W|CPSF3L_uc009vjz.1_Missense_Mutation_p.R316W|CPSF3L_uc010nyj.1_Missense_Mutation_p.R309W|CPSF3L_uc001aeg.1_Missense_Mutation_p.R214W|CPSF3L_uc001aeh.1_Missense_Mutation_p.R237W|CPSF3L_uc001aei.1_Missense_Mutation_p.R240W|CPSF3L_uc001aej.1_Missense_Mutation_p.R165W|CPSF3L_uc001aek.1_Missense_Mutation_p.R80W	NM_017871	NP_060341	Q5TA45	INT11_HUMAN	cleavage and polyadenylation specific factor	338						Golgi apparatus|nucleus	hydrolase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(86;4.35e-21)|Colorectal(212;0.000166)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.00235)|BRCA - Breast invasive adenocarcinoma(365;0.00255)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0349)|Lung(427;0.201)		GCCCATTTCCGGAAGATCTGC	0.602													11	57					0	0	1	0	0		A	1248918	A	A	1248918	3	1	122	1	0	0	0	0	1	0	0	0	3830	1115	39	1	822	1	CPSF3L	1	1248918	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	19093	1248918	248001703	2	67005											
TAS1R3	83756	broad.mit.edu	37	chr1	1268468	1268468	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacggcagcctcaggacagaGcgcctgaagatccgctggca	11	4	13	13	3	1	3	1	1	0	2	2	4	2	4	3	3	3	3	3	3	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:1268468G>T	uc010nyk.1	+	4	1443	c.1443G>T	c.(1441-1443)GAG>GAT	p.E481D		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	481	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)	Aspartame(DB00168)	TCAGGACAGAGCGCCTGAAGA	0.667													3	30					0.00024832	0.000260714	1	1	0		T	1268468	T	T	1268468	3	4	122	1	0	0	0	0	1	0	0	0	15589	962	34	5	1457	5	TAS1R3	1	1268468	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	19550	1268468	247982153	3	67006											
TMEM52	339456	broad.mit.edu	37	chr1	1849798	1849798	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgggcctgtgcctgcttccgGaggcagcagaaccggacaca	8	6	14	13	2	0	1	0	0	0	1	1	3	1	3	4	4	4	3	4	4	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:1849798G>A	uc001aij.2	-	4	279	c.243C>T	c.(241-243)CTC>CTT	p.L81L	TMEM52_uc001aii.2_Silent_p.L66L	NM_178545	NP_848640	Q8NDY8	TMM52_HUMAN	transmembrane protein 52 precursor	81						integral to membrane					0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.82e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.75e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00435)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CCTGCTTCCGGAGGCAGCAGA	0.622													4	51					0	0	1	0	0		A	1849798	A	A	1849798	2	1	122	1	0	0	0	0	0	0	0	1	16203	1161	41	4		4	TMEM52	1	1849798	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	581330	1849798	247400823	4	67007											
HES3	390992	broad.mit.edu	37	chr1	6304439	6304439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctgatggagaaaaagcGccgggcacgcatcaatgtgt	11	6	14	10	4	1	2	1	1	0	1	1	3	1	2	2	2	1	3	2	2	3	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:6304439G>A	uc009vly.1	+	2	69	c.14G>A	c.(13-15)CGC>CAC	p.R5H		NM_001024598	NP_001019769	Q5TGS1	HES3_HUMAN	hairy and enhancer of split 3	5	Basic motif.				transcription, DNA-dependent	nucleus	DNA binding				0	Ovarian(185;0.0634)	all_cancers(23;2.48e-32)|all_epithelial(116;1.14e-17)|all_lung(118;2.85e-06)|all_neural(13;3.68e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;3.77e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.2e-37)|GBM - Glioblastoma multiforme(13;3.2e-29)|OV - Ovarian serous cystadenocarcinoma(86;2.52e-19)|Colorectal(212;1.19e-07)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|BRCA - Breast invasive adenocarcinoma(365;0.00105)|STAD - Stomach adenocarcinoma(132;0.00308)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.241)		GAGAAAAAGCGCCGGGCACGC	0.622													9	70					0	0	1	0	0		A	6304439	A	A	6304439	3	1	122	1	0	0	0	0	1	0	0	0	7083	1087	38	1	16	1	HES3	1	6304439	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4454641	6304439	242946182	5	67008											
CAMTA1	23261	broad.mit.edu	37	chr1	7797391	7797391	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgtcgggccatctcgattcCcgactctctaggaaggctgc	6	9	11	15	4	2	0	0	0	2	0	6	3	3	1	3	3	1	1	3	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:7797391C>A	uc001aoi.2	+	15	3626	c.3419C>A	c.(3418-3420)CCC>CAC	p.P1140H	CAMTA1_uc010nzv.1_Missense_Mutation_p.P227H|CAMTA1_uc001aok.3_Missense_Mutation_p.P183H|CAMTA1_uc001aoj.2_Missense_Mutation_p.P96H	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1140					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		ATCTCGATTCCCGACTCTCTA	0.572													21	136					6.33239e-15	7.37855e-15	1	1	0		A	7797391	A	A	7797391	3	1	122	1	0	0	0	0	1	0	0	0	2616	623	22	5	3477	5	CAMTA1	1	7797391	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1492952	7797391	241453230	6	67009											
UTS2	10911	broad.mit.edu	37	chr1	7910965	7910965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctcctccggagttaagcGcgcgtcttcatgaggtgcta	7	11	12	11	4	2	1	1	1	1	0	4	2	4	2	2	2	3	3	2	2	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:7910965G>A	uc001aor.2	-	2	162	c.121C>T	c.(121-123)CGC>TGC	p.R41C	UTS2_uc001aoq.2_Missense_Mutation_p.R41C|UTS2_uc001aos.2_Missense_Mutation_p.R56C	NM_006786	NP_006777	O95399	UTS2_HUMAN	urotensin 2 isoform b preproprotein	41					muscle contraction|regulation of blood pressure|synaptic transmission	extracellular space	hormone activity				0	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;1.38e-20)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.26e-71)|GBM - Glioblastoma multiforme(8;5.15e-36)|Colorectal(212;1.27e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000386)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|STAD - Stomach adenocarcinoma(132;0.000951)|READ - Rectum adenocarcinoma(331;0.0642)		GGAGTTAAGCGCGCGTCTTCA	0.458													6	98					0	0	1	0	0		A	7910965	A	A	7910965	3	1	122	1	0	0	0	0	1	0	0	0	17130	1087	38	1	265	1	UTS2	1	7910965	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	113574	7910965	241339656	7	67010											
H6PD	9563	broad.mit.edu	37	chr1	9305527	9305527	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgagaaaccctttggccaTgaccacttctcagcccagca	10	9	7	15	0	1	2	1	2	1	1	2	3	1	2	4	1	3	1	4	1	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:9305527T>C	uc001apt.2	+	2	807	c.534T>C	c.(532-534)CAT>CAC	p.H178H		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	178	Glucose 1-dehydrogenase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	CCTTTGGCCATGACCACTTCT	0.592													17	110					0	0	1	0	0		C	9305527	C	C	9305527	2	2	122	1	0	0	0	0	0	0	0	1	6952	1461	51	3		3	H6PD	1	9305527	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1394562	9305527	239945094	8	67011											
CORT	1325	broad.mit.edu	37	chr1	10510133	10510133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggatccaggcgttagacatGtatagacacaaaaacagctg	16	7	10	8	1	0	2	0	0	0	2	1	3	1	3	1	2	2	3	1	2	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:10510133G>A	uc001ari.2	+	1	163	c.3G>A	c.(1-3)ATG>ATA	p.M1I	APITD1_uc001arf.2_Intron|APITD1_uc001arg.2_Intron	NM_001302	NP_001293	O00230	CORT_HUMAN	cortistatin preproprotein	Error:Variant_position_missing_in_O00230_after_alignment					inhibition of adenylate cyclase activity by G-protein signaling pathway|synaptic transmission	extracellular region|soluble fraction	G-protein-coupled receptor binding|neuropeptide hormone activity				0	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.12e-07)|COAD - Colon adenocarcinoma(227;7.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.0165)|READ - Rectum adenocarcinoma(331;0.0487)		CGTTAGACATGTATAGACACA	0.512													37	213					0	0	1	0	0		A	10510133	A	A	10510133	3	1	122	1	0	0	0	0	1	0	0	0	3763	1377	48	4	5	4	CORT	1	10510133	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1204606	10510133	238740488	9	67012											
VPS13D	55187	broad.mit.edu	37	chr1	12337668	12337668	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtatagcgagatggtatcGctctttgaaactccaaggaa	13	10	11	7	2	1	2	0	1	1	1	3	5	2	3	1	2	2	3	1	2	6	4	rs137909177		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:12337668G>A	uc001atv.2	+	19	4164	c.4023G>A	c.(4021-4023)TCG>TCA	p.S1341S	VPS13D_uc001atw.2_Silent_p.S1341S|VPS13D_uc001atx.2_Silent_p.S529S	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	1341					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AGATGGTATCGCTCTTTGAAA	0.438													6	103					0	0	1	0	0		A	12337668	A	A	12337668	2	1	122	1	0	0	0	0	0	0	0	1	17218	1074	38	1		1	VPS13D	1	12337668	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1827535	12337668	236912953	10	67013											
LOC440563	440563	broad.mit.edu	37	chr1	13183113	13183113	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcattatcatcatcatccaGtgggtccccctcctcagcag	8	12	6	15	0	5	0	5	0	0	0	8	0	8	0	4	1	1	1	4	1	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:13183113G>A	uc010obg.1	-	1	855	c.760C>T	c.(760-762)CTG>TTG	p.L254L		NM_001136561	NP_001130033	B2RXH8	B2RXH8_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	254						ribonucleoprotein complex	nucleic acid binding|nucleotide binding				0						TCATCATCCAGTGGGTCCCCC	0.473													17	45					0	0	1	0	0		A	13183113	A	A	13183113	2	1	122	1	0	0	0	0	0	0	0	1	8897	1020	36	4		4	LOC440563	1	13183113	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	845445	13183113	236067508	11	67014											
SPEN	23013	broad.mit.edu	37	chr1	16262530	16262530	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcctgcccctcatggTgaggcccgtatcctcacagt	5	10	9	17	1	2	1	2	1	0	0	4	1	4	1	6	2	2	2	6	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:16262530T>C	uc001axk.1	+	11	9999	c.9795T>C	c.(9793-9795)GGT>GGC	p.G3265G	SPEN_uc010obp.1_Silent_p.G3224G	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	3265	Pro-rich.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		ccccTCATGGTGAGGCCCGTA	0.393													19	130					0	0	1	0	0		C	16262530	C	C	16262530	2	2	122	1	0	0	0	0	0	0	0	1	15063	1683	59	3		3	SPEN	1	16262530	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	3079417	16262530	232988091	12	67015											
PADI3	51702	broad.mit.edu	37	chr1	17597615	17597615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcagagctggccaggaaggCcggctgcaagctgaccatct	9	5	15	12	1	1	2	0	1	1	1	1	3	1	3	3	5	3	5	3	5	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:17597615C>T	uc001bai.2	+	9	1029	c.989C>T	c.(988-990)GCC>GTC	p.A330V		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	330					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	GCCAGGAAGGCCGGCTGCAAG	0.642													6	57					0	0	1	0	0		T	17597615	T	T	17597615	3	4	122	1	0	0	0	0	1	0	0	0	11398	739	26	2	1023	2	PADI3	1	17597615	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1335085	17597615	231653006	13	67016											
ARHGEF10L	55160	broad.mit.edu	37	chr1	17975156	17975156	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccctgccttctcctcccggGcactcagcctgcaggtgagt	4	10	10	17	1	2	1	1	1	1	0	5	1	4	1	5	2	3	2	5	2	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:17975156G>T	uc001ban.2	+	22	2539	c.2380G>T	c.(2380-2382)GCA>TCA	p.A794S	ARHGEF10L_uc009vpe.1_Missense_Mutation_p.A755S|ARHGEF10L_uc001bao.2_Missense_Mutation_p.A755S|ARHGEF10L_uc001bap.2_Missense_Mutation_p.A750S|ARHGEF10L_uc001baq.2_Missense_Mutation_p.A555S|ARHGEF10L_uc010ocs.1_Missense_Mutation_p.A567S|ARHGEF10L_uc001bar.2_Missense_Mutation_p.A497S|ARHGEF10L_uc009vpf.2_RNA	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	794					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		CTCCTCCCGGGCACTCAGCCT	0.647													12	51					1.08611e-07	1.2069e-07	1	1	0		T	17975156	T	T	17975156	3	4	122	1	0	0	0	0	1	0	0	0	895	1203	42	5	2462	5	ARHGEF10L	1	17975156	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	377541	17975156	231275465	14	67017											
AKR7A2	8574	broad.mit.edu	37	chr1	19632540	19632540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagtggtggtacatccacCggagggcagccgaggtcaca	9	6	16	10	2	1	1	1	1	0	0	2	3	2	2	3	5	2	2	3	5	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:19632540C>T	uc001bbw.2	-	6	912	c.890G>A	c.(889-891)CGG>CAG	p.R297Q	AKR7A2_uc001bbx.2_Missense_Mutation_p.R262Q	NM_003689	NP_003680	O43488	ARK72_HUMAN	aldo-keto reductase family 7, member A2	297					carbohydrate metabolic process|cellular aldehyde metabolic process	Golgi apparatus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00461)|BRCA - Breast invasive adenocarcinoma(304;1.83e-05)|Kidney(64;0.000167)|GBM - Glioblastoma multiforme(114;0.00115)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GTACATCCACCGGAGGGCAGC	0.627													19	75					0	0	1	0	0		T	19632540	T	T	19632540	3	4	122	1	0	0	0	0	1	0	0	0	475	652	23	1	197	1	AKR7A2	1	19632540	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1657384	19632540	229618081	15	67018											
ECE1	1889	broad.mit.edu	37	chr1	21562343	21562343	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcagcagctactcacGtcattaaacactttgtccag	11	9	9	12	1	2	0	2	0	0	0	3	0	3	0	1	1	4	4	1	1	3	3	rs28368018	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:21562343G>A	uc001bek.2	-	13	1641	c.1566C>T	c.(1564-1566)GAC>GAT	p.D522D	ECE1_uc001bem.2_Silent_p.D506D|ECE1_uc001bej.2_Silent_p.D510D|ECE1_uc001bei.2_Silent_p.D519D|ECE1_uc010odl.1_Silent_p.D522D|ECE1_uc009vqa.1_Silent_p.D522D	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	522	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		Lung NSC(340;1.14e-05)|all_lung(284;1.23e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00147)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0183)|OV - Ovarian serous cystadenocarcinoma(117;4.83e-27)|COAD - Colon adenocarcinoma(152;1.36e-06)|GBM - Glioblastoma multiforme(114;1.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000162)|STAD - Stomach adenocarcinoma(196;0.00326)|KIRC - Kidney renal clear cell carcinoma(1967;0.00755)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.206)		AGCTACTCACGTCATTAAACA	0.552													26	164					0	0	1	0	0		A	21562343	A	A	21562343	2	1	122	1	0	0	0	0	0	0	0	1	4895	1159	40	1		1	ECE1	1	21562343	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1929803	21562343	227688278	16	67019											
RAP1GAP	5909	broad.mit.edu	37	chr1	21926004	21926004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaggcctgtgtcctctcCgtccacaccctccgtctcct	4	10	6	21	2	2	0	0	0	2	0	7	0	5	0	8	1	0	0	8	1	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:21926004C>T	uc001bex.2	-	21	2017	c.1759G>A	c.(1759-1761)GGA>AGA	p.G587R	RAP1GAP_uc001bev.2_Missense_Mutation_p.G672R|RAP1GAP_uc001bew.2_Missense_Mutation_p.G651R|RAP1GAP_uc001bey.2_Missense_Mutation_p.G613R	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	587					regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		GTGTCCTCTCCGTCCACACCC	0.657													15	79					0	0	1	0	0		T	21926004	T	T	21926004	3	4	122	1	0	0	0	0	1	0	0	0	13062	661	23	1	248	1	RAP1GAP	1	21926004	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	363661	21926004	227324617	17	67020											
HSPG2	3339	broad.mit.edu	37	chr1	22173013	22173013	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcctgcccggggaccacGcagttcagatccagggtctc	6	7	14	14	2	2	1	1	0	1	1	4	2	3	2	4	4	1	2	4	4	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:22173013G>A	uc001bfj.2	-	63	8284	c.8244C>T	c.(8242-8244)TGC>TGT	p.C2748C	HSPG2_uc009vqd.2_Silent_p.C2749C	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2748	Ig-like C2-type 13.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CGGGGACCACGCAGTTCAGAT	0.627													16	87					0	0	1	0	0		A	22173013	A	A	22173013	2	1	122	1	0	0	0	0	0	0	0	1	7446	1079	38	1		1	HSPG2	1	22173013	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	247009	22173013	227077608	18	67021											
FAM54B	56181	broad.mit.edu	37	chr1	26152890	26152890	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcggatgaagaggagacatAtgcccgggtcaggtagttga	11	8	16	6	2	1	4	1	2	0	2	1	6	1	5	1	4	2	2	1	4	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:26152890A>G	uc001bkq.3	+	4	437	c.227A>G	c.(226-228)TAT>TGT	p.Y76C	FAM54B_uc001bkr.3_Missense_Mutation_p.Y76C|FAM54B_uc010oet.1_Missense_Mutation_p.Y109C|FAM54B_uc009vrz.2_Missense_Mutation_p.Y73C|LOC646471_uc010oeu.1_5'Flank|FAM54B_uc001bks.3_Missense_Mutation_p.Y76C|FAM54B_uc001bkt.3_Missense_Mutation_p.Y76C|FAM54B_uc001bku.3_Missense_Mutation_p.Y73C|FAM54B_uc001bkv.3_Translation_Start_Site	NM_001099625	NP_001093095	Q9H019	FA54B_HUMAN	hypothetical protein LOC56181 isoform a	76										pancreas(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;1.96e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.00095)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0649)		GAGGAGACATATGCCCGGGTC	0.552													8	39					0	0	1	0	0		G	26152890	G	G	26152890	3	3	122	1	0	0	0	0	1	0	0	0	5597	449	16	3	237	3	FAM54B	1	26152890	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	3979877	26152890	223097731	19	67022											
PAQR7	164091	broad.mit.edu	37	chr1	26189692	26189692	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggactaatgtccagtgcgtaGgccaggacggagggcacctc	9	6	15	11	2	0	0	0	0	0	0	2	3	1	3	3	5	1	2	3	5	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:26189692G>T	uc001bkx.2	-	2	1306	c.639C>A	c.(637-639)GCC>GCA	p.A213A		NM_178422	NP_848509	Q86WK9	MPRA_HUMAN	progestin and adipoQ receptor family member VII	213	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding			breast(3)	3		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.16e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000724)|BRCA - Breast invasive adenocarcinoma(304;0.000965)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0136)|READ - Rectum adenocarcinoma(331;0.0649)		CCAGTGCGTAGGCCAGGACGG	0.577													8	85					0.00448238	0.0046132	1	1	0		T	26189692	T	T	26189692	2	4	122	1	0	0	0	0	0	0	0	1	11459	987	35	5		5	PAQR7	1	26189692	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	36802	26189692	223060929	20	67023											
PIGV	55650	broad.mit.edu	37	chr1	27117357	27117357	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgctgaggtttgcagtcagCtgccgtatcctgactctgat	6	13	12	10	1	2	3	1	3	1	0	3	3	3	3	2	1	4	5	2	1	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:27117357C>T	uc001bmz.2	+	2	382	c.51C>T	c.(49-51)AGC>AGT	p.S17S	PIGV_uc001bmy.2_5'UTR|PIGV_uc009vso.2_Silent_p.S17S|PIGV_uc010ofg.1_5'UTR|PIGV_uc001bna.2_Silent_p.S17S	NM_017837	NP_060307	Q9NUD9	PIGV_HUMAN	phosphatidylinositol glycan class V	17	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	glycolipid mannosyltransferase activity			ovary(1)	1		all_cancers(24;3.93e-26)|all_epithelial(13;3.96e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.26e-54)|Epithelial(14;2.85e-53)|OV - Ovarian serous cystadenocarcinoma(117;1.91e-30)|Colorectal(126;1.31e-09)|COAD - Colon adenocarcinoma(152;3.45e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000504)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.0222)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.153)|LUSC - Lung squamous cell carcinoma(448;0.227)		TTGCAGTCAGCTGCCGTATCC	0.542													16	64					0	0	1	0	0		T	27117357	T	T	27117357	2	4	122	1	0	0	0	0	0	0	0	1	11920	796	28	2		2	PIGV	1	27117357	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	927665	27117357	222133264	21	67024											
NR0B2	8431	broad.mit.edu	37	chr1	27240396	27240396	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggggcggcttgcagctccCtggcatgggcaggcccctgg	3	6	18	14	2	0	0	0	0	0	0	1	0	1	0	3	7	2	5	3	7	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:27240396C>T	uc001bnf.2	-	1	172	c.36G>A	c.(34-36)CAG>CAA	p.Q12Q		NM_021969	NP_068804	Q15466	NR0B2_HUMAN	short heterodimer partner	12					cholesterol metabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	DNA binding|protein domain specific binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription corepressor activity				0		all_cancers(24;1.23e-26)|all_epithelial(13;1.19e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;0.00017)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.01e-51)|OV - Ovarian serous cystadenocarcinoma(117;8.22e-30)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000272)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)		TTGCAGCTCCCTGGCATGGGC	0.622													11	65					0	0	1	0	0		T	27240396	T	T	27240396	2	4	122	1	0	0	0	0	0	0	0	1	10633	680	24	4		4	NR0B2	1	27240396	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	123039	27240396	222010225	22	67025											
C1orf172	126695	broad.mit.edu	37	chr1	27277975	27277975	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactaatgcgaatgatgccGcgtaccaggcggccctcagc	9	7	12	13	4	1	1	1	1	0	0	1	2	1	1	3	2	5	2	3	2	4	3	rs142079202		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:27277975G>A	uc001bni.1	-	2	986	c.897C>T	c.(895-897)CGC>CGT	p.R299R		NM_152365	NP_689578	Q8NAX2	CA172_HUMAN	hypothetical protein LOC126695	299										large_intestine(1)|ovary(1)	2		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.37e-51)|OV - Ovarian serous cystadenocarcinoma(117;2.22e-29)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000272)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)		GAATGATGCCGCGTACCAGGC	0.602													13	51					0	0	1	0	0		A	27277975	A	A	27277975	2	1	122	1	0	0	0	0	0	0	0	1	2016	1074	38	1		1	C1orf172	1	27277975	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	37579	27277975	221972646	23	67026											
MECR	51102	broad.mit.edu	37	chr1	29522757	29522757	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccccccataggttaccaTggttcctccacgcctgaaaa	10	9	6	16	1	0	1	0	1	0	0	3	1	3	1	7	2	1	2	7	2	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:29522757T>C	uc001brq.1	-	8	880	c.844A>G	c.(844-846)ATG>GTG	p.M282V	MECR_uc001brp.1_Missense_Mutation_p.M206V|MECR_uc001brr.1_Missense_Mutation_p.M206V|MECR_uc001brs.1_RNA	NM_016011	NP_057095	Q9BV79	MECR_HUMAN	trans-2-enoyl-CoA reductase, mitochondrial	282					fatty acid biosynthetic process	mitochondrion	trans-2-enoyl-CoA reductase (NADPH) activity|zinc ion binding			ovary(1)	1		Colorectal(325;0.000389)|Breast(348;0.00765)|Lung NSC(340;0.0081)|all_lung(284;0.00914)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.39e-07)|COAD - Colon adenocarcinoma(152;2.04e-05)|STAD - Stomach adenocarcinoma(196;0.0195)|BRCA - Breast invasive adenocarcinoma(304;0.053)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.137)		TAGGTTACCATGGTTCCTCCA	0.592													8	37					0	0	1	0	0		C	29522757	C	C	29522757	3	2	122	1	0	0	0	0	1	0	0	0	9442	1464	51	3	289	3	MECR	1	29522757	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	2244782	29522757	219727864	24	67027											
CSMD2	114784	broad.mit.edu	37	chr1	34011768	34011768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcaaagctgtcccccaaaCggatgccatgagccgggatc	11	6	11	13	2	1	1	1	1	0	0	3	4	2	3	4	2	4	1	4	2	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:34011768C>T	uc001bxn.1	-	56	8566	c.8537G>A	c.(8536-8538)CGT>CAT	p.R2846H	CSMD2_uc001bxm.1_Missense_Mutation_p.R2990H	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2846	Extracellular (Potential).|Sushi 20.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GTCCCCCAAACGGATGCCATG	0.567													5	53					0	0	1	0	0		T	34011768	T	T	34011768	3	4	122	1	0	0	0	0	1	0	0	0	3948	536	19	1	1982	1	CSMD2	1	34011768	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	4489011	34011768	215238853	25	67028											
EIF2C1	26523	broad.mit.edu	37	chr1	36359342	36359342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacccgctggggggtgggCgcgaggtctggttcggcttt	3	9	18	11	4	1	0	0	0	1	0	2	1	1	0	2	7	0	3	2	7	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:36359342C>T	uc001bzl.2	+	5	793	c.580C>T	c.(580-582)CGC>TGC	p.R194C	EIF2C1_uc001bzk.2_Missense_Mutation_p.R119C|EIF2C1_uc009vuy.2_5'Flank	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	194					negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GGGGGGTGGGCGCGAGGTCTG	0.632													5	47					0	0	1	0	0		T	36359342	T	T	36359342	3	4	122	1	0	0	0	0	1	0	0	0	5011	768	27	1	598	1	EIF2C1	1	36359342	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2347574	36359342	212891279	26	67029											
NDUFS5	4725	broad.mit.edu	37	chr1	39500070	39500070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcctttgacagatgagaCgtgcaggtaccatcaggaag	11	11	11	8	1	1	3	1	2	0	2	2	5	2	4	2	2	2	2	2	2	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:39500070C>T	uc001ccx.2	+	3	294	c.223C>T	c.(223-225)CGT>TGT	p.R75C	NDUFS5_uc001ccy.2_Missense_Mutation_p.R75C	NM_004552	NP_004543	O43920	NDUS5_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 5,	75					mitochondrial electron transport, NADH to ubiquinone|mitochondrial respiratory chain complex I assembly|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.93e-18)		NADH(DB00157)	ACAGATGAGACGTGCAGGTAC	0.453													7	75					0	0	1	0	0		T	39500070	T	T	39500070	3	4	122	1	0	0	0	0	1	0	0	0	10314	536	19	1	229	1	NDUFS5	1	39500070	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3140728	39500070	209750551	27	67030											
MACF1	23499	broad.mit.edu	37	chr1	39753194	39753194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaagatgaaggcaatctccGatttgtgtatgaactactgt	12	13	10	6	1	1	4	0	3	1	1	2	5	1	4	1	1	2	2	1	1	6	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:39753194G>A	uc010ois.1	+	16	1965	c.1760G>A	c.(1759-1761)CGA>CAA	p.R587Q	MACF1_uc001cda.1_Missense_Mutation_p.R495Q	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	587					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GGCAATCTCCGATTTGTGTAT	0.468													33	187					0	0	1	0	0		A	39753194	A	A	39753194	3	1	122	1	0	0	0	0	1	0	0	0	9162	1058	37	1	1814	1	MACF1	1	39753194	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	253124	39753194	209497427	28	67031											
SMAP2	64744	broad.mit.edu	37	chr1	40881993	40881993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcactgtatggatcccagaCgcctcaaatgcctactcaag	11	10	7	13	1	3	1	3	0	0	1	4	2	4	2	3	1	2	1	3	1	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:40881993C>T	uc001cfj.2	+	8	892	c.827C>T	c.(826-828)ACG>ATG	p.T276M	SMAP2_uc010ojh.1_Missense_Mutation_p.T276M|SMAP2_uc001cfk.2_Missense_Mutation_p.T246M|SMAP2_uc010oji.1_Missense_Mutation_p.T193M|SMAP2_uc010ojj.1_Missense_Mutation_p.T92M	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	276					regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)			GGATCCCAGACGCCTCAAATG	0.458													20	114					0	0	1	0	0		T	40881993	T	T	40881993	3	4	122	1	0	0	0	0	1	0	0	0	14792	536	19	1	857	1	SMAP2	1	40881993	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1128799	40881993	208368628	29	67032											
TIE1	7075	broad.mit.edu	37	chr1	43773592	43773592	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagtgcactgtgagaagTcaggtataagcactatgacc	13	9	12	7	0	1	2	1	2	0	1	1	4	1	3	1	2	2	3	1	2	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:43773592T>C	uc001ciu.2	+	7	1118	c.1039T>C	c.(1039-1041)TCA>CCA	p.S347P	TIE1_uc010okd.1_Missense_Mutation_p.S347P|TIE1_uc010oke.1_Missense_Mutation_p.S302P|TIE1_uc009vwq.2_Missense_Mutation_p.S303P|TIE1_uc010okf.1_Intron|TIE1_uc010okg.1_Intron|TIE1_uc010okc.1_Intron	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	347	Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CTGTGAGAAGTCAGGTATAAG	0.547													5	43					0	0	1	0	0		C	43773592	C	C	43773592	3	2	122	1	0	0	0	0	1	0	0	0	15918	1667	58	3	1065	3	TIE1	1	43773592	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	2891599	43773592	205477029	30	67033											
KDM4A	9682	broad.mit.edu	37	chr1	44118953	44118953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atacattgcctacattgaatCccaaggagctcatcgggcag	12	9	9	11	1	1	1	1	1	0	0	3	2	2	2	2	2	4	2	2	2	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:44118953C>T	uc001cjx.2	+	2	273	c.107C>T	c.(106-108)TCC>TTC	p.S36F	KDM4A_uc010oki.1_Missense_Mutation_p.S36F	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	36	JmjN.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1						TACATTGAATCCCAAGGAGCT	0.433													23	116					0	0	1	0	0		T	44118953	T	T	44118953	3	4	122	1	0	0	0	0	1	0	0	0	8144	855	30	4	109	4	KDM4A	1	44118953	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	345361	44118953	205131668	31	67034											
TOE1	114034	broad.mit.edu	37	chr1	45808537	45808537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacgggaaaatgggaagcagCgggcagctggcagcccacac	13	2	15	11	2	0	0	0	0	0	0	0	2	0	2	1	4	5	4	1	4	4	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:45808537C>T	uc009vxq.2	+	7	1358	c.775C>T	c.(775-777)CGG>TGG	p.R259W	MUTYH_uc001cnf.2_5'Flank|MUTYH_uc009vxo.2_5'Flank|MUTYH_uc001cng.2_5'Flank|MUTYH_uc001cnj.2_5'Flank|MUTYH_uc001cni.2_5'Flank|MUTYH_uc001cnh.2_5'Flank|MUTYH_uc001cno.2_5'Flank|MUTYH_uc001cnk.2_5'Flank|MUTYH_uc010oll.1_5'Flank|MUTYH_uc001cnm.2_5'Flank|MUTYH_uc001cnl.2_5'Flank|MUTYH_uc009vxp.2_5'Flank|MUTYH_uc001cnn.2_5'Flank|TOE1_uc001cnq.3_RNA|TOE1_uc010olm.1_Missense_Mutation_p.R179W|TOE1_uc010oln.1_3'UTR|TOE1_uc001cnr.3_RNA	NM_025077	NP_079353	Q96GM8	TOE1_HUMAN	target of EGR1, member 1 (nuclear)	259						nuclear speck|nucleolus	nucleic acid binding|zinc ion binding			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)					TGGGAAGCAGCGGGCAGCTGG	0.423													6	38					0	0	1	0	0		T	45808537	T	T	45808537	3	4	122	1	0	0	0	0	1	0	0	0	16374	759	27	1	801	1	TOE1	1	45808537	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1689584	45808537	203442084	32	67035											
RAD54L	8438	broad.mit.edu	37	chr1	46739833	46739833	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttatacgtccgcctggatgGcacgatgtccattaagaagc	10	10	10	11	3	0	1	0	0	0	1	2	3	2	2	3	2	2	1	3	2	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:46739833G>A	uc009vye.2	+	16	1748	c.1634G>A	c.(1633-1635)GGC>GAC	p.G545D	RAD54L_uc001cpl.2_Missense_Mutation_p.G545D|RAD54L_uc001cpm.1_Missense_Mutation_p.G328D	NM_001142548	NP_001136020	Q92698	RAD54_HUMAN	RAD54-like protein	545	Helicase C-terminal.				meiosis	nucleus	ATP binding|DNA binding|helicase activity			ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(166;0.155)	Breast(1374;0.0634)		KIRC - Kidney renal clear cell carcinoma(1967;0.000896)		CGCCTGGATGGCACGATGTCC	0.423								Direct_reversal_of_damage|Homologous_recombination					9	43					0	0	1	0	0		A	46739833	A	A	46739833	3	1	122	1	0	0	0	0	1	0	0	0	13018	1203	42	2	1692	2	RAD54L	1	46739833	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	931296	46739833	202510788	33	67036											
RAD54L	8438	broad.mit.edu	37	chr1	46740228	46740228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccctgactttgtcttcAtgctgagcagcaaagctggg	9	10	12	10	0	2	3	1	2	1	1	2	3	2	3	1	1	5	4	1	1	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:46740228A>G	uc009vye.2	+	17	1822	c.1708A>G	c.(1708-1710)ATG>GTG	p.M570V	RAD54L_uc001cpl.2_Missense_Mutation_p.M570V|RAD54L_uc001cpm.1_Missense_Mutation_p.M353V	NM_001142548	NP_001136020	Q92698	RAD54_HUMAN	RAD54-like protein	570	Helicase C-terminal.				meiosis	nucleus	ATP binding|DNA binding|helicase activity			ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(166;0.155)	Breast(1374;0.0634)		KIRC - Kidney renal clear cell carcinoma(1967;0.000896)		CTTTGTCTTCATGCTGAGCAG	0.527								Direct_reversal_of_damage|Homologous_recombination					26	131					0	0	1	0	0		G	46740228	G	G	46740228	3	3	122	1	0	0	0	0	1	0	0	0	13018	217	8	3	1770	3	RAD54L	1	46740228	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	395	46740228	202510393	34	67037											
NRD1	4898	broad.mit.edu	37	chr1	52254957	52254957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgagtgttgttgtgaaaGccctgatatcagtaatgggg	9	13	15	4	0	1	3	1	3	0	0	1	3	1	3	1	3	1	4	1	3	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:52254957G>A	uc001ctc.3	-	33	3933	c.3611C>T	c.(3610-3612)GCT>GTT	p.A1204V	NRD1_uc009vzb.2_Missense_Mutation_p.A899V|NRD1_uc001ctd.3_Missense_Mutation_p.A1136V	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	1135				DCIIPITDIRAFTTTLNLLPYHKIVK -> SVSSPLLISGL SQQHSTFSPTIK (in Ref. 1).	cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						TGTTGTGAAAGCCCTGATATC	0.413													17	108					0	0	1	0	0		A	52254957	A	A	52254957	3	1	122	1	0	0	0	0	1	0	0	0	10664	971	34	2	52	2	NRD1	1	52254957	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	5514729	52254957	196995664	35	67038											
KTI12	112970	broad.mit.edu	37	chr1	52498938	52498938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggtacgtcggcctgggCacttccatttactacagagt	7	12	11	11	2	0	1	0	0	0	1	2	1	1	1	2	3	3	2	2	3	3	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:52498938C>T	uc001ctj.1	-	1	535	c.496G>A	c.(496-498)GCC>ACC	p.A166T	TXNDC12_uc001cti.2_Intron	NM_138417	NP_612426	Q96EK9	KTI12_HUMAN	KTI12 homolog, chromatin associated	166							ATP binding			central_nervous_system(2)	2						TCGGCCTGGGCACTTCCATTT	0.612													17	115					0	0	1	0	0		T	52498938	T	T	52498938	3	4	122	1	0	0	0	0	1	0	0	0	8600	710	25	2	572	2	KTI12	1	52498938	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	243981	52498938	196751683	36	67039											
LRP8	7804	broad.mit.edu	37	chr1	53715091	53715091	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctcggaaagagggttcttCgggagttggtgcagctgtga	8	10	17	6	2	1	2	0	1	1	1	3	4	1	4	0	4	3	5	0	4	1	3	rs145707126		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:53715091C>T	uc001cvi.1	-	18	2956	c.2814G>A	c.(2812-2814)CCG>CCA	p.P938P	LRP8_uc001cvh.1_Intron|LRP8_uc001cvk.1_Silent_p.P768P|LRP8_uc001cvj.1_Intron|LRP8_uc001cvl.1_Intron	NM_004631	NP_004622	Q14114	LRP8_HUMAN	low density lipoprotein receptor-related protein	938	Cytoplasmic (Potential).				cytokine-mediated signaling pathway|endocytosis|lipid metabolic process|platelet activation|proteolysis	caveola	calcium ion binding|very-low-density lipoprotein particle receptor activity				0						GAGGGTTCTTCGGGAGTTGGT	0.363													11	86					0	0	1	0	0		T	53715091	T	T	53715091	2	4	122	1	0	0	0	0	0	0	0	1	8981	871	31	1		1	LRP8	1	53715091	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1216153	53715091	195535530	37	67040											
LRRC42	115353	broad.mit.edu	37	chr1	54428072	54428072	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taactgcaagacagagggctGggctgaccaggtactccaga	12	6	13	10	0	0	4	0	1	0	3	1	4	1	4	2	3	3	4	2	3	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:54428072G>T	uc001cwj.1	+	6	1117	c.917G>T	c.(916-918)TGG>TTG	p.W306L	LRRC42_uc001cwl.1_Missense_Mutation_p.W306L|LRRC42_uc001cwk.1_Missense_Mutation_p.W306L|LRRC42_uc009vzm.1_Missense_Mutation_p.W306L	NM_052940	NP_443172	Q9Y546	LRC42_HUMAN	leucine rich repeat containing 42	306											0						ACAGAGGGCTGGGCTGACCAG	0.433													4	60					0.150653	0.151538	1	1	0		T	54428072	T	T	54428072	3	4	122	1	0	0	0	0	1	0	0	0	9018	1357	47	5	935	5	LRRC42	1	54428072	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	712981	54428072	194822549	38	67041											
DEPDC1	55635	broad.mit.edu	37	chr1	68947796	68947796	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaagttctattgtacttttGcagagtcttttattgattgt	9	20	8	4	0	2	2	0	1	2	1	2	3	2	2	0	0	2	3	0	0	4	10			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:68947796G>A	uc001dem.3	-	8	1812	c.1695C>T	c.(1693-1695)TGC>TGT	p.C565C	DEPDC1_uc001dej.3_5'UTR|DEPDC1_uc001dek.3_Intron|DEPDC1_uc001del.3_Intron	NM_001114120	NP_001107592	Q5TB30	DEP1A_HUMAN	DEP domain containing 1 isoform a	565					intracellular signal transduction|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	GTPase activator activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(397;7.21e-36)		TTGTACTTTTGCAGAGTCTTT	0.383													18	142					0	0	1	0	0		A	68947796	A	A	68947796	2	1	122	1	0	0	0	0	0	0	0	1	4445	1311	46	2		2	DEPDC1	1	68947796	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	14519724	68947796	180302825	39	67042											
C1orf173	127254	broad.mit.edu	37	chr1	75055401	75055401	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttactcttatccttttccTtttcttctgcagaaacatgt	7	19	4	11	0	3	1	0	0	3	1	5	1	5	1	2	0	3	2	2	0	3	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:75055401T>G	uc001dgg.2	-	12	2309	c.2090A>C	c.(2089-2091)AAG>ACG	p.K697T	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.K491T	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	697	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						ATCCTTTTCCTTTTCTTCTGC	0.458													27	186					0	0	1	0	0		G	75055401	G	G	75055401	3	3	122	1	0	0	0	0	1	0	0	0	2017	1609	56	5	2514	5	C1orf173	1	75055401	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	6107605	75055401	174195220	40	67043											
PIGK	10026	broad.mit.edu	37	chr1	77635038	77635038	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagctggtttgggatttctAggattacaggccatatcatc	9	14	11	7	0	2	0	1	0	1	0	3	2	2	2	1	4	2	3	1	4	4	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:77635038A>G	uc001dhk.2	-	4	327	c.282T>C	c.(280-282)CCT>CCC	p.P94P	PIGK_uc010orj.1_Intron|PIGK_uc009wbx.2_Intron|PIGK_uc001dhl.1_Silent_p.P94P	NM_005482	NP_005473	Q92643	GPI8_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	94	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein thiol-disulfide exchange|proteolysis	GPI-anchor transamidase complex	cysteine-type endopeptidase activity|GPI-anchor transamidase activity|protein binding			ovary(2)|pancreas(1)	3						TGGGATTTCTAGGATTACAGG	0.333													12	63					0	0	1	0	0		G	77635038	G	G	77635038	2	3	122	1	0	0	0	0	0	0	0	1	11909	407	15	3		3	PIGK	1	77635038	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2579637	77635038	171615583	41	67044											
C1orf52	148423	broad.mit.edu	37	chr1	85725277	85725277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagctgctgctcccgtatgCcgcaaaatagctcagagggt	9	9	12	11	2	1	2	1	1	0	1	2	2	2	2	2	1	5	6	2	1	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:85725277C>T	uc001dkv.2	-	1	79	c.40G>A	c.(40-42)GCA>ACA	p.A14T	C1orf52_uc001dkw.2_RNA|C1orf52_uc001dkx.3_RNA|C1orf52_uc009wcn.2_Missense_Mutation_p.A14T	NM_198077	NP_932343	Q8N6N3	CA052_HUMAN	hypothetical protein LOC148423	14										ovary(1)	1				all cancers(265;0.0105)|Epithelial(280;0.0293)		CTCCCGTATGCCGCAAAATAG	0.652											OREG0013580	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	13					0	0	1	0	0		T	85725277	T	T	85725277	3	4	122	1	0	0	0	0	1	0	0	0	2047	739	26	2	520	2	C1orf52	1	85725277	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	8090239	85725277	163525344	42	67045											
GTF2B	2959	broad.mit.edu	37	chr1	89325946	89325946	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttagaattgccaaattcGtcaaaacttgcagctcctgt	12	13	6	10	1	1	1	1	0	0	1	3	1	2	1	2	0	5	2	2	0	6	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:89325946G>A	uc001dmo.3	-	4	401	c.282C>T	c.(280-282)GAC>GAT	p.D94D	GTF2B_uc009wcw.1_RNA	NM_001514	NP_001505	Q00403	TF2B_HUMAN	general transcription factor IIB	94					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	thyroid hormone receptor binding|translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0131)|Epithelial(280;0.0255)		TGCCAAATTCGTCAAAACTTG	0.353													10	81					0	0	1	0	0		A	89325946	A	A	89325946	2	1	122	1	0	0	0	0	0	0	0	1	6871	1136	40	1		1	GTF2B	1	89325946	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3600669	89325946	159924675	43	67046											
CCBL2	56267	broad.mit.edu	37	chr1	89408751	89408751	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctgagttacagaatgcTgaaacggggatggctgatag	11	10	14	6	1	1	4	0	3	1	1	2	5	1	5	0	3	3	3	0	3	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:89408751T>C	uc001dmp.2	-	13	1616	c.1239A>G	c.(1237-1239)TCA>TCG	p.S413S	CCBL2_uc001dmq.2_Silent_p.S379S|CCBL2_uc001dmr.2_Silent_p.S249S	NM_001008661	NP_001008661	Q6YP21	KAT3_HUMAN	kynurenine aminotransferase III isoform 1	413					biosynthetic process|kynurenine metabolic process|tryptophan catabolic process		cysteine-S-conjugate beta-lyase activity|kynurenine-glyoxylate transaminase activity|kynurenine-oxoglutarate transaminase activity|pyridoxal phosphate binding			ovary(1)	1		Lung NSC(277;0.123)		all cancers(265;0.0117)|Epithelial(280;0.0341)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	TACAGAATGCTGAAACGGGGA	0.308													19	158					0	0	1	0	0		C	89408751	C	C	89408751	2	2	122	1	0	0	0	0	0	0	0	1	2736	1567	55	3		3	CCBL2	1	89408751	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	82805	89408751	159841870	44	67047											
TGFBR3	7049	broad.mit.edu	37	chr1	92161320	92161320	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcacggttagggtgtcCagaccatggaaaattgctat	11	10	10	10	1	1	1	1	0	0	1	2	2	2	2	3	3	1	2	3	3	4	3	rs142345668		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:92161320C>A	uc001doh.2	-	16	2812	c.2346G>T	c.(2344-2346)CTG>CTT	p.L782L	TGFBR3_uc009wde.2_Silent_p.L477L|TGFBR3_uc010osy.1_Silent_p.L740L|TGFBR3_uc001doi.2_Silent_p.L781L|TGFBR3_uc001doj.2_Silent_p.L781L	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	782	Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		TTAGGGTGTCCAGACCATGGA	0.448													16	92					2.4624e-09	2.78267e-09	1	1	0		A	92161320	A	A	92161320	2	1	122	1	0	0	0	0	0	0	0	1	15848	581	21	5		5	TGFBR3	1	92161320	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2752569	92161320	157089301	45	67048											
MTF2	22823	broad.mit.edu	37	chr1	93583921	93583921	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggtatttgaagatgctaCagtgctgcaaatgtaagcag	12	11	12	6	0	0	2	0	1	0	1	0	2	0	2	0	1	5	7	0	1	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:93583921C>T	uc009wdj.2	+	7	944	c.652C>T	c.(652-654)CAG>TAG	p.Q218*	MTF2_uc001dph.2_Nonsense_Mutation_p.Q116*|MTF2_uc010oth.1_Nonsense_Mutation_p.Q116*|MTF2_uc009wdk.2_Nonsense_Mutation_p.Q218*|MTF2_uc001dpi.3_5'UTR|MTF2_uc010oti.1_Nonsense_Mutation_p.Q116*|MTF2_uc001dpj.3_Nonsense_Mutation_p.Q116*|MTF2_uc001dpl.3_Nonsense_Mutation_p.Q116*	NM_007358	NP_031384	Q9Y483	MTF2_HUMAN	metal response element binding transcription	218	PHD-type 2.					nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_lung(203;0.00196)|Lung NSC(277;0.00902)|Melanoma(281;0.099)|Ovarian(761;0.109)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00076)|GBM - Glioblastoma multiforme(16;0.00157)|Epithelial(280;0.0886)		GAAGATGCTACAGTGCTGCAA	0.338													7	55					0	0	1	0	0		T	93583921	T	T	93583921	4	4	122	1	0	0	0	0	0	1	0	0	9941	479	17	4	678	4	MTF2	1	93583921	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1422601	93583921	155666700	46	67049											
CCDC18	343099	broad.mit.edu	37	chr1	93659237	93659237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaaaggaacagagtttgcagGagtccaaagaggaatgtata	18	7	12	4	0	0	2	0	0	0	2	1	5	1	5	1	3	2	3	1	3	7	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:93659237G>A	uc001dpq.2	+	6	1156	c.988G>A	c.(988-990)GAG>AAG	p.E330K		NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	212	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		GAGTTTGCAGGAGTCCAAAGA	0.323													9	47					0	0	1	0	0		A	93659237	A	A	93659237	3	1	122	1	0	0	0	0	1	0	0	0	2797	1175	41	4	1010	4	CCDC18	1	93659237	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	75316	93659237	155591384	47	67050											
ABCA4	24	broad.mit.edu	37	chr1	94466610	94466610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgatgatgctcacgatgaCgttccacagcatgcggcgtg	8	10	12	11	4	2	3	1	3	1	0	3	4	3	3	1	1	3	3	1	1	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:94466610C>T	uc001dqh.2	-	46	6438	c.6334G>A	c.(6334-6336)GTC>ATC	p.V2112I		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	2112	ABC transporter 2.|Cytoplasmic.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CTCACGATGACGTTCCACAGC	0.637													7	86					0	0	1	0	0		T	94466610	T	T	94466610	3	4	122	1	0	0	0	0	1	0	0	0	34	536	19	1	507	1	ABCA4	1	94466610	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	807373	94466610	154784011	48	67051											
SLC35A3	23443	broad.mit.edu	37	chr1	100480964	100480964	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccgactgacctggatagtAgttgttcttcaggtaaagca	12	11	10	8	1	2	1	1	1	1	0	2	3	2	2	2	2	2	5	2	2	5	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:100480964A>G	uc001dsp.1	+	6	938	c.741A>G	c.(739-741)GTA>GTG	p.V247V	SLC35A3_uc001dsq.1_Silent_p.V247V|SLC35A3_uc009wdy.1_Intron|SLC35A3_uc001dsr.1_Silent_p.V289V|SLC35A3_uc001dss.1_Silent_p.V166V	NM_012243	NP_036375	Q9Y2D2	S35A3_HUMAN	solute carrier family 35 member 3A	247	Helical; (Potential).				UDP-N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	sugar:hydrogen symporter activity|UDP-N-acetylglucosamine transmembrane transporter activity				0		all_epithelial(167;0.000686)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.124)|all cancers(265;0.198)|Lung(183;0.199)		CCTGGATAGTAGTTGTTCTTC	0.318													9	62					0	0	1	0	0		G	100480964	G	G	100480964	2	3	122	1	0	0	0	0	0	0	0	1	14597	407	15	3		3	SLC35A3	1	100480964	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	6014354	100480964	148769657	49	67052											
AMY2B	280	broad.mit.edu	37	chr1	104114826	104114826	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctataaattatgcacaagatCtggaaatgaagatgaattta	18	12	7	4	0	1	4	0	2	1	2	1	5	1	5	0	1	1	1	0	1	9	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:104114826C>A	uc001duq.2	+	4	879	c.263C>A	c.(262-264)TCT>TAT	p.S88Y	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.S88Y	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	88					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		TGCACAAGATCTGGAAATGAA	0.353													23	165					5.35356e-11	6.12492e-11	1	1	0		A	104114826	A	A	104114826	3	1	122	1	0	0	0	0	1	0	0	0	595	913	32	5	269	5	AMY2B	1	104114826	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3633862	104114826	145135795	50	67053											
SARS	6301	broad.mit.edu	37	chr1	109756660	109756660	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtggataaaggaggggacCcagccctcatccgagagacg	11	4	16	10	2	1	1	1	0	0	1	2	6	2	4	3	5	1	0	3	5	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:109756660C>A	uc001dwu.1	+	1	121	c.46C>A	c.(46-48)CCA>ACA	p.P16T	SARS_uc001dwt.1_Missense_Mutation_p.P16T|SARS_uc001dwv.1_Missense_Mutation_p.P16T|SARS_uc001dww.1_5'UTR|SARS_uc001dwx.1_Missense_Mutation_p.P16T|SARS_uc009wfa.1_Missense_Mutation_p.P16T|SARS_uc001dwy.1_5'UTR	NM_006513	NP_006504	P49591	SYSC_HUMAN	seryl-tRNA synthetase	16					seryl-tRNA aminoacylation|tRNA processing	cytosol	ATP binding|protein binding|RNA binding|serine-tRNA ligase activity			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0301)|Lung(183;0.0677)|COAD - Colon adenocarcinoma(174;0.116)|Epithelial(280;0.233)	L-Serine(DB00133)	AGGAGGGGACCCAGCCCTCAT	0.597													8	53					0.000274275	0.000287713	1	1	0		A	109756660	A	A	109756660	3	1	122	1	0	0	0	0	1	0	0	0	13869	623	22	5	48	5	SARS	1	109756660	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5641834	109756660	139493961	51	67054											
AMPD2	271	broad.mit.edu	37	chr1	110173646	110173646	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggaccaatgtgccagacAtccgcgtgggctaccgctac	8	6	12	15	4	0	1	0	0	0	1	1	2	1	2	5	2	3	2	5	2	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:110173646A>G	uc009wfh.1	+	19	3054	c.2512A>G	c.(2512-2514)ATC>GTC	p.I838V	AMPD2_uc001dyb.1_Missense_Mutation_p.I757V|AMPD2_uc001dyc.1_Missense_Mutation_p.I838V|AMPD2_uc010ovr.1_Missense_Mutation_p.I763V|AMPD2_uc001dyd.1_Missense_Mutation_p.I719V|AMPD2_uc001dye.1_Missense_Mutation_p.I107V	NM_004037	NP_004028	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2 (isoform L)	838					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|breast(1)	3		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		TGTGCCAGACATCCGCGTGGG	0.617													4	42					0	0	1	0	0		G	110173646	G	G	110173646	3	3	122	1	0	0	0	0	1	0	0	0	586	217	8	3	2623	3	AMPD2	1	110173646	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	416986	110173646	139076975	52	67055											
CSF1	1435	broad.mit.edu	37	chr1	110459942	110459942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagtgtgctaccttaagaagGcatttctcctggtacaagac	11	11	9	10	0	1	2	0	0	1	2	2	2	1	2	2	2	3	3	2	2	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:110459942G>A	uc001dyu.2	+	4	666	c.253G>A	c.(253-255)GCA>ACA	p.A85T	CSF1_uc001dyt.2_Missense_Mutation_p.A85T|CSF1_uc001dyv.3_Missense_Mutation_p.A85T|CSF1_uc001dyw.3_Missense_Mutation_p.A85T	NM_172212	NP_757351	P09603	CSF1_HUMAN	colony stimulating factor 1 isoform a precursor	85	Lumenal (Potential).				cell proliferation|developmental process involved in reproduction|macrophage differentiation|monocyte activation|osteoclast differentiation|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of cellular protein metabolic process|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|positive regulation of macrophage differentiation|positive regulation of monocyte differentiation|positive regulation of mononuclear cell proliferation|positive regulation of protein kinase activity	extracellular space|integral to membrane|perinuclear region of cytoplasm|plasma membrane|receptor complex	cytokine activity|growth factor activity|macrophage colony-stimulating factor receptor binding|protein homodimerization activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Acute lymphoblastic leukemia(138;0.204)		Lung(183;0.0238)|Colorectal(144;0.112)|all cancers(265;0.117)|Epithelial(280;0.127)|LUSC - Lung squamous cell carcinoma(189;0.135)		CCTTAAGAAGGCATTTCTCCT	0.522													26	236					0	0	1	0	0		A	110459942	A	A	110459942	3	1	122	1	0	0	0	0	1	0	0	0	3934	1203	42	2	267	2	CSF1	1	110459942	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	286296	110459942	138790679	53	67056											
AHCYL1	10768	broad.mit.edu	37	chr1	110561200	110561200	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgcactccggagctgacGtgggagcgagtacgttctca	7	8	13	13	5	1	1	1	1	1	0	4	4	3	3	2	2	3	4	2	2	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:110561200G>A	uc001dyx.2	+	13	1612	c.1245G>A	c.(1243-1245)ACG>ACA	p.T415T	AHCYL1_uc010ovw.1_Silent_p.T368T|AHCYL1_uc001dyy.2_Silent_p.T368T|AHCYL1_uc010ovx.1_Silent_p.T368T	NM_006621	NP_006612	O43865	SAHH2_HUMAN	S-adenosylhomocysteine hydrolase-like 1	415	NAD binding (By similarity).				one-carbon metabolic process	endoplasmic reticulum	adenosylhomocysteinase activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0259)|Colorectal(144;0.123)|all cancers(265;0.134)|Epithelial(280;0.141)|LUSC - Lung squamous cell carcinoma(189;0.143)		CGGAGCTGACGTGGGAGCGAG	0.512													6	45					0	0	1	0	0		A	110561200	A	A	110561200	2	1	122	1	0	0	0	0	0	0	0	1	410	1132	40	1		1	AHCYL1	1	110561200	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	101258	110561200	138689421	54	67057											
KCNA10	3744	broad.mit.edu	37	chr1	111060821	111060821	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaactgacggtggatgtCattggtgggtagcagtgttt	8	12	15	6	1	1	2	1	1	0	1	1	3	1	3	1	4	2	3	1	4	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:111060821C>A	uc001dzt.1	-	1	977	c.589G>T	c.(589-591)GAC>TAC	p.D197Y		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	197						voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		CGGTGGATGTCATTGGTGGGT	0.537													17	87					2.23348e-06	2.43008e-06	1	1	0		A	111060821	A	A	111060821	3	1	122	1	0	0	0	0	1	0	0	0	8018	826	29	5	950	5	KCNA10	1	111060821	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	499621	111060821	138189800	55	67058											
KCND3	3752	broad.mit.edu	37	chr1	112525054	112525054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagtgcagcttccccgtgcGgtagaagttgagcacgcagc	8	8	14	11	3	0	2	0	1	0	1	1	2	1	2	2	1	5	7	2	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:112525054G>A	uc001ebu.1	-	2	775	c.295C>T	c.(295-297)CGC>TGC	p.R99C	KCND3_uc001ebv.1_Missense_Mutation_p.R99C	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	99	Cytoplasmic (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		TTCCCCGTGCGGTAGAAGTTG	0.612													17	107					0	0	1	0	0		A	112525054	A	A	112525054	3	1	122	1	0	0	0	0	1	0	0	0	8036	1116	39	1	1700	1	KCND3	1	112525054	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1464233	112525054	136725567	56	67059											
IGSF3	3321	broad.mit.edu	37	chr1	117146314	117146314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccactcgccatccactGcccgcacccattcagtcaca	8	8	5	20	2	3	0	2	0	1	0	5	0	4	0	5	0	2	1	5	0	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:117146314G>A	uc001egr.1	-	6	2261	c.1556C>T	c.(1555-1557)GCA>GTA	p.A519V	IGSF3_uc001egq.1_Missense_Mutation_p.A539V|IGSF3_uc001egs.1_Missense_Mutation_p.A192V	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	519	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		GCCATCCACTGCCCGCACCCA	0.607													8	66					0	0	1	0	0		A	117146314	A	A	117146314	3	1	122	1	0	0	0	0	1	0	0	0	7617	1319	46	2	2052	2	IGSF3	1	117146314	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4621260	117146314	132104307	57	67060											
PTGFRN	5738	broad.mit.edu	37	chr1	117487714	117487714	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggtgatccagccatcaGgtgagctggaaacgatgcgt	9	8	14	10	3	1	2	1	2	0	0	2	4	2	3	3	3	4	1	3	3	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:117487714G>T	uc001egv.1	+	3	969	c.832G>T	c.(832-834)GTT>TTT	p.V278F		NM_020440	NP_065173	Q9P2B2	FPRP_HUMAN	prostaglandin F2 receptor negative regulator	278	Ig-like C2-type 3.|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	protein binding			liver(1)	1	Lung SC(450;0.225)	all_cancers(81;0.00104)|all_lung(203;8.97e-05)|all_epithelial(167;0.000139)|Lung NSC(69;0.000446)		Lung(183;0.0704)|LUSC - Lung squamous cell carcinoma(189;0.227)|Colorectal(144;0.248)		CCAGCCATCAGGTGAGCTGGA	0.522													4	46					0.150653	0.151538	1	1	0		T	117487714	T	T	117487714	3	4	122	1	0	0	0	0	1	0	0	0	12773	1014	35	5	842	5	PTGFRN	1	117487714	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	341400	117487714	131762907	58	67061											
MAN1A2	10905	broad.mit.edu	37	chr1	117910865	117910865	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ataccacctctgaacctgggGccgccttccttcccacatca	8	9	6	18	1	2	1	1	1	1	0	4	1	4	1	7	2	2	0	7	2	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:117910865G>A	uc001ehd.1	+	1	781	c.60G>A	c.(58-60)GGG>GGA	p.G20G	MAN1A2_uc009whg.1_5'UTR	NM_006699	NP_006690	O60476	MA1A2_HUMAN	mannosidase, alpha, class 1A, member 2	20	Cytoplasmic (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity				0	Lung SC(450;0.225)	all_cancers(81;7.9e-06)|all_epithelial(167;7.39e-07)|all_lung(203;2.84e-06)|Lung NSC(69;1.99e-05)		Lung(183;0.0688)|Kidney(133;0.114)|LUSC - Lung squamous cell carcinoma(189;0.223)|KIRC - Kidney renal clear cell carcinoma(1967;0.237)|Colorectal(144;0.243)		TGAACCTGGGGCCGCCTTCCT	0.493													13	117					0	0	1	0	0		A	117910865	A	A	117910865	2	1	122	1	0	0	0	0	0	0	0	1	9229	1190	42	2		2	MAN1A2	1	117910865	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	423151	117910865	131339756	59	67062											
HMGCS2	3158	broad.mit.edu	37	chr1	120301892	120301892	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcatacacattctccatatgGgttcccctcagccctggaaa	10	11	6	14	0	3	0	2	0	1	0	5	1	4	1	4	2	2	1	4	2	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:120301892G>A	uc001eid.2	-	4	750	c.699C>T	c.(697-699)ACC>ACT	p.T233T	HMGCS2_uc010oxj.1_Silent_p.T191T|HMGCS2_uc001eie.2_Silent_p.T141T	NM_005518	NP_005509	P54868	HMCS2_HUMAN	hydroxymethylglutaryl-CoA synthase 2 isoform 1	233					acetoacetic acid biosynthetic process|cholesterol biosynthetic process|isoprenoid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA synthase activity			ovary(2)	2	all_cancers(5;6.38e-10)|all_epithelial(5;1.1e-10)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;1.29e-06)|Lung NSC(69;9.35e-06)|all_epithelial(167;0.00124)		Lung(183;0.0112)|LUSC - Lung squamous cell carcinoma(189;0.0595)		TCTCCATATGGGTTCCCCTCA	0.473													7	70					0	0	1	0	0		A	120301892	A	A	120301892	2	1	122	1	0	0	0	0	0	0	0	1	7249	1219	43	4		4	HMGCS2	1	120301892	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2391027	120301892	128948729	60	67063											
NOTCH2	4853	broad.mit.edu	37	chr1	120458270	120458270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacctgcccgtcctgctgggGcatcatggcagtggggaaag	7	8	15	11	1	1	0	1	0	0	0	2	1	2	1	3	5	3	3	3	5	2	1	rs75831573	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:120458270G>A	uc001eik.2	-	34	7331	c.7075C>T	c.(7075-7077)CCC>TCC	p.P2359S		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	2359	Cytoplasmic (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCCTGCTGGGGCATCATGGCA	0.607			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				17	145					0	0	1	0	0		A	120458270	A	A	120458270	3	1	122	1	0	0	0	0	1	0	0	0	10567	1203	42	2	344	2	NOTCH2	1	120458270	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	156378	120458270	128792351	61	67064											
NOTCH2	4853	broad.mit.edu	37	chr1	120461946	120461946	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctttacctggaagacacCttgggcatcagctgccactg	8	11	10	12	0	2	1	1	0	1	1	2	2	2	2	3	2	3	3	3	2	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:120461946C>A	uc001eik.2	-	31	6026	c.5770G>T	c.(5770-5772)GGT>TGT	p.G1924C		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1924	ANK 3.|Cytoplasmic (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGGAAGACACCTTGGGCATCA	0.383			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				11	77					0.105934	0.107185	1	1	0		A	120461946	A	A	120461946	3	1	122	1	0	0	0	0	1	0	0	0	10567	681	24	5	1661	5	NOTCH2	1	120461946	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3676	120461946	128788675	62	67065											
ECM1	1893	broad.mit.edu	37	chr1	150483519	150483519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaatctgccttcctaacCgtcagcatgtggtatatggt	10	12	8	11	1	2	0	1	0	1	0	3	0	3	0	4	2	3	2	4	2	4	4	rs150625690		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:150483519C>T	uc001eus.2	+	6	752	c.553C>T	c.(553-555)CGT>TGT	p.R185C	ECM1_uc010pce.1_Missense_Mutation_p.R114C|ECM1_uc010pcf.1_Missense_Mutation_p.R107C|ECM1_uc001eut.2_Missense_Mutation_p.R185C|ECM1_uc001euu.2_Missense_Mutation_p.R214C|ECM1_uc001euv.2_Missense_Mutation_p.R212C|ECM1_uc009wlu.2_5'UTR	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	185	2 X approximate repeats.|1.				angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CCTTCCTAACCGTCAGCATGT	0.587													36	259					0	0	1	0	0		T	150483519	T	T	150483519	3	4	122	1	0	0	0	0	1	0	0	0	4903	652	23	1	575	1	ECM1	1	150483519	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	30021573	150483519	98767102	63	67066											
SETDB1	9869	broad.mit.edu	37	chr1	150936529	150936529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtggatacccatgatcttcGcttcccctgggtggccttct	4	13	10	14	2	2	1	0	1	2	0	4	2	3	2	4	3	1	1	4	3	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:150936529G>A	uc001evu.2	+	21	3918	c.3728G>A	c.(3727-3729)CGC>CAC	p.R1243H	SETDB1_uc001evv.2_Missense_Mutation_p.R1243H	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	1243	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			CATGATCTTCGCTTCCCCTGG	0.527													9	78					0	0	1	0	0		A	150936529	A	A	150936529	3	1	122	1	0	0	0	0	1	0	0	0	14163	1087	38	1	3806	1	SETDB1	1	150936529	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	453010	150936529	98314092	64	67067											
PIP5K1A	8394	broad.mit.edu	37	chr1	151210663	151210663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttgccttttccagtatggGtggcatccctgcccggaata	6	14	10	11	1	0	0	0	0	0	0	2	1	2	1	4	3	2	2	4	3	3	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:151210663G>A	uc001exj.2	+	10	1603	c.1151G>A	c.(1150-1152)GGT>GAT	p.G384D	PIP5K1A_uc001exi.2_Missense_Mutation_p.G371D|PIP5K1A_uc010pcu.1_Intron|PIP5K1A_uc001exk.2_Missense_Mutation_p.G371D|PIP5K1A_uc010pcv.1_Missense_Mutation_p.G141D	NM_001135638	NP_001129110	Q99755	PI51A_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	384	PIPK.				phospholipid biosynthetic process|signal transduction	endomembrane system|Golgi stack|lamellipodium|nuclear speck	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|kinase binding			ovary(1)|central_nervous_system(1)|skin(1)	3	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.181)			TCCAGTATGGGTGGCATCCCT	0.453													11	52					0	0	1	0	0		A	151210663	A	A	151210663	3	1	122	1	0	0	0	0	1	0	0	0	11958	1261	44	4	1189	4	PIP5K1A	1	151210663	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	274134	151210663	98039958	65	67068											
TUFT1	7286	broad.mit.edu	37	chr1	151546755	151546755	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgttttaggtcacactcAgccggtaccagagggaagca	10	8	12	11	2	2	1	2	0	0	1	2	2	2	2	3	3	3	3	3	3	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:151546755A>G	uc001eyl.2	+	8	666	c.604A>G	c.(604-606)AGC>GGC	p.S202G	TUFT1_uc001eym.2_Missense_Mutation_p.S177G|TUFT1_uc010pdf.1_Missense_Mutation_p.S221G|TUFT1_uc010pdg.1_Missense_Mutation_p.S150G	NM_020127	NP_064512	Q9NNX1	TUFT1_HUMAN	tuftelin 1 isoform 1	202	Potential.				bone mineralization|odontogenesis	cytoplasm|extracellular region	structural constituent of tooth enamel				0	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			GGTCACACTCAGCCGGTACCA	0.498											OREG0003906	type=REGULATORY REGION|Gene=TUFT1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	11	81					0	0	1	0	0		G	151546755	G	G	151546755	3	3	122	1	0	0	0	0	1	0	0	0	16798	188	7	3	634	3	TUFT1	1	151546755	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	336092	151546755	97703866	66	67069											
HRNR	388697	broad.mit.edu	37	chr1	152187511	152187511	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccagacccatgttggccGtggctggaggagtgccccga	7	6	16	12	2	0	1	0	0	0	1	0	5	0	3	5	4	2	2	5	4	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:152187511G>A	uc001ezt.1	-	3	6670	c.6594C>T	c.(6592-6594)CAC>CAT	p.H2198H		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2198	24.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CATGTTGGCCGTGGCTGGAGG	0.632													16	470					0	0	1	0	0		A	152187511	A	A	152187511	2	1	122	1	0	0	0	0	0	0	0	1	7375	1136	40	1		1	HRNR	1	152187511	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	640756	152187511	97063110	67	67070											
HRNR	388697	broad.mit.edu	37	chr1	152188520	152188520	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagactgacctgagccagacCcatgtcggccactgctggaa	11	6	11	13	1	0	4	0	2	0	2	1	5	0	5	4	2	2	1	4	2	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:152188520C>A	uc001ezt.1	-	3	5661	c.5585G>T	c.(5584-5586)GGG>GTG	p.G1862V		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1862	20.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGAGCCAGACCCATGTCGGCC	0.592													16	619					3.62473e-10	4.11948e-10	1	1	0		A	152188520	A	A	152188520	3	1	122	1	0	0	0	0	1	0	0	0	7375	623	22	5	2971	5	HRNR	1	152188520	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1009	152188520	97062101	68	67071											
KPRP	448834	broad.mit.edu	37	chr1	152733782	152733782	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgctggagtgaaaggggAagcaaagagtgcttattttt	11	13	13	4	0	0	2	0	1	0	1	0	4	0	4	0	3	3	3	0	3	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:152733782A>G	uc001fal.1	+	2	1776	c.1718A>G	c.(1717-1719)GAA>GGA	p.E573G		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	573						cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTGAAAGGGGAAGCAAAGAGT	0.502													6	64					0	0	1	0	0		G	152733782	G	G	152733782	3	3	122	1	0	0	0	0	1	0	0	0	8452	246	9	3	1720	3	KPRP	1	152733782	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	545262	152733782	96516839	69	67072											
NUP210L	91181	broad.mit.edu	37	chr1	154127427	154127427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgttggccagggtcccacGcaaaaccagaaacaacaaca	15	6	8	12	1	0	1	0	0	0	1	1	1	1	1	3	2	4	2	3	2	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:154127427G>A	uc001fdw.2	-	1	166	c.94C>T	c.(94-96)CGT>TGT	p.R32C	NUP210L_uc010peh.1_Missense_Mutation_p.R32C	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	32						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			AGGGTCCCACGCAAAACCAGA	0.607													6	39					0	0	1	0	0		A	154127427	A	A	154127427	3	1	122	1	0	0	0	0	1	0	0	0	10780	1087	38	1	5732	1	NUP210L	1	154127427	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1393645	154127427	95123194	70	67073											
AQP10	89872	broad.mit.edu	37	chr1	154295464	154295464	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgatacttgaaggggcccAcctgaatccagccttctccc	8	10	8	15	0	1	3	0	3	1	0	3	3	2	3	5	2	2	0	5	2	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:154295464A>G	uc001feu.2	+	3	279	c.239A>G	c.(238-240)CAC>CGC	p.H80R	AQP10_uc001fev.2_Missense_Mutation_p.H80R|ATP8B2_uc001few.2_5'Flank	NM_080429	NP_536354	Q96PS8	AQP10_HUMAN	aquaporin 10	80	Cytoplasmic (Potential).				response to toxin|transmembrane transport|water transport	integral to membrane|plasma membrane	transporter activity			central_nervous_system(1)	1	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GAAGGGGCCCACCTGAATCCA	0.353													8	124					0	0	1	0	0		G	154295464	G	G	154295464	3	3	122	1	0	0	0	0	1	0	0	0	822	159	6	3	249	3	AQP10	1	154295464	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	168037	154295464	94955157	71	67074											
PBXIP1	57326	broad.mit.edu	37	chr1	154918618	154918618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccttcctgctggctccCtgtcctcctgacctccccag	3	11	6	21	0	0	1	0	1	0	0	6	1	6	1	9	1	1	2	9	1	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:154918618C>T	uc001ffr.2	-	10	1591	c.1532G>A	c.(1531-1533)AGG>AAG	p.R511K	PBXIP1_uc001ffs.2_Missense_Mutation_p.R482K|PBXIP1_uc010pep.1_Missense_Mutation_p.R356K	NM_020524	NP_065385	Q96AQ6	PBIP1_HUMAN	pre-B-cell leukemia homeobox interacting protein	511					cell differentiation|multicellular organismal development|negative regulation of transcription, DNA-dependent	cytosol|microtubule|nucleus	protein binding|transcription corepressor activity			large_intestine(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TGCTGGCTCCCTGTCCTCCTG	0.602													39	229					0	0	1	0	0		T	154918618	T	T	154918618	3	4	122	1	0	0	0	0	1	0	0	0	11515	681	24	4	671	4	PBXIP1	1	154918618	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	623154	154918618	94332003	72	67075											
DCST2	127579	broad.mit.edu	37	chr1	155005160	155005160	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctatgtgtttcacaccaTccatgattgaccgaaagaac	13	11	6	11	1	1	3	1	2	0	1	2	4	2	3	4	0	2	1	4	0	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:155005160T>C	uc001fgm.2	-	3	604	c.524A>G	c.(523-525)GAT>GGT	p.D175G	DCST2_uc009wpb.2_RNA|DCST1_uc010per.1_5'Flank|DCST1_uc001fgn.1_5'Flank|DCST1_uc010pes.1_5'Flank	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	175	Cytoplasmic (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TTTCACACCATCCATGATTGA	0.428													12	81					0	0	1	0	0		C	155005160	C	C	155005160	3	2	122	1	0	0	0	0	1	0	0	0	4306	1435	50	3	1849	3	DCST2	1	155005160	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	86542	155005160	94245461	73	67076											
GBA	2629	broad.mit.edu	37	chr1	155208382	155208382	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggggtgtctgcataggtgtAggtgcggatggagaagtcac	9	9	18	5	1	2	1	1	0	1	1	2	3	2	2	0	6	2	2	0	6	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:155208382A>G	uc001fjh.2	-	5	664	c.514T>C	c.(514-516)TAC>CAC	p.Y172H	RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Missense_Mutation_p.Y59H|GBA_uc010pfx.1_Missense_Mutation_p.Y123H|GBA_uc001fji.2_Missense_Mutation_p.Y172H|GBA_uc001fjj.2_Missense_Mutation_p.Y172H|GBA_uc001fjk.2_Missense_Mutation_p.Y172H|GBA_uc001fjl.2_Missense_Mutation_p.Y172H|GBA_uc010pfy.1_Missense_Mutation_p.Y85H|GBA_uc009wqk.1_Missense_Mutation_p.Y85H	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor	172					carbohydrate metabolic process|cell death|cellular response to tumor necrosis factor|ceramide biosynthetic process|glucosylceramide catabolic process|lysosome organization|negative regulation of interleukin-6 production|negative regulation of MAP kinase activity|positive regulation of protein dephosphorylation|sphingosine biosynthetic process|termination of signal transduction	lysosomal lumen|lysosomal membrane	cation binding|glucosylceramidase activity|receptor binding			ovary(1)|skin(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)		Alglucerase(DB00088)|Imiglucerase(DB00053)	GCATAGGTGTAGGTGCGGATG	0.488									Gaucher_disease_type_I				15	63					0	0	1	0	0		G	155208382	G	G	155208382	3	3	122	1	0	0	0	0	1	0	0	0	6281	420	15	3	1124	3	GBA	1	155208382	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	203222	155208382	94042239	74	67077											
PKLR	5313	broad.mit.edu	37	chr1	155263028	155263028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttgaaggcagcctccacaGcaccaatggcggtgacctca	11	6	10	14	1	1	2	1	2	0	0	2	2	2	2	4	3	2	2	4	3	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:155263028G>A	uc001fkb.3	-	9	1415	c.1376C>T	c.(1375-1377)GCT>GTT	p.A459V	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Missense_Mutation_p.A428V	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	459			A -> V (in PKRD).		endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	AGCCTCCACAGCACCAATGGC	0.607													16	101					0	0	1	0	0		A	155263028	A	A	155263028	3	1	122	1	0	0	0	0	1	0	0	0	11995	971	34	2	360	2	PKLR	1	155263028	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	54646	155263028	93987593	75	67078											
GON4L	54856	broad.mit.edu	37	chr1	155736194	155736194	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttctgaatgagttgatcGggctggtgttttcccagggt	5	14	15	7	1	1	3	0	3	1	0	3	3	2	3	1	4	0	4	1	4	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:155736194G>A	uc001flz.2	-	21	3167	c.3070C>T	c.(3070-3072)CGA>TGA	p.R1024*	GON4L_uc009wrg.1_RNA|GON4L_uc001fly.1_Nonsense_Mutation_p.R1024*|GON4L_uc009wrh.1_Nonsense_Mutation_p.R1024*|GON4L_uc001fma.1_Nonsense_Mutation_p.R1024*|GON4L_uc001fmb.3_Nonsense_Mutation_p.R220*|GON4L_uc001fmc.2_Nonsense_Mutation_p.R1024*|GON4L_uc001fmd.3_Nonsense_Mutation_p.R1024*|GON4L_uc009wri.2_Nonsense_Mutation_p.R610*	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	1024					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TGAGTTGATCGGGCTGGTGTT	0.557													14	128					0	0	1	0	0		A	155736194	A	A	155736194	4	1	122	1	0	0	0	0	0	1	0	0	6587	1124	39	1	3817	1	GON4L	1	155736194	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	473166	155736194	93514427	76	67079											
MEX3A	92312	broad.mit.edu	37	chr1	156046402	156046402	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttgcgtggctgtgatgTggcagacgggacactctggg	5	10	18	8	2	1	2	0	1	1	1	1	3	1	3	0	5	1	3	0	5	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:156046402T>C	uc001fnd.3	-	2	1526	c.1526A>G	c.(1525-1527)CAC>CGC	p.H509R		NM_001093725	NP_001087194	A1L020	MEX3A_HUMAN	MEX3A protein	509	RING-type.					cytoplasmic mRNA processing body|nucleus	RNA binding|zinc ion binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					GGCTGTGATGTGGCAGACGGG	0.617													8	46					0	0	1	0	0		C	156046402	C	C	156046402	3	2	122	1	0	0	0	0	1	0	0	0	9527	1696	59	3	40	3	MEX3A	1	156046402	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	310208	156046402	93204219	77	67080											
SMG5	23381	broad.mit.edu	37	chr1	156233269	156233269	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagcagaccttcggccaTcaggacctgaagcttctcct	10	8	10	13	1	2	2	1	1	1	1	4	4	2	4	4	3	2	2	4	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:156233269T>C	uc001foc.3	-	13	2097	c.1948A>G	c.(1948-1950)ATG>GTG	p.M650V	SMG5_uc009wrv.2_Missense_Mutation_p.M135V	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	650					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					CCTTCGGCCATCAGGACCTGA	0.612													17	132					0	0	1	0	0		C	156233269	C	C	156233269	3	2	122	1	0	0	0	0	1	0	0	0	14821	1435	50	3	1142	3	SMG5	1	156233269	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	186867	156233269	93017352	78	67081											
HAPLN2	60484	broad.mit.edu	37	chr1	156593317	156593317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccctccccacactctgccGcttccttctttgggccttca	4	12	5	20	1	3	0	1	0	2	0	5	0	5	0	6	1	1	1	6	1	0	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:156593317G>A	uc001fpn.1	+	3	442	c.35G>A	c.(34-36)CGC>CAC	p.R12H	HAPLN2_uc010phq.1_Missense_Mutation_p.R12H	NM_021817	NP_068589	Q9GZV7	HPLN2_HUMAN	brain link protein-1 precursor	12					cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					ACACTCTGCCGCTTCCTTCTT	0.622													9	50					0	0	1	0	0		A	156593317	A	A	156593317	3	1	122	1	0	0	0	0	1	0	0	0	6971	1087	38	1	37	1	HAPLN2	1	156593317	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	360048	156593317	92657304	79	67082											
BCAN	63827	broad.mit.edu	37	chr1	156616930	156616930	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgaggtccagcacggcatCgatgacagcagcgacgctgt	9	7	14	11	4	0	2	0	2	0	0	2	4	1	2	1	2	3	4	1	2	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:156616930C>T	uc001fpp.2	+	3	765	c.429C>T	c.(427-429)ATC>ATT	p.I143I	BCAN_uc001fpo.2_Silent_p.I143I	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	143	Ig-like V-type.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGCACGGCATCGATGACAGCA	0.532													4	27					0	0	1	0	0		T	156616930	T	T	156616930	2	4	122	1	0	0	0	0	0	0	0	1	1346	874	31	1		1	BCAN	1	156616930	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	23613	156616930	92633691	80	67083											
FCRL5	83416	broad.mit.edu	37	chr1	157490846	157490846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctcactgcgctgggcccCgaggccattgtcggcctcac	4	9	12	16	3	2	0	2	0	1	0	4	1	2	0	4	3	1	1	4	3	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:157490846C>T	uc001fqu.2	-	11	2634	c.2476G>A	c.(2476-2478)GGG>AGG	p.G826R	FCRL5_uc009wsm.2_Missense_Mutation_p.G826R	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	826	Extracellular (Potential).|Ig-like C2-type 8.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				CGCTGGGCCCCGAGGCCATTG	0.567													10	84					0	0	1	0	0		T	157490846	T	T	157490846	3	4	122	1	0	0	0	0	1	0	0	0	5812	652	23	1	485	1	FCRL5	1	157490846	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	873916	157490846	91759775	81	67084											
IGSF9	57549	broad.mit.edu	37	chr1	159900506	159900506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggagcagacaagacgatttCgctgaagggaccactcccca	12	5	11	13	3	0	3	0	1	0	2	2	6	1	5	3	2	1	2	3	2	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:159900506C>T	uc001fur.2	-	14	1987	c.1789G>A	c.(1789-1791)GAA>AAA	p.E597K	IGSF9_uc001fuq.2_Missense_Mutation_p.E581K|IGSF9_uc001fup.2_5'UTR	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	597	Fibronectin type-III 1.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			AAGACGATTTCGCTGAAGGGA	0.602													9	56					0	0	1	0	0		T	159900506	T	T	159900506	3	4	122	1	0	0	0	0	1	0	0	0	7621	893	31	1	1782	1	IGSF9	1	159900506	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2409660	159900506	89350115	82	67085											
ATP1A2	477	broad.mit.edu	37	chr1	160106432	160106432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacggtttcctgccatcacGgctactgggaatccgcctcg	7	9	11	14	4	1	0	1	0	0	0	4	2	3	1	4	3	3	2	4	3	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:160106432G>A	uc001fvc.2	+	19	2768	c.2636G>A	c.(2635-2637)CGG>CAG	p.R879Q	ATP1A2_uc001fvb.2_Missense_Mutation_p.R879Q|ATP1A2_uc001fvd.2_Missense_Mutation_p.R598Q	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	879	Extracellular (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CTGCCATCACGGCTACTGGGA	0.577													7	91					0	0	1	0	0		A	160106432	A	A	160106432	3	1	122	1	0	0	0	0	1	0	0	0	1130	1116	39	1	2710	1	ATP1A2	1	160106432	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	205926	160106432	89144189	83	67086											
NHLH1	4807	broad.mit.edu	37	chr1	160340584	160340584	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccactcagagactgagtcGggcttcagtgactgtggggg	8	8	15	10	1	2	3	2	2	0	1	3	4	2	3	1	3	0	1	1	3	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:160340584G>A	uc001fwa.2	+	2	505	c.63G>A	c.(61-63)TCG>TCA	p.S21S		NM_005598	NP_005589	Q02575	HEN1_HUMAN	nescient helix loop helix 1	21					cell differentiation|central nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	all_cancers(52;7.11e-19)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AGACTGAGTCGGGCTTCAGTG	0.697													5	40					0	0	1	0	0		A	160340584	A	A	160340584	2	1	122	1	0	0	0	0	0	0	0	1	10422	1103	39	1		1	NHLH1	1	160340584	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	234152	160340584	88910037	84	67087											
B4GALT3	8703	broad.mit.edu	37	chr1	161144895	161144895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacgatgaggcacaatgatgGctgttcgggagcggggctca	9	7	16	9	3	1	2	1	2	0	0	2	4	1	3	0	5	1	4	0	5	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:161144895G>A	uc001fyq.1	-	4	639	c.377C>T	c.(376-378)GCC>GTC	p.A126V	PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_Intron|B4GALT3_uc001fyo.1_5'Flank|B4GALT3_uc001fyp.1_RNA|B4GALT3_uc001fyr.1_Missense_Mutation_p.A126V|B4GALT3_uc001fys.1_Missense_Mutation_p.A126V|B4GALT3_uc009wud.1_Missense_Mutation_p.A126V	NM_003779	NP_003770	O60512	B4GT3_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	126	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|metal ion binding|N-acetyllactosamine synthase activity				0	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)		N-Acetyl-D-glucosamine(DB00141)	CACAATGATGGCTGTTCGGGA	0.632													18	146					0	0	1	0	0		A	161144895	A	A	161144895	3	1	122	1	0	0	0	0	1	0	0	0	1273	1203	42	2	824	2	B4GALT3	1	161144895	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	804311	161144895	88105726	85	67088											
HSPA6	3310	broad.mit.edu	37	chr1	161495457	161495457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccagattcatgacgtcGtcctggtggggggctccaca	7	8	14	12	2	1	2	1	1	0	1	4	2	3	2	3	5	0	1	3	5	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:161495457G>A	uc001gap.2	+	2	1669	c.1009G>A	c.(1009-1011)GTC>ATC	p.V337I	HSPA6_uc001gaq.2_Missense_Mutation_p.V337I	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	337					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			TCATGACGTCGTCCTGGTGGG	0.597													4	42					0	0	1	0	0		A	161495457	A	A	161495457	3	1	122	1	0	0	0	0	1	0	0	0	7431	1145	40	1	1011	1	HSPA6	1	161495457	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	350562	161495457	87755164	86	67089											
FCRLA	84824	broad.mit.edu	37	chr1	161681172	161681172	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaccgtggtacaaaaggCagacagcgggcactaccact	13	5	10	13	2	1	1	1	0	0	1	1	1	1	1	2	3	3	3	2	3	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:161681172C>A	uc001gbe.2	+	4	718	c.476C>A	c.(475-477)GCA>GAA	p.A159E	FCRLA_uc001gbd.2_Missense_Mutation_p.A153E|FCRLA_uc001gbf.2_Intron|FCRLA_uc001gbg.2_Intron|FCRLA_uc009wuo.2_Intron|FCRLA_uc009wup.2_Intron|FCRLA_uc009wuq.2_Intron	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	136	Ig-like C2-type 1.				cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			GTACAAAAGGCAGACAGCGGG	0.577													10	63					5.50884e-06	5.96128e-06	1	1	0		A	161681172	A	A	161681172	3	1	122	1	0	0	0	0	1	0	0	0	5814	710	25	5	490	5	FCRLA	1	161681172	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	185715	161681172	87569449	87	67090											
TOR1AIP2	163590	broad.mit.edu	37	chr1	179815697	179815697	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggtggctcaggcacttcaGggtctctcttccctcccgag	5	11	11	14	1	4	0	2	0	2	0	7	1	6	0	2	4	0	2	2	4	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:179815697G>T	uc001gnk.2	-	6	1310	c.922C>A	c.(922-924)CTG>ATG	p.L308M	TOR1AIP2_uc001gnl.2_Missense_Mutation_p.L308M	NM_145034	NP_659471	Q8NFQ8	TOIP2_HUMAN	torsin A interacting protein 2	308						endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1						AGGCACTTCAGGGTCTCTCTT	0.547													21	136					4.26978e-12	4.9084e-12	1	1	0		T	179815697	T	T	179815697	3	4	122	1	0	0	0	0	1	0	0	0	16399	991	35	5	494	5	TOR1AIP2	1	179815697	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	18134525	179815697	69434924	88	67091											
PRG4	10216	broad.mit.edu	37	chr1	186269238	186269238	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttagatttatcaagctgtgCagggagatgtggggaagggt	10	12	16	3	0	1	2	1	0	0	2	1	4	1	3	0	4	2	2	0	4	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:186269238C>T	uc001gru.3	+	3	143	c.92C>T	c.(91-93)GCA>GTA	p.A31V	PRG4_uc001grt.3_Intron|PRG4_uc009wyl.2_Missense_Mutation_p.A31V|PRG4_uc009wym.2_Intron|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	31	SMB 1.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						TCAAGCTGTGCAGGGAGATGT	0.443													17	99					0	0	1	0	0		T	186269238	T	T	186269238	3	4	122	1	0	0	0	0	1	0	0	0	12503	710	25	2	98	2	PRG4	1	186269238	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	6453541	186269238	62981383	89	67092											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200730172	200730172	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaaggtctttatgtcacTgaccaggaaaaattggtaac	15	10	9	7	0	2	2	1	1	1	1	2	3	2	3	1	3	1	1	1	3	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:200730172T>C	uc001gvl.2	+	2	615	c.345T>C	c.(343-345)ACT>ACC	p.T115T	CAMSAP1L1_uc001gvk.2_Silent_p.T115T|CAMSAP1L1_uc001gvm.2_Silent_p.T115T	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	115						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TTTATGTCACTGACCAGGAAA	0.423													14	97					0	0	1	0	0		C	200730172	C	C	200730172	2	2	122	1	0	0	0	0	0	0	0	1	2615	1567	55	3		3	CAMSAP1L1	1	200730172	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	14460934	200730172	48520449	90	67093											
NAV1	89796	broad.mit.edu	37	chr1	201778663	201778663	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgttttccaagtgttcAaggtaaagggatacctgtac	12	12	10	7	0	1	0	1	0	0	0	2	1	2	1	2	2	3	5	2	2	7	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:201778663A>G	uc001gwu.2	+	21	4737	c.4390A>G	c.(4390-4392)AAG>GAG	p.K1464E	NAV1_uc001gwx.2_Missense_Mutation_p.K1073E	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	1467					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						CCAAGTGTTCAAGGTAAAGGG	0.343													3	32					0	0	1	0	0		G	201778663	G	G	201778663	3	3	122	1	0	0	0	0	1	0	0	0	10201	131	5	3	4542	3	NAV1	1	201778663	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1048491	201778663	47471958	91	67094											
ADIPOR1	51094	broad.mit.edu	37	chr1	202914151	202914151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctgaatgacaatagaCggtgtgaaagagccaggaga	14	9	12	6	1	1	6	0	3	1	3	2	7	1	6	1	2	1	0	1	2	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:202914151C>T	uc001gyq.3	-	5	844	c.577G>A	c.(577-579)GTC>ATC	p.V193I	ADIPOR1_uc010pqd.1_Missense_Mutation_p.V117I|ADIPOR1_uc001gyr.3_Intron|ADIPOR1_uc001gys.3_Missense_Mutation_p.V193I	NM_015999	NP_057083	Q96A54	ADR1_HUMAN	adiponectin receptor 1	193	Cytoplasmic (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane|plasma membrane	hormone binding|protein kinase binding|receptor activity				0			BRCA - Breast invasive adenocarcinoma(75;0.141)			TGACAATAGACGGTGTGAAAG	0.443													20	118					0	0	1	0	0		T	202914151	T	T	202914151	3	4	122	1	0	0	0	0	1	0	0	0	318	536	19	1	566	1	ADIPOR1	1	202914151	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1135488	202914151	46336470	92	67095											
ADIPOR1	51094	broad.mit.edu	37	chr1	202917467	202917467	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccatcttctccatggcgtGgtgggcttgcaggggaagtg	5	12	15	9	1	2	0	0	0	2	0	4	1	3	1	2	5	1	2	2	5	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:202917467G>C	uc001gyq.3	-	3	490	c.223C>G	c.(223-225)CAC>GAC	p.H75D	ADIPOR1_uc010pqd.1_5'UTR|ADIPOR1_uc001gyr.3_5'UTR|ADIPOR1_uc001gys.3_Missense_Mutation_p.H75D	NM_015999	NP_057083	Q96A54	ADR1_HUMAN	adiponectin receptor 1	75	Cytoplasmic (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane|plasma membrane	hormone binding|protein kinase binding|receptor activity				0			BRCA - Breast invasive adenocarcinoma(75;0.141)			TCCATGGCGTGGTGGGCTTGC	0.567													8	77					0	0	1	0	0		C	202917467	C	C	202917467	3	2	122	1	0	0	0	0	1	0	0	0	318	1348	47	5	928	5	ADIPOR1	1	202917467	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3316	202917467	46333154	93	67096											
CHIT1	1118	broad.mit.edu	37	chr1	203186140	203186140	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccgaggattgggatagagCccatcagctttgccctggca	8	9	12	12	1	1	1	1	0	0	1	2	4	2	3	3	3	3	2	3	3	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:203186140C>T	uc001gzn.2	-	11	1374	c.1278G>A	c.(1276-1278)GGG>GGA	p.G426G	FMOD_uc010pqi.1_Intron|CHIT1_uc001gzm.1_Intron|CHIT1_uc009xal.1_Silent_p.G188G|CHIT1_uc009xam.1_RNA|CHIT1_uc009xan.1_RNA|CHIT1_uc001gzo.2_Silent_p.G417G	NM_003465	NP_003456	Q13231	CHIT1_HUMAN	chitotriosidase precursor	426	Chitin-binding type-2.				chitin catabolic process|immune response|response to bacterium	extracellular space|lysosome	cation binding|chitin binding|endochitinase activity				0						TGGGATAGAGCCCATCAGCTT	0.602											OREG0014113	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	133					0	0	1	0	0		T	203186140	T	T	203186140	2	4	122	1	0	0	0	0	0	0	0	1	3349	726	26	2		2	CHIT1	1	203186140	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	268673	203186140	46064481	94	67097											
DSTYK	25778	broad.mit.edu	37	chr1	205128728	205128728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccataatgaggagcacagCaatgctggagccaccaccat	13	6	9	13	0	0	1	0	1	0	0	1	3	1	3	4	2	4	3	4	2	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:205128728C>T	uc001hbw.2	-	9	2249	c.2185G>A	c.(2185-2187)GCT>ACT	p.A729T	DSTYK_uc001hbx.2_Missense_Mutation_p.A729T	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	729	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						AGGAGCACAGCAATGCTGGAG	0.542													7	32					0	0	1	0	0		T	205128728	T	T	205128728	3	4	122	1	0	0	0	0	1	0	0	0	4791	710	25	2	624	2	DSTYK	1	205128728	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1942588	205128728	44121893	95	67098											
LEMD1	93273	broad.mit.edu	37	chr1	205350918	205350918	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgatagtctggtcttccgcGcagtagtctctctctttggt	4	16	10	11	3	4	0	0	0	4	0	8	1	5	0	1	2	0	2	1	2	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:205350918G>A	uc001hcj.1	-	6	516	c.414C>T	c.(412-414)TGC>TGT	p.C138C	LEMD1_uc001hci.1_Missense_Mutation_p.A91V|LEMD1_uc001hck.1_RNA|LEMD1_uc001hcl.1_Silent_p.C97C|LEMD1_uc001hcm.1_RNA|LEMD1_uc001hcn.1_RNA|uc001hch.1_Intron			Q68G75	LEMD1_HUMAN	RecName: Full=LEM domain-containing protein 1;          Short=LEMP-1; AltName: Full=Cancer/testis antigen 50;          Short=CT50;	138						integral to membrane|nuclear envelope					0	Breast(84;0.247)		BRCA - Breast invasive adenocarcinoma(75;0.0938)			GGTCTTCCGCGCAGTAGTCTC	0.488													24	141					0	0	1	0	0		A	205350918	A	A	205350918	2	1	122	1	0	0	0	0	0	0	0	1	8735	1087	38	1		1	LEMD1	1	205350918	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	222190	205350918	43899703	96	67099											
CENPF	1063	broad.mit.edu	37	chr1	214813825	214813825	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctcagatcagaaacatcAgaaggaaatagaaaatatgt	19	9	8	5	0	3	4	3	0	1	4	4	5	3	5	0	1	1	1	0	1	7	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:214813825A>G	uc001hkm.2	+	12	2318	c.2144A>G	c.(2143-2145)CAG>CGG	p.Q715R		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	715	Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		CAGAAACATCAGAAGGAAATA	0.398													16	64					0	0	1	0	0		G	214813825	G	G	214813825	3	3	122	1	0	0	0	0	1	0	0	0	3234	188	7	3	2186	3	CENPF	1	214813825	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	9462907	214813825	34436796	97	67100											
MOSC2	54996	broad.mit.edu	37	chr1	220953575	220953575	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacagccactggacacccTgaagaggtagaataccacca	16	4	9	12	0	0	3	0	1	0	2	0	5	0	4	4	2	3	1	4	2	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:220953575T>C	uc001hmq.2	+	6	1076	c.878T>C	c.(877-879)CTG>CCG	p.L293P	MOSC2_uc001hmr.2_Missense_Mutation_p.L293P|MOSC2_uc009xdx.2_Intron	NM_017898	NP_060368	Q969Z3	MOSC2_HUMAN	MOCO sulphurase C-terminal domain containing 2	293	MOSC.					mitochondrial outer membrane|peroxisome	molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.00499)|all cancers(67;0.204)		CTGGACACCCTGAAGAGGTAG	0.448													18	142					0	0	1	0	0		C	220953575	C	C	220953575	3	2	122	1	0	0	0	0	1	0	0	0	9732	1580	55	3	900	3	MOSC2	1	220953575	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	6139750	220953575	28297046	98	67101											
DISP1	84976	broad.mit.edu	37	chr1	223177842	223177842	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctgggctgggagctcAatgtgttggaatctgtcacc	6	12	13	10	0	3	0	2	0	1	0	4	2	4	2	2	3	2	4	2	3	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:223177842A>G	uc001hnu.1	+	8	3250	c.3103A>G	c.(3103-3105)AAT>GAT	p.N1035D		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1035					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		CTGGGAGCTCAATGTGTTGGA	0.498													34	200					0	0	1	0	0		G	223177842	G	G	223177842	3	3	122	1	0	0	0	0	1	0	0	0	4545	130	5	3	3129	3	DISP1	1	223177842	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2224267	223177842	26072779	99	67102											
DISP1	84976	broad.mit.edu	37	chr1	223177922	223177922	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattatggggttgcctaccgCttggctccagatcccgaccg	6	10	11	14	3	0	1	0	0	0	1	2	2	2	1	5	3	2	3	5	3	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:223177922C>T	uc001hnu.1	+	8	3330	c.3183C>T	c.(3181-3183)CGC>CGT	p.R1061R		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1061					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TTGCCTACCGCTTGGCTCCAG	0.587													16	77					0	0	1	0	0		T	223177922	T	T	223177922	2	4	122	1	0	0	0	0	0	0	0	1	4545	784	28	2		2	DISP1	1	223177922	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	80	223177922	26072699	100	67103											
PARP1	142	broad.mit.edu	37	chr1	226568810	226568810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccttgttggccgtccccGtcaacttccccccgagtttc	5	11	8	17	3	1	0	1	0	0	0	4	1	3	0	7	1	2	2	7	1	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:226568810G>A	uc001hqd.3	-	9	1430	c.1259C>T	c.(1258-1260)ACG>ATG	p.T420M		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	420	Automodification domain.|BRCT.				cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		GGCCGTCCCCGTCAACTTCCC	0.478								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					10	61					0	0	1	0	0		A	226568810	A	A	226568810	3	1	122	1	0	0	0	0	1	0	0	0	11473	1145	40	1	1845	1	PARP1	1	226568810	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3390888	226568810	22681811	101	67104											
ITPKB	3707	broad.mit.edu	37	chr1	226924476	226924476	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcattcctttcttcacctgCgaggagcataggctgggccc	6	10	12	13	1	2	0	1	0	1	0	3	2	3	1	3	4	2	3	3	4	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:226924476C>T	uc010pvo.1	-	2	1024	c.684G>A	c.(682-684)TCG>TCA	p.S228S	ITPKB_uc001hqh.2_Silent_p.S228S	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	228							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				TCTTCACCTGCGAGGAGCATA	0.607													24	147					0	0	1	0	0		T	226924476	T	T	226924476	2	4	122	1	0	0	0	0	0	0	0	1	7934	755	27	1		1	ITPKB	1	226924476	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	355666	226924476	22326145	102	67105											
CABC1	56997	broad.mit.edu	37	chr1	227152742	227152742	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttgctgagaacttcggCggcccagaaggggagttcca	9	10	13	9	2	0	2	0	1	0	2	2	4	1	3	2	4	2	2	2	4	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:227152742C>T	uc001hqm.1	+	8	3638	c.219C>T	c.(217-219)GGC>GGT	p.G73G	CABC1_uc010pvp.1_Silent_p.G36G|CABC1_uc001hqn.1_Silent_p.G73G|CABC1_uc009xeq.1_Silent_p.G21G|CABC1_uc010pvq.1_Intron|CABC1_uc010pvr.1_5'Flank	NM_020247	NP_064632	Q8NI60	ADCK3_HUMAN	chaperone, ABC1 activity of bc1 complex like	73					cell death	mitochondrion	ATP binding|protein serine/threonine kinase activity				0		Prostate(94;0.0771)				AGAACTTCGGCGGCCCAGAAG	0.597													10	58					0	0	1	0	0		T	227152742	T	T	227152742	2	4	122	1	0	0	0	0	0	0	0	1	2530	755	27	1		1	CABC1	1	227152742	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	228266	227152742	22097879	103	67106											
OBSCN	84033	broad.mit.edu	37	chr1	228470812	228470812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagctgtcacgggcgggaaCgcccgtgcactggctgaagg	7	6	17	11	4	1	2	1	2	0	0	1	3	1	3	1	4	3	3	1	4	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:228470812C>T	uc009xez.1	+	32	8608	c.8564C>T	c.(8563-8565)ACG>ATG	p.T2855M	OBSCN_uc001hsn.2_Missense_Mutation_p.T2855M|OBSCN_uc001hsp.1_Missense_Mutation_p.T554M|OBSCN_uc001hsq.1_Missense_Mutation_p.T111M	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2855	Ig-like 28.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CGGGCGGGAACGCCCGTGCAC	0.662													5	11					0	0	1	0	0		T	228470812	T	T	228470812	3	4	122	1	0	0	0	0	1	0	0	0	10831	536	19	1	8686	1	OBSCN	1	228470812	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1318070	228470812	20779809	104	67107											
URB2	9816	broad.mit.edu	37	chr1	229787056	229787056	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcagttatgcgggaagggcgGcagaaggacaaaggtaattt	13	8	15	5	2	1	1	1	0	0	1	1	3	1	3	0	5	1	3	0	5	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:229787056G>A	uc001hts.1	+	8	4360	c.4224G>A	c.(4222-4224)CGG>CGA	p.R1408R	URB2_uc009xfd.1_Silent_p.R1408R	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	1408						nucleolus				central_nervous_system(2)|ovary(1)	3						GGGAAGGGCGGCAGAAGGACA	0.388													8	43					0	0	1	0	0		A	229787056	A	A	229787056	2	1	122	1	0	0	0	0	0	0	0	1	17051	1190	42	2		2	URB2	1	229787056	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1316244	229787056	19463565	105	67108											
C1orf124	83932	broad.mit.edu	37	chr1	231474173	231474173	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgcggcttcaggaggagtGgaacttgcaggaggcggagc	9	6	18	8	2	1	0	1	0	0	0	1	5	1	5	0	7	4	2	0	7	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:231474173G>T	uc001hur.2	+	1	492	c.44G>T	c.(43-45)TGG>TTG	p.W15L	EXOC8_uc001huq.2_5'Flank|C1orf124_uc001hus.2_Missense_Mutation_p.W15L|C1orf124_uc001hut.2_Missense_Mutation_p.W15L	NM_032018	NP_114407	Q9H040	CA124_HUMAN	hypothetical protein LOC83932 isoform a	15					DNA repair	nuclear speck	DNA binding|metal ion binding				0	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				CAGGAGGAGTGGAACTTGCAG	0.642													15	129					6.72482e-11	7.6718e-11	1	1	0		T	231474173	T	T	231474173	3	4	122	1	0	0	0	0	1	0	0	0	1995	1357	47	5	46	5	C1orf124	1	231474173	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1687117	231474173	17776448	106	67109											
PCNXL2	80003	broad.mit.edu	37	chr1	233397843	233397843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgccctctggagctgcagCggaggggaggcgtggagagg	6	7	20	8	2	1	1	0	0	1	1	1	5	1	4	1	7	4	2	1	7	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:233397843C>T	uc001hvl.2	-	3	663	c.428G>A	c.(427-429)CGC>CAC	p.R143H	PCNXL2_uc009xfu.2_5'Flank|PCNXL2_uc009xfv.1_5'Flank	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	143						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GGAGCTGCAGCGGAGGGGAGG	0.488													23	123					0	0	1	0	0		T	233397843	T	T	233397843	3	4	122	1	0	0	0	0	1	0	0	0	11611	768	27	1	6113	1	PCNXL2	1	233397843	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1923670	233397843	15852778	107	67110											
ARID4B	51742	broad.mit.edu	37	chr1	235377281	235377281	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcctcttcttcttcttcCtcctcctcctcctcttctgc	1	19	1	20	0	7	0	1	0	6	0	13	0	13	0	6	0	1	0	6	0	0	5	rs113894806		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:235377281C>T	uc001hwq.2	-	17	2142	c.1644G>A	c.(1642-1644)GAG>GAA	p.E548E	ARID4B_uc001hwr.2_Intron|ARID4B_uc001hws.3_Intron|ARID4B_uc001hwt.3_Silent_p.E229E	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	548	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			cttcttcttcctcctcctcct	0.249													11	76					0	0	1	0	0		T	235377281	T	T	235377281	2	4	122	1	0	0	0	0	0	0	0	1	920	680	24	4		4	ARID4B	1	235377281	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1979438	235377281	13873340	108	67111											
LYST	1130	broad.mit.edu	37	chr1	235866168	235866168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccaggtctgctcacatggGccatgtggaacagctgacgg	8	8	13	12	1	2	1	1	1	1	0	3	2	3	2	2	4	3	2	2	4	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:235866168G>A	uc001hxj.2	-	45	10428	c.10253C>T	c.(10252-10254)GCC>GTC	p.A3418V	LYST_uc001hxi.2_Missense_Mutation_p.A642V	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3418	BEACH.				defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GCTCACATGGGCCATGTGGAA	0.527									Chediak-Higashi_syndrome				45	233					0	0	1	0	0		A	235866168	A	A	235866168	3	1	122	1	0	0	0	0	1	0	0	0	9146	1203	42	2	1188	2	LYST	1	235866168	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	488887	235866168	13384453	109	67112											
RYR2	6262	broad.mit.edu	37	chr1	237777706	237777706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcacctccctcaggccaCggatgcagttttcctccccc	6	9	7	19	1	2	0	2	0	0	0	5	1	5	1	6	2	2	3	6	2	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:237777706C>T	uc001hyl.1	+	37	5398	c.5278C>T	c.(5278-5280)CGG>TGG	p.R1760W		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1760	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CCTCAGGCCACGGATGCAGTT	0.512													5	47					0	0	1	0	0		T	237777706	T	T	237777706	3	4	122	1	0	0	0	0	1	0	0	0	13794	527	19	1	5424	1	RYR2	1	237777706	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1911538	237777706	11472915	110	67113											
CHRM3	1131	broad.mit.edu	37	chr1	240071274	240071274	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccatcacgaggccgctcAcgtaccgagccaaacgaaca	12	6	8	15	5	2	0	2	0	0	0	3	3	3	0	4	1	4	2	4	1	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:240071274A>G	uc001hyp.2	+	5	1302	c.523A>G	c.(523-525)ACG>GCG	p.T175A		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	175	Cytoplasmic (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	GAGGCCGCTCACGTACCGAGC	0.512													29	123					0	0	1	0	0		G	240071274	G	G	240071274	3	3	122	1	0	0	0	0	1	0	0	0	3381	159	6	3	525	3	CHRM3	1	240071274	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2293568	240071274	9179347	111	67114											
FMN2	56776	broad.mit.edu	37	chr1	240256612	240256612	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttccctgcccggcagcccCgcgcctagccagcgctgttt	3	8	11	19	4	0	0	0	0	0	0	1	0	1	0	6	1	4	4	6	1	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:240256612C>T	uc010pyd.1	+	1	1428	c.1203C>T	c.(1201-1203)CCC>CCT	p.P401P	FMN2_uc010pye.1_Silent_p.P401P	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	401					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CCGGCAGCCCCGCGCCTAGCC	0.706													15	66					0	0	1	0	0		T	240256612	T	T	240256612	2	4	122	1	0	0	0	0	0	0	0	1	5964	639	23	1		1	FMN2	1	240256612	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	185338	240256612	8994009	112	67115											
NLRP3	114548	broad.mit.edu	37	chr1	247588581	247588581	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagctgctgaaatggatTgaagtgaaagccaaagctaa	15	8	12	6	0	0	3	0	3	0	0	0	5	0	5	1	2	4	3	1	2	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:247588581T>C	uc001icr.2	+	5	1974	c.1836T>C	c.(1834-1836)ATT>ATC	p.I612I	NLRP3_uc001ics.2_Silent_p.I612I|NLRP3_uc001icu.2_Silent_p.I612I|NLRP3_uc001icw.2_Silent_p.I612I|NLRP3_uc001icv.2_Silent_p.I612I|NLRP3_uc010pyw.1_Silent_p.I610I|NLRP3_uc001ict.1_Silent_p.I610I	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	612					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			TGAAATGGATTGAAGTGAAAG	0.483													7	47					0	0	1	0	0		C	247588581	C	C	247588581	2	2	122	1	0	0	0	0	0	0	0	1	10497	1800	63	3		3	NLRP3	1	247588581	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	7331969	247588581	1662040	113	67116											
OR2T34	127068	broad.mit.edu	37	chr1	248737350	248737350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggccttcctgcggccggCggcagaattcatcctgtgga	7	8	13	13	3	1	1	1	0	0	1	3	2	3	2	4	5	1	1	4	5	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr1:248737350C>T	uc001iep.1	-	1	709	c.709G>A	c.(709-711)GCC>ACC	p.A237T		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	237	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTGCGGCCGGCGGCAGAATTC	0.562													28	210					0	0	1	0	0		T	248737350	T	T	248737350	3	4	122	1	0	0	0	0	1	0	0	0	11044	768	27	1	251	1	OR2T34	1	248737350	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1148769	248737350	513271	114	67117											
SH3YL1	26751	broad.mit.edu	37	chr2	231124	231124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaatttcataaagatcttCggcttgagcaggccgcggtg	11	10	12	8	3	2	3	1	1	1	2	3	3	2	3	1	3	1	2	1	3	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:231124C>T	uc002qvx.2	-	7	685	c.601G>A	c.(601-603)GAA>AAA	p.E201K	SH3YL1_uc002qvy.2_Missense_Mutation_p.E201K|SH3YL1_uc002qvz.2_RNA|SH3YL1_uc002qwa.2_RNA|SH3YL1_uc010ewe.2_Missense_Mutation_p.E105K|SH3YL1_uc002qvu.2_RNA|SH3YL1_uc002qvv.2_Missense_Mutation_p.E105K|SH3YL1_uc002qvw.2_RNA	NM_015677	NP_056492	Q96HL8	SH3Y1_HUMAN	SH3 domain containing, Ysc84-like 1 isoform 1	201										ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.034)		all cancers(51;0.000647)|Epithelial(75;0.0043)|OV - Ovarian serous cystadenocarcinoma(76;0.00871)|GBM - Glioblastoma multiforme(21;0.148)		TAAAGATCTTCGGCTTGAGCA	0.343													11	58					0	0	1	0	0		T	231124	T	T	231124	3	4	122	1	0	0	0	0	1	0	0	0	14288	893	31	1	443	1	SH3YL1	2	231124	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08		231124	242968249	115	67118											
SH3YL1	26751	broad.mit.edu	37	chr2	234203	234203	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaagttccctccgagggTcagatttccgccttttgcaa	8	12	9	12	2	2	1	2	0	0	1	5	2	5	1	4	1	1	2	4	1	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:234203T>C	uc002qvx.2	-	5	445	c.361A>G	c.(361-363)ACC>GCC	p.T121A	SH3YL1_uc002qvy.2_Missense_Mutation_p.T121A|SH3YL1_uc002qvz.2_RNA|SH3YL1_uc002qwa.2_RNA|SH3YL1_uc010ewe.2_Missense_Mutation_p.T25A|SH3YL1_uc002qvu.2_RNA|SH3YL1_uc002qvv.2_Missense_Mutation_p.T25A|SH3YL1_uc002qvw.2_RNA	NM_015677	NP_056492	Q96HL8	SH3Y1_HUMAN	SH3 domain containing, Ysc84-like 1 isoform 1	121										ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.034)		all cancers(51;0.000647)|Epithelial(75;0.0043)|OV - Ovarian serous cystadenocarcinoma(76;0.00871)|GBM - Glioblastoma multiforme(21;0.148)		CCTCCGAGGGTCAGATTTCCG	0.398													14	147					0	0	1	0	0		C	234203	C	C	234203	3	2	122	1	0	0	0	0	1	0	0	0	14288	1667	58	3	691	3	SH3YL1	2	234203	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	3079	234203	242965170	116	67119											
TMEM18	129787	broad.mit.edu	37	chr2	669841	669841	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtcgaaatactggtatttCgaaaataatctgtttaaaaa	17	13	7	4	2	1	0	0	0	1	0	3	3	1	0	0	1	1	2	0	1	9	6	rs145340899		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:669841C>T	uc002qwl.2	-	4	337	c.243G>A	c.(241-243)TCG>TCA	p.S81S	TMEM18_uc002qwk.2_RNA	NM_152834	NP_690047	Q96B42	TMM18_HUMAN	transmembrane protein 18	81					cell migration	integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;5.27e-05)|all_epithelial(98;2.11e-06)|Ovarian(717;0.0253)		all cancers(51;1.95e-21)|Epithelial(75;9.47e-21)|OV - Ovarian serous cystadenocarcinoma(76;8.15e-18)|GBM - Glioblastoma multiforme(21;0.0285)		ACTGGTATTTCGAAAATAATC	0.368													5	21					0	0	1	0	0		T	669841	T	T	669841	2	4	122	1	0	0	0	0	0	0	0	1	16123	871	31	1		1	TMEM18	2	669841	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	435638	669841	242529532	117	67120											
TPO	7173	broad.mit.edu	37	chr2	1491615	1491615	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttggacccactaatacgAggccttcttgcaagaccagc	10	9	10	12	1	1	1	0	0	1	1	1	3	1	2	3	3	3	2	3	3	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:1491615A>G	uc002qww.2	+	10	1711	c.1620A>G	c.(1618-1620)CGA>CGG	p.R540R	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Intron|TPO_uc002qwr.2_Silent_p.R540R|TPO_uc002qwx.2_Intron|TPO_uc010yio.1_Silent_p.R367R|TPO_uc010yip.1_Silent_p.R540R|TPO_uc002qwy.1_Intron|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	540	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CACTAATACGAGGCCTTCTTG	0.473													7	51					0	0	1	0	0		G	1491615	G	G	1491615	2	3	122	1	0	0	0	0	0	0	0	1	16436	291	11	3		3	TPO	2	1491615	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	821774	1491615	241707758	118	67121											
ITGB1BP1	9270	broad.mit.edu	37	chr2	9547005	9547005	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagagtcaaaagcggtggaTaaaaccttgcaaatggcttg	15	8	11	7	1	1	1	1	0	0	1	1	2	1	2	1	3	3	2	1	3	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:9547005T>C	uc002qzj.2	-	7	738	c.561A>G	c.(559-561)TTA>TTG	p.L187L	ITGB1BP1_uc002qzk.2_Silent_p.L137L|ITGB1BP1_uc002qzl.2_RNA|ITGB1BP1_uc002qzm.2_RNA|ITGB1BP1_uc010yiy.1_Silent_p.L143L|ITGB1BP1_uc002qzn.1_3'UTR	NM_004763	NP_004754	O14713	ITBP1_HUMAN	integrin cytoplasmic domain-associated protein 1	187	PID.				cell migration|cell-matrix adhesion|intracellular protein kinase cascade	cytosol|lamellipodium|membrane|ruffle	protein binding|protein binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.23)		AAGCGGTGGATAAAACCTTGC	0.388													11	64					0	0	1	0	0		C	9547005	C	C	9547005	2	2	122	1	0	0	0	0	0	0	0	1	7907	1403	49	3		3	ITGB1BP1	2	9547005	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	8055390	9547005	233652368	119	67122											
GREB1	9687	broad.mit.edu	37	chr2	11706632	11706632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaggccgggaaggacctgCgccttgtctccatttccaac	7	8	11	15	2	1	0	0	0	1	0	3	2	2	2	6	3	2	0	6	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:11706632C>T	uc002rbk.1	+	4	604	c.304C>T	c.(304-306)CGC>TGC	p.R102C	GREB1_uc002rbl.2_Missense_Mutation_p.R102C|GREB1_uc002rbm.2_5'UTR|GREB1_uc002rbn.1_Missense_Mutation_p.R102C	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	102						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GAAGGACCTGCGCCTTGTCTC	0.647													12	66					0	0	1	0	0		T	11706632	T	T	11706632	3	4	122	1	0	0	0	0	1	0	0	0	6776	768	27	1	314	1	GREB1	2	11706632	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2159627	11706632	231492741	120	67123											
GREB1	9687	broad.mit.edu	37	chr2	11733023	11733023	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcagcccttcccgcccgcGcccagcgccgcggcacccgt	3	3	11	24	8	0	0	0	0	0	0	1	0	1	0	7	1	2	2	7	1	0	1	rs148777088	by1000genomes	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:11733023G>A	uc002rbk.1	+	11	1767	c.1467G>A	c.(1465-1467)GCG>GCA	p.A489A	GREB1_uc002rbo.1_Silent_p.A123A	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	489						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		TCCCGCCCGCGCCCAGCGCCG	0.711													3	12					0	0	1	0	0		A	11733023	A	A	11733023	2	1	122	1	0	0	0	0	0	0	0	1	6776	1074	38	1		1	GREB1	2	11733023	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	26391	11733023	231466350	121	67124											
NTSR2	23620	broad.mit.edu	37	chr2	11802192	11802192	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gataaaggtcttcttccataCgatgaagctgaggagaccct	12	10	10	9	1	2	3	0	2	2	1	3	6	3	3	2	2	2	1	2	2	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:11802192C>T	uc002rbq.3	-	2	873	c.799G>A	c.(799-801)GTA>ATA	p.V267I		NM_012344	NP_036476	O95665	NTR2_HUMAN	neurotensin receptor 2	267	Cytoplasmic (Potential).				sensory perception	integral to plasma membrane					0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.129)|OV - Ovarian serous cystadenocarcinoma(76;0.24)	Levocabastine(DB01106)	TTCTTCCATACGATGAAGCTG	0.632													22	133					0	0	1	0	0		T	11802192	T	T	11802192	3	4	122	1	0	0	0	0	1	0	0	0	10730	536	19	1	445	1	NTSR2	2	11802192	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	69169	11802192	231397181	122	67125											
DNAJC27	51277	broad.mit.edu	37	chr2	25180758	25180758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttcatttctgccagccacGcatcaagggcgtcaaaggag	10	8	11	12	2	4	0	3	0	1	0	4	1	4	1	2	2	2	2	2	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:25180758G>A	uc002rft.1	-	4	377	c.326C>T	c.(325-327)GCG>GTG	p.A109V	DNAJC27_uc010ykn.1_Missense_Mutation_p.A38V|DNAJC27_uc002rfu.1_RNA|DNAJC27_uc010eyg.1_Missense_Mutation_p.A109V	NM_016544	NP_057628	Q9NZQ0	DJC27_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 27	109					protein folding|small GTPase mediated signal transduction		GTP binding|heat shock protein binding|unfolded protein binding			skin(1)	1						TGCCAGCCACGCATCAAGGGC	0.433													14	88					0	0	1	0	0		A	25180758	A	A	25180758	3	1	122	1	0	0	0	0	1	0	0	0	4651	1087	38	1	511	1	DNAJC27	2	25180758	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	13378566	25180758	218018615	123	67126											
KHK	3795	broad.mit.edu	37	chr2	27322109	27322109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcacttggggttccagtcaGcagaggaagccttgaggggc	9	7	16	9	0	1	2	1	1	0	1	2	3	2	3	2	5	3	3	2	5	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:27322109G>A	uc002ril.2	+	6	1127	c.610G>A	c.(610-612)GCA>ACA	p.A204T	KHK_uc002rim.2_Missense_Mutation_p.A204T|KHK_uc002rin.2_Missense_Mutation_p.A205T|KHK_uc002rio.2_Missense_Mutation_p.A120T|CGREF1_uc010ylf.1_3'UTR|CGREF1_uc002rip.1_3'UTR	NM_000221	NP_000212	P50053	KHK_HUMAN	ketohexokinase isoform a	204					fructose catabolic process	cytosol	ATP binding|ketohexokinase activity|protein binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTTCCAGTCAGCAGAGGAAGC	0.547													16	159					0	0	1	0	0		A	27322109	A	A	27322109	3	1	122	1	0	0	0	0	1	0	0	0	8165	971	34	2	771	2	KHK	2	27322109	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2141351	27322109	215877264	124	67127											
FOSL2	2355	broad.mit.edu	37	chr2	28627104	28627104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtccaacccataccctcGctcgcacccctacagccccc	8	6	4	23	2	0	0	0	0	0	0	3	0	1	0	7	0	4	2	7	0	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:28627104G>A	uc002rma.2	+	2	1042	c.233G>A	c.(232-234)CGC>CAC	p.R78H	FOSL2_uc010ymi.1_Missense_Mutation_p.R39H	NM_005253	NP_005244	P15408	FOSL2_HUMAN	FOS-like antigen 2	78					cell death|regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(172;0.155)					CCATACCCTCGCTCGCACCCC	0.632													17	141					0	0	1	0	0		A	28627104	A	A	28627104	3	1	122	1	0	0	0	0	1	0	0	0	6002	1087	38	1	239	1	FOSL2	2	28627104	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1304995	28627104	214572269	125	67128											
YIPF4	84272	broad.mit.edu	37	chr2	32517418	32517418	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cattatatggacagtttaggGtaagtatatcttattttata	13	18	7	3	0	1	0	0	0	1	0	1	1	1	1	0	2	0	3	0	2	9	11			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:32517418G>A	uc002rok.2	+	3	672	c.405_splice	c.e3+1	p.R135_splice		NM_032312	NP_115688	Q9BSR8	YIPF4_HUMAN	Yip1 domain family, member 4							endoplasmic reticulum|integral to membrane	protein binding				0	Acute lymphoblastic leukemia(172;0.155)					ACAGTTTAGGGTAAGTATATC	0.279													6	56					0	0	1	0	0		A	32517418	A	A	32517418	5	1	122	1	0	0	0	0	0	0	1	0	17506	1275	44	4	416	4	YIPF4	2	32517418	Splice_Site	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3890314	32517418	210681955	126	67129											
LTBP1	4052	broad.mit.edu	37	chr2	33487839	33487839	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaacttgagcctggtcaaccCcagctgtctccaggcatttc	9	10	8	14	0	2	1	1	1	1	0	4	1	2	1	4	2	4	2	4	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:33487839C>A	uc002ros.2	+	14	2469	c.2469C>A	c.(2467-2469)CCC>CCA	p.P823P	LTBP1_uc002rot.2_Silent_p.P497P|LTBP1_uc002rou.2_Silent_p.P497P|LTBP1_uc002rov.2_Silent_p.P444P|LTBP1_uc010ymz.1_Silent_p.P497P|LTBP1_uc010yna.1_Silent_p.P444P	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	823					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CTGGTCAACCCCAGCTGTCTC	0.383													4	61					0.00024832	0.000260714	1	1	0		A	33487839	A	A	33487839	2	1	122	1	0	0	0	0	0	0	0	1	9091	610	22	5		5	LTBP1	2	33487839	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	970421	33487839	209711534	127	67130											
HEATR5B	54497	broad.mit.edu	37	chr2	37310522	37310522	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcggtgatttgagccaaagcTtcttcatttagcaataaact	12	14	7	8	1	2	2	1	2	1	0	3	2	2	2	1	1	4	2	1	1	5	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:37310522T>C	uc002rpp.1	-	2	132	c.36A>G	c.(34-36)GAA>GAG	p.E12E	CCDC75_uc010ezz.2_5'Flank|CCDC75_uc002rpr.3_5'Flank	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	12							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				GAGCCAAAGCTTCTTCATTTA	0.338													10	58					0	0	1	0	0		C	37310522	C	C	37310522	2	2	122	1	0	0	0	0	0	0	0	1	7048	1606	56	3		3	HEATR5B	2	37310522	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	3822683	37310522	205888851	128	67131											
THUMPD2	80745	broad.mit.edu	37	chr2	39988502	39988502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagagatgccattgcccacGctattgtagatcgcagtcca	10	9	9	13	2	0	2	0	0	0	2	2	3	1	2	4	0	2	3	4	0	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:39988502G>A	uc002rru.2	-	6	897	c.860C>T	c.(859-861)GCG>GTG	p.A287V	THUMPD2_uc002rrv.2_RNA|THUMPD2_uc010ynt.1_Missense_Mutation_p.A178V|THUMPD2_uc010ynu.1_3'UTR	NM_025264	NP_079540	Q9BTF0	THUM2_HUMAN	THUMP domain containing 2	287							methyltransferase activity			skin(1)	1		all_hematologic(82;0.248)				CATTGCCCACGCTATTGTAGA	0.373													23	171					0	0	1	0	0		A	39988502	A	A	39988502	3	1	122	1	0	0	0	0	1	0	0	0	15908	1087	38	1	671	1	THUMPD2	2	39988502	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2677980	39988502	203210871	129	67132											
SLC8A1	6546	broad.mit.edu	37	chr2	40656816	40656816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgtcacaaagaagacaCgcaaatgcttaatcttcctt	13	11	6	11	1	2	2	1	0	1	2	3	2	3	2	1	0	2	3	1	0	4	3	rs150791349		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:40656816C>T	uc002rrx.2	-	1	629	c.605G>A	c.(604-606)CGT>CAT	p.R202H	SLC8A1_uc002rry.2_Missense_Mutation_p.R202H|SLC8A1_uc002rrz.2_Missense_Mutation_p.R202H|SLC8A1_uc002rsa.2_Missense_Mutation_p.R202H|SLC8A1_uc002rsd.3_Missense_Mutation_p.R202H|SLC8A1_uc002rsb.1_Missense_Mutation_p.R202H|SLC8A1_uc010fan.1_Missense_Mutation_p.R202H|SLC8A1_uc002rsc.1_Missense_Mutation_p.R202H	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	202	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	AAAGAAGACACGCAAATGCTT	0.458													6	51					0	0	1	0	0		T	40656816	T	T	40656816	3	4	122	1	0	0	0	0	1	0	0	0	14731	536	19	1	2464	1	SLC8A1	2	40656816	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	668314	40656816	202542557	130	67133											
EML4	27436	broad.mit.edu	37	chr2	42490379	42490379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaaattcagatgatagcCgtaataaattgtcgaaaata	18	10	9	4	2	1	2	1	1	0	1	2	4	1	3	1	1	1	1	1	1	9	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:42490379C>T	uc002rsi.2	+	5	836	c.574C>T	c.(574-576)CGT>TGT	p.R192C	EML4_uc010fap.2_Missense_Mutation_p.R134C	NM_019063	NP_061936	Q9HC35	EMAL4_HUMAN	echinoderm microtubule associated protein like 4	192					microtubule-based process|mitosis	cytoplasm|microtubule	protein binding		EML4/ALK(246)	lung(246)|ovary(2)|central_nervous_system(1)|skin(1)	250						AGATGATAGCCGTAATAAATT	0.323			T	ALK	NSCLC								14	34					0	0	1	0	0		T	42490379	T	T	42490379	3	4	122	1	0	0	0	0	1	0	0	0	5107	652	23	1	592	1	EML4	2	42490379	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1833563	42490379	200708994	131	67134											
SRBD1	55133	broad.mit.edu	37	chr2	45826872	45826872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaactgtatgtggctgcgCtgcacatttctgttttgtct	5	17	10	9	2	2	0	0	0	2	0	3	1	2	0	0	1	3	5	0	1	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:45826872C>T	uc002rus.2	-	4	440	c.364G>A	c.(364-366)GCG>ACG	p.A122T		NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	122					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			TGTGGCTGCGCTGCACATTTC	0.413													34	198					0	0	1	0	0		T	45826872	T	T	45826872	3	4	122	1	0	0	0	0	1	0	0	0	15158	797	28	2	2695	2	SRBD1	2	45826872	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3336493	45826872	197372501	132	67135											
PRKCE	5581	broad.mit.edu	37	chr2	46378289	46378289	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggccgacaatgaggacgAcctatttgagtccatcctcc	10	9	10	12	2	0	3	0	3	0	0	3	6	3	4	5	2	0	0	5	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:46378289A>G	uc002rut.2	+	13	2038	c.1841A>G	c.(1840-1842)GAC>GGC	p.D614G		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	614	Protein kinase.				activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			AATGAGGACGACCTATTTGAG	0.587													6	36					0	0	1	0	0		G	46378289	G	G	46378289	3	3	122	1	0	0	0	0	1	0	0	0	12533	275	10	3	1891	3	PRKCE	2	46378289	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	551417	46378289	196821084	133	67136											
FOXN2	3344	broad.mit.edu	37	chr2	48602066	48602066	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattttccacaggtgagaaGcctcttcctcttaaaacagc	11	13	6	11	0	2	1	0	1	2	1	4	2	4	1	3	1	3	0	3	1	4	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:48602066G>T	uc002rwh.1	+	7	1095	c.780G>T	c.(778-780)AAG>AAT	p.K260N		NM_002158	NP_002149	P32314	FOXN2_HUMAN	T-cell leukemia virus enhancer factor	260					embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0272)|LUSC - Lung squamous cell carcinoma(58;0.036)			CAGGTGAGAAGCCTCTTCCTC	0.373													8	53					0.0477658	0.0483709	1	1	0		T	48602066	T	T	48602066	3	4	122	1	0	0	0	0	1	0	0	0	6034	962	34	5	798	5	FOXN2	2	48602066	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2223777	48602066	194597307	134	67137											
ASB3	51130	broad.mit.edu	37	chr2	53927512	53927512	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcatgatttacaaattcAtatatatggttccatggtcc	12	16	6	7	0	1	1	1	1	0	0	3	1	3	1	2	2	2	2	2	2	5	8			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:53927512A>G	uc002rxg.1	-	8	1269	c.1134T>C	c.(1132-1134)TAT>TAC	p.Y378Y	ASB3_uc002rxh.1_Silent_p.Y305Y|ASB3_uc002rxi.3_Silent_p.Y416Y|ASB3_uc002rxf.1_RNA	NM_016115	NP_057199	Q9Y575	ASB3_HUMAN	ankyrin repeat and SOCS box-containing protein 3	378					intracellular signal transduction					ovary(1)|kidney(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TTACAAATTCATATATATGGT	0.383													11	95					0	0	1	0	0		G	53927512	G	G	53927512	2	3	122	1	0	0	0	0	0	0	0	1	1025	224	8	3		3	ASB3	2	53927512	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	5325446	53927512	189271861	135	67138											
MTIF2	4528	broad.mit.edu	37	chr2	55467153	55467153	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagtgatcactcacctactgGgtgctcttccacagcacagg	9	9	9	14	0	3	1	2	1	1	0	4	1	4	1	2	2	3	2	2	2	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:55467153G>T	uc002ryn.2	-	15	2601	c.1864C>A	c.(1864-1866)CCA>ACA	p.P622T	MTIF2_uc010yox.1_Missense_Mutation_p.P291T|MTIF2_uc002ryo.2_Missense_Mutation_p.P622T	NM_001005369	NP_001005369	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	622					regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1						TCACCTACTGGGTGCTCTTCC	0.353													6	23					0.000157383	0.000165819	1	1	0		T	55467153	T	T	55467153	3	4	122	1	0	0	0	0	1	0	0	0	9952	1232	43	5	331	5	MTIF2	2	55467153	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1539641	55467153	187732220	136	67139											
MTIF2	4528	broad.mit.edu	37	chr2	55470699	55470699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcacgggctttctgatgtgCttctttgtgttcctttcgct	2	19	9	11	2	3	1	1	1	2	0	5	1	4	1	1	1	1	4	1	1	0	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:55470699C>T	uc002ryn.2	-	13	2154	c.1417G>A	c.(1417-1419)GCA>ACA	p.A473T	MTIF2_uc010yox.1_Missense_Mutation_p.A142T|MTIF2_uc002ryo.2_Missense_Mutation_p.A473T	NM_001005369	NP_001005369	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	473					regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1						TTCTGATGTGCTTCTTTGTGT	0.398													17	129					0	0	1	0	0		T	55470699	T	T	55470699	3	4	122	1	0	0	0	0	1	0	0	0	9952	797	28	2	786	2	MTIF2	2	55470699	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3546	55470699	187728674	137	67140											
BMP10	27302	broad.mit.edu	37	chr2	69092787	69092787	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacagccacattcggagacGgccatgccttcgtatttaaa	11	10	8	12	3	0	1	0	0	0	1	2	2	0	1	3	2	3	1	3	2	4	6	rs146375788		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:69092787G>A	uc002sez.1	-	2	1410	c.1251C>T	c.(1249-1251)GCC>GCT	p.A417A		NM_014482	NP_055297	O95393	BMP10_HUMAN	bone morphogenetic protein 10 preproprotein	417					activin receptor signaling pathway|adult heart development|atrial cardiac muscle tissue morphogenesis|BMP signaling pathway|cardiac muscle cell proliferation|heart trabecula formation|negative regulation of cardiac muscle hypertrophy|negative regulation of cell growth|negative regulation of endothelial cell migration|Notch signaling pathway|pathway-restricted SMAD protein phosphorylation|positive regulation of cardiac muscle cell proliferation|positive regulation of cardiac muscle hypertrophy|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent|sarcomere organization|ventricular cardiac muscle cell development|ventricular cardiac muscle tissue morphogenesis	cell surface|extracellular space|Z disc	cytokine activity|growth factor activity|receptor serine/threonine kinase binding			ovary(2)	2						ATTCGGAGACGGCCATGCCTT	0.403													34	155					0	0	1	0	0		A	69092787	A	A	69092787	2	1	122	1	0	0	0	0	0	0	0	1	1458	1103	39	1		1	BMP10	2	69092787	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	13622088	69092787	174106586	138	67141											
ALMS1	7840	broad.mit.edu	37	chr2	73675218	73675218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgaggacctgtctcagttgGctgtaagttctctagaaact	9	14	10	8	0	2	2	1	1	2	1	4	3	2	3	1	2	1	4	1	2	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:73675218G>A	uc002sje.1	+	9	1675	c.1564G>A	c.(1564-1566)GCT>ACT	p.A522T	ALMS1_uc002sjf.1_Missense_Mutation_p.A479T|ALMS1_uc002sjg.2_5'UTR|ALMS1_uc002sjh.1_5'UTR	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	521					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GTCTCAGTTGGCTGTAAGTTC	0.418													15	77					0	0	1	0	0		A	73675218	A	A	73675218	3	1	122	1	0	0	0	0	1	0	0	0	535	1203	42	2	1591	2	ALMS1	2	73675218	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4582431	73675218	169524155	139	67142											
MOGS	7841	broad.mit.edu	37	chr2	74689115	74689115	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccagtgccacccaacatcGcaggtccaggtgccgctcgg	8	5	11	17	3	0	0	0	0	0	0	3	0	1	0	5	3	3	2	5	3	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:74689115G>A	uc010ffj.2	-	4	1964	c.1801C>T	c.(1801-1803)CGA>TGA	p.R601*	MOGS_uc010ffh.2_Nonsense_Mutation_p.R326*|MOGS_uc010yrt.1_Nonsense_Mutation_p.R482*|MOGS_uc010ffi.2_Nonsense_Mutation_p.R495*	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	601	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						ACCCAACATCGCAGGTCCAGG	0.632													10	111					0	0	1	0	0		A	74689115	A	A	74689115	4	1	122	1	0	0	0	0	0	1	0	0	9715	1095	38	1	716	1	MOGS	2	74689115	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1013897	74689115	168510258	140	67143											
TLX2	3196	broad.mit.edu	37	chr2	74742968	74742968	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgacgcacaggtcaaaacGtggttccagaaccgacgcac	13	4	10	14	5	1	1	1	0	0	1	2	3	2	1	3	2	2	3	3	2	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:74742968G>A	uc002smb.1	+	2	932	c.609G>A	c.(607-609)ACG>ACA	p.T203T	TLX2_uc002sma.1_Missense_Mutation_p.V74M	NM_016170	NP_057254	O43763	TLX2_HUMAN	T-cell leukemia homeobox 2	203	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGGTCAAAACGTGGTTCCAGA	0.701													6	17					0	0	1	0	0		A	74742968	A	A	74742968	2	1	122	1	0	0	0	0	0	0	0	1	15986	1132	40	1		1	TLX2	2	74742968	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	53853	74742968	168456405	141	67144											
C2orf3	6936	broad.mit.edu	37	chr2	75929496	75929496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atagtcatcttgggccctggCcaattcacgttttctgcggg	6	13	11	11	2	4	0	2	0	2	0	4	0	4	0	2	3	1	1	2	3	2	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:75929496C>T	uc002sno.2	-	3	578	c.448G>A	c.(448-450)GCC>ACC	p.A150T	C2orf3_uc010ffs.2_5'Flank|C2orf3_uc002snn.2_5'UTR|C2orf3_uc010fft.2_5'UTR|C2orf3_uc002snp.3_Missense_Mutation_p.A150T	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	150					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						TGGGCCCTGGCCAATTCACGT	0.453													11	59					0	0	1	0	0		T	75929496	T	T	75929496	3	4	122	1	0	0	0	0	1	0	0	0	2165	739	26	2	1957	2	C2orf3	2	75929496	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1186528	75929496	167269877	142	67145											
GNLY	10578	broad.mit.edu	37	chr2	85924730	85924730	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtatcagtctagagttacCcagggcctcgtggccggaga	9	8	14	10	2	2	2	1	0	1	2	3	3	2	2	3	4	1	2	3	4	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:85924730C>T	uc002sql.3	+	4	485	c.357C>T	c.(355-357)ACC>ACT	p.T119T	GNLY_uc010fgp.2_Silent_p.T104T|GNLY_uc010ysx.1_Silent_p.T146T	NM_006433	NP_006424	P22749	GNLY_HUMAN	granulysin isoform NKG5	119	Saposin B-type.				cellular defense response|defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular space					0						CTAGAGTTACCCAGGGCCTCG	0.557													7	50					0	0	1	0	0		T	85924730	T	T	85924730	2	4	122	1	0	0	0	0	0	0	0	1	6554	610	22	4		4	GNLY	2	85924730	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	9995234	85924730	157274643	143	67146											
REV1	51455	broad.mit.edu	37	chr2	100079006	100079006	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactaaaaattgtagatgAagtcccatccttctgcatag	13	12	6	10	0	1	2	0	1	1	1	4	2	4	2	3	0	1	2	3	0	6	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:100079006A>G	uc002tad.2	-	3	345	c.133T>C	c.(133-135)TCA>CCA	p.S45P	REV1_uc002tac.2_Missense_Mutation_p.S45P|REV1_uc002tae.1_Missense_Mutation_p.S24P	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	45	BRCT.				DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						ATTGTAGATGAAGTCCCATCC	0.378								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					22	101					0	0	1	0	0		G	100079006	G	G	100079006	3	3	122	1	0	0	0	0	1	0	0	0	13264	246	9	3	3706	3	REV1	2	100079006	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	14154276	100079006	143120367	144	67147											
MALL	7851	broad.mit.edu	37	chr2	110849314	110849314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtatactatgtgggtggCggctaccatggtccagacca	8	9	15	9	1	0	1	0	0	0	1	1	1	1	1	3	6	2	2	3	6	4	4	rs141817647		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:110849314C>T	uc002tfk.2	-	2	913	c.139G>A	c.(139-141)GCC>ACC	p.A47T	MALL_uc010fju.2_Intron	NM_005434	NP_005425	Q13021	MALL_HUMAN	mal, T-cell differentiation protein-like	47	MARVEL.				cholesterol homeostasis	clathrin-coated vesicle|Golgi membrane|integral to membrane|membrane raft|plasma membrane	protein binding			ovary(1)|skin(1)	2				Epithelial(1;0.0546)|STAD - Stomach adenocarcinoma(1;0.18)		ATGTGGGTGGCGGCTACCATG	0.468													7	125					0	0	1	0	0		T	110849314	T	T	110849314	3	4	122	1	0	0	0	0	1	0	0	0	9219	768	27	1	334	1	MALL	2	110849314	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	10770308	110849314	132350059	145	67148											
FBLN7	129804	broad.mit.edu	37	chr2	112940452	112940452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacaccccgggctcttaccGttgcacctgccccggtggat	6	8	11	16	3	1	0	0	0	1	0	1	2	1	1	6	3	4	3	6	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:112940452G>A	uc002tho.1	+	6	1026	c.755G>A	c.(754-756)CGT>CAT	p.R252H	FBLN7_uc002thn.2_Missense_Mutation_p.R252H|FBLN7_uc010fki.1_Missense_Mutation_p.R206H|FBLN7_uc010fkj.1_Intron	NM_153214	NP_694946	Q53RD9	FBLN7_HUMAN	fibulin 7 isoform 1	252	EGF-like 2; calcium-binding (Potential).				cell adhesion	proteinaceous extracellular matrix	calcium ion binding|heparin binding			ovary(1)|central_nervous_system(1)	2						GGCTCTTACCGTTGCACCTGC	0.642													17	78					0	0	1	0	0		A	112940452	A	A	112940452	3	1	122	1	0	0	0	0	1	0	0	0	5715	1145	40	1	777	1	FBLN7	2	112940452	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2091138	112940452	130258921	146	67149											
RGPD5	84220	broad.mit.edu	37	chr2	113147664	113147664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccacggcccttcttccggCccctaatatcctgagcctgt	6	10	7	18	2	1	1	0	1	1	0	3	1	3	1	7	2	1	0	7	2	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:113147664C>T	uc002ths.1	-	20	2935	c.2858G>A	c.(2857-2859)GGC>GAC	p.G953D	RGPD8_uc010fkk.1_Missense_Mutation_p.G813D|RGPD5_uc002tht.1_Missense_Mutation_p.G204D	NM_005054	NP_005045	Q99666	RGPD5_HUMAN	RANBP2-like and GRIP domain containing 5 isoform	953					intracellular transport	cytoplasm	binding				0						CTTCTTCCGGCCCCTAATATC	0.418													36	313					0	0	1	0	0		T	113147664	T	T	113147664	3	4	122	1	0	0	0	0	1	0	0	0	13314	739	26	2	13469	2	RGPD5	2	113147664	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	207212	113147664	130051709	147	67150											
INSIG2	51141	broad.mit.edu	37	chr2	118854319	118854319	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctctttccacctgatgtgAttgcaagcatcttttcttct	6	17	6	12	1	4	2	0	2	4	0	5	2	5	2	2	0	2	3	2	0	1	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:118854319A>T	uc002tlk.2	+	2	393	c.187A>T	c.(187-189)ATT>TTT	p.I63F	INSIG2_uc010yye.1_Intron	NM_016133	NP_057217	Q9Y5U4	INSI2_HUMAN	insulin induced protein 2	63					ER-nuclear sterol response pathway	SREBP-SCAP-Insig complex				ovary(1)|central_nervous_system(1)	2						ACCTGATGTGATTGCAAGCAT	0.413													9	119					0	0	1	0	0		T	118854319	T	T	118854319	3	4	122	1	0	0	0	0	1	0	0	0	7782	333	12	5	189	5	INSIG2	2	118854319	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	5706655	118854319	124345054	148	67151											
RALB	5899	broad.mit.edu	37	chr2	121036293	121036293	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggccctccacaaggtgaTcatggttggcagcggaggcg	7	8	15	11	2	1	1	1	1	0	0	2	2	2	2	2	6	1	2	2	6	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:121036293T>C	uc002tmk.2	+	2	243	c.53T>C	c.(52-54)ATC>ACC	p.I18T	RALB_uc010yys.1_Missense_Mutation_p.I40T|RALB_uc002tml.2_Missense_Mutation_p.I18T|RALB_uc002tmm.2_Intron|RALB_uc010yyt.1_RNA	NM_002881	NP_002872	P11234	RALB_HUMAN	v-ral simian leukemia viral oncogene homolog B	18					apoptosis|cell cycle|cytokinesis|nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of exocyst assembly|regulation of exocyst localization	cytosol|midbody|plasma membrane	GTP binding|GTPase activity|protein binding			lung(3)	3		Prostate(154;0.122)				CACAAGGTGATCATGGTTGGC	0.562													6	38					0	0	1	0	0		C	121036293	C	C	121036293	3	2	122	1	0	0	0	0	1	0	0	0	13036	1435	50	3	55	3	RALB	2	121036293	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	2181974	121036293	122163080	149	67152											
AMMECR1L	83607	broad.mit.edu	37	chr2	128631753	128631753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgggcttcttgaccccaCaacagcctgctgccaacttg	8	11	8	14	0	1	1	0	1	1	0	1	1	1	1	4	1	5	2	4	1	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:128631753C>T	uc002tpl.2	-	3	307	c.56G>A	c.(55-57)TGT>TAT	p.C19Y	AMMECR1L_uc002tpm.2_Missense_Mutation_p.C19Y	NM_031445	NP_113633	Q6DCA0	AMERL_HUMAN	AMME chromosomal region gene 1-like	19										central_nervous_system(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.07)		CTTGACCCCACAACAGCCTGC	0.522													6	46					0	0	1	0	0		T	128631753	T	T	128631753	3	4	122	1	0	0	0	0	1	0	0	0	579	478	17	4	900	4	AMMECR1L	2	128631753	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	7595460	128631753	114567620	150	67153											
SMPD4	55627	broad.mit.edu	37	chr2	130931147	130931147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gattcacgcgcccctgtaagCagcggaggttccagccaacg	9	6	12	14	4	1	0	1	0	0	0	2	2	2	1	4	2	4	3	4	2	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:130931147C>T	uc002tqq.1	-	4	846	c.326G>A	c.(325-327)TGC>TAC	p.C109Y	SMPD4_uc002tqp.1_5'Flank|SMPD4_uc010yzy.1_Intron|SMPD4_uc010yzz.1_Intron|SMPD4_uc002tqr.1_Missense_Mutation_p.C109Y|SMPD4_uc002tqs.1_Intron|SMPD4_uc002tqt.1_5'UTR|SMPD4_uc010zaa.1_Silent_p.L21L|SMPD4_uc010zab.1_Intron|SMPD4_uc010zac.1_Intron|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	70					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	CCCCTGTAAGCAGCGGAGGTT	0.547													7	52					0	0	1	0	0		T	130931147	T	T	130931147	3	4	122	1	0	0	0	0	1	0	0	0	14832	710	25	2	2342	2	SMPD4	2	130931147	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2299394	130931147	112268226	151	67154											
TUBA3E	112714	broad.mit.edu	37	chr2	130951399	130951399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatccacaaactggatagtgCgcttggtcttgatggtggcg	9	11	13	8	2	1	1	0	1	1	0	2	2	2	2	1	4	2	1	1	4	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:130951399C>T	uc002tqv.2	-	4	1117	c.1016G>A	c.(1015-1017)CGC>CAC	p.R339H		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	339					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					CTGGATAGTGCGCTTGGTCTT	0.547													19	122					0	0	1	0	0		T	130951399	T	T	130951399	3	4	122	1	0	0	0	0	1	0	0	0	16774	768	27	1	344	1	TUBA3E	2	130951399	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	20252	130951399	112247974	152	67155											
TUBA3E	112714	broad.mit.edu	37	chr2	130951771	130951771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgttcaatgtccaggttgCgccgacatatgtcatagatg	10	11	11	9	3	2	1	2	0	0	1	3	3	3	1	2	1	1	2	2	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:130951771C>T	uc002tqv.2	-	4	745	c.644G>A	c.(643-645)CGC>CAC	p.R215H		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	215					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					GTCCAGGTTGCGCCGACATAT	0.552													19	133					0	0	1	0	0		T	130951771	T	T	130951771	3	4	122	1	0	0	0	0	1	0	0	0	16774	768	27	1	716	1	TUBA3E	2	130951771	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	372	130951771	112247602	153	67156											
NCKAP5	344148	broad.mit.edu	37	chr2	133540780	133540780	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatttctttcacccgctgTgatctccatgcttgctggat	6	15	7	13	1	3	1	1	1	2	0	4	2	3	2	2	1	2	3	2	1	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:133540780T>C	uc002ttp.2	-	14	3978	c.3604A>G	c.(3604-3606)ACA>GCA	p.T1202A	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1202							protein binding				0						TCACCCGCTGTGATCTCCATG	0.478													9	64					0	0	1	0	0		C	133540780	C	C	133540780	3	2	122	1	0	0	0	0	1	0	0	0	10242	1696	59	3	2153	3	NCKAP5	2	133540780	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	2589009	133540780	109658593	154	67157											
NCKAP5	344148	broad.mit.edu	37	chr2	133541060	133541060	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgagatgatggtgactcAtttacccctaagaaggaagg	13	9	11	8	0	1	4	1	3	0	2	1	6	1	5	3	3	1	0	3	3	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:133541060A>G	uc002ttp.2	-	14	3698	c.3324T>C	c.(3322-3324)AAT>AAC	p.N1108N	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1108	Ser-rich.						protein binding				0						ATGGTGACTCATTTACCCCTA	0.493													47	293					0	0	1	0	0		G	133541060	G	G	133541060	2	3	122	1	0	0	0	0	0	0	0	1	10242	214	8	3		3	NCKAP5	2	133541060	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	280	133541060	109658313	155	67158											
NCKAP5	344148	broad.mit.edu	37	chr2	133542959	133542959	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcatcgtccgcatcaacGtgggaatctagatcataaac	12	9	10	10	3	4	1	3	0	1	1	6	2	5	2	1	2	2	1	1	2	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:133542959G>A	uc002ttp.2	-	14	1799	c.1425C>T	c.(1423-1425)CAC>CAT	p.H475H	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	475							protein binding				0						CCGCATCAACGTGGGAATCTA	0.517													16	87					0	0	1	0	0		A	133542959	A	A	133542959	2	1	122	1	0	0	0	0	0	0	0	1	10242	1136	40	1		1	NCKAP5	2	133542959	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1899	133542959	109656414	156	67159											
R3HDM1	23518	broad.mit.edu	37	chr2	136399316	136399316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttttgcttcccttggaagCggcaggcataccacctggca	7	11	10	13	1	0	0	0	0	0	0	1	1	1	1	3	4	3	4	3	4	2	5	rs147536237		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:136399316C>T	uc002tuo.2	+	15	1800	c.1430C>T	c.(1429-1431)GCG>GTG	p.A477V	R3HDM1_uc010fni.2_Missense_Mutation_p.A475V|R3HDM1_uc002tup.2_Missense_Mutation_p.A421V|R3HDM1_uc010zbh.1_Intron	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	477							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		CCCTTGGAAGCGGCAGGCATA	0.433													7	80					0	0	1	0	0		T	136399316	T	T	136399316	3	4	122	1	0	0	0	0	1	0	0	0	12912	768	27	1	1480	1	R3HDM1	2	136399316	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2856357	136399316	106800057	157	67160											
LRP1B	53353	broad.mit.edu	37	chr2	141232708	141232708	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatgttactggaccaaccTttgtgtctatgagatccatc	9	16	7	9	0	1	1	0	1	1	1	3	3	2	2	3	1	2	1	3	1	4	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:141232708T>G	uc002tvj.1	-	60	10596	c.9624A>C	c.(9622-9624)AAA>AAC	p.K3208N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3208	Extracellular (Potential).|LDL-receptor class B 31.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TGGACCAACCTTTGTGTCTAT	0.294										TSP Lung(27;0.18)			15	51					0	0	1	0	0		G	141232708	G	G	141232708	3	3	122	1	0	0	0	0	1	0	0	0	8973	1623	56	5	4303	5	LRP1B	2	141232708	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	4833392	141232708	101966665	158	67161											
ACVR2A	92	broad.mit.edu	37	chr2	148684693	148684693	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaagaatgttgggatcaCgacgcagaagccaggttatc	13	9	12	7	2	1	3	1	1	0	2	2	5	1	4	1	2	1	3	1	2	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:148684693C>T	uc002twg.2	+	12	1661	c.1392C>T	c.(1390-1392)CAC>CAT	p.H464H	ACVR2A_uc010zbn.1_Silent_p.H356H|ACVR2A_uc002twh.2_Silent_p.H464H	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	464	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		GTTGGGATCACGACGCAGAAG	0.408													6	74					0	0	1	0	0		T	148684693	T	T	148684693	2	4	122	1	0	0	0	0	0	0	0	1	223	535	19	1		1	ACVR2A	2	148684693	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	7451985	148684693	94514680	159	67162											
MBD5	55777	broad.mit.edu	37	chr2	149216410	149216410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtgggttggcagcgtcGtgtggatcaaaatggagtgc	7	11	16	7	2	1	0	1	0	0	0	3	2	2	2	1	4	2	2	1	4	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:149216410G>A	uc002twm.3	+	6	1071	c.83G>A	c.(82-84)CGT>CAT	p.R28H	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.R28H	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	28	MBD.					chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		TGGCAGCGTCGTGTGGATCAA	0.468													18	124					0	0	1	0	0		A	149216410	A	A	149216410	3	1	122	1	0	0	0	0	1	0	0	0	9365	1145	40	1	85	1	MBD5	2	149216410	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	531717	149216410	93982963	160	67163											
EVX2	344191	broad.mit.edu	37	chr2	176948411	176948411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcgagcacagcattgccagCcgagttggacaaattggaga	12	7	12	10	2	0	1	0	0	0	1	1	5	0	2	2	2	4	3	2	2	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:176948411C>T	uc010zeu.1	-	1	280	c.94G>A	c.(94-96)GCT>ACT	p.A32T		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	32						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		GCATTGCCAGCCGAGTTGGAC	0.577													24	86					0	0	1	0	0		T	176948411	T	T	176948411	3	4	122	1	0	0	0	0	1	0	0	0	5303	739	26	2	1346	2	EVX2	2	176948411	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	27732001	176948411	66250962	161	67164											
HOXD3	3232	broad.mit.edu	37	chr2	177036309	177036309	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgggtacgcacggcatacacGagcgcgcagctggtggaatt	9	6	15	11	6	0	0	0	0	0	0	0	2	0	1	0	4	4	5	0	4	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:177036309G>A	uc002ukt.1	+	3	782	c.606G>A	c.(604-606)ACG>ACA	p.T202T		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	202	Homeobox.				anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		CGGCATACACGAGCGCGCAGC	0.637													5	54					0	0	1	0	0		A	177036309	A	A	177036309	2	1	122	1	0	0	0	0	0	0	0	1	7339	1045	37	1		1	HOXD3	2	177036309	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	87898	177036309	66163064	162	67165											
TTN	7273	broad.mit.edu	37	chr2	179419291	179419291	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctttgataattttggtggTtgtaatgatgcactcttcca	8	18	8	7	0	1	2	0	2	1	0	3	2	3	2	2	2	1	3	2	2	2	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:179419291T>C	uc010zfg.1	-	281	81303	c.81079A>G	c.(81079-81081)ACC>GCC	p.T27027A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T20722A|TTN_uc010zfi.1_Missense_Mutation_p.T20655A|TTN_uc010zfj.1_Missense_Mutation_p.T20530A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27954							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATTTTGGTGGTTGTAATGATG	0.448													11	54					0	0	1	0	0		C	179419291	C	C	179419291	3	2	122	1	0	0	0	0	1	0	0	0	16761	1725	60	3	19320	3	TTN	2	179419291	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	2382982	179419291	63780082	163	67166											
TTN	7273	broad.mit.edu	37	chr2	179458930	179458930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcttcaccaactcgaatcGtgagcttatctctgaagtcg	11	11	8	11	3	2	2	1	2	1	0	6	3	2	2	1	0	3	2	1	0	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:179458930G>A	uc010zfg.1	-	246	50710	c.50486C>T	c.(50485-50487)ACG>ATG	p.T16829M	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T10524M|TTN_uc010zfi.1_Missense_Mutation_p.T10457M|TTN_uc010zfj.1_Missense_Mutation_p.T10332M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17756							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AACTCGAATCGTGAGCTTATC	0.413													4	43					0	0	1	0	0		A	179458930	A	A	179458930	3	1	122	1	0	0	0	0	1	0	0	0	16761	1145	40	1	50053	1	TTN	2	179458930	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	39639	179458930	63740443	164	67167											
TTN	7273	broad.mit.edu	37	chr2	179466064	179466064	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accaaaacggttttctgctcGcacacggaagaaatattgct	13	10	8	10	3	1	1	0	0	1	1	2	2	1	2	1	2	3	4	1	2	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:179466064G>A	uc010zfg.1	-	236	48180	c.47956C>T	c.(47956-47958)CGA>TGA	p.R15986*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.R9681*|TTN_uc010zfi.1_Nonsense_Mutation_p.R9614*|TTN_uc010zfj.1_Nonsense_Mutation_p.R9489*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16913							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTTCTGCTCGCACACGGAAG	0.428													9	48					0	0	1	0	0		A	179466064	A	A	179466064	4	1	122	1	0	0	0	0	0	1	0	0	16761	1095	38	1	52337	1	TTN	2	179466064	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	7134	179466064	63733309	165	67168											
TTN	7273	broad.mit.edu	37	chr2	179500810	179500810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccgcatcaagccaatgaCgcctggcacaattcggccag	11	5	10	15	3	1	1	1	1	0	0	2	1	1	1	4	2	2	2	4	2	3	1	rs149059189	by1000genomes	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:179500810C>T	uc010zfg.1	-	175	34008	c.33784G>A	c.(33784-33786)GTC>ATC	p.V11262I	TTN_uc010zfh.1_Missense_Mutation_p.V4957I|TTN_uc010zfi.1_Missense_Mutation_p.V4890I|TTN_uc010zfj.1_Missense_Mutation_p.V4765I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12189							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAGCCAATGACGCCTGGCACA	0.512													13	77					0	0	1	0	0		T	179500810	T	T	179500810	3	4	122	1	0	0	0	0	1	0	0	0	16761	536	19	1	66753	1	TTN	2	179500810	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	34746	179500810	63698563	166	67169											
TTN	7273	broad.mit.edu	37	chr2	179585805	179585805	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccaactttcatgaagttcGctgtcatttcggaaccatga	10	14	7	10	2	2	2	2	2	0	0	5	3	3	3	2	1	2	2	2	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:179585805G>A	uc010zfg.1	-	76	19433	c.19209C>T	c.(19207-19209)AGC>AGT	p.S6403S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.S3064S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7330							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATGAAGTTCGCTGTCATTTC	0.398													10	80					0	0	1	0	0		A	179585805	A	A	179585805	2	1	122	1	0	0	0	0	0	0	0	1	16761	1078	38	1		1	TTN	2	179585805	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	84995	179585805	63613568	167	67170											
TTN	7273	broad.mit.edu	37	chr2	179586853	179586853	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcaaagaagggagattTcttgggttctggaggatgag	11	11	16	3	0	3	3	1	1	2	2	3	7	3	5	0	4	0	1	0	4	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:179586853T>C	uc010zfg.1	-	75	19029	c.18805A>G	c.(18805-18807)AAA>GAA	p.K6269E	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K2930E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7196							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAGGGAGATTTCTTGGGTTCT	0.388													22	161					0	0	1	0	0		C	179586853	C	C	179586853	3	2	122	1	0	0	0	0	1	0	0	0	16761	1792	62	3	82132	3	TTN	2	179586853	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1048	179586853	63612520	168	67171											
NAB1	4664	broad.mit.edu	37	chr2	191554976	191554976	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatttttatgtagagagcCttgggattttaaaagactac	12	15	8	6	0	0	2	0	0	0	2	1	4	1	3	2	1	2	1	2	1	5	8			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:191554976C>A	uc002usb.2	+	10	1953	c.1381C>A	c.(1381-1383)CTT>ATT	p.L461I	NAB1_uc010fsc.2_Missense_Mutation_p.L461I|NAB1_uc010fsd.2_Missense_Mutation_p.L460I|NAB1_uc002usc.2_Missense_Mutation_p.L460I|NAB1_uc010zgh.1_Missense_Mutation_p.L431I	NM_005966	NP_005957	Q13506	NAB1_HUMAN	NGFI-A binding protein 1	461					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0405)|all cancers(119;0.109)			TGTAGAGAGCCTTGGGATTTT	0.338													12	141					6.40141e-05	6.79831e-05	1	1	0		A	191554976	A	A	191554976	3	1	122	1	0	0	0	0	1	0	0	0	10149	681	24	5	1407	5	NAB1	2	191554976	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	11968123	191554976	51644397	169	67172											
SDPR	8436	broad.mit.edu	37	chr2	192700903	192700903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccaccagagcgctggcgaGggacgcttcggaatgaccct	8	7	13	13	4	0	2	0	1	0	1	2	5	1	4	3	3	1	2	3	3	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:192700903G>A	uc002utb.2	-	2	1354	c.1024C>T	c.(1024-1026)CTC>TTC	p.L342F		NM_004657	NP_004648	O95810	SDPR_HUMAN	serum deprivation response protein	342						caveola|cytosol	phosphatidylserine binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0647)		Phosphatidylserine(DB00144)	GCGCTGGCGAGGGACGCTTCG	0.562													21	167					0	0	1	0	0		A	192700903	A	A	192700903	3	1	122	1	0	0	0	0	1	0	0	0	13995	1000	35	4	257	4	SDPR	2	192700903	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1145927	192700903	50498470	170	67173											
PLCL1	5334	broad.mit.edu	37	chr2	198949135	198949135	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaaaactaaccacccgcgtGaccgaagaggaattttgtga	15	7	10	9	3	0	3	0	2	0	1	0	6	0	4	3	1	2	0	3	1	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:198949135G>A	uc010fsp.2	+	2	1185	c.894G>A	c.(892-894)GTG>GTA	p.V298V	PLCL1_uc002uuv.3_Silent_p.V219V	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	298					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	CCACCCGCGTGACCGAAGAGG	0.373													21	148					0	0	1	0	0		A	198949135	A	A	198949135	2	1	122	1	0	0	0	0	0	0	0	1	12058	1277	45	4		4	PLCL1	2	198949135	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	6248232	198949135	44250238	171	67174											
CASP8	841	broad.mit.edu	37	chr2	202131490	202131490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagggaacttcagacaccagGcagggctcaaatttctgcct	12	8	10	11	0	3	1	2	0	1	1	3	2	3	2	2	3	2	2	2	3	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:202131490G>A	uc002uxr.1	+	3	490	c.281G>A	c.(280-282)GGC>GAC	p.G94D	CASP8_uc010ftc.1_Missense_Mutation_p.G94D|CASP8_uc002uxo.1_Missense_Mutation_p.G94D|CASP8_uc002uxp.1_Missense_Mutation_p.G94D|CASP8_uc002uxq.1_Missense_Mutation_p.G94D|CASP8_uc002uxs.1_Missense_Mutation_p.G94D|CASP8_uc002uxt.1_Missense_Mutation_p.G153D|CASP8_uc002uxu.1_RNA|CASP8_uc010ftd.1_Intron|CASP8_uc002uxv.1_Missense_Mutation_p.G94D|CASP8_uc002uxw.1_Missense_Mutation_p.G94D|CASP8_uc002uxy.1_Missense_Mutation_p.G94D|CASP8_uc002uxx.1_Missense_Mutation_p.G94D|CASP8_uc010ftf.2_Missense_Mutation_p.G94D	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	94					activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						CAGACACCAGGCAGGGCTCAA	0.488										HNSCC(4;0.00038)			4	51					0	0	1	0	0		A	202131490	A	A	202131490	3	1	122	1	0	0	0	0	1	0	0	0	2680	1203	42	2	464	2	CASP8	2	202131490	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3182355	202131490	41067883	172	67175											
RAPH1	65059	broad.mit.edu	37	chr2	204320201	204320201	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagtagataccagatgctcGcaagagaaaataacgctttt	16	10	8	7	2	0	3	0	0	0	3	1	4	0	3	1	0	3	4	1	0	7	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:204320201G>A	uc002vad.2	-	9	1486	c.1261C>T	c.(1261-1263)CGA>TGA	p.R421*	RAPH1_uc002vae.2_Nonsense_Mutation_p.R473*|RAPH1_uc002vaf.2_Nonsense_Mutation_p.R473*	NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	421	PH.				cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10						CCAGATGCTCGCAAGAGAAAA	0.383													22	172					0	0	1	0	0		A	204320201	A	A	204320201	4	1	122	1	0	0	0	0	0	1	0	0	13075	1095	38	1	2522	1	RAPH1	2	204320201	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2188711	204320201	38879172	173	67176											
ERBB4	2066	broad.mit.edu	37	chr2	212530068	212530068	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccttgggtgcagtttggatgGcatgggtggcactcccgatc	5	11	15	10	1	0	0	0	0	0	0	2	2	1	1	2	5	1	4	2	5	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:212530068G>A	uc002veg.1	-	15	1949	c.1851C>T	c.(1849-1851)TGC>TGT	p.C617C	ERBB4_uc002veh.1_Silent_p.C617C|ERBB4_uc010zji.1_Silent_p.C617C|ERBB4_uc010zjj.1_Silent_p.C617C|ERBB4_uc010fut.1_Silent_p.C617C	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	617	Extracellular (Potential).|Cys-rich.				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		AGTTTGGATGGCATGGGTGGC	0.478										TSP Lung(8;0.080)			11	93					0	0	1	0	0		A	212530068	A	A	212530068	2	1	122	1	0	0	0	0	0	0	0	1	5217	1195	42	2		2	ERBB4	2	212530068	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	8209867	212530068	30669305	174	67177											
ABCA12	26154	broad.mit.edu	37	chr2	215855743	215855743	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcaggagttcacacccaTcatcttcatgtactgtaaga	11	11	8	11	0	4	1	3	0	1	1	4	2	4	2	1	1	2	5	1	1	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:215855743T>C	uc002vew.2	-	24	3527	c.3307A>G	c.(3307-3309)ATG>GTG	p.M1103V	ABCA12_uc002vev.2_Missense_Mutation_p.M785V|ABCA12_uc010zjn.1_Missense_Mutation_p.M30V	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1103					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TTCACACCCATCATCTTCATG	0.368													8	71					0	0	1	0	0		C	215855743	C	C	215855743	3	2	122	1	0	0	0	0	1	0	0	0	30	1435	50	3	4600	3	ABCA12	2	215855743	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	3325675	215855743	27343630	175	67178											
IGFBP5	3488	broad.mit.edu	37	chr2	217542917	217542917	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtgggctggctttgagcTcctgcagggaagcctccatg	5	10	15	11	1	0	1	0	1	0	0	2	2	2	2	3	3	4	4	3	3	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:217542917T>G	uc002vgj.3	-	3	1379	c.605A>C	c.(604-606)GAG>GCG	p.E202A		NM_000599	NP_000590	P24593	IBP5_HUMAN	insulin-like growth factor binding protein 5	202	Thyroglobulin type-1.				negative regulation of insulin-like growth factor receptor signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of translation|signal transduction		insulin-like growth factor I binding				0		Renal(323;0.0822)		Epithelial(149;2.1e-06)|all cancers(144;0.000165)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGCTTTGAGCTCCTGCAGGGA	0.617													16	92					0	0	1	0	0		G	217542917	G	G	217542917	3	3	122	1	0	0	0	0	1	0	0	0	7598	1551	54	5	221	5	IGFBP5	2	217542917	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1687174	217542917	25656456	176	67179											
TNS1	7145	broad.mit.edu	37	chr2	218712867	218712867	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaagtgggctctttcctgCtggcgtggaggtgggcgagg	4	10	18	9	2	1	0	0	0	1	0	3	2	3	1	2	6	1	2	2	6	1	1	rs149540382	by1000genomes	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:218712867C>T	uc002vgt.2	-	17	2396	c.1998G>A	c.(1996-1998)CAG>CAA	p.Q666Q	TNS1_uc002vgr.2_Silent_p.Q666Q|TNS1_uc002vgs.2_Silent_p.Q666Q|TNS1_uc010zjv.1_Silent_p.Q666Q|TNS1_uc010fvj.1_Silent_p.Q734Q|TNS1_uc010fvk.1_Silent_p.Q791Q|TNS1_uc010fvi.1_Silent_p.Q353Q	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	666	Gln-rich.					cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		CTCTTTCCTGCTGGCGTGGAG	0.557													3	33					0	0	1	0	0		T	218712867	T	T	218712867	2	4	122	1	0	0	0	0	0	0	0	1	16368	796	28	2		2	TNS1	2	218712867	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1169950	218712867	24486506	177	67180											
TNS1	7145	broad.mit.edu	37	chr2	218713028	218713028	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agagcggaacataccgctggGgtcatgggcatagtgggagg	10	6	18	7	2	1	1	1	0	0	1	1	3	1	3	1	6	3	2	1	6	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:218713028G>T	uc002vgt.2	-	17	2235	c.1837C>A	c.(1837-1839)CCC>ACC	p.P613T	TNS1_uc002vgr.2_Missense_Mutation_p.P613T|TNS1_uc002vgs.2_Missense_Mutation_p.P613T|TNS1_uc010zjv.1_Missense_Mutation_p.P613T|TNS1_uc010fvj.1_Missense_Mutation_p.P681T|TNS1_uc010fvk.1_Missense_Mutation_p.P738T|TNS1_uc010fvi.1_Missense_Mutation_p.P300T	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	613						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		ATACCGCTGGGGTCATGGGCA	0.652													10	121					2.68362e-12	3.09688e-12	1	1	0		T	218713028	T	T	218713028	3	4	122	1	0	0	0	0	1	0	0	0	16368	1232	43	5	3438	5	TNS1	2	218713028	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	161	218713028	24486345	178	67181											
CXCR1	3577	broad.mit.edu	37	chr2	219029293	219029293	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaacagcatgacaaacagCggcacgatgaagccaaaggt	17	3	11	10	2	0	3	0	2	0	1	0	4	0	3	1	2	5	2	1	2	4	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:219029293C>T	uc002vhc.2	-	2	761	c.642G>A	c.(640-642)CCG>CCA	p.P214P		NM_000634	NP_000625	P25024	CXCR1_HUMAN	interleukin 8 receptor alpha	214	Helical; Name=5; (Potential).				dendritic cell chemotaxis|inflammatory response	integral to membrane|plasma membrane	interleukin-8 receptor activity			lung(2)	2						TGACAAACAGCGGCACGATGA	0.527													15	113					0	0	1	0	0		T	219029293	T	T	219029293	2	4	122	1	0	0	0	0	0	0	0	1	4093	755	27	1		1	CXCR1	2	219029293	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	316265	219029293	24170080	179	67182											
USP37	57695	broad.mit.edu	37	chr2	219339558	219339558	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctcattctgtcaaatccTgagttttccaattcagactt	9	16	5	11	1	4	2	3	1	1	1	7	2	6	2	2	0	0	2	2	0	2	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:219339558T>C	uc002vie.2	-	20	2547	c.2094A>G	c.(2092-2094)TCA>TCG	p.S698S	USP37_uc010fvs.1_Silent_p.S698S|USP37_uc010zkf.1_Silent_p.S698S|USP37_uc002vif.2_Silent_p.S698S|USP37_uc002vig.2_Silent_p.S604S	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	698					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		TGTCAAATCCTGAGTTTTCCA	0.388													7	44					0	0	1	0	0		C	219339558	C	C	219339558	2	2	122	1	0	0	0	0	0	0	0	1	17094	1567	55	3		3	USP37	2	219339558	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	310265	219339558	23859815	180	67183											
SPEG	10290	broad.mit.edu	37	chr2	220349218	220349218	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcagccgcgagtcgcccCtgtcgctggggctgcggctg	3	6	17	15	6	0	0	0	0	0	0	2	1	0	0	3	3	3	4	3	3	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:220349218C>A	uc010fwg.2	+	30	7033	c.7033C>A	c.(7033-7035)CTG>ATG	p.L2345M		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2345	Arg-rich.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CGAGTCGCCCCTGTCGCTGGG	0.697													5	20					1.024e-07	1.14318e-07	1	1	0		A	220349218	A	A	220349218	3	1	122	1	0	0	0	0	1	0	0	0	15061	680	24	5	7163	5	SPEG	2	220349218	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1009660	220349218	22850155	181	67184											
OBSL1	23363	broad.mit.edu	37	chr2	220419260	220419260	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggagacacagcctgagtcGgccaggcccaggccattgag	11	4	14	12	1	0	3	0	2	0	1	1	4	0	3	4	4	1	0	4	4	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:220419260G>T	uc010fwk.2	-	15	4869	c.4812C>A	c.(4810-4812)GCC>GCA	p.A1604A		NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	1604					cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		AGCCTGAGTCGGCCAGGCCCA	0.632													10	37					7.48243e-07	8.20808e-07	1	1	0		T	220419260	T	T	220419260	2	4	122	1	0	0	0	0	0	0	0	1	10832	1103	39	5		5	OBSL1	2	220419260	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	70042	220419260	22780113	182	67185											
SLC4A3	6508	broad.mit.edu	37	chr2	220504357	220504357	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgtcacccatgtcaatgcGttgacagtgatgcgtactgc	8	11	10	12	3	2	2	2	2	0	0	3	2	3	2	2	0	4	2	2	0	2	2	rs138004203		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:220504357G>A	uc002vmp.3	+	20	3446	c.3177G>A	c.(3175-3177)GCG>GCA	p.A1059A	SLC4A3_uc002vmo.3_Silent_p.A1086A|SLC4A3_uc010fwm.2_Silent_p.A609A	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	1059	Membrane (anion exchange).				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ATGTCAATGCGTTGACAGTGA	0.652													8	59					0	0	1	0	0		A	220504357	A	A	220504357	2	1	122	1	0	0	0	0	0	0	0	1	14680	1132	40	1		1	SLC4A3	2	220504357	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	85097	220504357	22695016	183	67186											
EPHA4	2043	broad.mit.edu	37	chr2	222365753	222365753	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttacgggtgcagggcatagaGgcagcatcgttgtcagctct	8	10	14	9	2	2	1	1	0	1	1	3	1	2	1	0	3	4	6	0	3	2	3	rs145141867	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:222365753G>T	uc002vmq.2	-	4	1005	c.963C>A	c.(961-963)GCC>GCA	p.A321A	EPHA4_uc002vmr.2_Silent_p.A321A|EPHA4_uc010zlm.1_Silent_p.A262A|EPHA4_uc010zln.1_Silent_p.A321A	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	321	Cys-rich.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		AGGGCATAGAGGCAGCATCGT	0.557													13	110					0.000151284	0.000159956	1	1	0		T	222365753	T	T	222365753	2	4	122	1	0	0	0	0	0	0	0	1	5177	987	35	5		5	EPHA4	2	222365753	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1861396	222365753	20833620	184	67187											
TRIP12	9320	broad.mit.edu	37	chr2	230654380	230654380	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtaaaactcttaaaagaaGgatcacatctaatgacgggt	17	10	8	6	1	3	2	1	1	2	1	3	3	3	3	0	2	1	1	0	2	6	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:230654380G>T	uc002vpw.1	-	30	4526	c.4417C>A	c.(4417-4419)CTT>ATT	p.L1473I	TRIP12_uc002vpx.1_Missense_Mutation_p.L1521I|TRIP12_uc002vpy.1_Missense_Mutation_p.L1203I	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1473					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		CTTAAAAGAAGGATCACATCT	0.363													15	87					1.52009e-12	1.75756e-12	1	1	0		T	230654380	T	T	230654380	3	4	122	1	0	0	0	0	1	0	0	0	16582	1000	35	5	1609	5	TRIP12	2	230654380	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	8288627	230654380	12544993	185	67188											
CHRND	1144	broad.mit.edu	37	chr2	233393579	233393579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccctccccagttccctcAagtatacggccaaagagatc	10	9	7	15	1	1	1	1	0	0	1	4	2	3	1	5	1	2	2	5	1	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:233393579A>G	uc002vsw.2	+	6	521	c.517A>G	c.(517-519)AAG>GAG	p.K173E	CHRND_uc010zmg.1_Missense_Mutation_p.K158E|CHRND_uc010fyc.2_Intron|CHRND_uc010zmh.1_Intron	NM_000751	NP_000742	Q07001	ACHD_HUMAN	nicotinic acetylcholine receptor delta	173	Extracellular (Potential).				muscle contraction|musculoskeletal movement|neuromuscular process|skeletal muscle tissue growth|synaptic transmission	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)|breast(1)|skin(1)	3		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.89e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00078)|Lung(119;0.00579)|LUSC - Lung squamous cell carcinoma(224;0.00754)		CAGTTCCCTCAAGTATACGGC	0.587													11	118					0	0	1	0	0		G	233393579	G	G	233393579	3	3	122	1	0	0	0	0	1	0	0	0	3397	131	5	3	539	3	CHRND	2	233393579	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2739199	233393579	9805794	186	67189											
UGT1A5	54579	broad.mit.edu	37	chr2	234622039	234622039	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtggagctactgcataaTgaggccctgatcaggcacct	9	10	12	10	0	1	2	1	2	0	0	1	3	1	3	2	3	3	3	2	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:234622039T>C	uc002vuw.2	+	1	402	c.402T>C	c.(400-402)AAT>AAC	p.N134N	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Silent_p.N134N	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	134					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		TACTGCATAATGAGGCCCTGA	0.443													40	237					0	0	1	0	0		C	234622039	C	C	234622039	2	2	122	1	0	0	0	0	0	0	0	1	16974	1461	51	3		3	UGT1A5	2	234622039	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1228460	234622039	8577334	187	67190											
UGT1A5	54579	broad.mit.edu	37	chr2	234681161	234681161	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaccggaaatgcttggggAaaaaagggcgagttaagaaa	16	6	14	5	2	0	1	0	0	0	1	0	4	0	3	1	4	2	3	1	4	7	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:234681161A>G	uc002vuw.2	+	5	1561	c.1561A>G	c.(1561-1563)AAA>GAA	p.K521E	UGT1A8_uc002vup.2_Missense_Mutation_p.K517E|UGT1A10_uc002vur.2_Missense_Mutation_p.K517E|UGT1A9_uc002vus.2_Missense_Mutation_p.K517E|UGT1A7_uc002vut.2_Missense_Mutation_p.K517E|UGT1A6_uc002vuu.2_Missense_Mutation_p.K252E|UGT1A6_uc002vuv.3_Missense_Mutation_p.K519E|UGT1A4_uc002vux.2_Missense_Mutation_p.K521E|UGT1A3_uc002vuy.2_Missense_Mutation_p.K521E|UGT1A9_uc002vva.2_RNA|UGT1A1_uc002vvb.2_Missense_Mutation_p.K520E	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	521					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		ATGCTTGGGGAAAAAAGGGCG	0.453													6	47					0	0	1	0	0		G	234681161	G	G	234681161	3	3	122	1	0	0	0	0	1	0	0	0	16974	247	9	3	1579	3	UGT1A5	2	234681161	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	59122	234681161	8518212	188	67191											
GBX2	2637	broad.mit.edu	37	chr2	237074893	237074893	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagacgtggtgctgcccgcGgcgccgctgctcggcggggt	2	7	19	13	7	0	1	0	0	0	1	1	1	0	1	2	5	3	4	2	5	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:237074893G>A	uc002vvw.1	-	2	749	c.711C>T	c.(709-711)GCC>GCT	p.A237A	GBX2_uc010zng.1_3'UTR	NM_001485	NP_001476	P52951	GBX2_HUMAN	gastrulation brain homeo box 2	237				QAAHKEEDPGHALEETPPSSGA -> PGSSQGGRPGPRGGG DPAEQRR (in Ref. 6).		nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Breast(86;0.00235)|Renal(207;0.00339)|all_hematologic(139;0.00357)|all_lung(227;0.0616)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|Lung NSC(271;0.179)		Epithelial(121;4.5e-25)|OV - Ovarian serous cystadenocarcinoma(60;5.16e-11)|BRCA - Breast invasive adenocarcinoma(100;3.4e-05)|Lung(119;0.00195)|LUSC - Lung squamous cell carcinoma(224;0.00471)		TGCTGCCCGCGGCGCCGCTGC	0.647													12	59					0	0	1	0	0		A	237074893	A	A	237074893	2	1	122	1	0	0	0	0	0	0	0	1	6296	1103	39	1		1	GBX2	2	237074893	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2393732	237074893	6124480	189	67192											
IQCA1	79781	broad.mit.edu	37	chr2	237246962	237246962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtccccacaatcagaatccGgtcatctggtttcaggagtt	9	11	10	11	1	4	1	3	0	1	1	6	2	6	2	3	4	0	2	3	4	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:237246962G>A	uc002vvz.1	-	17	2202	c.2020C>T	c.(2020-2022)CGG>TGG	p.R674W	IQCA1_uc002vwb.2_Missense_Mutation_p.R682W|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Missense_Mutation_p.R633W	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	674							ATP binding			ovary(1)	1						ATCAGAATCCGGTCATCTGGT	0.438													9	77					0	0	1	0	0		A	237246962	A	A	237246962	3	1	122	1	0	0	0	0	1	0	0	0	7818	1115	39	1	460	1	IQCA1	2	237246962	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	172069	237246962	5952411	190	67193											
ANKMY1	51281	broad.mit.edu	37	chr2	241439490	241439490	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgcgccaggaacgtctcGcgctctgctggcatcagcgt	5	9	12	15	6	3	0	1	0	2	0	5	1	4	1	2	2	3	3	2	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:241439490G>A	uc002vyz.1	-	14	2653	c.2424C>T	c.(2422-2424)CGC>CGT	p.R808R	ANKMY1_uc002vza.1_Silent_p.R584R|ANKMY1_uc010fzd.1_Silent_p.R897R|ANKMY1_uc002vzb.1_Silent_p.R569R|ANKMY1_uc002vzc.1_Silent_p.R587R|ANKMY1_uc002vzd.1_Silent_p.R631R	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	808							zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		GGAACGTCTCGCGCTCTGCTG	0.677													3	20					0	0	1	0	0		A	241439490	A	A	241439490	2	1	122	1	0	0	0	0	0	0	0	1	634	1074	38	1		1	ANKMY1	2	241439490	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4192528	241439490	1759883	191	67194											
AGXT	189	broad.mit.edu	37	chr2	241808357	241808357	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatccccaaccagctcctGctggggcctggtccttccaa	6	9	8	18	0	0	0	0	0	0	0	5	0	5	0	8	3	3	2	8	3	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr2:241808357G>T	uc002waa.3	+	1	196	c.75G>T	c.(73-75)CTG>CTT	p.L25L	AGXT_uc010zoi.1_Silent_p.L25L	NM_000030	NP_000021	P21549	SPYA_HUMAN	alanine-glyoxylate aminotransferase	25					glyoxylate metabolic process|protein targeting to peroxisome	mitochondrial matrix|peroxisomal matrix	alanine-glyoxylate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|serine-pyruvate transaminase activity				0		all_epithelial(40;1.61e-15)|Breast(86;2.35e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;8.14e-32)|all cancers(36;4.77e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;4.88e-06)|Lung(119;0.000452)|LUSC - Lung squamous cell carcinoma(224;0.00415)|Colorectal(34;0.021)|COAD - Colon adenocarcinoma(134;0.15)	Glycine(DB00145)|L-Alanine(DB00160)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	ACCAGCTCCTGCTGGGGCCTG	0.652													9	56					1.12685e-05	1.21283e-05	1	1	0		T	241808357	T	T	241808357	2	4	122	1	0	0	0	0	0	0	0	1	404	1306	46	5		5	AGXT	2	241808357	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	368867	241808357	1391016	192	67195											
CHL1	10752	broad.mit.edu	37	chr3	402043	402043	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaccaaatcatactgctgtGtaccagtgtgaagcctcaaa	14	9	7	11	0	2	1	2	1	0	0	2	1	2	1	3	0	5	2	3	0	6	2	rs144449707		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:402043G>A	uc003bou.2	+	11	1465	c.1194G>A	c.(1192-1194)GTG>GTA	p.V398V	CHL1_uc003bot.2_Silent_p.V414V|CHL1_uc003bow.1_Silent_p.V398V|CHL1_uc011asi.1_Silent_p.V414V	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	398	Ig-like C2-type 4.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		ATACTGCTGTGTACCAGTGTG	0.428													16	137					0	0	1	0	0		A	402043	A	A	402043	2	1	122	1	0	0	0	0	0	0	0	1	3352	1364	48	4		4	CHL1	3	402043	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08		402043	197620387	193	67196											
IL5RA	3568	broad.mit.edu	37	chr3	3139598	3139598	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcaaagggcctgatagcaGagtgcttgctggagccgtta	10	9	14	8	1	1	2	1	1	0	1	1	4	1	3	2	2	4	4	2	2	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:3139598G>T	uc011ask.1	-	8	1309	c.665C>A	c.(664-666)TCT>TAT	p.S222Y	IL5RA_uc010hbq.2_Missense_Mutation_p.S222Y|IL5RA_uc010hbr.2_Intron|IL5RA_uc010hbs.2_Missense_Mutation_p.S222Y|IL5RA_uc011asl.1_Missense_Mutation_p.S222Y|IL5RA_uc011asm.1_Missense_Mutation_p.S222Y|IL5RA_uc010hbt.2_Missense_Mutation_p.S222Y|IL5RA_uc011asn.1_Missense_Mutation_p.S222Y|IL5RA_uc010hbu.2_Missense_Mutation_p.S222Y	NM_000564	NP_000555	Q01344	IL5RA_HUMAN	interleukin 5 receptor, alpha isoform 1	222	Extracellular (Potential).				cell proliferation	extracellular space|integral to membrane|plasma membrane	interleukin-5 receptor activity			ovary(1)	1				Epithelial(13;0.00278)|all cancers(10;0.00809)|OV - Ovarian serous cystadenocarcinoma(96;0.00944)		CCTGATAGCAGAGTGCTTGCT	0.448													11	49					1.08611e-07	1.2069e-07	1	1	0		T	3139598	T	T	3139598	3	4	122	1	0	0	0	0	1	0	0	0	7716	942	33	5	647	5	IL5RA	3	3139598	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2737555	3139598	194882832	194	67197											
ZFYVE20	64145	broad.mit.edu	37	chr3	15115637	15115637	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccactgcttcctcctcCtcgtcctcttcctcgaaagg	4	12	6	19	2	1	0	0	0	1	0	8	1	6	0	7	1	2	1	7	1	1	2	rs139954695		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:15115637C>G	uc003bzm.1	-	14	2621	c.2007G>C	c.(2005-2007)GAG>GAC	p.E669D	ZFYVE20_uc010hek.1_Missense_Mutation_p.E669D	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	669	Poly-Glu.|Necessary for the interaction with RAB5A.|Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						CTTCCTCCTCCTCGTCCTCTT	0.557													25	197					0	0	1	0	0		G	15115637	G	G	15115637	3	3	122	1	0	0	0	0	1	0	0	0	17691	680	24	5	351	5	ZFYVE20	3	15115637	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	11976039	15115637	182906793	195	67198											
ZFYVE20	64145	broad.mit.edu	37	chr3	15127396	15127396	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgattattagtttattgActtccacaacatagtggtca	12	15	6	8	0	1	2	1	2	0	0	2	2	2	2	2	1	1	1	2	1	5	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:15127396A>G	uc003bzm.1	-	6	976	c.362T>C	c.(361-363)GTC>GCC	p.V121A	ZFYVE20_uc010hek.1_Missense_Mutation_p.V121A|ZFYVE20_uc011avn.1_Missense_Mutation_p.V121A	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	121	Necessary for the correct targeting to endosomes.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						TAGTTTATTGACTTCCACAAC	0.358													36	243					0	0	1	0	0		G	15127396	G	G	15127396	3	3	122	1	0	0	0	0	1	0	0	0	17691	275	10	3	2028	3	ZFYVE20	3	15127396	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	11759	15127396	182895034	196	67199											
RFTN1	23180	broad.mit.edu	37	chr3	16535299	16535299	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatcttggtttccacctgAggcctcttcaaagttgaata	9	15	7	10	0	4	2	1	2	3	0	5	2	5	2	3	2	0	2	3	2	4	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:16535299A>G	uc003cay.2	-	2	360	c.78T>C	c.(76-78)CCT>CCC	p.P26P		NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	26						plasma membrane				ovary(3)|central_nervous_system(1)	4						TTTCCACCTGAGGCCTCTTCA	0.488													35	240					0	0	1	0	0		G	16535299	G	G	16535299	2	3	122	1	0	0	0	0	0	0	0	1	13283	291	11	3		3	RFTN1	3	16535299	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1407903	16535299	181487131	197	67200											
KCNH8	131096	broad.mit.edu	37	chr3	19479672	19479672	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggttggcttcatgagttGggaaagagactggaatctcc	10	10	14	7	0	2	2	1	1	1	1	3	5	2	4	1	4	0	4	1	4	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:19479672G>A	uc003cbk.1	+	8	1389	c.1194G>A	c.(1192-1194)TTG>TTA	p.L398L	KCNH8_uc011awe.1_Silent_p.L398L|KCNH8_uc010hex.1_5'UTR|KCNH8_uc011awf.1_Silent_p.L29L	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	398	Extracellular (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						TTCATGAGTTGGGAAAGAGAC	0.443													27	229					0	0	1	0	0		A	19479672	A	A	19479672	2	1	122	1	0	0	0	0	0	0	0	1	8054	1339	47	4		4	KCNH8	3	19479672	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2944373	19479672	178542758	198	67201											
KAT2B	8850	broad.mit.edu	37	chr3	20181816	20181816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctaaatccacggatccCgtacacagaattttctgtca	12	11	7	11	2	2	2	1	1	1	1	4	3	4	3	2	1	2	2	2	1	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:20181816C>T	uc003cbq.2	+	13	2410	c.1964C>T	c.(1963-1965)CCG>CTG	p.P655L		NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	655					cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCACGGATCCCGTACACAGAA	0.418													6	70					0	0	1	0	0		T	20181816	T	T	20181816	3	4	122	1	0	0	0	0	1	0	0	0	7998	652	23	1	2014	1	KAT2B	3	20181816	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	702144	20181816	177840614	199	67202											
ZNF860	344787	broad.mit.edu	37	chr3	32031024	32031024	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catcctggaaacaagcctatCaaagatcagcttggattaag	15	9	8	9	0	2	1	2	0	0	1	3	3	3	3	2	2	3	1	2	2	5	3	rs4449357	by1000genomes	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:32031024C>T	uc011axg.1	+	2	1002	c.453C>T	c.(451-453)ATC>ATT	p.I151I		NM_001137674	NP_001131146	A6NHJ4	ZN860_HUMAN	zinc finger protein 860	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ACAAGCCTATCAAAGATCAGC	0.398													5	116					0	0	1	0	0		T	32031024	T	T	32031024	2	4	122	1	0	0	0	0	0	0	0	1	18219	816	29	4		4	ZNF860	3	32031024	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	11849208	32031024	165991406	200	67203											
SCN5A	6331	broad.mit.edu	37	chr3	38601732	38601732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcaagttcaaggactcaCactggctcttgttgttcacg	8	12	10	11	2	5	0	4	0	1	0	5	1	5	1	0	3	0	4	0	3	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:38601732C>T	uc003cio.2	-	23	4345	c.4151G>A	c.(4150-4152)TGT>TAT	p.C1384Y	SCN5A_uc003cin.2_Missense_Mutation_p.C1383Y|SCN5A_uc003cil.3_Missense_Mutation_p.C1384Y|SCN5A_uc010hhi.2_Missense_Mutation_p.C1384Y|SCN5A_uc010hhk.2_Missense_Mutation_p.C1383Y|SCN5A_uc011ayr.1_Missense_Mutation_p.C1330Y|SCN5A_uc010hhj.1_Missense_Mutation_p.C994Y	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1384					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	CAAGGACTCACACTGGCTCTT	0.527													4	25					0	0	1	0	0		T	38601732	T	T	38601732	3	4	122	1	0	0	0	0	1	0	0	0	13947	478	17	4	1923	4	SCN5A	3	38601732	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	6570708	38601732	159420698	201	67204											
CCR3	1232	broad.mit.edu	37	chr3	46307472	46307472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatttggaaatgactgtgagCggagcaagcatctggacctg	11	10	13	7	1	1	2	0	2	1	0	1	5	1	5	1	3	3	2	1	3	3	2	rs41276535		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:46307472C>T	uc003cpg.1	+	4	1366	c.823C>T	c.(823-825)CGG>TGG	p.R275W	CCR3_uc003cpi.1_Missense_Mutation_p.R275W|CCR3_uc003cpj.1_Missense_Mutation_p.R275W|CCR3_uc003cpk.1_Missense_Mutation_p.R296W|CCR3_uc010hjb.1_Missense_Mutation_p.R293W|CCR3_uc003cpl.1_Missense_Mutation_p.R308W	NM_178329	NP_847899	P51677	CCR3_HUMAN	CC chemokine receptor 3 isoform 1	275	Extracellular (Potential).				cell adhesion|cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|inflammatory response|interspecies interaction between organisms|positive regulation of angiogenesis	integral to plasma membrane				ovary(3)|lung(3)|breast(1)|kidney(1)	8				BRCA - Breast invasive adenocarcinoma(193;0.00119)|KIRC - Kidney renal clear cell carcinoma(197;0.0183)|Kidney(197;0.0216)		TGACTGTGAGCGGAGCAAGCA	0.483													14	72					0	0	1	0	0		T	46307472	T	T	46307472	3	4	122	1	0	0	0	0	1	0	0	0	2945	759	27	1	892	1	CCR3	3	46307472	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	7705740	46307472	151714958	202	67205											
MYL3	4634	broad.mit.edu	37	chr3	46902256	46902256	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacatccccacactgcccgtAggtgatcttcatctcacact	9	10	6	16	1	3	1	2	1	2	0	5	2	4	1	3	1	1	1	3	1	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:46902256A>G	uc003cql.1	-	3	310	c.217T>C	c.(217-219)TAC>CAC	p.Y73H		NM_000258	NP_000249	P08590	MYL3_HUMAN	slow skeletal ventricular myosin alkali light	73	EF-hand 1.				cardiac muscle contraction|muscle filament sliding|positive regulation of ATPase activity|regulation of striated muscle contraction|regulation of the force of heart contraction|ventricular cardiac muscle tissue morphogenesis	A band|cytosol|I band|muscle myosin complex	actin monomer binding|calcium ion binding|myosin II heavy chain binding|structural constituent of muscle				0				BRCA - Breast invasive adenocarcinoma(193;0.00116)|KIRC - Kidney renal clear cell carcinoma(197;0.00557)|Kidney(197;0.0063)		CACTGCCCGTAGGTGATCTTC	0.607													18	136					0	0	1	0	0		G	46902256	G	G	46902256	3	3	122	1	0	0	0	0	1	0	0	0	10066	420	15	3	386	3	MYL3	3	46902256	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	594784	46902256	151120174	203	67206											
NBEAL2	23218	broad.mit.edu	37	chr3	47037020	47037020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taccccctgtacagcgatggCcagggcctggcttcaccttt	6	10	10	15	1	1	0	1	0	0	0	1	1	1	0	5	3	3	2	5	3	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:47037020C>T	uc003cqp.2	+	13	1974	c.1795C>T	c.(1795-1797)CCA>TCA	p.P599S	NBEAL2_uc003cqq.1_Missense_Mutation_p.P565S|NBEAL2_uc010hjm.1_Missense_Mutation_p.P160S	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	599							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		ACAGCGATGGCCAGGGCCTGG	0.622													23	100					0	0	1	0	0		T	47037020	T	T	47037020	3	4	122	1	0	0	0	0	1	0	0	0	10207	739	26	2	1845	2	NBEAL2	3	47037020	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	134764	47037020	150985410	204	67207											
C3orf75	54859	broad.mit.edu	37	chr3	47545907	47545907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcaaggaacacaagctgcCcacgctcccgcgccatggtc	9	5	9	18	3	1	0	1	0	0	0	3	1	2	1	4	2	3	2	4	2	3	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:47545907C>T	uc003crk.2	-	4	355	c.236G>A	c.(235-237)GGG>GAG	p.G79E	C3orf75_uc003crj.2_Missense_Mutation_p.G6E|C3orf75_uc011bba.1_Missense_Mutation_p.G30E|C3orf75_uc003crl.1_Missense_Mutation_p.G79E	NM_001031703	NP_001026873	Q0PNE2	CC075_HUMAN	transmembrane protein 103	79											0						CACAAGCTGCCCACGCTCCCG	0.547													5	60					0	0	1	0	0		T	47545907	T	T	47545907	3	4	122	1	0	0	0	0	1	0	0	0	2248	623	22	4	580	4	C3orf75	3	47545907	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	508887	47545907	150476523	205	67208											
PFKFB4	5210	broad.mit.edu	37	chr3	48559432	48559432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctacctgaggcctgtccCggtgcgtgttcacagcagcc	5	10	12	14	2	1	1	1	1	0	0	2	1	2	1	4	2	5	3	4	2	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:48559432C>T	uc003ctv.2	-	13	1354	c.1337G>A	c.(1336-1338)CGG>CAG	p.R446Q	PFKFB4_uc003ctw.2_Missense_Mutation_p.R255Q|PFKFB4_uc010hkc.2_Missense_Mutation_p.R411Q|PFKFB4_uc003ctx.2_Missense_Mutation_p.R403Q|PFKFB4_uc010hkb.2_Missense_Mutation_p.R439Q|PFKFB4_uc011bbm.1_Missense_Mutation_p.R435Q	NM_004567	NP_004558	Q16877	F264_HUMAN	6-phosphofructo-2-kinase/fructose-2,	446	Fructose-2,6-bisphosphatase.				fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0003)|KIRC - Kidney renal clear cell carcinoma(197;0.00596)|Kidney(197;0.00684)		AGGCCTGTCCCGGTGCGTGTT	0.587													10	70					0	0	1	0	0		T	48559432	T	T	48559432	3	4	122	1	0	0	0	0	1	0	0	0	11782	652	23	1	80	1	PFKFB4	3	48559432	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1013525	48559432	149462998	206	67209											
COL7A1	1294	broad.mit.edu	37	chr3	48631879	48631879	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagagaaaggcagcaccagcCcttcgagaaagctgcggacc	13	3	12	13	2	0	2	0	0	0	2	1	5	0	3	3	2	4	3	3	2	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:48631879C>A	uc003ctz.2	-	2	189	c.188G>T	c.(187-189)GGG>GTG	p.G63V		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	63	Nonhelical region (NC1).|VWFA 1.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CAGCACCAGCCCTTCGAGAAA	0.607													7	67					0.00198382	0.00205052	1	1	0		A	48631879	A	A	48631879	3	1	122	1	0	0	0	0	1	0	0	0	3707	623	22	5	9114	5	COL7A1	3	48631879	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	72447	48631879	149390551	207	67210											
CELSR3	1951	broad.mit.edu	37	chr3	48698723	48698723	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagctgcaggatagggtagcCctcctccacattctcgcgaa	9	8	10	14	2	1	0	0	0	1	0	4	2	3	1	3	2	3	3	3	2	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:48698723C>A	uc003cul.2	-	1	1626	c.1345G>T	c.(1345-1347)GGC>TGC	p.G449C	CELSR3_uc003cuf.1_Missense_Mutation_p.G519C	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	449	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		ATAGGGTAGCCCTCCTCCACA	0.677													9	47					4.68919e-08	5.24962e-08	1	1	0		A	48698723	A	A	48698723	3	1	122	1	0	0	0	0	1	0	0	0	3226	623	22	5	8733	5	CELSR3	3	48698723	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	66844	48698723	149323707	208	67211											
NDUFAF3	25915	broad.mit.edu	37	chr3	49059586	49059586	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttggtcagccatggccacCgctctcgcgctacgtagctt	5	10	11	15	5	2	0	1	0	1	0	3	0	2	0	3	2	3	5	3	2	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:49059586C>A	uc003cvq.2	+	1	513	c.9C>A	c.(7-9)ACC>ACA	p.T3T	DALRD3_uc003cvm.1_5'Flank|DALRD3_uc010hko.1_5'Flank|uc011bcb.1_5'Flank|MIR425_hsa-mir-425|MI0001448_5'Flank|NDUFAF3_uc003cvn.2_Intron|uc003cvo.1_5'Flank|MIR191_hsa-mir-191|MI0000465_5'Flank|NDUFAF3_uc003cvp.2_Intron|NDUFAF3_uc003cvr.2_Intron|NDUFAF3_uc003cvs.2_5'UTR	NM_199069	NP_951032	Q9BU61	NDUF3_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	3					mitochondrial respiratory chain complex I assembly	mitochondrial inner membrane|nucleus	protein binding				0						CCATGGCCACCGCTCTCGCGC	0.706											OREG0015566	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	34					0.150653	0.151538	1	1	0		A	49059586	A	A	49059586	2	1	122	1	0	0	0	0	0	0	0	1	10295	639	23	5		5	NDUFAF3	3	49059586	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	360863	49059586	148962844	209	67212											
USP19	10869	broad.mit.edu	37	chr3	49152674	49152674	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatcaccttcaacttggaaGgctggaaggcatggtgggtg	10	9	15	7	0	2	1	2	0	0	1	2	3	2	3	1	6	1	2	1	6	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:49152674G>T	uc003cwd.1	-	12	1861	c.1700C>A	c.(1699-1701)CCT>CAT	p.P567H	USP19_uc003cwa.2_Missense_Mutation_p.P375H|USP19_uc003cvz.3_Missense_Mutation_p.P670H|USP19_uc011bcg.1_Missense_Mutation_p.P658H|USP19_uc003cwb.2_Missense_Mutation_p.P653H|USP19_uc003cwc.1_Missense_Mutation_p.P325H|USP19_uc011bch.1_Missense_Mutation_p.P668H	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	567	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CAACTTGGAAGGCTGGAAGGC	0.612													6	40					0.00116845	0.00121191	1	1	0		T	49152674	T	T	49152674	3	4	122	1	0	0	0	0	1	0	0	0	17076	1000	35	5	2316	5	USP19	3	49152674	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	93088	49152674	148869756	210	67213											
LAMB2	3913	broad.mit.edu	37	chr3	49160626	49160626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagagcttgccaagtgccCgctggttggccatgtgtttg	6	11	14	10	1	0	1	0	0	0	1	0	2	0	1	3	2	3	4	3	2	1	3	rs146522641	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:49160626C>T	uc003cwe.2	-	26	4462	c.4163G>A	c.(4162-4164)CGG>CAG	p.R1388Q	USP19_uc003cvz.3_5'Flank|USP19_uc011bcg.1_5'Flank|USP19_uc003cwb.2_5'Flank|USP19_uc003cwd.1_5'Flank|USP19_uc011bch.1_5'Flank|USP19_uc011bci.1_5'Flank	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1388	Domain II.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GCCAAGTGCCCGCTGGTTGGC	0.567													15	137					0	0	1	0	0		T	49160626	T	T	49160626	3	4	122	1	0	0	0	0	1	0	0	0	8627	652	23	1	1261	1	LAMB2	3	49160626	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	7952	49160626	148861804	211	67214											
GMPPB	29925	broad.mit.edu	37	chr3	49760036	49760036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctcctacacacctggatgCgctgcagcactgcagggctc	7	8	11	15	1	1	0	0	0	1	0	3	1	1	1	2	2	5	5	2	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:49760036C>T	uc003cxk.1	-	5	779	c.554G>A	c.(553-555)CGC>CAC	p.R185H	AMIGO3_uc003cxj.2_5'Flank|GMPPB_uc003cxl.1_Missense_Mutation_p.R185H	NM_021971	NP_068806	Q9Y5P6	GMPPB_HUMAN	GDP-mannose pyrophosphorylase B isoform 2	185					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CACCTGGATGCGCTGCAGCAC	0.607													5	33					0	0	1	0	0		T	49760036	T	T	49760036	3	4	122	1	0	0	0	0	1	0	0	0	6510	768	27	1	625	1	GMPPB	3	49760036	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	599410	49760036	148262394	212	67215											
HYAL3	8372	broad.mit.edu	37	chr3	50330720	50330720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctgggctcctggcaggtgGggccagcccagccccagtaa	6	5	15	15	0	0	0	0	0	0	0	1	0	1	0	6	5	2	3	6	5	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:50330720G>A	uc003czd.1	-	4	1484	c.1211C>T	c.(1210-1212)CCC>CTC	p.P404L	HYAL3_uc003czc.1_Missense_Mutation_p.P374L|HYAL3_uc003cze.1_Missense_Mutation_p.P155L|HYAL3_uc003czf.1_Missense_Mutation_p.P125L|HYAL3_uc003czg.1_Missense_Mutation_p.P374L|IFRD2_uc011bdp.1_5'Flank|IFRD2_uc003czb.2_5'Flank	NM_003549	NP_003540	O43820	HYAL3_HUMAN	hyaluronoglucosaminidase 3 precursor	404	EGF-like.				carbohydrate metabolic process	extracellular region|lysosome	hyalurononglucosaminidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CTGGCAGGTGGGGCCAGCCCA	0.597													18	91					0	0	1	0	0		A	50330720	A	A	50330720	3	1	122	1	0	0	0	0	1	0	0	0	7481	1232	43	4	46	4	HYAL3	3	50330720	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	570684	50330720	147691710	213	67216											
HYAL1	3373	broad.mit.edu	37	chr3	50340041	50340041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaagtcaggagcaggtatgGcagccaggatgtcctggaat	12	7	15	7	0	1	1	1	0	0	1	2	4	2	4	2	5	2	3	2	5	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:50340041G>A	uc003czp.2	-	2	479	c.347C>T	c.(346-348)GCC>GTC	p.A116V	HYAL1_uc003czm.2_5'UTR|HYAL1_uc003czo.2_Intron|HYAL1_uc003czq.2_Missense_Mutation_p.A116V|HYAL1_uc003czr.2_Missense_Mutation_p.A116V|HYAL1_uc003czn.2_Intron|HYAL1_uc003czs.2_Missense_Mutation_p.A116V|HYAL1_uc003czt.2_Missense_Mutation_p.A116V	NM_033159	NP_149349	Q12794	HYAL1_HUMAN	hyaluronoglucosaminidase 1 isoform 1	116						extracellular space|lysosome	hyalurononglucosaminidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)	Hyaluronidase(DB00070)	AGCAGGTATGGCAGCCAGGAT	0.622													26	154					0	0	1	0	0		A	50340041	A	A	50340041	3	1	122	1	0	0	0	0	1	0	0	0	7479	1203	42	2	972	2	HYAL1	3	50340041	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	9321	50340041	147682389	214	67217											
DOCK3	1795	broad.mit.edu	37	chr3	51395471	51395471	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctctgcataagaagctaaTtgatcagttccagatgatgc	12	11	9	9	0	2	4	1	2	1	2	3	4	3	4	2	0	3	3	2	0	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:51395471T>C	uc011bds.1	+	46	4870	c.4847T>C	c.(4846-4848)ATT>ACT	p.I1616T		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1616	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		AAGAAGCTAATTGATCAGTTC	0.502													13	67					0	0	1	0	0		C	51395471	C	C	51395471	3	2	122	1	0	0	0	0	1	0	0	0	4694	1493	52	3	5029	3	DOCK3	3	51395471	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1055430	51395471	146626959	215	67218											
NISCH	11188	broad.mit.edu	37	chr3	52522247	52522247	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctactggctgttgctcacGccccagcacctcaacgtcat	7	9	7	18	2	3	0	3	0	0	0	3	0	3	0	4	1	4	4	4	1	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:52522247G>A	uc011beg.1	+	17	2811	c.2739G>A	c.(2737-2739)ACG>ACA	p.T913T	NISCH_uc003ded.3_Silent_p.T913T|NISCH_uc003dee.3_Silent_p.T402T|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_5'Flank	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	913					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		TGTTGCTCACGCCCCAGCACC	0.647													14	77					0	0	1	0	0		A	52522247	A	A	52522247	2	1	122	1	0	0	0	0	0	0	0	1	10451	1074	38	1		1	NISCH	3	52522247	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1126776	52522247	145500183	216	67219											
STAB1	23166	broad.mit.edu	37	chr3	52537421	52537421	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtgctcggtgagccccaaGgggcaggctcagtgtcactg	7	7	15	12	1	2	1	2	1	0	0	3	1	2	1	2	4	2	3	2	4	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:52537421G>A	uc003dej.2	+	8	830	c.756G>A	c.(754-756)AAG>AAA	p.K252K	STAB1_uc003dei.1_Silent_p.K252K	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	252	EGF-like 4.|Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		TGAGCCCCAAGGGGCAGGCTC	0.642													6	45					0	0	1	0	0		A	52537421	A	A	52537421	2	1	122	1	0	0	0	0	0	0	0	1	15262	991	35	4		4	STAB1	3	52537421	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	15174	52537421	145485009	217	67220											
ACTR8	93973	broad.mit.edu	37	chr3	53911737	53911737	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttatttcccgaacagtgAtctaaaattgcaggtcgcat	12	12	7	10	2	1	1	0	1	1	0	3	2	2	1	1	1	2	2	1	1	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:53911737A>G	uc003dhd.2	-	4	506	c.447T>C	c.(445-447)GAT>GAC	p.D149D	ACTR8_uc003dhb.2_5'Flank|ACTR8_uc003dhc.2_Silent_p.D38D	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	149					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		CCGAACAGTGATCTAAAATTG	0.393													8	58					0	0	1	0	0		G	53911737	G	G	53911737	2	3	122	1	0	0	0	0	0	0	0	1	217	330	12	3		3	ACTR8	3	53911737	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1374316	53911737	144110693	218	67221											
C3orf63	23272	broad.mit.edu	37	chr3	56667826	56667826	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcacacactgctcctccAcctgacctgtcaacacgtca	9	8	6	18	1	2	1	2	1	0	0	4	1	4	1	4	1	2	2	4	1	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:56667826A>G	uc003did.3	-	17	2911	c.2810T>C	c.(2809-2811)GTG>GCG	p.V937A	C3orf63_uc003dib.3_Missense_Mutation_p.V56A|C3orf63_uc003dic.3_Missense_Mutation_p.V561A|C3orf63_uc003die.3_Missense_Mutation_p.V998A	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		CTGCTCCTCCACCTGACCTGT	0.493													8	48					0	0	1	0	0		G	56667826	G	G	56667826	3	3	122	1	0	0	0	0	1	0	0	0	2242	159	6	3	2107	3	C3orf63	3	56667826	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2756089	56667826	141354604	219	67222											
FLNB	2317	broad.mit.edu	37	chr3	58107205	58107205	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcccctacacagtggaggCctcgctgccaccagatccca	9	5	10	17	1	0	1	0	0	0	1	2	3	1	2	6	2	3	1	6	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:58107205C>A	uc003djj.2	+	20	3266	c.3101C>A	c.(3100-3102)GCC>GAC	p.A1034D	FLNB_uc010hne.2_Missense_Mutation_p.A1034D|FLNB_uc003djk.2_Missense_Mutation_p.A1034D|FLNB_uc010hnf.2_Missense_Mutation_p.A1034D|FLNB_uc003djl.2_Missense_Mutation_p.A865D|FLNB_uc003djm.2_Missense_Mutation_p.A865D	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1034	Filamin 8.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		ACAGTGGAGGCCTCGCTGCCA	0.562													21	170					1.28384e-07	1.4253e-07	1	1	0		A	58107205	A	A	58107205	3	1	122	1	0	0	0	0	1	0	0	0	5948	739	26	5	3179	5	FLNB	3	58107205	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1439379	58107205	139915225	220	67223											
ACOX2	8309	broad.mit.edu	37	chr3	58512309	58512309	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tagccatgtccgccacaggcCctgcggcacatctcagctcc	7	7	9	18	2	1	0	1	0	1	0	4	0	3	0	5	2	3	2	5	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:58512309C>A	uc003dkl.2	-	10	1405	c.1230G>T	c.(1228-1230)AGG>AGT	p.R410S		NM_003500	NP_003491	Q99424	ACOX2_HUMAN	acyl-Coenzyme A oxidase 2	410					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3alpha,7alpha,12alpha-trihydroxy-5beta-cholestanoyl-CoA 24-hydroxylase activity|acyl-CoA dehydrogenase activity|pristanoyl-CoA oxidase activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000194)|Kidney(10;0.00255)|KIRC - Kidney renal clear cell carcinoma(10;0.00268)|OV - Ovarian serous cystadenocarcinoma(275;0.156)		CGCCACAGGCCCTGCGGCACA	0.587													8	58					1.12685e-05	1.21283e-05	1	1	0		A	58512309	A	A	58512309	3	1	122	1	0	0	0	0	1	0	0	0	159	622	22	5	839	5	ACOX2	3	58512309	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	405104	58512309	139510121	221	67224											
FEZF2	55079	broad.mit.edu	37	chr3	62357249	62357249	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagagcgtgctggcctGgcgaaagcctttgccgcaga	7	7	14	13	3	0	2	0	0	0	2	0	3	0	2	4	2	5	3	4	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:62357249G>T	uc003dlh.2	-	2	1153	c.946C>A	c.(946-948)CAG>AAG	p.Q316K	FEZF2_uc003dli.2_Missense_Mutation_p.Q316K	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	316	C2H2-type 2.				transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		GTGCTGGCCTGGCGAAAGCCT	0.592													15	83					2.31682e-05	2.47803e-05	1	1	0		T	62357249	T	T	62357249	3	4	122	1	0	0	0	0	1	0	0	0	5840	1357	47	5	445	5	FEZF2	3	62357249	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3844940	62357249	135665181	222	67225											
CNTN3	5067	broad.mit.edu	37	chr3	74474046	74474046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaactccctggccttcaCgcacagacactgtactcctc	9	8	6	18	1	1	1	1	0	0	1	4	1	3	1	3	1	2	3	3	1	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:74474046C>T	uc003dpm.1	-	4	484	c.404G>A	c.(403-405)CGT>CAT	p.R135H		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	135	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		CTGGCCTTCACGCACAGACAC	0.398													4	35					0	0	1	0	0		T	74474046	T	T	74474046	3	4	122	1	0	0	0	0	1	0	0	0	3645	536	19	1	2758	1	CNTN3	3	74474046	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	12116797	74474046	123548384	223	67226											
ROBO1	6091	broad.mit.edu	37	chr3	78655965	78655965	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccgtcattttgctgttcCtgtgcttctctgggatcacc	3	17	8	13	1	3	0	2	0	1	0	6	1	5	1	3	1	2	3	3	1	0	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:78655965C>A	uc003dqe.2	-	29	4870	c.4662G>T	c.(4660-4662)CAG>CAT	p.Q1554H	ROBO1_uc003dqb.2_Missense_Mutation_p.Q1515H|ROBO1_uc003dqc.2_Missense_Mutation_p.Q1454H|ROBO1_uc003dqd.2_Missense_Mutation_p.Q1509H|ROBO1_uc010hoh.2_Missense_Mutation_p.Q746H|ROBO1_uc011bgl.1_Missense_Mutation_p.Q1126H	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1554	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TTTGCTGTTCCTGTGCTTCTC	0.478													89	451					7.49063e-41	8.83983e-41	1	1	0		A	78655965	A	A	78655965	3	1	122	1	0	0	0	0	1	0	0	0	13538	680	24	5	305	5	ROBO1	3	78655965	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	4181919	78655965	119366465	224	67227											
PROS1	5627	broad.mit.edu	37	chr3	93605341	93605341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actatgttctaattcttccaCagacacctacaattaaaaag	16	12	3	10	0	2	1	0	0	2	1	3	1	3	1	2	0	1	1	2	0	7	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:93605341C>T	uc003drb.3	-	11	1503	c.1162G>A	c.(1162-1164)GTG>ATG	p.V388M	PROS1_uc010hoo.2_Missense_Mutation_p.V257M|PROS1_uc003dqz.3_Missense_Mutation_p.V257M	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	388	Laminin G-like 1.				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	AATTCTTCCACAGACACCTAC	0.299													11	100					0	0	1	0	0		T	93605341	T	T	93605341	3	4	122	1	0	0	0	0	1	0	0	0	12580	478	17	4	888	4	PROS1	3	93605341	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	14949376	93605341	104417089	225	67228											
ATP6V1A	523	broad.mit.edu	37	chr3	113503220	113503220	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagcatctacatccccagaGgagtaaacgtgtctgctctt	12	10	8	11	1	3	1	0	0	3	1	4	2	4	2	2	1	4	3	2	1	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:113503220G>T	uc003eao.2	+	4	427	c.361G>T	c.(361-363)GGA>TGA	p.G121*	ATP6V1A_uc011bik.1_Nonsense_Mutation_p.G88*	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	121					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						CATCCCCAGAGGAGTAAACGT	0.428													17	99					3.99206e-14	4.63806e-14	1	1	0		T	113503220	T	T	113503220	4	4	122	1	0	0	0	0	0	1	0	0	1178	1001	35	5	371	5	ATP6V1A	3	113503220	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	19897879	113503220	84519210	226	67229											
KIAA1407	57577	broad.mit.edu	37	chr3	113761605	113761605	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggcataatagtgacactTgacacagtgtttttagcatc	11	13	8	9	1	0	2	0	2	0	0	2	2	1	2	1	1	1	3	1	1	3	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:113761605T>C	uc003eax.2	-	4	507	c.360A>G	c.(358-360)TCA>TCG	p.S120S	KIAA1407_uc011bin.1_RNA|KIAA1407_uc011bio.1_Silent_p.S98S|KIAA1407_uc011bip.1_Silent_p.S107S	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	120										ovary(2)	2						TAGTGACACTTGACACAGTGT	0.378													14	84					0	0	1	0	0		C	113761605	C	C	113761605	2	2	122	1	0	0	0	0	0	0	0	1	8245	1799	63	3		3	KIAA1407	3	113761605	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	258385	113761605	84260825	227	67230											
DRD3	1814	broad.mit.edu	37	chr3	113866314	113866314	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacacagcaaaggccagtacCcagacggccgtgatcatgag	13	4	12	12	2	1	3	1	2	0	1	1	4	1	3	3	2	2	2	3	2	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:113866314C>T	uc003ebd.2	-	5	897	c.474G>A	c.(472-474)TGG>TGA	p.W158*	DRD3_uc010hqn.1_Nonsense_Mutation_p.W158*|DRD3_uc003ebb.1_Nonsense_Mutation_p.W158*|DRD3_uc003ebc.1_Nonsense_Mutation_p.W158*	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	158	Helical; Name=4.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	AGGCCAGTACCCAGACGGCCG	0.542													14	91					0	0	1	0	0		T	113866314	T	T	113866314	4	4	122	1	0	0	0	0	0	1	0	0	4764	624	22	4	744	4	DRD3	3	113866314	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	104709	113866314	84156116	228	67231											
STXBP5L	9515	broad.mit.edu	37	chr3	120976118	120976118	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccttcttcaaggagtctTtctgggagcactaacactgt	8	14	8	11	0	4	0	1	0	3	0	5	2	5	2	1	2	2	1	1	2	2	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:120976118T>G	uc003eec.3	+	17	1910	c.1770T>G	c.(1768-1770)CTT>CTG	p.L590L	STXBP5L_uc011bji.1_Silent_p.L590L	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	590	WD 9.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		CAAGGAGTCTTTCTGGGAGCA	0.403													13	91					0	0	1	0	0		G	120976118	G	G	120976118	2	3	122	1	0	0	0	0	0	0	0	1	15382	1828	64	5		5	STXBP5L	3	120976118	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	7109804	120976118	77046312	229	67232											
FBXO40	51725	broad.mit.edu	37	chr3	121345701	121345701	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagccccgtgagcaggccCgagagagcttagtctccacc	8	6	12	15	2	2	2	1	1	1	1	3	4	2	2	5	1	3	2	5	1	1	1	rs146248987	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:121345701C>T	uc003eeg.2	+	4	2284	c.2074C>T	c.(2074-2076)CGA>TGA	p.R692*		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	692					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		TGAGCAGGCCCGAGAGAGCTT	0.488													14	78					0	0	1	0	0		T	121345701	T	T	121345701	4	4	122	1	0	0	0	0	0	1	0	0	5763	644	23	1	2084	1	FBXO40	3	121345701	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	369583	121345701	76676729	230	67233											
ADCY5	111	broad.mit.edu	37	chr3	123010154	123010154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgagcggccacgtccttggGcaggatgttgtgcagcagcc	6	8	16	11	2	0	1	0	1	0	0	1	2	1	2	3	3	4	4	3	3	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:123010154G>A	uc003egh.1	-	18	3133	c.3133C>T	c.(3133-3135)CCC>TCC	p.P1045S	ADCY5_uc003egg.1_Missense_Mutation_p.P703S	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	1045	Cytoplasmic (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		ACGTCCTTGGGCAGGATGTTG	0.592													16	66					0	0	1	0	0		A	123010154	A	A	123010154	3	1	122	1	0	0	0	0	1	0	0	0	297	1203	42	2	668	2	ADCY5	3	123010154	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1664453	123010154	75012276	231	67234											
MYLK	4638	broad.mit.edu	37	chr3	123356957	123356957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgatgctccacatgtctgtgGcgtagccgatgggctcatag	7	10	13	11	3	2	0	1	0	1	0	3	2	3	0	2	2	2	3	2	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:123356957G>A	uc003ego.2	-	29	5204	c.4922C>T	c.(4921-4923)GCC>GTC	p.A1641V	MYLK_uc010hrr.2_Missense_Mutation_p.A76V|MYLK_uc011bjv.1_Missense_Mutation_p.A441V|MYLK_uc011bjw.1_Missense_Mutation_p.A1641V|MYLK_uc003egp.2_Missense_Mutation_p.A1572V|MYLK_uc003egq.2_Missense_Mutation_p.A1641V|MYLK_uc003egr.2_Missense_Mutation_p.A1572V|MYLK_uc003egs.2_Missense_Mutation_p.A1465V	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1641	Protein kinase.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CATGTCTGTGGCGTAGCCGAT	0.572													10	48					0	0	1	0	0		A	123356957	A	A	123356957	3	1	122	1	0	0	0	0	1	0	0	0	10074	1203	42	2	846	2	MYLK	3	123356957	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	346803	123356957	74665473	232	67235											
MCM2	4171	broad.mit.edu	37	chr3	127327751	127327751	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccctgtctttgccactgTcatcctagccaaccacgtgg	6	12	7	16	1	2	0	1	0	1	0	4	0	4	0	5	1	3	0	5	1	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:127327751T>A	uc003ejp.2	+	8	1370	c.1313T>A	c.(1312-1314)GTC>GAC	p.V438D	MCM2_uc011bkm.1_Missense_Mutation_p.V308D|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.V322D	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	438					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						TTTGCCACTGTCATCCTAGCC	0.522													29	153					0	0	1	0	0		A	127327751	A	A	127327751	3	1	122	1	0	0	0	0	1	0	0	0	9404	1667	58	5	1343	5	MCM2	3	127327751	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	3970794	127327751	70694679	233	67236											
GP9	2815	broad.mit.edu	37	chr3	128780678	128780678	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccgcgccctggaaaccatGgggctgtgggtggactgcag	6	7	17	11	2	0	0	0	0	0	0	0	2	0	2	3	5	3	2	3	5	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:128780678G>T	uc003elm.2	+	3	283	c.96G>T	c.(94-96)ATG>ATT	p.M32I		NM_000174	NP_000165	P14770	GPIX_HUMAN	glycoprotein IX (platelet) precursor	32	Extracellular (Potential).|LRRNT.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane	protein binding				0					Quinine(DB00468)	TGGAAACCATGGGGCTGTGGG	0.697													6	18					0.217242	0.217787	1	1	0		T	128780678	T	T	128780678	3	4	122	1	0	0	0	0	1	0	0	0	6600	1348	47	5	98	5	GP9	3	128780678	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1452927	128780678	69241752	234	67237											
PLXND1	23129	broad.mit.edu	37	chr3	129324661	129324661	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcacgaagcccagcttgtgCtgctccttggcgccctgctt	4	11	10	16	2	1	0	1	0	0	0	2	1	2	0	3	1	5	4	3	1	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:129324661C>T	uc003emx.2	-	1	922	c.822G>A	c.(820-822)CAG>CAA	p.Q274Q		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	274	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						CCAGCTTGTGCTGCTCCTTGG	0.677													4	13					0	0	1	0	0		T	129324661	T	T	129324661	2	4	122	1	0	0	0	0	0	0	0	1	12146	796	28	2		2	PLXND1	3	129324661	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	543983	129324661	68697769	235	67238											
COL6A6	131873	broad.mit.edu	37	chr3	130290188	130290188	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagacttttggaggtctgaaGggaatattttcagatgtgac	11	13	13	4	0	2	4	1	2	1	2	2	7	2	6	0	3	0	0	0	3	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:130290188G>A	uc010htl.2	+	6	2959	c.2928G>A	c.(2926-2928)AAG>AAA	p.K976K		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	976	VWFA 5.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GAGGTCTGAAGGGAATATTTT	0.453													7	39					0	0	1	0	0		A	130290188	A	A	130290188	2	1	122	1	0	0	0	0	0	0	0	1	3706	991	35	4		4	COL6A6	3	130290188	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	965527	130290188	67732242	236	67239											
PPP2R3A	5523	broad.mit.edu	37	chr3	135720391	135720391	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgtgaaccactacagcagCgtggtgatagaccggcgttt	10	9	12	10	3	0	3	0	2	0	1	0	3	0	3	2	2	4	2	2	2	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:135720391C>T	uc003eqv.1	+	2	616	c.51C>T	c.(49-51)AGC>AGT	p.S17S	PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	17					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						ACTACAGCAGCGTGGTGATAG	0.438													19	153					0	0	1	0	0		T	135720391	T	T	135720391	2	4	122	1	0	0	0	0	0	0	0	1	12410	767	27	1		1	PPP2R3A	3	135720391	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5430203	135720391	62302039	237	67240											
MSL2	55167	broad.mit.edu	37	chr3	135870603	135870603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttgctctcccgtttcaCtgtcacaggagcagatgccc	8	12	8	13	1	3	1	2	0	1	1	4	2	3	2	2	1	3	3	2	1	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:135870603C>T	uc003eqx.1	-	2	1853	c.1120G>A	c.(1120-1122)GTG>ATG	p.V374M	MSL2_uc011bmb.1_Missense_Mutation_p.V300M	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	374					histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						TCCCGTTTCACTGTCACAGGA	0.438													15	72					0	0	1	0	0		T	135870603	T	T	135870603	3	4	122	1	0	0	0	0	1	0	0	0	9896	565	20	4	617	4	MSL2	3	135870603	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	150212	135870603	62151827	238	67241											
PAQR9	344838	broad.mit.edu	37	chr3	142681687	142681687	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaccgtgctgccgaagccGtagtagctgatggacgcgta	8	7	14	12	5	0	1	0	1	0	0	0	3	0	2	4	1	4	5	4	1	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:142681687G>A	uc003evg.2	-	1	492	c.492C>T	c.(490-492)TAC>TAT	p.Y164Y	PAQR9_uc003evf.1_5'Flank	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	164	Helical; (Potential).					integral to membrane	receptor activity				0						TGCCGAAGCCGTAGTAGCTGA	0.612													4	32					0	0	1	0	0		A	142681687	A	A	142681687	2	1	122	1	0	0	0	0	0	0	0	1	11461	1140	40	1		1	PAQR9	3	142681687	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	6811084	142681687	55340743	239	67242											
ZIC1	7545	broad.mit.edu	37	chr3	147128165	147128165	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgggccacgtcggctcctAttccagcgcagccttcaact	6	8	9	18	4	1	0	1	0	0	0	4	0	3	0	5	2	3	2	5	2	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:147128165A>C	uc003ewe.2	+	1	985	c.266A>C	c.(265-267)TAT>TCT	p.Y89S		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	89					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GTCGGCTCCTATTCCAGCGCA	0.692													7	41					0	0	1	0	0		C	147128165	C	C	147128165	3	2	122	1	0	0	0	0	1	0	0	0	17703	449	16	5	268	5	ZIC1	3	147128165	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	4446478	147128165	50894265	240	67243											
IGSF10	285313	broad.mit.edu	37	chr3	151165673	151165673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccatcagagcagatgtaCggagttgtgcacctggtggc	8	9	13	11	1	1	2	1	0	0	2	2	3	2	3	3	3	3	4	3	3	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:151165673C>T	uc011bod.1	-	4	2096	c.2096G>A	c.(2095-2097)CGT>CAT	p.R699H		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	699					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AGCAGATGTACGGAGTTGTGC	0.498													4	60					0	0	1	0	0		T	151165673	T	T	151165673	3	4	122	1	0	0	0	0	1	0	0	0	7613	536	19	1	5835	1	IGSF10	3	151165673	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	4037508	151165673	46856757	241	67244											
SLC7A14	57709	broad.mit.edu	37	chr3	170244705	170244705	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcacccgccgggggtccagCgaggtgaagaagccactcat	9	5	14	13	3	1	2	1	1	0	1	2	3	2	2	4	3	3	1	4	3	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:170244705C>T	uc003fgz.2	-	2	337	c.21G>A	c.(19-21)TCG>TCA	p.S7S	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	7						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			GGGGGTCCAGCGAGGTGAAGA	0.572													5	22					0	0	1	0	0		T	170244705	T	T	170244705	2	4	122	1	0	0	0	0	0	0	0	1	14721	755	27	1		1	SLC7A14	3	170244705	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	19079032	170244705	27777725	242	67245											
ZMAT3	64393	broad.mit.edu	37	chr3	178785312	178785312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcagagttcaaggtgaCattgcagagtttgcagtaca	11	11	12	7	0	1	3	1	1	0	2	1	3	1	3	0	1	4	6	0	1	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:178785312C>T	uc003fjg.2	-	2	488	c.229G>A	c.(229-231)GTC>ATC	p.V77I	ZMAT3_uc010hxa.2_Missense_Mutation_p.V77I|ZMAT3_uc003fji.2_Missense_Mutation_p.V77I	NM_022470	NP_071915	Q9HA38	ZMAT3_HUMAN	p53 target zinc finger protein isoform 1	77	Matrin-type 1.				apoptosis|protein transport|regulation of growth|response to DNA damage stimulus|transmembrane transport	nucleolus	RNA binding|zinc ion binding			ovary(2)	2	all_cancers(143;3.31e-18)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;6.74e-27)|GBM - Glioblastoma multiforme(14;0.00448)|BRCA - Breast invasive adenocarcinoma(182;0.0527)			TTCAAGGTGACATTGCAGAGT	0.507													17	147					0	0	1	0	0		T	178785312	T	T	178785312	3	4	122	1	0	0	0	0	1	0	0	0	17718	478	17	4	660	4	ZMAT3	3	178785312	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	8540607	178785312	19237118	243	67246											
PIK3CA	5290	broad.mit.edu	37	chr3	178952085	178952085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacaaatgaatgatgcacAtcatggtggctggacaacaa	17	7	10	7	0	1	2	1	2	0	0	1	4	1	3	0	3	3	2	0	3	5	0	rs121913279		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:178952085A>G	uc003fjk.2	+	21	3297	c.3140A>G	c.(3139-3141)CAT>CGT	p.H1047R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1047	PI3K/PI4K.		H -> L (in cancer).|H -> R (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; requires binding to p85 regulatory subunit to induce cellular transformation but not interaction with RAS; may mimic the conformatitonal change triggered by the interaction with RAS; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells; increases lipid kinase activity; may alter the interaction of the PI3K/ PI4K kinase domain with the cell membrane).|H -> Y (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.H1047R(1269)|p.H1047L(152)|p.H1047Y(31)|p.H1047Q(3)|p.H1047T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AATGATGCACATCATGGTGGC	0.378	H1047R(BT20_BREAST)|H1047R(NCIH1048_LUNG)|H1047R(MCAS_OVARY)|H1047R(HCC1954_BREAST)|H1047R(RKO_LARGE_INTESTINE)|H1047L(EFM19_BREAST)|H1047R(CAL33_UPPER_AERODIGESTIVE_TRACT)|H1047R(CAL29_URINARY_TRACT)|H1047R(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|H1047R(LS180_LARGE_INTESTINE)|H1047R(T47D_BREAST)|H1047R(HCT116_LARGE_INTESTINE)|H1047R(HSC2_UPPER_AERODIGESTIVE_TRACT)|H1047R(SKOV3_OVARY)|H1047R(MDAMB453_BREAST)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			8	83					0	0	1	0	0		G	178952085	G	G	178952085	3	3	122	1	0	0	0	0	1	0	0	0	11932	217	8	3	3218	3	PIK3CA	3	178952085	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	166773	178952085	19070345	244	67247											
CHRD	8646	broad.mit.edu	37	chr3	184104636	184104636	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctcctctctgcagagaCgaacggtgatctgtgacccg	7	10	11	13	3	3	3	0	2	3	1	5	5	4	3	2	1	3	2	2	1	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:184104636C>T	uc003fov.2	+	17	2446	c.2200C>T	c.(2200-2202)CGA>TGA	p.R734*	CHRD_uc003fow.2_Nonsense_Mutation_p.R364*|CHRD_uc003fox.2_Nonsense_Mutation_p.R734*|CHRD_uc003foy.2_Nonsense_Mutation_p.R364*|CHRD_uc010hyc.2_Nonsense_Mutation_p.R324*|CHRD_uc011brr.1_Nonsense_Mutation_p.R276*	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	734	VWFC 2.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCTGCAGAGACGAACGGTGAT	0.657													8	56					0	0	1	0	0		T	184104636	T	T	184104636	4	4	122	1	0	0	0	0	0	1	0	0	3375	528	19	1	2266	1	CHRD	3	184104636	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5152551	184104636	13917794	245	67248											
IGF2BP2	10644	broad.mit.edu	37	chr3	185367313	185367313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagtttcccaaagatccGtccctgggcctgagagagca	9	10	10	12	1	1	3	1	1	0	2	4	4	4	3	4	1	1	2	4	1	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:185367313G>A	uc003fpo.2	-	14	1550	c.1471C>T	c.(1471-1473)CGG>TGG	p.R491W	IGF2BP2_uc010hyi.2_Missense_Mutation_p.R434W|IGF2BP2_uc010hyj.2_Missense_Mutation_p.R428W|IGF2BP2_uc010hyk.2_Missense_Mutation_p.R355W|IGF2BP2_uc010hyl.2_Missense_Mutation_p.R385W|IGF2BP2_uc003fpp.2_Missense_Mutation_p.R448W|IGF2BP2_uc003fpq.2_Missense_Mutation_p.R496W	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	491	KH 3.				anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			CCAAAGATCCGTCCCTGGGCC	0.532													18	81					0	0	1	0	0		A	185367313	A	A	185367313	3	1	122	1	0	0	0	0	1	0	0	0	7590	1144	40	1	340	1	IGF2BP2	3	185367313	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1262677	185367313	12655117	246	67249											
RTP1	132112	broad.mit.edu	37	chr3	186915332	186915332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttagaccgtggagactgcGctgccctgccctgcacctac	6	10	10	15	2	0	2	0	0	0	2	0	3	0	2	4	1	5	2	4	1	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:186915332G>A	uc003frg.2	+	1	59	c.29G>A	c.(28-30)CGC>CAC	p.R10H		NM_153708	NP_714919	P59025	RTP1_HUMAN	receptor transporting protein 1	10	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding			ovary(2)|breast(1)	3	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		TGGAGACTGCGCTGCCCTGCC	0.552													16	108					0	0	1	0	0		A	186915332	A	A	186915332	3	1	122	1	0	0	0	0	1	0	0	0	13758	1087	38	1	31	1	RTP1	3	186915332	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1548019	186915332	11107098	247	67250											
CLDN1	9076	broad.mit.edu	37	chr3	190030735	190030735	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtcttccaagcacttcAtacacttcatgccaacggtg	10	11	6	14	2	3	0	2	0	1	0	5	0	4	0	2	1	4	1	2	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:190030735A>G	uc003fsh.2	-	2	534	c.314T>C	c.(313-315)ATG>ACG	p.M105T		NM_021101	NP_066924	O95832	CLD1_HUMAN	claudin 1	105	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|interspecies interaction between organisms	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity			lung(1)	1	all_cancers(143;2.95e-10)|Ovarian(172;0.0512)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.015)		CAAGCACTTCATACACTTCAT	0.517													36	246					0	0	1	0	0		G	190030735	G	G	190030735	3	3	122	1	0	0	0	0	1	0	0	0	3474	217	8	3	333	3	CLDN1	3	190030735	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	3115403	190030735	7991695	248	67251											
RNF168	165918	broad.mit.edu	37	chr3	196198765	196198765	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtagggagtgagcacttttGgataccttacagtgatctct	9	14	11	7	0	1	2	0	2	1	0	2	4	1	4	1	2	3	2	1	2	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr3:196198765G>A	uc003fwq.2	-	6	2179	c.1641C>T	c.(1639-1641)TCC>TCT	p.S547S	RNF168_uc010iah.2_Silent_p.S380S|uc010iag.1_5'Flank	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	547					double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		GAGCACTTTTGGATACCTTAC	0.403													34	153					0	0	1	0	0		A	196198765	A	A	196198765	2	1	122	1	0	0	0	0	0	0	0	1	13484	1335	47	4		4	RNF168	3	196198765	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	6168030	196198765	1823665	249	67252											
KIAA1530	57654	broad.mit.edu	37	chr4	1345607	1345607	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagaaagagccagccaggcGgagagggagatgcaaggcaa	16	1	16	8	1	0	4	0	0	0	4	0	6	0	4	2	4	3	2	2	4	4	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:1345607G>A	uc003gde.3	+	4	981	c.534G>A	c.(532-534)GCG>GCA	p.A178A		NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	178	Potential.										0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			CCAGCCAGGCGGAGAGGGAGA	0.562											OREG0016033	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	75					0	0	1	0	0		A	1345607	A	A	1345607	2	1	122	1	0	0	0	0	0	0	0	1	8257	1103	39	1		1	KIAA1530	4	1345607	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08		1345607	189808669	250	67253											
LETM1	3954	broad.mit.edu	37	chr4	1843476	1843476	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgaggtgatcgcctctggaGgatgtgtacacagggtggat	8	9	16	8	2	1	1	0	1	1	0	2	5	1	4	2	5	1	1	2	5	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:1843476G>T	uc003gdv.2	-	3	489	c.192C>A	c.(190-192)TCC>TCA	p.S64S	LETM1_uc010icc.2_5'Flank|LETM1_uc011bvg.1_Silent_p.S64S	NM_012318	NP_036450	O95202	LETM1_HUMAN	leucine zipper-EF-hand containing transmembrane	64					cristae formation	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			central_nervous_system(1)	1			all cancers(2;0.00756)|OV - Ovarian serous cystadenocarcinoma(23;0.00989)|Epithelial(3;0.0141)			CGCCTCTGGAGGATGTGTACA	0.547													5	39					0.000602214	0.00062842	1	1	0		T	1843476	T	T	1843476	2	4	122	1	0	0	0	0	0	0	0	1	8750	987	35	5		5	LETM1	4	1843476	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	497869	1843476	189310800	251	67254											
RGS12	6002	broad.mit.edu	37	chr4	3424244	3424244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctgtccggactctgtgagCggcatggcatcaacggggcg	6	8	15	12	4	2	1	1	1	1	0	4	2	4	2	2	5	2	2	2	5	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:3424244C>T	uc003ggw.2	+	11	3884	c.2980C>T	c.(2980-2982)CGG>TGG	p.R994W	RGS12_uc003ggv.2_Missense_Mutation_p.R994W|RGS12_uc003ggy.1_Missense_Mutation_p.R392W|RGS12_uc003ggz.2_Missense_Mutation_p.R346W|RGS12_uc010icu.1_Missense_Mutation_p.R193W|RGS12_uc011bvs.1_Missense_Mutation_p.R336W|RGS12_uc003gha.2_Missense_Mutation_p.R336W|RGS12_uc010icv.2_Missense_Mutation_p.R193W|RGS12_uc003ghb.2_Missense_Mutation_p.R193W	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	994	RBD 1.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		ACTCTGTGAGCGGCATGGCAT	0.647													12	51					0	0	1	0	0		T	3424244	T	T	3424244	3	4	122	1	0	0	0	0	1	0	0	0	13320	759	27	1	3076	1	RGS12	4	3424244	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1580768	3424244	187730032	252	67255											
EVC2	132884	broad.mit.edu	37	chr4	5667369	5667369	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgtggaggccgtggtgcGgcagaacctgtggagacaag	8	6	18	9	3	0	2	0	0	0	2	0	4	0	3	2	5	3	1	2	5	2	0	rs138882677		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:5667369G>T	uc003gij.2	-	8	932	c.878C>A	c.(877-879)CCG>CAG	p.P293Q	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Missense_Mutation_p.P213Q	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	293						integral to membrane				large_intestine(3)|ovary(2)	5						GCCGTGGTGCGGCAGAACCTG	0.507													5	36					1.23904e-05	1.33238e-05	1	1	0		T	5667369	T	T	5667369	3	4	122	1	0	0	0	0	1	0	0	0	5294	1116	39	5	3108	5	EVC2	4	5667369	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2243125	5667369	185486907	253	67256											
MAN2B2	23324	broad.mit.edu	37	chr4	6580170	6580170	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatttgtcatcggaggccaGgtcatgcatgacgaggctgt	9	10	14	8	2	2	1	2	1	0	0	3	4	2	2	1	4	1	2	1	4	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:6580170G>A	uc003gjf.1	+	3	372	c.336G>A	c.(334-336)CAG>CAA	p.Q112Q	MAN2B2_uc003gje.1_Silent_p.Q112Q|MAN2B2_uc011bwf.1_Silent_p.Q112Q	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	112					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						TCGGAGGCCAGGTCATGCATG	0.592													8	41					0	0	1	0	0		A	6580170	A	A	6580170	2	1	122	1	0	0	0	0	0	0	0	1	9235	991	35	4		4	MAN2B2	4	6580170	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	912801	6580170	184574106	254	67257											
C4orf23	152992	broad.mit.edu	37	chr4	8465746	8465746	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaatgataagaccctttTccctgatgttgattggttaa	11	14	7	9	0	0	4	0	3	0	1	1	4	1	4	3	1	0	2	3	1	3	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:8465746T>C	uc003glg.1	+	7	739	c.551T>C	c.(550-552)TTC>TCC	p.F184S	C4orf23_uc003glf.1_Missense_Mutation_p.F172S|C4orf23_uc003glh.1_Missense_Mutation_p.F21S	NM_152544	NP_689757	Q8IYL2	TRM44_HUMAN	hypothetical protein LOC152992 isoform 2	413					tRNA processing	cytoplasm	methyltransferase activity|nucleic acid binding|zinc ion binding				0						AAGACCCTTTTCCCTGATGTT	0.423													18	122					0	0	1	0	0		C	8465746	C	C	8465746	3	2	122	1	0	0	0	0	1	0	0	0	2259	1783	62	3	1264	3	C4orf23	4	8465746	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1885576	8465746	182688530	255	67258											
NCAPG	64151	broad.mit.edu	37	chr4	17827008	17827008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttatatcttcccttagatgGctgaaataaaagttaagctt	13	16	6	6	0	1	2	0	1	1	1	2	2	2	2	1	1	1	3	1	1	7	8			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:17827008G>A	uc003gpp.2	+	11	1653	c.1477G>A	c.(1477-1479)GCT>ACT	p.A493T	NCAPG_uc011bxj.1_Missense_Mutation_p.A2T	NM_022346	NP_071741	Q9BPX3	CND3_HUMAN	chromosome condensation protein G	493					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	protein binding			large_intestine(1)	1				STAD - Stomach adenocarcinoma(129;0.18)		CCCTTAGATGGCTGAAATAAA	0.313													8	52					0	0	1	0	0		A	17827008	A	A	17827008	3	1	122	1	0	0	0	0	1	0	0	0	10226	1203	42	2	1519	2	NCAPG	4	17827008	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	9361262	17827008	173327268	256	67259											
PPARGC1A	10891	broad.mit.edu	37	chr4	23830112	23830112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttctgttctctgtgggtttgGtgtgaggagggtcatcgttt	3	18	15	5	1	3	1	1	1	2	0	5	2	3	2	0	4	0	3	0	4	0	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:23830112G>A	uc003gqs.2	-	5	788	c.668C>T	c.(667-669)ACC>ATC	p.T223I	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	223					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				TGTGGGTTTGGTGTGAGGAGG	0.483													33	155					0	0	1	0	0		A	23830112	A	A	23830112	3	1	122	1	0	0	0	0	1	0	0	0	12319	1261	44	4	1764	4	PPARGC1A	4	23830112	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	6003104	23830112	167324164	257	67260											
LGI2	55203	broad.mit.edu	37	chr4	25020788	25020788	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaactaaatttcattacttaCagttcaatcagagagtctaa	17	13	4	7	0	4	1	3	0	1	1	4	2	4	1	0	0	3	1	0	0	7	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:25020788C>T	uc003grf.2	-	5	584	c.485_splice	c.e5+1	p.L162_splice		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2							extracellular region					0		Breast(46;0.173)				TCATTACTTACAGTTCAATCA	0.363													12	81					0	0	1	0	0		T	25020788	T	T	25020788	5	4	122	1	0	0	0	0	0	0	1	0	8768	492	17	4	1167	4	LGI2	4	25020788	Splice_Site	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1190676	25020788	166133488	258	67261											
SLC34A2	10568	broad.mit.edu	37	chr4	25677886	25677886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagtatcgctggttcgccGtcttctacctgatcatcttc	6	14	7	14	3	4	1	1	1	3	0	7	1	4	1	3	1	1	3	3	1	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:25677886G>A	uc003grr.2	+	13	1669	c.1588G>A	c.(1588-1590)GTC>ATC	p.V530I	SLC34A2_uc003grs.2_Missense_Mutation_p.V529I|SLC34A2_uc010iev.2_Missense_Mutation_p.V529I	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	530	Helical; Name=M7; (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				CTGGTTCGCCGTCTTCTACCT	0.622													25	165					0	0	1	0	0		A	25677886	A	A	25677886	3	1	122	1	0	0	0	0	1	0	0	0	14593	1145	40	1	1634	1	SLC34A2	4	25677886	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	657098	25677886	165476390	259	67262											
PCDH7	5099	broad.mit.edu	37	chr4	30724462	30724462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcccttccagctcaagccagCcagcgacaccgagggcgacc	9	3	11	18	3	1	0	1	0	0	0	2	3	2	0	6	1	4	1	6	1	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:30724462C>T	uc003gsk.1	+	1	2426	c.1418C>T	c.(1417-1419)GCC>GTC	p.A473V	PCDH7_uc011bxw.1_Missense_Mutation_p.A426V|PCDH7_uc011bxx.1_Missense_Mutation_p.A473V	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	473	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						CTCAAGCCAGCCAGCGACACC	0.622													11	57					0	0	1	0	0		T	30724462	T	T	30724462	3	4	122	1	0	0	0	0	1	0	0	0	11535	739	26	2	1420	2	PCDH7	4	30724462	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5046576	30724462	160429814	260	67263											
LIMCH1	22998	broad.mit.edu	37	chr4	41621327	41621327	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcagtgccttttaaccagTacctcccgaacaaaagcaat	14	8	6	13	1	0	0	0	0	0	0	1	1	1	0	4	0	6	3	4	0	6	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:41621327T>C	uc003gvu.3	+	8	859	c.805T>C	c.(805-807)TAC>CAC	p.Y269H	LIMCH1_uc003gvt.1_Missense_Mutation_p.Y110H|LIMCH1_uc003gvv.3_Missense_Mutation_p.Y269H|LIMCH1_uc003gvw.3_Missense_Mutation_p.Y269H|LIMCH1_uc003gvx.3_Missense_Mutation_p.Y269H|LIMCH1_uc003gwe.3_Missense_Mutation_p.Y269H|LIMCH1_uc003gvy.3_Missense_Mutation_p.Y110H|LIMCH1_uc003gwa.3_Missense_Mutation_p.Y110H|LIMCH1_uc003gvz.3_Missense_Mutation_p.Y110H|LIMCH1_uc011byu.1_Missense_Mutation_p.Y115H|LIMCH1_uc003gwc.3_Missense_Mutation_p.Y115H|LIMCH1_uc003gwd.3_Missense_Mutation_p.Y115H|LIMCH1_uc011byv.1_Missense_Mutation_p.Y20H|LIMCH1_uc003gwb.1_Missense_Mutation_p.Y117H	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	269					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						TTTTAACCAGTACCTCCCGAA	0.547													22	162					0	0	1	0	0		C	41621327	C	C	41621327	3	2	122	1	0	0	0	0	1	0	0	0	8813	1638	57	3	863	3	LIMCH1	4	41621327	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	10896865	41621327	149532949	261	67264											
RASL11B	65997	broad.mit.edu	37	chr4	53728795	53728795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagatcgccgtggtgggcGccagcggcgtgggcaagacc	7	5	17	12	5	1	2	1	0	0	2	2	2	1	2	3	4	1	1	3	4	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:53728795G>A	uc003gzt.2	+	1	301	c.121G>A	c.(121-123)GCC>ACC	p.A41T		NM_023940	NP_076429	Q9BPW5	RSLBB_HUMAN	RAS-like family 11 member B	41	Small GTPase-like.|GTP (By similarity).				small GTPase mediated signal transduction	membrane	GTP binding|GTPase activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0302)			CGTGGTGGGCGCCAGCGGCGT	0.721													11	28					0	0	1	0	0		A	53728795	A	A	53728795	3	1	122	1	0	0	0	0	1	0	0	0	13107	1087	38	1	123	1	RASL11B	4	53728795	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	12107468	53728795	137425481	262	67265											
LPHN3	23284	broad.mit.edu	37	chr4	62453016	62453016	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgagagctatcctatagagCttcgctgtccaggaacagac	11	9	11	10	1	0	3	0	1	0	3	3	5	2	4	2	1	3	3	2	1	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:62453016C>A	uc010ihh.2	+	2	300	c.127C>A	c.(127-129)CTT>ATT	p.L43I	LPHN3_uc003hcq.3_Missense_Mutation_p.L43I|LPHN3_uc010ihg.1_Missense_Mutation_p.L111I	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	43	SUEL-type lectin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						TCCTATAGAGCTTCGCTGTCC	0.478													3	21					0.004672	0.00480011	1	1	0		A	62453016	A	A	62453016	3	1	122	1	0	0	0	0	1	0	0	0	8935	797	28	5	133	5	LPHN3	4	62453016	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	8724221	62453016	128701260	263	67266											
AFP	174	broad.mit.edu	37	chr4	74308075	74308075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctacaattcttctttgggCtgctcgctatgacaaaataa	12	13	6	10	1	2	1	0	1	2	0	3	1	2	1	1	1	2	3	1	1	6	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:74308075C>T	uc003hgz.1	+	5	592	c.545C>T	c.(544-546)GCT>GTT	p.A182V	AFP_uc003hha.1_Missense_Mutation_p.A182V|AFP_uc011cbg.1_5'UTR	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	182	Albumin 1.				transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CTTCTTTGGGCTGCTCGCTAT	0.378									Alpha-Fetoprotein_Hereditary_Persistence_of				10	42					0	0	1	0	0		T	74308075	T	T	74308075	3	4	122	1	0	0	0	0	1	0	0	0	363	797	28	2	563	2	AFP	4	74308075	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	11855059	74308075	116846201	264	67267											
PRDM8	56978	broad.mit.edu	37	chr4	81123123	81123123	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttccagtttgagttcccCtatgtggcgcatctgcgttt	4	16	10	11	3	1	1	0	1	1	0	3	1	3	1	3	1	1	5	3	1	1	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:81123123C>A	uc010ijo.2	+	8	1346	c.507C>A	c.(505-507)CCC>CCA	p.P169P	PRDM8_uc003hmb.3_Silent_p.P169P|PRDM8_uc003hmc.3_Silent_p.P169P	NM_020226	NP_064611	Q9NQV8	PRDM8_HUMAN	PR domain containing 8	169	C2H2-type 1; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TTGAGTTCCCCTATGTGGCGC	0.388											OREG0016246	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	196					1.17739e-12	1.36396e-12	1	1	0		A	81123123	A	A	81123123	2	1	122	1	0	0	0	0	0	0	0	1	12484	668	24	5		5	PRDM8	4	81123123	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	6815048	81123123	110031153	265	67268											
SMARCAD1	56916	broad.mit.edu	37	chr4	95185970	95185970	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgaacaaatgtgaagacaTttcaaataaattgaccaaac	20	10	5	6	0	1	4	1	3	0	1	1	4	1	4	1	0	2	0	1	0	8	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:95185970T>A	uc003htc.3	+	10	1649	c.1394T>A	c.(1393-1395)ATT>AAT	p.I465N	SMARCAD1_uc003htb.3_Missense_Mutation_p.I465N|SMARCAD1_uc003htd.3_Missense_Mutation_p.I465N|SMARCAD1_uc010ila.2_Missense_Mutation_p.I328N|SMARCAD1_uc011cdw.1_Missense_Mutation_p.I35N	NM_020159	NP_064544	Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated	465					chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		TGTGAAGACATTTCAAATAAA	0.348													9	84					0	0	1	0	0		A	95185970	A	A	95185970	3	1	122	1	0	0	0	0	1	0	0	0	14797	1493	52	5	1428	5	SMARCAD1	4	95185970	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	14062847	95185970	95968306	266	67269											
ADH5	128	broad.mit.edu	37	chr4	100003128	100003128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaagtattctccttacccGccttcagcttagtaactccc	8	14	4	15	1	3	0	2	0	1	0	5	0	4	0	4	0	3	3	4	0	5	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:100003128G>A	uc003hui.2	-	3	334	c.254C>T	c.(253-255)GCG>GTG	p.A85V	ADH5_uc003huk.1_Missense_Mutation_p.A85V|ADH5_uc003huj.2_5'UTR	NM_000671	NP_000662	P11766	ADHX_HUMAN	class III alcohol dehydrogenase, chi subunit	85					ethanol oxidation|response to redox state		alcohol dehydrogenase (NAD) activity|electron carrier activity|fatty acid binding|formaldehyde dehydrogenase activity|S-(hydroxymethyl)glutathione dehydrogenase activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;2.5e-07)	NADH(DB00157)	CTCCTTACCCGCCTTCAGCTT	0.408													4	31					0	0	1	0	0		A	100003128	A	A	100003128	3	1	122	1	0	0	0	0	1	0	0	0	311	1087	38	1	898	1	ADH5	4	100003128	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4817158	100003128	91151148	267	67270											
KIAA1109	84162	broad.mit.edu	37	chr4	123277081	123277081	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagagactatctttgcattAccaaggatgcagcttgactt	12	12	8	9	0	1	2	0	1	1	1	1	4	1	3	1	1	4	3	1	1	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:123277081A>G	uc003ieh.2	+	81	14481	c.14436A>G	c.(14434-14436)TTA>TTG	p.L4812L	KIAA1109_uc003iem.2_Silent_p.L1168L	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4812					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TCTTTGCATTACCAAGGATGC	0.363													10	82					0	0	1	0	0		G	123277081	G	G	123277081	2	3	122	1	0	0	0	0	0	0	0	1	8224	388	14	3		3	KIAA1109	4	123277081	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	23273953	123277081	67877195	268	67271											
BBS12	166379	broad.mit.edu	37	chr4	123664512	123664512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagataggaacaacagaatcGcaatcttattaaaaacagaa	21	8	6	6	1	1	3	0	0	1	3	2	4	1	4	0	1	3	1	0	1	11	4	rs145489987	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:123664512G>A	uc003ieu.2	+	2	1658	c.1465G>A	c.(1465-1467)GCA>ACA	p.A489T		NM_152618	NP_689831	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	489					cellular protein metabolic process	cilium	ATP binding			ovary(2)	2						CAACAGAATCGCAATCTTATT	0.438									Bardet-Biedl_syndrome				9	81					0	0	1	0	0		A	123664512	A	A	123664512	3	1	122	1	0	0	0	0	1	0	0	0	1338	1087	38	1	1467	1	BBS12	4	123664512	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	387431	123664512	67489764	269	67272											
FAT4	79633	broad.mit.edu	37	chr4	126241924	126241924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctgatgcagacattaatgGtcaactatcctacacaatca	14	10	5	12	0	2	2	2	1	0	1	3	2	3	2	2	1	3	1	2	1	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:126241924G>A	uc003ifj.3	+	1	4358	c.4358G>A	c.(4357-4359)GGT>GAT	p.G1453D		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1453	Cadherin 14.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.G1453G(1)		ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GACATTAATGGTCAACTATCC	0.398													16	140					0	0	1	0	0		A	126241924	A	A	126241924	3	1	122	1	0	0	0	0	1	0	0	0	5706	1261	44	4	4360	4	FAT4	4	126241924	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2577412	126241924	64912352	270	67273											
FAT4	79633	broad.mit.edu	37	chr4	126370814	126370814	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acttcctattatttagattgCcctgaacttactgagattgg	10	16	7	8	0	0	3	0	2	0	2	1	4	1	3	2	1	3	0	2	1	5	8			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:126370814C>T	uc003ifj.3	+	9	8643	c.8643C>T	c.(8641-8643)TGC>TGT	p.C2881C	FAT4_uc011cgp.1_Silent_p.C1179C|FAT4_uc003ifi.1_Silent_p.C359C	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2881	Cadherin 28.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ATTTAGATTGCCCTGAACTTA	0.373													23	124					0	0	1	0	0		T	126370814	T	T	126370814	2	4	122	1	0	0	0	0	0	0	0	1	5706	747	26	2		2	FAT4	4	126370814	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	128890	126370814	64783462	271	67274											
PLK4	10733	broad.mit.edu	37	chr4	128808580	128808580	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgtccaggaaaaactcCttttccatttgcagacccga	10	13	6	12	1	1	1	0	0	1	1	4	3	4	2	4	1	2	1	4	1	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:128808580C>T	uc003ifo.2	+	6	1633	c.1388C>T	c.(1387-1389)CCT>CTT	p.P463L	PLK4_uc011cgs.1_Missense_Mutation_p.P431L|PLK4_uc011cgt.1_Missense_Mutation_p.P422L	NM_014264	NP_055079	O00444	PLK4_HUMAN	polo-like kinase 4	463					G2/M transition of mitotic cell cycle|positive regulation of centriole replication|trophoblast giant cell differentiation	centriole|cleavage furrow|cytosol|nucleolus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						GGAAAAACTCCTTTTCCATTT	0.328													4	11					0	0	1	0	0		T	128808580	T	T	128808580	3	4	122	1	0	0	0	0	1	0	0	0	12117	681	24	4	1410	4	PLK4	4	128808580	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2437766	128808580	62345696	272	67275											
PHF17	79960	broad.mit.edu	37	chr4	129773269	129773269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctagaggaatttgagcagcGatgctacgacaatatgaatc	14	9	10	8	2	0	3	0	2	0	1	1	6	0	4	1	1	4	2	1	1	6	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:129773269G>A	uc003igk.2	+	6	822	c.542G>A	c.(541-543)CGA>CAA	p.R181Q	PHF17_uc003igj.2_Missense_Mutation_p.R181Q|PHF17_uc003igl.2_Missense_Mutation_p.R169Q|PHF17_uc011cgy.1_Missense_Mutation_p.R181Q|PHF17_uc003igm.2_Missense_Mutation_p.R181Q	NM_199320	NP_955352	Q6IE81	JADE1_HUMAN	PHD finger protein 17 long isoform	181					apoptosis|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell growth|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	histone acetyltransferase complex|mitochondrion	protein binding|zinc ion binding				0						TTTGAGCAGCGATGCTACGAC	0.428													5	87					0	0	1	0	0		A	129773269	A	A	129773269	3	1	122	1	0	0	0	0	1	0	0	0	11847	1058	37	1	560	1	PHF17	4	129773269	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	964689	129773269	61381007	273	67276											
PCDH10	57575	broad.mit.edu	37	chr4	134072703	134072703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccagccggtctacgacGtgtatgtgactgaaaacaac	12	8	10	11	3	2	2	1	2	1	0	2	3	2	2	2	1	5	1	2	1	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:134072703G>A	uc003iha.2	+	1	2234	c.1408G>A	c.(1408-1410)GTG>ATG	p.V470M	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.V470M	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	470	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GGTCTACGACGTGTATGTGAC	0.617													20	159					0	0	1	0	0		A	134072703	A	A	134072703	3	1	122	1	0	0	0	0	1	0	0	0	11526	1145	40	1	1410	1	PCDH10	4	134072703	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4299434	134072703	57081573	274	67277											
SLC10A7	84068	broad.mit.edu	37	chr4	147363969	147363969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctgaattaaatattgcaGctgcctatgaagaaaataaa	18	10	8	5	0	0	3	0	2	0	1	0	3	0	3	1	1	3	3	1	1	10	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:147363969G>A	uc010ioz.2	-	5	655	c.401C>T	c.(400-402)GCT>GTT	p.A134V	SLC10A7_uc003ikr.2_Missense_Mutation_p.A134V|SLC10A7_uc010ipa.2_Intron|SLC10A7_uc003iks.2_RNA|SLC10A7_uc003ikt.2_Missense_Mutation_p.A134V	NM_001029998	NP_001025169	Q0GE19	NTCP7_HUMAN	solute carrier family 10 (sodium/bile acid	134	Helical; (Potential).					integral to membrane	bile acid:sodium symporter activity				0	all_hematologic(180;0.151)					AAATATTGCAGCTGCCTATGA	0.299													4	25					0	0	1	0	0		A	147363969	A	A	147363969	3	1	122	1	0	0	0	0	1	0	0	0	14404	971	34	2	698	2	SLC10A7	4	147363969	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	13291266	147363969	43790307	275	67278											
NR3C2	4306	broad.mit.edu	37	chr4	149357499	149357499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcatgacgccaccattcaCggagctcccagagtcagaca	11	5	10	15	3	2	3	2	1	0	2	3	4	3	4	3	1	1	2	3	1	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:149357499C>T	uc003ilj.3	-	2	848	c.514G>A	c.(514-516)GTG>ATG	p.V172M	NR3C2_uc003ilk.3_Missense_Mutation_p.V172M|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	172	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	CCACCATTCACGGAGCTCCCA	0.483													15	135					0	0	1	0	0		T	149357499	T	T	149357499	3	4	122	1	0	0	0	0	1	0	0	0	10650	536	19	1	2472	1	NR3C2	4	149357499	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1993530	149357499	41796777	276	67279											
FGA	2243	broad.mit.edu	37	chr4	155505317	155505317	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttcatgcgaacagcccTgagggaataatctgcccctc	11	10	8	12	1	2	1	1	1	1	0	3	3	2	2	3	1	4	0	3	1	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:155505317T>C	uc003iod.1	-	6	2618	c.2560A>G	c.(2560-2562)AGG>GGG	p.R854G		NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	854	Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	CGAACAGCCCTGAGGGAATAA	0.483													11	109					0	0	1	0	0		C	155505317	C	C	155505317	3	2	122	1	0	0	0	0	1	0	0	0	5844	1579	55	3	44	3	FGA	4	155505317	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	6147818	155505317	35648959	277	67280											
GRIA2	2891	broad.mit.edu	37	chr4	158281222	158281222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgagcaaaggaagccttgcGacaccatgaaagttggtgga	13	8	13	7	1	0	2	0	2	0	0	0	5	0	4	2	3	3	2	2	3	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:158281222G>A	uc003ipm.3	+	13	2677	c.2218G>A	c.(2218-2220)GAC>AAC	p.D740N	GRIA2_uc011cit.1_Missense_Mutation_p.D693N|GRIA2_uc003ipl.3_Missense_Mutation_p.D740N|GRIA2_uc003ipk.3_Missense_Mutation_p.D693N|GRIA2_uc010iqh.1_RNA|GRIA2_uc011ciu.1_Missense_Mutation_p.D50N|GRIA2_uc011civ.1_RNA|GRIA2_uc011ciw.1_RNA|GRIA2_uc011cix.1_Missense_Mutation_p.D50N|GRIA2_uc011ciy.1_Missense_Mutation_p.D50N|GRIA2_uc011ciz.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	740	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	GAAGCCTTGCGACACCATGAA	0.478													10	82					0	0	1	0	0		A	158281222	A	A	158281222	3	1	122	1	0	0	0	0	1	0	0	0	6784	1058	37	1	2268	1	GRIA2	4	158281222	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2775905	158281222	32873054	278	67281											
TMEM144	55314	broad.mit.edu	37	chr4	159140505	159140505	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagaagtatcaaatccgCtgctaaattacattggagct	15	10	8	8	1	1	2	1	0	0	2	2	3	2	3	1	1	3	4	1	1	7	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:159140505C>T	uc003ipx.2	+	6	896	c.376C>T	c.(376-378)CTG>TTG	p.L126L	TMEM144_uc010iqi.2_RNA	NM_018342	NP_060812	Q7Z5S9	TM144_HUMAN	transmembrane protein 144	126	Helical; (Potential).					integral to membrane					0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0539)		ATCAAATCCGCTGCTAAATTA	0.353													17	115					0	0	1	0	0		T	159140505	T	T	159140505	2	4	122	1	0	0	0	0	0	0	0	1	16083	796	28	2		2	TMEM144	4	159140505	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	859283	159140505	32013771	279	67282											
TKTL2	84076	broad.mit.edu	37	chr4	164394290	164394290	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattctggtagatgtctgcGccatgctcaaggggtgcagg	8	10	14	9	1	3	1	1	0	2	1	3	1	3	1	1	4	3	3	1	4	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:164394290G>A	uc003iqp.3	-	1	758	c.597C>T	c.(595-597)GGC>GGT	p.G199G		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	199						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				AGATGTCTGCGCCATGCTCAA	0.517													13	76					0	0	1	0	0		A	164394290	A	A	164394290	2	1	122	1	0	0	0	0	0	0	0	1	15961	1074	38	1		1	TKTL2	4	164394290	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	5253785	164394290	26759986	280	67283											
TLL1	7092	broad.mit.edu	37	chr4	166915567	166915567	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacacagttaagggaaaagtAcctctacaattctcagggca	16	8	8	9	0	2	0	1	0	2	0	3	1	2	1	1	2	3	3	1	2	7	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:166915567A>G	uc003irh.1	+	4	1043	c.396A>G	c.(394-396)GTA>GTG	p.V132V	TLL1_uc011cjn.1_Silent_p.V132V|TLL1_uc011cjo.1_5'UTR	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	132					cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		AGGGAAAAGTACCTCTACAAT	0.408													7	46					0	0	1	0	0		G	166915567	G	G	166915567	2	3	122	1	0	0	0	0	0	0	0	1	15970	378	14	3		3	TLL1	4	166915567	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2521277	166915567	24238709	281	67284											
GALNTL6	442117	broad.mit.edu	37	chr4	172735857	172735857	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgaagtcagcggagccCggggagcagcaggtaagtgc	9	5	18	9	2	1	1	1	1	0	0	1	3	1	3	1	5	5	3	1	5	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:172735857C>T	uc003isv.2	+	2	862	c.126C>T	c.(124-126)CCC>CCT	p.P42P		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	42	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						CAGCGGAGCCCGGGGAGCAGC	0.547													6	47					0	0	1	0	0		T	172735857	T	T	172735857	2	4	122	1	0	0	0	0	0	0	0	1	6240	639	23	1		1	GALNTL6	4	172735857	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5820290	172735857	18418419	282	67285											
KLKB1	3818	broad.mit.edu	37	chr4	187155141	187155141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaaagatagtgttacaggaaCcctgccaaaagtacatcgaa	17	7	9	8	1	0	1	0	0	0	1	1	4	0	2	2	1	4	2	2	1	8	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:187155141C>T	uc003iyy.2	+	4	328	c.257C>T	c.(256-258)ACC>ATC	p.T86I	KLKB1_uc011clc.1_5'UTR|KLKB1_uc011cld.1_Missense_Mutation_p.T48I	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	86	Apple 1.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		GTTACAGGAACCCTGCCAAAA	0.358													10	94					0	0	1	0	0		T	187155141	T	T	187155141	3	4	122	1	0	0	0	0	1	0	0	0	8428	507	18	4	267	4	KLKB1	4	187155141	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	14419284	187155141	3999135	283	67286											
MTNR1A	4543	broad.mit.edu	37	chr4	187455439	187455439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggccgccagcgtcaggaGccatatgaggagcacgtagc	10	4	15	12	4	1	1	1	1	0	0	1	4	1	3	3	3	4	2	3	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:187455439G>A	uc003izd.1	-	2	475	c.457C>T	c.(457-459)CTC>TTC	p.L153F		NM_005958	NP_005949	P48039	MTR1A_HUMAN	melatonin receptor 1A	153	Helical; Name=4; (Potential).				circadian rhythm|G-protein signaling, coupled to cyclic nucleotide second messenger|mating behavior	integral to plasma membrane	melatonin receptor activity			ovary(1)|skin(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5		all_cancers(14;6.39e-56)|all_epithelial(14;1.48e-41)|all_lung(41;2.45e-15)|Lung NSC(41;7.26e-15)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00335)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|Renal(120;0.0183)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;7.63e-12)|BRCA - Breast invasive adenocarcinoma(30;6.68e-07)|GBM - Glioblastoma multiforme(59;3.44e-05)|LUSC - Lung squamous cell carcinoma(40;0.000106)|STAD - Stomach adenocarcinoma(60;0.000279)|READ - Rectum adenocarcinoma(43;0.159)	Melatonin(DB01065)|Ramelteon(DB00980)	AGCGTCAGGAGCCATATGAGG	0.602													10	61					0	0	1	0	0		A	187455439	A	A	187455439	3	1	122	1	0	0	0	0	1	0	0	0	9969	971	34	2	599	2	MTNR1A	4	187455439	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	300298	187455439	3698837	284	67287											
FAT1	2195	broad.mit.edu	37	chr4	187530381	187530381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttgacttctcccctgaCggggtcaattgtgaacgagc	8	11	10	12	2	2	3	1	3	1	0	3	4	2	3	2	2	2	0	2	2	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:187530381C>T	uc003izf.2	-	16	10350	c.10162G>A	c.(10162-10164)GTC>ATC	p.V3388I		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3388	Extracellular (Potential).|Cadherin 31.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TCTCCCCTGACGGGGTCAATT	0.443										HNSCC(5;0.00058)			11	51					0	0	1	0	0		T	187530381	T	T	187530381	3	4	122	1	0	0	0	0	1	0	0	0	5703	536	19	1	3652	1	FAT1	4	187530381	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	74942	187530381	3623895	285	67288											
FAT1	2195	broad.mit.edu	37	chr4	187557246	187557246	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actccaatcatgtgagcaacGgggtcactttccatcacagt	11	10	8	12	1	3	1	3	1	0	0	5	1	5	1	2	2	2	1	2	2	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:187557246G>T	uc003izf.2	-	6	4304	c.4116C>A	c.(4114-4116)CCC>CCA	p.P1372P		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1372	Extracellular (Potential).|Cadherin 12.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TGTGAGCAACGGGGTCACTTT	0.458										HNSCC(5;0.00058)			11	45					2.80697e-09	3.1661e-09	1	1	0		T	187557246	T	T	187557246	2	4	122	1	0	0	0	0	0	0	0	1	5703	1103	39	5		5	FAT1	4	187557246	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	26865	187557246	3597030	286	67289											
FAT1	2195	broad.mit.edu	37	chr4	187557926	187557926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgtctggcatttctttctCggtctggcttttcccgctca	2	16	8	15	3	5	0	1	0	4	0	7	0	6	0	2	3	0	3	2	3	0	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:187557926C>T	uc003izf.2	-	5	3973	c.3785G>A	c.(3784-3786)CGA>CAA	p.R1262Q		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1262	Extracellular (Potential).|Cadherin 11.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						ATTTCTTTCTCGGTCTGGCTT	0.478										HNSCC(5;0.00058)			29	263					0	0	1	0	0		T	187557926	T	T	187557926	3	4	122	1	0	0	0	0	1	0	0	0	5703	884	31	1	10073	1	FAT1	4	187557926	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	680	187557926	3596350	287	67290											
FRG1	2483	broad.mit.edu	37	chr4	190874259	190874259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccagagcagtttacggCtgtcaaattatctgattcca	10	13	7	11	1	2	2	1	1	1	1	5	2	5	2	3	1	2	3	3	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr4:190874259C>T	uc003izs.2	+	4	487	c.296C>T	c.(295-297)GCT>GTT	p.A99V		NM_004477	NP_004468	Q14331	FRG1_HUMAN	FSHD region gene 1	99					rRNA processing	Cajal body|catalytic step 2 spliceosome|nuclear speck|nucleolus					0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;1.73e-30)|Epithelial(3;5.85e-30)|OV - Ovarian serous cystadenocarcinoma(60;5.56e-15)|BRCA - Breast invasive adenocarcinoma(30;9.14e-06)|Lung(3;3.54e-05)|STAD - Stomach adenocarcinoma(60;8.83e-05)|LUSC - Lung squamous cell carcinoma(40;0.000198)|GBM - Glioblastoma multiforme(59;0.00892)|READ - Rectum adenocarcinoma(43;0.161)		CAGTTTACGGCTGTCAAATTA	0.264													4	44					0	0	1	0	0		T	190874259	T	T	190874259	3	4	122	1	0	0	0	0	1	0	0	0	6060	797	28	2	310	2	FRG1	4	190874259	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3316333	190874259	280017	288	67291											
SLC9A3	6550	broad.mit.edu	37	chr5	485314	485314	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcacgttgtcacctcccagCgccacgaaagattcaaacac	12	7	7	15	3	3	1	3	0	0	1	4	2	4	1	3	0	2	1	3	0	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:485314C>T	uc003jbe.2	-	4	820	c.708G>A	c.(706-708)GCG>GCA	p.A236A	SLC9A3_uc011clx.1_Silent_p.A236A	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	236	Extracellular (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CACCTCCCAGCGCCACGAAAG	0.632													12	60					0	0	1	0	0		T	485314	T	T	485314	2	4	122	1	0	0	0	0	0	0	0	1	14738	755	27	1		1	SLC9A3	5	485314	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08		485314	180429946	289	67292											
TPPP	11076	broad.mit.edu	37	chr5	666085	666085	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatccccgccctgctcacCgtcacccctgagatgatggg	6	8	9	18	2	2	2	2	2	0	1	4	3	4	2	7	1	1	1	7	1	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:666085C>A	uc003jbg.3	-	2	1183	c.465G>T	c.(463-465)ACG>ACT	p.T155T	TPPP_uc003jbh.3_Silent_p.T155T	NM_007030	NP_008961	O94811	TPPP_HUMAN	tubulin polymerization promoting protein	155					microtubule bundle formation|microtubule polymerization|positive regulation of protein polymerization	nucleus|perinuclear region of cytoplasm|soluble fraction	calcium ion binding|microtubule binding				0		Ovarian(839;0.0563)	Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)	GBM - Glioblastoma multiforme(108;0.0191)		cccTGCTCACCGTCACCCCTG	0.373													9	71					5.4927e-09	6.1838e-09	1	1	0		A	666085	A	A	666085	2	1	122	1	0	0	0	0	0	0	0	1	16439	666	23	5		5	TPPP	5	666085	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	180771	666085	180249175	290	67293											
IRX2	153572	broad.mit.edu	37	chr5	2749036	2749036	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgtcctcgtcgtcctccagGtcgtcatacttgtccttgca	4	14	8	15	4	1	0	1	0	0	0	9	0	5	0	4	1	2	1	4	1	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:2749036G>A	uc003jda.2	-	3	1028	c.786C>T	c.(784-786)GAC>GAT	p.D262D	IRX2_uc003jdb.2_Silent_p.D262D	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	262						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		CGTCCTCCAGGTCGTCATACT	0.706													4	38					0	0	1	0	0		A	2749036	A	A	2749036	2	1	122	1	0	0	0	0	0	0	0	1	7860	1252	44	4		4	IRX2	5	2749036	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2082951	2749036	178166224	291	67294											
IRX2	153572	broad.mit.edu	37	chr5	2749798	2749798	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtcccgcgtggcgttcttgCggtacgcggggtcgttgagc	2	10	17	12	8	1	1	0	1	1	0	3	1	2	1	1	4	3	3	1	4	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:2749798C>G	uc003jda.2	-	2	595	c.353G>C	c.(352-354)CGC>CCC	p.R118P	C5orf38_uc003jdc.2_5'Flank|C5orf38_uc011cmg.1_5'Flank|C5orf38_uc011cmh.1_5'Flank|C5orf38_uc011cmi.1_5'Flank|C5orf38_uc011cmj.1_5'Flank|IRX2_uc003jdb.2_Missense_Mutation_p.R118P	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	118	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		GGCGTTCTTGCGGTACGCGGG	0.672													6	92					0	0	1	0	0		G	2749798	G	G	2749798	3	3	122	1	0	0	0	0	1	0	0	0	7860	768	27	5	1074	5	IRX2	5	2749798	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	762	2749798	178165462	292	67295											
ADCY2	108	broad.mit.edu	37	chr5	7727281	7727281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctttctccccctcagtaccGggccacggcactgccagcgt	5	8	9	19	3	2	0	1	0	1	0	3	0	2	0	6	2	3	2	6	2	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:7727281G>A	uc003jdz.1	+	14	1845	c.1778G>A	c.(1777-1779)CGG>CAG	p.R593Q	ADCY2_uc011cmo.1_Missense_Mutation_p.R413Q	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	593	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CCTCAGTACCGGGCCACGGCA	0.507													19	59					0	0	1	0	0		A	7727281	A	A	7727281	3	1	122	1	0	0	0	0	1	0	0	0	294	1116	39	1	1832	1	ADCY2	5	7727281	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4977483	7727281	173187979	293	67296											
TRIO	7204	broad.mit.edu	37	chr5	14488156	14488156	+	Frame_Shift_Del	DEL	C	-	-																															tctctcggcaaggagcccttCccccccagcagccccctgca																										TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:14488156delC	uc003jff.2	+	48	7425	c.7419delC	c.(7417-7419)TTCfs	p.F2473fs	TRIO_uc003jfg.2_Intron|TRIO_uc003jfh.1_Frame_Shift_Del_p.F2122fs	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2473					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					AGGAGCCCTTCCCCCCCAGCA	0.746													5	10	---	---	---	---						.	-	14488156	-	-	14488156	7	5	122	1	0	1	0	1	0	0	0	0	16578	854	30	0	7609	0	TRIO	5	14488156	Frame_Shift_Del	DEL	C	TCGA-CD-A4MI-01A-21D-A25D-08	6760875	14488156	166427104	294	67297											
FAM105B	90268	broad.mit.edu	37	chr5	14693056	14693056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagaattcatcacagtctacCccaccgacccacccaaggac	14	5	5	17	1	3	1	2	0	1	1	3	3	3	2	5	1	1	0	5	1	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:14693056C>T	uc003jfk.2	+	7	1110	c.958C>T	c.(958-960)CCC>TCC	p.P320S		NM_138348	NP_612357	Q96BN8	F105B_HUMAN	hypothetical protein LOC90268	320										ovary(2)	2	Lung NSC(4;0.00696)					CACAGTCTACCCCACCGACCC	0.537													6	68					0	0	1	0	0		T	14693056	T	T	14693056	3	4	122	1	0	0	0	0	1	0	0	0	5399	623	22	4	984	4	FAM105B	5	14693056	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	204900	14693056	166222204	295	67298											
PDZD2	23037	broad.mit.edu	37	chr5	32073990	32073990	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcctcgtgactcttgggagCcatcgggcttctgggctctt	4	12	13	12	2	3	1	0	1	3	0	5	2	3	2	2	3	2	2	2	3	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:32073990C>T	uc003jhl.2	+	18	3166	c.2778C>T	c.(2776-2778)AGC>AGT	p.S926S	PDZD2_uc003jhm.2_Silent_p.S926S|PDZD2_uc011cnx.1_Silent_p.S752S	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	926					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CTCTTGGGAGCCATCGGGCTT	0.587													22	136					0	0	1	0	0		T	32073990	T	T	32073990	2	4	122	1	0	0	0	0	0	0	0	1	11720	738	26	2		2	PDZD2	5	32073990	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	17380934	32073990	148841270	296	67299											
GOLPH3	64083	broad.mit.edu	37	chr5	32126337	32126337	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacttggtgaacgccgccAccaccgcccacagaacctca	10	6	8	17	3	1	2	1	1	0	1	1	2	1	2	6	1	3	1	6	1	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:32126337A>G	uc003jhp.1	-	4	1163	c.878T>C	c.(877-879)GTG>GCG	p.V293A		NM_022130	NP_071413	Q9H4A6	GOLP3_HUMAN	golgi phosphoprotein 3	293					cell proliferation|positive regulation of TOR signaling cascade|regulation of mitochondrion organization	cytosol|endosome|Golgi cisterna membrane|mitochondrial intermembrane space|plasma membrane|trans-Golgi network	protein binding			ovary(1)	1						GAACGCCGCCACCACCGCCCA	0.483													22	137					0	0	1	0	0		G	32126337	G	G	32126337	3	3	122	1	0	0	0	0	1	0	0	0	6583	159	6	3	22	3	GOLPH3	5	32126337	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	52347	32126337	148788923	297	67300											
ZFR	51663	broad.mit.edu	37	chr5	32407029	32407029	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgttgcagcagcagcagcAgctgctgctgctgcctgctt	5	10	13	13	0	0	0	0	0	0	0	0	0	0	0	1	0	11	12	1	0	0	2	rs139769264		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:32407029A>T	uc003jhr.1	-	6	962	c.882T>A	c.(880-882)GCT>GCA	p.A294A	ZFR_uc010iun.1_Silent_p.A294A	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	294	Ala-rich.				multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		cagcagcagcagctgctgctg	0.294													9	39					0	0	1	0	0		T	32407029	T	T	32407029	2	4	122	1	0	0	0	0	0	0	0	1	17684	175	7	5		5	ZFR	5	32407029	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	280692	32407029	148508231	298	67301											
LIFR	3977	broad.mit.edu	37	chr5	38504084	38504084	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagagaatcttacctgctcTtgtactgaattagatttctt	11	17	6	7	0	3	3	0	1	3	2	3	4	3	3	1	0	3	2	1	0	6	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:38504084T>G	uc010ive.1	-	10	1763	c.1431A>C	c.(1429-1431)CAA>CAC	p.Q477H	LIFR_uc003jli.2_Missense_Mutation_p.Q477H	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	477	Extracellular (Potential).|Fibronectin type-III 3.				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					TTACCTGCTCTTGTACTGAAT	0.284			T	PLAG1	salivary adenoma								7	79					0	0	1	0	0		G	38504084	G	G	38504084	3	3	122	1	0	0	0	0	1	0	0	0	8796	1606	56	5	1906	5	LIFR	5	38504084	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	6097055	38504084	142411176	299	67302											
HEATR7B2	133558	broad.mit.edu	37	chr5	41000384	41000384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagatcctgatcaaggagacGgtctaataccccatagagct	13	9	9	10	1	2	4	1	1	1	3	3	5	3	4	3	2	2	1	3	2	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:41000384G>A	uc003jmj.3	-	39	4910	c.4420C>T	c.(4420-4422)CGT>TGT	p.R1474C	HEATR7B2_uc003jmi.3_Missense_Mutation_p.R1029C	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1474							binding			ovary(6)|central_nervous_system(2)	8						TCAAGGAGACGGTCTAATACC	0.502													6	54					0	0	1	0	0		A	41000384	A	A	41000384	3	1	122	1	0	0	0	0	1	0	0	0	7051	1116	39	1	353	1	HEATR7B2	5	41000384	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2496300	41000384	139914876	300	67303											
C5orf39	389289	broad.mit.edu	37	chr5	43039978	43039978	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccgccagcaagggctggaAagcagtcccaaatcacagct	13	4	11	13	1	1	0	1	0	0	0	2	1	2	1	3	2	4	4	3	2	3	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:43039978A>G	uc003jnf.2	-	1	470	c.171T>C	c.(169-171)CTT>CTC	p.L57L	C5orf39_uc010ivj.1_RNA|LOC153684_uc003jng.2_5'Flank|LOC153684_uc003jni.2_5'Flank	NM_001014279	NP_001014301	Q3ZCQ2	AX2R_HUMAN	annexin II receptor	57							receptor activity				0						AAGGGCTGGAAAGCAGTCCCA	0.552											OREG0016598	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	88					0	0	1	0	0		G	43039978	G	G	43039978	2	3	122	1	0	0	0	0	0	0	0	1	2300	1	1	3		3	C5orf39	5	43039978	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2039594	43039978	137875282	301	67304											
KIF2A	3796	broad.mit.edu	37	chr5	61669536	61669536	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaagaattgactgtagatCcaactgctgctggtgatgtt	11	13	10	7	0	1	4	1	2	0	2	2	4	2	4	1	1	3	4	1	1	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:61669536C>A	uc003jsy.3	+	17	1980	c.1669C>A	c.(1669-1671)CCA>ACA	p.P557T	KIF2A_uc003jsz.3_Missense_Mutation_p.P595T|KIF2A_uc010iwp.2_Missense_Mutation_p.P538T|KIF2A_uc003jsx.3_Missense_Mutation_p.P537T|KIF2A_uc010iwq.2_Missense_Mutation_p.P360T	NM_004520	NP_004511	O00139	KIF2A_HUMAN	kinesin heavy chain member 2 isoform 1	557					blood coagulation|cell differentiation|cell division|microtubule-based movement|mitotic prometaphase|mitotic spindle organization|nervous system development	centrosome|cytosol|microtubule|spindle pole	ATP binding|microtubule motor activity|protein binding				0		Lung NSC(810;8.94e-06)|Prostate(74;0.0132)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.14)		GACTGTAGATCCAACTGCTGC	0.423													6	33					2.0095e-06	2.18836e-06	1	1	0		A	61669536	A	A	61669536	3	1	122	1	0	0	0	0	1	0	0	0	8313	855	30	5	1853	5	KIF2A	5	61669536	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	18629558	61669536	119245724	302	67305											
IPO11	51194	broad.mit.edu	37	chr5	61821993	61821993	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggagcagacagcaagaacCtgtaccctttcctgctccca	11	8	8	14	0	0	2	0	0	0	2	2	3	2	3	4	1	5	4	4	1	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:61821993C>A	uc003jtc.2	+	21	2111	c.1921C>A	c.(1921-1923)CTG>ATG	p.L641M	IPO11_uc011cqr.1_Missense_Mutation_p.L681M|IPO11_uc003jtd.1_RNA|IPO11_uc010iwr.2_Intron	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	641	HEAT 9.					cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		CAGCAAGAACCTGTACCCTTT	0.393													4	63					0.00909568	0.00928937	1	1	0		A	61821993	A	A	61821993	3	1	122	1	0	0	0	0	1	0	0	0	7809	680	24	5	2123	5	IPO11	5	61821993	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	152457	61821993	119093267	303	67306											
CWC27	10283	broad.mit.edu	37	chr5	64267563	64267563	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagatggtgctgttgccgAatacagaagagaaaagcaaa	16	7	11	7	1	0	3	0	0	0	3	1	5	1	3	2	1	4	3	2	1	6	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:64267563A>G	uc003jtn.1	+	12	1295	c.1076A>G	c.(1075-1077)GAA>GGA	p.E359G	CWC27_uc010iwt.1_Missense_Mutation_p.E359G	NM_005869	NP_005860	Q6UX04	CWC27_HUMAN	serologically defined colon cancer antigen 10	359	Potential.				protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity				0						GCTGTTGCCGAATACAGAAGA	0.388													11	40					0	0	1	0	0		G	64267563	G	G	64267563	3	3	122	1	0	0	0	0	1	0	0	0	4073	246	9	3	1122	3	CWC27	5	64267563	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2445570	64267563	116647697	304	67307											
CENPH	64946	broad.mit.edu	37	chr5	68487667	68487667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcttagaatataaatcaatGgttgatgcaagtaagtattt	15	15	7	4	0	2	2	1	1	1	1	2	2	2	2	0	1	1	4	0	1	9	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:68487667G>A	uc003jvp.2	+	2	267	c.180G>A	c.(178-180)ATG>ATA	p.M60I	uc003jvn.1_5'Flank|uc003jvo.3_5'Flank|CENPH_uc010ixc.2_Missense_Mutation_p.M60I	NM_022909	NP_075060	Q9H3R5	CENPH_HUMAN	centromere protein H	60	Potential.				cell division|CenH3-containing nucleosome assembly at centromere|chromosome segregation|kinetochore organization|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm	kinetochore binding|protein binding			large_intestine(1)	1		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.41e-56)|Epithelial(20;1.29e-52)|all cancers(19;3.15e-48)|Lung(70;0.0178)		ATAAATCAATGGTTGATGCAA	0.199													6	46					0	0	1	0	0		A	68487667	A	A	68487667	3	1	122	1	0	0	0	0	1	0	0	0	3235	1348	47	4	186	4	CENPH	5	68487667	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4220104	68487667	112427593	305	67308											
GFM2	84340	broad.mit.edu	37	chr5	74041649	74041649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcattactacatccaccaCtcctttgaaagttttggctt	9	17	4	11	0	1	1	1	1	0	0	3	1	3	1	3	1	2	2	3	1	3	7	rs146259893	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:74041649C>T	uc003kdh.1	-	10	1007	c.703G>A	c.(703-705)GTG>ATG	p.V235M	GFM2_uc003kdi.1_Missense_Mutation_p.V235M|GFM2_uc010izj.1_Missense_Mutation_p.V267M|GFM2_uc010izk.1_RNA|GFM2_uc003kdj.1_Missense_Mutation_p.V235M|GFM2_uc010izl.1_Missense_Mutation_p.V193M	NM_032380	NP_115756	Q969S9	RRF2M_HUMAN	mitochondrial elongation factor G2 isoform 1	235					mitochondrial translation|ribosome disassembly	mitochondrion	GTP binding|GTPase activity				0		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.86e-56)		ACATCCACCACTCCTTTGAAA	0.358													8	63					0	0	1	0	0		T	74041649	T	T	74041649	3	4	122	1	0	0	0	0	1	0	0	0	6357	565	20	4	1716	4	GFM2	5	74041649	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5553982	74041649	106873611	306	67309											
VCAN	1462	broad.mit.edu	37	chr5	82815900	82815900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagaagacaccatccacaCtcatttagaagacttggagt	14	10	7	10	0	2	4	2	0	0	4	3	5	3	5	2	1	0	0	2	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:82815900C>T	uc003kii.3	+	7	2131	c.1775C>T	c.(1774-1776)ACT>ATT	p.T592I	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.T592I|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	592	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ACCATCCACACTCATTTAGAA	0.423													6	168					0	0	1	0	0		T	82815900	T	T	82815900	3	4	122	1	0	0	0	0	1	0	0	0	17164	565	20	4	1797	4	VCAN	5	82815900	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	8774251	82815900	98099360	307	67310											
VCAN	1462	broad.mit.edu	37	chr5	82832916	82832916	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaaacagatccagtgcAtgatctaatggctgaaattt	15	11	9	6	0	1	5	0	3	1	2	2	5	2	5	1	1	2	2	1	1	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:82832916A>G	uc003kii.3	+	8	4450	c.4094A>G	c.(4093-4095)CAT>CGT	p.H1365R	VCAN_uc003kij.3_Missense_Mutation_p.H378R|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.H29R	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1365	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GATCCAGTGCATGATCTAATG	0.308													14	66					0	0	1	0	0		G	82832916	G	G	82832916	3	3	122	1	0	0	0	0	1	0	0	0	17164	217	8	3	4120	3	VCAN	5	82832916	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	17016	82832916	98082344	308	67311											
ELL2	22936	broad.mit.edu	37	chr5	95236414	95236414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctgaggagaagatacagCgtctctactagaacatacag	15	8	9	9	1	1	4	0	1	1	3	2	5	1	4	1	1	6	0	1	1	7	5	rs150945042	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:95236414C>T	uc003klr.3	-	7	1287	c.937G>A	c.(937-939)GCT>ACT	p.A313T		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	313					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		GAAGATACAGCGTCTCTACTA	0.269													7	36					0	0	1	0	0		T	95236414	T	T	95236414	3	4	122	1	0	0	0	0	1	0	0	0	5071	768	27	1	1009	1	ELL2	5	95236414	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	12403498	95236414	85678846	309	67312											
ERAP1	51752	broad.mit.edu	37	chr5	96126301	96126301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaataccacttttaaatgCgtcagcactaagatactccc	14	11	4	12	1	1	1	1	0	0	1	2	1	2	1	2	0	5	1	2	0	7	6	rs150674566		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:96126301C>T	uc003kmm.2	-	9	1713	c.1366G>A	c.(1366-1368)GCA>ACA	p.A456T	ERAP1_uc003kml.2_Missense_Mutation_p.A456T|ERAP1_uc010jbm.1_Missense_Mutation_p.A268T|ERAP1_uc003kmn.2_Missense_Mutation_p.A456T	NM_001040458	NP_001035548	Q9NZ08	ERAP1_HUMAN	type 1 tumor necrosis factor receptor shedding	456	Lumenal (Potential).				angiogenesis|antigen processing and presentation of endogenous peptide antigen via MHC class I|fat cell differentiation|membrane protein ectodomain proteolysis|regulation of blood pressure|regulation of innate immune response|response to bacterium	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|integral to membrane	aminopeptidase activity|interleukin-1, Type II receptor binding|interleukin-6 receptor binding|metalloexopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		all_cancers(142;1.75e-06)|all_epithelial(76;3.08e-09)|all_lung(232;0.000435)|Lung NSC(167;0.000601)|Ovarian(225;0.024)|Colorectal(57;0.0432)|Breast(839;0.244)		all cancers(79;7.26e-15)|COAD - Colon adenocarcinoma(37;0.071)		CTTTTAAATGCGTCAGCACTA	0.348													19	107					0	0	1	0	0		T	96126301	T	T	96126301	3	4	122	1	0	0	0	0	1	0	0	0	5211	768	27	1	1536	1	ERAP1	5	96126301	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	889887	96126301	84788959	310	67313											
ST8SIA4	7903	broad.mit.edu	37	chr5	100191819	100191819	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacttaccctctgacagcaTgaataagtctcaatgacgga	13	10	7	11	1	3	3	2	3	2	0	4	4	3	4	1	1	2	1	1	1	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:100191819T>C	uc003knk.2	-	4	1113	c.785A>G	c.(784-786)CAT>CGT	p.H262R		NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	262	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		TCTGACAGCATGAATAAGTCT	0.413													8	77					0	0	1	0	0		C	100191819	C	C	100191819	3	2	122	1	0	0	0	0	1	0	0	0	15259	1464	51	3	302	3	ST8SIA4	5	100191819	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	4065518	100191819	80723441	311	67314											
ST8SIA4	7903	broad.mit.edu	37	chr5	100238656	100238656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacctcttcctaatggagcGcatcttgggtgcccgagaaa	9	9	10	13	2	2	1	0	0	2	1	3	3	3	2	4	2	2	1	4	2	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:100238656G>A	uc003knk.2	-	1	332	c.4C>T	c.(4-6)CGC>TGC	p.R2C	ST8SIA4_uc003knl.2_Missense_Mutation_p.R2C	NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	2	Cytoplasmic (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		CTAATGGAGCGCATCTTGGGT	0.507													11	48					0	0	1	0	0		A	100238656	A	A	100238656	3	1	122	1	0	0	0	0	1	0	0	0	15259	1087	38	1	1099	1	ST8SIA4	5	100238656	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	46837	100238656	80676604	312	67315											
KCNN2	3781	broad.mit.edu	37	chr5	113822861	113822861	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacatcaacgaaaattcctgCaagctattcatcagtaagta	17	10	5	9	1	3	0	3	0	0	0	4	1	4	0	1	0	4	4	1	0	8	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:113822861C>T	uc003kqo.2	+	6	1826	c.1369C>T	c.(1369-1371)CAA>TAA	p.Q457*	KCNN2_uc003kqp.2_Nonsense_Mutation_p.Q109*|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	457	Calmodulin-binding (By similarity).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		AAAATTCCTGCAAGCTATTCA	0.323													8	44					0	0	1	0	0		T	113822861	T	T	113822861	4	4	122	1	0	0	0	0	0	1	0	0	8095	711	25	2	1391	2	KCNN2	5	113822861	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	13584205	113822861	67092399	313	67316											
GDF9	2661	broad.mit.edu	37	chr5	132198189	132198189	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaagactgacttgagtaAgtgttcaacggtagtaatgc	13	10	11	7	1	1	3	1	2	0	1	1	3	1	3	0	1	3	5	0	1	5	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:132198189A>C	uc003kxz.1	-	2	709	c.457T>G	c.(457-459)TTA>GTA	p.L153V	GDF9_uc011cxj.1_Missense_Mutation_p.L65V	NM_005260	NP_005251	O60383	GDF9_HUMAN	growth differentiation factor 9 precursor	153					female gamete generation|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			skin(1)	1		all_cancers(142;0.105)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GACTTGAGTAAGTGTTCAACG	0.383													16	94					0	0	1	0	0		C	132198189	C	C	132198189	3	2	122	1	0	0	0	0	1	0	0	0	6334	69	3	5	911	5	GDF9	5	132198189	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	18375328	132198189	48717071	314	67317											
C5orf15	56951	broad.mit.edu	37	chr5	133295584	133295584	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttggtactcgtcgtgggAgggagggtggtgctgatttg	4	14	18	5	2	1	1	0	1	1	0	3	3	1	3	0	5	2	2	0	5	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:133295584A>T	uc003kyo.2	-	2	398	c.267T>A	c.(265-267)CCT>CCA	p.P89P		NM_020199	NP_064584	Q8NC54	KCT2_HUMAN	keratinocytes associated transmembrane protein 2	89	Extracellular (Potential).					integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00806)|Kidney(363;0.02)			TCGTCGTGGGAGGGAGGGTGG	0.463													7	32					0	0	1	0	0		T	133295584	T	T	133295584	2	4	122	1	0	0	0	0	0	0	0	1	2286	291	11	5		5	C5orf15	5	133295584	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1097395	133295584	47619676	315	67318											
CAMLG	819	broad.mit.edu	37	chr5	134077026	134077026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggtccagaggggttcccGccatggcctagagcagtacc	7	7	13	14	2	0	2	0	0	0	2	3	2	2	2	5	4	2	3	5	4	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:134077026G>A	uc003kzt.2	+	2	551	c.446G>A	c.(445-447)CGC>CAC	p.R149H	CAMLG_uc003kzu.2_Intron	NM_001745	NP_001736	P49069	CAMLG_HUMAN	calcium modulating ligand	149	Cytoplasmic (Potential).				defense response	endoplasmic reticulum|integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Cyclosporine(DB00091)	AGGGGTTCCCGCCATGGCCTA	0.507													17	76					0	0	1	0	0		A	134077026	A	A	134077026	3	1	122	1	0	0	0	0	1	0	0	0	2612	1087	38	1	452	1	CAMLG	5	134077026	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	781442	134077026	46838234	316	67319											
SPOCK1	6695	broad.mit.edu	37	chr5	136834106	136834106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccggtcgtactgggagaCggtgctcagccactggtcat	6	9	14	12	3	2	1	2	0	0	1	4	2	3	1	2	4	3	2	2	4	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:136834106C>T	uc003lbo.2	-	1	333	c.142G>A	c.(142-144)GTC>ATC	p.V48I	SPOCK1_uc003lbp.2_Missense_Mutation_p.V48I	NM_004598	NP_004589	Q08629	TICN1_HUMAN	sparc/osteonectin, cwcv and kazal-like domains	48					cell adhesion|cell proliferation|cellular component movement|nervous system development|signal transduction	proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TACTGGGAGACGGTGCTCAGC	0.682													3	32					0	0	1	0	0		T	136834106	T	T	136834106	3	4	122	1	0	0	0	0	1	0	0	0	15104	536	19	1	1217	1	SPOCK1	5	136834106	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2757080	136834106	44081154	317	67320											
SLC4A9	83697	broad.mit.edu	37	chr5	139747324	139747324	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggagctggcttccaccTggacctcttctgtgtggctg	5	11	14	11	0	2	0	0	0	2	0	3	3	3	2	3	4	1	3	3	4	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:139747324T>C	uc003lfm.2	+	16	2302	c.2267T>C	c.(2266-2268)CTG>CCG	p.L756P	SLC4A9_uc003lfj.2_Missense_Mutation_p.L732P|SLC4A9_uc011czg.1_Missense_Mutation_p.L669P|SLC4A9_uc003lfl.2_Missense_Mutation_p.L732P|SLC4A9_uc003lfk.2_Missense_Mutation_p.L718P	NM_031467	NP_113655	Q96Q91	B3A4_HUMAN	solute carrier family 4, sodium bicarbonate	756	Membrane (anion exchange).					integral to membrane|plasma membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCTTCCACCTGGACCTCTTC	0.587													4	46					0	0	1	0	0		C	139747324	C	C	139747324	3	2	122	1	0	0	0	0	1	0	0	0	14685	1580	55	3	2257	3	SLC4A9	5	139747324	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	2913218	139747324	41167936	318	67321											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139887548	139887548	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagtagtgagtttgcttCtggaccgaaaagccaatgtt	12	11	11	7	1	1	2	0	1	1	1	1	4	1	3	2	1	2	4	2	1	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:139887548C>A	uc003lfs.1	+	20	3854	c.3730C>A	c.(3730-3732)CTG>ATG	p.L1244M	ANKHD1_uc003lfq.1_Missense_Mutation_p.L1263M|ANKHD1_uc003lfr.2_Missense_Mutation_p.L1244M|ANKHD1_uc003lft.1_Missense_Mutation_p.L455M|ANKHD1_uc003lfu.1_Missense_Mutation_p.L724M|ANKHD1_uc003lfv.1_Missense_Mutation_p.L321M|ANKHD1-EIF4EBP3_uc011czh.1_5'Flank|ANKHD1_uc003lfw.2_5'Flank	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1244						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGTTTGCTTCTGGACCGAAA	0.433													8	74					2.80697e-09	3.1661e-09	1	1	0		A	139887548	A	A	139887548	3	1	122	1	0	0	0	0	1	0	0	0	629	912	32	5	3808	5	ANKHD1-EIF4EBP3	5	139887548	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	140224	139887548	41027712	319	67322											
PCDHA3	56145	broad.mit.edu	37	chr5	140182444	140182444	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacgtgacgctgcaggtgttCgtgctggacgagaacgacaa	11	7	14	9	5	0	2	0	1	0	1	1	5	0	3	0	2	4	4	0	2	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:140182444C>T	uc003lhf.2	+	1	1662	c.1662C>T	c.(1660-1662)TTC>TTT	p.F554F	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.F554F	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	554	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCAGGTGTTCGTGCTGGACG	0.687													25	194					0	0	1	0	0		T	140182444	T	T	140182444	2	4	122	1	0	0	0	0	0	0	0	1	11544	883	31	1		1	PCDHA3	5	140182444	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	294896	140182444	40732816	320	67323											
PCDHA4	56144	broad.mit.edu	37	chr5	140188306	140188306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctacgtttcggtgcatGcggagagcggcaaggtgtac	8	8	16	9	5	0	1	0	0	0	1	1	3	0	1	0	4	6	5	0	4	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:140188306G>A	uc003lhi.2	+	1	1635	c.1534G>A	c.(1534-1536)GCG>ACG	p.A512T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.A512T|PCDHA4_uc011daa.1_Missense_Mutation_p.A512T	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	512	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCGGTGCATGCGGAGAGCGG	0.677													17	135					0	0	1	0	0		A	140188306	A	A	140188306	3	1	122	1	0	0	0	0	1	0	0	0	11545	1319	46	2	1536	2	PCDHA4	5	140188306	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	5862	140188306	40726954	321	67324											
PCDHA12	56137	broad.mit.edu	37	chr5	140255709	140255709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctgatggtaatcgatggcGgtaaaccagaactaacaggg	13	8	13	7	2	0	2	0	1	0	1	1	3	0	2	1	4	4	3	1	4	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:140255709G>A	uc003lic.2	+	1	779	c.652G>A	c.(652-654)GGT>AGT	p.G218S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.G218S	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	218	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATCGATGGCGGTAAACCAGA	0.398													11	49					0	0	1	0	0		A	140255709	A	A	140255709	3	1	122	1	0	0	0	0	1	0	0	0	11541	1116	39	1	654	1	PCDHA12	5	140255709	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	67403	140255709	40659551	322	67325											
PCDHAC2	56134	broad.mit.edu	37	chr5	140389267	140389267	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgggtgtcaacagcaacagCtggacctttaaatacggacc	12	7	11	11	2	1	0	1	0	0	0	1	2	1	2	2	3	5	2	2	3	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:140389267C>A	uc003lii.2	+	4	3009	c.2769C>A	c.(2767-2769)AGC>AGA	p.S923R	PCDHA1_uc003lha.2_Missense_Mutation_p.S602R|PCDHA1_uc003lhb.2_Missense_Mutation_p.S866R|PCDHA2_uc003lhd.2_Missense_Mutation_p.S864R|PCDHA3_uc003lhf.2_Missense_Mutation_p.S866R|PCDHA4_uc003lhi.2_Missense_Mutation_p.S863R|PCDHA4_uc003lhh.1_Missense_Mutation_p.S863R|PCDHA5_uc003lhk.1_Missense_Mutation_p.S852R|PCDHA5_uc003lhl.2_Missense_Mutation_p.S852R|PCDHA6_uc003lhn.2_Missense_Mutation_p.S602R|PCDHA6_uc003lho.2_Missense_Mutation_p.S866R|PCDHA7_uc003lhq.2_Missense_Mutation_p.S853R|PCDHA8_uc003lhs.2_Missense_Mutation_p.S866R|PCDHA9_uc003lhu.2_Missense_Mutation_p.S866R|PCDHA10_uc003lhw.2_Missense_Mutation_p.S601R|PCDHA10_uc003lhx.2_Missense_Mutation_p.S864R|PCDHA11_uc003lia.2_Missense_Mutation_p.S865R|PCDHA12_uc003lic.2_Missense_Mutation_p.S857R|PCDHA13_uc003lie.1_Missense_Mutation_p.S866R|PCDHA13_uc003lif.2_Missense_Mutation_p.S866R|PCDHAC1_uc003lih.2_Missense_Mutation_p.S879R	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	923	4 X 4 AA repeats of P-X-X-P.|Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAGCAACAGCTGGACCTTTA	0.502													16	122					4.14922e-12	4.77439e-12	1	1	0		A	140389267	A	A	140389267	3	1	122	1	0	0	0	0	1	0	0	0	11552	796	28	5	2871	5	PCDHAC2	5	140389267	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	133558	140389267	40525993	323	67326											
PCDHB9	56127	broad.mit.edu	37	chr5	140569061	140569061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagggcggcctcggtgggtCgctgctcggtgcccgagggt	2	7	20	12	5	0	0	0	0	0	0	3	1	0	0	2	6	2	3	2	6	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:140569061C>T	uc003liw.1	+	3	2170	c.2170C>T	c.(2170-2172)CGC>TGC	p.R724C	PCDHB10_uc003lix.2_5'Flank	NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	724	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTCGGTGGGTCGCTGCTCGGT	0.667													29	359					0	0	1	0	0		T	140569061	T	T	140569061	3	4	122	1	0	0	0	0	1	0	0	0	11568	871	31	1	2171	1	PCDHB9	5	140569061	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	179794	140569061	40346199	324	67327											
PCDHB12	56124	broad.mit.edu	37	chr5	140589598	140589598	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttcaggatacgagacagAgactctggggacaacggaaa	14	7	13	7	2	2	2	1	0	1	2	2	7	2	5	0	4	2	1	0	4	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:140589598A>C	uc003liz.2	+	1	1308	c.1119A>C	c.(1117-1119)AGA>AGC	p.R373S	PCDHB12_uc011dak.1_Missense_Mutation_p.R36S	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	373	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TACGAGACAGAGACTCTGGGG	0.433													10	67					0	0	1	0	0		C	140589598	C	C	140589598	3	2	122	1	0	0	0	0	1	0	0	0	11556	301	11	5	1121	5	PCDHB12	5	140589598	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	20537	140589598	40325662	325	67328											
PCDHB13	56123	broad.mit.edu	37	chr5	140594909	140594909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaacttttacaccctactaaCggagagaccactagacagag	16	7	7	11	1	0	3	0	0	0	3	0	5	0	4	2	1	4	0	2	1	5	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:140594909C>T	uc003lja.1	+	1	1401	c.1214C>T	c.(1213-1215)ACG>ATG	p.T405M		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	405	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACCCTACTAACGGAGAGACCA	0.453													10	56					0	0	1	0	0		T	140594909	T	T	140594909	3	4	122	1	0	0	0	0	1	0	0	0	11557	536	19	1	1216	1	PCDHB13	5	140594909	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5311	140594909	40320351	326	67329											
PCDHGA7	56108	broad.mit.edu	37	chr5	140764513	140764513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagccttgagccctccgacGgtccttacaactatgacctc	8	9	8	16	2	0	2	0	2	0	0	3	3	2	2	5	1	4	1	5	1	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:140764513G>A	uc003lka.1	+	1	2047	c.2047G>A	c.(2047-2049)GGT>AGT	p.G683S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGB4_uc003lkc.1_5'Flank|PCDHGA7_uc003ljz.1_Missense_Mutation_p.G683S|PCDHGB4_uc011dav.1_5'Flank	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	683	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCCTCCGACGGTCCTTACAA	0.627													7	74					0	0	1	0	0		A	140764513	A	A	140764513	3	1	122	1	0	0	0	0	1	0	0	0	11578	1116	39	1	2049	1	PCDHGA7	5	140764513	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	169604	140764513	40150747	327	67330											
PCDHGA7	56108	broad.mit.edu	37	chr5	140764701	140764701	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cactttgtgggcatggacggGgtgcaggctttcctgcagac	6	10	15	10	1	0	1	0	0	0	1	1	2	1	2	1	5	2	4	1	5	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:140764701G>T	uc003lka.1	+	1	2235	c.2235G>T	c.(2233-2235)GGG>GGT	p.G745G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGB4_uc003lkc.1_5'Flank|PCDHGA7_uc003ljz.1_Silent_p.G745G|PCDHGB4_uc011dav.1_5'Flank	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	745	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCATGGACGGGGTGCAGGCTT	0.617													19	93					6.49762e-13	7.54177e-13	1	1	0		T	140764701	T	T	140764701	2	4	122	1	0	0	0	0	0	0	0	1	11578	1219	43	5		5	PCDHGA7	5	140764701	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	188	140764701	40150559	328	67331											
PCDHGA9	56107	broad.mit.edu	37	chr5	140784497	140784497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctcggccactgtcacgCtcacagtagccatagctgac	8	9	8	16	2	3	1	2	1	1	0	5	1	3	1	2	1	2	3	2	1	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:140784497C>T	uc003lkh.1	+	1	1978	c.1978C>T	c.(1978-1980)CTC>TTC	p.L660F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.L660F	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	660	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACTGTCACGCTCACAGTAGC	0.602													8	82					0	0	1	0	0		T	140784497	T	T	140784497	3	4	122	1	0	0	0	0	1	0	0	0	11580	797	28	2	1980	2	PCDHGA9	5	140784497	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	19796	140784497	40130763	329	67332											
PCDHGA11	56105	broad.mit.edu	37	chr5	140802769	140802769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccctctctcggccaccGtcacgctcaccgtggctgtg	4	8	10	19	4	3	0	2	0	1	0	5	0	3	0	5	2	1	2	5	2	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:140802769G>A	uc003lkq.1	+	1	2233	c.1975G>A	c.(1975-1977)GTC>ATC	p.V659I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.V659I|PCDHGA11_uc003lkp.1_Intron	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	659	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCGGCCACCGTCACGCTCAC	0.672													14	85					0	0	1	0	0		A	140802769	A	A	140802769	3	1	122	1	0	0	0	0	1	0	0	0	11571	1145	40	1	1977	1	PCDHGA11	5	140802769	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	18272	140802769	40112491	330	67333											
ARAP3	64411	broad.mit.edu	37	chr5	141050954	141050954	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggttgggtcttgccacaGctgcacacagtgcctgcagg	7	8	14	12	0	1	0	0	0	1	0	1	0	1	0	2	3	5	5	2	3	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:141050954G>T	uc003llm.2	-	13	1946	c.1868C>A	c.(1867-1869)GCT>GAT	p.A623D	ARAP3_uc011dbe.1_Missense_Mutation_p.A285D|ARAP3_uc003lln.2_Missense_Mutation_p.A545D	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	623					cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						TCTTGCCACAGCTGCACACAG	0.587													13	77					1.5739e-10	1.79382e-10	1	1	0		T	141050954	T	T	141050954	3	4	122	1	0	0	0	0	1	0	0	0	840	971	34	5	2850	5	ARAP3	5	141050954	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	248185	141050954	39864306	331	67334											
SH3RF2	153769	broad.mit.edu	37	chr5	145439617	145439617	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcacgggggagcccgccCtcacgtgcatcagcaggggc	6	4	14	17	3	3	0	3	0	0	0	3	1	3	1	3	4	3	2	3	4	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:145439617C>A	uc003lnt.2	+	9	1982	c.1744C>A	c.(1744-1746)CTC>ATC	p.L582I	SH3RF2_uc011dbl.1_Missense_Mutation_p.L582I|SH3RF2_uc011dbm.1_Missense_Mutation_p.L67I|SH3RF2_uc003lnu.2_Missense_Mutation_p.L73I|SH3RF2_uc011dbn.1_Missense_Mutation_p.L73I|SH3RF2_uc011dbo.1_Missense_Mutation_p.L39I	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	582							ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGAGCCCGCCCTCACGTGCAT	0.627													14	79					1.49906e-05	1.61055e-05	1	1	0		A	145439617	A	A	145439617	3	1	122	1	0	0	0	0	1	0	0	0	14284	681	24	5	1774	5	SH3RF2	5	145439617	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	4388663	145439617	35475643	332	67335											
SH3TC2	79628	broad.mit.edu	37	chr5	148386498	148386498	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatacaccttggcatagtaCagggcctccttgggactctg	9	11	10	11	0	1	0	0	0	1	0	2	1	2	1	3	3	2	2	3	3	4	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:148386498C>T	uc003lpu.2	-	16	3773	c.3621G>A	c.(3619-3621)CTG>CTA	p.L1207L	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_Silent_p.L851L|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_Silent_p.L754L|SH3TC2_uc010jgx.2_Silent_p.L1200L	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	1207							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGCATAGTACAGGGCCTCCT	0.552													23	129					0	0	1	0	0		T	148386498	T	T	148386498	2	4	122	1	0	0	0	0	0	0	0	1	14287	465	17	4		4	SH3TC2	5	148386498	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2946881	148386498	32528762	333	67336											
CAMK2A	815	broad.mit.edu	37	chr5	149602570	149602570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggggcaggacggagggcGccccagatctgtggaagtgg	8	5	19	9	2	1	1	0	0	1	1	1	4	1	4	2	7	0	1	2	7	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:149602570G>A	uc003lru.2	-	17	1630	c.1415C>T	c.(1414-1416)GCG>GTG	p.A472V	CAMK2A_uc003lrs.2_Missense_Mutation_p.A183V|CAMK2A_uc003lrt.2_Missense_Mutation_p.A483V	NM_171825	NP_741960	Q9UQM7	KCC2A_HUMAN	calcium/calmodulin-dependent protein kinase II	472					interferon-gamma-mediated signaling pathway|positive regulation of NF-kappaB transcription factor activity|synaptic transmission	cell junction|cytosol|endocytic vesicle membrane|nucleoplasm|presynaptic membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)	1		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GACGGAGGGCGCCCCAGATCT	0.642													19	135					0	0	1	0	0		A	149602570	A	A	149602570	3	1	122	1	0	0	0	0	1	0	0	0	2602	1087	38	1	29	1	CAMK2A	5	149602570	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1216072	149602570	31312690	334	67337											
GALNT10	55568	broad.mit.edu	37	chr5	153789220	153789220	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccagaaaaagctccgcagCtcccttaactgcaagagttt	12	9	8	12	1	0	2	0	0	0	2	3	2	3	2	3	0	4	5	3	0	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:153789220C>T	uc003lvh.2	+	9	1416	c.1284C>T	c.(1282-1284)AGC>AGT	p.S428S	GALNT10_uc010jic.2_RNA|GALNT10_uc010jid.2_Silent_p.S269S|uc003lvi.2_Intron|GALNT10_uc003lvj.2_Silent_p.S99S	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	428	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			agctccgcagctcccttaact	0.328													16	138					0	0	1	0	0		T	153789220	T	T	153789220	2	4	122	1	0	0	0	0	0	0	0	1	6223	796	28	2		2	GALNT10	5	153789220	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	4186650	153789220	27126040	335	67338											
NIPAL4	348938	broad.mit.edu	37	chr5	156899454	156899454	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatcatctgctctgtgaTcggggccttctctgtggctg	4	14	11	12	1	5	1	2	1	3	0	7	1	5	1	1	3	1	2	1	3	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:156899454T>C	uc003lwx.3	+	6	1003	c.887T>C	c.(886-888)ATC>ACC	p.I296T	ADAM19_uc003lww.1_Intron|NIPAL4_uc011ddq.1_Missense_Mutation_p.I277T	NM_001099287	NP_001092757	Q0D2K0	NIPA4_HUMAN	ichthyin protein	296	Helical; (Potential).					integral to membrane	receptor activity				0						TGCTCTGTGATCGGGGCCTTC	0.557											OREG0016979	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	192					0	0	1	0	0		C	156899454	C	C	156899454	3	2	122	1	0	0	0	0	1	0	0	0	10446	1435	50	3	909	3	NIPAL4	5	156899454	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	3110234	156899454	24015806	336	67339											
EBF1	1879	broad.mit.edu	37	chr5	158524021	158524021	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccacaaacgctgtcctctcGatctccacgggctggccctg	6	8	9	18	3	2	0	0	0	2	0	5	1	3	0	4	2	1	2	4	2	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:158524021G>A	uc010jip.2	-	2	554	c.252C>T	c.(250-252)ATC>ATT	p.I84I	EBF1_uc011ddw.1_5'Flank|EBF1_uc011ddx.1_Silent_p.I84I|EBF1_uc003lxl.3_Silent_p.I84I	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	84					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTGTCCTCTCGATCTCCACGG	0.627			T	HMGA2	lipoma								4	33					0	0	1	0	0		A	158524021	A	A	158524021	2	1	122	1	0	0	0	0	0	0	0	1	4886	1048	37	1		1	EBF1	5	158524021	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1624567	158524021	22391239	337	67340											
RNF145	153830	broad.mit.edu	37	chr5	158601022	158601022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaaaagaagcctctcacGtgatgcaggctgatctcgag	13	7	12	9	2	2	3	1	2	2	1	4	5	2	4	1	2	2	2	1	2	4	0	rs139327325		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:158601022G>A	uc003lxp.2	-	6	1079	c.766C>T	c.(766-768)CGT>TGT	p.R256C	RNF145_uc011ddy.1_Missense_Mutation_p.R270C|RNF145_uc003lxo.1_Missense_Mutation_p.R284C|RNF145_uc011ddz.1_Missense_Mutation_p.R273C|RNF145_uc010jiq.1_Missense_Mutation_p.R286C|RNF145_uc011dea.1_Missense_Mutation_p.R272C	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	256						integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGCCTCTCACGTGATGCAGGC	0.368													5	43					0	0	1	0	0		A	158601022	A	A	158601022	3	1	122	1	0	0	0	0	1	0	0	0	13472	1145	40	1	1249	1	RNF145	5	158601022	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	77001	158601022	22314238	338	67341											
IL12B	3593	broad.mit.edu	37	chr5	158743807	158743807	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtggctgaggtcttgtcCgtgaagactctatctttctg	6	14	11	10	2	4	3	0	2	4	1	5	3	5	3	2	2	0	1	2	2	2	3	rs144356274		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:158743807C>A	uc003lxr.1	-	7	915	c.873G>T	c.(871-873)ACG>ACT	p.T291T		NM_002187	NP_002178	P29460	IL12B_HUMAN	interleukin 12B precursor	291	Fibronectin type-III.				cell cycle arrest|cell migration|defense response to Gram-negative bacterium|interferon-gamma biosynthetic process|natural killer cell activation|negative regulation of interleukin-10 production|negative regulation of interleukin-17 production|negative regulation of smooth muscle cell proliferation|positive regulation of activated T cell proliferation|positive regulation of activation of JAK2 kinase activity|positive regulation of cell adhesion|positive regulation of defense response to virus by host|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-17 production|positive regulation of memory T cell differentiation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|positive regulation of natural killer cell proliferation|positive regulation of NF-kappaB import into nucleus|positive regulation of NK T cell activation|positive regulation of NK T cell proliferation|positive regulation of osteoclast differentiation|positive regulation of smooth muscle cell apoptosis|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat4 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|regulation of tyrosine phosphorylation of Stat1 protein|response to UV-B|sexual reproduction|T-helper 1 type immune response|T-helper cell differentiation	interleukin-12 complex|interleukin-23 complex|membrane	cytokine activity|cytokine receptor activity|interleukin-12 receptor binding|protein heterodimerization activity				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGGTCTTGTCCGTGAAGACTC	0.517											OREG0016989	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	71					3.32936e-07	3.66566e-07	1	1	0		A	158743807	A	A	158743807	2	1	122	1	0	0	0	0	0	0	0	1	7641	639	23	5		5	IL12B	5	158743807	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	142785	158743807	22171453	339	67342											
SLIT3	6586	broad.mit.edu	37	chr5	168187941	168187941	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acctcattgtcattcagtcgCctgtgtaggaagcaagatga	11	11	10	9	1	3	2	3	1	0	1	4	3	3	3	2	1	1	2	2	1	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:168187941C>T	uc003mab.2	-	16	2031	c.1611G>A	c.(1609-1611)CTG>CTA	p.L537L	SLIT3_uc010jjg.2_Silent_p.L537L	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	537	LRR 12.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CATTCAGTCGCCTGTGTAGGA	0.532													7	85					0	0	1	0	0		T	168187941	T	T	168187941	2	4	122	1	0	0	0	0	0	0	0	1	14766	753	26	2		2	SLIT3	5	168187941	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	9444134	168187941	12727319	340	67343											
GABRP	2568	broad.mit.edu	37	chr5	170215633	170215633	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaacatgaactacagccTccacttggccttcgtgtgtc	8	12	7	14	1	1	1	1	1	1	0	5	1	2	1	3	1	4	0	3	1	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:170215633T>A	uc003mau.2	+	2	212	c.14T>A	c.(13-15)CTC>CAC	p.L5H	GABRP_uc011dev.1_Missense_Mutation_p.L5H	NM_014211	NP_055026	O00591	GBRP_HUMAN	gamma-aminobutyric acid (GABA) A receptor, pi	5						cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			breast(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0122)|all_lung(126;0.0193)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AACTACAGCCTCCACTTGGCC	0.547													14	89					0	0	1	0	0		A	170215633	A	A	170215633	3	1	122	1	0	0	0	0	1	0	0	0	6188	1551	54	5	16	5	GABRP	5	170215633	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	2027692	170215633	10699627	341	67344											
NSD1	64324	broad.mit.edu	37	chr5	176673788	176673788	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcgtcaaaagagattccAggctcagaggtattactcag	13	9	10	9	1	3	2	3	0	0	2	5	4	4	2	1	2	1	2	1	2	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:176673788A>G	uc003mfr.3	+	10	4626	c.4488A>G	c.(4486-4488)CCA>CCG	p.P1496P	NSD1_uc003mft.3_Silent_p.P1227P|NSD1_uc003mfs.1_Silent_p.P1393P|NSD1_uc011dfx.1_Silent_p.P1144P	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1496					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		AAGAGATTCCAGGCTCAGAGG	0.428			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			6	70					0	0	1	0	0		G	176673788	G	G	176673788	2	3	122	1	0	0	0	0	0	0	0	1	10688	175	7	3		3	NSD1	5	176673788	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	6458155	176673788	4241472	342	67345											
RGS14	10636	broad.mit.edu	37	chr5	176793200	176793200	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgagcagcacgacggggccCcagggccagggcgagggccg	7	1	19	14	4	0	1	0	1	0	0	0	3	0	1	4	5	2	2	4	5	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:176793200C>A	uc003mgf.2	+	3	272	c.90C>A	c.(88-90)CCC>CCA	p.P30P	RGS14_uc003mgg.1_5'Flank|RGS14_uc003mgh.2_5'Flank|RGS14_uc003mgi.2_5'Flank	NM_006480	NP_006471	O43566	RGS14_HUMAN	regulator of G-protein signalling 14	30					chromosome segregation|long-term memory|long-term synaptic potentiation|negative regulation of ERK1 and ERK2 cascade|negative regulation of MAP kinase activity|negative regulation of synaptic plasticity|nucleocytoplasmic transport|platelet-derived growth factor receptor signaling pathway|positive regulation of neurogenesis|regulation of DNA-dependent transcription in response to stress|regulation of G-protein coupled receptor protein signaling pathway|response to oxidative stress|spindle organization|visual learning|zygote asymmetric cell division	cell junction|centrosome|dendritic spine|microtubule|PML body|postsynaptic density|postsynaptic membrane|spindle pole	GDP-dissociation inhibitor activity|GTPase activator activity|microtubule binding|receptor signaling complex scaffold activity|receptor signaling protein activity			lung(1)	1	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CGACGGGGCCCCAGGGCCAGG	0.692													6	21					0.0477658	0.0483709	1	1	0		A	176793200	A	A	176793200	2	1	122	1	0	0	0	0	0	0	0	1	13322	610	22	5		5	RGS14	5	176793200	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	119412	176793200	4122060	343	67346											
ADAMTS2	9509	broad.mit.edu	37	chr5	178557097	178557097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtctccaggttcttgaCggctgagaatggcaagacca	9	9	12	11	1	2	3	0	2	2	2	3	4	2	3	3	3	0	3	3	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:178557097C>T	uc003mjw.2	-	16	2293	c.2293G>A	c.(2293-2295)GTC>ATC	p.V765I		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	765	Spacer.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		AGGTTCTTGACGGCTGAGAAT	0.567													4	38					0	0	1	0	0		T	178557097	T	T	178557097	3	4	122	1	0	0	0	0	1	0	0	0	265	536	19	1	1370	1	ADAMTS2	5	178557097	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1763897	178557097	2358163	344	67347											
FLT4	2324	broad.mit.edu	37	chr5	180043407	180043407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggtctttgtagatgtccCgggcaaggccaaagtcacag	9	8	14	10	2	2	1	1	0	1	1	3	1	3	1	2	4	0	2	2	4	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:180043407C>T	uc003mma.3	-	23	3258	c.3179G>A	c.(3178-3180)CGG>CAG	p.R1060Q	FLT4_uc003mlz.3_Missense_Mutation_p.R1060Q	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	1060	Cytoplasmic (Potential).|Protein kinase.				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	GTAGATGTCCCGGGCAAGGCC	0.612									Congenital_Hereditary_Lymphedema				17	84					0	0	1	0	0		T	180043407	T	T	180043407	3	4	122	1	0	0	0	0	1	0	0	0	5958	652	23	1	952	1	FLT4	5	180043407	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1486310	180043407	871853	345	67348											
TRIM41	90933	broad.mit.edu	37	chr5	180661483	180661483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcgccatcaccatcgccGccgccggctccacctgcccc	4	5	8	24	6	1	0	1	0	0	0	4	0	2	0	9	1	1	1	9	1	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr5:180661483G>A	uc003mne.1	+	6	2295	c.1601G>A	c.(1600-1602)CGC>CAC	p.R534H	TRIM41_uc003mnc.1_3'UTR|TRIM41_uc003mnd.1_Intron|TRIM41_uc003mnf.1_Intron|TRIM41_uc003mng.1_Missense_Mutation_p.R114H	NM_033549	NP_291027	Q8WV44	TRI41_HUMAN	tripartite motif-containing 41 isoform 1	534	B30.2/SPRY.					cytoplasm|nucleus	ligase activity|protein binding|zinc ion binding				0	all_cancers(89;9.17e-06)|all_epithelial(37;1.19e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000209)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CACCATCGCCGCCGCCGGCTC	0.667													7	38					0	0	1	0	0		A	180661483	A	A	180661483	3	1	122	1	0	0	0	0	1	0	0	0	16542	1087	38	1	1623	1	TRIM41	5	180661483	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	618076	180661483	253777	346	67349											
HUS1B	135458	broad.mit.edu	37	chr6	656464	656464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctcagcgtcctccagcGcggcaggcggatgctcgcgt	4	7	14	16	6	1	0	1	0	0	0	5	1	4	1	3	3	3	3	3	3	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:656464G>A	uc003mtg.2	-	1	501	c.481C>T	c.(481-483)CGC>TGC	p.R161C	EXOC2_uc003mtd.2_Intron|EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_148959	NP_683762	Q8NHY5	HUS1B_HUMAN	HUS1 checkpoint protein B	161											0	Ovarian(93;0.0733)	Breast(5;0.00139)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.041)|BRCA - Breast invasive adenocarcinoma(62;0.0965)		GTCCTCCAGCGCGGCAGGCGG	0.667													16	177					0	0	1	0	0		A	656464	A	A	656464	3	1	122	1	0	0	0	0	1	0	0	0	7476	1087	38	1	359	1	HUS1B	6	656464	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08		656464	170458603	347	67350											
C6orf146	222826	broad.mit.edu	37	chr6	4069468	4069468	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaaagttttggctgtctcActtttggtgtagctttggag	6	16	12	7	1	1	0	1	0	1	0	2	1	1	1	0	3	1	5	0	3	2	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:4069468A>G	uc003mvx.2	-	7	1329	c.989T>C	c.(988-990)GTG>GCG	p.V330A	C6orf146_uc010jnq.1_Intron|C6orf146_uc003mvy.2_Missense_Mutation_p.V267A	NM_173563	NP_775834	Q8IXS0	CF146_HUMAN	hypothetical protein LOC222826	330										ovary(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				TGGCTGTCTCACTTTTGGTGT	0.393													18	79					0	0	1	0	0		G	4069468	G	G	4069468	3	3	122	1	0	0	0	0	1	0	0	0	2338	159	6	3	541	3	C6orf146	6	4069468	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	3413004	4069468	167045599	348	67351											
RIOK1	83732	broad.mit.edu	37	chr6	7393491	7393491	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgggatgaaggagttggAaaactcgccaagggttatgt	12	9	15	5	1	0	1	0	1	0	0	1	5	0	4	1	4	1	2	1	4	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:7393491A>G	uc003mxn.2	+	2	405	c.231A>G	c.(229-231)GGA>GGG	p.G77G	RIOK1_uc003mxm.1_5'UTR	NM_031480	NP_113668	Q9BRS2	RIOK1_HUMAN	RIO kinase 1 isoform 1	77							ATP binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|skin(1)	4	Ovarian(93;0.0418)					AAGGAGTTGGAAAACTCGCCA	0.289													17	117					0	0	1	0	0		G	7393491	G	G	7393491	2	3	122	1	0	0	0	0	0	0	0	1	13402	233	9	3		3	RIOK1	6	7393491	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	3324023	7393491	163721576	349	67352											
DSP	1832	broad.mit.edu	37	chr6	7583718	7583718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtcgacagtgccatagctCgggacctcattgacttcgat	8	11	10	12	3	1	1	1	1	0	0	4	4	1	2	2	1	2	1	2	1	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:7583718C>T	uc003mxp.1	+	24	6502	c.6223C>T	c.(6223-6225)CGG>TGG	p.R2075W	DSP_uc003mxq.1_Missense_Mutation_p.R1476W	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2075	Plectin 2.|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TGCCATAGCTCGGGACCTCAT	0.483													23	168					0	0	1	0	0		T	7583718	T	T	7583718	3	4	122	1	0	0	0	0	1	0	0	0	4787	875	31	1	6317	1	DSP	6	7583718	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	190227	7583718	163531349	350	67353											
DSP	1832	broad.mit.edu	37	chr6	7585144	7585144	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctttgatcagtaccgatccgGcagcctcagcctcactcaat	9	10	7	15	2	4	1	4	1	0	0	5	2	5	1	4	1	3	2	4	1	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:7585144G>T	uc003mxp.1	+	24	7928	c.7649G>T	c.(7648-7650)GGC>GTC	p.G2550V	DSP_uc003mxq.1_Missense_Mutation_p.G1951V	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2550	Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TACCGATCCGGCAGCCTCAGC	0.483													13	93					4.3838e-07	4.81776e-07	1	1	0		T	7585144	T	T	7585144	3	4	122	1	0	0	0	0	1	0	0	0	4787	1203	42	5	7743	5	DSP	6	7585144	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1426	7585144	163529923	351	67354											
MAK	4117	broad.mit.edu	37	chr6	10764752	10764752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagggaatgggctgtgcaCggttcacaatatttaggttt	9	13	13	6	1	1	1	1	1	0	0	1	2	1	2	0	4	1	4	0	4	4	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:10764752C>T	uc003mzl.2	-	13	2034	c.1805G>A	c.(1804-1806)CGT>CAT	p.R602H	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Missense_Mutation_p.R602H	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	602					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				GGGCTGTGCACGGTTCACAAT	0.478													15	59					0	0	1	0	0		T	10764752	T	T	10764752	3	4	122	1	0	0	0	0	1	0	0	0	9215	536	19	1	70	1	MAK	6	10764752	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3179608	10764752	160350315	352	67355											
MAK	4117	broad.mit.edu	37	chr6	10796273	10796273	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgggaatagcgtttgtggCggtttctcctgactctgttg	4	15	13	9	3	2	1	0	1	2	0	4	2	2	2	1	3	1	3	1	3	2	4	rs141174473	by1000genomes	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:10796273C>T	uc003mzl.2	-	8	1330	c.1101G>A	c.(1099-1101)CCG>CCA	p.P367P	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Silent_p.P367P|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	367	Glu/Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				GCGTTTGTGGCGGTTTCTCCT	0.498													26	175					0	0	1	0	0		T	10796273	T	T	10796273	2	4	122	1	0	0	0	0	0	0	0	1	9215	755	27	1		1	MAK	6	10796273	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	31521	10796273	160318794	353	67356											
ERVFRDE1	405754	broad.mit.edu	37	chr6	11105044	11105044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggaatcttggttgatggCggaattggttgtgggtgtat	6	15	18	2	1	1	1	0	1	1	0	1	3	1	3	0	7	0	3	0	7	3	5	rs140934168		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:11105044C>T	uc003mzt.2	-	2	870	c.500G>A	c.(499-501)CGC>CAC	p.R167H	LOC221710_uc003mzr.2_Intron|LOC221710_uc011dio.1_Intron	NM_207582	NP_997465	P60508	EFRD1_HUMAN	syncytin 2	167	Extracellular (Potential).					integral to membrane|plasma membrane|virion					0						TGGTTGATGGCGGAATTGGTT	0.443													40	293					0	0	1	0	0		T	11105044	T	T	11105044	3	4	122	1	0	0	0	0	1	0	0	0	5254	768	27	1	1120	1	ERVFRDE1	6	11105044	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	308771	11105044	160010023	354	67357											
CD83	9308	broad.mit.edu	37	chr6	14133942	14133942	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcggagattgtcctgctgCtggctctggttattttctac	5	15	12	9	1	2	1	0	0	2	1	3	3	3	1	1	3	4	4	1	3	2	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:14133942C>T	uc003nbi.2	+	4	623	c.445C>T	c.(445-447)CTG>TTG	p.L149L	CD83_uc003nbh.2_Silent_p.L149L	NM_004233	NP_004224	Q01151	CD83_HUMAN	CD83 antigen isoform a	149	Helical; (Potential).				defense response|humoral immune response|signal transduction	integral to plasma membrane					0	Breast(50;0.00245)|Ovarian(93;0.137)	all_hematologic(90;0.117)				TGTCCTGCTGCTGGCTCTGGT	0.378													6	61					0	0	1	0	0		T	14133942	T	T	14133942	2	4	122	1	0	0	0	0	0	0	0	1	3044	796	28	2		2	CD83	6	14133942	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3028898	14133942	156981125	355	67358											
ATXN1	6310	broad.mit.edu	37	chr6	16328505	16328505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatctcgcgcttcttgggagGcaggcattcgttgctccgct	4	12	13	12	4	2	0	0	0	2	0	5	2	3	1	1	3	1	6	1	3	0	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:16328505G>A	uc003nbt.2	-	8	1008	c.37C>T	c.(37-39)CCT>TCT	p.P13S	ATXN1_uc010jpi.2_Missense_Mutation_p.P13S|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	13					cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				TTCTTGGGAGGCAGGCATTCG	0.602													13	72					0	0	1	0	0		A	16328505	A	A	16328505	3	1	122	1	0	0	0	0	1	0	0	0	1210	1203	42	2	2418	2	ATXN1	6	16328505	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2194563	16328505	154786562	356	67359											
ZNF165	7718	broad.mit.edu	37	chr6	28056560	28056560	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggatgaaggttttggtaAaatcctcacccacaaaaata	16	9	7	9	0	1	1	1	1	0	0	2	2	2	2	3	3	0	2	3	3	6	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:28056560A>G	uc003nkg.2	+	5	1854	c.770A>G	c.(769-771)AAA>AGA	p.K257R	ZNF165_uc003nkh.2_Missense_Mutation_p.K257R|ZNF165_uc003nki.3_Missense_Mutation_p.K257R|ZSCAN12P1_uc003nkj.3_5'Flank	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	257					viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GGTTTTGGTAAAATCCTCACC	0.428													11	75					0	0	1	0	0		G	28056560	G	G	28056560	3	3	122	1	0	0	0	0	1	0	0	0	17765	14	1	3	780	3	ZNF165	6	28056560	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	11728055	28056560	143058507	357	67360											
TRIM26	7726	broad.mit.edu	37	chr6	30166872	30166872	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctccgtagtggggctgaCgtggccatggtatccttagt	6	11	15	9	2	0	1	0	1	0	0	2	1	2	1	3	5	0	4	3	5	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:30166872C>A	uc003npr.2	-	3	218	c.9G>T	c.(7-9)ACG>ACT	p.T3T	TRIM26_uc003nps.2_Silent_p.T3T|TRIM26_uc010jry.2_5'UTR|TRIM26_uc003npt.2_Silent_p.T3T|TRIM26_uc003npu.1_Silent_p.T3T	NM_003449	NP_003440	Q12899	TRI26_HUMAN	tripartite motif-containing 26	3							DNA binding|zinc ion binding			ovary(2)|lung(1)	3						GTGGGGCTGACGTGGCCATGG	0.557													6	38					2.7689e-08	3.10562e-08	1	1	0		A	30166872	A	A	30166872	2	1	122	1	0	0	0	0	0	0	0	1	16526	523	19	5		5	TRIM26	6	30166872	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2110312	30166872	140948195	358	67361											
PPP1R10	5514	broad.mit.edu	37	chr6	30570240	30570240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgggggtcctcctccagagCgacctcctctggcgcctcgg	3	9	13	16	3	1	1	0	0	1	1	6	2	5	1	6	4	1	0	6	4	0	1	rs142321584		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:30570240C>T	uc003nqn.1	-	19	2738	c.2186G>A	c.(2185-2187)CGC>CAC	p.R729H	PPP1R10_uc010jsc.1_Missense_Mutation_p.R383H	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	729	Gly-rich.				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						TCCTCCAGAGCGACCTCCTCT	0.597													5	115					0	0	1	0	0		T	30570240	T	T	30570240	3	4	122	1	0	0	0	0	1	0	0	0	12374	768	27	1	644	1	PPP1R10	6	30570240	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	403368	30570240	140544827	359	67362											
HSPA1L	3305	broad.mit.edu	37	chr6	31779132	31779132	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagaattgacacatcaaaTgtgcctccacccagatcaaa	15	8	6	12	0	3	3	3	1	0	2	4	3	4	3	3	0	1	0	3	0	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:31779132T>C	uc003nxh.2	-	2	801	c.618A>G	c.(616-618)ACA>ACG	p.T206T	HSPA1L_uc010jte.2_Silent_p.T206T	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	206					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						ACACATCAAATGTGCCTCCAC	0.488													15	115					0	0	1	0	0		C	31779132	C	C	31779132	2	2	122	1	0	0	0	0	0	0	0	1	7426	1451	51	3		3	HSPA1L	6	31779132	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1208892	31779132	139335935	360	67363											
CYP21A2	1589	broad.mit.edu	37	chr6	31975180	31975180	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgcagtggacctcctgatCggtggcactgagaccacagc	8	7	13	13	1	0	2	0	2	0	1	2	4	1	3	3	3	2	3	3	3	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:31975180C>T	uc010jtp.2	+	8	991	c.873C>T	c.(871-873)ATC>ATT	p.I291I	CYP21A2_uc011dpb.1_Silent_p.I261I			P08686	CP21A_HUMAN	SubName: Full=Cytochrome P450, family 21, subfamily A, polypeptide 2; SubName: Full=Cytochrome P450 21-hydroxylase; SubName: Full=Cytochrome P450, family 21, subfamily A, polypeptide 2, isoform CRA_b; SubName: Full=DJ34F7.3 (Cytochrome P450, subfamily XXIA (Steroid 21-hydroxylase, congenital adrenal hyperplasia), polypeptide 2 (CYP21, P450c21B)); SubName: Full=cDNA, FLJ95495, Homo sapiens cytochrome P450, family 21, subfamily A, polypeptide 2(CYP21A2), mRNA;	290					glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|steroid 21-monooxygenase activity|steroid binding				0						ACCTCCTGATCGGTGGCACTG	0.597													16	126					0	0	1	0	0		T	31975180	T	T	31975180	2	4	122	1	0	0	0	0	0	0	0	1	4156	874	31	1		1	CYP21A2	6	31975180	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	196048	31975180	139139887	361	67364											
CYP21A2	1589	broad.mit.edu	37	chr6	32007916	32007916	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgcagtggacctcctgatCggtggcactgagaccacagc	8	7	13	13	1	0	2	0	2	0	1	2	4	1	3	3	3	2	3	3	3	0	0	rs143877763	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:32007916C>T	uc003nze.1	+	7	991	c.873C>T	c.(871-873)ATC>ATT	p.I291I	CYP21A2_uc003nzf.1_Silent_p.I261I	NM_000500	NP_000491	P08686	CP21A_HUMAN	cytochrome P450, family 21, subfamily A,	290					glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|steroid 21-monooxygenase activity|steroid binding				0						ACCTCCTGATCGGTGGCACTG	0.607													22	484					0	0	1	0	0		T	32007916	T	T	32007916	2	4	122	1	0	0	0	0	0	0	0	1	4156	874	31	1		1	CYP21A2	6	32007916	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	32736	32007916	139107151	362	67365											
PBX2	5089	broad.mit.edu	37	chr6	32155040	32155040	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcagaggaagggggtgtcgGggagctggtgcggctgtggc	5	7	23	6	2	0	1	0	0	0	1	1	3	0	3	0	8	3	3	0	8	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:32155040G>T	uc003oav.1	-	6	1274	c.1003C>A	c.(1003-1005)CCG>ACG	p.P335T	PBX2_uc003oaw.2_Missense_Mutation_p.P335T	NM_002586	NP_002577	P40425	PBX2_HUMAN	pre-B-cell leukemia homeobox 2	335							transcription factor binding			ovary(1)	1						GGGGGTGTCGGGGAGCTGGTG	0.552													8	63					0.00448238	0.0046132	1	1	0		T	32155040	T	T	32155040	3	4	122	1	0	0	0	0	1	0	0	0	11512	1232	43	5	305	5	PBX2	6	32155040	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	147124	32155040	138960027	363	67366											
BTNL2	56244	broad.mit.edu	37	chr6	32364033	32364033	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacacatgcacagcagggtaAcggtgggatcggtcccacct	10	7	12	12	2	0	0	0	0	0	0	2	1	1	1	2	4	4	3	2	4	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:32364033A>G	uc003obg.1	-	5	861	c.861T>C	c.(859-861)CGT>CGC	p.R287R	BTNL2_uc010jty.1_Silent_p.R10R|BTNL2_uc010jtz.1_RNA|BTNL2_uc010jua.1_Silent_p.R77R	NM_019602	NP_062548	Q9UIR0	BTNL2_HUMAN	butyrophilin-like 2	287	Extracellular (Potential).|Ig-like V-type 3.					integral to membrane				central_nervous_system(1)	1						CAGCAGGGTAACGGTGGGATC	0.557													5	46					0	0	1	0	0		G	32364033	G	G	32364033	2	3	122	1	0	0	0	0	0	0	0	1	1568	30	2	3		3	BTNL2	6	32364033	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	208993	32364033	138751034	364	67367											
GRM4	2914	broad.mit.edu	37	chr6	34003601	34003601	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggtgcacgtgaccatgagCagcatgctgtagcccagcag	10	6	13	12	2	0	2	0	2	0	0	0	2	0	2	2	1	6	6	2	1	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:34003601C>T	uc003oir.3	-	8	2456	c.2286G>A	c.(2284-2286)CTG>CTA	p.L762L	GRM4_uc011dsn.1_Silent_p.L715L|GRM4_uc010jvh.2_Silent_p.L762L|GRM4_uc010jvi.2_Silent_p.L454L|GRM4_uc003oio.2_Silent_p.L454L|GRM4_uc003oip.2_RNA|GRM4_uc011dsl.1_Silent_p.L622L|GRM4_uc003oiq.2_Silent_p.L629L|GRM4_uc011dsm.1_Silent_p.L593L	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	762	Helical; Name=5; (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	TGACCATGAGCAGCATGCTGT	0.602													8	54					0	0	1	0	0		T	34003601	T	T	34003601	2	4	122	1	0	0	0	0	0	0	0	1	6815	697	25	2		2	GRM4	6	34003601	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1639568	34003601	137111466	365	67368											
RPS10	6204	broad.mit.edu	37	chr6	34392485	34392485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtctctggacggctacggcGtagggtggcaggcacaatct	8	8	15	10	3	2	0	0	0	2	0	3	1	2	1	0	6	1	4	0	6	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:34392485G>A	uc003ojm.2	-	3	503	c.283C>T	c.(283-285)CGC>TGC	p.R95C	RPS10_uc003ojn.2_Missense_Mutation_p.R95C	NM_001014	NP_001005	P46783	RS10_HUMAN	ribosomal protein S10	95					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding				0						CGGCTACGGCGTAGGGTGGCA	0.507													3	32					0	0	1	0	0		A	34392485	A	A	34392485	3	1	122	1	0	0	0	0	1	0	0	0	13645	1145	40	1	230	1	RPS10	6	34392485	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	388884	34392485	136722582	366	67369											
ETV7	51513	broad.mit.edu	37	chr6	36339255	36339255	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggccagggtcatccaggtgGccgaagttgctggtaagccc	8	7	15	11	1	1	0	1	0	0	0	2	1	2	0	4	5	2	3	4	5	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:36339255G>A	uc003omb.2	-	5	665	c.516C>T	c.(514-516)GGC>GGT	p.G172G	ETV7_uc003olz.1_Silent_p.G172G|ETV7_uc003oma.1_Silent_p.G117G|ETV7_uc010jwg.2_RNA|ETV7_uc003omc.2_Silent_p.G117G|ETV7_uc010jwj.2_Silent_p.G113G|ETV7_uc010jwh.2_Silent_p.G91G|ETV7_uc010jwi.2_Intron|ETV7_uc011dtl.1_Silent_p.G21G	NM_016135	NP_057219	Q9Y603	ETV7_HUMAN	ets variant 7	172					organ morphogenesis|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						CATCCAGGTGGCCGAAGTTGC	0.632													4	17					0	0	1	0	0		A	36339255	A	A	36339255	2	1	122	1	0	0	0	0	0	0	0	1	5292	1190	42	2		2	ETV7	6	36339255	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1946770	36339255	134775812	367	67370											
DNAH8	1769	broad.mit.edu	37	chr6	38800181	38800181	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaagtttttcgtgaggaCgtgataaactttgcagaagc	11	12	13	5	2	0	3	0	2	0	1	1	5	0	5	0	2	3	2	0	2	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:38800181C>T	uc003ooe.1	+	29	4221	c.3621C>T	c.(3619-3621)GAC>GAT	p.D1207D		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTCGTGAGGACGTGATAAACT	0.333													6	56					0	0	1	0	0		T	38800181	T	T	38800181	2	4	122	1	0	0	0	0	0	0	0	1	4613	535	19	1		1	DNAH8	6	38800181	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2460926	38800181	132314886	368	67371											
KIF6	221458	broad.mit.edu	37	chr6	39688506	39688506	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagctttctcgcttattatTcacaaacccatctgccaaat	11	14	4	12	1	3	0	1	0	2	0	4	0	3	0	2	0	3	3	2	0	5	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:39688506T>C	uc003oot.2	-	2	243	c.148A>G	c.(148-150)AAT>GAT	p.N50D	KIF6_uc011dua.1_Missense_Mutation_p.N50D|KIF6_uc010jxb.1_Missense_Mutation_p.N50D	NM_145027	NP_659464	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	50	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3						CGCTTATTATTCACAAACCCA	0.308													7	48					0	0	1	0	0		C	39688506	C	C	39688506	3	2	122	1	0	0	0	0	1	0	0	0	8324	1783	62	3	2384	3	KIF6	6	39688506	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	888325	39688506	131426561	369	67372											
MOCS1	4337	broad.mit.edu	37	chr6	39877589	39877589	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgcacttacctgcatgctgCcgcttcttcctgcccacagc	5	11	7	18	1	1	0	0	0	1	0	2	0	2	0	4	0	7	4	4	0	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:39877589C>T	uc003opb.2	-	8	1230	c.1092G>A	c.(1090-1092)CGG>CGA	p.R364R	MOCS1_uc003opa.2_Silent_p.R364R|MOCS1_uc003opc.2_Silent_p.R364R|MOCS1_uc003opd.2_Silent_p.R364R|MOCS1_uc003ope.2_Silent_p.R277R	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	364	Molybdenum cofactor biosynthesis protein A.				Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding			ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CTGCATGCTGCCGCTTCTTCC	0.617													6	151					0	0	1	0	0		T	39877589	T	T	39877589	2	4	122	1	0	0	0	0	0	0	0	1	9708	726	26	2		2	MOCS1	6	39877589	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	189083	39877589	131237478	370	67373											
MED20	9477	broad.mit.edu	37	chr6	41884548	41884548	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaagggtagaggcggcCgtatggtaagtctcacagtc	9	8	14	10	2	1	1	1	0	1	1	3	1	1	1	2	4	1	3	2	4	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:41884548C>T	uc003ork.2	-	2	265	c.144G>A	c.(142-144)ACG>ACA	p.T48T	MED20_uc003orj.2_5'UTR|MED20_uc011duh.1_Silent_p.T48T|MED20_uc011dui.1_RNA|MED20_uc011duj.1_Intron	NM_004275	NP_004266	Q9H944	MED20_HUMAN	Trf (TATA binding protein-related	48					regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	mediator complex	DNA-directed RNA polymerase activity|protein binding				0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000367)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TAGAGGCGGCCGTATGGTAAG	0.493													25	129					0	0	1	0	0		T	41884548	T	T	41884548	2	4	122	1	0	0	0	0	0	0	0	1	9456	639	23	1		1	MED20	6	41884548	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2006959	41884548	129230519	371	67374											
CUL7	9820	broad.mit.edu	37	chr6	43018788	43018788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcataatcatccagcatcCgcactcgcatccccggctgc	8	8	6	19	3	2	0	2	0	0	0	6	0	5	0	5	1	2	4	5	1	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:43018788C>T	uc003otq.2	-	4	1454	c.1151G>A	c.(1150-1152)CGG>CAG	p.R384Q	CUL7_uc011dvb.1_Missense_Mutation_p.R468Q|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	384	Interaction with TP53.				interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			ATCCAGCATCCGCACTCGCAT	0.567													19	112					0	0	1	0	0		T	43018788	T	T	43018788	3	4	122	1	0	0	0	0	1	0	0	0	4063	652	23	1	4037	1	CUL7	6	43018788	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1134240	43018788	128096279	372	67375											
TTBK1	84630	broad.mit.edu	37	chr6	43250532	43250532	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgcctctgagtctgccctAccaggacttcaaaagagacc	10	9	9	13	0	3	2	1	1	2	1	3	4	3	3	4	1	3	0	4	1	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:43250532A>G	uc003ouq.1	+	14	2333	c.2054A>G	c.(2053-2055)TAC>TGC	p.Y685C		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	685	Potential.					cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			AGTCTGCCCTACCAGGACTTC	0.617													34	184					0	0	1	0	0		G	43250532	G	G	43250532	3	3	122	1	0	0	0	0	1	0	0	0	16702	391	14	3	2104	3	TTBK1	6	43250532	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	231744	43250532	127864535	373	67376											
ZNF318	24149	broad.mit.edu	37	chr6	43305046	43305046	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaccaaattcagagggtcGccactgtcatcatctacttg	11	12	7	11	1	4	1	3	0	1	1	5	1	4	1	2	1	2	0	2	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:43305046G>A	uc003oux.2	-	10	6768	c.6690C>T	c.(6688-6690)GGC>GGT	p.G2230G	ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	2230					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			TCAGAGGGTCGCCACTGTCAT	0.478													9	68					0	0	1	0	0		A	43305046	A	A	43305046	2	1	122	1	0	0	0	0	0	0	0	1	17861	1074	38	1		1	ZNF318	6	43305046	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	54514	43305046	127810021	374	67377											
AARS2	57505	broad.mit.edu	37	chr6	44271116	44271116	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctgccccacggcctcctgCacagtgttctccactgcccg	4	9	8	20	2	1	0	0	0	1	0	4	0	3	0	7	1	3	2	7	1	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:44271116C>A	uc010jza.1	-	15	2055	c.2052G>T	c.(2050-2052)GTG>GTT	p.V684V	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	684					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	CGGCCTCCTGCACAGTGTTCT	0.627													7	48					1.06961e-07	1.19299e-07	1	1	0		A	44271116	A	A	44271116	2	1	122	1	0	0	0	0	0	0	0	1	20	697	25	5		5	AARS2	6	44271116	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	966070	44271116	126843951	375	67378											
CDC5L	988	broad.mit.edu	37	chr6	44376246	44376246	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaaattgcacgtcaaacTgccgaggaatctggcataac	14	8	10	9	2	2	1	1	1	1	0	2	3	2	2	1	2	4	2	1	2	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:44376246T>C	uc003oxl.2	+	8	1228	c.969T>C	c.(967-969)ACT>ACC	p.T323T		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	323	Interaction with PPP1R8.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CACGTCAAACTGCCGAGGAAT	0.418													13	98					0	0	1	0	0		C	44376246	C	C	44376246	2	2	122	1	0	0	0	0	0	0	0	1	3085	1567	55	3		3	CDC5L	6	44376246	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	105130	44376246	126738821	376	67379											
PLA2G7	7941	broad.mit.edu	37	chr6	46677119	46677119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttgctccaccaaaagaatGtccaattactgctatttttt	11	15	5	10	1	0	1	0	0	0	1	2	1	2	1	3	0	3	3	3	0	6	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:46677119G>A	uc010jzf.2	-	9	1083	c.814C>T	c.(814-816)CAT>TAT	p.H272Y	PLA2G7_uc010jzg.1_Missense_Mutation_p.H272Y	NM_005084	NP_005075	Q13093	PAFA_HUMAN	phospholipase A2, group VII	272					inflammatory response|lipid catabolic process	extracellular space	1-alkyl-2-acetylglycerophosphocholine esterase activity|phospholipid binding				0			Lung(136;0.192)			CCAAAAGAATGTCCAATTACT	0.313													14	90					0	0	1	0	0		A	46677119	A	A	46677119	3	1	122	1	0	0	0	0	1	0	0	0	12028	1377	48	4	527	4	PLA2G7	6	46677119	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2300873	46677119	124437948	377	67380											
TFAP2D	83741	broad.mit.edu	37	chr6	50683193	50683193	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgagcagaggcgggagctggGctgcctcgatgcctaccgcc	6	5	16	14	4	0	1	0	0	0	1	1	4	0	2	4	3	5	3	4	3	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:50683193G>C	uc003paf.2	+	2	916	c.404G>C	c.(403-405)GGC>GCC	p.G135A	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	135							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					CGGGAGCTGGGCTGCCTCGAT	0.622													20	110					0	0	1	0	0		C	50683193	C	C	50683193	3	2	122	1	0	0	0	0	1	0	0	0	15815	1203	42	5	410	5	TFAP2D	6	50683193	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4006074	50683193	120431874	378	67381											
PKHD1	5314	broad.mit.edu	37	chr6	51613339	51613339	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgcatgaatgcccccGccacagctctggtgcagagt	8	7	12	14	1	1	2	0	1	1	1	1	2	1	2	3	1	5	5	3	1	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:51613339G>A	uc003pah.1	-	58	9351	c.9075C>T	c.(9073-9075)GGC>GGT	p.G3025G	PKHD1_uc010jzn.1_Silent_p.G1008G|PKHD1_uc003pai.2_Silent_p.G3025G	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3025	Extracellular (Potential).|PbH1 7.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GAATGCCCCCGCCACAGCTCT	0.458													13	81					0	0	1	0	0		A	51613339	A	A	51613339	2	1	122	1	0	0	0	0	0	0	0	1	11990	1074	38	1		1	PKHD1	6	51613339	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	930146	51613339	119501728	379	67382											
MYO6	4646	broad.mit.edu	37	chr6	76564979	76564979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catgctaacaacagcaggggGcaccaaaggaacagttataa	17	5	10	9	0	0	0	0	0	0	0	0	1	0	1	1	3	5	4	1	3	6	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:76564979G>A	uc003pih.1	+	12	1481	c.1202G>A	c.(1201-1203)GGC>GAC	p.G401D	MYO6_uc003pig.1_Missense_Mutation_p.G401D|MYO6_uc003pii.1_Missense_Mutation_p.G401D	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	401	Myosin head-like.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		ACAGCAGGGGGCACCAAAGGA	0.383													7	33					0	0	1	0	0		A	76564979	A	A	76564979	3	1	122	1	0	0	0	0	1	0	0	0	10099	1203	42	2	1244	2	MYO6	6	76564979	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	24951640	76564979	94550088	380	67383											
MYO6	4646	broad.mit.edu	37	chr6	76623846	76623846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaatgaaccgacagcaacGcttcttccgcatcccattca	12	9	6	14	3	2	2	1	2	1	0	4	3	4	2	3	0	3	3	3	0	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:76623846G>A	uc003pih.1	+	34	3785	c.3506G>A	c.(3505-3507)CGC>CAC	p.R1169H	MYO6_uc003pii.1_Missense_Mutation_p.R1146H|MYO6_uc003pij.1_Missense_Mutation_p.R117H	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	1178					actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		CGACAGCAACGCTTCTTCCGC	0.498													29	168					0	0	1	0	0		A	76623846	A	A	76623846	3	1	122	1	0	0	0	0	1	0	0	0	10099	1087	38	1	3636	1	MYO6	6	76623846	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	58867	76623846	94491221	381	67384											
IBTK	25998	broad.mit.edu	37	chr6	82911177	82911177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagatccttcaaaacacCatcgcttaaaacatcaagag	19	7	5	10	1	2	3	2	0	0	3	4	3	3	3	2	0	2	1	2	0	6	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:82911177C>T	uc003pjl.1	-	19	3279	c.2752G>A	c.(2752-2754)GGT>AGT	p.G918S	IBTK_uc011dyu.1_5'UTR|IBTK_uc011dyv.1_Missense_Mutation_p.G918S|IBTK_uc011dyw.1_Missense_Mutation_p.G717S|IBTK_uc010kbi.1_Missense_Mutation_p.G612S|IBTK_uc003pjm.2_Missense_Mutation_p.G918S	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	918					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		TTCAAAACACCATCGCTTAAA	0.318													5	33					0	0	1	0	0		T	82911177	T	T	82911177	3	4	122	1	0	0	0	0	1	0	0	0	7492	594	21	4	1353	4	IBTK	6	82911177	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	6287331	82911177	88203890	382	67385											
ZNF292	23036	broad.mit.edu	37	chr6	87964573	87964573	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattatgctgtggaaatgtTgtataatcagccagaccaga	13	12	10	6	0	1	2	1	0	0	2	1	3	1	3	2	1	2	4	2	1	5	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:87964573T>A	uc003plm.3	+	8	1267	c.1226T>A	c.(1225-1227)TTG>TAG	p.L409*		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	409					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		GTGGAAATGTTGTATAATCAG	0.378													8	41					0	0	1	0	0		A	87964573	A	A	87964573	4	1	122	1	0	0	0	0	0	1	0	0	17851	1821	63	5	1256	5	ZNF292	6	87964573	Nonsense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	5053396	87964573	83150494	383	67386											
MDN1	23195	broad.mit.edu	37	chr6	90366466	90366466	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggccaactgggcaatgaAattcgattcatggccttctg	10	10	12	9	1	2	1	1	1	1	0	3	3	2	2	2	4	1	1	2	4	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:90366466A>C	uc003pnn.1	-	91	15354	c.15238T>G	c.(15238-15240)TTC>GTC	p.F5080V		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5080					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TGGGCAATGAAATTCGATTCA	0.458													33	201					0	0	1	0	0		C	90366466	C	C	90366466	3	2	122	1	0	0	0	0	1	0	0	0	9433	14	1	5	1600	5	MDN1	6	90366466	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2401893	90366466	80748601	384	67387											
MANEA	79694	broad.mit.edu	37	chr6	96034484	96034484	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgaactattcatttggggAaaaattttgatttccaaaag	16	13	7	5	1	1	1	1	1	0	0	2	3	2	2	1	2	2	0	1	2	7	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:96034484A>G	uc003poo.1	+	2	309	c.169A>G	c.(169-171)AAA>GAA	p.K57E	MANEA_uc003pon.2_Missense_Mutation_p.K57E	NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	57	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		TCATTTGGGGAAAAATTTTGA	0.358													10	76					0	0	1	0	0		G	96034484	G	G	96034484	3	3	122	1	0	0	0	0	1	0	0	0	9239	247	9	3	171	3	MANEA	6	96034484	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	5668018	96034484	75080583	385	67388											
KLHL32	114792	broad.mit.edu	37	chr6	97562303	97562303	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgatattgccccaagaagaaCaaatggacttttgttcagtc	13	11	8	9	1	1	2	1	0	0	2	2	4	1	3	2	1	2	1	2	1	5	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:97562303C>A	uc010kcm.1	+	7	1744	c.1272C>A	c.(1270-1272)AAC>AAA	p.N424K	KLHL32_uc003poy.2_Missense_Mutation_p.N424K|KLHL32_uc011ead.1_Missense_Mutation_p.N388K|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Missense_Mutation_p.N355K|KLHL32_uc003ppa.2_Intron	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	424	Kelch 3.									ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		CCAAGAAGAACAAATGGACTT	0.473													12	67					3.07112e-06	3.33237e-06	1	1	0		A	97562303	A	A	97562303	3	1	122	1	0	0	0	0	1	0	0	0	8402	477	17	5	1294	5	KLHL32	6	97562303	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1527819	97562303	73552764	386	67389											
ASCC3	10973	broad.mit.edu	37	chr6	101086686	101086686	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtgattggtaaaggctgaaGatccagtaattctgaaaaga	15	11	11	4	0	1	5	0	3	1	2	2	5	2	5	1	2	0	3	1	2	6	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:101086686G>C	uc003pqk.2	-	25	4242	c.3913C>G	c.(3913-3915)CTT>GTT	p.L1305V		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1305					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		AAAGGCTGAAGATCCAGTAAT	0.348													18	135					0	0	1	0	0		C	101086686	C	C	101086686	3	2	122	1	0	0	0	0	1	0	0	0	1034	942	33	5	2767	5	ASCC3	6	101086686	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3524383	101086686	70028381	387	67390											
PRDM1	639	broad.mit.edu	37	chr6	106555298	106555298	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcatgaagttgcctcccagCaacccactacctctggtacc	9	9	6	17	0	2	1	1	1	1	0	3	1	3	1	5	1	5	3	5	1	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:106555298C>T	uc003prd.2	+	7	2649	c.2415C>T	c.(2413-2415)AGC>AGT	p.S805S	PRDM1_uc003pre.2_Silent_p.S671S	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	805					negative regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(54)|ovary(1)|skin(1)	56	Breast(9;0.022)	all_cancers(87;2.2e-31)|all_epithelial(87;2.03e-21)|Acute lymphoblastic leukemia(125;4.99e-11)|all_lung(197;7.55e-09)|all_hematologic(75;5.82e-08)|Lung NSC(302;1.28e-06)|Colorectal(196;0.0112)|Ovarian(999;0.0365)		all cancers(137;1.83e-46)|Epithelial(106;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(136;1.99e-20)|GBM - Glioblastoma multiforme(226;3.72e-11)|BRCA - Breast invasive adenocarcinoma(108;1.38e-05)		TGCCTCCCAGCAACCCACTAC	0.418			D|N|Mis|F|S		DLBCL								11	99					0	0	1	0	0		T	106555298	T	T	106555298	2	4	122	1	0	0	0	0	0	0	0	1	12472	709	25	2		2	PRDM1	6	106555298	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5468612	106555298	64559769	388	67391											
BEND3	57673	broad.mit.edu	37	chr6	107390934	107390934	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggtcgccttcactgccCgcgtccagccccaggccctc	3	6	13	19	3	1	0	1	0	0	0	4	0	2	0	6	4	2	0	6	4	0	1	rs143332621		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:107390934C>T	uc003prs.2	-	5	2111	c.1461G>A	c.(1459-1461)GCG>GCA	p.A487A		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	487	BEN 2.									ovary(3)	3						CTTCACTGCCCGCGTCCAGCC	0.647													7	46					0	0	1	0	0		T	107390934	T	T	107390934	2	4	122	1	0	0	0	0	0	0	0	1	1400	639	23	1		1	BEND3	6	107390934	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	835636	107390934	63724133	389	67392											
SOBP	55084	broad.mit.edu	37	chr6	107955346	107955346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtccaaccccatgcttcccgGcatcgggcccccgcccggtg	4	6	11	20	4	0	0	0	0	0	0	3	0	2	0	7	3	2	2	7	3	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:107955346G>A	uc003prx.2	+	6	1802	c.1298G>A	c.(1297-1299)GGC>GAC	p.G433D		NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	433	Pro-rich.						metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)		ATGCTTCCCGGCATCGGGCCC	0.706													19	133					0	0	1	0	0		A	107955346	A	A	107955346	3	1	122	1	0	0	0	0	1	0	0	0	14937	1203	42	2	1320	2	SOBP	6	107955346	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	564412	107955346	63159721	390	67393											
FYN	2534	broad.mit.edu	37	chr6	111995713	111995713	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcttacctgggtatggcActcttcctttggtgaccagc	5	14	10	12	0	2	1	0	1	2	0	3	1	3	1	3	3	3	3	3	3	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:111995713A>G	uc003pvj.2	-	12	1734	c.1394T>C	c.(1393-1395)GTG>GCG	p.V465A	FYN_uc003pvi.2_Missense_Mutation_p.V410A|FYN_uc003pvk.2_Missense_Mutation_p.V465A|FYN_uc003pvh.2_Missense_Mutation_p.V462A	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	465	Protein kinase.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	TGGGTATGGCACTCTTCCTTT	0.517													27	210					0	0	1	0	0		G	111995713	G	G	111995713	3	3	122	1	0	0	0	0	1	0	0	0	6140	159	6	3	227	3	FYN	6	111995713	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	4040367	111995713	59119354	391	67394											
GOPC	57120	broad.mit.edu	37	chr6	117884447	117884447	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttatgatacagagtgtgCagatcatctaattttgaagc	12	16	8	5	0	2	4	1	2	1	2	2	4	2	4	0	0	3	1	0	0	4	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:117884447C>T	uc003pxu.2	-	9	1589	c.1359G>A	c.(1357-1359)CTG>CTA	p.L453L	GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxs.2_Intron|GOPC_uc003pxv.2_Silent_p.L445L	NM_020399	NP_065132	Q9HD26	GOPC_HUMAN	golgi associated PDZ and coiled-coil motif	453					apical protein localization|cytoplasmic sequestering of CFTR protein|ER to Golgi vesicle-mediated transport|Golgi to plasma membrane transport|protein homooligomerization|protein transport	cell junction|dendrite|Golgi membrane|postsynaptic density|postsynaptic membrane|trans-Golgi network transport vesicle	cystic fibrosis transmembrane conductance regulator binding			ovary(1)	1		all_cancers(87;0.00844)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0363)|OV - Ovarian serous cystadenocarcinoma(136;0.0821)|all cancers(137;0.0976)		ACAGAGTGTGCAGATCATCTA	0.393			O	ROS1	glioblastoma								10	96					0	0	1	0	0		T	117884447	T	T	117884447	2	4	122	1	0	0	0	0	0	0	0	1	6588	697	25	2		2	GOPC	6	117884447	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5888734	117884447	53230620	392	67395											
GJA1	2697	broad.mit.edu	37	chr6	121768598	121768598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggactgtttcctctctcGccccacggagaaaaccatct	8	10	9	14	2	2	1	0	0	2	1	5	3	3	2	4	3	1	1	4	3	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:121768598G>A	uc003pyr.2	+	2	855	c.605G>A	c.(604-606)CGC>CAC	p.R202H	GJA1_uc011ebo.1_Missense_Mutation_p.R103H|GJA1_uc011ebp.1_5'UTR	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	202	Extracellular (Potential).		R -> H (in ODDD).		cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	TTCCTCTCTCGCCCCACGGAG	0.473													20	135					0	0	1	0	0		A	121768598	A	A	121768598	3	1	122	1	0	0	0	0	1	0	0	0	6415	1087	38	1	607	1	GJA1	6	121768598	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3884151	121768598	49346469	393	67396											
NKAIN2	154215	broad.mit.edu	37	chr6	124979412	124979412	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccaggatgtacggtgacGtcagtgacacctgccccaga	10	6	13	12	2	1	3	1	2	0	1	1	5	1	5	4	3	2	1	4	3	1	1	rs142736368	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:124979412G>A	uc003pzo.2	+	4	631	c.354G>A	c.(352-354)ACG>ACA	p.T118T	NKAIN2_uc003pzn.1_Silent_p.T118T|NKAIN2_uc003pzp.2_Silent_p.T117T|NKAIN2_uc010keq.2_Intron|NKAIN2_uc010ker.2_Silent_p.T28T	NM_001040214	NP_001035304	Q5VXU1	NKAI2_HUMAN	T-cell lymphoma breakpoint-associated target 1	118						integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)		GTACGGTGACGTCAGTGACAC	0.488													13	104					0	0	1	0	0		A	124979412	A	A	124979412	2	1	122	1	0	0	0	0	0	0	0	1	10455	1132	40	1		1	NKAIN2	6	124979412	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3210814	124979412	46135655	394	67397											
TCF21	6943	broad.mit.edu	37	chr6	134210757	134210757	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccctgagcggggtcagccaGgaggggaagcaggtccagcg	8	3	18	12	2	1	1	1	1	0	0	2	3	2	3	4	6	4	1	4	6	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:134210757G>T	uc003qei.3	+	1	498	c.222G>T	c.(220-222)CAG>CAT	p.Q74H	uc003qeg.1_5'Flank|TCF21_uc003qej.2_Missense_Mutation_p.Q74H	NM_003206	NP_003197	O43680	TCF21_HUMAN	transcription factor 21	74					branching involved in ureteric bud morphogenesis|mesoderm development|negative regulation of androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus	androgen receptor binding|E-box binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity				0	Colorectal(23;0.221)|Breast(56;0.247)			GBM - Glioblastoma multiforme(68;0.00518)|OV - Ovarian serous cystadenocarcinoma(155;0.00783)		GGGTCAGCCAGGAGGGGAAGC	0.687													9	46					0.00448238	0.0046132	1	1	0		T	134210757	T	T	134210757	3	4	122	1	0	0	0	0	1	0	0	0	15716	991	35	5	224	5	TCF21	6	134210757	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	9231345	134210757	36904310	395	67398											
SLC35D3	340146	broad.mit.edu	37	chr6	137245685	137245685	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggtcaggggcagccccCgaggagtcccgctggtggct	7	5	17	12	2	1	1	1	0	0	1	2	3	2	2	3	6	1	3	3	6	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:137245685C>T	uc003qhe.2	+	2	1267	c.1102C>T	c.(1102-1104)CGA>TGA	p.R368*		NM_001008783	NP_001008783	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	368					carbohydrate transport	integral to membrane				ovary(1)|central_nervous_system(1)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		GGGCAGCCCCCGAGGAGTCCC	0.637													3	43					0	0	1	0	0		T	137245685	T	T	137245685	4	4	122	1	0	0	0	0	0	1	0	0	14608	644	23	1	1108	1	SLC35D3	6	137245685	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3034928	137245685	33869382	396	67399											
NMBR	4829	broad.mit.edu	37	chr6	142409452	142409452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgacagggatcagtttgcagCccaccttgccaaacatccac	11	8	8	14	0	1	1	1	1	0	0	2	2	2	2	4	1	4	2	4	1	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:142409452C>T	uc003qiu.2	-	1	485	c.344G>A	c.(343-345)GGC>GAC	p.G115D		NM_002511	NP_002502	P28336	NMBR_HUMAN	neuromedin B receptor	115	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			central_nervous_system(3)|breast(1)	4	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		CAGTTTGCAGCCCACCTTGCC	0.602													6	59					0	0	1	0	0		T	142409452	T	T	142409452	3	4	122	1	0	0	0	0	1	0	0	0	10506	739	26	2	840	2	NMBR	6	142409452	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5163767	142409452	28705615	397	67400											
GRM1	2911	broad.mit.edu	37	chr6	146755425	146755425	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagcaaccccctccacaGcagaaatcgctgatggacca	13	4	8	16	1	0	2	0	1	0	1	2	3	1	3	4	1	4	4	4	1	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:146755425G>T	uc010khw.1	+	9	3548	c.3078G>T	c.(3076-3078)CAG>CAT	p.Q1026H	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	1026	Gln/Pro-rich.|Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CCCCTCCACAGCAGAAATCGC	0.662													16	122					1.62849e-17	1.91428e-17	1	1	0		T	146755425	T	T	146755425	3	4	122	1	0	0	0	0	1	0	0	0	6812	962	34	5	3173	5	GRM1	6	146755425	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4345973	146755425	24359642	398	67401											
LATS1	9113	broad.mit.edu	37	chr6	150016224	150016224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatcacctggtttcatgctgGcattaataggtctggcagct	9	13	10	9	0	3	0	2	0	1	0	3	0	3	0	1	4	2	5	1	4	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:150016224G>A	uc003qmu.1	-	3	1030	c.482C>T	c.(481-483)GCC>GTC	p.A161V	LATS1_uc010kif.1_Missense_Mutation_p.A56V|LATS1_uc003qmv.1_Missense_Mutation_p.A161V|LATS1_uc003qmw.2_Missense_Mutation_p.A161V|LATS1_uc010kig.1_Missense_Mutation_p.A56V	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	161					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		TTTCATGCTGGCATTAATAGG	0.358													15	86					0	0	1	0	0		A	150016224	A	A	150016224	3	1	122	1	0	0	0	0	1	0	0	0	8662	1203	42	2	2934	2	LATS1	6	150016224	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3260799	150016224	21098843	399	67402											
MTHFD1L	25902	broad.mit.edu	37	chr6	151336756	151336756	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgttggtggaaaaggatCggtggacttggctcgggctg	6	10	18	7	3	0	0	0	0	0	0	3	3	1	3	1	7	0	3	1	7	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:151336756C>A	uc003qob.2	+	24	2781	c.2513C>A	c.(2512-2514)TCG>TAG	p.S838*	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Nonsense_Mutation_p.S839*|MTHFD1L_uc003qoc.2_Nonsense_Mutation_p.S786*	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	838	Formyltetrahydrofolate synthetase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		GGAAAAGGATCGGTGGACTTG	0.522													15	89					6.72482e-11	7.6718e-11	1	1	0		A	151336756	A	A	151336756	4	1	122	1	0	0	0	0	0	1	0	0	9946	893	31	5	2607	5	MTHFD1L	6	151336756	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1320532	151336756	19778311	400	67403											
IGF2R	3482	broad.mit.edu	37	chr6	160501183	160501183	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgatgacggcgtcccctgTgtcttccccttcatattcaa	7	12	7	15	3	3	1	2	1	1	0	5	2	5	1	5	1	0	0	5	1	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:160501183T>C	uc003qta.2	+	39	5857	c.5709T>C	c.(5707-5709)TGT>TGC	p.C1903C		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1903	13.|Lumenal (Potential).|Fibronectin type-II.				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GCGTCCCCTGTGTCTTCCCCT	0.537													24	120					0	0	1	0	0		C	160501183	C	C	160501183	2	2	122	1	0	0	0	0	0	0	0	1	7592	1702	59	3		3	IGF2R	6	160501183	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	9164427	160501183	10613884	401	67404											
MAP3K4	4216	broad.mit.edu	37	chr6	161470592	161470592	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggccagtgtttgaaatcCcttcccctcgaccatccaaa	9	10	7	15	1	0	1	0	1	0	0	4	2	3	1	6	1	0	2	6	1	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:161470592C>A	uc003qtn.2	+	3	1430	c.1288C>A	c.(1288-1290)CCT>ACT	p.P430T	MAP3K4_uc010kkc.1_Missense_Mutation_p.P430T|MAP3K4_uc003qto.2_Missense_Mutation_p.P430T|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_5'UTR	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	430					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		GTTTGAAATCCCTTCCCCTCG	0.418													11	72					0.000978159	0.0010163	1	1	0		A	161470592	A	A	161470592	3	1	122	1	0	0	0	0	1	0	0	0	9270	623	22	5	1298	5	MAP3K4	6	161470592	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	969409	161470592	9644475	402	67405											
MAP3K4	4216	broad.mit.edu	37	chr6	161514015	161514015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcgtgtaccaggtgggCgactcaaggatttgattttc	7	16	11	7	2	1	1	1	1	0	0	3	3	1	2	1	3	1	1	1	3	2	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:161514015C>T	uc003qtn.2	+	14	3417	c.3275C>T	c.(3274-3276)GCG>GTG	p.A1092V	MAP3K4_uc010kkc.1_Missense_Mutation_p.A1092V|MAP3K4_uc003qto.2_Missense_Mutation_p.A1092V|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.A545V|MAP3K4_uc003qtp.2_Missense_Mutation_p.A82V	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	1092					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		ACCAGGTGGGCGACTCAAGGA	0.338													7	64					0	0	1	0	0		T	161514015	T	T	161514015	3	4	122	1	0	0	0	0	1	0	0	0	9270	768	27	1	3329	1	MAP3K4	6	161514015	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	43423	161514015	9601052	403	67406											
PDE10A	10846	broad.mit.edu	37	chr6	165846548	165846548	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcaccaattgcagtgacaaTtggtaagcaaagaacagact	16	8	9	8	0	1	3	1	1	0	2	1	3	1	3	1	1	3	3	1	1	5	3	rs139733232		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:165846548T>A	uc003qun.2	-	8	818	c.577A>T	c.(577-579)ATT>TTT	p.I193F	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.I123F|PDE10A_uc003quo.2_Missense_Mutation_p.I203F	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	193	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	GCAGTGACAATTGGTAAGCAA	0.428													11	57					0	0	1	0	0		A	165846548	A	A	165846548	3	1	122	1	0	0	0	0	1	0	0	0	11649	1493	52	5	1826	5	PDE10A	6	165846548	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	4332533	165846548	5268519	404	67407											
WDR27	253769	broad.mit.edu	37	chr6	170059238	170059238	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgctgagccctgactagCgcggccgggttgatctccaa	7	8	12	14	3	1	3	0	3	1	0	2	3	1	3	3	2	3	2	3	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr6:170059238C>T	uc003qwx.2	-	12	1783	c.1263G>A	c.(1261-1263)GCG>GCA	p.A421A	WDR27_uc003qwv.1_RNA|WDR27_uc010kkw.1_Silent_p.A421A|WDR27_uc003qwy.2_Silent_p.A294A|WDR27_uc003qwz.1_Silent_p.A154A			A2RRH5	WDR27_HUMAN	RecName: Full=WD repeat-containing protein 27;	391										pancreas(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.216)		OV - Ovarian serous cystadenocarcinoma(33;6.48e-20)|BRCA - Breast invasive adenocarcinoma(81;3.56e-07)|GBM - Glioblastoma multiforme(31;0.00168)		CCCTGACTAGCGCGGCCGGGT	0.597													27	121					0	0	1	0	0		T	170059238	T	T	170059238	2	4	122	1	0	0	0	0	0	0	0	1	17310	755	27	1		1	WDR27	6	170059238	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	4212690	170059238	1055829	405	67408											
MIOS	54468	broad.mit.edu	37	chr7	7612108	7612108	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgatcacatcagtaaacaTgagcggtaccaaacctgata	15	10	7	9	1	2	3	2	3	0	0	2	3	2	3	2	1	4	2	2	1	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:7612108T>C	uc003srf.2	+	4	310	c.2T>C	c.(1-3)ATG>ACG	p.M1T	MIOS_uc010ktp.1_Missense_Mutation_p.M1T	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	1											0						TCAGTAAACATGAGCGGTACC	0.348													4	36					0	0	1	0	0		C	7612108	C	C	7612108	3	2	122	1	0	0	0	0	1	0	0	0	9607	1464	51	3	4	3	MIOS	7	7612108	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08		7612108	151526555	406	67409											
NXPH1	30010	broad.mit.edu	37	chr7	8475382	8475382	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtgcttttcctcctgcaGcccaccgtctacttggtaag	6	13	8	14	2	1	0	0	0	1	0	3	0	3	0	4	1	5	3	4	1	3	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:8475382G>A	uc003srv.2	+	2	950	c.39G>A	c.(37-39)CAG>CAA	p.Q13Q	NXPH1_uc011jxh.1_5'UTR	NM_152745	NP_689958	P58417	NXPH1_HUMAN	neurexophilin 1 precursor	13						extracellular region				ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0628)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)		TCCTCCTGCAGCCCACCGTCT	0.557													19	104					0	0	1	0	0		A	8475382	A	A	8475382	2	1	122	1	0	0	0	0	0	0	0	1	10809	962	34	2		2	NXPH1	7	8475382	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	863274	8475382	150663281	407	67410											
THSD7A	221981	broad.mit.edu	37	chr7	11485856	11485856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtctgaccagttccccaCaggttgtgcattatatttgt	9	14	8	10	0	1	1	0	1	1	0	2	1	2	1	3	1	1	3	3	1	2	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:11485856C>T	uc003ssf.3	-	13	3148	c.2896G>A	c.(2896-2898)GTG>ATG	p.V966M		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	966	TSP type-1 10.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		CAGTTCCCCACAGGTTGTGCA	0.403										HNSCC(18;0.044)			20	140					0	0	1	0	0		T	11485856	T	T	11485856	3	4	122	1	0	0	0	0	1	0	0	0	15904	478	17	4	2137	4	THSD7A	7	11485856	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3010474	11485856	147652807	408	67411											
MEOX2	4223	broad.mit.edu	37	chr7	15725591	15725591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggcggccgtagtcccccGgcgcgcacgcggccccagtc	3	4	14	20	7	0	0	0	0	0	0	2	0	1	0	6	4	0	2	6	4	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:15725591G>A	uc003stc.2	-	1	718	c.437C>T	c.(436-438)CCG>CTG	p.P146L	MEOX2_uc011jxw.1_Missense_Mutation_p.P146L	NM_005924	NP_005915	P50222	MEOX2_HUMAN	mesenchyme homeobox 2	146					blood circulation|multicellular organismal development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.0822)		GTAGTCCCCCGGCGCGCACGC	0.706													13	95					0	0	1	0	0		A	15725591	A	A	15725591	3	1	122	1	0	0	0	0	1	0	0	0	9492	1116	39	1	489	1	MEOX2	7	15725591	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4239735	15725591	143413072	409	67412											
HOXA4	3201	broad.mit.edu	37	chr7	27170241	27170241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggtagccggggccccCgcccgggccgccgtctgcgc	1	5	16	19	6	1	0	0	0	1	0	1	0	1	0	6	4	3	2	6	4	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:27170241C>T	uc003sym.3	-	1	159	c.112G>A	c.(112-114)GGG>AGG	p.G38R		NM_002141	NP_002132	Q00056	HXA4_HUMAN	homeobox A4	38	Pro-rich (part of the transcriptional activation domain).					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						ccggggcccccgcccgggccg	0.597													3	8					0	0	1	0	0		T	27170241	T	T	27170241	3	4	122	1	0	0	0	0	1	0	0	0	7310	652	23	1	858	1	HOXA4	7	27170241	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	11444650	27170241	131968422	410	67413											
HOXA9	3205	broad.mit.edu	37	chr7	27204787	27204787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccggcgccgccgccgccacgGgcgcctgggggtgcacgtag	3	3	18	17	8	0	0	0	0	0	0	0	0	0	0	6	4	1	2	6	4	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:27204787G>A	uc003syt.2	-	1	363	c.290C>T	c.(289-291)CCC>CTC	p.P97L		NM_152739	NP_689952	P31269	HXA9_HUMAN	homeobox A9	97							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)	2						CGCCGCCACGGGCGCCTGGGG	0.736			T	NUP98|MSI2	AML*								3	18					0	0	1	0	0		A	27204787	A	A	27204787	3	1	122	1	0	0	0	0	1	0	0	0	7314	1232	43	4	536	4	HOXA9	7	27204787	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	34546	27204787	131933876	411	67414											
TAX1BP1	8887	broad.mit.edu	37	chr7	27839705	27839705	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgaagtacaggacaattAtaaagtaagtttggtactcc	15	11	9	6	0	0	1	0	1	0	0	1	2	1	2	1	2	3	5	1	2	8	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:27839705A>T	uc003szl.2	+	13	1918	c.1760A>T	c.(1759-1761)TAT>TTT	p.Y587F	TAX1BP1_uc011jzo.1_Missense_Mutation_p.Y587F|TAX1BP1_uc003szk.2_Missense_Mutation_p.Y587F|TAX1BP1_uc011jzp.1_Missense_Mutation_p.Y430F	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	587	Potential.				anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)			CAGGACAATTATAAAGTAAGT	0.279													4	39					0	0	1	0	0		T	27839705	T	T	27839705	3	4	122	1	0	0	0	0	1	0	0	0	15619	449	16	5	1806	5	TAX1BP1	7	27839705	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	634918	27839705	131298958	412	67415											
CREB5	9586	broad.mit.edu	37	chr7	28763860	28763860	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagcgacaaatgtcagtgAactccagcatcatggggatg	12	8	13	8	1	2	1	2	1	0	0	3	4	3	3	1	3	3	1	1	3	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:28763860A>G	uc003szq.2	+	7	1003	c.613A>G	c.(613-615)AAC>GAC	p.N205D	CREB5_uc003szo.2_Missense_Mutation_p.N172D|CREB5_uc003szr.2_Missense_Mutation_p.N198D|CREB5_uc003szs.2_Missense_Mutation_p.N66D|CREB5_uc011jzr.1_Missense_Mutation_p.N54D	NM_182898	NP_878901	Q02930	CREB5_HUMAN	cAMP responsive element binding protein 5	205					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						AATGTCAGTGAACTCCAGCAT	0.458													3	56					0	0	1	0	0		G	28763860	G	G	28763860	3	3	122	1	0	0	0	0	1	0	0	0	3863	246	9	3	690	3	CREB5	7	28763860	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	924155	28763860	130374803	413	67416											
NOD1	10392	broad.mit.edu	37	chr7	30494838	30494838	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccaaggcctgaggtccacGtaggcatctgcgagttgctg	8	8	14	11	2	1	1	0	1	1	0	2	2	2	1	3	3	3	4	3	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:30494838G>A	uc003tav.2	-	5	814	c.291C>T	c.(289-291)TAC>TAT	p.Y97Y	NOD1_uc010kvs.2_Silent_p.Y97Y	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	97	CARD.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						TGAGGTCCACGTAGGCATCTG	0.587													8	79					0	0	1	0	0		A	30494838	A	A	30494838	2	1	122	1	0	0	0	0	0	0	0	1	10535	1140	40	1		1	NOD1	7	30494838	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1730978	30494838	128643825	414	67417											
TBX20	57057	broad.mit.edu	37	chr7	35244126	35244126	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcccccaagacatcttctTctcctccgtaggtacggatg	8	11	7	15	2	3	1	0	0	3	1	6	2	5	2	4	2	1	2	4	2	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:35244126T>C	uc011kas.1	-	7	970	c.959A>G	c.(958-960)GAA>GGA	p.E320G		NM_001077653	NP_001071121	Q9UMR3	TBX20_HUMAN	T-box transcription factor TBX20	320						nucleus	DNA binding			central_nervous_system(1)	1						GACATCTTCTTCTCCTCCGTA	0.488													9	38					0	0	1	0	0		C	35244126	C	C	35244126	3	2	122	1	0	0	0	0	1	0	0	0	15681	1783	62	3	391	3	TBX20	7	35244126	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	4749288	35244126	123894537	415	67418											
HERPUD2	64224	broad.mit.edu	37	chr7	35674970	35674970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctaggtttggagctggtgggGgttcttctccaggaacatgt	6	13	15	7	0	2	0	0	0	2	0	3	2	2	2	1	6	2	3	1	6	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:35674970G>A	uc003tet.2	-	6	1521	c.716C>T	c.(715-717)CCC>CTC	p.P239L	HERPUD2_uc003tes.3_Missense_Mutation_p.P239L	NM_022373	NP_071768	Q9BSE4	HERP2_HUMAN	HERPUD family member 2	239					response to unfolded protein	integral to membrane				ovary(3)	3						AGCTGGTGGGGGTTCTTCTCC	0.473													18	147					0	0	1	0	0		A	35674970	A	A	35674970	3	1	122	1	0	0	0	0	1	0	0	0	7080	1232	43	4	516	4	HERPUD2	7	35674970	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	430844	35674970	123463693	416	67419											
EPDR1	54749	broad.mit.edu	37	chr7	37988614	37988614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcaggagcagatcaccGtccaggagtggtcggacaga	10	5	15	11	2	2	2	2	0	0	2	4	5	3	5	3	5	1	1	3	5	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:37988614G>A	uc003tfp.2	+	2	821	c.802G>A	c.(802-804)GTC>ATC	p.V268I	EPDR1_uc003tfq.2_Intron|EPDR1_uc010kxh.2_Missense_Mutation_p.V87I	NM_017549	NP_060019	Q9UM22	EPDR1_HUMAN	ependymin related protein 1 precursor	148					cell-matrix adhesion	extracellular region	calcium ion binding			upper_aerodigestive_tract(1)	1						GCAGATCACCGTCCAGGAGTG	0.493													10	82					0	0	1	0	0		A	37988614	A	A	37988614	3	1	122	1	0	0	0	0	1	0	0	0	5171	1145	40	1	808	1	EPDR1	7	37988614	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2313644	37988614	121150049	417	67420											
GLI3	2737	broad.mit.edu	37	chr7	42005509	42005509	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagtttcgggactggccGccctcgggccgcgtgtaatt	5	10	15	11	5	0	0	0	0	0	0	2	2	0	2	3	4	0	2	3	4	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:42005509G>A	uc011kbh.1	-	15	3253	c.3162C>T	c.(3160-3162)GGC>GGT	p.G1054G	GLI3_uc011kbg.1_Silent_p.G995G	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1054					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GGGACTGGCCGCCCTCGGGCC	0.652									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				10	67					0	0	1	0	0		A	42005509	A	A	42005509	2	1	122	1	0	0	0	0	0	0	0	1	6454	1074	38	1		1	GLI3	7	42005509	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4016895	42005509	117133154	418	67421											
HECW1	23072	broad.mit.edu	37	chr7	43477737	43477737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagactcctggagagacacGccatagggtaaacctgtgac	14	6	11	10	1	0	3	0	1	0	2	1	5	1	4	3	2	1	1	3	2	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:43477737G>A	uc003tid.1	+	9	1542	c.937G>A	c.(937-939)GCC>ACC	p.A313T	HECW1_uc011kbi.1_Missense_Mutation_p.A313T|HECW1_uc003tie.1_Missense_Mutation_p.A345T	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	313					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GGAGAGACACGCCATAGGGTA	0.512													8	66					0	0	1	0	0		A	43477737	A	A	43477737	3	1	122	1	0	0	0	0	1	0	0	0	7058	1087	38	1	963	1	HECW1	7	43477737	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1472228	43477737	115660926	419	67422											
PKD1L1	168507	broad.mit.edu	37	chr7	47851635	47851635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgagtcgggacagggctGtgtgggcttcagtcctgtaa	6	10	15	10	1	1	1	1	1	0	0	3	2	2	2	2	3	0	3	2	3	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:47851635G>A	uc003tny.1	-	50	7361	c.7361C>T	c.(7360-7362)ACA>ATA	p.T2454I	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron|PKD1L1_uc003tob.2_Missense_Mutation_p.T181I	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2454	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GGACAGGGCTGTGTGGGCTTC	0.582													3	7					0	0	1	0	0		A	47851635	A	A	47851635	3	1	122	1	0	0	0	0	1	0	0	0	11983	1377	48	4	1220	4	PKD1L1	7	47851635	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4373898	47851635	111287028	420	67423											
POM121L12	285877	broad.mit.edu	37	chr7	53103493	53103493	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcacgccccagaccacGccatctccccagggtcgcca	8	3	8	22	3	1	1	0	0	1	1	3	1	1	1	8	1	1	1	8	1	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:53103493G>A	uc003tpz.2	+	1	145	c.129G>A	c.(127-129)ACG>ACA	p.T43T		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	43											0						CCCAGACCACGCCATCTCCCC	0.682													7	58					0	0	1	0	0		A	53103493	A	A	53103493	2	1	122	1	0	0	0	0	0	0	0	1	12260	1074	38	1		1	POM121L12	7	53103493	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	5251858	53103493	106035170	421	67424											
EGFR	1956	broad.mit.edu	37	chr7	55224270	55224270	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttaaagactcactctccAtaaatgctacgaatattaaa	18	12	3	8	1	2	1	1	0	1	1	3	2	2	1	1	0	2	1	1	0	10	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:55224270A>G	uc003tqk.2	+	9	1297	c.1051A>G	c.(1051-1053)ATA>GTA	p.I351V	EGFR_uc003tqh.2_Missense_Mutation_p.I351V|EGFR_uc003tqi.2_Missense_Mutation_p.I351V|EGFR_uc003tqj.2_Missense_Mutation_p.I351V|EGFR_uc010kzg.1_Missense_Mutation_p.I306V|EGFR_uc011kco.1_Missense_Mutation_p.I298V|EGFR_uc011kcp.1_RNA|EGFR_uc011kcq.1_RNA	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	351	Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	CTCACTCTCCATAAATGCTAC	0.428		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			19	121					0	0	1	0	0		G	55224270	G	G	55224270	3	3	122	1	0	0	0	0	1	0	0	0	4973	217	8	3	1085	3	EGFR	7	55224270	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2120777	55224270	103914393	422	67425											
GUSB	2990	broad.mit.edu	37	chr7	65432725	65432725	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacactgcttacctggtgaAaccctgcaatcgtttctgct	9	12	7	13	1	1	1	0	1	1	0	2	1	1	1	2	1	6	4	2	1	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:65432725A>G	uc003tun.2	-	10	1722	c.1646T>C	c.(1645-1647)TTT>TCT	p.F549S	GUSB_uc011kdt.1_Missense_Mutation_p.F403S	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	549					glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0						TACCTGGTGAAACCCTGCAAT	0.517													12	79					0	0	1	0	0		G	65432725	G	G	65432725	3	3	122	1	0	0	0	0	1	0	0	0	6918	14	1	3	321	3	GUSB	7	65432725	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	10208455	65432725	93705938	423	67426											
AUTS2	26053	broad.mit.edu	37	chr7	69364323	69364323	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaaacgccagacgcccCtgaccaagaagaaacgagaa	17	2	11	11	3	0	6	0	1	0	5	0	8	0	6	4	1	2	0	4	1	5	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:69364323C>A	uc003tvw.3	+	2	1104	c.361C>A	c.(361-363)CTG>ATG	p.L121M	AUTS2_uc003tvv.3_Missense_Mutation_p.L121M|AUTS2_uc003tvx.3_Missense_Mutation_p.L121M	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	121										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CCAGACGCCCCTGACCAAGAA	0.468													11	95					1.08611e-07	1.2069e-07	1	1	0		A	69364323	A	A	69364323	3	1	122	1	0	0	0	0	1	0	0	0	1226	680	24	5	367	5	AUTS2	7	69364323	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3931598	69364323	89774340	424	67427											
AUTS2	26053	broad.mit.edu	37	chr7	69583138	69583138	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaagccaggacagaacagCtgcagggacagtgacagtga	14	4	13	10	0	1	3	1	2	0	1	1	5	1	5	1	2	4	2	1	2	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:69583138C>A	uc003tvw.3	+	3	1286	c.543C>A	c.(541-543)AGC>AGA	p.S181R	AUTS2_uc003tvv.3_Missense_Mutation_p.S181R|AUTS2_uc003tvx.3_Missense_Mutation_p.S181R	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	181										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		GACAGAACAGCTGCAGGGACA	0.443													17	70					4.14922e-12	4.77439e-12	1	1	0		A	69583138	A	A	69583138	3	1	122	1	0	0	0	0	1	0	0	0	1226	796	28	5	553	5	AUTS2	7	69583138	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	218815	69583138	89555525	425	67428											
AUTS2	26053	broad.mit.edu	37	chr7	70255474	70255474	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaccggagagacccgctggGcagggacttcctgctaagga	9	6	14	12	2	1	1	1	0	0	1	2	5	2	4	3	4	1	3	3	4	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:70255474G>C	uc003tvw.3	+	19	4015	c.3272G>C	c.(3271-3273)GGC>GCC	p.G1091A	AUTS2_uc003tvx.3_Missense_Mutation_p.G1067A|AUTS2_uc011keg.1_Missense_Mutation_p.G543A	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	1091										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		GACCCGCTGGGCAGGGACTTC	0.637													4	32					0	0	1	0	0		C	70255474	C	C	70255474	3	2	122	1	0	0	0	0	1	0	0	0	1226	1203	42	5	3491	5	AUTS2	7	70255474	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	672336	70255474	88883189	426	67429											
WBSCR28	135886	broad.mit.edu	37	chr7	73279655	73279655	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatctgtttttgtcatgtctGcacggcctgatgttggtggc	4	16	13	8	1	3	1	1	1	2	0	3	2	3	1	1	3	1	3	1	3	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:73279655G>A	uc003tzk.2	+	2	441	c.405G>A	c.(403-405)CTG>CTA	p.L135L	RFC2_uc011kfa.1_Intron|WBSCR28_uc003tzl.2_Silent_p.L34L	NM_182504	NP_872310	Q6UE05	WBS28_HUMAN	hypothetical protein LOC135886	135	Helical; (Potential).					integral to membrane				breast(1)	1		Lung NSC(55;0.159)				TGTCATGTCTGCACGGCCTGA	0.607													11	57					0	0	1	0	0		A	73279655	A	A	73279655	2	1	122	1	0	0	0	0	0	0	0	1	17293	1306	46	2		2	WBSCR28	7	73279655	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3024181	73279655	85859008	427	67430											
LAT2	7462	broad.mit.edu	37	chr7	73635972	73635972	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgttttcttggccagagaccCcattgccatggagtattaca	9	13	9	10	0	1	1	0	0	1	1	1	3	1	2	4	2	2	2	4	2	2	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:73635972C>A	uc003uag.2	+	10	888	c.338C>A	c.(337-339)CCC>CAC	p.P113H	RFC2_uc011kfa.1_Intron|LAT2_uc003uah.2_Missense_Mutation_p.P113H|LAT2_uc003uai.2_Missense_Mutation_p.P113H|LAT2_uc010lbo.2_Intron	NM_032464	NP_115853	Q9GZY6	NTAL_HUMAN	linker for activation of T cells family member	113	Cytoplasmic (Potential).				B cell activation|B cell receptor signaling pathway|calcium-mediated signaling|mast cell degranulation	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding				0						GCCAGAGACCCCATTGCCATG	0.597													24	176					1.74197e-06	1.90048e-06	1	1	0		A	73635972	A	A	73635972	3	1	122	1	0	0	0	0	1	0	0	0	8661	623	22	5	368	5	LAT2	7	73635972	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	356317	73635972	85502691	428	67431											
SEMA3C	10512	broad.mit.edu	37	chr7	80387683	80387683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaatctggaacaggaatggCcatcccaggcgcaataaggg	14	5	13	9	1	1	1	0	0	1	1	2	3	2	3	2	5	1	1	2	5	5	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:80387683C>T	uc003uhj.2	-	15	2169	c.1607G>A	c.(1606-1608)GGC>GAC	p.G536D	SEMA3C_uc011kgw.1_Missense_Mutation_p.G554D	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	536					immune response|response to drug	membrane	receptor activity			ovary(1)	1						ACAGGAATGGCCATCCCAGGC	0.527													13	96					0	0	1	0	0		T	80387683	T	T	80387683	3	4	122	1	0	0	0	0	1	0	0	0	14051	739	26	2	664	2	SEMA3C	7	80387683	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	6751711	80387683	78750980	429	67432											
SEMA3A	10371	broad.mit.edu	37	chr7	83591011	83591011	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgtgtcaatgacttccagGgttaccttaagaagagtttg	10	14	10	7	0	2	3	1	1	1	2	3	3	3	3	2	1	1	2	2	1	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:83591011G>T	uc003uhz.2	-	17	2307	c.1992C>A	c.(1990-1992)ACC>ACA	p.T664T		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	664	Ig-like C2-type.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						TGACTTCCAGGGTTACCTTAA	0.428													10	87					1.58986e-06	1.73611e-06	1	1	0		T	83591011	T	T	83591011	2	4	122	1	0	0	0	0	0	0	0	1	14049	1219	43	5		5	SEMA3A	7	83591011	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3203328	83591011	75547652	430	67433											
ABCB4	5244	broad.mit.edu	37	chr7	87035769	87035769	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attccgagttgagctctgagCcactggacattgagtttctt	8	14	10	9	1	2	3	0	3	2	0	3	5	3	4	2	1	2	3	2	1	0	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:87035769C>T	uc003uiv.1	-	26	3418	c.3342G>A	c.(3340-3342)TGG>TGA	p.W1114*	ABCB4_uc003uiw.1_Nonsense_Mutation_p.W1107*|ABCB4_uc003uix.1_Nonsense_Mutation_p.W1060*	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	1114	ABC transporter 2.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					GAGCTCTGAGCCACTGGACAT	0.418													13	95					0	0	1	0	0		T	87035769	T	T	87035769	4	4	122	1	0	0	0	0	0	1	0	0	43	740	26	2	530	2	ABCB4	7	87035769	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3444758	87035769	72102894	431	67434											
ZNF804B	219578	broad.mit.edu	37	chr7	88847469	88847469	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttatgtattttttcttaaagGattttgcagaaaagaagtcc	13	17	7	4	0	1	2	0	0	1	2	2	3	2	3	1	1	1	2	1	1	7	8			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:88847469G>C	uc011khi.1	+	2	647	c.109G>C	c.(109-111)GAT>CAT	p.D37H		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	37						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TTTCTTAAAGGATTTTGCAGA	0.348										HNSCC(36;0.09)			11	47					0	0	1	0	0		C	88847469	C	C	88847469	3	2	122	1	0	0	0	0	1	0	0	0	18196	1188	41	5	115	5	ZNF804B	7	88847469	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1811700	88847469	70291194	432	67435											
FZD1	8321	broad.mit.edu	37	chr7	90895674	90895674	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgtggcttcgtgctggcGcccctcttcgtgtacctgtt	1	14	12	14	4	1	0	0	0	1	0	3	0	1	0	3	2	3	4	3	2	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:90895674G>A	uc003ula.2	+	1	1892	c.1479G>A	c.(1477-1479)GCG>GCA	p.A493A		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	493	Helical; Name=5; (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			TCGTGCTGGCGCCCCTCTTCG	0.617													33	211					0	0	1	0	0		A	90895674	A	A	90895674	2	1	122	1	0	0	0	0	0	0	0	1	6142	1074	38	1		1	FZD1	7	90895674	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2048205	90895674	68242989	433	67436											
PPP1R9A	55607	broad.mit.edu	37	chr7	94740588	94740588	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggttttcaacacatactcCaatgaagactatgacaggag	15	9	8	9	0	1	3	1	2	0	1	2	4	2	4	1	2	2	1	1	2	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:94740588C>A	uc003unp.2	+	3	1695	c.1413C>A	c.(1411-1413)TCC>TCA	p.S471S	PPP1R9A_uc010lfj.2_Silent_p.S471S|PPP1R9A_uc011kif.1_Silent_p.S471S|PPP1R9A_uc003unq.2_Silent_p.S471S|PPP1R9A_uc011kig.1_Silent_p.S471S	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	471	Interacts with protein phosphatase 1 (By similarity).					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			ACACATACTCCAATGAAGACT	0.378										HNSCC(28;0.073)			13	62					9.04627e-18	1.06442e-17	1	1	0		A	94740588	A	A	94740588	2	1	122	1	0	0	0	0	0	0	0	1	12400	581	21	5		5	PPP1R9A	7	94740588	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3844914	94740588	64398075	434	67437											
OR2AE1	81392	broad.mit.edu	37	chr7	99474544	99474544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagggtgttgccactcaccGcaataaggaagaccaccatg	12	7	11	11	1	1	2	1	1	0	1	1	3	1	3	4	2	1	2	4	2	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:99474544G>A	uc003usc.1	-	1	113	c.113C>T	c.(112-114)GCG>GTG	p.A38V		NM_001005276	NP_001005276	Q8NHA4	O2AE1_HUMAN	olfactory receptor, family 2, subfamily AE,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)					GCCACTCACCGCAATAAGGAA	0.507													9	65					0	0	1	0	0		A	99474544	A	A	99474544	3	1	122	1	0	0	0	0	1	0	0	0	11002	1087	38	1	862	1	OR2AE1	7	99474544	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4733956	99474544	59664119	435	67438											
TRIM4	89122	broad.mit.edu	37	chr7	99490019	99490019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcaagggccaatagccagCagcactccaataaatcgccc	14	6	7	14	1	1	0	1	0	0	0	3	0	2	0	4	1	3	2	4	1	7	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:99490019C>T	uc003usd.2	-	7	1400	c.1270G>A	c.(1270-1272)GCT>ACT	p.A424T	TRIM4_uc003use.2_Missense_Mutation_p.A398T|TRIM4_uc011kjc.1_Missense_Mutation_p.A254T	NM_033017	NP_148977	Q9C037	TRIM4_HUMAN	tripartite motif protein TRIM4 isoform alpha	424	B30.2/SPRY.				protein trimerization	cytoplasm|plasma membrane	zinc ion binding			ovary(1)|kidney(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)	Ovarian(593;0.238)				CAATAGCCAGCAGCACTCCAA	0.557													34	249					0	0	1	0	0		T	99490019	T	T	99490019	3	4	122	1	0	0	0	0	1	0	0	0	16540	710	25	2	236	2	TRIM4	7	99490019	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	15475	99490019	59648644	436	67439											
SRRT	51593	broad.mit.edu	37	chr7	100483916	100483916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacagggacctgacccggCgcgttcgcaacatcaacggc	10	5	12	14	5	1	2	1	2	0	0	2	3	1	3	2	3	3	2	2	3	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:100483916C>T	uc003uwy.2	+	14	1775	c.1507C>T	c.(1507-1509)CGC>TGC	p.R503C	SRRT_uc010lhl.1_Missense_Mutation_p.R502C|SRRT_uc003uxa.2_Missense_Mutation_p.R502C|SRRT_uc003uwz.2_Missense_Mutation_p.R503C	NM_015908	NP_056992	Q9BXP5	SRRT_HUMAN	arsenate resistance protein 2 isoform a	503					cell proliferation|primary miRNA processing|response to arsenic-containing substance	cytoplasm|nucleoplasm	protein binding			ovary(2)	2						CCTGACCCGGCGCGTTCGCAA	0.602													11	63					0	0	1	0	0		T	100483916	T	T	100483916	3	4	122	1	0	0	0	0	1	0	0	0	15197	768	27	1	1553	1	SRRT	7	100483916	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	993897	100483916	58654747	437	67440											
TRIM56	81844	broad.mit.edu	37	chr7	100732461	100732461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggcagcctggccacccGgttcattcctggaggcaagg	8	6	15	12	1	1	0	1	0	0	0	2	2	2	2	4	7	1	3	4	7	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:100732461G>A	uc003uxq.2	+	3	2099	c.1868G>A	c.(1867-1869)CGG>CAG	p.R623Q	TRIM56_uc003uxr.2_Intron	NM_030961	NP_112223	Q9BRZ2	TRI56_HUMAN	tripartite motif-containing 56	623					defense response to virus|interferon-beta production|protein K63-linked ubiquitination|response to type I interferon	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			kidney(1)|central_nervous_system(1)|skin(1)	3	Lung NSC(181;0.136)|all_lung(186;0.182)					CTGGCCACCCGGTTCATTCCT	0.687													17	108					0	0	1	0	0		A	100732461	A	A	100732461	3	1	122	1	0	0	0	0	1	0	0	0	16556	1116	39	1	1870	1	TRIM56	7	100732461	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	248545	100732461	58406202	438	67441											
PLOD3	8985	broad.mit.edu	37	chr7	100849621	100849621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggtcgttggcagcccctCgtggtagtgggtgaggcggc	4	8	18	11	3	0	1	0	1	0	0	2	1	0	1	3	6	1	3	3	6	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:100849621C>T	uc003uyd.2	-	19	2614	c.2158G>A	c.(2158-2160)GAG>AAG	p.E720K	PLOD3_uc010lhs.2_Missense_Mutation_p.E285K	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	720	Fe2OG dioxygenase.				protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	GGCAGCCCCTCGTGGTAGTGG	0.642													8	67					0	0	1	0	0		T	100849621	T	T	100849621	3	4	122	1	0	0	0	0	1	0	0	0	12122	893	31	1	62	1	PLOD3	7	100849621	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	117160	100849621	58289042	439	67442											
ORAI2	80228	broad.mit.edu	37	chr7	102087428	102087428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaacggagcgccacaacCgcgagatcgaggagctccac	14	2	11	14	5	0	1	0	0	0	1	2	5	1	3	3	2	4	1	3	2	3	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:102087428C>T	uc010lhz.1	+	4	929	c.694C>T	c.(694-696)CGC>TGC	p.R232C	ORAI2_uc003uzj.2_Missense_Mutation_p.R232C|ORAI2_uc003uzk.2_Missense_Mutation_p.R232C|ORAI2_uc011kks.1_Missense_Mutation_p.R155C	NM_001126340	NP_001119812	Q96SN7	ORAI2_HUMAN	ORAI calcium release-activated calcium modulator	232						integral to membrane	protein binding			ovary(1)|kidney(1)	2						GCGCCACAACCGCGAGATCGA	0.652													4	15					0	0	1	0	0		T	102087428	T	T	102087428	3	4	122	1	0	0	0	0	1	0	0	0	11277	652	23	1	700	1	ORAI2	7	102087428	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1237807	102087428	57051235	440	67443											
SLC26A5	375611	broad.mit.edu	37	chr7	103014994	103014994	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcagctcccatagggcaGgattttcaaaaaatctattc	14	10	7	10	0	2	0	1	0	1	0	4	1	3	1	1	2	2	3	1	2	5	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:103014994G>T	uc003vbz.2	-	20	2323	c.2087C>A	c.(2086-2088)CCT>CAT	p.P696H	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Missense_Mutation_p.P664H|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_RNA	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	696	Cytoplasmic (Potential).|STAS.				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						CCATAGGGCAGGATTTTCAAA	0.443													6	54					0.248553	0.24876	1	1	0		T	103014994	T	T	103014994	3	4	122	1	0	0	0	0	1	0	0	0	14545	1000	35	5	192	5	SLC26A5	7	103014994	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	927566	103014994	56123669	441	67444											
TSPAN12	23554	broad.mit.edu	37	chr7	120496814	120496814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcacggaatcttctctggCcattgtgagccccgtaaggg	7	11	11	12	2	3	1	1	1	2	0	4	2	3	2	3	3	1	1	3	3	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:120496814C>T	uc003vjk.2	-	2	378	c.4G>A	c.(4-6)GCC>ACC	p.A2T		NM_012338	NP_036470	O95859	TSN12_HUMAN	transmembrane 4 superfamily member 12	2	Cytoplasmic (Potential).				angiogenesis|cell surface receptor linked signaling pathway|regulation of angiogenesis|retina layer formation	integral to plasma membrane|membrane fraction					0	all_neural(327;0.117)					TCTTCTCTGGCCATTGTGAGC	0.567											OREG0018280	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	72					0	0	1	0	0		T	120496814	T	T	120496814	3	4	122	1	0	0	0	0	1	0	0	0	16662	739	26	2	941	2	TSPAN12	7	120496814	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	17481820	120496814	38641849	442	67445											
AASS	10157	broad.mit.edu	37	chr7	121716636	121716636	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcctttgaaaagggcccCattaggcctttggctccaat	9	12	8	12	0	1	1	0	1	1	0	3	1	2	1	5	3	0	1	5	3	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:121716636C>A	uc003vka.2	-	23	2784	c.2688G>T	c.(2686-2688)ATG>ATT	p.M896I	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.M896I|AASS_uc011knw.1_Missense_Mutation_p.M384I	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	896	Saccharopine dehydrogenase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	AAAAGGGCCCCATTAGGCCTT	0.383													6	51					3.59834e-05	3.84186e-05	1	1	0		A	121716636	A	A	121716636	3	1	122	1	0	0	0	0	1	0	0	0	24	594	21	5	96	5	AASS	7	121716636	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1219822	121716636	37422027	443	67446											
GCC1	79571	broad.mit.edu	37	chr7	127222690	127222690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgaagtccagctggcacCgctccagctcctgccggtgg	5	7	12	17	2	0	1	0	1	0	0	3	1	3	1	6	3	3	4	6	3	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:127222690C>T	uc003vma.2	-	2	2124	c.1706G>A	c.(1705-1707)CGG>CAG	p.R569Q		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	569	Potential.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						CAGCTGGCACCGCTCCAGCTC	0.637													14	65					0	0	1	0	0		T	127222690	T	T	127222690	3	4	122	1	0	0	0	0	1	0	0	0	6300	652	23	1	625	1	GCC1	7	127222690	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5506054	127222690	31915973	444	67447											
FSCN3	29999	broad.mit.edu	37	chr7	127235972	127235972	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgggctgcaaccccatgagGggtgaggagtggttcatcct	8	9	15	9	0	1	2	1	2	0	0	2	3	2	3	3	5	2	3	3	5	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:127235972G>T	uc003vmd.1	+	2	975	c.756G>T	c.(754-756)AGG>AGT	p.R252S	FSCN3_uc003vmc.1_Missense_Mutation_p.R207S|FSCN3_uc011kog.1_RNA|FSCN3_uc011koh.1_Missense_Mutation_p.R118S|FSCN3_uc010llc.1_Missense_Mutation_p.R252S	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	252						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						ACCCCATGAGGGGTGAGGAGT	0.587													13	108					2.27111e-07	2.51437e-07	1	1	0		T	127235972	T	T	127235972	3	4	122	1	0	0	0	0	1	0	0	0	6083	1223	43	5	762	5	FSCN3	7	127235972	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	13282	127235972	31902691	445	67448											
SLC13A4	26266	broad.mit.edu	37	chr7	135384171	135384171	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatgatggtggtcaggccGccaatggtagcggagtagga	9	7	17	8	3	1	1	1	1	0	0	1	4	1	3	3	6	1	2	3	6	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:135384171G>T	uc003vta.2	-	8	1526	c.837C>A	c.(835-837)GGC>GGA	p.G279G	SLC13A4_uc003vtb.2_Silent_p.G280G	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	279	Helical; (Potential).					integral to plasma membrane	sodium:sulfate symporter activity				0						TGGTCAGGCCGCCAATGGTAG	0.453													13	58					2.62699e-14	3.05505e-14	1	1	0		T	135384171	T	T	135384171	2	4	122	1	0	0	0	0	0	0	0	1	14419	1074	38	5		5	SLC13A4	7	135384171	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	8148199	135384171	23754492	446	67449											
ZC3HAV1L	92092	broad.mit.edu	37	chr7	138711299	138711299	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccatcttctttacttctcGcaagacactgtgaggtagat	9	15	7	10	1	3	3	0	1	3	2	5	3	4	3	1	1	1	2	1	1	3	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:138711299G>A	uc003vum.1	-	5	906	c.894C>T	c.(892-894)TGC>TGT	p.C298C		NM_080660	NP_542391	Q96H79	ZCCHL_HUMAN	zinc finger CCCH-type, antiviral 1-like	298											0						TTTACTTCTCGCAAGACACTG	0.378													5	64					0	0	1	0	0		A	138711299	A	A	138711299	2	1	122	1	0	0	0	0	0	0	0	1	17601	1079	38	1		1	ZC3HAV1L	7	138711299	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3327128	138711299	20427364	447	67450											
OR2A1	346528	broad.mit.edu	37	chr7	144015504	144015504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccatctcctttgctggctGcatgacgcagacctttctct	5	13	8	15	1	2	2	0	1	2	1	4	2	2	2	3	1	2	4	3	1	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:144015504G>A	uc011kud.1	+	1	269	c.269G>A	c.(268-270)TGC>TAC	p.C90Y	OR2A9P_uc003wec.1_Intron	NM_001001802	NP_001001802	Q8NGT9	OR2A1_HUMAN	olfactory receptor, family 2, subfamily A,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.14)					TTTGCTGGCTGCATGACGCAG	0.577													22	436					0	0	1	0	0		A	144015504	A	A	144015504	3	1	122	1	0	0	0	0	1	0	0	0	10993	1319	46	2	289	2	OR2A1	7	144015504	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	5304205	144015504	15123159	448	67451											
NOBOX	135935	broad.mit.edu	37	chr7	144098459	144098459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgagtctggggcctggagCgggctagagttctgtctttg	4	12	16	9	1	3	2	0	1	3	1	3	3	3	3	2	4	1	2	2	4	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:144098459C>T	uc011kue.1	-	4	524	c.524G>A	c.(523-525)CGC>CAC	p.R175H		NM_001080413	NP_001073882	O60393	NOBOX_HUMAN	NOBOX oogenesis homeobox	175					cell differentiation|oogenesis	nucleus	sequence-specific DNA binding			ovary(1)	1	Melanoma(164;0.14)					GGGCCTGGAGCGGGCTAGAGT	0.622													6	25					0	0	1	0	0		T	144098459	T	T	144098459	3	4	122	1	0	0	0	0	1	0	0	0	10531	768	27	1	1483	1	NOBOX	7	144098459	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	82955	144098459	15040204	449	67452											
SSPO	23145	broad.mit.edu	37	chr7	149493767	149493767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagagggggcccttgtgacGgtgttctggactgcgaggat	6	10	18	7	2	1	2	0	2	1	1	1	6	1	4	1	5	1	1	1	5	0	2	rs118118675	by1000genomes	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:149493767G>A	uc010lpk.2	+	46	6763	c.6763G>A	c.(6763-6765)GGT>AGT	p.G2255S		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2255	LDL-receptor class A 8.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCCTTGTGACGGTGTTCTGGA	0.647													3	23					0	0	1	0	0		A	149493767	A	A	149493767	3	1	122	1	0	0	0	0	1	0	0	0	15214	1116	39	1	6937	1	SSPO	7	149493767	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	5395308	149493767	9644896	450	67453											
GIMAP6	474344	broad.mit.edu	37	chr7	150325347	150325347	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcggataagacgatggcttgGcagatagcgtctgccacctc	9	8	13	11	3	1	2	0	0	1	2	2	4	1	3	2	3	2	2	2	3	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:150325347G>A	uc003whn.2	-	3	763	c.339C>T	c.(337-339)TGC>TGT	p.C113C	GIMAP6_uc003whm.2_Silent_p.C33C	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	113							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGATGGCTTGGCAGATAGCGT	0.632													15	76					0	0	1	0	0		A	150325347	A	A	150325347	2	1	122	1	0	0	0	0	0	0	0	1	6398	1195	42	2		2	GIMAP6	7	150325347	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	831580	150325347	8813316	451	67454											
SLC4A2	6522	broad.mit.edu	37	chr7	150768521	150768521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caggggcagctgaagatgatCcccttcggcggacggggcgg	7	5	18	11	4	0	3	0	2	0	1	2	4	1	4	2	7	1	2	2	7	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:150768521C>T	uc003wit.3	+	14	2276	c.2020C>T	c.(2020-2022)CCC>TCC	p.P674S	SLC4A2_uc011kve.1_Missense_Mutation_p.P665S|SLC4A2_uc003wiu.3_Missense_Mutation_p.P660S|SLC4A2_uc003wiv.3_5'Flank	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	674	Cytoplasmic (Potential).			AAGAAEDDPLRRTGRP -> RQGQLKMIPSADGAA (in Ref. 1; CAA44067 and 6; CAA27556).	bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGAAGATGATCCCCTTCGGCG	0.672													3	19					0	0	1	0	0		T	150768521	T	T	150768521	3	4	122	1	0	0	0	0	1	0	0	0	14679	855	30	4	2070	4	SLC4A2	7	150768521	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	443174	150768521	8370142	452	67455											
GBX1	2636	broad.mit.edu	37	chr7	150864251	150864251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcgggcggcagtggcggCggcggcggcagcggcggcgg	2	4	24	11	9	0	0	0	0	0	0	1	0	0	0	0	10	1	3	0	10	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:150864251C>T	uc011kvg.1	-	1	617	c.385G>A	c.(385-387)GCC>ACC	p.A129T		NM_001098834	NP_001092304	Q14549	GBX1_HUMAN	gastrulation brain homeo box 1	129	Ala-rich.|Pro-rich.					nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		gcagtggcggcggcggcggca	0.577													6	19					0	0	1	0	0		T	150864251	T	T	150864251	3	4	122	1	0	0	0	0	1	0	0	0	6295	768	27	1	713	1	GBX1	7	150864251	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	95730	150864251	8274412	453	67456											
MLL3	58508	broad.mit.edu	37	chr7	151853315	151853315	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctcactaacactccggcTtttccagcaagttcttcagt	8	13	7	13	1	3	0	2	0	1	0	5	0	5	0	2	2	2	4	2	2	2	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:151853315T>G	uc003wla.2	-	45	12006	c.11787A>C	c.(11785-11787)AAA>AAC	p.K3929N	MLL3_uc003wkz.2_Missense_Mutation_p.K3047N|MLL3_uc003wkx.2_Missense_Mutation_p.K87N|MLL3_uc003wky.2_Missense_Mutation_p.K1493N	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3929					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACACTCCGGCTTTTCCAGCAA	0.473			N		medulloblastoma								18	141					0	0	1	0	0		G	151853315	G	G	151853315	3	3	122	1	0	0	0	0	1	0	0	0	9640	1606	56	5	3008	5	MLL3	7	151853315	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	989064	151853315	7285348	454	67457											
MNX1	3110	broad.mit.edu	37	chr7	156798390	156798390	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgcaggcggcgtccgcTgcccttgtctccgggcgctg	1	8	15	17	6	1	0	0	0	1	0	4	0	3	0	4	3	1	3	4	3	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr7:156798390T>C	uc003wnd.1	-	3	1333	c.1030A>G	c.(1030-1032)AGC>GGC	p.S344G	MNX1_uc003wmz.2_Intron|MNX1_uc003wna.2_Intron|MNX1_uc010lqq.1_Missense_Mutation_p.S137G|MNX1_uc003wnc.1_Missense_Mutation_p.S132G|MNX1_uc010lqr.1_RNA	NM_005515	NP_005506	P50219	MNX1_HUMAN	motor neuron and pancreas homeobox 1 isoform 1	344					humoral immune response|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGGCGTCCGCTGCCCTTGTCT	0.622									Currarino_syndrome				5	25					0	0	1	0	0		C	156798390	C	C	156798390	3	2	122	1	0	0	0	0	1	0	0	0	9697	1580	55	3	179	3	MNX1	7	156798390	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	4945075	156798390	2340273	455	67458											
CSMD1	64478	broad.mit.edu	37	chr8	3046481	3046481	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccgtatggctcagggtaGccgggggacaggattgtacc	7	10	15	9	2	1	0	1	0	0	0	2	2	2	2	3	5	2	4	3	5	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:3046481G>A	uc011kwk.1	-	35	5844	c.5454C>T	c.(5452-5454)GGC>GGT	p.G1818G	CSMD1_uc011kwj.1_Silent_p.G1210G|CSMD1_uc003wqe.2_Silent_p.G974G|CSMD1_uc010lrg.2_5'Flank	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1818	Extracellular (Potential).|CUB 11.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GCTCAGGGTAGCCGGGGGACA	0.468													3	27					0	0	1	0	0		A	3046481	A	A	3046481	2	1	122	1	0	0	0	0	0	0	0	1	3947	958	34	2		2	CSMD1	8	3046481	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08		3046481	143317541	456	67459											
RP1L1	94137	broad.mit.edu	37	chr8	10467926	10467926	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttttcaggggcagctctgTcccctgtgtcaccagggtgc	4	11	14	12	0	3	0	2	0	1	0	4	0	4	0	3	4	2	3	3	4	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:10467926T>C	uc003wtc.2	-	4	3911	c.3682A>G	c.(3682-3684)ACA>GCA	p.T1228A		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1228					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GGCAGCTCTGTCCCCTGTGTC	0.577													9	59					0	0	1	0	0		C	10467926	C	C	10467926	3	2	122	1	0	0	0	0	1	0	0	0	13558	1667	58	3	3524	3	RP1L1	8	10467926	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	7421445	10467926	135896096	457	67460											
RP1L1	94137	broad.mit.edu	37	chr8	10468442	10468442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgtctgctccggcctctgCaggggcctcggaaactccct	4	10	11	16	2	3	0	0	0	3	0	6	1	5	1	4	4	3	2	4	4	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:10468442C>T	uc003wtc.2	-	4	3395	c.3166G>A	c.(3166-3168)GCA>ACA	p.A1056T		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1056					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CCGGCCTCTGCAGGGGCCTCG	0.672													6	18					0	0	1	0	0		T	10468442	T	T	10468442	3	4	122	1	0	0	0	0	1	0	0	0	13558	710	25	2	4040	2	RP1L1	8	10468442	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	516	10468442	135895580	458	67461											
FAM160B2	64760	broad.mit.edu	37	chr8	21958382	21958382	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagacccctacttcacCgacagcttcctggattccgg	9	8	10	14	2	1	1	1	0	0	1	3	5	3	3	5	3	2	1	5	3	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:21958382C>T	uc011kyx.1	+	12	1566	c.1515C>T	c.(1513-1515)ACC>ACT	p.T505T	FAM160B2_uc011kyy.1_RNA	NM_022749	NP_073586	Q86V87	F16B2_HUMAN	retinoic acid induced 16	505											0						CCTACTTCACCGACAGCTTCC	0.567													23	139					0	0	1	0	0		T	21958382	T	T	21958382	2	4	122	1	0	0	0	0	0	0	0	1	5482	639	23	1		1	FAM160B2	8	21958382	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	11489940	21958382	124405640	459	67462											
LGI3	203190	broad.mit.edu	37	chr8	22012138	22012138	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtgtaaacttgttggagttGagtaacctgcagagacaaag	14	10	12	5	0	0	2	0	1	0	1	0	4	0	3	1	1	3	5	1	1	4	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:22012138G>A	uc003xav.2	-	3	574	c.285C>T	c.(283-285)CTC>CTT	p.L95L	LGI3_uc010ltu.2_Silent_p.L95L	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	95	LRR 1.				exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		TGTTGGAGTTGAGTAACCTGC	0.562													9	61					0	0	1	0	0		A	22012138	A	A	22012138	2	1	122	1	0	0	0	0	0	0	0	1	8769	1277	45	4		4	LGI3	8	22012138	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	53756	22012138	124351884	460	67463											
KIAA1967	57805	broad.mit.edu	37	chr8	22473261	22473261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagacacttctagacggaacGcagaaactccagaggccacc	14	4	9	14	2	1	4	0	0	1	4	2	5	2	5	3	2	2	1	3	2	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:22473261G>A	uc003xch.2	+	13	1581	c.1444G>A	c.(1444-1446)GCA>ACA	p.A482T	KIAA1967_uc003xci.2_Missense_Mutation_p.A482T|KIAA1967_uc003xcj.1_Missense_Mutation_p.A151T	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	482					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		TAGACGGAACGCAGAAACTCC	0.587													11	88					0	0	1	0	0		A	22473261	A	A	22473261	3	1	122	1	0	0	0	0	1	0	0	0	8281	1087	38	1	1490	1	KIAA1967	8	22473261	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	461123	22473261	123890761	461	67464											
TRIM35	23087	broad.mit.edu	37	chr8	27146721	27146721	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcttccagacgcggtactGcagggagcccaggtacttgc	7	9	12	13	2	1	1	0	0	1	1	2	2	2	2	2	3	5	3	2	3	2	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:27146721G>A	uc003xfl.1	-	5	944	c.862C>T	c.(862-864)CAG>TAG	p.Q288*	TRIM35_uc010lup.1_Missense_Mutation_p.A248V	NM_171982	NP_741983	Q9UPQ4	TRI35_HUMAN	tripartite motif-containing 35 isoform 2	288	B30.2/SPRY.				apoptosis|induction of apoptosis|negative regulation of mitotic cell cycle	cytoplasm|nucleus	zinc ion binding				0		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|Epithelial(17;9.34e-10)|Colorectal(74;0.141)		ACGCGGTACTGCAGGGAGCCC	0.562													5	48					0	0	1	0	0		A	27146721	A	A	27146721	4	1	122	1	0	0	0	0	0	1	0	0	16535	1328	46	2	627	2	TRIM35	8	27146721	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4673460	27146721	119217301	462	67465											
CHRNA2	1135	broad.mit.edu	37	chr8	27327344	27327344	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtctgaagtgttgggcacCgggcgcgcccagcggttgta	6	8	16	11	5	1	1	0	1	1	0	1	1	1	1	2	3	1	4	2	3	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:27327344C>T	uc010lur.2	-	3	837	c.228G>A	c.(226-228)CCG>CCA	p.P76P	CHRNA2_uc011lal.1_Silent_p.P76P|CHRNA2_uc010lus.2_5'UTR	NM_000742	NP_000733	Q15822	ACHA2_HUMAN	cholinergic receptor, nicotinic, alpha	76	Extracellular.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)	1		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0208)|Epithelial(17;2.77e-10)|Colorectal(74;0.136)	Atracurium(DB00732)|Biperiden(DB00810)|Carbachol(DB00411)|Cisatracurium Besylate(DB00565)|Decamethonium(DB01245)|Dextromethorphan(DB00514)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Gallamine Triethiodide(DB00483)|Levallorphan(DB00504)|Mecamylamine(DB00657)|Metocurine(DB01336)|Metocurine Iodide(DB00416)|Mivacurium(DB01226)|Nicotine(DB00184)|Pancuronium(DB01337)|Pipecuronium(DB01338)|Rocuronium(DB00728)|Tubocurarine(DB01199)	TGTTGGGCACCGGGCGCGCCC	0.637													19	179					0	0	1	0	0		T	27327344	T	T	27327344	2	4	122	1	0	0	0	0	0	0	0	1	3386	639	23	1		1	CHRNA2	8	27327344	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	180623	27327344	119036678	463	67466											
TEX15	56154	broad.mit.edu	37	chr8	30695230	30695230	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaatttctgcaaaagcgtcCcatggtctggtgaaaatgtg	12	11	11	7	1	2	1	0	1	2	0	3	2	3	1	1	2	2	1	1	2	5	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:30695230C>A	uc003xil.2	-	3	7421	c.7421G>T	c.(7420-7422)GGG>GTG	p.G2474V		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2474										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		CAAAAGCGTCCCATGGTCTGG	0.393													24	151					1.22574e-08	1.37867e-08	1	1	0		A	30695230	A	A	30695230	3	1	122	1	0	0	0	0	1	0	0	0	15804	623	22	5	956	5	TEX15	8	30695230	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3367886	30695230	115668792	464	67467											
WRN	7486	broad.mit.edu	37	chr8	30945390	30945390	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctactaaagaagaagaagaAgatgatgaaaatgaagctaa	22	6	9	4	0	0	8	0	3	0	5	0	8	0	8	1	0	2	1	1	0	11	3	rs149565907	by1000genomes	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:30945390A>T	uc003xio.3	+	12	2318	c.1530A>T	c.(1528-1530)GAA>GAT	p.E510D	WRN_uc011lbe.1_Missense_Mutation_p.E38D|WRN_uc010lvk.2_Translation_Start_Site	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	510	Poly-Glu.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		aagaagaagaagatgatgaaa	0.279			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				14	67					0	0	1	0	0		T	30945390	T	T	30945390	3	4	122	1	0	0	0	0	1	0	0	0	17428	69	3	5	1572	5	WRN	8	30945390	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	250160	30945390	115418632	465	67468											
DUSP26	78986	broad.mit.edu	37	chr8	33451261	33451261	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccggcggttgttagccaTgtccctgcattgagtagagg	6	11	13	11	2	0	2	0	1	0	1	2	2	2	2	3	3	2	4	3	3	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:33451261T>C	uc003xjp.2	-	3	559	c.226A>G	c.(226-228)ATG>GTG	p.M76V	DUSP26_uc003xjq.2_Missense_Mutation_p.M76V	NM_024025	NP_076930	Q9BV47	DUS26_HUMAN	dual specificity phosphatase 26	76	Tyrosine-protein phosphatase.					Golgi apparatus|nucleus	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0				KIRC - Kidney renal clear cell carcinoma(67;0.0918)|Kidney(114;0.111)		TTGTTAGCCATGTCCCTGCAT	0.582													9	59					0	0	1	0	0		C	33451261	C	C	33451261	3	2	122	1	0	0	0	0	1	0	0	0	4829	1464	51	3	417	3	DUSP26	8	33451261	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	2505871	33451261	112912761	466	67469											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37730383	37730383	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagggcagaagaaccagaaTttggaaccggtgttaaactc	14	7	11	9	1	0	3	0	0	0	3	1	4	0	4	3	3	3	2	3	3	6	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:37730383T>G	uc003xkm.1	-	4	1981	c.1937A>C	c.(1936-1938)AAT>ACT	p.N646T	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_5'UTR|RAB11FIP1_uc003xko.1_5'UTR|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	646					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			AGAACCAGAATTTGGAACCGG	0.522													14	127					0	0	1	0	0		G	37730383	G	G	37730383	3	3	122	1	0	0	0	0	1	0	0	0	12918	1493	52	5	1926	5	RAB11FIP1	8	37730383	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	4279122	37730383	108633639	467	67470											
MYST3	7994	broad.mit.edu	37	chr8	41836271	41836271	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcgtccttttttcctaggtCgacatatttgacatatccac	8	17	5	11	2	0	1	0	1	0	0	5	2	3	1	3	1	0	0	3	1	3	8			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:41836271C>T	uc010lxb.2	-	7	1476	c.932G>A	c.(931-933)CGA>CAA	p.R311Q	MYST3_uc010lxc.2_Missense_Mutation_p.R311Q|MYST3_uc003xon.3_Missense_Mutation_p.R311Q|MYST3_uc010lxd.2_Missense_Mutation_p.R311Q	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	311	PHD-type 2.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			TTTCCTAGGTCGACATATTTG	0.348													14	121					0	0	1	0	0		T	41836271	T	T	41836271	3	4	122	1	0	0	0	0	1	0	0	0	10122	884	31	1	5130	1	MYST3	8	41836271	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	4105888	41836271	104527751	468	67471											
PRKDC	5591	broad.mit.edu	37	chr8	48701529	48701529	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggtcacccaaggctgcatAcattctttcatacatttttt	9	16	6	10	0	3	0	2	0	1	0	3	0	3	0	1	2	3	2	1	2	3	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:48701529A>G	uc003xqi.2	-	77	10897	c.10840T>C	c.(10840-10842)TAT>CAT	p.Y3614H	PRKDC_uc003xqj.2_Missense_Mutation_p.Y3614H|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3614					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AAGGCTGCATACATTCTTTCA	0.418								NHEJ					9	64					0	0	1	0	0		G	48701529	G	G	48701529	3	3	122	1	0	0	0	0	1	0	0	0	12543	391	14	3	1590	3	PRKDC	8	48701529	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	6865258	48701529	97662493	469	67472											
GGH	8836	broad.mit.edu	37	chr8	63939790	63939790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttagcataatctgagcGtctgaggtcaacacttcctc	10	12	7	12	1	3	2	1	2	2	0	5	2	4	2	1	1	3	1	1	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:63939790G>A	uc003xuw.2	-	4	593	c.310C>T	c.(310-312)CGC>TGC	p.R104C		NM_003878	NP_003869	Q92820	GGH_HUMAN	gamma-glutamyl hydrolase precursor	104	Gamma-glutamyl hydrolase.				glutamine metabolic process	extracellular space|lysosome|melanosome	gamma-glutamyl-peptidase activity				0	Breast(64;0.0716)	all_cancers(86;0.189)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.131)			Folic Acid(DB00158)|L-Glutamic Acid(DB00142)	TAATCTGAGCGTCTGAGGTCA	0.378													22	111					0	0	1	0	0		A	63939790	A	A	63939790	3	1	122	1	0	0	0	0	1	0	0	0	6372	1145	40	1	670	1	GGH	8	63939790	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	15238261	63939790	82424232	470	67473											
C8orf46	254778	broad.mit.edu	37	chr8	67405953	67405953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccaccgtgattccttccaagGgtgagtgaaattgcccttga	9	11	10	11	1	0	4	0	4	0	0	2	4	2	4	5	1	1	0	5	1	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:67405953G>A	uc003xwg.2	+	1	463	c.70G>A	c.(70-72)GTA>ATA	p.V24I	C8orf46_uc003xwh.2_RNA|C8orf46_uc011let.1_Missense_Mutation_p.V24I	NM_152765	NP_689978	Q8TAG6	CH046_HUMAN	hypothetical protein LOC254778	24										skin(2)	2			Epithelial(68;0.0224)|BRCA - Breast invasive adenocarcinoma(89;0.0508)|all cancers(69;0.0558)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			TCCTTCCAAGGGTGAGTGAAA	0.498													4	50					0	0	1	0	0		A	67405953	A	A	67405953	3	1	122	1	0	0	0	0	1	0	0	0	2434	1246	43	4	72	4	C8orf46	8	67405953	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3466163	67405953	78958069	471	67474											
PREX2	80243	broad.mit.edu	37	chr8	69069574	69069574	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcactagagagcatggaaGgatattattacagagacaat	17	8	10	6	0	0	2	0	0	0	2	0	6	0	4	0	2	3	2	0	2	6	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:69069574G>T	uc003xxv.1	+	35	4276	c.4249G>T	c.(4249-4251)GGA>TGA	p.G1417*		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1417					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GAGCATGGAAGGATATTATTA	0.343													8	62					0.000442599	0.000463878	1	1	0		T	69069574	T	T	69069574	4	4	122	1	0	0	0	0	0	1	0	0	12499	1001	35	5	4616	5	PREX2	8	69069574	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1663621	69069574	77294448	472	67475											
SLCO5A1	81796	broad.mit.edu	37	chr8	70744535	70744535	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaagcaacgggaatccGtgaggaccacgtagaggcac	13	3	14	11	3	0	2	0	1	0	1	1	5	1	5	3	4	2	3	3	4	4	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:70744535G>A	uc003xyl.2	-	2	1081	c.374C>T	c.(373-375)ACG>ATG	p.T125M	SLCO5A1_uc010lzb.2_Missense_Mutation_p.T125M|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Missense_Mutation_p.T125M|SLCO5A1_uc010lzc.2_Missense_Mutation_p.T125M	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	125	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			ACGGGAATCCGTGAGGACCAC	0.557											OREG0018815	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	72					0	0	1	0	0		A	70744535	A	A	70744535	3	1	122	1	0	0	0	0	1	0	0	0	14756	1145	40	1	2208	1	SLCO5A1	8	70744535	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1674961	70744535	75619487	473	67476											
SLC7A13	157724	broad.mit.edu	37	chr8	87230057	87230057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcccatgtgatagctacaGcatctgcagaaaaacaaaaa	18	6	7	10	0	1	2	0	1	1	1	1	2	1	2	1	0	6	3	1	0	6	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:87230057G>A	uc003ydq.1	-	3	919	c.821C>T	c.(820-822)GCT>GTT	p.A274V	SLC7A13_uc003ydr.1_Missense_Mutation_p.A265V	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	274	Extracellular (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						GATAGCTACAGCATCTGCAGA	0.303													16	70					0	0	1	0	0		A	87230057	A	A	87230057	3	1	122	1	0	0	0	0	1	0	0	0	14720	971	34	2	599	2	SLC7A13	8	87230057	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	16485522	87230057	59133965	474	67477											
DCAF4L2	138009	broad.mit.edu	37	chr8	88885021	88885021	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcctgaagaattaaccgtaGgagaaacaataaaggtcctc	17	8	8	8	1	0	3	0	1	0	2	3	4	2	3	3	2	2	1	3	2	8	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:88885021G>T	uc003ydz.2	-	1	1276	c.1179C>A	c.(1177-1179)TCC>TCA	p.S393S		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	393										ovary(1)	1						ATTAACCGTAGGAGAAACAAT	0.502													7	55					0.00198382	0.00205052	1	1	0		T	88885021	T	T	88885021	2	4	122	1	0	0	0	0	0	0	0	1	4275	987	35	5		5	DCAF4L2	8	88885021	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1654964	88885021	57479001	475	67478											
KIAA0196	9897	broad.mit.edu	37	chr8	126061300	126061300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacgttgtaatttatgataCgagatacttcttcctgccaa	11	14	6	10	2	1	2	0	1	1	1	2	3	2	2	3	0	3	2	3	0	5	8			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:126061300C>T	uc003yrt.2	-	19	2656	c.2327G>A	c.(2326-2328)CGT>CAT	p.R776H	KIAA0196_uc011lir.1_Missense_Mutation_p.R628H|KIAA0196_uc003yru.1_Missense_Mutation_p.R350H	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	776					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			ATTTATGATACGAGATACTTC	0.343													5	39					0	0	1	0	0		T	126061300	T	T	126061300	3	4	122	1	0	0	0	0	1	0	0	0	8177	536	19	1	1196	1	KIAA0196	8	126061300	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	37176279	126061300	20302722	476	67479											
ASAP1	50807	broad.mit.edu	37	chr8	131140189	131140189	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacctgatgagccacaatcGcagcaaatgtcattccctgg	13	8	8	12	1	1	2	1	2	0	0	3	2	2	2	3	1	3	2	3	1	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:131140189G>A	uc003yta.1	-	15	1393	c.1365C>T	c.(1363-1365)TGC>TGT	p.C455C	ASAP1_uc003ysz.1_Silent_p.C266C|ASAP1_uc011liw.1_Silent_p.C448C	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	455	Arf-GAP.|C4-type.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						AGCCACAATCGCAGCAAATGT	0.458													8	66					0	0	1	0	0		A	131140189	A	A	131140189	2	1	122	1	0	0	0	0	0	0	0	1	1011	1079	38	1		1	ASAP1	8	131140189	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	5078889	131140189	15223833	477	67480											
ASAP1	50807	broad.mit.edu	37	chr8	131172126	131172126	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacccgtcacttttctttaGcaggtaccccttcttttcac	7	16	4	14	1	4	0	2	0	2	0	4	0	4	0	3	1	3	2	3	1	3	9			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:131172126G>A	uc003yta.1	-	11	1022	c.994C>T	c.(994-996)CTA>TTA	p.L332L	ASAP1_uc003ysz.1_Silent_p.L143L|ASAP1_uc011liw.1_Silent_p.L325L	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	332	PH.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						CTTTTCTTTAGCAGGTACCCC	0.448													25	156					0	0	1	0	0		A	131172126	A	A	131172126	2	1	122	1	0	0	0	0	0	0	0	1	1011	962	34	2		2	ASAP1	8	131172126	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	31937	131172126	15191896	478	67481											
TG	7038	broad.mit.edu	37	chr8	133906122	133906122	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgccccgggaggctttcgcGgagcagtttctgcgtgggag	4	8	17	12	5	1	0	0	0	1	0	2	3	1	3	3	4	2	3	3	4	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:133906122G>A	uc003ytw.2	+	11	2990	c.2949G>A	c.(2947-2949)GCG>GCA	p.A983A		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	983	Thyroglobulin type-1 8.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AGGCTTTCGCGGAGCAGTTTC	0.602													12	85					0	0	1	0	0		A	133906122	A	A	133906122	2	1	122	1	0	0	0	0	0	0	0	1	15838	1103	39	1		1	TG	8	133906122	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2733996	133906122	12457900	479	67482											
ST3GAL1	6482	broad.mit.edu	37	chr8	134488254	134488254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactttcagggtcctcttcCgcagggtcaccatcttcgca	6	11	9	15	2	4	0	2	0	2	0	7	0	6	0	3	2	0	3	3	2	0	3	rs145602093		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:134488254C>T	uc003yuk.2	-	5	843	c.14G>A	c.(13-15)CGG>CAG	p.R5Q	ST3GAL1_uc003yum.2_Missense_Mutation_p.R5Q	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	5	Cytoplasmic (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			GGTCCTCTTCCGCAGGGTCAC	0.547													13	96					0	0	1	0	0		T	134488254	T	T	134488254	3	4	122	1	0	0	0	0	1	0	0	0	15239	652	23	1	1032	1	ST3GAL1	8	134488254	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	582132	134488254	11875768	480	67483											
BAI1	575	broad.mit.edu	37	chr8	143614778	143614778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcttcgctgtcttcgactCgctggagggcttcgtcatcg	3	13	11	14	5	3	0	1	0	2	0	8	2	3	1	1	2	0	3	1	2	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:143614778C>T	uc003ywm.2	+	24	3704	c.3521C>T	c.(3520-3522)TCG>TTG	p.S1174L		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1174	Helical; Name=7; (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GTCTTCGACTCGCTGGAGGGC	0.672													5	42					0	0	1	0	0		T	143614778	T	T	143614778	3	4	122	1	0	0	0	0	1	0	0	0	1299	893	31	1	3615	1	BAI1	8	143614778	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	9126524	143614778	2749244	481	67484											
ZNF623	9831	broad.mit.edu	37	chr8	144733545	144733545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gattttaactcaactacaaaCgttaaaaataatcaaagggt	19	11	5	6	1	2	0	2	0	0	0	2	1	2	0	0	1	4	1	0	1	9	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:144733545C>T	uc003yzd.2	+	1	1592	c.1503C>T	c.(1501-1503)AAC>AAT	p.N501N	ZNF623_uc011lkp.1_Silent_p.N461N|ZNF623_uc003yzc.2_Silent_p.N461N	NM_014789	NP_055604	O75123	ZN623_HUMAN	zinc finger protein 623 isoform 1	501					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;5.28e-40)|all cancers(56;5.23e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CAACTACAAACGTTAAAAATA	0.408													11	85					0	0	1	0	0		T	144733545	T	T	144733545	2	4	122	1	0	0	0	0	0	0	0	1	18072	535	19	1		1	ZNF623	8	144733545	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1118767	144733545	1630477	482	67485											
PLEC	5339	broad.mit.edu	37	chr8	144991091	144991091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgttatccaccaggttccGgtgcatggcctcggtgatgg	6	11	14	10	2	0	1	0	1	0	0	3	2	2	1	4	5	1	3	4	5	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:144991091G>A	uc003zaf.1	-	32	13479	c.13309C>T	c.(13309-13311)CGG>TGG	p.R4437W	PLEC_uc003zab.1_Missense_Mutation_p.R4300W|PLEC_uc003zac.1_Missense_Mutation_p.R4304W|PLEC_uc003zad.2_Missense_Mutation_p.R4300W|PLEC_uc003zae.1_Missense_Mutation_p.R4268W|PLEC_uc003zag.1_Missense_Mutation_p.R4278W|PLEC_uc003zah.2_Missense_Mutation_p.R4286W|PLEC_uc003zaj.2_Missense_Mutation_p.R4327W	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4437	Globular 2.|Plectin 29.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						ACCAGGTTCCGGTGCATGGCC	0.677													8	48					0	0	1	0	0		A	144991091	A	A	144991091	3	1	122	1	0	0	0	0	1	0	0	0	12071	1115	39	1	749	1	PLEC	8	144991091	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	257546	144991091	1372931	483	67486											
PLEC	5339	broad.mit.edu	37	chr8	144991208	144991208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgggtcctggagacggCggggctgatggggtaggagg	6	6	22	7	2	0	2	0	1	0	1	1	4	1	3	1	9	1	3	1	9	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:144991208C>T	uc003zaf.1	-	32	13362	c.13192G>A	c.(13192-13194)GCC>ACC	p.A4398T	PLEC_uc003zab.1_Missense_Mutation_p.A4261T|PLEC_uc003zac.1_Missense_Mutation_p.A4265T|PLEC_uc003zad.2_Missense_Mutation_p.A4261T|PLEC_uc003zae.1_Missense_Mutation_p.A4229T|PLEC_uc003zag.1_Missense_Mutation_p.A4239T|PLEC_uc003zah.2_Missense_Mutation_p.A4247T|PLEC_uc003zaj.2_Missense_Mutation_p.A4288T	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4398	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CTGGAGACGGCGGGGCTGATG	0.667													9	90					0	0	1	0	0		T	144991208	T	T	144991208	3	4	122	1	0	0	0	0	1	0	0	0	12071	768	27	1	866	1	PLEC	8	144991208	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	117	144991208	1372814	484	67487											
PLEC	5339	broad.mit.edu	37	chr8	144992277	144992277	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcagcgccgtggcctcGtccatgacctgcgagcgcac	6	6	13	16	5	0	1	0	1	0	0	2	2	1	1	4	1	5	3	4	1	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:144992277G>A	uc003zaf.1	-	32	12293	c.12123C>T	c.(12121-12123)GAC>GAT	p.D4041D	PLEC_uc003zab.1_Silent_p.D3904D|PLEC_uc003zac.1_Silent_p.D3908D|PLEC_uc003zad.2_Silent_p.D3904D|PLEC_uc003zae.1_Silent_p.D3872D|PLEC_uc003zag.1_Silent_p.D3882D|PLEC_uc003zah.2_Silent_p.D3890D|PLEC_uc003zaj.2_Silent_p.D3931D	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4041	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CCGTGGCCTCGTCCATGACCT	0.652													4	14					0	0	1	0	0		A	144992277	A	A	144992277	2	1	122	1	0	0	0	0	0	0	0	1	12071	1136	40	1		1	PLEC	8	144992277	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1069	144992277	1371745	485	67488											
KIFC2	90990	broad.mit.edu	37	chr8	145692675	145692675	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagggggaggcaggccctGctccaggggactcagccagc	7	3	16	15	0	1	0	1	0	0	0	2	2	2	2	4	6	3	2	4	6	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:145692675G>A	uc003zcz.2	+	4	485	c.420G>A	c.(418-420)CTG>CTA	p.L140L	CYHR1_uc003zcv.2_5'Flank|CYHR1_uc003zcw.2_5'Flank|CYHR1_uc003zcx.2_5'Flank|CYHR1_uc003zcy.2_5'Flank	NM_145754	NP_665697	Q96AC6	KIFC2_HUMAN	kinesin family member C2	140					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			GGCAGGCCCTGCTCCAGGGGA	0.622											OREG0019057	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	95					0	0	1	0	0		A	145692675	A	A	145692675	2	1	122	1	0	0	0	0	0	0	0	1	8329	1306	46	2		2	KIFC2	8	145692675	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	700398	145692675	671347	486	67489											
ZNF16	7564	broad.mit.edu	37	chr8	146156815	146156815	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttctccagtgtgaattCtccgatgctgaataaggctg	8	14	10	9	1	2	2	0	2	2	0	4	3	2	2	2	1	1	3	2	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:146156815C>A	uc003zet.2	-	4	1545	c.1358G>T	c.(1357-1359)AGA>ATA	p.R453I	ZNF16_uc003zeu.2_Missense_Mutation_p.R453I	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	453	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		AGTGTGAATTCTCCGATGCTG	0.478													16	71					6.31663e-08	7.05837e-08	1	1	0		A	146156815	A	A	146156815	3	1	122	1	0	0	0	0	1	0	0	0	17763	913	32	5	694	5	ZNF16	8	146156815	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	464140	146156815	207207	487	67490											
C8orf33	65265	broad.mit.edu	37	chr8	146278795	146278795	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagggctcagatggaagcCgaatggcgtgaggccctgcg	9	7	16	9	3	1	2	1	1	0	1	1	4	1	3	2	4	2	1	2	4	4	2	rs149041357	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr8:146278795C>T	uc003zfc.3	+	4	570	c.516C>T	c.(514-516)GCC>GCT	p.A172A	C8orf33_uc003zfd.2_RNA	NM_023080	NP_075568	Q9H7E9	CH033_HUMAN	hypothetical protein LOC65265	172											0	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;9.1e-38)|all cancers(56;7.37e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.243)		AGATGGAAGCCGAATGGCGTG	0.567													14	71					0	0	1	0	0		T	146278795	T	T	146278795	2	4	122	1	0	0	0	0	0	0	0	1	2424	639	23	1		1	C8orf33	8	146278795	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	121980	146278795	85227	488	67491											
FOXD4	2298	broad.mit.edu	37	chr9	117579	117579	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catgtcctgggaggcggggtCcaggctccagtagttgccct	5	9	15	12	1	0	0	0	0	0	0	3	1	3	1	4	5	1	3	4	5	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:117579C>T	uc003zfz.2	-	1	839	c.541G>A	c.(541-543)GAC>AAC	p.D181N		NM_207305	NP_997188	Q12950	FOXD4_HUMAN	forkhead box D4	181	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	all_lung(41;0.218)	all_cancers(5;0.0395)|Acute lymphoblastic leukemia(5;1.91e-07)|all_hematologic(5;1.95e-06)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GAGGCGGGGTCCAGGCTCCAG	0.662													44	793					0	0	1	0	0		T	117579	T	T	117579	3	4	122	1	0	0	0	0	1	0	0	0	6013	855	30	4	782	4	FOXD4	9	117579	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08		117579	141095852	489	67492											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													8	161					0	0	1	0	0		G	164038	G	G	164038	5	3	122	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	46459	164038	141049393	490	67493											
DMRT3	58524	broad.mit.edu	37	chr9	990066	990066	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaagaacgacttggagaCggcaagtcggcagacaatac	15	5	12	9	3	0	4	0	1	0	3	1	6	0	4	0	3	2	2	0	3	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:990066C>T	uc003zgw.1	+	2	518	c.480C>T	c.(478-480)GAC>GAT	p.D160D		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	160					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		GACTTGGAGACGGCAAGTCGG	0.488													11	87					0	0	1	0	0		T	990066	T	T	990066	2	4	122	1	0	0	0	0	0	0	0	1	4593	535	19	1		1	DMRT3	9	990066	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	826028	990066	140223365	491	67494											
MPDZ	8777	broad.mit.edu	37	chr9	13190239	13190239	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctgacccgcatcagtcatCgccagcactggatcctctgt	7	10	8	16	2	4	1	2	1	2	0	6	2	5	2	3	1	1	2	3	1	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:13190239C>T	uc010mia.1	-	15	2085	c.2028G>A	c.(2026-2028)GCG>GCA	p.A676A	MPDZ_uc010mhy.2_Silent_p.A676A|MPDZ_uc010mhz.2_Silent_p.A676A|MPDZ_uc011lmn.1_Silent_p.A676A|MPDZ_uc003zlb.3_Silent_p.A676A	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	676					interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		CATCAGTCATCGCCAGCACTG	0.507													3	30					0	0	1	0	0		T	13190239	T	T	13190239	2	4	122	1	0	0	0	0	0	0	0	1	9740	871	31	1		1	MPDZ	9	13190239	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	12200173	13190239	128023192	492	67495											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18504847	18504847	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttccaggaccgcacgctcCgaggaggaccgggacggcct	8	4	15	14	5	0	0	0	0	0	0	2	5	2	4	5	5	0	3	5	5	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:18504847C>T	uc003zne.3	+	2	211	c.84C>T	c.(82-84)TCC>TCT	p.S28S	ADAMTSL1_uc003znb.2_Silent_p.S28S|ADAMTSL1_uc003znc.3_Silent_p.S28S	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	28						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		CCGCACGCTCCGAGGAGGACC	0.582													24	142					0	0	1	0	0		T	18504847	T	T	18504847	2	4	122	1	0	0	0	0	0	0	0	1	274	639	23	1		1	ADAMTSL1	9	18504847	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5314608	18504847	122708584	493	67496											
SLC24A2	25769	broad.mit.edu	37	chr9	19622274	19622274	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaccggtagagttggttcAtccttgtccctggctgcaga	6	12	11	12	1	1	2	1	0	0	2	3	2	3	2	4	3	2	5	4	3	2	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:19622274A>C	uc003zoa.1	-	2	1016	c.954T>G	c.(952-954)GAT>GAG	p.D318E	SLC24A2_uc003zob.1_Missense_Mutation_p.D318E	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	318	Cytoplasmic (Potential).				visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		GAGTTGGTTCATCCTTGTCCC	0.463													5	40					0	0	1	0	0		C	19622274	C	C	19622274	3	2	122	1	0	0	0	0	1	0	0	0	14491	214	8	5	1067	5	SLC24A2	9	19622274	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1117427	19622274	121591157	494	67497											
TAF1L	138474	broad.mit.edu	37	chr9	32630586	32630586	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcatacatatcaggaggCtgagatgtgtagggccctgg	10	10	14	7	0	2	1	2	1	0	1	2	3	2	2	1	4	1	3	1	4	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:32630586C>T	uc003zrg.1	-	1	5082	c.4992G>A	c.(4990-4992)CAG>CAA	p.Q1664Q	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1664					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TATCAGGAGGCTGAGATGTGT	0.453													26	198					0	0	1	0	0		T	32630586	T	T	32630586	2	4	122	1	0	0	0	0	0	0	0	1	15548	796	28	2		2	TAF1L	9	32630586	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	13008312	32630586	108582845	495	67498											
APTX	54840	broad.mit.edu	37	chr9	32987827	32987827	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attacgactgagtcaatgctGgtgggattgactcctaccta	10	12	10	9	1	1	2	1	2	0	0	2	4	2	3	2	2	3	1	2	2	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:32987827G>T	uc003zrm.2	-	3	395	c.198C>A	c.(196-198)ACC>ACA	p.T66T	APTX_uc010mjm.2_Intron|APTX_uc003zrj.2_5'UTR|APTX_uc011lns.1_Intron|APTX_uc003zrl.2_Intron|APTX_uc003zrn.2_5'UTR|APTX_uc003zro.2_Silent_p.T66T|APTX_uc003zrp.2_5'UTR|APTX_uc003zrq.2_5'UTR|APTX_uc003zrr.2_Intron|APTX_uc003zrs.2_Silent_p.T66T|APTX_uc003zrt.2_5'UTR|APTX_uc003zru.2_Intron|APTX_uc003zrv.2_Silent_p.T80T|APTX_uc003zrw.2_Silent_p.T66T|APTX_uc003zrx.2_Silent_p.T66T|APTX_uc003zry.2_Silent_p.T66T|APTX_uc003zrz.2_Intron|APTX_uc003zsa.1_Intron|APTX_uc003zsb.1_Intron|APTX_uc003zsc.1_Intron	NM_175072	NP_778242	Q7Z2E3	APTX_HUMAN	aprataxin isoform c	80	Interactions with ADPRT and NCL.|FHA-like.				cell death|double-strand break repair|regulation of protein stability|response to hydrogen peroxide|single strand break repair	chromatin|nucleolus|nucleoplasm	chromatin binding|damaged DNA binding|DNA 5'-adenosine monophosphate hydrolase activity|double-stranded DNA binding|double-stranded RNA binding|phosphoglycolate phosphatase activity|phosphoprotein binding|polynucleotide 3'-phosphatase activity|protein N-terminus binding|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0302)	GBM - Glioblastoma multiforme(74;0.105)		AGTCAATGCTGGTGGGATTGA	0.408								Direct_reversal_of_damage|Editing_and_processing_nucleases					8	35					0.000157383	0.000165819	1	1	0		T	32987827	T	T	32987827	2	4	122	1	0	0	0	0	0	0	0	1	820	1335	47	5		5	APTX	9	32987827	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	357241	32987827	108225604	496	67499											
NFX1	4799	broad.mit.edu	37	chr9	33294992	33294992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccgaacaactccaaaaccGgaggatgctggacccgaaag	16	3	10	12	3	0	0	0	0	0	0	1	5	1	3	4	3	5	1	4	3	6	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:33294992G>A	uc003zsq.2	+	2	661	c.600G>A	c.(598-600)CCG>CCA	p.P200P	SUGT1P1_uc010mjq.1_Intron|NFX1_uc011lnw.1_Silent_p.P200P|NFX1_uc003zso.2_Silent_p.P200P|NFX1_uc003zsp.1_Silent_p.P200P|NFX1_uc010mjr.1_Silent_p.P200P|NFX1_uc003zsr.2_Silent_p.P200P	NM_002504	NP_002495	Q12986	NFX1_HUMAN	nuclear transcription factor, X-box binding 1	200					inflammatory response|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|ligase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)	GBM - Glioblastoma multiforme(74;0.224)		CTCCAAAACCGGAGGATGCTG	0.468													12	97					0	0	1	0	0		A	33294992	A	A	33294992	2	1	122	1	0	0	0	0	0	0	0	1	10406	1103	39	1		1	NFX1	9	33294992	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	307165	33294992	107918439	497	67500											
KIAA1161	57462	broad.mit.edu	37	chr9	34371970	34371970	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctggtccacggcgcgcccGtacagcgcccatgtggacca	6	6	12	17	5	0	0	0	0	0	0	2	1	2	1	5	3	2	1	5	3	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:34371970G>A	uc003zue.3	-	3	1139	c.972C>T	c.(970-972)TAC>TAT	p.Y324Y		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	324	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		CGGCGCGCCCGTACAGCGCCC	0.597													10	74					0	0	1	0	0		A	34371970	A	A	34371970	2	1	122	1	0	0	0	0	0	0	0	1	8227	1140	40	1		1	KIAA1161	9	34371970	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1076978	34371970	106841461	498	67501											
ENHO	375704	broad.mit.edu	37	chr9	34521556	34521556	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggctggagttgggactggaTtcagagagagagtcaacgtc	10	8	17	6	1	2	2	2	0	0	2	3	7	2	5	0	4	1	2	0	4	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:34521556T>C	uc003zun.1	-	2	562	c.138A>G	c.(136-138)GAA>GAG	p.E46E	ENHO_uc003zuo.2_RNA	NM_198573	NP_940975	Q6UWT2	ENHO_HUMAN	adropin precursor	46						extracellular region					0						TGGGACTGGATTCAGAGAGAG	0.632													17	100					0	0	1	0	0		C	34521556	C	C	34521556	2	2	122	1	0	0	0	0	0	0	0	1	5127	1490	52	3		3	ENHO	9	34521556	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	149586	34521556	106691875	499	67502											
KIAA1045	23349	broad.mit.edu	37	chr9	34976565	34976565	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggaggactttctgcgttAccgccaccaagcagccaagc	10	7	10	14	2	1	0	0	0	1	0	1	2	1	2	4	2	5	2	4	2	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:34976565A>G	uc003zvq.2	+	5	855	c.677A>G	c.(676-678)TAC>TGC	p.Y226C	KIAA1045_uc003zvr.2_Missense_Mutation_p.Y226C	NM_015297	NP_056112	Q9UPV7	K1045_HUMAN	hypothetical protein LOC23349	226							calcium ion binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00575)			TTTCTGCGTTACCGCCACCAA	0.637													10	73					0	0	1	0	0		G	34976565	G	G	34976565	3	3	122	1	0	0	0	0	1	0	0	0	8223	391	14	3	691	3	KIAA1045	9	34976565	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	455009	34976565	106236866	500	67503											
RUSC2	9853	broad.mit.edu	37	chr9	35547473	35547473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccactcagaccctggcGccttctatctggatctgcag	7	9	10	15	1	4	1	1	0	3	1	4	2	4	2	3	2	2	2	3	2	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:35547473G>A	uc003zww.2	+	2	1210	c.955G>A	c.(955-957)GCC>ACC	p.A319T	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.A319T	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	319						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			AGACCCTGGCGCCTTCTATCT	0.567													12	110					0	0	1	0	0		A	35547473	A	A	35547473	3	1	122	1	0	0	0	0	1	0	0	0	13776	1087	38	1	957	1	RUSC2	9	35547473	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	570908	35547473	105665958	501	67504											
GBA2	57704	broad.mit.edu	37	chr9	35737772	35737772	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcatggtagctgccagcccGtagaccacacccacccagac	11	5	8	17	1	1	2	1	0	0	2	1	2	1	2	5	1	3	3	5	1	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:35737772G>A	uc003zxw.2	-	16	3002	c.2478C>T	c.(2476-2478)TAC>TAT	p.Y826Y	GBA2_uc003zxx.1_Silent_p.Y121Y|GBA2_uc011lpb.1_Silent_p.Y826Y|GBA2_uc011lpc.1_Silent_p.Y826Y|GBA2_uc011lpd.1_Silent_p.Y832Y	NM_020944	NP_065995	Q9HCG7	GBA2_HUMAN	bile acid beta-glucosidase	826	Cytoplasmic (Potential).				bile acid metabolic process|glucosylceramide catabolic process|O-glycoside catabolic process	integral to membrane|microsome|plasma membrane|smooth endoplasmic reticulum	beta-glucosidase activity|glucosylceramidase activity			ovary(3)|skin(1)	4	all_epithelial(49;0.167)		Lung(28;0.00416)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CTGCCAGCCCGTAGACCACAC	0.537													12	101					0	0	1	0	0		A	35737772	A	A	35737772	2	1	122	1	0	0	0	0	0	0	0	1	6282	1140	40	1		1	GBA2	9	35737772	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	190299	35737772	105475659	502	67505											
RGP1	9827	broad.mit.edu	37	chr9	35751682	35751682	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtttggcatcttcaaatcTgtgtacagacttggcgagga	10	12	11	8	2	3	1	1	0	2	1	3	3	3	2	0	3	1	3	0	3	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:35751682T>C	uc011lpf.1	+	7	834	c.693T>C	c.(691-693)TCT>TCC	p.S231S	GBA2_uc011lpb.1_5'Flank|GBA2_uc003zxw.2_5'Flank|GBA2_uc011lpc.1_5'Flank|GBA2_uc011lpd.1_5'Flank|RGP1_uc011lpe.1_Silent_p.S271S	NM_001080496	NP_001073965	Q92546	RGP1_HUMAN	RGP1 retrograde golgi transport homolog	231										ovary(1)	1	all_epithelial(49;0.167)		Lung(28;0.00416)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TCTTCAAATCTGTGTACAGAC	0.488													12	93					0	0	1	0	0		C	35751682	C	C	35751682	2	2	122	1	0	0	0	0	0	0	0	1	13309	1567	55	3		3	RGP1	9	35751682	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	13910	35751682	105461749	503	67506											
GNE	10020	broad.mit.edu	37	chr9	36246267	36246267	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaaggattcggatgttcAtcaaggcagcagatgtggcc	10	10	14	7	1	2	2	2	1	0	1	3	4	2	4	1	4	1	3	1	4	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:36246267A>G	uc010mlh.2	-	3	592	c.377T>C	c.(376-378)ATG>ACG	p.M126T	CLTA_uc003zzf.1_Intron|GNE_uc010mlg.2_Missense_Mutation_p.M126T|GNE_uc011lpl.1_Missense_Mutation_p.M67T|GNE_uc010mli.2_Missense_Mutation_p.M157T|GNE_uc010mlj.2_Missense_Mutation_p.M121T	NM_005476	NP_005467	Q9Y223	GLCNE_HUMAN	UDP-N-acetylglucosamine-2-epimerase/N-	126	UDP-N-acetylglucosamine 2-epimerase.				cell adhesion|lipopolysaccharide biosynthetic process|N-acetylneuraminate metabolic process|UDP-N-acetylglucosamine metabolic process		ATP binding|N-acylmannosamine kinase activity|UDP-N-acetylglucosamine 2-epimerase activity				0			STAD - Stomach adenocarcinoma(86;0.228)			TCGGATGTTCATCAAGGCAGC	0.478													10	83					0	0	1	0	0		G	36246267	G	G	36246267	3	3	122	1	0	0	0	0	1	0	0	0	6537	217	8	3	1831	3	GNE	9	36246267	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	494585	36246267	104967164	504	67507											
MCART1	92014	broad.mit.edu	37	chr9	37888456	37888456	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccacacaagtaatgcttcAtctcaccaacatttgtaata	15	11	4	11	0	2	0	2	0	1	0	3	0	2	0	2	0	3	3	2	0	5	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:37888456A>G	uc004aau.2	-	3	836	c.92T>C	c.(91-93)ATG>ACG	p.M31T	MCART1_uc004aar.1_Intron|MCART1_uc004aaq.1_Intron|uc004aat.1_5'Flank|MCART1_uc004aav.2_Missense_Mutation_p.M31T	NM_033412	NP_219480	Q9H1U9	MCAR1_HUMAN	mitochondrial carrier triple repeat 1	31	Solcar 1.				transport	integral to membrane|mitochondrial inner membrane				ovary(2)|breast(1)	3				GBM - Glioblastoma multiforme(29;0.00559)|Lung(182;0.0422)		GTAATGCTTCATCTCACCAAC	0.408													19	117					0	0	1	0	0		G	37888456	G	G	37888456	3	3	122	1	0	0	0	0	1	0	0	0	9387	217	8	3	805	3	MCART1	9	37888456	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1642189	37888456	103324975	505	67508											
CNTNAP3	79937	broad.mit.edu	37	chr9	39176052	39176052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttttacgtctgaatgccCgcgatcttccgggtgtcgga	6	12	12	11	5	2	1	0	1	2	0	4	3	3	2	2	2	3	1	2	2	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:39176052C>T	uc004abi.2	-	7	1204	c.965G>A	c.(964-966)CGG>CAG	p.R322Q	CNTNAP3_uc004abj.2_Missense_Mutation_p.R322Q|CNTNAP3_uc011lqr.1_RNA|CNTNAP3_uc004abk.1_Missense_Mutation_p.R322Q|CNTNAP3_uc011lqs.1_Missense_Mutation_p.R322Q|CNTNAP3_uc004abl.1_Missense_Mutation_p.R234Q	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor	322	Extracellular (Potential).|Laminin G-like 1.				cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		TCTGAATGCCCGCGATCTTCC	0.383													14	109					0	0	1	0	0		T	39176052	T	T	39176052	3	4	122	1	0	0	0	0	1	0	0	0	3651	652	23	1	2973	1	CNTNAP3	9	39176052	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1287596	39176052	102037379	506	67509											
C9orf135	138255	broad.mit.edu	37	chr9	72435828	72435828	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacagatcctgccaggactgGtgcgacaggaagcaacactg	12	5	13	11	1	0	1	0	0	0	1	1	5	1	3	2	3	4	1	2	3	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:72435828G>A	uc004ahl.2	+	1	98	c.33G>A	c.(31-33)TGG>TGA	p.W11*	C9orf135_uc011lrw.1_Translation_Start_Site|C9orf135_uc010moq.2_Translation_Start_Site|C9orf135_uc011lrx.1_RNA|C9orf135_uc010mop.2_Nonsense_Mutation_p.W11*|uc004ahk.2_5'Flank	NM_001010940	NP_001010940	Q5VTT2	CI135_HUMAN	hypothetical protein LOC138255	11	Extracellular (Potential).					integral to membrane				ovary(1)	1						GCCAGGACTGGTGCGACAGGA	0.592													8	47					0	0	1	0	0		A	72435828	A	A	72435828	4	1	122	1	0	0	0	0	0	1	0	0	2461	1270	44	4	35	4	C9orf135	9	72435828	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	33259776	72435828	68777603	507	67510											
TRPM6	140803	broad.mit.edu	37	chr9	77354736	77354736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacaatgaaaacttgtcccGgcttgagaatgtcatcctca	12	11	8	10	1	2	3	2	3	0	1	4	4	4	3	2	1	1	1	2	1	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:77354736G>A	uc004ajl.1	-	34	5628	c.5390C>T	c.(5389-5391)CCG>CTG	p.P1797L	TRPM6_uc004ajk.1_Missense_Mutation_p.P1792L|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.P748L|TRPM6_uc010mpd.1_Missense_Mutation_p.P630L|TRPM6_uc010mpe.1_Missense_Mutation_p.P344L|TRPM6_uc004ajj.1_Missense_Mutation_p.P753L	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1797	Alpha-type protein kinase.|Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						AACTTGTCCCGGCTTGAGAAT	0.507													26	109					0	0	1	0	0		A	77354736	A	A	77354736	3	1	122	1	0	0	0	0	1	0	0	0	16616	1116	39	1	702	1	TRPM6	9	77354736	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4918908	77354736	63858695	508	67511											
PRUNE2	158471	broad.mit.edu	37	chr9	79469112	79469112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacatggaccttctccaagcGtttgcttcgattctgaaaca	10	12	7	12	2	2	1	0	1	2	0	4	3	2	2	2	1	3	2	2	1	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:79469112G>A	uc010mpk.2	-	2	173	c.49C>T	c.(49-51)CGC>TGC	p.R17C	PRUNE2_uc004akn.2_Missense_Mutation_p.R17C	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	17					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TTCTCCAAGCGTTTGCTTCGA	0.338													6	40					0	0	1	0	0		A	79469112	A	A	79469112	3	1	122	1	0	0	0	0	1	0	0	0	12663	1145	40	1	9289	1	PRUNE2	9	79469112	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2114376	79469112	61744319	509	67512											
TLE1	7088	broad.mit.edu	37	chr9	84205815	84205815	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggggctgatggccagggcGtagcaggcgggggccgagga	6	4	22	9	4	0	1	0	1	0	0	1	3	0	2	2	8	1	3	2	8	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:84205815G>A	uc004aly.2	-	16	2175	c.1734C>T	c.(1732-1734)TAC>TAT	p.Y578Y	TLE1_uc004alz.2_Silent_p.Y588Y|TLE1_uc011lsr.1_Silent_p.Y563Y|TLE1_uc004ama.1_Silent_p.Y577Y	NM_005077	NP_005068	Q04724	TLE1_HUMAN	transducin-like enhancer protein 1	578	WD 3.				negative regulation of Wnt receptor signaling pathway|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway		transcription factor binding			ovary(1)|skin(1)	2						TGGCCAGGGCGTAGCAGGCGG	0.617													10	96					0	0	1	0	0		A	84205815	A	A	84205815	2	1	122	1	0	0	0	0	0	0	0	1	15963	1140	40	1		1	TLE1	9	84205815	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4736703	84205815	57007616	510	67513											
FLJ46321	389763	broad.mit.edu	37	chr9	84605984	84605984	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccaccccccttaattcTctcacctgacctgatcacca	9	10	2	20	0	3	2	2	2	1	0	5	2	4	2	8	0	0	0	8	0	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:84605984T>C	uc004amn.2	+	4	646	c.599T>C	c.(598-600)CTC>CCC	p.L200P		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	200	Pro-rich.					integral to membrane					0						CCCTTAATTCTCTCACCTGAC	0.552													15	82					0	0	1	0	0		C	84605984	C	C	84605984	3	2	122	1	0	0	0	0	1	0	0	0	5946	1551	54	3	613	3	FLJ46321	9	84605984	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	400169	84605984	56607447	511	67514											
AUH	549	broad.mit.edu	37	chr9	94060317	94060317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaagaccaccacctaaagCgagtccatctattgctgcaa	13	9	6	13	1	2	1	1	0	1	1	3	2	3	1	4	0	3	2	4	0	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:94060317C>T	uc004arf.3	-	5	582	c.547G>A	c.(547-549)GCT>ACT	p.A183T	AUH_uc004arg.3_Missense_Mutation_p.A154T|AUH_uc011ltu.1_Missense_Mutation_p.A183T	NM_001698	NP_001689	Q13825	AUHM_HUMAN	AU RNA binding protein/enoyl-Coenzyme A	183					branched chain family amino acid catabolic process|mRNA catabolic process	mitochondrial matrix	enoyl-CoA hydratase activity|methylglutaconyl-CoA hydratase activity|mRNA 3'-UTR binding				0						CCACCTAAAGCGAGTCCATCT	0.343													6	54					0	0	1	0	0		T	94060317	T	T	94060317	3	4	122	1	0	0	0	0	1	0	0	0	1220	768	27	1	496	1	AUH	9	94060317	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	9454333	94060317	47153114	512	67515											
IPPK	64768	broad.mit.edu	37	chr9	95410357	95410357	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccttgaggtgctggtgcAtgcagtatcgacagacctta	9	11	11	10	1	1	2	1	1	0	1	2	3	1	2	2	2	3	4	2	2	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:95410357A>G	uc004asl.1	-	6	765	c.488T>C	c.(487-489)ATG>ACG	p.M163T		NM_022755	NP_073592	Q9H8X2	IPPK_HUMAN	inositol 1,3,4,5,6-pentakisphosphate 2-kinase	163					inositol or phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol pentakisphosphate 2-kinase activity			ovary(2)	2						GTGCTGGTGCATGCAGTATCG	0.483													3	18					0	0	1	0	0		G	95410357	G	G	95410357	3	3	122	1	0	0	0	0	1	0	0	0	7817	217	8	3	1019	3	IPPK	9	95410357	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1350040	95410357	45803074	513	67516											
ZNF367	195828	broad.mit.edu	37	chr9	99160514	99160514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctattacagatgttacaaCggattctgctggatgaatgc	11	12	9	9	1	1	2	0	1	1	1	1	4	1	4	1	2	5	2	1	2	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:99160514C>T	uc004awf.2	-	2	858	c.503G>A	c.(502-504)CGT>CAT	p.R168H	ZNF367_uc004awg.2_Missense_Mutation_p.R168H	NM_153695	NP_710162	Q7RTV3	ZN367_HUMAN	zinc finger protein 367	168	C2H2-type 1.				regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0167)				GATGTTACAACGGATTCTGCT	0.433													34	226					0	0	1	0	0		T	99160514	T	T	99160514	3	4	122	1	0	0	0	0	1	0	0	0	17896	536	19	1	565	1	ZNF367	9	99160514	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3750157	99160514	42052917	514	67517											
TSTD2	158427	broad.mit.edu	37	chr9	100380087	100380087	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctgtctgccaggcacaGatccattggggatcctccag	9	8	12	12	0	1	2	0	0	1	2	4	3	4	3	4	3	2	2	4	3	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:100380087G>T	uc004axn.2	-	4	1043	c.555C>A	c.(553-555)ATC>ATA	p.I185I	TSTD2_uc004axo.2_Translation_Start_Site|TSTD2_uc004axp.1_Translation_Start_Site	NM_139246	NP_640339	Q5T7W7	TSTD2_HUMAN	thiosulfate sulfurtransferase (rhodanese)-like	185										ovary(2)	2						GCCAGGCACAGATCCATTGGG	0.512													9	78					2.17888e-05	2.33674e-05	1	1	0		T	100380087	T	T	100380087	2	4	122	1	0	0	0	0	0	0	0	1	16701	932	33	5		5	TSTD2	9	100380087	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1219573	100380087	40833344	515	67518											
HEMGN	55363	broad.mit.edu	37	chr9	100693288	100693288	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatttcagaaaagtgttccTcaggcacaactttttgcggg	11	13	9	8	1	2	1	2	0	0	1	3	1	3	1	1	2	2	2	1	2	4	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:100693288T>C	uc004axy.2	-	3	497	c.389A>G	c.(388-390)GAG>GGG	p.E130G	HEMGN_uc004axz.2_Missense_Mutation_p.E130G	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	130					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				AAAGTGTTCCTCAGGCACAAC	0.403													21	112					0	0	1	0	0		C	100693288	C	C	100693288	3	2	122	1	0	0	0	0	1	0	0	0	7066	1551	54	3	1073	3	HEMGN	9	100693288	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	313201	100693288	40520143	516	67519											
CORO2A	7464	broad.mit.edu	37	chr9	100895424	100895424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggacatggagaggatcaCatcttggtgacagctaatcg	13	8	13	7	1	2	2	1	1	1	1	3	6	2	4	0	4	1	1	0	4	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:100895424C>T	uc004ayl.2	-	5	810	c.544G>A	c.(544-546)GTG>ATG	p.V182M	CORO2A_uc004aym.2_Missense_Mutation_p.V182M	NM_003389	NP_003380	Q92828	COR2A_HUMAN	coronin, actin binding protein, 2A	182	WD 3.				actin cytoskeleton organization|intracellular signal transduction	actin cytoskeleton|transcriptional repressor complex	actin filament binding			skin(2)|ovary(1)|pancreas(1)	4		Acute lymphoblastic leukemia(62;0.0559)				GAGAGGATCACATCTTGGTGA	0.542													21	114					0	0	1	0	0		T	100895424	T	T	100895424	3	4	122	1	0	0	0	0	1	0	0	0	3759	478	17	4	1065	4	CORO2A	9	100895424	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	202136	100895424	40318007	517	67520											
TBC1D2	55357	broad.mit.edu	37	chr9	101014085	101014085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctagctcgaggtgcaggaCgggcccattcccagccaggg	8	5	14	14	2	0	0	0	0	0	0	2	2	1	1	4	4	3	2	4	4	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:101014085C>T	uc011lvb.1	-	2	673	c.493G>A	c.(493-495)GTC>ATC	p.V165I	TBC1D2_uc004ayq.2_Missense_Mutation_p.V165I|TBC1D2_uc004ayr.2_Intron|TBC1D2_uc004ayo.3_Missense_Mutation_p.V165I	NM_018421	NP_060891	Q9BYX2	TBD2A_HUMAN	TBC1 domain family, member 2	165	Interaction with CADH1.					cell junction|cytoplasmic membrane-bounded vesicle|nucleus	Rab GTPase activator activity			ovary(3)	3		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.55e-37)		AGGTGCAGGACGGGCCCATTC	0.637													13	80					0	0	1	0	0		T	101014085	T	T	101014085	3	4	122	1	0	0	0	0	1	0	0	0	15633	536	19	1	2308	1	TBC1D2	9	101014085	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	118661	101014085	40199346	518	67521											
PPP3R2	5535	broad.mit.edu	37	chr9	104357023	104357023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaccgtcggtgtcgaagaCgtcgatcactcgccgcacca	9	7	10	15	7	2	1	2	0	0	1	6	3	2	1	3	1	0	1	3	1	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:104357023C>T	uc004bbr.2	-	1	261	c.190G>A	c.(190-192)GTC>ATC	p.V64I	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_Intron	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	61	EF-hand 2.						calcium ion binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	GTGTCGAAGACGTCGATCACT	0.567													15	108					0	0	1	0	0		T	104357023	T	T	104357023	3	4	122	1	0	0	0	0	1	0	0	0	12423	536	19	1	335	1	PPP3R2	9	104357023	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3342938	104357023	36856408	519	67522											
SLC44A1	23446	broad.mit.edu	37	chr9	108126852	108126852	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaggcagtcctgttcagaaTgagcaaggctttgtggagtt	9	12	13	7	0	1	2	1	1	0	1	2	3	2	3	1	3	1	5	1	3	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:108126852T>C	uc004bcn.2	+	10	1325	c.1104T>C	c.(1102-1104)AAT>AAC	p.N368N	SLC44A1_uc010mtk.1_Silent_p.N368N|SLC44A1_uc004bco.1_Silent_p.N160N	NM_080546	NP_536856	Q8WWI5	CTL1_HUMAN	CDW92 antigen	368	Cytoplasmic (Potential).					integral to membrane|mitochondrial outer membrane|plasma membrane	choline transmembrane transporter activity			breast(3)|ovary(1)	4					Choline(DB00122)	CTGTTCAGAATGAGCAAGGCT	0.428													24	170					0	0	1	0	0		C	108126852	C	C	108126852	2	2	122	1	0	0	0	0	0	0	0	1	14660	1461	51	3		3	SLC44A1	9	108126852	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	3769829	108126852	33086579	520	67523											
ZNF483	158399	broad.mit.edu	37	chr9	114304716	114304716	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaaatgtgatgactgtGggaaaggtttcaccctaagt	11	12	10	8	0	2	2	2	2	0	0	2	3	2	3	2	2	0	1	2	2	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:114304716G>T	uc004bff.2	+	6	1725	c.1501G>T	c.(1501-1503)GGG>TGG	p.G501W	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	501	C2H2-type 3.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						TGATGACTGTGGGAAAGGTTT	0.388													4	42					0.00909568	0.00928937	1	1	0		T	114304716	T	T	114304716	3	4	122	1	0	0	0	0	1	0	0	0	17961	1348	47	5	1519	5	ZNF483	9	114304716	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	6177864	114304716	26908715	521	67524											
C9orf84	158401	broad.mit.edu	37	chr9	114453877	114453877	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttaaatgaagattcatggtgCcttttctgtcctaaactttt	10	18	6	7	0	2	2	1	1	1	1	3	2	3	2	2	1	2	0	2	1	5	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:114453877C>T	uc004bfr.2	-	25	4323	c.4188G>A	c.(4186-4188)AGG>AGA	p.R1396R	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Silent_p.R1357R|C9orf84_uc010mug.2_Silent_p.R1307R	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	1396										ovary(2)	2						ATTCATGGTGCCTTTTCTGTC	0.313													7	66					0	0	1	0	0		T	114453877	T	T	114453877	2	4	122	1	0	0	0	0	0	0	0	1	2503	738	26	2		2	C9orf84	9	114453877	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	149161	114453877	26759554	522	67525											
ZFP37	7539	broad.mit.edu	37	chr9	115805249	115805249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggctaaaggctttcccaCattcattacactcatacggt	10	14	6	11	1	2	0	2	0	0	0	3	0	3	0	1	3	2	2	1	3	4	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:115805249C>T	uc004bgm.1	-	4	1677	c.1649G>A	c.(1648-1650)TGT>TAT	p.C550Y	ZFP37_uc011lwz.1_Missense_Mutation_p.C565Y|ZFP37_uc011lxa.1_Missense_Mutation_p.C551Y	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	550	C2H2-type 10.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GGCTTTCCCACATTCATTACA	0.378													18	84					0	0	1	0	0		T	115805249	T	T	115805249	3	4	122	1	0	0	0	0	1	0	0	0	17673	478	17	4	247	4	ZFP37	9	115805249	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1351372	115805249	25408182	523	67526											
CEP110	11064	broad.mit.edu	37	chr9	123903687	123903687	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttcagatgtcttagggAaaagtcttgctgatttacag	10	14	10	7	0	3	2	1	1	2	1	4	3	4	3	1	1	2	1	1	1	4	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:123903687A>G	uc004bkx.1	+	16	2543	c.2512A>G	c.(2512-2514)AAA>GAA	p.K838E	CEP110_uc004bky.1_Missense_Mutation_p.K442E|CEP110_uc004bkz.1_Missense_Mutation_p.K286E|CEP110_uc004bla.1_Missense_Mutation_p.K286E|CEP110_uc010mvo.1_5'Flank	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	838					cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						TGTCTTAGGGAAAAGTCTTGC	0.383													12	67					0	0	1	0	0		G	123903687	G	G	123903687	3	3	122	1	0	0	0	0	1	0	0	0	3248	247	9	3	2574	3	CEP110	9	123903687	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	8098438	123903687	17309744	524	67527											
OR1L8	138881	broad.mit.edu	37	chr9	125330410	125330410	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaaaggccatgactgccAgaaggcagctgtcactgttg	10	8	13	10	0	2	2	2	1	0	1	2	2	2	2	2	3	2	3	2	3	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:125330410A>G	uc004bmp.1	-	1	347	c.347T>C	c.(346-348)CTG>CCG	p.L116P		NM_001004454	NP_001004454	Q8NGR8	OR1L8_HUMAN	olfactory receptor, family 1, subfamily L,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3						CATGACTGCCAGAAGGCAGCT	0.527													14	61					0	0	1	0	0		G	125330410	G	G	125330410	3	3	122	1	0	0	0	0	1	0	0	0	10986	188	7	3	586	3	OR1L8	9	125330410	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1426723	125330410	15883021	525	67528											
OR1K1	392392	broad.mit.edu	37	chr9	125562752	125562752	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgatagctgtcttctggcGgccatggcctatgactgcta	7	12	11	11	1	2	2	0	2	2	0	2	2	2	2	2	3	2	2	2	3	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:125562752G>A	uc011lze.1	+	1	351	c.351G>A	c.(349-351)GCG>GCA	p.A117A		NM_080859	NP_543135	Q8NGR3	OR1K1_HUMAN	olfactory receptor, family 1, subfamily K,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTCTTCTGGCGGCCATGGCCT	0.612													9	80					0	0	1	0	0		A	125562752	A	A	125562752	2	1	122	1	0	0	0	0	0	0	0	1	10981	1103	39	1		1	OR1K1	9	125562752	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	232342	125562752	15650679	526	67529											
NR5A1	2516	broad.mit.edu	37	chr9	127262453	127262453	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccattctgcacaggaggccGaaggccgccggctggtcggg	6	5	17	13	4	1	0	0	0	1	0	2	2	1	1	4	6	1	2	4	6	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:127262453G>A	uc004boo.1	-	4	973	c.786C>T	c.(784-786)TTC>TTT	p.F262F		NM_004959	NP_004950	Q13285	STF1_HUMAN	nuclear receptor subfamily 5, group A, member 1	262	Important for dimerization.|Ligand-binding.				cell-cell signaling|male gonad development|positive regulation of transcription from RNA polymerase II promoter|primary sex determination|regulation of steroid biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|phospholipid binding|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						ACAGGAGGCCGAAGGCCGCCG	0.662													7	40					0	0	1	0	0		A	127262453	A	A	127262453	2	1	122	1	0	0	0	0	0	0	0	1	10654	1049	37	1		1	NR5A1	9	127262453	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1699701	127262453	13950978	527	67530											
RABEPK	10244	broad.mit.edu	37	chr9	127965332	127965332	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacctggagacaagcccAggaaagcaacatggtctgta	14	6	12	9	0	1	1	0	0	1	1	1	4	1	3	2	4	4	2	2	4	5	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:127965332A>G	uc004bpi.2	+	3	213	c.40A>G	c.(40-42)AGG>GGG	p.R14G	RABEPK_uc004bph.1_Missense_Mutation_p.R14G|RABEPK_uc004bpj.2_Missense_Mutation_p.R14G|RABEPK_uc004bpk.2_Missense_Mutation_p.R14G|RABEPK_uc004bpl.1_Missense_Mutation_p.R14G|RABEPK_uc004bpm.2_Missense_Mutation_p.R14G	NM_005833	NP_005824	Q7Z6M1	RABEK_HUMAN	Rab9 effector protein with kelch motifs	14					receptor-mediated endocytosis|vesicle docking involved in exocytosis	endosome membrane|plasma membrane				ovary(1)	1						AGACAAGCCCAGGAAAGCAAC	0.363													7	75					0	0	1	0	0		G	127965332	G	G	127965332	3	3	122	1	0	0	0	0	1	0	0	0	12988	179	7	3	42	3	RABEPK	9	127965332	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	702879	127965332	13248099	528	67531											
SPTAN1	6709	broad.mit.edu	37	chr9	131346761	131346761	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttgaggatgaggagacGtggattcgagagaaagagcc	13	7	17	4	2	0	5	0	2	0	3	1	11	0	7	1	3	1	1	1	3	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:131346761G>A	uc004bvl.3	+	17	2507	c.2394G>A	c.(2392-2394)ACG>ACA	p.T798T	SPTAN1_uc011mbg.1_Silent_p.T798T|SPTAN1_uc011mbh.1_Silent_p.T810T|SPTAN1_uc004bvm.3_Silent_p.T798T|SPTAN1_uc004bvn.3_Silent_p.T798T	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	798	Spectrin 9.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						ATGAGGAGACGTGGATTCGAG	0.547													7	52					0	0	1	0	0		A	131346761	A	A	131346761	2	1	122	1	0	0	0	0	0	0	0	1	15142	1132	40	1		1	SPTAN1	9	131346761	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3381429	131346761	9866670	529	67532											
ZER1	10444	broad.mit.edu	37	chr9	131503159	131503159	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgcagttcctgcttctctGggaattcctgggaaaaggag	9	12	12	8	0	1	0	0	0	1	0	4	3	3	3	2	3	2	3	2	3	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:131503159G>T	uc004bwa.1	-	12	2178	c.1745C>A	c.(1744-1746)CCA>CAA	p.P582Q		NM_006336	NP_006327	Q7Z7L7	ZER1_HUMAN	zyg-11 homolog B (C. elegans)-like	582	ARM 3.				ATP hydrolysis coupled proton transport|regulation of ubiquitin-protein ligase activity	Cul2-RING ubiquitin ligase complex|vacuolar proton-transporting V-type ATPase, V1 domain	protein binding|proton-transporting ATPase activity, rotational mechanism|ubiquitin-protein ligase activity			ovary(1)	1						CTGCTTCTCTGGGAATTCCTG	0.463													6	67					4.096e-09	4.6157e-09	1	1	0		T	131503159	T	T	131503159	3	4	122	1	0	0	0	0	1	0	0	0	17650	1348	47	5	575	5	ZER1	9	131503159	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	156398	131503159	9710272	530	67533											
LRRC8A	56262	broad.mit.edu	37	chr9	131671140	131671140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaggtggtcacagatgtggGcgtgcacctgcagaagctgt	9	8	15	9	1	1	2	1	0	0	2	1	2	1	2	1	3	3	3	1	3	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:131671140G>A	uc004bwl.3	+	3	1951	c.1697G>A	c.(1696-1698)GGC>GAC	p.G566D	LRRC8A_uc010myp.2_Missense_Mutation_p.G566D|LRRC8A_uc010myq.2_Missense_Mutation_p.G566D	NM_019594	NP_062540	Q8IWT6	LRC8A_HUMAN	leucine rich repeat containing 8 family, member	566	LRR 8.				pre-B cell differentiation	integral to membrane					0						ACAGATGTGGGCGTGCACCTG	0.577													7	52					0	0	1	0	0		A	131671140	A	A	131671140	3	1	122	1	0	0	0	0	1	0	0	0	9039	1203	42	2	1699	2	LRRC8A	9	131671140	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	167981	131671140	9542291	531	67534											
NUP188	23511	broad.mit.edu	37	chr9	131764178	131764178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccagggagccacagcagtgGctggagctggcatcacccag	9	4	14	14	0	1	0	1	0	0	0	1	2	1	2	3	4	3	4	3	4	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:131764178G>A	uc004bws.1	+	36	4082	c.4060G>A	c.(4060-4062)GCT>ACT	p.A1354T	NUP188_uc004bwu.2_Missense_Mutation_p.A697T	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1354					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						CACAGCAGTGGCTGGAGCTGG	0.597													6	72					0	0	1	0	0		A	131764178	A	A	131764178	3	1	122	1	0	0	0	0	1	0	0	0	10777	1203	42	2	4202	2	NUP188	9	131764178	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	93038	131764178	9449253	532	67535											
TOR1A	1861	broad.mit.edu	37	chr9	132576463	132576463	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggaacaaaataatcaaTgaggttccggtcaattaagc	17	8	10	6	1	2	1	2	1	0	0	3	3	3	2	1	3	2	1	1	3	8	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:132576463T>C	uc004byl.2	-	5	864	c.787A>G	c.(787-789)ATT>GTT	p.I263V	TOR1A_uc004bym.2_RNA	NM_000113	NP_000104	O14656	TOR1A_HUMAN	torsin A precursor	263					chaperone mediated protein folding requiring cofactor|response to unfolded protein	endoplasmic reticulum lumen|nuclear membrane	ATP binding|serine-type endopeptidase activity|unfolded protein binding			central_nervous_system(1)	1		Ovarian(14;0.00556)				AAATAATCAATGAGGTTCCGG	0.478													21	117					0	0	1	0	0		C	132576463	C	C	132576463	3	2	122	1	0	0	0	0	1	0	0	0	16397	1464	51	3	215	3	TOR1A	9	132576463	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	812285	132576463	8636968	533	67536											
MED27	9442	broad.mit.edu	37	chr9	134955187	134955187	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggatggcactaatggcctgGgaaaaggcctccaggttcac	10	8	13	10	0	1	0	1	0	0	0	2	2	2	2	3	6	0	2	3	6	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:134955187G>A	uc004cbe.1	-	1	67	c.45C>T	c.(43-45)TCC>TCT	p.S15S	MED27_uc004cbf.1_Silent_p.S15S|MED27_uc011mco.1_Silent_p.S15S|MED27_uc004cbg.3_Silent_p.S15S	NM_004269	NP_004260	Q6P2C8	MED27_HUMAN	mediator complex subunit 27	15					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleolus|transcription factor complex	protein binding|transcription coactivator activity			skin(1)	1		Myeloproliferative disorder(178;0.206)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000193)		TAATGGCCTGGGAAAAGGCCT	0.617													10	19					0	0	1	0	0		A	134955187	A	A	134955187	2	1	122	1	0	0	0	0	0	0	0	1	9463	1219	43	4		4	MED27	9	134955187	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2378724	134955187	6258244	534	67537											
RALGDS	5900	broad.mit.edu	37	chr9	135976954	135976954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccacgtccaggctgacgcGgatgatacagcagtcgccca	9	6	12	14	4	0	2	0	2	0	0	3	3	2	3	3	2	2	2	3	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:135976954G>A	uc004cco.2	-	16	2427	c.2407C>T	c.(2407-2409)CGC>TGC	p.R803C	RALGDS_uc004cct.1_5'Flank|RALGDS_uc004ccn.2_5'UTR|RALGDS_uc004ccp.2_RNA|RALGDS_uc004ccq.2_Missense_Mutation_p.R791C|RALGDS_uc004ccr.2_Missense_Mutation_p.R802C|RALGDS_uc011mcv.1_Missense_Mutation_p.R774C|RALGDS_uc004ccs.2_Missense_Mutation_p.R748C|RALGDS_uc011mcw.1_Missense_Mutation_p.R874C|RALGDS_uc004ccv.1_Missense_Mutation_p.P630L|RALGDS_uc004ccu.1_Missense_Mutation_p.R572C	NM_006266	NP_006257	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	803	Ras-associating.				nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		AGGCTGACGCGGATGATACAG	0.642			T	CIITA	PMBL|Hodgkin Lymphona|								20	166					0	0	1	0	0		A	135976954	A	A	135976954	3	1	122	1	0	0	0	0	1	0	0	0	13041	1116	39	1	349	1	RALGDS	9	135976954	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1021767	135976954	5236477	535	67538											
CAMSAP1	157922	broad.mit.edu	37	chr9	138714882	138714882	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctctaacaatagccacaAgctcctcttcctcatcctca	10	11	3	17	0	4	0	2	0	2	0	7	0	7	0	4	0	4	2	4	0	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:138714882A>C	uc004cgr.3	-	11	1625	c.1625T>G	c.(1624-1626)CTT>CGT	p.L542R	CAMSAP1_uc004cgq.3_Missense_Mutation_p.L432R|CAMSAP1_uc010nbg.2_Missense_Mutation_p.L264R	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	542						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		AATAGCCACAAGCTCCTCTTC	0.592													36	274					0	0	1	0	0		C	138714882	C	C	138714882	3	2	122	1	0	0	0	0	1	0	0	0	2614	72	3	5	3211	5	CAMSAP1	9	138714882	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2737928	138714882	2498549	536	67539											
LHX3	8022	broad.mit.edu	37	chr9	139091594	139091594	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgaggtagaactcgtcGcccgtggccagctgccgctt	6	9	12	14	4	0	2	0	1	0	1	3	2	1	2	4	2	3	3	4	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:139091594G>A	uc004cha.2	-	3	481	c.384C>T	c.(382-384)GGC>GGT	p.G128G	LHX3_uc004cgz.2_Silent_p.G133G	NM_178138	NP_835258	Q9UBR4	LHX3_HUMAN	LIM homeobox protein 3 isoform a	128	LIM zinc-binding 2.				inner ear development|organ morphogenesis|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;8.43e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.26e-07)		AGAACTCGTCGCCCGTGGCCA	0.667													6	53					0	0	1	0	0		A	139091594	A	A	139091594	2	1	122	1	0	0	0	0	0	0	0	1	8788	1074	38	1		1	LHX3	9	139091594	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	376712	139091594	2121837	537	67540											
PTGDS	5730	broad.mit.edu	37	chr9	139873455	139873455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgccgcagttcctggggcGctggttcagcgcgggcctcg	2	8	16	15	6	1	0	1	0	0	0	4	0	2	0	3	4	1	4	3	4	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:139873455G>A	uc004cke.2	+	2	200	c.125G>A	c.(124-126)CGC>CAC	p.R42H	PTGDS_uc004ckd.2_RNA|PTGDS_uc004ckf.2_RNA	NM_000954	NP_000945	P41222	PTGDS_HUMAN	prostaglandin D2 synthase, brain	42					prostaglandin biosynthetic process|regulation of circadian sleep/wake cycle, sleep	Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum	fatty acid binding|prostaglandin-D synthase activity|retinoid binding|transporter activity			ovary(1)	1	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.19)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		TTCCTGGGGCGCTGGTTCAGC	0.711													8	34					0	0	1	0	0		A	139873455	A	A	139873455	3	1	122	1	0	0	0	0	1	0	0	0	12764	1087	38	1	131	1	PTGDS	9	139873455	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	781861	139873455	1339976	538	67541											
ABCA2	20	broad.mit.edu	37	chr9	139905912	139905912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacggtggcggtgatgcCgatgaagagattgatgacaa	11	7	16	7	3	0	5	0	4	0	1	0	7	0	5	2	4	1	0	2	4	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:139905912C>T	uc011mem.1	-	36	5891	c.5743G>A	c.(5743-5745)GGC>AGC	p.G1915S	ABCA2_uc011mel.1_Missense_Mutation_p.G1916S|ABCA2_uc004ckl.1_Missense_Mutation_p.G1846S|ABCA2_uc004ckm.1_Missense_Mutation_p.G1946S	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1915	Helical; (Potential).				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GCGGTGATGCCGATGAAGAGA	0.632													4	18					0	0	1	0	0		T	139905912	T	T	139905912	3	4	122	1	0	0	0	0	1	0	0	0	32	652	23	1	1616	1	ABCA2	9	139905912	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	32457	139905912	1307519	539	67542											
MAN1B1	11253	broad.mit.edu	37	chr9	139983450	139983450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagaacttacctgagatttCgtcacaggtactttgagcaa	12	12	9	8	1	1	3	1	3	0	2	2	5	1	3	1	1	4	2	1	1	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:139983450C>T	uc004cld.2	+	3	493	c.458C>T	c.(457-459)TCG>TTG	p.S153L	MAN1B1_uc004clc.2_Missense_Mutation_p.S54L|MAN1B1_uc011meo.1_Missense_Mutation_p.S54L|MAN1B1_uc011mep.1_Missense_Mutation_p.S153L|MAN1B1_uc010ncc.2_RNA|LOC100289341_uc004clb.3_5'Flank	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	153	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		CCTGAGATTTCGTCACAGGTA	0.458													32	153					0	0	1	0	0		T	139983450	T	T	139983450	3	4	122	1	0	0	0	0	1	0	0	0	9230	893	31	1	468	1	MAN1B1	9	139983450	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	77538	139983450	1229981	540	67543											
FAM166A	401565	broad.mit.edu	37	chr9	140139864	140139864	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcccttcctgcctggtggGcacggagggtgcggggtgtc	2	10	17	12	2	1	0	0	0	1	0	4	1	2	1	3	6	2	1	3	6	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:140139864G>A	uc004cmi.1	-	3	472	c.417C>T	c.(415-417)TGC>TGT	p.C139C		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	139										ovary(1)	1						TGCCTGGTGGGCACGGAGGGT	0.652													21	116					0	0	1	0	0		A	140139864	A	A	140139864	2	1	122	1	0	0	0	0	0	0	0	1	5492	1195	42	2		2	FAM166A	9	140139864	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	156414	140139864	1073567	541	67544											
PNPLA7	375775	broad.mit.edu	37	chr9	140437937	140437937	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggtgagaattcttcacGtcaaactccgtgaggtcggc	9	9	13	10	3	3	2	2	2	1	1	5	3	4	2	1	4	1	1	1	4	2	2	rs139510260	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr9:140437937G>A	uc004cnf.2	-	5	715	c.378C>T	c.(376-378)GAC>GAT	p.D126D	PNPLA7_uc010ncj.1_Silent_p.D151D	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	126					lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		AATTCTTCACGTCAAACTCCG	0.602													15	101					0	0	1	0	0		A	140437937	A	A	140437937	2	1	122	1	0	0	0	0	0	0	0	1	12189	1136	40	1		1	PNPLA7	9	140437937	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	298073	140437937	775494	542	67545											
DIP2C	22982	broad.mit.edu	37	chr10	433709	433709	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggatgccatgccagagcccGacgtccttcttgaaatccag	10	8	10	13	2	1	2	0	1	1	1	3	4	3	3	5	1	3	0	5	1	1	2	rs143826852	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:433709G>A	uc001ifp.2	-	14	1728	c.1638C>T	c.(1636-1638)GTC>GTT	p.V546V	DIP2C_uc009xhj.1_Silent_p.V242V	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	546						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GCCAGAGCCCGACGTCCTTCT	0.552													23	141					0	0	1	0	0		A	433709	A	A	433709	2	1	122	1	0	0	0	0	0	0	0	1	4535	1045	37	1		1	DIP2C	10	433709	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08		433709	135101038	543	67546											
SFMBT2	57713	broad.mit.edu	37	chr10	7290596	7290596	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactgtgaagaaatggcttcGcaaatctgcgtgatcctgca	12	10	10	9	2	1	3	0	2	1	1	3	3	2	3	1	1	3	3	1	1	4	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:7290596G>T	uc009xio.1	-	8	977	c.886C>A	c.(886-888)CGA>AGA	p.R296R	SFMBT2_uc001ijn.1_Silent_p.R296R|SFMBT2_uc010qay.1_Silent_p.R296R	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	296	MBT 3.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						AAATGGCTTCGCAAATCTGCG	0.483													9	56					0.00829132	0.0085041	1	1	0		T	7290596	T	T	7290596	2	4	122	1	0	0	0	0	0	0	0	1	14183	1095	38	5		5	SFMBT2	10	7290596	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	6856887	7290596	128244151	544	67547											
UPF2	26019	broad.mit.edu	37	chr10	11990443	11990443	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccccaccttcttcttcttcTtcatcctcttcaagattttc	5	18	2	16	0	7	1	2	0	5	1	9	1	8	1	4	0	0	0	4	0	1	8			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:11990443T>A	uc001ila.2	-	15	3573	c.3099A>T	c.(3097-3099)GAA>GAT	p.E1033D	UPF2_uc001ilb.2_Missense_Mutation_p.E1033D|UPF2_uc001ilc.2_Missense_Mutation_p.E1033D	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	1033	Glu-rich.|Sufficient for interaction with EIF4A1 and EIF1.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				cttcttcttcttcatcctctt	0.154													3	37					0	0	1	0	0		A	11990443	A	A	11990443	3	1	122	1	0	0	0	0	1	0	0	0	17030	1606	56	5	747	5	UPF2	10	11990443	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	4699847	11990443	123544304	545	67548											
SPAG6	9576	broad.mit.edu	37	chr10	22676794	22676794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggtttcaaaacattccGtggatctggcagaaatggtt	11	12	11	7	1	3	1	2	0	1	1	4	2	4	2	1	4	1	3	1	4	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:22676794G>A	uc001iri.2	+	6	863	c.721G>A	c.(721-723)GTG>ATG	p.V241M	SPAG6_uc001irj.2_Missense_Mutation_p.V241M|SPAG6_uc010qct.1_Missense_Mutation_p.V211M|SPAG6_uc009xkh.2_Missense_Mutation_p.V219M	NM_012443	NP_036575	O75602	SPAG6_HUMAN	sperm associated antigen 6 isoform 1	241	ARM 6.				cell projection organization|spermatid development	axoneme|cilium|cytoplasm|flagellum|microtubule	binding			breast(1)	1						AAAACATTCCGTGGATCTGGC	0.383													11	64					0	0	1	0	0		A	22676794	A	A	22676794	3	1	122	1	0	0	0	0	1	0	0	0	15007	1145	40	1	743	1	SPAG6	10	22676794	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	10686351	22676794	112857953	546	67549											
APBB1IP	54518	broad.mit.edu	37	chr10	26800783	26800783	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcgagaaaactcattgTgactgcaatgtagactggtg	11	13	10	7	1	1	3	1	1	0	2	2	4	1	3	0	1	2	2	0	1	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:26800783T>C	uc001iss.2	+	7	960	c.639T>C	c.(637-639)TGT>TGC	p.C213C	APBB1IP_uc009xks.1_Silent_p.C213C	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	213	Ras-associating.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						AAACTCATTGTGACTGCAATG	0.468													16	97					0	0	1	0	0		C	26800783	C	C	26800783	2	2	122	1	0	0	0	0	0	0	0	1	760	1702	59	3		3	APBB1IP	10	26800783	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	4123989	26800783	108733964	547	67550											
MASTL	84930	broad.mit.edu	37	chr10	27459730	27459730	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttattgtaacaccagattgCcaagaaaagacctcaccaaa	17	8	5	11	0	1	3	1	0	0	3	1	3	1	3	4	0	2	1	4	0	6	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:27459730C>T	uc001itm.2	+	8	2481	c.1842C>T	c.(1840-1842)TGC>TGT	p.C614C	MASTL_uc001itl.2_Silent_p.C614C|MASTL_uc009xkw.1_Silent_p.C614C|MASTL_uc009xkx.1_RNA	NM_032844	NP_116233	Q96GX5	GWL_HUMAN	microtubule associated serine/threonine	614	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|mitosis|negative regulation of protein phosphatase type 2A activity|regulation of cell cycle|response to DNA damage stimulus	centrosome|cleavage furrow|nucleus	ATP binding|protein phosphatase 2A binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						CACCAGATTGCCAAGAAAAGA	0.403													3	35					0	0	1	0	0		T	27459730	T	T	27459730	2	4	122	1	0	0	0	0	0	0	0	1	9346	747	26	2		2	MASTL	10	27459730	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	658947	27459730	108075017	548	67551											
SVIL	6840	broad.mit.edu	37	chr10	29839919	29839919	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctccccgcttctcgacaGcatcaggctccttcctggac	5	11	7	18	2	2	0	1	0	1	0	7	2	6	1	5	2	1	3	5	2	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:29839919G>T	uc001iut.1	-	6	1187	c.434C>A	c.(433-435)GCT>GAT	p.A145D	SVIL_uc001iuu.1_Missense_Mutation_p.A145D|SVIL_uc009xld.1_Missense_Mutation_p.A145D	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	145	Interaction with MYLK (By similarity).				cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				CTTCTCGACAGCATCAGGCTC	0.557													10	94					1.76689e-08	1.98548e-08	1	1	0		T	29839919	T	T	29839919	3	4	122	1	0	0	0	0	1	0	0	0	15446	971	34	5	6342	5	SVIL	10	29839919	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2380189	29839919	105694828	549	67552											
ANKRD30A	91074	broad.mit.edu	37	chr10	37486356	37486356	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccattgaaatgcaaaaGtctgttccaaataaagcctt	14	11	6	10	0	1	1	0	1	1	0	2	1	2	1	4	0	3	2	4	0	6	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:37486356G>T	uc001iza.1	+	29	2595	c.2496G>T	c.(2494-2496)AAG>AAT	p.K832N		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	888						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AAATGCAAAAGTCTGTTCCAA	0.308													10	112					0.0135373	0.0138138	1	1	0		T	37486356	T	T	37486356	3	4	122	1	0	0	0	0	1	0	0	0	658	1020	36	5	2610	5	ANKRD30A	10	37486356	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	7646437	37486356	98048391	550	67553											
BMS1	9790	broad.mit.edu	37	chr10	43292147	43292147	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgttaagggcatcaaacgAcggaaacttgagttggaaga	14	8	13	6	2	1	2	1	1	0	1	1	5	1	4	0	3	2	4	0	3	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:43292147A>G	uc001jaj.2	+	10	1813	c.1455A>G	c.(1453-1455)CGA>CGG	p.R485R		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	485					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						GCATCAAACGACGGAAACTTG	0.483													4	77					0	0	1	0	0		G	43292147	G	G	43292147	2	3	122	1	0	0	0	0	0	0	0	1	1473	262	10	3		3	BMS1	10	43292147	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	5805791	43292147	92242600	551	67554											
CSGALNACT2	55454	broad.mit.edu	37	chr10	43662530	43662530	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccaggaagtgccaccacCtgtggagcagcagctggtga	11	5	13	12	0	0	1	0	1	0	0	0	3	0	3	4	3	5	3	4	3	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:43662530C>A	uc001jan.2	+	6	1573	c.1238C>A	c.(1237-1239)CCT>CAT	p.P413H		NM_018590	NP_061060	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate	413	Lumenal (Potential).				chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process	Golgi cisterna membrane|integral to Golgi membrane	glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding			ovary(1)	1						GTGCCACCACCTGTGGAGCAG	0.378													7	43					0.00307968	0.00317774	1	1	0		A	43662530	A	A	43662530	3	1	122	1	0	0	0	0	1	0	0	0	3942	681	24	5	1256	5	CSGALNACT2	10	43662530	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	370383	43662530	91872217	552	67555											
GDF2	2658	broad.mit.edu	37	chr10	48413645	48413645	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggtgggcacccccatgTcatccttgtagaggacggag	8	8	15	10	1	1	2	1	1	0	1	2	4	2	4	3	4	0	2	3	4	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:48413645T>C	uc001jfa.1	-	2	1386	c.1223A>G	c.(1222-1224)GAC>GGC	p.D408G		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	408					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						CACCCCCATGTCATCCTTGTA	0.602													3	31					0	0	1	0	0		C	48413645	C	C	48413645	3	2	122	1	0	0	0	0	1	0	0	0	6329	1667	58	3	70	3	GDF2	10	48413645	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	4751115	48413645	87121102	553	67556											
FRMPD2	143162	broad.mit.edu	37	chr10	49448448	49448448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcctgtgccgctgggctctCgctgcttgtcccacgcagcc	2	9	13	17	3	1	0	0	0	1	0	3	0	2	0	4	2	3	5	4	2	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:49448448C>T	uc001jgi.2	-	6	762	c.655G>A	c.(655-657)GAG>AAG	p.E219K	FRMPD2_uc001jgh.2_Missense_Mutation_p.E188K|FRMPD2_uc001jgj.2_Missense_Mutation_p.E197K	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	219					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		GCTGGGCTCTCGCTGCTTGTC	0.582													11	42					0	0	1	0	0		T	49448448	T	T	49448448	3	4	122	1	0	0	0	0	1	0	0	0	6072	893	31	1	3370	1	FRMPD2	10	49448448	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1034803	49448448	86086299	554	67557											
BICC1	80114	broad.mit.edu	37	chr10	60272971	60272971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggctccaacagcgagcgcaGcaccgactccccagtgcccg	8	3	11	19	5	0	0	0	0	0	0	2	2	2	0	5	1	5	3	5	1	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:60272971G>A	uc001jki.1	+	1	68	c.68G>A	c.(67-69)AGC>AAC	p.S23N		NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	23					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						AGCGAGCGCAGCACCGACTCC	0.751													3	34					0	0	1	0	0		A	60272971	A	A	60272971	3	1	122	1	0	0	0	0	1	0	0	0	1428	971	34	2	70	2	BICC1	10	60272971	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	10824523	60272971	75261776	555	67558											
PPA1	5464	broad.mit.edu	37	chr10	71964629	71964629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactggaatagaaatcttacCgtctgttggtactgtgcagg	10	13	11	7	1	2	1	0	0	2	1	2	2	2	2	1	3	4	3	1	3	6	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:71964629C>T	uc001jqv.1	-	10	945	c.838G>A	c.(838-840)GTG>ATG	p.V280M		NM_021129	NP_066952	Q15181	IPYR_HUMAN	pyrophosphatase 1	280					diphosphate metabolic process|tRNA aminoacylation for protein translation	cytosol	inorganic diphosphatase activity|magnesium ion binding			breast(1)	1						GAAATCTTACCGTCTGTTGGT	0.229													7	41					0	0	1	0	0		T	71964629	T	T	71964629	3	4	122	1	0	0	0	0	1	0	0	0	12305	666	23	1	39	1	PPA1	10	71964629	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	11691658	71964629	63570118	556	67559											
POLR3A	11128	broad.mit.edu	37	chr10	79769344	79769344	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccacagtactgcttgccCttggttcgcaggttggccct	4	13	11	13	1	0	0	0	0	0	0	1	0	0	0	3	3	4	5	3	3	1	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:79769344C>A	uc001jzn.2	-	14	1954	c.1860G>T	c.(1858-1860)AAG>AAT	p.K620N		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	620					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			ACTGCTTGCCCTTGGTTCGCA	0.567													20	145					3.62473e-10	4.11948e-10	1	1	0		A	79769344	A	A	79769344	3	1	122	1	0	0	0	0	1	0	0	0	12247	680	24	5	2384	5	POLR3A	10	79769344	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	7804715	79769344	55765403	557	67560											
POLR3A	11128	broad.mit.edu	37	chr10	79769644	79769644	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggattgtaggcggtgggAggcgaactttaattttctca	9	14	13	5	2	1	0	1	0	1	0	2	3	1	2	0	5	1	1	0	5	4	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:79769644A>C	uc001jzn.2	-	13	1842	c.1748T>G	c.(1747-1749)CTC>CGC	p.L583R		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	583					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			AGGCGGTGGGAGGCGAACTTT	0.478													12	79					0	0	1	0	0		C	79769644	C	C	79769644	3	2	122	1	0	0	0	0	1	0	0	0	12247	304	11	5	2500	5	POLR3A	10	79769644	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	300	79769644	55765103	558	67561											
NRG3	10718	broad.mit.edu	37	chr10	84498345	84498345	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctcaggtgcaaagaaggCtaccaaggagtccgttgtga	11	10	12	8	1	1	2	1	1	1	1	3	3	2	3	2	3	2	3	2	3	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:84498345C>T	uc001kco.2	+	3	993	c.966C>T	c.(964-966)GGC>GGT	p.G322G	NRG3_uc010qlz.1_Silent_p.G322G|NRG3_uc001kcp.2_Silent_p.G101G|NRG3_uc001kcq.2_5'UTR	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	322	EGF-like.|Extracellular (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		GCAAAGAAGGCTACCAAGGAG	0.368													19	77					0	0	1	0	0		T	84498345	T	T	84498345	2	4	122	1	0	0	0	0	0	0	0	1	10668	784	28	2		2	NRG3	10	84498345	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	4728701	84498345	51036402	559	67562											
LRIT1	26103	broad.mit.edu	37	chr10	86001138	86001138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgagaggggcagaagccccGggcctgggggggccacgcaa	8	3	19	11	2	0	2	0	1	0	2	0	3	0	2	4	6	1	2	4	6	2	1	rs149315483		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:86001138G>A	uc001kcz.1	-	1	80	c.58C>T	c.(58-60)CGG>TGG	p.R20W		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	20						integral to endoplasmic reticulum membrane					0						CAGAAGCCCCGGGCCTGGGGG	0.677													7	27					0	0	1	0	0		A	86001138	A	A	86001138	3	1	122	1	0	0	0	0	1	0	0	0	8965	1115	39	1	1829	1	LRIT1	10	86001138	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1502793	86001138	49533609	560	67563											
GRID1	2894	broad.mit.edu	37	chr10	87615817	87615817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatccagcatggacctcccaCcattccatggcttagtggat	9	11	8	13	0	0	0	0	0	0	0	3	2	3	2	5	3	1	2	5	3	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:87615817C>T	uc001kdl.1	-	7	1183	c.1082G>A	c.(1081-1083)GGT>GAT	p.G361D	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	361	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	GGACCTCCCACCATTCCATGG	0.562										Multiple Myeloma(13;0.14)			19	91					0	0	1	0	0		T	87615817	T	T	87615817	3	4	122	1	0	0	0	0	1	0	0	0	6787	507	18	4	1987	4	GRID1	10	87615817	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1614679	87615817	47918930	561	67564											
ACTA2	59	broad.mit.edu	37	chr10	90708624	90708624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatcgtccccagcaaagcCggccttacagagcccagagc	11	4	10	16	2	0	2	0	0	0	2	2	2	1	2	5	1	6	2	5	1	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:90708624C>T	uc001kfp.2	-	2	180	c.64G>A	c.(64-66)GGC>AGC	p.G22S	STAMBPL1_uc010qmx.1_Intron|ACTA2_uc010qmy.1_Intron|ACTA2_uc001kfq.2_Missense_Mutation_p.G22S|ACTA2_uc010qmz.1_Missense_Mutation_p.G22S	NM_001613	NP_001604	P62736	ACTA_HUMAN	alpha 2 actin	22					response to virus	cytosol	ATP binding				0		Colorectal(252;0.0161)		Colorectal(12;0.000123)|COAD - Colon adenocarcinoma(12;0.00018)		CCAGCAAAGCCGGCCTTACAG	0.512													14	114					0	0	1	0	0		T	90708624	T	T	90708624	3	4	122	1	0	0	0	0	1	0	0	0	192	652	23	1	1101	1	ACTA2	10	90708624	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3092807	90708624	44826123	562	67565											
TNKS2	80351	broad.mit.edu	37	chr10	93590876	93590876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taagattcttgactcctctgCacgtggcatctgagaaagct	10	12	9	10	1	3	3	0	2	3	2	4	4	4	3	1	1	2	3	1	1	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:93590876C>T	uc001khp.2	+	11	1510	c.1213C>T	c.(1213-1215)CAC>TAC	p.H405Y		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	405	ANK 8.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				GACTCCTCTGCACGTGGCATC	0.333													22	143					0	0	1	0	0		T	93590876	T	T	93590876	3	4	122	1	0	0	0	0	1	0	0	0	16346	710	25	2	1255	2	TNKS2	10	93590876	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2882252	93590876	41943871	563	67566											
PLCE1	51196	broad.mit.edu	37	chr10	95791856	95791856	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcaattgtgagaactctGccttctggccacattgggct	9	11	11	10	0	2	2	0	1	2	2	2	3	2	2	2	2	3	2	2	2	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:95791856G>A	uc001kjk.2	+	2	1687	c.1053G>A	c.(1051-1053)CTG>CTA	p.L351L	PLCE1_uc010qnx.1_Silent_p.L351L	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	351					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				TGAGAACTCTGCCTTCTGGCC	0.443													10	62					0	0	1	0	0		A	95791856	A	A	95791856	2	1	122	1	0	0	0	0	0	0	0	1	12053	1306	46	2		2	PLCE1	10	95791856	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2200980	95791856	39742891	564	67567											
NOC3L	64318	broad.mit.edu	37	chr10	96094000	96094000	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagtagcaacttcactggaGtatcttttgattagctgatt	10	16	8	7	0	3	2	2	2	1	0	3	3	3	3	0	1	3	4	0	1	4	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:96094000G>T	uc001kjq.1	-	21	2425	c.2337C>A	c.(2335-2337)TAC>TAA	p.Y779*		NM_022451	NP_071896	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog	779						nuclear speck|nucleolus	binding			ovary(1)	1		Colorectal(252;0.0897)				CTTCACTGGAGTATCTTTTGA	0.318													6	38					0.0215528	0.0218998	1	1	0		T	96094000	T	T	96094000	4	4	122	1	0	0	0	0	0	1	0	0	10533	1024	36	5	69	5	NOC3L	10	96094000	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	302144	96094000	39440747	565	67568											
DNMBP	23268	broad.mit.edu	37	chr10	101715833	101715833	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttctgaagagtttttagctgGgaatacattcttttgggagg	9	16	12	4	0	2	2	0	1	2	1	2	4	2	4	0	3	2	2	0	3	4	8			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:101715833G>T	uc001kqj.2	-	4	1490	c.1398C>A	c.(1396-1398)TCC>TCA	p.S466S	NCRNA00093_uc001kqk.1_Intron	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	466					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		TTTTTAGCTGGGAATACATTC	0.517													12	137					1.05317e-09	1.19353e-09	1	1	0		T	101715833	T	T	101715833	2	4	122	1	0	0	0	0	0	0	0	1	4680	1219	43	5		5	DNMBP	10	101715833	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	5621833	101715833	33818914	566	67569											
DNMBP	23268	broad.mit.edu	37	chr10	101716831	101716831	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacagggcgctctgggagtGccactgccggctctgtgagg	7	7	16	11	2	2	1	0	1	2	0	2	2	2	2	2	4	3	2	2	4	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:101716831G>T	uc001kqj.2	-	4	492	c.400C>A	c.(400-402)CAC>AAC	p.H134N	NCRNA00093_uc001kqk.1_RNA	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	134					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		CTCTGGGAGTGCCACTGCCGG	0.617													7	42					8.12818e-05	8.60167e-05	1	1	0		T	101716831	T	T	101716831	3	4	122	1	0	0	0	0	1	0	0	0	4680	1319	46	5	4389	5	DNMBP	10	101716831	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	998	101716831	33817916	567	67570											
LBX1	10660	broad.mit.edu	37	chr10	102987321	102987321	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcggccttcatctcctcCaggtcccgcttgagcttagc	5	11	9	16	3	2	1	1	1	1	0	6	1	4	1	4	2	2	2	4	2	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:102987321C>A	uc001ksx.2	-	2	697	c.552G>T	c.(550-552)CTG>CTT	p.L184L	uc010qpy.1_5'Flank	NM_006562	NP_006553	P52954	LBX1_HUMAN	ladybird homeobox 1	184	Homeobox.				muscle organ development		sequence-specific DNA binding				0		Colorectal(252;0.234)		Epithelial(162;3.22e-09)|all cancers(201;1.79e-07)		TCATCTCCTCCAGGTCCCGCT	0.647													6	137					0.0215528	0.0218998	1	1	0		A	102987321	A	A	102987321	2	1	122	1	0	0	0	0	0	0	0	1	8669	581	21	5		5	LBX1	10	102987321	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1270490	102987321	32547426	568	67571											
SORCS3	22986	broad.mit.edu	37	chr10	106865237	106865237	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccgctccattgacatcagTtccctggttgtccaggatga	7	11	10	13	1	1	2	1	2	0	0	4	3	4	3	4	2	0	3	4	2	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:106865237T>C	uc001kyi.1	+	7	1403	c.1176T>C	c.(1174-1176)AGT>AGC	p.S392S		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	392	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		TTGACATCAGTTCCCTGGTTG	0.502													20	110					0	0	1	0	0		C	106865237	C	C	106865237	2	2	122	1	0	0	0	0	0	0	0	1	14957	1722	60	3		3	SORCS3	10	106865237	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	3877916	106865237	28669510	569	67572											
ABLIM1	3983	broad.mit.edu	37	chr10	116247739	116247739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagcttttcctcggtcttcGtagattgcttacagtcggga	6	14	11	10	3	1	1	0	0	1	1	5	2	2	2	1	2	3	4	1	2	2	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:116247739G>A	uc010qsg.1	-	8	1118	c.1019C>T	c.(1018-1020)ACG>ATG	p.T340M	ABLIM1_uc010qsh.1_Missense_Mutation_p.T280M|ABLIM1_uc010qsi.1_Missense_Mutation_p.T280M|ABLIM1_uc010qsk.1_Missense_Mutation_p.T264M|ABLIM1_uc009xyp.2_Missense_Mutation_p.T274M|ABLIM1_uc010qsf.1_Missense_Mutation_p.T24M|ABLIM1_uc009xyn.2_Missense_Mutation_p.T17M|ABLIM1_uc010qsj.1_Missense_Mutation_p.T17M|ABLIM1_uc009xyo.2_Missense_Mutation_p.T188M	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	340	LIM zinc-binding 4.				axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		CTCGGTCTTCGTAGATTGCTT	0.483													40	198					0	0	1	0	0		A	116247739	A	A	116247739	3	1	122	1	0	0	0	0	1	0	0	0	94	1145	40	1	1465	1	ABLIM1	10	116247739	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	9382502	116247739	19287008	570	67573											
FGFR2	2263	broad.mit.edu	37	chr10	123325059	123325059	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccctttatctgcaagtacTccccaataagcactgtccta	10	11	5	15	1	1	0	0	0	1	0	3	0	3	0	4	0	3	3	4	0	6	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:123325059T>G	uc010qtk.1	-	3	916	c.269A>C	c.(268-270)GAG>GCG	p.E90A	FGFR2_uc010qtg.1_Missense_Mutation_p.E90A|FGFR2_uc010qth.1_Intron|FGFR2_uc010qti.1_Intron|FGFR2_uc010qtj.1_Missense_Mutation_p.E90A|FGFR2_uc010qtl.1_Missense_Mutation_p.E90A|FGFR2_uc010qtm.1_Intron|FGFR2_uc001lfl.3_Missense_Mutation_p.E90A|FGFR2_uc001lfm.2_Intron|FGFR2_uc001lfn.3_Intron|FGFR2_uc010qtn.1_Missense_Mutation_p.E109A|FGFR2_uc010qto.1_Intron|FGFR2_uc001lfo.1_Missense_Mutation_p.E109A|FGFR2_uc010qtp.1_Missense_Mutation_p.E109A|FGFR2_uc010qtq.1_Missense_Mutation_p.E109A	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	90	Ig-like C2-type 1.|Extracellular (Potential).				angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of mesenchymal cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding			endometrium(44)|skin(28)|lung(11)|ovary(4)|cervix(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|soft_tissue(1)|central_nervous_system(1)	96		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Palifermin(DB00039)	CTGCAAGTACTCCCCAATAAG	0.527		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				16	140					0	0	1	0	0		G	123325059	G	G	123325059	3	3	122	1	0	0	0	0	1	0	0	0	5880	1551	54	5	2516	5	FGFR2	10	123325059	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	7077320	123325059	12209688	571	67574											
MMP21	118856	broad.mit.edu	37	chr10	127462527	127462527	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcgccgctggtcggccacGgacagttggctgctcagggc	5	7	16	13	4	1	0	1	0	0	0	2	1	1	1	2	5	2	4	2	5	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:127462527G>A	uc001liu.2	-	2	570	c.570C>T	c.(568-570)TCC>TCT	p.S190S		NM_147191	NP_671724	Q8N119	MMP21_HUMAN	matrix metalloproteinase 21 preproprotein	190					proteolysis	extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GGTCGGCCACGGACAGTTGGC	0.741													6	19					0	0	1	0	0		A	127462527	A	A	127462527	2	1	122	1	0	0	0	0	0	0	0	1	9678	1103	39	1		1	MMP21	10	127462527	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4137468	127462527	8072220	572	67575											
EBF3	253738	broad.mit.edu	37	chr10	131757223	131757223	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgatctcgtgggtcagcaGcacacggcacatctccgggt	8	8	12	13	3	3	1	1	1	2	0	5	1	3	1	1	3	2	3	1	3	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:131757223G>A	uc001lki.1	-	5	519	c.460C>T	c.(460-462)CTG>TTG	p.L154L		NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	154	C5-type (Potential).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		TGGGTCAGCAGCACACGGCAC	0.562													9	72					0	0	1	0	0		A	131757223	A	A	131757223	2	1	122	1	0	0	0	0	0	0	0	1	4888	962	34	2		2	EBF3	10	131757223	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4294696	131757223	3777524	573	67576											
PPP2R2D	55844	broad.mit.edu	37	chr10	133753565	133753565	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccctcattctaggggagaaTataatgtttacagcaccttt	11	13	8	9	0	2	1	1	0	1	1	2	2	2	1	2	2	2	2	2	2	5	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:133753565T>C	uc001lks.2	+	2	373	c.130T>C	c.(130-132)TAT>CAT	p.Y44H	PPP2R2D_uc001lkr.2_5'UTR|PPP2R2D_uc001lkt.2_5'UTR|PPP2R2D_uc009yay.2_5'UTR	NM_018461	NP_060931	Q66LE6	2ABD_HUMAN	protein phosphatase 2, regulatory subunit B,	77					cell division|exit from mitosis|mitosis|signal transduction	cytoplasm|protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			skin(1)	1		all_cancers(35;2.16e-12)|all_epithelial(44;2.77e-09)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Colorectal(31;0.0124)|Breast(234;0.023)|all_neural(114;0.0299)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.86e-05)|Epithelial(32;8.82e-05)|all cancers(32;0.000106)|BRCA - Breast invasive adenocarcinoma(275;0.21)		TAGGGGAGAATATAATGTTTA	0.338													7	33					0	0	1	0	0		C	133753565	C	C	133753565	3	2	122	1	0	0	0	0	1	0	0	0	12409	1406	49	3	137	3	PPP2R2D	10	133753565	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1996342	133753565	1781182	574	67577											
INPP5A	3632	broad.mit.edu	37	chr10	134563059	134563059	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgcagacggtccgggcCgccgacaccaatgaagtggt	10	5	13	13	4	0	2	0	1	0	1	1	3	1	2	5	3	1	1	5	3	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:134563059C>T	uc001llp.2	+	10	1019	c.771C>T	c.(769-771)GCC>GCT	p.A257A	INPP5A_uc001llo.1_Silent_p.A257A|INPP5A_uc001llq.2_Intron	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	257					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		CGGTCCGGGCCGCCGACACCA	0.627													13	115					0	0	1	0	0		T	134563059	T	T	134563059	2	4	122	1	0	0	0	0	0	0	0	1	7770	639	23	1		1	INPP5A	10	134563059	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	809494	134563059	971688	575	67578											
ADAM8	101	broad.mit.edu	37	chr10	135084567	135084567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacggcacagctcaccagccGgcttcacctggcccagcaga	9	4	11	17	2	2	1	2	0	0	1	2	2	2	1	4	3	3	4	4	3	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr10:135084567G>A	uc010qva.1	-	13	1316	c.1265C>T	c.(1264-1266)CCG>CTG	p.P422L	ADAM8_uc010quz.1_Missense_Mutation_p.P461L|ADAM8_uc009ybi.2_Missense_Mutation_p.P461L			P78325	ADAM8_HUMAN	SubName: Full=cDNA FLJ50704, highly similar to ADAM 8 (EC 3.4.24.-) (A disintegrinand metalloproteinase domain 8);	422					integrin-mediated signaling pathway|proteolysis		metalloendopeptidase activity			large_intestine(2)|central_nervous_system(1)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;7.72e-06)|OV - Ovarian serous cystadenocarcinoma(35;8.23e-06)|Epithelial(32;1.02e-05)		CTCACCAGCCGGCTTCACCTG	0.647													7	71					0	0	1	0	0		A	135084567	A	A	135084567	3	1	122	1	0	0	0	0	1	0	0	0	252	1116	39	1	1050	1	ADAM8	10	135084567	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	521508	135084567	450180	576	67579											
PSMD13	5719	broad.mit.edu	37	chr11	252595	252595	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggcccatgacatcctcAcctagggccccctggttccc	7	7	8	19	0	1	1	1	1	0	0	3	1	3	1	7	3	0	1	7	3	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:252595A>G	uc001lol.2	+	13	1368	c.1126A>G	c.(1126-1128)ACC>GCC	p.T376A	PSMD13_uc010qvr.1_RNA|PSMD13_uc001loo.2_Missense_Mutation_p.T378A|PSMD13_uc001lon.2_Missense_Mutation_p.T311A|PSMD13_uc001lom.2_Missense_Mutation_p.T351A|PSMD13_uc001lop.2_Missense_Mutation_p.T159A	NM_002817	NP_002808	Q9UNM6	PSD13_HUMAN	proteasome 26S non-ATPase subunit 13 isoform 1	376					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding			ovary(1)	1		all_cancers(49;1.58e-09)|all_epithelial(84;2.71e-06)|Breast(177;0.000162)|Ovarian(85;0.000626)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;7.79e-27)|Epithelial(43;4e-26)|OV - Ovarian serous cystadenocarcinoma(40;6.02e-21)|BRCA - Breast invasive adenocarcinoma(625;3.93e-05)|Lung(200;0.112)|LUSC - Lung squamous cell carcinoma(625;0.129)		TGACATCCTCACCTAGGGCCC	0.557													14	113					0	0	1	0	0		G	252595	G	G	252595	3	3	122	1	0	0	0	0	1	0	0	0	12718	159	6	3	1257	3	PSMD13	11	252595	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08		252595	134753921	577	67580											
IFITM1	8519	broad.mit.edu	37	chr11	314946	314946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggacaggaagatggttggcGacgtgaccggggcccaggcc	8	4	19	10	3	0	2	0	1	0	1	0	5	0	4	3	7	0	1	3	7	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:314946G>A	uc001loy.3	+	2	391	c.211G>A	c.(211-213)GAC>AAC	p.D71N		NM_003641	NP_003632	P13164	IFM1_HUMAN	interferon induced transmembrane protein 1	71	Cytoplasmic (Potential).				negative regulation of cell proliferation|regulation of immune response|response to virus|type I interferon-mediated signaling pathway	integral to membrane|plasma membrane	protein binding|receptor signaling protein activity				0		all_cancers(49;2e-09)|all_epithelial(84;3.36e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;8.85e-28)|Epithelial(43;5.52e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0327)|LUSC - Lung squamous cell carcinoma(625;0.122)		GATGGTTGGCGACGTGACCGG	0.617													6	62					0	0	1	0	0		A	314946	A	A	314946	3	1	122	1	0	0	0	0	1	0	0	0	7542	1058	37	1	217	1	IFITM1	11	314946	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	62351	314946	134691570	578	67581											
MUC6	4588	broad.mit.edu	37	chr11	1018569	1018569	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagggacgggactccccgccGtaggcggggagtgtgtggtg	6	6	20	9	4	0	0	0	0	0	0	1	3	1	3	3	6	0	1	3	6	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:1018569G>T	uc001lsw.2	-	31	4283	c.4232C>A	c.(4231-4233)ACG>AAG	p.T1411K		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1411	Pro-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		ACTCCCCGCCGTAGGCGGGGA	0.582													21	117					2.4624e-09	2.78267e-09	1	1	0		T	1018569	T	T	1018569	3	4	122	1	0	0	0	0	1	0	0	0	9998	1145	40	5	3099	5	MUC6	11	1018569	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	703623	1018569	133987947	579	67582											
MUC2	4583	broad.mit.edu	37	chr11	1085752	1085752	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctggcccccaggactactgCggccagaactcctcactggg	7	6	11	17	1	1	1	1	0	0	1	2	2	2	2	5	4	3	0	5	4	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:1085752C>T	uc001lsx.1	+	21	2700	c.2673C>T	c.(2671-2673)TGC>TGT	p.C891C		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	891	VWFD 3.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	AGGACTACTGCGGCCAGAACT	0.637													7	65					0	0	1	0	0		T	1085752	T	T	1085752	2	4	122	1	0	0	0	0	0	0	0	1	9993	776	27	1		1	MUC2	11	1085752	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	67183	1085752	133920764	580	67583											
MUC5B	727897	broad.mit.edu	37	chr11	1264959	1264959	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggccacctccaggaccacAgccacggccacacccagcaa	12	1	8	20	2	0	0	0	0	0	0	1	1	1	1	7	3	2	1	7	3	1	0	rs71469859		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:1264959A>G	uc009ycr.1	+	48	8889	c.8763A>G	c.(8761-8763)ACA>ACG	p.T2921T	MUC5B_uc001ltb.2_Silent_p.T2286T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2283	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCAGGACCACAGCCACGGCCA	0.687													6	162					0	0	1	0	0		G	1264959	G	G	1264959	2	3	122	1	0	0	0	0	0	0	0	1	9997	175	7	3		3	MUC5B	11	1264959	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	179207	1264959	133741557	581	67584											
INS-IGF2	723961	broad.mit.edu	37	chr11	2170546	2170546	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaccctctggccaggttgAcgtggaggaggagagggaca	10	5	17	9	1	1	3	0	1	1	2	1	7	1	6	2	6	0	1	2	6	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:2170546A>G	uc001lvm.2	-	3	276	c.217T>C	c.(217-219)TCA>CCA	p.S73P	IGF2_uc001lvh.2_5'UTR|INS-IGF2_uc001lvi.2_RNA	NM_001042376	NP_001035835	Q1WM24	Q1WM24_HUMAN	insulin- insulin-like growth factor 2	73					glucose metabolic process	extracellular region	hormone activity				0		all_epithelial(84;0.00018)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)|all_lung(207;0.24)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;0.00256)|LUSC - Lung squamous cell carcinoma(625;0.0832)|Lung(200;0.156)		GGCCAGGTTGACGTGGAGGAG	0.582													16	119					0	0	1	0	0		G	2170546	G	G	2170546	3	3	122	1	0	0	0	0	1	0	0	0	7779	275	10	3	393	3	INS-IGF2	11	2170546	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	905587	2170546	132835970	582	67585											
CARS	833	broad.mit.edu	37	chr11	3022438	3022438	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcttcttggcttgccctTtgctgagctctttgccctcc	2	16	8	15	0	3	1	1	1	2	0	4	1	4	1	3	1	5	4	3	1	0	5	rs143403960		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:3022438T>C	uc001lxh.2	-	22	2227	c.2153A>G	c.(2152-2154)AAA>AGA	p.K718R	CARS_uc009ydu.2_RNA|CARS_uc001lxe.2_Missense_Mutation_p.K708R|CARS_uc001lxf.2_Missense_Mutation_p.K801R|CARS_uc001lxg.2_Missense_Mutation_p.K721E|CARS_uc010qxo.1_Missense_Mutation_p.K804E|CARS_uc010qxp.1_Missense_Mutation_p.K734E	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	718					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	GGCTTGCCCTTTGCTGAGCTC	0.557			T	ALK	ALCL								10	77					0	0	1	0	0		C	3022438	C	C	3022438	3	2	122	1	0	0	0	0	1	0	0	0	2660	1850	64	3	97	3	CARS	11	3022438	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	851892	3022438	131984078	583	67586											
TRIM68	55128	broad.mit.edu	37	chr11	4621712	4621712	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccacccggcgaggagggaCcggcaaggacaggattgggt	9	4	17	11	3	0	0	0	0	0	0	1	5	1	4	3	7	0	1	3	7	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:4621712C>A	uc001lzf.1	-	7	1490	c.1252G>T	c.(1252-1254)GTC>TTC	p.V418F	TRIM68_uc001lzg.1_Missense_Mutation_p.V195F|TRIM68_uc010qyj.1_RNA	NM_018073	NP_060543	Q6AZZ1	TRI68_HUMAN	ring finger protein 137	418	B30.2/SPRY.				protein autoubiquitination|regulation of androgen receptor signaling pathway	Golgi apparatus|nucleolus|perinuclear region of cytoplasm	androgen receptor binding|histone acetyltransferase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;9.49e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		CGAGGAGGGACCGGCAAGGAC	0.537													7	92					8.12818e-05	8.60167e-05	1	1	0		A	4621712	A	A	4621712	3	1	122	1	0	0	0	0	1	0	0	0	16567	507	18	5	209	5	TRIM68	11	4621712	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1599274	4621712	130384804	584	67587											
OR51B4	79339	broad.mit.edu	37	chr11	5322281	5322281	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaaaataggcgaataatgCttctttgaatctgcttggtc	12	13	9	7	1	2	2	0	1	2	1	3	3	2	2	0	2	2	2	0	2	6	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:5322281C>A	uc010qza.1	-	1	896	c.896G>T	c.(895-897)AGC>ATC	p.S299I	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033179	NP_149419	Q9Y5P0	O51B4_HUMAN	olfactory receptor, family 51, subfamily B,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCGAATAATGCTTCTTTGAAT	0.428													9	67					0.000673444	0.000701529	1	1	0		A	5322281	A	A	5322281	3	1	122	1	0	0	0	0	1	0	0	0	11109	797	28	5	39	5	OR51B4	11	5322281	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	700569	5322281	129684235	585	67588											
PRKCDBP	112464	broad.mit.edu	37	chr11	6340498	6340498	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctccagcgtgggctccagCgcaggctgggcttccggctg	3	7	17	14	3	0	0	0	0	0	0	3	0	3	0	3	5	2	6	3	5	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:6340498C>T	uc001mcu.1	-	2	715	c.681G>A	c.(679-681)GCG>GCA	p.A227A		NM_145040	NP_659477	Q969G5	PRDBP_HUMAN	protein kinase C, delta binding protein	227											0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TGGGCTCCAGCGCAGGCTGGG	0.706													13	122					0	0	1	0	0		T	6340498	T	T	6340498	2	4	122	1	0	0	0	0	0	0	0	1	12532	755	27	1		1	PRKCDBP	11	6340498	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1018217	6340498	128666018	586	67589											
SMPD1	6609	broad.mit.edu	37	chr11	6412941	6412941	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcactgggatcatgactacCtggagggcacggaccctgac	9	7	13	12	1	1	2	1	2	0	0	1	5	1	5	2	4	2	2	2	4	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:6412941C>T	uc001mcw.2	+	2	820	c.646C>T	c.(646-648)CTG>TTG	p.L216L	SMPD1_uc001mcv.1_Intron|SMPD1_uc009yex.2_RNA|SMPD1_uc001mcx.2_Silent_p.L216L|SMPD1_uc009yew.2_Silent_p.L215L	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	214					cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)	TCATGACTACCTGGAGGGCAC	0.682													4	44					0	0	1	0	0		T	6412941	T	T	6412941	2	4	122	1	0	0	0	0	0	0	0	1	14829	680	24	4		4	SMPD1	11	6412941	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	72443	6412941	128593575	587	67590											
HPX	3263	broad.mit.edu	37	chr11	6461427	6461427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacactgttgtgaccttgacGgaatgcagcatccacagggc	10	8	12	11	1	0	2	0	2	0	0	1	4	1	3	2	2	2	3	2	2	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:6461427G>A	uc001mdg.2	-	4	365	c.304C>T	c.(304-306)CGT>TGT	p.R102C	HPX_uc001mdf.2_5'Flank|HPX_uc009yfc.2_RNA|HPX_uc010rai.1_Missense_Mutation_p.R102C	NM_000613	NP_000604	P02790	HEMO_HUMAN	hemopexin precursor	102	Hemopexin-like 2.				cellular iron ion homeostasis|interspecies interaction between organisms	extracellular space	heme transporter activity|metal ion binding|protein binding				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;5.46e-08)|BRCA - Breast invasive adenocarcinoma(625;0.19)		TGACCTTGACGGAATGCAGCA	0.527													12	67					0	0	1	0	0		A	6461427	A	A	6461427	3	1	122	1	0	0	0	0	1	0	0	0	7362	1116	39	1	1112	1	HPX	11	6461427	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	48486	6461427	128545089	588	67591											
OR10A5	144124	broad.mit.edu	37	chr11	6867802	6867802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctacagcttgagaaatagcGaggtgaagaatgccctcagc	13	8	11	9	1	2	3	1	2	1	2	2	5	2	3	1	1	5	1	1	1	5	3	rs146897268		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:6867802G>A	uc001met.1	+	1	889	c.889G>A	c.(889-891)GAG>AAG	p.E297K		NM_178168	NP_835462	Q9H207	O10A5_HUMAN	olfactory receptor, family 10, subfamily A,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.E297K(1)		skin(2)|ovary(1)	3		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GAGAAATAGCGAGGTGAAGAA	0.418													14	108					0	0	1	0	0		A	6867802	A	A	6867802	3	1	122	1	0	0	0	0	1	0	0	0	10912	1059	37	1	891	1	OR10A5	11	6867802	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	406375	6867802	128138714	589	67592											
ST5	6764	broad.mit.edu	37	chr11	8732756	8732756	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttcctctgcctctcgcAtctgcttggtgggtcggtcc	1	14	11	15	2	3	0	0	0	3	0	7	0	5	0	4	3	2	2	4	3	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:8732756A>G	uc001mgt.2	-	10	2381	c.2195T>C	c.(2194-2196)ATG>ACG	p.M732T	ST5_uc009yfr.2_Missense_Mutation_p.M312T|ST5_uc001mgu.2_Missense_Mutation_p.M312T|ST5_uc001mgv.2_Missense_Mutation_p.M732T|ST5_uc010rbq.1_RNA|ST5_uc010rbp.1_Missense_Mutation_p.M245T|ST5_uc009yfs.2_RNA	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	732	UDENN.				positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		TGCCTCTCGCATCTGCTTGGT	0.597													14	79					0	0	1	0	0		G	8732756	G	G	8732756	3	3	122	1	0	0	0	0	1	0	0	0	15245	217	8	3	1262	3	ST5	11	8732756	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1864954	8732756	126273760	590	67593											
IPO7	10527	broad.mit.edu	37	chr11	9444593	9444593	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagtacaaggagaagcaatAtatggctcctcgagttttac	13	11	9	8	1	1	1	1	0	0	1	3	3	2	1	1	2	3	4	1	2	7	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:9444593A>G	uc001mho.2	+	9	1089	c.947A>G	c.(946-948)TAT>TGT	p.Y316C		NM_006391	NP_006382	O95373	IPO7_HUMAN	importin 7	316					interspecies interaction between organisms|signal transduction	Golgi apparatus|nuclear pore|soluble fraction	protein transporter activity|Ran GTPase binding|small GTPase regulator activity			lung(1)|breast(1)	2				all cancers(16;8.29e-09)|Epithelial(150;4.76e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0217)		GAGAAGCAATATATGGCTCCT	0.323													9	86					0	0	1	0	0		G	9444593	G	G	9444593	3	3	122	1	0	0	0	0	1	0	0	0	7813	449	16	3	981	3	IPO7	11	9444593	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	711837	9444593	125561923	591	67594											
AMPD3	272	broad.mit.edu	37	chr11	10517233	10517233	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactggttcatccagcacaaGgtctactctcccaacatgcg	10	10	7	14	1	3	0	1	0	2	0	5	0	4	0	2	2	5	2	2	2	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:10517233G>A	uc001mio.1	+	9	1718	c.1383G>A	c.(1381-1383)AAG>AAA	p.K461K	AMPD3_uc010rbz.1_Silent_p.K302K|AMPD3_uc001min.1_Silent_p.K470K|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Silent_p.K468K|AMPD3_uc009yfy.2_Silent_p.K461K	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	461					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		TCCAGCACAAGGTCTACTCTC	0.577													9	43					0	0	1	0	0		A	10517233	A	A	10517233	2	1	122	1	0	0	0	0	0	0	0	1	587	991	35	4		4	AMPD3	11	10517233	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1072640	10517233	124489283	592	67595											
NAV2	89797	broad.mit.edu	37	chr11	19954794	19954794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcttccttggagagcggcaGcagctccacccctactaatt	8	10	9	14	1	0	1	0	0	0	1	2	2	2	1	4	2	5	4	4	2	2	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:19954794G>A	uc010rdm.1	+	8	1434	c.1073G>A	c.(1072-1074)AGC>AAC	p.S358N	NAV2_uc001mpp.2_Missense_Mutation_p.S271N|NAV2_uc001mpr.3_Missense_Mutation_p.S335N	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	358						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						GAGAGCGGCAGCAGCTCCACC	0.602													36	264					0	0	1	0	0		A	19954794	A	A	19954794	3	1	122	1	0	0	0	0	1	0	0	0	10202	971	34	2	1109	2	NAV2	11	19954794	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	9437561	19954794	115051722	593	67596											
ANO3	63982	broad.mit.edu	37	chr11	26620415	26620415	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcataggaaacacttcGtccccagtttgaagccaagt	11	11	7	12	1	2	1	1	1	1	0	5	2	3	2	3	1	2	1	3	1	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:26620415G>A	uc001mqt.3	+	16	1686	c.1541G>A	c.(1540-1542)CGT>CAT	p.R514H	ANO3_uc010rdr.1_Missense_Mutation_p.R498H|ANO3_uc010rds.1_Missense_Mutation_p.R353H|ANO3_uc010rdt.1_Missense_Mutation_p.R368H	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	514	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GAAACACTTCGTCCCCAGTTT	0.393													4	38					0	0	1	0	0		A	26620415	A	A	26620415	3	1	122	1	0	0	0	0	1	0	0	0	698	1145	40	1	1603	1	ANO3	11	26620415	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	6665621	26620415	108386101	594	67597											
ANO3	63982	broad.mit.edu	37	chr11	26677939	26677939	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtacagagactacagaGgcccgccctggagttccaaa	12	6	11	12	1	1	2	1	0	0	2	2	4	2	3	3	3	2	2	3	3	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:26677939G>T	uc001mqt.3	+	26	2819	c.2674G>T	c.(2674-2676)GGC>TGC	p.G892C	ANO3_uc010rdr.1_Missense_Mutation_p.G876C|ANO3_uc010rds.1_Missense_Mutation_p.G731C|ANO3_uc010rdt.1_Missense_Mutation_p.G746C	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	892	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						AGACTACAGAGGCCCGCCCTG	0.408													17	67					7.07596e-05	7.50803e-05	1	1	0		T	26677939	T	T	26677939	3	4	122	1	0	0	0	0	1	0	0	0	698	1000	35	5	2776	5	ANO3	11	26677939	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	57524	26677939	108328577	595	67598											
EHF	26298	broad.mit.edu	37	chr11	34680408	34680408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaagagaaattctggagcGtgtggatggacgaagactgg	14	7	15	5	2	1	2	0	0	1	2	1	7	1	5	0	4	1	0	0	4	4	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:34680408G>A	uc001mvr.1	+	9	944	c.833G>A	c.(832-834)CGT>CAT	p.R278H	EHF_uc009yke.1_Missense_Mutation_p.R255H|EHF_uc009ykf.1_Missense_Mutation_p.R281H	NM_012153	NP_036285	Q9NZC4	EHF_HUMAN	ets homologous factor	278	ETS.				cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)			ATTCTGGAGCGTGTGGATGGA	0.408													9	51					0	0	1	0	0		A	34680408	A	A	34680408	3	1	122	1	0	0	0	0	1	0	0	0	4987	1145	40	1	863	1	EHF	11	34680408	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	8002469	34680408	100326108	596	67599											
PAMR1	25891	broad.mit.edu	37	chr11	35457486	35457486	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgcccgcccactccacttcCcagtcctcagacatgtcctc	6	9	6	20	1	1	1	1	0	0	1	6	1	5	1	6	0	1	0	6	0	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:35457486C>A	uc001mwg.2	-	9	1341	c.1298G>T	c.(1297-1299)GGG>GTG	p.G433V	PAMR1_uc001mwf.2_Missense_Mutation_p.G450V|PAMR1_uc010rew.1_Missense_Mutation_p.G322V|PAMR1_uc010rex.1_Missense_Mutation_p.G393V	NM_001001991	NP_001001991	Q6UXH9	PAMR1_HUMAN	regeneration associated muscle protease isoform	433	Sushi 2.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						ACTCCACTTCCCAGTCCTCAG	0.552													16	110					3.32936e-07	3.66566e-07	1	1	0		A	35457486	A	A	35457486	3	1	122	1	0	0	0	0	1	0	0	0	11432	623	22	5	876	5	PAMR1	11	35457486	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	777078	35457486	99549030	597	67600											
DGKZ	8525	broad.mit.edu	37	chr11	46400607	46400607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagagtcgcacgctcctgCaccacgcagtcagcactggc	9	5	11	16	3	1	1	1	0	0	1	3	1	2	1	2	1	3	6	2	1	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:46400607C>T	uc001ncn.1	+	29	3174	c.3049C>T	c.(3049-3051)CAC>TAC	p.H1017Y	DGKZ_uc001nch.1_Missense_Mutation_p.H845Y|DGKZ_uc010rgq.1_3'UTR|DGKZ_uc001ncj.1_Missense_Mutation_p.H795Y|DGKZ_uc010rgr.1_Missense_Mutation_p.H794Y|DGKZ_uc001nck.1_Missense_Mutation_p.H607Y|DGKZ_uc001ncl.2_Missense_Mutation_p.H829Y|DGKZ_uc001ncm.2_Missense_Mutation_p.H828Y|DGKZ_uc009yky.1_Missense_Mutation_p.H829Y|DGKZ_uc010rgs.1_Missense_Mutation_p.H806Y|MDK_uc009ykz.1_5'Flank|MDK_uc001nco.2_5'Flank|MDK_uc001ncp.2_5'Flank|MDK_uc009yla.2_5'Flank|MDK_uc009ylb.2_5'Flank|MDK_uc001ncq.2_5'Flank|MDK_uc001ncr.2_5'Flank|MDK_uc001ncs.2_5'Flank	NM_001105540	NP_001099010	Q13574	DGKZ_HUMAN	diacylglycerol kinase zeta isoform 4	1017	ANK 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell migration|intracellular signal transduction|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of mitotic cell cycle|platelet activation	cytoplasm|lamellipodium|nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|diacylglycerol kinase activity|lipid kinase activity|metal ion binding|protein binding|protein C-terminus binding			pancreas(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.0259)|Lung(87;0.141)		CACGCTCCTGCACCACGCAGT	0.687													5	20					0	0	1	0	0		T	46400607	T	T	46400607	3	4	122	1	0	0	0	0	1	0	0	0	4480	710	25	2	3606	2	DGKZ	11	46400607	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	10943121	46400607	88605909	598	67601											
AMBRA1	55626	broad.mit.edu	37	chr11	46529844	46529844	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggttctgttggtagcgcaTggagcgctggcgaatactgt	7	11	15	8	4	1	0	0	0	1	0	1	2	1	1	0	4	3	5	0	4	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:46529844T>C	uc010rgu.1	-	9	2596	c.2236A>G	c.(2236-2238)ATG>GTG	p.M746V	AMBRA1_uc010rgt.1_Missense_Mutation_p.M312V|AMBRA1_uc009ylc.1_Missense_Mutation_p.M717V|AMBRA1_uc001ncu.1_Missense_Mutation_p.M656V|AMBRA1_uc001ncv.2_Missense_Mutation_p.M749V|AMBRA1_uc001ncw.2_Missense_Mutation_p.M627V|AMBRA1_uc001ncx.2_Intron	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	746					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		TGGTAGCGCATGGAGCGCTGG	0.517													10	40					0	0	1	0	0		C	46529844	C	C	46529844	3	2	122	1	0	0	0	0	1	0	0	0	565	1464	51	3	1700	3	AMBRA1	11	46529844	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	129237	46529844	88476672	599	67602											
MADD	8567	broad.mit.edu	37	chr11	47307995	47307995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttgataggcagcctctatCggaaccacagtaccagcttc	10	9	8	14	1	1	1	0	1	1	0	3	2	1	2	4	2	4	3	4	2	4	5	rs144471266		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:47307995C>T	uc001ner.1	+	15	2754	c.2563C>T	c.(2563-2565)CGG>TGG	p.R855W	MADD_uc001neq.2_Missense_Mutation_p.R855W|MADD_uc001nev.1_Missense_Mutation_p.R812W|MADD_uc001nes.1_Missense_Mutation_p.R812W|MADD_uc001net.1_Missense_Mutation_p.R855W|MADD_uc009yln.1_Missense_Mutation_p.R812W|MADD_uc001neu.1_Missense_Mutation_p.R812W|MADD_uc001nex.2_Missense_Mutation_p.R855W|MADD_uc001nez.2_Missense_Mutation_p.R812W|MADD_uc001new.2_Missense_Mutation_p.R855W	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	855					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		CAGCCTCTATCGGAACCACAG	0.522													21	176					0	0	1	0	0		T	47307995	T	T	47307995	3	4	122	1	0	0	0	0	1	0	0	0	9170	875	31	1	2617	1	MADD	11	47307995	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	778151	47307995	87698521	600	67603											
OR4C46	119749	broad.mit.edu	37	chr11	51515609	51515609	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atttcttcggaggtgcagagGgcatcctacttactgtgatg	8	13	12	8	1	1	2	0	1	1	1	3	3	2	3	1	3	3	2	1	3	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:51515609G>T	uc010ric.1	+	1	328	c.328G>T	c.(328-330)GGC>TGC	p.G110C		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AGGTGCAGAGGGCATCCTACT	0.468													15	109					1.05317e-09	1.19353e-09	1	1	0		T	51515609	T	T	51515609	3	4	122	1	0	0	0	0	1	0	0	0	11070	1232	43	5	330	5	OR4C46	11	51515609	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4207614	51515609	83490907	601	67604											
OR5D13	390142	broad.mit.edu	37	chr11	55541473	55541473	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgaccactctgtaattgTttctgcctcctactcagacc	7	14	6	14	0	3	2	1	1	2	1	4	2	4	2	4	0	2	2	4	0	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:55541473T>C	uc010ril.1	+	1	560	c.560T>C	c.(559-561)GTT>GCT	p.V187A		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				TCTGTAATTGTTTCTGCCTCC	0.378													24	124					0	0	1	0	0		C	55541473	C	C	55541473	3	2	122	1	0	0	0	0	1	0	0	0	11173	1725	60	3	562	3	OR5D13	11	55541473	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	4025864	55541473	79465043	602	67605											
OR5A1	219982	broad.mit.edu	37	chr11	59211096	59211096	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgcatggtggttggggcatAtgttggtggcttcctgagct	5	13	16	7	1	0	1	0	1	0	0	1	1	1	1	1	6	1	6	1	6	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:59211096A>G	uc001nnx.1	+	1	455	c.455A>G	c.(454-456)TAT>TGT	p.Y152C		NM_001004728	NP_001004728	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2						GTTGGGGCATATGTTGGTGGC	0.547													47	297					0	0	1	0	0		G	59211096	G	G	59211096	3	3	122	1	0	0	0	0	1	0	0	0	11158	449	16	3	457	3	OR5A1	11	59211096	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	3669623	59211096	75795420	603	67606											
DAK	26007	broad.mit.edu	37	chr11	61110054	61110054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctctgacagatggcaacCgccgatgagattgtgaaact	11	9	10	11	2	1	4	0	3	1	2	2	6	2	4	3	1	2	1	3	1	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:61110054C>T	uc001nre.2	+	9	956	c.699C>T	c.(697-699)ACC>ACT	p.T233T	DDB1_uc010rlf.1_5'Flank|DAK_uc009ynm.1_Silent_p.T163T	NM_015533	NP_056348	Q3LXA3	DHAK_HUMAN	dihydroxyacetone kinase 2	233	DhaK.				glycerol metabolic process	cytosol	ATP binding|FAD-AMP lyase (cyclizing) activity|glycerone kinase activity|metal ion binding				0						AGATGGCAACCGCCGATGAGA	0.617													16	85					0	0	1	0	0		T	61110054	T	T	61110054	2	4	122	1	0	0	0	0	0	0	0	1	4231	639	23	1		1	DAK	11	61110054	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1898958	61110054	73896462	604	67607											
RAB3IL1	5866	broad.mit.edu	37	chr11	61672063	61672063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccttcactgtgggcagcGtctgcgaagccaccggctca	7	7	11	16	3	3	0	2	0	1	0	3	1	3	0	4	2	3	2	4	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:61672063G>A	uc001nso.2	-	7	1012	c.854C>T	c.(853-855)ACG>ATG	p.T285M	RAB3IL1_uc001nsp.2_Missense_Mutation_p.T259M	NM_013401	NP_037533	Q8TBN0	R3GEF_HUMAN	RAB3A interacting protein (rabin3)-like 1	285							protein binding			skin(2)|central_nervous_system(1)	3						TGTGGGCAGCGTCTGCGAAGC	0.637													5	31					0	0	1	0	0		A	61672063	A	A	61672063	3	1	122	1	0	0	0	0	1	0	0	0	12962	1145	40	1	310	1	RAB3IL1	11	61672063	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	562009	61672063	73334453	605	67608											
INCENP	3619	broad.mit.edu	37	chr11	61897874	61897874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccggataacttctccaCgcccacgggctctcgcacgg	6	7	10	18	5	2	0	0	0	2	0	4	1	2	1	4	3	2	2	4	3	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:61897874C>T	uc001nsw.1	+	4	1077	c.875C>T	c.(874-876)ACG>ATG	p.T292M	INCENP_uc009ynv.2_Missense_Mutation_p.T292M|INCENP_uc009ynw.1_Missense_Mutation_p.T292M|INCENP_uc001nsx.1_Missense_Mutation_p.T292M	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	292					chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						AACTTCTCCACGCCCACGGGC	0.647													21	142					0	0	1	0	0		T	61897874	T	T	61897874	3	4	122	1	0	0	0	0	1	0	0	0	7749	536	19	1	885	1	INCENP	11	61897874	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	225811	61897874	73108642	606	67609											
AHNAK	79026	broad.mit.edu	37	chr11	62286120	62286120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaagagagggtagctgggCatggacctcggctcccccac	8	7	13	13	1	1	1	1	0	0	1	3	3	2	2	3	4	1	4	3	4	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:62286120C>T	uc001ntl.2	-	5	16069	c.15769G>A	c.(15769-15771)GCC>ACC	p.A5257T	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	5257					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GGTAGCTGGGCATGGACCTCG	0.527													14	153					0	0	1	0	0		T	62286120	T	T	62286120	3	4	122	1	0	0	0	0	1	0	0	0	414	710	25	2	2023	2	AHNAK	11	62286120	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	388246	62286120	72720396	607	67610											
AHNAK	79026	broad.mit.edu	37	chr11	62299988	62299988	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcctggagtgctgaacgtgGgcattttcatcttgggcatt	6	14	12	9	1	2	1	1	1	1	0	3	2	3	2	1	3	2	3	1	3	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:62299988G>T	uc001ntl.2	-	5	2201	c.1901C>A	c.(1900-1902)CCC>CAC	p.P634H	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	634					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GCTGAACGTGGGCATTTTCAT	0.507													17	135					3.52763e-06	3.82426e-06	1	1	0		T	62299988	T	T	62299988	3	4	122	1	0	0	0	0	1	0	0	0	414	1232	43	5	15891	5	AHNAK	11	62299988	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	13868	62299988	72706528	608	67611											
HNRNPUL2	221092	broad.mit.edu	37	chr11	62491094	62491094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttttccctttgtcactcCgtaagtactccttgccccag	6	14	6	15	1	1	0	1	0	0	0	4	1	4	0	5	0	2	2	5	0	2	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:62491094C>T	uc001nuw.2	-	4	1049	c.856G>A	c.(856-858)GGA>AGA	p.G286R	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	286	B30.2/SPRY.				cell killing	nucleus	ATP binding|nucleic acid binding				0						TTTGTCACTCCGTAAGTACTC	0.438													3	31					0	0	1	0	0		T	62491094	T	T	62491094	3	4	122	1	0	0	0	0	1	0	0	0	7291	661	23	1	1431	1	HNRNPUL2	11	62491094	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	191106	62491094	72515422	609	67612											
PLA2G16	11145	broad.mit.edu	37	chr11	63357621	63357621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcattcacaaagtgctcgCagttctcactggtcagcttg	8	12	9	12	1	4	0	4	0	1	0	6	0	4	0	0	1	2	5	0	1	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:63357621C>T	uc001nxh.2	-	3	761	c.338G>A	c.(337-339)TGC>TAC	p.C113Y	PLA2G16_uc001nxi.2_Missense_Mutation_p.C125Y|PLA2G16_uc009you.1_Missense_Mutation_p.C113Y	NM_007069	NP_009000	P53816	PAG16_HUMAN	HRAS-like suppressor 3	113				C->S: No effect on PPP2R1A-binding.	lipid catabolic process	integral to membrane|perinuclear region of cytoplasm	hydrolase activity|protein binding			ovary(1)	1						AAAGTGCTCGCAGTTCTCACT	0.602													21	102					0	0	1	0	0		T	63357621	T	T	63357621	3	4	122	1	0	0	0	0	1	0	0	0	12012	710	25	2	158	2	PLA2G16	11	63357621	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	866527	63357621	71648895	610	67613											
MARK2	2011	broad.mit.edu	37	chr11	63667452	63667452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacaccttctgtggcagtcCcccttatgctgccccagaac	7	9	9	16	0	1	1	0	0	1	1	2	2	2	2	5	2	3	2	5	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:63667452C>T	uc001nxw.2	+	8	1217	c.638C>T	c.(637-639)CCC>CTC	p.P213L	MARK2_uc001nxx.2_Missense_Mutation_p.P213L|MARK2_uc001nxy.2_Missense_Mutation_p.P213L|MARK2_uc001nxv.3_Missense_Mutation_p.P213L|MARK2_uc001nxz.3_Missense_Mutation_p.P180L|MARK2_uc009yoy.2_Missense_Mutation_p.P180L	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	213	Protein kinase.				cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						TGTGGCAGTCCCCCTTATGCT	0.493													25	163					0	0	1	0	0		T	63667452	T	T	63667452	3	4	122	1	0	0	0	0	1	0	0	0	9331	623	22	4	668	4	MARK2	11	63667452	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	309831	63667452	71339064	611	67614											
SCYL1	57410	broad.mit.edu	37	chr11	65294590	65294590	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctggaggagattcaggTgagcccccaacccaccctgg	8	7	11	15	0	1	2	1	1	0	1	2	4	2	3	5	4	2	0	5	4	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:65294590T>C	uc001oea.1	+	6	926	c.849_splice	c.e6+2	p.Q283_splice	SCYL1_uc009yqk.2_Splice_Site_p.Q283_splice|SCYL1_uc001oeb.1_Splice_Site_p.Q283_splice|SCYL1_uc001oec.1_Splice_Site_p.Q283_splice|SCYL1_uc001oed.1_Splice_Site_p.Q140_splice	NM_020680	NP_065731	Q96KG9	NTKL_HUMAN	SCY1-like 1 isoform A						regulation of transcription, DNA-dependent|retrograde vesicle-mediated transport, Golgi to ER|transcription, DNA-dependent	cis-Golgi network|COPI vesicle coat|ER-Golgi intermediate compartment|microtubule organizing center|nucleus	ATP binding|DNA binding|protein tyrosine kinase activity			skin(1)	1						GAGATTCAGGTGAGCCCCCAA	0.527													7	62					0	0	1	0	0		C	65294590	C	C	65294590	5	2	122	1	0	0	0	0	0	0	1	0	13972	1710	59	3	873	3	SCYL1	11	65294590	Splice_Site	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1627138	65294590	69711926	612	67615											
LTBP3	4054	broad.mit.edu	37	chr11	65319752	65319752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcagcgctgacaccgcgCgccccaggccttgccgacac	6	4	13	18	5	0	1	0	1	0	0	0	2	0	1	5	2	2	2	5	2	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:65319752C>T	uc001oej.2	-	7	1581	c.1312G>A	c.(1312-1314)GCG>ACG	p.A438T	LTBP3_uc010roi.1_Missense_Mutation_p.A321T|LTBP3_uc001oei.2_Missense_Mutation_p.A438T|LTBP3_uc010roj.1_Missense_Mutation_p.A139T|LTBP3_uc010rok.1_Missense_Mutation_p.A349T	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	438	TB 2.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						TGACACCGCGCGCCCCAGGCC	0.642											OREG0021081	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	139					0	0	1	0	0		T	65319752	T	T	65319752	3	4	122	1	0	0	0	0	1	0	0	0	9093	768	27	1	2687	1	LTBP3	11	65319752	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	25162	65319752	69686764	613	67616											
SIPA1	6494	broad.mit.edu	37	chr11	65409996	65409996	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggggcccccacggggtctGtccccaaggaaacttctgga	7	6	13	15	2	2	0	0	0	2	0	3	2	3	2	5	6	1	0	5	6	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:65409996G>A	uc001ofb.2	+	4	1037	c.870G>A	c.(868-870)CTG>CTA	p.L290L	SIPA1_uc010rom.1_Silent_p.L290L|SIPA1_uc001ofd.2_Silent_p.L290L	NM_006747	NP_006738	Q96FS4	SIPA1_HUMAN	signal-induced proliferation-associated protein	290					cell proliferation|cytoskeleton organization|intracellular signal transduction|negative regulation of cell adhesion|negative regulation of cell cycle|negative regulation of cell growth	cytosol|endomembrane system|membrane|perinuclear region of cytoplasm	Rap GTPase activator activity				0						CACGGGGTCTGTCCCCAAGGA	0.667													3	19					0	0	1	0	0		A	65409996	A	A	65409996	2	1	122	1	0	0	0	0	0	0	0	1	14353	1364	48	4		4	SIPA1	11	65409996	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	90244	65409996	69596520	614	67617											
SIPA1	6494	broad.mit.edu	37	chr11	65417935	65417935	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatgctcaggaagctgcaGgaggacctgcagaaggtgag	11	6	15	9	0	1	2	1	1	0	1	2	5	2	5	2	4	4	4	2	4	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:65417935G>A	uc001ofb.2	+	15	3134	c.2967G>A	c.(2965-2967)CAG>CAA	p.Q989Q	SIPA1_uc010rom.1_Silent_p.Q887Q|SIPA1_uc001ofd.2_Silent_p.Q989Q	NM_006747	NP_006738	Q96FS4	SIPA1_HUMAN	signal-induced proliferation-associated protein	989	Potential.				cell proliferation|cytoskeleton organization|intracellular signal transduction|negative regulation of cell adhesion|negative regulation of cell cycle|negative regulation of cell growth	cytosol|endomembrane system|membrane|perinuclear region of cytoplasm	Rap GTPase activator activity				0						GGAAGCTGCAGGAGGACCTGC	0.632													5	76					0	0	1	0	0		A	65417935	A	A	65417935	2	1	122	1	0	0	0	0	0	0	0	1	14353	991	35	4		4	SIPA1	11	65417935	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	7939	65417935	69588581	615	67618											
CTSW	1521	broad.mit.edu	37	chr11	65650127	65650127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggctgccacggtggcttcGtctgggacgcgttcataact	6	11	13	11	4	2	0	1	0	1	0	3	1	2	1	1	4	2	3	1	4	1	3	rs150421438		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:65650127G>A	uc001ogc.1	+	6	628	c.586G>A	c.(586-588)GTC>ATC	p.V196I	CTSW_uc001ogb.1_Missense_Mutation_p.V196I	NM_001335	NP_001326	P56202	CATW_HUMAN	cathepsin W preproprotein	196					immune response|proteolysis		cysteine-type endopeptidase activity			central_nervous_system(1)	1				READ - Rectum adenocarcinoma(159;0.168)		CGGTGGCTTCGTCTGGGACGC	0.637													9	77					0	0	1	0	0		A	65650127	A	A	65650127	3	1	122	1	0	0	0	0	1	0	0	0	4045	1145	40	1	608	1	CTSW	11	65650127	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	232192	65650127	69356389	616	67619											
TSGA10IP	254187	broad.mit.edu	37	chr11	65721060	65721060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgctgcaggcctgggagCggcagcggcaggaggagcgg	6	3	21	11	3	0	0	0	0	0	0	0	3	0	3	2	7	5	4	2	7	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:65721060C>T	uc001ogk.1	+	7	1206	c.1174C>T	c.(1174-1176)CGG>TGG	p.R392W	TSGA10IP_uc009yqw.1_RNA|TSGA10IP_uc009yqx.1_RNA	NM_152762	NP_689975	Q3SY00	T10IP_HUMAN	testis specific, 10 interacting protein	392	Potential.										0						GGCCTGGGAGCGGCAGCGGCA	0.697													19	91					0	0	1	0	0		T	65721060	T	T	65721060	3	4	122	1	0	0	0	0	1	0	0	0	16644	759	27	1	1192	1	TSGA10IP	11	65721060	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	70933	65721060	69285456	617	67620											
CATSPER1	117144	broad.mit.edu	37	chr11	65792833	65792833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacgagaagcagcagggcCgggggcatcgtgaatcaggc	10	5	17	9	3	1	2	1	1	0	1	2	3	1	2	1	4	3	4	1	4	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:65792833C>T	uc001ogt.2	-	1	1156	c.1018G>A	c.(1018-1020)GGC>AGC	p.G340S		NM_053054	NP_444282	Q8NEC5	CTSR1_HUMAN	sperm-associated cation channel 1	340	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	protein binding			ovary(2)	2						GCAGCAGGGCCGGGGGCATCG	0.597													6	59					0	0	1	0	0		T	65792833	T	T	65792833	3	4	122	1	0	0	0	0	1	0	0	0	2690	652	23	1	1372	1	CATSPER1	11	65792833	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	71773	65792833	69213683	618	67621											
NPAS4	266743	broad.mit.edu	37	chr11	66188741	66188741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagctgctgccgctggccGaagcggacaaggtccggctg	7	5	17	12	4	0	0	0	0	0	0	1	3	1	2	3	5	4	4	3	5	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:66188741G>A	uc001ohx.1	+	1	267	c.91G>A	c.(91-93)GAA>AAA	p.E31K	NPAS4_uc010rpc.1_5'UTR	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	31	Potential.|Helix-loop-helix motif.				transcription, DNA-dependent		DNA binding|signal transducer activity				0						GCCGCTGGCCGAAGCGGACAA	0.657													4	49					0	0	1	0	0		A	66188741	A	A	66188741	3	1	122	1	0	0	0	0	1	0	0	0	10584	1059	37	1	93	1	NPAS4	11	66188741	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	395908	66188741	68817775	619	67622											
SPTBN2	6712	broad.mit.edu	37	chr11	66460509	66460509	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggatggtctgcgcgtaGtcggccagggcttgctccag	4	10	17	10	3	1	0	0	0	1	0	3	1	2	1	2	5	2	3	2	5	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:66460509G>T	uc001ojd.2	-	24	4989	c.4917C>A	c.(4915-4917)GAC>GAA	p.D1639E		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1639	Spectrin 13.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						TCTGCGCGTAGTCGGCCAGGG	0.662													11	97					1.58986e-06	1.73611e-06	1	1	0		T	66460509	T	T	66460509	3	4	122	1	0	0	0	0	1	0	0	0	15145	1020	36	5	2311	5	SPTBN2	11	66460509	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	271768	66460509	68546007	620	67623											
LRFN4	78999	broad.mit.edu	37	chr11	66625483	66625483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcacccgcattggggccCgcgcctttggggacctcgag	5	7	13	16	4	1	0	1	0	0	0	2	2	1	1	5	4	0	1	5	4	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:66625483C>T	uc001ojr.2	+	1	608	c.268C>T	c.(268-270)CGC>TGC	p.R90C	PC_uc001ojo.1_Intron|PC_uc001ojp.1_Intron|PC_uc001ojn.1_Intron|LRFN4_uc001ojq.1_Missense_Mutation_p.R90C|LRFN4_uc001ojs.2_Missense_Mutation_p.R90C	NM_024036	NP_076941	Q6PJG9	LRFN4_HUMAN	leucine rich repeat and fibronectin type III	90	Extracellular (Potential).|LRR 2.					integral to membrane					0						CATTGGGGCCCGCGCCTTTGG	0.657													10	78					0	0	1	0	0		T	66625483	T	T	66625483	3	4	122	1	0	0	0	0	1	0	0	0	8958	652	23	1	270	1	LRFN4	11	66625483	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	164974	66625483	68381033	621	67624											
KDM2A	22992	broad.mit.edu	37	chr11	67021875	67021875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcgctactctctcacagAgctcaatatggcaggtatgc	10	10	8	13	1	3	1	2	0	1	1	5	1	3	1	0	2	3	4	0	2	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:67021875A>G	uc001ojw.2	+	20	4157	c.3293A>G	c.(3292-3294)GAG>GGG	p.E1098G	KDM2A_uc001ojx.2_RNA|KDM2A_uc001ojy.2_Missense_Mutation_p.E792G|KDM2A_uc001ojz.1_Missense_Mutation_p.E556G|KDM2A_uc001oka.2_Missense_Mutation_p.E222G	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	1098	LRR 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						TCTCTCACAGAGCTCAATATG	0.537													16	88					0	0	1	0	0		G	67021875	G	G	67021875	3	3	122	1	0	0	0	0	1	0	0	0	8140	304	11	3	3367	3	KDM2A	11	67021875	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	396392	67021875	67984641	622	67625											
SHANK2	22941	broad.mit.edu	37	chr11	70332482	70332482	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagccgacttctgctgggAcgtgtccatgatgtcgatca	7	10	12	12	3	2	1	1	1	1	0	4	4	3	2	3	1	2	1	3	1	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:70332482A>T	uc001oqc.2	-	21	3994	c.3916T>A	c.(3916-3918)TCC>ACC	p.S1306T	SHANK2_uc010rqn.1_Missense_Mutation_p.S718T|SHANK2_uc001opz.2_Missense_Mutation_p.S711T|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	927					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			TTCTGCTGGGACGTGTCCATG	0.597													24	137					0	0	1	0	0		T	70332482	T	T	70332482	3	4	122	1	0	0	0	0	1	0	0	0	14290	275	10	5	1641	5	SHANK2	11	70332482	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	3310607	70332482	64674034	623	67626											
ARHGEF17	9828	broad.mit.edu	37	chr11	73074493	73074493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccgtgtggctgggcactgagGatggctggtagggacagggg	6	7	21	7	1	0	1	0	1	0	0	0	3	0	3	1	8	0	4	1	8	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:73074493G>A	uc001otu.2	+	15	5260	c.5239G>A	c.(5239-5241)GAT>AAT	p.D1747N		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1747					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						GGGCACTGAGGATGGCTGGTA	0.647													4	50					0	0	1	0	0		A	73074493	A	A	73074493	3	1	122	1	0	0	0	0	1	0	0	0	900	1174	41	4	5297	4	ARHGEF17	11	73074493	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2742011	73074493	61932023	624	67627											
P4HA3	283208	broad.mit.edu	37	chr11	74015430	74015430	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggggttgttgaatcctcAtgcaaagaaagtaccttgtc	12	11	10	8	0	1	2	1	1	0	1	3	2	2	2	2	2	2	4	2	2	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:74015430A>G	uc001ouz.2	-	2	271	c.228T>C	c.(226-228)CAT>CAC	p.H76H	P4HA3_uc001ouy.3_RNA|P4HA3_uc010rrj.1_Silent_p.H76H	NM_182904	NP_878907	Q7Z4N8	P4HA3_HUMAN	prolyl 4-hydroxylase, alpha III subunit	76						endoplasmic reticulum lumen	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			skin(1)	1	Breast(11;2.31e-05)					TTGAATCCTCATGCAAAGAAA	0.478													17	164					0	0	1	0	0		G	74015430	G	G	74015430	2	3	122	1	0	0	0	0	0	0	0	1	11377	214	8	3		3	P4HA3	11	74015430	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	940937	74015430	60991086	625	67628											
CAPN5	726	broad.mit.edu	37	chr11	76825449	76825449	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcatgttaaaggtgcacaGccggggcggcctcatcagtg	8	7	15	11	3	2	0	2	0	0	0	2	0	2	0	2	4	2	3	2	4	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:76825449G>C	uc001oxx.2	+	5	853	c.668G>C	c.(667-669)AGC>ACC	p.S223T	CAPN5_uc009yup.2_Missense_Mutation_p.S263T|CAPN5_uc009yuq.2_Missense_Mutation_p.S259T|CAPN5_uc001oxy.2_Missense_Mutation_p.S263T	NM_004055	NP_004046	O15484	CAN5_HUMAN	calpain 5	223	Calpain catalytic.				proteolysis|signal transduction	intracellular	calcium-dependent cysteine-type endopeptidase activity				0						AAGGTGCACAGCCGGGGCGGC	0.587											OREG0021255	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	274					0	0	1	0	0		C	76825449	C	C	76825449	3	2	122	1	0	0	0	0	1	0	0	0	2632	971	34	5	682	5	CAPN5	11	76825449	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2810019	76825449	58181067	626	67629											
PCF11	51585	broad.mit.edu	37	chr11	82877707	82877707	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatgtagaaaactggcaaAgttccaagtctgccaaaaga	18	7	9	7	0	1	3	0	0	1	3	2	3	2	3	2	1	2	3	2	1	8	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:82877707A>C	uc001ozx.3	+	5	2113	c.1768A>C	c.(1768-1770)AGT>CGT	p.S590R	PCF11_uc010rsu.1_Missense_Mutation_p.S590R	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	590					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						AAACTGGCAAAGTTCCAAGTC	0.373													13	81					0	0	1	0	0		C	82877707	C	C	82877707	3	2	122	1	0	0	0	0	1	0	0	0	11592	72	3	5	1786	5	PCF11	11	82877707	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	6052258	82877707	52128809	627	67630											
CTSC	1075	broad.mit.edu	37	chr11	88045562	88045562	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagcaactcacttttccTgagaattcttaaggtgtgct	9	16	8	8	0	2	1	1	1	1	1	3	2	3	1	1	1	3	3	1	1	4	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:88045562T>C	uc001pck.3	-	3	580	c.479A>G	c.(478-480)CAG>CGG	p.Q160R	CTSC_uc001pcl.3_Intron	NM_001814	NP_001805	P53634	CATC_HUMAN	cathepsin C isoform a preproprotein	160					immune response	lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TCACTTTTCCTGAGAATTCTT	0.368													16	118					0	0	1	0	0		C	88045562	C	C	88045562	3	2	122	1	0	0	0	0	1	0	0	0	4034	1580	55	3	932	3	CTSC	11	88045562	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	5167855	88045562	46960954	628	67631											
GRM5	2915	broad.mit.edu	37	chr11	88300827	88300827	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacagatcttcttcttgctgCcagccaggatccttgcaata	9	13	7	12	0	3	1	0	0	3	1	4	2	4	2	3	1	5	2	3	1	3	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:88300827C>A	uc001pcq.2	-	7	2224	c.2024G>T	c.(2023-2025)GGC>GTC	p.G675V	GRM5_uc009yvm.2_Missense_Mutation_p.G675V	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	675	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CTTCTTGCTGCCAGCCAGGAT	0.478													11	48					9.70103e-10	1.10147e-09	1	1	0		A	88300827	A	A	88300827	3	1	122	1	0	0	0	0	1	0	0	0	6816	739	26	5	1626	5	GRM5	11	88300827	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	255265	88300827	46705689	629	67632											
GRM5	2915	broad.mit.edu	37	chr11	88780392	88780392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttaccttctgtgtgcaCggctgatacataggtccagt	10	12	9	10	1	1	1	0	1	1	0	2	1	2	1	2	2	4	2	2	2	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:88780392C>T	uc001pcq.2	-	1	849	c.649G>A	c.(649-651)GTG>ATG	p.V217M	GRM5_uc009yvm.2_Missense_Mutation_p.V217M|GRM5_uc009yvn.1_Missense_Mutation_p.V217M	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	217	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	TCTGTGTGCACGGCTGATACA	0.413													11	90					0	0	1	0	0		T	88780392	T	T	88780392	3	4	122	1	0	0	0	0	1	0	0	0	6816	536	19	1	3025	1	GRM5	11	88780392	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	479565	88780392	46226124	630	67633											
GUCY1A2	2977	broad.mit.edu	37	chr11	106579331	106579331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatttccaaacaggcaataaCgtggcattcgcaccccaaca	14	8	6	13	2	0	0	0	0	0	0	2	0	1	0	3	2	3	3	3	2	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:106579331C>T	uc001pjg.1	-	7	2288	c.1898G>A	c.(1897-1899)CGT>CAT	p.R633H	GUCY1A2_uc010rvo.1_Missense_Mutation_p.R654H|GUCY1A2_uc009yxn.1_Missense_Mutation_p.R664H	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	633	Guanylate cyclase.				intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CAGGCAATAACGTGGCATTCG	0.468													4	69					0	0	1	0	0		T	106579331	T	T	106579331	3	4	122	1	0	0	0	0	1	0	0	0	6909	536	19	1	308	1	GUCY1A2	11	106579331	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	17798939	106579331	28427185	631	67634											
ATM	472	broad.mit.edu	37	chr11	108114793	108114793	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgctgttctcagactgacGgattaaattccaaatttttg	11	15	8	7	1	1	2	1	1	1	1	3	4	2	3	1	1	1	2	1	1	3	5	rs147915571		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:108114793G>T	uc001pkb.1	+	6	995	c.610G>T	c.(610-612)GGA>TGA	p.G204*	ATM_uc009yxr.1_Nonsense_Mutation_p.G204*	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	204					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TCAGACTGACGGATTAAATTC	0.348			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			6	47					3.59834e-05	3.84186e-05	1	1	0		T	108114793	T	T	108114793	4	4	122	1	0	0	0	0	0	1	0	0	1110	1117	39	5	628	5	ATM	11	108114793	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1535462	108114793	26891723	632	67635											
ATM	472	broad.mit.edu	37	chr11	108155113	108155113	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttattttgcctatgagggTaccagagacagtgggatggc	9	11	13	8	0	0	2	0	1	0	1	0	4	0	3	3	3	2	1	3	3	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:108155113T>C	uc001pkb.1	+	26	4291	c.3906T>C	c.(3904-3906)GGT>GGC	p.G1302G	ATM_uc009yxr.1_Silent_p.G1302G	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1302					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding	p.V1292_Q1331del(1)		haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		CCTATGAGGGTACCAGAGACA	0.393			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			9	72					0	0	1	0	0		C	108155113	C	C	108155113	2	2	122	1	0	0	0	0	0	0	0	1	1110	1625	57	3		3	ATM	11	108155113	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	40320	108155113	26851403	633	67636											
DDX10	1662	broad.mit.edu	37	chr11	108709179	108709179	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttctcacacagaagaaaGaaccttctaaatccagcatc	16	9	5	11	0	2	3	1	0	2	3	5	3	3	3	2	0	2	2	2	0	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:108709179G>T	uc001pkm.2	+	14	2037	c.1972G>T	c.(1972-1974)GAA>TAA	p.E658*	DDX10_uc001pkl.1_Nonsense_Mutation_p.E658*	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	658				E -> D (in Ref. 1; AAC50823).			ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		ACAGAAGAAAGAACCTTCTAA	0.308			T	NUP98	AML*								8	60					0.000157383	0.000165819	1	1	0		T	108709179	T	T	108709179	4	4	122	1	0	0	0	0	0	1	0	0	4345	943	33	5	2026	5	DDX10	11	108709179	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	554066	108709179	26297337	634	67637											
BCO2	83875	broad.mit.edu	37	chr11	112071463	112071463	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaaccccagtgtaatacGcggtttcatgtggtggaaaa	11	10	13	7	2	1	0	1	0	0	0	1	2	1	2	2	4	2	2	2	4	5	3	rs139911945	by1000genomes	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:112071463G>A	uc001pnf.2	+	7	1110	c.993G>A	c.(991-993)ACG>ACA	p.T331T	BCO2_uc001pne.1_Silent_p.T158T|BCO2_uc001png.2_Silent_p.T258T|BCO2_uc001pnh.2_Silent_p.T297T|BCO2_uc010rwt.1_Silent_p.T226T|BCO2_uc009yyn.2_Silent_p.T297T|BCO2_uc001pni.2_Silent_p.T297T	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	331					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						AGTGTAATACGCGGTTTCATG	0.398													14	146					0	0	1	0	0		A	112071463	A	A	112071463	2	1	122	1	0	0	0	0	0	0	0	1	1386	1074	38	1		1	BCO2	11	112071463	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3362284	112071463	22935053	635	67638											
ATP5L	10632	broad.mit.edu	37	chr11	118272414	118272414	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtaaccttgtggagaagAccccggcgctggtgaacggt	8	8	14	11	4	0	3	0	1	0	2	1	4	1	3	4	4	2	2	4	4	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:118272414A>G	uc001psx.2	+	1	311	c.34A>G	c.(34-36)ACC>GCC	p.T12A		NM_006476	NP_006467	O75964	ATP5L_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	12					ATP catabolic process|respiratory electron transport chain	mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity|protein binding				0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)		TGTGGAGAAGACCCCGGCGCT	0.667													7	34					0	0	1	0	0		G	118272414	G	G	118272414	3	3	122	1	0	0	0	0	1	0	0	0	1161	275	10	3	36	3	ATP5L	11	118272414	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	6200951	118272414	16734102	636	67639											
MLL	4297	broad.mit.edu	37	chr11	118343133	118343133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtcagtgctatctcctcgcGgatcattaagacccctcggc	7	11	9	14	3	3	1	2	0	1	1	6	2	3	2	3	2	1	1	3	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:118343133G>A	uc001pta.2	+	3	1282	c.1259G>A	c.(1258-1260)CGG>CAG	p.R420Q	MLL_uc001ptb.2_Missense_Mutation_p.R420Q|MLL_uc001psz.1_Missense_Mutation_p.R453Q|MLL_uc001ptd.1_Intron	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	420					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		ATCTCCTCGCGGATCATTAAG	0.448			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								20	111					0	0	1	0	0		A	118343133	A	A	118343133	3	1	122	1	0	0	0	0	1	0	0	0	9638	1116	39	1	1269	1	MLL	11	118343133	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	70719	118343133	16663383	637	67640											
ABCG4	64137	broad.mit.edu	37	chr11	119025561	119025561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctggcgggcagaggaagCgtctggccatcgccctggag	6	7	16	12	3	2	1	0	0	2	1	4	3	2	3	2	5	1	1	2	5	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:119025561C>T	uc001pvs.2	+	6	958	c.622C>T	c.(622-624)CGT>TGT	p.R208C	ABCG4_uc009zar.2_Missense_Mutation_p.R208C	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	208	Cytoplasmic (Potential).|ABC transporter.				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		GCAGAGGAAGCGTCTGGCCAT	0.622													38	189					0	0	1	0	0		T	119025561	T	T	119025561	3	4	122	1	0	0	0	0	1	0	0	0	70	768	27	1	640	1	ABCG4	11	119025561	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	682428	119025561	15980955	638	67641											
NLRX1	79671	broad.mit.edu	37	chr11	119052945	119052945	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggctgcccagctggacCgcaaccggcagctgcaggag	7	5	15	14	2	0	0	0	0	0	0	0	2	0	2	3	4	6	7	3	4	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:119052945C>A	uc001pvu.2	+	9	2712	c.2497C>A	c.(2497-2499)CGC>AGC	p.R833S	NLRX1_uc001pvv.2_Missense_Mutation_p.R833S|NLRX1_uc001pvw.2_Missense_Mutation_p.R833S|NLRX1_uc001pvx.2_Missense_Mutation_p.R833S	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	833	LRR 5.|Required for the repression of MAVS- induced interferon signaling.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		CCAGCTGGACCGCAACCGGCA	0.677													12	89					1.08611e-07	1.2069e-07	1	1	0		A	119052945	A	A	119052945	3	1	122	1	0	0	0	0	1	0	0	0	10504	652	23	5	2527	5	NLRX1	11	119052945	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	27384	119052945	15953571	639	67642											
THY1	7070	broad.mit.edu	37	chr11	119290951	119290951	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacagtgccaaagagcacGtgcttctttgtctcacgggt	8	10	10	13	2	2	1	1	0	2	1	3	1	2	1	2	1	3	2	2	1	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:119290951G>A	uc001pwq.2	-	2	217	c.183C>T	c.(181-183)CAC>CAT	p.H61H	uc001pwo.2_Intron|uc001pwp.1_Intron|THY1_uc001pwr.2_Silent_p.H61H|THY1_uc001pws.2_RNA	NM_006288	NP_006279	P04216	THY1_HUMAN	Thy-1 cell surface antigen preproprotein	61	Ig-like V-type.				angiogenesis|cell-cell adhesion|cytoskeleton organization|focal adhesion assembly|negative regulation of axonogenesis|negative regulation of cell migration|negative regulation of protein kinase activity|negative regulation of T cell receptor signaling pathway|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of T cell activation|retinal cone cell development|T cell receptor signaling pathway	endoplasmic reticulum|growth cone|integral to plasma membrane|membrane raft	GPI anchor binding|integrin binding|Rho GTPase activator activity				0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.83e-05)		CAAAGAGCACGTGCTTCTTTG	0.547													18	148					0	0	1	0	0		A	119290951	A	A	119290951	2	1	122	1	0	0	0	0	0	0	0	1	15910	1136	40	1		1	THY1	11	119290951	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	238006	119290951	15715565	640	67643											
TBCEL	219899	broad.mit.edu	37	chr11	120930727	120930727	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgttgttactgatggtgaaCgagaagattctgagagattt	11	13	13	4	2	1	6	0	3	1	3	1	8	1	6	0	1	2	2	0	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:120930727C>T	uc009zay.2	+	7	967	c.889C>T	c.(889-891)CGA>TGA	p.R297*	TBCEL_uc001pxo.2_Nonsense_Mutation_p.R297*|TBCEL_uc001pxp.2_Nonsense_Mutation_p.R153*|TBCEL_uc001pxq.2_RNA	NM_001130047	NP_001123519	Q5QJ74	TBCEL_HUMAN	tubulin folding cofactor E-like	297	LRRCT.					cytoplasm|cytoskeleton				skin(1)	1		Breast(109;0.00526)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.89e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.121)		TGATGGTGAACGAGAAGATTC	0.333													8	32					0	0	1	0	0		T	120930727	T	T	120930727	4	4	122	1	0	0	0	0	0	1	0	0	15660	528	19	1	911	1	TBCEL	11	120930727	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1639776	120930727	14075789	641	67644											
SCN3B	55800	broad.mit.edu	37	chr11	123513213	123513213	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaaagggccgatgcgccTcaaactcaaactcccgggac	12	5	9	15	3	3	0	3	0	0	0	4	2	4	1	3	2	3	0	3	2	3	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:123513213T>C	uc001pza.1	-	4	793	c.386A>G	c.(385-387)GAG>GGG	p.E129G	SCN3B_uc001pzb.1_Missense_Mutation_p.E129G	NM_001040151	NP_001035241	Q9NY72	SCN3B_HUMAN	voltage-gated sodium channel beta-3 subunit	129	Ig-like C2-type.|Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	voltage-gated sodium channel activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0227)		CCGATGCGCCTCAAACTCAAA	0.597													16	92					0	0	1	0	0		C	123513213	C	C	123513213	3	2	122	1	0	0	0	0	1	0	0	0	13944	1551	54	3	273	3	SCN3B	11	123513213	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	2582486	123513213	11493303	642	67645											
OR8G2	26492	broad.mit.edu	37	chr11	124095415	124095415	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatggtttttctttcctcCgtagaaactgaccaaaggaa	12	12	7	10	1	1	2	0	1	1	1	3	3	3	3	4	2	1	2	4	2	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:124095415C>A	uc010saf.1	+	1	18	c.18C>A	c.(16-18)TCC>TCA	p.S6S		NM_001007249	NP_001007250	Q15614	OR8G2_HUMAN	olfactory receptor, family 8, subfamily G,	6						integral to membrane	olfactory receptor activity				0		Breast(109;0.0157)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.91e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		TTCTTTCCTCCGTAGAAACTG	0.473													4	19					0.00024832	0.000260714	1	1	0		A	124095415	A	A	124095415	2	1	122	1	0	0	0	0	0	0	0	1	11254	639	23	5		5	OR8G2	11	124095415	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	582202	124095415	10911101	643	67646											
OR8B3	390271	broad.mit.edu	37	chr11	124266650	124266650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attaatacccacaacaatgaGaacaaccacctcgttgacat	17	8	4	12	1	0	2	0	2	0	1	1	3	0	2	3	0	4	1	3	0	6	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:124266650G>A	uc010saj.1	-	1	598	c.598C>T	c.(598-600)CTC>TTC	p.L200F	OR8B2_uc001qab.3_Intron	NM_001005467	NP_001005467	Q8NGG8	OR8B3_HUMAN	olfactory receptor, family 8, subfamily B,	200	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		ACAACAATGAGAACAACCACC	0.428													16	128					0	0	1	0	0		A	124266650	A	A	124266650	3	1	122	1	0	0	0	0	1	0	0	0	11247	942	33	4	345	4	OR8B3	11	124266650	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	171235	124266650	10739866	644	67647											
FEZ1	9638	broad.mit.edu	37	chr11	125324074	125324074	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctggcggatgccactctgCagaatgttggagatgccttc	7	11	13	10	1	2	2	0	0	2	2	3	4	2	3	2	3	3	2	2	3	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:125324074C>T	uc001qbx.2	-	7	1124	c.972G>A	c.(970-972)CTG>CTA	p.L324L	FEZ1_uc001qbw.2_Silent_p.L114L	NM_005103	NP_005094	Q99689	FEZ1_HUMAN	zygin 1 isoform 1	324					axon guidance|cell adhesion|transport	microtubule|plasma membrane				central_nervous_system(3)|ovary(1)	4	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0934)		TGCCACTCTGCAGAATGTTGG	0.557													8	33					0	0	1	0	0		T	125324074	T	T	125324074	2	4	122	1	0	0	0	0	0	0	0	1	5837	697	25	2		2	FEZ1	11	125324074	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1057424	125324074	9682442	645	67648											
ARHGAP32	9743	broad.mit.edu	37	chr11	128840449	128840449	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccagatgcgtttcttcctggGgccacatatgtgttataacg	8	13	10	10	2	1	1	0	0	1	1	2	1	2	1	3	2	2	2	3	2	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:128840449G>T	uc009zcp.2	-	22	4617	c.4617C>A	c.(4615-4617)GCC>GCA	p.A1539A	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Silent_p.A498A|ARHGAP32_uc001qez.2_Silent_p.A1190A	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1539	Interaction with GAB2.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TTCTTCCTGGGGCCACATATG	0.527													5	76					0.000602214	0.00062842	1	1	0		T	128840449	T	T	128840449	2	4	122	1	0	0	0	0	0	0	0	1	881	1219	43	5		5	ARHGAP32	11	128840449	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3516375	128840449	6166067	646	67649											
ARHGAP32	9743	broad.mit.edu	37	chr11	129062071	129062071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgtcatcccctaaagtgCtactctcactttcagtctcc	8	13	4	16	0	4	0	3	0	2	0	7	0	5	0	3	0	2	1	3	0	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:129062071C>T	uc009zcp.2	-	1	23	c.23G>A	c.(22-24)AGC>AAC	p.S8N		NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	8					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						CCCTAAAGTGCTACTCTCACT	0.403													25	183					0	0	1	0	0		T	129062071	T	T	129062071	3	4	122	1	0	0	0	0	1	0	0	0	881	797	28	2	6328	2	ARHGAP32	11	129062071	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	221622	129062071	5944445	647	67650											
ADAMTS8	11095	broad.mit.edu	37	chr11	130281444	130281444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactcctcctccacaggtccGagaacattctccccagggtc	8	9	7	17	1	1	1	0	0	1	1	7	2	5	1	6	2	2	0	6	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:130281444G>A	uc001qgg.3	-	6	1976	c.1618C>T	c.(1618-1620)CGG>TGG	p.R540W	ADAMTS8_uc001qgf.2_Missense_Mutation_p.R21W	NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	540	TSP type-1 1.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		CCACAGGTCCGAGAACATTCT	0.582													14	81					0	0	1	0	0		A	130281444	A	A	130281444	3	1	122	1	0	0	0	0	1	0	0	0	272	1057	37	1	1067	1	ADAMTS8	11	130281444	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1219373	130281444	4725072	648	67651											
GLB1L3	112937	broad.mit.edu	37	chr11	134153716	134153716	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtattttgaccacctgAttcccagagtgattcctctc	10	13	7	11	0	1	5	0	3	1	2	4	5	3	5	4	0	0	1	4	0	2	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr11:134153716A>G	uc009zdf.2	+	6	973	c.613A>G	c.(613-615)ATT>GTT	p.I205V	GLB1L3_uc010scs.1_Missense_Mutation_p.I205V|GLB1L3_uc010sct.1_Missense_Mutation_p.I57V	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3	205					carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		TGACCACCTGATTCCCAGAGT	0.493													4	18					0	0	1	0	0		G	134153716	G	G	134153716	3	3	122	1	0	0	0	0	1	0	0	0	6445	333	12	3	635	3	GLB1L3	11	134153716	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	3872272	134153716	852800	649	67652											
IQSEC3	440073	broad.mit.edu	37	chr12	248455	248455	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccagccagctgcaagtcGcccacgctctccaccgacac	10	4	7	20	3	1	0	0	0	1	0	3	1	1	0	5	0	4	3	5	0	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:248455G>A	uc001qhw.1	+	1	1023	c.1017G>A	c.(1015-1017)TCG>TCA	p.S339S	IQSEC3_uc001qhu.1_Silent_p.S339S|IQSEC3_uc001qht.1_Silent_p.S424S|uc001qhv.1_Intron	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	642					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		GCTGCAAGTCGCCCACGCTCT	0.682													4	11					0	0	1	0	0		A	248455	A	A	248455	2	1	122	1	0	0	0	0	0	0	0	1	7835	1074	38	1		1	IQSEC3	12	248455	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08		248455	133603440	650	67653											
ANO2	57101	broad.mit.edu	37	chr12	5963246	5963246	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcttcaagaattctgccTctctggccagcacctgccac	8	11	7	15	0	4	2	1	1	3	1	5	2	4	2	4	1	3	1	4	1	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:5963246T>C	uc001qnm.2	-	4	656	c.584A>G	c.(583-585)GAG>GGG	p.E195G		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	199	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						GAATTCTGCCTCTCTGGCCAG	0.473													26	246					0	0	1	0	0		C	5963246	C	C	5963246	3	2	122	1	0	0	0	0	1	0	0	0	697	1551	54	3	2504	3	ANO2	12	5963246	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	5714791	5963246	127888649	651	67654											
NOP2	4839	broad.mit.edu	37	chr12	6669713	6669713	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccttctggaggtgagcaCagcgcaggatgtccttctca	8	10	11	12	1	2	1	1	1	2	0	5	3	4	3	2	3	2	2	2	3	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:6669713C>T	uc001qpj.1	-	4	284	c.-265G>A	c.(-267--263)CTGTG>CTATG		NOP2_uc009zeq.1_Missense_Mutation_p.C199Y|NOP2_uc001qph.1_Missense_Mutation_p.C483Y|NOP2_uc001qpi.1_Missense_Mutation_p.C483Y			P46087	NOP2_HUMAN	Homo sapiens cDNA FLJ31646 fis, clone NT2RI2003921, highly similar to PROLIFERATING-CELL NUCLEOLAR ANTIGEN P120.						positive regulation of cell proliferation|rRNA processing	nucleolus	protein binding|RNA binding|S-adenosylmethionine-dependent methyltransferase activity			ovary(2)	2						GAGGTGAGCACAGCGCAGGAT	0.547													6	60					0	0	1	0	0		T	6669713	T	T	6669713	1	4	122	1	0	0	0	0	0	0	0	0	10557	478	17	4		4	NOP2	12	6669713	Translation_Start_Site	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	706467	6669713	127182182	652	67655											
CD4	920	broad.mit.edu	37	chr12	6925423	6925423	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacgggttacccaggaccCtaagctccagatgggcaaga	14	5	11	11	1	0	2	0	0	0	2	1	3	1	3	3	3	3	3	3	3	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:6925423C>A	uc001qqv.1	+	6	1054	c.809C>A	c.(808-810)CCT>CAT	p.P270H	CD4_uc009zez.1_3'UTR|CD4_uc009zfa.1_RNA|CD4_uc009zfb.1_RNA|CD4_uc010sfj.1_5'UTR|CD4_uc009zfc.1_Missense_Mutation_p.P91H|CD4_uc010sfk.1_5'UTR|CD4_uc010sfl.1_5'UTR|CD4_uc010sfm.1_5'UTR	NM_000616	NP_000607	P01730	CD4_HUMAN	CD4 antigen precursor	270	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|entry into host cell|immune response|induction by virus of host cell-cell fusion|initiation of viral infection|maintenance of protein location in cell|positive regulation of interleukin-2 biosynthetic process|positive regulation of protein kinase activity|protein palmitoleylation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|T cell selection|transmembrane receptor protein tyrosine kinase signaling pathway	early endosome|endoplasmic reticulum membrane|integral to membrane|T cell receptor complex	coreceptor activity|extracellular matrix structural constituent|glycoprotein binding|MHC class II protein binding|protein homodimerization activity|protein kinase binding|transmembrane receptor activity|zinc ion binding				0		Myeloproliferative disorder(1001;0.0122)				ACCCAGGACCCTAAGCTCCAG	0.587													23	128					2.21704e-12	2.56091e-12	1	1	0		A	6925423	A	A	6925423	3	1	122	1	0	0	0	0	1	0	0	0	3017	681	24	5	827	5	CD4	12	6925423	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	255710	6925423	126926472	653	67656											
SLC2A3	6515	broad.mit.edu	37	chr12	8083159	8083159	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggaagggctgcactttgtAggatagcaggaaggatggta	12	9	16	4	0	0	0	0	0	0	0	0	4	0	4	0	6	2	5	0	6	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:8083159A>G	uc001qtr.2	-	5	852	c.590T>C	c.(589-591)CTA>CCA	p.L197P	SLC2A3_uc001qts.2_Missense_Mutation_p.L197P	NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	197	Helical; Name=6; (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		TGCACTTTGTAGGATAGCAGG	0.443													18	125					0	0	1	0	0		G	8083159	G	G	8083159	3	3	122	1	0	0	0	0	1	0	0	0	14570	420	15	3	924	3	SLC2A3	12	8083159	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1157736	8083159	125768736	654	67657											
CLEC4A	50856	broad.mit.edu	37	chr12	8288248	8288248	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgctactttatttctacTgaatcagcatcttggcaaga	12	14	6	9	0	3	2	1	1	2	1	3	2	3	2	0	1	5	3	0	1	6	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:8288248T>C	uc001qtz.1	+	4	613	c.366T>C	c.(364-366)ACT>ACC	p.T122T	CLEC4A_uc009zga.1_Silent_p.T83T|CLEC4A_uc001qub.1_Silent_p.T89T|CLEC4A_uc001quc.1_Silent_p.T50T|CLEC4A_uc009zgb.1_Intron|uc010sgi.1_5'Flank	NM_016184	NP_057268	Q9UMR7	CLC4A_HUMAN	C-type lectin domain family 4, member A isoform	122	Extracellular (Potential).|C-type lectin.				cell adhesion|cell surface receptor linked signaling pathway|innate immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0				Kidney(36;0.0915)		TTATTTCTACTGAATCAGCAT	0.443													5	60					0	0	1	0	0		C	8288248	C	C	8288248	2	2	122	1	0	0	0	0	0	0	0	1	3515	1567	55	3		3	CLEC4A	12	8288248	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	205089	8288248	125563647	655	67658											
FAM90A1	55138	broad.mit.edu	37	chr12	8375189	8375189	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgcagtctgagggatgtcGgccgcagcccctgtctgtct	5	10	13	13	2	3	1	0	1	3	0	4	2	3	2	3	2	2	2	3	2	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:8375189G>A	uc001qui.2	-	7	1183	c.624C>T	c.(622-624)GCC>GCT	p.A208A	FAM90A1_uc001quh.2_Silent_p.A208A	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	208							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		GAGGGATGTCGGCCGCAGCCC	0.617													14	114					0	0	1	0	0		A	8375189	A	A	8375189	2	1	122	1	0	0	0	0	0	0	0	1	5664	1103	39	1		1	FAM90A1	12	8375189	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	86941	8375189	125476706	656	67659											
A2M	2	broad.mit.edu	37	chr12	9251308	9251308	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgactcgcaggtgggcGtgtgaggctgggagactttg	5	10	19	7	2	0	3	0	2	0	1	1	4	0	3	0	4	0	3	0	4	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:9251308G>A	uc001qvk.1	-	15	1859	c.1746C>T	c.(1744-1746)CAC>CAT	p.H582H	A2M_uc009zgk.1_Silent_p.H432H	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	582					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GCAGGTGGGCGTGTGAGGCTG	0.547													5	23					0	0	1	0	0		A	9251308	A	A	9251308	2	1	122	1	0	0	0	0	0	0	0	1	4	1136	40	1		1	A2M	12	9251308	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	876119	9251308	124600587	657	67660											
KLRD1	3824	broad.mit.edu	37	chr12	10460612	10460612	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcagcttcaacaattcaaCgctgttctttctgaaaaagt	12	13	6	10	1	5	1	3	1	2	0	5	1	5	1	0	0	3	4	0	0	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:10460612C>T	uc001qxw.3	+	2	133	c.-64C>T	c.(-66--62)AACGC>AATGC		KLRD1_uc001qxx.3_Translation_Start_Site|KLRD1_uc001qxy.3_Translation_Start_Site|KLRD1_uc009zhh.2_Translation_Start_Site|KLRD1_uc009zhi.2_Translation_Start_Site|KLRD1_uc001qxz.3_Translation_Start_Site	NM_001114396	NP_001107868	Q13241	KLRD1_HUMAN	killer cell lectin-like receptor subfamily D,						cell surface receptor linked signaling pathway|regulation of immune response	integral to membrane|plasma membrane	sugar binding|transmembrane receptor activity				0						AACAATTCAACGCTGTTCTTT	0.333													6	43					0	0	1	0	0		T	10460612	T	T	10460612	1	4	122	1	0	0	0	0	0	0	0	0	8435	551	19	1		1	KLRD1	12	10460612	Translation_Start_Site	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1209304	10460612	123391283	658	67661											
PRB2	653247	broad.mit.edu	37	chr12	11546301	11546301	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtggctttcctggaggAgatcgggcactttgggactt	5	13	14	9	1	0	1	0	0	0	1	2	4	1	3	2	5	0	2	2	5	0	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:11546301A>G	uc010shk.1	-	3	746	c.711T>C	c.(709-711)TCT>TCC	p.S237S		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			TTCCTGGAGGAGATCGGGCAC	0.612													71	456					0	0	1	0	0		G	11546301	G	G	11546301	2	3	122	1	0	0	0	0	0	0	0	1	12465	291	11	3		3	PRB2	12	11546301	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1085689	11546301	122305594	659	67662											
DUSP16	80824	broad.mit.edu	37	chr12	12630318	12630318	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttctgaccgaatgcaatcGcttgctctggctgtctgaag	7	12	12	10	2	3	2	0	2	3	0	4	3	3	2	1	2	2	5	1	2	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:12630318G>A	uc001rao.1	-	7	2079	c.1447C>T	c.(1447-1449)CGA>TGA	p.R483*	DUSP16_uc001ram.1_5'Flank|DUSP16_uc001ran.1_Nonsense_Mutation_p.R335*	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	483					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		GAATGCAATCGCTTGCTCTGG	0.572													22	110					0	0	1	0	0		A	12630318	A	A	12630318	4	1	122	1	0	0	0	0	0	1	0	0	4822	1095	38	1	554	1	DUSP16	12	12630318	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1084017	12630318	121221577	660	67663											
GRIN2B	2904	broad.mit.edu	37	chr12	13716856	13716856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcggcgacggtaggccagctCgatctcgtcaaactccctgc	7	8	11	15	5	2	0	1	0	1	0	6	2	3	0	2	3	3	2	2	3	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:13716856C>T	uc001rbt.2	-	13	3495	c.3316G>A	c.(3316-3318)GAG>AAG	p.E1106K		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1106	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding	p.E1106K(1)		central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TAGGCCAGCTCGATCTCGTCA	0.617													11	74					0	0	1	0	0		T	13716856	T	T	13716856	3	4	122	1	0	0	0	0	1	0	0	0	6796	893	31	1	1142	1	GRIN2B	12	13716856	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1086538	13716856	120135039	661	67664											
PLBD1	79887	broad.mit.edu	37	chr12	14659149	14659149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtgagttcaggtcctcacGgcagcagatggtattacagg	10	9	14	8	1	2	2	2	1	0	1	3	2	3	2	1	5	2	4	1	5	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:14659149G>A	uc001rcc.1	-	10	1587	c.1426C>T	c.(1426-1428)CGT>TGT	p.R476C		NM_024829	NP_079105	Q6P4A8	PLBL1_HUMAN	phospholipase B domain containing 1	476					lipid catabolic process	extracellular region	hydrolase activity				0						AGGTCCTCACGGCAGCAGATG	0.443													7	62					0	0	1	0	0		A	14659149	A	A	14659149	3	1	122	1	0	0	0	0	1	0	0	0	12044	1116	39	1	243	1	PLBD1	12	14659149	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	942293	14659149	119192746	662	67665											
ABCC9	10060	broad.mit.edu	37	chr12	21968783	21968783	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacacagatcatgtatctTgatctccccttcttgtggcc	8	13	7	13	0	4	2	1	1	3	1	5	3	4	2	3	1	0	1	3	1	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:21968783T>C	uc001rfi.1	-	32	3957	c.3937A>G	c.(3937-3939)AAG>GAG	p.K1313E	ABCC9_uc001rfh.2_Missense_Mutation_p.K1313E|ABCC9_uc001rfj.1_Missense_Mutation_p.K1277E	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1313	Cytoplasmic (Potential).|ABC transporter 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TCATGTATCTTGATCTCCCCT	0.408													13	71					0	0	1	0	0		C	21968783	C	C	21968783	3	2	122	1	0	0	0	0	1	0	0	0	59	1821	63	3	882	3	ABCC9	12	21968783	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	7309634	21968783	111883112	663	67666											
ABCC9	10060	broad.mit.edu	37	chr12	22068751	22068751	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtatgttgcttttgacaGcaaattcacaaatggttgaa	13	13	8	7	0	1	2	1	2	0	0	1	2	1	2	1	1	2	5	1	1	4	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:22068751G>T	uc001rfi.1	-	5	687	c.667C>A	c.(667-669)CTG>ATG	p.L223M	ABCC9_uc001rfh.2_Missense_Mutation_p.L223M|ABCC9_uc001rfj.1_Missense_Mutation_p.L223M	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	223	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GCTTTTGACAGCAAATTCACA	0.393													9	61					2.74318e-10	3.12353e-10	1	1	0		T	22068751	T	T	22068751	3	4	122	1	0	0	0	0	1	0	0	0	59	962	34	5	4260	5	ABCC9	12	22068751	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	99968	22068751	111783144	664	67667											
ITPR2	3709	broad.mit.edu	37	chr12	26580933	26580933	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatacaagaaacggccgaatAcccacaggcttggagaagaa	17	4	11	9	2	0	3	0	0	0	3	0	6	0	3	2	3	3	1	2	3	7	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:26580933A>G	uc001rhg.2	-	49	7275	c.6858T>C	c.(6856-6858)GGT>GGC	p.G2286G	ITPR2_uc009zjg.1_Silent_p.G437G	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	2286	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					ACGGCCGAATACCCACAGGCT	0.398													7	47					0	0	1	0	0		G	26580933	G	G	26580933	2	3	122	1	0	0	0	0	0	0	0	1	7937	378	14	3		3	ITPR2	12	26580933	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	4512182	26580933	107270962	665	67668											
ALG10	84920	broad.mit.edu	37	chr12	34177054	34177054	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgttggcaacttctattTactatatttgcttttctgca	8	19	6	8	0	2	0	0	0	2	0	2	0	2	0	0	1	4	4	0	1	5	10			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:34177054T>C	uc001rlm.2	+	2	648	c.329T>C	c.(328-330)TTA>TCA	p.L110S		NM_032834	NP_116223	Q5BKT4	AG10A_HUMAN	asparagine-linked glycosylation 10 homolog	110	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			skin(1)	1	Lung NSC(5;3.82e-05)|Acute lymphoblastic leukemia(23;0.0142)|all_hematologic(23;0.0429)	Lung NSC(34;0.204)|all_lung(34;0.235)				AACTTCTATTTACTATATTTG	0.363													17	136					0	0	1	0	0		C	34177054	C	C	34177054	3	2	122	1	0	0	0	0	1	0	0	0	511	1764	61	3	335	3	ALG10	12	34177054	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	7596121	34177054	99674841	666	67669											
GXYLT1	283464	broad.mit.edu	37	chr12	42491723	42491723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataattacctggattatgaAaaaacacgatattcaataga	20	11	5	5	1	1	2	1	1	0	1	1	4	1	3	1	1	2	0	1	1	10	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:42491723A>G	uc001rms.3	-	6	1202	c.977T>C	c.(976-978)TTT>TCT	p.F326S	GXYLT1_uc001rmt.3_Missense_Mutation_p.F295S	NM_173601	NP_775872	Q4G148	GXLT1_HUMAN	glycosyltransferase 8 domain containing 3	326	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						TGGATTATGAAAAAACACGAT	0.299													7	47					0	0	1	0	0		G	42491723	G	G	42491723	3	3	122	1	0	0	0	0	1	0	0	0	6919	14	1	3	357	3	GXYLT1	12	42491723	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	8314669	42491723	91360172	667	67670											
HDAC7	51564	broad.mit.edu	37	chr12	48189994	48189994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcggcaaggccttacctccGagcccaggatgggattgggg	7	7	15	12	2	0	0	0	0	0	0	2	3	1	2	4	6	2	1	4	6	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:48189994G>A	uc009zkv.1	-	6	889	c.674C>T	c.(673-675)TCG>TTG	p.S225L	HDAC7_uc001rqe.2_5'Flank|HDAC7_uc010slo.1_Missense_Mutation_p.S264L|HDAC7_uc001rqj.3_Missense_Mutation_p.S264L|HDAC7_uc001rqk.3_Missense_Mutation_p.S247L			Q8WUI4	HDAC7_HUMAN	Synthetic construct DNA, clone: pF1KB0470, Homo sapiens HDAC7 gene for histone deacetylase 7, without stop codon, in Flexi system.	225	Transcription repression 1 (By similarity).|Transcription repression 2 (By similarity).			Missing (in Ref. 1; AAF63491).	negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		CCTTACCTCCGAGCCCAGGAT	0.662													6	13					0	0	1	0	0		A	48189994	A	A	48189994	3	1	122	1	0	0	0	0	1	0	0	0	7028	1059	37	1	2260	1	HDAC7	12	48189994	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	5698271	48189994	85661901	668	67671											
COL2A1	1280	broad.mit.edu	37	chr12	48391985	48391985	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggttctcctttctgtccCtgaaacatgaaacattcaca	11	12	5	13	0	3	2	1	2	2	0	5	2	4	2	3	1	2	1	3	1	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:48391985C>A	uc001rqu.2	-	4	491	c.310_splice	c.e4-1	p.G104_splice	COL2A1_uc001rqv.2_Splice_Site_p.G35_splice	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor						axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CTTTCTGTCCCTGAAACATGA	0.478													13	82					2.31682e-05	2.47803e-05	1	1	0		A	48391985	A	A	48391985	5	1	122	1	0	0	0	0	0	0	1	0	3690	695	24	5	4358	5	COL2A1	12	48391985	Splice_Site	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	201991	48391985	85459910	669	67672											
ADCY6	112	broad.mit.edu	37	chr12	49177093	49177093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccggaggcagctcatatagCggggcgtgcagaagccacct	9	5	14	13	3	1	1	1	0	0	1	1	2	1	2	3	4	4	3	3	4	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:49177093C>T	uc001rsh.3	-	1	785	c.125G>A	c.(124-126)CGC>CAC	p.R42H	ADCY6_uc001rsj.3_Missense_Mutation_p.R42H|ADCY6_uc001rsi.3_Missense_Mutation_p.R42H	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	42	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						GCTCATATAGCGGGGCGTGCA	0.682													4	25					0	0	1	0	0		T	49177093	T	T	49177093	3	4	122	1	0	0	0	0	1	0	0	0	298	768	27	1	3465	1	ADCY6	12	49177093	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	785108	49177093	84674802	670	67673											
DDX23	9416	broad.mit.edu	37	chr12	49230000	49230000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccacaccaatgatgtcaCgattctgtagcccaatggga	12	8	9	12	1	2	1	1	1	1	0	2	3	2	2	3	1	2	1	3	1	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:49230000C>T	uc001rsm.2	-	11	1377	c.1286G>A	c.(1285-1287)CGT>CAT	p.R429H		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	429	Helicase ATP-binding.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6						AATGATGTCACGATTCTGTAG	0.507													22	146					0	0	1	0	0		T	49230000	T	T	49230000	3	4	122	1	0	0	0	0	1	0	0	0	4353	536	19	1	1204	1	DDX23	12	49230000	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	52907	49230000	84621895	671	67674											
MLL2	8085	broad.mit.edu	37	chr12	49440558	49440559	+	Missense_Mutation	DNP	GC	AT	AT																															acaacgccagcccttgagcaGcatcaccttggtgatctggg																										TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:49440558_49440559GC>AT	uc001rta.3	-	15	4251_4252	c.4251_4252GC>AT	c.(4249-4254)ATGCTG>ATATTG	p.M1417I		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1417	Cys-rich.|PHD-type 3.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CCCTTGAGCAGCATCACCTTGG	0.46			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			7	45					0	0	1	0	0		AT	49440559	AT	AT	49440558	3	1	122	1	0	0	0	0	1	0	0	0	9639	962	34	2	12521	2	MLL2	12	49440558	Missense_Mutation	DNP	GC	TCGA-CD-A4MI-01A-21D-A25D-08	210558	49440558	84411337	672	67675											
PRPH	5630	broad.mit.edu	37	chr12	49691041	49691041	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctaacgtgcgaggtggaCgggctgcgcggcacggtgag	7	6	19	9	6	1	1	0	1	1	0	1	3	1	2	0	5	3	2	0	5	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:49691041C>T	uc001rtu.2	+	5	1056	c.981C>T	c.(979-981)GAC>GAT	p.D327D		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	327	Coil 2.|Rod.						structural molecule activity				0						GCGAGGTGGACGGGCTGCGCG	0.652											OREG0021790	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	115					0	0	1	0	0		T	49691041	T	T	49691041	2	4	122	1	0	0	0	0	0	0	0	1	12598	535	19	1		1	PRPH	12	49691041	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	250483	49691041	84160854	673	67676											
KRT84	3890	broad.mit.edu	37	chr12	52774338	52774338	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcgccctgctgctcggcCtcggccactgcagcctccaa	4	7	10	20	3	0	0	0	0	0	0	4	0	1	0	6	2	4	3	6	2	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:52774338C>T	uc001sah.1	-	7	1281	c.1233G>A	c.(1231-1233)GAG>GAA	p.E411E		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	411	Rod.|Coil 2.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		GCTGCTCGGCCTCGGCCACTG	0.642											OREG0021848	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	24					0	0	1	0	0		T	52774338	T	T	52774338	2	4	122	1	0	0	0	0	0	0	0	1	8514	680	24	4		4	KRT84	12	52774338	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3083297	52774338	81077557	674	67677											
KRT77	374454	broad.mit.edu	37	chr12	53097189	53097189	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcctgctcattgaactaaaCgcggactgagaactaaattg	13	9	9	10	3	1	2	1	2	0	1	1	4	1	3	1	1	4	1	1	1	6	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:53097189C>T	uc001saw.2	-	1	59	c.30G>A	c.(28-30)GCG>GCA	p.A10A	KRT77_uc009zmi.2_5'UTR	NM_175078	NP_778253	Q7Z794	K2C1B_HUMAN	keratin 77	10	Head.					keratin filament	structural molecule activity			ovary(1)	1						TTGAACTAAACGCGGACTGAG	0.542													5	55					0	0	1	0	0		T	53097189	T	T	53097189	2	4	122	1	0	0	0	0	0	0	0	1	8506	523	19	1		1	KRT77	12	53097189	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	322851	53097189	80754706	675	67678											
HOXC8	3224	broad.mit.edu	37	chr12	54403113	54403113	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttctccaaatacaaagcCggcgagtccctggaaccggc	10	7	10	14	3	1	0	0	0	1	0	3	2	2	1	4	3	3	1	4	3	4	2	rs142847294	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:54403113C>T	uc001ser.2	+	1	224	c.45C>T	c.(43-45)GCC>GCT	p.A15A		NM_022658	NP_073149	P31273	HXC8_HUMAN	homeobox C8	15						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AATACAAAGCCGGCGAGTCCC	0.662													22	235					0	0	1	0	0		T	54403113	T	T	54403113	2	4	122	1	0	0	0	0	0	0	0	1	7332	639	23	1		1	HOXC8	12	54403113	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1305924	54403113	79448782	676	67679											
SMUG1	23583	broad.mit.edu	37	chr12	54577528	54577528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtagcgagtcacgtagttgCgatgtggctcccatgcatac	9	10	12	10	3	1	0	1	0	0	0	2	2	2	0	1	1	4	5	1	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:54577528C>T	uc001sff.1	-	3	326	c.197G>A	c.(196-198)CGC>CAC	p.R66H	SMUG1_uc001sfa.1_5'Flank|SMUG1_uc001sfe.1_Missense_Mutation_p.R66H|SMUG1_uc001sfg.1_Missense_Mutation_p.R66H|SMUG1_uc009znf.1_Missense_Mutation_p.R66H|SMUG1_uc001sfb.3_Missense_Mutation_p.R66H|SMUG1_uc001sfc.3_Missense_Mutation_p.R66H|SMUG1_uc001sfd.3_Missense_Mutation_p.R66H	NM_014311	NP_055126	Q53HV7	SMUG1_HUMAN	single-strand-selective monofunctional	66				Missing (in Ref. 3; BAC03670).	depyrimidination	nucleolus|nucleoplasm	DNA binding|protein binding|single-strand selective uracil DNA N-glycosylase activity				0						CACGTAGTTGCGATGTGGCTC	0.572								BER_DNA_glycosylases					9	46					0	0	1	0	0		T	54577528	T	T	54577528	3	4	122	1	0	0	0	0	1	0	0	0	14843	768	27	1	623	1	SMUG1	12	54577528	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	174415	54577528	79274367	677	67680											
ITGA5	3678	broad.mit.edu	37	chr12	54812875	54812875	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagcccccgaccctgggTggcggcggcagcagcagcaa	8	4	15	14	3	0	1	0	1	0	0	0	2	0	1	3	4	4	4	3	4	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:54812875T>C	uc001sga.2	-	1	176	c.108A>G	c.(106-108)CCA>CCG	p.P36P	ITGA5_uc010sow.1_RNA|ITGA5_uc009znp.1_RNA	NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	36					angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						CGACCCTGGGTGgcggcggca	0.592													4	27					0	0	1	0	0		C	54812875	C	C	54812875	2	2	122	1	0	0	0	0	0	0	0	1	7895	1683	59	3		3	ITGA5	12	54812875	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	235347	54812875	79039020	678	67681											
DCD	117159	broad.mit.edu	37	chr12	55039032	55039032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacagctttttttgctcCgtctaggcctttttctaggg	4	16	8	13	1	2	0	0	0	2	0	3	0	3	0	4	2	2	2	4	2	2	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:55039032C>T	uc001sgj.2	-	4	276	c.214G>A	c.(214-216)GGA>AGA	p.G72R	DCD_uc009znt.2_Missense_Mutation_p.G72R|DCD_uc009znu.2_RNA	NM_053283	NP_444513	P81605	DCD_HUMAN	dermcidin preproprotein	72					defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular region	protein binding			ovary(1)	1		Myeloproliferative disorder(1001;0.0255)				TTTTTTGCTCCGTCTAGGCCT	0.483													15	72					0	0	1	0	0		T	55039032	T	T	55039032	3	4	122	1	0	0	0	0	1	0	0	0	4286	661	23	1	126	1	DCD	12	55039032	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	226157	55039032	78812863	679	67682											
SUOX	6821	broad.mit.edu	37	chr12	56397746	56397746	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgaaggtcaacagccaGcggccctttaatgcagagcc	10	6	11	14	1	1	2	1	1	0	1	1	2	1	2	4	2	5	1	4	2	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:56397746G>A	uc001six.2	+	6	899	c.573G>A	c.(571-573)CAG>CAA	p.Q191Q	SUOX_uc001siy.2_Silent_p.Q191Q|SUOX_uc001siz.2_Silent_p.Q191Q|SUOX_uc001sja.2_Silent_p.Q191Q	NM_000456	NP_000447	P51687	SUOX_HUMAN	sulfite oxidase precursor	191	Molybdenum-pterin domain (By similarity).					mitochondrial intermembrane space	electron carrier activity|molybdenum ion binding|sulfite oxidase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.119)			TCAACAGCCAGCGGCCCTTTA	0.557													10	57					0	0	1	0	0		A	56397746	A	A	56397746	2	1	122	1	0	0	0	0	0	0	0	1	15420	962	34	2		2	SUOX	12	56397746	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1358714	56397746	77454149	680	67683											
MIP	4284	broad.mit.edu	37	chr12	56847487	56847487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagagcacgaactggagcGtcaggaagatctccactgtg	11	7	13	10	2	2	2	1	0	1	2	3	5	2	4	1	2	4	2	1	2	2	0	rs121917867		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:56847487G>A	uc001slh.2	-	2	445	c.413C>T	c.(412-414)ACG>ATG	p.T138M		NM_012064	NP_036196	P30301	MIP_HUMAN	major intrinsic protein of lens fiber	138	Helical; (By similarity).		T -> R (in ADC; progressive polymorphic and lamellar cataract; loss of activity).		response to stimulus|visual perception	gap junction|integral to plasma membrane	structural constituent of eye lens			skin(1)	1						GAACTGGAGCGTCAGGAAGAT	0.612													7	47					0	0	1	0	0		A	56847487	A	A	56847487	3	1	122	1	0	0	0	0	1	0	0	0	9609	1145	40	1	390	1	MIP	12	56847487	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	449741	56847487	77004408	681	67684											
LGR5	8549	broad.mit.edu	37	chr12	71978276	71978276	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaatcctcactttaaggAggatctggtgagcctgagaa	11	11	11	8	0	3	2	2	2	1	1	4	5	4	4	2	3	1	1	2	3	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:71978276A>G	uc001swl.2	+	18	2534	c.2486A>G	c.(2485-2487)GAG>GGG	p.E829G	LGR5_uc001swm.2_Missense_Mutation_p.E805G|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	829	Cytoplasmic (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						CACTTTAAGGAGGATCTGGTG	0.428													7	47					0	0	1	0	0		G	71978276	G	G	71978276	3	3	122	1	0	0	0	0	1	0	0	0	8773	304	11	3	2556	3	LGR5	12	71978276	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	15130789	71978276	61873619	682	67685											
LRRIQ1	84125	broad.mit.edu	37	chr12	85554467	85554467	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcaccaaagatggtacaGcccagaagagatggttactt	16	8	9	8	0	1	3	1	0	0	3	1	4	1	3	2	2	3	2	2	2	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:85554467G>A	uc001tac.2	+	24	4908	c.4797G>A	c.(4795-4797)CAG>CAA	p.Q1599Q		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1599										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		AGATGGTACAGCCCAGAAGAG	0.299													17	80					0	0	1	0	0		A	85554467	A	A	85554467	2	1	122	1	0	0	0	0	0	0	0	1	9047	962	34	2		2	LRRIQ1	12	85554467	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	13576191	85554467	48297428	683	67686											
C12orf50	160419	broad.mit.edu	37	chr12	88390245	88390245	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaaaatatctggaggagtAtgaaatctgtagtattcccc	14	11	9	7	0	2	1	0	1	2	0	3	4	3	3	2	2	0	3	2	2	7	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:88390245A>G	uc001tam.1	-	6	555	c.387T>C	c.(385-387)CAT>CAC	p.H129H	C12orf50_uc001tan.2_Silent_p.H183H	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	129										skin(2)|ovary(1)	3						CTGGAGGAGTATGAAATCTGT	0.318													7	62					0	0	1	0	0		G	88390245	G	G	88390245	2	3	122	1	0	0	0	0	0	0	0	1	1698	446	16	3		3	C12orf50	12	88390245	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2835778	88390245	45461650	684	67687											
ATP2B1	490	broad.mit.edu	37	chr12	89992959	89992959	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgccgcaactccctttcagCgtgatcaatctcttcaacat	10	11	5	15	3	4	1	3	1	1	0	6	1	5	1	2	0	3	1	2	0	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:89992959C>A	uc001tbh.2	-	19	3467	c.3286G>T	c.(3286-3288)GCT>TCT	p.A1096S	ATP2B1_uc001tbg.2_Missense_Mutation_p.A1096S|ATP2B1_uc009zsr.2_RNA|ATP2B1_uc001tbf.2_Missense_Mutation_p.A730S	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	1096	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						TCCCTTTCAGCGTGATCAATC	0.458													16	105					2.31682e-05	2.47803e-05	1	1	0		A	89992959	A	A	89992959	3	1	122	1	0	0	0	0	1	0	0	0	1140	768	27	5	542	5	ATP2B1	12	89992959	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1602714	89992959	43858936	685	67688											
EPYC	1833	broad.mit.edu	37	chr12	91365683	91365683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccttattttgttgtcaCgcaggacaagctctcgaagt	8	13	10	10	2	2	0	1	0	1	0	3	2	2	1	1	1	2	4	1	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:91365683C>T	uc001tbk.2	-	5	689	c.596G>A	c.(595-597)CGT>CAT	p.R199H		NM_004950	NP_004941	Q99645	EPYC_HUMAN	dermatan sulfate proteoglycan 3 precursor	199	LRR 3.				female pregnancy	proteinaceous extracellular matrix	glycosaminoglycan binding			skin(1)	1						TTTGTTGTCACGCAGGACAAG	0.383													5	26					0	0	1	0	0		T	91365683	T	T	91365683	3	4	122	1	0	0	0	0	1	0	0	0	5209	536	19	1	384	1	EPYC	12	91365683	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1372724	91365683	42486212	686	67689											
ELK3	2004	broad.mit.edu	37	chr12	96640801	96640801	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagatggatcctcacgcGgtggagatcagccgggagag	10	6	16	9	3	2	4	2	1	0	3	3	7	3	5	2	4	1	0	2	4	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:96640801G>A	uc001teo.1	+	3	570	c.291G>A	c.(289-291)GCG>GCA	p.A97A		NM_005230	NP_005221	P41970	ELK3_HUMAN	ELK3 protein	97					negative regulation of transcription, DNA-dependent|signal transduction	mitochondrion	protein binding|purine-rich negative regulatory element binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	all_cancers(2;0.00173)					ATCCTCACGCGGTGGAGATCA	0.562													10	44					0	0	1	0	0		A	96640801	A	A	96640801	2	1	122	1	0	0	0	0	0	0	0	1	5068	1103	39	1		1	ELK3	12	96640801	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	5275118	96640801	37211094	687	67690											
C12orf42	374470	broad.mit.edu	37	chr12	103696165	103696165	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccgacgggatttccggaCgcgcccaggagtctgctttg	5	11	13	12	5	1	0	0	0	1	0	3	4	3	3	3	3	1	1	3	3	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:103696165C>T	uc001tjt.2	-	6	892	c.804G>A	c.(802-804)GCG>GCA	p.A268A	C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Silent_p.A268A|C12orf42_uc001tju.2_Silent_p.A173A	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	268										ovary(1)|central_nervous_system(1)	2						GATTTCCGGACGCGCCCAGGA	0.667													20	114					0	0	1	0	0		T	103696165	T	T	103696165	2	4	122	1	0	0	0	0	0	0	0	1	1691	523	19	1		1	C12orf42	12	103696165	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	7055364	103696165	30155730	688	67691											
APPL2	55198	broad.mit.edu	37	chr12	105600917	105600917	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcgcgttgagggcacagtaGtactgaagggaggagaggtg	11	6	19	5	2	0	3	0	2	0	1	0	5	0	4	0	4	2	4	0	4	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:105600917G>T	uc001tlf.1	-	8	761	c.543C>A	c.(541-543)TAC>TAA	p.Y181*	APPL2_uc010swt.1_Nonsense_Mutation_p.Y138*|APPL2_uc001tlg.1_5'UTR|APPL2_uc010swu.1_Nonsense_Mutation_p.Y187*|APPL2_uc009zuq.2_Nonsense_Mutation_p.Y138*	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH	181	Required for RAB5A binding (By similarity).				cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1						GGGCACAGTAGTACTGAAGGG	0.557													16	92					4.75885e-15	5.55045e-15	1	1	0		T	105600917	T	T	105600917	4	4	122	1	0	0	0	0	0	1	0	0	818	1024	36	5	1507	5	APPL2	12	105600917	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1904752	105600917	28250978	689	67692											
WSCD2	9671	broad.mit.edu	37	chr12	108641980	108641980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaggatggcaacttcaagCgctcagggctccggaagctc	11	6	13	11	2	2	1	2	0	0	1	4	3	3	3	1	4	3	4	1	4	4	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:108641980C>T	uc001tms.2	+	9	2302	c.1558C>T	c.(1558-1560)CGC>TGC	p.R520C	WSCD2_uc001tmt.2_Missense_Mutation_p.R520C|WSCD2_uc001tmu.2_Missense_Mutation_p.R288C	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	520						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						CAACTTCAAGCGCTCAGGGCT	0.602													11	66					0	0	1	0	0		T	108641980	T	T	108641980	3	4	122	1	0	0	0	0	1	0	0	0	17433	768	27	1	1588	1	WSCD2	12	108641980	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3041063	108641980	25209915	690	67693											
KCTD10	83892	broad.mit.edu	37	chr12	109889606	109889606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctcataaatccgggcttCgggaaactccacctgtgttc	8	11	8	14	2	1	0	1	0	0	0	6	1	4	1	4	2	1	2	4	2	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:109889606C>T	uc001toi.1	-	7	824	c.736G>A	c.(736-738)GAA>AAA	p.E246K	KCTD10_uc001toh.1_RNA|KCTD10_uc009zvi.1_Missense_Mutation_p.E220K|KCTD10_uc001toj.1_Missense_Mutation_p.E255K|KCTD10_uc001tok.1_Missense_Mutation_p.E65K	NM_031954	NP_114160	Q9H3F6	BACD3_HUMAN	potassium channel tetramerisation domain	246					proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0						ATCCGGGCTTCGGGAAACTCC	0.592													8	35					0	0	1	0	0		T	109889606	T	T	109889606	3	4	122	1	0	0	0	0	1	0	0	0	8113	893	31	1	209	1	KCTD10	12	109889606	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1247626	109889606	23962289	691	67694											
MVK	4598	broad.mit.edu	37	chr12	110017685	110017685	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcttgcctgacgactgtgCtgtcaccgagcgcctggctg	5	9	14	13	3	1	1	1	1	0	0	1	3	1	1	3	2	3	3	3	2	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:110017685C>A	uc001toy.3	+	4	489	c.305C>A	c.(304-306)GCT>GAT	p.A102D	MVK_uc009zvk.2_Missense_Mutation_p.A102D|MVK_uc010sxr.1_Missense_Mutation_p.A102D|MVK_uc001toz.3_Intron|MVK_uc001tpc.3_RNA	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase	102					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0						GACGACTGTGCTGTCACCGAG	0.552													8	56					1.12685e-05	1.21283e-05	1	1	0		A	110017685	A	A	110017685	3	1	122	1	0	0	0	0	1	0	0	0	10013	797	28	5	315	5	MVK	12	110017685	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	128079	110017685	23834210	692	67695											
NAA25	80018	broad.mit.edu	37	chr12	112481496	112481496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagctgttgaaggagcaaaCgaagaatatcaatccgggag	15	6	12	8	2	1	2	1	1	0	1	2	5	2	4	2	2	3	3	2	2	6	2	rs116838734	by1000genomes	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:112481496C>T	uc001ttm.2	-	18	2203	c.2183G>A	c.(2182-2184)CGT>CAT	p.R728H	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Missense_Mutation_p.R700H|NAA25_uc009zwa.1_Missense_Mutation_p.R728H	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	728						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						AAGGAGCAAACGAAGAATATC	0.468													19	114					0	0	1	0	0		T	112481496	T	T	112481496	3	4	122	1	0	0	0	0	1	0	0	0	10139	536	19	1	763	1	NAA25	12	112481496	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2463811	112481496	21370399	693	67696											
C12orf51	283450	broad.mit.edu	37	chr12	112717172	112717172	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcagcatttttagaggcAgcccacagctagtatttgct	9	12	9	11	1	0	1	0	0	0	1	1	1	1	1	2	1	4	6	2	1	3	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:112717172A>G	uc009zwc.2	-	3	383	c.365T>C	c.(364-366)CTG>CCG	p.L122P		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TTTTAGAGGCAGCCCACAGCT	0.443													18	95					0	0	1	0	0		G	112717172	G	G	112717172	3	3	122	1	0	0	0	0	1	0	0	0	1699	188	7	3	11893	3	C12orf51	12	112717172	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	235676	112717172	21134723	694	67697											
DDX54	79039	broad.mit.edu	37	chr12	113603710	113603710	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcacatactgctgctgggcGttatcagcaacgcgggccag	8	7	13	13	4	1	0	1	0	0	0	1	0	1	0	1	2	5	5	1	2	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:113603710G>A	uc001tup.2	-	13	1570	c.1542C>T	c.(1540-1542)AAC>AAT	p.N514N	DDX54_uc001tuq.3_Silent_p.N514N	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	514					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						GCTGCTGGGCGTTATCAGCAA	0.667													14	66					0	0	1	0	0		A	113603710	A	A	113603710	2	1	122	1	0	0	0	0	0	0	0	1	4375	1136	40	1		1	DDX54	12	113603710	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	886538	113603710	20248185	695	67698											
LHX5	64211	broad.mit.edu	37	chr12	113906065	113906065	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggtggtgcgggggccgCgccgcttggtgcccgagttc	2	9	19	11	5	0	1	0	1	0	0	1	2	0	1	3	5	2	2	3	5	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:113906065C>A	uc001tvj.1	-	3	1116	c.542G>T	c.(541-543)CGC>CTC	p.R181L		NM_022363	NP_071758	Q9H2C1	LHX5_HUMAN	LIM homeobox protein 5	181	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCGGGGGCCGCGCCGCTTGGT	0.672													9	66					0.335167	0.335167	1	1	0		A	113906065	A	A	113906065	3	1	122	1	0	0	0	0	1	0	0	0	8790	768	27	5	678	5	LHX5	12	113906065	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	302355	113906065	19945830	696	67699											
TBX5	6910	broad.mit.edu	37	chr12	114841585	114841585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaggcggcctgcggggacGacggggacttgctgggggcc	5	5	21	10	4	0	1	0	1	0	0	0	4	0	3	2	8	2	1	2	8	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:114841585G>A	uc001tvo.2	-	2	614	c.119C>T	c.(118-120)TCG>TTG	p.S40L	TBX5_uc001tvp.2_Missense_Mutation_p.S40L|TBX5_uc001tvq.2_Intron|TBX5_uc010syv.1_Missense_Mutation_p.S40L	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	40				GFGLAHTPLEPDAKDLPCDSKPESALGAPSKSPSSPQAAFT QQ -> ALAGAHLWSLTQKTCLRFEPRARSGPPASPPGRPR SRLHPA (in Ref. 1; CAA70592).	cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		CTGCGGGGACGACGGGGACTT	0.647													15	99					0	0	1	0	0		A	114841585	A	A	114841585	3	1	122	1	0	0	0	0	1	0	0	0	15686	1059	37	1	1536	1	TBX5	12	114841585	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	935520	114841585	19010310	697	67700											
RNF34	80196	broad.mit.edu	37	chr12	121854119	121854119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacctacccaccagcagctaCggaagggcccaacatagttt	12	6	8	15	1	0	0	0	0	0	0	0	1	0	1	4	2	5	3	4	2	5	4	rs61760895		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:121854119C>T	uc001ual.1	+	2	278	c.164C>T	c.(163-165)ACG>ATG	p.T55M	RNF34_uc010szw.1_Missense_Mutation_p.T56M|RNF34_uc001uak.1_Missense_Mutation_p.T56M|RNF34_uc001uam.1_Missense_Mutation_p.T55M	NM_025126	NP_079402	Q969K3	RNF34_HUMAN	ring finger protein 34 isoform 2	55					apoptosis	endomembrane system|membrane|nuclear speck	ligase activity|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000432)|Epithelial(86;0.00233)		CCAGCAGCTACGGAAGGGCCC	0.483													18	207					0	0	1	0	0		T	121854119	T	T	121854119	3	4	122	1	0	0	0	0	1	0	0	0	13514	536	19	1	183	1	RNF34	12	121854119	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	7012534	121854119	11997776	698	67701											
LRRC43	254050	broad.mit.edu	37	chr12	122677438	122677438	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggaggagtcaggagagtcGgagctgtctgtcatctcggg	7	9	18	7	2	4	1	2	0	2	1	6	5	4	4	0	5	1	1	0	5	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:122677438G>A	uc009zxm.2	+	7	1261	c.1236G>A	c.(1234-1236)TCG>TCA	p.S412S	LRRC43_uc001ubw.3_Silent_p.S227S|LRRC43_uc009zxn.2_Silent_p.S173S	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	412	Glu-rich.										0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		CAGGAGAGTCGGAGCTGTCTG	0.562													9	60					0	0	1	0	0		A	122677438	A	A	122677438	2	1	122	1	0	0	0	0	0	0	0	1	9019	1103	39	1		1	LRRC43	12	122677438	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	823319	122677438	11174457	699	67702											
B3GNT4	79369	broad.mit.edu	37	chr12	122691022	122691022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaacaccccgtcacagccGgtgtccacccaaccacacag	11	3	6	21	2	1	0	1	0	0	0	2	0	2	0	7	1	3	0	7	1	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:122691022G>A	uc001ubx.2	+	3	442	c.224G>A	c.(223-225)CGG>CAG	p.R75Q	B3GNT4_uc001uby.2_Missense_Mutation_p.R50Q	NM_030765	NP_110392	Q9C0J1	B3GN4_HUMAN	UDP-GlcNAc:betaGal	75	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000297)|Epithelial(86;0.000497)|BRCA - Breast invasive adenocarcinoma(302;0.222)		CGTCACAGCCGGTGTCCACCC	0.617													31	241					0	0	1	0	0		A	122691022	A	A	122691022	3	1	122	1	0	0	0	0	1	0	0	0	1260	1116	39	1	230	1	B3GNT4	12	122691022	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	13584	122691022	11160873	700	67703											
GPR109A	338442	broad.mit.edu	37	chr12	123187448	123187448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggtggggatggaccaccCggaaatacctgtctaccgcc	8	7	13	13	3	1	0	0	0	1	0	1	3	1	3	5	5	2	0	5	5	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:123187448C>T	uc001ucx.1	-	1	457	c.383G>A	c.(382-384)CGG>CAG	p.R128Q	GPR81_uc001ucw.1_Intron	NM_177551	NP_808219	Q8TDS4	HCAR2_HUMAN	G protein-coupled receptor 109A	128	Cytoplasmic (Potential).				negative regulation of lipid catabolic process|neutrophil apoptosis|positive regulation of adiponectin secretion|positive regulation of neutrophil apoptosis	integral to membrane|plasma membrane	nicotinic acid receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	ATGGACCACCCGGAAATACCT	0.567													16	107					0	0	1	0	0		T	123187448	T	T	123187448	3	4	122	1	0	0	0	0	1	0	0	0	6640	652	23	1	712	1	GPR109A	12	123187448	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	496426	123187448	10664447	701	67704											
DNAH10	196385	broad.mit.edu	37	chr12	124343781	124343781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagagggggcaagtccGtcgtcattaacactctgtgt	9	9	11	12	2	2	1	1	0	1	1	4	1	3	1	3	2	1	1	3	2	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:124343781G>A	uc001uft.3	+	37	6386	c.6361G>A	c.(6361-6363)GTC>ATC	p.V2121I		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2121	AAA 2 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GGGCAAGTCCGTCGTCATTAA	0.562													3	29					0	0	1	0	0		A	124343781	A	A	124343781	3	1	122	1	0	0	0	0	1	0	0	0	4604	1145	40	1	6507	1	DNAH10	12	124343781	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1156333	124343781	9508114	702	67705											
AACS	65985	broad.mit.edu	37	chr12	125591695	125591695	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggatgactttcttgccaccGgcaccagtgagcaggccccg	7	8	12	14	2	1	2	0	2	1	0	1	3	1	3	5	3	2	2	5	3	0	2	rs139116253		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:125591695G>T	uc001uhc.2	+	8	1002	c.796G>T	c.(796-798)GGC>TGC	p.G266C	AACS_uc009zyg.2_RNA|AACS_uc001uhd.2_Missense_Mutation_p.G266C|AACS_uc009zyh.2_RNA|AACS_uc009zyi.2_5'UTR	NM_023928	NP_076417	Q86V21	AACS_HUMAN	acetoacetyl-CoA synthetase	266					fatty acid metabolic process	cytosol	acetoacetate-CoA ligase activity|ATP binding			ovary(1)|liver(1)|central_nervous_system(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;9.82e-05)|Epithelial(86;0.000642)|all cancers(50;0.00843)		TCTTGCCACCGGCACCAGTGA	0.607													13	79					6.72482e-11	7.6718e-11	1	1	0		T	125591695	T	T	125591695	3	4	122	1	0	0	0	0	1	0	0	0	9	1116	39	5	826	5	AACS	12	125591695	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1247914	125591695	8260200	703	67706											
TMEM132D	121256	broad.mit.edu	37	chr12	129566363	129566363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccgccttgcagcttggCgatcctgggctcctccacct	3	11	10	17	2	0	0	0	0	0	0	4	1	4	0	6	2	2	3	6	2	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:129566363C>T	uc009zyl.1	-	7	2192	c.1864G>A	c.(1864-1866)GCC>ACC	p.A622T	TMEM132D_uc001uia.2_Missense_Mutation_p.A160T	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	622	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TGCAGCTTGGCGATCCTGGGC	0.542													9	53					0	0	1	0	0		T	129566363	T	T	129566363	3	4	122	1	0	0	0	0	1	0	0	0	16072	768	27	1	1447	1	TMEM132D	12	129566363	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3974668	129566363	4285532	704	67707											
SFRS8	6433	broad.mit.edu	37	chr12	132241151	132241151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcgggaagaaggaggcatCgtccagtaagaccgtcccgg	11	4	16	10	4	0	2	0	0	0	2	3	4	2	4	3	5	0	2	3	5	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr12:132241151C>T	uc001uja.1	+	11	1822	c.1682C>T	c.(1681-1683)TCG>TTG	p.S561L	SFRS8_uc010tbn.1_Missense_Mutation_p.S561L|SFRS8_uc001ujb.1_Missense_Mutation_p.S354L	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	561					mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		AAGGAGGCATCGTCCAGTAAG	0.607													6	33					0	0	1	0	0		T	132241151	T	T	132241151	3	4	122	1	0	0	0	0	1	0	0	0	14208	893	31	1	1724	1	SFRS8	12	132241151	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2674788	132241151	1610744	705	67708											
XPO4	64328	broad.mit.edu	37	chr13	21429828	21429828	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaatgcttttgcagtcaaTtgatttatctaatgatcctc	13	16	5	7	0	2	2	1	2	1	0	4	2	3	2	1	0	2	2	1	0	5	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:21429828T>C	uc001unq.3	-	4	430	c.394A>G	c.(394-396)ATT>GTT	p.I132V	XPO4_uc010tcr.1_Missense_Mutation_p.I58V	NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	132					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		TTGCAGTCAATTGATTTATCT	0.318													12	71					0	0	1	0	0		C	21429828	C	C	21429828	3	2	122	1	0	0	0	0	1	0	0	0	17472	1493	52	3	3141	3	XPO4	13	21429828	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08		21429828	93740050	706	67709											
RNF17	56163	broad.mit.edu	37	chr13	25367209	25367209	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagaaaatgaaattagacAgaatgttcaaaagaaatata	23	8	6	4	0	1	5	1	1	0	4	1	5	1	5	1	0	0	1	1	0	11	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:25367209A>G	uc001upr.2	+	10	1006	c.965A>G	c.(964-966)CAG>CGG	p.Q322R	RNF17_uc010tdd.1_Missense_Mutation_p.Q181R|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.Q322R|RNF17_uc001ups.2_Missense_Mutation_p.Q261R|RNF17_uc001upq.1_Missense_Mutation_p.Q322R	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	322					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding	p.Q322Q(1)		ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		GAAATTAGACAGAATGTTCAA	0.308													10	71					0	0	1	0	0		G	25367209	G	G	25367209	3	3	122	1	0	0	0	0	1	0	0	0	13486	188	7	3	1003	3	RNF17	13	25367209	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	3937381	25367209	89802669	707	67710											
NUPL1	9818	broad.mit.edu	37	chr13	25914139	25914139	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacatctgggtttaacttcaGcaatcctggcatcacggcat	10	12	8	11	1	3	0	2	0	1	0	4	0	4	0	1	3	3	4	1	3	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:25914139G>T	uc001uqi.2	+	16	1913	c.1667G>T	c.(1666-1668)AGC>ATC	p.S556I	NUPL1_uc001uqj.2_Missense_Mutation_p.S544I	NM_014089	NP_054808	Q9BVL2	NUPL1_HUMAN	nucleoporin like 1 isoform a	556	14 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore					0		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.0092)|Epithelial(112;0.0477)|OV - Ovarian serous cystadenocarcinoma(117;0.165)|GBM - Glioblastoma multiforme(144;0.244)		TTTAACTTCAGCAATCCTGGC	0.408													25	173					3.73148e-12	4.30196e-12	1	1	0		T	25914139	T	T	25914139	3	4	122	1	0	0	0	0	1	0	0	0	10793	971	34	5	1729	5	NUPL1	13	25914139	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	546930	25914139	89255739	708	67711											
FLT1	2321	broad.mit.edu	37	chr13	28913392	28913392	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atccaaaggaacttcatctgGgtccattataattgataggt	13	13	8	7	0	2	1	1	1	1	0	4	2	4	2	2	3	1	0	2	3	5	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:28913392G>T	uc001usb.3	-	17	2686	c.2401C>A	c.(2401-2403)CCA>ACA	p.P801T	FLT1_uc001usa.3_Missense_Mutation_p.P19T	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	801	Cytoplasmic (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	ACTTCATCTGGGTCCATTATA	0.408													4	41					0.000602214	0.00062842	1	1	0		T	28913392	T	T	28913392	3	4	122	1	0	0	0	0	1	0	0	0	5955	1232	43	5	1671	5	FLT1	13	28913392	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2999253	28913392	86256486	709	67712											
FRY	10129	broad.mit.edu	37	chr13	32747633	32747633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggccacacgcaaactgtccGttttaatactcaaggaaatt	13	11	7	10	2	1	0	1	0	0	0	2	1	2	1	2	2	2	2	2	2	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:32747633G>A	uc001utx.2	+	19	2777	c.2281G>A	c.(2281-2283)GTT>ATT	p.V761I	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	761					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CAAACTGTCCGTTTTAATACT	0.463													14	117					0	0	1	0	0		A	32747633	A	A	32747633	3	1	122	1	0	0	0	0	1	0	0	0	6077	1145	40	1	2355	1	FRY	13	32747633	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3834241	32747633	82422245	710	67713											
NBEA	26960	broad.mit.edu	37	chr13	35685067	35685067	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccttaaaatattactacTgggttattaatcctgctgac	13	14	5	9	0	0	1	0	1	0	0	1	1	1	1	2	1	3	2	2	1	7	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:35685067T>C	uc001uvb.2	+	14	2160	c.1954T>C	c.(1954-1956)TGG>CGG	p.W652R		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	652						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		ATATTACTACTGGGTTATTAA	0.363													6	45					0	0	1	0	0		C	35685067	C	C	35685067	3	2	122	1	0	0	0	0	1	0	0	0	10205	1580	55	3	2004	3	NBEA	13	35685067	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	2937434	35685067	79484811	711	67714											
DNAJC15	29103	broad.mit.edu	37	chr13	43659911	43659911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctttttacagcccatctGctggcaaggctaagattaga	10	14	8	9	0	2	2	0	0	2	2	2	2	2	2	1	2	3	3	1	2	4	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:43659911G>A	uc001uyy.2	+	5	720	c.319G>A	c.(319-321)GCT>ACT	p.A107T		NM_013238	NP_037370	Q9Y5T4	DJC15_HUMAN	DNAJ domain-containing	107	J.					integral to membrane	heat shock protein binding				0		Lung NSC(96;4.3e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0737)		CAGCCCATCTGCTGGCAAGGC	0.308													10	62					0	0	1	0	0		A	43659911	A	A	43659911	3	1	122	1	0	0	0	0	1	0	0	0	4640	1319	46	2	337	2	DNAJC15	13	43659911	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	7974844	43659911	71509967	712	67715											
SERP2	387923	broad.mit.edu	37	chr13	44948177	44948177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagccatggtggccaaacagCggatccggatggctaacgag	12	5	14	10	3	0	0	0	0	0	0	1	3	1	2	3	5	4	1	3	5	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:44948177C>T	uc001uzj.2	+	1	200	c.16C>T	c.(16-18)CGG>TGG	p.R6W	SERP2_uc001uzk.2_RNA	NM_001010897	NP_001010897	Q8N6R1	SERP2_HUMAN	stress-associated endoplasmic reticulum protein	6	Cytoplasmic (Potential).				protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane					0		all_hematologic(4;1.49e-06)|Acute lymphoblastic leukemia(4;1.5e-06)|Lung NSC(96;0.00043)|Breast(139;0.0044)|Prostate(109;0.0137)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)		GBM - Glioblastoma multiforme(144;0.00026)|BRCA - Breast invasive adenocarcinoma(63;0.123)		GGCCAAACAGCGGATCCGGAT	0.637													6	21					0	0	1	0	0		T	44948177	T	T	44948177	3	4	122	1	0	0	0	0	1	0	0	0	14110	759	27	1	18	1	SERP2	13	44948177	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1288266	44948177	70221701	713	67716											
SPERT	220082	broad.mit.edu	37	chr13	46287535	46287535	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgggtgcagctcagcgaCgagatgttcgtgttccagga	7	8	15	11	5	1	1	1	0	0	1	3	4	2	2	2	2	3	4	2	2	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:46287535C>T	uc001van.1	+	3	455	c.375C>T	c.(373-375)GAC>GAT	p.D125D	SPERT_uc001vao.2_Silent_p.D89D	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	125						cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		AGCTCAGCGACGAGATGTTCG	0.632													14	108					0	0	1	0	0		T	46287535	T	T	46287535	2	4	122	1	0	0	0	0	0	0	0	1	15064	535	19	1		1	SPERT	13	46287535	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1339358	46287535	68882343	714	67717											
SIAH3	283514	broad.mit.edu	37	chr13	46425671	46425671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgacacagacaagttgccCggcagcggagaaaacccgtt	13	4	12	12	4	0	2	0	0	0	2	0	5	0	2	2	2	3	3	2	2	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:46425671C>T	uc001vap.2	-	1	176	c.94G>A	c.(94-96)GGG>AGG	p.G32R		NM_198849	NP_942146	Q8IW03	SIAH3_HUMAN	seven in absentia homolog 3	32					multicellular organismal development|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding			ovary(1)|skin(1)	2						ACAAGTTGCCCGGCAGCGGAG	0.498													19	112					0	0	1	0	0		T	46425671	T	T	46425671	3	4	122	1	0	0	0	0	1	0	0	0	14326	652	23	1	723	1	SIAH3	13	46425671	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	138136	46425671	68744207	715	67718											
PHF11	51131	broad.mit.edu	37	chr13	50097316	50097316	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gattttctctcctagccaccCgaaacaatgaaatgtaatac	14	11	5	11	1	1	1	0	1	1	0	3	3	2	1	3	0	3	1	3	0	6	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:50097316C>T	uc001vdb.2	+	7	913	c.576C>T	c.(574-576)CCC>CCT	p.P192P	PHF11_uc001vdc.2_Silent_p.P153P|PHF11_uc001vdd.2_RNA	NM_001040443	NP_001035533	Q9UIL8	PHF11_HUMAN	PHD finger protein 11 isoform a	192					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding				0		Lung NSC(96;2.1e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.38e-09)		CCTAGCCACCCGAAACAATGA	0.358													5	47					0	0	1	0	0		T	50097316	T	T	50097316	2	4	122	1	0	0	0	0	0	0	0	1	11841	639	23	1		1	PHF11	13	50097316	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3671645	50097316	65072562	716	67719											
LMO7	4008	broad.mit.edu	37	chr13	76407186	76407186	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtttcatgttttgttttcaGgatcagttcagtgatatgag	8	18	10	5	1	4	2	4	2	0	0	4	3	4	3	0	1	0	4	0	1	1	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:76407186G>T	uc001vjv.2	+	13	3011	c.2251_splice	c.e13-1	p.D751_splice	LMO7_uc010thv.1_Splice_Site_p.D702_splice|LMO7_uc001vjt.1_Splice_Site_p.D650_splice|LMO7_uc010thw.1_Splice_Site_p.D601_splice|LMO7_uc001vjw.1_Splice_Site_p.D657_splice	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2							cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		TTTGTTTTCAGGATCAGTTCA	0.463													9	68					3.09899e-07	3.41829e-07	1	1	0		T	76407186	T	T	76407186	5	4	122	1	0	0	0	0	0	0	1	0	8872	1014	35	5	3171	5	LMO7	13	76407186	Splice_Site	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	26309870	76407186	38762692	717	67720											
MYCBP2	23077	broad.mit.edu	37	chr13	77672621	77672621	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccgtcctctcaaaggttCtgtgaggggcattttcttct	6	15	10	10	1	4	2	1	2	4	0	6	2	5	2	2	3	0	2	2	3	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:77672621C>A	uc001vkf.2	-	57	8645	c.8554G>T	c.(8554-8556)GAA>TAA	p.E2852*	MYCBP2_uc010aev.2_Nonsense_Mutation_p.E2256*|MYCBP2_uc001vkg.1_Nonsense_Mutation_p.E375*|MYCBP2_uc010aew.2_Nonsense_Mutation_p.E238*	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2852					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CTCAAAGGTTCTGTGAGGGGC	0.463													7	92					0.0293803	0.0298029	1	1	0		A	77672621	A	A	77672621	4	1	122	1	0	0	0	0	0	1	0	0	10036	922	32	5	5480	5	MYCBP2	13	77672621	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1265435	77672621	37497257	718	67721											
OXGR1	27199	broad.mit.edu	37	chr13	97639036	97639036	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taactaattttctttgcttgCtcaaggttcccgcttacttt	7	19	5	10	1	2	0	1	0	1	0	3	0	3	0	1	1	4	4	1	1	4	9			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:97639036C>T	uc001vmx.1	-	4	1222	c.978G>A	c.(976-978)GAG>GAA	p.E326E	OXGR1_uc010afr.1_Silent_p.E326E	NM_080818	NP_543008	Q96P68	OXGR1_HUMAN	oxoglutarate (alpha-ketoglutarate) receptor 1	326	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.186)			TCTTTGCTTGCTCAAGGTTCC	0.388													13	113					0	0	1	0	0		T	97639036	T	T	97639036	2	4	122	1	0	0	0	0	0	0	0	1	11351	796	28	2		2	OXGR1	13	97639036	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	19966415	97639036	17530842	719	67722											
ZIC2	7546	broad.mit.edu	37	chr13	100634965	100634965	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actccacaaccagtacggccCcatgaatatgaacatgggta	14	7	8	12	1	0	2	0	2	0	0	1	2	1	2	4	2	3	2	4	2	6	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:100634965C>A	uc001von.2	+	1	647	c.647C>A	c.(646-648)CCC>CAC	p.P216H		NM_007129	NP_009060	O95409	ZIC2_HUMAN	zinc finger protein of the cerebellum 2	216	Necessary for interaction with MDFIC and transcriptional activation or repression (By similarity).				brain development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|visual perception	cytoplasm|nucleus	chromatin DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CAGTACGGCCCCATGAATATG	0.557													4	37					0.00909568	0.00928937	1	1	0		A	100634965	A	A	100634965	3	1	122	1	0	0	0	0	1	0	0	0	17704	623	22	5	649	5	ZIC2	13	100634965	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2995929	100634965	14534913	720	67723											
TPP2	7174	broad.mit.edu	37	chr13	103328732	103328732	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actaaacttgtggaagaaaaAccaacaaaagaaaactggaa	23	5	7	6	0	0	2	0	0	0	2	0	4	0	4	1	2	4	0	1	2	11	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:103328732A>C	uc001vpi.3	+	28	3730	c.3627A>C	c.(3625-3627)AAA>AAC	p.K1209N		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	1209					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TGGAAGAAAAACCAACAAAAG	0.294													11	68					0	0	1	0	0		C	103328732	C	C	103328732	3	2	122	1	0	0	0	0	1	0	0	0	16438	40	2	5	3737	5	TPP2	13	103328732	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2693767	103328732	11841146	721	67724											
ING1	3621	broad.mit.edu	37	chr13	111371952	111371952	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccacgaccacgacgacggCgcctcgggcacacccaagga	12	1	11	17	6	0	0	0	0	0	0	1	4	0	1	4	3	1	1	4	3	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:111371952C>T	uc001vri.2	+	2	1374	c.942C>T	c.(940-942)GGC>GGT	p.G314G	ING1_uc001vrf.2_Silent_p.G127G|ING1_uc001vrg.2_Silent_p.G102G|ING1_uc001vrh.2_Silent_p.G171G	NM_005537	NP_005528	Q9UK53	ING1_HUMAN	inhibitor of growth family, member 1 isoform D	314					cell cycle|negative regulation of cell growth|negative regulation of cell proliferation	nucleus	zinc ion binding			ovary(1)	1	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.188)			ACGACGACGGCGCCTCGGGCA	0.657													7	37					0	0	1	0	0		T	111371952	T	T	111371952	2	4	122	1	0	0	0	0	0	0	0	1	7751	755	27	1		1	ING1	13	111371952	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	8043220	111371952	3797926	722	67725											
ATP11A	23250	broad.mit.edu	37	chr13	113508592	113508592	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttggttttgcctccctcaGgctgcaggagaaagctgcag	7	11	13	10	0	1	1	1	0	0	1	2	2	2	1	2	3	4	6	2	3	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:113508592G>T	uc001vsi.3	+	19	2080	c.1992_splice	c.e19-1	p.R664_splice	ATP11A_uc001vsj.3_Splice_Site_p.R664_splice|ATP11A_uc001vsm.1_Splice_Site_p.R540_splice|ATP11A_uc010ago.2_Splice_Site	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a						ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				GCCTCCCTCAGGCTGCAGGAG	0.532													12	68					4.3838e-07	4.81776e-07	1	1	0		T	113508592	T	T	113508592	5	4	122	1	0	0	0	0	0	0	1	0	1120	1014	35	5	2065	5	ATP11A	13	113508592	Splice_Site	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2136640	113508592	1661286	723	67726											
ATP4B	496	broad.mit.edu	37	chr13	114304805	114304805	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgacctgcagcggctggccGagctcgcggggctggtcctg	3	8	17	13	4	0	1	0	1	0	0	2	2	1	1	3	5	3	4	3	5	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr13:114304805G>A	uc001vtz.2	-	6	672	c.630C>T	c.(628-630)CTC>CTT	p.L210L		NM_000705	NP_000696	P51164	ATP4B_HUMAN	hydrogen/potassium-exchanging ATPase 4B	210	Extracellular (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	hydrogen:potassium-exchanging ATPase activity|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.00696)|all_epithelial(44;0.00347)|all_lung(25;0.0221)|Breast(118;0.0411)|Lung NSC(25;0.0839)	all cancers(43;0.171)		Rabeprazole(DB01129)	GCGGCTGGCCGAGCTCGCGGG	0.612													11	76					0	0	1	0	0		A	114304805	A	A	114304805	2	1	122	1	0	0	0	0	0	0	0	1	1147	1045	37	1		1	ATP4B	13	114304805	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	796213	114304805	865073	724	67727											
RPGRIP1	57096	broad.mit.edu	37	chr14	21811292	21811292	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaacaggtgtatgtggagtAcaaattctacgacctaccct	14	10	8	9	1	1	0	0	0	1	0	1	2	1	1	2	2	4	2	2	2	7	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:21811292A>G	uc001wag.2	+	21	3437	c.3437A>G	c.(3436-3438)TAC>TGC	p.Y1146C	RPGRIP1_uc001wah.2_Missense_Mutation_p.Y788C|RPGRIP1_uc001wai.2_Missense_Mutation_p.Y472C|RPGRIP1_uc001wak.2_Missense_Mutation_p.Y621C|RPGRIP1_uc010aim.2_Missense_Mutation_p.Y529C|RPGRIP1_uc001wal.2_Missense_Mutation_p.Y505C|RPGRIP1_uc001wam.2_Missense_Mutation_p.Y463C	NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	1146	Interaction with RPGR.				response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		TATGTGGAGTACAAATTCTAC	0.473													15	90					0	0	1	0	0		G	21811292	G	G	21811292	3	3	122	1	0	0	0	0	1	0	0	0	13574	391	14	3	3519	3	RPGRIP1	14	21811292	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08		21811292	85538248	725	67728											
LRP10	26020	broad.mit.edu	37	chr14	23342624	23342624	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactgcacctggctcatcCtgggcagcaaggaacagact	11	6	10	14	0	1	1	1	0	0	1	2	2	2	2	3	3	4	4	3	3	3	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:23342624C>A	uc001whd.2	+	3	737	c.184C>A	c.(184-186)CTG>ATG	p.L62M	LRP10_uc001whe.2_5'Flank	NM_014045	NP_054764	Q7Z4F1	LRP10_HUMAN	low density lipoprotein receptor-related protein	62	CUB 1.|Extracellular (Potential).				endocytosis	coated pit|integral to membrane				central_nervous_system(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.00549)		CTGGCTCATCCTGGGCAGCAA	0.592													9	50					1.58986e-06	1.73611e-06	1	1	0		A	23342624	A	A	23342624	3	1	122	1	0	0	0	0	1	0	0	0	8970	680	24	5	194	5	LRP10	14	23342624	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1531332	23342624	84006916	726	67729											
PRMT5	10419	broad.mit.edu	37	chr14	23393383	23393383	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccattcttcaaactgccaGttctctagcctgaaacagag	11	10	6	14	0	3	2	1	1	2	1	4	2	3	2	4	0	4	1	4	0	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:23393383G>A	uc001whm.1	-	12	1300	c.1209C>T	c.(1207-1209)AAC>AAT	p.N403N	PRMT5_uc001whl.1_Silent_p.N386N|PRMT5_uc010akd.1_RNA|PRMT5_uc010tnf.1_Silent_p.N297N|PRMT5_uc010tng.1_Silent_p.N342N|PRMT5_uc010tnh.1_Silent_p.N359N|PRMT5_uc001whn.1_Silent_p.N232N	NM_006109	NP_006100	O14744	ANM5_HUMAN	protein arginine methyltransferase 5 isoform a	403					cell proliferation|histone H4-R3 methylation|ncRNA metabolic process|regulation of mitosis|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	histone-arginine N-methyltransferase activity|protein binding|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding			ovary(1)	1	all_cancers(95;2.76e-05)			GBM - Glioblastoma multiforme(265;0.0126)		CAAACTGCCAGTTCTCTAGCC	0.473													14	64					0	0	1	0	0		A	23393383	A	A	23393383	2	1	122	1	0	0	0	0	0	0	0	1	12561	1020	36	4		4	PRMT5	14	23393383	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	50759	23393383	83956157	727	67730											
MYH6	4624	broad.mit.edu	37	chr14	23853688	23853688	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgcgccgctcgctcttcCtcatgcccttcaccgactct	4	12	7	18	4	4	1	2	1	2	0	6	2	5	1	4	0	2	2	4	0	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:23853688C>A	uc001wjv.2	-	36	5595	c.5528G>T	c.(5527-5529)AGG>ATG	p.R1843M		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1843	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CTCGCTCTTCCTCATGCCCTT	0.642													34	247					4.32679e-17	5.07615e-17	1	1	0		A	23853688	A	A	23853688	3	1	122	1	0	0	0	0	1	0	0	0	10056	681	24	5	307	5	MYH6	14	23853688	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	460305	23853688	83495852	728	67731											
MYH6	4624	broad.mit.edu	37	chr14	23862141	23862141	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttaagcttttcttccagCtgcagtttatcattttccag	7	19	5	10	0	3	0	1	0	2	0	5	0	5	0	2	0	3	4	2	0	2	9			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:23862141C>T	uc001wjv.2	-	24	3298	c.3231G>A	c.(3229-3231)CAG>CAA	p.Q1077Q		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1077	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TTTCTTCCAGCTGCAGTTTAT	0.557													16	86					0	0	1	0	0		T	23862141	T	T	23862141	2	4	122	1	0	0	0	0	0	0	0	1	10056	796	28	2		2	MYH6	14	23862141	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	8453	23862141	83487399	729	67732											
TM9SF1	10548	broad.mit.edu	37	chr14	24664130	24664130	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggccttgtagtgtgtcacGccttccacccctggcccatg	4	10	10	17	2	1	0	1	0	0	0	2	0	2	0	7	2	0	1	7	2	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:24664130G>A	uc001wnb.1	-	2	444	c.96C>T	c.(94-96)GGC>GGT	p.G32G	TM9SF1_uc010toa.1_Intron|TM9SF1_uc001wna.1_RNA|TM9SF1_uc010tob.1_Silent_p.G267G|TM9SF1_uc001wnc.2_Silent_p.G32G|TM9SF1_uc001wnd.2_5'Flank	NM_006405	NP_006396	O15321	TM9S1_HUMAN	transmembrane 9 superfamily member 1 isoform a	32					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0183)		AGTGTGTCACGCCTTCCACCC	0.537													21	202					0	0	1	0	0		A	24664130	A	A	24664130	2	1	122	1	0	0	0	0	0	0	0	1	16002	1074	38	1		1	TM9SF1	14	24664130	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	801989	24664130	82685410	730	67733											
ADCY4	196883	broad.mit.edu	37	chr14	24795334	24795334	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaacttggcatccccggTgtccagttcatcatctagtc	9	11	9	12	1	3	1	2	0	1	1	6	2	5	1	3	2	1	2	3	2	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:24795334T>C	uc001wov.2	-	12	1612	c.1606A>G	c.(1606-1608)ACC>GCC	p.T536A	ADCY4_uc001wow.2_Missense_Mutation_p.T536A|ADCY4_uc010toh.1_Missense_Mutation_p.T222A|ADCY4_uc001wox.2_Missense_Mutation_p.T536A|ADCY4_uc001woy.2_Missense_Mutation_p.T536A	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	536	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		GCATCCCCGGTGTCCAGTTCA	0.597													13	50					0	0	1	0	0		C	24795334	C	C	24795334	3	2	122	1	0	0	0	0	1	0	0	0	296	1696	59	3	1683	3	ADCY4	14	24795334	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	131204	24795334	82554206	731	67734											
NFATC4	4776	broad.mit.edu	37	chr14	24846034	24846034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaatccaggggtggctacaGcagcggcttccgagacagtg	10	6	15	10	2	0	1	0	0	0	1	2	3	2	1	2	4	3	3	2	4	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:24846034G>A	uc001wpc.2	+	9	2912	c.2591G>A	c.(2590-2592)AGC>AAC	p.S864N	NFATC4_uc010tok.1_Missense_Mutation_p.S927N|NFATC4_uc010tol.1_Missense_Mutation_p.S927N|NFATC4_uc010alr.2_Intron|NFATC4_uc010tom.1_Missense_Mutation_p.S877N|NFATC4_uc010ton.1_Missense_Mutation_p.S877N|NFATC4_uc010too.1_Intron|NFATC4_uc010alt.2_Missense_Mutation_p.S896N|NFATC4_uc010top.1_Missense_Mutation_p.S896N|NFATC4_uc010toq.1_Intron|NFATC4_uc010tor.1_Intron|NFATC4_uc010tos.1_Missense_Mutation_p.S794N|NFATC4_uc010tot.1_Missense_Mutation_p.S852N|NFATC4_uc010tou.1_Missense_Mutation_p.S794N|NFATC4_uc010tov.1_Intron|NFATC4_uc010tow.1_Intron|NFATC4_uc010alv.2_Missense_Mutation_p.S852N|NFATC4_uc010tox.1_Missense_Mutation_p.S794N|NFATC4_uc001wpd.2_Missense_Mutation_p.S399N|NFATC4_uc010toy.1_Intron|NFATC4_uc010toz.1_Missense_Mutation_p.S399N|NFATC4_uc010tpa.1_Missense_Mutation_p.S152N|NFATC4_uc010tpb.1_Missense_Mutation_p.S152N	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	864					cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		GGTGGCTACAGCAGCGGCTTC	0.602													7	59					0	0	1	0	0		A	24846034	A	A	24846034	3	1	122	1	0	0	0	0	1	0	0	0	10384	971	34	2	2818	2	NFATC4	14	24846034	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	50700	24846034	82503506	732	67735											
NID2	22795	broad.mit.edu	37	chr14	52496277	52496277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcttacccacacagttccGtccatctccctggtacccag	7	10	6	18	1	2	0	0	0	2	0	5	0	4	0	5	1	2	3	5	1	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:52496277G>A	uc001wzo.2	-	10	2623	c.2389C>T	c.(2389-2391)CGG>TGG	p.R797W	NID2_uc010tqs.1_Missense_Mutation_p.R797W|NID2_uc010tqt.1_Missense_Mutation_p.R797W|NID2_uc001wzp.2_Missense_Mutation_p.R797W	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	797	EGF-like 2.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					ACACAGTTCCGTCCATCTCCC	0.522													12	138					0	0	1	0	0		A	52496277	A	A	52496277	3	1	122	1	0	0	0	0	1	0	0	0	10434	1144	40	1	1790	1	NID2	14	52496277	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	27650243	52496277	54853263	733	67736											
RHOJ	57381	broad.mit.edu	37	chr14	63749933	63749933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgtgaagctcgcaaaagCggtacagtcagatttgaatt	12	11	12	6	2	1	3	1	2	0	1	2	3	1	3	0	2	3	3	0	2	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:63749933C>T	uc001xgb.1	+	4	940	c.497C>T	c.(496-498)GCG>GTG	p.A166V		NM_020663	NP_065714	Q9H4E5	RHOJ_HUMAN	ras homolog gene family, member J precursor	166					actin cytoskeleton organization|regulation of cell shape|regulation of small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.00326)|all cancers(60;0.031)|BRCA - Breast invasive adenocarcinoma(234;0.119)		CTCGCAAAAGCGGTACAGTCA	0.423													9	44					0	0	1	0	0		T	63749933	T	T	63749933	3	4	122	1	0	0	0	0	1	0	0	0	13366	782	27	1	511	1	RHOJ	14	63749933	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	11253656	63749933	43599607	734	67737											
ACTN1	87	broad.mit.edu	37	chr14	69341670	69341670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgtagggggccatccgcGcgatgcagtactcagcctgg	6	7	16	12	4	1	0	1	0	0	0	2	1	2	0	3	4	3	3	3	4	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:69341670G>A	uc001xkl.2	-	21	2895	c.2585C>T	c.(2584-2586)GCG>GTG	p.A862V	ACTN1_uc001xkk.2_Missense_Mutation_p.A458V|ACTN1_uc010ttb.1_Missense_Mutation_p.A792V|ACTN1_uc001xkm.2_Missense_Mutation_p.A884V|ACTN1_uc001xkn.2_Missense_Mutation_p.A857V	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	862					focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		GGCCATCCGCGCGATGCAGTA	0.632													6	58					0	0	1	0	0		A	69341670	A	A	69341670	3	1	122	1	0	0	0	0	1	0	0	0	204	1087	38	1	97	1	ACTN1	14	69341670	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	5591737	69341670	38007870	735	67738											
ACTN1	87	broad.mit.edu	37	chr14	69358971	69358971	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacccggttctccagccaCgggattgtgcggcggatcca	6	7	14	14	4	1	0	0	0	1	0	3	2	2	2	4	5	2	2	4	5	0	2	rs139710798		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:69358971C>T	uc001xkl.2	-	10	1195	c.885G>A	c.(883-885)CCG>CCA	p.P295P	ACTN1_uc010ttb.1_Silent_p.P230P|ACTN1_uc001xkm.2_Silent_p.P295P|ACTN1_uc001xkn.2_Silent_p.P295P|ACTN1_uc001xko.1_Silent_p.P230P|ACTN1_uc010ttd.1_Silent_p.P274P	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	295	Spectrin 1.|Interaction with DDN.				focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		TCTCCAGCCACGGGATTGTGC	0.662													15	86					0	0	1	0	0		T	69358971	T	T	69358971	2	4	122	1	0	0	0	0	0	0	0	1	204	523	19	1		1	ACTN1	14	69358971	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	17301	69358971	37990569	736	67739											
GALNTL1	57452	broad.mit.edu	37	chr14	69806298	69806298	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatacaagcaatactactaTgaggcccggccctcggccat	12	7	9	13	2	0	1	0	1	0	0	1	2	0	1	3	3	4	1	3	3	7	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:69806298T>C	uc010aqu.1	+	11	1242	c.1149T>C	c.(1147-1149)TAT>TAC	p.Y383Y	GALNTL1_uc001xla.1_Silent_p.Y383Y|GALNTL1_uc001xlb.1_Silent_p.Y383Y	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	383	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		AATACTACTATGAGGCCCGGC	0.537													10	82					0	0	1	0	0		C	69806298	C	C	69806298	2	2	122	1	0	0	0	0	0	0	0	1	6236	1471	51	3		3	GALNTL1	14	69806298	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	447327	69806298	37543242	737	67740											
TTC9	23508	broad.mit.edu	37	chr14	71109099	71109099	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaataccaccgggcgttgCtggagctgaaggggctgctg	8	7	16	10	2	0	1	0	1	0	0	0	2	0	2	2	4	4	6	2	4	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:71109099C>T	uc001xmi.2	+	1	596	c.253C>T	c.(253-255)CTG>TTG	p.L85L	uc001xmh.1_5'Flank	NM_015351	NP_056166	Q92623	TTC9A_HUMAN	tetratricopeptide repeat domain 9	85	TPR 1.						binding				0				all cancers(60;0.00545)|BRCA - Breast invasive adenocarcinoma(234;0.00747)|OV - Ovarian serous cystadenocarcinoma(108;0.0538)		CCGGGCGTTGCTGGAGCTGAA	0.677													4	5					0	0	1	0	0		T	71109099	T	T	71109099	2	4	122	1	0	0	0	0	0	0	0	1	16741	796	28	2		2	TTC9	14	71109099	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1302801	71109099	36240441	738	67741											
SIPA1L1	26037	broad.mit.edu	37	chr14	72128161	72128161	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtcagggtgcacaatccGtgctctgacagtgtctgtta	8	12	11	10	2	3	1	1	1	2	0	5	1	4	1	1	1	2	3	1	1	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:72128161G>A	uc001xms.2	+	7	2580	c.2232G>A	c.(2230-2232)CCG>CCA	p.P744P	SIPA1L1_uc001xmt.2_Silent_p.P744P|SIPA1L1_uc001xmu.2_Silent_p.P744P|SIPA1L1_uc001xmv.2_Silent_p.P744P|SIPA1L1_uc010ttm.1_Silent_p.P219P	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	744	Rap-GAP.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TGCACAATCCGTGCTCTGACA	0.507													8	54					0	0	1	0	0		A	72128161	A	A	72128161	2	1	122	1	0	0	0	0	0	0	0	1	14354	1132	40	1		1	SIPA1L1	14	72128161	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1019062	72128161	35221379	739	67742											
HEATR4	399671	broad.mit.edu	37	chr14	73989730	73989730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccataggcacactggagaCagaggcacactcctccttgc	11	6	10	14	0	0	2	0	0	0	2	2	4	2	2	3	3	1	2	3	3	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:73989730C>T	uc010tub.1	-	3	449	c.127G>A	c.(127-129)GTC>ATC	p.V43I	HEATR4_uc010tua.1_5'UTR	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		ACACTGGAGACAGAGGCACAC	0.488													18	136					0	0	1	0	0		T	73989730	T	T	73989730	3	4	122	1	0	0	0	0	1	0	0	0	7046	493	17	4		4	HEATR4	14	73989730	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1861569	73989730	33359810	740	67743											
C14orf43	91748	broad.mit.edu	37	chr14	74196362	74196362	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagtccggagcagcgtgcgAtgggcactcttaggcgtgat	7	9	15	10	4	1	1	0	1	1	0	2	3	2	2	1	3	3	2	1	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:74196362A>C	uc001xot.2	-	4	2859	c.2076T>G	c.(2074-2076)CAT>CAG	p.H692Q	C14orf43_uc001xos.2_5'Flank|C14orf43_uc001xou.2_Missense_Mutation_p.H692Q|C14orf43_uc010tud.1_Missense_Mutation_p.H692Q|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	692					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		GCAGCGTGCGATGGGCACTCT	0.647													6	56					0	0	1	0	0		C	74196362	C	C	74196362	3	2	122	1	0	0	0	0	1	0	0	0	1777	330	12	5	1097	5	C14orf43	14	74196362	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	206632	74196362	33153178	741	67744											
TGFB3	7043	broad.mit.edu	37	chr14	76427265	76427265	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggcatgagcctgctccataCcgtgctgtgggttgtgtctg	4	13	14	10	1	1	1	0	1	1	0	2	1	2	1	3	2	4	4	3	2	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:76427265C>T	uc001xsc.2	-	6	1936	c.1080_splice	c.e6+1	p.T360_splice		NM_003239	NP_003230	P10600	TGFB3_HUMAN	transforming growth factor, beta 3 precursor						cell growth|cell-cell junction organization|detection of hypoxia|face morphogenesis|in utero embryonic development|induction of apoptosis|lung alveolus development|mammary gland development|menstrual cycle phase|negative regulation of cell proliferation|negative regulation of DNA replication|negative regulation of macrophage cytokine production|negative regulation of neuron apoptosis|odontogenesis|ossification involved in bone remodeling|palate development|platelet activation|platelet degranulation|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of collagen biosynthetic process|positive regulation of DNA replication|positive regulation of epithelial to mesenchymal transition|positive regulation of filopodium assembly|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|positive regulation of transcription from RNA polymerase II promoter|response to progesterone stimulus|salivary gland morphogenesis|transforming growth factor beta receptor signaling pathway	extracellular matrix|platelet alpha granule lumen	growth factor activity|identical protein binding|transforming growth factor beta binding|type I transforming growth factor beta receptor binding|type II transforming growth factor beta receptor binding			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0169)		CTGCTCCATACCGTGCTGTGG	0.527													16	69					0	0	1	0	0		T	76427265	T	T	76427265	5	4	122	1	0	0	0	0	0	0	1	0	15844	521	18	4	165	4	TGFB3	14	76427265	Splice_Site	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2230903	76427265	30922275	742	67745											
C14orf174	161394	broad.mit.edu	37	chr14	77844529	77844529	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagaaaaggacagagccAcccgagcaggctagactgga	16	2	14	9	1	0	4	0	0	0	4	0	8	0	6	2	3	2	2	2	3	4	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:77844529A>G	uc001xtq.1	+	1	768	c.768A>G	c.(766-768)CCA>CCG	p.P256P	TMED8_uc010ast.1_5'Flank|TMED8_uc001xto.1_5'Flank	NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	256											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		GGACAGAGCCACCCGAGCAGG	0.493													19	93					0	0	1	0	0		G	77844529	G	G	77844529	2	3	122	1	0	0	0	0	0	0	0	1	1762	146	6	3		3	C14orf174	14	77844529	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1417264	77844529	29505011	743	67746											
NRXN3	9369	broad.mit.edu	37	chr14	79181293	79181293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacctattcattgatgggCgcagcaagaacattcgacag	12	8	11	10	3	1	2	1	1	0	1	2	4	1	2	1	1	2	2	1	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:79181293C>T	uc001xun.2	+	5	1227	c.736C>T	c.(736-738)CGC>TGC	p.R246C	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.R380C	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	619	Extracellular (Potential).|Laminin G-like 3.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CATTGATGGGCGCAGCAAGAA	0.577													7	53					0	0	1	0	0		T	79181293	T	T	79181293	3	4	122	1	0	0	0	0	1	0	0	0	10686	768	27	1	746	1	NRXN3	14	79181293	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1336764	79181293	28168247	744	67747											
PTPN21	11099	broad.mit.edu	37	chr14	88945851	88945851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggccgtggctgagccCggccacctcgatgctgttcc	4	8	12	17	3	0	1	0	1	0	0	3	2	2	1	6	3	2	3	6	3	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:88945851C>T	uc001xwv.3	-	13	2255	c.1924G>A	c.(1924-1926)GGG>AGG	p.G642R	PTPN21_uc010twc.1_Missense_Mutation_p.G438R	NM_007039	NP_008970	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type	642						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			ovary(3)|skin(1)	4						TGGCTGAGCCCGGCCACCTCG	0.741													15	53					0	0	1	0	0		T	88945851	T	T	88945851	3	4	122	1	0	0	0	0	1	0	0	0	12811	652	23	1	1628	1	PTPN21	14	88945851	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	9764558	88945851	18403689	745	67748											
KCNK13	56659	broad.mit.edu	37	chr14	90528604	90528604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgaacgaggacaacgcgCgctttctgctgctggccgcg	7	7	13	14	6	1	1	0	1	1	0	1	3	1	2	2	2	4	3	2	2	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:90528604C>T	uc001xye.1	+	1	497	c.55C>T	c.(55-57)CGC>TGC	p.R19C		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	19	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				GGACAACGCGCGCTTTCTGCT	0.756													8	9					0	0	1	0	0		T	90528604	T	T	90528604	3	4	122	1	0	0	0	0	1	0	0	0	8077	768	27	1	57	1	KCNK13	14	90528604	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1582753	90528604	16820936	746	67749											
CPSF2	53981	broad.mit.edu	37	chr14	92601758	92601758	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgccagctggtcatatgAtaggtggaacaatatggaaa	13	10	11	7	0	2	1	1	1	1	0	2	3	2	3	1	4	3	1	1	4	6	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:92601758A>G	uc001yah.1	+	6	700	c.463A>G	c.(463-465)ATA>GTA	p.I155V		NM_017437	NP_059133	Q9P2I0	CPSF2_HUMAN	cleavage and polyadenylation specific factor 2	155					histone mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	hydrolase activity|protein binding|RNA binding			ovary(2)	2		all_cancers(154;0.0766)		COAD - Colon adenocarcinoma(157;0.222)		TGGTCATATGATAGGTGGAAC	0.383													16	95					0	0	1	0	0		G	92601758	G	G	92601758	3	3	122	1	0	0	0	0	1	0	0	0	3828	333	12	3	477	3	CPSF2	14	92601758	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2073154	92601758	14747782	747	67750											
DICER1	23405	broad.mit.edu	37	chr14	95562465	95562465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcacagggccttttcccgatCagtccttttaattaccggga	8	12	9	12	2	1	0	1	0	0	0	3	2	3	1	4	2	1	1	4	2	2	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:95562465C>T	uc001ydw.2	-	24	4974	c.4792G>A	c.(4792-4794)GAT>AAT	p.D1598N	DICER1_uc010avh.1_Missense_Mutation_p.D496N|DICER1_uc001ydv.2_Missense_Mutation_p.D1588N|DICER1_uc001ydx.2_Missense_Mutation_p.D1598N|DICER1_uc001ydy.1_Missense_Mutation_p.D450N	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1598					negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		TTTTCCCGATCAGTCCTTTTA	0.542			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				44	336					0	0	1	0	0		T	95562465	T	T	95562465	3	4	122	1	0	0	0	0	1	0	0	0	4527	826	29	4	996	4	DICER1	14	95562465	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2960707	95562465	11787075	748	67751											
EIF5	1983	broad.mit.edu	37	chr14	103807325	103807325	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtattcgaaggctgccagtgTaccgaaagttgagactgtaa	12	10	12	7	2	0	1	0	1	0	1	1	4	0	1	2	1	2	5	2	1	5	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:103807325T>C	uc001ymq.2	+	12	1754	c.1232T>C	c.(1231-1233)GTA>GCA	p.V411A	EIF5_uc001ymr.2_Missense_Mutation_p.V411A|EIF5_uc001yms.2_Missense_Mutation_p.V411A|EIF5_uc001ymt.2_Missense_Mutation_p.V411A|EIF5_uc001ymu.2_Missense_Mutation_p.V411A	NM_001969	NP_001960	P55010	IF5_HUMAN	eukaryotic translation initiation factor 5	411					regulation of translational initiation|RNA metabolic process	cytosol	GTP binding|GTPase activity|translation initiation factor activity			pancreas(1)|breast(1)|skin(1)	3		Melanoma(154;0.155)	Epithelial(46;0.182)			GCTGCCAGTGTACCGAAAGTT	0.368													10	84					0	0	1	0	0		C	103807325	C	C	103807325	3	2	122	1	0	0	0	0	1	0	0	0	5048	1638	57	3	1270	3	EIF5	14	103807325	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	8244860	103807325	3542215	749	67752											
KIAA0284	283638	broad.mit.edu	37	chr14	105353595	105353595	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcagtgcccgtgagcagTcctcagagaggcagcatcac	9	7	13	12	1	3	2	3	1	0	1	4	3	4	2	2	2	3	3	2	2	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:105353595T>C	uc010axb.2	+	12	3243	c.3019T>C	c.(3019-3021)TCC>CCC	p.S1007P	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Missense_Mutation_p.S937P|KIAA0284_uc001yps.2_Missense_Mutation_p.S913P|KIAA0284_uc001ypt.2_5'Flank	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	1007						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		CCGTGAGCAGTCCTCAGAGAG	0.692													4	20					0	0	1	0	0		C	105353595	C	C	105353595	3	2	122	1	0	0	0	0	1	0	0	0	8182	1667	58	3	3061	3	KIAA0284	14	105353595	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1546270	105353595	1995945	750	67753											
AHNAK2	113146	broad.mit.edu	37	chr14	105416224	105416224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggaggggaggctcacttcgGcctccaccttcggcgcagac	6	7	14	14	3	1	1	1	0	0	1	4	3	2	3	3	6	0	2	3	6	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr14:105416224G>A	uc010axc.1	-	7	5684	c.5564C>T	c.(5563-5565)GCC>GTC	p.A1855V	AHNAK2_uc001ypx.2_Missense_Mutation_p.A1755V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1855						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GCTCACTTCGGCCTCCACCTT	0.617													49	303					0	0	1	0	0		A	105416224	A	A	105416224	3	1	122	1	0	0	0	0	1	0	0	0	415	1203	42	2	11827	2	AHNAK2	14	105416224	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	62629	105416224	1933316	751	67754											
CYFIP1	23191	broad.mit.edu	37	chr15	22954217	22954217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtcccccgcaggtgatcgCcatgatcaaaggcctgcagg	8	7	13	13	2	1	2	1	2	0	0	3	2	2	2	4	3	1	2	4	3	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:22954217C>T	uc001yus.2	+	14	1471	c.1367C>T	c.(1366-1368)GCC>GTC	p.A456V	CYFIP1_uc001yut.2_Missense_Mutation_p.A456V|CYFIP1_uc010aya.1_Missense_Mutation_p.A484V|CYFIP1_uc001yuu.2_5'Flank	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	456					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		CAGGTGATCGCCATGATCAAA	0.642													13	81					0	0	1	0	0		T	22954217	T	T	22954217	3	4	122	1	0	0	0	0	1	0	0	0	4140	739	26	2	1417	2	CYFIP1	15	22954217	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08		22954217	79577175	752	67755											
MAGEL2	54551	broad.mit.edu	37	chr15	23890196	23890196	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaggctagcgtgtggccacgGctgtcctcttgggcttccag	5	10	14	12	2	1	0	0	0	1	0	3	0	3	0	3	4	1	3	3	4	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:23890196G>A	uc001ywj.3	-	1	980	c.885C>T	c.(883-885)AGC>AGT	p.S295S		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		TGTGGCCACGGCTGTCCTCTT	0.622													11	79					0	0	1	0	0		A	23890196	A	A	23890196	2	1	122	1	0	0	0	0	0	0	0	1	9207	1194	42	2		2	MAGEL2	15	23890196	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	935979	23890196	78641196	753	67756											
ATP10A	57194	broad.mit.edu	37	chr15	25958904	25958904	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcatcggtaagcgggtgcCggatcaccactgacatcctc	8	9	10	14	3	2	1	2	1	1	0	6	2	3	2	3	3	2	1	3	3	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:25958904C>A	uc010ayu.2	-	10	2367	c.2261G>T	c.(2260-2262)CGG>CTG	p.R754L		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	754	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		AAGCGGGTGCCGGATCACCAC	0.607													12	80					6.40141e-05	6.79831e-05	1	1	0		A	25958904	A	A	25958904	3	1	122	1	0	0	0	0	1	0	0	0	1117	652	23	5	2286	5	ATP10A	15	25958904	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2068708	25958904	76572488	754	67757											
OCA2	4948	broad.mit.edu	37	chr15	28202854	28202854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgcgctgagcagtcaggCgccagacgtgaatctcgtgc	8	8	14	11	4	2	4	1	3	1	1	3	4	2	4	1	1	3	2	1	1	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:28202854C>T	uc001zbh.3	-	16	1774	c.1664G>A	c.(1663-1665)CGC>CAC	p.R555H	OCA2_uc010ayv.2_Missense_Mutation_p.R531H	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	555	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		AGCAGTCAGGCGCCAGACGTG	0.632									Oculocutaneous_Albinism				4	55					0	0	1	0	0		T	28202854	T	T	28202854	3	4	122	1	0	0	0	0	1	0	0	0	10834	768	27	1	888	1	OCA2	15	28202854	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2243950	28202854	74328538	755	67758											
TRPM1	4308	broad.mit.edu	37	chr15	31294572	31294572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtttcatcggggaaatagCgtgtaattttggtttcttcc	7	17	10	7	3	2	0	1	0	1	0	5	1	3	1	1	3	1	3	1	3	3	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:31294572C>T	uc001zfm.2	-	27	4393	c.4265G>A	c.(4264-4266)CGC>CAC	p.R1422H	TRPM1_uc010azy.2_Missense_Mutation_p.R1329H|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1422	Cytoplasmic (Potential).		R -> W.		cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		GGGGAAATAGCGTGTAATTTT	0.438													14	111					0	0	1	0	0		T	31294572	T	T	31294572	3	4	122	1	0	0	0	0	1	0	0	0	16611	768	27	1	550	1	TRPM1	15	31294572	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3091718	31294572	71236820	756	67759											
RYR3	6263	broad.mit.edu	37	chr15	33954456	33954456	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgccctgggaaacagccgCgtggcctacgccctgtgcag	6	6	14	15	4	0	0	0	0	0	0	0	1	0	1	4	2	5	1	4	2	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:33954456C>T	uc001zhi.2	+	35	4795	c.4725C>T	c.(4723-4725)CGC>CGT	p.R1575R	RYR3_uc010bar.2_Silent_p.R1575R	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1575	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GAAACAGCCGCGTGGCCTACG	0.597													3	16					0	0	1	0	0		T	33954456	T	T	33954456	2	4	122	1	0	0	0	0	0	0	0	1	13795	755	27	1		1	RYR3	15	33954456	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2659884	33954456	68576936	757	67760											
RYR3	6263	broad.mit.edu	37	chr15	33999249	33999249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgaggtttgctgtcttcGtgaacagtgagtcccacatt	7	14	10	10	1	1	3	0	3	1	0	4	3	3	3	2	1	2	2	2	1	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:33999249G>A	uc001zhi.2	+	43	6683	c.6613G>A	c.(6613-6615)GTG>ATG	p.V2205M	RYR3_uc010bar.2_Missense_Mutation_p.V2205M	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2205	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGCTGTCTTCGTGAACAGTGA	0.483													4	29					0	0	1	0	0		A	33999249	A	A	33999249	3	1	122	1	0	0	0	0	1	0	0	0	13795	1145	40	1	6783	1	RYR3	15	33999249	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	44793	33999249	68532143	758	67761											
RYR3	6263	broad.mit.edu	37	chr15	34030748	34030748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagaagagctgcacctaaCggagaagcttttctggggga	12	7	15	7	1	1	3	0	0	1	3	1	6	1	5	1	4	4	3	1	4	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:34030748C>T	uc001zhi.2	+	50	7683	c.7613C>T	c.(7612-7614)ACG>ATG	p.T2538M	RYR3_uc010bar.2_Missense_Mutation_p.T2538M	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2538	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CTGCACCTAACGGAGAAGCTT	0.483											OREG0023032	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	65					0	0	1	0	0		T	34030748	T	T	34030748	3	4	122	1	0	0	0	0	1	0	0	0	13795	536	19	1	7811	1	RYR3	15	34030748	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	31499	34030748	68500644	759	67762											
THBS1	7057	broad.mit.edu	37	chr15	39874866	39874866	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagaatgctgagttggaCgtccccatccaaagcgtctt	10	10	11	10	2	1	2	0	1	1	1	3	4	3	3	3	2	2	2	3	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:39874866C>T	uc001zkh.2	+	3	719	c.540C>T	c.(538-540)GAC>GAT	p.D180D		NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	180	TSP N-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	CTGAGTTGGACGTCCCCATCC	0.562													5	66					0	0	1	0	0		T	39874866	T	T	39874866	2	4	122	1	0	0	0	0	0	0	0	1	15878	535	19	1		1	THBS1	15	39874866	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5844118	39874866	62656526	760	67763											
BAHD1	22893	broad.mit.edu	37	chr15	40751366	40751366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatgcagaagtagatgggCgctccactgagcccccagca	10	5	11	15	1	0	3	0	1	0	2	1	3	1	3	4	1	3	4	4	1	2	1	rs140194867		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:40751366C>T	uc001zlu.2	+	2	774	c.703C>T	c.(703-705)CGC>TGC	p.R235C	BAHD1_uc001zlt.2_Missense_Mutation_p.R235C|BAHD1_uc010bbp.1_Missense_Mutation_p.R235C|BAHD1_uc001zlv.2_Missense_Mutation_p.R235C	NM_014952	NP_055767	Q8TBE0	BAHD1_HUMAN	bromo adjacent homology domain containing 1	235					heterochromatin formation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin silencing complex|chromosome	chromatin binding|DNA binding|protein binding				0		all_cancers(109;8.28e-19)|all_epithelial(112;2.64e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.46e-06)|BRCA - Breast invasive adenocarcinoma(123;0.08)		AGTAGATGGGCGCTCCACTGA	0.627													6	32					0	0	1	0	0		T	40751366	T	T	40751366	3	4	122	1	0	0	0	0	1	0	0	0	1298	768	27	1	705	1	BAHD1	15	40751366	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	876500	40751366	61780026	761	67764											
DLL4	54567	broad.mit.edu	37	chr15	41228765	41228765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggcttgccgcccagctTcccctgggtggccgtctcgc	1	9	14	17	4	1	0	0	0	1	0	3	0	2	0	5	3	2	2	5	3	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:41228765T>C	uc001zng.1	+	9	1900	c.1580T>C	c.(1579-1581)TTC>TCC	p.F527S		NM_019074	NP_061947	Q9NR61	DLL4_HUMAN	delta-like 4 protein precursor	527	Extracellular (Potential).				blood circulation|cell communication|cell differentiation|Notch receptor processing|Notch signaling pathway	integral to membrane|plasma membrane	calcium ion binding|Notch binding			breast(2)	2		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		CCGCCCAGCTTCCCCTGGGTG	0.667													3	17					0	0	1	0	0		C	41228765	C	C	41228765	3	2	122	1	0	0	0	0	1	0	0	0	4574	1783	62	3	1614	3	DLL4	15	41228765	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	477399	41228765	61302627	762	67765											
TGM7	116179	broad.mit.edu	37	chr15	43579478	43579478	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagtgatctttcgctcacCggtgcacataacagaggcga	10	9	12	10	3	2	3	1	2	1	1	3	4	2	3	1	2	2	2	1	2	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:43579478C>T	uc001zrf.1	-	6	870	c.865G>A	c.(865-867)GTA>ATA	p.V289I		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	289					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	TTTCGCTCACCGGTGCACATA	0.373													3	18					0	0	1	0	0		T	43579478	T	T	43579478	3	4	122	1	0	0	0	0	1	0	0	0	15860	666	23	1	1299	1	TGM7	15	43579478	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2350713	43579478	58951914	763	67766											
MAP1A	4130	broad.mit.edu	37	chr15	43814151	43814151	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgtagcattgaggaggcctgCctcactctgcagcacttaaa	10	9	10	12	1	2	1	1	1	1	0	2	2	2	2	2	2	4	4	2	2	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:43814151C>T	uc001zrt.2	+	4	947	c.480C>T	c.(478-480)TGC>TGT	p.C160C		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	160						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	AGGAGGCCTGCCTCACTCTGC	0.537													6	82					0	0	1	0	0		T	43814151	T	T	43814151	2	4	122	1	0	0	0	0	0	0	0	1	9245	747	26	2		2	MAP1A	15	43814151	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	234673	43814151	58717241	764	67767											
MAP1A	4130	broad.mit.edu	37	chr15	43818213	43818213	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cataaggctccggaggacacGgtcgctgaaatgaaggacag	13	5	14	9	3	0	2	0	2	0	0	2	5	1	5	1	5	0	2	1	5	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:43818213G>A	uc001zrt.2	+	4	5009	c.4542G>A	c.(4540-4542)ACG>ACA	p.T1514T		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1514						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	CGGAGGACACGGTCGCTGAAA	0.468													11	53					0	0	1	0	0		A	43818213	A	A	43818213	2	1	122	1	0	0	0	0	0	0	0	1	9245	1103	39	1		1	MAP1A	15	43818213	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4062	43818213	58713179	765	67768											
B2M	567	broad.mit.edu	37	chr15	45003779	45003779	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccttagctgtgctcgcgcTactctctctttctggcctgg	2	14	11	14	2	3	0	0	0	3	0	5	0	3	0	2	3	3	3	2	3	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:45003779T>A	uc001zuc.2	+	1	95	c.35T>A	c.(34-36)CTA>CAA	p.L12Q	B2M_uc010uek.1_Missense_Mutation_p.L12Q|B2M_uc010bdx.1_Missense_Mutation_p.L12Q	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor	12					antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding			ovary(2)|skin(1)	3		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		GTGCTCGCGCTACTCTCTCTT	0.617													9	69					0	0	1	0	0		A	45003779	A	A	45003779	3	1	122	1	0	0	0	0	1	0	0	0	1245	1522	53	5	37	5	B2M	15	45003779	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1185566	45003779	57527613	766	67769											
SEMA6D	80031	broad.mit.edu	37	chr15	48052500	48052500	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttagcccatttttacttgcaGattcaaggcaatatccggtt	10	15	7	9	1	1	1	1	0	0	1	2	1	2	1	2	2	3	3	2	2	5	8			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:48052500G>A	uc010bek.2	+	3	470	c.110_splice	c.e3-1	p.Y37_splice	SEMA6D_uc001zvw.2_Splice_Site_p.Y37_splice|SEMA6D_uc001zvx.1_Splice_Site_p.Y37_splice|SEMA6D_uc001zvy.2_Splice_Site_p.Y37_splice|SEMA6D_uc001zvz.2_Splice_Site_p.Y37_splice|SEMA6D_uc001zwa.2_Splice_Site_p.Y37_splice|SEMA6D_uc001zwb.2_Splice_Site_p.Y37_splice|SEMA6D_uc001zwc.2_Splice_Site_p.Y37_splice	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor						axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		TTTACTTGCAGATTCAAGGCA	0.408													7	47					0	0	1	0	0		A	48052500	A	A	48052500	5	1	122	1	0	0	0	0	0	0	1	0	14067	956	33	4	115	4	SEMA6D	15	48052500	Splice_Site	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3048721	48052500	54478892	767	67770											
FBN1	2200	broad.mit.edu	37	chr15	48730036	48730036	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggcacagcagcattccTgcttggagtgatttctggat	9	12	11	9	0	2	1	1	1	1	0	3	3	3	3	1	3	3	4	1	3	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:48730036T>C	uc001zwx.1	-	51	6570	c.6242A>G	c.(6241-6243)CAG>CGG	p.Q2081R	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2081	TB 8.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GCAGCATTCCTGCTTGGAGTG	0.493													13	91					0	0	1	0	0		C	48730036	C	C	48730036	3	2	122	1	0	0	0	0	1	0	0	0	5716	1580	55	3	2437	3	FBN1	15	48730036	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	677536	48730036	53801356	768	67771											
DMXL2	23312	broad.mit.edu	37	chr15	51828804	51828804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttatcagcaaaagtgactgCccactgatttaaagaaccat	15	10	6	10	0	1	3	1	2	0	1	1	3	1	3	2	0	3	1	2	0	6	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:51828804C>T	uc002abf.2	-	12	2098	c.1873G>A	c.(1873-1875)GCA>ACA	p.A625T	DMXL2_uc010ufy.1_Missense_Mutation_p.A625T|DMXL2_uc010bfa.2_Missense_Mutation_p.A625T	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	625	WD 5.					cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		AAAGTGACTGCCCACTGATTT	0.408													13	104					0	0	1	0	0		T	51828804	T	T	51828804	3	4	122	1	0	0	0	0	1	0	0	0	4601	739	26	2	7368	2	DMXL2	15	51828804	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3098768	51828804	50702588	769	67772											
UNC13C	440279	broad.mit.edu	37	chr15	54542453	54542453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcttcaagaagaccttgcagGcactgatctaccctatgtct	10	12	7	12	0	4	3	1	1	3	2	4	3	4	3	2	1	2	2	2	1	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:54542453G>A	uc002ack.2	+	6	3259	c.3259G>A	c.(3259-3261)GCA>ACA	p.A1087T		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1087					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GACCTTGCAGGCACTGATCTA	0.458													4	56					0	0	1	0	0		A	54542453	A	A	54542453	3	1	122	1	0	0	0	0	1	0	0	0	17012	1203	42	2	3281	2	UNC13C	15	54542453	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2713649	54542453	47988939	770	67773											
HERC1	8925	broad.mit.edu	37	chr15	63970208	63970208	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccagcacgggccacacCtctatgcaaagagtcctcag	12	5	9	15	1	2	1	1	0	1	1	3	1	3	1	4	1	3	2	4	1	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:63970208C>T	uc002amp.2	-	37	7054	c.6906G>A	c.(6904-6906)GAG>GAA	p.E2302E		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	2302					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						CGGGCCACACCTCTATGCAAA	0.547													7	80					0	0	1	0	0		T	63970208	T	T	63970208	2	4	122	1	0	0	0	0	0	0	0	1	7073	680	24	4		4	HERC1	15	63970208	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	9427755	63970208	38561184	771	67774											
SNX22	79856	broad.mit.edu	37	chr15	64446187	64446187	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatgtggatccctatgtttGcaacccctccccaggtgagg	7	10	10	14	0	0	1	0	1	0	0	2	2	2	2	6	3	2	2	6	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:64446187G>A	uc002anc.1	+	6	505	c.446G>A	c.(445-447)TGC>TAC	p.C149Y	SNX22_uc002amz.1_Missense_Mutation_p.C121Y|SNX22_uc002ana.1_3'UTR|SNX22_uc002anb.1_RNA	NM_024798	NP_079074	Q96L94	SNX22_HUMAN	sorting nexin 22	149					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding				0						CCCTATGTTTGCAACCCCTCC	0.612											OREG0023180	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	143					0	0	1	0	0		A	64446187	A	A	64446187	3	1	122	1	0	0	0	0	1	0	0	0	14919	1319	46	2	468	2	SNX22	15	64446187	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	475979	64446187	38085205	772	67775											
BBS4	585	broad.mit.edu	37	chr15	73007688	73007688	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctagaactcttccagacaTgtgcagttcttagtcctcag	9	12	7	13	0	3	2	1	0	2	2	5	2	5	2	3	0	2	2	3	0	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:73007688T>C	uc002avb.2	+	5	320	c.277T>C	c.(277-279)TGT>CGT	p.C93R	BBS4_uc010ukv.1_Missense_Mutation_p.C81R|BBS4_uc002avc.2_5'UTR|BBS4_uc002avd.2_Missense_Mutation_p.C101R	NM_033028	NP_149017	Q96RK4	BBS4_HUMAN	Bardet-Biedl syndrome 4	93	TPR 1.				adult behavior|brain morphogenesis|cell cycle cytokinesis|centrosome organization|cerebral cortex development|convergent extension involved in gastrulation|dendrite development|fat cell differentiation|heart looping|hippocampus development|intracellular transport|maintenance of protein location in nucleus|melanosome transport|microtubule anchoring at centrosome|neural tube closure|nonmotile primary cilium assembly|photoreceptor cell maintenance|pigment granule aggregation in cell center|positive regulation of flagellum assembly|regulation of cilium beat frequency involved in ciliary motility|regulation of cytokinesis|regulation of lipid metabolic process|retina homeostasis|retinal rod cell development|sensory perception of smell|sensory processing|spermatid development|striatum development	BBSome|centriolar satellite|centriole|cilium membrane|microtubule basal body|motile cilium|nonmotile primary cilium|nucleus|pericentriolar material	alpha-tubulin binding|beta-tubulin binding|dynactin binding|microtubule motor activity				0						CTTCCAGACATGTGCAGTTCT	0.433									Bardet-Biedl_syndrome				14	94					0	0	1	0	0		C	73007688	C	C	73007688	3	2	122	1	0	0	0	0	1	0	0	0	1340	1464	51	3	295	3	BBS4	15	73007688	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	8561501	73007688	29523704	773	67776											
CCDC33	80125	broad.mit.edu	37	chr15	74623544	74623544	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctctgctctgctctccagGtgatcgagaagatggagcgg	7	9	14	11	2	3	3	0	1	3	2	5	5	3	4	2	3	3	2	2	3	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:74623544G>T	uc002axo.2	+	15	2072	c.1678G>T	c.(1678-1680)GTG>TTG	p.V560L	CCDC33_uc002axp.2_Missense_Mutation_p.V382L|CCDC33_uc002axq.2_Missense_Mutation_p.V153L|CCDC33_uc002axr.2_Missense_Mutation_p.V153L	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	763	Potential.						protein binding			ovary(3)|skin(2)	5						TGCTCTCCAGGTGATCGAGAA	0.652													8	36					3.09899e-07	3.41829e-07	1	1	0		T	74623544	T	T	74623544	3	4	122	1	0	0	0	0	1	0	0	0	2809	1275	44	5	1809	5	CCDC33	15	74623544	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1615856	74623544	27907848	774	67777											
LMAN1L	79748	broad.mit.edu	37	chr15	75105256	75105256	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctgctcctggaccccCacagccctgagacggggtgt	5	8	11	17	1	0	1	0	1	0	1	3	3	3	2	6	3	2	1	6	3	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:75105256C>A	uc002ayt.1	+	1	63	c.61C>A	c.(61-63)CAC>AAC	p.H21N	LMAN1L_uc010bkd.2_Intron|LMAN1L_uc010ulo.1_Intron|LMAN1L_uc010bke.1_Missense_Mutation_p.H21N	NM_021819	NP_068591	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like precursor	21						ER-Golgi intermediate compartment membrane|integral to membrane	sugar binding				0						CCTGGACCCCCACAGCCCTGA	0.607													19	156					8.81451e-21	1.03919e-20	1	1	0		A	75105256	A	A	75105256	3	1	122	1	0	0	0	0	1	0	0	0	8854	594	21	5	63	5	LMAN1L	15	75105256	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	481712	75105256	27426136	775	67778											
ODF3L1	161753	broad.mit.edu	37	chr15	76019508	76019508	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccggcgcccatacagagTgatggacctcaacccggctc	9	6	10	16	3	1	2	1	1	0	1	2	3	1	3	4	3	3	1	4	3	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:76019508T>C	uc002bax.1	+	4	674	c.452T>C	c.(451-453)GTG>GCG	p.V151A		NM_175881	NP_787077	Q8IXM7	OD3L1_HUMAN	outer dense fiber of sperm tails 3-like 1	151											0						CCATACAGAGTGATGGACCTC	0.627													34	233					0	0	1	0	0		C	76019508	C	C	76019508	3	2	122	1	0	0	0	0	1	0	0	0	10850	1696	59	3	466	3	ODF3L1	15	76019508	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	914252	76019508	26511884	776	67779											
TSPAN3	10099	broad.mit.edu	37	chr15	77348191	77348191	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgtgacaaaaaccaagagCaggatgatgacaaactgtaa	18	7	9	7	0	1	4	0	3	1	1	1	5	1	5	1	1	3	2	1	1	5	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:77348191C>T	uc002bcj.2	-	3	487	c.270G>A	c.(268-270)CTG>CTA	p.L90L	TSPAN3_uc002bck.2_Intron|TSPAN3_uc010ump.1_Silent_p.L26L|TSPAN3_uc010bkx.2_Intron	NM_005724	NP_005715	O60637	TSN3_HUMAN	transmembrane 4 superfamily member 8 isoform 1	90	Helical; (Potential).					integral to membrane					0				all cancers(203;1.14e-19)		AAACCAAGAGCAGGATGATGA	0.294													12	83					0	0	1	0	0		T	77348191	T	T	77348191	2	4	122	1	0	0	0	0	0	0	0	1	16671	697	25	2		2	TSPAN3	15	77348191	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1328683	77348191	25183201	777	67780											
MORF4L1	10933	broad.mit.edu	37	chr15	79189365	79189365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caactttgttcagtgccagcGattatgaagtggctcctcct	8	13	9	11	1	1	1	1	1	0	0	3	2	3	1	3	1	3	2	3	1	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:79189365G>A	uc002bel.2	+	13	1233	c.1045G>A	c.(1045-1047)GAT>AAT	p.D349N	MORF4L1_uc002bem.2_Missense_Mutation_p.D310N|MORF4L1_uc010une.1_Missense_Mutation_p.D222N	NM_206839	NP_996670	Q9UBU8	MO4L1_HUMAN	MORF-related gene 15 isoform 2	349					double-strand break repair via homologous recombination|histone deacetylation|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|Sin3 complex	protein N-terminus binding				0						CAGTGCCAGCGATTATGAAGT	0.373													8	52					0	0	1	0	0		A	79189365	A	A	79189365	3	1	122	1	0	0	0	0	1	0	0	0	9724	1058	37	1	1095	1	MORF4L1	15	79189365	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1841174	79189365	23342027	778	67781											
ARNT2	9915	broad.mit.edu	37	chr15	80866507	80866507	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcaacttcagcaacagcaGgcagaattggaagtgcacca	15	5	11	10	0	1	1	1	0	0	1	1	2	1	2	1	3	5	5	1	3	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:80866507G>T	uc002bfr.2	+	13	1501	c.1335G>T	c.(1333-1335)CAG>CAT	p.Q445H	ARNT2_uc010unm.1_Missense_Mutation_p.Q434H|ARNT2_uc002bfs.2_Missense_Mutation_p.Q434H	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	445	Poly-Gln.				central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			AGCAACAGCAGGCAGAATTGG	0.483													12	69					9.31168e-06	1.00674e-05	1	1	0		T	80866507	T	T	80866507	3	4	122	1	0	0	0	0	1	0	0	0	967	991	35	5	1385	5	ARNT2	15	80866507	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1677142	80866507	21664885	779	67782											
IL16	3603	broad.mit.edu	37	chr15	81601118	81601118	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctccagtccaaggaaacCacagctgctggagactccta	12	6	9	14	0	0	1	0	0	0	1	3	3	3	2	5	2	4	2	5	2	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:81601118C>T	uc002bgh.3	+	19	4354	c.3978C>T	c.(3976-3978)ACC>ACT	p.T1326T	IL16_uc002bge.3_RNA|IL16_uc010unp.1_Silent_p.T1367T|IL16_uc002bgg.2_Silent_p.T1325T|IL16_uc002bgj.2_Silent_p.T819T|IL16_uc002bgk.2_Silent_p.T625T	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	1326					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						CCAAGGAAACCACAGCTGCTG	0.527													10	54					0	0	1	0	0		T	81601118	T	T	81601118	2	4	122	1	0	0	0	0	0	0	0	1	7649	581	21	4		4	IL16	15	81601118	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	734611	81601118	20930274	780	67783											
ZSCAN2	54993	broad.mit.edu	37	chr15	85147384	85147384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaccaggggaccacagggtGcactcggccgcctccgagag	8	4	15	14	3	0	2	0	1	0	1	2	4	1	3	5	4	1	1	5	4	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:85147384G>A	uc002bkr.2	+	2	452	c.226G>A	c.(226-228)GCA>ACA	p.A76T	ZSCAN2_uc002bkp.2_Missense_Mutation_p.A76T|ZSCAN2_uc002bkq.2_Missense_Mutation_p.A76T|ZSCAN2_uc010bmz.1_Missense_Mutation_p.A75T|ZSCAN2_uc010bna.2_Intron|ZSCAN2_uc010uox.1_Missense_Mutation_p.A75T|ZSCAN2_uc010uoy.1_Missense_Mutation_p.A75T|ZSCAN2_uc010uoz.1_Missense_Mutation_p.A75T	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	76	SCAN box.				cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		ACCACAGGGTGCACTCGGCCG	0.627													5	32					0	0	1	0	0		A	85147384	A	A	85147384	3	1	122	1	0	0	0	0	1	0	0	0	18256	1319	46	2	228	2	ZSCAN2	15	85147384	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3546266	85147384	17384008	781	67784											
SEMA4B	10509	broad.mit.edu	37	chr15	90768580	90768582	+	In_Frame_Del	DEL	TCT	-	-																															catcattgaggagctgcagaTcttctcatcgggacagcccg																										TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr15:90768580_90768582delTCT	uc002boy.2	+	12	1755_1757	c.1472_1474delTCT	c.(1471-1476)ATCTTC>ATC	p.F492del	SEMA4B_uc002boz.2_In_Frame_Del_p.F492del|SEMA4B_uc010uqd.1_In_Frame_Del_p.F330del|SEMA4B_uc002bpa.2_In_Frame_Del_p.F330del|SEMA4B_uc010bnv.1_In_Frame_Del_p.F130del	NM_020210	NP_064595			semaphorin 4B precursor											ovary(1)|breast(1)|kidney(1)	3	Melanoma(11;0.00551)|Lung NSC(78;0.0125)|all_lung(78;0.0272)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.217)			GAGCTGCAGATCTTCTCATCGGG	0.64													4	4	---	---	---	---						.	-	90768582	-	-	90768580	7	5	122	1	0	1	0	1	0	0	0	0	14057	1435	50	0	1514	0	SEMA4B	15	90768580	In_Frame_Del	DEL	TCT	TCGA-CD-A4MI-01A-21D-A25D-08	5621196	90768580	11762812	782	67785											
MPG	4350	broad.mit.edu	37	chr16	135514	135514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccgtgtcctcaaggaccGcgagctctgcagtggcccct	6	7	12	16	3	2	0	1	0	1	0	3	2	3	1	5	2	3	2	5	2	1	0	rs142373562		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:135514G>A	uc002cfn.2	+	5	953	c.635G>A	c.(634-636)CGC>CAC	p.R212H	MPG_uc002cfm.2_Missense_Mutation_p.R195H|MPG_uc002cfo.2_Missense_Mutation_p.R207H|NPRL3_uc010uua.1_Intron|NPRL3_uc002cfp.1_Intron	NM_002434	NP_002425	P29372	3MG_HUMAN	N-methylpurine-DNA glycosylase isoform a	212					depurination|DNA dealkylation involved in DNA repair	nucleoplasm	alkylbase DNA N-glycosylase activity|damaged DNA binding|identical protein binding			ovary(1)|skin(1)	2		all_cancers(16;9.01e-08)|all_epithelial(16;7.64e-07)|Hepatocellular(780;0.000325)|Lung NSC(18;0.0104)|all_lung(18;0.0239)				CTCAAGGACCGCGAGCTCTGC	0.632								BER_DNA_glycosylases					11	76					0	0	1	0	0		A	135514	A	A	135514	3	1	122	1	0	0	0	0	1	0	0	0	9742	1087	38	1	677	1	MPG	16	135514	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08		135514	90219239	783	67786											
CASKIN1	57524	broad.mit.edu	37	chr16	2237063	2237063	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgcccggacctgcagggcCgctgaggcctctggggatac	5	6	16	14	3	1	1	0	1	1	0	2	3	1	3	4	5	2	2	4	5	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:2237063C>T	uc010bsg.1	-	9	878	c.846G>A	c.(844-846)GCG>GCA	p.A282A		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	282	SH3.				signal transduction	cytoplasm				skin(2)	2						CCTGCAGGGCCGCTGAGGCCT	0.657													9	101					0	0	1	0	0		T	2237063	T	T	2237063	2	4	122	1	0	0	0	0	0	0	0	1	2669	639	23	1		1	CASKIN1	16	2237063	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2101549	2237063	88117690	784	67787											
ABCA3	21	broad.mit.edu	37	chr16	2329104	2329104	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagcaaggcatcaaactGcgggcagtagccgatccgct	10	6	12	13	3	1	0	1	0	0	0	3	1	3	0	3	2	4	5	3	2	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:2329104G>A	uc002cpy.1	-	29	5099	c.4387C>T	c.(4387-4389)CAG>TAG	p.Q1463*	ABCA3_uc010bsk.1_Nonsense_Mutation_p.Q1405*	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1463	ABC transporter 2.				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				GCATCAAACTGCGGGCAGTAG	0.677													13	73					0	0	1	0	0		A	2329104	A	A	2329104	4	1	122	1	0	0	0	0	0	1	0	0	33	1328	46	2	747	2	ABCA3	16	2329104	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	92041	2329104	88025649	785	67788											
SRRM2	23524	broad.mit.edu	37	chr16	2815886	2815886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagaaaacaagaacaacccGacgtcgagataggtctggat	17	5	11	8	3	1	3	0	0	1	3	2	7	1	4	1	2	3	0	1	2	6	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:2815886G>A	uc002crk.2	+	11	5906	c.5357G>A	c.(5356-5358)CGA>CAA	p.R1786Q	SRRM2_uc002crj.1_Missense_Mutation_p.R1690Q|SRRM2_uc002crl.1_Missense_Mutation_p.R1786Q|SRRM2_uc010bsu.1_Missense_Mutation_p.R1690Q	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1786	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						AGAACAACCCGACGTCGAGAT	0.597													7	43					0	0	1	0	0		A	2815886	A	A	2815886	3	1	122	1	0	0	0	0	1	0	0	0	15194	1058	37	1	5395	1	SRRM2	16	2815886	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	486782	2815886	87538867	786	67789											
ZNF434	54925	broad.mit.edu	37	chr16	3434841	3434841	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccatggccctgtagatctgGctgttctgctgacaggtctg	5	12	13	11	0	3	2	0	1	3	1	3	2	3	2	2	3	1	4	2	3	1	2	rs34249904		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:3434841G>A	uc002cuz.2	-	5	1018	c.216C>T	c.(214-216)AGC>AGT	p.S72S	ZNF434_uc002cux.3_Silent_p.S283S|ZNF434_uc010uwx.1_5'UTR|ZNF434_uc002cuy.3_5'UTR|ZNF434_uc010uwy.1_5'UTR|ZNF434_uc010uwz.1_Silent_p.S283S|ZNF434_uc010uxa.1_Silent_p.S72S	NM_017810	NP_060280	Q9NX65	ZN434_HUMAN	zinc finger protein 434	72					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TGTAGATCTGGCTGTTCTGCT	0.517													27	201					0	0	1	0	0		A	3434841	A	A	3434841	2	1	122	1	0	0	0	0	0	0	0	1	17933	1194	42	2		2	ZNF434	16	3434841	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	618955	3434841	86919912	787	67790											
ADCY9	115	broad.mit.edu	37	chr16	4016604	4016604	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacccggtagcactccttGccgccctcgtagttctcctc	5	10	9	17	3	1	0	0	0	1	0	5	1	2	1	5	2	2	4	5	2	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:4016604G>A	uc002cvx.2	-	11	3773	c.3234C>T	c.(3232-3234)GGC>GGT	p.G1078G		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	1078	Guanylate cyclase 2.|Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						AGCACTCCTTGCCGCCCTCGT	0.567													30	176					0	0	1	0	0		A	4016604	A	A	4016604	2	1	122	1	0	0	0	0	0	0	0	1	301	1306	46	2		2	ADCY9	16	4016604	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	581763	4016604	86338149	788	67791											
ROGDI	79641	broad.mit.edu	37	chr16	4848176	4848176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggacggcagggcaggggCgaacatccgctgcgggaggc	7	3	20	11	5	0	0	0	0	0	0	2	3	1	2	1	7	2	3	1	7	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:4848176C>T	uc002cxv.2	-	8	643	c.541G>A	c.(541-543)GCC>ACC	p.A181T	ROGDI_uc002cxu.2_Missense_Mutation_p.A91T|ROGDI_uc010bua.2_RNA|ROGDI_uc002cxw.2_Missense_Mutation_p.A91T	NM_024589	NP_078865	Q9GZN7	ROGDI_HUMAN	leucine zipper domain protein	181						intracellular				ovary(1)|skin(1)	2						AGGGCAGGGGCGAACATCCGC	0.652													3	30					0	0	1	0	0		T	4848176	T	T	4848176	3	4	122	1	0	0	0	0	1	0	0	0	13545	768	27	1	338	1	ROGDI	16	4848176	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	831572	4848176	85506577	789	67792											
USP7	7874	broad.mit.edu	37	chr16	8987861	8987861	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccagcttggaaatcagttAtggattttaatggccttttc	10	15	8	8	0	1	0	1	0	0	0	2	2	1	2	2	3	1	2	2	3	3	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:8987861A>G	uc002czl.2	-	31	3502	c.3303T>C	c.(3301-3303)CAT>CAC	p.H1101H	USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Silent_p.H1002H|USP7_uc002czk.2_Silent_p.H1085H	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	1101					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						GAAATCAGTTATGGATTTTAA	0.512													14	125					0	0	1	0	0		G	8987861	G	G	8987861	2	3	122	1	0	0	0	0	0	0	0	1	17114	446	16	3		3	USP7	16	8987861	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	4139685	8987861	81366892	790	67793											
CIITA	4261	broad.mit.edu	37	chr16	11012339	11012339	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacctgggtgcctacaaactCgccgaggccctgccttcgct	6	8	11	16	3	0	0	0	0	0	0	2	2	0	0	5	2	4	1	5	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:11012339C>T	uc002dai.3	+	16	3238	c.3105C>T	c.(3103-3105)CTC>CTT	p.L1035L	CIITA_uc002daj.3_Silent_p.L1036L|CIITA_uc002dak.3_Silent_p.L451L	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	1035	LRR 2.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						CCTACAAACTCGCCGAGGCCC	0.632			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|						OREG0023606	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	50	312					0	0	1	0	0		T	11012339	T	T	11012339	2	4	122	1	0	0	0	0	0	0	0	1	3431	871	31	1		1	CIITA	16	11012339	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2024478	11012339	79342414	791	67794											
TMC5	79838	broad.mit.edu	37	chr16	19451656	19451656	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcctctagaacaagccCagaccatcctacctctctac	11	8	5	17	0	2	2	0	0	2	2	4	2	3	2	5	0	6	1	5	0	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:19451656C>A	uc002dgc.3	+	3	1045	c.296C>A	c.(295-297)CCA>CAA	p.P99Q	TMC5_uc010vaq.1_Missense_Mutation_p.P99Q|TMC5_uc002dgb.3_Missense_Mutation_p.P99Q|TMC5_uc010var.1_Missense_Mutation_p.P99Q	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	99	Extracellular (Potential).					integral to membrane				skin(1)	1						AGAACAAGCCCAGACCATCCT	0.483													29	202					1.17739e-12	1.36396e-12	1	1	0		A	19451656	A	A	19451656	3	1	122	1	0	0	0	0	1	0	0	0	16013	594	21	5	298	5	TMC5	16	19451656	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	8439317	19451656	70903097	792	67795											
CDR2	1039	broad.mit.edu	37	chr16	22359005	22359005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctcctccatagtcacccGcttctgccgctccaggctca	5	11	6	19	2	3	0	2	0	1	0	7	0	7	0	6	1	1	3	6	1	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:22359005G>A	uc002dkn.2	-	5	954	c.646C>T	c.(646-648)CGG>TGG	p.R216W		NM_001802	NP_001793	Q01850	CDR2_HUMAN	cerebellar degeneration-related protein 2	216	Potential.					nucleus	protein binding			skin(1)	1				GBM - Glioblastoma multiforme(48;0.0188)		ATAGTCACCCGCTTCTGCCGC	0.557													25	204					0	0	1	0	0		A	22359005	A	A	22359005	3	1	122	1	0	0	0	0	1	0	0	0	3175	1086	38	1	722	1	CDR2	16	22359005	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2907349	22359005	67995748	793	67796											
ERN2	10595	broad.mit.edu	37	chr16	23703645	23703645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagagaagatgtccacaGcgctggtctggagccagaga	11	6	14	10	1	1	3	0	0	1	3	2	6	2	4	2	2	3	2	2	2	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:23703645G>A	uc002dma.3	-	18	2421	c.2252C>T	c.(2251-2253)GCT>GTT	p.A751V	ERN2_uc010bxp.2_Missense_Mutation_p.A699V	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	703	Protein kinase.|Cytoplasmic (Potential).				apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		GATGTCCACAGCGCTGGTCTG	0.547													7	64					0	0	1	0	0		A	23703645	A	A	23703645	3	1	122	1	0	0	0	0	1	0	0	0	5246	971	34	2	692	2	ERN2	16	23703645	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1344640	23703645	66651108	794	67797											
GTF3C1	2975	broad.mit.edu	37	chr16	27499732	27499732	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccaaatattcaacctgctGttgcctagacataatcacag	13	10	5	13	0	2	1	2	0	0	1	2	1	2	1	4	0	3	2	4	0	5	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:27499732G>A	uc002dov.1	-	23	3556	c.3516C>T	c.(3514-3516)AAC>AAT	p.N1172N	GTF3C1_uc002dou.2_Silent_p.N1172N	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1172						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TCAACCTGCTGTTGCCTAGAC	0.537													10	152					0	0	1	0	0		A	27499732	A	A	27499732	2	1	122	1	0	0	0	0	0	0	0	1	6888	1368	48	4		4	GTF3C1	16	27499732	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3796087	27499732	62855021	795	67798											
PRRT2	112476	broad.mit.edu	37	chr16	29824719	29824719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgtccaaaccagaagtgaGcaaagaggccactgcagacc	15	4	11	11	0	0	4	0	1	0	3	1	4	1	4	4	1	3	2	4	1	3	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:29824719G>A	uc002due.3	+	2	645	c.344G>A	c.(343-345)AGC>AAC	p.S115N	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|uc002duc.1_5'Flank|PRRT2_uc002dud.2_Missense_Mutation_p.S115N|PRRT2_uc002duf.1_Missense_Mutation_p.S115N|C16orf53_uc002dug.3_5'Flank	NM_145239	NP_660282	Q7Z6L0	PRRT2_HUMAN	proline-rich transmembrane protein 2	115	Extracellular (Potential).				response to biotic stimulus	integral to membrane					0						CCAGAAGTGAGCAAAGAGGCC	0.622													10	94					0	0	1	0	0		A	29824719	A	A	29824719	3	1	122	1	0	0	0	0	1	0	0	0	12632	971	34	2	346	2	PRRT2	16	29824719	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2324987	29824719	60530034	796	67799											
ZNF689	115509	broad.mit.edu	37	chr16	30616285	30616285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggggtaggcgaagcgaCgtccacagctagggcactgg	9	4	19	9	3	0	0	0	0	0	0	1	3	1	1	1	6	2	3	1	6	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:30616285C>T	uc002dyx.2	-	3	1123	c.803G>A	c.(802-804)CGT>CAT	p.R268H	ZNF689_uc010bzy.2_5'UTR	NM_138447	NP_612456	Q96CS4	ZN689_HUMAN	zinc finger protein HIT-39	268	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			GGCGAAGCGACGTCCACAGCT	0.637													16	65					0	0	1	0	0		T	30616285	T	T	30616285	3	4	122	1	0	0	0	0	1	0	0	0	18119	536	19	1	703	1	ZNF689	16	30616285	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	791566	30616285	59738468	797	67800											
SRCAP	10847	broad.mit.edu	37	chr16	30735944	30735944	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actccagcccagacactgtcTttggcaccaggaccaccact	10	7	7	17	0	1	1	0	0	1	1	2	2	2	2	5	2	1	1	5	2	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:30735944T>G	uc002dze.1	+	25	5584	c.5199T>G	c.(5197-5199)TCT>TCG	p.S1733S	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Silent_p.S1528S|SRCAP_uc010bzz.1_Silent_p.S1303S	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1733	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			AGACACTGTCTTTGGCACCAG	0.532													14	119					0	0	1	0	0		G	30735944	G	G	30735944	2	3	122	1	0	0	0	0	0	0	0	1	15160	1596	56	5		5	SRCAP	16	30735944	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	119659	30735944	59618809	798	67801											
PHKG2	5261	broad.mit.edu	37	chr16	30762564	30762564	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagccacacggcgagagaCacacatccttcgccaggtcg	11	4	12	14	4	0	1	0	0	0	1	3	4	1	2	3	3	1	0	3	3	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:30762564C>G	uc002dzk.1	+	3	326	c.233C>G	c.(232-234)ACA>AGA	p.T78R	PHKG2_uc002dzi.1_Missense_Mutation_p.T78R|PHKG2_uc002dzj.1_5'UTR|PHKG2_uc002dzl.1_Missense_Mutation_p.T78R	NM_000294	NP_000285	P15735	PHKG2_HUMAN	phosphorylase kinase, gamma 2 (testis)	78	Protein kinase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			ovary(1)	1			Colorectal(24;0.198)			CGGCGAGAGACACACATCCTT	0.627													6	52					0	0	1	0	0		G	30762564	G	G	30762564	3	3	122	1	0	0	0	0	1	0	0	0	11866	478	17	5	239	5	PHKG2	16	30762564	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	26620	30762564	59592189	799	67802											
ITGAX	3687	broad.mit.edu	37	chr16	31374534	31374534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctacggggagcagggccacCcctggggtcgctttggggcg	4	7	18	12	3	1	0	0	0	1	0	2	1	1	1	3	7	2	2	3	7	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:31374534C>T	uc002ebu.1	+	14	1616	c.1549C>T	c.(1549-1551)CCC>TCC	p.P517S	ITGAX_uc002ebt.2_Missense_Mutation_p.P517S|ITGAX_uc010vfk.1_Missense_Mutation_p.P167S	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	517	Extracellular (Potential).|FG-GAP 6.				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCAGGGCCACCCCTGGGGTCG	0.632													17	146					0	0	1	0	0		T	31374534	T	T	31374534	3	4	122	1	0	0	0	0	1	0	0	0	7905	623	22	4	1603	4	ITGAX	16	31374534	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	611970	31374534	58980219	800	67803											
SLC5A2	6524	broad.mit.edu	37	chr16	31497187	31497187	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctgtctgtgctctccctTttcctgtacatcttcaccaa	6	16	4	15	0	4	0	1	0	3	0	6	0	5	0	4	0	3	2	4	0	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:31497187T>G	uc002ecf.3	+	4	460	c.441T>G	c.(439-441)CTT>CTG	p.L147L	SLC5A2_uc010car.2_RNA	NM_003041	NP_003032	P31639	SC5A2_HUMAN	solute carrier family 5 (sodium/glucose	147	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	low-affinity glucose:sodium symporter activity			ovary(1)	1						TGCTCTCCCTTTTCCTGTACA	0.597													15	65					0	0	1	0	0		G	31497187	G	G	31497187	2	3	122	1	0	0	0	0	0	0	0	1	14690	1828	64	5		5	SLC5A2	16	31497187	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	122653	31497187	58857566	801	67804											
ZNF423	23090	broad.mit.edu	37	chr16	49670025	49670025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccgtgagtgagttgcgcAggtcagggtgcatctggcag	7	8	17	9	2	2	2	1	2	1	0	2	2	2	2	1	3	3	4	1	3	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:49670025A>G	uc002efs.2	-	5	3336	c.3038T>C	c.(3037-3039)CTG>CCG	p.L1013P	ZNF423_uc010vgn.1_Missense_Mutation_p.L896P	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	1013					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				TGAGTTGCGCAGGTCAGGGTG	0.582													7	43					0	0	1	0	0		G	49670025	G	G	49670025	3	3	122	1	0	0	0	0	1	0	0	0	17923	188	7	3	836	3	ZNF423	16	49670025	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	18172838	49670025	40684728	802	67805											
SALL1	6299	broad.mit.edu	37	chr16	51171374	51171374	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggaacttgacgggattGcctcctagaaatgtcatggg	9	11	13	8	1	2	2	1	1	1	1	3	4	3	4	2	3	2	0	2	3	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:51171374G>A	uc010vgs.1	-	3	3655	c.3624C>T	c.(3622-3624)GGC>GGT	p.G1208G	SALL1_uc010vgr.1_Silent_p.G1111G|SALL1_uc010cbv.2_Silent_p.G60G	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	1208					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TGACGGGATTGCCTCCTAGAA	0.547													5	52					0	0	1	0	0		A	51171374	A	A	51171374	2	1	122	1	0	0	0	0	0	0	0	1	13835	1306	46	2		2	SALL1	16	51171374	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1501349	51171374	39183379	803	67806											
RPGRIP1L	23322	broad.mit.edu	37	chr16	53730177	53730177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacacgtgacactgcctggCgagacttcattgtccgtgtt	7	12	11	11	3	1	3	1	2	0	1	2	4	2	3	2	1	1	1	2	1	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:53730177C>T	uc002ehp.2	-	3	180	c.116G>A	c.(115-117)CGC>CAC	p.R39H	RPGRIP1L_uc002eho.3_Missense_Mutation_p.R39H|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.R39H|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.R39H|RPGRIP1L_uc010vgz.1_Missense_Mutation_p.R39H|RPGRIP1L_uc002ehq.1_Missense_Mutation_p.R39H|RPGRIP1L_uc010cby.1_Missense_Mutation_p.R39H	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	39					negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				CACTGCCTGGCGAGACTTCAT	0.398													16	190					0	0	1	0	0		T	53730177	T	T	53730177	3	4	122	1	0	0	0	0	1	0	0	0	13575	768	27	1	3931	1	RPGRIP1L	16	53730177	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2558803	53730177	36624576	804	67807											
CAPNS2	84290	broad.mit.edu	37	chr16	55601280	55601280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctaatgaagatggagatatGgattttaacaatttcatcag	15	13	9	4	0	2	3	2	1	0	2	2	5	2	4	0	2	1	1	0	2	5	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:55601280G>A	uc002eid.1	+	1	697	c.612G>A	c.(610-612)ATG>ATA	p.M204I	LPCAT2_uc002eie.3_Intron|LPCAT2_uc002eic.2_Intron	NM_032330	NP_115706	Q96L46	CPNS2_HUMAN	calpain small subunit 2	204	EF-hand 3.					cytoplasm|plasma membrane	calcium ion binding				0						ATGGAGATATGGATTTTAACA	0.478													40	227					0	0	1	0	0		A	55601280	A	A	55601280	3	1	122	1	0	0	0	0	1	0	0	0	2637	1348	47	4	614	4	CAPNS2	16	55601280	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1871103	55601280	34753473	805	67808											
CNGB1	1258	broad.mit.edu	37	chr16	57918087	57918087	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttactccgccttctcctccCtttcctccggcatcttcacc	3	14	3	21	2	3	0	1	0	2	0	8	0	7	0	7	1	1	1	7	1	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:57918087C>A	uc002emt.2	-	33	3802	c.3737G>T	c.(3736-3738)AGG>ATG	p.R1246M	CNGB1_uc010cdh.2_Missense_Mutation_p.R1240M	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	1246	Cytoplasmic (Potential).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						CTTCTCCTCCCTTTCCTCCGG	0.711													13	157					5.01169e-05	5.34135e-05	1	1	0		A	57918087	A	A	57918087	3	1	122	1	0	0	0	0	1	0	0	0	3603	681	24	5	22	5	CNGB1	16	57918087	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2316807	57918087	32436666	806	67809											
PRSS54	221191	broad.mit.edu	37	chr16	58324917	58324917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaactcgctcaggatgcagCcgaaagccaggtgtgtgtac	11	7	13	10	2	1	1	1	0	0	1	2	3	1	2	2	2	5	3	2	2	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:58324917C>T	uc002enf.2	-	4	604	c.209G>A	c.(208-210)GGC>GAC	p.G70D	PRSS54_uc002eng.2_Missense_Mutation_p.G70D|PRSS54_uc010vie.1_Intron	NM_001080492	NP_001073961	Q6PEW0	PRS54_HUMAN	plasma kallikrein-like protein 4 precursor	70	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CAGGATGCAGCCGAAAGCCAG	0.627													9	90					0	0	1	0	0		T	58324917	T	T	58324917	3	4	122	1	0	0	0	0	1	0	0	0	12655	739	26	2	994	2	PRSS54	16	58324917	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	406830	58324917	32029836	807	67810											
CA7	766	broad.mit.edu	37	chr16	66886682	66886682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccagccggcactactggaCctacccgggctctctgacga	7	7	11	16	3	1	1	0	1	1	0	2	3	1	2	4	3	4	2	4	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:66886682C>T	uc002eqi.2	+	6	693	c.584C>T	c.(583-585)ACC>ATC	p.T195I	uc002eqh.2_Intron|CA7_uc002eqj.2_Missense_Mutation_p.T139I	NM_005182	NP_005173	P43166	CAH7_HUMAN	carbonic anhydrase VII isoform 1	195					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		CACTACTGGACCTACCCGGGC	0.602													9	57					0	0	1	0	0		T	66886682	T	T	66886682	3	4	122	1	0	0	0	0	1	0	0	0	2525	507	18	4	606	4	CA7	16	66886682	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	8561765	66886682	23468071	808	67811											
EXOC3L	283849	broad.mit.edu	37	chr16	67221487	67221487	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcgtccagtctccacctcCgccacacgcacagcagccac	8	6	7	20	3	1	0	0	0	1	0	5	0	3	0	6	0	2	3	6	0	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:67221487C>T	uc002erx.1	-	5	922	c.681G>A	c.(679-681)GCG>GCA	p.A227A	EXOC3L_uc002erv.1_RNA|EXOC3L_uc002erw.1_Intron|EXOC3L_uc002ery.1_Silent_p.A171A|EXOC3L_uc010vje.1_Silent_p.A166A	NM_178516	NP_848611	Q86VI1	EX3L1_HUMAN	exocyst complex component 3-like	227	Mediates interaction with EXOC2, EXOC4 and EXOC5 (By similarity).				exocytosis|peptide hormone secretion	exocyst|stored secretory granule|transport vesicle					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0021)|Epithelial(162;0.0073)|all cancers(182;0.0616)		TCTCCACCTCCGCCACACGCA	0.692													4	50					0	0	1	0	0		T	67221487	T	T	67221487	2	4	122	1	0	0	0	0	0	0	0	1	5312	639	23	1		1	EXOC3L	16	67221487	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	334805	67221487	23133266	809	67812											
TMEM208	29100	broad.mit.edu	37	chr16	67262461	67262461	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctatgagctcgatggcaCgagcagcgttctctgaggat	9	10	12	10	3	2	2	0	2	2	0	4	5	2	3	0	2	3	4	0	2	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:67262461C>T	uc002esi.2	+	4	332	c.226C>T	c.(226-228)CGA>TGA	p.R76*	LRRC29_uc002ese.2_5'Flank|LRRC29_uc002esf.2_5'Flank|LRRC29_uc002esg.2_5'Flank|LRRC29_uc010vjg.1_5'Flank|TMEM208_uc002esj.2_RNA	NM_014187	NP_054906	Q9BTX3	TM208_HUMAN	HSPC171 protein	76						integral to membrane					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		CTCGATGGCACGAGCAGCGTT	0.602													8	33					0	0	1	0	0		T	67262461	T	T	67262461	4	4	122	1	0	0	0	0	0	1	0	0	16158	528	19	1	240	1	TMEM208	16	67262461	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	40974	67262461	23092292	810	67813											
SLC7A6	9057	broad.mit.edu	37	chr16	68330529	68330529	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctcaccccctctatttcaGctgagcgtgtttttccccat	5	15	5	16	1	3	1	2	1	2	0	5	1	4	1	4	0	2	2	4	0	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:68330529G>A	uc002evt.1	+	11	1579	c.1270_splice	c.e11-1	p.L424_splice	SLC7A6_uc002evu.1_Splice_Site_p.L424_splice|SLC7A6_uc002evv.1_Splice_Site|SLC7A6_uc010cfc.1_Splice_Site	NM_001076785	NP_001070253	Q92536	YLAT2_HUMAN	solute carrier family 7 (cationic amino acid						blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|antiporter activity			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.0948)		CTCTATTTCAGCTGAGCGTGT	0.527													24	199					0	0	1	0	0		A	68330529	A	A	68330529	5	1	122	1	0	0	0	0	0	0	1	0	14726	985	34	2	1299	2	SLC7A6	16	68330529	Splice_Site	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1068068	68330529	22024224	811	67814											
NFAT5	10725	broad.mit.edu	37	chr16	69660331	69660331	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctatgatcttctcccaaaGgagttacagttacctccatc	10	13	6	12	0	3	1	0	1	3	0	6	2	4	2	3	1	2	2	3	1	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:69660331G>T	uc002exm.1	+	2	1307	c.99G>T	c.(97-99)AAG>AAT	p.K33N	NFAT5_uc002exh.1_Translation_Start_Site|NFAT5_uc002exi.2_Translation_Start_Site|NFAT5_uc002exj.1_Translation_Start_Site|NFAT5_uc002exk.1_Translation_Start_Site|NFAT5_uc002exl.1_Missense_Mutation_p.K51N|NFAT5_uc002exn.1_Missense_Mutation_p.K51N	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	33					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						TTCTCCCAAAGGAGTTACAGT	0.443													10	77					6.40141e-05	6.79831e-05	1	1	0		T	69660331	T	T	69660331	3	4	122	1	0	0	0	0	1	0	0	0	10379	991	35	5	163	5	NFAT5	16	69660331	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1329802	69660331	20694422	812	67815											
NFAT5	10725	broad.mit.edu	37	chr16	69727103	69727103	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtcagacttctacaacCtcctctgaacaaatgcagcc	13	8	5	15	0	3	2	1	1	2	1	4	2	4	2	3	0	5	1	3	0	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:69727103C>A	uc002exm.1	+	12	4529	c.3321C>A	c.(3319-3321)ACC>ACA	p.T1107T	NFAT5_uc002exi.2_Silent_p.T1031T|NFAT5_uc002exj.1_Silent_p.T1031T|NFAT5_uc002exk.1_Silent_p.T1031T|NFAT5_uc002exl.1_Silent_p.T1125T|NFAT5_uc002exn.1_Silent_p.T1124T|NFAT5_uc002exo.1_RNA	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	1107					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						CTTCTACAACCTCCTCTGAAC	0.443													30	139					3.65163e-15	4.2632e-15	1	1	0		A	69727103	A	A	69727103	2	1	122	1	0	0	0	0	0	0	0	1	10379	668	24	5		5	NFAT5	16	69727103	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	66772	69727103	20627650	813	67816											
NFAT5	10725	broad.mit.edu	37	chr16	69727684	69727684	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaatccaatggctaatcAggagcaacagaaccagtcaa	18	6	7	10	0	3	1	3	0	0	1	4	2	4	2	2	2	3	2	2	2	7	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:69727684A>G	uc002exm.1	+	12	5110	c.3902A>G	c.(3901-3903)CAG>CGG	p.Q1301R	NFAT5_uc002exi.2_Missense_Mutation_p.Q1225R|NFAT5_uc002exj.1_Missense_Mutation_p.Q1225R|NFAT5_uc002exk.1_Missense_Mutation_p.Q1225R|NFAT5_uc002exl.1_Missense_Mutation_p.Q1319R|NFAT5_uc002exn.1_Missense_Mutation_p.Q1318R|NFAT5_uc002exo.1_RNA	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	1301					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						ATGGCTAATCAGGAGCAACAG	0.413													15	75					0	0	1	0	0		G	69727684	G	G	69727684	3	3	122	1	0	0	0	0	1	0	0	0	10379	188	7	3	4006	3	NFAT5	16	69727684	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	581	69727684	20627069	814	67817											
AARS	16	broad.mit.edu	37	chr16	70305734	70305734	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctccagcacattagggtcGtcctggttgacaagatgtgc	9	11	11	10	1	1	2	0	1	1	1	4	2	2	2	2	2	2	2	2	2	2	2	rs147424208	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:70305734G>A	uc002eyn.1	-	5	731	c.621C>T	c.(619-621)GAC>GAT	p.D207D	AARS_uc010vlu.1_Silent_p.D37D	NM_001605	NP_001596	P49588	SYAC_HUMAN	alanyl-tRNA synthetase	207					alanyl-tRNA aminoacylation|tRNA processing	cytosol|soluble fraction	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			pancreas(1)	1		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)	L-Alanine(DB00160)	CATTAGGGTCGTCCTGGTTGA	0.557													8	89					0	0	1	0	0		A	70305734	A	A	70305734	2	1	122	1	0	0	0	0	0	0	0	1	19	1136	40	1		1	AARS	16	70305734	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	578050	70305734	20049019	815	67818											
ZFHX3	463	broad.mit.edu	37	chr16	72822269	72822269	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaggaactggcttgtgagCaatgctgtggggtccgaagt	9	9	17	6	1	0	1	0	1	0	0	1	4	1	3	1	5	3	3	1	5	4	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:72822269C>T	uc002fck.2	-	10	10579	c.9906G>A	c.(9904-9906)TTG>TTA	p.L3302L	ZFHX3_uc002fcl.2_Silent_p.L2388L	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3302					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GGCTTGTGAGCAATGCTGTGG	0.597													20	85					0	0	1	0	0		T	72822269	T	T	72822269	2	4	122	1	0	0	0	0	0	0	0	1	17659	709	25	2		2	ZFHX3	16	72822269	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2516535	72822269	17532484	816	67819											
ZFHX3	463	broad.mit.edu	37	chr16	72992505	72992505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgctgctactacctgctgCggccccaggctcctcatggg	4	11	11	15	1	1	0	1	0	0	0	2	0	2	0	4	3	6	4	4	3	2	3	rs150708008		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:72992505C>T	uc002fck.2	-	2	2213	c.1540G>A	c.(1540-1542)GCA>ACA	p.A514T	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	514					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CTACCTGCTGCGGCCCCAGGC	0.473													16	120					0	0	1	0	0		T	72992505	T	T	72992505	3	4	122	1	0	0	0	0	1	0	0	0	17659	768	27	1	9607	1	ZFHX3	16	72992505	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	170236	72992505	17362248	817	67820											
BCAR1	9564	broad.mit.edu	37	chr16	75263732	75263732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacggcggtaaagaaggCgtccacggcgttggtcagtg	8	6	17	10	5	1	1	1	0	0	1	2	1	2	1	2	6	0	2	2	6	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:75263732C>T	uc002fdv.2	-	7	2413	c.2290G>A	c.(2290-2292)GCC>ACC	p.A764T	BCAR1_uc002fdt.2_Missense_Mutation_p.A217T|BCAR1_uc002fdu.2_Missense_Mutation_p.A554T|BCAR1_uc010cgu.2_Missense_Mutation_p.A753T|BCAR1_uc010vna.1_Missense_Mutation_p.A762T|BCAR1_uc010vnb.1_Missense_Mutation_p.A810T|BCAR1_uc002fdw.2_Missense_Mutation_p.A764T|BCAR1_uc010vnc.1_Missense_Mutation_p.A616T|BCAR1_uc010vnd.1_Missense_Mutation_p.A782T|BCAR1_uc002fdx.2_Missense_Mutation_p.A782T	NM_014567	NP_055382	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	764	Divergent helix-loop-helix motif.				actin filament organization|B cell receptor signaling pathway|blood coagulation|cell adhesion|cell division|cell migration|cell proliferation|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|integrin-mediated signaling pathway|nerve growth factor receptor signaling pathway|platelet-derived growth factor receptor signaling pathway|positive regulation of cell migration|regulation of apoptosis|regulation of cell growth|T cell receptor signaling pathway	cytosol|focal adhesion|membrane fraction|ruffle	protein kinase binding|protein phosphatase binding|SH3 domain binding|signal transducer activity			central_nervous_system(5)|breast(2)|prostate(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.169)		GTAAAGAAGGCGTCCACGGCG	0.642													8	120					0	0	1	0	0		T	75263732	T	T	75263732	3	4	122	1	0	0	0	0	1	0	0	0	1349	768	27	1	326	1	BCAR1	16	75263732	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2271227	75263732	15091021	818	67821											
ADAMTS18	170692	broad.mit.edu	37	chr16	77465453	77465453	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccgttgtgcaaaatgtcGtgtgaaatatatgacccggc	10	11	11	9	3	0	2	0	2	0	0	1	2	0	2	2	1	2	2	2	1	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:77465453G>A	uc002ffc.3	-	3	653	c.234C>T	c.(232-234)CAC>CAT	p.H78H	ADAMTS18_uc002ffe.1_Translation_Start_Site|ADAMTS18_uc010vni.1_RNA	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	78					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						GCAAAATGTCGTGTGAAATAT	0.488													9	337					0	0	1	0	0		A	77465453	A	A	77465453	2	1	122	1	0	0	0	0	0	0	0	1	263	1136	40	1		1	ADAMTS18	16	77465453	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2201721	77465453	12889300	819	67822											
CMIP	80790	broad.mit.edu	37	chr16	81730231	81730231	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagctctacagccccggaGgggtggcctgcgacgatgac	7	6	14	14	3	1	1	0	1	1	0	2	4	2	2	4	4	4	1	4	4	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:81730231G>T	uc002fgp.2	+	14	1669	c.1597G>T	c.(1597-1599)GGG>TGG	p.G533W	CMIP_uc002fgq.1_Missense_Mutation_p.G439W|CMIP_uc010vnq.1_Missense_Mutation_p.G346W|CMIP_uc002fgr.1_Missense_Mutation_p.G380W|CMIP_uc010vnr.1_Missense_Mutation_p.G99W	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	499						cytoplasm|nucleus					0						CAGCCCCGGAGGGGTGGCCTG	0.647													5	60					2.7689e-08	3.10562e-08	1	1	0		T	81730231	T	T	81730231	3	4	122	1	0	0	0	0	1	0	0	0	3581	1000	35	5	1673	5	CMIP	16	81730231	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4264778	81730231	8624522	820	67823											
HSD17B2	3294	broad.mit.edu	37	chr16	82104706	82104706	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttagaaaatccaaagggaGgctggtgaatgtcagcagca	14	8	12	7	0	2	2	1	1	1	1	3	3	3	3	1	3	2	3	1	3	5	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:82104706G>T	uc002fgv.2	+	3	810	c.638G>T	c.(637-639)AGG>ATG	p.R213M		NM_002153	NP_002144	P37059	DHB2_HUMAN	hydroxysteroid (17-beta) dehydrogenase 2	213					response to retinoic acid|steroid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity|binding|estradiol 17-beta-dehydrogenase activity|testosterone 17-beta-dehydrogenase (NAD+) activity			ovary(1)|central_nervous_system(1)	2					NADH(DB00157)	TCCAAAGGGAGGCTGGTGAAT	0.478													18	128					6.21321e-17	7.27504e-17	1	1	0		T	82104706	T	T	82104706	3	4	122	1	0	0	0	0	1	0	0	0	7400	1000	35	5	648	5	HSD17B2	16	82104706	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	374475	82104706	8250047	821	67824											
ZDHHC7	55625	broad.mit.edu	37	chr16	85009967	85009967	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcacactgagaactccggGccaccttttctgggtctcgt	6	11	9	15	2	3	1	1	1	2	1	5	2	4	1	4	2	1	0	4	2	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:85009967G>A	uc002fiq.2	-	8	1262	c.909C>T	c.(907-909)GGC>GGT	p.G303G	ZDHHC7_uc010voi.1_Silent_p.G340G|ZDHHC7_uc002fir.1_RNA	NM_017740	NP_060210	Q9NXF8	ZDHC7_HUMAN	zinc finger, DHHC-type containing 7 isoform 2	303						integral to membrane	acyltransferase activity|protein binding|zinc ion binding			large_intestine(1)	1						AGAACTCCGGGCCACCTTTTC	0.532													25	110					0	0	1	0	0		A	85009967	A	A	85009967	2	1	122	1	0	0	0	0	0	0	0	1	17645	1190	42	2		2	ZDHHC7	16	85009967	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2905261	85009967	5344786	822	67825											
ZCCHC14	23174	broad.mit.edu	37	chr16	87493704	87493704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctccaaactattactgaCactgctgacaggggcctcag	11	10	8	12	0	2	2	1	2	1	0	3	2	2	2	2	2	3	1	2	2	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:87493704C>T	uc002fjz.1	-	2	220	c.193G>A	c.(193-195)GTC>ATC	p.V65I	ZCCHC14_uc002fka.1_RNA	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	65					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		CTATTACTGACACTGCTGACA	0.478													24	149					0	0	1	0	0		T	87493704	T	T	87493704	3	4	122	1	0	0	0	0	1	0	0	0	17608	478	17	4	2704	4	ZCCHC14	16	87493704	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2483737	87493704	2861049	823	67826											
ZNF778	197320	broad.mit.edu	37	chr16	89293323	89293323	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggaaaagccttcagctcTactccaaatgttgtttccca	10	13	7	11	0	2	0	1	0	1	0	4	1	4	1	3	1	3	3	3	1	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr16:89293323T>C	uc002fmv.2	+	6	882	c.543T>C	c.(541-543)TCT>TCC	p.S181S	ZNF778_uc010vpf.1_Intron|ZNF778_uc002fmw.1_Silent_p.S139S|ZNF778_uc010vpg.1_5'UTR	NM_182531	NP_872337	Q96MU6	ZN778_HUMAN	zinc finger protein 778	181					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0269)		CCTTCAGCTCTACTCCAAATG	0.448													12	142					0	0	1	0	0		C	89293323	C	C	89293323	2	2	122	1	0	0	0	0	0	0	0	1	18176	1509	53	3		3	ZNF778	16	89293323	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1799619	89293323	1061430	824	67827											
SCARF1	8578	broad.mit.edu	37	chr17	1538704	1538704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggagagcctcttgggctttCggagcgggctggagagctcc	5	8	18	10	2	1	2	0	0	1	2	3	5	2	3	2	5	3	3	2	5	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:1538704C>T	uc002fsz.1	-	11	1891	c.1841G>A	c.(1840-1842)CGA>CAA	p.R614Q	SCARF1_uc002fsy.1_3'UTR|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Missense_Mutation_p.R528Q	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	614	Pro/Ser-rich.|Cytoplasmic (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CTTGGGCTTTCGGAGCGGGCT	0.662													8	67					0	0	1	0	0		T	1538704	T	T	1538704	3	4	122	1	0	0	0	0	1	0	0	0	13908	884	31	1	655	1	SCARF1	17	1538704	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08		1538704	79656506	825	67828											
RTN4RL1	146760	broad.mit.edu	37	chr17	1841018	1841018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgaccgtcatgggcgccGggtagcacacacagtcccgt	8	6	13	14	4	1	1	1	1	0	0	2	1	2	1	3	2	2	3	3	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:1841018G>A	uc002ftp.2	-	2	117	c.98C>T	c.(97-99)CCG>CTG	p.P33L		NM_178568	NP_848663	Q86UN2	R4RL1_HUMAN	reticulon 4 receptor-like 1 precursor	33	LRRNT.				axon regeneration	anchored to plasma membrane	receptor activity				0						CATGGGCGCCGGGTAGCACAC	0.657													7	44					0	0	1	0	0		A	1841018	A	A	1841018	3	1	122	1	0	0	0	0	1	0	0	0	13756	1116	39	1	1231	1	RTN4RL1	17	1841018	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	302314	1841018	79354192	826	67829											
SMG6	23293	broad.mit.edu	37	chr17	2186096	2186096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagacttctttcctttccGccactggtcagggctcaggt	6	13	10	12	1	3	1	2	0	1	1	5	1	5	1	3	3	0	2	3	3	1	4	rs149940409		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:2186096G>A	uc002fub.1	-	8	2561	c.2506C>T	c.(2506-2508)CGG>TGG	p.R836W		NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	836					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						TTTCCTTTCCGCCACTGGTCA	0.448													8	69					0	0	1	0	0		A	2186096	A	A	2186096	3	1	122	1	0	0	0	0	1	0	0	0	14822	1086	38	1	1801	1	SMG6	17	2186096	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	345078	2186096	79009114	827	67830											
OR1E2	8388	broad.mit.edu	37	chr17	3336588	3336588	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcacagaaaaagtgggggAtcacattgtctgcacaaaaa	17	8	9	7	0	3	1	2	0	1	1	3	2	3	2	0	2	1	1	0	2	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:3336588A>G	uc010vre.1	-	1	548	c.548T>C	c.(547-549)ATC>ACC	p.I183T		NM_003554	NP_003545	P47887	OR1E2_HUMAN	olfactory receptor, family 1, subfamily E,	183	Extracellular (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			large_intestine(1)	1						AAAGTGGGGGATCACATTGTC	0.493													8	49					0	0	1	0	0		G	3336588	G	G	3336588	3	3	122	1	0	0	0	0	1	0	0	0	10974	333	12	3	426	3	OR1E2	17	3336588	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1150492	3336588	77858622	828	67831											
ANKFY1	51479	broad.mit.edu	37	chr17	4145690	4145690	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccagcttcttctgcagctTgacatactcctgccgcagaa	8	10	8	15	2	2	2	0	1	2	1	3	2	3	2	3	0	5	4	3	0	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:4145690T>C	uc002fxq.1	-	2	102	c.64A>G	c.(64-66)AAG>GAG	p.K22E	ANKFY1_uc002fxn.2_Missense_Mutation_p.K64E|ANKFY1_uc002fxo.2_Missense_Mutation_p.K22E|ANKFY1_uc002fxp.2_Missense_Mutation_p.K22E|ANKFY1_uc010ckp.2_Silent_p.S2S|ANKFY1_uc002fxr.2_Missense_Mutation_p.K22E|ANKFY1_uc010vrz.1_Missense_Mutation_p.K22E	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	22						endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						TTCTGCAGCTTGACATACTCC	0.557													28	182					0	0	1	0	0		C	4145690	C	C	4145690	3	2	122	1	0	0	0	0	1	0	0	0	626	1821	63	3	3636	3	ANKFY1	17	4145690	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	809102	4145690	77049520	829	67832											
ALOX15	246	broad.mit.edu	37	chr17	4539052	4539052	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagaaggggataaggagttAccttgaagataggatgtatc	15	9	14	3	0	0	3	0	1	0	2	1	7	0	6	1	4	1	2	1	4	6	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:4539052A>G	uc002fyh.2	-	8	1175	c.1161_splice	c.e8+1	p.K387_splice	ALOX15_uc010vsd.1_Splice_Site_p.K348_splice|ALOX15_uc010vse.1_Splice_Site_p.K409_splice	NM_001140	NP_001131	P16050	LOX15_HUMAN	arachidonate 15-lipoxygenase						inflammatory response|leukotriene biosynthetic process	nucleus	arachidonate 15-lipoxygenase activity|iron ion binding|lipoxygenase activity			skin(3)|ovary(1)|lung(1)	5				READ - Rectum adenocarcinoma(115;0.0327)	Ciclopirox(DB01188)|Masoprocol(DB00179)|Zileuton(DB00744)	ATAAGGAGTTACCTTGAAGAT	0.562													9	43					0	0	1	0	0		G	4539052	G	G	4539052	5	3	122	1	0	0	0	0	0	0	1	0	538	405	14	3	853	3	ALOX15	17	4539052	Splice_Site	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	393362	4539052	76656158	830	67833											
PSMB6	5694	broad.mit.edu	37	chr17	4700797	4700797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgaccgcattttctgctgtCgctcaggctcagctgctgat	6	12	10	13	3	3	1	2	1	1	0	4	2	3	1	1	1	3	6	1	1	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:4700797C>T	uc002fzb.2	+	3	268	c.235C>T	c.(235-237)CGC>TGC	p.R79C		NM_002798	NP_002789	P28072	PSB6_HUMAN	proteasome beta 6 subunit precursor	79					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity			ovary(2)	2						TTTCTGCTGTCGCTCAGGCTC	0.557													20	80					0	0	1	0	0		T	4700797	T	T	4700797	3	4	122	1	0	0	0	0	1	0	0	0	12703	884	31	1	245	1	PSMB6	17	4700797	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	161745	4700797	76494413	831	67834											
CAMTA2	23125	broad.mit.edu	37	chr17	4883429	4883429	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctcggggaagtctgggctTactccctgcccccctccata	5	9	10	17	1	1	0	0	0	1	0	4	1	3	1	6	3	2	1	6	3	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:4883429T>C	uc002gah.1	-	9	1296	c.1188A>G	c.(1186-1188)GTA>GTG	p.V396V	CAMTA2_uc010cku.1_Silent_p.V419V|CAMTA2_uc002gag.1_Silent_p.V395V|CAMTA2_uc002gai.1_Silent_p.V398V|CAMTA2_uc010ckv.1_Silent_p.V43V|CAMTA2_uc010vsu.1_Silent_p.V209V	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	396					cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						AGTCTGGGCTTACTCCCTGCC	0.657													11	62					0	0	1	0	0		C	4883429	C	C	4883429	2	2	122	1	0	0	0	0	0	0	0	1	2617	1741	61	3		3	CAMTA2	17	4883429	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	182632	4883429	76311781	832	67835											
PITPNM3	83394	broad.mit.edu	37	chr17	6376136	6376136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacctggctgcaggcaggacGcacctggaagcctggggtga	8	5	17	11	1	0	1	0	1	0	0	0	4	0	3	3	6	2	4	3	6	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:6376136G>A	uc002gdd.3	-	11	1421	c.1270C>T	c.(1270-1272)CGT>TGT	p.R424C	PITPNM3_uc010cln.2_Missense_Mutation_p.R388C|PITPNM3_uc010clm.2_5'UTR|PITPNM3_uc002gdc.3_Missense_Mutation_p.R15C	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	424	DDHD.				phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		CAGGCAGGACGCACCTGGAAG	0.632											OREG0024122	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	42					0	0	1	0	0		A	6376136	A	A	6376136	3	1	122	1	0	0	0	0	1	0	0	0	11971	1087	38	1	1694	1	PITPNM3	17	6376136	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1492707	6376136	74819074	833	67836											
SLC13A5	284111	broad.mit.edu	37	chr17	6606371	6606371	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctggccgcgtagcagaTgcacagggtcatggccttac	8	8	14	11	2	1	1	1	0	0	1	1	2	1	1	2	3	4	4	2	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:6606371T>C	uc002gdj.2	-	5	722	c.634A>G	c.(634-636)ATC>GTC	p.I212V	SLC13A5_uc010vtf.1_Missense_Mutation_p.I212V|SLC13A5_uc010clq.2_Missense_Mutation_p.I169V|SLC13A5_uc002gdk.2_Missense_Mutation_p.I195V|SLC13A5_uc002gdl.1_Missense_Mutation_p.I194V	NM_177550	NP_808218	Q86YT5	S13A5_HUMAN	solute carrier family 13, member 5 isoform a	212						integral to membrane	citrate transmembrane transporter activity				0						GCGTAGCAGATGCACAGGGTC	0.622													18	124					0	0	1	0	0		C	6606371	C	C	6606371	3	2	122	1	0	0	0	0	1	0	0	0	14420	1464	51	3	1104	3	SLC13A5	17	6606371	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	230235	6606371	74588839	834	67837											
ACAP1	9744	broad.mit.edu	37	chr17	7250431	7250431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagggagcctgggggagtcGggcacgtggtggcccaggtc	6	5	21	9	2	0	0	0	0	0	0	2	3	0	2	2	7	1	1	2	7	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:7250431G>A	uc002ggd.2	+	14	1419	c.1213G>A	c.(1213-1215)GGG>AGG	p.G405R		NM_014716	NP_055531	Q15027	ACAP1_HUMAN	centaurin beta1	405	Arf-GAP.|Required for interaction with GULP1.				intracellular signal transduction|lipid metabolic process|protein transport|regulation of ARF GTPase activity		ARF GTPase activator activity|phospholipase C activity|protein binding|zinc ion binding			breast(2)|large_intestine(1)	3						TGGGGGAGTCGGGCACGTGGT	0.677													6	48					0	0	1	0	0		A	7250431	A	A	7250431	3	1	122	1	0	0	0	0	1	0	0	0	118	1116	39	1	1267	1	ACAP1	17	7250431	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	644060	7250431	73944779	835	67838											
PFAS	5198	broad.mit.edu	37	chr17	8170707	8170707	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtggtcccagcccccgaGtcgccatcttgcgagaggag	8	6	14	13	3	1	1	0	0	1	1	3	4	2	2	4	3	2	0	4	3	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:8170707G>C	uc002gkr.2	+	25	3334	c.3193G>C	c.(3193-3195)GTC>CTC	p.V1065L	PFAS_uc010vuv.1_Missense_Mutation_p.V641L|PFAS_uc002gks.2_Missense_Mutation_p.V144L	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	1065	Glutamine amidotransferase type-1.				'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CAGCCCCCGAGTCGCCATCTT	0.617													29	176					0	0	1	0	0		C	8170707	C	C	8170707	3	2	122	1	0	0	0	0	1	0	0	0	11773	1029	36	5	3287	5	PFAS	17	8170707	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	920276	8170707	73024503	836	67839											
ARHGEF15	22899	broad.mit.edu	37	chr17	8224225	8224225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaagtcacaggggaacacGaaaggaggaggcaccttcgc	13	4	15	9	2	1	1	1	1	0	0	2	5	1	4	1	5	1	1	1	5	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:8224225G>A	uc002glc.2	+	16	2561	c.2440G>A	c.(2440-2442)GAA>AAA	p.E814K	ARHGEF15_uc002gld.2_Missense_Mutation_p.E814K|ARHGEF15_uc010vuw.1_Missense_Mutation_p.E703K	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	814					negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						AGGGGAACACGAAAGGAGGAG	0.612													15	85					0	0	1	0	0		A	8224225	A	A	8224225	3	1	122	1	0	0	0	0	1	0	0	0	898	1059	37	1	2498	1	ARHGEF15	17	8224225	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	53518	8224225	72970985	837	67840											
NTN1	9423	broad.mit.edu	37	chr17	9066226	9066226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtctgcctcaactgtcGccacaacaccgccggccgcc	7	6	10	18	4	2	0	1	0	1	0	3	0	2	0	6	2	3	0	6	2	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:9066226G>A	uc002glw.3	+	3	1222	c.1115G>A	c.(1114-1116)CGC>CAC	p.R372H		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	372	Laminin EGF-like 2.				apoptosis|axon guidance		protein binding				0						CTCAACTGTCGCCACAACACC	0.627													9	30					0	0	1	0	0		A	9066226	A	A	9066226	3	1	122	1	0	0	0	0	1	0	0	0	10719	1087	38	1	1121	1	NTN1	17	9066226	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	842001	9066226	72128984	838	67841											
DNAH9	1770	broad.mit.edu	37	chr17	11556249	11556249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttctttctctggatgatcGgcatgatcgaatggaaaaat	11	13	9	8	2	2	2	0	2	2	0	5	5	2	4	1	3	0	1	1	3	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:11556249G>A	uc002gne.2	+	14	2593	c.2525G>A	c.(2524-2526)CGG>CAG	p.R842Q	DNAH9_uc010coo.2_Missense_Mutation_p.R136Q	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	842	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CTGGATGATCGGCATGATCGA	0.418													18	94					0	0	1	0	0		A	11556249	A	A	11556249	3	1	122	1	0	0	0	0	1	0	0	0	4614	1116	39	1	2579	1	DNAH9	17	11556249	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2490023	11556249	69638961	839	67842											
RAI1	10743	broad.mit.edu	37	chr17	17696894	17696894	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggtacccactttcctcAgcattcccagtccttcccca	7	10	5	19	0	1	0	1	0	0	0	5	0	5	0	7	1	2	2	7	1	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:17696894A>G	uc002grm.2	+	3	1101	c.632A>G	c.(631-633)CAG>CGG	p.Q211R	RAI1_uc002grn.1_Missense_Mutation_p.Q211R	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	211	Gln-rich.					cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CACTTTCCTCAGCATTCCCAG	0.632													16	103					0	0	1	0	0		G	17696894	G	G	17696894	3	3	122	1	0	0	0	0	1	0	0	0	13032	188	7	3	634	3	RAI1	17	17696894	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	6140645	17696894	63498316	840	67843											
TOP3A	7156	broad.mit.edu	37	chr17	18188830	18188830	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctccgcatgagtggcatcCgtacctggaagccacttgct	7	10	11	13	2	0	1	0	1	0	0	2	2	2	2	4	2	4	5	4	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:18188830C>A	uc002gsx.1	-	14	1831	c.1602G>T	c.(1600-1602)ACG>ACT	p.T534T	TOP3A_uc010cpz.1_5'UTR|TOP3A_uc010vxr.1_Silent_p.T64T|TOP3A_uc002gsw.1_5'UTR|TOP3A_uc010vxs.1_Silent_p.T432T	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	534					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						GAGTGGCATCCGTACCTGGAA	0.607													7	41					0.00198382	0.00205052	1	1	0		A	18188830	A	A	18188830	2	1	122	1	0	0	0	0	0	0	0	1	16393	639	23	5		5	TOP3A	17	18188830	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	491936	18188830	63006380	841	67844											
MAPK7	5598	broad.mit.edu	37	chr17	19284070	19284070	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtcatccaccgtgaccTgaagccctccaacctattgg	9	9	8	15	1	2	2	2	2	0	0	4	2	4	2	6	2	2	0	6	2	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:19284070T>C	uc002gvn.2	+	4	934	c.548T>C	c.(547-549)CTG>CCG	p.L183P	B9D1_uc010cqm.1_5'Flank|B9D1_uc002gvl.3_5'Flank|MAPK7_uc002gvo.2_Missense_Mutation_p.L44P|MAPK7_uc002gvq.2_Missense_Mutation_p.L183P|MAPK7_uc002gvp.2_Missense_Mutation_p.L183P	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	183	Necessary for oligomerization (By similarity).|Protein kinase.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					CACCGTGACCTGAAGCCCTCC	0.562													5	33					0	0	1	0	0		C	19284070	C	C	19284070	3	2	122	1	0	0	0	0	1	0	0	0	9300	1580	55	3	558	3	MAPK7	17	19284070	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	1095240	19284070	61911140	842	67845											
SLC47A2	146802	broad.mit.edu	37	chr17	19582127	19582127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtaggagctgaaagggCgtgggcctcctctggagtcc	6	8	17	10	1	1	1	0	1	1	0	3	3	3	3	3	5	1	3	3	5	2	1	rs113234335		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:19582127C>T	uc002gwe.3	-	17	1856	c.1681G>A	c.(1681-1683)GCC>ACC	p.A561T	SLC47A2_uc002gwg.3_Missense_Mutation_p.A525T|SLC47A2_uc002gwf.3_Missense_Mutation_p.A539T|SLC47A2_uc002gwh.3_RNA|SLC47A2_uc002gwi.2_RNA	NM_152908	NP_690872	Q86VL8	S47A2_HUMAN	solute carrier family 47, member 2 isoform 1	561	Cytoplasmic (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.3e-05)|all_epithelial(12;0.0024)|Breast(13;0.245)					GCTGAAAGGGCGTGGGCCTCC	0.597													7	46					0	0	1	0	0		T	19582127	T	T	19582127	3	4	122	1	0	0	0	0	1	0	0	0	14673	768	27	1	131	1	SLC47A2	17	19582127	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	298057	19582127	61613083	843	67846											
TMEM11	8834	broad.mit.edu	37	chr17	21101950	21101950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggtgaagaggcaggcggtgCccgccagcacggccgtcttg	6	5	18	12	4	1	2	0	1	1	1	1	2	1	2	3	5	2	2	3	5	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:21101950C>T	uc002gyp.2	-	2	709	c.266G>A	c.(265-267)GGC>GAC	p.G89D	TMEM11_uc002gyq.2_3'UTR	NM_003876	NP_003867	P17152	TMM11_HUMAN	transmembrane protein 11	89	Helical; (Potential).				mitochondrion organization	integral to mitochondrial inner membrane|integral to plasma membrane	protein binding				0						GCAGGCGGTGCCCGCCAGCAC	0.612													11	63					0	0	1	0	0		T	21101950	T	T	21101950	3	4	122	1	0	0	0	0	1	0	0	0	16051	739	26	2	316	2	TMEM11	17	21101950	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1519823	21101950	60093260	844	67847											
KCNJ12	3768	broad.mit.edu	37	chr17	21319207	21319207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgccatcatggccaagatgGcaaggcccaagaagcgggca	12	4	14	11	1	1	2	1	0	0	2	1	2	1	2	3	4	2	2	3	4	4	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:21319207G>A	uc002gyv.1	+	3	1258	c.553G>A	c.(553-555)GCA>ACA	p.A185T		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	185	Cytoplasmic (By similarity).			A -> V (in Ref. 2; AAC50615).	blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GGCCAAGATGGCAAGGCCCAA	0.622										Prostate(3;0.18)			8	88					0	0	1	0	0		A	21319207	A	A	21319207	3	1	122	1	0	0	0	0	1	0	0	0	8062	1203	42	2	555	2	KCNJ12	17	21319207	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	217257	21319207	59876003	845	67848											
CCL1	6346	broad.mit.edu	37	chr17	32688803	32688803	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgagcaggtgatcacttaCattaagccctcattggagca	12	11	9	9	0	2	2	2	2	0	0	2	3	2	3	1	2	4	2	1	2	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:32688803C>T	uc002hid.1	-	2	260	c.188_splice	c.e2+1	p.I63_splice		NM_002981	NP_002972	P22362	CCL1_HUMAN	small inducible cytokine A1 precursor						cellular calcium ion homeostasis|chemotaxis|immune response|signal transduction|viral reproduction	extracellular space	chemokine activity				0		Ovarian(249;0.0443)|Breast(31;0.133)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)|BRCA - Breast invasive adenocarcinoma(366;0.155)		TGATCACTTACATTAAGCCCT	0.463											OREG0024322	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	180					0	0	1	0	0		T	32688803	T	T	32688803	5	4	122	1	0	0	0	0	0	0	1	0	2885	492	17	4	109	4	CCL1	17	32688803	Splice_Site	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	11369596	32688803	48506407	846	67849											
GPR179	440435	broad.mit.edu	37	chr17	36499065	36499065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgaggctccctaggtcattgGtcaacactcgcttcttcagg	7	11	10	13	2	4	0	3	0	1	0	6	1	5	0	1	4	1	2	1	4	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:36499065G>A	uc002hpz.2	-	1	629	c.608C>T	c.(607-609)ACC>ATC	p.T203I		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	203	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				TAGGTCATTGGTCAACACTCG	0.617													12	111					0	0	1	0	0		A	36499065	A	A	36499065	3	1	122	1	0	0	0	0	1	0	0	0	6689	1261	44	4	6539	4	GPR179	17	36499065	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3810262	36499065	44696145	847	67850											
IKZF3	22806	broad.mit.edu	37	chr17	37922216	37922216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacgcggcagtggtcacaccGatacacatccatcacctccc	10	6	8	17	3	2	0	2	0	0	0	4	2	4	0	4	2	1	1	4	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:37922216G>A	uc002hsu.2	-	8	1419	c.1357C>T	c.(1357-1359)CGG>TGG	p.R453W	IKZF3_uc002htd.2_Missense_Mutation_p.R419W|IKZF3_uc010cwd.2_Missense_Mutation_p.R310W|IKZF3_uc002hsv.2_Missense_Mutation_p.R380W|IKZF3_uc010cwe.2_Missense_Mutation_p.R319W|IKZF3_uc010cwf.2_Missense_Mutation_p.R271W|IKZF3_uc010cwg.2_Missense_Mutation_p.R232W|IKZF3_uc002hsw.2_Missense_Mutation_p.R414W|IKZF3_uc002hsx.2_Missense_Mutation_p.R397W|IKZF3_uc002hsy.2_Missense_Mutation_p.R414W|IKZF3_uc002hsz.2_Missense_Mutation_p.R358W|IKZF3_uc002hta.2_Missense_Mutation_p.R375W|IKZF3_uc002htb.2_RNA|IKZF3_uc010cwh.2_Missense_Mutation_p.R366W|IKZF3_uc002htc.2_Missense_Mutation_p.R206W|IKZF3_uc010wel.1_Missense_Mutation_p.R206W	NM_012481	NP_036613	Q9UKT9	IKZF3_HUMAN	aiolos isoform 1	453	C2H2-type 5.				B cell activation|mesoderm development|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)|kidney(2)|skin(2)	6	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			TGGTCACACCGATACACATCC	0.562													15	124					0	0	1	0	0		A	37922216	A	A	37922216	3	1	122	1	0	0	0	0	1	0	0	0	7632	1057	37	1	176	1	IKZF3	17	37922216	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1423151	37922216	43272994	848	67851											
TNS4	84951	broad.mit.edu	37	chr17	38641181	38641181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttccttttaccttgctctCgggtgatgtttggcttaaac	5	17	9	10	1	1	1	0	1	1	0	3	1	2	1	2	2	3	4	2	2	3	6	rs143122913		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:38641181C>T	uc010cxb.2	-	5	1531	c.1367G>A	c.(1366-1368)CGA>CAA	p.R456Q		NM_032865	NP_116254	Q8IZW8	TENS4_HUMAN	tensin 4 precursor	456	SH2.				apoptosis|protein localization	cytoplasm|cytoskeleton|focal adhesion	actin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(5;5.91e-05)			ACCTTGCTCTCGGGTGATGTT	0.522													9	68					0	0	1	0	0		T	38641181	T	T	38641181	3	4	122	1	0	0	0	0	1	0	0	0	16370	884	31	1	816	1	TNS4	17	38641181	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	718965	38641181	42554029	849	67852											
KRT25	147183	broad.mit.edu	37	chr17	38910657	38910657	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgagtctgaaatcatcagCtgtaagcctggcattatcga	11	12	9	9	1	3	2	2	2	1	0	4	3	3	2	1	1	2	3	1	1	3	3	rs142825612	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:38910657C>A	uc002hve.2	-	2	554	c.493G>T	c.(493-495)GCT>TCT	p.A165S		NM_181534	NP_853512	Q7Z3Z0	K1C25_HUMAN	keratin 25	165	Rod.|Coil 1B.					cytoplasm|intermediate filament	structural molecule activity			ovary(2)	2		Breast(137;0.00526)				AAATCATCAGCTGTAAGCCTG	0.388													21	88					9.95505e-16	1.1645e-15	1	1	0		A	38910657	A	A	38910657	3	1	122	1	0	0	0	0	1	0	0	0	8478	797	28	5	887	5	KRT25	17	38910657	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	269476	38910657	42284553	850	67853											
KRT27	342574	broad.mit.edu	37	chr17	38936051	38936051	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaccgtgaggtctaccccGggggccgcgttcatctccac	7	7	12	15	4	3	2	1	1	2	1	4	2	3	2	5	3	2	1	5	3	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:38936051G>A	uc002hvg.2	-	4	788	c.747C>T	c.(745-747)CCC>CCT	p.P249P		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	249	Rod.|Linker 12.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				GGTCTACCCCGGGGGCCGCGT	0.537													10	64					0	0	1	0	0		A	38936051	A	A	38936051	2	1	122	1	0	0	0	0	0	0	0	1	8480	1103	39	1		1	KRT27	17	38936051	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	25394	38936051	42259159	851	67854											
KRTAP4-5	85289	broad.mit.edu	37	chr17	39305733	39305733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacacagcagctggggcagCagcaggtggtcctgcagcag	10	4	15	12	0	0	0	0	0	0	0	1	0	1	0	1	4	6	7	1	4	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:39305733C>T	uc002hwb.2	-	1	322	c.287G>A	c.(286-288)TGC>TAC	p.C96Y		NM_033188	NP_149445	Q9BYR2	KRA45_HUMAN	keratin associated protein 4-5	101	27 X 5 AA repeats of C-C-[GRQVCHIEK]- [SPTR]-[VSTQYC].|17.					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			gctggggcagcagcaggtggt	0.124													9	57					0	0	1	0	0		T	39305733	T	T	39305733	3	4	122	1	0	0	0	0	1	0	0	0	8570	710	25	2	262	2	KRTAP4-5	17	39305733	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	369682	39305733	41889477	852	67855											
DHX58	79132	broad.mit.edu	37	chr17	40255749	40255749	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccactgggaactgctgcCgctggttctcccgctgggct	3	10	13	15	2	1	0	0	0	1	0	3	1	2	1	3	3	3	6	3	3	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:40255749C>A	uc002hyw.3	-	12	1854	c.1631G>T	c.(1630-1632)CGG>CTG	p.R544L	DHX58_uc002hyv.3_Intron|DHX58_uc010wgf.1_Missense_Mutation_p.R537L	NM_024119	NP_077024	Q96C10	DHX58_HUMAN	RNA helicase LGP2	544	Potential.				innate immune response	cytoplasm	ATP binding|DNA binding|helicase activity|protein binding|RNA binding|zinc ion binding				0		all_cancers(22;9.73e-07)|all_epithelial(22;3.58e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		GAACTGCTGCCGCTGGTTCTC	0.667													11	107					0.000978159	0.0010163	1	1	0		A	40255749	A	A	40255749	3	1	122	1	0	0	0	0	1	0	0	0	4520	652	23	5	417	5	DHX58	17	40255749	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	950016	40255749	40939461	853	67856											
KAT2A	2648	broad.mit.edu	37	chr17	40271369	40271369	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtaacggtgaaaatggaccGgagaaggcttcgcccaaaga	14	5	14	8	3	0	3	0	1	0	2	1	5	0	4	2	5	1	2	2	5	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:40271369G>A	uc002hyx.2	-	6	1027	c.967C>T	c.(967-969)CGG>TGG	p.R323W		NM_021078	NP_066564	Q92830	KAT2A_HUMAN	general control of amino acid synthesis 5-like	323					chromatin remodeling|histone deubiquitination|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	H3 histone acetyltransferase activity|histone deacetylase binding|protein binding|transcription coactivator activity			upper_aerodigestive_tract(1)|lung(1)	2						AAAATGGACCGGAGAAGGCTT	0.572													19	175					0	0	1	0	0		A	40271369	A	A	40271369	3	1	122	1	0	0	0	0	1	0	0	0	7997	1115	39	1	1598	1	KAT2A	17	40271369	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	15620	40271369	40923841	854	67857											
NAGLU	4669	broad.mit.edu	37	chr17	40695344	40695344	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaactccaccatggtaggCacgggcatggcccccgaggg	8	4	13	16	2	0	0	0	0	0	0	1	1	1	0	5	5	1	3	5	5	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:40695344C>T	uc002hzv.2	+	6	1660	c.1320C>T	c.(1318-1320)GGC>GGT	p.G440G		NM_000263	NP_000254	P54802	ANAG_HUMAN	alpha-N-acetylglucosaminidase precursor	440						lysosome	alpha-N-acetylglucosaminidase activity				0		all_cancers(22;1.58e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)	N-Acetyl-D-glucosamine(DB00141)	CCATGGTAGGCACGGGCATGG	0.602													10	39					0	0	1	0	0		T	40695344	T	T	40695344	2	4	122	1	0	0	0	0	0	0	0	1	10161	697	25	2		2	NAGLU	17	40695344	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	423975	40695344	40499866	855	67858											
PSMC3IP	29893	broad.mit.edu	37	chr17	40725006	40725006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggggtctgggagtgtgaCgttgtaatcttcatccgtct	6	14	13	8	2	5	1	2	1	3	0	6	2	6	2	1	3	0	2	1	3	1	3	rs149230650		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:40725006C>T	uc002iai.2	-	8	677	c.634G>A	c.(634-636)GTC>ATC	p.V212I	MLX_uc002iaf.2_3'UTR|MLX_uc002iag.2_3'UTR|MLX_uc002iah.2_3'UTR|PSMC3IP_uc002iaj.2_Missense_Mutation_p.V149I|PSMC3IP_uc002iak.2_Missense_Mutation_p.V200I|PSMC3IP_uc010wgn.1_Missense_Mutation_p.V133I|PSMC3IP_uc010wgo.1_RNA|PSMC3IP_uc010wgp.1_RNA	NM_016556	NP_057640	Q9P2W1	HOP2_HUMAN	PSMC3 interacting protein isoform 2	212					DNA recombination|meiosis	nucleus	DNA binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(22;0.00426)|Breast(137;0.00116)|all_epithelial(22;0.0395)		BRCA - Breast invasive adenocarcinoma(366;0.13)		GGGAGTGTGACGTTGTAATCT	0.522													19	109					0	0	1	0	0		T	40725006	T	T	40725006	3	4	122	1	0	0	0	0	1	0	0	0	12710	536	19	1	23	1	PSMC3IP	17	40725006	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	29662	40725006	40470204	856	67859											
DHX8	1659	broad.mit.edu	37	chr17	41582101	41582101	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcatgcctttgggggcAacaaagcctcttacggaaaa	14	7	11	9	1	1	1	0	0	1	1	1	2	1	2	2	3	5	2	2	3	6	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:41582101A>G	uc002idu.1	+	12	1709	c.1636A>G	c.(1636-1638)AAC>GAC	p.N546D	DHX8_uc010wif.1_Missense_Mutation_p.N455D|DHX8_uc010wig.1_Missense_Mutation_p.N546D	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	546						catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		CTTTGGGGGCAACAAAGCCTC	0.502													17	152					0	0	1	0	0		G	41582101	G	G	41582101	3	3	122	1	0	0	0	0	1	0	0	0	4521	130	5	3	1682	3	DHX8	17	41582101	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	857095	41582101	39613109	857	67860											
G6PC3	92579	broad.mit.edu	37	chr17	42152386	42152386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttattgcaccttccttttgGcggttggcttgtcgcgaatc	4	16	10	11	3	0	0	0	0	0	0	3	1	1	0	2	3	1	3	2	3	2	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:42152386G>A	uc002iex.2	+	4	682	c.466G>A	c.(466-468)GCG>ACG	p.A156T	G6PC3_uc002iey.2_Missense_Mutation_p.A31T|G6PC3_uc010czo.2_Missense_Mutation_p.A12T|G6PC3_uc002iez.2_Missense_Mutation_p.A31T|G6PC3_uc002ifb.2_Missense_Mutation_p.A31T|G6PC3_uc002ifc.2_Intron	NM_138387	NP_612396	Q9BUM1	G6PC3_HUMAN	glucose-6-phosphatase catalytic subunit 3	156	Helical; (Potential).				gluconeogenesis|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	glucose-6-phosphatase activity			skin(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.113)		CTTCCTTTTGGCGGTTGGCTT	0.552													31	217					0	0	1	0	0		A	42152386	A	A	42152386	3	1	122	1	0	0	0	0	1	0	0	0	6159	1203	42	2	480	2	G6PC3	17	42152386	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	570285	42152386	39042824	858	67861											
SP2	6668	broad.mit.edu	37	chr17	45993964	45993964	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccgtccagtcacaagcCtgtccccatcaagccagccc	9	6	6	20	1	3	0	3	0	0	0	5	0	5	0	7	0	3	0	7	0	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:45993964C>A	uc002imk.2	+	3	664	c.527C>A	c.(526-528)CCT>CAT	p.P176H	SP2_uc002iml.2_Missense_Mutation_p.P169H|uc002imm.2_Intron	NM_003110	NP_003101	Q02086	SP2_HUMAN	Sp2 transcription factor	176					immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|histone deacetylase binding|zinc ion binding				0						AGTCACAAGCCTGTCCCCATC	0.597													10	42					4.68919e-08	5.24962e-08	1	1	0		A	45993964	A	A	45993964	3	1	122	1	0	0	0	0	1	0	0	0	14989	681	24	5	537	5	SP2	17	45993964	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3841578	45993964	35201246	859	67862											
HOXB3	3213	broad.mit.edu	37	chr17	46628308	46628308	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagatcttgatctgccgctcGctgaggttcagcaggttggc	6	11	13	11	2	3	3	1	2	2	1	4	3	3	3	1	3	2	5	1	3	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:46628308G>A	uc002inn.2	-	2	1084	c.684C>T	c.(682-684)AGC>AGT	p.S228S	HOXB3_uc010wlm.1_Silent_p.S155S|HOXB3_uc010dbf.2_Silent_p.S228S|HOXB3_uc010dbg.2_Silent_p.S228S|HOXB3_uc002ino.2_Silent_p.S228S|HOXB3_uc010wlk.1_Silent_p.S96S|HOXB3_uc010wll.1_Silent_p.S155S	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	228	Homeobox.				angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TCTGCCGCTCGCTGAGGTTCA	0.602													19	158					0	0	1	0	0		A	46628308	A	A	46628308	2	1	122	1	0	0	0	0	0	0	0	1	7318	1078	38	1		1	HOXB3	17	46628308	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	634344	46628308	34566902	860	67863											
ZNF652	22834	broad.mit.edu	37	chr17	47389292	47389292	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtagcacattccttacctcGcatctaaagggcttctctcc	8	12	7	14	1	2	0	0	0	2	0	6	0	4	0	3	2	2	4	3	2	4	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:47389292G>A	uc002iov.3	-	4	1625	c.1161C>T	c.(1159-1161)TGC>TGT	p.C387C	ZNF652_uc002iow.2_Silent_p.C387C|ZNF652_uc002iou.3_RNA	NM_001145365	NP_001138837	Q9Y2D9	ZN652_HUMAN	zinc finger protein 652	387	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_cancers(4;6.81e-14)|Breast(4;4.97e-29)|all_epithelial(4;1.53e-17)		BRCA - Breast invasive adenocarcinoma(1;3.1e-14)|Epithelial(5;2.92e-06)|all cancers(6;3.15e-05)			TCCTTACCTCGCATCTAAAGG	0.512													9	78					0	0	1	0	0		A	47389292	A	A	47389292	2	1	122	1	0	0	0	0	0	0	0	1	18090	1079	38	1		1	ZNF652	17	47389292	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	760984	47389292	33805918	861	67864											
SPOP	8405	broad.mit.edu	37	chr17	47679303	47679303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggatgagaatttctgcagCgttctccacggacaggttac	10	10	11	10	2	2	1	0	1	2	1	3	4	2	3	1	3	3	3	1	3	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:47679303C>T	uc010dbk.2	-	10	1536	c.904G>A	c.(904-906)GCT>ACT	p.A302T	SPOP_uc002ipb.2_Missense_Mutation_p.A302T|SPOP_uc002ipc.2_Missense_Mutation_p.A302T|SPOP_uc002ipd.2_Missense_Mutation_p.A302T|SPOP_uc002ipe.2_Missense_Mutation_p.A302T|SPOP_uc002ipf.2_Missense_Mutation_p.A302T|SPOP_uc002ipg.2_Missense_Mutation_p.A302T	NM_003563	NP_003554	O43791	SPOP_HUMAN	speckle-type POZ protein	302	Homodimerization.				mRNA processing	nucleus	protein binding			prostate(2)|ovary(2)|lung(2)	6						ATTTCTGCAGCGTTCTCCACG	0.493										Prostate(2;0.17)			26	124					0	0	1	0	0		T	47679303	T	T	47679303	3	4	122	1	0	0	0	0	1	0	0	0	15109	768	27	1	228	1	SPOP	17	47679303	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	290011	47679303	33515907	862	67865											
WFIKKN2	124857	broad.mit.edu	37	chr17	48917397	48917397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggagaagcagttggaggatCgggagaatgtggtcatgcgg	10	7	20	4	2	1	2	1	0	0	2	2	6	1	4	0	6	2	2	0	6	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:48917397C>T	uc002isv.3	+	2	1442	c.748C>T	c.(748-750)CGG>TGG	p.R250W	WFIKKN2_uc010dbu.2_Missense_Mutation_p.R157W	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	250	Ig-like C2-type.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			GTTGGAGGATCGGGAGAATGT	0.602													20	89					0	0	1	0	0		T	48917397	T	T	48917397	3	4	122	1	0	0	0	0	1	0	0	0	17385	875	31	1	754	1	WFIKKN2	17	48917397	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1238094	48917397	32277813	863	67866											
STXBP4	252983	broad.mit.edu	37	chr17	53076712	53076712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgtttttgttaggatggtCgtttgaagccaggagatcaa	10	14	12	5	1	1	2	1	1	0	1	2	4	1	3	1	3	1	3	1	3	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:53076712C>T	uc002iuf.1	+	5	394	c.187C>T	c.(187-189)CGT>TGT	p.R63C	STXBP4_uc010dcc.1_5'UTR|STXBP4_uc010dcd.1_Missense_Mutation_p.R63C	NM_178509	NP_848604	Q6ZWJ1	STXB4_HUMAN	syntaxin binding protein 4	63	PDZ.					cytoplasm	calcium ion binding			ovary(1)	1						TTAGGATGGTCGTTTGAAGCC	0.323													13	90					0	0	1	0	0		T	53076712	T	T	53076712	3	4	122	1	0	0	0	0	1	0	0	0	15380	884	31	1	197	1	STXBP4	17	53076712	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	4159315	53076712	28118498	864	67867											
CLTC	1213	broad.mit.edu	37	chr17	57697508	57697508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgccatggcccagattctgCcaattcgttttcaggagcat	8	11	10	12	2	2	1	1	0	1	1	3	2	2	2	3	2	2	2	3	2	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:57697508C>T	uc002ixq.1	+	1	459	c.16C>T	c.(16-18)CCA>TCA	p.P6S	CLTC_uc002ixp.2_Missense_Mutation_p.P6S|CLTC_uc002ixr.1_Missense_Mutation_p.P6S	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	6	Globular terminal domain.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					CCAGATTCTGCCAATTCGTTT	0.453			T	ALK|TFE3	ALCL|renal 								5	71					0	0	1	0	0		T	57697508	T	T	57697508	3	4	122	1	0	0	0	0	1	0	0	0	3569	739	26	2	18	2	CLTC	17	57697508	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	4620796	57697508	23497702	865	67868											
BRIP1	83990	broad.mit.edu	37	chr17	59878681	59878681	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgtcagcatcttgtattAgttctcgggctgtgtaatat	8	17	10	6	1	3	1	1	1	2	0	4	1	3	1	0	1	1	5	0	1	4	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:59878681A>G	uc002izk.1	-	8	1214	c.1073T>C	c.(1072-1074)CTA>CCA	p.L358P		NM_032043	NP_114432	Q9BX63	FANCJ_HUMAN	BRCA1 interacting protein C-terminal helicase 1	358	Helicase ATP-binding.				DNA damage checkpoint|double-strand break repair|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(1)	1						ATCTTGTATTAGTTCTCGGGC	0.403			F|N|Mis			AML|leukemia|breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				26	180					0	0	1	0	0		G	59878681	G	G	59878681	3	3	122	1	0	0	0	0	1	0	0	0	1517	420	15	3	2728	3	BRIP1	17	59878681	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	2181173	59878681	21316529	866	67869											
FTSJ3	117246	broad.mit.edu	37	chr17	61898199	61898199	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtttatggcccctttacCggttgaaggagttatctatg	8	15	11	7	1	1	2	0	2	1	0	1	3	1	3	3	3	1	3	3	3	5	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:61898199C>T	uc002jbz.2	-	17	2150	c.2072G>A	c.(2071-2073)CGG>CAG	p.R691Q	FTSJ3_uc002jca.2_Missense_Mutation_p.R691Q	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	691					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						GCCCCTTTACCGGTTGAAGGA	0.393													18	76					0	0	1	0	0		T	61898199	T	T	61898199	3	4	122	1	0	0	0	0	1	0	0	0	6103	666	23	1	487	1	FTSJ3	17	61898199	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2019518	61898199	19297011	867	67870											
RGS9	8787	broad.mit.edu	37	chr17	63206652	63206652	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acctgcgctccagcccaagcCctgtcatcctgagacagctg	8	7	9	17	1	1	1	1	1	0	1	3	2	3	1	5	0	4	2	5	0	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:63206652C>A	uc002jfe.2	+	17	1446	c.1336C>A	c.(1336-1338)CCT>ACT	p.P446T	RGS9_uc010dem.2_Missense_Mutation_p.P443T|RGS9_uc002jfd.2_Missense_Mutation_p.P443T|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Missense_Mutation_p.P217T	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	446					intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						CAGCCCAAGCCCTGTCATCCT	0.582													24	121					4.72057e-08	5.27982e-08	1	1	0		A	63206652	A	A	63206652	3	1	122	1	0	0	0	0	1	0	0	0	13338	623	22	5	1402	5	RGS9	17	63206652	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1308453	63206652	17988558	868	67871											
ABCA10	10349	broad.mit.edu	37	chr17	67178331	67178331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccatttgaataagctccGtgaagttaaaaattcccata	14	13	5	9	1	1	2	0	2	1	0	4	2	3	2	3	0	1	2	3	0	7	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:67178331G>A	uc010dfa.1	-	23	3611	c.2732C>T	c.(2731-2733)ACG>ATG	p.T911M	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_Missense_Mutation_p.T512M	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	911					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					AATAAGCTCCGTGAAGTTAAA	0.294													10	72					0	0	1	0	0		A	67178331	A	A	67178331	3	1	122	1	0	0	0	0	1	0	0	0	29	1145	40	1	1971	1	ABCA10	17	67178331	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3971679	67178331	14016879	869	67872											
TTYH2	94015	broad.mit.edu	37	chr17	72240133	72240133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggatgctgtgctgtggggCactgagcctgctcctcagtt	5	12	14	10	0	1	1	1	1	0	0	2	2	2	2	2	3	4	5	2	3	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:72240133C>T	uc002jkc.2	+	6	780	c.749C>T	c.(748-750)GCA>GTA	p.A250V	TTYH2_uc010wqw.1_Missense_Mutation_p.A229V	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	250	Helical; Name=4; (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						TGCTGTGGGGCACTGAGCCTG	0.672													8	65					0	0	1	0	0		T	72240133	T	T	72240133	3	4	122	1	0	0	0	0	1	0	0	0	16766	710	25	2	771	2	TTYH2	17	72240133	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5061802	72240133	8955077	870	67873											
UNK	85451	broad.mit.edu	37	chr17	73819409	73819409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggccagtgcggcgggcgccGagtgcgagctggcccgggag	4	3	22	12	6	0	0	0	0	0	0	0	3	0	1	3	5	3	1	3	5	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:73819409G>A	uc002jpm.2	+	16	2311	c.2311G>A	c.(2311-2313)GAG>AAG	p.E771K		NM_001080419	NP_001073888	Q9C0B0	UNK_HUMAN	zinc finger CCCH-type domain containing 5	695	Potential.						nucleic acid binding|zinc ion binding				0			all cancers(21;2.61e-06)|Epithelial(20;7.39e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGCGGGCGCCGAGTGCGAGCT	0.677													5	51					0	0	1	0	0		A	73819409	A	A	73819409	3	1	122	1	0	0	0	0	1	0	0	0	17026	1059	37	1	2373	1	UNK	17	73819409	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1579276	73819409	7375801	871	67874											
SEPT9	10801	broad.mit.edu	37	chr17	75484906	75484906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcatcccggacacccgcGtccactgctgcctctacttc	6	8	8	19	4	1	0	0	0	1	0	4	1	3	1	4	1	4	2	4	1	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:75484906G>A	uc002jts.3	+	7	1348	c.1222G>A	c.(1222-1224)GTC>ATC	p.V408I	SEPT9_uc010wtk.1_Missense_Mutation_p.V389I|SEPT9_uc002jtt.3_Missense_Mutation_p.V244I|SEPT9_uc002jtu.3_Missense_Mutation_p.V390I|SEPT9_uc002jtv.2_Missense_Mutation_p.V401I|SEPT9_uc002jtw.2_Missense_Mutation_p.V244I|SEPT9_uc010wtl.1_Missense_Mutation_p.V184I|SEPT9_uc002jty.3_Missense_Mutation_p.V157I|SEPT9_uc010wtm.1_Missense_Mutation_p.V157I|SEPT9_uc010wtn.1_Missense_Mutation_p.V157I|SEPT9_uc010dhd.2_Missense_Mutation_p.V296I	NM_001113491	NP_001106963	Q9UHD8	SEPT9_HUMAN	septin 9 isoform a	408					cell cycle|cell division|protein heterooligomerization	microtubule|perinuclear region of cytoplasm|stress fiber	GTP binding|GTPase activity|protein binding|protein binding			breast(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(99;0.153)			GGACACCCGCGTCCACTGCTG	0.612													7	70					0	0	1	0	0		A	75484906	A	A	75484906	3	1	122	1	0	0	0	0	1	0	0	0	14096	1145	40	1	1722	1	SEPT9	17	75484906	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1665497	75484906	5710304	872	67875											
PGS1	9489	broad.mit.edu	37	chr17	76415691	76415691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttcgagcagccgagtcGccaggtgaagctgtgggtga	8	7	15	11	3	0	2	0	2	0	0	2	4	0	2	3	2	3	2	3	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:76415691G>A	uc002jvm.2	+	9	1628	c.1616G>A	c.(1615-1617)CGC>CAC	p.R539H	PGS1_uc010wtt.1_RNA|PGS1_uc010dho.2_RNA|PGS1_uc002jvn.2_Missense_Mutation_p.R252H|PGS1_uc002jvo.2_RNA|PGS1_uc002jvp.1_Missense_Mutation_p.R252H	NM_024419	NP_077733	Q32NB8	PGPS1_HUMAN	phosphatidylglycerophosphate synthase 1	539					phospholipid biosynthetic process	endoplasmic reticulum|mitochondrion	ATP binding|CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activity				0			BRCA - Breast invasive adenocarcinoma(99;0.00144)|OV - Ovarian serous cystadenocarcinoma(97;0.031)			CAGCCGAGTCGCCAGGTGAAG	0.537													22	130					0	0	1	0	0		A	76415691	A	A	76415691	3	1	122	1	0	0	0	0	1	0	0	0	11827	1087	38	1	1650	1	PGS1	17	76415691	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	930785	76415691	4779519	873	67876											
TBC1D16	125058	broad.mit.edu	37	chr17	77926499	77926499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtggcccaggtccacgcGgaacacgccgcaaatctgct	9	6	11	15	4	1	0	0	0	1	0	2	1	2	1	3	3	2	2	3	3	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:77926499G>A	uc002jxj.2	-	4	1014	c.898C>T	c.(898-900)CGC>TGC	p.R300C	TBC1D16_uc002jxh.2_5'Flank|TBC1D16_uc002jxi.2_5'Flank|TBC1D16_uc002jxk.1_5'Flank	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	300						intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			AGGTCCACGCGGAACACGCCG	0.672													12	45					0	0	1	0	0		A	77926499	A	A	77926499	3	1	122	1	0	0	0	0	1	0	0	0	15630	1116	39	1	1441	1	TBC1D16	17	77926499	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1510808	77926499	3268711	874	67877											
SLC26A11	284129	broad.mit.edu	37	chr17	78195522	78195522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaagatggatttcgtcgccGgcctctcagttggcctcact	6	12	11	12	3	2	2	2	1	1	1	5	3	2	3	3	3	0	1	3	3	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:78195522G>A	uc002jyb.1	+	3	432	c.163G>A	c.(163-165)GGC>AGC	p.G55S	SGSH_uc002jxz.3_5'Flank|SGSH_uc002jya.3_5'Flank|SGSH_uc002jxy.2_5'Flank|SGSH_uc010wue.1_5'Flank|SLC26A11_uc002jyc.1_Missense_Mutation_p.G55S|SLC26A11_uc002jyd.1_Missense_Mutation_p.G55S|SLC26A11_uc010dhv.1_Missense_Mutation_p.G55S	NM_173626	NP_775897	Q86WA9	S2611_HUMAN	solute carrier family 26, member 11	55	Helical; (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|plasma membrane	anion:anion antiporter activity|secondary active sulfate transmembrane transporter activity				0	all_neural(118;0.0538)		OV - Ovarian serous cystadenocarcinoma(97;0.0344)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			TTTCGTCGCCGGCCTCTCAGT	0.672													10	61					0	0	1	0	0		A	78195522	A	A	78195522	3	1	122	1	0	0	0	0	1	0	0	0	14541	1116	39	1	165	1	SLC26A11	17	78195522	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	269023	78195522	2999688	875	67878											
AATK	9625	broad.mit.edu	37	chr17	79094232	79094232	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctcctcgtcagactcgtcGctgtcctcactgtcctcctc	4	12	7	18	3	2	1	2	0	0	1	10	1	6	1	4	0	1	2	4	0	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:79094232G>A	uc010dia.2	-	11	3584	c.3504C>T	c.(3502-3504)AGC>AGT	p.S1168S	AATK_uc010dhz.2_Intron	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	1168						integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CAGACTCGTCGCTGTCCTCAC	0.721													4	14					0	0	1	0	0		A	79094232	A	A	79094232	2	1	122	1	0	0	0	0	0	0	0	1	26	1078	38	1		1	AATK	17	79094232	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	898710	79094232	2100978	876	67879											
NOTUM	147111	broad.mit.edu	37	chr17	79910971	79910971	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgccccgtgaactggtctcGgacggtggggcatgaggggt	5	9	18	9	3	1	2	0	2	1	0	2	3	1	3	2	7	2	1	2	7	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:79910971G>A	uc010wvg.1	-	11	1629	c.1357C>T	c.(1357-1359)CGA>TGA	p.R453*		NM_178493	NP_848588	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog precursor	453						extracellular region	hydrolase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			AACTGGTCTCGGACGGTGGGG	0.662													9	66					0	0	1	0	0		A	79910971	A	A	79910971	4	1	122	1	0	0	0	0	0	1	0	0	10571	1124	39	1	137	1	NOTUM	17	79910971	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	816739	79910971	1284239	877	67880											
HEXDC	284004	broad.mit.edu	37	chr17	80399708	80399708	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttcagcccctaccaccGccagcggaagctcatccacc	8	6	8	19	2	2	0	2	0	0	0	3	1	3	1	7	2	4	2	7	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr17:80399708G>A	uc002kew.2	+	11	1247	c.1196G>A	c.(1195-1197)CGC>CAC	p.R399H	HEXDC_uc002kev.3_Missense_Mutation_p.A429T|HEXDC_uc010diq.2_Silent_p.P401P|HEXDC_uc010wvm.1_RNA			Q8WVB3	HEXDC_HUMAN	SubName: Full=Hexosaminidase (Glycosyl hydrolase family 20, catalytic domain) containing, isoform CRA_c; SubName: Full=Hexosaminidase D;	399					carbohydrate metabolic process	cytoplasm|nucleus	beta-N-acetylhexosaminidase activity|cation binding			ovary(1)|skin(1)	2	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			CCCTACCACCGCCAGCGGAAG	0.637													26	189					0	0	1	0	0		A	80399708	A	A	80399708	3	1	122	1	0	0	0	0	1	0	0	0	7091	1087	38	1	1323	1	HEXDC	17	80399708	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	488737	80399708	795502	878	67881											
EPB41L3	23136	broad.mit.edu	37	chr18	5434086	5434086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcagccttccggacaCgatgtcatctcgcaactgca	9	7	11	14	3	2	0	1	0	1	0	4	2	3	1	2	2	3	4	2	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:5434086C>T	uc002kmt.1	-	7	726	c.640G>A	c.(640-642)GTG>ATG	p.V214M	EPB41L3_uc010wzh.1_Missense_Mutation_p.V214M|EPB41L3_uc002kmu.1_Missense_Mutation_p.V214M|EPB41L3_uc010dkq.1_Missense_Mutation_p.V105M|EPB41L3_uc010dks.1_Missense_Mutation_p.V236M|EPB41L3_uc002kmv.1_Missense_Mutation_p.V105M	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	214	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						CTTCCGGACACGATGTCATCT	0.542													11	61					0	0	1	0	0		T	5434086	T	T	5434086	3	4	122	1	0	0	0	0	1	0	0	0	5162	536	19	1	2687	1	EPB41L3	18	5434086	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08		5434086	72643162	879	67882											
TMEM200C	645369	broad.mit.edu	37	chr18	5890353	5890353	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctccggcgagctctgctcCgcacccagaacgggggcggc	5	4	14	18	5	1	1	0	0	1	1	3	2	3	1	4	4	3	3	4	4	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:5890353C>T	uc002kmx.1	-	1	1751	c.1710G>A	c.(1708-1710)GCG>GCA	p.A570A		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	570						integral to membrane					0						AGCTCTGCTCCGCACCCAGAA	0.647													8	38					0	0	1	0	0		T	5890353	T	T	5890353	2	4	122	1	0	0	0	0	0	0	0	1	16150	639	23	1		1	TMEM200C	18	5890353	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	456267	5890353	72186895	880	67883											
LAMA1	284217	broad.mit.edu	37	chr18	6942091	6942091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgaagttcaggactcggtcCcaggacaggaatgaaggaaa	14	7	13	7	1	1	2	1	2	0	0	3	6	2	6	1	5	0	1	1	5	4	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:6942091C>T	uc002knm.2	-	63	9309	c.9215G>A	c.(9214-9216)GGG>GAG	p.G3072E	LAMA1_uc002knk.2_Missense_Mutation_p.G402E|LAMA1_uc002knl.2_Missense_Mutation_p.G525E|LAMA1_uc010wzj.1_Missense_Mutation_p.G2548E	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	3072					axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGACTCGGTCCCAGGACAGGA	0.443													13	120					0	0	1	0	0		T	6942091	T	T	6942091	3	4	122	1	0	0	0	0	1	0	0	0	8621	623	22	4	16	4	LAMA1	18	6942091	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1051738	6942091	71135157	881	67884											
KIAA0802	23255	broad.mit.edu	37	chr18	8825987	8825987	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaattcccgaggaaggtcGcctagccccattggggtggg	8	7	14	12	2	0	0	0	0	0	0	2	2	1	1	5	5	1	0	5	5	3	3	rs145849851		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:8825987G>A	uc002knr.2	+	15	4621	c.4479G>A	c.(4477-4479)TCG>TCA	p.S1493S	KIAA0802_uc002knq.2_Silent_p.S1452S|KIAA0802_uc002kns.2_Silent_p.S833S	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1803											0						GAGGAAGGTCGCCTAGCCCCA	0.657													7	41					0	0	1	0	0		A	8825987	A	A	8825987	2	1	122	1	0	0	0	0	0	0	0	1	8210	1074	38	1		1	KIAA0802	18	8825987	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1883896	8825987	69251261	882	67885											
MC2R	4158	broad.mit.edu	37	chr18	13885437	13885437	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtgaaaaatatctcctcCggcaaaaccacacgaggaca	16	7	7	11	2	1	1	0	1	1	0	3	3	2	2	3	2	1	1	3	2	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:13885437C>T	uc002ksp.1	-	2	258	c.81G>A	c.(79-81)CCG>CCA	p.P27P		NM_000529	NP_000520	Q01718	ACTHR_HUMAN	melanocortin 2 receptor	27	Helical; Name=1; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	corticotropin receptor activity|protein binding			ovary(4)|skin(1)	5					Corticotropin(DB01285)|Cosyntropin(DB01284)	ATATCTCCTCCGGCAAAACCA	0.418													4	48					0	0	1	0	0		T	13885437	T	T	13885437	2	4	122	1	0	0	0	0	0	0	0	1	9382	639	23	1		1	MC2R	18	13885437	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5059450	13885437	64191811	883	67886											
CABLES1	91768	broad.mit.edu	37	chr18	20833000	20833000	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaaggagaagtttcctcAcattaagctgacactcagca	13	10	7	11	0	3	2	3	1	0	1	4	3	4	2	1	1	2	3	1	1	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:20833000A>G	uc002kuc.2	+	8	1523	c.1523A>G	c.(1522-1524)CAC>CGC	p.H508R	C18orf45_uc010xaq.1_Intron|CABLES1_uc002kub.2_Missense_Mutation_p.H11R|CABLES1_uc002kud.2_Missense_Mutation_p.H243R	NM_001100619	NP_001094089	Q8TDN4	CABL1_HUMAN	Cdk5 and Abl enzyme substrate 1 isoform 2	508					blood coagulation|cell cycle|cell division|regulation of cell cycle|regulation of cell division	cytosol|nucleus	cyclin-dependent protein kinase regulator activity|protein binding			breast(1)	1	all_cancers(21;0.000102)|all_epithelial(16;2.48e-06)|Lung NSC(20;0.00696)|all_lung(20;0.0197)|Colorectal(14;0.0202)|Ovarian(20;0.127)					AAGTTTCCTCACATTAAGCTG	0.498													11	50					0	0	1	0	0		G	20833000	G	G	20833000	3	3	122	1	0	0	0	0	1	0	0	0	2532	159	6	3	1607	3	CABLES1	18	20833000	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	6947563	20833000	57244248	884	67887											
LAMA3	3909	broad.mit.edu	37	chr18	21500978	21500978	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcagagctaccaaaagagaGaggagttggagacgccataa	16	6	12	7	1	1	4	1	0	0	4	1	7	1	5	2	2	2	2	2	2	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:21500978G>C	uc002kuq.2	+	61	8089	c.8003G>C	c.(8002-8004)AGA>ACA	p.R2668T	LAMA3_uc002kur.2_Missense_Mutation_p.R2612T|LAMA3_uc002kus.3_Missense_Mutation_p.R1059T|LAMA3_uc002kut.3_Missense_Mutation_p.R1003T	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	2668	Laminin G-like 2.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCAAAAGAGAGAGGAGTTGGA	0.403													4	48					0	0	1	0	0		C	21500978	C	C	21500978	3	2	122	1	0	0	0	0	1	0	0	0	8623	942	33	5	8420	5	LAMA3	18	21500978	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	667978	21500978	56576270	885	67888											
DSG3	1830	broad.mit.edu	37	chr18	29040826	29040826	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctatcgtctggttgtgagtGgtgcagacaaagatggagaa	11	10	15	5	1	1	4	0	1	1	3	2	5	1	4	0	3	1	3	0	3	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:29040826G>T	uc002kws.2	+	7	824	c.715G>T	c.(715-717)GGT>TGT	p.G239C		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	239	Extracellular (Potential).|Cadherin 2.				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GGTTGTGAGTGGTGCAGACAA	0.338													5	41					0.248553	0.24876	1	1	0		T	29040826	T	T	29040826	3	4	122	1	0	0	0	0	1	0	0	0	4784	1348	47	5	741	5	DSG3	18	29040826	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	7539848	29040826	49036422	886	67889											
SETBP1	26040	broad.mit.edu	37	chr18	42531485	42531485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catctacattggcaagaagcGgggcaggaagccaagagcag	14	4	14	9	1	1	2	0	0	1	2	1	3	1	3	1	4	4	3	1	4	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:42531485G>A	uc010dni.2	+	4	2476	c.2180G>A	c.(2179-2181)CGG>CAG	p.R727Q		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	727						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GGCAAGAAGCGGGGCAGGAAG	0.582									Schinzel-Giedion_syndrome				9	57					0	0	1	0	0		A	42531485	A	A	42531485	3	1	122	1	0	0	0	0	1	0	0	0	14154	1116	39	1	2383	1	SETBP1	18	42531485	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	13490659	42531485	35545763	887	67890											
SLC14A1	6563	broad.mit.edu	37	chr18	43319189	43319189	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgataatccatggacagGgggcattttcctgggagcca	9	10	13	9	0	0	1	0	1	0	0	2	3	2	3	3	4	1	1	3	4	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:43319189G>T	uc010xcn.1	+	8	1044	c.725G>T	c.(724-726)GGG>GTG	p.G242V	SLC14A1_uc010dnk.2_Missense_Mutation_p.G298V|SLC14A1_uc002lbf.3_Missense_Mutation_p.G242V|SLC14A1_uc002lbg.3_RNA|SLC14A1_uc010xco.1_Missense_Mutation_p.G137V|SLC14A1_uc002lbh.3_Missense_Mutation_p.G134V|SLC14A1_uc002lbi.3_Missense_Mutation_p.G110V|SLC14A1_uc002lbj.3_Missense_Mutation_p.G298V|SLC14A1_uc002lbk.3_Missense_Mutation_p.G242V	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	242						integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						CCATGGACAGGGGGCATTTTC	0.483													21	149					1.50039e-11	1.71985e-11	1	1	0		T	43319189	T	T	43319189	3	4	122	1	0	0	0	0	1	0	0	0	14421	1232	43	5	915	5	SLC14A1	18	43319189	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	787704	43319189	34758059	888	67891											
KIAA1632	57724	broad.mit.edu	37	chr18	43464743	43464743	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaatggtttcaagtacttTtctgcactctgatttaatgc	10	16	7	8	0	3	2	1	1	2	1	3	2	3	2	0	1	3	3	0	1	4	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:43464743T>C	uc002lbm.2	-	30	5243	c.5143A>G	c.(5143-5145)AAA>GAA	p.K1715E	KIAA1632_uc010xcq.1_Missense_Mutation_p.K269E|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.K590E	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1715					autophagy						0						TCAAGTACTTTTCTGCACTCT	0.408													7	49					0	0	1	0	0		C	43464743	C	C	43464743	3	2	122	1	0	0	0	0	1	0	0	0	8265	1850	64	3	2656	3	KIAA1632	18	43464743	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	145554	43464743	34612505	889	67892											
MALT1	10892	broad.mit.edu	37	chr18	56363666	56363666	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgtgaaactgtgttgcCgggcaactggacatcctttt	8	14	11	8	1	0	1	0	1	0	0	1	2	1	2	2	2	3	3	2	2	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:56363666C>T	uc002lhm.1	+	3	703	c.445C>T	c.(445-447)CGG>TGG	p.R149W	MALT1_uc002lhn.1_Missense_Mutation_p.R149W	NM_006785	NP_006776	Q9UDY8	MALT1_HUMAN	mucosa associated lymphoid tissue lymphoma	149	Ig-like C2-type 1.				activation of NF-kappaB-inducing kinase activity|anti-apoptosis|nuclear export|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of protein ubiquitination|positive regulation of T cell cytokine production|protein oligomerization|proteolysis|T cell receptor signaling pathway	CBM complex|cytosol|nucleus|perinuclear region of cytoplasm	cysteine-type endopeptidase activity|protein self-association|signal transducer activity|ubiquitin-protein ligase activity			ovary(2)|lung(1)|central_nervous_system(1)	4						ACTGTGTTGCCGGGCAACTGG	0.308			T	BIRC3	MALT								11	55					0	0	1	0	0		T	56363666	T	T	56363666	3	4	122	1	0	0	0	0	1	0	0	0	9220	643	23	1	455	1	MALT1	18	56363666	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	12898923	56363666	21713582	890	67893											
SALL3	27164	broad.mit.edu	37	chr18	76755286	76755286	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagtgatgggcccgggcctgGcgcccatgctggccccccca	4	5	14	18	2	0	1	0	1	0	0	0	1	0	1	6	4	1	1	6	4	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:76755286G>T	uc002lmt.2	+	2	3295	c.3295G>T	c.(3295-3297)GCG>TCG	p.A1099S	SALL3_uc010dra.2_Missense_Mutation_p.A634S	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1099					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CCCGGGCCTGGCGCCCATGCT	0.736													4	8					0.00909568	0.00928937	1	1	0		T	76755286	T	T	76755286	3	4	122	1	0	0	0	0	1	0	0	0	13837	1203	42	5	3301	5	SALL3	18	76755286	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	20391620	76755286	1321962	891	67894											
CTDP1	9150	broad.mit.edu	37	chr18	77477647	77477647	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggaggagcagctcttcccGctcagggacgatcacaccaa	10	6	12	13	2	3	0	2	0	1	0	4	4	4	3	2	3	2	3	2	3	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:77477647G>A	uc002lnh.1	+	9	2328	c.2181G>A	c.(2179-2181)CCG>CCA	p.P727P	CTDP1_uc002lni.1_Silent_p.P727P|CTDP1_uc010drd.1_Silent_p.P727P	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	727	BRCT.				positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		AGCTCTTCCCGCTCAGGGACG	0.642													14	108					0	0	1	0	0		A	77477647	A	A	77477647	2	1	122	1	0	0	0	0	0	0	0	1	4005	1074	38	1		1	CTDP1	18	77477647	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	722361	77477647	599601	892	67895											
PQLC1	80148	broad.mit.edu	37	chr18	77664150	77664150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtaggccgtcttgaaggcGtcaccactggtccacatgag	10	8	12	11	2	2	2	1	2	1	0	3	2	3	2	3	3	0	1	3	3	3	2	rs142557456	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr18:77664150G>A	uc002lnl.2	-	6	814	c.642C>T	c.(640-642)GAC>GAT	p.D214D	PQLC1_uc010dre.2_Silent_p.D131D|PQLC1_uc002lnk.2_Silent_p.D196D|PQLC1_uc010xfm.1_Missense_Mutation_p.T124M	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	214	PQ-loop 2.					integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		TCTTGAAGGCGTCACCACTGG	0.652													9	60					0	0	1	0	0		A	77664150	A	A	77664150	2	1	122	1	0	0	0	0	0	0	0	1	12440	1145	40	1		1	PQLC1	18	77664150	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	186503	77664150	413098	893	67896											
AMH	268	broad.mit.edu	37	chr19	2249675	2249676	+	Frame_Shift_Del	DEL	TA	-	-																															gcaggctgccttgccctctcTacggcggctgggggcctggc																										TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:2249675_2249676delTA	uc002lvh.2	+	1	563_564	c.344_345delTA	c.(343-345)CTAfs	p.L115fs	hsa-mir-4321|MI0015852_5'Flank	NM_000479	NP_000470	P03971	MIS_HUMAN	anti-Mullerian hormone precursor	115					cell differentiation|cell-cell signaling|gonadal mesoderm development|Mullerian duct regression|positive regulation of gene expression|sex determination	extracellular space	growth factor activity|hormone activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTGCCCTCTCTACGGCGGCTGG	0.728									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				4	7	---	---	---	---						.	-	2249676	-	-	2249675	7	5	122	1	0	1	0	1	0	0	0	0	572	1522	53	0	346	0	AMH	19	2249675	Frame_Shift_Del	DEL	TA	TCGA-CD-A4MI-01A-21D-A25D-08		2249675	56879308	894	67897											
ZNF555	148254	broad.mit.edu	37	chr19	2853027	2853027	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatgtggggaggccttcAgttattcttcggcttttcga	8	14	12	7	2	2	1	1	0	1	1	4	3	2	2	1	4	0	2	1	4	3	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:2853027A>G	uc002lwo.2	+	4	1053	c.964A>G	c.(964-966)AGT>GGT	p.S322G	ZNF555_uc002lwn.3_Missense_Mutation_p.S321G	NM_152791	NP_690004	Q8NEP9	ZN555_HUMAN	zinc finger protein 555	322	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGAGGCCTTCAGTTATTCTTC	0.413													12	55					0	0	1	0	0		G	2853027	G	G	2853027	3	3	122	1	0	0	0	0	1	0	0	0	18011	188	7	3	978	3	ZNF555	19	2853027	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	603352	2853027	56275956	895	67898											
NCLN	56926	broad.mit.edu	37	chr19	3204636	3204636	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcggatcaacctggcggaGgacgtgctggcctgggagca	9	5	17	10	3	1	0	1	0	0	0	1	4	1	4	2	6	4	2	2	6	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:3204636G>T	uc002lxi.2	+	9	1249	c.1095G>T	c.(1093-1095)GAG>GAT	p.E365D	NCLN_uc002lxh.1_RNA|NCLN_uc002lxj.1_RNA|NCLN_uc002lxk.2_Missense_Mutation_p.E10D	NM_020170	NP_064555	Q969V3	NCLN_HUMAN	nicalin precursor	365	Lumenal (Potential).				proteolysis|regulation of signal transduction	endoplasmic reticulum membrane|integral to membrane|nucleus	peptidase activity|protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.83e-113)|Epithelial(107;1.65e-111)|all cancers(105;1.53e-103)|BRCA - Breast invasive adenocarcinoma(158;0.00139)|STAD - Stomach adenocarcinoma(1328;0.18)		ACCTGGCGGAGGACGTGCTGG	0.687													5	49					0.184627	0.185245	1	1	0		T	3204636	T	T	3204636	3	4	122	1	0	0	0	0	1	0	0	0	10246	991	35	5	1129	5	NCLN	19	3204636	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	351609	3204636	55924347	896	67899											
GIPC3	126326	broad.mit.edu	37	chr19	3586647	3586647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctggggctgaccatcaCggacaacggggctggctacg	7	7	15	12	3	2	1	1	1	1	0	2	2	2	2	1	6	3	4	1	6	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:3586647C>T	uc002lyd.3	+	2	407	c.380C>T	c.(379-381)ACG>ATG	p.T127M		NM_133261	NP_573568	Q8TF64	GIPC3_HUMAN	GIPC PDZ domain containing family, member 3	127	PDZ.									breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0025)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGACCATCACGGACAACGGG	0.647											OREG0025154	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	146					0	0	1	0	0		T	3586647	T	T	3586647	3	4	122	1	0	0	0	0	1	0	0	0	6409	536	19	1	386	1	GIPC3	19	3586647	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	382011	3586647	55542336	897	67900											
TJP3	27134	broad.mit.edu	37	chr19	3747982	3747982	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtggatgatgagccccCggctccagccctggcccggt	5	7	15	14	2	0	2	0	2	0	0	1	4	1	4	5	5	2	1	5	5	0	0	rs149440570	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:3747982C>G	uc010xhv.1	+	18	2612	c.2612C>G	c.(2611-2613)CCG>CGG	p.P871R	TJP3_uc010xhs.1_Missense_Mutation_p.P838R|TJP3_uc010xht.1_Missense_Mutation_p.P802R|TJP3_uc010xhu.1_Missense_Mutation_p.P847R|TJP3_uc010xhw.1_Missense_Mutation_p.P857R	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	852						tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		GATGAGCCCCCGGCTCCAGCC	0.697													5	31					0	0	1	0	0		G	3747982	G	G	3747982	3	3	122	1	0	0	0	0	1	0	0	0	15956	652	23	5	2682	5	TJP3	19	3747982	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	161335	3747982	55381001	898	67901											
MPND	84954	broad.mit.edu	37	chr19	4345956	4345956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggctgcaccagctgcacaCgcctgccacggctgctgatg	6	6	12	17	3	0	1	0	1	0	0	0	1	0	1	4	2	5	6	4	2	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:4345956C>T	uc002mae.2	+	3	576	c.509C>T	c.(508-510)ACG>ATG	p.T170M	MPND_uc010dtx.2_RNA|MPND_uc002mag.2_Missense_Mutation_p.T170M|MPND_uc002maf.2_Missense_Mutation_p.T170M|MPND_uc002mah.2_Missense_Mutation_p.T58M|MPND_uc002mai.2_Missense_Mutation_p.T58M	NM_032868	NP_116257	Q8N594	MPND_HUMAN	MPN domain containing isoform 1	170							peptidase activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGCTGCACACGCCTGCCACG	0.632													3	27					0	0	1	0	0		T	4345956	T	T	4345956	3	4	122	1	0	0	0	0	1	0	0	0	9749	536	19	1	519	1	MPND	19	4345956	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	597974	4345956	54783027	899	67902											
TICAM1	148022	broad.mit.edu	37	chr19	4816266	4816266	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcggtcattctgcctcctgCgtcttgtcctcgggcgcctg	1	12	12	16	5	3	0	1	0	2	0	6	0	5	0	4	2	2	0	4	2	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:4816266C>T	uc002mbi.2	-	2	2375	c.2124G>A	c.(2122-2124)ACG>ACA	p.T708T		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	708	Sufficient to induce apoptosis.				apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		CTGCCTCCTGCGTCTTGTCCT	0.637													19	112					0	0	1	0	0		T	4816266	T	T	4816266	2	4	122	1	0	0	0	0	0	0	0	1	15917	755	27	1		1	TICAM1	19	4816266	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	470310	4816266	54312717	900	67903											
TICAM1	148022	broad.mit.edu	37	chr19	4818055	4818055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtaggccacgtcccgcagcGaggcggggcacagcttctcc	6	5	15	15	4	1	0	0	0	1	0	3	1	2	0	3	5	2	4	3	5	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:4818055G>A	uc002mbi.2	-	2	586	c.335C>T	c.(334-336)TCG>TTG	p.S112L		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	112					apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		GTCCCGCAGCGAGGCGGGGCA	0.687													11	63					0	0	1	0	0		A	4818055	A	A	4818055	3	1	122	1	0	0	0	0	1	0	0	0	15917	1059	37	1	1807	1	TICAM1	19	4818055	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1789	4818055	54310928	901	67904											
MAP2K7	5609	broad.mit.edu	37	chr19	7975353	7975353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcaaatgcggcgctccGggaacaaggaggagaacaag	14	3	15	9	3	0	1	0	0	0	1	1	4	1	3	1	4	5	3	1	4	5	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:7975353G>A	uc002mit.2	+	5	528	c.463G>A	c.(463-465)GGG>AGG	p.G155R	MAP2K7_uc002miv.2_Missense_Mutation_p.G155R|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.G155R|MAP2K7_uc010dvv.2_Missense_Mutation_p.G30R	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	155	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	GCGGCGCTCCGGGAACAAGGA	0.632													3	19					0	0	1	0	0		A	7975353	A	A	7975353	3	1	122	1	0	0	0	0	1	0	0	0	9260	1116	39	1	481	1	MAP2K7	19	7975353	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3157298	7975353	51153630	902	67905											
FBN3	84467	broad.mit.edu	37	chr19	8153044	8153044	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttgcccacaggggtggccGacagagcactcgtctgtgtc	6	8	13	14	2	1	1	0	0	1	1	3	2	1	1	3	3	2	1	3	3	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:8153044G>A	uc002mjf.2	-	51	6417	c.6396C>T	c.(6394-6396)GTC>GTT	p.V2132V	FBN3_uc002mje.2_5'UTR	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2132	EGF-like 34; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						AGGGGTGGCCGACAGAGCACT	0.612													8	103					0	0	1	0	0		A	8153044	A	A	8153044	2	1	122	1	0	0	0	0	0	0	0	1	5718	1045	37	1		1	FBN3	19	8153044	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	177691	8153044	50975939	903	67906											
CD320	51293	broad.mit.edu	37	chr19	8367417	8367417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagtaaccccagtgggCggaggcgctcctgggctcgg	6	5	15	15	3	0	0	0	0	0	0	2	1	1	1	5	5	1	3	5	5	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:8367417C>T	uc002mjj.1	-	5	844	c.779G>A	c.(778-780)CGC>CAC	p.R260H	CD320_uc002mjk.1_RNA|CD320_uc002mjl.1_Missense_Mutation_p.R218H	NM_016579	NP_057663	Q9NPF0	CD320_HUMAN	8D6 antigen isoform 1 precursor	260	Cytoplasmic (Potential).				regulation of cell growth	endoplasmic reticulum|integral to membrane	growth factor activity				0						CCCCAGTGGGCGGAGGCGCTC	0.622													15	108					0	0	1	0	0		T	8367417	T	T	8367417	3	4	122	1	0	0	0	0	1	0	0	0	3007	768	27	1	73	1	CD320	19	8367417	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	214373	8367417	50761566	904	67907											
MYO1F	4542	broad.mit.edu	37	chr19	8609255	8609255	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggtccccacagccgcctGcagcttctgcagcagtgtct	5	9	12	15	1	2	0	0	0	2	0	3	0	3	0	4	1	5	4	4	1	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:8609255G>A	uc002mkg.2	-	14	1564	c.1450C>T	c.(1450-1452)CAG>TAG	p.Q484*		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	484	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						ACAGCCGCCTGCAGCTTCTGC	0.677													8	60					0	0	1	0	0		A	8609255	A	A	8609255	4	1	122	1	0	0	0	0	0	1	0	0	10091	1328	46	2	1906	2	MYO1F	19	8609255	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	241838	8609255	50519728	905	67908											
MYO1F	4542	broad.mit.edu	37	chr19	8619539	8619539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccagccccagcctcaccGcgccctgatagaggtcgatc	8	5	9	19	3	1	2	1	1	0	1	3	3	1	2	6	1	2	0	6	1	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:8619539G>A	uc002mkg.2	-	3	344	c.230C>T	c.(229-231)GCG>GTG	p.A77V	MYO1F_uc002mkh.2_Missense_Mutation_p.A77V|MYO1F_uc010xkf.1_Missense_Mutation_p.A77V	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	77	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						CAGCCTCACCGCGCCCTGATA	0.627													12	95					0	0	1	0	0		A	8619539	A	A	8619539	3	1	122	1	0	0	0	0	1	0	0	0	10091	1101	38	1	3170	1	MYO1F	19	8619539	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	10284	8619539	50509444	906	67909											
MUC16	94025	broad.mit.edu	37	chr19	9071218	9071218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catggcggcttctgtgtgtgCagtgtctttgtaagtggccg	4	14	15	8	2	2	0	0	0	2	0	2	0	2	0	1	3	1	3	1	3	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:9071218C>T	uc002mkp.2	-	3	16432	c.16228G>A	c.(16228-16230)GCA>ACA	p.A5410T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5412	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTGTGTGTGCAGTGTCTTTG	0.502													58	468					0	0	1	0	0		T	9071218	T	T	9071218	3	4	122	1	0	0	0	0	1	0	0	0	9991	710	25	2	27623	2	MUC16	19	9071218	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	451679	9071218	50057765	907	67910											
PDE4A	5141	broad.mit.edu	37	chr19	10574506	10574506	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcactgtgccgacctcagcaAccccaccaagccgctggagc	9	4	10	18	2	1	0	1	0	0	0	1	2	1	1	6	1	5	3	6	1	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:10574506A>G	uc002moj.2	+	14	1889	c.1781A>G	c.(1780-1782)AAC>AGC	p.N594S	PDE4A_uc002mok.2_Missense_Mutation_p.N568S|PDE4A_uc002mol.2_Missense_Mutation_p.N533S|PDE4A_uc002mom.2_Missense_Mutation_p.N355S|PDE4A_uc002mon.2_Missense_Mutation_p.N49S|PDE4A_uc002moo.2_Missense_Mutation_p.N260S	NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1	594	Catalytic.	Binds AMP, but not cAMP (By similarity).			signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)	GACCTCAGCAACCCCACCAAG	0.617													16	81					0	0	1	0	0		G	10574506	G	G	10574506	3	3	122	1	0	0	0	0	1	0	0	0	11658	43	2	3	2292	3	PDE4A	19	10574506	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1503288	10574506	48554477	908	67911											
ILF3	3609	broad.mit.edu	37	chr19	10787915	10787915	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gataaaaaacacaaaagagcCtccattgtccctgaccatcc	16	7	5	13	0	0	2	0	1	0	1	3	3	3	2	5	0	2	0	5	0	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:10787915C>A	uc002mpn.2	+	5	805	c.488C>A	c.(487-489)CCT>CAT	p.P163H	ILF3_uc002mpm.2_Missense_Mutation_p.P163H|ILF3_uc002mpl.2_Missense_Mutation_p.P163H|ILF3_uc002mpk.2_Missense_Mutation_p.P163H|ILF3_uc010xli.1_Intron|ILF3_uc002mpo.2_Missense_Mutation_p.P163H|ILF3_uc002mpp.2_5'UTR	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	163	DZF.				M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			ACAAAAGAGCCTCCATTGTCC	0.458													17	79					1.99824e-07	2.21636e-07	1	1	0		A	10787915	A	A	10787915	3	1	122	1	0	0	0	0	1	0	0	0	7728	681	24	5	502	5	ILF3	19	10787915	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	213409	10787915	48341068	909	67912											
DNM2	1785	broad.mit.edu	37	chr19	10883278	10883278	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcatctccccagtgcccaTcaaccttcgagtctactcgc	8	9	7	17	2	3	0	1	0	2	0	6	1	3	0	4	1	3	1	4	1	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:10883278T>C	uc002mps.1	+	3	523	c.359T>C	c.(358-360)ATC>ACC	p.I120T	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Missense_Mutation_p.I120T|DNM2_uc002mpv.1_Missense_Mutation_p.I120T|DNM2_uc002mpu.1_Missense_Mutation_p.I120T|DNM2_uc010dxl.1_Missense_Mutation_p.I120T	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	120					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			CCAGTGCCCATCAACCTTCGA	0.552													11	62					0	0	1	0	0		C	10883278	C	C	10883278	3	2	122	1	0	0	0	0	1	0	0	0	4678	1435	50	3	369	3	DNM2	19	10883278	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	95363	10883278	48245705	910	67913											
LDLR	3949	broad.mit.edu	37	chr19	11216248	11216248	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgatggtggccccgactgCaaggacaaatctgacgagga	11	7	14	9	2	1	2	0	2	1	0	1	6	1	4	2	4	1	1	2	4	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:11216248C>T	uc002mqk.3	+	4	834	c.666C>T	c.(664-666)TGC>TGT	p.C222C	LDLR_uc010xlk.1_Silent_p.C222C|LDLR_uc010xll.1_Silent_p.C181C|LDLR_uc010xlm.1_Silent_p.C75C|LDLR_uc010xln.1_Intron|LDLR_uc010xlo.1_Intron	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	222	LDL-receptor class A 5.|Extracellular (Potential).		C -> Y (in FH).		cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		Lung NSC(9;0.000245)|Renal(1328;0.0007)|Hepatocellular(1079;0.0524)		GBM - Glioblastoma multiforme(1328;1.36e-05)|STAD - Stomach adenocarcinoma(1328;0.000766)|Lung(535;0.197)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	GCCCCGACTGCAAGGACAAAT	0.642													8	66					0	0	1	0	0		T	11216248	T	T	11216248	2	4	122	1	0	0	0	0	0	0	0	1	8720	718	25	2		2	LDLR	19	11216248	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	332970	11216248	47912735	911	67914											
DOCK6	57572	broad.mit.edu	37	chr19	11361640	11361640	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtccacatcttctggggcCgcccgctctagcagagaggg	6	7	14	14	3	3	1	0	0	3	1	4	2	4	1	3	4	1	2	3	4	1	2	rs114634227	by1000genomes	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:11361640C>T	uc002mqs.3	-	6	671	c.630G>A	c.(628-630)GCG>GCA	p.A210A		NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	210					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CTTCTGGGGCCGCCCGCTCTA	0.662													6	48					0	0	1	0	0		T	11361640	T	T	11361640	2	4	122	1	0	0	0	0	0	0	0	1	4697	639	23	1		1	DOCK6	19	11361640	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	145392	11361640	47767343	912	67915											
ZNF136	7695	broad.mit.edu	37	chr19	12298640	12298640	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaatgtaagcgatgtggtAaagcctttagatcttctagt	11	15	10	5	1	2	2	0	1	2	1	2	3	2	2	1	1	2	2	1	1	6	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:12298640A>G	uc002mti.2	+	4	1547	c.1447A>G	c.(1447-1449)AAA>GAA	p.K483E	ZNF136_uc010xmh.1_Missense_Mutation_p.K417E	NM_003437	NP_003428	P52737	ZN136_HUMAN	zinc finger protein 136	483	C2H2-type 13.				negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|transcription corepressor activity|zinc ion binding			ovary(1)|pancreas(1)	2						GCGATGTGGTAAAGCCTTTAG	0.428													8	45					0	0	1	0	0		G	12298640	G	G	12298640	3	3	122	1	0	0	0	0	1	0	0	0	17751	363	13	3	1461	3	ZNF136	19	12298640	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	937000	12298640	46830343	913	67916											
TNPO2	30000	broad.mit.edu	37	chr19	12822392	12822392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaggatgatgtcaatttccGagtacttcatcccattcacc	10	12	7	12	1	3	1	3	1	0	0	5	3	5	2	3	1	1	2	3	1	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:12822392G>A	uc002muo.2	-	10	1111	c.926C>T	c.(925-927)TCG>TTG	p.S309L	TNPO2_uc002mup.2_Missense_Mutation_p.S401L|TNPO2_uc002muq.2_Missense_Mutation_p.S309L|TNPO2_uc002mur.2_Missense_Mutation_p.S309L	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	309	HEAT 5.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						GTCAATTTCCGAGTACTTCAT	0.582													5	28					0	0	1	0	0		A	12822392	A	A	12822392	3	1	122	1	0	0	0	0	1	0	0	0	16361	1059	37	1	1827	1	TNPO2	19	12822392	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	523752	12822392	46306591	914	67917											
IL27RA	9466	broad.mit.edu	37	chr19	14161650	14161650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtgacagcatctaccatcGctggacagggccctcctggt	7	8	13	13	1	1	1	0	1	1	0	3	2	2	2	3	4	2	2	3	4	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:14161650G>A	uc002mxx.2	+	11	1906	c.1483G>A	c.(1483-1485)GCT>ACT	p.A495T		NM_004843	NP_004834	Q6UWB1	I27RA_HUMAN	class I cytokine receptor precursor	495	Extracellular (Potential).|Fibronectin type-III 3.				cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0						ATCTACCATCGCTGGACAGGG	0.592													9	55					0	0	1	0	0		A	14161650	A	A	14161650	3	1	122	1	0	0	0	0	1	0	0	0	7697	1087	38	1	1525	1	IL27RA	19	14161650	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1339258	14161650	44967333	915	67918											
SLC1A6	6511	broad.mit.edu	37	chr19	15061128	15061128	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctgaagctccagctccCgctgagacaagtgctcgatg	8	9	10	14	2	0	2	0	2	0	1	4	4	3	2	3	0	3	4	3	0	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:15061128C>T	uc002naa.1	-	9	1582	c.1574G>A	c.(1573-1575)CGG>CAG	p.R525Q	SLC1A6_uc010dzu.1_Missense_Mutation_p.R447Q|SLC1A6_uc010xod.1_Missense_Mutation_p.R461Q	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	525					synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	CTCCAGCTCCCGCTGAGACAA	0.612													14	66					0	0	1	0	0		T	15061128	T	T	15061128	3	4	122	1	0	0	0	0	1	0	0	0	14461	652	23	1	124	1	SLC1A6	19	15061128	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	899478	15061128	44067855	916	67919											
MED26	9441	broad.mit.edu	37	chr19	16687986	16687986	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgttgacggggatcttgcCactgtgcttgtcattctcgt	4	14	13	10	3	3	1	1	1	2	0	4	2	3	2	1	3	2	2	1	3	0	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:16687986C>A	uc002nen.1	-	3	916	c.655G>T	c.(655-657)GGC>TGC	p.G219C	MED26_uc002nee.2_RNA	NM_004831	NP_004822	O95402	MED26_HUMAN	mediator complex subunit 26	219					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|RNA polymerase II transcription cofactor activity|transcription coactivator activity			ovary(2)	2						GGGATCTTGCCACTGTGCTTG	0.667													13	105					7.93312e-07	8.69453e-07	1	1	0		A	16687986	A	A	16687986	3	1	122	1	0	0	0	0	1	0	0	0	9462	594	21	5	1151	5	MED26	19	16687986	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1626858	16687986	42440997	917	67920											
KIAA1683	80726	broad.mit.edu	37	chr19	18368002	18368002	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagggtcctagatgccaggCcaatgcatgtgccgtgagct	8	8	13	12	1	0	2	0	1	0	1	1	2	1	2	5	2	4	2	5	2	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:18368002C>T	uc002nin.2	-	4	3747	c.3531G>A	c.(3529-3531)TGG>TGA	p.W1177*	PDE4C_uc002nil.3_5'Flank|KIAA1683_uc010ebn.2_Nonsense_Mutation_p.W1364*|KIAA1683_uc010xqe.1_Nonsense_Mutation_p.W1131*|KIAA1683_uc010xqf.1_RNA	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	1177						mitochondrion				ovary(2)	2						AGATGCCAGGCCAATGCATGT	0.597													15	69					0	0	1	0	0		T	18368002	T	T	18368002	4	4	122	1	0	0	0	0	0	1	0	0	8267	740	26	2	15	2	KIAA1683	19	18368002	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1680016	18368002	40760981	918	67921											
GATAD2A	54815	broad.mit.edu	37	chr19	19609358	19609358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccgagtctccagcaagccGacaggcggccgccaagctgg	8	4	14	15	4	1	0	0	0	1	0	2	2	1	0	5	3	4	2	5	3	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:19609358G>A	uc010xqt.1	+	8	1343	c.1031G>A	c.(1030-1032)CGA>CAA	p.R344Q	GATAD2A_uc010xqu.1_5'UTR|GATAD2A_uc010xqv.1_Missense_Mutation_p.R363Q|GATAD2A_uc010xqw.1_Missense_Mutation_p.R171Q	NM_017660	NP_060130	Q86YP4	P66A_HUMAN	GATA zinc finger domain containing 2A	344					DNA methylation|negative regulation of transcription, DNA-dependent	nuclear speck|NuRD complex	protein binding, bridging|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCAGCAAGCCGACAGGCGGCC	0.647													7	48					0	0	1	0	0		A	19609358	A	A	19609358	3	1	122	1	0	0	0	0	1	0	0	0	6275	1058	37	1	1057	1	GATAD2A	19	19609358	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1241356	19609358	39519625	919	67922											
GMIP	51291	broad.mit.edu	37	chr19	19747534	19747534	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgggctggaagtgggtgAgtccagggaccgagactcgc	8	6	17	10	2	0	2	0	1	0	1	2	5	1	4	3	4	0	1	3	4	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:19747534A>C	uc002nnd.2	-	13	1426	c.1309T>G	c.(1309-1311)TCA>GCA	p.S437A	GMIP_uc010xrb.1_Missense_Mutation_p.S437A|GMIP_uc010xrc.1_Missense_Mutation_p.S434A	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	437					negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						GAAGTGGGTGAGTCCAGGGAC	0.627													9	86					0	0	1	0	0		C	19747534	C	C	19747534	3	2	122	1	0	0	0	0	1	0	0	0	6506	304	11	5	1639	5	GMIP	19	19747534	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	138176	19747534	39381449	920	67923											
ZNF254	9534	broad.mit.edu	37	chr19	24289419	24289419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagccctggaatatgaagcGacatgagatggtggatgaac	14	7	14	6	1	0	4	0	3	0	2	0	8	0	6	1	3	3	0	1	3	4	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:24289419G>A	uc002nru.2	+	3	361	c.227G>A	c.(226-228)CGA>CAA	p.R76Q	ZNF254_uc010xrk.1_Intron|ZNF254_uc002nrt.1_RNA	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	76	KRAB.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				AATATGAAGCGACATGAGATG	0.423													18	116					0	0	1	0	0		A	24289419	A	A	24289419	3	1	122	1	0	0	0	0	1	0	0	0	17823	1058	37	1	237	1	ZNF254	19	24289419	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4541885	24289419	34839564	921	67924											
CHST8	64377	broad.mit.edu	37	chr19	34263835	34263835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccggcactcgcaggaggCgcggaccacagcgaggatcg	9	2	17	13	6	0	0	0	0	0	0	2	5	0	4	2	6	1	2	2	6	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:34263835C>T	uc002nus.3	+	5	1647	c.1142C>T	c.(1141-1143)GCG>GTG	p.A381V	CHST8_uc002nut.3_Missense_Mutation_p.A381V|CHST8_uc002nuu.2_Missense_Mutation_p.A381V	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	381	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)					TCGCAGGAGGCGCGGACCACA	0.612													8	54					0	0	1	0	0		T	34263835	T	T	34263835	3	4	122	1	0	0	0	0	1	0	0	0	3413	768	27	1	1152	1	CHST8	19	34263835	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	9974416	34263835	24865148	922	67925											
ARHGAP33	115703	broad.mit.edu	37	chr19	36279044	36279044	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcttcccctcctgcccacCcccgaagccgttcagatccc	5	8	5	23	2	2	1	1	0	1	1	5	2	5	1	9	0	2	1	9	0	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:36279044C>A	uc002obs.1	+	21	3179	c.3094C>A	c.(3094-3096)CCC>ACC	p.P1032T	ARHGAP33_uc002obt.1_Missense_Mutation_p.P1029T|ARHGAP33_uc010eel.2_Intron|ARHGAP33_uc002obv.1_Missense_Mutation_p.P781T	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	1193					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						TCCTGCCCACCCCCGAAGCCG	0.687													14	65					5.01169e-05	5.34135e-05	1	1	0		A	36279044	A	A	36279044	3	1	122	1	0	0	0	0	1	0	0	0	882	623	22	5	3659	5	ARHGAP33	19	36279044	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2015209	36279044	22849939	923	67926											
LRFN3	79414	broad.mit.edu	37	chr19	36430878	36430878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctgggcaacgtcaacaCgttgggcctcgaccacaacc	9	5	10	17	4	1	0	1	0	0	0	2	1	1	0	5	2	3	2	5	2	3	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:36430878C>T	uc002oco.2	+	2	1003	c.551C>T	c.(550-552)ACG>ATG	p.T184M		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	184	Extracellular (Potential).|LRR 6.				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			AACGTCAACACGTTGGGCCTC	0.652													19	187					0	0	1	0	0		T	36430878	T	T	36430878	3	4	122	1	0	0	0	0	1	0	0	0	8957	536	19	1	553	1	LRFN3	19	36430878	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	151834	36430878	22698105	924	67927											
SIPA1L3	23094	broad.mit.edu	37	chr19	38573489	38573489	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacctgctgctcagctgcccGcacttccgcaatgagatcgg	7	8	11	15	3	1	1	1	1	0	1	3	3	2	1	3	1	4	5	3	1	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:38573489G>A	uc002ohk.2	+	3	1793	c.1284G>A	c.(1282-1284)CCG>CCA	p.P428P		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	428					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TCAGCTGCCCGCACTTCCGCA	0.647													14	69					0	0	1	0	0		A	38573489	A	A	38573489	2	1	122	1	0	0	0	0	0	0	0	1	14356	1074	38	1		1	SIPA1L3	19	38573489	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2142611	38573489	20555494	925	67928											
IL28B	282617	broad.mit.edu	37	chr19	39734753	39734753	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggcctccagaaccttcagCgtcagggccagctcagcctc	7	7	11	16	1	3	1	3	0	0	1	5	1	4	1	5	2	4	1	5	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:39734753C>T	uc010xut.1	-	3	307	c.303G>A	c.(301-303)ACG>ACA	p.T101T	IL28B_uc010xuu.1_Silent_p.T101T	NM_172139	NP_742151	Q8IZI9	IL28B_HUMAN	interleukin 28B	101					response to virus	extracellular space	cytokine activity				0	all_cancers(60;2.81e-07)|all_lung(34;7.81e-08)|Lung NSC(34;9.29e-08)|all_epithelial(25;3.9e-07)|Ovarian(47;0.0315)		Epithelial(26;1.55e-27)|all cancers(26;1.41e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			GAACCTTCAGCGTCAGGGCCA	0.488													9	70					0	0	1	0	0		T	39734753	T	T	39734753	2	4	122	1	0	0	0	0	0	0	0	1	7699	755	27	1		1	IL28B	19	39734753	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1161264	39734753	19394230	926	67929											
SAMD4B	55095	broad.mit.edu	37	chr19	39847579	39847579	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgctggctggttcaaaGgctggaatgagtgtgagcag	8	10	15	8	1	1	2	1	2	0	0	3	3	2	3	1	4	1	5	1	4	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:39847579G>T	uc002olb.2	+	5	1081	c.46G>T	c.(46-48)GGC>TGC	p.G16C	SAMD4B_uc002ola.2_Missense_Mutation_p.G16C	NM_018028	NP_060498	Q5PRF9	SMAG2_HUMAN	sterile alpha motif domain containing 4B	16							protein binding				0	all_cancers(60;2.5e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			CTGGTTCAAAGGCTGGAATGA	0.662													3	33					2.56e-06	2.78281e-06	1	1	0		T	39847579	T	T	39847579	3	4	122	1	0	0	0	0	1	0	0	0	13847	1000	35	5	48	5	SAMD4B	19	39847579	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	112826	39847579	19281404	927	67930											
SAMD4B	55095	broad.mit.edu	37	chr19	39868230	39868230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggccaccgtggctgccGccaccaccacccctactgcc	6	5	8	22	2	0	0	0	0	0	0	1	0	1	0	10	2	3	1	10	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:39868230G>A	uc002olb.2	+	10	2245	c.1210G>A	c.(1210-1212)GCC>ACC	p.A404T	SAMD4B_uc002ola.2_Missense_Mutation_p.A404T	NM_018028	NP_060498	Q5PRF9	SMAG2_HUMAN	sterile alpha motif domain containing 4B	404							protein binding				0	all_cancers(60;2.5e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			CGTGGCTGCCGCCACCACCAC	0.657													8	59					0	0	1	0	0		A	39868230	A	A	39868230	3	1	122	1	0	0	0	0	1	0	0	0	13847	1087	38	1	1232	1	SAMD4B	19	39868230	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	20651	39868230	19260753	928	67931											
PRX	57716	broad.mit.edu	37	chr19	40900053	40900053	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgggtgacttctctctgacGggggacttgggggctgcatc	4	12	16	9	1	2	2	0	2	2	0	4	3	2	3	0	5	1	2	0	5	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:40900053G>A	uc002onr.2	-	7	4475	c.4206C>T	c.(4204-4206)CCC>CCT	p.P1402P	PRX_uc002onq.2_Silent_p.P1263P|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	1402					axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TCTCTCTGACGGGGGACTTGG	0.692													17	123					0	0	1	0	0		A	40900053	A	A	40900053	2	1	122	1	0	0	0	0	0	0	0	1	12664	1103	39	1		1	PRX	19	40900053	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1031823	40900053	18228930	929	67932											
PRX	57716	broad.mit.edu	37	chr19	40901223	40901223	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccccttgaacttgaggtcGgcccctgccacctctacctt	5	10	9	17	1	1	2	0	2	1	0	2	2	1	2	7	3	3	0	7	3	2	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:40901223G>A	uc002onr.2	-	7	3305	c.3036C>T	c.(3034-3036)GCC>GCT	p.A1012A	PRX_uc002onq.2_Silent_p.A873A|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	1012					axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			ACTTGAGGTCGGCCCCTGCCA	0.652													6	69					0	0	1	0	0		A	40901223	A	A	40901223	2	1	122	1	0	0	0	0	0	0	0	1	12664	1103	39	1		1	PRX	19	40901223	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1170	40901223	18227760	930	67933											
SPTBN4	57731	broad.mit.edu	37	chr19	41066148	41066148	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatcgctagccgggagcaGgaggtgctgcagggttggaa	8	6	18	9	2	0	0	0	0	0	0	1	3	0	3	2	5	4	5	2	5	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:41066148G>T	uc002ony.2	+	27	5840	c.5754G>T	c.(5752-5754)CAG>CAT	p.Q1918H	SPTBN4_uc002onx.2_Missense_Mutation_p.Q1918H|SPTBN4_uc002onz.2_Missense_Mutation_p.Q1918H|SPTBN4_uc010egx.2_Missense_Mutation_p.Q661H|SPTBN4_uc002ooa.2_Missense_Mutation_p.Q594H	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1918	Spectrin 16.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GCCGGGAGCAGGAGGTGCTGC	0.667													19	104					2.35188e-11	2.69332e-11	1	1	0		T	41066148	T	T	41066148	3	4	122	1	0	0	0	0	1	0	0	0	15146	991	35	5	5856	5	SPTBN4	19	41066148	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	164925	41066148	18062835	931	67934											
CCDC97	90324	broad.mit.edu	37	chr19	41822576	41822576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgttcctggagcgcttcCgcacaggcctccgtgaggag	5	9	15	12	3	0	1	0	1	0	0	3	3	3	3	4	4	1	3	4	4	0	2	rs142783394		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:41822576C>T	uc002oqg.2	+	2	456	c.334C>T	c.(334-336)CGC>TGC	p.R112C	CYP2F1_uc010xvw.1_Intron	NM_052848	NP_443080	Q96F63	CCD97_HUMAN	coiled-coil domain containing 97	112											0						GGAGCGCTTCCGCACAGGCCT	0.637													11	45					0	0	1	0	0		T	41822576	T	T	41822576	3	4	122	1	0	0	0	0	1	0	0	0	2878	652	23	1	340	1	CCDC97	19	41822576	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	756428	41822576	17306407	932	67935											
ZNF574	64763	broad.mit.edu	37	chr19	42584249	42584249	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggagcggcgccataaatgCagcatttgtggcaagatgtt	10	10	13	8	2	0	1	0	0	0	1	0	2	0	2	1	3	3	4	1	3	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:42584249C>T	uc002osm.3	+	2	1660	c.1491C>T	c.(1489-1491)TGC>TGT	p.C497C	ZNF574_uc002osk.3_Silent_p.C587C	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	497	C2H2-type 10; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				GCCATAAATGCAGCATTTGTG	0.592													47	285					0	0	1	0	0		T	42584249	T	T	42584249	2	4	122	1	0	0	0	0	0	0	0	1	18031	718	25	2		2	ZNF574	19	42584249	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	761673	42584249	16544734	933	67936											
ZNF574	64763	broad.mit.edu	37	chr19	42584642	42584642	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggaggtgcaccagctcgtGgtccatgccgggcgccagcc	5	6	15	15	3	0	0	0	0	0	0	2	1	1	1	5	4	4	2	5	4	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:42584642G>T	uc002osm.3	+	2	2053	c.1884G>T	c.(1882-1884)GTG>GTT	p.V628V	ZNF574_uc002osk.3_Silent_p.V718V	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	628	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				ACCAGCTCGTGGTCCATGCCG	0.682													6	126					0.00307968	0.00317774	1	1	0		T	42584642	T	T	42584642	2	4	122	1	0	0	0	0	0	0	0	1	18031	1335	47	5		5	ZNF574	19	42584642	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	393	42584642	16544341	934	67937											
ZNF526	116115	broad.mit.edu	37	chr19	42729572	42729572	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtgtacaacctgctccaaGgtcttcaagaaagcagcatc	13	8	9	11	0	2	1	1	0	1	1	4	2	3	1	2	1	5	4	2	1	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:42729572G>T	uc002osz.1	+	3	1173	c.1017G>T	c.(1015-1017)AAG>AAT	p.K339N		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	339	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				CCTGCTCCAAGGTCTTCAAGA	0.607													7	68					8.12818e-05	8.60167e-05	1	1	0		T	42729572	T	T	42729572	3	4	122	1	0	0	0	0	1	0	0	0	17992	991	35	5	1019	5	ZNF526	19	42729572	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	144930	42729572	16399411	935	67938											
CIC	23152	broad.mit.edu	37	chr19	42794850	42794850	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaggagcaagagggcggcGgagccagagtgccctccgcc	9	2	18	12	3	0	2	0	0	0	2	1	5	1	5	4	5	3	1	4	5	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:42794850G>T	uc002otf.1	+	10	1970	c.1930G>T	c.(1930-1932)GGA>TGA	p.G644*		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	644	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				AGAGGGCGGCGGAGCCAGAGT	0.692			T	DUX4	soft tissue sarcoma								16	61					1.3612e-06	1.49049e-06	1	1	0		T	42794850	T	T	42794850	4	4	122	1	0	0	0	0	0	1	0	0	3427	1117	39	5	1968	5	CIC	19	42794850	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	65278	42794850	16334133	936	67939											
CIC	23152	broad.mit.edu	37	chr19	42795222	42795222	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctaacctactggtgggcaccCcggggtatggggcccctgcg	5	7	15	14	2	0	0	0	0	0	0	0	0	0	0	5	6	3	2	5	6	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:42795222C>A	uc002otf.1	+	10	2342	c.2302C>A	c.(2302-2304)CCG>ACG	p.P768T		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	768	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				GGTGGGCACCCCGGGGTATGG	0.697			T	DUX4	soft tissue sarcoma								5	45					0.184627	0.185245	1	1	0		A	42795222	A	A	42795222	3	1	122	1	0	0	0	0	1	0	0	0	3427	623	22	5	2340	5	CIC	19	42795222	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	372	42795222	16333761	937	67940											
PAFAH1B3	5050	broad.mit.edu	37	chr19	42801471	42801471	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagctcgttcacctgtcggTtcttctcccgaagtgggttg	4	13	11	13	3	3	0	1	0	2	0	6	1	3	0	3	2	1	4	3	2	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:42801471T>C	uc002otg.2	-	5	790	c.455A>G	c.(454-456)AAC>AGC	p.N152S	PAFAH1B3_uc010xwi.1_Missense_Mutation_p.N152S|PAFAH1B3_uc010xwj.1_Missense_Mutation_p.N152S	NM_002573	NP_002564	Q15102	PA1B3_HUMAN	platelet-activating factor acetylhydrolase,	152					lipid catabolic process|nervous system development	cytoplasm	1-alkyl-2-acetylglycerophosphocholine esterase activity|protein binding				0		Prostate(69;0.0704)				CACCTGTCGGTTCTTCTCCCG	0.587													14	82					0	0	1	0	0		C	42801471	C	C	42801471	3	2	122	1	0	0	0	0	1	0	0	0	11405	1725	60	3	244	3	PAFAH1B3	19	42801471	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	6249	42801471	16327512	938	67941											
LIPE	3991	broad.mit.edu	37	chr19	42910455	42910455	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatctggcacccgcaccccGtaggctgctgcccgaagagc	7	5	11	18	3	1	1	0	0	1	1	1	2	1	1	5	2	3	5	5	2	2	1	rs141921519	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:42910455G>A	uc002otr.2	-	7	2500	c.2223C>T	c.(2221-2223)TAC>TAT	p.Y741Y	uc010eif.1_Intron	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	741					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				CCCGCACCCCGTAGGCTGCTG	0.662													12	61					0	0	1	0	0		A	42910455	A	A	42910455	2	1	122	1	0	0	0	0	0	0	0	1	8838	1140	40	1		1	LIPE	19	42910455	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	108984	42910455	16218528	939	67942											
CXCL17	284340	broad.mit.edu	37	chr19	42938009	42938009	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggcctctggcgacccCtgtcggaaggaaacaggtca	8	7	13	13	2	2	0	1	0	1	0	3	3	2	2	4	5	1	0	4	5	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:42938009C>A	uc002otu.2	-	2	232	c.80_splice	c.e2-1	p.G27_splice	uc010eif.1_Intron|uc002ott.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron	NM_198477	NP_940879	Q6UXB2	VCC1_HUMAN	chemokine (C-X-C motif) ligand 17 precursor						angiogenesis|cell differentiation|chemotaxis	extracellular region					0		Prostate(69;0.00899)				CTGGCGACCCCTGTCGGAAGG	0.527											OREG0025504	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	93					2.32078e-09	2.62759e-09	1	1	0		A	42938009	A	A	42938009	5	1	122	1	0	0	0	0	0	0	1	0	4087	695	24	5	292	5	CXCL17	19	42938009	Splice_Site	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	27554	42938009	16190974	940	67943											
ZNF296	162979	broad.mit.edu	37	chr19	45575370	45575370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcagcagcatggacagccGgctccggaggggctgcagag	8	3	19	11	2	0	1	0	0	0	1	1	3	1	3	2	6	4	6	2	6	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:45575370G>A	uc002pao.2	-	3	974	c.917C>T	c.(916-918)CCG>CTG	p.P306L		NM_145288	NP_660331	Q8WUU4	ZN296_HUMAN	zinc finger protein 296	306					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGGACAGCCGGCTCCGGAGG	0.706													10	57					0	0	1	0	0		A	45575370	A	A	45575370	3	1	122	1	0	0	0	0	1	0	0	0	17853	1116	39	1	514	1	ZNF296	19	45575370	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2637361	45575370	13553613	941	67944											
PPP1R13L	10848	broad.mit.edu	37	chr19	45899679	45899679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctttcggaggccgccggCgcagcgtcaggtcgtctggg	4	7	18	12	6	2	0	1	0	1	0	4	1	2	1	2	6	1	2	2	6	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:45899679C>T	uc002pbn.2	-	5	805	c.728G>A	c.(727-729)CGC>CAC	p.R243H	PPP1R13L_uc002pbo.2_Missense_Mutation_p.R243H|PPP1R13L_uc002pbp.2_Missense_Mutation_p.R243H	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	243	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		AGGCCGCCGGCGCAGCGTCAG	0.652													9	93					0	0	1	0	0		T	45899679	T	T	45899679	3	4	122	1	0	0	0	0	1	0	0	0	12380	768	27	1	1794	1	PPP1R13L	19	45899679	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	324309	45899679	13229304	942	67945											
OPA3	80207	broad.mit.edu	37	chr19	46088007	46088007	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagcagcttcgccatagggaAcgcgcccaccaccatcttgg	9	7	10	15	3	1	0	0	0	1	0	2	1	1	1	4	2	3	2	4	2	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:46088007A>C	uc002pck.3	-	1	116	c.16T>G	c.(16-18)TTC>GTC	p.F6V	OPA3_uc002pcj.3_Missense_Mutation_p.F6V|OPA3_uc010xxk.1_Intron	NM_025136	NP_079412	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform b	6					response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)		GCCATAGGGAACGCGCCCACC	0.642													19	74					0	0	1	0	0		C	46088007	C	C	46088007	3	2	122	1	0	0	0	0	1	0	0	0	10891	43	2	5	936	5	OPA3	19	46088007	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	188328	46088007	13040976	943	67946											
QPCTL	54814	broad.mit.edu	37	chr19	46205129	46205129	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttccaacccggggagccCtttggctctgtggaagacga	8	9	12	12	2	1	1	0	0	1	1	2	4	2	3	3	4	3	1	3	4	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:46205129C>T	uc010xxr.1	+	6	1181	c.960C>T	c.(958-960)CCC>CCT	p.P320P	QPCTL_uc010ekn.2_Silent_p.P226P	NM_017659	NP_060129	Q9NXS2	QPCTL_HUMAN	glutaminyl-peptide cyclotransferase-like isoform	320					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	Golgi membrane|integral to membrane	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|protein binding|zinc ion binding			skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0059)|GBM - Glioblastoma multiforme(486;0.0882)|Epithelial(262;0.208)		CCGGGGAGCCCTTTGGCTCTG	0.577													8	66					0	0	1	0	0		T	46205129	T	T	46205129	2	4	122	1	0	0	0	0	0	0	0	1	12900	668	24	4		4	QPCTL	19	46205129	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	117122	46205129	12923854	944	67947											
DMWD	1762	broad.mit.edu	37	chr19	46289676	46289676	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatggcctcgagccaccaCgcggccctcggtgaaggacc	7	4	13	17	4	0	1	0	1	0	0	2	3	0	2	6	4	1	0	6	4	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:46289676C>T	uc002pdj.1	-	3	1124	c.1078G>A	c.(1078-1080)GTG>ATG	p.V360M	DMWD_uc002pdk.1_Missense_Mutation_p.V360M|DMWD_uc010eko.1_Missense_Mutation_p.V45M	NM_004943	NP_004934	Q09019	DMWD_HUMAN	dystrophia myotonica-containing WD repeat motif	360	WD 3.				meiosis						0		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00604)|GBM - Glioblastoma multiforme(486;0.0807)|Epithelial(262;0.236)		CGAGCCACCACGCGGCCCTCG	0.667													12	121					0	0	1	0	0		T	46289676	T	T	46289676	3	4	122	1	0	0	0	0	1	0	0	0	4599	536	19	1	958	1	DMWD	19	46289676	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	84547	46289676	12839307	945	67948											
STRN4	29888	broad.mit.edu	37	chr19	47242056	47242056	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcacctttcctgcttcagCgcatactctagcatcttgat	7	14	6	14	1	4	1	2	1	2	0	5	1	5	1	2	0	4	4	2	0	2	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:47242056C>T	uc002pfl.2	-	2	405	c.372G>A	c.(370-372)GCG>GCA	p.A124A	STRN4_uc002pfm.2_Silent_p.A124A|STRN4_uc010xyf.1_RNA|STRN4_uc010xyg.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	124	Potential.					cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)		CCTGCTTCAGCGCATACTCTA	0.607													17	160					0	0	1	0	0		T	47242056	T	T	47242056	2	4	122	1	0	0	0	0	0	0	0	1	15356	755	27	1		1	STRN4	19	47242056	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	952380	47242056	11886927	946	67949											
EHD2	30846	broad.mit.edu	37	chr19	48239678	48239678	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggagatgccctctgtgtttgGgaaggagaacaagaagaagc	13	7	15	6	0	1	4	0	0	1	4	1	7	1	5	1	3	3	1	1	3	5	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:48239678G>T	uc002phj.3	+	5	1218	c.968G>T	c.(967-969)GGG>GTG	p.G323V	EHD2_uc010xyu.1_Missense_Mutation_p.G187V|EHD2_uc010xyv.1_Missense_Mutation_p.G6V	NM_014601	NP_055416	Q9NZN4	EHD2_HUMAN	EH-domain containing 2	323					blood coagulation|endocytic recycling	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding			ovary(1)|skin(1)	2		all_cancers(25;6.74e-07)|all_lung(116;2.02e-05)|Lung NSC(112;3.77e-05)|all_epithelial(76;4.89e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		OV - Ovarian serous cystadenocarcinoma(262;0.000336)|all cancers(93;0.000415)|Epithelial(262;0.0132)|GBM - Glioblastoma multiforme(486;0.0537)		TCTGTGTTTGGGAAGGAGAAC	0.408													19	111					1.45105e-14	1.68914e-14	1	1	0		T	48239678	T	T	48239678	3	4	122	1	0	0	0	0	1	0	0	0	4984	1232	43	5	982	5	EHD2	19	48239678	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	997622	48239678	10889305	947	67950											
TULP2	7288	broad.mit.edu	37	chr19	49391480	49391480	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgaggagttcgtccctgtAgactcagaggcctctctctt	6	12	11	12	1	3	3	1	1	2	2	6	4	4	4	2	2	0	3	2	2	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:49391480A>G	uc002pkz.2	-	8	826	c.675T>C	c.(673-675)TCT>TCC	p.S225S		NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	225					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		TCGTCCCTGTAGACTCAGAGG	0.552													6	66					0	0	1	0	0		G	49391480	G	G	49391480	2	3	122	1	0	0	0	0	0	0	0	1	16800	407	15	3		3	TULP2	19	49391480	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	1151802	49391480	9737503	948	67951											
PRMT1	3276	broad.mit.edu	37	chr19	50191485	50191485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgagctgtcctgctccaccGactaccggatgcgctgaggc	6	7	13	15	4	0	1	0	1	0	0	2	4	2	2	4	2	4	3	4	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:50191485G>A	uc010enf.1	+	11	1141	c.1099G>A	c.(1099-1101)GAC>AAC	p.D367N	CPT1C_uc002ppl.3_5'Flank|CPT1C_uc002ppi.2_5'Flank|CPT1C_uc002ppk.2_5'Flank|CPT1C_uc010eng.2_5'Flank|CPT1C_uc010enh.2_5'Flank|CPT1C_uc002ppj.2_5'Flank|PRMT1_uc002ppc.1_RNA|PRMT1_uc002ppd.2_Missense_Mutation_p.D343N|PRMT1_uc002ppe.2_Missense_Mutation_p.D349N|PRMT1_uc002ppf.2_RNA|PRMT1_uc002ppg.2_Missense_Mutation_p.D314N|PRMT1_uc010ybb.1_RNA|C19orf76_uc002pph.2_5'Flank	NM_001536	NP_001527	Q8WUW5	Q8WUW5_HUMAN	HMT1 hnRNP methyltransferase-like 2 isoform 1	348						cytoplasm	protein methyltransferase activity			ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00103)|GBM - Glioblastoma multiforme(134;0.012)		CTGCTCCACCGACTACCGGAT	0.687													23	131					0	0	1	0	0		A	50191485	A	A	50191485	3	1	122	1	0	0	0	0	1	0	0	0	12557	1058	37	1	1141	1	PRMT1	19	50191485	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	800005	50191485	8937498	949	67952											
SPIB	6689	broad.mit.edu	37	chr19	50926143	50926143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctatgaagccttcgaccCggcagcagccgcttttagcc	7	8	9	17	3	0	1	0	1	0	0	1	2	0	1	6	1	4	3	6	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:50926143C>T	uc002psd.2	+	4	213	c.188C>T	c.(187-189)CCG>CTG	p.P63L	SPIB_uc002pse.2_Missense_Mutation_p.P63L|SPIB_uc010ycc.1_Intron	NM_003121	NP_003112	Q01892	SPIB_HUMAN	Spi-B transcription factor (Spi-1/PU.1 related)	63					regulation of transcription from RNA polymerase II promoter	cytoplasm|microtubule cytoskeleton|nucleus	sequence-specific DNA binding			lung(1)|kidney(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		GCCTTCGACCCGGCAGCAGCC	0.657													20	107					0	0	1	0	0		T	50926143	T	T	50926143	3	4	122	1	0	0	0	0	1	0	0	0	15075	652	23	1	202	1	SPIB	19	50926143	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	734658	50926143	8202840	950	67953											
LRRC4B	94030	broad.mit.edu	37	chr19	51021443	51021443	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctggcggttccttctcCgtcccccgcggctgcagggc	1	8	14	18	4	1	0	0	0	1	0	4	0	3	0	5	5	1	3	5	5	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:51021443C>T	uc002pss.2	-	3	1664	c.1527G>A	c.(1525-1527)ACG>ACA	p.T509T		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	509	Gly-rich.|Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		GTTCCTTCTCCGTCCCCCGCG	0.642													5	22					0	0	1	0	0		T	51021443	T	T	51021443	2	4	122	1	0	0	0	0	0	0	0	1	9025	639	23	1		1	LRRC4B	19	51021443	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	95300	51021443	8107540	951	67954											
SYT3	84258	broad.mit.edu	37	chr19	51129177	51129177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagccagtgaggtccatcGctttgaggttagaggctttg	9	11	14	7	1	0	4	0	2	0	2	2	4	1	4	2	3	1	3	2	3	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:51129177G>A	uc002pst.2	-	5	2013	c.1379C>T	c.(1378-1380)GCG>GTG	p.A460V	SYT3_uc002psv.2_Missense_Mutation_p.A460V|SYT3_uc010ycd.1_Missense_Mutation_p.A460V	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	460	C2 2.|Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		GAGGTCCATCGCTTTGAGGTT	0.373													5	29					0	0	1	0	0		A	51129177	A	A	51129177	3	1	122	1	0	0	0	0	1	0	0	0	15500	1087	38	1	409	1	SYT3	19	51129177	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	107734	51129177	7999806	952	67955											
ZNF175	7728	broad.mit.edu	37	chr19	52091581	52091581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcatcagcgaattcacaCgggagaaagaccttatgtgt	12	9	12	8	2	2	2	2	0	0	2	2	4	2	2	1	2	2	1	1	2	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:52091581C>T	uc002pxb.2	+	5	2375	c.1997C>T	c.(1996-1998)ACG>ATG	p.T666M	uc002pxc.1_5'Flank	NM_007147	NP_009078	Q9Y473	ZN175_HUMAN	zinc finger protein 175	666					response to virus	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000426)|OV - Ovarian serous cystadenocarcinoma(262;0.0257)		CGAATTCACACGGGAGAAAGA	0.423													4	54					0	0	1	0	0		T	52091581	T	T	52091581	3	4	122	1	0	0	0	0	1	0	0	0	17770	536	19	1	2011	1	ZNF175	19	52091581	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	962404	52091581	7037402	953	67956											
FPR3	2359	broad.mit.edu	37	chr19	52327888	52327888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggccttttttaacagctGcctcaacccaattctctacg	8	14	5	14	1	2	0	1	0	1	0	3	0	2	0	3	1	5	1	3	1	4	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:52327888G>A	uc002pxt.1	+	2	1071	c.887G>A	c.(886-888)TGC>TAC	p.C296Y		NM_002030	NP_002021	P25089	FPR3_HUMAN	formyl peptide receptor-like 2	296	Helical; Name=7; (Potential).				cellular component movement|chemotaxis	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(4)|breast(1)|skin(1)	6						TTTAACAGCTGCCTCAACCCA	0.448													22	184					0	0	1	0	0		A	52327888	A	A	52327888	3	1	122	1	0	0	0	0	1	0	0	0	6054	1319	46	2	889	2	FPR3	19	52327888	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	236307	52327888	6801095	954	67957											
VSTM1	284415	broad.mit.edu	37	chr19	54545207	54545207	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagtttggaatggctggtTctgaaagagagagacacacg	13	8	15	5	1	1	3	0	1	1	2	1	7	1	5	0	4	0	3	0	4	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:54545207T>C	uc002qcw.3	-	7	692	c.516A>G	c.(514-516)AGA>AGG	p.R172R	VSTM1_uc010erb.2_RNA|VSTM1_uc002qcx.3_Silent_p.R141R	NM_198481	NP_940883	Q6UX27	VSTM1_HUMAN	V-set and transmembrane domain containing 1	172						integral to membrane					0	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.165)		AATGGCTGGTTCTGAAAGAGA	0.368													14	64					0	0	1	0	0		C	54545207	C	C	54545207	2	2	122	1	0	0	0	0	0	0	0	1	17254	1797	62	3		3	VSTM1	19	54545207	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	2217319	54545207	4583776	955	67958											
VSTM1	284415	broad.mit.edu	37	chr19	54561722	54561722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcctgcttgtacccagagtCgttcaccttgcgcagcacaa	8	11	8	14	2	1	1	1	0	0	1	3	1	2	1	3	0	4	5	3	0	2	5	rs144159930		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:54561722C>T	uc002qcw.3	-	3	369	c.193G>A	c.(193-195)GAC>AAC	p.D65N	VSTM1_uc010erb.2_RNA|VSTM1_uc002qcx.3_Missense_Mutation_p.D65N	NM_198481	NP_940883	Q6UX27	VSTM1_HUMAN	V-set and transmembrane domain containing 1	65	Ig-like V-type.					integral to membrane					0	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.165)		TACCCAGAGTCGTTCACCTTG	0.547													24	168					0	0	1	0	0		T	54561722	T	T	54561722	3	4	122	1	0	0	0	0	1	0	0	0	17254	884	31	1	545	1	VSTM1	19	54561722	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	16515	54561722	4567261	956	67959											
BRSK1	84446	broad.mit.edu	37	chr19	55816953	55816953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcgtccatgcctttctgtCggtgaggggcctgggtcccc	3	11	13	14	2	1	1	0	1	1	0	5	1	3	1	5	4	1	0	5	4	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:55816953C>T	uc002qkg.2	+	16	2166	c.1889C>T	c.(1888-1890)TCG>TTG	p.S630L	BRSK1_uc002qkf.2_Missense_Mutation_p.S646L|BRSK1_uc002qkh.2_Missense_Mutation_p.S325L	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	630					establishment of cell polarity|G2/M transition DNA damage checkpoint|neuron differentiation|response to UV	cell junction|cytoplasm|nucleus	magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|lung(1)|breast(1)|skin(1)	6		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0474)		GCCTTTCTGTCGGTGAGGGGC	0.557													29	251					0	0	1	0	0		T	55816953	T	T	55816953	3	4	122	1	0	0	0	0	1	0	0	0	1526	898	31	1	1951	1	BRSK1	19	55816953	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1255231	55816953	3312030	957	67960											
FIZ1	84922	broad.mit.edu	37	chr19	56109101	56109101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcttgagcgctgtgtgcCgggcaaagtggcgccgcagg	5	6	20	10	4	0	1	0	1	0	0	0	1	0	1	2	5	2	4	2	5	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:56109101C>T	uc002qli.3	-	2	221	c.131G>A	c.(130-132)CGG>CAG	p.R44Q	FIZ1_uc002qlj.3_Missense_Mutation_p.R44Q|ZNF524_uc002qlk.1_5'Flank	NM_032836	NP_116225	Q96SL8	FIZ1_HUMAN	FLT3-interacting zinc finger 1	44	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein kinase binding|receptor binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		CGCTGTGTGCCGGGCAAAGTG	0.677													12	76					0	0	1	0	0		T	56109101	T	T	56109101	3	4	122	1	0	0	0	0	1	0	0	0	5914	652	23	1	1367	1	FIZ1	19	56109101	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	292148	56109101	3019882	958	67961											
ZNF835	90485	broad.mit.edu	37	chr19	57176405	57176405	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggattcggctgaattcatcGcgttcctgcatgctgtcccc	5	12	11	13	3	1	1	1	1	0	0	5	2	3	2	3	2	2	4	3	2	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:57176405G>A	uc010ygo.1	-	2	228	c.228C>T	c.(226-228)CGC>CGT	p.R76R	ZNF835_uc010ygn.1_Silent_p.R54R	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						TGAATTCATCGCGTTCCTGCA	0.627													12	62					0	0	1	0	0		A	57176405	A	A	57176405	2	1	122	1	0	0	0	0	0	0	0	1	18211	1074	38	1		1	ZNF835	19	57176405	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1067304	57176405	1952578	959	67962											
ZSCAN1	284312	broad.mit.edu	37	chr19	58565232	58565232	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccacctgctggagccacCgaggaagaaagccccccgga	11	3	12	15	2	0	1	0	0	0	1	1	6	1	4	7	3	3	1	7	3	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:58565232C>A	uc002qrc.1	+	6	1287	c.1040C>A	c.(1039-1041)CCG>CAG	p.P347Q		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	347					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		CTGGAGCCACCGAGGAAGAAA	0.667													6	62					2.0095e-06	2.18836e-06	1	1	0		A	58565232	A	A	58565232	3	1	122	1	0	0	0	0	1	0	0	0	18251	652	23	5	1054	5	ZSCAN1	19	58565232	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1388827	58565232	563751	960	67963											
ZNF135	7694	broad.mit.edu	37	chr19	58574899	58574899	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtctagacttccccaaggCgtgtacccaggtgagatggg	9	8	14	10	1	1	2	0	1	1	2	2	4	2	2	3	3	1	1	3	3	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:58574899C>T	uc010yhq.1	+	4	342	c.246C>T	c.(244-246)GGC>GGT	p.G82G	ZNF135_uc002qre.2_Silent_p.G82G|ZNF135_uc002qrd.1_Silent_p.G40G|ZNF135_uc002qrf.2_Silent_p.G40G|ZNF135_uc002qrg.2_Silent_p.G40G|ZNF135_uc010yhr.1_5'UTR	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	82					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		TTCCCCAAGGCGTGTACCCAG	0.567													6	73					0	0	1	0	0		T	58574899	T	T	58574899	2	4	122	1	0	0	0	0	0	0	0	1	17750	755	27	1		1	ZNF135	19	58574899	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	9667	58574899	554084	961	67964											
ZSCAN22	342945	broad.mit.edu	37	chr19	58846408	58846408	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtcagtggctgcagccCgaggcgcactccaaggagca	8	6	14	13	2	1	0	1	0	0	0	2	2	2	1	2	3	4	5	2	3	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:58846408C>T	uc002qsc.2	+	2	387	c.240C>T	c.(238-240)CCC>CCT	p.P80P	ZSCAN22_uc010yhz.1_Silent_p.P80P	NM_181846	NP_862829	P10073	ZSC22_HUMAN	zinc finger and SCAN domain containing 22	80	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0289)		GGCTGCAGCCCGAGGCGCACT	0.667													10	57					0	0	1	0	0		T	58846408	T	T	58846408	2	4	122	1	0	0	0	0	0	0	0	1	18259	639	23	1		1	ZSCAN22	19	58846408	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	271509	58846408	282575	962	67965											
ZSCAN22	342945	broad.mit.edu	37	chr19	58846467	58846467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggagcagttcctgggtgCgctgcccccagagatccaag	7	7	14	13	1	0	1	0	0	0	1	2	3	2	2	4	2	3	4	4	2	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:58846467C>T	uc002qsc.2	+	2	446	c.299C>T	c.(298-300)GCG>GTG	p.A100V	ZSCAN22_uc010yhz.1_Missense_Mutation_p.A100V	NM_181846	NP_862829	P10073	ZSC22_HUMAN	zinc finger and SCAN domain containing 22	100	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0289)		TTCCTGGGTGCGCTGCCCCCA	0.652													11	42					0	0	1	0	0		T	58846467	T	T	58846467	3	4	122	1	0	0	0	0	1	0	0	0	18259	768	27	1	301	1	ZSCAN22	19	58846467	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	59	58846467	282516	963	67966											
ZNF132	7691	broad.mit.edu	37	chr19	58945306	58945306	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactttctggtgctggatgAgggtggagctattactgaag	8	13	15	5	0	1	2	0	2	1	0	1	4	1	4	0	4	4	3	0	4	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr19:58945306A>G	uc002qst.3	-	3	1906	c.1505T>C	c.(1504-1506)CTC>CCC	p.L502P		NM_003433	NP_003424	P52740	ZN132_HUMAN	zinc finger protein 132	502	C2H2-type 11.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0171)|Lung(386;0.182)		GTGCTGGATGAGGGTGGAGCT	0.498													11	50					0	0	1	0	0		G	58945306	G	G	58945306	3	3	122	1	0	0	0	0	1	0	0	0	17747	304	11	3	619	3	ZNF132	19	58945306	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	98839	58945306	183677	964	67967											
SIRPG	55423	broad.mit.edu	37	chr20	1615967	1615967	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactgtgacctctagggcaaGgcgtttgctgaccgccagct	7	9	13	12	2	1	2	0	2	1	0	1	3	1	2	3	2	2	4	3	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:1615967G>T	uc002wfm.1	-	4	1092	c.1027C>A	c.(1027-1029)CTT>ATT	p.L343I	SIRPG_uc002wfn.1_Intron|SIRPG_uc002wfo.1_Intron|uc002wfp.1_Intron	NM_018556	NP_061026	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma isoform 1	343	Extracellular (Potential).				blood coagulation|cell adhesion|cell junction assembly|cell-cell signaling|intracellular signal transduction|leukocyte migration|negative regulation of cell proliferation|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to membrane|intracellular|plasma membrane	protein binding			ovary(1)	1						TCTAGGGCAAGGCGTTTGCTG	0.493													13	101					2.27111e-07	2.51437e-07	1	1	0		T	1615967	T	T	1615967	3	4	122	1	0	0	0	0	1	0	0	0	14361	1000	35	5	144	5	SIRPG	20	1615967	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08		1615967	61409553	965	67968											
ADAM33	80332	broad.mit.edu	37	chr20	3652954	3652954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcacccatggcctggcggCacagcgctccagccggcttc	6	6	12	17	3	1	0	1	0	0	0	3	0	2	0	4	4	2	3	4	4	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:3652954C>T	uc002wit.2	-	14	1511	c.1424G>A	c.(1423-1425)TGC>TAC	p.C475Y	ADAM33_uc002wiq.1_5'Flank|ADAM33_uc002wir.1_Missense_Mutation_p.C475Y|ADAM33_uc002wis.2_5'UTR|ADAM33_uc002wiu.2_Missense_Mutation_p.C475Y|uc002wiv.1_5'Flank|ADAM33_uc002wiw.1_Intron|ADAM33_uc010gba.1_Intron|ADAM33_uc010gbb.1_Intron	NM_025220	NP_079496	Q9BZ11	ADA33_HUMAN	ADAM metallopeptidase domain 33 isoform alpha	475	Extracellular (Potential).|Disintegrin.				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|ovary(1)|skin(1)	4						GGCCTGGCGGCACAGCGCTCC	0.667													13	91					0	0	1	0	0		T	3652954	T	T	3652954	3	4	122	1	0	0	0	0	1	0	0	0	250	710	25	2	1053	2	ADAM33	20	3652954	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2036987	3652954	59372566	966	67969											
SNAP25	6616	broad.mit.edu	37	chr20	10280034	10280034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgagatcgatacacagaatCgccagatcgacaggatcatg	15	7	10	9	3	1	3	1	1	0	3	4	7	1	4	1	1	1	0	1	1	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:10280034C>T	uc002wnq.1	+	7	738	c.526C>T	c.(526-528)CGC>TGC	p.R176C	SNAP25_uc002wnr.1_Missense_Mutation_p.R176C|SNAP25_uc002wns.1_Missense_Mutation_p.R113C|SNAP25_uc010gca.1_Missense_Mutation_p.R176C|SNAP25_uc010gcb.1_Missense_Mutation_p.R113C|SNAP25_uc010gcc.1_Missense_Mutation_p.R70C	NM_130811	NP_570824	P60880	SNP25_HUMAN	synaptosomal-associated protein 25 isoform	176	t-SNARE coiled-coil homology 2.				energy reserve metabolic process|glutamate secretion|neurotransmitter uptake|synaptic vesicle docking involved in exocytosis	cell junction|growth cone|perinuclear region of cytoplasm|synapse|synaptosome				skin(2)	2					Botulinum Toxin Type A(DB00083)	TACACAGAATCGCCAGATCGA	0.507													9	61					0	0	1	0	0		T	10280034	T	T	10280034	3	4	122	1	0	0	0	0	1	0	0	0	14855	884	31	1	670	1	SNAP25	20	10280034	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	6627080	10280034	52745486	967	67970											
XRN2	22803	broad.mit.edu	37	chr20	21328891	21328891	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgagaagggtacgaaaccGgtaagcttaattacttaaag	15	11	10	5	2	0	1	0	1	0	1	0	3	0	1	1	2	4	3	1	2	8	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:21328891G>A	uc002wsf.1	+	18	1868	c.1773G>A	c.(1771-1773)CCG>CCA	p.P591P	XRN2_uc002wsg.1_Silent_p.P515P|XRN2_uc010zsk.1_Silent_p.P537P	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	591					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						GTACGAAACCGGTAAGCTTAA	0.338													11	62					0	0	1	0	0		A	21328891	A	A	21328891	2	1	122	1	0	0	0	0	0	0	0	1	17486	1130	39	1		1	XRN2	20	21328891	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	11048857	21328891	41696629	968	67971											
NKX2-2	4821	broad.mit.edu	37	chr20	21494212	21494212	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccctcgttctcttcctcCggaccttcggccacagagcc	4	9	9	19	3	1	1	0	0	1	1	6	2	3	2	7	3	1	1	7	3	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:21494212C>T	uc002wsi.2	-	1	453	c.96G>A	c.(94-96)CCG>CCA	p.P32P		NM_002509	NP_002500	O95096	NKX22_HUMAN	NK2 transcription factor related, locus 2	32					brain development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	chromatin binding|core promoter proximal region DNA binding|transcription coactivator activity			pancreas(1)|skin(1)	2						TCTCTTCCTCCGGACCTTCGG	0.647													9	58					0	0	1	0	0		T	21494212	T	T	21494212	2	4	122	1	0	0	0	0	0	0	0	1	10469	639	23	1		1	NKX2-2	20	21494212	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	165321	21494212	41531308	969	67972											
ZNF341	84905	broad.mit.edu	37	chr20	32349702	32349702	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccttccagtgcattgcaTgtggccgtgcctttgcccag	5	11	11	14	1	0	0	0	0	0	0	1	0	1	0	5	1	5	2	5	1	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:32349702T>C	uc002wzy.2	+	8	1083	c.1063T>C	c.(1063-1065)TGT>CGT	p.C355R	ZNF341_uc002wzx.2_Missense_Mutation_p.C348R|ZNF341_uc010geq.2_Missense_Mutation_p.C265R|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	355	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GTGCATTGCATGTGGCCGTGC	0.582													25	165					0	0	1	0	0		C	32349702	C	C	32349702	3	2	122	1	0	0	0	0	1	0	0	0	17882	1464	51	3	1072	3	ZNF341	20	32349702	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	10855490	32349702	30675818	970	67973											
NCOA6	23054	broad.mit.edu	37	chr20	33345657	33345657	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtcgaattccctgtggCtgttgctgctgatgttgctg	3	15	15	8	1	0	1	0	1	0	0	2	2	1	1	1	3	3	6	1	3	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:33345657C>T	uc002xav.2	-	8	3465	c.894G>A	c.(892-894)CAG>CAA	p.Q298Q	NCOA6_uc002xaw.2_Silent_p.Q298Q|NCOA6_uc010gew.1_Silent_p.Q255Q	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	298	TBP/GTF2A-binding region.|NCOA1-binding region.|Gln-rich.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						TTCCCTGTGGCTGTTGCTGCT	0.413													18	60					0	0	1	0	0		T	33345657	T	T	33345657	2	4	122	1	0	0	0	0	0	0	0	1	10252	796	28	2		2	NCOA6	20	33345657	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	995955	33345657	29679863	971	67974											
GGT7	2686	broad.mit.edu	37	chr20	33450619	33450619	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccactgctccttacccGcccaggccagaactgtgtgg	7	8	9	17	1	0	1	0	0	0	1	2	1	2	1	6	2	3	1	6	2	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:33450619G>A	uc002xay.2	-	3	598	c.555C>T	c.(553-555)GGC>GGT	p.G185G	GGT7_uc002xaz.1_Silent_p.G202G|GGT7_uc002xba.1_Silent_p.G185G	NM_178026	NP_821158	Q9UJ14	GGT7_HUMAN	gamma-glutamyltransferase 7	185	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(1)	1						CTCCTTACCCGCCCAGGCCAG	0.597													19	81					0	0	1	0	0		A	33450619	A	A	33450619	2	1	122	1	0	0	0	0	0	0	0	1	6379	1074	38	1		1	GGT7	20	33450619	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	104962	33450619	29574901	972	67975											
ACSS2	55902	broad.mit.edu	37	chr20	33509227	33509227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgggtggtaggtgcccagCgctgccccatcgtggacacc	6	6	14	15	3	0	0	0	0	0	0	1	1	0	1	5	4	3	2	5	4	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:33509227C>T	uc002xbd.2	+	11	1493	c.1372C>T	c.(1372-1374)CGC>TGC	p.R458C	ACSS2_uc002xbc.2_Missense_Mutation_p.R363C|ACSS2_uc010zum.1_Intron|ACSS2_uc010gey.2_Missense_Mutation_p.R471C|ACSS2_uc002xbe.2_Missense_Mutation_p.R166C|ACSS2_uc002xbf.2_Intron	NM_018677	NP_061147	Q9NR19	ACSA_HUMAN	acyl-CoA synthetase short-chain family member 2	458					ethanol oxidation|lipid biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	acetate-CoA ligase activity|ATP binding|protein binding				0					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	AGGTGCCCAGCGCTGCCCCAT	0.587													13	63					0	0	1	0	0		T	33509227	T	T	33509227	3	4	122	1	0	0	0	0	1	0	0	0	189	768	27	1	1457	1	ACSS2	20	33509227	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	58608	33509227	29516293	973	67976											
GDF5	8200	broad.mit.edu	37	chr20	34025642	34025642	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggcacccaacacagtgcAgatgaattccaggtccagcc	12	5	11	13	0	0	2	0	1	0	1	2	2	2	2	4	3	3	2	4	3	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:34025642A>G	uc002xck.1	-	1	386	c.67T>C	c.(67-69)TGC>CGC	p.C23R	GDF5_uc010gfc.1_Missense_Mutation_p.C23R|GDF5_uc010zvc.1_Missense_Mutation_p.C23R	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	23					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			AACACAGTGCAGATGAATTCC	0.597													7	45					0	0	1	0	0		G	34025642	G	G	34025642	3	3	122	1	0	0	0	0	1	0	0	0	6331	188	7	3	1446	3	GDF5	20	34025642	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	516415	34025642	28999878	974	67977											
EPB41L1	2036	broad.mit.edu	37	chr20	34785881	34785881	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaactcatccaccgggAtcgagactgggaacgggagc	12	4	13	12	3	1	1	1	0	0	1	3	5	2	4	2	3	4	1	2	3	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:34785881A>T	uc002xfb.2	+	14	1757	c.1586A>T	c.(1585-1587)GAT>GTT	p.D529V	EPB41L1_uc002xeu.2_Missense_Mutation_p.D455V|EPB41L1_uc010zvo.1_Missense_Mutation_p.D529V|EPB41L1_uc002xev.2_Missense_Mutation_p.D529V|EPB41L1_uc002xew.2_Missense_Mutation_p.D420V|EPB41L1_uc002xex.2_Missense_Mutation_p.D486V|EPB41L1_uc002xey.2_Missense_Mutation_p.D444V|EPB41L1_uc002xez.2_Missense_Mutation_p.D455V|EPB41L1_uc010gfq.2_5'UTR	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	529	Spectrin--actin-binding.				cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					ATCCACCGGGATCGAGACTGG	0.597													13	101					0	0	1	0	0		T	34785881	T	T	34785881	3	4	122	1	0	0	0	0	1	0	0	0	5160	333	12	5	1636	5	EPB41L1	20	34785881	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	760239	34785881	28239639	975	67978											
DLGAP4	22839	broad.mit.edu	37	chr20	35064573	35064573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacgcgagacggatgccgCggccgagggccctatcccgt	6	4	14	17	7	0	1	0	0	0	1	1	4	1	2	5	3	1	0	5	3	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:35064573C>T	uc002xff.2	+	4	1496	c.1061C>T	c.(1060-1062)GCG>GTG	p.A354V	DLGAP4_uc010zvp.1_Missense_Mutation_p.A354V	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	354					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				ACGGATGCCGCGGCCGAGGGC	0.736													3	22					0	0	1	0	0		T	35064573	T	T	35064573	3	4	122	1	0	0	0	0	1	0	0	0	4568	768	27	1	1067	1	DLGAP4	20	35064573	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	278692	35064573	27960947	976	67979											
RBL1	5933	broad.mit.edu	37	chr20	35632262	35632262	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaaggagagagtggtggaGcatccatctaaaataaccca	17	6	11	7	0	1	1	0	0	1	1	2	5	2	3	2	3	2	1	2	3	5	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:35632262G>T	uc002xgi.2	-	21	2958	c.2879C>A	c.(2878-2880)GCT>GAT	p.A960D	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.A960D	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	960					cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				GAGTGGTGGAGCATCCATCTA	0.378													9	49					3.09899e-07	3.41829e-07	1	1	0		T	35632262	T	T	35632262	3	4	122	1	0	0	0	0	1	0	0	0	13134	971	34	5	344	5	RBL1	20	35632262	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	567689	35632262	27393258	977	67980											
MAFB	9935	broad.mit.edu	37	chr20	39317104	39317104	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggtggtggtggtgagcGccgcgaaagctgtcgaagct	7	9	18	7	4	0	2	0	2	0	0	1	4	0	2	1	4	3	2	1	4	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:39317104G>A	uc002xji.2	-	1	773	c.387C>T	c.(385-387)GGC>GGT	p.G129G		NM_005461	NP_005452	Q9Y5Q3	MAFB_HUMAN	transcription factor MAFB	129					negative regulation of erythrocyte differentiation		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		Myeloproliferative disorder(115;0.00878)				ggtggtgAGCGCCGCGAAAGC	0.587			T	IGH@	MM								6	20					0	0	1	0	0		A	39317104	A	A	39317104	2	1	122	1	0	0	0	0	0	0	0	1	9176	1074	38	1		1	MAFB	20	39317104	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3684842	39317104	23708416	978	67981											
L3MBTL	26013	broad.mit.edu	37	chr20	42161464	42161464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagctggaggctgttgacCgcatgaacccgtcccttgtc	7	10	12	12	2	0	3	0	3	0	0	2	4	1	4	3	2	2	4	3	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:42161464C>T	uc010zwh.1	+	12	1316	c.1270C>T	c.(1270-1272)CGC>TGC	p.R424C	L3MBTL_uc002xkl.2_Missense_Mutation_p.R356C|L3MBTL_uc002xkm.2_Missense_Mutation_p.R356C|L3MBTL_uc010ggl.2_Missense_Mutation_p.R356C|L3MBTL_uc002xkn.1_Missense_Mutation_p.R115C|L3MBTL_uc002xko.2_Missense_Mutation_p.R8C	NM_015478	NP_056293	Q9Y468	LMBL1_HUMAN	l(3)mbt-like isoform I	356	MBT 2.				chromatin modification|hemopoiesis|negative regulation of transcription, DNA-dependent|regulation of megakaryocyte differentiation|regulation of mitosis	chromatin|condensed chromosome|nucleoplasm	identical protein binding|methylated histone residue binding|nucleosomal histone binding|SAM domain binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			GGCTGTTGACCGCATGAACCC	0.587													49	203					0	0	1	0	0		T	42161464	T	T	42161464	3	4	122	1	0	0	0	0	1	0	0	0	8607	652	23	1	1100	1	L3MBTL	20	42161464	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2844360	42161464	20864056	979	67982											
MYBL2	4605	broad.mit.edu	37	chr20	42328520	42328520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatcggtacagatctggacGcagtgcgaacaccagagccc	11	5	11	14	3	1	2	0	0	1	2	2	4	1	3	3	2	4	2	3	2	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:42328520G>A	uc002xlb.1	+	7	1002	c.787G>A	c.(787-789)GCA>ACA	p.A263T	MYBL2_uc010zwj.1_Missense_Mutation_p.A239T|MYBL2_uc002xla.1_Missense_Mutation_p.A263T	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	263						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AGATCTGGACGCAGTGCGAAC	0.582													5	32					0	0	1	0	0		A	42328520	A	A	42328520	3	1	122	1	0	0	0	0	1	0	0	0	10028	1087	38	1	813	1	MYBL2	20	42328520	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	167056	42328520	20697000	980	67983											
KCNK15	60598	broad.mit.edu	37	chr20	43378878	43378878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttccagagcctgggcgaacGgctgaacgcggtggtgcggc	6	7	17	11	5	0	2	0	1	0	1	1	3	1	2	2	5	4	1	2	5	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:43378878G>A	uc002xmr.2	+	2	456	c.392G>A	c.(391-393)CGG>CAG	p.R131Q		NM_022358	NP_071753	Q9H427	KCNKF_HUMAN	potassium family, subfamily K, member 15	131	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity				0		Myeloproliferative disorder(115;0.0122)				CTGGGCGAACGGCTGAACGCG	0.692													6	24					0	0	1	0	0		A	43378878	A	A	43378878	3	1	122	1	0	0	0	0	1	0	0	0	8078	1116	39	1	398	1	KCNK15	20	43378878	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1050358	43378878	19646642	981	67984											
MATN4	8785	broad.mit.edu	37	chr20	43927136	43927136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccacaatctggttcacgAagcgcttcactagctcgaag	11	9	9	12	3	3	0	2	0	1	0	5	2	4	0	1	1	2	3	1	1	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:43927136A>G	uc002xnn.2	-	7	1287	c.1100T>C	c.(1099-1101)TTC>TCC	p.F367S	MATN4_uc002xno.2_Missense_Mutation_p.F326S|MATN4_uc002xnp.2_Missense_Mutation_p.F285S|MATN4_uc010zwr.1_Missense_Mutation_p.F315S|MATN4_uc002xnr.1_Missense_Mutation_p.F367S	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	408	VWFA 2.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				CTGGTTCACGAAGCGCTTCAC	0.617													28	82					0	0	1	0	0		G	43927136	G	G	43927136	3	3	122	1	0	0	0	0	1	0	0	0	9354	246	9	3	661	3	MATN4	20	43927136	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	548258	43927136	19098384	982	67985											
CDH22	64405	broad.mit.edu	37	chr20	44845508	44845508	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcattgacgtcggtgactacGatggtgacggtagtggagcc	8	10	15	8	4	1	3	1	3	0	0	2	5	1	4	1	4	2	1	1	4	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:44845508G>A	uc002xrm.2	-	4	1196	c.795C>T	c.(793-795)ATC>ATT	p.I265I	CDH22_uc010ghk.1_Silent_p.I265I|CDH22_uc002xrn.1_Silent_p.I16I	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	265	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				CGGTGACTACGATGGTGACGG	0.627													36	103					0	0	1	0	0		A	44845508	A	A	44845508	2	1	122	1	0	0	0	0	0	0	0	1	3110	1048	37	1		1	CDH22	20	44845508	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	918372	44845508	18180012	983	67986											
DDX27	55661	broad.mit.edu	37	chr20	47850160	47850160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtccggatatttgtgaacaGcaacacagatgtggctccct	10	11	10	10	1	0	2	0	1	0	1	2	3	2	3	2	2	3	2	2	2	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:47850160G>A	uc002xuh.2	+	11	1341	c.1280G>A	c.(1279-1281)AGC>AAC	p.S427N		NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	427						nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TTTGTGAACAGCAACACAGAT	0.557													21	190					0	0	1	0	0		A	47850160	A	A	47850160	3	1	122	1	0	0	0	0	1	0	0	0	4357	971	34	2	1322	2	DDX27	20	47850160	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3004652	47850160	15175360	984	67987											
ADNP	23394	broad.mit.edu	37	chr20	49508535	49508535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacatgttcctctgggttatCgttagagattttaggttcaa	9	17	9	6	1	2	1	1	0	1	1	4	2	3	1	1	2	1	4	1	2	5	7			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:49508535C>T	uc002xvt.1	-	5	3061	c.2716G>A	c.(2716-2718)GAT>AAT	p.D906N	ADNP_uc002xvu.1_Missense_Mutation_p.D906N	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	906						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						TCTGGGTTATCGTTAGAGATT	0.388													29	169					0	0	1	0	0		T	49508535	T	T	49508535	3	4	122	1	0	0	0	0	1	0	0	0	323	884	31	1	596	1	ADNP	20	49508535	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1658375	49508535	13516985	985	67988											
SALL4	57167	broad.mit.edu	37	chr20	50418891	50418891	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctgcggctgctgctcGccctggtcctcctccgagtt	1	12	12	16	3	0	0	0	0	0	0	4	1	3	0	4	2	5	6	4	2	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:50418891G>A	uc002xwh.3	-	1	158	c.57C>T	c.(55-57)GGC>GGT	p.G19G	SALL4_uc010gii.2_Silent_p.G19G|SALL4_uc002xwi.3_Silent_p.G19G	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	19					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GCTGCTGCTCGCCCTGGTCCT	0.587													7	51					0	0	1	0	0		A	50418891	A	A	50418891	2	1	122	1	0	0	0	0	0	0	0	1	13838	1074	38	1		1	SALL4	20	50418891	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	910356	50418891	12606629	986	67989											
CTCFL	140690	broad.mit.edu	37	chr20	56099127	56099127	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacgctcggcctccaactcActagggctccgatggtcttt	6	11	10	14	3	2	0	1	0	1	0	5	1	4	0	3	3	2	3	3	3	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:56099127A>C	uc010gix.1	-	1	797	c.135T>G	c.(133-135)AGT>AGG	p.S45R	CTCFL_uc010giw.1_Missense_Mutation_p.S45R|CTCFL_uc002xym.2_Missense_Mutation_p.S45R|CTCFL_uc010giz.1_Intron|CTCFL_uc010giy.1_Intron|CTCFL_uc010gja.1_Missense_Mutation_p.S45R|CTCFL_uc010gjb.1_Missense_Mutation_p.S45R|CTCFL_uc010gjc.1_Missense_Mutation_p.S45R|CTCFL_uc010gjd.1_Missense_Mutation_p.S45R|CTCFL_uc010gje.2_Missense_Mutation_p.S45R|CTCFL_uc010gjf.2_Intron|CTCFL_uc010gjg.2_Intron|CTCFL_uc010gjh.1_Missense_Mutation_p.S45R|CTCFL_uc010gji.1_Intron|CTCFL_uc010gjj.1_Missense_Mutation_p.S45R|CTCFL_uc010gjk.1_Missense_Mutation_p.S45R|CTCFL_uc010gjl.1_Missense_Mutation_p.S45R	NM_080618	NP_542185	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor-like protein	45					cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			CCTCCAACTCACTAGGGCTCC	0.562													82	255					0	0	1	0	0		C	56099127	C	C	56099127	3	2	122	1	0	0	0	0	1	0	0	0	4004	156	6	5	1896	5	CTCFL	20	56099127	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	5680236	56099127	6926393	987	67990											
ZNF831	128611	broad.mit.edu	37	chr20	57768587	57768587	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctggaagcaaccagagcCtgtgagcgcagagaccccag	12	3	13	13	1	0	3	0	1	0	2	0	5	0	4	4	1	5	3	4	1	2	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:57768587C>A	uc002yan.2	+	1	2513	c.2513C>A	c.(2512-2514)CCT>CAT	p.P838H		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	838						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CAACCAGAGCCTGTGAGCGCA	0.637													7	64					1.12685e-05	1.21283e-05	1	1	0		A	57768587	A	A	57768587	3	1	122	1	0	0	0	0	1	0	0	0	18210	681	24	5	2515	5	ZNF831	20	57768587	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1669460	57768587	5256933	988	67991											
LAMA5	3911	broad.mit.edu	37	chr20	60886128	60886128	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctcgggagcttcgcgggaGgacgtgcatggagagactgg	7	6	19	9	4	0	1	0	0	0	1	2	6	0	5	1	5	2	2	1	5	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:60886128G>T	uc002ycq.2	-	74	10178	c.10111C>A	c.(10111-10113)CTC>ATC	p.L3371I		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3371	Laminin G-like 4.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTTCGCGGGAGGACGTGCATG	0.682													5	43					0.184627	0.185245	1	1	0		T	60886128	T	T	60886128	3	4	122	1	0	0	0	0	1	0	0	0	8625	1000	35	5	1004	5	LAMA5	20	60886128	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	3117541	60886128	2139392	989	67992											
CHRNA4	1137	broad.mit.edu	37	chr20	61981147	61981147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgtggcgctcggggacaccGaagagggctccttcttgcat	6	8	14	13	4	1	1	0	0	1	1	3	3	2	2	3	4	1	3	3	4	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:61981147G>A	uc002yes.2	-	5	1794	c.1616C>T	c.(1615-1617)TCG>TTG	p.S539L	CHRNA4_uc002yet.1_Missense_Mutation_p.S363L|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.S468L|CHRNA4_uc002yev.1_Missense_Mutation_p.S363L|CHRNA4_uc010gkf.1_Missense_Mutation_p.S363L	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	539	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	CGGGGACACCGAAGAGGGCTC	0.716													6	40					0	0	1	0	0		A	61981147	A	A	61981147	3	1	122	1	0	0	0	0	1	0	0	0	3388	1059	37	1	275	1	CHRNA4	20	61981147	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1095019	61981147	1044373	990	67993											
SOX18	54345	broad.mit.edu	37	chr20	62679699	62679699	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggtactggtcgaactcGgtgaggtccacgtcggccca	7	9	14	11	4	0	2	0	2	0	0	4	3	1	2	2	5	2	1	2	5	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr20:62679699G>A	uc002yhs.2	-	2	1085	c.975C>T	c.(973-975)ACC>ACT	p.T325T		NM_018419	NP_060889	P35713	SOX18_HUMAN	SRY-box 18	325	Sox C-terminal.				angiogenesis|blood vessel endothelial cell migration|endocardial cell differentiation|endocardium formation|establishment of endothelial barrier|heart looping|lymphangiogenesis|lymphatic endothelial cell differentiation|negative regulation of transcription, DNA-dependent|outflow tract morphogenesis|positive regulation of transcription from RNA polymerase II promoter|vasculogenesis	nucleus	transcription regulatory region DNA binding				0	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					GGTCGAACTCGGTGAGGTCCA	0.756													3	10					0	0	1	0	0		A	62679699	A	A	62679699	2	1	122	1	0	0	0	0	0	0	0	1	14973	1103	39	1		1	SOX18	20	62679699	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	698552	62679699	345821	991	67994											
SAMSN1	64092	broad.mit.edu	37	chr21	15889305	15889305	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttacccaaaccgcctcCattatttgaagttttacttt	9	19	3	10	1	0	1	0	1	0	0	1	1	1	1	4	0	3	1	4	0	5	8			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:15889305C>A	uc002yju.1	-	3	269	c.187G>T	c.(187-189)GGA>TGA	p.G63*	SAMSN1_uc010gky.1_Intron|SAMSN1_uc002yjv.1_Nonsense_Mutation_p.G131*	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	63					negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		AAACCGCCTCCATTATTTGAA	0.333													6	18					0.0215528	0.0218998	1	1	0		A	15889305	A	A	15889305	4	1	122	1	0	0	0	0	0	1	0	0	13855	603	21	5	958	5	SAMSN1	21	15889305	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08		15889305	32240590	992	67995											
ADAMTS1	9510	broad.mit.edu	37	chr21	28210316	28210316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttttaggtcgaagggcattgCccacagtaagaacctggatg	11	10	12	8	1	0	1	0	0	0	1	1	3	0	2	2	3	2	2	2	3	4	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:28210316C>T	uc002ymf.2	-	9	2941	c.2486G>A	c.(2485-2487)GGC>GAC	p.G829D		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	829	Spacer.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		AAGGGCATTGCCCACAGTAAG	0.463													14	77					0	0	1	0	0		T	28210316	T	T	28210316	3	4	122	1	0	0	0	0	1	0	0	0	255	739	26	2	421	2	ADAMTS1	21	28210316	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	12321011	28210316	19919579	993	67996											
TIAM1	7074	broad.mit.edu	37	chr21	32492843	32492843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgactatccagggttttcCggcctctttcccgctgactg	4	13	10	14	3	1	2	0	2	1	0	4	2	4	2	4	2	0	2	4	2	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:32492843C>T	uc002yow.1	-	29	5091	c.4619G>A	c.(4618-4620)CGG>CAG	p.R1540Q	TIAM1_uc011adk.1_3'UTR|TIAM1_uc011adl.1_Missense_Mutation_p.R1480Q	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1540					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CAGGGTTTTCCGGCCTCTTTC	0.602													11	84					0	0	1	0	0		T	32492843	T	T	32492843	3	4	122	1	0	0	0	0	1	0	0	0	15915	652	23	1	160	1	TIAM1	21	32492843	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	4282527	32492843	15637052	994	67997											
HUNK	30811	broad.mit.edu	37	chr21	33340634	33340634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatattcagcaggcactggCgaatcgctggcttaatgaga	13	9	11	8	2	1	1	1	1	0	1	2	3	1	1	0	3	1	4	0	3	4	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:33340634C>T	uc002yph.2	+	6	1307	c.947C>T	c.(946-948)GCG>GTG	p.A316V		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	316	Protein kinase.				multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						CAGGCACTGGCGAATCGCTGG	0.522													13	91					0	0	1	0	0		T	33340634	T	T	33340634	3	4	122	1	0	0	0	0	1	0	0	0	7474	768	27	1	969	1	HUNK	21	33340634	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	847791	33340634	14789261	995	67998											
ETS2	2114	broad.mit.edu	37	chr21	40186743	40186743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaacaggtatgccagtggCttctctgggccaccaatgag	10	8	12	11	0	1	1	0	1	1	0	2	1	1	1	3	3	3	3	3	3	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:40186743C>T	uc002yxg.2	+	5	539	c.343C>T	c.(343-345)CTT>TTT	p.L115F	ETS2_uc002yxf.2_Missense_Mutation_p.L255F	NM_005239	NP_005230	P15036	ETS2_HUMAN	v-ets erythroblastosis virus E26 oncogene	115	PNT.				positive regulation of transcription, DNA-dependent|skeletal system development	nucleus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|breast(1)|pancreas(1)	4		Prostate(19;6.33e-08)|all_epithelial(19;0.123)				ATGCCAGTGGCTTCTCTGGGC	0.502													9	132					0	0	1	0	0		T	40186743	T	T	40186743	3	4	122	1	0	0	0	0	1	0	0	0	5284	797	28	2	357	2	ETS2	21	40186743	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	6846109	40186743	7943152	996	67999											
DSCAM	1826	broad.mit.edu	37	chr21	41385177	41385177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgggatgggctccaggacCgtggggcgcttcagggtccg	5	7	18	11	4	1	0	1	0	0	0	4	2	3	2	3	6	0	2	3	6	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:41385177C>T	uc002yyq.1	-	33	6275	c.5823G>A	c.(5821-5823)ACG>ACA	p.T1941T	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1941	Cytoplasmic (Potential).			HRPGDLIHLPPYLRMDFLLNRGGPGTSRDLSLGQACLEPQK SRTLKRPTVLEPIPMEAASSASSTREGQSWQPGAVATLPQR EGAELGQAAKMSSSQESLLDSRGHLKGNNPYAKSYTLV -> IGQVTSYICLHTLEWTFC (in Ref. 1; AAC17966).	cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				GCTCCAGGACCGTGGGGCGCT	0.627													10	45					0	0	1	0	0		T	41385177	T	T	41385177	2	4	122	1	0	0	0	0	0	0	0	1	4774	639	23	1		1	DSCAM	21	41385177	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1198434	41385177	6744718	997	68000											
DSCAM	1826	broad.mit.edu	37	chr21	41414420	41414420	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggaggtcagactgtccGtgtactcatttgtccctgcc	5	13	11	12	1	2	1	2	0	0	1	4	2	4	2	3	2	3	2	3	2	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:41414420G>A	uc002yyq.1	-	32	6016	c.5564C>T	c.(5563-5565)ACG>ATG	p.T1855M	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1855	Cytoplasmic (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CAGACTGTCCGTGTACTCATT	0.527													21	147					0	0	1	0	0		A	41414420	A	A	41414420	3	1	122	1	0	0	0	0	1	0	0	0	4774	1145	40	1	482	1	DSCAM	21	41414420	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	29243	41414420	6715475	998	68001											
RIPK4	54101	broad.mit.edu	37	chr21	43161767	43161767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagtccacctcgttgaccGaggcgttcttctccaacagc	9	9	8	15	3	2	1	0	1	2	0	5	2	3	1	4	1	2	2	4	1	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:43161767G>A	uc002yzn.1	-	8	1634	c.1586C>T	c.(1585-1587)TCG>TTG	p.S529L		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	529						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						CTCGTTGACCGAGGCGTTCTT	0.632													22	64					0	0	1	0	0		A	43161767	A	A	43161767	3	1	122	1	0	0	0	0	1	0	0	0	13408	1059	37	1	772	1	RIPK4	21	43161767	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1747347	43161767	4968128	999	68002											
ZNF295	49854	broad.mit.edu	37	chr21	43412172	43412172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgagagagaaagcggtacGcttttccgcagtaagtacaa	14	9	11	7	3	0	2	0	1	0	2	1	4	1	2	1	1	3	5	1	1	5	6			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:43412172G>A	uc002zab.3	-	3	2247	c.2033C>T	c.(2032-2034)GCG>GTG	p.A678V	ZNF295_uc002yzz.3_Intron|ZNF295_uc002yzy.3_Missense_Mutation_p.A678V|ZNF295_uc002zaa.3_Missense_Mutation_p.A678V	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	678	C2H2-type 3.				negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						AAAGCGGTACGCTTTTCCGCA	0.433													14	138					0	0	1	0	0		A	43412172	A	A	43412172	3	1	122	1	0	0	0	0	1	0	0	0	17852	1087	38	1	1171	1	ZNF295	21	43412172	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	250405	43412172	4717723	1000	68003											
TRPM2	7226	broad.mit.edu	37	chr21	45811232	45811232	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaagctcttcctggagaaCggggtgcagctgaaggagtt	9	9	16	7	1	1	3	0	2	1	1	2	5	2	4	1	4	4	4	1	4	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:45811232C>T	uc002zet.1	+	12	1731	c.1518C>T	c.(1516-1518)AAC>AAT	p.N506N	TRPM2_uc002zeu.1_Silent_p.N506N|TRPM2_uc002zew.1_Silent_p.N506N|TRPM2_uc010gpt.1_Silent_p.N506N|TRPM2_uc002zex.1_Silent_p.N292N|TRPM2_uc002zey.1_Silent_p.N19N	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	506	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TCCTGGAGAACGGGGTGCAGC	0.557													16	128					0	0	1	0	0		T	45811232	T	T	45811232	2	4	122	1	0	0	0	0	0	0	0	1	16612	535	19	1		1	TRPM2	21	45811232	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2399060	45811232	2318663	1001	68004											
KRTAP10-9	386676	broad.mit.edu	37	chr21	46047482	46047482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaccagccagcttgctgtGcctcttcctcctgccagccg	4	10	9	18	1	1	0	0	0	1	0	3	0	3	0	7	0	7	3	7	0	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:46047482G>A	uc002zfp.3	+	1	443	c.394G>A	c.(394-396)GCC>ACC	p.A132T	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9	132	25 X 5 AA repeats of C-C-X(3).|11.					keratin filament					0						agcttgctgtgcctcttcctc	0.159													26	219					0	0	1	0	0		A	46047482	A	A	46047482	3	1	122	1	0	0	0	0	1	0	0	0	8532	1319	46	2	396	2	KRTAP10-9	21	46047482	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	236250	46047482	2082413	1002	68005											
COL6A1	1291	broad.mit.edu	37	chr21	47401840	47401840	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcaggatgagccggagaccCcgagggccgtggccttccag	7	4	16	14	4	0	2	0	1	0	1	1	5	1	3	6	4	1	1	6	4	0	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:47401840C>A	uc002zhu.1	+	1	178	c.76C>A	c.(76-78)CCG>ACG	p.P26T		NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	26	N-terminal globular domain.				axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	GCCGGAGACCCCGAGGGCCGT	0.721													3	20					0.115264	0.116233	1	1	0		A	47401840	A	A	47401840	3	1	122	1	0	0	0	0	1	0	0	0	3702	623	22	5	78	5	COL6A1	21	47401840	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1354358	47401840	728055	1003	68006											
COL6A2	1292	broad.mit.edu	37	chr21	47531946	47531946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggacacctcggagagcGtcaccatgcagtcccccacg	8	6	11	16	3	1	1	1	0	0	1	3	3	2	2	4	2	3	2	4	2	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:47531946G>A	uc002zia.1	+	3	251	c.169G>A	c.(169-171)GTC>ATC	p.V57I	COL6A2_uc002zhy.1_Missense_Mutation_p.V57I|COL6A2_uc002zhz.1_Missense_Mutation_p.V57I|COL6A2_uc002zib.1_Intron	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	57	VWFA 1.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		CTCGGAGAGCGTCACCATGCA	0.602													17	83					0	0	1	0	0		A	47531946	A	A	47531946	3	1	122	1	0	0	0	0	1	0	0	0	3703	1145	40	1	175	1	COL6A2	21	47531946	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	130106	47531946	597949	1004	68007											
DIP2A	23181	broad.mit.edu	37	chr21	47987341	47987341	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagctggatgggctagagCaggatgccctggacctggtg	7	8	18	8	0	0	1	0	0	0	1	0	5	0	5	2	6	3	3	2	6	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr21:47987341C>T	uc002zjo.2	+	38	4705	c.4522C>T	c.(4522-4524)CAG>TAG	p.Q1508*	DIP2A_uc011afz.1_Nonsense_Mutation_p.Q1504*|DIP2A_uc002zjs.2_Nonsense_Mutation_p.Q188*|DIP2A_uc002zjt.2_RNA	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1508					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		TGGGCTAGAGCAGGATGCCCT	0.612													12	61					0	0	1	0	0		T	47987341	T	T	47987341	4	4	122	1	0	0	0	0	0	1	0	0	4533	711	25	2	4785	2	DIP2A	21	47987341	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	455395	47987341	142554	1005	68008											
CECR6	27439	broad.mit.edu	37	chr22	17601107	17601107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgcccgctgccgcggccGcccccaggccgccccccgcg	2	2	12	25	8	0	0	0	0	0	0	1	0	0	0	9	2	1	1	9	2	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:17601107G>A	uc002zmb.2	-	1	1107	c.911C>T	c.(910-912)GCG>GTG	p.A304V	CECR6_uc002zma.2_Intron|uc002zmc.2_5'Flank	NM_031890	NP_114096	Q9BXQ6	CECR6_HUMAN	cat eye syndrome chromosome region, candidate 6	304	Ala-rich.										0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.221)		tgccgcggccgcccccaggcc	0.478													4	39					0	0	1	0	0		A	17601107	A	A	17601107	3	1	122	1	0	0	0	0	1	0	0	0	3211	1087	38	1	829	1	CECR6	22	17601107	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08		17601107	33703459	1006	68009											
TSSK2	23617	broad.mit.edu	37	chr22	19119328	19119328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccaccgggacctcaagtGcgagaaccttctcctcgaca	9	7	9	16	4	2	1	1	0	1	1	5	4	3	2	5	1	2	0	5	1	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:19119328G>A	uc002zow.2	+	1	1008	c.416G>A	c.(415-417)TGC>TAC	p.C139Y	DGCR14_uc002zot.2_3'UTR|DGCR14_uc002zou.2_3'UTR|DGCR14_uc002zov.2_RNA	NM_053006	NP_443732	Q96PF2	TSSK2_HUMAN	testis-specific serine kinase 2	139	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1	Colorectal(54;0.0993)					GACCTCAAGTGCGAGAACCTT	0.592													22	107					0	0	1	0	0		A	19119328	A	A	19119328	3	1	122	1	0	0	0	0	1	0	0	0	16695	1319	46	2	418	2	TSSK2	22	19119328	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	1518221	19119328	32185238	1007	68010											
HIRA	7290	broad.mit.edu	37	chr22	19340920	19340920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtagacgaggagccaatggCggtactcgtggctggactgc	8	7	16	10	4	0	1	0	0	0	1	1	4	0	3	1	5	3	3	1	5	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:19340920C>T	uc002zpf.1	-	23	3027	c.2807G>A	c.(2806-2808)CGC>CAC	p.R936H	HIRA_uc011agx.1_Missense_Mutation_p.R802H|HIRA_uc010grn.1_Missense_Mutation_p.R729H|HIRA_uc010gro.1_Missense_Mutation_p.R892H|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	936	Interaction with histone H4.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					GAGCCAATGGCGGTACTCGTG	0.622													5	30					0	0	1	0	0		T	19340920	T	T	19340920	3	4	122	1	0	0	0	0	1	0	0	0	7136	768	27	1	258	1	HIRA	22	19340920	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	221592	19340920	31963646	1008	68011											
CDC45	8318	broad.mit.edu	37	chr22	19492925	19492925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggtgtcctgcagcgccacGtttcccgccacaaccaccgg	6	8	10	17	4	0	0	0	0	0	0	2	0	2	0	6	2	3	2	6	2	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:19492925G>A	uc002zpr.2	+	10	821	c.745G>A	c.(745-747)GTT>ATT	p.V249I	CDC45_uc011agz.1_Missense_Mutation_p.V244I|CDC45_uc011aha.1_Missense_Mutation_p.V281I|CDC45_uc002zps.2_Missense_Mutation_p.V249I|CDC45_uc002zpt.2_Missense_Mutation_p.V203I	NM_003504	NP_003495	O75419	CDC45_HUMAN	CDC45-like	249					DNA replication checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	centrosome|nucleoplasm	protein binding			lung(1)	1						GCAGCGCCACGTTTCCCGCCA	0.542													6	39					0	0	1	0	0		A	19492925	A	A	19492925	3	1	122	1	0	0	0	0	1	0	0	0	3084	1145	40	1	883	1	CDC45	22	19492925	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	152005	19492925	31811641	1009	68012											
GNB1L	54584	broad.mit.edu	37	chr22	19808148	19808148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcgcccctggggcagcGtctgcagccaggtcacacac	6	5	14	16	2	2	0	1	0	1	0	2	0	2	0	3	4	3	3	3	4	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:19808148G>A	uc002zqe.1	-	3	621	c.227C>T	c.(226-228)ACG>ATG	p.T76M	GNB1L_uc002zqd.1_Intron|GNB1L_uc002zqf.1_Missense_Mutation_p.T76M	NM_053004	NP_443730	Q9BYB4	GNB1L_HUMAN	guanine nucleotide binding protein	76	WD 2.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	internal side of plasma membrane|intracellular				breast(1)	1	Colorectal(54;0.0993)					CTGGGGCAGCGTCTGCAGCCA	0.652													13	57					0	0	1	0	0		A	19808148	A	A	19808148	3	1	122	1	0	0	0	0	1	0	0	0	6531	1145	40	1	776	1	GNB1L	22	19808148	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	315223	19808148	31496418	1010	68013											
COMT	1312	broad.mit.edu	37	chr22	19956195	19956195	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaatcgttcctggaatacaGggaggtggtggacggcctgg	8	8	16	9	2	0	0	0	0	0	0	2	3	1	3	3	7	1	1	3	7	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:19956195G>T	uc002zqu.2	+	6	1001	c.752G>T	c.(751-753)AGG>ATG	p.R251M	COMT_uc002zqv.2_Missense_Mutation_p.R251M|COMT_uc002zqw.2_Missense_Mutation_p.R251M|COMT_uc011ahd.1_Missense_Mutation_p.R251M|COMT_uc002zqx.2_Missense_Mutation_p.R251M	NM_000754	NP_000745	P21964	COMT_HUMAN	catechol-O-methyltransferase isoform MB-COMT	251					neurotransmitter biosynthetic process|neurotransmitter catabolic process|xenobiotic metabolic process	cytosol|integral to membrane|intracellular membrane-bounded organelle|microsome|plasma membrane|soluble fraction	catechol O-methyltransferase activity|magnesium ion binding|protein binding			ovary(1)	1	Colorectal(54;0.0993)				Carbidopa(DB00190)|Conjugated Estrogens(DB00286)|Diethylstilbestrol(DB00255)|Dobutamine(DB00841)|Dopamine(DB00988)|Entacapone(DB00494)|Folic Acid(DB00158)|L-Valine(DB00161)|Levodopa(DB01235)|Methyldopa(DB00968)|Modafinil(DB00745)|Morphine(DB00295)|S-Adenosylmethionine(DB00118)|Tolcapone(DB00323)	CTGGAATACAGGGAGGTGGTG	0.647													8	70					2.17888e-05	2.33674e-05	1	1	0		T	19956195	T	T	19956195	3	4	122	1	0	0	0	0	1	0	0	0	3728	1000	35	5	766	5	COMT	22	19956195	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	148047	19956195	31348371	1011	68014											
ZDHHC8	29801	broad.mit.edu	37	chr22	20127121	20127121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacttctaccgcccgccgcGctgctcccactgcagcgtct	4	8	8	21	5	2	0	0	0	2	0	3	0	3	0	5	0	4	3	5	0	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:20127121G>A	uc002zrq.2	+	3	453	c.347G>A	c.(346-348)CGC>CAC	p.R116H	ZDHHC8_uc002zrr.1_Missense_Mutation_p.R116H|ZDHHC8_uc010gsa.2_Missense_Mutation_p.R14H	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	116	Cytoplasmic (Potential).|DHHC-type.					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					CGCCCGCCGCGCTGCTCCCAC	0.657													11	97					0	0	1	0	0		A	20127121	A	A	20127121	3	1	122	1	0	0	0	0	1	0	0	0	17646	1087	38	1	357	1	ZDHHC8	22	20127121	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	170926	20127121	31177445	1012	68015											
MED15	51586	broad.mit.edu	37	chr22	20920849	20920849	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcagcagcagcagcaGgctttgcaggcccagccacc	10	3	12	16	0	0	0	0	0	0	0	0	0	0	0	3	2	8	8	3	2	0	1	rs361923		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:20920849G>T	uc002zsp.2	+	7	866	c.786G>T	c.(784-786)CAG>CAT	p.Q262H	MED15_uc002zso.2_Missense_Mutation_p.Q191H|MED15_uc002zsq.2_Missense_Mutation_p.Q262H|MED15_uc010gso.2_Missense_Mutation_p.Q262H|MED15_uc002zsr.2_Missense_Mutation_p.Q236H|MED15_uc011ahs.1_Missense_Mutation_p.Q236H|MED15_uc002zss.2_Missense_Mutation_p.Q181H|MED15_uc011ahu.1_Translation_Start_Site	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	262	Poly-Gln.		Missing.	Missing (in Ref. 3; BAB85034).	regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			agcagcagcagGCTTTGCAGG	0.333													17	63					0.00074312	0.000773438	1	1	0		T	20920849	T	T	20920849	3	4	122	1	0	0	0	0	1	0	0	0	9451	991	35	5	812	5	MED15	22	20920849	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	793728	20920849	30383717	1013	68016											
HIC2	23119	broad.mit.edu	37	chr22	21799216	21799216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcttgcccacaggtggtGcgcgtgggcagggcgcgggg	3	8	20	10	4	1	0	0	0	1	0	1	0	1	0	1	6	2	2	1	6	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:21799216G>A	uc002zur.3	+	3	262	c.32G>A	c.(31-33)TGC>TAC	p.C11Y	HIC2_uc002zus.3_Missense_Mutation_p.C11Y	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	11					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CACAGGTGGTGCGCGTGGGCA	0.672													7	53					0	0	1	0	0		A	21799216	A	A	21799216	3	1	122	1	0	0	0	0	1	0	0	0	7118	1319	46	2	38	2	HIC2	22	21799216	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	878367	21799216	29505350	1014	68017											
SMARCB1	6598	broad.mit.edu	37	chr22	24167550	24167550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggagtttgtcaccaccatcGcatacagcatccggggacag	10	7	12	12	2	1	0	1	0	0	0	3	2	2	2	3	3	2	3	3	3	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:24167550G>A	uc002zyb.2	+	7	1141	c.934G>A	c.(934-936)GCA>ACA	p.A312T	SMARCB1_uc002zya.2_Intron|SMARCB1_uc002zyc.2_Missense_Mutation_p.A303T|SMARCB1_uc002zyd.2_Missense_Mutation_p.A321T	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	312	Interaction with PPP1R15A.|2.|2 X approximate tandem repeats.				cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.?(6)|p.L266_*386del(1)|p.A312fs*9(1)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				CACCACCATCGCATACAGCAT	0.557			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				12	64					0	0	1	0	0		A	24167550	A	A	24167550	3	1	122	1	0	0	0	0	1	0	0	0	14799	1087	38	1	960	1	SMARCB1	22	24167550	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	2368334	24167550	27137016	1015	68018											
ZNRF3	84133	broad.mit.edu	37	chr22	29440829	29440829	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgtcgtggtctccttggTctgcctcatcctccttgtca	2	16	8	15	2	4	0	2	0	2	0	9	0	6	0	4	2	1	0	4	2	0	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:29440829T>C	uc003aeg.2	+	5	560	c.395T>C	c.(394-396)GTC>GCC	p.V132A	ZNRF3_uc003aeh.1_Missense_Mutation_p.V132A	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	232	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						GTCTCCTTGGTCTGCCTCATC	0.532													8	69					0	0	1	0	0		C	29440829	C	C	29440829	3	2	122	1	0	0	0	0	1	0	0	0	18238	1667	58	3	409	3	ZNRF3	22	29440829	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	5273279	29440829	21863737	1016	68019											
EMID1	129080	broad.mit.edu	37	chr22	29621187	29621187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatgcggcggatggcgcttCggcccacagccttctcaggt	5	8	13	15	4	1	0	1	0	1	0	3	1	1	1	3	5	2	1	3	5	0	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:29621187C>T	uc003aen.2	+	4	454	c.379C>T	c.(379-381)CGG>TGG	p.R127W	EMID1_uc003aem.2_Missense_Mutation_p.R129W|EMID1_uc003aeo.2_Missense_Mutation_p.R129W|EMID1_uc003aep.2_Missense_Mutation_p.R129W	NM_133455	NP_597712	Q96A84	EMID1_HUMAN	EMI domain containing 1	127						collagen					0						GATGGCGCTTCGGCCCACAGC	0.632													15	78					0	0	1	0	0		T	29621187	T	T	29621187	3	4	122	1	0	0	0	0	1	0	0	0	5099	875	31	1	399	1	EMID1	22	29621187	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	180358	29621187	21683379	1017	68020											
GAS2L1	10634	broad.mit.edu	37	chr22	29706822	29706822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctctctccccgcagctcatCgcccaccccagccgagggtc	5	6	8	22	3	2	0	1	0	1	0	6	1	3	0	7	1	2	2	7	1	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:29706822C>T	uc003afa.1	+	5	1043	c.844C>T	c.(844-846)CGC>TGC	p.R282C	GAS2L1_uc010gvm.1_Missense_Mutation_p.R282C|GAS2L1_uc003afb.1_Missense_Mutation_p.R282C|GAS2L1_uc003afc.1_Missense_Mutation_p.R282C|GAS2L1_uc003afd.1_Missense_Mutation_p.R282C|GAS2L1_uc003afe.1_Missense_Mutation_p.R282C	NM_152236	NP_689422	Q99501	GA2L1_HUMAN	growth arrest-specific 2 like 1 isoform a	282					cell cycle arrest	cytoplasm|cytoskeleton					0						CGCAGCTCATCGCCCACCCCA	0.687													24	197					0	0	1	0	0		T	29706822	T	T	29706822	3	4	122	1	0	0	0	0	1	0	0	0	6261	884	31	1	858	1	GAS2L1	22	29706822	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	85635	29706822	21597744	1018	68021											
CCDC157	550631	broad.mit.edu	37	chr22	30766894	30766894	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacaggcggaggaggatgagCagtgcctgtctgagtgggag	9	6	20	6	1	1	2	0	2	1	0	1	7	1	6	1	5	2	1	1	5	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:30766894C>T	uc011aku.1	+	5	1660	c.1000C>T	c.(1000-1002)CAG>TAG	p.Q334*	CCDC157_uc011akv.1_Nonsense_Mutation_p.Q334*	NM_001017437	NP_001017437	Q569K6	CC157_HUMAN	coiled-coil domain containing 157	334	Potential.									central_nervous_system(1)	1						GGAGGATGAGCAGTGCCTGTC	0.657													4	15					0	0	1	0	0		T	30766894	T	T	30766894	4	4	122	1	0	0	0	0	0	1	0	0	2792	711	25	2	1010	2	CCDC157	22	30766894	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1060072	30766894	20537672	1019	68022											
SEC14L3	266629	broad.mit.edu	37	chr22	30857641	30857641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagtcttcacctggtccCgcacgtacatggacttgggg	7	10	12	12	2	2	1	1	1	1	0	3	2	3	2	2	4	1	2	2	4	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:30857641C>T	uc003ahy.2	-	10	901	c.812G>A	c.(811-813)CGG>CAG	p.R271Q	SEC14L3_uc003ahz.2_Missense_Mutation_p.R194Q|SEC14L3_uc003aia.2_Missense_Mutation_p.R212Q|SEC14L3_uc003aib.2_Missense_Mutation_p.R212Q	NM_174975	NP_777635	Q9UDX4	S14L3_HUMAN	SEC14-like 3	271						integral to membrane|intracellular	lipid binding|transporter activity			ovary(3)|pancreas(1)|skin(1)	5					Vitamin E(DB00163)	CACCTGGTCCCGCACGTACAT	0.443													4	22					0	0	1	0	0		T	30857641	T	T	30857641	3	4	122	1	0	0	0	0	1	0	0	0	14008	652	23	1	402	1	SEC14L3	22	30857641	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	90747	30857641	20446925	1020	68023											
DUSP18	150290	broad.mit.edu	37	chr22	31059662	31059662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaggcacagggcagctgagCggctcacaccagcagcacag	11	2	14	14	2	1	1	1	1	0	0	1	2	1	1	1	3	4	6	1	3	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:31059662C>T	uc003aiu.2	-	2	830	c.329G>A	c.(328-330)CGC>CAC	p.R110H	SLC35E4_uc003ait.2_Intron|DUSP18_uc010gwa.1_RNA|DUSP18_uc003aiw.1_Missense_Mutation_p.R110H	NM_152511	NP_689724	Q8NEJ0	DUS18_HUMAN	dual specificity phosphatase 18	110	Tyrosine-protein phosphatase.			R->K: Abolishes most of in vitro phosphatase activity.		cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0						GGCAGCTGAGCGGCTCACACC	0.592													10	45					0	0	1	0	0		T	31059662	T	T	31059662	3	4	122	1	0	0	0	0	1	0	0	0	4823	768	27	1	241	1	DUSP18	22	31059662	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	202021	31059662	20244904	1021	68024											
MORC2	22880	broad.mit.edu	37	chr22	31324132	31324132	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttggcccgggagtcagcAcggctctggtaggaattgca	7	8	15	11	2	2	0	1	0	1	0	2	2	2	2	2	5	2	4	2	5	2	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:31324132A>G	uc003aje.1	-	26	4082	c.2718T>C	c.(2716-2718)CGT>CGC	p.R906R		NM_014941	NP_055756	Q9Y6X9	MORC2_HUMAN	MORC family CW-type zinc finger 2	968	Potential.						ATP binding|zinc ion binding			ovary(1)|pancreas(1)	2						GGGAGTCAGCACGGCTCTGGT	0.567													8	67					0	0	1	0	0		G	31324132	G	G	31324132	2	3	122	1	0	0	0	0	0	0	0	1	9720	146	6	3		3	MORC2	22	31324132	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	264470	31324132	19980434	1022	68025											
SFI1	9814	broad.mit.edu	37	chr22	32000924	32000924	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagccagcacaacaggcagCtgctgcggtgagtctcccgg	9	5	14	13	2	1	2	0	1	1	1	2	2	1	2	2	3	6	4	2	3	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:32000924C>T	uc003ale.2	+	20	2440	c.2047C>T	c.(2047-2049)CTG>TTG	p.L683L	SFI1_uc003ald.1_Silent_p.L659L|SFI1_uc003alf.2_Silent_p.L652L|SFI1_uc003alg.2_Silent_p.L601L|SFI1_uc011alp.1_Silent_p.L601L|SFI1_uc011alq.1_Silent_p.L628L|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_Intron	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	683					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						CAACAGGCAGCTGCTGCGGTG	0.637													5	33					0	0	1	0	0		T	32000924	T	T	32000924	2	4	122	1	0	0	0	0	0	0	0	1	14181	796	28	2		2	SFI1	22	32000924	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	676792	32000924	19303642	1023	68026											
SLC5A4	6527	broad.mit.edu	37	chr22	32628914	32628914	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgcggctgatcatcccCggcatcaccatgaggaacat	11	7	11	12	2	2	2	2	2	0	0	3	4	3	4	3	4	2	2	3	4	1	0	rs143604627		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:32628914C>T	uc003ami.2	-	9	995	c.993G>A	c.(991-993)CCG>CCA	p.P331P		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	331	Helical; (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						TGATCATCCCCGGCATCACCA	0.473													11	81					0	0	1	0	0		T	32628914	T	T	32628914	2	4	122	1	0	0	0	0	0	0	0	1	14692	639	23	1		1	SLC5A4	22	32628914	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	627990	32628914	18675652	1024	68027											
TOM1	10043	broad.mit.edu	37	chr22	35743188	35743188	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagaaagatgatgacatgCtgtttgccttatgagtgtgg	11	12	14	4	0	0	5	0	3	0	2	0	6	0	5	1	2	2	2	1	2	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:35743188C>T	uc003ann.2	+	15	1590	c.1465C>T	c.(1465-1467)CTG>TTG	p.L489L	TOM1_uc011ami.1_Silent_p.L457L|TOM1_uc011amj.1_Silent_p.L332L|TOM1_uc003ans.2_Silent_p.L332L|TOM1_uc011amk.1_Silent_p.L451L|TOM1_uc003anp.2_Silent_p.L490L|TOM1_uc011aml.1_Silent_p.L444L|TOM1_uc003ano.2_RNA|TOM1_uc003anq.2_Silent_p.L483L|TOM1_uc003anr.2_Silent_p.L332L	NM_005488	NP_005479	O60784	TOM1_HUMAN	target of myb1 isoform 1	489					endocytosis|endosome transport|intracellular protein transport	cytosol|early endosome|membrane	protein binding			ovary(1)	1						TGATGACATGCTGTTTGCCTT	0.637													15	64					0	0	1	0	0		T	35743188	T	T	35743188	2	4	122	1	0	0	0	0	0	0	0	1	16376	796	28	2		2	TOM1	22	35743188	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3114274	35743188	15561378	1025	68028											
MYH9	4627	broad.mit.edu	37	chr22	36700098	36700098	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatgatgacgtcggtgatcTtcaggtctcgctcctcctcc	5	13	9	14	3	3	3	1	3	2	0	8	3	6	3	3	2	0	1	3	2	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:36700098T>G	uc003apg.2	-	19	2564	c.2333A>C	c.(2332-2334)AAG>ACG	p.K778T	MYH9_uc003aph.1_Missense_Mutation_p.K642T	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	778	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GTCGGTGATCTTCAGGTCTCG	0.617			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				8	63					0	0	1	0	0		G	36700098	G	G	36700098	3	3	122	1	0	0	0	0	1	0	0	0	10060	1609	56	5	3641	5	MYH9	22	36700098	Missense_Mutation	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	956910	36700098	14604468	1026	68029											
APOBEC3D	140564	broad.mit.edu	37	chr22	39418942	39418942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgaaaataaagaggggcCgctcaaatctcctttgggac	14	8	11	8	1	2	2	1	1	1	1	3	3	2	3	2	3	0	1	2	3	6	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:39418942C>T	uc011aoe.1	+	2	187	c.133C>T	c.(133-135)CGC>TGC	p.R45C	APOBEC3D_uc011aod.1_Missense_Mutation_p.R45C|APOBEC3D_uc011aof.1_Missense_Mutation_p.R45C|APOBEC3D_uc003awu.3_Missense_Mutation_p.R45C|APOBEC3D_uc003awt.3_Missense_Mutation_p.R45C|APOBEC3D_uc010gxu.2_5'UTR	NM_152426	NP_689639	Q96AK3	ABC3D_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	45					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0	Melanoma(58;0.04)					AAAGAGGGGCCGCTCAAATCT	0.498													13	82					0	0	1	0	0		T	39418942	T	T	39418942	3	4	122	1	0	0	0	0	1	0	0	0	792	652	23	1	139	1	APOBEC3D	22	39418942	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	2718844	39418942	11885624	1027	68030											
SMCR7L	54471	broad.mit.edu	37	chr22	39909948	39909948	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtatgacaacctgtggCggctgagcctgcgtcccgcg	6	7	13	15	4	0	2	0	2	0	0	1	2	1	2	4	2	3	2	4	2	2	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:39909948C>T	uc003axx.2	+	6	1510	c.1012C>T	c.(1012-1014)CGG>TGG	p.R338W	SMCR7L_uc003axw.2_Missense_Mutation_p.R338W|SMCR7L_uc010gxz.1_Missense_Mutation_p.R160W|SMCR7L_uc003axy.2_Missense_Mutation_p.R160W	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	338						integral to membrane|mitochondrion		p.R338Q(1)		central_nervous_system(1)	1	Melanoma(58;0.04)					CAACCTGTGGCGGCTGAGCCT	0.602											OREG0026577	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	134					0	0	1	0	0		T	39909948	T	T	39909948	3	4	122	1	0	0	0	0	1	0	0	0	14816	759	27	1	1026	1	SMCR7L	22	39909948	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	491006	39909948	11394618	1028	68031											
SGSM3	27352	broad.mit.edu	37	chr22	40801789	40801789	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgaccagcgggtcctgcGccacctcattgtccagtacc	7	8	10	16	2	1	1	1	1	0	0	3	2	3	1	6	1	3	1	6	1	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:40801789G>A	uc003ayu.1	+	8	964	c.755G>A	c.(754-756)CGC>CAC	p.R252H	SGSM3_uc010gyc.1_Missense_Mutation_p.R252H|SGSM3_uc011aos.1_Missense_Mutation_p.R185H|SGSM3_uc011aot.1_Missense_Mutation_p.R189H|SGSM3_uc010gyd.1_Missense_Mutation_p.R252H	NM_015705	NP_056520	Q96HU1	SGSM3_HUMAN	small G protein signaling modulator 3	252	Rab-GAP TBC.				cell cycle arrest|Rap protein signal transduction	cytoplasm	Rab GTPase activator activity|Rab GTPase binding			ovary(2)	2						CGGGTCCTGCGCCACCTCATT	0.617													18	120					0	0	1	0	0		A	40801789	A	A	40801789	3	1	122	1	0	0	0	0	1	0	0	0	14249	1087	38	1	781	1	SGSM3	22	40801789	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	891841	40801789	10502777	1029	68032											
RBX1	9978	broad.mit.edu	37	chr22	41360110	41360110	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagagtgtactgtcgcatggGgagtctgtaacgtaaggaag	12	9	15	5	2	1	1	0	0	1	1	2	3	1	3	0	3	2	4	0	3	5	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:41360110G>T	uc003azk.2	+	3	235	c.217G>T	c.(217-219)GGA>TGA	p.G73*	XPNPEP3_uc011aoy.1_RNA	NM_014248	NP_055063	P62877	RBX1_HUMAN	ring-box 1	73	RING-type.				DNA repair|interspecies interaction between organisms|protein neddylation|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|viral reproduction	Cul3-RING ubiquitin ligase complex|Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytosol|nucleus|SCF ubiquitin ligase complex	NEDD8 ligase activity|protein binding|zinc ion binding			skin(1)	1						TGTCGCATGGGGAGTCTGTAA	0.458													5	36					5.9392e-07	6.52115e-07	1	1	0		T	41360110	T	T	41360110	4	4	122	1	0	0	0	0	0	1	0	0	13190	1233	43	5	227	5	RBX1	22	41360110	Nonsense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	558321	41360110	9944456	1030	68033											
L3MBTL2	83746	broad.mit.edu	37	chr22	41625570	41625570	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcccgcccactaagacgCgacccctcagacaggggtcc	10	4	10	17	3	1	2	1	0	0	2	3	4	3	2	5	2	0	0	5	2	2	1	rs151099443		TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:41625570C>T	uc003azo.2	+	16	1969	c.1915C>T	c.(1915-1917)CGA>TGA	p.R639*	L3MBTL2_uc003azn.2_RNA|CHADL_uc003azq.3_3'UTR|CHADL_uc010gyj.2_3'UTR	NM_031488	NP_113676	Q969R5	LMBL2_HUMAN	l(3)mbt-like 2	639					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	methylated histone residue binding|transcription corepressor activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3						CACTAAGACGCGACCCCTCAG	0.532													7	51					0	0	1	0	0		T	41625570	T	T	41625570	4	4	122	1	0	0	0	0	0	1	0	0	8608	760	27	1	1977	1	L3MBTL2	22	41625570	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	265460	41625570	9678996	1031	68034											
PMM1	5372	broad.mit.edu	37	chr22	41982188	41982188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caggaaggcggccacctcagGgtcaattttctatgggggga	9	8	15	9	1	3	0	2	0	1	0	3	2	3	2	2	7	0	0	2	7	3	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:41982188G>A	uc003bal.2	-	2	159	c.97C>T	c.(97-99)CCT>TCT	p.P33S		NM_002676	NP_002667	Q92871	PMM1_HUMAN	phosphomannomutase 1	33					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	metal ion binding|phosphomannomutase activity			ovary(1)	1						GCCACCTCAGGGTCAATTTTC	0.557													11	140					0	0	1	0	0		A	41982188	A	A	41982188	3	1	122	1	0	0	0	0	1	0	0	0	12155	1232	43	4	719	4	PMM1	22	41982188	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	356618	41982188	9322378	1032	68035											
SEPT3	55964	broad.mit.edu	37	chr22	42383721	42383721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacgcatccctgacactcGtgtccactgctgcctttact	8	11	7	15	2	0	1	0	1	0	0	3	2	2	1	3	0	4	2	3	0	2	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:42383721G>A	uc003bbr.3	+	5	647	c.509G>A	c.(508-510)CGT>CAT	p.R170H	WBP2NL_uc011ape.1_Intron|SEPT3_uc003bbs.3_Missense_Mutation_p.R170H|SEPT3_uc010gyr.2_Missense_Mutation_p.R106H|SEPT3_uc011apj.1_Missense_Mutation_p.R106H|SEPT3_uc010gys.2_Translation_Start_Site	NM_145733	NP_663786	Q9UH03	SEPT3_HUMAN	septin 3 isoform A	170					cell cycle|cytokinesis	cell junction|septin complex	GTP binding				0						CCTGACACTCGTGTCCACTGC	0.517													9	58					0	0	1	0	0		A	42383721	A	A	42383721	3	1	122	1	0	0	0	0	1	0	0	0	14090	1145	40	1	527	1	SEPT3	22	42383721	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	401533	42383721	8920845	1033	68036											
FBLN1	2192	broad.mit.edu	37	chr22	45923783	45923783	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggcccagggccagagctgCgagtacagcctcatggttgg	8	6	15	12	1	1	1	1	0	0	1	1	2	1	1	3	4	4	3	3	4	1	2	rs144410933	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:45923783C>T	uc003bgj.1	+	4	525	c.378C>T	c.(376-378)TGC>TGT	p.C126C	FBLN1_uc003bgg.1_Silent_p.C126C|FBLN1_uc003bgh.2_Silent_p.C126C|FBLN1_uc010gzz.2_Silent_p.C164C|FBLN1_uc003bgi.1_Silent_p.C126C	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	126	Anaphylatoxin-like 3.				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GCCAGAGCTGCGAGTACAGCC	0.622													18	116					0	0	1	0	0		T	45923783	T	T	45923783	2	4	122	1	0	0	0	0	0	0	0	1	5712	776	27	1		1	FBLN1	22	45923783	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3540062	45923783	5380783	1034	68037											
PKDREJ	10343	broad.mit.edu	37	chr22	46657387	46657387	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagggtgttctcttttacTgaactgatttcaccaacact	9	14	6	12	0	2	2	1	2	1	0	3	2	2	2	2	1	3	1	2	1	3	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:46657387T>C	uc003bhh.2	-	1	1833	c.1833A>G	c.(1831-1833)TCA>TCG	p.S611S		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	611	Extracellular (Potential).|REJ.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TCTCTTTTACTGAACTGATTT	0.428													21	82					0	0	1	0	0		C	46657387	C	C	46657387	2	2	122	1	0	0	0	0	0	0	0	1	11989	1567	55	3		3	PKDREJ	22	46657387	Silent	SNP	T	TCGA-CD-A4MI-01A-21D-A25D-08	733604	46657387	4647179	1035	68038											
TTC38	55020	broad.mit.edu	37	chr22	46681140	46681140	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaactttattcttccagggCgaatatgaggccgcgctgac	10	10	11	10	3	1	3	0	2	1	1	2	4	2	3	2	2	1	1	2	2	4	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:46681140C>T	uc003bhi.2	+	9	874	c.798C>T	c.(796-798)GGC>GGT	p.G266G	TTC38_uc011aqx.1_Silent_p.G208G	NM_017931	NP_060401	Q5R3I4	TTC38_HUMAN	tetratricopeptide repeat domain 38	266	TPR 3.						binding			ovary(1)	1						TCTTCCAGGGCGAATATGAGG	0.493													7	55					0	0	1	0	0		T	46681140	T	T	46681140	2	4	122	1	0	0	0	0	0	0	0	1	16732	755	27	1		1	TTC38	22	46681140	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	23753	46681140	4623426	1036	68039											
CELSR1	9620	broad.mit.edu	37	chr22	46773080	46773080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggaccaggctcaggaggaCgaaggccaccagcagggctg	10	2	17	12	2	1	0	1	0	0	0	1	4	1	3	3	6	1	3	3	6	1	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:46773080C>T	uc003bhw.1	-	24	7462	c.7462G>A	c.(7462-7464)GTC>ATC	p.V2488I	CELSR1_uc011arc.1_Missense_Mutation_p.V809I	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2488	Helical; Name=1; (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CTCAGGAGGACGAAGGCCACC	0.602													9	56					0	0	1	0	0		T	46773080	T	T	46773080	3	4	122	1	0	0	0	0	1	0	0	0	3224	536	19	1	1630	1	CELSR1	22	46773080	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	91940	46773080	4531486	1037	68040											
BRD1	23774	broad.mit.edu	37	chr22	50217527	50217527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgttgtccagttcctcggCcgacttctcgatgaacttgt	5	14	9	13	4	1	1	0	1	1	0	6	3	3	1	3	1	1	2	3	1	1	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:50217527C>T	uc003biv.2	-	1	926	c.439G>A	c.(439-441)GCC>ACC	p.A147T	BRD1_uc011arf.1_5'UTR|BRD1_uc011arg.1_Missense_Mutation_p.A147T|BRD1_uc011arh.1_Missense_Mutation_p.A147T|BRD1_uc003biu.3_Missense_Mutation_p.A147T	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	147					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		AGTTCCTCGGCCGACTTCTCG	0.627													13	101					0	0	1	0	0		T	50217527	T	T	50217527	3	4	122	1	0	0	0	0	1	0	0	0	1504	739	26	2	2785	2	BRD1	22	50217527	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3444447	50217527	1087039	1038	68041											
PLXNB2	23654	broad.mit.edu	37	chr22	50728599	50728599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgaaagacttctcccCgctgccgtcctcgtagaaca	9	7	9	16	4	1	2	0	0	1	2	4	3	2	2	5	1	2	2	5	1	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:50728599C>T	uc003bkv.3	-	3	521	c.415G>A	c.(415-417)GGG>AGG	p.G139R		NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	139	Extracellular (Potential).|Sema.				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GACTTCTCCCCGCTGCCGTCC	0.647													3	41					0	0	1	0	0		T	50728599	T	T	50728599	3	4	122	1	0	0	0	0	1	0	0	0	12143	652	23	1	5241	1	PLXNB2	22	50728599	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	511072	50728599	575967	1039	68042											
FAM116B	414918	broad.mit.edu	37	chr22	50755772	50755772	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccttcacctgcctgaagtAcacgtagccgaagtagtgtg	9	10	11	11	2	1	1	1	1	0	0	2	2	2	1	4	0	3	3	4	0	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:50755772A>G	uc011aru.1	-	6	475	c.403T>C	c.(403-405)TAC>CAC	p.Y135H	FAM116B_uc011arv.1_Missense_Mutation_p.Y135H	NM_001001794	NP_001001794	Q8NEG7	F116B_HUMAN	family with sequence similarity 116, member B	135											0		all_cancers(38;4.34e-09)|all_epithelial(38;3.03e-08)|all_lung(38;0.00141)|Breast(42;0.00387)|Lung NSC(38;0.0199)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TGCCTGAAGTACACGTAGCCG	0.642													6	56					0	0	1	0	0		G	50755772	G	G	50755772	3	3	122	1	0	0	0	0	1	0	0	0	5419	391	14	3	1418	3	FAM116B	22	50755772	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	27173	50755772	548794	1040	68043											
MIOX	55586	broad.mit.edu	37	chr22	50928041	50928041	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagctgtgcagccagcaggaCctggccatgctgccctgggt	6	7	14	14	0	0	0	0	0	0	0	0	1	0	1	4	3	6	4	4	3	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chr22:50928041C>T	uc003bll.1	+	9	831	c.717C>T	c.(715-717)GAC>GAT	p.D239D	MIOX_uc003blm.1_Silent_p.D239D|MIOX_uc003bln.1_Intron	NM_017584	NP_060054	Q9UGB7	MIOX_HUMAN	myo-inositol oxygenase	239					inositol catabolic process	cytoplasm|inclusion body	aldo-keto reductase (NADP) activity|ferric iron binding|inositol oxygenase activity				0		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GCCAGCAGGACCTGGCCATGC	0.672													8	42					0	0	1	0	0		T	50928041	T	T	50928041	2	4	122	1	0	0	0	0	0	0	0	1	9608	506	18	4		4	MIOX	22	50928041	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	172269	50928041	376525	1041	68044											
CSF2RA	1438	broad.mit.edu	37	chrX	1413254	1413254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccagcaatgtcaccgtacGttgcaacacgacgcactgcc	10	7	8	16	4	1	0	1	0	0	0	2	1	2	0	3	0	5	5	3	0	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:1413254G>A	uc010nct.2	+	9	1002	c.680G>A	c.(679-681)CGT>CAT	p.R227H	CSF2RA_uc011mhb.1_Missense_Mutation_p.R227H|CSF2RA_uc004cpq.2_Intron|CSF2RA_uc004cpn.2_Missense_Mutation_p.R227H|CSF2RA_uc004cpo.2_Missense_Mutation_p.R227H|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Missense_Mutation_p.R94H|CSF2RA_uc004cpp.2_Missense_Mutation_p.R227H|CSF2RA_uc010ncv.2_Missense_Mutation_p.R227H|CSF2RA_uc004cpr.2_Missense_Mutation_p.R227H	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	227	Extracellular (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	GTCACCGTACGTTGCAACACG	0.572													35	233					0	0	1	0	0		A	1413254	A	A	1413254	3	1	122	1	0	0	0	0	1	0	0	0	3937	1145	40	1	702	1	CSF2RA	23	1413254	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08		1413254	153857306	1042	68045											
SLC25A6	293	broad.mit.edu	37	chrX	1508411	1508411	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaagtacctccagaactgCgtgtgcttgtccacgccccc	8	8	9	16	2	0	1	0	0	0	1	2	1	2	1	5	0	4	3	5	0	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:1508411C>T	uc004cpt.2	-	2	417	c.321G>A	c.(319-321)ACG>ACA	p.T107T	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	107				KHTQ -> RHA (in Ref. 5; AAA36750).	active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	TCCAGAACTGCGTGTGCTTGT	0.612													26	239					0	0	1	0	0		T	1508411	T	T	1508411	2	4	122	1	0	0	0	0	0	0	0	1	14538	755	27	1		1	SLC25A6	23	1508411	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	95157	1508411	153762149	1043	68046											
SHROOM2	357	broad.mit.edu	37	chrX	9864465	9864465	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccgcacatgtgagggcacGgagccctggtcgcgcaccac	7	4	15	15	4	0	1	0	1	0	0	1	2	0	2	3	4	1	3	3	4	0	0			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:9864465G>A	uc004csu.1	+	4	2607	c.2517G>A	c.(2515-2517)ACG>ACA	p.T839T		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	839					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				GTGAGGGCACGGAGCCCTGGT	0.667													7	21					0	0	1	0	0		A	9864465	A	A	9864465	2	1	122	1	0	0	0	0	0	0	0	1	14319	1103	39	1		1	SHROOM2	23	9864465	Silent	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	8356054	9864465	145406095	1044	68047											
MED14	9282	broad.mit.edu	37	chrX	40572274	40572274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcaaattctccttcaacacGaaacttcacccggccatttg	11	12	4	14	2	4	0	3	0	1	0	5	1	4	0	3	1	2	0	3	1	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:40572274G>A	uc004dex.3	-	6	813	c.673C>T	c.(673-675)CGT>TGT	p.R225C	MED14_uc010nhe.1_Missense_Mutation_p.R109C	NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	225	Interaction with STAT2.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						CCTTCAACACGAAACTTCACC	0.408													7	39					0	0	1	0	0		A	40572274	A	A	40572274	3	1	122	1	0	0	0	0	1	0	0	0	9450	1058	37	1	3795	1	MED14	23	40572274	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	30707809	40572274	114698286	1045	68048											
PORCN	64840	broad.mit.edu	37	chrX	48374500	48374500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgtgtcttgtcaaagcGgtgcccgccagactgttcgc	5	11	12	13	3	2	1	1	0	1	1	3	1	2	1	3	1	3	1	3	1	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:48374500G>A	uc010nie.1	+	13	1297	c.1139G>A	c.(1138-1140)CGG>CAG	p.R380Q	PORCN_uc004djr.1_Missense_Mutation_p.R375Q|PORCN_uc004djs.1_Missense_Mutation_p.R369Q|PORCN_uc004djt.1_Missense_Mutation_p.R298Q|PORCN_uc011mlx.1_Missense_Mutation_p.R298Q|PORCN_uc004dju.1_Missense_Mutation_p.R238Q|PORCN_uc004djv.1_Missense_Mutation_p.R380Q|PORCN_uc004djw.1_Missense_Mutation_p.R374Q	NM_203475	NP_982301	Q9H237	PORCN_HUMAN	porcupine isoform D	380	Extracellular (Potential).				Wnt receptor signaling pathway	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(2)|central_nervous_system(1)	3						TTGTCAAAGCGGTGCCCGCCA	0.592													9	22					0	0	1	0	0		A	48374500	A	A	48374500	3	1	122	1	0	0	0	0	1	0	0	0	12277	1116	39	1	1185	1	PORCN	23	48374500	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	7802226	48374500	106896060	1046	68049											
KDM5C	8242	broad.mit.edu	37	chrX	53225096	53225096	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggagtggcagggtcctcActtggatctcatcaacatca	9	10	12	10	0	4	0	4	0	1	0	6	2	5	2	1	4	1	1	1	4	1	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:53225096A>G	uc004drz.2	-	20	3653	c.3120_splice	c.e20+1	p.Q1040_splice	KDM5C_uc011moc.1_Splice_Site|KDM5C_uc011mod.1_Splice_Site_p.Q973_splice|KDM5C_uc004dsa.2_Splice_Site_p.Q1039_splice	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						CAGGGTCCTCACTTGGATCTC	0.577			N|F|S		clear cell renal carcinoma								4	6					0	0	1	0	0		G	53225096	G	G	53225096	5	3	122	1	0	0	0	0	0	0	1	0	8151	173	6	3	1686	3	KDM5C	23	53225096	Splice_Site	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	4850596	53225096	102045464	1047	68050											
AR	367	broad.mit.edu	37	chrX	66905888	66905888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcgccagcagaaatgattGcactattgataaattccgaa	14	10	9	8	2	0	3	0	2	0	1	1	4	1	3	2	0	3	2	2	0	5	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:66905888G>A	uc004dwu.1	+	3	2920	c.1805G>A	c.(1804-1806)TGC>TAC	p.C602Y	AR_uc011mpd.1_Missense_Mutation_p.C602Y|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.C602Y|AR_uc004dwv.1_Missense_Mutation_p.C70Y	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	601	NR C4-type.|Interaction with HIPK3 (By similarity).|Nuclear receptor.		C -> F (in AIS).		cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	AGAAATGATTGCACTATTGAT	0.398									Androgen_Insensitivity_Syndrome				11	32					0	0	1	0	0		A	66905888	A	A	66905888	3	1	122	1	0	0	0	0	1	0	0	0	836	1319	46	2	1839	2	AR	23	66905888	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	13680792	66905888	88364672	1048	68051											
CDX4	1046	broad.mit.edu	37	chrX	72667289	72667289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatggatcctcactggcCgtctctgggagtctggggct	5	10	14	12	1	3	0	1	0	2	0	5	2	4	2	2	5	1	2	2	5	0	0	rs145092385	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:72667289C>T	uc011mqk.1	+	1	200	c.200C>T	c.(199-201)CCG>CTG	p.P67L		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	67						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(35;0.156)					CCTCACTGGCCGTCTCTGGGA	0.612													8	22					0	0	1	0	0		T	72667289	T	T	72667289	3	4	122	1	0	0	0	0	1	0	0	0	3187	652	23	1	202	1	CDX4	23	72667289	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5761401	72667289	82603271	1049	68052											
MAGEE2	139599	broad.mit.edu	37	chrX	75004754	75004754	+	Frame_Shift_Del	DEL	G	-	-																															gattggcgcctgagggcactGgggggcatcaacgactagca																								rs61732441	byFrequency	TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:75004754delG	uc004ecj.1	-	1	318	c.133delC	c.(133-135)CAGfs	p.Q45fs		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	45										ovary(1)|skin(1)	2						TGAGGGCACTGGGGGGCATCA	0.587													14	25	---	---	---	---						.	-	75004754	-	-	75004754	7	5	122	1	0	1	0	1	0	0	0	0	9204	1357	47	0	1442	0	MAGEE2	23	75004754	Frame_Shift_Del	DEL	G	TCGA-CD-A4MI-01A-21D-A25D-08	2337465	75004754	80265806	1050	68053											
BRWD3	254065	broad.mit.edu	37	chrX	79978130	79978130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcccgtcctggtaccaaccGttggaattttgtgggatgag	7	13	12	9	2	0	1	0	1	0	0	2	3	2	3	4	3	2	2	4	3	3	5			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:79978130G>A	uc004edt.2	-	17	2070	c.1807C>T	c.(1807-1809)CGG>TGG	p.R603W	BRWD3_uc010nmi.1_5'Flank|BRWD3_uc004edo.2_Missense_Mutation_p.R199W|BRWD3_uc004edp.2_Missense_Mutation_p.R432W|BRWD3_uc004edq.2_Missense_Mutation_p.R199W|BRWD3_uc010nmj.1_Missense_Mutation_p.R199W|BRWD3_uc004edr.2_Missense_Mutation_p.R273W|BRWD3_uc004eds.2_Missense_Mutation_p.R199W|BRWD3_uc004edu.2_Missense_Mutation_p.R273W|BRWD3_uc004edv.2_Missense_Mutation_p.R199W|BRWD3_uc004edw.2_Missense_Mutation_p.R199W|BRWD3_uc004edx.2_Missense_Mutation_p.R199W|BRWD3_uc004edy.2_Missense_Mutation_p.R199W|BRWD3_uc004edz.2_Missense_Mutation_p.R273W|BRWD3_uc004eea.2_Missense_Mutation_p.R273W|BRWD3_uc004eeb.2_Missense_Mutation_p.R199W	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	603										ovary(4)	4						GGTACCAACCGTTGGAATTTT	0.398													19	38					0	0	1	0	0		A	79978130	A	A	79978130	3	1	122	1	0	0	0	0	1	0	0	0	1529	1144	40	1	3701	1	BRWD3	23	79978130	Missense_Mutation	SNP	G	TCGA-CD-A4MI-01A-21D-A25D-08	4973376	79978130	75292430	1051	68054											
RPS6KA6	27330	broad.mit.edu	37	chrX	83352808	83352808	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgtgtaaaaaaggactcCtaaactccagatatcacaag	17	9	6	9	0	1	1	1	0	0	1	3	2	3	2	2	1	1	1	2	1	7	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:83352808C>A	uc004eej.1	-	19	1902	c.1825G>T	c.(1825-1827)GGA>TGA	p.G609*	RPS6KA6_uc011mqt.1_Nonsense_Mutation_p.G609*|RPS6KA6_uc011mqu.1_Nonsense_Mutation_p.G506*	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	609	Protein kinase 2.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						AAAAGGACTCCTAAACTCCAG	0.313													25	92					3.65163e-15	4.2632e-15	1	1	0		A	83352808	A	A	83352808	4	1	122	1	0	0	0	0	0	1	0	0	13680	690	24	5	428	5	RPS6KA6	23	83352808	Nonsense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	3374678	83352808	71917752	1052	68055											
BHLHB9	80823	broad.mit.edu	37	chrX	102005402	102005402	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggcagcattaaaactcatCtttaaccagaaagaggcaaa	17	9	7	8	0	2	2	1	0	1	2	2	2	2	2	1	2	3	3	1	2	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:102005402C>T	uc010nog.2	+	4	2050	c.1479C>T	c.(1477-1479)ATC>ATT	p.I493I	BHLHB9_uc011mrq.1_Silent_p.I493I|BHLHB9_uc011mrr.1_Silent_p.I493I|BHLHB9_uc011mrs.1_Silent_p.I493I|BHLHB9_uc011mrt.1_Silent_p.I493I|BHLHB9_uc004ejo.2_Silent_p.I493I|BHLHB9_uc011mru.1_Silent_p.I493I|BHLHB9_uc011mrv.1_Silent_p.I493I	NM_001142526	NP_001135998	Q6PI77	BHLH9_HUMAN	basic helix-loop-helix domain containing, class	493						cytoplasm|nucleus	binding			ovary(2)	2						TAAAACTCATCTTTAACCAGA	0.358													24	89					0	0	1	0	0		T	102005402	T	T	102005402	2	4	122	1	0	0	0	0	0	0	0	1	1421	903	32	4		4	BHLHB9	23	102005402	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	18652594	102005402	53265158	1053	68056											
PLP1	5354	broad.mit.edu	37	chrX	103041549	103041549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcaagggcctgagcgcaaCggtaacagggggccagaagg	11	2	18	10	3	0	2	0	1	0	1	0	2	0	2	2	6	3	3	2	6	4	1			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:103041549C>T	uc010nov.2	+	4	627	c.347C>T	c.(346-348)ACG>ATG	p.T116M	RAB9B_uc004eli.1_Intron|PLP1_uc004elk.2_Missense_Mutation_p.T116M|PLP1_uc004elj.2_Missense_Mutation_p.T116M|PLP1_uc011msf.1_Missense_Mutation_p.T61M|PLP1_uc010now.1_Missense_Mutation_p.T120M|PLP1_uc010nox.2_Missense_Mutation_p.T70M	NM_001128834	NP_001122306	P60201	MYPR_HUMAN	proteolipid protein 1 isoform 1	116	Cytoplasmic (Probable).		T -> K (in HLD1).		cell death|synaptic transmission	integral to membrane				ovary(1)	1						CTGAGCGCAACGGTAACAGGG	0.597													20	82					0	0	1	0	0		T	103041549	T	T	103041549	3	4	122	1	0	0	0	0	1	0	0	0	12123	550	19	1	357	1	PLP1	23	103041549	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1036147	103041549	52229011	1054	68057											
H2BFWT	158983	broad.mit.edu	37	chrX	103267317	103267317	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgtatggcatacagtgaAgttctggaaaattccaccat	12	12	9	8	0	1	1	0	1	1	0	2	2	2	2	2	2	2	4	2	2	5	4			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:103267317A>G	uc004elr.2	-	2	519	c.495T>C	c.(493-495)ACT>ACC	p.T165T		NM_001002916	NP_001002916	Q7Z2G1	H2BWT_HUMAN	H2B histone family, member W, testis-specific	165					nucleosome assembly	nuclear membrane|nucleosome	DNA binding			ovary(1)	1						catacagtgaagttctggaaa	0.194													7	27					0	0	1	0	0		G	103267317	G	G	103267317	2	3	122	1	0	0	0	0	0	0	0	1	6948	59	3	3		3	H2BFWT	23	103267317	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	225768	103267317	52003243	1055	68058											
NRK	203447	broad.mit.edu	37	chrX	105189887	105189887	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcattgatcaatcagcagaCtctgaaggagactacatgtc	13	10	9	9	0	3	4	2	2	1	2	4	5	3	4	0	1	3	2	0	1	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:105189887C>T	uc004emd.2	+	25	4386	c.4083C>T	c.(4081-4083)GAC>GAT	p.D1361D	NRK_uc011msi.1_5'Flank	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1361	CNH.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						AATCAGCAGACTCTGAAGGAG	0.438										HNSCC(51;0.14)			7	35					0	0	1	0	0		T	105189887	T	T	105189887	2	4	122	1	0	0	0	0	0	0	0	1	10674	564	20	4		4	NRK	23	105189887	Silent	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	1922570	105189887	50080673	1056	68059											
RBMX	27316	broad.mit.edu	37	chrX	135958813	135958813	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatggaatatccaccgtcAtctgcatcaaaaatagaaaa	17	10	5	9	1	4	1	3	0	1	1	5	2	5	2	2	1	1	1	2	1	7	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:135958813A>G	uc004fae.1	-	5	600	c.390T>C	c.(388-390)GAT>GAC	p.D130D	RBMX_uc004fac.1_5'Flank|RBMX_uc011mwf.1_Intron|RBMX_uc004fad.1_Silent_p.D130D|RBMX_uc011mwg.1_Silent_p.D91D|RBMX_uc004faf.1_5'UTR|RBMX_uc010nsf.1_Silent_p.D91D|RBMX_uc004fag.1_Silent_p.D2D	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	130						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					ATCCACCGTCATCTGCATCAA	0.318													18	69					0	0	1	0	0		G	135958813	G	G	135958813	2	3	122	1	0	0	0	0	0	0	0	1	13176	231	8	3		3	RBMX	23	135958813	Silent	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	30768926	135958813	19311747	1057	68060											
MAGEC1	9947	broad.mit.edu	37	chrX	140994236	140994236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctcctccttctcctctaCtttattgagtattttccaga	7	17	4	13	0	2	2	0	1	2	1	6	3	5	2	5	0	1	1	5	0	3	8			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrX:140994236C>T	uc004fbt.2	+	4	1332	c.1046C>T	c.(1045-1047)ACT>ATT	p.T349I	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	349							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TTCTCCTCTACTTTATTGAGT	0.478										HNSCC(15;0.026)			42	127					0	0	1	0	0		T	140994236	T	T	140994236	3	4	122	1	0	0	0	0	1	0	0	0	9198	565	20	4	1052	4	MAGEC1	23	140994236	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	5035423	140994236	14276324	1058	68061											
RPS4Y1	6192	broad.mit.edu	37	chrY	2713761	2713761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggccgttttgctgttcacCgcatcacagtggaagaggca	9	9	13	10	2	2	1	2	0	0	1	2	2	2	2	2	3	1	5	2	3	1	3			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrY:2713761C>T	uc004fqi.2	+	4	380	c.337C>T	c.(337-339)CGC>TGC	p.R113C		NM_001008	NP_000999	P22090	RS4Y1_HUMAN	ribosomal protein S4, Y-linked 1 Y isoform	113					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|polysome	rRNA binding|structural constituent of ribosome				0						TGCTGTTCACCGCATCACAGT	0.458													6	21					0	0	1	0	0		T	2713761	T	T	2713761	3	4	122	1	0	0	0	0	1	0	0	0	13671	652	23	1	351	1	RPS4Y1	24	2713761	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08		2713761	56659805	1059	68062											
TBL1Y	90665	broad.mit.edu	37	chrY	6954381	6954381	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgatcttcaggctcacagCaaagagatctacaccatcaa	15	7	6	13	1	5	1	3	0	2	1	5	3	5	1	1	1	2	2	1	1	3	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrY:6954381C>A	uc004frb.2	+	16	1850	c.1203C>A	c.(1201-1203)AGC>AGA	p.S401R	TBL1Y_uc004frc.2_Missense_Mutation_p.S401R|TBL1Y_uc004frd.2_Missense_Mutation_p.S401R|TBL1Y_uc011nap.1_Missense_Mutation_p.S243R	NM_033284	NP_150600	Q9BQ87	TBL1Y_HUMAN	transducin beta-like 1Y	401	WD 6.				transcription, DNA-dependent						0						AGGCTCACAGCAAAGAGATCT	0.562													10	12					0.00621372	0.00637863	1	1	0		A	6954381	A	A	6954381	3	1	122	1	0	0	0	0	1	0	0	0	15666	709	25	5	1245	5	TBL1Y	24	6954381	Missense_Mutation	SNP	C	TCGA-CD-A4MI-01A-21D-A25D-08	4240620	6954381	52419185	1060	68063											
KDM5D	8284	broad.mit.edu	37	chrY	21869171	21869171	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcgcaacagagcagtcacAtcttcagaggccagagcctt	11	8	10	12	1	3	3	2	0	1	3	4	3	3	3	2	1	3	2	2	1	1	2			TCGA-CD-A4MI-01A-21D-A25D-08	TCGA-CD-A4MI-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ae40034-9f70-4e54-9cb6-9cc245d004fa	09571074-d3af-4948-af81-67e8e6a02f50	g.chrY:21869171A>T	uc004fug.2	-	24	4149	c.3861T>A	c.(3859-3861)GAT>GAA	p.D1287E	KDM5D_uc011naz.1_Missense_Mutation_p.D1318E|KDM5D_uc010nwy.2_Missense_Mutation_p.D1230E|KDM5D_uc004fuf.2_Missense_Mutation_p.D462E	NM_004653	NP_004644	Q9BY66	KDM5D_HUMAN	jumonji, AT rich interactive domain 1D isoform	1287					chromatin modification|spermatogenesis	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1					Vitamin C(DB00126)	GAGCAGTCACATCTTCAGAGG	0.612													5	10					0	0	1	0	0		T	21869171	T	T	21869171	3	4	122	1	0	0	0	0	1	0	0	0	8152	214	8	5	774	5	KDM5D	24	21869171	Missense_Mutation	SNP	A	TCGA-CD-A4MI-01A-21D-A25D-08	14914790	21869171	37504395	1061	68064											
TNFRSF4	7293	broad.mit.edu	37	chr1	1147466	1147466	+	Missense_Mutation	SNP	C	T	T																															gtccctgtcctcacagattgCgtccgagctattgctggccg																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:1147466C>T	uc001ade.2	-	5	495	c.490G>A	c.(490-492)GCA>ACA	p.A164T	TNFRSF4_uc001adf.2_Missense_Mutation_p.A168T	NM_003327	NP_003318	P43489	TNR4_HUMAN	tumor necrosis factor receptor superfamily,	164	TNFR-Cys 4.|Extracellular (Potential).				immune response|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of immunoglobulin secretion|T cell proliferation	integral to plasma membrane	tumor necrosis factor receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;3.73e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.01e-21)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;4.22e-05)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		TCACAGATTGCGTCCGAGCTA	0.677													16	23					0	0	0.007413	0	0		T	1147466	T	T	1147466	3	4	123	1	0	0	0	0	1	0	0	0	16322	768	27	1	355	1	TNFRSF4	1	1147466	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08		1147466	248103155	1	68065	126	2									
TNFRSF4	7293	broad.mit.edu	37	chr1	1147469	1147469	+	Missense_Mutation	SNP	C	T	T																															cctgtcctcacagattgcgtCcgagctattgctggccggct																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:1147469C>T	uc001ade.2	-	5	492	c.487G>A	c.(487-489)GAC>AAC	p.D163N	TNFRSF4_uc001adf.2_Missense_Mutation_p.D167N	NM_003327	NP_003318	P43489	TNR4_HUMAN	tumor necrosis factor receptor superfamily,	163	TNFR-Cys 4.|Extracellular (Potential).				immune response|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of immunoglobulin secretion|T cell proliferation	integral to plasma membrane	tumor necrosis factor receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;3.73e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.01e-21)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;4.22e-05)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CAGATTGCGTCCGAGCTATTG	0.682													14	25					0	0	0.00499	0	0		T	1147469	T	T	1147469	3	4	123	1	0	0	0	0	1	0	0	0	16322	855	30	4	358	4	TNFRSF4	1	1147469	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3	1147469	248103152	2	68066	126	2									
TP73	7161	broad.mit.edu	37	chr1	3624162	3624162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccagatgagcagccgcgCggcctcggccagcccctaca	8	3	13	17	4	0	2	0	1	0	1	1	3	0	3	6	3	4	1	6	3	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:3624162C>T	uc001akp.2	+	4	346	c.236C>T	c.(235-237)GCG>GTG	p.A79V	TP73_uc001akq.2_Missense_Mutation_p.A79V|TP73_uc010nzj.1_Missense_Mutation_p.A30V|TP73_uc001akr.2_Missense_Mutation_p.A30V|TP73_uc009vlk.1_Missense_Mutation_p.A30V|TP73_uc001aks.2_Missense_Mutation_p.A30V|TP73_uc009vll.2_Missense_Mutation_p.A8V|TP73_uc010nzk.1_Missense_Mutation_p.A8V	NM_005427	NP_005418	O15350	P73_HUMAN	tumor protein p73 isoform a	79					cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mismatch repair|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of JUN kinase activity|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|protein tetramerization|response to gamma radiation|response to X-ray	chromatin|cytosol|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|metal ion binding|p53 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|transcription repressor activity			ovary(1)|lung(1)	2	all_cancers(77;0.0395)|Ovarian(185;0.0634)|Lung NSC(156;0.188)|all_lung(157;0.198)	all_epithelial(116;7.42e-17)|all_lung(118;1.86e-06)|Lung NSC(185;0.000163)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.109)|Ovarian(437;0.127)		Epithelial(90;5.57e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.87e-22)|GBM - Glioblastoma multiforme(42;5.72e-16)|Colorectal(212;2.22e-05)|COAD - Colon adenocarcinoma(227;8.48e-05)|Kidney(185;0.000539)|BRCA - Breast invasive adenocarcinoma(365;0.000868)|STAD - Stomach adenocarcinoma(132;0.0072)|KIRC - Kidney renal clear cell carcinoma(229;0.00751)|Lung(427;0.226)		AGCAGCCGCGCGGCCTCGGCC	0.677													47	76					0	0	0.01441	0	0		T	3624162	T	T	3624162	3	4	123	1	0	0	0	0	1	0	0	0	16419	768	27	1	289	1	TP73	1	3624162	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2476693	3624162	245626459	3	68067											
TP73	7161	broad.mit.edu	37	chr1	3638722	3638722	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcggagcacgtgaccgaCgtcgtgaaacgctgccccaa	12	4	12	13	6	0	2	0	2	0	0	1	4	0	3	3	1	4	2	3	1	3	0	rs142165895	byFrequency	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:3638722C>T	uc001akp.2	+	5	677	c.567C>T	c.(565-567)GAC>GAT	p.D189D	TP73_uc001akq.2_Silent_p.D189D|TP73_uc010nzj.1_Silent_p.D140D|TP73_uc001akr.2_Silent_p.D140D|TP73_uc009vlk.1_Silent_p.D140D|TP73_uc001aks.2_Silent_p.D140D|TP73_uc010nzk.1_Silent_p.D118D	NM_005427	NP_005418	O15350	P73_HUMAN	tumor protein p73 isoform a	189	DNA-binding (Potential).				cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mismatch repair|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of JUN kinase activity|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|protein tetramerization|response to gamma radiation|response to X-ray	chromatin|cytosol|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|metal ion binding|p53 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|transcription repressor activity			ovary(1)|lung(1)	2	all_cancers(77;0.0395)|Ovarian(185;0.0634)|Lung NSC(156;0.188)|all_lung(157;0.198)	all_epithelial(116;7.42e-17)|all_lung(118;1.86e-06)|Lung NSC(185;0.000163)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.109)|Ovarian(437;0.127)		Epithelial(90;5.57e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.87e-22)|GBM - Glioblastoma multiforme(42;5.72e-16)|Colorectal(212;2.22e-05)|COAD - Colon adenocarcinoma(227;8.48e-05)|Kidney(185;0.000539)|BRCA - Breast invasive adenocarcinoma(365;0.000868)|STAD - Stomach adenocarcinoma(132;0.0072)|KIRC - Kidney renal clear cell carcinoma(229;0.00751)|Lung(427;0.226)		ACGTGACCGACGTCGTGAAAC	0.647													12	50					0	0	0.010729	0	0		T	3638722	T	T	3638722	2	4	123	1	0	0	0	0	0	0	0	1	16419	535	19	1		1	TP73	1	3638722	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	14560	3638722	245611899	4	68068											
CLSTN1	22883	broad.mit.edu	37	chr1	9804682	9804682	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcggggatggcagcagctcGgcagtgcccgcggccgcacc	5	4	16	16	5	0	0	0	0	0	0	2	1	0	1	3	5	3	5	3	5	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:9804682G>A	uc001aqh.2	-	8	1764	c.1005C>T	c.(1003-1005)GCC>GCT	p.A335A	CLSTN1_uc001aqi.2_Silent_p.A325A|CLSTN1_uc010oag.1_Silent_p.A335A	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	335	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		GCAGCAGCTCGGCAGTGCCCG	0.647													10	15					0	0	0.016723	0	0		A	9804682	A	A	9804682	2	1	123	1	0	0	0	0	0	0	0	1	3564	1103	39	1		1	CLSTN1	1	9804682	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	6165960	9804682	239445939	5	68069											
MTOR	2475	broad.mit.edu	37	chr1	11303205	11303205	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgggggcagggccgctcGgatgatgtccagcacgcgag	6	7	17	11	4	0	1	0	1	0	0	2	3	1	2	2	4	1	3	2	4	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:11303205G>A	uc001asd.2	-	9	1499	c.1378C>T	c.(1378-1380)CGA>TGA	p.R460*		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	460					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						AGGGCCGCTCGGATGATGTCC	0.537													33	64					0	0	0.013726	0	0		A	11303205	A	A	11303205	4	1	123	1	0	0	0	0	0	1	0	0	9972	1124	39	1	6471	1	MTOR	1	11303205	Nonsense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1498523	11303205	237947416	6	68070											
SPEN	23013	broad.mit.edu	37	chr1	16258616	16258616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagacacgccggcgagccGatgaagaggaggagaacgag	15	1	16	9	5	0	4	0	1	0	3	0	9	0	5	2	3	2	0	2	3	3	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:16258616G>A	uc001axk.1	+	11	6085	c.5881G>A	c.(5881-5883)GAT>AAT	p.D1961N	SPEN_uc010obp.1_Missense_Mutation_p.D1920N	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1961					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CCGGCGAGCCGATGAAGAGGA	0.607													34	41					0	0	0.017118	0	0		A	16258616	A	A	16258616	3	1	123	1	0	0	0	0	1	0	0	0	15063	1058	37	1	5923	1	SPEN	1	16258616	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4955411	16258616	232992005	7	68071											
ZBTB17	7709	broad.mit.edu	37	chr1	16272679	16272679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actctgggcctgaccgccgcGctcctccttgaggtccctgc	3	9	11	18	3	1	2	0	2	1	0	4	2	4	2	6	2	1	1	6	2	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:16272679G>A	uc001axl.3	-	5	744	c.505C>T	c.(505-507)CGC>TGC	p.R169C	ZBTB17_uc010obq.1_Missense_Mutation_p.R86C|ZBTB17_uc010obr.1_Missense_Mutation_p.R169C|ZBTB17_uc010obs.1_Missense_Mutation_p.R93C|ZBTB17_uc010obt.1_Missense_Mutation_p.R106C|ZBTB17_uc010obu.1_Missense_Mutation_p.R93C|ZBTB17_uc009vom.1_Missense_Mutation_p.R112C|ZBTB17_uc010obv.1_Missense_Mutation_p.R169C	NM_003443	NP_003434	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17	169					negative regulation of cell cycle	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		TGACCGCCGCGCTCCTCCTTG	0.672													33	124					0	0	0.017118	0	0		A	16272679	A	A	16272679	3	1	123	1	0	0	0	0	1	0	0	0	17552	1087	38	1	1954	1	ZBTB17	1	16272679	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	14063	16272679	232977942	8	68072											
CROCC	9696	broad.mit.edu	37	chr1	17272839	17272839	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggactccctgtccaagcTgagcgccctcaacgagagcc	9	5	11	16	2	1	2	1	1	0	1	3	4	3	3	4	1	4	2	4	1	2	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:17272839T>G	uc001azt.2	+	16	2291	c.2222T>G	c.(2221-2223)CTG>CGG	p.L741R	CROCC_uc009voz.1_Missense_Mutation_p.L504R|CROCC_uc001azu.2_Missense_Mutation_p.L44R	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	741	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		CTGTCCAAGCTGAGCGCCCTC	0.662													23	133					0	0	0.016522	0	0		G	17272839	G	G	17272839	3	3	123	1	0	0	0	0	1	0	0	0	3896	1580	55	5	2284	5	CROCC	1	17272839	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1000160	17272839	231977782	9	68073											
DDOST	1650	broad.mit.edu	37	chr1	20987823	20987823	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caaaagagggcccaagcccgGgccgcggtgctgggctccat	8	4	15	14	3	0	1	0	0	0	1	1	1	1	1	4	4	2	2	4	4	3	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:20987823G>A	uc001bdo.1	-	1	215	c.72C>T	c.(70-72)GCC>GCT	p.A24A	DDOST_uc009vpw.1_Silent_p.A24A|DDOST_uc010odd.1_5'UTR|DDOST_uc010ode.1_Silent_p.A24A	NM_005216	NP_005207	P39656	OST48_HUMAN	dolichyl-diphosphooligosaccharide-protein	24					innate immune response|post-translational protein modification|response to cytokine stimulus|T cell activation	integral to membrane|microsome|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding				0		all_lung(284;2.98e-05)|Lung NSC(340;3.25e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(152;1.17e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000141)|Kidney(64;0.000177)|GBM - Glioblastoma multiforme(114;0.00046)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CCCAAGCCCGGGCCGCGGTGC	0.667											OREG0013196	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	24					0	0	0.024245	0	0		A	20987823	A	A	20987823	2	1	123	1	0	0	0	0	0	0	0	1	4338	1219	43	4		4	DDOST	1	20987823	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3714984	20987823	228262798	10	68074											
HSPG2	3339	broad.mit.edu	37	chr1	22170713	22170713	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcctgcccgggcaccacGcacttcagatccagggtctg	6	7	13	15	2	2	1	1	0	1	1	3	1	3	1	4	3	1	2	4	3	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:22170713G>A	uc001bfj.2	-	65	8584	c.8544C>T	c.(8542-8544)TGC>TGT	p.C2848C	HSPG2_uc009vqd.2_Silent_p.C2849C	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2848	Ig-like C2-type 14.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CGGGCACCACGCACTTCAGAT	0.672													36	75					0	0	0.00874	0	0		A	22170713	A	A	22170713	2	1	123	1	0	0	0	0	0	0	0	1	7446	1079	38	1		1	HSPG2	1	22170713	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1182890	22170713	227079908	11	68075											
ARID1A	8289	broad.mit.edu	37	chr1	27106973	27106973	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggcagtatcggcaaccTcctgggcttcctagaggaca	10	7	13	11	1	0	1	0	0	0	1	3	3	2	2	3	4	1	4	3	4	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:27106973T>C	uc001bmv.1	+	20	6957	c.6584T>C	c.(6583-6585)CTC>CCC	p.L2195P	ARID1A_uc001bmu.1_Missense_Mutation_p.L1978P|ARID1A_uc001bmx.1_Missense_Mutation_p.L1041P|ARID1A_uc009vsm.1_Missense_Mutation_p.L523P|ARID1A_uc009vsn.1_Missense_Mutation_p.L437P	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2195					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		ATCGGCAACCTCCTGGGCTTC	0.622			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								23	76					0	0	0.01892	0	0		C	27106973	C	C	27106973	3	2	123	1	0	0	0	0	1	0	0	0	913	1551	54	3	6662	3	ARID1A	1	27106973	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	4936260	27106973	222143648	12	68076											
SLC9A1	6548	broad.mit.edu	37	chr1	27429016	27429016	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcgccagctatcagacaCttcttcacatatttcttatt	9	15	4	13	2	4	1	2	0	2	1	5	1	4	1	1	0	1	2	1	0	3	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:27429016C>G	uc001bnm.2	-	8	2306	c.1680G>C	c.(1678-1680)AAG>AAC	p.K560N	SLC9A1_uc001bnl.2_Missense_Mutation_p.K64N|SLC9A1_uc010ofk.1_Missense_Mutation_p.K221N	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	560	Cytoplasmic (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	CTATCAGACACTTCTTCACAT	0.587											OREG0013277	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	40	114					0	0	0.009718	0	0		G	27429016	G	G	27429016	3	3	123	1	0	0	0	0	1	0	0	0	14734	564	20	5	787	5	SLC9A1	1	27429016	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	322043	27429016	221821605	13	68077											
LAPTM5	7805	broad.mit.edu	37	chr1	31208028	31208028	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccacactcaccttctggaGcatcttggagtttctcttct	7	14	7	13	0	5	0	1	0	4	0	6	2	5	2	2	2	2	2	2	2	0	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:31208028G>T	uc001bsc.2	-	7	782	c.691C>A	c.(691-693)CTC>ATC	p.L231I		NM_006762	NP_006753	Q13571	LAPM5_HUMAN	lysosomal protein transmembrane 5	231					transport	integral to plasma membrane|lysosomal membrane					0		Colorectal(325;0.0199)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0966)|Medulloblastoma(700;0.151)|Ovarian(437;0.192)		STAD - Stomach adenocarcinoma(196;0.0196)|READ - Rectum adenocarcinoma(331;0.0649)		ACCTTCTGGAGCATCTTGGAG	0.338													24	214					9.65021e-13	1.03783e-12	0.010818	1	0		T	31208028	T	T	31208028	3	4	123	1	0	0	0	0	1	0	0	0	8642	971	34	5	105	5	LAPTM5	1	31208028	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3779012	31208028	218042593	14	68078											
COL16A1	1307	broad.mit.edu	37	chr1	32119209	32119209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatttcctacctggggggcCgggaagaccattttctcctg	6	12	12	11	1	1	1	0	0	1	1	3	2	2	2	5	4	1	1	5	4	3	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:32119209C>T	uc001btk.1	-	70	4968	c.4603G>A	c.(4603-4605)GGC>AGC	p.G1535S	COL16A1_uc001bti.1_Missense_Mutation_p.G149S|COL16A1_uc001btj.1_Missense_Mutation_p.G1333S	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	1535	Triple-helical region 1 (COL1) with 2 imperfections.				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		CCTGGGGGGCCGGGAAGACCA	0.458													10	31					0	0	0.013537	0	0		T	32119209	T	T	32119209	3	4	123	1	0	0	0	0	1	0	0	0	3676	652	23	1	219	1	COL16A1	1	32119209	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	911181	32119209	217131412	15	68079											
MAP7D1	55700	broad.mit.edu	37	chr1	36643530	36643530	+	Frame_Shift_Del	DEL	C	-	-																															atcctggcacaggcctgcctCcccctgccccagcccagggc																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:36643530delC	uc001bzz.2	+	9	1652	c.1436delC	c.(1435-1437)TCCfs	p.S479fs	MAP7D1_uc001caa.2_Frame_Shift_Del_p.S447fs|MAP7D1_uc001cab.2_Frame_Shift_Del_p.S442fs|MAP7D1_uc001cac.2_Frame_Shift_Del_p.S179fs|MAP7D1_uc001cad.2_Frame_Shift_Del_p.S25fs	NM_018067	NP_060537	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	479	Pro-rich.					cytoplasm|spindle				ovary(3)|breast(2)	5		Myeloproliferative disorder(586;0.0393)				AGGCCTGCCTCCCCCTGCCCC	0.647													46	79	---	---	---	---						.	-	36643530	-	-	36643530	7	5	123	1	0	1	0	1	0	0	0	0	9285	855	30	0	1470	0	MAP7D1	1	36643530	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08	4524321	36643530	212607091	16	68080											
MACF1	23499	broad.mit.edu	37	chr1	39927669	39927669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcatcccaacaaggatgCgtatcgaccaacaaccgatg	13	8	7	13	3	2	0	1	0	1	0	4	3	3	1	3	1	4	1	3	1	5	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:39927669C>T	uc010oiu.1	+	58	17098	c.16967C>T	c.(16966-16968)GCG>GTG	p.A5656V	MACF1_uc010ois.1_Missense_Mutation_p.A5154V|MACF1_uc001cde.1_Missense_Mutation_p.A31V|MACF1_uc001cdf.1_Missense_Mutation_p.A31V	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7112	EF-hand 2.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AACAAGGATGCGTATCGACCA	0.398													36	101					0	0	0.025465	0	0		T	39927669	T	T	39927669	3	4	123	1	0	0	0	0	1	0	0	0	9162	768	27	1	21966	1	MACF1	1	39927669	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3284139	39927669	209322952	17	68081											
MFSD2A	84879	broad.mit.edu	37	chr1	40433330	40433330	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaaccattcccatctggCagtggttcttgacccggttt	6	15	8	12	1	2	1	0	1	2	0	3	1	3	1	3	3	1	3	3	3	1	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:40433330C>T	uc001cev.2	+	10	1262	c.1081C>T	c.(1081-1083)CAG>TAG	p.Q361*	MFSD2A_uc010ojb.1_Nonsense_Mutation_p.Q309*|MFSD2A_uc001ceu.2_Nonsense_Mutation_p.Q348*|MFSD2A_uc010ojc.1_Nonsense_Mutation_p.Q192*|MFSD2A_uc009vvy.2_Intron|MFSD2A_uc001cex.2_Nonsense_Mutation_p.Q12*	NM_001136493	NP_001129965	Q8NA29	MFS2A_HUMAN	major facilitator superfamily domain containing	361	Helical; (Potential).				transmembrane transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)|pancreas(1)	2						TCCCATCTGGCAGTGGTTCTT	0.542													14	105					0	0	0.028581	0	0		T	40433330	T	T	40433330	4	4	123	1	0	0	0	0	0	1	0	0	9548	711	25	2	1119	2	MFSD2A	1	40433330	Nonsense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	505661	40433330	208817291	18	68082											
TMEM125	128218	broad.mit.edu	37	chr1	43738892	43738892	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttgctgctgggcctgctgCtgtatcaagtgggtgtgagc	4	14	15	8	0	1	1	1	1	0	0	1	1	1	1	1	2	5	5	1	2	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:43738892C>T	uc001cir.2	+	4	1069	c.499C>T	c.(499-501)CTG>TTG	p.L167L	EBNA1BP2_uc001cio.2_5'Flank|TMEM125_uc001cis.2_Silent_p.L167L	NM_144626	NP_653227	Q96AQ2	TM125_HUMAN	transmembrane protein 125	167	Helical; (Potential).					integral to membrane				breast(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GGGCCTGCTGCTGTATCAAGT	0.662													19	36					0	0	0.014323	0	0		T	43738892	T	T	43738892	2	4	123	1	0	0	0	0	0	0	0	1	16062	796	28	2		2	TMEM125	1	43738892	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3305562	43738892	205511729	19	68083											
KIAA0467	23334	broad.mit.edu	37	chr1	43885552	43885552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtctgactgtctaccacCgggcatttctcctctattcc	5	14	8	14	1	4	1	0	1	4	0	6	1	5	1	4	2	1	1	4	2	2	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:43885552C>T	uc009vws.1	+	8	1111	c.1027C>T	c.(1027-1029)CGG>TGG	p.R343W				Q5T011	SZT2_HUMAN	Homo sapiens mRNA for KIAA0467 protein, partial cds.	343						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGTCTACCACCGGGCATTTCT	0.542													36	102					0	0	0.00874	0	0		T	43885552	T	T	43885552	3	4	123	1	0	0	0	0	1	0	0	0	8194	667	23	1		1	KIAA0467	1	43885552	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	146660	43885552	205365069	20	68084											
KIAA0467	23334	broad.mit.edu	37	chr1	43895376	43895376	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttaccccaaccattcagcaTagagaccgaggacctaagcg	13	6	8	14	2	1	1	1	0	0	1	1	4	1	2	5	1	4	1	5	1	4	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:43895376T>C	uc001cjk.1	+	14	1934	c.1472T>C	c.(1471-1473)ATA>ACA	p.I491T		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1390						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCATTCAGCATAGAGACCGAG	0.537													30	67					0	0	0.009535	0	0		C	43895376	C	C	43895376	3	2	123	1	0	0	0	0	1	0	0	0	8194	1406	49	3	1518	3	KIAA0467	1	43895376	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	9824	43895376	205355245	21	68085											
KIAA0467	23334	broad.mit.edu	37	chr1	43916076	43916076	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcgagagcccccctgcccaActggtctccacctaccacca	9	5	7	20	1	1	1	0	0	1	1	2	2	1	1	8	1	5	0	8	1	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:43916076A>G	uc001cjk.1	+	57	7989	c.7527A>G	c.(7525-7527)CAA>CAG	p.Q2509Q	KIAA0467_uc001cjl.1_Silent_p.Q497Q	NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	3408						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCCCTGCCCAACTGGTCTCCA	0.602													8	159					0	0	0.004482	0	0		G	43916076	G	G	43916076	2	3	123	1	0	0	0	0	0	0	0	1	8194	40	2	3		3	KIAA0467	1	43916076	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	20700	43916076	205334545	22	68086											
LRRC41	10489	broad.mit.edu	37	chr1	46768845	46768845	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcgctcaccgcccgcccGcacagctcgaacagggcggg	6	3	15	17	6	1	0	1	0	0	0	2	1	1	0	3	3	2	3	3	3	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:46768845G>A	uc001cpn.2	-	1	194	c.150C>T	c.(148-150)TGC>TGT	p.C50C	LRRC41_uc010omb.1_Silent_p.C50C|LRRC41_uc001cpo.1_Silent_p.C50C|UQCRH_uc001cpp.2_5'Flank|UQCRH_uc001cpq.2_5'Flank	NM_006369	NP_006360	Q15345	LRC41_HUMAN	MUF1 protein	50	Interaction with Elongin BC complex (By similarity).									ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(166;0.155)					CCGCCCGCCCGCACAGCTCGA	0.672													3	7					0	0	0.004672	0	0		A	46768845	A	A	46768845	2	1	123	1	0	0	0	0	0	0	0	1	9017	1079	38	1		1	LRRC41	1	46768845	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2852769	46768845	202481776	23	68087											
NRD1	4898	broad.mit.edu	37	chr1	52257768	52257768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaacaaggttcttccatgtgCatctgtaattcaacatactg	13	13	6	9	0	3	0	1	0	2	0	4	0	4	0	1	1	4	3	1	1	5	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:52257768C>T	uc001ctc.3	-	28	3352	c.3030G>A	c.(3028-3030)ATG>ATA	p.M1010I	NRD1_uc009vzb.2_Missense_Mutation_p.M705I|NRD1_uc001ctd.3_Missense_Mutation_p.M942I|NRD1_uc001cte.2_Missense_Mutation_p.M878I|NRD1_uc001ctf.2_Missense_Mutation_p.M942I	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	941					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						CTTCCATGTGCATCTGTAATT	0.512													14	37					0	0	0.016723	0	0		T	52257768	T	T	52257768	3	4	123	1	0	0	0	0	1	0	0	0	10664	710	25	2	653	2	NRD1	1	52257768	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	5488923	52257768	196992853	24	68088											
BSND	7809	broad.mit.edu	37	chr1	55472890	55472890	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggctgccgtggtcatcCacaagggctcagacgagagt	9	7	15	10	2	2	2	2	0	0	2	3	4	3	3	2	4	1	2	2	4	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:55472890C>A	uc001cye.2	+	3	736	c.493C>A	c.(493-495)CAC>AAC	p.H165N		NM_057176	NP_476517	Q8WZ55	BSND_HUMAN	barttin	165	Cytoplasmic (Potential).					basolateral plasma membrane|cytoplasm|integral to plasma membrane|protein complex				ovary(1)|skin(1)	2						CGTGGTCATCCACAAGGGCTC	0.632													18	58					8.10497e-08	8.42964e-08	0.010504	1	0		A	55472890	A	A	55472890	3	1	123	1	0	0	0	0	1	0	0	0	1534	594	21	5	503	5	BSND	1	55472890	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3215122	55472890	193777731	25	68089											
ATG4C	84938	broad.mit.edu	37	chr1	63299738	63299738	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcctggaatattgtgtgggTattattggtggcaaacctaa	11	13	12	5	0	0	0	0	0	0	0	0	1	0	1	2	4	2	2	2	4	6	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:63299738T>C	uc001dat.2	+	8	1125	c.963T>C	c.(961-963)GGT>GGC	p.G321G	ATG4C_uc001dau.2_Silent_p.G321G	NM_178221	NP_835739	Q96DT6	ATG4C_HUMAN	APG4 autophagy 4 homolog C isoform 8	321					autophagic vacuole assembly|protein targeting to membrane|proteolysis	cytosol|extracellular region	cysteine-type endopeptidase activity			ovary(1)	1						ATTGTGTGGGTATTATTGGTG	0.299													10	103					0	0	0.010729	0	0		C	63299738	C	C	63299738	2	2	123	1	0	0	0	0	0	0	0	1	1099	1625	57	3		3	ATG4C	1	63299738	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	7826848	63299738	185950883	26	68090											
CACHD1	57685	broad.mit.edu	37	chr1	65107593	65107593	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcgactctccaagtcatcaAtgaagaaaatagctttctaa	16	10	6	9	1	4	2	2	1	2	1	5	3	4	2	1	0	2	1	1	0	7	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:65107593A>G	uc001dbo.1	+	8	1049	c.944A>G	c.(943-945)AAT>AGT	p.N315S	CACHD1_uc001dbp.1_Missense_Mutation_p.N70S|CACHD1_uc001dbq.1_Missense_Mutation_p.N70S	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	366	Extracellular (Potential).|VWFA.				calcium ion transport	integral to membrane				ovary(2)	2						CAAGTCATCAATGAAGAAAAT	0.378													29	50					0	0	0.010818	0	0		G	65107593	G	G	65107593	3	3	123	1	0	0	0	0	1	0	0	0	2540	101	4	3	974	3	CACHD1	1	65107593	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	1807855	65107593	184143028	27	68091											
SGIP1	84251	broad.mit.edu	37	chr1	67147853	67147853	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcgcaatgtactatcGccgctcaatttagaagaagt	11	11	7	12	3	1	2	1	0	0	2	4	2	2	2	3	0	1	3	3	0	7	4	rs139355833		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:67147853G>A	uc001dcr.2	+	15	1333	c.1116G>A	c.(1114-1116)TCG>TCA	p.S372S	SGIP1_uc010opd.1_Intron|SGIP1_uc001dcs.2_Intron|SGIP1_uc001dct.2_Intron|SGIP1_uc009wat.2_Silent_p.S139S	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	372	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						ATGTACTATCGCCGCTCAATT	0.542													46	127					0	0	0.01441	0	0		A	67147853	A	A	67147853	2	1	123	1	0	0	0	0	0	0	0	1	14231	1074	38	1		1	SGIP1	1	67147853	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2040260	67147853	182102768	28	68092											
IL12RB2	3595	broad.mit.edu	37	chr1	67838168	67838168	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccgtgtgtatgcactctcAggggatcaaggaggatgcag	10	9	14	8	1	2	0	2	0	1	0	4	3	3	3	1	4	2	3	1	4	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:67838168A>G	uc001ddu.2	+	11	2149	c.1509A>G	c.(1507-1509)TCA>TCG	p.S503S	IL12RB2_uc010oqi.1_Silent_p.S503S|IL12RB2_uc010oqj.1_Silent_p.S503S|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Intron|IL12RB2_uc010oqm.1_Silent_p.S503S|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	503	Fibronectin type-III 4.|Extracellular (Potential).				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						ATGCACTCTCAGGGGATCAAG	0.428													33	74					0	0	0.023175	0	0		G	67838168	G	G	67838168	2	3	123	1	0	0	0	0	0	0	0	1	7643	175	7	3		3	IL12RB2	1	67838168	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	690315	67838168	181412453	29	68093											
LRRC7	57554	broad.mit.edu	37	chr1	70501850	70501850	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaggattggggaacttcAcccttcattagctgagaccc	11	10	10	10	0	2	2	2	2	0	1	2	5	2	4	2	3	2	1	2	3	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:70501850A>G	uc001dep.2	+	17	1958	c.1928A>G	c.(1927-1929)CAC>CGC	p.H643R	LRRC7_uc009wbg.2_Intron|LRRC7_uc001deq.2_5'Flank	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	643						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GGGGAACTTCACCCTTCATTA	0.393													6	70					0	0	0.021553	0	0		G	70501850	G	G	70501850	3	3	123	1	0	0	0	0	1	0	0	0	9038	159	6	3	1994	3	LRRC7	1	70501850	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	2663682	70501850	178748771	30	68094											
ZRANB2	9406	broad.mit.edu	37	chr1	71534974	71534974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccttgatttcgacccaCgagatctcgaacgttctctg	8	13	7	13	4	3	2	1	1	2	1	6	5	3	2	2	0	1	1	2	0	1	4	rs144217678		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:71534974C>T	uc001dft.2	-	8	822	c.755G>A	c.(754-756)CGT>CAT	p.R252H	ZRANB2_uc001dfs.2_Missense_Mutation_p.R252H|uc010oqr.1_5'Flank|MIR186_hsa-mir-186|MI0000483_5'Flank	NM_203350	NP_976225	O95218	ZRAB2_HUMAN	zinc finger protein 265 isoform 1	252	Arg/Ser-rich.|Required for nuclear targeting.				mRNA processing|RNA splicing	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						TTTCGACCCACGAGATCTCGA	0.423													19	44					0	0	0.012319	0	0		T	71534974	T	T	71534974	3	4	123	1	0	0	0	0	1	0	0	0	18248	536	19	1	287	1	ZRANB2	1	71534974	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1033124	71534974	177715647	31	68095											
AK5	26289	broad.mit.edu	37	chr1	77883388	77883388	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcattgatacaggatctgaTtatgaagatcaggtaattaa	16	13	8	4	0	3	4	2	3	1	1	3	5	3	5	0	2	1	1	0	2	5	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:77883388T>C	uc001dhn.2	+	8	1304	c.1047T>C	c.(1045-1047)GAT>GAC	p.D349D	AK5_uc001dho.2_Silent_p.D323D	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	349					ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						CAGGATCTGATTATGAAGATC	0.299													5	38					0	0	0.021553	0	0		C	77883388	C	C	77883388	2	2	123	1	0	0	0	0	0	0	0	1	443	1490	52	3		3	AK5	1	77883388	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	6348414	77883388	171367233	32	68096											
WDR63	126820	broad.mit.edu	37	chr1	85551643	85551643	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagataaaaattttacccttAaacaacttgaaaaagatgtt	19	12	4	6	0	0	3	0	1	0	2	0	3	0	3	1	0	3	1	1	0	9	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:85551643A>G	uc001dkt.2	+	7	861	c.670A>G	c.(670-672)AAA>GAA	p.K224E	WDR63_uc009wcl.2_Missense_Mutation_p.K224E	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	224										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		TTTTACCCTTAAACAACTTGA	0.358													16	43					0	0	0.028581	0	0		G	85551643	G	G	85551643	3	3	123	1	0	0	0	0	1	0	0	0	17340	363	13	3	692	3	WDR63	1	85551643	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	7668255	85551643	163698978	33	68097											
GBP6	163351	broad.mit.edu	37	chr1	89849839	89849839	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attatgatgttggagcacacGcagaaggtaagtctgccctt	11	11	11	8	1	1	2	0	1	1	1	1	3	1	3	1	2	2	4	1	2	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:89849839G>A	uc001dnf.2	+	10	1930	c.1656G>A	c.(1654-1656)ACG>ACA	p.T552T	GBP6_uc010ost.1_Silent_p.T422T	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	552							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		TGGAGCACACGCAGAAGGTAA	0.512													6	12					0	0	0.021553	0	0		A	89849839	A	A	89849839	2	1	123	1	0	0	0	0	0	0	0	1	6293	1074	38	1		1	GBP6	1	89849839	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4298196	89849839	159400782	34	68098											
LRRC8D	55144	broad.mit.edu	37	chr1	90399383	90399383	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccagtgccagtacaccAatgatcaataaaactggctt	14	8	7	12	0	1	1	1	1	0	0	1	1	1	1	4	1	4	2	4	1	5	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:90399383A>G	uc001dnm.2	+	3	1181	c.756A>G	c.(754-756)CCA>CCG	p.P252P	LRRC8D_uc001dnn.2_Silent_p.P252P	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	252						integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		CCAGTACACCAATGATCAATA	0.453													5	26					0	0	0.001984	0	0		G	90399383	G	G	90399383	2	3	123	1	0	0	0	0	0	0	0	1	9042	117	5	3		3	LRRC8D	1	90399383	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	549544	90399383	158851238	35	68099											
KIAA1324	57535	broad.mit.edu	37	chr1	109735346	109735346	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagaagcctctgatgtgggCtcctcctgcacctcttgtcc	5	12	9	15	0	2	2	0	1	2	1	5	2	5	2	5	1	2	2	5	1	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:109735346C>A	uc001dwq.2	+	15	1933	c.1797C>A	c.(1795-1797)GGC>GGA	p.G599G	KIAA1324_uc009wex.1_Silent_p.G549G|KIAA1324_uc009wey.2_Silent_p.G512G|KIAA1324_uc010ovg.1_Silent_p.G497G|KIAA1324_uc001dwr.2_Silent_p.G249G	NM_020775	NP_065826	Q6UXG2	K1324_HUMAN	hypothetical protein LOC57535 precursor	599	Extracellular (Potential).				macroautophagy|positive regulation of vacuole organization|regulation of apoptosis	integral to plasma membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	5		all_epithelial(167;0.000102)|all_lung(203;0.000323)|Lung NSC(277;0.00063)		Colorectal(144;0.0188)|Lung(183;0.0527)|COAD - Colon adenocarcinoma(174;0.14)|Epithelial(280;0.21)|all cancers(265;0.249)		CTGATGTGGGCTCCTCCTGCA	0.522													103	217					2.96245e-57	3.3599e-57	0.01441	1	0		A	109735346	A	A	109735346	2	1	123	1	0	0	0	0	0	0	0	1	8239	784	28	5		5	KIAA1324	1	109735346	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	19335963	109735346	139515275	36	68100											
CHIA	27159	broad.mit.edu	37	chr1	111862019	111862019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatctggatgacttcactgGcactttctgcaaccagggca	9	11	10	11	0	3	2	1	2	2	0	3	3	3	3	1	3	2	3	1	3	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:111862019G>A	uc001eas.2	+	11	1209	c.1106G>A	c.(1105-1107)GGC>GAC	p.G369D	CHIA_uc001ear.2_Missense_Mutation_p.G261D|CHIA_uc001eaq.2_Missense_Mutation_p.G261D|CHIA_uc009wgc.2_Missense_Mutation_p.G261D|CHIA_uc001eat.2_Missense_Mutation_p.G208D|CHIA_uc001eav.2_Missense_Mutation_p.G208D|CHIA_uc001eau.2_Missense_Mutation_p.G208D|CHIA_uc009wgd.2_Missense_Mutation_p.G208D	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	369					apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		GACTTCACTGGCACTTTCTGC	0.512													21	45					0	0	0.014323	0	0		A	111862019	A	A	111862019	3	1	123	1	0	0	0	0	1	0	0	0	3345	1203	42	2	1144	2	CHIA	1	111862019	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2126673	111862019	137388602	37	68101											
RSBN1	54665	broad.mit.edu	37	chr1	114354357	114354357	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggggctttgatcagaggCacccctccagtcctctcgcc	5	10	11	15	1	2	2	1	1	1	1	5	2	4	2	5	3	0	2	5	3	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:114354357C>T	uc001edq.2	-	1	714	c.678G>A	c.(676-678)GTG>GTA	p.V226V	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	226						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGATCAGAGGCACCCCTCCAG	0.582													32	47					0	0	0.017118	0	0		T	114354357	T	T	114354357	2	4	123	1	0	0	0	0	0	0	0	1	13721	697	25	2		2	RSBN1	1	114354357	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2492338	114354357	134896264	38	68102											
VANGL1	81839	broad.mit.edu	37	chr1	116226580	116226580	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caaaggccccagtaacaatgCcactggccagtcccgggcca	11	4	10	16	1	0	0	0	0	0	0	1	0	1	0	6	3	2	1	6	3	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:116226580C>T	uc001efv.1	+	6	1233	c.962C>T	c.(961-963)GCC>GTC	p.A321V	VANGL1_uc009wgy.1_Missense_Mutation_p.A319V	NM_138959	NP_620409	Q8TAA9	VANG1_HUMAN	vang-like 1	321	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane	protein binding			central_nervous_system(1)	1	Lung SC(450;0.211)	all_cancers(81;1.24e-06)|all_epithelial(167;1.02e-06)|all_lung(203;7.95e-06)|Lung NSC(69;4.97e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		AGTAACAATGCCACTGGCCAG	0.522													28	48					0	0	0.010818	0	0		T	116226580	T	T	116226580	3	4	123	1	0	0	0	0	1	0	0	0	17145	739	26	2	980	2	VANGL1	1	116226580	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1872223	116226580	133024041	39	68103											
ADAM30	11085	broad.mit.edu	37	chr1	120438726	120438726	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcaacagaagtctcttgggCcacaaatggaggacgtgctt	11	8	13	9	1	1	1	0	0	1	1	2	3	1	3	1	4	2	2	1	4	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:120438726C>T	uc001eij.2	-	1	388	c.234G>A	c.(232-234)TGG>TGA	p.W78*		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	78					proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		GTCTCTTGGGCCACAAATGGA	0.532													26	56					0	0	0.027356	0	0		T	120438726	T	T	120438726	4	4	123	1	0	0	0	0	0	1	0	0	248	740	26	2	2142	2	ADAM30	1	120438726	Nonsense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	4212146	120438726	128811895	40	68104											
RBM8A	9939	broad.mit.edu	37	chr1	145509207	145509207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtccagaccggagacgtcGctgacaggtcctctgttgtc	8	9	12	12	3	1	3	0	1	1	2	5	4	3	3	3	2	0	2	3	2	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:145509207G>A	uc001ent.1	+	6	550	c.521G>A	c.(520-522)CGC>CAC	p.R174H	NBPF10_uc001emp.3_Intron|RBM8A_uc001enu.1_Missense_Mutation_p.R173H|RBM8A_uc001enw.1_5'Flank	NM_005105	NP_005096	Q9Y5S9	RBM8A_HUMAN	RNA binding motif protein 8A	174					mRNA 3'-end processing|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|exon-exon junction complex|nuclear speck	mRNA binding|nucleotide binding|protein binding				0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CGGAGACGTCGCTGACAGGTC	0.493													11	39					0	0	0.020292	0	0		A	145509207	A	A	145509207	3	1	123	1	0	0	0	0	1	0	0	0	13171	1087	38	1	543	1	RBM8A	1	145509207	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	25070481	145509207	103741414	41	68105											
HORMAD1	84072	broad.mit.edu	37	chr1	150676776	150676776	+	Frame_Shift_Del	DEL	T	-	-																															caagttcagaagatgcagggTttttttcctgttcttccatt																								rs45439605		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:150676776delT	uc001evk.1	-	11	954	c.848delA	c.(847-849)AACfs	p.N283fs	HORMAD1_uc001evl.1_Frame_Shift_Del_p.N276fs|HORMAD1_uc001evm.1_Frame_Shift_Del_p.N203fs	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	283					blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			AGATGCAGGGTTTTTTTCCTG	0.289													10	13	---	---	---	---						.	-	150676776	-	-	150676776	7	5	123	1	0	1	0	1	0	0	0	0	7302	1725	60	0	356	0	HORMAD1	1	150676776	Frame_Shift_Del	DEL	T	TCGA-CD-A4MJ-01A-11D-A25D-08	5167569	150676776	98573845	42	68106											
LCE2B	26239	broad.mit.edu	37	chr1	152659551	152659551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgcctgagccaccacaggCcccgtctcttccaccggcgc	5	6	10	20	3	1	1	0	1	1	0	3	1	2	1	7	2	2	1	7	2	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:152659551C>T	uc001fai.2	+	2	286	c.232C>T	c.(232-234)CCC>TCC	p.P78S		NM_014357	NP_055172	O14633	LCE2B_HUMAN	late cornified envelope 2B	78	Cys-rich.				keratinization					ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCACCACAGGCCCCGTCTCTT	0.677													52	96					0	0	0.01441	0	0		T	152659551	T	T	152659551	3	4	123	1	0	0	0	0	1	0	0	0	8682	739	26	2	234	2	LCE2B	1	152659551	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1982775	152659551	96591070	43	68107											
LCE2B	26239	broad.mit.edu	37	chr1	152659570	152659570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccgtctcttccaccggcGccggcaccagagccccgact	5	5	10	21	5	1	1	0	0	1	1	3	2	2	1	8	2	1	1	8	2	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:152659570G>A	uc001fai.2	+	2	305	c.251G>A	c.(250-252)CGC>CAC	p.R84H		NM_014357	NP_055172	O14633	LCE2B_HUMAN	late cornified envelope 2B	84	Cys-rich.				keratinization					ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCCACCGGCGCCGGCACCAG	0.667													42	78					0	0	0.007835	0	0		A	152659570	A	A	152659570	3	1	123	1	0	0	0	0	1	0	0	0	8682	1087	38	1	253	1	LCE2B	1	152659570	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	19	152659570	96591051	44	68108											
IL6R	3570	broad.mit.edu	37	chr1	154408561	154408561	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtggagcgagtggagcccGgaggccatgggcacgccttg	7	5	19	10	3	0	0	0	0	0	0	0	5	0	3	3	5	2	1	3	5	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:154408561G>A	uc001fez.1	+	6	1361	c.924G>A	c.(922-924)CCG>CCA	p.P308P	IL6R_uc001ffa.1_Silent_p.P308P	NM_000565	NP_000556	P08887	IL6RA_HUMAN	interleukin 6 receptor isoform 1 precursor	308	Fibronectin type-III.|Extracellular (Potential).				acute-phase response|ciliary neurotrophic factor-mediated signaling pathway|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|endocrine pancreas development|hepatic immune response|negative regulation of collagen biosynthetic process|negative regulation of interleukin-8 production|positive regulation of activation of Janus kinase activity|positive regulation of anti-apoptosis|positive regulation of chemokine production|positive regulation of chemokine production|positive regulation of interleukin-6 production|positive regulation of leukocyte chemotaxis|positive regulation of MAPKKK cascade|positive regulation of osteoblast differentiation|positive regulation of smooth muscle cell proliferation|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of apoptosis	apical plasma membrane|basolateral plasma membrane|extracellular space|interleukin-6 receptor complex	ciliary neurotrophic factor binding|enzyme binding|protein homodimerization activity			ovary(3)|breast(1)	4	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGTGGAGCCCGGAGGCCATGG	0.532													12	21					0	0	0.013537	0	0		A	154408561	A	A	154408561	2	1	123	1	0	0	0	0	0	0	0	1	7718	1103	39	1		1	IL6R	1	154408561	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1748991	154408561	94842060	45	68109											
SMG5	23381	broad.mit.edu	37	chr1	156235910	156235910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtttcagcatcaaaggccGttcccccaccttcaagactc	9	10	6	16	1	3	1	3	0	0	1	5	1	4	1	4	1	1	3	4	1	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:156235910G>A	uc001foc.3	-	12	1666	c.1517C>T	c.(1516-1518)ACG>ATG	p.T506M	SMG5_uc009wrv.2_Translation_Start_Site	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	506					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					ATCAAAGGCCGTTCCCCCACC	0.552													39	98					0	0	0.007835	0	0		A	156235910	A	A	156235910	3	1	123	1	0	0	0	0	1	0	0	0	14821	1145	40	1	1577	1	SMG5	1	156235910	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1827349	156235910	93014711	46	68110											
FCRL3	115352	broad.mit.edu	37	chr1	157666009	157666010	+	Frame_Shift_Del	DEL	AC	-	-																															ctttgtgccaggagaatgtgAcagtccctgaaccctgggct																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:157666009_157666010delAC	uc001frb.2	-	7	1244_1245	c.952_953delGT	c.(952-954)GTCfs	p.V318fs	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Frame_Shift_Del_p.V318fs|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Frame_Shift_Del_p.V44fs|FCRL3_uc001frc.1_Frame_Shift_Del_p.V318fs	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	318	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					GGAGAATGTGACAGTCCCTGAA	0.51													46	105	---	---	---	---						.	-	157666010	-	-	157666009	7	5	123	1	0	1	0	1	0	0	0	0	5810	275	10	0	1287	0	FCRL3	1	157666009	Frame_Shift_Del	DEL	AC	TCGA-CD-A4MJ-01A-11D-A25D-08	1430099	157666009	91584612	47	68111											
OR6Y1	391112	broad.mit.edu	37	chr1	158517185	158517185	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaatgccttttggcggccCtgagcagaagggatcctgag	9	8	15	9	1	0	4	0	2	0	2	1	6	1	5	3	3	2	1	3	3	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:158517185C>A	uc010pil.1	-	1	711	c.711G>T	c.(709-711)CAG>CAT	p.Q237H		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	237	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TTTGGCGGCCCTGAGCAGAAG	0.517													25	54					5.35047e-06	5.50962e-06	0.01892	1	0		A	158517185	A	A	158517185	3	1	123	1	0	0	0	0	1	0	0	0	11232	680	24	5	268	5	OR6Y1	1	158517185	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	851176	158517185	90733436	48	68112											
FCGR2B	2213	broad.mit.edu	37	chr1	161641299	161641299	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagagcgactccattcagtGgttccacaatgggaatctca	11	10	10	10	1	2	1	2	1	1	1	5	4	4	2	2	2	1	1	2	2	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:161641299G>T	uc001gaz.1	+	3	343	c.251G>T	c.(250-252)TGG>TTG	p.W84L	FCGR2B_uc009wum.1_Missense_Mutation_p.W84L|FCGR2B_uc001gay.1_Missense_Mutation_p.W83L|FCGR2B_uc001gba.1_Missense_Mutation_p.W83L|FCGR2B_uc001gbb.1_Missense_Mutation_p.W84L|FCGR2B_uc009wun.1_Missense_Mutation_p.W77L	NM_004001	NP_003992	P31994	FCG2B_HUMAN	Fc fragment of IgG, low affinity IIb, receptor	84	Ig-like C2-type 1.|Extracellular (Potential).				immune response|interspecies interaction between organisms|regulation of immune response	integral to membrane|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TCCATTCAGTGGTTCCACAAT	0.582			T	?	ALL								23	52					1.5548e-18	1.71004e-18	0.027356	1	0		T	161641299	T	T	161641299	3	4	123	1	0	0	0	0	1	0	0	0	5796	1357	47	5	261	5	FCGR2B	1	161641299	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3124114	161641299	87609322	49	68113											
FMO1	2326	broad.mit.edu	37	chr1	171251310	171251310	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttccccttccttgatgagTctgtagtgaaagttgaagat	9	15	9	8	0	1	5	0	4	1	1	3	5	3	5	3	0	0	2	3	0	3	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:171251310T>C	uc009wvz.2	+	7	1157	c.1021T>C	c.(1021-1023)TCT>CCT	p.S341P	FMO1_uc010pme.1_Missense_Mutation_p.S278P|FMO1_uc001ghl.2_Missense_Mutation_p.S341P|FMO1_uc001ghm.2_Missense_Mutation_p.S341P|FMO1_uc001ghn.2_Missense_Mutation_p.S341P	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	341					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CCTTGATGAGTCTGTAGTGAA	0.433													40	90					0	0	0.01441	0	0		C	171251310	C	C	171251310	3	2	123	1	0	0	0	0	1	0	0	0	5968	1667	58	3	1043	3	FMO1	1	171251310	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	9610011	171251310	77999311	50	68114											
MYOC	4653	broad.mit.edu	37	chr1	171605749	171605749	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctcctgggtgtaggggtaGgtgggcttggggtctcgcat	3	12	19	7	1	2	0	0	0	2	0	4	0	2	0	1	7	0	4	1	7	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:171605749G>A	uc001ghu.2	-	3	853	c.831C>T	c.(829-831)ACC>ACT	p.T277T	MYOC_uc010pmk.1_Silent_p.T219T	NM_000261	NP_000252	Q99972	MYOC_HUMAN	myocilin precursor	277	Olfactomedin-like.				anatomical structure morphogenesis	cilium|extracellular space|rough endoplasmic reticulum	structural molecule activity			lung(1)	1	all_cancers(6;5.47e-10)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					TGTAGGGGTAGGTGGGCTTGG	0.532													25	64					0	0	0.024334	0	0		A	171605749	A	A	171605749	2	1	123	1	0	0	0	0	0	0	0	1	10104	987	35	4		4	MYOC	1	171605749	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	354439	171605749	77644872	51	68115											
GPR52	9293	broad.mit.edu	37	chr1	174417890	174417890	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgtttactttatgctcCtgctgcctttgttgtctgct	2	22	8	9	0	1	0	0	0	1	0	2	0	2	0	2	0	5	6	2	0	2	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:174417890C>A	uc001gka.1	+	1	679	c.641C>A	c.(640-642)CCT>CAT	p.P214H	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron|uc010pmu.1_RNA	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	214	Helical; Name=5; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						CTTTATGCTCCTGCTGCCTTT	0.438													10	193					3.86212e-05	3.94348e-05	0.008291	1	0		A	174417890	A	A	174417890	3	1	123	1	0	0	0	0	1	0	0	0	6713	681	24	5	643	5	GPR52	1	174417890	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2812141	174417890	74832731	52	68116											
LAMC1	3915	broad.mit.edu	37	chr1	183097844	183097844	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagactaaaggaagcagagaGggaagttatggacctccttc	14	8	12	7	0	0	2	0	0	0	2	2	6	1	5	2	3	1	2	2	3	6	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:183097844G>T	uc001gpy.3	+	18	3496	c.3239G>T	c.(3238-3240)AGG>ATG	p.R1080M		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	1080	Potential.|Domain II and I.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GAAGCAGAGAGGGAAGTTATG	0.478													15	50					1.5739e-10	1.67775e-10	0.028581	1	0		T	183097844	T	T	183097844	3	4	123	1	0	0	0	0	1	0	0	0	8630	1000	35	5	3309	5	LAMC1	1	183097844	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	8679954	183097844	66152777	53	68117											
HMCN1	83872	broad.mit.edu	37	chr1	185969176	185969176	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agactttaatttcttatttaGgtacccctaaaccaaccatc	13	14	3	11	0	1	1	0	0	1	1	2	1	1	1	4	1	3	1	4	1	7	8			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:185969176G>A	uc001grq.1	+	26	4104	c.3875_splice	c.e26-1	p.G1292_splice		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor						response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TTCTTATTTAGGTACCCCTAA	0.313													8	51					0	0	0.004482	0	0		A	185969176	A	A	185969176	5	1	123	1	0	0	0	0	0	0	1	0	7236	1014	35	4	3976	4	HMCN1	1	185969176	Splice_Site	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2871332	185969176	63281445	54	68118											
CDC73	79577	broad.mit.edu	37	chr1	193205394	193205394	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctacttgtagggaccgcgTtgtagccgtttttgtgcagg	5	15	13	8	3	1	0	0	0	1	0	1	1	1	1	2	2	3	5	2	2	3	8			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:193205394T>G	uc001gtb.2	+	15	1568	c.1325T>G	c.(1324-1326)GTT>GGT	p.V442G		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	442					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						AGGGACCGCGTTGTAGCCGTT	0.458									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				40	94					0	0	0.01441	0	0		G	193205394	G	G	193205394	3	3	123	1	0	0	0	0	1	0	0	0	3088	1725	60	5	1383	5	CDC73	1	193205394	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	7236218	193205394	56045227	55	68119											
ASPM	259266	broad.mit.edu	37	chr1	197069949	197069949	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagccctactttgagaatgaTactctgcttcctgtgaacaa	11	12	7	11	0	1	3	0	3	1	1	2	4	2	3	2	0	5	1	2	0	5	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:197069949T>C	uc001gtu.2	-	18	8689	c.8432A>G	c.(8431-8433)TAT>TGT	p.Y2811C	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Missense_Mutation_p.Y659C	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2811					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TTGAGAATGATACTCTGCTTC	0.398													31	96					0	0	0.019004	0	0		C	197069949	C	C	197069949	3	2	123	1	0	0	0	0	1	0	0	0	1057	1406	49	3	2045	3	ASPM	1	197069949	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	3864555	197069949	52180672	56	68120											
ASPM	259266	broad.mit.edu	37	chr1	197111558	197111558	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaacagctgatgttttaggCtctgagggagaaaaatggat	13	12	12	4	0	1	3	0	2	1	1	1	5	1	4	0	3	2	3	0	3	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:197111558C>T	uc001gtu.2	-	3	2081	c.1824G>A	c.(1822-1824)GAG>GAA	p.E608E	ASPM_uc001gtv.2_Silent_p.E608E|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	608					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						ATGTTTTAGGCTCTGAGGGAG	0.378													35	94					0	0	0.013726	0	0		T	197111558	T	T	197111558	2	4	123	1	0	0	0	0	0	0	0	1	1057	796	28	2		2	ASPM	1	197111558	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	41609	197111558	52139063	57	68121											
IPO9	55705	broad.mit.edu	37	chr1	201842024	201842024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacggctacaggatatccGtgtgaagggagaggagatct	13	7	14	7	2	1	3	0	1	1	2	2	6	2	4	1	4	2	1	1	4	4	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:201842024G>A	uc001gwz.2	+	20	2695	c.2645G>A	c.(2644-2646)CGT>CAT	p.R882H		NM_018085	NP_060555	Q96P70	IPO9_HUMAN	importin 9	882					protein import into nucleus	cytoplasm|nucleus	histone binding|protein transporter activity			ovary(2)	2						CAGGATATCCGTGTGAAGGGA	0.517													47	57					0	0	0.01441	0	0		A	201842024	A	A	201842024	3	1	123	1	0	0	0	0	1	0	0	0	7815	1145	40	1	2723	1	IPO9	1	201842024	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4730466	201842024	47408597	58	68122											
NFASC	23114	broad.mit.edu	37	chr1	204945820	204945820	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgaagaaggaagacgactcCctgaccatctttggggtggc	11	8	13	9	1	1	4	0	2	1	2	2	6	2	5	2	4	0	0	2	4	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:204945820C>A	uc001hbj.2	+	16	2056	c.1728C>A	c.(1726-1728)TCC>TCA	p.S576S	NFASC_uc001hbh.2_Silent_p.S576S|NFASC_uc010pqz.1_Silent_p.S570S|NFASC_uc010pra.1_Silent_p.S587S|NFASC_uc001hbi.2_Silent_p.S587S|NFASC_uc010prb.1_Silent_p.S587S|NFASC_uc010prc.1_Silent_p.S143S|NFASC_uc001hbk.1_Silent_p.S397S	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	576	Extracellular (Potential).|Ig-like C2-type 6.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			AAGACGACTCCCTGACCATCT	0.607													71	161					1.94393e-27	2.17088e-27	0.01441	1	0		A	204945820	A	A	204945820	2	1	123	1	0	0	0	0	0	0	0	1	10378	610	22	5		5	NFASC	1	204945820	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3103796	204945820	44304801	59	68123											
RAB7L1	8934	broad.mit.edu	37	chr1	205744039	205744039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgtcttgcccactgcggCgtcccccaccaccagcactt	6	7	8	20	4	1	0	0	0	1	0	2	1	2	0	5	1	3	1	5	1	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:205744039C>T	uc001hdf.3	-	2	386	c.46G>A	c.(46-48)GCC>ACC	p.A16T	RAB7L1_uc009xbp.2_Intron|RAB7L1_uc001hde.3_Missense_Mutation_p.A16T|RAB7L1_uc010prr.1_Missense_Mutation_p.A16T|RAB7L1_uc009xbq.2_RNA	NM_003929	NP_003920	O14966	RAB7L_HUMAN	RAB7, member RAS oncogene family-like 1 isoform	16	GTP (By similarity).				protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding			ovary(1)	1	Breast(84;0.0799)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			CCCACTGCGGCGTCCCCCACC	0.622													16	39					0	0	0.00499	0	0		T	205744039	T	T	205744039	3	4	123	1	0	0	0	0	1	0	0	0	12980	768	27	1	585	1	RAB7L1	1	205744039	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	798219	205744039	43506582	60	68124											
CR1	1378	broad.mit.edu	37	chr1	207696973	207696973	+	Frame_Shift_Del	DEL	C	-	-																															caggaattccttgtgggctaCcccccaccatcaccaatgga																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:207696973delC	uc001hfy.2	+	5	645	c.505delC	c.(505-507)CCCfs	p.P169fs	CR1_uc009xcl.1_Frame_Shift_Del_p.P169fs|CR1_uc001hfx.2_Frame_Shift_Del_p.P169fs|CR1_uc009xcj.1_Frame_Shift_Del_p.P169fs|CR1_uc009xck.1_Frame_Shift_Del_p.P169fs	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	169	Extracellular (Potential).|Sushi 3.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TTGTGGGCTACCCCCCACCAT	0.433													21	47	---	---	---	---						.	-	207696973	-	-	207696973	7	5	123	1	0	1	0	1	0	0	0	0	3843	507	18	0	523	0	CR1	1	207696973	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1952934	207696973	41553648	61	68125											
RPS6KC1	26750	broad.mit.edu	37	chr1	213445891	213445891	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagttcaatcctctggaaCgacttggtgctggagttgct	7	13	12	9	1	2	0	1	0	1	0	3	3	3	2	1	3	4	5	1	3	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:213445891C>T	uc010ptr.1	+	15	3274	c.3115C>T	c.(3115-3117)CGA>TGA	p.R1039*	RPS6KC1_uc001hkd.2_Nonsense_Mutation_p.R1027*|RPS6KC1_uc010pts.1_Nonsense_Mutation_p.R827*|RPS6KC1_uc010ptt.1_Nonsense_Mutation_p.R827*|RPS6KC1_uc010ptu.1_Nonsense_Mutation_p.R858*|RPS6KC1_uc010ptv.1_Nonsense_Mutation_p.R574*|RPS6KC1_uc001hke.2_Nonsense_Mutation_p.R858*	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	1039	Protein kinase 2.				cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		TCCTCTGGAACGACTTGGTGC	0.413													20	48					0	0	0.014323	0	0		T	213445891	T	T	213445891	4	4	123	1	0	0	0	0	0	1	0	0	13683	528	19	1	3173	1	RPS6KC1	1	213445891	Nonsense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	5748918	213445891	35804730	62	68126											
DISP1	84976	broad.mit.edu	37	chr1	223177746	223177746	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagcgtgatgctgctgacaActtggaacatcatcataagc	12	11	9	9	1	2	2	2	2	0	0	2	3	2	3	0	1	6	2	0	1	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:223177746A>C	uc001hnu.1	+	8	3154	c.3007A>C	c.(3007-3009)ACT>CCT	p.T1003P		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1003	Helical; (Potential).				diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		GCTGCTGACAACTTGGAACAT	0.483													49	72					0	0	0.01441	0	0		C	223177746	C	C	223177746	3	2	123	1	0	0	0	0	1	0	0	0	4545	43	2	5	3033	5	DISP1	1	223177746	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	9731855	223177746	26072875	63	68127											
TRIM17	51127	broad.mit.edu	37	chr1	228598740	228598740	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccggtccaggcaggccacGctctcccggagcctgctggc	4	6	14	17	3	1	0	0	0	1	0	3	1	2	1	5	5	3	3	5	5	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:228598740G>A	uc001hsu.2	-	4	1048	c.663C>T	c.(661-663)AGC>AGT	p.S221S	TRIM17_uc001hsv.2_Silent_p.S221S|TRIM17_uc001hsw.2_Silent_p.S194S|TRIM17_uc009xfb.2_Silent_p.S221S	NM_016102	NP_057186	Q9Y577	TRI17_HUMAN	tripartite motif-containing 17 isoform 1	221	Potential.				protein autoubiquitination	intracellular	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Prostate(94;0.0724)				GGCAGGCCACGCTCTCCCGGA	0.632													18	40					0	0	0.00499	0	0		A	228598740	A	A	228598740	2	1	123	1	0	0	0	0	0	0	0	1	16519	1078	38	1		1	TRIM17	1	228598740	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	5420994	228598740	20651881	64	68128											
ARV1	64801	broad.mit.edu	37	chr1	231126011	231126011	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgcgattgctgctttaggTaaggagatgccatgctttcc	7	15	11	8	1	0	1	0	0	0	1	1	3	1	1	2	2	5	4	2	2	2	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:231126011T>C	uc009xfl.1	+	3	477	c.448_splice	c.e3+2	p.E150_splice	ARV1_uc001huh.2_Splice_Site_p.E150_splice	NM_022786	NP_073623	Q9H2C2	ARV1_HUMAN	ARV1 homolog						sphingolipid metabolic process	integral to membrane				breast(2)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)		COAD - Colon adenocarcinoma(196;0.211)|Colorectal(1306;0.233)		CTGCTTTAGGTAAGGAGATGC	0.378													50	113					0	0	0.01441	0	0		C	231126011	C	C	231126011	5	2	123	1	0	0	0	0	0	0	1	0	1003	1652	57	3	460	3	ARV1	1	231126011	Splice_Site	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	2527271	231126011	18124610	65	68129											
SIPA1L2	57568	broad.mit.edu	37	chr1	232561478	232561478	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaaaggaggaccccctcCtgttgctgcagatgctctcg	7	9	11	14	1	1	1	0	0	1	1	3	3	2	3	4	2	4	4	4	2	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:232561478C>A	uc001hvg.2	-	16	4645	c.4487G>T	c.(4486-4488)AGG>ATG	p.R1496M	SIPA1L2_uc001hvf.2_Missense_Mutation_p.R570M	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1496					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GGACCCCCTCCTGTTGCTGCA	0.577													15	35					9.16793e-09	9.60387e-09	0.00499	1	0		A	232561478	A	A	232561478	3	1	123	1	0	0	0	0	1	0	0	0	14355	681	24	5	705	5	SIPA1L2	1	232561478	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1435467	232561478	16689143	66	68130											
ACTN2	88	broad.mit.edu	37	chr1	236917337	236917337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgaggcgccagtttgctGcccaagccaatgccattggg	7	9	13	12	1	1	1	0	1	1	0	1	1	1	1	4	2	4	2	4	2	2	2	rs146164600	byFrequency	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:236917337G>A	uc001hyf.2	+	16	2134	c.1930G>A	c.(1930-1932)GCC>ACC	p.A644T	ACTN2_uc001hyg.2_Missense_Mutation_p.A436T|ACTN2_uc009xgi.1_Missense_Mutation_p.A644T|ACTN2_uc010pxu.1_Missense_Mutation_p.A333T|ACTN2_uc001hyh.2_Missense_Mutation_p.A332T	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	644	Spectrin 4.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			CCAGTTTGCTGCCCAAGCCAA	0.602													20	51					0	0	0.016522	0	0		A	236917337	A	A	236917337	3	1	123	1	0	0	0	0	1	0	0	0	205	1319	46	2	1992	2	ACTN2	1	236917337	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4355859	236917337	12333284	67	68131											
KMO	8564	broad.mit.edu	37	chr1	241725514	241725514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgacctcattgtaggatGtgatggagcctattcaactg	9	14	11	7	0	2	2	2	2	0	0	2	4	2	4	2	2	2	1	2	2	3	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:241725514G>A	uc009xgp.2	+	7	562	c.497G>A	c.(496-498)TGT>TAT	p.C166Y	KMO_uc001hyy.2_Missense_Mutation_p.C166Y|KMO_uc009xgo.1_Missense_Mutation_p.C166Y	NM_003679	NP_003670	O15229	KMO_HUMAN	kynurenine 3-monooxygenase	166					pyridine nucleotide biosynthetic process|response to salt stress	cytosol|integral to membrane|mitochondrial outer membrane	electron carrier activity|flavin adenine dinucleotide binding|kynurenine 3-monooxygenase activity|NAD(P)H oxidase activity			ovary(2)	2	Ovarian(103;0.103)|all_lung(81;0.23)		OV - Ovarian serous cystadenocarcinoma(106;0.0176)			ATTGTAGGATGTGATGGAGCC	0.388													16	37					0	0	0.028581	0	0		A	241725514	A	A	241725514	3	1	123	1	0	0	0	0	1	0	0	0	8440	1377	48	4	523	4	KMO	1	241725514	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4808177	241725514	7525107	68	68132											
OR2AK2	391191	broad.mit.edu	37	chr1	248129247	248129247	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctactatcattggtgtgtcAggacacctcccagtatgagt	9	13	9	10	0	3	1	2	1	1	0	4	2	4	2	2	2	1	1	2	2	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr1:248129247A>C	uc010pzd.1	+	1	614	c.614A>C	c.(613-615)CAG>CCG	p.Q205P	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	205	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TTGGTGTGTCAGGACACCTCC	0.428													15	51					0	0	0.020292	0	0		C	248129247	C	C	248129247	3	2	123	1	0	0	0	0	1	0	0	0	11005	188	7	5	616	5	OR2AK2	1	248129247	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	6403733	248129247	1121374	69	68133											
KCNF1	3754	broad.mit.edu	37	chr2	11052800	11052800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctactttgacagggaccCggacgccttcaagtgtgtca	8	11	11	11	2	3	1	2	1	1	0	3	3	3	3	2	2	1	1	2	2	2	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:11052800C>T	uc002rax.2	+	1	738	c.248C>T	c.(247-249)CCG>CTG	p.P83L		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	83	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		GACAGGGACCCGGACGCCTTC	0.572													16	35					0	0	0.024245	0	0		T	11052800	T	T	11052800	3	4	123	1	0	0	0	0	1	0	0	0	8042	652	23	1	250	1	KCNF1	2	11052800	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08		11052800	232146573	70	68134											
ROCK2	9475	broad.mit.edu	37	chr2	11332397	11332397	+	Frame_Shift_Del	DEL	T	-	-																															ctgggggctttttaggtatcTttttcaccaaccgactaacc																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:11332397delT	uc002rbd.1	-	32	4489	c.4040delA	c.(4039-4041)AAGfs	p.K1347fs		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	1347	PH.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		TTTAGGTATCTTTTTCACCAA	0.403													107	222	---	---	---	---						.	-	11332397	-	-	11332397	7	5	123	1	0	1	0	1	0	0	0	0	13543	1609	56	0	134	0	ROCK2	2	11332397	Frame_Shift_Del	DEL	T	TCGA-CD-A4MJ-01A-11D-A25D-08	279597	11332397	231866976	71	68135											
MATN3	4148	broad.mit.edu	37	chr2	20200211	20200211	+	Frame_Shift_Del	DEL	T	-	-																															gtggatcttacctgaacatgTttttttatctgcattcagag																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:20200211delT	uc002rdl.2	-	5	1222	c.1159delA	c.(1159-1161)ACAfs	p.T387fs	MATN3_uc010exu.1_Frame_Shift_Del_p.T345fs	NM_002381	NP_002372	O15232	MATN3_HUMAN	matrilin 3 precursor	387	EGF-like 3.				skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCTGAACATGTTTTTTTATCT	0.403													16	26	---	---	---	---						.	-	20200211	-	-	20200211	7	5	123	1	0	1	0	1	0	0	0	0	9353	1725	60	0	317	0	MATN3	2	20200211	Frame_Shift_Del	DEL	T	TCGA-CD-A4MJ-01A-11D-A25D-08	8867814	20200211	222999162	72	68136											
APOB	338	broad.mit.edu	37	chr2	21230763	21230763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggcccacatgctgggaatCgacttgtgattgaatttcaa	10	12	11	8	1	1	2	1	2	0	0	2	4	1	3	1	2	1	1	1	2	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:21230763C>T	uc002red.2	-	26	9105	c.8977G>A	c.(8977-8979)GAT>AAT	p.D2993N		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2993					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TGCTGGGAATCGACTTGTGAT	0.418													31	77					0	0	0.010818	0	0		T	21230763	T	T	21230763	3	4	123	1	0	0	0	0	1	0	0	0	785	884	31	1	4730	1	APOB	2	21230763	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1030552	21230763	221968610	73	68137											
ASXL2	55252	broad.mit.edu	37	chr2	25966139	25966139	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagctgcttactttgcaaggTtttgcccagctgctgctgcg	5	13	12	11	1	0	0	0	0	0	0	0	1	0	0	1	1	9	7	1	1	2	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:25966139T>C	uc002rgs.2	-	12	3288	c.3067A>G	c.(3067-3069)ACC>GCC	p.T1023A	ASXL2_uc002rgt.1_Intron	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1023					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTTGCAAGGTTTTGCCCAGC	0.522													8	13					0	0	0.00308	0	0		C	25966139	C	C	25966139	3	2	123	1	0	0	0	0	1	0	0	0	1068	1725	60	3	1244	3	ASXL2	2	25966139	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	4735376	25966139	217233234	74	68138											
OTOF	9381	broad.mit.edu	37	chr2	26684692	26684692	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgacgatcttctcctccGccgccaggtagtcgaagggg	8	8	13	12	4	2	2	0	1	2	1	5	4	3	2	4	3	0	1	4	3	2	2	rs144562626		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:26684692G>T	uc002rhk.2	-	43	5532	c.5405C>A	c.(5404-5406)GCG>GAG	p.A1802E	OTOF_uc010yla.1_Missense_Mutation_p.A532E|OTOF_uc002rhh.2_Missense_Mutation_p.A1035E|OTOF_uc002rhi.2_Missense_Mutation_p.A1112E|OTOF_uc002rhj.2_Missense_Mutation_p.A1035E	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1802	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTCTCCTCCGCCGCCAGGTA	0.602													43	101					4.14194e-30	4.65408e-30	0.011902	1	0		T	26684692	T	T	26684692	3	4	123	1	0	0	0	0	1	0	0	0	11322	1087	38	5	789	5	OTOF	2	26684692	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	718553	26684692	216514681	75	68139											
CRIM1	51232	broad.mit.edu	37	chr2	36771544	36771544	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgtcccagaaccaaccaaTatacccattgagaagacaaa	18	7	5	11	0	0	3	0	1	0	3	1	4	1	3	4	0	3	0	4	0	8	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:36771544T>G	uc002rpd.2	+	15	2688	c.2649T>G	c.(2647-2649)AAT>AAG	p.N883K		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	883	Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				AACCAACCAATATACCCATTG	0.433													28	48					0	0	0.009535	0	0		G	36771544	G	G	36771544	3	3	123	1	0	0	0	0	1	0	0	0	3876	1403	49	5	2707	5	CRIM1	2	36771544	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	10086852	36771544	206427829	76	68140											
NRXN1	9378	broad.mit.edu	37	chr2	51254969	51254969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaaaggccgctgaacaccGtcatgtccctgcgcttggac	9	7	11	14	4	1	1	1	1	0	0	2	3	2	2	3	2	2	2	3	2	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:51254969G>A	uc010fbq.2	-	2	1920	c.443C>T	c.(442-444)ACG>ATG	p.T148M	NRXN1_uc002rxe.3_Missense_Mutation_p.T148M|NRXN1_uc002rxd.1_Missense_Mutation_p.T148M	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	209	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GCTGAACACCGTCATGTCCCT	0.677													17	24					0	0	0.007413	0	0		A	51254969	A	A	51254969	3	1	123	1	0	0	0	0	1	0	0	0	10684	1145	40	1	4555	1	NRXN1	2	51254969	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	14483425	51254969	191944404	77	68141											
FBXO41	150726	broad.mit.edu	37	chr2	73493775	73493775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctggcctcccgcgccgccGtctccttcaggaactggtcg	3	8	12	18	6	2	0	1	0	1	0	5	1	3	1	5	3	1	1	5	3	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:73493775G>A	uc002sjb.1	-	3	1124	c.1124C>T	c.(1123-1125)ACG>ATG	p.T375M		NM_001080410	NP_001073879	Q8TF61	FBX41_HUMAN	F-box protein 41	314	Potential.					intracellular	protein binding|zinc ion binding			breast(2)|pancreas(1)	3						CCGCGCCGCCGTCTCCTTCAG	0.672													33	74					0	0	0.023175	0	0		A	73493775	A	A	73493775	3	1	123	1	0	0	0	0	1	0	0	0	5764	1145	40	1	1730	1	FBXO41	2	73493775	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	22238806	73493775	169705598	78	68142											
TET3	200424	broad.mit.edu	37	chr2	74317154	74317154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctcgcaagttccgcctcGcaggggacaatcccaaagag	11	5	10	15	3	0	1	0	0	0	1	4	2	2	2	4	2	0	3	4	2	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:74317154G>A	uc002skb.3	+	5	2614	c.2614G>A	c.(2614-2616)GCA>ACA	p.A872T		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	872							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GTTCCGCCTCGCAGGGGACAA	0.592													40	94					0	0	0.010771	0	0		A	74317154	A	A	74317154	3	1	123	1	0	0	0	0	1	0	0	0	15796	1087	38	1	2632	1	TET3	2	74317154	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	823379	74317154	168882219	79	68143											
DOK1	1796	broad.mit.edu	37	chr2	74783466	74783467	+	Frame_Shift_Ins	INS	-	C	C																															ttcgaggccggccgccgctgINScccctcaggccctggaacct																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:74783466_74783467insC	uc002sms.2	+	5	693_694	c.671_672insC	c.(670-672)TGCfs	p.C224fs	LOXL3_uc002smp.1_5'Flank|LOXL3_uc002smq.1_5'Flank|LOXL3_uc010ffn.1_5'Flank|DOK1_uc002smr.2_Frame_Shift_Ins_p.C85fs|DOK1_uc010ffo.2_Frame_Shift_Ins_p.C85fs|DOK1_uc002smt.2_Frame_Shift_Ins_p.C10fs|DOK1_uc002smu.2_Frame_Shift_Ins_p.C10fs|DOK1_uc010yrz.1_Frame_Shift_Ins_p.C213fs|DOK1_uc002smv.2_Frame_Shift_Ins_p.C85fs|DOK1_uc002smw.1_Frame_Shift_Ins_p.C10fs	NM_001381	NP_001372	Q99704	DOK1_HUMAN	docking protein 1	224	IRS-type PTB.				fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	cytosol|perinuclear region of cytoplasm	insulin receptor binding				0						GGCCGCCGCTGCCCCTCAGGCC	0.589													77	165	---	---	---	---						.	C	74783467	C	C	74783466	7	5	123	1	0	1	1	0	0	0	0	0	4702	1319	46	0	689	0	DOK1	2	74783466	Frame_Shift_Ins	INS	-	TCGA-CD-A4MJ-01A-11D-A25D-08	466312	74783466	168415907	80	68144											
HK2	3099	broad.mit.edu	37	chr2	75101065	75101065	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caactgtgagattggtctcaTtgtgggtgagtgaacaccgt	9	12	13	7	1	1	3	1	3	1	1	2	4	1	3	1	2	2	0	1	2	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:75101065T>C	uc002snd.2	+	6	2612	c.686T>C	c.(685-687)ATT>ACT	p.I229T		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	229	Regulatory.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						ATTGGTCTCATTGTGGGTGAG	0.547													6	25					0	0	0.021553	0	0		C	75101065	C	C	75101065	3	2	123	1	0	0	0	0	1	0	0	0	7207	1493	52	3	708	3	HK2	2	75101065	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	317599	75101065	168098308	81	68145											
POLR1A	25885	broad.mit.edu	37	chr2	86276318	86276318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggattcttcaatgatacGttgcctcttgacatctgcct	7	15	9	10	1	4	2	1	2	3	0	4	3	4	3	2	2	3	1	2	2	2	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:86276318G>A	uc002sqs.2	-	17	2819	c.2440C>T	c.(2440-2442)CGT>TGT	p.R814C	POLR1A_uc010ytb.1_Missense_Mutation_p.R180C	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	814					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						TCAATGATACGTTGCCTCTTG	0.547													55	106					0	0	0.01441	0	0		A	86276318	A	A	86276318	3	1	123	1	0	0	0	0	1	0	0	0	12228	1145	40	1	2794	1	POLR1A	2	86276318	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	11175253	86276318	156923055	82	68146											
FAHD2B	151313	broad.mit.edu	37	chr2	97749725	97749725	+	Frame_Shift_Del	DEL	G	-	-																															tcctgaatacaccgacacctGggggggtcccagttaggatg																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:97749725delG	uc002sxm.2	-	7	993	c.842delC	c.(841-843)CCAfs	p.P281fs		NM_199336	NP_955368	Q6P2I3	FAH2B_HUMAN	fumarylacetoacetate hydrolase domain containing	281							hydrolase activity|metal ion binding				0						ACCGACACCTGGGGGGGTCCC	0.552													8	9	---	---	---	---						.	-	97749725	-	-	97749725	7	5	123	1	0	1	0	1	0	0	0	0	5385	1348	47	0	110	0	FAHD2B	2	97749725	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	11473407	97749725	145449648	83	68147											
TMEM131	23505	broad.mit.edu	37	chr2	98504533	98504533	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgttcatggaaatccagcAttggtggctcaaatcgtatg	11	12	10	8	1	2	0	2	0	0	0	4	1	3	1	1	3	1	4	1	3	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:98504533A>G	uc002syh.3	-	4	570	c.341T>C	c.(340-342)ATG>ACG	p.M114T	TMEM131_uc010yvg.1_RNA	NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	114						integral to membrane				ovary(4)|central_nervous_system(2)	6						GAAATCCAGCATTGGTGGCTC	0.333													11	18					0	0	0.020292	0	0		G	98504533	G	G	98504533	3	3	123	1	0	0	0	0	1	0	0	0	16069	217	8	3	5462	3	TMEM131	2	98504533	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	754808	98504533	144694840	84	68148											
AMMECR1L	83607	broad.mit.edu	37	chr2	128622689	128622689	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caggagtaatgattgtagagGggcggggcatgaagagtgcc	11	7	18	5	1	0	4	0	2	0	2	0	5	0	5	1	5	1	3	1	5	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:128622689G>T	uc002tpl.2	-	8	1163	c.912C>A	c.(910-912)CCC>CCA	p.P304P	AMMECR1L_uc002tpm.2_Silent_p.P304P	NM_031445	NP_113633	Q6DCA0	AMERL_HUMAN	AMME chromosomal region gene 1-like	304										central_nervous_system(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.07)		GATTGTAGAGGGGCGGGGCAT	0.542													24	100					2.75727e-19	3.04641e-19	0.021022	1	0		T	128622689	T	T	128622689	2	4	123	1	0	0	0	0	0	0	0	1	579	1219	43	5		5	AMMECR1L	2	128622689	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	30118156	128622689	114576684	85	68149											
LCT	3938	broad.mit.edu	37	chr2	136566597	136566597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtatttctcatcgtacGtgtgatagactctggcatgg	7	14	11	9	2	2	2	1	1	2	1	4	2	2	2	1	2	1	3	1	2	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:136566597G>A	uc002tuu.1	-	8	3331	c.3320C>T	c.(3319-3321)ACG>ATG	p.T1107M		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1107	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CTCATCGTACGTGTGATAGAC	0.577													24	76					0	0	0.021523	0	0		A	136566597	A	A	136566597	3	1	123	1	0	0	0	0	1	0	0	0	8709	1145	40	1	2503	1	LCT	2	136566597	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	7943908	136566597	106632776	86	68150											
LRP1B	53353	broad.mit.edu	37	chr2	141130642	141130642	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccatcacatttccattttGctggtatacactgaccattg	9	14	7	11	0	1	1	1	1	0	0	2	1	2	1	3	2	2	2	3	2	2	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:141130642G>T	uc002tvj.1	-	69	11675	c.10703C>A	c.(10702-10704)GCA>GAA	p.A3568E		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3568	Extracellular (Potential).|LDL-receptor class A 27.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTTCCATTTTGCTGGTATACA	0.353										TSP Lung(27;0.18)			36	80					5.43694e-19	5.98887e-19	0.023175	1	0		T	141130642	T	T	141130642	3	4	123	1	0	0	0	0	1	0	0	0	8973	1319	46	5	3188	5	LRP1B	2	141130642	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4564045	141130642	102068731	87	68151											
KYNU	8942	broad.mit.edu	37	chr2	143799645	143799645	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaatccaaatggcattcgAgtggctccagttcctctcta	9	11	9	12	2	1	0	0	0	1	0	6	2	4	1	3	3	0	3	3	3	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:143799645A>G	uc002tvl.2	+	14	1432	c.1302A>G	c.(1300-1302)CGA>CGG	p.R434R	KYNU_uc010fnm.2_Silent_p.R434R	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	434					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	ATGGCATTCGagtggctccag	0.279													47	61					0	0	0.01441	0	0		G	143799645	G	G	143799645	2	3	123	1	0	0	0	0	0	0	0	1	8603	291	11	3		3	KYNU	2	143799645	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	2669003	143799645	99399728	88	68152											
ZEB2	9839	broad.mit.edu	37	chr2	145156048	145156048	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagtagcagggggaaatgcGctttgaggtggaagagctgt	12	8	17	4	1	0	2	0	1	0	1	0	4	0	4	0	4	3	4	0	4	4	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:145156048G>A	uc002tvu.2	-	8	3186	c.2706C>T	c.(2704-2706)AGC>AGT	p.S902S	ZEB2_uc002tvv.2_Silent_p.S896S|ZEB2_uc010zbm.1_Silent_p.S873S|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Silent_p.S931S	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	902						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		GGGGAAATGCGCTTTGAGGTG	0.463													54	130					0	0	0.01441	0	0		A	145156048	A	A	145156048	2	1	123	1	0	0	0	0	0	0	0	1	17649	1078	38	1		1	ZEB2	2	145156048	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1356403	145156048	98043325	89	68153											
NEB	4703	broad.mit.edu	37	chr2	152470941	152470941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccagcatgtccactgggCtgctgaacttggtcttccac	6	10	9	16	0	1	1	0	1	1	0	3	1	3	1	4	2	3	3	4	2	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:152470941C>T	uc010fnx.2	-	73	10912	c.10721G>A	c.(10720-10722)AGC>AAC	p.S3574N		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3574	Nebulin 98.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GTCCACTGGGCTGCTGAACTT	0.527													96	217					0	0	0.01441	0	0		T	152470941	T	T	152470941	3	4	123	1	0	0	0	0	1	0	0	0	10321	797	28	2	14660	2	NEB	2	152470941	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	7314893	152470941	90728432	90	68154											
SCN7A	6332	broad.mit.edu	37	chr2	167269610	167269610	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgctgaattcataatagTgatccatccattaaatgttg	14	15	6	6	0	1	2	1	2	0	0	3	2	3	2	2	0	1	2	2	0	6	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:167269610T>C	uc002udu.1	-	21	3563	c.3436A>G	c.(3436-3438)ACT>GCT	p.T1146A	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	1146					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TTCATAATAGTGATCCATCCA	0.303													3	7					0	0	0.009096	0	0		C	167269610	C	C	167269610	3	2	123	1	0	0	0	0	1	0	0	0	13948	1696	59	3	1632	3	SCN7A	2	167269610	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	14798669	167269610	75929763	91	68155											
EVX2	344191	broad.mit.edu	37	chr2	176945405	176945405	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccgtgacgcccacgtgcggGtagtagtgcagcggcacgtg	6	6	17	12	6	0	1	0	1	0	0	0	1	0	1	2	2	3	4	2	2	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:176945405G>A	uc010zeu.1	-	3	1047	c.861C>T	c.(859-861)TAC>TAT	p.Y287Y		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	287						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		CCACGTGCGGGTAGTAGTGCA	0.502													3	9					0	0	0.009096	0	0		A	176945405	A	A	176945405	2	1	123	1	0	0	0	0	0	0	0	1	5303	1256	44	4		4	EVX2	2	176945405	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	9675795	176945405	66253968	92	68156											
TTN	7273	broad.mit.edu	37	chr2	179391762	179391762	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggatcgaatatgtatatTcacagtggcagagtcagatc	14	11	10	6	1	2	2	2	0	0	2	4	4	2	3	0	2	0	2	0	2	5	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:179391762T>C	uc010zfg.1	-	312	100473	c.100249A>G	c.(100249-100251)AAT>GAT	p.N33417D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.N27112D|TTN_uc010zfi.1_Missense_Mutation_p.N27045D|TTN_uc010zfj.1_Missense_Mutation_p.N26920D|TTN_uc002umq.2_Missense_Mutation_p.N333D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34344							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATATGTATATTCACAGTGGCA	0.413													9	11					0	0	0.004482	0	0		C	179391762	C	C	179391762	3	2	123	1	0	0	0	0	1	0	0	0	16761	1783	62	3	26	3	TTN	2	179391762	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	2446357	179391762	63807611	93	68157											
TTN	7273	broad.mit.edu	37	chr2	179611264	179611264	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaactccatgacatgctgaTgtgttactggaggtggtagt	10	12	12	7	0	0	2	0	2	0	0	1	3	1	3	1	3	3	3	1	3	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:179611264T>C	uc002unb.2	-	46	16087	c.15863A>G	c.(15862-15864)CAT>CGT	p.H5288R	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GACATGCTGATGTGTTACTGG	0.423													13	38					0	0	0.013537	0	0		C	179611264	C	C	179611264	3	2	123	1	0	0	0	0	1	0	0	0	16761	1464	51	3	94434	3	TTN	2	179611264	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	219502	179611264	63588109	94	68158											
TTN	7273	broad.mit.edu	37	chr2	179638310	179638310	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacctttcacaatggcctgTacacggtcatcaggcttgat	9	12	9	11	1	3	1	3	1	0	0	3	1	3	1	2	3	2	3	2	3	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:179638310T>C	uc010zfg.1	-	32	7697	c.7473A>G	c.(7471-7473)GTA>GTG	p.V2491V	TTN_uc010zfh.1_Silent_p.V2445V|TTN_uc010zfi.1_Silent_p.V2445V|TTN_uc010zfj.1_Silent_p.V2445V|TTN_uc002unb.2_Silent_p.V2491V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2491							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAATGGCCTGTACACGGTCAT	0.443													5	66					0	0	0.021553	0	0		C	179638310	C	C	179638310	2	2	123	1	0	0	0	0	0	0	0	1	16761	1625	57	3		3	TTN	2	179638310	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	27046	179638310	63561063	95	68159											
COL3A1	1281	broad.mit.edu	37	chr2	189852825	189852825	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggccccccaggccctcccGgtccccctggtacatctggt	4	7	11	19	1	1	0	0	0	1	0	3	0	3	0	7	5	1	1	7	5	1	1	rs121912926		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:189852825G>T	uc002uqj.1	+	6	664	c.547G>T	c.(547-549)GGT>TGT	p.G183C		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	183	Triple-helical region.		G -> S (in EDS4).|G -> D (in EDS4).|G -> C (in EDS4).		axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	AGGCCCTCCCGGTCCCCCTGG	0.403													16	62					6.94344e-10	7.34772e-10	0.006122	1	0		T	189852825	T	T	189852825	3	4	123	1	0	0	0	0	1	0	0	0	3691	1116	39	5	569	5	COL3A1	2	189852825	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	10214515	189852825	53346548	96	68160											
DYTN	391475	broad.mit.edu	37	chr2	207572065	207572065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggctcagagtgagttccGgagctctgggatgcacttgt	8	10	15	8	1	2	2	1	1	1	1	3	5	3	4	1	3	2	4	1	3	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:207572065G>A	uc002vbr.1	-	3	374	c.257C>T	c.(256-258)CCG>CTG	p.P86L		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	86						plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		AGTGAGTTCCGGAGCTCTGGG	0.527													17	16					0	0	0.008871	0	0		A	207572065	A	A	207572065	3	1	123	1	0	0	0	0	1	0	0	0	4867	1116	39	1	1519	1	DYTN	2	207572065	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	17719240	207572065	35627308	97	68161											
PIKFYVE	200576	broad.mit.edu	37	chr2	209217472	209217472	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagttagatctccttgtcaTggaaaatcttttctacggga	11	14	9	7	1	4	1	1	0	3	1	5	4	4	3	1	2	1	1	1	2	5	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:209217472T>C	uc002vcz.2	+	39	5968	c.5810T>C	c.(5809-5811)ATG>ACG	p.M1937T		NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1937	Catalytic.|PIPK.				cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						CTCCTTGTCATGGAAAATCTT	0.403													33	79					0	0	0.017118	0	0		C	209217472	C	C	209217472	3	2	123	1	0	0	0	0	1	0	0	0	11943	1464	51	3	5971	3	PIKFYVE	2	209217472	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1645407	209217472	33981901	98	68162											
RUFY4	285180	broad.mit.edu	37	chr2	218947958	218947958	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttggtccaggccatgaagaGgcgggtgttggaactgatcc	8	9	15	9	1	0	3	0	2	0	1	2	4	2	4	3	5	1	1	3	5	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:218947958G>T	uc002vgw.2	+	12	2806	c.962G>T	c.(961-963)AGG>ATG	p.R321M	RUFY4_uc002vgy.1_RNA|RUFY4_uc010fvl.1_Missense_Mutation_p.R321M	NM_198483	NP_940885	Q6ZNE9	RUFY4_HUMAN	RUN and FYVE domain containing 4	494	FYVE-type.						metal ion binding			pancreas(1)	1		Renal(207;0.0915)		Epithelial(149;4.11e-06)|all cancers(144;0.000519)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		GCCATGAAGAGGCGGGTGTTG	0.587													24	59					8.24728e-16	8.9623e-16	0.024334	1	0		T	218947958	T	T	218947958	3	4	123	1	0	0	0	0	1	0	0	0	13766	1000	35	5	1515	5	RUFY4	2	218947958	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	9730486	218947958	24251415	99	68163											
ATG9A	79065	broad.mit.edu	37	chr2	220090164	220090164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttgagcaggcaaaaaggCgtctggcagagtgaccttga	12	7	14	8	1	1	4	0	3	1	1	1	5	1	4	1	3	1	3	1	3	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:220090164C>T	uc002vke.1	-	6	529	c.343G>A	c.(343-345)GCC>ACC	p.A115T	ATG9A_uc002vkd.1_RNA|ATG9A_uc002vkf.1_Missense_Mutation_p.A115T	NM_001077198	NP_001070666	Q7Z3C6	ATG9A_HUMAN	APG9 autophagy 9-like 1	115	Lumenal (By similarity).				autophagic vacuole assembly|protein transport	autophagic vacuole membrane|cytoplasmic vesicle|Golgi apparatus|integral to membrane|late endosome membrane				skin(1)	1		Renal(207;0.0474)		Epithelial(149;1.37e-06)|all cancers(144;0.000222)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGCAAAAAGGCGTCTGGCAGA	0.517													28	76					0	0	0.010818	0	0		T	220090164	T	T	220090164	3	4	123	1	0	0	0	0	1	0	0	0	1103	768	27	1	2220	1	ATG9A	2	220090164	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1142206	220090164	23109209	100	68164											
SPEG	10290	broad.mit.edu	37	chr2	220315865	220315865	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtccggcagagtcttcGgatgactcctacgtgtccgc	5	11	12	13	4	1	2	0	1	1	1	5	3	4	3	3	2	1	1	3	2	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:220315865G>A	uc010fwg.2	+	5	2121	c.2121G>A	c.(2119-2121)TCG>TCA	p.S707S	SPEG_uc002vlm.2_RNA|SPEG_uc010fwh.1_5'UTR|SPEG_uc002vln.1_5'UTR|SPEG_uc002vlp.1_5'UTR	NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	707					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CAGAGTCTTCGGATGACTCCT	0.602													64	142					0	0	0.01441	0	0		A	220315865	A	A	220315865	2	1	123	1	0	0	0	0	0	0	0	1	15061	1103	39	1		1	SPEG	2	220315865	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	225701	220315865	22883508	101	68165											
DOCK10	55619	broad.mit.edu	37	chr2	225710332	225710332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaatatggtgtttctcatGgagttgtgttggtagctcaa	10	15	11	5	0	2	0	2	0	1	0	3	1	2	1	0	3	1	5	0	3	5	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:225710332G>A	uc010fwz.1	-	20	2502	c.2263C>T	c.(2263-2265)CAT>TAT	p.H755Y	DOCK10_uc002vob.2_Missense_Mutation_p.H749Y	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	755	DHR-1.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		TGTTTCTCATGGAGTTGTGTT	0.388													33	100					0	0	0.017118	0	0		A	225710332	A	A	225710332	3	1	123	1	0	0	0	0	1	0	0	0	4691	1348	47	4	4445	4	DOCK10	2	225710332	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	5394467	225710332	17489041	102	68166											
WDR69	164781	broad.mit.edu	37	chr2	228786191	228786191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaatctgggatgctcagaCtggccagtgcctccaggttc	8	10	12	11	0	2	2	1	0	1	2	4	3	3	3	3	3	2	2	3	3	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:228786191C>T	uc002vpn.1	+	12	1206	c.1127C>T	c.(1126-1128)ACT>ATT	p.T376I	WDR69_uc010zlw.1_Missense_Mutation_p.T361I|WDR69_uc002vpo.1_RNA	NM_178821	NP_849143	Q8N136	WDR69_HUMAN	WD repeat domain 69	376	WD 7.									breast(1)	1		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;1.22e-10)|all cancers(144;8.11e-08)|Lung(261;0.011)|LUSC - Lung squamous cell carcinoma(224;0.0148)		GATGCTCAGACTGGCCAGTGC	0.433													36	80					0	0	0.017118	0	0		T	228786191	T	T	228786191	3	4	123	1	0	0	0	0	1	0	0	0	17345	565	20	4	1173	4	WDR69	2	228786191	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3075859	228786191	14413182	103	68167											
ANKMY1	51281	broad.mit.edu	37	chr2	241447085	241447085	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggttggggtcagctccCtgggtcaggagctccttcac	5	9	15	12	0	3	0	3	0	0	0	5	1	5	1	2	6	2	4	2	6	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:241447085C>A	uc002vyz.1	-	12	2380	c.2151G>T	c.(2149-2151)CAG>CAT	p.Q717H	ANKMY1_uc002vza.1_Missense_Mutation_p.Q493H|ANKMY1_uc010fzd.1_Missense_Mutation_p.Q806H|ANKMY1_uc002vzb.1_Missense_Mutation_p.Q478H|ANKMY1_uc002vzc.1_Intron|ANKMY1_uc002vzd.1_Missense_Mutation_p.Q540H	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	717	ANK 6.						zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		GGTCAGCTCCCTGGGTCAGGA	0.602													18	45					1.40151e-16	1.52758e-16	0.010504	1	0		A	241447085	A	A	241447085	3	1	123	1	0	0	0	0	1	0	0	0	634	680	24	5	698	5	ANKMY1	2	241447085	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	12660894	241447085	1752288	104	68168											
SNED1	25992	broad.mit.edu	37	chr2	241973177	241973177	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacattccagactgtgctcaTcacagacggcaagctctcct	10	9	7	15	1	3	2	2	0	1	2	5	2	4	2	2	1	2	3	2	1	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:241973177T>C	uc002wah.1	+	3	527	c.527T>C	c.(526-528)ATC>ACC	p.I176T		NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	176	NIDO.				cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		ACTGTGCTCATCACAGACGGC	0.632													7	15					0	0	0.004482	0	0		C	241973177	C	C	241973177	3	2	123	1	0	0	0	0	1	0	0	0	14870	1435	50	3	537	3	SNED1	2	241973177	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	526092	241973177	1226196	105	68169											
PDCD1	5133	broad.mit.edu	37	chr2	242795104	242795104	+	Frame_Shift_Del	DEL	G	-	-																															agcagggctggggagaaggtGggggggttccagggcctgtc																								rs41444844	byFrequency	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr2:242795104delG	uc002wcq.3	-	2	173	c.105delC	c.(103-105)CCCfs	p.P35fs	PDCD1_uc010fzs.2_5'UTR|PDCD1_uc010fzt.2_RNA	NM_005018	NP_005009	Q15116	PDCD1_HUMAN	programmed cell death 1 precursor	35	Ig-like V-type.|Extracellular (Potential).				apoptosis|humoral immune response|multicellular organismal development|T cell costimulation	integral to membrane	protein tyrosine phosphatase activity|signal transducer activity			ovary(1)	1		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;3.84e-33)|all cancers(36;8.08e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.41e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0219)		GGGAGAAGGTGGGGGGGTTCC	0.632													3	5	---	---	---	---						.	-	242795104	-	-	242795104	7	5	123	1	0	1	0	1	0	0	0	0	11634	1335	47	0	777	0	PDCD1	2	242795104	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	821927	242795104	404269	106	68170											
IL5RA	3568	broad.mit.edu	37	chr3	3134038	3134038	+	Frame_Shift_Del	DEL	T	-	-																															atgaatgcattggtcatcaaTttttctatctaagtggggaa																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:3134038delT	uc011ask.1	-	10	1508	c.864delA	c.(862-864)AAAfs	p.K288fs	IL5RA_uc010hbq.2_Intron|IL5RA_uc010hbr.2_Intron|IL5RA_uc010hbs.2_Frame_Shift_Del_p.K288fs|IL5RA_uc011asl.1_Frame_Shift_Del_p.K288fs|IL5RA_uc011asm.1_Frame_Shift_Del_p.K288fs|IL5RA_uc010hbt.2_Frame_Shift_Del_p.K288fs|IL5RA_uc011asn.1_Frame_Shift_Del_p.K288fs|IL5RA_uc010hbu.2_Frame_Shift_Del_p.K288fs|IL5RA_uc010hbp.2_5'UTR	NM_000564	NP_000555	Q01344	IL5RA_HUMAN	interleukin 5 receptor, alpha isoform 1	288	Extracellular (Potential).				cell proliferation	extracellular space|integral to membrane|plasma membrane	interleukin-5 receptor activity			ovary(1)	1				Epithelial(13;0.00278)|all cancers(10;0.00809)|OV - Ovarian serous cystadenocarcinoma(96;0.00944)		TGGTCATCAATTTTTCTATCT	0.408													36	75	---	---	---	---						.	-	3134038	-	-	3134038	7	5	123	1	0	1	0	1	0	0	0	0	7716	1490	52	0	440	0	IL5RA	3	3134038	Frame_Shift_Del	DEL	T	TCGA-CD-A4MJ-01A-11D-A25D-08		3134038	194888392	107	68171											
SRGAP3	9901	broad.mit.edu	37	chr3	9057396	9057396	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatctcgttcattttgatcGtccacaagggggtcttcacc	8	14	8	11	2	4	1	2	1	2	0	7	1	5	1	2	2	0	1	2	2	2	5	rs141284390	byFrequency	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:9057396G>A	uc003brf.1	-	15	2374	c.1698C>T	c.(1696-1698)GAC>GAT	p.D566D	SRGAP3_uc003brg.1_Silent_p.D542D|SRGAP3_uc003bri.1_RNA	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	566	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		CATTTTGATCGTCCACAAGGG	0.448			T	RAF1	pilocytic astrocytoma								21	64					0	0	0.024334	0	0		A	9057396	A	A	9057396	2	1	123	1	0	0	0	0	0	0	0	1	15172	1136	40	1		1	SRGAP3	3	9057396	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	5923358	9057396	188965034	108	68172											
TTC21A	199223	broad.mit.edu	37	chr3	39166987	39166987	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacccgtacttcctggtctgCattgctaaggagtacttgct	7	13	10	11	1	1	0	0	0	1	0	2	2	2	1	2	2	5	5	2	2	3	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:39166987C>T	uc003cjc.2	+	11	1557	c.1380C>T	c.(1378-1380)TGC>TGT	p.C460C	TTC21A_uc003cje.2_Silent_p.C460C|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Silent_p.C411C	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	460							binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		TCCTGGTCTGCATTGCTAAGG	0.552													11	137					0	0	0.013537	0	0		T	39166987	T	T	39166987	2	4	123	1	0	0	0	0	0	0	0	1	16713	718	25	2		2	TTC21A	3	39166987	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	30109591	39166987	158855443	109	68173											
TRAK1	22906	broad.mit.edu	37	chr3	42244155	42244155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccctgggcacgcactcccGcttctccgagttcaccggct	4	9	10	18	4	2	0	1	0	1	0	5	1	4	0	4	2	0	5	4	2	0	2	rs149693845		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:42244155G>A	uc003cky.2	+	13	1871	c.1655G>A	c.(1654-1656)CGC>CAC	p.R552H	TRAK1_uc011azh.1_Missense_Mutation_p.R552H|TRAK1_uc011azi.1_Missense_Mutation_p.R552H|TRAK1_uc003ckz.3_Missense_Mutation_p.R478H|TRAK1_uc011azj.1_Missense_Mutation_p.R478H|TRAK1_uc003cla.2_Missense_Mutation_p.R494H	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	552					endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						ACGCACTCCCGCTTCTCCGAG	0.632													28	61					0	0	0.009535	0	0		A	42244155	A	A	42244155	3	1	123	1	0	0	0	0	1	0	0	0	16475	1087	38	1	1821	1	TRAK1	3	42244155	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3077168	42244155	155778275	110	68174											
KLHL18	23276	broad.mit.edu	37	chr3	47385423	47385423	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctgcatccctctcctcAccatctaaggcagaggatgg	8	9	11	13	0	3	1	1	0	2	1	5	2	4	2	3	4	1	3	3	4	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:47385423A>G	uc003crd.2	+	10	1843	c.1717A>G	c.(1717-1719)ACC>GCC	p.T573A	KLHL18_uc011bav.1_Missense_Mutation_p.T461A	NM_025010	NP_079286	O94889	KLH18_HUMAN	kelch-like 18	573											0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)		CCCTCTCCTCACCATCTAAGG	0.592													45	74					0	0	0.011902	0	0		G	47385423	G	G	47385423	3	3	123	1	0	0	0	0	1	0	0	0	8389	159	6	3	1755	3	KLHL18	3	47385423	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	5141268	47385423	150637007	111	68175											
PTPN23	25930	broad.mit.edu	37	chr3	47453351	47453351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcctggcattgagcagcGtccgcagcaccgaaacccat	10	6	11	14	3	0	2	0	2	0	0	1	3	1	2	4	1	5	4	4	1	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:47453351G>A	uc003crf.1	+	21	4063	c.3967G>A	c.(3967-3969)GTC>ATC	p.V1323I	PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.V1193I|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1323	Tyrosine-protein phosphatase.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		ATTGAGCAGCGTCCGCAGCAC	0.622													26	59					0	0	0.00632	0	0		A	47453351	A	A	47453351	3	1	123	1	0	0	0	0	1	0	0	0	12813	1145	40	1	4049	1	PTPN23	3	47453351	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	67928	47453351	150569079	112	68176											
SMARCC1	6599	broad.mit.edu	37	chr3	47651742	47651742	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccatttgctgtcgtgctcGtaattcagcatacttcagct	7	16	7	11	2	2	0	2	0	0	0	5	0	3	0	1	0	5	5	1	0	2	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:47651742G>A	uc003crq.2	-	26	2975	c.2857C>T	c.(2857-2859)CGA>TGA	p.R953*	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Nonsense_Mutation_p.R844*	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	953					chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		TGTCGTGCTCGTAATTCAGCA	0.532													17	253					0	0	0.00499	0	0		A	47651742	A	A	47651742	4	1	123	1	0	0	0	0	0	1	0	0	14800	1153	40	1	472	1	SMARCC1	3	47651742	Nonsense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	198391	47651742	150370688	113	68177											
PLXNB1	5364	broad.mit.edu	37	chr3	48465485	48465485	+	Frame_Shift_Del	DEL	C	-	-																															ttgtgatgggtggaatgccaCcccccacacccctgctggtg																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:48465485delC	uc003csw.2	-	3	806	c.536delG	c.(535-537)GGTfs	p.G179fs	PLXNB1_uc003csu.2_Frame_Shift_Del_p.G179fs|PLXNB1_uc003csx.2_Frame_Shift_Del_p.G179fs|PLXNB1_uc010hjx.1_RNA	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	179	Extracellular (Potential).|Sema.				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TGGAATGCCACCCCCCACACC	0.672													4	9	---	---	---	---						.	-	48465485	-	-	48465485	7	5	123	1	0	1	0	1	0	0	0	0	12142	507	18	0	6015	0	PLXNB1	3	48465485	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08	813743	48465485	149556945	114	68178											
IP6K1	9807	broad.mit.edu	37	chr3	49775738	49775738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggcgggagtgtttgcgcCgaggttgctcccgttctgtt	2	13	15	11	5	1	0	0	0	1	0	3	2	3	1	3	3	2	5	3	3	0	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:49775738C>T	uc003cxm.1	-	3	656	c.341G>A	c.(340-342)CGG>CAG	p.R114Q	IP6K1_uc003cxn.1_5'UTR|IP6K1_uc011bcv.1_5'UTR|IP6K1_uc003cxo.2_Missense_Mutation_p.R114Q	NM_153273	NP_695005	Q92551	IP6K1_HUMAN	inositol hexakisphosphate kinase 1 isoform 1	114					phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						GTGTTTGCGCCGAGGTTGCTC	0.552													23	54					0	0	0.014323	0	0		T	49775738	T	T	49775738	3	4	123	1	0	0	0	0	1	0	0	0	7804	652	23	1	1000	1	IP6K1	3	49775738	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1310253	49775738	148246692	115	68179											
GNAT1	2779	broad.mit.edu	37	chr3	50231585	50231585	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatccactgcttcgagggCgtgacctgcatcatcttcat	7	12	10	12	2	3	1	2	1	1	0	5	3	4	2	2	2	2	2	2	2	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:50231585C>T	uc003cym.2	+	6	755	c.639C>T	c.(637-639)GGC>GGT	p.G213G	GNAT1_uc003cyl.2_Silent_p.G213G	NM_144499	NP_653082	P11488	GNAT1_HUMAN	rod-type transducin alpha subunit	213					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|negative regulation of cyclic-nucleotide phosphodiesterase activity|rhodopsin mediated phototransduction|sensory perception of umami taste	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	acyl binding|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GDP binding|GTP binding|GTPase activity|protein kinase binding|signal transducer activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		GCTTCGAGGGCGTGACCTGCA	0.682													5	19					0	0	0.014758	0	0		T	50231585	T	T	50231585	2	4	123	1	0	0	0	0	0	0	0	1	6526	755	27	1		1	GNAT1	3	50231585	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	455847	50231585	147790845	116	68180											
DNAH1	25981	broad.mit.edu	37	chr3	52426908	52426908	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgacgcgcatggagtacatAcccgtggccatccgcaccca	9	6	10	16	4	0	1	0	1	0	0	1	2	1	2	4	2	2	3	4	2	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:52426908A>G	uc011bef.1	+	65	10602	c.10341A>G	c.(10339-10341)ATA>ATG	p.I3447M	DNAH1_uc003ddv.2_Missense_Mutation_p.I305M	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3512					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TGGAGTACATACCCGTGGCCA	0.572													36	151					0	0	0.023175	0	0		G	52426908	G	G	52426908	3	3	123	1	0	0	0	0	1	0	0	0	4603	381	14	3	10595	3	DNAH1	3	52426908	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	2195323	52426908	145595522	117	68181											
NISCH	11188	broad.mit.edu	37	chr3	52512141	52512141	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaccttgtgcatctggaccTgtcctacaacaagctctcct	9	12	6	14	0	2	0	0	0	2	0	4	1	3	1	4	1	5	2	4	1	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:52512141T>C	uc011beg.1	+	11	1088	c.1016T>C	c.(1015-1017)CTG>CCG	p.L339P	NISCH_uc003ded.3_Missense_Mutation_p.L339P|NISCH_uc003dec.1_Missense_Mutation_p.L339P	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	339	LRR 3.|Necessary for homooligomerization and targeting to endosomes.|Interaction with PAK1 (By similarity).				apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		CATCTGGACCTGTCCTACAAC	0.537													26	67					0	0	0.024334	0	0		C	52512141	C	C	52512141	3	2	123	1	0	0	0	0	1	0	0	0	10451	1580	55	3	1054	3	NISCH	3	52512141	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	85233	52512141	145510289	118	68182											
STAB1	23166	broad.mit.edu	37	chr3	52551354	52551354	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaattaacagctgtctcaTccaccacgggggctgccaca	12	7	9	13	1	1	1	1	0	1	1	3	1	2	1	3	2	3	2	3	2	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:52551354T>C	uc003dej.2	+	43	4582	c.4508T>C	c.(4507-4509)ATC>ACC	p.I1503T	STAB1_uc003dek.1_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1503	EGF-like 12.|Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		AGCTGTCTCATCCACCACGGG	0.612													16	46					0	0	0.008871	0	0		C	52551354	C	C	52551354	3	2	123	1	0	0	0	0	1	0	0	0	15262	1435	50	3	4678	3	STAB1	3	52551354	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	39213	52551354	145471076	119	68183											
CACNA1D	776	broad.mit.edu	37	chr3	53785815	53785815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgaaagcacgtcccttgCggagatacatccccaaaaac	13	7	7	14	2	0	2	0	1	0	1	2	3	2	2	4	1	4	1	4	1	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:53785815C>T	uc003dgv.3	+	28	3719	c.3556C>T	c.(3556-3558)CGG>TGG	p.R1186W	CACNA1D_uc003dgu.3_Missense_Mutation_p.R1206W|CACNA1D_uc003dgy.3_Missense_Mutation_p.R1186W|CACNA1D_uc003dgw.3_Missense_Mutation_p.R853W|CACNA1D_uc003dgx.1_Missense_Mutation_p.R334W	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1186	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	ACGTCCCTTGCGGAGATACAT	0.512													48	118					0	0	0.01441	0	0		T	53785815	T	T	53785815	3	4	123	1	0	0	0	0	1	0	0	0	2544	759	27	1	3838	1	CACNA1D	3	53785815	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1234461	53785815	144236615	120	68184											
LRIG1	26018	broad.mit.edu	37	chr3	66434487	66434487	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtacagctgtaaacccctgCgtcatctattttcacatcag	11	12	6	12	1	4	0	3	0	1	0	4	0	4	0	2	0	4	3	2	0	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:66434487C>T	uc003dmx.2	-	14	2013	c.1999G>A	c.(1999-2001)GCA>ACA	p.A667T	SLC25A26_uc011bft.1_Intron|LRIG1_uc011bfu.1_Missense_Mutation_p.A287T|LRIG1_uc003dmw.2_Missense_Mutation_p.A333T|LRIG1_uc010hnz.2_Missense_Mutation_p.A383T|LRIG1_uc010hoa.2_Intron	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	667	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		TAAACCCCTGCGTCATCTATT	0.493													21	52					0	0	0.008871	0	0		T	66434487	T	T	66434487	3	4	123	1	0	0	0	0	1	0	0	0	8962	768	27	1	1306	1	LRIG1	3	66434487	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	12648672	66434487	131587943	121	68185											
LRIG1	26018	broad.mit.edu	37	chr3	66465353	66465353	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtactcacagttgtgtcAgcctgggtagcttgaatgct	7	14	11	9	0	3	1	2	1	1	0	3	1	3	1	1	1	4	5	1	1	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:66465353A>G	uc003dmx.2	-	5	652	c.638T>C	c.(637-639)CTG>CCG	p.L213P	LRIG1_uc010hnz.2_5'UTR|LRIG1_uc010hoa.2_Missense_Mutation_p.L213P	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	213	Extracellular (Potential).|LRR 7.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		CAGTTGTGTCAGCCTGGGTAG	0.488													39	107					0	0	0.00874	0	0		G	66465353	G	G	66465353	3	3	123	1	0	0	0	0	1	0	0	0	8962	188	7	3	2703	3	LRIG1	3	66465353	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	30866	66465353	131557077	122	68186											
PDZRN3	23024	broad.mit.edu	37	chr3	73433871	73433871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgctgaagggcaggtcgcCgctgcccaaggtgtcctggc	5	8	16	12	2	0	1	0	1	0	0	2	1	1	1	3	4	2	4	3	4	2	1	rs139110477		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:73433871C>T	uc003dpl.1	-	10	1942	c.1846G>A	c.(1846-1848)GGC>AGC	p.G616S	PDZRN3_uc011bgh.1_Missense_Mutation_p.G273S|PDZRN3_uc010hoe.1_Missense_Mutation_p.G314S|PDZRN3_uc011bgf.1_Missense_Mutation_p.G333S|PDZRN3_uc011bgg.1_Missense_Mutation_p.G336S	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	616							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GGCAGGTCGCCGCTGCCCAAG	0.657													36	72					0	0	0.015359	0	0		T	73433871	T	T	73433871	3	4	123	1	0	0	0	0	1	0	0	0	11728	652	23	1	1358	1	PDZRN3	3	73433871	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	6968518	73433871	124588559	123	68187											
CRYBG3	131544	broad.mit.edu	37	chr3	97595968	97595968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgacaagaggagagagaCagattatagtgacaaaggat	19	7	12	3	0	0	6	0	2	0	4	0	9	0	7	0	2	0	0	0	2	5	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:97595968C>T	uc003drx.2	+	1	150	c.86C>T	c.(85-87)ACA>ATA	p.T29I		NM_153605	NP_705833			beta-gamma crystallin domain containing 3												0						AGGAGAGAGACAGATTATAGT	0.383													14	37					0	0	0.020292	0	0		T	97595968	T	T	97595968	3	4	123	1	0	0	0	0	1	0	0	0	3916	478	17	4	88	4	CRYBG3	3	97595968	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	24162097	97595968	100426462	124	68188											
GABRR3	200959	broad.mit.edu	37	chr3	97731387	97731387	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtctttccagtaatgccTgagataaaaagtcattgtaa	13	13	7	8	1	2	1	1	1	1	1	4	2	3	1	2	0	1	2	2	0	5	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:97731387T>C	uc011bgr.1	-	4	331	c.331A>G	c.(331-333)AGG>GGG	p.R111G		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	111	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0						CAGTAATGCCTGAGATAAAAA	0.413													14	39					0	0	0.024245	0	0		C	97731387	C	C	97731387	3	2	123	1	0	0	0	0	1	0	0	0	6192	1579	55	3	1095	3	GABRR3	3	97731387	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	135419	97731387	100291043	125	68189											
CCDC14	64770	broad.mit.edu	37	chr3	123633732	123633732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcatcacgagaagtgaacGttgaaaacgaagagatgctc	15	8	11	7	3	2	4	2	2	0	2	3	7	2	4	0	0	3	3	0	0	5	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:123633732G>A	uc011bjx.1	-	13	2847	c.2756C>T	c.(2755-2757)ACG>ATG	p.T919M	CCDC14_uc003egv.3_Missense_Mutation_p.T560M|CCDC14_uc003egx.3_Missense_Mutation_p.T719M|CCDC14_uc010hrt.2_Missense_Mutation_p.T878M|CCDC14_uc003egy.3_Missense_Mutation_p.T719M|CCDC14_uc003egz.2_3'UTR	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	919						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		AGAAGTGAACGTTGAAAACGA	0.443													13	18					0	0	0.013537	0	0		A	123633732	A	A	123633732	3	1	123	1	0	0	0	0	1	0	0	0	2776	1145	40	1	109	1	CCDC14	3	123633732	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	25902345	123633732	74388698	126	68190											
SEC61A1	29927	broad.mit.edu	37	chr3	127783746	127783746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatttgaaggtgctatcatcGcacttttccatctgctggcc	8	14	8	11	1	2	1	1	1	1	0	4	1	3	1	2	2	2	3	2	2	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:127783746G>A	uc003ekb.2	+	8	827	c.643G>A	c.(643-645)GCA>ACA	p.A215T	RUVBL1_uc003eke.2_3'UTR|RUVBL1_uc003ekf.2_3'UTR|SEC61A1_uc003ekc.2_Missense_Mutation_p.A162T|SEC61A1_uc003ekd.2_Missense_Mutation_p.A95T|SEC61A1_uc003ekg.2_5'UTR	NM_013336	NP_037468	P61619	S61A1_HUMAN	Sec61 alpha 1 subunit	215	Lumenal (Potential).				protein targeting to ER	integral to endoplasmic reticulum membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity|protein binding|ribosome binding			ovary(1)	1						TGCTATCATCGCACTTTTCCA	0.507													25	54					0	0	0.021523	0	0		A	127783746	A	A	127783746	3	1	123	1	0	0	0	0	1	0	0	0	14025	1087	38	1	673	1	SEC61A1	3	127783746	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4150014	127783746	70238684	127	68191											
CLSTN2	64084	broad.mit.edu	37	chr3	140122508	140122508	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatccatggccaggagctGccctttgaggctgtggtgct	7	10	14	10	0	0	2	0	1	0	1	1	3	1	3	3	4	3	3	3	4	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:140122508G>T	uc003etn.2	+	3	460	c.270G>T	c.(268-270)CTG>CTT	p.L90L	CLSTN2_uc003etm.2_Silent_p.L90L	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	90	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						GCCAGGAGCTGCCCTTTGAGG	0.527										HNSCC(16;0.037)			56	133					2.44813e-32	2.75937e-32	0.01441	1	0		T	140122508	T	T	140122508	2	4	123	1	0	0	0	0	0	0	0	1	3565	1306	46	5		5	CLSTN2	3	140122508	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	12338762	140122508	57899922	128	68192											
TRIM42	287015	broad.mit.edu	37	chr3	140407105	140407105	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actttcagcacccacagcctCggcaaccagcacatatacca	13	6	5	17	1	1	0	1	0	0	0	2	0	1	0	4	1	5	3	4	1	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:140407105C>T	uc003eto.1	+	3	1772	c.1581C>T	c.(1579-1581)CTC>CTT	p.L527L		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	527						intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						CCCACAGCCTCGGCAACCAGC	0.582													38	77					0	0	0.009718	0	0		T	140407105	T	T	140407105	2	4	123	1	0	0	0	0	0	0	0	1	16543	871	31	1		1	TRIM42	3	140407105	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	284597	140407105	57615325	129	68193											
SR140	23350	broad.mit.edu	37	chr3	142775212	142775212	+	Frame_Shift_Del	DEL	A	-	-																															gatcacggtctagatctcctAaaaaatcaggaaagaagtcc																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:142775212delA	uc003evh.1	+	28	3109	c.3010delA	c.(3010-3012)AAAfs	p.K1004fs	SR140_uc003evi.1_Frame_Shift_Del_p.K595fs|SR140_uc003evj.1_RNA|SR140_uc003evk.1_Frame_Shift_Del_p.K1003fs	NM_001080415	NP_001073884	O15042	SR140_HUMAN	U2-associated SR140 protein	1004					RNA processing	nucleus	nucleotide binding|RNA binding				0						TAGATCTCCTAAAAAATCAGG	0.383													11	20	---	---	---	---						.	-	142775212	-	-	142775212	7	5	123	1	0	1	0	1	0	0	0	0	15156	363	13	0	3120	0	SR140	3	142775212	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	2368107	142775212	55247218	130	68194											
SIAH2	6478	broad.mit.edu	37	chr3	150460067	150460067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcatgaatcgaacggggcGtggcctcccaggtcaatctc	8	8	12	13	4	3	1	2	1	1	0	6	2	4	1	2	4	1	0	2	4	3	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:150460067G>A	uc003eyi.2	-	2	1463	c.836C>T	c.(835-837)ACG>ATG	p.T279M		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	279	SBD.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CGAACGGGGCGTGGCCTCCCA	0.547													25	41					0	0	0.021523	0	0		A	150460067	A	A	150460067	3	1	123	1	0	0	0	0	1	0	0	0	14325	1145	40	1	142	1	SIAH2	3	150460067	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	7684855	150460067	47562363	131	68195											
IGSF10	285313	broad.mit.edu	37	chr3	151176381	151176381	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaatgtgcagtgtacctcCgtaggcatataacaggcaca	13	8	10	10	2	0	0	0	0	0	0	1	1	1	0	2	2	3	5	2	2	5	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:151176381C>T	uc011bod.1	-	1	117	c.117G>A	c.(115-117)ACG>ACA	p.T39T		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	39	LRRNT.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AGTGTACCTCCGTAGGCATAT	0.562													13	44					0	0	0.016723	0	0		T	151176381	T	T	151176381	2	4	123	1	0	0	0	0	0	0	0	1	7613	639	23	1		1	IGSF10	3	151176381	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	716314	151176381	46846049	132	68196											
ZBBX	79740	broad.mit.edu	37	chr3	167016150	167016150	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaacgatgagaaggaagtaAgttgagtctttcatttgtat	14	14	10	3	1	2	2	1	2	1	1	2	5	2	3	0	1	1	3	0	1	6	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:167016150A>C	uc003fep.2	-	18	2145	c.1822T>G	c.(1822-1824)TTA>GTA	p.L608V	ZBBX_uc011bpc.1_Missense_Mutation_p.L608V|ZBBX_uc003feq.2_Missense_Mutation_p.L579V	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	608						intracellular	zinc ion binding			ovary(2)	2						GAAGGAAGTAAGTTGAGTCTT	0.328													25	75					0	0	0.007291	0	0		C	167016150	C	C	167016150	3	2	123	1	0	0	0	0	1	0	0	0	17542	69	3	5	596	5	ZBBX	3	167016150	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	15839769	167016150	31006280	133	68197											
KNG1	3827	broad.mit.edu	37	chr3	186459703	186459704	+	Frame_Shift_Ins	INS	-	A	A																															gtcatggccacggaaaacatINSaaaaataaaggcaaaaagaa																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:186459703_186459704insA	uc011bsa.1	+	10	1730_1731	c.1518_1519insA	c.(1516-1521)CATAAAfs	p.H506fs	KNG1_uc003fqr.2_Intron	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	506_507	|His-rich.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	ACGGAAAACATAAAAATAAAGG	0.421													18	34	---	---	---	---						.	A	186459704	A	A	186459703	7	5	123	1	0	1	1	0	0	0	0	0	8443	1403	49	0	1556	0	KNG1	3	186459703	Frame_Shift_Ins	INS	-	TCGA-CD-A4MJ-01A-11D-A25D-08	19443553	186459703	11562727	134	68198											
EIF4A2	1974	broad.mit.edu	37	chr3	186502807	186502807	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaagacagccacatttgctAtttccatcctgcaacagttg	11	11	7	12	0	0	1	0	0	0	1	2	1	2	1	3	0	4	4	3	0	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:186502807A>G	uc003fqs.2	+	4	304	c.265A>G	c.(265-267)ATT>GTT	p.I89V	EIF4A2_uc003fqt.2_RNA|EIF4A2_uc003fqu.2_Missense_Mutation_p.I90V|EIF4A2_uc003fqv.2_Intron|EIF4A2_uc003fqw.2_Intron|EIF4A2_uc011bsb.1_5'Flank|MIR1248_hsa-mir-1248|MI0006383_5'Flank|SNORA81_uc010hyv.1_5'Flank|SNORA63_uc010hyw.1_5'Flank|SNORA4_uc010hyx.1_5'Flank	NM_001967	NP_001958	Q14240	IF4A2_HUMAN	eukaryotic translation initiation factor 4A2	89	Helicase ATP-binding.				interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|protein binding|translation initiation factor activity			ovary(2)|breast(2)	4	all_cancers(143;2.68e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.07e-20)	GBM - Glioblastoma multiforme(93;0.0704)		CACATTTGCTATTTCCATCCT	0.443			T	BCL6	NHL								33	90					0	0	0.015359	0	0		G	186502807	G	G	186502807	3	3	123	1	0	0	0	0	1	0	0	0	5033	449	16	3	279	3	EIF4A2	3	186502807	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	43104	186502807	11519623	135	68199											
TM4SF19	116211	broad.mit.edu	37	chr3	196050848	196050848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagacggagttccagagcGaacggtcatacagataattc	13	7	12	9	3	1	3	1	0	0	3	3	5	2	4	1	3	3	2	1	3	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr3:196050848G>A	uc003fwl.1	-	5	595	c.470C>T	c.(469-471)TCG>TTG	p.S157L	TM4SF19_uc003fwj.2_RNA|uc003fwk.1_Missense_Mutation_p.R38Q|TM4SF19_uc010iad.1_Missense_Mutation_p.R156C|TM4SF19_uc011btv.1_Missense_Mutation_p.S131L	NM_138461	NP_612470	Q96DZ7	T4S19_HUMAN	transmembrane 4 L six family member 19	157	Extracellular (Potential).					integral to membrane					0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;4.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		GTTCCAGAGCGAACGGTCATA	0.542													10	31					0	0	0.006214	0	0		A	196050848	A	A	196050848	3	1	123	1	0	0	0	0	1	0	0	0	15993	1059	37	1	163	1	TM4SF19	3	196050848	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	9548041	196050848	1971582	136	68200											
MFSD7	84179	broad.mit.edu	37	chr4	680446	680446	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaccaagtcctcagcaaTgacgtcagccacaggtgcaa	13	5	10	13	1	2	1	2	1	0	0	3	2	3	2	3	2	3	2	3	2	3	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:680446T>C	uc003gay.2	-	2	226	c.169A>G	c.(169-171)ATT>GTT	p.I57V	MFSD7_uc003gaw.2_5'Flank|MFSD7_uc003gax.2_Missense_Mutation_p.I57V|MFSD7_uc003gaz.2_Intron|MFSD7_uc003gba.2_Missense_Mutation_p.I57V|MFSD7_uc003gbb.1_5'UTR	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	57					transmembrane transport	integral to membrane					0						TCCTCAGCAATGACGTCAGCC	0.627													34	75					0	0	0.019004	0	0		C	680446	C	C	680446	3	2	123	1	0	0	0	0	1	0	0	0	9555	1464	51	3	1546	3	MFSD7	4	680446	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08		680446	190473830	137	68201											
LIAS	11019	broad.mit.edu	37	chr4	39471655	39471655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagtaaggttcgtgatcctCgggccaattttgatcagtcc	8	12	10	11	2	1	2	1	2	0	0	5	2	3	2	4	2	0	2	4	2	2	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:39471655C>T	uc003guf.2	+	8	827	c.754C>T	c.(754-756)CGG>TGG	p.R252W	LIAS_uc003gug.2_Missense_Mutation_p.R252W|LIAS_uc003guh.2_Missense_Mutation_p.R209W	NM_006859	NP_006850	O43766	LIAS_HUMAN	lipoic acid synthetase isoform 1 precursor	252					inflammatory response|response to lipopolysaccharide|response to oxidative stress	mitochondrion	4 iron, 4 sulfur cluster binding|lipoate synthase activity|metal ion binding				0					Lipoic Acid(DB00166)	TCGTGATCCTCGGGCCAATTT	0.418													9	45					0	0	0.010729	0	0		T	39471655	T	T	39471655	3	4	123	1	0	0	0	0	1	0	0	0	8794	875	31	1	784	1	LIAS	4	39471655	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	38791209	39471655	151682621	138	68202											
PHOX2B	8929	broad.mit.edu	37	chr4	41748277	41748277	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccgttcttggccgcggcCgctgcggctgccgctgcgcg	1	7	17	16	8	1	0	0	0	1	0	1	1	1	0	4	3	4	4	4	3	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:41748277C>T	uc003gwf.3	-	3	852	c.492G>A	c.(490-492)GCG>GCA	p.A164A		NM_003924	NP_003915	Q99453	PHX2B_HUMAN	paired-like homeobox 2b	164	Poly-Ala.				positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			autonomic_ganglia(7)|lung(2)|ovary(2)|central_nervous_system(1)	12						TGGCCGCGGCCGCTGCGGCTG	0.662			Mis|F		neuroblastoma	neuroblastoma	congenital central hypoventilation syndrome		Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				17	44					0	0	0.010504	0	0		T	41748277	T	T	41748277	2	4	123	1	0	0	0	0	0	0	0	1	11878	639	23	1		1	PHOX2B	4	41748277	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2276622	41748277	149405999	139	68203											
GRXCR1	389207	broad.mit.edu	37	chr4	43032468	43032468	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagcaagatgtccatgtttCgaaactgcttcacagactct	11	11	9	10	1	2	2	1	0	1	2	4	4	3	3	1	1	3	3	1	1	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:43032468C>T	uc003gwt.2	+	4	784	c.784C>T	c.(784-786)CGA>TGA	p.R262*		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	262					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						GTCCATGTTTCGAAACTGCTT	0.473													39	121					0	0	0.00874	0	0		T	43032468	T	T	43032468	4	4	123	1	0	0	0	0	0	1	0	0	6828	876	31	1	798	1	GRXCR1	4	43032468	Nonsense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1284191	43032468	148121808	140	68204											
KCTD8	386617	broad.mit.edu	37	chr4	44450458	44450458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggggcggcggcggccgacGcgccgggcgagctggacgag	4	1	22	14	10	0	0	0	0	0	0	0	4	0	1	3	7	1	1	3	7	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:44450458G>A	uc003gwu.2	-	1	367	c.83C>T	c.(82-84)GCG>GTG	p.A28V		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	28						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						ggcggccgacgcgccgggcgA	0.527										HNSCC(17;0.042)			6	10					0	0	0.001984	0	0		A	44450458	A	A	44450458	3	1	123	1	0	0	0	0	1	0	0	0	8131	1087	38	1	1346	1	KCTD8	4	44450458	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1417990	44450458	146703818	141	68205											
GABRA2	2555	broad.mit.edu	37	chr4	46314590	46314590	+	Frame_Shift_Del	DEL	T	-	-																															gtcatattatgagctactgaTtttttcccattgtgaaaaaa																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:46314590delT	uc003gxc.3	-	4	1072	c.399delA	c.(397-399)AAAfs	p.K133fs	GABRA2_uc010igc.2_Frame_Shift_Del_p.K133fs|GABRA2_uc011bzc.1_Frame_Shift_Del_p.K78fs|GABRA2_uc003gxe.2_Frame_Shift_Del_p.K133fs	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	133	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GAGCTACTGATTTTTTCCCAT	0.348													39	63	---	---	---	---						.	-	46314590	-	-	46314590	7	5	123	1	0	1	0	1	0	0	0	0	6175	1490	52	0	980	0	GABRA2	4	46314590	Frame_Shift_Del	DEL	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1864132	46314590	144839686	142	68206											
UGT2A1	10941	broad.mit.edu	37	chr4	70460308	70460308	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgagcaatgttatcaggCtgatcagcaaacatgggaac	14	9	11	7	0	2	2	2	2	0	0	2	3	2	3	0	2	4	4	0	2	4	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:70460308C>T	uc003hem.3	-	5	1254	c.1191G>A	c.(1189-1191)CAG>CAA	p.Q397Q	UGT2A1_uc011caq.1_Silent_p.Q563Q|UGT2A1_uc010ihu.2_Silent_p.Q397Q|UGT2A1_uc010iht.2_Silent_p.Q353Q|UGT2A1_uc010ihs.2_Silent_p.Q398Q	NM_006798	NP_006789	Q9Y4X1	UD2A1_HUMAN	UDP glucuronosyltransferase 2 family,	397	Extracellular (Potential).				detection of chemical stimulus|sensory perception of smell	integral to membrane	glucuronosyltransferase activity|glucuronosyltransferase activity			ovary(1)	1						TGTTATCAGGCTGATCAGCAA	0.453													35	55					0	0	0.013726	0	0		T	70460308	T	T	70460308	2	4	123	1	0	0	0	0	0	0	0	1	16979	796	28	2		2	UGT2A1	4	70460308	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	24145718	70460308	120693968	143	68207											
AMBN	258	broad.mit.edu	37	chr4	71472057	71472057	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaccaaaggccctgagaaCgaagaaggaggtgcacaagg	15	2	14	10	1	0	2	0	1	0	2	0	5	0	3	3	4	2	1	3	4	5	0	rs145240720		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:71472057C>T	uc003hfl.2	+	13	1029	c.954C>T	c.(952-954)AAC>AAT	p.N318N		NM_016519	NP_057603	Q9NP70	AMBN_HUMAN	ameloblastin precursor	318					bone mineralization|cell adhesion|cell proliferation|odontogenesis of dentine-containing tooth	proteinaceous extracellular matrix	growth factor activity|structural constituent of tooth enamel			ovary(3)|skin(1)	4			Lung(101;0.235)			GCCCTGAGAACGAAGAAGGAG	0.577													11	22					0	0	0.010729	0	0		T	71472057	T	T	71472057	2	4	123	1	0	0	0	0	0	0	0	1	563	535	19	1		1	AMBN	4	71472057	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1011749	71472057	119682219	144	68208											
ANKRD17	26057	broad.mit.edu	37	chr4	74005813	74005813	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccttggtaagttggtcAgcatgagccagttccaagga	9	12	11	9	0	2	1	1	1	1	0	4	2	3	2	3	3	2	4	3	3	2	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:74005813A>G	uc003hgp.2	-	15	2637	c.2520T>C	c.(2518-2520)GCT>GCC	p.A840A	ANKRD17_uc003hgo.2_Silent_p.A727A|ANKRD17_uc003hgq.2_Intron|ANKRD17_uc003hgr.2_Silent_p.A840A|ANKRD17_uc011cbd.1_Silent_p.A405A	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	840					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TAAGTTGGTCAGCATGAGCCA	0.423													19	213					0	0	0.008871	0	0		G	74005813	G	G	74005813	2	3	123	1	0	0	0	0	0	0	0	1	646	175	7	3		3	ANKRD17	4	74005813	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	2533756	74005813	117148463	145	68209											
NAA11	84779	broad.mit.edu	37	chr4	80246788	80246788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggccaggccgaggcgccGgtgtgaacgcttcacggcca	6	5	16	14	5	1	1	1	1	0	0	1	2	1	1	4	5	1	1	4	5	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:80246788G>A	uc003hlt.3	-	1	384	c.244C>T	c.(244-246)CGG>TGG	p.R82W		NM_032693	NP_116082	Q9BSU3	NAA11_HUMAN	alpha-N-acetyltransferase 1B	82	N-acetyltransferase.					cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2						CCGAGGCGCCGGTGTGAACGC	0.562													29	65					0	0	0.00632	0	0		A	80246788	A	A	80246788	3	1	123	1	0	0	0	0	1	0	0	0	10135	1115	39	1	449	1	NAA11	4	80246788	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	6240975	80246788	110907488	146	68210											
DNAJB14	79982	broad.mit.edu	37	chr4	100851702	100851702	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattaggcttgctttgatcGccactacctgatggttttcg	7	15	9	10	2	0	2	0	2	0	0	2	2	0	2	2	2	2	3	2	2	3	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:100851702G>A	uc003hvl.2	-	2	361	c.210C>T	c.(208-210)GGC>GGT	p.G70G	DNAJB14_uc003hvk.2_5'UTR|DNAJB14_uc010ili.2_Intron|DNAJB14_uc003hvm.2_Silent_p.G70G	NM_001031723	NP_001026893	Q8TBM8	DJB14_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 14	70					protein folding	integral to membrane	heat shock protein binding|unfolded protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;4.59e-09)		TGCTTTGATCGCCACTACCTG	0.428													63	118					0	0	0.01441	0	0		A	100851702	A	A	100851702	2	1	123	1	0	0	0	0	0	0	0	1	4625	1074	38	1		1	DNAJB14	4	100851702	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	20604914	100851702	90302574	147	68211											
PPA2	27068	broad.mit.edu	37	chr4	106367549	106367549	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaaaatgttacctgagggagGgtaccataattccatatata	16	11	8	6	0	0	1	0	1	0	0	1	2	1	2	3	2	2	2	3	2	8	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:106367549G>C	uc003hxl.2	-	5	452	c.432C>G	c.(430-432)ACC>ACG	p.T144T	PPA2_uc003hxm.2_Silent_p.T126T|PPA2_uc003hxn.2_Silent_p.T144T|PPA2_uc003hxo.2_Intron|PPA2_uc003hxp.2_Intron|PPA2_uc003hxq.2_Silent_p.T51T|PPA2_uc003hxr.2_Silent_p.T51T|PPA2_uc011cfa.1_Silent_p.T51T	NM_176869	NP_789845	Q9H2U2	IPYR2_HUMAN	inorganic pyrophosphatase 2 isoform 1 precursor	144					diphosphate metabolic process|tRNA aminoacylation for protein translation	mitochondrial matrix	inorganic diphosphatase activity|magnesium ion binding			pancreas(1)	1		Myeloproliferative disorder(5;0.0255)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.03e-07)		CCTGAGGGAGGGTACCATAAT	0.358													22	106					0	0	0.021523	0	0		C	106367549	C	C	106367549	2	2	123	1	0	0	0	0	0	0	0	1	12306	1219	43	5		5	PPA2	4	106367549	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	5515847	106367549	84786727	148	68212											
PPA2	27068	broad.mit.edu	37	chr4	106367570	106367570	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaccataattccatatataAcccttgtaagggaagatatt	15	13	6	7	0	0	1	0	0	0	1	1	2	1	2	3	1	2	2	3	1	8	10			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:106367570A>G	uc003hxl.2	-	5	431	c.411T>C	c.(409-411)GGT>GGC	p.G137G	PPA2_uc003hxm.2_Silent_p.G119G|PPA2_uc003hxn.2_Silent_p.G137G|PPA2_uc003hxo.2_Intron|PPA2_uc003hxp.2_Intron|PPA2_uc003hxq.2_Silent_p.G44G|PPA2_uc003hxr.2_Silent_p.G44G|PPA2_uc011cfa.1_Silent_p.G44G	NM_176869	NP_789845	Q9H2U2	IPYR2_HUMAN	inorganic pyrophosphatase 2 isoform 1 precursor	137					diphosphate metabolic process|tRNA aminoacylation for protein translation	mitochondrial matrix	inorganic diphosphatase activity|magnesium ion binding			pancreas(1)	1		Myeloproliferative disorder(5;0.0255)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.03e-07)		TCCATATATAACCCTTGTAAG	0.373													9	126					0	0	0.006214	0	0		G	106367570	G	G	106367570	2	3	123	1	0	0	0	0	0	0	0	1	12306	30	2	3		3	PPA2	4	106367570	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	21	106367570	84786706	149	68213											
ARHGEF38	54848	broad.mit.edu	37	chr4	106510452	106510452	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtagctgagaccttaaccCcagaggaagagcatcatatg	13	8	10	10	0	1	3	1	1	0	3	1	5	1	4	3	1	3	3	3	1	4	3	rs145953652	byFrequency	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:106510452C>A	uc003hxu.2	+	2	390	c.244C>A	c.(244-246)CCA>ACA	p.P82T		NM_017700	NP_060170	Q9NXL2	ARH38_HUMAN	hypothetical protein LOC54848	82					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|breast(1)	3						GACCTTAACCCCAGAGGAAGA	0.418													24	61					6.32553e-13	6.81283e-13	0.024334	1	0		A	106510452	A	A	106510452	3	1	123	1	0	0	0	0	1	0	0	0	907	623	22	5	250	5	ARHGEF38	4	106510452	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	142882	106510452	84643824	150	68214											
DKK2	27123	broad.mit.edu	37	chr4	107845238	107845238	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccatgagaacccttcttgCgttgtttggtacagacttcc	7	13	9	12	1	1	2	0	1	1	2	2	3	2	2	3	1	3	3	3	1	2	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:107845238C>T	uc003hyi.2	-	4	1358	c.653G>A	c.(652-654)CGC>CAC	p.R218H	DKK2_uc003hyj.1_3'UTR	NM_014421	NP_055236	Q9UBU2	DKK2_HUMAN	dickkopf homolog 2 precursor	218	DKK-type Cys-2.				multicellular organismal development|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular space				ovary(3)|lung(1)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.34e-06)		ACCCTTCTTGCGTTGTTTGGT	0.502													30	88					0	0	0.013726	0	0		T	107845238	T	T	107845238	3	4	123	1	0	0	0	0	1	0	0	0	4551	768	27	1	130	1	DKK2	4	107845238	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1334786	107845238	83309038	151	68215											
EGF	1950	broad.mit.edu	37	chr4	110865126	110865126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attggatgtgcttgataagcGgctgttttggattcagtaca	9	15	12	5	1	1	1	1	1	0	0	1	3	1	3	0	3	3	4	0	3	2	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:110865126G>A	uc003hzy.3	+	4	1090	c.638G>A	c.(637-639)CGG>CAG	p.R213Q	EGF_uc011cfu.1_Missense_Mutation_p.R213Q|EGF_uc011cfv.1_Missense_Mutation_p.R213Q	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	213	LDL-receptor class B 4.|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	CTTGATAAGCGGCTGTTTTGG	0.433													17	45					0	0	0.00499	0	0		A	110865126	A	A	110865126	3	1	123	1	0	0	0	0	1	0	0	0	4968	1116	39	1	652	1	EGF	4	110865126	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3019888	110865126	80289150	152	68216											
KIAA1109	84162	broad.mit.edu	37	chr4	123207740	123207740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgccaaatcacagattgCgttttacttcaaaagtttct	12	14	6	9	1	3	1	2	0	1	1	3	1	3	1	1	0	4	3	1	0	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:123207740C>T	uc003ieh.2	+	51	9127	c.9082C>T	c.(9082-9084)CGT>TGT	p.R3028C	KIAA1109_uc003iel.1_Missense_Mutation_p.R963C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3028					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TCACAGATTGCGTTTTACTTC	0.388													32	73					0	0	0.009535	0	0		T	123207740	T	T	123207740	3	4	123	1	0	0	0	0	1	0	0	0	8224	768	27	1	9284	1	KIAA1109	4	123207740	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	12342614	123207740	67946536	153	68217											
FAT4	79633	broad.mit.edu	37	chr4	126242500	126242500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaaggaaggagaacccattgGcacaaacgtgatatcaatag	17	6	11	7	1	1	2	1	1	0	1	1	5	1	3	1	3	2	1	1	3	7	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:126242500G>A	uc003ifj.3	+	1	4934	c.4934G>A	c.(4933-4935)GGC>GAC	p.G1645D		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1645	Cadherin 16.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAACCCATTGGCACAAACGTG	0.413													32	77					0	0	0.010818	0	0		A	126242500	A	A	126242500	3	1	123	1	0	0	0	0	1	0	0	0	5706	1203	42	2	4936	2	FAT4	4	126242500	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3034760	126242500	64911776	154	68218											
HSPA4L	22824	broad.mit.edu	37	chr4	128716934	128716934	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccaacagatagtcacgaaCgtaagaaatacaattcatgg	17	8	8	8	2	2	2	2	0	0	2	2	3	2	2	1	1	4	1	1	1	7	4	rs75776460	byFrequency	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:128716934C>T	uc003ifm.2	+	3	430	c.177C>T	c.(175-177)AAC>AAT	p.N59N	HSPA4L_uc010iny.1_Silent_p.N59N|HSPA4L_uc011cgr.1_Silent_p.N26N	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	59					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						TAGTCACGAACGTAAGAAATA	0.373													9	61					0	0	0.010729	0	0		T	128716934	T	T	128716934	2	4	123	1	0	0	0	0	0	0	0	1	7429	535	19	1		1	HSPA4L	4	128716934	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2474434	128716934	62437342	155	68219											
HSPA4L	22824	broad.mit.edu	37	chr4	128725223	128725223	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggttgaaccacctttaaaAgcagtaatggaacaagctag	16	8	10	7	0	0	1	0	1	0	0	0	2	0	2	2	2	4	4	2	2	7	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:128725223A>G	uc003ifm.2	+	8	1219	c.966A>G	c.(964-966)AAA>AAG	p.K322K	HSPA4L_uc010iny.1_Silent_p.K281K|HSPA4L_uc011cgr.1_Silent_p.K289K	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	322					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						CACCTTTAAAAGCAGTAATGG	0.358													20	39					0	0	0.014323	0	0		G	128725223	G	G	128725223	2	3	123	1	0	0	0	0	0	0	0	1	7429	69	3	3		3	HSPA4L	4	128725223	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	8289	128725223	62429053	156	68220											
NAA15	80155	broad.mit.edu	37	chr4	140270718	140270718	+	Frame_Shift_Del	DEL	A	-	-																															ggcctattacaaaggcttggAaaaagcactcaagccaggta																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:140270718delA	uc003ihu.1	+	7	1050	c.794delA	c.(793-795)GAAfs	p.E265fs		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	265					angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2						AAAGGCTTGGAAAAAGCACTC	0.333													20	41	---	---	---	---						.	-	140270718	-	-	140270718	7	5	123	1	0	1	0	1	0	0	0	0	10136	246	9	0	820	0	NAA15	4	140270718	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	11545495	140270718	50883558	157	68221											
RAB33B	83452	broad.mit.edu	37	chr4	140394191	140394191	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggctcataagcttaagAgccacaaaccattaatgctt	13	11	6	11	0	1	1	1	0	0	1	1	1	1	1	3	1	4	3	3	1	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:140394191A>G	uc003ihv.2	+	2	990	c.601A>G	c.(601-603)AGC>GGC	p.S201G		NM_031296	NP_112586	Q9H082	RB33B_HUMAN	RAB33B, member RAS oncogene family	201					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding				0	all_hematologic(180;0.162)					TAAGCTTAAGAGCCACAAACC	0.418													43	81					0	0	0.011902	0	0		G	140394191	G	G	140394191	3	3	123	1	0	0	0	0	1	0	0	0	12948	304	11	3	607	3	RAB33B	4	140394191	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	123473	140394191	50760085	158	68222											
MAML3	55534	broad.mit.edu	37	chr4	140810638	140810638	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggagctgtggaggtggcGgctgctgctgctgctgctgc	2	10	18	11	1	0	0	0	0	0	0	0	2	0	2	1	5	7	7	1	5	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:140810638G>T	uc003ihz.1	-	3	2692	c.1940C>A	c.(1939-1941)CCG>CAG	p.P647Q	MAML3_uc011chd.1_Intron	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	647	Gln-rich.				Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					TGGAGGTGGCGgctgctgctg	0.418													4	42					0.00909568	0.009146	0.009096	1	0		T	140810638	T	T	140810638	3	4	123	1	0	0	0	0	1	0	0	0	9225	1116	39	5	1480	5	MAML3	4	140810638	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	416447	140810638	50343638	159	68223											
LRBA	987	broad.mit.edu	37	chr4	151199022	151199022	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctctggtcgtaagacagCgccatggcccggattccagc	8	8	11	14	3	1	1	0	0	1	1	3	2	2	2	4	3	3	1	4	3	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:151199022C>T	uc010ipj.2	-	57	8958	c.8484G>A	c.(8482-8484)GCG>GCA	p.A2828A	LRBA_uc010ipi.2_Silent_p.A350A|LRBA_uc003ils.3_Silent_p.A723A|LRBA_uc003ilt.3_Silent_p.A1476A|LRBA_uc003ilu.3_Silent_p.A2816A|LRBA_uc003ilr.3_Silent_p.A248A	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2828	WD 6.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					CGTAAGACAGCGCCATGGCCC	0.468													10	195					0	0	0.010729	0	0		T	151199022	T	T	151199022	2	4	123	1	0	0	0	0	0	0	0	1	8949	755	27	1		1	LRBA	4	151199022	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	10388384	151199022	39955254	160	68224											
LRBA	987	broad.mit.edu	37	chr4	151770620	151770620	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcagtatacccccacaaGccatgaccatattgtccatc	12	9	6	14	0	0	1	0	1	0	0	2	1	1	1	5	1	2	2	5	1	4	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:151770620G>T	uc010ipj.2	-	25	4586	c.4112C>A	c.(4111-4113)GCT>GAT	p.A1371D	LRBA_uc003ilt.3_Missense_Mutation_p.A30D|LRBA_uc003ilu.3_Missense_Mutation_p.A1371D	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1371						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					ACCCCCACAAGCCATGACCAT	0.393													34	68					1.4065e-29	1.57554e-29	0.017118	1	0		T	151770620	T	T	151770620	3	4	123	1	0	0	0	0	1	0	0	0	8949	971	34	5	4615	5	LRBA	4	151770620	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	571598	151770620	39383656	161	68225											
FBXW7	55294	broad.mit.edu	37	chr4	153249385	153249385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatgaagatgcatacaacGcacagtggaagtatgcccat	14	9	9	9	1	1	2	1	1	0	1	1	3	1	3	1	1	4	3	1	1	5	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:153249385G>A	uc003ims.2	-	9	1542	c.1393C>T	c.(1393-1395)CGT>TGT	p.R465C	FBXW7_uc011cii.1_Missense_Mutation_p.R465C|FBXW7_uc003imt.2_Missense_Mutation_p.R465C|FBXW7_uc011cih.1_Missense_Mutation_p.R289C|FBXW7_uc003imq.2_Missense_Mutation_p.R385C|FBXW7_uc003imr.2_Missense_Mutation_p.R347C	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	465	WD 3.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in a acute lymphoblastic leukemia cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R465C(52)|p.R465H(36)|p.R465L(2)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TGCATACAACGCACAGTGGAA	0.413			Mis|N|D|F		colorectal|endometrial|T-ALL								74	150					0	0	0.01441	0	0		A	153249385	A	A	153249385	3	1	123	1	0	0	0	0	1	0	0	0	5783	1087	38	1	746	1	FBXW7	4	153249385	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1478765	153249385	37904891	162	68226											
MAP9	79884	broad.mit.edu	37	chr4	156273869	156273869	+	Frame_Shift_Del	DEL	T	-	-																															tttgcttgaaaaaagcttccTttttttcattcctatagagc																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:156273869delT	uc003ios.2	-	13	1964	c.1700delA	c.(1699-1701)AAGfs	p.K567fs	MAP9_uc011cin.1_Frame_Shift_Del_p.K542fs|MAP9_uc010iqa.1_RNA	NM_001039580	NP_001034669	Q49MG5	MAP9_HUMAN	aster-associated protein	567	Potential.				cell division|mitosis	cytoplasm|microtubule|spindle				ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.143)		AAAAGCTTCCTTTTTTTCATT	0.189													22	35	---	---	---	---						.	-	156273869	-	-	156273869	7	5	123	1	0	1	0	1	0	0	0	0	9288	1609	56	0	251	0	MAP9	4	156273869	Frame_Shift_Del	DEL	T	TCGA-CD-A4MJ-01A-11D-A25D-08	3024484	156273869	34880407	163	68227											
FAM198B	51313	broad.mit.edu	37	chr4	159091773	159091773	+	Frame_Shift_Del	DEL	C	-	-																															ggagcacagcgccaggtgcgCccccctccagcaccagcaaa																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:159091773delC	uc003ipp.3	-	2	1207	c.755delG	c.(754-756)GGCfs	p.G252fs	uc003ipu.1_5'Flank|FAM198B_uc003ipq.3_Frame_Shift_Del_p.G252fs|FAM198B_uc003ipr.3_Frame_Shift_Del_p.G252fs|FAM198B_uc003ips.2_Frame_Shift_Del_p.G252fs|uc003ipt.1_5'Flank	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	252	Extracellular (Potential).					Golgi membrane|integral to membrane					0						GCCAGGTGCGCCCCCCTCCAG	0.637											OREG0016378	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	37	---	---	---	---						.	-	159091773	-	-	159091773	7	5	123	1	0	1	0	1	0	0	0	0	5540	739	26	0	925	0	FAM198B	4	159091773	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2817904	159091773	32062503	164	68228											
TLL1	7092	broad.mit.edu	37	chr4	166935638	166935638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgatgataatggcatacGtcctgcaattggtcagcgaa	11	10	11	9	3	1	2	1	2	0	0	2	3	2	2	2	2	3	2	2	2	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:166935638G>A	uc003irh.1	+	8	1615	c.968G>A	c.(967-969)CGT>CAT	p.R323H	TLL1_uc011cjn.1_Missense_Mutation_p.R323H|TLL1_uc011cjo.1_Missense_Mutation_p.R147H	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	323	Metalloprotease (By similarity).				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		AATGGCATACGTCCTGCAATT	0.458													83	137					0	0	0.01441	0	0		A	166935638	A	A	166935638	3	1	123	1	0	0	0	0	1	0	0	0	15970	1145	40	1	998	1	TLL1	4	166935638	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	7843865	166935638	24218638	165	68229											
HPGD	3248	broad.mit.edu	37	chr4	175416735	175416735	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccaactatgccatgcttTgaagcacaataaaccggctg	14	9	7	11	1	0	1	0	1	0	0	1	1	1	1	3	1	5	3	3	1	7	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:175416735T>C	uc003itu.2	-	5	652	c.462A>G	c.(460-462)TCA>TCG	p.S154S	HPGD_uc003itt.2_Silent_p.S21S|HPGD_uc003itv.2_Silent_p.S154S|HPGD_uc011ckf.1_Silent_p.S33S|HPGD_uc010irp.2_Silent_p.S33S|HPGD_uc010irq.2_Intron|HPGD_uc011ckg.1_Silent_p.S86S|HPGD_uc011ckh.1_Silent_p.S33S|HPGD_uc003itw.2_Silent_p.S154S	NM_000860	NP_000851	P15428	PGDH_HUMAN	hydroxyprostaglandin dehydrogenase 15-(NAD)	154	NAD.				female pregnancy|lipoxygenase pathway|negative regulation of cell cycle|parturition|prostaglandin metabolic process|transforming growth factor beta receptor signaling pathway	cytosol|nucleus	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|NAD+ binding|prostaglandin E receptor activity|protein homodimerization activity				0		Prostate(90;0.00763)|Melanoma(52;0.0179)|Renal(120;0.0376)|Breast(14;0.0991)|all_hematologic(60;0.124)|all_neural(102;0.196)		all cancers(43;2.6e-18)|Epithelial(43;4.19e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.23e-09)|GBM - Glioblastoma multiforme(59;0.00176)|STAD - Stomach adenocarcinoma(60;0.00299)|LUSC - Lung squamous cell carcinoma(193;0.0253)	NADH(DB00157)	TGCCATGCTTTGAAGCACAAT	0.388													18	44					0	0	0.014323	0	0		C	175416735	C	C	175416735	2	2	123	1	0	0	0	0	0	0	0	1	7350	1799	63	3		3	HPGD	4	175416735	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	8481097	175416735	15737541	166	68230											
ODZ3	55714	broad.mit.edu	37	chr4	183694720	183694720	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaggctatcacagtggacaTtgagtcatctagccgagaag	13	8	11	9	1	3	2	2	1	1	1	3	4	3	3	1	2	1	1	1	2	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:183694720T>C	uc003ivd.1	+	22	5025	c.4988T>C	c.(4987-4989)ATT>ACT	p.I1663T		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1663	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		ACAGTGGACATTGAGTCATCT	0.443													47	95					0	0	0.01441	0	0		C	183694720	C	C	183694720	3	2	123	1	0	0	0	0	1	0	0	0	10855	1493	52	3	5074	3	ODZ3	4	183694720	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	8277985	183694720	7459556	167	68231											
C4orf41	60684	broad.mit.edu	37	chr4	184614224	184614224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaagccttacaggcagctCggtctttcaaaaggcgacct	12	8	10	11	2	2	1	1	0	1	1	3	2	2	1	2	3	3	2	2	3	5	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:184614224C>T	uc003ivx.2	+	20	2337	c.2161C>T	c.(2161-2163)CGG>TGG	p.R721W	C4orf41_uc003ivw.2_Missense_Mutation_p.R721W|C4orf41_uc010isc.2_Missense_Mutation_p.R65W|C4orf41_uc003ivy.2_Missense_Mutation_p.R327W	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	721											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		ACAGGCAGCTCGGTCTTTCAA	0.483													24	49					0	0	0.014323	0	0		T	184614224	T	T	184614224	3	4	123	1	0	0	0	0	1	0	0	0	2273	875	31	1	2235	1	C4orf41	4	184614224	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	919504	184614224	6540052	168	68232											
TLR3	7098	broad.mit.edu	37	chr4	187000149	187000149	+	Frame_Shift_Del	DEL	A	-	-																															atctttgccaattcatctttAaaaaaattagagttgtcatc																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr4:187000149delA	uc003iyq.2	+	3	698	c.597delA	c.(595-597)TTAfs	p.L199fs	TLR3_uc011ckz.1_5'Flank	NM_003265	NP_003256	O15455	TLR3_HUMAN	toll-like receptor 3 precursor	199	LRR 7.|Lumenal (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|defense response to bacterium|defense response to virus|detection of virus|hyperosmotic response|I-kappaB phosphorylation|inflammatory response|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of osteoclast differentiation|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|toll-like receptor 3 signaling pathway	endoplasmic reticulum membrane|endosome membrane|integral to plasma membrane	double-stranded RNA binding|transmembrane receptor activity			ovary(2)|prostate(1)|lung(1)|breast(1)	5		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		ATTCATCTTTAAAAAAATTAG	0.333													14	23	---	---	---	---						.	-	187000149	-	-	187000149	7	5	123	1	0	1	0	1	0	0	0	0	15977	359	13	0	603	0	TLR3	4	187000149	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	2385925	187000149	4154127	169	68233											
SLC6A3	6531	broad.mit.edu	37	chr5	1432617	1432617	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgtggtcccaaaagtgtcGttgaggcccgagctgtctcc	6	10	14	11	2	1	1	0	1	1	0	4	2	2	1	3	3	1	2	3	3	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:1432617G>A	uc003jck.2	-	4	736	c.615C>T	c.(613-615)AAC>AAT	p.N205N		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	205	Extracellular (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	CAAAAGTGTCGTTGAGGCCCG	0.617													14	37					0	0	0.024245	0	0		A	1432617	A	A	1432617	2	1	123	1	0	0	0	0	0	0	0	1	14710	1136	40	1		1	SLC6A3	5	1432617	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		1432617	179482643	170	68234											
KIAA0947	23379	broad.mit.edu	37	chr5	5441312	5441312	+	Frame_Shift_Del	DEL	A	-	-																															caggaagaactgggatctttAaaagcagagctagaagagaa																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:5441312delA	uc003jdm.3	+	5	507	c.285delA	c.(283-285)TTAfs	p.L95fs		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	95	Potential.									ovary(1)|central_nervous_system(1)	2						TGGGATCTTTAAAAGCAGAGC	0.353													2	4	---	---	---	---						.	-	5441312	-	-	5441312	7	5	123	1	0	1	0	1	0	0	0	0	8218	359	13	0	303	0	KIAA0947	5	5441312	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	4008695	5441312	175473948	171	68235											
SEMA5A	9037	broad.mit.edu	37	chr5	9063142	9063142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacggctgcactgtgaccacGacgtccaggctgaccaagcc	9	5	11	16	3	0	2	0	2	0	0	1	3	1	2	4	2	2	3	4	2	1	0	rs2290734		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:9063142G>A	uc003jek.2	-	18	3087	c.2375C>T	c.(2374-2376)TCG>TTG	p.S792L		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	792	TSP type-1 5.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						CTGTGACCACGACGTCCAGGC	0.597													13	23					0	0	0.028581	0	0		A	9063142	A	A	9063142	3	1	123	1	0	0	0	0	1	0	0	0	14062	1059	37	1	873	1	SEMA5A	5	9063142	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3621830	9063142	171852118	172	68236											
SEMA5A	9037	broad.mit.edu	37	chr5	9154749	9154749	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagagctcaatctcttccagCaaacagctgcttgaggtctg	11	10	9	11	0	3	2	1	1	2	1	5	2	4	2	1	1	5	4	1	1	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:9154749C>A	uc003jek.2	-	12	2044	c.1332G>T	c.(1330-1332)TTG>TTT	p.L444F		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	444	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						TCTCTTCCAGCAAACAGCTGC	0.547													39	81					2.95478e-19	3.25967e-19	0.00874	1	0		A	9154749	A	A	9154749	3	1	123	1	0	0	0	0	1	0	0	0	14062	709	25	5	1940	5	SEMA5A	5	9154749	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	91607	9154749	171760511	173	68237											
MARCH6	10299	broad.mit.edu	37	chr5	10411586	10411586	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgcagcccaccaagccatActccagcagggagggcctgt	10	5	11	15	0	0	0	0	0	0	0	1	1	1	1	5	2	5	2	5	2	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:10411586A>G	uc003jet.1	+	19	2016	c.1833A>G	c.(1831-1833)ATA>ATG	p.I611M	MARCH6_uc011cmu.1_Missense_Mutation_p.I563M|MARCH6_uc003jeu.1_Missense_Mutation_p.I309M|MARCH6_uc011cmv.1_Missense_Mutation_p.I506M	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	611	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						ACCAAGCCATACTCCAGCAGG	0.458													5	70					0	0	0.021553	0	0		G	10411586	G	G	10411586	3	3	123	1	0	0	0	0	1	0	0	0	9323	381	14	3	1907	3	MARCH6	5	10411586	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	1256837	10411586	170503674	174	68238											
ROPN1L	83853	broad.mit.edu	37	chr5	10450112	10450112	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatcttgagcagaagtggAagaacttgtgcctgccgaag	12	8	13	8	1	1	4	0	1	1	3	1	6	1	5	2	1	4	1	2	1	4	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:10450112A>G	uc003jex.3	+	3	575	c.304A>G	c.(304-306)AAG>GAG	p.K102E		NM_031916	NP_114122	Q96C74	ROP1L_HUMAN	ropporin 1-like	102					ciliary or flagellar motility|signal transduction	cytoplasm|motile cilium	cAMP-dependent protein kinase regulator activity|protein binding			ovary(1)	1						GCAGAAGTGGAAGAACTTGTG	0.398													32	65					0	0	0.013726	0	0		G	10450112	G	G	10450112	3	3	123	1	0	0	0	0	1	0	0	0	13550	247	9	3	314	3	ROPN1L	5	10450112	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	38526	10450112	170465148	175	68239											
DNAH5	1767	broad.mit.edu	37	chr5	13922340	13922340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgccccagccatggctcGtggctctgagagcaggaatg	7	7	14	13	2	1	1	0	1	1	1	3	3	1	2	3	3	2	4	3	3	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:13922340G>A	uc003jfd.2	-	5	578	c.536C>T	c.(535-537)ACG>ATG	p.T179M	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	179	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GCCATGGCTCGTGGCTCTGAG	0.562									Kartagener_syndrome				17	59					0	0	0.006122	0	0		A	13922340	A	A	13922340	3	1	123	1	0	0	0	0	1	0	0	0	4610	1145	40	1	13638	1	DNAH5	5	13922340	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3472228	13922340	166992920	176	68240											
ADAMTS12	81792	broad.mit.edu	37	chr5	33596124	33596124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgtagctttcaccatccCgcggcccttctttatgcaat	8	13	7	13	2	2	0	1	0	1	0	3	1	3	0	3	1	2	3	3	1	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:33596124C>T	uc003jia.1	-	17	2732	c.2569G>A	c.(2569-2571)GGG>AGG	p.G857R	ADAMTS12_uc010iuq.1_Missense_Mutation_p.G772R	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	857	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TTCACCATCCCGCGGCCCTTC	0.517										HNSCC(64;0.19)			30	72					0	0	0.010818	0	0		T	33596124	T	T	33596124	3	4	123	1	0	0	0	0	1	0	0	0	257	652	23	1	2247	1	ADAMTS12	5	33596124	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	19673784	33596124	147319136	177	68241											
RANBP3L	202151	broad.mit.edu	37	chr5	36251559	36251559	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagtgcaacaagacgatGatgtattgctgcatacaaat	15	11	9	6	1	0	3	0	2	0	1	0	4	0	3	0	0	5	4	0	0	6	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:36251559G>T	uc003jkh.2	-	13	1703	c.1210C>A	c.(1210-1212)CAT>AAT	p.H404N	RANBP3L_uc011cow.1_Missense_Mutation_p.H429N	NM_145000	NP_659437	Q86VV4	RNB3L_HUMAN	RAN binding protein 3-like isoform 2	404	RanBD1.				intracellular transport					ovary(1)	1	all_lung(31;4.52e-05)		Epithelial(62;0.0543)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.149)|Colorectal(62;0.202)			ACAAGACGATGATGTATTGCT	0.383													17	39					2.4624e-09	2.59444e-09	0.008871	1	0		T	36251559	T	T	36251559	3	4	123	1	0	0	0	0	1	0	0	0	13055	1290	45	5	195	5	RANBP3L	5	36251559	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2655435	36251559	144663701	178	68242											
DDX4	54514	broad.mit.edu	37	chr5	55110957	55110957	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccttttttgatcttgaatcGgataaccatttagcacagcc	10	15	6	10	1	1	2	0	2	1	0	3	3	2	3	3	1	3	1	3	1	3	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:55110957G>A	uc003jqg.3	+	20	2018	c.1944G>A	c.(1942-1944)TCG>TCA	p.S648S	DDX4_uc010ivz.2_Silent_p.S628S|DDX4_uc003jqh.3_Silent_p.S614S|DDX4_uc003jqj.2_Silent_p.S499S	NM_001136034	NP_001129506	Q9NQI0	DDX4_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4 isoform	648	Helicase C-terminal.				multicellular organismal development|sperm motility	perinuclear region of cytoplasm|pi-body|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|skin(1)	2		Lung NSC(810;6.93e-05)|all_neural(839;0.00409)|Prostate(74;0.0107)|Breast(144;0.0544)|Ovarian(174;0.223)				ATCTTGAATCGGATAACCATT	0.358													52	88					0	0	0.01441	0	0		A	55110957	A	A	55110957	2	1	123	1	0	0	0	0	0	0	0	1	4363	1103	39	1		1	DDX4	5	55110957	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	18859398	55110957	125804303	179	68243											
ARSB	411	broad.mit.edu	37	chr5	78280984	78280984	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccggcggcgccaacaacaGcagcagcagcagcgggagga	11	0	16	14	4	0	0	0	0	0	0	0	2	0	2	2	4	7	4	2	4	2	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:78280984G>A	uc003kfq.2	-	1	1374	c.88C>T	c.(88-90)CTG>TTG	p.L30L	ARSB_uc003kfr.3_Silent_p.L30L	NM_000046	NP_000037	P15848	ARSB_HUMAN	arylsulfatase B isoform 1 precursor	30					lysosomal transport|lysosome organization	lysosome	arylsulfatase activity|metal ion binding|N-acetylgalactosamine-4-sulfatase activity			upper_aerodigestive_tract(1)	1		all_lung(232;0.000637)|Lung NSC(167;0.00173)|Ovarian(174;0.0105)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;4.24e-44)|Epithelial(54;3.12e-39)|all cancers(79;3.02e-34)		gccAACAACAGCAGCAGCAGC	0.557													5	4					0	0	0.014758	0	0		A	78280984	A	A	78280984	2	1	123	1	0	0	0	0	0	0	0	1	989	962	34	2		2	ARSB	5	78280984	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	23170027	78280984	102634276	180	68244											
THBS4	7060	broad.mit.edu	37	chr5	79366961	79366961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accagaaagacaccgatgggGatggaagaggagatgcctgt	14	5	15	7	1	0	4	0	0	0	4	0	8	0	6	3	4	1	0	3	4	2	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:79366961G>A	uc003kgh.2	+	14	2001	c.1678G>A	c.(1678-1680)GAT>AAT	p.D560N	uc003kgi.3_Intron	NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	560	TSP type-3 4.				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		CACCGATGGGGATGGAAGAGG	0.413													61	170					0	0	0.01441	0	0		A	79366961	A	A	79366961	3	1	123	1	0	0	0	0	1	0	0	0	15881	1174	41	4	1728	4	THBS4	5	79366961	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1085977	79366961	101548299	181	68245											
ANKRD34B	340120	broad.mit.edu	37	chr5	79855037	79855037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctggtgtaatatcctggaGctcctcttgcaatgaagcca	9	12	9	11	0	2	1	0	1	2	0	4	2	4	2	3	2	3	3	3	2	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:79855037G>A	uc010jam.2	-	4	1152	c.802C>T	c.(802-804)CTC>TTC	p.L268F	ANKRD34B_uc003kgw.2_Missense_Mutation_p.L268F|ANKRD34B_uc010jan.2_Missense_Mutation_p.L268F	NM_001004441	NP_001004441	A5PLL1	AN34B_HUMAN	ankyrin repeat domain 34B	268						cytoplasm|nucleus				pancreas(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-46)|Epithelial(54;5.64e-41)|all cancers(79;3.24e-36)		ATATCCTGGAGCTCCTCTTGC	0.502													28	67					0	0	0.012213	0	0		A	79855037	A	A	79855037	3	1	123	1	0	0	0	0	1	0	0	0	663	971	34	2	746	2	ANKRD34B	5	79855037	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	488076	79855037	101060223	182	68246											
MSH3	4437	broad.mit.edu	37	chr5	80064741	80064741	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaattcaaggtgttattgaCgagatccgaatgcatttgca	13	12	10	6	2	1	2	1	1	0	1	2	5	2	2	1	1	2	3	1	1	4	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:80064741C>T	uc003kgz.2	+	15	2425	c.2172C>T	c.(2170-2172)GAC>GAT	p.D724D		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	724					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		GTGTTATTGACGAGATCCGAA	0.328								MMR					21	46					0	0	0.010504	0	0		T	80064741	T	T	80064741	2	4	123	1	0	0	0	0	0	0	0	1	9889	535	19	1		1	MSH3	5	80064741	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	209704	80064741	100850519	183	68247											
RASGRF2	5924	broad.mit.edu	37	chr5	80513294	80513294	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctccaaaatgagaatggTaggtataatttcataattag	15	15	7	4	0	2	1	1	1	1	1	3	2	2	1	1	2	0	2	1	2	8	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:80513294T>C	uc003kha.1	+	25	3552	c.3552_splice	c.e25+2	p.M1184_splice	RNU5E_uc011cto.1_Intron|RASGRF2_uc011ctn.1_Splice_Site	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		ATGAGAATGGTAGGTATAATT	0.338													24	71					0	0	0.024334	0	0		C	80513294	C	C	80513294	5	2	123	1	0	0	0	0	0	0	1	0	13098	1652	57	3	3652	3	RASGRF2	5	80513294	Splice_Site	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	448553	80513294	100401966	184	68248											
GPR98	84059	broad.mit.edu	37	chr5	89923187	89923187	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttcctgaggaagaccacAtactcataattccagtagtt	12	12	8	9	0	1	2	1	1	0	1	3	3	3	3	3	2	1	3	3	2	4	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:89923187A>G	uc003kju.2	+	7	928	c.832A>G	c.(832-834)ATA>GTA	p.I278V	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	278	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GGAAGACCACATACTCATAAT	0.378													40	92					0	0	0.01441	0	0		G	89923187	G	G	89923187	3	3	123	1	0	0	0	0	1	0	0	0	6737	217	8	3	858	3	GPR98	5	89923187	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	9409893	89923187	90992073	185	68249											
FAM174A	345757	broad.mit.edu	37	chr5	99871435	99871435	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acccctgcccagcagccgggCcgtggtctggctgaagctgc	5	6	14	16	2	1	1	0	1	1	0	1	1	1	1	5	3	5	3	5	3	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:99871435C>T	uc003knj.1	+	1	321	c.201C>T	c.(199-201)GGC>GGT	p.G67G	uc003kni.2_5'Flank	NM_198507	NP_940909	Q8TBP5	F174A_HUMAN	family with sequence similarity 174, member A	67	Extracellular (Potential).					integral to membrane					0						AGCAGCCGGGCCGTGGTCTGG	0.721													9	13					0	0	0.004482	0	0		T	99871435	T	T	99871435	2	4	123	1	0	0	0	0	0	0	0	1	5506	726	26	2		2	FAM174A	5	99871435	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	9948248	99871435	81043825	186	68250											
FER	2241	broad.mit.edu	37	chr5	108168618	108168618	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagttacataggtgttcatCagcagatagaggcagagatg	15	9	12	5	0	2	3	2	0	0	3	2	4	2	3	0	2	2	4	0	2	4	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:108168618C>T	uc003kop.1	+	4	739	c.355C>T	c.(355-357)CAG>TAG	p.Q119*	FER_uc011cve.1_Nonsense_Mutation_p.Q59*|FER_uc011cvf.1_RNA|FER_uc003koq.2_Nonsense_Mutation_p.Q119*|FER_uc011cvg.1_Intron	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	119	Important for interaction with membranes containing phosphoinositides.				intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		AGGTGTTCATCAGCAGATAGA	0.388													31	66					0	0	0.015359	0	0		T	108168618	T	T	108168618	4	4	123	1	0	0	0	0	0	1	0	0	5827	827	29	4	361	4	FER	5	108168618	Nonsense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	8297183	108168618	72746642	187	68251											
APC	324	broad.mit.edu	37	chr5	112116587	112116587	+	Frame_Shift_Del	DEL	A	-	-																															aggtacctgccaggatatggAaaaacgagcacaggtaagtt																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:112116587delA	uc010jby.2	+	6	1012	c.632delA	c.(631-633)GAAfs	p.E211fs	APC_uc011cvt.1_Frame_Shift_Del_p.E221fs|APC_uc003kpz.3_Frame_Shift_Del_p.E211fs|APC_uc003kpy.3_Frame_Shift_Del_p.E211fs|APC_uc010jbz.2_5'UTR	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	211	Leu-rich.|Potential.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity			large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		CAGGATATGGAAAAACGAGCA	0.353		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			15	26	---	---	---	---						.	-	112116587	-	-	112116587	7	5	123	1	0	1	0	1	0	0	0	0	763	246	9	0	650	0	APC	5	112116587	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	3947969	112116587	68798673	188	68252											
SEMA6A	57556	broad.mit.edu	37	chr5	115813609	115813609	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacaatatgggtctctggAggcaatacaggttctgcagg	10	10	12	9	0	2	0	0	0	2	0	4	1	3	1	1	5	2	3	1	5	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:115813609A>G	uc010jck.2	-	15	2291	c.1582T>C	c.(1582-1584)TCC>CCC	p.S528P	SEMA6A_uc003krx.3_Missense_Mutation_p.S528P|SEMA6A_uc003krw.3_Missense_Mutation_p.S60P|SEMA6A_uc010jcj.2_Missense_Mutation_p.S72P	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	528	Extracellular (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		GGGTCTCTGGAGGCAATACAG	0.493													48	95					0	0	0.01441	0	0		G	115813609	G	G	115813609	3	3	123	1	0	0	0	0	1	0	0	0	14064	304	11	3	1530	3	SEMA6A	5	115813609	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	3697022	115813609	65101651	189	68253											
SMAD5	4090	broad.mit.edu	37	chr5	135496657	135496657	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacatgccacaaaatgccacGtttccagattctttccacca	12	10	4	15	1	1	1	0	0	1	1	3	1	3	1	5	0	2	1	5	0	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:135496657G>A	uc003lbj.1	+	5	960	c.516G>A	c.(514-516)ACG>ACA	p.T172T	SMAD5_uc003lbk.1_Silent_p.T172T|SMAD5_uc003lbl.1_Silent_p.T172T	NM_001001419	NP_001001419	Q99717	SMAD5_HUMAN	SMAD family member 5	172					BMP signaling pathway|embryonic pattern specification|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|ubiquitin protein ligase binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AAAATGCCACGTTTCCAGATT	0.473													92	184					0	0	0.01441	0	0		A	135496657	A	A	135496657	2	1	123	1	0	0	0	0	0	0	0	1	14786	1132	40	1		1	SMAD5	5	135496657	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	19683048	135496657	45418603	190	68254											
KDM3B	51780	broad.mit.edu	37	chr5	137735690	137735690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaccggctcaggaaaagccGgccacgcagtggtaagtaaa	13	6	12	10	3	1	0	1	0	0	0	1	1	1	1	3	4	2	4	3	4	6	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:137735690G>A	uc003lcy.1	+	11	3388	c.3188G>A	c.(3187-3189)CGG>CAG	p.R1063Q	KDM3B_uc010jew.1_Missense_Mutation_p.R719Q|KDM3B_uc011cys.1_Missense_Mutation_p.R95Q	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	1063					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						AGGAAAAGCCGGCCACGCAGT	0.478													30	68					0	0	0.013726	0	0		A	137735690	A	A	137735690	3	1	123	1	0	0	0	0	1	0	0	0	8143	1116	39	1	3230	1	KDM3B	5	137735690	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2239033	137735690	43179570	191	68255											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139866640	139866640	+	Frame_Shift_Del	DEL	A	-	-																															tcctgcccttttaggagtgcAaaaaggttagttattgaatt																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:139866640delA	uc003lfs.1	+	14	2364	c.2240delA	c.(2239-2241)CAAfs	p.Q747fs	ANKHD1_uc003lfq.1_Frame_Shift_Del_p.Q766fs|ANKHD1_uc003lfr.2_Frame_Shift_Del_p.Q747fs|ANKHD1_uc003lft.1_Frame_Shift_Del_p.Q211fs|ANKHD1_uc003lfu.1_Frame_Shift_Del_p.Q227fs|ANKHD1_uc003lfv.1_Frame_Shift_Del_p.Q77fs	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	747						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTAGGAGTGCAAAAAGGTTAG	0.398													17	38	---	---	---	---						.	-	139866640	-	-	139866640	7	5	123	1	0	1	0	1	0	0	0	0	629	130	5	0	2294	0	ANKHD1-EIF4EBP3	5	139866640	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	2130950	139866640	41048620	192	68256											
PCDHB1	29930	broad.mit.edu	37	chr5	140431403	140431403	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggagccgctgcagtcCttccgggccgaggtcagggt	4	8	17	12	3	1	0	1	0	0	0	3	2	3	1	4	5	2	2	4	5	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:140431403C>A	uc003lik.1	+	1	425	c.348C>A	c.(346-348)TCC>TCA	p.S116S		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	116	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCTGCAGTCCTTCCGGGCCG	0.502													21	39					8.04996e-18	8.82703e-18	0.012319	1	0		A	140431403	A	A	140431403	2	1	123	1	0	0	0	0	0	0	0	1	11553	668	24	5		5	PCDHB1	5	140431403	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	564763	140431403	40483857	193	68257											
PCDHB5	26167	broad.mit.edu	37	chr5	140517344	140517344	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attcctaaccttttgccccaGggcgctggtgaagaaatagg	10	10	11	10	1	0	2	0	1	0	1	1	2	1	2	4	3	2	1	4	3	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:140517344G>T	uc003liq.2	+	1	2545	c.2328G>T	c.(2326-2328)CAG>CAT	p.Q776H		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	776	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTTTGCCCCAGGGCGCTGGTG	0.502													61	141					2.05175e-36	2.3234e-36	0.01441	1	0		T	140517344	T	T	140517344	3	4	123	1	0	0	0	0	1	0	0	0	11564	991	35	5	2330	5	PCDHB5	5	140517344	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	85941	140517344	40397916	194	68258											
PCDHB7	56129	broad.mit.edu	37	chr5	140553130	140553130	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttctagacgtaaatgacaaCgcccctgattttgtgcggtc	9	12	10	10	3	1	3	0	2	1	1	2	3	1	3	2	1	2	2	2	1	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:140553130C>T	uc003lit.2	+	1	888	c.714C>T	c.(712-714)AAC>AAT	p.N238N		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	238	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TAAATGACAACGCCCCTGATT	0.542													27	55					0	0	0.00632	0	0		T	140553130	T	T	140553130	2	4	123	1	0	0	0	0	0	0	0	1	11566	535	19	1		1	PCDHB7	5	140553130	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	35786	140553130	40362130	195	68259											
PCDHGA2	56113	broad.mit.edu	37	chr5	140718560	140718560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggcggctctgcaaaagttgCcacactgcagaaagctggtc	10	8	12	11	1	1	1	0	0	1	1	2	1	1	1	1	3	4	5	1	3	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:140718560C>T	uc003ljk.1	+	1	207	c.22C>T	c.(22-24)CCA>TCA	p.P8S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.P8S	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	8					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAAAAGTTGCCACACTGCAG	0.552											OREG0016854	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	20					0	0	0.020292	0	0		T	140718560	T	T	140718560	3	4	123	1	0	0	0	0	1	0	0	0	11573	739	26	2	24	2	PCDHGA2	5	140718560	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	165430	140718560	40196700	196	68260											
PCDHGB2	56103	broad.mit.edu	37	chr5	140740955	140740955	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgggaggagatcccagaatAcaatctcaccatcacagcca	14	5	8	14	1	2	2	2	0	1	2	4	4	3	3	4	2	2	0	4	2	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:140740955A>G	uc003ljs.1	+	1	1253	c.1253A>G	c.(1252-1254)TAC>TGC	p.Y418C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Missense_Mutation_p.Y418C|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	418	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCCCAGAATACAATCTCACC	0.507													49	80					0	0	0.01441	0	0		G	140740955	G	G	140740955	3	3	123	1	0	0	0	0	1	0	0	0	11582	391	14	3	1255	3	PCDHGB2	5	140740955	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	22395	140740955	40174305	197	68261											
PCDHGA9	56107	broad.mit.edu	37	chr5	140782828	140782828	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcagagcccgcggtgtctGgtgaactttaaagtcctggt	7	11	13	10	2	2	2	1	1	1	1	3	2	3	2	2	3	2	1	2	3	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:140782828G>A	uc003lkh.1	+	1	309	c.309G>A	c.(307-309)CTG>CTA	p.L103L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Silent_p.L103L	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	103	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGGTGTCTGGTGAACTTTA	0.532													29	74					0	0	0.007291	0	0		A	140782828	A	A	140782828	2	1	123	1	0	0	0	0	0	0	0	1	11580	1335	47	4		4	PCDHGA9	5	140782828	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	41873	140782828	40132432	198	68262											
PCDHGC5	56097	broad.mit.edu	37	chr5	140869039	140869039	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggcgctatttttccctgAgcttgatgagtggtgccctg	5	14	13	9	1	0	3	0	3	0	0	1	3	1	3	2	2	2	2	2	2	1	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:140869039A>C	uc003lla.1	+	1	232	c.232A>C	c.(232-234)AGC>CGC	p.S78R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc003lky.1_Intron|PCDHGC5_uc011dbc.1_Missense_Mutation_p.S78R	NM_018929	NP_061752	Q9Y5F6	PCDGM_HUMAN	protocadherin gamma subfamily C, 5 isoform 1	78	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTTTCCCTGAGCTTGATGAG	0.547													24	58					0	0	0.027356	0	0		C	140869039	C	C	140869039	3	2	123	1	0	0	0	0	1	0	0	0	11590	304	11	5	234	5	PCDHGC5	5	140869039	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	86211	140869039	40046221	199	68263											
FBXO38	81545	broad.mit.edu	37	chr5	147793698	147793698	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaattgattgctctttttaGgcagaatggctaatgcggat	10	16	10	5	1	1	2	0	1	1	1	1	3	1	3	0	3	2	3	0	3	4	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:147793698G>T	uc003lpf.1	+	10	1214	c.1094_splice	c.e10-1	p.S365_splice	FBXO38_uc003lpg.1_Splice_Site_p.S365_splice|FBXO38_uc003lph.2_Splice_Site_p.S365_splice	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b							cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTCTTTTTAGGCAGAATGGC	0.358													33	65					1.06647e-15	1.1572e-15	0.017118	1	0		T	147793698	T	T	147793698	5	4	123	1	0	0	0	0	0	0	1	0	5760	1014	35	5	1127	5	FBXO38	5	147793698	Splice_Site	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	6924659	147793698	33121562	200	68264											
HTR4	3360	broad.mit.edu	37	chr5	147830828	147830828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgatgtcccctgtgcagaaCggtgtacctagaaaggaagg	12	8	13	8	1	0	3	0	1	0	2	1	4	1	4	3	3	3	2	3	3	5	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:147830828C>T	uc003lpj.1	-	7	1248	c.1084G>A	c.(1084-1086)GTT>ATT	p.V362I	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_3'UTR	NM_001040169	NP_001035259	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform a	362	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	CTGTGCAGAACGGTGTACCTA	0.483													42	100					0	0	0.01441	0	0		T	147830828	T	T	147830828	3	4	123	1	0	0	0	0	1	0	0	0	7465	536	19	1	83	1	HTR4	5	147830828	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	37130	147830828	33084432	201	68265											
CDX1	1044	broad.mit.edu	37	chr5	149546485	149546485	+	Missense_Mutation	SNP	G	A	A																															aggattcgcccgtgtaccccGgcccagccaggccagccagc																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:149546485G>A	uc003lrq.2	+	1	142	c.46G>A	c.(46-48)GGC>AGC	p.G16S		NM_001804	NP_001795	P47902	CDX1_HUMAN	caudal type homeobox 1	16						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CGTGTACCCCGGCCCAGCCAG	0.597													3	9					0	0	0.009096	0	0		A	149546485	A	A	149546485	3	1	123	1	0	0	0	0	1	0	0	0	3185	1116	39	1	48	1	CDX1	5	149546485	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1715657	149546485	31368775	202	68266	127	2									
CDX1	1044	broad.mit.edu	37	chr5	149546487	149546487	+	Silent	SNP	C	G	G																															gattcgcccgtgtaccccggCccagccaggccagccagcct																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:149546487C>G	uc003lrq.2	+	1	144	c.48C>G	c.(46-48)GGC>GGG	p.G16G		NM_001804	NP_001795	P47902	CDX1_HUMAN	caudal type homeobox 1	16						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGTACCCCGGCCCAGCCAGGC	0.592													3	9					0	0	0.009096	0	0		G	149546487	G	G	149546487	2	3	123	1	0	0	0	0	0	0	0	1	3185	726	26	5		5	CDX1	5	149546487	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2	149546487	31368773	203	68267	127	2									
CCDC69	26112	broad.mit.edu	37	chr5	150566955	150566955	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcccctctcacctgctgggTagaactggcctcccggaaag	8	7	11	15	1	1	1	1	0	1	1	3	2	2	2	5	3	3	2	5	3	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:150566955T>C	uc003ltq.2	-	5	508	c.385A>G	c.(385-387)ACC>GCC	p.T129A	CCDC69_uc010jhu.2_5'UTR|CCDC69_uc011dcq.1_RNA	NM_015621	NP_056436	A6NI79	CCD69_HUMAN	coiled-coil domain containing 69	129	Potential.									ovary(2)	2		Medulloblastoma(196;0.091)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACCTGCTGGGTAGAACTGGCC	0.537													16	35					0	0	0.007413	0	0		C	150566955	C	C	150566955	3	2	123	1	0	0	0	0	1	0	0	0	2844	1638	57	3	525	3	CCDC69	5	150566955	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1020468	150566955	30348305	204	68268											
CYFIP2	26999	broad.mit.edu	37	chr5	156816383	156816383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttccaccggctgtggagcGccatgcagttcgtgtactgc	6	10	13	12	3	0	0	0	0	0	0	2	1	1	1	3	2	4	5	3	2	1	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:156816383G>A	uc003lwq.2	+	31	3532	c.3394G>A	c.(3394-3396)GCC>ACC	p.A1132T	CYFIP2_uc011ddn.1_Missense_Mutation_p.A1106T|CYFIP2_uc011ddo.1_Missense_Mutation_p.A936T|CYFIP2_uc003lwr.2_Missense_Mutation_p.A1132T|CYFIP2_uc003lws.2_Missense_Mutation_p.A1132T|CYFIP2_uc003lwt.2_Missense_Mutation_p.A1035T|CYFIP2_uc011ddp.1_Missense_Mutation_p.A866T|CYFIP2_uc003lwv.2_Missense_Mutation_p.A87T	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	1157					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GCTGTGGAGCGCCATGCAGTT	0.617													10	35					0	0	0.010729	0	0		A	156816383	A	A	156816383	3	1	123	1	0	0	0	0	1	0	0	0	4141	1087	38	1	3504	1	CYFIP2	5	156816383	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	6249428	156816383	24098877	205	68269											
DOCK2	1794	broad.mit.edu	37	chr5	169111316	169111316	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggggaagatgctgagctcttCatgtctctctacgaccccaa	9	10	10	12	1	4	2	1	1	3	1	5	4	4	3	2	2	3	2	2	2	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:169111316C>T	uc003maf.2	+	8	803	c.723C>T	c.(721-723)TTC>TTT	p.F241F	DOCK2_uc011der.1_RNA	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	241					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTGAGCTCTTCATGTCTCTCT	0.483													19	99					0	0	0.014323	0	0		T	169111316	T	T	169111316	2	4	123	1	0	0	0	0	0	0	0	1	4693	825	29	4		4	DOCK2	5	169111316	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	12294933	169111316	11803944	206	68270											
TLX3	30012	broad.mit.edu	37	chr5	170736463	170736463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagcccggaccaggacagcGcacccgccccgcggggcccc	7	0	13	21	5	0	0	0	0	0	0	0	2	0	2	7	4	2	1	7	4	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:170736463G>A	uc003mbf.2	+	1	176	c.94G>A	c.(94-96)GCA>ACA	p.A32T	uc003mbe.1_5'Flank	NM_021025	NP_066305	O43711	TLX3_HUMAN	T-cell leukemia homeobox 3	32						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00576)|all_lung(126;0.00963)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CCAGGACAGCGCACCCGCCCC	0.756			T	BCL11B	T-ALL								4	8					0	0	0.021553	0	0		A	170736463	A	A	170736463	3	1	123	1	0	0	0	0	1	0	0	0	15987	1087	38	1	96	1	TLX3	5	170736463	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1625147	170736463	10178797	207	68271											
SH3PXD2B	285590	broad.mit.edu	37	chr5	171766016	171766016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctctcctgggaggaagcttCggctgaaggccacgtcttgg	6	9	14	12	2	2	1	0	1	2	0	4	3	2	3	3	5	1	2	3	5	2	2	rs144659619	byFrequency	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:171766016C>T	uc003mbr.2	-	13	2264	c.2093G>A	c.(2092-2094)CGA>CAA	p.R698Q		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	698					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GAGGAAGCTTCGGCTGAAGGC	0.632													24	57					0	0	0.016522	0	0		T	171766016	T	T	171766016	3	4	123	1	0	0	0	0	1	0	0	0	14282	884	31	1	646	1	SH3PXD2B	5	171766016	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1029553	171766016	9149244	208	68272											
HRH2	3274	broad.mit.edu	37	chr5	175111278	175111278	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccaggtgtggagtgggAcagaagtcacggccccccag	9	5	15	12	1	1	1	1	0	0	1	2	3	2	3	4	4	1	1	4	4	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:175111278A>G	uc003mdd.2	+	1	2815	c.1042A>G	c.(1042-1044)ACA>GCA	p.T348A	HRH2_uc003mdc.3_Missense_Mutation_p.T348A	NM_022304	NP_071640	P25021	HRH2_HUMAN	histamine receptor H2 isoform 2	348	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|immune response	integral to plasma membrane	histamine receptor activity			ovary(1)	1	all_cancers(89;0.00805)|Renal(175;0.000269)|Lung NSC(126;0.00419)|all_lung(126;0.00711)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Colorectal(1;0.0154)|COAD - Colon adenocarcinoma(1;0.149)	Betazole(DB00272)|Cimetidine(DB00501)|Doxepin(DB01142)|Epinastine(DB00751)|Famotidine(DB00927)|Histamine Phosphate(DB00667)|Nizatidine(DB00585)|Ranitidine(DB00863)	GTGGAGTGGGACAGAAGTCAC	0.582													11	157					0	0	0.013537	0	0		G	175111278	G	G	175111278	3	3	123	1	0	0	0	0	1	0	0	0	7372	275	10	3	1044	3	HRH2	5	175111278	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	3345262	175111278	5803982	209	68273											
SNCB	6620	broad.mit.edu	37	chr5	176056614	176056614	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccgcggctgccacaacGccctccttggccatggacag	6	8	10	17	3	1	0	0	0	1	0	3	1	2	1	5	3	2	1	5	3	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:176056614G>A	uc003mep.2	-	3	485	c.42C>T	c.(40-42)GGC>GGT	p.G14G	SNCB_uc003meq.2_Silent_p.G14G|SNCB_uc010jke.1_Silent_p.G14G|hsa-mir-4281|MI0015885_5'Flank|EIF4E1B_uc010jkf.1_5'Flank	NM_001001502	NP_001001502	Q16143	SYUB_HUMAN	beta-synuclein	14							calcium ion binding|phospholipase inhibitor activity			ovary(1)	1	all_cancers(89;0.00222)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTGCCACAACGCCCTCCTTGG	0.672													9	24					0	0	0.008291	0	0		A	176056614	A	A	176056614	2	1	123	1	0	0	0	0	0	0	0	1	14867	1074	38	1		1	SNCB	5	176056614	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	945336	176056614	4858646	210	68274											
EIF4E1B	253314	broad.mit.edu	37	chr5	176070736	176070736	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtggaggacttctgggcGtgagtgtctgtccccagtgg	5	11	16	9	1	2	1	0	1	2	0	3	3	3	3	2	4	0	0	2	4	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:176070736G>A	uc010jkf.1	+	5	880	c.296_splice	c.e5+1	p.A99_splice		NM_001099408	NP_001092878	A6NMX2	I4E1B_HUMAN	eukaryotic translation initiation factor 4E						regulation of translation	cytoplasm|mRNA cap binding complex	translation initiation factor activity				0	all_cancers(89;0.00185)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACTTCTGGGCGTGAGTGTCTG	0.632													3	23					0	0	0.004672	0	0		A	176070736	A	A	176070736	5	1	123	1	0	0	0	0	0	0	1	0	5037	1159	40	1	307	1	EIF4E1B	5	176070736	Splice_Site	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	14122	176070736	4844524	211	68275											
PDLIM7	9260	broad.mit.edu	37	chr5	176917892	176917892	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatttcttcaggtgctccTcatccgggtcttgcactgag	5	15	10	11	1	4	2	2	2	2	0	6	2	6	2	2	2	2	2	2	2	0	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr5:176917892T>G	uc003mhc.1	-	7	636	c.551A>C	c.(550-552)GAG>GCG	p.E184A	PDLIM7_uc003mha.1_5'UTR|PDLIM7_uc003mhb.1_Missense_Mutation_p.E150A|PDLIM7_uc003mhd.1_Missense_Mutation_p.E36A|PDLIM7_uc003mhe.1_RNA|PDLIM7_uc003mhf.2_Missense_Mutation_p.E184A|PDLIM7_uc003mhg.1_Missense_Mutation_p.E184A	NM_005451	NP_005442	Q9NR12	PDLI7_HUMAN	PDZ and LIM domain 7 isoform 1	184					cell differentiation|multicellular organismal development|ossification|receptor-mediated endocytosis	cytoplasm|focal adhesion	protein binding|zinc ion binding			breast(1)	1	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAGGTGCTCCTCATCCGGGTC	0.602													15	50					0	0	0.00499	0	0		G	176917892	G	G	176917892	3	3	123	1	0	0	0	0	1	0	0	0	11703	1551	54	5	951	5	PDLIM7	5	176917892	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	847156	176917892	3997368	212	68276											
JARID2	3720	broad.mit.edu	37	chr6	15496722	15496722	+	Frame_Shift_Del	DEL	G	-	-																															aagtcatgcactaaggaggtGggggggcggcagctgcggga																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:15496722delG	uc003nbj.2	+	7	1510	c.1266delG	c.(1264-1266)GTGfs	p.V422fs	JARID2_uc011diu.1_Frame_Shift_Del_p.V286fs|JARID2_uc011div.1_Frame_Shift_Del_p.V250fs|JARID2_uc011diw.1_Frame_Shift_Del_p.V384fs	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	422					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				CTAAGGAGGTGGGGGGGCGGC	0.667													33	67	---	---	---	---						.	-	15496722	-	-	15496722	7	5	123	1	0	1	0	1	0	0	0	0	7961	1335	47	0	1292	0	JARID2	6	15496722	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08		15496722	155618345	213	68277											
KIF13A	63971	broad.mit.edu	37	chr6	17837800	17837800	+	Frame_Shift_Del	DEL	A	-	-																															gtgatgatataaccaaccccAaggttgtaagcgatctgtca																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:17837800delA	uc003ncg.3	-	10	950	c.845delT	c.(844-846)TTGfs	p.L282fs	KIF13A_uc003ncf.2_Frame_Shift_Del_p.L282fs|KIF13A_uc003nch.3_Frame_Shift_Del_p.L282fs|KIF13A_uc003nci.3_Frame_Shift_Del_p.L282fs|KIF13A_uc003ncj.2_5'Flank	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	282					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			AACCAACCCCAAGGTTGTAAG	0.378													11	14	---	---	---	---						.	-	17837800	-	-	17837800	7	5	123	1	0	1	0	1	0	0	0	0	8290	131	5	0	4717	0	KIF13A	6	17837800	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	2341078	17837800	153277267	214	68278											
DCDC2	51473	broad.mit.edu	37	chr6	24289078	24289078	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaaagcatctgatacttAcactccctttagactttctg	11	13	7	10	0	2	2	0	1	2	1	3	4	3	3	1	1	3	1	1	1	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:24289078A>G	uc003ndx.2	-	6	1061	c.759_splice	c.e6+1	p.S253_splice	DCDC2_uc003ndy.2_Splice_Site_p.S253_splice	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2						cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				TCTGATACTTACACTCCCTTT	0.353													24	38					0	0	0.00632	0	0		G	24289078	G	G	24289078	5	3	123	1	0	0	0	0	0	0	1	0	4288	405	14	3	689	3	DCDC2	6	24289078	Splice_Site	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	6451278	24289078	146825989	215	68279											
PGBD1	84547	broad.mit.edu	37	chr6	28269709	28269709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgtcgttggtatggggatgGcattatcagtctgtgctcca	6	14	14	7	1	2	0	1	0	1	0	4	1	3	1	1	4	1	4	1	4	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:28269709G>A	uc003nky.2	+	7	2448	c.2078G>A	c.(2077-2079)GGC>GAC	p.G693D	PGBD1_uc003nkz.2_Missense_Mutation_p.G693D	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	693					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						TATGGGGATGGCATTATCAGT	0.383													68	112					0	0	0.01441	0	0		A	28269709	A	A	28269709	3	1	123	1	0	0	0	0	1	0	0	0	11799	1203	42	2	2100	2	PGBD1	6	28269709	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3980631	28269709	142845358	216	68280											
PGBD1	84547	broad.mit.edu	37	chr6	28269912	28269913	+	Frame_Shift_Ins	INS	-	T	T																															aagcaagaaatggtactcaaINSttttggtgagctacatgatt																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:28269912_28269913insT	uc003nky.2	+	7	2651_2652	c.2281_2282insT	c.(2281-2283)ATTfs	p.I761fs	PGBD1_uc003nkz.2_Frame_Shift_Ins_p.I761fs	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	761					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						ATGGTACTCAATTTTGGTGAGC	0.406													25	56	---	---	---	---						.	T	28269913	T	T	28269912	7	5	123	1	0	1	1	0	0	0	0	0	11799	101	4	0	2303	0	PGBD1	6	28269912	Frame_Shift_Ins	INS	-	TCGA-CD-A4MJ-01A-11D-A25D-08	203	28269912	142845155	217	68281											
ZNF311	282890	broad.mit.edu	37	chr6	28963905	28963905	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtggattatccggtgcaTagaaagctgatttctggtct	8	15	12	6	1	2	2	0	1	2	1	3	3	3	3	1	3	2	2	1	3	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:28963905T>C	uc003nlu.2	-	7	1387	c.874A>G	c.(874-876)ATG>GTG	p.M292V	ZNF311_uc011dlk.1_Missense_Mutation_p.M200V|ZNF311_uc003nlv.2_Missense_Mutation_p.M200V	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	292	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						ATCCGGTGCATAGAAAGCTGA	0.438													23	54					0	0	0.016522	0	0		C	28963905	C	C	28963905	3	2	123	1	0	0	0	0	1	0	0	0	17859	1406	49	3	1130	3	ZNF311	6	28963905	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	693993	28963905	142151162	218	68282											
PRR3	80742	broad.mit.edu	37	chr6	30529885	30529885	+	Frame_Shift_Del	DEL	C	-	-																															acctgcccgcccaaggatgaCccccaggttatggaaggtga																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:30529885delC	uc003nqi.1	+	3	810	c.444delC	c.(442-444)GACfs	p.D148fs	PRR3_uc003nqj.1_Frame_Shift_Del_p.D127fs	NM_025263	NP_079539	P79522	PRR3_HUMAN	proline-rich protein 3 isoform a	148							nucleic acid binding|zinc ion binding				0						CCAAGGATGACCCCCAGGTTA	0.488													50	116	---	---	---	---						.	-	30529885	-	-	30529885	7	5	123	1	0	1	0	1	0	0	0	0	12620	506	18	0	454	0	PRR3	6	30529885	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1565980	30529885	140585182	219	68283											
VARS2	57176	broad.mit.edu	37	chr6	30890885	30890885	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcttcccttccagcgggCgacttgcacctgtcagtctc	5	12	9	15	2	3	0	1	0	2	0	6	2	5	0	3	1	2	1	3	1	0	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:30890885C>T	uc003nsc.1	+	23	2822	c.2190C>T	c.(2188-2190)GGC>GGT	p.G730G	VARS2_uc011dmx.1_Silent_p.G730G|VARS2_uc011dmy.1_Silent_p.G590G|VARS2_uc011dmz.1_Silent_p.G760G|VARS2_uc011dna.1_Silent_p.G728G|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_Silent_p.G168G|VARS2_uc010jsg.1_Silent_p.G102G|VARS2_uc010jsh.1_5'UTR	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	730					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						TTCCAGCGGGCGACTTGCACC	0.567													29	67					0	0	0.007291	0	0		T	30890885	T	T	30890885	2	4	123	1	0	0	0	0	0	0	0	1	17150	755	27	1		1	VARS2	6	30890885	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	361000	30890885	140224182	220	68284											
HLA-B	3106	broad.mit.edu	37	chr6	31323192	31323192	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccacagctgcccacttcTggaaggttctatctcctgct	7	11	7	16	0	3	0	0	0	3	0	4	1	3	1	4	2	3	3	4	2	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:31323192T>C	uc003nth.2	-	4	851	c.797A>G	c.(796-798)CAG>CGG	p.Q266R	HLA-C_uc003ntb.2_RNA|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_RNA|HLA-B_uc011dnk.1_RNA|HLA-B_uc003ntf.2_Intron|HLA-B_uc003ntg.1_Missense_Mutation_p.Q145R|HLA-B_uc003nti.1_RNA|HLA-B_uc010jsn.1_RNA	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B	266	Alpha-3.|Ig-like C1-type.|Extracellular (Potential).			Q -> E (in Ref. 16; AA sequence).	antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						TGCCCACTTCTGGAAGGTTCT	0.582									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				29	58					0	0	0.00632	0	0		C	31323192	C	C	31323192	3	2	123	1	0	0	0	0	1	0	0	0	7212	1580	55	3	307	3	HLA-B	6	31323192	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	432307	31323192	139791875	221	68285											
SLC39A7	7922	broad.mit.edu	37	chr6	33169042	33169042	+	Frame_Shift_Del	DEL	C	-	-																															gatggccagaggcctgggggCcccccactgggtggccgtgg																								rs2975298		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:33169042delC	uc003odf.2	+	2	137	c.20delC	c.(19-21)GCCfs	p.A7fs	RXRB_uc003odb.2_5'Flank|RXRB_uc003odc.2_5'Flank|RXRB_uc003odd.2_5'Flank|RXRB_uc011dqr.1_5'Flank|RXRB_uc011dqs.1_5'Flank|RXRB_uc003ode.1_5'Flank|RXRB_uc011dqt.1_5'Flank|RXRB_uc011dqu.1_5'Flank|SLC39A7_uc003odg.2_Frame_Shift_Del_p.A7fs|SLC39A7_uc011dqv.1_5'UTR|SLC39A7_uc003odh.2_5'Flank	NM_001077516	NP_001070984	Q92504	S39A7_HUMAN	solute carrier family 39, member 7	7				A -> G (in Ref. 1; BAA11528 and 2; AAD12305).		endoplasmic reticulum membrane|integral to membrane|membrane fraction	protein binding|zinc ion transmembrane transporter activity			large_intestine(1)	1						GGCCTGGGGGCCCCCCACTGG	0.627													66	118	---	---	---	---						.	-	33169042	-	-	33169042	7	5	123	1	0	1	0	1	0	0	0	0	14648	739	26	0	22	0	SLC39A7	6	33169042	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1845850	33169042	137946025	222	68286											
SYNGAP1	8831	broad.mit.edu	37	chr6	33419549	33419549	+	Frame_Shift_Del	DEL	C	-	-																															tcttgcaggagaggcagcttCcccccttgggtccaacaaac																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:33419549delC	uc011dri.1	+	19	4093	c.3898delC	c.(3898-3900)CCCfs	p.P1300fs	ZBTB9_uc003oeq.2_5'Flank|SYNGAP1_uc010juy.2_Frame_Shift_Del_p.P1269fs|SYNGAP1_uc010juz.2_3'UTR	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	1300					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						GAGGCAGCTTCCCCCCTTGGG	0.647													18	39	---	---	---	---						.	-	33419549	-	-	33419549	7	5	123	1	0	1	0	1	0	0	0	0	15472	855	30	0	3972	0	SYNGAP1	6	33419549	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08	250507	33419549	137695518	223	68287											
SNRPC	6631	broad.mit.edu	37	chr6	34735761	34735762	+	Frame_Shift_Ins	INS	-	C	C																															caggggcgatgataccacctINSccccccagccttcgtaagtt																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:34735761_34735762insC	uc003ojt.1	+	4	252_253	c.237_238insC	c.(235-240)CCTCCCfs	p.P79fs		NM_003093	NP_003084	P09234	RU1C_HUMAN	small nuclear ribonucleoprotein polypeptide C	79_80					spliceosomal snRNP assembly	Cajal body|U1 snRNP	protein homodimerization activity|single-stranded RNA binding|zinc ion binding			pancreas(1)	1						TGATACCACCTCCCCCCAGCCT	0.47													37	58	---	---	---	---						.	C	34735762	C	C	34735761	7	5	123	1	0	1	1	0	0	0	0	0	14888	1538	54	0	251	0	SNRPC	6	34735761	Frame_Shift_Ins	INS	-	TCGA-CD-A4MJ-01A-11D-A25D-08	1316212	34735761	136379306	224	68288											
CPNE5	57699	broad.mit.edu	37	chr6	36710206	36710206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcacgtctcgggccaggcGggccatgctcagcacgtggt	6	6	15	14	4	2	0	1	0	1	0	3	0	2	0	2	4	3	3	2	4	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:36710206G>A	uc003omr.1	-	21	1688	c.1621C>T	c.(1621-1623)CGC>TGC	p.R541C	CPNE5_uc003omp.1_Missense_Mutation_p.R249C|CPNE5_uc010jwn.1_Missense_Mutation_p.R191C|CPNE5_uc003omq.1_Missense_Mutation_p.R191C	NM_020939	NP_065990	Q9HCH3	CPNE5_HUMAN	copine V	541	VWFA.									skin(1)	1						CGGGCCAGGCGGGCCATGCTC	0.652													37	121					0	0	0.010771	0	0		A	36710206	A	A	36710206	3	1	123	1	0	0	0	0	1	0	0	0	3818	1116	39	1	164	1	CPNE5	6	36710206	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1974445	36710206	134404861	225	68289											
PIM1	5292	broad.mit.edu	37	chr6	37140777	37140777	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccttggctcacagggaccCgagtgtatagccctccagag	8	8	11	14	1	1	1	1	0	0	1	3	3	3	2	4	2	1	2	4	2	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:37140777C>T	uc003onk.2	+	5	1043	c.613C>T	c.(613-615)CGA>TGA	p.R205*	PIM1_uc011dtw.1_Silent_p.P73P	NM_002648	NP_002639	P11309	PIM1_HUMAN	non-specific serine/threonine protein kinase	296	Protein kinase.				cell cycle|cell proliferation|multicellular organismal development|negative regulation of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|protein autophosphorylation	cytoplasm|nucleus|plasma membrane	ATP binding|manganese ion binding|protein binding|protein binding|protein serine/threonine kinase activity|transcription factor binding			large_intestine(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(102;0.241)		Adenosine monophosphate(DB00131)	CACAGGGACCCGAGTGTATAG	0.478			T	BCL6	NHL								33	75					0	0	0.023175	0	0		T	37140777	T	T	37140777	4	4	123	1	0	0	0	0	0	1	0	0	11946	644	23	1	631	1	PIM1	6	37140777	Nonsense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	430571	37140777	133974290	226	68290											
BTBD9	114781	broad.mit.edu	37	chr6	38560397	38560397	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catatcccggctctcagatcGcactttaatggcatccagga	10	10	8	13	2	1	1	1	0	1	1	5	2	3	2	2	3	0	3	2	3	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:38560397G>T	uc003ooa.3	-	5	1345	c.769C>A	c.(769-771)CGA>AGA	p.R257R	BTBD9_uc003ony.3_Silent_p.R189R|BTBD9_uc010jwv.2_Silent_p.R189R|BTBD9_uc010jww.2_RNA|BTBD9_uc010jwx.2_Silent_p.R257R	NM_052893	NP_443125	Q96Q07	BTBD9_HUMAN	BTB (POZ) domain containing 9 isoform a	257					cell adhesion						0						CTCTCAGATCGCACTTTAATG	0.498													31	72					2.80507e-11	3.00337e-11	0.012213	1	0		T	38560397	T	T	38560397	2	4	123	1	0	0	0	0	0	0	0	1	1551	1095	38	5		5	BTBD9	6	38560397	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1419620	38560397	132554670	227	68291											
DNAH8	1769	broad.mit.edu	37	chr6	38791409	38791409	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactatgctacttttgaacaGgagattgatgagttgaagcc	12	12	10	7	0	0	5	0	4	0	1	0	6	0	5	1	1	4	2	1	1	4	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:38791409G>T	uc003ooe.1	+	26	3741	c.3141G>T	c.(3139-3141)CAG>CAT	p.Q1047H		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CTTTTGAACAGGAGATTGATG	0.313													9	54					0.000274275	0.000277713	0.004482	1	0		T	38791409	T	T	38791409	3	4	123	1	0	0	0	0	1	0	0	0	4613	991	35	5	3235	5	DNAH8	6	38791409	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	231012	38791409	132323658	228	68292											
DNAH8	1769	broad.mit.edu	37	chr6	38997965	38997965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcatggaatccacccccaagGtactcttcacgcagttaccc	10	9	6	16	1	3	0	2	0	1	0	4	1	4	1	4	2	2	3	4	2	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:38997965G>A	uc003ooe.1	+	91	13870	c.13270G>A	c.(13270-13272)GTA>ATA	p.V4424I		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CACCCCCAAGGTACTCTTCAC	0.512											OREG0017409	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	103					0	0	0.001984	0	0		A	38997965	A	A	38997965	3	1	123	1	0	0	0	0	1	0	0	0	4613	1261	44	4	13624	4	DNAH8	6	38997965	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	206556	38997965	132117102	229	68293											
ABCC10	89845	broad.mit.edu	37	chr6	43400360	43400360	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcaagaacctgaggtggcTgaagatggggagagttggct	11	8	17	5	0	1	5	1	2	0	3	1	7	1	5	1	5	1	3	1	5	3	1	rs141145411		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:43400360T>C	uc003ouy.1	+	3	857	c.642T>C	c.(640-642)GCT>GCC	p.A214A	ABCC10_uc003ouz.1_Silent_p.A171A	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	214						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CTGAGGTGGCTGAAGATGGGG	0.632													49	97					0	0	0.01441	0	0		C	43400360	C	C	43400360	2	2	123	1	0	0	0	0	0	0	0	1	50	1567	55	3		3	ABCC10	6	43400360	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	4402395	43400360	127714707	230	68294											
PRIM2	5558	broad.mit.edu	37	chr6	57372344	57372344	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaagacttcagcctctgctCaatcacctcaggtaatctaa	13	10	6	12	0	6	1	4	0	2	1	6	2	6	1	2	1	2	2	2	1	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:57372344C>T	uc003pdx.2	+	8	837	c.750C>T	c.(748-750)CTC>CTT	p.L250L		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	250					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		AGCCTCTGCTCAATCACCTCA	0.408													4	37					0	0	0.014758	0	0		T	57372344	T	T	57372344	2	4	123	1	0	0	0	0	0	0	0	1	12513	813	29	4		4	PRIM2	6	57372344	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	13971984	57372344	113742723	231	68295											
EYS	346007	broad.mit.edu	37	chr6	66054010	66054010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cataggttgcatcttcagtgCagtttgcagccagaaagaaa	13	10	10	8	0	2	2	1	0	1	2	2	2	2	2	1	1	4	5	1	1	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:66054010C>T	uc011dxu.1	-	10	2058	c.1520G>A	c.(1519-1521)TGC>TAC	p.C507Y	EYS_uc003peq.2_Missense_Mutation_p.C507Y|EYS_uc003per.1_Missense_Mutation_p.C507Y	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	507					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						ATCTTCAGTGCAGTTTGCAGC	0.353													31	47					0	0	0.013726	0	0		T	66054010	T	T	66054010	3	4	123	1	0	0	0	0	1	0	0	0	5340	710	25	2	8012	2	EYS	6	66054010	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	8681666	66054010	105061057	232	68296											
MYO6	4646	broad.mit.edu	37	chr6	76591511	76591511	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgctggaagaaagttcagTggtgctcactctcagtcatc	9	11	11	10	1	4	1	4	0	1	1	7	2	4	2	0	2	1	3	0	2	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:76591511T>C	uc003pih.1	+	23	2671	c.2392T>C	c.(2392-2394)TGG>CGG	p.W798R	MYO6_uc003pig.1_Missense_Mutation_p.W798R|MYO6_uc003pii.1_Missense_Mutation_p.W798R	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	798	Required for binding calmodulin (By similarity).				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		GAAAGTTCAGTGGTGCTCACT	0.418													39	83					0	0	0.011902	0	0		C	76591511	C	C	76591511	3	2	123	1	0	0	0	0	1	0	0	0	10099	1696	59	3	2478	3	MYO6	6	76591511	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	10537501	76591511	94523556	233	68297											
SNAP91	9892	broad.mit.edu	37	chr6	84265953	84265953	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctctgactggcaggtgtaggGcttggagaaagctaatggga	10	9	16	6	0	1	2	0	1	1	1	1	4	1	3	0	5	1	4	0	5	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:84265953G>A	uc011dze.1	-	28	2960	c.2643C>T	c.(2641-2643)AGC>AGT	p.S881S	SNAP91_uc011dzd.1_Silent_p.S379S|SNAP91_uc003pkb.2_Silent_p.S790S|SNAP91_uc003pkc.2_Silent_p.S851S|SNAP91_uc003pkd.2_Silent_p.S574S|SNAP91_uc003pka.2_Silent_p.S879S	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	881	Pro-rich.				clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		CAGGTGTAGGGCTTGGAGAAA	0.438													3	5					0	0	0.009096	0	0		A	84265953	A	A	84265953	2	1	123	1	0	0	0	0	0	0	0	1	14858	1194	42	2		2	SNAP91	6	84265953	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	7674442	84265953	86849114	234	68298											
NT5E	4907	broad.mit.edu	37	chr6	86197150	86197150	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtctatctggatggctcCtctcaatcatgccgctttag	7	15	8	11	1	4	0	2	0	3	0	6	1	5	1	2	2	1	2	2	2	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:86197150C>A	uc003pko.3	+	5	1603	c.1047C>A	c.(1045-1047)TCC>TCA	p.S349S	NT5E_uc010kbr.2_Silent_p.S349S	NM_002526	NP_002517	P21589	5NTD_HUMAN	5' nucleotidase, ecto precursor	349					DNA metabolic process|purine base metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	5'-nucleotidase activity|nucleotide binding			ovary(3)|central_nervous_system(1)	4		all_cancers(76;0.000215)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0427)		BRCA - Breast invasive adenocarcinoma(108;0.0417)	Pentoxifylline(DB00806)	TGGATGGCTCCTCTCAATCAT	0.373													45	106					3.68337e-26	4.09451e-26	0.01441	1	0		A	86197150	A	A	86197150	2	1	123	1	0	0	0	0	0	0	0	1	10712	668	24	5		5	NT5E	6	86197150	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1931197	86197150	84917917	235	68299											
PRDM13	59336	broad.mit.edu	37	chr6	100062523	100062523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggcccgggtgccgagcccgGctatcccccggagcctgggg	3	4	17	17	5	0	0	0	0	0	0	1	2	1	1	6	6	3	1	6	6	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:100062523G>A	uc003pqg.1	+	4	2273	c.2012G>A	c.(2011-2013)GGC>GAC	p.G671D		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	671					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		GCCGAGCCCGGCTATCCCCCG	0.701													22	33					0	0	0.010504	0	0		A	100062523	A	A	100062523	3	1	123	1	0	0	0	0	1	0	0	0	12476	1203	42	2	2026	2	PRDM13	6	100062523	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	13865373	100062523	71052544	236	68300											
ATG5	9474	broad.mit.edu	37	chr6	106634539	106634539	+	Frame_Shift_Del	DEL	T	-	-																															catgaatcatcacttgattcTttttttccccatctattcca																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:106634539delT	uc003prf.2	-	8	1057	c.704delA	c.(703-705)AAGfs	p.K235fs	ATG5_uc010kdb.2_3'UTR|ATG5_uc003prg.2_Frame_Shift_Del_p.K157fs|ATG5_uc010kdc.2_3'UTR	NM_004849	NP_004840	Q9H1Y0	ATG5_HUMAN	APG5 autophagy 5-like	235					apoptosis|autophagic vacuole assembly|negative regulation of type I interferon production|post-translational protein modification	autophagic vacuole|pre-autophagosomal structure membrane	protein binding			large_intestine(1)	1	Breast(9;0.0296)	all_cancers(87;0.000301)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.0612)|Lung NSC(302;0.216)	BRCA - Breast invasive adenocarcinoma(8;0.00802)	OV - Ovarian serous cystadenocarcinoma(136;0.128)|Epithelial(106;0.159)|all cancers(137;0.18)		CACTTGATTCTTTTTTTCCCC	0.368													21	39	---	---	---	---						.	-	106634539	-	-	106634539	7	5	123	1	0	1	0	1	0	0	0	0	1101	1609	56	0	127	0	ATG5	6	106634539	Frame_Shift_Del	DEL	T	TCGA-CD-A4MJ-01A-11D-A25D-08	6572016	106634539	64480528	237	68301											
CDC40	51362	broad.mit.edu	37	chr6	110534291	110534291	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaatacctttttatagggCgtcagtgcagtcagattgtt	9	16	10	6	1	2	1	2	0	0	1	2	1	2	1	1	1	2	3	1	1	4	8			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:110534291C>T	uc003pua.2	+	8	894	c.870C>T	c.(868-870)GGC>GGT	p.G290G		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	290	WD 1.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		TTTTATAGGGCGTCAGTGCAG	0.378													44	94					0	0	0.01441	0	0		T	110534291	T	T	110534291	2	4	123	1	0	0	0	0	0	0	0	1	3073	755	27	1		1	CDC40	6	110534291	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3899752	110534291	60580776	238	68302											
SLC22A16	85413	broad.mit.edu	37	chr6	110778069	110778069	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggtgtcctccaaactccAattagagtgattatggaaaa	13	10	8	10	1	0	2	0	1	0	1	3	3	3	3	4	2	1	0	4	2	6	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:110778069A>G	uc003puf.2	-	2	272	c.205T>C	c.(205-207)TGG>CGG	p.W69R	SLC22A16_uc003pue.2_Intron|SLC22A16_uc003pug.2_Missense_Mutation_p.W69R	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	69					acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		TCCAAACTCCAATTAGAGTGA	0.498													29	64					0	0	0.00632	0	0		G	110778069	G	G	110778069	3	3	123	1	0	0	0	0	1	0	0	0	14472	130	5	3	1556	3	SLC22A16	6	110778069	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	243778	110778069	60336998	239	68303											
TSPYL4	23270	broad.mit.edu	37	chr6	116574135	116574135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggatagtgttcccttccCggtttctgtggatatgagcc	6	14	12	9	1	1	1	0	1	1	0	3	3	3	3	3	3	1	2	3	3	3	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:116574135C>T	uc003pwn.2	-	1	1127	c.1037G>A	c.(1036-1038)CGG>CAG	p.R346Q	DSE_uc011ebf.1_5'Flank|TSPYL4_uc011ebe.1_Missense_Mutation_p.R174Q|uc003pwo.1_5'Flank	NM_021648	NP_067680	Q9UJ04	TSYL4_HUMAN	TSPY-like 4	346					nucleosome assembly	nucleus					0		all_cancers(87;0.0144)|all_epithelial(87;0.021)|Colorectal(196;0.234)		all cancers(137;0.045)|OV - Ovarian serous cystadenocarcinoma(136;0.0666)|GBM - Glioblastoma multiforme(226;0.095)|Epithelial(106;0.125)		GTTCCCTTCCCGGTTTCTGTG	0.512													7	25					0	0	0.00308	0	0		T	116574135	T	T	116574135	3	4	123	1	0	0	0	0	1	0	0	0	16687	652	23	1	211	1	TSPYL4	6	116574135	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	5796066	116574135	54540932	240	68304											
ZUFSP	221302	broad.mit.edu	37	chr6	116966910	116966910	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaaagagcaccctctacTgccaatatctggtattgctt	12	11	8	10	0	2	2	0	0	2	2	2	3	2	2	2	1	4	3	2	1	5	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:116966910T>C	uc003pxf.1	-	9	1902	c.1656A>G	c.(1654-1656)GCA>GCG	p.A552A	ZUFSP_uc010kef.1_Silent_p.A356A	NM_145062	NP_659499	Q96AP4	ZUFSP_HUMAN	zinc finger with UFM1-specific peptidase domain	552						intracellular	zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(226;0.0258)|all cancers(137;0.0368)|OV - Ovarian serous cystadenocarcinoma(136;0.0464)|Epithelial(106;0.186)		CACCCTCTACTGCCAATATCT	0.318													35	65					0	0	0.023175	0	0		C	116966910	C	C	116966910	2	2	123	1	0	0	0	0	0	0	0	1	18271	1567	55	3		3	ZUFSP	6	116966910	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	392775	116966910	54148157	241	68305											
HBS1L	10767	broad.mit.edu	37	chr6	135300363	135300363	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtaagactaacatgatcGcctgctgccgcccagtcgac	12	7	9	13	3	0	2	0	1	0	1	2	3	0	2	3	0	3	2	3	0	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:135300363G>A	uc003qez.2	-	14	1848	c.1641C>T	c.(1639-1641)GGC>GGT	p.G547G	HBS1L_uc003qey.2_Silent_p.G383G|HBS1L_uc011ecy.1_Silent_p.G271G|HBS1L_uc011ecz.1_Silent_p.G383G|HBS1L_uc011eda.1_Silent_p.G505G	NM_006620	NP_006611	Q9Y450	HBS1L_HUMAN	Hsp70 subfamily B suppressor 1-like protein	547					signal transduction		GTP binding|GTPase activity|translation elongation factor activity			skin(2)	2	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0046)|GBM - Glioblastoma multiforme(68;0.00702)		TAACATGATCGCCTGCTGCCG	0.428													4	48					0	0	0.014758	0	0		A	135300363	A	A	135300363	2	1	123	1	0	0	0	0	0	0	0	1	7003	1074	38	1		1	HBS1L	6	135300363	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	18333453	135300363	35814704	242	68306											
IFNGR1	3459	broad.mit.edu	37	chr6	137519585	137519585	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagtcaccacttctgttatActagaaagttcttctgtatg	10	16	7	8	0	4	1	1	0	3	1	4	1	4	1	1	0	1	4	1	0	6	8			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:137519585A>G	uc003qho.2	-	7	1156	c.1053T>C	c.(1051-1053)AGT>AGC	p.S351S	IFNGR1_uc011edm.1_Silent_p.S323S	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	351	Cytoplasmic (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	CTTCTGTTATACTAGAAAGTT	0.458													34	54					0	0	0.015359	0	0		G	137519585	G	G	137519585	2	3	123	1	0	0	0	0	0	0	0	1	7565	388	14	3		3	IFNGR1	6	137519585	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	2219222	137519585	33595482	243	68307											
HECA	51696	broad.mit.edu	37	chr6	139488308	139488308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggaagttcattctggccGcgctcagtgccagccacaga	8	8	12	13	3	3	1	2	0	1	1	3	2	3	2	3	2	3	2	3	2	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:139488308G>A	uc003qin.2	+	2	1444	c.1159G>A	c.(1159-1161)GCG>ACG	p.A387T		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	387					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		CATTCTGGCCGCGCTCAGTGC	0.582													19	36					0	0	0.010504	0	0		A	139488308	A	A	139488308	3	1	123	1	0	0	0	0	1	0	0	0	7054	1087	38	1	1165	1	HECA	6	139488308	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1968723	139488308	31626759	244	68308											
CITED2	10370	broad.mit.edu	37	chr6	139694554	139694554	+	Frame_Shift_Del	DEL	G	-	-																															gagctgctgccagagccgccGggggtgctgctgccgcccga																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:139694554delG	uc003qip.1	-	2	772	c.528delC	c.(526-528)CCCfs	p.P176fs		NM_006079	NP_006070	Q99967	CITE2_HUMAN	Cbp/p300-interacting transactivator, with	176	Gly-rich.				adrenal cortex formation|anti-apoptosis|cell proliferation|determination of left/right symmetry|heart development|liver development|negative regulation of cell migration|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell cycle|positive regulation of cell-cell adhesion|positive regulation of male gonad development|positive regulation of peroxisome proliferator activated receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of organ formation|response to estrogen stimulus|response to fluid shear stress|response to hypoxia|sex determination	cytoplasm|nuclear chromatin|nucleus	chromatin binding|LBD domain binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity				0	Breast(32;0.226)			GBM - Glioblastoma multiforme(68;0.000171)|OV - Ovarian serous cystadenocarcinoma(155;0.00134)		CAGAGCCGCCGGGGGTGCTGC	0.542													18	29	---	---	---	---						.	-	139694554	-	-	139694554	7	5	123	1	0	1	0	1	0	0	0	0	3443	1103	39	0	288	0	CITED2	6	139694554	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	206246	139694554	31420513	245	68309											
PHACTR2	9749	broad.mit.edu	37	chr6	144095279	144095279	+	Frame_Shift_Del	DEL	A	-	-																															ctaagaaagaactagaggacAaaaacatcttgcagcgtaca																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:144095279delA	uc003qjq.3	+	8	1613	c.1483delA	c.(1483-1485)AAAfs	p.K495fs	PHACTR2_uc010khh.2_Frame_Shift_Del_p.K415fs|PHACTR2_uc010khi.2_Frame_Shift_Del_p.K506fs|PHACTR2_uc003qjr.3_Frame_Shift_Del_p.K426fs	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3	495	RPEL 2.						actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		ACTAGAGGACAAAAACATCTT	0.413													25	54	---	---	---	---						.	-	144095279	-	-	144095279	7	5	123	1	0	1	0	1	0	0	0	0	11829	131	5	0	1563	0	PHACTR2	6	144095279	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	4400725	144095279	27019788	246	68310											
UTRN	7402	broad.mit.edu	37	chr6	145161969	145161969	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtttccatcttgctgccGtgagtatgaaagattgcagc	9	12	10	10	2	1	3	0	2	1	1	2	3	2	3	2	0	4	4	2	0	2	4	rs141700678		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:145161969G>A	uc003qkt.2	+	72	10362	c.10270_splice	c.e72+1	p.P3424_splice		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin						muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TCTTGCTGCCGTGAGTATGAA	0.542													20	55					0	0	0.008871	0	0		A	145161969	A	A	145161969	5	1	123	1	0	0	0	0	0	0	1	0	17129	1159	40	1	10557	1	UTRN	6	145161969	Splice_Site	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1066690	145161969	25953098	247	68311											
LATS1	9113	broad.mit.edu	37	chr6	150004778	150004778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattgcagtgactgttgtagCagaaggctgagaattagcag	13	10	13	5	0	0	3	0	2	0	2	0	4	0	3	0	1	3	6	0	1	5	4	rs147658805	byFrequency	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:150004778C>T	uc003qmu.1	-	4	1995	c.1447G>A	c.(1447-1449)GCT>ACT	p.A483T	LATS1_uc010kif.1_Missense_Mutation_p.A378T|LATS1_uc003qmv.1_Missense_Mutation_p.A483T|LATS1_uc003qmw.2_Missense_Mutation_p.A483T|LATS1_uc010kig.1_Missense_Mutation_p.A378T	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	483					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		ACTGTTGTAGCAGAAGGCTGA	0.413													37	134					0	0	0.015359	0	0		T	150004778	T	T	150004778	3	4	123	1	0	0	0	0	1	0	0	0	8662	710	25	2	1965	2	LATS1	6	150004778	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	4842809	150004778	21110289	248	68312											
LRP11	84918	broad.mit.edu	37	chr6	150164195	150164195	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcccggcagtgtccgtcacGgtcagctggaaggtgtaggt	6	9	16	10	3	2	0	2	0	0	0	3	1	3	1	2	5	2	3	2	5	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:150164195G>A	uc003qng.2	-	3	1161	c.837C>T	c.(835-837)ACC>ACT	p.T279T	LRP11_uc003qnh.1_Silent_p.T279T	NM_032832	NP_116221	Q86VZ4	LRP11_HUMAN	low density lipoprotein receptor-related protein	279	PKD.|Extracellular (Potential).					integral to membrane	receptor activity				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;4.56e-12)|GBM - Glioblastoma multiforme(68;0.225)		TGTCCGTCACGGTCAGCTGGA	0.587													5	68					0	0	0.014758	0	0		A	150164195	A	A	150164195	2	1	123	1	0	0	0	0	0	0	0	1	8971	1103	39	1		1	LRP11	6	150164195	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	159417	150164195	20950872	249	68313											
PLEKHG1	57480	broad.mit.edu	37	chr6	151153343	151153343	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaggagggcccgccattggTatgtgcaccctgcccttctt	6	10	11	14	1	1	0	0	0	1	0	1	1	1	1	4	3	2	2	4	3	2	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:151153343T>C	uc003qny.1	+	16	3406	c.3094_splice	c.e16+2	p.G1032_splice	PLEKHG1_uc011eem.1_Splice_Site_p.G1091_splice	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G						regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		CCGCCATTGGTATGTGCACCC	0.532													29	46					0	0	0.015359	0	0		C	151153343	C	C	151153343	5	2	123	1	0	0	0	0	0	0	1	0	12087	1652	57	3	3150	3	PLEKHG1	6	151153343	Splice_Site	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	989148	151153343	19961724	250	68314											
SYNE1	23345	broad.mit.edu	37	chr6	152737985	152737985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggacagggcaagctgccGcctctccacaacctggctgg	8	6	13	14	1	1	0	0	0	1	0	2	1	1	1	4	4	3	3	4	4	2	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:152737985G>A	uc010kiw.2	-	41	6189	c.5587C>T	c.(5587-5589)CGG>TGG	p.R1863W	SYNE1_uc003qot.3_Missense_Mutation_p.R1870W|SYNE1_uc003qou.3_Missense_Mutation_p.R1863W|SYNE1_uc010kjb.1_Missense_Mutation_p.R1846W	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1863	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GCAAGCTGCCGCCTCTCCACA	0.602										HNSCC(10;0.0054)			28	59					0	0	0.00632	0	0		A	152737985	A	A	152737985	3	1	123	1	0	0	0	0	1	0	0	0	15470	1086	38	1	21303	1	SYNE1	6	152737985	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1584642	152737985	18377082	251	68315											
UNC93A	54346	broad.mit.edu	37	chr6	167728874	167728874	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcgtggagtccaagaacccGatcagaccccacgctccagg	10	5	11	15	3	1	2	1	0	0	2	3	4	3	3	5	2	2	1	5	2	2	0	rs147514798		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:167728874G>A	uc003qvq.2	+	8	1483	c.1308G>A	c.(1306-1308)CCG>CCA	p.P436P	UNC93A_uc003qvr.2_Silent_p.P394P	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	436						integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CCAAGAACCCGATCAGACCCC	0.532													63	187					0	0	0.01441	0	0		A	167728874	A	A	167728874	2	1	123	1	0	0	0	0	0	0	0	1	17022	1045	37	1		1	UNC93A	6	167728874	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	14990889	167728874	3386193	252	68316											
SMOC2	64094	broad.mit.edu	37	chr6	168999624	168999624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcagtgccacccctccaCggggtactgctggtgcgtcc	5	8	13	15	2	0	0	0	0	0	0	2	0	2	0	5	3	5	3	5	3	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr6:168999624C>T	uc003qws.1	+	8	784	c.764C>T	c.(763-765)ACG>ATG	p.T255M	SMOC2_uc003qwr.1_Missense_Mutation_p.T266M	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	255	Thyroglobulin type-1 2.				signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		CACCCCTCCACGGGGTACTGC	0.652													5	21					0	0	0.021553	0	0		T	168999624	T	T	168999624	3	4	123	1	0	0	0	0	1	0	0	0	14827	536	19	1	827	1	SMOC2	6	168999624	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1270750	168999624	2115443	253	68317											
AIMP2	7965	broad.mit.edu	37	chr7	6063167	6063167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgggaagagcccttggctcGctgggaatgaactcaccgta	9	9	13	10	2	1	2	1	1	0	1	2	4	1	4	2	3	2	3	2	3	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:6063167G>A	uc003spo.2	+	4	921	c.808G>A	c.(808-810)GCT>ACT	p.A270T	EIF2AK1_uc003spp.2_3'UTR|EIF2AK1_uc003spq.2_3'UTR	NM_006303	NP_006294	Q13155	AIMP2_HUMAN	aminoacyl tRNA synthetase complex-interacting	270	GST C-terminal.				apoptosis|cell differentiation|multicellular organismal development|tRNA aminoacylation for protein translation	cytosol|nucleus	protein binding			ovary(1)	1						CCCTTGGCTCGCTGGGAATGA	0.517													13	30					0	0	0.020292	0	0		A	6063167	A	A	6063167	3	1	123	1	0	0	0	0	1	0	0	0	434	1087	38	1	822	1	AIMP2	7	6063167	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		6063167	153075496	254	68318											
INMT	11185	broad.mit.edu	37	chr7	30795206	30795206	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagccttgatgcctaccgCgctgccctgtgcaaccttgc	5	11	10	15	2	0	1	0	1	0	0	0	1	0	1	5	0	7	3	5	0	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:30795206C>T	uc003tbs.1	+	3	547	c.531C>T	c.(529-531)CGC>CGT	p.R177R	FAM188B_uc010kwe.2_Intron|INMT_uc010kwc.1_RNA|INMT_uc010kwd.1_Silent_p.R176R	NM_006774	NP_006765	O95050	INMT_HUMAN	indolethylamine N-methyltransferase	177						cytoplasm	amine N-methyltransferase activity				0						ATGCCTACCGCGCTGCCCTGT	0.647													35	75					0	0	0.007835	0	0		T	30795206	T	T	30795206	2	4	123	1	0	0	0	0	0	0	0	1	7761	755	27	1		1	INMT	7	30795206	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	24732039	30795206	128343457	255	68319											
GLI3	2737	broad.mit.edu	37	chr7	42187878	42187878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggcaaacaccgtcccgCggtacggcacagagggctcc	9	4	12	16	4	0	1	0	0	0	1	2	1	2	1	4	4	2	4	4	4	2	1	rs78749834		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:42187878C>T	uc011kbh.1	-	3	405	c.314G>A	c.(313-315)CGC>CAC	p.R105H	GLI3_uc011kbg.1_Missense_Mutation_p.R46H	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	105					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CACCGTCCCGCGGTACGGCAC	0.587									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				5	21					0	0	0.014758	0	0		T	42187878	T	T	42187878	3	4	123	1	0	0	0	0	1	0	0	0	6454	768	27	1	4480	1	GLI3	7	42187878	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	11392672	42187878	116950785	256	68320											
PGAM2	5224	broad.mit.edu	37	chr7	44102368	44102368	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaagcccacccctcactTggccttgccctgggcagcca	6	6	9	20	0	1	0	1	0	0	0	1	0	1	0	7	2	3	1	7	2	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:44102368T>C	uc003tjs.2	-	3	792	c.757A>G	c.(757-759)AAG>GAG	p.K253E		NM_000290	NP_000281	P15259	PGAM2_HUMAN	phosphoglycerate mutase 2	253					gluconeogenesis|glycolysis|striated muscle contraction	cytosol	2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity				0						ACCCCTCACTTGGCCTTGCCC	0.637													11	37					0	0	0.008291	0	0		C	44102368	C	C	44102368	3	2	123	1	0	0	0	0	1	0	0	0	11793	1821	63	3	8	3	PGAM2	7	44102368	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1914490	44102368	115036295	257	68321											
AEBP1	165	broad.mit.edu	37	chr7	44144334	44144334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccctgtgccctggagggCgcccgcagacggtgctgacc	4	6	16	15	3	0	2	0	1	0	1	0	3	0	3	4	4	2	2	4	4	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:44144334C>T	uc003tkb.2	+	1	375	c.70C>T	c.(70-72)CGC>TGC	p.R24C		NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	24					cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCCTGGAGGGCGCCCGCAGAC	0.493													13	12					0	0	0.020292	0	0		T	44144334	T	T	44144334	3	4	123	1	0	0	0	0	1	0	0	0	349	768	27	1	72	1	AEBP1	7	44144334	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	41966	44144334	114994329	258	68322											
ZNF679	168417	broad.mit.edu	37	chr7	63726340	63726340	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagattcactccaaaaagTaataccaagaagatatggaa	22	7	6	6	0	1	3	1	0	0	3	2	4	2	4	2	1	1	1	2	1	10	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:63726340T>C	uc003tsx.2	+	5	598	c.329T>C	c.(328-330)GTA>GCA	p.V110A		NM_153363	NP_699194	Q8IYX0	ZN679_HUMAN	zinc finger protein 679	110					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CTCCAAAAAGTAATACCAAGA	0.363													9	27					0	0	0.008291	0	0		C	63726340	C	C	63726340	3	2	123	1	0	0	0	0	1	0	0	0	18111	1638	57	3	343	3	ZNF679	7	63726340	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	19582006	63726340	95412323	259	68323											
AUTS2	26053	broad.mit.edu	37	chr7	70255656	70255656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggaggccacctggacgagCgggagcgcttgcacatgctc	7	5	17	12	3	0	0	0	0	0	0	1	4	0	3	2	5	4	3	2	5	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:70255656C>T	uc003tvw.3	+	19	4197	c.3454C>T	c.(3454-3456)CGG>TGG	p.R1152W	AUTS2_uc003tvx.3_Missense_Mutation_p.R1128W|AUTS2_uc011keg.1_Missense_Mutation_p.R604W	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	1152	His-rich.									ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CCTGGACGAGCGGGAGCGCTT	0.602													8	30					0	0	0.004482	0	0		T	70255656	T	T	70255656	3	4	123	1	0	0	0	0	1	0	0	0	1226	759	27	1	3673	1	AUTS2	7	70255656	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	6529316	70255656	88883007	260	68324											
SRCRB4D	136853	broad.mit.edu	37	chr7	76019509	76019509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtccaggagaatggggcctCggcctgggccaaagtgagcc	8	6	16	11	1	0	2	0	1	0	1	2	3	1	2	5	5	1	0	5	5	2	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:76019509C>T	uc003ufb.2	-	11	1943	c.1595G>A	c.(1594-1596)CGA>CAA	p.R532Q	SRCRB4D_uc003ufa.2_Missense_Mutation_p.E34K	NM_080744	NP_542782	Q8WTU2	SRB4D_HUMAN	scavenger receptor cysteine rich domain	532	SRCR 4.					extracellular region|membrane	scavenger receptor activity			pancreas(1)	1						AATGGGGCCTCGGCCTGGGCC	0.647													21	71					0	0	0.016522	0	0		T	76019509	T	T	76019509	3	4	123	1	0	0	0	0	1	0	0	0	15162	884	31	1	136	1	SRCRB4D	7	76019509	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	5763853	76019509	83119154	261	68325											
DTX2	113878	broad.mit.edu	37	chr7	76121562	76121562	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagcagagtccagcaggCgctcgcaggtaggtgcctga	8	5	15	13	2	0	2	0	1	0	1	2	2	1	2	3	3	3	5	3	3	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:76121562C>A	uc003uff.3	+	6	1557	c.1001C>A	c.(1000-1002)GCG>GAG	p.A334E	DTX2_uc011kgk.1_Missense_Mutation_p.A243E|DTX2_uc003ufg.3_Missense_Mutation_p.A334E|DTX2_uc003ufh.3_Missense_Mutation_p.A334E|DTX2_uc003ufj.3_Missense_Mutation_p.A334E|DTX2_uc003ufk.3_Missense_Mutation_p.A12E	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	334					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						GTCCAGCAGGCGCTCGCAGGT	0.652													12	30					2.23348e-06	2.30645e-06	0.028581	1	0		A	76121562	A	A	76121562	3	1	123	1	0	0	0	0	1	0	0	0	4800	768	27	5	1011	5	DTX2	7	76121562	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	102053	76121562	83017101	262	68326											
SEMA3D	223117	broad.mit.edu	37	chr7	84647590	84647590	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcagagacaattccatgTtcaagatgattgatgagtgc	12	12	10	7	0	2	5	2	3	0	2	3	6	3	5	1	0	1	2	1	0	2	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:84647590T>G	uc003uic.2	-	13	1563	c.1523A>C	c.(1522-1524)AAC>ACC	p.N508T	SEMA3D_uc010led.2_Missense_Mutation_p.N508T|SEMA3D_uc003uib.2_Missense_Mutation_p.N147T	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	508	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						CAATTCCATGTTCAAGATGAT	0.284													15	28					0	0	0.007413	0	0		G	84647590	G	G	84647590	3	3	123	1	0	0	0	0	1	0	0	0	14052	1725	60	5	830	5	SEMA3D	7	84647590	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	8526028	84647590	74491073	263	68327											
RUNDC3B	154661	broad.mit.edu	37	chr7	87407118	87407118	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatactggatttccagggttAccttgaagaactcttacgac	11	12	9	9	1	1	2	0	1	1	1	2	5	2	3	2	2	4	1	2	2	5	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:87407118A>G	uc003ujb.2	+	9	1265	c.854A>G	c.(853-855)TAC>TGC	p.Y285C	RUNDC3B_uc011khd.1_Missense_Mutation_p.Y268C|RUNDC3B_uc011khe.1_Missense_Mutation_p.Y268C|RUNDC3B_uc003ujc.2_Missense_Mutation_p.Y268C|RUNDC3B_uc003ujd.2_Missense_Mutation_p.Y190C	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	285										skin(1)	1	Esophageal squamous(14;0.00164)					TTCCAGGGTTACCTTGAAGAA	0.353													6	26					0	0	0.001984	0	0		G	87407118	G	G	87407118	3	3	123	1	0	0	0	0	1	0	0	0	13770	391	14	3	888	3	RUNDC3B	7	87407118	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	2759528	87407118	71731545	264	68328											
C7orf64	84060	broad.mit.edu	37	chr7	92158224	92158224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatatcgagagggacgacggCctcgtgctgtgaaggtaaag	12	7	15	7	4	0	2	0	1	0	1	2	5	0	3	1	3	1	2	1	3	5	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:92158224C>T	uc003ulz.2	+	1	138	c.97C>T	c.(97-99)CCT>TCT	p.P33S	PEX1_uc003uly.2_5'Flank|PEX1_uc011khr.1_5'Flank|PEX1_uc010ley.2_5'Flank|PEX1_uc011khs.1_5'Flank|C7orf64_uc011khu.1_Missense_Mutation_p.P33S|C7orf64_uc003uma.2_Missense_Mutation_p.P33S	NM_032120	NP_115496	Q5RL73	CG064_HUMAN	hypothetical protein LOC84060	33							nucleotide binding			ovary(2)	2						GGGACGACGGCCTCGTGCTGT	0.537													8	28					0	0	0.004482	0	0		T	92158224	T	T	92158224	3	4	123	1	0	0	0	0	1	0	0	0	2413	739	26	2	99	2	C7orf64	7	92158224	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	4751106	92158224	66980439	265	68329											
SAMD9L	219285	broad.mit.edu	37	chr7	92761615	92761615	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaccatatgttttttggAtaattcattttctttgtgga	8	21	7	5	0	2	0	1	0	1	0	2	2	2	2	1	2	1	2	1	2	2	10			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:92761615A>T	uc003umh.1	-	5	4886	c.3670T>A	c.(3670-3672)TCC>ACC	p.S1224T	SAMD9L_uc003umj.1_Missense_Mutation_p.S1224T|SAMD9L_uc003umi.1_Missense_Mutation_p.S1224T|SAMD9L_uc010lfb.1_Missense_Mutation_p.S1224T|SAMD9L_uc003umk.1_Missense_Mutation_p.S1224T|SAMD9L_uc010lfc.1_Missense_Mutation_p.S1224T|SAMD9L_uc010lfd.1_Missense_Mutation_p.S1224T|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1224										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			TGTTTTTTGGATAATTCATTT	0.378													6	91					0	0	0.001984	0	0		T	92761615	T	T	92761615	3	4	123	1	0	0	0	0	1	0	0	0	13852	333	12	5	1088	5	SAMD9L	7	92761615	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	603391	92761615	66377048	266	68330											
PDK4	5166	broad.mit.edu	37	chr7	95216783	95216783	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgttggtgcagtggagtatgTataactaaagaggcggtcaa	12	10	14	5	2	1	1	1	0	0	1	1	2	1	2	0	4	2	4	0	4	6	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:95216783T>G	uc003uoa.2	-	9	1248	c.928A>C	c.(928-930)ACA>CCA	p.T310P	PDK4_uc003unz.2_Missense_Mutation_p.T98P	NM_002612	NP_002603	Q16654	PDK4_HUMAN	pyruvate dehydrogenase kinase 4 precursor	310	Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity				0	all_cancers(62;1.06e-10)|all_epithelial(64;1.04e-09)|Lung NSC(181;0.128)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0151)			GTGGAGTATGTATAACTAAAG	0.398													7	87					0	0	0.006214	0	0		G	95216783	G	G	95216783	3	3	123	1	0	0	0	0	1	0	0	0	11697	1638	57	5	319	5	PDK4	7	95216783	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	2455168	95216783	63921880	267	68331											
NPTX2	4885	broad.mit.edu	37	chr7	98256498	98256498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcgcagctgcccctgtttGtcagtgacggcaagtggcac	6	10	13	12	2	1	1	1	1	0	0	1	1	1	1	2	2	3	5	2	2	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:98256498G>A	uc003upl.2	+	4	1087	c.910G>A	c.(910-912)GTC>ATC	p.V304I		NM_002523	NP_002514	P47972	NPTX2_HUMAN	neuronal pentraxin II precursor	304	Pentaxin.				synaptic transmission	extracellular region	metal ion binding|sugar binding			central_nervous_system(2)|skin(1)	3	all_cancers(62;2.28e-09)|all_epithelial(64;4.86e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0128)|all_lung(186;0.0142)		STAD - Stomach adenocarcinoma(171;0.215)			GCCCCTGTTTGTCAGTGACGG	0.622													21	37					0	0	0.010504	0	0		A	98256498	A	A	98256498	3	1	123	1	0	0	0	0	1	0	0	0	10622	1377	48	4	924	4	NPTX2	7	98256498	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3039715	98256498	60882165	268	68332											
TRRAP	8295	broad.mit.edu	37	chr7	98569562	98569562	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctggacactctccgagaGgtgaaggtctgtacgcagct	8	11	12	10	2	3	2	0	1	3	1	4	4	3	3	1	3	2	3	1	3	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:98569562G>T	uc003upp.2	+	52	8021	c.7812G>T	c.(7810-7812)GAG>GAT	p.E2604D	TRRAP_uc011kis.1_Missense_Mutation_p.E2586D|TRRAP_uc003upr.2_Missense_Mutation_p.E2303D	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2604					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CTCTCCGAGAGGTGAAGGTCT	0.468													30	44					1.75199e-13	1.8982e-13	0.007291	1	0		T	98569562	T	T	98569562	3	4	123	1	0	0	0	0	1	0	0	0	16627	991	35	5	7956	5	TRRAP	7	98569562	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	313064	98569562	60569101	269	68333											
CDHR3	222256	broad.mit.edu	37	chr7	105673129	105673129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagggcttaccccaaaccaCacccaggaaagtaaacgggg	15	3	10	13	1	0	0	0	0	0	0	0	1	0	1	4	4	3	2	4	4	5	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:105673129C>T	uc003vdl.3	+	19	2752	c.2644C>T	c.(2644-2646)CAC>TAC	p.H882Y	CDHR3_uc003vdk.2_3'UTR|CDHR3_uc003vdm.3_Missense_Mutation_p.H869Y|CDHR3_uc011klt.1_Missense_Mutation_p.H794Y|CDHR3_uc003vdn.2_3'UTR	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	882	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						CCCCAAACCACACCCAGGAAA	0.547													5	17					0	0	0.021553	0	0		T	105673129	T	T	105673129	3	4	123	1	0	0	0	0	1	0	0	0	3123	478	17	4	2718	4	CDHR3	7	105673129	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	7103567	105673129	53465534	270	68334											
FOXP2	93986	broad.mit.edu	37	chr7	114269973	114269973	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaacaacagcagcagcaAcaacaacaacaacagcagca	21	0	6	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	6	0	0	7	0	rs149757187		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:114269973A>G	uc003vhb.2	+	5	884	c.510A>G	c.(508-510)CAA>CAG	p.Q170Q	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Silent_p.Q195Q|FOXP2_uc003vha.2_Silent_p.Q78Q|FOXP2_uc011kmu.1_Silent_p.Q187Q|FOXP2_uc011kmv.1_Silent_p.Q170Q|FOXP2_uc010ljz.1_Silent_p.Q78Q|FOXP2_uc003vgt.1_RNA|FOXP2_uc003vgv.1_Silent_p.Q170Q|FOXP2_uc003vgx.2_Silent_p.Q170Q|FOXP2_uc003vhd.2_Silent_p.Q170Q|FOXP2_uc003vhc.2_Silent_p.Q195Q	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	170	Gln-rich.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						agcagcagcaacaacaacaac	0.164													13	32					0	0	0.016723	0	0		G	114269973	G	G	114269973	2	3	123	1	0	0	0	0	0	0	0	1	6041	40	2	3		3	FOXP2	7	114269973	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	8596844	114269973	44868690	271	68335											
WNT16	51384	broad.mit.edu	37	chr7	120979292	120979292	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtggccgaggttacaacAcccatgtggtcaggcacgtg	8	8	14	11	2	1	0	1	0	0	0	1	1	1	0	2	4	2	3	2	4	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:120979292A>G	uc003vjw.2	+	4	1248	c.991A>G	c.(991-993)ACC>GCC	p.T331A	WNT16_uc003vjv.2_Missense_Mutation_p.T321A|WNT16_uc010lkl.2_Missense_Mutation_p.T115A	NM_057168	NP_476509	Q9UBV4	WNT16_HUMAN	wingless-type MMTV integration site family,	331					anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|keratinocyte differentiation|keratinocyte proliferation|negative regulation of cell death|optic cup formation involved in camera-type eye development|oxidative stress-induced premature senescence|positive regulation of gene expression|positive regulation of JNK cascade|positive regulation of phosphatidylinositol 3-kinase cascade|replicative senescence|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			lung(2)|ovary(2)|large_intestine(1)	5	all_neural(327;0.117)					AGGTTACAACACCCATGTGGT	0.532													9	92					0	0	0.004482	0	0		G	120979292	G	G	120979292	3	3	123	1	0	0	0	0	1	0	0	0	17411	159	6	3	1074	3	WNT16	7	120979292	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	6709319	120979292	38159371	272	68336											
GPR37	2861	broad.mit.edu	37	chr7	124404474	124404474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggaaccctggagtttcccgGctctccttggccagtaaaaa	9	9	11	12	1	1	0	0	0	1	0	3	2	2	2	4	4	1	3	4	4	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:124404474G>A	uc003vli.2	-	1	1208	c.557C>T	c.(556-558)GCC>GTC	p.A186V		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	186	Extracellular (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						GAGTTTCCCGGCTCTCCTTGG	0.637													37	77					0	0	0.027894	0	0		A	124404474	A	A	124404474	3	1	123	1	0	0	0	0	1	0	0	0	6706	1203	42	2	1292	2	GPR37	7	124404474	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3425182	124404474	34734189	273	68337											
PAX4	5078	broad.mit.edu	37	chr7	127251170	127251170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccagagcagggcctgagagCcactaagactggccaggtga	11	4	15	11	0	0	4	0	2	0	3	0	5	0	4	4	3	2	1	4	3	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:127251170C>T	uc010lld.1	-	9	1186	c.980G>A	c.(979-981)GGC>GAC	p.G327D	PAX4_uc003vmf.2_Missense_Mutation_p.G325D|PAX4_uc003vmg.1_Intron	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	339	Transcription repression.				cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGCCTGAGAGCCACTAAGACT	0.582													3	10					0	0	0.009096	0	0		T	127251170	T	T	127251170	3	4	123	1	0	0	0	0	1	0	0	0	11500	739	26	2	55	2	PAX4	7	127251170	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2846696	127251170	31887493	274	68338											
CPA4	51200	broad.mit.edu	37	chr7	129950677	129950677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtaccatggaccccacGccaattcggaagtggaggtg	11	7	13	10	2	0	0	0	0	0	0	1	3	0	3	4	4	1	1	4	4	4	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:129950677G>A	uc003vpr.2	+	9	891	c.844G>A	c.(844-846)GCC>ACC	p.A282T	CPA4_uc011kpd.1_Missense_Mutation_p.A249T|CPA4_uc011kpe.1_Missense_Mutation_p.A178T	NM_016352	NP_057436	Q9UI42	CBPA4_HUMAN	carboxypeptidase A4 preproprotein	282					histone acetylation|proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					TGGACCCCACGCCAATTCGGA	0.493													8	116					0	0	0.00308	0	0		A	129950677	A	A	129950677	3	1	123	1	0	0	0	0	1	0	0	0	3795	1087	38	1	878	1	CPA4	7	129950677	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2699507	129950677	29187986	275	68339											
C7orf49	78996	broad.mit.edu	37	chr7	134851370	134851370	+	Frame_Shift_Del	DEL	A	-	-																															cacagtttatgccctagctgAaaaagatctcccggacgtat																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:134851370delA	uc003vsl.2	-	4	734	c.467delT	c.(466-468)TTCfs	p.F156fs	C7orf49_uc003vsh.2_Intron|C7orf49_uc003vsj.2_Frame_Shift_Del_p.F127fs|C7orf49_uc003vsk.2_RNA|C7orf49_uc003vsm.2_RNA|C7orf49_uc003vsn.2_Frame_Shift_Del_p.F155fs|C7orf49_uc003vso.2_Frame_Shift_Del_p.F101fs	NM_024033	NP_076938	Q9BWK5	MRI_HUMAN	modulator of retrovirus infection	156						cytoplasm				large_intestine(1)|ovary(1)	2						GCCCTAGCTGAAAAAGATCTC	0.607													38	64	---	---	---	---						.	-	134851370	-	-	134851370	7	5	123	1	0	1	0	1	0	0	0	0	2401	246	9	0	10	0	C7orf49	7	134851370	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	4900693	134851370	24287293	276	68340											
CNTNAP2	26047	broad.mit.edu	37	chr7	147092837	147092837	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaagccgggaagtttcgcGaatgtcagcattgacatgtg	11	9	14	7	3	1	1	1	1	0	0	2	4	1	3	1	2	2	2	1	2	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:147092837G>A	uc003weu.1	+	10	2151	c.1635G>A	c.(1633-1635)GCG>GCA	p.A545A		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	545	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GAAGTTTCGCGAATGTCAGCA	0.438										HNSCC(39;0.1)			41	106					0	0	0.010771	0	0		A	147092837	A	A	147092837	2	1	123	1	0	0	0	0	0	0	0	1	3650	1045	37	1		1	CNTNAP2	7	147092837	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	12241467	147092837	12045826	277	68341											
ZNF786	136051	broad.mit.edu	37	chr7	148768490	148768490	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgacggaagttcctgccAcacttggcacaccggaaagg	10	7	11	13	2	1	1	0	1	1	0	2	3	2	3	3	4	1	2	3	4	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:148768490A>C	uc003wfh.2	-	4	1511	c.1374T>G	c.(1372-1374)TGT>TGG	p.C458W	ZNF786_uc011kuk.1_Missense_Mutation_p.C421W|ZNF786_uc003wfi.2_Missense_Mutation_p.C372W	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	458	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			AGTTCCTGCCACACTTGGCAC	0.612													5	25					0	0	0.021553	0	0		C	148768490	C	C	148768490	3	2	123	1	0	0	0	0	1	0	0	0	18183	157	6	5	978	5	ZNF786	7	148768490	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	1675653	148768490	10370173	278	68342											
KRBA1	84626	broad.mit.edu	37	chr7	149430566	149430566	+	Frame_Shift_Del	DEL	C	-	-																															gtgaatcggctggggaggcgCccccaaggccctgggccaat																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:149430566delC	uc003wfz.2	+	18	2922	c.2523delC	c.(2521-2523)CGCfs	p.R841fs	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_Frame_Shift_Del_p.R448fs	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	841										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TGGGGAGGCGCCCCCAAGGCC	0.672													6	4	---	---	---	---						.	-	149430566	-	-	149430566	7	5	123	1	0	1	0	1	0	0	0	0	8455	726	26	0	2584	0	KRBA1	7	149430566	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08	662076	149430566	9708097	279	68343											
SSPO	23145	broad.mit.edu	37	chr7	149490473	149490473	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggaacgctggcatgggggCccctgcagggtgtgccagtg	5	6	20	10	1	0	0	0	0	0	0	0	1	0	1	3	6	3	3	3	6	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:149490473C>G	uc010lpk.2	+	40	5949	c.5949C>G	c.(5947-5949)GGC>GGG	p.G1983G		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	1983	VWFC 2.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GGCATGGGGGCCCCTGCAGGG	0.677													6	20					0	0	0.001984	0	0		G	149490473	G	G	149490473	2	3	123	1	0	0	0	0	0	0	0	1	15214	726	26	5		5	SSPO	7	149490473	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	59907	149490473	9648190	280	68344											
REPIN1	29803	broad.mit.edu	37	chr7	150069144	150069144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgccccgagtgcgggaagCgctttaccaataagccctat	10	8	11	12	3	0	0	0	0	0	0	0	2	0	1	4	1	5	1	4	1	5	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:150069144C>T	uc010lpq.1	+	4	1303	c.814C>T	c.(814-816)CGC>TGC	p.R272C	REPIN1_uc003whd.2_Missense_Mutation_p.R261C|REPIN1_uc010lpr.1_Missense_Mutation_p.R329C|REPIN1_uc003whc.2_Missense_Mutation_p.R272C|REPIN1_uc003whe.2_Missense_Mutation_p.R272C	NM_013400	NP_037532	Q9BWE0	REPI1_HUMAN	replication initiator 1 isoform 1	272	C2H2-type 7.				DNA replication	nuclear origin of replication recognition complex	DNA binding|zinc ion binding			pancreas(1)	1	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)			GTGCGGGAAGCGCTTTACCAA	0.657													16	44					0	0	0.00499	0	0		T	150069144	T	T	150069144	3	4	123	1	0	0	0	0	1	0	0	0	13252	768	27	1	991	1	REPIN1	7	150069144	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	578671	150069144	9069519	281	68345											
MLL3	58508	broad.mit.edu	37	chr7	151845190	151845190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatgacaaacactgggcGcccatccttctcctcaatgg	9	9	8	15	1	2	2	1	2	1	0	4	2	3	2	4	2	1	0	4	2	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:151845190G>A	uc003wla.2	-	52	14041	c.13822C>T	c.(13822-13824)CGC>TGC	p.R4608C	MLL3_uc003wkz.2_Missense_Mutation_p.R3726C|MLL3_uc003wkx.2_Missense_Mutation_p.R766C|MLL3_uc003wky.2_Missense_Mutation_p.R2172C	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4608	FYR C-terminal.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		AACACTGGGCGCCCATCCTTC	0.542			N		medulloblastoma								20	44					0	0	0.012319	0	0		A	151845190	A	A	151845190	3	1	123	1	0	0	0	0	1	0	0	0	9640	1087	38	1	945	1	MLL3	7	151845190	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1776046	151845190	7293473	282	68346											
MLL3	58508	broad.mit.edu	37	chr7	151874092	151874093	+	Frame_Shift_Ins	INS	-	T	T																															acctcattggtaacagtggaINSttttttctgtggtgaatgtt																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr7:151874092_151874093insT	uc003wla.2	-	38	8664_8665	c.8445_8446insA	c.(8443-8448)AAATCCfs	p.K2815fs	MLL3_uc003wkz.2_Frame_Shift_Ins_p.K1876fs|MLL3_uc003wky.2_Frame_Shift_Ins_p.K324fs	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2815_2816					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GTAACAGTGGATTTTTTCTGTG	0.322			N		medulloblastoma								40	83	---	---	---	---						.	T	151874093	T	T	151874092	7	5	123	1	0	1	1	0	0	0	0	0	9640	333	12	0	6377	0	MLL3	7	151874092	Frame_Shift_Ins	INS	-	TCGA-CD-A4MJ-01A-11D-A25D-08	28902	151874092	7264571	283	68347											
MYOM2	9172	broad.mit.edu	37	chr8	2026941	2026941	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgagggcagtgaacagtgcGggcatcagccgaccctccag	9	5	15	12	2	1	2	1	2	0	0	2	3	2	2	3	2	3	2	3	2	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:2026941G>A	uc003wpx.3	+	12	1527	c.1389G>A	c.(1387-1389)GCG>GCA	p.A463A	MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	463	Fibronectin type-III 1.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		TGAACAGTGCGGGCATCAGCC	0.537													83	290					0	0	0.01441	0	0		A	2026941	A	A	2026941	2	1	123	1	0	0	0	0	0	0	0	1	10110	1103	39	1		1	MYOM2	8	2026941	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		2026941	144337081	284	68348											
CSGALNACT1	55790	broad.mit.edu	37	chr8	19362752	19362752	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgtaaggacggtgattgggGctgttctctgcaggactgtt	6	13	16	6	1	1	1	0	1	1	0	2	3	1	3	0	5	1	5	0	5	1	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:19362752G>A	uc011kyn.1	-	4	1658	c.594C>T	c.(592-594)AGC>AGT	p.S198S	CSGALNACT1_uc011kyo.1_Silent_p.S198S|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Silent_p.S197S|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	198	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		GGTGATTGGGGCTGTTCTCTG	0.532													21	74					0	0	0.027356	0	0		A	19362752	A	A	19362752	2	1	123	1	0	0	0	0	0	0	0	1	3941	1194	42	2		2	CSGALNACT1	8	19362752	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	17335811	19362752	127001270	285	68349											
FAM160B2	64760	broad.mit.edu	37	chr8	21959324	21959324	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgagggccacttcctcCgagtgctgtttgaccgcatg	5	12	11	13	3	1	1	0	1	1	0	4	3	3	1	4	1	1	3	4	1	0	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:21959324C>T	uc011kyx.1	+	14	1864	c.1813C>T	c.(1813-1815)CGA>TGA	p.R605*	FAM160B2_uc011kyy.1_RNA	NM_022749	NP_073586	Q86V87	F16B2_HUMAN	retinoic acid induced 16	605											0						CCACTTCCTCCGAGTGCTGTT	0.642													5	21					0	0	0.021553	0	0		T	21959324	T	T	21959324	4	4	123	1	0	0	0	0	0	1	0	0	5482	644	23	1	1666	1	FAM160B2	8	21959324	Nonsense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2596572	21959324	124404698	286	68350											
LGI3	203190	broad.mit.edu	37	chr8	22006416	22006416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtggtaaatgtaagagcCgccaaacagctgggccacga	13	5	12	11	2	0	1	0	0	0	1	0	2	0	1	4	2	3	3	4	2	4	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:22006416C>T	uc003xav.2	-	8	1193	c.904G>A	c.(904-906)GGC>AGC	p.G302S	LGI3_uc010ltu.2_Missense_Mutation_p.G278S	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	302	EAR 2.				exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		ATGTAAGAGCCGCCAAACAGC	0.607													18	30					0	0	0.00499	0	0		T	22006416	T	T	22006416	3	4	123	1	0	0	0	0	1	0	0	0	8769	652	23	1	746	1	LGI3	8	22006416	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	47092	22006416	124357606	287	68351											
ENTPD4	9583	broad.mit.edu	37	chr8	23301979	23301979	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggatcacctttcggggaGgattctcattccagccgtgc	7	10	13	11	2	2	0	2	0	1	0	5	4	3	4	3	5	2	0	3	5	0	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:23301979G>T	uc003xdl.2	-	5	717	c.553C>A	c.(553-555)CTC>ATC	p.L185I	ENTPD4_uc011kzu.1_Missense_Mutation_p.L185I|ENTPD4_uc003xdm.2_Missense_Mutation_p.L185I|ENTPD4_uc011kzv.1_Missense_Mutation_p.L185I|ENTPD4_uc011kzw.1_Missense_Mutation_p.L151I	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	185	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		CTTTCGGGGAGGATTCTCATT	0.537													33	108					4.90274e-10	5.19576e-10	0.025465	1	0		T	23301979	T	T	23301979	3	4	123	1	0	0	0	0	1	0	0	0	5149	1000	35	5	1333	5	ENTPD4	8	23301979	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1295563	23301979	123062043	288	68352											
EBF2	64641	broad.mit.edu	37	chr8	25899691	25899691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcatagagcgccaggaCgaagtgaaagaagttggatt	13	8	13	7	2	1	3	1	1	0	2	1	6	1	5	2	2	1	1	2	2	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:25899691C>T	uc003xes.1	-	2	225	c.208G>A	c.(208-210)GTC>ATC	p.V70I	PPP2R2A_uc003xek.2_Intron|EBF2_uc003xet.1_Missense_Mutation_p.V70I	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	70					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		AGCGCCAGGACGAAGTGAAAG	0.582													30	95					0	0	0.007291	0	0		T	25899691	T	T	25899691	3	4	123	1	0	0	0	0	1	0	0	0	4887	536	19	1	1579	1	EBF2	8	25899691	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2597712	25899691	120464331	289	68353											
STMN4	81551	broad.mit.edu	37	chr8	27094411	27094411	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttttccgcacctcctcGgcgtgcttgtcctggaaagg	4	14	11	12	3	0	0	0	0	0	0	4	1	3	1	4	3	1	3	4	3	1	4	rs73563904	by1000genomes	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:27094411G>A	uc003xfk.2	-	6	636	c.522C>T	c.(520-522)GCC>GCT	p.A174A	STMN4_uc003xfj.2_Silent_p.A201A|STMN4_uc011lai.1_3'UTR|STMN4_uc011laj.1_3'UTR			Q9H169	STMN4_HUMAN	RecName: Full=Stathmin-4; AltName: Full=Stathmin-like protein B3;          Short=RB3;	174	Potential.				intracellular signal transduction					large_intestine(1)|pancreas(1)	2		Ovarian(32;0.00167)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0214)|Epithelial(17;9.82e-10)|Colorectal(74;0.142)		GCACCTCCTCGGCGTGCTTGT	0.572													16	31					0	0	0.00499	0	0		A	27094411	A	A	27094411	2	1	123	1	0	0	0	0	0	0	0	1	15336	1103	39	1		1	STMN4	8	27094411	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1194720	27094411	119269611	290	68354											
SCARA5	286133	broad.mit.edu	37	chr8	27824038	27824038	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggtacagcagatgcttGcccgccgtttgtgacatgga	7	10	14	10	2	0	2	0	1	0	1	0	3	0	3	2	2	4	5	2	2	1	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:27824038G>C	uc003xgj.2	-	3	574	c.134C>G	c.(133-135)GCA>GGA	p.A45G	SCARA5_uc010luz.2_Missense_Mutation_p.A45G|SCARA5_uc003xgk.2_Intron|SCARA5_uc003xgl.2_Missense_Mutation_p.A45G	NM_173833	NP_776194	Q6ZMJ2	SCAR5_HUMAN	scavenger receptor class A, member 5	45	Cytoplasmic (Potential).				cellular iron ion homeostasis|endocytosis|iron ion transmembrane transport|protein homotrimerization	integral to plasma membrane	ferritin receptor activity|scavenger receptor activity			central_nervous_system(1)|skin(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)|Colorectal(74;0.228)		GCAGATGCTTGCCCGCCGTTT	0.512													33	146					0	0	0.027894	0	0		C	27824038	C	C	27824038	3	2	123	1	0	0	0	0	1	0	0	0	13905	1319	46	5	1381	5	SCARA5	8	27824038	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	729627	27824038	118539984	291	68355											
FAM110B	90362	broad.mit.edu	37	chr8	59058957	59058957	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtggagaggctggaggcCgacaaggccaagtacgtcaa	11	4	16	10	3	1	1	1	0	0	1	1	4	1	2	3	5	1	2	3	5	4	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:59058957C>T	uc003xtj.1	+	5	1048	c.168C>T	c.(166-168)GCC>GCT	p.A56A		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	56						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				GGCTGGAGGCCGACAAGGCCA	0.677													11	50					0	0	0.010729	0	0		T	59058957	T	T	59058957	2	4	123	1	0	0	0	0	0	0	0	1	5408	639	23	1		1	FAM110B	8	59058957	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	31234919	59058957	87305065	292	68356											
BHLHE22	27319	broad.mit.edu	37	chr8	65493706	65493706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctagcctaagcagcctgcCggccggggccgccctttgcc	4	6	12	19	3	0	0	0	0	0	0	0	0	0	0	8	3	5	1	8	3	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:65493706C>T	uc003xvi.2	+	1	893	c.359C>T	c.(358-360)CCG>CTG	p.P120L	LOC401463_uc003xvh.2_Intron	NM_152414	NP_689627	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix domain containing, class	120	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						AGCAGCCTGCCGGCCGGGGCC	0.612													6	11					0	0	0.00308	0	0		T	65493706	T	T	65493706	3	4	123	1	0	0	0	0	1	0	0	0	1422	652	23	1	361	1	BHLHE22	8	65493706	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	6434749	65493706	80870316	293	68357											
PRDM14	63978	broad.mit.edu	37	chr8	70970930	70970930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggatccgaagccggtccCgcttctcaaaggatcgtttg	7	11	12	11	4	1	0	1	0	1	0	5	3	3	2	3	3	1	2	3	3	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:70970930C>T	uc003xym.2	-	6	1533	c.1331G>A	c.(1330-1332)CGG>CAG	p.R444Q		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	444	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			AAGCCGGTCCCGCTTCTCAAA	0.493													22	68					0	0	0.014323	0	0		T	70970930	T	T	70970930	3	4	123	1	0	0	0	0	1	0	0	0	12477	652	23	1	396	1	PRDM14	8	70970930	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	5477224	70970930	75393092	294	68358											
NCOA2	10499	broad.mit.edu	37	chr8	71033565	71033565	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctccctcctgcttaatcAtatccattccaggcagctgg	7	13	7	14	0	2	0	1	0	1	0	6	0	5	0	4	2	2	3	4	2	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:71033565A>C	uc003xyn.1	-	22	4517	c.4355T>G	c.(4354-4356)ATG>AGG	p.M1452R	NCOA2_uc011lfb.1_Missense_Mutation_p.M540R	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	1452					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			CTGCTTAATCATATCCATTCC	0.448			T	RUNXBP2	AML								3	26					0	0	0.004672	0	0		C	71033565	C	C	71033565	3	2	123	1	0	0	0	0	1	0	0	0	10248	217	8	5	47	5	NCOA2	8	71033565	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	62635	71033565	75330457	295	68359											
NCOA2	10499	broad.mit.edu	37	chr8	71057031	71057031	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgtgatgtcaagtggtaaAttctggtttggcaataacct	12	14	10	5	0	2	1	1	1	1	0	2	1	2	1	1	3	1	3	1	3	6	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:71057031A>G	uc003xyn.1	-	13	2820	c.2658T>C	c.(2656-2658)AAT>AAC	p.N886N	NCOA2_uc011lfb.1_Intron	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	886					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			CAAGTGGTAAATTCTGGTTTG	0.428			T	RUNXBP2	AML								37	94					0	0	0.010771	0	0		G	71057031	G	G	71057031	2	3	123	1	0	0	0	0	0	0	0	1	10248	98	4	3		3	NCOA2	8	71057031	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	23466	71057031	75306991	296	68360											
LACTB2	51110	broad.mit.edu	37	chr8	71556377	71556377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catagaggtcttcaaataccGttgttccttcccctaggatg	9	13	8	11	1	2	1	1	0	1	1	4	2	4	2	4	2	1	2	4	2	4	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:71556377G>A	uc011lfd.1	-	4	607	c.515C>T	c.(514-516)ACG>ATG	p.T172M	LACTB2_uc003xyp.2_Missense_Mutation_p.T172M	NM_016027	NP_057111	Q53H82	LACB2_HUMAN	lactamase, beta 2	172							hydrolase activity|metal ion binding			ovary(1)	1	Breast(64;0.0716)		Epithelial(68;0.00319)|all cancers(69;0.0175)|OV - Ovarian serous cystadenocarcinoma(28;0.0628)|BRCA - Breast invasive adenocarcinoma(89;0.166)			TTCAAATACCGTTGTTCCTTC	0.348													71	259					0	0	0.01441	0	0		A	71556377	A	A	71556377	3	1	123	1	0	0	0	0	1	0	0	0	8614	1145	40	1	367	1	LACTB2	8	71556377	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	499346	71556377	74807645	297	68361											
KCNB2	9312	broad.mit.edu	37	chr8	73480329	73480329	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgtgtgcactttcgtttggCcaagaacttgattactgggg	8	14	12	7	1	0	2	0	1	0	1	1	2	0	2	1	3	3	2	1	3	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:73480329C>T	uc003xzb.2	+	2	948	c.360C>T	c.(358-360)GGC>GGT	p.G120G		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	120	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			TTTCGTTTGGCCAAGAACTTG	0.433													30	81					0	0	0.007291	0	0		T	73480329	T	T	73480329	2	4	123	1	0	0	0	0	0	0	0	1	8029	726	26	2		2	KCNB2	8	73480329	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1923952	73480329	72883693	298	68362											
ZFHX4	79776	broad.mit.edu	37	chr8	77764978	77764978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggcaaaagtggtgaaggcGaaaacactgacaaactagaa	19	4	12	6	1	0	3	0	2	0	1	0	4	0	3	0	3	2	1	0	3	8	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:77764978G>A	uc003yav.2	+	10	6073	c.5686G>A	c.(5686-5688)GAA>AAA	p.E1896K	ZFHX4_uc003yau.1_Missense_Mutation_p.E1941K|ZFHX4_uc003yaw.1_Missense_Mutation_p.E1896K	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1896						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TGGTGAAGGCGAAAACACTGA	0.383										HNSCC(33;0.089)			13	59					0	0	0.020292	0	0		A	77764978	A	A	77764978	3	1	123	1	0	0	0	0	1	0	0	0	17660	1059	37	1	5855	1	ZFHX4	8	77764978	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4284649	77764978	68599044	299	68363											
SLC7A13	157724	broad.mit.edu	37	chr8	87226664	87226664	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctcagacacatcagggAggcaaatattaaatagtaat	17	10	7	7	0	2	1	2	0	0	1	3	2	3	2	1	2	0	2	1	2	6	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:87226664A>G	uc003ydq.1	-	4	1489	c.1391T>C	c.(1390-1392)CTC>CCC	p.L464P	SLC7A13_uc003ydr.1_3'UTR	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	464	Cytoplasmic (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						CACATCAGGGAGGCAAATATT	0.308													14	34					0	0	0.00499	0	0		G	87226664	G	G	87226664	3	3	123	1	0	0	0	0	1	0	0	0	14720	304	11	3	25	3	SLC7A13	8	87226664	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	9461686	87226664	59137358	300	68364											
WWP1	11059	broad.mit.edu	37	chr8	87454932	87454932	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaagaacaactattgtctGcagataaatccagcatcaac	16	8	7	10	0	2	2	1	0	1	2	3	2	3	2	1	1	5	3	1	1	7	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:87454932G>A	uc003ydt.2	+	18	2203	c.1923G>A	c.(1921-1923)CTG>CTA	p.L641L	WWP1_uc010mai.2_Silent_p.L417L	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	641	HECT.				central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						ACTATTGTCTGCAGATAAATC	0.343													24	57					0	0	0.024334	0	0		A	87454932	A	A	87454932	2	1	123	1	0	0	0	0	0	0	0	1	17441	1306	46	2		2	WWP1	8	87454932	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	228268	87454932	58909090	301	68365											
RUNX1T1	862	broad.mit.edu	37	chr8	92983013	92983013	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcgtgggctttccgctccGcctcagacacggccttctgc	3	11	11	16	4	2	1	1	0	1	1	5	1	4	1	4	2	1	2	4	2	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:92983013G>A	uc003yfd.2	-	10	1496	c.1412C>T	c.(1411-1413)GCG>GTG	p.A471V	RUNX1T1_uc003yfc.1_Missense_Mutation_p.A444V|RUNX1T1_uc003yfe.1_Missense_Mutation_p.A434V|RUNX1T1_uc010mao.2_Missense_Mutation_p.A444V|RUNX1T1_uc011lgi.1_Missense_Mutation_p.A482V|RUNX1T1_uc010man.1_Missense_Mutation_p.A96V|RUNX1T1_uc003yfb.1_Missense_Mutation_p.A434V	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	471			A -> V (in a colorectal cancer sample; somatic mutation).		generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.A434V(1)		lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			TTTCCGCTCCGCCTCAGACAC	0.622													23	61					0	0	0.01892	0	0		A	92983013	A	A	92983013	3	1	123	1	0	0	0	0	1	0	0	0	13772	1087	38	1	410	1	RUNX1T1	8	92983013	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	5528081	92983013	53381009	302	68366											
UBR5	51366	broad.mit.edu	37	chr8	103358483	103358483	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctccaggcaaataagattcGctggctgtatcatccccatc	10	10	7	14	1	1	1	1	0	0	1	5	1	3	1	4	2	0	4	4	2	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:103358483G>A	uc003ykr.1	-	7	750	c.717C>T	c.(715-717)AGC>AGT	p.S239S	UBR5_uc003yks.1_Silent_p.S239S	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	239					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			AATAAGATTCGCTGGCTGTAT	0.423													17	219					0	0	0.016522	0	0		A	103358483	A	A	103358483	2	1	123	1	0	0	0	0	0	0	0	1	16931	1078	38	1		1	UBR5	8	103358483	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	10375470	103358483	43005539	303	68367											
DCAF13	25879	broad.mit.edu	37	chr8	104453816	104453816	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatagccagattcaggaacAgcgcatcatgaaagaagctc	15	7	9	10	1	2	3	2	1	0	2	3	4	2	4	1	1	4	2	1	1	5	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:104453816A>C	uc003yln.2	+	10	1953	c.1676A>C	c.(1675-1677)CAG>CCG	p.Q559P	DCAF13_uc003ylo.2_Missense_Mutation_p.Q270P	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	407					rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						ATTCAGGAACAGCGCATCATG	0.383													46	136					0	0	0.01441	0	0		C	104453816	C	C	104453816	3	2	123	1	0	0	0	0	1	0	0	0	4269	188	7	5	1714	5	DCAF13	8	104453816	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	1095333	104453816	41910206	304	68368											
RIMS2	9699	broad.mit.edu	37	chr8	104513161	104513161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctggctcccatcccggCggcctctcagccgcctctgc	2	7	10	22	4	2	0	1	0	2	0	5	0	4	0	7	3	2	1	7	3	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:104513161C>T	uc003ylp.2	+	1	186	c.47C>T	c.(46-48)GCG>GTG	p.A16V		NM_001100117	NP_001093587	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	16					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CCCATCCCGGCGGCCTCTCAG	0.657										HNSCC(12;0.0054)			5	49					0	0	0.014758	0	0		T	104513161	T	T	104513161	3	4	123	1	0	0	0	0	1	0	0	0	13393	768	27	1	49	1	RIMS2	8	104513161	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	59345	104513161	41850861	305	68369											
LRP12	29967	broad.mit.edu	37	chr8	105503269	105503269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taatgtaaaacgtacccagcGtagcccctgagtcatacgac	13	8	8	12	3	1	1	1	1	0	0	1	2	1	1	3	0	5	3	3	0	6	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:105503269G>A	uc003yma.2	-	7	2307	c.2212C>T	c.(2212-2214)CGC>TGC	p.R738C	LRP12_uc003ymb.2_Missense_Mutation_p.R719C|LRP12_uc003ylz.2_Missense_Mutation_p.R144C	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	738	Cytoplasmic (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CGTACCCAGCGTAGCCCCTGA	0.478													18	80					0	0	0.007413	0	0		A	105503269	A	A	105503269	3	1	123	1	0	0	0	0	1	0	0	0	8972	1145	40	1	371	1	LRP12	8	105503269	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	990108	105503269	40860753	306	68370											
SYBU	55638	broad.mit.edu	37	chr8	110631179	110631179	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggtgaagccttcatcacTtccagggcaaaagccaatgg	11	9	10	11	0	3	1	2	1	1	0	4	1	4	1	3	3	2	1	3	3	4	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:110631179T>G	uc003ynj.3	-	3	482	c.319A>C	c.(319-321)AGT>CGT	p.S107R	SYBU_uc003yni.3_Missense_Mutation_p.S104R|SYBU_uc003ynk.3_5'UTR|SYBU_uc010mco.2_Missense_Mutation_p.S106R|SYBU_uc003ynl.3_Missense_Mutation_p.S106R|SYBU_uc010mcp.2_Missense_Mutation_p.S107R|SYBU_uc010mcq.2_Missense_Mutation_p.S107R|SYBU_uc003yno.3_5'UTR|SYBU_uc010mcr.2_Missense_Mutation_p.S107R|SYBU_uc003ynm.3_Missense_Mutation_p.S106R|SYBU_uc003ynn.3_Missense_Mutation_p.S106R|SYBU_uc010mcs.2_5'UTR|SYBU_uc010mct.2_Missense_Mutation_p.S107R|SYBU_uc010mcu.2_Missense_Mutation_p.S106R|SYBU_uc003ynp.3_Missense_Mutation_p.S39R|SYBU_uc010mcv.2_Missense_Mutation_p.S107R	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	107	Sufficient for interaction with KIF5B.|Ser-rich.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						CCTTCATCACTTCCAGGGCAA	0.488													37	124					0	0	0.023175	0	0		G	110631179	G	G	110631179	3	3	123	1	0	0	0	0	1	0	0	0	15452	1609	56	5	1692	5	SYBU	8	110631179	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	5127910	110631179	35732843	307	68371											
CSMD3	114788	broad.mit.edu	37	chr8	113332152	113332152	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcaaattcatcatcttcCgtcaaaatttcagcattggg	12	15	5	9	1	6	0	5	0	1	0	7	0	7	0	1	1	1	1	1	1	3	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:113332152C>T	uc003ynu.2	-	46	7383	c.7224G>A	c.(7222-7224)ACG>ACA	p.T2408T	CSMD3_uc003yns.2_Silent_p.T1610T|CSMD3_uc003ynt.2_Silent_p.T2368T|CSMD3_uc011lhx.1_Silent_p.T2304T|CSMD3_uc003ynw.1_Silent_p.T119T	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2408	Extracellular (Potential).|Sushi 13.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CATCATCTTCCGTCAAAATTT	0.358										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			25	98					0	0	0.009535	0	0		T	113332152	T	T	113332152	2	4	123	1	0	0	0	0	0	0	0	1	3949	639	23	1		1	CSMD3	8	113332152	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2700973	113332152	33031870	308	68372											
ZHX2	22882	broad.mit.edu	37	chr8	123964522	123964522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atatcaaccttgtgcccaagGtccctgtcccactaaatact	11	11	5	14	0	1	0	1	0	0	0	3	0	3	0	4	1	3	0	4	1	6	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:123964522G>A	uc003ypk.1	+	3	1339	c.772G>A	c.(772-774)GTC>ATC	p.V258I		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	258	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			TGTGCCCAAGGTCCCTGTCCC	0.507													48	133					0	0	0.01441	0	0		A	123964522	A	A	123964522	3	1	123	1	0	0	0	0	1	0	0	0	17701	1261	44	4	774	4	ZHX2	8	123964522	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	10632370	123964522	22399500	309	68373											
FER1L6	654463	broad.mit.edu	37	chr8	125074167	125074167	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagagcttttgggaggagTacccttgtgggcacctacac	8	10	14	9	0	0	1	0	0	0	1	0	4	0	3	2	4	3	3	2	4	2	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:125074167T>C	uc003yqw.2	+	25	3428	c.3222T>C	c.(3220-3222)AGT>AGC	p.S1074S	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1074	Cytoplasmic (Potential).|C2 4.					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TTGGGAGGAGTACCCTTGTGG	0.542													42	142					0	0	0.013114	0	0		C	125074167	C	C	125074167	2	2	123	1	0	0	0	0	0	0	0	1	5829	1635	57	3		3	FER1L6	8	125074167	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1109645	125074167	21289855	310	68374											
POU5F1B	5462	broad.mit.edu	37	chr8	128428332	128428332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagttatgtggggggatggCgtactgtgggcctcaggttg	5	12	19	5	1	1	1	1	1	0	0	1	2	1	2	1	6	1	3	1	6	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:128428332C>T	uc003ysf.2	+	1	476	c.221C>T	c.(220-222)GCG>GTG	p.A74V	uc003ysc.1_Intron|uc003ysd.1_Intron|LOC727677_uc003yse.1_Intron|uc011liu.1_RNA	NM_001159542	NP_001153014	Q06416	P5F1B_HUMAN	POU class 5 homeobox 1B	74						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGGGGGATGGCGTACTGTGGG	0.667													11	21					0	0	0.013537	0	0		T	128428332	T	T	128428332	3	4	123	1	0	0	0	0	1	0	0	0	12301	768	27	1	223	1	POU5F1B	8	128428332	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3354165	128428332	17935690	311	68375											
ZFAT	57623	broad.mit.edu	37	chr8	135614974	135614974	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggcaggtgaacgagcaatAgtcgcaggcgaacttctctc	11	7	12	11	3	1	1	0	1	1	0	4	3	1	1	0	3	3	3	0	3	4	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:135614974A>G	uc003yup.2	-	6	1163	c.988T>C	c.(988-990)TAT>CAT	p.Y330H	ZFAT_uc003yun.2_Missense_Mutation_p.Y318H|ZFAT_uc003yuo.2_Missense_Mutation_p.Y318H|ZFAT_uc010meh.2_Missense_Mutation_p.Y318H|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.Y318H|ZFAT_uc010mej.2_Missense_Mutation_p.Y268H|ZFAT_uc003yur.2_Missense_Mutation_p.Y318H	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	330	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			AACGAGCAATAGTCGCAGGCG	0.552													13	38					0	0	0.013537	0	0		G	135614974	G	G	135614974	3	3	123	1	0	0	0	0	1	0	0	0	17657	420	15	3	2787	3	ZFAT	8	135614974	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	7186642	135614974	10749048	312	68376											
FAM135B	51059	broad.mit.edu	37	chr8	139380191	139380191	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttataaaatttatgtagctcTaccgaaaactcaaccgttcc	14	13	4	10	2	2	0	1	0	1	0	3	1	3	0	3	0	4	3	3	0	9	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:139380191T>C	uc003yuy.2	-	2	207	c.36A>G	c.(34-36)GTA>GTG	p.V12V	FAM135B_uc003yux.2_5'UTR|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	12								p.V12L(1)		ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			TATGTAGCTCTACCGAAAACT	0.299										HNSCC(54;0.14)			38	104					0	0	0.01441	0	0		C	139380191	C	C	139380191	2	2	123	1	0	0	0	0	0	0	0	1	5460	1509	53	3		3	FAM135B	8	139380191	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	3765217	139380191	6983831	313	68377											
SLC45A4	57210	broad.mit.edu	37	chr8	142228357	142228357	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccgctgccgcttctgcAtgtcgtacaggtcgctcatg	4	11	12	14	4	2	0	1	0	1	0	4	0	2	0	2	1	4	6	2	1	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:142228357A>G	uc003ywd.1	-	4	1537	c.1229T>C	c.(1228-1230)ATG>ACG	p.M410T	SLC45A4_uc003ywc.1_Missense_Mutation_p.M410T|SLC45A4_uc010meq.1_Missense_Mutation_p.M408T	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	461					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CCGCTTCTGCATGTCGTACAG	0.682													12	55					0	0	0.013537	0	0		G	142228357	G	G	142228357	3	3	123	1	0	0	0	0	1	0	0	0	14668	217	8	3	1187	3	SLC45A4	8	142228357	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	2848166	142228357	4135665	314	68378											
PTP4A3	11156	broad.mit.edu	37	chr8	142437061	142437061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccgtttgacgatggggCgcccccgcccggcaaggtag	5	6	16	14	5	0	1	0	1	0	0	0	2	0	1	4	5	0	3	4	5	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:142437061C>T	uc003ywg.1	+	3	555	c.221C>T	c.(220-222)GCG>GTG	p.A74V	PTP4A3_uc003ywh.1_Missense_Mutation_p.A74V|PTP4A3_uc010met.1_Intron	NM_032611	NP_116000	O75365	TP4A3_HUMAN	protein tyrosine phosphatase type IVA, member 3	74						early endosome|plasma membrane	identical protein binding|prenylated protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0	all_cancers(97;2.55e-15)|all_epithelial(106;1.39e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0474)			GACGATGGGGCGCCCCCGCCC	0.682													62	231					0	0	0.01441	0	0		T	142437061	T	T	142437061	3	4	123	1	0	0	0	0	1	0	0	0	12795	768	27	1	231	1	PTP4A3	8	142437061	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	208704	142437061	3926961	315	68379											
ARC	23237	broad.mit.edu	37	chr8	143694938	143694938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccagtactcctcagagccgCccacctgccgcaagtactcc	8	6	8	19	2	1	1	1	0	0	1	3	1	3	1	7	0	4	3	7	0	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:143694938C>T	uc003ywn.1	-	1	896	c.695G>A	c.(694-696)GGC>GAC	p.G232D		NM_015193	NP_056008	Q7LC44	ARC_HUMAN	activity-regulated cytoskeleton-associated	232					endocytosis	acrosomal vesicle|cell junction|dendritic spine|endosome|postsynaptic density|postsynaptic membrane				breast(1)	1	all_cancers(97;3.55e-12)|all_epithelial(106;1.03e-08)|Lung NSC(106;0.000353)|all_lung(105;0.00092)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.0279)				CTCAGAGCCGCCCACCTGCCG	0.637													11	41					0	0	0.016723	0	0		T	143694938	T	T	143694938	3	4	123	1	0	0	0	0	1	0	0	0	841	739	26	2	499	2	ARC	8	143694938	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1257877	143694938	2669084	316	68380											
LYNX1	66004	broad.mit.edu	37	chr8	143846058	143846058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggctggtctggcagcaagCgatggatacgtaggggccca	9	6	17	9	2	1	0	0	0	1	0	1	3	1	1	1	6	3	4	1	6	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:143846058C>T	uc003yxb.2	-	5	988	c.361G>A	c.(361-363)GCT>ACT	p.A121T	LYNX1_uc003yxa.2_Missense_Mutation_p.A87T	NM_023946	NP_076435	Q9BZG9	LYNX1_HUMAN	Ly-6 neurotoxin-like protein 1 isoform a	Error:Variant_position_missing_in_Q9BZG9_after_alignment						anchored to membrane|plasma membrane					0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					TGGCAGCAAGCGATGGATACG	0.667													25	69					0	0	0.024334	0	0		T	143846058	T	T	143846058	3	4	123	1	0	0	0	0	1	0	0	0	9126	768	27	1	38	1	LYNX1	8	143846058	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	151120	143846058	2517964	317	68381											
EPPK1	83481	broad.mit.edu	37	chr8	144941539	144941539	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctctcccgcagctcctcGttcaccaggcccacatccac	7	7	6	21	2	2	0	1	0	1	0	6	0	4	0	6	1	2	3	6	1	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:144941539G>A	uc003zaa.1	-	1	5896	c.5883C>T	c.(5881-5883)AAC>AAT	p.N1961N		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1961	Plectin 32.|Potential.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCAGCTCCTCGTTCACCAGGC	0.657													45	126					0	0	0.01441	0	0		A	144941539	A	A	144941539	2	1	123	1	0	0	0	0	0	0	0	1	5198	1136	40	1		1	EPPK1	8	144941539	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1095481	144941539	1422483	318	68382											
PLEC	5339	broad.mit.edu	37	chr8	144993140	144993140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgatgatgatgatcatgcGttccttggtcacccggccgg	7	11	13	10	3	2	4	2	4	0	0	3	5	3	4	3	3	1	1	3	3	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:144993140G>A	uc003zaf.1	-	32	11430	c.11260C>T	c.(11260-11262)CGC>TGC	p.R3754C	PLEC_uc003zab.1_Missense_Mutation_p.R3617C|PLEC_uc003zac.1_Missense_Mutation_p.R3621C|PLEC_uc003zad.2_Missense_Mutation_p.R3617C|PLEC_uc003zae.1_Missense_Mutation_p.R3585C|PLEC_uc003zag.1_Missense_Mutation_p.R3595C|PLEC_uc003zah.2_Missense_Mutation_p.R3603C|PLEC_uc003zaj.2_Missense_Mutation_p.R3644C	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3754	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						ATGATCATGCGTTCCTTGGTC	0.617													28	95					0	0	0.00632	0	0		A	144993140	A	A	144993140	3	1	123	1	0	0	0	0	1	0	0	0	12071	1145	40	1	2798	1	PLEC	8	144993140	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	51601	144993140	1370882	319	68383											
OPLAH	26873	broad.mit.edu	37	chr8	145106642	145106642	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccttaccccggggtacacGgtcaccgacgtcttgccgcc	5	7	11	18	5	2	0	1	0	1	0	2	1	2	0	6	3	3	1	6	3	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:145106642G>A	uc003zar.3	-	27	3790	c.3708C>T	c.(3706-3708)ACC>ACT	p.T1236T		NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	1236							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	CGGGGTACACGGTCACCGACG	0.612													3	23					0	0	0.009096	0	0		A	145106642	A	A	145106642	2	1	123	1	0	0	0	0	0	0	0	1	10895	1103	39	1		1	OPLAH	8	145106642	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	113502	145106642	1257380	320	68384											
VPS28	51160	broad.mit.edu	37	chr8	145649609	145649609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccgcacctcatccatggCgcggatctccaggcgcagct	7	7	10	17	4	2	0	1	0	1	0	4	1	3	1	4	3	2	3	4	3	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr8:145649609C>T	uc003zcr.1	-	7	498	c.445G>A	c.(445-447)GCC>ACC	p.A149T	VPS28_uc003zcs.1_Missense_Mutation_p.A149T|VPS28_uc003zct.1_Missense_Mutation_p.A149T	NM_016208	NP_057292	Q9UK41	VPS28_HUMAN	vacuolar protein sorting 28 isoform 1	149	VPS28 C-terminal.				cellular membrane organization|endosome transport|negative regulation of protein ubiquitination|protein transport	cytosol|late endosome membrane|plasma membrane	protein binding				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			TCATCCATGGCGCGGATCTCC	0.682													16	64					0	0	0.028581	0	0		T	145649609	T	T	145649609	3	4	123	1	0	0	0	0	1	0	0	0	17225	768	27	1	346	1	VPS28	8	145649609	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	542967	145649609	714413	321	68385											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													10	164					0	0	0.006214	0	0		G	164038	G	G	164038	5	3	123	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08		164038	141049393	322	68386											
KANK1	23189	broad.mit.edu	37	chr9	730125	730125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taagctcccagacatcccagCctgagcaagaagtggggacc	12	5	11	13	0	0	3	0	1	0	2	2	4	2	4	4	2	3	2	4	2	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:730125C>T	uc003zgl.1	+	8	3422	c.2773C>T	c.(2773-2775)CCT>TCT	p.P925S	KANK1_uc003zgm.2_Missense_Mutation_p.P925S|KANK1_uc003zgn.1_Missense_Mutation_p.P925S|KANK1_uc003zgs.1_Missense_Mutation_p.P767S|KANK1_uc010mgx.1_5'Flank|KANK1_uc010mgy.1_5'Flank	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	925					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		GACATCCCAGCCTGAGCAAGA	0.517													4	44					0	0	0.009096	0	0		T	730125	T	T	730125	3	4	123	1	0	0	0	0	1	0	0	0	7992	739	26	2	2783	2	KANK1	9	730125	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	566087	730125	140483306	323	68387											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18770611	18770611	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccccagtgttccagaacGtgtggcgggggtgttcagaa	7	11	14	9	2	1	2	1	0	0	2	3	2	3	2	3	3	1	2	3	3	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:18770611G>A	uc003zne.3	+	17	2356	c.2229G>A	c.(2227-2229)ACG>ACA	p.T743T		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	743						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		GTTCCAGAACGTGTGGCGGGG	0.473													4	12					0	0	0.001984	0	0		A	18770611	A	A	18770611	2	1	123	1	0	0	0	0	0	0	0	1	274	1132	40	1		1	ADAMTSL1	9	18770611	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	18040486	18770611	122442820	324	68388											
C9orf11	54586	broad.mit.edu	37	chr9	27294316	27294316	+	Frame_Shift_Del	DEL	T	-	-																															gtgcctttcacttcttaccgTtttttagagcaaaattcagg																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:27294316delT	uc003zql.2	-	3	371	c.287delA	c.(286-288)AACfs	p.N96fs	C9orf11_uc011lnq.1_Frame_Shift_Del_p.N96fs|C9orf11_uc003zqm.2_Frame_Shift_Del_p.N96fs	NM_020641	NP_065692	Q9NQ60	AFAF_HUMAN	Acr formation associated factor isoform 1	96	Vesicular (Potential).					acrosomal membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(39;7.39e-08)|Lung(218;1.26e-05)|LUSC - Lung squamous cell carcinoma(38;0.000106)		CTTCTTACCGTTTTTTAGAGC	0.388													14	28	---	---	---	---						.	-	27294316	-	-	27294316	7	5	123	1	0	1	0	1	0	0	0	0	2451	1725	60	0	621	0	C9orf11	9	27294316	Frame_Shift_Del	DEL	T	TCGA-CD-A4MJ-01A-11D-A25D-08	8523705	27294316	113919115	325	68389											
KIAA1161	57462	broad.mit.edu	37	chr9	34372397	34372397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaccataccagtgggccGccgcgtcgcccaagaacatg	9	4	11	17	5	0	1	0	0	0	1	1	1	0	1	6	1	2	0	6	1	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:34372397G>A	uc003zue.3	-	3	712	c.545C>T	c.(544-546)GCG>GTG	p.A182V		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	182	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		CCAGTGGGCCGCCGCGTCGCC	0.692													4	6					0	0	0.009096	0	0		A	34372397	A	A	34372397	3	1	123	1	0	0	0	0	1	0	0	0	8227	1087	38	1	1603	1	KIAA1161	9	34372397	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	7078081	34372397	106841034	326	68390											
FRMPD1	22844	broad.mit.edu	37	chr9	37729812	37729812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagcagtacagcatctccCggctgcacctgctgcacgaa	11	6	10	14	2	1	1	0	0	1	1	2	2	1	1	2	1	6	7	2	1	3	1	rs142379512		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:37729812C>T	uc004aag.1	+	8	744	c.700C>T	c.(700-702)CGG>TGG	p.R234W	FRMPD1_uc004aah.1_Missense_Mutation_p.R234W|FRMPD1_uc011lqm.1_Missense_Mutation_p.R56W|FRMPD1_uc011lqn.1_Missense_Mutation_p.R103W	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	234	FERM.					cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		CAGCATCTCCCGGCTGCACCT	0.592													23	62					0	0	0.021523	0	0		T	37729812	T	T	37729812	3	4	123	1	0	0	0	0	1	0	0	0	6071	643	23	1	726	1	FRMPD1	9	37729812	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3357415	37729812	103483619	327	68391											
TRPM3	80036	broad.mit.edu	37	chr9	73250128	73250128	+	Frame_Shift_Del	DEL	T	-	-																															cagtcgagagggttcttaccTttttgacatccctgaccaag																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:73250128delT	uc004aid.2	-	12	1875	c.1631delA	c.(1630-1632)AAGfs	p.K544fs	TRPM3_uc004ahu.2_Frame_Shift_Del_p.K374fs|TRPM3_uc004ahv.2_Frame_Shift_Del_p.K356fs|TRPM3_uc004ahw.2_Frame_Shift_Del_p.K416fs|TRPM3_uc004ahx.2_Frame_Shift_Del_p.K391fs|TRPM3_uc004ahy.2_Frame_Shift_Del_p.K416fs|TRPM3_uc004ahz.2_Frame_Shift_Del_p.K391fs|TRPM3_uc004aia.2_Frame_Shift_Del_p.K391fs|TRPM3_uc004aib.2_Frame_Shift_Del_p.K391fs|TRPM3_uc004aic.2_Frame_Shift_Del_p.K544fs	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	569	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GGTTCTTACCTTTTTGACATC	0.473													35	42	---	---	---	---						.	-	73250128	-	-	73250128	7	5	123	1	0	1	0	1	0	0	0	0	16613	1623	56	0	3588	0	TRPM3	9	73250128	Frame_Shift_Del	DEL	T	TCGA-CD-A4MJ-01A-11D-A25D-08	35520316	73250128	67963303	328	68392											
TMC1	117531	broad.mit.edu	37	chr9	75407203	75407203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctctgaaaatagcactggaCcacccttttttgttcaccct	9	14	5	13	0	2	1	1	1	1	0	3	2	2	2	3	1	1	2	3	1	3	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:75407203C>T	uc004aiz.1	+	17	2041	c.1501C>T	c.(1501-1503)CCA>TCA	p.P501S	TMC1_uc010moz.1_Missense_Mutation_p.P459S|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Missense_Mutation_p.P355S|TMC1_uc010mpa.1_Missense_Mutation_p.P355S	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	501	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						TAGCACTGGACCACCCTTTTT	0.448													65	171					0	0	0.01441	0	0		T	75407203	T	T	75407203	3	4	123	1	0	0	0	0	1	0	0	0	16009	507	18	4	1551	4	TMC1	9	75407203	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2157075	75407203	65806228	329	68393											
VPS13A	23230	broad.mit.edu	37	chr9	79852980	79852980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agataattcagaaaaaccccGcctcctgtcttcattggatg	12	11	7	11	1	3	2	2	0	1	2	4	3	4	3	4	1	1	0	4	1	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:79852980G>A	uc004akr.2	+	18	1918	c.1658G>A	c.(1657-1659)CGC>CAC	p.R553H	VPS13A_uc004akp.3_Missense_Mutation_p.R553H|VPS13A_uc004akq.3_Missense_Mutation_p.R553H|VPS13A_uc004aks.2_Missense_Mutation_p.R553H	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	553	TPR 3.				Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GAAAAACCCCGCCTCCTGTCT	0.328													7	81					0	0	0.00308	0	0		A	79852980	A	A	79852980	3	1	123	1	0	0	0	0	1	0	0	0	17215	1087	38	1	1728	1	VPS13A	9	79852980	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4445777	79852980	61360451	330	68394											
RASEF	158158	broad.mit.edu	37	chr9	85637257	85637257	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acccagaaactcacgtctttCcgtgtcttatgttctgcagc	8	13	7	13	2	4	1	1	0	3	1	5	1	5	1	2	0	3	2	2	0	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:85637257C>T	uc004amo.1	-	3	924	c.663G>A	c.(661-663)CGG>CGA	p.R221R		NM_152573	NP_689786	Q8IZ41	RASEF_HUMAN	RAS and EF-hand domain containing	221	Potential.				protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3						TCACGTCTTTCCGTGTCTTAT	0.299													41	89					0	0	0.011902	0	0		T	85637257	T	T	85637257	2	4	123	1	0	0	0	0	0	0	0	1	13093	842	30	4		4	RASEF	9	85637257	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	5784277	85637257	55576174	331	68395											
FKTN	2218	broad.mit.edu	37	chr9	108370221	108370221	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaggtataaagaagctcgaGcattctttcaggttagagac	13	11	11	6	1	2	2	1	0	1	2	3	4	2	2	0	2	2	5	0	2	6	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:108370221G>T	uc004bcr.2	+	7	985	c.769G>T	c.(769-771)GCA>TCA	p.A257S	FKTN_uc011lvx.1_Missense_Mutation_p.A257S|FKTN_uc004bcs.2_Missense_Mutation_p.A257S|FKTN_uc011lvy.1_Missense_Mutation_p.A257S|FKTN_uc010mtm.2_Missense_Mutation_p.A125S	NM_001079802	NP_001073270	O75072	FKTN_HUMAN	fukutin	257	Lumenal (Potential).				muscle organ development|negative regulation of cell proliferation|negative regulation of JNK cascade|nervous system development|regulation of protein glycosylation	cis-Golgi network|endoplasmic reticulum|extracellular space|Golgi membrane|integral to membrane|nucleus	transferase activity			breast(2)|ovary(1)	3						AGAAGCTCGAGCATTCTTTCA	0.358													18	37					1.40151e-16	1.52758e-16	0.010504	1	0		T	108370221	T	T	108370221	3	4	123	1	0	0	0	0	1	0	0	0	5933	971	34	5	787	5	FKTN	9	108370221	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	22732964	108370221	32843210	332	68396											
CTNNAL1	8727	broad.mit.edu	37	chr9	111753119	111753119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctagtctttccatagttgCgagaacctgcaaaacagata	13	11	7	10	1	2	2	0	0	2	2	3	3	3	2	2	0	4	2	2	0	6	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:111753119C>T	uc004bdo.1	-	4	568	c.526G>A	c.(526-528)GCA>ACA	p.A176T	CTNNAL1_uc010mtt.1_Missense_Mutation_p.A176T|CTNNAL1_uc004bdp.1_Missense_Mutation_p.A176T	NM_003798	NP_003789	Q9UBT7	CTNL1_HUMAN	catenin, alpha-like 1	176					cell adhesion|Rho protein signal transduction	actin cytoskeleton|cytosol|plasma membrane	cadherin binding|structural molecule activity			ovary(1)	1				STAD - Stomach adenocarcinoma(157;0.0768)		TCCATAGTTGCGAGAACCTGC	0.373													3	27					0	0	0.014758	0	0		T	111753119	T	T	111753119	3	4	123	1	0	0	0	0	1	0	0	0	4018	768	27	1	1742	1	CTNNAL1	9	111753119	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3382898	111753119	29460312	333	68397											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112705051	112705051	+	Frame_Shift_Del	DEL	G	-	-																															acatctaccattggcccagaGggggtccatcagaaaggagt																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:112705051delG	uc004bei.2	+	7	774	c.582delG	c.(580-582)GAGfs	p.E194fs	PALM2_uc004bef.2_Frame_Shift_Del_p.E196fs|PALM2_uc004beg.2_Frame_Shift_Del_p.E162fs|PALM2_uc004beh.3_Frame_Shift_Del_p.E194fs|PALM2-AKAP2_uc004bek.3_Intron|PALM2-AKAP2_uc004bej.3_Intron|PALM2-AKAP2_uc004bel.1_Intron	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	Error:Variant_position_missing_in_Q9Y2D5_after_alignment							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						TTGGCCCAGAGGGGGTCCATC	0.443													15	29	---	---	---	---						.	-	112705051	-	-	112705051	7	5	123	1	0	1	0	1	0	0	0	0	11429	991	35	0		0	PALM2-AKAP2	9	112705051	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	951932	112705051	28508380	334	68398											
DFNB31	25861	broad.mit.edu	37	chr9	117266506	117266506	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccgggccagggatttgtcGttgacgcgcagaatctggtc	7	9	14	11	4	1	2	0	1	1	1	3	3	1	3	2	3	0	2	2	3	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:117266506G>A	uc004biz.3	-	1	1225	c.576C>T	c.(574-576)AAC>AAT	p.N192N	DFNB31_uc004biy.3_5'Flank|DFNB31_uc004bja.3_Silent_p.N192N|DFNB31_uc004bjb.2_Silent_p.N192N	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	192	PDZ 1.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						GGGATTTGTCGTTGACGCGCA	0.478													9	102					0	0	0.010729	0	0		A	117266506	A	A	117266506	2	1	123	1	0	0	0	0	0	0	0	1	4461	1136	40	1		1	DFNB31	9	117266506	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4561455	117266506	23946925	335	68399											
TNC	3371	broad.mit.edu	37	chr9	117826201	117826201	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagtcctcctgggacggTgaggttctgggctgcctcta	4	11	13	13	1	3	1	1	1	2	0	5	2	5	2	4	4	1	2	4	4	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:117826201T>C	uc004bjj.3	-	12	3996	c.3634A>G	c.(3634-3636)ACC>GCC	p.T1212A	TNC_uc010mvf.2_Missense_Mutation_p.T1212A	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1212	Fibronectin type-III 7.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CCTGGGACGGTGAGGTTCTGG	0.562													33	83					0	0	0.015359	0	0		C	117826201	C	C	117826201	3	2	123	1	0	0	0	0	1	0	0	0	16295	1696	59	3	3039	3	TNC	9	117826201	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	559695	117826201	23387230	336	68400											
TLR4	7099	broad.mit.edu	37	chr9	120475243	120475243	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacaaatctgctctagagggCctgtgcaatttgaccattga	11	11	10	9	0	2	3	0	2	2	1	2	4	2	3	2	1	2	2	2	1	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:120475243C>T	uc004bjz.2	+	3	1128	c.837C>T	c.(835-837)GGC>GGT	p.G279G	TLR4_uc004bka.2_Silent_p.G239G|TLR4_uc004bkb.2_Silent_p.G79G	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	279	Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						CTCTAGAGGGCCTGTGCAATT	0.363													41	87					0	0	0.009718	0	0		T	120475243	T	T	120475243	2	4	123	1	0	0	0	0	0	0	0	1	15978	726	26	2		2	TLR4	9	120475243	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2649042	120475243	20738188	337	68401											
DBC1	1620	broad.mit.edu	37	chr9	122000973	122000973	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccgtgctttgcagaaggacGgaactcacagagtccagatt	11	9	11	10	2	1	3	1	0	0	3	3	5	3	5	2	2	3	2	2	2	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:122000973G>A	uc004bkc.2	-	5	1101	c.645C>T	c.(643-645)TCC>TCT	p.S215S	DBC1_uc004bkd.2_Silent_p.S215S	NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	215	MACPF.				cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GCAGAAGGACGGAACTCACAG	0.493													15	53					0	0	0.028581	0	0		A	122000973	A	A	122000973	2	1	123	1	0	0	0	0	0	0	0	1	4250	1103	39	1		1	DBC1	9	122000973	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1525730	122000973	19212458	338	68402											
PPP2R4	5524	broad.mit.edu	37	chr9	131885404	131885404	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaagctgaccttcgagtAcagagtctccgaggtaggcc	11	7	13	10	2	1	3	0	1	1	2	3	6	1	3	3	2	2	3	3	2	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:131885404A>G	uc004bxm.1	+	3	470	c.203A>G	c.(202-204)TAC>TGC	p.Y68C	PPP2R4_uc004bxl.1_Missense_Mutation_p.Y68C|PPP2R4_uc011mbo.1_Missense_Mutation_p.Y68C|PPP2R4_uc010myr.1_Intron|PPP2R4_uc004bxn.1_Missense_Mutation_p.Y68C|PPP2R4_uc004bxo.1_Missense_Mutation_p.Y68C|PPP2R4_uc011mbp.1_Intron|PPP2R4_uc011mbq.1_Missense_Mutation_p.Y68C|PPP2R4_uc010mys.1_Missense_Mutation_p.Y33C	NM_178001	NP_821068	Q15257	PTPA_HUMAN	protein phosphatase 2A, regulatory subunit B'	68					ATP catabolic process|negative regulation of phosphoprotein phosphatase activity|negative regulation of protein dephosphorylation|positive regulation of apoptosis|positive regulation of phosphoprotein phosphatase activity|positive regulation of protein dephosphorylation	calcium channel complex|cytoplasm|nucleus|protein phosphatase type 2A complex|soluble fraction	ATP binding|peptidyl-prolyl cis-trans isomerase activity|protein heterodimerization activity|protein homodimerization activity|protein phosphatase 2A binding|protein phosphatase type 2A regulator activity|protein tyrosine phosphatase activator activity|receptor binding			ovary(1)|lung(1)|pancreas(1)	3		Medulloblastoma(224;0.235)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)		ACCTTCGAGTACAGAGTCTCC	0.438													57	98					0	0	0.01441	0	0		G	131885404	G	G	131885404	3	3	123	1	0	0	0	0	1	0	0	0	12413	391	14	3	213	3	PPP2R4	9	131885404	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	9884431	131885404	9328027	339	68403											
COL5A1	1289	broad.mit.edu	37	chr9	137694781	137694781	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtgagcgtggccaccctggGccccctggaccccccggtga	4	5	15	17	2	0	2	0	2	0	0	0	3	0	3	7	5	1	0	7	5	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:137694781G>A	uc004cfe.2	+	39	3436	c.3054G>A	c.(3052-3054)GGG>GGA	p.G1018G		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1018	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GCCACCCTGGGCCCCCTGGAC	0.617													7	12					0	0	0.00308	0	0		A	137694781	A	A	137694781	2	1	123	1	0	0	0	0	0	0	0	1	3699	1190	42	2		2	COL5A1	9	137694781	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	5809377	137694781	3518650	340	68404											
FCN1	2219	broad.mit.edu	37	chr9	137808227	137808227	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacacctgcctctccctttgGccctggggccccgggcagcc	3	7	12	19	1	1	0	0	0	1	0	2	1	1	0	7	4	2	1	7	4	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:137808227G>C	uc004cfi.2	-	2	276	c.184C>G	c.(184-186)CCA>GCA	p.P62A		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	62	Collagen-like.				opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		TCTCCCTTTGGCCCTGGGGCC	0.647													94	202					0	0	0.01441	0	0		C	137808227	C	C	137808227	3	2	123	1	0	0	0	0	1	0	0	0	5805	1203	42	5	828	5	FCN1	9	137808227	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	113446	137808227	3405204	341	68405											
GPSM1	26086	broad.mit.edu	37	chr9	139252611	139252611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggacctcgccgggggccCggagcagggggcaggcggcc	4	2	22	13	4	0	0	0	0	0	0	1	2	0	2	4	9	1	2	4	9	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:139252611C>T	uc004chd.2	+	14	2187	c.1967C>T	c.(1966-1968)CCG>CTG	p.P656L	GPSM1_uc011mdu.1_Missense_Mutation_p.P147L|GPSM1_uc004che.2_Missense_Mutation_p.P147L	NM_001145638	NP_001139110	Q86YR5	GPSM1_HUMAN	G-protein signaling modulator 1 (AGS3-like, C.	656					cell differentiation|nervous system development|signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|plasma membrane	binding|GTPase activator activity				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.39e-06)|Epithelial(140;3.24e-06)		GCCGGGGGCCCGGAGCAGGGG	0.731													3	7					0	0	0.009096	0	0		T	139252611	T	T	139252611	3	4	123	1	0	0	0	0	1	0	0	0	6750	652	23	1	2188	1	GPSM1	9	139252611	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1444384	139252611	1960820	342	68406											
SEC16A	9919	broad.mit.edu	37	chr9	139350543	139350543	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcaggtgaaccagccAcgtgggtgcggccaaggact	8	6	15	12	2	0	1	0	1	0	0	0	2	0	2	3	4	5	2	3	4	2	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:139350543A>G	uc004chx.2	-	19	5935	c.5626T>C	c.(5626-5628)TGG>CGG	p.W1876R	SEC16A_uc004chs.2_5'Flank|SEC16A_uc004cht.2_5'Flank|SEC16A_uc004chu.2_Missense_Mutation_p.W61R|SEC16A_uc004chv.3_Missense_Mutation_p.W1266R|SEC16A_uc004chw.2_Missense_Mutation_p.W1876R|SEC16A_uc010nbn.2_Missense_Mutation_p.W1876R	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1698					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		TGAACCAGCCACGTGGGTGCG	0.572													25	82					0	0	0.009535	0	0		G	139350543	G	G	139350543	3	3	123	1	0	0	0	0	1	0	0	0	14011	159	6	3	1503	3	SEC16A	9	139350543	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	97932	139350543	1862888	343	68407											
NOTCH1	4851	broad.mit.edu	37	chr9	139407932	139407934	+	In_Frame_Del	DEL	ATT	-	-																															caagggttggattcacactcAttgttgttgatgtcacagtt																								rs2229971	by1000genomes	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:139407932_139407934delATT	uc004chz.2	-	14	2263_2265	c.2263_2265delAAT	c.(2263-2265)AATdel	p.N755del	NOTCH1_uc004cia.1_5'UTR	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	755	Extracellular (Potential).|EGF-like 20.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		ATTCACACTCATTGTTGTTGATG	0.601			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			12	24	---	---	---	---						.	-	139407934	-	-	139407932	7	5	123	1	0	1	0	1	0	0	0	0	10566	214	8	0	5486	0	NOTCH1	9	139407932	In_Frame_Del	DEL	ATT	TCGA-CD-A4MJ-01A-11D-A25D-08	57389	139407932	1805499	344	68408											
NPDC1	56654	broad.mit.edu	37	chr9	139935551	139935551	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcggtccttgggtaggggCggagttgagtgtccagactc	5	11	17	8	2	0	2	0	1	0	1	4	3	2	3	2	5	0	2	2	5	1	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr9:139935551C>T	uc004ckt.2	-	3	583	c.348G>A	c.(346-348)CCG>CCA	p.P116P	NPDC1_uc004ckr.2_Silent_p.P116P|NPDC1_uc004cks.2_Silent_p.P194P|NPDC1_uc004cku.2_Silent_p.P116P	NM_015392	NP_056207	Q9NQX5	NPDC1_HUMAN	neural proliferation, differentiation and	116						integral to membrane					0	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0821)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.96e-05)|Epithelial(140;0.000486)		TGGGTAGGGGCGGAGTTGAGT	0.672													6	8					0	0	0.00308	0	0		T	139935551	T	T	139935551	2	4	123	1	0	0	0	0	0	0	0	1	10592	755	27	1		1	NPDC1	9	139935551	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	527619	139935551	1277880	345	68409											
CELF2	10659	broad.mit.edu	37	chr10	11207585	11207585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaactttttgagccttacGgagccgtctaccagatcaac	12	10	8	11	2	2	3	1	1	1	2	2	4	2	4	3	1	6	0	3	1	5	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:11207585G>A	uc001iki.3	+	2	282	c.190G>A	c.(190-192)GGA>AGA	p.G64R	CELF2_uc010qbi.1_5'UTR|CELF2_uc010qbj.1_Missense_Mutation_p.G64R|CELF2_uc001ikk.2_Missense_Mutation_p.G71R|CELF2_uc001ikl.3_Missense_Mutation_p.G71R|CELF2_uc010qbk.1_RNA|CELF2_uc010qbl.1_Missense_Mutation_p.G40R|CELF2_uc010qbm.1_5'UTR|CELF2_uc001iko.3_Missense_Mutation_p.G40R|CELF2_uc001ikp.3_Missense_Mutation_p.G40R|CELF2_uc010qbn.1_Missense_Mutation_p.G48R|CELF2_uc009xiw.1_Missense_Mutation_p.G40R|CELF2_uc010qbo.1_5'UTR|CELF2_uc010qbp.1_5'UTR	NM_001025077	NP_001020248	O95319	CELF2_HUMAN	CUG triplet repeat, RNA binding protein 2	64	Necessary for RNA-binding, TNNT2 exon 5 and NMDA R1 exon 21 inclusion.|RRM 1.				mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0						TGAGCCTTACGGAGCCGTCTA	0.582													15	25					0	0	0.024245	0	0		A	11207585	A	A	11207585	3	1	123	1	0	0	0	0	1	0	0	0	3219	1117	39	1	274	1	CELF2	10	11207585	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		11207585	124327162	346	68410											
FAM107B	83641	broad.mit.edu	37	chr10	14816403	14816403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgaattccgattcgcactgCcatttctctctgcatgggtg	6	15	9	11	2	2	1	0	1	2	0	5	2	3	1	2	1	2	2	2	1	1	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:14816403C>T	uc001ina.1	-	1	494	c.260G>A	c.(259-261)GGC>GAC	p.G87D	FAM107B_uc010qbu.1_RNA	NM_031453	NP_113641	Q9H098	F107B_HUMAN	hypothetical protein LOC83641	Error:Variant_position_missing_in_Q9H098_after_alignment										breast(4)	4						ATTCGCACTGCCATTTCTCTC	0.602													84	173					0	0	0.01441	0	0		T	14816403	T	T	14816403	3	4	123	1	0	0	0	0	1	0	0	0	5401	739	26	2	680	2	FAM107B	10	14816403	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3608818	14816403	120718344	347	68411											
FXYD4	53828	broad.mit.edu	37	chr10	43869133	43869133	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgagcctggagcagatccGtgggctgcagacccccgccc	6	6	14	15	2	0	3	0	1	0	2	1	4	1	4	5	2	3	3	5	2	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:43869133G>A	uc001jaq.1	+	3	271	c.-61G>A	c.(-63--59)CCGTG>CCATG			NM_173160	NP_775183	P59646	FXYD4_HUMAN	FXYD domain containing ion transport regulator 4							integral to membrane					0						GAGCAGATCCGTGGGCTGCAG	0.642													31	46					0	0	0.012213	0	0		A	43869133	A	A	43869133	1	1	123	1	0	0	0	0	0	0	0	0	6134	1160	40	1		1	FXYD4	10	43869133	Translation_Start_Site	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	29052730	43869133	91665614	348	68412											
EGR2	1959	broad.mit.edu	37	chr10	64573203	64573203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggccacagtagtcacaggCgaagggcttctcaccggtgt	8	8	13	12	3	2	0	2	0	1	0	4	1	2	0	2	4	0	2	2	4	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:64573203C>T	uc010qim.1	-	3	1349	c.1195G>A	c.(1195-1197)GCC>ACC	p.A399T	EGR2_uc010qin.1_Missense_Mutation_p.A349T|EGR2_uc001jmi.2_Missense_Mutation_p.A399T|EGR2_uc010qio.1_Missense_Mutation_p.A412T|EGR2_uc009xph.2_Missense_Mutation_p.A399T	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	399	C2H2-type 3.				fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					TAGTCACAGGCGAAGGGCTTC	0.587													54	143					0	0	0.01441	0	0		T	64573203	T	T	64573203	3	4	123	1	0	0	0	0	1	0	0	0	4978	768	27	1	239	1	EGR2	10	64573203	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	20704070	64573203	70961544	349	68413											
EGR2	1959	broad.mit.edu	37	chr10	64573574	64573574	+	Frame_Shift_Del	DEL	C	-	-																															cggtcaccccagcactggggCcccccagggtaaagttacgg																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:64573574delC	uc010qim.1	-	3	978	c.824delG	c.(823-825)GGCfs	p.G275fs	EGR2_uc010qin.1_Frame_Shift_Del_p.G225fs|EGR2_uc001jmi.2_Frame_Shift_Del_p.G275fs|EGR2_uc010qio.1_Frame_Shift_Del_p.G288fs|EGR2_uc009xph.2_Frame_Shift_Del_p.G275fs	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	275					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					AGCACTGGGGCCCCCCAGGGT	0.697													15	33	---	---	---	---						.	-	64573574	-	-	64573574	7	5	123	1	0	1	0	1	0	0	0	0	4978	739	26	0	610	0	EGR2	10	64573574	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08	371	64573574	70961173	350	68414											
COL13A1	1305	broad.mit.edu	37	chr10	71690277	71690277	+	Frame_Shift_Del	DEL	A	-	-																															gagcccaggagagaagggggAaaaaggggagacaggacaag																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:71690277delA	uc001jpr.1	+	28	2155	c.1619delA	c.(1618-1620)GAAfs	p.E540fs	COL13A1_uc001jqj.1_Frame_Shift_Del_p.E540fs|COL13A1_uc001jps.1_Frame_Shift_Del_p.E511fs|COL13A1_uc001jpt.1_Frame_Shift_Del_p.E499fs|COL13A1_uc001jpu.1_Frame_Shift_Del_p.E521fs|COL13A1_uc001jpv.1_Frame_Shift_Del_p.E540fs|COL13A1_uc001jpx.1_Frame_Shift_Del_p.E518fs|COL13A1_uc001jpw.1_Frame_Shift_Del_p.E487fs|COL13A1_uc001jpy.1_Frame_Shift_Del_p.E478fs|COL13A1_uc001jpz.1_Frame_Shift_Del_p.E483fs|COL13A1_uc001jqa.1_Frame_Shift_Del_p.E480fs|COL13A1_uc001jqc.1_Frame_Shift_Del_p.E540fs|COL13A1_uc001jqb.1_Frame_Shift_Del_p.E489fs|COL13A1_uc001jql.2_Frame_Shift_Del_p.E540fs|COL13A1_uc001jqd.1_Frame_Shift_Del_p.E528fs|COL13A1_uc001jqe.1_Frame_Shift_Del_p.E523fs|COL13A1_uc001jqf.1_Frame_Shift_Del_p.E521fs|COL13A1_uc001jqg.1_Frame_Shift_Del_p.E518fs|COL13A1_uc001jqh.1_Frame_Shift_Del_p.E540fs|COL13A1_uc001jqi.1_Frame_Shift_Del_p.E540fs|COL13A1_uc010qjf.1_Frame_Shift_Del_p.E330fs	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	540	Extracellular (Potential).|Triple-helical region 3 (COL3).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	GAGAAGGGGGAAAAAGGGGAG	0.637													15	21	---	---	---	---						.	-	71690277	-	-	71690277	7	5	123	1	0	1	0	1	0	0	0	0	3673	246	9	0	1733	0	COL13A1	10	71690277	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	7116703	71690277	63844470	351	68415											
KIAA1274	27143	broad.mit.edu	37	chr10	72297653	72297653	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgtttaactactacctTcatgagcaggtggggcctgg	8	12	11	10	0	1	1	1	1	0	0	2	1	2	1	3	4	4	2	3	4	3	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:72297653T>C	uc001jrd.3	+	11	1595	c.1314T>C	c.(1312-1314)CTT>CTC	p.L438L	KIAA1274_uc001jre.3_5'Flank	NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	438										ovary(2)|central_nervous_system(1)	3						ACTACTACCTTCATGAGCAGG	0.632													29	52					0	0	0.007291	0	0		C	72297653	C	C	72297653	2	2	123	1	0	0	0	0	0	0	0	1	8236	1770	62	3		3	KIAA1274	10	72297653	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	607376	72297653	63237094	352	68416											
GRID1	2894	broad.mit.edu	37	chr10	87966288	87966288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggcgaccctcccgggttgCgctggacaaagaggtgtggg	6	7	18	10	3	0	1	0	0	0	1	1	3	1	2	2	5	1	2	2	5	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:87966288C>T	uc001kdl.1	-	3	454	c.353G>A	c.(352-354)CGC>CAC	p.R118H	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	118	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	TCCCGGGTTGCGCTGGACAAA	0.627										Multiple Myeloma(13;0.14)			22	51					0	0	0.016522	0	0		T	87966288	T	T	87966288	3	4	123	1	0	0	0	0	1	0	0	0	6787	768	27	1	2732	1	GRID1	10	87966288	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	15668635	87966288	47568459	353	68417											
WAPAL	23063	broad.mit.edu	37	chr10	88259565	88259565	+	Frame_Shift_Del	DEL	T	-	-																															tgatggagctgttttagttcTttttttgcttgtctttcttt																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:88259565delT	uc001kdo.2	-	3	1877	c.1435delA	c.(1435-1437)AGAfs	p.R479fs	WAPAL_uc001kdn.2_Frame_Shift_Del_p.R522fs|WAPAL_uc009xsw.2_Frame_Shift_Del_p.R479fs	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	479	Mediates interaction with the cohesin complex.				cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						GTTTTAGTTCTTTTTTTGCTT	0.383													35	63	---	---	---	---						.	-	88259565	-	-	88259565	7	5	123	1	0	1	0	1	0	0	0	0	17274	1617	56	0	2205	0	WAPAL	10	88259565	Frame_Shift_Del	DEL	T	TCGA-CD-A4MJ-01A-11D-A25D-08	293277	88259565	47275182	354	68418											
PAPSS2	9060	broad.mit.edu	37	chr10	89487102	89487102	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctgcagaggataagacacgGctggaagggtgcagcaagtt	12	7	15	7	1	1	2	0	0	1	2	1	4	1	4	0	4	3	5	0	4	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:89487102G>A	uc001kex.2	+	8	1190	c.927G>A	c.(925-927)CGG>CGA	p.R309R	PAPSS2_uc001kew.2_Silent_p.R314R|PAPSS2_uc009xtg.1_RNA	NM_004670	NP_004661	O95340	PAPS2_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase 2	309	Adenylyl-sulfate kinase.				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|protein binding|sulfate adenylyltransferase (ATP) activity			central_nervous_system(1)|skin(1)	2		Melanoma(5;0.019)|Colorectal(252;0.123)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00164)|Colorectal(12;0.000323)|COAD - Colon adenocarcinoma(12;0.00124)		ATAAGACACGGCTGGAAGGGT	0.493													32	61					0	0	0.019004	0	0		A	89487102	A	A	89487102	2	1	123	1	0	0	0	0	0	0	0	1	11454	1190	42	2		2	PAPSS2	10	89487102	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1227537	89487102	46047645	355	68419											
KIF20B	9585	broad.mit.edu	37	chr10	91503648	91503648	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaaccagtgttctcaggaAttagatatgaaacagcgaac	18	8	8	7	1	1	2	1	1	1	1	2	4	1	3	1	1	4	1	1	1	7	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:91503648A>T	uc001kgs.1	+	22	4071	c.3999A>T	c.(3997-3999)GAA>GAT	p.E1333D	KIF20B_uc001kgr.1_Missense_Mutation_p.E1293D|KIF20B_uc001kgt.1_Missense_Mutation_p.E544D|KIF20B_uc009xtw.1_RNA	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	1333					cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						GTTCTCAGGAATTAGATATGA	0.299													6	87					0	0	0.001984	0	0		T	91503648	T	T	91503648	3	4	123	1	0	0	0	0	1	0	0	0	8303	98	4	5	3961	5	KIF20B	10	91503648	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	2016546	91503648	44031099	356	68420											
PAX2	5076	broad.mit.edu	37	chr10	102587338	102587338	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgccccccggggctccGcccctgccgctgctgccgct	0	6	13	22	5	0	0	0	0	0	0	1	0	1	0	9	2	4	4	9	2	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:102587338G>A	uc001krk.3	+	12	1744	c.1194G>A	c.(1192-1194)CCG>CCA	p.P398P	PAX2_uc001krl.3_3'UTR|PAX2_uc001krm.3_Missense_Mutation_p.A405T|PAX2_uc001kro.3_Missense_Mutation_p.A382T|PAX2_uc001krn.3_Silent_p.P375P|PAX2_uc010qps.1_Missense_Mutation_p.A382T	NM_003990	NP_003981	Q02962	PAX2_HUMAN	paired box protein 2 isoform e	Error:Variant_position_missing_in_Q02962_after_alignment					anti-apoptosis|axonogenesis|brain morphogenesis|branching involved in ureteric bud morphogenesis|cell fate determination|cellular response to glucose stimulus|cellular response to hydrogen peroxide|cellular response to retinoic acid|cochlea development|glial cell differentiation|inner ear morphogenesis|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesodermal cell fate specification|mesonephros development|metanephric collecting duct development|metanephric distal convoluted tubule development|metanephric mesenchymal cell differentiation|metanephric nephron tubule formation|negative regulation of caspase activity|negative regulation of cytolysis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|negative regulation of reactive oxygen species metabolic process|negative regulation of transcription, DNA-dependent|nephric duct formation|neural tube closure|optic chiasma development|optic cup morphogenesis involved in camera-type eye development|optic nerve structural organization|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of metanephric glomerulus development|positive regulation of optic nerve formation|positive regulation of transcription from RNA polymerase II promoter|pronephric field specification|protein kinase B signaling cascade|reactive oxygen species metabolic process|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of metanephros size|retinal pigment epithelium development|stem cell differentiation|transcription from RNA polymerase II promoter|ureter maturation|vestibulocochlear nerve formation|visual perception	centriolar satellite|nucleus|protein complex|protein-DNA complex	core promoter proximal region sequence-specific DNA binding|superoxide-generating NADPH oxidase activity				0		Colorectal(252;0.234)		Epithelial(162;1.32e-08)|all cancers(201;7.32e-07)		CCGGGGCTCCGCCCCTGCCGC	0.592													65	81					0	0	0.01441	0	0		A	102587338	A	A	102587338	2	1	123	1	0	0	0	0	0	0	0	1	11498	1087	38	1		1	PAX2	10	102587338	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	11083690	102587338	32947409	357	68421											
SEMA4G	57715	broad.mit.edu	37	chr10	102743278	102743278	+	Frame_Shift_Del	DEL	A	-	-																															ctatggctgctatgccgaggAaaatggcctccgcaccctgc																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:102743278delA	uc001krw.1	+	14	2306	c.1922delA	c.(1921-1923)GAAfs	p.E641fs	SEMA4G_uc001krv.2_RNA|SEMA4G_uc001krx.2_Intron|MRPL43_uc001kry.1_Intron|MRPL43_uc010qpu.1_Intron|MRPL43_uc001krz.1_Intron|MRPL43_uc001ksa.1_Intron|MRPL43_uc001ksb.1_Intron	NM_017893	NP_060363	Q9NTN9	SEM4G_HUMAN	semaphorin 4G	636	Extracellular (Potential).|Ig-like C2-type.				cell differentiation|nervous system development	integral to membrane	receptor activity			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3.71e-09)|all cancers(201;2.1e-07)		TATGCCGAGGAAAATGGCCTC	0.637													20	40	---	---	---	---						.	-	102743278	-	-	102743278	7	5	123	1	0	1	0	1	0	0	0	0	14061	246	9	0	1976	0	SEMA4G	10	102743278	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	155940	102743278	32791469	358	68422											
BTRC	8945	broad.mit.edu	37	chr10	103190192	103190192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtataacccagggactggcGcactcacagctttccaggta	10	9	10	12	1	1	0	1	0	0	0	2	1	2	1	2	3	2	4	2	3	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:103190192G>A	uc001kta.2	+	2	252	c.139G>A	c.(139-141)GCA>ACA	p.A47T	BTRC_uc001ksz.1_Intron|BTRC_uc001ktb.2_Intron|BTRC_uc001ktc.2_Missense_Mutation_p.A47T	NM_033637	NP_378663	Q9Y297	FBW1A_HUMAN	beta-transducin repeat containing protein	47					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|positive regulation of proteolysis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|viral reproduction|Wnt receptor signaling pathway	cytosol|nucleus|SCF ubiquitin ligase complex				ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;1.05e-08)|all cancers(201;6.59e-07)		AGGGACTGGCGCACTCACAGC	0.537													5	56					0	0	0.014758	0	0		A	103190192	A	A	103190192	3	1	123	1	0	0	0	0	1	0	0	0	1572	1087	38	1	145	1	BTRC	10	103190192	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	446914	103190192	32344555	359	68423											
TRIM8	81603	broad.mit.edu	37	chr10	104414459	104414459	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggagcgagagcaggacaTtgaggaccagctgtacaaac	14	4	15	8	1	0	2	0	1	0	1	0	7	0	6	1	4	5	3	1	4	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:104414459T>C	uc001kvz.2	+	2	743	c.620T>C	c.(619-621)ATT>ACT	p.I207T		NM_030912	NP_112174	Q9BZR9	TRIM8_HUMAN	tripartite motif-containing 8	207	Potential.					cytoplasm|PML body	ligase activity|protein homodimerization activity|zinc ion binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		GAGCAGGACATTGAGGACCAG	0.602													96	177					0	0	0.01441	0	0		C	104414459	C	C	104414459	3	2	123	1	0	0	0	0	1	0	0	0	16574	1493	52	3	626	3	TRIM8	10	104414459	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1224267	104414459	31120288	360	68424											
XPNPEP1	7511	broad.mit.edu	37	chr10	111667488	111667488	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggatgatgtaggcctggatCggttcggtcacatactcaga	9	10	14	8	2	2	2	2	1	0	1	4	4	2	4	1	5	1	2	1	5	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:111667488C>T	uc001kyp.1	-	3	218	c.78G>A	c.(76-78)CCG>CCA	p.P26P	XPNPEP1_uc009xxt.1_Silent_p.P69P|XPNPEP1_uc001kyq.1_5'UTR|XPNPEP1_uc010qrb.1_Silent_p.P69P	NM_020383	NP_065116	Q9NQW7	XPP1_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 1,	26					bradykinin catabolic process|proteolysis		manganese ion binding|metalloaminopeptidase activity|protein homodimerization activity			ovary(3)|pancreas(1)	4		Breast(234;0.174)		Epithelial(162;1.64e-05)|all cancers(201;0.000564)|BRCA - Breast invasive adenocarcinoma(275;0.0721)		AGGCCTGGATCGGTTCGGTCA	0.522													51	116					0	0	0.01441	0	0		T	111667488	T	T	111667488	2	4	123	1	0	0	0	0	0	0	0	1	17468	871	31	1		1	XPNPEP1	10	111667488	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	7253029	111667488	23867259	361	68425											
TECTB	6975	broad.mit.edu	37	chr10	114046093	114046093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagtggccactgttcacGtgaagaacgggagcatgggc	10	7	15	9	2	2	3	2	1	0	2	2	4	2	4	1	3	2	2	1	3	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:114046093G>A	uc001kzr.1	+	4	427	c.427G>A	c.(427-429)GTG>ATG	p.V143M		NM_058222	NP_478129	Q96PL2	TECTB_HUMAN	tectorin beta precursor	143	ZP.					anchored to membrane|plasma membrane|proteinaceous extracellular matrix					0		Colorectal(252;0.198)		Epithelial(162;0.0143)|all cancers(201;0.0242)		CACTGTTCACGTGAAGAACGG	0.502													30	54					0	0	0.012213	0	0		A	114046093	A	A	114046093	3	1	123	1	0	0	0	0	1	0	0	0	15773	1145	40	1	441	1	TECTB	10	114046093	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2378605	114046093	21488654	362	68426											
ACSL5	51703	broad.mit.edu	37	chr10	114181725	114181725	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcacgttggggtgcccctgGcttgcaattacgtgaagctg	6	11	14	10	2	1	1	1	1	0	0	1	1	1	1	2	3	4	4	2	3	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:114181725G>A	uc001kzs.2	+	16	1549	c.1408G>A	c.(1408-1410)GCT>ACT	p.A470T	ACSL5_uc001kzt.2_Missense_Mutation_p.A470T|ACSL5_uc001kzu.2_Missense_Mutation_p.A526T|ACSL5_uc009xxz.2_Missense_Mutation_p.A470T|ACSL5_uc010qrj.1_Missense_Mutation_p.A252T	NM_203379	NP_976313	Q9ULC5	ACSL5_HUMAN	acyl-CoA synthetase long-chain family member 5	470	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(2)|skin(1)	3		Colorectal(252;0.117)|Breast(234;0.222)		Epithelial(162;0.0343)|all cancers(201;0.137)		GGTGCCCCTGGCTTGCAATTA	0.453													27	75					0	0	0.009535	0	0		A	114181725	A	A	114181725	3	1	123	1	0	0	0	0	1	0	0	0	180	1203	42	2	1638	2	ACSL5	10	114181725	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	135632	114181725	21353022	363	68427											
FAM160B1	57700	broad.mit.edu	37	chr10	116595908	116595908	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattagactctgtggtgaagTcctagcaacaccaacagaaa	16	8	8	9	0	1	3	0	1	1	2	2	3	2	3	2	1	3	1	2	1	7	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:116595908T>C	uc001lcb.2	+	5	760	c.425T>C	c.(424-426)GTC>GCC	p.V142A	FAM160B1_uc001lcc.2_Missense_Mutation_p.V142A	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	142										lung(1)	1						TGTGGTGAAGTCCTAGCAACA	0.338													59	166					0	0	0.01441	0	0		C	116595908	C	C	116595908	3	2	123	1	0	0	0	0	1	0	0	0	5481	1667	58	3	443	3	FAM160B1	10	116595908	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	2414183	116595908	18938839	364	68428											
VAX1	11023	broad.mit.edu	37	chr10	118896070	118896070	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgctggaactccatctccagCcgatagagctgctccgcggt	7	8	11	15	4	1	1	0	0	1	1	4	3	3	2	4	2	4	3	4	2	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:118896070C>T	uc009xyx.2	-	2	587	c.342G>A	c.(340-342)CGG>CGA	p.R114R	VAX1_uc001ldb.1_Silent_p.R114R	NM_001112704	NP_001106175	Q5SQQ9	VAX1_HUMAN	ventral anterior homeobox 1 isoform a	114	Homeobox.					nucleus	sequence-specific DNA binding			ovary(2)	2				all cancers(201;0.0108)		CCATCTCCAGCCGATAGAGCT	0.657													27	39					0	0	0.00632	0	0		T	118896070	T	T	118896070	2	4	123	1	0	0	0	0	0	0	0	1	17160	726	26	2		2	VAX1	10	118896070	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2300162	118896070	16638677	365	68429											
MKI67	4288	broad.mit.edu	37	chr10	129901088	129901088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctcttggttcccgtgaCgcttccatctttgccacctc	4	13	7	17	2	2	1	0	1	2	0	5	1	4	1	5	1	2	2	5	1	0	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:129901088C>T	uc001lke.2	-	13	9211	c.9016G>A	c.(9016-9018)GTC>ATC	p.V3006I	MKI67_uc001lkf.2_Missense_Mutation_p.V2646I|MKI67_uc009yav.1_Missense_Mutation_p.V2581I|MKI67_uc009yaw.1_Missense_Mutation_p.V2156I	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	3006					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GTTCCCGTGACGCTTCCATCT	0.572													31	83					0	0	0.013726	0	0		T	129901088	T	T	129901088	3	4	123	1	0	0	0	0	1	0	0	0	9616	536	19	1	766	1	MKI67	10	129901088	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	11005018	129901088	5633659	366	68430											
EBF3	253738	broad.mit.edu	37	chr10	131639224	131639224	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtgctgactgtgttgtaaTtggactgctggggagtactg	7	14	15	5	0	0	1	0	1	0	0	0	3	0	3	0	3	3	5	0	3	3	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:131639224T>C	uc001lki.1	-	14	1477	c.1418A>G	c.(1417-1419)AAT>AGT	p.N473S		NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	482	Pro/Ser/Thr-rich.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		TGTGTTGTAATTGGACTGCTG	0.572													13	156					0	0	0.006122	0	0		C	131639224	C	C	131639224	3	2	123	1	0	0	0	0	1	0	0	0	4888	1493	52	3	249	3	EBF3	10	131639224	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1738136	131639224	3895523	367	68431											
ADAM8	101	broad.mit.edu	37	chr10	135084401	135084401	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctggcccccagaaggcCtggcactgctgggccagtgt	6	7	13	15	0	1	1	1	0	0	1	1	1	1	1	5	4	1	2	5	4	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr10:135084401C>A	uc010qva.1	-	13	1482	c.1431G>T	c.(1429-1431)CAG>CAT	p.Q477H	ADAM8_uc010quz.1_Missense_Mutation_p.Q516H|ADAM8_uc009ybi.2_Missense_Mutation_p.Q516H			P78325	ADAM8_HUMAN	SubName: Full=cDNA FLJ50704, highly similar to ADAM 8 (EC 3.4.24.-) (A disintegrinand metalloproteinase domain 8);	477					integrin-mediated signaling pathway|proteolysis		metalloendopeptidase activity			large_intestine(2)|central_nervous_system(1)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;7.72e-06)|OV - Ovarian serous cystadenocarcinoma(35;8.23e-06)|Epithelial(32;1.02e-05)		CCCAGAAGGCCTGGCACTGCT	0.687													20	19					4.96729e-08	5.18853e-08	0.008871	1	0		A	135084401	A	A	135084401	3	1	123	1	0	0	0	0	1	0	0	0	252	680	24	5	884	5	ADAM8	10	135084401	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3445177	135084401	450346	368	68432											
NLRP6	171389	broad.mit.edu	37	chr11	280967	280967	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgggacctgtcgcgcacGtccaagaccaccacgtcagt	8	6	12	15	5	1	1	1	0	0	1	4	2	2	2	4	2	0	1	4	2	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:280967G>A	uc010qvs.1	+	4	1233	c.1233G>A	c.(1231-1233)ACG>ACA	p.T411T	NLRP6_uc010qvt.1_Silent_p.T411T	NM_138329	NP_612202	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	411	NACHT.					cytoplasm	ATP binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.28e-28)|Epithelial(43;2.47e-27)|OV - Ovarian serous cystadenocarcinoma(40;4.66e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.0485)|LUSC - Lung squamous cell carcinoma(625;0.122)		TGTCGCGCACGTCCAAGACCA	0.652													97	129					0	0	0.01441	0	0		A	280967	A	A	280967	2	1	123	1	0	0	0	0	0	0	0	1	10500	1132	40	1		1	NLRP6	11	280967	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		280967	134725549	369	68433											
OR51B5	282763	broad.mit.edu	37	chr11	5364645	5364645	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagggtgccattgccaaaaAggatggatatatacatgaac	15	8	12	6	0	0	1	0	1	0	0	0	4	0	4	2	4	4	0	2	4	6	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:5364645A>G	uc001map.1	-	1	110	c.110T>C	c.(109-111)CTT>CCT	p.L37P	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Missense_Mutation_p.L37P	NM_001005567	NP_001005567	Q9H339	O51B5_HUMAN	olfactory receptor, family 51, subfamily B,	37	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.05e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATTGCCAAAAAGGATGGATAT	0.478													23	37					0	0	0.014323	0	0		G	5364645	G	G	5364645	3	3	123	1	0	0	0	0	1	0	0	0	11110	72	3	3	832	3	OR51B5	11	5364645	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	5083678	5364645	129641871	370	68434											
OR56A3	390083	broad.mit.edu	37	chr11	5968969	5968969	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatcgttatgtagccatctgCcacccactgagatatccatc	10	11	7	13	1	1	1	0	1	1	1	4	3	2	1	4	0	2	2	4	0	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:5968969C>T	uc010qzt.1	+	1	393	c.393C>T	c.(391-393)TGC>TGT	p.C131C		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TAGCCATCTGCCACCCACTGA	0.458													48	99					0	0	0.01441	0	0		T	5968969	T	T	5968969	2	4	123	1	0	0	0	0	0	0	0	1	11153	747	26	2		2	OR56A3	11	5968969	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	604324	5968969	129037547	371	68435											
OR56B4	196335	broad.mit.edu	37	chr11	6129639	6129639	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accaactgatgctagcatggGtcttggttgggagtgatatg	9	12	14	6	0	1	2	0	2	1	0	1	3	1	3	1	3	3	3	1	3	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:6129639G>T	uc010qzx.1	+	1	631	c.631G>T	c.(631-633)GTC>TTC	p.V211F		NM_001005181	NP_001005181	Q8NH76	O56B4_HUMAN	olfactory receptor, family 56, subfamily B,	211	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.31e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCTAGCATGGGTCTTGGTTGG	0.468													40	140					6.4771e-29	7.24439e-29	0.010771	1	0		T	6129639	T	T	6129639	3	4	123	1	0	0	0	0	1	0	0	0	11157	1261	44	5	633	5	OR56B4	11	6129639	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	160670	6129639	128876877	372	68436											
OR52B2	255725	broad.mit.edu	37	chr11	6190659	6190659	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctacaccctcacgtatctGcttagtcttcacaccataga	10	11	6	14	1	4	1	2	0	2	1	4	1	4	1	2	1	2	3	2	1	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:6190659G>T	uc010qzy.1	-	1	898	c.898C>A	c.(898-900)CAG>AAG	p.Q300K		NM_001004052	NP_001004052	Q96RD2	O52B2_HUMAN	olfactory receptor, family 52, subfamily B,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;3.69e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCACGTATCTGCTTAGTCTTC	0.493													23	35					6.21321e-17	6.79249e-17	0.016522	1	0		T	6190659	T	T	6190659	3	4	123	1	0	0	0	0	1	0	0	0	11130	1328	46	5	76	5	OR52B2	11	6190659	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	61020	6190659	128815857	373	68437											
DCHS1	8642	broad.mit.edu	37	chr11	6647176	6647176	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcagcccagatctcacggtCcaggatggctgtggtagtga	8	10	13	10	1	2	2	2	1	1	1	4	3	3	3	2	4	1	2	2	4	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:6647176C>A	uc001mem.1	-	17	7116	c.6706G>T	c.(6706-6708)GAC>TAC	p.D2236Y		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	2236	Extracellular (Potential).|Cadherin 21.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATCTCACGGTCCAGGATGGCT	0.577													9	12					0.000673444	0.000679048	0.008291	1	0		A	6647176	A	A	6647176	3	1	123	1	0	0	0	0	1	0	0	0	4290	855	30	5	3210	5	DCHS1	11	6647176	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	456517	6647176	128359340	374	68438											
AMPD3	272	broad.mit.edu	37	chr11	10523119	10523119	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctgacaacatttcccaCgggctgctcctcaagaaggt	10	9	9	13	1	1	2	1	1	0	1	3	2	3	2	2	2	3	3	2	2	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:10523119C>T	uc001mio.1	+	12	2159	c.1824C>T	c.(1822-1824)CAC>CAT	p.H608H	AMPD3_uc010rbz.1_Silent_p.H449H|AMPD3_uc001min.1_Silent_p.H617H|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Silent_p.H615H|AMPD3_uc009yfy.2_Silent_p.H608H	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	608		Proton acceptor (By similarity).			AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		ACATTTCCCACGGGCTGCTCC	0.637													14	52					0	0	0.00499	0	0		T	10523119	T	T	10523119	2	4	123	1	0	0	0	0	0	0	0	1	587	535	19	1		1	AMPD3	11	10523119	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3875943	10523119	124483397	375	68439											
SPON1	10418	broad.mit.edu	37	chr11	13984526	13984526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgctgcccctggccgcGgcgctggccttctccgacga	2	7	14	18	6	1	0	0	0	1	0	2	2	1	0	5	4	1	2	5	4	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:13984526G>A	uc001mle.2	+	1	613	c.75G>A	c.(73-75)GCG>GCA	p.A25A		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	25					cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		CCCTGGCCGCGGCGCTGGCCT	0.711													6	14					0	0	0.004482	0	0		A	13984526	A	A	13984526	2	1	123	1	0	0	0	0	0	0	0	1	15107	1103	39	1		1	SPON1	11	13984526	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3461407	13984526	121021990	376	68440											
KCNC1	3746	broad.mit.edu	37	chr11	17793218	17793218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctttatccccacagtatgtgGccttcgcttccctcttcttc	4	16	5	16	1	2	0	0	0	2	0	6	0	4	0	4	1	0	2	4	1	2	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:17793218G>A	uc001mnk.3	+	2	632	c.577G>A	c.(577-579)GCC>ACC	p.A193T	KCNC1_uc009yhc.1_Missense_Mutation_p.A193T	NM_004976	NP_004967	P48547	KCNC1_HUMAN	Shaw-related voltage-gated potassium channel	193	Helical; Name=Segment S1; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)	1						ACAGTATGTGGCCTTCGCTTC	0.597													37	74					0	0	0.00874	0	0		A	17793218	A	A	17793218	3	1	123	1	0	0	0	0	1	0	0	0	8030	1203	42	2	583	2	KCNC1	11	17793218	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3808692	17793218	117213298	377	68441											
CRY2	1408	broad.mit.edu	37	chr11	45869014	45869014	+	Frame_Shift_Del	DEL	G	-	-																															gtcgcctaccggggcggagcGggggtggctggagcagtctg																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:45869014delG	uc010rgn.1	+	1	58	c.36delG	c.(34-36)GCGfs	p.A12fs	CRY2_uc009ykw.2_Intron	NM_021117	NP_066940	Q49AN0	CRY2_HUMAN	cryptochrome 2 (photolyase-like) isoform 1	Error:Variant_position_missing_in_Q49AN0_after_alignment					DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	blue light photoreceptor activity|damaged DNA binding|DNA photolyase activity|nucleotide binding|protein binding|single-stranded DNA binding			central_nervous_system(1)	1						GGGGCGGAGCGGGGGTGGCTG	0.547													14	25	---	---	---	---						.	-	45869014	-	-	45869014	7	5	123	1	0	1	0	1	0	0	0	0	3907	1103	39	0	74	0	CRY2	11	45869014	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	28075796	45869014	89137502	378	68442											
CRY2	1408	broad.mit.edu	37	chr11	45877621	45877621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggggacagccagccgacGtgttcccaaggctgttcaag	8	7	13	13	3	1	0	1	0	0	0	3	2	3	1	4	3	2	3	4	3	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:45877621G>A	uc010rgn.1	+	2	389	c.367G>A	c.(367-369)GTG>ATG	p.V123M	CRY2_uc009ykw.2_Missense_Mutation_p.V41M	NM_021117	NP_066940	Q49AN0	CRY2_HUMAN	cryptochrome 2 (photolyase-like) isoform 1	102	DNA photolyase.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	blue light photoreceptor activity|damaged DNA binding|DNA photolyase activity|nucleotide binding|protein binding|single-stranded DNA binding			central_nervous_system(1)	1						GCCAGCCGACGTGTTCCCAAG	0.522													42	121					0	0	0.013114	0	0		A	45877621	A	A	45877621	3	1	123	1	0	0	0	0	1	0	0	0	3907	1145	40	1	409	1	CRY2	11	45877621	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	8607	45877621	89128895	379	68443											
GYLTL1B	120071	broad.mit.edu	37	chr11	45949132	45949132	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcctgcctattctctctAcgactacctcaggtgggcct	5	12	8	16	1	3	0	1	0	2	0	4	1	3	0	5	2	4	0	5	2	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:45949132A>G	uc001nbv.1	+	11	1703	c.1592A>G	c.(1591-1593)TAC>TGC	p.Y531C	GYLTL1B_uc001nbw.1_Missense_Mutation_p.Y500C|GYLTL1B_uc001nbx.1_Missense_Mutation_p.Y531C|GYLTL1B_uc001nby.1_Missense_Mutation_p.Y214C|GYLTL1B_uc001nbz.1_5'Flank	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	531	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		TATTCTCTCTACGACTACCTC	0.602													39	119					0	0	0.013114	0	0		G	45949132	G	G	45949132	3	3	123	1	0	0	0	0	1	0	0	0	6923	391	14	3	1630	3	GYLTL1B	11	45949132	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	71511	45949132	89057384	380	68444											
MADD	8567	broad.mit.edu	37	chr11	47296226	47296226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagtgttcttctgccagcccGagggctgcctgagcgtgcgg	4	10	15	12	3	2	1	0	1	2	0	2	2	2	1	3	2	5	2	3	2	1	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:47296226G>A	uc001ner.1	+	3	366	c.175G>A	c.(175-177)GAG>AAG	p.E59K	MADD_uc001neq.2_Missense_Mutation_p.E59K|MADD_uc001nev.1_Missense_Mutation_p.E59K|MADD_uc001nes.1_Missense_Mutation_p.E59K|MADD_uc001net.1_Missense_Mutation_p.E59K|MADD_uc009yln.1_Missense_Mutation_p.E59K|MADD_uc001neu.1_Missense_Mutation_p.E59K|MADD_uc001nex.2_Missense_Mutation_p.E59K|MADD_uc001nez.2_Missense_Mutation_p.E59K|MADD_uc001new.2_Missense_Mutation_p.E59K	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	59	UDENN.				activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		CTGCCAGCCCGAGGGCTGCCT	0.582													109	210					0	0	0.01441	0	0		A	47296226	A	A	47296226	3	1	123	1	0	0	0	0	1	0	0	0	9170	1059	37	1	181	1	MADD	11	47296226	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1347094	47296226	87710290	381	68445											
OR8I2	120586	broad.mit.edu	37	chr11	55861386	55861386	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaatggtgagctttgtcttAgctggattcactcttcttag	8	16	10	7	0	4	1	1	1	3	0	4	3	4	2	0	2	2	2	0	2	3	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:55861386A>G	uc010rix.1	+	1	603	c.603A>G	c.(601-603)TTA>TTG	p.L201L		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	201	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					GCTTTGTCTTAGCTGGATTCA	0.443													8	88					0	0	0.00308	0	0		G	55861386	G	G	55861386	2	3	123	1	0	0	0	0	0	0	0	1	11259	417	15	3		3	OR8I2	11	55861386	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	8565160	55861386	79145130	382	68446											
OR5M9	390162	broad.mit.edu	37	chr11	56230421	56230421	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgtgcatattaggctgaCagagaatccatagacataag	15	10	10	6	0	0	3	0	1	0	2	1	4	1	3	1	1	1	2	1	1	6	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:56230421C>A	uc010rjj.1	-	1	457	c.457G>T	c.(457-459)GTC>TTC	p.V153F		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	153	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					ATTAGGCTGACAGAGAATCCA	0.453													36	60					4.11147e-13	4.44798e-13	0.017118	1	0		A	56230421	A	A	56230421	3	1	123	1	0	0	0	0	1	0	0	0	11196	478	17	5	477	5	OR5M9	11	56230421	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	369035	56230421	78776095	383	68447											
SERPING1	710	broad.mit.edu	37	chr11	57367850	57367850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccttacccaggtcctgctcGgtaagaccctgcttgaattc	7	12	8	14	1	0	2	0	1	0	1	4	2	2	2	4	2	3	3	4	2	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:57367850G>A	uc001nkp.1	+	3	741	c.550G>A	c.(550-552)GGG>AGG	p.G184R	SERPING1_uc001nkq.1_Missense_Mutation_p.G184R|SERPING1_uc010rju.1_Missense_Mutation_p.G132R|SERPING1_uc010rjv.1_Missense_Mutation_p.G189R|SERPING1_uc001nkr.1_Missense_Mutation_p.G184R|SERPING1_uc009ymi.1_Missense_Mutation_p.G184R|SERPING1_uc009ymj.1_Missense_Mutation_p.G184R|SERPING1_uc001nks.1_Intron	NM_000062	NP_000053	P05155	IC1_HUMAN	serpin peptidase inhibitor, clade G, member 1	184					blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1						GGTCCTGCTCGGTAAGACCCT	0.522									Hereditary_Angioedema				22	50					0	0	0.024334	0	0		A	57367850	A	A	57367850	3	1	123	1	0	0	0	0	1	0	0	0	14141	1130	39	1	556	1	SERPING1	11	57367850	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1137429	57367850	77638666	384	68448											
OR5A2	219981	broad.mit.edu	37	chr11	59189571	59189571	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgtagatgatgggattcaCcacggggatcaccaaggcat	12	8	12	9	1	2	2	2	1	0	1	2	4	2	4	2	4	0	2	2	4	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:59189571C>T	uc010rkt.1	-	1	856	c.856G>A	c.(856-858)GTG>ATG	p.V286M		NM_001001954	NP_001001954	Q8NGI9	OR5A2_HUMAN	olfactory receptor, family 5, subfamily A,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGGGATTCACCACGGGGATC	0.473													22	57					0	0	0.016522	0	0		T	59189571	T	T	59189571	3	4	123	1	0	0	0	0	1	0	0	0	11159	507	18	4	120	4	OR5A2	11	59189571	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1821721	59189571	75816945	385	68449											
MS4A15	219995	broad.mit.edu	37	chr11	60540898	60540898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcaccaacatcctcagcGtcatggcggcctttgctggg	6	9	13	13	2	2	0	2	0	0	0	3	0	3	0	3	4	3	2	3	4	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:60540898G>A	uc009ynf.1	+	5	659	c.439G>A	c.(439-441)GTC>ATC	p.V147I	MS4A15_uc001npx.2_Missense_Mutation_p.V54I|MS4A15_uc001npy.2_RNA|MS4A15_uc009yng.1_Missense_Mutation_p.V106I	NM_001098835	NP_001092305	Q8N5U1	M4A15_HUMAN	membrane-spanning 4-domains, subfamily A, member	147	Helical; (Potential).					integral to membrane	receptor activity			lung(1)	1						CATCCTCAGCGTCATGGCGGC	0.567													5	29					0	0	0.021553	0	0		A	60540898	A	A	60540898	3	1	123	1	0	0	0	0	1	0	0	0	9877	1145	40	1	453	1	MS4A15	11	60540898	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1351327	60540898	74465618	386	68450											
GPR44	11251	broad.mit.edu	37	chr11	60620602	60620602	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacctgccgcgagttgcaCgtggcatcgcggtcaggccc	5	6	14	16	5	1	0	1	0	0	0	2	1	1	0	4	3	2	3	4	3	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:60620602C>T	uc001nqc.2	-	2	706	c.594G>A	c.(592-594)ACG>ACA	p.T198T		NM_004778	NP_004769	Q9Y5Y4	GPR44_HUMAN	G protein-coupled receptor 44	198	Extracellular (Potential).				immune response	integral to plasma membrane	N-formyl peptide receptor activity			ovary(1)	1						GCGAGTTGCACGTGGCATCGC	0.657													7	34					0	0	0.024245	0	0		T	60620602	T	T	60620602	2	4	123	1	0	0	0	0	0	0	0	1	6710	523	19	1		1	GPR44	11	60620602	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	79704	60620602	74385914	387	68451											
DAGLA	747	broad.mit.edu	37	chr11	61511088	61511088	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgcggcggcggcccgccaGgacccggtggagctgctgct	3	6	18	14	5	0	0	0	0	0	0	0	2	0	2	3	6	4	4	3	6	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:61511088G>T	uc001nsa.2	+	20	2367	c.2256G>T	c.(2254-2256)CAG>CAT	p.Q752H		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	752	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		CGGCCCGCCAGGACCCGGTGG	0.706													15	56					2.4624e-09	2.59444e-09	0.008871	1	0		T	61511088	T	T	61511088	3	4	123	1	0	0	0	0	1	0	0	0	4229	991	35	5	2330	5	DAGLA	11	61511088	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	890486	61511088	73495428	388	68452											
AHNAK	79026	broad.mit.edu	37	chr11	62289177	62289177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagggccctttagtttcgCatctggaccttcgatattca	7	16	8	10	2	2	0	1	0	1	0	4	2	2	1	2	2	0	2	2	2	3	8			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:62289177C>T	uc001ntl.2	-	5	13012	c.12712G>A	c.(12712-12714)GCG>ACG	p.A4238T	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4238					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TTTAGTTTCGCATCTGGACCT	0.498													90	248					0	0	0.01441	0	0		T	62289177	T	T	62289177	3	4	123	1	0	0	0	0	1	0	0	0	414	710	25	2	5080	2	AHNAK	11	62289177	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	778089	62289177	72717339	389	68453											
ROM1	6094	broad.mit.edu	37	chr11	62380758	62380758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcagagatgggagatggCgccggtgttgcccctggtgc	5	8	19	9	2	0	2	0	0	0	2	0	4	0	2	3	5	2	2	3	5	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:62380758C>T	uc001ntv.2	+	1	546	c.5C>T	c.(4-6)GCG>GTG	p.A2V	EML3_uc001ntr.1_5'Flank|EML3_uc001nts.1_5'Flank|EML3_uc001ntt.1_5'Flank|EML3_uc001ntu.1_5'Flank|EML3_uc010rly.1_5'Flank|EML3_uc009yny.1_5'Flank	NM_000327	NP_000318	Q03395	ROM1_HUMAN	retinal outer segment membrane protein 1	2	Cytoplasmic (Potential).				cell adhesion|visual perception	integral to plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						TGGGAGATGGCGCCGGTGTTG	0.677													6	4					0	0	0.021553	0	0		T	62380758	T	T	62380758	3	4	123	1	0	0	0	0	1	0	0	0	13546	768	27	1	7	1	ROM1	11	62380758	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	91581	62380758	72625758	390	68454											
ZBTB3	79842	broad.mit.edu	37	chr11	62520291	62520291	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggagctgagacaggggcTggggctgacgttggggctga	7	7	20	7	1	0	3	0	3	0	1	0	5	0	4	0	7	1	5	0	7	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:62520291T>C	uc001nuz.2	-	2	1118	c.996A>G	c.(994-996)CCA>CCG	p.P332P		NM_024784	NP_079060	Q9H5J0	ZBTB3_HUMAN	zinc finger and BTB domain containing 3	332	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3						agacaggggctggggctgacg	0.318													22	45					0	0	0.027356	0	0		C	62520291	C	C	62520291	2	2	123	1	0	0	0	0	0	0	0	1	17559	1567	55	3		3	ZBTB3	11	62520291	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	139533	62520291	72486225	391	68455											
C11orf84	144097	broad.mit.edu	37	chr11	63594575	63594575	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcagaatccagcaccacTgtggcagggaagccggaaaa	13	5	12	11	1	1	1	1	0	0	1	2	3	2	3	3	3	2	2	3	3	4	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:63594575T>C	uc001nxt.2	+	6	1346	c.1110T>C	c.(1108-1110)ACT>ACC	p.T370T	C11orf84_uc001nxu.1_RNA	NM_138471	NP_612480	Q9BUA3	CK084_HUMAN	hypothetical protein LOC144097	370											0						CCAGCACCACTGTGGCAGGGA	0.592													19	36					0	0	0.008871	0	0		C	63594575	C	C	63594575	2	2	123	1	0	0	0	0	0	0	0	1	1670	1567	55	3		3	C11orf84	11	63594575	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1074284	63594575	71411941	392	68456											
PLCB3	5331	broad.mit.edu	37	chr11	64031188	64031188	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactacgtctgcctgcggaaCgaggccaaccaaccgctgtg	9	6	11	15	4	1	0	0	0	1	0	1	2	1	1	4	2	6	1	4	2	4	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:64031188C>T	uc001nzb.2	+	21	2481	c.2481C>T	c.(2479-2481)AAC>AAT	p.N827N	PLCB3_uc009ypg.1_Silent_p.N827N|PLCB3_uc009yph.1_Silent_p.N760N|PLCB3_uc009ypi.2_Silent_p.N827N	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	827					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						GCCTGCGGAACGAGGCCAACC	0.667													54	122					0	0	0.01441	0	0		T	64031188	T	T	64031188	2	4	123	1	0	0	0	0	0	0	0	1	12048	535	19	1		1	PLCB3	11	64031188	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	436613	64031188	70975328	393	68457											
SPTBN2	6712	broad.mit.edu	37	chr11	66466164	66466164	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagctcggccatgaatgcCtggtgcttctgccacttagt	6	11	11	13	1	1	1	0	1	1	0	2	1	1	1	4	2	4	2	4	2	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:66466164C>A	uc001ojd.2	-	19	4032	c.3960G>T	c.(3958-3960)CAG>CAT	p.Q1320H		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1320	Spectrin 10.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCATGAATGCCTGGTGCTTCT	0.597													12	86					7.93312e-07	8.23911e-07	0.020292	1	0		A	66466164	A	A	66466164	3	1	123	1	0	0	0	0	1	0	0	0	15145	680	24	5	3288	5	SPTBN2	11	66466164	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2434976	66466164	68540352	394	68458											
GPR152	390212	broad.mit.edu	37	chr11	67219919	67219919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggccagtgtcccccatGccggatctctaggatctgga	7	8	12	14	2	2	0	0	0	2	0	4	3	3	3	4	4	2	0	4	4	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:67219919G>A	uc001olm.2	-	1	282	c.277C>T	c.(277-279)CAT>TAT	p.H93Y	uc009yrw.1_RNA|CABP4_uc001oln.2_5'UTR|CABP4_uc001olo.2_5'Flank	NM_206997	NP_996880	Q8TDT2	GP152_HUMAN	G protein-coupled receptor 152	93	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			TGTCCCCCATGCCGGATCTCT	0.652													14	20					0	0	0.020292	0	0		A	67219919	A	A	67219919	3	1	123	1	0	0	0	0	1	0	0	0	6673	1319	46	2	1139	2	GPR152	11	67219919	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	753755	67219919	67786597	395	68459											
MRGPRD	116512	broad.mit.edu	37	chr11	68747599	68747599	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggacctggtgggcagcCtgtggctcctccggctgccc	3	7	15	16	1	0	0	0	0	0	0	2	1	2	1	6	5	2	3	6	5	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:68747599C>A	uc010rqf.1	-	1	857	c.857G>T	c.(856-858)AGG>ATG	p.R286M		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	286	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			GGTGGGCAGCCTGTGGCTCCT	0.652													28	67					4.4194e-11	4.72486e-11	0.013726	1	0		A	68747599	A	A	68747599	3	1	123	1	0	0	0	0	1	0	0	0	9781	681	24	5	111	5	MRGPRD	11	68747599	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1527680	68747599	66258917	396	68460											
SHANK2	22941	broad.mit.edu	37	chr11	70333046	70333046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggccgcgtcctgggggCgggtggccccaggcccacat	4	4	19	14	3	0	0	0	0	0	0	1	1	1	1	5	7	0	0	5	7	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:70333046C>T	uc001oqc.2	-	21	3430	c.3352G>A	c.(3352-3354)GCC>ACC	p.A1118T	SHANK2_uc010rqn.1_Missense_Mutation_p.A530T|SHANK2_uc001opz.2_Missense_Mutation_p.A523T|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	739					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			GTCCTGGGGGCGGGTGGCCCC	0.687													22	59					0	0	0.01892	0	0		T	70333046	T	T	70333046	3	4	123	1	0	0	0	0	1	0	0	0	14290	768	27	1	2205	1	SHANK2	11	70333046	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1585447	70333046	64673470	397	68461											
P4HA3	283208	broad.mit.edu	37	chr11	74009285	74009285	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaaaggccaagtgatccAaggcatcttctagacttgcc	13	8	9	11	0	2	2	0	1	2	1	3	2	3	2	3	2	2	2	3	2	5	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:74009285A>G	uc001ouz.2	-	4	732	c.689T>C	c.(688-690)TTG>TCG	p.L230S	P4HA3_uc001ouy.3_RNA|P4HA3_uc010rrj.1_Missense_Mutation_p.L230S	NM_182904	NP_878907	Q7Z4N8	P4HA3_HUMAN	prolyl 4-hydroxylase, alpha III subunit	230	TPR.					endoplasmic reticulum lumen	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			skin(1)	1	Breast(11;2.31e-05)					CAAGTGATCCAAGGCATCTTC	0.413													25	68					0	0	0.021523	0	0		G	74009285	G	G	74009285	3	3	123	1	0	0	0	0	1	0	0	0	11377	131	5	3	985	3	P4HA3	11	74009285	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	3676239	74009285	60997231	398	68462											
PRKRIR	5612	broad.mit.edu	37	chr11	76062943	76062943	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcagatttccttcagttcTttacccctttctttactgtt	5	20	5	11	0	3	1	1	0	2	1	4	1	4	1	3	1	2	3	3	1	2	9			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:76062943T>G	uc001oxh.1	-	5	1251	c.1251A>C	c.(1249-1251)AAA>AAC	p.K417N	PRKRIR_uc010rrz.1_Missense_Mutation_p.K242N	NM_004705	NP_004696	O43422	P52K_HUMAN	protein-kinase, interferon-inducible double	417					negative regulation of cell proliferation|response to stress|signal transduction		DNA binding|metal ion binding|protein dimerization activity			ovary(2)|pancreas(1)	3						CCTTCAGTTCTTTACCCCTTT	0.378													21	35					0	0	0.01892	0	0		G	76062943	G	G	76062943	3	3	123	1	0	0	0	0	1	0	0	0	12548	1606	56	5	1038	5	PRKRIR	11	76062943	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	2053658	76062943	58943573	399	68463											
ODZ4	26011	broad.mit.edu	37	chr11	78433794	78433794	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccacatagaggctcccgTcagagccacaggtgagggcc	10	4	12	15	1	1	3	1	1	0	2	2	3	2	3	4	3	1	1	4	3	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:78433794T>C	uc001ozl.3	-	24	4182	c.3719A>G	c.(3718-3720)GAC>GGC	p.D1240G		NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1240	Extracellular (Potential).|NHL 1.				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						GAGGCTCCCGTCAGAGCCACA	0.557													25	69					0	0	0.01892	0	0		C	78433794	C	C	78433794	3	2	123	1	0	0	0	0	1	0	0	0	10856	1667	58	3	4634	3	ODZ4	11	78433794	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	2370851	78433794	56572722	400	68464											
GRM5	2915	broad.mit.edu	37	chr11	88300371	88300371	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcacgtttctctctggtttgGccaggatgatgtacaccttc	6	14	10	11	1	2	1	0	1	2	0	4	2	2	2	2	3	1	4	2	3	1	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:88300371G>T	uc001pcq.2	-	7	2680	c.2480C>A	c.(2479-2481)GCC>GAC	p.A827D	GRM5_uc009yvm.2_Missense_Mutation_p.A827D	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	827	Helical; Name=7; (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CTCTGGTTTGGCCAGGATGAT	0.562													9	60					3.86212e-05	3.94348e-05	0.008291	1	0		T	88300371	T	T	88300371	3	4	123	1	0	0	0	0	1	0	0	0	6816	1203	42	5	1170	5	GRM5	11	88300371	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	9866577	88300371	46706145	401	68465											
FAT3	120114	broad.mit.edu	37	chr11	92624149	92624149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccagaggcacctcatcctCggatgtgtctgccaactgcg	7	10	10	14	2	2	1	1	0	1	1	5	2	4	2	4	2	3	1	4	2	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:92624149C>T	uc001pdj.3	+	25	13561	c.13544C>T	c.(13543-13545)TCG>TTG	p.S4515L	FAT3_uc001pdi.3_Missense_Mutation_p.S987L	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4547	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACCTCATCCTCGGATGTGTCT	0.552										TCGA Ovarian(4;0.039)			11	26					0	0	0.013537	0	0		T	92624149	T	T	92624149	3	4	123	1	0	0	0	0	1	0	0	0	5705	893	31	1	13642	1	FAT3	11	92624149	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	4323778	92624149	42382367	402	68466											
GPR83	10888	broad.mit.edu	37	chr11	94113840	94113840	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gagatgatgaggaggggcagGatgtagagcaggatgaaggt	13	6	20	2	0	0	5	0	3	0	2	0	9	0	8	0	6	1	3	0	6	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:94113840G>C	uc001pet.2	-	4	919	c.747C>G	c.(745-747)ATC>ATG	p.I249M		NM_016540	NP_057624	Q9NYM4	GPR83_HUMAN	G protein-coupled receptor 83 precursor	249	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			central_nervous_system(2)|ovary(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				GGAGGGGCAGGATGTAGAGCA	0.557													9	31					0	0	0.004482	0	0		C	94113840	C	C	94113840	3	2	123	1	0	0	0	0	1	0	0	0	6728	1164	41	5	528	5	GPR83	11	94113840	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1489691	94113840	40892676	403	68467											
AMOTL1	154810	broad.mit.edu	37	chr11	94602566	94602566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccttcccagccgcggcCggctgagcacgacccctgct	4	6	10	21	4	0	1	0	1	0	0	2	2	2	1	7	2	3	3	7	2	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:94602566C>T	uc001pfb.2	+	12	2862	c.2692C>T	c.(2692-2694)CGG>TGG	p.R898W	AMOTL1_uc001pfc.2_Missense_Mutation_p.R848W	NM_130847	NP_570899	Q8IY63	AMOL1_HUMAN	angiomotin like 1	898						cytoplasm|tight junction	identical protein binding			ovary(1)|breast(1)	2		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				CAGCCGCGGCCGGCTGAGCAC	0.647													6	12					0	0	0.00308	0	0		T	94602566	T	T	94602566	3	4	123	1	0	0	0	0	1	0	0	0	583	643	23	1	2738	1	AMOTL1	11	94602566	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	488726	94602566	40403950	404	68468											
GRIA4	2893	broad.mit.edu	37	chr11	105845045	105845045	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatcccccctaggacaagacGagtgccttgagcctgagcaa	11	7	10	13	1	0	3	0	2	0	1	1	5	1	4	5	1	3	1	5	1	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:105845045G>A	uc001pix.2	+	16	2864	c.2418G>A	c.(2416-2418)ACG>ACA	p.T806T	GRIA4_uc001piw.2_Silent_p.T806T|GRIA4_uc010rvm.1_RNA|GRIA4_uc009yxl.1_RNA	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	806	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	AGGACAAGACGAGTGCCTTGA	0.448													15	160					0	0	0.028581	0	0		A	105845045	A	A	105845045	2	1	123	1	0	0	0	0	0	0	0	1	6786	1045	37	1		1	GRIA4	11	105845045	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	11242479	105845045	29161471	405	68469											
BUD13	84811	broad.mit.edu	37	chr11	116627916	116627916	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tattaaatctgttgggaggaGgtgctggaccactgtagcga	10	11	14	6	1	1	0	0	0	1	0	1	4	1	3	1	4	2	3	1	4	4	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:116627916G>T	uc001ppn.2	-	9	1746	c.1712C>A	c.(1711-1713)CCT>CAT	p.P571H	BUD13_uc001ppo.2_Missense_Mutation_p.P437H	NM_032725	NP_116114	Q9BRD0	BUD13_HUMAN	BUD13 homolog isoform 1	571										large_intestine(1)|pancreas(1)	2	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.81e-06)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.154)		GTTGGGAGGAGGTGCTGGACC	0.443													10	32					1.61879e-10	1.72308e-10	0.013537	1	0		T	116627916	T	T	116627916	3	4	123	1	0	0	0	0	1	0	0	0	1576	1000	35	5	155	5	BUD13	11	116627916	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	10782871	116627916	18378600	406	68470											
SCN4B	6330	broad.mit.edu	37	chr11	118014578	118014578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttggaggaagatggtggCgtggtgctggagattattct	8	12	17	4	1	1	2	0	0	1	2	1	6	1	4	0	6	1	1	0	6	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:118014578C>T	uc001pse.2	-	3	675	c.433G>A	c.(433-435)GCC>ACC	p.A145T	SCN4B_uc010rxu.1_Missense_Mutation_p.A35T|SCN4B_uc010rxv.1_Intron	NM_174934	NP_777594	Q8IWT1	SCN4B_HUMAN	sodium channel, voltage-gated, type IV, beta	145	Ig-like C2-type.|Extracellular (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;3.33e-05)|Epithelial(105;0.00126)		AAGATGGTGGCGTGGTGCTGG	0.547													9	41					0	0	0.010729	0	0		T	118014578	T	T	118014578	3	4	123	1	0	0	0	0	1	0	0	0	13946	768	27	1	265	1	SCN4B	11	118014578	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1386662	118014578	16991938	407	68471											
BCL9L	283149	broad.mit.edu	37	chr11	118773106	118773106	+	Frame_Shift_Del	DEL	G	-	-																															tgggtggctgctgggggggaGggggggcttgtgctggtggg																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:118773106delG	uc001pug.2	-	6	2311	c.1346delC	c.(1345-1347)CCTfs	p.P449fs	BCL9L_uc009zal.2_Frame_Shift_Del_p.P444fs	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	449	Pro-rich.|Necessary for interaction with CTNNB1 (By similarity).				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		CTGGGGGGGAGGGGGGGCTTG	0.667													8	17	---	---	---	---						.	-	118773106	-	-	118773106	7	5	123	1	0	1	0	1	0	0	0	0	1383	1000	35	0	3165	0	BCL9L	11	118773106	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	758528	118773106	16233410	408	68472											
HYOU1	10525	broad.mit.edu	37	chr11	118919812	118919812	+	Frame_Shift_Del	DEL	G	-	-																															ctcccttaggttcagggggtGggggctgagagccatcctcc																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:118919812delG	uc001puu.2	-	17	2103	c.1910delC	c.(1909-1911)CCAfs	p.P637fs	HYOU1_uc001put.2_Frame_Shift_Del_p.P602fs|HYOU1_uc010ryu.1_Intron|HYOU1_uc010ryv.1_Frame_Shift_Del_p.P526fs|HYOU1_uc001pux.3_Frame_Shift_Del_p.P637fs|HYOU1_uc010ryw.1_RNA|HYOU1_uc001puw.1_Frame_Shift_Del_p.P637fs	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	637	Poly-Pro.					endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)		TTCAGGGGGTGGGGGCTGAGA	0.607													25	57	---	---	---	---						.	-	118919812	-	-	118919812	7	5	123	1	0	1	0	1	0	0	0	0	7486	1348	47	0	1129	0	HYOU1	11	118919812	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	146706	118919812	16086704	409	68473											
TRIM29	23650	broad.mit.edu	37	chr11	119998088	119998088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgctatgcagctgctcccGggtctgcttgtcctcatgca	5	12	11	13	1	2	0	1	0	1	0	4	1	4	0	2	1	6	6	2	1	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:119998088G>A	uc001pwz.2	-	3	1214	c.1090C>T	c.(1090-1092)CGG>TGG	p.R364W	TRIM29_uc010rzi.1_Missense_Mutation_p.R103W|TRIM29_uc010rzj.1_Missense_Mutation_p.R97W|TRIM29_uc001pxa.2_RNA	NM_012101	NP_036233	Q14134	TRI29_HUMAN	tripartite motif protein TRIM29	364					transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(109;0.00117)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)		AGCTGCTCCCGGGTCTGCTTG	0.542													35	79					0	0	0.023175	0	0		A	119998088	A	A	119998088	3	1	123	1	0	0	0	0	1	0	0	0	16529	1115	39	1	704	1	TRIM29	11	119998088	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1078276	119998088	15008428	410	68474											
OR4D5	219875	broad.mit.edu	37	chr11	123811011	123811011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgctccgaagccactcaCgggagggccgcagcaaggcc	9	4	13	15	3	2	0	2	0	0	0	3	2	3	1	4	3	3	3	4	3	2	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:123811011C>T	uc001pzk.1	+	1	688	c.688C>T	c.(688-690)CGG>TGG	p.R230W		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	230	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		AAGCCACTCACGGGAGGGCCG	0.522													43	153					0	0	0.010771	0	0		T	123811011	T	T	123811011	3	4	123	1	0	0	0	0	1	0	0	0	11076	527	19	1	690	1	OR4D5	11	123811011	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3812923	123811011	11195505	411	68475											
OR8B2	26595	broad.mit.edu	37	chr11	124252647	124252647	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacccacaacaatgagaacaAccacctcgttgacataggtg	15	7	7	12	1	0	2	0	2	0	1	1	3	0	2	3	1	4	1	3	1	6	3	rs141277809		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr11:124252647A>G	uc010sai.1	-	1	593	c.593T>C	c.(592-594)GTT>GCT	p.V198A		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	198	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		AATGAGAACAACCACCTCGTT	0.433													37	83					0	0	0.027894	0	0		G	124252647	G	G	124252647	3	3	123	1	0	0	0	0	1	0	0	0	11246	43	2	3	351	3	OR8B2	11	124252647	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	441636	124252647	10753869	412	68476											
CACNA1C	775	broad.mit.edu	37	chr12	2675632	2675632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctgcagaaggaagtgccGcgccgcagtcaagtctaatg	10	8	13	10	3	3	1	1	0	2	1	3	2	3	2	2	1	2	3	2	1	4	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:2675632G>A	uc009zdu.1	+	12	1866	c.1553G>A	c.(1552-1554)CGC>CAC	p.R518H	CACNA1C_uc009zdv.1_Missense_Mutation_p.R515H|CACNA1C_uc001qkb.2_Missense_Mutation_p.R518H|CACNA1C_uc001qkc.2_Missense_Mutation_p.R518H|CACNA1C_uc001qke.2_Missense_Mutation_p.R518H|CACNA1C_uc001qkf.2_Missense_Mutation_p.R518H|CACNA1C_uc001qjz.2_Missense_Mutation_p.R518H|CACNA1C_uc001qkd.2_Missense_Mutation_p.R518H|CACNA1C_uc001qkg.2_Missense_Mutation_p.R518H|CACNA1C_uc009zdw.1_Missense_Mutation_p.R518H|CACNA1C_uc001qkh.2_Missense_Mutation_p.R518H|CACNA1C_uc001qkl.2_Missense_Mutation_p.R518H|CACNA1C_uc001qkn.2_Missense_Mutation_p.R518H|CACNA1C_uc001qko.2_Missense_Mutation_p.R518H|CACNA1C_uc001qkp.2_Missense_Mutation_p.R518H|CACNA1C_uc001qkr.2_Missense_Mutation_p.R518H|CACNA1C_uc001qku.2_Missense_Mutation_p.R518H|CACNA1C_uc001qkq.2_Missense_Mutation_p.R518H|CACNA1C_uc001qks.2_Missense_Mutation_p.R518H|CACNA1C_uc001qkt.2_Missense_Mutation_p.R518H|CACNA1C_uc001qka.1_Missense_Mutation_p.R53H|CACNA1C_uc001qki.1_Missense_Mutation_p.R254H|CACNA1C_uc001qkj.1_Missense_Mutation_p.R254H|CACNA1C_uc001qkk.1_Missense_Mutation_p.R254H|CACNA1C_uc001qkm.1_Missense_Mutation_p.R254H|CACNA1C_uc009zdy.1_Missense_Mutation_p.R183H|CACNA1C_uc001qkv.1_Missense_Mutation_p.R88H	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	518	II.|Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	AGGAAGTGCCGCGCCGCAGTC	0.567													5	11					0	0	0.021553	0	0		A	2675632	A	A	2675632	3	1	123	1	0	0	0	0	1	0	0	0	2543	1087	38	1	1707	1	CACNA1C	12	2675632	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		2675632	131176263	413	68477											
CHD4	1108	broad.mit.edu	37	chr12	6700658	6700658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggtcaatggcctcttgcCgcatgttcccagtgattcca	7	11	10	13	2	2	1	1	1	1	0	4	1	4	1	4	2	2	2	4	2	1	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:6700658C>T	uc001qpo.2	-	22	3478	c.3314G>A	c.(3313-3315)CGG>CAG	p.R1105Q	CHD4_uc001qpn.2_Missense_Mutation_p.R1098Q|CHD4_uc001qpp.2_Missense_Mutation_p.R1102Q	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1105	Helicase C-terminal.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						GGCCTCTTGCCGCATGTTCCC	0.433													36	70					0	0	0.019004	0	0		T	6700658	T	T	6700658	3	4	123	1	0	0	0	0	1	0	0	0	3330	652	23	1	2500	1	CHD4	12	6700658	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	4025026	6700658	127151237	414	68478											
C3AR1	719	broad.mit.edu	37	chr12	8212438	8212438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacagcgatccaggctaatgGcagtaagcaggaagacactg	14	5	13	9	1	0	1	0	0	0	1	1	4	1	2	1	3	2	4	1	3	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:8212438G>A	uc001qtv.1	-	2	436	c.344C>T	c.(343-345)GCC>GTC	p.A115V		NM_004054	NP_004045	Q16581	C3AR_HUMAN	complement component 3a receptor 1	115	Helical; Name=3; (Potential).				blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)		CAGGCTAATGGCAGTAAGCAG	0.517													24	51					0	0	0.01892	0	0		A	8212438	A	A	8212438	3	1	123	1	0	0	0	0	1	0	0	0	2208	1203	42	2	1108	2	C3AR1	12	8212438	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1511780	8212438	125639457	415	68479											
PLEKHA5	54477	broad.mit.edu	37	chr12	19475256	19475256	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taacctaggccaagttaagcCgattatgtgaacaagataaa	17	9	8	7	1	0	2	0	1	0	1	0	3	0	2	3	1	3	1	3	1	9	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:19475256C>T	uc001reb.2	+	14	2007	c.1921C>T	c.(1921-1923)CGA>TGA	p.R641*	PLEKHA5_uc010sie.1_Nonsense_Mutation_p.R744*|PLEKHA5_uc001rea.2_Nonsense_Mutation_p.R699*|PLEKHA5_uc009zin.2_Nonsense_Mutation_p.R399*|PLEKHA5_uc010sif.1_Nonsense_Mutation_p.R572*|PLEKHA5_uc010sig.1_Nonsense_Mutation_p.R560*|PLEKHA5_uc010sih.1_Nonsense_Mutation_p.R533*|PLEKHA5_uc001rec.1_Nonsense_Mutation_p.R387*|PLEKHA5_uc009zio.2_5'Flank	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	641							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					CAAGTTAAGCCGATTATGTGA	0.348													14	48					0	0	0.006122	0	0		T	19475256	T	T	19475256	4	4	123	1	0	0	0	0	0	1	0	0	12078	644	23	1	2100	1	PLEKHA5	12	19475256	Nonsense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	11262818	19475256	114376639	416	68480											
RECQL	5965	broad.mit.edu	37	chr12	21630862	21630862	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcagcccaattagtgatgCgttagggaactgccgcttta	10	11	11	9	2	1	1	1	1	0	0	1	2	1	2	2	1	4	2	2	1	5	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:21630862C>T	uc001rex.2	-	8	1090	c.742G>A	c.(742-744)GCA>ACA	p.A248T	RECQL_uc001rey.2_Missense_Mutation_p.A248T	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	248	Helicase ATP-binding.				DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						ATTAGTGATGCGTTAGGGAAC	0.358								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					30	58					0	0	0.025465	0	0		T	21630862	T	T	21630862	3	4	123	1	0	0	0	0	1	0	0	0	13226	768	27	1	1243	1	RECQL	12	21630862	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2155606	21630862	112221033	417	68481											
KRAS	3845	broad.mit.edu	37	chr12	25398284	25398284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcactcttgcctacgccaCcagctccaactaccacaagt	11	7	6	17	1	1	0	0	0	1	0	2	0	2	0	5	1	5	2	5	1	4	3	rs121913529		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:25398284C>T	uc001rgp.1	-	2	216	c.35G>A	c.(34-36)GGT>GAT	p.G12D	KRAS_uc001rgq.1_Missense_Mutation_p.G12D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12N(6)|p.G12G(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			GCCTACGCCACCAGCTCCAAC	0.348	G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			6	15					0	0	0.004482	0	0		T	25398284	T	T	25398284	3	4	123	1	0	0	0	0	1	0	0	0	8454	507	18	4	671	4	KRAS	12	25398284	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3767422	25398284	108453611	418	68482											
GXYLT1	283464	broad.mit.edu	37	chr12	42481685	42481686	+	Frame_Shift_Ins	INS	-	T	T																															tccacagtatgtatgcactgINSttttttgtagttccagttct																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:42481685_42481686insT	uc001rms.3	-	8	1450_1451	c.1225_1226insA	c.(1225-1227)ACAfs	p.T409fs	GXYLT1_uc001rmt.3_Frame_Shift_Ins_p.T378fs	NM_173601	NP_775872	Q4G148	GXLT1_HUMAN	glycosyltransferase 8 domain containing 3	409	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						TGTATGCACTGTTTTTTGTAGT	0.282													17	36	---	---	---	---						.	T	42481686	T	T	42481685	7	5	123	1	0	1	1	0	0	0	0	0	6919	1377	48	0	100	0	GXYLT1	12	42481685	Frame_Shift_Ins	INS	-	TCGA-CD-A4MJ-01A-11D-A25D-08	17083401	42481685	91370210	419	68483											
NELL2	4753	broad.mit.edu	37	chr12	45168556	45168556	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccttacagcatttgccaTccacatacgcaagagccgac	12	9	6	14	2	0	1	0	0	0	1	2	2	2	1	4	0	5	2	4	0	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:45168556T>C	uc001rog.2	-	9	1563	c.968A>G	c.(967-969)GAT>GGT	p.D323G	NELL2_uc001rof.3_Missense_Mutation_p.D322G|NELL2_uc001roh.2_Missense_Mutation_p.D323G|NELL2_uc009zkd.2_Missense_Mutation_p.D322G|NELL2_uc010skz.1_Missense_Mutation_p.D373G|NELL2_uc010sla.1_Missense_Mutation_p.D346G|NELL2_uc001roi.1_Missense_Mutation_p.D323G|NELL2_uc010slb.1_Missense_Mutation_p.D322G|NELL2_uc001roj.2_Missense_Mutation_p.D323G	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	323	VWFC 1.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		GCATTTGCCATCCACATACGC	0.368											OREG0021741	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	42					0	0	0.00499	0	0		C	45168556	C	C	45168556	3	2	123	1	0	0	0	0	1	0	0	0	10353	1435	50	3	1530	3	NELL2	12	45168556	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	2686871	45168556	88683339	420	68484											
DDN	23109	broad.mit.edu	37	chr12	49391874	49391874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcgccctccgtctgtcctgGctggagtcgcagctggggct	2	10	15	14	3	1	0	0	0	1	0	4	1	3	1	3	4	2	4	3	4	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:49391874G>A	uc001rsv.1	-	2	803	c.785C>T	c.(784-786)GCC>GTC	p.A262V	uc001rsw.2_5'Flank	NM_015086	NP_055901	O94850	DEND_HUMAN	dendrin	262						dendritic spine membrane|endoplasmic reticulum membrane|nucleus|perikaryon				large_intestine(1)	1						GTCTGTCCTGGCTGGAGTCGC	0.637													35	73					0	0	0.021022	0	0		A	49391874	A	A	49391874	3	1	123	1	0	0	0	0	1	0	0	0	4336	1203	42	2	1354	2	DDN	12	49391874	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4223318	49391874	84460021	421	68485											
MLL2	8085	broad.mit.edu	37	chr12	49435457	49435457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttctgcaccttgttgatgCggtgagctgcccggttatct	4	14	11	12	2	2	2	0	2	2	0	2	2	2	2	3	2	4	4	3	2	1	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:49435457C>T	uc001rta.3	-	30	6215	c.6215G>A	c.(6214-6216)CGC>CAC	p.R2072H		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2072					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTTGTTGATGCGGTGAGCTGC	0.607			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			3	17					0	0	0.004672	0	0		T	49435457	T	T	49435457	3	4	123	1	0	0	0	0	1	0	0	0	9639	768	27	1	10498	1	MLL2	12	49435457	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	43583	49435457	84416438	422	68486											
KCNH3	23416	broad.mit.edu	37	chr12	49948320	49948320	+	Frame_Shift_Del	DEL	G	-	-																															tcagctacaacctgggtgctGggggaggctctgcagaggtg																								rs143761616		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:49948320delG	uc001ruh.1	+	11	2379	c.2119delG	c.(2119-2121)GGGfs	p.G707fs	KCNH3_uc010smj.1_Frame_Shift_Del_p.G647fs	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	707	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						CCTGGGTGCTGGGGGAGGCTC	0.657													26	58	---	---	---	---						.	-	49948320	-	-	49948320	7	5	123	1	0	1	0	1	0	0	0	0	8049	1348	47	0	2161	0	KCNH3	12	49948320	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	512863	49948320	83903575	423	68487											
ACCN2	41	broad.mit.edu	37	chr12	50472315	50472315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcatcgactgtgagacgCgctacctggtggagaactgc	8	7	14	12	4	0	2	0	1	0	2	1	5	0	2	2	2	3	2	2	2	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:50472315C>T	uc001rvw.2	+	6	1178	c.949C>T	c.(949-951)CGC>TGC	p.R317C	ACCN2_uc001rvv.2_Missense_Mutation_p.R317C|ACCN2_uc009zln.2_Missense_Mutation_p.R108C|ACCN2_uc009zlo.2_Missense_Mutation_p.R317C	NM_001095	NP_001086	P78348	ACCN2_HUMAN	amiloride-sensitive cation channel 2, neuronal	317	Extracellular (By similarity).				calcium ion transport|response to pH|signal transduction	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(1)	1					Amiloride(DB00594)	CTGTGAGACGCGCTACCTGGT	0.612													64	115					0	0	0.01441	0	0		T	50472315	T	T	50472315	3	4	123	1	0	0	0	0	1	0	0	0	129	768	27	1	967	1	ACCN2	12	50472315	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	523995	50472315	83379580	424	68488											
KRT83	3889	broad.mit.edu	37	chr12	52714736	52714736	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatccaggacgacacccacCttgtcgatgaaggccgcgaa	11	6	11	13	4	0	2	0	2	0	0	2	6	1	3	4	2	0	0	4	2	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:52714736C>A	uc001saf.2	-	1	447	c.384G>T	c.(382-384)AAG>AAT	p.K128N		NM_002282	NP_002273	P78385	KRT83_HUMAN	keratin 83	128	Rod.|Coil 1A.				epidermis development	keratin filament	structural molecule activity			skin(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		CGACACCCACCTTGTCGATGA	0.562													59	98					5.10652e-33	5.76466e-33	0.01441	1	0		A	52714736	A	A	52714736	3	1	123	1	0	0	0	0	1	0	0	0	8513	695	24	5	1133	5	KRT83	12	52714736	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2242421	52714736	81137159	425	68489											
KRT4	3851	broad.mit.edu	37	chr12	53207948	53207948	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtcctggagcagcagggCttggttgcaggggcataaag	9	9	16	7	0	0	0	0	0	0	0	1	1	1	1	1	5	3	6	1	5	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:53207948C>T	uc001saz.2	-	1	388	c.117G>A	c.(115-117)AAG>AAA	p.K39K		NM_002272	NP_002263	B4DRS2	B4DRS2_HUMAN	keratin 4	Error:Variant_position_missing_in_B4DRS2_after_alignment						keratin filament	structural molecule activity			ovary(4)|skin(2)	6						AGCAGCAGGGCTTGGTTGCAG	0.567													23	41					0	0	0.012319	0	0		T	53207948	T	T	53207948	2	4	123	1	0	0	0	0	0	0	0	1	8493	796	28	2		2	KRT4	12	53207948	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	493212	53207948	80643947	426	68490											
NCKAP1L	3071	broad.mit.edu	37	chr12	54911711	54911711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgatgctcttgtgctcagtGacatcattcaggtatgatat	9	16	9	7	0	4	3	3	3	1	0	4	3	4	3	0	1	2	3	0	1	2	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:54911711G>A	uc001sgc.3	+	13	1406	c.1327G>A	c.(1327-1329)GAC>AAC	p.D443N	NCKAP1L_uc010sox.1_5'UTR|NCKAP1L_uc010soy.1_Missense_Mutation_p.D393N	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	443					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						TGTGCTCAGTGACATCATTCA	0.403													37	77					0	0	0.009718	0	0		A	54911711	A	A	54911711	3	1	123	1	0	0	0	0	1	0	0	0	10241	1290	45	4	1377	4	NCKAP1L	12	54911711	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1703763	54911711	78940184	427	68491											
ZC3H10	84872	broad.mit.edu	37	chr12	56514888	56514888	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggctcaacaggctcagTcctcccaggacgacgtcatg	8	7	13	13	2	3	0	3	0	0	0	5	2	5	1	2	4	1	2	2	4	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:56514888T>C	uc001sjp.1	+	3	731	c.542T>C	c.(541-543)GTC>GCC	p.V181A		NM_032786	NP_116175	Q96K80	ZC3HA_HUMAN	zinc finger CCCH-type containing 10	181							nucleic acid binding|zinc ion binding				0			OV - Ovarian serous cystadenocarcinoma(18;0.12)			ACAGGCTCAGTCCTCCCAGGA	0.572													38	61					0	0	0.01441	0	0		C	56514888	C	C	56514888	3	2	123	1	0	0	0	0	1	0	0	0	17584	1667	58	3	544	3	ZC3H10	12	56514888	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1603177	56514888	77337007	428	68492											
TIMELESS	8914	broad.mit.edu	37	chr12	56817448	56817448	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcttcctcctcctcctcCtcttcttcttcctctgcccc	0	17	1	23	0	5	0	0	0	5	0	12	0	12	0	9	0	1	0	9	0	0	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:56817448C>T	uc001slf.2	-	17	2178	c.2010G>A	c.(2008-2010)GAG>GAA	p.E670E		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	670	Glu-rich.				cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						cctcctcctcctcttcttctt	0.418													9	29					0	0	0.004482	0	0		T	56817448	T	T	56817448	2	4	123	1	0	0	0	0	0	0	0	1	15929	680	24	4		4	TIMELESS	12	56817448	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	302560	56817448	77034447	429	68493											
NAB2	4665	broad.mit.edu	37	chr12	57485177	57485177	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcttcagtcaaccagtgcCtgctgttcccgtctccagca	6	11	8	16	1	4	0	2	0	2	0	6	0	5	0	4	0	4	4	4	0	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:57485177C>A	uc001smz.2	+	2	731	c.353C>A	c.(352-354)CCT>CAT	p.P118H		NM_005967	NP_005958	Q15742	NAB2_HUMAN	NGFI-A binding protein 2	118					cell proliferation|negative regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	transcription corepressor activity			upper_aerodigestive_tract(1)|ovary(1)	2						CAACCAGTGCCTGCTGTTCCC	0.612													57	94					8.72158e-25	9.68029e-25	0.01441	1	0		A	57485177	A	A	57485177	3	1	123	1	0	0	0	0	1	0	0	0	10150	681	24	5	359	5	NAB2	12	57485177	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	667729	57485177	76366718	430	68494											
SHMT2	6472	broad.mit.edu	37	chr12	57627591	57627591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagggcctggatggagctCgggctgagcgggtgctagag	7	6	19	9	2	0	2	0	1	0	1	1	4	0	4	2	5	3	3	2	5	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:57627591C>T	uc001snf.1	+	10	1193	c.1183C>T	c.(1183-1185)CGG>TGG	p.R395W	SHMT2_uc001sng.1_Missense_Mutation_p.R291W|SHMT2_uc001snh.1_Missense_Mutation_p.R234W|SHMT2_uc009zpk.1_Missense_Mutation_p.R385W|SHMT2_uc001sni.1_Missense_Mutation_p.R374W|SHMT2_uc010srg.1_Missense_Mutation_p.R404W|SHMT2_uc001snj.1_Missense_Mutation_p.R299W|SHMT2_uc010srh.1_Missense_Mutation_p.R374W|SHMT2_uc001snk.1_Missense_Mutation_p.R299W|SHMT2_uc010sri.1_Missense_Mutation_p.R374W|SHMT2_uc001snl.2_Missense_Mutation_p.R299W|SHMT2_uc010srj.1_Missense_Mutation_p.R50W	NM_005412	NP_005403	P34897	GLYM_HUMAN	serine hydroxymethyltransferase 2	395						microtubule cytoskeleton|mitochondrial nucleoid	glycine hydroxymethyltransferase activity|methyltransferase activity			ovary(1)|central_nervous_system(1)	2					Glycine(DB00145)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	GGATGGAGCTCGGGCTGAGCG	0.612													9	66					0	0	0.004482	0	0		T	57627591	T	T	57627591	3	4	123	1	0	0	0	0	1	0	0	0	14311	875	31	1	1221	1	SHMT2	12	57627591	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	142414	57627591	76224304	431	68495											
MBD6	114785	broad.mit.edu	37	chr12	57919678	57919678	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccctgggaggggcccccacGgtggaggggcctggggcacc	4	3	19	15	1	0	0	0	0	0	0	0	2	0	2	6	9	0	1	6	9	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:57919678G>A	uc001soj.1	+	6	1151	c.927G>A	c.(925-927)ACG>ACA	p.T309T	MBD6_uc001sok.1_Silent_p.T176T|MBD6_uc001sol.1_5'Flank	NM_052897	NP_443129	Q96DN6	MBD6_HUMAN	methyl-CpG binding domain protein 6	309	Pro-rich.					chromosome|nucleus	chromatin binding|DNA binding			central_nervous_system(3)|ovary(1)	4						GGGCCCCCACGGTGGAGGGGC	0.672													27	33					0	0	0.008361	0	0		A	57919678	A	A	57919678	2	1	123	1	0	0	0	0	0	0	0	1	9366	1103	39	1		1	MBD6	12	57919678	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	292087	57919678	75932217	432	68496											
C12orf56	115749	broad.mit.edu	37	chr12	64664463	64664463	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgaaagacccctcaccActtgtttcacaatactggcc	12	9	6	14	0	2	2	2	1	0	1	2	2	2	2	4	1	2	2	4	1	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:64664463A>G	uc001ssa.3	-	10	1136	c.1136T>C	c.(1135-1137)GTG>GCG	p.V379A	uc001srx.2_Intron|C12orf56_uc001sry.2_Missense_Mutation_p.V121A|C12orf56_uc001srz.2_Missense_Mutation_p.V21A	NM_001099676	NP_001093146	Q8IXR9	CL056_HUMAN	hypothetical protein LOC115749	542											0			GBM - Glioblastoma multiforme(3;0.000582)	GBM - Glioblastoma multiforme(28;0.0259)		ACCCCTCACCACTTGTTTCAC	0.463													18	44					0	0	0.010504	0	0		G	64664463	G	G	64664463	3	3	123	1	0	0	0	0	1	0	0	0	1703	159	6	3	260	3	C12orf56	12	64664463	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	6744785	64664463	69187432	433	68497											
FGD6	55785	broad.mit.edu	37	chr12	95486597	95486599	+	In_Frame_Del	DEL	CTT	-	-																															cttcgatccaagaggactaaCttcttctttattttctgagt																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:95486597_95486599delCTT	uc001tdp.3	-	16	3847_3849	c.3623_3625delAAG	c.(3622-3627)GAAGTT>GTT	p.E1208del	FGD6_uc009zsx.2_In_Frame_Del_p.E341del|FGD6_uc001tdq.1_In_Frame_Del_p.E244del	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	1208					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						AGAGGACTAACTTCTTCTTTATT	0.463													7	16	---	---	---	---						.	-	95486599	-	-	95486597	7	5	123	1	0	1	0	1	0	0	0	0	5851	565	20	0	691	0	FGD6	12	95486597	In_Frame_Del	DEL	CTT	TCGA-CD-A4MJ-01A-11D-A25D-08	30822134	95486597	38365298	434	68498											
PAH	5053	broad.mit.edu	37	chr12	103249064	103249064	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgaacactgtgccccatgTtttcttttcttcctccatgt	5	18	5	13	0	2	1	0	1	2	0	4	1	4	1	4	0	2	1	4	0	1	6	rs62507328		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:103249064T>G	uc001tjq.1	-	7	1028	c.556A>C	c.(556-558)ACA>CCA	p.T186P	PAH_uc010swc.1_Missense_Mutation_p.T186P	NM_000277	NP_000268	P00439	PH4H_HUMAN	phenylalanine hydroxylase	186					catecholamine biosynthetic process|L-phenylalanine catabolic process|neurotransmitter biosynthetic process	cytosol	phenylalanine 4-monooxygenase activity			ovary(4)	4					Epinephrine(DB00668)|L-Phenylalanine(DB00120)|Levodopa(DB01235)|Norepinephrine(DB00368)|Tetrahydrobiopterin(DB00360)	GTGCCCCATGTTTTCTTTTCT	0.458													16	32					0	0	0.006122	0	0		G	103249064	G	G	103249064	3	3	123	1	0	0	0	0	1	0	0	0	11413	1725	60	5	834	5	PAH	12	103249064	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	7762467	103249064	30602831	435	68499											
CRY1	1407	broad.mit.edu	37	chr12	107393531	107393531	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatctgaacacagatagggTttccttccattttatcaaag	13	13	7	8	0	2	2	1	1	1	1	4	3	4	2	2	1	1	1	2	1	5	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:107393531T>G	uc001tmi.3	-	7	1794	c.935A>C	c.(934-936)AAC>ACC	p.N312T		NM_004075	NP_004066	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	312	FAD-binding.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			ovary(3)	3						ACAGATAGGGTTTCCTTCCAT	0.448													10	35					0	0	0.010729	0	0		G	107393531	G	G	107393531	3	3	123	1	0	0	0	0	1	0	0	0	3906	1725	60	5	849	5	CRY1	12	107393531	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	4144467	107393531	26458364	436	68500											
WSCD2	9671	broad.mit.edu	37	chr12	108626520	108626520	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcagacaaccgttgcaTggacagaaggttcctgccag	10	10	10	11	1	1	2	1	0	0	2	2	3	2	3	3	2	3	3	3	2	2	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:108626520T>C	uc001tms.2	+	7	1736	c.992T>C	c.(991-993)ATG>ACG	p.M331T	WSCD2_uc001tmt.2_Missense_Mutation_p.M331T|WSCD2_uc001tmu.2_Missense_Mutation_p.M79T	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	331						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						AACCGTTGCATGGACAGAAGG	0.333													5	16					0	0	0.001984	0	0		C	108626520	C	C	108626520	3	2	123	1	0	0	0	0	1	0	0	0	17433	1464	51	3	1014	3	WSCD2	12	108626520	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1232989	108626520	25225375	437	68501											
SSH1	54434	broad.mit.edu	37	chr12	109182492	109182492	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgatggactcctggtgctGcatcaggtagctgttggttg	7	13	14	7	0	1	1	1	1	0	0	2	2	2	2	1	4	3	6	1	4	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:109182492G>A	uc001tnm.2	-	15	2509	c.2422C>T	c.(2422-2424)CAG>TAG	p.Q808*	SSH1_uc001tnl.2_Nonsense_Mutation_p.Q496*	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	808					actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						TCCTGGTGCTGCATCAGGTAG	0.542													32	61					0	0	0.013726	0	0		A	109182492	A	A	109182492	4	1	123	1	0	0	0	0	0	1	0	0	15209	1328	46	2	731	2	SSH1	12	109182492	Nonsense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	555972	109182492	24669403	438	68502											
UNG	7374	broad.mit.edu	37	chr12	109539760	109539760	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggacctaatcaagctcaCgggctctgctttagtgttca	9	12	9	11	1	4	0	3	0	1	0	4	1	4	1	1	2	2	4	1	2	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:109539760C>A	uc001tnz.1	+	4	559	c.489C>A	c.(487-489)CAC>CAA	p.H163Q	UNG_uc001toa.1_Missense_Mutation_p.H154Q	NM_080911	NP_550433	P13051	UNG_HUMAN	uracil-DNA glycosylase isoform UNG2	163					base-excision repair|interspecies interaction between organisms	mitochondrion|nucleus	protein binding|uracil DNA N-glycosylase activity			lung(1)|central_nervous_system(1)	2						ATCAAGCTCACGGGCTCTGCT	0.488								BER_DNA_glycosylases	Immune_Deficiency_with_Hyper-IgM				19	48					5.35356e-11	5.71518e-11	0.016522	1	0		A	109539760	A	A	109539760	3	1	123	1	0	0	0	0	1	0	0	0	17025	535	19	5	608	5	UNG	12	109539760	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	357268	109539760	24312135	439	68503											
IFT81	28981	broad.mit.edu	37	chr12	110600774	110600774	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagctgaggaacttcaggaGgccaaggagaagttagccag	15	5	14	7	0	1	2	1	1	0	1	1	5	1	4	2	4	3	2	2	4	5	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:110600774G>T	uc001tqi.2	+	11	1222	c.1092G>T	c.(1090-1092)GAG>GAT	p.E364D	IFT81_uc001tqh.2_Missense_Mutation_p.E364D|IFT81_uc001tqj.2_RNA|IFT81_uc001tqg.2_Missense_Mutation_p.E364D	NM_001143779	NP_001137251	Q8WYA0	IFT81_HUMAN	intraflagellar transport 81-like isoform 1	364	Potential.				cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1						AACTTCAGGAGGCCAAGGAGA	0.388													7	94					1.6384e-10	1.7414e-10	0.001984	1	0		T	110600774	T	T	110600774	3	4	123	1	0	0	0	0	1	0	0	0	7581	991	35	5	1130	5	IFT81	12	110600774	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1061014	110600774	23251121	440	68504											
SRRM4	84530	broad.mit.edu	37	chr12	119592154	119592154	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaagcgccggagagacTccccgagccacctggaggcc	10	3	14	14	3	0	2	0	1	0	2	1	7	1	4	6	3	2	0	6	3	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:119592154T>A	uc001txa.1	+	12	1790	c.1498T>A	c.(1498-1500)TCC>ACC	p.S500T		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	500	Ser-rich.|Arg-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						CCGGAGAGACTCCCCGAGCCA	0.627													4	24					0	0	0.014758	0	0		A	119592154	A	A	119592154	3	1	123	1	0	0	0	0	1	0	0	0	15196	1551	54	5	1544	5	SRRM4	12	119592154	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	8991380	119592154	14259741	441	68505											
COQ5	84274	broad.mit.edu	37	chr12	120954554	120954554	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttctgttttctctgatgctgGgactgaacataattaaggaa	11	15	9	6	0	2	2	0	2	2	0	3	4	2	4	0	2	2	2	0	2	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:120954554G>A	uc001tyn.2	-	3	410	c.390C>T	c.(388-390)TCC>TCT	p.S130S	COQ5_uc001tyo.2_Silent_p.S49S|COQ5_uc010szj.1_Intron	NM_032314	NP_115690	Q5HYK3	COQ5_HUMAN	coenzyme Q5 homolog, methyltransferase	130					ubiquinone biosynthetic process	mitochondrion	methyltransferase activity			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCTGATGCTGGGACTGAACAT	0.418													55	138					0	0	0.01441	0	0		A	120954554	A	A	120954554	2	1	123	1	0	0	0	0	0	0	0	1	3751	1219	43	4		4	COQ5	12	120954554	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1362400	120954554	12897341	442	68506											
IL31	386653	broad.mit.edu	37	chr12	122657233	122657233	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcggctgggcgtcagggCtgagacacggcagcgtgtaa	7	7	18	9	4	1	1	1	1	0	1	1	2	1	1	0	5	1	4	0	5	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:122657233C>A	uc001ubv.2	-	3	248	c.221G>T	c.(220-222)AGC>ATC	p.S74I	LRRC43_uc001ubw.3_Intron|LRRC43_uc009zxl.1_Intron	NM_001014336	NP_001014358	Q6EBC2	IL31_HUMAN	interleukin 31 precursor	74						extracellular space	cytokine activity			central_nervous_system(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;6.93e-05)|Breast(359;0.0544)		OV - Ovarian serous cystadenocarcinoma(86;3.27e-29)|Epithelial(86;4.86e-27)|BRCA - Breast invasive adenocarcinoma(302;0.223)		GGCGTCAGGGCTGAGACACGG	0.522													15	28					6.31663e-08	6.57907e-08	0.024245	1	0		A	122657233	A	A	122657233	3	1	123	1	0	0	0	0	1	0	0	0	7706	797	28	5	277	5	IL31	12	122657233	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1702679	122657233	11194662	443	68507											
KNTC1	9735	broad.mit.edu	37	chr12	123087620	123087620	+	Frame_Shift_Del	DEL	A	-	-																															tacagcaaaacacgttttcgAaaaaaaactgaagccaaagc																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:123087620delA	uc001ucv.2	+	48	5094	c.4931delA	c.(4930-4932)GAAfs	p.E1644fs	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	1644					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		CACGTTTTCGAAAAAAAACTG	0.388													15	29	---	---	---	---						.	-	123087620	-	-	123087620	7	5	123	1	0	1	0	1	0	0	0	0	8444	246	9	0	5117	0	KNTC1	12	123087620	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	430387	123087620	10764275	444	68508											
GPR81	27198	broad.mit.edu	37	chr12	123214864	123214864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatggtgtccccctcgatgCggcagcacgacccgttgtac	7	8	12	14	4	0	1	0	0	0	1	2	3	1	1	3	2	3	4	3	2	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:123214864C>T	uc001ucz.2	-	1	266	c.23G>A	c.(22-24)CGC>CAC	p.R8H	GPR81_uc001ucw.1_RNA	NM_032554	NP_115943	Q9BXC0	HCAR1_HUMAN	G protein-coupled receptor 81	8	Extracellular (Potential).				response to estradiol stimulus	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.14e-05)|Epithelial(86;3.25e-05)|BRCA - Breast invasive adenocarcinoma(302;0.197)		CCCCTCGATGCGGCAGCACGA	0.622													5	31					0	0	0.014758	0	0		T	123214864	T	T	123214864	3	4	123	1	0	0	0	0	1	0	0	0	6726	768	27	1	1021	1	GPR81	12	123214864	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	127244	123214864	10637031	445	68509											
VPS37B	79720	broad.mit.edu	37	chr12	123351918	123351918	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggatgcgccgaggtgcaacGgcaggaggcccactggcctc	7	4	17	13	3	0	0	0	0	0	0	1	3	0	2	3	6	3	2	3	6	1	0	rs138907975	by1000genomes	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:123351918G>A	uc001udl.2	-	4	706	c.603C>T	c.(601-603)GCC>GCT	p.A201A		NM_024667	NP_078943	Q9H9H4	VP37B_HUMAN	vacuolar protein sorting 37B	201	Pro-rich.				cellular membrane organization|endosome transport|protein transport	late endosome membrane					0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.08e-05)|Epithelial(86;0.000197)|BRCA - Breast invasive adenocarcinoma(302;0.205)		GAGGTGCAACGGCAGGAGGCC	0.731													12	19					0	0	0.020292	0	0		A	123351918	A	A	123351918	2	1	123	1	0	0	0	0	0	0	0	1	17232	1103	39	1		1	VPS37B	12	123351918	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	137054	123351918	10499977	446	68510											
SETD8	387893	broad.mit.edu	37	chr12	123875278	123875278	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagaactcagttacacaTcacgaagtcaaatgccaggg	16	6	10	9	1	3	1	3	0	0	1	3	4	3	1	1	1	3	1	1	1	5	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:123875278T>C	uc001uew.2	+	3	276	c.234T>C	c.(232-234)CAT>CAC	p.H78H	SETD8_uc001uex.2_Silent_p.H13H	NM_020382	NP_065115	Q9NQR1	SETD8_HUMAN	SET domain-containing 8	119					cell division|mitosis|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine monomethylation|regulation of DNA damage response, signal transduction by p53 class mediator|transcription, DNA-dependent	chromosome|nucleus	histone-lysine N-methyltransferase activity|p53 binding|transcription corepressor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.00101)|Epithelial(86;0.00425)		CAGTTACACATCACGAAGTCA	0.478													24	64					0	0	0.016522	0	0		C	123875278	C	C	123875278	2	2	123	1	0	0	0	0	0	0	0	1	14162	1432	50	3		3	SETD8	12	123875278	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	523360	123875278	9976617	447	68511											
DHX37	57647	broad.mit.edu	37	chr12	125451349	125451349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacgtacctcagcccgcGccttcttggccctggccctt	3	9	8	21	3	2	0	1	0	1	0	2	0	2	0	7	2	2	1	7	2	1	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:125451349G>A	uc001ugy.2	-	12	1679	c.1580C>T	c.(1579-1581)GCG>GTG	p.A527V		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	527	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		CTCAGCCCGCGCCTTCTTGGC	0.443													38	83					0	0	0.027894	0	0		A	125451349	A	A	125451349	3	1	123	1	0	0	0	0	1	0	0	0	4516	1087	38	1	1957	1	DHX37	12	125451349	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1576071	125451349	8400546	448	68512											
AACS	65985	broad.mit.edu	37	chr12	125603191	125603191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctcctgtctttgcaggtcgGctggatgatgtggaactgga	6	12	14	9	1	1	1	0	1	1	0	3	4	2	4	2	5	2	2	2	5	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:125603191G>A	uc001uhc.2	+	10	1207	c.1001G>A	c.(1000-1002)GGC>GAC	p.G334D	AACS_uc001uhd.2_Missense_Mutation_p.G334D|AACS_uc009zyh.2_RNA|AACS_uc009zyi.2_5'UTR	NM_023928	NP_076417	Q86V21	AACS_HUMAN	acetoacetyl-CoA synthetase	334					fatty acid metabolic process	cytosol	acetoacetate-CoA ligase activity|ATP binding			ovary(1)|liver(1)|central_nervous_system(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;9.82e-05)|Epithelial(86;0.000642)|all cancers(50;0.00843)		TTGCAGGTCGGCTGGATGATG	0.642													7	27					0	0	0.008291	0	0		A	125603191	A	A	125603191	3	1	123	1	0	0	0	0	1	0	0	0	9	1203	42	2	1039	2	AACS	12	125603191	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	151842	125603191	8248704	449	68513											
RIMBP2	23504	broad.mit.edu	37	chr12	130929709	130929709	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttccaacagagaccttcAtagaacccatcctcatccat	13	10	4	14	0	2	2	2	0	0	2	5	3	5	2	5	0	2	1	5	0	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:130929709A>T	uc001uil.2	-	7	800	c.636T>A	c.(634-636)TAT>TAA	p.Y212*	RIMBP2_uc001uim.2_Nonsense_Mutation_p.Y120*|RIMBP2_uc001uin.1_5'Flank	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	212	SH3 1.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		AGAGACCTTCATAGAACCCAT	0.592													30	81					0	0	0.012213	0	0		T	130929709	T	T	130929709	4	4	123	1	0	0	0	0	0	1	0	0	13388	224	8	5	2574	5	RIMBP2	12	130929709	Nonsense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	5326518	130929709	2922186	450	68514											
MMP17	4326	broad.mit.edu	37	chr12	132334532	132334532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacgaggcacatggaccccGgctaccccgcccagagcccc	9	2	10	20	3	0	1	0	0	0	1	0	3	0	2	7	3	2	2	7	3	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:132334532G>A	uc001ujc.1	+	9	1489	c.1390G>A	c.(1390-1392)GGC>AGC	p.G464S	MMP17_uc001ujd.1_Missense_Mutation_p.G380S	NM_016155	NP_057239	Q9ULZ9	MMP17_HUMAN	matrix metalloproteinase 17 preproprotein	464	Hemopexin-like 3.				proteolysis	anchored to membrane|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.82e-07)|Epithelial(86;1.51e-06)|all cancers(50;2.35e-05)		CATGGACCCCGGCTACCCCGC	0.647													19	60					0	0	0.008871	0	0		A	132334532	A	A	132334532	3	1	123	1	0	0	0	0	1	0	0	0	9674	1116	39	1	1424	1	MMP17	12	132334532	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1404823	132334532	1517363	451	68515											
NOC4L	79050	broad.mit.edu	37	chr12	132636060	132636060	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacctggtggccgccttcGccaagcggctggcccgcctg	3	7	13	18	4	0	0	0	0	0	0	1	0	0	0	7	4	2	1	7	4	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:132636060G>A	uc001ujz.1	+	12	1146	c.1105G>A	c.(1105-1107)GCC>ACC	p.A369T		NM_024078	NP_076983	Q9BVI4	NOC4L_HUMAN	nucleolar complex associated 4 homolog	369					rRNA processing	integral to membrane|nuclear membrane|nucleolus	protein binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.2e-08)|Epithelial(86;3.34e-07)|all cancers(50;1.97e-05)		GGCCGCCTTCGCCAAGCGGCT	0.721													7	16					0	0	0.008291	0	0		A	132636060	A	A	132636060	3	1	123	1	0	0	0	0	1	0	0	0	10534	1087	38	1	1151	1	NOC4L	12	132636060	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	301528	132636060	1215835	452	68516											
GOLGA3	2802	broad.mit.edu	37	chr12	133372463	133372463	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatttgatagctaattctTctcttaacttctctaaagtt	10	18	5	8	1	3	1	0	1	3	0	5	2	3	2	0	1	2	2	0	1	5	9			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr12:133372463T>C	uc001ukz.1	-	11	3003	c.2444A>G	c.(2443-2445)GAA>GGA	p.E815G	GOLGA3_uc001ula.1_Missense_Mutation_p.E815G|GOLGA3_uc001ulb.2_Missense_Mutation_p.E815G	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	815	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		AGCTAATTCTTCTCTTAACTT	0.438													57	126					0	0	0.01441	0	0		C	133372463	C	C	133372463	3	2	123	1	0	0	0	0	1	0	0	0	6569	1783	62	3	2246	3	GOLGA3	12	133372463	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	736403	133372463	479432	453	68517											
RNF17	56163	broad.mit.edu	37	chr13	25425604	25425604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcactacaggaaaacaacaCaacatggccattacctgtga	17	7	6	11	0	1	1	1	1	0	0	1	2	1	2	2	2	5	0	2	2	6	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:25425604C>T	uc001upr.2	+	24	3256	c.3215C>T	c.(3214-3216)ACA>ATA	p.T1072I	RNF17_uc010tdd.1_Missense_Mutation_p.T931I|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.T1068I|RNF17_uc001ups.2_Missense_Mutation_p.T1011I|RNF17_uc010aac.2_Missense_Mutation_p.T270I|RNF17_uc010aad.2_Missense_Mutation_p.T124I	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	1072					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		GAAAACAACACAACATGGCCA	0.338													4	51					0	0	0.009096	0	0		T	25425604	T	T	25425604	3	4	123	1	0	0	0	0	1	0	0	0	13486	478	17	4	3309	4	RNF17	13	25425604	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08		25425604	89744274	454	68518											
RNF17	56163	broad.mit.edu	37	chr13	25444862	25444862	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaggcgcttcctcctctgAcggattttagaacaggtata	10	12	10	9	2	1	3	0	1	1	2	3	4	3	4	2	3	1	2	2	3	5	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:25444862A>G	uc001upr.2	+	32	4473	c.4432A>G	c.(4432-4434)ACG>GCG	p.T1478A	RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.T1474A|RNF17_uc001ups.2_Missense_Mutation_p.T1417A|RNF17_uc010aac.2_Missense_Mutation_p.T670A|RNF17_uc010aad.2_Missense_Mutation_p.T488A	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	1478					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		TCCTCCTCTGACGGATTTTAG	0.423													16	30					0	0	0.028581	0	0		G	25444862	G	G	25444862	3	3	123	1	0	0	0	0	1	0	0	0	13486	275	10	3	4558	3	RNF17	13	25444862	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	19258	25444862	89725016	455	68519											
BRCA2	675	broad.mit.edu	37	chr13	32937540	32937540	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaaggcccagttagatcCtcccctcttagctgtcttaa	8	14	7	12	0	2	1	0	0	2	1	4	1	4	1	4	1	1	3	4	1	4	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:32937540C>A	uc001uub.1	+	18	8428	c.8201C>A	c.(8200-8202)CCT>CAT	p.P2734H		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2734					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		CAGTTAGATCCTCCCCTCTTA	0.443			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			6	113					8.12818e-05	8.2646e-05	0.001984	1	0		A	32937540	A	A	32937540	3	1	123	1	0	0	0	0	1	0	0	0	1502	681	24	5	8267	5	BRCA2	13	32937540	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	7492678	32937540	82232338	456	68520											
NBEA	26960	broad.mit.edu	37	chr13	35738543	35738543	+	Frame_Shift_Del	DEL	T	-	-																															caatagcaatgaaaatattaTttttgtacataacacaattc																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:35738543delT	uc001uvb.2	+	25	4336	c.4130delT	c.(4129-4131)ATTfs	p.I1377fs	NBEA_uc010abi.2_Frame_Shift_Del_p.I68fs	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1377						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GAAAATATTATTTTTGTACAT	0.328													5	4	---	---	---	---						.	-	35738543	-	-	35738543	7	5	123	1	0	1	0	1	0	0	0	0	10205	1493	52	0	4224	0	NBEA	13	35738543	Frame_Shift_Del	DEL	T	TCGA-CD-A4MJ-01A-11D-A25D-08	2801003	35738543	79431335	457	68521											
ALG5	29880	broad.mit.edu	37	chr13	37567776	37567776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttactgccatcatcaactaCtatcacttcataagtgaacg	13	13	4	11	1	4	1	4	1	0	0	4	1	4	1	1	0	5	0	1	0	6	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:37567776C>T	uc001uvy.2	-	4	386	c.319G>A	c.(319-321)GTA>ATA	p.V107I	ALG5_uc010teq.1_Intron|ALG5_uc010ter.1_RNA	NM_013338	NP_037470	Q9Y673	ALG5_HUMAN	dolichyl-phosphate beta-glucosyltransferase	107	Lumenal (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate beta-glucosyltransferase activity|oligosaccharyl transferase activity				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)		all cancers(112;5.79e-07)|Epithelial(112;1.81e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00785)|BRCA - Breast invasive adenocarcinoma(63;0.0127)|GBM - Glioblastoma multiforme(144;0.0472)		TCATCAACTACTATCACTTCA	0.318													32	79					0	0	0.027894	0	0		T	37567776	T	T	37567776	3	4	123	1	0	0	0	0	1	0	0	0	521	565	20	4	683	4	ALG5	13	37567776	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1829233	37567776	77602102	458	68522											
ZC3H13	23091	broad.mit.edu	37	chr13	46543969	46543969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttcctgttcttcgtagcGccttgaactctctttccttt	4	18	7	12	2	2	1	0	1	2	0	6	2	4	1	3	0	2	3	3	0	2	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:46543969G>A	uc010tfw.1	-	13	2716	c.2710C>T	c.(2710-2712)CGC>TGC	p.R904C	ZC3H13_uc001vaq.2_5'Flank|ZC3H13_uc001vas.1_Missense_Mutation_p.R904C|ZC3H13_uc001vat.1_Missense_Mutation_p.R904C	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	904							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		TCTTCGTAGCGCCTTGAACTC	0.453													25	249					0	0	0.009535	0	0		A	46543969	A	A	46543969	3	1	123	1	0	0	0	0	1	0	0	0	17590	1087	38	1	2000	1	ZC3H13	13	46543969	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	8976193	46543969	68625909	459	68523											
WDFY2	115825	broad.mit.edu	37	chr13	52332350	52332350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacccacagccaccttcCatgacagtaaacataacatt	14	8	5	14	0	0	1	0	1	0	0	1	1	1	1	4	0	4	2	4	0	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:52332350C>T	uc001vfp.2	+	11	1427	c.1087C>T	c.(1087-1089)CAT>TAT	p.H363Y		NM_052950	NP_443182	Q96P53	WDFY2_HUMAN	WD repeat and FYVE domain containing 2	363							metal ion binding				0		Breast(56;0.000208)|Lung NSC(96;0.000517)|Prostate(109;0.0041)|Hepatocellular(98;0.0652)|Myeloproliferative disorder(33;0.164)|all_neural(104;0.191)		GBM - Glioblastoma multiforme(99;9e-08)		AGCCACCTTCCATGACAGTAA	0.443													4	41					0	0	0.014758	0	0		T	52332350	T	T	52332350	3	4	123	1	0	0	0	0	1	0	0	0	17295	594	21	4	1129	4	WDFY2	13	52332350	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	5788381	52332350	62837528	460	68524											
NEK5	341676	broad.mit.edu	37	chr13	52686430	52686430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcactaaataacacaccccGttgtctattgatccttttca	11	15	3	12	1	3	1	2	1	1	0	4	1	4	1	3	0	1	1	3	0	4	8	rs147607303	byFrequency	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:52686430G>A	uc001vge.2	-	5	426	c.286C>T	c.(286-288)CGG>TGG	p.R96W	NEK5_uc001vgf.2_Missense_Mutation_p.R96W	NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	96	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		AACACACCCCGTTGTCTATTG	0.353													28	59					0	0	0.009535	0	0		A	52686430	A	A	52686430	3	1	123	1	0	0	0	0	1	0	0	0	10346	1144	40	1	1912	1	NEK5	13	52686430	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	354080	52686430	62483448	461	68525											
SLITRK1	114798	broad.mit.edu	37	chr13	84455330	84455331	+	Frame_Shift_Ins	INS	-	C	C																															agccttttcaccagctgcagINSccccagaaaagcccccggaa																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:84455330_84455331insC	uc001vlk.2	-	1	1198_1199	c.312_313insG	c.(310-315)GGGCTGfs	p.G104fs		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	104_105	Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		ACCAGCTGCAGCCCCAGAAAAG	0.46													35	66	---	---	---	---						.	C	84455331	C	C	84455330	7	5	123	1	0	1	1	0	0	0	0	0	14767	962	34	0	1781	0	SLITRK1	13	84455330	Frame_Shift_Ins	INS	-	TCGA-CD-A4MJ-01A-11D-A25D-08	31768900	84455330	30714548	462	68526											
SLITRK6	84189	broad.mit.edu	37	chr13	86368589	86368589	+	Frame_Shift_Del	DEL	G	-	-																															cttctatagacatgaaccatGgggctcaccatgtgctgttc																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:86368589delG	uc001vll.1	-	2	2514	c.2055delC	c.(2053-2055)CCCfs	p.P685fs	SLITRK6_uc010afe.1_Intron	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	685	Cytoplasmic (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		CATGAACCATGGGGCTCACCA	0.453													90	207	---	---	---	---						.	-	86368589	-	-	86368589	7	5	123	1	0	1	0	1	0	0	0	0	14772	1335	47	0	474	0	SLITRK6	13	86368589	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1913259	86368589	28801289	463	68527											
UGGT2	55757	broad.mit.edu	37	chr13	96536889	96536889	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccaagagaagaaacgtcAttagcccctgacatcagttc	13	8	9	11	1	2	3	2	1	0	2	4	4	3	3	3	1	2	1	3	1	4	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:96536889A>T	uc001vmt.2	-	27	3254	c.3084T>A	c.(3082-3084)AAT>AAA	p.N1028K	UGGT2_uc001vmu.1_Missense_Mutation_p.N115K	NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	1028					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						AAGAAACGTCATTAGCCCCTG	0.373													24	31					0	0	0.008361	0	0		T	96536889	T	T	96536889	3	4	123	1	0	0	0	0	1	0	0	0	16968	214	8	5	1518	5	UGGT2	13	96536889	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	10168300	96536889	18632989	464	68528											
C13orf27	93081	broad.mit.edu	37	chr13	103419821	103419821	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgctcttgagcccatTgaacgacctaaaatcaatta	13	10	7	11	1	2	2	1	2	1	0	2	3	2	2	2	0	4	3	2	0	5	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:103419821T>C	uc001vpo.2	-	5	484	c.306A>G	c.(304-306)TCA>TCG	p.S102S	C13orf27_uc001vpn.2_Silent_p.S61S|C13orf27_uc001vpp.2_Silent_p.S61S	NM_138779	NP_620134	Q5JUR7	CM027_HUMAN	hypothetical protein LOC93081	102											0	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					TTGAGCCCATTGAACGACCTA	0.378													18	36					0	0	0.007413	0	0		C	103419821	C	C	103419821	2	2	123	1	0	0	0	0	0	0	0	1	1726	1799	63	3		3	C13orf27	13	103419821	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	6882932	103419821	11750057	465	68529											
RASA3	22821	broad.mit.edu	37	chr13	114762186	114762186	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttggcctggatgtacagCgcacgctctggctggatgac	6	11	14	10	2	1	1	0	1	1	0	1	3	1	3	1	4	2	5	1	4	1	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr13:114762186C>T	uc001vui.2	-	21	2093	c.1962G>A	c.(1960-1962)GCG>GCA	p.A654A	RASA3_uc010tkk.1_Silent_p.A622A|RASA3_uc001vuj.2_Silent_p.A271A	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	654	PH.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			GGATGTACAGCGCACGCTCTG	0.592													31	63					0	0	0.021022	0	0		T	114762186	T	T	114762186	2	4	123	1	0	0	0	0	0	0	0	1	13087	755	27	1		1	RASA3	13	114762186	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	11342365	114762186	407692	466	68530											
POTEG	404785	broad.mit.edu	37	chr14	19553819	19553819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggagccgaggtaccacGtccgtcgagaagatctggac	10	7	13	11	4	2	2	1	0	1	2	4	6	3	4	3	3	2	1	3	3	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:19553819G>A	uc001vuz.1	+	1	455	c.403G>A	c.(403-405)GTC>ATC	p.V135I	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	135										ovary(1)	1						GAGGTACCACGTCCGTCGAGA	0.582													30	170					0	0	0.011902	0	0		A	19553819	A	A	19553819	3	1	123	1	0	0	0	0	1	0	0	0	12285	1145	40	1	405	1	POTEG	14	19553819	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		19553819	87795721	467	68531											
FLJ10357	55701	broad.mit.edu	37	chr14	21543327	21543327	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggaggggccaggcctgCtgtgtatggcaggtgagatg	7	8	19	7	0	0	1	0	1	0	1	0	3	0	2	2	6	2	4	2	6	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:21543327C>T	uc001vzp.2	+	3	1467	c.1438C>T	c.(1438-1440)CTG>TTG	p.L480L	FLJ10357_uc001vzn.1_Silent_p.L480L|FLJ10357_uc001vzo.1_Intron|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_Intron	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	480					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		GCCAGGCCTGCTGTGTATGGC	0.627													15	27					0	0	0.00499	0	0		T	21543327	T	T	21543327	2	4	123	1	0	0	0	0	0	0	0	1	5940	796	28	2		2	FLJ10357	14	21543327	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1989508	21543327	85806213	468	68532											
CHD8	57680	broad.mit.edu	37	chr14	21876597	21876597	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagttagtaattgtggaCagtggggcaatgaccaagaa	13	9	12	7	0	0	2	0	1	0	1	1	3	1	3	2	3	0	3	2	3	5	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:21876597C>T	uc001was.1	-	13	1861	c.1767G>A	c.(1765-1767)CTG>CTA	p.L589L	CHD8_uc001war.1_Silent_p.L485L|CHD8_uc001wav.1_Silent_p.L31L	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	868	Helicase ATP-binding.				ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		TAATTGTGGACAGTGGGGCAA	0.453													22	68					0	0	0.021523	0	0		T	21876597	T	T	21876597	2	4	123	1	0	0	0	0	0	0	0	1	3334	465	17	4		4	CHD8	14	21876597	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	333270	21876597	85472943	469	68533											
MYH6	4624	broad.mit.edu	37	chr14	23855225	23855225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctctgtctgctccaccacgGcacgcagctcctccagctca	6	8	8	19	2	3	0	1	0	2	0	6	0	6	0	4	1	3	6	4	1	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:23855225G>A	uc001wjv.2	-	34	5142	c.5075C>T	c.(5074-5076)GCC>GTC	p.A1692V		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1692	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CTCCACCACGGCACGCAGCTC	0.652													17	47					0	0	0.028581	0	0		A	23855225	A	A	23855225	3	1	123	1	0	0	0	0	1	0	0	0	10056	1203	42	2	768	2	MYH6	14	23855225	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1978628	23855225	83494315	470	68534											
REC8	9985	broad.mit.edu	37	chr14	24647332	24647332	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccccacctcctcgccgccgCcgtcgtcgccggttactgtt	2	9	9	21	7	0	0	0	0	0	0	4	0	1	0	8	1	1	2	8	1	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:24647332C>T	uc001wmr.2	+	14	1327	c.900C>T	c.(898-900)CGC>CGT	p.R300R	REC8_uc001wms.2_Silent_p.R300R	NM_005132	NP_005123	O95072	REC8_HUMAN	REC8 homolog	300	Glu-rich.				mitotic metaphase/anaphase transition|mitotic prometaphase|reciprocal meiotic recombination|sister chromatid cohesion	nucleoplasm					0				GBM - Glioblastoma multiforme(265;0.00839)		CTCGCCGCCGCCGTCGTCGCC	0.602													26	75					0	0	0.021523	0	0		T	24647332	T	T	24647332	2	4	123	1	0	0	0	0	0	0	0	1	13224	726	26	2		2	REC8	14	24647332	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	792107	24647332	82702208	471	68535											
HECTD1	25831	broad.mit.edu	37	chr14	31590658	31590658	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgaggtaacagcatgatgCgttacatcagagcgggagcc	11	7	14	9	3	1	2	1	1	0	1	1	4	1	3	1	2	7	3	1	2	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:31590658C>T	uc001wrc.1	-	28	5658	c.5169G>A	c.(5167-5169)ACG>ACA	p.T1723T	HECTD1_uc001wra.1_5'UTR|HECTD1_uc001wrb.1_5'UTR|HECTD1_uc001wrd.1_Silent_p.T1191T	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1723					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		CAGCATGATGCGTTACATCAG	0.483													35	52					0	0	0.017118	0	0		T	31590658	T	T	31590658	2	4	123	1	0	0	0	0	0	0	0	1	7055	755	27	1		1	HECTD1	14	31590658	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	6943326	31590658	75758882	472	68536											
NKX2-1	7080	broad.mit.edu	37	chr14	36988386	36988386	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcggtgacggcgccgtggtgCcccacggcgtgctgctgcat	3	7	17	14	6	0	1	0	1	0	0	0	1	0	1	3	4	4	3	3	4	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:36988386C>T	uc001wtt.2	-	1	518	c.177G>A	c.(175-177)GGG>GGA	p.G59G	SFTA3_uc001wts.2_Intron|NKX2-1_uc001wtu.2_Silent_p.G89G|NKX2-1_uc001wtv.2_Silent_p.G59G|uc001wtw.1_5'Flank	NM_003317	NP_003308	P43699	NKX21_HUMAN	thyroid transcription factor 1 isoform 2	59					epithelial tube branching involved in lung morphogenesis|globus pallidus development|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|thyroid gland development		protein binding|transcription regulatory region DNA binding			skin(1)	1	all_cancers(3;4.47e-51)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.165)		Lung(8;1.8e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.014)|all cancers(34;0.0366)|LUSC - Lung squamous cell carcinoma(13;0.132)	GBM - Glioblastoma multiforme(112;0.0171)		CGCCGTGGTGCCCCACGGCGT	0.751			A		NSCLC								7	14					0	0	0.004482	0	0		T	36988386	T	T	36988386	2	4	123	1	0	0	0	0	0	0	0	1	10468	726	26	2		2	NKX2-1	14	36988386	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	5397728	36988386	70361154	473	68537											
FOXA1	3169	broad.mit.edu	37	chr14	38061194	38061194	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcttctcgcacttgaaGcgcttctggcggcgcaagta	6	10	13	12	4	2	1	0	1	2	0	3	1	2	1	0	3	2	6	0	3	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:38061194G>T	uc001wuf.2	-	2	1107	c.795C>A	c.(793-795)CGC>CGA	p.R265R	FOXA1_uc010tpz.1_Silent_p.R232R	NM_004496	NP_004487	P55317	FOXA1_HUMAN	forkhead box A1	265					chromatin remodeling|embryo development|epithelial cell maturation involved in prostate gland development|epithelial tube branching involved in lung morphogenesis|epithelial-mesenchymal signaling involved in prostate gland development|glucose homeostasis|lung epithelial cell differentiation|negative regulation of survival gene product expression|neuron fate specification|pattern specification process|positive regulation of estrogen receptor signaling pathway|positive regulation of mitotic cell cycle|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|prostate gland epithelium morphogenesis|prostate gland stromal morphogenesis|response to estradiol stimulus|secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding				0	Breast(36;0.0954)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;5.41e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.0454)|LUSC - Lung squamous cell carcinoma(13;0.0917)|all cancers(34;0.0925)|BRCA - Breast invasive adenocarcinoma(188;0.239)	GBM - Glioblastoma multiforme(112;0.0222)		CGCACTTGAAGCGCTTCTGGC	0.517													5	11					0.000602214	0.000608069	0.014758	1	0		T	38061194	T	T	38061194	2	4	123	1	0	0	0	0	0	0	0	1	6003	958	34	5		5	FOXA1	14	38061194	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1072808	38061194	69288346	474	68538											
PNN	5411	broad.mit.edu	37	chr14	39650346	39650346	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtggctcaacctcagcCtcagtctcagccccagcttc	6	9	8	18	0	4	0	4	0	1	0	6	0	4	0	5	1	4	2	5	1	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:39650346C>A	uc001wuw.3	+	9	1530	c.1433C>A	c.(1432-1434)CCT>CAT	p.P478H		NM_002687	NP_002678	Q9H307	PININ_HUMAN	pinin, desmosome associated protein	478	Gln-rich.			P -> A (in Ref. 1; AAB48304).	cell adhesion|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|desmosome|intermediate filament|nuclear speck	DNA binding|protein binding|structural molecule activity			ovary(1)	1	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0119)		caacctcagcctcagtctcag	0.348													19	39					5.3912e-06	5.54371e-06	0.006122	1	0		A	39650346	A	A	39650346	3	1	123	1	0	0	0	0	1	0	0	0	12179	681	24	5	1467	5	PNN	14	39650346	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1589152	39650346	67699194	475	68539											
NIN	51199	broad.mit.edu	37	chr14	51224807	51224807	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcttggacatcatttcctGcctttcctggtcatgttcca	7	15	7	12	0	2	0	2	0	0	0	5	1	5	1	4	2	2	2	4	2	1	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:51224807G>A	uc001wym.2	-	18	3132	c.2941C>T	c.(2941-2943)CAG>TAG	p.Q981*	NIN_uc001wyi.2_Nonsense_Mutation_p.Q981*|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Intron|NIN_uc010tqp.1_Nonsense_Mutation_p.Q987*|NIN_uc001wyo.2_Nonsense_Mutation_p.Q981*	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	981	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					ATCATTTCCTGCCTTTCCTGG	0.547			T	PDGFRB	MPD								89	173					0	0	0.01441	0	0		A	51224807	A	A	51224807	4	1	123	1	0	0	0	0	0	1	0	0	10436	1328	46	2	3664	2	NIN	14	51224807	Nonsense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	11574461	51224807	56124733	476	68540											
NID2	22795	broad.mit.edu	37	chr14	52507378	52507378	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatacatactggagtcggAgtagtggtacagctccttgt	9	13	12	7	1	0	0	0	0	0	0	2	2	1	2	1	3	4	4	1	3	5	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:52507378A>G	uc001wzo.2	-	8	2251	c.2017T>C	c.(2017-2019)TCC>CCC	p.S673P	NID2_uc010tqs.1_Missense_Mutation_p.S673P|NID2_uc010tqt.1_Missense_Mutation_p.S673P|NID2_uc001wzp.2_Missense_Mutation_p.S673P	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	673	Nidogen G2 beta-barrel.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CTGGAGTCGGAGTAGTGGTAC	0.289													30	80					0	0	0.019004	0	0		G	52507378	G	G	52507378	3	3	123	1	0	0	0	0	1	0	0	0	10434	304	11	3	2170	3	NID2	14	52507378	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	1282571	52507378	54842162	477	68541											
DACT1	51339	broad.mit.edu	37	chr14	59112582	59112582	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgaacaatgggacattctCcccaccgaagcagtggtcga	11	8	10	12	2	2	1	0	1	2	0	4	4	2	2	3	2	2	1	3	2	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:59112582C>A	uc001xdw.2	+	4	1405	c.1241C>A	c.(1240-1242)TCC>TAC	p.S414Y	DACT1_uc010trv.1_Missense_Mutation_p.S133Y|DACT1_uc001xdx.2_Missense_Mutation_p.S377Y|DACT1_uc010trw.1_Missense_Mutation_p.S133Y	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	414					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						GGGACATTCTCCCCACCGAAG	0.587													17	58					4.96729e-08	5.18853e-08	0.008871	1	0		A	59112582	A	A	59112582	3	1	123	1	0	0	0	0	1	0	0	0	4225	855	30	5	1255	5	DACT1	14	59112582	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	6605204	59112582	48236958	478	68542											
SYNE2	23224	broad.mit.edu	37	chr14	64692209	64692209	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcccggtccttttaccccAtgctgaggtacaccaatggg	7	11	10	13	1	0	1	0	1	0	0	1	1	1	1	5	3	4	2	5	3	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:64692209A>G	uc001xgm.2	+	115	20853	c.20623A>G	c.(20623-20625)ATG>GTG	p.M6875V	SYNE2_uc001xgl.2_Missense_Mutation_p.M6897V|SYNE2_uc010apy.2_Missense_Mutation_p.M3260V|SYNE2_uc001xgn.2_Missense_Mutation_p.M1836V|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.M845V|SYNE2_uc001xgq.2_Missense_Mutation_p.M1254V|SYNE2_uc001xgr.2_Missense_Mutation_p.M658V|SYNE2_uc010tsi.1_Missense_Mutation_p.M532V|SYNE2_uc001xgs.2_Missense_Mutation_p.M546V|SYNE2_uc001xgt.2_Missense_Mutation_p.M419V	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6875	Perinuclear space (Potential).|KASH.				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CTTTTACCCCATGCTGAGGTA	0.488													12	24					0	0	0.020292	0	0		G	64692209	G	G	64692209	3	3	123	1	0	0	0	0	1	0	0	0	15471	217	8	3	21192	3	SYNE2	14	64692209	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	5579627	64692209	42657331	479	68543											
ESR2	2100	broad.mit.edu	37	chr14	64735545	64735545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccacttcgtaacacttcCgaagtcggcaggcctggcag	8	9	10	14	3	0	0	0	0	0	0	4	1	2	0	3	3	1	3	3	3	2	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:64735545C>T	uc001xha.1	-	4	1088	c.620G>A	c.(619-621)CGG>CAG	p.R207Q	ESR2_uc001xgu.2_Missense_Mutation_p.R207Q|ESR2_uc001xgv.2_Missense_Mutation_p.R207Q|ESR2_uc001xgw.2_RNA|ESR2_uc001xgx.2_Missense_Mutation_p.R207Q|ESR2_uc001xgy.1_Missense_Mutation_p.R207Q|ESR2_uc001xgz.1_Missense_Mutation_p.R207Q|ESR2_uc010aqb.1_RNA|ESR2_uc010aqc.1_Missense_Mutation_p.R207Q	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1	207	NR C4-type.|Nuclear receptor.				cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	GTAACACTTCCGAAGTCGGCA	0.448													35	86					0	0	0.021022	0	0		T	64735545	T	T	64735545	3	4	123	1	0	0	0	0	1	0	0	0	5265	652	23	1	1082	1	ESR2	14	64735545	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	43336	64735545	42613995	480	68544											
C14orf169	79697	broad.mit.edu	37	chr14	73958571	73958571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccggccgcgcgctgcccGccgccgcgtggtccctgtac	2	5	13	21	8	0	0	0	0	0	0	1	0	1	0	6	2	2	2	6	2	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:73958571G>A	uc001xok.1	+	3	929	c.850G>A	c.(850-852)GCC>ACC	p.A284T	HEATR4_uc010tua.1_Intron	NM_024644	NP_078920	Q9H6W3	NO66_HUMAN	chromosome 14 open reading frame 169	284					negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K4 specific)|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0				BRCA - Breast invasive adenocarcinoma(234;0.0033)|OV - Ovarian serous cystadenocarcinoma(108;0.215)		CGCGCTGCCCGCCGCCGCGTG	0.652													3	9					0	0	0.009096	0	0		A	73958571	A	A	73958571	3	1	123	1	0	0	0	0	1	0	0	0	1761	1074	38	1	851	1	C14orf169	14	73958571	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	9223026	73958571	33390969	481	68545											
C14orf169	79697	broad.mit.edu	37	chr14	73958594	73958594	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgcgtggtccctgtaccaGgccggctgctccctgcgtct	2	9	13	17	4	1	0	0	0	1	0	3	0	3	0	5	3	3	3	5	3	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:73958594G>T	uc001xok.1	+	3	952	c.873G>T	c.(871-873)CAG>CAT	p.Q291H	HEATR4_uc010tua.1_Intron	NM_024644	NP_078920	Q9H6W3	NO66_HUMAN	chromosome 14 open reading frame 169	291					negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K4 specific)|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0				BRCA - Breast invasive adenocarcinoma(234;0.0033)|OV - Ovarian serous cystadenocarcinoma(108;0.215)		CCCTGTACCAGGCCGGCTGCT	0.642													3	6					6.4e-05	6.52567e-05	0.004672	1	0		T	73958594	T	T	73958594	3	4	123	1	0	0	0	0	1	0	0	0	1761	1000	35	5	874	5	C14orf169	14	73958594	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	23	73958594	33390946	482	68546											
C14orf45	80127	broad.mit.edu	37	chr14	74489628	74489628	+	Frame_Shift_Del	DEL	A	-	-																															ttcccatgcaggaagttaatAaaaacagatgaatctgtggt																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:74489628delA	uc010tup.1	+	2	189	c.66delA	c.(64-66)ATAfs	p.I22fs		NM_025057	NP_079333	Q8ND07	CN045_HUMAN	hypothetical protein LOC80127	22											0				BRCA - Breast invasive adenocarcinoma(234;0.00351)		GGAAGTTAATAAAAACAGATG	0.368													11	18	---	---	---	---						.	-	74489628	-	-	74489628	7	5	123	1	0	1	0	1	0	0	0	0	1778	352	13	0	72	0	C14orf45	14	74489628	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	531034	74489628	32859912	483	68547											
ESRRB	2103	broad.mit.edu	37	chr14	76905939	76905939	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctacgaggactgtgccagCggcatcatggaggactcggc	9	6	15	11	3	1	0	1	0	0	0	2	4	1	3	1	5	4	2	1	5	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:76905939C>T	uc001xsq.1	+	2	310	c.243C>T	c.(241-243)AGC>AGT	p.S81S	ESRRB_uc001xsr.2_Silent_p.S81S|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	81						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		ACTGTGCCAGCGGCATCATGG	0.652													22	32					0	0	0.014323	0	0		T	76905939	T	T	76905939	2	4	123	1	0	0	0	0	0	0	0	1	5269	767	27	1		1	ESRRB	14	76905939	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2416311	76905939	30443601	484	68548											
VASH1	22846	broad.mit.edu	37	chr14	77229171	77229171	+	Frame_Shift_Del	DEL	G	-	-																															tcgaagatttagggatgccaGgggggaagaaggtggctggg																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:77229171delG	uc001xst.2	+	1	937	c.7delG	c.(7-9)GGGfs	p.G3fs	VASH1_uc001xss.2_Frame_Shift_Del_p.G3fs	NM_014909	NP_055724	Q7L8A9	VASH1_HUMAN	vasohibin 1	3					cell cycle arrest|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of endothelial cell proliferation	endoplasmic reticulum|extracellular space					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0283)		AGGGATGCCAGGGGGGAAGAA	0.647													5	11	---	---	---	---						.	-	77229171	-	-	77229171	7	5	123	1	0	1	0	1	0	0	0	0	17151	1000	35	0	9	0	VASH1	14	77229171	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	323232	77229171	30120369	485	68549											
CCDC88C	440193	broad.mit.edu	37	chr14	91806315	91806315	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctcctccggagccacGtcgggcagctccagccactg	6	6	11	18	3	0	0	0	0	0	0	5	1	4	1	6	2	4	3	6	2	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:91806315G>A	uc010aty.2	-	7	636	c.537C>T	c.(535-537)GAC>GAT	p.D179D	CCDC88C_uc010twk.1_Silent_p.D143D	NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	179					microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				CCGGAGCCACGTCGGGCAGCT	0.677													3	11					0	0	0.009096	0	0		A	91806315	A	A	91806315	2	1	123	1	0	0	0	0	0	0	0	1	2868	1136	40	1		1	CCDC88C	14	91806315	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	14577144	91806315	15543225	486	68550											
CKB	1152	broad.mit.edu	37	chr14	103988703	103988703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcggcgtgctcttggcgCgcagctccgcgtacagctcg	3	8	14	16	8	1	0	0	0	1	0	4	0	2	0	1	2	4	6	1	2	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:103988703C>T	uc001ynf.1	-	2	208	c.128G>A	c.(127-129)CGC>CAC	p.R43H	CKB_uc001yne.1_5'Flank|CKB_uc010awr.1_Intron	NM_001823	NP_001814	P12277	KCRB_HUMAN	brain creatine kinase	43	Phosphagen kinase N-terminal.				creatine metabolic process	cytosol	ATP binding|creatine kinase activity				0		Melanoma(154;0.155)	Epithelial(46;0.14)		Creatine(DB00148)	GCTCTTGGCGCGCAGCTCCGC	0.602													8	31					0	0	0.00308	0	0		T	103988703	T	T	103988703	3	4	123	1	0	0	0	0	1	0	0	0	3449	768	27	1	1045	1	CKB	14	103988703	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	12182388	103988703	3360837	487	68551											
AHNAK2	113146	broad.mit.edu	37	chr14	105411498	105411498	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagagacacctccacatcAgggactgtcacttccgcctt	9	8	9	15	1	2	1	2	0	0	1	4	3	4	2	4	2	0	1	4	2	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:105411498A>G	uc010axc.1	-	7	10410	c.10290T>C	c.(10288-10290)CCT>CCC	p.P3430P	AHNAK2_uc001ypx.2_Silent_p.P3330P	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3430						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCTCCACATCAGGGACTGTCA	0.622													109	235					0	0	0.01441	0	0		G	105411498	G	G	105411498	2	3	123	1	0	0	0	0	0	0	0	1	415	175	7	3		3	AHNAK2	14	105411498	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	1422795	105411498	1938042	488	68552											
JAG2	3714	broad.mit.edu	37	chr14	105617714	105617714	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaccggccgcacacgggttCgaagcacactcatcgatgtc	9	6	10	16	5	1	0	1	0	0	0	4	2	1	0	3	2	1	3	3	2	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr14:105617714C>T	uc001yqg.2	-	9	1577	c.1173G>A	c.(1171-1173)TCG>TCA	p.S391S	JAG2_uc001yqf.2_5'UTR|JAG2_uc001yqh.2_Silent_p.S391S	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	391	EGF-like 5; calcium-binding (Potential).|Extracellular (Potential).				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding			lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		CACACGGGTTCGAAGCACACT	0.652													13	26					0	0	0.024245	0	0		T	105617714	T	T	105617714	2	4	123	1	0	0	0	0	0	0	0	1	7951	871	31	1		1	JAG2	14	105617714	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	206216	105617714	1731826	489	68553											
C15orf2	23742	broad.mit.edu	37	chr15	24922567	24922567	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaagggagtccccaatatCtatgtgtgtggattcccctc	9	11	9	12	0	1	0	0	0	1	0	4	2	3	2	4	2	0	0	4	2	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:24922567C>A	uc001ywo.2	+	1	2027	c.1553C>A	c.(1552-1554)TCT>TAT	p.S518Y		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	518	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		TCCCCAATATCTATGTGTGTG	0.547													61	154					1.1362e-29	1.27471e-29	0.01441	1	0		A	24922567	A	A	24922567	3	1	123	1	0	0	0	0	1	0	0	0	1787	913	32	5	1555	5	C15orf2	15	24922567	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08		24922567	77608825	490	68554											
TRPM1	4308	broad.mit.edu	37	chr15	31332426	31332426	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccggtgtttggctgccacGgccagtttgaggcaggtcga	5	10	15	11	3	0	1	0	1	0	0	2	2	1	1	3	5	1	4	3	5	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:31332426G>A	uc001zfm.2	-	17	2273	c.2145C>T	c.(2143-2145)GCC>GCT	p.A715A	TRPM1_uc010azy.2_Silent_p.A622A|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	715	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		TGGCTGCCACGGCCAGTTTGA	0.542													31	65					0	0	0.012213	0	0		A	31332426	A	A	31332426	2	1	123	1	0	0	0	0	0	0	0	1	16611	1103	39	1		1	TRPM1	15	31332426	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	6409859	31332426	71198966	491	68555											
RYR3	6263	broad.mit.edu	37	chr15	34014966	34014966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcaagctgctcatcagaCgcccagagtgcttcggcccg	7	8	12	14	3	3	2	3	0	0	2	4	2	3	2	2	2	3	3	2	2	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:34014966C>T	uc001zhi.2	+	44	6740	c.6670C>T	c.(6670-6672)CGC>TGC	p.R2224C	RYR3_uc010bar.2_Missense_Mutation_p.R2224C	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2224	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GCTCATCAGACGCCCAGAGTG	0.582													36	95					0	0	0.025465	0	0		T	34014966	T	T	34014966	3	4	123	1	0	0	0	0	1	0	0	0	13795	536	19	1	6844	1	RYR3	15	34014966	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2682540	34014966	68516426	492	68556											
RASGRP1	10125	broad.mit.edu	37	chr15	38786599	38786599	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacctgttccagttcttggTaggtaggcagtctgaggtga	7	13	14	7	0	2	2	0	2	2	0	3	2	3	2	2	4	1	6	2	4	3	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:38786599T>C	uc001zke.3	-	16	2421	c.2243A>G	c.(2242-2244)TAC>TGC	p.Y748C	RASGRP1_uc010bbe.2_RNA|RASGRP1_uc010bbf.2_Intron|RASGRP1_uc010bbg.2_Intron|RASGRP1_uc001zkd.3_Missense_Mutation_p.Y713C	NM_005739	NP_005730	O95267	GRP1_HUMAN	RAS guanyl releasing protein 1 isoform a	748	Potential.|PT region; mediates the BCR-dependent translocation to plasma membrane (By similarity).				cell differentiation|platelet activation|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|lipid binding|protein binding			large_intestine(1)|ovary(1)	2		all_cancers(109;6.38e-17)|all_epithelial(112;5.51e-15)|Lung NSC(122;2.12e-11)|all_lung(180;5.63e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;1.97e-07)|BRCA - Breast invasive adenocarcinoma(123;0.00248)		CAGTTCTTGGTAGGTAGGCAG	0.458													16	19					0	0	0.006122	0	0		C	38786599	C	C	38786599	3	2	123	1	0	0	0	0	1	0	0	0	13099	1638	57	3	158	3	RASGRP1	15	38786599	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	4771633	38786599	63744793	493	68557											
DISP2	85455	broad.mit.edu	37	chr15	40659315	40659315	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggacagcagccaaccagtgCtgccccagctggtccctggg	7	5	13	16	1	0	0	0	0	0	0	1	1	1	1	5	3	6	3	5	3	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:40659315C>T	uc001zlk.1	+	8	1091	c.1002C>T	c.(1000-1002)TGC>TGT	p.C334C		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	334					smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		CCAACCAGTGCTGCCCCAGCT	0.657													25	55					0	0	0.016522	0	0		T	40659315	T	T	40659315	2	4	123	1	0	0	0	0	0	0	0	1	4546	805	28	2		2	DISP2	15	40659315	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1872716	40659315	61872077	494	68558											
VPS18	57617	broad.mit.edu	37	chr15	41191837	41191837	+	Frame_Shift_Del	DEL	C	-	-																															cagtgagttggccttctacaCccccaagctgcgctccgcac																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:41191837delC	uc001zne.2	+	4	1160	c.821delC	c.(820-822)ACCfs	p.T274fs		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	274					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		GCCTTCTACACCCCCAAGCTG	0.622													44	79	---	---	---	---						.	-	41191837	-	-	41191837	7	5	123	1	0	1	0	1	0	0	0	0	17220	507	18	0	835	0	VPS18	15	41191837	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08	532522	41191837	61339555	495	68559											
DLL4	54567	broad.mit.edu	37	chr15	41228465	41228465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtccaagccgcatgtgccGctgccgtcctggattcacgg	6	8	13	14	4	1	0	1	0	0	0	3	1	3	1	5	3	3	2	5	3	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:41228465G>A	uc001zng.1	+	9	1600	c.1280G>A	c.(1279-1281)CGC>CAC	p.R427H		NM_019074	NP_061947	Q9NR61	DLL4_HUMAN	delta-like 4 protein precursor	427	EGF-like 6.|Extracellular (Potential).				blood circulation|cell communication|cell differentiation|Notch receptor processing|Notch signaling pathway	integral to membrane|plasma membrane	calcium ion binding|Notch binding			breast(2)	2		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		CGCATGTGCCGCTGCCGTCCT	0.627													4	16					0	0	0.009096	0	0		A	41228465	A	A	41228465	3	1	123	1	0	0	0	0	1	0	0	0	4574	1087	38	1	1314	1	DLL4	15	41228465	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	36628	41228465	61302927	496	68560											
CKMT1A	548596	broad.mit.edu	37	chr15	43990261	43990261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagttcatgtggaatgagcGtttgggatacatcttgacct	9	13	13	6	1	2	2	1	2	1	0	2	5	2	5	1	3	2	2	1	3	2	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:43990261G>A	uc001zsn.2	+	8	1318	c.926G>A	c.(925-927)CGT>CAT	p.R309H	CKMT1A_uc010uea.1_Missense_Mutation_p.R340H|CKMT1A_uc001zso.3_Missense_Mutation_p.R309H	NM_001015001	NP_001015001	P12532	KCRU_HUMAN	creatine kinase, mitochondrial 1A precursor	309	Phosphagen kinase C-terminal.				creatine metabolic process	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)	Creatine(DB00148)	TGGAATGAGCGTTTGGGATAC	0.458													63	117					0	0	0.01441	0	0		A	43990261	A	A	43990261	3	1	123	1	0	0	0	0	1	0	0	0	3452	1145	40	1	952	1	CKMT1A	15	43990261	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2761796	43990261	58541131	497	68561											
DUOX2	50506	broad.mit.edu	37	chr15	45401049	45401049	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgtccagcccaaaggccaGcagggcctggctatagctgg	9	6	14	12	0	0	0	0	0	0	0	1	1	1	0	4	4	3	3	4	4	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:45401049G>A	uc010bea.2	-	12	1539	c.1336C>T	c.(1336-1338)CTG>TTG	p.L446L	DUOX2_uc001zun.2_Silent_p.L446L	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	446	Extracellular (Potential).|Peroxidase-like; mediates peroxidase activity (By similarity).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		CCAAAGGCCAGCAGGGCCTGG	0.507													28	66					0	0	0.00632	0	0		A	45401049	A	A	45401049	2	1	123	1	0	0	0	0	0	0	0	1	4807	962	34	2		2	DUOX2	15	45401049	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1410788	45401049	57130343	498	68562											
MYO5A	4644	broad.mit.edu	37	chr15	52689609	52689609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcagagccagtgacacatctCctcatagtccacacccatga	12	7	7	15	0	2	3	1	2	1	1	4	3	3	3	4	0	1	1	4	0	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:52689609C>T	uc002aby.2	-	10	1352	c.1108G>A	c.(1108-1110)GAG>AAG	p.E370K	MYO5A_uc002abx.3_Missense_Mutation_p.E370K|MYO5A_uc010uge.1_Missense_Mutation_p.E239K	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	370	Myosin head-like.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		TGACACATCTCCTCATAGTCC	0.483													15	83					0	0	0.028581	0	0		T	52689609	T	T	52689609	3	4	123	1	0	0	0	0	1	0	0	0	10096	864	30	4	4587	4	MYO5A	15	52689609	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	7288560	52689609	49841783	499	68563											
NEDD4	4734	broad.mit.edu	37	chr15	56125274	56125275	+	Frame_Shift_Ins	INS	-	T	T																															aaactgaagtaatcttattcINSttttttctgaatccatcatt																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:56125274_56125275insT	uc002adj.2	-	23	4015_4016	c.3715_3716insA	c.(3715-3717)AGAfs	p.R1239fs	NEDD4_uc002adl.2_Frame_Shift_Ins_p.R820fs|NEDD4_uc002adi.2_Frame_Shift_Ins_p.R1167fs|NEDD4_uc010ugj.1_Frame_Shift_Ins_p.R1223fs|NEDD4_uc010bfm.2_Frame_Shift_Ins_p.R1222fs|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	1239	HECT.				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		TAATCTTATTCTTTTTTCTGAA	0.347													39	89	---	---	---	---						.	T	56125275	T	T	56125274	7	5	123	1	0	1	1	0	0	0	0	0	10329	913	32	0	255	0	NEDD4	15	56125274	Frame_Shift_Ins	INS	-	TCGA-CD-A4MJ-01A-11D-A25D-08	3435665	56125274	46406118	500	68564											
SLTM	79811	broad.mit.edu	37	chr15	59191666	59191666	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaactgacatagaaaaacaaAcctctttgcttgaccagagg	16	8	8	9	0	1	4	0	2	1	2	1	5	1	4	2	1	4	1	2	1	5	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:59191666A>G	uc002afp.2	-	7	1146	c.1058_splice	c.e7+1	p.S353_splice	SLTM_uc002afo.2_Splice_Site_p.S335_splice|SLTM_uc002afq.2_Intron|SLTM_uc010bgd.2_Intron|SLTM_uc002afr.1_Missense_Mutation_p.F253L	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription						apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						AGAAAAACAAACCTCTTTGCT	0.408													19	45					0	0	0.014323	0	0		G	59191666	G	G	59191666	5	3	123	1	0	0	0	0	0	0	1	0	14779	57	2	3	2104	3	SLTM	15	59191666	Splice_Site	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	3066392	59191666	43339726	501	68565											
NARG2	79664	broad.mit.edu	37	chr15	60760424	60760424	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaagaagaaccattccaaTtgtggttttaactttttcct	11	16	7	7	0	0	2	0	0	0	2	2	3	2	3	3	2	2	1	3	2	5	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:60760424T>G	uc002agp.2	-	4	479	c.244A>C	c.(244-246)ATT>CTT	p.I82L	NARG2_uc002ago.2_Intron|NARG2_uc010bgk.2_Missense_Mutation_p.I82L|NARG2_uc002agr.1_Missense_Mutation_p.I82L	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	82						nucleus				ovary(1)|lung(1)	2						ACCATTCCAATTGTGGTTTTA	0.403													18	44					0	0	0.00499	0	0		G	60760424	G	G	60760424	3	3	123	1	0	0	0	0	1	0	0	0	10187	1493	52	5	2756	5	NARG2	15	60760424	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1568758	60760424	41770968	502	68566											
SMAD6	4091	broad.mit.edu	37	chr15	67073530	67073530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcgagtcggtgcggcgaaCgcgcagcaagatcggcttcg	8	5	16	12	8	0	1	0	0	0	1	3	3	0	1	0	3	4	3	0	3	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:67073530C>T	uc002aqf.2	+	4	2071	c.1148C>T	c.(1147-1149)ACG>ATG	p.T383M	SMAD6_uc010bhx.2_RNA|SMAD6_uc002aqg.2_Missense_Mutation_p.T122M	NM_005585	NP_005576	O43541	SMAD6_HUMAN	SMAD family member 6 isoform 1	383	MH2.				BMP signaling pathway|immune response|negative regulation of apoptosis|negative regulation of BMP signaling pathway|negative regulation of caspase activity|negative regulation of pathway-restricted SMAD protein phosphorylation|negative regulation of SMAD protein complex assembly|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of S phase of mitotic cell cycle|response to laminar fluid shear stress|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	cytosol|transcription factor complex	co-SMAD binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, inhibitory cytoplasmic mediator activity|type I activin receptor binding|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			skin(1)	1						GTGCGGCGAACGCGCAGCAAG	0.662													13	28					0	0	0.016723	0	0		T	67073530	T	T	67073530	3	4	123	1	0	0	0	0	1	0	0	0	14787	536	19	1	1200	1	SMAD6	15	67073530	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	6313106	67073530	35457862	503	68567											
NPTN	27020	broad.mit.edu	37	chr15	73889460	73889460	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgttgctggccctgcactcGtaagtcccagagtcctccaa	7	10	9	15	2	0	1	0	0	0	1	5	1	3	1	4	1	2	4	4	1	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:73889460G>A	uc002avs.2	-	2	539	c.342C>T	c.(340-342)TAC>TAT	p.Y114Y	NPTN_uc010bjc.2_Silent_p.Y114Y|NPTN_uc002avt.2_Intron|NPTN_uc002avr.2_Intron|NPTN_uc010ula.1_Intron	NM_012428	NP_036560	Q9Y639	NPTN_HUMAN	neuroplastin isoform b precursor	114	Ig-like 1.|Extracellular (Potential).				elevation of cytosolic calcium ion concentration|homophilic cell adhesion|long-term synaptic potentiation|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of long-term neuronal synaptic plasticity|positive regulation of neuron projection development|positive regulation of protein phosphorylation	integral to membrane|plasma membrane|presynaptic membrane	cell adhesion molecule binding|type 1 fibroblast growth factor receptor binding				0						CCCTGCACTCGTAAGTCCCAG	0.577													14	33					0	0	0.00499	0	0		A	73889460	A	A	73889460	2	1	123	1	0	0	0	0	0	0	0	1	10620	1140	40	1		1	NPTN	15	73889460	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	6815930	73889460	28641932	504	68568											
CHRNB4	1143	broad.mit.edu	37	chr15	78921565	78921565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacgcatgacttgctgggcGggaaggctctggccgggctg	5	8	17	11	3	2	1	1	1	1	0	2	2	2	2	1	5	1	4	1	5	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:78921565G>A	uc002bed.1	-	5	1194	c.1082C>T	c.(1081-1083)CCG>CTG	p.P361L	CHRNB4_uc002bee.1_Intron|CHRNB4_uc010blh.1_Missense_Mutation_p.P179L	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	361	Cytoplasmic (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						CTTGCTGGGCGGGAAGGCTCT	0.632													11	35					0	0	0.010729	0	0		A	78921565	A	A	78921565	3	1	123	1	0	0	0	0	1	0	0	0	3396	1116	39	1	422	1	CHRNB4	15	78921565	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	5032105	78921565	23609827	505	68569											
MORF4L1	10933	broad.mit.edu	37	chr15	79186547	79186547	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatgtcccaggtgtatggAgcgccacatctcctgagatt	8	10	10	13	1	1	1	0	1	1	1	3	3	2	2	4	2	1	1	4	2	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:79186547A>G	uc002bel.2	+	11	1082	c.894A>G	c.(892-894)GGA>GGG	p.G298G	MORF4L1_uc002bem.2_Silent_p.G259G|MORF4L1_uc010une.1_Silent_p.G171G	NM_206839	NP_996670	Q9UBU8	MO4L1_HUMAN	MORF-related gene 15 isoform 2	298	Sufficient for interaction with PHF12.				double-strand break repair via homologous recombination|histone deacetylation|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|Sin3 complex	protein N-terminus binding				0						AGGTGTATGGAGCGCCACATC	0.398													40	105					0	0	0.011902	0	0		G	79186547	G	G	79186547	2	3	123	1	0	0	0	0	0	0	0	1	9724	291	11	3		3	MORF4L1	15	79186547	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	264982	79186547	23344845	506	68570											
KIAA1024	23251	broad.mit.edu	37	chr15	79749633	79749633	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttcctgactttgaacggTcctttttcaatagaaatccc	11	14	6	10	1	1	3	1	2	0	1	4	3	4	3	3	1	1	1	3	1	5	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:79749633T>C	uc002bew.1	+	2	1219	c.1144T>C	c.(1144-1146)TCC>CCC	p.S382P	KIAA1024_uc010unk.1_Missense_Mutation_p.S382P	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	382						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						CTTTGAACGGTCCTTTTTCAA	0.532													32	42					0	0	0.010818	0	0		C	79749633	C	C	79749633	3	2	123	1	0	0	0	0	1	0	0	0	8221	1667	58	3	1146	3	KIAA1024	15	79749633	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	563086	79749633	22781759	507	68571											
TM6SF1	53346	broad.mit.edu	37	chr15	83795547	83795547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagctctgccgattatataCgcaatttcaagagccctatc	11	12	7	11	2	2	2	1	1	1	1	3	3	2	2	2	0	4	2	2	0	6	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:83795547C>T	uc002bjp.2	+	8	858	c.749C>T	c.(748-750)ACG>ATG	p.T250M	TM6SF1_uc010bmq.2_Intron|TM6SF1_uc002bjq.2_Intron|TM6SF1_uc010bmr.2_Intron|TM6SF1_uc002bjr.2_Missense_Mutation_p.T102M	NM_023003	NP_075379	Q9BZW5	TM6S1_HUMAN	transmembrane 6 superfamily member 1 isoform 1	250						integral to membrane				ovary(1)	1						CGATTATATACGCAATTTCAA	0.338													13	239					0	0	0.006122	0	0		T	83795547	T	T	83795547	3	4	123	1	0	0	0	0	1	0	0	0	15997	536	19	1	779	1	TM6SF1	15	83795547	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	4045914	83795547	18735845	508	68572											
HDGFRP3	50810	broad.mit.edu	37	chr15	83820028	83820028	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcgttgcccgcatctccaCcctcagagctgcttttgttt	4	15	8	14	2	2	1	1	0	1	1	4	1	2	1	3	0	3	5	3	0	0	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:83820028C>A	uc002bjs.1	-	5	700	c.545G>T	c.(544-546)GGT>GTT	p.G182V		NM_016073	NP_057157	Q9Y3E1	HDGR3_HUMAN	hepatoma-derived growth factor, related protein	182					cell proliferation	nucleus	growth factor activity				0						CGCATCTCCACCCTCAGAGCT	0.418													6	85					1.26484e-09	1.33654e-09	0.00308	1	0		A	83820028	A	A	83820028	3	1	123	1	0	0	0	0	1	0	0	0	7037	507	18	5	74	5	HDGFRP3	15	83820028	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	24481	83820028	18711364	509	68573											
ALPK3	57538	broad.mit.edu	37	chr15	85383910	85383910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgctcctggccagcccaCacactccttgaccccccagc	6	6	8	21	1	0	1	0	1	0	0	2	1	2	1	7	2	2	1	7	2	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:85383910C>T	uc002ble.2	+	5	2173	c.2006C>T	c.(2005-2007)ACA>ATA	p.T669I		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	669					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GGCCAGCCCACACACTCCTTG	0.637													20	52					0	0	0.01892	0	0		T	85383910	T	T	85383910	3	4	123	1	0	0	0	0	1	0	0	0	546	478	17	4	2024	4	ALPK3	15	85383910	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1563882	85383910	17147482	510	68574											
FURIN	5045	broad.mit.edu	37	chr15	91420789	91420789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtgcgggggaagtggctgCggtggccaacaacggtgtct	6	8	19	8	3	1	0	0	0	1	0	1	1	1	1	1	6	4	1	1	6	3	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:91420789C>T	uc002bpu.1	+	7	827	c.611C>T	c.(610-612)GCG>GTG	p.A204V		NM_002569	NP_002560	P09958	FURIN_HUMAN	furin preproprotein	204					cell proliferation|negative regulation of low-density lipoprotein particle receptor catabolic process|negative regulation of transforming growth factor-beta1 production|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|Notch signaling pathway|peptide biosynthetic process|peptidyl-glutamic acid carboxylation|post-translational protein modification|secretion by cell|signal peptide processing|transforming growth factor beta receptor signaling pathway|viral assembly, maturation, egress, and release	cell surface|Golgi lumen|Golgi membrane|integral to membrane|membrane raft|plasma membrane|trans-Golgi network|trans-Golgi network transport vesicle	metal ion binding|nerve growth factor binding|peptide binding|protease binding|serine-type endopeptidase activity|serine-type endopeptidase inhibitor activity			central_nervous_system(4)|lung(2)|breast(1)	7	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			GAAGTGGCTGCGGTGGCCAAC	0.637													3	7					0	0	0.009096	0	0		T	91420789	T	T	91420789	3	4	123	1	0	0	0	0	1	0	0	0	6113	768	27	1	633	1	FURIN	15	91420789	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	6036879	91420789	11110603	511	68575											
FES	2242	broad.mit.edu	37	chr15	91433451	91433451	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctggagcacctgggcccCggcgagcccccgcctgtgct	5	5	14	17	3	0	0	0	0	0	0	0	2	0	1	6	3	4	3	6	3	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:91433451C>T	uc002bpv.2	+	9	1275	c.1179C>T	c.(1177-1179)CCC>CCT	p.P393P	FES_uc010uqj.1_Silent_p.P335P|FES_uc010uqk.1_Silent_p.P375P|FES_uc002bpw.2_RNA|FES_uc010bny.2_Silent_p.P335P|FES_uc002bpx.2_Silent_p.P393P|FES_uc002bpy.2_Silent_p.P335P	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	393					axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			ACCTGGGCCCCGGCGAGCCCC	0.711													10	23					0	0	0.006214	0	0		T	91433451	T	T	91433451	2	4	123	1	0	0	0	0	0	0	0	1	5834	639	23	1		1	FES	15	91433451	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	12662	91433451	11097941	512	68576											
FAM169B	283777	broad.mit.edu	37	chr15	98982885	98982885	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gactggaccttgtaagcttgCctggtggctgccctgccagc	5	10	13	13	0	0	0	0	0	0	0	0	2	0	1	4	3	5	3	4	3	1	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:98982885C>A	uc002buk.1	-	7	804	c.554G>T	c.(553-555)GGC>GTC	p.G185V		NM_182562	NP_872368	Q8N8A8	F169B_HUMAN	hypothetical protein LOC283777	185											0						TGTAAGCTTGCCTGGTGGCTG	0.597													15	31					2.23348e-06	2.30645e-06	0.028581	1	0		A	98982885	A	A	98982885	3	1	123	1	0	0	0	0	1	0	0	0	5499	739	26	5	28	5	FAM169B	15	98982885	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	7549434	98982885	3548507	513	68577											
FAM169B	283777	broad.mit.edu	37	chr15	99023964	99023964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcttccaaaaataatggCgtttagaatgaaaagcacaa	19	9	6	7	1	1	2	0	1	1	1	2	2	2	2	1	1	1	2	1	1	9	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr15:99023964C>T	uc002buk.1	-	4	299	c.49G>A	c.(49-51)GCC>ACC	p.A17T		NM_182562	NP_872368	Q8N8A8	F169B_HUMAN	hypothetical protein LOC283777	17											0						AAAATAATGGCGTTTAGAATG	0.383													10	40					0	0	0.006214	0	0		T	99023964	T	T	99023964	3	4	123	1	0	0	0	0	1	0	0	0	5499	768	27	1	545	1	FAM169B	15	99023964	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	41079	99023964	3507428	514	68578											
MPG	4350	broad.mit.edu	37	chr16	129486	129486	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcagccacacagctcGtccgacgcagcccaggcacc	9	2	12	18	3	0	0	0	0	0	0	2	1	1	0	4	2	3	5	4	2	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:129486G>A	uc002cfn.2	+	3	420	c.102G>A	c.(100-102)TCG>TCA	p.S34S	MPG_uc002cfm.2_Silent_p.S17S|MPG_uc010bqp.2_Silent_p.S17S|MPG_uc002cfo.2_Silent_p.S29S	NM_002434	NP_002425	P29372	3MG_HUMAN	N-methylpurine-DNA glycosylase isoform a	34					depurination|DNA dealkylation involved in DNA repair	nucleoplasm	alkylbase DNA N-glycosylase activity|damaged DNA binding|identical protein binding			ovary(1)|skin(1)	2		all_cancers(16;9.01e-08)|all_epithelial(16;7.64e-07)|Hepatocellular(780;0.000325)|Lung NSC(18;0.0104)|all_lung(18;0.0239)				CACACAGCTCGTCCGACGCAG	0.597								BER_DNA_glycosylases					26	67					0	0	0.008361	0	0		A	129486	A	A	129486	2	1	123	1	0	0	0	0	0	0	0	1	9742	1132	40	1		1	MPG	16	129486	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		129486	90225267	515	68579											
TMEM8A	58986	broad.mit.edu	37	chr16	426666	426666	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaggcggcagggccaggggGcaccggtgcaggtgagcacc	7	2	20	12	2	0	1	0	1	0	0	0	1	0	1	3	7	2	5	3	7	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:426666G>C	uc002cgu.3	-	5	911	c.782C>G	c.(781-783)GCC>GGC	p.A261G	TMEM8A_uc002cgv.3_Missense_Mutation_p.A68G	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	261	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						GGGCCAGGGGGCACCGGTGCA	0.697													4	18					0	0	0.009096	0	0		C	426666	C	C	426666	3	2	123	1	0	0	0	0	1	0	0	0	16239	1203	42	5	1569	5	TMEM8A	16	426666	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	297180	426666	89928087	516	68580											
TMEM8A	58986	broad.mit.edu	37	chr16	427749	427749	+	Frame_Shift_Del	DEL	G	-	-																															agcgtagaagcacagcatctGggggcacgcggaagcggaag																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:427749delG	uc002cgu.3	-	2	350	c.221delC	c.(220-222)CCAfs	p.P74fs	TMEM8A_uc002cgv.3_5'UTR	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	74	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						CACAGCATCTGGGGGCACGCG	0.687													6	10	---	---	---	---						.	-	427749	-	-	427749	7	5	123	1	0	1	0	1	0	0	0	0	16239	1348	47	0	2142	0	TMEM8A	16	427749	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1083	427749	89927004	517	68581											
C16orf11	146325	broad.mit.edu	37	chr16	614093	614093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggccccccgcctgtactacCcgctgcttctggagcacact	5	8	9	19	3	1	0	0	0	1	0	1	1	1	1	5	2	4	4	5	2	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:614093C>T	uc002chk.2	+	2	1078	c.799C>T	c.(799-801)CCG>TCG	p.P267S	NHLRC4_uc002chl.2_5'Flank|PIGQ_uc010bqw.2_5'Flank	NM_145270	NP_660313	P0CG20	CP011_HUMAN	hypothetical protein LOC146325	267	Pro-rich.									central_nervous_system(1)	1						CCTGTACTACCCGCTGCTTCT	0.741													3	8					0	0	0.004672	0	0		T	614093	T	T	614093	3	4	123	1	0	0	0	0	1	0	0	0	1813	623	22	4	801	4	C16orf11	16	614093	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	186344	614093	89740660	518	68582											
PIGQ	9091	broad.mit.edu	37	chr16	632963	632963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccccaagcactcctggggCgccctgtgccgcaagctgtt	6	7	11	17	2	0	0	0	0	0	0	1	0	1	0	5	2	3	4	5	2	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:632963C>T	uc002cho.2	+	10	1714	c.1612C>T	c.(1612-1614)CGC>TGC	p.R538C	PIGQ_uc010bqw.2_Silent_p.G558G|PIGQ_uc002chn.2_Silent_p.G558G|PIGQ_uc010uui.1_3'UTR|PIGQ_uc002chp.2_Missense_Mutation_p.R108C|uc010uuj.1_3'UTR	NM_148920	NP_683721	Q9BRB3	PIGQ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	538					C-terminal protein lipidation|carbohydrate metabolic process|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity			central_nervous_system(1)	1		Hepatocellular(780;0.00335)				ACTCCTGGGGCGCCCTGTGCC	0.657													42	83					0	0	0.007835	0	0		T	632963	T	T	632963	3	4	123	1	0	0	0	0	1	0	0	0	11915	768	27	1	1712	1	PIGQ	16	632963	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	18870	632963	89721790	519	68583											
RAB40C	57799	broad.mit.edu	37	chr16	677527	677527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcggggccgggggcggcGgcagcaagggcaacagcctc	7	1	19	14	4	0	0	0	0	0	0	1	0	0	0	3	7	4	3	3	7	2	0	rs145997805		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:677527G>A	uc002chr.2	+	6	867	c.751G>A	c.(751-753)GGC>AGC	p.G251S	RAB40C_uc002chq.2_Missense_Mutation_p.G232S|WFIKKN1_uc002chs.1_5'Flank	NM_021168	NP_066991	Q96S21	RB40C_HUMAN	RAB40C, member RAS oncogene family	251					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0		Hepatocellular(780;0.0218)				CGGGGGCGGCGGCAGCAAGGG	0.647													8	95					0	0	0.004482	0	0		A	677527	A	A	677527	3	1	123	1	0	0	0	0	1	0	0	0	12967	1116	39	1	773	1	RAB40C	16	677527	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	44564	677527	89677226	520	68584											
WDR90	197335	broad.mit.edu	37	chr16	701719	701719	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcggttcagtgtgtctcCagtggtccagacgcccagcc	5	10	13	13	2	2	1	1	0	1	1	4	1	3	1	4	2	2	1	4	2	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:701719C>A	uc002cii.1	+	8	866	c.812C>A	c.(811-813)CCA>CAA	p.P271Q	WDR90_uc002cig.1_Missense_Mutation_p.P271Q|WDR90_uc002cih.1_Missense_Mutation_p.P271Q|WDR90_uc002cij.1_RNA	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	271										ovary(1)	1		Hepatocellular(780;0.0218)				AGTGTGTCTCCAGTGGTCCAG	0.642													22	176					7.16444e-05	7.29488e-05	0.021523	1	0		A	701719	A	A	701719	3	1	123	1	0	0	0	0	1	0	0	0	17363	594	21	5	842	5	WDR90	16	701719	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	24192	701719	89653034	521	68585											
MSLN	10232	broad.mit.edu	37	chr16	815536	815536	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctgcacagccccccgtcGacatggtctgtctccacgat	6	10	9	16	3	3	0	0	0	3	0	5	2	3	0	4	1	2	1	4	1	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:815536G>A	uc002cjw.1	+	9	765	c.714G>A	c.(712-714)TCG>TCA	p.S238S	MSLN_uc002cjt.1_Silent_p.S238S|MSLN_uc002cju.1_Silent_p.S238S|MSLN_uc010brd.1_Silent_p.S237S|MSLN_uc002cjv.1_Silent_p.S238S|MSLN_uc002cjx.1_Silent_p.S238S|MSLN_uc002cjy.1_5'Flank	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein	238					cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)				GCCCCCCGTCGACATGGTCTG	0.692													11	29					0	0	0.028581	0	0		A	815536	A	A	815536	2	1	123	1	0	0	0	0	0	0	0	1	9899	1045	37	1		1	MSLN	16	815536	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	113817	815536	89539217	522	68586											
GNG13	51764	broad.mit.edu	37	chr16	849007	849007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcttggacgccatctccCgctggaaggccagctggtac	6	9	13	13	2	2	0	0	0	2	0	3	2	2	2	3	5	2	3	3	5	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:849007C>T	uc002ckh.3	-	2	173	c.71G>A	c.(70-72)CGG>CAG	p.R24Q		NM_016541	NP_057625	Q9P2W3	GBG13_HUMAN	guanine nucleotide binding protein (G protein),	24					cellular response to glucagon stimulus|energy reserve metabolic process		signal transducer activity				0		Hepatocellular(780;0.00335)				CGCCATCTCCCGCTGGAAGGC	0.597													14	33					0	0	0.028581	0	0		T	849007	T	T	849007	3	4	123	1	0	0	0	0	1	0	0	0	6541	652	23	1	140	1	GNG13	16	849007	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	33471	849007	89505746	523	68587											
GNPTG	84572	broad.mit.edu	37	chr16	1412689	1412689	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagaaaatgaacccacccaGctggagggaggtcctgacag	14	4	13	10	0	0	3	0	2	0	1	1	6	1	5	3	3	2	1	3	3	4	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:1412689G>A	uc002clm.2	+	9	722	c.687G>A	c.(685-687)CAG>CAA	p.Q229Q		NM_032520	NP_115909	Q9UJJ9	GNPTG_HUMAN	N-acetylglucosamine-1-phosphotransferase, gamma	229						extracellular region|Golgi apparatus	protein binding			central_nervous_system(1)	1		Hepatocellular(780;0.0893)				AACCCACCCAGCTGGAGGGAG	0.567													34	67					0	0	0.017118	0	0		A	1412689	A	A	1412689	2	1	123	1	0	0	0	0	0	0	0	1	6561	962	34	2		2	GNPTG	16	1412689	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	563682	1412689	88942064	524	68588											
TRAF7	84231	broad.mit.edu	37	chr16	2223817	2223817	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccacatcaacgcgcggcTgaacatgggcatcctaggct	9	7	11	14	3	1	1	1	1	0	0	3	1	3	1	2	3	2	3	2	3	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:2223817T>C	uc002cow.2	+	12	1214	c.1115T>C	c.(1114-1116)CTG>CCG	p.L372P		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	372					activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						AACGCGCGGCTGAACATGGGC	0.697													15	36					0	0	0.014323	0	0		C	2223817	C	C	2223817	3	2	123	1	0	0	0	0	1	0	0	0	16472	1580	55	3	1157	3	TRAF7	16	2223817	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	811128	2223817	88130936	525	68589											
CASKIN1	57524	broad.mit.edu	37	chr16	2239256	2239256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccccaacgcggccgaactCgcaggccaggtccaggggcg	8	2	14	17	5	0	0	0	0	0	0	2	1	1	0	5	5	2	1	5	5	2	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:2239256C>T	uc010bsg.1	-	5	501	c.469G>A	c.(469-471)GAG>AAG	p.E157K		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	157	ANK 4.				signal transduction	cytoplasm				skin(2)	2						CGGCCGAACTCGCAGGCCAGG	0.662													13	44					0	0	0.024245	0	0		T	2239256	T	T	2239256	3	4	123	1	0	0	0	0	1	0	0	0	2669	893	31	1	3890	1	CASKIN1	16	2239256	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	15439	2239256	88115497	526	68590											
PRSS33	260429	broad.mit.edu	37	chr16	2835834	2835834	+	Frame_Shift_Del	DEL	G	-	-																															cgccgctgtcagcacccactGgggggcgatgagcgaccccc																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:2835834delG	uc002cro.1	-	3	368	c.208delC	c.(208-210)CAGfs	p.Q70fs	PRSS33_uc002crp.1_Frame_Shift_Del_p.Q70fs|PRSS33_uc010uwh.1_Frame_Shift_Del_p.Q70fs	NM_152891	NP_690851	Q8NF86	PRS33_HUMAN	protease, serine, 33 precursor	70	Peptidase S1.				proteolysis		serine-type endopeptidase activity				0						AGCACCCACTGGGGGGCGATG	0.721													10	19	---	---	---	---						.	-	2835834	-	-	2835834	7	5	123	1	0	1	0	1	0	0	0	0	12645	1357	47	0	650	0	PRSS33	16	2835834	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	596578	2835834	87518919	527	68591											
BTBD12	84464	broad.mit.edu	37	chr16	3656526	3656526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgggacattttcttcccGcgcagcctcgagggagcact	6	11	11	13	3	1	0	0	0	1	0	3	3	2	2	2	2	2	2	2	2	0	4	rs142739533	by1000genomes	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:3656526G>A	uc002cvp.2	-	3	1336	c.709C>T	c.(709-711)CGG>TGG	p.R237W	BTBD12_uc002cvq.1_Missense_Mutation_p.R237W	NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	237	Interaction with C20orf94, ERCC4 and MSH2.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TTTTCTTCCCGCGCAGCCTCG	0.512								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				12	235					0	0	0.013537	0	0		A	3656526	A	A	3656526	3	1	123	1	0	0	0	0	1	0	0	0	1543	1086	38	1	4847	1	BTBD12	16	3656526	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	820692	3656526	86698227	528	68592											
CREBBP	1387	broad.mit.edu	37	chr16	3778387	3778387	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgccatgcccccagccaTgccggcactcccttgctgct	4	7	8	22	2	0	0	0	0	0	0	1	0	1	0	8	1	5	3	8	1	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:3778387T>C	uc002cvv.2	-	31	6865	c.6661A>G	c.(6661-6663)ATG>GTG	p.M2221V	CREBBP_uc002cvw.2_Missense_Mutation_p.M2183V	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2221					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		CCCCCAGCCATGCCGGCACTC	0.448			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				6	17					0	0	0.00308	0	0		C	3778387	C	C	3778387	3	2	123	1	0	0	0	0	1	0	0	0	3864	1464	51	3	671	3	CREBBP	16	3778387	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	121861	3778387	86576366	529	68593											
SEC14L5	9717	broad.mit.edu	37	chr16	5038171	5038171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgcaggtgttgagcacgtgGtcttcgtgcagacaaacatc	9	10	12	10	3	1	2	0	1	1	1	4	2	1	2	0	2	3	4	0	2	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:5038171G>A	uc002cye.2	+	4	415	c.235G>A	c.(235-237)GTC>ATC	p.V79I		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	79	PRELI/MSF1.					integral to membrane|intracellular	transporter activity				0						TGAGCACGTGGTCTTCGTGCA	0.627													11	22					0	0	0.013537	0	0		A	5038171	A	A	5038171	3	1	123	1	0	0	0	0	1	0	0	0	14010	1261	44	4	245	4	SEC14L5	16	5038171	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1259784	5038171	85316582	530	68594											
GRIN2A	2903	broad.mit.edu	37	chr16	9934526	9934526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaaagcagaaggtgagacGgtgccattacttcttgaaac	15	8	11	7	1	1	4	0	2	1	3	1	5	1	4	1	2	4	1	1	2	5	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:9934526G>A	uc002czo.3	-	7	2177	c.1629C>T	c.(1627-1629)ACC>ACT	p.T543T	GRIN2A_uc010uym.1_Silent_p.T543T|GRIN2A_uc010uyn.1_Silent_p.T386T|GRIN2A_uc002czr.3_Silent_p.T543T	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	543	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AAGGTGAGACGGTGCCATTAC	0.453													33	67					0	0	0.021022	0	0		A	9934526	A	A	9934526	2	1	123	1	0	0	0	0	0	0	0	1	6795	1103	39	1		1	GRIN2A	16	9934526	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4896355	9934526	80420227	531	68595											
EMP2	2013	broad.mit.edu	37	chr16	10631802	10631802	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatgacattagctggatgAtggaggttaggacaaacctc	13	10	11	7	0	0	2	0	2	0	0	1	5	0	5	1	4	3	2	1	4	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:10631802A>G	uc002czx.2	-	4	493	c.299T>C	c.(298-300)ATC>ACC	p.I100T		NM_001424	NP_001415	P54851	EMP2_HUMAN	epithelial membrane protein 2	100	Helical; (Potential).				cell proliferation	integral to membrane					0						TAGCTGGATGATGGAGGTTAG	0.537													42	88					0	0	0.00874	0	0		G	10631802	G	G	10631802	3	3	123	1	0	0	0	0	1	0	0	0	5110	333	12	3	212	3	EMP2	16	10631802	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	697276	10631802	79722951	532	68596											
SMG1	23049	broad.mit.edu	37	chr16	18865138	18865138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcagctttcacagacttgCagaaagatatggcacaagaa	16	9	8	8	0	2	4	2	0	0	4	2	4	2	4	0	1	2	3	0	1	4	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:18865138C>T	uc002dfm.2	-	31	4898	c.4535G>A	c.(4534-4536)TGC>TAC	p.C1512Y	SMG1_uc010bwb.2_Missense_Mutation_p.C1372Y|SMG1_uc010bwa.2_Missense_Mutation_p.C243Y	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	1512	FAT.|Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						CACAGACTTGCAGAAAGATAT	0.398													8	13					0	0	0.008291	0	0		T	18865138	T	T	18865138	3	4	123	1	0	0	0	0	1	0	0	0	14820	710	25	2	6582	2	SMG1	16	18865138	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	8233336	18865138	71489615	533	68597											
ITPRIPL2	162073	broad.mit.edu	37	chr16	19126606	19126606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagcctggaggggcgctgtCgggtcaccttgaccccaggt	6	7	15	13	2	1	1	1	1	0	0	2	2	1	2	4	5	1	1	4	5	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:19126606C>T	uc002dfu.3	+	1	1353	c.823C>T	c.(823-825)CGG>TGG	p.R275W	ITPRIPL2_uc002dft.2_5'UTR	NM_001034841	NP_001030013	Q3MIP1	IPIL2_HUMAN	inositol 1,4,5-triphosphate receptor interacting	275	Cytoplasmic (Potential).					integral to membrane				skin(2)	2						GGGGCGCTGTCGGGTCACCTT	0.652											OREG0023657	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	47	85					0	0	0.01441	0	0		T	19126606	T	T	19126606	3	4	123	1	0	0	0	0	1	0	0	0	7941	875	31	1	825	1	ITPRIPL2	16	19126606	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	261468	19126606	71228147	534	68598											
ACSM2B	348158	broad.mit.edu	37	chr16	20559759	20559759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccggtaaacaataggggCacccatcatactcttgattg	12	10	8	11	1	2	1	1	1	1	0	3	1	3	1	2	3	2	2	2	3	5	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:20559759C>T	uc002dhj.3	-	8	1141	c.931G>A	c.(931-933)GCC>ACC	p.A311T	ACSM2B_uc002dhk.3_Missense_Mutation_p.A311T|ACSM2B_uc010bwf.1_Missense_Mutation_p.A311T	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	311					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						ACAATAGGGGCACCCATCATA	0.507													36	85					0	0	0.010771	0	0		T	20559759	T	T	20559759	3	4	123	1	0	0	0	0	1	0	0	0	184	710	25	2	834	2	ACSM2B	16	20559759	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1433153	20559759	69794994	535	68599											
DNAH3	55567	broad.mit.edu	37	chr16	21080738	21080738	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggtataaaaacttaccgCttgggacataagtgatttcc	13	12	9	7	1	0	1	0	1	0	0	1	2	1	2	2	2	2	2	2	2	7	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:21080738C>A	uc010vbe.1	-	23	3379	c.3379G>T	c.(3379-3381)GCG>TCG	p.A1127S		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1127	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		AAACTTACCGCTTGGGACATA	0.393													21	83					2.25008e-27	2.50891e-27	0.01892	1	0		A	21080738	A	A	21080738	3	1	123	1	0	0	0	0	1	0	0	0	4609	797	28	5	9130	5	DNAH3	16	21080738	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	520979	21080738	69274015	536	68600											
HS3ST2	9956	broad.mit.edu	37	chr16	22926629	22926629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatcactgacccggccggcGagatggggcgagtccaggac	8	5	15	13	4	2	2	2	1	0	1	3	5	3	3	3	5	0	0	3	5	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:22926629G>A	uc002dli.2	+	2	922	c.850G>A	c.(850-852)GAG>AAG	p.E284K	HS3ST2_uc002dlj.2_RNA	NM_006043	NP_006034	Q9Y278	HS3S2_HUMAN	heparan sulfate D-glucosaminyl	284	Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 2 activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(48;0.0299)		CCCGGCCGGCGAGATGGGGCG	0.537													53	144					0	0	0.01441	0	0		A	22926629	A	A	22926629	3	1	123	1	0	0	0	0	1	0	0	0	7380	1059	37	1	856	1	HS3ST2	16	22926629	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1845891	22926629	67428124	537	68601											
KIAA0556	23247	broad.mit.edu	37	chr16	27788937	27788937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgtgtccctgcagctcctgGtggacgacctgcttgtgtac	4	11	12	14	2	0	0	0	0	0	0	2	2	2	1	4	2	4	4	4	2	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:27788937G>A	uc002dow.2	+	26	4582	c.4558G>A	c.(4558-4560)GTG>ATG	p.V1520M	KIAA0556_uc010vco.1_Missense_Mutation_p.V22M	NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	1520								p.V1520V(1)		ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						GCAGCTCCTGGTGGACGACCT	0.507													20	31					0	0	0.010504	0	0		A	27788937	A	A	27788937	3	1	123	1	0	0	0	0	1	0	0	0	8199	1261	44	4	4660	4	KIAA0556	16	27788937	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4862308	27788937	62565816	538	68602											
SBK1	388228	broad.mit.edu	37	chr16	28331595	28331595	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgcgtcaagcgcgtgagcGgcaccatcccttacacggcg	7	5	13	16	7	1	1	1	1	0	0	2	1	2	1	3	2	3	1	3	2	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:28331595G>A	uc002dpd.2	+	4	1417	c.628G>A	c.(628-630)GGC>AGC	p.G210S		NM_001024401	NP_001019572	Q52WX2	SBK1_HUMAN	SH3-binding kinase 1	210	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|kidney(1)	2						GCGCGTGAGCGGCACCATCCC	0.721													11	10					0	0	0.013537	0	0		A	28331595	A	A	28331595	3	1	123	1	0	0	0	0	1	0	0	0	13885	1116	39	1	638	1	SBK1	16	28331595	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	542658	28331595	62023158	539	68603											
SPNS1	83985	broad.mit.edu	37	chr16	28993747	28993747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgtggagatcagccgcCggctccgccactccaacccc	6	6	12	17	3	1	1	1	0	0	1	3	2	3	1	7	3	2	1	7	3	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:28993747C>T	uc010vdi.1	+	9	1176	c.1036C>T	c.(1036-1038)CGG>TGG	p.R346W	uc010vct.1_Intron|SPNS1_uc002drx.2_Missense_Mutation_p.R273W|SPNS1_uc002dsa.2_Missense_Mutation_p.R346W|SPNS1_uc002drz.2_Missense_Mutation_p.R294W|SPNS1_uc010byp.2_Missense_Mutation_p.R272W|SPNS1_uc010byq.1_Missense_Mutation_p.R278W|LAT_uc010vdj.1_5'Flank|LAT_uc002dsb.2_5'Flank|LAT_uc002dsd.2_5'Flank|LAT_uc002dsc.2_5'Flank|LAT_uc010vdk.1_5'Flank|LAT_uc010vdl.1_5'Flank	NM_001142448	NP_001135920	Q9H2V7	SPNS1_HUMAN	spinster homolog 1 isoform 1	346					lipid transport|transmembrane transport	integral to membrane|mitochondrial inner membrane	protein binding				0						GATCAGCCGCCGGCTCCGCCA	0.657													10	80					0	0	0.008291	0	0		T	28993747	T	T	28993747	3	4	123	1	0	0	0	0	1	0	0	0	15099	643	23	1	1066	1	SPNS1	16	28993747	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	662152	28993747	61361006	540	68604											
TAOK2	9344	broad.mit.edu	37	chr16	29998848	29998848	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggggcatatctcgactctgGttgcgggttctgctgcgcct	3	12	14	12	4	3	0	0	0	3	0	4	1	3	0	1	4	3	4	1	4	1	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:29998848G>A	uc002dva.1	+	16	4038	c.3255G>A	c.(3253-3255)TGG>TGA	p.W1085*	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Nonsense_Mutation_p.W1092*|TAOK2_uc002dvd.1_Nonsense_Mutation_p.W912*	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	1085					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CTCGACTCTGGTTGCGGGTTC	0.682													32	69					0	0	0.013726	0	0		A	29998848	A	A	29998848	4	1	123	1	0	0	0	0	0	1	0	0	15573	1270	44	4	3313	4	TAOK2	16	29998848	Nonsense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1005101	29998848	60355905	541	68605											
ZNF629	23361	broad.mit.edu	37	chr16	30794491	30794491	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtgccgcagcaacgtggcGctcagggtgaaggtcttgcc	6	8	16	11	3	2	1	1	1	1	0	2	1	2	1	2	4	4	3	2	4	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:30794491G>A	uc002dzs.1	-	3	1366	c.1158C>T	c.(1156-1158)AGC>AGT	p.S386S		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	386	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			GCAACGTGGCGCTCAGGGTGA	0.647													8	16					0	0	0.004482	0	0		A	30794491	A	A	30794491	2	1	123	1	0	0	0	0	0	0	0	1	18078	1078	38	1		1	ZNF629	16	30794491	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	795643	30794491	59560262	542	68606											
ARMC5	79798	broad.mit.edu	37	chr16	31473647	31473647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaccttagccctcgtccGtgccctcctggaactcagcc	6	9	8	18	2	1	1	1	1	0	0	4	2	3	2	6	1	4	0	6	1	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:31473647G>A	uc002ecc.2	+	3	1308	c.779G>A	c.(778-780)CGT>CAT	p.R260H	ARMC5_uc010vfn.1_Missense_Mutation_p.R355H|ARMC5_uc010vfo.1_Missense_Mutation_p.R292H|ARMC5_uc002eca.3_Missense_Mutation_p.R260H|ARMC5_uc010vfp.1_Intron|ARMC5_uc002ecb.2_Missense_Mutation_p.R260H	NM_001105247	NP_001098717	Q96C12	ARMC5_HUMAN	armadillo repeat containing 5 isoform a	260	ARM 3.						binding			pancreas(1)	1						GCCCTCGTCCGTGCCCTCCTG	0.692													14	34					0	0	0.006122	0	0		A	31473647	A	A	31473647	3	1	123	1	0	0	0	0	1	0	0	0	955	1145	40	1	789	1	ARMC5	16	31473647	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	679156	31473647	58881106	543	68607											
ADCY7	113	broad.mit.edu	37	chr16	50338447	50338447	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgagacccacgtccccaaCgggcggaggcctaaggtagg	9	4	16	12	3	0	1	0	1	0	1	1	3	1	2	4	6	1	1	4	6	3	2	rs144290211		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:50338447C>T	uc002egd.1	+	10	1813	c.1545C>T	c.(1543-1545)AAC>AAT	p.N515N	ADCY7_uc002egb.1_Silent_p.N515N|ADCY7_uc002egc.1_Silent_p.N515N	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	515	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	ACGTCCCCAACGGGCGGAGGC	0.632													17	51					0	0	0.008871	0	0		T	50338447	T	T	50338447	2	4	123	1	0	0	0	0	0	0	0	1	299	535	19	1		1	ADCY7	16	50338447	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	18864800	50338447	40016306	544	68608											
CHD9	80205	broad.mit.edu	37	chr16	53243458	53243458	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgcagaatacccaggtgaGggtcatgtctgagaagaagc	12	8	14	7	0	2	4	1	2	1	3	2	5	2	4	1	2	3	2	1	2	4	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:53243458G>T	uc002ehb.2	+	2	1681	c.1517G>T	c.(1516-1518)AGG>ATG	p.R506M	CHD9_uc002egy.2_Missense_Mutation_p.R506M|CHD9_uc002egz.1_Missense_Mutation_p.R506M|CHD9_uc002eha.1_Missense_Mutation_p.R506M|CHD9_uc002ehc.2_Missense_Mutation_p.R506M|CHD9_uc002ehd.2_Missense_Mutation_p.R32M	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	506					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				ACCCAGGTGAGGGTCATGTCT	0.393													6	33					4.096e-09	4.30317e-09	0.021553	1	0		T	53243458	T	T	53243458	3	4	123	1	0	0	0	0	1	0	0	0	3335	1000	35	5	1523	5	CHD9	16	53243458	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2905011	53243458	37111295	545	68609											
PLA2G15	23659	broad.mit.edu	37	chr16	68289217	68289217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccatggtggagagccttGtgggctggggctacacacgg	8	7	16	10	1	0	1	0	0	0	1	0	2	0	1	2	6	2	2	2	6	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:68289217G>A	uc002evr.2	+	4	519	c.436G>A	c.(436-438)GTG>ATG	p.V146M	PLA2G15_uc010vld.1_Missense_Mutation_p.V146M|PLA2G15_uc010vle.1_Silent_p.L93L|PLA2G15_uc010vlf.1_Intron|PLA2G15_uc002evs.2_Translation_Start_Site	NM_012320	NP_036452	Q8NCC3	PAG15_HUMAN	lysophospholipase 3 (lysosomal phospholipase A2)	146					fatty acid catabolic process	extracellular region|lysosome	lysophospholipase activity|phosphatidylcholine-sterol O-acyltransferase activity|phospholipid binding			ovary(1)	1						GGAGAGCCTTGTGGGCTGGGG	0.562													21	29					0	0	0.021523	0	0		A	68289217	A	A	68289217	3	1	123	1	0	0	0	0	1	0	0	0	12011	1377	48	4	450	4	PLA2G15	16	68289217	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	15045759	68289217	22065536	546	68610											
ADAMTS18	170692	broad.mit.edu	37	chr16	77326974	77326974	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgacttctaatccataccTcgctccacgaagaagcgacc	12	8	7	14	3	1	2	0	1	1	1	4	4	3	2	4	0	2	1	4	0	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:77326974T>C	uc002ffc.3	-	20	3607	c.3188A>G	c.(3187-3189)GAG>GGG	p.E1063G	ADAMTS18_uc010chc.1_Missense_Mutation_p.E651G	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1063	TSP type-1 4.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						AATCCATACCTCGCTCCACGA	0.363													32	72					0	0	0.013726	0	0		C	77326974	C	C	77326974	3	2	123	1	0	0	0	0	1	0	0	0	263	1565	54	3	493	3	ADAMTS18	16	77326974	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	9037757	77326974	13027779	547	68611											
LRRC50	123872	broad.mit.edu	37	chr16	84183889	84183889	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccctgcaaaaactctgcaaGcagcacaagctttatattac	14	10	5	12	0	1	0	0	0	1	0	2	0	2	0	1	0	7	5	1	0	7	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:84183889G>C	uc002fhl.3	+	3	475	c.294G>C	c.(292-294)AAG>AAC	p.K98N	LRRC50_uc010chi.1_RNA	NM_178452	NP_848547	Q8NEP3	DAAF1_HUMAN	leucine rich repeat containing 50	98			Missing (in CILD13).		axonemal dynein complex assembly|cilium morphogenesis	cilium axoneme|cytoplasm|spindle pole	dynein binding				0						AACTCTGCAAGCAGCACAAGC	0.368									Kartagener_syndrome				7	62					0	0	0.001984	0	0		C	84183889	C	C	84183889	3	2	123	1	0	0	0	0	1	0	0	0	9027	962	34	5	304	5	LRRC50	16	84183889	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	6856915	84183889	6170864	548	68612											
ZCCHC14	23174	broad.mit.edu	37	chr16	87445525	87445525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagtcaggccactcgagccGcagctgccgctgcagccaca	9	4	11	17	3	1	0	1	0	0	0	2	1	1	0	4	1	5	4	4	1	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:87445525G>A	uc002fjz.1	-	12	2418	c.2391C>T	c.(2389-2391)TGC>TGT	p.C797C	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Silent_p.C573C	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	797					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		CACTCGAGCCGCAGCTGCCGC	0.612													4	12					0	0	0.014758	0	0		A	87445525	A	A	87445525	2	1	123	1	0	0	0	0	0	0	0	1	17608	1079	38	1		1	ZCCHC14	16	87445525	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3261636	87445525	2909228	549	68613											
SPG7	6687	broad.mit.edu	37	chr16	89598886	89598886	+	Frame_Shift_Del	DEL	G	-	-																															ctcaggcctcggcgctgcccGtgtgcggagcctctttaagg																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr16:89598886delG	uc002fnj.2	+	9	1187	c.1166delG	c.(1165-1167)CGTfs	p.R389fs	SPG7_uc002fni.2_Frame_Shift_Del_p.R389fs	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1	389	Mitochondrial matrix (Potential).				cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		GGCGCTGCCCGTGTGCGGAGC	0.582													62	99	---	---	---	---						.	-	89598886	-	-	89598886	7	5	123	1	0	1	0	1	0	0	0	0	15069	1145	40	0	1200	0	SPG7	16	89598886	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2153361	89598886	755867	550	68614											
PITPNA	5306	broad.mit.edu	37	chr17	1442213	1442213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctatatatacggcttccaCgtgtttccacgcctcaggct	7	13	8	13	3	2	0	1	0	1	0	4	0	4	0	3	2	1	3	3	2	4	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:1442213C>T	uc002fst.3	-	6	662	c.406G>A	c.(406-408)GTG>ATG	p.V136M	PITPNA_uc010cjt.2_Missense_Mutation_p.V20M|PITPNA_uc010cju.2_Missense_Mutation_p.V34M	NM_006224	NP_006215	Q00169	PIPNA_HUMAN	phosphatidylinositol transfer protein, alpha	136					axon guidance|lipid metabolic process|visual perception	cytoplasm	phosphatidylcholine transmembrane transporter activity|phosphatidylinositol transporter activity|protein binding	p.V136M(1)		ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0845)		ACGGCTTCCACGTGTTTCCAC	0.473													19	37					0	0	0.021523	0	0		T	1442213	T	T	1442213	3	4	123	1	0	0	0	0	1	0	0	0	11966	536	19	1	426	1	PITPNA	17	1442213	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08		1442213	79752997	551	68615											
KIAA0664	23277	broad.mit.edu	37	chr17	2594035	2594035	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggagctggtgccgccgCgccacctcggctttcagatt	4	10	12	15	4	1	1	1	0	0	1	3	2	2	2	5	3	2	2	5	3	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:2594035C>T	uc002fuy.1	-	26	3869	c.3783G>A	c.(3781-3783)GCG>GCA	p.A1261A	KIAA0664_uc002fux.1_Silent_p.A1194A|KIAA0664_uc010ckc.1_3'UTR	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	1261							binding			breast(2)	2						GGTGCCGCCGCGCCACCTCGG	0.672													5	51					0	0	0.021553	0	0		T	2594035	T	T	2594035	2	4	123	1	0	0	0	0	0	0	0	1	8205	755	27	1		1	KIAA0664	17	2594035	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1151822	2594035	78601175	552	68616											
ARHGEF15	22899	broad.mit.edu	37	chr17	8219155	8219155	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggtgcatgcccacgctgtgGggcctttctcggtgtatgtg	3	13	15	10	2	1	0	0	0	1	0	2	0	1	0	2	4	2	3	2	4	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:8219155G>T	uc002glc.2	+	8	1625	c.1504G>T	c.(1504-1506)GGG>TGG	p.G502W	ARHGEF15_uc002gld.2_Missense_Mutation_p.G502W|ARHGEF15_uc010vuw.1_Missense_Mutation_p.G391W	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	502	DH.				negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CCACGCTGTGGGGCCTTTCTC	0.582													17	59					1.02788e-11	1.10217e-11	0.00499	1	0		T	8219155	T	T	8219155	3	4	123	1	0	0	0	0	1	0	0	0	898	1232	43	5	1530	5	ARHGEF15	17	8219155	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	5625120	8219155	72976055	553	68617											
ODF4	146852	broad.mit.edu	37	chr17	8243654	8243654	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggttgcctttatcctactAttggtcgtggccttctccaa	5	16	8	12	1	1	0	0	0	1	0	4	0	2	0	4	3	2	1	4	3	4	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:8243654A>T	uc002gle.1	+	1	467	c.285A>T	c.(283-285)CTA>CTT	p.L95L		NM_153007	NP_694552	Q2M2E3	ODFP4_HUMAN	outer dense fiber of sperm tails 4	95	Helical; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)	1						TTATCCTACTATTGGTCGTGG	0.557													11	10					0	0	0.008291	0	0		T	8243654	T	T	8243654	2	4	123	1	0	0	0	0	0	0	0	1	10852	436	16	5		5	ODF4	17	8243654	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	24499	8243654	72951556	554	68618											
MYH4	4622	broad.mit.edu	37	chr17	10346710	10346710	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattactcttcacttatgacTtttgtgtgaacctcccgact	9	16	5	11	1	2	2	1	2	1	0	3	3	3	2	2	0	2	0	2	0	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:10346710T>A	uc002gmn.2	-	40	5913	c.5802A>T	c.(5800-5802)AAA>AAT	p.K1934N	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1934	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CACTTATGACTTTTGTGTGAA	0.443													48	96					0	0	0.01441	0	0		A	10346710	A	A	10346710	3	1	123	1	0	0	0	0	1	0	0	0	10055	1606	56	5	21	5	MYH4	17	10346710	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	2103056	10346710	70848500	555	68619											
MYH3	4621	broad.mit.edu	37	chr17	10532982	10532982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agattctgcgatatccgcacGttcctcggcctcctccagct	6	11	8	16	4	1	1	0	0	1	1	6	2	5	1	5	1	2	3	5	1	1	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:10532982G>A	uc002gmq.1	-	39	5805	c.5728C>T	c.(5728-5730)CGT>TGT	p.R1910C		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1910	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						ATATCCGCACGTTCCTCGGCC	0.557													30	51					0	0	0.010818	0	0		A	10532982	A	A	10532982	3	1	123	1	0	0	0	0	1	0	0	0	10054	1145	40	1	102	1	MYH3	17	10532982	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	186272	10532982	70662228	556	68620											
ZNF287	57336	broad.mit.edu	37	chr17	16467045	16467045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccaatagttctgtaacGtcacagtcttgtataattcc	10	16	6	9	1	3	0	1	0	2	0	5	0	5	0	2	0	1	4	2	0	5	8			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:16467045G>A	uc002gqi.2	-	4	1049	c.596C>T	c.(595-597)ACG>ATG	p.T199M		NM_020653	NP_065704	Q9HBT7	ZN287_HUMAN	zinc finger protein 287	192	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.083)		GTTCTGTAACGTCACAGTCTT	0.458													25	59					0	0	0.01892	0	0		A	16467045	A	A	16467045	3	1	123	1	0	0	0	0	1	0	0	0	17850	1145	40	1	1701	1	ZNF287	17	16467045	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	5934063	16467045	64728165	557	68621											
CYTSB	92521	broad.mit.edu	37	chr17	19999968	19999968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacccacgaagtcaagcatgCggagtgcagccaagccctgg	11	4	13	13	2	1	0	1	0	0	0	1	3	1	1	3	2	5	2	3	2	3	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:19999968C>T	uc002gwq.2	+	2	149	c.4C>T	c.(4-6)CGG>TGG	p.R2W	CYTSB_uc010cqx.2_Missense_Mutation_p.R2W|CYTSB_uc002gwr.2_Missense_Mutation_p.R2W|CYTSB_uc002gws.2_Missense_Mutation_p.R2W	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	2						nucleus					0						GTCAAGCATGCGGAGTGCAGC	0.572													37	94					0	0	0.023175	0	0		T	19999968	T	T	19999968	3	4	123	1	0	0	0	0	1	0	0	0	4213	759	27	1	6	1	CYTSB	17	19999968	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3532923	19999968	61195242	558	68622											
CYTSB	92521	broad.mit.edu	37	chr17	20013849	20013849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagccatctcggagctcaCggagagccgcctgaggagcg	8	4	16	13	5	2	2	1	1	1	1	3	6	2	5	3	4	4	1	3	4	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:20013849C>T	uc002gwq.2	+	3	402	c.257C>T	c.(256-258)ACG>ATG	p.T86M	CYTSB_uc010cqx.2_Missense_Mutation_p.T86M|CYTSB_uc002gwr.2_Missense_Mutation_p.T86M|CYTSB_uc002gws.2_Missense_Mutation_p.T86M	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	86						nucleus					0						TCGGAGCTCACGGAGAGCCGC	0.652													14	26					0	0	0.016723	0	0		T	20013849	T	T	20013849	3	4	123	1	0	0	0	0	1	0	0	0	4213	536	19	1	263	1	CYTSB	17	20013849	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	13881	20013849	61181361	559	68623											
MAP2K3	5606	broad.mit.edu	37	chr17	21203933	21203933	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatggggtggtagagaaggTgcggcacgcccagagcggca	9	5	18	9	3	0	2	0	0	0	2	0	3	0	2	1	6	2	3	1	6	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:21203933T>C	uc002gys.2	+	4	507	c.242T>C	c.(241-243)GTG>GCG	p.V81A	MAP2K3_uc002gyt.2_Missense_Mutation_p.V52A|MAP2K3_uc002gyu.2_Missense_Mutation_p.V52A	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	81	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		GTAGAGAAGGTGCGGCACGCC	0.612													6	9					0	0	0.004482	0	0		C	21203933	C	C	21203933	3	2	123	1	0	0	0	0	1	0	0	0	9256	1696	59	3	256	3	MAP2K3	17	21203933	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1190084	21203933	59991277	560	68624											
ZNF207	7756	broad.mit.edu	37	chr17	30687623	30687623	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttttttaacagaaagtcAaaaaaagaagcaacaagatg	20	11	6	4	0	1	3	1	0	0	3	1	3	1	3	0	0	3	1	0	0	8	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:30687623A>G	uc002hhh.3	+	4	462	c.314A>G	c.(313-315)CAA>CGA	p.Q105R	ZNF207_uc002hhj.3_Missense_Mutation_p.Q105R|ZNF207_uc002hhi.3_Missense_Mutation_p.Q105R|ZNF207_uc010csz.2_Missense_Mutation_p.Q108R|ZNF207_uc002hhk.1_Missense_Mutation_p.Q105R|ZNF207_uc002hhl.1_RNA	NM_003457	NP_003448	O43670	ZN207_HUMAN	zinc finger protein 207 isoform a	105						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			ACAGAAAGTCAAAAAAAGAAG	0.294													13	33					0	0	0.020292	0	0		G	30687623	G	G	30687623	3	3	123	1	0	0	0	0	1	0	0	0	17790	130	5	3	328	3	ZNF207	17	30687623	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	9483690	30687623	50507587	561	68625											
MYO1D	4642	broad.mit.edu	37	chr17	31048195	31048195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgggtttgatgcaacgaaCgtaatatggttcctaaagaa	14	12	10	5	2	0	2	0	1	0	1	1	3	1	2	1	2	3	4	1	2	7	6	rs143604215		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:31048195C>T	uc002hho.1	-	15	1771	c.1759G>A	c.(1759-1761)GTT>ATT	p.V587I	MYO1D_uc002hhp.1_Missense_Mutation_p.V587I	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	587	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			ATGCAACGAACGTAATATGGT	0.383													52	114					0	0	0.01441	0	0		T	31048195	T	T	31048195	3	4	123	1	0	0	0	0	1	0	0	0	10089	536	19	1	1293	1	MYO1D	17	31048195	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	360572	31048195	50147015	562	68626											
SLFN5	162394	broad.mit.edu	37	chr17	33591296	33591296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttaataaatacagaaatGcgccctttctctcaaggaat	15	11	6	9	1	2	1	1	0	1	1	3	3	2	2	1	1	2	0	1	1	7	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:33591296G>A	uc002hjf.3	+	4	1350	c.1233G>A	c.(1231-1233)ATG>ATA	p.M411I	SLFN5_uc010wcg.1_Intron	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	411					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		ATACAGAAATGCGCCCTTTCT	0.398													20	76					0	0	0.010504	0	0		A	33591296	A	A	33591296	3	1	123	1	0	0	0	0	1	0	0	0	14762	1319	46	2	1243	2	SLFN5	17	33591296	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2543101	33591296	47603914	563	68627											
GPR179	440435	broad.mit.edu	37	chr17	36482500	36482500	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagctggtccttggctcaaGccctgaaggtccttgtagtt	7	13	11	10	0	1	1	1	1	0	0	3	1	3	1	3	3	2	4	3	3	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:36482500G>T	uc002hpz.2	-	11	6973	c.6952C>A	c.(6952-6954)CTT>ATT	p.L2318I		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	2318	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				CTTGGCTCAAGCCCTGAAGGT	0.517													65	141					4.09166e-32	4.6047e-32	0.01441	1	0		T	36482500	T	T	36482500	3	4	123	1	0	0	0	0	1	0	0	0	6689	971	34	5	155	5	GPR179	17	36482500	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2891204	36482500	44712710	564	68628											
GPR179	440435	broad.mit.edu	37	chr17	36484966	36484966	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagagattctctacctgtccCcagactcagcatttcctgcc	9	11	6	15	0	2	2	1	0	1	2	5	3	4	2	5	0	3	1	5	0	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:36484966C>A	uc002hpz.2	-	11	4507	c.4486G>T	c.(4486-4488)GGG>TGG	p.G1496W		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	1496	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				CTACCTGTCCCCAGACTCAGC	0.493													60	107					2.01871e-26	2.24748e-26	0.01441	1	0		A	36484966	A	A	36484966	3	1	123	1	0	0	0	0	1	0	0	0	6689	623	22	5	2621	5	GPR179	17	36484966	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2466	36484966	44710244	565	68629											
GRB7	2886	broad.mit.edu	37	chr17	37898611	37898611	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccggaagacctttgcccAgcccctgggacccctcctgg	5	8	10	18	1	1	1	0	0	1	1	3	3	2	3	8	3	2	0	8	3	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:37898611A>G	uc002hsr.2	+	2	307	c.57A>G	c.(55-57)CCA>CCG	p.P19P	GRB7_uc002hss.2_Silent_p.P19P|GRB7_uc010cwc.2_Silent_p.P19P|GRB7_uc002hst.2_Silent_p.P19P	NM_005310	NP_005301	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	19					blood coagulation|epidermal growth factor receptor signaling pathway|leukocyte migration|negative regulation of translation|positive regulation of cell migration|stress granule assembly	cytosol|focal adhesion|stress granule	phosphatidylinositol binding|protein kinase binding|SH3/SH2 adaptor activity			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			ACCTTTGCCCAGCCCCTGGGA	0.622													75	119					0	0	0.01441	0	0		G	37898611	G	G	37898611	2	3	123	1	0	0	0	0	0	0	0	1	6775	175	7	3		3	GRB7	17	37898611	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	1413645	37898611	43296599	566	68630											
KRT23	25984	broad.mit.edu	37	chr17	39092584	39092584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggcctcctccagggcgCgaaccttctccaggtaggag	6	9	13	13	2	1	0	0	0	1	0	4	2	3	1	5	4	1	2	5	4	2	3	rs148131200	by1000genomes	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:39092584C>T	uc002hvm.1	-	2	861	c.272G>A	c.(271-273)CGC>CAC	p.R91H	KRT23_uc010wfl.1_Intron|KRT23_uc010cxf.1_Intron|KRT23_uc010cxg.2_Missense_Mutation_p.R91H|KRT23_uc002hvn.1_Missense_Mutation_p.R91H	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	91	Rod.|Coil 1A.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				CTCCAGGGCGCGAACCTTCTC	0.552													47	118					0	0	0.01441	0	0		T	39092584	T	T	39092584	3	4	123	1	0	0	0	0	1	0	0	0	8476	768	27	1	1028	1	KRT23	17	39092584	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1193973	39092584	42102626	567	68631											
PLCD3	113026	broad.mit.edu	37	chr17	43196353	43196353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggccgcttcagcagccgccGcaggaactcctcgatctcag	7	6	11	17	5	2	0	2	0	1	0	5	2	3	1	4	2	3	3	4	2	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:43196353G>A	uc002iib.2	-	5	856	c.742C>T	c.(742-744)CGG>TGG	p.R248W		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	248	EF-hand 2.				intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	AGCAGCCGCCGCAGGAACTCC	0.632													3	20					0	0	0.014758	0	0		A	43196353	A	A	43196353	3	1	123	1	0	0	0	0	1	0	0	0	12051	1086	38	1	1670	1	PLCD3	17	43196353	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4103769	43196353	37998857	568	68632											
MBTD1	54799	broad.mit.edu	37	chr17	49270274	49270274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatgtatcctcaagagaCgatgaataattcgagttact	16	11	7	7	2	1	2	1	1	0	1	3	5	2	2	1	0	1	2	1	0	7	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:49270274C>T	uc002itr.3	-	15	1903	c.1559G>A	c.(1558-1560)CGT>CAT	p.R520H	MBTD1_uc002itp.3_Missense_Mutation_p.R356H|MBTD1_uc002itq.3_3'UTR	NM_017643	NP_060113	Q05BQ5	MBTD1_HUMAN	mbt domain containing 1	520	MBT 4.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(22;1.54e-08)			CCTCAAGAGACGATGAATAAT	0.423													30	72					0	0	0.009535	0	0		T	49270274	T	T	49270274	3	4	123	1	0	0	0	0	1	0	0	0	9378	536	19	1	339	1	MBTD1	17	49270274	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	6073921	49270274	31924936	569	68633											
TRIM37	4591	broad.mit.edu	37	chr17	57165734	57165734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttacttcttctgcccaacGacaatttactagttctcgta	9	16	5	11	2	3	0	0	0	3	0	4	1	3	0	1	0	4	3	1	0	6	8			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:57165734G>A	uc002iwy.3	-	4	643	c.199C>T	c.(199-201)CGT>TGT	p.R67C	TRIM37_uc002iwz.3_Missense_Mutation_p.R67C|TRIM37_uc002ixa.3_5'UTR|TRIM37_uc010woc.1_Missense_Mutation_p.R33C	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	67						perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TCTGCCCAACGACAATTTACT	0.368									Mulibrey_Nanism				8	30					0	0	0.004482	0	0		A	57165734	A	A	57165734	3	1	123	1	0	0	0	0	1	0	0	0	16537	1058	37	1	2787	1	TRIM37	17	57165734	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	7895460	57165734	24029476	570	68634											
SKA2	348235	broad.mit.edu	37	chr17	57189649	57189649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccatttcttcataaatctgGcatgtgaaatttgaattgct	11	17	6	7	0	3	2	1	2	2	0	4	2	4	2	1	1	1	2	1	1	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:57189649G>A	uc002ixd.2	-	4	631	c.355C>T	c.(355-357)CCA>TCA	p.P119S	uc002ixb.2_Intron|SKA2_uc002ixc.2_RNA|SKA2_uc010dde.1_3'UTR|SKA2_uc002ixe.2_RNA	NM_182620	NP_872426	Q8WVK7	SKA2_HUMAN	spindle and KT associated 2 isoform 1	119					cell division|chromosome segregation|mitotic anaphase|mitotic prometaphase|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytosol|spindle microtubule	microtubule binding				0						CATAAATCTGGCATGTGAAAT	0.338													14	35					0	0	0.028581	0	0		A	57189649	A	A	57189649	3	1	123	1	0	0	0	0	1	0	0	0	14378	1203	42	2	14	2	SKA2	17	57189649	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	23915	57189649	24005561	571	68635											
C17orf71	55181	broad.mit.edu	37	chr17	57290392	57290392	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgagaagaggccaaacttCgttgatcgacaggcatccac	13	7	10	11	2	0	3	0	2	0	2	3	5	1	3	2	2	1	2	2	2	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:57290392C>T	uc002ixi.2	+	3	2250	c.2208C>T	c.(2206-2208)TTC>TTT	p.F736F		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	736					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					GGCCAAACTTCGTTGATCGAC	0.458													9	121					0	0	0.006214	0	0		T	57290392	T	T	57290392	2	4	123	1	0	0	0	0	0	0	0	1	1881	883	31	1		1	C17orf71	17	57290392	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	100743	57290392	23904818	572	68636											
APPBP2	10513	broad.mit.edu	37	chr17	58539239	58539239	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacccataatctagcagtgTatcagaatattttgggtgtt	12	14	9	6	0	2	1	1	0	1	1	2	2	2	1	1	1	2	3	1	1	6	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:58539239T>C	uc002iys.1	-	8	1156	c.868A>G	c.(868-870)ACA>GCA	p.T290A	APPBP2_uc010ddl.1_Missense_Mutation_p.T219A	NM_006380	NP_006371	Q92624	APBP2_HUMAN	amyloid beta precursor protein-binding protein	290	TPR 4.				intracellular protein transport	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|nucleus	microtubule motor activity|protein binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.67e-13)|all cancers(12;1.44e-11)|Colorectal(3;0.01)			TCTAGCAGTGTATCAGAATAT	0.289													52	110					0	0	0.01441	0	0		C	58539239	C	C	58539239	3	2	123	1	0	0	0	0	1	0	0	0	816	1638	57	3	913	3	APPBP2	17	58539239	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1248847	58539239	22655971	573	68637											
BCAS3	54828	broad.mit.edu	37	chr17	59155774	59155774	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaaaccatccatccctcAggccaaaccacagttatctc	13	9	3	16	0	3	0	2	0	1	0	6	0	5	0	5	1	2	1	5	1	4	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:59155774A>G	uc002iyv.3	+	22	2365	c.2256A>G	c.(2254-2256)TCA>TCG	p.S752S	BCAS3_uc002iyu.3_Silent_p.S737S|BCAS3_uc002iyw.3_Silent_p.S733S|BCAS3_uc002iyy.3_Silent_p.S508S|BCAS3_uc002iyz.3_Silent_p.S306S|BCAS3_uc002iza.3_Silent_p.S291S	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	752						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			TCCATCCCTCAGGCCAAACCA	0.473													20	46					0	0	0.010504	0	0		G	59155774	G	G	59155774	2	3	123	1	0	0	0	0	0	0	0	1	1353	175	7	3		3	BCAS3	17	59155774	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	616535	59155774	22039436	574	68638											
TBX4	9496	broad.mit.edu	37	chr17	59560530	59560530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgtacaccagctatagcGtgcagacgatggagactgtg	10	7	13	11	4	0	2	0	0	0	2	0	4	0	2	2	1	4	3	2	1	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:59560530G>A	uc002izi.2	+	8	1336	c.1291G>A	c.(1291-1293)GTG>ATG	p.V431M	TBX4_uc010ddo.2_Missense_Mutation_p.V432M|TBX4_uc010woy.1_Missense_Mutation_p.V432M	NM_018488	NP_060958	P57082	TBX4_HUMAN	T-box 4	431					leg morphogenesis|skeletal system morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						CAGCTATAGCGTGCAGACGAT	0.647													30	63					0	0	0.012213	0	0		A	59560530	A	A	59560530	3	1	123	1	0	0	0	0	1	0	0	0	15685	1145	40	1	1321	1	TBX4	17	59560530	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	404756	59560530	21634680	575	68639											
PSMC5	5705	broad.mit.edu	37	chr17	61907223	61907223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatctagttcgcctattgCgggaggagctacagctgctg	7	10	13	11	2	1	0	0	0	1	0	2	2	1	2	2	2	5	4	2	2	3	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:61907223C>T	uc002jcb.2	+	4	219	c.178C>T	c.(178-180)CGG>TGG	p.R60W	FTSJ3_uc002jbz.2_5'Flank|FTSJ3_uc002jca.2_5'Flank|PSMC5_uc010ddy.2_Missense_Mutation_p.R37W|PSMC5_uc010ddz.2_5'UTR|PSMC5_uc002jcc.2_Missense_Mutation_p.R52W|PSMC5_uc002jcd.2_Missense_Mutation_p.R52W	NM_002805	NP_002796	P62195	PRS8_HUMAN	proteasome 26S ATPase subunit 5	60			R -> Q (in a colorectal cancer sample; somatic mutation).		anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of programmed cell death|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|thyrotropin-releasing hormone receptor binding|transcription cofactor activity|transcription factor binding	p.R60Q(1)		large_intestine(1)	1						TCGCCTATTGCGGGAGGAGCT	0.522													27	61					0	0	0.007291	0	0		T	61907223	T	T	61907223	3	4	123	1	0	0	0	0	1	0	0	0	12712	759	27	1	192	1	PSMC5	17	61907223	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2346693	61907223	19287987	576	68640											
ABCA9	10350	broad.mit.edu	37	chr17	67013900	67013900	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctatgttctgtcgcctcAgtgaatgtaaaaagttatca	12	14	8	7	1	3	1	2	1	1	0	4	1	3	1	1	0	1	4	1	0	7	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:67013900A>C	uc002jhu.2	-	21	2941	c.2798T>G	c.(2797-2799)CTG>CGG	p.L933R	ABCA9_uc010dez.2_Missense_Mutation_p.L933R	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	933					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					CTGTCGCCTCAGTGAATGTAA	0.353													54	167					0	0	0.01441	0	0		C	67013900	C	C	67013900	3	2	123	1	0	0	0	0	1	0	0	0	39	188	7	5	2152	5	ABCA9	17	67013900	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	5106677	67013900	14181310	577	68641											
C17orf80	55028	broad.mit.edu	37	chr17	71232728	71232728	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccagtttcattctgtatcGcagtcaagtagtcaaagtct	11	14	7	9	1	5	0	3	0	2	0	6	0	5	0	1	0	1	4	1	0	5	5	rs35997714	byFrequency	TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:71232728G>A	uc002jjm.3	+	3	1301	c.1107G>A	c.(1105-1107)TCG>TCA	p.S369S	C17orf80_uc010wqu.1_Silent_p.S369S|C17orf80_uc010dfj.2_Silent_p.S369S|C17orf80_uc002jjk.1_Silent_p.S369S|C17orf80_uc002jjl.3_Silent_p.S369S	NM_017941	NP_060411	Q9BSJ5	CQ080_HUMAN	lung cancer-related protein 8 isoform a	369	Extracellular (Potential).					integral to membrane				skin(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			ATTCTGTATCGCAGTCAAGTA	0.433													16	58					0	0	0.00499	0	0		A	71232728	A	A	71232728	2	1	123	1	0	0	0	0	0	0	0	1	1888	1074	38	1		1	C17orf80	17	71232728	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	4218828	71232728	9962482	578	68642											
GALR2	8811	broad.mit.edu	37	chr17	74072932	74072932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctgcaccttcgtcttcaGctacctgcttcctgtgctgg	4	14	8	15	1	3	0	1	0	2	0	5	0	4	0	3	1	5	4	3	1	1	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:74072932G>A	uc002jqm.1	+	2	665	c.584G>A	c.(583-585)AGC>AAC	p.S195N	ZACN_uc002jqn.2_5'Flank|ZACN_uc002jqo.2_5'Flank|ZACN_uc010dgu.2_5'Flank	NM_003857	NP_003848	O43603	GALR2_HUMAN	galanin receptor 2	195	Helical; Name=5; (Potential).				digestion|elevation of cytosolic calcium ion concentration|feeding behavior|learning or memory|muscle contraction	integral to membrane|plasma membrane	galanin receptor activity				0						TTCGTCTTCAGCTACCTGCTT	0.701													11	24					0	0	0.028581	0	0		A	74072932	A	A	74072932	3	1	123	1	0	0	0	0	1	0	0	0	6243	971	34	2	590	2	GALR2	17	74072932	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2840204	74072932	7122278	579	68643											
RHBDF2	79651	broad.mit.edu	37	chr17	74473082	74473082	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgccgcgccggggcccgggGactggggctcggccatactc	3	6	17	15	5	0	0	0	0	0	0	2	1	0	1	4	7	2	1	4	7	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:74473082G>A	uc002jrq.1	-	9	1325	c.1032C>T	c.(1030-1032)GTC>GTT	p.V344V	RHBDF2_uc002jrp.1_Silent_p.V315V|RHBDF2_uc002jrr.1_Silent_p.V196V|RHBDF2_uc010wtf.1_Silent_p.V315V|RHBDF2_uc002jrs.1_Silent_p.V339V	NM_024599	NP_078875	Q6PJF5	RHDF2_HUMAN	rhomboid, veinlet-like 6 isoform 1	344	Cytoplasmic (Potential).				negative regulation of protein secretion|protein transport|proteolysis	endoplasmic reticulum membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity				0						GGGGCCCGGGGACTGGGGCTC	0.647													36	68					0	0	0.007835	0	0		A	74473082	A	A	74473082	2	1	123	1	0	0	0	0	0	0	0	1	13345	1161	41	4		4	RHBDF2	17	74473082	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	400150	74473082	6722128	580	68644											
SYNGR2	9144	broad.mit.edu	37	chr17	76167919	76167919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaccccaacactgcctacGcctcctacccaggtgcatct	8	7	7	19	2	1	0	0	0	1	0	2	1	2	1	6	2	5	1	6	2	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:76167919G>A	uc002juu.1	+	4	604	c.577G>A	c.(577-579)GCC>ACC	p.A193T	SYNGR2_uc002jut.2_Silent_p.T222T|SYNGR2_uc002juv.1_3'UTR|SYNGR2_uc010dhi.1_RNA	NM_004710	NP_004701	O43760	SNG2_HUMAN	synaptogyrin 2	193						integral to plasma membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.0994)			CACTGCCTACGCCTCCTACCC	0.627													67	94					0	0	0.01441	0	0		A	76167919	A	A	76167919	3	1	123	1	0	0	0	0	1	0	0	0	15474	1087	38	1	591	1	SYNGR2	17	76167919	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1694837	76167919	5027291	581	68645											
USP36	57602	broad.mit.edu	37	chr17	76831482	76831482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggagtcctgcgcccacgcGgaagacccgctcccacctca	7	5	11	18	4	1	1	1	0	0	1	3	3	3	3	5	2	1	1	5	2	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:76831482G>A	uc002jvz.1	-	4	680	c.355C>T	c.(355-357)CGC>TGC	p.R119C	USP36_uc002jwa.1_Missense_Mutation_p.R119C|USP36_uc002jwd.1_Missense_Mutation_p.R119C	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	119					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			GCGCCCACGCGGAAGACCCGC	0.592													10	39					0	0	0.010729	0	0		A	76831482	A	A	76831482	3	1	123	1	0	0	0	0	1	0	0	0	17093	1116	39	1	3084	1	USP36	17	76831482	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	663563	76831482	4363728	582	68646											
CCDC40	55036	broad.mit.edu	37	chr17	78055376	78055376	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcaagccaaatccaccgacGgcgagattgaggcctataag	14	6	10	11	3	1	2	1	1	0	1	2	4	2	2	4	2	1	0	4	2	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:78055376G>A	uc010dht.2	+	11	1621	c.1594G>A	c.(1594-1596)GGC>AGC	p.G532S	CCDC40_uc002jxm.3_Missense_Mutation_p.G315S|CCDC40_uc002jxn.3_5'UTR	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	532	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			ATCCACCGACGGCGAGATTGA	0.542													36	48					0	0	0.021022	0	0		A	78055376	A	A	78055376	3	1	123	1	0	0	0	0	1	0	0	0	2815	1116	39	1	1636	1	CCDC40	17	78055376	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1223894	78055376	3139834	583	68647											
AATK	9625	broad.mit.edu	37	chr17	79108177	79108177	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggcctcaccttgaacccGataccgcccttcttacagca	9	8	6	18	2	2	1	1	1	1	0	2	2	2	1	6	1	4	1	6	1	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:79108177G>A	uc010dia.2	-	2	260	c.180C>T	c.(178-180)ATC>ATT	p.I60I	MIR1250_hsa-mir-1250|MI0006385_5'Flank	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	60				MLACLCCKKGGIGFK -> HQVKVQGCWGRWRWQ (in Ref. 2).		integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CCTTGAACCCGATACCGCCCT	0.657													9	25					0	0	0.020292	0	0		A	79108177	A	A	79108177	2	1	123	1	0	0	0	0	0	0	0	1	26	1048	37	1		1	AATK	17	79108177	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1052801	79108177	2087033	584	68648											
SLC16A3	9123	broad.mit.edu	37	chr17	80195528	80195528	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaggtgcggccctactcCgtctacctcttcagcttctc	5	11	10	15	2	4	0	1	0	3	0	6	1	5	1	3	3	4	1	3	3	3	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr17:80195528C>T	uc002kea.2	+	4	1021	c.882C>T	c.(880-882)TCC>TCT	p.S294S	SLC16A3_uc002kee.2_Silent_p.S294S|SLC16A3_uc002keb.2_Silent_p.S294S|SLC16A3_uc002kec.2_Silent_p.S294S|SLC16A3_uc002ked.2_Silent_p.S294S	NM_001042422	NP_001035887	O15427	MOT4_HUMAN	solute carrier family 16, member 3	294	Cytoplasmic (Potential).				blood coagulation|leukocyte migration|organic anion transport|pyruvate metabolic process	actin cytoskeleton|integral to plasma membrane|membrane fraction|nuclear membrane	secondary active monocarboxylate transmembrane transporter activity|symporter activity			upper_aerodigestive_tract(1)|lung(1)	2	Breast(20;0.00285)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.227)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0149)		Pyruvic acid(DB00119)	GGCCCTACTCCGTCTACCTCT	0.652													42	90					0	0	0.01441	0	0		T	80195528	T	T	80195528	2	4	123	1	0	0	0	0	0	0	0	1	14434	639	23	1		1	SLC16A3	17	80195528	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1087351	80195528	999682	585	68649											
ENOSF1	55556	broad.mit.edu	37	chr18	683370	683370	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcacatcccagcgctggttgGcatccatcatctgcaaaaag	11	8	9	13	1	2	0	1	0	1	0	4	0	4	0	2	2	2	5	2	2	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:683370G>C	uc002kku.3	-	11	827	c.752C>G	c.(751-753)GCC>GGC	p.A251G	ENOSF1_uc002kkt.3_Missense_Mutation_p.A169G|ENOSF1_uc010dke.2_RNA|ENOSF1_uc010dkf.2_Missense_Mutation_p.A272G|ENOSF1_uc002kkv.3_Missense_Mutation_p.A238G|ENOSF1_uc002kkw.3_Missense_Mutation_p.A70G|ENOSF1_uc002kkx.3_Missense_Mutation_p.A175G	NM_017512	NP_059982	Q7L5Y1	ENOF1_HUMAN	enolase superfamily 1 isoform rTS beta	251					cellular amino acid catabolic process	mitochondrion	isomerase activity|metal ion binding			ovary(1)	1						GCGCTGGTTGGCATCCATCAT	0.572													21	87					0	0	0.010504	0	0		C	683370	C	C	683370	3	2	123	1	0	0	0	0	1	0	0	0	5133	1203	42	5	603	5	ENOSF1	18	683370	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		683370	77393878	586	68650											
ADCYAP1	116	broad.mit.edu	37	chr18	908355	908355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagtcgctcgtggcccGgggcgtggggtaagagtttg	4	9	18	10	4	0	1	0	0	0	1	2	1	0	1	2	5	1	4	2	5	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:908355G>A	uc010dkg.2	+	4	451	c.332G>A	c.(331-333)CGG>CAG	p.R111Q	ADCYAP1_uc010dkh.2_Missense_Mutation_p.R111Q	NM_001099733	NP_001093203	P18509	PACA_HUMAN	adenylate cyclase activating polypeptide	111					activation of adenylate cyclase activity|cell-cell signaling|female pregnancy|nerve growth factor receptor signaling pathway|regulation of G-protein coupled receptor protein signaling pathway	extracellular region|soluble fraction	neuropeptide hormone activity|peptide hormone receptor binding				0						CTCGTGGCCCGGGGCGTGGGG	0.582													10	34					0	0	0.010729	0	0		A	908355	A	A	908355	3	1	123	1	0	0	0	0	1	0	0	0	302	1116	39	1	342	1	ADCYAP1	18	908355	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	224985	908355	77168893	587	68651											
TGIF1	7050	broad.mit.edu	37	chr18	3452124	3452124	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccacggcttttctggcgtcCccccgactctcccgcggcac	3	9	9	20	5	2	0	0	0	2	0	5	1	4	0	5	3	0	2	5	3	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:3452124C>A	uc002klz.2	+	1	534	c.147C>A	c.(145-147)TCC>TCA	p.S49S	TGIF1_uc002klu.2_Intron|TGIF1_uc002klv.2_Intron|TGIF1_uc002klx.2_Intron|TGIF1_uc002klw.2_Intron|TGIF1_uc010dkm.1_Intron|TGIF1_uc002kly.2_Intron|TGIF1_uc002kma.2_Intron|TGIF1_uc002kmb.2_5'Flank	NM_170695	NP_733796	Q15583	TGIF1_HUMAN	TG-interacting factor isoform a	49					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Esophageal squamous(4;0.0859)	Colorectal(8;0.0104)				TTCTGGCGTCCCCCCGACTCT	0.701													68	129					3.1711e-36	3.58536e-36	0.01441	1	0		A	3452124	A	A	3452124	2	1	123	1	0	0	0	0	0	0	0	1	15850	610	22	5		5	TGIF1	18	3452124	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2543769	3452124	74625124	588	68652											
ZNF519	162655	broad.mit.edu	37	chr18	14106215	14106215	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagttaaatgtttgttatgActagttgtcaaatattggct	12	17	8	4	0	1	1	1	1	0	0	1	1	1	1	0	1	0	5	0	1	6	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:14106215A>G	uc002kst.1	-	3	477	c.324T>C	c.(322-324)AGT>AGC	p.S108S	ZNF519_uc002ksq.1_Intron|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_Intron	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTTGTTATGACTAGTTGTCA	0.348													14	39					0	0	0.020292	0	0		G	14106215	G	G	14106215	2	3	123	1	0	0	0	0	0	0	0	1	17989	272	10	3		3	ZNF519	18	14106215	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	10654091	14106215	63971033	589	68653											
RIOK3	8780	broad.mit.edu	37	chr18	21053585	21053585	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaaaagaaatgcacaatctCgcaaggtaaagaaaatattg	21	7	8	5	1	1	2	0	0	1	2	2	3	1	2	0	1	1	3	0	1	10	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:21053585C>T	uc002kui.3	+	8	1625	c.1008C>T	c.(1006-1008)CTC>CTT	p.L336L	RIOK3_uc010dls.2_Silent_p.L336L|RIOK3_uc010xas.1_Silent_p.L320L|RIOK3_uc010xat.1_Intron	NM_003831	NP_003822	O14730	RIOK3_HUMAN	sudD suppressor of bimD6 homolog	336	Protein kinase.				chromosome segregation		ATP binding|protein binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(21;0.000106)|all_epithelial(16;6.74e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0202)|Ovarian(20;0.127)					TGCACAATCTCGCAAGGTAAA	0.318													7	22					0	0	0.001984	0	0		T	21053585	T	T	21053585	2	4	123	1	0	0	0	0	0	0	0	1	13404	871	31	1		1	RIOK3	18	21053585	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	6947370	21053585	57023663	590	68654											
LAMA3	3909	broad.mit.edu	37	chr18	21426421	21426421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcccaacgtcatcgggCggcagtgcacccgctgtgca	7	5	13	16	4	1	0	1	0	0	0	2	0	1	0	3	2	4	4	3	2	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:21426421C>T	uc002kuq.2	+	31	3966	c.3880C>T	c.(3880-3882)CGG>TGG	p.R1294W	LAMA3_uc002kur.2_Missense_Mutation_p.R1294W	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1294	Laminin EGF-like 9.|Domain III B.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CGTCATCGGGCGGCAGTGCAC	0.657													12	38					0	0	0.016723	0	0		T	21426421	T	T	21426421	3	4	123	1	0	0	0	0	1	0	0	0	8623	759	27	1	4002	1	LAMA3	18	21426421	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	372836	21426421	56650827	591	68655											
DSG2	1829	broad.mit.edu	37	chr18	29101199	29101199	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtctgttgaagagttgagTgcagcacgtaagagtctttt	9	13	14	5	1	2	4	0	2	2	2	2	4	2	4	0	1	2	5	0	1	2	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:29101199T>C	uc002kwu.3	+	5	704	c.516T>C	c.(514-516)AGT>AGC	p.S172S		NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	172	Extracellular (Potential).|Cadherin 2.				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			AAGAGTTGAGTGCAGCACGTA	0.328													17	53					0	0	0.006122	0	0		C	29101199	C	C	29101199	2	2	123	1	0	0	0	0	0	0	0	1	4783	1693	59	3		3	DSG2	18	29101199	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	7674778	29101199	48976049	592	68656											
MEP1B	4225	broad.mit.edu	37	chr18	29784177	29784177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtaggaaataggcgggttgGgaagcaagaactttccatcg	13	8	14	6	2	0	1	0	0	0	1	2	3	1	3	1	4	2	3	1	4	6	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:29784177G>A	uc002kxj.3	+	7	448	c.401G>A	c.(400-402)GGG>GAG	p.G134E		NM_005925	NP_005916	Q16820	MEP1B_HUMAN	meprin A beta precursor	134	Extracellular (Potential).|Metalloprotease.				digestion|proteolysis	extracellular space|integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)	2						AGGCGGGTTGGGAAGCAAGAA	0.507													7	10					0	0	0.004482	0	0		A	29784177	A	A	29784177	3	1	123	1	0	0	0	0	1	0	0	0	9494	1232	43	4	427	4	MEP1B	18	29784177	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	682978	29784177	48293071	593	68657											
PIK3C3	5289	broad.mit.edu	37	chr18	39629562	39629562	+	Frame_Shift_Del	DEL	A	-	-																															ctggataaccttttgctaacAaaaacaggtaacaattaatg																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:39629562delA	uc002lap.2	+	21	2314	c.2256delA	c.(2254-2256)ACAfs	p.T752fs	PIK3C3_uc010xcl.1_Frame_Shift_Del_p.T689fs|PIK3C3_uc002laq.2_Frame_Shift_Del_p.T237fs|PIK3C3_uc002lar.1_Frame_Shift_Del_p.T136fs	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	752	PI3K/PI4K.				cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						TTTTGCTAACAAAAACAGGTA	0.353										TSP Lung(28;0.18)			21	41	---	---	---	---						.	-	39629562	-	-	39629562	7	5	123	1	0	1	0	1	0	0	0	0	11931	117	5	0	2338	0	PIK3C3	18	39629562	Frame_Shift_Del	DEL	A	TCGA-CD-A4MJ-01A-11D-A25D-08	9845385	39629562	38447686	594	68658											
ST8SIA5	29906	broad.mit.edu	37	chr18	44272146	44272146	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatacttgaactggttggcCtcagagatgttcatcgccca	10	11	10	10	1	2	3	2	1	0	2	3	4	2	3	2	2	2	2	2	2	2	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:44272146C>T	uc002lcj.1	-	3	865	c.297G>A	c.(295-297)GAG>GAA	p.E99E	ST8SIA5_uc002lci.1_5'UTR|ST8SIA5_uc010xcy.1_Silent_p.E135E|ST8SIA5_uc010xcz.1_Silent_p.E68E|ST8SIA5_uc010dno.1_Silent_p.E135E	NM_013305	NP_037437	O15466	SIA8E_HUMAN	ST8 alpha-N-acetyl-neuraminide	99	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						ACTGGTTGGCCTCAGAGATGT	0.512													22	56					0	0	0.016522	0	0		T	44272146	T	T	44272146	2	4	123	1	0	0	0	0	0	0	0	1	15260	680	24	4		4	ST8SIA5	18	44272146	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	4642584	44272146	33805102	595	68659											
MBD1	4152	broad.mit.edu	37	chr18	47803200	47803200	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccttagaccaacactcAcccaggagcagggaatgaag	14	5	9	13	0	2	2	2	1	0	1	2	4	2	4	3	2	2	1	3	2	4	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:47803200A>G	uc010dow.1	-	4	829	c.392_splice	c.e4+1	p.G131_splice	MBD1_uc002lef.2_Intron|MBD1_uc002leg.2_Splice_Site_p.G131_splice|MBD1_uc010xdi.1_Splice_Site_p.G157_splice|MBD1_uc002leh.3_Splice_Site_p.G131_splice|MBD1_uc002len.2_Splice_Site_p.G131_splice|MBD1_uc002lei.3_Splice_Site_p.G131_splice|MBD1_uc002lej.3_Splice_Site_p.G131_splice|MBD1_uc002lek.3_Splice_Site_p.G131_splice|MBD1_uc002lel.3_Splice_Site_p.G131_splice|MBD1_uc002lem.3_Splice_Site_p.G131_splice|MBD1_uc010xdj.1_Splice_Site_p.G131_splice|MBD1_uc010xdk.1_Splice_Site_p.G131_splice|MBD1_uc010dox.1_Splice_Site_p.G131_splice|MBD1_uc002leo.2_Splice_Site_p.G131_splice	NM_015846	NP_056671	Q9UIS9	MBD1_HUMAN	methyl-CpG binding domain protein 1 isoform 1						negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|nuclear speck	methyl-CpG binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						ACCAACACTCACCCAGGAGCA	0.597													43	159					0	0	0.01441	0	0		G	47803200	G	G	47803200	5	3	123	1	0	0	0	0	0	0	1	0	9360	173	6	3	1669	3	MBD1	18	47803200	Splice_Site	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	3531054	47803200	30274048	596	68660											
ONECUT2	9480	broad.mit.edu	37	chr18	55103659	55103659	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctgggcaacgggctaggCggcctccacaacgcgcagca	8	3	14	16	5	0	0	0	0	0	0	1	0	1	0	3	4	3	5	3	4	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:55103659C>T	uc002lgo.2	+	1	743	c.711C>T	c.(709-711)GGC>GGT	p.G237G		NM_004852	NP_004843	O95948	ONEC2_HUMAN	one cut domain, family member 2	237					organ morphogenesis	nucleus	sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3		Colorectal(73;0.234)		READ - Rectum adenocarcinoma(59;0.227)|Colorectal(16;0.245)		ACGGGCTAGGCGGCCTCCACA	0.657													12	30					0	0	0.010729	0	0		T	55103659	T	T	55103659	2	4	123	1	0	0	0	0	0	0	0	1	10888	755	27	1		1	ONECUT2	18	55103659	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	7300459	55103659	22973589	597	68661											
FBXO15	201456	broad.mit.edu	37	chr18	71796740	71796740	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatggccattttttgccatAccatataacagtaactgatg	12	13	7	9	0	0	1	0	1	0	0	0	1	0	1	3	1	4	2	3	1	4	7			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr18:71796740A>G	uc002lle.2	-	5	793	c.457T>C	c.(457-459)TAT>CAT	p.Y153H	FBXO15_uc002llf.2_Missense_Mutation_p.Y229H	NM_152676	NP_689889	Q8NCQ5	FBX15_HUMAN	F-box protein 15 isoform 1	153										ovary(2)|pancreas(1)	3		Esophageal squamous(42;0.103)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.143)		TTTTTGCCATACCATATAACA	0.368													21	26					0	0	0.010504	0	0		G	71796740	G	G	71796740	3	3	123	1	0	0	0	0	1	0	0	0	5742	391	14	3	871	3	FBXO15	18	71796740	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	16693081	71796740	6280508	598	68662											
UQCR11	10975	broad.mit.edu	37	chr19	1599523	1599523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcccacaccagccccacGgcgcccacagcgccccatgt	7	3	10	21	3	0	0	0	0	0	0	0	0	0	0	7	2	2	0	7	2	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:1599523G>A	uc002ltm.2	-	2	110	c.87C>T	c.(85-87)GCC>GCT	p.A29A		NM_006830	NP_006821	O14957	QCR10_HUMAN	ubiquinol-cytochrome c reductase, 6.4kDa	29	Helical; (Potential).				respiratory electron transport chain	integral to membrane|mitochondrial inner membrane|respiratory chain	electron carrier activity			ovary(1)|breast(1)	2						CCAGCCCCACGGCGCCCACAG	0.587													29	69					0	0	0.009535	0	0		A	1599523	A	A	1599523	2	1	123	1	0	0	0	0	0	0	0	1	17043	1103	39	1		1	UQCR11	19	1599523	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		1599523	57529460	599	68663											
GNA11	2767	broad.mit.edu	37	chr19	3110205	3110205	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgcatcatccacggcgcCggctactcggaggaggacaa	10	5	13	13	5	1	0	1	0	0	0	3	3	2	3	2	5	2	2	2	5	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:3110205C>T	uc002lxd.2	+	2	437	c.195C>T	c.(193-195)GCC>GCT	p.A65A		NM_002067	NP_002058	P29992	GNA11_HUMAN	guanine nucleotide binding protein (G protein),	65					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation|regulation of action potential	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			eye(70)|skin(16)	86		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.79e-05)|OV - Ovarian serous cystadenocarcinoma(105;2.68e-113)|Epithelial(107;1.22e-111)|all cancers(105;5.78e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00141)|STAD - Stomach adenocarcinoma(1328;0.181)		TCCACGGCGCCGGCTACTCGG	0.662			Mis		uveal melanoma								5	21					0	0	0.014758	0	0		T	3110205	T	T	3110205	2	4	123	1	0	0	0	0	0	0	0	1	6514	639	23	1		1	GNA11	19	3110205	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1510682	3110205	56018778	600	68664											
C19orf29	58509	broad.mit.edu	37	chr19	3613305	3613305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtccacctcggcctccgCggggccgccctccgaggagg	3	4	15	19	6	0	0	0	0	0	0	4	2	3	1	8	5	0	0	8	5	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:3613305C>T	uc002lyh.2	-	9	1590	c.1537G>A	c.(1537-1539)GCG>ACG	p.A513T	C19orf29_uc010xho.1_5'UTR|C19orf29_uc010dtn.2_Missense_Mutation_p.A361T|C19orf29_uc002lyi.3_Missense_Mutation_p.A513T|C19orf29_uc010dto.2_RNA|C19orf29_uc010xhp.1_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	513						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		TCGGCCTCCGCGGGGCCGCCC	0.781													11	20					0	0	0.016723	0	0		T	3613305	T	T	3613305	3	4	123	1	0	0	0	0	1	0	0	0	1921	768	27	1	747	1	C19orf29	19	3613305	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	503100	3613305	55515678	601	68665											
UBXN6	80700	broad.mit.edu	37	chr19	4453490	4453490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcggggctcccgctgaCggtggcttcggcttgaagtt	3	10	16	12	4	0	2	0	2	0	0	3	2	1	2	2	6	0	5	2	6	1	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:4453490C>T	uc002man.1	-	3	373	c.277G>A	c.(277-279)GTC>ATC	p.V93I	UBXN6_uc010dty.1_Missense_Mutation_p.V40I|UBXN6_uc002mam.1_Missense_Mutation_p.V40I	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	93						microtubule organizing center|nucleus	protein binding				0						CTCCCGCTGACGGTGGCTTCG	0.632													11	35					0	0	0.020292	0	0		T	4453490	T	T	4453490	3	4	123	1	0	0	0	0	1	0	0	0	16943	536	19	1	1084	1	UBXN6	19	4453490	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	840185	4453490	54675493	602	68666											
HDGFRP2	84717	broad.mit.edu	37	chr19	4488752	4488752	+	Frame_Shift_Del	DEL	G	-	-																															tgacgaggacgatgaggaccGgggggtcatggccgtcacag																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:4488752delG	uc002mao.2	+	4	461	c.368delG	c.(367-369)CGGfs	p.R123fs	HDGFRP2_uc002map.2_Frame_Shift_Del_p.R123fs|HDGFRP2_uc010dtz.1_RNA	NM_001001520	NP_001001520	Q7Z4V5	HDGR2_HUMAN	hepatoma-derived growth factor-related protein 2	123					transcription, DNA-dependent	nucleus	DNA binding|protein binding				0						GATGAGGACCGGGGGGTCATG	0.657													3	5	---	---	---	---						.	-	4488752	-	-	4488752	7	5	123	1	0	1	0	1	0	0	0	0	7036	1116	39	0	382	0	HDGFRP2	19	4488752	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	35262	4488752	54640231	603	68667											
SLC25A23	79085	broad.mit.edu	37	chr19	6444302	6444304	+	In_Frame_Del	DEL	TTC	-	-																															tgtactgctgaagccaccagTtcttcagagtctggagtgga																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:6444302_6444304delTTC	uc002mex.1	-	9	1222_1224	c.1080_1082delGAA	c.(1078-1083)AAGAAC>AAC	p.K360del	SLC25A23_uc010duu.1_RNA|SLC25A23_uc002meu.2_RNA|SLC25A23_uc002mev.2_RNA|SLC25A23_uc002mew.1_RNA|SLC25A23_uc010xjd.1_In_Frame_Del_p.K121del	NM_024103	NP_077008	Q9BV35	SCMC3_HUMAN	solute carrier family 25, member 23	360	Solcar 2.|Mitochondrial intermembrane (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)|pancreas(1)	2						AAGCCACCAGTTCTTCAGAGTCT	0.606													10	13	---	---	---	---						.	-	6444304	-	-	6444302	7	5	123	1	0	1	0	1	0	0	0	0	14511	1725	60	0	332	0	SLC25A23	19	6444302	In_Frame_Del	DEL	TTC	TCGA-CD-A4MJ-01A-11D-A25D-08	1955550	6444302	52684681	604	68668											
PNPLA6	10908	broad.mit.edu	37	chr19	7607930	7607930	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagagtcttgctgcaccAcgccaaagctggcaccatca	11	6	9	15	1	2	1	1	0	1	1	2	1	2	1	3	1	4	5	3	1	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:7607930A>G	uc010xjq.1	+	15	1790	c.1595A>G	c.(1594-1596)CAC>CGC	p.H532R	PNPLA6_uc002mgq.1_Missense_Mutation_p.H484R|PNPLA6_uc010xjp.1_Intron|PNPLA6_uc002mgr.1_Missense_Mutation_p.H484R|PNPLA6_uc002mgs.2_Missense_Mutation_p.H523R	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	523	cNMP 2.|Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						TTGCTGCACCACGCCAAAGCT	0.627													18	27					0	0	0.010504	0	0		G	7607930	G	G	7607930	3	3	123	1	0	0	0	0	1	0	0	0	12188	159	6	3	1649	3	PNPLA6	19	7607930	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	1163628	7607930	51521053	605	68669											
HNRNPM	4670	broad.mit.edu	37	chr19	8530239	8530239	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacatgccaggagagcaaTgcaaaaggtgatggctacga	15	6	13	7	1	0	3	0	2	0	1	0	5	0	3	1	3	5	3	1	3	5	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:8530239T>C	uc010dwe.2	+	6	550	c.470T>C	c.(469-471)ATG>ACG	p.M157T	HNRNPM_uc010dwc.1_Missense_Mutation_p.M157T|HNRNPM_uc010xke.1_Missense_Mutation_p.M157T|HNRNPM_uc010dwd.2_Missense_Mutation_p.M157T|HNRNPM_uc002mka.2_Missense_Mutation_p.M37T	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	157					alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						AGGAGAGCAATGCAAAAGGTG	0.473													12	147					0	0	0.013537	0	0		C	8530239	C	C	8530239	3	2	123	1	0	0	0	0	1	0	0	0	7287	1464	51	3	492	3	HNRNPM	19	8530239	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	922309	8530239	50598744	606	68670											
PRAM1	84106	broad.mit.edu	37	chr19	8556025	8556025	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcctggcggcttgctgAactgagggcgcttcatctgg	4	10	15	12	2	2	2	1	2	1	0	3	2	3	2	2	5	2	3	2	5	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:8556025A>G	uc002mkd.2	-	5	1613	c.1593T>C	c.(1591-1593)GTT>GTC	p.V531V	PRAM1_uc002mkc.2_Silent_p.V530V	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	579							lipid binding|protein binding				0						CGGCTTGCTGAACTGAGGGCG	0.612													5	16					0	0	0.006214	0	0		G	8556025	G	G	8556025	2	3	123	1	0	0	0	0	0	0	0	1	12445	233	9	3		3	PRAM1	19	8556025	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	25786	8556025	50572958	607	68671											
MUC16	94025	broad.mit.edu	37	chr19	8993492	8993492	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccagggcctgtggggtcaGggcggtgggtgcagatggca	5	6	21	9	1	1	1	1	0	0	1	1	1	1	1	2	7	1	2	2	7	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:8993492G>T	uc002mkp.2	-	66	41801	c.41597C>A	c.(41596-41598)CCT>CAT	p.P13866H	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.P683H|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTGGGGTCAGGGCGGTGGGT	0.592													20	89					8.13963e-23	9.0206e-23	0.008871	1	0		T	8993492	T	T	8993492	3	4	123	1	0	0	0	0	1	0	0	0	9991	1000	35	5	2002	5	MUC16	19	8993492	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	437467	8993492	50135491	608	68672											
MUC16	94025	broad.mit.edu	37	chr19	9069762	9069762	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgagtgtggaaatctcTgagtcacaggtgagtgagtc	9	11	13	8	0	3	4	1	4	2	0	5	5	3	5	1	2	0	0	1	2	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:9069762T>C	uc002mkp.2	-	3	17888	c.17684A>G	c.(17683-17685)CAG>CGG	p.Q5895R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5897	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGGAAATCTCTGAGTCACAGG	0.512													38	76					0	0	0.010771	0	0		C	9069762	C	C	9069762	3	2	123	1	0	0	0	0	1	0	0	0	9991	1580	55	3	26167	3	MUC16	19	9069762	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	76270	9069762	50059221	609	68673											
ZNF699	374879	broad.mit.edu	37	chr19	9408627	9408627	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaggtcctcctcttgtTcccactgggagatcagatgg	6	12	11	12	0	3	2	1	0	2	2	6	3	6	2	3	3	1	2	3	3	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:9408627T>A	uc002mlc.1	-	3	215	c.215A>T	c.(214-216)GAA>GTA	p.E72V		NM_198535	NP_940937	Q32M78	ZN699_HUMAN	zinc finger protein 699	72	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTCCTCTTGTTCCCACTGGGA	0.488													28	78					0	0	0.017118	0	0		A	9408627	A	A	9408627	3	1	123	1	0	0	0	0	1	0	0	0	18126	1783	62	5	1725	5	ZNF699	19	9408627	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	338865	9408627	49720356	610	68674											
ZNF562	54811	broad.mit.edu	37	chr19	9763836	9763836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgtgtatagcaaggcccGtgtactgagtgaaggcttgg	9	11	15	6	1	0	2	0	2	0	0	0	2	0	2	1	3	2	5	1	3	6	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:9763836G>A	uc010xks.1	-	6	1233	c.1070C>T	c.(1069-1071)ACG>ATG	p.T357M	ZNF562_uc002mly.2_Missense_Mutation_p.T357M|ZNF562_uc002mlx.2_Missense_Mutation_p.T285M|ZNF562_uc010xkt.1_Missense_Mutation_p.T320M|ZNF562_uc010xku.1_Missense_Mutation_p.T288M|ZNF562_uc010xkv.1_Missense_Mutation_p.T356M|ZNF562_uc010xkw.1_Missense_Mutation_p.T241M	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	357	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGCAAGGCCCGTGTACTGAGT	0.428													37	76					0	0	0.021022	0	0		A	9763836	A	A	9763836	3	1	123	1	0	0	0	0	1	0	0	0	18018	1145	40	1	214	1	ZNF562	19	9763836	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	355209	9763836	49365147	611	68675											
ZNF846	162993	broad.mit.edu	37	chr19	9868448	9868448	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaaatgggtactaaggccCgaggattgagtgaaagcttt	12	11	12	6	1	0	2	0	2	0	0	0	4	0	3	1	3	2	2	1	3	5	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:9868448C>T	uc002mmb.1	-	6	1836	c.1305G>A	c.(1303-1305)TCG>TCA	p.S435S	ZNF846_uc010xky.1_Intron|ZNF846_uc010xkz.1_Intron|ZNF846_uc010dww.2_Intron|ZNF846_uc002mmc.1_Silent_p.S306S	NM_001077624	NP_001071092	Q147U1	ZN846_HUMAN	zinc finger protein 846	435	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TACTAAGGCCCGAGGATTGAG	0.408													5	74					0	0	0.021553	0	0		T	9868448	T	T	9868448	2	4	123	1	0	0	0	0	0	0	0	1	18217	639	23	1		1	ZNF846	19	9868448	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	104612	9868448	49260535	612	68676											
MRPL4	51073	broad.mit.edu	37	chr19	10368906	10368906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccccgcaggaggtgttGcccatggcccccggggcccc	3	6	14	18	2	0	0	0	0	0	0	1	1	1	1	7	5	1	2	7	5	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:10368906G>A	uc002mnm.2	+	7	608	c.454G>A	c.(454-456)GCC>ACC	p.A152T	MRPL4_uc002mnn.2_Missense_Mutation_p.A152T|MRPL4_uc002mno.2_Missense_Mutation_p.A152T	NM_146387	NP_666499	Q9BYD3	RM04_HUMAN	mitochondrial ribosomal protein L4 isoform a	152					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1		Renal(1328;0.0112)	OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;1.99e-06)|all cancers(31;4.81e-06)	Lung(535;0.00705)		AGGAGGTGTTGCCCATGGCCC	0.637													7	50					0	0	0.004482	0	0		A	10368906	A	A	10368906	3	1	123	1	0	0	0	0	1	0	0	0	9821	1319	46	2	476	2	MRPL4	19	10368906	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	500458	10368906	48760077	613	68677											
ILF3	3609	broad.mit.edu	37	chr19	10794602	10794602	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccctttccaggtgctgggtAtggaagctatgggtacggag	7	11	15	8	1	0	0	0	0	0	0	2	2	2	2	2	5	3	4	2	5	4	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:10794602A>G	uc002mpn.2	+	17	2332	c.2015A>G	c.(2014-2016)TAT>TGT	p.Y672C	ILF3_uc002mpm.2_Missense_Mutation_p.Y676C|ILF3_uc002mpl.2_Missense_Mutation_p.Y672C|ILF3_uc002mpk.2_Missense_Mutation_p.Y672C|ILF3_uc010xli.1_Missense_Mutation_p.Y270C|ILF3_uc002mpo.2_Missense_Mutation_p.Y676C|ILF3_uc002mpp.2_Missense_Mutation_p.Y497C|ILF3_uc002mpq.2_5'Flank	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	672	Interaction with PRMT1.				M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			GGTGCTGGGTATGGAAGCTAT	0.592													48	117					0	0	0.01441	0	0		G	10794602	G	G	10794602	3	3	123	1	0	0	0	0	1	0	0	0	7728	449	16	3	2089	3	ILF3	19	10794602	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	425696	10794602	48334381	614	68678											
RGL3	57139	broad.mit.edu	37	chr19	11505106	11505106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagacagacagagtgttcCgggtcccctctttccgccgc	6	8	13	14	3	1	3	0	0	1	3	4	4	4	3	5	2	0	1	5	2	0	2	rs142089258		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:11505106C>T	uc002mrp.2	-	19	2169	c.2105G>A	c.(2104-2106)CGG>CAG	p.R702Q	RGL3_uc002mrn.2_Intron|RGL3_uc002mrm.2_Intron|RGL3_uc002mro.2_Missense_Mutation_p.R708Q	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	702	Interaction with HRAS, MRAS and RIT1 (By similarity).				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						CAGAGTGTTCCGGGTCCCCTC	0.577													27	53					0	0	0.024334	0	0		T	11505106	T	T	11505106	3	4	123	1	0	0	0	0	1	0	0	0	13303	652	23	1	31	1	RGL3	19	11505106	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	710504	11505106	47623877	615	68679											
MAST1	22983	broad.mit.edu	37	chr19	12978559	12978559	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcaagcgattctccgcGtccgaggccagtttcctgga	7	9	12	13	4	1	0	0	0	1	0	4	3	3	1	4	2	3	3	4	2	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:12978559G>A	uc002mvm.2	+	20	2462	c.2334G>A	c.(2332-2334)GCG>GCA	p.A778A		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	778					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						GATTCTCCGCGTCCGAGGCCA	0.687													3	8					0	0	0.004672	0	0		A	12978559	A	A	12978559	2	1	123	1	0	0	0	0	0	0	0	1	9342	1132	40	1		1	MAST1	19	12978559	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1473453	12978559	46150424	616	68680											
LPHN1	22859	broad.mit.edu	37	chr19	14288489	14288489	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgccggggcaccgcagctcGatggggtagccttcacacgc	6	6	14	15	4	1	0	1	0	0	0	2	1	1	0	3	4	3	4	3	4	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:14288489G>A	uc010xnn.1	-	3	434	c.138C>T	c.(136-138)ATC>ATT	p.I46I	LPHN1_uc010xno.1_Silent_p.I46I	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	46	SUEL-type lectin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						ACCGCAGCTCGATGGGGTAGC	0.652													44	77					0	0	0.01441	0	0		A	14288489	A	A	14288489	2	1	123	1	0	0	0	0	0	0	0	1	8933	1048	37	1		1	LPHN1	19	14288489	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1309930	14288489	44840494	617	68681											
PLVAP	83483	broad.mit.edu	37	chr19	17488022	17488022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgaagaggaagaagtagcGcaggtaataccagcagcccc	15	3	13	10	2	0	2	0	0	0	2	0	5	0	3	3	2	4	4	3	2	6	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:17488022G>A	uc002ngk.1	-	1	126	c.76C>T	c.(76-78)CGC>TGC	p.R26C		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	26	Cytoplasmic (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						AAGAAGTAGCGCAGGTAATAC	0.607													41	90					0	0	0.013114	0	0		A	17488022	A	A	17488022	3	1	123	1	0	0	0	0	1	0	0	0	12135	1087	38	1	1276	1	PLVAP	19	17488022	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3199533	17488022	41640961	618	68682											
FAM129C	199786	broad.mit.edu	37	chr19	17651282	17651282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcgtgcagaccctgctgcGcaccgtggaagcctcgctcg	5	7	14	15	5	0	1	0	0	0	1	3	2	0	2	3	2	4	4	3	2	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:17651282G>A	uc010xpr.1	+	10	1292	c.1154G>A	c.(1153-1155)CGC>CAC	p.R385H	FAM129C_uc010xpq.1_Missense_Mutation_p.R385H|FAM129C_uc002ngy.3_Missense_Mutation_p.R111H|FAM129C_uc010xpu.1_Missense_Mutation_p.R111H|FAM129C_uc002ngz.3_RNA|FAM129C_uc010eaw.2_Missense_Mutation_p.R111H|FAM129C_uc002nhb.2_5'UTR	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	385											0						ACCCTGCTGCGCACCGTGGAA	0.711													3	17					0	0	0.004672	0	0		A	17651282	A	A	17651282	3	1	123	1	0	0	0	0	1	0	0	0	5449	1087	38	1	1192	1	FAM129C	19	17651282	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	163260	17651282	41477701	619	68683											
SF4	57794	broad.mit.edu	37	chr19	19390193	19390193	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgatcatgtcgtacatctGctgcatctgcagggcacact	9	11	9	12	1	3	1	1	1	2	0	4	1	3	1	0	1	4	5	0	1	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:19390193G>A	uc002nmh.2	-	10	1359	c.1357C>T	c.(1357-1359)CAG>TAG	p.Q453*	SF4_uc002nmf.2_Nonsense_Mutation_p.Q3*|SF4_uc002nmg.2_Nonsense_Mutation_p.Q3*|SF4_uc002nmi.2_Nonsense_Mutation_p.Q243*|SF4_uc002nmj.2_Nonsense_Mutation_p.Q243*|SF4_uc002nme.2_Nonsense_Mutation_p.Q3*	NM_172231	NP_757386	Q8IWZ8	SUGP1_HUMAN	splicing factor 4	453	Gln/Met-rich.				nuclear mRNA splicing, via spliceosome	nucleoplasm|spliceosomal complex	RNA binding				0						TCGTACATCTGCTGCATCTGC	0.647													8	13					0	0	0.004482	0	0		A	19390193	A	A	19390193	4	1	123	1	0	0	0	0	0	1	0	0	14180	1328	46	2	600	2	SF4	19	19390193	Nonsense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1738911	19390193	39738790	620	68684											
ZNF43	7594	broad.mit.edu	37	chr19	21991363	21991363	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttagtaaggtttgaggaccgGctaaaagctttgccacattc	11	12	10	8	1	0	1	0	1	0	0	1	2	0	2	2	3	2	4	2	3	4	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:21991363G>A	uc002nqj.2	-	4	1606	c.1476C>T	c.(1474-1476)AGC>AGT	p.S492S	ZNF43_uc010ecv.2_Silent_p.S486S|ZNF43_uc002nql.2_Silent_p.S486S|ZNF43_uc002nqm.2_Silent_p.S486S|ZNF43_uc002nqk.2_Silent_p.S422S	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	492	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		TTGAGGACCGGCTAAAAGCTT	0.373													11	37					0	0	0.010729	0	0		A	21991363	A	A	21991363	2	1	123	1	0	0	0	0	0	0	0	1	17928	1194	42	2		2	ZNF43	19	21991363	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2601170	21991363	37137620	621	68685											
PLEKHF1	79156	broad.mit.edu	37	chr19	30164800	30164800	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccagcgcatcgcggcagtGgagagctgcttcggggcctc	6	6	16	13	4	0	1	0	0	0	1	3	2	0	1	2	4	4	4	2	4	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:30164800G>T	uc002nsh.3	+	2	156	c.54G>T	c.(52-54)GTG>GTT	p.V18V	PLEKHF1_uc002nsi.3_Silent_p.V103V	NM_024310	NP_077286	Q96S99	PKHF1_HUMAN	apoptosis-inducing protein D	18					apoptosis	lysosome|nucleus|perinuclear region of cytoplasm	metal ion binding				0	Ovarian(5;0.000567)|Breast(6;0.0602)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0623)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.225)			TCGCGGCAGTGGAGAGCTGCT	0.662													22	50					8.04996e-18	8.82703e-18	0.012319	1	0		T	30164800	T	T	30164800	2	4	123	1	0	0	0	0	0	0	0	1	12085	1335	47	5		5	PLEKHF1	19	30164800	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	8173437	30164800	28964183	622	68686											
PLEKHF1	79156	broad.mit.edu	37	chr19	30165237	30165237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatgcgctgcacgcagaCgcgcttctctgccctcacga	6	8	10	17	5	2	1	1	0	1	1	3	2	2	1	1	0	4	5	1	0	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:30165237C>T	uc002nsh.3	+	2	593	c.491C>T	c.(490-492)ACG>ATG	p.T164M	PLEKHF1_uc002nsi.3_Missense_Mutation_p.T249M	NM_024310	NP_077286	Q96S99	PKHF1_HUMAN	apoptosis-inducing protein D	164	FYVE-type.				apoptosis	lysosome|nucleus|perinuclear region of cytoplasm	metal ion binding				0	Ovarian(5;0.000567)|Breast(6;0.0602)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0623)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.225)			TGCACGCAGACGCGCTTCTCT	0.721													3	5					0	0	0.004672	0	0		T	30165237	T	T	30165237	3	4	123	1	0	0	0	0	1	0	0	0	12085	536	19	1	493	1	PLEKHF1	19	30165237	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	437	30165237	28963746	623	68687											
C19orf2	8725	broad.mit.edu	37	chr19	30503219	30503219	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgatgttgtgaatggagaAtatgtccctcgcaaatccat	11	13	10	7	1	0	3	0	2	0	1	3	4	2	3	2	1	0	3	2	1	4	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:30503219A>T	uc002nsr.2	+	10	1236	c.1206A>T	c.(1204-1206)GAA>GAT	p.E402D	C19orf2_uc002nsq.2_Missense_Mutation_p.E384D|C19orf2_uc002nss.2_Missense_Mutation_p.E362D|C19orf2_uc002nst.2_Missense_Mutation_p.E326D	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	402					protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		TGAATGGAGAATATGTCCCTC	0.393													36	109					0	0	0.027894	0	0		T	30503219	T	T	30503219	3	4	123	1	0	0	0	0	1	0	0	0	1914	98	4	5	1244	5	C19orf2	19	30503219	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	337982	30503219	28625764	624	68688											
ZNF536	9745	broad.mit.edu	37	chr19	30935268	30935268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccagcgtgcaggaggacGcggtggccccggcggcgggc	4	3	20	14	6	0	0	0	0	0	0	0	2	0	2	3	7	3	1	3	7	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:30935268G>A	uc002nsu.1	+	2	937	c.799G>A	c.(799-801)GCG>ACG	p.A267T	ZNF536_uc010edd.1_Missense_Mutation_p.A267T	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	267					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCAGGAGGACGCGGTGGCCCC	0.697													9	13					0	0	0.004482	0	0		A	30935268	A	A	30935268	3	1	123	1	0	0	0	0	1	0	0	0	17999	1087	38	1	801	1	ZNF536	19	30935268	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	432049	30935268	28193715	625	68689											
MLL4	9757	broad.mit.edu	37	chr19	36211899	36211899	+	Frame_Shift_Del	DEL	C	-	-																															cggcgatttatggatgaagaCccccccaaacccccaaaggt																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:36211899delC	uc010eei.2	+	3	1650	c.1650delC	c.(1648-1650)GACfs	p.D550fs		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	550	Pro-rich.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGGATGAAGACCCCCCCAAAC	0.592													9	19	---	---	---	---						.	-	36211899	-	-	36211899	7	5	123	1	0	1	0	1	0	0	0	0	9641	506	18	0	1660	0	MLL4	19	36211899	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08	5276631	36211899	22917084	626	68690											
NPHS1	4868	broad.mit.edu	37	chr19	36340035	36340035	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgccccacgctgtggaCaccggctggccattctggag	5	9	13	14	2	2	0	0	0	2	0	2	2	2	2	4	4	1	2	4	4	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:36340035C>T	uc002oby.2	-	8	855	c.855G>A	c.(853-855)GTG>GTA	p.V285V		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	285	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			ACGCTGTGGACACCGGCTGGC	0.677													20	43					0	0	0.010504	0	0		T	36340035	T	T	36340035	2	4	123	1	0	0	0	0	0	0	0	1	10601	465	17	4		4	NPHS1	19	36340035	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	128136	36340035	22788948	627	68691											
ARHGEF1	9138	broad.mit.edu	37	chr19	42410639	42410639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagcttctgtttccggCggaggaagacaatggggcgg	9	7	17	8	3	1	1	0	0	1	1	2	4	2	3	1	6	2	3	1	6	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:42410639C>T	uc002orx.2	+	27	2631	c.2522C>T	c.(2521-2523)GCG>GTG	p.A841V	ARHGEF1_uc002ory.2_Missense_Mutation_p.A808V|ARHGEF1_uc002orz.2_Missense_Mutation_p.A679V|ARHGEF1_uc002osa.2_Missense_Mutation_p.A856V|ARHGEF1_uc002osb.2_Intron|ARHGEF1_uc002osc.2_Intron|ARHGEF1_uc002osd.2_Missense_Mutation_p.A500V|ARHGEF1_uc002ose.2_Missense_Mutation_p.A285V	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	841					cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		CTGTTTCCGGCGGAGGAAGAC	0.672													19	54					0	0	0.021523	0	0		T	42410639	T	T	42410639	3	4	123	1	0	0	0	0	1	0	0	0	893	768	27	1	2673	1	ARHGEF1	19	42410639	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	6070604	42410639	16718344	628	68692											
ERF	2077	broad.mit.edu	37	chr19	42754583	42754583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctttgatgacgaattcccCgtagtccccctgccaggcaa	8	10	9	14	2	1	2	0	2	1	0	3	3	3	2	5	1	1	2	5	1	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:42754583C>T	uc002ote.3	-	2	315	c.157G>A	c.(157-159)GGG>AGG	p.G53R	ERF_uc002otd.3_5'UTR	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	53	ETS.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				ACGAATTCCCCGTAGTCCCCC	0.617													18	51					0	0	0.00499	0	0		T	42754583	T	T	42754583	3	4	123	1	0	0	0	0	1	0	0	0	5229	652	23	1	1501	1	ERF	19	42754583	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	343944	42754583	16374400	629	68693											
TMEM145	284339	broad.mit.edu	37	chr19	42819216	42819216	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggacacgacacttctcCgctgatgagtttggtgagca	8	12	11	10	2	2	3	0	3	2	0	3	5	2	4	1	2	1	3	1	2	0	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:42819216C>T	uc002otk.1	+	6	544	c.492C>T	c.(490-492)TCC>TCT	p.S164S		NM_173633	NP_775904	Q8NBT3	TM145_HUMAN	transmembrane protein 145	164						integral to membrane					0		Prostate(69;0.00682)				GACACTTCTCCGCTGATGAGT	0.582													30	72					0	0	0.007291	0	0		T	42819216	T	T	42819216	2	4	123	1	0	0	0	0	0	0	0	1	16084	639	23	1		1	TMEM145	19	42819216	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	64633	42819216	16309767	630	68694											
PSG8	440533	broad.mit.edu	37	chr19	43269833	43269833	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtcctgcctccttctgcGctgagcttcttcccggggca	2	12	11	16	2	2	1	0	1	2	0	5	1	5	1	4	2	3	4	4	2	0	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:43269833G>A	uc002ouo.2	-	1	1	c.-97_splice	c.e1-1		PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc002oui.2_Splice_Site|PSG8_uc002ouh.2_Splice_Site|PSG8_uc010ein.2_Splice_Site|PSG8_uc002ouj.3_Intron|PSG8_uc002ouk.3_Intron|PSG8_uc002oul.3_Intron|PSG8_uc002oum.3_Intron|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Intron	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform							extracellular region					0		Prostate(69;0.00899)				CTCCTTCTGCGCTGAGCTTCT	0.602													9	18					0	0	0.004482	0	0		A	43269833	A	A	43269833	5	1	123	1	0	0	0	0	0	0	1	0	12683	1102	38	1		1	PSG8	19	43269833	Splice_Site	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	450617	43269833	15859150	631	68695											
PLAUR	5329	broad.mit.edu	37	chr19	44156377	44156377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctcggagagggcctcacCgtgagtgccggtggctacca	7	6	15	13	3	1	2	1	1	0	1	2	3	1	2	5	4	3	1	5	4	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:44156377C>T	uc002oxf.1	-	6	984	c.754G>A	c.(754-756)GAA>AAA	p.E252K	PLAUR_uc002oxd.1_Missense_Mutation_p.E252K|PLAUR_uc002oxe.1_Missense_Mutation_p.E247K|PLAUR_uc002oxg.1_Missense_Mutation_p.E207K	NM_002659	NP_002650	Q03405	UPAR_HUMAN	plasminogen activator, urokinase receptor	252	UPAR/Ly6 3.			E -> G (in Ref. 12; AAF71751).	attachment of GPI anchor to protein|blood coagulation|C-terminal protein lipidation|cellular component movement|chemotaxis|fibrinolysis|regulation of proteolysis	anchored to membrane|cell surface|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|extrinsic to membrane|integral to membrane|plasma membrane	enzyme binding|U-plasminogen activator receptor activity			ovary(1)	1		Prostate(69;0.0153)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Streptokinase(DB00086)|Tenecteplase(DB00031)|Urokinase(DB00013)	AGGGCCTCACCGTGAGTGCCG	0.557											OREG0025532	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	56					0	0	0.024334	0	0		T	44156377	T	T	44156377	3	4	123	1	0	0	0	0	1	0	0	0	12042	666	23	1	357	1	PLAUR	19	44156377	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	886544	44156377	14972606	632	68696											
ZNF283	284349	broad.mit.edu	37	chr19	44352729	44352729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctacaaatataacgaatGtggggaagcctttctgtgga	13	10	10	8	1	1	0	0	0	1	0	1	3	1	2	2	3	3	0	2	3	6	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:44352729G>A	uc002oxr.3	+	7	2244	c.1976G>A	c.(1975-1977)TGT>TAT	p.C659Y	ZNF283_uc002oxp.3_Missense_Mutation_p.C520Y	NM_181845	NP_862828	Q8N7M2	ZN283_HUMAN	zinc finger protein 283	659					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				TATAACGAATGTGGGGAAGCC	0.343													29	54					0	0	0.010818	0	0		A	44352729	A	A	44352729	3	1	123	1	0	0	0	0	1	0	0	0	17845	1377	48	4	1990	4	ZNF283	19	44352729	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	196352	44352729	14776254	633	68697											
PPP1R13L	10848	broad.mit.edu	37	chr19	45889359	45889361	+	In_Frame_Del	DEL	AGG	-	-																															ccccggtcagcgccgcgtccAggaggagcaccagagggttg																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:45889359_45889361delAGG	uc002pbn.2	-	9	1970_1972	c.1893_1895delCCT	c.(1891-1896)CTCCTG>CTG	p.631_632LL>L	PPP1R13L_uc002pbm.2_In_Frame_Del_p.210_211LL>L|PPP1R13L_uc002pbo.2_In_Frame_Del_p.631_632LL>L	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	631_632					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		CGCCGCGTCCAGGAGGAGCACCA	0.734													4	7	---	---	---	---						.	-	45889361	-	-	45889359	7	5	123	1	0	1	0	1	0	0	0	0	12380	188	7	0	611	0	PPP1R13L	19	45889359	In_Frame_Del	DEL	AGG	TCGA-CD-A4MJ-01A-11D-A25D-08	1536630	45889359	13239624	634	68698											
PPP1R13L	10848	broad.mit.edu	37	chr19	45895249	45895249	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctcagatccctcagtgatGggggacagctctggctccgg	6	8	14	13	1	3	2	2	1	1	1	5	3	5	3	3	4	1	2	3	4	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:45895249G>T	uc002pbn.2	-	8	1781	c.1704C>A	c.(1702-1704)CCC>CCA	p.P568P	PPP1R13L_uc002pbm.2_Silent_p.P147P|PPP1R13L_uc002pbo.2_Silent_p.P568P	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	568	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		CCTCAGTGATGGGGGACAGCT	0.692													28	63					4.02929e-09	4.23921e-09	0.010818	1	0		T	45895249	T	T	45895249	2	4	123	1	0	0	0	0	0	0	0	1	12380	1335	47	5		5	PPP1R13L	19	45895249	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	5890	45895249	13233734	635	68699											
PRKD2	25865	broad.mit.edu	37	chr19	47181830	47181830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccctggttgagcagcacctCgggtgccaggtaggccggcg	5	6	17	13	3	0	1	0	1	0	0	1	1	0	1	4	5	3	4	4	5	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:47181830C>T	uc002pfh.2	-	17	2503	c.2161G>A	c.(2161-2163)GAG>AAG	p.E721K	PRKD2_uc002pfd.2_Missense_Mutation_p.E95K|PRKD2_uc010eks.2_Missense_Mutation_p.E124K|PRKD2_uc010ekt.2_5'UTR|PRKD2_uc002pfe.2_Missense_Mutation_p.E241K|PRKD2_uc002pff.2_Missense_Mutation_p.E241K|PRKD2_uc002pfg.2_Missense_Mutation_p.E564K|PRKD2_uc002pfi.2_Missense_Mutation_p.E721K|PRKD2_uc002pfj.2_Missense_Mutation_p.E721K|PRKD2_uc010xye.1_Missense_Mutation_p.E721K|PRKD2_uc002pfk.2_Missense_Mutation_p.E564K	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	721	Protein kinase.				cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		AGCAGCACCTCGGGTGCCAGG	0.617													35	66					0	0	0.027894	0	0		T	47181830	T	T	47181830	3	4	123	1	0	0	0	0	1	0	0	0	12541	893	31	1	487	1	PRKD2	19	47181830	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1286581	47181830	11947153	636	68700											
RASIP1	54922	broad.mit.edu	37	chr19	49238619	49238619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtctccgctcctgctgcCgccgccgccgcccctgaagg	2	7	12	20	5	1	1	0	1	1	0	3	1	2	1	8	1	2	3	8	1	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:49238619C>T	uc002pki.2	-	4	1210	c.1013G>A	c.(1012-1014)CGG>CAG	p.R338Q		NM_017805	NP_060275	Q5U651	RAIN_HUMAN	Ras-interacting protein 1	338					signal transduction	Golgi stack|perinuclear region of cytoplasm				pancreas(1)	1		all_lung(116;4.89e-06)|all_epithelial(76;7.04e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;9.98e-05)|all cancers(93;0.000272)|Epithelial(262;0.0155)|GBM - Glioblastoma multiforme(486;0.0222)		CTCCTGCTGCCGCCGCCGCCG	0.657													9	32					0	0	0.004482	0	0		T	49238619	T	T	49238619	3	4	123	1	0	0	0	0	1	0	0	0	13103	652	23	1	1914	1	RASIP1	19	49238619	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2056789	49238619	9890364	637	68701											
CCDC155	147872	broad.mit.edu	37	chr19	49897748	49897748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgtacctccgggagcGgcctgaggaggcaaggctgg	7	5	17	12	2	0	1	0	1	0	0	1	3	1	3	4	6	2	3	4	6	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:49897748G>A	uc002pnm.1	+	3	233	c.59G>A	c.(58-60)CGG>CAG	p.R20Q	CCDC155_uc002pnl.1_Missense_Mutation_p.R20Q|CCDC155_uc010emx.1_5'UTR	NM_144688	NP_653289	Q8N6L0	CC155_HUMAN	coiled-coil domain containing 155	20						integral to membrane	calcium ion binding			ovary(1)|central_nervous_system(1)	2						CTCCGGGAGCGGCCTGAGGAG	0.612													34	84					0	0	0.023175	0	0		A	49897748	A	A	49897748	3	1	123	1	0	0	0	0	1	0	0	0	2791	1116	39	1	65	1	CCDC155	19	49897748	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	659129	49897748	9231235	638	68702											
SLC17A7	57030	broad.mit.edu	37	chr19	49934675	49934675	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtgcgagtagccgaccAccaacagcagcgtggcttcc	9	6	13	13	3	0	0	0	0	0	0	1	3	1	1	4	2	5	3	4	2	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:49934675A>G	uc002pnp.2	-	10	1353	c.1181T>C	c.(1180-1182)GTG>GCG	p.V394A	SLC17A7_uc002pno.2_Intron	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	394	Helical; (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		GTAGCCGACCACCAACAGCAG	0.587													22	60					0	0	0.021523	0	0		G	49934675	G	G	49934675	3	3	123	1	0	0	0	0	1	0	0	0	14447	159	6	3	513	3	SLC17A7	19	49934675	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	36927	49934675	9194308	639	68703											
RCN3	57333	broad.mit.edu	37	chr19	50031965	50031965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaggaaagccaggcccGtctggggtaagagagacatt	12	5	14	10	1	1	3	0	0	1	3	1	5	1	4	3	4	1	1	3	4	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:50031965G>A	uc002poj.2	+	2	683	c.236G>A	c.(235-237)CGT>CAT	p.R79H		NM_020650	NP_065701	Q96D15	RCN3_HUMAN	reticulocalbin 3, EF-hand calcium binding domain	79	EF-hand 1.					endoplasmic reticulum lumen	calcium ion binding|protein binding			ovary(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00295)|GBM - Glioblastoma multiforme(134;0.0159)		AGCCAGGCCCGTCTGGGGTAA	0.602													35	59					0	0	0.017118	0	0		A	50031965	A	A	50031965	3	1	123	1	0	0	0	0	1	0	0	0	13206	1145	40	1	238	1	RCN3	19	50031965	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	97290	50031965	9097018	640	68704											
PTOV1	53635	broad.mit.edu	37	chr19	50361173	50361173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccaaaagcccaggcctgagCccaacagtcggtccaagagg	12	3	11	15	1	0	2	0	1	0	1	2	2	1	2	5	3	3	0	5	3	4	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:50361173C>T	uc002pqf.1	+	8	987	c.817C>T	c.(817-819)CCC>TCC	p.P273S	PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Missense_Mutation_p.P241S|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	273	Interaction with FLOT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		CAGGCCTGAGCCCAACAGTCG	0.652													11	49					0	0	0.013537	0	0		T	50361173	T	T	50361173	3	4	123	1	0	0	0	0	1	0	0	0	12792	739	26	2	847	2	PTOV1	19	50361173	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	329208	50361173	8767810	641	68705											
PTOV1	53635	broad.mit.edu	37	chr19	50363527	50363527	+	Frame_Shift_Del	DEL	G	-	-																															tctgatttctcgccgtagatGggggggtagtggttaccccg																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:50363527delG	uc002pqf.1	+	12	1412	c.1242delG	c.(1240-1242)ATGfs	p.M414fs	PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Frame_Shift_Del_p.W359fs|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	414	Interaction with FLOT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		CGCCGTAGATGGGGGGGTAGT	0.657													17	30	---	---	---	---						.	-	50363527	-	-	50363527	7	5	123	1	0	1	0	1	0	0	0	0	12792	1348	47	0	1288	0	PTOV1	19	50363527	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2354	50363527	8765456	642	68706											
NAPSA	9476	broad.mit.edu	37	chr19	50862331	50862331	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaagaaggaaggagactgcGgggagctttgggatttccga	11	7	16	7	2	0	2	0	0	0	2	1	7	1	5	2	5	2	1	2	5	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:50862331G>A	uc002prx.2	-	8	1025	c.972C>T	c.(970-972)CCC>CCT	p.P324P	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	324					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		AGGAGACTGCGGGGAGCTTTG	0.542													26	81					0	0	0.008361	0	0		A	50862331	A	A	50862331	2	1	123	1	0	0	0	0	0	0	0	1	10184	1103	39	1		1	NAPSA	19	50862331	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	498804	50862331	8266652	643	68707											
ZNF614	80110	broad.mit.edu	37	chr19	52521663	52521663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttctccaccatcacatcccGgtacaggttcttctgagcag	8	11	8	14	1	4	1	1	1	3	0	6	1	5	1	3	2	2	4	3	2	1	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:52521663G>A	uc002pyj.2	-	3	502	c.100C>T	c.(100-102)CGG>TGG	p.R34W	ZNF614_uc002pyi.3_Missense_Mutation_p.R34W|ZNF614_uc010epj.2_5'UTR	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	34	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		ATCACATCCCGGTACAGGTTC	0.507													30	81					0	0	0.010818	0	0		A	52521663	A	A	52521663	3	1	123	1	0	0	0	0	1	0	0	0	18064	1115	39	1	1669	1	ZNF614	19	52521663	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1659332	52521663	6607320	644	68708											
NLRP2	55655	broad.mit.edu	37	chr19	55493959	55493959	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgagctgggagccgcacctgGggcgctgatcgaggacatct	7	7	16	11	3	1	2	0	2	1	0	2	5	1	4	2	4	2	3	2	4	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:55493959G>T	uc002qij.2	+	6	979	c.893G>T	c.(892-894)GGG>GTG	p.G298V	NLRP2_uc010yfp.1_Missense_Mutation_p.G275V|NLRP2_uc010esn.2_Missense_Mutation_p.G274V|NLRP2_uc010eso.2_Missense_Mutation_p.G295V|NLRP2_uc010esp.2_Missense_Mutation_p.G276V	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	298	NACHT.				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		GCCGCACCTGGGGCGCTGATC	0.582													31	71					5.60225e-13	6.05176e-13	0.009535	1	0		T	55493959	T	T	55493959	3	4	123	1	0	0	0	0	1	0	0	0	10496	1232	43	5	911	5	NLRP2	19	55493959	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2972296	55493959	3635024	645	68709											
HSPBP1	23640	broad.mit.edu	37	chr19	55785969	55785969	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggcccaccagcaggtgcAtgccagacagctggcagaag	11	3	13	14	1	0	2	0	0	0	2	0	2	0	2	4	3	4	4	4	3	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:55785969A>G	uc002qjx.2	-	3	685	c.575T>C	c.(574-576)ATG>ACG	p.M192T	HSPBP1_uc002qjy.2_Missense_Mutation_p.M146T|HSPBP1_uc002qkb.2_Missense_Mutation_p.M146T|HSPBP1_uc002qka.2_Missense_Mutation_p.M146T|HSPBP1_uc002qkd.2_Missense_Mutation_p.M146T|HSPBP1_uc002qkc.2_Missense_Mutation_p.M146T	NM_012267	NP_036399	Q9NZL4	HPBP1_HUMAN	hsp70-interacting protein	149	ARM 1.				positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding		enzyme inhibitor activity|protein binding				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		CAGCAGGTGCATGCCAGACAG	0.522													10	21					0	0	0.013537	0	0		G	55785969	G	G	55785969	3	3	123	1	0	0	0	0	1	0	0	0	7442	217	8	3	662	3	HSPBP1	19	55785969	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	292010	55785969	3343014	646	68710											
ZNF579	163033	broad.mit.edu	37	chr19	56089951	56089951	+	Frame_Shift_Del	DEL	C	-	-																															ccccgcactccgccccctcgCccccctccggccccttggct																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:56089951delC	uc002qlh.2	-	2	1108	c.1055delG	c.(1054-1056)GGCfs	p.G352fs		NM_152600	NP_689813	Q8NAF0	ZN579_HUMAN	zinc finger protein 579	352	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.106)		CGCCCCCTCGCCCCCCTCCGG	0.602													5	10	---	---	---	---						.	-	56089951	-	-	56089951	7	5	123	1	0	1	0	1	0	0	0	0	18036	739	26	0	637	0	ZNF579	19	56089951	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08	303982	56089951	3039032	647	68711											
ZNF835	90485	broad.mit.edu	37	chr19	57175446	57175446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgctggaggaggtgggagCggttgctgaagcgcttgccg	5	8	21	7	3	0	1	0	1	0	0	0	4	0	4	1	6	5	4	1	6	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:57175446C>T	uc010ygo.1	-	2	1187	c.1187G>A	c.(1186-1188)CGC>CAC	p.R396H	ZNF835_uc010ygn.1_Missense_Mutation_p.R374H	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						GAGGTGGGAGCGGTTGCTGAA	0.672													10	29					0	0	0.010729	0	0		T	57175446	T	T	57175446	3	4	123	1	0	0	0	0	1	0	0	0	18211	768	27	1	494	1	ZNF835	19	57175446	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1085495	57175446	1953537	648	68712											
ZNF274	10782	broad.mit.edu	37	chr19	58718429	58718429	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcacgctccaaggagcagatCctggagctgctggtgctgga	8	7	15	11	1	0	1	0	0	0	1	2	4	2	4	2	4	4	6	2	4	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:58718429C>A	uc002qrq.1	+	7	1059	c.600C>A	c.(598-600)ATC>ATA	p.I200I	ZNF274_uc010yhu.1_RNA|ZNF274_uc010yhv.1_RNA|ZNF274_uc002qrr.1_Silent_p.I168I|ZNF274_uc002qrs.1_Silent_p.I95I|ZNF274_uc010eum.1_5'UTR	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	200	SCAN box.				viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		AGGAGCAGATCCTGGAGCTGC	0.602													7	17					0.000157383	0.000159801	0.00308	1	0		A	58718429	A	A	58718429	2	1	123	1	0	0	0	0	0	0	0	1	17834	855	30	5		5	ZNF274	19	58718429	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1542983	58718429	410554	649	68713											
ZNF8	7554	broad.mit.edu	37	chr19	58806481	58806481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctgatctttgagcagaCgccagctctcacaaagcatg	11	8	11	11	1	2	3	1	2	2	1	3	4	2	3	1	1	3	4	1	1	1	1	rs147485828		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr19:58806481C>T	uc002qry.1	+	4	1437	c.1307C>T	c.(1306-1308)ACG>ATG	p.T436M	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	436					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		TTTGAGCAGACGCCAGCTCTC	0.587													35	109					0	0	0.015359	0	0		T	58806481	T	T	58806481	3	4	123	1	0	0	0	0	1	0	0	0	18192	536	19	1	1321	1	ZNF8	19	58806481	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	88052	58806481	322502	650	68714											
ZNF343	79175	broad.mit.edu	37	chr20	2463857	2463857	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacttatgactaaagcctcGcccacactccctacaaacat	13	9	4	15	1	0	2	0	2	0	0	2	2	1	2	3	0	3	0	3	0	5	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:2463857G>A	uc002wge.1	-	6	2238	c.1750C>T	c.(1750-1752)CGA>TGA	p.R584*	ZNF343_uc010gao.1_Nonsense_Mutation_p.R584*|ZNF343_uc002wgd.1_Nonsense_Mutation_p.R494*	NM_024325	NP_077301	Q6P1L6	ZN343_HUMAN	zinc finger protein 343	584	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CTAAAGCCTCGCCCACACTCC	0.522													19	47					0	0	0.007413	0	0		A	2463857	A	A	2463857	4	1	123	1	0	0	0	0	0	1	0	0	17883	1095	38	1	53	1	ZNF343	20	2463857	Nonsense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		2463857	60561663	651	68715											
KIF16B	55614	broad.mit.edu	37	chr20	16506751	16506751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atataccatttcttgtgaaaCgtaatctgggctttttgtat	10	18	7	6	1	2	1	0	1	2	0	2	1	2	1	1	1	2	3	1	1	5	8			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:16506751C>T	uc002wpg.1	-	3	375	c.217G>A	c.(217-219)GTT>ATT	p.V73I	KIF16B_uc010gch.1_Missense_Mutation_p.V73I|KIF16B_uc010gci.1_Missense_Mutation_p.V73I|KIF16B_uc010gcj.1_Missense_Mutation_p.V73I	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	73	Kinesin-motor.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						TCTTGTGAAACGTAATCTGGG	0.343													45	87					0	0	0.01441	0	0		T	16506751	T	T	16506751	3	4	123	1	0	0	0	0	1	0	0	0	8294	536	19	1	3832	1	KIF16B	20	16506751	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	14042894	16506751	46518769	652	68716											
RIN2	54453	broad.mit.edu	37	chr20	19955391	19955391	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgtcctgcctccctgcGtcagctctgccttataaatg	5	14	8	14	1	3	0	1	0	2	0	5	0	5	0	4	0	4	1	4	0	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:19955391G>C	uc002wro.1	+	7	758	c.722G>C	c.(721-723)CGT>CCT	p.R241P	RIN2_uc010gcu.1_Intron|RIN2_uc010gcv.1_Missense_Mutation_p.R35P	NM_018993	NP_061866	Q8WYP3	RIN2_HUMAN	Ras and Rab interactor 2	241					endocytosis|small GTPase mediated signal transduction	cytoplasm	GTPase activator activity|Rab guanyl-nucleotide exchange factor activity			lung(4)|ovary(1)	5						GCCTCCCTGCGTCAGCTCTGC	0.557													19	45					0	0	0.008871	0	0		C	19955391	C	C	19955391	3	2	123	1	0	0	0	0	1	0	0	0	13397	1145	40	5	748	5	RIN2	20	19955391	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	3448640	19955391	43070129	653	68717											
ACSS1	84532	broad.mit.edu	37	chr20	25004162	25004162	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtctgtcctgtgagccacCaggacatgctgcacggtggg	6	10	14	11	1	1	1	0	1	1	0	2	2	2	2	3	3	3	2	3	3	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:25004162C>T	uc002wub.2	-	4	1625	c.747G>A	c.(745-747)CTG>CTA	p.L249L	ACSS1_uc002wuc.2_Silent_p.L249L|ACSS1_uc010gdc.2_Intron|ACSS1_uc002wud.1_5'Flank|ACSS1_uc002wua.2_Silent_p.L166L	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	249					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TGTGAGCCACCAGGACATGCT	0.577													13	32					0	0	0.020292	0	0		T	25004162	T	T	25004162	2	4	123	1	0	0	0	0	0	0	0	1	188	581	21	4		4	ACSS1	20	25004162	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	5048771	25004162	38021358	654	68718											
NINL	22981	broad.mit.edu	37	chr20	25472073	25472073	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagcgcggccctctgccTgtgggcctgctcccagaaca	5	7	11	18	2	1	1	0	0	1	1	3	1	3	1	5	2	4	1	5	2	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:25472073T>G	uc002wux.1	-	11	1473	c.1399A>C	c.(1399-1401)AGG>CGG	p.R467R	NINL_uc010gdn.1_Silent_p.R467R|NINL_uc010gdo.1_Silent_p.R250R|NINL_uc010ztf.1_Silent_p.R483R	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	467					G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						GCCCTCTGCCTGTGGGCCTGC	0.682													41	60					0	0	0.00874	0	0		G	25472073	G	G	25472073	2	3	123	1	0	0	0	0	0	0	0	1	10439	1579	55	5		5	NINL	20	25472073	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	467911	25472073	37553447	655	68719											
C20orf4	25980	broad.mit.edu	37	chr20	34828094	34828094	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggaagaggtagacctgtccCcagccccagagtctgaggtg	9	6	15	11	0	1	4	0	1	1	3	2	5	2	5	5	3	1	1	5	3	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:34828094C>A	uc002xfc.1	+	2	397	c.304C>A	c.(304-306)CCA>ACA	p.P102T	C20orf4_uc002xfd.1_Missense_Mutation_p.P102T|C20orf4_uc002xfe.1_Missense_Mutation_p.P102T	NM_015511	NP_056326	Q9Y312	CT004_HUMAN	hypothetical protein LOC25980	102											0	Breast(12;0.0162)	Myeloproliferative disorder(115;0.0393)				AGACCTGTCCCCAGCCCCAGA	0.607													29	85					8.53417e-09	8.95288e-09	0.013726	1	0		A	34828094	A	A	34828094	3	1	123	1	0	0	0	0	1	0	0	0	2114	623	22	5	306	5	C20orf4	20	34828094	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	9356021	34828094	28197426	656	68720											
MYL9	10398	broad.mit.edu	37	chr20	35177567	35177567	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggacgagatgtaccgggAggcacccattgataagaaag	14	6	14	7	2	0	3	0	1	0	2	0	6	0	5	2	3	1	2	2	3	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:35177567A>G	uc002xfl.1	+	4	528	c.434A>G	c.(433-435)GAG>GGG	p.E145G	uc002xfk.3_Intron|MYL9_uc002xfm.1_Missense_Mutation_p.E91G	NM_006097	NP_006088	P24844	MYL9_HUMAN	myosin regulatory light chain 9 isoform a	145	EF-hand 3.				axon guidance|muscle contraction|regulation of muscle contraction	cytosol|muscle myosin complex	calcium ion binding|structural constituent of muscle				0	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				ATGTACCGGGAGGCACCCATT	0.582													18	43					0	0	0.007413	0	0		G	35177567	G	G	35177567	3	3	123	1	0	0	0	0	1	0	0	0	10072	304	11	3	444	3	MYL9	20	35177567	Missense_Mutation	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	349473	35177567	27847953	657	68721											
DHX35	60625	broad.mit.edu	37	chr20	37634970	37634970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggacgtggtggtcgtagtcGctcgggaaaatgttatcgcc	8	10	15	8	5	0	0	0	0	0	0	4	2	0	2	1	4	0	3	1	4	4	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:37634970G>A	uc002xjh.2	+	12	1204	c.1193G>A	c.(1192-1194)CGC>CAC	p.R398H	DHX35_uc010zwa.1_Missense_Mutation_p.R243H|DHX35_uc010zwb.1_Missense_Mutation_p.R243H|DHX35_uc010zwc.1_Missense_Mutation_p.R367H	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	398	Helicase C-terminal.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GGTCGTAGTCGCTCGGGAAAA	0.502													52	101					0	0	0.01441	0	0		A	37634970	A	A	37634970	3	1	123	1	0	0	0	0	1	0	0	0	4514	1087	38	1	1239	1	DHX35	20	37634970	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2457403	37634970	25390550	658	68722											
PLCG1	5335	broad.mit.edu	37	chr20	39801247	39801247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttgcccatgtggatctGtggcagtcagcttgtggccc	4	13	12	12	0	2	0	1	0	1	0	3	1	3	1	3	3	2	2	3	3	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:39801247G>A	uc002xjp.1	+	26	3213	c.3092G>A	c.(3091-3093)TGT>TAT	p.C1031Y	PLCG1_uc002xjo.1_Missense_Mutation_p.C1031Y|PLCG1_uc010zwe.1_Missense_Mutation_p.C657Y	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	1031	PI-PLC Y-box.				activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				ATGTGGATCTGTGGCAGTCAG	0.577													12	19					0	0	0.013537	0	0		A	39801247	A	A	39801247	3	1	123	1	0	0	0	0	1	0	0	0	12054	1377	48	4	3194	4	PLCG1	20	39801247	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2166277	39801247	23224273	659	68723											
SPATA2	9825	broad.mit.edu	37	chr20	48522803	48522803	+	Frame_Shift_Del	DEL	G	-	-																															aagcacatccgggctgccgtGgggggagctggccatggtca																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:48522803delG	uc010gie.2	-	3	1266	c.916delC	c.(916-918)CACfs	p.H306fs	SPATA2_uc002xuw.2_Frame_Shift_Del_p.H306fs|SPATA2_uc010zyn.1_Frame_Shift_Del_p.H169fs	NM_001135773	NP_001129245	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	306					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			GGGCTGCCGTGGGGGGAGCTG	0.647													47	86	---	---	---	---						.	-	48522803	-	-	48522803	7	5	123	1	0	1	0	1	0	0	0	0	15030	1348	47	0	650	0	SPATA2	20	48522803	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	8721556	48522803	14502717	660	68724											
ZFP64	55734	broad.mit.edu	37	chr20	50701599	50701599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctccaggaggtcagcccGgtcccggccctggaaggcac	6	5	15	15	2	1	0	1	0	0	0	3	2	3	2	4	6	2	2	4	6	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:50701599G>A	uc002xwk.2	-	9	1784	c.1435C>T	c.(1435-1437)CGG>TGG	p.R479W	ZFP64_uc002xwj.2_Missense_Mutation_p.R260W	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						AGGTCAGCCCGGTCCCGGCCC	0.642													28	80					0	0	0.007291	0	0		A	50701599	A	A	50701599	3	1	123	1	0	0	0	0	1	0	0	0	17677	1115	39	1	506	1	ZFP64	20	50701599	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2178796	50701599	12323921	661	68725											
CTCFL	140690	broad.mit.edu	37	chr20	56098123	56098123	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctatgagatgaactggcctaCcctttgtctttctttgattt	7	18	7	9	0	2	3	0	3	2	1	2	4	2	3	2	1	2	0	2	1	3	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:56098123C>T	uc010gix.1	-	2	1416	c.754_splice	c.e2+1	p.G252_splice	CTCFL_uc010giw.1_Splice_Site_p.G252_splice|CTCFL_uc002xym.2_Splice_Site_p.G252_splice|CTCFL_uc010giz.1_Intron|CTCFL_uc010giy.1_Intron|CTCFL_uc010gja.1_Splice_Site_p.G252_splice|CTCFL_uc010gjb.1_Splice_Site_p.G252_splice|CTCFL_uc010gjc.1_Splice_Site_p.G252_splice|CTCFL_uc010gjd.1_Splice_Site_p.G252_splice|CTCFL_uc010gje.2_Splice_Site_p.G252_splice|CTCFL_uc010gjf.2_Splice_Site_p.G47_splice|CTCFL_uc010gjg.2_Intron|CTCFL_uc010gjh.1_Splice_Site_p.G252_splice|CTCFL_uc010gji.1_Splice_Site_p.G47_splice|CTCFL_uc010gjj.1_Splice_Site_p.G252_splice|CTCFL_uc010gjk.1_Splice_Site_p.G252_splice|CTCFL_uc010gjl.1_Splice_Site_p.G252_splice	NM_080618	NP_542185	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor-like protein						cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			AACTGGCCTACCCTTTGTCTT	0.388													23	57					0	0	0.016522	0	0		T	56098123	T	T	56098123	5	4	123	1	0	0	0	0	0	0	1	0	4004	521	18	4	1272	4	CTCFL	20	56098123	Splice_Site	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	5396524	56098123	6927397	662	68726											
GNAS	2778	broad.mit.edu	37	chr20	57429599	57429599	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgactccggggcattcgcaGccgatcccgactccggggca	6	6	13	16	5	0	1	0	1	0	0	4	3	3	1	4	4	1	3	4	4	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:57429599G>T	uc002xzw.2	+	1	1564	c.1279G>T	c.(1279-1281)GCC>TCC	p.A427S	GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			GGCATTCGCAGCCGATCCCGA	0.746			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			3	3					1.23904e-05	1.27229e-05	0.014758	1	0		T	57429599	T	T	57429599	3	4	123	1	0	0	0	0	1	0	0	0	6525	971	34	5	2023	5	GNAS	20	57429599	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1331476	57429599	5595921	663	68727											
GNAS	2778	broad.mit.edu	37	chr20	57480479	57480479	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgtgggaggatgaaggAgtgcgtgcctgctacgaacg	8	8	17	8	3	1	1	0	1	1	0	1	5	1	4	1	3	5	2	1	3	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:57480479A>G	uc002xzw.2	+	6	2688	c.2403A>G	c.(2401-2403)GGA>GGG	p.G801G	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Silent_p.G99G|GNAS_uc002xzx.2_Silent_p.G99G|GNAS_uc010gjr.2_Silent_p.G49G|GNAS_uc002xzy.2_Silent_p.G84G|GNAS_uc002yaa.2_Silent_p.G144G|GNAS_uc010zzt.1_Silent_p.G159G|GNAS_uc002yab.2_Intron|GNAS_uc002yad.2_Silent_p.G49G|GNAS_uc002yae.2_Silent_p.G83G	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	158					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			AGGATGAAGGAGTGCGTGCCT	0.473			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			6	83					0	0	0.00308	0	0		G	57480479	G	G	57480479	2	3	123	1	0	0	0	0	0	0	0	1	6525	291	11	3		3	GNAS	20	57480479	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	50880	57480479	5545041	664	68728											
ZNF831	128611	broad.mit.edu	37	chr20	57829477	57829477	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcatcttgaaataccagcTtcaggaccaagttcagctag	13	10	7	11	0	4	1	3	1	1	0	4	2	4	2	2	1	3	3	2	1	4	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:57829477T>G	uc002yan.2	+	5	4713	c.4713T>G	c.(4711-4713)GCT>GCG	p.A1571A		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1571						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					AAATACCAGCTTCAGGACCAA	0.483													7	68					0	0	0.00308	0	0		G	57829477	G	G	57829477	2	3	123	1	0	0	0	0	0	0	0	1	18210	1596	56	5		5	ZNF831	20	57829477	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	348998	57829477	5196043	665	68729											
NTSR1	4923	broad.mit.edu	37	chr20	61386229	61386229	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccctgcggcacggcgtgCgcgtcctacgtacgtaacct	6	7	13	15	7	0	0	0	0	0	0	1	0	1	0	3	3	5	3	3	3	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr20:61386229C>T	uc002ydf.2	+	2	1278	c.907C>T	c.(907-909)CGC>TGC	p.R303C		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1	303	Cytoplasmic (Potential).					endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			GCACGGCGTGCGCGTCCTACG	0.697													5	16					0	0	0.021553	0	0		T	61386229	T	T	61386229	3	4	123	1	0	0	0	0	1	0	0	0	10729	768	27	1	913	1	NTSR1	20	61386229	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	3556752	61386229	1639291	666	68730											
ADAMTS1	9510	broad.mit.edu	37	chr21	28212301	28212301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgtcacattccctcatcGtgtactggactcctccaccg	6	12	8	15	2	2	0	2	0	0	0	6	1	5	1	4	2	1	2	4	2	1	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr21:28212301G>A	uc002ymf.2	-	6	2200	c.1745C>T	c.(1744-1746)ACG>ATG	p.T582M		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	582	TSP type-1 1.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		TTCCCTCATCGTGTACTGGAC	0.517													10	105					0	0	0.008291	0	0		A	28212301	A	A	28212301	3	1	123	1	0	0	0	0	1	0	0	0	255	1145	40	1	1174	1	ADAMTS1	21	28212301	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		28212301	19917594	667	68731											
TIAM1	7074	broad.mit.edu	37	chr21	32508291	32508291	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctttttccacttgcccagCgaggccggcgggttcagcca	5	10	11	15	3	1	0	1	0	0	0	3	1	3	0	5	3	3	1	5	3	0	4	rs143123730		TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr21:32508291C>T	uc002yow.1	-	24	4315	c.3843G>A	c.(3841-3843)TCG>TCA	p.S1281S	TIAM1_uc011adk.1_Silent_p.S1281S|TIAM1_uc011adl.1_Silent_p.S1221S	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1281	PH 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						ACTTGCCCAGCGAGGCCGGCG	0.502													25	81					0	0	0.010818	0	0		T	32508291	T	T	32508291	2	4	123	1	0	0	0	0	0	0	0	1	15915	755	27	1		1	TIAM1	21	32508291	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	4295990	32508291	15621604	668	68732											
TIAM1	7074	broad.mit.edu	37	chr21	32582408	32582408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtgtcgcctggccggaCgaccgtcagggcaggctgat	6	7	16	12	4	1	1	1	1	0	0	2	3	1	2	3	4	1	3	3	4	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr21:32582408C>T	uc002yow.1	-	12	2813	c.2341G>A	c.(2341-2343)GTC>ATC	p.V781I	TIAM1_uc011adk.1_Missense_Mutation_p.V781I|TIAM1_uc011adl.1_Missense_Mutation_p.V756I	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	781	RBD.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CCTGGCCGGACGACCGTCAGG	0.547													16	41					0	0	0.028581	0	0		T	32582408	T	T	32582408	3	4	123	1	0	0	0	0	1	0	0	0	15915	536	19	1	2506	1	TIAM1	21	32582408	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	74117	32582408	15547487	669	68733											
C21orf59	56683	broad.mit.edu	37	chr21	33982263	33982263	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatctgatcatcggtcagTccttgcatattaggagggag	10	12	11	8	1	4	1	3	1	1	0	6	3	5	3	1	3	1	1	1	3	3	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr21:33982263T>C	uc002yqc.2	-	2	305	c.192A>G	c.(190-192)GGA>GGG	p.G64G	C21orf59_uc002ypx.1_5'Flank|C21orf59_uc002ypy.1_Silent_p.G64G|C21orf59_uc002ypz.1_Silent_p.G64G|C21orf59_uc010glx.2_5'UTR|C21orf59_uc002yqd.2_Silent_p.G64G|C21orf59_uc002yqb.3_Silent_p.G64G|C21orf59_uc011adr.1_Intron	NM_021254	NP_067077	P57076	CU059_HUMAN	hypothetical protein LOC56683	64						cytosol|nucleus					0						CATCGGTCAGTCCTTGCATAT	0.378													19	38					0	0	0.010504	0	0		C	33982263	C	C	33982263	2	2	123	1	0	0	0	0	0	0	0	1	2133	1654	58	3		3	C21orf59	21	33982263	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	1399855	33982263	14147632	670	68734											
SON	6651	broad.mit.edu	37	chr21	34925015	34925015	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcccccaacaatgccaccgTtgccacctgaggagccacca	11	4	8	18	1	0	1	0	1	0	0	0	2	0	2	8	1	5	1	8	1	2	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr21:34925015T>C	uc002yse.1	+	3	3527	c.3478T>C	c.(3478-3480)TTG>CTG	p.L1160L	SON_uc002ysb.1_Silent_p.L1160L|SON_uc002ysc.2_Silent_p.L1160L|SON_uc002ysd.2_Silent_p.L151L|SON_uc002ysf.1_Intron|SON_uc002ysg.2_Silent_p.L151L	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	1160	3 X 11 AA tandem repats of P-P-L-P-P-E-E- P-P-[TME]-[MTG].				anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						AATGCCACCGTTGCCACCTGA	0.517													36	69					0	0	0.013726	0	0		C	34925015	C	C	34925015	2	2	123	1	0	0	0	0	0	0	0	1	14951	1722	60	3		3	SON	21	34925015	Silent	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	942752	34925015	13204880	671	68735											
CRYZL1	9946	broad.mit.edu	37	chr21	34974629	34974629	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctctatgatgtgctaacTgaatagctattgtaccaaat	12	14	6	9	0	1	2	0	2	1	0	2	2	2	2	2	0	4	3	2	0	7	6			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr21:34974629T>C	uc011adw.1	-	8	668	c.488A>G	c.(487-489)CAG>CGG	p.Q163R	DONSON_uc002ysn.1_Intron|CRYZL1_uc002ysr.1_Missense_Mutation_p.Q187R|CRYZL1_uc002yss.1_RNA|CRYZL1_uc002yst.1_RNA	NM_145858	NP_665857	O95825	QORL1_HUMAN	crystallin, zeta-like 1	163					quinone cofactor metabolic process	cytosol	NADP binding|NADPH:quinone reductase activity|zinc ion binding				0						ATGTGCTAACTGAATAGCTAT	0.373													26	64					0	0	0.009535	0	0		C	34974629	C	C	34974629	3	2	123	1	0	0	0	0	1	0	0	0	3926	1580	55	3	585	3	CRYZL1	21	34974629	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	49614	34974629	13155266	672	68736											
DIP2A	23181	broad.mit.edu	37	chr21	47985656	47985656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcccccacaatgccaccGggtactacaccgtttacggg	9	6	10	16	3	0	0	0	0	0	0	0	0	0	0	5	2	5	3	5	2	4	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr21:47985656G>A	uc002zjo.2	+	36	4378	c.4195G>A	c.(4195-4197)GGG>AGG	p.G1399R	DIP2A_uc011afz.1_Missense_Mutation_p.G1395R|DIP2A_uc002zjs.2_Missense_Mutation_p.G79R|DIP2A_uc002zjt.2_RNA	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1399					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		CAATGCCACCGGGTACTACAC	0.567													7	43					0	0	0.00308	0	0		A	47985656	A	A	47985656	3	1	123	1	0	0	0	0	1	0	0	0	4533	1116	39	1	4450	1	DIP2A	21	47985656	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	13011027	47985656	144239	673	68737											
DGCR8	54487	broad.mit.edu	37	chr22	20073931	20073931	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgacgtgcgggcggagtgcGgtctgctccttagccctgtc	3	9	16	13	5	1	0	0	0	1	0	3	2	2	1	2	3	4	1	2	3	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr22:20073931G>T	uc002zri.2	+	2	795	c.445G>T	c.(445-447)GGT>TGT	p.G149C	DGCR8_uc010grz.2_Missense_Mutation_p.G149C|DGCR8_uc002zrj.2_5'Flank	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	149	Necessary for nuclear localization and retention.|Necessary for interaction with NCL.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)					GGCGGAGTGCGGTCTGCTCCT	0.572													43	93					1.15505e-17	1.26464e-17	0.009718	1	0		T	20073931	T	T	20073931	3	4	123	1	0	0	0	0	1	0	0	0	4470	1116	39	5	447	5	DGCR8	22	20073931	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08		20073931	31230635	674	68738											
MYO18B	84700	broad.mit.edu	37	chr22	26351273	26351273	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctggaagagctgaaggcCgacatggaagagctggtgca	11	5	16	9	2	0	3	0	1	0	2	0	6	0	5	2	4	3	3	2	4	3	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr22:26351273C>T	uc003abz.1	+	39	6349	c.6099C>T	c.(6097-6099)GCC>GCT	p.A2033A	MYO18B_uc003aca.1_Silent_p.A1914A|MYO18B_uc010guy.1_Silent_p.A1915A|MYO18B_uc010guz.1_Silent_p.A1913A|MYO18B_uc011aka.1_Silent_p.A1187A|MYO18B_uc011akb.1_Silent_p.A1546A|MYO18B_uc010gva.1_Silent_p.A31A	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2033	Tail.|Potential.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						AGCTGAAGGCCGACATGGAAG	0.637													7	40					0	0	0.006214	0	0		T	26351273	T	T	26351273	2	4	123	1	0	0	0	0	0	0	0	1	10084	639	23	1		1	MYO18B	22	26351273	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	6277342	26351273	24953293	675	68739											
SEC14L2	23541	broad.mit.edu	37	chr22	30802355	30802355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcttcgacctgcagaagtCggaggccatgctccggaagg	10	6	14	11	3	0	1	0	0	0	1	3	4	1	3	3	4	3	3	3	4	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr22:30802355C>T	uc003ahr.2	+	3	328	c.155C>T	c.(154-156)TCG>TTG	p.S52L	SEC14L2_uc003ahq.2_Missense_Mutation_p.S52L|SEC14L2_uc011akx.1_5'UTR|SEC14L2_uc003ahs.2_5'UTR|SEC14L2_uc011aky.1_Missense_Mutation_p.S52L|SEC14L2_uc003aht.2_5'Flank|SEC14L2_uc003ahu.3_5'Flank|SEC14L2_uc010gvv.2_5'Flank|SEC14L2_uc010gvw.1_5'Flank|MTP18_uc010gvx.1_5'Flank|MTP18_uc003ahv.1_5'Flank	NM_012429	NP_036561	O76054	S14L2_HUMAN	SEC14-like 2 isoform 1	52					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	phospholipid binding|transporter activity|vitamin E binding				0					Vitamin E(DB00163)	CTGCAGAAGTCGGAGGCCATG	0.532													21	36					0	0	0.01892	0	0		T	30802355	T	T	30802355	3	4	123	1	0	0	0	0	1	0	0	0	14007	893	31	1	165	1	SEC14L2	22	30802355	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	4451082	30802355	20502211	676	68740											
CYTH4	27128	broad.mit.edu	37	chr22	37705361	37705361	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagggttggctgctcaagCtaggtgagagaccgacagac	10	6	17	8	1	1	3	1	1	0	2	1	6	1	4	1	4	2	4	1	4	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr22:37705361C>A	uc003arf.2	+	9	921	c.805C>A	c.(805-807)CTA>ATA	p.L269I	CYTH4_uc003are.2_3'UTR|CYTH4_uc011amw.1_Missense_Mutation_p.L212I|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	269	PH.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						GCTGCTCAAGCTAGGTGAGAG	0.592													14	56					6.31663e-08	6.57907e-08	0.024245	1	0		A	37705361	A	A	37705361	3	1	123	1	0	0	0	0	1	0	0	0	4209	796	28	5	839	5	CYTH4	22	37705361	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	6903006	37705361	13599205	677	68741											
GTPBP1	9567	broad.mit.edu	37	chr22	39124048	39124048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catggacaaggactgtctgcGcactggggacaaggccactg	10	6	14	11	1	1	0	0	0	1	0	1	3	1	3	1	5	1	1	1	5	2	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr22:39124048G>A	uc003awg.2	+	10	1752	c.1598G>A	c.(1597-1599)CGC>CAC	p.R533H		NM_004286	NP_004277	O00178	GTPB1_HUMAN	GTP binding protein 1	533					immune response|positive regulation of mRNA catabolic process|signal transduction	cytoplasmic exosome (RNase complex)|cytosol	GTP binding|GTPase activity			ovary(1)	1	Melanoma(58;0.04)					GACTGTCTGCGCACTGGGGAC	0.592													14	31					0	0	0.020292	0	0		A	39124048	A	A	39124048	3	1	123	1	0	0	0	0	1	0	0	0	6894	1087	38	1	1636	1	GTPBP1	22	39124048	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1418687	39124048	12180518	678	68742											
TNRC6B	23112	broad.mit.edu	37	chr22	40662751	40662751	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccagaggcttctggttcGtggggaggcccacccccacc	7	6	12	16	1	1	1	0	0	1	1	2	2	1	2	5	5	1	2	5	5	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr22:40662751G>A	uc011aor.1	+	5	2728	c.2517G>A	c.(2515-2517)TCG>TCA	p.S839S	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Silent_p.S839S|TNRC6B_uc003ayo.2_Silent_p.S643S	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	839	Pro-rich.				gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						CTTCTGGTTCGTGGGGAGGCC	0.617													8	31					0	0	0.004482	0	0		A	40662751	A	A	40662751	2	1	123	1	0	0	0	0	0	0	0	1	16366	1132	40	1		1	TNRC6B	22	40662751	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	1538703	40662751	10641815	679	68743											
ZC3H7B	23264	broad.mit.edu	37	chr22	41753257	41753257	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggagctcaacgagtggCtggaccggcgcgaggtgctg	8	5	19	9	4	1	0	1	0	0	0	1	5	1	3	1	6	3	3	1	6	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr22:41753257C>T	uc003azw.2	+	23	2974	c.2758C>T	c.(2758-2760)CTG>TTG	p.L920L	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	936	Potential.				interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						CAACGAGTGGCTGGACCGGCG	0.622													24	66					0	0	0.021523	0	0		T	41753257	T	T	41753257	2	4	123	1	0	0	0	0	0	0	0	1	17598	796	28	2		2	ZC3H7B	22	41753257	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1090506	41753257	9551309	680	68744											
ACO2	50	broad.mit.edu	37	chr22	41903881	41903881	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaattgagcgaggcaagtCgtacctgcggctgcggccgg	8	6	17	10	5	0	1	0	1	0	0	1	3	0	2	2	5	4	3	2	5	3	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr22:41903881C>T	uc003bac.2	+	3	282	c.260C>T	c.(259-261)TCG>TTG	p.S87L	ACO2_uc003bad.2_Missense_Mutation_p.S87L	NM_001098	NP_001089	Q99798	ACON_HUMAN	aconitase 2, mitochondrial precursor	87					citrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron ion binding|isocitrate hydro-lyase (cis-aconitate-forming) activity			breast(2)|ovary(1)|lung(1)	4						CGAGGCAAGTCGTACCTGCGG	0.622													11	22					0	0	0.013537	0	0		T	41903881	T	T	41903881	3	4	123	1	0	0	0	0	1	0	0	0	147	893	31	1	270	1	ACO2	22	41903881	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	150624	41903881	9400685	681	68745											
NFAM1	150372	broad.mit.edu	37	chr22	42807623	42807623	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcttcatgaaagtagcTgactgtgaaaaccttgaatt	14	12	9	6	0	2	5	1	4	1	1	2	6	2	5	1	0	2	2	1	0	5	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr22:42807623T>C	uc003bcn.3	-	2	279	c.241A>G	c.(241-243)AGC>GGC	p.S81G		NM_145912	NP_666017	Q8NET5	NFAM1_HUMAN	NFAT activation molecule 1 precursor	81	Extracellular (Potential).|Ig-like V-type.				B cell differentiation|inflammatory response|intracellular signal transduction|positive regulation of B cell receptor signaling pathway|positive regulation of cytokine production|positive regulation of sequence-specific DNA binding transcription factor activity	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity				0						TGAAAGTAGCTGACTGTGAAA	0.552													39	78					0	0	0.027894	0	0		C	42807623	C	C	42807623	3	2	123	1	0	0	0	0	1	0	0	0	10377	1580	55	3	591	3	NFAM1	22	42807623	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	903742	42807623	8496943	682	68746											
PHF21B	112885	broad.mit.edu	37	chr22	45312220	45312220	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcactgaccacagacacGgcggtgctgggggccatggc	7	6	15	13	2	1	2	1	1	0	1	1	2	1	2	2	5	1	1	2	5	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr22:45312220G>A	uc003bfn.2	-	4	655	c.504C>T	c.(502-504)GCC>GCT	p.A168A	PHF21B_uc003bfm.2_Silent_p.A6A|PHF21B_uc011aqk.1_Silent_p.A156A|PHF21B_uc011aql.1_Silent_p.A168A|PHF21B_uc011aqm.1_Silent_p.A156A	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	PHD finger protein 21B isoform 1	168							zinc ion binding			ovary(2)|skin(1)	3		all_neural(38;0.00802)|Glioma(61;0.0353)|Ovarian(80;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0203)		CCACAGACACGGCGGTGCTGG	0.672													8	21					0	0	0.004482	0	0		A	45312220	A	A	45312220	2	1	123	1	0	0	0	0	0	0	0	1	11853	1103	39	1		1	PHF21B	22	45312220	Silent	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	2504597	45312220	5992346	683	68747											
TBC1D22A	25771	broad.mit.edu	37	chr22	47433069	47433069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaggtgcccctgcgttgtaCcatccgcctgtgggacacct	5	9	13	14	2	0	0	0	0	0	0	1	2	1	2	6	3	3	2	6	3	1	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr22:47433069C>T	uc003bib.2	+	11	1439	c.1304C>T	c.(1303-1305)ACC>ATC	p.T435I	TBC1D22A_uc010haf.2_Missense_Mutation_p.T405I|TBC1D22A_uc003bic.2_Missense_Mutation_p.T376I|TBC1D22A_uc003bie.2_Missense_Mutation_p.T357I|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.T388I	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	435	Rab-GAP TBC.					intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		CTGCGTTGTACCATCCGCCTG	0.632													27	59					0	0	0.013726	0	0		T	47433069	T	T	47433069	3	4	123	1	0	0	0	0	1	0	0	0	15636	507	18	4	1346	4	TBC1D22A	22	47433069	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2120849	47433069	3871497	684	68748											
ZBED4	9889	broad.mit.edu	37	chr22	50280399	50280399	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtacaaacaggatttaaTcagggaactcgaactcatga	16	8	9	8	1	2	1	2	1	0	0	3	4	2	3	0	2	4	2	0	2	5	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chr22:50280399T>C	uc003bix.2	+	2	3559	c.3089T>C	c.(3088-3090)ATC>ACC	p.I1030T		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	1030						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		CAGGATTTAATCAGGGAACTC	0.582													15	36					0	0	0.024245	0	0		C	50280399	C	C	50280399	3	2	123	1	0	0	0	0	1	0	0	0	17545	1435	50	3	3091	3	ZBED4	22	50280399	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	2847330	50280399	1024167	685	68749											
SHOX	6473	broad.mit.edu	37	chrX	595491	595491	+	Frame_Shift_Del	DEL	C	-	-																															cgagcgactcttcgacgagaCccattaccccgacgccttca																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:595491delC	uc004cph.1	+	3	1107	c.416delC	c.(415-417)ACCfs	p.T139fs	SHOX_uc004cpi.2_Frame_Shift_Del_p.T139fs	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	139	Homeobox.				skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TTCGACGAGACCCATTACCCC	0.577													8	8	---	---	---	---						.	-	595491	-	-	595491	7	5	123	1	0	1	0	1	0	0	0	0	14313	507	18	0	422	0	SHOX	23	595491	Frame_Shift_Del	DEL	C	TCGA-CD-A4MJ-01A-11D-A25D-08		595491	154675069	686	68750											
HDHD1A	8226	broad.mit.edu	37	chrX	6968351	6968351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccctctcactcataggaggGcaaaccaaacagctcgggct	11	7	9	14	1	2	0	2	0	1	0	5	1	3	1	2	3	3	3	2	3	3	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:6968351G>A	uc004crv.2	-	4	750	c.673C>T	c.(673-675)CCC>TCC	p.P225S	HDHD1A_uc011mhm.1_Missense_Mutation_p.P248S|HDHD1A_uc011mhn.1_Missense_Mutation_p.P182S|HDHD1A_uc010ndl.2_3'UTR	NM_012080	NP_036212	Q08623	HDHD1_HUMAN	haloacid dehalogenase-like hydrolase domain	225					nucleotide metabolic process		metal ion binding|phosphatase activity				0		Colorectal(8;0.0114)|Medulloblastoma(8;0.184)				TCATAGGAGGGCAAACCAAAC	0.567													6	20					0	0	0.001984	0	0		A	6968351	A	A	6968351	3	1	123	1	0	0	0	0	1	0	0	0	7038	1203	42	2	17	2	HDHD1A	23	6968351	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	6372860	6968351	148302209	687	68751											
KAL1	3730	broad.mit.edu	37	chrX	8522053	8522053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgatagaagggagctcCgacttccagcgggcgagtgg	9	7	15	10	3	0	2	0	1	0	1	3	5	3	3	3	3	2	1	3	3	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:8522053C>T	uc004csf.2	-	9	1444	c.1294G>A	c.(1294-1296)GGA>AGA	p.G432R		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	432	Fibronectin type-III 3.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						AAGGGAGCTCCGACTTCCAGC	0.413													22	13					0	0	0.01892	0	0		T	8522053	T	T	8522053	3	4	123	1	0	0	0	0	1	0	0	0	7990	661	23	1	772	1	KAL1	23	8522053	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	1553702	8522053	146748507	688	68752											
PDHA1	5160	broad.mit.edu	37	chrX	19375832	19375832	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtatgagtgaccctggAgtcaggtacgctcatgggca	10	8	13	10	1	2	2	2	2	0	0	2	3	2	3	1	3	1	4	1	3	2	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:19375832A>C	uc004czg.3	+	9	1039	c.894A>C	c.(892-894)GGA>GGC	p.G298G	PDHA1_uc004czh.3_Silent_p.G333G|PDHA1_uc011mjc.1_Silent_p.G302G|PDHA1_uc011mjd.1_Silent_p.G264G|PDHA1_uc010nfk.2_Intron|PDHA1_uc010nfl.2_Silent_p.G89G	NM_000284	NP_000275	P08559	ODPA_HUMAN	pyruvate dehydrogenase E1 alpha 1 precursor	298					glycolysis|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	protein binding|pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)	1	Hepatocellular(33;0.183)				NADH(DB00157)	GTGACCCTGGAGTCAGGTACG	0.493													58	29					0	0	0.01441	0	0		C	19375832	C	C	19375832	2	2	123	1	0	0	0	0	0	0	0	1	11683	291	11	5		5	PDHA1	23	19375832	Silent	SNP	A	TCGA-CD-A4MJ-01A-11D-A25D-08	10853779	19375832	135894728	689	68753											
MBTPS2	51360	broad.mit.edu	37	chrX	21887618	21887618	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaccctcttcccaaggaCtctcctgccattggacccag	7	12	6	16	0	2	0	0	0	2	0	4	2	3	2	5	2	2	0	5	2	2	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:21887618C>A	uc004dae.2	+	7	989	c.792C>A	c.(790-792)GAC>GAA	p.D264E	MBTPS2_uc010nfr.2_5'UTR|MBTPS2_uc004dab.2_Missense_Mutation_p.D264E	NM_015884	NP_056968	O43462	MBTP2_HUMAN	membrane-bound transcription factor peptidase,	264	Lumenal (Probable).				cholesterol metabolic process|proteolysis	Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity			ovary(1)	1						TTCCCAAGGACTCTCCTGCCA	0.393													42	25					4.01344e-20	4.44105e-20	0.01441	1	0		A	21887618	A	A	21887618	3	1	123	1	0	0	0	0	1	0	0	0	9380	564	20	5	818	5	MBTPS2	23	21887618	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2511786	21887618	133382942	690	68754											
GPR82	27197	broad.mit.edu	37	chrX	41586414	41586415	+	Frame_Shift_Ins	INS	-	A	A																															tatttttaacaaaaataggtINSaaaaaaacatcaacgcacat																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:41586414_41586415insA	uc004dfs.1	+	3	375_376	c.135_136insA	c.(133-138)GGTAAAfs	p.G45fs	CASK_uc004dfl.3_Intron|CASK_uc004dfm.3_Intron|CASK_uc004dfn.3_Intron|GPR82_uc004dft.2_Frame_Shift_Ins_p.G45fs|GPR82_uc004dfu.1_RNA	NM_080817	NP_543007	Q96P67	GPR82_HUMAN	G protein-coupled receptor 82	45_46	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						CAAAAATAGGTAAAAAAACATC	0.371													22	19	---	---	---	---						.	A	41586415	A	A	41586414	7	5	123	1	0	1	1	0	0	0	0	0	6727	1625	57	0	137	0	GPR82	23	41586414	Frame_Shift_Ins	INS	-	TCGA-CD-A4MJ-01A-11D-A25D-08	19698796	41586414	113684146	691	68755											
SHROOM4	57477	broad.mit.edu	37	chrX	50377350	50377350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttttggatcgagcggccccGggtccctccacttcgcctac	4	10	11	16	4	0	0	0	0	0	0	4	2	2	1	5	3	2	1	5	3	1	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:50377350G>A	uc004dpe.2	-	4	1749	c.1723C>T	c.(1723-1725)CGG>TGG	p.R575W	SHROOM4_uc004dpd.3_RNA|SHROOM4_uc004dpf.1_Missense_Mutation_p.R459W	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	575					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					GAGCGGCCCCGGGTCCCTCCA	0.577													8	8					0	0	0.00308	0	0		A	50377350	A	A	50377350	3	1	123	1	0	0	0	0	1	0	0	0	14321	1115	39	1	2782	1	SHROOM4	23	50377350	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	8790936	50377350	104893210	692	68756											
SHROOM4	57477	broad.mit.edu	37	chrX	50556963	50556964	+	Frame_Shift_Ins	INS	-	C	C																															aagggtgaagccccagggtgINScccccccttgcagctgcaca																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:50556963_50556964insC	uc004dpe.2	-	1	81_82	c.55_56insG	c.(55-57)GCAfs	p.A19fs	SHROOM4_uc004dpd.3_RNA	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	19	PDZ.				actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					GCCCCAGGGTGCCCCCCCTTGC	0.639													7	9	---	---	---	---						.	C	50556964	C	C	50556963	7	5	123	1	0	1	1	0	0	0	0	0	14321	1319	46	0	4461	0	SHROOM4	23	50556963	Frame_Shift_Ins	INS	-	TCGA-CD-A4MJ-01A-11D-A25D-08	179613	50556963	104713597	693	68757											
AR	367	broad.mit.edu	37	chrX	66941796	66941796	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatgaaagcactgctactcTtcagcattagtaagtgccta	12	11	8	10	0	2	1	1	1	1	0	2	1	2	1	1	0	5	5	1	0	5	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:66941796T>G	uc004dwu.1	+	6	3555	c.2440T>G	c.(2440-2442)TTC>GTC	p.F814V	AR_uc004dwv.1_Missense_Mutation_p.F282V	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	813	Ligand-binding.|Interaction with MYST2.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	ACTGCTACTCTTCAGCATTAG	0.488									Androgen_Insensitivity_Syndrome				15	18					0	0	0.006122	0	0		G	66941796	G	G	66941796	3	3	123	1	0	0	0	0	1	0	0	0	836	1609	56	5	2486	5	AR	23	66941796	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	16384833	66941796	88328764	694	68758											
OTUD6A	139562	broad.mit.edu	37	chrX	69283211	69283211	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccgctcgaggccggcgcCgccgggggcgtgctcccgcg	3	3	17	18	9	0	0	0	0	0	0	2	1	1	0	5	4	1	2	5	4	0	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:69283211C>T	uc004dxu.1	+	1	871	c.837C>T	c.(835-837)GCC>GCT	p.A279A		NM_207320	NP_997203	Q7L8S5	OTU6A_HUMAN	OTU domain containing 6A	279										lung(1)|skin(1)	2						AGGCCGGCGCCGCCGGGGGCG	0.652													5	6					0	0	0.001984	0	0		T	69283211	T	T	69283211	2	4	123	1	0	0	0	0	0	0	0	1	11335	639	23	1		1	OTUD6A	23	69283211	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	2341415	69283211	85987349	695	68759											
DLG3	1741	broad.mit.edu	37	chrX	69669655	69669655	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgattggtggtgcggaggCgacagcctccacccgagacc	7	6	15	13	4	0	1	0	0	0	1	1	5	1	2	4	4	3	0	4	4	0	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:69669655C>T	uc004dyi.1	+	4	977	c.649C>T	c.(649-651)CGA>TGA	p.R217*	DLG3_uc004dyj.1_5'Flank	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	217	PDZ 1.				axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					GGTGCGGAGGCGACAGCCTCC	0.662													4	2					0	0	0.014758	0	0		T	69669655	T	T	69669655	4	4	123	1	0	0	0	0	0	1	0	0	4562	760	27	1	663	1	DLG3	23	69669655	Nonsense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	386444	69669655	85600905	696	68760											
FOXO4	4303	broad.mit.edu	37	chrX	70320703	70320703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaagctgctccggggccGcagtaaagcccccaagaaga	12	3	12	14	2	0	2	0	0	0	2	1	2	1	2	4	2	4	5	4	2	5	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:70320703G>A	uc004dys.1	+	2	976	c.623G>A	c.(622-624)CGC>CAC	p.R208H	FOXO4_uc010nkz.2_Missense_Mutation_p.R208H|FOXO4_uc004dyt.1_Missense_Mutation_p.R153H	NM_005938	NP_005929	P98177	FOXO4_HUMAN	forkhead box O4	208					cell cycle arrest|cell differentiation|embryo development|G1 phase of mitotic cell cycle|insulin receptor signaling pathway|mitotic cell cycle G2/M transition DNA damage checkpoint|muscle organ development|negative regulation of angiogenesis|negative regulation of cell proliferation|negative regulation of smooth muscle cell differentiation|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			central_nervous_system(2)|prostate(1)	3	Renal(35;0.156)					CTCCGGGGCCGCAGTAAAGCC	0.542											OREG0019856	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	4					0	0	0.00499	0	0		A	70320703	A	A	70320703	3	1	123	1	0	0	0	0	1	0	0	0	6039	1087	38	1	629	1	FOXO4	23	70320703	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	651048	70320703	84949857	697	68761											
ZCCHC5	203430	broad.mit.edu	37	chrX	77913206	77913206	+	Frame_Shift_Del	DEL	G	-	-																															gaaggttaaagtgtattgcaGggggaaatctgtagcctcta																										TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:77913206delG	uc004edc.1	-	2	1008	c.712delC	c.(712-714)CTGfs	p.L238fs		NM_152694	NP_689907	Q8N8U3	ZCHC5_HUMAN	zinc finger, CCHC domain containing 5	238							nucleic acid binding|zinc ion binding			ovary(1)	1						GTGTATTGCAGGGGGAAATCT	0.507													9	7	---	---	---	---						.	-	77913206	-	-	77913206	7	5	123	1	0	1	0	1	0	0	0	0	17616	991	35	0	719	0	ZCCHC5	23	77913206	Frame_Shift_Del	DEL	G	TCGA-CD-A4MJ-01A-11D-A25D-08	7592503	77913206	77357354	698	68762											
FAM133A	286499	broad.mit.edu	37	chrX	92964587	92964587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataaaaaaacaggttcaaaaGcattagctgaatttgaagaa	21	9	7	4	0	1	3	1	2	0	1	1	3	1	3	0	1	3	3	0	1	10	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:92964587G>A	uc004efr.1	+	4	482	c.169G>A	c.(169-171)GCA>ACA	p.A57T		NM_173698	NP_775969	Q8N9E0	F133A_HUMAN	hypothetical protein LOC286499	57	Lys-rich.										0						AGGTTCAAAAGCATTAGCTGA	0.323													13	5					0	0	0.020292	0	0		A	92964587	A	A	92964587	3	1	123	1	0	0	0	0	1	0	0	0	5454	971	34	2	171	2	FAM133A	23	92964587	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	15051381	92964587	62305973	699	68763											
CXorf56	63932	broad.mit.edu	37	chrX	118679451	118679451	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatttcttcctgtactgtcGttcaatgccttcaggtctgc	6	16	7	12	1	4	0	2	0	2	0	6	0	5	0	2	1	3	2	2	1	2	5			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:118679451G>A	uc004erk.1	-	3	305	c.259C>T	c.(259-261)CGA>TGA	p.R87*	CXorf56_uc004erj.1_Nonsense_Mutation_p.R38*|CXorf56_uc011mtu.1_Intron	NM_022101	NP_071384	Q9H5V9	CX056_HUMAN	hypothetical protein LOC63932	87							protein binding				0						CTGTACTGTCGTTCAATGCCT	0.353													93	28					0	0	0.01441	0	0		A	118679451	A	A	118679451	4	1	123	1	0	0	0	0	0	1	0	0	4115	1153	40	1	429	1	CXorf56	23	118679451	Nonsense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	25714864	118679451	36591109	700	68764											
MAP7D3	79649	broad.mit.edu	37	chrX	135318405	135318405	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttagaagtaactaaccaCgtggcttcctttcggcttgt	9	15	8	9	2	0	1	0	0	0	1	2	1	1	1	2	2	2	3	2	2	5	8			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:135318405C>T	uc004ezt.2	-	7	825	c.734G>A	c.(733-735)CGT>CAT	p.R245H	MAP7D3_uc004ezs.2_Missense_Mutation_p.R209H|MAP7D3_uc011mwc.1_Missense_Mutation_p.R227H|MAP7D3_uc010nsa.1_Missense_Mutation_p.R244H	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	245						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					TAACTAACCACGTGGCTTCCT	0.333													41	27					0	0	0.011902	0	0		T	135318405	T	T	135318405	3	4	123	1	0	0	0	0	1	0	0	0	9287	536	19	1	1944	1	MAP7D3	23	135318405	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	16638954	135318405	19952155	701	68765											
MAGEC3	139081	broad.mit.edu	37	chrX	140983061	140983061	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctgctgtcagccctggTcagccttggcagggttcgcg	3	10	14	14	2	3	0	2	0	1	0	4	0	3	0	3	3	3	3	3	3	0	2			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:140983061T>A	uc011mwp.1	+	5	916	c.916T>A	c.(916-918)TCA>ACA	p.S306T	MAGEC3_uc004fbs.2_5'UTR|MAGEC3_uc010nsj.2_5'Flank	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	306	MAGE 1.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TCAGCCCTGGTCAGCCTTGGC	0.463													52	45					0	0	0.01441	0	0		A	140983061	A	A	140983061	3	1	123	1	0	0	0	0	1	0	0	0	9200	1667	58	5	934	5	MAGEC3	23	140983061	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	5664656	140983061	14287499	702	68766											
FAM58A	92002	broad.mit.edu	37	chrX	152860068	152860068	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatgagaagctcacactgCacgatgctgtcccggagttc	10	8	11	12	2	1	1	1	1	0	1	3	4	2	2	1	1	4	5	1	1	1	1			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:152860068C>G	uc010nug.2	-	2	283	c.180G>C	c.(178-180)GTG>GTC	p.V60V				Q8N1B3	FA58A_HUMAN	RecName: Full=Cyclin-related protein FAM58B;	122					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCTCACACTGCACGATGCTGT	0.557													29	21					0	0	0.009535	0	0		G	152860068	G	G	152860068	2	3	123	1	0	0	0	0	0	0	0	1	5604	697	25	5		5	FAM58A	23	152860068	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	11877007	152860068	2410492	703	68767											
PDZD4	57595	broad.mit.edu	37	chrX	153071526	153071526	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcctgcaagtgctcacCtggatgatgcggtctccctc	6	10	11	14	1	2	1	1	1	1	0	4	2	2	2	3	2	5	3	3	2	1	0			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:153071526C>A	uc004fiz.1	-	5	799	c.549G>T	c.(547-549)CAG>CAT	p.Q183H	PDZD4_uc004fiy.1_Missense_Mutation_p.Q108H|PDZD4_uc004fix.2_Missense_Mutation_p.Q87H|PDZD4_uc004fja.1_Missense_Mutation_p.Q189H|PDZD4_uc011mze.1_Missense_Mutation_p.Q74H	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	183	PDZ.					cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AAGTGCTCACCTGGATGATGC	0.617													18	14					8.34094e-07	8.6503e-07	0.008871	1	0		A	153071526	A	A	153071526	3	1	123	1	0	0	0	0	1	0	0	0	11722	695	24	5	1776	5	PDZD4	23	153071526	Missense_Mutation	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08	211458	153071526	2199034	704	68768											
L1CAM	3897	broad.mit.edu	37	chrX	153129872	153129872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctgcaggtcccactgcGtgtaggagctctggttgtag	6	10	15	10	1	1	0	0	0	1	0	2	1	2	1	1	4	3	6	1	4	2	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:153129872G>A	uc004fjb.2	-	24	3335	c.3227C>T	c.(3226-3228)ACG>ATG	p.T1076M	L1CAM_uc004fjc.2_Missense_Mutation_p.T1076M|L1CAM_uc010nuo.2_Missense_Mutation_p.T1071M	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	1076	Fibronectin type-III 5.|Extracellular (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GTCCCACTGCGTGTAGGAGCT	0.567													83	47					0	0	0.01441	0	0		A	153129872	A	A	153129872	3	1	123	1	0	0	0	0	1	0	0	0	8604	1145	40	1	566	1	L1CAM	23	153129872	Missense_Mutation	SNP	G	TCGA-CD-A4MJ-01A-11D-A25D-08	58346	153129872	2140688	705	68769											
EMD	2010	broad.mit.edu	37	chrX	153609114	153609114	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgactctcttctgcaggTgcatgatgacgatcttttgt	6	15	9	11	1	3	3	0	3	3	0	4	4	3	3	1	1	2	2	1	1	0	3			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrX:153609114T>C	uc004fkl.2	+	5	649	c.401T>C	c.(400-402)GTG>GCG	p.V134A		NM_000117	NP_000108	P50402	EMD_HUMAN	emerin	134	Interaction with F-actin (Probable).				cellular response to growth factor stimulus|muscle contraction|muscle organ development|negative regulation of catenin import into nucleus|negative regulation of fibroblast proliferation|positive regulation of protein export from nucleus|regulation of canonical Wnt receptor signaling pathway	endoplasmic reticulum|integral to membrane|microtubule|nuclear inner membrane|nuclear outer membrane	actin binding|beta-tubulin binding				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTTCTGCAGGTGCATGATGAC	0.607													39	16					0	0	0.007835	0	0		C	153609114	C	C	153609114	3	2	123	1	0	0	0	0	1	0	0	0	5095	1710	59	3	419	3	EMD	23	153609114	Missense_Mutation	SNP	T	TCGA-CD-A4MJ-01A-11D-A25D-08	479242	153609114	1661446	706	68770											
NLGN4Y	22829	broad.mit.edu	37	chrY	16734098	16734098	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggataactgctcttgcCatcaagttcaccctcattga	9	13	7	12	0	4	1	3	1	1	0	4	2	4	2	2	1	3	2	2	1	2	4			TCGA-CD-A4MJ-01A-11D-A25D-08	TCGA-CD-A4MJ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	9897e6a0-16a6-448b-a494-2ff94291ce74	3cb3d878-cb2a-4022-990a-85beffc44db3	g.chrY:16734098C>A	uc004ftg.2	+	2	351	c.99C>A	c.(97-99)GCC>GCA	p.A33A	NLGN4Y_uc004fte.2_Intron|NLGN4Y_uc011nas.1_Silent_p.A33A|NLGN4Y_uc004ftf.2_5'UTR|NLGN4Y_uc004fth.2_Silent_p.A33A|NLGN4Y_uc004fti.3_Silent_p.A33A	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	33					brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0						CTGCTCTTGCCATCAAGTTCA	0.463													17	20					3.41278e-10	3.62203e-10	0.00499	1	0		A	16734098	A	A	16734098	2	1	123	1	0	0	0	0	0	0	0	1	10484	581	21	5		5	NLGN4Y	24	16734098	Silent	SNP	C	TCGA-CD-A4MJ-01A-11D-A25D-08		16734098	42639468	707	68771											
PLCH2	9651	broad.mit.edu	37	chr1	2415915	2415915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggatgaccaccaagggaCgctgggttttgaagagttct	10	9	13	9	2	1	3	0	2	1	1	1	5	1	5	2	3	0	3	2	3	2	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:2415915C>T	uc001aji.1	+	5	948	c.674C>T	c.(673-675)ACG>ATG	p.T225M	PLCH2_uc010nyz.1_Missense_Mutation_p.T13M|PLCH2_uc009vle.1_Missense_Mutation_p.T13M|PLCH2_uc001ajj.1_Missense_Mutation_p.T13M|PLCH2_uc001ajk.1_Missense_Mutation_p.T13M	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	225	EF-hand 2.				intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		CACCAAGGGACGCTGGGTTTT	0.592													11	14					0	0	0.010729	0	0		T	2415915	T	T	2415915	3	4	124	1	0	0	0	0	1	0	0	0	12057	536	19	1	692	1	PLCH2	1	2415915	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08		2415915	246834706	1	68772											
PRAMEF11	440560	broad.mit.edu	37	chr1	12887579	12887579	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggacagtcctgcactggtGttttgttcctcttggcattg	4	17	11	9	0	1	0	0	0	1	0	3	1	3	1	2	3	1	4	2	3	0	6	rs2486717	by1000genomes	TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:12887579G>T	uc001auk.2	-	3	474	c.278C>A	c.(277-279)ACA>AAA	p.T93K		NM_001146344	NP_001139816	O60813	PRA11_HUMAN	PRAME family member 11	93											0						CTGCACTGGTGTTTTGTTCCT	0.493													14	352					7.07596e-05	7.58139e-05	0.038395	1	0		T	12887579	T	T	12887579	3	4	124	1	0	0	0	0	1	0	0	0	12449	1377	48	5	1040	5	PRAMEF11	1	12887579	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	10471664	12887579	236363042	2	68773											
AKR7L	246181	broad.mit.edu	37	chr1	19600479	19600501	+	Frame_Shift_Del	DEL	TGCGGCGCTGGTGGGCGCGTCCA	-	-																															tccaggaaggcgcgcgtgacTgcggcgctggtgggcgcgtc																										TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:19600479_19600501delTGCGGCGCTGGTGGGCGCGTCCA	uc010ocx.1	-	1	68_90	c.68_90delTGGACGCGCCCACCAGCGCCGCA	c.(67-90)ATGGACGCGCCCACCAGCGCCGCAfs	p.M23fs	AKR7L_uc010ocy.1_Frame_Shift_Del_p.M23fs	NM_201252	NP_957704			aflatoxin B1 aldehyde reductase 3 isoform 1												0						CGCGCGTGACTGCGGCGCTGGTGGGCGCGTCCATGCGGCGCCC	0.722													3	4	---	---	---	---						.	-	19600501	-	-	19600479	7	5	124	1	0	1	0	1	0	0	0	0	477	1567	55	0	933	0	AKR7L	1	19600479	Frame_Shift_Del	DEL	TGCGGCGCTGGTGGGCGCGTCCA	TCGA-CG-4300-01A-01D-1158-08	6712900	19600479	229650142	3	68774											
GPATCH3	63906	broad.mit.edu	37	chr1	27223867	27223867	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacaggggctggctggtatAtctgccaggtaggttccttg	6	11	14	10	0	1	0	0	0	1	0	2	0	2	0	3	6	1	5	3	6	3	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:27223867A>G	uc001bne.2	-	2	830	c.801T>C	c.(799-801)GAT>GAC	p.D267D	GPATCH3_uc009vsp.1_Silent_p.D78D	NM_022078	NP_071361	Q96I76	GPTC3_HUMAN	G patch domain containing 3	267	Glu-rich.					intracellular	nucleic acid binding				0		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.97e-51)|OV - Ovarian serous cystadenocarcinoma(117;9.55e-30)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|STAD - Stomach adenocarcinoma(196;0.000595)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|READ - Rectum adenocarcinoma(331;0.0419)		TGGCTGGTATATCTGCCAGGT	0.517													17	232					0	0	0.016522	0	0		G	27223867	G	G	27223867	2	3	124	1	0	0	0	0	0	0	0	1	6607	446	16	3		3	GPATCH3	1	27223867	Silent	SNP	A	TCGA-CG-4300-01A-01D-1158-08	7623388	27223867	222026754	4	68775											
PTPRU	10076	broad.mit.edu	37	chr1	29644433	29644433	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaatgcagccctgactgaCgtgagagcttggggtggagt	9	10	15	7	1	0	3	0	3	0	1	0	5	0	4	1	3	3	2	1	3	1	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:29644433C>T	uc001bru.2	+	26	3827	c.3717C>T	c.(3715-3717)GAC>GAT	p.D1239D	PTPRU_uc001brv.2_Silent_p.D1235D|PTPRU_uc001brw.2_Silent_p.D1229D|PTPRU_uc009vtq.2_Silent_p.D1235D|PTPRU_uc009vtr.2_Silent_p.D1226D|PTPRU_uc001brx.2_5'Flank	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	1239	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		CCCTGACTGACGTGAGAGCTT	0.622													7	41					0	0	0.02938	0	0		T	29644433	T	T	29644433	2	4	124	1	0	0	0	0	0	0	0	1	12838	550	19	1		1	PTPRU	1	29644433	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08	2420566	29644433	219606188	5	68776											
DIRAS3	9077	broad.mit.edu	37	chr1	68512741	68512741	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggaaagcacaccgtggctGcagcccagcaactggcagta	12	4	13	12	1	0	0	0	0	0	0	0	1	0	1	2	3	5	6	2	3	3	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:68512741G>T	uc001ded.2	-	2	535	c.240C>A	c.(238-240)TGC>TGA	p.C80*	uc001deb.1_Intron|uc001dec.1_Intron	NM_004675	NP_004666	O95661	DIRA3_HUMAN	DIRAS family, GTP-binding RAS-like 3	80					regulation of cyclin-dependent protein kinase activity|regulation of gene expression by genetic imprinting|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						CACCGTGGCTGCAGCCCAGCA	0.612													50	132					9.90819e-18	1.12027e-17	0.01441	1	0		T	68512741	T	T	68512741	4	4	124	1	0	0	0	0	0	1	0	0	4538	1311	46	5	453	5	DIRAS3	1	68512741	Nonsense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	38868308	68512741	180737880	6	68777											
WDR47	22911	broad.mit.edu	37	chr1	109514146	109514146	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgcactgaatcactttgTccttgtgctcccccaccacc	7	12	5	17	0	2	1	1	1	1	0	4	1	4	1	5	0	2	2	5	0	1	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:109514146T>A	uc001dwj.2	-	15	3042	c.2666A>T	c.(2665-2667)GAC>GTC	p.D889V	WDR47_uc001dwl.2_Missense_Mutation_p.D897V|WDR47_uc001dwi.2_Missense_Mutation_p.D890V|WDR47_uc010ovf.1_Missense_Mutation_p.D814V	NM_001142551	NP_001136023	O94967	WDR47_HUMAN	WD repeat domain 47 isoform 3	889	WD 7.									ovary(1)	1		all_lung(203;0.00519)|all_epithelial(167;0.00611)|Lung NSC(277;0.00822)		Colorectal(144;0.0165)|Lung(183;0.0484)|COAD - Colon adenocarcinoma(174;0.128)|Epithelial(280;0.168)|all cancers(265;0.201)|LUSC - Lung squamous cell carcinoma(189;0.244)		AATCACTTTGTCCTTGTGCTC	0.448													29	107					0	0	0.030593	0	0		A	109514146	A	A	109514146	3	1	124	1	0	0	0	0	1	0	0	0	17326	1667	58	5	97	5	WDR47	1	109514146	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	41001405	109514146	139736475	7	68778											
LCE2A	353139	broad.mit.edu	37	chr1	152671534	152671534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagctctgggggctgctgcGgctccagctctgggggctgc	2	8	17	14	1	2	0	0	0	2	0	3	0	3	0	2	5	5	6	2	5	0	0			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:152671534G>A	uc001faj.2	+	2	208	c.157G>A	c.(157-159)GGC>AGC	p.G53S		NM_178428	NP_848515	Q5TA79	LCE2A_HUMAN	late cornified envelope 2A	53	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGGCTGCTGCGGCTCCAGCTC	0.692													35	133					0	0	0.01441	0	0		A	152671534	A	A	152671534	3	1	124	1	0	0	0	0	1	0	0	0	8681	1116	39	1	159	1	LCE2A	1	152671534	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	43157388	152671534	96579087	8	68779											
TRIM46	80128	broad.mit.edu	37	chr1	155154567	155154567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttggtcaaggtgggcgtcGggctggagagcaagcttcaa	9	8	16	8	2	2	1	2	0	0	1	3	2	2	1	0	5	2	3	0	5	3	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:155154567G>A	uc001fhs.1	+	9	1911	c.1828G>A	c.(1828-1830)GGG>AGG	p.G610R	RAG1AP1_uc010pey.1_Intron|TRIM46_uc009wpe.1_RNA|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_Missense_Mutation_p.G484R|TRIM46_uc001fhu.1_Missense_Mutation_p.G587R|TRIM46_uc009wpg.1_Missense_Mutation_p.G597R|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	610	B30.2/SPRY.					intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GGTGGGCGTCGGGCTGGAGAG	0.647													8	49					0	0	0.004482	0	0		A	155154567	A	A	155154567	3	1	124	1	0	0	0	0	1	0	0	0	16547	1116	39	1	1862	1	TRIM46	1	155154567	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	2483033	155154567	94096054	9	68780											
KCNT2	343450	broad.mit.edu	37	chr1	196300297	196300297	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtacttaccttgtctaatcTtaagcagcaaaatggtactt	13	14	6	8	0	2	0	0	0	2	0	2	0	2	0	1	1	5	4	1	1	7	7			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:196300297T>C	uc001gtd.1	-	18	2152	c.2092A>G	c.(2092-2094)AGA>GGA	p.R698G	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.R648G|KCNT2_uc001gtf.1_Missense_Mutation_p.R698G|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.R698G|KCNT2_uc001gth.1_Missense_Mutation_p.R219G	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	698	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TTGTCTAATCTTAAGCAGCAA	0.299													49	234					0	0	0.01441	0	0		C	196300297	C	C	196300297	3	2	124	1	0	0	0	0	1	0	0	0	8108	1617	56	3	1359	3	KCNT2	1	196300297	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	41145730	196300297	52950324	10	68781											
ASPM	259266	broad.mit.edu	37	chr1	197072455	197072455	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatagtatgactgtatgaTgatagcacatttatgttgcc	11	16	8	6	0	1	3	0	3	1	0	1	3	1	3	1	0	2	4	1	0	6	8			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:197072455T>A	uc001gtu.2	-	18	6183	c.5926A>T	c.(5926-5928)ATC>TTC	p.I1976F	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1976	IQ 13.|IQ 12.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GACTGTATGATGATAGCACAT	0.378													17	328					0	0	0.043863	0	0		A	197072455	A	A	197072455	3	1	124	1	0	0	0	0	1	0	0	0	1057	1464	51	5	4551	5	ASPM	1	197072455	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	772158	197072455	52178166	11	68782											
CRB1	23418	broad.mit.edu	37	chr1	197390846	197390846	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggtgttgctctgcttaacTtctataatatgccatccaca	10	15	6	10	0	2	0	0	0	2	0	3	0	3	0	2	1	4	3	2	1	4	6			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:197390846T>G	uc001gtz.2	+	6	2023	c.1888T>G	c.(1888-1890)TTC>GTC	p.F630V	CRB1_uc010poz.1_Missense_Mutation_p.F561V|CRB1_uc010ppa.1_Intron|CRB1_uc009wza.2_Missense_Mutation_p.F518V|CRB1_uc010ppb.1_Missense_Mutation_p.F630V|CRB1_uc010ppc.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.F111V|CRB1_uc001gub.1_Missense_Mutation_p.F279V	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	630	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TCTGCTTAACTTCTATAATAT	0.418													17	292					0	0	0.012319	0	0		G	197390846	G	G	197390846	3	3	124	1	0	0	0	0	1	0	0	0	3851	1609	56	5	1910	5	CRB1	1	197390846	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	318391	197390846	51859775	12	68783											
LGTN	1939	broad.mit.edu	37	chr1	206772957	206772957	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagggctcgggtatgacgaaAgatgtaatcctaaaacccag	14	7	12	8	2	0	2	0	1	0	1	2	4	1	2	2	2	1	3	2	2	5	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:206772957A>T	uc001heh.2	-	10	1271	c.1062T>A	c.(1060-1062)TCT>TCA	p.S354S	LGTN_uc009xbw.2_Silent_p.S230S	NM_006893	NP_008824	P41214	EIF2D_HUMAN	ligatin	354					intracellular protein transport	cytoplasm	protein binding|receptor activity|translation initiation factor activity				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			GTATGACGAAAGATGTAATCC	0.532													5	151					0	0	0.014758	0	0		T	206772957	T	T	206772957	2	4	124	1	0	0	0	0	0	0	0	1	8776	59	3	5		5	LGTN	1	206772957	Silent	SNP	A	TCGA-CG-4300-01A-01D-1158-08	9382111	206772957	42477664	13	68784											
CR1	1378	broad.mit.edu	37	chr1	207737372	207737372	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagactggagccctgcagcCcccacatgtgaaggtgacta	10	6	13	12	0	0	3	0	2	0	1	0	5	0	4	3	3	3	1	3	3	2	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:207737372C>T	uc001hfy.2	+	14	2540	c.2400C>T	c.(2398-2400)GCC>GCT	p.A800A	CR1_uc009xcl.1_Intron|CR1_uc001hfx.2_Silent_p.A1250A|CR1_uc009xck.1_Intron	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	800	Sushi 12.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						GCCCTGCAGCCCCCACATGTG	0.522													10	125					0	0	0.043863	0	0		T	207737372	T	T	207737372	2	4	124	1	0	0	0	0	0	0	0	1	3843	610	22	4		4	CR1	1	207737372	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08	964415	207737372	41513249	14	68785											
OBSCN	84033	broad.mit.edu	37	chr1	228404777	228404777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgccgtggctgggggccCggcgcagtttgagtgtgaga	5	8	20	8	3	0	2	0	2	0	1	0	4	0	3	2	5	1	3	2	5	0	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:228404777C>T	uc009xez.1	+	8	2485	c.2441C>T	c.(2440-2442)CCG>CTG	p.P814L	OBSCN_uc001hsn.2_Missense_Mutation_p.P814L	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	814	Ig-like 8.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCTGGGGGCCCGGCGCAGTTT	0.657													8	28					0	0	0.010729	0	0		T	228404777	T	T	228404777	3	4	124	1	0	0	0	0	1	0	0	0	10831	652	23	1	2467	1	OBSCN	1	228404777	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	20667405	228404777	20845844	15	68786											
C1orf101	257044	broad.mit.edu	37	chr1	244735822	244735822	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatacaaatacaggactaTcccttacatctggaagcaca	17	8	5	11	0	1	0	0	0	1	0	2	2	2	2	1	2	4	1	1	2	7	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr1:244735822T>A	uc001iam.2	+	11	1757	c.1698T>A	c.(1696-1698)TAT>TAA	p.Y566*	C1orf101_uc001iak.1_Nonsense_Mutation_p.Y120*|C1orf101_uc001ial.2_Nonsense_Mutation_p.Y566*|C1orf101_uc010pym.1_Nonsense_Mutation_p.Y415*|C1orf101_uc010pyn.1_Nonsense_Mutation_p.Y499*	NM_001130957	NP_001124429	Q5SY80	CA101_HUMAN	hypothetical protein LOC257044 isoform 1	566	Extracellular (Potential).					integral to membrane				ovary(1)|breast(1)	2	all_cancers(71;2.99e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)		all cancers(7;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.001)|GBM - Glioblastoma multiforme(7;0.0154)			TACAGGACTATCCCTTACATC	0.353													18	69					0	0	0.010504	0	0		A	244735822	A	A	244735822	4	1	124	1	0	0	0	0	0	1	0	0	1979	1442	50	5	1740	5	C1orf101	1	244735822	Nonsense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	16331045	244735822	4514799	16	68787											
NCOA1	8648	broad.mit.edu	37	chr2	24964989	24964989	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggcatgacaggaaacataGgaggacagtttggcactgga	14	6	15	6	0	0	1	0	1	0	0	0	6	0	5	0	6	1	3	0	6	2	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:24964989G>C	uc002rfk.2	+	17	3898	c.3640G>C	c.(3640-3642)GGA>CGA	p.G1214R	NCOA1_uc010eye.2_Missense_Mutation_p.G1214R|NCOA1_uc002rfi.2_Missense_Mutation_p.G1063R|NCOA1_uc002rfj.2_Missense_Mutation_p.G1214R|NCOA1_uc002rfl.2_Missense_Mutation_p.G1214R|NCOA1_uc010eyf.2_Missense_Mutation_p.G107R	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	1214									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGGAAACATAGGAGGACAGTT	0.483			T	PAX3	alveolar rhadomyosarcoma								9	119					0	0	0.008291	0	0		C	24964989	C	C	24964989	3	2	124	1	0	0	0	0	1	0	0	0	10247	1001	35	5	3698	5	NCOA1	2	24964989	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08		24964989	218234384	17	68788											
RAB10	10890	broad.mit.edu	37	chr2	26350778	26350778	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaaaagcaaatataaacatCgaaaaggcgttcctcacgtt	17	8	7	9	3	1	0	1	0	0	0	3	1	2	0	1	1	2	4	1	1	8	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:26350778C>T	uc002rgv.2	+	5	1226	c.477C>T	c.(475-477)ATC>ATT	p.I159I		NM_016131	NP_057215	P61026	RAB10_HUMAN	ras-related GTP-binding protein RAB10	159					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATATAAACATCGAAAAGGCGT	0.348													40	231					0	0	0.033182	0	0		T	26350778	T	T	26350778	2	4	124	1	0	0	0	0	0	0	0	1	12915	874	31	1		1	RAB10	2	26350778	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08	1385789	26350778	216848595	18	68789											
OTOF	9381	broad.mit.edu	37	chr2	26695389	26695389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccccacccgccttaccgCgtccagcttcaccatggtct	6	9	7	19	3	2	1	1	1	1	0	3	1	3	1	7	1	2	1	7	1	1	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:26695389C>T	uc002rhk.2	-	30	3989	c.3862G>A	c.(3862-3864)GCG>ACG	p.A1288T	OTOF_uc010yla.1_Missense_Mutation_p.A18T|OTOF_uc002rhh.2_Missense_Mutation_p.A521T|OTOF_uc002rhi.2_Missense_Mutation_p.A598T|OTOF_uc002rhj.2_Missense_Mutation_p.A521T	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1288	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGCCTTACCGCGTCCAGCTTC	0.582													31	69					0	0	0.033182	0	0		T	26695389	T	T	26695389	3	4	124	1	0	0	0	0	1	0	0	0	11322	768	27	1	2384	1	OTOF	2	26695389	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	344611	26695389	216503984	19	68790											
EHD3	30845	broad.mit.edu	37	chr2	31483732	31483732	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacatccagagtctgcccCgaaatgctgccctgcgcaag	9	6	12	14	2	1	1	0	0	1	1	2	3	2	2	4	1	4	2	4	1	2	0	rs143059948		TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:31483732C>T	uc002rnu.2	+	4	1467	c.859C>T	c.(859-861)CGA>TGA	p.R287*	EHD3_uc010ymt.1_Intron	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	287					blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding	p.R287*(1)		skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					GAGTCTGCCCCGAAATGCTGC	0.627													5	187					0	0	0.014758	0	0		T	31483732	T	T	31483732	4	4	124	1	0	0	0	0	0	1	0	0	4985	644	23	1	873	1	EHD3	2	31483732	Nonsense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	4788343	31483732	211715641	20	68791											
ALMS1	7840	broad.mit.edu	37	chr2	73680445	73680445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcttaaggaaattcggaCacttttgatggaggcagaaa	15	10	10	6	1	1	2	0	1	1	1	2	5	1	5	0	4	1	1	0	4	4	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:73680445C>T	uc002sje.1	+	10	6905	c.6794C>T	c.(6793-6795)ACA>ATA	p.T2265I	ALMS1_uc002sjf.1_Missense_Mutation_p.T2221I|ALMS1_uc002sjg.2_Missense_Mutation_p.T1651I|ALMS1_uc002sjh.1_Missense_Mutation_p.T1651I	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2263					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GAAATTCGGACACTTTTGATG	0.373													8	150					0	0	0.004482	0	0		T	73680445	T	T	73680445	3	4	124	1	0	0	0	0	1	0	0	0	535	478	17	4	6818	4	ALMS1	2	73680445	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	42196713	73680445	169518928	21	68792											
PTPN18	26469	broad.mit.edu	37	chr2	131128152	131128152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggttgtgggcgaacaggcGtcctgtgcaccgtggattat	6	10	16	9	4	0	0	0	0	0	0	1	2	1	1	2	4	2	2	2	4	2	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:131128152G>A	uc002trc.2	+	9	813	c.712G>A	c.(712-714)GTC>ATC	p.V238I	PTPN18_uc002trd.2_Missense_Mutation_p.V217I|PTPN18_uc002trb.2_Missense_Mutation_p.V131I|PTPN18_uc002tre.2_5'Flank	NM_014369	NP_055184	Q99952	PTN18_HUMAN	protein tyrosine phosphatase, non-receptor type	238	Tyrosine-protein phosphatase.					cytoplasm|nucleus	non-membrane spanning protein tyrosine phosphatase activity			ovary(3)|kidney(1)	4	Colorectal(110;0.1)					GCGAACAGGCGTCCTGTGCAC	0.582													11	134					0	0	0.010729	0	0		A	131128152	A	A	131128152	3	1	124	1	0	0	0	0	1	0	0	0	12807	1145	40	1	746	1	PTPN18	2	131128152	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	57447707	131128152	112071221	22	68793											
PLEKHB2	55041	broad.mit.edu	37	chr2	131904309	131904309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctggcaggagcagccaCgggcatggccttagggtctc	7	7	15	12	1	1	0	0	0	1	0	2	1	1	1	2	5	3	4	2	5	1	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:131904309C>T	uc002tsg.3	+	8	1192	c.632C>T	c.(631-633)ACG>ATG	p.T211M	PLEKHB2_uc002tsh.2_Intron|PLEKHB2_uc002tsj.3_Missense_Mutation_p.T210M|PLEKHB2_uc002tsf.3_Missense_Mutation_p.T219M|PLEKHB2_uc010zao.1_Missense_Mutation_p.T161M|PLEKHB2_uc010zap.1_Missense_Mutation_p.R175W|PLEKHB2_uc010zaq.1_Missense_Mutation_p.R167W|PLEKHB2_uc002tsi.3_Missense_Mutation_p.T252M	NM_001100623	NP_001094093	Q96CS7	PKHB2_HUMAN	pleckstrin homology domain containing, family B	211						membrane	protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.0828)		GGAGCAGCCACGGGCATGGCC	0.522													59	216					0	0	0.01441	0	0		T	131904309	T	T	131904309	3	4	124	1	0	0	0	0	1	0	0	0	12084	536	19	1	658	1	PLEKHB2	2	131904309	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	776157	131904309	111295064	23	68794											
NR4A2	4929	broad.mit.edu	37	chr2	157185018	157185018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttatttgctaaacacaCgtattttgcatttttttgca	9	21	5	6	1	0	0	0	0	0	0	0	0	0	0	0	0	4	5	0	0	4	11			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:157185018C>T	uc002tyz.3	-	4	1314	c.892G>A	c.(892-894)GTG>ATG	p.V298M	NR4A2_uc002tyx.3_Missense_Mutation_p.V235M|NR4A2_uc010zcf.1_Missense_Mutation_p.V298M|NR4A2_uc010zcg.1_5'Flank	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	298	Nuclear receptor.				cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						GCTAAACACACGTATTTTGCA	0.423													9	107					0	0	0.004482	0	0		T	157185018	T	T	157185018	3	4	124	1	0	0	0	0	1	0	0	0	10652	536	19	1	924	1	NR4A2	2	157185018	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	25280709	157185018	86014355	24	68795											
TTN	7273	broad.mit.edu	37	chr2	179440876	179440876	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcaacatctggaatcaccGctggctccccaacacctgca	10	9	6	16	1	3	0	2	0	1	0	4	1	4	1	4	2	3	3	4	2	3	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:179440876G>T	uc010zfg.1	-	275	62503	c.62279C>A	c.(62278-62280)GCG>GAG	p.A20760E	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A14455E|TTN_uc010zfi.1_Missense_Mutation_p.A14388E|TTN_uc010zfj.1_Missense_Mutation_p.A14263E|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21687							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGAATCACCGCTGGCTCCCC	0.463													4	102					2.56e-06	2.79612e-06	0.009096	1	0		T	179440876	T	T	179440876	3	4	124	1	0	0	0	0	1	0	0	0	16761	1087	38	5	38144	5	TTN	2	179440876	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	22255858	179440876	63758497	25	68796											
ALS2CR12	130540	broad.mit.edu	37	chr2	202154418	202154418	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccactccagtagggactcaCctctttctggagttccaact	8	11	7	15	0	3	0	1	0	2	0	5	2	5	2	4	2	1	2	4	2	2	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:202154418C>T	uc010ftg.2	-	13	1545	c.1101_splice	c.e13+1	p.E367_splice	ALS2CR12_uc002uya.3_Splice_Site_p.E344_splice|ALS2CR12_uc010fth.2_Splice_Site	NM_139163	NP_631902	Q96Q35	AL2SB_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)						regulation of GTPase activity		protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						TAGGGACTCACCTCTTTCTGG	0.527													8	177					0	0	0.004482	0	0		T	202154418	T	T	202154418	5	4	124	1	0	0	0	0	0	0	1	0	553	521	18	4	247	4	ALS2CR12	2	202154418	Splice_Site	SNP	C	TCGA-CG-4300-01A-01D-1158-08	22713542	202154418	41044955	26	68797											
FN1	2335	broad.mit.edu	37	chr2	216232683	216232683	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgttcccactcatctccaacGgcataatgggaaactgtgta	11	10	8	12	2	2	0	1	0	1	0	4	1	3	1	2	2	2	3	2	2	4	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:216232683G>A	uc002vfa.2	-	42	7187	c.6921C>T	c.(6919-6921)GCC>GCT	p.A2307A	FN1_uc002vfb.2_Silent_p.A2095A|FN1_uc002vfc.2_Silent_p.A2070A|FN1_uc002vfd.2_Silent_p.A2251A|FN1_uc002vfe.2_Silent_p.A2185A|FN1_uc002vff.2_Silent_p.A2160A|FN1_uc002vfg.2_Silent_p.A2126A|FN1_uc002vfh.2_Silent_p.A2006A|FN1_uc002vfi.2_Silent_p.A2276A|FN1_uc002vfj.2_Silent_p.A2097A|FN1_uc002vez.2_Silent_p.A470A|FN1_uc010zjp.1_Silent_p.A844A|FN1_uc002vfk.1_Intron|FN1_uc010fva.1_RNA|FN1_uc010fvb.1_RNA	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	2216	Fibronectin type-I 10.|Fibrin-binding 2.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CATCTCCAACGGCATAATGGG	0.438													7	101					0	0	0.02938	0	0		A	216232683	A	A	216232683	2	1	124	1	0	0	0	0	0	0	0	1	5976	1103	39	1		1	FN1	2	216232683	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	14078265	216232683	26966690	27	68798											
ATG9A	79065	broad.mit.edu	37	chr2	220091655	220091655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctggtgcagattataaaCgtgtaattgttaagaaaaag	15	13	9	4	1	1	2	0	0	1	2	1	2	1	2	0	1	2	3	0	1	7	6			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:220091655C>T	uc002vke.1	-	5	334	c.148G>A	c.(148-150)GTT>ATT	p.V50I	ATG9A_uc002vkd.1_RNA|ATG9A_uc002vkf.1_Missense_Mutation_p.V50I|ANKZF1_uc010zkv.1_5'Flank|ANKZF1_uc010zkw.1_5'Flank|ANKZF1_uc002vkg.2_5'Flank|ANKZF1_uc002vkh.2_5'Flank|ANKZF1_uc002vki.2_5'Flank	NM_001077198	NP_001070666	Q7Z3C6	ATG9A_HUMAN	APG9 autophagy 9-like 1	50	Cytoplasmic (By similarity).				autophagic vacuole assembly|protein transport	autophagic vacuole membrane|cytoplasmic vesicle|Golgi apparatus|integral to membrane|late endosome membrane				skin(1)	1		Renal(207;0.0474)		Epithelial(149;1.37e-06)|all cancers(144;0.000222)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGATTATAAACGTGTAATTGT	0.239													14	64					0	0	0.028581	0	0		T	220091655	T	T	220091655	3	4	124	1	0	0	0	0	1	0	0	0	1103	550	19	1	2419	1	ATG9A	2	220091655	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	3858972	220091655	23107718	28	68799											
KIAA1486	57624	broad.mit.edu	37	chr2	226447571	226447571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactcgacccccagacccGtgtcgcaagatggggccaag	9	5	11	16	3	1	2	1	0	0	2	3	3	1	2	4	2	0	1	4	2	2	0			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr2:226447571G>A	uc002voe.2	+	4	1613	c.1438G>A	c.(1438-1440)GTG>ATG	p.V480M	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.V250M	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	480										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		CCCCAGACCCGTGTCGCAAGA	0.667													11	54					0	0	0.008291	0	0		A	226447571	A	A	226447571	3	1	124	1	0	0	0	0	1	0	0	0	8253	1145	40	1	1448	1	KIAA1486	2	226447571	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	6355916	226447571	16751802	29	68800											
SCN11A	11280	broad.mit.edu	37	chr3	38888949	38888949	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacagagcatgctgctggCaaaagtcttgaagttgaata	14	9	12	6	0	1	4	0	2	1	2	1	5	1	4	0	1	3	5	0	1	5	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr3:38888949C>A	uc011ays.1	-	26	4811	c.4612G>T	c.(4612-4614)GCC>TCC	p.A1538S		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1538	IV.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	ATGCTGCTGGCAAAAGTCTTG	0.438													19	43					5.35267e-07	5.87488e-07	0.043863	1	0		A	38888949	A	A	38888949	3	1	124	1	0	0	0	0	1	0	0	0	13938	710	25	5	767	5	SCN11A	3	38888949	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08		38888949	159133481	30	68801											
ERC2	26059	broad.mit.edu	37	chr3	56114990	56114990	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagattctttttcttccAgtcgtaatctcagcgcatct	9	15	7	10	2	4	1	1	0	4	1	7	2	5	2	1	1	1	2	1	1	2	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr3:56114990A>C	uc003dhr.1	-	7	1752	c.1496T>G	c.(1495-1497)CTG>CGG	p.L499R	ERC2_uc003dht.1_5'UTR	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	499	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		TTTTTCTTCCAGTCGTAATCT	0.413													3	39					0	0	0.014758	0	0		C	56114990	C	C	56114990	3	2	124	1	0	0	0	0	1	0	0	0	5219	188	7	5	1411	5	ERC2	3	56114990	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	17226041	56114990	141907440	31	68802											
B4GALT4	8702	broad.mit.edu	37	chr3	118948741	118948741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaagttctaccttcttcGtggatgcttcattagtcaga	8	16	8	9	1	5	1	3	0	2	1	6	2	5	2	1	1	2	2	1	1	3	6			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr3:118948741G>A	uc003ecg.2	-	3	847	c.206C>T	c.(205-207)ACG>ATG	p.T69M	B4GALT4_uc003ece.1_Missense_Mutation_p.T69M|B4GALT4_uc003ecf.2_RNA|B4GALT4_uc003ech.2_Missense_Mutation_p.T69M|B4GALT4_uc003eci.2_Missense_Mutation_p.T69M|B4GALT4_uc011biy.1_Intron	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	69	Lumenal (Potential).				membrane lipid metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding|N-acetyllactosamine synthase activity				0				GBM - Glioblastoma multiforme(114;0.222)	N-Acetyl-D-glucosamine(DB00141)	TACCTTCTTCGTGGATGCTTC	0.393													45	82					0	0	0.01441	0	0		A	118948741	A	A	118948741	3	1	124	1	0	0	0	0	1	0	0	0	1274	1145	40	1	852	1	B4GALT4	3	118948741	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	62833751	118948741	79073689	32	68803											
ARGFX	503582	broad.mit.edu	37	chr3	121305435	121305435	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctccaatatggtagacttGggatttctctgaccagagta	11	12	9	9	0	1	3	0	1	1	2	3	4	2	4	3	2	0	2	3	2	4	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr3:121305435G>T	uc003eef.2	+	5	1031	c.936G>T	c.(934-936)TTG>TTT	p.L312F		NM_001012659	NP_001012677	A6NJG6	ARGFX_HUMAN	arginine-fifty homeobox	312						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(114;0.152)		TGGTAGACTTGGGATTTCTCT	0.398													5	83					0.000602214	0.000633169	0.014758	1	0		T	121305435	T	T	121305435	3	4	124	1	0	0	0	0	1	0	0	0	859	1339	47	5	950	5	ARGFX	3	121305435	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	2356694	121305435	76716995	33	68804											
ALDH1L1	10840	broad.mit.edu	37	chr3	125854391	125854391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcccacctgtacatcagccGgccccggtcccgcgcactga	6	6	9	20	4	1	1	1	1	0	0	3	1	3	1	6	2	2	2	6	2	1	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr3:125854391G>A	uc003eim.1	-	12	1649	c.1459C>T	c.(1459-1461)CGG>TGG	p.R487W	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Missense_Mutation_p.R386W|ALDH1L1_uc003eio.2_Missense_Mutation_p.R189W|ALDH1L1_uc010hsf.1_Missense_Mutation_p.R513W	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	487	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	TACATCAGCCGGCCCCGGTCC	0.632													9	38					0	0	0.006214	0	0		A	125854391	A	A	125854391	3	1	124	1	0	0	0	0	1	0	0	0	494	1115	39	1	1297	1	ALDH1L1	3	125854391	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	4548956	125854391	72168039	34	68805											
CCDC37	348807	broad.mit.edu	37	chr3	126139048	126139048	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaggcagccagcccagcgAgtccagcggtggcgactcca	9	3	14	15	3	0	0	0	0	0	0	2	2	2	0	4	3	4	2	4	3	1	0			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr3:126139048A>G	uc003eiu.1	+	11	1157	c.1058A>G	c.(1057-1059)GAG>GGG	p.E353G	CCDC37_uc010hsg.1_Missense_Mutation_p.E354G	NM_182628	NP_872434	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37	353										ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.166)		CAGCCCAGCGAGTCCAGCGGT	0.667													9	26					0	0	0.020292	0	0		G	126139048	G	G	126139048	3	3	124	1	0	0	0	0	1	0	0	0	2812	304	11	3	1096	3	CCDC37	3	126139048	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	284657	126139048	71883382	35	68806											
CP	1356	broad.mit.edu	37	chr3	148927978	148927978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacagattattaaaggtcCgatgagtcctgaggcaatat	13	13	9	6	1	0	3	0	2	0	1	2	4	2	3	2	2	1	1	2	2	6	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr3:148927978C>T	uc003ewy.3	-	3	836	c.583G>A	c.(583-585)GGA>AGA	p.G195R	CP_uc011bnr.1_RNA|CP_uc003ewx.3_5'Flank|CP_uc003ewz.2_Missense_Mutation_p.G195R|CP_uc010hvf.1_5'Flank	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	195	F5/8 type A 1.|Plastocyanin-like 1.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	ATTAAAGGTCCGATGAGTCCT	0.408													17	245					0	0	0.043863	0	0		T	148927978	T	T	148927978	3	4	124	1	0	0	0	0	1	0	0	0	3790	661	23	1	2682	1	CP	3	148927978	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	22788930	148927978	49094452	36	68807											
SERPINI2	5276	broad.mit.edu	37	chr3	167183334	167183334	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaccatttttcttagtaaaAtttatcagctgtgtgtcctc	10	17	6	8	0	2	0	1	0	1	0	4	1	3	0	2	0	2	2	2	0	5	6			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr3:167183334A>C	uc003fer.1	-	3	664	c.606T>G	c.(604-606)AAT>AAG	p.N202K	SERPINI2_uc003fes.1_Missense_Mutation_p.N212K|SERPINI2_uc003fet.1_Missense_Mutation_p.N202K	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),	202					cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						TCTTAGTAAAATTTATCAGCT	0.368													28	81					0	0	0.030593	0	0		C	167183334	C	C	167183334	3	2	124	1	0	0	0	0	1	0	0	0	14144	98	4	5	635	5	SERPINI2	3	167183334	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	18255356	167183334	30839096	37	68808											
TNFSF10	8743	broad.mit.edu	37	chr3	172241149	172241149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggtctgtcccaggctgggtCccccctggacctccatcata	6	9	10	16	0	2	0	1	0	1	0	5	1	5	1	6	4	0	1	6	4	1	1	rs138912628		TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr3:172241149C>T	uc003fid.2	-	1	121	c.26G>A	c.(25-27)GGA>GAA	p.G9E	TNFSF10_uc003fie.2_Missense_Mutation_p.G9E|TNFSF10_uc010hwu.1_RNA	NM_003810	NP_003801	P50591	TNF10_HUMAN	tumor necrosis factor (ligand) superfamily,	9	Cytoplasmic (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of apoptosis by extracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane|soluble fraction	cytokine activity|metal ion binding|tumor necrosis factor receptor binding			skin(4)|lung(1)	5	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.67e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			CAGGCTGGGTCCCCCCTGGAC	0.537													12	135					0	0	0.013537	0	0		T	172241149	T	T	172241149	3	4	124	1	0	0	0	0	1	0	0	0	16326	855	30	4	839	4	TNFSF10	3	172241149	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	5057815	172241149	25781281	38	68809											
CHRNA9	55584	broad.mit.edu	37	chr4	40356537	40356537	+	Nonstop_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatagcaagagcggattaGtcacagatattggctttgct	12	12	10	7	1	2	2	2	0	0	2	2	3	2	3	0	2	3	3	0	2	4	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr4:40356537G>T	uc003gva.1	+	5	1456	c.1440G>T	c.(1438-1440)TAG>TAT	p.*480Y		NM_017581	NP_060051	Q9UGM1	ACHA9_HUMAN	cholinergic receptor, nicotinic, alpha 9	480					elevation of cytosolic calcium ion concentration|synaptic transmission	cell junction|postsynaptic membrane	calcium channel activity|receptor activity			breast(3)|skin(3)|central_nervous_system(1)	7					Nicotine(DB00184)	GAGCGGATTAGTCACAGATAT	0.358													85	140					4.9328e-52	5.81089e-52	0.01441	1	0		T	40356537	T	T	40356537	4	4	124	1	0	0	0	0	0	0	0	0	3392	1024	36	5	1458	5	CHRNA9	4	40356537	Nonstop_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08		40356537	150797739	39	68810											
BANK1	55024	broad.mit.edu	37	chr4	102783799	102783799	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagccctttggaataagaaAgtctggtgcatgaaagcttt	12	11	10	8	0	1	2	0	1	1	1	1	3	1	3	2	2	3	2	2	2	4	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr4:102783799A>C	uc003hvy.3	+	4	1015	c.741A>C	c.(739-741)AAA>AAC	p.K247N	BANK1_uc003hvx.3_Missense_Mutation_p.K232N|BANK1_uc010ill.2_Missense_Mutation_p.K114N|BANK1_uc003hvz.3_Missense_Mutation_p.K217N	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	247	DBB.				B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		GGAATAAGAAAGTCTGGTGCA	0.323													8	58					0	0	0.038147	0	0		C	102783799	C	C	102783799	3	2	124	1	0	0	0	0	1	0	0	0	1310	69	3	5	755	5	BANK1	4	102783799	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	62427262	102783799	88370477	40	68811											
WDR17	116966	broad.mit.edu	37	chr4	177084327	177084327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctatggcatacctgattcGcggaaatgaactggagttgg	10	11	13	7	2	0	2	0	2	0	0	1	4	0	4	1	4	3	3	1	4	4	4	rs144009080		TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr4:177084327G>A	uc003iuj.2	+	23	3101	c.2945G>A	c.(2944-2946)CGC>CAC	p.R982H	WDR17_uc003iuk.2_Missense_Mutation_p.R958H|WDR17_uc003ium.3_Missense_Mutation_p.R958H|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.R201H	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	982										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TACCTGATTCGCGGAAATGAA	0.468													60	81					0	0	0.01441	0	0		A	177084327	A	A	177084327	3	1	124	1	0	0	0	0	1	0	0	0	17303	1087	38	1	3031	1	WDR17	4	177084327	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	74300528	177084327	14069949	41	68812											
IRX1	79192	broad.mit.edu	37	chr5	3600751	3600752	+	Missense_Mutation	DNP	GC	TT	TT																															ctcgtccccaggccagattcGccggcacagcagttaaagtc																										TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:3600751_3600752GC>TT	uc003jde.2	+	3	1393_1394	c.1341_1342GC>TT	c.(1339-1344)TCGCCG>TCTTCG	p.P448S		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	448						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GGCCAGATTCGCCGGCACAGCA	0.624													5	111					0	0	0.004672	0	0		TT	3600752	TT	TT	3600751	3	4	124	1	0	0	0	0	1	0	0	0	7859	1074	38	5	1351	5	IRX1	5	3600751	Missense_Mutation	DNP	GC	TCGA-CG-4300-01A-01D-1158-08		3600751	177314509	42	68813											
NSUN2	54888	broad.mit.edu	37	chr5	6616908	6616908	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtttagtgaacacgtggaaTacaccatccttccaccttca	11	11	7	12	1	1	1	1	1	0	0	3	2	3	2	4	2	2	1	4	2	4	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:6616908T>C	uc003jdu.2	-	9	1018	c.953A>G	c.(952-954)TAT>TGT	p.Y318C	NSUN2_uc003jdt.2_Missense_Mutation_p.Y82C|NSUN2_uc011cmk.1_Missense_Mutation_p.Y283C|NSUN2_uc003jdv.2_Missense_Mutation_p.Y82C	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	318						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						ACACGTGGAATACACCATCCT	0.458													10	114					0	0	0.006214	0	0		C	6616908	C	C	6616908	3	2	124	1	0	0	0	0	1	0	0	0	10697	1406	49	3	1394	3	NSUN2	5	6616908	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	3016157	6616908	174298352	43	68814											
TRIO	7204	broad.mit.edu	37	chr5	14368883	14368883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctacaggccaaccactacGacatggacatgatccgggac	12	6	10	13	2	0	1	0	1	0	0	1	4	1	3	3	3	4	1	3	3	3	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:14368883G>A	uc003jff.2	+	17	2947	c.2941G>A	c.(2941-2943)GAC>AAC	p.D981N	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.D932N|TRIO_uc003jfh.1_Missense_Mutation_p.D630N	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	981	Spectrin 3.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					CAACCACTACGACATGGACAT	0.542													7	119					0	0	0.038147	0	0		A	14368883	A	A	14368883	3	1	124	1	0	0	0	0	1	0	0	0	16578	1058	37	1	3007	1	TRIO	5	14368883	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	7751975	14368883	166546377	44	68815											
COL4A3BP	10087	broad.mit.edu	37	chr5	74721289	74721289	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatgtctctaaatgtttcCatttcagccaacttctcacg	11	14	5	11	1	3	1	2	0	2	1	6	1	4	1	2	0	2	1	2	0	4	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:74721289C>A	uc011csu.1	-	5	914	c.492G>T	c.(490-492)ATG>ATT	p.M164I	COL4A3BP_uc003kds.2_Missense_Mutation_p.M164I|COL4A3BP_uc003kdt.2_Missense_Mutation_p.M292I|COL4A3BP_uc003kdu.2_Missense_Mutation_p.M164I	NM_005713	NP_005704	Q9Y5P4	C43BP_HUMAN	alpha 3 type IV collagen binding protein isoform	164					ER to Golgi ceramide transport|immune response	cytosol|endoplasmic reticulum membrane|Golgi apparatus	ceramide binding|phosphatidylinositol-4-phosphate binding|protein binding|protein kinase activity			skin(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;1e-53)		TAAATGTTTCCATTTCAGCCA	0.388													11	168					0.000978159	0.00102365	0.010729	1	0		A	74721289	A	A	74721289	3	1	124	1	0	0	0	0	1	0	0	0	3695	594	21	5	1434	5	COL4A3BP	5	74721289	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	60352406	74721289	106193971	45	68816											
ATP6AP1L	92270	broad.mit.edu	37	chr5	81605974	81605974	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcgttgtttccttttcttAggttgtctttgaagcttggt	3	21	10	7	1	2	1	0	1	2	0	3	1	3	1	1	2	2	4	1	2	2	8			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:81605974A>G	uc003khv.2	+	8	1406	c.81_splice	c.e8-2	p.W27_splice	ATP6AP1L_uc003khw.2_Splice_Site_p.W27_splice	NM_001017971	NP_001017971	Q52LC2	VAS1L_HUMAN	ATPase, H+ transporting, lysosomal accessory						ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						TCCTTTTCTTAGGTTGTCTTT	0.333													3	110					0	0	0.004672	0	0		G	81605974	G	G	81605974	5	3	124	1	0	0	0	0	0	0	1	0	1167	434	15	3	85	3	ATP6AP1L	5	81605974	Splice_Site	SNP	A	TCGA-CG-4300-01A-01D-1158-08	6884685	81605974	99309286	46	68817											
SLCO4C1	353189	broad.mit.edu	37	chr5	101583042	101583042	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaaggaatatgggcagtttCgcacaatgagtttcacattt	13	12	9	7	1	1	1	1	1	0	0	2	2	1	2	0	2	0	4	0	2	4	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:101583042C>T	uc003knm.2	-	10	2012	c.1725G>A	c.(1723-1725)GCG>GCA	p.A575A		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	575	Extracellular (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		TGGGCAGTTTCGCACAATGAG	0.353													48	159					0	0	0.01441	0	0		T	101583042	T	T	101583042	2	4	124	1	0	0	0	0	0	0	0	1	14755	871	31	1		1	SLCO4C1	5	101583042	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08	19977068	101583042	79332218	47	68818											
TSLP	85480	broad.mit.edu	37	chr5	110409342	110409342	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggctattcggaaactcAggtaagcccgaagcctcaga	12	6	10	13	2	2	1	2	0	0	1	3	3	2	2	3	3	3	2	3	3	4	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:110409342A>G	uc003kpb.2	+	3	549	c.350A>G	c.(349-351)CAG>CGG	p.Q117R	TSLP_uc003kpa.2_RNA|TSLP_uc010jbt.1_Missense_Mutation_p.Q21R	NM_033035	NP_149024	Q969D9	TSLP_HUMAN	thymic stromal lymphopoietin isoform 1	117						extracellular space	cytokine activity				0		all_cancers(142;2.72e-05)|all_epithelial(76;4.39e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0417)|Ovarian(225;0.0443)|Colorectal(57;0.0464)|all_lung(232;0.0507)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.24e-08)|Epithelial(69;1.54e-07)|all cancers(49;1.73e-05)|COAD - Colon adenocarcinoma(37;0.109)		TCGGAAACTCAGGTAAGCCCG	0.498													11	157					0	0	0.013537	0	0		G	110409342	G	G	110409342	3	3	124	1	0	0	0	0	1	0	0	0	16654	202	7	3	360	3	TSLP	5	110409342	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	8826300	110409342	70505918	48	68819											
NME5	8382	broad.mit.edu	37	chr5	137454573	137454573	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagagttggcattatatgTaaatttaaatagtccttagc	14	14	8	5	0	0	1	0	0	0	1	1	1	1	1	1	1	2	4	1	1	8	8			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:137454573T>C	uc003lce.2	-	5	567	c.489A>G	c.(487-489)TTA>TTG	p.L163L	BRD8_uc003lcc.1_Intron	NM_003551	NP_003542	P56597	NDK5_HUMAN	non-metastatic cells 5, protein expressed in	163					anti-apoptosis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatid development|UTP biosynthetic process		ATP binding|nucleoside diphosphate kinase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GCATTATATGTAAATTTAAAT	0.323													9	71					0	0	0.004482	0	0		C	137454573	C	C	137454573	2	2	124	1	0	0	0	0	0	0	0	1	10513	1635	57	3		3	NME5	5	137454573	Silent	SNP	T	TCGA-CG-4300-01A-01D-1158-08	27045231	137454573	43460687	49	68820											
FAM53C	51307	broad.mit.edu	37	chr5	137680803	137680803	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cccgccccctccaagctgtgGactcccataaagcaccgggg	8	5	10	18	2	0	0	0	0	0	0	2	1	2	1	6	3	2	2	6	3	3	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:137680803G>C	uc003lcv.2	+	4	896	c.426G>C	c.(424-426)TGG>TGC	p.W142C	FAM53C_uc003lcw.2_Missense_Mutation_p.W142C|FAM53C_uc011cyq.1_Intron|FAM53C_uc011cyr.1_Intron	NM_001135647	NP_001129119	Q9NYF3	FA53C_HUMAN	hypothetical protein LOC51307	142										ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CCAAGCTGTGGACTCCCATAA	0.692													16	142					0	0	0.043863	0	0		C	137680803	C	C	137680803	3	2	124	1	0	0	0	0	1	0	0	0	5595	1183	41	5	436	5	FAM53C	5	137680803	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	226230	137680803	43234457	50	68821											
HSPA9	3313	broad.mit.edu	37	chr5	137902355	137902355	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacatttagccttttcagcaGcttcccgtaccctctgaagt	8	13	6	14	1	2	1	1	1	1	0	3	1	3	1	3	0	4	3	3	0	3	6			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:137902355G>C	uc003ldf.2	-	9	1040	c.932C>G	c.(931-933)GCT>GGT	p.A311G	HSPA9_uc011cyw.1_Missense_Mutation_p.A242G	NM_004134	NP_004125	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 precursor	311					anti-apoptosis|protein folding	cell surface|mitochondrial nucleoid	ATP binding|unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CTTTTCAGCAGCTTCCCGTAC	0.433													15	227					0	0	0.0333	0	0		C	137902355	C	C	137902355	3	2	124	1	0	0	0	0	1	0	0	0	7433	971	34	5	1143	5	HSPA9	5	137902355	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	221552	137902355	43012905	51	68822											
PCDHB12	56124	broad.mit.edu	37	chr5	140590450	140590450	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcgctcggccaccgccacGctgcacgtgctcctggtgga	4	6	13	18	6	0	0	0	0	0	0	2	1	1	1	5	3	2	4	5	3	0	0			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:140590450G>A	uc003liz.2	+	1	2160	c.1971G>A	c.(1969-1971)ACG>ACA	p.T657T	PCDHB12_uc011dak.1_Silent_p.T320T	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	657	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCACCGCCACGCTGCACGTGC	0.721													7	74					0	0	0.038147	0	0		A	140590450	A	A	140590450	2	1	124	1	0	0	0	0	0	0	0	1	11556	1074	38	1		1	PCDHB12	5	140590450	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	2688095	140590450	40324810	52	68823											
PCDHB13	56123	broad.mit.edu	37	chr5	140595078	140595078	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctacaccctgttcgtccgCgagaacaacagccccgccct	8	7	7	19	4	0	1	0	0	0	1	3	2	2	1	6	0	4	1	6	0	3	2	rs138445636		TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:140595078C>T	uc003lja.1	+	1	1570	c.1383C>T	c.(1381-1383)CGC>CGT	p.R461R		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	461	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGTTCGTCCGCGAGAACAACA	0.607													58	124					0	0	0.01441	0	0		T	140595078	T	T	140595078	2	4	124	1	0	0	0	0	0	0	0	1	11557	755	27	1		1	PCDHB13	5	140595078	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08	4628	140595078	40320182	53	68824											
PCDHB13	56123	broad.mit.edu	37	chr5	140596015	140596015	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagccgattatccccaacTtccctccccagtgccctggg	7	9	8	17	1	0	1	0	1	0	0	3	2	3	1	7	1	3	0	7	1	3	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:140596015T>G	uc003lja.1	+	1	2507	c.2320T>G	c.(2320-2322)TTC>GTC	p.F774V		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	774	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TATCCCCAACTTCCCTCCCCA	0.488													6	142					0	0	0.02938	0	0		G	140596015	G	G	140596015	3	3	124	1	0	0	0	0	1	0	0	0	11557	1609	56	5	2322	5	PCDHB13	5	140596015	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	937	140596015	40319245	54	68825											
GABRG2	2566	broad.mit.edu	37	chr5	161530999	161530999	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattctcatttgttggtctaAgaaataccaccgaagtagtg	13	13	8	7	1	2	1	1	0	2	1	3	2	2	1	2	1	1	2	2	1	6	6			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr5:161530999A>C	uc003lyz.3	+	6	1094	c.736A>C	c.(736-738)AGA>CGA	p.R246R	GABRG2_uc010jjc.2_Silent_p.R286R|GABRG2_uc003lyy.3_Silent_p.R246R|GABRG2_uc011dej.1_Silent_p.R151R	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	246	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		TGTTGGTCTAAGAAATACCAC	0.393													9	86					0	0	0.004482	0	0		C	161530999	C	C	161530999	2	2	124	1	0	0	0	0	0	0	0	1	6186	64	3	5		5	GABRG2	5	161530999	Silent	SNP	A	TCGA-CG-4300-01A-01D-1158-08	20934984	161530999	19384261	55	68826											
C6orf201	404220	broad.mit.edu	37	chr6	4099426	4099426	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctccaatgtccaccatagTtgtcaggtagactctaattt	10	13	7	11	0	2	1	1	0	1	1	4	1	4	1	4	1	0	2	4	1	4	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr6:4099426T>A	uc003mwa.3	+	3	1046	c.278T>A	c.(277-279)GTT>GAT	p.V93D	C6orf201_uc003mvz.3_RNA|C6orf201_uc011dhw.1_Missense_Mutation_p.V93D|C6orf201_uc003mwb.3_RNA	NM_001085401	NP_001078870	Q7Z4U5	CF201_HUMAN	hypothetical protein LOC404220	93											0	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				TCCACCATAGTTGTCAGGTAG	0.393													13	80					0	0	0.016723	0	0		A	4099426	A	A	4099426	3	1	124	1	0	0	0	0	1	0	0	0	2354	1725	60	5	284	5	C6orf201	6	4099426	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08		4099426	167015641	56	68827											
ABT1	29777	broad.mit.edu	37	chr6	26598746	26598746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcacggccagggggacGtgaacgggctcgcctggcaa	9	3	17	12	4	0	1	0	1	0	0	1	2	0	2	2	5	3	4	2	5	2	0			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr6:26598746G>A	uc003nii.2	+	3	723	c.692G>A	c.(691-693)CGT>CAT	p.R231H		NM_013375	NP_037507	Q9ULW3	ABT1_HUMAN	activator of basal transcription 1	231					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleolus	DNA binding|nucleotide binding|protein binding|RNA binding|transcription coactivator activity			ovary(1)	1						CCAGGGGGACGTGAACGGGCT	0.657													7	70					0	0	0.02938	0	0		A	26598746	A	A	26598746	3	1	124	1	0	0	0	0	1	0	0	0	101	1145	40	1	702	1	ABT1	6	26598746	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	22499320	26598746	144516321	57	68828											
HIST1H1B	3009	broad.mit.edu	37	chr6	27834674	27834674	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcctttgcagctttaggttTtgctgctttgggcttagcgg	3	16	14	8	1	0	0	0	0	0	0	0	0	0	0	1	4	5	6	1	4	2	7			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr6:27834674T>A	uc003njx.2	-	1	686	c.634A>T	c.(634-636)AAA>TAA	p.K212*		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	212					nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						GCTTTAGGTTTTGCTGCTTTG	0.547													10	64					0	0	0.006214	0	0		A	27834674	A	A	27834674	4	1	124	1	0	0	0	0	0	1	0	0	7139	1850	64	5	50	5	HIST1H1B	6	27834674	Nonsense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	1235928	27834674	143280393	58	68829											
LAMA4	3910	broad.mit.edu	37	chr6	112462655	112462655	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagttcccaaattatagacGtataccagattatcattttt	13	17	4	7	1	1	2	1	0	0	2	2	2	2	2	2	0	1	2	2	0	7	9			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr6:112462655G>A	uc003pvu.2	-	21	3027	c.2718C>T	c.(2716-2718)TAC>TAT	p.Y906Y	LAMA4_uc003pvv.2_Silent_p.Y899Y|LAMA4_uc003pvt.2_Silent_p.Y899Y	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	906	Laminin G-like 1.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		AATTATAGACGTATACCAGAT	0.368													6	128					0	0	0.021553	0	0		A	112462655	A	A	112462655	2	1	124	1	0	0	0	0	0	0	0	1	8624	1140	40	1		1	LAMA4	6	112462655	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	84627981	112462655	58652412	59	68830											
REPS1	85021	broad.mit.edu	37	chr6	139251228	139251228	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctacctcacctggctgatcCccaacatctgcaatttaaaa	12	10	4	15	0	2	1	1	1	1	0	3	1	3	1	5	1	3	2	5	1	5	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr6:139251228C>T	uc003qii.2	-	9	1722	c.1143G>A	c.(1141-1143)GGG>GGA	p.G381G	REPS1_uc003qig.3_Silent_p.G381G|REPS1_uc011edr.1_Silent_p.G381G|REPS1_uc003qij.2_Silent_p.G381G|REPS1_uc003qik.2_Silent_p.G14G	NM_031922	NP_114128	Q96D71	REPS1_HUMAN	RALBP1 associated Eps domain containing 1	381						coated pit|plasma membrane	calcium ion binding|SH3 domain binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(68;0.000434)|OV - Ovarian serous cystadenocarcinoma(155;0.000548)		CTGGCTGATCCCCAACATCTG	0.398													17	84					0	0	0.0333	0	0		T	139251228	T	T	139251228	2	4	124	1	0	0	0	0	0	0	0	1	13253	610	22	4		4	REPS1	6	139251228	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08	26788573	139251228	31863839	60	68831											
HIVEP2	3097	broad.mit.edu	37	chr6	143093784	143093784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctacgctcttctctttccGgcgtttcctgttttcacagg	3	16	7	15	3	3	0	1	0	2	0	6	0	5	0	3	2	1	3	3	2	1	6			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr6:143093784G>A	uc003qjd.2	-	5	2835	c.2092C>T	c.(2092-2094)CGG>TGG	p.R698W		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	698					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		TTCTCTTTCCGGCGTTTCCTG	0.498													20	252					0	0	0.01892	0	0		A	143093784	A	A	143093784	3	1	124	1	0	0	0	0	1	0	0	0	7203	1115	39	1	5272	1	HIVEP2	6	143093784	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	3842556	143093784	28021283	61	68832											
THSD7A	221981	broad.mit.edu	37	chr7	11514005	11514005	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgactcgcacacagatgacTtttcttgtctgcatgccgac	8	13	8	12	2	2	3	0	2	2	1	3	4	2	3	1	0	2	2	1	0	0	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr7:11514005T>G	uc003ssf.3	-	8	2460	c.2208A>C	c.(2206-2208)AAA>AAC	p.K736N		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	736	TSP type-1 7.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		CACAGATGACTTTTCTTGTCT	0.512										HNSCC(18;0.044)			29	96					0	0	0.017118	0	0		G	11514005	G	G	11514005	3	3	124	1	0	0	0	0	1	0	0	0	15904	1606	56	5	2845	5	THSD7A	7	11514005	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08		11514005	147624658	62	68833											
SEMA3D	223117	broad.mit.edu	37	chr7	84628757	84628757	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttaaattaagtagaaaacTacgtggctacagctctaggg	14	11	9	7	1	1	1	0	0	1	1	1	1	1	1	0	2	4	3	0	2	9	7			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr7:84628757T>C	uc003uic.2	-	17	2373	c.2333A>G	c.(2332-2334)TAG>TGG	p.*778W	SEMA3D_uc010led.2_Nonstop_Mutation_p.*778W|SEMA3D_uc003uib.2_Nonstop_Mutation_p.*417W	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	778					cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						AGTAGAAAACTACGTGGCTAC	0.398													8	126					0	0	0.004482	0	0		C	84628757	C	C	84628757	4	2	124	1	0	0	0	0	0	0	0	0	14052	1535	53	3	4	3	SEMA3D	7	84628757	Nonstop_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	73114752	84628757	74509906	63	68834											
GNGT1	2792	broad.mit.edu	37	chr7	93540228	93540228	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggaggctgtgtgatttcaTaatacaaacaaaaagaaaaa	21	8	8	4	0	1	2	1	1	0	1	1	3	1	3	0	2	2	1	0	2	8	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr7:93540228T>C	uc003unc.1	+	3	371	c.223T>C	c.(223-225)TAA>CAA	p.*75Q	GNGT1_uc003umx.1_RNA	NM_021955	NP_068774	P63211	GBG1_HUMAN	guanine nucleotide binding protein (G protein),	75					G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	GTPase activity|signal transducer activity				0	all_cancers(62;2.39e-10)|all_epithelial(64;1.54e-09)|Lung NSC(181;0.218)		STAD - Stomach adenocarcinoma(171;0.000967)			TGTGATTTCATAATACAAACA	0.343													16	63					0	0	0.0333	0	0		C	93540228	C	C	93540228	4	2	124	1	0	0	0	0	0	0	0	0	6548	1419	49	3	229	3	GNGT1	7	93540228	Nonstop_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	8911471	93540228	65598435	64	68835											
RELN	5649	broad.mit.edu	37	chr7	103155636	103155636	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtgcataatttacctgaAgttttgtcttccataaacat	11	16	6	8	0	1	1	0	1	1	0	2	1	2	1	2	0	3	3	2	0	5	7			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr7:103155636A>C	uc003vca.2	-	50	8275	c.8115T>G	c.(8113-8115)ACT>ACG	p.T2705T	RELN_uc010liz.2_Silent_p.T2705T	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2705					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		ATTTACCTGAAGTTTTGTCTT	0.483													25	55					0	0	0.021523	0	0		C	103155636	C	C	103155636	2	2	124	1	0	0	0	0	0	0	0	1	13245	59	3	5		5	RELN	7	103155636	Silent	SNP	A	TCGA-CG-4300-01A-01D-1158-08	9615408	103155636	55983027	65	68836											
LRGUK	136332	broad.mit.edu	37	chr7	133884049	133884049	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaacaaggaaaaatatgaGggatatttgcggagaaaagg	19	7	13	2	1	0	3	0	2	0	1	0	6	0	5	0	4	2	0	0	4	8	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr7:133884049G>T	uc003vrm.1	+	14	1639	c.1623G>T	c.(1621-1623)GAG>GAT	p.E541D		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	541	Guanylate kinase-like.						ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						AAAAATATGAGGGATATTTGC	0.363													27	308					3.73988e-18	4.27144e-18	0.030593	1	0		T	133884049	T	T	133884049	3	4	124	1	0	0	0	0	1	0	0	0	8961	991	35	5	1677	5	LRGUK	7	133884049	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	30728413	133884049	25254614	66	68837											
FAM131B	9715	broad.mit.edu	37	chr7	143053722	143053722	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacaccttccggctgagaGcggtagacatctcagggtct	9	8	12	12	2	2	3	1	1	2	3	4	4	3	3	2	3	1	2	2	3	1	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr7:143053722G>A	uc003wct.2	-	6	2626	c.920C>T	c.(919-921)GCT>GTT	p.A307V	FAM131B_uc010loz.2_Missense_Mutation_p.A275V|FAM131B_uc003wcu.3_Missense_Mutation_p.A307V|FAM131B_uc010lpa.2_Missense_Mutation_p.A335V	NM_014690	NP_055505	Q86XD5	F131B_HUMAN	hypothetical protein LOC9715 isoform b	307											0	Melanoma(164;0.205)					CCGGCTGAGAGCGGTAGACAT	0.587													25	374					0	0	0.027356	0	0		A	143053722	A	A	143053722	3	1	124	1	0	0	0	0	1	0	0	0	5451	971	34	2	82	2	FAM131B	7	143053722	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	9169673	143053722	16084941	67	68838											
OR2F1	26211	broad.mit.edu	37	chr7	143657150	143657150	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	actcgggtctccctgtttgtCctgttcttggtcatgtatgt	3	18	10	10	1	3	0	1	0	2	0	6	0	4	0	2	2	0	3	2	2	1	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr7:143657150C>T	uc003wds.1	+	1	131	c.87C>T	c.(85-87)GTC>GTT	p.V29V		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	29	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					CCCTGTTTGTCCTGTTCTTGG	0.488													16	433					0	0	0.028581	0	0		T	143657150	T	T	143657150	2	4	124	1	0	0	0	0	0	0	0	1	11015	842	30	4		4	OR2F1	7	143657150	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08	603428	143657150	15481513	68	68839											
KRBA1	84626	broad.mit.edu	37	chr7	149420837	149420837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttagtgaagaccgaggCggtttcaggggattgtcccc	7	11	13	10	2	1	2	1	1	0	1	3	4	3	3	4	4	0	1	4	4	2	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr7:149420837C>T	uc003wfz.2	+	8	1184	c.785C>T	c.(784-786)GCG>GTG	p.A262V	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_5'UTR	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	262										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AAGACCGAGGCGGTTTCAGGG	0.557													21	48					0	0	0.012319	0	0		T	149420837	T	T	149420837	3	4	124	1	0	0	0	0	1	0	0	0	8455	768	27	1	811	1	KRBA1	7	149420837	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	5763687	149420837	9717826	69	68840											
DPP6	1804	broad.mit.edu	37	chr7	154667658	154667658	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgtggctgagaagttcgaGgtgagctgggagacggtgat	9	9	19	4	2	0	4	0	3	0	2	1	7	0	4	0	4	1	3	0	4	1	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr7:154667658G>A	uc003wlk.2	+	20	2055	c.1926G>A	c.(1924-1926)GAG>GAA	p.E642E	DPP6_uc003wli.2_Silent_p.E578E|DPP6_uc003wlm.2_Silent_p.E580E|DPP6_uc011kvq.1_Silent_p.E535E	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	642	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			AGAAGTTCGAGGTGAGCTGGG	0.647													7	21					0	0	0.006214	0	0		A	154667658	A	A	154667658	2	1	124	1	0	0	0	0	0	0	0	1	4736	991	35	4		4	DPP6	7	154667658	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	5246821	154667658	4471005	70	68841											
PI15	51050	broad.mit.edu	37	chr8	75756215	75756215	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagatttttttcccctacaGgtttgggatgaaaatcttgc	10	15	9	7	0	1	2	0	1	1	1	2	4	2	3	2	2	2	1	2	2	4	6			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr8:75756215G>T	uc003yal.2	+	3	453	c.274_splice	c.e3-1	p.V92_splice	uc003yak.1_Intron|PI15_uc003yam.2_Splice_Site_p.V92_splice	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein							extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			TTCCCCTACAGGTTTGGGATG	0.393													21	235					8.16721e-17	9.18811e-17	0.045705	1	0		T	75756215	T	T	75756215	5	4	124	1	0	0	0	0	0	0	1	0	11887	1014	35	5	279	5	PI15	8	75756215	Splice_Site	SNP	G	TCGA-CG-4300-01A-01D-1158-08		75756215	70607807	71	68842											
ZFHX4	79776	broad.mit.edu	37	chr8	77617116	77617116	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaatgtggacttgtccaaaTtcgatggttgtgttagcgat	10	14	11	6	2	0	0	0	0	0	0	2	3	1	1	1	2	1	2	1	2	3	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr8:77617116T>G	uc003yav.2	+	2	1180	c.793T>G	c.(793-795)TTC>GTC	p.F265V	ZFHX4_uc003yat.1_Missense_Mutation_p.F265V|ZFHX4_uc003yau.1_Missense_Mutation_p.F265V|ZFHX4_uc003yaw.1_Missense_Mutation_p.F265V	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	265						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTTGTCCAAATTCGATGGTTG	0.418										HNSCC(33;0.089)			3	84					0	0	0.004672	0	0		G	77617116	G	G	77617116	3	3	124	1	0	0	0	0	1	0	0	0	17660	1493	52	5	795	5	ZFHX4	8	77617116	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	1860901	77617116	68746906	72	68843											
CA13	377677	broad.mit.edu	37	chr8	86193528	86193528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttctggtgagcaatcacCgcccaccacagcctctaaag	10	9	7	15	1	3	1	1	1	2	0	3	1	3	1	4	1	2	1	4	1	3	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr8:86193528C>T	uc003ydg.2	+	7	1081	c.739C>T	c.(739-741)CGC>TGC	p.R247C	CA13_uc003ydf.1_Intron	NM_198584	NP_940986	Q8N1Q1	CAH13_HUMAN	carbonic anhydrase XIII	247					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0						GAGCAATCACCGCCCACCACA	0.498													8	147					0	0	0.004482	0	0		T	86193528	T	T	86193528	3	4	124	1	0	0	0	0	1	0	0	0	2517	652	23	1	765	1	CA13	8	86193528	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	8576412	86193528	60170494	73	68844											
TMEM64	169200	broad.mit.edu	37	chr8	91657358	91657358	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgaaaacactgcattctgaAgcccaaaaggtatgggtgtc	13	8	10	10	1	1	1	0	1	1	0	2	2	1	1	2	2	3	2	2	2	6	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr8:91657358A>G	uc003yen.2	-	1	776	c.776T>C	c.(775-777)CTT>CCT	p.L259P	TMEM64_uc003yeo.2_Intron|TMEM64_uc011lgf.1_Missense_Mutation_p.L259P|uc003yep.2_5'Flank	NM_001008495	NP_001008495	Q6YI46	TMM64_HUMAN	transmembrane protein 64 isoform 1	259						integral to membrane					0			BRCA - Breast invasive adenocarcinoma(11;0.0598)			TGCATTCTGAAGCCCAAAAGG	0.587											OREG0018858	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	98					0	0	0.013537	0	0		G	91657358	G	G	91657358	3	3	124	1	0	0	0	0	1	0	0	0	16218	72	3	3	378	3	TMEM64	8	91657358	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	5463830	91657358	54706664	74	68845											
POP1	10940	broad.mit.edu	37	chr8	99140731	99140731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgagccacaacgtcaaacGccttcccagacggttacagg	12	6	9	14	3	1	2	1	1	0	1	2	2	2	2	3	2	4	1	3	2	3	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr8:99140731G>A	uc003yij.3	+	4	549	c.449G>A	c.(448-450)CGC>CAC	p.R150H	POP1_uc011lgv.1_Missense_Mutation_p.R150H|POP1_uc003yik.2_Missense_Mutation_p.R150H	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	150					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			AACGTCAAACGCCTTCCCAGA	0.453													4	72					0	0	0.009096	0	0		A	99140731	A	A	99140731	3	1	124	1	0	0	0	0	1	0	0	0	12270	1087	38	1	459	1	POP1	8	99140731	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	7483373	99140731	47223291	75	68846											
TRPS1	7227	broad.mit.edu	37	chr8	116616721	116616721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatcattctgattaatgacaGagcccctggaaagcttatca	13	11	8	9	0	3	3	2	2	1	1	3	5	3	4	2	1	2	1	2	1	3	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr8:116616721G>A	uc003ynz.2	-	3	1895	c.1436C>T	c.(1435-1437)TCT>TTT	p.S479F	TRPS1_uc011lhy.1_Missense_Mutation_p.S483F|TRPS1_uc003yny.2_Missense_Mutation_p.S492F|TRPS1_uc010mcy.2_Missense_Mutation_p.S479F	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	479					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			ATTAATGACAGAGCCCCTGGA	0.463									Langer-Giedion_syndrome				7	143					0	0	0.038147	0	0		A	116616721	A	A	116616721	3	1	124	1	0	0	0	0	1	0	0	0	16619	942	33	4	2425	4	TRPS1	8	116616721	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	17475990	116616721	29747301	76	68847											
EXT1	2131	broad.mit.edu	37	chr8	118847770	118847770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactcccatccattgctgagCatcacagggacgcaggcagc	11	6	10	14	1	1	1	1	1	0	0	3	2	3	2	2	2	4	4	2	2	1	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr8:118847770C>T	uc003yok.1	-	3	1850	c.1077G>A	c.(1075-1077)ATG>ATA	p.M359I		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	359	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			CATTGCTGAGCATCACAGGGA	0.483			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				19	92					0	0	0.008871	0	0		T	118847770	T	T	118847770	3	4	124	1	0	0	0	0	1	0	0	0	5331	710	25	2	1199	2	EXT1	8	118847770	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	2231049	118847770	27516252	77	68848											
LYPD2	137797	broad.mit.edu	37	chr8	143832577	143832577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccggacagacgtagcagcGcagggccggcgctggggaga	8	3	18	12	5	0	2	0	0	0	2	1	4	1	3	2	5	2	4	2	5	1	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr8:143832577G>A	uc003ywz.2	-	2	153	c.70C>T	c.(70-72)CGC>TGC	p.R24C		NM_205545	NP_991108	Q6UXB3	LYPD2_HUMAN	LY6/PLAUR domain containing 2 precursor	24						anchored to membrane|plasma membrane					0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					ACGTAGCAGCGCAGGGCCGGC	0.637													27	148					0	0	0.030593	0	0		A	143832577	A	A	143832577	3	1	124	1	0	0	0	0	1	0	0	0	9128	1087	38	1	315	1	LYPD2	8	143832577	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	24984807	143832577	2531445	78	68849											
CPSF1	29894	broad.mit.edu	37	chr8	145623313	145623313	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcactgcacgatgggggcGcccaggtccacggggatgaa	8	4	17	12	4	0	1	0	1	0	0	1	3	1	2	2	5	1	2	2	5	1	0			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr8:145623313G>A	uc003zcj.2	-	20	2004	c.1929C>T	c.(1927-1929)GGC>GGT	p.G643G		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	643					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			CGATGGGGGCGCCCAGGTCCA	0.637													5	37					0	0	0.014758	0	0		A	145623313	A	A	145623313	2	1	124	1	0	0	0	0	0	0	0	1	3827	1074	38	1		1	CPSF1	8	145623313	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	1790736	145623313	740709	79	68850											
IFNW1	3467	broad.mit.edu	37	chr9	21141013	21141013	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtctctatctttacttCtcagtctttcttgcatgttt	5	20	5	11	0	5	0	1	0	5	0	7	0	5	0	1	1	2	2	1	1	2	7			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr9:21141013C>A	uc003zol.1	-	1	1132	c.557G>T	c.(556-558)AGA>ATA	p.R186I		NM_002177	NP_002168	P05000	IFNW1_HUMAN	interferon, omega 1 precursor	186					cell cycle arrest|defense response|response to virus	extracellular space	cytokine activity|cytokine receptor binding				0				GBM - Glioblastoma multiforme(5;2.35e-185)|Lung(24;2.24e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		ATCTTTACTTCTCAGTCTTTC	0.378													81	68					2.05912e-35	2.41303e-35	0.01441	1	0		A	21141013	A	A	21141013	3	1	124	1	0	0	0	0	1	0	0	0	7568	913	32	5	34	5	IFNW1	9	21141013	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08		21141013	120072418	80	68851											
IFNA14	3448	broad.mit.edu	37	chr9	21239632	21239632	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttttctaggagggtctcAtcccaagcagcagatgagtt	11	12	10	8	0	2	2	1	1	2	1	4	3	3	3	1	2	2	3	1	2	3	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr9:21239632A>G	uc010mis.2	-	1	347	c.303T>C	c.(301-303)GAT>GAC	p.D101D	IFNA14_uc003zoo.1_RNA	NM_002172	NP_002163	P01570	IFN14_HUMAN	interferon, alpha 14 precursor	101					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		GGAGGGTCTCATCCCAAGCAG	0.478													10	233					0	0	0.008291	0	0		G	21239632	G	G	21239632	2	3	124	1	0	0	0	0	0	0	0	1	7550	214	8	3		3	IFNA14	9	21239632	Silent	SNP	A	TCGA-CG-4300-01A-01D-1158-08	98619	21239632	119973799	81	68852											
FAM75A6	389730	broad.mit.edu	37	chr9	43626680	43626680	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggggtctcacccagaatTtgccccagatgtgggcacag	8	9	13	11	0	1	2	1	0	1	2	2	2	1	2	3	3	1	1	3	3	1	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr9:43626680T>G	uc011lrb.1	-	4	2036	c.2007A>C	c.(2005-2007)CAA>CAC	p.Q669H		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	669						integral to membrane					0						CACCCAGAATTTGCCCCAGAT	0.552													35	171					0	0	0.01441	0	0		G	43626680	G	G	43626680	3	3	124	1	0	0	0	0	1	0	0	0	5636	1838	64	5	2028	5	FAM75A6	9	43626680	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	22387048	43626680	97586751	82	68853											
ZNF462	58499	broad.mit.edu	37	chr9	109686646	109686646	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgggatccttaaattataaTatcatgatgcacgagggatt	13	12	9	7	2	1	1	1	1	0	0	2	4	2	3	2	2	1	1	2	2	5	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr9:109686646T>G	uc004bcz.2	+	3	742	c.453T>G	c.(451-453)AAT>AAG	p.N151K	ZNF462_uc010mto.2_5'UTR|ZNF462_uc004bda.2_5'UTR	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	151					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						TAAATTATAATATCATGATGC	0.438													11	89					0	0	0.016723	0	0		G	109686646	G	G	109686646	3	3	124	1	0	0	0	0	1	0	0	0	17951	1403	49	5	459	5	ZNF462	9	109686646	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	66059966	109686646	31526785	83	68854											
USP20	10868	broad.mit.edu	37	chr9	132637711	132637711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaagttcaacaccttcgCggagccaggccccatcacca	12	5	7	17	2	2	0	2	0	0	0	3	1	2	1	5	2	3	1	5	2	3	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr9:132637711C>T	uc004bys.2	+	20	2382	c.2171C>T	c.(2170-2172)GCG>GTG	p.A724V	USP20_uc004byr.2_Missense_Mutation_p.A724V|USP20_uc004byt.1_Missense_Mutation_p.A724V	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	724	DUSP 1.				endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				AACACCTTCGCGGAGCCAGGC	0.682													8	67					0	0	0.038147	0	0		T	132637711	T	T	132637711	3	4	124	1	0	0	0	0	1	0	0	0	17078	768	27	1	2241	1	USP20	9	132637711	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	22951065	132637711	8575720	84	68855											
PTCHD3	374308	broad.mit.edu	37	chr10	27687305	27687305	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gggaagaaatgatttcatttGatgaagaaatattaatatca	18	13	8	2	0	2	5	2	3	0	2	2	6	2	6	0	1	0	0	0	1	7	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr10:27687305G>C	uc001itu.2	-	4	2340	c.2222C>G	c.(2221-2223)TCA>TGA	p.S741*		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	741					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GATTTCATTTGATGAAGAAAT	0.313													5	83					0	0	0.014758	0	0		C	27687305	C	C	27687305	4	2	124	1	0	0	0	0	0	1	0	0	12756	1294	45	5	85	5	PTCHD3	10	27687305	Nonsense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08		27687305	107847442	85	68856											
C10orf71	118461	broad.mit.edu	37	chr10	50531052	50531052	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctttcgacaggaccgaGagccaacgttgtgagagcag	13	7	12	9	3	1	2	0	1	1	2	2	6	1	3	2	1	3	2	2	1	2	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr10:50531052G>T	uc010qgp.1	+	3	801	c.462G>T	c.(460-462)GAG>GAT	p.E154D		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	154											0						ACAGGACCGAGAGCCAACGTT	0.512													12	61					1.5842e-08	1.75589e-08	0.016723	1	0		T	50531052	T	T	50531052	3	4	124	1	0	0	0	0	1	0	0	0	1617	933	33	5	464	5	C10orf71	10	50531052	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	22843747	50531052	85003695	86	68857											
KIAA0913	23053	broad.mit.edu	37	chr10	75552483	75552483	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggagaggaggatgatgactAccaggcgtactatctgaatg	12	9	14	6	1	1	4	0	3	1	1	1	7	1	6	1	4	2	1	1	4	4	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr10:75552483A>G	uc009xrl.2	+	10	2218	c.2186A>G	c.(2185-2187)TAC>TGC	p.Y729C	KIAA0913_uc001jve.2_Missense_Mutation_p.Y729C|KIAA0913_uc001jvf.2_Missense_Mutation_p.Y729C|KIAA0913_uc001jvh.2_RNA|KIAA0913_uc001jvi.2_Missense_Mutation_p.Y152C|KIAA0913_uc010qkr.1_Missense_Mutation_p.Y152C|KIAA0913_uc001jvj.2_Missense_Mutation_p.Y152C	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	729							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					GATGATGACTACCAGGCGTAC	0.602													27	86					0	0	0.037714	0	0		G	75552483	G	G	75552483	3	3	124	1	0	0	0	0	1	0	0	0	8216	391	14	3	2224	3	KIAA0913	10	75552483	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	25021431	75552483	59982264	87	68858											
PLCE1	51196	broad.mit.edu	37	chr10	96025643	96025643	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctctcatactattacatCgaatcttcgcacaataccta	12	12	2	15	2	2	0	1	0	2	0	5	1	2	0	3	0	3	1	3	0	7	6	rs145456568	by1000genomes	TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr10:96025643C>T	uc001kjk.2	+	16	4843	c.4209C>T	c.(4207-4209)ATC>ATT	p.I1403I	PLCE1_uc010qnx.1_Silent_p.I1387I|PLCE1_uc001kjm.2_Silent_p.I1095I	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1403	PI-PLC X-box.				activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				ACTATTACATCGAATCTTCGC	0.443													17	165					0	0	0.038395	0	0		T	96025643	T	T	96025643	2	4	124	1	0	0	0	0	0	0	0	1	12053	874	31	1		1	PLCE1	10	96025643	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08	20473160	96025643	39509104	88	68859											
SORCS3	22986	broad.mit.edu	37	chr10	106959784	106959784	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacttcagcctccgctcCgaatggcaattggtgaaagt	9	9	11	12	2	1	1	1	1	0	0	3	2	3	1	4	3	1	2	4	3	3	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr10:106959784C>T	uc001kyi.1	+	15	2264	c.2037C>T	c.(2035-2037)TCC>TCT	p.S679S	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	679	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GCCTCCGCTCCGAATGGCAAT	0.502													9	179					0	0	0.010729	0	0		T	106959784	T	T	106959784	2	4	124	1	0	0	0	0	0	0	0	1	14957	639	23	1		1	SORCS3	10	106959784	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08	10934141	106959784	28574963	89	68860											
FGFR2	2263	broad.mit.edu	37	chr10	123274680	123274680	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtcagcttgtgcacagccGgctggctgctgaagtctggc	5	10	15	11	1	2	1	1	1	1	0	2	1	2	1	1	4	4	5	1	4	1	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr10:123274680G>C	uc010qtk.1	-	9	1885	c.1238C>G	c.(1237-1239)CCG>CGG	p.P413R	FGFR2_uc010qtg.1_Missense_Mutation_p.P301R|FGFR2_uc010qth.1_Missense_Mutation_p.P298R|FGFR2_uc010qti.1_Missense_Mutation_p.P324R|FGFR2_uc010qtj.1_Missense_Mutation_p.P414R|FGFR2_uc010qtl.1_Intron|FGFR2_uc010qtm.1_Missense_Mutation_p.P298R|FGFR2_uc001lfl.3_Missense_Mutation_p.P414R|FGFR2_uc001lfm.2_Missense_Mutation_p.P325R|FGFR2_uc001lfn.3_RNA|FGFR2_uc001lfg.3_Missense_Mutation_p.P23R	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	413	Cytoplasmic (Potential).				angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of mesenchymal cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding			endometrium(44)|skin(28)|lung(11)|ovary(4)|cervix(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|soft_tissue(1)|central_nervous_system(1)	96		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Palifermin(DB00039)	GTGCACAGCCGGCTGGCTGCT	0.493		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				8	183					0	0	0.038147	0	0		C	123274680	C	C	123274680	3	2	124	1	0	0	0	0	1	0	0	0	5880	1116	39	5	1371	5	FGFR2	10	123274680	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	16314896	123274680	12260067	90	68861											
ATHL1	80162	broad.mit.edu	37	chr11	290921	290921	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcacaggcctgggcccagctCtgggtagaatgtggcttgga	7	8	16	10	0	1	1	0	0	1	1	1	2	1	2	2	5	1	4	2	5	2	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr11:290921C>G	uc010qvu.1	+	4	829	c.714C>G	c.(712-714)CTC>CTG	p.L238L	ATHL1_uc001lor.3_Silent_p.L61L|ATHL1_uc001los.1_Silent_p.L238L|ATHL1_uc001lou.3_5'Flank|ATHL1_uc001lov.3_5'Flank	NM_025092	NP_079368	Q32M88	ATHL1_HUMAN	ATH1, acid trehalase-like 1	238					carbohydrate metabolic process		hydrolase activity, acting on glycosyl bonds			liver(1)|central_nervous_system(1)|skin(1)	3		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.38e-28)|Epithelial(43;3.25e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0327)|LUSC - Lung squamous cell carcinoma(625;0.122)		GGGCCCAGCTCTGGGTAGAAT	0.692													3	47					0	0	0.02938	0	0		G	290921	G	G	290921	2	3	124	1	0	0	0	0	0	0	0	1	1105	900	32	5		5	ATHL1	11	290921	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08		290921	134715595	91	68862											
MUC6	4588	broad.mit.edu	37	chr11	1017716	1017716	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgtggaggaagtgtgtgaAtgtagggatgtagaggtttt	9	14	18	0	0	0	2	0	1	0	1	0	5	0	5	0	4	0	3	0	4	4	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr11:1017716A>G	uc001lsw.2	-	31	5136	c.5085T>C	c.(5083-5085)CAT>CAC	p.H1695H		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1695	Thr-rich.|1; truncated.|Approximate repeats.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AAGTGTGTGAATGTAGGGATG	0.552													44	673					0	0	0.01441	0	0		G	1017716	G	G	1017716	2	3	124	1	0	0	0	0	0	0	0	1	9998	98	4	3		3	MUC6	11	1017716	Silent	SNP	A	TCGA-CG-4300-01A-01D-1158-08	726795	1017716	133988800	92	68863											
MUC5B	727897	broad.mit.edu	37	chr11	1261524	1261524	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcaacggcaccatcatcAggaaggctgtggcatgtcct	11	7	12	11	1	2	0	2	0	0	0	3	2	3	1	2	4	2	4	2	4	3	0			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr11:1261524A>T	uc009ycr.1	+	46	6094	c.5968A>T	c.(5968-5970)AGG>TGG	p.R1990W	MUC5B_uc001ltb.2_Missense_Mutation_p.R1300W|MUC5B_uc001lta.2_Missense_Mutation_p.R965W	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1297					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CACCATCATCAGGAAGGCTGT	0.597													20	54					0	0	0.01892	0	0		T	1261524	T	T	1261524	3	4	124	1	0	0	0	0	1	0	0	0	9997	179	7	5	4016	5	MUC5B	11	1261524	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	243808	1261524	133744992	93	68864											
COPB1	1315	broad.mit.edu	37	chr11	14515257	14515257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgatgctccaaacatgcaCgaatagctggcattaaaggt	13	9	10	9	2	0	0	0	0	0	0	2	2	1	0	1	2	4	4	1	2	5	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr11:14515257C>T	uc001mli.2	-	4	729	c.422G>A	c.(421-423)CGT>CAT	p.R141H	COPB1_uc001mlg.2_Missense_Mutation_p.R141H|COPB1_uc001mlh.2_Missense_Mutation_p.R141H|PSMA1_uc010rcp.1_RNA	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	141	HEAT 2.				COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						CAAACATGCACGAATAGCTGG	0.368													9	181					0	0	0.010729	0	0		T	14515257	T	T	14515257	3	4	124	1	0	0	0	0	1	0	0	0	3731	536	19	1	2515	1	COPB1	11	14515257	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	13253733	14515257	120491259	94	68865											
PDE3B	5140	broad.mit.edu	37	chr11	14865418	14865418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgaattgcttatatttcttCgaagagctgctctaatcctg	9	15	8	9	2	2	1	0	0	2	1	4	3	3	1	1	0	3	3	1	0	5	6			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr11:14865418C>T	uc001mln.2	+	12	2719	c.2366C>T	c.(2365-2367)TCG>TTG	p.S789L	PDE3B_uc010rcr.1_Missense_Mutation_p.S738L	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	789	Catalytic (By similarity).				cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						TATATTTCTTCGAAGAGCTGC	0.393													15	348					0	0	0.024245	0	0		T	14865418	T	T	14865418	3	4	124	1	0	0	0	0	1	0	0	0	11657	893	31	1	2412	1	PDE3B	11	14865418	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	350161	14865418	120141098	95	68866											
OR5L2	26338	broad.mit.edu	37	chr11	55595391	55595391	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagatacactctgcagagAgcaggcacaaagctttctcc	13	8	9	11	0	2	3	0	1	2	2	3	4	2	3	1	1	4	4	1	1	3	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr11:55595391A>G	uc001nhy.1	+	1	697	c.697A>G	c.(697-699)AGC>GGC	p.S233G		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	233	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				CTCTGCAGAGAGCAGGCACAA	0.493										HNSCC(27;0.073)			7	204					0	0	0.038147	0	0		G	55595391	G	G	55595391	3	3	124	1	0	0	0	0	1	0	0	0	11190	304	11	3	699	3	OR5L2	11	55595391	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	40729973	55595391	79411125	96	68867			1	31		2	2	15	N	T_A	7.461759e-05
OR5L2	26338	broad.mit.edu	37	chr11	55595405	55595405	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagagagcaggcacaaagcTttctccacctgtgcctccca	10	7	9	15	0	1	1	0	0	1	1	3	2	2	1	4	1	3	4	4	1	1	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr11:55595405T>C	uc001nhy.1	+	1	711	c.711T>C	c.(709-711)GCT>GCC	p.A237A		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	237	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				GGCACAAAGCTTTCTCCACCT	0.483										HNSCC(27;0.073)			7	196					0	0	0.038147	0	0		C	55595405	C	C	55595405	2	2	124	1	0	0	0	0	0	0	0	1	11190	1596	56	3		3	OR5L2	11	55595405	Silent	SNP	T	TCGA-CG-4300-01A-01D-1158-08	14	55595405	79411111	97	68868			1	31		2	2	15	N	T_A	7.461759e-05
OR5T1	390155	broad.mit.edu	37	chr11	56043937	56043937	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcatgtatgtgagaccaAgttccagctacacttcggac	10	12	8	11	1	2	1	1	1	1	1	4	3	3	2	2	1	2	3	2	1	3	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr11:56043937A>C	uc001nio.1	+	1	823	c.823A>C	c.(823-825)AGT>CGT	p.S275R		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	275	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TGTGAGACCAAGTTCCAGCTA	0.423													21	378					0	0	0.016522	0	0		C	56043937	C	C	56043937	3	2	124	1	0	0	0	0	1	0	0	0	11200	72	3	5	825	5	OR5T1	11	56043937	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	448532	56043937	78962579	98	68869											
OR5R1	219479	broad.mit.edu	37	chr11	56185581	56185581	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgattaaagtaatcaacccaAgattgcccagcactgtgacc	14	9	7	11	0	1	3	1	2	0	1	1	3	1	3	3	0	3	2	3	0	5	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr11:56185581A>C	uc010rji.1	-	1	128	c.128T>G	c.(127-129)CTT>CGT	p.L43R		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AATCAACCCAAGATTGCCCAG	0.453													9	173					0	0	0.006214	0	0		C	56185581	C	C	56185581	3	2	124	1	0	0	0	0	1	0	0	0	11199	72	3	5	848	5	OR5R1	11	56185581	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	141644	56185581	78820935	99	68870											
SLC22A12	116085	broad.mit.edu	37	chr11	64359339	64359339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcttggaccccaatgccaCggccaccagctggagcgagg	8	5	13	15	2	1	0	0	0	1	0	1	3	1	2	5	4	3	2	5	4	1	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr11:64359339C>T	uc001oam.1	+	1	1058	c.311C>T	c.(310-312)ACG>ATG	p.T104M	SLC22A12_uc009ypr.1_Missense_Mutation_p.T104M|SLC22A12_uc001oal.1_Translation_Start_Site|SLC22A12_uc009yps.1_Missense_Mutation_p.T104M|SLC22A12_uc001oan.1_Missense_Mutation_p.T104M|SLC22A12_uc009ypt.2_5'Flank	NM_144585	NP_653186	Q96S37	S22AC_HUMAN	urate anion exchanger 1 isoform a	104					cellular homeostasis|response to drug|urate metabolic process	apical plasma membrane|brush border membrane|integral to membrane	PDZ domain binding|urate transmembrane transporter activity			ovary(1)	1						CCCAATGCCACGGCCACCAGC	0.667													13	28					0	0	0.038395	0	0		T	64359339	T	T	64359339	3	4	124	1	0	0	0	0	1	0	0	0	14468	536	19	1	313	1	SLC22A12	11	64359339	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	8173758	64359339	70647177	100	68871											
FAT3	120114	broad.mit.edu	37	chr11	92086909	92086909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctccccagaaatttacaGattcattgttagagcctctg	11	13	6	11	0	2	3	1	0	1	3	4	3	4	3	4	0	2	1	4	0	3	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr11:92086909G>A	uc001pdj.3	+	1	1648	c.1631G>A	c.(1630-1632)AGA>AAA	p.R544K		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	544	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GAAATTTACAGATTCATTGTT	0.413										TCGA Ovarian(4;0.039)			45	106					0	0	0.039052	0	0		A	92086909	A	A	92086909	3	1	124	1	0	0	0	0	1	0	0	0	5705	942	33	4	1633	4	FAT3	11	92086909	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	27727570	92086909	42919607	101	68872											
MED17	9440	broad.mit.edu	37	chr11	93527121	93527121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttgttgtcatataggtttCaatacaaaaacaggctccag	13	14	7	7	0	2	0	2	0	0	0	3	0	3	0	1	2	2	3	1	2	6	7			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr11:93527121C>T	uc001pem.3	+	5	1054	c.779C>T	c.(778-780)TCA>TTA	p.S260L		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	260					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				ATATAGGTTTCAATACAAAAA	0.328													32	187					0	0	0.017118	0	0		T	93527121	T	T	93527121	3	4	124	1	0	0	0	0	1	0	0	0	9453	838	29	4	797	4	MED17	11	93527121	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	1440212	93527121	41479395	102	68873											
RASSF8	11228	broad.mit.edu	37	chr12	26217702	26217702	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatcaaaaggagggaaccGaaaaggaaatcactgacatt	19	6	9	7	1	3	1	3	1	0	0	3	5	3	4	1	3	1	0	1	3	7	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr12:26217702G>T	uc001rgx.2	+	3	596	c.375G>T	c.(373-375)CCG>CCT	p.P125P	RASSF8_uc001rgy.2_Silent_p.P125P|RASSF8_uc001rgz.2_Silent_p.P125P|RASSF8_uc009zjd.1_Silent_p.P125P|RASSF8_uc009zje.1_Silent_p.P125P	NM_007211	NP_009142	Q8NHQ8	RASF8_HUMAN	Ras association (RalGDS/AF-6) domain family	125					signal transduction						0	Colorectal(261;0.0847)					GGAGGGAACCGAAAAGGAAAT	0.413													15	176					6.72482e-11	7.49052e-11	0.024245	1	0		T	26217702	T	T	26217702	2	4	124	1	0	0	0	0	0	0	0	1	13117	1045	37	5		5	RASSF8	12	26217702	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08		26217702	107634193	103	68874											
FAR2	55711	broad.mit.edu	37	chr12	29423406	29423406	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacaattgcagctttctaTggcggcaagtccattctcat	9	13	7	12	1	2	0	1	0	2	0	5	0	4	0	2	2	2	3	2	2	3	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr12:29423406T>G	uc001ris.3	+	2	171	c.24T>G	c.(22-24)TAT>TAG	p.Y8*	FAR2_uc001rit.2_Nonsense_Mutation_p.Y8*|FAR2_uc009zjm.2_Intron	NM_018099	NP_060569	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	8					ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0						CAGCTTTCTATGGCGGCAAGT	0.458													47	44					0	0	0.01441	0	0		G	29423406	G	G	29423406	4	3	124	1	0	0	0	0	0	1	0	0	5689	1471	51	5	26	5	FAR2	12	29423406	Nonsense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	3205704	29423406	104428489	104	68875											
CNTN1	1272	broad.mit.edu	37	chr12	41327301	41327301	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctgatattgtagttcagTtcaaggatgtatatgcattg	10	16	10	5	0	2	1	2	1	0	0	2	2	2	2	0	1	2	6	0	1	5	8			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr12:41327301T>C	uc001rmm.1	+	8	855	c.742T>C	c.(742-744)TTC>CTC	p.F248L	CNTN1_uc009zjy.1_Missense_Mutation_p.F248L|CNTN1_uc001rmn.1_Missense_Mutation_p.F237L|CNTN1_uc001rmo.2_Missense_Mutation_p.F248L	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	248	Ig-like C2-type 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				TGTAGTTCAGTTCAAGGATGT	0.289													11	137					0	0	0.020292	0	0		C	41327301	C	C	41327301	3	2	124	1	0	0	0	0	1	0	0	0	3643	1725	60	3	768	3	CNTN1	12	41327301	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	11903895	41327301	92524594	105	68876											
SLC38A1	81539	broad.mit.edu	37	chr12	46598091	46598091	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggaaacttacctttgaaTtgaaggtaacatattttggc	13	14	8	6	0	1	2	1	2	0	0	1	3	1	3	1	3	3	1	1	3	6	7			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr12:46598091T>G	uc001rpa.2	-	11	1073	c.815A>C	c.(814-816)AAT>ACT	p.N272T	SLC38A1_uc001rpb.2_Missense_Mutation_p.N272T|SLC38A1_uc001rpc.2_Missense_Mutation_p.N272T|SLC38A1_uc001rpd.2_Missense_Mutation_p.N272T|SLC38A1_uc001rpe.2_Missense_Mutation_p.N272T|SLC38A1_uc010slh.1_Missense_Mutation_p.N245T|SLC38A1_uc009zkj.1_Missense_Mutation_p.N272T	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	272	Extracellular (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)			TACCTTTGAATTGAAGGTAAC	0.333													29	267					0	0	0.012213	0	0		G	46598091	G	G	46598091	3	3	124	1	0	0	0	0	1	0	0	0	14626	1493	52	5	676	5	SLC38A1	12	46598091	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	5270790	46598091	87253804	106	68877											
ESPL1	9700	broad.mit.edu	37	chr12	53663425	53663425	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgtgatcagagccttggtGggtgagagagggagctcttc	8	9	16	8	1	2	4	1	2	1	2	3	6	2	5	1	3	2	1	1	3	0	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr12:53663425G>A	uc001sck.2	+	3	790	c.699G>A	c.(697-699)GTG>GTA	p.V233V	ESPL1_uc001scj.2_5'UTR	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	233					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						GAGCCTTGGTGGGTGAGAGAG	0.567													60	334					0	0	0.01441	0	0		A	53663425	A	A	53663425	2	1	124	1	0	0	0	0	0	0	0	1	5261	1335	47	4		4	ESPL1	12	53663425	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	7065334	53663425	80188470	107	68878											
BAZ2A	11176	broad.mit.edu	37	chr12	57005592	57005592	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtccttctccagtgatcTcttccacgtcagcagtggtt	6	14	9	12	1	3	2	1	2	2	0	7	2	5	2	3	1	1	2	3	1	0	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr12:57005592T>C	uc001slq.1	-	6	1774	c.1580A>G	c.(1579-1581)GAG>GGG	p.E527G	BAZ2A_uc001slp.1_Missense_Mutation_p.E525G|BAZ2A_uc009zow.1_Missense_Mutation_p.E495G	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	527					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						TCCAGTGATCTCTTCCACGTC	0.488													3	20					0	0	0.004672	0	0		C	57005592	C	C	57005592	3	2	124	1	0	0	0	0	1	0	0	0	1332	1551	54	3	4233	3	BAZ2A	12	57005592	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	3342167	57005592	76846303	108	68879											
PLXNC1	10154	broad.mit.edu	37	chr12	94645229	94645229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaaacctggagctctacGtcgagcaggagtcagttcct	9	9	13	10	2	2	0	1	0	1	0	4	4	3	3	2	3	4	3	2	3	2	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr12:94645229G>A	uc001tdc.2	+	15	3055	c.2806G>A	c.(2806-2808)GTC>ATC	p.V936I		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	936	Extracellular (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						GGAGCTCTACGTCGAGCAGGA	0.428													4	60					0	0	0.009096	0	0		A	94645229	A	A	94645229	3	1	124	1	0	0	0	0	1	0	0	0	12145	1145	40	1	2864	1	PLXNC1	12	94645229	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	37639637	94645229	39206666	109	68880											
CCDC38	120935	broad.mit.edu	37	chr12	96330276	96330276	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattcagtgttggcaataaAtttgaggacattttcttgcc	11	15	9	6	0	2	1	1	1	1	0	2	3	2	2	1	2	1	2	1	2	4	7			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr12:96330276A>G	uc001tek.1	-	2	246	c.12T>C	c.(10-12)AAT>AAC	p.N4N		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	4										skin(1)	1						TTGGCAATAAATTTGAGGACA	0.343													11	18					0	0	0.010729	0	0		G	96330276	G	G	96330276	2	3	124	1	0	0	0	0	0	0	0	1	2813	98	4	3		3	CCDC38	12	96330276	Silent	SNP	A	TCGA-CG-4300-01A-01D-1158-08	1685047	96330276	37521619	110	68881											
C13orf1	57213	broad.mit.edu	37	chr13	50502102	50502102	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgctggcagcctattttTctcttcattgttgtggtaaa	6	19	9	7	0	2	0	1	0	1	0	3	0	2	0	1	2	2	5	1	2	3	8			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr13:50502102T>C	uc001vdl.2	-	3	605	c.343A>G	c.(343-345)AAA>GAA	p.K115E	C13orf1_uc001vdm.2_Missense_Mutation_p.K76E|C13orf1_uc010tgm.1_Intron|C13orf1_uc010adj.2_Missense_Mutation_p.K115E	NM_020456	NP_065189	Q5W111	SPRY7_HUMAN	chromosome 13 open reading frame 1 isoform 1	115	B30.2/SPRY.										0		Lung NSC(96;7.5e-06)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Acute lymphoblastic leukemia(7;0.117)		GBM - Glioblastoma multiforme(99;1.72e-10)|COAD - Colon adenocarcinoma(199;0.208)		AGCCTATTTTTCTCTTCATTG	0.448													9	168					0	0	0.008291	0	0		C	50502102	C	C	50502102	3	2	124	1	0	0	0	0	1	0	0	0	1720	1792	62	3	259	3	C13orf1	13	50502102	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08		50502102	64667776	111	68882											
TBC1D4	9882	broad.mit.edu	37	chr13	75898422	75898422	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctacctgaattctggtaaaAgcttttcaggaaagaggggg	12	11	12	6	0	3	2	1	1	2	1	3	3	3	3	1	4	2	2	1	4	5	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr13:75898422A>G	uc001vjl.1	-	11	2496	c.2149T>C	c.(2149-2151)TTT>CTT	p.F717L	TBC1D4_uc010aer.2_Missense_Mutation_p.F717L|TBC1D4_uc010aes.2_Intron	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	717	Ser-rich.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		TTCTGGTAAAAGCTTTTCAGG	0.443													3	205					0	0	0.004672	0	0		G	75898422	G	G	75898422	3	3	124	1	0	0	0	0	1	0	0	0	15647	72	3	3	1791	3	TBC1D4	13	75898422	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	25396320	75898422	39271456	112	68883											
SLITRK5	26050	broad.mit.edu	37	chr13	88330374	88330374	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggggcaggggacagcaggCtacgggaaccggtgctctac	8	4	18	11	3	1	0	0	0	1	0	1	2	1	2	1	7	5	4	1	7	3	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr13:88330374C>A	uc001vln.2	+	2	2950	c.2731C>A	c.(2731-2733)CTA>ATA	p.L911I	SLITRK5_uc010tic.1_Missense_Mutation_p.L670I	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	911	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GGACAGCAGGCTACGGGAACC	0.562													7	232					0.000157383	0.00016625	0.038147	1	0		A	88330374	A	A	88330374	3	1	124	1	0	0	0	0	1	0	0	0	14771	796	28	5	2733	5	SLITRK5	13	88330374	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	12431952	88330374	26839504	113	68884											
TXNDC16	57544	broad.mit.edu	37	chr14	52981665	52981665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtagtcccatacacaaaagCggcttccatgactgctctgt	10	11	8	12	1	1	1	0	1	1	0	3	1	3	1	2	1	3	3	2	1	4	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr14:52981665C>T	uc001wzs.2	-	8	987	c.538G>A	c.(538-540)GCT>ACT	p.A180T	TXNDC16_uc010tqu.1_Missense_Mutation_p.A175T|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	180				A -> G (in Ref. 1; BAA92582).	cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					TACACAAAAGCGGCTTCCATG	0.358													95	135					0	0	0.01441	0	0		T	52981665	T	T	52981665	3	4	124	1	0	0	0	0	1	0	0	0	16821	768	27	1	1995	1	TXNDC16	14	52981665	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08		52981665	54367875	114	68885											
AKAP5	9495	broad.mit.edu	37	chr14	64935787	64935787	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcattctgctattcaaacGggaactctaatccttgaaga	12	11	9	9	1	3	2	1	1	2	1	4	3	4	3	1	2	3	2	1	2	5	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr14:64935787G>C	uc001xhd.3	+	2	1053	c.675G>C	c.(673-675)ACG>ACC	p.T225T	ZBTB25_uc001xhc.2_Intron	NM_004857	NP_004848	P24588	AKAP5_HUMAN	A-kinase anchor protein 5	225					energy reserve metabolic process|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting|regulation of insulin secretion|signal transduction|synaptic transmission	cytosol	adenylate cyclase binding|calmodulin binding				0				all cancers(60;0.00749)|OV - Ovarian serous cystadenocarcinoma(108;0.0095)|BRCA - Breast invasive adenocarcinoma(234;0.0449)		CTATTCAAACGGGAACTCTAA	0.403													38	162					0	0	0.019004	0	0		C	64935787	C	C	64935787	2	2	124	1	0	0	0	0	0	0	0	1	454	1103	39	5		5	AKAP5	14	64935787	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	11954122	64935787	42413753	115	68886											
ADCK1	57143	broad.mit.edu	37	chr14	78353526	78353526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgcatgatgggcggacGgtggccgtgaaggtccagca	7	7	18	9	3	0	2	0	2	0	0	1	3	1	3	2	5	3	3	2	5	1	0			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr14:78353526G>A	uc001xui.2	+	5	615	c.516G>A	c.(514-516)ACG>ACA	p.T172T	ADCK1_uc010tvo.1_Intron|ADCK1_uc001xuj.2_Silent_p.T104T|ADCK1_uc001xuk.1_Silent_p.T46T	NM_020421	NP_065154	Q86TW2	ADCK1_HUMAN	aarF domain containing kinase 1 isoform a	179	Protein kinase.					extracellular region	ATP binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)	3			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0376)		ATGGGCGGACGGTGGCCGTGA	0.612													7	136					0	0	0.02938	0	0		A	78353526	A	A	78353526	2	1	124	1	0	0	0	0	0	0	0	1	288	1103	39	1		1	ADCK1	14	78353526	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	13417739	78353526	28996014	116	68887											
MEIS2	4212	broad.mit.edu	37	chr15	37184392	37184392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactattgggcatgaatgtcCataacctgtccgccaacatt	11	12	7	11	1	0	1	0	1	0	0	2	1	2	1	4	1	3	1	4	1	5	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr15:37184392C>T	uc001zjr.2	-	12	2453	c.1416G>A	c.(1414-1416)ATG>ATA	p.M472I	MEIS2_uc001zjl.2_3'UTR|MEIS2_uc010ucj.1_Missense_Mutation_p.M452I|MEIS2_uc001zjm.2_3'UTR|MEIS2_uc001zjn.2_3'UTR|MEIS2_uc001zjo.2_3'UTR|MEIS2_uc001zjp.2_3'UTR|MEIS2_uc001zjs.2_Missense_Mutation_p.M465I|MEIS2_uc001zju.2_3'UTR|MEIS2_uc001zjt.2_Missense_Mutation_p.M465I|MEIS2_uc001zjj.2_Missense_Mutation_p.M168I|MEIS2_uc001zjk.2_Missense_Mutation_p.M161I	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	472					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		CATGAATGTCCATAACCTGTC	0.443													32	435					0	0	0.013726	0	0		T	37184392	T	T	37184392	3	4	124	1	0	0	0	0	1	0	0	0	9486	594	21	4	21	4	MEIS2	15	37184392	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08		37184392	65347000	117	68888											
ISL2	64843	broad.mit.edu	37	chr15	76632641	76632641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcgggccggcagcccgCgttgcgcccgcacgtgcaca	4	5	16	16	7	0	0	0	0	0	0	1	0	0	0	3	3	3	4	3	3	0	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr15:76632641C>T	uc002bbw.1	+	4	614	c.536C>T	c.(535-537)GCG>GTG	p.A179V		NM_145805	NP_665804	Q96A47	ISL2_HUMAN	ISL LIM homeobox 2	179						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CGGCAGCCCGCGTTGCGCCCG	0.716													10	14					0	0	0.006214	0	0		T	76632641	T	T	76632641	3	4	124	1	0	0	0	0	1	0	0	0	7873	768	27	1	550	1	ISL2	15	76632641	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	39448249	76632641	25898751	118	68889											
SGK269	79834	broad.mit.edu	37	chr15	77473300	77473300	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccataagagaccacagaAttttcctcataaccattcag	14	11	5	11	0	2	2	2	0	0	2	4	3	4	2	4	0	1	0	4	0	3	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr15:77473300A>G	uc002bcm.2	-	3	1277	c.969T>C	c.(967-969)AAT>AAC	p.N323N	SGK269_uc002bcn.2_Silent_p.N323N	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	323					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		AGACCACAGAATTTTCCTCAT	0.433													6	128					0	0	0.004482	0	0		G	77473300	G	G	77473300	2	3	124	1	0	0	0	0	0	0	0	1	14236	98	4	3		3	SGK269	15	77473300	Silent	SNP	A	TCGA-CG-4300-01A-01D-1158-08	840659	77473300	25058092	119	68890											
TPSG1	25823	broad.mit.edu	37	chr16	1272676	1272676	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccgcgtatagccccagcCggtcacccagcaccggatcc	7	5	9	20	4	1	0	1	0	0	0	3	1	3	1	7	2	3	2	7	2	2	2	rs137977482	byFrequency	TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr16:1272676C>T	uc002ckw.2	-	4	489	c.487G>A	c.(487-489)GGC>AGC	p.G163S		NM_012467	NP_036599	Q9NRR2	TRYG1_HUMAN	transmembrane tryptase preproprotein	163	Peptidase S1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity				0		Hepatocellular(780;0.00369)				TAGCCCCAGCCGGTCACCCAG	0.677													51	169					0	0	0.01441	0	0		T	1272676	T	T	1272676	3	4	124	1	0	0	0	0	1	0	0	0	16452	652	23	1	490	1	TPSG1	16	1272676	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08		1272676	89082077	120	68891											
TELO2	9894	broad.mit.edu	37	chr16	1549288	1549288	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagaacaagaaggcccAgtttgtgatgacccagaagc	14	6	13	8	0	0	6	0	3	0	3	0	6	0	6	2	2	2	1	2	2	5	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr16:1549288A>C	uc002cly.2	+	6	1178	c.887A>C	c.(886-888)CAG>CCG	p.Q296P	TELO2_uc010uvg.1_Missense_Mutation_p.Q296P	NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	296						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				AAGAAGGCCCAGTTTGTGATG	0.602													5	152					0	0	0.021553	0	0		C	1549288	C	C	1549288	3	2	124	1	0	0	0	0	1	0	0	0	15782	188	7	5	905	5	TELO2	16	1549288	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	276612	1549288	88805465	121	68892											
USP7	7874	broad.mit.edu	37	chr16	9017167	9017167	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcaccataatcttccaTggcagatttcgcacaaaaca	14	9	6	12	1	2	1	1	0	1	1	4	1	3	1	2	2	1	3	2	2	3	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr16:9017167T>C	uc002czl.2	-	3	487	c.288A>G	c.(286-288)CCA>CCG	p.P96P	USP7_uc010uyk.1_5'UTR|USP7_uc010uyj.1_5'UTR|USP7_uc002czk.2_Silent_p.P80P|USP7_uc010uyl.1_RNA	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	96	Interaction with p53/TP53, MDM2 and EBNA1.|MATH.|Necessary for nuclear localization.|Interaction with TSPYL5.				interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TAATCTTCCATGGCAGATTTC	0.502													102	97					0	0	0.01441	0	0		C	9017167	C	C	9017167	2	2	124	1	0	0	0	0	0	0	0	1	17114	1451	51	3		3	USP7	16	9017167	Silent	SNP	T	TCGA-CG-4300-01A-01D-1158-08	7467879	9017167	81337586	122	68893											
C16orf75	116028	broad.mit.edu	37	chr16	11444592	11444592	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacctttctgataatcccaTccatgaaagtatgtgggaac	13	11	8	9	0	1	3	0	2	1	1	3	4	3	4	3	1	1	1	3	1	4	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr16:11444592T>C	uc002daw.1	+	2	407	c.389T>C	c.(388-390)ATC>ACC	p.I130T	C16orf75_uc002daq.1_RNA	NM_152308	NP_689521	Q96E14	RMI2_HUMAN	RecQ-mediated genome instability protein 2	130					DNA replication	nucleus	DNA binding				0						GATAATCCCATCCATGAAAGT	0.448			T	CIITA	PMBL|Hodgkin Lymphona|								18	195					0	0	0.043863	0	0		C	11444592	C	C	11444592	3	2	124	1	0	0	0	0	1	0	0	0	1837	1435	50	3	395	3	C16orf75	16	11444592	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	2427425	11444592	78910161	123	68894											
ATXN2L	11273	broad.mit.edu	37	chr16	28837136	28837136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaaatggtaccacttatgagGgtatcttcaagacgctaagc	14	10	9	8	1	2	2	1	1	1	1	2	2	2	2	1	2	2	3	1	2	7	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr16:28837136G>A	uc002drc.2	+	4	607	c.439G>A	c.(439-441)GGT>AGT	p.G147S	uc010vct.1_Intron|ATXN2L_uc010byl.1_Missense_Mutation_p.G147S|ATXN2L_uc002drb.2_Missense_Mutation_p.G147S|ATXN2L_uc002dqy.2_Missense_Mutation_p.G147S|ATXN2L_uc002dra.2_Missense_Mutation_p.G147S|ATXN2L_uc002dqz.2_Missense_Mutation_p.G147S|ATXN2L_uc010vdb.1_Missense_Mutation_p.G147S|ATXN2L_uc002dre.2_Missense_Mutation_p.G147S|ATXN2L_uc002drf.2_5'UTR	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	147						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						CACTTATGAGGGTATCTTCAA	0.403													45	111					0	0	0.01441	0	0		A	28837136	A	A	28837136	3	1	124	1	0	0	0	0	1	0	0	0	1213	1232	43	4	453	4	ATXN2L	16	28837136	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	17392544	28837136	61517617	124	68895											
ATXN2L	11273	broad.mit.edu	37	chr16	28844195	28844195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaagaactgagaaagtttgGggcccagtttaaggtgagag	13	8	16	4	0	0	3	0	2	0	3	0	6	0	4	1	4	1	2	1	4	4	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr16:28844195G>A	uc002drc.2	+	13	1814	c.1646G>A	c.(1645-1647)GGG>GAG	p.G549E	uc010vct.1_Intron|ATXN2L_uc010byl.1_Missense_Mutation_p.G525E|ATXN2L_uc002drb.2_Missense_Mutation_p.G549E|ATXN2L_uc002dqy.2_Missense_Mutation_p.G549E|ATXN2L_uc002dra.2_Missense_Mutation_p.G549E|ATXN2L_uc002dqz.2_Missense_Mutation_p.G549E|ATXN2L_uc010vdb.1_Missense_Mutation_p.G555E|ATXN2L_uc002dre.2_Missense_Mutation_p.G549E|ATXN2L_uc002drf.2_Intron|ATXN2L_uc002drg.2_5'Flank	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	549						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						AGAAAGTTTGGGGCCCAGTTT	0.423													4	129					0	0	0.009096	0	0		A	28844195	A	A	28844195	3	1	124	1	0	0	0	0	1	0	0	0	1213	1232	43	4	1696	4	ATXN2L	16	28844195	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	7059	28844195	61510558	125	68896											
PRR14	78994	broad.mit.edu	37	chr16	30666245	30666245	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcgaactcaggaccacaaTaccccagcacttctccctaa	12	7	6	16	1	2	0	1	0	1	0	3	2	2	1	4	2	3	1	4	2	4	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr16:30666245T>A	uc002dyy.2	+	8	1212	c.954T>A	c.(952-954)AAT>AAA	p.N318K	PRR14_uc002dyz.2_Missense_Mutation_p.N163K|PRR14_uc002dza.2_Missense_Mutation_p.N318K|PRR14_uc002dzb.1_Missense_Mutation_p.N132K	NM_024031	NP_076936	Q9BWN1	PRR14_HUMAN	proline rich 14	318	Pro-rich.										0			Colorectal(24;0.103)			AGGACCACAATACCCCAGCAC	0.662													54	65					0	0	0.01441	0	0		A	30666245	A	A	30666245	3	1	124	1	0	0	0	0	1	0	0	0	12608	1403	49	5	980	5	PRR14	16	30666245	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	1822050	30666245	59688508	126	68897											
ADCY7	113	broad.mit.edu	37	chr16	50345962	50345962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagattgactattactgcCgcttggactgcctatggaag	9	12	11	9	1	0	2	0	1	0	1	0	4	0	4	2	2	4	2	2	2	4	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr16:50345962C>T	uc002egd.1	+	20	2732	c.2464C>T	c.(2464-2466)CGC>TGC	p.R822C		NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	822	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	CTATTACTGCCGCTTGGACTG	0.552													32	86					0	0	0.017118	0	0		T	50345962	T	T	50345962	3	4	124	1	0	0	0	0	1	0	0	0	299	652	23	1	2542	1	ADCY7	16	50345962	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	19679717	50345962	40008791	127	68898											
TP53	7157	broad.mit.edu	37	chr17	7577534	7577534	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgatgatggtgaggatgggCctccggttcatgccgcccat	6	10	15	10	2	1	3	1	3	0	0	2	4	2	4	4	4	1	1	4	4	0	1	rs28934571		TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr17:7577534C>A	uc002gim.2	-	7	941	c.747G>T	c.(745-747)AGG>AGT	p.R249S	TP53_uc002gig.1_Missense_Mutation_p.R249S|TP53_uc002gih.2_Missense_Mutation_p.R249S|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R117S|TP53_uc010cng.1_Missense_Mutation_p.R117S|TP53_uc002gii.1_Missense_Mutation_p.R117S|TP53_uc010cnh.1_Missense_Mutation_p.R249S|TP53_uc010cni.1_Missense_Mutation_p.R249S|TP53_uc002gij.2_Missense_Mutation_p.R249S|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R156S|TP53_uc002gio.2_Missense_Mutation_p.R117S	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	249	|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> W (in sporadic cancers; somatic mutation).|RP -> SA (in a sporadic cancer; somatic mutation).|RP -> SS (in sporadic cancers; somatic mutation).|R -> T (in sporadic cancers; somatic mutation).|R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> I (in a sporadic cancer; somatic mutation).|R -> M (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R249S(303)|p.R249M(25)|p.R249G(24)|p.R249W(23)|p.R249T(16)|p.R249K(14)|p.0?(7)|p.R249R(6)|p.R249fs*96(6)|p.M246_P250delMNRRP(2)|p.R249fs*14(2)|p.N247_P250delNRRP(1)|p.R249fs*19(1)|p.R249fs*15(1)|p.R249_I251delRPI(1)|p.R249_P250delRP(1)|p.R249_P250insR(1)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.R249_T256delRPILTIIT(1)|p.R249_P250>SS(1)|p.P250fs*14(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TGAGGATGGGCCTCCGGTTCA	0.572		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			34	39					6.97489e-18	7.92601e-18	0.021022	1	0		A	7577534	A	A	7577534	3	1	124	1	0	0	0	0	1	0	0	0	16407	738	26	5	543	5	TP53	17	7577534	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08		7577534	73617676	128	68899											
WDR16	146845	broad.mit.edu	37	chr17	9503482	9503482	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgacagatgttgggcctgcGaaggacaaattcagtttggt	10	11	13	7	1	1	2	1	1	0	1	1	4	1	3	1	3	1	2	1	3	2	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr17:9503482G>A	uc002gly.2	+	6	804	c.735G>A	c.(733-735)GCG>GCA	p.A245A	WDR16_uc002glz.2_Silent_p.A177A|WDR16_uc010coc.2_Silent_p.A255A	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	245						cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						TTGGGCCTGCGAAGGACAAAT	0.423													78	175					0	0	0.01441	0	0		A	9503482	A	A	9503482	2	1	124	1	0	0	0	0	0	0	0	1	17302	1045	37	1		1	WDR16	17	9503482	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	1925948	9503482	71691728	129	68900											
FAM83G	644815	broad.mit.edu	37	chr17	18907189	18907189	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctccgagaggaagtctcGgatgttctcccgcttgagca	8	9	12	12	3	2	2	0	1	2	1	5	5	3	4	2	2	2	4	2	2	1	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr17:18907189G>A	uc002guw.2	-	2	333	c.166C>T	c.(166-168)CGA>TGA	p.R56*	SLC5A10_uc002gur.1_Intron|SLC5A10_uc002guu.1_Intron|SLC5A10_uc002gut.1_Intron|SLC5A10_uc002guv.1_Intron|SLC5A10_uc010vyl.1_Intron	NM_001039999	NP_001035088	A6ND36	FA83G_HUMAN	hypothetical protein LOC644815	56										ovary(1)|central_nervous_system(1)	2						AGGAAGTCTCGGATGTTCTCC	0.677													27	42					0	0	0.034045	0	0		A	18907189	A	A	18907189	4	1	124	1	0	0	0	0	0	1	0	0	5653	1124	39	1	2325	1	FAM83G	17	18907189	Nonsense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	9403707	18907189	62288021	130	68901											
LASP1	3927	broad.mit.edu	37	chr17	37075007	37075007	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgacacggggatgctgccGgccaactacgtggaggccat	8	5	16	12	4	0	0	0	0	0	0	0	3	0	2	3	6	4	1	3	6	2	1	rs140055048		TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr17:37075007G>A	uc002hra.2	+	7	1093	c.762G>A	c.(760-762)CCG>CCA	p.P254P	LASP1_uc010cvq.2_Missense_Mutation_p.R132Q|LASP1_uc010wdz.1_Silent_p.P198P	NM_006148	NP_006139	Q14847	LASP1_HUMAN	LIM and SH3 protein 1	254	SH3.					cortical actin cytoskeleton	ion transmembrane transporter activity|SH3/SH2 adaptor activity|zinc ion binding			lung(1)	1						GGATGCTGCCGGCCAACTACG	0.642			T	MLL	AML								9	349					0	0	0.008291	0	0		A	37075007	A	A	37075007	2	1	124	1	0	0	0	0	0	0	0	1	8653	1103	39	1		1	LASP1	17	37075007	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	18167818	37075007	44120203	131	68902											
MED1	5469	broad.mit.edu	37	chr17	37565409	37565409	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttagaagaactatgagatGgagactttccctcagtgtct	11	13	10	7	0	2	4	1	1	1	4	3	6	3	4	1	1	1	1	1	1	4	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr17:37565409G>T	uc002hrv.3	-	17	3277	c.3065C>A	c.(3064-3066)CCA>CAA	p.P1022Q	MED1_uc010wee.1_Missense_Mutation_p.P850Q|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1022	Interaction with ESR1.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		ACTATGAGATGGAGACTTTCC	0.507										HNSCC(31;0.082)			15	910					4.96729e-08	5.47863e-08	0.008871	1	0		T	37565409	T	T	37565409	3	4	124	1	0	0	0	0	1	0	0	0	9443	1348	47	5	1684	5	MED1	17	37565409	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	490402	37565409	43629801	132	68903											
KRTAP4-1	85285	broad.mit.edu	37	chr17	39340975	39340975	+	Nonsense_Mutation	SNP	G	T	T																															tgagagcaggatgggcggcaGcagctggatacaacacagct																										TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr17:39340975G>T	uc002hwe.3	-	1	173	c.132C>A	c.(130-132)TGC>TGA	p.C44*	KRTAP4-1_uc010cxm.1_RNA	NM_033060	NP_149049	Q9BYQ7	KRA41_HUMAN	keratin associated protein 4-1	44	18 X 5 AA repeats of C-C-[GRQC]-[SPT]- [VSTL].|5.					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			ATGGGCGGCAGCAGCTGGATA	0.642													43	475					2.61675e-31	3.0349e-31	0.045515	1	0		T	39340975	T	T	39340975	4	4	124	1	0	0	0	0	0	1	0	0	8564	963	34	5	259	5	KRTAP4-1	17	39340975	Nonsense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	1775566	39340975	41854235	133	68904	128	2									
KRTAP4-1	85285	broad.mit.edu	37	chr17	39340982	39340982	+	Missense_Mutation	SNP	G	T	T																															aggatgggcggcagcagctgGatacaacacagctggggcag																										TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr17:39340982G>T	uc002hwe.3	-	1	166	c.125C>A	c.(124-126)TCC>TAC	p.S42Y	KRTAP4-1_uc010cxm.1_RNA	NM_033060	NP_149049	Q9BYQ7	KRA41_HUMAN	keratin associated protein 4-1	42	18 X 5 AA repeats of C-C-[GRQC]-[SPT]- [VSTL].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			GCAGCAGCTGGATACAACACA	0.637													40	455					2.22293e-35	2.5915e-35	0.01441	1	0		T	39340982	T	T	39340982	3	4	124	1	0	0	0	0	1	0	0	0	8564	1174	41	5	266	5	KRTAP4-1	17	39340982	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	7	39340982	41854228	134	68905	128	2									
KRT38	8687	broad.mit.edu	37	chr17	39597030	39597030	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcggttggcatgtgccacGttggccaaaaggcacatggg	9	8	14	10	2	0	0	0	0	0	0	1	0	0	0	2	5	1	4	2	5	2	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr17:39597030G>A	uc002hwq.1	-	1	567	c.144C>T	c.(142-144)AAC>AAT	p.N48N		NM_006771	NP_006762	O76015	KRT38_HUMAN	keratin 38	48	Head.					intermediate filament	structural molecule activity			skin(2)	2		Breast(137;0.000496)				CATGTGCCACGTTGGCCAAAA	0.632													25	905					0	0	0.01892	0	0		A	39597030	A	A	39597030	2	1	124	1	0	0	0	0	0	0	0	1	8491	1136	40	1		1	KRT38	17	39597030	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	256048	39597030	41598180	135	68906											
KRT13	3860	broad.mit.edu	37	chr17	39659306	39659306	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggggtggcatccatctcCacgttgacctggccgaccac	6	8	11	16	2	1	1	0	1	1	0	3	2	2	1	6	4	0	2	6	4	0	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr17:39659306C>T	uc002hwu.1	-	4	843	c.780G>A	c.(778-780)GTG>GTA	p.V260V	KRT13_uc002hwv.1_Silent_p.V260V|KRT13_uc002hww.2_Silent_p.V153V|KRT13_uc010wfr.1_Silent_p.V153V|KRT13_uc010cxo.2_Silent_p.V260V|KRT13_uc002hwx.1_Silent_p.V248V	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	260	Linker 12.|Rod.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				CATCCATCTCCACGTTGACCT	0.592													55	880					0	0	0.01441	0	0		T	39659306	T	T	39659306	2	4	124	1	0	0	0	0	0	0	0	1	8466	581	21	4		4	KRT13	17	39659306	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08	62276	39659306	41535904	136	68907											
CDC27	996	broad.mit.edu	37	chr17	45234322	45234322	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctggtcctcctaataaacTtcgaccagtttttggtttat	8	17	7	9	1	0	0	0	0	0	0	3	1	2	0	3	2	2	3	3	2	4	7			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr17:45234322T>G	uc002ild.3	-	7	926	c.799A>C	c.(799-801)AGT>CGT	p.S267R	CDC27_uc002ile.3_Missense_Mutation_p.S267R|CDC27_uc002ilf.3_Missense_Mutation_p.S267R|CDC27_uc010wkp.1_Missense_Mutation_p.S206R|CDC27_uc010wkq.1_RNA	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2	267					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5						CCTAATAAACTTCGACCAGTT	0.358													5	176					0	0	0.02938	0	0		G	45234322	G	G	45234322	3	3	124	1	0	0	0	0	1	0	0	0	3069	1609	56	5	1745	5	CDC27	17	45234322	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	5575016	45234322	35960888	137	68908											
KIAA0195	9772	broad.mit.edu	37	chr17	73491700	73491700	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgcccctgctagtgcccCttttcaccgactgcacccca	6	9	7	19	2	1	0	1	0	0	0	1	1	1	0	7	0	4	2	7	0	1	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr17:73491700C>A	uc002jnz.3	+	22	3195	c.2920C>A	c.(2920-2922)CTT>ATT	p.L974I	KIAA0195_uc010wsa.1_Missense_Mutation_p.L984I|KIAA0195_uc010wsb.1_Missense_Mutation_p.L614I|KIAA0195_uc002job.3_5'UTR	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	974					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCTAGTGCCCCTTTTCACCGA	0.642													6	327					8.12818e-05	8.6675e-05	0.02938	1	0		A	73491700	A	A	73491700	3	1	124	1	0	0	0	0	1	0	0	0	8176	681	24	5	3002	5	KIAA0195	17	73491700	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	28257378	73491700	7703510	138	68909											
C18orf8	29919	broad.mit.edu	37	chr18	21098916	21098916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctccaacagcacaggagCggaggtggtcctctatcatc	10	7	11	13	1	2	0	1	0	1	0	5	3	4	2	3	4	3	1	3	4	2	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr18:21098916C>T	uc010xax.1	+	8	837	c.716C>T	c.(715-717)GCG>GTG	p.A239V	C18orf8_uc010xau.1_Missense_Mutation_p.A82V|C18orf8_uc010xav.1_Missense_Mutation_p.A191V|C18orf8_uc010xaw.1_Missense_Mutation_p.A82V|C18orf8_uc002kul.2_RNA	NM_013326	NP_037458	Q96DM3	MIC1_HUMAN	colon cancer-associated protein Mic1	239										ovary(1)	1	all_cancers(21;0.000122)|all_epithelial(16;8.08e-07)|Lung NSC(20;0.00206)|all_lung(20;0.00659)|Colorectal(14;0.0202)|Ovarian(20;0.127)					AGCACAGGAGCGGAGGTGGTC	0.438													18	128					0	0	0.010504	0	0		T	21098916	T	T	21098916	3	4	124	1	0	0	0	0	1	0	0	0	1910	768	27	1	746	1	C18orf8	18	21098916	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08		21098916	56978332	139	68910											
POLRMT	5442	broad.mit.edu	37	chr19	621655	621655	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaggtttccagcagctcCtggtgctgcgtggcgccttc	3	10	15	13	2	0	0	0	0	0	0	3	0	2	0	3	4	4	5	3	4	0	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr19:621655C>T	uc002lpf.1	-	10	2099	c.2043G>A	c.(2041-2043)CAG>CAA	p.Q681Q		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	681					transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGCAGCTCCTGGTGCTGCG	0.697													4	12					0	0	0.009096	0	0		T	621655	T	T	621655	2	4	124	1	0	0	0	0	0	0	0	1	12257	680	24	4		4	POLRMT	19	621655	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08		621655	58507328	140	68911											
CHAF1A	10036	broad.mit.edu	37	chr19	4433127	4433127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggagcaaggtcatcatccGggagttccaggagcactgcc	9	6	14	12	2	2	0	2	0	0	0	4	3	4	3	3	4	3	3	3	4	1	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr19:4433127G>A	uc002mal.2	+	13	2364	c.2264G>A	c.(2263-2265)CGG>CAG	p.R755Q		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	755	Binds to p60.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		GTCATCATCCGGGAGTTCCAG	0.682								Chromatin_Structure					4	39					0	0	0.014758	0	0		A	4433127	A	A	4433127	3	1	124	1	0	0	0	0	1	0	0	0	3314	1116	39	1	2314	1	CHAF1A	19	4433127	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	3811472	4433127	54695856	141	68912											
KEAP1	9817	broad.mit.edu	37	chr19	10610425	10610425	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaggccagcaccaccttgtgGgccatgaactgggcggccgg	7	5	16	13	2	0	1	0	1	0	0	0	2	0	1	5	5	2	1	5	5	1	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr19:10610425G>T	uc002moq.1	-	2	441	c.285C>A	c.(283-285)GCC>GCA	p.A95A	KEAP1_uc002mor.1_Silent_p.A95A	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	95	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CCACCTTGTGGGCCATGAACT	0.612													17	52					7.07596e-05	7.58139e-05	0.038395	1	0		T	10610425	T	T	10610425	2	4	124	1	0	0	0	0	0	0	0	1	8157	1219	43	5		5	KEAP1	19	10610425	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	6177298	10610425	48518558	142	68913											
C19orf39	126074	broad.mit.edu	37	chr19	11485533	11485533	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagggccaaggcccagtcctCttcctgacacgaaggcctct	8	7	11	15	1	2	1	0	1	2	0	4	3	4	1	5	3	0	0	5	3	2	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr19:11485533C>T	uc002mrg.1	+	1	151	c.114C>T	c.(112-114)CTC>CTT	p.L38L		NM_175871	NP_787067	Q6NVH7	CS039_HUMAN	hypothetical protein LOC126074	38											0						GCCCAGTCCTCTTCCTGACAC	0.632													7	163					0	0	0.004482	0	0		T	11485533	T	T	11485533	2	4	124	1	0	0	0	0	0	0	0	1	1925	900	32	4		4	C19orf39	19	11485533	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08	875108	11485533	47643450	143	68914											
ELL	8178	broad.mit.edu	37	chr19	18555639	18555639	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccagcttgctgtgcaggtActcgcagcggtgcttctcct	4	11	13	13	2	1	0	0	0	1	0	3	0	1	0	2	3	6	6	2	3	1	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr19:18555639A>G	uc002njh.2	-	12	1861	c.1789T>C	c.(1789-1791)TAC>CAC	p.Y597H	ELL_uc010ebq.2_Missense_Mutation_p.Y540H|ELL_uc002njg.2_Missense_Mutation_p.Y464H	NM_006532	NP_006523	P55199	ELL_HUMAN	elongation factor RNA polymerase II	597					positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	Cajal body|nuclear speck|transcription elongation factor complex	protein binding			lung(1)	1				GBM - Glioblastoma multiforme(1328;7.81e-07)		CTGTGCAGGTACTCGCAGCGG	0.642			T	MLL	AL								26	108					0	0	0.034045	0	0		G	18555639	G	G	18555639	3	3	124	1	0	0	0	0	1	0	0	0	5070	391	14	3	80	3	ELL	19	18555639	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	7070106	18555639	40573344	144	68915											
ZNF611	81856	broad.mit.edu	37	chr19	53209605	53209605	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attaaaggctttgccactctTattacattggaaagattttt	12	17	6	6	0	1	1	0	0	1	1	1	2	1	2	1	2	2	1	1	2	5	7	rs3859456		TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr19:53209605T>C	uc002pzz.2	-	7	1020	c.703A>G	c.(703-705)AAG>GAG	p.K235E	ZNF611_uc010eqc.2_Missense_Mutation_p.K165E|ZNF611_uc010ydo.1_Missense_Mutation_p.K165E|ZNF611_uc010ydr.1_Missense_Mutation_p.K166E|ZNF611_uc010ydp.1_Missense_Mutation_p.K235E|ZNF611_uc010ydq.1_Missense_Mutation_p.K235E|ZNF611_uc002qaa.3_Missense_Mutation_p.K165E	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	235	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		TTGCCACTCTTATTACATTGG	0.363													16	239					0	0	0.0333	0	0		C	53209605	C	C	53209605	3	2	124	1	0	0	0	0	1	0	0	0	18062	1763	61	3	1418	3	ZNF611	19	53209605	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	34653966	53209605	5919378	145	68916											
ZNF611	81856	broad.mit.edu	37	chr19	53209635	53209635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaagatttttctctcatgtGtacttcctgtttttgtggga	7	19	9	6	0	2	1	1	0	1	1	4	3	3	2	1	1	1	2	1	1	2	6			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr19:53209635G>A	uc002pzz.2	-	7	990	c.673C>T	c.(673-675)CAC>TAC	p.H225Y	ZNF611_uc010eqc.2_Missense_Mutation_p.H155Y|ZNF611_uc010ydo.1_Missense_Mutation_p.H155Y|ZNF611_uc010ydr.1_Missense_Mutation_p.H156Y|ZNF611_uc010ydp.1_Missense_Mutation_p.H225Y|ZNF611_uc010ydq.1_Missense_Mutation_p.H225Y|ZNF611_uc002qaa.3_Missense_Mutation_p.H155Y	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	225					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		TCTCTCATGTGTACTTCCTGT	0.378													14	238					0	0	0.028581	0	0		A	53209635	A	A	53209635	3	1	124	1	0	0	0	0	1	0	0	0	18062	1377	48	4	1448	4	ZNF611	19	53209635	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	30	53209635	5919348	146	68917											
ZNF761	388561	broad.mit.edu	37	chr19	53958797	53958797	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatccttacacgccatcatCgacttcatactggagagaaa	14	9	6	12	2	2	1	2	0	0	1	4	4	3	2	2	1	2	0	2	1	4	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr19:53958797C>T	uc010eqp.2	+	7	1494	c.1036C>T	c.(1036-1038)CGA>TGA	p.R346*	ZNF761_uc010ydy.1_Nonsense_Mutation_p.R292*|ZNF761_uc002qbt.1_Nonsense_Mutation_p.R292*	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	346	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		ACGCCATCATCGACTTCATAC	0.403													17	282					0	0	0.038395	0	0		T	53958797	T	T	53958797	4	4	124	1	0	0	0	0	0	1	0	0	18161	876	31	1	1047	1	ZNF761	19	53958797	Nonsense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	749162	53958797	5170186	147	68918											
LAIR2	3904	broad.mit.edu	37	chr19	55019214	55019214	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggttcaaacattccgccTggagagggaggatagagcca	11	7	15	8	1	1	2	1	0	0	2	2	5	2	4	3	5	2	1	3	5	2	3			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr19:55019214T>G	uc002qgc.2	+	3	301	c.179T>G	c.(178-180)CTG>CGG	p.L60R	LAIR2_uc002qga.1_RNA|LAIR2_uc002qgb.1_RNA|LAIR2_uc002qgd.2_Missense_Mutation_p.L60R|LAIR2_uc010erl.2_Missense_Mutation_p.L60R	NM_002288	NP_002279	Q6ISS4	LAIR2_HUMAN	leukocyte-associated immunoglobulin-like	60	Ig-like C2-type.					extracellular region	receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0967)		ACATTCCGCCTGGAGAGGGAG	0.537													7	174					0	0	0.02938	0	0		G	55019214	G	G	55019214	3	3	124	1	0	0	0	0	1	0	0	0	8619	1580	55	5	189	5	LAIR2	19	55019214	Missense_Mutation	SNP	T	TCGA-CG-4300-01A-01D-1158-08	1060417	55019214	4109769	148	68919											
ZIK1	284307	broad.mit.edu	37	chr19	58101605	58101605	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagcatcacagtgcaaaGaaatccttgaagagggacat	17	6	10	8	0	1	4	1	1	0	3	2	5	2	5	1	1	2	2	1	1	4	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr19:58101605G>T	uc002qpg.2	+	4	523	c.426G>T	c.(424-426)AAG>AAT	p.K142N	ZNF547_uc002qpm.3_Intron|ZIK1_uc002qph.2_Missense_Mutation_p.K87N|ZIK1_uc002qpi.2_Missense_Mutation_p.K129N|ZIK1_uc002qpj.2_Missense_Mutation_p.K39N	NM_001010879	NP_001010879	Q3SY52	ZIK1_HUMAN	zinc finger protein interacting with K protein	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		ACAGTGCAAAGAAATCCTTGA	0.458													5	110					1.23904e-05	1.34031e-05	0.014758	1	0		T	58101605	T	T	58101605	3	4	124	1	0	0	0	0	1	0	0	0	17708	933	33	5	440	5	ZIK1	19	58101605	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	3082391	58101605	1027378	149	68920											
SNPH	9751	broad.mit.edu	37	chr20	1281207	1281207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgggcgtccccttgcaggCgctccatgaaatacacgctg	8	8	12	13	3	0	1	0	1	0	0	2	2	2	1	3	2	2	3	3	2	2	2	rs139099290		TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr20:1281207C>T	uc002wes.2	+	5	396	c.160C>T	c.(160-162)CGC>TGC	p.R54C	SNPH_uc002wet.2_Missense_Mutation_p.R98C	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	54					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						CCCTTGCAGGCGCTCCATGAA	0.622													13	69					0	0	0.024245	0	0		T	1281207	T	T	1281207	3	4	124	1	0	0	0	0	1	0	0	0	14875	782	27	1	170	1	SNPH	20	1281207	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08		1281207	61744313	150	68921											
TMC2	117532	broad.mit.edu	37	chr20	2592836	2592836	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctccatcttctgttctaGcttgctaatgaagagacaat	11	13	6	11	0	3	2	0	1	3	1	4	3	4	2	2	0	2	3	2	0	4	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr20:2592836G>A	uc002wgf.1	+	13	1609	c.1594_splice	c.e13-1	p.L532_splice	TMC2_uc002wgg.1_Splice_Site_p.L516_splice|TMC2_uc010zpw.1_Splice_Site_p.L364_splice|TMC2_uc010zpx.1_Splice_Site_p.L363_splice	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2							integral to membrane				ovary(3)	3						TTCTGTTCTAGCTTGCTAATG	0.478													17	493					0	0	0.028581	0	0		A	2592836	A	A	2592836	5	1	124	1	0	0	0	0	0	0	1	0	16010	985	34	2	1643	2	TMC2	20	2592836	Splice_Site	SNP	G	TCGA-CG-4300-01A-01D-1158-08	1311629	2592836	60432684	151	68922											
HCK	3055	broad.mit.edu	37	chr20	30686829	30686829	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gccaagttccccatcaagtgGacagctcctgaagccatcaa	12	7	8	14	0	2	1	2	1	0	0	4	2	4	2	5	1	2	2	5	1	4	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr20:30686829G>A	uc002wxh.2	+	12	1440	c.1269G>A	c.(1267-1269)TGG>TGA	p.W423*	HCK_uc010gdy.2_Nonsense_Mutation_p.W402*|HCK_uc002wxi.2_Nonsense_Mutation_p.W401*	NM_002110	NP_002101	P08631	HCK_HUMAN	hemopoietic cell kinase isoform p61HCK	423	Protein kinase.				interspecies interaction between organisms|mesoderm development|regulation of defense response to virus by virus|viral reproduction	caveola|cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|ovary(2)|central_nervous_system(2)|pancreas(1)	9			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CCATCAAGTGGACAGCTCCTG	0.577													18	421					0	0	0.014323	0	0		A	30686829	A	A	30686829	4	1	124	1	0	0	0	0	0	1	0	0	7010	1183	41	4	1321	4	HCK	20	30686829	Nonsense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	28093993	30686829	32338691	152	68923											
RBL1	5933	broad.mit.edu	37	chr20	35690621	35690621	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcccaaaaagatcctctcatCaaaatcaccaacagttagaa	18	8	3	12	0	3	2	3	0	1	2	6	2	5	2	3	0	1	1	3	0	7	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr20:35690621C>G	uc002xgi.2	-	8	1028	c.949G>C	c.(949-951)GAT>CAT	p.D317H	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.D317H|RBL1_uc010gfv.1_RNA	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	317					cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				ATCCTCTCATCAAAATCACCA	0.403													5	206					0	0	0.02938	0	0		G	35690621	G	G	35690621	3	3	124	1	0	0	0	0	1	0	0	0	13134	826	29	5	2326	5	RBL1	20	35690621	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08	5003792	35690621	27334899	153	68924											
CHD6	84181	broad.mit.edu	37	chr20	40045389	40045389	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagggccacttcccctttaAcaccacgtggcagatattat	11	10	8	12	1	0	2	0	0	0	2	1	2	1	2	4	2	1	1	4	2	3	5			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr20:40045389A>C	uc002xka.1	-	33	6503	c.6325T>G	c.(6325-6327)TTA>GTA	p.L2109V	CHD6_uc002xjz.1_5'Flank	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2109					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TTCCCCTTTAACACCACGTGG	0.488													17	66					0	0	0.038395	0	0		C	40045389	C	C	40045389	3	2	124	1	0	0	0	0	1	0	0	0	3332	40	2	5	1842	5	CHD6	20	40045389	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	4354768	40045389	22980131	154	68925											
KCNQ2	3785	broad.mit.edu	37	chr20	62038567	62038567	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatcttgacaatgcagccGtgcctgtcgacatgctcccg	8	9	10	14	4	1	1	0	1	1	0	3	3	2	1	3	0	4	2	3	0	1	1	rs150982653		TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr20:62038567G>A	uc002yey.1	-	17	2226	c.2049C>T	c.(2047-2049)CAC>CAT	p.H683H	KCNQ2_uc002yez.1_Silent_p.H652H|KCNQ2_uc002yfa.1_Silent_p.H665H|KCNQ2_uc002yfb.1_Silent_p.H655H	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	683	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	CAATGCAGCCGTGCCTGTCGA	0.582													7	22					0	0	0.008291	0	0		A	62038567	A	A	62038567	2	1	124	1	0	0	0	0	0	0	0	1	8099	1136	40	1		1	KCNQ2	20	62038567	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	21993178	62038567	986953	155	68926											
PRPF6	24148	broad.mit.edu	37	chr20	62641640	62641640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctagaatcatgctgagccGagctgtggagtgctgcccca	8	9	13	11	1	1	2	1	1	0	1	1	4	1	3	3	1	6	4	3	1	2	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr20:62641640G>A	uc002yho.2	+	10	1442	c.1274G>A	c.(1273-1275)CGA>CAA	p.R425Q	PRPF6_uc002yhp.2_Missense_Mutation_p.R425Q	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	425	HAT 2.				assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					ATGCTGAGCCGAGCTGTGGAG	0.592													6	233					0	0	0.021553	0	0		A	62641640	A	A	62641640	3	1	124	1	0	0	0	0	1	0	0	0	12596	1058	37	1	1312	1	PRPF6	20	62641640	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	603073	62641640	383880	156	68927											
RBM11	54033	broad.mit.edu	37	chr21	15599341	15599341	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agctcatataaatggactcaCcaacaaccaagtgactctga	16	8	6	11	0	3	2	2	2	1	0	3	3	3	3	2	1	3	1	2	1	6	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr21:15599341C>A	uc002yjo.3	+	5	615	c.573C>A	c.(571-573)CAC>CAA	p.H191Q	RBM11_uc002yjn.3_Missense_Mutation_p.H77Q|RBM11_uc002yjp.3_Missense_Mutation_p.H77Q	NM_144770	NP_658983	P57052	RBM11_HUMAN	RNA binding motif protein 11	191							nucleotide binding|RNA binding				0				Epithelial(23;0.000314)|COAD - Colon adenocarcinoma(22;0.00242)|Colorectal(24;0.0129)|Lung(58;0.141)		AATGGACTCACCAACAACCAA	0.458													117	399					5.48058e-68	6.49016e-68	0.01441	1	0		A	15599341	A	A	15599341	3	1	124	1	0	0	0	0	1	0	0	0	13137	506	18	5	591	5	RBM11	21	15599341	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08		15599341	32530554	157	68928											
PRDM15	63977	broad.mit.edu	37	chr21	43277345	43277345	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctggactcaaagggaccGaactgtgtccgcttgacgag	9	8	12	12	3	1	1	1	1	0	0	3	5	3	3	3	2	1	1	3	2	2	1	rs112850683		TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr21:43277345G>A	uc002yzq.1	-	11	1434	c.1323C>T	c.(1321-1323)TTC>TTT	p.F441F	PRDM15_uc002yzo.2_Silent_p.F112F|PRDM15_uc002yzp.2_Silent_p.F112F|PRDM15_uc002yzr.1_Silent_p.F112F	NM_022115	NP_071398	P57071	PRD15_HUMAN	PR domain containing 15 isoform 1	441	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CAAAGGGACCGAACTGTGTCC	0.552													7	129					0	0	0.038147	0	0		A	43277345	A	A	43277345	2	1	124	1	0	0	0	0	0	0	0	1	12478	1049	37	1		1	PRDM15	21	43277345	Silent	SNP	G	TCGA-CG-4300-01A-01D-1158-08	27678004	43277345	4852550	158	68929											
ATP6V1E1	529	broad.mit.edu	37	chr22	18082836	18082836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgcaacgaacaatcattCggggctccagcaactggtac	11	8	9	13	2	1	0	1	0	0	0	4	1	3	0	2	3	6	4	2	3	5	2	rs144829775	by1000genomes	TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr22:18082836C>T	uc002zmr.1	-	6	579	c.392G>A	c.(391-393)CGA>CAA	p.R131Q	ATP6V1E1_uc002zms.1_Missense_Mutation_p.R101Q|ATP6V1E1_uc002zmt.1_Missense_Mutation_p.R109Q	NM_001696	NP_001687	P36543	VATE1_HUMAN	vacuolar H+ ATPase E1 isoform a	131					cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	apical plasma membrane|cytosol|endosome|proton-transporting two-sector ATPase complex, catalytic domain	protein binding|proton-transporting ATPase activity, rotational mechanism			large_intestine(1)|central_nervous_system(1)	2		all_epithelial(15;0.206)		Lung(27;0.19)		AACAATCATTCGGGGCTCCAG	0.269													5	91					0	0	0.014758	0	0		T	18082836	T	T	18082836	3	4	124	1	0	0	0	0	1	0	0	0	1184	884	31	1	304	1	ATP6V1E1	22	18082836	Missense_Mutation	SNP	C	TCGA-CG-4300-01A-01D-1158-08		18082836	33221730	159	68930											
H1F0	3005	broad.mit.edu	37	chr22	38201900	38201900	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaagaaggaaatcaagaagGtagccacgccaaagaaggca	19	2	11	9	1	1	3	1	0	0	3	1	4	1	4	3	3	1	2	3	3	8	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr22:38201900G>T	uc003aty.2	+	1	787	c.349G>T	c.(349-351)GTA>TTA	p.V117L	GCAT_uc003atz.2_5'Flank|GCAT_uc003aua.1_5'Flank	NM_005318	NP_005309	P07305	H10_HUMAN	H1 histone family, member 0	117					DNA fragmentation involved in apoptotic nuclear change|nucleosome assembly	actin cytoskeleton|Golgi apparatus|nucleoplasm|nucleosome	DNA binding				0	Melanoma(58;0.045)					AATCAAGAAGGTAGCCACGCC	0.567													44	105					1.86633e-21	2.14247e-21	0.01441	1	0		T	38201900	T	T	38201900	3	4	124	1	0	0	0	0	1	0	0	0	6936	1261	44	5	351	5	H1F0	22	38201900	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	20119064	38201900	13102666	160	68931											
RPL3	6122	broad.mit.edu	37	chr22	39714449	39714449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgatgtgagtcatgccaGccttgtatcccaggaaggct	9	9	12	11	1	1	1	1	1	0	0	2	3	2	2	3	2	2	3	3	2	2	2	rs11547980		TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr22:39714449G>A	uc003axi.2	-	2	220	c.152C>T	c.(151-153)GCT>GTT	p.A51V	RPL3_uc003axh.2_Missense_Mutation_p.A51V|RPL3_uc003axj.2_5'UTR|RPL3_uc011aoj.1_Missense_Mutation_p.A51V|RPL3_uc010gxx.2_5'UTR|RPL3_uc003axg.2_5'UTR|RPL3_uc003axk.1_5'UTR	NM_000967	NP_000958	P39023	RL3_HUMAN	ribosomal protein L3 isoform a	51					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome			breast(1)|kidney(1)	2	Melanoma(58;0.04)					AGTCATGCCAGCCTTGTATCC	0.577													40	50					0	0	0.01441	0	0		A	39714449	A	A	39714449	3	1	124	1	0	0	0	0	1	0	0	0	13604	971	34	2	1095	2	RPL3	22	39714449	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	1512549	39714449	11590117	161	68932											
SBF1	6305	broad.mit.edu	37	chr22	50904409	50904409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgctcagcacactgtgcGtctgactctgcagtggctct	6	11	10	14	1	4	1	1	1	3	0	4	1	4	1	1	1	4	4	1	1	0	0			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chr22:50904409G>A	uc003blh.2	-	9	1187	c.992C>T	c.(991-993)ACG>ATG	p.T331M	SBF1_uc011arx.1_Translation_Start_Site|SBF1_uc003bli.2_Missense_Mutation_p.T332M	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	331					protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		CACACTGTGCGTCTGACTCTG	0.617													61	82					0	0	0.01441	0	0		A	50904409	A	A	50904409	3	1	124	1	0	0	0	0	1	0	0	0	13883	1145	40	1	4821	1	SBF1	22	50904409	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	11189960	50904409	400157	162	68933											
ASMT	438	broad.mit.edu	37	chrX	1748789	1748789	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgggagaagcgtgctgacCgcctttgacctgtcagtgtt	8	10	13	10	3	1	3	1	2	0	1	1	4	1	3	3	1	3	2	3	1	2	2			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chrX:1748789C>T	uc004cqd.2	+	6	664	c.519C>T	c.(517-519)ACC>ACT	p.T173T	ASMT_uc010ncy.2_Silent_p.T173T|ASMT_uc004cqe.2_Silent_p.T173T	NM_004043	NP_004034	P46597	HIOM_HUMAN	acetylserotonin O-methyltransferase	173					melatonin biosynthetic process|translation	cytosol	acetylserotonin O-methyltransferase activity|S-methyltransferase activity			skin(1)	1		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCGTGCTGACCGCCTTTGACC	0.557													97	78					0	0	0.01441	0	0		T	1748789	T	T	1748789	2	4	124	1	0	0	0	0	0	0	0	1	1046	639	23	1		1	ASMT	23	1748789	Silent	SNP	C	TCGA-CG-4300-01A-01D-1158-08		1748789	153521771	163	68934											
CD40LG	959	broad.mit.edu	37	chrX	135730447	135730447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaacttctccccgatctgcgGccactggactgcccatcagc	8	8	8	17	2	3	0	1	0	2	0	4	2	3	1	4	2	4	0	4	2	1	1			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chrX:135730447G>A	uc004faa.2	+	1	112	c.40G>A	c.(40-42)GCC>ACC	p.A14T	CD40LG_uc010nsd.2_Missense_Mutation_p.A14T|CD40LG_uc010nse.1_5'Flank	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	14	Cytoplasmic (Potential).				anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	CCGATCTGCGGCCACTGGACT	0.428									Immune_Deficiency_with_Hyper-IgM				5	168					0	0	0.021553	0	0		A	135730447	A	A	135730447	3	1	124	1	0	0	0	0	1	0	0	0	3019	1203	42	2	42	2	CD40LG	23	135730447	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	133981658	135730447	19540113	164	68935											
ARHGEF6	9459	broad.mit.edu	37	chrX	135770113	135770113	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagagttttgaatgctacgAttgctttcagaatatcctga	11	15	9	6	1	1	4	1	3	0	2	2	6	2	4	1	0	3	3	1	0	4	6			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chrX:135770113A>C	uc004fab.2	-	11	1685	c.1223T>G	c.(1222-1224)ATC>AGC	p.I408S	ARHGEF6_uc011mwd.1_Missense_Mutation_p.I281S|ARHGEF6_uc011mwe.1_Missense_Mutation_p.I254S	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	408	DH.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					GAATGCTACGATTGCTTTCAG	0.259													24	111					0	0	0.01892	0	0		C	135770113	C	C	135770113	3	2	124	1	0	0	0	0	1	0	0	0	910	333	12	5	1155	5	ARHGEF6	23	135770113	Missense_Mutation	SNP	A	TCGA-CG-4300-01A-01D-1158-08	39666	135770113	19500447	165	68936											
MAGEA4	4103	broad.mit.edu	37	chrX	151092504	151092504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttggctcattttctgctccGcaagtatcgagccaaggagc	8	11	11	11	2	2	0	1	0	1	0	4	2	3	1	2	2	3	5	2	2	3	4			TCGA-CG-4300-01A-01D-1158-08	TCGA-CG-4300-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	a8dfc292-64ca-4ad1-a80f-501cfe1087bf	01d85075-d33d-4289-bd05-a1f44d07bf3a	g.chrX:151092504G>A	uc004fez.2	+	3	524	c.368G>A	c.(367-369)CGC>CAC	p.R123H	MAGEA4_uc004ffa.2_Missense_Mutation_p.R123H|MAGEA4_uc004ffb.2_Missense_Mutation_p.R123H|MAGEA4_uc004ffc.2_Missense_Mutation_p.R123H|MAGEA4_uc004ffd.2_Missense_Mutation_p.R123H	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	123	MAGE.						protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TTTCTGCTCCGCAAGTATCGA	0.522													95	35					0	0	0.01441	0	0		A	151092504	A	A	151092504	3	1	124	1	0	0	0	0	1	0	0	0	9186	1087	38	1	370	1	MAGEA4	23	151092504	Missense_Mutation	SNP	G	TCGA-CG-4300-01A-01D-1158-08	15322391	151092504	4178056	166	68937											
SNIP1	79753	broad.mit.edu	37	chr1	38003386	38003386	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcctcctcctcatccTcgtcatctttcctgtctatt	3	18	2	18	1	4	0	2	0	2	0	11	0	10	0	6	0	0	0	6	0	1	4			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr1:38003386T>A	uc001cbi.2	-	4	1227	c.1154A>T	c.(1153-1155)GAG>GTG	p.E385V	SNIP1_uc010oid.1_RNA	NM_024700	NP_078976	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein	385	Poly-Glu.				production of miRNAs involved in gene silencing by miRNA	nucleus	protein binding			upper_aerodigestive_tract(1)|lung(1)	2		Myeloproliferative disorder(586;0.0393)				CTCCTCATCCTCGTCATCTTT	0.423													24	111					0	0	0.007291	0	0		A	38003386	A	A	38003386	3	1	125	1	0	0	0	0	1	0	0	0	14873	1551	54	5	40	5	SNIP1	1	38003386	Missense_Mutation	SNP	T	TCGA-CG-4301-01A-01D-1158-08		38003386	211247235	1	68938											
FCRL3	115352	broad.mit.edu	37	chr1	157665941	157665941	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtgagaacatgcagctctgCcaacagggaacgctgggtct	10	7	14	10	1	2	1	0	1	2	1	2	3	2	2	1	3	6	3	1	3	3	0			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr1:157665941C>T	uc001frb.2	-	7	1313	c.1021G>A	c.(1021-1023)GCA>ACA	p.A341T	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.A341T|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Missense_Mutation_p.A67T|FCRL3_uc001frc.1_Missense_Mutation_p.A341T	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	341	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					TGCAGCTCTGCCAACAGGGAA	0.522													13	74					0	0	0.00245	0	0		T	157665941	T	T	157665941	3	4	125	1	0	0	0	0	1	0	0	0	5810	739	26	2	1219	2	FCRL3	1	157665941	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08	119662555	157665941	91584680	2	68939											
RABGAP1L	9910	broad.mit.edu	37	chr1	174926639	174926639	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgagaaagaatatcagacaAtgcgagagagtcagctgcaa	18	6	11	6	1	2	4	2	1	0	4	2	7	2	4	0	0	3	2	0	0	5	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr1:174926639A>G	uc001gjx.2	+	20	2581	c.2386A>G	c.(2386-2388)ATG>GTG	p.M796V	RABGAP1L_uc001gkb.3_5'UTR|RABGAP1L_uc001gkc.3_Missense_Mutation_p.M103V|RABGAP1L_uc001gkd.3_Missense_Mutation_p.M122V|RABGAP1L_uc001gke.3_Missense_Mutation_p.M115V|RABGAP1L_uc001gkf.2_Missense_Mutation_p.M53V|RABGAP1L_uc001gkg.2_Missense_Mutation_p.M53V|RABGAP1L_uc001gkh.3_Missense_Mutation_p.M53V	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	796					regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						ATATCAGACAATGCGAGAGAG	0.353													7	50					0	0	0.008291	0	0		G	174926639	G	G	174926639	3	3	125	1	0	0	0	0	1	0	0	0	12990	101	4	3	2575	3	RABGAP1L	1	174926639	Missense_Mutation	SNP	A	TCGA-CG-4301-01A-01D-1158-08	17260698	174926639	74323982	3	68940											
SMYD3	64754	broad.mit.edu	37	chr1	245927347	245927347	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atcttggcacactcaccagtCtcagattcttcattgcttgg	8	14	7	12	0	5	1	3	0	3	1	6	1	5	1	1	2	1	2	1	2	0	5			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr1:245927347C>G	uc001ibl.2	-	11	1276	c.1181G>C	c.(1180-1182)AGA>ACA	p.R394T	SMYD3_uc001ibk.2_Missense_Mutation_p.R335T|SMYD3_uc001ibi.2_Missense_Mutation_p.E206D|SMYD3_uc001ibj.2_Missense_Mutation_p.R205T	NM_022743	NP_073580	Q9H7B4	SMYD3_HUMAN	SET and MYND domain containing 3	394						cytoplasm|nucleus	histone-lysine N-methyltransferase activity|protein binding|zinc ion binding				0	all_cancers(71;0.000291)|all_epithelial(71;0.000174)|Ovarian(71;0.0377)|all_lung(81;0.0568)|Lung NSC(105;0.0804)|Breast(184;0.173)|Melanoma(84;0.242)	all_cancers(173;0.0496)|Acute lymphoblastic leukemia(190;0.164)	OV - Ovarian serous cystadenocarcinoma(106;0.0129)	all cancers(4;0.028)|GBM - Glioblastoma multiforme(49;0.0537)		ACTCACCAGTCTCAGATTCTT	0.468													10	79					0	0	0.001368	0	0		G	245927347	G	G	245927347	3	3	125	1	0	0	0	0	1	0	0	0	14848	913	32	5	113	5	SMYD3	1	245927347	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08	71000708	245927347	3323274	4	68941											
TRIB2	28951	broad.mit.edu	37	chr2	12858617	12858617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcattgcgtttcttgtatcGggaaatacttattgttggaa	9	16	10	6	3	1	0	0	0	1	0	2	2	1	2	0	2	2	4	0	2	5	8			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr2:12858617G>A	uc002rbv.3	+	1	1620	c.184G>A	c.(184-186)GGG>AGG	p.G62R	TRIB2_uc010yjp.1_Intron	NM_021643	NP_067675	Q92519	TRIB2_HUMAN	tribbles homolog 2	62	Protein kinase.				negative regulation of fat cell differentiation|negative regulation of interleukin-10 biosynthetic process|negative regulation of protein kinase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|regulation of MAP kinase activity	cytoplasm|cytoskeleton|nucleus	ATP binding|protein kinase activity|protein kinase inhibitor activity|transcription factor binding|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			stomach(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TTCTTGTATCGGGAAATACTT	0.577											OREG0014450	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	83					0	0	0.004672	0	0		A	12858617	A	A	12858617	3	1	125	1	0	0	0	0	1	0	0	0	16509	1116	39	1	186	1	TRIB2	2	12858617	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08		12858617	230340756	5	68942											
ZNF513	130557	broad.mit.edu	37	chr2	27601052	27601052	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatggcagctcccagccgaCtaccctcaccctcctccagc	8	6	6	21	1	1	0	1	0	0	0	4	1	4	0	6	1	4	2	6	1	1	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr2:27601052C>A	uc002rkk.2	-	4	1186	c.986G>T	c.(985-987)AGT>ATT	p.S329I	ZNF513_uc002rkj.2_Missense_Mutation_p.S267I	NM_144631	NP_653232	Q8N8E2	ZN513_HUMAN	zinc finger protein 513	329					regulation of transcription, DNA-dependent|response to stimulus|retina development in camera-type eye|transcription, DNA-dependent|visual perception	nucleus	transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCCAGCCGACTACCCTCACC	0.667													11	35					4.3838e-07	6.41532e-07	0.001855	1	0		A	27601052	A	A	27601052	3	1	125	1	0	0	0	0	1	0	0	0	17983	565	20	5	643	5	ZNF513	2	27601052	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08	14742435	27601052	215598321	6	68943											
LIMS1	3987	broad.mit.edu	37	chr2	109293101	109293101	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagaaaccctttcttggaCatcgccattatgagaggaaa	13	10	10	8	1	1	2	0	2	1	2	2	6	1	4	2	2	1	0	2	2	3	3			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr2:109293101C>G	uc002teg.2	+	7	804	c.685C>G	c.(685-687)CAT>GAT	p.H229D	LIMS1_uc002tef.2_Missense_Mutation_p.H241D|LIMS1_uc002teh.2_Missense_Mutation_p.H229D|LIMS1_uc002tei.2_Missense_Mutation_p.H229D|LIMS1_uc002tej.2_Missense_Mutation_p.H266D|LIMS1_uc002tek.3_Missense_Mutation_p.H291D	NM_004987	NP_004978	P48059	LIMS1_HUMAN	LIM and senescent cell antigen-like domains 1	229	LIM zinc-binding 4.				cell aging|cell junction assembly|cellular response to transforming growth factor beta stimulus|negative regulation of transcription, DNA-dependent	cytosol|focal adhesion|perinuclear region of cytoplasm	protein binding|zinc ion binding				0						CTTTCTTGGACATCGCCATTA	0.348													3	19					0	0	0.004672	0	0		G	109293101	G	G	109293101	3	3	125	1	0	0	0	0	1	0	0	0	8819	478	17	5	707	5	LIMS1	2	109293101	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08	81692049	109293101	133906272	7	68944											
LRP2	4036	broad.mit.edu	37	chr2	170028593	170028593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgccaacgaagagggatgCagtggtgatttttacagcgg	11	9	14	7	2	0	2	0	1	0	1	0	4	0	3	1	3	5	1	1	3	3	3			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr2:170028593C>T	uc002ues.2	-	58	11408	c.11195G>A	c.(11194-11196)TGC>TAC	p.C3732Y		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3732	LDL-receptor class A 31.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AAGAGGGATGCAGTGGTGATT	0.458													27	77					0	0	0.005443	0	0		T	170028593	T	T	170028593	3	4	125	1	0	0	0	0	1	0	0	0	8974	710	25	2	2860	2	LRP2	2	170028593	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08	60735492	170028593	73170780	8	68945											
SP3	6670	broad.mit.edu	37	chr2	174820642	174820642	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctgaatttgactgctttCttgatttatacccccattat	9	18	5	9	0	2	3	0	3	2	0	2	4	2	3	2	0	2	1	2	0	4	7			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr2:174820642C>A	uc002uig.2	-	4	762	c.598G>T	c.(598-600)GAA>TAA	p.E200*	SP3_uc002uie.2_Nonsense_Mutation_p.E132*|SP3_uc002uif.2_Nonsense_Mutation_p.E147*|SP3_uc010zel.1_Nonsense_Mutation_p.E197*	NM_003111	NP_003102	Q02447	SP3_HUMAN	Sp3 transcription factor isoform 1	200	Transactivation domain (Gln-rich).				negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	protein binding|zinc ion binding		EWSR1/SP3(3)	soft_tissue(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.185)			TGACTGCTTTCTTGATTTATA	0.428													32	416					6.50621e-10	9.75932e-10	0.002836	1	0		A	174820642	A	A	174820642	4	1	125	1	0	0	0	0	0	1	0	0	14990	922	32	5	1763	5	SP3	2	174820642	Nonsense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08	4792049	174820642	68378731	9	68946											
GOLGA4	2803	broad.mit.edu	37	chr3	37370460	37370460	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttttatttattagataaggCccaggaggtggaggctgaac	11	13	12	5	0	0	2	0	1	0	1	0	4	0	4	1	5	1	1	1	5	5	7			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr3:37370460C>G	uc003cgv.2	+	16	6372	c.6068C>G	c.(6067-6069)GCC>GGC	p.A2023G	GOLGA4_uc003cgw.2_Missense_Mutation_p.A2045G|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.A1904G	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	2023	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TTAGATAAGGCCCAGGAGGTG	0.328													8	39					0	0	0.006214	0	0		G	37370460	G	G	37370460	3	3	125	1	0	0	0	0	1	0	0	0	6570	739	26	5	6200	5	GOLGA4	3	37370460	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08		37370460	160651970	10	68947											
MYLK	4638	broad.mit.edu	37	chr3	123366073	123366073	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggcagtgggccactcacatCtccaggaccatgacgatgtt	9	9	11	12	1	2	1	1	1	1	0	3	3	2	2	3	3	0	2	3	3	0	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr3:123366073C>T	uc003ego.2	-	27	4899	c.4617G>A	c.(4615-4617)GAG>GAA	p.E1539E	MYLK_uc010hrr.2_Intron|MYLK_uc011bjv.1_Silent_p.E339E|MYLK_uc011bjw.1_Silent_p.E1539E|MYLK_uc003egp.2_Silent_p.E1470E|MYLK_uc003egq.2_Silent_p.E1539E|MYLK_uc003egr.2_Silent_p.E1470E|MYLK_uc003egs.2_Silent_p.E1363E	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1539	Protein kinase.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CCACTCACATCTCCAGGACCA	0.587													9	40					0	0	0.008291	0	0		T	123366073	T	T	123366073	2	4	125	1	0	0	0	0	0	0	0	1	10074	912	32	4		4	MYLK	3	123366073	Silent	SNP	C	TCGA-CG-4301-01A-01D-1158-08	85995613	123366073	74656357	11	68948											
TERT	7015	broad.mit.edu	37	chr5	1272312	1272312	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccagacctgctcgatgacGacggcatccctcagcgggct	7	6	12	16	4	1	2	1	1	0	1	3	4	2	2	3	2	2	3	3	2	0	0			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr5:1272312G>A	uc003jcb.1	-	7	2428	c.2370C>T	c.(2368-2370)GTC>GTT	p.V790V	TERT_uc003jbz.1_Intron|TERT_uc003jca.1_Silent_p.V778V|TERT_uc003jcc.1_Silent_p.V790V|TERT_uc003jcd.1_Intron|TERT_uc003jce.1_Intron	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	790	Reverse transcriptase.				anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GCTCGATGACGACGGCATCCC	0.642									TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				5	26					0	0	0.001168	0	0		A	1272312	A	A	1272312	2	1	125	1	0	0	0	0	0	0	0	1	15789	1045	37	1		1	TERT	5	1272312	Silent	SNP	G	TCGA-CG-4301-01A-01D-1158-08		1272312	179642948	12	68949											
JMY	133746	broad.mit.edu	37	chr5	78595999	78595999	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtttgcggggtggtacAgaagcgatagcacgattgga	11	8	16	6	3	0	2	0	0	0	2	0	5	0	3	0	4	4	3	0	4	3	4			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr5:78595999A>G	uc003kfx.3	+	5	2071	c.1551A>G	c.(1549-1551)ACA>ACG	p.T517T	JMY_uc003kfw.1_Silent_p.T163T	NM_152405	NP_689618	Q8N9B5	JMY_HUMAN	junction-mediating and regulatory protein	517	Interaction with p300/EP300 (By similarity).|Potential.				'de novo' actin filament nucleation|actin polymerization-dependent cell motility|Arp2/3 complex-mediated actin nucleation|cell cycle arrest|DNA repair|induction of apoptosis|positive regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter	cell leading edge|cytoplasm|cytoskeleton|nucleus	actin binding|transcription coactivator activity				0		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;4.45e-45)|Epithelial(54;5.85e-40)|all cancers(79;2.89e-35)		GGGGTGGTACAGAAGCGATAG	0.348													10	116					0	0	0.001855	0	0		G	78595999	G	G	78595999	2	3	125	1	0	0	0	0	0	0	0	1	7973	175	7	3		3	JMY	5	78595999	Silent	SNP	A	TCGA-CG-4301-01A-01D-1158-08	77323687	78595999	102319261	13	68950											
RASA1	5921	broad.mit.edu	37	chr5	86670727	86670727	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaagaaaagcaaagatcctGatatctgtaagttgatacag	18	9	8	6	0	1	4	0	2	1	2	2	4	2	4	1	0	2	3	1	0	7	4			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr5:86670727G>A	uc003kiw.2	+	15	2123	c.2005G>A	c.(2005-2007)GAT>AAT	p.D669N	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Missense_Mutation_p.D492N|RASA1_uc011ctv.1_Missense_Mutation_p.D502N|RASA1_uc011ctw.1_Missense_Mutation_p.D503N|RASA1_uc010jaw.2_Missense_Mutation_p.D491N	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	669	C2.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		CAAAGATCCTGATATCTGTAA	0.259													10	56					0	0	0.008291	0	0		A	86670727	A	A	86670727	3	1	125	1	0	0	0	0	1	0	0	0	13085	1290	45	4	2075	4	RASA1	5	86670727	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08	8074728	86670727	94244533	14	68951											
P4HA2	8974	broad.mit.edu	37	chr5	131539839	131539839	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatcacgaacggtggctcGtgcaagctagaaggaaggag	12	5	17	7	3	1	1	1	0	0	1	2	5	1	4	0	5	3	3	0	5	5	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr5:131539839G>A	uc003kwh.2	-	9	1651	c.1087C>T	c.(1087-1089)CGA>TGA	p.R363*	P4HA2_uc003kwg.2_Nonsense_Mutation_p.R363*|P4HA2_uc003kwi.2_Nonsense_Mutation_p.R363*|P4HA2_uc003kwk.2_Nonsense_Mutation_p.R363*|P4HA2_uc003kwl.2_Nonsense_Mutation_p.R363*|P4HA2_uc003kwj.2_Nonsense_Mutation_p.R363*	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	363						endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	ACGGTGGCTCGTGCAAGCTAG	0.502													27	88					0	0	0.007291	0	0		A	131539839	A	A	131539839	4	1	125	1	0	0	0	0	0	1	0	0	11376	1153	40	1	612	1	P4HA2	5	131539839	Nonsense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08	44869112	131539839	49375421	15	68952											
SCUBE3	222663	broad.mit.edu	37	chr6	35209384	35209384	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagctgcaaccggtctggCaagaaggacacctgtgccct	9	7	11	14	1	2	1	1	0	1	1	2	2	2	2	3	3	4	3	3	3	3	0			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr6:35209384C>A	uc003okf.1	+	11	1266	c.1260C>A	c.(1258-1260)GGC>GGA	p.G420G	SCUBE3_uc003okg.1_Silent_p.G419G|SCUBE3_uc003okh.1_Silent_p.G307G	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	420					protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						ACCGGTCTGGCAAGAAGGACA	0.582											OREG0017372	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	122					2.47316e-13	3.80486e-13	0.003271	1	0		A	35209384	A	A	35209384	2	1	125	1	0	0	0	0	0	0	0	1	13971	697	25	5		5	SCUBE3	6	35209384	Silent	SNP	C	TCGA-CG-4301-01A-01D-1158-08		35209384	135905683	16	68953											
ARMC2	84071	broad.mit.edu	37	chr6	109286202	109286202	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttagtggactgtttaagaGatttgggtcctactgattgg	8	15	14	4	0	0	2	0	1	0	1	1	4	1	3	1	4	1	2	1	4	3	6			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr6:109286202G>T	uc003pss.3	+	17	2479	c.2305G>T	c.(2305-2307)GAT>TAT	p.D769Y	ARMC2_uc011eao.1_Missense_Mutation_p.D604Y	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	769	ARM 12.						binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)		CTGTTTAAGAGATTTGGGTCC	0.333													51	238					2.44813e-32	3.81527e-32	0.00361	1	0		T	109286202	T	T	109286202	3	4	125	1	0	0	0	0	1	0	0	0	952	942	33	5	2367	5	ARMC2	6	109286202	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08	74076818	109286202	61828865	17	68954											
LANCL2	55915	broad.mit.edu	37	chr7	55466150	55466150	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacctgcagttgtaccgggtCacatgtgaccaaacctacct	10	10	8	13	1	1	1	1	1	0	0	1	1	1	1	5	1	5	3	5	1	4	4			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr7:55466150C>G	uc003tqp.2	+	3	935	c.357C>G	c.(355-357)GTC>GTG	p.V119V		NM_018697	NP_061167	Q9NS86	LANC2_HUMAN	LanC lantibiotic synthetase component C-like 2	119					negative regulation of transcription, DNA-dependent|positive regulation of abscisic acid mediated signaling pathway	cortical actin cytoskeleton|cytosol|nucleus|plasma membrane	ATP binding|catalytic activity|GTP binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding			ovary(1)|skin(1)	2	Breast(14;0.0379)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00128)|Epithelial(13;0.0706)			TGTACCGGGTCACATGTGACC	0.458													3	115					0	0	0.000248	0	0		G	55466150	G	G	55466150	2	3	125	1	0	0	0	0	0	0	0	1	8637	813	29	5		5	LANCL2	7	55466150	Silent	SNP	C	TCGA-CG-4301-01A-01D-1158-08		55466150	103672513	18	68955											
HIP1	3092	broad.mit.edu	37	chr7	75186058	75186058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcagaacctgaagctcccGttggcttgtggcaagttcct	7	12	11	11	1	0	2	0	1	0	1	2	2	2	2	3	2	3	6	3	2	3	4			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr7:75186058G>A	uc003uds.1	-	17	1680	c.1639C>T	c.(1639-1641)CGG>TGG	p.R547W	HIP1_uc011kfz.1_Missense_Mutation_p.R424W	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	547	Potential.				activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						TGAAGCTCCCGTTGGCTTGTG	0.353			T	PDGFRB	CMML								20	146					0	0	0.003954	0	0		A	75186058	A	A	75186058	3	1	125	1	0	0	0	0	1	0	0	0	7130	1144	40	1	1534	1	HIP1	7	75186058	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08	19719908	75186058	83952605	19	68956											
ZNF804B	219578	broad.mit.edu	37	chr7	88964359	88964359	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcagcatgaccagcaaggTttccggatgtggaaaccaaa	14	7	10	10	1	1	1	1	1	0	0	2	3	2	3	3	3	3	3	3	3	3	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr7:88964359T>C	uc011khi.1	+	4	2601	c.2063T>C	c.(2062-2064)GTT>GCT	p.V688A		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	688						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			ACCAGCAAGGTTTCCGGATGT	0.453										HNSCC(36;0.09)			10	101					0	0	0.00245	0	0		C	88964359	C	C	88964359	3	2	125	1	0	0	0	0	1	0	0	0	18196	1725	60	3	2077	3	ZNF804B	7	88964359	Missense_Mutation	SNP	T	TCGA-CG-4301-01A-01D-1158-08	13778301	88964359	70174304	20	68957											
KIAA1429	25962	broad.mit.edu	37	chr8	95524295	95524295	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtaaggccaactccttctGgggtcatcaagttatcgata	10	12	10	9	1	3	0	2	0	1	0	5	1	4	0	2	4	1	2	2	4	5	4			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr8:95524295G>C	uc003ygo.1	-	12	2787	c.2774C>G	c.(2773-2775)CCA>CGA	p.P925R	KIAA1429_uc003ygp.2_Missense_Mutation_p.P925R|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	925					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			AACTCCTTCTGGGGTCATCAA	0.378													5	38					0	0	0.000602	0	0		C	95524295	C	C	95524295	3	2	125	1	0	0	0	0	1	0	0	0	8247	1348	47	5	2770	5	KIAA1429	8	95524295	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08		95524295	50839727	21	68958											
LY6K	54742	broad.mit.edu	37	chr8	143784759	143784759	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcctcctgctgctggcCtccattgcagccggcctcag	4	9	10	18	1	1	0	1	0	0	0	4	0	4	0	7	2	4	3	7	2	0	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr8:143784759C>T	uc011ljv.1	+	3	885	c.468C>T	c.(466-468)GCC>GCT	p.A156A	LY6K_uc011ljw.1_3'UTR|LY6K_uc011ljx.1_3'UTR	NM_017527	NP_059997	Q17RY6	LY6K_HUMAN	lymphocyte antigen 6 complex, locus K isoform 1	156						anchored to membrane|cytoplasm|extracellular region|nucleolus|plasma membrane				central_nervous_system(1)	1	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					TGCTGCTGGCCTCCATTGCAG	0.592													5	22					0	0	0.001168	0	0		T	143784759	T	T	143784759	2	4	125	1	0	0	0	0	0	0	0	1	9116	668	24	4		4	LY6K	8	143784759	Silent	SNP	C	TCGA-CG-4301-01A-01D-1158-08	48260464	143784759	2579263	22	68959											
KIAA1045	23349	broad.mit.edu	37	chr9	34976209	34976209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcacggagacctttcagCggtgtaaagtcatccctggt	8	10	11	12	2	3	1	3	0	0	1	4	2	4	1	3	3	1	1	3	3	2	2			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr9:34976209C>T	uc003zvq.2	+	4	803	c.625C>T	c.(625-627)CGG>TGG	p.R209W	KIAA1045_uc003zvr.2_Missense_Mutation_p.R209W	NM_015297	NP_056112	Q9UPV7	K1045_HUMAN	hypothetical protein LOC23349	209							calcium ion binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00575)			GACCTTTCAGCGGTGTAAAGT	0.507													13	66					0	0	0.003163	0	0		T	34976209	T	T	34976209	3	4	125	1	0	0	0	0	1	0	0	0	8223	759	27	1	635	1	KIAA1045	9	34976209	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08		34976209	106237222	23	68960											
DFNB31	25861	broad.mit.edu	37	chr9	117240980	117240980	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccaggtgtagatgtggttGgtgacgtagcccccagggat	8	9	15	9	1	0	2	0	1	0	1	0	3	0	3	3	4	1	3	3	4	2	3			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr9:117240980G>A	uc004biz.3	-	2	1339	c.690C>T	c.(688-690)ACC>ACT	p.T230T	DFNB31_uc004biy.3_5'UTR|DFNB31_uc004bja.3_Silent_p.T230T|DFNB31_uc004bjb.2_Silent_p.T230T	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	230					inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						AGATGTGGTTGGTGACGTAGC	0.647													4	20					0	0	0.001168	0	0		A	117240980	A	A	117240980	2	1	125	1	0	0	0	0	0	0	0	1	4461	1335	47	4		4	DFNB31	9	117240980	Silent	SNP	G	TCGA-CG-4301-01A-01D-1158-08	82264771	117240980	23972451	24	68961											
FAM166A	401565	broad.mit.edu	37	chr9	140140109	140140109	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggtgtagtgggggatgtAgggctccgtcaggtcttggc	5	11	18	7	1	2	0	1	0	1	0	3	1	3	1	1	6	0	3	1	6	2	3			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr9:140140109A>T	uc004cmi.1	-	2	308	c.253T>A	c.(253-255)TAC>AAC	p.Y85N		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	85										ovary(1)	1						TGGGGGATGTAGGGCTCCGTC	0.642													28	51					0	0	0.002445	0	0		T	140140109	T	T	140140109	3	4	125	1	0	0	0	0	1	0	0	0	5492	420	15	5	724	5	FAM166A	9	140140109	Missense_Mutation	SNP	A	TCGA-CG-4301-01A-01D-1158-08	22899129	140140109	1073322	25	68962											
CUBN	8029	broad.mit.edu	37	chr10	17152954	17152954	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagtgggaagacccaggtgTattcacacactcaacgggtg	11	7	13	10	1	2	1	2	0	0	1	2	2	2	2	1	3	1	2	1	3	3	2			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr10:17152954T>A	uc001ioo.2	-	9	1031	c.979A>T	c.(979-981)ACA>TCA	p.T327S		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	327	EGF-like 4; calcium-binding (Potential).				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GACCCAGGTGTATTCACACAC	0.522													22	58					0	0	0.00278	0	0		A	17152954	A	A	17152954	3	1	125	1	0	0	0	0	1	0	0	0	4054	1638	57	5	10128	5	CUBN	10	17152954	Missense_Mutation	SNP	T	TCGA-CG-4301-01A-01D-1158-08		17152954	118381793	26	68963											
GDF10	2662	broad.mit.edu	37	chr10	48438519	48438519	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgctggggcccaacgtggcGgccgcgtccccagggtgccg	3	4	18	16	6	0	0	0	0	0	0	1	0	1	0	5	5	2	1	5	5	1	0			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr10:48438519G>A	uc001jfb.2	-	1	648	c.192C>T	c.(190-192)GCC>GCT	p.A64A	GDF10_uc009xnp.2_Silent_p.A64A|GDF10_uc009xnq.1_Silent_p.A64A	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	64					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						CCAACGTGGCGGCCGCGTCCC	0.746													3	8					0	0	0.004672	0	0		A	48438519	A	A	48438519	2	1	125	1	0	0	0	0	0	0	0	1	6326	1103	39	1		1	GDF10	10	48438519	Silent	SNP	G	TCGA-CG-4301-01A-01D-1158-08	31285565	48438519	87096228	27	68964											
A1CF	29974	broad.mit.edu	37	chr10	52596017	52596017	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggtttttgggatgccccCaacaaataatcggcagttgt	9	14	10	8	1	0	0	0	0	0	0	1	1	0	1	2	3	2	3	2	3	3	5			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr10:52596017C>A	uc001jjj.2	-	6	609	c.421G>T	c.(421-423)GGG>TGG	p.G141W	A1CF_uc010qhn.1_Missense_Mutation_p.G149W|A1CF_uc001jji.2_Missense_Mutation_p.G141W|A1CF_uc001jjh.2_Missense_Mutation_p.G149W|A1CF_uc010qho.1_Missense_Mutation_p.G149W|A1CF_uc009xov.2_Missense_Mutation_p.G141W	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	141	RRM 2.				cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						GGGATGCCCCCAACAAATAAT	0.453													27	86					4.72057e-08	6.99344e-08	0.003954	1	0		A	52596017	A	A	52596017	3	1	125	1	0	0	0	0	1	0	0	0	2	594	21	5	1395	5	A1CF	10	52596017	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08	4157498	52596017	82938730	28	68965											
POLR3A	11128	broad.mit.edu	37	chr10	79789149	79789149	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccacatccgtctcccggAactgctccttcaccatgatg	7	10	8	16	2	2	1	1	1	1	0	5	2	4	2	5	2	2	1	5	2	1	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr10:79789149A>C	uc001jzn.2	-	1	111	c.17T>G	c.(16-18)TTC>TGC	p.F6C		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	6					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			CGTCTCCCGGAACTGCTCCTT	0.602											OREG0020298	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	52					0	0	0.001984	0	0		C	79789149	C	C	79789149	3	2	125	1	0	0	0	0	1	0	0	0	12247	246	9	5	4279	5	POLR3A	10	79789149	Missense_Mutation	SNP	A	TCGA-CG-4301-01A-01D-1158-08	27193132	79789149	55745598	29	68966											
ALDH3B2	222	broad.mit.edu	37	chr11	67431918	67431918	+	Silent	SNP	G	A	A																															aggggcttctcctgccggttGatgaacttgatggcctcgtc																										TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr11:67431918G>A	uc001omr.2	-	8	1261	c.822C>T	c.(820-822)ATC>ATT	p.I274I	ALDH3B2_uc001oms.2_Silent_p.I274I|ALDH3B2_uc009ysa.1_Silent_p.I274I	NM_000695	NP_000686	P48448	AL3B2_HUMAN	aldehyde dehydrogenase 3B2	274					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase			lung(1)|kidney(1)	2					NADH(DB00157)	CCTGCCGGTTGATGAACTTGA	0.642													7	116					0	0	0.006214	0	0		A	67431918	A	A	67431918	2	1	125	1	0	0	0	0	0	0	0	1	500	1280	45	4		4	ALDH3B2	11	67431918	Silent	SNP	G	TCGA-CG-4301-01A-01D-1158-08		67431918	67574598	30	68967	129	2									
ALDH3B2	222	broad.mit.edu	37	chr11	67431927	67431927	+	Missense_Mutation	SNP	G	C	C																															tcctgccggttgatgaacttGatggcctcgtccacgctctg																										TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr11:67431927G>C	uc001omr.2	-	8	1252	c.813C>G	c.(811-813)ATC>ATG	p.I271M	ALDH3B2_uc001oms.2_Missense_Mutation_p.I271M|ALDH3B2_uc009ysa.1_Missense_Mutation_p.I271M	NM_000695	NP_000686	P48448	AL3B2_HUMAN	aldehyde dehydrogenase 3B2	271					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase			lung(1)|kidney(1)	2					NADH(DB00157)	TGATGAACTTGATGGCCTCGT	0.647													7	118					0	0	0.004482	0	0		C	67431927	C	C	67431927	3	2	125	1	0	0	0	0	1	0	0	0	500	1280	45	5	356	5	ALDH3B2	11	67431927	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08	9	67431927	67574589	31	68968	129	2									
ALDH3B2	222	broad.mit.edu	37	chr11	67431978	67431978	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgggcaggatgggcccgaaGatctcctcctgcatcacagg	9	7	13	12	1	2	1	1	0	1	1	4	3	3	2	3	4	1	2	3	4	1	0			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr11:67431978G>C	uc001omr.2	-	8	1201	c.762C>G	c.(760-762)ATC>ATG	p.I254M	ALDH3B2_uc001oms.2_Missense_Mutation_p.I254M|ALDH3B2_uc009ysa.1_Missense_Mutation_p.I254M	NM_000695	NP_000686	P48448	AL3B2_HUMAN	aldehyde dehydrogenase 3B2	254					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase			lung(1)|kidney(1)	2					NADH(DB00157)	TGGGCCCGAAGATCTCCTCCT	0.652													6	93					0	0	0.00308	0	0		C	67431978	C	C	67431978	3	2	125	1	0	0	0	0	1	0	0	0	500	932	33	5	407	5	ALDH3B2	11	67431978	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08	51	67431978	67574538	32	68969											
ATM	472	broad.mit.edu	37	chr11	108218089	108218089	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagaacttgtacatatagatCtaggtaagtaataaaatcta	18	12	6	5	0	2	2	0	0	2	2	2	2	2	2	0	1	2	3	0	1	10	9			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr11:108218089C>G	uc001pkb.1	+	59	9053	c.8668C>G	c.(8668-8670)CTA>GTA	p.L2890V	ATM_uc009yxr.1_Missense_Mutation_p.L2890V|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.L1542V	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2890	PI3K/PI4K.		L -> V (in T-prolymphocytic leukemia).		cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding	p.L2890V(2)		haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		ACATATAGATCTAGGTAAGTA	0.313			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			15	48					0	0	0.003163	0	0		G	108218089	G	G	108218089	3	3	125	1	0	0	0	0	1	0	0	0	1110	912	32	5	8898	5	ATM	11	108218089	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08	40786111	108218089	26788427	33	68970											
PPP2R1B	5519	broad.mit.edu	37	chr11	111613304	111613304	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccacattgaagcgaacaTttgctacttggtctcctgcc	8	12	9	12	1	1	1	0	1	1	0	2	2	1	1	3	2	5	1	3	2	3	4			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr11:111613304T>A	uc001plx.1	-	13	1724	c.1640A>T	c.(1639-1641)AAT>ATT	p.N547I	PPP2R1B_uc001plw.1_Missense_Mutation_p.N547I|PPP2R1B_uc010rwi.1_Missense_Mutation_p.N483I|PPP2R1B_uc010rwj.1_Missense_Mutation_p.N386I|PPP2R1B_uc010rwk.1_Missense_Mutation_p.N502I|PPP2R1B_uc010rwl.1_Missense_Mutation_p.N420I	NM_002716	NP_002707	P30154	2AAB_HUMAN	beta isoform of regulatory subunit A, protein	547	HEAT 14.						protein binding				0		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|Epithelial(105;2.36e-06)|all cancers(92;3.78e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0761)		GAAGCGAACATTTGCTACTTG	0.368													11	35					0	0	0.008291	0	0		A	111613304	A	A	111613304	3	1	125	1	0	0	0	0	1	0	0	0	12405	1493	52	5	400	5	PPP2R1B	11	111613304	Missense_Mutation	SNP	T	TCGA-CG-4301-01A-01D-1158-08	3395215	111613304	23393212	34	68971											
NLRX1	79671	broad.mit.edu	37	chr11	119045756	119045756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttttcctggccccatgtGtggagccagggcgtgcaggc	4	10	16	11	1	0	0	0	0	0	0	1	1	1	1	4	5	2	2	4	5	0	2			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr11:119045756G>A	uc001pvu.2	+	6	1659	c.1444G>A	c.(1444-1446)GTG>ATG	p.V482M	NLRX1_uc010rzc.1_Missense_Mutation_p.V304M|NLRX1_uc001pvv.2_Missense_Mutation_p.V482M|NLRX1_uc001pvw.2_Missense_Mutation_p.V482M|NLRX1_uc001pvx.2_Missense_Mutation_p.V482M	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	482	Required for interaction with MAVS.|NACHT.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		GGCCCCATGTGTGGAGCCAGG	0.612													10	51					0	0	0.006214	0	0		A	119045756	A	A	119045756	3	1	125	1	0	0	0	0	1	0	0	0	10504	1377	48	4	1462	4	NLRX1	11	119045756	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08	7432452	119045756	15960760	35	68972											
IL23A	51561	broad.mit.edu	37	chr12	56733273	56733273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccatatccagtgtggagatGgctgtgacccccaaggactc	9	8	11	13	0	0	2	0	1	0	1	2	4	1	3	4	3	0	1	4	3	2	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr12:56733273G>A	uc001sla.2	+	2	392	c.226G>A	c.(226-228)GGC>AGC	p.G76S		NM_016584	NP_057668	Q9NPF7	IL23A_HUMAN	interleukin 23, alpha subunit p19 precursor	76					defense response to Gram-negative bacterium|inflammatory response|innate immune response|negative regulation of interleukin-10 production|positive regulation of activated T cell proliferation|positive regulation of activation of JAK2 kinase activity|positive regulation of defense response to virus by host|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-17 production|positive regulation of memory T cell differentiation|positive regulation of natural killer cell proliferation|positive regulation of NF-kappaB import into nucleus|positive regulation of NK T cell activation|positive regulation of NK T cell proliferation|positive regulation of osteoclast differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat4 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|regulation of tyrosine phosphorylation of Stat1 protein|response to virus|tissue remodeling	interleukin-23 complex	cytokine activity				0						GTGTGGAGATGGCTGTGACCC	0.502													17	72					0	0	0.006122	0	0		A	56733273	A	A	56733273	3	1	125	1	0	0	0	0	1	0	0	0	7691	1348	47	4	232	4	IL23A	12	56733273	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08		56733273	77118622	36	68973											
ATP5B	506	broad.mit.edu	37	chr12	57033084	57033084	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatgatatcctggagggatTtgtagtcctatgagaaaaaa	15	11	10	5	0	0	2	0	2	0	1	2	5	2	4	2	2	0	1	2	2	7	4			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr12:57033084T>C	uc001slr.2	-	9	1400	c.1295A>G	c.(1294-1296)AAA>AGA	p.K432R	BAZ2A_uc001slq.1_5'Flank|BAZ2A_uc010sqr.1_5'Flank	NM_001686	NP_001677	P06576	ATPB_HUMAN	mitochondrial ATP synthase beta subunit	432					angiogenesis|ATP hydrolysis coupled proton transport|regulation of intracellular pH|respiratory electron transport chain	cell surface|mitochondrial nucleoid|mitochondrial proton-transporting ATP synthase, catalytic core|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|hydrogen-exporting ATPase activity, phosphorylative mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)	1						CTGGAGGGATTTGTAGTCCTA	0.428													17	55					0	0	0.006122	0	0		C	57033084	C	C	57033084	3	2	125	1	0	0	0	0	1	0	0	0	1149	1841	64	3	302	3	ATP5B	12	57033084	Missense_Mutation	SNP	T	TCGA-CG-4301-01A-01D-1158-08	299811	57033084	76818811	37	68974											
NCOR2	9612	broad.mit.edu	37	chr12	124904591	124904591	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagtaatagaggacgcacTcagccactgtctgtgggaca	11	8	13	9	1	2	1	1	0	1	1	2	3	2	3	1	3	1	3	1	3	3	3			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr12:124904591T>C	uc010tba.1	-	13	1511	c.1394A>G	c.(1393-1395)GAG>GGG	p.E465G	NCOR2_uc010tay.1_Missense_Mutation_p.E465G|NCOR2_uc010taz.1_Missense_Mutation_p.E465G|NCOR2_uc010tbb.1_Missense_Mutation_p.E465G|NCOR2_uc010tbc.1_Missense_Mutation_p.E464G|NCOR2_uc001ugj.1_Missense_Mutation_p.E465G|NCOR2_uc001ugk.1_Missense_Mutation_p.E465G	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	465	SANT 1.				cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GAGGACGCACTCAGCCACTGT	0.388													11	92					0	0	0.004656	0	0		C	124904591	C	C	124904591	3	2	125	1	0	0	0	0	1	0	0	0	10255	1551	54	3	6314	3	NCOR2	12	124904591	Missense_Mutation	SNP	T	TCGA-CG-4301-01A-01D-1158-08	67871507	124904591	8947304	38	68975											
UBC	7316	broad.mit.edu	37	chr12	125398003	125398003	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgccttccttgtcctggatCtttgctttgacgttctcgat	4	18	8	11	2	2	1	0	1	2	0	5	3	4	2	3	1	2	2	3	1	0	5			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr12:125398003C>G	uc001ugs.3	-	2	763	c.315G>C	c.(313-315)AAG>AAC	p.K105N	UBC_uc001ugr.2_5'Flank|UBC_uc001ugu.1_Missense_Mutation_p.K105N|UBC_uc001ugt.2_Missense_Mutation_p.K105N|UBC_uc001ugv.2_Intron|UBC_uc001ugw.2_5'UTR	NM_021009	NP_066289	P0CG48	UBC_HUMAN	ubiquitin C	105	Ubiquitin-like 2.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.17e-05)|Epithelial(86;0.000207)|all cancers(50;0.00308)		TGTCCTGGATCTTTGCTTTGA	0.532													50	248					0	0	0.00361	0	0		G	125398003	G	G	125398003	3	3	125	1	0	0	0	0	1	0	0	0	16868	912	32	5	1746	5	UBC	12	125398003	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08	493412	125398003	8453892	39	68976											
TUBA3C	7278	broad.mit.edu	37	chr13	19751365	19751365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaggttggtctggaattccGtcaagtccacattcagggcc	8	11	11	11	1	3	0	2	0	1	0	5	1	5	1	3	4	0	1	3	4	3	4	rs139914455		TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr13:19751365G>A	uc009zzj.2	-	4	807	c.758C>T	c.(757-759)ACG>ATG	p.T253M		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	253					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity	p.T253T(1)		ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		CTGGAATTCCGTCAAGTCCAC	0.617													24	141					0	0	0.003954	0	0		A	19751365	A	A	19751365	3	1	125	1	0	0	0	0	1	0	0	0	16772	1145	40	1	602	1	TUBA3C	13	19751365	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08		19751365	95418513	40	68977											
NBEA	26960	broad.mit.edu	37	chr13	35770041	35770041	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaccataaaagaaaaagaAacaccaactcctggtgaaga	21	4	7	9	0	0	4	0	1	0	3	1	5	1	4	3	1	2	0	3	1	7	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr13:35770041A>C	uc001uvb.2	+	31	5174	c.4968A>C	c.(4966-4968)GAA>GAC	p.E1656D	NBEA_uc010abi.2_Missense_Mutation_p.E312D	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1656						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		AAGAAAAAGAAACACCAACTC	0.378													18	196					0	0	0.001523	0	0		C	35770041	C	C	35770041	3	2	125	1	0	0	0	0	1	0	0	0	10205	11	1	5	5090	5	NBEA	13	35770041	Missense_Mutation	SNP	A	TCGA-CG-4301-01A-01D-1158-08	16018676	35770041	79399837	41	68978											
NALCN	259232	broad.mit.edu	37	chr13	101936302	101936302	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggaggcaggctggggcGcgtccctggggcttgttgac	4	8	18	11	2	0	1	0	1	0	0	1	2	1	2	2	7	0	4	2	7	0	2			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr13:101936302G>A	uc001vox.1	-	10	1305	c.1116C>T	c.(1114-1116)CGC>CGT	p.R372R	NALCN_uc001voy.2_Silent_p.R87R|NALCN_uc001voz.2_Silent_p.R372R|NALCN_uc001vpa.2_Silent_p.R372R	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	372	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGGCTGGGGCGCGTCCCTGGG	0.468													12	30					0	0	0.00499	0	0		A	101936302	A	A	101936302	2	1	125	1	0	0	0	0	0	0	0	1	10166	1074	38	1		1	NALCN	13	101936302	Silent	SNP	G	TCGA-CG-4301-01A-01D-1158-08	66166261	101936302	13233576	42	68979											
HCN4	10021	broad.mit.edu	37	chr15	73635776	73635776	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgggagaggcgtaacaggcGtaagaggctgaggatcttcg	10	6	18	7	4	1	3	0	1	1	2	2	5	1	4	0	5	1	3	0	5	2	3			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr15:73635776G>A	uc002avp.2	-	2	2153	c.1159C>T	c.(1159-1161)CGC>TGC	p.R387C		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	387	Helical; Voltage-sensor; Name=Segment S4; (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		CGTAACAGGCGTAAGAGGCTG	0.562													11	46					0	0	0.003163	0	0		A	73635776	A	A	73635776	3	1	125	1	0	0	0	0	1	0	0	0	7015	1145	40	1	2480	1	HCN4	15	73635776	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08		73635776	28895616	43	68980											
ABCC11	85320	broad.mit.edu	37	chr16	48201223	48201223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgtggccatgagggctgCgaacaatgacccaggcttct	8	8	14	11	1	1	2	0	2	1	0	1	3	1	2	2	4	2	3	2	4	2	1	rs139034695	by1000genomes	TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr16:48201223C>T	uc002eff.1	-	29	4461	c.4111G>A	c.(4111-4113)GCA>ACA	p.A1371T	ABCC11_uc002efg.1_Missense_Mutation_p.A1371T|ABCC11_uc002efh.1_Missense_Mutation_p.A1333T|ABCC11_uc010cbg.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	1371	ABC transporter 2.|Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				ATGAGGGCTGCGAACAATGAC	0.567									Cerumen_Type				21	140					0	0	0.002299	0	0		T	48201223	T	T	48201223	3	4	125	1	0	0	0	0	1	0	0	0	51	768	27	1	41	1	ABCC11	16	48201223	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08		48201223	42153530	44	68981											
KIF2B	84643	broad.mit.edu	37	chr17	51900727	51900727	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcagggaccagcgtacCgccacgaaatgggttgcgat	10	6	13	12	4	1	0	1	0	0	0	1	3	1	1	4	2	3	2	4	2	2	2			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr17:51900727C>T	uc002iua.2	+	1	489	c.333C>T	c.(331-333)ACC>ACT	p.T111T	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	111					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						ACCAGCGTACCGCCACGAAAT	0.602													33	117					0	0	0.004289	0	0		T	51900727	T	T	51900727	2	4	125	1	0	0	0	0	0	0	0	1	8314	639	23	1		1	KIF2B	17	51900727	Silent	SNP	C	TCGA-CG-4301-01A-01D-1158-08		51900727	29294483	45	68982											
C1QTNF1	114897	broad.mit.edu	37	chr17	77043955	77043955	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggagacctacctgcacAtcatgaagaacgaggaggag	16	4	13	8	1	1	4	1	1	0	3	1	8	1	6	2	3	3	1	2	3	4	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr17:77043955A>G	uc002jwp.2	+	4	971	c.631A>G	c.(631-633)ATC>GTC	p.I211V	C1QTNF1_uc002jwq.2_Missense_Mutation_p.I129V|C1QTNF1_uc002jwr.3_Missense_Mutation_p.I221V|C1QTNF1_uc002jws.2_Missense_Mutation_p.I211V|C1QTNF1_uc002jwt.2_Missense_Mutation_p.I309V	NM_030968	NP_112230	Q9BXJ1	C1QT1_HUMAN	C1q and tumor necrosis factor related protein 1	211	C1q.					collagen				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.0294)|OV - Ovarian serous cystadenocarcinoma(97;0.201)			CTACCTGCACATCATGAAGAA	0.567													21	101					0	0	0.00278	0	0		G	77043955	G	G	77043955	3	3	125	1	0	0	0	0	1	0	0	0	1965	217	8	3	641	3	C1QTNF1	17	77043955	Missense_Mutation	SNP	A	TCGA-CG-4301-01A-01D-1158-08	25143228	77043955	4151255	46	68983											
BAIAP2	10458	broad.mit.edu	37	chr17	79077849	79077849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcagagcaagctcagcgactCctactccaacacactccccg	11	6	6	18	2	2	1	2	0	0	1	5	2	5	1	4	0	5	2	4	0	3	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr17:79077849C>T	uc002jzg.2	+	9	1115	c.1007C>T	c.(1006-1008)TCC>TTC	p.S336F	BAIAP2_uc002jyz.3_Missense_Mutation_p.S336F|BAIAP2_uc002jza.2_Missense_Mutation_p.S336F|BAIAP2_uc002jzc.2_Missense_Mutation_p.S336F|BAIAP2_uc002jzb.2_Missense_Mutation_p.S93F|BAIAP2_uc002jzd.2_Missense_Mutation_p.S336F|BAIAP2_uc002jzf.2_Missense_Mutation_p.S336F|BAIAP2_uc002jze.2_Missense_Mutation_p.S369F|BAIAP2_uc010wuh.1_Missense_Mutation_p.S258F|BAIAP2_uc002jzh.2_Missense_Mutation_p.S337F|BAIAP2_uc010wui.1_Missense_Mutation_p.S199F	NM_017451	NP_059345	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2 isoform 2	336					axonogenesis|filopodium assembly|insulin receptor signaling pathway|regulation of actin cytoskeleton organization|response to bacterium	cell junction|cytoskeleton|cytosol|filopodium|nucleus|ruffle	cytoskeletal adaptor activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding				0	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CTCAGCGACTCCTACTCCAAC	0.637													21	103					0	0	0.001882	0	0		T	79077849	T	T	79077849	3	4	125	1	0	0	0	0	1	0	0	0	1302	855	30	4	1041	4	BAIAP2	17	79077849	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08	2033894	79077849	2117361	47	68984											
EPB41L3	23136	broad.mit.edu	37	chr18	5398076	5398076	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgaattctgttggttttcGcgcagactctaataaactga	11	15	8	7	2	2	3	0	2	2	1	3	3	2	3	0	1	1	3	0	1	5	7			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr18:5398076G>A	uc002kmt.1	-	17	2502	c.2416C>T	c.(2416-2418)CGA>TGA	p.R806*	EPB41L3_uc010wzh.1_Nonsense_Mutation_p.R637*|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Nonsense_Mutation_p.R111*|EPB41L3_uc010wzf.1_Nonsense_Mutation_p.R103*|EPB41L3_uc010wzg.1_Nonsense_Mutation_p.R78*|EPB41L3_uc010dkr.2_Nonsense_Mutation_p.R198*	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	806	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GTTGGTTTTCGCGCAGACTCT	0.453													79	251					0	0	0.00361	0	0		A	5398076	A	A	5398076	4	1	125	1	0	0	0	0	0	1	0	0	5162	1095	38	1	871	1	EPB41L3	18	5398076	Nonsense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08		5398076	72679172	48	68985											
ROCK1	6093	broad.mit.edu	37	chr18	18546911	18546911	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atcagtttcatcagcactagGaaaactagcaacacttgtag	15	10	7	9	0	3	0	3	0	0	0	3	1	3	1	0	1	4	4	0	1	6	5			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr18:18546911G>C	uc002kte.2	-	27	4260	c.3319C>G	c.(3319-3321)CCT>GCT	p.P1107A		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	1107					actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					TCAGCACTAGGAAAACTAGCA	0.378													25	166					0	0	0.00632	0	0		C	18546911	C	C	18546911	3	2	125	1	0	0	0	0	1	0	0	0	13542	1174	41	5	773	5	ROCK1	18	18546911	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08	13148835	18546911	59530337	49	68986											
DCC	1630	broad.mit.edu	37	chr18	50734076	50734076	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggttgatggactatcttatAaactggaaggcctgaaaaaa	16	10	10	5	0	1	2	0	2	1	0	1	4	1	4	1	4	1	1	1	4	8	4			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr18:50734076A>G	uc002lfe.1	+	11	2337	c.1750A>G	c.(1750-1752)AAA>GAA	p.K584E	DCC_uc010xdr.1_Missense_Mutation_p.K432E|DCC_uc010dpf.1_Missense_Mutation_p.K239E	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	584	Extracellular (Potential).|Fibronectin type-III 2.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		ACTATCTTATAAACTGGAAGG	0.378													6	70					0	0	0.004482	0	0		G	50734076	G	G	50734076	3	3	125	1	0	0	0	0	1	0	0	0	4285	363	13	3	1792	3	DCC	18	50734076	Missense_Mutation	SNP	A	TCGA-CG-4301-01A-01D-1158-08	32187165	50734076	27343172	50	68987											
PNPLA6	10908	broad.mit.edu	37	chr19	7624011	7624011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcgactgcttcaagaccatgGactttgggaagttcgaccag	10	10	11	10	2	1	1	1	0	0	1	3	5	1	3	2	2	1	2	2	2	2	3			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr19:7624011G>A	uc010xjq.1	+	30	3898	c.3703G>A	c.(3703-3705)GAC>AAC	p.D1235N	PNPLA6_uc002mgq.1_Missense_Mutation_p.D1187N|PNPLA6_uc010xjp.1_Missense_Mutation_p.D1160N|PNPLA6_uc002mgr.1_Missense_Mutation_p.D1187N|PNPLA6_uc002mgs.2_Missense_Mutation_p.D1225N|PNPLA6_uc002mgt.1_RNA	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	1226	Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						CAAGACCATGGACTTTGGGAA	0.577													9	45					0	0	0.008291	0	0		A	7624011	A	A	7624011	3	1	125	1	0	0	0	0	1	0	0	0	12188	1174	41	4	3817	4	PNPLA6	19	7624011	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08		7624011	51504972	51	68988											
BRD4	23476	broad.mit.edu	37	chr19	15379809	15379809	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttttccaagcgcttcttTattgttcccatatccatagg	7	18	6	10	1	1	0	0	0	1	0	4	0	4	0	3	1	1	3	3	1	4	10			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr19:15379809T>A	uc002nar.2	-	3	552	c.330A>T	c.(328-330)ATA>ATT	p.I110I	BRD4_uc002nas.2_Silent_p.I110I|BRD4_uc002nat.3_Silent_p.I110I|BRD4_uc002nau.3_Silent_p.I110I	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	110	Bromo 1.				interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			AGCGCTTCTTTATTGTTCCCA	0.413			T	NUT|C15orf55	lethal midline carcinoma of young people								14	121					0	0	0.00499	0	0		A	15379809	A	A	15379809	2	1	125	1	0	0	0	0	0	0	0	1	1507	1744	61	5		5	BRD4	19	15379809	Silent	SNP	T	TCGA-CG-4301-01A-01D-1158-08	7755798	15379809	43749174	52	68989											
DDA1	79016	broad.mit.edu	37	chr19	17424912	17424912	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactccgtgtgcaaagcctcGgtgagtgcgtgttcctggga	6	10	15	10	3	0	1	0	1	0	0	3	3	2	2	3	2	3	2	3	2	1	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr19:17424912G>A	uc002ngd.2	+	2	211	c.84G>A	c.(82-84)TCG>TCA	p.S28S	DDA1_uc002nge.2_5'UTR	NM_024050	NP_076955	Q9BW61	DDA1_HUMAN	DET1 and DDB1 associated 1	28										ovary(1)	1						GCAAAGCCTCGGTGAGTGCGT	0.542													17	84					0	0	0.001882	0	0		A	17424912	A	A	17424912	2	1	125	1	0	0	0	0	0	0	0	1	4323	1130	39	1		1	DDA1	19	17424912	Silent	SNP	G	TCGA-CG-4301-01A-01D-1158-08	2045103	17424912	41704071	53	68990											
FGF21	26291	broad.mit.edu	37	chr19	49260235	49260235	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttattcaaatcttgggagtCaagacatccaggttcctgtg	10	13	10	8	0	3	1	2	0	1	1	5	2	5	2	2	2	0	2	2	2	3	4			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr19:49260235C>A	uc002pkn.1	+	3	860	c.288C>A	c.(286-288)GTC>GTA	p.V96V	FUT1_uc002pkk.2_5'Flank|FUT1_uc002pkm.1_5'Flank|FGF21_uc002pko.1_Silent_p.V96V	NM_019113	NP_061986	Q9NSA1	FGF21_HUMAN	fibroblast growth factor 21 precursor	96					cell-cell signaling|positive regulation of ERK1 and ERK2 cascade|positive regulation of glucose import	extracellular region|soluble fraction	growth factor activity			breast(1)	1		all_lung(116;1.7e-06)|all_epithelial(76;3.52e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000348)|Epithelial(262;0.019)|GBM - Glioblastoma multiforme(486;0.022)		TCTTGGGAGTCAAGACATCCA	0.567													27	233					1.80694e-10	2.74472e-10	0.001786	1	0		A	49260235	A	A	49260235	2	1	125	1	0	0	0	0	0	0	0	1	5864	813	29	5		5	FGF21	19	49260235	Silent	SNP	C	TCGA-CG-4301-01A-01D-1158-08	31835323	49260235	9868748	54	68991											
ZNF841	284371	broad.mit.edu	37	chr19	52569335	52569335	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagaccttgccacacacAttacatttgtaaggtttctc	12	13	6	10	0	1	2	0	1	1	1	2	2	1	2	2	1	2	2	2	1	3	5			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr19:52569335A>C	uc002pyl.1	-	5	2004	c.1452T>G	c.(1450-1452)AAT>AAG	p.N484K	ZNF841_uc010ydh.1_Missense_Mutation_p.N600K|ZNF841_uc010epk.1_Intron	NM_001136499	NP_001129971	Q6ZN19	ZN841_HUMAN	zinc finger protein 841	484	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGCCACACACATTACATTTGT	0.428													28	131					0	0	0.004656	0	0		C	52569335	C	C	52569335	3	2	125	1	0	0	0	0	1	0	0	0	18214	214	8	5	978	5	ZNF841	19	52569335	Missense_Mutation	SNP	A	TCGA-CG-4301-01A-01D-1158-08	3309100	52569335	6559648	55	68992											
C20orf85	128602	broad.mit.edu	37	chr20	56730598	56730598	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcgtttccgcatccggccGgtgaccccagtggagaagta	8	7	14	12	4	0	2	0	1	0	1	2	4	2	2	5	3	1	3	5	3	2	2			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr20:56730598G>A	uc002xyv.2	+	3	263	c.225G>A	c.(223-225)CCG>CCA	p.P75P		NM_178456	NP_848551	Q9H1P6	CT085_HUMAN	hypothetical protein LOC128602	75										ovary(1)	1	all_epithelial(3;5.99e-14)|Lung NSC(12;0.000152)|all_lung(29;0.000518)|Melanoma(10;0.118)		BRCA - Breast invasive adenocarcinoma(13;5.53e-12)|Epithelial(14;7.42e-08)|all cancers(14;7.19e-07)			GCATCCGGCCGGTGACCCCAG	0.438													12	98					0	0	0.004007	0	0		A	56730598	A	A	56730598	2	1	125	1	0	0	0	0	0	0	0	1	2123	1103	39	1		1	C20orf85	20	56730598	Silent	SNP	G	TCGA-CG-4301-01A-01D-1158-08		56730598	6294922	56	68993											
KRTAP11-1	337880	broad.mit.edu	37	chr21	32253653	32253653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaggttggctggcaagcaGtgggctcacagcaggtctct	9	8	14	10	0	2	0	1	0	1	0	3	0	2	0	0	5	3	6	0	5	2	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chr21:32253653G>A	uc002yov.2	-	1	222	c.191C>T	c.(190-192)ACT>ATT	p.T64I		NM_175858	NP_787054	Q8IUC1	KR111_HUMAN	keratin associated protein 11-1	64						keratin filament	structural molecule activity			pancreas(1)	1						CTGGCAAGCAGTGGGCTCACA	0.562													9	84					0	0	0.008291	0	0		A	32253653	A	A	32253653	3	1	125	1	0	0	0	0	1	0	0	0	8533	1029	36	4	304	4	KRTAP11-1	21	32253653	Missense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08		32253653	15876242	57	68994											
CCDC22	28952	broad.mit.edu	37	chrX	49104740	49104740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgcgcggtggagctgctgcCcgatgggactgccaaccttg	5	7	15	14	4	0	0	0	0	0	0	0	3	0	2	4	3	5	2	4	3	1	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chrX:49104740C>T	uc004dnd.1	+	10	1337	c.1181C>T	c.(1180-1182)CCC>CTC	p.P394L	CCDC22_uc004dnc.1_RNA	NM_014008	NP_054727	O60826	CCD22_HUMAN	coiled-coil domain containing 22	394										central_nervous_system(1)	1						GAGCTGCTGCCCGATGGGACT	0.557													7	17					0	0	0.001984	0	0		T	49104740	T	T	49104740	3	4	125	1	0	0	0	0	1	0	0	0	2800	623	22	4	1219	4	CCDC22	23	49104740	Missense_Mutation	SNP	C	TCGA-CG-4301-01A-01D-1158-08		49104740	106165820	58	68995											
GSPT2	23708	broad.mit.edu	37	chrX	51487601	51487601	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgcccctggccacaagagTtttgtcccaaatatgattgg	10	11	10	10	0	0	2	0	1	0	1	1	3	1	2	4	2	1	1	4	2	3	4			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chrX:51487601T>G	uc004dpl.2	+	1	1105	c.879T>G	c.(877-879)AGT>AGG	p.S293R		NM_018094	NP_060564	Q8IYD1	ERF3B_HUMAN	peptide chain release factor 3	293				S -> G (in Ref. 2; BAA91612).	cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|translational termination	cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1	Ovarian(276;0.236)					GCCACAAGAGTTTTGTCCCAA	0.443													65	312					0	0	0.00361	0	0		G	51487601	G	G	51487601	3	3	125	1	0	0	0	0	1	0	0	0	6843	1722	60	5	881	5	GSPT2	23	51487601	Missense_Mutation	SNP	T	TCGA-CG-4301-01A-01D-1158-08	2382861	51487601	103782959	59	68996											
ELF4	2000	broad.mit.edu	37	chrX	129206276	129206276	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccagagaatgcccctcctGgtcactagtgtcacccgccc	7	8	8	18	1	2	1	2	0	0	1	4	2	4	1	6	1	1	0	6	1	2	1			TCGA-CG-4301-01A-01D-1158-08	TCGA-CG-4301-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2aaa578-47b2-4cba-8014-39c1f310c0bf	7a4e827f-75e1-4b82-b8e1-cc7077849fba	g.chrX:129206276G>A	uc004evd.3	-	5	842	c.457C>T	c.(457-459)CAG>TAG	p.Q153*	ELF4_uc004eve.3_Nonsense_Mutation_p.Q153*	NM_001421	NP_001412	Q99607	ELF4_HUMAN	E74-like factor 4	153	RUNX1-binding.				natural killer cell proliferation|NK T cell proliferation|positive regulation of transcription from RNA polymerase II promoter	PML body	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGCCCCTCCTGGTCACTAGTG	0.562			T	ERG	AML								15	168					0	0	0.004007	0	0		A	129206276	A	A	129206276	4	1	125	1	0	0	0	0	0	1	0	0	5064	1357	47	4	1554	4	ELF4	23	129206276	Nonsense_Mutation	SNP	G	TCGA-CG-4301-01A-01D-1158-08	77718675	129206276	26064284	60	68997											
ARHGEF16	27237	broad.mit.edu	37	chr1	3396111	3396112	+	Frame_Shift_Del	DEL	CA	-	-																															gcacggtggatcgtggcgctCacacacagtgagagacagtg																										TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:3396111_3396112delCA	uc001akg.3	+	13	2093_2094	c.1845_1846delCA	c.(1843-1848)CTCACAfs	p.L615fs	ARHGEF16_uc001aki.2_Frame_Shift_Del_p.L327fs|ARHGEF16_uc001akj.2_Frame_Shift_Del_p.L327fs|ARHGEF16_uc010nzh.1_Frame_Shift_Del_p.L319fs	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	615_616	PH.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		TCGTGGCGCTCACACACAGTGA	0.653													17	34	---	---	---	---						.	-	3396112	-	-	3396111	7	5	126	1	0	1	0	1	0	0	0	0	899	813	29	0	1891	0	ARHGEF16	1	3396111	Frame_Shift_Del	DEL	CA	TCGA-CG-4304-01A-01D-1158-08		3396111	245854510	1	68998											
PTCHD2	57540	broad.mit.edu	37	chr1	11579853	11579853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctccaacacgggcagcCgcggccatctcatcgtgcag	8	5	11	17	4	1	0	1	0	1	0	4	0	2	0	4	2	4	2	4	2	1	0			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:11579853C>T	uc001ash.3	+	9	2254	c.2116C>T	c.(2116-2118)CGC>TGC	p.R706C	PTCHD2_uc001asi.1_Missense_Mutation_p.R706C	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	706	Cytoplasmic (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CACGGGCAGCCGCGGCCATCT	0.667													47	63					0	0	0.00361	0	0		T	11579853	T	T	11579853	3	4	126	1	0	0	0	0	1	0	0	0	12755	652	23	1	2146	1	PTCHD2	1	11579853	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	8183742	11579853	237670768	2	68999											
USP48	84196	broad.mit.edu	37	chr1	22079022	22079022	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttgaaacagacttacacAgttacataggcatattctcc	15	11	6	9	0	1	2	0	1	1	1	2	2	1	2	1	1	3	3	1	1	6	6			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:22079022A>C	uc001bfb.2	-	5	901	c.663T>G	c.(661-663)ACT>ACG	p.T221T	USP48_uc010odq.1_Silent_p.T221T|USP48_uc009vqc.2_Silent_p.T221T|USP48_uc001bfc.2_Silent_p.T221T|USP48_uc001bfe.1_Silent_p.T221T|USP48_uc001bff.2_Silent_p.T221T	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	221					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		AGACTTACACAGTTACATAGG	0.348													4	59					0	0	0.000248	0	0		C	22079022	C	C	22079022	2	2	126	1	0	0	0	0	0	0	0	1	17105	175	7	5		5	USP48	1	22079022	Silent	SNP	A	TCGA-CG-4304-01A-01D-1158-08	10499169	22079022	227171599	3	69000											
ELTD1	64123	broad.mit.edu	37	chr1	79404873	79404873	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttaactgttctacttacTtttgttaaagttttattaat	10	23	4	4	0	1	0	0	0	1	0	1	0	1	0	0	0	3	4	0	0	7	11			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:79404873T>A	uc001diq.3	-	4	552	c.396A>T	c.(394-396)AAA>AAT	p.K132N		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	132	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		TTCTACTTACTTTTGTTAAAG	0.254													5	8					0	0	0.001168	0	0		A	79404873	A	A	79404873	3	1	126	1	0	0	0	0	1	0	0	0	5092	1623	56	5	1724	5	ELTD1	1	79404873	Missense_Mutation	SNP	T	TCGA-CG-4304-01A-01D-1158-08	57325851	79404873	169845748	4	69001											
COL24A1	255631	broad.mit.edu	37	chr1	86591429	86591429	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaacacactattagaatcaAaggtctgaacttctggaata	17	11	6	7	0	3	2	1	1	2	1	3	3	3	3	0	2	2	0	0	2	9	5			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:86591429A>G	uc001dlj.2	-	3	632	c.590T>C	c.(589-591)TTT>TCT	p.F197S	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.F197S	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	197	TSP N-terminal.|Laminin G-like.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		ATTAGAATCAAAGGTCTGAAC	0.323													15	20					0	0	0.00245	0	0		G	86591429	G	G	86591429	3	3	126	1	0	0	0	0	1	0	0	0	3686	14	1	3	4786	3	COL24A1	1	86591429	Missense_Mutation	SNP	A	TCGA-CG-4304-01A-01D-1158-08	7186556	86591429	162659192	5	69002											
HIST2H2AB	317772	broad.mit.edu	37	chr1	149859408	149859408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggaactggagaccagcgcggGacgagcgcgacttggcctta	9	5	16	11	5	0	1	0	0	0	1	0	6	0	3	2	4	3	0	2	4	2	2			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:149859408G>A	uc001ete.2	-	1	59	c.59C>T	c.(58-60)TCC>TTC	p.S20F	HIST2H2BE_uc001etc.2_5'Flank	NM_175065	NP_778235	Q8IUE6	H2A2B_HUMAN	histone cluster 2, H2ab	20					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|breast(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			ACCAGCGCGGGACGAGCGCGA	0.637													77	152					0	0	0.00361	0	0		A	149859408	A	A	149859408	3	1	126	1	0	0	0	0	1	0	0	0	7193	1174	41	4	337	4	HIST2H2AB	1	149859408	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	63267979	149859408	99391213	6	69003											
FCRL5	83416	broad.mit.edu	37	chr1	157508895	157508895	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgacggagaggctcacCgccttactgcgctgggggcc	6	6	15	14	3	1	2	1	1	0	1	1	3	1	2	4	4	2	2	4	4	1	1	rs139032379	byFrequency	TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:157508895C>T	uc001fqu.2	-	7	1541	c.1383G>A	c.(1381-1383)GCG>GCA	p.A461A	FCRL5_uc009wsm.2_Silent_p.A461A|FCRL5_uc010phv.1_Silent_p.A461A|FCRL5_uc010phw.1_Silent_p.A376A|FCRL5_uc001fqv.1_Silent_p.A461A|FCRL5_uc010phx.1_Silent_p.A212A	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	461	Extracellular (Potential).|Ig-like C2-type 4.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				AGAGGCTCACCGCCTTACTGC	0.582													16	45					0	0	0.007413	0	0		T	157508895	T	T	157508895	2	4	126	1	0	0	0	0	0	0	0	1	5812	639	23	1		1	FCRL5	1	157508895	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08	7649487	157508895	91741726	7	69004											
OR10J3	441911	broad.mit.edu	37	chr1	159284373	159284373	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagacaacaaagaagacaAgtttgtgctgccgcctgaag	15	6	12	8	1	0	4	0	1	0	3	0	5	0	5	2	1	3	2	2	1	6	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:159284373A>C	uc010piu.1	-	1	77	c.77T>G	c.(76-78)CTT>CGT	p.L26R		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	26	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					AAAGAAGACAAGTTTGTGCTG	0.448													104	276					0	0	0.00361	0	0		C	159284373	C	C	159284373	3	2	126	1	0	0	0	0	1	0	0	0	10930	72	3	5	914	5	OR10J3	1	159284373	Missense_Mutation	SNP	A	TCGA-CG-4304-01A-01D-1158-08	1775478	159284373	89966248	8	69005											
ATP1A4	480	broad.mit.edu	37	chr1	160136448	160136448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcaccctcacccagaaccGcatgaccgtcgcccacatgt	9	5	9	18	3	1	2	1	1	0	1	2	2	1	2	5	1	1	2	5	1	1	0	rs139315814		TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:160136448G>A	uc001fve.3	+	8	1657	c.1178G>A	c.(1177-1179)CGC>CAC	p.R393H	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_5'UTR	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	393	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			ACCCAGAACCGCATGACCGTC	0.577													4	184					0	0	0.000248	0	0		A	160136448	A	A	160136448	3	1	126	1	0	0	0	0	1	0	0	0	1132	1087	38	1	1208	1	ATP1A4	1	160136448	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	852075	160136448	89114173	9	69006											
TNN	63923	broad.mit.edu	37	chr1	175067562	175067562	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggccgccattgacaagtaCgtggtgcgctacacctctgc	8	8	11	14	3	1	1	0	1	1	0	1	1	1	1	3	2	4	2	3	2	3	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:175067562C>T	uc001gkl.1	+	9	2063	c.1950C>T	c.(1948-1950)TAC>TAT	p.Y650Y	TNN_uc010pmx.1_Silent_p.Y561Y	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	650	Fibronectin type-III 5.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		TTGACAAGTACGTGGTGCGCT	0.597													52	101					0	0	0.00361	0	0		T	175067562	T	T	175067562	2	4	126	1	0	0	0	0	0	0	0	1	16348	547	19	1		1	TNN	1	175067562	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08	14931114	175067562	74183059	10	69007											
LAMC1	3915	broad.mit.edu	37	chr1	183087207	183087207	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacccttggaggcctgctcTtaccccttttgaatttcaga	7	15	7	12	0	2	2	1	1	1	1	2	3	2	3	4	2	3	1	4	2	3	6			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:183087207T>A	uc001gpy.3	+	11	2173	c.1916T>A	c.(1915-1917)CTT>CAT	p.L639H		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	639	Laminin IV type A.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGGCCTGCTCTTACCCCTTTT	0.423													23	64					0	0	0.00333	0	0		A	183087207	A	A	183087207	3	1	126	1	0	0	0	0	1	0	0	0	8630	1609	56	5	1958	5	LAMC1	1	183087207	Missense_Mutation	SNP	T	TCGA-CG-4304-01A-01D-1158-08	8019645	183087207	66163414	11	69008											
EPRS	2058	broad.mit.edu	37	chr1	220153467	220153467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagatataaatgcttctattGtagttgtatagtctcctcct	10	17	6	8	0	2	1	0	0	2	1	4	1	3	1	2	0	1	4	2	0	7	9			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:220153467G>A	uc001hly.1	-	26	3941	c.3671C>T	c.(3670-3672)ACA>ATA	p.T1224I		NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	1224	Prolyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	TGCTTCTATTGTAGTTGTATA	0.413													113	336					0	0	0.00361	0	0		A	220153467	A	A	220153467	3	1	126	1	0	0	0	0	1	0	0	0	5199	1377	48	4	895	4	EPRS	1	220153467	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	37066260	220153467	29097154	12	69009											
URB2	9816	broad.mit.edu	37	chr1	229772123	229772123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgctggcccttctccCggacaccccaggcccagagc	5	5	10	21	1	1	1	0	0	1	1	2	2	1	2	7	3	2	1	7	3	0	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr1:229772123C>T	uc001hts.1	+	4	1899	c.1763C>T	c.(1762-1764)CCG>CTG	p.P588L	URB2_uc009xfd.1_Missense_Mutation_p.P588L	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	588						nucleolus				central_nervous_system(2)|ovary(1)	3						GCCCTTCTCCCGGACACCCCA	0.612													21	320					0	0	0.001882	0	0		T	229772123	T	T	229772123	3	4	126	1	0	0	0	0	1	0	0	0	17051	652	23	1	1773	1	URB2	1	229772123	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	9618656	229772123	19478498	13	69010											
NRXN1	9378	broad.mit.edu	37	chr2	51255085	51255085	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgccaggcgccgtcgttAaccggcgtgtcggccaggag	5	7	16	13	6	0	0	0	0	0	0	2	1	0	1	4	4	2	1	4	4	1	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr2:51255085A>C	uc010fbq.2	-	2	1804	c.327T>G	c.(325-327)GTT>GTG	p.V109V	NRXN1_uc002rxe.3_Silent_p.V109V|NRXN1_uc002rxd.1_Silent_p.V109V	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CGCCGTCGTTAACCGGCGTGT	0.662													8	30					0	0	0.000978	0	0		C	51255085	C	C	51255085	2	2	126	1	0	0	0	0	0	0	0	1	10684	349	13	5		5	NRXN1	2	51255085	Silent	SNP	A	TCGA-CG-4304-01A-01D-1158-08		51255085	191944288	14	69011											
ANKRD53	79998	broad.mit.edu	37	chr2	71211788	71211788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatcagaaagtggctccaCggcaagctgcacccaggcca	11	5	11	14	1	1	1	1	0	0	1	2	1	2	1	3	3	2	5	3	3	3	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr2:71211788C>T	uc002shl.3	+	6	1152	c.951C>T	c.(949-951)CAC>CAT	p.H317H	ANKRD53_uc002shk.3_3'UTR|ANKRD53_uc002shm.3_3'UTR	NM_001115116	NP_001108588	Q8N9V6	ANR53_HUMAN	ankyrin repeat domain 53 isoform a	317											0						AGTGGCTCCACGGCAAGCTGC	0.572											OREG0014687	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	69					0	0	0.005443	0	0		T	71211788	T	T	71211788	2	4	126	1	0	0	0	0	0	0	0	1	679	535	19	1		1	ANKRD53	2	71211788	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08	19956703	71211788	171987585	15	69012											
ST6GAL2	84620	broad.mit.edu	37	chr2	107459775	107459775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcatcgccttctgcaggCgcgggttcagcattttggaa	6	12	11	12	3	3	0	2	0	1	0	4	1	3	1	2	3	2	3	2	3	1	5			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr2:107459775C>T	uc002tdq.2	-	2	778	c.659G>A	c.(658-660)CGC>CAC	p.R220H	ST6GAL2_uc002tdr.2_Missense_Mutation_p.R220H|ST6GAL2_uc002tds.3_Missense_Mutation_p.R220H	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	220	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						CTTCTGCAGGCGCGGGTTCAG	0.647													12	17					0	0	0.001368	0	0		T	107459775	T	T	107459775	3	4	126	1	0	0	0	0	1	0	0	0	15247	768	27	1	1037	1	ST6GAL2	2	107459775	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	36247987	107459775	135739598	16	69013											
ZNF385B	151126	broad.mit.edu	37	chr2	180309654	180309654	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaagggctgtattttggCttcagtggtttccctgcaac	6	16	11	8	0	1	0	1	0	0	0	2	0	2	0	1	3	2	6	1	3	3	7			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr2:180309654C>T	uc002unn.3	-	9	1750	c.1146G>A	c.(1144-1146)AAG>AAA	p.K382K	ZNF385B_uc002unj.2_Silent_p.K280K|ZNF385B_uc002unk.2_RNA|ZNF385B_uc002unl.2_Silent_p.K279K|ZNF385B_uc002unm.2_Silent_p.K306K	NM_152520	NP_689733	Q569K4	Z385B_HUMAN	zinc finger protein 385B isoform 1	382						nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			TGTATTTTGGCTTCAGTGGTT	0.468													86	290					0	0	0.00361	0	0		T	180309654	T	T	180309654	2	4	126	1	0	0	0	0	0	0	0	1	17902	796	28	2		2	ZNF385B	2	180309654	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08	72849879	180309654	62889719	17	69014											
DNAH7	56171	broad.mit.edu	37	chr2	196749409	196749409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccactctgtaatttaaacGtatttcgagttcgatctgaa	12	15	6	8	3	2	1	0	1	2	0	4	3	2	1	1	0	2	3	1	0	6	7			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr2:196749409G>A	uc002utj.3	-	35	5764	c.5663C>T	c.(5662-5664)ACG>ATG	p.T1888M		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1888					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TAATTTAAACGTATTTCGAGT	0.363													30	98					0	0	0.001786	0	0		A	196749409	A	A	196749409	3	1	126	1	0	0	0	0	1	0	0	0	4612	1145	40	1	6535	1	DNAH7	2	196749409	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	16439755	196749409	46449964	18	69015											
COL6A3	1293	broad.mit.edu	37	chr2	238249780	238249780	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ccaaatccacaggatgggtcGatgttgcagatgtctagaaa	13	9	11	8	1	1	2	0	0	1	2	3	4	2	3	2	2	1	2	2	2	3	2	rs144249704		TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr2:238249780G>C	uc002vwl.2	-	38	8064	c.7779C>G	c.(7777-7779)ATC>ATG	p.I2593M	COL6A3_uc002vwo.2_Missense_Mutation_p.I2387M|COL6A3_uc010znj.1_Missense_Mutation_p.I1986M|COL6A3_uc002vwj.2_Translation_Start_Site	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2593	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AGGATGGGTCGATGTTGCAGA	0.527													76	149					0	0	0.00361	0	0		C	238249780	C	C	238249780	3	2	126	1	0	0	0	0	1	0	0	0	3704	1048	37	5	1782	5	COL6A3	2	238249780	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	41500371	238249780	4949593	19	69016											
CNTN6	27255	broad.mit.edu	37	chr3	1337484	1337484	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccattagtgcagcgcacTgatggtaagataatgagtta	13	11	10	7	1	0	3	0	2	0	1	1	3	1	3	1	1	2	4	1	1	4	4			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr3:1337484T>G	uc003boz.2	+	6	921	c.654T>G	c.(652-654)ACT>ACG	p.T218T	CNTN6_uc010hbo.2_Silent_p.T213T|CNTN6_uc011asj.1_Silent_p.T146T|CNTN6_uc003bpa.2_Silent_p.T218T	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	218					axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TGCAGCGCACTGATGGTAAGA	0.438													19	45					0	0	0.002299	0	0		G	1337484	G	G	1337484	2	3	126	1	0	0	0	0	0	0	0	1	3648	1567	55	5		5	CNTN6	3	1337484	Silent	SNP	T	TCGA-CG-4304-01A-01D-1158-08		1337484	196684946	20	69017											
CACNA2D3	55799	broad.mit.edu	37	chr3	54871251	54871251	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtgtttagtaagcagaaCgaaaccgtgagtacagtcgc	12	9	11	9	3	0	2	0	1	0	1	1	3	0	2	2	0	4	4	2	0	5	4			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr3:54871251C>T	uc003dhf.2	+	15	1512	c.1464C>T	c.(1462-1464)AAC>AAT	p.N488N	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Silent_p.N394N|CACNA2D3_uc003dhh.1_RNA|CACNA2D3_uc010hmv.1_Silent_p.N222N	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	488	Extracellular (Potential).|Cache.					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		GTAAGCAGAACGAAACCGTGA	0.517													51	184					0	0	0.00361	0	0		T	54871251	T	T	54871251	2	4	126	1	0	0	0	0	0	0	0	1	2553	535	19	1		1	CACNA2D3	3	54871251	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08	53533767	54871251	143151179	21	69018											
C3orf52	79669	broad.mit.edu	37	chr3	111828417	111828417	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtacagtacatcgcccTctctgggtcgttattttact	7	16	8	10	2	1	0	0	0	1	0	4	0	1	0	1	1	3	3	1	1	4	5			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr3:111828417T>G	uc003dyq.3	+	4	497	c.424T>G	c.(424-426)TCT>GCT	p.S142A	C3orf52_uc011bhs.1_Intron|C3orf52_uc011bht.1_Intron|C3orf52_uc003dyr.1_5'Flank	NM_024616	NP_078892	Q5BVD1	TTMP_HUMAN	TPA-induced transmembrane protein	142						endoplasmic reticulum membrane|integral to membrane					0						TACATCGCCCTCTCTGGGTCG	0.413													5	15					0	0	0.001984	0	0		G	111828417	G	G	111828417	3	3	126	1	0	0	0	0	1	0	0	0	2235	1551	54	5	438	5	C3orf52	3	111828417	Missense_Mutation	SNP	T	TCGA-CG-4304-01A-01D-1158-08	56957166	111828417	86194013	22	69019											
PODXL2	50512	broad.mit.edu	37	chr3	127381088	127381088	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctcgcacaggtgatctgCaaggactggagcaatctggc	9	8	12	12	1	2	1	0	1	2	0	4	3	3	3	1	4	2	3	1	4	2	0			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr3:127381088C>A	uc003ejq.2	+	4	1164	c.1140C>A	c.(1138-1140)TGC>TGA	p.C380*		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	380	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						AGGTGATCTGCAAGGACTGGA	0.547													4	67					0.000602214	0.000700535	0.000602	1	0		A	127381088	A	A	127381088	4	1	126	1	0	0	0	0	0	1	0	0	12200	718	25	5	1154	5	PODXL2	3	127381088	Nonsense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	15552671	127381088	70641342	23	69020											
RASGEF1B	153020	broad.mit.edu	37	chr4	82355019	82355019	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcactgaagactggtactgtGagcagatactgcaagatctt	12	11	10	8	0	2	5	1	2	1	3	2	5	2	5	0	1	4	3	0	1	4	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr4:82355019G>A	uc003hmi.1	-	12	1443	c.1299C>T	c.(1297-1299)CTC>CTT	p.L433L	RASGEF1B_uc003hmj.1_Silent_p.L432L|RASGEF1B_uc010ijq.1_Silent_p.L391L	NM_152545	NP_689758	Q0VAM2	RGF1B_HUMAN	RasGEF domain family, member 1B	433	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						CTGGTACTGTGAGCAGATACT	0.423													65	151					0	0	0.00361	0	0		A	82355019	A	A	82355019	2	1	126	1	0	0	0	0	0	0	0	1	13095	1277	45	4		4	RASGEF1B	4	82355019	Silent	SNP	G	TCGA-CG-4304-01A-01D-1158-08		82355019	108799257	24	69021											
HNRNPA0	10949	broad.mit.edu	37	chr5	137089636	137089636	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagcgcttggtctggggattCaccaccaccacgcagtccgt	7	8	12	14	3	2	0	1	0	1	0	3	2	3	1	4	3	1	2	4	3	0	2			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr5:137089636C>T	uc003lbt.2	-	1	404	c.120G>A	c.(118-120)GTG>GTA	p.V40V	MYOT_uc011cye.1_Intron|HNRNPA0_uc010jeo.2_Intron	NM_006805	NP_006796	Q13151	ROA0_HUMAN	heterogeneous nuclear ribonucleoprotein A0	40	RRM 1.				nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|RNA binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TCTGGGGATTCACCACCACCA	0.642													26	43					0	0	0.007291	0	0		T	137089636	T	T	137089636	2	4	126	1	0	0	0	0	0	0	0	1	7272	813	29	4		4	HNRNPA0	5	137089636	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08		137089636	43825624	25	69022											
GRIA1	2890	broad.mit.edu	37	chr5	153030042	153030042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggctggtggtggtggactgtGaatcagaacgcctcaatgct	8	10	15	8	1	2	2	2	1	0	1	2	3	2	3	1	5	2	2	1	5	3	0			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr5:153030042G>A	uc003lva.3	+	4	978	c.613G>A	c.(613-615)GAA>AAA	p.E205K	GRIA1_uc003luy.3_Missense_Mutation_p.E205K|GRIA1_uc003luz.3_Missense_Mutation_p.E110K|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.E125K|GRIA1_uc011dcx.1_Missense_Mutation_p.E136K|GRIA1_uc011dcy.1_Missense_Mutation_p.E215K|GRIA1_uc011dcz.1_Missense_Mutation_p.E215K|GRIA1_uc010jia.1_Missense_Mutation_p.E185K	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	205	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	GGTGGACTGTGAATCAGAACG	0.532													15	52					0	0	0.003163	0	0		A	153030042	A	A	153030042	3	1	126	1	0	0	0	0	1	0	0	0	6783	1291	45	4	627	4	GRIA1	5	153030042	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	15940406	153030042	27885218	26	69023											
FLT4	2324	broad.mit.edu	37	chr5	180040051	180040051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggccctcatccttgtgcCgtctctcagccgctggcaga	4	9	12	16	3	3	1	2	0	1	1	5	1	4	1	4	3	2	2	4	3	0	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr5:180040051C>T	uc003mma.3	-	25	3470	c.3391G>A	c.(3391-3393)GGC>AGC	p.G1131S	FLT4_uc003mlz.3_Missense_Mutation_p.G1131S	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	1131	Cytoplasmic (Potential).|Protein kinase.				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	ATCCTTGTGCCGTCTCTCAGC	0.667									Congenital_Hereditary_Lymphedema				29	72					0	0	0.005443	0	0		T	180040051	T	T	180040051	3	4	126	1	0	0	0	0	1	0	0	0	5958	652	23	1	732	1	FLT4	5	180040051	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	27010009	180040051	875209	27	69024											
HIST1H2AC	8334	broad.mit.edu	37	chr6	26124688	26124688	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcggctcgcgacaacaagaaGactcgcatcatcccgcgcca	11	4	10	16	6	1	2	1	0	0	2	4	3	2	2	2	1	1	2	2	1	3	0			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr6:26124688G>C	uc003ngm.2	+	1	316	c.228G>C	c.(226-228)AAG>AAC	p.K76N	HIST1H2BC_uc003ngk.3_5'Flank|HIST1H2BC_uc003ngl.2_5'Flank|HIST1H2AC_uc003ngn.2_RNA|HIST1H2AC_uc003ngo.2_RNA|HIST1H2AC_uc003ngp.2_Missense_Mutation_p.K76N	NM_003512	NP_003503	Q93077	H2A1C_HUMAN	histone cluster 1, H2ac	76					nucleosome assembly	nucleosome|nucleus	DNA binding				0						ACAACAAGAAGACTCGCATCA	0.657													47	145					0	0	0.00361	0	0		C	26124688	C	C	26124688	3	2	126	1	0	0	0	0	1	0	0	0	7146	933	33	5	230	5	HIST1H2AC	6	26124688	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08		26124688	144990379	28	69025											
HIST1H2AM	8336	broad.mit.edu	37	chr6	27860703	27860703	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcgggatgatgcgggtcttTttgttgtcgcgggctgcgtt	2	14	17	8	6	1	1	0	1	1	0	2	2	1	2	0	3	2	3	0	3	0	4			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr6:27860703T>C	uc003nkb.1	-	1	261	c.225A>G	c.(223-225)AAA>AAG	p.K75K	HIST1H3J_uc003nka.2_5'Flank|HIST1H2BO_uc003nkc.1_5'Flank	NM_003514	NP_003505	P0C0S8	H2A1_HUMAN	histone cluster 1, H2am	75					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding			ovary(2)	2						TGCGGGTCTTTTTGTTGTCGC	0.642													45	225					0	0	0.002522	0	0		C	27860703	C	C	27860703	2	2	126	1	0	0	0	0	0	0	0	1	7155	1838	64	3		3	HIST1H2AM	6	27860703	Silent	SNP	T	TCGA-CG-4304-01A-01D-1158-08	1736015	27860703	143254364	29	69026											
LRFN2	57497	broad.mit.edu	37	chr6	40359893	40359893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatgtcgaaggagtggctgCgtttggccttgccctccaac	6	10	12	13	2	0	0	0	0	0	0	2	2	1	1	4	3	3	2	4	3	2	2			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr6:40359893C>T	uc003oph.1	-	3	2624	c.2159G>A	c.(2158-2160)CGC>CAC	p.R720H		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	720	Cytoplasmic (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GGAGTGGCTGCGTTTGGCCTT	0.711													6	11					0	0	0.006214	0	0		T	40359893	T	T	40359893	3	4	126	1	0	0	0	0	1	0	0	0	8956	768	27	1	214	1	LRFN2	6	40359893	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	12499190	40359893	130755174	30	69027											
AUTS2	26053	broad.mit.edu	37	chr7	70231198	70231198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccgccctacctgcggaccGagttccatcagcaccagcac	8	6	8	19	3	1	0	1	0	0	0	3	2	3	1	6	1	4	3	6	1	1	2			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr7:70231198G>A	uc003tvw.3	+	9	2310	c.1567G>A	c.(1567-1569)GAG>AAG	p.E523K	AUTS2_uc003tvx.3_Missense_Mutation_p.E523K|AUTS2_uc011keg.1_5'Flank	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	523										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CCTGCGGACCGAGTTCCATca	0.463													15	81					0	0	0.008871	0	0		A	70231198	A	A	70231198	3	1	126	1	0	0	0	0	1	0	0	0	1226	1059	37	1	1746	1	AUTS2	7	70231198	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08		70231198	88907465	31	69028											
PCLO	27445	broad.mit.edu	37	chr7	82764926	82764926	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaactggagccagatccccgCctagagctcttttcatttga	9	11	9	12	1	2	3	1	1	1	2	3	5	3	4	4	1	3	1	4	1	2	4			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr7:82764926C>G	uc003uhx.2	-	3	2229	c.1940G>C	c.(1939-1941)GGC>GCC	p.G647A	PCLO_uc003uhv.2_Missense_Mutation_p.G647A	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	593	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CAGATCCCCGCCTAGAGCTCT	0.448													9	43					0	0	0.004482	0	0		G	82764926	G	G	82764926	3	3	126	1	0	0	0	0	1	0	0	0	11602	739	26	5	13597	5	PCLO	7	82764926	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	12533728	82764926	76373737	32	69029											
PTPRN2	5799	broad.mit.edu	37	chr7	157414082	157414082	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggccagggagcggttcttGggcacgttctcctccctctg	4	10	13	14	3	3	0	0	0	3	0	5	1	4	1	3	4	1	3	3	4	0	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr7:157414082G>A	uc003wno.2	-	15	2437	c.2316C>T	c.(2314-2316)CCC>CCT	p.P772P	PTPRN2_uc003wnp.2_Silent_p.P755P|PTPRN2_uc003wnq.2_Silent_p.P743P|PTPRN2_uc003wnr.2_Silent_p.P734P|PTPRN2_uc011kwa.1_Silent_p.P795P	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	772	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		AGCGGTTCTTGGGCACGTTCT	0.637													84	315					0	0	0.00361	0	0		A	157414082	A	A	157414082	2	1	126	1	0	0	0	0	0	0	0	1	12833	1335	47	4		4	PTPRN2	7	157414082	Silent	SNP	G	TCGA-CG-4304-01A-01D-1158-08	74649156	157414082	1724581	33	69030											
LZTS1	11178	broad.mit.edu	37	chr8	20110556	20110556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcgccgcggccgctcctCgtaggccaggctggaggcaa	6	4	16	15	5	0	0	0	0	0	0	2	1	1	1	4	5	1	5	4	5	2	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr8:20110556C>T	uc003wzr.2	-	2	997	c.886G>A	c.(886-888)GAG>AAG	p.E296K	LZTS1_uc010ltg.1_Missense_Mutation_p.E296K	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	296	Potential.				cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		GGCCGCTCCTCGTAGGCCAGG	0.677													16	70					0	0	0.008871	0	0		T	20110556	T	T	20110556	3	4	126	1	0	0	0	0	1	0	0	0	9156	893	31	1	912	1	LZTS1	8	20110556	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08		20110556	126253466	34	69031											
ASAP1	50807	broad.mit.edu	37	chr8	131088602	131088602	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatagatcttacctttctgaGgtagtttaggaagaactctt	11	15	9	6	0	3	3	0	1	3	2	3	5	3	4	1	2	2	2	1	2	6	7			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr8:131088602G>T	uc003yta.1	-	26	2721	c.2693C>A	c.(2692-2694)CCT>CAT	p.P898H	ASAP1_uc003ysz.1_Missense_Mutation_p.P709H|ASAP1_uc011liw.1_Missense_Mutation_p.P891H	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	898	Pro-rich.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						ACCTTTCTGAGGTAGTTTAGG	0.284													18	64					1.33834e-09	1.58927e-09	0.007413	1	0		T	131088602	T	T	131088602	3	4	126	1	0	0	0	0	1	0	0	0	1011	1000	35	5	712	5	ASAP1	8	131088602	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	110978046	131088602	15275420	35	69032											
ARHGAP39	80728	broad.mit.edu	37	chr8	145773557	145773557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggggttcatagccatagcGcggggaggagggctgcgagt	7	6	20	8	4	1	0	1	0	0	0	1	3	1	2	1	6	3	2	1	6	2	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr8:145773557G>A	uc003zdt.1	-	6	1468	c.913C>T	c.(913-915)CGC>TGC	p.R305C	ARHGAP39_uc011llk.1_Missense_Mutation_p.R305C|ARHGAP39_uc003zds.1_Missense_Mutation_p.R305C	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	305	Pro-rich.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						TAGCCATAGCGCGGGGAGGAG	0.692													14	24					0	0	0.007413	0	0		A	145773557	A	A	145773557	3	1	126	1	0	0	0	0	1	0	0	0	884	1087	38	1	2463	1	ARHGAP39	8	145773557	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	14684955	145773557	590465	36	69033											
NAA35	60560	broad.mit.edu	37	chr9	88632418	88632418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctttctaattacagttcgcCcattgagccgagagatcaca	11	12	7	11	2	3	2	1	1	2	1	4	4	3	2	2	0	2	1	2	0	2	5			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr9:88632418C>T	uc004aoi.3	+	19	1848	c.1711C>T	c.(1711-1713)CCA>TCA	p.P571S	NAA35_uc004aoj.3_Missense_Mutation_p.P571S	NM_024635	NP_078911	Q5VZE5	NAA35_HUMAN	corneal wound healing-related protein	571					smooth muscle cell proliferation	cytoplasm|nucleus|plasma membrane				skin(2)|central_nervous_system(1)	3						TACAGTTCGCCCATTGAGCCG	0.353													12	103					0	0	0.000978	0	0		T	88632418	T	T	88632418	3	4	126	1	0	0	0	0	1	0	0	0	10141	623	22	4	1781	4	NAA35	9	88632418	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08		88632418	52581013	37	69034											
PHF2	5253	broad.mit.edu	37	chr9	96438029	96438029	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtacacgggtggcttccatCgagaccgggctggcggctgc	5	7	17	12	4	0	1	0	0	0	1	2	2	1	1	2	6	2	4	2	6	1	2	rs148663364		TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr9:96438029C>T	uc004aub.2	+	20	2937	c.2790C>T	c.(2788-2790)ATC>ATT	p.I930I	PHF2_uc011lug.1_Silent_p.I813I|PHF2_uc004auc.2_Silent_p.I350I	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	930					liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		TGGCTTCCATCGAGACCGGGC	0.657													23	105					0	0	0.00333	0	0		T	96438029	T	T	96438029	2	4	126	1	0	0	0	0	0	0	0	1	11849	874	31	1		1	PHF2	9	96438029	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08	7805611	96438029	44775402	38	69035											
OR5C1	392391	broad.mit.edu	37	chr9	125551994	125551994	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtacgggacactcattttCatgtacctgcgccccagctc	8	11	8	14	2	2	0	2	0	0	0	3	1	2	1	3	1	4	3	3	1	2	4			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr9:125551994C>A	uc011lzd.1	+	1	783	c.783C>A	c.(781-783)TTC>TTA	p.F261L		NM_001001923	NP_001001923	Q8NGR4	OR5C1_HUMAN	olfactory receptor, family 5, subfamily C,	261	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1						CACTCATTTTCATGTACCTGC	0.587													38	126					6.5261e-18	7.91464e-18	0.00874	1	0		A	125551994	A	A	125551994	3	1	126	1	0	0	0	0	1	0	0	0	11172	825	29	5	785	5	OR5C1	9	125551994	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	29113965	125551994	15661437	39	69036											
ALOX5	240	broad.mit.edu	37	chr10	45938960	45938960	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaacgatgtctacgtgtaCggcatgcggggccgcaagtc	8	8	15	10	5	1	1	0	1	1	0	2	2	1	1	1	3	4	3	1	3	4	2			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr10:45938960C>T	uc001jce.2	+	11	1647	c.1548C>T	c.(1546-1548)TAC>TAT	p.Y516Y	ALOX5_uc009xmt.2_Silent_p.Y484Y|ALOX5_uc010qfg.1_Silent_p.Y516Y	NM_000698	NP_000689	P09917	LOX5_HUMAN	arachidonate 5-lipoxygenase	516	Lipoxygenase.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	cytosol|nuclear envelope lumen|nuclear matrix|nuclear membrane	arachidonate 5-lipoxygenase activity|iron ion binding|lipoxygenase activity|protein binding			ovary(1)|pancreas(1)	2		Lung SC(717;0.0257)			Diethylcarbamazine(DB00711)|Hydrocortisone(DB00741)|Leflunomide(DB01097)|Masoprocol(DB00179)|Meclofenamic acid(DB00939)|Minocycline(DB01017)|Montelukast(DB00471)|Quinacrine(DB01103)|Vitamin E(DB00163)|Zileuton(DB00744)	TCTACGTGTACGGCATGCGGG	0.692													11	23					0	0	0.008291	0	0		T	45938960	T	T	45938960	2	4	126	1	0	0	0	0	0	0	0	1	540	547	19	1		1	ALOX5	10	45938960	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08		45938960	89595787	40	69037											
MYOF	26509	broad.mit.edu	37	chr10	95069867	95069867	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacttaaagcggcgccacacGatgaacttcatggtcttgca	11	9	9	12	3	2	1	1	1	1	0	2	2	2	1	1	2	3	1	1	2	3	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr10:95069867G>A	uc001kin.2	-	53	6180	c.6057C>T	c.(6055-6057)ATC>ATT	p.I2019I	MYOF_uc001kio.2_Silent_p.I2006I|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	2019	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						GGCGCCACACGATGAACTTCA	0.542													19	82					0	0	0.00333	0	0		A	95069867	A	A	95069867	2	1	126	1	0	0	0	0	0	0	0	1	10107	1048	37	1		1	MYOF	10	95069867	Silent	SNP	G	TCGA-CG-4304-01A-01D-1158-08	49130907	95069867	40464880	41	69038											
MRGPRX1	259249	broad.mit.edu	37	chr11	18956197	18956197	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggagccagagcacaactgcGtttcctgtcagcccgacaag	11	6	11	13	2	1	1	1	0	0	1	2	3	2	2	3	1	5	2	3	1	2	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr11:18956197G>A	uc001mpg.2	-	1	353	c.135C>T	c.(133-135)AAC>AAT	p.N45N		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	45	Helical; Name=1; (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						GCACAACTGCGTTTCCTGTCA	0.577													74	531					0	0	0.00361	0	0		A	18956197	A	A	18956197	2	1	126	1	0	0	0	0	0	0	0	1	9784	1136	40	1		1	MRGPRX1	11	18956197	Silent	SNP	G	TCGA-CG-4304-01A-01D-1158-08		18956197	116050319	42	69039											
MUC15	143662	broad.mit.edu	37	chr11	26587340	26587340	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcttgattttcttttccAtggctccccgatagaagtga	8	16	8	9	1	2	3	0	2	2	1	4	4	4	3	3	1	0	1	3	1	2	6			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr11:26587340A>G	uc001mqx.2	-	2	332	c.66T>C	c.(64-66)CAT>CAC	p.H22H	ANO3_uc010rdr.1_Intron|ANO3_uc001mqt.3_Intron|ANO3_uc010rds.1_Intron|ANO3_uc010rdt.1_Intron|MUC15_uc001mqw.2_Silent_p.H49H|MUC15_uc001mqy.2_Silent_p.H49H	NM_145650	NP_663625	Q8N387	MUC15_HUMAN	mucin 15 isoform b	22						extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						TTTCTTTTCCATGGCTCCCCG	0.328													21	77					0	0	0.00333	0	0		G	26587340	G	G	26587340	2	3	126	1	0	0	0	0	0	0	0	1	9990	214	8	3		3	MUC15	11	26587340	Silent	SNP	A	TCGA-CG-4304-01A-01D-1158-08	7631143	26587340	108419176	43	69040											
ZBTB44	29068	broad.mit.edu	37	chr11	130109742	130109742	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagcattagtgctagaCgtgctttgaagtgtaggcaa	11	10	15	5	1	0	2	0	1	0	1	0	4	0	4	0	3	3	5	0	3	5	4			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr11:130109742C>T	uc001qga.2	-	3	1462	c.1068G>A	c.(1066-1068)ACG>ACA	p.T356T	ZBTB44_uc001qgb.3_Silent_p.T356T|ZBTB44_uc001qfx.2_RNA|ZBTB44_uc001qgc.1_Silent_p.T356T|ZBTB44_uc001qfz.2_Silent_p.T356T	NM_014155	NP_054874	Q8NCP5	ZBT44_HUMAN	zinc finger and BTB domain containing 44	356					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0192)|Lung(977;0.235)		TAGTGCTAGACGTGCTTTGAA	0.438													9	28					0	0	0.006214	0	0		T	130109742	T	T	130109742	2	4	126	1	0	0	0	0	0	0	0	1	17570	523	19	1		1	ZBTB44	11	130109742	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08	103522402	130109742	4896774	44	69041											
SRGAP1	57522	broad.mit.edu	37	chr12	64488927	64488929	+	Missense_Mutation	TNP	TTC	AAA	AAA																															gtcttcagcatcaggggattTtcagagtgtctggttcccag																										TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr12:64488927_64488929TTC>AAA	uc010ssp.1	+	14	1677_1679	c.1621_1623TTC>AAA	c.(1621-1623)TTC>AAA	p.F541K	SRGAP1_uc001srv.2_Missense_Mutation_p.F478K	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	541	Rho-GAP.				axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		TCAGGGGATTTTCAGAGTGTCTG	0.404													15	157					0	0	0.004672	0	0		AAA	64488929	AAA	AAA	64488927	3	1	126	1	0	0	0	0	1	0	0	0	15170	1841	64	5	1675	5	SRGAP1	12	64488927	Missense_Mutation	TNP	TTC	TCGA-CG-4304-01A-01D-1158-08		64488927	69362968	45	69042											
RSRC2	65117	broad.mit.edu	37	chr12	122995657	122995657	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaatgaaaaaaattaccTgcagctatttcttgttgttt	15	15	6	5	0	1	2	0	1	1	1	1	2	1	2	1	0	3	4	1	0	7	6			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr12:122995657T>C	uc001ucr.2	-	7	950	c.804A>G	c.(802-804)GCA>GCG	p.A268A	RSRC2_uc001uco.2_Silent_p.A36A|RSRC2_uc001ucp.2_Silent_p.A209A|RSRC2_uc001ucq.2_Silent_p.A36A|RSRC2_uc001ucs.2_Silent_p.A36A|RSRC2_uc001uct.2_Silent_p.A220A|RSRC2_uc001ucu.2_Silent_p.A268A	NM_023012	NP_075388	Q7L4I2	RSRC2_HUMAN	arginine/serine-rich coiled-coil 2 isoform a	268	Potential.									ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.14e-05)|Epithelial(86;0.000183)|BRCA - Breast invasive adenocarcinoma(302;0.201)		AAAAATTACCTGCAGCTATTT	0.244													4	32					0	0	0.000248	0	0		C	122995657	C	C	122995657	2	2	126	1	0	0	0	0	0	0	0	1	13740	1594	55	3		3	RSRC2	12	122995657	Silent	SNP	T	TCGA-CG-4304-01A-01D-1158-08	58506730	122995657	10856238	46	69043											
NUPL1	9818	broad.mit.edu	37	chr13	25882042	25882042	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttttggaaccgggctctttgGatctaaacctgccactgggt	7	13	11	10	1	2	0	0	0	2	0	2	2	2	2	3	4	3	1	3	4	3	4			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr13:25882042G>C	uc001uqi.2	+	2	452	c.206G>C	c.(205-207)GGA>GCA	p.G69A	NUPL1_uc001uqg.1_Missense_Mutation_p.G69A|NUPL1_uc001uqj.2_Missense_Mutation_p.G69A	NM_014089	NP_054808	Q9BVL2	NUPL1_HUMAN	nucleoporin like 1 isoform a	69	14 X 2 AA repeats of F-G.|5.				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore					0		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.0092)|Epithelial(112;0.0477)|OV - Ovarian serous cystadenocarcinoma(117;0.165)|GBM - Glioblastoma multiforme(144;0.244)		GGGCTCTTTGGATCTAAACCT	0.458													29	88					0	0	0.001786	0	0		C	25882042	C	C	25882042	3	2	126	1	0	0	0	0	1	0	0	0	10793	1174	41	5	212	5	NUPL1	13	25882042	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08		25882042	89287836	47	69044											
DCLK1	9201	broad.mit.edu	37	chr13	36686282	36686282	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcttgacgttcaccgaccaGttggggttcacattcttggt	6	14	11	10	2	4	1	2	1	2	0	4	2	4	1	2	3	0	3	2	3	0	6			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr13:36686282G>T	uc001uvf.2	-	3	680	c.447C>A	c.(445-447)AAC>AAA	p.N149K		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	149					cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		TCACCGACCAGTTGGGGTTCA	0.468													39	112					7.88023e-25	9.65964e-25	0.00361	1	0		T	36686282	T	T	36686282	3	4	126	1	0	0	0	0	1	0	0	0	4294	1020	36	5	1806	5	DCLK1	13	36686282	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	10804240	36686282	78483596	48	69045											
GPC5	2262	broad.mit.edu	37	chr13	92345708	92345708	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgcatccggatggctcGccgggatgtgagtccatttg	8	10	14	9	3	0	2	0	1	0	1	3	4	2	4	3	3	1	2	3	3	1	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr13:92345708G>A	uc010tif.1	+	3	959	c.593G>A	c.(592-594)CGC>CAC	p.R198H		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	198						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				CGGATGGCTCGCCGGGATGTG	0.502													59	127					0	0	0.00361	0	0		A	92345708	A	A	92345708	3	1	126	1	0	0	0	0	1	0	0	0	6616	1087	38	1	603	1	GPC5	13	92345708	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	55659426	92345708	22824170	49	69046											
ZNF219	51222	broad.mit.edu	37	chr14	21561022	21561022	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaccctcagtggcaggggtgGcctgcatgccccctgagctt	5	8	14	14	0	1	1	1	1	0	0	1	2	1	1	4	4	3	3	4	4	0	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr14:21561022G>T	uc001vzr.2	-	3	855	c.434C>A	c.(433-435)GCC>GAC	p.A145D	ZNF219_uc001vzs.2_Missense_Mutation_p.A145D|ZNF219_uc010aik.1_Missense_Mutation_p.A145D	NM_016423	NP_057507	Q9P2Y4	ZN219_HUMAN	zinc finger protein 219	145					negative regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|histamine receptor activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)	1	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;9.86e-11)|Epithelial(56;1.27e-08)|all cancers(55;6.06e-08)	GBM - Glioblastoma multiforme(265;0.0191)		GGCAGGGGTGGCCTGCATGCC	0.677											OREG0022565	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	8					2.56e-06	3.00866e-06	0.000248	1	0		T	21561022	T	T	21561022	3	4	126	1	0	0	0	0	1	0	0	0	17798	1203	42	5	1746	5	ZNF219	14	21561022	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08		21561022	85788518	50	69047											
SSTR1	6751	broad.mit.edu	37	chr14	38678850	38678850	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatctacgtgatcctgcgcTatgccaagatgaagacggcc	10	9	10	12	3	2	4	1	2	1	2	3	4	3	4	3	1	3	1	3	1	4	2			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr14:38678850T>A	uc001wul.1	+	3	873	c.256T>A	c.(256-258)TAT>AAT	p.Y86N	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	86	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	GATCCTGCGCTATGCCAAGAT	0.557													58	189					0	0	0.00361	0	0		A	38678850	A	A	38678850	3	1	126	1	0	0	0	0	1	0	0	0	15222	1522	53	5	258	5	SSTR1	14	38678850	Missense_Mutation	SNP	T	TCGA-CG-4304-01A-01D-1158-08	17117828	38678850	68670690	51	69048											
C14orf182	283551	broad.mit.edu	37	chr14	50472506	50472506	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gacttttccagggttgccatCcgacctgtcatttggtctgt	5	15	10	11	1	2	0	1	0	1	0	4	2	4	0	4	2	1	1	4	2	0	4			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr14:50472506C>T	uc001wxi.1	-	1	1733	c.12G>A	c.(10-12)CGG>CGA	p.R4R		NM_001012706	NP_001012724	A1A4T8	CN182_HUMAN	hypothetical protein LOC283551	4											0						GGGTTGCCATCCGACCTGTCA	0.512													9	335					0	0	0.008291	0	0		T	50472506	T	T	50472506	2	4	126	1	0	0	0	0	0	0	0	1	1768	842	30	4		4	C14orf182	14	50472506	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08	11793656	50472506	56877034	52	69049											
KIAA0586	9786	broad.mit.edu	37	chr14	58934502	58934502	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccacctgctggagtgattgtCagcaagccacaccctgtaac	10	8	9	14	0	1	1	1	1	0	0	1	2	1	2	4	1	4	3	4	1	2	2			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr14:58934502C>G	uc001xdv.3	+	15	2349	c.2076C>G	c.(2074-2076)GTC>GTG	p.V692V	KIAA0586_uc010trr.1_Silent_p.V809V|KIAA0586_uc001xdt.3_Silent_p.V724V|KIAA0586_uc001xdu.3_Silent_p.V753V|KIAA0586_uc010trs.1_Silent_p.V683V|KIAA0586_uc010trt.1_Silent_p.V628V|KIAA0586_uc010tru.1_Silent_p.V628V	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	692										ovary(1)	1						GAGTGATTGTCAGCAAGCCAC	0.388													45	141					0	0	0.00361	0	0		G	58934502	G	G	58934502	2	3	126	1	0	0	0	0	0	0	0	1	8202	813	29	5		5	KIAA0586	14	58934502	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08	8461996	58934502	48415038	53	69050											
VIPAR	63894	broad.mit.edu	37	chr14	77917637	77917637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacgcccctcgtgggttgagCcgctattaccagcagtctct	6	10	10	15	3	1	1	0	1	1	0	3	1	1	1	4	1	3	3	4	1	2	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr14:77917637C>T	uc001xtt.1	-	5	574	c.236G>A	c.(235-237)GGC>GAC	p.G79D	VIPAR_uc001xtu.1_Missense_Mutation_p.G79D|VIPAR_uc010tvj.1_Intron|VIPAR_uc001xtv.1_Missense_Mutation_p.G79D	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894	79					endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1						GTGGGTTGAGCCGCTATTACC	0.483													5	334					0	0	0.001168	0	0		T	77917637	T	T	77917637	3	4	126	1	0	0	0	0	1	0	0	0	17194	739	26	2	1313	2	VIPAR	14	77917637	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	18983135	77917637	29431903	54	69051											
AP4E1	23431	broad.mit.edu	37	chr15	51250862	51250862	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctaatacagttgagagattAatccatgaatttaccatatc	15	14	5	7	0	1	3	0	2	1	1	3	4	2	3	2	0	2	1	2	0	6	7			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr15:51250862A>C	uc001zyx.1	+	14	1752	c.1722A>C	c.(1720-1722)TTA>TTC	p.L574F		NM_007347	NP_031373	Q9UPM8	AP4E1_HUMAN	adaptor-related protein complex 4, epsilon 1	574					intracellular protein transport|vesicle-mediated transport	COPI vesicle coat	binding|structural molecule activity				0				all cancers(107;0.000893)|GBM - Glioblastoma multiforme(94;0.00364)		TTGAGAGATTAATCCATGAAT	0.363													6	238					0	0	0.00308	0	0		C	51250862	C	C	51250862	3	2	126	1	0	0	0	0	1	0	0	0	752	359	13	5	1776	5	AP4E1	15	51250862	Missense_Mutation	SNP	A	TCGA-CG-4304-01A-01D-1158-08		51250862	51280530	55	69052											
IGDCC4	57722	broad.mit.edu	37	chr15	65678955	65678955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaggaggcccaggcagacaCccacgatgatgcccgtgact	11	4	13	13	2	0	4	0	2	0	2	0	6	0	5	3	3	1	1	3	3	0	0			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr15:65678955C>T	uc002aou.1	-	17	3095	c.2885G>A	c.(2884-2886)GGT>GAT	p.G962D	IGDCC4_uc002aot.1_Missense_Mutation_p.G550D	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	962	Helical; (Potential).					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						CAGGCAGACACCCACGATGAT	0.642											OREG0023195	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	29					0	0	0.000978	0	0		T	65678955	T	T	65678955	3	4	126	1	0	0	0	0	1	0	0	0	7585	507	18	4	883	4	IGDCC4	15	65678955	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	14428093	65678955	36852437	56	69053											
IQGAP1	8826	broad.mit.edu	37	chr15	90984881	90984881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accaggatatactttaccagGctaagcaggacaaaatgaca	17	7	8	9	0	0	1	0	1	0	0	0	3	0	3	2	3	3	2	2	3	6	5			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr15:90984881G>A	uc002bpl.1	+	8	894	c.793G>A	c.(793-795)GCT>ACT	p.A265T		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	265					energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			ACTTTACCAGGCTAAGCAGGA	0.373													45	95					0	0	0.003214	0	0		A	90984881	A	A	90984881	3	1	126	1	0	0	0	0	1	0	0	0	7830	1203	42	2	823	2	IQGAP1	15	90984881	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	25305926	90984881	11546511	57	69054											
CHD2	1106	broad.mit.edu	37	chr15	93567880	93567880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcataggtctcctttggagaGatcactagaacagaaaaaca	16	9	8	8	0	3	3	2	0	1	3	4	5	3	4	1	2	2	0	1	2	5	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr15:93567880G>A	uc002bsp.2	+	39	6007	c.5432G>A	c.(5431-5433)AGA>AAA	p.R1811K		NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1811					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			CCTTTGGAGAGATCACTAGAA	0.478													32	66					0	0	0.002445	0	0		A	93567880	A	A	93567880	3	1	126	1	0	0	0	0	1	0	0	0	3328	942	33	4	5586	4	CHD2	15	93567880	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	2582999	93567880	8963512	58	69055											
C16orf11	146325	broad.mit.edu	37	chr16	614731	614731	+	Frame_Shift_Del	DEL	T	-	-																															gacggggatccaggcggcccTgagacccccggccctgaggg																										TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr16:614731delT	uc002chk.2	+	3	1419	c.1140delT	c.(1138-1140)CCTfs	p.P380fs	NHLRC4_uc002chl.2_5'Flank|PIGQ_uc010bqw.2_5'Flank	NM_145270	NP_660313	P0CG20	CP011_HUMAN	hypothetical protein LOC146325	380	Pro-rich.									central_nervous_system(1)	1						CAGGCGGCCCTGAGACCCCCG	0.731													2	4	---	---	---	---						.	-	614731	-	-	614731	7	5	126	1	0	1	0	1	0	0	0	0	1813	1567	55	0	1146	0	C16orf11	16	614731	Frame_Shift_Del	DEL	T	TCGA-CG-4304-01A-01D-1158-08		614731	89740022	59	69056											
DNAH3	55567	broad.mit.edu	37	chr16	21031006	21031006	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttgggccttgggtggttatCatccatgcccatgatcaggt	6	14	12	9	0	2	1	2	1	0	0	3	1	3	1	3	4	1	1	3	4	1	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr16:21031006C>G	uc010vbe.1	-	41	5962	c.5962G>C	c.(5962-5964)GAT>CAT	p.D1988H		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1988					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GGGTGGTTATCATCCATGCCC	0.423													41	92					0	0	0.00623	0	0		G	21031006	G	G	21031006	3	3	126	1	0	0	0	0	1	0	0	0	4609	826	29	5	6475	5	DNAH3	16	21031006	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	20416275	21031006	69323747	60	69057											
SRCAP	10847	broad.mit.edu	37	chr16	30715408	30715408	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcggacggcatgacaggCagcaatcctgtgtcccctgc	7	8	13	13	2	0	1	0	1	0	0	3	2	2	2	3	3	2	3	3	3	1	0			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr16:30715408C>G	uc002dze.1	+	4	463	c.78C>G	c.(76-78)GGC>GGG	p.G26G	SRCAP_uc002dzf.2_RNA	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	26					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			GCATGACAGGCAGCAATCCTG	0.418													31	93					0	0	0.002096	0	0		G	30715408	G	G	30715408	2	3	126	1	0	0	0	0	0	0	0	1	15160	697	25	5		5	SRCAP	16	30715408	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08	9684402	30715408	59639345	61	69058											
ZFHX3	463	broad.mit.edu	37	chr16	72822564	72822564	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctgctgcacctgtggtTgctgctgctgctgctgctgc	2	12	15	12	0	0	0	0	0	0	0	0	1	0	0	1	2	9	10	1	2	0	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr16:72822564T>G	uc002fck.2	-	10	10284	c.9611A>C	c.(9610-9612)CAA>CCA	p.Q3204P	ZFHX3_uc002fcl.2_Missense_Mutation_p.Q2290P	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3204	Poly-Gln.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				cacctgtggttgctgctgctg	0.522													12	166					0	0	0.001368	0	0		G	72822564	G	G	72822564	3	3	126	1	0	0	0	0	1	0	0	0	17659	1812	63	5	1504	5	ZFHX3	16	72822564	Missense_Mutation	SNP	T	TCGA-CG-4304-01A-01D-1158-08	42107156	72822564	17532189	62	69059											
CNTNAP4	85445	broad.mit.edu	37	chr16	76572099	76572099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaaaaactccagctcccacGctgcttcatttcatggtgat	10	12	7	12	1	2	1	2	1	0	0	4	1	4	1	2	1	3	4	2	1	3	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr16:76572099G>A	uc002feu.1	+	21	3467	c.3082G>A	c.(3082-3084)GCT>ACT	p.A1028T	CNTNAP4_uc002fev.1_Missense_Mutation_p.A892T|CNTNAP4_uc010chb.1_Missense_Mutation_p.A955T|CNTNAP4_uc002fex.1_Missense_Mutation_p.A1031T	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	1028	Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						CAGCTCCCACGCTGCTTCATT	0.363													39	72					0	0	0.004878	0	0		A	76572099	A	A	76572099	3	1	126	1	0	0	0	0	1	0	0	0	3652	1087	38	1	3169	1	CNTNAP4	16	76572099	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	3749535	76572099	13782654	63	69060											
SPATA22	84690	broad.mit.edu	37	chr17	3349846	3349846	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caataactgcagaaataattCttaaagaactagctttttcc	16	13	4	8	0	1	2	0	0	1	2	2	2	2	2	1	0	4	2	1	0	8	7			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr17:3349846C>G	uc002fvm.2	-	7	959	c.722G>C	c.(721-723)AGA>ACA	p.R241T	SPATA22_uc010vrg.1_Missense_Mutation_p.R225T|SPATA22_uc010vrf.1_Missense_Mutation_p.R241T|SPATA22_uc002fvn.2_Missense_Mutation_p.R241T|SPATA22_uc002fvo.2_Missense_Mutation_p.R241T|SPATA22_uc002fvp.2_Missense_Mutation_p.R241T|SPATA22_uc010ckf.2_Missense_Mutation_p.R198T	NM_032598	NP_115987	Q8NHS9	SPT22_HUMAN	spermatogenesis associated 22	241											0						AGAAATAATTCTTAAAGAACT	0.269													16	29					0	0	0.003163	0	0		G	3349846	G	G	3349846	3	3	126	1	0	0	0	0	1	0	0	0	15033	913	32	5	381	5	SPATA22	17	3349846	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08		3349846	77845364	64	69061											
SLFN12L	342615	broad.mit.edu	37	chr17	33806710	33806710	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctggtcttaaatatgcTctccctccagttttttccat	8	18	4	11	0	3	0	0	0	3	0	6	0	5	0	3	1	1	2	3	1	4	6			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr17:33806710T>C	uc002hjn.2	-	3	1485	c.606A>G	c.(604-606)AGA>AGG	p.R202R		NM_001145027	NP_001138499			schlafen family member 12-like											ovary(1)	1						TTAAATATGCTCTCCCTCCAG	0.423													16	53					0	0	0.006122	0	0		C	33806710	C	C	33806710	2	2	126	1	0	0	0	0	0	0	0	1	14760	1548	54	3		3	SLFN12L	17	33806710	Silent	SNP	T	TCGA-CG-4304-01A-01D-1158-08	30456864	33806710	47388500	65	69062											
PCGF2	7703	broad.mit.edu	37	chr17	36895901	36895901	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacatggggcagtatttgttGgtctccaggtagcgcacgat	8	11	13	9	2	1	0	0	0	1	0	2	1	1	0	1	4	1	5	1	4	2	4			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr17:36895901G>A	uc002hqp.1	-	4	390	c.147C>T	c.(145-147)ACC>ACT	p.T49T	PCGF2_uc002hqn.1_Silent_p.T49T|PCGF2_uc002hqo.1_Silent_p.T49T|PCGF2_uc010cvo.1_5'UTR|PCGF2_uc002hqq.1_Silent_p.T49T	NM_007144	NP_009075	P35227	PCGF2_HUMAN	ring finger protein 110	49	RING-type.				negative regulation of transcription from RNA polymerase II promoter	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2	Breast(7;9.07e-22)					AGTATTTGTTGGTCTCCAGGT	0.607													3	106					0	0	0.004672	0	0		A	36895901	A	A	36895901	2	1	126	1	0	0	0	0	0	0	0	1	11594	1335	47	4		4	PCGF2	17	36895901	Silent	SNP	G	TCGA-CG-4304-01A-01D-1158-08	3089191	36895901	44299309	66	69063											
CDK12	51755	broad.mit.edu	37	chr17	37649112	37649112	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attggagaaggaacctatggCcaagtatataaagccaagga	17	7	11	6	0	0	1	0	0	0	1	0	4	0	3	3	4	2	1	3	4	9	5			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr17:37649112C>T	uc010cvv.2	+	4	2803	c.2217C>T	c.(2215-2217)GGC>GGT	p.G739G	CDK12_uc010wef.1_Silent_p.G738G|CDK12_uc002hrw.3_Silent_p.G739G	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	739	ATP (By similarity).|Protein kinase.				mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						GAACCTATGGCCAAGTATATA	0.378										TCGA Ovarian(9;0.13)			29	72					0	0	0.001786	0	0		T	37649112	T	T	37649112	2	4	126	1	0	0	0	0	0	0	0	1	3131	726	26	2		2	CDK12	17	37649112	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08	753211	37649112	43546098	67	69064											
TRIM37	4591	broad.mit.edu	37	chr17	57109276	57109276	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtgggctgcagaagtgaAgcaggtgggcgaggctgtaa	9	7	18	7	1	0	2	0	1	0	1	0	3	0	2	1	4	2	5	1	4	3	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr17:57109276A>T	uc002iwy.3	-	18	2373	c.1929T>A	c.(1927-1929)GCT>GCA	p.A643A	TRIM37_uc002iwz.3_Silent_p.A643A|TRIM37_uc002ixa.3_Silent_p.A521A|TRIM37_uc010woc.1_Silent_p.A609A	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	643						perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					GCAGAAGTGAAGCAGGTGGGC	0.368									Mulibrey_Nanism				57	181					0	0	0.00361	0	0		T	57109276	T	T	57109276	2	4	126	1	0	0	0	0	0	0	0	1	16537	59	3	5		5	TRIM37	17	57109276	Silent	SNP	A	TCGA-CG-4304-01A-01D-1158-08	19460164	57109276	24085934	68	69065											
EVI5L	115704	broad.mit.edu	37	chr19	7914143	7914143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacttgttcccttctaggCatactcgctggtagaccggg	7	11	12	11	2	1	1	0	0	1	1	3	2	2	2	2	4	1	4	2	4	3	6			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr19:7914143C>T	uc002min.2	+	5	708	c.554C>T	c.(553-555)GCA>GTA	p.A185V	EVI5L_uc010xjz.1_Missense_Mutation_p.A185V|EVI5L_uc002mio.1_5'Flank	NM_145245	NP_660288	Q96CN4	EVI5L_HUMAN	ecotropic viral integration site 5-like isoform	185	Rab-GAP TBC.					intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						CCCTTCTAGGCATACTCGCTG	0.652													13	60					0	0	0.004007	0	0		T	7914143	T	T	7914143	3	4	126	1	0	0	0	0	1	0	0	0	5298	724	25	2	568	2	EVI5L	19	7914143	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08		7914143	51214840	69	69066											
LDLR	3949	broad.mit.edu	37	chr19	11218184	11218184	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagatgaacccatcaaaGagtgcggtgagtctcggtgc	10	8	14	9	2	3	4	2	2	1	2	4	4	3	4	1	3	3	0	1	3	2	0			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr19:11218184G>T	uc002mqk.3	+	6	1102	c.934G>T	c.(934-936)GAG>TAG	p.E312*	LDLR_uc010xlk.1_Nonsense_Mutation_p.E312*|LDLR_uc010xll.1_Nonsense_Mutation_p.E271*|LDLR_uc010xlm.1_Nonsense_Mutation_p.E165*|LDLR_uc010xln.1_Nonsense_Mutation_p.E185*|LDLR_uc010xlo.1_Nonsense_Mutation_p.E144*	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	312	Extracellular (Potential).|LDL-receptor class A 7.				cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		Lung NSC(9;0.000245)|Renal(1328;0.0007)|Hepatocellular(1079;0.0524)		GBM - Glioblastoma multiforme(1328;1.36e-05)|STAD - Stomach adenocarcinoma(1328;0.000766)|Lung(535;0.197)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	ACCCATCAAAGAGTGCGGTGA	0.552													20	63					3.28513e-13	3.94215e-13	0.003954	1	0		T	11218184	T	T	11218184	4	4	126	1	0	0	0	0	0	1	0	0	8720	943	33	5	956	5	LDLR	19	11218184	Nonsense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	3304041	11218184	47910799	70	69067											
PSG1	5669	broad.mit.edu	37	chr19	43372329	43372329	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagagcaaacatagagcccGctatgctttgtagtaatatg	14	10	9	8	1	0	2	0	0	0	2	0	2	0	2	1	0	4	5	1	0	6	6	rs142917150		TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr19:43372329G>A	uc002ovb.2	-	5	1305	c.1167C>T	c.(1165-1167)AGC>AGT	p.S389S	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_Intron|PSG1_uc002our.1_Silent_p.S389S|PSG1_uc010eio.1_Silent_p.S389S|PSG1_uc002oux.1_Silent_p.S318S|PSG1_uc002ouy.1_Silent_p.S296S|PSG1_uc002ouz.1_Silent_p.S389S|PSG1_uc002ova.1_Silent_p.S296S|PSG1_uc002ovc.2_Silent_p.S296S|PSG1_uc002ovd.1_Silent_p.S389S	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	389	Ig-like C2-type 3.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				CATAGAGCCCGCTATGCTTTG	0.468													139	279					0	0	0.00361	0	0		A	43372329	A	A	43372329	2	1	126	1	0	0	0	0	0	0	0	1	12675	1078	38	1		1	PSG1	19	43372329	Silent	SNP	G	TCGA-CG-4304-01A-01D-1158-08	32154145	43372329	15756654	71	69068											
LRRC4B	94030	broad.mit.edu	37	chr19	51021716	51021716	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgaagttaagcgtgccGtcatgcaggacggagatgcg	9	9	16	7	4	1	2	1	1	0	1	1	4	1	3	1	3	4	2	1	3	2	2			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr19:51021716G>A	uc002pss.2	-	3	1391	c.1254C>T	c.(1252-1254)GAC>GAT	p.D418D		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	418	Extracellular (Potential).|Ig-like C2-type.					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		TAAGCGTGCCGTCATGCAGGA	0.652													18	45					0	0	0.008871	0	0		A	51021716	A	A	51021716	2	1	126	1	0	0	0	0	0	0	0	1	9025	1136	40	1		1	LRRC4B	19	51021716	Silent	SNP	G	TCGA-CG-4304-01A-01D-1158-08	7649387	51021716	8107267	72	69069											
SIGLEC14	100049587	broad.mit.edu	37	chr19	52148732	52148732	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagggtctttcctacctGtgcctgtgccatttctgaag	7	13	11	10	0	2	2	0	1	2	1	3	3	3	2	4	1	3	0	4	1	3	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr19:52148732G>C	uc002pxf.3	-	4	872	c.752C>G	c.(751-753)ACA>AGA	p.T251R		NM_001098612	NP_001092082	Q08ET2	SIG14_HUMAN	sialic acid binding Ig-like lectin 14 precursor	251	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to membrane|plasma membrane	protein binding|sugar binding			ovary(1)	1		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000965)|OV - Ovarian serous cystadenocarcinoma(262;0.0195)		TTTCCTACCTGTGCCTGTGCC	0.552													35	75					0	0	0.004289	0	0		C	52148732	C	C	52148732	3	2	126	1	0	0	0	0	1	0	0	0	14334	1377	48	5	454	5	SIGLEC14	19	52148732	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	1127016	52148732	6980251	73	69070											
HAS1	3036	broad.mit.edu	37	chr19	52220238	52220238	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctagaggaccgctgatgCaggatacacagtggaagtag	13	7	13	8	1	0	2	0	1	0	1	0	5	0	5	2	3	3	3	2	3	5	4			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr19:52220238C>G	uc002pxo.1	-	3	946	c.911G>C	c.(910-912)TGC>TCC	p.C304S	HAS1_uc010epc.1_5'UTR|HAS1_uc010epd.1_Missense_Mutation_p.C269S|HAS1_uc002pxn.1_Missense_Mutation_p.C311S|HAS1_uc002pxp.1_Missense_Mutation_p.C303S	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1	304	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding			ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		ACCGCTGATGCAGGATACACA	0.507													52	121					0	0	0.00361	0	0		G	52220238	G	G	52220238	3	3	126	1	0	0	0	0	1	0	0	0	6977	710	25	5	837	5	HAS1	19	52220238	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	71506	52220238	6908745	74	69071											
OTOR	56914	broad.mit.edu	37	chr20	16730657	16730657	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaggaagttcccaccacggTaagcatctcaaaagtgacta	15	7	8	11	1	1	1	1	1	1	0	3	2	2	2	2	2	1	3	2	2	6	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr20:16730657T>C	uc002wpj.2	+	3	407	c.363_splice	c.e3+2	p.T121_splice	OTOR_uc002wpk.2_Splice_Site	NM_020157	NP_064542	Q9NRC9	OTOR_HUMAN	otoraplin precursor						sensory perception of sound	extracellular region				ovary(1)|central_nervous_system(1)	2						CCCACCACGGTAAGCATCTCA	0.483													12	50					0	0	0.001855	0	0		C	16730657	C	C	16730657	5	2	126	1	0	0	0	0	0	0	1	0	11327	1652	57	3	375	3	OTOR	20	16730657	Splice_Site	SNP	T	TCGA-CG-4304-01A-01D-1158-08		16730657	46294863	75	69072											
CST8	10047	broad.mit.edu	37	chr20	23472436	23472436	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcaatgcctcaaatgccaaCgtgaagcagtgtctgtggtt	10	11	11	9	1	3	1	2	1	1	0	3	1	3	1	2	1	4	2	2	1	4	1	rs150145986		TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr20:23472436C>T	uc002wth.1	+	2	489	c.132C>T	c.(130-132)AAC>AAT	p.N44N		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	44						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					CAAATGCCAACGTGAAGCAGT	0.507													76	246					0	0	0.00361	0	0		T	23472436	T	T	23472436	2	4	126	1	0	0	0	0	0	0	0	1	3981	535	19	1		1	CST8	20	23472436	Silent	SNP	C	TCGA-CG-4304-01A-01D-1158-08	6741779	23472436	39553084	76	69073											
PTGIS	5740	broad.mit.edu	37	chr20	48124559	48124559	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gggatctccacatctgcgttGatcagctccaagtccaagtg	9	10	10	12	1	3	1	1	1	2	0	6	2	5	2	3	1	2	2	3	1	2	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr20:48124559G>C	uc002xut.2	-	10	1455	c.1401C>G	c.(1399-1401)ATC>ATG	p.I467M	PTGIS_uc010zyi.1_Missense_Mutation_p.I328M	NM_000961	NP_000952	Q16647	PTGIS_HUMAN	prostaglandin I2 synthase	467					hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|prostaglandin-I synthase activity			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(12;2.37e-05)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)		Phenylbutazone(DB00812)	CATCTGCGTTGATCAGCTCCA	0.577													25	104					0	0	0.005443	0	0		C	48124559	C	C	48124559	3	2	126	1	0	0	0	0	1	0	0	0	12775	1280	45	5	105	5	PTGIS	20	48124559	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	24652123	48124559	14900961	77	69074											
KCNJ6	3763	broad.mit.edu	37	chr21	39086934	39086934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgacaatggaccccaacaCagattggattaagagaagaa	18	7	9	7	0	0	4	0	1	0	3	0	7	0	6	2	2	1	0	2	2	5	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr21:39086934C>T	uc011aej.1	-	3	579	c.526G>A	c.(526-528)GTG>ATG	p.V176M	KCNJ6_uc002ywo.2_Missense_Mutation_p.V176M	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	176	Helical; Name=M2; (By similarity).				synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	GACCCCAACACAGATTGGATT	0.433													41	100					0	0	0.002222	0	0		T	39086934	T	T	39086934	3	4	126	1	0	0	0	0	1	0	0	0	8071	478	17	4	753	4	KCNJ6	21	39086934	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08		39086934	9042961	78	69075											
MCM3AP	8888	broad.mit.edu	37	chr21	47664820	47664820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attccagtgcaggtgaggaaGcagccggctgccccctgcct	7	7	13	14	1	0	1	0	1	0	0	1	2	1	2	5	3	5	3	5	3	1	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr21:47664820G>A	uc002zir.1	-	23	4975	c.4939C>T	c.(4939-4941)CTT>TTT	p.L1647F	MCM3APAS_uc002zim.2_Intron|MCM3APAS_uc002zin.2_Intron|MCM3AP_uc002zio.1_Missense_Mutation_p.L142F|MCM3AP_uc002zip.1_Missense_Mutation_p.L388F|MCM3AP_uc002ziq.1_Missense_Mutation_p.L574F|MCM3APAS_uc002zis.1_Intron	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1647					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					AGGTGAGGAAGCAGCCGGCTG	0.632													15	61					0	0	0.00499	0	0		A	47664820	A	A	47664820	3	1	126	1	0	0	0	0	1	0	0	0	9406	971	34	2	1027	2	MCM3AP	21	47664820	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08	8577886	47664820	465075	79	69076											
SUSD2	56241	broad.mit.edu	37	chr22	24583266	24583266	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcccgttcctgagtgTgtccgtcctgctgcctgaga	4	10	14	13	2	0	2	0	2	0	1	3	3	3	2	5	1	2	3	5	1	0	1			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr22:24583266T>G	uc002zzn.1	+	11	1783	c.1739T>G	c.(1738-1740)GTG>GGG	p.V580G		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	580	VWFD.|Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						TTCCTGAGTGTGTCCGTCCTG	0.662													13	41					0	0	0.001368	0	0		G	24583266	G	G	24583266	3	3	126	1	0	0	0	0	1	0	0	0	15433	1696	59	5	1781	5	SUSD2	22	24583266	Missense_Mutation	SNP	T	TCGA-CG-4304-01A-01D-1158-08		24583266	26721300	80	69077											
ACO2	50	broad.mit.edu	37	chr22	41923306	41923306	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgacagaaacatggcatcagGtgggtggtgatcggagacga	12	7	16	6	2	1	4	1	2	0	2	2	6	1	4	0	5	1	1	0	5	1	0			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr22:41923306G>A	uc003bac.2	+	16	1990	c.1968G>A	c.(1966-1968)AGG>AGA	p.R656R	ACO2_uc003bad.2_Silent_p.R681R|POLR3H_uc003bae.2_RNA|POLR3H_uc003baf.2_3'UTR|POLR3H_uc003bag.2_3'UTR|POLR3H_uc003bai.2_3'UTR	NM_001098	NP_001089	Q99798	ACON_HUMAN	aconitase 2, mitochondrial precursor	656					citrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron ion binding|isocitrate hydro-lyase (cis-aconitate-forming) activity			breast(2)|ovary(1)|lung(1)	4						ATGGCATCAGGTGGGTGGTGA	0.637											OREG0026589	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	58					0	0	0.003163	0	0		A	41923306	A	A	41923306	2	1	126	1	0	0	0	0	0	0	0	1	147	1252	44	4		4	ACO2	22	41923306	Silent	SNP	G	TCGA-CG-4304-01A-01D-1158-08	17340040	41923306	9381260	81	69078											
PKDREJ	10343	broad.mit.edu	37	chr22	46658193	46658193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attagctgttatgttggcatCgccaagcatcaccgcctgca	9	11	9	12	2	1	0	1	0	0	0	2	0	1	0	3	1	3	6	3	1	3	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chr22:46658193C>T	uc003bhh.2	-	1	1027	c.1027G>A	c.(1027-1029)GAT>AAT	p.D343N		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	343	Extracellular (Potential).|REJ.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		ATGTTGGCATCGCCAAGCATC	0.572													57	185					0	0	0.00361	0	0		T	46658193	T	T	46658193	3	4	126	1	0	0	0	0	1	0	0	0	11989	884	31	1	5738	1	PKDREJ	22	46658193	Missense_Mutation	SNP	C	TCGA-CG-4304-01A-01D-1158-08	4734887	46658193	4646373	82	69079											
CYLC1	1538	broad.mit.edu	37	chrX	83128123	83128123	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agattccaagaaaaaaggagGttcatatgcaacaaatccag	19	7	8	7	0	1	2	1	0	0	2	3	3	3	3	2	2	2	2	2	2	7	3			TCGA-CG-4304-01A-01D-1158-08	TCGA-CG-4304-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb2c02fb-8044-4ead-b526-a4967c300a77	515dd0bb-8739-48bb-bc81-b3d40f6992cb	g.chrX:83128123G>C	uc004eei.1	+	4	428	c.407G>C	c.(406-408)GGT>GCT	p.G136A	CYLC1_uc004eeh.1_Missense_Mutation_p.G135A	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	136					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						AAAAAAGGAGGTTCATATGCA	0.318													13	11					0	0	0.001855	0	0		C	83128123	C	C	83128123	3	2	126	1	0	0	0	0	1	0	0	0	4144	1261	44	5	421	5	CYLC1	23	83128123	Missense_Mutation	SNP	G	TCGA-CG-4304-01A-01D-1158-08		83128123	72142437	83	69080											
FAM132A	388581	broad.mit.edu	37	chr1	1179802	1179802	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgcttccttaaggcgcCgtcgtccggccgccggacaa	6	6	12	17	7	0	0	0	0	0	0	3	1	2	1	6	3	0	2	6	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:1179802C>G	uc001adl.1	-	2	285	c.253G>C	c.(253-255)GGC>CGC	p.G85R		NM_001014980	NP_001014980	Q5T7M4	F132A_HUMAN	family with sequence similarity 132, member A	85						extracellular region					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;2.22e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CTTAAGGCGCCGTCGTCCGGC	0.677													8	22					0	0	0.00308	0	0		G	1179802	G	G	1179802	3	3	127	1	0	0	0	0	1	0	0	0	5453	652	23	5	683	5	FAM132A	1	1179802	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08		1179802	248070819	1	69081											
UBE2J2	118424	broad.mit.edu	37	chr1	1190787	1190787	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacgaggtgcgtctccccGtctggaaccacgtctggcaa	7	8	13	13	4	3	0	0	0	3	0	4	3	3	2	3	4	2	1	3	4	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:1190787G>A	uc001adn.2	-	7	886	c.576C>T	c.(574-576)GAC>GAT	p.D192D	UBE2J2_uc001adm.2_Silent_p.D157D|UBE2J2_uc001ado.2_Silent_p.D208D|UBE2J2_uc001adp.2_Silent_p.D192D|UBE2J2_uc001adq.2_Silent_p.D140D|UBE2J2_uc001adr.2_Silent_p.D140D|UBE2J2_uc001ads.2_Silent_p.D140D	NM_194458	NP_919440	Q8N2K1	UB2J2_HUMAN	ubiquitin conjugating enzyme E2, J2 isoform 3	192	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ATP binding|ubiquitin-protein ligase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.66e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.53e-21)|Colorectal(212;0.00019)|COAD - Colon adenocarcinoma(227;0.000215)|Kidney(185;0.00255)|BRCA - Breast invasive adenocarcinoma(365;0.00266)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0371)|Lung(427;0.205)		GCGTCTCCCCGTCTGGAACCA	0.587													26	115					0	0	0.004656	0	0		A	1190787	A	A	1190787	2	1	127	1	0	0	0	0	0	0	0	1	16887	1136	40	1		1	UBE2J2	1	1190787	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	10985	1190787	248059834	2	69082											
KIAA0562	9731	broad.mit.edu	37	chr1	3732035	3732035	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggtggggatcttgcttccGgcctttgaccccaaggggcc	4	9	16	12	1	1	1	0	1	1	0	2	2	2	2	5	7	1	1	5	7	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:3732035G>A	uc001aky.2	-	22	3068	c.2709C>T	c.(2707-2709)GCC>GCT	p.A903A	KIAA0562_uc010nzm.1_RNA	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	903						centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		TCTTGCTTCCGGCCTTTGACC	0.642													3	19					0	0	0.000602	0	0		A	3732035	A	A	3732035	2	1	127	1	0	0	0	0	0	0	0	1	8200	1103	39	1		1	KIAA0562	1	3732035	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2541248	3732035	245518586	3	69083											
PLEKHG5	57449	broad.mit.edu	37	chr1	6537676	6537676	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcctcgcagaggttgagggGcccccggcggtgcagctgct	4	6	18	13	3	0	2	0	1	0	1	1	2	0	2	3	6	3	5	3	6	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:6537676G>C	uc001ano.1	-	3	225	c.124C>G	c.(124-126)CCC>GCC	p.P42A	PLEKHG5_uc001ann.1_Missense_Mutation_p.P23A|PLEKHG5_uc001anq.1_Missense_Mutation_p.P63A|PLEKHG5_uc001anp.1_Missense_Mutation_p.P63A|PLEKHG5_uc009vma.1_5'UTR|PLEKHG5_uc010nzr.1_Missense_Mutation_p.P55A|PLEKHG5_uc001ank.1_5'UTR|PLEKHG5_uc009vmb.1_5'UTR|PLEKHG5_uc001anl.1_5'UTR|PLEKHG5_uc001anm.1_5'UTR	NM_001042663	NP_001036128	O94827	PKHG5_HUMAN	pleckstrin homology domain containing family G	42					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			liver(1)	1	Ovarian(185;0.02)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;5.51e-35)|GBM - Glioblastoma multiforme(13;3.57e-27)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00159)|READ - Rectum adenocarcinoma(331;0.0419)		AGGTTGAGGGGCCCCCGGCGG	0.632													31	83					0	0	0.010818	0	0		C	6537676	C	C	6537676	3	2	127	1	0	0	0	0	1	0	0	0	12092	1203	42	5	3144	5	PLEKHG5	1	6537676	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2805641	6537676	242712945	4	69084											
ENO1	2023	broad.mit.edu	37	chr1	8922984	8922984	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttggccaagcgctcagatcgGcaaggggcaccagtcttgat	9	8	13	11	2	2	2	1	1	1	1	3	2	2	2	2	4	1	3	2	4	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:8922984G>A	uc001apj.1	-	11	1348	c.1197C>T	c.(1195-1197)TGC>TGT	p.C399C	ENO1_uc001api.1_Silent_p.C303C|ENO1_uc001apk.1_Silent_p.C344C|ENO1_uc001apl.1_Intron|ENO1_uc009vmi.1_Silent_p.C356C|ENO1_uc009vmj.1_Intron|ENO1_uc009vmk.1_Silent_p.C273C	NM_001428	NP_001419	P06733	ENOA_HUMAN	enolase 1	399					gluconeogenesis|glycolysis|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|response to virus	phosphopyruvate hydratase complex|plasma membrane|sarcomere	DNA binding|magnesium ion binding|phosphopyruvate hydratase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|kidney(1)|central_nervous_system(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;2.54e-20)|all_lung(118;2.99e-06)|Lung NSC(185;6.25e-06)|Renal(390;0.000147)|Breast(348;0.00086)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;2.42e-07)|COAD - Colon adenocarcinoma(227;2.78e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		GCTCAGATCGGCAAGGGGCAC	0.562											OREG0013068	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	29					0	0	0.004482	0	0		A	8922984	A	A	8922984	2	1	127	1	0	0	0	0	0	0	0	1	5129	1195	42	2		2	ENO1	1	8922984	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2385308	8922984	240327637	5	69085											
SPEN	23013	broad.mit.edu	37	chr1	16256697	16256697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaggagagaacagatggCagatatggccaaaataaaac	19	5	11	6	0	0	3	0	0	0	3	0	5	0	4	1	3	3	2	1	3	7	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:16256697C>T	uc001axk.1	+	11	4166	c.3962C>T	c.(3961-3963)GCA>GTA	p.A1321V	SPEN_uc010obp.1_Missense_Mutation_p.A1280V	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1321					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GAACAGATGGCAGATATGGCC	0.378													20	117					0	0	0.007413	0	0		T	16256697	T	T	16256697	3	4	127	1	0	0	0	0	1	0	0	0	15063	710	25	2	4004	2	SPEN	1	16256697	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7333713	16256697	232993924	6	69086											
SPEN	23013	broad.mit.edu	37	chr1	16259137	16259137	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaggaggatggtttatcAtcccagttgaaaagtgatcc	14	10	10	7	0	1	2	1	2	0	0	3	4	3	4	2	3	0	2	2	3	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:16259137A>G	uc001axk.1	+	11	6606	c.6402A>G	c.(6400-6402)TCA>TCG	p.S2134S	SPEN_uc010obp.1_Silent_p.S2093S	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2134	Interaction with MSX2 (By similarity).				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		ATGGTTTATCATCCCAGTTGA	0.567													43	194					0	0	0.010771	0	0		G	16259137	G	G	16259137	2	3	127	1	0	0	0	0	0	0	0	1	15063	204	8	3		3	SPEN	1	16259137	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2440	16259137	232991484	7	69087											
CROCC	9696	broad.mit.edu	37	chr1	17250929	17250929	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggcccagagccgtgcCgagcgcgatgagctcgccat	6	6	14	15	5	0	2	0	1	0	1	1	4	0	2	4	1	5	2	4	1	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:17250929C>T	uc001azt.2	+	3	375	c.306C>T	c.(304-306)GCC>GCT	p.A102A	CROCC_uc009voy.1_Intron|CROCC_uc009voz.1_Intron	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	102	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		AGAGCCGTGCCGAGCGCGATG	0.662													6	30					0	0	0.001168	0	0		T	17250929	T	T	17250929	2	4	127	1	0	0	0	0	0	0	0	1	3896	639	23	1		1	CROCC	1	17250929	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	991792	17250929	231999692	8	69088											
ARHGEF10L	55160	broad.mit.edu	37	chr1	17958909	17958909	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctaattaagtccaaggagCgtcgggtcttcctgctcaac	10	10	10	11	2	2	0	1	0	1	0	5	1	4	1	2	2	4	2	2	2	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:17958909C>A	uc001ban.2	+	16	1837	c.1678C>A	c.(1678-1680)CGT>AGT	p.R560S	ARHGEF10L_uc009vpe.1_Missense_Mutation_p.R521S|ARHGEF10L_uc001bao.2_Missense_Mutation_p.R521S|ARHGEF10L_uc001bap.2_Missense_Mutation_p.R521S|ARHGEF10L_uc010ocr.1_Missense_Mutation_p.R318S|ARHGEF10L_uc001baq.2_Missense_Mutation_p.R326S|ARHGEF10L_uc010ocs.1_Missense_Mutation_p.R338S|ARHGEF10L_uc001bar.2_Missense_Mutation_p.R268S|ARHGEF10L_uc009vpf.2_RNA	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	560					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		GTCCAAGGAGCGTCGGGTCTT	0.597													24	126					1.12875e-08	1.20259e-08	0.00632	1	0		A	17958909	A	A	17958909	3	1	127	1	0	0	0	0	1	0	0	0	895	768	27	5	1736	5	ARHGEF10L	1	17958909	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	707980	17958909	231291712	9	69089											
KLHDC7A	127707	broad.mit.edu	37	chr1	18807675	18807675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagggctcagggcagcctgCtgtacaggaggcttctcctg	7	8	15	11	0	2	1	1	0	1	1	3	2	2	2	2	4	3	5	2	4	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:18807675C>T	uc001bax.2	+	1	252	c.200C>T	c.(199-201)GCT>GTT	p.A67V	KLHDC7A_uc009vpg.2_5'UTR	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	67						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GGGCAGCCTGCTGTACAGGAG	0.652													16	27					0	0	0.004007	0	0		T	18807675	T	T	18807675	3	4	127	1	0	0	0	0	1	0	0	0	8376	797	28	2	202	2	KLHDC7A	1	18807675	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	848766	18807675	230442946	10	69090											
KLHDC7A	127707	broad.mit.edu	37	chr1	18809031	18809031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgagcaggatgtctggcGcccgctggctcgcatgcccc	5	7	14	15	4	1	1	0	1	1	0	2	3	1	2	3	3	2	4	3	3	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:18809031G>A	uc001bax.2	+	1	1608	c.1556G>A	c.(1555-1557)CGC>CAC	p.R519H	KLHDC7A_uc009vpg.2_Missense_Mutation_p.R301H	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	519	Kelch 2.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GATGTCTGGCGCCCGCTGGCT	0.682													13	93					0	0	0.008871	0	0		A	18809031	A	A	18809031	3	1	127	1	0	0	0	0	1	0	0	0	8376	1087	38	1	1558	1	KLHDC7A	1	18809031	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1356	18809031	230441590	11	69091											
HTR6	3362	broad.mit.edu	37	chr1	19992413	19992413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcatctgcactcagcccgCgctgcgcaacacgtccaact	8	7	8	18	4	3	0	2	0	1	0	4	0	4	0	2	0	5	4	2	0	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:19992413C>T	uc001bcl.2	+	1	634	c.167C>T	c.(166-168)GCG>GTG	p.A56V		NM_000871	NP_000862	P50406	5HT6R_HUMAN	5-hydroxytryptamine (serotonin) receptor 6	56	Helical; Name=1; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	histamine receptor activity|protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;5.81e-05)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00117)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)	Granisetron(DB00889)|Ondansetron(DB00904)|Sertindole(DB06144)	ACTCAGCCCGCGCTGCGCAAC	0.547													7	20					0	0	0.001984	0	0		T	19992413	T	T	19992413	3	4	127	1	0	0	0	0	1	0	0	0	7467	768	27	1	169	1	HTR6	1	19992413	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1183382	19992413	229258208	12	69092											
MUL1	79594	broad.mit.edu	37	chr1	20827514	20827514	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagccaaaaaccagcgccAgcaccttccagagcctgacg	14	3	8	16	2	0	2	0	1	0	1	1	2	1	2	6	0	5	1	6	0	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:20827514A>G	uc001bdi.3	-	4	885	c.728T>C	c.(727-729)CTG>CCG	p.L243P		NM_024544	NP_078820	Q969V5	MUL1_HUMAN	mitochondrial ubiquitin ligase activator of NFKB	243	Helical; (Potential).				activation of caspase activity|activation of JUN kinase activity|induction of apoptosis|mitochondrial fission|mitochondrion localization|negative regulation of cell growth|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to mitochondrial outer membrane|nucleus|peroxisome	identical protein binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00748)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000137)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)		AACCAGCGCCAGCACCTTCCA	0.592													15	61					0	0	0.004007	0	0		G	20827514	G	G	20827514	3	3	127	1	0	0	0	0	1	0	0	0	10002	188	7	3	334	3	MUL1	1	20827514	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	835101	20827514	228423107	13	69093											
SH2D5	400745	broad.mit.edu	37	chr1	21052443	21052443	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggctgcccacaaagaggtgGcagaagagcttgctggctgg	9	7	16	9	0	0	3	0	0	0	3	0	3	0	3	1	5	3	5	1	5	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:21052443G>A	uc001bdt.1	-	4	733	c.108C>T	c.(106-108)TGC>TGT	p.C36C	SH2D5_uc009vpy.1_Silent_p.C120C|SH2D5_uc001bdu.1_Intron	NM_001103160	NP_001096630	Q6ZV89	SH2D5_HUMAN	SH2 domain containing 5 isoform 2	36											0		Colorectal(325;3.46e-05)|all_lung(284;5.32e-05)|Lung NSC(340;5.51e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(152;1.17e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000142)|GBM - Glioblastoma multiforme(114;0.000465)|Kidney(64;0.000476)|STAD - Stomach adenocarcinoma(196;0.00303)|KIRC - Kidney renal clear cell carcinoma(64;0.00634)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CAAAGAGGTGGCAGAAGAGCT	0.652													9	17					0	0	0.008291	0	0		A	21052443	A	A	21052443	2	1	127	1	0	0	0	0	0	0	0	1	14262	1195	42	2		2	SH2D5	1	21052443	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	224929	21052443	228198178	14	69094											
EPHB2	2048	broad.mit.edu	37	chr1	23208888	23208888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcatgcatcaggtgagccGcaccgtggacagcattaccc	10	7	10	14	2	2	1	2	1	0	0	2	2	2	2	3	2	4	3	3	2	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:23208888G>A	uc009vqj.1	+	6	1485	c.1340G>A	c.(1339-1341)CGC>CAC	p.R447H	EPHB2_uc001bge.2_Missense_Mutation_p.R447H|EPHB2_uc001bgf.2_Missense_Mutation_p.R447H|EPHB2_uc010odu.1_Missense_Mutation_p.R447H	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	447	Fibronectin type-III 2.|Extracellular (Potential).				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		CAGGTGAGCCGCACCGTGGAC	0.592									Hereditary_Prostate_Cancer				12	70					0	0	0.010729	0	0		A	23208888	A	A	23208888	3	1	127	1	0	0	0	0	1	0	0	0	5183	1087	38	1	1362	1	EPHB2	1	23208888	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2156445	23208888	226041733	15	69095											
TCEB3	6924	broad.mit.edu	37	chr1	24083458	24083458	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcaggatcaagccagccccGtaccccatgggaagcagcca	11	4	11	15	1	1	0	1	0	0	0	1	2	1	2	6	2	6	3	6	2	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:24083458G>A	uc001bho.2	+	10	2238	c.2178G>A	c.(2176-2178)CCG>CCA	p.P726P		NM_003198	NP_003189	Q14241	ELOA1_HUMAN	elongin A	726					positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|viral reproduction	integral to membrane	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.42e-24)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;4.74e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|KIRC - Kidney renal clear cell carcinoma(1967;0.00334)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		AGCCAGCCCCGTACCCCATGG	0.582													56	239					0	0	0.01441	0	0		A	24083458	A	A	24083458	2	1	127	1	0	0	0	0	0	0	0	1	15706	1132	40	1		1	TCEB3	1	24083458	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	874570	24083458	225167163	16	69096											
SRRM1	10250	broad.mit.edu	37	chr1	24989225	24989225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatggtgaggttggcaggCggcggagacattccccttcc	8	8	15	10	2	0	3	0	1	0	2	2	4	2	3	3	6	0	2	3	6	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:24989225C>T	uc001bjm.2	+	12	1782	c.1558C>T	c.(1558-1560)CGG>TGG	p.R520W	SRRM1_uc010oel.1_Missense_Mutation_p.R518W|SRRM1_uc009vrh.1_Missense_Mutation_p.R479W|SRRM1_uc009vri.1_Missense_Mutation_p.R435W|SRRM1_uc010oem.1_RNA	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	520	Necessary for speckles and matrix localization.|Arg-rich.|Ser-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		GGTTGGCAGGCGGCGGAGACA	0.478													17	86					0	0	0.007413	0	0		T	24989225	T	T	24989225	3	4	127	1	0	0	0	0	1	0	0	0	15193	759	27	1	1604	1	SRRM1	1	24989225	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	905767	24989225	224261396	17	69097											
LIN28A	79727	broad.mit.edu	37	chr1	26751934	26751934	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtattgggagtgagaggcgGccaaaaggaaagagcatgca	14	6	16	5	1	0	2	0	1	0	2	0	5	0	4	1	4	2	3	1	4	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:26751934G>A	uc001bmj.2	+	3	483	c.369G>A	c.(367-369)CGG>CGA	p.R123R	LIN28A_uc001bmi.1_RNA	NM_024674	NP_078950	Q9H9Z2	LN28A_HUMAN	lin-28 homolog	123					miRNA catabolic process|pre-miRNA processing|regulation of transcription, DNA-dependent|RNA 3'-end processing|stem cell maintenance	cytoplasmic mRNA processing body|nucleolus|stress granule	DNA binding|zinc ion binding			central_nervous_system(1)	1						GTGAGAGGCGGCCAAAAGGAA	0.512													6	171					0	0	0.001984	0	0		A	26751934	A	A	26751934	2	1	127	1	0	0	0	0	0	0	0	1	8822	1190	42	2		2	LIN28A	1	26751934	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1762709	26751934	222498687	18	69098											
WASF2	10163	broad.mit.edu	37	chr1	27744891	27744891	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaatggtggaacttctgaAggcttttcgggtgttgattc	7	16	13	5	1	1	3	0	3	1	0	3	4	1	4	0	4	1	2	0	4	3	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:27744891A>T	uc001bof.1	-	4	514	c.298T>A	c.(298-300)TTC>ATC	p.F100I	WASF2_uc010ofl.1_Missense_Mutation_p.F100I	NM_006990	NP_008921	Q9Y6W5	WASF2_HUMAN	WAS protein family, member 2	100					actin cytoskeleton organization|G-protein signaling, coupled to cAMP nucleotide second messenger	actin cytoskeleton|lamellipodium	actin binding			skin(2)|ovary(1)	3		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0446)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.7e-08)|COAD - Colon adenocarcinoma(152;2e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00139)|KIRC - Kidney renal clear cell carcinoma(1967;0.00204)|STAD - Stomach adenocarcinoma(196;0.00325)|READ - Rectum adenocarcinoma(331;0.0481)		GAACTTCTGAAGGCTTTTCGG	0.463													20	83					0	0	0.00278	0	0		T	27744891	T	T	27744891	3	4	127	1	0	0	0	0	1	0	0	0	17279	72	3	5	1222	5	WASF2	1	27744891	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	992957	27744891	221505730	19	69099											
AHDC1	27245	broad.mit.edu	37	chr1	27875066	27875066	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcactacttgaggcctcGctgttggcacgccgaaaccc	7	8	9	17	3	1	1	1	1	0	0	2	2	1	1	4	2	2	3	4	2	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:27875066G>A	uc009vsy.2	-	6	4530	c.3561C>T	c.(3559-3561)AGC>AGT	p.S1187S	AHDC1_uc009vsz.1_Silent_p.S1187S	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	1187							DNA binding			central_nervous_system(1)	1		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		TTGAGGCCTCGCTGTTGGCAC	0.607													8	40					0	0	0.004482	0	0		A	27875066	A	A	27875066	2	1	127	1	0	0	0	0	0	0	0	1	412	1078	38	1		1	AHDC1	1	27875066	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	130175	27875066	221375555	20	69100											
RPA2	6118	broad.mit.edu	37	chr1	28218705	28218705	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggatttaaaatggtcaTcatccacagtagaatagatg	14	12	9	6	0	2	2	2	0	0	2	3	3	3	3	1	2	0	1	1	2	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:28218705T>G	uc001bpe.1	-	9	1064	c.782A>C	c.(781-783)GAT>GCT	p.D261A	RPA2_uc001bpd.1_Missense_Mutation_p.D269A|RPA2_uc010ofp.1_Missense_Mutation_p.D165A	NM_002946	NP_002937	P15927	RFA2_HUMAN	replication protein A2, 32kDa	261	Asp/Glu-rich (acidic).|Interaction with TIPIN (By similarity).				cell cycle checkpoint|DNA recombinase assembly|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA gap filling|regulation of double-strand break repair via homologous recombination|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor A complex|PML body	protein phosphatase binding|single-stranded DNA binding			skin(1)	1		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00588)|all_lung(284;0.00645)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0429)|OV - Ovarian serous cystadenocarcinoma(117;3.62e-24)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;1.75e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00294)|STAD - Stomach adenocarcinoma(196;0.00308)|BRCA - Breast invasive adenocarcinoma(304;0.00613)|READ - Rectum adenocarcinoma(331;0.0649)		AAAATGGTCATCATCCACAGT	0.403								Direct_reversal_of_damage|NER					19	145					0	0	0.010504	0	0		G	28218705	G	G	28218705	3	3	127	1	0	0	0	0	1	0	0	0	13562	1435	50	5	34	5	RPA2	1	28218705	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	343639	28218705	221031916	21	69101											
PTPRU	10076	broad.mit.edu	37	chr1	29638251	29638251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctggctgagtatgtcgtgCgcacttttgccctggagcgg	4	11	14	12	3	0	1	0	1	0	0	1	2	0	2	2	3	3	3	2	3	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:29638251C>T	uc001bru.2	+	22	3192	c.3082C>T	c.(3082-3084)CGC>TGC	p.R1028C	PTPRU_uc001brv.2_Missense_Mutation_p.R1024C|PTPRU_uc001brw.2_Missense_Mutation_p.R1018C|PTPRU_uc009vtq.2_Missense_Mutation_p.R1024C|PTPRU_uc009vtr.2_Missense_Mutation_p.R1015C	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	1028	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GTATGTCGTGCGCACTTTTGC	0.602													27	175					0	0	0.003954	0	0		T	29638251	T	T	29638251	3	4	127	1	0	0	0	0	1	0	0	0	12838	768	27	1	3190	1	PTPRU	1	29638251	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1419546	29638251	219612370	22	69102											
NCDN	23154	broad.mit.edu	37	chr1	36028856	36028856	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagatgggccccgggagaTcctgatcaaggaaggggccc	10	5	16	10	1	1	4	1	2	0	2	2	6	2	5	4	5	0	0	4	5	3	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:36028856T>A	uc001bza.2	+	6	1566	c.1439T>A	c.(1438-1440)ATC>AAC	p.I480N	NCDN_uc001bzb.2_Missense_Mutation_p.I480N|NCDN_uc001bzc.2_Missense_Mutation_p.I463N	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	480					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CCCCGGGAGATCCTGATCAAG	0.612													11	63					0	0	0.008291	0	0		A	36028856	A	A	36028856	3	1	127	1	0	0	0	0	1	0	0	0	10233	1435	50	5	1457	5	NCDN	1	36028856	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	6390605	36028856	213221765	23	69103											
CSF3R	1441	broad.mit.edu	37	chr1	36932116	36932116	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaggttctcataggactTggggctgggggtgaggcccg	6	8	18	9	1	1	2	1	1	1	1	2	3	1	3	2	7	0	2	2	7	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:36932116T>C	uc001caw.1	-	17	2531	c.2353A>G	c.(2353-2355)AAG>GAG	p.K785E	MRPS15_uc001cas.2_5'Flank|CSF3R_uc001cat.1_Missense_Mutation_p.K347E|CSF3R_uc009vvc.1_Missense_Mutation_p.K314E|CSF3R_uc001cau.1_Missense_Mutation_p.K185E|CSF3R_uc001cav.1_Intron|CSF3R_uc001cax.1_Missense_Mutation_p.K812E|CSF3R_uc001cay.1_Silent_p.P753P	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	785	Cytoplasmic (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	TCATAGGACTTGGGGCTGGGG	0.647													5	13					0	0	0.000602	0	0		C	36932116	C	C	36932116	3	2	127	1	0	0	0	0	1	0	0	0	3940	1821	63	3	270	3	CSF3R	1	36932116	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	903260	36932116	212318505	24	69104											
MTF1	4520	broad.mit.edu	37	chr1	38304324	38304324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttttcccctgtatgagttCgaatgtgcttcctcagatca	7	15	8	11	1	2	2	2	1	0	1	5	3	4	2	3	0	1	4	3	0	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:38304324C>T	uc001cce.1	-	4	893	c.752G>A	c.(751-753)CGA>CAA	p.R251Q	MTF1_uc009vvj.1_5'UTR	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	251	C2H2-type 4.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TGTATGAGTTCGAATGTGCTT	0.438													22	82					0	0	0.00333	0	0		T	38304324	T	T	38304324	3	4	127	1	0	0	0	0	1	0	0	0	9940	884	31	1	1541	1	MTF1	1	38304324	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1372208	38304324	210946297	25	69105											
RLF	6018	broad.mit.edu	37	chr1	40702626	40702626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtatctatagattgctatgCtaggtttggatcagtaaatg	11	16	10	4	0	2	1	1	0	1	1	2	2	2	2	0	2	2	5	0	2	7	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:40702626C>T	uc001cfc.3	+	8	2283	c.2252C>T	c.(2251-2253)GCT>GTT	p.A751V	RLF_uc001cfd.3_Missense_Mutation_p.A442V	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	751	C2H2-type 4.				chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			GATTGCTATGCTAGGTTTGGA	0.383													32	215					0	0	0.010818	0	0		T	40702626	T	T	40702626	3	4	127	1	0	0	0	0	1	0	0	0	13414	797	28	2	2282	2	RLF	1	40702626	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2398302	40702626	208547995	26	69106											
SMAP2	64744	broad.mit.edu	37	chr1	40880951	40880951	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctctttctagatgctccTgtggcctgctccattgcaaa	6	15	7	13	0	3	1	0	0	3	1	6	1	5	1	3	1	3	3	3	1	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:40880951T>C	uc001cfj.2	+	7	644	c.579T>C	c.(577-579)CCT>CCC	p.P193P	SMAP2_uc010ojh.1_Silent_p.P193P|SMAP2_uc001cfk.2_Silent_p.P163P|SMAP2_uc010oji.1_Silent_p.P110P|SMAP2_uc010ojj.1_Silent_p.P9P	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	193	Interaction with clathrin heavy chains (By similarity).				regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)			TAGATGCTCCTGTGGCCTGCT	0.458													49	202					0	0	0.01441	0	0		C	40880951	C	C	40880951	2	2	127	1	0	0	0	0	0	0	0	1	14792	1567	55	3		3	SMAP2	1	40880951	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	178325	40880951	208369670	27	69107											
ZNF642	339559	broad.mit.edu	37	chr1	40961306	40961306	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaaaccttttacttgcAatgaatgtgggaaaaccttt	14	12	9	6	0	0	2	0	1	0	1	0	5	0	3	2	1	4	1	2	1	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:40961306A>G	uc001cfo.2	+	6	1450	c.1156A>G	c.(1156-1158)AAT>GAT	p.N386D	ZNF642_uc009vwb.2_Missense_Mutation_p.N386D|ZNF642_uc010ojk.1_Missense_Mutation_p.N387D	NM_198494	NP_940896	Q49AA0	ZN642_HUMAN	zinc finger protein 642	386	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.81e-19)			TTTTACTTGCAATGAATGTGG	0.393													31	114					0	0	0.010818	0	0		G	40961306	G	G	40961306	3	3	127	1	0	0	0	0	1	0	0	0	18083	130	5	3	1174	3	ZNF642	1	40961306	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	80355	40961306	208289315	28	69108											
RIMKLA	284716	broad.mit.edu	37	chr1	42880544	42880544	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgaactgggagagatcCgggattcctcagcaagcaca	12	6	12	11	1	1	2	1	1	0	1	3	5	3	4	3	2	4	2	3	2	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:42880544C>T	uc001chi.2	+	5	1213	c.1075C>T	c.(1075-1077)CGG>TGG	p.R359W		NM_173642	NP_775913	Q8IXN7	RIMKA_HUMAN	ribosomal modification protein rimK-like family	359					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						GGGAGAGATCCGGGATTCCTC	0.527													23	111					0	0	0.00278	0	0		T	42880544	T	T	42880544	3	4	127	1	0	0	0	0	1	0	0	0	13390	643	23	1	1093	1	RIMKLA	1	42880544	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1919238	42880544	206370077	29	69109											
ZMYND12	84217	broad.mit.edu	37	chr1	42915622	42915622	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agctgctgcaggccatgctgCcgttcttcctctgaattgta	6	13	10	12	1	2	1	0	1	2	0	3	1	3	1	3	1	5	6	3	1	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:42915622C>A	uc001chj.2	-	2	489	c.219G>T	c.(217-219)CGG>CGT	p.R73R	ZMYND12_uc010ojt.1_Missense_Mutation_p.A21S	NM_032257	NP_115633	Q9H0C1	ZMY12_HUMAN	zinc finger, MYND-type containing 12 isoform 1	73						intracellular	zinc ion binding			ovary(1)	1	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GGCCATGCTGCCGTTCTTCCT	0.542													22	42					3.5997e-14	3.99434e-14	0.014323	1	0		A	42915622	A	A	42915622	2	1	127	1	0	0	0	0	0	0	0	1	17732	739	26	5		5	ZMYND12	1	42915622	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	35078	42915622	206334999	30	69110											
CLDN19	149461	broad.mit.edu	37	chr1	43204130	43204130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccccggcgatggcaacaCggcccttggcaatggggttg	6	7	14	14	3	0	0	0	0	0	0	1	1	1	0	3	6	1	3	3	6	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:43204130C>T	uc001cht.1	-	2	541	c.350G>A	c.(349-351)CGT>CAT	p.R117H	CLDN19_uc001chu.2_Missense_Mutation_p.R117H|CLDN19_uc010ojv.1_Missense_Mutation_p.R117H	NM_148960	NP_683763	Q8N6F1	CLD19_HUMAN	claudin 19 isoform a	117	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|response to stimulus|visual perception	basolateral plasma membrane|integral to membrane|tight junction	identical protein binding				0	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GATGGCAACACGGCCCTTGGC	0.642													9	51					0	0	0.008291	0	0		T	43204130	T	T	43204130	3	4	127	1	0	0	0	0	1	0	0	0	3483	536	19	1	456	1	CLDN19	1	43204130	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	288508	43204130	206046491	31	69111											
ARTN	9048	broad.mit.edu	37	chr1	44401350	44401350	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacttggacttggaggcCtctccacgctgtcccactgc	6	10	11	14	1	1	0	0	0	1	0	3	3	2	3	3	4	2	1	3	4	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:44401350C>A	uc001cks.2	+	3	804	c.22C>A	c.(22-24)CTC>ATC	p.L8I	ARTN_uc001ckv.2_Missense_Mutation_p.L8I|ARTN_uc001ckt.2_Missense_Mutation_p.L8I|ARTN_uc001cku.2_Missense_Mutation_p.L8I|ARTN_uc001ckw.2_5'Flank	NM_057091	NP_476432	Q5T4W7	ARTN_HUMAN	neurotrophic factor artemin isoform 1 precursor	8					axon guidance|neuroblast proliferation|signal transduction	extracellular region	growth factor activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				ACTTGGAGGCCTCTCCACGCT	0.577													4	29					0.00024832	0.000254978	0.009096	1	0		A	44401350	A	A	44401350	3	1	127	1	0	0	0	0	1	0	0	0	1002	681	24	5	24	5	ARTN	1	44401350	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1197220	44401350	204849271	32	69112											
IPO13	9670	broad.mit.edu	37	chr1	44433043	44433043	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctttgccgatatcctgttCgccctgaacaagcactgctt	7	13	8	13	2	0	1	0	1	0	0	2	2	1	1	3	0	5	4	3	0	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:44433043C>T	uc001ckx.2	+	19	3465	c.2670C>T	c.(2668-2670)TTC>TTT	p.F890F	IPO13_uc001cky.2_Silent_p.F108F	NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	890					protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				ATATCCTGTTCGCCCTGAACA	0.627													18	82					0	0	0.008871	0	0		T	44433043	T	T	44433043	2	4	127	1	0	0	0	0	0	0	0	1	7810	883	31	1		1	IPO13	1	44433043	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	31693	44433043	204817578	33	69113											
HECTD3	79654	broad.mit.edu	37	chr1	45473119	45473119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattcttgcaggcagggtctCgagaggggcaggcacggtgt	7	8	17	9	2	2	1	0	0	2	1	3	2	2	1	0	6	1	4	0	6	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:45473119C>T	uc009vxk.2	-	10	1567	c.1469G>A	c.(1468-1470)CGA>CAA	p.R490Q	HECTD3_uc001cmx.3_5'Flank|HECTD3_uc001cmy.3_Missense_Mutation_p.R100Q|HECTD3_uc010olh.1_Missense_Mutation_p.R206Q	NM_024602	NP_078878	Q5T447	HECD3_HUMAN	HECT domain containing 3	490					proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	ubiquitin-protein ligase activity				0	Acute lymphoblastic leukemia(166;0.155)					GGCAGGGTCTCGAGAGGGGCA	0.602													20	47					0	0	0.00278	0	0		T	45473119	T	T	45473119	3	4	127	1	0	0	0	0	1	0	0	0	7057	884	31	1	1164	1	HECTD3	1	45473119	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1040076	45473119	203777502	34	69114											
NSUN4	387338	broad.mit.edu	37	chr1	46826501	46826501	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaagtgcagcttcttgcGtgagtgacagatttttaaac	10	13	10	8	1	1	3	0	2	1	1	1	3	1	3	0	0	5	3	0	0	3	5	rs142333016	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:46826501G>A	uc001cpr.1	+	5	987	c.878_splice	c.e5+1	p.A293_splice	NSUN4_uc010omc.1_Splice_Site_p.A244_splice|NSUN4_uc009vyf.1_Splice_Site_p.A142_splice|NSUN4_uc009vyg.1_Splice_Site_p.A244_splice|NSUN4_uc001cpt.1_Splice_Site|NSUN4_uc001cps.1_Splice_Site	NM_199044	NP_950245	Q96CB9	NSUN4_HUMAN	NOL1/NOP2/Sun domain family 4 protein								methyltransferase activity				0	Acute lymphoblastic leukemia(166;0.155)					AGCTTCTTGCGTGAGTGACAG	0.498													32	148					0	0	0.004289	0	0		A	46826501	A	A	46826501	5	1	127	1	0	0	0	0	0	0	1	0	10699	1159	40	1	897	1	NSUN4	1	46826501	Splice_Site	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1353382	46826501	202424120	35	69115											
CYP4Z1	199974	broad.mit.edu	37	chr1	47564887	47564887	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttactgcttggcaaagtAccctgagcatcagcagagat	11	10	9	11	0	1	2	1	1	0	1	1	3	1	2	2	1	5	5	2	1	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:47564887A>G	uc001cqu.1	+	8	1001	c.998A>G	c.(997-999)TAC>TGC	p.Y333C		NM_178134	NP_835235	Q86W10	CP4Z1_HUMAN	cytochrome P450 4Z1	333	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			skin(1)	1						TTGGCAAAGTACCCTGAGCAT	0.468													3	113					0	0	0.004672	0	0		G	47564887	G	G	47564887	3	3	127	1	0	0	0	0	1	0	0	0	4197	391	14	3	1028	3	CYP4Z1	1	47564887	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	738386	47564887	201685734	36	69116											
ORC1L	4998	broad.mit.edu	37	chr1	52849543	52849543	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtttcctgaggtgaccctcGggtgcagaattgctttgcca	6	12	13	10	1	0	3	0	2	0	1	2	3	1	3	3	3	3	3	3	3	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:52849543G>A	uc001ctt.2	-	12	2041	c.1822C>T	c.(1822-1824)CGA>TGA	p.R608*	ORC1L_uc010oni.1_Nonsense_Mutation_p.R603*|ORC1L_uc001ctu.2_Nonsense_Mutation_p.R608*|ORC1L_uc009vzd.2_Nonsense_Mutation_p.R362*	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	608	Necessary and sufficient for ORC complex assembly.				cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						GGTGACCCTCGGGTGCAGAAT	0.542													13	66					0	0	0.00245	0	0		A	52849543	A	A	52849543	4	1	127	1	0	0	0	0	0	1	0	0	11280	1124	39	1	787	1	ORC1L	1	52849543	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5284656	52849543	196401078	37	69117											
DMRTB1	63948	broad.mit.edu	37	chr1	53925262	53925262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgctacctgatctccgagCgccagaagatcatggccgcg	9	7	12	13	4	2	3	1	1	1	2	3	4	2	3	4	1	3	1	4	1	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:53925262C>T	uc001cvq.1	+	1	191	c.136C>T	c.(136-138)CGC>TGC	p.R46C		NM_033067	NP_149056	Q96MA1	DMRTB_HUMAN	DMRT-like family B with proline-rich C-terminal,	46	DM.				sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GATCTCCGAGCGCCAGAAGAT	0.662													5	12					0	0	0.000602	0	0		T	53925262	T	T	53925262	3	4	127	1	0	0	0	0	1	0	0	0	4596	768	27	1	138	1	DMRTB1	1	53925262	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1075719	53925262	195325359	38	69118											
DNAJC6	9829	broad.mit.edu	37	chr1	65855087	65855087	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatgtcaatcccagcatcCtcttctcttctcaccaggaa	11	11	5	14	0	4	1	2	0	3	1	8	2	6	2	3	1	1	1	3	1	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:65855087C>A	uc001dcd.1	+	10	1335	c.1171C>A	c.(1171-1173)CTC>ATC	p.L391I	DNAJC6_uc001dcc.1_Missense_Mutation_p.L422I|DNAJC6_uc010opc.1_Missense_Mutation_p.L378I|DNAJC6_uc001dce.1_Missense_Mutation_p.L448I	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	391					cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						TCCCAGCATCCTCTTCTCTTC	0.433													27	123					5.61819e-17	6.30322e-17	0.005443	1	0		A	65855087	A	A	65855087	3	1	127	1	0	0	0	0	1	0	0	0	4659	681	24	5	1209	5	DNAJC6	1	65855087	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	11929825	65855087	183395534	39	69119											
SGIP1	84251	broad.mit.edu	37	chr1	67101641	67101641	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagcagcccagcccacaCgaaccaccctacaatagcaa	14	4	5	18	1	0	0	0	0	0	0	1	1	1	0	5	0	6	2	5	0	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:67101641C>T	uc001dcr.2	+	4	331	c.114C>T	c.(112-114)CAC>CAT	p.H38H		NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	38					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						CCAGCCCACACGAACCACCCT	0.378													17	105					0	0	0.00499	0	0		T	67101641	T	T	67101641	2	4	127	1	0	0	0	0	0	0	0	1	14231	535	19	1		1	SGIP1	1	67101641	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1246554	67101641	182148980	40	69120											
C1orf141	400757	broad.mit.edu	37	chr1	67558859	67558859	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacattctttcaaattttccAgtttgggcactcatttcatg	10	17	5	9	0	4	0	3	0	1	0	5	0	5	0	1	1	1	2	1	1	2	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:67558859A>G	uc001ddl.1	-	7	1143	c.1032T>C	c.(1030-1032)ACT>ACC	p.T344T	C1orf141_uc001ddm.1_Silent_p.T344T|C1orf141_uc001ddn.1_RNA	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	344										ovary(1)	1						CAAATTTTCCAGTTTGGGCAC	0.348													38	180					0	0	0.005524	0	0		G	67558859	G	G	67558859	2	3	127	1	0	0	0	0	0	0	0	1	2004	175	7	3		3	C1orf141	1	67558859	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	457218	67558859	181691762	41	69121											
SYDE2	84144	broad.mit.edu	37	chr1	85624662	85624662	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttctccgatttttctaTcttctgaagggacatcatca	10	17	5	9	1	6	1	2	1	4	0	7	3	6	2	1	1	0	0	1	1	3	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:85624662T>A	uc009wcm.2	-	7	3405	c.3356A>T	c.(3355-3357)GAT>GTT	p.D1119V		NM_032184	NP_115560	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2	1119					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|central_nervous_system(1)	2				all cancers(265;0.0126)|Epithelial(280;0.0336)		GATTTTTCTATCTTCTGAAGG	0.358													17	68					0	0	0.00499	0	0		A	85624662	A	A	85624662	3	1	127	1	0	0	0	0	1	0	0	0	15461	1435	50	5	232	5	SYDE2	1	85624662	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	18065803	85624662	163625959	42	69122											
ZNF644	84146	broad.mit.edu	37	chr1	91404466	91404466	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaacagaactttccttcttAgattccttaattactctctt	10	17	2	12	0	2	2	0	0	2	2	5	2	4	2	3	0	3	0	3	0	5	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:91404466A>G	uc001dnw.2	-	3	2587	c.2445T>C	c.(2443-2445)TCT>TCC	p.S815S	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Silent_p.S815S	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	815					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		TTTCCTTCTTAGATTCCTTAA	0.378													32	154					0	0	0.004289	0	0		G	91404466	G	G	91404466	2	3	127	1	0	0	0	0	0	0	0	1	18085	407	15	3		3	ZNF644	1	91404466	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5779804	91404466	157846155	43	69123											
CDC7	8317	broad.mit.edu	37	chr1	91985737	91985737	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttctttgcttagtggaCgatatccattttataaagca	10	18	6	7	1	2	0	0	0	2	0	3	2	3	1	1	1	2	2	1	1	5	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:91985737C>T	uc001doe.2	+	11	1396	c.1231C>T	c.(1231-1233)CGA>TGA	p.R411*	CDC7_uc001dof.2_Nonsense_Mutation_p.R411*|CDC7_uc010osw.1_Nonsense_Mutation_p.R383*|CDC7_uc009wdc.2_Nonsense_Mutation_p.R411*|CDC7_uc009wdd.2_Intron	NM_003503	NP_003494	O00311	CDC7_HUMAN	cell division cycle 7	411	Protein kinase.				cell cycle checkpoint|cell division|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|positive regulation of cell proliferation|regulation of S phase	cytoplasm|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	5		all_lung(203;0.0165)|Lung NSC(277;0.0562)		all cancers(265;0.00108)|Epithelial(280;0.0184)|KIRC - Kidney renal clear cell carcinoma(1967;0.124)		GCTTAGTGGACGATATCCATT	0.318													11	81					0	0	0.013537	0	0		T	91985737	T	T	91985737	4	4	127	1	0	0	0	0	0	1	0	0	3087	528	19	1	1269	1	CDC7	1	91985737	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	581271	91985737	157264884	44	69124											
RPAP2	79871	broad.mit.edu	37	chr1	92767148	92767148	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagagttcctaatggagtgtGtatgtgttaagttgacaaat	13	14	11	3	0	0	2	0	1	0	1	1	3	1	3	1	1	0	4	1	1	5	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:92767148G>A	uc001dot.2	+	3	343	c.234_splice	c.e3+1	p.C78_splice	RPAP2_uc009wdh.2_Splice_Site|GLMN_uc001dor.2_5'Flank|GLMN_uc009wdg.2_5'Flank|GLMN_uc001dos.2_5'Flank	NM_024813	NP_079089	Q8IXW5	RPAP2_HUMAN	RNA polymerase II associated protein 2							integral to membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		all_lung(203;0.0565)|Lung NSC(277;0.152)|Glioma(108;0.222)		all cancers(265;0.00647)|GBM - Glioblastoma multiforme(16;0.0234)|Epithelial(280;0.115)		AATGGAGTGTGTATGTGTTAA	0.313													17	60					0	0	0.00499	0	0		A	92767148	A	A	92767148	5	1	127	1	0	0	0	0	0	0	1	0	13567	1391	48	4	245	4	RPAP2	1	92767148	Splice_Site	SNP	G	TCGA-CG-4305-01A-01D-1158-08	781411	92767148	156483473	45	69125											
RPAP2	79871	broad.mit.edu	37	chr1	92789302	92789302	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcactgagcagttaggCgattgcaaattagatagtca	13	11	11	6	1	2	2	2	1	0	1	2	4	2	2	0	1	2	3	0	1	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:92789302C>T	uc001dot.2	+	8	934	c.825C>T	c.(823-825)GGC>GGT	p.G275G	RPAP2_uc009wdh.2_RNA	NM_024813	NP_079089	Q8IXW5	RPAP2_HUMAN	RNA polymerase II associated protein 2	275						integral to membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		all_lung(203;0.0565)|Lung NSC(277;0.152)|Glioma(108;0.222)		all cancers(265;0.00647)|GBM - Glioblastoma multiforme(16;0.0234)|Epithelial(280;0.115)		AGCAGTTAGGCGATTGCAAAT	0.373													15	123					0	0	0.003163	0	0		T	92789302	T	T	92789302	2	4	127	1	0	0	0	0	0	0	0	1	13567	755	27	1		1	RPAP2	1	92789302	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	22154	92789302	156461319	46	69126											
EXTL2	2135	broad.mit.edu	37	chr1	101343423	101343423	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcgaagcactcgaatcccCattactctcccaggaagttt	12	10	6	13	2	1	0	0	0	1	0	5	3	2	1	3	1	2	2	3	1	5	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:101343423C>A	uc001dtk.1	-	3	379	c.42G>T	c.(40-42)ATG>ATT	p.M14I	EXTL2_uc001dtl.1_Missense_Mutation_p.M14I|EXTL2_uc010ouk.1_Missense_Mutation_p.M1I|EXTL2_uc001dtm.1_Missense_Mutation_p.M14I	NM_001439	NP_001430	Q9UBQ6	EXTL2_HUMAN	exostoses-like 2	14	Cytoplasmic (Potential).				N-acetylglucosamine metabolic process|UDP-N-acetylgalactosamine metabolic process	extracellular region|integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,4-N-acetylgalactosaminyltransferase activity|glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding			skin(1)	1		all_epithelial(167;2.48e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0425)|all cancers(265;0.0628)|COAD - Colon adenocarcinoma(174;0.148)|Colorectal(144;0.167)|Lung(183;0.195)		CTCGAATCCCCATTACTCTCC	0.428													9	41					0.000274275	0.000281221	0.004482	1	0		A	101343423	A	A	101343423	3	1	127	1	0	0	0	0	1	0	0	0	5334	594	21	5	962	5	EXTL2	1	101343423	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	8554121	101343423	147907198	47	69127											
COL11A1	1301	broad.mit.edu	37	chr1	103427746	103427746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttatacctgagctccaggaaGacctctttcccctgggaaac	10	10	8	13	0	1	2	0	1	1	1	3	4	3	4	5	2	3	1	5	2	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:103427746G>A	uc001dul.2	-	40	3418	c.3100C>T	c.(3100-3102)CTT>TTT	p.L1034F	COL11A1_uc001duk.2_Missense_Mutation_p.L230F|COL11A1_uc001dum.2_Missense_Mutation_p.L1046F|COL11A1_uc001dun.2_Missense_Mutation_p.L995F|COL11A1_uc009weh.2_Missense_Mutation_p.L918F	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1034	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GCTCCAGGAAGACCTCTTTCC	0.383													16	78					0	0	0.003163	0	0		A	103427746	A	A	103427746	3	1	127	1	0	0	0	0	1	0	0	0	3670	942	33	4	2432	4	COL11A1	1	103427746	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2084323	103427746	145822875	48	69128											
AMY1A	276	broad.mit.edu	37	chr1	104203067	104203067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaatcaacgaggacatggcGctggaggagcctctatactt	12	8	11	10	2	2	0	1	0	1	0	2	4	2	3	1	4	3	1	1	4	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:104203067G>A	uc001duu.2	+	7	1178	c.964G>A	c.(964-966)GCT>ACT	p.A322T	AMY1A_uc001duv.2_Missense_Mutation_p.A322T	NM_001008221	NP_001008222	P04745	AMY1_HUMAN	salivary amylase alpha 1A precursor	322					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding|protein binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0654)|all cancers(265;0.0808)|Epithelial(280;0.0921)|Lung(183;0.111)		AGGACATGGCGCTGGAGGAGC	0.408													36	499					0	0	0.01441	0	0		A	104203067	A	A	104203067	3	1	127	1	0	0	0	0	1	0	0	0	591	1087	38	1	986	1	AMY1A	1	104203067	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	775321	104203067	145047554	49	69129											
VAV3	10451	broad.mit.edu	37	chr1	108307782	108307782	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccactccactgcagtactgCccgtaaataaccaatctgaa	13	9	5	14	1	1	1	0	1	1	0	3	1	3	1	4	0	4	3	4	0	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:108307782C>T	uc001dvk.1	-	9	891	c.837G>A	c.(835-837)GGG>GGA	p.G279G	VAV3_uc010ouw.1_Silent_p.G279G|VAV3_uc001dvl.1_Silent_p.G103G|VAV3_uc010oux.1_Silent_p.G279G	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	279	DH.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		TGCAGTACTGCCCGTAAATAA	0.373													13	38					0	0	0.003163	0	0		T	108307782	T	T	108307782	2	4	127	1	0	0	0	0	0	0	0	1	17159	726	26	2		2	VAV3	1	108307782	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4104715	108307782	140942839	50	69130											
CELSR2	1952	broad.mit.edu	37	chr1	109810580	109810580	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagctggctacttcggcagCgacgtcaaggtggcctacca	9	7	12	13	3	1	0	1	0	0	0	2	1	1	0	2	4	4	3	2	4	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:109810580C>T	uc001dxa.3	+	17	6277	c.6216C>T	c.(6214-6216)AGC>AGT	p.S2072S		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2072	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		ACTTCGGCAGCGACGTCAAGG	0.662													4	23					0	0	0.001168	0	0		T	109810580	T	T	109810580	2	4	127	1	0	0	0	0	0	0	0	1	3225	767	27	1		1	CELSR2	1	109810580	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1502798	109810580	139440041	51	69131											
GNAI3	2773	broad.mit.edu	37	chr1	110121917	110121917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgattaaacggttatggcGagatggtggggtacaagctt	11	11	15	4	2	0	2	0	1	0	1	0	3	0	2	0	5	3	3	0	5	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:110121917G>A	uc001dxz.2	+	4	552	c.395G>A	c.(394-396)CGA>CAA	p.R132Q		NM_006496	NP_006487	P08754	GNAI3_HUMAN	guanine nucleotide binding protein (G protein),	132					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|metabotropic serotonin receptor binding|signal transducer activity			ovary(1)	1		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.046)|Colorectal(144;0.119)|Epithelial(280;0.139)|all cancers(265;0.147)|LUSC - Lung squamous cell carcinoma(189;0.237)		CGGTTATGGCGAGATGGTGGG	0.428													29	113					0	0	0.009535	0	0		A	110121917	A	A	110121917	3	1	127	1	0	0	0	0	1	0	0	0	6521	1058	37	1	409	1	GNAI3	1	110121917	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	311337	110121917	139128704	52	69132											
HSD3B1	3283	broad.mit.edu	37	chr1	120054205	120054205	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagagagcctgccaggaCgtctcggtcatcatccacac	10	7	10	14	2	3	2	2	1	1	1	5	4	4	3	3	2	2	0	3	2	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:120054205C>T	uc001ehv.1	+	3	370	c.225C>T	c.(223-225)GAC>GAT	p.D75D	HSD3B1_uc001ehw.2_Silent_p.D77D	NM_000862	NP_000853	P14060	3BHS1_HUMAN	3 beta-hydroxysteroid dehydrogenase 1	75					androgen biosynthetic process|estrogen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.219)	all_lung(203;3.16e-06)|Lung NSC(69;2.19e-05)|all_epithelial(167;0.000624)		Lung(183;0.0106)|LUSC - Lung squamous cell carcinoma(189;0.0554)	NADH(DB00157)|Trilostane(DB01108)	CCTGCCAGGACGTCTCGGTCA	0.502													20	64					0	0	0.010504	0	0		T	120054205	T	T	120054205	2	4	127	1	0	0	0	0	0	0	0	1	7406	535	19	1		1	HSD3B1	1	120054205	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	9932288	120054205	129196416	53	69133											
NBPF9	400818	broad.mit.edu	37	chr1	144815988	144815988	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgaggtggctgagaaagtGcagaaatcgtctgcccccag	10	8	14	9	1	1	3	0	2	1	2	2	4	1	3	2	2	2	3	2	2	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:144815988G>A	uc009wig.1	+	12	1435	c.1359G>A	c.(1357-1359)GTG>GTA	p.V453V	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Silent_p.V453V|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF9_uc009wii.1_Silent_p.V182V|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Silent_p.V113V	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	453	NBPF 2.					cytoplasm					0						CTGAGAAAGTGCAGAAATCGT	0.423													56	298					0	0	0.01441	0	0		A	144815988	A	A	144815988	2	1	127	1	0	0	0	0	0	0	0	1	10218	1306	46	2		2	NBPF9	1	144815988	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	24761783	144815988	104434633	54	69134											
ITGA10	8515	broad.mit.edu	37	chr1	145533915	145533915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaacaaggaaacaggaCgtgtttatgtgtatctggta	13	10	11	7	1	1	1	0	0	1	1	1	3	1	3	1	3	2	3	1	3	6	4	rs150141083		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:145533915C>T	uc001eoa.2	+	13	1637	c.1561C>T	c.(1561-1563)CGT>TGT	p.R521C	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.R390C|ITGA10_uc009wiw.2_Missense_Mutation_p.R378C|ITGA10_uc010oyw.1_Missense_Mutation_p.R466C	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	521	FG-GAP 5.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity	p.R521H(1)		lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GGAAACAGGACGTGTTTATGT	0.552													14	69					0	0	0.00245	0	0		T	145533915	T	T	145533915	3	4	127	1	0	0	0	0	1	0	0	0	7889	536	19	1	1611	1	ITGA10	1	145533915	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	717927	145533915	103716706	55	69135											
PDZK1	5174	broad.mit.edu	37	chr1	145761219	145761219	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactatcaaagtcaagaactGcccaatggctctgtcaagga	14	9	8	10	0	4	1	3	0	1	1	4	2	4	2	1	2	3	1	1	2	7	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:145761219G>A	uc001eon.1	+	8	1129	c.1032G>A	c.(1030-1032)CTG>CTA	p.L344L	NBPF10_uc001emp.3_Intron|PDZK1_uc001eoo.1_Silent_p.L344L|PDZK1_uc010oza.1_Silent_p.L233L	NM_002614	NP_002605	Q5T2W1	NHRF3_HUMAN	PDZ domain containing 1	344					carnitine transport|cell proliferation|drug transport|positive regulation of ion transmembrane transport	brush border membrane|cytoplasm	PDZ domain binding|transporter activity				0	all_hematologic(18;0.00473)|Acute lymphoblastic leukemia(18;0.0786)		KIRC - Kidney renal clear cell carcinoma(6;0.0764)|Kidney(552;0.118)|Colorectal(543;0.229)			GTCAAGAACTGCCCAATGGCT	0.398													7	50					0	0	0.010729	0	0		A	145761219	A	A	145761219	2	1	127	1	0	0	0	0	0	0	0	1	11726	1306	46	2		2	PDZK1	1	145761219	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	227304	145761219	103489402	56	69136											
GJA8	2703	broad.mit.edu	37	chr1	147380700	147380700	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acggagaaaaccatcttcatCctgttcatgttgtctgtggc	9	13	9	10	1	4	1	2	0	2	1	5	2	5	1	2	2	1	2	2	2	2	3	rs148480116		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:147380700C>T	uc001epu.1	+	2	681	c.618C>T	c.(616-618)ATC>ATT	p.I206I		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	206	Helical; (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					CCATCTTCATCCTGTTCATGT	0.607													26	84					0	0	0.005443	0	0		T	147380700	T	T	147380700	2	4	127	1	0	0	0	0	0	0	0	1	6420	845	30	4		4	GJA8	1	147380700	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1619481	147380700	101869921	57	69137											
NBPF14	25832	broad.mit.edu	37	chr1	148009502	148009502	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctctttctcatccaacAgctccccgctgagcctggaa	8	9	8	16	1	2	1	1	1	2	0	5	2	4	2	4	2	3	3	4	2	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:148009502A>C	uc001eqq.2	-	16	1822	c.1805T>G	c.(1804-1806)CTG>CGG	p.L602R	LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqf.2_Intron|LOC200030_uc001eqg.2_Intron|FLJ39739_uc001eqo.1_Intron|NBPF14_uc010pab.1_Intron|NBPF14_uc010pac.1_Missense_Mutation_p.L175R|NBPF14_uc001eqx.2_Intron|NBPF14_uc010pad.1_Intron|NBPF14_uc001eqs.1_Intron	NM_015383	NP_056198	Q5TI25	NBPFE_HUMAN	hypothetical protein LOC25832	602	NBPF 7.					cytoplasm				ovary(1)	1	all_hematologic(923;0.032)					CTCATCCAACAGCTCCCCGCT	0.478													19	624					0	0	0.008871	0	0		C	148009502	C	C	148009502	3	2	127	1	0	0	0	0	1	0	0	0	10213	188	7	5	988	5	NBPF14	1	148009502	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	628802	148009502	101241119	58	69138											
TMOD4	29765	broad.mit.edu	37	chr1	151143428	151143428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggagctcagtgagtgtggCattttcccgaactgccttca	8	11	11	11	2	2	1	2	1	0	0	3	3	3	2	2	2	3	2	2	2	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:151143428C>T	uc001exc.3	-	8	1028	c.838G>A	c.(838-840)GCC>ACC	p.A280T	TMOD4_uc001exb.2_Missense_Mutation_p.A108T|TMOD4_uc001exd.2_RNA|TMOD4_uc010pct.1_Missense_Mutation_p.A211T	NM_013353	NP_037485	Q9NZQ9	TMOD4_HUMAN	tropomodulin 4 (muscle)	280					muscle contraction	cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(1)	1	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GTGAGTGTGGCATTTTCCCGA	0.517													11	22					0	0	0.010729	0	0		T	151143428	T	T	151143428	3	4	127	1	0	0	0	0	1	0	0	0	16261	710	25	2	211	2	TMOD4	1	151143428	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3133926	151143428	98107193	59	69139											
RORC	6097	broad.mit.edu	37	chr1	151785790	151785790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgtcagcattgtaggcccGgcacatcctaaccagcacca	10	8	9	14	1	1	0	1	0	0	0	2	0	2	0	4	2	3	5	4	2	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:151785790G>A	uc001ezh.2	-	8	1207	c.1099C>T	c.(1099-1101)CGG>TGG	p.R367W	RORC_uc001ezg.2_Missense_Mutation_p.R346W|RORC_uc010pdo.1_Missense_Mutation_p.R421W|RORC_uc010pdp.1_Missense_Mutation_p.R367W	NM_005060	NP_005051	P51449	RORG_HUMAN	RAR-related orphan receptor C isoform a	367	Ligand-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			TTGTAGGCCCGGCACATCCTA	0.567													64	258					0	0	0.01441	0	0		A	151785790	A	A	151785790	3	1	127	1	0	0	0	0	1	0	0	0	13555	1115	39	1	473	1	RORC	1	151785790	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	642362	151785790	97464831	60	69140											
TCHH	7062	broad.mit.edu	37	chr1	152080509	152080509	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcttggcgcagctgttcCtcctcacggaattttctctc	4	16	8	13	2	3	0	1	0	2	0	7	1	5	1	2	2	1	4	2	2	1	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:152080509C>A	uc001ezp.2	-	2	5184	c.5184G>T	c.(5182-5184)GAG>GAT	p.E1728D	TCHH_uc009wne.1_Missense_Mutation_p.E1728D	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1728	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCAGCTGTTCCTCCTCACGGA	0.562													18	72					2.4624e-09	2.63536e-09	0.008871	1	0		A	152080509	A	A	152080509	3	1	127	1	0	0	0	0	1	0	0	0	15725	680	24	5	651	5	TCHH	1	152080509	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	294719	152080509	97170112	61	69141											
TCHH	7062	broad.mit.edu	37	chr1	152083351	152083351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggccgacagcctctgaCggcccctctcgctcttttcc	3	10	9	19	3	3	1	0	1	3	0	5	2	4	1	6	2	1	1	6	2	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:152083351C>T	uc001ezp.2	-	2	2342	c.2342G>A	c.(2341-2343)CGT>CAT	p.R781H	TCHH_uc009wne.1_Missense_Mutation_p.R781H	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	781					keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CAGCCTCTGACGGCCCCTCTC	0.687													17	63					0	0	0.007413	0	0		T	152083351	T	T	152083351	3	4	127	1	0	0	0	0	1	0	0	0	15725	536	19	1	3493	1	TCHH	1	152083351	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2842	152083351	97167270	62	69142											
CRNN	49860	broad.mit.edu	37	chr1	152382422	152382422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaccactgcctggctgcGtctgggtctgtccctgttct	2	15	11	13	1	3	1	0	1	3	0	4	1	4	1	3	2	2	2	3	2	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:152382422G>A	uc001ezx.2	-	3	1210	c.1136C>T	c.(1135-1137)ACG>ATG	p.T379M		NM_016190	NP_057274	Q9UBG3	CRNN_HUMAN	cornulin	379	Gln-rich.				cell-cell adhesion|response to heat	cytoplasm|membrane	calcium ion binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCCTGGCTGCGTCTGGGTCTG	0.587													56	207					0	0	0.01441	0	0		A	152382422	A	A	152382422	3	1	127	1	0	0	0	0	1	0	0	0	3895	1145	40	1	355	1	CRNN	1	152382422	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	299071	152382422	96868199	63	69143											
S100A14	57402	broad.mit.edu	37	chr1	153588392	153588392	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcctatagctggccccaGaggagctgatggctcatgat	8	11	12	10	0	1	3	1	2	0	1	2	4	2	4	3	3	2	3	3	3	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:153588392G>T	uc001fce.2	-	2	41	c.-57C>A	c.(-59--55)CTCTG>CTATG		S100A16_uc001fcd.1_5'Flank	NM_020672	NP_065723	Q9HCY8	S10AE_HUMAN	S100 calcium binding protein A14						calcium ion homeostasis|defense response to bacterium|positive regulation of granulocyte chemotaxis|positive regulation of monocyte chemotaxis|response to lipopolysaccharide|toll-like receptor 4 signaling pathway	cell junction|microtubule cytoskeleton|perinuclear region of cytoplasm	calcium ion binding|chemokine receptor binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			GCTGGCCCCAGAGGAGCTGAT	0.562													8	25					5.18039e-06	5.39354e-06	0.00308	1	0		T	153588392	T	T	153588392	1	4	127	1	0	0	0	0	0	0	0	0	13801	957	33	5		5	S100A14	1	153588392	Translation_Start_Site	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1205970	153588392	95662229	64	69144											
DCST2	127579	broad.mit.edu	37	chr1	154999182	154999182	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccacggttagagacaccAacacaggacctggcacaaag	14	5	9	13	1	0	1	0	0	0	1	1	3	1	2	3	3	1	2	3	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:154999182A>G	uc001fgm.2	-	9	1432	c.1352T>C	c.(1351-1353)TTG>TCG	p.L451S	DCST2_uc009wpb.2_RNA	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	451	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TAGAGACACCAACACAGGACC	0.498													11	46					0	0	0.007413	0	0		G	154999182	G	G	154999182	3	3	127	1	0	0	0	0	1	0	0	0	4306	131	5	3	997	3	DCST2	1	154999182	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1410790	154999182	94251439	65	69145											
TRIM46	80128	broad.mit.edu	37	chr1	155148109	155148109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagccagaccgcctggaccGgctgcttaagtcaggtggga	9	6	14	12	2	1	1	1	0	0	1	1	3	1	3	4	4	2	2	4	4	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:155148109G>A	uc001fhs.1	+	2	394	c.311G>A	c.(310-312)CGG>CAG	p.R104Q	RAG1AP1_uc010pey.1_Intron|KRTCAP2_uc001fho.2_5'Flank|KRTCAP2_uc001fhp.1_5'Flank|TRIM46_uc009wpe.1_RNA|TRIM46_uc010pez.1_Missense_Mutation_p.R91Q|TRIM46_uc001fhq.2_RNA|TRIM46_uc001fhr.2_Missense_Mutation_p.R104Q|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_Intron|TRIM46_uc001fhu.1_Missense_Mutation_p.R81Q|TRIM46_uc009wpg.1_Missense_Mutation_p.R91Q|TRIM46_uc009wpf.2_Missense_Mutation_p.R91Q|TRIM46_uc001fhv.3_Missense_Mutation_p.R91Q|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	104						intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CGCCTGGACCGGCTGCTTAAG	0.642													25	62					0	0	0.003271	0	0		A	155148109	A	A	155148109	3	1	127	1	0	0	0	0	1	0	0	0	16547	1116	39	1	317	1	TRIM46	1	155148109	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	148927	155148109	94102512	66	69146											
RAB25	57111	broad.mit.edu	37	chr1	156040014	156040014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaccaatgccatcactctggGcagtgcccaggctggacagg	9	6	13	13	0	2	0	1	0	1	0	2	2	2	1	3	4	2	2	3	4	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:156040014G>A	uc001fnc.2	+	5	804	c.578G>A	c.(577-579)GGC>GAC	p.G193D		NM_020387	NP_065120	P57735	RAB25_HUMAN	RAB25	193					positive regulation of cell proliferation|protein transport|pseudopodium organization|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|pseudopodium membrane	GTP binding|identical protein binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					ATCACTCTGGGCAGTGCCCAG	0.597													15	48					0	0	0.00245	0	0		A	156040014	A	A	156040014	3	1	127	1	0	0	0	0	1	0	0	0	12937	1203	42	2	596	2	RAB25	1	156040014	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	891905	156040014	93210607	67	69147											
SEMA4A	64218	broad.mit.edu	37	chr1	156146488	156146488	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcccccgggagcatgtgaaGgtcccgttgaccagggtcag	8	7	14	12	2	1	2	1	2	0	0	3	3	3	3	4	3	1	2	4	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:156146488G>T	uc001fnl.2	+	15	2090	c.1986G>T	c.(1984-1986)AAG>AAT	p.K662N	SEMA4A_uc009wrq.2_Missense_Mutation_p.K662N|SEMA4A_uc001fnm.2_Missense_Mutation_p.K662N|SEMA4A_uc001fnn.2_Missense_Mutation_p.K530N|SEMA4A_uc001fno.2_Missense_Mutation_p.K662N	NM_022367	NP_071762	Q9H3S1	SEM4A_HUMAN	semaphorin B precursor	662	Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					AGCATGTGAAGGTCCCGTTGA	0.602													14	44					1.05317e-09	1.13056e-09	0.00245	1	0		T	156146488	T	T	156146488	3	4	127	1	0	0	0	0	1	0	0	0	14056	991	35	5	2040	5	SEMA4A	1	156146488	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	106474	156146488	93104133	68	69148											
SMG5	23381	broad.mit.edu	37	chr1	156230293	156230293	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcaaagttaaagcgtctGtgggcagctcggagcggggg	8	8	18	7	3	2	0	1	0	1	0	3	1	2	1	0	4	3	3	0	4	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:156230293G>A	uc001foc.3	-	15	2381	c.2232C>T	c.(2230-2232)CAC>CAT	p.H744H	SMG5_uc009wrv.2_Silent_p.H229H	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	744					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					TAAAGCGTCTGTGGGCAGCTC	0.532													31	117					0	0	0.008361	0	0		A	156230293	A	A	156230293	2	1	127	1	0	0	0	0	0	0	0	1	14821	1368	48	4		4	SMG5	1	156230293	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	83805	156230293	93020328	69	69149											
IQGAP3	128239	broad.mit.edu	37	chr1	156513774	156513774	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggatcaggcagctcaccTaatatcctgtagtcatcttg	9	12	10	10	0	4	0	3	0	1	0	5	1	5	1	2	3	1	3	2	3	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:156513774T>C	uc001fpf.2	-	22	2604	c.2529A>G	c.(2527-2529)TTA>TTG	p.L843L		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	843	IQ 4.				small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCAGCTCACCTAATATCCTGT	0.532													49	175					0	0	0.01441	0	0		C	156513774	C	C	156513774	2	2	127	1	0	0	0	0	0	0	0	1	7832	1536	53	3		3	IQGAP3	1	156513774	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	283481	156513774	92736847	70	69150											
BCAN	63827	broad.mit.edu	37	chr1	156618552	156618552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcgtcacacccagccagcGctgtggtgggggcttgcctg	5	8	14	14	2	1	0	1	0	0	0	2	0	1	0	3	3	3	2	3	3	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:156618552G>A	uc001fpp.2	+	6	1298	c.962G>A	c.(961-963)CGC>CAC	p.R321H	BCAN_uc001fpo.2_Missense_Mutation_p.R321H	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	321	Link 2.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCCAGCCAGCGCTGTGGTGGG	0.612													33	110					0	0	0.005524	0	0		A	156618552	A	A	156618552	3	1	127	1	0	0	0	0	1	0	0	0	1346	1087	38	1	980	1	BCAN	1	156618552	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	104778	156618552	92632069	71	69151											
OR10Z1	128368	broad.mit.edu	37	chr1	158576272	158576272	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagggattttgtcttccTgggcttctccagttctgggg	3	15	14	9	0	3	0	0	0	3	0	5	2	4	2	2	5	0	2	2	5	0	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:158576272T>C	uc010pio.1	+	1	44	c.44T>C	c.(43-45)CTG>CCG	p.L15P		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	15	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					TTTGTCTTCCTGGGCTTCTCC	0.478													30	149					0	0	0.012213	0	0		C	158576272	C	C	158576272	3	2	127	1	0	0	0	0	1	0	0	0	10942	1580	55	3	46	3	OR10Z1	1	158576272	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1957720	158576272	90674349	72	69152											
OR10J3	441911	broad.mit.edu	37	chr1	159284423	159284423	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttcaaagaggaactcagtCacaaaagtggaatttagctt	15	10	8	8	0	3	1	3	0	0	1	3	3	3	3	1	2	2	1	1	2	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:159284423C>T	uc010piu.1	-	1	27	c.27G>A	c.(25-27)GTG>GTA	p.V9V		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	9	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					GGAACTCAGTCACAAAAGTGG	0.433													50	245					0	0	0.01441	0	0		T	159284423	T	T	159284423	2	4	127	1	0	0	0	0	0	0	0	1	10930	813	29	4		4	OR10J3	1	159284423	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	708151	159284423	89966198	73	69153											
SLAMF9	89886	broad.mit.edu	37	chr1	159923100	159923100	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttcccagcctaaactcacgGtagacacatatattgtactg	12	11	7	11	1	1	1	1	0	0	1	2	1	2	1	2	1	3	3	2	1	6	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:159923100G>C	uc001fus.2	-	2	507	c.390C>G	c.(388-390)TAC>TAG	p.Y130*	SLAMF9_uc009wtd.2_Nonsense_Mutation_p.Y130*|SLAMF9_uc001fut.2_Intron	NM_033438	NP_254273	Q96A28	SLAF9_HUMAN	SLAM family member 9 isoform 1	130	Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TAAACTCACGGTAGACACATA	0.498													20	89					0	0	0.012319	0	0		C	159923100	C	C	159923100	4	2	127	1	0	0	0	0	0	1	0	0	14396	1275	44	5	491	5	SLAMF9	1	159923100	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	638677	159923100	89327521	74	69154											
PIGM	93183	broad.mit.edu	37	chr1	160001078	160001078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaccatcaggaccagggagGcgacaatagagtccgcatta	13	5	13	10	2	1	1	1	0	0	1	2	5	2	4	3	4	0	1	3	4	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:160001078G>A	uc001fuv.1	-	1	706	c.452C>T	c.(451-453)GCC>GTC	p.A151V		NM_145167	NP_660150	Q9H3S5	PIGM_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	151	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GACCAGGGAGGCGACAATAGA	0.537													26	125					0	0	0.00632	0	0		A	160001078	A	A	160001078	3	1	127	1	0	0	0	0	1	0	0	0	11911	1203	42	2	823	2	PIGM	1	160001078	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	77978	160001078	89249543	75	69155											
ATP1A4	480	broad.mit.edu	37	chr1	160156137	160156137	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaaatcagaaaactccTcatccgtcagcacccggatg	13	8	8	12	2	3	3	3	2	0	1	5	4	5	4	3	1	2	1	3	1	3	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:160156137T>G	uc001fve.3	+	21	3520	c.3041T>G	c.(3040-3042)CTC>CGC	p.L1014R	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Missense_Mutation_p.L517R|ATP1A4_uc001fvh.2_Missense_Mutation_p.L150R	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	1014	Cytoplasmic (Potential).			ITWWLCAIPYSILIFVYDEIRKLLIRQ -> WSFALTAQAG VKWRILGLLQPLPPRFK (in Ref. 6; BAC05228).	ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AGAAAACTCCTCATCCGTCAG	0.562													59	258					0	0	0.01441	0	0		G	160156137	G	G	160156137	3	3	127	1	0	0	0	0	1	0	0	0	1132	1551	54	5	3123	5	ATP1A4	1	160156137	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	155059	160156137	89094484	76	69156											
ARHGAP30	257106	broad.mit.edu	37	chr1	161019226	161019226	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttacctgaggcccaacTcccaggagctcctccaggta	8	8	8	17	0	0	1	0	1	0	0	4	2	4	2	6	3	3	2	6	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:161019226T>A	uc001fxl.2	-	11	2020	c.1674A>T	c.(1672-1674)GGA>GGT	p.G558G	ARHGAP30_uc001fxk.2_Silent_p.G558G|ARHGAP30_uc001fxm.2_Silent_p.G404G|ARHGAP30_uc009wtx.2_Silent_p.G231G|ARHGAP30_uc001fxn.1_Silent_p.G404G	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	558					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			GAGGCCCAACTCCCAGGAGCT	0.647													33	147					0	0	0.00623	0	0		A	161019226	A	A	161019226	2	1	127	1	0	0	0	0	0	0	0	1	879	1538	54	5		5	ARHGAP30	1	161019226	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	863089	161019226	88231395	77	69157											
NR1I3	9970	broad.mit.edu	37	chr1	161203117	161203117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccgcaatgccagggcttctgCcgacagtatcactgtgccag	8	8	11	14	2	2	0	1	0	1	0	2	1	2	0	4	1	3	3	4	1	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:161203117C>T	uc001fzx.2	-	4	453	c.250G>A	c.(250-252)GCA>ACA	p.A84T	TOMM40L_uc009wuf.1_Intron|NR1I3_uc001fzf.2_Missense_Mutation_p.A84T|NR1I3_uc001fzg.2_Missense_Mutation_p.A55T|NR1I3_uc001fzh.2_Missense_Mutation_p.A55T|NR1I3_uc001fzi.2_Missense_Mutation_p.A55T|NR1I3_uc001fzj.2_Missense_Mutation_p.A55T|NR1I3_uc001fzk.2_Missense_Mutation_p.A55T|NR1I3_uc001fzl.2_Missense_Mutation_p.A55T|NR1I3_uc001fzm.2_Missense_Mutation_p.A9T|NR1I3_uc001fzn.2_Intron|NR1I3_uc009wug.2_5'UTR|NR1I3_uc001fzp.2_Missense_Mutation_p.A84T|NR1I3_uc001fzo.2_Intron|NR1I3_uc001fzq.2_Intron|NR1I3_uc001fzr.2_Intron|NR1I3_uc001fzs.2_Intron|NR1I3_uc001fzt.2_Intron|NR1I3_uc001fzu.2_Intron|NR1I3_uc001fzv.2_Intron|NR1I3_uc001fzw.2_Missense_Mutation_p.A84T|NR1I3_uc001fzy.2_Missense_Mutation_p.A84T|NR1I3_uc001fzz.2_Missense_Mutation_p.A84T|NR1I3_uc001gaa.2_Missense_Mutation_p.A84T|NR1I3_uc001gab.2_Missense_Mutation_p.A84T|NR1I3_uc001gac.2_Missense_Mutation_p.A55T|NR1I3_uc010pkm.1_Missense_Mutation_p.A55T|NR1I3_uc010pkn.1_Missense_Mutation_p.A84T	NM_001077480	NP_001070948	Q14994	NR1I3_HUMAN	constitutive androstane receptor isoform 2	84					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	androgen receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(1)|skin(1)	2	all_cancers(52;1.86e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			AGGGCTTCTGCCGACAGTATC	0.582													27	97					0	0	0.009535	0	0		T	161203117	T	T	161203117	3	4	127	1	0	0	0	0	1	0	0	0	10640	739	26	2	942	2	NR1I3	1	161203117	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	183891	161203117	88047504	78	69158											
MPZ	4359	broad.mit.edu	37	chr1	161276654	161276654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcccctacccactggatgcGctctttgaaggtccccacct	6	10	8	17	1	1	1	0	1	1	0	3	2	3	2	6	2	2	1	6	2	2	2	rs121913590		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:161276654G>A	uc001gaf.3	-	3	359	c.322C>T	c.(322-324)CGC>TGC	p.R108C	MPZ_uc010pko.1_RNA	NM_000530	NP_000521	P25189	MYP0_HUMAN	myelin protein zero	98	Ig-like V-type.|Extracellular (Potential).		R -> P (in CMT1B).|R -> C (in CMT1B; severe and DSS).|R -> H (in CMT1B).|R -> S (in CMT1B).		synaptic transmission	integral to plasma membrane	structural molecule activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4	all_cancers(52;6.96e-17)|all_hematologic(112;0.093)	Breast(1374;0.181)	BRCA - Breast invasive adenocarcinoma(70;0.00376)			CACTGGATGCGCTCTTTGAAG	0.507													26	89					0	0	0.005443	0	0		A	161276654	A	A	161276654	3	1	127	1	0	0	0	0	1	0	0	0	9766	1087	38	1	470	1	MPZ	1	161276654	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	73537	161276654	87973967	79	69159											
FCRLA	84824	broad.mit.edu	37	chr1	161681777	161681777	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcagctgaaccccaagcaGgaagccccatgaccctgagt	11	5	9	16	0	1	3	1	3	0	0	1	4	1	4	6	1	4	2	6	1	3	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:161681777G>T	uc001gbe.2	+	5	864	c.622G>T	c.(622-624)GGA>TGA	p.G208*	FCRLA_uc001gbd.2_Nonsense_Mutation_p.G202*|FCRLA_uc001gbf.2_Nonsense_Mutation_p.G113*|FCRLA_uc001gbg.2_Nonsense_Mutation_p.G62*|FCRLA_uc009wuo.2_Nonsense_Mutation_p.G68*|FCRLA_uc009wup.2_Intron|FCRLA_uc009wuq.2_Intron	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	185	Ig-like C2-type 2.				cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			ACCCCAAGCAGGAAGCCCCAT	0.517													102	274					1.73998e-50	1.98995e-50	0.01441	1	0		T	161681777	T	T	161681777	4	4	127	1	0	0	0	0	0	1	0	0	5814	1001	35	5	640	5	FCRLA	1	161681777	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	405123	161681777	87568844	80	69160											
OLFML2B	25903	broad.mit.edu	37	chr1	161989931	161989931	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttgcactgacagtccgaGccctcagacatagccttgac	10	8	8	15	1	1	3	1	2	0	1	2	4	2	3	3	0	3	1	3	0	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:161989931G>A	uc001gbu.2	-	2	640	c.216C>T	c.(214-216)GGC>GGT	p.G72G	OLFML2B_uc010pkq.1_Silent_p.G72G	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	72										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			GACAGTCCGAGCCCTCAGACA	0.572													18	62					0	0	0.008871	0	0		A	161989931	A	A	161989931	2	1	127	1	0	0	0	0	0	0	0	1	10877	958	34	2		2	OLFML2B	1	161989931	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	308154	161989931	87260690	81	69161											
SLC9A11	284525	broad.mit.edu	37	chr1	173551081	173551081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatacactgaatgatttttGcacaccaatatccaaatatt	16	14	3	8	0	0	2	0	2	0	0	1	2	1	2	2	0	2	1	2	0	7	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:173551081G>A	uc001giz.2	-	7	1130	c.707C>T	c.(706-708)GCA>GTA	p.A236V	SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	236	Helical; (Potential).				sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						AATGATTTTTGCACACCAATA	0.299													7	48					0	0	0.004482	0	0		A	173551081	A	A	173551081	3	1	127	1	0	0	0	0	1	0	0	0	14736	1319	46	2	2755	2	SLC9A11	1	173551081	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	11561150	173551081	75699540	82	69162											
PAPPA2	60676	broad.mit.edu	37	chr1	176640157	176640157	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgcagctgaacagtacTcacttcctcaacatctactt	10	11	5	15	0	3	1	2	1	1	0	4	1	4	1	2	0	6	3	2	0	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:176640157T>C	uc001gkz.2	+	4	3207	c.2043T>C	c.(2041-2043)ACT>ACC	p.T681T	PAPPA2_uc001gky.1_Silent_p.T681T|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	681	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TGAACAGTACTCACTTCCTCA	0.512													43	164					0	0	0.01441	0	0		C	176640157	C	C	176640157	2	2	127	1	0	0	0	0	0	0	0	1	11452	1538	54	3		3	PAPPA2	1	176640157	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	3089076	176640157	72610464	83	69163											
QSOX1	5768	broad.mit.edu	37	chr1	180165497	180165497	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatgtgcccgtgtgggaCgtggaagccaccctcaactt	7	9	13	12	2	1	0	1	0	0	0	1	3	1	3	3	3	3	0	3	3	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:180165497C>T	uc001gnz.2	+	12	1644	c.1569C>T	c.(1567-1569)GAC>GAT	p.D523D	QSOX1_uc001gny.2_Silent_p.D523D|QSOX1_uc001goa.2_Silent_p.D523D|QSOX1_uc001goc.2_Silent_p.D65D|FLJ23867_uc001god.3_5'Flank	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	523					cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						CCGTGTGGGACGTGGAAGCCA	0.622													35	168					0	0	0.005524	0	0		T	180165497	T	T	180165497	2	4	127	1	0	0	0	0	0	0	0	1	12908	535	19	1		1	QSOX1	1	180165497	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3525340	180165497	69085124	84	69164											
ACBD6	84320	broad.mit.edu	37	chr1	180471273	180471273	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagccttctcaaacagctcGgccaggcaactggtctcctc	8	8	9	16	1	2	0	1	0	2	0	6	0	2	0	3	3	4	3	3	3	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:180471273G>A	uc001gog.2	-	1	750	c.129C>T	c.(127-129)GCC>GCT	p.A43A		NM_032360	NP_115736	Q9BR61	ACBD6_HUMAN	acyl-coenzyme A binding domain containing 6	43	ACB.					cytoplasm|nucleus	fatty-acyl-CoA binding			ovary(1)	1						CAAACAGCTCGGCCAGGCAAC	0.612													7	24					0	0	0.001984	0	0		A	180471273	A	A	180471273	2	1	127	1	0	0	0	0	0	0	0	1	126	1103	39	1		1	ACBD6	1	180471273	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	305776	180471273	68779348	85	69165											
STX6	10228	broad.mit.edu	37	chr1	180945780	180945780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatggcacaccattggcgccGatctggaaggcaggacatgg	10	7	14	10	2	1	0	0	0	1	0	1	3	1	2	2	6	0	2	2	6	2	2	rs114031596	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:180945780G>A	uc010pnq.1	-	8	931	c.694C>T	c.(694-696)CGG>TGG	p.R232W	STX6_uc009wxo.1_5'Flank|STX6_uc001goo.2_Missense_Mutation_p.R232W|STX6_uc010pnr.1_Missense_Mutation_p.R131W	NM_005819	NP_005810	O43752	STX6_HUMAN	syntaxin 6	232	Cytoplasmic (Potential).				Golgi vesicle transport|intracellular protein transport|vesicle fusion	clathrin-coated vesicle|early endosome|integral to membrane|perinuclear region of cytoplasm|plasma membrane|trans-Golgi network membrane	SNAP receptor activity			ovary(1)	1						CATTGGCGCCGATCTGGAAGG	0.532													5	138					0	0	0.000602	0	0		A	180945780	A	A	180945780	3	1	127	1	0	0	0	0	1	0	0	0	15374	1057	37	1	77	1	STX6	1	180945780	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	474507	180945780	68304841	86	69166											
CACNA1E	777	broad.mit.edu	37	chr1	181453073	181453073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggcagaactgtttcaccGtcaacagatccctgttcatc	9	11	7	14	2	3	2	3	0	0	2	6	2	5	2	3	1	2	3	3	1	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:181453073G>A	uc001gow.2	+	1	358	c.193G>A	c.(193-195)GTC>ATC	p.V65I		NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	65	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CTGTTTCACCGTCAACAGATC	0.537													60	223					0	0	0.01441	0	0		A	181453073	A	A	181453073	3	1	127	1	0	0	0	0	1	0	0	0	2545	1145	40	1	195	1	CACNA1E	1	181453073	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	507293	181453073	67797548	87	69167											
CACNA1E	777	broad.mit.edu	37	chr1	181767624	181767624	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccccgctgacctcccaagCtctggagagcaacaatgctt	9	8	8	16	1	1	2	0	1	1	1	3	3	3	2	4	1	4	4	4	1	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:181767624C>A	uc001gow.2	+	47	6632	c.6467C>A	c.(6466-6468)GCT>GAT	p.A2156D	CACNA1E_uc009wxs.2_Missense_Mutation_p.A2044D|CACNA1E_uc009wxt.2_Missense_Mutation_p.A1425D	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	2199	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						ACCTCCCAAGCTCTGGAGAGC	0.632													18	47					8.00594e-06	8.32312e-06	0.007413	1	0		A	181767624	A	A	181767624	3	1	127	1	0	0	0	0	1	0	0	0	2545	797	28	5	6653	5	CACNA1E	1	181767624	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	314551	181767624	67482997	88	69168											
ZNF648	127665	broad.mit.edu	37	chr1	182026561	182026561	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggtcccagttgctcccCggcctggggaaacacaacag	10	5	13	13	1	0	0	0	0	0	0	2	2	2	2	4	5	3	2	4	5	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:182026561C>T	uc001goz.2	-	2	793	c.585G>A	c.(583-585)CCG>CCA	p.P195P		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	195					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGTTGCTCCCCGGCCTGGGGA	0.612													11	28					0	0	0.008291	0	0		T	182026561	T	T	182026561	2	4	127	1	0	0	0	0	0	0	0	1	18088	639	23	1		1	ZNF648	1	182026561	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	258937	182026561	67224060	89	69169											
RNASEL	6041	broad.mit.edu	37	chr1	182555115	182555115	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcaacagcaagcagcagtGctgttttgccatcactgtct	9	12	9	11	0	3	0	2	0	1	0	3	0	3	0	1	0	6	6	1	0	2	3	rs145415894		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:182555115G>T	uc001gpj.1	-	1	994	c.827C>A	c.(826-828)GCA>GAA	p.A276E	RNASEL_uc009wxz.1_Missense_Mutation_p.A276E|RNASEL_uc001gpk.2_Missense_Mutation_p.A276E|RNASEL_uc009wya.1_Missense_Mutation_p.A276E	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	276	ANK 8.				mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						AAGCAGCAGTGCTGTTTTGCC	0.493									Hereditary_Prostate_Cancer				25	147					1.42536e-11	1.55603e-11	0.004656	1	0		T	182555115	T	T	182555115	3	4	127	1	0	0	0	0	1	0	0	0	13441	1319	46	5	1422	5	RNASEL	1	182555115	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	528554	182555115	66695506	90	69170											
EDEM3	80267	broad.mit.edu	37	chr1	184677410	184677410	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgctgttctttttgttgCtgacttgacaattcaatcat	8	18	7	8	0	3	2	2	2	1	0	3	2	3	2	0	0	3	5	0	0	2	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:184677410C>T	uc010pok.1	-	17	2175	c.1914G>A	c.(1912-1914)CAG>CAA	p.Q638Q	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Silent_p.Q638Q	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	638					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						CTTTTTGTTGCTGACTTGACA	0.443													7	33					0	0	0.00308	0	0		T	184677410	T	T	184677410	2	4	127	1	0	0	0	0	0	0	0	1	4919	796	28	2		2	EDEM3	1	184677410	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2122295	184677410	64573211	91	69171											
F13B	2165	broad.mit.edu	37	chr1	197026436	197026436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgcattttggaggttctGtccattttccatcttcacaa	9	16	6	10	0	3	0	1	0	2	0	5	1	5	1	2	2	1	2	2	2	2	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:197026436G>A	uc001gtt.1	-	6	1009	c.965C>T	c.(964-966)ACA>ATA	p.T322I		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	322	Sushi 5.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TGGAGGTTCTGTCCATTTTCC	0.368													38	167					0	0	0.007835	0	0		A	197026436	A	A	197026436	3	1	127	1	0	0	0	0	1	0	0	0	5349	1377	48	4	1048	4	F13B	1	197026436	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	12349026	197026436	52224185	92	69172											
KLHL12	59349	broad.mit.edu	37	chr1	202894140	202894140	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaatcactacaggcagccaGcacaatccgatgggcaggga	13	5	12	11	1	1	0	1	0	0	0	2	2	2	1	2	3	3	4	2	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:202894140G>A	uc001gyo.1	-	2	351	c.151C>T	c.(151-153)CTG>TTG	p.L51L	KLHL12_uc010pqc.1_Silent_p.L89L|KLHL12_uc009xah.1_Silent_p.L51L	NM_021633	NP_067646	Q53G59	KLH12_HUMAN	kelch-like 12	51	BTB.				Wnt receptor signaling pathway		protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)			CAGGCAGCCAGCACAATCCGA	0.458													23	92					0	0	0.005443	0	0		A	202894140	A	A	202894140	2	1	127	1	0	0	0	0	0	0	0	1	8384	962	34	2		2	KLHL12	1	202894140	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5867704	202894140	46356481	93	69173											
ADORA1	134	broad.mit.edu	37	chr1	203098114	203098114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccaccttctgcttcatcGtgtcgctggcggtggctgat	4	13	12	12	3	2	1	1	1	1	0	4	1	2	1	2	3	2	3	2	3	0	2	rs2275349		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:203098114G>A	uc001gze.1	+	3	578	c.145G>A	c.(145-147)GTG>ATG	p.V49M	ADORA1_uc001gzf.1_Missense_Mutation_p.V49M|ADORA1_uc010pqg.1_Translation_Start_Site|ADORA1_uc009xak.1_Translation_Start_Site|ADORA1_uc010pqh.1_Missense_Mutation_p.V82M	NM_000674	NP_000665	P30542	AA1R_HUMAN	adenosine A1 receptor	49	Helical; Name=2; (Potential).				induction of apoptosis by extracellular signals|inflammatory response|nervous system development|phagocytosis	integral to plasma membrane				large_intestine(1)	1					Aminophylline(DB01223)|Caffeine(DB00201)|Defibrotide(DB04932)|Gabapentin(DB00996)|Imipramine(DB00458)|Pegademase bovine(DB00061)|Theophylline(DB00277)	CTGCTTCATCGTGTCGCTGGC	0.632													25	73					0	0	0.003271	0	0		A	203098114	A	A	203098114	3	1	127	1	0	0	0	0	1	0	0	0	326	1145	40	1	147	1	ADORA1	1	203098114	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	203974	203098114	46152507	94	69174											
FMOD	2331	broad.mit.edu	37	chr1	203316578	203316578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagactgttgtgggacagcCgcacatacagcagcttgggc	9	9	13	10	1	0	1	0	0	0	1	0	2	0	2	1	2	4	4	1	2	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:203316578C>T	uc001gzr.2	-	2	957	c.821G>A	c.(820-822)CGG>CAG	p.R274Q	FMOD_uc010pqi.1_RNA	NM_002023	NP_002014	Q06828	FMOD_HUMAN	fibromodulin precursor	274	LRR 8.				transforming growth factor beta receptor complex assembly	extracellular space|proteinaceous extracellular matrix				ovary(2)|breast(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.171)			GTGGGACAGCCGCACATACAG	0.572													40	141					0	0	0.006999	0	0		T	203316578	T	T	203316578	3	4	127	1	0	0	0	0	1	0	0	0	5973	652	23	1	317	1	FMOD	1	203316578	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	218464	203316578	45934043	95	69175											
REN	5972	broad.mit.edu	37	chr1	204131189	204131189	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggtggtgttgccaagtgtCagcctcttcatgggttggct	5	13	15	8	0	3	0	2	0	1	0	3	1	3	0	2	4	2	3	2	4	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:204131189C>T	uc001haq.2	-	2	245	c.201G>A	c.(199-201)CTG>CTA	p.L67L		NM_000537	NP_000528	P00797	RENI_HUMAN	renin preproprotein	67					angiotensin maturation|regulation of MAPKKK cascade	extracellular space|membrane	aspartic-type endopeptidase activity			skin(3)|central_nervous_system(1)	4	all_cancers(21;0.00965)|Breast(84;0.116)|all_epithelial(62;0.157)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)		Aliskiren(DB01258)|Remikiren(DB00212)	TGCCAAGTGTCAGCCTCTTCA	0.577													10	28					0	0	0.006214	0	0		T	204131189	T	T	204131189	2	4	127	1	0	0	0	0	0	0	0	1	13249	813	29	4		4	REN	1	204131189	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	814611	204131189	45119432	96	69176											
NFASC	23114	broad.mit.edu	37	chr1	204948583	204948583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgttaactcagccgtcctccGgctgtccccgtatgtcaact	6	11	8	16	4	2	0	2	0	0	0	5	0	5	0	5	1	3	3	5	1	3	2	rs151110151	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:204948583G>A	uc001hbj.2	+	19	2400	c.2072G>A	c.(2071-2073)CGG>CAG	p.R691Q	NFASC_uc010pra.1_Missense_Mutation_p.R687Q|NFASC_uc001hbi.2_Missense_Mutation_p.R687Q|NFASC_uc010prb.1_Missense_Mutation_p.R702Q|NFASC_uc010prc.1_Missense_Mutation_p.R258Q|NFASC_uc001hbk.1_Missense_Mutation_p.R497Q|NFASC_uc001hbl.1_5'Flank	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	691	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			GCCGTCCTCCGGCTGTCCCCG	0.582													38	115					0	0	0.005524	0	0		A	204948583	A	A	204948583	3	1	127	1	0	0	0	0	1	0	0	0	10378	1116	39	1	2222	1	NFASC	1	204948583	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	817394	204948583	44302038	97	69177											
CNTN2	6900	broad.mit.edu	37	chr1	205034993	205034993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacacgtgcatggcccagaCggtggtggacagcgcgtcca	8	6	15	12	4	0	1	0	0	0	1	1	2	1	2	2	4	3	2	2	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:205034993C>T	uc001hbr.2	+	14	2041	c.1772C>T	c.(1771-1773)ACG>ATG	p.T591M	CNTN2_uc001hbq.1_Missense_Mutation_p.T482M|CNTN2_uc001hbs.2_Missense_Mutation_p.T379M	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	591	Ig-like C2-type 6.				axon guidance|clustering of voltage-gated potassium channels	anchored to membrane|juxtaparanode region of axon|myelin sheath|node of Ranvier|synapse part	identical protein binding			ovary(1)	1	all_cancers(21;0.144)|Breast(84;0.0437)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			ATGGCCCAGACGGTGGTGGAC	0.627													15	61					0	0	0.003163	0	0		T	205034993	T	T	205034993	3	4	127	1	0	0	0	0	1	0	0	0	3644	536	19	1	1822	1	CNTN2	1	205034993	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	86410	205034993	44215628	98	69178											
CR1	1378	broad.mit.edu	37	chr1	207753935	207753935	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatctccagcttggggcaaaGgtgtcctttgtctgtgatga	8	13	12	8	0	2	2	0	2	2	0	4	2	3	2	2	3	1	2	2	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:207753935G>T	uc001hfy.2	+	23	3983	c.3843G>T	c.(3841-3843)AAG>AAT	p.K1281N	CR1_uc009xcl.1_Missense_Mutation_p.K831N|CR1_uc001hfx.2_Missense_Mutation_p.K1731N	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1281	Sushi 20.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TTGGGGCAAAGGTGTCCTTTG	0.433													74	266					8.2577e-42	9.43642e-42	0.01441	1	0		T	207753935	T	T	207753935	3	4	127	1	0	0	0	0	1	0	0	0	3843	991	35	5	5315	5	CR1	1	207753935	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2718942	207753935	41496686	99	69179											
CR1	1378	broad.mit.edu	37	chr1	207785031	207785031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttccacagtgtgtcagcCgcctccagaaatcctgcatg	8	10	8	15	1	1	1	1	0	0	1	4	1	4	1	6	0	2	1	6	0	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:207785031C>T	uc001hfy.2	+	30	5095	c.4955C>T	c.(4954-4956)CCG>CTG	p.P1652L	CR1_uc001hfx.2_Missense_Mutation_p.P2102L	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1652	Sushi 26.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						GTGTGTCAGCCGCCTCCAGAA	0.478													34	136					0	0	0.004878	0	0		T	207785031	T	T	207785031	3	4	127	1	0	0	0	0	1	0	0	0	3843	652	23	1	6455	1	CR1	1	207785031	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	31096	207785031	41465590	100	69180											
LAMB3	3914	broad.mit.edu	37	chr1	209799235	209799235	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcaagggtggcaggccacGcacaccgggtagcgattaca	12	4	14	11	3	0	0	0	0	0	0	0	1	0	0	2	4	3	4	2	4	4	2	rs138710333		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:209799235G>A	uc001hhg.2	-	13	2124	c.1734C>T	c.(1732-1734)TGC>TGT	p.C578C	LAMB3_uc009xco.2_Silent_p.C578C|LAMB3_uc001hhh.2_Silent_p.C578C|LAMB3_uc010psl.1_Intron|hsa-mir-4260|MI0015859_5'Flank	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	578	Laminin EGF-like 6.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		GGCAGGCCACGCACACCGGGT	0.667													3	27					0	0	0.004672	0	0		A	209799235	A	A	209799235	2	1	127	1	0	0	0	0	0	0	0	1	8628	1079	38	1		1	LAMB3	1	209799235	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2014204	209799235	39451386	101	69181											
RPS6KC1	26750	broad.mit.edu	37	chr1	213414588	213414588	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagaacatcagattcccTcagtagatcaaaaaatagcc	17	8	5	11	0	3	3	3	0	0	3	5	3	5	3	3	0	2	1	3	0	7	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:213414588T>G	uc010ptr.1	+	11	1928	c.1769T>G	c.(1768-1770)CTC>CGC	p.L590R	RPS6KC1_uc001hkd.2_Missense_Mutation_p.L578R|RPS6KC1_uc010pts.1_Missense_Mutation_p.L378R|RPS6KC1_uc010ptt.1_Missense_Mutation_p.L378R|RPS6KC1_uc010ptu.1_Missense_Mutation_p.L409R|RPS6KC1_uc010ptv.1_Missense_Mutation_p.L125R|RPS6KC1_uc001hke.2_Missense_Mutation_p.L409R	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	590					cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		TCAGATTCCCTCAGTAGATCA	0.458													17	60					0	0	0.00499	0	0		G	213414588	G	G	213414588	3	3	127	1	0	0	0	0	1	0	0	0	13683	1551	54	5	1811	5	RPS6KC1	1	213414588	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	3615353	213414588	35836033	102	69182											
EPRS	2058	broad.mit.edu	37	chr1	220145457	220145457	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcttccattgtattagccAcaaccatatgagtcttaagg	12	13	7	9	0	2	1	0	1	2	0	3	1	3	1	3	1	2	1	3	1	5	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:220145457A>G	uc001hly.1	-	30	4547	c.4277T>C	c.(4276-4278)GTG>GCG	p.V1426A		NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	1426	Prolyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	TGTATTAGCCACAACCATATG	0.303													20	75					0	0	0.010504	0	0		G	220145457	G	G	220145457	3	3	127	1	0	0	0	0	1	0	0	0	5199	159	6	3	273	3	EPRS	1	220145457	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	6730869	220145457	29105164	103	69183											
BPNT1	10380	broad.mit.edu	37	chr1	220246279	220246279	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaatcagctcttgatcCacttcctcagaaggcagatc	10	12	6	13	0	5	3	3	1	2	2	8	3	7	3	2	1	1	2	2	1	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:220246279C>A	uc001hma.2	-	4	418	c.246G>T	c.(244-246)GTG>GTT	p.V82V	BPNT1_uc010pug.1_Silent_p.V27V|BPNT1_uc010puh.1_Intron|BPNT1_uc001hmb.3_Silent_p.V82V	NM_006085	NP_006076	O95861	BPNT1_HUMAN	3'(2'), 5'-bisphosphate nucleotidase 1	82					3'-phosphoadenosine 5'-phosphosulfate metabolic process|nervous system development|xenobiotic metabolic process	cytosol	3'(2'),5'-bisphosphate nucleotidase activity			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0558)		GCTCTTGATCCACTTCCTCAG	0.403													43	154					2.47872e-24	2.80764e-24	0.010771	1	0		A	220246279	A	A	220246279	2	1	127	1	0	0	0	0	0	0	0	1	1497	581	21	5		5	BPNT1	1	220246279	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	100822	220246279	29004342	104	69184											
TP53BP2	7159	broad.mit.edu	37	chr1	223986208	223986208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactctcggctgctgccctgCtggttttggtttagttccca	3	15	10	13	1	1	0	0	0	1	0	3	0	2	0	2	3	3	6	2	3	1	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:223986208C>T	uc010pvb.1	-	12	1949	c.1657G>A	c.(1657-1659)GCA>ACA	p.A553T	TP53BP2_uc001hod.2_Missense_Mutation_p.A424T|TP53BP2_uc010puz.1_Intron|TP53BP2_uc010pva.1_Missense_Mutation_p.A192T	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	547					apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		TGCTGCCCTGCTGGTTTTGGT	0.507													43	136					0	0	0.011902	0	0		T	223986208	T	T	223986208	3	4	127	1	0	0	0	0	1	0	0	0	16410	797	28	2	1775	2	TP53BP2	1	223986208	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3739929	223986208	25264413	105	69185											
TMEM63A	9725	broad.mit.edu	37	chr1	226048598	226048598	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcagcagcaaaggtgactgtCcacttggaggtatagagctc	11	9	12	9	0	1	2	1	1	0	1	3	3	2	3	1	3	3	4	1	3	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:226048598C>T	uc001hpm.1	-	14	1435	c.1185G>A	c.(1183-1185)TGG>TGA	p.W395*		NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	395						integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					AGGTGACTGTCCACTTGGAGG	0.567													34	108					0	0	0.003271	0	0		T	226048598	T	T	226048598	4	4	127	1	0	0	0	0	0	1	0	0	16215	856	30	4	1282	4	TMEM63A	1	226048598	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2062390	226048598	23202023	106	69186											
PSEN2	5664	broad.mit.edu	37	chr1	227079049	227079049	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgccctccagctcccctaCgacccggagatgggtgagta	7	7	13	14	2	0	2	0	1	0	1	2	4	2	2	5	3	3	2	5	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:227079049C>T	uc009xeo.1	+	10	1384	c.957C>T	c.(955-957)TAC>TAT	p.Y319Y	PSEN2_uc009xep.1_Silent_p.Y319Y|PSEN2_uc001hqk.2_RNA	NM_000447	NP_000438	P49810	PSN2_HUMAN	presenilin 2 isoform 1	319	Cytoplasmic (Potential).				amyloid precursor protein catabolic process|anti-apoptosis|apoptosis|beta-amyloid metabolic process|calcium ion transport|induction of apoptosis by extracellular signals|intracellular signal transduction|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear inner membrane|perinuclear region of cytoplasm|Z disc	aspartic-type endopeptidase activity|protein binding			lung(2)	2		Prostate(94;0.0771)				AGCTCCCCTACGACCCGGAGA	0.627													4	18					0	0	0.000602	0	0		T	227079049	T	T	227079049	2	4	127	1	0	0	0	0	0	0	0	1	12673	547	19	1		1	PSEN2	1	227079049	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1030451	227079049	22171572	107	69187											
OBSCN	84033	broad.mit.edu	37	chr1	228494756	228494756	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgccaagtaccagatggtGcaggatggtgcagctgcaga	10	8	15	8	0	0	2	0	0	0	2	0	3	0	3	2	3	6	5	2	3	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:228494756G>A	uc009xez.1	+	45	12125	c.12081G>A	c.(12079-12081)GTG>GTA	p.V4027V	OBSCN_uc001hsn.2_Silent_p.V4027V	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4027	Ig-like 41.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				ACCAGATGGTGCAGGATGGTG	0.647													4	20					0	0	0.001984	0	0		A	228494756	A	A	228494756	2	1	127	1	0	0	0	0	0	0	0	1	10831	1306	46	2		2	OBSCN	1	228494756	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1415707	228494756	20755865	108	69188											
TRIM67	440730	broad.mit.edu	37	chr1	231349596	231349596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgcaagggggccaccgtggGcgtgctgctggacctgaata	7	7	17	10	2	0	1	0	1	0	0	0	2	0	2	3	4	3	3	3	4	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:231349596G>A	uc009xfn.1	+	9	2201	c.2159G>A	c.(2158-2160)GGC>GAC	p.G720D		NM_001004342	NP_001004342	Q6ZTA4	TRI67_HUMAN	tripartite motif-containing 67	720	B30.2/SPRY.					cytoplasm|cytoskeleton	zinc ion binding			ovary(2)|breast(1)|kidney(1)	4	Breast(184;0.0871)	all_cancers(173;0.189)|Prostate(94;0.167)				GCCACCGTGGGCGTGCTGCTG	0.612													23	131					0	0	0.004656	0	0		A	231349596	A	A	231349596	3	1	127	1	0	0	0	0	1	0	0	0	16566	1203	42	2	2193	2	TRIM67	1	231349596	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2854840	231349596	17901025	109	69189											
PCNXL2	80003	broad.mit.edu	37	chr1	233134036	233134036	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaggatgacaccccgtgctGagcaccgccttttctgggct	7	9	11	14	2	1	2	0	2	1	0	1	3	1	3	4	2	2	3	4	2	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:233134036G>A	uc001hvl.2	-	32	5987	c.5752C>T	c.(5752-5754)CAG>TAG	p.Q1918*	PCNXL2_uc001hvk.1_Nonsense_Mutation_p.Q570*|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1918						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				ACCCCGTGCTGAGCACCGCCT	0.607													7	22					0	0	0.001984	0	0		A	233134036	A	A	233134036	4	1	127	1	0	0	0	0	0	1	0	0	11611	1299	45	4	673	4	PCNXL2	1	233134036	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1784440	233134036	16116585	110	69190											
TARBP1	6894	broad.mit.edu	37	chr1	234601428	234601428	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacagagagctctctgaaagCgcatccattaatggtccaat	13	10	8	10	1	1	2	0	1	1	1	4	3	3	2	2	1	3	2	2	1	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:234601428C>T	uc001hwd.2	-	5	1275	c.1275G>A	c.(1273-1275)GCG>GCA	p.A425A		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	425					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			TCTCTGAAAGCGCATCCATTA	0.299													8	40					0	0	0.006214	0	0		T	234601428	T	T	234601428	2	4	127	1	0	0	0	0	0	0	0	1	15580	755	27	1		1	TARBP1	1	234601428	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1467392	234601428	14649193	111	69191											
B3GALNT2	148789	broad.mit.edu	37	chr1	235634232	235634232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatttcttgacacaaggcCgtggaggtcttggctctccc	7	11	12	11	1	3	2	0	1	3	1	4	4	3	3	2	4	0	1	2	4	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:235634232C>T	uc001hxc.2	-	6	923	c.694G>A	c.(694-696)GGC>AGC	p.G232S	B3GALNT2_uc001hxd.1_Missense_Mutation_p.G273S	NM_152490	NP_689703	Q8NCR0	B3GL2_HUMAN	beta-1,3-N-acetylgalactosaminyltransferase 2	232	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			breast(1)	1	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.0539)|Prostate(94;0.0353)	OV - Ovarian serous cystadenocarcinoma(106;0.000117)			GACACAAGGCCGTGGAGGTCT	0.393													30	148					0	0	0.003271	0	0		T	235634232	T	T	235634232	3	4	127	1	0	0	0	0	1	0	0	0	1247	652	23	1	836	1	B3GALNT2	1	235634232	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1032804	235634232	13616389	112	69192											
RYR2	6262	broad.mit.edu	37	chr1	237729972	237729972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtattttgaatttgagaCggtcactgctggagacatga	10	13	13	5	1	1	4	1	3	0	2	1	6	1	4	0	3	1	2	0	3	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:237729972C>T	uc001hyl.1	+	28	3440	c.3320C>T	c.(3319-3321)ACG>ATG	p.T1107M		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1107	Cytoplasmic (By similarity).|4 X approximate repeats.|B30.2/SPRY 2.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GAATTTGAGACGGTCACTGCT	0.552													48	148					0	0	0.01441	0	0		T	237729972	T	T	237729972	3	4	127	1	0	0	0	0	1	0	0	0	13794	536	19	1	3430	1	RYR2	1	237729972	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2095740	237729972	11520649	113	69193											
FMN2	56776	broad.mit.edu	37	chr1	240370965	240370965	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgccccctctacccggagcGgcaataccccctccgccccc	5	4	7	25	4	1	0	0	0	1	0	2	1	2	1	9	2	3	1	9	2	3	2	rs146070457		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:240370965G>A	uc010pyd.1	+	5	3078	c.2853G>A	c.(2851-2853)GCG>GCA	p.A951A	FMN2_uc010pye.1_Silent_p.A955A	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	951	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TACCCGGAGCGGCAATACCCC	0.697													10	39					0	0	0.013537	0	0		A	240370965	A	A	240370965	2	1	127	1	0	0	0	0	0	0	0	1	5964	1103	39	1		1	FMN2	1	240370965	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2640993	240370965	8879656	114	69194											
ZNF669	79862	broad.mit.edu	37	chr1	247263838	247263838	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggtttttctccagtatgAattctttcgtggaggtgaag	8	16	12	5	1	2	2	0	2	2	0	4	3	2	3	1	3	0	2	1	3	4	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr1:247263838A>G	uc001ice.2	-	4	1406	c.1233T>C	c.(1231-1233)ATT>ATC	p.I411I	ZNF669_uc001icf.2_Silent_p.I325I	NM_024804	NP_079080	Q96BR6	ZN669_HUMAN	zinc finger protein 669 isoform 1	411	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;4.09e-05)|all_epithelial(71;6.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0283)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00427)			CTCCAGTATGAATTCTTTCGT	0.413													49	199					0	0	0.01441	0	0		G	247263838	G	G	247263838	2	3	127	1	0	0	0	0	0	0	0	1	18101	242	9	3		3	ZNF669	1	247263838	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	6892873	247263838	1986783	115	69195											
PXDN	7837	broad.mit.edu	37	chr2	1653138	1653138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgggtgtgacggtctccGtcccgatcagggtggtggac	4	9	17	11	5	2	1	1	1	1	0	5	3	3	2	2	5	0	0	2	5	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:1653138G>A	uc002qxa.2	-	17	2478	c.2414C>T	c.(2413-2415)ACG>ATG	p.T805M		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	805					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GACGGTCTCCGTCCCGATCAG	0.652													7	40					0	0	0.006214	0	0		A	1653138	A	A	1653138	3	1	127	1	0	0	0	0	1	0	0	0	12872	1145	40	1	2053	1	PXDN	2	1653138	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08		1653138	241546235	116	69196											
IAH1	285148	broad.mit.edu	37	chr2	9628458	9628458	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggagatggagaccattaGccaatcacaggagacccaaa	15	5	11	10	0	1	3	1	0	0	3	1	6	1	3	3	3	1	0	3	3	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:9628458G>A	uc002qzr.2	+	6	773	c.747G>A	c.(745-747)TAG>TAA	p.*249*	IAH1_uc002qzs.2_Silent_p.*136*|IAH1_uc002qzt.2_Silent_p.*136*|IAH1_uc010yiz.1_RNA	NM_001039613	NP_001034702	Q2TAA2	IAH1_HUMAN	isoamyl acetate-hydrolyzing esterase 1 homolog	249					lipid catabolic process		hydrolase activity, acting on ester bonds				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GAGACCATTAGCCAATCACAG	0.443													13	58					0	0	0.00245	0	0		A	9628458	A	A	9628458	2	1	127	1	0	0	0	0	0	0	0	1	7487	966	34	2		2	IAH1	2	9628458	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	7975320	9628458	233570915	117	69197											
WDR35	57539	broad.mit.edu	37	chr2	20173395	20173395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggctgccttctggaagcctgCcacagctaacacgctgccca	8	7	10	16	1	1	0	0	0	1	0	1	1	1	1	4	2	6	3	4	2	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:20173395C>T	uc002rdi.2	-	8	919	c.811G>A	c.(811-813)GCA>ACA	p.A271T	WDR35_uc002rdj.2_Missense_Mutation_p.A271T|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_5'UTR	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	271										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGGAAGCCTGCCACAGCTAAC	0.458													19	28					0	0	0.008871	0	0		T	20173395	T	T	20173395	3	4	127	1	0	0	0	0	1	0	0	0	17315	739	26	2	2818	2	WDR35	2	20173395	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	10544937	20173395	223025978	118	69198											
WDR35	57539	broad.mit.edu	37	chr2	20175418	20175418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggtcttttccccaaataCgattgcctaaaacaaaacat	15	11	4	11	1	2	0	1	0	1	0	3	1	3	0	3	1	4	0	3	1	6	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:20175418C>T	uc002rdi.2	-	6	551	c.443G>A	c.(442-444)CGT>CAT	p.R148H	WDR35_uc002rdj.2_Missense_Mutation_p.R148H|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_5'UTR	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	148	WD 3.									ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCCCAAATACGATTGCCTAA	0.373													14	51					0	0	0.00499	0	0		T	20175418	T	T	20175418	3	4	127	1	0	0	0	0	1	0	0	0	17315	536	19	1	3194	1	WDR35	2	20175418	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2023	20175418	223023955	119	69199											
RHOB	388	broad.mit.edu	37	chr2	20647251	20647251	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggccatccgcaagaagctgGtggtggtgggcgacggcgcg	6	5	19	11	6	0	1	0	0	0	1	1	2	1	1	2	6	1	2	2	6	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:20647251G>C	uc002rdv.2	+	1	417	c.25G>C	c.(25-27)GTG>CTG	p.V9L		NM_004040	NP_004031	P62745	RHOB_HUMAN	ras homolog gene family, member B precursor	9					angiogenesis|axon guidance|cell adhesion|endosome to lysosome transport|negative regulation of cell cycle|platelet activation|positive regulation of angiogenesis|protein transport|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|transformed cell apoptosis	cytosol|late endosome membrane|nucleus|plasma membrane	GTP binding|GTPase activity|protein binding			ovary(1)|lung(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)	all_epithelial(98;4.19e-09)|Lung NSC(108;0.00452)|Ovarian(717;0.0164)		OV - Ovarian serous cystadenocarcinoma(76;1.14e-22)|Epithelial(75;7.84e-19)		CAAGAAGCTGGTGGTGGTGGG	0.687													3	10					0	0	0.000602	0	0		C	20647251	C	C	20647251	3	2	127	1	0	0	0	0	1	0	0	0	13357	1261	44	5	27	5	RHOB	2	20647251	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	471833	20647251	222552122	120	69200											
ASXL2	55252	broad.mit.edu	37	chr2	25966441	25966441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggttttaaggctagaagctGctggcaaagtgctcgagggt	9	10	16	6	1	0	1	0	0	0	1	1	2	0	1	0	4	3	6	0	4	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:25966441G>A	uc002rgs.2	-	12	2986	c.2765C>T	c.(2764-2766)GCA>GTA	p.A922V	ASXL2_uc002rgt.1_Intron	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	922					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCTAGAAGCTGCTGGCAAAGT	0.468													34	181					0	0	0.003755	0	0		A	25966441	A	A	25966441	3	1	127	1	0	0	0	0	1	0	0	0	1068	1319	46	2	1546	2	ASXL2	2	25966441	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5319190	25966441	217232932	121	69201											
EIF2B4	8890	broad.mit.edu	37	chr2	27591927	27591927	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttaggaggtggtcctccttGttccccttttcttgcctgtt	2	18	9	12	0	1	0	0	0	1	0	4	1	4	1	5	3	1	2	5	3	1	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:27591927G>A	uc002rkb.2	-	4	507	c.364C>T	c.(364-366)CAA>TAA	p.Q122*	EIF2B4_uc002rjz.2_Nonsense_Mutation_p.Q142*|EIF2B4_uc002rka.2_Nonsense_Mutation_p.Q107*|EIF2B4_uc002rkc.2_Nonsense_Mutation_p.Q121*|EIF2B4_uc002rkd.2_5'UTR|EIF2B4_uc002rke.2_Nonsense_Mutation_p.Q91*|EIF2B4_uc002rkf.1_Nonsense_Mutation_p.Q91*|SNX17_uc010ylj.1_5'Flank|SNX17_uc002rkg.1_5'Flank|SNX17_uc010ylk.1_5'Flank|SNX17_uc010eza.1_5'Flank|SNX17_uc002rki.1_5'Flank|SNX17_uc002rkh.1_5'Flank|SNX17_uc010yll.1_5'Flank|SNX17_uc010ylm.1_5'Flank|SNX17_uc010yln.1_5'Flank|SNX17_uc010ylo.1_5'Flank|SNX17_uc010ylp.1_5'Flank|SNX17_uc010ylq.1_5'Flank	NM_001034116	NP_001029288	Q9UI10	EI2BD_HUMAN	eukaryotic translation initiation factor 2B,	122					myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	translation initiation factor activity|translation initiation factor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGTCCTCCTTGTTCCCCTTTT	0.562													41	113					0	0	0.00623	0	0		A	27591927	A	A	27591927	4	1	127	1	0	0	0	0	0	1	0	0	5009	1386	48	4	1247	4	EIF2B4	2	27591927	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1625486	27591927	215607446	122	69202											
IFT172	26160	broad.mit.edu	37	chr2	27703942	27703942	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttcctagcacaacagactgGcccccaggacttgatacagc	11	7	8	15	0	0	2	0	1	0	1	1	3	1	3	3	2	4	1	3	2	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:27703942G>C	uc002rku.2	-	8	807	c.756C>G	c.(754-756)GGC>GGG	p.G252G	IFT172_uc002rkw.2_Silent_p.G252G|IFT172_uc010yls.1_Silent_p.G231G|IFT172_uc010ezc.2_Silent_p.G252G|IFT172_uc002rkv.2_Silent_p.G252G	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	252	WD 6.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CAACAGACTGGCCCCCAGGAC	0.463													9	42					0	0	0.006214	0	0		C	27703942	C	C	27703942	2	2	127	1	0	0	0	0	0	0	0	1	7573	1190	42	5		5	IFT172	2	27703942	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	112015	27703942	215495431	123	69203											
TRMT61B	55006	broad.mit.edu	37	chr2	29074131	29074131	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcaagttcacaggtgcgAattccatctaaaagttcaat	15	10	8	8	1	3	1	2	0	1	1	4	2	4	1	1	1	2	3	1	1	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:29074131A>G	uc002rmm.2	-	5	1151	c.1119T>C	c.(1117-1119)ATT>ATC	p.I373I	TRMT61B_uc002rmn.2_Silent_p.I373I|TRMT61B_uc010ezk.2_Intron	NM_017910	NP_060380	Q9BVS5	TR61B_HUMAN	tRNA methyltransferase 61 homolog B	373							tRNA (adenine-N1-)-methyltransferase activity				0						CACAGGTGCGAATTCCATCTA	0.323													15	50					0	0	0.003163	0	0		G	29074131	G	G	29074131	2	3	127	1	0	0	0	0	0	0	0	1	16596	242	9	3		3	TRMT61B	2	29074131	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1370189	29074131	214125242	124	69204											
GALNT14	79623	broad.mit.edu	37	chr2	31135133	31135133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacaagaaccactggggCgccagggaacaaggtgatga	15	3	15	8	1	0	3	0	2	0	1	0	5	0	5	2	5	2	0	2	5	5	0	rs149431826		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:31135133C>T	uc002rnr.2	-	14	2075	c.1456G>A	c.(1456-1458)GCC>ACC	p.A486T	GALNT14_uc002rnq.2_Missense_Mutation_p.A466T|GALNT14_uc002rns.2_Missense_Mutation_p.A491T|GALNT14_uc010ymr.1_Missense_Mutation_p.A451T	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	486	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					ACCACTGGGGCGCCAGGGAAC	0.557													26	105					0	0	0.00632	0	0		T	31135133	T	T	31135133	3	4	127	1	0	0	0	0	1	0	0	0	6227	768	27	1	210	1	GALNT14	2	31135133	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2061002	31135133	212064240	125	69205											
GALNT14	79623	broad.mit.edu	37	chr2	31152322	31152322	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atagtattgcttgtattcatCcatccacacttcagctgtcc	9	15	5	12	0	2	0	2	0	0	0	5	0	5	0	3	0	2	4	3	0	3	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:31152322C>A	uc002rnr.2	-	11	1709	c.1090G>T	c.(1090-1092)GAT>TAT	p.D364Y	GALNT14_uc002rnq.2_Missense_Mutation_p.D344Y|GALNT14_uc002rns.2_Missense_Mutation_p.D369Y|GALNT14_uc010ymr.1_Missense_Mutation_p.D329Y|GALNT14_uc010ezo.1_Missense_Mutation_p.D331Y	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	364	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					TTGTATTCATCCATCCACACT	0.547													9	55					1.76689e-08	1.87683e-08	0.006214	1	0		A	31152322	A	A	31152322	3	1	127	1	0	0	0	0	1	0	0	0	6227	855	30	5	588	5	GALNT14	2	31152322	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	17189	31152322	212047051	126	69206											
XDH	7498	broad.mit.edu	37	chr2	31560668	31560668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaagcagccaggaagagggGcggctctccaacagcctgaa	13	3	14	11	1	1	3	0	1	1	2	2	4	1	4	3	4	4	2	3	4	4	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:31560668G>A	uc002rnv.1	-	35	3869	c.3790C>T	c.(3790-3792)CCC>TCC	p.P1264S		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	1264					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	AGGAAGAGGGGCGGCTCTCCA	0.582													5	35					0	0	0.000602	0	0		A	31560668	A	A	31560668	3	1	127	1	0	0	0	0	1	0	0	0	17452	1203	42	2	219	2	XDH	2	31560668	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	408346	31560668	211638705	127	69207											
XDH	7498	broad.mit.edu	37	chr2	31570415	31570415	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctgtccattgaggtcagcGctgacagaggcagccgtggg	7	7	16	11	2	1	3	1	2	0	1	2	3	2	3	3	3	2	2	3	3	0	1	rs45562835		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:31570415G>A	uc002rnv.1	-	29	3328	c.3249C>T	c.(3247-3249)AGC>AGT	p.S1083S		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	1083					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	TGAGGTCAGCGCTGACAGAGG	0.582													25	82					0	0	0.008361	0	0		A	31570415	A	A	31570415	2	1	127	1	0	0	0	0	0	0	0	1	17452	1078	38	1		1	XDH	2	31570415	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	9747	31570415	211628958	128	69208											
BIRC6	57448	broad.mit.edu	37	chr2	32703728	32703728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacgcattgcaaatgccaCgaggccaactattcatctgt	11	10	8	12	2	2	0	1	0	1	0	2	1	2	0	2	1	4	3	2	1	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:32703728C>T	uc010ezu.2	+	36	7228	c.7094C>T	c.(7093-7095)ACG>ATG	p.T2365M		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	2365					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					GCAAATGCCACGAGGCCAACT	0.373													13	76					0	0	0.001855	0	0		T	32703728	T	T	32703728	3	4	127	1	0	0	0	0	1	0	0	0	1439	536	19	1	7236	1	BIRC6	2	32703728	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1133313	32703728	210495645	129	69209											
STRN	6801	broad.mit.edu	37	chr2	37152258	37152258	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgaattacctttcctgttTaagagcatactccaacattt	12	15	4	10	0	0	2	0	1	0	1	2	2	2	2	3	0	4	2	3	0	5	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:37152258T>C	uc002rpn.2	-	2	337	c.328A>G	c.(328-330)AAA>GAA	p.K110E	STRN_uc010ezx.2_Missense_Mutation_p.K110E	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	110	Potential.				dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				CTTTCCTGTTTAAGAGCATAC	0.289													4	143					0	0	0.000602	0	0		C	37152258	C	C	37152258	3	2	127	1	0	0	0	0	1	0	0	0	15354	1763	61	3	2082	3	STRN	2	37152258	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	4448530	37152258	206047115	130	69210											
CYP1B1	1545	broad.mit.edu	37	chr2	38298092	38298092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttcttcgccaatgcaccGccttttgcccactgaaaaaa	12	10	6	13	2	1	1	0	1	1	0	2	1	1	1	4	0	2	2	4	0	5	4	rs28936701		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:38298092G>A	uc002rqo.2	-	4	1808	c.1405C>T	c.(1405-1407)CGG>TGG	p.R469W		NM_000104	NP_000095	Q16678	CP1B1_HUMAN	cytochrome P450, family 1, subfamily B,	469					visual perception|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			ovary(1)|central_nervous_system(1)	2		all_hematologic(82;0.21)			Estrone(DB00655)	CCAATGCACCGCCTTTTGCCC	0.493													17	60					0	0	0.00499	0	0		A	38298092	A	A	38298092	3	1	127	1	0	0	0	0	1	0	0	0	4154	1086	38	1	230	1	CYP1B1	2	38298092	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1145834	38298092	204901281	131	69211											
EPCAM	4072	broad.mit.edu	37	chr2	47607055	47607055	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggtctaaaagctggtgttAttgctgttattgtggttgtg	7	17	14	3	0	1	0	0	0	1	0	1	0	1	0	0	3	2	5	0	3	4	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:47607055A>G	uc002rvx.2	+	7	1163	c.805A>G	c.(805-807)ATT>GTT	p.I269V	EPCAM_uc002rvw.2_Missense_Mutation_p.I297V	NM_002354	NP_002345	P16422	EPCAM_HUMAN	epithelial cell adhesion molecule precursor	269	Helical; (Potential).				positive regulation of cell proliferation	apical plasma membrane|basolateral plasma membrane|integral to membrane|lateral plasma membrane|tight junction	protein binding			skin(1)	1						Agctggtgttattgctgttat	0.239									Lynch_syndrome				20	57					0	0	0.007413	0	0		G	47607055	G	G	47607055	3	3	127	1	0	0	0	0	1	0	0	0	5170	449	16	3	831	3	EPCAM	2	47607055	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	9308963	47607055	195592318	132	69212											
ASB3	51130	broad.mit.edu	37	chr2	53927628	53927628	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcatttatctgggctccatAtttcaaaagaatgttcacaa	13	15	5	8	0	4	1	3	0	1	1	5	1	5	1	1	1	0	2	1	1	6	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:53927628A>G	uc002rxg.1	-	8	1153	c.1018T>C	c.(1018-1020)TAT>CAT	p.Y340H	ASB3_uc002rxh.1_Missense_Mutation_p.Y267H|ASB3_uc002rxi.3_Missense_Mutation_p.Y378H|ASB3_uc002rxf.1_RNA	NM_016115	NP_057199	Q9Y575	ASB3_HUMAN	ankyrin repeat and SOCS box-containing protein 3	340	ANK 10.				intracellular signal transduction					ovary(1)|kidney(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TGGGCTCCATATTTCAAAAGA	0.348													18	71					0	0	0.006122	0	0		G	53927628	G	G	53927628	3	3	127	1	0	0	0	0	1	0	0	0	1025	449	16	3	550	3	ASB3	2	53927628	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	6320573	53927628	189271745	133	69213											
CCDC85A	114800	broad.mit.edu	37	chr2	56603069	56603069	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctgtggtacattctcttaAggtaaccaatcgtgtgcaac	11	12	8	10	1	1	0	0	0	1	0	3	0	1	0	2	2	4	3	2	2	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:56603069A>G	uc002rzn.2	+	5	2073	c.1571A>G	c.(1570-1572)AAG>AGG	p.K524R		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	524										breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			CATTCTCTTAAGGTAACCAAT	0.493													10	32					0	0	0.008291	0	0		G	56603069	G	G	56603069	3	3	127	1	0	0	0	0	1	0	0	0	2862	86	3	3	1589	3	CCDC85A	2	56603069	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2675441	56603069	186596304	134	69214											
KIAA1841	84542	broad.mit.edu	37	chr2	61343153	61343153	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagttcactagacaaccaaAaaagcaggtatcttcaccct	16	8	6	11	0	3	1	2	0	1	1	3	2	3	1	2	1	2	3	2	1	7	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:61343153A>G	uc002saw.3	+	17	2087	c.1784A>G	c.(1783-1785)AAA>AGA	p.K595R	KIAA1841_uc002sax.3_Missense_Mutation_p.K449R|KIAA1841_uc002say.2_Missense_Mutation_p.K595R	NM_001129993	NP_001123465	Q6NSI8	K1841_HUMAN	KIAA1841 protein isoform a	595											0			Epithelial(17;0.193)			AGACAACCAAAAAAGCAGGTA	0.378													18	67					0	0	0.012319	0	0		G	61343153	G	G	61343153	3	3	127	1	0	0	0	0	1	0	0	0	8277	14	1	3	1842	3	KIAA1841	2	61343153	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	4740084	61343153	181856220	135	69215											
USP34	9736	broad.mit.edu	37	chr2	61575028	61575028	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgtggtggtggtgatggtgGtggtggtggtggtgatgctg	2	14	23	2	1	0	2	0	2	0	0	1	2	0	2	0	9	1	1	0	9	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:61575028G>A	uc002sbe.2	-	15	2284	c.2262C>T	c.(2260-2262)CAC>CAT	p.H754H		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	754					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ggtgatggtggtggtggtggt	0.284													18	62					0	0	0.00333	0	0		A	61575028	A	A	61575028	2	1	127	1	0	0	0	0	0	0	0	1	17091	1252	44	4		4	USP34	2	61575028	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	231875	61575028	181624345	136	69216											
FAM161A	84140	broad.mit.edu	37	chr2	62067454	62067454	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgggcacccattcttttcGtttcttccttcttttttcag	3	21	6	11	1	4	0	1	0	3	0	6	0	5	0	2	1	0	2	2	1	0	9			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:62067454G>A	uc010ypo.1	-	3	787	c.685C>T	c.(685-687)CGA>TGA	p.R229*	FAM161A_uc002sbm.3_Nonsense_Mutation_p.R229*|FAM161A_uc002sbn.3_Nonsense_Mutation_p.R39*|FAM161A_uc010fcm.1_RNA|FAM161A_uc010fcn.1_Nonsense_Mutation_p.R120*	NM_032180	NP_115556	Q3B820	F161A_HUMAN	hypothetical protein LOC84140	229					response to stimulus|visual perception	centrosome		p.R229W(1)		large_intestine(2)|ovary(1)	3						CATTCTTTTCGTTTCTTCCTT	0.373													35	174					0	0	0.003271	0	0		A	62067454	A	A	62067454	4	1	127	1	0	0	0	0	0	1	0	0	5483	1153	40	1	1313	1	FAM161A	2	62067454	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	492426	62067454	181131919	137	69217											
GKN1	56287	broad.mit.edu	37	chr2	69204842	69204842	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtgtcaacaatgaacacaAtgtggccaatgttgacaata	16	9	9	7	0	1	2	1	2	0	0	1	3	1	2	1	1	2	1	1	1	7	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:69204842A>C	uc002sfc.2	+	3	245	c.182A>C	c.(181-183)AAT>ACT	p.N61T		NM_019617	NP_062563	Q9NS71	GKN1_HUMAN	18 kDa antrum mucosa protein precursor	61					digestion|positive regulation of cell division	extracellular region				breast(1)	1						AATGAACACAATGTGGCCAAT	0.398													18	65					0	0	0.006122	0	0		C	69204842	C	C	69204842	3	2	127	1	0	0	0	0	1	0	0	0	6439	101	4	5	192	5	GKN1	2	69204842	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	7137388	69204842	173994531	138	69218											
CYP26B1	56603	broad.mit.edu	37	chr2	72371250	72371250	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatcttgcgcacgttctcCgcgccggtcacgcgtatcag	6	9	12	14	7	4	0	2	0	2	0	5	1	4	1	2	2	1	3	2	2	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:72371250C>T	uc002sih.1	-	2	297	c.297G>A	c.(295-297)GCG>GCA	p.A99A	CYP26B1_uc010yra.1_Silent_p.A82A|CYP26B1_uc010yrb.1_Intron	NM_019885	NP_063938	Q9NR63	CP26B_HUMAN	cytochrome P450, family 26, subfamily b,	99					cell fate determination|embryonic limb morphogenesis|male meiosis|negative regulation of retinoic acid receptor signaling pathway|proximal/distal pattern formation|retinoic acid catabolic process|spermatogenesis|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			skin(2)	2						GCACGTTCTCCGCGCCGGTCA	0.632													10	66					0	0	0.00245	0	0		T	72371250	T	T	72371250	2	4	127	1	0	0	0	0	0	0	0	1	4159	639	23	1		1	CYP26B1	2	72371250	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3166408	72371250	170828123	139	69219											
ALMS1	7840	broad.mit.edu	37	chr2	73677405	73677405	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcctggtattttctaccaaCaggtcttgccagataatcat	11	13	7	10	0	3	1	1	0	2	1	3	1	3	1	3	2	4	1	3	2	4	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:73677405C>T	uc002sje.1	+	10	3865	c.3754C>T	c.(3754-3756)CAG>TAG	p.Q1252*	ALMS1_uc002sjf.1_Nonsense_Mutation_p.Q1208*|ALMS1_uc002sjg.2_Nonsense_Mutation_p.Q638*|ALMS1_uc002sjh.1_Nonsense_Mutation_p.Q638*	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1250	16.|34 X 47 AA approximate tandem repeat.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TTTCTACCAACAGGTCTTGCC	0.478													28	168					0	0	0.005443	0	0		T	73677405	T	T	73677405	4	4	127	1	0	0	0	0	0	1	0	0	535	479	17	4	3778	4	ALMS1	2	73677405	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1306155	73677405	169521968	140	69220											
ALMS1	7840	broad.mit.edu	37	chr2	73784458	73784458	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccaggctaaagaaaaagAatctttgcagaaagatactg	17	8	9	7	0	1	4	0	0	1	4	1	4	1	4	1	1	3	2	1	1	7	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:73784458A>G	uc002sje.1	+	16	10304	c.10193A>G	c.(10192-10194)GAA>GGA	p.E3398G	ALMS1_uc002sjf.1_Missense_Mutation_p.E3354G|ALMS1_uc002sjg.2_Missense_Mutation_p.E2784G|ALMS1_uc002sjh.1_Missense_Mutation_p.E2784G|ALMS1_uc010fev.1_Missense_Mutation_p.E156G	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3396					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AAAGAAAAAGAATCTTTGCAG	0.413													13	75					0	0	0.013537	0	0		G	73784458	G	G	73784458	3	3	127	1	0	0	0	0	1	0	0	0	535	246	9	3	10241	3	ALMS1	2	73784458	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	107053	73784458	169414915	141	69221											
HTRA2	27429	broad.mit.edu	37	chr2	74757166	74757166	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcggggcggggtgcaggCtggagccttcgggcatggcg	4	5	23	9	4	0	0	0	0	0	0	1	1	0	1	1	9	2	3	1	9	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:74757166C>T	uc002smi.1	+	1	635	c.33C>T	c.(31-33)GGC>GGT	p.G11G	AUP1_uc002sme.2_5'Flank|AUP1_uc002smf.2_5'Flank|AUP1_uc002smg.2_5'Flank|AUP1_uc002smh.2_5'Flank|AUP1_uc010yrx.1_5'Flank|AUP1_uc010yry.1_5'Flank|HTRA2_uc002smj.1_Silent_p.G11G|HTRA2_uc002smk.1_Silent_p.G11G|HTRA2_uc002sml.1_Silent_p.G11G|HTRA2_uc002smm.1_Intron|HTRA2_uc002smn.1_Intron|HTRA2_uc010ffl.2_5'Flank	NM_013247	NP_037379	O43464	HTRA2_HUMAN	HtrA serine peptidase 2 isoform 1 preproprotein	11					apoptosis|proteolysis|response to stress	CD40 receptor complex|endoplasmic reticulum membrane|internal side of plasma membrane|mitochondrial intermembrane space|mitochondrial membrane|nucleus	serine-type endopeptidase activity|unfolded protein binding			ovary(1)	1						GGGGTGCAGGCTGGAGCCTTC	0.716													13	23					0	0	0.003163	0	0		T	74757166	T	T	74757166	2	4	127	1	0	0	0	0	0	0	0	1	7470	784	28	2		2	HTRA2	2	74757166	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	972708	74757166	168442207	142	69222											
SUCLG1	8802	broad.mit.edu	37	chr2	84660507	84660507	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgccccaatccaacttgCgttgtttggtgaactgcttc	7	13	9	12	1	0	1	0	1	0	0	2	2	1	1	3	1	5	3	3	1	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:84660507C>T	uc002son.2	-	6	835	c.642G>A	c.(640-642)ACG>ACA	p.T214T	SUCLG1_uc010ysk.1_Silent_p.T201T	NM_003849	NP_003840	P53597	SUCA_HUMAN	succinate-CoA ligase, GDP-forming alpha subunit	214					tricarboxylic acid cycle		ATP citrate synthase activity|GTP binding|succinate-CoA ligase (GDP-forming) activity				0					Succinic acid(DB00139)	ATCCAACTTGCGTTGTTTGGT	0.378													10	40					0	0	0.008291	0	0		T	84660507	T	T	84660507	2	4	127	1	0	0	0	0	0	0	0	1	15389	755	27	1		1	SUCLG1	2	84660507	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	9903341	84660507	158538866	143	69223											
ST3GAL5	8869	broad.mit.edu	37	chr2	86075232	86075232	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaaagggagtaagtccacGctatacctgtgctcaaataa	16	8	8	9	1	1	0	1	0	0	0	2	1	2	1	2	1	2	3	2	1	7	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:86075232G>A	uc002sqq.1	-	4	543	c.414C>T	c.(412-414)AGC>AGT	p.S138S	ST3GAL5_uc010fgq.1_Silent_p.S10S|ST3GAL5_uc002sqp.1_Silent_p.S115S	NM_003896	NP_003887	Q9UNP4	SIAT9_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	138	Lumenal (Potential).				ganglioside biosynthetic process|protein glycosylation	integral to Golgi membrane|integral to plasma membrane	lactosylceramide alpha-2,3-sialyltransferase activity|neolactotetraosylceramide alpha-2,3-sialyltransferase activity				0						GTAAGTCCACGCTATACCTGT	0.488													107	497					0	0	0.01441	0	0		A	86075232	A	A	86075232	2	1	127	1	0	0	0	0	0	0	0	1	15243	1078	38	1		1	ST3GAL5	2	86075232	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1414725	86075232	157124141	144	69224											
SMYD1	150572	broad.mit.edu	37	chr2	88390622	88390622	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcctggtgaaccatgActgttggcccaactgtactg	7	10	12	12	0	0	2	0	2	0	0	0	2	0	2	4	3	3	2	4	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:88390622A>C	uc002ssr.2	+	4	622	c.620A>C	c.(619-621)GAC>GCC	p.D207A	SMYD1_uc002ssq.1_Intron|SMYD1_uc002sss.2_5'UTR	NM_198274	NP_938015	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	207	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						GTGAACCATGACTGTTGGCCC	0.512													42	159					0	0	0.00623	0	0		C	88390622	C	C	88390622	3	2	127	1	0	0	0	0	1	0	0	0	14846	275	10	5	634	5	SMYD1	2	88390622	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2315390	88390622	154808751	145	69225											
PDCL3	79031	broad.mit.edu	37	chr2	101192940	101192940	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcctcatgaagagggacagCgattccgagggtgactgagg	10	7	16	8	2	1	4	1	3	0	1	3	7	3	5	2	3	1	0	2	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:101192940C>T	uc002tao.2	+	6	814	c.702C>T	c.(700-702)AGC>AGT	p.S234S		NM_024065	NP_076970	Q9H2J4	PDCL3_HUMAN	phosducin-like 3	234					apoptosis|interspecies interaction between organisms	cytoplasm	protein binding				0						AGAGGGACAGCGATTCCGAGG	0.463													6	73					0	0	0.001984	0	0		T	101192940	T	T	101192940	2	4	127	1	0	0	0	0	0	0	0	1	11647	767	27	1		1	PDCL3	2	101192940	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	12802318	101192940	142006433	146	69226											
MAP4K4	9448	broad.mit.edu	37	chr2	102499030	102499030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggcaaaaaggataagttaCgtgtctactatttgtcctgg	12	13	10	6	1	1	0	0	0	1	0	2	1	2	1	1	3	2	2	1	3	7	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:102499030C>T	uc002tbg.2	+	25	3023	c.2968C>T	c.(2968-2970)CGT>TGT	p.R990C	MAP4K4_uc002tbc.2_Missense_Mutation_p.R1071C|MAP4K4_uc002tbd.2_Missense_Mutation_p.R963C|MAP4K4_uc002tbe.2_Missense_Mutation_p.R909C|MAP4K4_uc002tbf.2_Missense_Mutation_p.R1024C|MAP4K4_uc010yvy.1_Missense_Mutation_p.R986C|MAP4K4_uc002tbh.2_Missense_Mutation_p.R908C|MAP4K4_uc002tbi.2_Missense_Mutation_p.R793C|MAP4K4_uc010yvz.1_Missense_Mutation_p.R1030C|MAP4K4_uc002tbk.2_Missense_Mutation_p.R445C|MAP4K4_uc002tbl.2_Missense_Mutation_p.R176C	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	990	CNH.|Mediates interaction with RAP2A.				intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GGATAAGTTACGTGTCTACTA	0.338													12	57					0	0	0.013537	0	0		T	102499030	T	T	102499030	3	4	127	1	0	0	0	0	1	0	0	0	9280	536	19	1	3317	1	MAP4K4	2	102499030	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1306090	102499030	140700343	147	69227											
GPR45	11250	broad.mit.edu	37	chr2	105858406	105858406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggggtccacccagttgcccGcacccctcaggatctccttg	5	8	10	18	2	2	0	1	0	1	0	4	1	3	1	6	3	1	2	6	3	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:105858406G>A	uc002tco.1	+	1	207	c.91G>A	c.(91-93)GCA>ACA	p.A31T		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	31	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						CCAGTTGCCCGCACCCCTCAG	0.602													21	79					0	0	0.00333	0	0		A	105858406	A	A	105858406	3	1	127	1	0	0	0	0	1	0	0	0	6711	1087	38	1	93	1	GPR45	2	105858406	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3359376	105858406	137340967	148	69228											
GCC2	9648	broad.mit.edu	37	chr2	109088059	109088059	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagttatttgttaaaactcaGttgtatggttttcttaaaga	13	18	7	3	0	2	1	1	0	1	1	2	1	2	1	0	1	1	5	0	1	7	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:109088059G>A	uc002tec.2	+	6	2428	c.2274G>A	c.(2272-2274)CAG>CAA	p.Q758Q	GCC2_uc002ted.2_Silent_p.Q657Q	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	758	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						TTAAAACTCAGTTGTATGGTT	0.338													36	96					0	0	0.003755	0	0		A	109088059	A	A	109088059	2	1	127	1	0	0	0	0	0	0	0	1	6301	1020	36	4		4	GCC2	2	109088059	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3229653	109088059	134111314	149	69229											
ANKRD57	65124	broad.mit.edu	37	chr2	110373584	110373584	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggagggagtgggggaggaAcgacctgttaaaggccactc	11	5	18	7	1	0	0	0	0	0	0	1	6	0	4	2	6	1	1	2	6	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:110373584A>G	uc002tfb.2	+	1	1674	c.1518A>G	c.(1516-1518)GAA>GAG	p.E506E	SEPT10_uc010ywu.1_5'Flank|SEPT10_uc002tew.2_5'Flank|SEPT10_uc002tex.2_5'Flank|SEPT10_uc002tey.2_5'Flank|SEPT10_uc010ywv.1_5'Flank	NM_023016	NP_075392	Q53LP3	ANR57_HUMAN	ankyrin repeat domain 57	506											0						TGGGGGAGGAACGACCTGTTA	0.498													5	40					0	0	0.001984	0	0		G	110373584	G	G	110373584	2	3	127	1	0	0	0	0	0	0	0	1	683	40	2	3		3	ANKRD57	2	110373584	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1285525	110373584	132825789	150	69230											
ACOXL	55289	broad.mit.edu	37	chr2	111556607	111556607	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttagggccccactgtttcatCgttcctgtccgggatgaaaa	8	12	10	11	2	1	1	1	1	0	0	4	2	3	2	4	2	0	2	4	2	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:111556607C>T	uc002tgr.3	+	7	701	c.477C>T	c.(475-477)ATC>ATT	p.I159I	ACOXL_uc010fkc.2_Silent_p.I159I|ACOXL_uc010yxk.1_Silent_p.I159I	NM_001105516	NP_001098986	Q9NUZ1	ACOXL_HUMAN	acyl-Coenzyme A oxidase-like 2	159					fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0						ACTGTTTCATCGTTCCTGTCC	0.468													25	126					0	0	0.008361	0	0		T	111556607	T	T	111556607	2	4	127	1	0	0	0	0	0	0	0	1	161	874	31	1		1	ACOXL	2	111556607	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1183023	111556607	131642766	151	69231											
IL1F8	27177	broad.mit.edu	37	chr2	113788675	113788675	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctattaaagaatttccactcAggacccacaccatctgtcga	13	10	5	13	1	2	1	1	0	1	1	4	3	3	2	3	1	0	0	3	1	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:113788675A>G	uc002tiq.1	-	3	175	c.71T>C	c.(70-72)CTG>CCG	p.L24P	IL1F8_uc002tir.1_Missense_Mutation_p.L24P	NM_014438	NP_055253	Q9NZH7	IL36B_HUMAN	interleukin 1 family, member 8 isoform 1	24					immune response	extracellular space	cytokine activity|interleukin-1 receptor binding			ovary(1)	1						ATTTCCACTCAGGACCCACAC	0.468													14	68					0	0	0.00499	0	0		G	113788675	G	G	113788675	3	3	127	1	0	0	0	0	1	0	0	0	7672	188	7	3	656	3	IL1F8	2	113788675	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2232068	113788675	129410698	152	69232											
TFCP2L1	29842	broad.mit.edu	37	chr2	121992863	121992863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatctggaccaaatcatctCgggacatcttcagcaagtca	13	9	8	11	1	6	1	3	0	3	1	7	3	6	3	1	2	1	1	1	2	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:121992863C>T	uc002tmx.2	-	11	1121	c.1028G>A	c.(1027-1029)CGA>CAA	p.R343Q	TFCP2L1_uc010flr.2_Missense_Mutation_p.R343Q|TFCP2L1_uc010flq.2_5'Flank	NM_014553	NP_055368	Q9NZI6	TF2L1_HUMAN	LBP-9	343					female pregnancy|steroid biosynthetic process	mitochondrion|nucleolus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			pancreas(2)|ovary(1)	3	Renal(3;0.01)					CAAATCATCTCGGGACATCTT	0.557													9	48					0	0	0.008291	0	0		T	121992863	T	T	121992863	3	4	127	1	0	0	0	0	1	0	0	0	15821	884	31	1	431	1	TFCP2L1	2	121992863	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	8204188	121992863	121206510	153	69233											
GPR17	2840	broad.mit.edu	37	chr2	128408876	128408876	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgtaccgggagaaggcCtcccaccatgccctggtgtc	7	7	12	15	1	0	1	0	0	0	1	2	2	1	1	5	3	3	2	5	3	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:128408876C>A	uc010yzn.1	+	4	1262	c.651C>A	c.(649-651)GCC>GCA	p.A217A	LIMS2_uc002tox.2_Intron|LIMS2_uc010fmb.2_Intron|LIMS2_uc002toy.2_Intron|LIMS2_uc010yzm.1_Intron|LIMS2_uc002tpa.2_Intron|LIMS2_uc002toz.2_Intron|LIMS2_uc002tpb.2_Intron|GPR17_uc002tpc.2_Silent_p.A217A|GPR17_uc010yzo.1_Silent_p.A189A|GPR17_uc002tpd.2_Silent_p.A189A	NM_001161415	NP_001154887	Q13304	GPR17_HUMAN	G protein-coupled receptor 17 isoform a	217	Extracellular (Potential).					integral to plasma membrane	chemokine receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	Colorectal(110;0.1)	Ovarian(717;0.15)		BRCA - Breast invasive adenocarcinoma(221;0.0677)		GGGAGAAGGCCTCCCACCATG	0.667													32	100					4.14481e-20	4.66868e-20	0.00623	1	0		A	128408876	A	A	128408876	2	1	127	1	0	0	0	0	0	0	0	1	6682	668	24	5		5	GPR17	2	128408876	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	6416013	128408876	114790497	154	69234											
TUBA3D	113457	broad.mit.edu	37	chr2	132240222	132240222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcaacaccacggccattgCggaggcctgggcccgcctgg	7	4	15	15	3	0	0	0	0	0	0	0	2	0	1	5	5	3	1	5	5	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:132240222C>T	uc002tsu.3	+	5	1261	c.1154C>T	c.(1153-1155)GCG>GTG	p.A385V		NM_080386	NP_525125	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	385					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(221;0.13)		ACGGCCATTGCGGAGGCCTGG	0.632													21	102					0	0	0.008361	0	0		T	132240222	T	T	132240222	3	4	127	1	0	0	0	0	1	0	0	0	16773	768	27	1	1172	1	TUBA3D	2	132240222	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3831346	132240222	110959151	155	69235											
ZRANB3	84083	broad.mit.edu	37	chr2	136107605	136107605	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaagaagaatggctcgtctGgctttctgtactattggcaa	10	13	11	7	1	2	2	0	0	2	2	3	2	2	2	0	3	1	5	0	3	6	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:136107605G>A	uc002tum.2	-	5	657	c.540C>T	c.(538-540)GCC>GCT	p.A180A	ZRANB3_uc002tuk.2_5'UTR|ZRANB3_uc002tul.2_Silent_p.A180A|ZRANB3_uc002tun.1_Silent_p.A120A	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	180	Helicase ATP-binding.					intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		TGGCTCGTCTGGCTTTCTGTA	0.408													11	52					0	0	0.013537	0	0		A	136107605	A	A	136107605	2	1	127	1	0	0	0	0	0	0	0	1	18249	1335	47	4		4	ZRANB3	2	136107605	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3867383	136107605	107091768	156	69236											
GTDC1	79712	broad.mit.edu	37	chr2	144966324	144966324	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttatgggagcctccatagaAtgcttcaatgatgaggatac	12	12	10	7	0	1	3	1	2	0	1	2	5	2	5	2	2	3	1	2	2	5	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:144966324A>G	uc002tvp.2	-	4	304	c.25T>C	c.(25-27)TTC>CTC	p.F9L	GTDC1_uc002tvo.2_Missense_Mutation_p.F9L|GTDC1_uc002tvq.2_Missense_Mutation_p.F9L|GTDC1_uc002tvr.2_Missense_Mutation_p.F9L|GTDC1_uc010fnn.2_Missense_Mutation_p.F9L|GTDC1_uc002tvs.2_5'UTR|GTDC1_uc010fno.2_Intron|GTDC1_uc002tvt.1_Missense_Mutation_p.F9L	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	9					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		CCTCCATAGAATGCTTCAATG	0.378													18	78					0	0	0.00333	0	0		G	144966324	G	G	144966324	3	3	127	1	0	0	0	0	1	0	0	0	6867	101	4	3	1387	3	GTDC1	2	144966324	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	8858719	144966324	98233049	157	69237											
TNFAIP6	7130	broad.mit.edu	37	chr2	152220548	152220548	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgtgtgaatttgaaggCggccatctcgcaacttacaa	10	10	12	9	3	1	2	0	2	1	0	2	2	1	2	1	3	2	1	1	3	5	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:152220548C>T	uc002txk.2	+	2	262	c.186C>T	c.(184-186)GGC>GGT	p.G62G		NM_007115	NP_009046	P98066	TSG6_HUMAN	tumor necrosis factor, alpha-induced protein 6	62	Link.				cell adhesion|cell-cell signaling|inflammatory response|signal transduction		hyaluronic acid binding				0				BRCA - Breast invasive adenocarcinoma(221;0.131)		AATTTGAAGGCGGCCATCTCG	0.448													7	53					0	0	0.004482	0	0		T	152220548	T	T	152220548	2	4	127	1	0	0	0	0	0	0	0	1	16300	755	27	1		1	TNFAIP6	2	152220548	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7254224	152220548	90978825	158	69238											
FAP	2191	broad.mit.edu	37	chr2	163030235	163030235	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaatggaaacacttacctTatagtgctcaagattatcat	16	13	5	7	0	2	1	2	0	0	1	2	2	2	2	1	1	3	1	1	1	8	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:163030235T>C	uc002ucd.2	-	23	2240	c.2032A>G	c.(2032-2034)AAG>GAG	p.K678E	FAP_uc010fpc.2_Missense_Mutation_p.K227E|FAP_uc010zct.1_Missense_Mutation_p.K653E|FAP_uc010fpd.2_Missense_Mutation_p.K157E	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	678	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						ACACTTACCTTATAGTGCTCA	0.318													28	110					0	0	0.00632	0	0		C	163030235	C	C	163030235	3	2	127	1	0	0	0	0	1	0	0	0	5687	1763	61	3	266	3	FAP	2	163030235	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	10809687	163030235	80169138	159	69239											
IFIH1	64135	broad.mit.edu	37	chr2	163163274	163163274	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgagttattctccatgccCcagacctccttctccagatt	8	13	6	14	0	2	3	0	1	2	2	5	4	3	3	6	0	1	1	6	0	1	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:163163274C>A	uc002uce.2	-	3	936	c.714G>T	c.(712-714)TGG>TGT	p.W238C		NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	238					detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1						TCTCCATGCCCCAGACCTCCT	0.388													15	62					1.99824e-07	2.10208e-07	0.00499	1	0		A	163163274	A	A	163163274	3	1	127	1	0	0	0	0	1	0	0	0	7536	624	22	5	2419	5	IFIH1	2	163163274	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	133039	163163274	80036099	160	69240											
CSRNP3	80034	broad.mit.edu	37	chr2	166536038	166536038	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctcttccgaaaatgatagCggtgtgccctgcaatagttt	9	13	9	10	2	1	1	0	1	1	0	3	2	3	1	3	1	3	2	3	1	5	4	rs144711438		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:166536038C>T	uc002udf.2	+	7	1909	c.1533C>T	c.(1531-1533)AGC>AGT	p.S511S	CSRNP3_uc002udg.2_Silent_p.S511S	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	511					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						AAAATGATAGCGGTGTGCCCT	0.502													6	77					0	0	0.001168	0	0		T	166536038	T	T	166536038	2	4	127	1	0	0	0	0	0	0	0	1	3968	767	27	1		1	CSRNP3	2	166536038	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3372764	166536038	76663335	161	69241											
SCN1A	6323	broad.mit.edu	37	chr2	166859173	166859173	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccagcaaacaaatttacgcCcatgatgctgaaaattagcc	15	8	7	11	1	0	2	0	2	0	0	0	2	0	2	3	0	5	2	3	0	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:166859173C>A	uc010zcz.1	-	21	4078	c.4060G>T	c.(4060-4062)GGC>TGC	p.G1354C	SCN1A_uc002udo.3_Missense_Mutation_p.G1234C|SCN1A_uc010fpk.2_Missense_Mutation_p.G1206C	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1365	III.|Helical; Name=S5 of repeat III; (By similarity).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AAATTTACGCCCATGATGCTG	0.393													25	97					2.39556e-15	2.67285e-15	0.00278	1	0		A	166859173	A	A	166859173	3	1	127	1	0	0	0	0	1	0	0	0	13939	623	22	5	1960	5	SCN1A	2	166859173	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	323135	166859173	76340200	162	69242											
NOSTRIN	115677	broad.mit.edu	37	chr2	169707788	169707788	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttccccttggcattgcaGtgccacacgcagattcactg	7	11	9	14	1	1	1	1	0	0	1	2	1	2	1	3	1	2	4	3	1	0	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:169707788G>A	uc002ueg.2	+	10	734	c.730_splice	c.e10-1	p.C244_splice	NOSTRIN_uc002uef.2_Splice_Site_p.C301_splice|NOSTRIN_uc002uei.2_Splice_Site_p.C127_splice|NOSTRIN_uc010fpu.2_Splice_Site_p.C216_splice|NOSTRIN_uc002ueh.2_Splice_Site_p.C166_splice|NOSTRIN_uc002uej.2_Splice_Site_p.C127_splice	NM_001039724	NP_001034813	Q8IVI9	NOSTN_HUMAN	nitric oxide synthase trafficker isoform 2						endocytosis|nitric oxide metabolic process|regulation of nitric-oxide synthase activity	cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	protein binding				0						TGGCATTGCAGTGCCACACGC	0.428													13	82					0	0	0.013537	0	0		A	169707788	A	A	169707788	5	1	127	1	0	0	0	0	0	0	1	0	10565	1043	36	4	942	4	NOSTRIN	2	169707788	Splice_Site	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2848615	169707788	73491585	163	69243											
TLK1	9874	broad.mit.edu	37	chr2	171850351	171850351	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcagcccagccatgtgtAggtttcctgaagaatttgat	9	13	10	9	0	1	3	1	2	0	1	2	3	2	3	3	1	2	2	3	1	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:171850351A>G	uc002ugn.2	-	21	2712	c.2240T>C	c.(2239-2241)CTA>CCA	p.L747P	TLK1_uc002ugo.2_Missense_Mutation_p.L768P|TLK1_uc002ugp.2_Missense_Mutation_p.L699P|TLK1_uc010zdn.1_Missense_Mutation_p.L651P	NM_012290	NP_036422	Q9UKI8	TLK1_HUMAN	tousled-like kinase 1 isoform 1	747					cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						AGCCATGTGTAGGTTTCCTGA	0.433													39	141					0	0	0.010771	0	0		G	171850351	G	G	171850351	3	3	127	1	0	0	0	0	1	0	0	0	15968	420	15	3	64	3	TLK1	2	171850351	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2142563	171850351	71349022	164	69244											
KIAA1715	80856	broad.mit.edu	37	chr2	176857040	176857040	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gataccacaaatatacaattAagcatgtaaacagatagaga	21	8	6	6	0	0	2	0	0	0	2	0	4	0	2	1	0	4	2	1	0	9	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:176857040A>G	uc002ukc.1	-	4	369	c.176T>C	c.(175-177)TTA>TCA	p.L59S	KIAA1715_uc010zer.1_Missense_Mutation_p.L59S|KIAA1715_uc010fqw.1_Missense_Mutation_p.L125S|KIAA1715_uc010zes.1_Intron|KIAA1715_uc002ukd.1_Intron|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	59	Helical; (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			ATATACAATTAAGCATGTAAA	0.313													15	44					0	0	0.00245	0	0		G	176857040	G	G	176857040	3	3	127	1	0	0	0	0	1	0	0	0	8270	372	13	3	1150	3	KIAA1715	2	176857040	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5006689	176857040	66342333	165	69245											
EVX2	344191	broad.mit.edu	37	chr2	176947015	176947015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcgcgcgatctgctcgCgggtgaacgccgtacggtag	6	6	16	13	8	1	1	0	1	1	0	2	2	1	1	2	3	3	3	2	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:176947015C>T	uc010zeu.1	-	2	776	c.590G>A	c.(589-591)CGC>CAC	p.R197H		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	197	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		GATCTGCTCGCGGGTGAACGC	0.711													4	18					0	0	0.009096	0	0		T	176947015	T	T	176947015	3	4	127	1	0	0	0	0	1	0	0	0	5303	768	27	1	846	1	EVX2	2	176947015	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	89975	176947015	66252358	166	69246											
HOXD12	3238	broad.mit.edu	37	chr2	176964686	176964686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgcgctgccctgggccGccacgcccgcctcctgcgcc	1	4	14	22	7	0	0	0	0	0	0	1	0	1	0	7	2	2	1	7	2	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:176964686G>A	uc010zev.1	+	1	157	c.157G>A	c.(157-159)GCC>ACC	p.A53T	HOXD12_uc010zew.1_Missense_Mutation_p.A53T	NM_021193	NP_067016	P35452	HXD12_HUMAN	homeobox D12	53						nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0521)|READ - Rectum adenocarcinoma(9;0.0678)		GCCCTGGGCCGCCACGCCCGC	0.731													11	17					0	0	0.001855	0	0		A	176964686	A	A	176964686	3	1	127	1	0	0	0	0	1	0	0	0	7337	1087	38	1	159	1	HOXD12	2	176964686	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	17671	176964686	66234687	167	69247											
RBM45	129831	broad.mit.edu	37	chr2	178982857	178982857	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaaaggtttgggctacgtaCgatacttaaaaccatcacaa	15	10	8	8	2	1	0	1	0	0	0	1	1	1	0	1	2	4	4	1	2	8	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:178982857C>T	uc002ulv.2	+	3	591	c.499C>T	c.(499-501)CGA>TGA	p.R167*		NM_152945	NP_694453	Q8IUH3	RBM45_HUMAN	RNA binding motif protein 45	167	RRM 2.				cell differentiation|nervous system development	cytoplasm|nucleus	nucleotide binding|RNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.00957)|all cancers(119;0.037)			GGGCTACGTACGATACTTAAA	0.333													15	40					0	0	0.00245	0	0		T	178982857	T	T	178982857	4	4	127	1	0	0	0	0	0	1	0	0	13164	528	19	1	509	1	RBM45	2	178982857	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2018171	178982857	64216516	168	69248											
TTN	7273	broad.mit.edu	37	chr2	179408762	179408762	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggtcttccagatacagAcaccatcaagcgcaaggagg	13	6	12	10	1	2	2	1	0	1	2	3	3	3	3	2	4	2	1	2	4	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:179408762A>G	uc010zfg.1	-	295	88629	c.88405T>C	c.(88405-88407)TCT>CCT	p.S29469P	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S23164P|TTN_uc010zfi.1_Missense_Mutation_p.S23097P|TTN_uc010zfj.1_Missense_Mutation_p.S22972P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30396							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCAGATACAGACACCATCAAG	0.483													42	149					0	0	0.011902	0	0		G	179408762	G	G	179408762	3	3	127	1	0	0	0	0	1	0	0	0	16761	275	10	3	11938	3	TTN	2	179408762	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	425905	179408762	63790611	169	69249											
TTN	7273	broad.mit.edu	37	chr2	179414547	179414547	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccacagagtcatcttctcCccagtaatattggtgaatct	11	12	6	12	0	4	2	1	1	3	1	5	2	4	2	3	1	0	1	3	1	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:179414547C>A	uc010zfg.1	-	287	84422	c.84198G>T	c.(84196-84198)GGG>GGT	p.G28066G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G21761G|TTN_uc010zfi.1_Silent_p.G21694G|TTN_uc010zfj.1_Silent_p.G21569G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28993							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCATCTTCTCCCCAGTAATAT	0.423													35	108					2.38352e-08	2.52992e-08	0.004289	1	0		A	179414547	A	A	179414547	2	1	127	1	0	0	0	0	0	0	0	1	16761	610	22	5		5	TTN	2	179414547	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	5785	179414547	63784826	170	69250											
TTN	7273	broad.mit.edu	37	chr2	179422678	179422678	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaggaccaggcctgtctaGcacaacaatgttaatgaaag	14	8	11	8	0	1	1	0	1	1	0	1	3	1	3	2	3	2	2	2	3	5	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:179422678G>A	uc010zfg.1	-	277	79923	c.79699C>T	c.(79699-79701)CTA>TTA	p.L26567L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.L20262L|TTN_uc010zfi.1_Silent_p.L20195L|TTN_uc010zfj.1_Silent_p.L20070L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27494							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGCCTGTCTAGCACAACAATG	0.448													68	250					0	0	0.01441	0	0		A	179422678	A	A	179422678	2	1	127	1	0	0	0	0	0	0	0	1	16761	962	34	2		2	TTN	2	179422678	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	8131	179422678	63776695	171	69251											
TTN	7273	broad.mit.edu	37	chr2	179449206	179449206	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcaatcagataaccaataAtggggctccctccatcacta	13	10	6	12	0	3	1	3	0	0	1	5	1	5	1	3	2	1	2	3	2	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:179449206A>G	uc010zfg.1	-	260	57592	c.57368T>C	c.(57367-57369)ATT>ACT	p.I19123T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I12818T|TTN_uc010zfi.1_Missense_Mutation_p.I12751T|TTN_uc010zfj.1_Missense_Mutation_p.I12626T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20050							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATAACCAATAATGGGGCTCCC	0.453													21	69					0	0	0.010504	0	0		G	179449206	G	G	179449206	3	3	127	1	0	0	0	0	1	0	0	0	16761	101	4	3	43115	3	TTN	2	179449206	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	26528	179449206	63750167	172	69252											
TTN	7273	broad.mit.edu	37	chr2	179463686	179463686	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatttccagccagtacccTgtcacaggagagcctccatc	9	10	7	15	0	2	1	2	0	0	1	5	2	4	1	5	1	3	1	5	1	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:179463686T>C	uc010zfg.1	-	240	49271	c.49047A>G	c.(49045-49047)ACA>ACG	p.T16349T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.T10044T|TTN_uc010zfi.1_Silent_p.T9977T|TTN_uc010zfj.1_Silent_p.T9852T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17276							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCCAGTACCCTGTCACAGGAG	0.463													17	32					0	0	0.014323	0	0		C	179463686	C	C	179463686	2	2	127	1	0	0	0	0	0	0	0	1	16761	1567	55	3		3	TTN	2	179463686	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	14480	179463686	63735687	173	69253											
TTN	7273	broad.mit.edu	37	chr2	179579734	179579734	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgagagcgatggaaccaaCgcaagtgtcgcttcccacat	11	9	10	11	3	0	1	0	1	0	1	2	4	1	2	2	1	3	2	2	1	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:179579734C>G	uc010zfg.1	-	87	22671	c.22447G>C	c.(22447-22449)GTT>CTT	p.V7483L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.V4144L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8410							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGGAACCAACGCAAGTGTCG	0.478													29	151					0	0	0.007291	0	0		G	179579734	G	G	179579734	3	3	127	1	0	0	0	0	1	0	0	0	16761	536	19	5	78442	5	TTN	2	179579734	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	116048	179579734	63619639	174	69254											
TTN	7273	broad.mit.edu	37	chr2	179632855	179632855	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagtaccttaatgtccttaAtgtgtttcctaaattctata	11	17	4	9	0	1	0	0	0	1	0	3	0	3	0	4	0	1	2	4	0	7	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:179632855A>T	uc010zfg.1	-	39	9415	c.9191T>A	c.(9190-9192)ATT>AAT	p.I3064N	TTN_uc010zfh.1_Missense_Mutation_p.I3018N|TTN_uc010zfi.1_Missense_Mutation_p.I3018N|TTN_uc010zfj.1_Missense_Mutation_p.I3018N|TTN_uc002unb.2_Missense_Mutation_p.I3064N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3064							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATGTCCTTAATGTGTTTCCT	0.299													22	69					0	0	0.010504	0	0		T	179632855	T	T	179632855	3	4	127	1	0	0	0	0	1	0	0	0	16761	101	4	5	102093	5	TTN	2	179632855	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	53121	179632855	63566518	175	69255											
TTN	7273	broad.mit.edu	37	chr2	179641015	179641015	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttaccctgcagcggaacCttgcagtctccccttcaagt	7	11	8	15	1	2	0	1	0	1	0	3	1	2	1	4	1	5	3	4	1	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:179641015C>A	uc010zfg.1	-	28	5800	c.5576G>T	c.(5575-5577)AGG>ATG	p.R1859M	TTN_uc010zfh.1_Missense_Mutation_p.R1813M|TTN_uc010zfi.1_Missense_Mutation_p.R1813M|TTN_uc010zfj.1_Missense_Mutation_p.R1813M|TTN_uc002unb.2_Missense_Mutation_p.R1859M|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1859							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCAGCGGAACCTTGCAGTCTC	0.483													64	251					1.02487e-32	1.16928e-32	0.01441	1	0		A	179641015	A	A	179641015	3	1	127	1	0	0	0	0	1	0	0	0	16761	681	24	5	105752	5	TTN	2	179641015	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	8160	179641015	63558358	176	69256											
PDE1A	5136	broad.mit.edu	37	chr2	183387016	183387016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactcacattcctttcaggcGctgccacattttttcagtct	7	16	5	13	1	4	0	3	0	1	0	5	0	5	0	2	1	2	1	2	1	1	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:183387016G>A	uc002uos.2	-	2	172	c.88C>T	c.(88-90)CGC>TGC	p.R30C	PDE1A_uc010zfp.1_5'UTR|PDE1A_uc002uoq.1_Missense_Mutation_p.R30C|PDE1A_uc010zfq.1_Missense_Mutation_p.R30C|PDE1A_uc002uov.1_RNA	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	30	Calmodulin-binding (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			CCTTTCAGGCGCTGCCACATT	0.418													33	103					0	0	0.010818	0	0		A	183387016	A	A	183387016	3	1	127	1	0	0	0	0	1	0	0	0	11652	1087	38	1	1653	1	PDE1A	2	183387016	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3746001	183387016	59812357	177	69257											
ZNF804A	91752	broad.mit.edu	37	chr2	185802311	185802311	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgttggaaaaccaaaatgTcaagctgtagtcaggatcac	14	10	10	7	0	3	0	3	0	0	0	3	2	3	2	1	2	2	4	1	2	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:185802311T>A	uc002uph.2	+	4	2782	c.2188T>A	c.(2188-2190)TCA>ACA	p.S730T		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	730						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						AACCAAAATGTCAAGCTGTAG	0.328													12	53					0	0	0.010729	0	0		A	185802311	A	A	185802311	3	1	127	1	0	0	0	0	1	0	0	0	18195	1667	58	5	2202	5	ZNF804A	2	185802311	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2415295	185802311	57397062	178	69258											
CALCRL	10203	broad.mit.edu	37	chr2	188225351	188225351	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagaaaataataccacattAaatgttgcttctctgcaaac	17	11	4	9	0	1	1	0	0	1	1	2	1	1	1	1	0	4	3	1	0	8	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:188225351A>G	uc002upv.3	-	10	1303	c.755T>C	c.(754-756)TTA>TCA	p.L252S	CALCRL_uc010frt.2_Missense_Mutation_p.L252S	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	252	Cytoplasmic (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			ATACCACATTAAATGTTGCTT	0.403													12	75					0	0	0.001855	0	0		G	188225351	G	G	188225351	3	3	127	1	0	0	0	0	1	0	0	0	2583	372	13	3	654	3	CALCRL	2	188225351	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2423040	188225351	54974022	179	69259											
ANKAR	150709	broad.mit.edu	37	chr2	190554311	190554311	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctatgatgaagacgtgaaTgaagatccaacatatgatcc	16	10	8	7	1	1	7	0	5	1	2	3	7	3	7	2	0	1	0	2	0	6	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:190554311T>C	uc002uqw.1	+	2	447	c.447T>C	c.(445-447)AAT>AAC	p.N149N	ANKAR_uc002uqu.2_RNA|ANKAR_uc002uqv.1_Silent_p.N220N	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	220						integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			AAGACGTGAATGAAGATCCAA	0.308													37	119					0	0	0.006999	0	0		C	190554311	C	C	190554311	2	2	127	1	0	0	0	0	0	0	0	1	623	1461	51	3		3	ANKAR	2	190554311	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2328960	190554311	52645062	180	69260											
PMS1	5378	broad.mit.edu	37	chr2	190732552	190732552	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggatctcattatttagaCgttttatataaaatgacagc	15	15	6	5	1	1	2	1	1	1	1	2	3	1	3	0	1	1	1	0	1	7	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:190732552C>T	uc002urh.3	+	11	2899	c.2370C>T	c.(2368-2370)GAC>GAT	p.D790D	PMS1_uc002urk.3_Silent_p.D751D|PMS1_uc002uri.3_Silent_p.D628D|PMS1_uc010zgc.1_Silent_p.D614D|PMS1_uc010zgd.1_Silent_p.D614D|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Intron|PMS1_uc010frz.2_Intron|PMS1_uc002url.2_Silent_p.D413D|PMS1_uc002urm.2_RNA	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	790					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			ATTATTTAGACGTTTTATATA	0.328			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					11	61					0	0	0.008291	0	0		T	190732552	T	T	190732552	2	4	127	1	0	0	0	0	0	0	0	1	12161	535	19	1		1	PMS1	2	190732552	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	178241	190732552	52466821	181	69261											
MYO1B	4430	broad.mit.edu	37	chr2	192265122	192265122	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaggctcgaaaaattctGcgggaactgaagcatcaaaa	15	9	9	8	2	2	1	1	1	1	0	3	3	2	2	0	2	3	2	0	2	7	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:192265122G>A	uc010fsg.2	+	22	2565	c.2310G>A	c.(2308-2310)CTG>CTA	p.L770L	MYO1B_uc002usq.2_Silent_p.L770L|MYO1B_uc002usr.2_Silent_p.L770L|MYO1B_uc002usu.2_Silent_p.L44L|MYO1B_uc002usv.2_5'Flank	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	770	IQ 3.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			GAAAAATTCTGCGGGAACTGA	0.458													18	120					0	0	0.014323	0	0		A	192265122	A	A	192265122	2	1	127	1	0	0	0	0	0	0	0	1	10087	1306	46	2		2	MYO1B	2	192265122	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1532570	192265122	50934251	182	69262											
DNAH7	56171	broad.mit.edu	37	chr2	196664111	196664111	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacagcagttactgtctccaAatgccttggctaaatcaaag	13	10	7	11	0	2	0	1	0	1	0	3	0	2	0	2	1	3	3	2	1	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:196664111A>G	uc002utj.3	-	55	10363	c.10262T>C	c.(10261-10263)TTT>TCT	p.F3421S		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3421	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						ACTGTCTCCAAATGCCTTGGC	0.453													22	98					0	0	0.014323	0	0		G	196664111	G	G	196664111	3	3	127	1	0	0	0	0	1	0	0	0	4612	14	1	3	1856	3	DNAH7	2	196664111	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	4398989	196664111	46535262	183	69263											
HECW2	57520	broad.mit.edu	37	chr2	197172692	197172692	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctccatttgctgtatggagTtagatctctgcagcacctgc	7	13	10	11	0	1	1	0	0	1	1	3	2	2	2	2	1	4	6	2	1	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:197172692T>G	uc002utm.1	-	11	2735	c.2552A>C	c.(2551-2553)AAC>ACC	p.N851T	HECW2_uc002utl.1_Missense_Mutation_p.N495T	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	851	Interaction with TP73.|Potential.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						CTGTATGGAGTTAGATCTCTG	0.527													23	62					0	0	0.00278	0	0		G	197172692	G	G	197172692	3	3	127	1	0	0	0	0	1	0	0	0	7059	1725	60	5	2242	5	HECW2	2	197172692	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	508581	197172692	46026681	184	69264											
GTF3C3	9330	broad.mit.edu	37	chr2	197664327	197664327	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcgatgagttccggactgaaCcctgacatgtttacagggtc	9	11	11	10	2	0	3	0	3	0	0	3	5	1	4	2	2	2	2	2	2	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:197664327C>T	uc002uts.2	-	1	99	c.9G>A	c.(7-9)GGG>GGA	p.G3G	GTF3C3_uc010zgu.1_Silent_p.G3G|GTF3C3_uc002utu.2_Silent_p.G3G	NM_012086	NP_036218	Q9Y5Q9	TF3C3_HUMAN	general transcription factor IIIC, polypeptide	3						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(3)|breast(3)|pancreas(1)	7						CCGGACTGAACCCTGACATGT	0.557													31	85					0	0	0.010818	0	0		T	197664327	T	T	197664327	2	4	127	1	0	0	0	0	0	0	0	1	6890	494	18	4		4	GTF3C3	2	197664327	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	491635	197664327	45535046	185	69265											
C2orf69	205327	broad.mit.edu	37	chr2	200789806	200789806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attaccatgaaattatgactCgtcatcctgagaattatcaa	15	13	5	8	1	2	3	2	3	0	1	4	4	3	3	2	0	1	0	2	0	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:200789806C>T	uc010zhb.1	+	2	538	c.355C>T	c.(355-357)CGT>TGT	p.R119C		NM_153689	NP_710156	Q8N8R5	CB069_HUMAN	hypothetical protein LOC205327 precursor	119						extracellular region				central_nervous_system(1)	1						AATTATGACTCGTCATCCTGA	0.308													4	24					0	0	0.000602	0	0		T	200789806	T	T	200789806	3	4	127	1	0	0	0	0	1	0	0	0	2191	884	31	1	361	1	C2orf69	2	200789806	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3125479	200789806	42409567	186	69266											
TRAK2	66008	broad.mit.edu	37	chr2	202257733	202257733	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggattcatgtaacattcCtagacactccatattcctgt	10	15	6	10	0	1	1	1	0	0	1	4	2	4	2	3	1	1	1	3	1	3	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:202257733C>A	uc002uyb.3	-	10	1458	c.1012G>T	c.(1012-1014)GGA>TGA	p.G338*		NM_015049	NP_055864	O60296	TRAK2_HUMAN	trafficking protein, kinesin binding 2	338	Potential.			Missing (in Ref. 2).		early endosome|plasma membrane	GABA receptor binding				0						TGTAACATTCCTAGACACTCC	0.403													7	50					0.00198382	0.0020209	0.001984	1	0		A	202257733	A	A	202257733	4	1	127	1	0	0	0	0	0	1	0	0	16476	690	24	5	1760	5	TRAK2	2	202257733	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1467927	202257733	40941640	187	69267											
BMPR2	659	broad.mit.edu	37	chr2	203329559	203329559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatcaagaacggctatgtgCgtttaaagatccgtatcagc	13	10	10	8	3	2	2	2	0	0	2	3	3	3	2	1	1	3	3	1	1	7	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:203329559C>T	uc002uzf.3	+	2	1252	c.104C>T	c.(103-105)GCG>GTG	p.A35V	BMPR2_uc010ftr.2_Missense_Mutation_p.A35V|BMPR2_uc002uze.2_Missense_Mutation_p.A35V	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	35	Extracellular (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						CGGCTATGTGCGTTTAAAGAT	0.333													16	124					0	0	0.007413	0	0		T	203329559	T	T	203329559	3	4	127	1	0	0	0	0	1	0	0	0	1472	768	27	1	110	1	BMPR2	2	203329559	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1071826	203329559	39869814	188	69268											
PARD3B	117583	broad.mit.edu	37	chr2	205989106	205989106	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcttccatacatggtccCggtcccatttttgtaaaaaa	11	13	6	11	1	1	0	0	0	1	0	4	1	4	0	3	2	1	1	3	2	4	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:205989106C>T	uc002var.1	+	9	1428	c.1221C>T	c.(1219-1221)CCC>CCT	p.P407P	PARD3B_uc010fub.1_Silent_p.P407P|PARD3B_uc002vao.1_Silent_p.P407P|PARD3B_uc002vap.1_Silent_p.P407P|PARD3B_uc002vaq.1_Silent_p.P407P	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	407	PDZ 2.				cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		TACATGGTCCCGGTCCCATTT	0.413													60	245					0	0	0.01441	0	0		T	205989106	T	T	205989106	2	4	127	1	0	0	0	0	0	0	0	1	11463	639	23	1		1	PARD3B	2	205989106	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2659547	205989106	37210267	189	69269											
NDUFS1	4719	broad.mit.edu	37	chr2	207008772	207008772	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acgcgagagagcgcatcctcCcaagaagtataggttaaaag	15	6	11	9	3	0	2	0	0	0	2	2	4	2	2	2	1	1	3	2	1	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:207008772C>A	uc002vbe.2	-	10	1084	c.957G>T	c.(955-957)TGG>TGT	p.W319C	NDUFS1_uc010ziq.1_Missense_Mutation_p.W333C|NDUFS1_uc010zir.1_Missense_Mutation_p.W283C|NDUFS1_uc010zis.1_Missense_Mutation_p.W262C|NDUFS1_uc010zit.1_Missense_Mutation_p.W208C|NDUFS1_uc010ziu.1_Missense_Mutation_p.W203C	NM_005006	NP_004997	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1,	319					apoptosis|ATP metabolic process|mitochondrial electron transport, NADH to ubiquinone|reactive oxygen species metabolic process|regulation of mitochondrial membrane potential|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	GCGCATCCTCCCAAGAAGTAT	0.383													22	88					2.21704e-12	2.43908e-12	0.00278	1	0		A	207008772	A	A	207008772	3	1	127	1	0	0	0	0	1	0	0	0	10310	624	22	5	1266	5	NDUFS1	2	207008772	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1019666	207008772	36190601	190	69270											
LANCL1	10314	broad.mit.edu	37	chr2	211305366	211305366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaggccatgagcagcccCtacataatattcctggtacc	11	8	8	14	0	0	1	0	1	0	0	1	1	1	1	6	2	5	2	6	2	4	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:211305366C>T	uc010zjh.1	-	6	721	c.646G>A	c.(646-648)GGG>AGG	p.G216R	LANCL1_uc002ved.2_Missense_Mutation_p.G216R|LANCL1_uc010fuq.2_Missense_Mutation_p.G216R	NM_001136574	NP_001130046	O43813	LANC1_HUMAN	lanthionine synthetase C-like protein 1	216						cytoplasm|integral to plasma membrane|microtubule cytoskeleton|nucleus	catalytic activity|G-protein coupled receptor activity|glutathione binding|low-density lipoprotein particle receptor binding|SH3 domain binding|zinc ion binding				0				Epithelial(149;0.00562)|Lung(261;0.0468)|LUSC - Lung squamous cell carcinoma(261;0.0495)|all cancers(144;0.0569)		TGAGCAGCCCCTACATAATAT	0.408													12	43					0	0	0.00245	0	0		T	211305366	T	T	211305366	3	4	127	1	0	0	0	0	1	0	0	0	8636	681	24	4	573	4	LANCL1	2	211305366	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4296594	211305366	31894007	191	69271											
SPAG16	79582	broad.mit.edu	37	chr2	214204980	214204980	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggaaaaaaacaaattaatTaatgacctcaaagggtaagc	21	7	7	6	0	1	1	1	1	0	0	1	2	1	2	1	2	2	1	1	2	8	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:214204980T>C	uc002veq.2	+	6	722	c.630T>C	c.(628-630)ATT>ATC	p.I210I	SPAG16_uc010fuz.1_Silent_p.I61I|SPAG16_uc002ver.2_Silent_p.I156I|SPAG16_uc010zjk.1_Silent_p.I116I|SPAG16_uc002vep.1_Intron|SPAG16_uc002ves.1_Silent_p.I179I	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	210	Potential.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		ACAAATTAATTAATGACCTCA	0.289													7	34					0	0	0.004482	0	0		C	214204980	C	C	214204980	2	2	127	1	0	0	0	0	0	0	0	1	15003	1742	61	3		3	SPAG16	2	214204980	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2899614	214204980	28994393	192	69272											
IGFBP2	3485	broad.mit.edu	37	chr2	217528681	217528681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgcaagatgtctctgaacGggcagcgtggggagtgctgg	8	8	18	7	2	1	2	0	1	1	1	2	3	1	3	0	4	4	3	0	4	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:217528681G>A	uc010zjt.1	+	6	961	c.811G>A	c.(811-813)GGG>AGG	p.G271R	IGFBP2_uc010zju.1_3'UTR	NM_000597	NP_000588	P18065	IBP2_HUMAN	insulin-like growth factor binding protein 2,	278	Thyroglobulin type-1.				positive regulation of activated T cell proliferation|regulation of cell growth|regulation of insulin-like growth factor receptor signaling pathway	extracellular space	insulin-like growth factor I binding|insulin-like growth factor II binding				0		Renal(323;0.0458)		Epithelial(149;2.9e-06)|all cancers(144;0.000223)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00968)		GTCTCTGAACGGGCAGCGTGG	0.617													6	31					0	0	0.00308	0	0		A	217528681	A	A	217528681	3	1	127	1	0	0	0	0	1	0	0	0	7595	1116	39	1	846	1	IGFBP2	2	217528681	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3323701	217528681	25670692	193	69273											
RUFY4	285180	broad.mit.edu	37	chr2	218940176	218940176	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaggtcacaggggttctgCtggttgcagagggtcagaga	8	9	17	7	0	3	3	2	1	1	2	3	4	3	3	0	5	2	4	0	5	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:218940176C>T	uc002vgw.2	+	10	2286	c.442C>T	c.(442-444)CTG>TTG	p.L148L	RUFY4_uc002vgy.1_RNA|RUFY4_uc010fvl.1_Silent_p.L148L	NM_198483	NP_940885	Q6ZNE9	RUFY4_HUMAN	RUN and FYVE domain containing 4	321							metal ion binding			pancreas(1)	1		Renal(207;0.0915)		Epithelial(149;4.11e-06)|all cancers(144;0.000519)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		AGGGGTTCTGCTGGTTGCAGA	0.602													4	27					0	0	0.009096	0	0		T	218940176	T	T	218940176	2	4	127	1	0	0	0	0	0	0	0	1	13766	796	28	2		2	RUFY4	2	218940176	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1411495	218940176	24259197	194	69274											
CTDSP1	58190	broad.mit.edu	37	chr2	219268006	219268006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggggggccttccgggccCggctgtttcgagagtcctgc	4	9	16	12	3	0	1	0	0	0	1	3	2	2	1	4	5	1	2	4	5	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:219268006C>T	uc002vhy.2	+	6	859	c.523C>T	c.(523-525)CGG>TGG	p.R175W	CTDSP1_uc002vhx.2_Missense_Mutation_p.R174W|CTDSP1_uc002vhz.2_Missense_Mutation_p.R34W	NM_021198	NP_067021	Q9GZU7	CTDS1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	175	FCP1 homology.				protein dephosphorylation|regulation of transcription from RNA polymerase II promoter	nucleus	CTD phosphatase activity|metal ion binding|protein binding			ovary(1)	1		Renal(207;0.0915)		Epithelial(149;9.96e-07)|all cancers(144;0.00017)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTTCCGGGCCCGGCTGTTTCG	0.642													14	49					0	0	0.003163	0	0		T	219268006	T	T	219268006	3	4	127	1	0	0	0	0	1	0	0	0	4006	643	23	1	545	1	CTDSP1	2	219268006	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	327830	219268006	23931367	195	69275											
ZNF142	7701	broad.mit.edu	37	chr2	219508772	219508772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcactaccatctgcacccGcccctctagcaccaatgcct	9	8	5	19	1	3	0	1	0	2	0	3	1	3	0	6	0	4	2	6	0	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:219508772G>A	uc002vin.2	-	8	2903	c.2467C>T	c.(2467-2469)CGG>TGG	p.R823W	ZNF142_uc002vil.2_Missense_Mutation_p.R784W|ZNF142_uc010fvt.2_Missense_Mutation_p.R660W|ZNF142_uc002vim.2_Missense_Mutation_p.R660W	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	823					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		ATCTGCACCCGCCCCTCTAGC	0.577													65	219					0	0	0.01441	0	0		A	219508772	A	A	219508772	3	1	127	1	0	0	0	0	1	0	0	0	17756	1086	38	1	2608	1	ZNF142	2	219508772	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	240766	219508772	23690601	196	69276											
RNF25	64320	broad.mit.edu	37	chr2	219529239	219529239	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacatctacagctgactcaGgttccgcaggggcaggaggc	10	6	14	11	1	2	2	1	1	1	1	3	3	3	3	1	5	2	4	1	5	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:219529239G>T	uc002vit.2	-	10	909	c.821C>A	c.(820-822)CCT>CAT	p.P274H	RNF25_uc010fvw.2_Missense_Mutation_p.P162H	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	274					positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGCTGACTCAGGTTCCGCAGG	0.552													19	71					1.96292e-10	2.12163e-10	0.010504	1	0		T	219529239	T	T	219529239	3	4	127	1	0	0	0	0	1	0	0	0	13510	1000	35	5	562	5	RNF25	2	219529239	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	20467	219529239	23670134	197	69277											
SPEG	10290	broad.mit.edu	37	chr2	220348728	220348728	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccagccctgcacggccCagcgcccccaaacccagtac	9	3	7	22	2	0	0	0	0	0	0	1	0	1	0	7	1	5	2	7	1	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:220348728C>T	uc010fwg.2	+	30	6543	c.6543C>T	c.(6541-6543)CCC>CCT	p.P2181P		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2181	Pro-rich.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CTGCACGGCCCAGCGCCCCCA	0.657													9	56					0	0	0.006214	0	0		T	220348728	T	T	220348728	2	4	127	1	0	0	0	0	0	0	0	1	15061	581	21	4		4	SPEG	2	220348728	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	819489	220348728	22850645	198	69278											
PAX3	5077	broad.mit.edu	37	chr2	223158932	223158932	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgtttggccttcttctcGctttcctctgcctccttcct	0	19	6	16	1	3	0	0	0	3	0	7	0	6	0	5	1	1	2	5	1	0	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:223158932G>A	uc010fwo.2	-	4	906	c.540C>T	c.(538-540)AGC>AGT	p.S180S	PAX3_uc002vmt.1_Silent_p.S180S|PAX3_uc002vmy.1_Silent_p.S179S|PAX3_uc002vmv.1_Silent_p.S180S|PAX3_uc002vmw.1_Silent_p.S180S|PAX3_uc002vmx.1_Silent_p.S180S|PAX3_uc002vmz.1_Silent_p.S180S|PAX3_uc002vna.1_Silent_p.S180S	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	180					apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCTTCTTCTCGCTTTCCTCTG	0.607			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						31	125					0	0	0.008361	0	0		A	223158932	A	A	223158932	2	1	127	1	0	0	0	0	0	0	0	1	11499	1078	38	1		1	PAX3	2	223158932	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2810204	223158932	20040441	199	69279											
TRIP12	9320	broad.mit.edu	37	chr2	230638845	230638845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaaattgtggatagtgaCtggtatatccttccctcctt	8	16	7	10	0	1	1	0	1	1	0	4	2	4	2	3	2	0	1	3	2	5	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:230638845C>T	uc002vpw.1	-	37	5546	c.5437G>A	c.(5437-5439)GTC>ATC	p.V1813I	TRIP12_uc002vpx.1_Missense_Mutation_p.V1861I|TRIP12_uc002vpy.1_Missense_Mutation_p.V1543I	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1813					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		TGGATAGTGACTGGTATATCC	0.453													23	113					0	0	0.00333	0	0		T	230638845	T	T	230638845	3	4	127	1	0	0	0	0	1	0	0	0	16582	565	20	4	561	4	TRIP12	2	230638845	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7479913	230638845	12560528	200	69280											
ECEL1	9427	broad.mit.edu	37	chr2	233350722	233350722	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggacgctcctccgcgccGcccaggtcccagcccccgca	4	3	10	24	6	0	0	0	0	0	0	3	1	3	1	8	2	1	2	8	2	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:233350722G>A	uc002vsv.2	-	2	847	c.642C>T	c.(640-642)GGC>GGT	p.G214G	ECEL1_uc010fya.1_Silent_p.G214G|ECEL1_uc010fyb.1_5'UTR	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	214	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		CCTCCGCGCCGCCCAGGTCCC	0.711													4	9					0	0	0.000602	0	0		A	233350722	A	A	233350722	2	1	127	1	0	0	0	0	0	0	0	1	4897	1074	38	1		1	ECEL1	2	233350722	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2711877	233350722	9848651	201	69281											
MSL3L2	151507	broad.mit.edu	37	chr2	234774827	234774827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaatgcacctcagaggcagCgacgtaagctgactctggga	11	7	13	10	2	2	2	1	1	1	1	2	4	2	3	1	2	3	5	1	2	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:234774827C>T	uc010znf.1	-	2	1253	c.1015G>A	c.(1015-1017)GCT>ACT	p.A339T		NR_024322				SubName: Full=cDNA FLJ52683, highly similar to Male-specific lethal 3-like 1; SubName: Full=cDNA, FLJ79271, highly similar to Male-specific lethal 3-like 1; SubName: Full=HCG1642047;												0						TCAGAGGCAGCGACGTAAGCT	0.458													20	72					0	0	0.010504	0	0		T	234774827	T	T	234774827	3	4	127	1	0	0	0	0	1	0	0	0	9898	768	27	1	59	1	MSL3L2	2	234774827	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1424105	234774827	8424546	202	69282											
AGAP1	116987	broad.mit.edu	37	chr2	236957834	236957834	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggccagtcgagctcatcAaggtgatgtcatccatcggg	9	9	12	11	2	3	1	3	1	0	0	6	2	4	1	2	3	1	1	2	3	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:236957834A>G	uc002vvs.2	+	16	2618	c.2023A>G	c.(2023-2025)AAG>GAG	p.K675E	AGAP1_uc002vvt.2_Missense_Mutation_p.K622E	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	675	Arf-GAP.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						CGAGCTCATCAAGGTGATGTC	0.572													23	71					0	0	0.004656	0	0		G	236957834	G	G	236957834	3	3	127	1	0	0	0	0	1	0	0	0	366	131	5	3	2085	3	AGAP1	2	236957834	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2183007	236957834	6241539	203	69283											
UBE2F	140739	broad.mit.edu	37	chr2	238944574	238944574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgcagaacatcatttgcGggacaaggtgagccagtaac	13	7	12	9	1	1	2	1	1	0	1	1	3	1	3	1	2	6	3	1	2	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:238944574G>A	uc002vxk.2	+	9	591	c.500G>A	c.(499-501)CGG>CAG	p.R167Q	UBE2F_uc010znn.1_Missense_Mutation_p.R135Q|UBE2F_uc002vxl.2_RNA|UBE2F_uc010zno.1_RNA|UBE2F_uc010znp.1_3'UTR|SCLY_uc002vxm.3_5'UTR	NM_080678	NP_542409	Q969M7	UBE2F_HUMAN	NEDD8-conjugating enzyme	167					protein neddylation		ATP binding|NEDD8 ligase activity|protein binding				0		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;6.7e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|Kidney(56;3.53e-09)|KIRC - Kidney renal clear cell carcinoma(57;9.79e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000136)|Lung(119;0.0126)|LUSC - Lung squamous cell carcinoma(224;0.0301)		CATCATTTGCGGGACAAGGTG	0.368													6	34					0	0	0.001168	0	0		A	238944574	A	A	238944574	3	1	127	1	0	0	0	0	1	0	0	0	16881	1116	39	1	530	1	UBE2F	2	238944574	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1986740	238944574	4254799	204	69284											
GPC1	2817	broad.mit.edu	37	chr2	241401875	241401875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcaagcaggccgaggCgctgcggcccttcggggagg	5	4	19	13	4	0	0	0	0	0	0	1	2	0	1	3	7	2	3	3	7	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:241401875C>T	uc002vyw.3	+	3	814	c.593C>T	c.(592-594)GCG>GTG	p.A198V		NM_002081	NP_002072	P35052	GPC1_HUMAN	glypican 1 precursor	198					axon guidance	anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			breast(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;4.51e-33)|all cancers(36;1.74e-30)|OV - Ovarian serous cystadenocarcinoma(60;4.73e-15)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;9.1e-06)|Colorectal(34;0.000487)|Lung(119;0.0013)|LUSC - Lung squamous cell carcinoma(224;0.0154)|COAD - Colon adenocarcinoma(134;0.0194)|READ - Rectum adenocarcinoma(96;0.0949)		CAGGCCGAGGCGCTGCGGCCC	0.711													4	11					0	0	0.009096	0	0		T	241401875	T	T	241401875	3	4	127	1	0	0	0	0	1	0	0	0	6612	768	27	1	603	1	GPC1	2	241401875	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2457301	241401875	1797498	205	69285											
KIF1A	547	broad.mit.edu	37	chr2	241679772	241679772	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacggtggtccaccacggcCgggatgtaactggaagagag	10	5	15	11	3	0	1	0	0	0	1	1	4	1	3	4	5	1	1	4	5	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:241679772C>T	uc002vzy.2	-	34	3602	c.3456G>A	c.(3454-3456)CCG>CCA	p.P1152P	KIF1A_uc010fzk.2_Silent_p.P1253P|KIF1A_uc002vzz.1_Silent_p.P1253P	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	1152					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		CCACCACGGCCGGGATGTAAC	0.652													7	44					0	0	0.008291	0	0		T	241679772	T	T	241679772	2	4	127	1	0	0	0	0	0	0	0	1	8299	639	23	1		1	KIF1A	2	241679772	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	277897	241679772	1519601	206	69286											
PPP1R7	5510	broad.mit.edu	37	chr2	242105795	242105795	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtctgcagaacctggtgaAcctgcgggagctgtacctta	8	9	14	10	1	1	2	0	1	1	1	1	3	1	3	3	3	6	3	3	3	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:242105795A>G	uc002wat.1	+	8	773	c.758A>G	c.(757-759)AAC>AGC	p.N253S	PPP1R7_uc010fzm.1_Missense_Mutation_p.N237S|PPP1R7_uc002war.2_Missense_Mutation_p.N247S|PPP1R7_uc002was.2_Missense_Mutation_p.N253S|PPP1R7_uc002wau.1_Missense_Mutation_p.N210S|PPP1R7_uc002wav.1_Missense_Mutation_p.N179S	NM_002712	NP_002703	Q15435	PP1R7_HUMAN	protein phosphatase 1, regulatory subunit 7	253	LRR 9.					cytoplasm|nucleus	protein binding|protein phosphatase type 1 regulator activity			ovary(3)	3		all_cancers(19;6.1e-33)|all_epithelial(40;1.07e-13)|Breast(86;0.000141)|Renal(207;0.00528)|all_lung(227;0.0446)|Ovarian(221;0.104)|Lung NSC(271;0.115)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.92e-32)|all cancers(36;5.35e-29)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-14)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.24e-08)|BRCA - Breast invasive adenocarcinoma(100;3.56e-06)|Lung(119;0.000588)|LUSC - Lung squamous cell carcinoma(224;0.0048)|Colorectal(34;0.0137)|COAD - Colon adenocarcinoma(134;0.096)		AACCTGGTGAACCTGCGGGAG	0.552													9	18					0	0	0.006214	0	0		G	242105795	G	G	242105795	3	3	127	1	0	0	0	0	1	0	0	0	12398	43	2	3	788	3	PPP1R7	2	242105795	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	426023	242105795	1093578	207	69287											
HDLBP	3069	broad.mit.edu	37	chr2	242179413	242179413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggtccttgtcctcagccGcagggaagatgacacgtgct	7	9	12	13	2	1	2	1	1	0	1	3	3	3	3	4	2	2	2	4	2	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:242179413G>A	uc002waz.2	-	18	2522	c.2294C>T	c.(2293-2295)GCG>GTG	p.A765V	HDLBP_uc002wba.2_Missense_Mutation_p.A765V|HDLBP_uc002wbb.2_Missense_Mutation_p.A717V	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	765	KH 9.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		GTCCTCAGCCGCAGGGAAGAT	0.577													17	93					0	0	0.00499	0	0		A	242179413	A	A	242179413	3	1	127	1	0	0	0	0	1	0	0	0	7041	1087	38	1	1556	1	HDLBP	2	242179413	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	73618	242179413	1019960	208	69288											
HDLBP	3069	broad.mit.edu	37	chr2	242203935	242203935	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggttcctgggcactttcCaggcaagcagctttctcagg	7	10	13	11	0	1	0	1	0	1	0	4	1	3	0	2	4	2	5	2	4	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr2:242203935C>A	uc002waz.2	-	4	390	c.162G>T	c.(160-162)CTG>CTT	p.L54L	HDLBP_uc002wba.2_Silent_p.L54L|HDLBP_uc002wbb.2_Silent_p.L75L|HDLBP_uc010fzn.1_5'UTR|uc010zoo.1_5'Flank	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	54					cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		GGGCACTTTCCAGGCAAGCAG	0.507													49	219					1.21353e-23	1.37346e-23	0.01441	1	0		A	242203935	A	A	242203935	2	1	127	1	0	0	0	0	0	0	0	1	7041	581	21	5		5	HDLBP	2	242203935	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	24522	242203935	995438	209	69289											
BRPF1	7862	broad.mit.edu	37	chr3	9776150	9776150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgcatggccgcgtccaccGcatcagcatctttgacaacc	8	9	8	16	3	2	1	1	1	1	0	3	1	3	1	4	1	3	3	4	1	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:9776150G>A	uc003bse.2	+	2	725	c.326G>A	c.(325-327)CGC>CAC	p.R109H	BRPF1_uc003bsf.2_Missense_Mutation_p.R109H|BRPF1_uc003bsg.2_Missense_Mutation_p.R109H|BRPF1_uc011ati.1_Missense_Mutation_p.R109H	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	109	Interaction with MYST3 and MYST4.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					CGCGTCCACCGCATCAGCATC	0.602													24	114					0	0	0.009535	0	0		A	9776150	A	A	9776150	3	1	127	1	0	0	0	0	1	0	0	0	1523	1087	38	1	328	1	BRPF1	3	9776150	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08		9776150	188246280	210	69290											
FANCD2	2177	broad.mit.edu	37	chr3	10130535	10130535	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacctggagcacacagagaGcattctgaaggccatagagg	13	6	12	10	0	1	3	0	1	1	2	1	5	1	4	2	3	3	2	2	3	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:10130535G>A	uc003buw.2	+	36	3662	c.3584G>A	c.(3583-3585)AGC>AAC	p.S1195N	FANCD2_uc003bux.1_Missense_Mutation_p.S1195N|FANCD2_uc003buy.1_Missense_Mutation_p.S1195N|FANCD2_uc010hcw.1_RNA|C3orf24_uc003buz.2_Intron	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	1195					DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		CACACAGAGAGCATTCTGAAG	0.433			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				42	126					0	0	0.007835	0	0		A	10130535	A	A	10130535	3	1	127	1	0	0	0	0	1	0	0	0	5679	971	34	2	3722	2	FANCD2	3	10130535	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	354385	10130535	187891895	211	69291											
CAPN7	23473	broad.mit.edu	37	chr3	15288865	15288865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtggagtggtcagagtgctgGaggatgtggaaatttccaag	10	10	17	4	0	1	1	1	0	0	1	2	5	2	5	1	5	1	1	1	5	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:15288865G>A	uc003bzn.2	+	19	2375	c.2105G>A	c.(2104-2106)GGA>GAA	p.G702E		NM_014296	NP_055111	Q9Y6W3	CAN7_HUMAN	calpain 7	702	Domain N.				proteolysis	nucleus	calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1						CAGAGTGCTGGAGGATGTGGA	0.368													12	64					0	0	0.010729	0	0		A	15288865	A	A	15288865	3	1	127	1	0	0	0	0	1	0	0	0	2634	1174	41	4	2179	4	CAPN7	3	15288865	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5158330	15288865	182733565	212	69292											
GALNTL2	117248	broad.mit.edu	37	chr3	16217107	16217107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctgaagaagaggagttgaCcccgttcagcctggacccac	10	7	12	12	1	2	4	1	2	1	2	2	6	2	6	4	2	1	2	4	2	2	2	rs145670083	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:16217107C>T	uc003car.3	+	1	924	c.449C>T	c.(448-450)ACC>ATC	p.T150I	GALNTL2_uc003caq.3_Intron	NM_054110	NP_473451	Q8N3T1	GLTL2_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	150	Lumenal (Potential).					Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1						GAGGAGTTGACCCCGTTCAGC	0.632													7	51					0	0	0.001984	0	0		T	16217107	T	T	16217107	3	4	127	1	0	0	0	0	1	0	0	0	6237	507	18	4	451	4	GALNTL2	3	16217107	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	928242	16217107	181805323	213	69293											
TBC1D5	9779	broad.mit.edu	37	chr3	17202725	17202725	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggaattccctctatcagtGcaccctggcgtttctgaaga	8	12	9	12	2	3	2	1	1	2	1	5	3	4	3	2	2	1	2	2	2	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:17202725G>A	uc003cbf.2	-	22	3783	c.2118C>T	c.(2116-2118)TGC>TGT	p.C706C	TBC1D5_uc010heu.2_Silent_p.C293C|TBC1D5_uc010hev.2_Silent_p.C728C|TBC1D5_uc003cbe.2_Silent_p.C706C	NM_014744	NP_055559	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5 isoform b	706						intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						CTCTATCAGTGCACCCTGGCG	0.527													16	74					0	0	0.006122	0	0		A	17202725	A	A	17202725	2	1	127	1	0	0	0	0	0	0	0	1	15648	1311	46	2		2	TBC1D5	3	17202725	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	985618	17202725	180819705	214	69294											
SATB1	6304	broad.mit.edu	37	chr3	18457551	18457551	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atacacatcttgaagcatatCtgctactgtagcatcagggg	12	11	9	9	0	3	1	1	1	2	0	3	1	3	1	0	2	5	4	0	2	5	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:18457551C>G	uc003cbh.2	-	4	2198	c.463G>C	c.(463-465)GAT>CAT	p.D155H	SATB1_uc003cbi.2_Missense_Mutation_p.D155H|SATB1_uc003cbj.2_Missense_Mutation_p.D155H	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	155	PDZ-like dimerization domain.				cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						TGAAGCATATCTGCTACTGTA	0.418													31	149					0	0	0.010818	0	0		G	18457551	G	G	18457551	3	3	127	1	0	0	0	0	1	0	0	0	13878	913	32	5	1860	5	SATB1	3	18457551	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1254826	18457551	179564879	215	69295											
CLASP2	23122	broad.mit.edu	37	chr3	33576740	33576740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cataccgtcaggaaactggtCagcatcatcatcaaacatgg	14	8	8	11	1	5	0	5	0	0	0	5	1	5	1	1	3	4	1	1	3	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:33576740C>T	uc003cfu.2	-	33	4126	c.3772G>A	c.(3772-3774)GAC>AAC	p.D1258N	CLASP2_uc003cfs.2_Missense_Mutation_p.D465N|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Missense_Mutation_p.D858N	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	1267										ovary(3)|central_nervous_system(1)	4						GGAAACTGGTCAGCATCATCA	0.408													13	55					0	0	0.013537	0	0		T	33576740	T	T	33576740	3	4	127	1	0	0	0	0	1	0	0	0	3458	826	29	4	772	4	CLASP2	3	33576740	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	15119189	33576740	164445690	216	69296											
LRRFIP2	9209	broad.mit.edu	37	chr3	37114363	37114363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctattttctgctgcatgCgctgcttctcctgcagagga	5	15	10	11	1	3	1	0	0	3	1	4	2	3	2	1	1	5	5	1	1	1	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:37114363C>T	uc003cgp.2	-	22	1805	c.1382G>A	c.(1381-1383)CGC>CAC	p.R461H	LRRFIP2_uc011ayf.1_Missense_Mutation_p.R277H|LRRFIP2_uc003cgr.2_Intron|LRRFIP2_uc003cgs.3_Intron|LRRFIP2_uc003cgt.3_Intron	NM_006309	NP_006300	Q9Y608	LRRF2_HUMAN	leucine rich repeat (in FLII) interacting	461	Potential.				Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1						CTGCTGCATGCGCTGCTTCTC	0.418													24	112					0	0	0.00278	0	0		T	37114363	T	T	37114363	3	4	127	1	0	0	0	0	1	0	0	0	9046	768	27	1	815	1	LRRFIP2	3	37114363	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3537623	37114363	160908067	217	69297											
ACVR2B	93	broad.mit.edu	37	chr3	38524697	38524697	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagaggctcgcttgtccgcGggctgtgtggaggagcgggt	4	8	20	9	4	0	1	0	0	0	1	2	3	1	3	1	5	1	4	1	5	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:38524697G>A	uc003cif.2	+	11	1437	c.1413G>A	c.(1411-1413)GCG>GCA	p.A471A	ACVR2B_uc003cig.2_Silent_p.A262A	NM_001106	NP_001097	Q13705	AVR2B_HUMAN	activin A receptor, type IIB precursor	471	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|anterior/posterior pattern formation|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|regulation of transcription, DNA-dependent	cell surface|cytoplasm|integral to plasma membrane	activin receptor activity|ATP binding|growth factor binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)		GCTTGTCCGCGGGCTGTGTGG	0.607													46	163					0	0	0.01441	0	0		A	38524697	A	A	38524697	2	1	127	1	0	0	0	0	0	0	0	1	224	1103	39	1		1	ACVR2B	3	38524697	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1410334	38524697	159497733	218	69298											
KBTBD5	131377	broad.mit.edu	37	chr3	42728053	42728053	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaccctgcgcttcggcatgTtcctgcaggatctcatcttc	6	12	8	15	2	2	0	1	0	2	0	6	1	3	1	2	2	2	4	2	2	0	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:42728053T>C	uc003clv.1	+	1	1043	c.943T>C	c.(943-945)TTC>CTC	p.F315L		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	315										ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		CTTCGGCATGTTCCTGCAGGA	0.572													38	147					0	0	0.005524	0	0		C	42728053	C	C	42728053	3	2	127	1	0	0	0	0	1	0	0	0	8012	1725	60	3	945	3	KBTBD5	3	42728053	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	4203356	42728053	155294377	219	69299											
CCR3	1232	broad.mit.edu	37	chr3	46307386	46307386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcatttttgtcatcatggCggtgtttttcattttctgga	5	20	9	7	1	5	0	4	0	1	0	5	1	5	1	0	3	0	2	0	3	0	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:46307386C>T	uc003cpg.1	+	4	1280	c.737C>T	c.(736-738)GCG>GTG	p.A246V	CCR3_uc003cpi.1_Missense_Mutation_p.A246V|CCR3_uc003cpj.1_Missense_Mutation_p.A246V|CCR3_uc003cpk.1_Missense_Mutation_p.A267V|CCR3_uc010hjb.1_Missense_Mutation_p.A264V|CCR3_uc003cpl.1_Missense_Mutation_p.A279V	NM_178329	NP_847899	P51677	CCR3_HUMAN	CC chemokine receptor 3 isoform 1	246	Helical; Name=6; (Potential).				cell adhesion|cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|inflammatory response|interspecies interaction between organisms|positive regulation of angiogenesis	integral to plasma membrane				ovary(3)|lung(3)|breast(1)|kidney(1)	8				BRCA - Breast invasive adenocarcinoma(193;0.00119)|KIRC - Kidney renal clear cell carcinoma(197;0.0183)|Kidney(197;0.0216)		GTCATCATGGCGGTGTTTTTC	0.453													17	72					0	0	0.00499	0	0		T	46307386	T	T	46307386	3	4	127	1	0	0	0	0	1	0	0	0	2945	768	27	1	806	1	CCR3	3	46307386	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3579333	46307386	151715044	220	69300											
LTF	4057	broad.mit.edu	37	chr3	46490404	46490404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccgaggagcaggtcaCgctgccttcgctcaagccac	8	5	14	14	3	2	0	2	0	0	0	3	3	2	2	3	4	3	3	3	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:46490404C>T	uc003cpq.2	-	9	1200	c.1162G>A	c.(1162-1164)GTG>ATG	p.V388M	LTF_uc003fzr.2_Missense_Mutation_p.V344M|LTF_uc010hjh.2_Missense_Mutation_p.V388M|LTF_uc003cpr.2_Missense_Mutation_p.V375M	NM_002343	NP_002334	P02788	TRFL_HUMAN	lactotransferrin precursor	388	Transferrin-like 2.				cellular iron ion homeostasis|defense response to bacterium|humoral immune response|iron ion transport	extracellular region|stored secretory granule	ferric iron binding|heparin binding|protein binding|serine-type endopeptidase activity	p.V388E(1)		central_nervous_system(2)|ovary(1)|lung(1)	4				all cancers(1;7.55e-14)|GBM - Glioblastoma multiforme(1;2.1e-09)|Epithelial(1;9.25e-07)|Colorectal(1;3.81e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00129)|COAD - Colon adenocarcinoma(1;0.00308)|KIRC - Kidney renal clear cell carcinoma(197;0.0205)|Kidney(197;0.0242)|OV - Ovarian serous cystadenocarcinoma(275;0.089)	Pefloxacin(DB00487)	GAGCAGGTCACGCTGCCTTCG	0.682													10	31					0	0	0.008291	0	0		T	46490404	T	T	46490404	3	4	127	1	0	0	0	0	1	0	0	0	9097	536	19	1	1006	1	LTF	3	46490404	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	183018	46490404	151532026	221	69301											
RTP3	83597	broad.mit.edu	37	chr3	46539601	46539601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatgtttcaggagttaatgCgggaggtgaagccatggcac	12	9	14	6	1	1	1	1	1	0	0	1	3	1	3	1	4	2	3	1	4	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:46539601C>T	uc003cps.1	+	1	117	c.49C>T	c.(49-51)CGG>TGG	p.R17W		NM_031440	NP_113628	Q9BQQ7	RTP3_HUMAN	transmembrane protein 7	17	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste|protein targeting to membrane	cytoplasm|integral to membrane	protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0173)|Kidney(197;0.0204)		GGAGTTAATGCGGGAGGTGAA	0.587													15	77					0	0	0.003163	0	0		T	46539601	T	T	46539601	3	4	127	1	0	0	0	0	1	0	0	0	13760	759	27	1	51	1	RTP3	3	46539601	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	49197	46539601	151482829	222	69302											
SHISA5	51246	broad.mit.edu	37	chr3	48510933	48510933	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttggaggctgaggataagggGcatgcaccacagtggtggat	10	8	17	6	0	0	1	0	1	0	0	0	4	0	4	1	7	1	3	1	7	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:48510933G>T	uc003ctp.1	-	5	604	c.470C>A	c.(469-471)GCC>GAC	p.A157D	SHISA5_uc003ctn.1_Nonsense_Mutation_p.C25*|SHISA5_uc003ctm.1_Missense_Mutation_p.A54D|SHISA5_uc011bbk.1_Nonsense_Mutation_p.C65*|SHISA5_uc003cto.1_Missense_Mutation_p.A126D|SHISA5_uc003ctq.1_Missense_Mutation_p.A150D|SHISA5_uc003ctr.1_Missense_Mutation_p.A126D|SHISA5_uc003cts.1_Missense_Mutation_p.A126D|SHISA5_uc003ctt.2_Missense_Mutation_p.A54D|SHISA5_uc003ctu.1_RNA|SHISA5_uc011bbl.1_Missense_Mutation_p.A55D	NM_016479	NP_057563	Q8N114	SHSA5_HUMAN	scotin precursor	157	Cytoplasmic (Potential).				apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade	endoplasmic reticulum membrane|integral to membrane|nuclear membrane	signal transducer activity|WW domain binding				0						AGGATAAGGGGCATGCACCAC	0.612													21	55					5.26018e-13	5.80504e-13	0.012319	1	0		T	48510933	T	T	48510933	3	4	127	1	0	0	0	0	1	0	0	0	14308	1203	42	5	260	5	SHISA5	3	48510933	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1971332	48510933	149511497	223	69303											
COL7A1	1294	broad.mit.edu	37	chr3	48613062	48613062	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccacttctgctcacctcCttgcctggggggccctgttc	3	11	11	16	0	2	0	1	0	1	0	4	1	3	0	5	3	3	2	5	3	0	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:48613062C>A	uc003ctz.2	-	72	5977	c.5976G>T	c.(5974-5976)AAG>AAT	p.K1992N		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1992	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TGCTCACCTCCTTGCCTGGGG	0.647													21	91					5.35356e-11	5.82194e-11	0.00278	1	0		A	48613062	A	A	48613062	3	1	127	1	0	0	0	0	1	0	0	0	3707	680	24	5	3046	5	COL7A1	3	48613062	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	102129	48613062	149409368	224	69304											
IP6K2	51447	broad.mit.edu	37	chr3	48725986	48725986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgctccttgccatcataaAtgaccagcagggagcttgag	10	8	11	12	1	1	2	1	2	0	0	2	3	2	3	4	1	3	3	4	1	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:48725986A>G	uc003cup.2	-	6	1245	c.1001T>C	c.(1000-1002)ATT>ACT	p.I334T	NCKIPSD_uc003cum.2_5'Flank|NCKIPSD_uc003cun.2_5'Flank|NCKIPSD_uc010hkh.1_5'Flank|IP6K2_uc003cuq.2_Missense_Mutation_p.I334T	NM_001005909	NP_001005909	Q9UHH9	IP6K2_HUMAN	inositol hexaphosphate kinase 2 isoform a	334					negative regulation of cell growth|phosphatidylinositol phosphorylation|positive regulation of apoptosis|type I interferon-mediated signaling pathway	intermediate filament cytoskeleton|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						GCCATCATAAATGACCAGCAG	0.557													18	75					0	0	0.008871	0	0		G	48725986	G	G	48725986	3	3	127	1	0	0	0	0	1	0	0	0	7805	101	4	3	283	3	IP6K2	3	48725986	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	112924	48725986	149296444	225	69305											
DAG1	1605	broad.mit.edu	37	chr3	49569667	49569667	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccacgtgggcaaacacgagTatttcatgcatgccacagac	12	7	10	12	2	1	1	1	0	0	1	1	2	1	1	2	1	3	3	2	1	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:49569667T>C	uc003cxc.3	+	3	2141	c.1723T>C	c.(1723-1725)TAT>CAT	p.Y575H		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	575	Peptidase S72.				cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		CAAACACGAGTATTTCATGCA	0.602													11	42					0	0	0.006122	0	0		C	49569667	C	C	49569667	3	2	127	1	0	0	0	0	1	0	0	0	4228	1638	57	3	1729	3	DAG1	3	49569667	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	843681	49569667	148452763	226	69306											
RBM6	10180	broad.mit.edu	37	chr3	50103840	50103840	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgaagaagacaaactcActgactggaataaactggct	18	7	9	7	0	1	5	1	2	0	3	1	6	1	6	0	2	2	1	0	2	7	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:50103840A>G	uc003cyc.2	+	17	2981	c.2848A>G	c.(2848-2850)ACT>GCT	p.T950A	RBM6_uc010hlc.1_3'UTR|RBM6_uc003cyd.2_Missense_Mutation_p.T428A|RBM6_uc003cye.2_Missense_Mutation_p.T428A|RBM6_uc011bdi.1_Missense_Mutation_p.T292A|RBM6_uc010hld.1_RNA|RBM6_uc010hle.1_RNA|RBM6_uc010hlf.1_RNA	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	950					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		AGACAAACTCACTGACTGGAA	0.507													26	132					0	0	0.006999	0	0		G	50103840	G	G	50103840	3	3	127	1	0	0	0	0	1	0	0	0	13169	159	6	3	2910	3	RBM6	3	50103840	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	534173	50103840	147918590	227	69307											
FAM116A	201627	broad.mit.edu	37	chr3	57614584	57614584	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctactgtttctacttctGtgtgtttctggatccagaga	6	17	10	8	0	4	1	0	0	4	1	5	3	5	2	1	2	2	2	1	2	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:57614584G>C	uc003dja.2	-	19	1720	c.1649C>G	c.(1648-1650)ACA>AGA	p.T550R		NM_152678	NP_689891	Q8IWF6	F116A_HUMAN	hypothetical protein LOC201627	550										pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000621)|KIRC - Kidney renal clear cell carcinoma(284;0.0485)|Kidney(284;0.0607)		TTCTACTTCTGTGTGTTTCTG	0.338													22	108					0	0	0.00333	0	0		C	57614584	C	C	57614584	3	2	127	1	0	0	0	0	1	0	0	0	5418	1377	48	5	185	5	FAM116A	3	57614584	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	7510744	57614584	140407846	228	69308											
SLMAP	7871	broad.mit.edu	37	chr3	57743471	57743471	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacgagcccatcaaaatcggCcgctcagtggcccgctgtcg	8	6	12	15	5	2	0	2	0	0	0	4	2	2	0	3	2	1	2	3	2	2	0	rs144914455	by1000genomes	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:57743471C>T	uc003dje.1	+	1	298	c.93C>T	c.(91-93)GGC>GGT	p.G31G	SLMAP_uc003djc.1_Silent_p.G31G|SLMAP_uc003djd.1_Silent_p.G31G|SLMAP_uc003djf.1_Silent_p.G31G	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	31	Necessary for targeting to centrosomes (By similarity).|Cytoplasmic (Potential).|FHA.				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)		TCAAAATCGGCCGCTCAGTGG	0.557													11	34					0	0	0.00245	0	0		T	57743471	T	T	57743471	2	4	127	1	0	0	0	0	0	0	0	1	14774	726	26	2		2	SLMAP	3	57743471	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	128887	57743471	140278959	229	69309											
SLMAP	7871	broad.mit.edu	37	chr3	57913085	57913085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaacagccatcgtgctgtaCgtgccaggtctggccagagc	8	8	13	12	2	1	1	0	0	1	1	2	1	1	1	3	2	6	3	3	2	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:57913085C>T	uc003dje.1	+	22	2662	c.2457C>T	c.(2455-2457)TAC>TAT	p.Y819Y	SLMAP_uc003djd.1_Silent_p.Y802Y|SLMAP_uc003djf.1_Silent_p.Y781Y|SLMAP_uc003djg.1_3'UTR|SLMAP_uc011bez.1_Silent_p.Y287Y|SLMAP_uc011bfa.1_Silent_p.Y353Y|SLMAP_uc003dji.1_3'UTR|SLMAP_uc011bfb.1_Silent_p.Y353Y|SLMAP_uc011bfc.1_3'UTR	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	819	Helical; Anchor for type IV membrane protein; (Potential).				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)		TCGTGCTGTACGTGCCAGGTC	0.542													4	15					0	0	0.001168	0	0		T	57913085	T	T	57913085	2	4	127	1	0	0	0	0	0	0	0	1	14774	547	19	1		1	SLMAP	3	57913085	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	169614	57913085	140109345	230	69310											
MAGI1	9223	broad.mit.edu	37	chr3	65342204	65342204	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccttttgtccagggacCgctctctcctgcgctcgggg	2	13	12	14	3	1	0	0	0	1	0	6	1	4	1	4	3	1	3	4	3	0	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:65342204C>A	uc003dmn.2	-	23	4764	c.4238G>T	c.(4237-4239)CGG>CTG	p.R1413L	MAGI1_uc003dmm.2_3'UTR	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	1442					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		GTCCAGGGACCGCTCTCTCCT	0.667													40	153					2.68985e-26	3.05655e-26	0.01441	1	0		A	65342204	A	A	65342204	3	1	127	1	0	0	0	0	1	0	0	0	9208	652	23	5	154	5	MAGI1	3	65342204	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7429119	65342204	132680226	231	69311											
MAGI1	9223	broad.mit.edu	37	chr3	65342235	65342235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctcgggggagcgtgcgcGcctccggtcggtggacttgg	2	7	20	12	7	0	0	0	0	0	0	3	2	1	2	2	6	2	1	2	6	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:65342235G>A	uc003dmn.2	-	23	4733	c.4207C>T	c.(4207-4209)CGC>TGC	p.R1403C	MAGI1_uc003dmm.2_3'UTR	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	1432					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		GAGCGTGCGCGCCTCCGGTCG	0.667													36	125					0	0	0.003271	0	0		A	65342235	A	A	65342235	3	1	127	1	0	0	0	0	1	0	0	0	9208	1087	38	1	185	1	MAGI1	3	65342235	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	31	65342235	132680195	232	69312											
MAGI1	9223	broad.mit.edu	37	chr3	65456114	65456114	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctactattcacaggtggtAatgctgtttcttggagagtg	8	15	12	6	0	2	1	1	0	1	1	2	2	2	1	0	3	3	4	0	3	3	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:65456114A>G	uc003dmn.2	-	5	1329	c.803T>C	c.(802-804)TTA>TCA	p.L268S	MAGI1_uc003dmm.2_Missense_Mutation_p.L268S|MAGI1_uc003dmo.2_Missense_Mutation_p.L268S|MAGI1_uc003dmp.2_Missense_Mutation_p.L268S|MAGI1_uc010hny.2_Missense_Mutation_p.L153S|MAGI1_uc003dmr.2_Missense_Mutation_p.L269S	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	268	Guanylate kinase-like.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		CACAGGTGGTAATGCTGTTTC	0.448													16	103					0	0	0.007413	0	0		G	65456114	G	G	65456114	3	3	127	1	0	0	0	0	1	0	0	0	9208	372	13	3	3895	3	MAGI1	3	65456114	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	113879	65456114	132566316	233	69313											
UBA3	9039	broad.mit.edu	37	chr3	69105035	69105035	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagagatttggccttgttcGttcttcaatagaggttaccg	8	14	12	7	2	2	2	1	0	1	2	3	4	2	3	2	3	1	3	2	3	3	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:69105035G>A	uc003dno.2	-	17	1290	c.1270C>T	c.(1270-1272)CGA>TGA	p.R424*	UBA3_uc003dnq.2_Nonsense_Mutation_p.R410*|UBA3_uc011bfy.1_Nonsense_Mutation_p.R247*|UBA3_uc011bfz.1_Nonsense_Mutation_p.R247*	NM_003968	NP_003959	Q8TBC4	UBA3_HUMAN	ubiquitin-activating enzyme 3 isoform 1	424	Interaction with UBE2M core domain.			R->A: No effect on NEDD8 transfer to UBE2M.	protein neddylation|proteolysis	nucleus	acid-amino acid ligase activity|ATP binding|protein heterodimerization activity			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.98e-05)|Epithelial(33;0.000363)|LUSC - Lung squamous cell carcinoma(21;0.012)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.206)|Kidney(39;0.241)		GGCCTTGTTCGTTCTTCAATA	0.264													26	125					0	0	0.005443	0	0		A	69105035	A	A	69105035	4	1	127	1	0	0	0	0	0	1	0	0	16855	1153	40	1	129	1	UBA3	3	69105035	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3648921	69105035	128917395	234	69314											
FOXP1	27086	broad.mit.edu	37	chr3	71090486	71090486	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctggttcctacctttcccTtttgggagtgtggactgaga	5	14	13	9	0	0	1	0	1	0	1	2	4	2	3	3	4	1	2	3	4	1	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:71090486T>C	uc003dol.2	-	7	1185	c.862A>G	c.(862-864)AGG>GGG	p.R288G	FOXP1_uc003dom.2_Missense_Mutation_p.R212G|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Missense_Mutation_p.R288G|FOXP1_uc003dop.2_Missense_Mutation_p.R288G|FOXP1_uc003doq.1_Missense_Mutation_p.R287G|FOXP1_uc003doi.2_Missense_Mutation_p.R188G|FOXP1_uc003doj.2_Missense_Mutation_p.R188G|FOXP1_uc003dok.2_Missense_Mutation_p.R101G|FOXP1_uc003dor.1_Missense_Mutation_p.R66G	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	288					cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		TACCTTTCCCTTTTGGGAGTG	0.517			T	PAX5	ALL								12	52					0	0	0.010729	0	0		C	71090486	C	C	71090486	3	2	127	1	0	0	0	0	1	0	0	0	6040	1608	56	3	1215	3	FOXP1	3	71090486	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1985451	71090486	126931944	235	69315											
ARL13B	200894	broad.mit.edu	37	chr3	93755579	93755579	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaaagagctgaacgagtgCgaaaattacgagaagaaagg	20	4	13	4	3	0	5	0	1	0	4	0	8	0	5	0	1	4	1	0	1	8	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:93755579C>T	uc003drc.2	+	5	956	c.670C>T	c.(670-672)CGA>TGA	p.R224*	ARL13B_uc010hop.2_Nonsense_Mutation_p.R75*|ARL13B_uc003drd.2_Nonsense_Mutation_p.R117*|ARL13B_uc003dre.2_Nonsense_Mutation_p.R209*|ARL13B_uc003drf.2_Nonsense_Mutation_p.R224*|ARL13B_uc003drg.2_Nonsense_Mutation_p.R121*	NM_182896	NP_878899	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 2-like 1 isoform 1	224	Potential.						GTP binding				0						TGAACGAGTGCGAAAATTACG	0.363													6	49					0	0	0.001168	0	0		T	93755579	T	T	93755579	4	4	127	1	0	0	0	0	0	1	0	0	929	760	27	1	688	1	ARL13B	3	93755579	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	22665093	93755579	104266851	236	69316											
OR5H14	403273	broad.mit.edu	37	chr3	97868368	97868368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggaatcttggtctgattGctgtcatctggaaagaccct	8	13	12	8	0	4	2	1	1	3	1	4	4	4	4	1	4	1	1	1	4	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:97868368G>A	uc003dsg.1	+	1	139	c.139G>A	c.(139-141)GCT>ACT	p.A47T		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	47	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGGTCTGATTGCTGTCATCTG	0.408													179	513					0	0	0.01441	0	0		A	97868368	A	A	97868368	3	1	127	1	0	0	0	0	1	0	0	0	11179	1319	46	2	141	2	OR5H14	3	97868368	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	4112789	97868368	100154062	237	69317											
CBLB	868	broad.mit.edu	37	chr3	105377982	105377982	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcgacattttccaatgcCgcctcaggcccatggggttt	7	11	10	13	2	1	0	1	0	0	0	3	1	2	0	4	3	1	2	4	3	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:105377982C>T	uc003dwc.2	-	19	3103	c.2781G>A	c.(2779-2781)GCG>GCA	p.A927A	CBLB_uc003dwa.2_Silent_p.A142A|CBLB_uc011bhi.1_Silent_p.A905A	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	927	Interaction with SH3KBP1.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						TTTCCAATGCCGCCTCAGGCC	0.507			Mis S		AML								30	173					0	0	0.008361	0	0		T	105377982	T	T	105377982	2	4	127	1	0	0	0	0	0	0	0	1	2704	639	23	1		1	CBLB	3	105377982	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7509614	105377982	92644448	238	69318											
ZBTB20	26137	broad.mit.edu	37	chr3	114070106	114070106	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcgcggggcaggccgagCgcagtctcgtggtggctgac	4	7	19	11	5	1	1	0	1	1	0	3	2	1	1	1	6	1	3	1	6	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:114070106C>T	uc003ebi.2	-	4	999	c.819G>A	c.(817-819)GCG>GCA	p.A273A	ZBTB20_uc003ebj.2_Silent_p.A200A|ZBTB20_uc010hqp.2_Silent_p.A200A|ZBTB20_uc003ebk.2_Silent_p.A200A|ZBTB20_uc003ebl.2_Silent_p.A200A|ZBTB20_uc003ebm.2_Silent_p.A200A|ZBTB20_uc003ebn.2_Silent_p.A200A|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	273					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GCAGGCCGAGCGCAGTCTCGT	0.642													30	61					0	0	0.00632	0	0		T	114070106	T	T	114070106	2	4	127	1	0	0	0	0	0	0	0	1	17554	755	27	1		1	ZBTB20	3	114070106	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	8692124	114070106	83952324	239	69319											
ARHGAP31	57514	broad.mit.edu	37	chr3	119121138	119121138	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgccgtgcagaacacccccGaaggagctgcagtctctttc	9	7	10	15	3	1	1	0	0	1	1	3	3	1	2	3	1	4	3	3	1	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:119121138G>A	uc003ecj.3	+	10	2071	c.1539G>A	c.(1537-1539)CCG>CCA	p.P513P		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	513					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						GAACACCCCCGAAGGAGCTGC	0.582													15	123					0	0	0.006122	0	0		A	119121138	A	A	119121138	2	1	127	1	0	0	0	0	0	0	0	1	880	1045	37	1		1	ARHGAP31	3	119121138	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5051032	119121138	78901292	240	69320											
GSK3B	2932	broad.mit.edu	37	chr3	119634950	119634950	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaacaagaggttctgcggTttaatatcccgatggcagat	11	11	10	9	2	1	2	0	0	1	2	3	3	3	2	2	3	2	3	2	3	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:119634950T>C	uc003edo.2	-	5	1532	c.549A>G	c.(547-549)AAA>AAG	p.K183K	GSK3B_uc003edn.2_Silent_p.K183K	NM_001146156	NP_001139628	P49841	GSK3B_HUMAN	glycogen synthase kinase 3 beta isoform 2	183	Protein kinase.				axon guidance|epithelial to mesenchymal transition|ER overload response|glycogen metabolic process|hippocampus development|negative regulation of apoptosis|negative regulation of protein binding|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|positive regulation of cell-matrix adhesion|positive regulation of protein complex assembly|positive regulation of protein export from nucleus|positive regulation of Rac GTPase activity|regulation of microtubule-based process|superior temporal gyrus development	Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|nucleus|plasma membrane	ATP binding|beta-catenin binding|NF-kappaB binding|p53 binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|RNA polymerase II transcription factor binding|tau-protein kinase activity|ubiquitin protein ligase binding			lung(2)	2				GBM - Glioblastoma multiforme(114;0.24)	Lithium(DB01356)	GGTTCTGCGGTTTAATATCCC	0.413													15	63					0	0	0.00245	0	0		C	119634950	C	C	119634950	2	2	127	1	0	0	0	0	0	0	0	1	6840	1722	60	3		3	GSK3B	3	119634950	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	513812	119634950	78387480	241	69321											
EAF2	55840	broad.mit.edu	37	chr3	121575886	121575886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagcagtaaaattcagtatCgtaaagaacaacagcaacaa	21	6	7	7	1	1	1	1	0	0	1	2	2	1	1	0	0	5	5	0	0	10	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:121575886C>T	uc003een.2	+	4	466	c.367C>T	c.(367-369)CGT>TGT	p.R123C	EAF2_uc003eeo.2_5'UTR	NM_018456	NP_060926	Q96CJ1	EAF2_HUMAN	ELL associated factor 2	123					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	protein binding				0				GBM - Glioblastoma multiforme(114;0.0972)		AATTCAGTATCGTAAAGAACA	0.348													21	158					0	0	0.012319	0	0		T	121575886	T	T	121575886	3	4	127	1	0	0	0	0	1	0	0	0	4882	884	31	1	381	1	EAF2	3	121575886	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1940936	121575886	76446544	242	69322											
SLC15A2	6565	broad.mit.edu	37	chr3	121648151	121648151	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactttcctctgttgtaggtAaaggatacagaaagcagaac	14	11	9	7	0	1	2	0	0	1	2	2	3	2	3	1	2	4	4	1	2	7	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:121648151A>T	uc003eep.2	+	17	1662	c.1509A>T	c.(1507-1509)GTA>GTT	p.V503V	SLC15A2_uc011bjn.1_Silent_p.V472V	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a	503					protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	TGTTGTAGGTAAAGGATACAG	0.388													29	195					0	0	0.00632	0	0		T	121648151	T	T	121648151	2	4	127	1	0	0	0	0	0	0	0	1	14424	349	13	5		5	SLC15A2	3	121648151	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	72265	121648151	76374279	243	69323											
ADCY5	111	broad.mit.edu	37	chr3	123166294	123166294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtcctgggcgttggtgcGcagggcgatggccaggtgga	4	8	20	9	3	0	0	0	0	0	0	1	2	1	1	2	7	1	2	2	7	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:123166294G>A	uc003egh.1	-	1	1099	c.1099C>T	c.(1099-1101)CGC>TGC	p.R367C		NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	367					activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		GCGTTGGTGCGCAGGGCGATG	0.677													6	26					0	0	0.004482	0	0		A	123166294	A	A	123166294	3	1	127	1	0	0	0	0	1	0	0	0	297	1087	38	1	2770	1	ADCY5	3	123166294	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1518143	123166294	74856136	244	69324											
ALDH1L1	10840	broad.mit.edu	37	chr3	125849069	125849069	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgggcaggaactcacccaAcaggctccttcctggtcaag	9	7	10	15	0	2	0	2	0	0	0	4	1	4	1	4	4	2	2	4	4	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:125849069A>T	uc003eim.1	-	14	1881	c.1691T>A	c.(1690-1692)GTT>GAT	p.V564D	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Missense_Mutation_p.V463D|ALDH1L1_uc003eio.2_Missense_Mutation_p.V266D	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	564	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	AACTCACCCAACAGGCTCCTT	0.637													12	38					0	0	0.001855	0	0		T	125849069	T	T	125849069	3	4	127	1	0	0	0	0	1	0	0	0	494	43	2	5	1057	5	ALDH1L1	3	125849069	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2682775	125849069	72173361	245	69325											
RUVBL1	8607	broad.mit.edu	37	chr3	127816251	127816251	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtccagcatgtggaccTcatcaacaaacagcacaccc	14	6	6	15	0	2	0	2	0	0	0	3	1	3	1	3	1	4	2	3	1	3	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:127816251T>C	uc003ekh.2	-	8	1012	c.908A>G	c.(907-909)GAG>GGG	p.E303G	RUVBL1_uc003eke.2_Missense_Mutation_p.E44G|RUVBL1_uc003ekf.2_Missense_Mutation_p.E243G|RUVBL1_uc010hss.2_Missense_Mutation_p.E303G	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1	303					cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		CATGTGGACCTCATCAACAAA	0.527													16	84					0	0	0.007413	0	0		C	127816251	C	C	127816251	3	2	127	1	0	0	0	0	1	0	0	0	13777	1551	54	3	478	3	RUVBL1	3	127816251	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1967182	127816251	70206179	246	69326											
H1FX	8971	broad.mit.edu	37	chr3	129034633	129034635	+	In_Frame_Del	DEL	TTC	-	-																															gctggttcttcttcttgctaTtcttcctcttcttagatggg																										TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:129034633_129034635delTTC	uc003elx.2	-	1	486_488	c.111_113delGAA	c.(109-114)AAGAAT>AAT	p.K37del	C3orf47_uc011bkv.1_5'Flank	NM_006026	NP_006017	Q92522	H1X_HUMAN	H1 histone family, member X	37					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CTTCTTGCTATTCTTCCTCTTCT	0.621													6	6	---	---	---	---						.	-	129034635	-	-	129034633	7	5	127	1	0	1	0	1	0	0	0	0	6939	1493	52	0	532	0	H1FX	3	129034633	In_Frame_Del	DEL	TTC	TCGA-CG-4305-01A-01D-1158-08	1218382	129034633	68987797	247	69327											
IFT122	55764	broad.mit.edu	37	chr3	129211008	129211008	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcagagtacaagacctcCgatatttagagctcatcagc	13	10	7	11	1	4	3	4	0	0	3	5	4	5	3	2	0	3	2	2	0	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:129211008C>T	uc003emm.2	+	17	2223	c.2017C>T	c.(2017-2019)CGA>TGA	p.R673*	IFT122_uc003eml.2_Nonsense_Mutation_p.R724*|IFT122_uc003emn.2_Nonsense_Mutation_p.R614*|IFT122_uc003emo.2_Nonsense_Mutation_p.R562*|IFT122_uc003emp.2_Nonsense_Mutation_p.R523*|IFT122_uc010htc.2_Nonsense_Mutation_p.R665*|IFT122_uc011bky.1_Nonsense_Mutation_p.R464*|IFT122_uc003emq.2_Nonsense_Mutation_p.R513*|IFT122_uc003emr.2_Intron|IFT122_uc011bla.1_Intron|IFT122_uc010hte.2_Nonsense_Mutation_p.R53*|IFT122_uc003ems.2_Intron|IFT122_uc011bkx.1_Nonsense_Mutation_p.R513*|IFT122_uc010htd.1_Nonsense_Mutation_p.R152*	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	673					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						ACAAGACCTCCGATATTTAGA	0.443													38	310					0	0	0.00623	0	0		T	129211008	T	T	129211008	4	4	127	1	0	0	0	0	0	1	0	0	7571	644	23	1	2240	1	IFT122	3	129211008	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	176375	129211008	68811422	248	69328											
ASTE1	28990	broad.mit.edu	37	chr3	130743090	130743090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcatgttttccacctgtgtgGgaagaatggtccgtcttagg	7	13	13	8	1	1	1	0	0	1	1	3	2	3	2	3	3	0	2	3	3	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:130743090G>A	uc003env.1	-	3	1503	c.1061C>T	c.(1060-1062)CCC>CTC	p.P354L	NEK11_uc003enx.2_5'Flank|NEK11_uc003eny.2_5'Flank|NEK11_uc003eoa.2_5'Flank|NEK11_uc003enz.2_5'Flank|NEK11_uc010htn.2_5'Flank|NEK11_uc011blk.1_5'Flank|NEK11_uc011bll.1_5'Flank|NEK11_uc003enw.1_5'Flank|NEK11_uc011blm.1_5'Flank|ASTE1_uc010htm.1_Missense_Mutation_p.P354L|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	354				ILP -> FLH (in Ref. 4; AAF14876).	DNA repair		nuclease activity				0						CACCTGTGTGGGAAGAATGGT	0.448													31	169					0	0	0.009535	0	0		A	130743090	A	A	130743090	3	1	127	1	0	0	0	0	1	0	0	0	1063	1232	43	4	994	4	ASTE1	3	130743090	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1532082	130743090	67279340	249	69329											
TOPBP1	11073	broad.mit.edu	37	chr3	133320111	133320111	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgattagtgtactctaggtcGtttgattttatttttttctg	6	22	8	5	2	2	1	0	1	2	0	3	2	2	1	0	1	1	2	0	1	4	9			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:133320111G>A	uc003eps.2	-	28	4684	c.4552C>T	c.(4552-4554)CGA>TGA	p.R1518*		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	1518	Nuclear localization signal (Potential).				DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						ACTCTAGGTCGTTTGATTTTA	0.333								Other_conserved_DNA_damage_response_genes					22	70					0	0	0.00278	0	0		A	133320111	A	A	133320111	4	1	127	1	0	0	0	0	0	1	0	0	16395	1153	40	1	20	1	TOPBP1	3	133320111	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2577021	133320111	64702319	250	69330											
EPHB1	2047	broad.mit.edu	37	chr3	134851684	134851684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcatctgcaaaaagtgcCgggcagaccgccggagctgc	11	5	12	13	3	2	1	1	0	1	1	2	2	2	2	3	2	4	3	3	2	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:134851684C>T	uc003eqt.2	+	5	1310	c.1090C>T	c.(1090-1092)CGG>TGG	p.R364W	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_3'UTR|EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	364	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding	p.R364L(1)		lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						CAAAAAGTGCCGGGCAGACCG	0.602													6	53					0	0	0.004482	0	0		T	134851684	T	T	134851684	3	4	127	1	0	0	0	0	1	0	0	0	5182	643	23	1	1108	1	EPHB1	3	134851684	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1531573	134851684	63170746	251	69331											
FOXL2	668	broad.mit.edu	37	chr3	138664511	138664511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaatgcatcatggcgagctCgggctgccgggcacaagcga	9	5	15	12	4	1	0	1	0	0	0	2	2	1	0	1	3	4	5	1	3	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:138664511C>T	uc003esw.2	-	1	1472	c.1054G>A	c.(1054-1056)GAG>AAG	p.E352K	uc003esv.1_5'Flank|C3orf72_uc003esx.1_5'Flank|C3orf72_uc011bmr.1_5'Flank	NM_023067	NP_075555	P58012	FOXL2_HUMAN	forkhead box L2	352					convergent extension|DNA fragmentation involved in apoptotic nuclear change|embryonic eye morphogenesis|extraocular skeletal muscle development|female somatic sex determination|induction of apoptosis|menstruation|negative regulation of transcription, DNA-dependent|ovarian follicle development|pattern specification process|positive regulation of caspase activity|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	caspase regulator activity|DNA bending activity|double-stranded DNA binding|estrogen receptor binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|ubiquitin conjugating enzyme binding			ovary(266)|large_intestine(1)|skin(1)	268						ATGGCGAGCTCGGGCTGCCGG	0.478			Mis		granulosa-cell tumour of the ovary		Blepharophimosis|ptosis and epicanthus inversus Types I|II; Premature ovarian failure type III						8	47					0	0	0.008291	0	0		T	138664511	T	T	138664511	3	4	127	1	0	0	0	0	1	0	0	0	6031	893	31	1	80	1	FOXL2	3	138664511	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3812827	138664511	59357919	252	69332											
PAQR9	344838	broad.mit.edu	37	chr3	142681359	142681359	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggcggtagaagtgcacgaAgagtgtggggttctccccac	8	7	16	10	3	1	2	0	0	1	2	2	3	1	2	2	4	1	3	2	4	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:142681359A>C	uc003evg.2	-	1	820	c.820T>G	c.(820-822)TTC>GTC	p.F274V	PAQR9_uc003evf.1_RNA	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	274	Extracellular (Potential).					integral to membrane	receptor activity				0						AAGTGCACGAAGAGTGTGGGG	0.607													9	62					0	0	0.004482	0	0		C	142681359	C	C	142681359	3	2	127	1	0	0	0	0	1	0	0	0	11461	72	3	5	317	5	PAQR9	3	142681359	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	4016848	142681359	55341071	253	69333											
ZIC4	84107	broad.mit.edu	37	chr3	147114002	147114002	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgccaggaccgtggggcgCagcgaggttcaccgtcaggt	7	5	17	12	5	2	0	2	0	0	0	2	2	2	1	3	5	2	2	3	5	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:147114002C>T	uc003ewd.1	-	3	598	c.325G>A	c.(325-327)GCG>ACG	p.A109T	ZIC4_uc003ewc.1_Missense_Mutation_p.A39T|ZIC4_uc011bno.1_Missense_Mutation_p.A159T	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	109						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						CCGTGGGGCGCAGCGAGGTTC	0.706													15	60					0	0	0.00499	0	0		T	147114002	T	T	147114002	3	4	127	1	0	0	0	0	1	0	0	0	17706	710	25	2	691	2	ZIC4	3	147114002	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4432643	147114002	50908428	254	69334											
EIF2A	83939	broad.mit.edu	37	chr3	150289982	150289982	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgggatgtgaaaaactacaAacttatttctaaaccggtgg	14	11	10	6	1	1	1	0	1	1	0	1	2	1	2	1	3	4	0	1	3	7	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:150289982A>G	uc003eya.2	+	10	1065	c.1049A>G	c.(1048-1050)AAA>AGA	p.K350R	SERP1_uc003exz.2_Intron|EIF2A_uc003eyb.2_Missense_Mutation_p.K223R|EIF2A_uc003eyc.2_Missense_Mutation_p.K223R|EIF2A_uc011bnv.1_Missense_Mutation_p.K325R|EIF2A_uc011bnw.1_Missense_Mutation_p.K289R|EIF2A_uc003eyd.2_Missense_Mutation_p.K125R|uc003eye.1_Intron	NM_032025	NP_114414	Q9BY44	EIF2A_HUMAN	eukaryotic translation initiation factor 2A	350					regulation of translation|ribosome assembly	eukaryotic translation initiation factor 2 complex	ribosome binding|translation initiation factor activity|tRNA binding				0		Melanoma(1037;0.0575)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			AAAAACTACAAACTTATTTCT	0.423													8	66					0	0	0.00308	0	0		G	150289982	G	G	150289982	3	3	127	1	0	0	0	0	1	0	0	0	5001	14	1	3	1087	3	EIF2A	3	150289982	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	3175980	150289982	47732448	255	69335											
P2RY12	64805	broad.mit.edu	37	chr3	151056290	151056290	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgatagttatcagtcccAggaatgaaatactgatatac	15	11	8	7	1	1	2	1	2	0	0	3	5	2	3	1	1	2	1	1	1	7	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:151056290A>G	uc003eyw.1	-	2	560	c.344T>C	c.(343-345)CTG>CCG	p.L115P	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Missense_Mutation_p.L115P	NM_176876	NP_795345	Q9H244	P2Y12_HUMAN	purinergic receptor P2Y12	115	Helical; Name=3; (Potential).				platelet activation	integral to membrane|plasma membrane	guanyl-nucleotide exchange factor activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)		Clopidogrel(DB00758)|Epoprostenol(DB01240)|Ticlopidine(DB00208)|Treprostinil(DB00374)	TATCAGTCCCAGGAATGAAAT	0.418													52	126					0	0	0.01441	0	0		G	151056290	G	G	151056290	3	3	127	1	0	0	0	0	1	0	0	0	11368	188	7	3	688	3	P2RY12	3	151056290	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	766308	151056290	46966140	256	69336											
DHX36	170506	broad.mit.edu	37	chr3	154017707	154017707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcagaaagaccagtatcGcaccatcctatatgaagggg	13	7	11	10	1	0	3	0	1	0	2	2	3	1	3	3	3	0	3	3	3	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:154017707G>A	uc003ezy.3	-	12	1550	c.1469C>T	c.(1468-1470)GCG>GTG	p.A490V	DHX36_uc010hvq.2_Missense_Mutation_p.A490V|DHX36_uc003ezz.3_Missense_Mutation_p.A490V	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	490	Helicase C-terminal.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			GACCAGTATCGCACCATCCTA	0.358													16	94					0	0	0.006122	0	0		A	154017707	A	A	154017707	3	1	127	1	0	0	0	0	1	0	0	0	4515	1087	38	1	1613	1	DHX36	3	154017707	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2961417	154017707	44004723	257	69337											
RSRC1	51319	broad.mit.edu	37	chr3	157840089	157840089	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacattcttatgatagaaggTgatttttgtaatttttattt	11	21	6	3	0	1	3	0	2	1	1	1	3	1	3	0	1	0	1	0	1	5	10			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:157840089T>G	uc003fbt.2	+	2	305	c.194_splice	c.e2+2	p.R65_splice	RSRC1_uc011bou.1_Splice_Site_p.R65_splice|RSRC1_uc003fbu.1_Splice_Site_p.R65_splice|RSRC1_uc003fbv.2_Splice_Site_p.R65_splice	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1						nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			TGATAGAAGGTGATTTTTGTA	0.289													9	68					0	0	0.004482	0	0		G	157840089	G	G	157840089	5	3	127	1	0	0	0	0	0	0	1	0	13739	1710	59	5	198	5	RSRC1	3	157840089	Splice_Site	SNP	T	TCGA-CG-4305-01A-01D-1158-08	3822382	157840089	40182341	258	69338											
WDR49	151790	broad.mit.edu	37	chr3	167217963	167217963	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaaagtgacggggcctcCagaatttggggacgctcttc	10	10	12	9	2	1	2	0	1	1	1	3	3	2	3	2	4	0	1	2	4	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:167217963C>T	uc003fev.1	-	14	2259	c.1953G>A	c.(1951-1953)CTG>CTA	p.L651L	WDR49_uc003feu.1_Silent_p.L476L|WDR49_uc011bpd.1_Silent_p.L616L|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	651										large_intestine(1)|ovary(1)|skin(1)	3						ACGGGGCCTCCAGAATTTGGG	0.428													137	303					0	0	0.01441	0	0		T	167217963	T	T	167217963	2	4	127	1	0	0	0	0	0	0	0	1	17328	581	21	4		4	WDR49	3	167217963	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	9377874	167217963	30804467	259	69339											
PRKCI	5584	broad.mit.edu	37	chr3	169998141	169998141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcgattaaaaaaaacagatCgtatttatgcaatgaaagtt	18	13	6	4	2	0	2	0	1	0	1	2	3	0	2	0	0	2	3	0	0	8	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:169998141C>T	uc003fgs.2	+	9	1070	c.832C>T	c.(832-834)CGT>TGT	p.R278C		NM_002740	NP_002731	P41743	KPCI_HUMAN	protein kinase C, iota	278	Protein kinase.				anti-apoptosis|cellular membrane organization|cellular response to insulin stimulus|establishment or maintenance of epithelial cell apical/basal polarity|intracellular signal transduction|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|protein targeting to membrane|secretion|tight junction assembly|vesicle-mediated transport	cytosol|endosome|nucleus|polarisome	ATP binding|phospholipid binding|protein binding|protein kinase C activity|zinc ion binding			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			AAAAACAGATCGTATTTATGC	0.348													20	82					0	0	0.008871	0	0		T	169998141	T	T	169998141	3	4	127	1	0	0	0	0	1	0	0	0	12536	884	31	1	866	1	PRKCI	3	169998141	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2780178	169998141	28024289	260	69340											
SLC7A14	57709	broad.mit.edu	37	chr3	170244713	170244713	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgggggtccagcgaggtgaAgaagccactcatcttgagcg	9	6	15	11	3	2	3	1	2	1	1	3	4	3	3	3	3	3	0	3	3	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:170244713A>C	uc003fgz.2	-	2	329	c.13T>G	c.(13-15)TTC>GTC	p.F5V	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	5						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			AGCGAGGTGAAGAAGCCACTC	0.567													10	15					0	0	0.006214	0	0		C	170244713	C	C	170244713	3	2	127	1	0	0	0	0	1	0	0	0	14721	72	3	5	2330	5	SLC7A14	3	170244713	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	246572	170244713	27777717	261	69341											
KCNMB2	10242	broad.mit.edu	37	chr3	178546005	178546005	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgcaccttgctgaatgcGtccatcacggaaacatttaa	13	10	7	11	2	1	1	1	1	0	0	2	2	2	2	2	1	4	2	2	1	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:178546005G>A	uc003fjd.2	+	4	610	c.267G>A	c.(265-267)GCG>GCA	p.A89A	uc003fjb.1_Intron|uc003fjc.1_Intron|KCNMB2_uc003fje.2_Silent_p.A89A|KCNMB2_uc003fjf.2_Silent_p.A89A|KCNMB2_uc011bqa.1_Intron|KCNMB2_uc011bqb.1_Intron	NM_181361	NP_852006	Q9Y691	KCMB2_HUMAN	calcium-activated potassium channel beta 2	89	Extracellular (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of vasoconstriction	voltage-gated potassium channel complex	calcium-activated potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(1)	1	all_cancers(143;5.38e-18)|Ovarian(172;0.00769)|Breast(254;0.125)		OV - Ovarian serous cystadenocarcinoma(80;1.32e-27)|GBM - Glioblastoma multiforme(14;0.0321)|BRCA - Breast invasive adenocarcinoma(182;0.0841)			TGCTGAATGCGTCCATCACGG	0.488													17	110					0	0	0.012319	0	0		A	178546005	A	A	178546005	2	1	127	1	0	0	0	0	0	0	0	1	8091	1132	40	1		1	KCNMB2	3	178546005	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	8301292	178546005	19476425	262	69342											
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			21	75					0	0	0.010504	0	0		A	178936091	A	A	178936091	3	1	127	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1667	4	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	390086	178936091	19086339	263	69343											
USP13	8975	broad.mit.edu	37	chr3	179474842	179474842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctcccttaatttccagatCgcctgatgaaccaattgata	11	13	5	12	1	1	4	0	3	1	1	4	4	2	4	4	0	1	0	4	0	4	4	rs149947980		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:179474842C>T	uc003fkh.2	+	16	2005	c.1924C>T	c.(1924-1926)CGC>TGC	p.R642C	USP13_uc003fkf.2_3'UTR	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	642					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			ATTTCCAGATCGCCTGATGAA	0.373													42	313					0	0	0.01441	0	0		T	179474842	T	T	179474842	3	4	127	1	0	0	0	0	1	0	0	0	17070	884	31	1	1986	1	USP13	3	179474842	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	538751	179474842	18547588	264	69344											
ABCF3	55324	broad.mit.edu	37	chr3	183911390	183911390	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctggtgtgccgggagttgtgGgtatgcgaaggaggcggcgt	5	9	21	6	4	0	0	0	0	0	0	0	3	0	2	1	6	2	2	1	6	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:183911390G>A	uc003fmz.2	+	21	2167	c.2034G>A	c.(2032-2034)TGG>TGA	p.W678*	ABCF3_uc003fna.2_Nonsense_Mutation_p.W672*|ABCF3_uc003fnb.2_Nonsense_Mutation_p.W359*	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	678	ABC transporter 2.						ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GGGAGTTGTGGGTATGCGAAG	0.622													43	270					0	0	0.013114	0	0		A	183911390	A	A	183911390	4	1	127	1	0	0	0	0	0	1	0	0	67	1241	43	4	2116	4	ABCF3	3	183911390	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	4436548	183911390	14111040	265	69345											
VPS8	23355	broad.mit.edu	37	chr3	184633161	184633161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtttttgaatttctaattCgcctgcattcagcagaggct	9	15	9	8	1	2	2	1	1	1	1	3	2	2	2	1	2	2	4	1	2	2	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:184633161C>T	uc003fpb.1	+	27	2446	c.2275C>T	c.(2275-2277)CGC>TGC	p.R759C	VPS8_uc010hyd.1_Missense_Mutation_p.R669C|VPS8_uc010hye.1_Missense_Mutation_p.R188C	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	761							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			ATTTCTAATTCGCCTGCATTC	0.363													12	76					0	0	0.010729	0	0		T	184633161	T	T	184633161	3	4	127	1	0	0	0	0	1	0	0	0	17244	884	31	1	2383	1	VPS8	3	184633161	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	721771	184633161	13389269	266	69346											
FETUB	26998	broad.mit.edu	37	chr3	186360309	186360309	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgaacaacccaagtagagTtctctatttagctgcttata	13	14	6	8	0	1	2	0	1	1	1	2	2	1	2	1	0	4	4	1	0	9	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:186360309T>C	uc010hyq.2	+	4	647	c.386T>C	c.(385-387)GTT>GCT	p.V129A	FETUB_uc011brz.1_Intron|FETUB_uc003fqn.2_Missense_Mutation_p.V129A|FETUB_uc003fqo.2_Missense_Mutation_p.V24A|FETUB_uc010hyr.2_Missense_Mutation_p.V92A|FETUB_uc010hys.2_Intron|FETUB_uc003fqp.3_Intron	NM_014375	NP_055190	Q9UGM5	FETUB_HUMAN	fetuin B precursor	129	Cystatin fetuin-B-type 1.					extracellular space	cysteine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0479)		CCAAGTAGAGTTCTCTATTTA	0.343													16	152					0	0	0.003163	0	0		C	186360309	C	C	186360309	3	2	127	1	0	0	0	0	1	0	0	0	5835	1725	60	3	396	3	FETUB	3	186360309	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1727148	186360309	11662121	267	69347											
TP63	8626	broad.mit.edu	37	chr3	189526243	189526243	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccatcccctccaacacCgactacccaggcccgcacag	9	3	6	23	3	0	0	0	0	0	0	2	1	2	0	8	1	2	1	8	1	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:189526243C>T	uc003fry.2	+	4	596	c.507C>T	c.(505-507)ACC>ACT	p.T169T	TP63_uc003frx.2_Silent_p.T169T|TP63_uc003frz.2_Silent_p.T169T|TP63_uc010hzc.1_Silent_p.T169T|TP63_uc003fsa.2_Silent_p.T75T|TP63_uc003fsb.2_Silent_p.T75T|TP63_uc003fsc.2_Silent_p.T75T|TP63_uc003fsd.2_Silent_p.T75T|TP63_uc010hzd.1_Intron|TP63_uc003fse.1_Silent_p.T50T	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	169					anti-apoptosis|cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		CCTCCAACACCGACTACCCAG	0.652									Hay-Wells_syndrome	HNSCC(45;0.13)			13	85					0	0	0.00245	0	0		T	189526243	T	T	189526243	2	4	127	1	0	0	0	0	0	0	0	1	16418	639	23	1		1	TP63	3	189526243	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3165934	189526243	8496187	268	69348											
ACAP2	23527	broad.mit.edu	37	chr3	195022369	195022369	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttgaaaaatgaaccccaaGgctcctaagtggaaaaaaga	18	8	8	7	0	0	3	0	2	0	1	1	4	1	4	3	2	1	1	3	2	8	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:195022369G>T	uc003fun.3	-	15	1571	c.1330C>A	c.(1330-1332)CTT>ATT	p.L444I		NM_012287	NP_036419	Q15057	ACAP2_HUMAN	centaurin, beta 2	444	Arf-GAP.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)	2						TGAACCCCAAGGCTCCTAAGT	0.348													13	80					1.05317e-09	1.13056e-09	0.00245	1	0		T	195022369	T	T	195022369	3	4	127	1	0	0	0	0	1	0	0	0	119	1000	35	5	1042	5	ACAP2	3	195022369	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5496126	195022369	3000061	269	69349											
PPP1R2	5504	broad.mit.edu	37	chr3	195245831	195245831	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaccttgatttgattcttcCgtattcatgctttctccatc	7	19	4	11	1	3	2	1	2	2	0	6	2	4	2	3	0	2	2	3	0	2	8	rs144914044	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:195245831C>T	uc003fup.2	-	5	931	c.555G>A	c.(553-555)ACG>ACA	p.T185T		NM_006241	NP_006232	P41236	IPP2_HUMAN	protein phosphatase 1, regulatory subunit 2	185					glycogen metabolic process|regulation of phosphoprotein phosphatase activity|regulation of signal transduction		protein binding|protein serine/threonine phosphatase inhibitor activity			urinary_tract(1)	1	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)		Epithelial(36;2.64e-22)|all cancers(36;2.69e-20)|OV - Ovarian serous cystadenocarcinoma(49;3.52e-19)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;9.55e-05)		TTGATTCTTCCGTATTCATGC	0.338													81	222					0	0	0.01441	0	0		T	195245831	T	T	195245831	2	4	127	1	0	0	0	0	0	0	0	1	12392	639	23	1		1	PPP1R2	3	195245831	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	223462	195245831	2776599	270	69350											
MUC4	4585	broad.mit.edu	37	chr3	195498524	195498524	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctttgaaaggctcaccTgataaaatgtggtcccccga	11	9	10	11	1	1	2	1	2	0	0	2	3	2	2	3	3	0	2	3	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:195498524T>C	uc011bto.1	-	6	13317	c.12857A>G	c.(12856-12858)CAG>CGG	p.Q4286R	MUC4_uc003fuz.2_Missense_Mutation_p.R94G|MUC4_uc003fva.2_5'UTR|MUC4_uc003fvb.2_5'UTR|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_5'UTR|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_5'UTR|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_5'UTR|MUC4_uc011bti.1_5'UTR|MUC4_uc011btj.1_Missense_Mutation_p.Q155R|MUC4_uc011btk.1_5'UTR|MUC4_uc011btl.1_5'UTR|MUC4_uc011btm.1_Missense_Mutation_p.Q155R|MUC4_uc011btn.1_5'UTR|MUC4_uc003fvo.2_Missense_Mutation_p.Q178R|MUC4_uc003fvp.2_Missense_Mutation_p.Q127R|MUC4_uc010hzu.1_Missense_Mutation_p.Q1026R	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1171	NIDO.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AAGGCTCACCTGATAAAATGT	0.602													12	49					0	0	0.001855	0	0		C	195498524	C	C	195498524	3	2	127	1	0	0	0	0	1	0	0	0	9996	1594	55	3	3081	3	MUC4	3	195498524	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	252693	195498524	2523906	271	69351											
MUC4	4585	broad.mit.edu	37	chr3	195515664	195515664	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggactgttgagaaggtgtcGgttgcctgggacgccaggct	6	9	18	8	2	0	1	0	1	0	1	1	4	0	3	2	5	1	3	2	5	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:195515664G>A	uc011bto.1	-	2	3247	c.2787C>T	c.(2785-2787)ACC>ACT	p.T929T	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Silent_p.T811T	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	934	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGAAGGTGTCGGTTGCCTGGG	0.582													15	67					0	0	0.004007	0	0		A	195515664	A	A	195515664	2	1	127	1	0	0	0	0	0	0	0	1	9996	1103	39	1		1	MUC4	3	195515664	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	17140	195515664	2506766	272	69352											
LRRC33	375387	broad.mit.edu	37	chr3	196386812	196386812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagcgcatcagccgcggcGccttccaggagcaaggtcac	8	5	14	14	4	2	0	2	0	0	0	3	2	3	2	3	4	3	2	3	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr3:196386812G>A	uc003fwv.2	+	3	402	c.298G>A	c.(298-300)GCC>ACC	p.A100T		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	100	Extracellular (Potential).|LRR 2.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		CAGCCGCGGCGCCTTCCAGGA	0.657													14	29					0	0	0.007413	0	0		A	196386812	A	A	196386812	3	1	127	1	0	0	0	0	1	0	0	0	9006	1087	38	1	304	1	LRRC33	3	196386812	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	871148	196386812	1635618	273	69353											
PIGG	54872	broad.mit.edu	37	chr4	515569	515569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtgatcctggttctttcgGccgttcacgtcattgtgtgc	3	16	12	10	3	3	1	2	1	1	0	5	1	4	1	2	3	1	2	2	3	0	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:515569G>A	uc003gak.3	+	8	1589	c.1453G>A	c.(1453-1455)GCC>ACC	p.A485T	PIGG_uc003gaj.3_Missense_Mutation_p.A477T|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Missense_Mutation_p.A352T|PIGG_uc003gal.3_Missense_Mutation_p.A396T|PIGG_uc003gai.2_RNA|PIGG_uc011buw.1_3'UTR|PIGG_uc003gam.2_3'UTR|PIGG_uc003gan.2_Missense_Mutation_p.A396T	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	485	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						GGTTCTTTCGGCCGTTCACGT	0.577													19	83					0	0	0.008871	0	0		A	515569	A	A	515569	3	1	127	1	0	0	0	0	1	0	0	0	11907	1203	42	2	1483	2	PIGG	4	515569	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08		515569	190638707	274	69354											
NOP14	8602	broad.mit.edu	37	chr4	2944054	2944054	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagttcttcccaagcgctCtgaaagggtgcaccagagtg	9	8	12	12	2	2	2	0	1	2	1	3	3	3	2	3	1	2	3	3	1	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:2944054C>A	uc003ggj.1	-	14	1988	c.1916G>T	c.(1915-1917)AGA>ATA	p.R639I	C4orf10_uc003gge.1_Intron|C4orf10_uc003ggh.2_Intron|C4orf10_uc003ggi.1_Intron|NOP14_uc010icp.2_Missense_Mutation_p.R385I|NOP14_uc003ggk.3_Missense_Mutation_p.R639I|NOP14_uc003ggl.2_Missense_Mutation_p.R639I	NM_003703	NP_003694	P78316	NOP14_HUMAN	probable nucleolar complex protein 14	639					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	mitochondrion|Noc4p-Nop14p complex|small-subunit processome	snoRNA binding			pancreas(1)	1						CCCAAGCGCTCTGAAAGGGTG	0.602													18	56					8.00594e-06	8.32312e-06	0.007413	1	0		A	2944054	A	A	2944054	3	1	127	1	0	0	0	0	1	0	0	0	10555	913	32	5	677	5	NOP14	4	2944054	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2428485	2944054	188210222	275	69355											
OTOP1	133060	broad.mit.edu	37	chr4	4190572	4190572	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagagggaggcagctgcgtgCattcgatagaaaatagaaaa	17	6	13	5	2	0	3	0	0	0	3	1	5	0	4	0	2	3	3	0	2	7	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:4190572C>G	uc003ghp.1	-	6	1827	c.1797G>C	c.(1795-1797)ATG>ATC	p.M599I		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	599					biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CAGCTGCGTGCATTCGATAGA	0.458													14	44					0	0	0.004007	0	0		G	4190572	G	G	4190572	3	3	127	1	0	0	0	0	1	0	0	0	11324	710	25	5	45	5	OTOP1	4	4190572	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1246518	4190572	186963704	276	69356											
STK32B	55351	broad.mit.edu	37	chr4	5461854	5461854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccaaggatcctgagagcCgcgtgtccagccttcatgac	9	8	11	13	2	1	3	1	3	0	1	3	5	3	4	5	1	2	0	5	1	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:5461854C>T	uc003gih.1	+	9	872	c.808C>T	c.(808-810)CGC>TGC	p.R270C	STK32B_uc010ida.1_Missense_Mutation_p.R223C	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	270	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						TCCTGAGAGCCGCGTGTCCAG	0.567											OREG0016061	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	55					0	0	0.006122	0	0		T	5461854	T	T	5461854	3	4	127	1	0	0	0	0	1	0	0	0	15323	652	23	1	842	1	STK32B	4	5461854	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1271282	5461854	185692422	277	69357											
JAKMIP1	152789	broad.mit.edu	37	chr4	6107525	6107525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgatcttggcggtgcgcGccgcctcctgctcgtgctgc	1	11	13	16	5	1	1	0	1	1	0	3	1	2	1	4	2	4	2	4	2	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:6107525G>A	uc003giu.3	-	3	575	c.299C>T	c.(298-300)GCG>GTG	p.A100V	JAKMIP1_uc010idb.1_Missense_Mutation_p.A100V|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Missense_Mutation_p.A100V|JAKMIP1_uc011bwc.1_Intron|JAKMIP1_uc003giv.3_Missense_Mutation_p.A100V|JAKMIP1_uc010ide.2_Missense_Mutation_p.A100V	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	100	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GGCGGTGCGCGCCGCCTCCTG	0.682													10	13					0	0	0.013537	0	0		A	6107525	A	A	6107525	3	1	127	1	0	0	0	0	1	0	0	0	7956	1087	38	1	2347	1	JAKMIP1	4	6107525	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	645671	6107525	185046751	278	69358											
KIAA0232	9778	broad.mit.edu	37	chr4	6863563	6863563	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaggatattgacctcactgGgacctcattatgttctctac	9	14	8	10	0	3	2	2	2	1	0	4	4	3	4	2	2	1	1	2	2	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:6863563G>T	uc003gjr.3	+	7	1917	c.1454G>T	c.(1453-1455)GGG>GTG	p.G485V	KIAA0232_uc003gjq.3_Missense_Mutation_p.G485V	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	485							ATP binding			ovary(2)	2						GACCTCACTGGGACCTCATTA	0.363													26	94					4.87955e-14	5.40604e-14	0.005443	1	0		T	6863563	T	T	6863563	3	4	127	1	0	0	0	0	1	0	0	0	8179	1232	43	5	1472	5	KIAA0232	4	6863563	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	756038	6863563	184290713	279	69359											
SH3TC1	54436	broad.mit.edu	37	chr4	8229894	8229894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccggagtccgtgccatcGtggaccacctggtggccctg	4	9	14	14	3	0	0	0	0	0	0	2	2	1	2	6	4	2	0	6	4	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:8229894G>A	uc003gkv.3	+	12	2574	c.2473G>A	c.(2473-2475)GTG>ATG	p.V825M	SH3TC1_uc003gkw.3_Missense_Mutation_p.V749M|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	825							binding			large_intestine(2)|pancreas(1)	3						CCGTGCCATCGTGGACCACCT	0.662													5	22					0	0	0.000602	0	0		A	8229894	A	A	8229894	3	1	127	1	0	0	0	0	1	0	0	0	14286	1145	40	1	2515	1	SH3TC1	4	8229894	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1366331	8229894	182924382	280	69360											
GPR78	27201	broad.mit.edu	37	chr4	8582915	8582915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgctgctcggtgtgatgcGcgggcggacaccgtcggcgc	4	6	17	14	8	0	1	0	1	0	0	2	2	0	2	1	4	2	2	1	4	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:8582915G>A	uc003glk.2	+	1	625	c.206G>A	c.(205-207)CGC>CAC	p.R69H	CPZ_uc003gll.2_RNA	NM_080819	NP_543009	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	69	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(4)|ovary(2)	6						GGTGTGATGCGCGGGCGGACA	0.692													4	23					0	0	0.009096	0	0		A	8582915	A	A	8582915	3	1	127	1	0	0	0	0	1	0	0	0	6725	1087	38	1	208	1	GPR78	4	8582915	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	353021	8582915	182571361	281	69361											
DRD5	1816	broad.mit.edu	37	chr4	9784426	9784426	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcccaggtgcagatccgcaGgatttcctccctggagaggg	7	7	14	13	2	0	2	0	0	0	2	3	4	3	3	4	4	1	2	4	4	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:9784426G>T	uc003gmb.3	+	1	1169	c.773G>T	c.(772-774)AGG>ATG	p.R258M		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	258	Cytoplasmic (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	CAGATCCGCAGGATTTCCTCC	0.632													6	56					1.06961e-07	1.12855e-07	0.00308	1	0		T	9784426	T	T	9784426	3	4	127	1	0	0	0	0	1	0	0	0	4766	1000	35	5	775	5	DRD5	4	9784426	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1201511	9784426	181369850	282	69362											
SLC2A9	56606	broad.mit.edu	37	chr4	9922008	9922008	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccgggccccaggactcaCtgcattgaggccacagagct	9	5	11	16	1	1	2	1	1	0	1	1	3	1	3	5	3	2	2	5	3	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:9922008C>G	uc003gmc.2	-	7	1063	c.1002_splice	c.e7+1	p.A334_splice	SLC2A9_uc003gmd.2_Splice_Site_p.A305_splice	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein						glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						CCAGGACTCACTGCATTGAGG	0.512													6	30					0	0	0.001168	0	0		G	9922008	G	G	9922008	5	3	127	1	0	0	0	0	0	0	1	0	14577	579	20	5	643	5	SLC2A9	4	9922008	Splice_Site	SNP	C	TCGA-CG-4305-01A-01D-1158-08	137582	9922008	181232268	283	69363											
CPEB2	132864	broad.mit.edu	37	chr4	15054158	15054158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatggagagcgaatagaacGcttctctcgaaaagtttttg	14	11	10	6	3	1	2	0	0	1	2	3	5	1	2	0	1	2	2	0	1	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:15054158G>A	uc003gni.1	+	6	1073	c.986G>A	c.(985-987)CGC>CAC	p.R329H	CPEB2_uc003gnj.1_Missense_Mutation_p.R299H|CPEB2_uc003gnk.1_Missense_Mutation_p.R337H|CPEB2_uc003gnl.1_Missense_Mutation_p.R310H|CPEB2_uc003gnm.1_Missense_Mutation_p.R307H|CPEB2_uc003gnn.1_Missense_Mutation_p.R302H	NM_182485	NP_872291	Q7Z5Q1	CPEB2_HUMAN	cytoplasmic polyadenylation element binding	329					regulation of translation	cytoplasm	nucleotide binding|RNA binding			skin(1)	1						CGAATAGAACGCTTCTCTCGA	0.368													28	117					0	0	0.004656	0	0		A	15054158	A	A	15054158	3	1	127	1	0	0	0	0	1	0	0	0	3804	1087	38	1	2356	1	CPEB2	4	15054158	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5132150	15054158	176100118	284	69364											
C1QTNF7	114905	broad.mit.edu	37	chr4	15444376	15444376	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccgggtttctcttatacGttgacacagattacctagat	9	15	7	10	2	2	3	0	1	2	2	4	3	2	3	2	1	2	2	2	1	4	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:15444376G>A	uc011bxb.1	+	3	1050	c.823G>A	c.(823-825)GTT>ATT	p.V275I	C1QTNF7_uc003gno.2_Missense_Mutation_p.V282I|C1QTNF7_uc003gnp.2_Missense_Mutation_p.V275I	NM_001135171	NP_001128643	Q9BXJ2	C1QT7_HUMAN	C1q and tumor necrosis factor related protein 7	275	C1q.					collagen					0						TCTCTTATACGTTGACACAGA	0.448													38	115					0	0	0.005524	0	0		A	15444376	A	A	15444376	3	1	127	1	0	0	0	0	1	0	0	0	1971	1145	40	1	854	1	C1QTNF7	4	15444376	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	390218	15444376	175709900	285	69365											
CC2D2A	57545	broad.mit.edu	37	chr4	15529170	15529170	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagggttaatcttcactcAtcatccctgttttagccgag	8	15	7	11	1	5	0	4	0	1	0	6	1	6	0	2	1	1	2	2	1	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:15529170A>G	uc010idv.2	+	13	1495	c.1250A>G	c.(1249-1251)CAT>CGT	p.H417R	CC2D2A_uc003gnx.2_Missense_Mutation_p.H368R|CC2D2A_uc003gnv.2_Missense_Mutation_p.H417R	NM_001080522	NP_001073991	Q9P2K1	C2D2A_HUMAN	coiled-coil and C2 domain containing 2A isoform	417					cell projection organization	cilium|microtubule basal body				pancreas(2)|ovary(1)	3						ATCTTCACTCATCATCCCTGT	0.443													4	28					0	0	0.009096	0	0		G	15529170	G	G	15529170	3	3	127	1	0	0	0	0	1	0	0	0	2731	217	8	3	1495	3	CC2D2A	4	15529170	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	84794	15529170	175625106	286	69366											
CD38	952	broad.mit.edu	37	chr4	15780178	15780178	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggtcgtcccgaggtggcgCcagcagtggagcggtccggg	4	6	20	11	5	0	0	0	0	0	0	3	2	2	1	3	6	2	1	3	6	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:15780178C>T	uc011bxc.1	+	1	248	c.141C>T	c.(139-141)CGC>CGT	p.R47R	CD38_uc003goj.1_Silent_p.R47R|CD38_uc003gol.1_Silent_p.R47R	NM_001775	NP_001766	P28907	CD38_HUMAN	CD38 antigen	47	Extracellular (Potential).				B cell receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of apoptosis|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of transcription, DNA-dependent|response to drug	integral to membrane|plasma membrane	binding|NAD+ nucleosidase activity|receptor activity			ovary(2)	2						CGAGGTGGCGCCAGCAGTGGA	0.627													45	130					0	0	0.01441	0	0		T	15780178	T	T	15780178	2	4	127	1	0	0	0	0	0	0	0	1	3012	726	26	2		2	CD38	4	15780178	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	251008	15780178	175374098	287	69367											
CD38	952	broad.mit.edu	37	chr4	15826541	15826541	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataaaagatctggcccatcAgttcacacaggtccagcggg	13	7	10	11	1	3	1	2	0	1	1	4	1	4	1	2	3	1	1	2	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:15826541A>G	uc011bxc.1	+	3	508	c.401A>G	c.(400-402)CAG>CGG	p.Q134R	CD38_uc003goj.1_Missense_Mutation_p.Q134R|CD38_uc003gol.1_Missense_Mutation_p.Q134R	NM_001775	NP_001766	P28907	CD38_HUMAN	CD38 antigen	134	Extracellular (Potential).				B cell receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of apoptosis|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of transcription, DNA-dependent|response to drug	integral to membrane|plasma membrane	binding|NAD+ nucleosidase activity|receptor activity			ovary(2)	2						CTGGCCCATCAGTTCACACAG	0.378													19	79					0	0	0.008871	0	0		G	15826541	G	G	15826541	3	3	127	1	0	0	0	0	1	0	0	0	3012	188	7	3	411	3	CD38	4	15826541	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	46363	15826541	175327735	288	69368											
SLIT2	9353	broad.mit.edu	37	chr4	20487859	20487859	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacattactagactttctgtGgcaagtttcaaccatatgcc	12	13	6	10	0	2	1	1	0	1	1	2	1	2	1	2	1	4	2	2	1	6	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:20487859G>A	uc003gpr.1	+	7	780	c.576G>A	c.(574-576)GTG>GTA	p.V192V	SLIT2_uc003gps.1_Silent_p.V192V	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	192	LRR 6.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GACTTTCTGTGGCAAGTTTCA	0.274													6	41					0	0	0.00308	0	0		A	20487859	A	A	20487859	2	1	127	1	0	0	0	0	0	0	0	1	14765	1335	47	4		4	SLIT2	4	20487859	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	4661318	20487859	170666417	289	69369											
DHX15	1665	broad.mit.edu	37	chr4	24541861	24541861	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaattcagtcagatctccAtcatcatttaaagcagccag	13	10	5	13	0	5	1	4	0	1	1	6	1	5	1	3	0	2	1	3	0	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:24541861A>G	uc003gqx.2	-	10	1824	c.1656T>C	c.(1654-1656)GAT>GAC	p.D552D	DHX15_uc003gqw.2_5'Flank	NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	552					mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				TCAGATCTCCATCATCATTTA	0.418													32	119					0	0	0.00623	0	0		G	24541861	G	G	24541861	2	3	127	1	0	0	0	0	0	0	0	1	4507	214	8	3		3	DHX15	4	24541861	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	4054002	24541861	166612415	290	69370											
DHX15	1665	broad.mit.edu	37	chr4	24556348	24556348	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaaaattaaaacaatacCtcttgaccagttaagaaaag	21	8	6	6	0	1	3	0	1	1	2	1	4	1	3	2	0	2	1	2	0	10	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:24556348C>A	uc003gqx.2	-	5	1248	c.1080G>T	c.(1078-1080)GAG>GAT	p.E360D		NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	360	Helicase C-terminal.				mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				AAAACAATACCTCTTGACCAG	0.313													26	134					1.64293e-13	1.81736e-13	0.00333	1	0		A	24556348	A	A	24556348	3	1	127	1	0	0	0	0	1	0	0	0	4507	695	24	5	1347	5	DHX15	4	24556348	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	14487	24556348	166597928	291	69371											
SEL1L3	23231	broad.mit.edu	37	chr4	25823650	25823650	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagactgcgaaggcgatagtActtcaggggtccaaaaaacc	14	6	11	10	2	1	1	1	0	0	1	2	3	2	1	2	3	3	1	2	3	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:25823650A>G	uc003gru.3	-	7	1410	c.1258T>C	c.(1258-1260)TAC>CAC	p.Y420H		NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	420						integral to membrane	binding				0						AGGCGATAGTACTTCAGGGGT	0.552													5	39					0	0	0.000602	0	0		G	25823650	G	G	25823650	3	3	127	1	0	0	0	0	1	0	0	0	14037	391	14	3	2212	3	SEL1L3	4	25823650	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1267302	25823650	165330626	292	69372											
TBC1D19	55296	broad.mit.edu	37	chr4	26675418	26675418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctagcagaacaagatagtGctgctgctcaacagtacatc	13	10	8	10	0	2	2	1	0	1	2	3	2	2	2	0	0	7	5	0	0	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:26675418G>A	uc003gsf.3	+	11	994	c.724G>A	c.(724-726)GCT>ACT	p.A242T	TBC1D19_uc010iew.2_Missense_Mutation_p.A242T|TBC1D19_uc011bxu.1_Missense_Mutation_p.A177T	NM_018317	NP_060787	Q8N5T2	TBC19_HUMAN	TBC1 domain family, member 19	242						intracellular	Rab GTPase activator activity			breast(1)	1		Breast(46;0.0503)				ACAAGATAGTGCTGCTGCTCA	0.378													9	23					0	0	0.008291	0	0		A	26675418	A	A	26675418	3	1	127	1	0	0	0	0	1	0	0	0	15632	1319	46	2	766	2	TBC1D19	4	26675418	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	851768	26675418	164478858	293	69373											
ARAP2	116984	broad.mit.edu	37	chr4	36081901	36081901	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaactatcacaacacaggtgCctgcaaaacgaggtttataa	16	8	8	9	1	1	0	1	0	0	0	1	2	1	0	1	2	5	2	1	2	7	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:36081901C>T	uc003gsq.1	-	31	4883	c.4545G>A	c.(4543-4545)TGG>TGA	p.W1515*		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1515	PH 5.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						AACACAGGTGCCTGCAAAACG	0.398													8	52					0	0	0.00308	0	0		T	36081901	T	T	36081901	4	4	127	1	0	0	0	0	0	1	0	0	839	753	26	2	581	2	ARAP2	4	36081901	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	9406483	36081901	155072375	294	69374											
KLB	152831	broad.mit.edu	37	chr4	39409119	39409119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttctggacgctctagtgCttagaaacattgaacctata	11	13	7	10	1	3	2	0	1	3	1	3	3	3	3	1	1	3	2	1	1	6	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:39409119C>T	uc003gua.2	+	1	647	c.550C>T	c.(550-552)CTT>TTT	p.L184F	KLB_uc011byj.1_Missense_Mutation_p.L184F	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	184	Extracellular (Potential).|Glycosyl hydrolase-1 1.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						CGCTCTAGTGCTTAGAAACAT	0.403													46	141					0	0	0.01441	0	0		T	39409119	T	T	39409119	3	4	127	1	0	0	0	0	1	0	0	0	8348	797	28	2	552	2	KLB	4	39409119	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3327218	39409119	151745157	295	69375											
N4BP2	55728	broad.mit.edu	37	chr4	40122019	40122019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagaaagagcaacagtaaCgaaaaaagcctttgggaaac	20	4	11	6	1	0	2	0	0	0	2	0	5	0	4	1	2	5	2	1	2	8	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:40122019C>T	uc003guy.3	+	9	2626	c.2288C>T	c.(2287-2289)ACG>ATG	p.T763M	N4BP2_uc010ifq.2_Missense_Mutation_p.T683M|N4BP2_uc010ifr.2_Missense_Mutation_p.T683M	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	763						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						GCAACAGTAACGAAAAAAGCC	0.373													26	92					0	0	0.00333	0	0		T	40122019	T	T	40122019	3	4	127	1	0	0	0	0	1	0	0	0	10128	536	19	1	2314	1	N4BP2	4	40122019	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	712900	40122019	151032257	296	69376											
LIMCH1	22998	broad.mit.edu	37	chr4	41678464	41678464	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaatggcaacaggaacaGgaacgtttgctccaggtagg	15	6	13	7	1	0	0	0	0	0	0	1	3	1	2	1	5	4	4	1	5	6	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:41678464G>A	uc003gvu.3	+	18	2406	c.2352G>A	c.(2350-2352)CAG>CAA	p.Q784Q	LIMCH1_uc003gvv.3_Silent_p.Q784Q|LIMCH1_uc003gvw.3_Silent_p.Q783Q|LIMCH1_uc003gvx.3_Silent_p.Q796Q|LIMCH1_uc003gwe.3_Intron|LIMCH1_uc003gvy.3_Silent_p.Q612Q|LIMCH1_uc003gwa.3_Silent_p.Q624Q|LIMCH1_uc003gvz.3_Silent_p.Q1168Q|LIMCH1_uc011byu.1_Silent_p.Q617Q|LIMCH1_uc003gwc.3_Silent_p.Q629Q|LIMCH1_uc003gwd.3_Silent_p.Q617Q|LIMCH1_uc011byv.1_Silent_p.Q534Q|LIMCH1_uc011byw.1_Silent_p.Q83Q	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	784	Glu-rich.				actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						AACAGGAACAGGAACGTTTGC	0.423													8	53					0	0	0.004482	0	0		A	41678464	A	A	41678464	2	1	127	1	0	0	0	0	0	0	0	1	8813	991	35	4		4	LIMCH1	4	41678464	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1556445	41678464	149475812	297	69377											
PDGFRA	5156	broad.mit.edu	37	chr4	55133804	55133804	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacattttgttgtagaggtGcgggcctacccacctcccag	9	10	10	12	1	0	1	0	0	0	1	1	1	1	1	4	2	3	2	4	2	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:55133804G>A	uc003han.3	+	7	1348	c.1017G>A	c.(1015-1017)GTG>GTA	p.V339V	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Silent_p.V233V|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	339	Ig-like C2-type 4.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	TTGTAGAGGTGCGGGCCTACC	0.448			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			11	71					0	0	0.008291	0	0		A	55133804	A	A	55133804	2	1	127	1	0	0	0	0	0	0	0	1	11680	1306	46	2		2	PDGFRA	4	55133804	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	13455340	55133804	136020472	298	69378											
KIAA1211	57482	broad.mit.edu	37	chr4	57179385	57179385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctcccgttaaaccgtctcGgccaaaaaggcacttctctt	9	11	7	14	3	2	0	0	0	2	0	5	0	3	0	3	2	2	3	3	2	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:57179385G>A	uc003hbk.2	+	7	768	c.377G>A	c.(376-378)CGG>CAG	p.R126Q	KIAA1211_uc010iha.2_Missense_Mutation_p.R119Q|KIAA1211_uc011bzz.1_Missense_Mutation_p.R36Q|KIAA1211_uc003hbm.1_Missense_Mutation_p.R12Q	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	126										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					AAACCGTCTCGGCCAAAAAGG	0.537													55	227					0	0	0.01441	0	0		A	57179385	A	A	57179385	3	1	127	1	0	0	0	0	1	0	0	0	8231	1116	39	1	391	1	KIAA1211	4	57179385	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2045581	57179385	133974891	299	69379											
LPHN3	23284	broad.mit.edu	37	chr4	62453059	62453059	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcatgatagaaagtgccaActatggcaggactgatgaca	15	8	10	8	0	1	4	1	3	0	1	1	5	1	5	1	2	2	1	1	2	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:62453059A>C	uc010ihh.2	+	2	343	c.170A>C	c.(169-171)AAC>ACC	p.N57T	LPHN3_uc003hcq.3_Missense_Mutation_p.N57T|LPHN3_uc010ihg.1_Missense_Mutation_p.N125T	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	57	SUEL-type lectin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GAAAGTGCCAACTATGGCAGG	0.463													9	17					0	0	0.006214	0	0		C	62453059	C	C	62453059	3	2	127	1	0	0	0	0	1	0	0	0	8935	43	2	5	176	5	LPHN3	4	62453059	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5273674	62453059	128701217	300	69380											
EPHA5	2044	broad.mit.edu	37	chr4	66233108	66233108	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgcatcttttcctcttCtggatcttgttttgctttgc	6	20	6	9	0	4	0	0	0	4	0	5	1	5	1	1	1	3	3	1	1	2	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:66233108C>A	uc003hcy.2	-	10	2084	c.1891G>T	c.(1891-1893)GAA>TAA	p.E631*	EPHA5_uc003hcx.2_Nonsense_Mutation_p.E563*|EPHA5_uc003hcz.2_Nonsense_Mutation_p.E609*|EPHA5_uc011cah.1_Nonsense_Mutation_p.E632*|EPHA5_uc011cai.1_Nonsense_Mutation_p.E610*|EPHA5_uc003hda.2_Nonsense_Mutation_p.E632*	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	631	Cytoplasmic (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TTTTCCTCTTCTGGATCTTGT	0.358										TSP Lung(17;0.13)			13	59					1.61879e-10	1.75369e-10	0.013537	1	0		A	66233108	A	A	66233108	4	1	127	1	0	0	0	0	0	1	0	0	5178	922	32	5	1258	5	EPHA5	4	66233108	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3780049	66233108	124921168	301	69381											
YTHDC1	91746	broad.mit.edu	37	chr4	69182138	69182138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgatagtaaggatggtgtGgaggttgttccattcctggg	7	13	16	5	0	0	1	0	1	0	0	2	3	2	3	2	5	0	4	2	5	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:69182138G>A	uc003hdx.2	-	16	2206	c.1853C>T	c.(1852-1854)CCA>CTA	p.P618L	YTHDC1_uc003hdy.2_Missense_Mutation_p.P600L	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	618	Pro-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						AGGATGGTGTGGAGGTTGTTC	0.443													31	165					0	0	0.009535	0	0		A	69182138	A	A	69182138	3	1	127	1	0	0	0	0	1	0	0	0	17522	1348	47	4	338	4	YTHDC1	4	69182138	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2949030	69182138	121972138	302	69382											
NUP54	53371	broad.mit.edu	37	chr4	77053839	77053839	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttgaagtaccatttggCgaacgctcaacaacataaat	14	11	6	10	2	2	1	1	1	1	0	2	2	2	1	1	1	4	2	1	1	7	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:77053839C>T	uc003hjs.2	-	6	872	c.744G>A	c.(742-744)TCG>TCA	p.S248S	NUP54_uc010ije.2_5'UTR|NUP54_uc011cbs.1_Silent_p.S68S|NUP54_uc011cbt.1_Silent_p.S200S|NUP54_uc003hjt.2_Silent_p.S68S	NM_017426	NP_059122	Q7Z3B4	NUP54_HUMAN	nucleoporin 54kDa	248	9 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|mRNA transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleoplasm				ovary(1)|lung(1)	2						TACCATTTGGCGAACGCTCAA	0.373													28	100					0	0	0.005443	0	0		T	77053839	T	T	77053839	2	4	127	1	0	0	0	0	0	0	0	1	10786	755	27	1		1	NUP54	4	77053839	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7871701	77053839	114100437	303	69383											
FRAS1	80144	broad.mit.edu	37	chr4	79400860	79400860	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacacggctttcactgtcAgtgaggacgcaggtaatgga	11	8	13	9	2	2	1	2	1	0	0	2	3	2	3	0	4	1	4	0	4	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:79400860A>C	uc003hlb.2	+	56	8871	c.8431A>C	c.(8431-8433)AGT>CGT	p.S2811R		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2806	Calx-beta 3.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TTTCACTGTCAGTGAGGACGC	0.522													4	42					0	0	0.000602	0	0		C	79400860	C	C	79400860	3	2	127	1	0	0	0	0	1	0	0	0	6056	188	7	5	8728	5	FRAS1	4	79400860	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2347021	79400860	111753416	304	69384											
SEC31A	22872	broad.mit.edu	37	chr4	83748700	83748700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactggagctgaaggctgtTgctgcagcatttgtgactgg	7	12	15	7	0	0	2	0	2	0	0	0	3	0	3	0	3	5	7	0	3	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:83748700T>C	uc003hnf.2	-	24	3277	c.3113A>G	c.(3112-3114)CAA>CGA	p.Q1038R	SEC31A_uc003hnd.2_Missense_Mutation_p.Q207R|SEC31A_uc003hne.2_Missense_Mutation_p.Q787R|SEC31A_uc011ccl.1_Missense_Mutation_p.Q984R|SEC31A_uc003hnl.2_Missense_Mutation_p.Q885R|SEC31A_uc003hng.2_Missense_Mutation_p.Q1023R|SEC31A_uc003hnh.2_Missense_Mutation_p.Q1038R|SEC31A_uc003hni.2_Missense_Mutation_p.Q924R|SEC31A_uc003hnj.2_Missense_Mutation_p.Q999R|SEC31A_uc011ccm.1_Missense_Mutation_p.Q1018R|SEC31A_uc011ccn.1_Missense_Mutation_p.Q1023R|SEC31A_uc003hnk.2_Missense_Mutation_p.Q999R|SEC31A_uc003hnm.2_Missense_Mutation_p.Q1038R	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	1038	Interaction with PDCD6.|Pro-rich.				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				TGAAGGCTGTTGCTGCAGCAT	0.522													41	156					0	0	0.00874	0	0		C	83748700	C	C	83748700	3	2	127	1	0	0	0	0	1	0	0	0	14023	1812	63	3	565	3	SEC31A	4	83748700	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	4347840	83748700	107405576	305	69385											
MEPE	56955	broad.mit.edu	37	chr4	88766899	88766899	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcccaagtgaagctgagagTactcatcttgacacaaaaaa	16	7	9	9	0	2	3	1	3	1	1	2	4	2	3	1	1	2	2	1	1	6	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:88766899T>C	uc003hqy.2	+	4	918	c.879T>C	c.(877-879)AGT>AGC	p.S293S	MEPE_uc010ikn.2_Silent_p.S180S	NM_020203	NP_064588	Q9NQ76	MEPE_HUMAN	matrix, extracellular phosphoglycoprotein with	293					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			ovary(1)|lung(1)|skin(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000432)		AAGCTGAGAGTACTCATCTTG	0.433													19	74					0	0	0.006122	0	0		C	88766899	C	C	88766899	2	2	127	1	0	0	0	0	0	0	0	1	9496	1635	57	3		3	MEPE	4	88766899	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	5018199	88766899	102387377	306	69386											
HERC5	51191	broad.mit.edu	37	chr4	89380524	89380524	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaattaggaaaaaacatgAagatacattccgtggaccaa	19	9	7	6	1	0	2	0	1	0	1	1	4	1	4	2	2	2	0	2	2	9	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:89380524A>G	uc003hrt.2	+	2	445	c.292A>G	c.(292-294)AAG>GAG	p.K98E		NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	98	RCC1 1.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		AAAAAACATGAAGATACATTC	0.353													31	110					0	0	0.008361	0	0		G	89380524	G	G	89380524	3	3	127	1	0	0	0	0	1	0	0	0	7077	247	9	3	298	3	HERC5	4	89380524	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	613625	89380524	101773752	307	69387											
RAP1GDS1	5910	broad.mit.edu	37	chr4	99363141	99363141	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatttttttgtcttccagAatgtctacacaaggaagtac	11	16	7	7	0	2	1	0	0	2	1	3	2	3	2	1	1	2	2	1	1	6	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:99363141A>C	uc003htx.3	+	15	1887	c.1697A>C	c.(1696-1698)GAA>GCA	p.E566A	RAP1GDS1_uc003htw.3_Missense_Mutation_p.E567A|RAP1GDS1_uc003htv.3_Missense_Mutation_p.E566A|RAP1GDS1_uc003htz.3_Missense_Mutation_p.E517A|RAP1GDS1_uc003hty.3_Missense_Mutation_p.E518A|RAP1GDS1_uc003hua.3_Missense_Mutation_p.E475A	NM_001100427	NP_001093897	P52306	GDS1_HUMAN	RAP1, GTP-GDP dissociation stimulator 1 isoform	566							binding|GTPase activator activity			ovary(1)|lung(1)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;2.9e-07)|LUSC - Lung squamous cell carcinoma(1;0.0253)|Lung(1;0.0576)		TGTCTTCCAGAATGTCTACAC	0.363			T	NUP98	T-ALL								12	39					0	0	0.001855	0	0		C	99363141	C	C	99363141	3	2	127	1	0	0	0	0	1	0	0	0	13064	260	9	5	1758	5	RAP1GDS1	4	99363141	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	9982617	99363141	91791135	308	69388											
SEC24B	10427	broad.mit.edu	37	chr4	110437687	110437687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttttattcctttcagctgCgtcctcctcaacctgcagtt	6	17	5	13	1	2	0	2	0	0	0	5	0	5	0	4	0	4	3	4	0	2	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:110437687C>T	uc003hzk.2	+	11	2072	c.2017C>T	c.(2017-2019)CGT>TGT	p.R673C	SEC24B_uc003hzl.2_Missense_Mutation_p.R638C|SEC24B_uc011cfp.1_Missense_Mutation_p.R703C|SEC24B_uc011cfq.1_Missense_Mutation_p.R672C|SEC24B_uc011cfr.1_Missense_Mutation_p.R637C	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	673					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		CTTTCAGCTGCGTCCTCCTCA	0.318													5	41					0	0	0.000602	0	0		T	110437687	T	T	110437687	3	4	127	1	0	0	0	0	1	0	0	0	14020	768	27	1	2059	1	SEC24B	4	110437687	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	11074546	110437687	80716589	309	69389											
CFI	3426	broad.mit.edu	37	chr4	110682737	110682737	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccatagttcttctcttagtAaaagtacattcagccaaact	13	13	4	11	0	3	0	1	0	2	0	4	0	3	0	2	0	3	3	2	0	6	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:110682737A>G	uc003hzr.3	-	4	802	c.594T>C	c.(592-594)TTT>TTC	p.F198F	CFI_uc003hzq.2_5'UTR|CFI_uc011cft.1_Silent_p.F198F|CFI_uc003hzs.3_Silent_p.F198F	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	198	SRCR.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		TTCTCTTAGTAAAAGTACATT	0.398													37	160					0	0	0.004878	0	0		G	110682737	G	G	110682737	2	3	127	1	0	0	0	0	0	0	0	1	3292	359	13	3		3	CFI	4	110682737	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	245050	110682737	80471539	310	69390											
C4orf21	55345	broad.mit.edu	37	chr4	113539186	113539186	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaagcaaaatcatagttaAttctgacttcttgaataggt	15	14	7	5	0	3	2	1	2	2	0	3	2	3	2	0	1	1	3	0	1	8	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:113539186A>T	uc003iau.2	-	6	2223	c.2012T>A	c.(2011-2013)ATT>AAT	p.I671N	C4orf21_uc003iaw.2_Missense_Mutation_p.I671N	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		ATCATAGTTAATTCTGACTTC	0.303													32	85					0	0	0.008361	0	0		T	113539186	T	T	113539186	3	4	127	1	0	0	0	0	1	0	0	0	2257	101	4	5	4394	5	C4orf21	4	113539186	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2856449	113539186	77615090	311	69391											
ANK2	287	broad.mit.edu	37	chr4	114290799	114290799	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtacctccagaccccaacAtccagcgagcggggaggctc	9	5	11	16	2	0	1	0	0	0	1	3	3	2	2	5	3	4	2	5	3	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:114290799A>T	uc003ibe.3	+	43	11548	c.11448A>T	c.(11446-11448)ACA>ACT	p.T3816T	ANK2_uc003ibd.3_Silent_p.T1722T|ANK2_uc003ibf.3_Silent_p.T1731T|ANK2_uc011cgc.1_Silent_p.T907T|ANK2_uc003ibg.3_Silent_p.T715T|ANK2_uc003ibh.3_Silent_p.T405T|ANK2_uc011cgd.1_Silent_p.T1118T	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3783					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AGACCCCAACATCCAGCGAGC	0.567													11	76					0	0	0.010729	0	0		T	114290799	T	T	114290799	2	4	127	1	0	0	0	0	0	0	0	1	621	204	8	5		5	ANK2	4	114290799	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	751613	114290799	76863477	312	69392											
NDST4	64579	broad.mit.edu	37	chr4	115997561	115997561	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaggaagagggcctttcTcaaccttgggggctttggta	7	10	13	11	0	1	1	1	0	1	1	2	2	1	2	4	5	1	2	4	5	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:115997561T>G	uc003ibu.2	-	2	1311	c.632A>C	c.(631-633)GAG>GCG	p.E211A	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	211	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		AGGGCCTTTCTCAACCTTGGG	0.408													27	129					0	0	0.007291	0	0		G	115997561	G	G	115997561	3	3	127	1	0	0	0	0	1	0	0	0	10277	1551	54	5	2038	5	NDST4	4	115997561	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1706762	115997561	75156715	313	69393											
SYNPO2	171024	broad.mit.edu	37	chr4	119951913	119951913	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcccagccagccttttaCgattcgtctgagcgaatagc	8	11	10	12	3	1	1	0	1	1	0	3	3	2	1	3	1	5	0	3	1	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:119951913C>T	uc003icm.3	+	4	2179	c.1983C>T	c.(1981-1983)TAC>TAT	p.Y661Y	SYNPO2_uc010ina.2_Silent_p.Y661Y|SYNPO2_uc010inb.2_Silent_p.Y661Y|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Silent_p.Y589Y	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	661						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						CAGCCTTTTACGATTCGTCTG	0.572													16	51					0	0	0.010504	0	0		T	119951913	T	T	119951913	2	4	127	1	0	0	0	0	0	0	0	1	15482	547	19	1		1	SYNPO2	4	119951913	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3954352	119951913	71202363	314	69394											
PCDH10	57575	broad.mit.edu	37	chr4	134071388	134071388	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaggagcaggaacatggCactttcgtggggaatatcgc	11	7	15	8	2	0	0	0	0	0	0	2	4	0	4	0	6	2	2	0	6	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:134071388C>T	uc003iha.2	+	1	919	c.93C>T	c.(91-93)GGC>GGT	p.G31G	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.G31G	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	31	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AGGAACATGGCACTTTCGTGG	0.493													27	158					0	0	0.009535	0	0		T	134071388	T	T	134071388	2	4	127	1	0	0	0	0	0	0	0	1	11526	697	25	2		2	PCDH10	4	134071388	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	14119475	134071388	57082888	315	69395											
FBXW7	55294	broad.mit.edu	37	chr4	153245514	153245514	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacacggattgatgtatcAagagatccactcaccacatg	15	8	7	11	1	2	2	2	1	0	1	3	4	3	3	2	1	1	1	2	1	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:153245514A>G	uc003ims.2	-	11	1826	c.1677T>C	c.(1675-1677)CTT>CTC	p.L559L	FBXW7_uc011cii.1_Silent_p.L559L|FBXW7_uc003imt.2_Silent_p.L559L|FBXW7_uc011cih.1_Silent_p.L383L|FBXW7_uc003imq.2_Silent_p.L479L|FBXW7_uc003imr.2_Silent_p.L441L	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	559	WD 5.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TTGATGTATCAAGAGATCCAC	0.398			Mis|N|D|F		colorectal|endometrial|T-ALL								8	22					0	0	0.00308	0	0		G	153245514	G	G	153245514	2	3	127	1	0	0	0	0	0	0	0	1	5783	117	5	3		3	FBXW7	4	153245514	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	19174126	153245514	37908762	316	69396											
RNF175	285533	broad.mit.edu	37	chr4	154649450	154649450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccacatagacagaaaccGccaccagtataattttatcg	14	8	5	14	2	0	2	0	0	0	2	1	2	0	2	5	0	1	1	5	0	5	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:154649450G>A	uc003int.2	-	4	683	c.310C>T	c.(310-312)CGG>TGG	p.R104W	RNF175_uc003inu.1_Intron	NM_173662	NP_775933	Q8N4F7	RN175_HUMAN	ring finger protein 175	104	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(1)|pancreas(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				GACAGAAACCGCCACCAGTAT	0.448													27	116					0	0	0.00632	0	0		A	154649450	A	A	154649450	3	1	127	1	0	0	0	0	1	0	0	0	13488	1086	38	1	700	1	RNF175	4	154649450	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1403936	154649450	36504826	317	69397											
DCHS2	54798	broad.mit.edu	37	chr4	155163803	155163803	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcacacttaccttctgtaaTttccactgcttcagagggga	9	13	8	11	0	3	1	2	0	1	1	4	2	4	2	2	2	2	2	2	2	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:155163803T>C	uc003inw.2	-	22	5698	c.5698A>G	c.(5698-5700)ATT>GTT	p.I1900V		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1900	Cadherin 17.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CCTTCTGTAATTTCCACTGCT	0.308													29	139					0	0	0.013726	0	0		C	155163803	C	C	155163803	3	2	127	1	0	0	0	0	1	0	0	0	4291	1493	52	3	3068	3	DCHS2	4	155163803	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	514353	155163803	35990473	318	69398											
PLRG1	5356	broad.mit.edu	37	chr4	155463418	155463418	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatcgaacccagccaagaTgcccactgataacctgtata	14	8	6	13	1	0	2	0	1	0	1	1	3	0	2	4	0	5	1	4	0	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:155463418T>C	uc003iny.2	-	8	671	c.608A>G	c.(607-609)CAT>CGT	p.H203R	PLRG1_uc003inz.2_Missense_Mutation_p.H194R|PLRG1_uc011cil.1_Missense_Mutation_p.H42R	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	203	WD 1.					catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				CCAGCCAAGATGCCCACTGAT	0.403													8	65					0	0	0.008291	0	0		C	155463418	C	C	155463418	3	2	127	1	0	0	0	0	1	0	0	0	12125	1464	51	3	968	3	PLRG1	4	155463418	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	299615	155463418	35690858	319	69399											
TRIM60	166655	broad.mit.edu	37	chr4	165961252	165961252	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgacagccctggtgaacCtccaagaggagtctagctgt	9	10	12	10	0	1	3	0	2	1	1	2	4	2	4	3	2	3	1	3	2	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:165961252C>A	uc003iqy.1	+	3	198	c.28C>A	c.(28-30)CTC>ATC	p.L10I	TRIM60_uc010iqx.1_Missense_Mutation_p.L10I	NM_152620	NP_689833	Q495X7	TRI60_HUMAN	ring finger protein 129	10						intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0844)		CCTGGTGAACCTCCAAGAGGA	0.522													14	62					2.32078e-09	2.48568e-09	0.003163	1	0		A	165961252	A	A	165961252	3	1	127	1	0	0	0	0	1	0	0	0	16561	681	24	5	30	5	TRIM60	4	165961252	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	10497834	165961252	25193024	320	69400											
WDR17	116966	broad.mit.edu	37	chr4	177056319	177056319	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgatcctaatcttttagcaAcagcttcatttgatggcact	11	14	6	10	1	2	1	1	1	1	0	3	2	3	1	1	1	3	3	1	1	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:177056319A>G	uc003iuj.2	+	9	1387	c.1231A>G	c.(1231-1233)ACA>GCA	p.T411A	WDR17_uc003iuk.2_Missense_Mutation_p.T387A|WDR17_uc003ium.3_Missense_Mutation_p.T387A|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	411	WD 6.									ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TCTTTTAGCAACAGCTTCATT	0.363													6	222					0	0	0.001168	0	0		G	177056319	G	G	177056319	3	3	127	1	0	0	0	0	1	0	0	0	17303	43	2	3	1261	3	WDR17	4	177056319	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	11095067	177056319	14097957	321	69401											
VEGFC	7424	broad.mit.edu	37	chr4	177649058	177649058	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtcgcgactccaaactcCttccccacatctatacacac	10	11	3	17	2	1	0	0	0	1	0	5	1	4	0	4	0	2	0	4	0	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:177649058C>T	uc003ius.1	-	3	856	c.426G>A	c.(424-426)AAG>AAA	p.K142K		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	142					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		CTCCAAACTCCTTCCCCACAT	0.473													24	98					0	0	0.003954	0	0		T	177649058	T	T	177649058	2	4	127	1	0	0	0	0	0	0	0	1	17178	680	24	4		4	VEGFC	4	177649058	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	592739	177649058	13505218	322	69402											
ODZ3	55714	broad.mit.edu	37	chr4	183574966	183574966	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcagctacagcagactgAaaatgacacatttgagaatg	15	8	10	8	0	0	4	0	3	0	2	0	5	0	4	0	1	3	3	0	1	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:183574966A>C	uc003ivd.1	+	5	1068	c.1031A>C	c.(1030-1032)GAA>GCA	p.E344A		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	344	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CAGCAGACTGAAAATGACACA	0.418													12	34					0	0	0.003163	0	0		C	183574966	C	C	183574966	3	2	127	1	0	0	0	0	1	0	0	0	10855	246	9	5	1049	5	ODZ3	4	183574966	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5925908	183574966	7579310	323	69403											
ZFP42	132625	broad.mit.edu	37	chr4	188924640	188924640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggaatgtgggaaagcgttcGttgagagctcaaaactaaag	14	8	13	6	3	1	1	1	1	0	1	2	4	1	3	0	2	3	3	0	2	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:188924640G>A	uc003izg.1	+	3	924	c.679G>A	c.(679-681)GTT>ATT	p.V227I	ZFP42_uc003izh.1_Missense_Mutation_p.V227I|ZFP42_uc003izi.1_Missense_Mutation_p.V227I	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	227	C2H2-type 2.				female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		GAAAGCGTTCGTTGAGAGCTC	0.502													21	78					0	0	0.012319	0	0		A	188924640	A	A	188924640	3	1	127	1	0	0	0	0	1	0	0	0	17675	1145	40	1	681	1	ZFP42	4	188924640	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5349674	188924640	2229636	324	69404											
TRIML2	205860	broad.mit.edu	37	chr4	189012969	189012969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctccgcagccagcaccatgGcactgaaatccaatctttct	10	10	6	15	1	3	1	0	1	3	0	5	1	4	1	4	1	2	3	4	1	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:189012969G>A	uc003izl.2	-	7	758	c.722C>T	c.(721-723)GCC>GTC	p.A241V	TRIML2_uc003izj.1_Missense_Mutation_p.A69V|TRIML2_uc003izk.1_Missense_Mutation_p.A49V|TRIML2_uc011cle.1_Missense_Mutation_p.A316V	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	241	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		CAGCACCATGGCACTGAAATC	0.567													47	174					0	0	0.013114	0	0		A	189012969	A	A	189012969	3	1	127	1	0	0	0	0	1	0	0	0	16577	1203	42	2	445	2	TRIML2	4	189012969	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	88329	189012969	2141307	325	69405											
TRIML1	339976	broad.mit.edu	37	chr4	189060814	189060814	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaccgagtgtgggcacagCttttgtctggtgtgtctcct	5	13	12	11	1	2	0	0	0	2	0	3	1	2	0	3	2	1	2	3	2	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr4:189060814C>T	uc003izm.1	+	1	217	c.102C>T	c.(100-102)AGC>AGT	p.S34S		NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	34	RING-type.				multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		GTGGGCACAGCTTTTGTCTGG	0.522													56	272					0	0	0.01441	0	0		T	189060814	T	T	189060814	2	4	127	1	0	0	0	0	0	0	0	1	16576	796	28	2		2	TRIML1	4	189060814	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	47845	189060814	2093462	326	69406											
PLEKHG4B	153478	broad.mit.edu	37	chr5	182314	182314	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagccctgcccacagcccctGgtcatctgatatcagagcct	8	8	9	16	0	3	2	2	1	1	1	3	3	3	2	5	1	4	0	5	1	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:182314G>A	uc003jak.2	+	18	3742	c.3692G>A	c.(3691-3693)TGG>TAG	p.W1231*		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	1231	Ser-rich.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		CACAGCCCCTGGTCATCTGAT	0.642													17	53					0	0	0.008871	0	0		A	182314	A	A	182314	4	1	127	1	0	0	0	0	0	1	0	0	12091	1357	47	4	3762	4	PLEKHG4B	5	182314	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08		182314	180732946	327	69407											
KIAA0947	23379	broad.mit.edu	37	chr5	5469044	5469044	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaatgcagttagttgccagGcaacgtgctaaaggagaggt	12	8	14	7	1	0	1	0	0	0	1	0	2	0	1	1	3	4	6	1	3	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:5469044G>A	uc003jdm.3	+	15	6387	c.6165G>A	c.(6163-6165)AGG>AGA	p.R2055R		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	2055										ovary(1)|central_nervous_system(1)	2						TAGTTGCCAGGCAACGTGCTA	0.363													28	97					0	0	0.008361	0	0		A	5469044	A	A	5469044	2	1	127	1	0	0	0	0	0	0	0	1	8218	1194	42	2		2	KIAA0947	5	5469044	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5286730	5469044	175446216	328	69408											
PAPD7	11044	broad.mit.edu	37	chr5	6746416	6746416	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctatgggagaaattttaaTtacttgaaaaccggtattag	14	14	8	5	1	1	2	0	1	1	1	1	3	1	2	1	2	2	1	1	2	8	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:6746416T>C	uc003jdx.1	+	7	714	c.585T>C	c.(583-585)AAT>AAC	p.N195N	PAPD7_uc011cmn.1_Silent_p.N186N|PAPD7_uc010itl.1_Silent_p.N15N	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	195	PAP-associated.				cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						GAAATTTTAATTACTTGAAAA	0.418											OREG0016494	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	180					0	0	0.013726	0	0		C	6746416	C	C	6746416	2	2	127	1	0	0	0	0	0	0	0	1	11445	1490	52	3		3	PAPD7	5	6746416	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1277372	6746416	174168844	329	69409											
TRIO	7204	broad.mit.edu	37	chr5	14363893	14363893	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttctcagcaaatgaatgActtcgacacagaagatctca	14	10	7	10	1	2	4	2	2	2	2	5	5	2	4	0	0	1	2	0	0	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:14363893A>G	uc003jff.2	+	14	2450	c.2444A>G	c.(2443-2445)GAC>GGC	p.D815G	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.D766G|TRIO_uc003jfh.1_Missense_Mutation_p.D464G	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	815					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					CAAATGAATGACTTCGACACA	0.428													17	98					0	0	0.010504	0	0		G	14363893	G	G	14363893	3	3	127	1	0	0	0	0	1	0	0	0	16578	275	10	3	2498	3	TRIO	5	14363893	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	7617477	14363893	166551367	330	69410											
CDH12	1010	broad.mit.edu	37	chr5	21752243	21752243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcttcctccccacctcctTcatcatcgtaatggatgacg	8	13	5	15	2	3	1	2	1	1	0	7	2	6	2	5	1	0	1	5	1	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:21752243T>C	uc010iuc.2	-	12	2446	c.1988A>G	c.(1987-1989)GAA>GGA	p.E663G	CDH12_uc011cno.1_Missense_Mutation_p.E623G|CDH12_uc003jgk.2_Missense_Mutation_p.E663G|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	663	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CCCACCTCCTTCATCATCGTA	0.453										HNSCC(59;0.17)			35	104					0	0	0.003755	0	0		C	21752243	C	C	21752243	3	2	127	1	0	0	0	0	1	0	0	0	3101	1783	62	3	400	3	CDH12	5	21752243	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	7388350	21752243	159163017	331	69411											
CDH12	1010	broad.mit.edu	37	chr5	21755909	21755909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatacaactcttgctgcctgCggctgtatccatttcttcgg	7	14	8	12	2	2	0	0	0	2	0	4	0	3	0	2	2	5	3	2	2	4	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:21755909C>T	uc010iuc.2	-	11	2134	c.1676G>A	c.(1675-1677)CGC>CAC	p.R559H	CDH12_uc011cno.1_Missense_Mutation_p.R519H|CDH12_uc003jgk.2_Missense_Mutation_p.R559H|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	559	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TTGCTGCCTGCGGCTGTATCC	0.428										HNSCC(59;0.17)			15	89					0	0	0.014323	0	0		T	21755909	T	T	21755909	3	4	127	1	0	0	0	0	1	0	0	0	3101	768	27	1	716	1	CDH12	5	21755909	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3666	21755909	159159351	332	69412											
NPR3	4883	broad.mit.edu	37	chr5	32712163	32712163	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgggaggcggcttctgcCgccgggcactcgcttccagg	4	7	16	14	4	1	0	0	0	1	0	3	2	2	1	3	5	1	3	3	5	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:32712163C>A	uc003jhv.2	+	1	499	c.281C>A	c.(280-282)CCG>CAG	p.P94Q	NPR3_uc010iuo.2_Intron|NPR3_uc011cnz.1_Intron|NPR3_uc003jhu.2_Missense_Mutation_p.P94Q	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	94	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	CGGCTTCTGCCGCCGGGCACT	0.667													9	60					1.61879e-10	1.75369e-10	0.013537	1	0		A	32712163	A	A	32712163	3	1	127	1	0	0	0	0	1	0	0	0	10615	652	23	5	283	5	NPR3	5	32712163	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	10956254	32712163	148203097	333	69413											
DNAJC21	134218	broad.mit.edu	37	chr5	34937566	34937566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaaagaaaacaaaaagattCgggacaaagcaaggaaagag	25	2	10	4	1	0	3	0	0	0	3	1	5	0	5	0	2	2	1	0	2	9	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:34937566C>T	uc003jjc.2	+	5	801	c.574C>T	c.(574-576)CGG>TGG	p.R192W	DNAJC21_uc003jjb.2_Missense_Mutation_p.R192W|DNAJC21_uc010iuu.1_Missense_Mutation_p.R76W	NM_001012339	NP_001012339	Q5F1R6	DJC21_HUMAN	DnaJ homology subfamily A member 5 isoform 2	192					protein folding	ribosome	heat shock protein binding|nucleic acid binding|unfolded protein binding|zinc ion binding			breast(1)|skin(1)	2	all_lung(31;7.08e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)			CAAAAAGATTCGGGACAAAGC	0.423													18	63					0	0	0.007413	0	0		T	34937566	T	T	34937566	3	4	127	1	0	0	0	0	1	0	0	0	4646	875	31	1	592	1	DNAJC21	5	34937566	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2225403	34937566	145977694	334	69414											
UGT3A1	133688	broad.mit.edu	37	chr5	35954433	35954433	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcaatgaggtactgctcAtgccaaggctgctggaaggc	11	8	12	10	0	2	1	2	1	0	0	2	2	2	2	1	4	4	4	1	4	4	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:35954433A>G	uc003jjv.1	-	7	1600	c.1443T>C	c.(1441-1443)CAT>CAC	p.H481H	UGT3A1_uc003jjw.1_RNA	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	481	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGTACTGCTCATGCCAAGGCT	0.617													7	28					0	0	0.001984	0	0		G	35954433	G	G	35954433	2	3	127	1	0	0	0	0	0	0	0	1	16989	214	8	3		3	UGT3A1	5	35954433	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1016867	35954433	144960827	335	69415											
NIPBL	25836	broad.mit.edu	37	chr5	37022159	37022159	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtttgcttggcagatcctaCgagttcttggtgaaaatgca	9	14	11	7	1	1	2	0	1	1	1	2	3	2	2	1	2	3	5	1	2	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:37022159C>T	uc003jkl.3	+	28	5834	c.5335C>T	c.(5335-5337)CGA>TGA	p.R1779*	NIPBL_uc003jkk.3_Nonsense_Mutation_p.R1779*	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1779	HEAT 1.				brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GCAGATCCTACGAGTTCTTGG	0.323													15	62					0	0	0.004007	0	0		T	37022159	T	T	37022159	4	4	127	1	0	0	0	0	0	1	0	0	10447	528	19	1	5441	1	NIPBL	5	37022159	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1067726	37022159	143893101	336	69416											
SGTB	54557	broad.mit.edu	37	chr5	65016588	65016588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccatctgactttgttccCgtaagaaacgaataactgca	12	12	7	10	2	1	2	0	1	1	1	3	3	3	2	2	0	3	3	2	0	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:65016588C>T	uc003jud.2	-	2	267	c.47G>A	c.(46-48)CGG>CAG	p.R16Q	NLN_uc003jue.2_5'Flank|NLN_uc003juf.2_5'Flank	NM_019072	NP_061945	Q96EQ0	SGTB_HUMAN	small glutamine-rich tetratricopeptide repeat	16	TPR 1.						binding				0		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Ovarian(174;0.0545)|Breast(144;0.174)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0657)|Lung(70;0.00487)		ACTTTGTTCCCGTAAGAAACG	0.338													15	77					0	0	0.00499	0	0		T	65016588	T	T	65016588	3	4	127	1	0	0	0	0	1	0	0	0	14251	652	23	1	907	1	SGTB	5	65016588	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	27994429	65016588	115898672	337	69417											
CRHBP	1393	broad.mit.edu	37	chr5	76250013	76250013	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcggcgacttcctgaaggTgaggcgcccacggccagcca	7	4	16	14	4	0	2	0	2	0	0	1	3	1	2	4	5	1	0	4	5	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:76250013T>C	uc003ker.2	+	3	613	c.333_splice	c.e3+2	p.K111_splice	CRHBP_uc010izx.2_Splice_Site_p.K111_splice	NM_001882	NP_001873	P24387	CRHBP_HUMAN	corticotropin releasing hormone binding protein						female pregnancy|learning or memory|signal transduction	soluble fraction					0		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-51)|Epithelial(54;8.79e-46)|all cancers(79;2.49e-41)		TTCCTGAAGGTGAGGCGCCCA	0.657													10	25					0	0	0.013537	0	0		C	76250013	C	C	76250013	5	2	127	1	0	0	0	0	0	0	1	0	3873	1710	59	3	345	3	CRHBP	5	76250013	Splice_Site	SNP	T	TCGA-CG-4305-01A-01D-1158-08	11233425	76250013	104665247	338	69418											
PAPD4	167153	broad.mit.edu	37	chr5	78981033	78981033	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcccagtcatggcacagAttgaaaaacaagagagattt	15	9	8	9	0	2	4	1	1	1	3	3	5	2	4	1	1	1	1	1	1	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:78981033A>T	uc010jae.1	+	16	1810	c.1392A>T	c.(1390-1392)AGA>AGT	p.R464S	PAPD4_uc003kgb.2_Missense_Mutation_p.R464S|PAPD4_uc010jaf.1_Missense_Mutation_p.R464S|PAPD4_uc003kga.2_Missense_Mutation_p.R460S|PAPD4_uc003kfz.2_Missense_Mutation_p.R421S	NM_001114393	NP_001107865	Q6PIY7	GLD2_HUMAN	PAP associated domain containing 4	464					histone mRNA catabolic process|mRNA processing|RNA polyadenylation	cytoplasm	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity			ovary(1)	1		Lung NSC(167;0.00293)|all_lung(232;0.00323)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;8.61e-47)|Epithelial(54;1.32e-41)|all cancers(79;2.45e-36)		CATGGCACAGATTGAAAAACA	0.323													27	85					0	0	0.00632	0	0		T	78981033	T	T	78981033	3	4	127	1	0	0	0	0	1	0	0	0	11443	330	12	5	1446	5	PAPD4	5	78981033	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2731020	78981033	101934227	339	69419											
RASA1	5921	broad.mit.edu	37	chr5	86629108	86629108	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagaagatagaaggcgtgtaCgagctattctaccttacaca	14	10	9	8	2	1	3	0	0	1	3	1	4	1	3	1	1	4	2	1	1	8	7	rs137853218		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:86629108C>T	uc003kiw.2	+	4	971	c.853C>T	c.(853-855)CGA>TGA	p.R285*	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Nonsense_Mutation_p.R108*|RASA1_uc011ctv.1_Nonsense_Mutation_p.R118*|RASA1_uc011ctw.1_Nonsense_Mutation_p.R119*|RASA1_uc010jaw.2_Nonsense_Mutation_p.R108*	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	285	SH3.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		AAGGCGTGTACGAGCTATTCT	0.313													14	45					0	0	0.00499	0	0		T	86629108	T	T	86629108	4	4	127	1	0	0	0	0	0	1	0	0	13085	528	19	1	879	1	RASA1	5	86629108	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7648075	86629108	94286152	340	69420											
LIX1	167410	broad.mit.edu	37	chr5	96430680	96430680	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccttcatgatccagtccagGgccatgtggctgcgcatctt	6	12	10	13	1	2	1	1	1	1	0	5	1	5	1	4	2	1	2	4	2	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:96430680G>T	uc003kmy.3	-	6	861	c.621C>A	c.(619-621)GCC>GCA	p.A207A		NM_153234	NP_694966	Q8N485	LIX1_HUMAN	limb expression 1	207										ovary(1)	1		all_cancers(142;4.28e-07)|all_epithelial(76;1.06e-09)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0318)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.0733)		TCCAGTCCAGGGCCATGTGGC	0.507													23	80					1.66031e-10	1.79729e-10	0.003954	1	0		T	96430680	T	T	96430680	2	4	127	1	0	0	0	0	0	0	0	1	8848	1219	43	5		5	LIX1	5	96430680	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	9801572	96430680	84484580	341	69421											
CHD1	1105	broad.mit.edu	37	chr5	98206418	98206418	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagagcttctttttttgcAagatctctactaagtaattt	12	17	6	6	0	2	2	0	0	2	2	3	3	2	2	0	0	3	3	0	0	5	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:98206418A>C	uc003knf.2	-	28	4099	c.3951T>G	c.(3949-3951)CTT>CTG	p.L1317L	CHD1_uc010jbn.2_Silent_p.L43L	NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	1317					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	CTTTTTTTGCAAGATCTCTAC	0.383													37	136					0	0	0.004289	0	0		C	98206418	C	C	98206418	2	2	127	1	0	0	0	0	0	0	0	1	3326	117	5	5		5	CHD1	5	98206418	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1775738	98206418	82708842	342	69422											
SLCO6A1	133482	broad.mit.edu	37	chr5	101735414	101735414	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcatctgcagttattaaTccttctttaatgcaagaaca	12	15	5	9	0	3	1	0	0	3	1	4	1	4	1	1	0	4	4	1	0	5	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:101735414T>A	uc003knn.2	-	10	1831	c.1659A>T	c.(1657-1659)GGA>GGT	p.G553G	SLCO6A1_uc003kno.2_Silent_p.G300G|SLCO6A1_uc003knp.2_Silent_p.G553G|SLCO6A1_uc003knq.2_Silent_p.G491G	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	553	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		CAGTTATTAATCCTTCTTTAA	0.323													29	63					0	0	0.007291	0	0		A	101735414	A	A	101735414	2	1	127	1	0	0	0	0	0	0	0	1	14757	1422	50	5		5	SLCO6A1	5	101735414	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	3528996	101735414	79179846	343	69423											
WDR36	134430	broad.mit.edu	37	chr5	110440035	110440035	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcttgtcacaaatggcgCtgacaatgctcttagggtat	10	13	9	9	1	3	1	1	1	2	0	3	1	3	1	0	2	1	3	0	2	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:110440035C>A	uc003kpd.2	+	8	1175	c.1058C>A	c.(1057-1059)GCT>GAT	p.A353D	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	353	WD 4.				response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		ACAAATGGCGCTGACAATGCT	0.378													27	191					1.39806e-14	1.5562e-14	0.008361	1	0		A	110440035	A	A	110440035	3	1	127	1	0	0	0	0	1	0	0	0	17316	797	28	5	1088	5	WDR36	5	110440035	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	8704621	110440035	70475225	344	69424											
EPB41L4A	64097	broad.mit.edu	37	chr5	111570349	111570349	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagctggctgtgtttgtgCtattcgcttagggtaagtct	6	15	12	8	1	1	0	0	0	1	0	2	0	1	0	1	2	2	6	1	2	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:111570349C>A	uc003kpv.1	-	12	1343	c.1069G>T	c.(1069-1071)GCA>TCA	p.A357S		NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	357						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		TGTGTTTGTGCTATTCGCTTA	0.453													31	131					6.84511e-11	7.43829e-11	0.003271	1	0		A	111570349	A	A	111570349	3	1	127	1	0	0	0	0	1	0	0	0	5163	797	28	5	1039	5	EPB41L4A	5	111570349	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1130314	111570349	69344911	345	69425											
MCC	4163	broad.mit.edu	37	chr5	112364690	112364690	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgatgtcggatttcactGctcttggtgagtctctccaa	6	15	10	10	1	3	2	1	2	2	0	6	3	4	3	1	2	2	2	1	2	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:112364690G>A	uc003kqj.3	-	16	2780	c.2250C>T	c.(2248-2250)AGC>AGT	p.S750S	MCC_uc003kqk.3_RNA|MCC_uc003kql.3_Silent_p.S940S	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2	750					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		GGATTTCACTGCTCTTGGTGA	0.478													28	152					0	0	0.004656	0	0		A	112364690	A	A	112364690	2	1	127	1	0	0	0	0	0	0	0	1	9391	1310	46	2		2	MCC	5	112364690	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	794341	112364690	68550570	346	69426											
YTHDC2	64848	broad.mit.edu	37	chr5	112902884	112902884	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcattggtggcaggcatgTatcctaatttagtccacgtg	8	13	11	9	1	0	0	0	0	0	0	2	0	2	0	2	3	1	4	2	3	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:112902884T>C	uc003kqn.2	+	22	3121	c.2938T>C	c.(2938-2940)TAT>CAT	p.Y980H		NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	980							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		GGCAGGCATGTATCCTAATTT	0.463													9	56					0	0	0.008291	0	0		C	112902884	C	C	112902884	3	2	127	1	0	0	0	0	1	0	0	0	17523	1638	57	3	3024	3	YTHDC2	5	112902884	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	538194	112902884	68012376	347	69427											
SRFBP1	153443	broad.mit.edu	37	chr5	121355909	121355909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatggaagtaatttacagcGtgaagcaactgtcatcagtg	14	11	10	6	1	2	1	2	1	0	0	2	2	2	2	0	1	4	2	0	1	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:121355909G>A	uc003kst.1	+	6	551	c.479G>A	c.(478-480)CGT>CAT	p.R160H		NM_152546	NP_689759	Q8NEF9	SRFB1_HUMAN	serum response factor binding protein 1	160					regulation of transcription, DNA-dependent|transcription, DNA-dependent	perinuclear region of cytoplasm					0		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000227)|Epithelial(69;0.000365)|all cancers(49;0.00517)		AATTTACAGCGTGAAGCAACT	0.333													17	80					0	0	0.004007	0	0		A	121355909	A	A	121355909	3	1	127	1	0	0	0	0	1	0	0	0	15169	1145	40	1	501	1	SRFBP1	5	121355909	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	8453025	121355909	59559351	348	69428											
FSTL4	23105	broad.mit.edu	37	chr5	132648366	132648366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggccatgtagaactcgCggagggtcagggagctgtca	10	6	17	8	2	2	1	2	0	0	1	3	4	2	4	1	5	2	2	1	5	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:132648366C>T	uc003kyn.1	-	6	925	c.707G>A	c.(706-708)CGC>CAC	p.R236H		NM_015082	NP_055897	Q6MZW2	FSTL4_HUMAN	follistatin-like 4 precursor	236						extracellular region	calcium ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(142;0.244)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GTAGAACTCGCGGAGGGTCAG	0.532													16	68					0	0	0.003163	0	0		T	132648366	T	T	132648366	3	4	127	1	0	0	0	0	1	0	0	0	6093	768	27	1	1865	1	FSTL4	5	132648366	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	11292457	132648366	48266894	349	69429											
KDM3B	51780	broad.mit.edu	37	chr5	137729022	137729022	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttaaggaacaggagcaagAtgattctactgtagcctgcc	12	10	11	8	0	1	2	0	1	1	1	1	4	1	4	2	2	5	3	2	2	5	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:137729022A>G	uc003lcy.1	+	9	2992	c.2792A>G	c.(2791-2793)GAT>GGT	p.D931G	KDM3B_uc010jew.1_Missense_Mutation_p.D587G|KDM3B_uc011cys.1_5'UTR	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	931					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						CAGGAGCAAGATGATTCTACT	0.488													6	24					0	0	0.001984	0	0		G	137729022	G	G	137729022	3	3	127	1	0	0	0	0	1	0	0	0	8143	333	12	3	2826	3	KDM3B	5	137729022	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5080656	137729022	43186238	350	69430											
EGR1	1958	broad.mit.edu	37	chr5	137802740	137802740	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccatccaacgacagcagtcCcatttactcagcggcaccca	11	6	7	17	2	1	0	1	0	0	0	3	1	3	0	4	1	4	2	4	1	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:137802740C>A	uc003ldb.1	+	2	872	c.602C>A	c.(601-603)CCC>CAC	p.P201H	EGR1_uc011cyu.1_Intron	NM_001964	NP_001955	P18146	EGR1_HUMAN	early growth response 1	201					cellular response to heparin|cellular response to mycophenolic acid|glomerular mesangial cell proliferation|interleukin-1-mediated signaling pathway|positive regulation of glomerular metanephric mesangial cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of protein sumoylation|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytoplasm|nucleus	histone acetyltransferase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			GACAGCAGTCCCATTTACTCA	0.667													62	221					9.5628e-27	1.08839e-26	0.01441	1	0		A	137802740	A	A	137802740	3	1	127	1	0	0	0	0	1	0	0	0	4977	623	22	5	608	5	EGR1	5	137802740	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	73718	137802740	43112520	351	69431											
PCDHA4	56144	broad.mit.edu	37	chr5	140187861	140187861	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccaattagagaggacgcTccactgggtacagtcatcgc	10	9	10	12	2	1	1	1	0	0	1	4	3	3	2	2	2	1	2	2	2	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:140187861T>C	uc003lhi.2	+	1	1190	c.1089T>C	c.(1087-1089)GCT>GCC	p.A363A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.A363A|PCDHA4_uc011daa.1_Silent_p.A363A	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	363	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGAGGACGCTCCACTGGGTA	0.488													28	132					0	0	0.005443	0	0		C	140187861	C	C	140187861	2	2	127	1	0	0	0	0	0	0	0	1	11545	1538	54	3		3	PCDHA4	5	140187861	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2385121	140187861	40727399	352	69432											
PCDHA5	56143	broad.mit.edu	37	chr5	140202795	140202795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcttcacggtgtctgcaCgggacgcggacgcgcaggag	8	6	15	12	6	3	0	1	0	2	0	3	3	3	3	0	4	1	2	0	4	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:140202795C>T	uc003lhl.2	+	1	1435	c.1435C>T	c.(1435-1437)CGG>TGG	p.R479W	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.R479W|PCDHA5_uc003lhj.1_Missense_Mutation_p.R479W	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	479	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGTCTGCACGGGACGCGGA	0.662													5	141					0	0	0.004482	0	0		T	140202795	T	T	140202795	3	4	127	1	0	0	0	0	1	0	0	0	11546	527	19	1	1437	1	PCDHA5	5	140202795	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	14934	140202795	40712465	353	69433											
PCDHA9	9752	broad.mit.edu	37	chr5	140228550	140228550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtttccactagagggcgCgtccgatgcagatatcgggg	7	9	15	10	5	0	2	0	0	0	2	4	3	2	2	2	4	1	2	2	4	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:140228550C>T	uc003lhu.2	+	1	1194	c.470C>T	c.(469-471)GCG>GTG	p.A157V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.A157V	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	157	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTAGAGGGCGCGTCCGATGCA	0.532													16	57					0	0	0.00278	0	0		T	140228550	T	T	140228550	3	4	127	1	0	0	0	0	1	0	0	0	11550	768	27	1	472	1	PCDHA9	5	140228550	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	25755	140228550	40686710	354	69434											
PCDHA10	56139	broad.mit.edu	37	chr5	140237067	140237067	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatcttcacggtgtctgcGtgggacgcggacgcgcagga	7	7	15	12	6	3	0	1	0	2	0	3	3	3	3	0	4	1	1	0	4	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:140237067G>A	uc003lhx.2	+	1	1434	c.1434G>A	c.(1432-1434)GCG>GCA	p.A478A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Silent_p.A478A|PCDHA10_uc011dad.1_Silent_p.A478A	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	478	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGTGTCTGCGTGGGACGCGG	0.662													24	126					0	0	0.005524	0	0		A	140237067	A	A	140237067	2	1	127	1	0	0	0	0	0	0	0	1	11539	1132	40	1		1	PCDHA10	5	140237067	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	8517	140237067	40678193	355	69435											
PCDHA11	56138	broad.mit.edu	37	chr5	140250883	140250883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccactgagggcgcgtgcgCgccggggaagcccacgctgg	5	3	18	15	6	0	1	0	1	0	0	0	2	0	2	3	4	2	1	3	4	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:140250883C>T	uc003lia.2	+	1	3053	c.2195C>T	c.(2194-2196)GCG>GTG	p.A732V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.A732V	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	732	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGCGTGCGCGCCGGGGAAG	0.677													13	47					0	0	0.00245	0	0		T	140250883	T	T	140250883	3	4	127	1	0	0	0	0	1	0	0	0	11540	768	27	1	2197	1	PCDHA11	5	140250883	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	13816	140250883	40664377	356	69436											
PCDHB6	56130	broad.mit.edu	37	chr5	140531449	140531449	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacagaccgcggctccccGgcgttgagcagcgaggcgct	6	4	15	16	6	0	2	0	1	0	1	1	3	1	2	4	3	2	4	4	3	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:140531449G>A	uc003lir.2	+	1	1611	c.1611G>A	c.(1609-1611)CCG>CCA	p.P537P	PCDHB6_uc011dah.1_Silent_p.P401P	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	537	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCGGCTCCCCGGCGTTGAGCA	0.672													24	93					0	0	0.007291	0	0		A	140531449	A	A	140531449	2	1	127	1	0	0	0	0	0	0	0	1	11565	1103	39	1		1	PCDHB6	5	140531449	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	280566	140531449	40383811	357	69437											
PCDHB13	56123	broad.mit.edu	37	chr5	140594940	140594940	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctagacagagaaagcagagcGgaatacaacatcactatcac	18	5	8	10	1	2	3	2	0	0	3	2	5	2	4	0	1	4	1	0	1	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:140594940G>A	uc003lja.1	+	1	1432	c.1245G>A	c.(1243-1245)GCG>GCA	p.A415A		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	415	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAAGCAGAGCGGAATACAACA	0.483													28	86					0	0	0.008361	0	0		A	140594940	A	A	140594940	2	1	127	1	0	0	0	0	0	0	0	1	11557	1103	39	1		1	PCDHB13	5	140594940	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	63491	140594940	40320320	358	69438											
PCDHGB1	56104	broad.mit.edu	37	chr5	140731723	140731723	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgccttgggcgacagggaCgcggcccgccagcgcctgct	4	5	16	16	6	0	0	0	0	0	0	0	2	0	1	4	3	3	1	4	3	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:140731723C>T	uc003ljo.1	+	1	1896	c.1896C>T	c.(1894-1896)GAC>GAT	p.D632D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Silent_p.D632D	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	632	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGACAGGGACGCGGCCCGCC	0.701													6	46					0	0	0.008291	0	0		T	140731723	T	T	140731723	2	4	127	1	0	0	0	0	0	0	0	1	11581	535	19	1		1	PCDHGB1	5	140731723	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	136783	140731723	40183537	359	69439											
PCDHGB2	56103	broad.mit.edu	37	chr5	140739873	140739873	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaaggatctggggctcagCgtccgggacttgccagcccg	6	6	15	14	3	2	0	1	0	1	0	3	2	3	2	4	4	3	1	4	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:140739873C>T	uc003ljs.1	+	1	171	c.171C>T	c.(169-171)AGC>AGT	p.S57S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Silent_p.S57S	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	57	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGGCTCAGCGTCCGGGACT	0.557													20	69					0	0	0.010504	0	0		T	140739873	T	T	140739873	2	4	127	1	0	0	0	0	0	0	0	1	11582	767	27	1		1	PCDHGB2	5	140739873	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	8150	140739873	40175387	360	69440											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769248	140769248	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgcagactcaggacacaaCgcctggctgtcctaccacgt	10	6	10	15	3	1	1	1	0	0	1	2	3	2	2	3	2	2	2	3	2	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:140769248C>T	uc003lkc.1	+	1	1797	c.1797C>T	c.(1795-1797)AAC>AAT	p.N599N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Silent_p.N599N	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	599	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGACACAACGCCTGGCTGT	0.662													7	33					0	0	0.004482	0	0		T	140769248	T	T	140769248	2	4	127	1	0	0	0	0	0	0	0	1	11584	535	19	1		1	PCDHGB4	5	140769248	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	29375	140769248	40146012	361	69441											
PCDHGA8	9708	broad.mit.edu	37	chr5	140772597	140772597	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtctccagaggtaggacgCagctctttgctctgaacccg	7	10	11	13	3	3	2	0	1	3	1	5	3	3	3	2	2	3	4	2	2	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:140772597C>T	uc003lkd.1	+	1	1115	c.217C>T	c.(217-219)CAG>TAG	p.Q73*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Nonsense_Mutation_p.Q73*	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	73	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGTAGGACGCAGCTCTTTGC	0.607													12	54					0	0	0.004007	0	0		T	140772597	T	T	140772597	4	4	127	1	0	0	0	0	0	1	0	0	11579	711	25	2	219	2	PCDHGA8	5	140772597	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3349	140772597	40142663	362	69442											
PCDHGA12	26025	broad.mit.edu	37	chr5	140812558	140812558	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcactttgtgggcgtggaCggggtgcaggctttcctgca	4	11	16	10	3	0	0	0	0	0	0	2	1	1	1	1	5	2	4	1	5	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:140812558C>T	uc003lkt.1	+	1	2401	c.2232C>T	c.(2230-2232)GAC>GAT	p.D744D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.D744D	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	744	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGCGTGGACGGGGTGCAGG	0.642													27	108					0	0	0.00632	0	0		T	140812558	T	T	140812558	2	4	127	1	0	0	0	0	0	0	0	1	11572	535	19	1		1	PCDHGA12	5	140812558	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	39961	140812558	40102702	363	69443											
FCHSD1	89848	broad.mit.edu	37	chr5	141028998	141028998	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttggcgctccgccctgtAccccctgctaggtcacggta	4	10	10	17	3	1	0	1	0	0	0	3	0	3	0	5	3	2	4	5	3	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:141028998A>G	uc003llk.2	-	5	390	c.339T>C	c.(337-339)GGT>GGC	p.G113G	FCHSD1_uc010jgg.2_5'Flank|FCHSD1_uc003llj.2_RNA	NM_033449	NP_258260	Q86WN1	FCSD1_HUMAN	FCH and double SH3 domains 1	113									FCHSD1/BRAF(2)	skin(2)|ovary(1)|central_nervous_system(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCGCCCTGTACCCCCTGCTA	0.627													49	252					0	0	0.01441	0	0		G	141028998	G	G	141028998	2	3	127	1	0	0	0	0	0	0	0	1	5803	378	14	3		3	FCHSD1	5	141028998	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	216440	141028998	39886262	364	69444											
PCDH1	5097	broad.mit.edu	37	chr5	141233894	141233894	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgctgctcttggtccggcGgctgggagatgactggccag	4	8	18	11	3	1	2	0	1	1	1	2	3	2	2	2	6	1	3	2	6	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:141233894G>T	uc003llp.2	-	5	3544	c.3427C>A	c.(3427-3429)CGC>AGC	p.R1143S		NM_032420	NP_115796	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 2 precursor	Error:Variant_position_missing_in_Q08174_after_alignment					cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		TTGGTCCGGCGGCTGGGAGAT	0.657													10	33					1.36491e-13	1.511e-13	0.001855	1	0		T	141233894	T	T	141233894	3	4	127	1	0	0	0	0	1	0	0	0	11525	1116	39	5	290	5	PCDH1	5	141233894	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	204896	141233894	39681366	365	69445											
SPINK5	11005	broad.mit.edu	37	chr5	147499622	147499622	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaaatggaaaactcatctgCactcgagaaagtgaccctgt	16	8	8	9	1	2	2	1	1	1	1	3	4	2	3	1	1	2	1	1	1	5	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:147499622C>T	uc003lox.2	+	25	2437	c.2364C>T	c.(2362-2364)TGC>TGT	p.C788C	SPINK5_uc010jgr.2_Silent_p.C769C|SPINK5_uc003low.2_Silent_p.C788C|SPINK5_uc003loy.2_Silent_p.C788C	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	788	Kazal-like 12.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACTCATCTGCACTCGAGAAA	0.378													11	45					0	0	0.010729	0	0		T	147499622	T	T	147499622	2	4	127	1	0	0	0	0	0	0	0	1	15087	718	25	2		2	SPINK5	5	147499622	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	6265728	147499622	33415638	366	69446											
PCYOX1L	78991	broad.mit.edu	37	chr5	148747916	148747916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggaggcagctgtttggcGagtccagtcccccaagcccc	7	6	12	16	1	0	0	0	0	0	0	2	2	2	1	6	3	2	3	6	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:148747916G>A	uc003lqk.2	+	6	1246	c.1184G>A	c.(1183-1185)CGA>CAA	p.R395Q	PCYOX1L_uc003lql.2_Missense_Mutation_p.R378Q|PCYOX1L_uc010jgz.2_Missense_Mutation_p.R319Q|PCYOX1L_uc003lqm.2_Missense_Mutation_p.R277Q|PCYOX1L_uc003lqn.2_Missense_Mutation_p.R305Q	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	395					prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGTTTGGCGAGTCCAGTCC	0.572											OREG0016912	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	153					0	0	0.008361	0	0		A	148747916	A	A	148747916	3	1	127	1	0	0	0	0	1	0	0	0	11628	1058	37	1	1206	1	PCYOX1L	5	148747916	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1248294	148747916	32167344	367	69447											
PDE6A	5145	broad.mit.edu	37	chr5	149314176	149314176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccatccactttattcacagCcatgattatggccaccacat	11	12	4	14	0	1	1	1	1	0	0	3	1	3	1	5	1	1	0	5	1	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:149314176C>T	uc003lrg.3	-	2	700	c.580G>A	c.(580-582)GCT>ACT	p.A194T		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	194	GAF 1.				cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TTATTCACAGCCATGATTATG	0.458													19	33					0	0	0.008871	0	0		T	149314176	T	T	149314176	3	4	127	1	0	0	0	0	1	0	0	0	11664	739	26	2	2086	2	PDE6A	5	149314176	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	566260	149314176	31601084	368	69448											
FAT2	2196	broad.mit.edu	37	chr5	150886847	150886847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattgggtccaaatgtgaCgagttcatttggaacagagg	13	10	13	5	1	1	3	1	1	0	2	2	5	2	4	1	3	1	1	1	3	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:150886847C>T	uc003lue.3	-	22	12398	c.12385G>A	c.(12385-12387)GTC>ATC	p.V4129I	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.V736I	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	4129	Cytoplasmic (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCAAATGTGACGAGTTCATTT	0.577													39	118					0	0	0.007835	0	0		T	150886847	T	T	150886847	3	4	127	1	0	0	0	0	1	0	0	0	5704	536	19	1	672	1	FAT2	5	150886847	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1572671	150886847	30028413	369	69449											
FAT2	2196	broad.mit.edu	37	chr5	150887067	150887067	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttatgataatgaacgccacGgccactgtgatgatcagtaa	13	10	9	9	2	1	4	1	4	0	0	1	4	1	4	2	1	1	1	2	1	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:150887067G>A	uc003lue.3	-	22	12178	c.12165C>T	c.(12163-12165)GCC>GCT	p.A4055A	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Silent_p.A662A	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	4055	Helical; (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGAACGCCACGGCCACTGTGA	0.572													14	85					0	0	0.014323	0	0		A	150887067	A	A	150887067	2	1	127	1	0	0	0	0	0	0	0	1	5704	1103	39	1		1	FAT2	5	150887067	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	220	150887067	30028193	370	69450											
ITK	3702	broad.mit.edu	37	chr5	156608073	156608073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctcgaactttaaagtcCgcttctttgtgttaaccaaa	10	14	5	12	2	1	0	0	0	1	0	4	1	3	0	3	0	2	2	3	0	5	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:156608073C>T	uc003lwo.1	+	1	167	c.85C>T	c.(85-87)CGC>TGC	p.R29C		NM_005546	NP_005537	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase	29	PH.				cellular defense response|intracellular signal transduction|T cell receptor signaling pathway	cytosol|plasma membrane	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(12)|ovary(8)|skin(4)|stomach(1)|central_nervous_system(1)	26	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTTTAAAGTCCGCTTCTTTGT	0.398			T	SYK	peripheral T-cell lymphoma								40	124					0	0	0.009718	0	0		T	156608073	T	T	156608073	3	4	127	1	0	0	0	0	1	0	0	0	7925	652	23	1	87	1	ITK	5	156608073	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	5721006	156608073	24307187	371	69451											
SOX30	11063	broad.mit.edu	37	chr5	157078490	157078490	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgccgggcttttgcctgcCccgccttgcatcgagtctct	2	12	11	16	3	1	0	0	0	1	0	3	1	1	0	5	1	4	3	5	1	0	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:157078490C>T	uc003lxb.1	-	1	939	c.597G>A	c.(595-597)GGG>GGA	p.G199G	SOX30_uc003lxc.1_Silent_p.G199G|SOX30_uc011dds.1_Intron	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	199					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TTTTGCCTGCCCCGCCTTGCA	0.657													28	102					0	0	0.010818	0	0		T	157078490	T	T	157078490	2	4	127	1	0	0	0	0	0	0	0	1	14977	610	22	4		4	SOX30	5	157078490	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	470417	157078490	23836770	372	69452											
RNF145	153830	broad.mit.edu	37	chr5	158588398	158588398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccaccccagctgggccCgaagccacacgttatagtag	9	8	9	15	2	1	0	0	0	1	0	2	1	2	0	5	1	2	3	5	1	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:158588398C>T	uc003lxp.2	-	10	1815	c.1502G>A	c.(1501-1503)CGG>CAG	p.R501Q	RNF145_uc011ddy.1_Missense_Mutation_p.R515Q|RNF145_uc003lxo.1_Missense_Mutation_p.R529Q|RNF145_uc011ddz.1_Missense_Mutation_p.R518Q|RNF145_uc010jiq.1_Missense_Mutation_p.R531Q	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	501	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAGCTGGGCCCGAAGCCACAC	0.478													17	65					0	0	0.004007	0	0		T	158588398	T	T	158588398	3	4	127	1	0	0	0	0	1	0	0	0	13472	652	23	1	497	1	RNF145	5	158588398	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1509908	158588398	22326862	373	69453											
FABP6	2172	broad.mit.edu	37	chr5	159661892	159661892	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactatcaccagacctcagaGatcgtgggtgacaagctggt	12	8	11	10	1	2	3	2	1	0	2	3	4	2	3	2	2	2	1	2	2	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:159661892G>T	uc003lya.1	+	3	437	c.309G>T	c.(307-309)GAG>GAT	p.E103D	FABP6_uc003lxx.1_Missense_Mutation_p.E152D|FABP6_uc003lxz.1_Missense_Mutation_p.E152D	NM_001445	NP_001436	P51161	FABP6_HUMAN	gastrotropin isoform 2	103					bile acid and bile salt transport|bile acid metabolic process|negative regulation of cell proliferation	cytosol	transporter activity				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGACCTCAGAGATCGTGGGTG	0.522													11	50					1.61879e-10	1.75369e-10	0.013537	1	0		T	159661892	T	T	159661892	3	4	127	1	0	0	0	0	1	0	0	0	5372	933	33	5	474	5	FABP6	5	159661892	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1073494	159661892	21253368	374	69454											
GABRP	2568	broad.mit.edu	37	chr5	170232795	170232795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtggactggaacacctgcGgcttgctcagtacaccatag	9	8	12	12	2	1	0	1	0	0	0	1	2	1	2	2	3	4	3	2	3	3	3	rs150667747		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:170232795G>A	uc003mau.2	+	7	815	c.617G>A	c.(616-618)CGG>CAG	p.R206Q	GABRP_uc011dev.1_Missense_Mutation_p.R206Q	NM_014211	NP_055026	O00591	GBRP_HUMAN	gamma-aminobutyric acid (GABA) A receptor, pi	206	Extracellular (Potential).					cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			breast(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0122)|all_lung(126;0.0193)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GAACACCTGCGGCTTGCTCAG	0.483													10	51					0	0	0.010729	0	0		A	170232795	A	A	170232795	3	1	127	1	0	0	0	0	1	0	0	0	6188	1116	39	1	639	1	GABRP	5	170232795	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	10570903	170232795	10682465	375	69455											
NOP16	51491	broad.mit.edu	37	chr5	175811191	175811191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctccagcttcactggtcCgggggacgcctcagcctggg	4	8	15	14	2	2	0	2	0	0	0	4	1	4	1	4	5	2	2	4	5	0	1	rs140981968	by1000genomes	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:175811191C>T	uc003mee.2	-	5	490	c.490G>A	c.(490-492)GGA>AGA	p.G164R	NOP16_uc003med.2_Missense_Mutation_p.G163R			Q9Y3C1	NOP16_HUMAN	SubName: Full=NOP16 protein; SubName: Full=Putative uncharacterized protein HSPC111;	Error:Variant_position_missing_in_Q9Y3C1_after_alignment						nucleolus				ovary(1)|central_nervous_system(1)	2						TTCACTGGTCCGGGGGACGCC	0.582													17	99					0	0	0.00499	0	0		T	175811191	T	T	175811191	3	4	127	1	0	0	0	0	1	0	0	0	10556	667	23	1		1	NOP16	5	175811191	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	5578396	175811191	5104069	376	69456											
DDX41	51428	broad.mit.edu	37	chr5	176940713	176940713	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggagaagatggtacggatGtcaccctcgaagcccatgtc	11	8	12	10	2	1	2	1	0	0	2	3	5	1	3	2	3	2	1	2	3	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:176940713G>A	uc003mho.2	-	10	1092	c.1071C>T	c.(1069-1071)GAC>GAT	p.D357D	DDX41_uc003mhm.2_Silent_p.D137D|DDX41_uc003mhn.2_Silent_p.D226D|DDX41_uc003mhp.2_Silent_p.D226D|DDX41_uc003mhq.1_Silent_p.D137D	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	357	Helicase ATP-binding.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			TGGTACGGATGTCACCCTCGA	0.622													20	86					0	0	0.012319	0	0		A	176940713	A	A	176940713	2	1	127	1	0	0	0	0	0	0	0	1	4364	1368	48	4		4	DDX41	5	176940713	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1129522	176940713	3974547	377	69457											
GRM6	2916	broad.mit.edu	37	chr5	178410138	178410138	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgagcacccctctggcctGctcggggtccaccgtccgct	3	9	11	18	3	1	1	0	1	1	0	4	1	3	1	6	3	2	3	6	3	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:178410138G>T	uc003mjr.2	-	9	2388	c.2209C>A	c.(2209-2211)CAG>AAG	p.Q737K	GRM6_uc003mjq.2_Missense_Mutation_p.Q140K	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	737	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		CCTCTGGCCTGCTCGGGGTCC	0.627													16	64					4.14922e-12	4.55065e-12	0.004007	1	0		T	178410138	T	T	178410138	3	4	127	1	0	0	0	0	1	0	0	0	6817	1328	46	5	432	5	GRM6	5	178410138	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1469425	178410138	2505122	378	69458											
GRM6	2916	broad.mit.edu	37	chr5	178415995	178415995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccatcagtgggttccatcGccgggcacaggcctgtgtgc	5	8	14	14	2	1	0	1	0	0	0	3	0	2	0	4	3	1	2	4	3	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:178415995G>A	uc003mjr.2	-	6	1474	c.1295C>T	c.(1294-1296)GCG>GTG	p.A432V	GRM6_uc010jla.1_Missense_Mutation_p.A15V|GRM6_uc003mjs.1_Missense_Mutation_p.A52V	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	432	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		GGGTTCCATCGCCGGGCACAG	0.622													7	20					0	0	0.004482	0	0		A	178415995	A	A	178415995	3	1	127	1	0	0	0	0	1	0	0	0	6817	1087	38	1	1358	1	GRM6	5	178415995	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5857	178415995	2499265	379	69459											
FLT4	2324	broad.mit.edu	37	chr5	180047711	180047711	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatgctgcccttatcctcGgagcctgcgtgggcagaaag	7	9	12	13	2	0	1	0	0	0	1	3	2	2	2	4	2	4	2	4	2	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:180047711G>A	uc003mma.3	-	16	2383	c.2304C>T	c.(2302-2304)TCC>TCT	p.S768S	FLT4_uc003mlz.3_Silent_p.S768S|FLT4_uc003mmb.1_Silent_p.S301S	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	768	Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	CCTTATCCTCGGAGCCTGCGT	0.597									Congenital_Hereditary_Lymphedema				8	34					0	0	0.00308	0	0		A	180047711	A	A	180047711	2	1	127	1	0	0	0	0	0	0	0	1	5958	1103	39	1		1	FLT4	5	180047711	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1631716	180047711	867549	380	69460											
TRIM7	81786	broad.mit.edu	37	chr5	180626983	180626983	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacctcccgggacagttcCtccaggcggcctagcagccg	6	5	12	18	3	0	0	0	0	0	0	3	1	3	1	7	3	2	2	7	3	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr5:180626983C>A	uc003mmz.1	-	3	784	c.717G>T	c.(715-717)GAG>GAT	p.E239D	TRIM7_uc003mmv.1_Missense_Mutation_p.E57D|TRIM7_uc003mmw.1_Missense_Mutation_p.E31D|TRIM7_uc003mmx.1_Missense_Mutation_p.E31D|TRIM7_uc003mmy.1_Missense_Mutation_p.E31D	NM_203293	NP_976038	Q9C029	TRIM7_HUMAN	tripartite motif-containing 7 isoform 1	239	Potential.					cytoplasm|nucleus	zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;6.03e-06)|all_epithelial(37;7.1e-07)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000172)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;2e-06)|Epithelial(171;1.35e-05)|OV - Ovarian serous cystadenocarcinoma(192;0.000128)|Kidney(146;0.0674)|GBM - Glioblastoma multiforme(465;0.0802)		GGGACAGTTCCTCCAGGCGGC	0.622													20	66					2.39187e-15	2.67083e-15	0.008871	1	0		A	180626983	A	A	180626983	3	1	127	1	0	0	0	0	1	0	0	0	16569	680	24	5	838	5	TRIM7	5	180626983	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	579272	180626983	288277	381	69461											
F13A1	2162	broad.mit.edu	37	chr6	6318878	6318878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcttctgcctccaaaggcgGtcctggaagtttctgacatt	7	13	9	12	1	3	1	0	1	3	0	5	2	5	2	3	3	1	1	3	3	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:6318878G>A	uc003mwv.2	-	2	143	c.20C>T	c.(19-21)ACC>ATC	p.T7I	F13A1_uc011dib.1_Missense_Mutation_p.T7I	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	7					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	TCCAAAGGCGGTCCTGGAAGT	0.473													53	213					0	0	0.01441	0	0		A	6318878	A	A	6318878	3	1	127	1	0	0	0	0	1	0	0	0	5348	1261	44	4	2234	4	F13A1	6	6318878	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08		6318878	164796189	382	69462											
DSP	1832	broad.mit.edu	37	chr6	7585229	7585229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatgggcagtggtgtcagCgatgatgtttttagcagctc	8	12	14	7	1	1	1	1	1	0	0	2	2	1	1	0	2	4	5	0	2	1	3	rs28763970	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:7585229C>T	uc003mxp.1	+	24	8013	c.7734C>T	c.(7732-7734)AGC>AGT	p.S2578S	DSP_uc003mxq.1_Silent_p.S1979S	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2578	Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GTGGTGTCAGCGATGATGTTT	0.478													26	87					0	0	0.005443	0	0		T	7585229	T	T	7585229	2	4	127	1	0	0	0	0	0	0	0	1	4787	767	27	1		1	DSP	6	7585229	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1266351	7585229	163529838	383	69463											
TBC1D7	51256	broad.mit.edu	37	chr6	13321315	13321315	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcatgggactcgtggtgtGgaggcaagattcctagagag	9	9	17	6	1	0	2	0	0	0	2	2	5	1	4	1	5	0	2	1	5	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:13321315G>T	uc003naj.2	-	4	297	c.206C>A	c.(205-207)CCA>CAA	p.P69Q	TBC1D7_uc011dis.1_RNA|TBC1D7_uc003nan.2_Missense_Mutation_p.P69Q|TBC1D7_uc003nal.2_Missense_Mutation_p.P69Q|TBC1D7_uc003nam.2_Missense_Mutation_p.P69Q|TBC1D7_uc003nao.2_Missense_Mutation_p.P42Q|TBC1D7_uc010jpd.2_Missense_Mutation_p.P69Q|TBC1D7_uc003nap.2_Missense_Mutation_p.P42Q|TBC1D7_uc003naq.2_Missense_Mutation_p.P42Q	NM_016495	NP_057579	Q9P0N9	TBCD7_HUMAN	TBC1 domain family, member 7 isoform a	69	Rab-GAP TBC.				positive regulation of protein ubiquitination	cytoplasmic membrane-bounded vesicle	protein binding|Rab GTPase activator activity			ovary(1)	1	Breast(50;0.0296)|Ovarian(93;0.0339)	all_hematologic(90;0.135)	Epithelial(50;0.0784)|BRCA - Breast invasive adenocarcinoma(129;0.13)|all cancers(50;0.21)			CTCGTGGTGTGGAGGCAAGAT	0.463													35	216					3.6622e-26	4.15812e-26	0.003755	1	0		T	13321315	T	T	13321315	3	4	127	1	0	0	0	0	1	0	0	0	15649	1348	47	5	695	5	TBC1D7	6	13321315	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5736086	13321315	157793752	384	69464											
KIF13A	63971	broad.mit.edu	37	chr6	17826300	17826300	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attatttccccataggattcGgtcaccatgccacagctggg	9	11	9	12	1	1	0	1	0	0	0	3	1	2	1	4	3	2	1	4	3	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:17826300G>A	uc003ncg.3	-	15	1693	c.1588C>T	c.(1588-1590)CGA>TGA	p.R530*	KIF13A_uc003ncf.2_Nonsense_Mutation_p.R530*|KIF13A_uc003nch.3_Nonsense_Mutation_p.R530*|KIF13A_uc003nci.3_Nonsense_Mutation_p.R530*|KIF13A_uc003ncj.2_Nonsense_Mutation_p.R206*	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	530					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			CATAGGATTCGGTCACCATGC	0.413													23	79					0	0	0.00333	0	0		A	17826300	A	A	17826300	4	1	127	1	0	0	0	0	0	1	0	0	8290	1124	39	1	3954	1	KIF13A	6	17826300	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	4504985	17826300	153288767	385	69465											
DCDC2	51473	broad.mit.edu	37	chr6	24175061	24175061	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctttgagggtctacatcaGcctagaagaaaatagatcaa	15	10	9	7	0	4	4	2	1	2	3	4	4	4	4	1	1	2	0	1	1	7	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:24175061G>T	uc003ndx.2	-	10	1630	c.1328C>A	c.(1327-1329)GCT>GAT	p.A443D	DCDC2_uc003ndy.2_Missense_Mutation_p.A443D|DCDC2_uc003ndw.2_Missense_Mutation_p.A194D	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	443					cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				GTCTACATCAGCCTAGAAGAA	0.348													34	107					1.30293e-26	1.48175e-26	0.003271	1	0		T	24175061	T	T	24175061	3	4	127	1	0	0	0	0	1	0	0	0	4288	985	34	5	106	5	DCDC2	6	24175061	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	6348761	24175061	146940006	386	69466											
ALDH5A1	7915	broad.mit.edu	37	chr6	24528248	24528248	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaacaggtgaatgatgcCgtttctaaaggtgccaccgt	12	9	12	8	2	1	3	0	2	1	1	1	4	1	3	3	2	3	1	3	2	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:24528248C>T	uc003neg.2	+	8	1225	c.1197C>T	c.(1195-1197)GCC>GCT	p.A399A	ALDH5A1_uc003nef.2_Silent_p.A412A	NM_001080	NP_001071	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5A1 isoform 2 precursor	399					acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)	TGAATGATGCCGTTTCTAAAG	0.413													14	91					0	0	0.00245	0	0		T	24528248	T	T	24528248	2	4	127	1	0	0	0	0	0	0	0	1	502	639	23	1		1	ALDH5A1	6	24528248	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	353187	24528248	146586819	387	69467											
LRRC16A	55604	broad.mit.edu	37	chr6	25540216	25540216	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttggtggtgcatcttgggcGggagccagtggcttactatc	5	12	16	8	1	1	0	0	0	1	0	2	1	1	1	1	5	3	3	1	5	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:25540216G>A	uc011djw.1	+	26	2614	c.2238G>A	c.(2236-2238)GCG>GCA	p.A746A	LRRC16A_uc010jpx.2_Silent_p.A746A|LRRC16A_uc010jpy.2_Silent_p.A746A|LRRC16A_uc003nfa.1_Silent_p.A100A	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	746					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						CATCTTGGGCGGGAGCCAGTG	0.398													6	20					0	0	0.001168	0	0		A	25540216	A	A	25540216	2	1	127	1	0	0	0	0	0	0	0	1	8989	1103	39	1		1	LRRC16A	6	25540216	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1011968	25540216	145574851	388	69468											
HIST1H2BB	3018	broad.mit.edu	37	chr6	26043776	26043776	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtacacatagatagaatagCtctccttgcggctgcgctta	10	12	9	10	2	1	2	0	0	1	2	2	2	1	2	1	1	4	4	1	1	6	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:26043776C>A	uc003nfu.2	-	1	110	c.110G>T	c.(109-111)AGC>ATC	p.S37I	HIST1H3C_uc003nfv.2_5'Flank	NM_021062	NP_066406	P33778	H2B1B_HUMAN	histone cluster 1, H2bb	37					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GATAGAATAGCTCTCCTTGCG	0.512													40	218					7.04047e-22	7.94928e-22	0.005524	1	0		A	26043776	A	A	26043776	3	1	127	1	0	0	0	0	1	0	0	0	7157	797	28	5	274	5	HIST1H2BB	6	26043776	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	503560	26043776	145071291	389	69469											
BTN2A1	11120	broad.mit.edu	37	chr6	26468202	26468202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtcctggatccagacaccGctcatcccgatctcttcctg	6	11	8	16	2	2	1	1	0	1	1	7	3	6	2	5	2	0	1	5	2	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:26468202G>A	uc003nib.1	+	8	1221	c.1009G>A	c.(1009-1011)GCT>ACT	p.A337T	BTN2A1_uc003nic.1_3'UTR|BTN2A1_uc003nid.1_Missense_Mutation_p.A185T|BTN2A1_uc011dko.1_Missense_Mutation_p.A276T|BTN2A1_uc010jqk.1_Missense_Mutation_p.A97T	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1	337	Cytoplasmic (Potential).|B30.2/SPRY.				lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						TCCAGACACCGCTCATCCCGA	0.577													20	100					0	0	0.010504	0	0		A	26468202	A	A	26468202	3	1	127	1	0	0	0	0	1	0	0	0	1563	1087	38	1	1062	1	BTN2A1	6	26468202	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	424426	26468202	144646865	390	69470											
PGBD1	84547	broad.mit.edu	37	chr6	28269790	28269790	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgctgataacgaagaaaTccctcagataagtcaaccat	16	9	7	9	1	2	4	2	2	0	2	3	5	3	4	2	0	3	1	2	0	5	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:28269790T>A	uc003nky.2	+	7	2529	c.2159T>A	c.(2158-2160)ATC>AAC	p.I720N	PGBD1_uc003nkz.2_Missense_Mutation_p.I720N	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	720					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						AACGAAGAAATCCCTCAGATA	0.413													30	99					0	0	0.009535	0	0		A	28269790	A	A	28269790	3	1	127	1	0	0	0	0	1	0	0	0	11799	1435	50	5	2181	5	PGBD1	6	28269790	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1801588	28269790	142845277	391	69471											
SCAND3	114821	broad.mit.edu	37	chr6	28541299	28541299	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagaattcttttggttgTgaacttatttctttatgttt	9	22	6	4	0	3	2	1	1	2	1	3	2	3	2	0	1	1	2	0	1	5	9			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:28541299T>C	uc003nlo.2	-	4	2985	c.2367A>G	c.(2365-2367)TCA>TCG	p.S789S		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	789					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						cttttggttgtgaacttattt	0													21	72					0	0	0.008871	0	0		C	28541299	C	C	28541299	2	2	127	1	0	0	0	0	0	0	0	1	13901	1683	59	3		3	SCAND3	6	28541299	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	271509	28541299	142573768	392	69472											
OR2B3	442184	broad.mit.edu	37	chr6	29054462	29054462	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggctttgtgtcagcacaTgacaacttgagaagtgcagg	12	10	12	7	0	1	2	1	2	0	1	1	3	1	2	0	2	3	3	0	2	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:29054462T>C	uc003nlx.2	-	1	629	c.564A>G	c.(562-564)TCA>TCG	p.S188S		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						TGTCAGCACATGACAACTTGA	0.458													19	70					0	0	0.007413	0	0		C	29054462	C	C	29054462	2	2	127	1	0	0	0	0	0	0	0	1	11009	1451	51	3		3	OR2B3	6	29054462	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	513163	29054462	142060605	393	69473											
MAS1L	116511	broad.mit.edu	37	chr6	29455673	29455673	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccagcaaattttcccccAgaccatggggtgctgggacc	10	7	11	13	0	0	1	0	0	0	1	1	3	1	2	5	3	3	2	5	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:29455673A>G	uc011dlq.1	-	1	7	c.7T>C	c.(7-9)TGG>CGG	p.W3R		NM_052967	NP_443199	P35410	MAS1L_HUMAN	MAS1 oncogene-like	3	Extracellular (Potential).					cytoplasm|integral to membrane|nucleus|plasma membrane	G-protein coupled receptor activity			ovary(7)|lung(2)	9						ATTTTCCCCCAGACCATGGGG	0.547													12	45					0	0	0.010729	0	0		G	29455673	G	G	29455673	3	3	127	1	0	0	0	0	1	0	0	0	9339	188	7	3	1131	3	MAS1L	6	29455673	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	401211	29455673	141659394	394	69474											
ZFP57	346171	broad.mit.edu	37	chr6	29641061	29641061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggtgtatcttctggtggCgtttgagctcagactggtcc	4	16	13	8	1	3	2	1	1	2	1	4	2	4	2	1	4	1	3	1	4	1	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:29641061C>T	uc011dlw.1	-	4	978	c.827G>A	c.(826-828)CGC>CAC	p.R276H	ZFP57_uc003nnl.3_Missense_Mutation_p.R256H	NM_001109809	NP_001103279	Q9NU63	ZFP57_HUMAN	zinc finger protein 57 homolog	192	C2H2-type 4.				DNA methylation involved in embryo development|regulation of gene expression by genetic imprinting|transcription, DNA-dependent		DNA binding|zinc ion binding	p.R276R(1)		ovary(3)|skin(2)	5						CTTCTGGTGGCGTTTGAGCTC	0.567													34	168					0	0	0.003271	0	0		T	29641061	T	T	29641061	3	4	127	1	0	0	0	0	1	0	0	0	17676	768	27	1	787	1	ZFP57	6	29641061	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	185388	29641061	141474006	395	69475											
HLA-G	3135	broad.mit.edu	37	chr6	29795994	29795994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggtggagcaggaggggccgGagtattgggaagaggagaca	11	4	22	4	1	0	2	0	0	0	2	0	7	0	6	1	8	1	2	1	8	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:29795994G>A	uc003nnw.2	+	3	422	c.244G>A	c.(244-246)GAG>AAG	p.E82K	HLA-G_uc011dmb.1_Missense_Mutation_p.E54K|HLA-G_uc003raj.3_Missense_Mutation_p.E87K|HLA-G_uc003nnz.3_Missense_Mutation_p.E82K|HLA-G_uc010jrn.2_Missense_Mutation_p.E82K|HLA-G_uc003nny.3_RNA|HLA-G_uc003ran.1_5'Flank	NM_002127	NP_002118	P17693	HLAG_HUMAN	major histocompatibility complex, class I, G	82	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I|cellular defense response|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			ovary(3)|central_nervous_system(1)	4						GGAGGGGCCGGAGTATTGGGA	0.647													4	32					0	0	0.009096	0	0		A	29795994	A	A	29795994	3	1	127	1	0	0	0	0	1	0	0	0	7228	1175	41	4	250	4	HLA-G	6	29795994	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	154933	29795994	141319073	396	69476											
MDC1	9656	broad.mit.edu	37	chr6	30671881	30671881	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcaggggtggtaggaacCggcatagctcttactgtgga	10	10	14	7	1	2	0	1	0	1	0	2	2	2	2	1	6	3	3	1	6	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:30671881C>T	uc003nrg.3	-	10	5519	c.5079G>A	c.(5077-5079)CCG>CCA	p.P1693P	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Silent_p.P1300P	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1693					cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TGGTAGGAACCGGCATAGCTC	0.542								Other_conserved_DNA_damage_response_genes					29	124					0	0	0.008361	0	0		T	30671881	T	T	30671881	2	4	127	1	0	0	0	0	0	0	0	1	9421	639	23	1		1	MDC1	6	30671881	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	875887	30671881	140443186	397	69477											
VARS2	57176	broad.mit.edu	37	chr6	30890973	30890973	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcgctttatcctcaatgctTtaggggagaaatttgtgcca	9	15	9	8	1	1	1	1	0	0	1	3	2	2	1	2	2	2	2	2	2	4	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:30890973T>C	uc003nsc.1	+	23	2910	c.2278T>C	c.(2278-2280)TTA>CTA	p.L760L	VARS2_uc011dmx.1_Silent_p.L760L|VARS2_uc011dmy.1_Silent_p.L620L|VARS2_uc011dmz.1_Silent_p.L790L|VARS2_uc011dna.1_Silent_p.L758L|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_Silent_p.L198L|VARS2_uc010jsg.1_Silent_p.L132L|VARS2_uc010jsh.1_5'UTR	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	760					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						CCTCAATGCTTTAGGGGAGAA	0.532													34	121					0	0	0.003755	0	0		C	30890973	C	C	30890973	2	2	127	1	0	0	0	0	0	0	0	1	17150	1838	64	3		3	VARS2	6	30890973	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	219092	30890973	140224094	398	69478											
ATP6V1G2	534	broad.mit.edu	37	chr6	31513913	31513913	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttgctctggaattcgtgCtctcgctctctgcggtattg	3	16	11	11	3	3	0	0	0	3	0	6	1	3	1	0	2	4	5	0	2	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:31513913C>A	uc003nua.2	-	2	447	c.156G>T	c.(154-156)GAG>GAT	p.E52D	BAT1_uc003ntv.2_5'UTR|ATP6V1G2_uc003ntz.2_Missense_Mutation_p.E11D|NFKBIL1_uc011dnr.1_5'Flank|NFKBIL1_uc011dns.1_5'Flank|NFKBIL1_uc011dnt.1_5'Flank|NFKBIL1_uc003nuc.2_5'Flank|NFKBIL1_uc003nub.2_5'Flank	NM_130463	NP_569730	O95670	VATG2_HUMAN	ATPase, H+ transporting, lysosomal, V1 subunit	52					cellular iron ion homeostasis|insulin receptor signaling pathway|proton transport|transferrin transport	cytosol|melanosome|vacuolar proton-transporting V-type ATPase complex	hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances|protein binding				0						GGAATTCGTGCTCTCGCTCTC	0.582													28	135					4.02929e-09	4.30581e-09	0.010818	1	0		A	31513913	A	A	31513913	3	1	127	1	0	0	0	0	1	0	0	0	1188	796	28	5	208	5	ATP6V1G2	6	31513913	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	622940	31513913	139601154	399	69479											
EHMT2	10919	broad.mit.edu	37	chr6	31855364	31855364	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggcactcacacagcatcagGatcaccttctgcagctcgcc	9	8	8	16	1	4	0	3	0	1	0	5	1	4	1	2	2	3	4	2	2	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:31855364G>A	uc003nxz.1	-	15	2011	c.2001C>T	c.(1999-2001)ATC>ATT	p.I667I	EHMT2_uc003nxv.1_5'Flank|EHMT2_uc003nxw.1_5'Flank|EHMT2_uc003nxx.1_5'Flank|EHMT2_uc003nxy.1_Silent_p.I458I|EHMT2_uc011don.1_Silent_p.I690I|EHMT2_uc003nya.1_Silent_p.I633I	NM_006709	NP_006700	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	667	ANK 1.				DNA methylation|peptidyl-lysine dimethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			ovary(1)	1						ACAGCATCAGGATCACCTTCT	0.383													7	49					0	0	0.004482	0	0		A	31855364	A	A	31855364	2	1	127	1	0	0	0	0	0	0	0	1	4990	1164	41	4		4	EHMT2	6	31855364	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	341451	31855364	139259703	400	69480											
C4A	720	broad.mit.edu	37	chr6	31994882	31994882	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgtcctctataactacCtggataaaaacctgactgtg	11	11	8	11	0	1	1	0	1	1	0	2	2	2	2	4	2	3	0	4	2	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:31994882C>T	uc011dpd.1	+	20	2626	c.2575C>T	c.(2575-2577)CTG>TTG	p.L859L	C4A_uc011dpe.1_Silent_p.L859L	NM_007293	NP_009224	P0C0L4	CO4A_HUMAN	complement component 4A preproprotein	859					complement activation, classical pathway|inflammatory response|innate immune response	extracellular space	endopeptidase inhibitor activity				0						CTATAACTACCTGGATAAAAA	0.637													16	136					0	0	0.014323	0	0		T	31994882	T	T	31994882	2	4	127	1	0	0	0	0	0	0	0	1	2250	680	24	4		4	C4A	6	31994882	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	139518	31994882	139120185	401	69481											
NOTCH4	4855	broad.mit.edu	37	chr6	32164828	32164828	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgcgagcgtccactgcagTttgtctgctacggagcagaa	8	10	13	10	3	1	1	0	0	1	1	2	3	2	2	1	1	6	4	1	1	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:32164828T>C	uc003obb.2	-	28	5213	c.5074A>G	c.(5074-5076)ACT>GCT	p.T1692A	GPSM3_uc003oaz.2_5'Flank|NOTCH4_uc011dpt.1_Missense_Mutation_p.T101A|NOTCH4_uc003oba.2_Missense_Mutation_p.T352A|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc011dpw.1_Missense_Mutation_p.T101A	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1692	Cytoplasmic (Potential).|ANK 2.				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						TCCACTGCAGTTTGTCTGCTA	0.592													12	88					0	0	0.007413	0	0		C	32164828	C	C	32164828	3	2	127	1	0	0	0	0	1	0	0	0	10570	1725	60	3	949	3	NOTCH4	6	32164828	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	169946	32164828	138950239	402	69482											
HLA-DRA	3122	broad.mit.edu	37	chr6	32410443	32410443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctggaaatcatgacaaagCgctccaactatactccgatc	14	8	6	13	2	1	1	1	1	0	0	4	3	3	2	3	1	3	1	3	1	5	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:32410443C>T	uc003obh.2	+	2	382	c.301C>T	c.(301-303)CGC>TGC	p.R101C	HLA-DRA_uc003obi.2_Missense_Mutation_p.R101C	NM_019111	NP_061984	P01903	DRA_HUMAN	major histocompatibility complex, class II, DR	101	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|Golgi apparatus|integral to plasma membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity			ovary(1)|skin(1)	2						CATGACAAAGCGCTCCAACTA	0.488									T-cell_Lymphoma_(Cutaneous)__Familial_Clustering_of|Kaposi_Sarcoma_Familial_Clustering_of				38	151					0	0	0.009718	0	0		T	32410443	T	T	32410443	3	4	127	1	0	0	0	0	1	0	0	0	7223	768	27	1	307	1	HLA-DRA	6	32410443	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	245615	32410443	138704624	403	69483											
BRD2	6046	broad.mit.edu	37	chr6	32943277	32943277	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gattttaataccatgttcacCaactgttacatttacaacaa	15	14	3	9	0	1	0	1	0	0	0	1	1	1	0	2	0	5	2	2	0	7	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:32943277C>T	uc003ocn.3	+	4	2151	c.450C>T	c.(448-450)ACC>ACT	p.T150T	BRD2_uc003oco.2_RNA|BRD2_uc003ocq.3_Silent_p.T150T|BRD2_uc003ocp.3_Silent_p.T30T|BRD2_uc010juh.2_Silent_p.T150T	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	150	Bromo 1.				spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						CCATGTTCACCAACTGTTACA	0.353													18	78					0	0	0.008871	0	0		T	32943277	T	T	32943277	2	4	127	1	0	0	0	0	0	0	0	1	1505	581	21	4		4	BRD2	6	32943277	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	532834	32943277	138171790	404	69484											
WDR46	9277	broad.mit.edu	37	chr6	33255222	33255222	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagctcaatgccctgattGtcatagatgtggagccagcg	9	10	13	9	1	2	2	2	1	0	1	2	4	2	4	2	2	4	1	2	2	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:33255222G>A	uc003ods.2	-	8	833	c.789C>T	c.(787-789)GAC>GAT	p.D263D	WDR46_uc011dra.1_Silent_p.D209D|WDR46_uc010juo.1_RNA|PFDN6_uc003odt.1_5'Flank|PFDN6_uc010jup.1_5'Flank	NM_005452	NP_005443	O15213	WDR46_HUMAN	WD repeat domain 46 isoform 1	263	WD 2.										0						TGCCCTGATTGTCATAGATGT	0.552													20	52					0	0	0.010504	0	0		A	33255222	A	A	33255222	2	1	127	1	0	0	0	0	0	0	0	1	17325	1368	48	4		4	WDR46	6	33255222	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	311945	33255222	137859845	405	69485											
ITPR3	3710	broad.mit.edu	37	chr6	33658716	33658716	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgacctcatctaccgcgAggagacgctgttcaacgtca	9	10	9	13	4	4	2	3	1	1	1	4	4	4	2	2	1	2	2	2	1	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:33658716A>G	uc011drk.1	+	52	7274	c.7055A>G	c.(7054-7056)GAG>GGG	p.E2352G	ITPR3_uc003oey.2_Missense_Mutation_p.E439G	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	2352	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						ATCTACCGCGAGGAGACGCTG	0.607													17	72					0	0	0.008871	0	0		G	33658716	G	G	33658716	3	3	127	1	0	0	0	0	1	0	0	0	7938	304	11	3	7261	3	ITPR3	6	33658716	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	403494	33658716	137456351	406	69486											
SRPK1	6732	broad.mit.edu	37	chr6	35825051	35825051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acattaccatgcatgccgtgCtccaaatgtcagcaggggta	11	9	10	11	1	1	0	1	0	0	0	2	0	2	0	3	2	5	4	3	2	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:35825051C>T	uc003olj.2	-	13	1730	c.1607G>A	c.(1606-1608)AGC>AAC	p.S536N	SRPK1_uc011dtg.1_Missense_Mutation_p.S520N|SRPK1_uc003olh.2_Missense_Mutation_p.S429N|SRPK1_uc003oli.2_Missense_Mutation_p.S429N	NM_003137	NP_003128	Q96SB4	SRPK1_HUMAN	SFRS protein kinase 1	536	Protein kinase.				cell differentiation|chromosome segregation|interspecies interaction between organisms|intracellular protein kinase cascade|mRNA processing|negative regulation of viral genome replication|positive regulation of viral genome replication|regulation of mRNA processing|RNA splicing	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						GCATGCCGTGCTCCAAATGTC	0.398													3	19					0	0	0.004672	0	0		T	35825051	T	T	35825051	3	4	127	1	0	0	0	0	1	0	0	0	15184	797	28	2	376	2	SRPK1	6	35825051	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2166335	35825051	135290016	407	69487											
PIM1	5292	broad.mit.edu	37	chr6	37139205	37139205	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacctcaatcgcggcgagcTcaagctcatcgacttcgggt	8	8	11	14	6	3	0	3	0	0	0	6	3	3	0	1	2	2	2	1	2	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:37139205T>C	uc003onk.2	+	4	975	c.545T>C	c.(544-546)CTC>CCC	p.L182P	PIM1_uc011dtw.1_5'Flank	NM_002648	NP_002639	P11309	PIM1_HUMAN	non-specific serine/threonine protein kinase	273	Protein kinase.				cell cycle|cell proliferation|multicellular organismal development|negative regulation of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|protein autophosphorylation	cytoplasm|nucleus|plasma membrane	ATP binding|manganese ion binding|protein binding|protein binding|protein serine/threonine kinase activity|transcription factor binding			large_intestine(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(102;0.241)		Adenosine monophosphate(DB00131)	CGCGGCGAGCTCAAGCTCATC	0.642			T	BCL6	NHL								8	48					0	0	0.004482	0	0		C	37139205	C	C	37139205	3	2	127	1	0	0	0	0	1	0	0	0	11946	1551	54	3	559	3	PIM1	6	37139205	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1314154	37139205	133975862	408	69488											
FTSJD2	23070	broad.mit.edu	37	chr6	37445388	37445388	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaggaggtgtacagacTggaagagatggagaagattt	14	8	17	2	0	0	5	0	1	0	4	0	9	0	7	0	5	1	1	0	5	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:37445388T>C	uc003ons.2	+	21	2379	c.2126T>C	c.(2125-2127)CTG>CCG	p.L709P		NM_015050	NP_055865	Q8N1G2	MTR1_HUMAN	FtsJ methyltransferase domain containing 2	709					mRNA capping	cytoplasm|nucleus	mRNA (nucleoside-2'-O-)-methyltransferase activity|nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GTGTACAGACTGGAAGAGATG	0.557													45	214					0	0	0.01441	0	0		C	37445388	C	C	37445388	3	2	127	1	0	0	0	0	1	0	0	0	6105	1580	55	3	2204	3	FTSJD2	6	37445388	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	306183	37445388	133669679	409	69489											
GLP1R	2740	broad.mit.edu	37	chr6	39041530	39041530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggatcttcaggctctacGtgagcataggctggggtaag	10	10	14	7	1	3	1	1	1	2	0	3	2	3	2	0	5	2	4	0	5	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:39041530G>A	uc003ooj.3	+	7	868	c.808G>A	c.(808-810)GTG>ATG	p.V270M	GLP1R_uc003ooh.2_RNA|GLP1R_uc003ooi.2_RNA	NM_002062	NP_002053	P43220	GLP1R_HUMAN	glucagon-like peptide 1 receptor precursor	270	Helical; Name=4; (Potential).				activation of adenylate cyclase activity|cAMP-mediated signaling|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	glucagon receptor activity|peptide receptor activity, G-protein coupled			lung(3)|breast(1)|pancreas(1)	5					Exenatide(DB01276)|Glucagon recombinant(DB00040)	CAGGCTCTACGTGAGCATAGG	0.567													20	99					0	0	0.010504	0	0		A	39041530	A	A	39041530	3	1	127	1	0	0	0	0	1	0	0	0	6467	1145	40	1	834	1	GLP1R	6	39041530	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1596142	39041530	132073537	410	69490											
FOXP4	116113	broad.mit.edu	37	chr6	41533642	41533642	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgggcagggaagtgaccacGggtgcagacagcaatggtga	12	4	17	8	2	0	3	0	2	0	1	0	4	0	4	1	4	2	3	1	4	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:41533642G>A	uc003oql.2	+	2	602	c.144G>A	c.(142-144)ACG>ACA	p.T48T	FOXP4_uc003oqm.2_Silent_p.T48T|FOXP4_uc003oqn.2_Silent_p.T48T	NM_001012426	NP_001012426	Q8IVH2	FOXP4_HUMAN	forkhead box P4 isoform 1	48					embryonic foregut morphogenesis|heart development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					AAGTGACCACGGGTGCAGACA	0.637													17	85					0	0	0.006122	0	0		A	41533642	A	A	41533642	2	1	127	1	0	0	0	0	0	0	0	1	6043	1103	39	1		1	FOXP4	6	41533642	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2492112	41533642	129581425	411	69491											
PRICKLE4	29964	broad.mit.edu	37	chr6	41753259	41753259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagagttgctgcgcccgcGctgcccggcttgtgaccagg	4	8	15	14	4	0	2	0	1	0	1	0	2	0	2	3	2	4	5	3	2	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:41753259G>A	uc011duf.1	+	6	811	c.563G>A	c.(562-564)CGC>CAC	p.R188H	PRICKLE4_uc003ord.2_RNA|TOMM6_uc003org.2_5'Flank|TOMM6_uc011dug.1_5'Flank	NM_013397	NP_037529	Q2TBC4	PRIC4_HUMAN	over-expressed breast tumor protein	148	LIM zinc-binding 2.					nucleus	zinc ion binding				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CTGCGCCCGCGCTGCCCGGCT	0.612													5	55					0	0	0.001168	0	0		A	41753259	A	A	41753259	3	1	127	1	0	0	0	0	1	0	0	0	12511	1087	38	1	577	1	PRICKLE4	6	41753259	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	219617	41753259	129361808	412	69492											
TRERF1	55809	broad.mit.edu	37	chr6	42231260	42231260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggaggcggaggcggaggcGgcagtggtggctggggctga	5	4	25	7	4	0	1	0	1	0	0	0	4	0	4	0	11	0	3	0	11	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:42231260G>A	uc003osd.2	-	8	2245	c.1682C>T	c.(1681-1683)CCG>CTG	p.P561L	TRERF1_uc011duq.1_Intron|TRERF1_uc003osb.2_Intron|TRERF1_uc003osc.2_Intron|TRERF1_uc003ose.2_Missense_Mutation_p.P561L	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	561	Pro-rich.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			aggcggaggcggcagtggtgg	0.378													12	23					0	0	0.00499	0	0		A	42231260	A	A	42231260	3	1	127	1	0	0	0	0	1	0	0	0	16501	1116	39	1	1964	1	TRERF1	6	42231260	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	478001	42231260	128883807	413	69493											
GNMT	27232	broad.mit.edu	37	chr6	42930849	42930849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggcgctgaaaaacattgCgagcatggtgcgggcagggg	9	6	18	8	3	0	1	0	1	0	0	0	2	0	1	0	5	4	4	0	5	2	1	rs139815680		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:42930849C>T	uc003otd.2	+	4	497	c.491C>T	c.(490-492)GCG>GTG	p.A164V	uc003ote.1_5'Flank	NM_018960	NP_061833	Q14749	GNMT_HUMAN	glycine N-methyltransferase	164					protein homotetramerization|protein modification process|S-adenosylmethionine metabolic process		folic acid binding|glycine binding|glycine N-methyltransferase activity				0	Colorectal(47;0.196)		all cancers(41;0.00196)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0461)		Glycine(DB00145)|S-Adenosylmethionine(DB00118)	AAAAACATTGCGAGCATGGTG	0.597													9	35					0	0	0.004482	0	0		T	42930849	T	T	42930849	3	4	127	1	0	0	0	0	1	0	0	0	6555	768	27	1	505	1	GNMT	6	42930849	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	699589	42930849	128184218	414	69494											
SLC22A7	10864	broad.mit.edu	37	chr6	43271811	43271811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgactgcactggtgggccGgctggggggctctttggccc	2	9	18	12	1	1	1	0	1	1	0	1	1	1	1	2	7	1	4	2	7	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:43271811G>A	uc003out.2	+	10	1520	c.1421G>A	c.(1420-1422)CGG>CAG	p.R474Q	SLC22A7_uc003ous.2_Missense_Mutation_p.R472Q	NM_153320	NP_696961	Q9Y694	S22A7_HUMAN	solute carrier family 22 member 7 isoform b	474	Helical; (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	anion:anion antiporter activity|sodium-independent organic anion transmembrane transporter activity				0			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00998)|OV - Ovarian serous cystadenocarcinoma(102;0.0305)			CTGGTGGGCCGGCTGGGGGGC	0.627													31	187					0	0	0.004878	0	0		A	43271811	A	A	43271811	3	1	127	1	0	0	0	0	1	0	0	0	14484	1116	39	1	1455	1	SLC22A7	6	43271811	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	340962	43271811	127843256	415	69495											
CD2AP	23607	broad.mit.edu	37	chr6	47563667	47563667	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccacccaagaaacctacTccacctaccaaagccagtaa	15	5	4	17	0	0	1	0	0	0	1	2	1	2	1	7	0	4	1	7	0	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:47563667T>C	uc003oyw.2	+	12	1635	c.1179T>C	c.(1177-1179)ACT>ACC	p.T393T		NM_012120	NP_036252	Q9Y5K6	CD2AP_HUMAN	CD2-associated protein	393	Pro-rich.|SH3-binding (Potential).				cell division|mitosis|protein complex assembly|signal transduction|substrate-dependent cell migration, cell extension	cytoplasm|filamentous actin|nucleolus|plasma membrane|ruffle	SH3 domain binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2			Lung(136;0.105)|LUSC - Lung squamous cell carcinoma(51;0.138)			AGAAACCTACTCCACCTACCA	0.413													53	262					0	0	0.01441	0	0		C	47563667	C	C	47563667	2	2	127	1	0	0	0	0	0	0	0	1	2997	1538	54	3		3	CD2AP	6	47563667	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	4291856	47563667	123551400	416	69496											
HMGCLL1	54511	broad.mit.edu	37	chr6	55300543	55300543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtcaccagcttccatcaCtttgtatagattcacaccct	12	12	4	13	0	3	1	3	0	0	1	4	1	4	1	3	0	1	2	3	0	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:55300543C>T	uc003pcn.2	-	10	1189	c.1030G>A	c.(1030-1032)GTG>ATG	p.V344M	HMGCLL1_uc003pco.2_Missense_Mutation_p.V314M|HMGCLL1_uc010jzx.2_Missense_Mutation_p.V215M|HMGCLL1_uc011dxc.1_Missense_Mutation_p.V282M|HMGCLL1_uc011dxd.1_Missense_Mutation_p.V211M|HMGCLL1_uc011dxe.1_Missense_Mutation_p.V148M	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	344							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			GCTTCCATCACTTTGTATAGA	0.358													13	50					0	0	0.001855	0	0		T	55300543	T	T	55300543	3	4	127	1	0	0	0	0	1	0	0	0	7246	565	20	4	86	4	HMGCLL1	6	55300543	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7736876	55300543	115814524	417	69497											
BMP5	653	broad.mit.edu	37	chr6	55620338	55620338	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattatttaatattagtggCagccacatgagcgtactacc	13	13	7	8	1	0	1	0	1	0	0	0	1	0	1	2	1	4	2	2	1	7	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:55620338C>A	uc003pcq.2	-	7	2070	c.1358G>T	c.(1357-1359)TGC>TTC	p.C453F	BMP5_uc011dxf.1_Missense_Mutation_p.C416F	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	453					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			ATATTAGTGGCAGCCACATGA	0.328													16	31					7.05477e-17	7.90245e-17	0.00499	1	0		A	55620338	A	A	55620338	3	1	127	1	0	0	0	0	1	0	0	0	1464	710	25	5	10	5	BMP5	6	55620338	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	319795	55620338	115494729	418	69498											
DST	667	broad.mit.edu	37	chr6	56506814	56506814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacatcaattacatgctggCgtaaaaggttctcacattca	13	12	7	9	1	3	0	3	0	1	0	4	0	3	0	0	2	3	4	0	2	5	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:56506814C>T	uc003pdf.2	-	16	1887	c.1859G>A	c.(1858-1860)CGC>CAC	p.R620H	DST_uc003pcz.3_Missense_Mutation_p.R442H|DST_uc011dxj.1_Missense_Mutation_p.R471H|DST_uc011dxk.1_Missense_Mutation_p.R482H|DST_uc011dxl.1_Missense_Mutation_p.R471H|DST_uc003pcy.3_Missense_Mutation_p.R116H|DST_uc003pdb.2_Missense_Mutation_p.R116H|DST_uc003pdc.3_Missense_Mutation_p.R116H|DST_uc003pdd.3_Missense_Mutation_p.R116H|DST_uc003pde.2_Missense_Mutation_p.R558H	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	442					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TACATGCTGGCGTAAAAGGTT	0.358													21	60					0	0	0.008871	0	0		T	56506814	T	T	56506814	3	4	127	1	0	0	0	0	1	0	0	0	4789	768	27	1	20136	1	DST	6	56506814	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	886476	56506814	114608253	419	69499											
PHF3	23469	broad.mit.edu	37	chr6	64422545	64422545	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcctggcctgtcacacaaCaaggagcacttaacagaaca	14	6	8	13	0	1	1	1	0	0	1	1	2	1	2	2	2	5	1	2	2	4	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:64422545C>T	uc003pep.1	+	15	5087	c.5061C>T	c.(5059-5061)AAC>AAT	p.N1687N	PHF3_uc003pen.2_Silent_p.N1599N|PHF3_uc011dxs.1_Silent_p.N956N	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	1687					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			TGTCACACAACAAGGAGCACT	0.428													20	63					0	0	0.012319	0	0		T	64422545	T	T	64422545	2	4	127	1	0	0	0	0	0	0	0	1	11855	477	17	4		4	PHF3	6	64422545	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7915731	64422545	106692522	420	69500											
EYS	346007	broad.mit.edu	37	chr6	66205020	66205020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttatttctggaaattgaagaGatggttcagaagaaattaca	16	13	9	3	0	2	4	1	1	1	3	2	6	2	5	0	2	1	1	0	2	6	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:66205020G>A	uc011dxu.1	-	4	822	c.284C>T	c.(283-285)TCT>TTT	p.S95F	EYS_uc003peq.2_Missense_Mutation_p.S95F|EYS_uc003per.1_Missense_Mutation_p.S95F|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	95					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						AAATTGAAGAGATGGTTCAGA	0.363													27	122					0	0	0.007291	0	0		A	66205020	A	A	66205020	3	1	127	1	0	0	0	0	1	0	0	0	5340	942	33	4	9272	4	EYS	6	66205020	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1782475	66205020	104910047	421	69501											
COL12A1	1303	broad.mit.edu	37	chr6	75893741	75893741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgtgctgtcggcttcctgCagtcattggtgtgaggatga	6	12	15	8	2	1	2	1	2	0	0	3	3	2	3	1	3	3	3	1	3	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:75893741C>T	uc003phs.2	-	9	1283	c.1117G>A	c.(1117-1119)GCA>ACA	p.A373T	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_Missense_Mutation_p.A31T	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	373	Fibronectin type-III 2.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CGGCTTCCTGCAGTCATTGGT	0.493													17	86					0	0	0.00499	0	0		T	75893741	T	T	75893741	3	4	127	1	0	0	0	0	1	0	0	0	3672	710	25	2	8306	2	COL12A1	6	75893741	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	9688721	75893741	95221326	422	69502											
MYO6	4646	broad.mit.edu	37	chr6	76540214	76540214	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcagaagcaataaagtcaTatcaaggaaaatctcttggg	16	10	8	7	0	4	1	3	0	1	1	5	2	4	2	0	2	1	1	0	2	8	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:76540214T>C	uc003pih.1	+	5	622	c.343T>C	c.(343-345)TAT>CAT	p.Y115H	MYO6_uc003pig.1_Missense_Mutation_p.Y115H|MYO6_uc003pii.1_Missense_Mutation_p.Y115H	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	115	Myosin head-like.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		AATAAAGTCATATCAAGGAAA	0.308													24	76					0	0	0.00333	0	0		C	76540214	C	C	76540214	3	2	127	1	0	0	0	0	1	0	0	0	10099	1406	49	3	357	3	MYO6	6	76540214	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	646473	76540214	94574853	423	69503											
IMPG1	3617	broad.mit.edu	37	chr6	76660365	76660365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggccatgttagcaacacGcagactgaagaacactacca	16	5	9	11	1	0	3	0	1	0	2	0	4	0	3	2	1	4	3	2	1	6	2	rs142123216		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:76660365G>A	uc003pik.1	-	13	1868	c.1738C>T	c.(1738-1740)CGT>TGT	p.R580C		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	580	SEA 2.				visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				TTAGCAACACGCAGACTGAAG	0.517													19	42					0	0	0.007413	0	0		A	76660365	A	A	76660365	3	1	127	1	0	0	0	0	1	0	0	0	7744	1087	38	1	675	1	IMPG1	6	76660365	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	120151	76660365	94454702	424	69504											
TBX18	9096	broad.mit.edu	37	chr6	85446535	85446535	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcaacatctgccgatcCgtcatggtcccactcggtga	7	8	13	13	3	2	1	1	1	1	0	5	2	4	1	3	4	2	1	3	4	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:85446535C>T	uc003pkl.1	-	8	1692	c.1692G>A	c.(1690-1692)ACG>ACA	p.T564T	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	564					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TCTGCCGATCCGTCATGGTCC	0.522													23	107					0	0	0.003954	0	0		T	85446535	T	T	85446535	2	4	127	1	0	0	0	0	0	0	0	1	15678	639	23	1		1	TBX18	6	85446535	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	8786170	85446535	85668532	425	69505											
MDN1	23195	broad.mit.edu	37	chr6	90402760	90402760	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggtgacgtagtggtggAtctcctgaaccagggactcg	7	10	15	9	2	1	2	0	2	1	0	3	4	1	4	2	4	2	2	2	4	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:90402760A>T	uc003pnn.1	-	63	10105	c.9989T>A	c.(9988-9990)ATC>AAC	p.I3330N		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	3330					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GTAGTGGTGGATCTCCTGAAC	0.572													13	43					0	0	0.003163	0	0		T	90402760	T	T	90402760	3	4	127	1	0	0	0	0	1	0	0	0	9433	333	12	5	6961	5	MDN1	6	90402760	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	4956225	90402760	80712307	426	69506											
FUT9	10690	broad.mit.edu	37	chr6	96651915	96651915	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtggaagattataactctcCcagtgagctagcaaagtatc	13	11	9	8	0	1	2	0	1	1	1	3	3	1	3	1	1	3	3	1	1	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:96651915C>A	uc003pop.3	+	3	1225	c.884C>A	c.(883-885)CCC>CAC	p.P295H		NM_006581	NP_006572	Q9Y231	FUT9_HUMAN	fucosyltransferase 9 (alpha (1,3)	295	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			skin(4)|ovary(1)	5		all_cancers(76;4.77e-07)|Acute lymphoblastic leukemia(125;4.01e-09)|all_hematologic(75;1.25e-06)|all_epithelial(107;0.00279)|Colorectal(196;0.0356)		BRCA - Breast invasive adenocarcinoma(108;0.08)		TATAACTCTCCCAGTGAGCTA	0.393													16	77					6.31663e-08	6.68958e-08	0.003163	1	0		A	96651915	A	A	96651915	3	1	127	1	0	0	0	0	1	0	0	0	6125	623	22	5	886	5	FUT9	6	96651915	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	6249155	96651915	74463152	427	69507											
KLHL32	114792	broad.mit.edu	37	chr6	97562222	97562222	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgctgggtgccatggaGgaatacctctatgcagttgg	7	13	14	7	0	1	0	0	0	1	0	1	2	1	2	2	4	4	3	2	4	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:97562222G>A	uc010kcm.1	+	7	1663	c.1191G>A	c.(1189-1191)GAG>GAA	p.E397E	KLHL32_uc003poy.2_Silent_p.E397E|KLHL32_uc011ead.1_Silent_p.E361E|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Silent_p.E328E|KLHL32_uc003ppa.2_Intron	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	397	Kelch 2.									ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		GTGCCATGGAGGAATACCTCT	0.517													9	56					0	0	0.008291	0	0		A	97562222	A	A	97562222	2	1	127	1	0	0	0	0	0	0	0	1	8402	991	35	4		4	KLHL32	6	97562222	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	910307	97562222	73552845	428	69508											
POU3F2	5454	broad.mit.edu	37	chr6	99283635	99283635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cggacgtggggctggctctgGgcaccctgtatggcaacgtg	5	8	17	11	3	1	0	0	0	1	0	1	1	1	1	1	6	1	5	1	6	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:99283635G>A	uc003ppe.2	+	1	1056	c.886G>A	c.(886-888)GGC>AGC	p.G296S		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	296	POU-specific.				positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)		GCTGGCTCTGGGCACCCTGTA	0.582													62	342					0	0	0.01441	0	0		A	99283635	A	A	99283635	3	1	127	1	0	0	0	0	1	0	0	0	12294	1232	43	4	888	4	POU3F2	6	99283635	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1721413	99283635	71831432	429	69509											
BVES	11149	broad.mit.edu	37	chr6	105577343	105577343	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattatatccaaggcacatcGgtagagagtggcccagacga	13	7	11	10	2	0	2	0	0	0	2	2	4	1	2	2	3	0	2	2	3	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:105577343G>A	uc003pqw.2	-	3	419	c.262C>T	c.(262-264)CGA>TGA	p.R88*	BVES_uc003pqx.2_Nonsense_Mutation_p.R88*|BVES_uc003pqy.2_Nonsense_Mutation_p.R88*	NM_147147	NP_671488	Q8NE79	POPD1_HUMAN	blood vessel epicardial substance isoform 5	88	Helical; (Potential).				epithelial cell-cell adhesion|muscle organ development|positive regulation of locomotion|positive regulation of receptor recycling|regulation of Cdc42 GTPase activity|regulation of cell shape|regulation of Rac GTPase activity|substrate adhesion-dependent cell spreading|vesicle-mediated transport	integral to membrane|lateral plasma membrane|tight junction	structural molecule activity				0		all_cancers(87;2.83e-05)|Acute lymphoblastic leukemia(125;1.95e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0101)|Colorectal(196;0.204)|Lung NSC(302;0.238)				AAGGCACATCGGTAGAGAGTG	0.393													19	87					0	0	0.008871	0	0		A	105577343	A	A	105577343	4	1	127	1	0	0	0	0	0	1	0	0	1578	1124	39	1	844	1	BVES	6	105577343	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	6293708	105577343	65537724	430	69510											
ARMC2	84071	broad.mit.edu	37	chr6	109285402	109285402	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccacaggttcatgatggcGctgctggatgctcagcatca	8	10	12	11	1	3	1	3	1	0	0	4	2	4	2	1	3	3	5	1	3	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:109285402G>A	uc003pss.3	+	16	2346	c.2172G>A	c.(2170-2172)GCG>GCA	p.A724A	ARMC2_uc011eao.1_Silent_p.A559A	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	724	ARM 11.						binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)		TCATGATGGCGCTGCTGGATG	0.473													10	45					0	0	0.006214	0	0		A	109285402	A	A	109285402	2	1	127	1	0	0	0	0	0	0	0	1	952	1074	38	1		1	ARMC2	6	109285402	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3708059	109285402	61829665	431	69511											
ZBTB24	9841	broad.mit.edu	37	chr6	109787338	109787338	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagctgaaagaattaaatTctgcagttgctctggctgct	10	14	10	7	0	2	3	0	2	2	1	2	3	2	3	0	1	4	6	0	1	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:109787338T>C	uc003ptl.1	-	7	1978	c.1810A>G	c.(1810-1812)AAT>GAT	p.N604D	MICAL1_uc011eaq.1_5'Flank|ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Missense_Mutation_p.N548D|ZBTB24_uc010kdt.1_RNA	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	604					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		AGAATTAAATTCTGCAGTTGC	0.493													24	104					0	0	0.00333	0	0		C	109787338	C	C	109787338	3	2	127	1	0	0	0	0	1	0	0	0	17556	1783	62	3	287	3	ZBTB24	6	109787338	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	501936	109787338	61327729	432	69512											
AKD1	221264	broad.mit.edu	37	chr6	109815261	109815261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttgggctttaagcatcccGctgcattcattgctttaatt	8	16	7	10	1	1	0	1	0	0	0	2	0	2	0	1	1	3	5	1	1	2	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:109815261G>A	uc003ptn.2	-	40	5533	c.5456C>T	c.(5455-5457)GCG>GTG	p.A1819V	AKD1_uc011eas.1_Missense_Mutation_p.A204V	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1819					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TAAGCATCCCGCTGCATTCAT	0.368													10	102					0	0	0.001855	0	0		A	109815261	A	A	109815261	3	1	127	1	0	0	0	0	1	0	0	0	460	1087	38	1	287	1	AKD1	6	109815261	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	27923	109815261	61299806	433	69513											
DSE	29940	broad.mit.edu	37	chr6	116747964	116747964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactgtatggctttgctcaCgggaagcctagtcctgatga	9	11	11	10	1	1	2	1	2	0	0	2	3	2	3	2	2	3	3	2	2	4	3	rs112379267	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:116747964C>T	uc003pws.2	+	3	838	c.644C>T	c.(643-645)ACG>ATG	p.T215M	DSE_uc011ebf.1_Missense_Mutation_p.T215M|DSE_uc011ebg.1_Missense_Mutation_p.T234M|DSE_uc003pwt.2_Missense_Mutation_p.T215M	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	215					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		GCTTTGCTCACGGGAAGCCTA	0.488													13	73					0	0	0.001855	0	0		T	116747964	T	T	116747964	3	4	127	1	0	0	0	0	1	0	0	0	4780	536	19	1	650	1	DSE	6	116747964	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	6932703	116747964	54367103	434	69514											
RSPH4A	345895	broad.mit.edu	37	chr6	116938281	116938281	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgtgtggacgaagggaCgtgagctataacaacgctaa	13	7	12	9	3	0	1	0	1	0	0	0	4	0	3	1	2	3	2	1	2	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:116938281C>T	uc003pxe.2	+	1	640	c.495C>T	c.(493-495)GAC>GAT	p.D165D	RSPH4A_uc010kee.2_Silent_p.D165D	NM_001010892	NP_001010892	Q5TD94	RSH4A_HUMAN	radial spoke head 4 homolog A isoform 1	165					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton|radial spoke					0						GACGAAGGGACGTGAGCTATA	0.478									Kartagener_syndrome				36	139					0	0	0.013726	0	0		T	116938281	T	T	116938281	2	4	127	1	0	0	0	0	0	0	0	1	13731	535	19	1		1	RSPH4A	6	116938281	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	190317	116938281	54176786	435	69515											
NCOA7	135112	broad.mit.edu	37	chr6	126210800	126210800	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgactaagaacaaagaagggCcacaggtatctgaaaatttg	17	8	10	6	0	1	4	0	2	1	2	1	4	1	4	1	2	1	1	1	2	7	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:126210800C>A	uc010kes.2	+	11	2049	c.1600C>A	c.(1600-1602)CCA>ACA	p.P534T	NCOA7_uc003qae.3_Missense_Mutation_p.P534T|NCOA7_uc003qah.2_Missense_Mutation_p.P523T|NCOA7_uc003qai.2_Missense_Mutation_p.P534T|NCOA7_uc010ket.2_Missense_Mutation_p.P419T	NM_181782	NP_861447	Q8NI08	NCOA7_HUMAN	nuclear receptor coactivator 7 isoform 1	534					cell wall macromolecule catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)		CAAAGAAGGGCCACAGGTATC	0.378													18	69					2.35188e-11	2.56552e-11	0.006122	1	0		A	126210800	A	A	126210800	3	1	127	1	0	0	0	0	1	0	0	0	10253	739	26	5	1630	5	NCOA7	6	126210800	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	9272519	126210800	44904267	436	69516											
TRMT11	60487	broad.mit.edu	37	chr6	126319758	126319758	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccgcaacatgtattttcTgttttggaggattatggttt	10	17	9	5	1	1	0	0	0	1	0	1	2	1	2	1	3	2	4	1	3	4	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:126319758T>G	uc003qam.2	+	6	571	c.450T>G	c.(448-450)TCT>TCG	p.S150S	TRMT11_uc003qan.2_RNA|TRMT11_uc010kev.2_Silent_p.S150S	NM_001031712	NP_001026882	Q7Z4G4	TRM11_HUMAN	tRNA methyltransferase 11	150					tRNA processing		methyltransferase activity|nucleic acid binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0356)		ATGTATTTTCTGTTTTGGAGG	0.338													31	111					0	0	0.009535	0	0		G	126319758	G	G	126319758	2	3	127	1	0	0	0	0	0	0	0	1	16588	1567	55	5		5	TRMT11	6	126319758	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	108958	126319758	44795309	437	69517											
C6orf174	387104	broad.mit.edu	37	chr6	127797085	127797085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagggcctcggtcttggCgttgtcgtggtgccgcgcgc	1	10	17	13	6	1	0	0	0	1	0	3	0	1	0	2	4	2	2	2	4	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:127797085C>T	uc003qbd.2	-	6	2951	c.2086G>A	c.(2086-2088)GCC>ACC	p.A696T	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	696	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		TCGGTCTTGGCGTTGTCGTGG	0.647													23	94					0	0	0.012319	0	0		T	127797085	T	T	127797085	3	4	127	1	0	0	0	0	1	0	0	0	2348	768	27	1	765	1	C6orf174	6	127797085	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1477327	127797085	43317982	438	69518											
MOXD1	26002	broad.mit.edu	37	chr6	132645229	132645229	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacctcagtccagaattatcTattaagcctagaacaaaagc	17	9	5	10	0	2	2	1	0	1	2	3	2	3	2	3	0	4	0	3	0	9	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:132645229T>C	uc003qdf.2	-	7	1053	c.954A>G	c.(952-954)ATA>ATG	p.I318M	MOXD1_uc003qde.2_Missense_Mutation_p.I250M	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	318	Lumenal (Potential).				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		CAGAATTATCTATTAAGCCTA	0.348													16	106					0	0	0.007413	0	0		C	132645229	C	C	132645229	3	2	127	1	0	0	0	0	1	0	0	0	9738	1512	53	3	911	3	MOXD1	6	132645229	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	4848144	132645229	38469838	439	69519											
BCLAF1	9774	broad.mit.edu	37	chr6	136582495	136582495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atccccttggtatttgtcatGagtccatttaggactgctac	8	15	8	10	0	1	1	1	1	0	0	3	2	3	2	3	2	2	2	3	2	3	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:136582495G>A	uc003qgx.1	-	12	2918	c.2665C>T	c.(2665-2667)CAT>TAT	p.H889Y	BCLAF1_uc011edb.1_Missense_Mutation_p.H168Y|BCLAF1_uc003qgw.1_Missense_Mutation_p.H716Y|BCLAF1_uc003qgy.1_Missense_Mutation_p.H838Y|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.H887Y	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	889					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TATTTGTCATGAGTCCATTTA	0.413													55	449					0	0	0.01441	0	0		A	136582495	A	A	136582495	3	1	127	1	0	0	0	0	1	0	0	0	1384	1290	45	4	105	4	BCLAF1	6	136582495	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3937266	136582495	34532572	440	69520											
SLC35D3	340146	broad.mit.edu	37	chr6	137243812	137243812	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctccttcgcgggggtcgcGgtgctctccacgctgcagtc	2	9	14	16	6	1	0	0	0	1	0	6	0	2	0	2	3	2	4	2	3	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:137243812G>A	uc003qhe.2	+	1	411	c.246G>A	c.(244-246)GCG>GCA	p.A82A		NM_001008783	NP_001008783	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	82	Helical; (Potential).				carbohydrate transport	integral to membrane				ovary(1)|central_nervous_system(1)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		CGGGGGTCGCGGTGCTCTCCA	0.721													5	14					0	0	0.000602	0	0		A	137243812	A	A	137243812	2	1	127	1	0	0	0	0	0	0	0	1	14608	1103	39	1		1	SLC35D3	6	137243812	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	661317	137243812	33871255	441	69521											
AIG1	51390	broad.mit.edu	37	chr6	143605337	143605337	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggacttaccgccatatgtAccttctctgttggctatata	8	14	8	11	2	1	0	0	0	1	0	2	1	1	1	3	2	2	3	3	2	6	8	rs114392595	by1000genomes	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:143605337A>G	uc003qjh.2	+	4	530	c.490A>G	c.(490-492)ACC>GCC	p.T164A	AIG1_uc003qjf.2_Missense_Mutation_p.T154A|AIG1_uc003qji.2_Missense_Mutation_p.T102A	NM_016108	NP_057192	Q9NVV5	AIG1_HUMAN	androgen-induced 1	164						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(155;2.34e-05)|GBM - Glioblastoma multiforme(68;0.0246)		CGCCATATGTACCTTCTCTGT	0.428													4	16					0	0	0.001168	0	0		G	143605337	G	G	143605337	3	3	127	1	0	0	0	0	1	0	0	0	429	391	14	3	504	3	AIG1	6	143605337	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	6361525	143605337	27509730	442	69522											
STX11	8676	broad.mit.edu	37	chr6	144508353	144508353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagaacttgctggccgacGtgaagggcgcgcgggccgcc	6	4	17	14	7	0	2	0	1	0	1	0	4	0	2	4	3	2	1	4	3	2	1	rs141499372	by1000genomes	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:144508353G>A	uc003qks.3	+	2	781	c.589G>A	c.(589-591)GTG>ATG	p.V197M		NM_003764	NP_003755	O75558	STX11_HUMAN	syntaxin 11	197					cellular membrane fusion|intracellular protein transport|vesicle-mediated transport	Golgi apparatus|membrane	SNAP receptor activity			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(155;2.17e-06)|GBM - Glioblastoma multiforme(68;0.0492)		GCTGGCCGACGTGAAGGGCGC	0.632									Familial_Hemophagocytic_Lymphohistiocytosis				11	54					0	0	0.00245	0	0		A	144508353	A	A	144508353	3	1	127	1	0	0	0	0	1	0	0	0	15362	1145	40	1	591	1	STX11	6	144508353	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	903016	144508353	26606714	443	69523											
STXBP5	134957	broad.mit.edu	37	chr6	147612300	147612300	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggtggaattcaaaacgacTagatctgggtaagattttac	15	11	10	5	1	2	2	1	0	1	2	2	4	2	3	0	3	2	1	0	3	7	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:147612300T>C	uc003qlz.2	+	9	1070	c.909T>C	c.(907-909)ACT>ACC	p.T303T	STXBP5_uc010khz.1_Silent_p.T303T|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_5'UTR	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	303	WD 6.				exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		TCAAAACGACTAGATCTGGGT	0.333													16	63					0	0	0.006122	0	0		C	147612300	C	C	147612300	2	2	127	1	0	0	0	0	0	0	0	1	15381	1509	53	3		3	STXBP5	6	147612300	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	3103947	147612300	23502767	444	69524											
PLEKHG1	57480	broad.mit.edu	37	chr6	151130286	151130286	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggggccagacctgaccAgctacggggaactggtgctt	9	6	16	10	1	0	2	0	1	0	1	0	4	0	4	3	6	4	2	3	6	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:151130286A>G	uc003qny.1	+	9	1270	c.958A>G	c.(958-960)AGC>GGC	p.S320G	PLEKHG1_uc011eel.1_Missense_Mutation_p.S360G|PLEKHG1_uc011eem.1_Missense_Mutation_p.S379G|PLEKHG1_uc003qnz.2_Missense_Mutation_p.S320G	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	320	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		AGACCTGACCAGCTACGGGGA	0.557													13	79					0	0	0.003163	0	0		G	151130286	G	G	151130286	3	3	127	1	0	0	0	0	1	0	0	0	12087	188	7	3	984	3	PLEKHG1	6	151130286	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	3517986	151130286	19984781	445	69525											
SYNE1	23345	broad.mit.edu	37	chr6	152570298	152570298	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaggcagctataaatacctCtatttgttctgctacgggct	11	13	8	9	1	2	0	0	0	2	0	2	0	2	0	1	2	4	5	1	2	7	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:152570298C>G	uc010kiw.2	-	105	20172	c.19570G>C	c.(19570-19572)GAG>CAG	p.E6524Q	SYNE1_uc010kiv.2_Missense_Mutation_p.E1048Q|SYNE1_uc003qos.3_Missense_Mutation_p.E1048Q|SYNE1_uc003qot.3_Missense_Mutation_p.E6453Q|SYNE1_uc003qou.3_Missense_Mutation_p.E6524Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6524	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		ATAAATACCTCTATTTGTTCT	0.358										HNSCC(10;0.0054)			20	87					0	0	0.008871	0	0		G	152570298	G	G	152570298	3	3	127	1	0	0	0	0	1	0	0	0	15470	922	32	5	7064	5	SYNE1	6	152570298	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1440012	152570298	18544769	446	69526											
SYNE1	23345	broad.mit.edu	37	chr6	152765568	152765568	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatgaagaagtaactgcTgtgcttcaaacagattttca	13	12	10	6	0	2	4	2	2	0	2	2	4	2	4	0	1	4	3	0	1	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:152765568T>G	uc010kiw.2	-	30	4417	c.3815A>C	c.(3814-3816)CAG>CCG	p.Q1272P	SYNE1_uc003qot.3_Missense_Mutation_p.Q1279P|SYNE1_uc003qou.3_Missense_Mutation_p.Q1272P|SYNE1_uc010kjb.1_Missense_Mutation_p.Q1255P|SYNE1_uc003qow.2_Missense_Mutation_p.Q567P|SYNE1_uc003qox.1_Missense_Mutation_p.Q788P	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1272	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AAGTAACTGCTGTGCTTCAAA	0.353										HNSCC(10;0.0054)			32	137					0	0	0.010818	0	0		G	152765568	G	G	152765568	3	3	127	1	0	0	0	0	1	0	0	0	15470	1580	55	5	23119	5	SYNE1	6	152765568	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	195270	152765568	18349499	447	69527											
PARK2	5071	broad.mit.edu	37	chr6	161969941	161969941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttcctctggtcaggctccGgcagcagccccgctccacag	5	8	10	18	2	2	0	1	0	1	0	5	0	5	0	5	3	2	4	5	3	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:161969941G>A	uc003qtx.3	-	9	1162	c.1028C>T	c.(1027-1029)CCG>CTG	p.P343L	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Missense_Mutation_p.P152L|PARK2_uc003qtw.3_Missense_Mutation_p.P152L|PARK2_uc003qty.3_Missense_Mutation_p.P315L|PARK2_uc003qtz.3_Missense_Mutation_p.P194L|PARK2_uc010kke.1_Missense_Mutation_p.P362L|PARK2_uc011egf.1_Missense_Mutation_p.P17L	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	343	IBR-type.				aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GTCAGGCTCCGGCAGCAGCCC	0.637													26	128					0	0	0.010818	0	0		A	161969941	A	A	161969941	3	1	127	1	0	0	0	0	1	0	0	0	11468	1116	39	1	385	1	PARK2	6	161969941	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	9204373	161969941	9145126	448	69528											
PDE10A	10846	broad.mit.edu	37	chr6	165832261	165832261	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattcaccaggttttttgcaTatatctaaagacaaatgaca	15	13	5	8	0	2	2	1	1	1	1	2	2	2	2	1	1	1	2	1	1	5	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr6:165832261T>C	uc003qun.2	-	12	1071	c.830A>G	c.(829-831)TAT>TGT	p.Y277C	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.Y207C|PDE10A_uc003quo.2_Missense_Mutation_p.Y287C	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	277	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	GTTTTTTGCATATATCTAAAG	0.353													10	53					0	0	0.010729	0	0		C	165832261	C	C	165832261	3	2	127	1	0	0	0	0	1	0	0	0	11649	1406	49	3	1557	3	PDE10A	6	165832261	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	3862320	165832261	5282806	449	69529											
MAD1L1	8379	broad.mit.edu	37	chr7	2255914	2255914	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttgcagggacagcttctgCtccagatcctgatggaggcc	7	10	12	12	0	2	2	0	1	2	1	4	4	4	4	3	3	3	3	3	3	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:2255914C>T	uc003slh.1	-	8	953	c.687G>A	c.(685-687)GAG>GAA	p.E229E	MAD1L1_uc003sle.1_5'Flank|MAD1L1_uc003slf.1_Silent_p.E229E|MAD1L1_uc003slg.1_Silent_p.E229E|MAD1L1_uc010ksh.1_Silent_p.E229E|MAD1L1_uc003sli.1_Silent_p.E137E|MAD1L1_uc010ksi.1_Silent_p.E182E|MAD1L1_uc010ksj.2_Silent_p.E229E	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	229	Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		ACAGCTTCTGCTCCAGATCCT	0.343													7	49					0	0	0.001984	0	0		T	2255914	T	T	2255914	2	4	127	1	0	0	0	0	0	0	0	1	9165	796	28	2		2	MAD1L1	7	2255914	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08		2255914	156882749	450	69530											
SDK1	221935	broad.mit.edu	37	chr7	4188999	4188999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgacggggcctcccccatccGgtacttcaccatgcaggtgc	6	7	11	17	3	1	0	1	0	0	0	3	1	3	0	5	4	3	2	5	4	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:4188999G>A	uc003smx.2	+	30	4668	c.4529G>A	c.(4528-4530)CGG>CAG	p.R1510Q	SDK1_uc010kso.2_Missense_Mutation_p.R786Q|SDK1_uc003smy.2_5'UTR	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1510	Fibronectin type-III 9.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TCCCCCATCCGGTACTTCACC	0.677													3	10					0	0	0.001168	0	0		A	4188999	A	A	4188999	3	1	127	1	0	0	0	0	1	0	0	0	13993	1116	39	1	4647	1	SDK1	7	4188999	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1933085	4188999	154949664	451	69531											
SDK1	221935	broad.mit.edu	37	chr7	4215451	4215451	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcagctccacatcgacgAtgtgtgaactaacacgtaag	14	7	9	11	3	0	1	0	1	0	0	2	3	1	1	1	0	4	3	1	0	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:4215451A>C	uc003smx.2	+	34	5120	c.4981A>C	c.(4981-4983)ATG>CTG	p.M1661L	SDK1_uc010kso.2_Intron|SDK1_uc003smy.2_Missense_Mutation_p.M148L	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1661	Fibronectin type-III 10.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CACATCGACGATGTGTGAACT	0.577													22	90					0	0	0.010504	0	0		C	4215451	C	C	4215451	3	2	127	1	0	0	0	0	1	0	0	0	13993	333	12	5	5115	5	SDK1	7	4215451	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	26452	4215451	154923212	452	69532											
KIAA0415	9907	broad.mit.edu	37	chr7	4823986	4823986	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagcggccccgagggcccGggcaccctggacacaggtgt	7	3	15	16	3	0	0	0	0	0	0	0	2	0	1	4	5	1	1	4	5	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:4823986G>T	uc003sne.2	+	6	857	c.774G>T	c.(772-774)CCG>CCT	p.P258P	KIAA0415_uc010ksp.2_RNA	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	258					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		CCGAGGGCCCGGGCACCCTGG	0.697													4	2					0.00024832	0.000254978	0.009096	1	0		T	4823986	T	T	4823986	2	4	127	1	0	0	0	0	0	0	0	1	8191	1103	39	5		5	KIAA0415	7	4823986	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	608535	4823986	154314677	453	69533											
RADIL	55698	broad.mit.edu	37	chr7	4917428	4917428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgccggcttggcccaccaCgtcacacagcacgtactggc	8	6	10	17	4	1	0	1	0	0	0	2	0	1	0	3	3	2	3	3	3	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:4917428C>T	uc003snj.1	-	2	516	c.343G>A	c.(343-345)GTG>ATG	p.V115M	RADIL_uc003sng.1_RNA|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	115	Ras-associating.				cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		TGGCCCACCACGTCACACAGC	0.672													15	77					0	0	0.004007	0	0		T	4917428	T	T	4917428	3	4	127	1	0	0	0	0	1	0	0	0	13022	536	19	1	2940	1	RADIL	7	4917428	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	93442	4917428	154221235	454	69534											
DAGLB	221955	broad.mit.edu	37	chr7	6456270	6456270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctcacctccacagccccCggggtggggagaaggcgtag	8	4	16	13	2	1	1	1	0	0	1	2	2	2	1	4	6	1	2	4	6	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:6456270C>T	uc003sqa.2	-	11	1585	c.1415G>A	c.(1414-1416)CGG>CAG	p.R472Q	DAGLB_uc003spy.2_Missense_Mutation_p.R18Q|DAGLB_uc003spz.2_Missense_Mutation_p.R169Q|DAGLB_uc011jwt.1_Missense_Mutation_p.R286Q|DAGLB_uc011jwu.1_Missense_Mutation_p.R343Q|DAGLB_uc003sqb.2_Missense_Mutation_p.R191Q|DAGLB_uc003sqc.2_Missense_Mutation_p.R191Q|DAGLB_uc011jwv.1_Intron|DAGLB_uc003sqd.3_Missense_Mutation_p.R431Q|DAGLB_uc011jww.1_RNA	NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1	472	Cytoplasmic (Potential).				lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity	p.R472R(1)		ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		CCACAGCCCCCGGGGTGGGGA	0.552													24	150					0	0	0.007291	0	0		T	6456270	T	T	6456270	3	4	127	1	0	0	0	0	1	0	0	0	4230	652	23	1	623	1	DAGLB	7	6456270	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1538842	6456270	152682393	455	69535											
STK31	56164	broad.mit.edu	37	chr7	23826129	23826129	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttctttggtacaagggCtattctgtggatgttgacac	7	16	10	8	0	3	1	0	1	3	0	3	2	3	2	0	3	1	3	0	3	3	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:23826129C>A	uc003sws.3	+	19	2344	c.2277C>A	c.(2275-2277)GGC>GGA	p.G759G	STK31_uc003swt.3_Silent_p.G736G|STK31_uc011jze.1_Silent_p.G759G|STK31_uc010kuq.2_Silent_p.G736G|STK31_uc003swv.1_5'Flank	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	759	Protein kinase.						ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						GGTACAAGGGCTATTCTGTGG	0.368													12	71					7.03913e-09	7.50522e-09	0.013537	1	0		A	23826129	A	A	23826129	2	1	127	1	0	0	0	0	0	0	0	1	15321	784	28	5		5	STK31	7	23826129	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	17369859	23826129	135312534	456	69536											
OSBPL3	26031	broad.mit.edu	37	chr7	24849497	24849497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccatttcccaaacagcCgatgaaccgcttttccactc	10	10	5	16	2	0	1	0	1	0	0	3	2	2	1	5	0	4	1	5	0	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:24849497C>T	uc003sxf.2	-	20	2651	c.2246G>A	c.(2245-2247)CGG>CAG	p.R749Q	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Missense_Mutation_p.R713Q|OSBPL3_uc003sxh.2_Missense_Mutation_p.R718Q|OSBPL3_uc003sxi.2_Missense_Mutation_p.R682Q	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	749					lipid transport		lipid binding|protein binding			skin(1)	1						CCCAAACAGCCGATGAACCGC	0.502													50	184					0	0	0.01441	0	0		T	24849497	T	T	24849497	3	4	127	1	0	0	0	0	1	0	0	0	11298	652	23	1	433	1	OSBPL3	7	24849497	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1023368	24849497	134289166	457	69537											
NOD1	10392	broad.mit.edu	37	chr7	30496526	30496526	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttccatctcactgtggccCtgctcttccatagttaaagt	8	15	6	12	0	2	0	1	0	2	0	5	0	4	0	3	1	1	2	3	1	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:30496526C>A	uc003tav.2	-	4	535	c.12G>T	c.(10-12)CAG>CAT	p.Q4H	NOD1_uc010kvs.2_Missense_Mutation_p.Q4H|NOD1_uc003tax.2_RNA|NOD1_uc003tay.2_RNA|NOD1_uc010kvt.2_RNA|NOD1_uc010kvu.2_RNA	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	4					activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						CACTGTGGCCCTGCTCTTCCA	0.488													14	121					1.5842e-08	1.68529e-08	0.001855	1	0		A	30496526	A	A	30496526	3	1	127	1	0	0	0	0	1	0	0	0	10535	680	24	5	2893	5	NOD1	7	30496526	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	5647029	30496526	128642137	458	69538											
PGAM2	5224	broad.mit.edu	37	chr7	44105067	44105067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcgaaccagccacagaaaCggttctcctggttccatgtg	10	9	9	13	2	1	1	0	0	1	1	4	2	2	1	4	2	3	2	4	2	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:44105067C>T	uc003tjs.2	-	1	97	c.62G>A	c.(61-63)CGT>CAT	p.R21H		NM_000290	NP_000281	P15259	PGAM2_HUMAN	phosphoglycerate mutase 2	21					gluconeogenesis|glycolysis|striated muscle contraction	cytosol	2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity				0						GCCACAGAAACGGTTCTCCTG	0.612													10	68					0	0	0.00245	0	0		T	44105067	T	T	44105067	3	4	127	1	0	0	0	0	1	0	0	0	11793	536	19	1	711	1	PGAM2	7	44105067	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	13608541	44105067	115033596	459	69539											
POLM	27434	broad.mit.edu	37	chr7	44112896	44112896	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacacaggcaggctcaggcGtttctctgctctggaggaag	8	8	15	10	1	3	0	1	0	2	0	4	3	3	3	0	6	1	4	0	6	1	1	rs146318307	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:44112896G>A	uc003tjt.2	-	11	1571	c.1479C>T	c.(1477-1479)AAC>AAT	p.N493N	POLM_uc003tjw.1_Missense_Mutation_p.T130M|POLM_uc003tju.2_Silent_p.N456N|POLM_uc003tjx.2_Missense_Mutation_p.T431M|POLM_uc003tjv.2_RNA|POLM_uc011kbt.1_Missense_Mutation_p.T161M	NM_013284	NP_037416	Q9NP87	DPOLM_HUMAN	DNA-directed DNA polymerase mu	493					DNA recombination|DNA repair	nucleus	DNA binding|DNA nucleotidylexotransferase activity|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3						AGGCTCAGGCGTTTCTCTGCT	0.562								DNA_polymerases_(catalytic_subunits)					4	38					0	0	0.000602	0	0		A	44112896	A	A	44112896	2	1	127	1	0	0	0	0	0	0	0	1	12225	1136	40	1		1	POLM	7	44112896	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	7829	44112896	115025767	460	69540											
AEBP1	165	broad.mit.edu	37	chr7	44149841	44149841	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgactactatgatggtgcGtggtgtgccgaggacgatgc	8	9	16	8	4	0	1	0	1	0	0	0	6	0	2	1	3	4	0	1	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:44149841G>A	uc003tkb.2	+	11	1601	c.1296G>A	c.(1294-1296)GCG>GCA	p.A432A	AEBP1_uc003tkc.3_5'Flank|AEBP1_uc003tkd.2_5'Flank	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	432	Required for DNA-binding and interaction with NFKBIA (By similarity).|F5/8 type C.|Interaction with MAPK1 and MAPK3 (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ATGATGGTGCGTGGTGTGCCG	0.627													17	53					0	0	0.00499	0	0		A	44149841	A	A	44149841	2	1	127	1	0	0	0	0	0	0	0	1	349	1132	40	1		1	AEBP1	7	44149841	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	36945	44149841	114988822	461	69541											
GBAS	2631	broad.mit.edu	37	chr7	56051483	56051483	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaggaagaatcagctcctGttggagttcagtttctggaa	10	12	11	8	0	3	1	2	0	1	1	5	4	5	4	2	3	1	4	2	3	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:56051483G>A	uc003tre.1	+	6	515	c.507G>A	c.(505-507)CTG>CTA	p.L169L	GBAS_uc003trf.1_Silent_p.L130L	NM_001483	NP_001474	O75323	NIPS2_HUMAN	nipsnap homolog 2	169						integral to plasma membrane|membrane fraction|mitochondrion	protein binding			central_nervous_system(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			ATCAGCTCCTGTTGGAGTTCA	0.393													39	161					0	0	0.005524	0	0		A	56051483	A	A	56051483	2	1	127	1	0	0	0	0	0	0	0	1	6284	1364	48	4		4	GBAS	7	56051483	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	11901642	56051483	103087180	462	69542											
ZNF107	51427	broad.mit.edu	37	chr7	64166846	64166846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaacatgtggatgagtgtaCggggcacaaaggaggtcata	14	8	14	5	1	1	1	1	1	0	0	1	3	1	3	0	5	2	2	0	5	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:64166846C>T	uc003ttd.2	+	7	950	c.164C>T	c.(163-165)ACG>ATG	p.T55M	ZNF107_uc003tte.2_Missense_Mutation_p.T55M	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	55					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				GATGAGTGTACGGGGCACAAA	0.343													17	97					0	0	0.006122	0	0		T	64166846	T	T	64166846	3	4	127	1	0	0	0	0	1	0	0	0	17740	536	19	1	170	1	ZNF107	7	64166846	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	8115363	64166846	94971817	463	69543											
TYW1B	441250	broad.mit.edu	37	chr7	72281139	72281139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaggtaagttttgccaaatCgaaaatcaatggatgcttcc	13	12	8	8	1	2	0	2	0	0	0	4	2	3	1	2	2	2	3	2	2	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:72281139C>T	uc011kej.1	-	4	509	c.350G>A	c.(349-351)CGA>CAA	p.R117Q	TYW1B_uc011keh.1_Intron|TYW1B_uc011kek.1_Intron	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform	117	Flavodoxin-like.				tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						TTTGCCAAATCGAAAATCAAT	0.448													37	226					0	0	0.005524	0	0		T	72281139	T	T	72281139	3	4	127	1	0	0	0	0	1	0	0	0	16845	884	31	1	1822	1	TYW1B	7	72281139	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	8114293	72281139	86857524	464	69544											
MLXIPL	51085	broad.mit.edu	37	chr7	73010239	73010239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctcctgcaagcccgcacGctcctgctgtagcataagga	8	8	9	16	2	0	0	0	0	0	0	3	1	3	1	4	1	4	6	4	1	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:73010239G>A	uc003tyn.1	-	14	2167	c.2119C>T	c.(2119-2121)CGT>TGT	p.R707C	MLXIPL_uc003tyj.1_Missense_Mutation_p.R86C|MLXIPL_uc003tyk.1_Missense_Mutation_p.R686C|MLXIPL_uc003tyl.1_Missense_Mutation_p.R705C|MLXIPL_uc003tym.1_Missense_Mutation_p.R688C|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_Missense_Mutation_p.R613C	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	707	Leucine-zipper.				anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				AAGCCCGCACGCTCCTGCTGT	0.622													10	28					0	0	0.010729	0	0		A	73010239	A	A	73010239	3	1	127	1	0	0	0	0	1	0	0	0	9655	1087	38	1	455	1	MLXIPL	7	73010239	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	729100	73010239	86128424	465	69545											
HIP1	3092	broad.mit.edu	37	chr7	75176318	75176318	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttgcatgaggctggtacaGcaaccaaggatcctgccaaa	12	7	11	11	0	0	1	0	1	0	0	1	2	1	2	3	3	5	5	3	3	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:75176318G>A	uc003uds.1	-	25	2519	c.2478C>T	c.(2476-2478)TGC>TGT	p.C826C	HIP1_uc011kfz.1_Intron	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	826	I/LWEQ.				activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						GGCTGGTACAGCAACCAAGGA	0.532			T	PDGFRB	CMML								3	7					0	0	0.004672	0	0		A	75176318	A	A	75176318	2	1	127	1	0	0	0	0	0	0	0	1	7130	963	34	2		2	HIP1	7	75176318	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2166079	75176318	83962345	466	69546											
STYXL1	51657	broad.mit.edu	37	chr7	75633122	75633122	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggaagaatctgggcttcCggggaatcttctatccggat	10	10	13	8	2	3	1	0	0	3	1	5	4	5	4	2	5	0	1	2	5	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:75633122C>T	uc003uej.3	-	7	824	c.651G>A	c.(649-651)CCG>CCA	p.P217P	STYXL1_uc003uef.2_Silent_p.P23P|STYXL1_uc011kgf.1_Silent_p.P79P|STYXL1_uc011kgg.1_Silent_p.P69P|STYXL1_uc003ueh.2_Silent_p.P79P|STYXL1_uc003uek.3_Silent_p.P121P|STYXL1_uc003uel.2_Silent_p.P217P|STYXL1_uc003uem.2_Silent_p.P217P|STYXL1_uc010ldg.1_RNA|STYXL1_uc010ldh.1_Silent_p.P217P|STYXL1_uc003uen.1_Silent_p.P217P	NM_016086	NP_057170	Q9Y6J8	STYL1_HUMAN	map kinase phosphatase-like protein MK-STYX	217	Tyrosine-protein phosphatase.				intracellular signal transduction|protein dephosphorylation	intracellular	protein binding|protein tyrosine/serine/threonine phosphatase activity				0						TCTGGGCTTCCGGGGAATCTT	0.542													7	66					0	0	0.00308	0	0		T	75633122	T	T	75633122	2	4	127	1	0	0	0	0	0	0	0	1	15386	639	23	1		1	STYXL1	7	75633122	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	456804	75633122	83505541	467	69547											
CACNA2D1	781	broad.mit.edu	37	chr7	81598254	81598254	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatttctacagctttgcttaCcataatgcccgattcatagg	10	15	6	10	1	2	0	1	0	1	0	2	1	2	0	2	1	5	2	2	1	5	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:81598254C>G	uc003uhr.1	-	29	2600	c.2344G>C	c.(2344-2346)GTA>CTA	p.V782L	CACNA2D1_uc011kgy.1_Intron	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	794	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	GCTTTGCTTACCATAATGCCC	0.274													37	172					0	0	0.007835	0	0		G	81598254	G	G	81598254	3	3	127	1	0	0	0	0	1	0	0	0	2551	507	18	5	975	5	CACNA2D1	7	81598254	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	5965132	81598254	77540409	468	69548											
CACNA2D1	781	broad.mit.edu	37	chr7	81964453	81964453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatccaatttaaactcaccaCcagggctttagatctgttgc	11	12	7	11	0	2	1	1	0	1	1	3	2	3	1	3	1	2	2	3	1	4	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:81964453C>T	uc003uhr.1	-	3	548	c.292G>A	c.(292-294)GTG>ATG	p.V98M		NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	98	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	AAACTCACCACCAGGGCTTTA	0.368													57	379					0	0	0.01441	0	0		T	81964453	T	T	81964453	3	4	127	1	0	0	0	0	1	0	0	0	2551	507	18	4	3131	4	CACNA2D1	7	81964453	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	366199	81964453	77174210	469	69549											
PCLO	27445	broad.mit.edu	37	chr7	82785291	82785291	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatccctaccaggtccttgCtgcttaggaatcggcttggg	6	11	13	11	1	0	0	0	0	0	0	3	2	2	2	3	5	3	3	3	5	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:82785291C>A	uc003uhx.2	-	2	955	c.666G>T	c.(664-666)CAG>CAT	p.Q222H	PCLO_uc003uhv.2_Missense_Mutation_p.Q222H	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	222	Gln-rich.|Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CAGGTCCTTGCTGCTTAGGAA	0.448													10	47					0.00244969	0.0024919	0.00245	1	0		A	82785291	A	A	82785291	3	1	127	1	0	0	0	0	1	0	0	0	11602	796	28	5	14875	5	PCLO	7	82785291	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	820838	82785291	76353372	470	69550											
SEMA3E	9723	broad.mit.edu	37	chr7	83119491	83119491	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacaaggtccctgcctcccAcgaagagcctctcttgatat	10	10	7	14	1	1	2	0	1	1	1	4	3	3	2	4	1	3	0	4	1	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:83119491A>G	uc003uhy.1	-	2	681	c.215T>C	c.(214-216)GTG>GCG	p.V72A		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	72	Sema.				axon guidance	extracellular space|membrane	receptor activity	p.V72L(1)		ovary(3)	3		Medulloblastoma(109;0.109)				CCTGCCTCCCACGAAGAGCCT	0.408													20	100					0	0	0.014323	0	0		G	83119491	G	G	83119491	3	3	127	1	0	0	0	0	1	0	0	0	14053	159	6	3	2176	3	SEMA3E	7	83119491	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	334200	83119491	76019172	471	69551											
GRM3	2913	broad.mit.edu	37	chr7	86468787	86468787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgggctggggagttccttcGctatctgttactcagccctg	4	13	12	12	2	2	0	1	0	1	0	5	1	3	1	2	3	2	4	2	3	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:86468787G>A	uc003uid.2	+	4	3056	c.1957G>A	c.(1957-1959)GCT>ACT	p.A653T	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Missense_Mutation_p.A525T|GRM3_uc010leh.2_Missense_Mutation_p.A245T	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	653	Helical; Name=3; (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GAGTTCCTTCGCTATCTGTTA	0.537													59	232					0	0	0.01441	0	0		A	86468787	A	A	86468787	3	1	127	1	0	0	0	0	1	0	0	0	6814	1087	38	1	1967	1	GRM3	7	86468787	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3349296	86468787	72669876	472	69552											
ABCB4	5244	broad.mit.edu	37	chr7	87092221	87092221	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcctgccaatcggagtatcGaaactaaaaaaaggaaataa	20	7	7	7	2	0	0	0	0	0	0	3	3	1	2	2	2	2	1	2	2	9	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:87092221G>A	uc003uiv.1	-	4	215	c.139C>T	c.(139-141)CGA>TGA	p.R47*	ABCB4_uc003uiw.1_Nonsense_Mutation_p.R47*|ABCB4_uc003uix.1_Nonsense_Mutation_p.R47*|ABCB4_uc003uiy.2_Nonsense_Mutation_p.R47*	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	47	Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					TCGGAGTATCGAAACTAAAAA	0.358													9	60					0	0	0.001855	0	0		A	87092221	A	A	87092221	4	1	127	1	0	0	0	0	0	1	0	0	43	1066	37	1	3821	1	ABCB4	7	87092221	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	623434	87092221	72046442	473	69553											
ADAM22	53616	broad.mit.edu	37	chr7	87762257	87762257	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgttgctgaaaggaggaggCgtgaatgaagtaggtgtgaa	12	9	17	3	2	0	4	0	4	0	0	1	6	0	6	0	4	1	3	0	4	5	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:87762257C>T	uc003ujn.2	+	12	1147	c.1068C>T	c.(1066-1068)GGC>GGT	p.G356G	ADAM22_uc003ujk.1_Silent_p.G356G|ADAM22_uc003ujl.1_Silent_p.G356G|ADAM22_uc003ujm.2_Silent_p.G356G|ADAM22_uc003ujo.2_Silent_p.G356G|ADAM22_uc003ujp.1_Silent_p.G408G	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	356	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			AAGGAGGAGGCGTGAATGAAG	0.403													12	76					0	0	0.013537	0	0		T	87762257	T	T	87762257	2	4	127	1	0	0	0	0	0	0	0	1	244	755	27	1		1	ADAM22	7	87762257	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	670036	87762257	71376406	474	69554											
MGC26647	219557	broad.mit.edu	37	chr7	88423902	88423902	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaatactgtttcatcttTgacatggccaatataatcta	16	14	4	7	0	3	1	1	1	2	0	3	1	3	1	1	1	1	1	1	1	8	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:88423902T>G	uc003ujv.2	-	2	537	c.355A>C	c.(355-357)AAA>CAA	p.K119Q	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	119											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			GTTTCATCTTTGACATGGCCA	0.358													12	148					0	0	0.010729	0	0		G	88423902	G	G	88423902	3	3	127	1	0	0	0	0	1	0	0	0	9568	1821	63	5	410	5	MGC26647	7	88423902	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	661645	88423902	70714761	475	69555											
ZNF804B	219578	broad.mit.edu	37	chr7	88965252	88965252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtctgaaaaaatacagtatGcaagtgagagcagaaatgat	18	9	10	4	0	1	4	0	3	1	2	1	5	1	4	0	0	3	3	0	0	7	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:88965252G>A	uc011khi.1	+	4	3494	c.2956G>A	c.(2956-2958)GCA>ACA	p.A986T		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	986						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AATACAGTATGCAAGTGAGAG	0.393										HNSCC(36;0.09)			25	214					0	0	0.00333	0	0		A	88965252	A	A	88965252	3	1	127	1	0	0	0	0	1	0	0	0	18196	1319	46	2	2970	2	ZNF804B	7	88965252	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	541350	88965252	70173411	476	69556											
SAMD9	54809	broad.mit.edu	37	chr7	92732152	92732152	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagaaatgtcttgccaacgCttggcaaatgaatgcatttg	12	12	10	7	1	1	2	0	1	1	1	1	2	1	2	1	1	3	4	1	1	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:92732152C>A	uc003umf.2	-	3	3515	c.3259G>T	c.(3259-3261)GCG>TCG	p.A1087S	SAMD9_uc003umg.2_Missense_Mutation_p.A1087S	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1087						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			CTTGCCAACGCTTGGCAAATG	0.358													15	111					2.61681e-11	2.85014e-11	0.00245	1	0		A	92732152	A	A	92732152	3	1	127	1	0	0	0	0	1	0	0	0	13851	797	28	5	1514	5	SAMD9	7	92732152	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3766900	92732152	66406511	477	69557											
CASD1	64921	broad.mit.edu	37	chr7	94167072	94167072	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgcaaacttggcctgattAtggcatatttctatatgtgt	9	17	8	7	0	2	1	0	1	2	0	2	1	2	1	1	2	2	2	1	2	5	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:94167072A>G	uc003uni.3	+	9	1359	c.1132A>G	c.(1132-1134)ATG>GTG	p.M378V	CASD1_uc003unh.2_3'UTR|CASD1_uc003unj.3_Missense_Mutation_p.M378V	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	378	Helical; (Potential).					integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			TGGCCTGATTATGGCATATTT	0.313													32	177					0	0	0.012213	0	0		G	94167072	G	G	94167072	3	3	127	1	0	0	0	0	1	0	0	0	2667	449	16	3	1166	3	CASD1	7	94167072	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1434920	94167072	64971591	478	69558											
BAIAP2L1	55971	broad.mit.edu	37	chr7	97937118	97937118	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttggagcccgcagtgtgcGggaagatggtcttcactttc	6	12	14	9	2	2	1	1	0	1	1	3	3	2	3	1	3	2	2	1	3	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:97937118G>T	uc003upj.2	-	10	1309	c.1046C>A	c.(1045-1047)CCG>CAG	p.P349Q	uc003upk.1_5'Flank	NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1	349	SH3.				filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			CGCAGTGTGCGGGAAGATGGT	0.522													21	100					1.40151e-16	1.56867e-16	0.010504	1	0		T	97937118	T	T	97937118	3	4	127	1	0	0	0	0	1	0	0	0	1303	1116	39	5	509	5	BAIAP2L1	7	97937118	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3770046	97937118	61201545	479	69559											
TRRAP	8295	broad.mit.edu	37	chr7	98573796	98573796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcgctgctcagcgctttcGttcagctgtgccacatttcc	5	12	10	14	3	2	0	2	0	0	0	4	1	3	0	2	0	5	5	2	0	0	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:98573796G>A	uc003upp.2	+	53	8052	c.7843G>A	c.(7843-7845)GTT>ATT	p.V2615I	TRRAP_uc011kis.1_Missense_Mutation_p.V2597I|TRRAP_uc003upr.2_Missense_Mutation_p.V2314I	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2615					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CAGCGCTTTCGTTCAGCTGTG	0.572													34	155					0	0	0.003271	0	0		A	98573796	A	A	98573796	3	1	127	1	0	0	0	0	1	0	0	0	16627	1145	40	1	7991	1	TRRAP	7	98573796	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	636678	98573796	60564867	480	69560											
AP4M1	9179	broad.mit.edu	37	chr7	99700543	99700543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcgaggggaccatctcccGcaatgtggctctggtatacg	7	8	15	11	3	2	0	0	0	2	0	3	2	2	1	2	5	1	3	2	5	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:99700543G>A	uc003utb.3	+	4	519	c.311G>A	c.(310-312)CGC>CAC	p.R104H	MCM7_uc003usv.1_5'Flank|MCM7_uc003usw.1_5'Flank|MCM7_uc003usx.1_5'Flank|AP4M1_uc011kjg.1_Missense_Mutation_p.R104H|AP4M1_uc010lgl.1_Missense_Mutation_p.R104H|AP4M1_uc003utc.3_Missense_Mutation_p.R111H|AP4M1_uc010lgm.2_Intron|AP4M1_uc003utd.2_Missense_Mutation_p.R104H|AP4M1_uc011kjh.1_Missense_Mutation_p.R56H|AP4M1_uc003ute.3_5'UTR|AP4M1_uc003utf.3_5'UTR	NM_004722	NP_004713	O00189	AP4M1_HUMAN	adaptor-related protein complex 4, mu 1 subunit	104					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|coated pit|Golgi trans cisterna	transporter activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					ACCATCTCCCGCAATGTGGCT	0.547													18	81					0	0	0.007413	0	0		A	99700543	A	A	99700543	3	1	127	1	0	0	0	0	1	0	0	0	753	1087	38	1	325	1	AP4M1	7	99700543	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1126747	99700543	59438120	481	69561											
AGFG2	3268	broad.mit.edu	37	chr7	100160278	100160278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacgatgggcggcggcggcGgcagcagcacagggctggcc	6	3	19	13	5	1	0	1	0	0	0	1	1	1	0	1	7	2	4	1	7	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:100160278G>A	uc003uvf.2	+	8	1196	c.1060G>A	c.(1060-1062)GGC>AGC	p.G354S	AGFG2_uc010lgy.2_Silent_p.A215A	NM_006076	NP_006067	O95081	AGFG2_HUMAN	ArfGAP with FG repeats 2	354					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			central_nervous_system(1)	1						CGGCGGCGGCGGCAGCAGCAC	0.657													6	33					0	0	0.001984	0	0		A	100160278	A	A	100160278	3	1	127	1	0	0	0	0	1	0	0	0	381	1116	39	1	1090	1	AGFG2	7	100160278	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	459735	100160278	58978385	482	69562											
PCOLCE	5118	broad.mit.edu	37	chr7	100204175	100204175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaagggcccggccccaaaCggggaactgagcctaaagtc	11	3	14	13	2	0	1	0	1	0	0	1	2	0	2	4	5	3	1	4	5	5	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:100204175C>T	uc003uvo.2	+	6	1060	c.862C>T	c.(862-864)CGG>TGG	p.R288W	uc011kjy.1_5'Flank|PCOLCE_uc010lhb.1_RNA|PCOLCE_uc003uvp.1_RNA	NM_002593	NP_002584	Q15113	PCOC1_HUMAN	procollagen C-endopeptidase enhancer	288		Cleavage.|Cleavage.			multicellular organismal development	extracellular space	collagen binding|heparin binding|peptidase activator activity				0	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					CGGCCCCAAACGGGGAACTGA	0.602													17	64					0	0	0.004007	0	0		T	100204175	T	T	100204175	3	4	127	1	0	0	0	0	1	0	0	0	11613	527	19	1	884	1	PCOLCE	7	100204175	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	43897	100204175	58934488	483	69563											
SLC12A9	56996	broad.mit.edu	37	chr7	100459447	100459447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcctggtggggaacccccGgggcgccctgcctctgctgc	2	7	15	17	2	1	0	0	0	1	0	2	1	2	1	5	5	4	2	5	5	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:100459447G>A	uc003uwp.2	+	12	1767	c.1625G>A	c.(1624-1626)CGG>CAG	p.R542Q	SLC12A9_uc003uwq.2_Missense_Mutation_p.R453Q|SLC12A9_uc011kki.1_Missense_Mutation_p.R73Q|SLC12A9_uc003uwr.2_Missense_Mutation_p.R278Q|SLC12A9_uc003uws.2_Missense_Mutation_p.R73Q|SLC12A9_uc003uwt.2_Missense_Mutation_p.R278Q|SLC12A9_uc003uwv.2_Missense_Mutation_p.R73Q	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	542	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					GGGAACCCCCGGGGCGCCCTG	0.657													15	35					0	0	0.00499	0	0		A	100459447	A	A	100459447	3	1	127	1	0	0	0	0	1	0	0	0	14415	1116	39	1	1667	1	SLC12A9	7	100459447	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	255272	100459447	58679216	484	69564											
MUC17	140453	broad.mit.edu	37	chr7	100685976	100685976	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgggaccactattcttgTcagtaccacacctgttacga	9	12	7	13	1	2	0	1	0	1	0	2	2	2	1	4	1	2	2	4	1	3	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:100685976T>A	uc003uxp.1	+	3	11332	c.11279T>A	c.(11278-11280)GTC>GAC	p.V3760D	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3760	Extracellular (Potential).|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ACTATTCTTGTCAGTACCACA	0.478													55	286					0	0	0.01441	0	0		A	100685976	A	A	100685976	3	1	127	1	0	0	0	0	1	0	0	0	9992	1667	58	5	11289	5	MUC17	7	100685976	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	226529	100685976	58452687	485	69565											
RABL5	64792	broad.mit.edu	37	chr7	100958511	100958511	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattccatccggatctcctcAgggtcatcttccaggtttga	8	13	8	12	1	4	1	2	1	2	0	8	2	7	2	4	3	0	1	4	3	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:100958511A>G	uc003uyl.2	-	5	565	c.462T>C	c.(460-462)CCT>CCC	p.P154P	RABL5_uc011kkk.1_Silent_p.P77P|RABL5_uc011kkl.1_Silent_p.P77P|RABL5_uc003uym.2_Silent_p.P124P|RABL5_uc010lhw.2_RNA	NM_022777	NP_073614	Q9H7X7	RABL5_HUMAN	RAB, member RAS oncogene family-like 5 isoform	154							GTP binding				0	Lung NSC(181;0.215)					GGATCTCCTCAGGGTCATCTT	0.438											OREG0018221	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	100					0	0	0.00333	0	0		G	100958511	G	G	100958511	2	3	127	1	0	0	0	0	0	0	0	1	12998	175	7	3		3	RABL5	7	100958511	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	272535	100958511	58180152	486	69566											
ORC5L	5001	broad.mit.edu	37	chr7	103835622	103835622	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagggaaatataagacaaaCggctcaaagcatccagtatt	17	8	8	8	1	2	1	2	0	0	1	3	2	3	2	1	2	2	3	1	2	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:103835622C>T	uc003vcb.2	-	5	633	c.522G>A	c.(520-522)CCG>CCA	p.P174P	ORC5L_uc011klp.1_Silent_p.P42P|ORC5L_uc003vcc.2_Silent_p.P174P|ORC5L_uc003vcd.2_Silent_p.P174P	NM_002553	NP_002544	O43913	ORC5_HUMAN	origin recognition complex subunit 5 isoform 1	174					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	cytoplasm|nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|identical protein binding				0						ATAAGACAAACGGCTCAAAGC	0.333													7	93					0	0	0.00308	0	0		T	103835622	T	T	103835622	2	4	127	1	0	0	0	0	0	0	0	1	11284	523	19	1		1	ORC5L	7	103835622	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2877111	103835622	55303041	487	69567											
DOCK4	9732	broad.mit.edu	37	chr7	111517184	111517184	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattcccaaggaaaatgcccTtggaaaagggaagtttgagg	14	9	12	6	0	0	1	0	1	0	0	1	4	1	4	2	4	1	1	2	4	7	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:111517184T>C	uc003vfx.2	-	17	1915	c.1646A>G	c.(1645-1647)AAG>AGG	p.K549R	DOCK4_uc003vfw.2_5'UTR|DOCK4_uc003vfy.2_Missense_Mutation_p.K549R|DOCK4_uc003vga.1_Missense_Mutation_p.K154R	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	549	DHR-1.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				GAAAATGCCCTTGGAAAAGGG	0.373													6	20					0	0	0.001984	0	0		C	111517184	C	C	111517184	3	2	127	1	0	0	0	0	1	0	0	0	4695	1609	56	3	4398	3	DOCK4	7	111517184	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	7681562	111517184	47621479	488	69568											
MDFIC	29969	broad.mit.edu	37	chr7	114563029	114563029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcacagcccttcctccgtgCgccctgccgggcggcgagct	3	7	12	19	5	1	0	1	0	0	0	3	1	3	0	5	2	4	1	5	2	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:114563029C>T	uc003vhf.2	+	2	531	c.268C>T	c.(268-270)CGC>TGC	p.R90C	MDFIC_uc003vhg.2_RNA	NM_199072	NP_951038	Q9P1T7	MDFIC_HUMAN	MyoD family inhibitor domain containing protein	Error:Variant_position_missing_in_Q9P1T7_after_alignment					activation of JUN kinase activity|interspecies interaction between organisms|negative regulation of protein import into nucleus|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|regulation of Wnt receptor signaling pathway|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleolus|nucleolus|nucleus	cyclin binding|Tat protein binding			ovary(1)	1						TTCCTCCGTGCGCCCTGCCGG	0.637													5	22					0	0	0.001984	0	0		T	114563029	T	T	114563029	3	4	127	1	0	0	0	0	1	0	0	0	9423	768	27	1	274	1	MDFIC	7	114563029	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3045845	114563029	44575634	489	69569											
KCND2	3751	broad.mit.edu	37	chr7	119915437	119915437	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgcttcgcctggctgcaGcgcctagtcgttaccgtttt	4	15	10	12	4	0	0	0	0	0	0	2	0	0	0	3	1	4	5	3	1	2	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:119915437G>T	uc003vjj.1	+	1	1716	c.751G>T	c.(751-753)GCG>TCG	p.A251S		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	251	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					CCTGGCTGCAGCGCCTAGTCG	0.527													19	79					3.62473e-10	3.91482e-10	0.012319	1	0		T	119915437	T	T	119915437	3	4	127	1	0	0	0	0	1	0	0	0	8035	971	34	5	753	5	KCND2	7	119915437	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5352408	119915437	39223226	490	69570											
PTPRZ1	5803	broad.mit.edu	37	chr7	121637988	121637988	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatgttcttcagatagtaGccatatgcactaatggctta	11	15	8	7	0	2	1	1	0	1	1	2	1	2	1	1	1	2	5	1	1	6	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:121637988G>T	uc003vjy.2	+	10	1563	c.1168G>T	c.(1168-1170)GCC>TCC	p.A390S	PTPRZ1_uc003vjz.2_Missense_Mutation_p.A390S	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	390	Extracellular (Potential).|Fibronectin type-III.				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						TCAGATAGTAGCCATATGCAC	0.348													14	61					6.31663e-08	6.68958e-08	0.003163	1	0		T	121637988	T	T	121637988	3	4	127	1	0	0	0	0	1	0	0	0	12839	971	34	5	1206	5	PTPRZ1	7	121637988	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1722551	121637988	37500675	491	69571											
SLC13A1	6561	broad.mit.edu	37	chr7	122809297	122809297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgatctgctgcactacaGcctccgcaatgggcatcacc	9	9	9	14	1	2	2	1	2	1	0	3	2	3	2	3	1	4	4	3	1	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:122809297G>A	uc003vkm.2	-	4	483	c.458C>T	c.(457-459)GCT>GTT	p.A153V	SLC13A1_uc010lks.2_5'UTR	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	153						integral to membrane|plasma membrane	sodium:sulfate symporter activity	p.A153V(1)		ovary(2)	2					Succinic acid(DB00139)	CTGCACTACAGCCTCCGCAAT	0.527													11	58					0	0	0.013537	0	0		A	122809297	A	A	122809297	3	1	127	1	0	0	0	0	1	0	0	0	14416	971	34	2	1377	2	SLC13A1	7	122809297	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1171309	122809297	36329366	492	69572											
GRM8	2918	broad.mit.edu	37	chr7	126173175	126173175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccatcaagaggatactgtatCcaagtgaacaaatgagtgag	16	8	10	7	0	1	4	1	3	0	1	2	5	2	5	2	1	2	1	2	1	6	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:126173175C>T	uc003vlr.2	-	8	2572	c.2261G>A	c.(2260-2262)GGA>GAA	p.G754E	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.G754E|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	754	Helical; Name=5; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	GATACTGTATCCAAGTGAACA	0.438										HNSCC(24;0.065)			8	52					0	0	0.00308	0	0		T	126173175	T	T	126173175	3	4	127	1	0	0	0	0	1	0	0	0	6819	855	30	4	527	4	GRM8	7	126173175	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3363878	126173175	32965488	493	69573											
IRF5	3663	broad.mit.edu	37	chr7	128582176	128582176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcccaccccaccccgccGcgtgcggctgaagccctggc	4	4	12	21	4	0	1	0	1	0	0	1	1	1	1	7	3	2	2	7	3	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:128582176G>A	uc003vog.2	+	2	162	c.41G>A	c.(40-42)CGC>CAC	p.R14H	IRF5_uc010llr.1_Missense_Mutation_p.R14H|IRF5_uc011kot.1_Missense_Mutation_p.R14H|IRF5_uc011kou.1_Missense_Mutation_p.R14H|IRF5_uc010lls.1_Missense_Mutation_p.R14H|IRF5_uc003voh.2_Missense_Mutation_p.R14H|IRF5_uc010llt.2_Missense_Mutation_p.R14H|IRF5_uc003voi.2_Missense_Mutation_p.R14H|IRF5_uc010llu.1_Missense_Mutation_p.R14H|IRF5_uc003vok.2_Missense_Mutation_p.R14H|IRF5_uc003voj.3_Missense_Mutation_p.R14H|IRF5_uc010llv.1_Missense_Mutation_p.R14H|IRF5_uc010llw.1_Missense_Mutation_p.R14H	NM_002200	NP_002191	Q13568	IRF5_HUMAN	interferon regulatory factor 5 isoform a	14	IRF tryptophan pentad repeat.				interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						CCACCCCGCCGCGTGCGGCTG	0.627													6	47					0	0	0.00245	0	0		A	128582176	A	A	128582176	3	1	127	1	0	0	0	0	1	0	0	0	7849	1087	38	1	43	1	IRF5	7	128582176	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2409001	128582176	30556487	494	69574											
SMO	6608	broad.mit.edu	37	chr7	128849174	128849174	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgtgctcattaccttcAgctgccacttctacgacttc	6	15	6	14	1	3	0	2	0	1	0	4	1	3	0	2	0	5	3	2	0	2	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:128849174A>G	uc003vor.2	+	8	1682	c.1402A>G	c.(1402-1404)AGC>GGC	p.S468G	SMO_uc003vos.2_Missense_Mutation_p.S143G	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	468	Helical; Name=6; (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						CATTACCTTCAGCTGCCACTT	0.592			Mis		skin basal cell 								6	35					0	0	0.003163	0	0		G	128849174	G	G	128849174	3	3	127	1	0	0	0	0	1	0	0	0	14825	188	7	3	1432	3	SMO	7	128849174	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	266998	128849174	30289489	495	69575											
UBE2H	7328	broad.mit.edu	37	chr7	129479104	129479104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacatggctgcagcgtcacCattgagaggatctatggggt	9	10	14	8	1	2	1	1	1	1	1	2	3	2	2	1	4	3	3	1	4	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:129479104C>T	uc003vpf.1	-	6	764	c.370G>A	c.(370-372)GGT>AGT	p.G124S	UBE2H_uc003vpg.1_Missense_Mutation_p.G93S	NM_003344	NP_003335	P62256	UBE2H_HUMAN	ubiquitin-conjugating enzyme E2H isoform 1	124					protein K11-linked ubiquitination|protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process		ATP binding|ubiquitin-protein ligase activity			skin(1)	1	Melanoma(18;0.0435)					GCAGCGTCACCATTGAGAGGA	0.413													31	165					0	0	0.008361	0	0		T	129479104	T	T	129479104	3	4	127	1	0	0	0	0	1	0	0	0	16884	594	21	4	189	4	UBE2H	7	129479104	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	629930	129479104	29659559	496	69576											
TRIM24	8805	broad.mit.edu	37	chr7	138189060	138189060	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcattcgttgcccagtttgCagccaagaatgtgcagagag	10	10	12	9	1	1	2	1	0	0	2	2	3	1	2	2	0	4	4	2	0	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:138189060C>T	uc003vuc.2	+	2	605	c.390C>T	c.(388-390)TGC>TGT	p.C130C	TRIM24_uc003vub.2_Silent_p.C130C	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	130					cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						GCCCAGTTTGCAGCCAAGAAT	0.368													43	182					0	0	0.010771	0	0		T	138189060	T	T	138189060	2	4	127	1	0	0	0	0	0	0	0	1	16524	718	25	2		2	TRIM24	7	138189060	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	8709956	138189060	20949603	497	69577											
UBN2	254048	broad.mit.edu	37	chr7	138944044	138944044	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagaagatgatattgagaTgaagaagcggaagcggaaag	20	5	14	2	2	0	6	0	3	0	4	0	9	0	8	0	2	2	0	0	2	8	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:138944044T>C	uc011kqr.1	+	5	833	c.833T>C	c.(832-834)ATG>ACG	p.M278T	UBN2_uc003vuv.2_Missense_Mutation_p.M1T	NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	278	Lys-rich.									ovary(1)|skin(1)	2						GATATTGAGATGAAGAAGCGG	0.368													18	109					0	0	0.007413	0	0		C	138944044	C	C	138944044	3	2	127	1	0	0	0	0	1	0	0	0	16919	1464	51	3	851	3	UBN2	7	138944044	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	754984	138944044	20194619	498	69578											
TBXAS1	6916	broad.mit.edu	37	chr7	139706977	139706977	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaggatgtacccgccagcTttcaggtgtgtggtagcccc	6	10	13	12	1	1	1	1	1	0	0	1	2	1	2	4	3	3	3	4	3	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:139706977T>G	uc011kqv.1	+	11	1526	c.1362T>G	c.(1360-1362)GCT>GCG	p.A454A	TBXAS1_uc003vvh.2_Silent_p.A408A|TBXAS1_uc010lne.2_Silent_p.A340A|TBXAS1_uc011kqu.1_Silent_p.A359A|TBXAS1_uc003vvi.2_Silent_p.A408A|TBXAS1_uc003vvj.2_Silent_p.A408A|TBXAS1_uc011kqw.1_Silent_p.A388A	NM_001130966	NP_001124438	P24557	THAS_HUMAN	thromboxane A synthase 1, platelet isoform	407	Cytoplasmic (Potential).				hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|thromboxane-A synthase activity			ovary(2)|breast(1)	3	Melanoma(164;0.0142)					ACCCGCCAGCTTTCAGGTGTG	0.637													5	77					0	0	0.00245	0	0		G	139706977	G	G	139706977	2	3	127	1	0	0	0	0	0	0	0	1	15689	1596	56	5		5	TBXAS1	7	139706977	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	762933	139706977	19431686	499	69579											
JHDM1D	80853	broad.mit.edu	37	chr7	139791763	139791763	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtttgaattctgcatatActttccattctgaaggcttg	9	16	8	8	0	2	2	0	2	2	0	3	2	3	2	1	2	2	3	1	2	4	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:139791763A>G	uc003vvm.2	-	19	2576	c.2572T>C	c.(2572-2574)TAT>CAT	p.Y858H	JHDM1D_uc010lng.2_RNA	NM_030647	NP_085150	Q6ZMT4	KDM7_HUMAN	jumonji C domain containing histone demethylase	858					midbrain development|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1	Melanoma(164;0.0142)					TTCTGCATATACTTTCCATTC	0.473													11	70					0	0	0.010729	0	0		G	139791763	G	G	139791763	3	3	127	1	0	0	0	0	1	0	0	0	7964	391	14	3	261	3	JHDM1D	7	139791763	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	84786	139791763	19346900	500	69580											
TRPV6	55503	broad.mit.edu	37	chr7	142571315	142571315	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgatggcaaaggcagcataGgtgatgctgtacatgaaggg	13	8	15	5	0	0	3	0	3	0	0	0	3	0	3	0	4	3	5	0	4	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:142571315G>T	uc003wbx.1	-	13	1890	c.1674C>A	c.(1672-1674)ACC>ACA	p.T558T	TRPV6_uc003wbw.1_Silent_p.T344T|TRPV6_uc010lou.1_Silent_p.T429T	NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	558	Helical; (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					AGGCAGCATAGGTGATGCTGT	0.567													44	214					8.48111e-28	9.66055e-28	0.01441	1	0		T	142571315	T	T	142571315	2	4	127	1	0	0	0	0	0	0	0	1	16626	987	35	5		5	TRPV6	7	142571315	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2779552	142571315	16567348	501	69581											
KEL	3792	broad.mit.edu	37	chr7	142643391	142643391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccacgcacttcatccatCgtgggcgggcaggctatgga	7	8	12	14	3	1	0	1	0	0	0	4	1	3	1	3	4	0	3	3	4	1	2	rs61729041		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:142643391C>T	uc003wcb.2	-	11	1427	c.1217G>A	c.(1216-1218)CGA>CAA	p.R406Q		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	406	Extracellular (Potential).		R -> Q (in KEL26 antigen).		proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					CTTCATCCATCGTGGGCGGGC	0.562													7	34					0	0	0.004482	0	0		T	142643391	T	T	142643391	3	4	127	1	0	0	0	0	1	0	0	0	8158	884	31	1	1017	1	KEL	7	142643391	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	72076	142643391	16495272	502	69582											
EPHA1	2041	broad.mit.edu	37	chr7	143095949	143095949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtatctgacatcctggcGtccccccgtatctgctgggg	5	11	11	14	2	2	1	0	1	2	0	4	1	4	1	4	3	1	3	4	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:143095949G>A	uc003wcz.2	-	6	1168	c.1081C>T	c.(1081-1083)CGC>TGC	p.R361C		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	361	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				ACATCCTGGCGTCCCCCCGTA	0.662													4	38					0	0	0.009096	0	0		A	143095949	A	A	143095949	3	1	127	1	0	0	0	0	1	0	0	0	5173	1145	40	1	1901	1	EPHA1	7	143095949	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	452558	143095949	16042714	503	69583											
CNTNAP2	26047	broad.mit.edu	37	chr7	146818164	146818164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactctgtggtcattgagcGccaggggcggagcattaacc	8	8	14	11	2	2	1	1	1	1	0	2	2	2	2	2	4	3	2	2	4	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:146818164G>A	uc003weu.1	+	6	1364	c.848G>A	c.(847-849)CGC>CAC	p.R283H		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	283	Laminin G-like 1.|Extracellular (Potential).		R -> C.		behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GTCATTGAGCGCCAGGGGCGG	0.532										HNSCC(39;0.1)			15	84					0	0	0.003163	0	0		A	146818164	A	A	146818164	3	1	127	1	0	0	0	0	1	0	0	0	3650	1087	38	1	870	1	CNTNAP2	7	146818164	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3722215	146818164	12320499	504	69584											
EZH2	2146	broad.mit.edu	37	chr7	148507454	148507454	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgaacagaaagctgcacAtgtatttatcatacactttc	14	13	6	8	0	1	2	1	1	0	1	2	2	1	2	0	0	4	4	0	0	5	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:148507454A>G	uc003wfd.1	-	17	2151	c.1985T>C	c.(1984-1986)ATG>ACG	p.M662T	EZH2_uc011kug.1_Missense_Mutation_p.M611T|EZH2_uc003wfb.1_Missense_Mutation_p.M667T|EZH2_uc003wfc.1_Missense_Mutation_p.M623T|EZH2_uc011kuh.1_Missense_Mutation_p.M653T	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	662	SET.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding	p.V662fs*13(1)		haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			AAAGCTGCACATGTATTTATC	0.418			Mis		DLBCL								8	70					0	0	0.004482	0	0		G	148507454	G	G	148507454	3	3	127	1	0	0	0	0	1	0	0	0	5342	217	8	3	271	3	EZH2	7	148507454	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1689290	148507454	10631209	505	69585											
ZNF746	155061	broad.mit.edu	37	chr7	149174108	149174108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtttgccaggaggtgggcGggatggtggtggaaaagttg	7	9	20	5	2	0	0	0	0	0	0	0	3	0	3	2	7	1	2	2	7	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:149174108G>A	uc003wfw.2	-	6	1014	c.743C>T	c.(742-744)CCG>CTG	p.P248L	ZNF746_uc010lpi.2_Missense_Mutation_p.P248L	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2	248					negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GGAGGTGGGCGGGATGGTGGT	0.617													35	99					0	0	0.013726	0	0		A	149174108	A	A	149174108	3	1	127	1	0	0	0	0	1	0	0	0	18154	1116	39	1	1202	1	ZNF746	7	149174108	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	666654	149174108	9964555	506	69586											
ZNF746	155061	broad.mit.edu	37	chr7	149191572	149191572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctccatggcctgaatcgtgGctgccatcgtccacggagaa	8	9	11	13	3	1	2	0	1	1	1	5	3	2	2	4	3	1	1	4	3	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:149191572G>A	uc003wfw.2	-	2	318	c.47C>T	c.(46-48)GCC>GTC	p.A16V	ZNF746_uc010lpi.2_Missense_Mutation_p.A16V	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2	16	Potential.				negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			CTGAATCGTGGCTGCCATCGT	0.537													24	95					0	0	0.007291	0	0		A	149191572	A	A	149191572	3	1	127	1	0	0	0	0	1	0	0	0	18154	1203	42	2	1914	2	ZNF746	7	149191572	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	17464	149191572	9947091	507	69587											
ZNF862	643641	broad.mit.edu	37	chr7	149547315	149547315	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggagctgccggtggtgttCgaggatgtggcagtgtattt	6	12	18	5	2	0	0	0	0	0	0	1	4	0	2	1	5	2	4	1	5	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:149547315C>T	uc010lpn.2	+	5	1197	c.1005C>T	c.(1003-1005)TTC>TTT	p.F335F	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	335	KRAB 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						CGGTGGTGTTCGAGGATGTGG	0.592													6	20					0	0	0.004482	0	0		T	149547315	T	T	149547315	2	4	127	1	0	0	0	0	0	0	0	1	18220	883	31	1		1	ZNF862	7	149547315	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	355743	149547315	9591348	508	69588											
ZNF862	643641	broad.mit.edu	37	chr7	149557773	149557773	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggttagtcagaggttacacGgggccttttaaagtggagac	10	10	14	7	2	1	2	1	0	0	2	1	3	1	2	1	5	1	2	1	5	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:149557773G>A	uc010lpn.2	+	7	1716	c.1524G>A	c.(1522-1524)ACG>ACA	p.T508T	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	508	TTF-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						GAGGTTACACGGGGCCTTTTA	0.453													20	114					0	0	0.010504	0	0		A	149557773	A	A	149557773	2	1	127	1	0	0	0	0	0	0	0	1	18220	1103	39	1		1	ZNF862	7	149557773	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	10458	149557773	9580890	509	69589											
LRRC61	65999	broad.mit.edu	37	chr7	150034580	150034580	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tactgggagtcctggcccagCcggagcagctccatcctgga	7	7	13	14	1	0	0	0	0	0	0	3	3	3	3	5	4	4	2	5	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:150034580C>T	uc003wgv.2	+	3	1304	c.630C>T	c.(628-630)AGC>AGT	p.S210S	LRRC61_uc003wgx.2_Silent_p.S210S|LRRC61_uc003wgw.2_Silent_p.S210S|LRRC61_uc003wgz.3_Silent_p.S210S	NM_023942	NP_076431	Q9BV99	LRC61_HUMAN	leucine rich repeat containing 61	210											0			OV - Ovarian serous cystadenocarcinoma(82;0.011)			CCTGGCCCAGCCGGAGCAGCT	0.701													7	16					0	0	0.006214	0	0		T	150034580	T	T	150034580	2	4	127	1	0	0	0	0	0	0	0	1	9035	738	26	2		2	LRRC61	7	150034580	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	476807	150034580	9104083	510	69590											
KCNH2	3757	broad.mit.edu	37	chr7	150656686	150656686	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagccagctggtgggggggCcccggtggttggtgtcatga	4	8	19	10	1	1	1	1	1	0	0	1	1	1	1	4	7	2	2	4	7	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:150656686C>G	uc003wic.2	-	3	459	c.446G>C	c.(445-447)GGC>GCC	p.G149A	KCNH2_uc011kux.1_Missense_Mutation_p.G53A|KCNH2_uc003wie.2_Missense_Mutation_p.G149A	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	149	Cytoplasmic (Potential).				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	GGTGGGGGGGCCCCGGTGGTT	0.582													19	76					0	0	0.008871	0	0		G	150656686	G	G	150656686	3	3	127	1	0	0	0	0	1	0	0	0	8048	739	26	5	3466	5	KCNH2	7	150656686	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	622106	150656686	8481977	511	69591											
MLL3	58508	broad.mit.edu	37	chr7	151860314	151860314	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaactgtagaagggaatctGggacacagatgtcctactac	13	8	12	8	0	1	2	0	0	1	2	2	5	2	5	1	3	3	1	1	3	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr7:151860314G>A	uc003wla.2	-	43	10567	c.10348C>T	c.(10348-10350)CAG>TAG	p.Q3450*	MLL3_uc003wkz.2_Nonsense_Mutation_p.Q2511*|MLL3_uc003wky.2_Nonsense_Mutation_p.Q959*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3450	Gln-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		AAGGGAATCTGGGACACAGAT	0.483			N		medulloblastoma								89	383					0	0	0.01441	0	0		A	151860314	A	A	151860314	4	1	127	1	0	0	0	0	0	1	0	0	9640	1357	47	4	4455	4	MLL3	7	151860314	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1203628	151860314	7278349	512	69592											
ARHGEF10	9639	broad.mit.edu	37	chr8	1873491	1873491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gttctgtgtggaagacgatgGgaatcacattaaaaaggaga	15	9	13	4	1	2	2	1	0	1	2	2	6	2	4	0	3	0	1	0	3	5	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:1873491G>A	uc003wpr.2	+	22	2709	c.2531G>A	c.(2530-2532)GGG>GAG	p.G844E	ARHGEF10_uc003wpq.1_Missense_Mutation_p.G868E|ARHGEF10_uc003wps.2_Missense_Mutation_p.G806E|ARHGEF10_uc003wpv.2_Missense_Mutation_p.G576E|ARHGEF10_uc010lre.2_Missense_Mutation_p.G524E	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	869					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		GAAGACGATGGGAATCACATT	0.507													16	100					0	0	0.00499	0	0		A	1873491	A	A	1873491	3	1	127	1	0	0	0	0	1	0	0	0	894	1232	43	4	2613	4	ARHGEF10	8	1873491	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08		1873491	144490531	513	69593											
CSMD1	64478	broad.mit.edu	37	chr8	3165998	3165998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccgtagttagggatgcccGgatcctcacattttaccaga	10	10	10	11	2	1	1	1	0	0	1	2	3	2	3	4	2	3	2	4	2	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:3165998G>A	uc011kwk.1	-	24	4052	c.3662C>T	c.(3661-3663)CCG>CTG	p.P1221L	CSMD1_uc011kwj.1_Missense_Mutation_p.P613L|CSMD1_uc003wqe.2_Missense_Mutation_p.P377L	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1221	Extracellular (Potential).|Sushi 7.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		AGGGATGCCCGGATCCTCACA	0.483													9	46					0	0	0.004482	0	0		A	3165998	A	A	3165998	3	1	127	1	0	0	0	0	1	0	0	0	3947	1116	39	1	7223	1	CSMD1	8	3165998	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1292507	3165998	143198024	514	69594											
CSMD1	64478	broad.mit.edu	37	chr8	3855550	3855550	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggtccaggtgcagtccgcGttgttctcgtactctgaagg	6	12	13	10	3	2	1	0	1	2	0	5	1	4	1	2	3	2	4	2	3	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:3855550G>A	uc011kwk.1	-	5	1083	c.693C>T	c.(691-693)AAC>AAT	p.N231N		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	231	Extracellular (Potential).|CUB 2.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TGCAGTCCGCGTTGTTCTCGT	0.567													4	22					0	0	0.009096	0	0		A	3855550	A	A	3855550	2	1	127	1	0	0	0	0	0	0	0	1	3947	1136	40	1		1	CSMD1	8	3855550	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	689552	3855550	142508472	515	69595											
XKR5	389610	broad.mit.edu	37	chr8	6690370	6690370	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggaggacagcaagggccagCcacccccacagaagccgtcc	12	1	12	16	1	0	1	0	0	0	1	1	3	1	3	6	3	3	1	6	3	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:6690370C>T	uc003wqp.2	-	2	133	c.111G>A	c.(109-111)TGG>TGA	p.W37*	XKR5_uc003wqq.2_5'UTR|XKR5_uc003wqr.1_RNA	NM_207411	NP_997294	Q6UX68	XKR5_HUMAN	XK-related protein 5a	37	Helical; (Potential).					integral to membrane					0			STAD - Stomach adenocarcinoma(24;0.0984)	READ - Rectum adenocarcinoma(644;0.137)|COAD - Colon adenocarcinoma(149;0.166)		CAAGGGCCAGCCACCCCCACA	0.602													13	40					0	0	0.013537	0	0		T	6690370	T	T	6690370	4	4	127	1	0	0	0	0	0	1	0	0	17460	740	26	2	1974	2	XKR5	8	6690370	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2834820	6690370	139673652	516	69596											
PINX1	54984	broad.mit.edu	37	chr8	10623273	10623273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttttcttcccccttttacGttccacctgcgtctcagaaa	6	16	4	15	2	3	1	1	0	3	1	6	1	5	1	4	0	2	1	4	0	2	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:10623273G>A	uc003wth.2	-	7	658	c.625C>T	c.(625-627)CGT>TGT	p.R209C	SOX7_uc011kwz.1_Intron|PINX1_uc003wti.2_3'UTR	NM_017884	NP_060354	Q96BK5	PINX1_HUMAN	PIN2-interacting protein 1	209					mitotic metaphase plate congression|negative regulation of cell proliferation	chromosome, telomeric region|condensed chromosome kinetochore|mitochondrion|nuclear chromosome|nucleolus|spindle	protein binding|telomerase inhibitor activity|telomeric RNA binding			lung(1)|kidney(1)|skin(1)	3				Kidney(29;0.0595)|COAD - Colon adenocarcinoma(149;0.105)|KIRC - Kidney renal clear cell carcinoma(542;0.201)		CCCCTTTTACGTTCCACCTGC	0.522													11	496					0	0	0.008291	0	0		A	10623273	A	A	10623273	3	1	127	1	0	0	0	0	1	0	0	0	11952	1145	40	1	365	1	PINX1	8	10623273	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3932903	10623273	135740749	517	69597											
DLC1	10395	broad.mit.edu	37	chr8	13357188	13357188	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcctgatgttttctgcccTtgggtatttaaaacctgttt	6	18	9	8	0	1	1	0	1	1	0	1	1	1	1	3	2	2	3	3	2	3	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:13357188T>C	uc003wwm.2	-	2	837	c.393A>G	c.(391-393)CAA>CAG	p.Q131Q	DLC1_uc003wwn.2_Silent_p.Q131Q|DLC1_uc011kxy.1_Silent_p.Q131Q	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	131					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TTTTCTGCCCTTGGGTATTTA	0.423													65	399					0	0	0.01441	0	0		C	13357188	C	C	13357188	2	2	127	1	0	0	0	0	0	0	0	1	4556	1606	56	3		3	DLC1	8	13357188	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2733915	13357188	133006834	518	69598											
MSR1	4481	broad.mit.edu	37	chr8	16021619	16021619	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgagaatgttcccaatCtttcagtctgagatcattag	10	14	9	8	0	5	2	2	2	3	2	6	4	6	2	1	1	0	1	1	1	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:16021619C>A	uc003wwz.2	-	5	970	c.772G>T	c.(772-774)GAT>TAT	p.D258Y	MSR1_uc010lsu.2_Missense_Mutation_p.D276Y|MSR1_uc003wxa.2_Missense_Mutation_p.D258Y|MSR1_uc003wxb.2_Missense_Mutation_p.D258Y|MSR1_uc011kxz.1_Missense_Mutation_p.D32Y	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	258	Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		TGTTCCCAATCTTTCAGTCTG	0.303													11	71					0.000978159	0.000997877	0.010729	1	0		A	16021619	A	A	16021619	3	1	127	1	0	0	0	0	1	0	0	0	9904	913	32	5	655	5	MSR1	8	16021619	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2664431	16021619	130342403	519	69599											
ZDHHC2	51201	broad.mit.edu	37	chr8	17055134	17055134	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacttataaaaccagatcgCtgccatcactgctccgtctg	11	10	6	14	2	2	1	1	0	1	1	4	1	3	1	3	0	4	2	3	0	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:17055134C>A	uc003wxe.2	+	5	814	c.417C>A	c.(415-417)CGC>CGA	p.R139R		NM_016353	NP_057437	Q9UIJ5	ZDHC2_HUMAN	zinc finger, DHHC-type containing 2	139	DHHC-type.					integral to membrane	acyltransferase activity|zinc ion binding				0				Colorectal(111;0.0697)|COAD - Colon adenocarcinoma(73;0.244)		AACCAGATCGCTGCCATCACT	0.378													37	197					1.76056e-25	1.99577e-25	0.011902	1	0		A	17055134	A	A	17055134	2	1	127	1	0	0	0	0	0	0	0	1	17635	784	28	5		5	ZDHHC2	8	17055134	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1033515	17055134	129308888	520	69600											
PCM1	5108	broad.mit.edu	37	chr8	17867107	17867107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaaagactgtggagaagatCttcttgtagagatatctgaa	14	12	11	4	0	3	6	0	2	3	4	3	8	3	6	0	1	0	1	0	1	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:17867107C>T	uc003wyi.3	+	31	5436	c.5014C>T	c.(5014-5016)CTT>TTT	p.L1672F	PCM1_uc011kyh.1_Missense_Mutation_p.L1664F|PCM1_uc003wyj.3_Missense_Mutation_p.L1618F|PCM1_uc011kyi.1_Missense_Mutation_p.L471F|PCM1_uc011kyj.1_Missense_Mutation_p.L428F|PCM1_uc003wyk.3_Missense_Mutation_p.L354F|PCM1_uc011kyk.1_Missense_Mutation_p.L288F	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	1672	Interaction with HAP1.				centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		TGGAGAAGATCTTCTTGTAGA	0.308			T	RET|JAK2	papillary thyroid|CML|MPD								3	23					0	0	0.004672	0	0		T	17867107	T	T	17867107	3	4	127	1	0	0	0	0	1	0	0	0	11603	913	32	4	5128	4	PCM1	8	17867107	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	811973	17867107	128496915	521	69601											
SH2D4A	63898	broad.mit.edu	37	chr8	19250969	19250969	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtaaacatttcctcatcGatgcctctgcagacgcctac	9	11	7	14	2	2	1	1	0	1	1	4	2	3	1	3	0	4	3	3	0	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:19250969G>T	uc003wzb.2	+	9	1525	c.1189G>T	c.(1189-1191)GAT>TAT	p.D397Y	SH2D4A_uc011kym.1_Missense_Mutation_p.D352Y|SH2D4A_uc003wzc.2_Missense_Mutation_p.D397Y	NM_022071	NP_071354	Q9H788	SH24A_HUMAN	SH2 domain containing 4A	397	SH2.					cytoplasm|nucleus	protein binding				0				Colorectal(111;0.0732)		TTTCCTCATCGATGCCTCTGC	0.527													16	114					1.02788e-11	1.12385e-11	0.00499	1	0		T	19250969	T	T	19250969	3	4	127	1	0	0	0	0	1	0	0	0	14260	1058	37	5	1269	5	SH2D4A	8	19250969	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1383862	19250969	127113053	522	69602											
LZTS1	11178	broad.mit.edu	37	chr8	20107710	20107710	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccttggtgcgcagggcGccctccaggtcctgggtcct	3	8	15	15	2	0	0	0	0	0	0	3	0	3	0	5	5	1	1	5	5	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:20107710G>A	uc003wzr.2	-	3	1425	c.1314C>T	c.(1312-1314)GGC>GGT	p.G438G	LZTS1_uc010ltg.1_Silent_p.G438G	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	438					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		TGCGCAGGGCGCCCTCCAGGT	0.647													47	336					0	0	0.01441	0	0		A	20107710	A	A	20107710	2	1	127	1	0	0	0	0	0	0	0	1	9156	1074	38	1		1	LZTS1	8	20107710	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	856741	20107710	126256312	523	69603											
FAM160B2	64760	broad.mit.edu	37	chr8	21959298	21959298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacccccatgagcccgagcGacctttcttcgagggccact	7	7	11	16	3	1	1	0	1	1	0	2	5	1	2	5	2	2	0	5	2	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:21959298G>A	uc011kyx.1	+	14	1838	c.1787G>A	c.(1786-1788)CGA>CAA	p.R596Q	FAM160B2_uc011kyy.1_RNA	NM_022749	NP_073586	Q86V87	F16B2_HUMAN	retinoic acid induced 16	596											0						GAGCCCGAGCGACCTTTCTTC	0.632													7	40					0	0	0.001984	0	0		A	21959298	A	A	21959298	3	1	127	1	0	0	0	0	1	0	0	0	5482	1058	37	1	1640	1	FAM160B2	8	21959298	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1851588	21959298	124404724	524	69604											
LGI3	203190	broad.mit.edu	37	chr8	22005798	22005798	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgaggagcctgcacagccaGctcctggaaccgtacaaact	11	5	10	15	2	0	0	0	0	0	0	1	3	1	2	5	2	7	3	5	2	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:22005798G>A	uc003xav.2	-	8	1811	c.1522C>T	c.(1522-1524)CTG>TTG	p.L508L	LGI3_uc010ltu.2_Silent_p.L484L	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	508	EAR 7.				exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		TGCACAGCCAGCTCCTGGAAC	0.607													9	58					0	0	0.008291	0	0		A	22005798	A	A	22005798	2	1	127	1	0	0	0	0	0	0	0	1	8769	962	34	2		2	LGI3	8	22005798	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	46500	22005798	124358224	525	69605											
C8orf58	541565	broad.mit.edu	37	chr8	22459291	22459291	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcgctatctggaacacCtgtgcctggtgctggagcag	6	11	13	11	1	2	0	0	0	2	0	3	2	2	2	2	3	4	3	2	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:22459291C>A	uc003xce.2	+	3	695	c.583C>A	c.(583-585)CTG>ATG	p.L195M	C8orf58_uc011kzl.1_Missense_Mutation_p.L195M|C8orf58_uc003xcf.2_Missense_Mutation_p.L195M|KIAA1967_uc003xch.2_5'Flank	NM_001013842	NP_001013864	Q8NAV2	CH058_HUMAN	hypothetical protein LOC541565	195										skin(1)	1		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00563)|Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		TCTGGAACACCTGTGCCTGGT	0.652													27	172					1.17739e-12	1.29733e-12	0.005443	1	0		A	22459291	A	A	22459291	3	1	127	1	0	0	0	0	1	0	0	0	2436	680	24	5	593	5	C8orf58	8	22459291	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	453493	22459291	123904731	526	69606											
KIAA1967	57805	broad.mit.edu	37	chr8	22464797	22464797	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagctcagcctcagttgaTcttccagcctcaccggattc	7	10	10	14	1	4	1	3	1	1	0	6	3	5	3	4	2	3	2	4	2	0	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:22464797T>C	uc003xch.2	+	6	583	c.446T>C	c.(445-447)ATC>ACC	p.I149T	KIAA1967_uc003xci.2_Missense_Mutation_p.I149T|KIAA1967_uc003xcj.1_5'UTR	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	149					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		CCTCAGTTGATCTTCCAGCCT	0.557													11	49					0	0	0.013537	0	0		C	22464797	C	C	22464797	3	2	127	1	0	0	0	0	1	0	0	0	8281	1435	50	3	464	3	KIAA1967	8	22464797	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	5506	22464797	123899225	527	69607											
KIAA1967	57805	broad.mit.edu	37	chr8	22476226	22476226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctggatggtggccttcccGaggaggtgctcttcggtatg	4	11	16	10	2	1	0	0	0	1	0	3	3	2	2	3	6	1	2	3	6	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:22476226G>A	uc003xch.2	+	18	2454	c.2317G>A	c.(2317-2319)GAG>AAG	p.E773K	KIAA1967_uc003xci.2_Missense_Mutation_p.E773K|KIAA1967_uc003xcj.1_Missense_Mutation_p.E442K	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	773					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		TGGCCTTCCCGAGGAGGTGCT	0.627													29	112					0	0	0.003271	0	0		A	22476226	A	A	22476226	3	1	127	1	0	0	0	0	1	0	0	0	8281	1059	37	1	2383	1	KIAA1967	8	22476226	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	11429	22476226	123887796	528	69608											
NEFL	4747	broad.mit.edu	37	chr8	24813259	24813259	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgcgcggatgtccttgagCgcggcggaaaggtcgggctt	5	8	18	10	7	0	1	0	1	0	0	2	3	1	3	1	5	2	1	1	5	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:24813259C>T	uc003xee.2	-	1	873	c.771G>A	c.(769-771)GCG>GCA	p.A257A		NM_006158	NP_006149	P07196	NFL_HUMAN	neurofilament, light polypeptide 68kDa	257	Rod.|Coil 2A.				anterograde axon cargo transport|axon transport of mitochondrion|neurofilament bundle assembly|retrograde axon cargo transport|synaptic transmission	cytosol|neurofilament	identical protein binding|protein C-terminus binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.00965)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		TGTCCTTGAGCGCGGCGGAAA	0.607													6	28					0	0	0.001984	0	0		T	24813259	T	T	24813259	2	4	127	1	0	0	0	0	0	0	0	1	10334	755	27	1		1	NEFL	8	24813259	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2337033	24813259	121550763	529	69609											
KCTD9	54793	broad.mit.edu	37	chr8	25290099	25290099	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttaaggtagccactctcAggttaattcctgtcatctga	9	16	7	9	0	3	1	2	1	2	0	5	1	4	1	2	2	1	2	2	2	3	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:25290099A>G	uc003xeo.2	-	11	1132	c.974T>C	c.(973-975)CTG>CCG	p.L325P	PPP2R2A_uc003xek.2_Intron|KCTD9_uc011lad.1_RNA	NM_017634	NP_060104	Q7L273	KCTD9_HUMAN	potassium channel tetramerisation domain	325	Pentapeptide repeat 2.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		AGCCACTCTCAGGTTAATTCC	0.393													36	209					0	0	0.010771	0	0		G	25290099	G	G	25290099	3	3	127	1	0	0	0	0	1	0	0	0	8132	188	7	3	203	3	KCTD9	8	25290099	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	476840	25290099	121073923	530	69610											
DPYSL2	1808	broad.mit.edu	37	chr8	26510813	26510813	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtgaagtgtctgtgacGcccaagacagtcactccagc	9	9	12	11	1	2	3	1	2	1	1	3	3	3	3	2	0	1	0	2	0	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:26510813G>A	uc003xfb.1	+	13	1877	c.1527G>A	c.(1525-1527)ACG>ACA	p.T509T	DPYSL2_uc003xfa.2_Silent_p.T614T|DPYSL2_uc010luk.1_RNA|DPYSL2_uc011lah.1_Silent_p.T473T	NM_001386	NP_001377	Q16555	DPYL2_HUMAN	dihydropyrimidinase-like 2	509				T->A: Greatly diminishes binding to 3F4 antibody.	axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	dihydropyrimidinase activity|protein binding			large_intestine(1)	1		all_cancers(63;0.121)|Ovarian(32;2.68e-05)|all_epithelial(46;0.116)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;3.33e-10)|Colorectal(74;0.183)		TGTCTGTGACGCCCAAGACAG	0.602													55	288					0	0	0.01441	0	0		A	26510813	A	A	26510813	2	1	127	1	0	0	0	0	0	0	0	1	4753	1074	38	1		1	DPYSL2	8	26510813	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1220714	26510813	119853209	531	69611											
ZNF395	55893	broad.mit.edu	37	chr8	28206306	28206306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actggtcccggtgctcgatgCcatacaccttgcggcacttc	6	10	10	15	3	0	0	0	0	0	0	3	1	1	0	3	3	4	2	3	3	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:28206306C>T	uc003xgq.2	-	10	1560	c.1472G>A	c.(1471-1473)GGC>GAC	p.G491D	ZNF395_uc003xgt.2_Missense_Mutation_p.G491D|ZNF395_uc003xgr.2_Missense_Mutation_p.G491D|ZNF395_uc003xgs.2_Missense_Mutation_p.G491D	NM_018660	NP_061130	Q9H8N7	ZN395_HUMAN	zinc finger protein 395	491					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.102)|Kidney(114;0.123)|Colorectal(74;0.142)		GTGCTCGATGCCATACACCTT	0.612													14	105					0	0	0.003163	0	0		T	28206306	T	T	28206306	3	4	127	1	0	0	0	0	1	0	0	0	17906	739	26	2	73	2	ZNF395	8	28206306	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1695493	28206306	118157716	532	69612											
UNC5D	137970	broad.mit.edu	37	chr8	35406866	35406866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catcagctcctgggacactgCctcatttcatagaggagcca	10	9	9	13	0	3	1	3	0	0	1	4	3	4	3	3	2	3	1	3	2	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:35406866C>T	uc003xjr.1	+	2	488	c.160C>T	c.(160-162)CCT>TCT	p.P54S	UNC5D_uc003xjs.1_Missense_Mutation_p.P49S	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	54	Extracellular (Potential).|Ig-like.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		TGGGACACTGCCTCATTTCAT	0.463													9	62					0	0	0.006214	0	0		T	35406866	T	T	35406866	3	4	127	1	0	0	0	0	1	0	0	0	17021	739	26	2	166	2	UNC5D	8	35406866	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7200560	35406866	110957156	533	69613											
FGFR1	2260	broad.mit.edu	37	chr8	38275768	38275768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcccgaggcagctcccagcGagggtcttcgggaagctcat	7	7	14	13	3	2	0	1	0	1	0	5	3	4	1	2	3	3	3	2	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:38275768G>A	uc003xlp.2	-	11	2350	c.1408C>T	c.(1408-1410)CGC>TGC	p.R470C	FGFR1_uc010lwf.2_RNA|FGFR1_uc011lbo.1_Missense_Mutation_p.R468C|FGFR1_uc011lbp.1_Missense_Mutation_p.R381C|FGFR1_uc011lbq.1_Missense_Mutation_p.R379C|FGFR1_uc010lwk.2_Missense_Mutation_p.R460C	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	470	Cytoplasmic (Potential).				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	AGCTCCCAGCGAGGGTCTTCG	0.522		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						34	199					0	0	0.005524	0	0		A	38275768	A	A	38275768	3	1	127	1	0	0	0	0	1	0	0	0	5877	1058	37	1	1096	1	FGFR1	8	38275768	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2868902	38275768	108088254	534	69614											
FGFR1	2260	broad.mit.edu	37	chr8	38279341	38279341	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacggtcaaccatgcagagTgatgggagagtccgatagag	13	6	15	7	2	1	4	1	1	0	3	2	7	2	4	2	2	3	1	2	2	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:38279341T>C	uc003xlp.2	-	8	1997	c.1055A>G	c.(1054-1056)CAC>CGC	p.H352R	FGFR1_uc011lbo.1_Missense_Mutation_p.H350R|FGFR1_uc011lbp.1_Missense_Mutation_p.H263R|FGFR1_uc011lbq.1_Missense_Mutation_p.H261R|FGFR1_uc010lwk.2_Missense_Mutation_p.H344R|FGFR1_uc011lbr.1_RNA|FGFR1_uc011lbs.1_Missense_Mutation_p.H192R|FGFR1_uc011lbt.1_Intron|FGFR1_uc011lbu.1_Missense_Mutation_p.H383R|FGFR1_uc011lbv.1_Missense_Mutation_p.H350R|FGFR1_uc011lbw.1_Missense_Mutation_p.H263R|FGFR1_uc011lbx.1_Missense_Mutation_p.H263R	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	352	Ig-like C2-type 3.|Extracellular (Potential).				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	CCATGCAGAGTGATGGGAGAG	0.542		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						15	89					0	0	0.006122	0	0		C	38279341	C	C	38279341	3	2	127	1	0	0	0	0	1	0	0	0	5877	1696	59	3	1457	3	FGFR1	8	38279341	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	3573	38279341	108084681	535	69615											
TACC1	6867	broad.mit.edu	37	chr8	38705511	38705511	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgacaaaaatctgtgatgaGctgattgcaaagctgggaaa	15	9	11	6	0	1	4	0	4	1	0	1	5	1	5	0	1	3	3	0	1	4	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:38705511G>T	uc010lwp.2	+	13	2767	c.2388G>T	c.(2386-2388)GAG>GAT	p.E796D	TACC1_uc003xma.2_Missense_Mutation_p.E234D|TACC1_uc003xlz.2_Missense_Mutation_p.E601D|TACC1_uc003xmc.3_Missense_Mutation_p.E600D|TACC1_uc011lbz.1_Missense_Mutation_p.E783D|TACC1_uc003xmb.3_Missense_Mutation_p.E722D|TACC1_uc003xmf.3_Missense_Mutation_p.E386D|TACC1_uc011lca.1_Missense_Mutation_p.E779D|TACC1_uc011lcb.1_Missense_Mutation_p.E572D|TACC1_uc011lcd.1_RNA|TACC1_uc003xmh.3_Missense_Mutation_p.E613D|TACC1_uc010lwq.2_Missense_Mutation_p.E612D	NM_006283	NP_006274	O75410	TACC1_HUMAN	transforming, acidic coiled-coil containing	796	|Interaction with CH-TOG.				cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)			TCTGTGATGAGCTGATTGCAA	0.403													22	129					4.26978e-12	4.67925e-12	0.00333	1	0		T	38705511	T	T	38705511	3	4	127	1	0	0	0	0	1	0	0	0	15526	962	34	5	2438	5	TACC1	8	38705511	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	426170	38705511	107658511	536	69616											
IDO2	169355	broad.mit.edu	37	chr8	39845406	39845406	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaacctggagaccatcAtctcatttcctgggggagag	11	8	12	10	0	2	2	2	0	1	2	4	5	3	3	3	4	1	0	3	4	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:39845406A>G	uc010lwy.1	+	7	747	c.505A>G	c.(505-507)ATC>GTC	p.I169V	IDO2_uc003xno.1_RNA|IDO2_uc010lwz.1_Intron|IDO2_uc003xnp.1_5'UTR	NM_194294	NP_919270	Q6ZQW0	I23O2_HUMAN	indoleamine-pyrrole 2,3 dioxygenase-like 1	156					tryptophan catabolic process to kynurenine	cytosol	heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			ovary(2)	2						GGAGACCATCATCTCATTTCC	0.498													4	24					0	0	0.009096	0	0		G	39845406	G	G	39845406	3	3	127	1	0	0	0	0	1	0	0	0	7518	217	8	3	531	3	IDO2	8	39845406	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1139895	39845406	106518616	537	69617											
ANK1	286	broad.mit.edu	37	chr8	41526075	41526075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgagccgtctgcatcccagtCctgcagtctggggtccagaa	7	8	12	14	2	2	1	0	0	2	1	5	2	5	1	4	2	3	2	4	2	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:41526075C>T	uc003xok.2	-	39	5188	c.5104G>A	c.(5104-5106)GAC>AAC	p.D1702N	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Missense_Mutation_p.D856N|ANK1_uc003xoi.2_Missense_Mutation_p.D1702N|ANK1_uc003xoj.2_Missense_Mutation_p.D1702N|ANK1_uc003xol.2_Missense_Mutation_p.D1540N|ANK1_uc003xom.2_Missense_Mutation_p.D1743N	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1702	55 kDa regulatory domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			GCATCCCAGTCCTGCAGTCTG	0.562													6	42					0	0	0.001984	0	0		T	41526075	T	T	41526075	3	4	127	1	0	0	0	0	1	0	0	0	620	855	30	4	883	4	ANK1	8	41526075	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1680669	41526075	104837947	538	69618											
ANK1	286	broad.mit.edu	37	chr8	41753904	41753904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcacgggagcggtttctcCgcttcctgttggattcctcc	3	13	12	13	3	2	0	1	0	1	0	6	2	5	2	4	4	1	3	4	4	0	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:41753904C>T	uc003xom.2	-	1	377	c.95G>A	c.(94-96)CGG>CAG	p.R32Q		NM_001142446	NP_001135918	P16157	ANK1_HUMAN	ankyrin 1 isoform 9	Error:Variant_position_missing_in_P16157_after_alignment					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			GCGGTTTCTCCGCTTCCTGTT	0.617													5	53					0	0	0.000602	0	0		T	41753904	T	T	41753904	3	4	127	1	0	0	0	0	1	0	0	0	620	652	23	1	6202	1	ANK1	8	41753904	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	227829	41753904	104610118	539	69619											
CHRNB3	1142	broad.mit.edu	37	chr8	42587519	42587519	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatcatgtggatcgctacTcatccccagagaaagaggag	14	7	11	9	1	2	3	2	0	0	3	4	6	3	5	2	2	1	1	2	2	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:42587519T>C	uc003xpi.1	+	5	1197	c.1069T>C	c.(1069-1071)TCA>CCA	p.S357P		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	357	Cytoplasmic (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GGATCGCTACTCATCCCCAGA	0.443													32	143					0	0	0.010818	0	0		C	42587519	C	C	42587519	3	2	127	1	0	0	0	0	1	0	0	0	3395	1551	54	3	1087	3	CHRNB3	8	42587519	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	833615	42587519	103776503	540	69620											
FNTA	2339	broad.mit.edu	37	chr8	42940306	42940306	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttttcattttcagttaTgtgaaatcctagctaaagaa	13	18	5	5	0	2	2	2	1	0	1	3	2	3	2	1	0	1	2	1	0	7	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:42940306T>C	uc003xps.2	+	9	1069	c.1021T>C	c.(1021-1023)TGT>CGT	p.C341R	FNTA_uc003xpt.2_Missense_Mutation_p.C250R|FNTA_uc003xpu.2_Missense_Mutation_p.C274R|FNTA_uc003xpv.2_RNA	NM_002027	NP_002018	P49354	FNTA_HUMAN	farnesyltransferase, CAAX box, alpha isoform a	341					cellular component disassembly involved in apoptosis|positive regulation of deacetylase activity|positive regulation of tubulin deacetylation|protein farnesylation|protein geranylgeranylation|transforming growth factor beta receptor signaling pathway	cytosol|microtubule associated complex	alpha-tubulin binding|CAAX-protein geranylgeranyltransferase activity|microtubule binding|protein farnesyltransferase activity			ovary(1)	1	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			TTTTCAGTTATGTGAAATCCT	0.313													6	58					0	0	0.001168	0	0		C	42940306	C	C	42940306	3	2	127	1	0	0	0	0	1	0	0	0	5991	1464	51	3	1055	3	FNTA	8	42940306	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	352787	42940306	103423716	541	69621											
PRKDC	5591	broad.mit.edu	37	chr8	48845642	48845642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctcaacaatcttcaaaaCggattttacaaattcatcat	15	15	2	9	1	5	0	4	0	2	0	6	1	5	1	0	1	3	0	0	1	6	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:48845642C>T	uc003xqi.2	-	16	1771	c.1714G>A	c.(1714-1716)GTT>ATT	p.V572I	PRKDC_uc003xqj.2_Missense_Mutation_p.V572I|PRKDC_uc011ldh.1_Missense_Mutation_p.V572I	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	572					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				ATCTTCAAAACGGATTTTACA	0.294								NHEJ					4	18					0	0	0.009096	0	0		T	48845642	T	T	48845642	3	4	127	1	0	0	0	0	1	0	0	0	12543	536	19	1	10955	1	PRKDC	8	48845642	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	5905336	48845642	97518380	542	69622											
PRKDC	5591	broad.mit.edu	37	chr8	48852128	48852128	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactcctgcaaaaagtccatAtccacggatagcaatagata	16	9	6	10	1	0	1	0	0	0	1	3	2	3	2	3	1	3	2	3	1	8	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:48852128A>G	uc003xqi.2	-	11	1153	c.1096T>C	c.(1096-1098)TAT>CAT	p.Y366H	PRKDC_uc003xqj.2_Missense_Mutation_p.Y366H|PRKDC_uc011ldh.1_Missense_Mutation_p.Y366H	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	366					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AAAAGTCCATATCCACGGATA	0.333								NHEJ					9	92					0	0	0.006214	0	0		G	48852128	G	G	48852128	3	3	127	1	0	0	0	0	1	0	0	0	12543	449	16	3	11593	3	PRKDC	8	48852128	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	6486	48852128	97511894	543	69623											
RB1CC1	9821	broad.mit.edu	37	chr8	53540632	53540632	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagggcaggtagagactcTgaatgtagaaaatataaagt	16	9	11	5	0	1	3	0	1	1	2	2	4	2	3	1	2	0	3	1	2	8	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:53540632T>C	uc003xre.3	-	22	5154	c.4596A>G	c.(4594-4596)TCA>TCG	p.S1532S	RB1CC1_uc003xrf.3_Silent_p.S1532S	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	1532					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				GTAGAGACTCTGAATGTAGAA	0.383													13	127					0	0	0.001855	0	0		C	53540632	C	C	53540632	2	2	127	1	0	0	0	0	0	0	0	1	13124	1567	55	3		3	RB1CC1	8	53540632	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	4688504	53540632	92823390	544	69624											
RB1CC1	9821	broad.mit.edu	37	chr8	53573539	53573539	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctgcttcatataatctcTttccatctttgactaaagca	10	18	3	10	0	4	1	1	1	3	0	6	1	5	1	1	0	2	2	1	0	4	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:53573539T>G	uc003xre.3	-	11	2132	c.1574A>C	c.(1573-1575)AAG>ACG	p.K525T	RB1CC1_uc003xrf.3_Missense_Mutation_p.K525T	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	525					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				ATATAATCTCTTTCCATCTTT	0.284													19	92					0	0	0.007413	0	0		G	53573539	G	G	53573539	3	3	127	1	0	0	0	0	1	0	0	0	13124	1609	56	5	3266	5	RB1CC1	8	53573539	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	32907	53573539	92790483	545	69625											
NPBWR1	2831	broad.mit.edu	37	chr8	53853024	53853024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgacgagcagggccggcGccagtgcgtgctagtctttc	7	7	15	12	5	1	1	0	0	1	1	2	3	1	1	2	2	3	2	2	2	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:53853024G>A	uc011ldu.1	+	1	557	c.557G>A	c.(556-558)CGC>CAC	p.R186H		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	186	Extracellular (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				CAGGGCCGGCGCCAGTGCGTG	0.706													4	16					0	0	0.009096	0	0		A	53853024	A	A	53853024	3	1	127	1	0	0	0	0	1	0	0	0	10587	1087	38	1	559	1	NPBWR1	8	53853024	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	279485	53853024	92510998	546	69626											
CHD7	55636	broad.mit.edu	37	chr8	61654300	61654300	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactcgcgtctccgcactcGcagtatcacacccctcccgt	6	8	8	19	5	2	0	1	0	1	0	6	1	3	1	4	1	0	3	4	1	1	1	rs115293759	by1000genomes	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:61654300G>A	uc003xue.2	+	2	786	c.309G>A	c.(307-309)TCG>TCA	p.S103S		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	103					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			CTCCGCACTCGCAGTATCACA	0.542													4	47					0	0	0.009096	0	0		A	61654300	A	A	61654300	2	1	127	1	0	0	0	0	0	0	0	1	3333	1074	38	1		1	CHD7	8	61654300	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	7801276	61654300	84709722	547	69627											
CHD7	55636	broad.mit.edu	37	chr8	61654770	61654770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagcagttccatcaccaccCctctactgctctccatggag	8	9	7	17	0	3	0	1	0	2	0	5	1	4	1	5	1	3	4	5	1	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:61654770C>T	uc003xue.2	+	2	1256	c.779C>T	c.(778-780)CCC>CTC	p.P260L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	260					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			CATCACCACCCCTCTACTGCT	0.582													46	255					0	0	0.01441	0	0		T	61654770	T	T	61654770	3	4	127	1	0	0	0	0	1	0	0	0	3333	623	22	4	781	4	CHD7	8	61654770	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	470	61654770	84709252	548	69628											
CHD7	55636	broad.mit.edu	37	chr8	61764728	61764728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccctaatgaagactgaccGgcgcagacggcggcctcgag	9	4	15	13	5	0	4	0	2	0	2	1	5	0	4	3	4	0	1	3	4	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:61764728G>A	uc003xue.2	+	29	6293	c.5816G>A	c.(5815-5817)CGG>CAG	p.R1939Q		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1939	Poly-Arg.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			AAGACTGACCGGCGCAGACGG	0.522													19	101					0	0	0.007413	0	0		A	61764728	A	A	61764728	3	1	127	1	0	0	0	0	1	0	0	0	3333	1116	39	1	5926	1	CHD7	8	61764728	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	109958	61764728	84599294	549	69629											
C8orf45	157777	broad.mit.edu	37	chr8	67793093	67793093	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataattttagatgaatcagTgaataaaatgaatataggaa	21	12	7	1	0	1	4	1	3	0	1	1	5	1	5	0	1	0	0	0	1	11	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:67793093T>C	uc003xwz.3	+	8	890	c.719T>C	c.(718-720)GTG>GCG	p.V240A	C8orf45_uc003xwv.2_Missense_Mutation_p.V240A|C8orf45_uc011lev.1_Missense_Mutation_p.V240A|C8orf45_uc011lew.1_Missense_Mutation_p.V171A|C8orf45_uc011lex.1_5'UTR|C8orf45_uc003xwy.3_Missense_Mutation_p.V240A	NM_173518	NP_775789	Q4G0Z9	CH045_HUMAN	minichromosome maintenance complex	240					DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GATGAATCAGTGAATAAAATG	0.279													4	20					0	0	0.009096	0	0		C	67793093	C	C	67793093	3	2	127	1	0	0	0	0	1	0	0	0	2433	1696	59	3	745	3	C8orf45	8	67793093	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	6028365	67793093	78570929	550	69630											
COPS5	10987	broad.mit.edu	37	chr8	67963489	67963489	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaagctagaagaactcaaCgtattcacccagtatttatt	15	11	6	9	1	2	2	2	0	0	2	2	2	2	2	1	0	4	4	1	0	8	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:67963489C>T	uc003xxe.2	-	6	1078	c.747G>A	c.(745-747)ACG>ACA	p.T249T	COPS5_uc003xxd.2_Silent_p.T185T|COPS5_uc003xxf.2_Silent_p.T294T|COPS5_uc010lyu.1_RNA|COPS5_uc010lyv.1_Silent_p.T249T	NM_006837	NP_006828	Q92905	CSN5_HUMAN	COP9 signalosome subunit 5	249					cullin deneddylation|transcription from RNA polymerase II promoter	eukaryotic translation initiation factor 3 complex|signalosome	metal ion binding|metallopeptidase activity|protein binding|transcription coactivator activity|translation initiation factor activity			ovary(1)|skin(1)	2	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00389)|OV - Ovarian serous cystadenocarcinoma(28;0.00691)|all cancers(69;0.0205)|BRCA - Breast invasive adenocarcinoma(89;0.153)			AAGAACTCAACGTATTCACCC	0.323													21	105					0	0	0.010504	0	0		T	67963489	T	T	67963489	2	4	127	1	0	0	0	0	0	0	0	1	3739	523	19	1		1	COPS5	8	67963489	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	170396	67963489	78400533	551	69631											
SLCO5A1	81796	broad.mit.edu	37	chr8	70744651	70744651	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagccccgccgaagtggaCggggcagagggactgggggc	7	2	20	12	4	0	1	0	0	0	1	0	5	0	3	4	6	1	1	4	6	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:70744651C>T	uc003xyl.2	-	2	965	c.258G>A	c.(256-258)CCG>CCA	p.P86P	SLCO5A1_uc010lzb.2_Silent_p.P86P|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Silent_p.P86P|SLCO5A1_uc010lzc.2_Silent_p.P86P	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	86	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			CCGAAGTGGACGGGGCAGAGG	0.642											OREG0018815	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	63					0	0	0.006122	0	0		T	70744651	T	T	70744651	2	4	127	1	0	0	0	0	0	0	0	1	14756	523	19	1		1	SLCO5A1	8	70744651	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2781162	70744651	75619371	552	69632											
TMEM70	54968	broad.mit.edu	37	chr8	74893786	74893786	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatatccatctaatgggttAtgacaaagaagaatttattt	15	15	6	5	0	1	3	0	1	1	2	2	3	2	3	1	1	0	1	1	1	8	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:74893786A>G	uc003yab.2	+	3	800	c.713A>G	c.(712-714)TAT>TGT	p.Y238C	TMEM70_uc003yac.2_3'UTR	NM_017866	NP_060336	Q9BUB7	TMM70_HUMAN	transmembrane protein 70 isoform a	238					mitochondrial proton-transporting ATP synthase complex assembly	integral to mitochondrial membrane|mitochondrial inner membrane				ovary(1)	1	Breast(64;0.0311)		Epithelial(68;0.0186)|BRCA - Breast invasive adenocarcinoma(89;0.0499)|all cancers(69;0.0564)			CTAATGGGTTATGACAAAGAA	0.338													23	134					0	0	0.00333	0	0		G	74893786	G	G	74893786	3	3	127	1	0	0	0	0	1	0	0	0	16224	449	16	3	731	3	TMEM70	8	74893786	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	4149135	74893786	71470236	553	69633											
JPH1	56704	broad.mit.edu	37	chr8	75227418	75227418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgtggtggtggcgtccaCgtggtcttccaccgggcaaa	5	10	14	12	4	1	0	0	0	1	0	4	0	4	0	4	5	0	1	4	5	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:75227418C>T	uc003yae.2	-	2	857	c.817G>A	c.(817-819)GTG>ATG	p.V273M	JPH1_uc003yaf.2_Missense_Mutation_p.V273M|JPH1_uc003yag.1_Missense_Mutation_p.V137M	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	273	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			GTGGCGTCCACGTGGTCTTCC	0.567													27	199					0	0	0.004656	0	0		T	75227418	T	T	75227418	3	4	127	1	0	0	0	0	1	0	0	0	7976	536	19	1	1184	1	JPH1	8	75227418	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	333632	75227418	71136604	554	69634											
ZFHX4	79776	broad.mit.edu	37	chr8	77776241	77776241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttctgttatttcggtcagCctttgattgacccacaagag	8	14	8	11	1	2	3	1	2	1	1	3	3	2	3	3	1	1	1	3	1	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:77776241C>T	uc003yav.2	+	11	10543	c.10156C>T	c.(10156-10158)CCT>TCT	p.P3386S		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3382						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTTCGGTCAGCCTTTGATTGA	0.438										HNSCC(33;0.089)			7	65					0	0	0.00308	0	0		T	77776241	T	T	77776241	3	4	127	1	0	0	0	0	1	0	0	0	17660	739	26	2	10329	2	ZFHX4	8	77776241	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2548823	77776241	68587781	555	69635											
CA3	761	broad.mit.edu	37	chr8	86358463	86358463	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggctcattcaccacgccGccctgcgaggaatgcattgt	8	8	11	14	3	2	0	2	0	0	0	2	2	2	1	3	2	2	2	3	2	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:86358463G>A	uc003ydj.2	+	6	683	c.600G>A	c.(598-600)CCG>CCA	p.P200P	CA3_uc011lfv.1_RNA	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	200					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0						TCACCACGCCGCCCTGCGAGG	0.597													11	47					0	0	0.001855	0	0		A	86358463	A	A	86358463	2	1	127	1	0	0	0	0	0	0	0	1	2520	1074	38	1		1	CA3	8	86358463	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	8582222	86358463	60005559	556	69636											
RBM12B	389677	broad.mit.edu	37	chr8	94747516	94747516	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctctctctagtgaccctgAtctcttcttttcataacgtg	7	17	5	12	1	5	2	1	2	4	0	8	2	5	2	1	0	1	0	1	0	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:94747516A>C	uc003yfz.2	-	3	1316	c.1123T>G	c.(1123-1125)TCA>GCA	p.S375A		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	375							nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			AGTGACCCTGATCTCTTCTTT	0.368													51	292					0	0	0.01441	0	0		C	94747516	C	C	94747516	3	2	127	1	0	0	0	0	1	0	0	0	13139	333	12	5	1886	5	RBM12B	8	94747516	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	8389053	94747516	51616506	557	69637											
CDH17	1015	broad.mit.edu	37	chr8	95174358	95174358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgatcattgatatcaataaCgttgatttgcacaaaacaaa	17	12	5	7	1	2	3	2	3	0	0	2	3	2	3	0	0	3	2	0	0	6	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:95174358C>T	uc003ygh.2	-	11	1440	c.1315G>A	c.(1315-1317)GTT>ATT	p.V439I	CDH17_uc011lgo.1_Missense_Mutation_p.V225I|CDH17_uc011lgp.1_Missense_Mutation_p.V439I	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	439	Extracellular (Potential).|Cadherin 4.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			ATATCAATAACGTTGATTTGC	0.303													21	108					0	0	0.010504	0	0		T	95174358	T	T	95174358	3	4	127	1	0	0	0	0	1	0	0	0	3105	536	19	1	1215	1	CDH17	8	95174358	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	426842	95174358	51189664	558	69638											
GEM	2669	broad.mit.edu	37	chr8	95272654	95272654	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatcagatgcctgccatcAgctgggatgctccagcgctg	8	8	11	14	1	2	1	2	0	0	1	3	2	3	2	4	1	5	3	4	1	0	0	rs151310883	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:95272654A>G	uc003ygj.2	-	2	327	c.78T>C	c.(76-78)GCT>GCC	p.A26A	GEM_uc003ygi.2_Silent_p.A26A	NM_005261	NP_005252	P55040	GEM_HUMAN	GTP-binding mitogen-induced T-cell protein	26					cell surface receptor linked signaling pathway|immune response|small GTPase mediated signal transduction	internal side of plasma membrane	calmodulin binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding			lung(1)	1	Breast(36;4.65e-06)	Myeloproliferative disorder(644;0.204)	BRCA - Breast invasive adenocarcinoma(8;0.00691)			GCCTGCCATCAGCTGGGATGC	0.607													10	49					0	0	0.001855	0	0		G	95272654	G	G	95272654	2	3	127	1	0	0	0	0	0	0	0	1	6344	175	7	3		3	GEM	8	95272654	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	98296	95272654	51091368	559	69639											
VPS13B	157680	broad.mit.edu	37	chr8	100836166	100836166	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accatatcaaatattttataAaccacagctatctgtctgca	15	13	3	10	0	3	0	1	0	2	0	3	0	3	0	2	0	3	2	2	0	7	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:100836166A>G	uc003yiv.2	+	51	9476	c.9365A>G	c.(9364-9366)AAA>AGA	p.K3122R	VPS13B_uc003yiw.2_Missense_Mutation_p.K3097R	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3122					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			ATATTTTATAAACCACAGCTA	0.328													27	144					0	0	0.003954	0	0		G	100836166	G	G	100836166	3	3	127	1	0	0	0	0	1	0	0	0	17216	14	1	3	9757	3	VPS13B	8	100836166	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5563512	100836166	45527856	560	69640											
SPAG1	6674	broad.mit.edu	37	chr8	101232551	101232551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgaaacctcttctgaggcGggcgatggcctatgaaactc	10	10	11	10	2	2	3	0	3	2	0	3	4	2	3	2	3	2	0	2	3	4	3	rs150325048		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:101232551G>A	uc003yjh.1	+	13	1666	c.1580G>A	c.(1579-1581)CGG>CAG	p.R527Q	SPAG1_uc003yji.1_Missense_Mutation_p.R527Q	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	527	TPR 6.				single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		CTTCTGAGGCGGGCGATGGCC	0.398													36	202					0	0	0.00623	0	0		A	101232551	A	A	101232551	3	1	127	1	0	0	0	0	1	0	0	0	15000	1116	39	1	1626	1	SPAG1	8	101232551	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	396385	101232551	45131471	561	69641											
GRHL2	79977	broad.mit.edu	37	chr8	102571012	102571012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactccggacagcacatacaGcgagagcttcaaggacgcag	13	4	11	13	3	1	1	1	0	0	1	2	4	2	3	1	2	4	3	1	2	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:102571012G>A	uc010mbu.2	+	4	980	c.650G>A	c.(649-651)AGC>AAC	p.S217N	GRHL2_uc011lhi.1_Missense_Mutation_p.S217N	NM_024915	NP_079191	Q6ISB3	GRHL2_HUMAN	transcription factor CP2-like 3	217						cytoplasm|nucleus	DNA binding			ovary(2)|skin(1)	3	all_cancers(14;4.39e-08)|all_epithelial(15;4.09e-10)|Lung NSC(17;7.11e-06)|all_lung(17;1.44e-05)		Epithelial(11;5.81e-09)|all cancers(13;3.81e-07)|OV - Ovarian serous cystadenocarcinoma(57;0.000213)			AGCACATACAGCGAGAGCTTC	0.547													7	40					0	0	0.001984	0	0		A	102571012	A	A	102571012	3	1	127	1	0	0	0	0	1	0	0	0	6780	971	34	2	664	2	GRHL2	8	102571012	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1338461	102571012	43793010	562	69642											
FZD6	8323	broad.mit.edu	37	chr8	104312361	104312361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtttacatttttgttgaCgtgtatttttctacccctcc	7	20	5	9	1	1	1	0	1	1	0	2	1	2	1	3	0	2	3	3	0	4	9			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:104312361C>T	uc003ylh.2	+	2	310	c.26C>T	c.(25-27)ACG>ATG	p.T9M	FZD6_uc003yli.2_Missense_Mutation_p.T9M|FZD6_uc003ylj.2_Missense_Mutation_p.T9M|FZD6_uc011lhn.1_Intron|FZD6_uc011lho.1_Translation_Start_Site|FZD6_uc011lhp.1_Translation_Start_Site	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	9					angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			TTTTTGTTGACGTGTATTTTT	0.398													20	108					0	0	0.007413	0	0		T	104312361	T	T	104312361	3	4	127	1	0	0	0	0	1	0	0	0	6148	536	19	1	28	1	FZD6	8	104312361	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1741349	104312361	42051661	563	69643											
RIMS2	9699	broad.mit.edu	37	chr8	105105763	105105763	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactaaatcttcggacagtgAtgtaagtgatatatctgcgg	12	13	10	6	2	2	2	0	2	2	0	3	3	2	3	0	2	2	1	0	2	6	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:105105763A>G	uc003yls.2	+	21	3027	c.2786A>G	c.(2785-2787)GAT>GGT	p.D929G	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Missense_Mutation_p.D1002G|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TCGGACAGTGATGTAAGTGAT	0.438										HNSCC(12;0.0054)			31	176					0	0	0.010818	0	0		G	105105763	G	G	105105763	3	3	127	1	0	0	0	0	1	0	0	0	13393	348	12	3		3	RIMS2	8	105105763	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	793402	105105763	41258259	564	69644											
EIF3H	8667	broad.mit.edu	37	chr8	117671196	117671196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttacatggcgaaggctccGcatcatttccatctgatatt	9	14	8	10	2	2	1	1	1	1	0	4	2	4	1	2	2	1	3	2	2	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:117671196G>A	uc003yoa.2	-	3	339	c.313C>T	c.(313-315)CGG>TGG	p.R105W	EIF3H_uc003yob.2_Missense_Mutation_p.R119W|EIF3H_uc011lhz.1_Missense_Mutation_p.R105W	NM_003756	NP_003747	O15372	EIF3H_HUMAN	eukaryotic translation initiation factor 3,	105	MPN.				regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(3)	3	all_cancers(13;3.98e-22)|Lung NSC(37;0.000183)|Ovarian(258;0.0172)					CGAAGGCTCCGCATCATTTCC	0.428													34	123					0	0	0.003755	0	0		A	117671196	A	A	117671196	3	1	127	1	0	0	0	0	1	0	0	0	5026	1086	38	1	769	1	EIF3H	8	117671196	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	12565433	117671196	28692826	565	69645											
SAMD12	401474	broad.mit.edu	37	chr8	119391937	119391937	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaagtctcagcagggctcGccctgcagggttttaagaaa	11	9	12	9	1	1	1	1	0	1	1	3	1	1	1	1	2	2	5	1	2	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:119391937G>A	uc003yom.2	-	4	454	c.325C>T	c.(325-327)CGA>TGA	p.R109*	SAMD12_uc010mda.1_Nonsense_Mutation_p.R109*|SAMD12_uc010mdb.1_RNA	NM_207506	NP_997389	Q8N8I0	SAM12_HUMAN	sterile alpha motif domain containing 12 isoform	109	SAM.									ovary(1)	1	all_cancers(13;3.91e-25)|Lung NSC(37;1.13e-07)|Ovarian(258;0.0249)		STAD - Stomach adenocarcinoma(47;0.00391)			AGCAGGGCTCGCCCTGCAGGG	0.473													25	117					0	0	0.004656	0	0		A	119391937	A	A	119391937	4	1	127	1	0	0	0	0	0	1	0	0	13842	1095	38	1	311	1	SAMD12	8	119391937	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1720741	119391937	26972085	566	69646											
ANXA13	312	broad.mit.edu	37	chr8	124714949	124714949	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgtcctgcccgataagAtttcaatgatggctgcttca	9	13	9	10	1	2	3	2	2	0	1	3	4	3	3	2	1	2	2	2	1	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:124714949A>G	uc003yqu.2	-	3	192	c.119T>C	c.(118-120)ATC>ACC	p.I40T	ANXA13_uc003yqt.2_Missense_Mutation_p.I81T	NM_004306	NP_004297	P27216	ANX13_HUMAN	annexin A13 isoform a	40	Annexin 1.				cell differentiation	plasma membrane	calcium ion binding|calcium-dependent phospholipid binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(37;2.06e-11)|Ovarian(258;0.00579)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00288)			GCCCGATAAGATTTCAATGAT	0.453													37	251					0	0	0.00623	0	0		G	124714949	G	G	124714949	3	3	127	1	0	0	0	0	1	0	0	0	717	333	12	3	867	3	ANXA13	8	124714949	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5323012	124714949	21649073	567	69647											
EFR3A	23167	broad.mit.edu	37	chr8	132989340	132989340	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgctgagatctttgcttatgGtaaggcatttaagacaaata	13	14	9	5	0	1	2	0	1	1	2	1	3	1	2	0	2	2	4	0	2	5	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:132989340G>T	uc003yte.2	+	12	1527	c.1326_splice	c.e12+1	p.M442_splice		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A							plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			TTTGCTTATGGTAAGGCATTT	0.294													14	114					9.31168e-06	9.66641e-06	0.001855	1	0		T	132989340	T	T	132989340	5	4	127	1	0	0	0	0	0	0	1	0	4964	1275	44	5	1373	5	EFR3A	8	132989340	Splice_Site	SNP	G	TCGA-CG-4305-01A-01D-1158-08	8274391	132989340	13374682	568	69648											
KCNQ3	3786	broad.mit.edu	37	chr8	133141583	133141583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgacagaggcatggagcCgctgggcgtgaaggggtccg	8	4	20	9	4	0	2	0	1	0	1	1	5	1	4	2	6	1	2	2	6	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:133141583C>T	uc003ytj.2	-	15	2770	c.2545G>A	c.(2545-2547)GGC>AGC	p.G849S	KCNQ3_uc010mdt.2_Missense_Mutation_p.G837S|uc003yti.2_5'Flank	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	849					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			GGCATGGAGCCGCTGGGCGTG	0.582													13	53					0	0	0.001855	0	0		T	133141583	T	T	133141583	3	4	127	1	0	0	0	0	1	0	0	0	8100	652	23	1	77	1	KCNQ3	8	133141583	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	152243	133141583	13222439	569	69649											
TG	7038	broad.mit.edu	37	chr8	133919026	133919026	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacaggctctgccatgcAgcagtgccaattgctgtgcc	7	8	10	16	0	1	0	0	0	1	0	1	0	1	0	5	1	6	4	5	1	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:133919026A>G	uc003ytw.2	+	17	3769	c.3728A>G	c.(3727-3729)CAG>CGG	p.Q1243R	TG_uc010mdw.2_Missense_Mutation_p.Q2R	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1243					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCTGCCATGCAGCAGTGCCAA	0.627													12	76					0	0	0.001855	0	0		G	133919026	G	G	133919026	3	3	127	1	0	0	0	0	1	0	0	0	15838	188	7	3	3794	3	TG	8	133919026	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	777443	133919026	12444996	570	69650											
TG	7038	broad.mit.edu	37	chr8	134144191	134144191	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcccacttcatcagatcaggGtaattttggaccacttgttc	9	14	7	11	0	3	1	3	0	0	1	5	2	4	2	2	2	0	2	2	2	1	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:134144191G>T	uc003ytw.2	+	46	8038	c.7997_splice	c.e46+1	p.G2666_splice	TG_uc010mdw.2_Splice_Site_p.G1425_splice|TG_uc011ljb.1_Splice_Site_p.G1035_splice|TG_uc011ljc.1_Splice_Site_p.G799_splice	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor						hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCAGATCAGGGTAATTTTGGA	0.488													28	159					7.01153e-11	7.61329e-11	0.007291	1	0		T	134144191	T	T	134144191	5	4	127	1	0	0	0	0	0	0	1	0	15838	1275	44	5	8180	5	TG	8	134144191	Splice_Site	SNP	G	TCGA-CG-4305-01A-01D-1158-08	225165	134144191	12219831	571	69651											
WISP1	8840	broad.mit.edu	37	chr8	134232898	134232898	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttccagcctaactgcaagTacaactgcacgtgcatcgac	11	8	7	15	2	0	0	0	0	0	0	2	1	1	0	3	0	7	4	3	0	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:134232898T>C	uc003yub.2	+	3	500	c.424T>C	c.(424-426)TAC>CAC	p.Y142H	WISP1_uc003yuc.2_Intron|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	142	VWFC.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			TAACTGCAAGTACAACTGCAC	0.672													24	119					0	0	0.00632	0	0		C	134232898	C	C	134232898	3	2	127	1	0	0	0	0	1	0	0	0	17398	1638	57	3	434	3	WISP1	8	134232898	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	88707	134232898	12131124	572	69652											
WISP1	8840	broad.mit.edu	37	chr8	134233083	134233083	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccgtgacacaggagccttCggtgggtgtgggcccgagtg	5	7	17	12	3	0	1	0	1	0	0	1	3	0	2	4	4	1	0	4	4	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:134233083C>T	uc003yub.2	+	3	685	c.609C>T	c.(607-609)TTC>TTT	p.F203F	WISP1_uc003yuc.2_Intron|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	203					cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			CAGGAGCCTTCGGTGGGTGTG	0.622													13	77					0	0	0.001855	0	0		T	134233083	T	T	134233083	2	4	127	1	0	0	0	0	0	0	0	1	17398	898	31	1		1	WISP1	8	134233083	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	185	134233083	12130939	573	69653											
FAM135B	51059	broad.mit.edu	37	chr8	139190804	139190804	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtggtgttcctgggtgaGataagtggtcacttgggagt	6	13	18	4	0	1	1	1	1	0	1	2	3	2	2	1	5	0	1	1	5	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:139190804G>T	uc003yuy.2	-	10	1174	c.1003C>A	c.(1003-1005)CTC>ATC	p.L335I	FAM135B_uc003yux.2_Missense_Mutation_p.L236I|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	335										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			TCCTGGGTGAGATAAGTGGTC	0.507										HNSCC(54;0.14)			14	86					1.5842e-08	1.68529e-08	0.001855	1	0		T	139190804	T	T	139190804	3	4	127	1	0	0	0	0	1	0	0	0	5460	942	33	5	3261	5	FAM135B	8	139190804	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	4957721	139190804	7173218	574	69654											
TRAPPC9	83696	broad.mit.edu	37	chr8	141321391	141321391	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcaccggtggcagggtgagGccgccagggagggcgatggg	6	3	23	9	3	0	1	0	1	0	0	0	3	0	2	3	8	0	2	3	8	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:141321391G>A	uc003yvj.2	-	10	1712	c.1578C>T	c.(1576-1578)GGC>GGT	p.G526G	TRAPPC9_uc003yvh.2_Silent_p.G624G|TRAPPC9_uc003yvi.1_Silent_p.G517G	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	526					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						GCAGGGTGAGGCCGCCAGGGA	0.582													21	107					0	0	0.00333	0	0		A	141321391	A	A	141321391	2	1	127	1	0	0	0	0	0	0	0	1	16491	1190	42	2		2	TRAPPC9	8	141321391	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2130587	141321391	5042631	575	69655											
BAI1	575	broad.mit.edu	37	chr8	143602199	143602199	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggtacattcgctcagaGcgttctgtcatcctcatcaa	10	11	7	13	2	5	1	4	0	1	1	7	1	6	1	1	1	2	3	1	1	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:143602199G>A	uc003ywm.2	+	19	3120	c.2937G>A	c.(2935-2937)GAG>GAA	p.E979E		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	979	Cytoplasmic (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					TTCGCTCAGAGCGTTCTGTCA	0.582													13	80					0	0	0.013537	0	0		A	143602199	A	A	143602199	2	1	127	1	0	0	0	0	0	0	0	1	1299	962	34	2		2	BAI1	8	143602199	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2280808	143602199	2761823	576	69656											
LY6D	8581	broad.mit.edu	37	chr8	143867013	143867013	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctacccacctgtgttcGtggtcttgcagaagcgagag	8	10	13	10	2	1	2	0	0	1	2	2	4	1	2	2	1	4	3	2	1	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:143867013G>A	uc003yxf.1	-	2	219	c.143C>T	c.(142-144)ACG>ATG	p.T48M		NM_003695	NP_003686	Q14210	LY6D_HUMAN	lymphocyte antigen 6 complex, locus D precursor	48	UPAR/Ly6.				cell adhesion	anchored to membrane|membrane fraction|plasma membrane	protein binding				0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					ACCTGTGTTCGTGGTCTTGCA	0.642													28	111					0	0	0.007291	0	0		A	143867013	A	A	143867013	3	1	127	1	0	0	0	0	1	0	0	0	9108	1145	40	1	251	1	LY6D	8	143867013	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	264814	143867013	2497009	577	69657											
MAPK15	225689	broad.mit.edu	37	chr8	144803816	144803816	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggccccctggggcgaaGgaagcgccccccttgacact	9	4	13	15	2	0	1	0	1	0	0	0	4	0	2	5	4	1	0	5	4	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:144803816G>T	uc003yzj.2	+	12	1343	c.1302G>T	c.(1300-1302)AAG>AAT	p.K434N		NM_139021	NP_620590	Q8TD08	MK15_HUMAN	mitogen-activated protein kinase 15	434					protein autophosphorylation	extracellular region	ATP binding|MAP kinase activity|SH3 domain binding			lung(2)	2	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CTGGGGCGAAGGAAGCGCCCC	0.637													19	165					1.9806e-07	2.08662e-07	0.014323	1	0		T	144803816	T	T	144803816	3	4	127	1	0	0	0	0	1	0	0	0	9295	991	35	5	1348	5	MAPK15	8	144803816	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	936803	144803816	1560206	578	69658											
FAM83H	286077	broad.mit.edu	37	chr8	144811445	144811445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccgcggcctccagcacttCgctgagcaggtccacatcag	7	6	12	16	3	1	1	1	1	0	0	4	1	3	1	4	3	2	3	4	3	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:144811445C>T	uc003yzk.2	-	3	565	c.496G>A	c.(496-498)GAA>AAA	p.E166K	FAM83H_uc010mfk.1_5'Flank	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	166					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			TCCAGCACTTCGCTGAGCAGG	0.637													8	86					0	0	0.006214	0	0		T	144811445	T	T	144811445	3	4	127	1	0	0	0	0	1	0	0	0	5654	893	31	1	3055	1	FAM83H	8	144811445	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7629	144811445	1552577	579	69659											
NRBP2	340371	broad.mit.edu	37	chr8	144921062	144921062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgggggcagtacctccagcGcacacatcccaaaggagaag	12	3	13	13	2	0	1	0	0	0	1	2	2	2	1	3	3	2	3	3	3	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:144921062G>A	uc011lkt.1	-	9	877	c.737C>T	c.(736-738)GCG>GTG	p.A246V	NRBP2_uc003yzv.2_Missense_Mutation_p.A3V|NRBP2_uc003yzz.1_5'Flank|NRBP2_uc003yzw.2_5'Flank|NRBP2_uc010mfl.2_5'Flank|NRBP2_uc010mfm.2_Missense_Mutation_p.A3V|NRBP2_uc011lks.1_Missense_Mutation_p.A3V|NRBP2_uc003yzy.2_Missense_Mutation_p.A3V	NM_178564	NP_848659	Q9NSY0	NRBP2_HUMAN	nuclear receptor binding protein 2	246	Protein kinase.				negative regulation of neuron apoptosis|neuron differentiation	cytoplasm	ATP binding|protein kinase activity			central_nervous_system(2)	2	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			TACCTCCAGCGCACACATCCC	0.622													5	28					0	0	0.00308	0	0		A	144921062	A	A	144921062	3	1	127	1	0	0	0	0	1	0	0	0	10662	1087	38	1	808	1	NRBP2	8	144921062	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	109617	144921062	1442960	580	69660											
EPPK1	83481	broad.mit.edu	37	chr8	144944907	144944907	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcgctgaagtactcagAgttgatcagctcccacgcgg	8	8	11	14	3	2	3	2	2	0	1	4	3	3	3	2	1	2	4	2	1	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:144944907A>C	uc003zaa.1	-	1	2528	c.2515T>G	c.(2515-2517)TCT>GCT	p.S839A		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	839						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			AAGTACTCAGAGTTGATCAGC	0.652													6	28					0	0	0.001168	0	0		C	144944907	C	C	144944907	3	2	127	1	0	0	0	0	1	0	0	0	5198	304	11	5	4751	5	EPPK1	8	144944907	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	23845	144944907	1419115	581	69661											
PLEC	5339	broad.mit.edu	37	chr8	144993950	144993950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgcagcagcgtccgcaCggagcccagctccgaaaggt	8	4	13	16	4	0	0	0	0	0	0	2	2	2	1	4	2	5	4	4	2	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:144993950C>T	uc003zaf.1	-	32	10620	c.10450G>A	c.(10450-10452)GTG>ATG	p.V3484M	PLEC_uc003zab.1_Missense_Mutation_p.V3347M|PLEC_uc003zac.1_Missense_Mutation_p.V3351M|PLEC_uc003zad.2_Missense_Mutation_p.V3347M|PLEC_uc003zae.1_Missense_Mutation_p.V3315M|PLEC_uc003zag.1_Missense_Mutation_p.V3325M|PLEC_uc003zah.2_Missense_Mutation_p.V3333M|PLEC_uc003zaj.2_Missense_Mutation_p.V3374M	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3484	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						AGCGTCCGCACGGAGCCCAGC	0.657													12	57					0	0	0.00245	0	0		T	144993950	T	T	144993950	3	4	127	1	0	0	0	0	1	0	0	0	12071	536	19	1	3608	1	PLEC	8	144993950	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	49043	144993950	1370072	582	69662											
HEATR7A	727957	broad.mit.edu	37	chr8	145278100	145278100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggcgatgatcgagtacatCgtgcagcagtgcgcgctgcc	8	7	15	11	5	0	1	0	1	0	0	2	4	0	1	1	1	5	4	1	1	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:145278100C>T	uc003zbk.3	+	14	1542	c.1305C>T	c.(1303-1305)ATC>ATT	p.I435I	HEATR7A_uc011lla.1_Silent_p.I435I|HEATR7A_uc010mft.2_Silent_p.I435I	NM_032450	NP_115826	Q8NDA8	HTR7A_HUMAN	HEAT repeat containing 7A isoform 1	435							binding				0						TCGAGTACATCGTGCAGCAGT	0.662													5	22					0	0	0.001984	0	0		T	145278100	T	T	145278100	2	4	127	1	0	0	0	0	0	0	0	1	7050	874	31	1		1	HEATR7A	8	145278100	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	284150	145278100	1085922	583	69663											
NFKBIL2	4796	broad.mit.edu	37	chr8	145667679	145667679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accgcttcctcatggtgtgcGcacactcccgggcaccctcc	5	8	9	19	3	1	0	1	0	0	0	4	0	4	0	5	2	1	3	5	2	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:145667679G>A	uc011llg.1	-	6	710	c.695C>T	c.(694-696)GCG>GTG	p.A232V		NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	232	TPR 5.				cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CATGGTGTGCGCACACTCCCG	0.647													13	70					0	0	0.004007	0	0		A	145667679	A	A	145667679	3	1	127	1	0	0	0	0	1	0	0	0	10401	1087	38	1	3525	1	NFKBIL2	8	145667679	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	389579	145667679	696343	584	69664											
PPP1R16A	84988	broad.mit.edu	37	chr8	145725483	145725483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtcttccctgcagtggcGccaatctcctggcggtcaac	5	10	10	16	3	3	0	1	0	2	0	6	0	5	0	4	3	2	1	4	3	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:145725483G>A	uc003zdd.2	+	5	1394	c.481G>A	c.(481-483)GCC>ACC	p.A161T	uc003zde.1_5'Flank|PPP1R16A_uc003zdf.2_Missense_Mutation_p.A161T|GPT_uc011lli.1_5'Flank	NM_032902	NP_116291	Q96I34	PP16A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	161	ANK 3.					plasma membrane	protein binding				0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CTGCAGTGGCGCCAATCTCCT	0.657													4	15					0	0	0.000602	0	0		A	145725483	A	A	145725483	3	1	127	1	0	0	0	0	1	0	0	0	12387	1087	38	1	495	1	PPP1R16A	8	145725483	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	57804	145725483	638539	585	69665											
ARHGAP39	80728	broad.mit.edu	37	chr8	145830920	145830920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcggtcggctccttacCgagtgttcgaccctggaatc	6	10	12	13	4	0	0	0	0	0	0	5	3	1	1	3	4	1	2	3	4	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:145830920C>T	uc003zdt.1	-	3	635	c.80G>A	c.(79-81)CGG>CAG	p.R27Q	ARHGAP39_uc011llk.1_Missense_Mutation_p.R27Q|ARHGAP39_uc003zds.1_Missense_Mutation_p.R27Q	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	27	WW 1.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						GGCTCCTTACCGAGTGTTCGA	0.602													15	66					0	0	0.00245	0	0		T	145830920	T	T	145830920	3	4	127	1	0	0	0	0	1	0	0	0	884	666	23	1	3308	1	ARHGAP39	8	145830920	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	105437	145830920	533102	586	69666											
ZNF7	7553	broad.mit.edu	37	chr8	146067087	146067087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagggatgtcccagagatgcGaggagtgtggcaaaggcatc	12	6	16	7	1	0	1	0	0	0	1	2	5	1	3	1	4	1	2	1	4	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:146067087G>A	uc003zeg.3	+	5	732	c.595G>A	c.(595-597)GAG>AAG	p.E199K	ZNF7_uc010mge.2_Missense_Mutation_p.E210K|ZNF7_uc011lln.1_Missense_Mutation_p.E103K|ZNF7_uc003zeh.2_Intron|ZNF7_uc003zek.3_Missense_Mutation_p.E103K|COMMD5_uc003zel.1_RNA	NM_003416	NP_003407	P17097	ZNF7_HUMAN	zinc finger protein 7	199					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.0812)|Ovarian(118;0.0822)|Acute lymphoblastic leukemia(644;0.143)	Epithelial(56;8.75e-39)|OV - Ovarian serous cystadenocarcinoma(54;1.13e-38)|all cancers(56;8.48e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;2.11e-07)		CCAGAGATGCGAGGAGTGTGG	0.502													28	138					0	0	0.007291	0	0		A	146067087	A	A	146067087	3	1	127	1	0	0	0	0	1	0	0	0	18127	1059	37	1	609	1	ZNF7	8	146067087	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	236167	146067087	296935	587	69667											
C8orf33	65265	broad.mit.edu	37	chr8	146278736	146278736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcagcaaaagaacgcccttgCcccggaagaggcagctgatg	12	4	13	12	2	0	3	0	1	0	2	0	4	0	4	3	2	4	4	3	2	4	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr8:146278736C>T	uc003zfc.3	+	4	511	c.457C>T	c.(457-459)CCC>TCC	p.P153S	C8orf33_uc003zfd.2_RNA	NM_023080	NP_075568	Q9H7E9	CH033_HUMAN	hypothetical protein LOC65265	153											0	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;9.1e-38)|all cancers(56;7.37e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.243)		AACGCCCTTGCCCCGGAAGAG	0.537													22	144					0	0	0.014323	0	0		T	146278736	T	T	146278736	3	4	127	1	0	0	0	0	1	0	0	0	2424	739	26	2	471	2	C8orf33	8	146278736	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	211649	146278736	85286	588	69668											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													7	89					0	0	0.007413	0	0		G	164038	G	G	164038	5	3	127	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-CG-4305-01A-01D-1158-08		164038	141049393	589	69669											
RFX3	5991	broad.mit.edu	37	chr9	3257056	3257056	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaactgggtcttccttcataGggtttcagtgcttgcatcat	8	15	9	9	0	4	0	3	0	1	0	5	0	5	0	1	2	3	3	1	2	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:3257056G>T	uc003zhr.2	-	15	2061	c.1749C>A	c.(1747-1749)CCC>CCA	p.P583P	RFX3_uc010mhd.2_Silent_p.P583P|RFX3_uc003zhs.1_Silent_p.P583P	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	583					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		TTCCTTCATAGGGTTTCAGTG	0.468													30	180					1.62565e-12	1.78985e-12	0.012213	1	0		T	3257056	T	T	3257056	2	4	127	1	0	0	0	0	0	0	0	1	13289	987	35	5		5	RFX3	9	3257056	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3093018	3257056	137956375	590	69670											
GLIS3	169792	broad.mit.edu	37	chr9	3828391	3828391	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaaagaggctcgaggaacTtgaaggtaaatcatacactg	15	7	10	9	1	1	2	1	1	0	1	2	4	1	3	1	3	2	2	1	3	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:3828391T>C	uc003zhw.1	-	10	2403	c.2209A>G	c.(2209-2211)AGT>GGT	p.S737G	GLIS3_uc003zhx.1_Missense_Mutation_p.S892G|GLIS3_uc010mhf.1_Missense_Mutation_p.S286G|GLIS3_uc003zhv.1_RNA	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	737					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		CTCGAGGAACTTGAAGGTAAA	0.537													8	29					0	0	0.004482	0	0		C	3828391	C	C	3828391	3	2	127	1	0	0	0	0	1	0	0	0	6462	1609	56	3	122	3	GLIS3	9	3828391	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	571335	3828391	137385040	591	69671											
JAK2	3717	broad.mit.edu	37	chr9	5022214	5022214	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgctgcttctaaagcttgtgGtaagtattaaaaaacagcat	14	13	8	6	0	1	0	0	0	1	0	1	0	1	0	0	1	5	6	0	1	7	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:5022214G>A	uc010mhm.2	+	2	339	c.226_splice	c.e2+1	p.G76_splice	JAK2_uc003ziw.2_Splice_Site_p.G76_splice	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2						actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		AAAGCTTGTGGTAAGTATTAA	0.323		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				15	78					0	0	0.00245	0	0		A	5022214	A	A	5022214	5	1	127	1	0	0	0	0	0	0	1	0	7954	1275	44	4	229	4	JAK2	9	5022214	Splice_Site	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1193823	5022214	136191217	592	69672											
FREM1	158326	broad.mit.edu	37	chr9	14851500	14851500	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtagtcaaggaggtcaGgatgaactgatccacttcca	12	10	11	8	0	2	3	2	3	0	0	4	5	4	5	2	3	1	1	2	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:14851500G>T	uc003zlm.2	-	6	1524	c.934C>A	c.(934-936)CTG>ATG	p.L312M	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	312	CSPG 1.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		AAGGAGGTCAGGATGAACTGA	0.488													25	100					1.10923e-09	1.18984e-09	0.00278	1	0		T	14851500	T	T	14851500	3	4	127	1	0	0	0	0	1	0	0	0	6058	991	35	5	5783	5	FREM1	9	14851500	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	9829286	14851500	126361931	593	69673											
KIAA1797	54914	broad.mit.edu	37	chr9	20789392	20789392	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtaaccagtatgtatggtAcaatatttacagcctggagg	12	12	10	7	0	0	0	0	0	0	0	0	1	0	1	2	3	4	4	2	3	7	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:20789392A>G	uc003zog.1	+	13	1603	c.1240A>G	c.(1240-1242)ACA>GCA	p.T414A		NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	414	Helical; (Potential).					integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		TATGTATGGTACAATATTTAC	0.393													37	133					0	0	0.007835	0	0		G	20789392	G	G	20789392	3	3	127	1	0	0	0	0	1	0	0	0	8274	391	14	3	1278	3	KIAA1797	9	20789392	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5937892	20789392	120424039	594	69674											
C9orf82	79886	broad.mit.edu	37	chr9	26842611	26842611	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgtcataagcatctgcAtttatactgagtacatcact	11	14	6	10	1	3	1	2	1	1	0	4	1	3	1	0	0	4	4	0	0	4	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:26842611A>G	uc003zqc.2	-	6	786	c.774T>C	c.(772-774)AAT>AAC	p.N258N	C9orf82_uc003zqb.2_Silent_p.N113N	NM_024828	NP_079104	Q9H8G2	CI082_HUMAN	hypothetical protein LOC79886	258											0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(42;1.39e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)		AAGCATCTGCATTTATACTGA	0.433													68	212					0	0	0.01441	0	0		G	26842611	G	G	26842611	2	3	127	1	0	0	0	0	0	0	0	1	2502	214	8	3		3	C9orf82	9	26842611	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	6053219	26842611	114370820	595	69675											
ACO1	48	broad.mit.edu	37	chr9	32418455	32418455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attattacccagacagcctcGtgggcacagactcgcacact	11	8	8	14	2	0	2	0	0	0	2	2	2	0	2	2	1	2	2	2	1	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:32418455G>A	uc003zqw.3	+	6	759	c.604G>A	c.(604-606)GTG>ATG	p.V202M	ACO1_uc010mjh.1_Missense_Mutation_p.V36M|ACO1_uc003zqx.3_Missense_Mutation_p.V202M|ACO1_uc003zqy.3_RNA	NM_002197	NP_002188	P21399	ACOC_HUMAN	aconitase 1	202					citrate metabolic process|response to iron(II) ion|tricarboxylic acid cycle	cytosol|endoplasmic reticulum|Golgi apparatus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron-responsive element binding|isocitrate hydro-lyase (cis-aconitate-forming) activity|metal ion binding|protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;3.94e-06)		AGACAGCCTCGTGGGCACAGA	0.458													60	223					0	0	0.01441	0	0		A	32418455	A	A	32418455	3	1	127	1	0	0	0	0	1	0	0	0	146	1145	40	1	622	1	ACO1	9	32418455	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5575844	32418455	108794976	596	69676											
ACO1	48	broad.mit.edu	37	chr9	32436322	32436322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catggcacggggaacatttgCcaacattcgcttgttaaaca	12	10	9	10	2	0	0	0	0	0	0	1	1	0	1	1	3	4	3	1	3	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:32436322C>T	uc003zqw.3	+	18	2329	c.2174C>T	c.(2173-2175)GCC>GTC	p.A725V	ACO1_uc010mjh.1_3'UTR|ACO1_uc003zqx.3_Missense_Mutation_p.A725V|ACO1_uc003zqy.3_RNA	NM_002197	NP_002188	P21399	ACOC_HUMAN	aconitase 1	725					citrate metabolic process|response to iron(II) ion|tricarboxylic acid cycle	cytosol|endoplasmic reticulum|Golgi apparatus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron-responsive element binding|isocitrate hydro-lyase (cis-aconitate-forming) activity|metal ion binding|protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;3.94e-06)		GGAACATTTGCCAACATTCGC	0.493													31	140					0	0	0.008361	0	0		T	32436322	T	T	32436322	3	4	127	1	0	0	0	0	1	0	0	0	146	739	26	2	2240	2	ACO1	9	32436322	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	17867	32436322	108777109	597	69677											
TAF1L	138474	broad.mit.edu	37	chr9	32631546	32631546	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctcaattagctgtttcccGaagacaattttggtcccttc	8	16	6	11	1	1	1	1	0	1	1	5	2	3	1	2	1	1	2	2	1	4	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:32631546G>A	uc003zrg.1	-	1	4122	c.4032C>T	c.(4030-4032)TTC>TTT	p.F1344F	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1344					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		GCTGTTTCCCGAAGACAATTT	0.428													70	347					0	0	0.01441	0	0		A	32631546	A	A	32631546	2	1	127	1	0	0	0	0	0	0	0	1	15548	1049	37	1		1	TAF1L	9	32631546	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	195224	32631546	108581885	598	69678											
TAF1L	138474	broad.mit.edu	37	chr9	32632408	32632408	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgggcccctctccagaaTgagcctgttctgttgacatt	7	13	9	12	0	3	3	1	2	2	1	4	3	3	3	4	1	1	2	4	1	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:32632408T>C	uc003zrg.1	-	1	3260	c.3170A>G	c.(3169-3171)CAT>CGT	p.H1057R	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1057					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CTCTCCAGAATGAGCCTGTTC	0.468													41	222					0	0	0.01441	0	0		C	32632408	C	C	32632408	3	2	127	1	0	0	0	0	1	0	0	0	15548	1464	51	3	2314	3	TAF1L	9	32632408	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	862	32632408	108581023	599	69679											
RECK	8434	broad.mit.edu	37	chr9	36118810	36118810	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggtgagacctacagcagTgtgtgtgctgcctactcgga	9	10	13	9	1	0	1	0	1	0	1	1	3	0	2	2	2	5	2	2	2	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:36118810T>G	uc003zyv.2	+	18	2396	c.2310T>G	c.(2308-2310)AGT>AGG	p.S770R	RECK_uc003zyw.2_Missense_Mutation_p.S642R|RECK_uc003zyx.2_RNA	NM_021111	NP_066934	O95980	RECK_HUMAN	RECK protein precursor	770	Kazal-like 3.					anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)			CCTACAGCAGTGTGTGTGCTG	0.557													11	52					0	0	0.013537	0	0		G	36118810	G	G	36118810	3	3	127	1	0	0	0	0	1	0	0	0	13225	1693	59	5	2380	5	RECK	9	36118810	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	3486402	36118810	105094621	600	69680											
MELK	9833	broad.mit.edu	37	chr9	36589613	36589613	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatgtcaactctaccatgtGctagagacagccaacaaaat	16	9	6	10	0	2	1	1	0	1	1	2	2	2	1	2	0	5	1	2	0	7	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:36589613G>A	uc003zzn.2	+	4	363	c.225G>A	c.(223-225)GTG>GTA	p.V75V	MELK_uc011lpm.1_5'UTR|MELK_uc011lpn.1_Silent_p.V75V|MELK_uc011lpo.1_5'UTR|MELK_uc010mll.2_Silent_p.V43V|MELK_uc011lpp.1_Silent_p.V75V|MELK_uc010mlm.2_Intron|MELK_uc011lpq.1_5'UTR|MELK_uc011lpr.1_Silent_p.V75V|MELK_uc011lps.1_Silent_p.V43V	NM_014791	NP_055606	Q14680	MELK_HUMAN	maternal embryonic leucine zipper kinase	75	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		Acute lymphoblastic leukemia(2;1.09e-08)|all_hematologic(2;8.15e-06)	STAD - Stomach adenocarcinoma(86;0.228)			TCTACCATGTGCTAGAGACAG	0.383													27	127					0	0	0.005443	0	0		A	36589613	A	A	36589613	2	1	127	1	0	0	0	0	0	0	0	1	9488	1306	46	2		2	MELK	9	36589613	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	470803	36589613	104623818	601	69681											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													9	99					0	0	0.004482	0	0		G	70993145	G	G	70993145	3	3	127	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	34403532	70993145	70220286	602	69682											
ANXA1	301	broad.mit.edu	37	chr9	75784009	75784009	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccgttctgaaattgacaTgaatgatatcaaagcattct	13	14	6	8	1	3	4	1	4	2	0	4	4	4	4	1	0	1	2	1	0	4	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:75784009T>C	uc004ajf.1	+	12	997	c.923T>C	c.(922-924)ATG>ACG	p.M308T	ANXA1_uc004aje.1_Missense_Mutation_p.M308T|ANXA1_uc004ajg.1_Missense_Mutation_p.M308T	NM_000700	NP_000691	P04083	ANXA1_HUMAN	annexin I	308	Annexin 4.				alpha-beta T cell differentiation|anti-apoptosis|cell surface receptor linked signaling pathway|cellular component movement|inflammatory response|keratinocyte differentiation|lipid metabolic process|peptide cross-linking|positive regulation of vesicle fusion	basolateral plasma membrane|cilium|cornified envelope|cytoplasm|extracellular region|nucleus	calcium ion binding|calcium-dependent phospholipid binding|phospholipase A2 inhibitor activity|protein binding, bridging|receptor binding|structural molecule activity			breast(1)|central_nervous_system(1)	2		all_epithelial(88;2.54e-11)		OV - Ovarian serous cystadenocarcinoma(323;2.82e-06)|GBM - Glioblastoma multiforme(74;0.0325)	Alclometasone(DB00240)|Amcinonide(DB00288)|Beclomethasone(DB00394)|Betamethasone(DB00443)|Clobetasol(DB01013)|Clocortolone(DB00838)|Desonide(DB01260)|Desoximetasone(DB00547)|Dexamethasone(DB01234)|Diflorasone(DB00223)|Flumethasone Pivalate(DB00663)|Halobetasol Propionate(DB00596)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol Etabonate(DB00873)|Methylprednisolone(DB00959)|Mometasone(DB00764)|Prednicarbate(DB01130)|Prednisone(DB00635)|Rimexolone(DB00896)|Triamcinolone(DB00620)	GAAATTGACATGAATGATATC	0.403													73	225					0	0	0.01441	0	0		C	75784009	C	C	75784009	3	2	127	1	0	0	0	0	1	0	0	0	714	1464	51	3	965	3	ANXA1	9	75784009	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	4790864	75784009	65429422	603	69683											
TRPM6	140803	broad.mit.edu	37	chr9	77457094	77457094	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagcaaaccttggcatgatgGgtgtgctctccatcttggaa	9	12	11	9	0	2	1	0	1	2	0	3	2	2	2	2	3	3	3	2	3	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:77457094G>T	uc004ajl.1	-	4	556	c.318C>A	c.(316-318)ACC>ACA	p.T106T	TRPM6_uc004ajk.1_Silent_p.T101T|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Silent_p.T106T|TRPM6_uc010mpd.1_Silent_p.T106T|TRPM6_uc010mpe.1_Silent_p.T106T|TRPM6_uc004ajn.1_Silent_p.T106T	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	106	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						TGGCATGATGGGTGTGCTCTC	0.299													27	122					7.38237e-10	7.94291e-10	0.00632	1	0		T	77457094	T	T	77457094	2	4	127	1	0	0	0	0	0	0	0	1	16616	1219	43	5		5	TRPM6	9	77457094	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1673085	77457094	63756337	604	69684											
PRUNE2	158471	broad.mit.edu	37	chr9	79324209	79324209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttttgactcaaaacctTcctctttagcaaatggcttg	10	15	5	11	0	3	1	1	1	2	0	4	1	4	1	2	1	2	2	2	1	4	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:79324209T>C	uc010mpk.2	-	8	3105	c.2981A>G	c.(2980-2982)GAA>GGA	p.E994G		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	994					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CTCAAAACCTTCCTCTTTAGC	0.448													19	75					0	0	0.012319	0	0		C	79324209	C	C	79324209	3	2	127	1	0	0	0	0	1	0	0	0	12663	1783	62	3	6333	3	PRUNE2	9	79324209	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1867115	79324209	61889222	605	69685											
PRUNE2	158471	broad.mit.edu	37	chr9	79325181	79325181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgttcactggaactccacGcatctgcaatatttttggag	9	13	8	11	1	2	0	1	0	1	0	3	2	3	2	2	2	2	3	2	2	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:79325181G>A	uc010mpk.2	-	8	2133	c.2009C>T	c.(2008-2010)GCG>GTG	p.A670V		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	670					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						GGAACTCCACGCATCTGCAAT	0.488													14	54					0	0	0.00245	0	0		A	79325181	A	A	79325181	3	1	127	1	0	0	0	0	1	0	0	0	12663	1087	38	1	7305	1	PRUNE2	9	79325181	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	972	79325181	61888250	606	69686											
SEMA4D	10507	broad.mit.edu	37	chr9	92006308	92006308	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggctttttcggatcacGtcagcaaacacgaaactagg	11	10	10	10	3	3	0	2	0	1	0	4	2	3	1	0	3	3	2	0	3	3	3	rs62638727	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:92006308G>A	uc004aqo.1	-	11	1217	c.645C>T	c.(643-645)GAC>GAT	p.D215D	SEMA4D_uc011ltm.1_Silent_p.D215D|SEMA4D_uc011ltn.1_RNA|SEMA4D_uc011lto.1_RNA|SEMA4D_uc004aqp.1_Silent_p.D213D	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	215	Sema.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						TTCGGATCACGTCAGCAAACA	0.567													15	76					0	0	0.004007	0	0		A	92006308	A	A	92006308	2	1	127	1	0	0	0	0	0	0	0	1	14059	1136	40	1		1	SEMA4D	9	92006308	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	12681127	92006308	49207123	607	69687											
NFIL3	4783	broad.mit.edu	37	chr9	94171822	94171822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccactcagttctttttgatGccagtgctccgatttgagag	7	14	10	10	1	2	2	1	2	1	1	3	4	3	2	3	0	2	2	3	0	0	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:94171822G>A	uc004arh.2	-	2	1590	c.1195C>T	c.(1195-1197)CAT>TAT	p.H399Y		NM_005384	NP_005375	Q16649	NFIL3_HUMAN	nuclear factor, interleukin 3 regulated	399					circadian rhythm|immune response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						TCTTTTTGATGCCAGTGCTCC	0.408													53	215					0	0	0.01441	0	0		A	94171822	A	A	94171822	3	1	127	1	0	0	0	0	1	0	0	0	10392	1319	46	2	197	2	NFIL3	9	94171822	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2165514	94171822	47041609	608	69688											
ROR2	4920	broad.mit.edu	37	chr9	94486449	94486449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcacattgctcactgggCtggtgctcagggagctggtc	5	11	14	11	0	3	0	3	0	0	0	4	1	3	1	0	4	4	5	0	4	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:94486449C>T	uc004arj.1	-	9	2526	c.2327G>A	c.(2326-2328)AGC>AAC	p.S776N	ROR2_uc004ari.1_Missense_Mutation_p.S636N	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	776	Ser/Thr-rich.|Cytoplasmic (Potential).				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						GCTCACTGGGCTGGTGCTCAG	0.652													18	82					0	0	0.012319	0	0		T	94486449	T	T	94486449	3	4	127	1	0	0	0	0	1	0	0	0	13552	797	28	2	508	2	ROR2	9	94486449	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	314627	94486449	46726982	609	69689											
FAM120A	23196	broad.mit.edu	37	chr9	96320140	96320140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaaggtagagaagatgcGccagagcgtcctcgaggggc	10	5	16	10	3	0	3	0	0	0	3	2	5	1	3	3	3	3	1	3	3	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:96320140G>A	uc004atw.2	+	14	2541	c.2516G>A	c.(2515-2517)CGC>CAC	p.R839H	FAM120A_uc004aty.2_Missense_Mutation_p.R620H|FAM120A_uc004atz.2_Missense_Mutation_p.R488H|FAM120A_uc010mrg.2_Missense_Mutation_p.R152H	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	839	RNA binding.					cytoplasm|plasma membrane	RNA binding				0						GAGAAGATGCGCCAGAGCGTC	0.577													6	37					0	0	0.001168	0	0		A	96320140	A	A	96320140	3	1	127	1	0	0	0	0	1	0	0	0	5426	1087	38	1	2570	1	FAM120A	9	96320140	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1833691	96320140	44893291	610	69690											
SEC61B	10952	broad.mit.edu	37	chr9	101990194	101990194	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcaggaaaaatgccagcTgtgggacaaggagtgcaggc	12	7	14	8	0	1	0	1	0	0	0	1	3	1	3	1	4	3	2	1	4	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:101990194T>C	uc004azh.2	+	3	191	c.115T>C	c.(115-117)TGT>CGT	p.C39R		NM_006808	NP_006799	P60468	SC61B_HUMAN	Sec61 beta subunit	39	Cytoplasmic (Potential).			C->S: Abolishes S-acylation.	ER-associated protein catabolic process|protein import into nucleus, translocation|retrograde protein transport, ER to cytosol|transmembrane transport	endoplasmic reticulum Sec complex|integral to membrane	epidermal growth factor binding				0		Acute lymphoblastic leukemia(62;0.0559)				AAATGCCAGCTGTGGGACAAG	0.448													12	43					0	0	0.001855	0	0		C	101990194	C	C	101990194	3	2	127	1	0	0	0	0	1	0	0	0	14027	1580	55	3	125	3	SEC61B	9	101990194	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	5670054	101990194	39223237	611	69691											
OR13C3	138803	broad.mit.edu	37	chr9	107298417	107298417	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgatatcaccatggtgatAatattgagggatatatcagc	13	14	9	5	0	2	3	2	3	0	0	2	4	2	4	1	2	1	0	1	2	5	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:107298417A>G	uc004bcb.1	-	1	678	c.678T>C	c.(676-678)ATT>ATC	p.I226I		NM_001001961	NP_001001961	Q8NGS6	O13C3_HUMAN	olfactory receptor, family 13, subfamily C,	226	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1						CCATGGTGATAATATTGAGGG	0.388													30	142					0	0	0.010818	0	0		G	107298417	G	G	107298417	2	3	127	1	0	0	0	0	0	0	0	1	10954	358	13	3		3	OR13C3	9	107298417	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5308223	107298417	33915014	612	69692											
TXNDC8	255220	broad.mit.edu	37	chr9	113091532	113091532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagaattgttcacatccaCattagcaaaaaatacatttt	16	12	5	8	1	1	1	1	0	0	1	2	2	2	1	1	1	2	2	1	1	6	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:113091532C>T	uc004bes.2	-	3	218	c.169G>A	c.(169-171)GTG>ATG	p.V57M	TXNDC8_uc011lwl.1_Intron	NM_001003936	NP_001003936	Q6A555	TXND8_HUMAN	thioredoxin domain containing 8	57	Thioredoxin.				cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	Golgi apparatus	electron carrier activity|protein disulfide oxidoreductase activity				0						TTCACATCCACATTAGCAAAA	0.299													9	62					0	0	0.008291	0	0		T	113091532	T	T	113091532	3	4	127	1	0	0	0	0	1	0	0	0	16827	478	17	4	194	4	TXNDC8	9	113091532	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	5793115	113091532	28121899	613	69693											
ZNF483	158399	broad.mit.edu	37	chr9	114305051	114305051	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatatttgtgtaatgattgCggaatgacttttagccattt	10	17	8	6	1	0	2	0	2	0	0	0	3	0	3	2	1	2	1	2	1	4	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:114305051C>T	uc004bff.2	+	6	2060	c.1836C>T	c.(1834-1836)TGC>TGT	p.C612C	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	612	C2H2-type 7.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						GTAATGATTGCGGAATGACTT	0.393													19	72					0	0	0.007413	0	0		T	114305051	T	T	114305051	2	4	127	1	0	0	0	0	0	0	0	1	17961	776	27	1		1	ZNF483	9	114305051	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1213519	114305051	26908380	614	69694											
SLC31A2	1318	broad.mit.edu	37	chr9	115925105	115925105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctacttcatcatgctggccGtaatgtcctacaacacctgg	9	11	8	13	1	2	0	2	0	0	0	3	0	3	0	3	2	4	3	3	2	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:115925105G>A	uc004bgq.2	+	4	457	c.340G>A	c.(340-342)GTA>ATA	p.V114I		NM_001860	NP_001851	O15432	COPT2_HUMAN	solute carrier family 31 (copper transporters),	114	Helical; (Potential).					integral to plasma membrane	copper ion transmembrane transporter activity				0						CATGCTGGCCGTAATGTCCTA	0.488													47	235					0	0	0.01441	0	0		A	115925105	A	A	115925105	3	1	127	1	0	0	0	0	1	0	0	0	14589	1145	40	1	354	1	SLC31A2	9	115925105	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1620054	115925105	25288326	615	69695											
TRAF1	7185	broad.mit.edu	37	chr9	123675628	123675628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgctccaagctcaggatgCgctcacggtccagctggctc	6	9	11	15	2	3	0	2	0	1	0	6	1	5	1	2	3	4	5	2	3	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:123675628C>T	uc004bku.1	-	5	1255	c.683G>A	c.(682-684)CGC>CAC	p.R228H	TRAF1_uc011lyg.1_Missense_Mutation_p.R106H|TRAF1_uc010mvl.1_Missense_Mutation_p.R228H	NM_005658	NP_005649	Q13077	TRAF1_HUMAN	TNF receptor-associated factor 1	228					apoptosis|positive regulation of NF-kappaB transcription factor activity|protein complex assembly|regulation of apoptosis|signal transduction	cytoplasm	protein binding|zinc ion binding			skin(2)|ovary(1)	3						GCTCAGGATGCGCTCACGGTC	0.617													11	39					0	0	0.010729	0	0		T	123675628	T	T	123675628	3	4	127	1	0	0	0	0	1	0	0	0	16463	768	27	1	583	1	TRAF1	9	123675628	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7750523	123675628	17537803	616	69696											
TTLL11	158135	broad.mit.edu	37	chr9	124752027	124752027	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgggcttccaggaggggTcatcgtctttcaccatttga	8	12	12	9	1	3	1	2	1	1	0	5	2	4	2	2	4	0	1	2	4	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:124752027T>G	uc004blt.1	-	4	1174	c.986A>C	c.(985-987)GAC>GCC	p.D329A	TTLL11_uc011lyl.1_Missense_Mutation_p.D329A|TTLL11_uc004blr.2_RNA|TTLL11_uc011lym.1_Missense_Mutation_p.D6A|TTLL11_uc004blu.1_Nonstop_Mutation_p.*284C	NM_194252	NP_919228	Q8NHH1	TTL11_HUMAN	tubulin tyrosine ligase-like family, member 11	329	TTL.				protein modification process	cilium|microtubule basal body	tubulin-tyrosine ligase activity				0						CCAGGAGGGGTCATCGTCTTT	0.358													37	191					0	0	0.00623	0	0		G	124752027	G	G	124752027	3	3	127	1	0	0	0	0	1	0	0	0	16750	1667	58	5	1518	5	TTLL11	9	124752027	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1076399	124752027	16461404	617	69697											
OR1N1	138883	broad.mit.edu	37	chr9	125288709	125288709	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtccttgttccttaggctAtagataaaggggttcaacat	11	14	9	7	0	1	1	1	0	0	1	3	1	3	1	2	3	1	3	2	3	6	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:125288709A>G	uc004bmn.1	-	1	864	c.864T>C	c.(862-864)TAT>TAC	p.Y288Y		NM_012363	NP_036495	Q8NGS0	OR1N1_HUMAN	olfactory receptor, family 1, subfamily N,	288	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)|breast(1)|skin(1)	3						TCCTTAGGCTATAGATAAAGG	0.438													18	48					0	0	0.00499	0	0		G	125288709	G	G	125288709	2	3	127	1	0	0	0	0	0	0	0	1	10988	456	16	3		3	OR1N1	9	125288709	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	536682	125288709	15924722	618	69698											
STRBP	55342	broad.mit.edu	37	chr9	125932264	125932264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgggctcttttgtattcCgaattataatagatgcctca	9	15	9	8	2	2	1	1	0	1	1	3	2	3	1	2	1	1	2	2	1	5	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:125932264C>T	uc004bns.2	-	6	882	c.452G>A	c.(451-453)CGG>CAG	p.R151Q	STRBP_uc004bnt.2_5'UTR|STRBP_uc004bnu.2_Missense_Mutation_p.R137Q|STRBP_uc004bnv.2_Missense_Mutation_p.R151Q	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	151	DZF.				multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2						TTTTGTATTCCGAATTATAAT	0.348													11	45					0	0	0.010729	0	0		T	125932264	T	T	125932264	3	4	127	1	0	0	0	0	1	0	0	0	15352	652	23	1	1622	1	STRBP	9	125932264	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	643555	125932264	15281167	619	69699											
PBX3	5090	broad.mit.edu	37	chr9	128692121	128692121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagatcaaggttccttgatgCcaggtatgtgaagccataaa	14	10	10	7	0	1	3	1	2	0	1	2	3	2	3	3	2	2	2	3	2	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:128692121C>T	uc004bqb.2	+	4	820	c.704C>T	c.(703-705)GCC>GTC	p.A235V	PBX3_uc004bqc.2_Missense_Mutation_p.A54V|PBX3_uc004bqd.2_Missense_Mutation_p.A54V|PBX3_uc011lzw.1_Missense_Mutation_p.A160V|PBX3_uc011lzx.1_Missense_Mutation_p.A146V|PBX3_uc004bqe.2_Missense_Mutation_p.A122V	NM_006195	NP_006186	P40426	PBX3_HUMAN	pre-B-cell leukemia homeobox 3 isoform 1	235	Homeobox; TALE-type.				anterior compartment pattern formation|posterior compartment specification		sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						TTCCTTGATGCCAGGTATGTG	0.398													31	134					0	0	0.008361	0	0		T	128692121	T	T	128692121	3	4	127	1	0	0	0	0	1	0	0	0	11513	739	26	2	718	2	PBX3	9	128692121	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2759857	128692121	12521310	620	69700											
TOR2A	27433	broad.mit.edu	37	chr9	130496638	130496638	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggagaaaagtggtgcacGcgggggctgcggaggccgcc	8	3	20	10	5	0	1	0	0	0	1	0	3	0	2	2	6	2	2	2	6	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:130496638G>A	uc004brs.3	-	2	412	c.357C>T	c.(355-357)CGC>CGT	p.R119R	TOR2A_uc004brt.3_Silent_p.R119R|TOR2A_uc004brw.3_Silent_p.R119R|TOR2A_uc011maj.1_Intron|TOR2A_uc004bru.3_Intron|TOR2A_uc004brv.3_Intron|TOR2A_uc004brx.1_5'UTR	NM_001085347	NP_001078816	Q5JU69	TOR2A_HUMAN	torsin family 2, member A isoform a	119					chaperone mediated protein folding requiring cofactor	endoplasmic reticulum|extracellular region	ATP binding|nucleoside-triphosphatase activity				0						AGTGGTGCACGCGGGGGCTGC	0.652											OREG0019509	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	36					0	0	0.001168	0	0		A	130496638	A	A	130496638	2	1	127	1	0	0	0	0	0	0	0	1	16401	1074	38	1		1	TOR2A	9	130496638	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1804517	130496638	10716793	621	69701											
GOLGA2	2801	broad.mit.edu	37	chr9	131019737	131019737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgggcagctgccaggaatCtgccatgccactcgttgcgg	6	9	13	13	2	2	0	0	0	2	0	3	1	2	1	3	3	5	3	3	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:131019737C>T	uc011maw.1	-	25	2718	c.2705G>A	c.(2704-2706)AGA>AAA	p.R902K	GOLGA2_uc010mxw.2_Missense_Mutation_p.R225K|GOLGA2_uc004buh.2_Intron	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	902						Golgi cisterna membrane	protein binding			ovary(1)	1						TGCCAGGAATCTGCCATGCCA	0.642													12	38					0	0	0.00245	0	0		T	131019737	T	T	131019737	3	4	127	1	0	0	0	0	1	0	0	0	6567	913	32	4	311	4	GOLGA2	9	131019737	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	523099	131019737	10193694	622	69702											
GOLGA2	2801	broad.mit.edu	37	chr9	131020100	131020100	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctctccagaaagctggatGcagcgatgttccagttcctc	8	11	10	12	1	1	1	0	0	1	1	6	3	4	2	3	1	3	4	3	1	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:131020100G>A	uc011maw.1	-	23	2512	c.2499C>T	c.(2497-2499)TGC>TGT	p.C833C	GOLGA2_uc010mxw.2_Silent_p.C156C|GOLGA2_uc004buh.2_Intron	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	833	Potential.					Golgi cisterna membrane	protein binding			ovary(1)	1						AAAGCTGGATGCAGCGATGTT	0.562													11	591					0	0	0.00245	0	0		A	131020100	A	A	131020100	2	1	127	1	0	0	0	0	0	0	0	1	6567	1311	46	2		2	GOLGA2	9	131020100	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	363	131020100	10193331	623	69703											
SPTAN1	6709	broad.mit.edu	37	chr9	131339690	131339690	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaccctctgagtgcaacAcagattcaagtgaagcgaga	13	7	9	12	1	2	4	1	2	1	2	3	5	3	4	2	0	3	1	2	0	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:131339690A>G	uc004bvl.3	+	8	1103	c.990A>G	c.(988-990)ACA>ACG	p.T330T	SPTAN1_uc011mbg.1_Silent_p.T330T|SPTAN1_uc011mbh.1_Silent_p.T342T|SPTAN1_uc004bvm.3_Silent_p.T330T|SPTAN1_uc004bvn.3_Silent_p.T330T	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	330	Spectrin 4.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						TGAGTGCAACACAGATTCAAG	0.527													24	98					0	0	0.003954	0	0		G	131339690	G	G	131339690	2	3	127	1	0	0	0	0	0	0	0	1	15142	146	6	3		3	SPTAN1	9	131339690	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	319590	131339690	9873741	624	69704											
SPTAN1	6709	broad.mit.edu	37	chr9	131375680	131375680	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaggccctgctggcatcCgaagattatggcaaagacct	10	8	13	10	1	0	2	0	0	0	2	1	4	1	3	3	4	1	3	3	4	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:131375680C>T	uc004bvl.3	+	39	5162	c.5049C>T	c.(5047-5049)TCC>TCT	p.S1683S	SPTAN1_uc004bvm.3_Silent_p.S1688S|SPTAN1_uc004bvn.3_Silent_p.S1663S	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1683	Spectrin 18.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						TGCTGGCATCCGAAGATTATG	0.483													13	52					0	0	0.00245	0	0		T	131375680	T	T	131375680	2	4	127	1	0	0	0	0	0	0	0	1	15142	639	23	1		1	SPTAN1	9	131375680	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	35990	131375680	9837751	625	69705											
CRAT	1384	broad.mit.edu	37	chr9	131864220	131864220	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtggttggaggtgaggatGcccacaggctccttgttggt	5	11	17	8	1	0	1	0	1	0	0	1	3	1	3	2	7	1	3	2	7	0	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:131864220G>A	uc004bxh.2	-	6	1029	c.747C>T	c.(745-747)GGC>GGT	p.G249G	CRAT_uc004bxg.2_Silent_p.G228G|CRAT_uc004bxk.3_Silent_p.G228G	NM_000755	NP_000746	P43155	CACP_HUMAN	carnitine acetyltransferase precursor	249					energy derivation by oxidation of organic compounds|fatty acid beta-oxidation using acyl-CoA oxidase|transport	endoplasmic reticulum|mitochondrial inner membrane|peroxisomal matrix	carnitine O-acetyltransferase activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)	L-Carnitine(DB00583)	AGGTGAGGATGCCCACAGGCT	0.592													17	83					0	0	0.00499	0	0		A	131864220	A	A	131864220	2	1	127	1	0	0	0	0	0	0	0	1	3850	1306	46	2		2	CRAT	9	131864220	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	488540	131864220	9349211	626	69706											
GTF3C4	9329	broad.mit.edu	37	chr9	135553705	135553705	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggccccggaaggaaatctCggggattttgctgagtttca	9	10	14	8	2	2	1	1	1	1	0	3	5	2	4	2	5	1	2	2	5	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:135553705C>T	uc010mzv.2	+	2	957	c.699C>T	c.(697-699)CTC>CTT	p.L233L	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	233					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		AAGGAAATCTCGGGGATTTTG	0.517													18	87					0	0	0.007413	0	0		T	135553705	T	T	135553705	2	4	127	1	0	0	0	0	0	0	0	1	6891	871	31	1		1	GTF3C4	9	135553705	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3689485	135553705	5659726	627	69707											
RALGDS	5900	broad.mit.edu	37	chr9	136004600	136004600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcggcacgacgggcgacggCccttctcctggcggtcacca	6	5	14	16	6	2	0	1	0	1	0	3	2	2	0	3	5	1	1	3	5	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:136004600C>T	uc004ccr.2	-	1	189	c.106G>A	c.(106-108)GCC>ACC	p.A36T	RALGDS_uc011mcv.1_Intron|RALGDS_uc004ccs.2_Intron|RALGDS_uc011mcw.1_Intron	NM_001042368	NP_001035827	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	Error:Variant_position_missing_in_Q12967_after_alignment					nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		CGGGCGACGGCCCTTCTCCTG	0.667			T	CIITA	PMBL|Hodgkin Lymphona|								3	17					0	0	0.004672	0	0		T	136004600	T	T	136004600	3	4	127	1	0	0	0	0	1	0	0	0	13041	754	26	2		2	RALGDS	9	136004600	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	450895	136004600	5208831	628	69708											
SLC2A6	11182	broad.mit.edu	37	chr9	136337261	136337261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcaccaagcagatggccGcgaagaagaagaaaggcacc	15	2	13	11	2	1	4	1	0	0	4	1	5	1	4	3	3	1	3	3	3	5	0	rs146699447		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:136337261G>A	uc004cee.2	-	10	1501	c.1406C>T	c.(1405-1407)GCG>GTG	p.A469V	SLC2A6_uc004cef.2_Missense_Mutation_p.A407V|SLC2A6_uc004ceg.2_Missense_Mutation_p.A446V	NM_017585	NP_060055	Q9UGQ3	GTR6_HUMAN	solute carrier family 2 (facilitated glucose	469	Helical; Name=12; (Potential).					integral to membrane|plasma membrane	D-glucose transmembrane transporter activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.47e-08)|Epithelial(140;9.37e-07)|all cancers(34;1.03e-05)		GCAGATGGCCGCGAAGAAGAA	0.642													12	92					0	0	0.001855	0	0		A	136337261	A	A	136337261	3	1	127	1	0	0	0	0	1	0	0	0	14574	1087	38	1	121	1	SLC2A6	9	136337261	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	332661	136337261	4876170	629	69709											
OLFM1	10439	broad.mit.edu	37	chr9	137998610	137998610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcttgcgggaagttgaCgggcatcagtgaccccgtga	8	8	14	11	3	1	3	1	3	0	0	2	4	2	4	3	2	2	3	3	2	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:137998610C>T	uc010nar.2	+	5	1008	c.692C>T	c.(691-693)ACG>ATG	p.T231M	OLFM1_uc004cfl.3_Missense_Mutation_p.T213M|OLFM1_uc004cfn.3_Translation_Start_Site	NM_014279	NP_055094	Q99784	NOE1_HUMAN	olfactomedin related ER localized protein	231	Olfactomedin-like.				nervous system development	endoplasmic reticulum lumen	protein binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(178;0.0333)		Epithelial(140;5.49e-08)|OV - Ovarian serous cystadenocarcinoma(145;9.68e-08)|all cancers(34;1.88e-07)		GGGAAGTTGACGGGCATCAGT	0.537													5	22					0	0	0.001168	0	0		T	137998610	T	T	137998610	3	4	127	1	0	0	0	0	1	0	0	0	10871	536	19	1	666	1	OLFM1	9	137998610	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1661349	137998610	3214821	630	69710											
KIAA0649	9858	broad.mit.edu	37	chr9	138376423	138376423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggaggcctttggcccgccaGggagctgtaggttccccagg	5	7	17	12	1	0	0	0	0	0	0	1	2	1	2	5	6	1	3	5	6	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:138376423G>A	uc004cfr.1	+	4	616	c.67G>A	c.(67-69)GGG>AGG	p.G23R		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	23						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		TGGCCCGCCAGGGAGCTGTAG	0.637													24	96					0	0	0.010818	0	0		A	138376423	A	A	138376423	3	1	127	1	0	0	0	0	1	0	0	0	8203	1000	35	4	69	4	KIAA0649	9	138376423	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	377813	138376423	2837008	631	69711											
QSOX2	169714	broad.mit.edu	37	chr9	139100732	139100732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaggaagggtgcggcccCgcccacctccttgtgggccc	4	5	14	18	3	0	0	0	0	0	0	1	2	1	1	7	4	1	0	7	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:139100732C>T	uc010nbi.2	-	12	1977	c.1939G>A	c.(1939-1941)GGG>AGG	p.G647R		NM_181701	NP_859052	Q6ZRP7	QSOX2_HUMAN	quiescin Q6 sulfhydryl oxidase 2 precursor	647					cell redox homeostasis	extracellular region|integral to membrane|nuclear membrane|plasma membrane	thiol oxidase activity			ovary(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;7.78e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.55e-07)		GGTGCGGCCCCGCCCACCTCC	0.617													39	136					0	0	0.007835	0	0		T	139100732	T	T	139100732	3	4	127	1	0	0	0	0	1	0	0	0	12909	652	23	1	161	1	QSOX2	9	139100732	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	724309	139100732	2112699	632	69712											
SEC16A	9919	broad.mit.edu	37	chr9	139368937	139368937	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctgggcatctttcgtgAcctgctgataaaaacggtca	9	10	11	11	2	2	2	1	2	1	0	3	2	2	2	2	3	2	2	2	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:139368937A>G	uc004chx.2	-	3	3440	c.3131T>C	c.(3130-3132)GTC>GCC	p.V1044A	SEC16A_uc004chv.3_Missense_Mutation_p.V434A|SEC16A_uc004chw.2_Missense_Mutation_p.V1044A|SEC16A_uc010nbn.2_Missense_Mutation_p.V1044A|SEC16A_uc010nbo.1_Missense_Mutation_p.V1044A	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	866					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		ATCTTTCGTGACCTGCTGATA	0.592													4	22					0	0	0.009096	0	0		G	139368937	G	G	139368937	3	3	127	1	0	0	0	0	1	0	0	0	14011	275	10	3	4062	3	SEC16A	9	139368937	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	268205	139368937	1844494	633	69713											
NOTCH1	4851	broad.mit.edu	37	chr9	139395218	139395218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtcggagatgacggccGgcgcgtcctcctcttcctcg	5	9	13	14	6	1	3	0	2	1	1	6	4	4	3	4	3	0	0	4	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:139395218G>A	uc004chz.2	-	31	5720	c.5720C>T	c.(5719-5721)CCG>CTG	p.P1907L		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1907	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GATGACGGCCGGCGCGTCCTC	0.687			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			23	65					0	0	0.014323	0	0		A	139395218	A	A	139395218	3	1	127	1	0	0	0	0	1	0	0	0	10566	1116	39	1	1963	1	NOTCH1	9	139395218	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	26281	139395218	1818213	634	69714											
NELF	26012	broad.mit.edu	37	chr9	140350863	140350863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcgtgggcacaagactcacGcttgcatagttgtggttgct	7	12	13	9	2	1	1	1	0	0	1	2	1	1	1	0	2	2	6	0	2	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:140350863G>A	uc004cna.2	-	4	936	c.704C>T	c.(703-705)GCC>GTC	p.A235V	C9orf167_uc011mew.1_Intron|NELF_uc011mex.1_5'Flank|NELF_uc010nci.2_Missense_Mutation_p.A3V|NELF_uc011mey.1_RNA|NELF_uc011mez.1_Missense_Mutation_p.A235V|NELF_uc004cmz.2_Missense_Mutation_p.A235V|NELF_uc004cnc.2_Missense_Mutation_p.A235V|NELF_uc004cnb.2_Missense_Mutation_p.A235V	NM_001130969	NP_001124441	Q6X4W1	NELF_HUMAN	nasal embryonic LHRH factor isoform a	235						nucleus|plasma membrane					0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000222)|Epithelial(140;0.000888)		CAAGACTCACGCTTGCATAGT	0.532													67	210					0	0	0.01441	0	0		A	140350863	A	A	140350863	3	1	127	1	0	0	0	0	1	0	0	0	10351	1101	38	1	950	1	NELF	9	140350863	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	955645	140350863	862568	635	69715											
EHMT1	79813	broad.mit.edu	37	chr9	140672338	140672338	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcctcccctgaagtgctGccgggccaccactctcggag	6	9	10	16	2	1	1	0	1	1	0	4	2	3	2	6	2	2	1	6	2	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr9:140672338G>A	uc011mfc.1	+	13	2060	c.2023G>A	c.(2023-2025)GCC>ACC	p.A675T	EHMT1_uc004coa.2_Missense_Mutation_p.A675T|EHMT1_uc004cob.1_Missense_Mutation_p.A644T	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	675					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		CTGAAGTGCTGCCGGGCCACC	0.597													56	219					0	0	0.01441	0	0		A	140672338	A	A	140672338	3	1	127	1	0	0	0	0	1	0	0	0	4989	1319	46	2	2073	2	EHMT1	9	140672338	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	321475	140672338	541093	636	69716											
CACNB2	783	broad.mit.edu	37	chr10	18828201	18828201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatcgctccgctcctatcCgttctgcttcccaagctgaa	6	12	7	16	3	1	2	0	2	1	0	6	2	5	2	4	0	2	5	4	0	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:18828201C>T	uc001ipr.2	+	14	1591	c.1531C>T	c.(1531-1533)CGT>TGT	p.R511C	CACNB2_uc009xjz.1_Missense_Mutation_p.R261C|CACNB2_uc001ips.2_Missense_Mutation_p.R487C|CACNB2_uc001ipt.2_Missense_Mutation_p.R473C|CACNB2_uc001ipu.2_Missense_Mutation_p.R483C|CACNB2_uc001ipv.2_Missense_Mutation_p.R459C|CACNB2_uc009xka.1_Missense_Mutation_p.R445C|CACNB2_uc001ipw.2_Missense_Mutation_p.R418C|CACNB2_uc001ipx.2_Missense_Mutation_p.R456C|CACNB2_uc001ipz.2_Missense_Mutation_p.R433C|CACNB2_uc001ipy.2_Missense_Mutation_p.R457C|CACNB2_uc010qco.1_Missense_Mutation_p.R425C|CACNB2_uc001iqa.2_Missense_Mutation_p.R463C|NSUN6_uc001iqb.2_RNA	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	511					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	CGCTCCTATCCGTTCTGCTTC	0.542													24	99					0	0	0.00333	0	0		T	18828201	T	T	18828201	3	4	127	1	0	0	0	0	1	0	0	0	2556	652	23	1	1895	1	CACNB2	10	18828201	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08		18828201	116706546	637	69717											
CACNB2	783	broad.mit.edu	37	chr10	18828645	18828645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacagggatgtttacatcCgccaatgagttttgcccgtt	9	12	11	9	2	0	1	0	1	0	0	1	3	1	3	3	2	3	3	3	2	3	5	rs77141223	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:18828645C>T	uc001ipr.2	+	14	2035	c.1975C>T	c.(1975-1977)CGC>TGC	p.R659C	CACNB2_uc009xjz.1_Missense_Mutation_p.R409C|CACNB2_uc001ips.2_Missense_Mutation_p.R635C|CACNB2_uc001ipt.2_Missense_Mutation_p.R621C|CACNB2_uc001ipu.2_Missense_Mutation_p.R631C|CACNB2_uc001ipv.2_Missense_Mutation_p.R607C|CACNB2_uc009xka.1_Missense_Mutation_p.R593C|CACNB2_uc001ipw.2_Missense_Mutation_p.R566C|CACNB2_uc001ipx.2_Missense_Mutation_p.R604C|CACNB2_uc001ipz.2_Missense_Mutation_p.R581C|CACNB2_uc001ipy.2_Missense_Mutation_p.R605C|CACNB2_uc010qco.1_Missense_Mutation_p.R573C|CACNB2_uc001iqa.2_Missense_Mutation_p.R611C|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	659				R -> P (in Ref. 2; AAB53332, 5; AAG01473/ AAL16948/AAL16951/AAL16950 and 6; AAL73495).	axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TGTTTACATCCGCCAATGAGT	0.408													10	76					0	0	0.014323	0	0		T	18828645	T	T	18828645	3	4	127	1	0	0	0	0	1	0	0	0	2556	652	23	1	2339	1	CACNB2	10	18828645	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	444	18828645	116706102	638	69718											
GPR158	57512	broad.mit.edu	37	chr10	25887199	25887199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtgtgcaagtcagcaagcGctcacaacctcagctcagag	11	7	11	12	1	4	1	4	0	0	1	4	1	4	1	1	1	5	4	1	1	3	0	rs141827771	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:25887199G>A	uc001isj.2	+	11	2704	c.2644G>A	c.(2644-2646)GCT>ACT	p.A882T	GPR158_uc001isk.2_Missense_Mutation_p.A257T	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	882	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GTCAGCAAGCGCTCACAACCT	0.502													37	130					0	0	0.004289	0	0		A	25887199	A	A	25887199	3	1	127	1	0	0	0	0	1	0	0	0	6678	1087	38	1	2686	1	GPR158	10	25887199	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	7058554	25887199	109647548	639	69719											
PTCHD3	374308	broad.mit.edu	37	chr10	27692254	27692254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaaatcactccaaaggccGcaacacacattttgtttcgt	13	10	6	12	2	1	1	1	0	0	1	3	1	2	1	2	1	1	2	2	1	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:27692254G>A	uc001itu.2	-	3	1362	c.1244C>T	c.(1243-1245)GCG>GTG	p.A415V		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	415	SSD.				spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						TCCAAAGGCCGCAACACACAT	0.438													31	134					0	0	0.010818	0	0		A	27692254	A	A	27692254	3	1	127	1	0	0	0	0	1	0	0	0	12756	1087	38	1	1067	1	PTCHD3	10	27692254	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1805055	27692254	107842493	640	69720											
PTCHD3	374308	broad.mit.edu	37	chr10	27702568	27702568	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcgagacgaaattggcttcGgtgctcctcctggaggcgga	8	8	15	10	4	0	1	0	0	0	1	3	5	2	3	2	5	2	2	2	5	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:27702568G>A	uc001itu.2	-	1	730	c.612C>T	c.(610-612)ACC>ACT	p.T204T		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	204					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						AATTGGCTTCGGTGCTCCTCC	0.632													18	56					0	0	0.009535	0	0		A	27702568	A	A	27702568	2	1	127	1	0	0	0	0	0	0	0	1	12756	1103	39	1		1	PTCHD3	10	27702568	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	10314	27702568	107832179	641	69721											
PARD3	56288	broad.mit.edu	37	chr10	34408562	34408562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcagagagctgtactggCgctgggcctgctgggagctc	6	7	18	10	1	0	1	0	0	0	1	1	4	0	2	1	4	4	6	1	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:34408562C>T	uc010qej.1	-	24	3656	c.3656G>A	c.(3655-3657)CGC>CAC	p.R1219H	PARD3_uc010qek.1_Missense_Mutation_p.R1216H|PARD3_uc010qel.1_Missense_Mutation_p.R1182H|PARD3_uc010qem.1_Missense_Mutation_p.R1203H|PARD3_uc010qen.1_Missense_Mutation_p.R1173H|PARD3_uc010qeo.1_Missense_Mutation_p.R1136H|PARD3_uc010qep.1_Missense_Mutation_p.R1129H|PARD3_uc010qeq.1_Missense_Mutation_p.R1107H	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	1219	Potential.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				GCTGTACTGGCGCTGGGCCTG	0.692													3	19					0	0	0.004672	0	0		T	34408562	T	T	34408562	3	4	127	1	0	0	0	0	1	0	0	0	11462	768	27	1	422	1	PARD3	10	34408562	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	6705994	34408562	101126185	642	69722											
FZD8	8325	broad.mit.edu	37	chr10	35929176	35929176	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaagaccacggtgcacagCgcggggccggtggtctcgta	9	5	16	11	5	1	2	0	0	1	2	2	2	1	2	2	5	2	2	2	5	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:35929176C>T	uc001iyz.1	-	1	1187	c.1182G>A	c.(1180-1182)GCG>GCA	p.A394A		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	394	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						CGGTGCACAGCGCGGGGCCGG	0.502													6	24					0	0	0.001984	0	0		T	35929176	T	T	35929176	2	4	127	1	0	0	0	0	0	0	0	1	6150	755	27	1		1	FZD8	10	35929176	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1520614	35929176	99605571	643	69723											
RET	5979	broad.mit.edu	37	chr10	43598065	43598065	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacatcagcgtggcctacAggctcctggagggtgagtgc	8	7	14	12	1	1	1	1	1	0	0	2	2	2	2	3	4	4	1	3	4	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:43598065A>G	uc001jal.2	+	3	803	c.613A>G	c.(613-615)AGG>GGG	p.R205G	RET_uc001jak.1_Missense_Mutation_p.R205G|RET_uc010qez.1_5'Flank	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	205	Cadherin.|Extracellular (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	CGTGGCCTACAGGCTCCTGGA	0.627		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				7	48					0	0	0.006214	0	0		G	43598065	G	G	43598065	3	3	127	1	0	0	0	0	1	0	0	0	13260	179	7	3	623	3	RET	10	43598065	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	7668889	43598065	91936682	644	69724											
RET	5979	broad.mit.edu	37	chr10	43620416	43620416	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagacctggagaagatgAtggttaagaggagagtgagt	15	7	16	3	0	0	7	0	2	0	5	0	9	0	7	1	3	0	2	1	3	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:43620416A>G	uc001jal.2	+	18	3215	c.3025A>G	c.(3025-3027)ATG>GTG	p.M1009V	RET_uc001jak.1_Missense_Mutation_p.M1009V|RET_uc010qez.1_Missense_Mutation_p.M755V	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	1009	Protein kinase.|Cytoplasmic (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	GGAGAAGATGATGGTTAAGAG	0.562		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				22	62					0	0	0.014323	0	0		G	43620416	G	G	43620416	3	3	127	1	0	0	0	0	1	0	0	0	13260	333	12	3	3095	3	RET	10	43620416	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	22351	43620416	91914331	645	69725											
ZNF32	7580	broad.mit.edu	37	chr10	44139887	44139887	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggacagcgagactacctcGttgactgaagcttttcccac	9	10	10	12	2	0	3	0	2	0	1	2	5	1	4	2	1	3	2	2	1	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:44139887G>A	uc001jbb.2	-	3	622	c.433C>T	c.(433-435)CGA>TGA	p.R145*	uc001jba.2_Intron|ZNF32_uc001jbc.2_Nonsense_Mutation_p.R145*	NM_001005368	NP_001005368	P17041	ZNF32_HUMAN	zinc finger protein 32	145	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		all_neural(218;0.0182)|Ovarian(717;0.0443)|Renal(717;0.157)		Lung(62;0.179)		AGACTACCTCGTTGACTGAAG	0.483													21	80					0	0	0.014323	0	0		A	44139887	A	A	44139887	4	1	127	1	0	0	0	0	0	1	0	0	17863	1153	40	1	392	1	ZNF32	10	44139887	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	519471	44139887	91394860	646	69726											
RASSF4	83937	broad.mit.edu	37	chr10	45478096	45478096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctcatggatgcccagacGgcctagctgccctctgtgag	7	8	11	15	1	2	2	1	1	1	1	2	3	2	3	4	2	3	1	4	2	1	1	rs145855403	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:45478096G>A	uc001jbo.2	+	4	400	c.266G>A	c.(265-267)CGG>CAG	p.R89Q	RASSF4_uc001jbp.2_Missense_Mutation_p.R120Q|RASSF4_uc009xmn.2_Missense_Mutation_p.R19Q|RASSF4_uc001jbq.2_Missense_Mutation_p.G17S|RASSF4_uc001jbt.2_Missense_Mutation_p.R19Q	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	89					cell cycle|signal transduction		protein binding			large_intestine(1)	1						ATGCCCAGACGGCCTAGCTGC	0.657													9	32					0	0	0.004482	0	0		A	45478096	A	A	45478096	3	1	127	1	0	0	0	0	1	0	0	0	13113	1116	39	1	276	1	RASSF4	10	45478096	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1338209	45478096	90056651	647	69727											
OR13A1	79290	broad.mit.edu	37	chr10	45799648	45799648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taagaaaaagtacataggagCgtggagcccagggttgaacg	15	6	14	6	2	0	2	0	1	0	1	0	4	0	4	1	3	4	2	1	3	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:45799648C>T	uc001jcc.1	-	4	532	c.223G>A	c.(223-225)GCT>ACT	p.A75T	OR13A1_uc001jcd.1_Missense_Mutation_p.A71T	NM_001004297	NP_001004297	Q8NGR1	O13A1_HUMAN	olfactory receptor, family 13, subfamily A,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TACATAGGAGCGTGGAGCCCA	0.522													6	31					0	0	0.001168	0	0		T	45799648	T	T	45799648	3	4	127	1	0	0	0	0	1	0	0	0	10952	768	27	1	767	1	OR13A1	10	45799648	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	321552	45799648	89735099	648	69728											
ANK3	288	broad.mit.edu	37	chr10	61829489	61829489	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttataggcgtgcgcaacTtggggtcaactttagaggtg	8	14	13	6	2	1	1	1	0	0	1	1	1	1	1	0	4	3	1	0	4	5	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:61829489T>G	uc001jky.2	-	37	11342	c.11150A>C	c.(11149-11151)AAG>ACG	p.K3717T	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	3717					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CGTGCGCAACTTGGGGTCAAC	0.507													51	194					0	0	0.01441	0	0		G	61829489	G	G	61829489	3	3	127	1	0	0	0	0	1	0	0	0	622	1609	56	5	2324	5	ANK3	10	61829489	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	16029841	61829489	73705258	649	69729											
ANK3	288	broad.mit.edu	37	chr10	61836200	61836200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttgttgctcctgtactcCgttcaactgtttcttaaatt	7	19	5	10	1	3	0	1	0	2	0	5	0	5	0	2	0	3	5	2	0	4	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:61836200C>T	uc001jky.2	-	37	4631	c.4439G>A	c.(4438-4440)CGG>CAG	p.R1480Q	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron|ANK3_uc009xpc.1_RNA	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1480					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TCCTGTACTCCGTTCAACTGT	0.383													13	57					0	0	0.013537	0	0		T	61836200	T	T	61836200	3	4	127	1	0	0	0	0	1	0	0	0	622	652	23	1	9035	1	ANK3	10	61836200	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	6711	61836200	73698547	650	69730											
ZNF365	22891	broad.mit.edu	37	chr10	64136336	64136336	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtcctatgtgcagacCtacactgccatggacctcca	8	10	8	15	0	0	1	0	0	0	1	2	2	2	2	6	1	3	1	6	1	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:64136336C>A	uc001jmc.2	+	2	699	c.384C>A	c.(382-384)ACC>ACA	p.T128T	ZNF365_uc001jly.3_Silent_p.T143T|ZNF365_uc001jmb.3_Silent_p.T128T|ZNF365_uc001jlz.3_Silent_p.T128T|ZNF365_uc001jma.3_Intron	NM_199451	NP_955523	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform C	Error:Variant_position_missing_in_Q70YC4_after_alignment										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					ATGTGCAGACCTACACTGCCA	0.532													21	68					2.37509e-13	2.6252e-13	0.010504	1	0		A	64136336	A	A	64136336	2	1	127	1	0	0	0	0	0	0	0	1	17894	668	24	5		5	ZNF365	10	64136336	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2300136	64136336	71398411	651	69731											
JMJD1C	221037	broad.mit.edu	37	chr10	64952810	64952810	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctacatcactctctgggctGctgccaccatttttctcaga	7	13	6	15	0	3	1	2	0	2	1	5	1	3	1	3	1	3	2	3	1	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:64952810G>A	uc001jmn.2	-	16	6264	c.5964C>T	c.(5962-5964)AGC>AGT	p.S1988S	JMJD1C_uc001jml.2_Silent_p.S1751S|JMJD1C_uc001jmm.2_Silent_p.S1700S|JMJD1C_uc010qiq.1_Silent_p.S1806S|JMJD1C_uc009xpi.2_Silent_p.S1806S|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmo.2_5'Flank|JMJD1C_uc009xpk.1_Silent_p.S886S	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1988					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TCTCTGGGCTGCTGCCACCAT	0.443													9	202					0	0	0.006214	0	0		A	64952810	A	A	64952810	2	1	127	1	0	0	0	0	0	0	0	1	7966	1310	46	2		2	JMJD1C	10	64952810	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	816474	64952810	70581937	652	69732											
JMJD1C	221037	broad.mit.edu	37	chr10	64954088	64954088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggcattaaatgtttgtgatCatgaggctgtcccttcacac	9	14	9	9	0	2	2	2	2	0	0	3	2	3	2	1	2	0	3	1	2	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:64954088C>T	uc001jmn.2	-	14	5992	c.5692G>A	c.(5692-5694)GAT>AAT	p.D1898N	JMJD1C_uc001jml.2_Missense_Mutation_p.D1679N|JMJD1C_uc001jmm.2_Missense_Mutation_p.D1610N|JMJD1C_uc010qiq.1_Missense_Mutation_p.D1716N|JMJD1C_uc009xpi.2_Missense_Mutation_p.D1716N|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Missense_Mutation_p.D796N	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1898					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TGTTTGTGATCATGAGGCTGT	0.333													36	127					0	0	0.007835	0	0		T	64954088	T	T	64954088	3	4	127	1	0	0	0	0	1	0	0	0	7966	826	29	4	1982	4	JMJD1C	10	64954088	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1278	64954088	70580659	653	69733											
HK1	3098	broad.mit.edu	37	chr10	71158533	71158533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagaacagaggactggaccGtctgaatgtgactgtgggag	11	7	16	7	2	1	4	0	2	1	2	1	8	1	7	1	3	1	0	1	3	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:71158533G>A	uc001jpl.3	+	17	2659	c.2558G>A	c.(2557-2559)CGT>CAT	p.R853H	HK1_uc001jpg.3_Missense_Mutation_p.R841H|HK1_uc001jph.3_Missense_Mutation_p.R857H|HK1_uc001jpi.3_Missense_Mutation_p.R857H|HK1_uc001jpj.3_Missense_Mutation_p.R888H|HK1_uc001jpk.3_Missense_Mutation_p.R852H	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	853	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						GGACTGGACCGTCTGAATGTG	0.592													5	46					0	0	0.001168	0	0		A	71158533	A	A	71158533	3	1	127	1	0	0	0	0	1	0	0	0	7206	1145	40	1	2802	1	HK1	10	71158533	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	6204445	71158533	64376214	654	69734											
C10orf27	219793	broad.mit.edu	37	chr10	72539371	72539371	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaaagctgggggttccgAttagactgtgggtctccaat	10	10	14	7	1	1	2	0	0	1	2	3	4	2	2	2	3	1	2	2	3	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:72539371A>G	uc001jrj.1	-	5	795	c.405T>C	c.(403-405)AAT>AAC	p.N135N	C10orf27_uc010qjm.1_Silent_p.N135N|C10orf27_uc009xqh.1_RNA|C10orf27_uc010qjn.1_Silent_p.N135N|C10orf27_uc009xqi.1_Intron|C10orf27_uc010qjo.1_Silent_p.N124N|C10orf27_uc009xqj.1_Missense_Mutation_p.I130T|C10orf27_uc010qjp.1_Silent_p.N124N	NM_152710	NP_689923	Q96M53	SPATL_HUMAN	stromal protein associated with thymii and lymph	135					cell differentiation|multicellular organismal development|spermatogenesis	cytosol				skin(1)	1						GGGGGTTCCGATTAGACTGTG	0.587													13	57					0	0	0.001855	0	0		G	72539371	G	G	72539371	2	3	127	1	0	0	0	0	0	0	0	1	1603	330	12	3		3	C10orf27	10	72539371	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1380838	72539371	62995376	655	69735											
UNC5B	219699	broad.mit.edu	37	chr10	73050685	73050685	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcagtgctggaggcctcAggggatgcggcgctgtatgc	5	7	17	12	3	1	0	1	0	0	0	1	2	1	2	2	5	3	4	2	5	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:73050685A>G	uc001jro.2	+	9	1558	c.1113A>G	c.(1111-1113)TCA>TCG	p.S371S	UNC5B_uc001jrp.2_Silent_p.S360S	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	371	Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						TGGAGGCCTCAGGGGATGCGG	0.637													56	217					0	0	0.01441	0	0		G	73050685	G	G	73050685	2	3	127	1	0	0	0	0	0	0	0	1	17018	175	7	3		3	UNC5B	10	73050685	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	511314	73050685	62484062	656	69736											
USP54	159195	broad.mit.edu	37	chr10	75265090	75265090	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagtacgcactgttctggcTtcatggagaccatgctccat	9	11	10	11	1	2	1	1	0	1	1	3	3	3	1	2	2	2	5	2	2	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:75265090T>G	uc001juo.2	-	19	4163	c.4146A>C	c.(4144-4146)GAA>GAC	p.E1382D	USP54_uc010qkk.1_Missense_Mutation_p.E564D|USP54_uc001juk.2_Missense_Mutation_p.E470D|USP54_uc001jul.2_Missense_Mutation_p.E470D|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	1382					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					CTGTTCTGGCTTCATGGAGAC	0.547													20	74					0	0	0.00333	0	0		G	75265090	G	G	75265090	3	3	127	1	0	0	0	0	1	0	0	0	17111	1606	56	5	924	5	USP54	10	75265090	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2214405	75265090	60269657	657	69737											
AGAP5	729092	broad.mit.edu	37	chr10	75434450	75434450	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtcagcgctgtgttcccGtgggcatctcgggccatgac	5	10	14	12	3	2	1	1	1	1	0	4	1	3	1	2	3	1	3	2	3	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:75434450G>A	uc009xri.2	-	8	2009	c.1968C>T	c.(1966-1968)CAC>CAT	p.H656H	AGAP5_uc001juu.3_Silent_p.H617H	NM_001144000	NP_001137472	A6NIR3	AGAP5_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	656	ANK 2.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						CTGTGTTCCCGTGGGCATCTC	0.647													34	120					0	0	0.01441	0	0		A	75434450	A	A	75434450	2	1	127	1	0	0	0	0	0	0	0	1	371	1136	40	1		1	AGAP5	10	75434450	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	169360	75434450	60100297	658	69738											
NDST2	8509	broad.mit.edu	37	chr10	75567582	75567582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagtttgagtgtaaaaaaaGgggaaagcccttgagctggg	14	8	14	5	0	0	2	0	2	0	0	0	3	0	3	1	3	2	3	1	3	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:75567582G>A	uc001jvk.2	-	3	1369	c.565C>T	c.(565-567)CTT>TTT	p.L189F	NDST2_uc010qks.1_5'Flank|NDST2_uc010qkt.1_Missense_Mutation_p.L66F|NDST2_uc009xro.2_5'Flank|NDST2_uc010qku.1_Missense_Mutation_p.L66F	NM_003635	NP_003626	P52849	NDST2_HUMAN	heparan glucosaminyl	189	Lumenal (Potential).|Heparan sulfate N-deacetylase 2.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			ovary(1)	1	Prostate(51;0.0112)					TGTAAAAAAAGGGGAAAGCCC	0.577													5	88					0	0	0.000602	0	0		A	75567582	A	A	75567582	3	1	127	1	0	0	0	0	1	0	0	0	10275	1000	35	4	2138	4	NDST2	10	75567582	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	133132	75567582	59967165	659	69739											
ZMIZ1	57178	broad.mit.edu	37	chr10	81058854	81058854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattccctgtgcgggatggcGtggtgctggagcccttccgc	3	10	15	13	3	0	0	0	0	0	0	2	2	2	2	3	4	3	1	3	4	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:81058854G>A	uc001kaf.2	+	16	2286	c.1714G>A	c.(1714-1716)GTG>ATG	p.V572M	ZMIZ1_uc001kag.2_Missense_Mutation_p.V448M	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	572					transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			GCGGGATGGCGTGGTGCTGGA	0.647													13	49					0	0	0.013537	0	0		A	81058854	A	A	81058854	3	1	127	1	0	0	0	0	1	0	0	0	17721	1145	40	1	1760	1	ZMIZ1	10	81058854	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5491272	81058854	54475893	660	69740											
SFTPA2	729238	broad.mit.edu	37	chr10	81319123	81319123	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtccctgcctggcaggccGtgggatccaggagtgccggg	4	6	17	14	3	0	0	0	0	0	0	2	2	2	2	6	5	2	1	6	5	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:81319123G>A	uc001kal.3	-	3	214	c.117C>T	c.(115-117)CAC>CAT	p.H39H	SFTPA2_uc001kan.3_Silent_p.H39H|SFTPA2_uc001kam.2_RNA	NM_006926	NP_008857	Q8IWL1	SFPA2_HUMAN	RecName: Full=Pulmonary surfactant-associated protein A2;          Short=SP-A2;          Short=SP-A;          Short=PSP-A;          Short=PSPA; AltName: Full=Alveolar proteinosis protein; AltName: Full=35 kDa pulmonary surfactant-associated protein; Flags: Precursor;	39	Collagen-like.				cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			CTGGCAGGCCGTGGGATCCAG	0.632									Pulmonary_Fibrosis_Idiopathic				10	155					0	0	0.001855	0	0		A	81319123	A	A	81319123	2	1	127	1	0	0	0	0	0	0	0	1	14215	1136	40	1		1	SFTPA2	10	81319123	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	260269	81319123	54215624	661	69741											
WAPAL	23063	broad.mit.edu	37	chr10	88260114	88260114	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgttttattggccctacagtAcgtcctacagttggttggcc	6	14	10	11	2	0	0	0	0	0	0	1	0	1	0	3	3	3	4	3	3	4	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:88260114A>G	uc001kdo.2	-	3	1328	c.886T>C	c.(886-888)TAC>CAC	p.Y296H	WAPAL_uc001kdn.2_Missense_Mutation_p.Y339H|WAPAL_uc009xsw.2_Missense_Mutation_p.Y296H	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	296	Mediates interaction with the cohesin complex.				cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						GCCCTACAGTACGTCCTACAG	0.418													29	153					0	0	0.008361	0	0		G	88260114	G	G	88260114	3	3	127	1	0	0	0	0	1	0	0	0	17274	391	14	3	2754	3	WAPAL	10	88260114	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	6940991	88260114	47274633	662	69742											
PAPSS2	9060	broad.mit.edu	37	chr10	89472990	89472990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagaggaaaatatccgcCggattgctgaggtggctaag	13	7	14	7	2	0	2	0	1	0	1	1	5	1	4	2	4	1	2	2	4	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:89472990C>T	uc001kex.2	+	3	567	c.304C>T	c.(304-306)CGG>TGG	p.R102W	PAPSS2_uc001kew.2_Missense_Mutation_p.R102W|PAPSS2_uc009xtg.1_RNA	NM_004670	NP_004661	O95340	PAPS2_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase 2	102	Adenylyl-sulfate kinase.				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|protein binding|sulfate adenylyltransferase (ATP) activity			central_nervous_system(1)|skin(1)	2		Melanoma(5;0.019)|Colorectal(252;0.123)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00164)|Colorectal(12;0.000323)|COAD - Colon adenocarcinoma(12;0.00124)		AAATATCCGCCGGATTGCTGA	0.453													40	146					0	0	0.009718	0	0		T	89472990	T	T	89472990	3	4	127	1	0	0	0	0	1	0	0	0	11454	643	23	1	314	1	PAPSS2	10	89472990	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1212876	89472990	46061757	663	69743											
CYP26C1	340665	broad.mit.edu	37	chr10	94828126	94828126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtatagcatccgggacaCgcacgagacggctgcggtgt	9	7	15	10	5	0	1	0	0	0	1	1	4	1	2	1	3	2	4	1	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:94828126C>T	uc010qns.1	+	6	1241	c.1241C>T	c.(1240-1242)ACG>ATG	p.T414M	CYP26C1_uc009xud.2_RNA	NM_183374	NP_899230	Q6V0L0	CP26C_HUMAN	cytochrome P450, family 26, subfamily C,	414					anterior/posterior pattern formation|central nervous system development|negative regulation of retinoic acid receptor signaling pathway|neural crest cell development|organelle fusion|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			central_nervous_system(1)	1		Colorectal(252;0.122)				ATCCGGGACACGCACGAGACG	0.667													23	69					0	0	0.00278	0	0		T	94828126	T	T	94828126	3	4	127	1	0	0	0	0	1	0	0	0	4160	536	19	1	1263	1	CYP26C1	10	94828126	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	5355136	94828126	40706621	664	69744											
BLNK	29760	broad.mit.edu	37	chr10	97969609	97969609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttacccggcccgtggcaacGgggatggtgcagctggtgga	6	7	17	11	3	0	0	0	0	0	0	0	2	0	2	2	7	4	3	2	7	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:97969609G>A	uc001kls.3	-	9	909	c.731C>T	c.(730-732)CCG>CTG	p.P244L	BLNK_uc001kme.3_Missense_Mutation_p.P139L|BLNK_uc001klt.3_Missense_Mutation_p.P135L|BLNK_uc009xvc.2_RNA|BLNK_uc001klu.3_Missense_Mutation_p.P162L|BLNK_uc001klv.3_Missense_Mutation_p.P139L|BLNK_uc001klw.3_Intron|BLNK_uc001klx.3_Missense_Mutation_p.P221L|BLNK_uc001kly.3_Missense_Mutation_p.P244L|BLNK_uc001klz.3_RNA|BLNK_uc001kma.3_Missense_Mutation_p.P221L|BLNK_uc001kmb.3_Missense_Mutation_p.P40L|BLNK_uc001kmc.3_Intron|BLNK_uc001kmd.3_Missense_Mutation_p.P162L|BLNK_uc009xvd.2_RNA	NM_013314	NP_037446	Q8WV28	BLNK_HUMAN	B-cell linker isoform 1	244	Pro-rich.				B cell differentiation|humoral immune response|inflammatory response|intracellular signal transduction	cytoplasm|plasma membrane	SH3/SH2 adaptor activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(2)	2		Colorectal(252;0.083)		Epithelial(162;7.89e-08)|all cancers(201;2.27e-06)		CCGTGGCAACGGGGATGGTGC	0.562													44	198					0	0	0.01441	0	0		A	97969609	A	A	97969609	3	1	127	1	0	0	0	0	1	0	0	0	1448	1116	39	1	675	1	BLNK	10	97969609	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3141483	97969609	37565138	665	69745											
FRAT2	23401	broad.mit.edu	37	chr10	99093646	99093646	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcagagcaaggagcctgaGggctgcagggcaatgcggtc	9	5	17	10	2	1	2	1	1	0	1	2	3	1	3	1	4	4	4	1	4	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:99093646G>T	uc001knd.1	-	1	813	c.684C>A	c.(682-684)CCC>CCA	p.P228P		NM_012083	NP_036215	O75474	FRAT2_HUMAN	GSK-3 binding protein FRAT2	228					cell proliferation|multicellular organismal development|Wnt receptor signaling pathway						0		Colorectal(252;0.0846)		Epithelial(162;1.34e-09)|all cancers(201;8.42e-08)		AGGAGCCTGAGGGCTGCAGGG	0.692													4	10					1.23904e-05	1.28061e-05	0.000602	1	0		T	99093646	T	T	99093646	2	4	127	1	0	0	0	0	0	0	0	1	6057	987	35	5		5	FRAT2	10	99093646	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1124037	99093646	36441101	666	69746											
DHDPSL	112817	broad.mit.edu	37	chr10	99371285	99371285	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgacccggcgctttgggAtcccagggctgaagaaaatc	10	7	14	10	2	0	3	0	2	0	1	2	4	1	4	2	4	0	2	2	4	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:99371285A>G	uc001kny.2	+	7	1212	c.853A>G	c.(853-855)ATC>GTC	p.I285V	DHDPSL_uc001knz.2_Missense_Mutation_p.I122V|PI4K2A_uc010qoy.1_Intron	NM_138413	NP_612422	Q86XE5	HOGA1_HUMAN	DHDPS-like protein isoform 1	285					glyoxylate catabolic process	mitochondrion	4-hydroxy-2-oxoglutarate aldolase activity				0						GCGCTTTGGGATCCCAGGGCT	0.572													15	74					0	0	0.003163	0	0		G	99371285	G	G	99371285	3	3	127	1	0	0	0	0	1	0	0	0	4486	333	12	3	879	3	DHDPSL	10	99371285	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	277639	99371285	36163462	667	69747											
CNNM1	26507	broad.mit.edu	37	chr10	101147615	101147615	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagaacgcactcactgcctgCcacatggacagctcacctca	11	6	7	17	1	3	1	3	0	0	1	3	2	3	2	3	1	4	2	3	1	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:101147615C>T	uc001kpp.3	+	8	2668	c.2379C>T	c.(2377-2379)TGC>TGT	p.C793C	CNNM1_uc010qpi.1_Silent_p.C814C|CNNM1_uc009xwf.2_Silent_p.C793C|CNNM1_uc009xwg.2_Silent_p.C193C	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	793					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		TCACTGCCTGCCACATGGACA	0.617													5	35					0	0	0.000602	0	0		T	101147615	T	T	101147615	2	4	127	1	0	0	0	0	0	0	0	1	3615	747	26	2		2	CNNM1	10	101147615	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1776330	101147615	34387132	668	69748											
GOT1	2805	broad.mit.edu	37	chr10	101157324	101157324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcactggattttggtgactgCttcatggatggaggtggcca	7	13	14	7	0	2	1	2	1	0	0	2	4	2	4	1	6	1	1	1	6	0	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:101157324C>T	uc001kpr.2	-	9	1430	c.1222G>A	c.(1222-1224)GCA>ACA	p.A408T	GOT1_uc009xwh.2_RNA|GOT1_uc001kpq.1_Missense_Mutation_p.A121T	NM_002079	NP_002070	P17174	AATC_HUMAN	aspartate aminotransferase 1	408					aspartate catabolic process|cellular response to insulin stimulus|gluconeogenesis|response to glucocorticoid stimulus	cytosol	L-aspartate:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding				0		Ovarian(717;0.028)|Colorectal(252;0.234)		Epithelial(162;4.76e-10)|all cancers(201;3.84e-08)	L-Aspartic Acid(DB00128)|L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	TTGGTGACTGCTTCATGGATG	0.448													61	253					0	0	0.01441	0	0		T	101157324	T	T	101157324	3	4	127	1	0	0	0	0	1	0	0	0	6594	797	28	2	23	2	GOT1	10	101157324	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	9709	101157324	34377423	669	69749											
HPS6	79803	broad.mit.edu	37	chr10	103826348	103826348	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaagagctggagacccgaGggaatcttcgtctgctttca	10	9	13	9	2	3	2	1	0	2	2	4	6	3	4	1	3	2	2	1	3	2	2	rs140222296		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:103826348G>T	uc001kuj.2	+	1	1202	c.1117G>T	c.(1117-1119)GGG>TGG	p.G373W		NM_024747	NP_079023	Q86YV9	HPS6_HUMAN	Hermansky-Pudlak syndrome-6	373						cytosol|early endosome membrane|endoplasmic reticulum|microsome					0		Colorectal(252;0.122)		Epithelial(162;5.93e-08)|all cancers(201;1.03e-06)		GGAGACCCGAGGGAATCTTCG	0.572									Hermansky-Pudlak_syndrome				22	85					3.5997e-14	3.99434e-14	0.014323	1	0		T	103826348	T	T	103826348	3	4	127	1	0	0	0	0	1	0	0	0	7359	1000	35	5	1119	5	HPS6	10	103826348	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2669024	103826348	31708399	670	69750											
PPRC1	23082	broad.mit.edu	37	chr10	103908180	103908180	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgctcttcctcttcttcGtcatcatcttcctcttcgtc	4	18	4	15	2	7	1	2	0	5	1	12	1	9	1	2	0	1	1	2	0	0	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:103908180G>A	uc001kum.2	+	10	4491	c.4452G>A	c.(4450-4452)TCG>TCA	p.S1484S	PPRC1_uc001kun.2_Silent_p.S1364S|PPRC1_uc010qqj.1_Silent_p.S1220S|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	1484	Arg-rich.|Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		cctcttcttcgtcatcatctt	0.433													29	113					0	0	0.00632	0	0		A	103908180	A	A	103908180	2	1	127	1	0	0	0	0	0	0	0	1	12432	1132	40	1		1	PPRC1	10	103908180	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	81832	103908180	31626567	671	69751											
NOLC1	9221	broad.mit.edu	37	chr10	103919311	103919311	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggagcaaaaaaaacccaTgaaaaataaaccaggtgact	22	4	8	7	0	0	3	0	2	0	1	0	4	0	4	2	2	3	1	2	2	8	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:103919311T>C	uc001kuo.2	+	7	1080	c.845T>C	c.(844-846)ATG>ACG	p.M282T	NOLC1_uc001kup.2_Missense_Mutation_p.M292T|NOLC1_uc001kuq.2_Missense_Mutation_p.M283T|NOLC1_uc009xxb.1_Missense_Mutation_p.M1T|NOLC1_uc001kur.2_Missense_Mutation_p.M1T	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	282	11 X 12 AA approximate repeats of an acidic serine cluster.|Interacts with RPA194.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		AAAAAACCCATGAAAAATAAA	0.318													7	57					0	0	0.001984	0	0		C	103919311	C	C	103919311	3	2	127	1	0	0	0	0	1	0	0	0	10548	1464	51	3	871	3	NOLC1	10	103919311	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	11131	103919311	31615436	672	69752											
TCF7L2	6934	broad.mit.edu	37	chr10	114925566	114925566	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggccacccacaaggcctcCgccctctgtcccaacggggc	7	4	11	19	2	1	0	0	0	1	0	3	1	3	0	6	4	1	0	6	4	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:114925566C>T	uc001lae.3	+	14	2151	c.1644C>T	c.(1642-1644)TCC>TCT	p.S548S	TCF7L2_uc001lac.3_Silent_p.S542S|TCF7L2_uc010qrk.1_3'UTR|TCF7L2_uc010qrl.1_Silent_p.S525S|TCF7L2_uc010qrm.1_3'UTR|TCF7L2_uc010qrn.1_3'UTR|TCF7L2_uc001lad.3_3'UTR|TCF7L2_uc001lag.3_3'UTR|TCF7L2_uc001laf.3_Silent_p.S525S|TCF7L2_uc010qro.1_3'UTR|TCF7L2_uc001lah.2_3'UTR|TCF7L2_uc010qrp.1_3'UTR|TCF7L2_uc010qrq.1_3'UTR|TCF7L2_uc010qrr.1_Silent_p.S480S|TCF7L2_uc010qrs.1_Silent_p.S436S|TCF7L2_uc010qrt.1_Silent_p.S436S|TCF7L2_uc010qru.1_3'UTR|TCF7L2_uc010qrv.1_3'UTR|TCF7L2_uc010qrw.1_3'UTR|TCF7L2_uc010qrx.1_3'UTR	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	565					anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		ACAAGGCCTCCGCCCTCTGTC	0.672													25	96					0	0	0.005443	0	0		T	114925566	T	T	114925566	2	4	127	1	0	0	0	0	0	0	0	1	15723	639	23	1		1	TCF7L2	10	114925566	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	11006255	114925566	20609181	673	69753											
NRAP	4892	broad.mit.edu	37	chr10	115356939	115356939	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctggttttttacggtacTtggtctataagataaagaca	11	16	9	5	1	2	2	0	0	2	2	2	2	2	2	0	3	2	2	0	3	6	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:115356939T>C	uc001laj.2	-	37	4501	c.4337A>G	c.(4336-4338)AAG>AGG	p.K1446R	NRAP_uc009xyb.2_Missense_Mutation_p.K235R|NRAP_uc001lak.2_Missense_Mutation_p.K1411R|NRAP_uc001lal.3_Missense_Mutation_p.K1446R	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	1446	Nebulin 38.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		TTTACGGTACTTGGTCTATAA	0.448													29	102					0	0	0.00632	0	0		C	115356939	C	C	115356939	3	2	127	1	0	0	0	0	1	0	0	0	10657	1609	56	3	879	3	NRAP	10	115356939	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	431373	115356939	20177808	674	69754											
FAM160B1	57700	broad.mit.edu	37	chr10	116603678	116603678	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgttagatattgaaaccgTggaagcaattaactgggggt	12	11	12	6	2	0	2	0	1	0	1	1	3	1	3	2	3	3	2	2	3	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:116603678T>C	uc001lcb.2	+	7	1330	c.995T>C	c.(994-996)GTG>GCG	p.V332A	FAM160B1_uc001lcc.2_Missense_Mutation_p.V332A	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	332										lung(1)	1						ATTGAAACCGTGGAAGCAATT	0.423													18	111					0	0	0.012319	0	0		C	116603678	C	C	116603678	3	2	127	1	0	0	0	0	1	0	0	0	5481	1696	59	3	1021	3	FAM160B1	10	116603678	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1246739	116603678	18931069	675	69755											
FOXI2	399823	broad.mit.edu	37	chr10	129536818	129536818	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaccctggaccccaactgCgagaagatgtttgacaacgg	11	7	12	11	2	0	3	0	1	0	2	0	6	0	5	3	3	3	1	3	3	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:129536818C>T	uc009yas.2	+	2	546	c.546C>T	c.(544-546)TGC>TGT	p.C182C	uc009yar.1_5'Flank	NM_207426	NP_997309	Q6ZQN5	FOXI2_HUMAN	forkhead box I2	182	Fork-head.				epidermal cell fate specification|otic placode formation|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		all_epithelial(44;0.0021)|all_lung(145;0.0586)|Lung NSC(174;0.0765)|all_neural(114;0.201)|Glioma(114;0.222)				ACCCCAACTGCGAGAAGATGT	0.602													5	20					0	0	0.000602	0	0		T	129536818	T	T	129536818	2	4	127	1	0	0	0	0	0	0	0	1	6024	776	27	1		1	FOXI2	10	129536818	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	12933140	129536818	5997929	676	69756											
GPR123	84435	broad.mit.edu	37	chr10	134942261	134942261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccaccactgcgccaagcGtgaggacgtgtggcagtgct	8	7	13	13	3	0	1	0	1	0	0	1	2	1	2	3	2	3	2	3	2	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr10:134942261G>A	uc001llx.3	+	7	1365	c.929G>A	c.(928-930)CGT>CAT	p.R310H	GPR123_uc001llw.2_Missense_Mutation_p.R1029H	NM_001083909	NP_001077378	Q86SQ6	GP123_HUMAN	G protein-coupled receptor 123	310	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		TGCGCCAAGCGTGAGGACGTG	0.692													10	36					0	0	0.010729	0	0		A	134942261	A	A	134942261	3	1	127	1	0	0	0	0	1	0	0	0	6652	1145	40	1	951	1	GPR123	10	134942261	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5405443	134942261	592486	677	69757											
MUC6	4588	broad.mit.edu	37	chr11	1031986	1031986	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcacgtccccgagaagtcGtacacgtggtggtcgaaggt	8	9	14	10	5	0	1	0	0	0	1	3	3	1	1	2	3	2	2	2	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:1031986G>A	uc001lsw.2	-	3	234	c.183C>T	c.(181-183)TAC>TAT	p.Y61Y		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	61	VWFD 1.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCGAGAAGTCGTACACGTGGT	0.632													13	43					0	0	0.00245	0	0		A	1031986	A	A	1031986	2	1	127	1	0	0	0	0	0	0	0	1	9998	1140	40	1		1	MUC6	11	1031986	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08		1031986	133974530	678	69758											
MUC5B	727897	broad.mit.edu	37	chr11	1265996	1265996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccagggacggcacgcaCgcttccagtgtggatcagca	9	5	13	14	3	1	0	1	0	0	0	2	2	2	2	2	3	2	4	2	3	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:1265996C>T	uc009ycr.1	+	48	9926	c.9800C>T	c.(9799-9801)ACG>ATG	p.T3267M	MUC5B_uc001ltb.2_Missense_Mutation_p.T2632M	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2629	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.			Missing (in Ref. 6; AAB61398).|RTL -> LTP (in Ref. 4; CAA96577).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACGGCACGCACGCTTCCAGTG	0.642													10	106					0	0	0.001855	0	0		T	1265996	T	T	1265996	3	4	127	1	0	0	0	0	1	0	0	0	9997	536	19	1	8017	1	MUC5B	11	1265996	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	234010	1265996	133740520	679	69759											
MUC5B	727897	broad.mit.edu	37	chr11	1275928	1275928	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggattcccccagatccTgtttgaccaaattccggtga	8	11	8	14	1	0	3	0	2	0	1	3	4	3	4	6	2	0	1	6	2	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:1275928T>C	uc009ycr.1	+	57	16619	c.16493T>C	c.(16492-16494)CTG>CCG	p.L5498P	MUC5B_uc001ltb.2_Missense_Mutation_p.L5164P	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5161	VWFD 4.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCCCAGATCCTGTTTGACCAA	0.617													6	23					0	0	0.004482	0	0		C	1275928	C	C	1275928	3	2	127	1	0	0	0	0	1	0	0	0	9997	1580	55	3	15629	3	MUC5B	11	1275928	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	9932	1275928	133730588	680	69760											
MOB2	81532	broad.mit.edu	37	chr11	1491656	1491656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtagatgtgtgccagcaCgtggaacaggtgtctgcaga	10	8	14	9	1	1	2	0	0	1	2	1	3	1	3	2	2	4	3	2	2	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:1491656C>T	uc010qwz.1	-	5	743	c.553G>A	c.(553-555)GTG>ATG	p.V185M	MOB2_uc001lto.1_Missense_Mutation_p.V69M|MOB2_uc001ltp.1_Translation_Start_Site|MOB2_uc001ltq.1_Missense_Mutation_p.V148M|MOB2_uc010qwy.1_Missense_Mutation_p.V69M	NM_053005	NP_443731	Q70IA6	MOB2_HUMAN	HCCA2 protein	154						nucleus|perinuclear region of cytoplasm	metal ion binding				0						TGTGCCAGCACGTGGAACAGG	0.582													10	64					0	0	0.006214	0	0		T	1491656	T	T	1491656	3	4	127	1	0	0	0	0	1	0	0	0	9699	536	19	1	257	1	MOB2	11	1491656	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	215728	1491656	133514860	681	69761											
OR51E1	143503	broad.mit.edu	37	chr11	4674677	4674677	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcgacagcgcatccttcgActtttccatgtggccacaca	9	11	7	14	3	0	0	0	0	0	0	4	2	2	0	3	1	1	1	3	1	0	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:4674677A>T	uc001lzi.3	+	2	1065	c.921A>T	c.(919-921)CGA>CGT	p.R307R		NM_152430	NP_689643	Q8TCB6	O51E1_HUMAN	olfactory receptor, family 51, subfamily E,	306	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(3)|pancreas(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;7.37e-14)|GBM - Glioblastoma multiforme(2;2.85e-05)|BRCA - Breast invasive adenocarcinoma(625;0.00222)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCATCCTTCGACTTTTCCATG	0.453													22	125					0	0	0.00333	0	0		T	4674677	T	T	4674677	2	4	127	1	0	0	0	0	0	0	0	1	11113	262	10	5		5	OR51E1	11	4674677	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	3183021	4674677	130331839	682	69762											
OR51B5	282763	broad.mit.edu	37	chr11	5364052	5364052	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggagacacaggtaatgagagCcttggccctctcctctctgg	8	9	12	12	0	2	2	0	1	2	2	4	4	2	2	3	4	1	1	3	4	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:5364052C>G	uc001map.1	-	1	703	c.703G>C	c.(703-705)GCT>CCT	p.A235P	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_001005567	NP_001005567	Q9H339	O51B5_HUMAN	olfactory receptor, family 51, subfamily B,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.05e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTAATGAGAGCCTTGGCCCTC	0.433													14	95					0	0	0.014323	0	0		G	5364052	G	G	5364052	3	3	127	1	0	0	0	0	1	0	0	0	11110	739	26	5	239	5	OR51B5	11	5364052	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	689375	5364052	129642464	683	69763											
OR52H1	390067	broad.mit.edu	37	chr11	5565865	5565865	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttcactccgtaaaccatggGgttgagtgcaggtgggataa	10	10	13	8	1	1	1	1	1	0	0	2	2	2	2	2	4	2	3	2	4	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:5565865G>T	uc010qzh.1	-	1	889	c.889C>A	c.(889-891)CCC>ACC	p.P297T	HBG2_uc001mak.1_Intron	NM_001005289	NP_001005289	Q8NGJ2	O52H1_HUMAN	olfactory receptor, family 52, subfamily H,	297	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;5.33e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TAAACCATGGGGTTGAGTGCA	0.428													24	101					1.85244e-09	1.98556e-09	0.00333	1	0		T	5565865	T	T	5565865	3	4	127	1	0	0	0	0	1	0	0	0	11138	1232	43	5	76	5	OR52H1	11	5565865	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	201813	5565865	129440651	684	69764											
TRIM5	85363	broad.mit.edu	37	chr11	5701403	5701403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattaaccaggattccagaaGccatagtagctattccactg	13	10	7	11	0	0	1	0	0	0	1	2	2	2	2	4	1	3	2	4	1	5	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:5701403G>A	uc001mbm.1	-	2	262	c.5C>T	c.(4-6)GCT>GTT	p.A2V	TRIM5_uc001mbq.1_Missense_Mutation_p.A2V|TRIM5_uc001mbl.1_RNA|TRIM5_uc001mbn.2_Missense_Mutation_p.A2V|TRIM5_uc001mbo.2_Missense_Mutation_p.A2V|TRIM5_uc001mbp.2_Missense_Mutation_p.A2V	NM_033034	NP_149023	Q9C035	TRIM5_HUMAN	tripartite motif protein TRIM5 isoform alpha	2					interspecies interaction between organisms|protein trimerization|response to virus	cytoplasm|cytoplasmic mRNA processing body	ligase activity|protein binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)|Lung NSC(207;0.138)|all_lung(207;0.221)		Epithelial(150;7.21e-09)|BRCA - Breast invasive adenocarcinoma(625;0.139)		GATTCCAGAAGCCATAGTAGC	0.537													9	15					0	0	0.008291	0	0		A	5701403	A	A	5701403	3	1	127	1	0	0	0	0	1	0	0	0	16551	971	34	2	1743	2	TRIM5	11	5701403	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	135538	5701403	129305113	685	69765											
RRP8	23378	broad.mit.edu	37	chr11	6622259	6622259	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggcaatccccacagccgAagtcagccaccactagggat	12	4	10	15	2	1	0	1	0	0	0	2	2	2	1	5	2	3	1	5	2	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:6622259A>G	uc001med.2	-	4	1023	c.944T>C	c.(943-945)TTC>TCC	p.F315S	ILK_uc001mee.2_5'Flank|ILK_uc001mef.2_5'Flank|ILK_uc010rap.1_5'Flank|ILK_uc010raq.1_5'Flank|ILK_uc001meg.2_5'Flank|ILK_uc001meh.2_5'Flank	NM_015324	NP_056139	O43159	RRP8_HUMAN	ribosomal RNA processing 8, methyltransferase,	315					chromatin modification|chromatin silencing at rDNA|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	methylated histone residue binding|S-adenosylmethionine-dependent methyltransferase activity				0						CCCACAGCCGAAGTCAGCCAC	0.552													5	80					0	0	0.004482	0	0		G	6622259	G	G	6622259	3	3	127	1	0	0	0	0	1	0	0	0	13715	246	9	3	442	3	RRP8	11	6622259	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	920856	6622259	128384257	686	69766											
RBMXL2	27288	broad.mit.edu	37	chr11	7110454	7110454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcaagtatggccgcatcGtcgaggtgctcctgatgaaa	9	10	13	9	3	0	2	0	2	0	0	3	3	1	2	2	3	1	4	2	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:7110454G>A	uc001mfc.2	+	1	290	c.103G>A	c.(103-105)GTC>ATC	p.V35I		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	35	RRM.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TGGCCGCATCGTCGAGGTGCT	0.602													9	16					0	0	0.004482	0	0		A	7110454	A	A	7110454	3	1	127	1	0	0	0	0	1	0	0	0	13179	1145	40	1	105	1	RBMXL2	11	7110454	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	488195	7110454	127896062	687	69767											
RBMXL2	27288	broad.mit.edu	37	chr11	7111029	7111029	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcgagccgagactaccgCgaaccccggggttttgcccc	7	7	11	16	5	0	1	0	0	0	1	1	4	0	1	6	2	5	1	6	2	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:7111029C>T	uc001mfc.2	+	1	865	c.678C>T	c.(676-678)CGC>CGT	p.R226R		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	226	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GAGACTACCGCGAACCCCGGG	0.706													6	6					0	0	0.001168	0	0		T	7111029	T	T	7111029	2	4	127	1	0	0	0	0	0	0	0	1	13179	755	27	1		1	RBMXL2	11	7111029	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	575	7111029	127895487	688	69768											
SPON1	10418	broad.mit.edu	37	chr11	14284395	14284395	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgcccagagactgtgcagCgaaaaaagtgccgcatccga	12	5	11	13	3	0	1	0	0	0	1	1	4	1	1	4	0	4	2	4	0	3	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:14284395C>T	uc001mle.2	+	16	2672	c.2134C>T	c.(2134-2136)CGA>TGA	p.R712*		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	712	TSP type-1 5.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		GACTGTGCAGCGAAAAAAGTG	0.552													6	35					0	0	0.001168	0	0		T	14284395	T	T	14284395	4	4	127	1	0	0	0	0	0	1	0	0	15107	760	27	1	2191	1	SPON1	11	14284395	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7173366	14284395	120722121	689	69769											
PDE3B	5140	broad.mit.edu	37	chr11	14808053	14808053	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatatggtgtcagatcttcTgactgatccaagccttccac	10	12	7	12	0	3	3	1	2	2	1	5	3	5	3	3	1	1	0	3	1	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:14808053T>C	uc001mln.2	+	3	1453	c.1100T>C	c.(1099-1101)CTG>CCG	p.L367P	PDE3B_uc010rcr.1_Missense_Mutation_p.L367P	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	367					cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						TCAGATCTTCTGACTGATCCA	0.408													39	167					0	0	0.005524	0	0		C	14808053	C	C	14808053	3	2	127	1	0	0	0	0	1	0	0	0	11657	1580	55	3	1110	3	PDE3B	11	14808053	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	523658	14808053	120198463	690	69770											
MYOD1	4654	broad.mit.edu	37	chr11	17741405	17741405	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctctgctcctttgccacaAcggacgacttctatgacgac	8	11	7	15	3	2	1	0	1	2	0	4	4	3	2	2	1	3	1	2	1	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:17741405A>G	uc001mni.2	+	1	296	c.76A>G	c.(76-78)ACG>GCG	p.T26A		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	26					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						CTTTGCCACAACGGACGACTT	0.657													11	79					0	0	0.001855	0	0		G	17741405	G	G	17741405	3	3	127	1	0	0	0	0	1	0	0	0	10106	43	2	3	78	3	MYOD1	11	17741405	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2933352	17741405	117265111	691	69771											
ANO3	63982	broad.mit.edu	37	chr11	26563573	26563573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attatatgagcgctgggcacGctggggaatgtggtataagc	10	10	15	6	2	0	1	0	1	0	0	0	2	0	2	0	4	2	4	0	4	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:26563573G>A	uc001mqt.3	+	11	1257	c.1112G>A	c.(1111-1113)CGC>CAC	p.R371H	ANO3_uc010rdr.1_Missense_Mutation_p.R355H|ANO3_uc010rds.1_Missense_Mutation_p.R210H|ANO3_uc010rdt.1_Missense_Mutation_p.R225H	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	371	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CGCTGGGCACGCTGGGGAATG	0.408													17	60					0	0	0.00499	0	0		A	26563573	A	A	26563573	3	1	127	1	0	0	0	0	1	0	0	0	698	1087	38	1	1154	1	ANO3	11	26563573	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	8822168	26563573	108442943	692	69772											
ELF5	2001	broad.mit.edu	37	chr11	34515034	34515034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaacactgaccttgtgtgCggatgttctggaggatgaag	9	11	14	7	1	1	3	0	3	1	0	1	6	1	6	1	3	2	1	1	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:34515034C>T	uc001mvo.1	-	3	607	c.377G>A	c.(376-378)CGC>CAC	p.R126H	ELF5_uc001mvp.1_Missense_Mutation_p.R116H|ELF5_uc009ykd.1_Intron|ELF5_uc001mvq.1_Missense_Mutation_p.R116H	NM_198381	NP_938195	Q9UKW6	ELF5_HUMAN	E74-like factor 5 ESE-2a	126	PNT.				cell proliferation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.0087)|all_hematologic(20;0.0384)				ACCTTGTGTGCGGATGTTCTG	0.552											OREG0020879	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	16					0	0	0.001984	0	0		T	34515034	T	T	34515034	3	4	127	1	0	0	0	0	1	0	0	0	5065	768	27	1	440	1	ELF5	11	34515034	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7951461	34515034	100491482	693	69773											
ACCSL	390110	broad.mit.edu	37	chr11	44069845	44069845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcctacagtctggggccGcgagtggcctggagctccaa	7	7	13	14	2	1	0	0	0	1	0	3	2	3	1	5	4	2	1	5	4	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:44069845G>A	uc001mxw.1	+	1	315	c.259G>A	c.(259-261)GCG>ACG	p.A87T	ACCSL_uc009ykr.2_5'UTR	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	87							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						GTCTGGGGCCGCGAGTGGCCT	0.577													29	147					0	0	0.009535	0	0		A	44069845	A	A	44069845	3	1	127	1	0	0	0	0	1	0	0	0	134	1087	38	1	261	1	ACCSL	11	44069845	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	9554811	44069845	90936671	694	69774											
ALX4	60529	broad.mit.edu	37	chr11	44331611	44331611	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgcaagtctcagcattcAtgcctggcttgcgcaggcgg	8	8	13	12	3	2	1	2	0	1	1	3	1	2	1	1	3	3	4	1	3	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:44331611A>G	uc001myb.2	-	1	106	c.2T>C	c.(1-3)ATG>ACG	p.M1T		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	1					hair follicle development						0						CTCAGCATTCATGCCTGGCTT	0.697													3	9					0	0	0.009096	0	0		G	44331611	G	G	44331611	3	3	127	1	0	0	0	0	1	0	0	0	558	217	8	3	1249	3	ALX4	11	44331611	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	261766	44331611	90674905	695	69775											
SLC35C1	55343	broad.mit.edu	37	chr11	45832397	45832397	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgggcaccgtcttcggCgtgctggctagcctctgtgt	2	12	15	12	3	2	0	0	0	2	0	3	0	2	0	2	4	2	4	2	4	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:45832397C>T	uc001nbp.2	+	2	1318	c.606C>T	c.(604-606)GGC>GGT	p.G202G	SLC35C1_uc001nbo.2_Silent_p.G189G|SLC35C1_uc010rgm.1_Silent_p.G189G	NM_018389	NP_060859	Q96A29	FUCT1_HUMAN	GDP-fucose transporter 1 isoform a	202	Helical; (Potential).					Golgi membrane|integral to membrane	GDP-fucose transmembrane transporter activity				0				GBM - Glioblastoma multiforme(35;0.227)		CCGTCTTCGGCGTGCTGGCTA	0.572													5	16					0	0	0.006214	0	0		T	45832397	T	T	45832397	2	4	127	1	0	0	0	0	0	0	0	1	14604	755	27	1		1	SLC35C1	11	45832397	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1500786	45832397	89174119	696	69776											
MTCH2	23788	broad.mit.edu	37	chr11	47660521	47660521	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaatcaaaggcacttaccaTaactaaagagaccaggaagc	19	6	7	9	0	1	1	1	0	0	1	1	3	1	2	2	2	3	1	2	2	8	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:47660521T>C	uc010rho.1	-	2	359	c.170A>G	c.(169-171)TAT>TGT	p.Y57C	MTCH2_uc001nge.2_5'UTR|MTCH2_uc010rhp.1_5'UTR	NM_014342	NP_055157	Q9Y6C9	MTCH2_HUMAN	mitochondrial carrier 2	57	Solcar 1.				transport	integral to membrane|mitochondrial inner membrane					0						GCACTTACCATAACTAAAGAG	0.388													15	92					0	0	0.004007	0	0		C	47660521	C	C	47660521	3	2	127	1	0	0	0	0	1	0	0	0	9932	1406	49	3	789	3	MTCH2	11	47660521	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1828124	47660521	87345995	697	69777											
OR4C15	81309	broad.mit.edu	37	chr11	55322161	55322161	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcctggatgcgtgcttcTcatctgtcatcaccccaaag	7	12	7	15	1	4	0	3	0	2	0	6	1	5	1	4	1	2	1	4	1	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:55322161T>A	uc010rig.1	+	1	379	c.379T>A	c.(379-381)TCA>ACA	p.S127T		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	73	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGCGTGCTTCTCATCTGTCAT	0.458										HNSCC(20;0.049)			59	233					0	0	0.01441	0	0		A	55322161	A	A	55322161	3	1	127	1	0	0	0	0	1	0	0	0	11067	1551	54	5	381	5	OR4C15	11	55322161	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	7661640	55322161	79684355	698	69778											
OR5D16	390144	broad.mit.edu	37	chr11	55606335	55606335	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttgtatttctggcagtCtacggcttcagtgtggtagg	5	17	12	7	1	4	0	1	0	3	0	4	0	4	0	0	4	1	4	0	4	3	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:55606335C>A	uc010rio.1	+	1	108	c.108C>A	c.(106-108)GTC>GTA	p.V36V		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				TTCTGGCAGTCTACGGCTTCA	0.438													41	176					5.73435e-26	6.50566e-26	0.01441	1	0		A	55606335	A	A	55606335	2	1	127	1	0	0	0	0	0	0	0	1	11175	900	32	5		5	OR5D16	11	55606335	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	284174	55606335	79400181	699	69779											
OR5T2	219464	broad.mit.edu	37	chr11	56000059	56000059	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaaggataggctaaatgtAgccactgtatgtatagtagc	14	10	11	6	0	0	1	0	0	0	1	0	2	0	2	1	2	2	5	1	2	9	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:56000059A>G	uc010rjc.1	-	1	603	c.603T>C	c.(601-603)GCT>GCC	p.A201A		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	201	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GGCTAAATGTAGCCACTGTAT	0.433													58	167					0	0	0.01441	0	0		G	56000059	G	G	56000059	2	3	127	1	0	0	0	0	0	0	0	1	11201	407	15	3		3	OR5T2	11	56000059	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	393724	56000059	79006457	700	69780											
PRG2	5553	broad.mit.edu	37	chr11	57156097	57156097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttgaccctggttgagcgCgctgacagaacactggattc	9	9	12	11	2	0	4	0	3	0	1	1	6	0	5	1	2	2	2	1	2	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:57156097C>T	uc001njz.2	-	3	478	c.451G>A	c.(451-453)GCG>ACG	p.A151T	PRG2_uc001njw.1_RNA|PRG2_uc001njx.1_RNA|PRG2_uc001njy.1_RNA|PRG2_uc001nka.2_Missense_Mutation_p.A151T|PRG2_uc001nkb.2_Missense_Mutation_p.A151T|PRG2_uc001nkd.2_Missense_Mutation_p.A140T|PRG2_uc001nkc.2_Missense_Mutation_p.A151T|PRG2_uc001nke.2_Missense_Mutation_p.A431T	NM_002728	NP_002719	P13727	PRG2_HUMAN	proteoglycan 2 preproprotein	151	C-type lectin.				defense response to bacterium|immune response	extracellular region|transport vesicle	heparin binding|sugar binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Sargramostim(DB00020)	TGGTTGAGCGCGCTGACAGAA	0.507													74	266					0	0	0.01441	0	0		T	57156097	T	T	57156097	3	4	127	1	0	0	0	0	1	0	0	0	12501	768	27	1	229	1	PRG2	11	57156097	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1156038	57156097	77850419	701	69781											
CTNND1	1500	broad.mit.edu	37	chr11	57569578	57569578	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggacgtgaccaggataacAagattgccataaaaaactgt	16	9	9	7	1	0	2	0	1	0	1	0	4	0	4	2	2	3	0	2	2	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:57569578A>T	uc001nmc.3	+	7	1901	c.1330A>T	c.(1330-1332)AAG>TAG	p.K444*	CTNND1_uc001nlh.1_Nonsense_Mutation_p.K444*|CTNND1_uc001nlu.3_Nonsense_Mutation_p.K343*|CTNND1_uc001nlt.3_Nonsense_Mutation_p.K343*|CTNND1_uc001nls.3_Nonsense_Mutation_p.K343*|CTNND1_uc001nlw.3_Nonsense_Mutation_p.K343*|CTNND1_uc001nmf.3_Nonsense_Mutation_p.K444*|CTNND1_uc001nmd.3_Nonsense_Mutation_p.K390*|CTNND1_uc001nlk.3_Nonsense_Mutation_p.K390*|CTNND1_uc001nme.3_Nonsense_Mutation_p.K444*|CTNND1_uc001nll.3_Nonsense_Mutation_p.K390*|CTNND1_uc001nmg.3_Nonsense_Mutation_p.K390*|CTNND1_uc001nlj.3_Nonsense_Mutation_p.K390*|CTNND1_uc001nlr.3_Nonsense_Mutation_p.K390*|CTNND1_uc001nlp.3_Nonsense_Mutation_p.K390*|CTNND1_uc001nlx.3_Nonsense_Mutation_p.K121*|CTNND1_uc001nlz.3_Nonsense_Mutation_p.K121*|CTNND1_uc009ymn.2_Nonsense_Mutation_p.K121*|CTNND1_uc001nlm.3_Nonsense_Mutation_p.K444*|CTNND1_uc001nly.3_Nonsense_Mutation_p.K121*|CTNND1_uc001nmb.3_Nonsense_Mutation_p.K121*|CTNND1_uc001nma.3_Nonsense_Mutation_p.K121*|CTNND1_uc001nmi.3_Nonsense_Mutation_p.K343*|CTNND1_uc001nmh.3_Nonsense_Mutation_p.K444*|CTNND1_uc001nlq.3_Nonsense_Mutation_p.K343*|CTNND1_uc001nln.3_Nonsense_Mutation_p.K444*|CTNND1_uc001nli.3_Nonsense_Mutation_p.K444*|CTNND1_uc001nlo.3_Nonsense_Mutation_p.K343*|CTNND1_uc001nlv.3_Nonsense_Mutation_p.K343*	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	444	ARM 3.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				CCAGGATAACAAGATTGCCAT	0.468													84	334					0	0	0.01441	0	0		T	57569578	T	T	57569578	4	4	127	1	0	0	0	0	0	1	0	0	4022	131	5	5	1348	5	CTNND1	11	57569578	Nonsense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	413481	57569578	77436938	702	69782											
FAM111A	63901	broad.mit.edu	37	chr11	58920618	58920618	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgatccctcagggtcagCgagcaaagaaatgtcaggaa	13	7	12	9	1	3	2	3	1	0	1	4	4	4	3	1	2	2	1	1	2	3	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:58920618C>T	uc010rkp.1	+	5	1704	c.1477C>T	c.(1477-1479)CGA>TGA	p.R493*	FAM111A_uc010rkq.1_Nonsense_Mutation_p.R493*|FAM111A_uc010rkr.1_Nonsense_Mutation_p.R493*|FAM111A_uc001nno.2_Nonsense_Mutation_p.R493*|FAM111A_uc001nnp.2_Nonsense_Mutation_p.R493*|FAM111A_uc001nnq.2_Nonsense_Mutation_p.R493*	NM_001142521	NP_001135993	Q96PZ2	F111A_HUMAN	hypothetical protein LOC63901	493					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_epithelial(135;0.139)				TCAGGGTCAGCGAGCAAAGAA	0.398													18	119					0	0	0.007413	0	0		T	58920618	T	T	58920618	4	4	127	1	0	0	0	0	0	1	0	0	5410	760	27	1	1483	1	FAM111A	11	58920618	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1351040	58920618	76085898	703	69783											
SLC22A6	9356	broad.mit.edu	37	chr11	62744860	62744860	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattcccatgcctgtctgcCtgcagggcccgcagcagatg	6	8	11	16	1	1	1	0	0	1	1	2	1	2	1	5	1	4	3	5	1	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:62744860C>A	uc001nwk.2	-	9	1669	c.1362_splice	c.e9-1	p.R454_splice	SLC22A6_uc001nwl.2_Intron|SLC22A6_uc001nwj.2_Splice_Site_p.R454_splice|SLC22A6_uc001nwm.2_Intron	NM_004790	NP_004781	Q4U2R8	S22A6_HUMAN	solute carrier family 22 member 6 isoform a						alpha-ketoglutarate transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|protein binding				0						GCCTGTCTGCCTGCAGGGCCC	0.627													4	18					0.00909568	0.00921271	0.009096	1	0		A	62744860	A	A	62744860	5	1	127	1	0	0	0	0	0	0	1	0	14483	695	24	5	338	5	SLC22A6	11	62744860	Splice_Site	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3824242	62744860	72261656	704	69784											
SLC22A10	387775	broad.mit.edu	37	chr11	63069976	63069976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agatattgttcatgttcctgGtgggcctttccattttggcc	5	17	10	9	0	1	1	1	0	0	1	3	1	3	1	4	3	0	2	4	3	1	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:63069976G>A	uc009yor.2	+	7	1454	c.1246G>A	c.(1246-1248)GTG>ATG	p.V416M	SLC22A10_uc010rmo.1_Intron|SLC22A10_uc001nwu.3_Intron|SLC22A10_uc010rmp.1_Intron	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	416	Helical; (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						CATGTTCCTGGTGGGCCTTTC	0.443													21	71					0	0	0.010504	0	0		A	63069976	A	A	63069976	3	1	127	1	0	0	0	0	1	0	0	0	14466	1261	44	4	1272	4	SLC22A10	11	63069976	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	325116	63069976	71936540	705	69785											
MARK2	2011	broad.mit.edu	37	chr11	63670254	63670254	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaccccaaccccctccacGgtgagccgcaccccccgctc	7	3	6	25	3	0	1	0	1	0	0	2	1	1	1	10	1	2	2	10	1	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:63670254G>A	uc001nxw.2	+	13	1995	c.1416G>A	c.(1414-1416)ACG>ACA	p.T472T	MARK2_uc001nxx.2_Silent_p.T472T|MARK2_uc001nxy.2_Silent_p.T471T|MARK2_uc001nxv.3_Silent_p.T471T|MARK2_uc001nxz.3_Silent_p.T438T|MARK2_uc009yoy.2_Silent_p.T438T	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	472					cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						CCCCCTCCACGGTGAGCCGCA	0.642													3	30					0	0	0.000602	0	0		A	63670254	A	A	63670254	2	1	127	1	0	0	0	0	0	0	0	1	9331	1130	39	1		1	MARK2	11	63670254	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	600278	63670254	71336262	706	69786											
GPR137	56834	broad.mit.edu	37	chr11	64055863	64055863	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacctggtatttggcctcAtcctcttcgtgtgggagcta	5	14	11	11	1	2	0	1	0	1	0	4	1	3	1	3	3	2	3	3	3	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:64055863A>G	uc001nzg.1	+	6	1143	c.835A>G	c.(835-837)ATC>GTC	p.I279V	GPR137_uc010rni.1_Missense_Mutation_p.I337V|GPR137_uc001nzf.2_Missense_Mutation_p.I229V|GPR137_uc001nzi.2_Missense_Mutation_p.I279V|GPR137_uc010rnj.1_Missense_Mutation_p.I279V|KCNK4_uc009ypl.1_5'Flank|KCNK4_uc001nzj.1_5'Flank|KCNK4_uc001nzk.1_5'Flank|KCNK4_uc010rnk.1_5'Flank	NM_020155	NP_064540	Q96N19	G137A_HUMAN	G protein-coupled receptor 137	279	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						ATTTGGCCTCATCCTCTTCGT	0.627													47	204					0	0	0.01441	0	0		G	64055863	G	G	64055863	3	3	127	1	0	0	0	0	1	0	0	0	6660	217	8	3	1035	3	GPR137	11	64055863	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	385609	64055863	70950653	707	69787											
CLCF1	23529	broad.mit.edu	37	chr11	67133087	67133087	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctggctcgttgaaagggggGcccaggtagttcagctgtga	7	10	16	8	1	2	2	1	2	1	0	3	2	2	2	1	5	1	5	1	5	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:67133087G>A	uc001okq.2	-	3	394	c.198C>T	c.(196-198)GGC>GGT	p.G66G	LOC100130987_uc010rpo.1_Intron|CLCF1_uc010rpp.1_Silent_p.G56G	NM_013246	NP_037378	Q9UBD9	CLCF1_HUMAN	cardiotrophin-like cytokine factor 1 precursor	66					B cell differentiation|cytokine-mediated signaling pathway|JAK-STAT cascade|negative regulation of neuron apoptosis|positive regulation of astrocyte differentiation|positive regulation of B cell proliferation|positive regulation of immunoglobulin production|positive regulation of isotype switching to IgE isotypes|positive regulation of tyrosine phosphorylation of Stat3 protein	extracellular space	ciliary neurotrophic factor receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity				0			BRCA - Breast invasive adenocarcinoma(15;2.39e-06)			TGAAAGGGGGGCCCAGGTAGT	0.592													25	109					0	0	0.003954	0	0		A	67133087	A	A	67133087	2	1	127	1	0	0	0	0	0	0	0	1	3464	1190	42	2		2	CLCF1	11	67133087	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3077224	67133087	67873429	708	69788											
MTL5	9633	broad.mit.edu	37	chr11	68480770	68480770	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtaattcttcaggcagcCtgacctcctgcagttgcacc	8	10	9	14	0	2	1	1	1	1	0	3	1	3	1	4	1	3	6	4	1	1	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:68480770C>A	uc001ooc.2	-	8	1266	c.1126G>T	c.(1126-1128)GGC>TGC	p.G376C		NM_004923	NP_004914	Q9Y4I5	MTL5_HUMAN	metallothionein-like 5, testis-specific isoform	376	CXC 2.				cell differentiation|cellular metal ion homeostasis|multicellular organismal development|response to metal ion|spermatogenesis	cytoplasm|nucleus|soluble fraction	metal ion binding			ovary(2)|breast(1)	3	Esophageal squamous(3;4.37e-12)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.185)			TTCAGGCAGCCTGACCTCCTG	0.463													67	281					3.77215e-22	4.26247e-22	0.01441	1	0		A	68480770	A	A	68480770	3	1	127	1	0	0	0	0	1	0	0	0	9954	681	24	5	412	5	MTL5	11	68480770	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1347683	68480770	66525746	709	69789											
CTTN	2017	broad.mit.edu	37	chr11	70277339	70277339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacgccccctgtgtcgcccGcacctcagccaaccgaggag	9	4	10	18	4	1	0	1	0	0	0	2	2	1	1	6	1	3	1	6	1	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:70277339G>A	uc001opv.3	+	15	1425	c.1219G>A	c.(1219-1221)GCA>ACA	p.A407T	CTTN_uc001opu.2_Missense_Mutation_p.A370T|CTTN_uc001opw.3_Missense_Mutation_p.A370T|CTTN_uc010rqm.1_Missense_Mutation_p.A91T|CTTN_uc001opx.2_Missense_Mutation_p.A91T	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	407						cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		TGTGTCGCCCGCACCTCAGCC	0.562													24	138					0	0	0.007291	0	0		A	70277339	A	A	70277339	3	1	127	1	0	0	0	0	1	0	0	0	4047	1087	38	1	1269	1	CTTN	11	70277339	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1796569	70277339	64729177	710	69790											
DHCR7	1717	broad.mit.edu	37	chr11	71146556	71146556	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atggccatgtagatgatgtaGaagtagggcagcaggtggcc	11	8	16	6	0	0	3	0	1	0	2	0	3	0	3	2	4	1	5	2	4	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:71146556G>C	uc001oqk.2	-	9	1543	c.1293C>G	c.(1291-1293)TTC>TTG	p.F431L	DHCR7_uc001oql.2_Missense_Mutation_p.F431L	NM_001163817	NP_001157289	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	431	Helical; (Potential).				cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|nuclear outer membrane	7-dehydrocholesterol reductase activity|protein binding			ovary(1)|liver(1)	2					NADH(DB00157)	AGATGATGTAGAAGTAGGGCA	0.682									Smith-Lemli-Opitz_syndrome				7	27					0	0	0.004482	0	0		C	71146556	C	C	71146556	3	2	127	1	0	0	0	0	1	0	0	0	4483	933	33	5	138	5	DHCR7	11	71146556	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	869217	71146556	63859960	711	69791											
KRTAP5-7	440050	broad.mit.edu	37	chr11	71238367	71238367	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggctgctgtggctgttcCgaaggctgtggctccggctg	3	11	17	10	2	0	0	0	0	0	0	2	1	2	0	2	5	1	7	2	5	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:71238367C>T	uc001oqq.1	+	1	55	c.21C>T	c.(19-21)TCC>TCT	p.S7S		NM_001012503	NP_001012521	Q6L8G8	KRA57_HUMAN	keratin associated protein 5-7	7						keratin filament					0						GTGGCTGTTCCGAAGGCTGTG	0.677													48	113					0	0	0.01441	0	0		T	71238367	T	T	71238367	2	4	127	1	0	0	0	0	0	0	0	1	8582	639	23	1		1	KRTAP5-7	11	71238367	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	91811	71238367	63768149	712	69792											
C11orf51	25906	broad.mit.edu	37	chr11	71821194	71821194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcatctcgtccatgtcctgCatatcctcatcatcctctga	7	15	4	15	1	5	1	3	1	2	0	10	1	9	1	4	0	1	1	4	0	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:71821194C>T	uc001orw.2	-	5	480	c.258G>A	c.(256-258)ATG>ATA	p.M86I	LRTOMT_uc010rqv.1_3'UTR|LRTOMT_uc010rqw.1_3'UTR|LRTOMT_uc001ors.3_3'UTR|C11orf51_uc009ytc.1_Missense_Mutation_p.M77I|C11orf51_uc001orv.2_Missense_Mutation_p.M86I	NM_014042	NP_054761	P60006	CK051_HUMAN	hypothetical protein LOC25906	86	Asp-rich.					intracellular					0						CCATGTCCTGCATatcctcat	0.363													47	202					0	0	0.013114	0	0		T	71821194	T	T	71821194	3	4	127	1	0	0	0	0	1	0	0	0	1649	710	25	2	115	2	C11orf51	11	71821194	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	582827	71821194	63185322	713	69793											
INPPL1	3636	broad.mit.edu	37	chr11	71939414	71939414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcagggtgtgcctgtgcGccgcttccagaccctgggtg	3	9	15	14	3	0	1	0	0	0	1	2	1	1	1	4	2	2	2	4	2	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:71939414G>A	uc001osf.2	+	3	416	c.269G>A	c.(268-270)CGC>CAC	p.R90H	INPPL1_uc001osg.2_5'UTR	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	90	SH2.				actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						GTGCCTGTGCGCCGCTTCCAG	0.662													21	64					0	0	0.010504	0	0		A	71939414	A	A	71939414	3	1	127	1	0	0	0	0	1	0	0	0	7777	1087	38	1	279	1	INPPL1	11	71939414	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	118220	71939414	63067102	714	69794											
P2RY6	5031	broad.mit.edu	37	chr11	73008445	73008445	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtttgccagtgccaacagCgtgctggaccccatcctctt	6	10	9	16	2	1	0	0	0	1	0	2	1	2	1	6	1	5	2	6	1	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:73008445C>T	uc001otm.2	+	4	1287	c.882C>T	c.(880-882)AGC>AGT	p.S294S	P2RY6_uc001otn.2_Silent_p.S294S|P2RY6_uc001oto.2_Silent_p.S294S|P2RY6_uc001otp.2_Silent_p.S294S|P2RY6_uc001otq.2_Silent_p.S294S|P2RY6_uc001otr.2_Silent_p.S294S|P2RY6_uc001ots.2_Silent_p.S294S	NM_176796	NP_789766	Q15077	P2RY6_HUMAN	pyrimidinergic receptor P2Y6	294	Helical; Name=7; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1						GTGCCAACAGCGTGCTGGACC	0.617													21	78					0	0	0.008871	0	0		T	73008445	T	T	73008445	2	4	127	1	0	0	0	0	0	0	0	1	11373	767	27	1		1	P2RY6	11	73008445	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1069031	73008445	61998071	715	69795											
OMP	4975	broad.mit.edu	37	chr11	76814096	76814096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcgagcgctggaatgtcGtgctggacaagccgggcaag	9	7	16	9	4	0	0	0	0	0	0	2	3	0	2	1	3	3	4	1	3	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:76814096G>A	uc010rsk.1	+	1	211	c.211G>A	c.(211-213)GTG>ATG	p.V71M	CAPN5_uc001oxx.2_Intron|CAPN5_uc009yup.2_Intron|CAPN5_uc009yuq.2_Intron|CAPN5_uc001oxy.2_Intron	NM_006189	NP_006180	P47874	OMP_HUMAN	olfactory marker protein	71					sensory perception of smell|synaptic transmission						0						CTGGAATGTCGTGCTGGACAA	0.627													6	24					0	0	0.001168	0	0		A	76814096	A	A	76814096	3	1	127	1	0	0	0	0	1	0	0	0	10886	1145	40	1	213	1	OMP	11	76814096	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3805651	76814096	58192420	716	69796											
RSF1	51773	broad.mit.edu	37	chr11	77386206	77386206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggggtgtcgcctcagtctaCggctacaaaagtcagtgtca	10	9	12	10	2	4	0	3	0	1	0	5	0	4	0	1	3	2	1	1	3	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:77386206C>T	uc001oyn.2	-	14	3557	c.3437G>A	c.(3436-3438)CGT>CAT	p.R1146H	RSF1_uc001oym.2_Missense_Mutation_p.R894H	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	1146	Arg-rich.				CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			CCTCAGTCTACGGCTACAAAA	0.463													31	73					0	0	0.003755	0	0		T	77386206	T	T	77386206	3	4	127	1	0	0	0	0	1	0	0	0	13724	536	19	1	900	1	RSF1	11	77386206	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	572110	77386206	57620310	717	69797											
RSF1	51773	broad.mit.edu	37	chr11	77389135	77389135	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgacaaacacatacctccTccatcggcttctttgatgtc	11	11	5	14	2	1	1	0	1	1	0	5	2	3	1	3	1	3	1	3	1	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:77389135T>C	uc001oyn.2	-	12	3249	c.3129A>G	c.(3127-3129)GGA>GGG	p.G1043G	RSF1_uc001oym.2_Silent_p.G791G	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	1043					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			ACATACCTCCTCCATCGGCTT	0.378													43	165					0	0	0.01441	0	0		C	77389135	C	C	77389135	2	2	127	1	0	0	0	0	0	0	0	1	13724	1538	54	3		3	RSF1	11	77389135	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2929	77389135	57617381	718	69798											
PCF11	51585	broad.mit.edu	37	chr11	82877337	82877337	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataacagaagagtcagaaaaAcaggggacaaaaccagggag	21	2	12	6	0	1	3	1	0	0	3	1	5	1	5	1	3	3	0	1	3	6	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:82877337A>C	uc001ozx.3	+	5	1743	c.1398A>C	c.(1396-1398)AAA>AAC	p.K466N	PCF11_uc010rsu.1_Missense_Mutation_p.K466N	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	466					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						AGTCAGAAAAACAGGGGACAA	0.403													7	13					0	0	0.001984	0	0		C	82877337	C	C	82877337	3	2	127	1	0	0	0	0	1	0	0	0	11592	40	2	5	1416	5	PCF11	11	82877337	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5488202	82877337	52129179	719	69799											
DLG2	1740	broad.mit.edu	37	chr11	83874553	83874553	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaatttctgtcccattgAcctgtaaatagggaaaaaat	15	13	6	7	0	2	1	1	1	1	0	3	2	3	2	2	1	0	1	2	1	7	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:83874553A>G	uc001paj.2	-	4	563	c.260T>C	c.(259-261)GTC>GCC	p.V87A	DLG2_uc001pai.2_Missense_Mutation_p.V36A|DLG2_uc010rsy.1_Missense_Mutation_p.V54A|DLG2_uc010rsz.1_Missense_Mutation_p.V87A|DLG2_uc010rta.1_Missense_Mutation_p.V87A|DLG2_uc001pak.2_Missense_Mutation_p.V192A|DLG2_uc010rtb.1_Missense_Mutation_p.V54A|DLG2_uc001pal.1_Missense_Mutation_p.V87A|DLG2_uc001pam.1_Missense_Mutation_p.V126A	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	87						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				TGTCCCATTGACCTGTAAATA	0.328													8	50					0	0	0.008291	0	0		G	83874553	G	G	83874553	3	3	127	1	0	0	0	0	1	0	0	0	4561	289	10	3	2482	3	DLG2	11	83874553	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	997216	83874553	51131963	720	69800											
FZD4	8322	broad.mit.edu	37	chr11	86663160	86663160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgaactccttggctgagCggctgtataagccagcatca	10	9	11	11	1	1	2	1	2	0	0	2	2	2	2	2	2	4	4	2	2	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:86663160C>T	uc001pce.2	-	2	944	c.638G>A	c.(637-639)CGC>CAC	p.R213H	PRSS23_uc001pcc.1_RNA	NM_012193	NP_036325	Q9ULV1	FZD4_HUMAN	frizzled 4 precursor	213	Extracellular (Potential).				canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|negative regulation of cell-substrate adhesion|neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|progesterone secretion|regulation of vascular endothelial growth factor receptor signaling pathway|substrate adhesion-dependent cell spreading|vasculogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cell projection|cell surface|cytoplasm	cytokine binding|G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			large_intestine(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CTTGGCTGAGCGGCTGTATAA	0.502													9	45					0	0	0.006214	0	0		T	86663160	T	T	86663160	3	4	127	1	0	0	0	0	1	0	0	0	6146	768	27	1	979	1	FZD4	11	86663160	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2788607	86663160	48343356	721	69801											
TRIM49	57093	broad.mit.edu	37	chr11	89537602	89537602	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcacagggggcagatgagTtccccctgaaagacctgtaa	12	7	12	10	0	0	4	0	2	0	2	1	4	1	4	3	2	1	4	3	2	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:89537602T>G	uc001pdb.2	-	3	365	c.36A>C	c.(34-36)GAA>GAC	p.E12D		NM_020358	NP_065091	P0CI25	TRI49_HUMAN	ring finger protein 18	12						intracellular	zinc ion binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				GGCAGATGAGTTCCCCCTGAA	0.463													15	66					0	0	0.005443	0	0		G	89537602	G	G	89537602	3	3	127	1	0	0	0	0	1	0	0	0	16550	1722	60	5	1346	5	TRIM49	11	89537602	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2874442	89537602	45468914	722	69802											
FAT3	120114	broad.mit.edu	37	chr11	92086520	92086520	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatacaaattatctcctggTgaggatgcagtgtactttaa	13	13	9	6	0	1	1	0	1	1	0	2	3	1	2	1	2	3	2	1	2	6	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:92086520T>C	uc001pdj.3	+	1	1259	c.1242T>C	c.(1240-1242)GGT>GGC	p.G414G		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	414	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TATCTCCTGGTGAGGATGCAG	0.418										TCGA Ovarian(4;0.039)			10	39					0	0	0.006214	0	0		C	92086520	C	C	92086520	2	2	127	1	0	0	0	0	0	0	0	1	5705	1683	59	3		3	FAT3	11	92086520	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2548918	92086520	42919996	723	69803											
DYNC2H1	79659	broad.mit.edu	37	chr11	103091455	103091455	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgtaattagagatattcTtgaaggagttttaaggttga	13	16	11	1	0	1	4	0	3	1	1	1	6	1	5	0	2	0	3	0	2	5	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:103091455T>G	uc001pho.2	+	57	9194	c.9050T>G	c.(9049-9051)CTT>CGT	p.L3017R	DYNC2H1_uc001phn.1_Missense_Mutation_p.L3017R|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3017	Stalk (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AGAGATATTCTTGAAGGAGTT	0.353													4	70					0	0	0.009096	0	0		G	103091455	G	G	103091455	3	3	127	1	0	0	0	0	1	0	0	0	4852	1609	56	5	9276	5	DYNC2H1	11	103091455	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	11004935	103091455	31915061	724	69804											
DDI1	414301	broad.mit.edu	37	chr11	103907607	103907607	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tccgaggtcaccttctctctCcaggtcagccccgactttga	6	11	8	16	2	4	1	2	1	2	0	7	3	5	1	5	2	1	0	5	2	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:103907607C>G	uc001phr.2	+	1	300	c.57C>G	c.(55-57)CTC>CTG	p.L19L	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	19	Ubiquitin-like.				proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		CCTTCTCTCTCCAGGTCAGCC	0.527													34	179					0	0	0.003755	0	0		G	103907607	G	G	103907607	2	3	127	1	0	0	0	0	0	0	0	1	4331	842	30	5		5	DDI1	11	103907607	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	816152	103907607	31098909	725	69805											
EXPH5	23086	broad.mit.edu	37	chr11	108385274	108385274	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcctgctgtcaaaacacagCgaagtactgccaaaagtatt	14	9	8	10	1	1	0	1	0	0	0	1	1	1	0	2	0	6	3	2	0	7	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:108385274C>T	uc001pkk.2	-	6	1071	c.960G>A	c.(958-960)TCG>TCA	p.S320S	EXPH5_uc010rvy.1_Silent_p.S132S|EXPH5_uc010rvz.1_Silent_p.S164S|EXPH5_uc010rwa.1_Silent_p.S244S	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	320					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		CAAAACACAGCGAAGTACTGC	0.448													13	40					0	0	0.001855	0	0		T	108385274	T	T	108385274	2	4	127	1	0	0	0	0	0	0	0	1	5330	755	27	1		1	EXPH5	11	108385274	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4477667	108385274	26621242	726	69806											
ARHGAP20	57569	broad.mit.edu	37	chr11	110494969	110494969	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccttctcccacttcatcCacacagcttgctgtccacat	7	13	4	17	0	2	0	1	0	1	0	5	0	4	0	4	0	3	2	4	0	0	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:110494969C>T	uc001pkz.1	-	5	705	c.420G>A	c.(418-420)GTG>GTA	p.V140V	ARHGAP20_uc001pky.1_Silent_p.V117V|ARHGAP20_uc009yyb.1_Silent_p.V104V|ARHGAP20_uc001pla.1_Silent_p.V104V	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	140	PH.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		CCACTTCATCCACACAGCTTG	0.373													12	60					0	0	0.00245	0	0		T	110494969	T	T	110494969	2	4	127	1	0	0	0	0	0	0	0	1	870	581	21	4		4	ARHGAP20	11	110494969	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2109695	110494969	24511547	727	69807											
TTC12	54970	broad.mit.edu	37	chr11	113187019	113187019	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagatttgcagaaatttcttAaaaatgtggatgaaatctgt	16	14	8	3	0	2	3	0	1	2	2	2	4	2	4	0	1	1	1	0	1	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:113187019A>T	uc001pnu.2	+	2	145	c.40A>T	c.(40-42)AAA>TAA	p.K14*	TTC12_uc001pnv.2_Nonsense_Mutation_p.K14*|TTC12_uc001pnw.2_RNA|TTC12_uc001pnx.2_5'UTR	NM_017868	NP_060338	Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12	14							binding			pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4		all_cancers(61;2.73e-16)|all_epithelial(67;8.64e-10)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.183)|Renal(330;0.187)		BRCA - Breast invasive adenocarcinoma(274;5.3e-06)|Epithelial(105;8.37e-05)|all cancers(92;0.000694)		GAAATTTCTTAAAAATGTGGA	0.333													7	47					0	0	0.004482	0	0		T	113187019	T	T	113187019	4	4	127	1	0	0	0	0	0	1	0	0	16705	363	13	5	42	5	TTC12	11	113187019	Nonsense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2692050	113187019	21819497	728	69808											
CADM1	23705	broad.mit.edu	37	chr11	115088652	115088652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acatgttaactcaagcgcgtCcccttcccgggttaagcctt	8	11	8	14	3	1	0	1	0	0	0	3	0	3	0	4	1	3	2	4	1	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:115088652C>T	uc001ppi.3	-	6	910	c.781G>A	c.(781-783)GAC>AAC	p.D261N	CADM1_uc001ppf.3_Missense_Mutation_p.D261N|CADM1_uc001ppk.3_Missense_Mutation_p.D261N|CADM1_uc001ppj.3_Missense_Mutation_p.D261N|CADM1_uc001ppl.2_Missense_Mutation_p.D261N|CADM1_uc001pph.3_Missense_Mutation_p.D13N	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	261	Ig-like C2-type 2.|Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		TCAAGCGCGTCCCCTTCCCGG	0.458													15	72					0	0	0.006122	0	0		T	115088652	T	T	115088652	3	4	127	1	0	0	0	0	1	0	0	0	2569	855	30	4	567	4	CADM1	11	115088652	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1901633	115088652	19917864	729	69809											
APOA5	116519	broad.mit.edu	37	chr11	116661524	116661524	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagctcctgcacgcgcagggCcacctgctccatcagatcca	8	6	9	18	2	1	1	1	0	0	1	4	1	4	1	5	1	3	4	5	1	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:116661524C>G	uc001ppr.2	-	3	429	c.421G>C	c.(421-423)GCC>CCC	p.A141P	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Missense_Mutation_p.A141P|APOA5_uc009yzf.2_Missense_Mutation_p.A141P|APOA5_uc009yzg.2_Missense_Mutation_p.A167P	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	141	Potential.				acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		ACGCGCAGGGCCACCTGCTCC	0.647													18	87					0	0	0.006122	0	0		G	116661524	G	G	116661524	3	3	127	1	0	0	0	0	1	0	0	0	784	739	26	5	683	5	APOA5	11	116661524	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1572872	116661524	18344992	730	69810											
FOXR1	283150	broad.mit.edu	37	chr11	118851219	118851219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagcacttcccctttttcCggacggccccggaaggctgg	7	8	12	14	3	0	0	0	0	0	0	2	3	2	2	5	5	1	2	5	5	2	3	rs117450447	by1000genomes	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:118851219C>T	uc001pui.2	+	5	856	c.631C>T	c.(631-633)CGG>TGG	p.R211W	FOXR1_uc001puj.2_Intron|FOXR1_uc001puk.2_Missense_Mutation_p.R42W	NM_181721	NP_859072	Q6PIV2	FOXR1_HUMAN	forkhead box R1	211	Fork-head.				embryo development|organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.62e-05)		CCCCTTTTTCCGGACGGCCCC	0.557													27	87					0	0	0.004656	0	0		T	118851219	T	T	118851219	3	4	127	1	0	0	0	0	1	0	0	0	6045	643	23	1	649	1	FOXR1	11	118851219	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2189695	118851219	16155297	731	69811											
TMEM136	219902	broad.mit.edu	37	chr11	120201050	120201050	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaaatggtctcccccacGcctaagtggtttgtgaaggc	8	11	12	10	1	1	2	0	2	1	0	2	2	1	2	3	3	0	1	3	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:120201050G>A	uc001pxh.1	+	3	627	c.564G>A	c.(562-564)ACG>ACA	p.T188T	TMEM136_uc001pxg.2_Intron|TMEM136_uc010rzm.1_Intron|TMEM136_uc001pxj.2_Silent_p.T210T|TMEM136_uc009zas.1_Silent_p.T74T|TMEM136_uc001pxi.1_Silent_p.T74T	NM_174926	NP_777586	Q6ZRR5	TM136_HUMAN	transmembrane protein 136	188	TLC.					integral to membrane				ovary(1)	1		Breast(109;0.00663)|Medulloblastoma(222;0.0523)|Hepatocellular(160;0.206)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.07e-06)		TCTCCCCCACGCCTAAGTGGT	0.507													4	13					0	0	0.000602	0	0		A	120201050	A	A	120201050	2	1	127	1	0	0	0	0	0	0	0	1	16077	1102	38	1		1	TMEM136	11	120201050	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1349831	120201050	14805466	732	69812											
TECTA	7007	broad.mit.edu	37	chr11	120998548	120998548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccgacctgacggcctcgcGgaactgcgccacgccgtgca	6	5	12	18	7	0	1	0	1	0	0	2	3	1	2	5	2	3	1	5	2	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:120998548G>A	uc010rzo.1	+	8	1862	c.1862G>A	c.(1861-1863)CGG>CAG	p.R621Q		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	621	TIL 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		ACGGCCTCGCGGAACTGCGCC	0.657													24	73					0	0	0.005443	0	0		A	120998548	A	A	120998548	3	1	127	1	0	0	0	0	1	0	0	0	15772	1116	39	1	1892	1	TECTA	11	120998548	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	797498	120998548	14007968	733	69813											
TECTA	7007	broad.mit.edu	37	chr11	121038922	121038922	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attctgttgtgaagcctatgCtaaggtaaggtgtctcctgg	8	14	12	7	0	2	1	0	1	2	0	3	1	2	1	2	3	2	3	2	3	4	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:121038922C>T	uc010rzo.1	+	18	5746	c.5746C>T	c.(5746-5748)CTA>TTA	p.L1916L		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1916	ZP.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GAAGCCTATGCTAAGGTAAGG	0.433													66	259					0	0	0.01441	0	0		T	121038922	T	T	121038922	2	4	127	1	0	0	0	0	0	0	0	1	15772	796	28	2		2	TECTA	11	121038922	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	40374	121038922	13967594	734	69814											
TECTA	7007	broad.mit.edu	37	chr11	121060508	121060508	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggacaatggagggtgtgagCagatttgcacgagccgggtg	10	7	18	6	2	0	2	0	1	0	1	0	5	0	4	1	4	3	2	1	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:121060508C>T	uc010rzo.1	+	22	6286	c.6286C>T	c.(6286-6288)CAG>TAG	p.Q2096*		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	2096					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		AGGGTGTGAGCAGATTTGCAC	0.532													12	79					0	0	0.013537	0	0		T	121060508	T	T	121060508	4	4	127	1	0	0	0	0	0	1	0	0	15772	711	25	2	6372	2	TECTA	11	121060508	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	21586	121060508	13946008	735	69815											
OR10G7	390265	broad.mit.edu	37	chr11	123909507	123909507	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagtggagaaccacatgtCaatgaaggacaggttggtga	14	7	14	6	0	1	3	1	2	0	1	1	6	1	4	1	4	1	1	1	4	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:123909507C>A	uc001pzq.1	-	1	202	c.202G>T	c.(202-204)GAC>TAC	p.D68Y		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		AACCACATGTCAATGAAGGAC	0.557													37	147					3.4345e-17	3.85633e-17	0.011902	1	0		A	123909507	A	A	123909507	3	1	127	1	0	0	0	0	1	0	0	0	10921	826	29	5	737	5	OR10G7	11	123909507	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2848999	123909507	11097009	736	69816											
OR8B8	26493	broad.mit.edu	37	chr11	124310278	124310278	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcaggtgctgaaggctttgGacctgccctccgtggaatca	7	10	13	11	1	1	1	1	1	0	0	2	3	2	3	3	4	3	3	3	4	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:124310278G>T	uc010sal.1	-	1	704	c.704C>A	c.(703-705)TCC>TAC	p.S235Y		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GAAGGCTTTGGACCTGCCCTC	0.473													36	136					2.75727e-19	3.1033e-19	0.004878	1	0		T	124310278	T	T	124310278	3	4	127	1	0	0	0	0	1	0	0	0	11249	1174	41	5	234	5	OR8B8	11	124310278	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	400771	124310278	10696238	737	69817											
ST3GAL4	6484	broad.mit.edu	37	chr11	126279292	126279292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgccaatgcaacagccaCggaagattaagcaggtgatg	13	6	12	10	1	0	2	0	1	0	1	0	3	0	3	3	2	5	2	3	2	4	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:126279292C>T	uc001qds.2	+	9	976	c.757C>T	c.(757-759)CGG>TGG	p.R253W	ST3GAL4_uc001qdt.2_Missense_Mutation_p.R249W|ST3GAL4_uc009zcc.2_Missense_Mutation_p.R89W|ST3GAL4_uc009zcd.2_Missense_Mutation_p.R242W|ST3GAL4_uc001qdu.2_Missense_Mutation_p.R249W|ST3GAL4_uc001qdv.2_Missense_Mutation_p.R253W|ST3GAL4_uc009zce.2_Missense_Mutation_p.R249W|ST3GAL4_uc001qdw.2_Missense_Mutation_p.R242W|ST3GAL4_uc001qdx.1_Missense_Mutation_p.R210W|ST3GAL4_uc001qdy.2_Missense_Mutation_p.R89W|ST3GAL4_uc001qdz.2_Missense_Mutation_p.R89W	NM_006278	NP_006269	Q11206	SIA4C_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	253	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.138)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0767)		GCAACAGCCACGGAAGATTAA	0.527													17	74					0	0	0.010818	0	0		T	126279292	T	T	126279292	3	4	127	1	0	0	0	0	1	0	0	0	15242	527	19	1	775	1	ST3GAL4	11	126279292	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1969014	126279292	8727224	738	69818											
ARHGAP32	9743	broad.mit.edu	37	chr11	128838937	128838937	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacatacgtccccatgccGccccctccaaagactcctcg	8	6	7	20	3	0	1	0	0	0	1	4	1	3	1	7	1	2	1	7	1	2	1	rs144742823		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:128838937G>A	uc009zcp.2	-	22	6129	c.6129C>T	c.(6127-6129)GGC>GGT	p.G2043G	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Silent_p.G1002G|ARHGAP32_uc001qez.2_Silent_p.G1694G	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	2043	Interaction with FYN.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TCCCCATGCCGCCCCCTCCAA	0.597													4	29					0	0	0.000602	0	0		A	128838937	A	A	128838937	2	1	127	1	0	0	0	0	0	0	0	1	881	1074	38	1		1	ARHGAP32	11	128838937	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2559645	128838937	6167579	739	69819											
GLB1L2	89944	broad.mit.edu	37	chr11	134244523	134244523	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagggggttgtattcatcAatggccagaaccttggacgt	11	10	13	7	1	2	2	2	0	0	2	2	3	2	3	2	4	1	2	2	4	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr11:134244523A>C	uc001qhp.2	+	18	1923	c.1735A>C	c.(1735-1737)AAT>CAT	p.N579H	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	579					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		TGTATTCATCAATGGCCAGAA	0.547													30	128					0	0	0.010818	0	0		C	134244523	C	C	134244523	3	2	127	1	0	0	0	0	1	0	0	0	6444	130	5	5	1805	5	GLB1L2	11	134244523	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5405586	134244523	761993	740	69820											
ERC1	23085	broad.mit.edu	37	chr12	1137182	1137182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccgtcgaaccaacagtaCgggagggagttcgggaagca	12	5	14	10	4	1	0	1	0	0	0	3	4	1	3	2	3	4	3	2	3	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:1137182C>T	uc001qjb.2	+	2	354	c.113C>T	c.(112-114)ACG>ATG	p.T38M	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.T38M|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.T38M	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	38					I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			ACCAACAGTACGGGAGGGAGT	0.577													31	130					0	0	0.009535	0	0		T	1137182	T	T	1137182	3	4	127	1	0	0	0	0	1	0	0	0	5218	536	19	1	115	1	ERC1	12	1137182	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08		1137182	132714713	741	69821											
FOXM1	2305	broad.mit.edu	37	chr12	2983600	2983600	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttttgaacaggaaggggcagCctccgtcttttgagaatcag	10	11	12	8	1	2	2	1	2	1	1	3	4	3	3	2	3	2	1	2	3	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:2983600C>T	uc001qlf.2	-	2	310	c.45G>A	c.(43-45)AGG>AGA	p.R15R	TULP3_uc010sef.1_5'Flank|FOXM1_uc001qle.2_Silent_p.R15R|FOXM1_uc001qlg.2_Silent_p.R15R|FOXM1_uc009zea.2_Silent_p.R15R|FOXM1_uc009zeb.2_Silent_p.R15R|C12orf32_uc001qlh.2_5'Flank|C12orf32_uc010see.1_5'Flank|C12orf32_uc001qli.2_5'Flank	NM_021953	NP_068772	Q08050	FOXM1_HUMAN	forkhead box M1 isoform 2	15					cell cycle|embryo development|liver development|negative regulation of cell aging|negative regulation of stress-activated MAPK cascade|negative regulation of transcription from RNA polymerase II promoter|pattern specification process|positive regulation of cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of cell growth|regulation of cell proliferation|regulation of oxygen and reactive oxygen species metabolic process|regulation of Ras protein signal transduction|regulation of reactive oxygen species metabolic process|regulation of sequence-specific DNA binding transcription factor activity|tissue development|transcription from RNA polymerase II promoter|vasculogenesis	cytoplasm|transcription factor complex	DNA bending activity|DNA binding|DNA binding|double-stranded DNA binding|promoter binding|protein binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|transcription factor binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.000622)			GAAGGGGCAGCCTCCGTCTTT	0.498													46	163					0	0	0.01441	0	0		T	2983600	T	T	2983600	2	4	127	1	0	0	0	0	0	0	0	1	6032	738	26	2		2	FOXM1	12	2983600	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1846418	2983600	130868295	742	69822											
KCNA1	3736	broad.mit.edu	37	chr12	5020676	5020676	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtggtgatcaacatctcCgggctgcgcttcgagacgca	7	8	13	13	6	2	2	1	1	1	1	4	3	2	2	1	2	2	3	1	2	1	1	rs139476802		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:5020676C>T	uc001qnh.2	+	2	1237	c.132C>T	c.(130-132)TCC>TCT	p.S44S		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	44					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TCAACATCTCCGGGCTGCGCT	0.672													13	55					0	0	0.013537	0	0		T	5020676	T	T	5020676	2	4	127	1	0	0	0	0	0	0	0	1	8017	639	23	1		1	KCNA1	12	5020676	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2037076	5020676	128831219	743	69823											
KCNA5	3741	broad.mit.edu	37	chr12	5153669	5153669	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacggcgtccctgcaccAccagcgcgtccacatcaaca	9	4	10	18	4	1	0	1	0	0	0	3	0	3	0	4	2	3	2	4	2	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:5153669A>G	uc001qni.2	+	1	585	c.356A>G	c.(355-357)CAC>CGC	p.H119R		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	119						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						TCCCTGCACCACCAGCGCGTC	0.706													8	31					0	0	0.010729	0	0		G	5153669	G	G	5153669	3	3	127	1	0	0	0	0	1	0	0	0	8022	159	6	3	358	3	KCNA5	12	5153669	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	132993	5153669	128698226	744	69824											
VWF	7450	broad.mit.edu	37	chr12	6161888	6161888	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccgggtaagagagagagcgGcaggtcaggttgcagggggt	9	6	20	6	2	1	2	1	0	0	2	2	4	2	2	1	6	2	4	1	6	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:6161888G>A	uc001qnn.1	-	16	2257	c.2007C>T	c.(2005-2007)TGC>TGT	p.C669C	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	669	TIL 2.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	AGAGAGAGCGGCAGGTCAGGT	0.612													7	45					0	0	0.001984	0	0		A	6161888	A	A	6161888	2	1	127	1	0	0	0	0	0	0	0	1	17272	1195	42	2		2	VWF	12	6161888	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1008219	6161888	127690007	745	69825											
TNFRSF1A	7132	broad.mit.edu	37	chr12	6439831	6439831	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaatgaagaggagggataaAaggcaaagaccaaagaaaat	22	3	11	5	0	0	4	0	1	0	3	0	6	0	6	2	3	0	1	2	3	8	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:6439831A>G	uc001qnu.2	-	7	953	c.672T>C	c.(670-672)CTT>CTC	p.L224L	TNFRSF1A_uc001qnt.2_Silent_p.L116L|TNFRSF1A_uc010sey.1_5'UTR|TNFRSF1A_uc010sez.1_Silent_p.L116L|TNFRSF1A_uc009zek.2_Silent_p.L181L	NM_001065	NP_001056	P19438	TNR1A_HUMAN	tumor necrosis factor receptor 1 precursor	224	Helical; (Potential).				apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|inflammatory response|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of inflammatory response|positive regulation of transcription from RNA polymerase II promoter|prostaglandin metabolic process	extracellular region|integral to plasma membrane|membrane raft	tumor necrosis factor receptor activity			lung(2)|skin(1)	3						GGAGGGATAAAAGGCAAAGAC	0.547													4	26					0	0	0.009096	0	0		G	6439831	G	G	6439831	2	3	127	1	0	0	0	0	0	0	0	1	16318	1	1	3		3	TNFRSF1A	12	6439831	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	277943	6439831	127412064	746	69826											
CLSTN3	9746	broad.mit.edu	37	chr12	7288865	7288865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttgttccctggtatccGcctggagacctgtgatgaac	6	12	12	11	1	0	3	0	2	0	1	2	4	2	3	4	3	1	3	4	3	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:7288865G>A	uc001qsr.2	+	6	1084	c.806G>A	c.(805-807)CGC>CAC	p.R269H	CLSTN3_uc001qss.2_Missense_Mutation_p.R281H	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	269	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						CCTGGTATCCGCCTGGAGACC	0.557													15	75					0	0	0.00499	0	0		A	7288865	A	A	7288865	3	1	127	1	0	0	0	0	1	0	0	0	3566	1087	38	1	828	1	CLSTN3	12	7288865	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	849034	7288865	126563030	747	69827											
SLC2A14	144195	broad.mit.edu	37	chr12	7967113	7967113	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggtgaagataataaaaacGtaggctcctaaatagtacta	17	9	8	7	2	0	2	0	1	0	1	1	2	1	2	2	2	2	3	2	2	11	7	rs146444974	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:7967113G>A	uc001qtk.2	-	16	2155	c.1362C>T	c.(1360-1362)TAC>TAT	p.Y454Y	SLC2A14_uc001qtl.2_Silent_p.Y431Y|SLC2A14_uc001qtm.2_Silent_p.Y431Y|SLC2A14_uc010sgg.1_Silent_p.Y345Y|SLC2A14_uc001qtn.2_Silent_p.Y454Y|SLC2A14_uc001qto.2_Silent_p.Y89Y|SLC2A14_uc010sgh.1_Silent_p.Y469Y	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14	454	Helical; Name=12; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		TAATAAAAACGTAGGCTCCTA	0.398													10	36					0	0	0.010729	0	0		A	7967113	A	A	7967113	2	1	127	1	0	0	0	0	0	0	0	1	14568	1140	40	1		1	SLC2A14	12	7967113	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	678248	7967113	125884782	748	69828											
A2M	2	broad.mit.edu	37	chr12	9246106	9246106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtctcagggaagtactttCgtacggtctccgtgtgaggc	7	12	13	9	3	2	1	1	1	2	0	5	2	2	2	1	3	2	2	1	3	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:9246106C>T	uc001qvk.1	-	18	2308	c.2195G>A	c.(2194-2196)CGA>CAA	p.R732Q	A2M_uc009zgk.1_Missense_Mutation_p.R582Q	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	732	Inhibitory.				blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GAAGTACTTTCGTACGGTCTC	0.458													10	69					0	0	0.001855	0	0		T	9246106	T	T	9246106	3	4	127	1	0	0	0	0	1	0	0	0	4	884	31	1	2305	1	A2M	12	9246106	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1278993	9246106	124605789	749	69829											
PZP	5858	broad.mit.edu	37	chr12	9309872	9309872	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaatgccttggtgtagAcatggctcccatgggtcccc	7	9	11	14	0	0	1	0	0	0	1	2	1	2	1	5	3	2	3	5	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:9309872A>G	uc001qvl.2	-	28	3478	c.3449T>C	c.(3448-3450)GTC>GCC	p.V1150A	PZP_uc009zgl.2_Missense_Mutation_p.V936A	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						CTTGGTGTAGACATGGCTCCC	0.463													20	83					0	0	0.014323	0	0		G	9309872	G	G	9309872	3	3	127	1	0	0	0	0	1	0	0	0	12894	275	10	3	1035	3	PZP	12	9309872	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	63766	9309872	124542023	750	69830											
KLRD1	3824	broad.mit.edu	37	chr12	10462078	10462078	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggaattttgttgaaaaaTtgtaagtttttctaagcaag	13	17	9	2	0	1	1	0	1	1	0	1	2	1	2	0	1	1	4	0	1	6	9			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:10462078T>A	uc001qxw.3	+	3	296	c.99T>A	c.(97-99)AAT>AAA	p.N33K	KLRD1_uc001qxx.3_Missense_Mutation_p.N33K|KLRD1_uc001qxy.3_Intron|KLRD1_uc009zhh.2_Missense_Mutation_p.N33K|KLRD1_uc009zhi.2_Missense_Mutation_p.N33K|KLRD1_uc001qxz.3_Missense_Mutation_p.N33K	NM_001114396	NP_001107868	Q13241	KLRD1_HUMAN	killer cell lectin-like receptor subfamily D,	33	Extracellular (Potential).				cell surface receptor linked signaling pathway|regulation of immune response	integral to membrane|plasma membrane	sugar binding|transmembrane receptor activity				0						TGTTGAAAAATTGTAAGTTTT	0.323													29	73					0	0	0.005443	0	0		A	10462078	A	A	10462078	3	1	127	1	0	0	0	0	1	0	0	0	8435	1507	52	5	105	5	KLRD1	12	10462078	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1152206	10462078	123389817	751	69831											
KLRC1	3821	broad.mit.edu	37	chr12	10603715	10603715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctgcctctttgggtttgggGgcagattcaggtctgagtag	5	13	16	7	0	3	2	1	1	2	1	3	2	3	2	1	4	1	4	1	4	1	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:10603715G>A	uc001qyl.2	-	2	205	c.41C>T	c.(40-42)CCC>CTC	p.P14L	KLRC1_uc009zhm.1_Missense_Mutation_p.P14L|KLRC1_uc001qym.2_Missense_Mutation_p.P14L|KLRC1_uc001qyn.2_Missense_Mutation_p.P14L|KLRC1_uc001qyo.2_Missense_Mutation_p.P14L	NM_002259	NP_002250	P26715	NKG2A_HUMAN	killer cell lectin-like receptor subfamily C,	14	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|regulation of immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0						TGGGTTTGGGGGCAGATTCAG	0.388													16	95					0	0	0.006122	0	0		A	10603715	A	A	10603715	3	1	127	1	0	0	0	0	1	0	0	0	8431	1232	43	4	684	4	KLRC1	12	10603715	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	141637	10603715	123248180	752	69832											
ETV6	2120	broad.mit.edu	37	chr12	11992235	11992235	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgctatcgatctcctcatTcaggtgagagtctggactct	7	14	9	11	2	5	1	2	1	3	1	8	4	5	2	1	2	0	1	1	2	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:11992235T>G	uc001qzz.2	+	3	599	c.325T>G	c.(325-327)TCA>GCA	p.S109A		NM_001987	NP_001978	P41212	ETV6_HUMAN	ets variant 6	109	PNT.					cytoplasm|nucleolus	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		ETV6/NTRK3(234)|ETV6/JAK2(11)	soft_tissue(85)|kidney(66)|breast(55)|salivary_gland(26)|haematopoietic_and_lymphoid_tissue(13)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)|pancreas(1)	250		all_cancers(2;1.88e-12)|Acute lymphoblastic leukemia(2;6.91e-39)|all_hematologic(2;2.7e-36)				ATCTCCTCATTCAGGTGAGAG	0.468			T	NTRK3|RUNX1|PDGFRB|ABL1|MN1|ABL2|FACL6|CHIC2|ARNT|JAK2|EVI1|CDX2|STL|HLXB9|MDS2|PER1|SYK|TTL|FGFR3|PAX5	congenital fibrosarcoma|multiple leukemia and lymphoma| secretory breast|MDS|ALL								23	60					0	0	0.003954	0	0		G	11992235	G	G	11992235	3	3	127	1	0	0	0	0	1	0	0	0	5291	1783	62	5	335	5	ETV6	12	11992235	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1388520	11992235	121859660	753	69833											
MANSC1	54682	broad.mit.edu	37	chr12	12483888	12483888	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatttctggtcaaagatggAaaatctgaaaatgtatggaa	18	11	9	3	0	3	2	1	1	2	1	3	4	3	4	0	3	0	1	0	3	8	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:12483888A>G	uc001rai.1	-	4	627	c.369T>C	c.(367-369)TTT>TTC	p.F123F	MANSC1_uc010shm.1_Silent_p.F57F|MANSC1_uc001raj.1_Silent_p.F89F|MANSC1_uc009zht.1_Silent_p.F42F	NM_018050	NP_060520	Q9H8J5	MANS1_HUMAN	MANSC domain containing 1 precursor	123	Extracellular (Potential).					integral to membrane					0		Prostate(47;0.0865)		BRCA - Breast invasive adenocarcinoma(232;0.185)		TCAAAGATGGAAAATCTGAAA	0.393													39	137					0	0	0.004878	0	0		G	12483888	G	G	12483888	2	3	127	1	0	0	0	0	0	0	0	1	9242	243	9	3		3	MANSC1	12	12483888	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	491653	12483888	121368007	754	69834											
DUSP16	80824	broad.mit.edu	37	chr12	12630143	12630143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctggggggccaagatatccGagtgccagcccttaaggccc	8	7	13	13	1	1	1	0	0	1	1	2	2	2	1	5	4	2	0	5	4	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:12630143G>A	uc001rao.1	-	7	2254	c.1622C>T	c.(1621-1623)TCG>TTG	p.S541L	DUSP16_uc001ram.1_5'Flank|DUSP16_uc001ran.1_Missense_Mutation_p.S393L	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	541					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		CAAGATATCCGAGTGCCAGCC	0.577													30	163					0	0	0.008361	0	0		A	12630143	A	A	12630143	3	1	127	1	0	0	0	0	1	0	0	0	4822	1059	37	1	379	1	DUSP16	12	12630143	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	146255	12630143	121221752	755	69835											
PYROXD1	79912	broad.mit.edu	37	chr12	21605065	21605065	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaataatgatcatagggaaCggtggtattgcacttgagtt	13	12	12	4	1	1	3	1	2	0	1	1	4	1	4	0	3	2	3	0	3	5	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:21605065C>T	uc001rew.2	+	5	592	c.465C>T	c.(463-465)AAC>AAT	p.N155N	PYROXD1_uc009ziq.2_Intron|PYROXD1_uc009zir.2_Intron	NM_024854	NP_079130	Q8WU10	PYRD1_HUMAN	pyridine nucleotide-disulphide oxidoreductase	155							oxidoreductase activity			ovary(1)	1						TCATAGGGAACGGTGGTATTG	0.224													3	7					0	0	0.004672	0	0		T	21605065	T	T	21605065	2	4	127	1	0	0	0	0	0	0	0	1	12891	535	19	1		1	PYROXD1	12	21605065	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	8974922	21605065	112246830	756	69836											
ABCC9	10060	broad.mit.edu	37	chr12	21954066	21954066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catattctaaaatatttcctCgcttcatcacaataaccagg	14	13	3	11	1	3	0	2	0	1	0	5	0	4	0	2	1	1	1	2	1	6	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:21954066C>T	uc001rfh.2	-	38	4582	c.4562G>A	c.(4561-4563)CGA>CAA	p.R1521Q	ABCC9_uc001rfg.2_Missense_Mutation_p.R50Q	NM_020297	NP_064693	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1521	Cytoplasmic (Potential).|ABC transporter 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AATATTTCCTCGCTTCATCAC	0.423													21	75					0	0	0.00278	0	0		T	21954066	T	T	21954066	3	4	127	1	0	0	0	0	1	0	0	0	59	884	31	1	91	1	ABCC9	12	21954066	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	349001	21954066	111897829	757	69837											
ITPR2	3709	broad.mit.edu	37	chr12	26572089	26572089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgactgctcggtacccacGggtgaacgtgccacgatttc	8	9	12	12	4	0	2	0	2	0	0	2	4	0	2	2	2	4	2	2	2	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:26572089G>A	uc001rhg.2	-	50	7420	c.7003C>T	c.(7003-7005)CGT>TGT	p.R2335C	ITPR2_uc009zjg.1_Missense_Mutation_p.R486C	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	2335	Extracellular (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					CGGTACCCACGGGTGAACGTG	0.433													3	77					0	0	0.004672	0	0		A	26572089	A	A	26572089	3	1	127	1	0	0	0	0	1	0	0	0	7937	1116	39	1	1134	1	ITPR2	12	26572089	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	4618023	26572089	107279806	758	69838											
FAR2	55711	broad.mit.edu	37	chr12	29469773	29469773	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttactttcttttttccccaGgagtccaagtcttggcaacc	7	15	6	13	0	2	0	0	0	2	0	4	1	4	1	4	2	2	1	4	2	3	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:29469773G>A	uc001ris.3	+	9	1103	c.956_splice	c.e9-1	p.G319_splice	FAR2_uc001rit.2_Splice_Site_p.G319_splice|FAR2_uc009zjm.2_Splice_Site_p.G222_splice|uc001riu.1_Intron	NM_018099	NP_060569	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2						ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0						TTTTTCCCCAGGAGTCCAAGT	0.398													30	173					0	0	0.003271	0	0		A	29469773	A	A	29469773	5	1	127	1	0	0	0	0	0	0	1	0	5689	1014	35	4	985	4	FAR2	12	29469773	Splice_Site	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2897684	29469773	104382122	759	69839											
PRICKLE1	144165	broad.mit.edu	37	chr12	42860085	42860085	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgtccttcatgatatacCtctgtcctcccaggaccgtt	6	12	8	15	2	2	1	1	1	1	0	5	2	5	2	6	2	1	1	6	2	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:42860085C>A	uc010skv.1	-	6	973	c.686G>T	c.(685-687)AGG>ATG	p.R229M	PRICKLE1_uc001rnl.2_Missense_Mutation_p.R229M|PRICKLE1_uc010skw.1_Missense_Mutation_p.R229M|PRICKLE1_uc001rnm.2_Missense_Mutation_p.R229M	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	229	LIM zinc-binding 2.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		CATGATATACCTCTGTCCTCC	0.498													14	54					4.14922e-12	4.55065e-12	0.004007	1	0		A	42860085	A	A	42860085	3	1	127	1	0	0	0	0	1	0	0	0	12508	681	24	5	1821	5	PRICKLE1	12	42860085	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	13390312	42860085	90991810	760	69840											
SLC38A1	81539	broad.mit.edu	37	chr12	46592455	46592455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatcacagcaacaatgacagCcagccgcactgtcaggatga	14	5	10	12	1	2	2	2	2	0	0	2	4	2	3	2	1	4	2	2	1	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:46592455C>T	uc001rpa.2	-	14	1333	c.1075G>A	c.(1075-1077)GCT>ACT	p.A359T	SLC38A1_uc001rpb.2_Missense_Mutation_p.A359T|SLC38A1_uc001rpc.2_Missense_Mutation_p.A359T|SLC38A1_uc001rpd.2_Missense_Mutation_p.A359T|SLC38A1_uc001rpe.2_Missense_Mutation_p.A359T|SLC38A1_uc009zkj.1_Missense_Mutation_p.A359T	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	359	Helical; (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)			ACAATGACAGCCAGCCGCACT	0.468													28	60					0	0	0.00632	0	0		T	46592455	T	T	46592455	3	4	127	1	0	0	0	0	1	0	0	0	14626	739	26	2	404	2	SLC38A1	12	46592455	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3732370	46592455	87259440	761	69841											
MLL2	8085	broad.mit.edu	37	chr12	49443676	49443676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagggagccacccccctccGggtctggagagcccaggagg	8	3	15	15	1	1	1	0	0	1	1	2	4	2	3	6	5	2	0	6	5	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:49443676G>A	uc001rta.3	-	11	3695	c.3695C>T	c.(3694-3696)CCG>CTG	p.P1232L		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1232					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						ACCCCCCTCCGGGTCTGGAGA	0.587			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			21	85					0	0	0.010504	0	0		A	49443676	A	A	49443676	3	1	127	1	0	0	0	0	1	0	0	0	9639	1116	39	1	13094	1	MLL2	12	49443676	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2851221	49443676	84408219	762	69842											
TUBA1B	10376	broad.mit.edu	37	chr12	49523374	49523374	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgttgaaggagtcatcTcctcccccaatggtcttgtc	8	12	10	11	0	3	1	1	1	2	0	6	2	4	2	3	3	0	1	3	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:49523374T>G	uc001rtm.2	-	2	356	c.135A>C	c.(133-135)GGA>GGC	p.G45G	TUBA1B_uc001rto.2_Intron|TUBA1B_uc001rtk.2_Silent_p.G10G|TUBA1B_uc001rtl.2_Silent_p.G10G|TUBA1B_uc001rtn.2_5'UTR	NM_006082	NP_006073	P68363	TBA1B_HUMAN	tubulin, alpha, ubiquitous	45					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding				0						AGGAGTCATCTCCTCCCCCAA	0.572													35	129					0	0	0.004878	0	0		G	49523374	G	G	49523374	2	3	127	1	0	0	0	0	0	0	0	1	16770	1538	54	5		5	TUBA1B	12	49523374	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	79698	49523374	84328521	763	69843											
SPATS2	65244	broad.mit.edu	37	chr12	49893963	49893963	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccattaagaaaatgaaaCaagcctttgctgaattggag	15	10	8	8	0	0	3	0	2	0	1	1	4	1	4	3	1	3	1	3	1	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:49893963C>T	uc001rud.2	+	9	1803	c.814C>T	c.(814-816)CAA>TAA	p.Q272*	SPATS2_uc001rue.2_RNA|SPATS2_uc009zli.1_Nonsense_Mutation_p.Q272*|SPATS2_uc001ruf.2_Nonsense_Mutation_p.Q272*|SPATS2_uc001rug.2_Nonsense_Mutation_p.Q272*	NM_023071	NP_075559	Q86XZ4	SPAS2_HUMAN	spermatogenesis associated, serine-rich 2	272						cytoplasm				breast(1)	1						GAAAATGAAACAAGCCTTTGC	0.383													18	82					0	0	0.006122	0	0		T	49893963	T	T	49893963	4	4	127	1	0	0	0	0	0	1	0	0	15044	479	17	4	840	4	SPATS2	12	49893963	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	370589	49893963	83957932	764	69844											
BIN2	51411	broad.mit.edu	37	chr12	51693477	51693477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcatagtccacgagtttccGaccccgcttggcaattctct	7	12	8	14	3	2	0	1	0	1	0	5	2	4	0	4	1	0	3	4	1	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:51693477G>A	uc001ryg.2	-	6	482	c.430C>T	c.(430-432)CGG>TGG	p.R144W	BIN2_uc009zlz.2_Missense_Mutation_p.R112W|BIN2_uc001ryh.2_Missense_Mutation_p.R20W|BIN2_uc010sng.1_Missense_Mutation_p.R118W	NM_016293	NP_057377	Q9UBW5	BIN2_HUMAN	bridging integrator 2	144	BAR.					cytoplasm	protein binding			ovary(1)	1						ACGAGTTTCCGACCCCGCTTG	0.493													51	178					0	0	0.01441	0	0		A	51693477	A	A	51693477	3	1	127	1	0	0	0	0	1	0	0	0	1434	1057	37	1	1299	1	BIN2	12	51693477	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1799514	51693477	82158418	765	69845											
ACVR1B	91	broad.mit.edu	37	chr12	52369163	52369163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagcaccatgtgcgcacctGcatccccaaagtggagctgg	9	6	13	13	1	0	0	0	0	0	0	1	2	1	2	4	3	4	4	4	3	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:52369163G>A	uc001rzn.2	+	2	248	c.206G>A	c.(205-207)TGC>TAC	p.C69Y	ACVR1B_uc001rzl.2_Missense_Mutation_p.C69Y|ACVR1B_uc001rzm.2_Missense_Mutation_p.C69Y|ACVR1B_uc010snn.1_Missense_Mutation_p.C69Y	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	69	Extracellular (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	GTGCGCACCTGCATCCCCAAA	0.587													7	82					0	0	0.00308	0	0		A	52369163	A	A	52369163	3	1	127	1	0	0	0	0	1	0	0	0	221	1319	46	2	212	2	ACVR1B	12	52369163	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	675686	52369163	81482732	766	69846											
ACVR1B	91	broad.mit.edu	37	chr12	52387827	52387827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgccaacggcgcagcccGcctgacggccctgcgcatca	7	5	12	17	5	1	1	1	1	0	0	1	1	1	1	4	2	4	3	4	2	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:52387827G>A	uc001rzn.2	+	9	1493	c.1451G>A	c.(1450-1452)CGC>CAC	p.R484H	ACVR1B_uc010snn.1_Missense_Mutation_p.R525H	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	484	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	GGCGCAGCCCGCCTGACGGCC	0.622													10	162					0	0	0.010729	0	0		A	52387827	A	A	52387827	3	1	127	1	0	0	0	0	1	0	0	0	221	1087	38	1	1612	1	ACVR1B	12	52387827	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	18664	52387827	81464068	767	69847											
EIF4B	1975	broad.mit.edu	37	chr12	53428436	53428436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaaactcaggaacgggaaCggtcgaggacaggaagtgag	16	3	16	6	3	1	2	1	1	0	1	2	7	1	6	0	5	3	0	0	5	5	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:53428436C>T	uc001sbh.3	+	10	1455	c.1249C>T	c.(1249-1251)CGG>TGG	p.R417W	EIF4B_uc010snu.1_Missense_Mutation_p.R417W|EIF4B_uc010snv.1_Missense_Mutation_p.R378W|EIF4B_uc001sbi.2_Missense_Mutation_p.R169W	NM_001417	NP_001408	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	417					insulin receptor signaling pathway|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	nucleotide binding|translation initiation factor activity			breast(1)|kidney(1)	2						GGAACGGGAACGGTCGAGGAC	0.502													25	180					0	0	0.005443	0	0		T	53428436	T	T	53428436	3	4	127	1	0	0	0	0	1	0	0	0	5035	527	19	1	1287	1	EIF4B	12	53428436	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1040609	53428436	80423459	768	69848											
OR6C2	341416	broad.mit.edu	37	chr12	55846644	55846644	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtttgtgtgattctgtcctActtgtacatagtcagaacaa	11	15	8	7	0	2	2	1	1	1	1	3	2	3	2	1	0	3	2	1	0	5	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:55846644A>G	uc001sgz.1	+	1	647	c.647A>G	c.(646-648)TAC>TGC	p.Y216C		NM_054105	NP_473446	Q9NZP2	OR6C2_HUMAN	olfactory receptor, family 6, subfamily C,	216	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						ATTCTGTCCTACTTGTACATA	0.398													48	186					0	0	0.01441	0	0		G	55846644	G	G	55846644	3	3	127	1	0	0	0	0	1	0	0	0	11210	391	14	3	649	3	OR6C2	12	55846644	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2418208	55846644	78005251	769	69849											
GLS2	27165	broad.mit.edu	37	chr12	56867049	56867049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgccgtgggtctaacttcCgagcacagtgcctcaggttg	7	9	12	13	3	2	0	1	0	1	0	3	1	3	0	3	2	3	2	3	2	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:56867049C>T	uc001slj.2	-	14	1691	c.1412G>A	c.(1411-1413)CGG>CAG	p.R471Q	GLS2_uc009zos.2_RNA|GLS2_uc001slk.2_Missense_Mutation_p.R206Q|GLS2_uc009zot.2_Missense_Mutation_p.R132Q	NM_013267	NP_037399	Q9UI32	GLSL_HUMAN	glutaminase 2 precursor	471					cellular amino acid biosynthetic process|glutamate secretion|glutamine metabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity|protein binding			ovary(1)|central_nervous_system(1)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GTCTAACTTCCGAGCACAGTG	0.363													20	80					0	0	0.012319	0	0		T	56867049	T	T	56867049	3	4	127	1	0	0	0	0	1	0	0	0	6479	652	23	1	416	1	GLS2	12	56867049	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1020405	56867049	76984846	770	69850											
BAZ2A	11176	broad.mit.edu	37	chr12	56995394	56995394	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcagaaactgcagggggcGgtgtgggggcagcattgcag	8	6	18	9	1	1	1	1	0	0	1	1	1	1	1	1	5	4	4	1	5	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:56995394G>A	uc001slq.1	-	20	4207	c.4013C>T	c.(4012-4014)CCG>CTG	p.P1338L	BAZ2A_uc001slp.1_Missense_Mutation_p.P1336L|BAZ2A_uc001slo.1_Missense_Mutation_p.P166L|BAZ2A_uc009zov.1_Missense_Mutation_p.P308L|BAZ2A_uc009zow.1_Missense_Mutation_p.P1306L	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1338	Pro-rich.				chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						TGCAGGGGGCGGTGTGGGGGC	0.567													14	74					0	0	0.00245	0	0		A	56995394	A	A	56995394	3	1	127	1	0	0	0	0	1	0	0	0	1332	1116	39	1	1744	1	BAZ2A	12	56995394	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	128345	56995394	76856501	771	69851											
NXPH4	11247	broad.mit.edu	37	chr12	57619197	57619197	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctggggatggcagcagcAgcggcggggcccgggcttgg	4	4	21	12	4	0	0	0	0	0	0	0	1	0	1	2	8	3	5	2	8	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:57619197A>G	uc010srf.1	+	2	769	c.594A>G	c.(592-594)GCA>GCG	p.A198A	NXPH4_uc009zpj.2_Silent_p.A4A	NM_007224	NP_009155	O95158	NXPH4_HUMAN	neurexophilin 4 precursor	198	IV (linker domain).				neuropeptide signaling pathway	extracellular region					0						TGGCAGCAGCAGCGGCGGGGC	0.751													13	36					0	0	0.004007	0	0		G	57619197	G	G	57619197	2	3	127	1	0	0	0	0	0	0	0	1	10812	175	7	3		3	NXPH4	12	57619197	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	623803	57619197	76232698	772	69852											
DPY19L2	283417	broad.mit.edu	37	chr12	64062022	64062022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccccggggaggacctccagGagccccttggcagtttcccg	5	7	13	16	2	0	0	0	0	0	0	3	3	3	3	7	5	1	2	7	5	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:64062022G>A	uc001srp.1	-	1	333	c.152C>T	c.(151-153)TCC>TTC	p.S51F	DPY19L2_uc009zqk.1_RNA	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	51					multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		GGACCTCCAGGAGCCCCTTGG	0.642													16	95					0	0	0.00499	0	0		A	64062022	A	A	64062022	3	1	127	1	0	0	0	0	1	0	0	0	4747	1174	41	4	2212	4	DPY19L2	12	64062022	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	6442825	64062022	69789873	773	69853											
GRIP1	23426	broad.mit.edu	37	chr12	66838485	66838485	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattgatggccatcactctGtctccaatctgtagcacccc	8	11	6	16	0	4	1	1	1	3	0	5	1	4	1	5	1	1	2	5	1	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:66838485G>A	uc001stk.2	-	12	1651	c.1410C>T	c.(1408-1410)GAC>GAT	p.D470D	GRIP1_uc010sta.1_Silent_p.D414D|GRIP1_uc001stj.2_Silent_p.D252D|GRIP1_uc001stl.1_Silent_p.D362D|GRIP1_uc001stm.2_Silent_p.D470D	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	522	PDZ 4.				androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		CCATCACTCTGTCTCCAATCT	0.468													20	87					0	0	0.010504	0	0		A	66838485	A	A	66838485	2	1	127	1	0	0	0	0	0	0	0	1	6803	1368	48	4		4	GRIP1	12	66838485	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2776463	66838485	67013410	774	69854											
NUP107	57122	broad.mit.edu	37	chr12	69085873	69085873	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgctgttatgttacgtgaGgatgatcctggagaagctgg	9	12	15	5	1	0	3	0	2	0	1	1	5	1	4	1	3	3	4	1	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:69085873G>T	uc001suf.2	+	5	544	c.429G>T	c.(427-429)GAG>GAT	p.E143D	NUP107_uc001sug.2_Intron|NUP107_uc010stj.1_Missense_Mutation_p.E114D	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	143					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			TGTTACGTGAGGATGATCCTG	0.443													26	119					3.80469e-20	4.28898e-20	0.009535	1	0		T	69085873	T	T	69085873	3	4	127	1	0	0	0	0	1	0	0	0	10772	991	35	5	447	5	NUP107	12	69085873	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2247388	69085873	64766022	775	69855											
NUP107	57122	broad.mit.edu	37	chr12	69109462	69109462	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgatctggatagagaagAtgaagttagattactcaaat	16	12	10	3	0	2	6	1	3	1	3	2	8	2	7	0	1	1	1	0	1	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:69109462A>G	uc001suf.2	+	12	1140	c.1025A>G	c.(1024-1026)GAT>GGT	p.D342G	NUP107_uc001sug.2_Missense_Mutation_p.D189G|NUP107_uc010stj.1_Missense_Mutation_p.D313G	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	342					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			GATAGAGAAGATGAAGTTAGA	0.358													37	156					0	0	0.006999	0	0		G	69109462	G	G	69109462	3	3	127	1	0	0	0	0	1	0	0	0	10772	333	12	3	1071	3	NUP107	12	69109462	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	23589	69109462	64742433	776	69856											
FRS2	10818	broad.mit.edu	37	chr12	69967824	69967824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctacaggtgtgcaagaagagCggaaaaaccgcacaagtgtg	15	5	13	8	2	0	2	0	0	0	2	0	3	0	3	1	2	4	2	1	2	6	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:69967824C>T	uc001suy.2	+	10	1126	c.616C>T	c.(616-618)CGG>TGG	p.R206W	FRS2_uc001suz.2_Missense_Mutation_p.R206W|FRS2_uc009zrj.2_Missense_Mutation_p.R206W|FRS2_uc009zrk.2_Missense_Mutation_p.R206W	NM_006654	NP_006645	Q8WU20	FRS2_HUMAN	fibroblast growth factor receptor substrate 2	206					activation of MAPKK activity|activation of phospholipase C activity|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|transmembrane receptor protein tyrosine phosphatase signaling pathway	endomembrane system|endosome|integral to plasma membrane|membrane fraction	fibroblast growth factor receptor binding|insulin receptor binding|phosphatase activator activity|transmembrane receptor protein tyrosine kinase adaptor activity			prostate(1)|kidney(1)	2	Breast(13;2.15e-06)|Esophageal squamous(21;0.187)		Epithelial(6;2.94e-18)|Lung(24;9.68e-05)|OV - Ovarian serous cystadenocarcinoma(12;0.000984)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			GCAAGAAGAGCGGAAAAACCG	0.398													15	112					0	0	0.00499	0	0		T	69967824	T	T	69967824	3	4	127	1	0	0	0	0	1	0	0	0	6075	759	27	1	634	1	FRS2	12	69967824	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	858362	69967824	63884071	777	69857											
CAPS2	84698	broad.mit.edu	37	chr12	75687145	75687145	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaaaatgtcaaggttgcAccctaaacaaaagaacagat	19	7	6	9	0	2	2	2	0	0	2	2	2	2	2	1	1	3	2	1	1	8	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:75687145A>G	uc001sxk.3	-	13	1301	c.1104T>C	c.(1102-1104)GGT>GGC	p.G368G	CAPS2_uc001sxm.3_Silent_p.G136G|CAPS2_uc009zsa.2_5'UTR|CAPS2_uc001sxi.3_Silent_p.G104G|CAPS2_uc001sxj.3_Silent_p.G279G|CAPS2_uc001sxl.3_Silent_p.G349G	NM_032606	NP_115995	Q9BXY5	CAYP2_HUMAN	calcyphosine 2	368							calcium ion binding			ovary(2)	2						TCAAGGTTGCACCCTAAACAA	0.308													13	57					0	0	0.003163	0	0		G	75687145	G	G	75687145	2	3	127	1	0	0	0	0	0	0	0	1	2641	146	6	3		3	CAPS2	12	75687145	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5719321	75687145	58164750	778	69858											
KRR1	11103	broad.mit.edu	37	chr12	75900126	75900126	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactaaaaggtccaatggcTgaaactgtgtttccctgaac	12	10	8	11	0	0	2	0	2	0	0	2	2	2	2	3	2	2	2	3	2	5	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:75900126T>C	uc001sxt.2	-	5	614	c.573A>G	c.(571-573)TCA>TCG	p.S191S	KRR1_uc009zsc.2_Silent_p.S191S|KRR1_uc010stx.1_3'UTR	NM_007043	NP_008974	Q13601	KRR1_HUMAN	HIV-1 rev binding protein 2	191	KH.				rRNA processing	nucleolus|ribonucleoprotein complex	RNA binding			ovary(1)|pancreas(1)	2						GTCCAATGGCTGAAACTGTGT	0.308													10	60					0	0	0.008291	0	0		C	75900126	C	C	75900126	2	2	127	1	0	0	0	0	0	0	0	1	8462	1567	55	3		3	KRR1	12	75900126	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	212981	75900126	57951769	779	69859											
LRRIQ1	84125	broad.mit.edu	37	chr12	85466854	85466854	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattcagattgtaatttcctTatctcccacttatactggaa	12	16	4	9	0	2	1	1	0	1	1	4	2	3	2	2	1	1	1	2	1	6	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:85466854T>C	uc001tac.2	+	11	2976	c.2865T>C	c.(2863-2865)CTT>CTC	p.L955L	LRRIQ1_uc001tab.1_Silent_p.L955L	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	955										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		GTAATTTCCTTATCTCCCACT	0.239													26	70					0	0	0.005443	0	0		C	85466854	C	C	85466854	2	2	127	1	0	0	0	0	0	0	0	1	9047	1741	61	3		3	LRRIQ1	12	85466854	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	9566728	85466854	48385041	780	69860											
KITLG	4254	broad.mit.edu	37	chr12	88912617	88912617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgtctgacaattgtactaCcatctcgcttatccaacaat	11	13	5	12	1	2	1	0	1	2	0	4	1	3	1	2	0	3	3	2	0	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:88912617C>T	uc001tav.2	-	4	403	c.220G>A	c.(220-222)GTA>ATA	p.V74I	KITLG_uc009zsn.2_Missense_Mutation_p.V2I|KITLG_uc001taw.2_Missense_Mutation_p.V74I|KITLG_uc009zso.1_Intron	NM_000899	NP_000890	P21583	SCF_HUMAN	KIT ligand isoform b precursor	74	Extracellular (Potential).				cell adhesion|cell proliferation|hemopoiesis|male gonad development|positive regulation of DNA replication|signal transduction	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	growth factor activity|identical protein binding|stem cell factor receptor binding			ovary(1)	1						AATTGTACTACCATCTCGCTT	0.348									Testicular_Cancer_Familial_Clustering_of				20	51					0	0	0.007413	0	0		T	88912617	T	T	88912617	3	4	127	1	0	0	0	0	1	0	0	0	8346	507	18	4	625	4	KITLG	12	88912617	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3445763	88912617	44939278	781	69861											
C12orf42	374470	broad.mit.edu	37	chr12	103696141	103696141	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggcgccatggcaaccgcGccttttccgacgggatttcc	5	9	11	16	6	0	0	0	0	0	0	3	2	3	1	6	3	1	1	6	3	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:103696141G>A	uc001tjt.2	-	6	916	c.828C>T	c.(826-828)GGC>GGT	p.G276G	C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Silent_p.G276G|C12orf42_uc001tju.2_Silent_p.G181G	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	276										ovary(1)|central_nervous_system(1)	2						TGGCAACCGCGCCTTTTCCGA	0.662													12	82					0	0	0.00245	0	0		A	103696141	A	A	103696141	2	1	127	1	0	0	0	0	0	0	0	1	1691	1074	38	1		1	C12orf42	12	103696141	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	14783524	103696141	30155754	782	69862											
UBE3B	89910	broad.mit.edu	37	chr12	109935694	109935694	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacatcatgtctgtgcctgCtctggtgactcatctcagca	7	12	8	14	0	5	1	3	1	3	0	6	1	5	1	2	1	3	2	2	1	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:109935694C>A	uc001top.2	+	10	1388	c.785C>A	c.(784-786)GCT>GAT	p.A262D	UBE3B_uc001toq.2_Missense_Mutation_p.A262D|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.A262D	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	262					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						TCTGTGCCTGCTCTGGTGACT	0.473													21	111					1.96292e-10	2.12163e-10	0.010504	1	0		A	109935694	A	A	109935694	3	1	127	1	0	0	0	0	1	0	0	0	16906	797	28	5	815	5	UBE3B	12	109935694	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	6239553	109935694	23916201	783	69863											
TRPV4	59341	broad.mit.edu	37	chr12	110226265	110226265	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccactgtctcgcccatgagGgcaatgagcatgttgaggag	9	8	13	11	1	1	3	0	3	1	0	2	4	1	4	2	2	1	3	2	2	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:110226265G>T	uc001tpj.1	-	12	2243	c.2148C>A	c.(2146-2148)GCC>GCA	p.A716A	TRPV4_uc001tpg.1_Silent_p.A682A|TRPV4_uc001tph.1_Silent_p.A669A|TRPV4_uc001tpi.1_Silent_p.A609A|TRPV4_uc001tpk.1_Silent_p.A716A|TRPV4_uc001tpl.1_Silent_p.A656A	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	716	Cytoplasmic (Potential).		A -> S (in SMDK).		actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CGCCCATGAGGGCAATGAGCA	0.597													14	60					9.31168e-06	9.66641e-06	0.001855	1	0		T	110226265	T	T	110226265	2	4	127	1	0	0	0	0	0	0	0	1	16624	1219	43	5		5	TRPV4	12	110226265	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	290571	110226265	23625630	784	69864											
ACAD10	80724	broad.mit.edu	37	chr12	112191598	112191598	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagtcccgcttggcttttgGgaagcccctggtggagcagg	6	9	16	10	1	0	0	0	0	0	0	1	3	1	2	3	5	2	3	3	5	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:112191598G>T	uc001tsq.2	+	19	3040	c.2840G>T	c.(2839-2841)GGG>GTG	p.G947V	ACAD10_uc009zvx.2_Missense_Mutation_p.G978V|ACAD10_uc001tss.1_Intron	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	947							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						TTGGCTTTTGGGAAGCCCCTG	0.672											OREG0022130	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	55					0.000602214	0.00061524	0.000602	1	0		T	112191598	T	T	112191598	3	4	127	1	0	0	0	0	1	0	0	0	108	1232	43	5	3007	5	ACAD10	12	112191598	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1965333	112191598	21660297	785	69865											
C12orf51	283450	broad.mit.edu	37	chr12	112691953	112691953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactgtttgtgttaggccccGcatatatcaccaacttcaaa	11	13	6	11	1	2	0	2	0	0	0	2	0	2	0	3	1	2	3	3	1	6	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:112691953G>A	uc009zwc.2	-	15	2063	c.2045C>T	c.(2044-2046)GCG>GTG	p.A682V	C12orf51_uc010syk.1_Missense_Mutation_p.A514V|C12orf51_uc001tts.2_Missense_Mutation_p.A505V|C12orf51_uc001ttt.3_Missense_Mutation_p.A503V	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						GTTAGGCCCCGCATATATCAC	0.388													18	76					0	0	0.007413	0	0		A	112691953	A	A	112691953	3	1	127	1	0	0	0	0	1	0	0	0	1699	1087	38	1	10165	1	C12orf51	12	112691953	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	500355	112691953	21159942	786	69866											
RBM19	9904	broad.mit.edu	37	chr12	114397939	114397939	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgggcatgtttgctccaGgctctgggtttggccgggtc	2	14	15	10	1	2	0	0	0	2	0	4	0	3	0	2	5	1	5	2	5	0	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:114397939G>A	uc009zwi.2	-	3	408	c.264C>T	c.(262-264)GCC>GCT	p.A88A	RBM19_uc001tvn.3_Silent_p.A88A|RBM19_uc001tvm.2_Silent_p.A88A	NM_001146699	NP_001140171	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	88					multicellular organismal development|positive regulation of embryonic development	chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|RNA binding			skin(3)|ovary(1)|liver(1)|central_nervous_system(1)	6	Medulloblastoma(191;0.163)|all_neural(191;0.178)					GTTTGCTCCAGGCTCTGGGTT	0.532													15	33					0	0	0.00245	0	0		A	114397939	A	A	114397939	2	1	127	1	0	0	0	0	0	0	0	1	13146	987	35	4		4	RBM19	12	114397939	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1705986	114397939	19453956	787	69867											
HNF1A	6927	broad.mit.edu	37	chr12	121426811	121426811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtacacctggtacgtcCgcaagcagcgagaggtggcg	8	6	14	13	4	0	1	0	0	0	1	1	2	1	1	3	3	4	4	3	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:121426811C>T	uc001tzg.2	+	2	525	c.502C>T	c.(502-504)CGC>TGC	p.R168C	HNF1A_uc001tze.1_Missense_Mutation_p.R168C|HNF1A_uc001tzf.2_Missense_Mutation_p.R168C|HNF1A_uc010szn.1_Missense_Mutation_p.R168C	NM_000545	NP_000536	P20823	HNF1A_HUMAN	hepatic nuclear factor-1-alpha	168					glucose homeostasis|glucose import|insulin secretion|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|renal glucose absorption	cytoplasm|nucleus|protein complex	DNA binding|protein dimerization activity|protein heterodimerization activity|protein homodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding	p.R168C(1)		liver(92)|large_intestine(15)|endometrium(6)|breast(2)|lung(1)	116	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CTGGTACGTCCGCAAGCAGCG	0.617									Hepatic_Adenoma_Familial_Clustering_of				5	38					0	0	0.001984	0	0		T	121426811	T	T	121426811	3	4	127	1	0	0	0	0	1	0	0	0	7267	652	23	1	508	1	HNF1A	12	121426811	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	7028872	121426811	12425084	788	69868											
DHX37	57647	broad.mit.edu	37	chr12	125434766	125434766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaaatccacctcgatggCggggagcggccagcccacgc	9	4	14	14	4	0	0	0	0	0	0	2	3	1	2	4	5	2	0	4	5	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:125434766C>T	uc001ugy.2	-	24	3244	c.3145G>A	c.(3145-3147)GCC>ACC	p.A1049T	DHX37_uc001ugz.1_Missense_Mutation_p.A136T	NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	1049							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		ACCTCGATGGCGGGGAGCGGC	0.652													6	30					0	0	0.00308	0	0		T	125434766	T	T	125434766	3	4	127	1	0	0	0	0	1	0	0	0	4516	768	27	1	344	1	DHX37	12	125434766	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4007955	125434766	8417129	789	69869											
SLC15A4	121260	broad.mit.edu	37	chr12	129283815	129283815	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcttaccaaagtctgtgTgactgctcatccatccgatg	8	12	9	12	1	3	1	1	1	2	0	5	2	5	1	3	1	2	2	3	1	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:129283815T>C	uc001uhu.2	-	7	1615	c.1562A>G	c.(1561-1563)CAC>CGC	p.H521R	SLC15A4_uc001uhv.2_RNA	NM_145648	NP_663623	Q8N697	S15A4_HUMAN	solute carrier family 15, member 4	521					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.69e-06)|Epithelial(86;1.17e-05)|all cancers(50;5.07e-05)		AAAGTCTGTGTGACTGCTCAT	0.532													21	117					0	0	0.012319	0	0		C	129283815	C	C	129283815	3	2	127	1	0	0	0	0	1	0	0	0	14426	1696	59	3	179	3	SLC15A4	12	129283815	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	3849049	129283815	4568080	790	69870											
TMEM132D	121256	broad.mit.edu	37	chr12	129559044	129559044	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattgcttctggggaggtcCacctgggctgggaagctggt	5	10	16	10	0	1	0	0	0	1	0	2	2	2	2	3	6	2	3	3	6	1	2	rs143332531	by1000genomes	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:129559044C>A	uc009zyl.1	-	9	3004	c.2676G>T	c.(2674-2676)GTG>GTT	p.V892V	TMEM132D_uc001uia.2_Silent_p.V430V	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	892	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TGGGGAGGTCCACCTGGGCTG	0.532													28	107					4.74835e-14	5.2648e-14	0.010818	1	0		A	129559044	A	A	129559044	2	1	127	1	0	0	0	0	0	0	0	1	16072	581	21	5		5	TMEM132D	12	129559044	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	275229	129559044	4292851	791	69871											
TMEM132D	121256	broad.mit.edu	37	chr12	130184741	130184741	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggacaggagctccagctcGgccacgcacagccccaggtc	8	4	12	17	2	0	0	0	0	0	0	3	2	1	2	4	4	3	3	4	4	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:130184741G>A	uc009zyl.1	-	2	910	c.582C>T	c.(580-582)GCC>GCT	p.A194A		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	194	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GCTCCAGCTCGGCCACGCACA	0.701													9	30					0	0	0.004482	0	0		A	130184741	A	A	130184741	2	1	127	1	0	0	0	0	0	0	0	1	16072	1103	39	1		1	TMEM132D	12	130184741	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	625697	130184741	3667154	792	69872											
FZD10	11211	broad.mit.edu	37	chr12	130647661	130647661	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcccaacctgatgggccaCgagaaccagcgcgaggcagc	11	3	13	14	3	0	2	0	1	0	1	0	4	0	2	4	2	5	1	4	2	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:130647661C>G	uc001uii.2	+	1	630	c.174C>G	c.(172-174)CAC>CAG	p.H58Q	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	58	FZ.|Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		TGATGGGCCACGAGAACCAGC	0.632													6	46					0	0	0.001168	0	0		G	130647661	G	G	130647661	3	3	127	1	0	0	0	0	1	0	0	0	6143	535	19	5	176	5	FZD10	12	130647661	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	462920	130647661	3204234	793	69873											
ZNF10	7556	broad.mit.edu	37	chr12	133732657	133732657	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatgtggaaaattcttcagCtggcgctctaatcttactag	11	13	9	8	1	4	0	1	0	3	0	4	2	4	1	0	2	2	2	0	2	6	5	rs11147260		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr12:133732657C>T	uc009zzb.2	+	5	1272	c.825C>T	c.(823-825)AGC>AGT	p.S275S	ZNF268_uc010tbv.1_Intron|ZNF10_uc001ulq.2_Silent_p.S275S	NM_015394	NP_056209	P21506	ZNF10_HUMAN	zinc finger protein 10	275	C2H2-type 2.			Missing (in Ref. 1).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;1.28e-06)|all_epithelial(31;0.0051)|Lung NSC(355;0.00948)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		AATTCTTCAGCTGGCGCTCTA	0.398													25	100					0	0	0.003954	0	0		T	133732657	T	T	133732657	2	4	127	1	0	0	0	0	0	0	0	1	17737	796	28	2		2	ZNF10	12	133732657	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3084996	133732657	119238	794	69874											
PARP4	143	broad.mit.edu	37	chr13	25030523	25030523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcaacccacattcttgggaGataggcagcagacaaaccga	14	7	9	11	1	2	2	1	0	1	2	2	4	2	2	2	2	3	2	2	2	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:25030523G>A	uc001upl.2	-	21	2624	c.2518C>T	c.(2518-2520)CTC>TTC	p.L840F	PARP4_uc010tdc.1_Missense_Mutation_p.L840F	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	840					cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		ATTCTTGGGAGATAGGCAGCA	0.423													23	115					0	0	0.00333	0	0		A	25030523	A	A	25030523	3	1	127	1	0	0	0	0	1	0	0	0	11482	942	33	4	2712	4	PARP4	13	25030523	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08		25030523	90139355	795	69875											
RNF17	56163	broad.mit.edu	37	chr13	25376644	25376644	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatctgcaaaaaccaccaccGaataaaataagcagtgatat	19	7	6	9	1	1	1	0	1	1	0	1	3	1	1	3	0	3	2	3	0	7	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:25376644G>A	uc001upr.2	+	14	1925	c.1884G>A	c.(1882-1884)CCG>CCA	p.P628P	RNF17_uc010tdd.1_Silent_p.P487P|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Silent_p.P628P|RNF17_uc001ups.2_Silent_p.P567P	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	628					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		AACCACCACCGAATAAAATAA	0.323													27	192					0	0	0.005443	0	0		A	25376644	A	A	25376644	2	1	127	1	0	0	0	0	0	0	0	1	13486	1045	37	1		1	RNF17	13	25376644	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	346121	25376644	89793234	796	69876											
PAN3	255967	broad.mit.edu	37	chr13	28841270	28841270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagtgcatggtgttggtcGacatgtggaagaaaattcaa	14	10	12	5	1	1	1	1	0	0	1	2	3	1	2	0	3	1	2	0	3	5	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:28841270G>A	uc001urz.2	+	10	1182	c.1174G>A	c.(1174-1176)GAC>AAC	p.D392N	PAN3_uc010tdo.1_Missense_Mutation_p.D538N|PAN3_uc001ury.2_Missense_Mutation_p.D226N|PAN3_uc001urx.2_Missense_Mutation_p.D338N	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	538	Protein kinase.|Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		GGTGTTGGTCGACATGTGGAA	0.378													28	135					0	0	0.00632	0	0		A	28841270	A	A	28841270	3	1	127	1	0	0	0	0	1	0	0	0	11434	1058	37	1	1654	1	PAN3	13	28841270	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3464626	28841270	86328608	797	69877											
FLT1	2321	broad.mit.edu	37	chr13	29001439	29001439	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacgatgacacggccttttcGtaaatctggggtttcactgg	9	12	11	9	3	2	1	1	1	1	0	3	2	2	1	1	4	1	2	1	4	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:29001439G>A	uc001usb.3	-	10	1578	c.1293C>T	c.(1291-1293)TAC>TAT	p.Y431Y	FLT1_uc010aar.1_Silent_p.Y431Y|FLT1_uc001usc.3_Silent_p.Y431Y|FLT1_uc010tdp.1_Silent_p.Y431Y	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	431	Ig-like C2-type 5.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	CGGCCTTTTCGTAAATCTGGG	0.493													13	81					0	0	0.00245	0	0		A	29001439	A	A	29001439	2	1	127	1	0	0	0	0	0	0	0	1	5955	1140	40	1		1	FLT1	13	29001439	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	160169	29001439	86168439	798	69878											
SLC46A3	283537	broad.mit.edu	37	chr13	29286870	29286870	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcatagccattcctgtcAtcgtggtaaaaatcccaatg	11	11	8	11	2	2	0	2	0	0	0	5	0	4	0	3	2	1	1	3	2	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:29286870A>C	uc001usi.2	-	2	1977	c.1007T>G	c.(1006-1008)ATG>AGG	p.M336R	SLC46A3_uc001usg.2_Missense_Mutation_p.M261R|SLC46A3_uc001usj.2_Missense_Mutation_p.M336R|SLC46A3_uc001ush.2_Missense_Mutation_p.M336R|SLC46A3_uc001usk.2_Missense_Mutation_p.M261R	NM_181785	NP_861450	Q7Z3Q1	S46A3_HUMAN	solute carrier family 46, member 3 isoform a	336	Helical; (Potential).				transmembrane transport	integral to membrane				central_nervous_system(1)|skin(1)	2		Lung SC(185;0.0367)		all cancers(112;0.159)		CATTCCTGTCATCGTGGTAAA	0.373													26	117					0	0	0.00632	0	0		C	29286870	C	C	29286870	3	2	127	1	0	0	0	0	1	0	0	0	14671	217	8	5	408	5	SLC46A3	13	29286870	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	285431	29286870	85883008	799	69879											
UBL3	5412	broad.mit.edu	37	chr13	30341767	30341767	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggcttaccttgagagtttgGctctggtaatgtctctctgg	5	16	12	8	0	3	1	0	1	3	1	4	2	3	1	1	4	1	4	1	4	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:30341767G>C	uc001usp.2	-	4	1434	c.289C>G	c.(289-291)CCA>GCA	p.P97A		NM_007106	NP_009037	O95164	UBL3_HUMAN	ubiquitin-like 3 precursor	97						intracellular|plasma membrane					0		Lung SC(185;0.0281)		all cancers(112;0.0598)|GBM - Glioblastoma multiforme(144;0.142)|OV - Ovarian serous cystadenocarcinoma(117;0.147)		TGAGAGTTTGGCTCTGGTAAT	0.398													16	88					0	0	0.00499	0	0		C	30341767	C	C	30341767	3	2	127	1	0	0	0	0	1	0	0	0	16912	1203	42	5	72	5	UBL3	13	30341767	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1054897	30341767	84828111	800	69880											
FRY	10129	broad.mit.edu	37	chr13	32753081	32753081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttgttttggagttgcaaaaCccagtattatgagcccagga	11	13	10	7	0	0	1	0	1	0	0	0	3	0	3	2	2	3	4	2	2	4	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:32753081C>T	uc001utx.2	+	22	3278	c.2782C>T	c.(2782-2784)CCC>TCC	p.P928S	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	928					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		AGTTGCAAAACCCAGTATTAT	0.443													26	92					0	0	0.003954	0	0		T	32753081	T	T	32753081	3	4	127	1	0	0	0	0	1	0	0	0	6077	507	18	4	2868	4	FRY	13	32753081	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2411314	32753081	82416797	801	69881											
FRY	10129	broad.mit.edu	37	chr13	32821607	32821607	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccaaggaattacctgggAaaaccctggacttccacttc	11	10	7	13	0	0	0	0	0	0	0	3	3	2	3	4	3	2	0	4	3	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:32821607A>G	uc001utx.2	+	48	7472	c.6976A>G	c.(6976-6978)AAA>GAA	p.K2326E	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2326					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		ATTACCTGGGAAAACCCTGGA	0.408													20	139					0	0	0.014323	0	0		G	32821607	G	G	32821607	3	3	127	1	0	0	0	0	1	0	0	0	6077	247	9	3	7166	3	FRY	13	32821607	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	68526	32821607	82348271	802	69882											
FRY	10129	broad.mit.edu	37	chr13	32850638	32850638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggacaagctcaagttcaGtgtgttagaactgcaagaat	13	11	10	7	0	3	2	2	0	1	2	3	3	3	3	0	1	3	4	0	1	6	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:32850638G>A	uc001utx.2	+	57	8820	c.8324G>A	c.(8323-8325)AGT>AAT	p.S2775N	FRY_uc010tdw.1_RNA|FRY_uc001uty.2_Missense_Mutation_p.S330N|FRY_uc001utz.2_Missense_Mutation_p.S300N|FRY_uc010tdx.1_Missense_Mutation_p.S145N	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2775					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CTCAAGTTCAGTGTGTTAGAA	0.388													52	200					0	0	0.01441	0	0		A	32850638	A	A	32850638	3	1	127	1	0	0	0	0	1	0	0	0	6077	1029	36	4	8550	4	FRY	13	32850638	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	29031	32850638	82319240	803	69883											
BRCA2	675	broad.mit.edu	37	chr13	32929044	32929044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaatccaaattttaccgcaCctggtcaagaatttctgtct	12	13	6	10	1	3	2	1	0	2	2	4	2	4	2	3	1	1	1	3	1	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:32929044C>T	uc001uub.1	+	14	7281	c.7054C>T	c.(7054-7056)CCT>TCT	p.P2352S		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2352	Interaction with FANCD2.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TTTTACCGCACCTGGTCAAGA	0.328			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			23	133					0	0	0.004656	0	0		T	32929044	T	T	32929044	3	4	127	1	0	0	0	0	1	0	0	0	1502	507	18	4	7104	4	BRCA2	13	32929044	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	78406	32929044	82240834	804	69884											
NBEA	26960	broad.mit.edu	37	chr13	35517239	35517239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacagggacatcgtggagacGgtgctcaacctggtaaggaa	13	6	14	8	2	1	1	1	0	0	1	2	4	1	3	1	5	3	2	1	5	4	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:35517239G>A	uc001uvb.2	+	2	488	c.282G>A	c.(280-282)ACG>ACA	p.T94T		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	94						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TCGTGGAGACGGTGCTCAACC	0.572													20	191					0	0	0.00333	0	0		A	35517239	A	A	35517239	2	1	127	1	0	0	0	0	0	0	0	1	10205	1103	39	1		1	NBEA	13	35517239	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2588195	35517239	79652639	805	69885											
FREM2	341640	broad.mit.edu	37	chr13	39424294	39424294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagtgagatgctacaccCggcaggggtctgcacaggtg	8	8	14	11	1	2	1	1	1	1	1	2	2	2	1	1	4	3	3	1	4	1	2	rs114837786	by1000genomes	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:39424294C>T	uc001uwv.2	+	9	6808	c.6499C>T	c.(6499-6501)CGG>TGG	p.R2167W	FREM2_uc001uww.2_Missense_Mutation_p.R253W	NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2167	Extracellular (Potential).|Calx-beta 4.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		ATGCTACACCCGGCAGGGGTC	0.463													26	89					0	0	0.003954	0	0		T	39424294	T	T	39424294	3	4	127	1	0	0	0	0	1	0	0	0	6059	643	23	1	6533	1	FREM2	13	39424294	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3907055	39424294	75745584	806	69886											
MRPS31	10240	broad.mit.edu	37	chr13	41323298	41323298	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcattgttaattgggaactCccatagtttcccctcttttg	7	18	6	10	0	2	0	1	0	1	0	4	1	4	1	3	1	1	2	3	1	3	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:41323298C>A	uc001uxm.3	-	6	1009	c.934G>T	c.(934-936)GAG>TAG	p.E312*		NM_005830	NP_005821	Q92665	RT31_HUMAN	mitochondrial ribosomal protein S31 precursor	312						mitochondrion|ribosome	protein domain specific binding				0		Lung NSC(96;3.55e-06)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;1.52e-08)|Epithelial(112;7.63e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000192)|GBM - Glioblastoma multiforme(144;0.00233)|BRCA - Breast invasive adenocarcinoma(63;0.0706)		ATTGGGAACTCCCATAGTTTC	0.373													44	228					4.00472e-15	4.46474e-15	0.01441	1	0		A	41323298	A	A	41323298	4	1	127	1	0	0	0	0	0	1	0	0	9859	864	30	5	261	5	MRPS31	13	41323298	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1899004	41323298	73846580	807	69887											
KIAA0564	23078	broad.mit.edu	37	chr13	42273343	42273343	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagccacttttcccagtcAtattcataaagtacagggaa	15	10	7	9	0	2	1	2	0	0	1	3	2	3	2	2	1	2	1	2	1	6	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:42273343A>G	uc001uyj.2	-	29	3498	c.3428T>C	c.(3427-3429)ATG>ACG	p.M1143T		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1143						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		TTTCCCAGTCATATTCATAAA	0.423													22	149					0	0	0.010818	0	0		G	42273343	G	G	42273343	3	3	127	1	0	0	0	0	1	0	0	0	8201	217	8	3	2357	3	KIAA0564	13	42273343	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	950045	42273343	72896535	808	69888											
EPSTI1	94240	broad.mit.edu	37	chr13	43543269	43543269	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaccggtttagctctgtTctgctccttccacttctcca	5	15	7	14	1	3	1	0	1	3	0	6	1	5	1	4	1	3	4	4	1	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:43543269T>A	uc001uyw.1	-	3	368	c.292A>T	c.(292-294)AAC>TAC	p.N98Y	EPSTI1_uc001uyx.1_Missense_Mutation_p.N98Y	NM_001002264	NP_001002264	Q96J88	ESIP1_HUMAN	epithelial stromal interaction 1 isoform 1	98	Potential.									ovary(1)	1		Lung NSC(96;3.6e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000528)|BRCA - Breast invasive adenocarcinoma(63;0.0858)		TTAGCTCTGTTCTGCTCCTTC	0.532													5	43					0	0	0.001168	0	0		A	43543269	A	A	43543269	3	1	127	1	0	0	0	0	1	0	0	0	5206	1783	62	5	984	5	EPSTI1	13	43543269	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1269926	43543269	71626609	809	69889											
ENOX1	55068	broad.mit.edu	37	chr13	43900600	43900600	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgttcttgcgctgggctttCgagaaatggtcccaagcttt	7	14	11	9	2	1	1	0	0	1	1	3	2	2	1	1	2	2	4	1	2	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:43900600C>T	uc001uza.3	-	10	1398	c.1098G>A	c.(1096-1098)TCG>TCA	p.S366S	ENOX1_uc001uzb.3_Silent_p.S366S|ENOX1_uc001uzc.3_Silent_p.S366S|ENOX1_uc001uyz.3_Intron|ENOX1_uc010tfm.1_Silent_p.S179S	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	366					electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		GCTGGGCTTTCGAGAAATGGT	0.418													22	129					0	0	0.014323	0	0		T	43900600	T	T	43900600	2	4	127	1	0	0	0	0	0	0	0	1	5134	871	31	1		1	ENOX1	13	43900600	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	357331	43900600	71269278	810	69890											
SIAH3	283514	broad.mit.edu	37	chr13	46425655	46425655	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgtgtgtggggttgacgAcacagacaagttgcccggca	8	9	16	8	2	0	2	0	1	0	1	0	3	0	2	1	4	1	4	1	4	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:46425655A>G	uc001vap.2	-	1	192	c.110T>C	c.(109-111)GTC>GCC	p.V37A		NM_198849	NP_942146	Q8IW03	SIAH3_HUMAN	seven in absentia homolog 3	37					multicellular organismal development|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding			ovary(1)|skin(1)	2						GGGGTTGACGACACAGACAAG	0.532													23	108					0	0	0.00278	0	0		G	46425655	G	G	46425655	3	3	127	1	0	0	0	0	1	0	0	0	14326	275	10	3	707	3	SIAH3	13	46425655	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2525055	46425655	68744223	811	69891											
C13orf18	80183	broad.mit.edu	37	chr13	46937325	46937325	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtacgtgtttcagtcactgGgctgacctgtaacacagcac	10	10	10	11	1	2	1	2	1	0	0	2	1	2	1	1	1	3	5	1	1	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:46937325G>A	uc010acl.2	-	6	1455	c.850C>T	c.(850-852)CCA>TCA	p.P284S	C13orf18_uc001vbf.3_Missense_Mutation_p.P217S|C13orf18_uc001vbg.3_Missense_Mutation_p.P12S|C13orf18_uc010tfz.1_Missense_Mutation_p.P127S|C13orf18_uc010acm.2_Missense_Mutation_p.P149S|C13orf18_uc010acn.2_Missense_Mutation_p.P69S|C13orf18_uc001vbe.3_Missense_Mutation_p.P284S|C13orf18_uc001vbh.3_Missense_Mutation_p.P284S|C13orf18_uc001vbi.3_Missense_Mutation_p.P127S|C13orf18_uc010aco.1_Missense_Mutation_p.P284S	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	284											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		TCAGTCACTGGGCTGACCTGT	0.373													7	53					0	0	0.001984	0	0		A	46937325	A	A	46937325	3	1	127	1	0	0	0	0	1	0	0	0	1723	1232	43	4	1178	4	C13orf18	13	46937325	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	511670	46937325	68232553	812	69892											
ATP7B	540	broad.mit.edu	37	chr13	52532477	52532477	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgttccagccaccggcccagGgcaatgaacacaaagagcat	13	5	10	13	1	0	2	0	1	0	1	1	2	1	2	4	2	3	3	4	2	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:52532477G>A	uc001vfw.2	-	8	2482	c.2325C>T	c.(2323-2325)GCC>GCT	p.A775A	ATP7B_uc010adv.2_Intron|ATP7B_uc001vfx.2_Intron|ATP7B_uc001vfy.2_Silent_p.A664A|ATP7B_uc010tgt.1_Silent_p.A775A|ATP7B_uc010tgu.1_Silent_p.A727A|ATP7B_uc010tgv.1_Intron|ATP7B_uc001vfv.2_Silent_p.A47A|ATP7B_uc010tgs.1_Silent_p.A47A|ATP7B_uc010tgw.1_3'UTR	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	775	Helical; (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		ACCGGCCCAGGGCAATGAACA	0.522									Wilson_disease				24	147					0	0	0.004656	0	0		A	52532477	A	A	52532477	2	1	127	1	0	0	0	0	0	0	0	1	1192	1219	43	4		4	ATP7B	13	52532477	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5595152	52532477	62637401	813	69893											
THSD1	55901	broad.mit.edu	37	chr13	52971858	52971858	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgaatttcttcttgccTcaggaagactgttggtgaag	8	15	11	7	0	4	3	1	2	3	1	4	4	4	4	1	2	1	1	1	2	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:52971858T>C	uc001vgo.2	-	3	1075	c.530A>G	c.(529-531)GAG>GGG	p.E177G	THSD1_uc001vgp.2_Missense_Mutation_p.E177G|THSD1_uc010tgz.1_Intron|THSD1_uc010aea.2_Intron	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	177	Extracellular (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		TCTTCTTGCCTCAGGAAGACT	0.502													23	68					0	0	0.00278	0	0		C	52971858	C	C	52971858	3	2	127	1	0	0	0	0	1	0	0	0	15902	1551	54	3	2040	3	THSD1	13	52971858	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	439381	52971858	62198020	814	69894											
PCDH8	5100	broad.mit.edu	37	chr13	53418924	53418924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccctgcgcagaggatccCgaggcagtgacgtgctctta	7	9	13	12	3	1	2	0	1	1	1	3	4	3	3	2	2	2	3	2	2	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:53418924C>T	uc001vhi.2	-	3	3187	c.2984G>A	c.(2983-2985)CGG>CAG	p.R995Q	PCDH8_uc001vhj.2_Missense_Mutation_p.R898Q	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	995	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		CAGAGGATCCCGAGGCAGTGA	0.597													18	121					0	0	0.00499	0	0		T	53418924	T	T	53418924	3	4	127	1	0	0	0	0	1	0	0	0	11536	652	23	1	232	1	PCDH8	13	53418924	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	447066	53418924	61750954	815	69895											
PCDH17	27253	broad.mit.edu	37	chr13	58206890	58206890	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgggtgctggagaactcCgcaccgcacctgctggacgt	7	7	13	14	4	0	1	0	0	0	1	1	3	1	2	4	3	4	4	4	3	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:58206890C>A	uc001vhq.1	+	1	1102	c.210C>A	c.(208-210)TCC>TCA	p.S70S	PCDH17_uc010aec.1_Silent_p.S70S	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	70	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TGGAGAACTCCGCACCGCACC	0.682													9	21					0.000274275	0.000281221	0.004482	1	0		A	58206890	A	A	58206890	2	1	127	1	0	0	0	0	0	0	0	1	11531	639	23	5		5	PCDH17	13	58206890	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4787966	58206890	56962988	816	69896											
PCDH17	27253	broad.mit.edu	37	chr13	58208123	58208123	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctctacgtgcttcaggtGcacgagaacaacatcccggg	9	7	13	12	3	2	1	1	0	1	1	3	2	3	1	1	3	5	3	1	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:58208123G>A	uc001vhq.1	+	1	2335	c.1443G>A	c.(1441-1443)GTG>GTA	p.V481V	PCDH17_uc010aec.1_Silent_p.V481V	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	481	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TGCTTCAGGTGCACGAGAACA	0.597													10	51					0	0	0.008291	0	0		A	58208123	A	A	58208123	2	1	127	1	0	0	0	0	0	0	0	1	11531	1306	46	2		2	PCDH17	13	58208123	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1233	58208123	56961755	817	69897											
DIAPH3	81624	broad.mit.edu	37	chr13	60565331	60565331	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatcagcaaaagatgctgaAgaatagaaataaaatatccc	21	7	7	6	0	1	4	1	1	0	3	2	5	2	4	1	0	2	2	1	0	10	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:60565331A>C	uc001vht.2	-	12	1541	c.1322T>G	c.(1321-1323)CTT>CGT	p.L441R	DIAPH3_uc001vhu.2_Missense_Mutation_p.L178R|DIAPH3_uc001vhv.2_Missense_Mutation_p.L19R	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	441	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		AAGATGCTGAAGAATAGAAAT	0.294													9	87					0	0	0.004482	0	0		C	60565331	C	C	60565331	3	2	127	1	0	0	0	0	1	0	0	0	4526	72	3	5	2347	5	DIAPH3	13	60565331	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2357208	60565331	54604547	818	69898											
DACH1	1602	broad.mit.edu	37	chr13	72134083	72134083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggggctatcaggaacaCgctcctgcaccagcaagaga	12	5	13	11	1	1	2	1	1	0	1	2	4	2	3	2	3	3	4	2	3	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:72134083C>T	uc010thn.1	-	6	1727	c.1304G>A	c.(1303-1305)CGT>CAT	p.R435H	DACH1_uc010tho.1_Intron|DACH1_uc010thp.1_Intron	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	487					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		ATCAGGAACACGCTCCTGCAC	0.498													7	26					0	0	0.001984	0	0		T	72134083	T	T	72134083	3	4	127	1	0	0	0	0	1	0	0	0	4223	536	19	1	844	1	DACH1	13	72134083	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	11568752	72134083	43035795	819	69899											
SLITRK1	114798	broad.mit.edu	37	chr13	84454827	84454827	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttgggcagggggcgcCgggagactagaatccactcg	7	8	15	11	3	2	2	0	0	2	2	4	3	3	2	2	4	0	1	2	4	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:84454827C>T	uc001vlk.2	-	1	1702	c.816G>A	c.(814-816)CCG>CCA	p.P272P		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	272	Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CAGGGGGCGCCGGGAGACTAG	0.552													13	73					0	0	0.001855	0	0		T	84454827	T	T	84454827	2	4	127	1	0	0	0	0	0	0	0	1	14767	639	23	1		1	SLITRK1	13	84454827	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	12320744	84454827	30715051	820	69900											
SLITRK5	26050	broad.mit.edu	37	chr13	88327712	88327712	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaatgcatagctggatgctGcagactctagcgtttgctgt	10	12	11	8	1	1	1	0	0	1	1	1	2	1	2	0	1	6	6	0	1	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:88327712G>A	uc001vln.2	+	2	288	c.69G>A	c.(67-69)CTG>CTA	p.L23L	SLITRK5_uc010tic.1_Intron	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	23						integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GCTGGATGCTGCAGACTCTAG	0.458													33	151					0	0	0.012213	0	0		A	88327712	A	A	88327712	2	1	127	1	0	0	0	0	0	0	0	1	14771	1306	46	2		2	SLITRK5	13	88327712	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3872885	88327712	26842166	821	69901											
TGDS	23483	broad.mit.edu	37	chr13	95244550	95244550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcaagattcttcaagcttGcacagtaatccagcttgaaa	13	13	6	9	0	3	2	2	1	1	1	4	2	4	2	1	0	3	4	1	0	4	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:95244550G>A	uc001vlw.2	-	3	288	c.167C>T	c.(166-168)GCA>GTA	p.A56V	TGDS_uc001vlx.2_RNA	NM_014305	NP_055120	O95455	TGDS_HUMAN	TDP-glucose 4,6-dehydratase	56					cellular metabolic process		coenzyme binding|dTDP-glucose 4,6-dehydratase activity|protein binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)					CTTCAAGCTTGCACAGTAATC	0.353													10	49					0	0	0.008291	0	0		A	95244550	A	A	95244550	3	1	127	1	0	0	0	0	1	0	0	0	15839	1319	46	2	925	2	TGDS	13	95244550	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	6916838	95244550	19925328	822	69902											
CLDN10	9071	broad.mit.edu	37	chr13	96086251	96086251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaactgcgcaggtaacgCgttgggttctttccattgcc	7	12	12	10	3	1	1	0	1	1	0	2	2	2	1	2	2	4	4	2	2	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:96086251C>T	uc001vmg.2	+	1	399	c.164C>T	c.(163-165)GCG>GTG	p.A55V	CLDN10_uc010tii.1_Intron	NM_182848	NP_878268	P78369	CLD10_HUMAN	claudin 10 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.18)			GCAGGTAACGCGTTGGGTTCT	0.493													25	107					0	0	0.012213	0	0		T	96086251	T	T	96086251	3	4	127	1	0	0	0	0	1	0	0	0	3475	768	27	1	166	1	CLDN10	13	96086251	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	841701	96086251	19083627	823	69903											
CLDN10	9071	broad.mit.edu	37	chr13	96205116	96205116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggtgtctaccatcgacGgcacggtcatcacaaccgcc	10	6	11	14	4	3	0	2	0	1	0	4	2	3	1	3	4	2	1	3	4	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:96205116G>A	uc001vmh.2	+	1	170	c.109G>A	c.(109-111)GGC>AGC	p.G37S	CLDN10_uc001vmg.2_Intron|CLDN10_uc010tii.1_Intron	NM_006984	NP_008915	P78369	CLD10_HUMAN	claudin 10 isoform b	37	Extracellular (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.18)			TACCATCGACGGCACGGTCAT	0.602													5	39					0	0	0.00308	0	0		A	96205116	A	A	96205116	3	1	127	1	0	0	0	0	1	0	0	0	3475	1116	39	1	329	1	CLDN10	13	96205116	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	118865	96205116	18964762	824	69904											
RNF113B	140432	broad.mit.edu	37	chr13	98829457	98829457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatacctggtctgcttggtCggccgtccttcctggagaag	5	11	13	12	2	1	1	0	0	1	1	4	2	3	1	4	4	2	2	4	4	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:98829457C>T	uc001vnk.2	-	1	65	c.34G>A	c.(34-36)GAC>AAC	p.D12N	FARP1_uc001vnh.2_Intron|FARP1_uc001vni.2_Intron|FARP1_uc001vnj.2_Intron	NM_178861	NP_849192	Q8IZP6	R113B_HUMAN	ring finger protein 113B	12							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.13)			TCTGCTTGGTCGGCCGTCCTT	0.542													3	25					0	0	0.009096	0	0		T	98829457	T	T	98829457	3	4	127	1	0	0	0	0	1	0	0	0	13453	884	31	1	942	1	RNF113B	13	98829457	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2624341	98829457	16340421	825	69905											
STK24	8428	broad.mit.edu	37	chr13	99109475	99109475	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcggagatgccagggcaCgcctcctccgctaggtagat	7	8	14	12	3	0	2	0	0	0	2	3	3	2	2	4	3	1	3	4	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:99109475C>T	uc001vnm.1	-	10	1477	c.1242G>A	c.(1240-1242)GCG>GCA	p.A414A	STK24_uc001vnn.1_Silent_p.A402A|STK24_uc010tim.1_Silent_p.A383A	NM_003576	NP_003567	Q9Y6E0	STK24_HUMAN	serine/threonine kinase 24 isoform a	414					cellular component disassembly involved in apoptosis|signal transduction	cytosol|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity	p.A414V(1)		ovary(1)|lung(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			TGCCAGGGCACGCCTCCTCCG	0.622													7	39					0	0	0.001984	0	0		T	99109475	T	T	99109475	2	4	127	1	0	0	0	0	0	0	0	1	15318	523	19	1		1	STK24	13	99109475	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	280018	99109475	16060403	826	69906											
SLC15A1	6564	broad.mit.edu	37	chr13	99354751	99354751	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctgattccattttccccTttttctggcttctggttaag	5	19	6	11	0	2	1	0	1	2	0	4	1	4	1	4	2	1	2	4	2	2	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:99354751T>C	uc001vno.2	-	18	1526	c.1449A>G	c.(1447-1449)AAA>AAG	p.K483K		NM_005073	NP_005064	P46059	S15A1_HUMAN	solute carrier family 15 (oligopeptide	483	Extracellular (Potential).				digestion|protein transport	integral to plasma membrane|membrane fraction	peptide:hydrogen symporter activity			ovary(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Cefadroxil(DB01140)|Ceftibuten(DB01415)|Cyclacillin(DB01000)	CATTTTCCCCTTTTTCTGGCT	0.254													22	116					0	0	0.00333	0	0		C	99354751	C	C	99354751	2	2	127	1	0	0	0	0	0	0	0	1	14423	1606	56	3		3	SLC15A1	13	99354751	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	245276	99354751	15815127	827	69907											
NALCN	259232	broad.mit.edu	37	chr13	101759837	101759837	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgaaatgaagtgtacttaCgcgttgaagcgtgctcggac	10	10	13	8	4	0	3	0	3	0	0	1	4	0	4	0	1	4	4	0	1	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:101759837C>T	uc001vox.1	-	22	2768	c.2579_splice	c.e22+1	p.A860_splice		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1							integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGTGTACTTACGCGTTGAAGC	0.502													23	94					0	0	0.00333	0	0		T	101759837	T	T	101759837	5	4	127	1	0	0	0	0	0	0	1	0	10166	550	19	1	2728	1	NALCN	13	101759837	Splice_Site	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2405086	101759837	13410041	828	69908											
KDELC1	79070	broad.mit.edu	37	chr13	103449310	103449310	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctagtgaattgctcctctgGtgctgagactttcacctgga	7	14	10	10	0	3	2	1	2	2	1	4	4	4	3	2	2	2	2	2	2	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:103449310G>T	uc001vpq.3	-	2	616	c.232C>A	c.(232-234)CCA>ACA	p.P78T	KDELC1_uc001vpr.3_5'UTR|BIVM_uc001vps.2_5'Flank|BIVM_uc010agc.2_5'Flank	NM_024089	NP_076994	Q6UW63	KDEL1_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 1 precursor	78	Filamin.					endoplasmic reticulum lumen				ovary(1)	1	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					TGCTCCTCTGGTGCTGAGACT	0.418													21	130					1.15919e-05	1.20071e-05	0.008871	1	0		T	103449310	T	T	103449310	3	4	127	1	0	0	0	0	1	0	0	0	8133	1261	44	5	1312	5	KDELC1	13	103449310	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1689473	103449310	11720568	829	69909											
MYO16	23026	broad.mit.edu	37	chr13	109779715	109779715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggcctgggccagtgcctcGttggcccgtccatctggtct	3	11	13	14	2	2	0	0	0	2	0	4	0	3	0	5	4	1	1	5	4	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:109779715G>A	uc001vqt.1	+	31	3928	c.3802G>A	c.(3802-3804)GTT>ATT	p.V1268I	MYO16_uc010agk.1_Missense_Mutation_p.V1290I|MYO16_uc010tjh.1_Missense_Mutation_p.V780I	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1268					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			CCAGTGCCTCGTTGGCCCGTC	0.617													8	34					0	0	0.008291	0	0		A	109779715	A	A	109779715	3	1	127	1	0	0	0	0	1	0	0	0	10082	1145	40	1	3920	1	MYO16	13	109779715	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	6330405	109779715	5390163	830	69910											
MYO16	23026	broad.mit.edu	37	chr13	109792726	109792726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggctcctacgaggagatatCggggtcccggcccggggacg	6	5	17	13	6	0	1	0	0	0	1	3	4	2	2	3	7	1	1	3	7	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr13:109792726C>T	uc001vqt.1	+	32	4226	c.4100C>T	c.(4099-4101)TCG>TTG	p.S1367L	MYO16_uc010agk.1_Missense_Mutation_p.S1389L	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1367					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			GAGGAGATATCGGGGTcccgg	0.527													7	34					0	0	0.00308	0	0		T	109792726	T	T	109792726	3	4	127	1	0	0	0	0	1	0	0	0	10082	893	31	1	4222	1	MYO16	13	109792726	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	13011	109792726	5377152	831	69911											
OR4Q3	441669	broad.mit.edu	37	chr14	20216007	20216007	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttacagtcatgaacccccagCtatgcctttggttggttctt	7	15	8	11	0	2	1	1	1	1	0	2	1	2	1	3	2	4	3	3	2	3	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:20216007C>T	uc010tkt.1	+	1	421	c.421C>T	c.(421-423)CTA>TTA	p.L141L		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GAACCCCCAGCTATGCCTTTG	0.498													16	108					0	0	0.00499	0	0		T	20216007	T	T	20216007	2	4	127	1	0	0	0	0	0	0	0	1	11100	796	28	2		2	OR4Q3	14	20216007	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08		20216007	87133533	832	69912											
RNASE6	6039	broad.mit.edu	37	chr14	21250106	21250106	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctgtgatttgctcagcaTtgtctgcaaaaatcgtcggc	8	14	10	9	2	3	1	1	1	2	0	5	1	3	1	0	1	3	3	0	1	2	2	rs139946247		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:21250106T>G	uc001vye.3	+	2	541	c.248T>G	c.(247-249)ATT>AGT	p.I83S		NM_005615	NP_005606	Q93091	RNAS6_HUMAN	ribonuclease, RNase A family, k6 precursor	83					defense response|RNA catabolic process	extracellular region	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00406)		Epithelial(56;9.21e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0126)		TTGCTCAGCATTGTCTGCAAA	0.468													32	102					0	0	0.009535	0	0		G	21250106	G	G	21250106	3	3	127	1	0	0	0	0	1	0	0	0	13432	1493	52	5	250	5	RNASE6	14	21250106	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1034099	21250106	86099434	833	69913											
ZNF219	51222	broad.mit.edu	37	chr14	21559656	21559656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccttgccggtggcgcccCggcccccttcaggccgggtc	3	7	13	18	4	1	0	1	0	0	0	3	0	2	0	7	5	1	0	7	5	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:21559656C>T	uc001vzr.2	-	4	1899	c.1478G>A	c.(1477-1479)CGG>CAG	p.R493Q	ZNF219_uc001vzs.2_Missense_Mutation_p.R493Q|ZNF219_uc010aik.1_Missense_Mutation_p.R493Q	NM_016423	NP_057507	Q9P2Y4	ZN219_HUMAN	zinc finger protein 219	493					negative regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|histamine receptor activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)	1	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;9.86e-11)|Epithelial(56;1.27e-08)|all cancers(55;6.06e-08)	GBM - Glioblastoma multiforme(265;0.0191)		GGTGGCGCCCCGGCCCCCTTC	0.602													26	102					0	0	0.00632	0	0		T	21559656	T	T	21559656	3	4	127	1	0	0	0	0	1	0	0	0	17798	652	23	1	698	1	ZNF219	14	21559656	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	309550	21559656	85789884	834	69914											
CHD8	57680	broad.mit.edu	37	chr14	21860061	21860061	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatctcccattactccattCgccatcaacttgtgcttctg	7	14	4	16	1	3	0	1	0	2	0	6	0	4	0	4	0	3	1	4	0	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:21860061C>T	uc001was.1	-	35	6073	c.5979G>A	c.(5977-5979)GCG>GCA	p.A1993A	CHD8_uc001war.1_Silent_p.A1889A	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	2272					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		TTACTCCATTCGCCATCAACT	0.428													11	65					0	0	0.010729	0	0		T	21860061	T	T	21860061	2	4	127	1	0	0	0	0	0	0	0	1	3334	871	31	1		1	CHD8	14	21860061	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	300405	21860061	85489479	835	69915											
RABGGTA	5875	broad.mit.edu	37	chr14	24737768	24737768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgcctgctgtccaaatgaCgcgaaatgtatgttggggca	10	10	12	9	3	0	1	0	1	0	0	2	2	1	1	2	2	1	4	2	2	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:24737768C>T	uc001wof.2	-	9	1380	c.958G>A	c.(958-960)GTC>ATC	p.V320I	RABGGTA_uc001woe.2_RNA|RABGGTA_uc001wog.2_Missense_Mutation_p.V320I|RABGGTA_uc001woh.2_RNA|RABGGTA_uc001woi.2_RNA	NM_004581	NP_004572	Q92696	PGTA_HUMAN	Rab geranylgeranyltransferase alpha	320					visual perception		Rab geranylgeranyltransferase activity|zinc ion binding				0				GBM - Glioblastoma multiforme(265;0.0184)		GTCCAAATGACGCGAAATGTA	0.542													24	92					0	0	0.007291	0	0		T	24737768	T	T	24737768	3	4	127	1	0	0	0	0	1	0	0	0	12992	536	19	1	777	1	RABGGTA	14	24737768	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2877707	24737768	82611772	836	69916											
ARHGAP5	394	broad.mit.edu	37	chr14	32562687	32562687	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttactctgttttttagtgatGttctagagaaaaaaaatatg	14	17	7	3	0	2	2	0	1	2	1	2	3	2	2	0	0	1	2	0	0	8	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:32562687G>T	uc001wrl.2	+	2	3051	c.2812G>T	c.(2812-2814)GTT>TTT	p.V938F	ARHGAP5_uc001wrm.2_Missense_Mutation_p.V938F|ARHGAP5_uc001wrn.2_Missense_Mutation_p.V938F|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	938					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		TTTTAGTGATGTTCTAGAGAA	0.338													16	66					3.52763e-06	3.67548e-06	0.00499	1	0		T	32562687	T	T	32562687	3	4	127	1	0	0	0	0	1	0	0	0	886	1377	48	5	2814	5	ARHGAP5	14	32562687	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	7824919	32562687	74786853	837	69917											
BAZ1A	11177	broad.mit.edu	37	chr14	35222777	35222777	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacattactgggtgtgacGtggagtccaagcttttgagc	8	12	12	9	1	0	2	0	2	0	0	2	3	2	3	2	2	3	1	2	2	2	3	rs114946696	by1000genomes	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:35222777G>A	uc001wsk.2	-	27	5176	c.4608C>T	c.(4606-4608)CAC>CAT	p.H1536H	BAZ1A_uc001wsl.2_Silent_p.H1504H	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1536					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		TGGGTGTGACGTGGAGTCCAA	0.423													12	60					0	0	0.001855	0	0		A	35222777	A	A	35222777	2	1	127	1	0	0	0	0	0	0	0	1	1330	1136	40	1		1	BAZ1A	14	35222777	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2660090	35222777	72126763	838	69918											
MIA2	117153	broad.mit.edu	37	chr14	39716693	39716693	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcacattcccaaacctcaAtccactggttggtttggtgg	9	11	10	11	0	1	0	1	0	0	0	3	1	3	0	3	4	2	3	3	4	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:39716693A>G	uc001wux.2	+	4	1109	c.915A>G	c.(913-915)CAA>CAG	p.Q305Q	MIA2_uc010amy.1_Silent_p.Q236Q	NM_054024	NP_473365	Q96PC5	MIA2_HUMAN	melanoma inhibitory activity 2	305						extracellular region				ovary(1)|breast(1)	2	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0216)		CCAAACCTCAATCCACTGGTT	0.413													34	132					0	0	0.003271	0	0		G	39716693	G	G	39716693	2	3	127	1	0	0	0	0	0	0	0	1	9582	98	4	3		3	MIA2	14	39716693	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	4493916	39716693	67632847	839	69919											
CDKL1	8814	broad.mit.edu	37	chr14	50824783	50824783	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaggaagggaccccctcCtccttttttctttttcttgg	4	17	7	13	0	3	0	1	0	2	0	5	2	5	2	4	3	0	0	4	3	1	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:50824783C>A	uc010anu.1	-	15	2185	c.2185G>T	c.(2185-2187)GGA>TGA	p.G729*	CDKL1_uc001wxz.2_Intron	NM_004196	NP_004187	Q00532	CDKL1_HUMAN	cyclin-dependent kinase-like 1	Error:Variant_position_missing_in_Q00532_after_alignment						cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(1)|stomach(1)	2	all_epithelial(31;0.000746)|Breast(41;0.0102)					GGACCCCCTCCTCCTTTTTTC	0.532													10	46					9.70103e-10	1.04297e-09	0.008291	1	0		A	50824783	A	A	50824783	4	1	127	1	0	0	0	0	0	1	0	0	3156	696	24	5		5	CDKL1	14	50824783	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	11108090	50824783	56524757	840	69920											
PTGDR	5729	broad.mit.edu	37	chr14	52734770	52734770	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgggcaagtgcctcctaAgcccggtggtgctggctgcc	4	9	15	13	1	0	0	0	0	0	0	1	0	1	0	4	4	5	4	4	4	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:52734770A>G	uc001wzq.2	+	1	340	c.238A>G	c.(238-240)AGC>GGC	p.S80G		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	80	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	GTGCCTCCTAAGCCCGGTGGT	0.647													7	60					0	0	0.001855	0	0		G	52734770	G	G	52734770	3	3	127	1	0	0	0	0	1	0	0	0	12763	72	3	3	240	3	PTGDR	14	52734770	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1909987	52734770	54614770	841	69921											
FERMT2	10979	broad.mit.edu	37	chr14	53386022	53386022	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgtgtcttcagaagccaAgttctcttcttttcccacca	9	14	5	13	0	4	1	1	0	3	1	6	1	5	1	3	0	1	1	3	0	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:53386022A>G	uc001xad.2	-	3	265	c.210T>C	c.(208-210)ACT>ACC	p.T70T	FERMT2_uc001xac.2_Silent_p.T70T|FERMT2_uc001xae.2_Silent_p.T70T|FERMT2_uc001xaf.2_Silent_p.T70T	NM_006832	NP_006823	Q96AC1	FERM2_HUMAN	fermitin family homolog 2 isoform 1	70					actin cytoskeleton organization|cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytosol|focal adhesion|stress fiber	binding				0	Breast(41;0.0342)					TCAGAAGCCAAGTTCTCTTCT	0.408													39	163					0	0	0.006999	0	0		G	53386022	G	G	53386022	2	3	127	1	0	0	0	0	0	0	0	1	5832	59	3	3		3	FERMT2	14	53386022	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	651252	53386022	53963518	842	69922											
CGRRF1	10668	broad.mit.edu	37	chr14	54996827	54996827	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttacatgctactgggggtGcagtgttcaaaaattatatg	11	13	10	7	0	1	0	1	0	0	0	1	0	1	0	1	2	4	3	1	2	6	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:54996827G>T	uc001xay.2	+	3	396	c.305G>T	c.(304-306)TGC>TTC	p.C102F	CGRRF1_uc010tra.1_Missense_Mutation_p.C102F|CGRRF1_uc001xaz.2_RNA	NM_006568	NP_006559	Q99675	CGRF1_HUMAN	cell growth regulator with ring finger domain 1	102					cell cycle arrest|negative regulation of cell proliferation|response to stress		zinc ion binding			ovary(1)	1						TACTGGGGGTGCAGTGTTCAA	0.388													18	85					6.94344e-10	7.47634e-10	0.006122	1	0		T	54996827	T	T	54996827	3	4	127	1	0	0	0	0	1	0	0	0	3309	1319	46	5	315	5	CGRRF1	14	54996827	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1610805	54996827	52352713	843	69923											
SOCS4	122809	broad.mit.edu	37	chr14	55510009	55510009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttagatcattcctgtgggCatcgatttttaggccgatct	8	15	9	9	2	2	1	1	0	1	1	4	3	3	1	2	2	0	1	2	2	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:55510009C>T	uc001xbo.2	+	3	815	c.250C>T	c.(250-252)CAT>TAT	p.H84Y	SOCS4_uc001xbp.2_Missense_Mutation_p.H84Y	NM_199421	NP_955453	Q8WXH5	SOCS4_HUMAN	suppressor of cytokine signaling 4	84					intracellular signal transduction|negative regulation of signal transduction|regulation of growth					ovary(1)|kidney(1)	2						TTCCTGTGGGCATCGATTTTT	0.443													36	161					0	0	0.004289	0	0		T	55510009	T	T	55510009	3	4	127	1	0	0	0	0	1	0	0	0	14941	710	25	2	252	2	SOCS4	14	55510009	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	513182	55510009	51839531	844	69924											
GPR135	64582	broad.mit.edu	37	chr14	59930738	59930738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctagtccggtagccctcctCgcggttgcgccctaggagca	5	8	12	16	4	0	0	0	0	0	0	3	1	2	1	5	3	3	3	5	3	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:59930738C>T	uc010apj.2	-	1	1322	c.1207G>A	c.(1207-1209)GAG>AAG	p.E403K	GPR135_uc001xed.2_RNA	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	403	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		TAGCCCTCCTCGCGGTTGCGC	0.627													17	37					0	0	0.006122	0	0		T	59930738	T	T	59930738	3	4	127	1	0	0	0	0	1	0	0	0	6659	893	31	1	281	1	GPR135	14	59930738	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4420729	59930738	47418802	845	69925											
C14orf135	64430	broad.mit.edu	37	chr14	60582161	60582161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagattggtattgtcagaCggattttgctaactttaggt	10	16	11	4	1	1	3	1	1	0	2	1	4	1	4	0	3	2	2	0	3	4	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:60582161C>T	uc001xer.3	+	3	1159	c.637C>T	c.(637-639)CGG>TGG	p.R213W	C14orf135_uc001xeq.2_Missense_Mutation_p.R213W|C14orf135_uc010apm.2_5'Flank	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	447						integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		TATTGTCAGACGGATTTTGCT	0.348													39	143					0	0	0.005524	0	0		T	60582161	T	T	60582161	3	4	127	1	0	0	0	0	1	0	0	0	1748	527	19	1	643	1	C14orf135	14	60582161	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	651423	60582161	46767379	846	69926											
KCNH5	27133	broad.mit.edu	37	chr14	63269270	63269270	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgaacacagatatcagcTctcatgtccttgggacagat	13	10	9	9	0	2	4	2	1	1	3	4	5	3	5	1	1	2	1	1	1	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:63269270T>C	uc001xfx.2	-	9	1650	c.1599A>G	c.(1597-1599)AGA>AGG	p.R533R	KCNH5_uc001xfy.2_Silent_p.R533R|KCNH5_uc001xfz.1_Silent_p.R475R	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	533	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		AGATATCAGCTCTCATGTCCT	0.448													8	49					0	0	0.00308	0	0		C	63269270	C	C	63269270	2	2	127	1	0	0	0	0	0	0	0	1	8051	1548	54	3		3	KCNH5	14	63269270	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2687109	63269270	44080270	847	69927											
SYNE2	23224	broad.mit.edu	37	chr14	64681174	64681174	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacgaggagggcccatactAcagcgcactgtcaggtaaca	12	5	13	11	2	1	0	1	0	0	0	1	3	1	2	1	4	4	2	1	4	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:64681174A>G	uc001xgm.2	+	106	19549	c.19319A>G	c.(19318-19320)TAC>TGC	p.Y6440C	SYNE2_uc001xgl.2_Missense_Mutation_p.Y6440C|SYNE2_uc010apy.2_Missense_Mutation_p.Y2825C|SYNE2_uc001xgn.2_Missense_Mutation_p.Y1402C|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.Y410C|SYNE2_uc001xgq.2_Missense_Mutation_p.Y805C|SYNE2_uc001xgr.2_Missense_Mutation_p.Y223C|SYNE2_uc010tsi.1_Missense_Mutation_p.Y74C|SYNE2_uc001xgs.2_Missense_Mutation_p.Y74C|SYNE2_uc001xgt.2_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6440	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GGCCCATACTACAGCGCACTG	0.602													7	37					0	0	0.00308	0	0		G	64681174	G	G	64681174	3	3	127	1	0	0	0	0	1	0	0	0	15471	391	14	3	19737	3	SYNE2	14	64681174	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1411904	64681174	42668366	848	69928											
ESR2	2100	broad.mit.edu	37	chr14	64724058	64724058	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaagagccgcacttggTcgaacaggctgagctccaca	10	7	10	14	2	1	2	0	1	1	1	4	3	2	2	3	2	3	3	3	2	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:64724058T>C	uc001xha.1	-	6	1445	c.977A>G	c.(976-978)GAC>GGC	p.D326G	ESR2_uc001xgu.2_Missense_Mutation_p.D326G|ESR2_uc001xgv.2_Missense_Mutation_p.D326G|ESR2_uc001xgw.2_Intron|ESR2_uc001xgx.2_Missense_Mutation_p.D326G|ESR2_uc001xgy.1_Missense_Mutation_p.D326G|ESR2_uc001xgz.1_Missense_Mutation_p.D326G|ESR2_uc010aqb.1_RNA|ESR2_uc010aqc.1_Intron|ESR2_uc010aqd.1_RNA	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1	326	Steroid-binding.				cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	CCGCACTTGGTCGAACAGGCT	0.572													25	144					0	0	0.004656	0	0		C	64724058	C	C	64724058	3	2	127	1	0	0	0	0	1	0	0	0	5265	1667	58	3	717	3	ESR2	14	64724058	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	42884	64724058	42625482	849	69929											
SPTB	6710	broad.mit.edu	37	chr14	65234410	65234410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctccagggcagcaaagcGctctgcccagctggccgtgg	6	7	13	15	2	2	0	0	0	2	0	3	0	2	0	3	3	4	4	3	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:65234410G>A	uc001xht.2	-	29	6244	c.6190C>T	c.(6190-6192)CGC>TGC	p.R2064C	SPTB_uc001xhr.2_Missense_Mutation_p.R2064C|SPTB_uc001xhs.2_Missense_Mutation_p.R2064C|SPTB_uc001xhu.2_Missense_Mutation_p.R2064C|SPTB_uc010aqi.2_Missense_Mutation_p.R725C	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	2064	Spectrin 17.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		GCAGCAAAGCGCTCTGCCCAG	0.607													18	107					0	0	0.006122	0	0		A	65234410	A	A	65234410	3	1	127	1	0	0	0	0	1	0	0	0	15143	1087	38	1	893	1	SPTB	14	65234410	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	510352	65234410	42115130	850	69930											
SLC8A3	6547	broad.mit.edu	37	chr14	70634344	70634344	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcggtgtttgtctgtgcGgtactttttgtgcatgtatt	3	20	11	7	2	1	0	0	0	1	0	3	0	2	0	1	2	3	4	1	2	2	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:70634344G>A	uc001xly.2	-	2	1550	c.796C>T	c.(796-798)CGC>TGC	p.R266C	SLC8A3_uc001xlw.2_Missense_Mutation_p.R266C|SLC8A3_uc001xlx.2_Missense_Mutation_p.R266C|SLC8A3_uc001xlz.2_Missense_Mutation_p.R266C|SLC8A3_uc010ara.2_RNA	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	266	Calmodulin-binding (By similarity).|Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		TTGTCTGTGCGGTACTTTTTG	0.468													12	68					0	0	0.010729	0	0		A	70634344	A	A	70634344	3	1	127	1	0	0	0	0	1	0	0	0	14733	1116	39	1	2126	1	SLC8A3	14	70634344	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5399934	70634344	36715196	851	69931											
PSEN1	5663	broad.mit.edu	37	chr14	73637541	73637541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggagcacaacgacagaCggagccttggccaccctgag	11	3	14	13	2	0	2	0	1	0	1	0	5	0	4	3	4	3	2	3	4	1	1	rs140189461		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:73637541C>T	uc001xnr.2	+	4	408	c.124C>T	c.(124-126)CGG>TGG	p.R42W	PSEN1_uc001xnv.2_Missense_Mutation_p.R38W|PSEN1_uc010ark.2_Missense_Mutation_p.R38W|PSEN1_uc001xnt.1_RNA|PSEN1_uc001xnu.2_RNA|PSEN1_uc001xnq.3_Missense_Mutation_p.R42W	NM_000021	NP_000012	P49768	PSN1_HUMAN	presenilin 1 isoform I-467	42	Cytoplasmic (Potential).				amyloid precursor protein catabolic process|anti-apoptosis|beta-amyloid metabolic process|cell-cell adhesion|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|smooth endoplasmic reticulum calcium ion homeostasis	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|gamma-secretase complex|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum|smooth endoplasmic reticulum|Z disc	aspartic-type endopeptidase activity|beta-catenin binding|cadherin binding|calcium channel activity|PDZ domain binding			breast(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.075)		CAACGACAGACGGAGCCTTGG	0.478													6	25					0	0	0.001984	0	0		T	73637541	T	T	73637541	3	4	127	1	0	0	0	0	1	0	0	0	12672	527	19	1	130	1	PSEN1	14	73637541	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3003197	73637541	33711999	852	69932											
HEATR4	399671	broad.mit.edu	37	chr14	73964917	73964917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggaaggtgtccctgacccGgtccccttgaagtttcaggg	7	10	13	11	1	1	2	1	2	0	0	3	3	3	3	4	4	0	1	4	4	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:73964917G>A	uc010tub.1	-	14	2810	c.2488C>T	c.(2488-2490)CGG>TGG	p.R830W	HEATR4_uc010tua.1_Missense_Mutation_p.R783W	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		TCCCTGACCCGGTCCCCTTGA	0.542													8	50					0	0	0.00308	0	0		A	73964917	A	A	73964917	3	1	127	1	0	0	0	0	1	0	0	0	7046	1115	39	1	612	1	HEATR4	14	73964917	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	327376	73964917	33384623	853	69933											
BATF	10538	broad.mit.edu	37	chr14	76012887	76012887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaactgaagtacttcacgtCggtgctgaacagccacgagc	11	7	12	11	3	1	2	1	2	0	0	2	4	1	3	1	2	6	2	1	2	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:76012887C>T	uc001xrr.2	+	3	493	c.251C>T	c.(250-252)TCG>TTG	p.S84L		NM_006399	NP_006390	Q16520	BATF_HUMAN	basic leucine zipper transcription factor,	84						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.028)		TACTTCACGTCGGTGCTGAAC	0.617													7	25					0	0	0.001984	0	0		T	76012887	T	T	76012887	3	4	127	1	0	0	0	0	1	0	0	0	1326	893	31	1	261	1	BATF	14	76012887	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2047970	76012887	31336653	854	69934											
VASH1	22846	broad.mit.edu	37	chr14	77229171	77229171	+	Frame_Shift_Del	DEL	G	-	-																															tcgaagatttagggatgccaGgggggaagaaggtggctggg																										TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:77229171delG	uc001xst.2	+	1	937	c.7delG	c.(7-9)GGGfs	p.G3fs	VASH1_uc001xss.2_Frame_Shift_Del_p.G3fs	NM_014909	NP_055724	Q7L8A9	VASH1_HUMAN	vasohibin 1	3					cell cycle arrest|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of endothelial cell proliferation	endoplasmic reticulum|extracellular space					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0283)		AGGGATGCCAGGGGGGAAGAA	0.647													8	11	---	---	---	---						.	-	77229171	-	-	77229171	7	5	127	1	0	1	0	1	0	0	0	0	17151	1000	35	0	9	0	VASH1	14	77229171	Frame_Shift_Del	DEL	G	TCGA-CG-4305-01A-01D-1158-08	1216284	77229171	30120369	855	69935											
STON2	85439	broad.mit.edu	37	chr14	81744923	81744923	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggagaggtgactggtggTaaagggcagctgacttcatt	11	9	16	5	0	1	4	1	2	0	2	1	5	1	4	0	5	1	3	0	5	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:81744923T>C	uc010tvu.1	-	4	933	c.732A>G	c.(730-732)TTA>TTG	p.L244L	STON2_uc001xvk.1_Silent_p.L244L|STON2_uc010tvt.1_Silent_p.L41L	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	244					endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		TGACTGGTGGTAAAGGGCAGC	0.512													16	101					0	0	0.004007	0	0		C	81744923	C	C	81744923	2	2	127	1	0	0	0	0	0	0	0	1	15343	1635	57	3		3	STON2	14	81744923	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	4515752	81744923	25604617	856	69936											
ATXN3	4287	broad.mit.edu	37	chr14	92548751	92548751	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaatcctcctcatcttcgTctaacattcctgagccatca	10	12	4	15	1	4	1	2	1	2	0	8	1	7	1	4	0	2	1	4	0	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:92548751T>C	uc001yac.3	-	8	737	c.668A>G	c.(667-669)GAC>GGC	p.D223G	ATXN3_uc010aug.2_Missense_Mutation_p.D208G|ATXN3_uc001yad.3_Missense_Mutation_p.D168G|ATXN3_uc010auh.2_Missense_Mutation_p.D157G|ATXN3_uc001yae.3_Missense_Mutation_p.D125G|ATXN3_uc010twl.1_RNA	NM_004993	NP_004984	P54252	ATX3_HUMAN	ataxin 3 reference isoform	223					cell death|nervous system development|nucleotide-excision repair|regulation of transcription, DNA-dependent|synaptic transmission|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleoplasm	cysteine-type peptidase activity|protein binding				0		all_cancers(154;0.0768)		COAD - Colon adenocarcinoma(157;0.224)		CTCATCTTCGTCTAACATTCC	0.448													30	119					0	0	0.009535	0	0		C	92548751	C	C	92548751	3	2	127	1	0	0	0	0	1	0	0	0	1214	1667	58	3	433	3	ATXN3	14	92548751	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	10803828	92548751	14800789	857	69937											
DDX24	57062	broad.mit.edu	37	chr14	94528520	94528520	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggagtcagaaccagtccaAgcagaggacgctttggatat	12	8	13	8	1	1	2	1	0	0	2	2	5	2	5	2	3	2	2	2	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:94528520A>C	uc001ycj.2	-	3	1265	c.1166T>G	c.(1165-1167)CTT>CGT	p.L389R	DDX24_uc010twq.1_Missense_Mutation_p.L346R|DDX24_uc010twr.1_Missense_Mutation_p.L139R	NM_020414	NP_065147	Q9GZR7	DDX24_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 24	389	Helicase ATP-binding.				RNA metabolic process	cytoplasm|nucleolus|nucleolus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|skin(1)	4		all_cancers(154;0.12)		Epithelial(152;0.114)|all cancers(159;0.19)|COAD - Colon adenocarcinoma(157;0.207)		AACCAGTCCAAGCAGAGGACG	0.458													32	113					0	0	0.013726	0	0		C	94528520	C	C	94528520	3	2	127	1	0	0	0	0	1	0	0	0	4354	72	3	5	1441	5	DDX24	14	94528520	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1979769	94528520	12821020	858	69938											
SERPINA11	256394	broad.mit.edu	37	chr14	94912669	94912669	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgctgtgacacttaccTgggcaggagcaattggcccc	7	10	11	13	0	1	1	0	1	1	0	1	2	1	2	3	3	3	3	3	3	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:94912669T>C	uc001ydd.1	-	3	976	c.916A>G	c.(916-918)AGT>GGT	p.S306G		NM_001080451	NP_001073920	Q86U17	SPA11_HUMAN	serpin peptidase inhibitor, clade A (alpha-1	306					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			kidney(1)	1				COAD - Colon adenocarcinoma(157;0.211)		GACACTTACCTGGGCAGGAGC	0.562													33	137					0	0	0.004878	0	0		C	94912669	C	C	94912669	3	2	127	1	0	0	0	0	1	0	0	0	14113	1594	55	3	364	3	SERPINA11	14	94912669	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	384149	94912669	12436871	859	69939											
BEGAIN	57596	broad.mit.edu	37	chr14	101004887	101004887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcggtccccggcttggcccGcaggctccacaggtttgggg	3	7	17	14	3	0	0	0	0	0	0	2	0	2	0	4	8	0	4	4	8	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:101004887G>A	uc010txa.1	-	6	1347	c.1201C>T	c.(1201-1203)CGG>TGG	p.R401W	BEGAIN_uc001yhp.2_Missense_Mutation_p.R337W|BEGAIN_uc001yhq.2_Missense_Mutation_p.R401W	NM_001159531	NP_001153003	Q9BUH8	BEGIN_HUMAN	brain-enriched guanylate kinase-associated	401						cytoplasm|membrane	protein binding				0		Melanoma(154;0.212)				GGCTTGGCCCGCAGGCTCCAC	0.721													4	3					0	0	0.009096	0	0		A	101004887	A	A	101004887	3	1	127	1	0	0	0	0	1	0	0	0	1398	1086	38	1	584	1	BEGAIN	14	101004887	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	6092218	101004887	6344653	860	69940											
HSP90AA1	3320	broad.mit.edu	37	chr14	102568317	102568317	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacagggaatgcagagacGtggaagggctgtttccagag	11	7	17	6	1	0	3	0	1	0	2	1	6	1	5	1	3	1	3	1	3	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:102568317G>A	uc001ykv.3	-	2	606	c.261C>T	c.(259-261)CAC>CAT	p.H87H		NM_001017963	NP_001017963	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 1	Error:Variant_position_missing_in_P07900_after_alignment					axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	ATGCAGAGACGTGGAAGGGCT	0.522													24	88					0	0	0.008361	0	0		A	102568317	A	A	102568317	2	1	127	1	0	0	0	0	0	0	0	1	7417	1136	40	1		1	HSP90AA1	14	102568317	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1563430	102568317	4781223	861	69941											
AMN	81693	broad.mit.edu	37	chr14	103390157	103390157	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcgccgttgagttcccGgcggacaaggtgcctgggag	5	6	19	11	5	0	1	0	1	0	0	1	3	1	3	3	6	1	2	3	6	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:103390157G>A	uc001ymg.3	+	2	186	c.153G>A	c.(151-153)CCG>CCA	p.P51P	AMN_uc001ymh.3_5'UTR	NM_030943	NP_112205	Q9BXJ7	AMNLS_HUMAN	amnionless protein precursor	51	Extracellular (Potential).				lipid metabolic process|lipoprotein metabolic process|multicellular organismal development	integral to membrane|plasma membrane					0				Colorectal(3;0.00739)|READ - Rectum adenocarcinoma(2;0.0336)|Epithelial(152;0.0363)|all cancers(159;0.147)	Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTGAGTTCCCGGCGGACAAGG	0.716													13	57					0	0	0.003163	0	0		A	103390157	A	A	103390157	2	1	127	1	0	0	0	0	0	0	0	1	580	1103	39	1		1	AMN	14	103390157	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	821840	103390157	3959383	862	69942											
MARK3	4140	broad.mit.edu	37	chr14	103958244	103958244	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggccagccccgggaacggCgaaccgcaacatataatggc	12	3	12	14	5	0	0	0	0	0	0	0	2	0	1	4	4	4	1	4	4	5	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:103958244C>T	uc001ymz.3	+	15	2383	c.1717C>T	c.(1717-1719)CGA>TGA	p.R573*	MARK3_uc001ymx.3_Nonsense_Mutation_p.R573*|MARK3_uc001ymw.3_Nonsense_Mutation_p.R573*|MARK3_uc001yna.3_Nonsense_Mutation_p.R557*|MARK3_uc001ymy.3_Nonsense_Mutation_p.R494*|MARK3_uc010awp.2_Nonsense_Mutation_p.R596*|MARK3_uc010tyb.1_Nonsense_Mutation_p.R368*|MARK3_uc010awq.2_Nonsense_Mutation_p.R155*	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	573							ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			CCGGGAACGGCGAACCGCAAC	0.572													11	33					0	0	0.008291	0	0		T	103958244	T	T	103958244	4	4	127	1	0	0	0	0	0	1	0	0	9332	760	27	1	1775	1	MARK3	14	103958244	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	568087	103958244	3391296	863	69943											
TMEM121	80757	broad.mit.edu	37	chr14	105995256	105995256	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgtcatggacgcgtacCtggtggagcagaaccagggc	8	6	16	11	3	1	1	1	0	0	1	1	3	1	3	3	5	3	2	3	5	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr14:105995256C>A	uc001yrp.1	+	2	236	c.85C>A	c.(85-87)CTG>ATG	p.L29M	ADAM6_uc010tyt.1_Intron|uc001yrr.2_5'Flank	NM_025268	NP_079544	Q9BTD3	TM121_HUMAN	hole protein	29	Helical; (Potential).					integral to membrane					0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0188)	Epithelial(152;0.0959)|all cancers(159;0.235)		GGACGCGTACCTGGTGGAGCA	0.632													5	7					0.000602214	0.00061524	0.000602	1	0		A	105995256	A	A	105995256	3	1	127	1	0	0	0	0	1	0	0	0	16060	680	24	5	87	5	TMEM121	14	105995256	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2037012	105995256	1354284	864	69944											
NDN	4692	broad.mit.edu	37	chr15	23931631	23931631	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggacgcgctggtacttcAggtaattcatttggacgaac	10	11	12	8	3	2	0	2	0	0	0	2	3	2	2	0	4	2	3	0	4	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:23931631A>G	uc001ywk.2	-	1	820	c.734T>C	c.(733-735)CTG>CCG	p.L245P		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	245	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		CTGGTACTTCAGGTAATTCAT	0.582									Prader-Willi_syndrome				9	48					0	0	0.010729	0	0		G	23931631	G	G	23931631	3	3	127	1	0	0	0	0	1	0	0	0	10266	188	7	3	235	3	NDN	15	23931631	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08		23931631	78599761	865	69945											
HERC2	8924	broad.mit.edu	37	chr15	28443796	28443796	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtaggtgccccctttctgCtgccagtcacactgcacatt	7	11	8	15	0	2	0	1	0	1	0	2	0	2	0	3	1	4	3	3	1	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:28443796C>T	uc001zbj.2	-	49	7942	c.7836G>A	c.(7834-7836)CAG>CAA	p.Q2612Q	HERC2_uc001zbk.1_Silent_p.Q147Q	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2612					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CCCCTTTCTGCTGCCAGTCAC	0.453													28	126					0	0	0.00632	0	0		T	28443796	T	T	28443796	2	4	127	1	0	0	0	0	0	0	0	1	7074	796	28	2		2	HERC2	15	28443796	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4512165	28443796	74087596	866	69946											
MTMR15	22909	broad.mit.edu	37	chr15	31197145	31197145	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagatttaaccagtgttacCttagaagatgtaacacctaa	15	12	7	7	0	0	3	0	0	0	3	0	3	0	3	3	0	3	3	3	0	7	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:31197145C>A	uc001zff.2	+	2	570	c.279C>A	c.(277-279)ACC>ACA	p.T93T	MTMR15_uc001zfc.3_Silent_p.T93T|MTMR15_uc010azw.2_Silent_p.T93T|MTMR15_uc001zfd.3_Silent_p.T93T|MTMR15_uc001zfe.2_5'UTR	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a	93					double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		CCAGTGTTACCTTAGAAGATG	0.398								Direct_reversal_of_damage|Editing_and_processing_nucleases					15	59					0.00244969	0.0024919	0.00245	1	0		A	31197145	A	A	31197145	2	1	127	1	0	0	0	0	0	0	0	1	9961	668	24	5		5	MTMR15	15	31197145	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2753349	31197145	71334247	867	69947											
RYR3	6263	broad.mit.edu	37	chr15	34130387	34130387	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaatctaagcgacagttcaTttttgatgttgtcaatgaag	12	14	10	5	1	3	2	2	2	1	0	3	4	3	3	0	1	1	2	0	1	4	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:34130387T>C	uc001zhi.2	+	89	12276	c.12206T>C	c.(12205-12207)ATT>ACT	p.I4069T	RYR3_uc010bar.2_Missense_Mutation_p.I4064T	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4069					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CGACAGTTCATTTTTGATGTT	0.463													28	90					0	0	0.012213	0	0		C	34130387	C	C	34130387	3	2	127	1	0	0	0	0	1	0	0	0	13795	1493	52	3	12560	3	RYR3	15	34130387	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2933242	34130387	68401005	868	69948											
AQR	9716	broad.mit.edu	37	chr15	35167043	35167043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcataatccatcgttttagtCggctaaatccatcctgagga	11	13	7	10	2	1	1	1	1	0	0	6	2	4	2	3	2	0	2	3	2	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:35167043C>T	uc001ziv.2	-	29	3441	c.3260G>A	c.(3259-3261)CGA>CAA	p.R1087Q		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	1087						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		TCGTTTTAGTCGGCTAAATCC	0.393													16	112					0	0	0.003163	0	0		T	35167043	T	T	35167043	3	4	127	1	0	0	0	0	1	0	0	0	835	884	31	1	1225	1	AQR	15	35167043	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1036656	35167043	67364349	869	69949											
BUB1B	701	broad.mit.edu	37	chr15	40488752	40488752	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgcttctttaggacaccAtgtaaaattgaacctagtat	12	16	6	7	0	1	1	0	1	1	0	1	2	1	2	2	1	2	3	2	1	6	9			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:40488752A>G	uc001zkx.3	+	9	1277	c.1065A>G	c.(1063-1065)CCA>CCG	p.P355P	BUB1B_uc010ucl.1_Silent_p.P218P	NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	355					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		TTAGGACACCATGTAAAATTG	0.348			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				5	131					0	0	0.000602	0	0		G	40488752	G	G	40488752	2	3	127	1	0	0	0	0	0	0	0	1	1574	204	8	3		3	BUB1B	15	40488752	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5321709	40488752	62042640	870	69950											
TYRO3	7301	broad.mit.edu	37	chr15	41865886	41865886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtcccagtgggcgttcGgggtgaccatgtgggagatc	5	11	16	9	2	1	2	0	1	1	1	4	3	2	2	2	4	0	1	2	4	0	2	rs67202013		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:41865886G>A	uc001zof.1	+	18	2379	c.2155G>A	c.(2155-2157)GGG>AGG	p.G719R		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	719	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GTGGGCGTTCGGGGTGACCAT	0.572													29	107					0	0	0.008361	0	0		A	41865886	A	A	41865886	3	1	127	1	0	0	0	0	1	0	0	0	16840	1116	39	1	2225	1	TYRO3	15	41865886	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1377134	41865886	60665506	871	69951											
TYRO3	7301	broad.mit.edu	37	chr15	41870287	41870287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagggatcagccctacaGtggggctggggatggcagtg	7	7	19	8	0	1	0	1	0	0	0	1	2	1	2	1	7	2	3	1	7	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:41870287G>A	uc001zof.1	+	19	2710	c.2486G>A	c.(2485-2487)AGT>AAT	p.S829N		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	829	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		CAGCCCTACAGTGGGGCTGGG	0.642													11	80					0	0	0.008291	0	0		A	41870287	A	A	41870287	3	1	127	1	0	0	0	0	1	0	0	0	16840	1029	36	4	2560	4	TYRO3	15	41870287	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	4401	41870287	60661105	872	69952											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42133713	42133713	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggctgtcttcatgactcAggcccgggagctctcctgct	5	10	13	13	1	4	1	2	1	2	0	5	2	4	2	2	4	2	3	2	4	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:42133713A>C	uc010bco.2	+	7	537	c.436_splice	c.e7-2	p.A146_splice	JMJD7-PLA2G4B_uc001zoo.3_Splice_Site_p.A377_splice|JMJD7-PLA2G4B_uc010bcn.2_Splice_Site_p.A377_splice|JMJD7-PLA2G4B_uc001zoq.3_Splice_Site|JMJD7-PLA2G4B_uc001zor.1_5'Flank	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB						arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						TTCATGACTCAGGCCCGGGAG	0.612													7	35					0	0	0.006214	0	0		C	42133713	C	C	42133713	5	2	127	1	0	0	0	0	0	0	1	0	7971	202	7	5	1173	5	JMJD7-PLA2G4B	15	42133713	Splice_Site	SNP	A	TCGA-CG-4305-01A-01D-1158-08	263426	42133713	60397679	873	69953											
SPTBN5	51332	broad.mit.edu	37	chr15	42178429	42178429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatgctgccagtagctgccGcatggcgggcagcgagtctg	7	7	16	11	3	1	0	0	0	1	0	1	2	1	0	2	2	5	5	2	2	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:42178429G>A	uc001zos.2	-	7	1252	c.919C>T	c.(919-921)CGG>TGG	p.R307W		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	342	Spectrin 1.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		AGTAGCTGCCGCATGGCGGGC	0.637													4	19					0	0	0.00308	0	0		A	42178429	A	A	42178429	3	1	127	1	0	0	0	0	1	0	0	0	15147	1086	38	1	10248	1	SPTBN5	15	42178429	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	44716	42178429	60352963	874	69954											
SLC24A5	283652	broad.mit.edu	37	chr15	48428959	48428959	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattaaaattaaccaatatAttataaagaaatgcagtcct	20	12	3	6	0	0	1	0	0	0	1	1	1	1	1	2	0	2	1	2	0	10	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:48428959A>G	uc001zwe.2	+	6	743	c.670A>G	c.(670-672)ATT>GTT	p.I224V	SLC24A5_uc010bel.2_Missense_Mutation_p.I164V|uc001zwf.1_RNA	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	224	Cytoplasmic (Potential).				response to stimulus	integral to membrane|melanosome|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity				0		all_lung(180;0.00217)		all cancers(107;3.29e-10)|GBM - Glioblastoma multiforme(94;7.32e-07)		TAACCAATATATTATAAAGAA	0.388													15	43					0	0	0.003163	0	0		G	48428959	G	G	48428959	3	3	127	1	0	0	0	0	1	0	0	0	14494	449	16	3	692	3	SLC24A5	15	48428959	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	6250530	48428959	54102433	875	69955											
CEP152	22995	broad.mit.edu	37	chr15	49044577	49044577	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgttgcttgtaaggccaaGggctgagcatggtgtccagc	7	11	14	9	0	1	1	0	1	1	0	2	1	2	1	2	3	3	5	2	3	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:49044577G>T	uc001zwy.2	-	21	3469	c.3435C>A	c.(3433-3435)CCC>CCA	p.P1145P	CEP152_uc001zwz.2_Silent_p.P1145P|CEP152_uc001zxa.1_Silent_p.P1052P	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	1145					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		GTAAGGCCAAGGGCTGAGCAT	0.438													29	153					1.88708e-17	2.12054e-17	0.008361	1	0		T	49044577	T	T	49044577	2	4	127	1	0	0	0	0	0	0	0	1	3251	987	35	5		5	CEP152	15	49044577	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	615618	49044577	53486815	876	69956											
CEP152	22995	broad.mit.edu	37	chr15	49048345	49048345	+	Missense_Mutation	SNP	G	A	A																															atagatttccagttggatccGcttggcttcctgcatagtcc																										TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:49048345G>A	uc001zwy.2	-	20	3134	c.3100C>T	c.(3100-3102)CGG>TGG	p.R1034W	CEP152_uc001zwz.2_Missense_Mutation_p.R1034W|CEP152_uc001zxa.1_Missense_Mutation_p.R941W	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	1034					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		AGTTGGATCCGCTTGGCTTCC	0.413													46	128					0	0	0.013114	0	0		A	49048345	A	A	49048345	3	1	127	1	0	0	0	0	1	0	0	0	3251	1086	38	1	1892	1	CEP152	15	49048345	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3768	49048345	53483047	877	69957	130	2									
CEP152	22995	broad.mit.edu	37	chr15	49048347	49048347	+	Missense_Mutation	SNP	T	C	C																															agatttccagttggatccgcTtggcttcctgcatagtccat																										TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:49048347T>C	uc001zwy.2	-	20	3132	c.3098A>G	c.(3097-3099)AAG>AGG	p.K1033R	CEP152_uc001zwz.2_Missense_Mutation_p.K1033R|CEP152_uc001zxa.1_Missense_Mutation_p.K940R	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	1033					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		TTGGATCCGCTTGGCTTCCTG	0.413													8	171					0	0	0.00308	0	0		C	49048347	C	C	49048347	3	2	127	1	0	0	0	0	1	0	0	0	3251	1609	56	3	1894	3	CEP152	15	49048347	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2	49048347	53483045	878	69958	130	2									
CYP19A1	1588	broad.mit.edu	37	chr15	51504611	51504611	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggataatgtttgtccccTttttcactgggtagccatcg	7	15	9	10	1	2	0	2	0	0	0	4	1	3	1	3	2	1	2	3	2	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:51504611T>C	uc001zyz.3	-	10	1420	c.1169A>G	c.(1168-1170)AAG>AGG	p.K390R	CYP19A1_uc001zza.3_Missense_Mutation_p.K390R|CYP19A1_uc001zzb.2_Missense_Mutation_p.K390R	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	390					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	GTTTGTCCCCTTTTTCACTGG	0.413													41	156					0	0	0.011902	0	0		C	51504611	C	C	51504611	3	2	127	1	0	0	0	0	1	0	0	0	4151	1609	56	3	350	3	CYP19A1	15	51504611	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2456264	51504611	51026781	879	69959											
DMXL2	23312	broad.mit.edu	37	chr15	51829690	51829690	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaataaaatatacctgaaCttgtctaaatattccaggat	17	13	4	7	0	2	1	1	1	1	0	3	2	3	2	2	1	2	0	2	1	9	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:51829690C>G	uc002abf.2	-	11	1837	c.1612G>C	c.(1612-1614)GTT>CTT	p.V538L	DMXL2_uc010ufy.1_Missense_Mutation_p.V538L|DMXL2_uc010bfa.2_Missense_Mutation_p.V538L	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	538						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		TATACCTGAACTTGTCTAAAT	0.284													16	53					0	0	0.003163	0	0		G	51829690	G	G	51829690	3	3	127	1	0	0	0	0	1	0	0	0	4601	565	20	5	7633	5	DMXL2	15	51829690	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	325079	51829690	50701702	880	69960											
SNX1	6642	broad.mit.edu	37	chr15	64424090	64424090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcctcctggccatagtccGcgtaagcttctgtttccttt	4	15	8	14	3	1	0	0	0	1	0	5	0	4	0	5	1	1	3	5	1	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:64424090G>A	uc002amv.2	+	11	1256	c.1220G>A	c.(1219-1221)CGC>CAC	p.R407H	SNX1_uc010bgv.2_Missense_Mutation_p.R121H|SNX1_uc010uio.1_Missense_Mutation_p.R407H|SNX1_uc002amw.2_Missense_Mutation_p.R407H|SNX1_uc002amx.2_Missense_Mutation_p.R342H|SNX1_uc002amy.2_Missense_Mutation_p.R336H|SNX1_uc010bgw.2_Missense_Mutation_p.R309H	NM_003099	NP_003090	Q13596	SNX1_HUMAN	sorting nexin 1 isoform a	407	BAR.				cell communication|early endosome to Golgi transport|endocytosis|intracellular protein transport	early endosome membrane|Golgi apparatus	phosphatidylinositol binding|protein binding|protein transporter activity				0						GCCATAGTCCGCGTAAGCTTC	0.468													20	81					0	0	0.010504	0	0		A	64424090	A	A	64424090	3	1	127	1	0	0	0	0	1	0	0	0	14905	1101	38	1	1262	1	SNX1	15	64424090	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	12594400	64424090	38107302	881	69961											
TRIP4	9325	broad.mit.edu	37	chr15	64689965	64689965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taactgtctgatctgtgggcGcattgtctgtgaacaagaag	10	12	12	7	1	3	3	0	2	3	1	3	3	3	3	0	1	2	1	0	1	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:64689965G>A	uc002anm.2	+	4	609	c.566G>A	c.(565-567)CGC>CAC	p.R189H		NM_016213	NP_057297	Q15650	TRIP4_HUMAN	thyroid hormone receptor interactor 4	189					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ligand-dependent nuclear receptor binding|transcription coactivator activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3						ATCTGTGGGCGCATTGTCTGT	0.468													23	88					0	0	0.004656	0	0		A	64689965	A	A	64689965	3	1	127	1	0	0	0	0	1	0	0	0	16584	1087	38	1	580	1	TRIP4	15	64689965	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	265875	64689965	37841427	882	69962											
IGDCC3	9543	broad.mit.edu	37	chr15	65623874	65623874	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcacattgcggggaggcccGgggagcccctcagcccacag	7	3	15	16	3	1	0	1	0	0	0	1	2	1	2	4	5	3	1	4	5	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:65623874G>A	uc002aos.2	-	8	1524	c.1272C>T	c.(1270-1272)CCC>CCT	p.P424P	IGDCC3_uc002aor.1_5'Flank	NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	424	Extracellular (Potential).|Fibronectin type-III 1.									ovary(3)	3						GGGGAGGCCCGGGGAGCCCCT	0.622													7	25					0	0	0.00308	0	0		A	65623874	A	A	65623874	2	1	127	1	0	0	0	0	0	0	0	1	7584	1103	39	1		1	IGDCC3	15	65623874	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	933909	65623874	36907518	883	69963											
SMAD6	4091	broad.mit.edu	37	chr15	67073679	67073679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgcgcaaggtgccccccGgctactccatcaaggtgttc	6	9	11	15	3	1	0	1	0	0	0	4	0	2	0	4	3	3	3	4	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:67073679G>A	uc002aqf.2	+	4	2220	c.1297G>A	c.(1297-1299)GGC>AGC	p.G433S	SMAD6_uc010bhx.2_RNA|SMAD6_uc002aqg.2_Missense_Mutation_p.G172S	NM_005585	NP_005576	O43541	SMAD6_HUMAN	SMAD family member 6 isoform 1	433	MH2.				BMP signaling pathway|immune response|negative regulation of apoptosis|negative regulation of BMP signaling pathway|negative regulation of caspase activity|negative regulation of pathway-restricted SMAD protein phosphorylation|negative regulation of SMAD protein complex assembly|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of S phase of mitotic cell cycle|response to laminar fluid shear stress|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	cytosol|transcription factor complex	co-SMAD binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, inhibitory cytoplasmic mediator activity|type I activin receptor binding|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			skin(1)	1						GGTGCCCCCCGGCTACTCCAT	0.726													12	29					0	0	0.001855	0	0		A	67073679	A	A	67073679	3	1	127	1	0	0	0	0	1	0	0	0	14787	1116	39	1	1349	1	SMAD6	15	67073679	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1449805	67073679	35457713	884	69964											
MYO9A	4649	broad.mit.edu	37	chr15	72338102	72338102	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaagaataatctgttctActccactggcaaatcctttc	11	13	4	13	0	2	1	0	0	2	1	6	1	5	1	3	1	1	2	3	1	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:72338102A>G	uc002atl.3	-	2	1276	c.803T>C	c.(802-804)GTA>GCA	p.V268A	MYO9A_uc010biq.2_Intron|MYO9A_uc002ato.2_Missense_Mutation_p.V268A|MYO9A_uc002atn.1_Missense_Mutation_p.V268A	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	268	Myosin head-like 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						AATCTGTTCTACTCCACTGGC	0.378													17	112					0	0	0.00499	0	0		G	72338102	G	G	72338102	3	3	127	1	0	0	0	0	1	0	0	0	10102	391	14	3	7007	3	MYO9A	15	72338102	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	5264423	72338102	30193290	885	69965											
SIN3A	25942	broad.mit.edu	37	chr15	75705355	75705355	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcctttgaatagctgggAcacacgactaatcactcctg	10	10	10	11	1	1	1	1	1	0	0	2	3	2	2	2	2	1	1	2	2	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:75705355A>G	uc002bai.2	-	5	764	c.505T>C	c.(505-507)TCC>CCC	p.S169P	SIN3A_uc002baj.2_Missense_Mutation_p.S169P|SIN3A_uc010uml.1_Missense_Mutation_p.S169P	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	169	Interaction with HCFC1.|PAH 1.				blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						AATAGCTGGGACACACGACTA	0.413													21	73					0	0	0.010504	0	0		G	75705355	G	G	75705355	3	3	127	1	0	0	0	0	1	0	0	0	14350	275	10	3	3384	3	SIN3A	15	75705355	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	3367253	75705355	26826037	886	69966											
SNX33	257364	broad.mit.edu	37	chr15	75942332	75942332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagaagcaggccactggcCgcttcgaggaggacttcatc	9	7	13	12	2	1	1	1	1	0	1	3	5	1	3	2	4	1	2	2	4	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:75942332C>T	uc002bau.2	+	1	985	c.889C>T	c.(889-891)CGC>TGC	p.R297C	IMP3_uc002bat.2_5'Flank|SNX33_uc002bav.2_5'UTR	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	297	PX.				cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1						GGCCACTGGCCGCTTCGAGGA	0.572													24	74					0	0	0.010818	0	0		T	75942332	T	T	75942332	3	4	127	1	0	0	0	0	1	0	0	0	14928	652	23	1	891	1	SNX33	15	75942332	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	236977	75942332	26589060	887	69967											
CSPG4	1464	broad.mit.edu	37	chr15	75979930	75979930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtggacctcatccccactgCggatgtcgaggttggtgtcc	6	10	13	12	2	1	0	1	0	0	0	4	3	3	2	4	4	1	1	4	4	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:75979930C>T	uc002baw.2	-	3	3569	c.3476G>A	c.(3475-3477)CGC>CAC	p.R1159H		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1159	Interaction with COL5A1 (By similarity).|Extracellular (Potential).|Gly/Ser-rich (glycosaminoglycan attachment domain).|CSPG 7.				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						ATCCCCACTGCGGATGTCGAG	0.657													26	94					0	0	0.00632	0	0		T	75979930	T	T	75979930	3	4	127	1	0	0	0	0	1	0	0	0	3963	768	27	1	3524	1	CSPG4	15	75979930	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	37598	75979930	26551462	888	69968											
CSPG4	1464	broad.mit.edu	37	chr15	75981580	75981580	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcggtcgccggctccccaGgctggtctcggcgctccacg	3	7	13	18	6	1	0	0	0	1	0	6	0	3	0	4	5	0	3	4	5	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:75981580G>T	uc002baw.2	-	3	1919	c.1826C>A	c.(1825-1827)CCT>CAT	p.P609H		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	609	Extracellular (Potential).|CSPG 2.|Globular or compact configuration stabilized by disulfide bonds.|Interaction with COL6A2 (By similarity).|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						CGGCTCCCCAGGCTGGTCTCG	0.667													7	19					0.000157383	0.000162073	0.00308	1	0		T	75981580	T	T	75981580	3	4	127	1	0	0	0	0	1	0	0	0	3963	1000	35	5	5174	5	CSPG4	15	75981580	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1650	75981580	26549812	889	69969											
AGBL1	123624	broad.mit.edu	37	chr15	86940602	86940602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccctttttctgcaggacatCgtccatatcaggtgatcact	8	14	7	12	1	3	1	2	1	1	0	6	2	5	2	2	2	1	1	2	2	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:86940602C>T	uc002blz.1	+	17	2322	c.2242C>T	c.(2242-2244)CGT>TGT	p.R748C		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	748					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						TGCAGGACATCGTCCATATCA	0.398													8	35					0	0	0.00308	0	0		T	86940602	T	T	86940602	3	4	127	1	0	0	0	0	1	0	0	0	375	884	31	1	2304	1	AGBL1	15	86940602	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	10959022	86940602	15590790	890	69970											
LRRK1	79705	broad.mit.edu	37	chr15	101562123	101562123	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagctggacactgaagacCtgaccatcagcaatgtgcct	11	7	11	12	0	1	3	1	2	0	1	1	4	1	4	3	2	3	3	3	2	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:101562123C>A	uc002bwr.2	+	14	2132	c.1813C>A	c.(1813-1815)CTG>ATG	p.L605M	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	605	LRR 13.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CACTGAAGACCTGACCATCAG	0.582													16	42					1.45105e-14	1.61392e-14	0.006122	1	0		A	101562123	A	A	101562123	3	1	127	1	0	0	0	0	1	0	0	0	9050	680	24	5	1863	5	LRRK1	15	101562123	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	14621521	101562123	969269	891	69971											
LRRK1	79705	broad.mit.edu	37	chr15	101593607	101593607	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagcagcctcaacaccgtgCtgtccgagaacgccagaggt	10	6	11	14	3	2	2	2	0	0	2	3	3	3	2	4	1	5	2	4	1	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr15:101593607C>T	uc002bwr.2	+	26	4355	c.4036C>T	c.(4036-4038)CTG>TTG	p.L1346L	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bws.2_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	1346	Protein kinase.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CAACACCGTGCTGTCCGAGAA	0.592													4	10					0	0	0.000602	0	0		T	101593607	T	T	101593607	2	4	127	1	0	0	0	0	0	0	0	1	9050	796	28	2		2	LRRK1	15	101593607	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	31484	101593607	937785	892	69972											
PDIA2	64714	broad.mit.edu	37	chr16	336905	336905	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacaacgggggcgtgctgcCcacggaggagcccccggagg	7	2	19	13	4	0	0	0	0	0	0	0	4	0	4	3	7	4	1	3	7	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:336905C>A	uc002cgn.1	+	15	2601	c.1493C>A	c.(1492-1494)CCC>CAC	p.P498H	PDIA2_uc010bqt.1_Missense_Mutation_p.P343H|PDIA2_uc002cgo.1_Missense_Mutation_p.P498H	NM_006849	NP_006840	Q13087	PDIA2_HUMAN	protein disulfide isomerase A2 precursor	498					apoptosis|cell redox homeostasis|glycerol ether metabolic process|protein folding|protein retention in ER lumen|response to hypoxia	endoplasmic reticulum lumen	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity|steroid binding			central_nervous_system(1)|skin(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				GGCGTGCTGCCCACGGAGGAG	0.617													5	11					0.00198382	0.0020209	0.001984	1	0		A	336905	A	A	336905	3	1	127	1	0	0	0	0	1	0	0	0	11687	623	22	5	1531	5	PDIA2	16	336905	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08		336905	90017848	893	69973											
SOLH	6650	broad.mit.edu	37	chr16	597450	597450	+	Frame_Shift_Del	DEL	C	-	-																															gccgcgcctccacctggcctCcccggggaaggtgccgaggc																										TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:597450delC	uc002chi.2	+	4	975	c.612delC	c.(610-612)CTCfs	p.L204fs	SOLH_uc002chh.1_Frame_Shift_Del_p.L204fs	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	204					proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				CACCTGGCCTCCCCGGGGAAG	0.741													7	11	---	---	---	---						.	-	597450	-	-	597450	7	5	127	1	0	1	0	1	0	0	0	0	14950	842	30	0	614	0	SOLH	16	597450	Frame_Shift_Del	DEL	C	TCGA-CG-4305-01A-01D-1158-08	260545	597450	89757303	894	69974											
MSLNL	401827	broad.mit.edu	37	chr16	824999	824999	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgagcagttgctggtcggAggcgctgagtcgcaggcggg	5	6	19	11	5	0	1	0	1	0	0	2	3	0	2	1	5	2	5	1	5	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:824999A>G	uc002cjz.1	-	7	1573	c.1573T>C	c.(1573-1575)TCC>CCC	p.S525P		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	174	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						TGCTGGTCGGAGGCGCTGAGT	0.736													5	45					0	0	0.000602	0	0		G	824999	G	G	824999	3	3	127	1	0	0	0	0	1	0	0	0	9900	304	11	3	1628	3	MSLNL	16	824999	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	227549	824999	89529754	895	69975											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1817604	1817604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcggcgggagagccaggtgCggcagctggcgtggatcggc	5	4	21	11	6	0	1	0	0	0	1	1	3	0	2	1	7	3	2	1	7	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:1817604C>T	uc002cmk.2	+	27	3394	c.3274C>T	c.(3274-3276)CGG>TGG	p.R1092W	MAPK8IP3_uc002cml.2_Missense_Mutation_p.R1086W|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.R1093W	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	1092					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						GAGCCAGGTGCGGCAGCTGGC	0.642													7	34					0	0	0.006214	0	0		T	1817604	T	T	1817604	3	4	127	1	0	0	0	0	1	0	0	0	9304	759	27	1	3396	1	MAPK8IP3	16	1817604	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	992605	1817604	88537149	896	69976											
CCNF	899	broad.mit.edu	37	chr16	2489817	2489817	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacgctgccaaaggctgctGggaagcgcaggtgaggtgcg	8	6	17	10	3	0	1	0	1	0	0	0	2	0	2	1	4	5	4	1	4	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:2489817G>T	uc002cqd.1	+	8	855	c.767G>T	c.(766-768)TGG>TTG	p.W256L	CCNF_uc002cqe.1_5'UTR	NM_001761	NP_001752	P41002	CCNF_HUMAN	cyclin F	256					cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)				AAAGGCTGCTGGGAAGCGCAG	0.612													11	25					2.80697e-09	3.00187e-09	0.010729	1	0		T	2489817	T	T	2489817	3	4	127	1	0	0	0	0	1	0	0	0	2925	1357	47	5	797	5	CCNF	16	2489817	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	672213	2489817	87864936	897	69977											
PRSS27	83886	broad.mit.edu	37	chr16	2764172	2764172	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgtaattggtgaagggCactggtgcctccagctccac	9	9	13	10	0	0	1	0	1	0	0	2	2	2	2	3	4	2	3	3	4	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:2764172C>T	uc002crf.2	-	4	793	c.402G>A	c.(400-402)GTG>GTA	p.V134V	PRSS27_uc002cre.2_Silent_p.V98V|PRSS27_uc002crg.2_Silent_p.V32V|PRSS27_uc010bst.1_Silent_p.V32V	NM_031948	NP_114154	Q9BQR3	PRS27_HUMAN	marapsin precursor	134	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1						TGGTGAAGGGCACTGGTGCCT	0.647													23	87					0	0	0.014323	0	0		T	2764172	T	T	2764172	2	4	127	1	0	0	0	0	0	0	0	1	12643	697	25	2		2	PRSS27	16	2764172	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	274355	2764172	87590581	898	69978											
ZSCAN10	84891	broad.mit.edu	37	chr16	3139475	3139475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctcccctgtgtggatgcGctggtggcgcgccaggtggg	2	10	17	12	3	1	0	0	0	1	0	2	1	1	1	3	5	1	1	3	5	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:3139475G>A	uc002ctv.1	-	5	1883	c.1795C>T	c.(1795-1797)CGC>TGC	p.R599C	ZSCAN10_uc002cty.1_Missense_Mutation_p.R260C|ZSCAN10_uc002ctw.1_Missense_Mutation_p.R517C|ZSCAN10_uc002ctx.1_Missense_Mutation_p.R527C	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	599	C2H2-type 10.				negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GTGTGGATGCGCTGGTGGCGC	0.716													8	36					0	0	0.004482	0	0		A	3139475	A	A	3139475	3	1	127	1	0	0	0	0	1	0	0	0	18252	1087	38	1	386	1	ZSCAN10	16	3139475	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	375303	3139475	87215278	899	69979											
MEFV	4210	broad.mit.edu	37	chr16	3306386	3306386	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggacctgcagggtgagctGcacggcgtactcttccccat	7	8	12	14	2	1	1	0	1	1	0	2	2	2	2	3	3	4	4	3	3	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:3306386G>A	uc002cun.1	-	1	242	c.202C>T	c.(202-204)CAG>TAG	p.Q68*		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	68	DAPIN.				inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	AGGGTGAGCTGCACGGCGTAC	0.657													19	68					0	0	0.007413	0	0		A	3306386	A	A	3306386	4	1	127	1	0	0	0	0	0	1	0	0	9477	1328	46	2	2183	2	MEFV	16	3306386	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	166911	3306386	87048367	900	69980											
NLRC3	197358	broad.mit.edu	37	chr16	3614549	3614549	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacagacacccgggagagaGgcaggaagagccggtccagg	12	1	18	10	2	0	3	0	0	0	3	1	7	1	6	3	6	1	1	3	6	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:3614549G>T	uc010btn.2	-	5	800	c.389C>A	c.(388-390)CCT>CAT	p.P130H		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	130					I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						CCGGGAGAGAGGCAGGAAGAG	0.701													10	32					6.40141e-05	6.60655e-05	0.010729	1	0		T	3614549	T	T	3614549	3	4	127	1	0	0	0	0	1	0	0	0	10487	1000	35	5	2873	5	NLRC3	16	3614549	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	308163	3614549	86740204	901	69981											
USP7	7874	broad.mit.edu	37	chr16	8995029	8995029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatattggtgtgtagatatGcccacagtaattcaagctcc	11	12	10	8	0	1	1	1	0	0	1	2	2	2	2	2	2	2	3	2	2	5	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:8995029G>A	uc002czl.2	-	19	2309	c.2110C>T	c.(2110-2112)CAT>TAT	p.H704Y	USP7_uc010uyk.1_Missense_Mutation_p.H605Y|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.H605Y|USP7_uc002czk.2_Missense_Mutation_p.H688Y	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	704	Interaction with ICP0/VMW110.				interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						GTGTAGATATGCCCACAGTAA	0.343													13	94					0	0	0.001855	0	0		A	8995029	A	A	8995029	3	1	127	1	0	0	0	0	1	0	0	0	17114	1319	46	2	1250	2	USP7	16	8995029	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5380480	8995029	81359724	902	69982											
GRIN2A	2903	broad.mit.edu	37	chr16	10031878	10031878	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtagcagctggccttggcCtcggggatgtaggagaactt	7	9	15	10	2	0	1	0	0	0	1	1	3	0	2	3	5	3	4	3	5	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:10031878C>A	uc002czo.3	-	3	1493	c.945G>T	c.(943-945)GAG>GAT	p.E315D	GRIN2A_uc010uym.1_Missense_Mutation_p.E315D|GRIN2A_uc010uyn.1_Missense_Mutation_p.E158D|GRIN2A_uc002czr.3_Missense_Mutation_p.E315D	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	315	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TGGCCTTGGCCTCGGGGATGT	0.577													19	43					8.10497e-08	8.57711e-08	0.010504	1	0		A	10031878	A	A	10031878	3	1	127	1	0	0	0	0	1	0	0	0	6795	680	24	5	3493	5	GRIN2A	16	10031878	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1036849	10031878	80322875	903	69983											
ERCC4	2072	broad.mit.edu	37	chr16	14041518	14041518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagcatagttgtggatatgCgtgaatttcgaagtgagctt	12	13	12	4	2	0	2	0	2	0	0	1	4	0	3	0	1	3	3	0	1	5	5	rs149364215		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:14041518C>T	uc002dce.2	+	11	2074	c.2065C>T	c.(2065-2067)CGT>TGT	p.R689C	ERCC4_uc010uyz.1_Missense_Mutation_p.R239C	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	689	ERCC4.|Interaction with EME1 and ERCC1.				double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						TGTGGATATGCGTGAATTTCG	0.443			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				39	214					0	0	0.006999	0	0		T	14041518	T	T	14041518	3	4	127	1	0	0	0	0	1	0	0	0	5223	768	27	1	2107	1	ERCC4	16	14041518	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4009640	14041518	76313235	904	69984											
SMG1	23049	broad.mit.edu	37	chr16	18858865	18858865	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatgtgttgttgcagcaaaActcccagccagagctcatcc	11	9	8	13	0	1	1	1	0	0	1	3	1	3	1	3	0	5	5	3	0	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:18858865A>C	uc002dfm.2	-	38	6269	c.5906T>G	c.(5905-5907)GTT>GGT	p.V1969G	SMG1_uc010bwb.2_Missense_Mutation_p.V1829G|SMG1_uc010bwa.2_Missense_Mutation_p.V700G|SMG1_uc002dfo.3_Missense_Mutation_p.V267G	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	1969	Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TTGCAGCAAAACTCCCAGCCA	0.493													18	77					0	0	0.010504	0	0		C	18858865	C	C	18858865	3	2	127	1	0	0	0	0	1	0	0	0	14820	43	2	5	5183	5	SMG1	16	18858865	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	4817347	18858865	71495888	905	69985											
SMG1	23049	broad.mit.edu	37	chr16	18875096	18875096	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgagatgtagcactcacAtgctttatttcctaaataat	14	15	5	7	0	1	1	1	1	0	1	2	2	2	1	1	0	2	3	1	0	6	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:18875096A>G	uc002dfm.2	-	25	3934	c.3571T>C	c.(3571-3573)TGT>CGT	p.C1191R	SMG1_uc010bwb.2_Missense_Mutation_p.C1051R	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	1191	FAT.|Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TAGCACTCACATGCTTTATTT	0.413													29	78					0	0	0.003271	0	0		G	18875096	G	G	18875096	3	3	127	1	0	0	0	0	1	0	0	0	14820	217	8	3	7570	3	SMG1	16	18875096	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	16231	18875096	71479657	906	69986											
COQ7	10229	broad.mit.edu	37	chr16	19083251	19083251	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataaacacttgcatttcagcTtatggaagaagaaccagtgt	15	11	8	7	0	1	2	1	0	0	2	1	3	1	3	1	1	4	2	1	1	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:19083251T>G	uc002dfr.2	+	2	135	c.75T>G	c.(73-75)GCT>GCG	p.A25A	COQ7_uc002dfs.2_Silent_p.A11A	NM_016138	NP_057222	Q99807	COQ7_HUMAN	COQ7 protein	25					ubiquinone biosynthetic process	mitochondrial inner membrane|nucleus	oxidoreductase activity|transition metal ion binding			skin(1)	1						GCATTTCAGCTTATGGAAGAA	0.403											OREG0023656	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	40	130					0	0	0.010771	0	0		G	19083251	G	G	19083251	2	3	127	1	0	0	0	0	0	0	0	1	3753	1623	56	5		5	COQ7	16	19083251	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	208155	19083251	71271502	907	69987											
TMC5	79838	broad.mit.edu	37	chr16	19485561	19485561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaggcttgtggagaggtacGagatgccacggcacgaagtc	10	7	15	9	3	1	2	1	0	0	2	2	5	1	2	1	4	2	3	1	4	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:19485561G>A	uc002dgc.3	+	12	2802	c.2053G>A	c.(2053-2055)GAG>AAG	p.E685K	TMC5_uc010vaq.1_Missense_Mutation_p.E633K|TMC5_uc002dgb.3_Missense_Mutation_p.E685K|TMC5_uc010var.1_Missense_Mutation_p.E685K|TMC5_uc002dgd.1_Missense_Mutation_p.E439K|TMC5_uc002dge.3_Missense_Mutation_p.E439K|TMC5_uc002dgf.3_Missense_Mutation_p.E368K|TMC5_uc002dgg.3_Missense_Mutation_p.E326K	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	685	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						GGAGAGGTACGAGATGCCACG	0.552													27	134					0	0	0.005443	0	0		A	19485561	A	A	19485561	3	1	127	1	0	0	0	0	1	0	0	0	16013	1059	37	1	2405	1	TMC5	16	19485561	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	402310	19485561	70869192	908	69988											
EEF2K	29904	broad.mit.edu	37	chr16	22268599	22268599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccacttcacttttgagcGttccggccatcagctgatag	8	11	9	13	2	2	2	2	2	0	0	3	2	3	2	3	1	3	2	3	1	1	5	rs143471765		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:22268599G>A	uc002dki.2	+	8	1279	c.794G>A	c.(793-795)CGT>CAT	p.R265H	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	265	Alpha-type protein kinase.				insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		ACTTTTGAGCGTTCCGGCCAT	0.577													32	104					0	0	0.003755	0	0		A	22268599	A	A	22268599	3	1	127	1	0	0	0	0	1	0	0	0	4936	1145	40	1	820	1	EEF2K	16	22268599	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2783038	22268599	68086154	909	69989											
EEF2K	29904	broad.mit.edu	37	chr16	22291646	22291646	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatgctggccagggaggccGagatgctgttcacaggaggc	8	7	17	9	1	1	2	1	1	0	1	1	5	1	4	2	5	2	3	2	5	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:22291646G>A	uc002dki.2	+	17	2502	c.2017G>A	c.(2017-2019)GAG>AAG	p.E673K	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	673					insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		CAGGGAGGCCGAGATGCTGTT	0.637													5	30					0	0	0.001168	0	0		A	22291646	A	A	22291646	3	1	127	1	0	0	0	0	1	0	0	0	4936	1059	37	1	2079	1	EEF2K	16	22291646	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	23047	22291646	68063107	910	69990											
CLN3	1201	broad.mit.edu	37	chr16	28488922	28488922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgtgtcagagatgcaggtgGccgccattgcaaactcccgg	8	8	14	11	2	1	1	1	0	0	1	2	2	2	1	3	3	3	2	3	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:28488922G>A	uc002dpo.2	-	15	1555	c.1232C>T	c.(1231-1233)GCC>GTC	p.A411V	uc010vct.1_Intron|CLN3_uc002dpl.2_Missense_Mutation_p.A333V|CLN3_uc010vcu.1_Missense_Mutation_p.A311V|CLN3_uc002dpn.2_Missense_Mutation_p.A312V|CLN3_uc002dpm.2_Missense_Mutation_p.A357V|CLN3_uc010vcv.1_Missense_Mutation_p.A387V|CLN3_uc010byd.2_Missense_Mutation_p.A314V|CLN3_uc002dpp.2_Missense_Mutation_p.A411V|CLN3_uc002dpt.1_Missense_Mutation_p.A311V|CLN3_uc002dpq.1_Missense_Mutation_p.A363V|CLN3_uc010bye.1_Missense_Mutation_p.A394V|CLN3_uc002dpr.1_RNA|CLN3_uc010byf.1_RNA|CLN3_uc002dps.1_Missense_Mutation_p.A284V|CLN3_uc002dpu.1_Missense_Mutation_p.A309V	NM_000086	NP_000077	Q13286	CLN3_HUMAN	ceroid-lipofuscinosis, neuronal 3	411	Helical; (Potential).				amyloid precursor protein catabolic process|arginine transport|associative learning|autophagic vacuole fusion|cell death|cellular amino acid metabolic process|cytosolic calcium ion homeostasis|galactosylceramide metabolic process|globoside metabolic process|glucosylceramide metabolic process|ionotropic glutamate receptor signaling pathway|lysosomal lumen acidification|lysosomal lumen pH elevation|negative regulation of catalytic activity|negative regulation of macroautophagy|negative regulation of neuron apoptosis|negative regulation of proteolysis|neuromuscular process controlling balance|neurotransmitter metabolic process|protein catabolic process|protein folding|protein processing|receptor-mediated endocytosis|regulation of action potential|sphingomyelin metabolic process|vacuolar transport	autophagic vacuole|caveola|cytosol|early endosome|Golgi membrane|Golgi stack|integral to endoplasmic reticulum membrane|late endosome|lysosomal membrane|membrane fraction|mitochondrion|neuron projection|nucleus|synaptic vesicle|trans-Golgi network	unfolded protein binding				0						GATGCAGGTGGCCGCCATTGC	0.617													22	62					0	0	0.014323	0	0		A	28488922	A	A	28488922	3	1	127	1	0	0	0	0	1	0	0	0	3546	1203	42	2	88	2	CLN3	16	28488922	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	6197276	28488922	61865831	911	69991											
HSD3B7	80270	broad.mit.edu	37	chr16	30999155	30999155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgggcaaccctgatgggcgGccaggtatacttctgctacg	7	8	14	12	3	1	1	0	1	1	0	1	1	1	1	2	4	4	3	2	4	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:30999155G>A	uc002eaf.2	+	7	867	c.761G>A	c.(760-762)GGC>GAC	p.G254D	HSD3B7_uc010cac.2_3'UTR|HSD3B7_uc002eag.2_3'UTR|HSD3B7_uc002eah.2_Missense_Mutation_p.G254D	NM_025193	NP_079469	Q9H2F3	3BHS7_HUMAN	hydroxy-delta-5-steroid dehydrogenase, 3 beta-	254					bile acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|cholest-5-ene-3-beta,7-alpha-diol 3-beta-dehydrogenase activity				0						CTGATGGGCGGCCAGGTATAC	0.652													43	156					0	0	0.010771	0	0		A	30999155	A	A	30999155	3	1	127	1	0	0	0	0	1	0	0	0	7408	1203	42	2	783	2	HSD3B7	16	30999155	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2510233	30999155	59355598	912	69992											
ZNF668	79759	broad.mit.edu	37	chr16	31075373	31075373	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagcggaagggcagttcGccagcgtgcgaggccaggtg	8	4	18	11	4	0	0	0	0	0	0	1	2	0	1	2	4	3	3	2	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:31075373G>A	uc010caf.2	-	2	765	c.408C>T	c.(406-408)GGC>GGT	p.G136G	ZNF668_uc002eao.2_Silent_p.G136G|ZNF668_uc010cag.1_Silent_p.G136G	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	136					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						AGGGCAGTTCGCCAGCGTGCG	0.701													6	23					0	0	0.001168	0	0		A	31075373	A	A	31075373	2	1	127	1	0	0	0	0	0	0	0	1	18100	1074	38	1		1	ZNF668	16	31075373	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	76218	31075373	59279380	913	69993											
HEATR3	55027	broad.mit.edu	37	chr16	50112651	50112651	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatgcttgtttttttcccaGgcacaatttggaatctaaag	10	17	7	7	0	1	0	0	0	1	0	2	1	2	1	1	2	1	3	1	2	5	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:50112651G>C	uc002efw.2	+	7	926	c.764_splice	c.e7-1	p.G255_splice	HEATR3_uc002efx.2_Splice_Site_p.G169_splice	NM_182922	NP_891552	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3								binding			ovary(1)|skin(1)	2						TTTTTTCCCAGGCACAATTTG	0.343													12	46					0	0	0.013537	0	0		C	50112651	C	C	50112651	5	2	127	1	0	0	0	0	0	0	1	0	7045	1014	35	5	789	5	HEATR3	16	50112651	Splice_Site	SNP	G	TCGA-CG-4305-01A-01D-1158-08	19037278	50112651	40242102	914	69994											
RPGRIP1L	23322	broad.mit.edu	37	chr16	53675003	53675003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttatctacaggtgttaaaCgttgtcttggtttaggtctt	7	19	9	6	1	4	0	0	0	4	0	4	0	4	0	0	3	2	3	0	3	5	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:53675003C>T	uc002ehp.2	-	19	2964	c.2900G>A	c.(2899-2901)CGT>CAT	p.R967H	RPGRIP1L_uc002eho.3_Missense_Mutation_p.R967H|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.R967H|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.R967H|RPGRIP1L_uc010vgz.1_Missense_Mutation_p.R967H	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	967					negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				AGGTGTTAAACGTTGTCTTGG	0.353													12	66					0	0	0.013537	0	0		T	53675003	T	T	53675003	3	4	127	1	0	0	0	0	1	0	0	0	13575	536	19	1	1083	1	RPGRIP1L	16	53675003	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3562352	53675003	36679750	915	69995											
CCDC135	84229	broad.mit.edu	37	chr16	57760089	57760089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgcgctaccactgccGtgaggaccacatcacggcct	8	6	10	17	3	1	1	1	1	0	0	1	2	1	2	5	2	4	2	5	2	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:57760089G>A	uc002emi.2	+	13	1957	c.1868G>A	c.(1867-1869)CGT>CAT	p.R623H	CCDC135_uc002emj.2_Missense_Mutation_p.R623H|CCDC135_uc002emk.2_Missense_Mutation_p.R558H	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	623						cytoplasm				central_nervous_system(1)	1						TACCACTGCCGTGAGGACCAC	0.642													17	64					0	0	0.006122	0	0		A	57760089	A	A	57760089	3	1	127	1	0	0	0	0	1	0	0	0	2772	1145	40	1	1914	1	CCDC135	16	57760089	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	4085086	57760089	32594664	916	69996											
CNGB1	1258	broad.mit.edu	37	chr16	57931726	57931726	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccaaacacagatccagcTttcagcgtcaccagcacaga	13	7	6	15	1	3	2	2	0	1	2	5	2	4	2	3	0	4	2	3	0	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:57931726T>G	uc002emt.2	-	30	3134	c.3069A>C	c.(3067-3069)AAA>AAC	p.K1023N	CNGB1_uc010cdh.2_Missense_Mutation_p.K1017N	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	1023	Cytoplasmic (Potential).|cAMP (By similarity).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						CAGATCCAGCTTTCAGCGTCA	0.592													75	235					0	0	0.01441	0	0		G	57931726	G	G	57931726	3	3	127	1	0	0	0	0	1	0	0	0	3603	1606	56	5	702	5	CNGB1	16	57931726	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	171637	57931726	32423027	917	69997											
PRSS54	221191	broad.mit.edu	37	chr16	58314157	58314157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcaaaagaaaacaagcaCgaaggaaaccaagatgattt	20	5	9	7	1	0	3	0	1	0	2	0	5	0	4	1	1	4	3	1	1	8	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:58314157C>T	uc002enf.2	-	7	1554	c.1159G>A	c.(1159-1161)GTG>ATG	p.V387M	PRSS54_uc002eng.2_Missense_Mutation_p.V387M|PRSS54_uc010vie.1_Missense_Mutation_p.V288M|CCDC113_uc002ene.2_3'UTR|CCDC113_uc010vid.1_3'UTR	NM_001080492	NP_001073961	Q6PEW0	PRS54_HUMAN	plasma kallikrein-like protein 4 precursor	387					proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						AAAACAAGCACGAAGGAAACC	0.463													16	105					0	0	0.007413	0	0		T	58314157	T	T	58314157	3	4	127	1	0	0	0	0	1	0	0	0	12655	536	19	1	32	1	PRSS54	16	58314157	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	382431	58314157	32040596	918	69998											
CDH8	1006	broad.mit.edu	37	chr16	61747823	61747823	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagaaataatgtccgttttTgggatcatctttgtccatgg	10	16	9	6	1	2	1	1	0	1	1	4	2	4	2	2	2	0	1	2	2	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:61747823T>G	uc002eog.1	-	10	1828	c.1576A>C	c.(1576-1578)AAA>CAA	p.K526Q		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	526	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TGTCCGTTTTTGGGATCATCT	0.378													24	86					0	0	0.00333	0	0		G	61747823	G	G	61747823	3	3	127	1	0	0	0	0	1	0	0	0	3119	1821	63	5	835	5	CDH8	16	61747823	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	3433666	61747823	28606930	919	69999											
TK2	7084	broad.mit.edu	37	chr16	66551046	66551046	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggcctcttaccagcggaAtgaccttctcctcttccctg	7	11	8	15	1	3	2	0	1	3	1	5	3	4	3	5	2	2	0	5	2	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:66551046A>G	uc002eos.2	-	8	962	c.737T>C	c.(736-738)ATT>ACT	p.I246T	TK2_uc010vip.1_Missense_Mutation_p.I107T|TK2_uc002eor.2_Missense_Mutation_p.I173T|TK2_uc010cdq.2_Intron|TK2_uc010cdr.2_Missense_Mutation_p.I155T|TK2_uc010viq.1_Missense_Mutation_p.I228T|TK2_uc010vir.1_Missense_Mutation_p.I221T	NM_004614	NP_004605	O00142	KITM_HUMAN	thymidine kinase 2, mitochondrial	204					pyrimidine base metabolic process|pyrimidine nucleoside salvage	mitochondrial matrix	ATP binding|phosphotransferase activity, alcohol group as acceptor|thymidine kinase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0736)|Epithelial(162;0.237)		TACCAGCGGAATGACCTTCTC	0.502											OREG0032067	type=REGULATORY REGION|TFbs=RELA|Dataset=RELA (p65) ChIP-PET Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with paired-end diTag sequencing (ChIP-PET)	89	412					0	0	0.01441	0	0		G	66551046	G	G	66551046	3	3	127	1	0	0	0	0	1	0	0	0	15958	101	4	3	198	3	TK2	16	66551046	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	4803223	66551046	23803707	920	70000											
CMTM1	113540	broad.mit.edu	37	chr16	66612846	66612846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgaagttgaaaggaagctttCccccgccaaggacgcctacc	11	6	10	14	3	0	1	0	1	0	0	1	4	1	3	5	2	2	2	5	2	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:66612846C>T	uc002epi.3	+	4	575	c.452C>T	c.(451-453)TCC>TTC	p.S151F	CMTM1_uc002epb.3_RNA|CMTM1_uc002epc.3_RNA|CMTM1_uc002epd.3_RNA|CMTM1_uc002epe.3_RNA|CMTM1_uc002epf.3_RNA|CMTM1_uc002epg.3_RNA|CMTM1_uc002eph.3_3'UTR|CMTM1_uc002epl.3_Missense_Mutation_p.S104F|CMTM1_uc002epj.3_3'UTR|CMTM1_uc002epk.3_Missense_Mutation_p.S98F|CMTM1_uc002epa.3_3'UTR|CMTM1_uc002epn.3_3'UTR|CMTM1_uc002epo.3_RNA|CMTM1_uc002epp.3_RNA|CMTM1_uc002epq.3_RNA|CMTM1_uc010cds.2_RNA|CMTM1_uc002epr.3_Missense_Mutation_p.S268F|CMTM1_uc002epm.3_RNA|CMTM1_uc002eps.2_RNA|CMTM2_uc002ept.2_5'Flank|CMTM2_uc010cdu.2_5'Flank	NM_181269	NP_851786	Q8IZ96	CKLF1_HUMAN	chemokine-like factor superfamily 1 isoform 1	151					chemotaxis	extracellular space|integral to membrane	cytokine activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0702)|Epithelial(162;0.222)		AGGAAGCTTTCCCCCGCCAAG	0.597													19	106					0	0	0.00278	0	0		T	66612846	T	T	66612846	3	4	127	1	0	0	0	0	1	0	0	0	3585	855	30	4	817	4	CMTM1	16	66612846	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	61800	66612846	23741907	921	70001											
FAM65A	79567	broad.mit.edu	37	chr16	67576836	67576836	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctccaattcctacactcAggcagaccctatggccccca	10	8	6	17	0	2	1	1	0	1	1	4	1	3	1	5	2	1	1	5	2	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:67576836A>G	uc010vjp.1	+	13	2303	c.2207A>G	c.(2206-2208)CAG>CGG	p.Q736R	FAM65A_uc010cei.1_Missense_Mutation_p.Q558R|FAM65A_uc002eth.2_Missense_Mutation_p.Q716R|FAM65A_uc010cej.2_Missense_Mutation_p.Q719R|FAM65A_uc002eti.1_Missense_Mutation_p.Q679R|FAM65A_uc010vjq.1_Missense_Mutation_p.Q730R|FAM65A_uc002etj.1_Missense_Mutation_p.Q715R|FAM65A_uc002etk.2_Missense_Mutation_p.Q715R	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	720	Pro-rich.					cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		TCCTACACTCAGGCAGACCCT	0.597													69	415					0	0	0.01441	0	0		G	67576836	G	G	67576836	3	3	127	1	0	0	0	0	1	0	0	0	5613	188	7	3	2193	3	FAM65A	16	67576836	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	963990	67576836	22777917	922	70002											
SMPD3	55512	broad.mit.edu	37	chr16	68406042	68406042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggacacacagtgcagggCggacagacagctgttaggaa	13	4	14	10	1	0	1	0	0	0	1	0	4	0	4	1	4	2	3	1	4	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:68406042C>T	uc002ewa.2	-	3	465	c.43G>A	c.(43-45)GCC>ACC	p.A15T	SMPD3_uc010cfe.2_Missense_Mutation_p.A15T|SMPD3_uc010vlh.1_Missense_Mutation_p.A15T	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	15	Helical; (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	CAGTGCAGGGCGGACAGACAG	0.627													7	12					0	0	0.00308	0	0		T	68406042	T	T	68406042	3	4	127	1	0	0	0	0	1	0	0	0	14831	768	27	1	1952	1	SMPD3	16	68406042	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	829206	68406042	21948711	923	70003											
ZFP90	146198	broad.mit.edu	37	chr16	68597623	68597623	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggagagaaaccctatcaGtgtagtctctgtgggaaagc	12	8	12	9	1	2	1	1	0	1	1	3	4	2	3	2	2	2	1	2	2	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:68597623G>A	uc010cff.2	+	5	1225	c.933G>A	c.(931-933)CAG>CAA	p.Q311Q	ZFP90_uc002ewb.2_Missense_Mutation_p.S117N|ZFP90_uc002ewc.2_Missense_Mutation_p.S117N|ZFP90_uc002ewd.2_Silent_p.Q311Q|ZFP90_uc002ewe.2_Silent_p.Q311Q	NM_133458	NP_597715	Q8TF47	ZFP90_HUMAN	zinc finger protein 90	311	C2H2-type 4.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00233)|Epithelial(162;0.0184)|all cancers(182;0.0946)		AACCCTATCAGTGTAGTCTCT	0.488													20	75					0	0	0.00278	0	0		A	68597623	A	A	68597623	2	1	127	1	0	0	0	0	0	0	0	1	17679	1020	36	4		4	ZFP90	16	68597623	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	191581	68597623	21757130	924	70004											
ZFP90	146198	broad.mit.edu	37	chr16	68598358	68598358	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaaccctatgaatgtatTgactgtgggaaagcctttag	13	11	11	6	0	0	3	0	2	0	1	0	5	0	4	2	1	2	1	2	1	6	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:68598358T>C	uc010cff.2	+	5	1960	c.1668T>C	c.(1666-1668)ATT>ATC	p.I556I	ZFP90_uc002ewb.2_3'UTR|ZFP90_uc002ewc.2_3'UTR|ZFP90_uc002ewd.2_Silent_p.I556I|ZFP90_uc002ewe.2_Silent_p.I556I	NM_133458	NP_597715	Q8TF47	ZFP90_HUMAN	zinc finger protein 90	556	C2H2-type 11.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00233)|Epithelial(162;0.0184)|all cancers(182;0.0946)		ATGAATGTATTGACTGTGGGA	0.438													41	168					0	0	0.006999	0	0		C	68598358	C	C	68598358	2	2	127	1	0	0	0	0	0	0	0	1	17679	1800	63	3		3	ZFP90	16	68598358	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	735	68598358	21756395	925	70005											
PDPR	55066	broad.mit.edu	37	chr16	70166194	70166194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agaatctacaggaagactggGatcactttggtatgtgaact	13	11	11	6	0	2	3	1	1	1	2	2	5	2	5	0	3	2	1	0	3	5	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:70166194G>A	uc002eyf.1	+	9	1945	c.988G>A	c.(988-990)GAT>AAT	p.D330N	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.D230N|PDPR_uc002eyg.1_Missense_Mutation_p.D58N	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	330					glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		GGAAGACTGGGATCACTTTGG	0.398													6	46					0	0	0.001984	0	0		A	70166194	A	A	70166194	3	1	127	1	0	0	0	0	1	0	0	0	11708	1174	41	4	1014	4	PDPR	16	70166194	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1567836	70166194	20188559	926	70006											
HYDIN	54768	broad.mit.edu	37	chr16	70993674	70993674	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactgggttgttttccacCtctccaacttcctccatgga	6	14	6	15	0	2	0	1	0	1	0	6	1	5	1	5	2	1	2	5	2	1	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:70993674C>A	uc002ezr.2	-	39	6143	c.6015G>T	c.(6013-6015)GAG>GAT	p.E2005D		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	2006										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TGTTTTCCACCTCTCCAACTT	0.502													7	44					9.05144e-12	9.90416e-12	0.001855	1	0		A	70993674	A	A	70993674	3	1	127	1	0	0	0	0	1	0	0	0	7483	680	24	5	9539	5	HYDIN	16	70993674	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	827480	70993674	19361079	927	70007											
PKD1L2	114780	broad.mit.edu	37	chr16	81242146	81242146	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgccctgagtcggacacAggtttccaaagtaggtctca	11	9	10	11	1	1	1	1	1	1	0	4	2	2	2	2	3	2	2	2	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:81242146A>G	uc002fgh.1	-	4	710	c.710T>C	c.(709-711)CTG>CCG	p.L237P	PKD1L2_uc002fgj.2_Missense_Mutation_p.L237P	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	237	SUEL-type lectin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AGTCGGACACAGGTTTCCAAA	0.562													18	72					0	0	0.010504	0	0		G	81242146	G	G	81242146	3	3	127	1	0	0	0	0	1	0	0	0	11984	188	7	3	6898	3	PKD1L2	16	81242146	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	10248472	81242146	9112607	928	70008											
CDT1	81620	broad.mit.edu	37	chr16	88871856	88871856	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctccctgacagtggcgagaAggcgcccgcctaccagcgct	7	5	12	17	4	0	2	0	1	0	1	1	3	1	2	5	2	2	1	5	2	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:88871856A>C	uc002flu.2	+	4	551	c.497A>C	c.(496-498)AAG>ACG	p.K166T		NM_030928	NP_112190	Q9H211	CDT1_HUMAN	chromatin licensing and DNA replication factor	166	Interaction with GMNN.				DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|regulation of DNA-dependent DNA replication initiation|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0476)		AGTGGCGAGAAGGCGCCCGCC	0.687													8	39					0	0	0.008291	0	0		C	88871856	C	C	88871856	3	2	127	1	0	0	0	0	1	0	0	0	3183	72	3	5	511	5	CDT1	16	88871856	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	7629710	88871856	1482897	929	70009											
ANKRD11	29123	broad.mit.edu	37	chr16	89345552	89345552	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtaggtgacgtactcggcGtagcactggggcgcctgcgg	5	8	18	10	5	0	1	0	1	0	0	1	1	0	1	1	5	3	4	1	5	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:89345552G>A	uc002fmx.1	-	9	7859	c.7398C>T	c.(7396-7398)TAC>TAT	p.Y2466Y	ANKRD11_uc002fmy.1_Silent_p.Y2466Y|ANKRD11_uc002fnc.1_Silent_p.Y2466Y|ANKRD11_uc002fna.1_Silent_p.Y131Y|ANKRD11_uc002fnb.1_Silent_p.Y2423Y	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	2466						nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CGTACTCGGCGTAGCACTGGG	0.627													9	24					0	0	0.004482	0	0		A	89345552	A	A	89345552	2	1	127	1	0	0	0	0	0	0	0	1	639	1140	40	1		1	ANKRD11	16	89345552	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	473696	89345552	1009201	930	70010											
SPG7	6687	broad.mit.edu	37	chr16	89592862	89592862	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtttcctacaagcgaacAggattctttggaaagtatgt	12	12	9	8	1	1	0	0	0	1	0	2	3	2	2	2	2	3	2	2	2	5	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr16:89592862A>G	uc002fnj.2	+	5	765	c.744A>G	c.(742-744)ACA>ACG	p.T248T	SPG7_uc002fni.2_Silent_p.T248T	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1	248	Mitochondrial intermembrane (Potential).				cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		ACAAGCGAACAGGATTCTTTG	0.393													39	118					0	0	0.00623	0	0		G	89592862	G	G	89592862	2	3	127	1	0	0	0	0	0	0	0	1	15069	175	7	3		3	SPG7	16	89592862	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	247310	89592862	761891	931	70011											
MYO1C	4641	broad.mit.edu	37	chr17	1371157	1371157	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcttattgtccgcacgctGtacatgaagcacaaaaagac	13	10	8	10	2	0	2	0	1	0	1	1	2	1	2	1	0	3	5	1	0	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:1371157G>A	uc002fsp.2	-	29	3164	c.2944C>T	c.(2944-2946)CAG>TAG	p.Q982*	MYO1C_uc002fsn.2_Nonsense_Mutation_p.Q963*|MYO1C_uc002fso.2_Nonsense_Mutation_p.Q947*|MYO1C_uc010vqj.1_Nonsense_Mutation_p.Q947*	NM_001080779	NP_001074248	O00159	MYO1C_HUMAN	myosin IC isoform a	982					mRNA transport|protein transport|transmembrane transport	basal plasma membrane|cytoplasm|filamentous actin|lateral plasma membrane|nuclear pore|nucleolus|nucleoplasm|stereocilium membrane	actin binding|ATP binding|calmodulin binding|motor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		TCCGCACGCTGTACATGAAGC	0.428													9	47					0	0	0.010729	0	0		A	1371157	A	A	1371157	4	1	127	1	0	0	0	0	0	1	0	0	10088	1386	48	4	263	4	MYO1C	17	1371157	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08		1371157	79824053	932	70012											
CAMKK1	84254	broad.mit.edu	37	chr17	3786411	3786411	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtacacccgctccaggggCagcagctgcttggctggtcc	5	8	14	14	1	0	0	0	0	0	0	2	0	2	0	3	5	4	7	3	5	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:3786411C>T	uc002fwt.2	-	6	667	c.573G>A	c.(571-573)CTG>CTA	p.L191L	CAMKK1_uc002fwu.2_Silent_p.L191L|CAMKK1_uc002fwv.2_Silent_p.L191L	NM_172206	NP_757343	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase 1	191	Protein kinase.				synaptic transmission	cytosol|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1				LUAD - Lung adenocarcinoma(2;2.11e-05)|Lung(3;0.0176)		GCTCCAGGGGCAGCAGCTGCT	0.617													19	74					0	0	0.00278	0	0		T	3786411	T	T	3786411	2	4	127	1	0	0	0	0	0	0	0	1	2609	697	25	2		2	CAMKK1	17	3786411	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2415254	3786411	77408799	933	70013											
ZZEF1	23140	broad.mit.edu	37	chr17	3936194	3936194	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaatggcagctgcttgatGcagtggtctgtgaaggtggc	7	11	17	6	0	1	2	0	2	1	0	1	3	1	3	0	5	3	4	0	5	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:3936194G>T	uc002fxe.2	-	41	6751	c.6687C>A	c.(6685-6687)TGC>TGA	p.C2229*	ZZEF1_uc002fxh.2_Nonsense_Mutation_p.C543*|ZZEF1_uc002fxi.2_Nonsense_Mutation_p.C464*	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	2229							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCTGCTTGATGCAGTGGTCTG	0.597													7	32					0.000157383	0.000162073	0.00308	1	0		T	3936194	T	T	3936194	4	4	127	1	0	0	0	0	0	1	0	0	18280	1311	46	5	2258	5	ZZEF1	17	3936194	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	149783	3936194	77259016	934	70014											
ZZEF1	23140	broad.mit.edu	37	chr17	3974039	3974039	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accagagcagcaaaggtggcGttcacagcttgatcaatagt	13	8	11	9	1	2	2	2	1	0	1	2	2	2	2	1	2	3	4	1	2	3	3	rs115914263	by1000genomes	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:3974039G>A	uc002fxe.2	-	26	4078	c.4014C>T	c.(4012-4014)AAC>AAT	p.N1338N	ZZEF1_uc002fxj.1_Translation_Start_Site	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	1338							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CAAAGGTGGCGTTCACAGCTT	0.403													29	156					0	0	0.009535	0	0		A	3974039	A	A	3974039	2	1	127	1	0	0	0	0	0	0	0	1	18280	1136	40	1		1	ZZEF1	17	3974039	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	37845	3974039	77221171	935	70015											
ENO3	2027	broad.mit.edu	37	chr17	4856098	4856098	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgtcccaggccgattcCgagcagctgtgcccagtggg	5	8	13	15	2	0	0	0	0	0	0	3	2	3	0	5	2	3	2	5	2	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:4856098C>T	uc002gab.3	+	3	188	c.94C>T	c.(94-96)CGA>TGA	p.R32*	ENO3_uc010vsr.1_5'UTR|ENO3_uc002gac.3_Nonsense_Mutation_p.R32*|ENO3_uc010vss.1_Nonsense_Mutation_p.R32*|ENO3_uc010vst.1_5'Flank	NM_053013	NP_443739	P13929	ENOB_HUMAN	enolase 3	32					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex	magnesium ion binding|phosphopyruvate hydratase activity			ovary(1)	1						AGGCCGATTCCGAGCAGCTGT	0.408													3	15					0	0	0.004672	0	0		T	4856098	T	T	4856098	4	4	127	1	0	0	0	0	0	1	0	0	5131	644	23	1	100	1	ENO3	17	4856098	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	882059	4856098	76339112	936	70016											
SLC13A5	284111	broad.mit.edu	37	chr17	6606329	6606329	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacgttgggtcccgtccCggtcagggtggcggtgcccc	3	7	15	16	4	1	0	1	0	0	0	3	0	3	0	5	5	1	1	5	5	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:6606329C>G	uc002gdj.2	-	5	764	c.676G>C	c.(676-678)GGG>CGG	p.G226R	SLC13A5_uc010vtf.1_Missense_Mutation_p.G226R|SLC13A5_uc010clq.2_Missense_Mutation_p.G183R|SLC13A5_uc002gdk.2_Missense_Mutation_p.G209R|SLC13A5_uc002gdl.1_Missense_Mutation_p.G208R	NM_177550	NP_808218	Q86YT5	S13A5_HUMAN	solute carrier family 13, member 5 isoform a	226	Helical; (Potential).					integral to membrane	citrate transmembrane transporter activity				0						GGTCCCGTCCCGGTCAGGGTG	0.642													23	100					0	0	0.004656	0	0		G	6606329	G	G	6606329	3	3	127	1	0	0	0	0	1	0	0	0	14420	652	23	5	1062	5	SLC13A5	17	6606329	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1750231	6606329	74588881	937	70017											
KDM6B	23135	broad.mit.edu	37	chr17	7752943	7752943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctcatcaaggtagagagtGgtgacaaggagacctttatc	12	9	13	7	0	2	3	2	1	0	2	3	5	2	3	1	4	0	2	1	4	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:7752943G>A	uc002giw.1	+	11	3713	c.3337G>A	c.(3337-3339)GGT>AGT	p.G1113S	KDM6B_uc002gix.2_Missense_Mutation_p.G415S	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	1113					inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						GGTAGAGAGTGGTGACAAGGA	0.632													6	28					0	0	0.001984	0	0		A	7752943	A	A	7752943	3	1	127	1	0	0	0	0	1	0	0	0	8154	1348	47	4	3367	4	KDM6B	17	7752943	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1146614	7752943	73442267	938	70018											
USP43	124739	broad.mit.edu	37	chr17	9631908	9631908	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acctctgagctagacagaccCctgcaggggacactcaccct	10	6	9	16	0	2	3	1	1	1	2	2	4	2	4	4	2	2	2	4	2	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:9631908C>A	uc010cod.2	+	15	2973	c.2973C>A	c.(2971-2973)CCC>CCA	p.P991P	USP43_uc002gma.3_Silent_p.P680P|USP43_uc010vva.1_Silent_p.P986P|USP43_uc010coe.2_Silent_p.P788P|USP43_uc002gmc.3_Silent_p.P503P	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	ubiquitin specific protease 43	991					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						TAGACAGACCCCTGCAGGGGA	0.587													7	57					7.48243e-07	7.84216e-07	0.006214	1	0		A	9631908	A	A	9631908	2	1	127	1	0	0	0	0	0	0	0	1	17100	610	22	5		5	USP43	17	9631908	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1878965	9631908	71563302	939	70019											
MYH8	4626	broad.mit.edu	37	chr17	10315825	10315825	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttggccagagcacccacCgcattgtacaccttcacaga	10	8	8	15	1	1	2	1	0	0	2	1	2	1	2	4	1	2	4	4	1	1	4	rs113680036	by1000genomes	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:10315825C>T	uc002gmm.2	-	14	1373	c.1278G>A	c.(1276-1278)GCG>GCA	p.A426A	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	426	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GAGCACCCACCGCATTGTACA	0.493									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				71	365					0	0	0.01441	0	0		T	10315825	T	T	10315825	2	4	127	1	0	0	0	0	0	0	0	1	10059	639	23	1		1	MYH8	17	10315825	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	683917	10315825	70879385	940	70020											
DNAH9	1770	broad.mit.edu	37	chr17	11757384	11757384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtcagcaatgtcagcgctgCggtgatggtactgatggctc	7	10	14	10	3	2	2	2	2	0	0	3	2	2	2	0	3	4	4	0	3	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:11757384C>T	uc002gne.2	+	50	9640	c.9572C>T	c.(9571-9573)GCG>GTG	p.A3191V	DNAH9_uc010coo.2_Missense_Mutation_p.A2485V	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3191	Stalk (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GTCAGCGCTGCGGTGATGGTA	0.582													12	56					0	0	0.00245	0	0		T	11757384	T	T	11757384	3	4	127	1	0	0	0	0	1	0	0	0	4614	768	27	1	9770	1	DNAH9	17	11757384	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1441559	11757384	69437826	941	70021											
FLCN	201163	broad.mit.edu	37	chr17	17117130	17117130	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtgtgtcctctttgggtcGactgtccaccttggtgaact	4	15	11	11	1	1	1	0	1	1	0	4	2	3	1	3	2	1	0	3	2	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:17117130G>A	uc002gra.3	-	14	2083	c.1579C>T	c.(1579-1581)CGA>TGA	p.R527*	PLD6_uc010cpn.2_Intron	NM_144997	NP_659434	Q8NFG4	FLCN_HUMAN	folliculin isoform 1	527					regulation of protein phosphorylation	cytoplasm|nucleus|plasma membrane	protein binding			thyroid(1)|haematopoietic_and_lymphoid_tissue(1)|lung(1)	3						TCTTTGGGTCGACTGTCCACC	0.512									Birt-Hogg-Dub__syndrome|Familial_Non-VHL_Clear_Cell_Renal_Cancer				53	233					0	0	0.01441	0	0		A	17117130	A	A	17117130	4	1	127	1	0	0	0	0	0	1	0	0	5935	1066	37	1	164	1	FLCN	17	17117130	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5359746	17117130	64078080	942	70022											
SREBF1	6720	broad.mit.edu	37	chr17	17720700	17720700	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacaggcagaggaagacgagCgtgcacagggccaggcggga	12	1	19	9	3	0	2	0	0	0	2	0	6	0	4	1	5	2	2	1	5	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:17720700C>T	uc002gru.1	-	8	1670	c.1476G>A	c.(1474-1476)ACG>ACA	p.T492T	SREBF1_uc002grp.1_Silent_p.T111T|SREBF1_uc002grq.1_Silent_p.T11T|SREBF1_uc002grr.1_Silent_p.T238T|SREBF1_uc002grs.1_Silent_p.T468T|SREBF1_uc002grt.1_Silent_p.T522T	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	492	Helical; (Potential).|Interaction with LMNA (By similarity).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						GGAAGACGAGCGTGCACAGGG	0.692													4	4					0	0	0.001984	0	0		T	17720700	T	T	17720700	2	4	127	1	0	0	0	0	0	0	0	1	15166	755	27	1		1	SREBF1	17	17720700	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	603570	17720700	63474510	943	70023											
TOM1L2	146691	broad.mit.edu	37	chr17	17766052	17766052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggccccacatacgtcttgcGctgctcagccaaggagtttc	7	9	11	14	2	2	0	1	0	1	0	3	1	2	1	3	2	4	3	3	2	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:17766052G>A	uc002grz.3	-	11	1352	c.1195C>T	c.(1195-1197)CGC>TGC	p.R399C	TOM1L2_uc002gry.3_Missense_Mutation_p.R349C|TOM1L2_uc010vwy.1_Missense_Mutation_p.R346C|TOM1L2_uc010cpr.2_Missense_Mutation_p.R354C|TOM1L2_uc010vwz.1_Missense_Mutation_p.R251C|TOM1L2_uc010vxa.1_Missense_Mutation_p.R301C|TOM1L2_uc002grv.3_Missense_Mutation_p.R132C	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	399					intracellular protein transport	intracellular					0	all_neural(463;0.228)					TACGTCTTGCGCTGCTCAGCC	0.527													75	303					0	0	0.01441	0	0		A	17766052	A	A	17766052	3	1	127	1	0	0	0	0	1	0	0	0	16378	1087	38	1	348	1	TOM1L2	17	17766052	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	45352	17766052	63429158	944	70024											
MYO15A	51168	broad.mit.edu	37	chr17	18023410	18023410	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccacgccatggatgacatCgccgagctggaggaaccaga	11	4	13	13	3	0	2	0	1	0	1	1	6	0	5	4	3	2	1	4	3	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:18023410C>T	uc010vxh.1	+	2	1634	c.1296C>T	c.(1294-1296)ATC>ATT	p.I432I		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	432	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					TGGATGACATCGCCGAGCTGG	0.642													11	63					0	0	0.001855	0	0		T	18023410	T	T	18023410	2	4	127	1	0	0	0	0	0	0	0	1	10081	874	31	1		1	MYO15A	17	18023410	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	257358	18023410	63171800	945	70025											
MYO15A	51168	broad.mit.edu	37	chr17	18039027	18039027	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttggtattttgcatagacGgatgcacaggaggtggcctc	8	12	14	7	1	0	1	0	0	0	1	1	3	0	3	1	5	2	4	1	5	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:18039027G>A	uc010vxh.1	+	12	4823	c.4485G>A	c.(4483-4485)ACG>ACA	p.T1495T		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1495	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					TTGCATAGACGGATGCACAGG	0.438													4	40					0	0	0.000602	0	0		A	18039027	A	A	18039027	2	1	127	1	0	0	0	0	0	0	0	1	10081	1103	39	1		1	MYO15A	17	18039027	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	15617	18039027	63156183	946	70026											
LLGL1	3996	broad.mit.edu	37	chr17	18140176	18140176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttcgatccctacagtgacGatccccggcttggcgtgcag	6	9	12	14	4	0	1	0	1	0	0	3	3	2	1	3	2	2	3	3	2	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:18140176G>A	uc002gsp.2	+	13	1595	c.1534G>A	c.(1534-1536)GAT>AAT	p.D512N		NM_004140	NP_004131	Q15334	L2GL1_HUMAN	lethal giant larvae homolog 1	512					cortical actin cytoskeleton organization|exocytosis|protein complex assembly	cortical actin cytoskeleton	protein kinase binding|structural molecule activity			breast(2)|skin(2)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)	6	all_neural(463;0.228)					CTACAGTGACGATCCCCGGCT	0.632													8	27					0	0	0.013537	0	0		A	18140176	A	A	18140176	3	1	127	1	0	0	0	0	1	0	0	0	8850	1058	37	1	1584	1	LLGL1	17	18140176	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	101149	18140176	63055034	947	70027											
MAP2K3	5606	broad.mit.edu	37	chr17	21215543	21215543	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggaggagccgtccccccaGctcccagccgaccgtttctc	5	7	11	18	3	1	0	0	0	1	0	4	3	3	2	7	2	3	2	7	2	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:21215543G>A	uc002gys.2	+	10	1129	c.864G>A	c.(862-864)CAG>CAA	p.Q288Q	MAP2K3_uc002gyt.2_Silent_p.Q259Q|MAP2K3_uc002gyu.2_Silent_p.Q259Q	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	288	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		CGTCCCCCCAGCTCCCAGCCG	0.652													6	26					0	0	0.00308	0	0		A	21215543	A	A	21215543	2	1	127	1	0	0	0	0	0	0	0	1	9256	962	34	2		2	MAP2K3	17	21215543	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3075367	21215543	59979667	948	70028											
NOS2	4843	broad.mit.edu	37	chr17	26116642	26116642	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgacctttcccgtctcCacgaggggctgcggggactc	5	9	12	15	3	2	1	1	1	1	0	5	3	3	2	3	4	1	1	3	4	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:26116642C>T	uc002gzu.2	-	3	447	c.183G>A	c.(181-183)GTG>GTA	p.V61V	NOS2_uc010crh.1_Silent_p.V61V|NOS2_uc010wab.1_Silent_p.V61V	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	61					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	TTCCCGTCTCCACGAGGGGCT	0.557													25	146					0	0	0.008361	0	0		T	26116642	T	T	26116642	2	4	127	1	0	0	0	0	0	0	0	1	10562	581	21	4		4	NOS2	17	26116642	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4901099	26116642	55078568	949	70029											
CRYBA1	1411	broad.mit.edu	37	chr17	27580761	27580761	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcaagccatgggctggtTcaacaacgaagtcggctcca	10	8	11	12	2	1	0	1	0	0	0	3	1	2	0	2	3	4	4	2	3	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:27580761T>C	uc002hdw.2	+	5	468	c.461T>C	c.(460-462)TTC>TCC	p.F154S		NM_005208	NP_005199	P05813	CRBA1_HUMAN	crystallin, beta A3	154	Beta/gamma crystallin 'Greek key' 3.				visual perception	soluble fraction	structural constituent of eye lens				0			BRCA - Breast invasive adenocarcinoma(11;3.3e-05)|Colorectal(6;0.0178)|COAD - Colon adenocarcinoma(6;0.0551)			ATGGGCTGGTTCAACAACGAA	0.453													12	64					0	0	0.001855	0	0		C	27580761	C	C	27580761	3	2	127	1	0	0	0	0	1	0	0	0	3910	1783	62	3	479	3	CRYBA1	17	27580761	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1464119	27580761	53614449	950	70030											
ANKRD13B	124930	broad.mit.edu	37	chr17	27936411	27936411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctggcgcagtgaaaagaCggagatggtgaatgggtatg	11	7	19	4	2	0	4	0	2	0	2	0	5	0	4	0	5	0	3	0	5	4	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:27936411C>T	uc002hei.2	+	7	907	c.794C>T	c.(793-795)ACG>ATG	p.T265M	ANKRD13B_uc002heh.2_Missense_Mutation_p.T133M|ANKRD13B_uc002hej.2_RNA	NM_152345	NP_689558	Q86YJ7	AN13B_HUMAN	ankyrin repeat domain 13B	265											0						AGTGAAAAGACGGAGATGGTG	0.602													6	37					0	0	0.001168	0	0		T	27936411	T	T	27936411	3	4	127	1	0	0	0	0	1	0	0	0	642	536	19	1	820	1	ANKRD13B	17	27936411	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	355650	27936411	53258799	951	70031											
ATAD5	79915	broad.mit.edu	37	chr17	29161234	29161234	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attacaaaatatttatcaccActagggaagactagagacag	18	9	7	7	0	1	2	1	0	0	2	1	4	1	3	1	1	1	0	1	1	8	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:29161234A>G	uc002hfs.1	+	2	481	c.135A>G	c.(133-135)CCA>CCG	p.P45P	ATAD5_uc002hft.1_5'UTR	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	45					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				ATTTATCACCACTAGGGAAGA	0.353													36	151					0	0	0.004289	0	0		G	29161234	G	G	29161234	2	3	127	1	0	0	0	0	0	0	0	1	1077	146	6	3		3	ATAD5	17	29161234	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1224823	29161234	52033976	952	70032											
ADAP2	55803	broad.mit.edu	37	chr17	29281495	29281495	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaagttccctcttttgcaGcagaaagaacctttcaagaa	15	10	7	9	0	2	4	1	0	1	4	3	4	3	4	2	0	3	3	2	0	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:29281495G>A	uc002hfx.2	+	9	1084	c.805_splice	c.e9-1	p.Q269_splice	ADAP2_uc010csk.2_Splice_Site_p.Q275_splice|ADAP2_uc002hfy.2_Intron|ADAP2_uc010csl.2_Splice_Site	NM_018404	NP_060874	Q9NPF8	ADAP2_HUMAN	centaurin-alpha 2 protein						heart development|regulation of ARF GTPase activity	mitochondrial envelope|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding, bridging|zinc ion binding	p.?(1)		ovary(1)	1						CTCTTTTGCAGCAGAAAGAAC	0.537													60	239					0	0	0.01441	0	0		A	29281495	A	A	29281495	5	1	127	1	0	0	0	0	0	0	1	0	280	985	34	2	838	2	ADAP2	17	29281495	Splice_Site	SNP	G	TCGA-CG-4305-01A-01D-1158-08	120261	29281495	51913715	953	70033											
PSMD11	5717	broad.mit.edu	37	chr17	30796051	30796051	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggagttgaaaaagatggaCgacaaagctcttttggtgga	13	9	14	5	2	1	2	0	1	1	1	1	6	1	5	0	4	1	2	0	4	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:30796051C>T	uc010cta.1	+	6	523	c.483C>T	c.(481-483)GAC>GAT	p.D161D	PSMD11_uc010wbz.1_Silent_p.D161D|PSMD11_uc002hhm.2_Silent_p.D161D	NM_002815	NP_002806	O00231	PSD11_HUMAN	proteasome 26S non-ATPase subunit 11	161					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding			ovary(1)	1		Breast(31;0.159)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.109)			AAAAGATGGACGACAAAGCTC	0.448													27	85					0	0	0.004656	0	0		T	30796051	T	T	30796051	2	4	127	1	0	0	0	0	0	0	0	1	12716	535	19	1		1	PSMD11	17	30796051	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1514556	30796051	50399159	954	70034											
CCL7	6354	broad.mit.edu	37	chr17	32597332	32597332	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagcctctgcagcacttcTgtgtctgctgctcacagcag	8	10	10	13	0	4	0	1	0	3	0	4	1	4	0	1	0	6	5	1	0	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:32597332T>G	uc002hhz.2	+	1	93	c.23T>G	c.(22-24)CTG>CGG	p.L8R	CCL7_uc010ctf.2_RNA	NM_006273	NP_006264	P80098	CCL7_HUMAN	chemokine (C-C motif) ligand 7 precursor	8					cell-cell signaling|cellular calcium ion homeostasis|chemotaxis|immune response|inflammatory response|signal transduction	extracellular space	chemokine activity|heparin binding			ovary(1)	1	Breast(3;0.00224)	Breast(31;0.151)|Ovarian(249;0.17)		BRCA - Breast invasive adenocarcinoma(366;0.155)		GCAGCACTTCTGTGTCTGCTG	0.572													18	55					0	0	0.012319	0	0		G	32597332	G	G	32597332	3	3	127	1	0	0	0	0	1	0	0	0	2909	1580	55	5	25	5	CCL7	17	32597332	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1801281	32597332	48597878	955	70035											
SLFN12	55106	broad.mit.edu	37	chr17	33749721	33749721	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaggtgttcaagctccaTgacttcacaaaaatcagaaa	16	8	7	10	0	3	3	3	1	0	2	4	3	4	3	2	1	1	2	2	1	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:33749721T>C	uc002hji.3	-	2	704	c.327A>G	c.(325-327)TCA>TCG	p.S109S	SLFN12_uc002hjj.3_Silent_p.S109S|SLFN12_uc010cts.2_Silent_p.S109S	NM_018042	NP_060512	Q8IYM2	SLN12_HUMAN	schlafen family member 12	109							ATP binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TCAAGCTCCATGACTTCACAA	0.383													17	82					0	0	0.006122	0	0		C	33749721	C	C	33749721	2	2	127	1	0	0	0	0	0	0	0	1	14759	1451	51	3		3	SLFN12	17	33749721	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	1152389	33749721	47445489	956	70036											
MMP28	79148	broad.mit.edu	37	chr17	34106027	34106027	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagtcatctggcgcagggTggcgcggtccaacacgccgc	7	5	15	14	6	2	0	1	0	1	0	3	1	3	0	2	4	1	1	2	4	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:34106027T>C	uc002hjy.1	-	3	503	c.244A>G	c.(244-246)ACC>GCC	p.T82A	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA|MMP28_uc002hka.2_Missense_Mutation_p.T82A	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	82					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		TGGCGCAGGGTGGCGCGGTCC	0.607													12	52					0	0	0.001855	0	0		C	34106027	C	C	34106027	3	2	127	1	0	0	0	0	1	0	0	0	9683	1696	59	3	1355	3	MMP28	17	34106027	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	356306	34106027	47089183	957	70037											
C17orf66	256957	broad.mit.edu	37	chr17	34192249	34192249	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctcattttcctcaacatcTtctcagcctccctttcctct	5	17	1	18	0	5	0	3	0	4	0	10	0	8	0	4	0	2	0	4	0	1	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:34192249T>A	uc002hke.1	-	3	439	c.290A>T	c.(289-291)AAG>ATG	p.K97M	C17orf66_uc010wck.1_RNA|C17orf66_uc010wcl.1_Missense_Mutation_p.K97M|C17orf66_uc010wcm.1_Missense_Mutation_p.K63M	NM_152781	NP_689994	A2RTY3	CQ066_HUMAN	hypothetical protein LOC256957	97							binding			breast(2)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		CCTCAACATCTTCTCAGCCTC	0.488													14	70					0	0	0.004007	0	0		A	34192249	A	A	34192249	3	1	127	1	0	0	0	0	1	0	0	0	1877	1609	56	5	1474	5	C17orf66	17	34192249	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	86222	34192249	47002961	958	70038											
MYO19	80179	broad.mit.edu	37	chr17	34856703	34856703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgacggcccgccactgccGctcctgctctcggtgccggt	3	8	12	18	5	1	1	0	1	1	0	3	1	2	1	5	3	3	2	5	3	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:34856703G>A	uc010wcy.1	-	24	3336	c.2344C>T	c.(2344-2346)CGG>TGG	p.R782W	MYO19_uc002hmw.2_Missense_Mutation_p.R582W|MYO19_uc010cuu.2_RNA	NM_001163735	NP_001157207	Q96H55	MYO19_HUMAN	myosin XIX isoform 2	782						mitochondrial outer membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)	1		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		CGCCACTGCCGCTCCTGCTCT	0.642													3	16					0	0	0.004672	0	0		A	34856703	A	A	34856703	3	1	127	1	0	0	0	0	1	0	0	0	10085	1086	38	1	584	1	MYO19	17	34856703	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	664454	34856703	46338507	959	70039											
GGNBP2	79893	broad.mit.edu	37	chr17	34913105	34913105	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccctaacagtagggcccaaGggagtcctgtctgtaactag	10	8	11	12	0	1	0	0	0	1	0	2	1	2	1	4	2	2	2	4	2	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:34913105G>T	uc002hnb.2	+	4	606	c.357G>T	c.(355-357)AAG>AAT	p.K119N	GGNBP2_uc002hna.2_Missense_Mutation_p.K119N	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	119					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		TAGGGCCCAAGGGAGTCCTGT	0.443													23	106					3.6726e-16	4.1074e-16	0.003954	1	0		T	34913105	T	T	34913105	3	4	127	1	0	0	0	0	1	0	0	0	6374	991	35	5	367	5	GGNBP2	17	34913105	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	56402	34913105	46282105	960	70040											
GRB7	2886	broad.mit.edu	37	chr17	37899217	37899217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcagcaggtgccacagctCgccacgtgtgtgaaatgctg	8	8	14	11	2	0	1	0	1	0	0	1	1	0	1	2	2	4	4	2	2	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:37899217C>T	uc002hsr.2	+	4	623	c.373C>T	c.(373-375)CGC>TGC	p.R125C	GRB7_uc002hss.2_Missense_Mutation_p.R125C|GRB7_uc010cwc.2_Missense_Mutation_p.R125C|GRB7_uc002hst.2_Missense_Mutation_p.R125C	NM_005310	NP_005301	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	125	Ras-associating.				blood coagulation|epidermal growth factor receptor signaling pathway|leukocyte migration|negative regulation of translation|positive regulation of cell migration|stress granule assembly	cytosol|focal adhesion|stress granule	phosphatidylinositol binding|protein kinase binding|SH3/SH2 adaptor activity			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			TGCCACAGCTCGCCACGTGTG	0.622													15	80					0	0	0.006122	0	0		T	37899217	T	T	37899217	3	4	127	1	0	0	0	0	1	0	0	0	6775	884	31	1	383	1	GRB7	17	37899217	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2986112	37899217	43295993	961	70041											
RARA	5914	broad.mit.edu	37	chr17	38510653	38510653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatgcacaacgctggcttcGgccccctcaccgacctggtc	7	7	10	17	3	1	1	1	0	0	1	3	2	1	1	4	3	2	3	4	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:38510653G>A	uc002huk.1	+	7	1362	c.907G>A	c.(907-909)GGC>AGC	p.G303S	RARA_uc002hul.3_Missense_Mutation_p.G303S|RARA_uc010wfe.1_Missense_Mutation_p.G206S|RARA_uc002hun.1_Missense_Mutation_p.G298S	NM_000964	NP_000955	P10276	RARA_HUMAN	retinoic acid receptor, alpha isoform 1	303	Ligand-binding.				apoptotic cell clearance|cellular response to estrogen stimulus|cellular response to retinoic acid|estrogen receptor signaling pathway|negative regulation of granulocyte differentiation|negative regulation of interferon-gamma production|negative regulation of tumor necrosis factor production|positive regulation of binding|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of interleukin-13 production|positive regulation of interleukin-4 production|positive regulation of interleukin-5 production|positive regulation of T-helper 2 cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	cytoplasm|nucleoplasm	chromatin DNA binding|enzyme binding|protein domain specific binding|protein heterodimerization activity|receptor binding|retinoic acid binding|retinoic acid receptor activity|retinoic acid-responsive element binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00143)		Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Isotretinoin(DB00982)|Tamibarotene(DB04942)|Tazarotene(DB00799)	CGCTGGCTTCGGCCCCCTCAC	0.647			T	PML|ZNF145|TIF1|NUMA1|NPM1	APL								19	54					0	0	0.007413	0	0		A	38510653	A	A	38510653	3	1	127	1	0	0	0	0	1	0	0	0	13077	1116	39	1	1096	1	RARA	17	38510653	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	611436	38510653	42684557	962	70042											
KRT222	125113	broad.mit.edu	37	chr17	38818172	38818172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgggatcattctcaccacaGcatggagagattcaatttcc	11	12	8	10	0	3	1	3	0	1	1	5	4	4	3	2	2	1	1	2	2	1	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:38818172G>A	uc002hvc.2	-	2	286	c.221C>T	c.(220-222)GCT>GTT	p.A74V	KRT222_uc010wfk.1_RNA|KRT222_uc002hvb.2_Missense_Mutation_p.A34V|KRT222_uc010cxc.2_Missense_Mutation_p.A34V	NM_152349	NP_689562	Q8N1A0	KT222_HUMAN	truncated type I keratin KA21	74	Potential.					intermediate filament	structural molecule activity			central_nervous_system(1)|skin(1)	2						TCTCACCACAGCATGGAGAGA	0.458													17	421					0	0	0.006122	0	0		A	38818172	A	A	38818172	3	1	127	1	0	0	0	0	1	0	0	0	8475	971	34	2	686	2	KRT222	17	38818172	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	307519	38818172	42377038	963	70043											
KRTAP4-8	728224	broad.mit.edu	37	chr17	39253833	39253833	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcaggtggagatgacacaGgctgggcgatagcaagtggt	10	6	19	6	1	0	2	0	1	0	1	0	4	0	2	0	6	1	3	0	6	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:39253833G>T	uc010wfo.1	-	1	543	c.504C>A	c.(502-504)GCC>GCA	p.A168A		NM_031960	NP_114166	Q9BYQ9	KRA48_HUMAN	keratin associated protein 4.8	168				A -> T (in Ref. 2; CAC27579).		keratin filament					0						AGATGACACAGGCTGGGCGAT	0.493													3	3					0.00024832	0.000254978	0.009096	1	0		T	39253833	T	T	39253833	2	4	127	1	0	0	0	0	0	0	0	1	8572	987	35	5		5	KRTAP4-8	17	39253833	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	435661	39253833	41941377	964	70044											
HDAC5	10014	broad.mit.edu	37	chr17	42162480	42162480	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtgcacgtgtgtgttcccGcacatgcactggtgctttag	5	12	14	10	2	0	0	0	0	0	0	1	0	1	0	1	2	3	5	1	2	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:42162480G>A	uc002ifd.1	-	15	2305	c.2094C>T	c.(2092-2094)TGC>TGT	p.C698C	HDAC5_uc002ife.1_Silent_p.C698C|HDAC5_uc002iff.1_Silent_p.C699C|HDAC5_uc010czp.1_Intron|HDAC5_uc002ifg.1_Silent_p.C8C|HDAC5_uc002ifh.2_Silent_p.C698C	NM_005474	NP_005465	Q9UQL6	HDAC5_HUMAN	histone deacetylase 5 isoform 1	698	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|chromatin remodeling|chromatin silencing|inflammatory response|negative regulation of cell migration involved in sprouting angiogenesis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			ovary(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.118)		GTGTGTTCCCGCACATGCACT	0.612													10	48					0	0	0.010729	0	0		A	42162480	A	A	42162480	2	1	127	1	0	0	0	0	0	0	0	1	7026	1079	38	1		1	HDAC5	17	42162480	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2908647	42162480	39032730	965	70045											
GRN	2896	broad.mit.edu	37	chr17	42426635	42426635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcctgctgcctggaccccGgaggagccagctacagctgc	6	6	14	15	1	0	0	0	0	0	0	0	3	0	3	5	4	7	3	5	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:42426635G>A	uc002igp.1	+	2	322	c.103G>A	c.(103-105)GGA>AGA	p.G35R	GRN_uc002igq.1_Missense_Mutation_p.G35R|GRN_uc002igr.1_5'Flank	NM_002087	NP_002078	P28799	GRN_HUMAN	granulin precursor	35					signal transduction	extracellular space	cytokine activity|growth factor activity			ovary(2)|central_nervous_system(2)|skin(1)	5		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		CCTGGACCCCGGAGGAGCCAG	0.637													10	44					0	0	0.003163	0	0		A	42426635	A	A	42426635	3	1	127	1	0	0	0	0	1	0	0	0	6820	1117	39	1	105	1	GRN	17	42426635	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	264155	42426635	38768575	966	70046											
ADAM11	4185	broad.mit.edu	37	chr17	42854609	42854609	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgtgggcgcaagggatCtggctgggtccagtgcagta	7	8	18	8	1	1	0	0	0	1	0	2	2	2	1	1	4	2	5	1	4	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:42854609C>A	uc002ihh.2	+	21	1757	c.1757C>A	c.(1756-1758)TCT>TAT	p.S586Y	ADAM11_uc010wjd.1_Missense_Mutation_p.S386Y|ADAM11_uc002ihi.2_5'Flank	NM_002390	NP_002381	O75078	ADA11_HUMAN	ADAM metallopeptidase domain 11 preproprotein	586	Cys-rich.|Extracellular (Potential).				integrin-mediated signaling pathway|proteolysis	integral to membrane|plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			pancreas(1)	1		Prostate(33;0.0959)				CGCAAGGGATCTGGCTGGGTC	0.607													11	56					2.61681e-11	2.85014e-11	0.00245	1	0		A	42854609	A	A	42854609	3	1	127	1	0	0	0	0	1	0	0	0	235	913	32	5	1839	5	ADAM11	17	42854609	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	427974	42854609	38340601	967	70047											
KIAA1267	284058	broad.mit.edu	37	chr17	44249126	44249126	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaaaactccaaaactggCtgtctccccaacagctcagc	14	6	7	14	0	2	0	1	0	1	0	4	1	3	1	3	2	5	2	3	2	6	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:44249126C>T	uc002ikb.2	-	1	469	c.384G>A	c.(382-384)CAG>CAA	p.Q128Q	KIAA1267_uc002ikc.2_Silent_p.Q128Q|KIAA1267_uc002ikd.2_Silent_p.Q128Q|KIAA1267_uc010dav.2_Silent_p.Q128Q	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	128						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				CCAAAACTGGCTGTCTCCCCA	0.453													57	226					0	0	0.01441	0	0		T	44249126	T	T	44249126	2	4	127	1	0	0	0	0	0	0	0	1	8235	796	28	2		2	KIAA1267	17	44249126	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1394517	44249126	36946084	968	70048											
HEATR6	63897	broad.mit.edu	37	chr17	58132907	58132907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctctctgatcaggtgctGcagtggagtctggtttatac	6	14	13	8	0	3	1	1	1	2	0	4	2	3	2	0	3	4	4	0	3	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:58132907G>A	uc002iyk.1	-	14	2275	c.2258C>T	c.(2257-2259)GCA>GTA	p.A753V	HEATR6_uc010ddk.1_Missense_Mutation_p.A292V|HEATR6_uc010wos.1_Intron	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	753				A -> T (in Ref. 5; AAL83912).			binding			ovary(1)|skin(1)	2	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			ATCAGGTGCTGCAGTGGAGTC	0.393													9	45					0	0	0.008291	0	0		A	58132907	A	A	58132907	3	1	127	1	0	0	0	0	1	0	0	0	7049	1319	46	2	1315	2	HEATR6	17	58132907	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	13883781	58132907	23062303	969	70049											
TLK2	11011	broad.mit.edu	37	chr17	60598172	60598172	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttccaaccagagcttgtgCagcgtcggatccttgagtga	8	11	11	11	2	1	3	0	2	1	1	4	4	3	4	3	1	4	2	3	1	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:60598172C>T	uc010ddp.2	+	3	388	c.120C>T	c.(118-120)TGC>TGT	p.C40C	TLK2_uc002izx.3_5'UTR|TLK2_uc002izz.3_Silent_p.C40C|TLK2_uc002jaa.3_Silent_p.C40C|TLK2_uc010wpd.1_Silent_p.C40C	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	40					cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						AGAGCTTGTGCAGCGTCGGAT	0.323													4	124					0	0	0.000602	0	0		T	60598172	T	T	60598172	2	4	127	1	0	0	0	0	0	0	0	1	15969	718	25	2		2	TLK2	17	60598172	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2465265	60598172	20597038	970	70050											
AMZ2	51321	broad.mit.edu	37	chr17	66246991	66246991	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atattaaatggctcacgggcTactgtaaagcatatttctat	13	14	7	7	1	2	0	1	0	1	0	2	0	2	0	0	2	2	4	0	2	8	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:66246991T>G	uc002jgs.1	+	4	457	c.340T>G	c.(340-342)TAC>GAC	p.Y114D	AMZ2_uc002jgr.1_Missense_Mutation_p.Y114D|AMZ2_uc002jgt.1_Missense_Mutation_p.Y114D|AMZ2_uc002jgu.1_Missense_Mutation_p.Y114D|AMZ2_uc002jgv.1_Missense_Mutation_p.Y114D|AMZ2_uc002jgw.1_Intron|AMZ2_uc002jgy.1_Missense_Mutation_p.Y114D	NM_001033572	NP_001028744	Q86W34	AMZ2_HUMAN	archaemetzincins-2 isoform 1	114							metallopeptidase activity|zinc ion binding				0	all_cancers(12;1.12e-09)		BRCA - Breast invasive adenocarcinoma(8;3.17e-08)|LUSC - Lung squamous cell carcinoma(166;0.24)			GCTCACGGGCTACTGTAAAGC	0.353													33	83					0	0	0.004878	0	0		G	66246991	G	G	66246991	3	3	127	1	0	0	0	0	1	0	0	0	597	1522	53	5	346	5	AMZ2	17	66246991	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	5648819	66246991	14948219	971	70051											
SOX9	6662	broad.mit.edu	37	chr17	70120097	70120097	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcagccgcaggcggcgcccCcacagcagccggcggcaccc	6	0	14	21	6	0	0	0	0	0	0	0	0	0	0	5	4	3	4	5	4	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:70120097C>A	uc002jiw.2	+	3	1471	c.1099C>A	c.(1099-1101)CCA>ACA	p.P367T		NM_000346	NP_000337	P48436	SOX9_HUMAN	transcription factor SOX9	367	Gln/Pro-rich.				cAMP-mediated signaling|negative regulation of transcription, DNA-dependent|positive regulation of branching involved in ureteric bud morphogenesis|protein complex assembly|renal vesicle induction	nucleus|protein complex	core promoter sequence-specific DNA binding|enhancer binding|protein kinase A catalytic subunit binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription				0		Colorectal(1115;0.245)	STAD - Stomach adenocarcinoma(260;0.119)			ggcggcgcccccacagcagcc	0.269													5	11					1.06961e-07	1.12855e-07	0.00308	1	0		A	70120097	A	A	70120097	3	1	127	1	0	0	0	0	1	0	0	0	14983	623	22	5	1109	5	SOX9	17	70120097	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3873106	70120097	11075113	972	70052											
SLC39A11	201266	broad.mit.edu	37	chr17	70645098	70645098	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatgccgctcagctgcccaTacctaaggagagaacagaga	13	5	10	13	1	1	2	1	0	0	2	1	5	1	3	4	1	5	2	4	1	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:70645098T>C	uc002jjb.2	-	9	909	c.794A>G	c.(793-795)TAT>TGT	p.Y265C	SLC39A11_uc002jja.2_Missense_Mutation_p.Y258C	NM_001159770	NP_001153242	Q8N1S5	S39AB_HUMAN	solute carrier family 39, member 11 isoform 1	265	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)	1						CAGCTGCCCATACCTAAGGAG	0.612													4	27					0	0	0.000602	0	0		C	70645098	C	C	70645098	3	2	127	1	0	0	0	0	1	0	0	0	14639	1406	49	3	242	3	SLC39A11	17	70645098	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	525001	70645098	10550112	973	70053											
C17orf80	55028	broad.mit.edu	37	chr17	71238436	71238436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagtttggaaccccctgccGgacttacaacctccaacttc	9	9	8	15	1	0	0	0	0	0	0	2	3	1	3	5	3	5	1	5	3	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:71238436G>A	uc002jjm.3	+	4	1761	c.1567G>A	c.(1567-1569)GGA>AGA	p.G523R	C17orf80_uc010wqu.1_Intron|C17orf80_uc010dfj.2_Intron|C17orf80_uc002jjk.1_Missense_Mutation_p.G523R|C17orf80_uc002jjl.3_Intron	NM_017941	NP_060411	Q9BSJ5	CQ080_HUMAN	lung cancer-related protein 8 isoform a	523	Extracellular (Potential).					integral to membrane				skin(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			ACCCCCTGCCGGACTTACAAC	0.463													49	133					0	0	0.01441	0	0		A	71238436	A	A	71238436	3	1	127	1	0	0	0	0	1	0	0	0	1888	1117	39	1	1573	1	C17orf80	17	71238436	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	593338	71238436	9956774	974	70054											
GRIN2C	2905	broad.mit.edu	37	chr17	72846719	72846719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgtggttgctctgcctgCggcagggcacggtgttgggg	3	10	20	8	2	1	0	0	0	1	0	1	0	1	0	1	7	3	5	1	7	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:72846719C>T	uc002jlt.1	-	5	1457	c.1301G>A	c.(1300-1302)CGC>CAC	p.R434H	GRIN2C_uc010wrh.1_RNA|GRIN2C_uc002jlu.1_Missense_Mutation_p.R434H|GRIN2C_uc002jlv.1_3'UTR	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	434	Extracellular (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	GCTCTGCCTGCGGCAGGGCAC	0.647													10	61					0	0	0.006122	0	0		T	72846719	T	T	72846719	3	4	127	1	0	0	0	0	1	0	0	0	6797	768	27	1	2436	1	GRIN2C	17	72846719	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1608283	72846719	8348491	975	70055											
C17orf28	283987	broad.mit.edu	37	chr17	72956269	72956269	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagaagagcaggtggttgTaggggatcccgtagcccaca	11	6	15	9	1	0	2	0	0	0	2	1	4	1	3	2	4	2	4	2	4	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:72956269T>C	uc002jmj.3	-	7	952	c.803A>G	c.(802-804)TAC>TGC	p.Y268C	C17orf28_uc010wrs.1_Missense_Mutation_p.Y67C|C17orf28_uc002jmk.2_Missense_Mutation_p.Y267C	NM_030630	NP_085133	Q8IV36	CQ028_HUMAN	hypothetical protein LOC283987	268						integral to membrane|plasma membrane	protein binding				0	all_lung(278;0.151)|Lung NSC(278;0.185)					CAGGTGGTTGTAGGGGATCCC	0.617													11	43					0	0	0.013537	0	0		C	72956269	C	C	72956269	3	2	127	1	0	0	0	0	1	0	0	0	1856	1638	57	3	1615	3	C17orf28	17	72956269	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	109550	72956269	8238941	976	70056											
NUP85	79902	broad.mit.edu	37	chr17	73231232	73231232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagacttatgagttgatgcGgtgtctggaggacttgacgt	9	12	14	6	2	1	4	0	3	1	1	1	6	1	6	0	3	1	1	0	3	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:73231232G>A	uc002jng.1	+	18	2065	c.1805G>A	c.(1804-1806)CGG>CAG	p.R602Q	NUP85_uc010dgd.1_Missense_Mutation_p.R557Q|NUP85_uc010wrv.1_Missense_Mutation_p.R556Q|NUP85_uc002jnh.1_Missense_Mutation_p.R205Q	NM_024844	NP_079120	Q9BW27	NUP85_HUMAN	nucleoporin 85	602					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|nuclear membrane|Nup107-160 complex|spindle	protein binding			ovary(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		all cancers(21;3.45e-06)			GAGTTGATGCGGTGTCTGGAG	0.532													20	79					0	0	0.012319	0	0		A	73231232	A	A	73231232	3	1	127	1	0	0	0	0	1	0	0	0	10789	1116	39	1	1875	1	NUP85	17	73231232	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	274963	73231232	7963978	977	70057											
MIF4GD	57409	broad.mit.edu	37	chr17	73263620	73263620	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggctggggccacccaccTcctcctccttgctcaaactg	6	8	9	18	0	1	0	1	0	0	0	4	0	4	0	6	3	2	2	6	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:73263620T>A	uc002jnr.2	-	5	569	c.440A>T	c.(439-441)GAG>GTG	p.E147V	MIF4GD_uc002jno.2_Missense_Mutation_p.E188V|MIF4GD_uc002jnp.2_Missense_Mutation_p.E181V|MIF4GD_uc002jnq.2_Missense_Mutation_p.E188V			A9UHW6	MI4GD_HUMAN	RecName: Full=MIF4G domain-containing protein; AltName: Full=SLBP-interacting protein 1;          Short=hSLIP1;	147	MIF4G.				regulation of translation|RNA metabolic process	cytoplasm|nucleus	protein C-terminus binding			ovary(1)	1	all_cancers(13;1.25e-07)|all_epithelial(9;2.63e-08)|Breast(9;1.06e-07)		all cancers(21;3.02e-07)|Epithelial(20;2.92e-06)			GCCACCCACCTCCTCCTCCTT	0.612													9	68					0	0	0.008291	0	0		A	73263620	A	A	73263620	3	1	127	1	0	0	0	0	1	0	0	0	9602	1565	54	5	236	5	MIF4GD	17	73263620	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	32388	73263620	7931590	978	70058											
LLGL2	3993	broad.mit.edu	37	chr17	73560538	73560538	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagacggccttcgacttcaCctcccgtgtcatcggcttca	6	10	9	16	4	3	1	3	0	0	1	6	2	4	1	3	2	0	2	3	2	0	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:73560538C>A	uc002joh.2	+	10	1140	c.986C>A	c.(985-987)ACC>AAC	p.T329N	LLGL2_uc002jog.1_Missense_Mutation_p.T329N|LLGL2_uc010dgf.1_Missense_Mutation_p.T329N|LLGL2_uc002joi.2_Missense_Mutation_p.T329N|LLGL2_uc010dgg.1_Missense_Mutation_p.T329N|LLGL2_uc002joj.2_Missense_Mutation_p.T318N|LLGL2_uc010wsd.1_Missense_Mutation_p.P10T|uc002jok.2_5'Flank	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	329					cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			TTCGACTTCACCTCCCGTGTC	0.632													5	27					1.12685e-05	1.16807e-05	0.004482	1	0		A	73560538	A	A	73560538	3	1	127	1	0	0	0	0	1	0	0	0	8851	507	18	5	1020	5	LLGL2	17	73560538	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	296918	73560538	7634672	979	70059											
FBF1	85302	broad.mit.edu	37	chr17	73917331	73917331	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccacacccctacctggacGggcacggaaggctctgtggg	7	5	14	15	2	1	0	0	0	1	0	1	2	1	2	4	5	1	2	4	5	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:73917331G>A	uc002jqc.2	-	16	1897	c.1623C>T	c.(1621-1623)CCC>CCT	p.P541P	FBF1_uc002jqa.1_RNA|FBF1_uc010wsp.1_Silent_p.P532P|FBF1_uc002jqd.1_Silent_p.P542P|FBF1_uc002jqb.2_5'Flank|FBF1_uc010dgr.1_5'UTR	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1	541											0						CTACCTGGACGGGCACGGAAG	0.592													4	9					0	0	0.009096	0	0		A	73917331	A	A	73917331	2	1	127	1	0	0	0	0	0	0	0	1	5709	1103	39	1		1	FBF1	17	73917331	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	356793	73917331	7277879	980	70060											
TBC1D16	125058	broad.mit.edu	37	chr17	77923563	77923563	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcgcttctgcagccgcagCgcctcccgctcctccgacgt	3	10	9	19	6	1	0	0	0	1	0	5	1	4	0	5	0	3	4	5	0	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:77923563C>T	uc002jxj.2	-	7	1475	c.1359G>A	c.(1357-1359)GCG>GCA	p.A453A	TBC1D16_uc002jxh.2_Silent_p.A91A|TBC1D16_uc002jxi.2_Silent_p.A78A|TBC1D16_uc002jxk.1_Silent_p.A91A	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	453	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			GCAGCCGCAGCGCCTCCCGCT	0.627													36	80					0	0	0.01441	0	0		T	77923563	T	T	77923563	2	4	127	1	0	0	0	0	0	0	0	1	15630	755	27	1		1	TBC1D16	17	77923563	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4006232	77923563	3271647	981	70061											
GAA	2548	broad.mit.edu	37	chr17	78091485	78091485	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcgaggggcagtgggtgacGctgccggcccccctggacac	6	4	17	14	3	0	1	0	1	0	0	0	3	0	2	4	5	2	2	4	5	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:78091485G>A	uc002jxo.2	+	18	2600	c.2418G>A	c.(2416-2418)ACG>ACA	p.T806T	GAA_uc002jxp.2_Silent_p.T806T|GAA_uc002jxq.2_Silent_p.T806T	NM_001079803	NP_001073271	P10253	LYAG_HUMAN	acid alpha-glucosidase preproprotein	806					cardiac muscle contraction|diaphragm contraction|glycogen catabolic process|lysosome organization|tongue morphogenesis|vacuolar sequestering|ventricular cardiac muscle tissue morphogenesis	lysosomal membrane	carbohydrate binding|maltose alpha-glucosidase activity			ovary(1)	1	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)		Acarbose(DB00284)	AGTGGGTGACGCTGCCGGCCC	0.682													5	16					0	0	0.001984	0	0		A	78091485	A	A	78091485	2	1	127	1	0	0	0	0	0	0	0	1	6161	1074	38	1		1	GAA	17	78091485	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	167922	78091485	3103725	982	70062											
RNF213	57674	broad.mit.edu	37	chr17	78318484	78318484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcctttccagcgtacaCgtgtaccccagttcagtttt	6	15	6	14	2	2	0	1	0	1	0	5	0	4	0	4	0	3	4	4	0	2	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:78318484C>T	uc002jyh.1	+	4	791	c.568C>T	c.(568-570)CGT>TGT	p.R190C		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			CCAGCGTACACGTGTACCCCA	0.448													57	290					0	0	0.01441	0	0		T	78318484	T	T	78318484	3	4	127	1	0	0	0	0	1	0	0	0	13502	536	19	1	6778	1	RNF213	17	78318484	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	226999	78318484	2876726	983	70063											
RPTOR	57521	broad.mit.edu	37	chr17	78727978	78727978	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccccatcaagatcgccCtgcgctggtgagtggcccct	6	7	10	18	2	1	2	1	1	0	1	2	2	1	2	6	2	1	1	6	2	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:78727978C>A	uc002jyt.1	+	6	1628	c.823C>A	c.(823-825)CTG>ATG	p.L275M	RPTOR_uc002jys.2_Missense_Mutation_p.L275M|RPTOR_uc010wuf.1_Missense_Mutation_p.L90M|RPTOR_uc010wug.1_Missense_Mutation_p.L275M	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	275					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						CAAGATCGCCCTGCGCTGGTG	0.682													42	178					9.22156e-22	1.04036e-21	0.01441	1	0		A	78727978	A	A	78727978	3	1	127	1	0	0	0	0	1	0	0	0	13690	680	24	5	845	5	RPTOR	17	78727978	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	409494	78727978	2467232	984	70064											
RPTOR	57521	broad.mit.edu	37	chr17	78897301	78897301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatggcaggggctcccctcCggcgtccagcaccagcagct	7	5	12	17	2	0	0	0	0	0	0	3	0	3	0	5	4	3	5	5	4	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:78897301C>T	uc002jyt.1	+	23	3441	c.2636C>T	c.(2635-2637)CCG>CTG	p.P879L	RPTOR_uc010wug.1_Missense_Mutation_p.P721L	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	879					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						GGCTCCCCTCCGGCGTCCAGC	0.632													4	15					0	0	0.000602	0	0		T	78897301	T	T	78897301	3	4	127	1	0	0	0	0	1	0	0	0	13690	652	23	1	2726	1	RPTOR	17	78897301	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	169323	78897301	2297909	985	70065											
BAIAP2	10458	broad.mit.edu	37	chr17	79077412	79077412	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggtggccagcaacggCgccaccctccccagcgccct	7	3	11	20	3	0	0	0	0	0	0	1	0	1	0	6	3	4	2	6	3	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:79077412C>T	uc002jzg.2	+	8	861	c.753C>T	c.(751-753)GGC>GGT	p.G251G	BAIAP2_uc002jyz.3_Silent_p.G251G|BAIAP2_uc002jza.2_Silent_p.G251G|BAIAP2_uc002jzc.2_Silent_p.G251G|BAIAP2_uc002jzb.2_Silent_p.G8G|BAIAP2_uc002jzd.2_Silent_p.G251G|BAIAP2_uc002jzf.2_Silent_p.G251G|BAIAP2_uc002jze.2_Silent_p.G284G|BAIAP2_uc010wuh.1_Silent_p.G173G|BAIAP2_uc002jzh.2_Silent_p.G252G|BAIAP2_uc010wui.1_Silent_p.G114G	NM_017451	NP_059345	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2 isoform 2	251					axonogenesis|filopodium assembly|insulin receptor signaling pathway|regulation of actin cytoskeleton organization|response to bacterium	cell junction|cytoskeleton|cytosol|filopodium|nucleus|ruffle	cytoskeletal adaptor activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding				0	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CCAGCAACGGCGCCACCCTCC	0.706													7	21					0	0	0.001984	0	0		T	79077412	T	T	79077412	2	4	127	1	0	0	0	0	0	0	0	1	1302	755	27	1		1	BAIAP2	17	79077412	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	180111	79077412	2117798	986	70066											
C17orf70	80233	broad.mit.edu	37	chr17	79508363	79508363	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcgtggatctggcggaggTactgcacacggagatcagga	9	7	17	8	3	2	1	1	0	1	1	2	5	2	4	0	7	2	2	0	7	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:79508363T>C	uc002kaq.2	-	8	2541	c.2486A>G	c.(2485-2487)TAC>TGC	p.Y829C	C17orf70_uc002kao.1_Missense_Mutation_p.Y478C|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Missense_Mutation_p.Y678C	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	829					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			CTGGCGGAGGTACTGCACACG	0.682													5	21					0	0	0.001168	0	0		C	79508363	C	C	79508363	3	2	127	1	0	0	0	0	1	0	0	0	1880	1638	57	3	167	3	C17orf70	17	79508363	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	430951	79508363	1686847	987	70067											
CCDC57	284001	broad.mit.edu	37	chr17	80141780	80141780	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttgagcatcccaggcagAttttacagttgatgcatctt	11	14	8	8	0	1	3	0	2	1	1	2	3	2	3	1	1	3	4	1	1	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr17:80141780A>T	uc002kdz.1	-	9	1436	c.1081T>A	c.(1081-1083)TCT>ACT	p.S361T	CCDC57_uc002kdx.1_Missense_Mutation_p.S361T|CCDC57_uc010dik.1_5'UTR	NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	361	Potential.									ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			TCCCAGGCAGATTTTACAGTT	0.453													7	35					0	0	0.006214	0	0		T	80141780	T	T	80141780	3	4	127	1	0	0	0	0	1	0	0	0	2830	333	12	5	1706	5	CCDC57	17	80141780	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	633417	80141780	1053430	988	70068											
SMCHD1	23347	broad.mit.edu	37	chr18	2707836	2707836	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgaaatactgaataaaaaAggggaagcaatgcaaaagct	21	7	9	4	0	0	2	0	2	0	0	0	3	0	3	0	2	4	3	0	2	10	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:2707836A>G	uc002klm.3	+	17	2367	c.2178A>G	c.(2176-2178)AAA>AAG	p.K726K	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	726					chromosome organization		ATP binding				0						TGAATAAAAAAGGGGAAGCAA	0.343													3	12					0	0	0.004672	0	0		G	2707836	G	G	2707836	2	3	127	1	0	0	0	0	0	0	0	1	14813	69	3	3		3	SMCHD1	18	2707836	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08		2707836	75369412	989	70069											
SMCHD1	23347	broad.mit.edu	37	chr18	2752539	2752539	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgacaaagaagatggctgCttctatttcaggtatttctc	12	14	8	7	0	3	3	1	1	2	2	4	3	3	3	0	2	1	3	0	2	5	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:2752539C>T	uc002klm.3	+	34	4524	c.4335C>T	c.(4333-4335)TGC>TGT	p.C1445C	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	1445					chromosome organization		ATP binding				0						AAGATGGCTGCTTCTATTTCA	0.348													6	27					0	0	0.001984	0	0		T	2752539	T	T	2752539	2	4	127	1	0	0	0	0	0	0	0	1	14813	805	28	2		2	SMCHD1	18	2752539	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	44703	2752539	75324709	990	70070											
TMEM200C	645369	broad.mit.edu	37	chr18	5890416	5890416	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctactgcgtccaagacCgactcggtggaggtgccggc	7	6	14	14	4	0	1	0	0	0	1	2	3	1	2	4	4	4	1	4	4	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:5890416C>T	uc002kmx.1	-	1	1688	c.1647G>A	c.(1645-1647)TCG>TCA	p.S549S		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	549						integral to membrane					0						CGTCCAAGACCGACTCGGTGG	0.687													10	28					0	0	0.013537	0	0		T	5890416	T	T	5890416	2	4	127	1	0	0	0	0	0	0	0	1	16150	639	23	1		1	TMEM200C	18	5890416	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3137877	5890416	72186832	991	70071											
LAMA1	284217	broad.mit.edu	37	chr18	7050823	7050823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacactctgagtcgctgactGcataatactgccaggggctg	10	9	11	11	1	1	2	0	2	1	0	2	2	1	2	1	2	4	3	1	2	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:7050823G>A	uc002knm.2	-	4	552	c.458C>T	c.(457-459)GCA>GTA	p.A153V	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	153	Laminin N-terminal.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTCGCTGACTGCATAATACTG	0.498													13	59					0	0	0.001855	0	0		A	7050823	A	A	7050823	3	1	127	1	0	0	0	0	1	0	0	0	8621	1319	46	2	9009	2	LAMA1	18	7050823	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1160407	7050823	71026425	992	70072											
RALBP1	10928	broad.mit.edu	37	chr18	9535730	9535730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggccatcatcgagctgcGcgtgcagctgcggctgctcc	5	7	14	15	5	1	0	1	0	0	0	3	2	2	0	2	2	6	5	2	2	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:9535730G>A	uc002kob.2	+	10	1986	c.1763G>A	c.(1762-1764)CGC>CAC	p.R588H	RALBP1_uc002koc.2_Missense_Mutation_p.R588H	NM_006788	NP_006779	Q15311	RBP1_HUMAN	ralA binding protein 1	588					chemotaxis|positive regulation of Cdc42 GTPase activity|small GTPase mediated signal transduction|transport	cytosol|membrane	ATPase activity, coupled to movement of substances|Rac GTPase activator activity|Rac GTPase binding|Ral GTPase binding			central_nervous_system(1)	1						ATCGAGCTGCGCGTGCAGCTG	0.592													4	10					0	0	0.000602	0	0		A	9535730	A	A	9535730	3	1	127	1	0	0	0	0	1	0	0	0	13037	1087	38	1	1797	1	RALBP1	18	9535730	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2484907	9535730	68541518	993	70073											
FAM38B	63895	broad.mit.edu	37	chr18	10671626	10671626	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctagctccagttctcctgtCtctcgaactaaaaaaatatc	12	13	4	12	1	3	0	0	0	3	0	8	1	4	0	2	0	2	2	2	0	7	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:10671626C>T	uc002kor.3	-	14	2168	c.2028G>A	c.(2026-2028)GAG>GAA	p.E676E	FAM38B_uc002koq.2_Silent_p.E511E	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2719						integral to membrane	ion channel activity			ovary(1)	1						GTTCTCCTGTCTCTCGAACTA	0.368													9	67					0	0	0.006214	0	0		T	10671626	T	T	10671626	2	4	127	1	0	0	0	0	0	0	0	1	5569	912	32	4		4	FAM38B	18	10671626	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1135896	10671626	67405622	994	70074											
PTPN2	5771	broad.mit.edu	37	chr18	12802072	12802072	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctattctgttcccattgtAtttttcagtcattattttgt	7	22	4	8	0	3	0	2	0	1	0	4	0	4	0	2	0	0	2	2	0	3	10			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:12802072A>G	uc002krp.2	-	8	1131	c.937T>C	c.(937-939)TAC>CAC	p.Y313H	PTPN2_uc002krl.2_Missense_Mutation_p.Y313H|PTPN2_uc002krn.2_Missense_Mutation_p.Y336H|PTPN2_uc002kro.2_Missense_Mutation_p.Y313H|PTPN2_uc002krm.2_Missense_Mutation_p.Y313H	NM_002828	NP_002819	P17706	PTN2_HUMAN	protein tyrosine phosphatase, non-receptor type	313					interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway	endoplasmic reticulum|nucleoplasm	protein binding			skin(2)	2		Lung NSC(161;8.94e-06)				TTCCCATTGTATTTTTCAGTC	0.378													39	183					0	0	0.004878	0	0		G	12802072	G	G	12802072	3	3	127	1	0	0	0	0	1	0	0	0	12808	449	16	3	344	3	PTPN2	18	12802072	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2130446	12802072	65275176	995	70075											
ANKRD30B	374860	broad.mit.edu	37	chr18	14848927	14848927	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaagagctctgcagtgtgAggtatgacatcctagtttta	12	12	10	7	0	1	3	0	2	1	1	2	3	2	3	1	1	3	4	1	1	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:14848927A>T	uc010dlo.2	+	34	3217	c.3037A>T	c.(3037-3039)AGA>TGA	p.R1013*	ANKRD30B_uc010xal.1_Nonsense_Mutation_p.R155*	NM_001145029	NP_001138501	Q9BXX2	AN30B_HUMAN	ankyrin repeat domain 30B	1098	Potential.									ovary(1)|skin(1)	2						CTGCAGTGTGAGGTATGACAT	0.318													6	13					0	0	0.001168	0	0		T	14848927	T	T	14848927	4	4	127	1	0	0	0	0	0	1	0	0	659	318	11	5	3171	5	ANKRD30B	18	14848927	Nonsense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2046855	14848927	63228321	996	70076											
ROCK1	6093	broad.mit.edu	37	chr18	18622646	18622646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatcaggtgttccaaccgCtgtatcacatcgtaccatgc	11	11	7	12	2	2	0	2	0	0	0	4	0	3	0	3	1	3	4	3	1	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:18622646C>T	uc002kte.2	-	7	1641	c.700G>A	c.(700-702)GCG>ACG	p.A234T		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	234	Protein kinase.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					GTTCCAACCGCTGTATCACAT	0.373													34	121					0	0	0.004289	0	0		T	18622646	T	T	18622646	3	4	127	1	0	0	0	0	1	0	0	0	13542	797	28	2	3472	2	ROCK1	18	18622646	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3773719	18622646	59454602	997	70077											
SNRPD1	6632	broad.mit.edu	37	chr18	19209067	19209067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggaagaggacgtggcCgtggcagaggaagagggggt	12	3	22	4	2	0	4	0	0	0	4	0	8	0	7	1	7	0	1	1	7	3	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:19209067C>T	uc002ktj.1	+	4	459	c.328C>T	c.(328-330)CGT>TGT	p.R110C		NM_006938	NP_008869	P62314	SMD1_HUMAN	small nuclear ribonucleoprotein D1 polypeptide	110	Arg/Lys-rich (basic).				ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding|RNA binding				0						aggacgtggccgtggcagagg	0.249													38	135					0	0	0.00623	0	0		T	19209067	T	T	19209067	3	4	127	1	0	0	0	0	1	0	0	0	14889	652	23	1	342	1	SNRPD1	18	19209067	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	586421	19209067	58868181	998	70078											
CTAGE1	64693	broad.mit.edu	37	chr18	19997258	19997258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtatttctatctccaaccGttcttcattcgcttgaaatc	8	18	4	11	2	4	1	1	1	3	0	7	1	4	1	2	0	1	3	2	0	4	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:19997258G>A	uc002ktv.1	-	1	621	c.517C>T	c.(517-519)CGG>TGG	p.R173W		NM_172241	NP_758441	Q96RT6	CTGE2_HUMAN	cutaneous T-cell lymphoma-associated antigen 1	173	Potential.					integral to membrane				ovary(1)	1	all_cancers(21;0.000361)|all_epithelial(16;9.61e-06)|Colorectal(14;0.0533)|Lung NSC(20;0.0605)|Ovarian(2;0.116)|all_lung(20;0.135)					ATCTCCAACCGTTCTTCATTC	0.388													37	132					0	0	0.004289	0	0		A	19997258	A	A	19997258	3	1	127	1	0	0	0	0	1	0	0	0	3995	1144	40	1	1724	1	CTAGE1	18	19997258	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	788191	19997258	58079990	999	70079											
RBBP8	5932	broad.mit.edu	37	chr18	20573099	20573099	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgataaacatttggagcccCtgaaatcattgggaggccga	12	9	11	9	1	1	2	1	2	0	0	1	5	1	4	3	3	2	0	3	3	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:20573099C>A	uc002ktw.2	+	11	1640	c.1309C>A	c.(1309-1311)CTG>ATG	p.L437M	RBBP8_uc002kty.2_Missense_Mutation_p.L437M|RBBP8_uc002ktz.2_Missense_Mutation_p.L437M|RBBP8_uc002kua.2_Missense_Mutation_p.L437M|RBBP8_uc002ktx.1_Missense_Mutation_p.L437M	NM_002894	NP_002885	Q99708	COM1_HUMAN	retinoblastoma binding protein 8 isoform a	437					cell cycle checkpoint|DNA double-strand break processing involved in repair via single-strand annealing|meiosis|regulation of transcription from RNA polymerase II promoter	nucleus	damaged DNA binding|protein binding|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)|lung(1)|skin(1)	3	all_cancers(21;4.34e-05)|all_epithelial(16;8.3e-07)|Lung NSC(20;0.0107)|Colorectal(14;0.0202)|all_lung(20;0.0291)|Ovarian(20;0.19)		OV - Ovarian serous cystadenocarcinoma(1;0.00196)			TTTGGAGCCCCTGAAATCATT	0.373								Direct_reversal_of_damage|Homologous_recombination					8	62					0.000442599	0.00045348	0.006214	1	0		A	20573099	A	A	20573099	3	1	127	1	0	0	0	0	1	0	0	0	13130	680	24	5	1347	5	RBBP8	18	20573099	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	575841	20573099	57504149	1000	70080											
NPC1	4864	broad.mit.edu	37	chr18	21114443	21114443	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcaagtgcctcttccgcGcgctccacgcggctgccttt	3	10	12	16	5	1	0	0	0	1	0	3	0	3	0	4	2	2	3	4	2	1	2	rs141659629	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:21114443G>A	uc002kum.3	-	23	3832	c.3558C>T	c.(3556-3558)CGC>CGT	p.R1186R	NPC1_uc010dlu.1_5'Flank|NPC1_uc010xaz.1_Silent_p.R919R	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	1186			R -> H (in NPC1).		autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					CCTCTTCCGCGCGCTCCACGC	0.582													4	36					0	0	0.001168	0	0		A	21114443	A	A	21114443	2	1	127	1	0	0	0	0	0	0	0	1	10589	1074	38	1		1	NPC1	18	21114443	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	541344	21114443	56962805	1001	70081											
ZNF521	25925	broad.mit.edu	37	chr18	22804544	22804544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccaagcctggtctattcGtgccgggagggacgttaatg	7	9	15	10	3	1	0	0	0	1	0	2	2	1	2	3	4	2	1	3	4	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:22804544G>A	uc002kvk.2	-	4	3585	c.3338C>T	c.(3337-3339)ACG>ATG	p.T1113M	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.T1113M|ZNF521_uc002kvl.2_Missense_Mutation_p.T893M	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	1113					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TGGTCTATTCGTGCCGGGAGG	0.552			T	PAX5	ALL								19	71					0	0	0.008871	0	0		A	22804544	A	A	22804544	3	1	127	1	0	0	0	0	1	0	0	0	17990	1145	40	1	617	1	ZNF521	18	22804544	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1690101	22804544	55272704	1002	70082											
CDH2	1000	broad.mit.edu	37	chr18	25568495	25568495	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcgaacataccattgtcAgaagcaaggaaagtagcatt	17	7	9	8	1	1	1	1	0	0	1	1	3	1	2	1	1	5	3	1	1	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:25568495A>G	uc002kwg.2	-	11	2193	c.1734T>C	c.(1732-1734)TCT>TCC	p.S578S	CDH2_uc010xbn.1_Silent_p.S547S	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	578	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						TACCATTGTCAGAAGCAAGGA	0.338													8	51					0	0	0.00308	0	0		G	25568495	G	G	25568495	2	3	127	1	0	0	0	0	0	0	0	1	3108	175	7	3		3	CDH2	18	25568495	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2763951	25568495	52508753	1003	70083											
ELP2	55250	broad.mit.edu	37	chr18	33713227	33713227	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgttgttaccaacttgaaTggtcacaccgcccgagtcaa	10	11	9	11	2	2	1	2	1	0	0	2	2	2	1	3	1	2	3	3	1	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:33713227T>C	uc002kzk.1	+	2	175	c.165T>C	c.(163-165)AAT>AAC	p.N55N	ELP2_uc010xcg.1_Silent_p.N55N|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Silent_p.N55N|ELP2_uc010xch.1_Silent_p.N55N|ELP2_uc002kzn.1_Silent_p.N55N|ELP2_uc002kzo.1_Silent_p.N55N	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	55					regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						CCAACTTGAATGGTCACACCG	0.318													7	46					0	0	0.00308	0	0		C	33713227	C	C	33713227	2	2	127	1	0	0	0	0	0	0	0	1	5088	1461	51	3		3	ELP2	18	33713227	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	8144732	33713227	44364021	1004	70084											
FHOD3	80206	broad.mit.edu	37	chr18	34298520	34298520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagaaaaagaagaccatcCgtttgttctggaatgaagtt	15	11	9	6	1	1	4	0	1	1	3	2	5	2	5	2	1	0	3	2	1	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:34298520C>T	uc002kzt.1	+	15	2780	c.2683C>T	c.(2683-2685)CGT>TGT	p.R895C	FHOD3_uc002kzs.1_Missense_Mutation_p.R912C|FHOD3_uc010dmz.1_Missense_Mutation_p.R627C|FHOD3_uc010dna.1_Missense_Mutation_p.R215C	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	895	FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				GAAGACCATCCGTTTGTTCTG	0.502													26	120					0	0	0.003954	0	0		T	34298520	T	T	34298520	3	4	127	1	0	0	0	0	1	0	0	0	5897	652	23	1	2796	1	FHOD3	18	34298520	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	585293	34298520	43778728	1005	70085											
SETBP1	26040	broad.mit.edu	37	chr18	42533097	42533097	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgcacgaaaagatactcTggcagtggcggggatggtgg	10	8	16	7	2	2	1	1	0	1	1	2	3	2	2	0	6	2	2	0	6	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:42533097T>G	uc010dni.2	+	4	4088	c.3792T>G	c.(3790-3792)TCT>TCG	p.S1264S		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1264						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		AAAGATACTCTGGCAGTGGCG	0.532									Schinzel-Giedion_syndrome				15	40					0	0	0.010504	0	0		G	42533097	G	G	42533097	2	3	127	1	0	0	0	0	0	0	0	1	14154	1567	55	5		5	SETBP1	18	42533097	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	8234577	42533097	35544151	1006	70086											
MYO5B	4645	broad.mit.edu	37	chr18	47479669	47479669	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatctgctcttcatacacCgtgtctctgtttttctccag	5	18	6	12	1	5	1	1	1	4	0	7	1	5	1	2	0	2	2	2	0	1	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:47479669C>A	uc002leb.2	-	14	2001	c.1713G>T	c.(1711-1713)ACG>ACT	p.T571T	MYO5B_uc002lec.1_Silent_p.T570T	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	571	Myosin head-like.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		CTTCATACACCGTGTCTCTGT	0.522													16	96					1.99824e-07	2.10208e-07	0.00499	1	0		A	47479669	A	A	47479669	2	1	127	1	0	0	0	0	0	0	0	1	10097	639	23	5		5	MYO5B	18	47479669	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4946572	47479669	30597579	1007	70087											
FECH	2235	broad.mit.edu	37	chr18	55240556	55240556	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacatctccaagagtttcaGggcctcccatgtttagcatt	10	12	8	11	0	2	1	1	0	1	1	4	2	3	1	3	1	2	3	3	1	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:55240556G>T	uc002lgq.3	-	3	353	c.236C>A	c.(235-237)CCT>CAT	p.P79H	FECH_uc002lgp.3_Missense_Mutation_p.P85H|FECH_uc002lgr.3_Translation_Start_Site	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor	79					generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)				AAGAGTTTCAGGGCCTCCCAT	0.398													27	126					4.7796e-09	5.09992e-09	0.004656	1	0		T	55240556	T	T	55240556	3	4	127	1	0	0	0	0	1	0	0	0	5822	1000	35	5	1071	5	FECH	18	55240556	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	7760887	55240556	22836692	1008	70088											
ZNF532	55205	broad.mit.edu	37	chr18	56586342	56586342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcctgcatcgctgccatcGcggctctcagcgctaaaaag	8	8	10	15	5	1	0	1	0	1	0	5	0	2	0	2	1	3	4	2	1	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:56586342G>A	uc002lho.2	+	4	1370	c.823G>A	c.(823-825)GCG>ACG	p.A275T	ZNF532_uc002lhp.2_Missense_Mutation_p.A273T|ZNF532_uc010xeg.1_Missense_Mutation_p.A273T|ZNF532_uc002lhr.2_Missense_Mutation_p.A273T|ZNF532_uc002lhs.2_Missense_Mutation_p.A273T	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	275					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						CGCTGCCATCGCGGCTCTCAG	0.552													24	98					0	0	0.00278	0	0		A	56586342	A	A	56586342	3	1	127	1	0	0	0	0	1	0	0	0	17997	1087	38	1	825	1	ZNF532	18	56586342	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1345786	56586342	21490906	1009	70089											
CDH20	28316	broad.mit.edu	37	chr18	59195263	59195263	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagccaatcctcacctaGagatgcgttttctgaacttg	10	11	10	10	1	2	2	1	1	1	1	3	4	3	3	3	1	3	1	3	1	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:59195263G>T	uc010dps.1	+	6	1093	c.1081G>T	c.(1081-1083)GAG>TAG	p.E361*	CDH20_uc002lif.2_Nonsense_Mutation_p.E355*	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	361	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				TCCTCACCTAGAGATGCGTTT	0.478													32	98					4.31634e-10	4.65822e-10	0.012213	1	0		T	59195263	T	T	59195263	4	4	127	1	0	0	0	0	0	1	0	0	3109	943	33	5	1103	5	CDH20	18	59195263	Nonsense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2608921	59195263	18881985	1010	70090											
CDH19	28513	broad.mit.edu	37	chr18	64202234	64202234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtacttacatttttctgtgGctgtaatacttaggttgtac	9	18	8	6	0	1	0	0	0	1	0	1	0	1	0	0	2	4	5	0	2	6	9			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:64202234G>A	uc002lkc.1	-	8	1463	c.1325C>T	c.(1324-1326)GCC>GTC	p.A442V	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Missense_Mutation_p.A442V|CDH19_uc002lkd.2_Missense_Mutation_p.A442V	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	442	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				TTTTTCTGTGGCTGTAATACT	0.333													21	80					0	0	0.00278	0	0		A	64202234	A	A	64202234	3	1	127	1	0	0	0	0	1	0	0	0	3107	1203	42	2	1013	2	CDH19	18	64202234	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	5006971	64202234	13875014	1011	70091											
TSHZ1	10194	broad.mit.edu	37	chr18	72999092	72999092	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccctcatggggtggctaccCcagcatccatgcagcctacc	7	7	10	17	0	1	0	1	0	0	0	2	0	2	0	6	3	5	3	6	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:72999092C>A	uc002lly.2	+	2	2158	c.1595C>A	c.(1594-1596)CCC>CAC	p.P532H		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	577						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GGTGGCTACCCCAGCATCCAT	0.642													11	68					4.36969e-10	4.71222e-10	0.001855	1	0		A	72999092	A	A	72999092	3	1	127	1	0	0	0	0	1	0	0	0	16649	623	22	5	1597	5	TSHZ1	18	72999092	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	8796858	72999092	5078156	1012	70092											
SALL3	27164	broad.mit.edu	37	chr18	76752144	76752144	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgggggcgaggagaccagCgtgtgcgagaaatgctgcgc	9	4	19	9	5	0	2	0	0	0	2	0	5	0	2	1	3	5	1	1	3	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:76752144C>T	uc002lmt.2	+	2	153	c.153C>T	c.(151-153)AGC>AGT	p.S51S	SALL3_uc010dra.2_5'Flank	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	51					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		AGGAGACCAGCGTGTGCGAGA	0.687													5	6					0	0	0.000602	0	0		T	76752144	T	T	76752144	2	4	127	1	0	0	0	0	0	0	0	1	13837	767	27	1		1	SALL3	18	76752144	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3753052	76752144	1325104	1013	70093											
NFATC1	4772	broad.mit.edu	37	chr18	77171052	77171052	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcccgctcctccagaccCgcgtccccttgcaacaagag	7	6	10	18	3	0	2	0	0	0	2	3	2	3	2	6	1	3	2	6	1	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr18:77171052C>T	uc010xfg.1	+	2	1230	c.777C>T	c.(775-777)CCC>CCT	p.P259P	NFATC1_uc002lnc.1_Silent_p.P259P|NFATC1_uc010xff.1_Silent_p.P259P|NFATC1_uc002lnd.2_Silent_p.P259P|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Silent_p.P259P|NFATC1_uc010xfi.1_Silent_p.P246P|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Silent_p.P246P|NFATC1_uc002lng.2_Silent_p.P246P|NFATC1_uc010xfk.1_Silent_p.P246P	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	259	3 X SP repeats.				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CCTCCAGACCCGCGTCCCCTT	0.731													7	18					0	0	0.004482	0	0		T	77171052	T	T	77171052	2	4	127	1	0	0	0	0	0	0	0	1	10380	639	23	1		1	NFATC1	18	77171052	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	418908	77171052	906196	1014	70094											
FSTL3	10272	broad.mit.edu	37	chr19	681492	681492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcacctacatctcctcgtGccacatgcgccaggccacct	7	8	7	19	3	2	0	1	0	1	0	4	0	2	0	6	1	3	0	6	1	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:681492G>A	uc002lpk.1	+	4	700	c.665G>A	c.(664-666)TGC>TAC	p.C222Y	FSTL3_uc010drt.1_RNA	NM_005860	NP_005851	O95633	FSTL3_HUMAN	follistatin-like 3 glycoprotein precursor	222	Kazal-like 2.				hemopoietic progenitor cell differentiation|negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of osteoclast differentiation|ossification|positive regulation of cell-cell adhesion|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	extracellular space|nucleus	activin binding|fibronectin binding				0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATCTCCTCGTGCCACATGCGC	0.711			T	CCND1	B-CLL								7	21					0	0	0.00308	0	0		A	681492	A	A	681492	3	1	127	1	0	0	0	0	1	0	0	0	6092	1319	46	2	679	2	FSTL3	19	681492	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08		681492	58447491	1015	70095											
ZNF554	115196	broad.mit.edu	37	chr19	2832394	2832394	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactagtctttcctcatggaCggggtatttactttttcaac	8	16	7	10	1	3	0	2	0	1	0	4	1	4	1	1	3	2	1	1	3	4	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:2832394C>T	uc002lwm.2	+	4	545	c.347C>T	c.(346-348)ACG>ATG	p.T116M	ZNF554_uc002lwl.2_Missense_Mutation_p.T65M	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	116	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCTCATGGACGGGGTATTTA	0.468													34	194					0	0	0.00874	0	0		T	2832394	T	T	2832394	3	4	127	1	0	0	0	0	1	0	0	0	18010	536	19	1	361	1	ZNF554	19	2832394	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2150902	2832394	56296589	1016	70096											
S1PR4	8698	broad.mit.edu	37	chr19	3179131	3179131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgcaccttccgtctggCgcccgcccagtggttcctac	3	8	11	19	4	1	0	0	0	1	0	3	0	3	0	6	3	1	2	6	3	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:3179131C>T	uc002lxg.2	+	1	366	c.341C>T	c.(340-342)GCG>GTG	p.A114V		NM_003775	NP_003766	O95977	S1PR4_HUMAN	sphingosine-1-phosphate receptor 4 precursor	114	Extracellular (By similarity).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|immune response	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			lung(1)|skin(1)	2						TTCCGTCTGGCGCCCGCCCAG	0.667													8	43					0	0	0.004482	0	0		T	3179131	T	T	3179131	3	4	127	1	0	0	0	0	1	0	0	0	13821	768	27	1	343	1	S1PR4	19	3179131	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	346737	3179131	55949852	1017	70097											
NFIC	4782	broad.mit.edu	37	chr19	3382065	3382065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcggacaaggtgtggcGgctggacctggtcatggtca	7	7	18	9	2	2	0	2	0	0	0	2	2	2	2	1	8	0	2	1	8	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:3382065G>A	uc010xhi.1	+	2	448	c.386G>A	c.(385-387)CGG>CAG	p.R129Q	NFIC_uc002lxo.2_Missense_Mutation_p.R120Q|NFIC_uc010xhh.1_Missense_Mutation_p.R120Q|NFIC_uc002lxp.2_Missense_Mutation_p.R129Q|NFIC_uc010xhj.1_Missense_Mutation_p.R129Q|NFIC_uc002lxq.1_Missense_Mutation_p.R81Q	NM_205843	NP_995315	P08651	NFIC_HUMAN	nuclear factor I/C isoform 2	129	CTF/NF-I.				DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.8e-05)|Epithelial(107;2.94e-108)|BRCA - Breast invasive adenocarcinoma(158;0.00154)|STAD - Stomach adenocarcinoma(1328;0.191)		AAGGTGTGGCGGCTGGACCTG	0.672													29	96					0	0	0.009535	0	0		A	3382065	A	A	3382065	3	1	127	1	0	0	0	0	1	0	0	0	10391	1116	39	1	399	1	NFIC	19	3382065	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	202934	3382065	55746918	1018	70098											
CHAF1A	10036	broad.mit.edu	37	chr19	4430624	4430624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgggtacctgtctgaggacGaaggtgtgacagaggtgagg	10	8	18	5	1	1	4	0	3	1	1	1	6	1	5	1	5	1	1	1	5	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:4430624G>A	uc002mal.2	+	11	2033	c.1933G>A	c.(1933-1935)GAA>AAA	p.E645K		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	645	Necessary for homodimerization and competence for chromatin assembly.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		GTCTGAGGACGAAGGTGTGAC	0.527								Chromatin_Structure					16	97					0	0	0.003163	0	0		A	4430624	A	A	4430624	3	1	127	1	0	0	0	0	1	0	0	0	3314	1059	37	1	1975	1	CHAF1A	19	4430624	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1048559	4430624	54698359	1019	70099											
PLIN4	729359	broad.mit.edu	37	chr19	4510529	4510529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattctgcagcattgccaagCgtggggcttcttcggggccg	5	10	14	12	3	2	0	0	0	2	0	3	0	2	0	2	4	4	3	2	4	1	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:4510529C>T	uc002mar.1	-	3	3401	c.3401G>A	c.(3400-3402)CGC>CAC	p.R1134H	PLIN4_uc010dub.1_Missense_Mutation_p.R158H	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	1134						lipid particle|plasma membrane					0						CATTGCCAAGCGTGGGGCTTC	0.657													5	16					0	0	0.001168	0	0		T	4510529	T	T	4510529	3	4	127	1	0	0	0	0	1	0	0	0	12111	768	27	1	688	1	PLIN4	19	4510529	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	79905	4510529	54618454	1020	70100											
KDM4B	23030	broad.mit.edu	37	chr19	5110659	5110659	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgccggaaggacatggtcaaGatctccatggacgtgttcgt	9	10	13	9	3	2	1	1	0	1	1	4	4	2	4	2	4	1	1	2	4	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:5110659G>A	uc002mbq.3	+	10	1171	c.945G>A	c.(943-945)AAG>AAA	p.K315K	KDM4B_uc010xil.1_Silent_p.K315K|KDM4B_uc010xim.1_Silent_p.K315K|KDM4B_uc002mbr.3_Silent_p.K73K	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	315					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						ACATGGTCAAGATCTCCATGG	0.672													22	46					0	0	0.00278	0	0		A	5110659	A	A	5110659	2	1	127	1	0	0	0	0	0	0	0	1	8145	933	33	4		4	KDM4B	19	5110659	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	600130	5110659	54018324	1021	70101											
PTPRS	5802	broad.mit.edu	37	chr19	5212258	5212258	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcctgtgcggcccacaccGgcactgcagggacagccacg	8	3	13	17	3	0	0	0	0	0	0	0	1	0	1	4	3	4	2	4	3	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:5212258G>A	uc002mbv.2	-	32	5007	c.4773C>T	c.(4771-4773)GCC>GCT	p.A1591A	PTPRS_uc002mbu.1_Silent_p.A1160A|PTPRS_uc010xin.1_Silent_p.A1133A|PTPRS_uc002mbw.2_Silent_p.A1553A|PTPRS_uc002mbx.2_Silent_p.A1148A|PTPRS_uc002mby.2_Silent_p.A1144A	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1591	Substrate binding (By similarity).|Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GGCCCACACCGGCACTGCAGG	0.637													13	52					0	0	0.003163	0	0		A	5212258	A	A	5212258	2	1	127	1	0	0	0	0	0	0	0	1	12836	1103	39	1		1	PTPRS	19	5212258	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	101599	5212258	53916725	1022	70102											
ZNRF4	148066	broad.mit.edu	37	chr19	5456550	5456550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccccggcgctcctgccccGtgtgcaaacagtcggtggcc	4	6	12	19	4	0	0	0	0	0	0	2	0	1	0	7	3	3	2	7	3	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:5456550G>A	uc002mca.3	+	1	1125	c.1048G>A	c.(1048-1050)GTG>ATG	p.V350M		NM_181710	NP_859061	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4 precursor	350	RING-type; atypical.|Cytoplasmic (Potential).					integral to membrane	zinc ion binding	p.V350M(1)		large_intestine(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		CTCCTGCCCCGTGTGCAAACA	0.642													13	61					0	0	0.003163	0	0		A	5456550	A	A	5456550	3	1	127	1	0	0	0	0	1	0	0	0	18239	1145	40	1	1050	1	ZNRF4	19	5456550	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	244292	5456550	53672433	1023	70103											
ALKBH7	84266	broad.mit.edu	37	chr19	6374236	6374236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccacggcttccgagagaCagagaagtcgcgctggtcag	10	6	13	12	4	1	2	1	0	0	2	4	5	3	2	2	2	0	2	2	2	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:6374236C>T	uc002meo.1	+	2	615	c.227C>T	c.(226-228)ACA>ATA	p.T76I		NM_032306	NP_115682	Q9BT30	ALKB7_HUMAN	spermatogenesis associated 11 precursor	76						extracellular region|nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TTCCGAGAGACAGAGAAGTCG	0.657													7	39					0	0	0.008291	0	0		T	6374236	T	T	6374236	3	4	127	1	0	0	0	0	1	0	0	0	532	478	17	4	233	4	ALKBH7	19	6374236	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	917686	6374236	52754747	1024	70104											
C3	718	broad.mit.edu	37	chr19	6718271	6718271	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctcacctgtggagccaggGgtgtagatggtcttgtctgt	5	12	15	9	0	3	1	1	0	2	1	3	2	3	2	3	4	1	1	3	4	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:6718271G>A	uc002mfm.2	-	3	482	c.420C>T	c.(418-420)ACC>ACT	p.T140T		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	140					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TGGAGCCAGGGGTGTAGATGG	0.657													5	34					0	0	0.001168	0	0		A	6718271	A	A	6718271	2	1	127	1	0	0	0	0	0	0	0	1	2207	1219	43	4		4	C3	19	6718271	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	344035	6718271	52410712	1025	70105											
INSR	3643	broad.mit.edu	37	chr19	7120730	7120730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccctttccggtagtaatccGtttcatagatgtctctggtc	6	15	8	12	2	2	1	1	0	1	1	6	1	4	1	4	2	0	3	4	2	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:7120730G>A	uc002mgd.1	-	20	3669	c.3560C>T	c.(3559-3561)ACG>ATG	p.T1187M	INSR_uc002mge.1_Missense_Mutation_p.T1175M	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	1187	Protein kinase.|Cytoplasmic (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GTAGTAATCCGTTTCATAGAT	0.527													25	82					0	0	0.004656	0	0		A	7120730	A	A	7120730	3	1	127	1	0	0	0	0	1	0	0	0	7789	1145	40	1	600	1	INSR	19	7120730	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	402459	7120730	52008253	1026	70106											
ELAVL1	1994	broad.mit.edu	37	chr19	8028545	8028545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctttcacattggtgacggcaCcaaacggcccaaacatctgc	11	8	8	14	2	2	1	1	1	1	0	2	1	2	1	2	3	3	1	2	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:8028545C>T	uc002mjb.2	-	6	970	c.803G>A	c.(802-804)GGT>GAT	p.G268D		NM_001419	NP_001410	Q15717	ELAV1_HUMAN	ELAV-like 1	268	RRM 3.				3'-UTR-mediated mRNA stabilization|multicellular organismal development	cytoplasm|nucleoplasm	identical protein binding|mRNA binding|nucleotide binding				0						GGTGACGGCACCAAACGGCCC	0.547													7	150					0	0	0.001984	0	0		T	8028545	T	T	8028545	3	4	127	1	0	0	0	0	1	0	0	0	5057	507	18	4	181	4	ELAVL1	19	8028545	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	907815	8028545	51100438	1027	70107											
FBN3	84467	broad.mit.edu	37	chr19	8182094	8182094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcatcagcgagtagccctgcCcacagctgcaccggtagctg	8	6	12	15	2	1	0	1	0	0	0	1	1	1	0	3	1	6	6	3	1	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:8182094C>T	uc002mjf.2	-	27	3566	c.3545G>A	c.(3544-3546)GGG>GAG	p.G1182E		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1182	EGF-like 16; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GTAGCCCTGCCCACAGCTGCA	0.602													7	46					0	0	0.004482	0	0		T	8182094	T	T	8182094	3	4	127	1	0	0	0	0	1	0	0	0	5718	623	22	4	5032	4	FBN3	19	8182094	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	153549	8182094	50946889	1028	70108											
ACTL9	284382	broad.mit.edu	37	chr19	8808202	8808202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagggtgaccgtgcgcccatCgggcagcttcagagtccgct	6	7	14	14	4	1	2	1	1	0	1	3	2	2	2	3	2	2	3	3	2	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:8808202C>T	uc002mkl.2	-	1	971	c.850G>A	c.(850-852)GAT>AAT	p.D284N		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	284						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						GTGCGCCCATCGGGCAGCTTC	0.637													9	63					0	0	0.008291	0	0		T	8808202	T	T	8808202	3	4	127	1	0	0	0	0	1	0	0	0	203	884	31	1	404	1	ACTL9	19	8808202	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	626108	8808202	50320781	1029	70109											
MUC16	94025	broad.mit.edu	37	chr19	9049116	9049116	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actatggaaaaaaatggaagTtgtccagggaactgttgggc	14	9	13	5	0	0	0	0	0	0	0	1	3	1	3	1	4	1	2	1	4	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:9049116T>C	uc002mkp.2	-	5	32719	c.32515A>G	c.(32515-32517)ACT>GCT	p.T10839A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10841	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AAAATGGAAGTTGTCCAGGGA	0.473													5	179					0	0	0.001168	0	0		C	9049116	C	C	9049116	3	2	127	1	0	0	0	0	1	0	0	0	9991	1725	60	3	11328	3	MUC16	19	9049116	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	240914	9049116	50079867	1030	70110											
ANGPTL6	83854	broad.mit.edu	37	chr19	10204415	10204415	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgactgaaccatcttgcCtccgctggatcacagtccag	9	10	9	13	1	2	2	1	2	1	0	4	3	4	3	4	1	2	2	4	1	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:10204415C>A	uc002mmx.1	-	4	1023	c.905G>T	c.(904-906)AGG>ATG	p.R302M	ANGPTL6_uc002mmy.1_Missense_Mutation_p.R302M	NM_031917	NP_114123	Q8NI99	ANGL6_HUMAN	angiopoietin-like 6 precursor	302	Fibrinogen C-terminal.				angiogenesis|cell differentiation|signal transduction	extracellular space	receptor binding				0			OV - Ovarian serous cystadenocarcinoma(20;3.58e-08)|Epithelial(33;2.5e-05)|all cancers(31;5.96e-05)			ACCATCTTGCCTCCGCTGGAT	0.572													22	108					6.44725e-10	6.94734e-10	0.014323	1	0		A	10204415	A	A	10204415	3	1	127	1	0	0	0	0	1	0	0	0	618	681	24	5	519	5	ANGPTL6	19	10204415	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1155299	10204415	48924568	1031	70111											
PPAN-P2RY11	692312	broad.mit.edu	37	chr19	10218766	10218766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtatgcatgtgaagctcatgGccaccatgttccagaacctg	10	10	10	11	0	1	2	1	1	0	1	2	2	2	2	4	1	3	4	4	1	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:10218766G>A	uc002mna.2	+	5	469	c.469G>A	c.(469-471)GCC>ACC	p.A157T	PPAN-P2RY11_uc010xla.1_Missense_Mutation_p.A157T|PPAN_uc002mmz.1_Missense_Mutation_p.A157T|PPAN_uc002mnb.1_Missense_Mutation_p.A104T|SNORD105B_uc010dwz.1_5'Flank	NM_001040664	NP_001035754	Q9NQ55	SSF1_HUMAN	PPAN-P2RY11 protein	157	Brix.				RNA splicing	nucleolus	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(20;2.19e-08)|Epithelial(33;1.76e-05)|all cancers(31;3.54e-05)			GAAGCTCATGGCCACCATGTT	0.622													13	38					0	0	0.00245	0	0		A	10218766	A	A	10218766	3	1	127	1	0	0	0	0	1	0	0	0	12308	1203	42	2	487	2	PPAN-P2RY11	19	10218766	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	14351	10218766	48910217	1032	70112											
S1PR2	9294	broad.mit.edu	37	chr19	10335348	10335348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacgcctgccagtagatcGgaggcggccaggttgcccag	7	5	15	14	3	0	1	0	0	0	1	1	2	0	2	5	4	2	2	5	4	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:10335348G>A	uc002mnl.2	-	2	345	c.234C>T	c.(232-234)TCC>TCT	p.S78S		NM_004230	NP_004221	O95136	S1PR2_HUMAN	endothelial differentiation, sphingolipid	78	Helical; Name=2; (By similarity).				activation of MAPK activity|positive regulation of cell proliferation	integral to membrane|plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			lung(1)|central_nervous_system(1)	2						CCAGTAGATCGGAGGCGGCCA	0.602													9	41					0	0	0.013537	0	0		A	10335348	A	A	10335348	2	1	127	1	0	0	0	0	0	0	0	1	13819	1103	39	1		1	S1PR2	19	10335348	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	116582	10335348	48793635	1033	70113											
KEAP1	9817	broad.mit.edu	37	chr19	10602646	10602646	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcacctgcgtgggcttgTgcagggtgagctcctcgaag	6	9	15	11	2	1	1	1	1	0	0	3	2	2	1	2	2	3	4	2	2	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:10602646T>C	uc002moq.1	-	3	1088	c.932A>G	c.(931-933)CAC>CGC	p.H311R	KEAP1_uc002mop.1_Missense_Mutation_p.H29R|KEAP1_uc002mor.1_Missense_Mutation_p.H311R	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	311					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CGTGGGCTTGTGCAGGGTGAG	0.637													14	48					0	0	0.004007	0	0		C	10602646	C	C	10602646	3	2	127	1	0	0	0	0	1	0	0	0	8157	1696	59	3	958	3	KEAP1	19	10602646	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	267298	10602646	48526337	1034	70114											
KANK2	25959	broad.mit.edu	37	chr19	11304273	11304273	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgggggtggcaaccccacGcccaccagggaggctgtcga	7	4	16	14	3	0	0	0	0	0	0	2	2	0	1	4	5	1	2	4	5	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:11304273G>A	uc010dxv.2	-	6	1041	c.483C>T	c.(481-483)GGC>GGT	p.G161G	KANK2_uc002mqm.2_Silent_p.G161G|KANK2_uc002mqo.3_Silent_p.G161G|KANK2_uc002mqp.1_5'UTR|KANK2_uc002mqq.2_Silent_p.G161G	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	161											0						GCAACCCCACGCCCACCAGGG	0.731													7	8					0	0	0.00308	0	0		A	11304273	A	A	11304273	2	1	127	1	0	0	0	0	0	0	0	1	7993	1074	38	1		1	KANK2	19	11304273	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	701627	11304273	47824710	1035	70115											
MAN2B1	4125	broad.mit.edu	37	chr19	12776529	12776529	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctactcacttccataaaagtActggtccacggttttgagcc	10	12	7	12	1	1	1	1	1	0	0	3	1	3	1	3	2	3	2	3	2	4	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:12776529A>G	uc002mub.2	-	2	326	c.250T>C	c.(250-252)TAC>CAC	p.Y84H	MAN2B1_uc010dyv.1_Missense_Mutation_p.Y84H|WDR83_uc002mue.3_5'Flank|WDR83_uc002muc.2_5'Flank	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	84					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						CCATAAAAGTACTGGTCCACG	0.577													17	66					0	0	0.012319	0	0		G	12776529	G	G	12776529	3	3	127	1	0	0	0	0	1	0	0	0	9234	391	14	3	2877	3	MAN2B1	19	12776529	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1472256	12776529	46352454	1036	70116											
TNPO2	30000	broad.mit.edu	37	chr19	12812476	12812476	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctacagcatcgcagaagAaaataaagtcctgaaacgtg	17	6	10	8	2	0	3	0	1	0	2	2	3	1	3	1	1	3	3	1	1	7	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:12812476A>G	uc002muo.2	-	23	2707	c.2522T>C	c.(2521-2523)TTC>TCC	p.F841S	TNPO2_uc002mup.2_Missense_Mutation_p.F923S|TNPO2_uc002muq.2_Missense_Mutation_p.F831S|TNPO2_uc002mur.2_Missense_Mutation_p.F831S	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	841				F -> L (in Ref. 2; AAB71349).	intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						ATCGCAGAAGAAAATAAAGTC	0.612													9	28					0	0	0.006214	0	0		G	12812476	G	G	12812476	3	3	127	1	0	0	0	0	1	0	0	0	16361	246	9	3	179	3	TNPO2	19	12812476	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	35947	12812476	46316507	1037	70117											
NOTCH3	4854	broad.mit.edu	37	chr19	15285059	15285059	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtagctcctctggcggcAgcagcactgtgagcaccagc	8	6	13	14	1	1	1	0	1	1	0	2	1	2	1	2	2	5	7	2	2	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:15285059A>G	uc002nan.2	-	25	4632	c.4556T>C	c.(4555-4557)CTG>CCG	p.L1519P		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1519	Extracellular (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CTCTGGCGGCAGCAGCACTGT	0.706													4	5					0	0	0.009096	0	0		G	15285059	G	G	15285059	3	3	127	1	0	0	0	0	1	0	0	0	10569	188	7	3	2445	3	NOTCH3	19	15285059	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2472583	15285059	43843924	1038	70118											
AKAP8	10270	broad.mit.edu	37	chr19	15483890	15483890	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaggacgcagcggggggCacgaaggggtcgctgcgcat	8	4	19	10	5	1	1	1	0	0	1	2	3	1	2	0	6	2	4	0	6	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:15483890C>T	uc002nav.2	-	5	694	c.633G>A	c.(631-633)GTG>GTA	p.V211V	AKAP8_uc010dzy.2_5'UTR|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Silent_p.V25V	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	211					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						CAGCGGGGGGCACGAAGGGGT	0.726													4	20					0	0	0.000602	0	0		T	15483890	T	T	15483890	2	4	127	1	0	0	0	0	0	0	0	1	457	697	25	2		2	AKAP8	19	15483890	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	198831	15483890	43645093	1039	70119											
CYP4F22	126410	broad.mit.edu	37	chr19	15636311	15636311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctacatcacctgccgccGgctgcgctgcttcccccagc	4	9	8	20	3	2	0	1	0	1	0	3	0	3	0	5	1	5	3	5	1	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:15636311G>A	uc002nbh.3	+	3	331	c.164G>A	c.(163-165)CGG>CAG	p.R55Q		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	55						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						ACCTGCCGCCGGCTGCGCTGC	0.537													11	43					0	0	0.006122	0	0		A	15636311	A	A	15636311	3	1	127	1	0	0	0	0	1	0	0	0	4192	1116	39	1	166	1	CYP4F22	19	15636311	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	152421	15636311	43492672	1040	70120											
CYP4F22	126410	broad.mit.edu	37	chr19	15648384	15648384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaggtgacaagtggagcCggcaccgtcgcctgctgaca	10	5	14	12	3	0	2	0	2	0	0	1	3	0	3	3	3	2	3	3	3	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:15648384C>T	uc002nbh.3	+	6	627	c.460C>T	c.(460-462)CGG>TGG	p.R154W		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	154						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						CAAGTGGAGCCGGCACCGTCG	0.547													22	71					0	0	0.010504	0	0		T	15648384	T	T	15648384	3	4	127	1	0	0	0	0	1	0	0	0	4192	643	23	1	474	1	CYP4F22	19	15648384	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	12073	15648384	43480599	1041	70121											
C19orf44	84167	broad.mit.edu	37	chr19	16612361	16612361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaagaaagaaaactattttCggtgagattttttttttttg	13	18	8	2	1	0	4	0	1	0	4	1	5	0	4	0	1	1	0	0	1	5	9			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:16612361C>T	uc002neh.1	+	2	831	c.758C>T	c.(757-759)TCG>TTG	p.S253L	MED26_uc002nee.2_Intron|C19orf44_uc002nef.1_Missense_Mutation_p.S253L|C19orf44_uc002neg.2_Missense_Mutation_p.S253L|C19orf44_uc010eai.1_RNA	NM_032207	NP_115583	Q9H6X5	CS044_HUMAN	hypothetical protein LOC84167	253											0						AAACTATTTTCGGTGAGAttt	0.229													5	42					0	0	0.000602	0	0		T	16612361	T	T	16612361	3	4	127	1	0	0	0	0	1	0	0	0	1930	898	31	1	760	1	C19orf44	19	16612361	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	963977	16612361	42516622	1042	70122											
ANKLE1	126549	broad.mit.edu	37	chr19	17396566	17396566	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtgttgtgtccctacattGcttccagcacgtggtcgctg	4	13	12	12	3	0	0	0	0	0	0	3	0	2	0	2	2	3	4	2	2	1	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:17396566G>A	uc002nga.2	+	8	1889	c.1613G>A	c.(1612-1614)TGC>TAC	p.C538Y	ANKLE1_uc010xpm.1_RNA|ANKLE1_uc010eao.1_Missense_Mutation_p.C534Y|ANKLE1_uc010xpn.1_Intron|ANKLE1_uc002nfy.2_Missense_Mutation_p.C501Y|ANKLE1_uc002nfz.2_Missense_Mutation_p.C244Y	NM_152363	NP_689576	Q8NAG6	ANKL1_HUMAN	ankyrin repeat domain 41	538						nuclear envelope					0						TCCCTACATTGCTTCCAGCAC	0.577													7	39					0	0	0.001984	0	0		A	17396566	A	A	17396566	3	1	127	1	0	0	0	0	1	0	0	0	632	1319	46	2	1643	2	ANKLE1	19	17396566	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	784205	17396566	41732417	1043	70123											
ARRDC2	27106	broad.mit.edu	37	chr19	18120452	18120452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgatcctggtactgtaacCgtggcctagtctccctttcg	5	12	9	15	3	1	0	0	0	1	0	4	1	2	0	5	2	2	2	5	2	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:18120452C>T	uc002nhv.2	+	4	684	c.541C>T	c.(541-543)CGT>TGT	p.R181C	ARRDC2_uc002nhu.2_Missense_Mutation_p.R176C	NM_015683	NP_056498	Q8TBH0	ARRD2_HUMAN	arrestin domain containing 2 isoform 1	181										pancreas(1)	1						GTACTGTAACCGTGGCCTAGT	0.602													21	77					0	0	0.00278	0	0		T	18120452	T	T	18120452	3	4	127	1	0	0	0	0	1	0	0	0	984	652	23	1	818	1	ARRDC2	19	18120452	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	723886	18120452	41008531	1044	70124											
ARRDC2	27106	broad.mit.edu	37	chr19	18121027	18121027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgtggatatcccaggaaCgtccaagctgctgctggagc	8	9	13	11	1	0	0	0	0	0	0	2	3	2	3	2	3	5	3	2	3	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:18121027C>T	uc002nhv.2	+	6	1015	c.872C>T	c.(871-873)ACG>ATG	p.T291M	ARRDC2_uc002nhu.2_Missense_Mutation_p.T286M	NM_015683	NP_056498	Q8TBH0	ARRD2_HUMAN	arrestin domain containing 2 isoform 1	291										pancreas(1)	1						ATCCCAGGAACGTCCAAGCTG	0.632													15	66					0	0	0.00245	0	0		T	18121027	T	T	18121027	3	4	127	1	0	0	0	0	1	0	0	0	984	536	19	1	1157	1	ARRDC2	19	18121027	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	575	18121027	41007956	1045	70125											
PIK3R2	5296	broad.mit.edu	37	chr19	18279572	18279572	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggacgaggacgatctcccGcaccacgaggaacgcacttg	11	4	13	13	5	1	0	0	0	1	0	2	7	1	3	2	3	1	2	2	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:18279572G>A	uc002nia.1	+	15	2357	c.1845G>A	c.(1843-1845)CCG>CCA	p.P615P	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	615					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						ACGATCTCCCGCACCACGAGG	0.667											OREG0025359	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	39					0	0	0.000602	0	0		A	18279572	A	A	18279572	2	1	127	1	0	0	0	0	0	0	0	1	11938	1074	38	1		1	PIK3R2	19	18279572	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	158545	18279572	40849411	1046	70126											
KIAA1683	80726	broad.mit.edu	37	chr19	18375881	18375881	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggacctcacaggctgcCgggcatggtcccccctgagt	5	7	12	17	1	1	1	1	1	0	0	2	2	2	2	6	4	1	2	6	4	0	0	rs149210128		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:18375881C>T	uc002nin.2	-	3	2685	c.2469G>A	c.(2467-2469)CCG>CCA	p.P823P	KIAA1683_uc010ebn.2_Silent_p.P823P|KIAA1683_uc010xqe.1_Silent_p.P777P	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	823						mitochondrion				ovary(2)	2						CACAGGCTGCCGGGCATGGTC	0.677													18	81					0	0	0.007413	0	0		T	18375881	T	T	18375881	2	4	127	1	0	0	0	0	0	0	0	1	8267	639	23	1		1	KIAA1683	19	18375881	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	96309	18375881	40753102	1047	70127											
TMEM59L	25789	broad.mit.edu	37	chr19	18729233	18729233	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgctgcctcttcctctcCgtgctggtgatgctgtggct	1	14	12	14	1	2	1	0	1	2	0	4	1	3	1	4	2	4	4	4	2	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:18729233C>T	uc002njy.3	+	7	918	c.831C>T	c.(829-831)TCC>TCT	p.S277S		NM_012109	NP_036241	Q9UK28	TM59L_HUMAN	brain-specific membrane-anchored protein	277	Helical; (Potential).					Golgi membrane|integral to membrane|membrane fraction				ovary(2)|skin(2)	4						TCTTCCTCTCCGTGCTGGTGA	0.697													5	11					0	0	0.001984	0	0		T	18729233	T	T	18729233	2	4	127	1	0	0	0	0	0	0	0	1	16211	639	23	1		1	TMEM59L	19	18729233	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	353352	18729233	40399750	1048	70128											
NCAN	1463	broad.mit.edu	37	chr19	19335242	19335242	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctttgcccgggagctggggGgtaagtctgggactggcagg	5	8	20	8	1	1	0	0	0	1	0	1	2	1	2	1	7	2	4	1	7	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:19335242G>T	uc002nlz.2	+	5	877	c.778G>T	c.(778-780)GGC>TGC	p.G260C	NCAN_uc010ecc.1_5'Flank	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	260	Link 2.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GGAGCTGGGGGGTAAGTCTGG	0.592													13	89					3.52763e-06	3.67548e-06	0.00499	1	0		T	19335242	T	T	19335242	3	4	127	1	0	0	0	0	1	0	0	0	10223	1246	43	5	792	5	NCAN	19	19335242	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	606009	19335242	39793741	1049	70129											
TM6SF2	53345	broad.mit.edu	37	chr19	19375644	19375644	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacggtaggtgaagggtgtGcgcaggtgcatggaagcccc	9	6	17	9	2	0	1	0	1	0	0	0	2	0	2	2	5	3	3	2	5	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:19375644G>A	uc002nmd.1	-	10	1013	c.963C>T	c.(961-963)CGC>CGT	p.R321R	HAPLN4_uc002nmb.2_5'Flank|HAPLN4_uc002nmc.2_Intron	NM_001001524	NP_001001524	Q9BZW4	TM6S2_HUMAN	transmembrane 6 superfamily member 2	321						integral to membrane					0			Epithelial(12;0.0151)			TGAAGGGTGTGCGCAGGTGCA	0.607													11	59					0	0	0.013537	0	0		A	19375644	A	A	19375644	2	1	127	1	0	0	0	0	0	0	0	1	15998	1306	46	2		2	TM6SF2	19	19375644	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	40402	19375644	39753339	1050	70130											
GATAD2A	54815	broad.mit.edu	37	chr19	19606629	19606629	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgaggtgggcagcaggcgTcctcgaagctggggccacag	7	5	17	12	3	0	0	0	0	0	0	3	2	2	0	3	5	2	3	3	5	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:19606629T>C	uc010xqt.1	+	6	1003	c.691T>C	c.(691-693)TCC>CCC	p.S231P	GATAD2A_uc010xqu.1_Intron|GATAD2A_uc010xqv.1_Missense_Mutation_p.S250P|GATAD2A_uc010xqw.1_Missense_Mutation_p.S58P	NM_017660	NP_060130	Q86YP4	P66A_HUMAN	GATA zinc finger domain containing 2A	231					DNA methylation|negative regulation of transcription, DNA-dependent	nuclear speck|NuRD complex	protein binding, bridging|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCAGCAGGCGTCCTCGAAGCT	0.642													23	53					0	0	0.003954	0	0		C	19606629	C	C	19606629	3	2	127	1	0	0	0	0	1	0	0	0	6275	1667	58	3	709	3	GATAD2A	19	19606629	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	230985	19606629	39522354	1051	70131											
ATP13A1	57130	broad.mit.edu	37	chr19	19767469	19767469	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatcctccaccaagtacCttcatctgtggcacggactc	8	9	6	18	1	2	0	1	0	1	0	5	1	4	1	6	2	1	2	6	2	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:19767469C>A	uc002nnh.3	-	7	1111	c.1083G>T	c.(1081-1083)AAG>AAT	p.K361N	ATP13A1_uc002nnf.3_5'Flank|ATP13A1_uc002nng.2_Missense_Mutation_p.K243N	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	361	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						CACCAAGTACCTTCATCTGTG	0.647													4	15					0.00909568	0.00921271	0.009096	1	0		A	19767469	A	A	19767469	3	1	127	1	0	0	0	0	1	0	0	0	1124	695	24	5	2611	5	ATP13A1	19	19767469	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	160840	19767469	39361514	1052	70132											
ZNF486	90649	broad.mit.edu	37	chr19	20308172	20308172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgtgaagaatgtggcaaagCcttcaaccggtcctcacacc	12	8	9	12	1	2	2	2	1	0	1	3	2	3	2	4	2	2	1	4	2	4	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:20308172C>T	uc002nou.2	+	4	710	c.653C>T	c.(652-654)GCC>GTC	p.A218V		NM_052852	NP_443084	Q96H40	ZN486_HUMAN	zinc finger protein 486	218	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGTGGCAAAGCCTTCAACCGG	0.378													25	98					0	0	0.003954	0	0		T	20308172	T	T	20308172	3	4	127	1	0	0	0	0	1	0	0	0	17964	739	26	2	667	2	ZNF486	19	20308172	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	540703	20308172	38820811	1053	70133											
ZNF99	7652	broad.mit.edu	37	chr19	22940245	22940245	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccactgaaaagctttaccAcattcttcacatttgtagga	13	12	6	10	0	2	1	1	1	1	0	2	3	2	2	2	1	2	2	2	1	4	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:22940245A>G	uc010xrh.1	-	5	2193	c.2193T>C	c.(2191-2193)TGT>TGC	p.C731C		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				AAGCTTTACCACATTCTTCAC	0.343													13	59					0	0	0.013537	0	0		G	22940245	G	G	22940245	2	3	127	1	0	0	0	0	0	0	0	1	18229	173	6	3		3	ZNF99	19	22940245	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2632073	22940245	36188738	1054	70134											
ZNF99	7652	broad.mit.edu	37	chr19	22941839	22941839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggattgcttaaaagctttgCcacattcttcacatttatat	12	16	5	8	0	2	0	1	0	1	0	2	1	2	1	1	1	3	2	1	1	4	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:22941839C>T	uc010xrh.1	-	5	599	c.599G>A	c.(598-600)GGC>GAC	p.G200D		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				AAAAGCTTTGCCACATTCTTC	0.348													11	61					0	0	0.010729	0	0		T	22941839	T	T	22941839	3	4	127	1	0	0	0	0	1	0	0	0	18229	739	26	2	2525	2	ZNF99	19	22941839	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1594	22941839	36187144	1055	70135											
CHST8	64377	broad.mit.edu	37	chr19	34263463	34263463	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaccaagatgctctttgTccgcgagcccttcgagaggc	8	9	10	14	3	1	2	0	0	1	2	3	4	2	2	3	1	3	1	3	1	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:34263463T>A	uc002nus.3	+	5	1275	c.770T>A	c.(769-771)GTC>GAC	p.V257D	CHST8_uc002nut.3_Missense_Mutation_p.V257D|CHST8_uc002nuu.2_Missense_Mutation_p.V257D	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	257	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)					ATGCTCTTTGTCCGCGAGCCC	0.612													16	54					0	0	0.014323	0	0		A	34263463	A	A	34263463	3	1	127	1	0	0	0	0	1	0	0	0	3413	1667	58	5	780	5	CHST8	19	34263463	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	11321624	34263463	24865520	1056	70136											
KCTD15	79047	broad.mit.edu	37	chr19	34302308	34302308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgacttgggcgagcggatcGcactcagcggcgagaaggcc	8	4	16	13	6	1	1	1	0	0	1	2	5	1	2	2	4	2	1	2	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:34302308G>A	uc002nuy.3	+	6	812	c.544G>A	c.(544-546)GCA>ACA	p.A182T	KCTD15_uc002nuv.2_Missense_Mutation_p.A182T|KCTD15_uc002nuw.3_Missense_Mutation_p.A182T|KCTD15_uc010xrt.1_Missense_Mutation_p.A182T|KCTD15_uc002nux.3_Missense_Mutation_p.A182T	NM_001129994	NP_001123466	Q96SI1	KCD15_HUMAN	potassium channel tetramerisation domain	182						voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	Esophageal squamous(110;0.162)					CGAGCGGATCGCACTCAGCGG	0.697													5	13					0	0	0.000602	0	0		A	34302308	A	A	34302308	3	1	127	1	0	0	0	0	1	0	0	0	8118	1087	38	1	558	1	KCTD15	19	34302308	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	38845	34302308	24826675	1057	70137											
KIAA0355	9710	broad.mit.edu	37	chr19	34843719	34843719	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagtgtgggccgcaaccaaCgactgcagtgccgctgcctt	7	7	12	15	3	0	0	0	0	0	0	0	1	0	0	5	1	5	3	5	1	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:34843719C>T	uc002nvd.3	+	14	3931	c.3072C>T	c.(3070-3072)AAC>AAT	p.N1024N		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	1024										ovary(1)	1	Esophageal squamous(110;0.162)					CCGCAACCAACGACTGCAGTG	0.652													10	28					0	0	0.010729	0	0		T	34843719	T	T	34843719	2	4	127	1	0	0	0	0	0	0	0	1	8186	535	19	1		1	KIAA0355	19	34843719	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	541411	34843719	24285264	1058	70138											
NPHS1	4868	broad.mit.edu	37	chr19	36335025	36335025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcacgtccagccgcagcCgcgcttccgcggtgccctca	5	6	12	18	6	1	0	1	0	0	0	3	0	3	0	5	1	4	3	5	1	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:36335025C>T	uc002oby.2	-	16	2192	c.2192G>A	c.(2191-2193)CGG>CAG	p.R731Q		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	731	Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CAGCCGCAGCCGCGCTTCCGC	0.642													11	37					0	0	0.00245	0	0		T	36335025	T	T	36335025	3	4	127	1	0	0	0	0	1	0	0	0	10601	652	23	1	1589	1	NPHS1	19	36335025	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1491306	36335025	22793958	1059	70139											
WDR62	284403	broad.mit.edu	37	chr19	36590367	36590367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctaccagccccacggcCgctgggcagagcgggccggc	6	2	16	17	4	0	1	0	0	0	1	0	1	0	1	5	4	4	4	5	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:36590367C>T	uc002odc.2	+	22	2678	c.2587C>T	c.(2587-2589)CGC>TGC	p.R863C	WDR62_uc002odd.2_Missense_Mutation_p.R863C	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	863					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GCCCCACGGCCGCTGGGCAGA	0.617													7	50					0	0	0.013537	0	0		T	36590367	T	T	36590367	3	4	127	1	0	0	0	0	1	0	0	0	17339	652	23	1	2673	1	WDR62	19	36590367	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	255342	36590367	22538616	1060	70140											
ZNF829	374899	broad.mit.edu	37	chr19	37382938	37382938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgatcattaaggtttgagCaatacttaaaggcttttcca	13	14	8	6	0	1	2	1	2	0	0	2	3	2	2	1	2	2	3	1	2	5	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:37382938C>T	uc002ofa.1	-	6	1117	c.755G>A	c.(754-756)TGC>TAC	p.C252Y	ZNF345_uc002oez.2_Intron	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	252	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AAGGTTTGAGCAATACTTAAA	0.348													9	65					0	0	0.004482	0	0		T	37382938	T	T	37382938	3	4	127	1	0	0	0	0	1	0	0	0	18207	710	25	2	547	2	ZNF829	19	37382938	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	792571	37382938	21746045	1061	70141											
ZNF568	374900	broad.mit.edu	37	chr19	37441310	37441310	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acactggtgagaaaccctatGtatgtagtgaatgtgggaaa	14	10	12	5	0	0	2	0	2	0	1	0	4	0	3	1	2	1	2	1	2	6	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:37441310G>A	uc002ofc.2	+	7	1770	c.1255G>A	c.(1255-1257)GTA>ATA	p.V419I	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Missense_Mutation_p.V343I|ZNF568_uc010efe.2_Missense_Mutation_p.V343I|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	419	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAAACCCTATGTATGTAGTGA	0.388													16	102					0	0	0.003163	0	0		A	37441310	A	A	37441310	3	1	127	1	0	0	0	0	1	0	0	0	18024	1377	48	4	1273	4	ZNF568	19	37441310	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	58372	37441310	21687673	1062	70142											
PSMD8	5714	broad.mit.edu	37	chr19	38869929	38869929	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagctcttgggcctcaacCtcctcttcctgctgtcccag	5	11	7	18	0	3	0	1	0	2	0	6	0	6	0	6	1	3	2	6	1	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:38869929C>A	uc002oii.3	+	4	638	c.586C>A	c.(586-588)CTC>ATC	p.L196I	PSMD8_uc010efx.1_Missense_Mutation_p.L29I	NM_002812	NP_002803	P48556	PSMD8_HUMAN	proteasome 26S non-ATPase subunit 8	196					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome regulatory particle	protein binding			central_nervous_system(1)	1	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GGGCCTCAACCTCCTCTTCCT	0.587													10	29					0.000978159	0.000997877	0.010729	1	0		A	38869929	A	A	38869929	3	1	127	1	0	0	0	0	1	0	0	0	12726	681	24	5	600	5	PSMD8	19	38869929	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1428619	38869929	20259054	1063	70143											
RYR1	6261	broad.mit.edu	37	chr19	39001390	39001390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgggcagcggtggccacGcctctaacaaggagaaggaa	11	5	15	10	2	1	1	0	0	1	1	1	3	1	2	2	5	3	2	2	5	4	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:39001390G>A	uc002oit.2	+	60	9221	c.9091G>A	c.(9091-9093)GCC>ACC	p.A3031T	RYR1_uc002oiu.2_Missense_Mutation_p.A3031T|RYR1_uc002oiv.1_5'UTR|RYR1_uc010xuf.1_5'Flank	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3031	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CGGTGGCCACGCCTCTAACAA	0.572													32	112					0	0	0.013726	0	0		A	39001390	A	A	39001390	3	1	127	1	0	0	0	0	1	0	0	0	13793	1087	38	1	9329	1	RYR1	19	39001390	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	131461	39001390	20127593	1064	70144											
RYR1	6261	broad.mit.edu	37	chr19	39018400	39018400	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagagtccaggaagtgtcAgccgtgctctactacctgga	9	8	12	12	2	2	1	1	0	1	1	3	3	3	3	3	2	4	2	3	2	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:39018400A>G	uc002oit.2	+	73	10930	c.10800A>G	c.(10798-10800)TCA>TCG	p.S3600S	RYR1_uc002oiu.2_Silent_p.S3595S|RYR1_uc002oiv.1_Silent_p.S515S|RYR1_uc010xuf.1_Silent_p.S520S	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3600					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AGGAAGTGTCAGCCGTGCTCT	0.667													13	58					0	0	0.004007	0	0		G	39018400	G	G	39018400	2	3	127	1	0	0	0	0	0	0	0	1	13793	175	7	3		3	RYR1	19	39018400	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	17010	39018400	20110583	1065	70145											
RINL	126432	broad.mit.edu	37	chr19	39361401	39361401	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcgcacccgaaggcttcggTactgcctggccacgtagctg	6	8	13	14	4	0	0	0	0	0	0	1	1	0	0	3	3	4	5	3	3	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:39361401T>C	uc002ojq.2	-	8	879	c.491A>G	c.(490-492)TAC>TGC	p.Y164C	RINL_uc002ojr.1_5'Flank|RINL_uc010xuo.1_Missense_Mutation_p.Y278C	NM_198445	NP_940847	Q6ZS11	RINL_HUMAN	Ras and Rab interactor-like	164							GTPase activator activity			pancreas(1)	1						AAGGCTTCGGTACTGCCTGGC	0.652													17	52					0	0	0.006122	0	0		C	39361401	C	C	39361401	3	2	127	1	0	0	0	0	1	0	0	0	13400	1638	57	3	887	3	RINL	19	39361401	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	343001	39361401	19767582	1066	70146											
NFKBIB	4793	broad.mit.edu	37	chr19	39399455	39399455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcaaaacctcttcctgacGacccccgccccgtgtgattt	7	10	6	18	3	2	2	1	2	1	0	3	3	3	2	7	0	1	0	7	0	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:39399455G>A	uc002ojw.2	+	6	1112	c.1054G>A	c.(1054-1056)GAC>AAC	p.D352N	NFKBIB_uc002ojx.2_3'UTR|NFKBIB_uc002ojy.2_3'UTR	NM_002503	NP_002494	Q15653	IKBB_HUMAN	nuclear factor of kappa light polypeptide gene	352					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription, DNA-dependent	cytosol|nucleus	protein binding|signal transducer activity|transcription coactivator activity			lung(1)|kidney(1)	2	all_cancers(60;4.39e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			TCTTCCTGACGACCCCCGCCC	0.502													16	69					0	0	0.00278	0	0		A	39399455	A	A	39399455	3	1	127	1	0	0	0	0	1	0	0	0	10397	1058	37	1	1124	1	NFKBIB	19	39399455	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	38054	39399455	19729528	1067	70147											
FCGBP	8857	broad.mit.edu	37	chr19	40366105	40366105	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtaggtagccactgcaGgacagaggcctccaggatgg	10	5	14	12	1	0	1	0	0	0	1	1	3	1	3	4	5	2	3	4	5	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:40366105G>T	uc002omp.3	-	30	14137	c.14129C>A	c.(14128-14130)CCT>CAT	p.P4710H		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4710						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			AGCCACTGCAGGACAGAGGCC	0.677													7	34					1.3612e-06	1.42244e-06	0.003163	1	0		T	40366105	T	T	40366105	3	4	127	1	0	0	0	0	1	0	0	0	5792	1000	35	5	2116	5	FCGBP	19	40366105	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	966650	40366105	18762878	1068	70148											
FCGBP	8857	broad.mit.edu	37	chr19	40384013	40384013	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgttgaggggaacacagcgGtcagcacttaacacgaaacc	13	7	11	10	2	1	1	1	1	0	0	1	3	1	2	1	3	5	2	1	3	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:40384013G>A	uc002omp.3	-	21	9605	c.9597C>T	c.(9595-9597)GAC>GAT	p.D3199D		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	3199	TIL 7.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GAACACAGCGGTCAGCACTTA	0.647													4	83					0	0	0.013537	0	0		A	40384013	A	A	40384013	2	1	127	1	0	0	0	0	0	0	0	1	5792	1252	44	4		4	FCGBP	19	40384013	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	17908	40384013	18744970	1069	70149											
FCGBP	8857	broad.mit.edu	37	chr19	40395994	40395994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgcccatgaagtcgaagCggcggccatcgaaggtggtg	9	6	17	9	4	0	1	0	1	0	0	2	3	0	1	2	5	2	0	2	5	3	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:40395994C>T	uc002omp.3	-	15	7411	c.7403G>A	c.(7402-7404)CGC>CAC	p.R2468H		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	2468	VWFD 6.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GAAGTCGAAGCGGCGGCCATC	0.672													14	112					0	0	0.003163	0	0		T	40395994	T	T	40395994	3	4	127	1	0	0	0	0	1	0	0	0	5792	768	27	1	8902	1	FCGBP	19	40395994	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	11981	40395994	18732989	1070	70150											
FCGBP	8857	broad.mit.edu	37	chr19	40421347	40421347	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcaggtcccgaagcgatcGgggtagcagcccaggaggcc	8	4	17	12	3	0	0	0	0	0	0	2	3	1	1	3	6	3	3	3	6	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:40421347G>T	uc002omp.3	-	5	2582	c.2574C>A	c.(2572-2574)CCC>CCA	p.P858P		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	858						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CGAAGCGATCGGGGTAGCAGC	0.687													3	3					6.4e-05	6.60655e-05	0.004672	1	0		T	40421347	T	T	40421347	2	4	127	1	0	0	0	0	0	0	0	1	5792	1103	39	5		5	FCGBP	19	40421347	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	25353	40421347	18707636	1071	70151											
POU2F2	5452	broad.mit.edu	37	chr19	42599459	42599459	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgggggctgtagctggcCggcttccctgggctgggcag	4	9	18	10	1	0	0	0	0	0	0	1	0	1	0	2	6	1	6	2	6	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:42599459C>T	uc002osp.2	-	11	1177	c.1110G>A	c.(1108-1110)CCG>CCA	p.P370P	POU2F2_uc002osn.2_Silent_p.P354P|POU2F2_uc002oso.2_Silent_p.P143P|POU2F2_uc002osq.2_Silent_p.P354P|POU2F2_uc002osr.1_Silent_p.P370P	NM_002698	NP_002689	P09086	PO2F2_HUMAN	POU domain, class 2, transcription factor 2	370					humoral immune response|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2		Prostate(69;0.059)				TGTAGCTGGCCGGCTTCCCTG	0.647													6	25					0	0	0.004482	0	0		T	42599459	T	T	42599459	2	4	127	1	0	0	0	0	0	0	0	1	12291	639	23	1		1	POU2F2	19	42599459	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2178112	42599459	16529524	1072	70152											
CD177	57126	broad.mit.edu	37	chr19	43866334	43866334	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatcgggatcttctctgcGcgtgagaagcgtgatgtgca	9	10	13	9	4	2	2	0	2	2	1	4	4	2	3	0	1	3	1	0	1	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:43866334G>A	uc002owi.2	+	10	1218	c.1176G>A	c.(1174-1176)GCG>GCA	p.A392A	CD177_uc010eis.2_RNA|CD177_uc002owj.2_RNA	NM_020406	NP_065139	Q8N6Q3	CD177_HUMAN	CD177 molecule precursor	392					blood coagulation|leukocyte migration	anchored to membrane|plasma membrane				central_nervous_system(1)	1		Prostate(69;0.00682)				TCTTCTCTGCGCGTGAGAAGC	0.607													25	70					0	0	0.00333	0	0		A	43866334	A	A	43866334	2	1	127	1	0	0	0	0	0	0	0	1	2974	1074	38	1		1	CD177	19	43866334	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1266875	43866334	15262649	1073	70153											
XRCC1	7515	broad.mit.edu	37	chr19	44057634	44057634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcctcctccttcacacGgaactggccaagcttggtca	8	10	7	16	1	3	0	3	0	0	0	6	1	6	1	4	3	2	1	4	3	2	2	rs143266865		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:44057634G>A	uc002owt.2	-	6	640	c.520C>T	c.(520-522)CGT>TGT	p.R174C	XRCC1_uc010xwp.1_Missense_Mutation_p.R143C	NM_006297	NP_006288	P18887	XRCC1_HUMAN	X-ray repair cross complementing protein 1	174					base-excision repair|single strand break repair	nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(2)|large_intestine(1)|prostate(1)|breast(1)	7		Prostate(69;0.0153)				TCCTTCACACGGAACTGGCCA	0.587								Other_BER_factors					18	87					0	0	0.006122	0	0		A	44057634	A	A	44057634	3	1	127	1	0	0	0	0	1	0	0	0	17478	1116	39	1	1429	1	XRCC1	19	44057634	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	191300	44057634	15071349	1074	70154											
CADM4	199731	broad.mit.edu	37	chr19	44130298	44130298	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcacatccagcacgtactgCgtctgcttgctgtgtccgga	6	11	11	13	3	1	0	0	0	1	0	3	1	3	1	2	1	6	5	2	1	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:44130298C>T	uc002oxc.1	-	5	691	c.642G>A	c.(640-642)ACG>ACA	p.T214T		NM_145296	NP_660339	Q8NFZ8	CADM4_HUMAN	cell adhesion molecule 4 precursor	214	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion	integral to membrane					0		Prostate(69;0.0199)				GCACGTACTGCGTCTGCTTGC	0.637													5	20					0	0	0.000602	0	0		T	44130298	T	T	44130298	2	4	127	1	0	0	0	0	0	0	0	1	2572	755	27	1		1	CADM4	19	44130298	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	72664	44130298	14998685	1075	70155											
ZNF227	7770	broad.mit.edu	37	chr19	44739650	44739650	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaccctataaatgcgaggAatgtggtaaatgctttagtc	14	11	10	6	1	0	0	0	0	0	0	1	3	0	1	1	2	3	2	1	2	8	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:44739650A>G	uc002oyu.2	+	6	1272	c.1067A>G	c.(1066-1068)GAA>GGA	p.E356G	ZNF227_uc010xwu.1_Missense_Mutation_p.E305G|ZNF227_uc002oyv.2_Missense_Mutation_p.E356G|ZNF227_uc010xwv.1_Missense_Mutation_p.E305G|ZNF227_uc010xww.1_Missense_Mutation_p.E277G|ZNF227_uc002oyw.2_Missense_Mutation_p.E328G|ZNF227_uc010ejh.2_Missense_Mutation_p.E349G|ZNF235_uc002oyx.1_Intron	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	356	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)				AAATGCGAGGAATGTGGTAAA	0.423													18	83					0	0	0.007413	0	0		G	44739650	G	G	44739650	3	3	127	1	0	0	0	0	1	0	0	0	17806	246	9	3	1081	3	ZNF227	19	44739650	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	609352	44739650	14389333	1076	70156											
RTN2	6253	broad.mit.edu	37	chr19	45997462	45997462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgaattctaattggtccGtgctatcgaggcactgtccc	7	12	10	12	3	1	1	0	1	1	0	4	2	3	1	3	2	1	2	3	2	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:45997462G>A	uc002pcb.2	-	4	1004	c.776C>T	c.(775-777)ACG>ATG	p.T259M	RTN2_uc002pcc.2_Missense_Mutation_p.T259M|RTN2_uc002pcd.2_RNA	NM_005619	NP_005610	O75298	RTN2_HUMAN	reticulon 2 isoform A	259						integral to endoplasmic reticulum membrane	signal transducer activity			ovary(3)	3		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00829)|Epithelial(262;0.184)|GBM - Glioblastoma multiforme(486;0.246)		TAATTGGTCCGTGCTATCGAG	0.537													52	168					0	0	0.01441	0	0		A	45997462	A	A	45997462	3	1	127	1	0	0	0	0	1	0	0	0	13751	1145	40	1	893	1	RTN2	19	45997462	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1257812	45997462	13131521	1077	70157											
OPA3	80207	broad.mit.edu	37	chr19	46057131	46057131	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccgtgccccggaagcccaTgatgcgcatcttggtccgca	7	7	12	15	4	1	1	0	1	1	0	2	3	2	2	5	2	3	2	5	2	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:46057131T>C	uc002pck.3	-	2	281	c.181A>G	c.(181-183)ATG>GTG	p.M61V	OPA3_uc002pcj.3_Intron|OPA3_uc010xxk.1_Missense_Mutation_p.M8V	NM_025136	NP_079412	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform b	61					response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)		CGGAAGCCCATGATGCGCATC	0.667													5	19					0	0	0.000602	0	0		C	46057131	C	C	46057131	3	2	127	1	0	0	0	0	1	0	0	0	10891	1464	51	3	767	3	OPA3	19	46057131	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	59669	46057131	13071852	1078	70158											
FOXA3	3171	broad.mit.edu	37	chr19	46375340	46375340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctttcccctaggtctactCgccggtgaccccagtgccca	6	10	8	17	2	2	1	0	1	2	0	4	1	3	1	6	2	2	0	6	2	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:46375340C>T	uc002pdr.2	+	2	274	c.77C>T	c.(76-78)TCG>TTG	p.S26L		NM_004497	NP_004488	P55318	FOXA3_HUMAN	forkhead box A3	26					brain development|cellular glucose homeostasis|cellular response to starvation|chromatin modification|embryo development|endocrine pancreas development|negative regulation of cell proliferation|neural plate anterior/posterior regionalization|neuron fate specification|positive regulation of hepatocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|spermatogenesis	transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(1)	1		Ovarian(192;0.0308)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00453)|GBM - Glioblastoma multiforme(486;0.0518)|Epithelial(262;0.236)		TAGGTCTACTCGCCGGTGACC	0.617													24	93					0	0	0.004656	0	0		T	46375340	T	T	46375340	3	4	127	1	0	0	0	0	1	0	0	0	6005	893	31	1	83	1	FOXA3	19	46375340	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	318209	46375340	12753643	1079	70159											
ZC3H4	23211	broad.mit.edu	37	chr19	47572412	47572412	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cctcgctctctcctcctcctCctgctgcttctgctggatcc	1	14	6	20	1	2	0	0	0	2	0	9	1	7	1	6	1	3	4	6	1	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:47572412C>G	uc002pga.3	-	14	2373	c.2335G>C	c.(2335-2337)GAG>CAG	p.E779Q	ZC3H4_uc002pgb.1_Intron	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	779	Potential.						nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		TCCTCCTCCTCCTGCTGCTTC	0.701													28	124					0	0	0.003755	0	0		G	47572412	G	G	47572412	3	3	127	1	0	0	0	0	1	0	0	0	17595	864	30	5	1584	5	ZC3H4	19	47572412	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1197072	47572412	11556571	1080	70160											
TMEM143	55260	broad.mit.edu	37	chr19	48845826	48845826	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaagatggcgaagagcagCagcagcagggaggtggccac	13	3	17	8	1	0	3	0	1	0	2	0	5	0	4	1	4	4	4	1	4	2	0	rs138171230		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:48845826C>T	uc002pix.1	-	6	945	c.936G>A	c.(934-936)CTG>CTA	p.L312L	TMEM143_uc002piw.1_Intron|TMEM143_uc002piy.1_Silent_p.L277L|TMEM143_uc010xzn.1_Silent_p.L247L|TMEM143_uc010elw.1_Silent_p.L212L|TMEM143_uc010xzo.1_Silent_p.L102L	NM_018273	NP_060743	Q96AN5	TM143_HUMAN	transmembrane protein 143	312	Helical; (Potential).					integral to membrane|mitochondrion					0		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000149)|all cancers(93;0.000198)|Epithelial(262;0.0151)|GBM - Glioblastoma multiforme(486;0.0157)		CGAAGAGCAGCAGCAGCAGGG	0.667													5	21					0	0	0.001984	0	0		T	48845826	T	T	48845826	2	4	127	1	0	0	0	0	0	0	0	1	16082	697	25	2		2	TMEM143	19	48845826	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1273414	48845826	10283157	1081	70161											
SYNGR4	23546	broad.mit.edu	37	chr19	48879533	48879533	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgtccccctgtctgacCgctccaaagtccccccggct	4	8	8	21	2	1	1	0	1	1	0	4	1	4	1	8	1	0	2	8	1	1	0	rs149839356		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:48879533C>T	uc002piz.2	+	5	908	c.663C>T	c.(661-663)ACC>ACT	p.T221T		NM_012451	NP_036583	O95473	SNG4_HUMAN	synaptogyrin 4	221						integral to membrane					0		all_epithelial(76;5.08e-07)|all_lung(116;5.76e-06)|Lung NSC(112;1.18e-05)|Prostate(7;0.0143)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000138)|all cancers(93;0.00017)|Epithelial(262;0.0138)|GBM - Glioblastoma multiforme(486;0.0146)		CCTGTCTGACCGCTCCAAAGT	0.537													10	44					0	0	0.013537	0	0		T	48879533	T	T	48879533	2	4	127	1	0	0	0	0	0	0	0	1	15476	639	23	1		1	SYNGR4	19	48879533	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	33707	48879533	10249450	1082	70162											
FGF21	26291	broad.mit.edu	37	chr19	49261364	49261364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactaccaggcctgccccccGcactcccggagccacccgga	7	3	9	22	3	0	0	0	0	0	0	1	2	1	2	8	3	3	1	8	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:49261364G>A	uc002pkn.1	+	4	1089	c.517G>A	c.(517-519)GCA>ACA	p.A173T	FUT1_uc002pkk.2_5'Flank|FUT1_uc002pkm.1_5'Flank|FGF21_uc002pko.1_Missense_Mutation_p.A173T	NM_019113	NP_061986	Q9NSA1	FGF21_HUMAN	fibroblast growth factor 21 precursor	173					cell-cell signaling|positive regulation of ERK1 and ERK2 cascade|positive regulation of glucose import	extracellular region|soluble fraction	growth factor activity			breast(1)	1		all_lung(116;1.7e-06)|all_epithelial(76;3.52e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000348)|Epithelial(262;0.019)|GBM - Glioblastoma multiforme(486;0.022)		CCTGCCCCCCGCACTCCCGGA	0.721													4	13					0	0	0.001984	0	0		A	49261364	A	A	49261364	3	1	127	1	0	0	0	0	1	0	0	0	5864	1087	38	1	527	1	FGF21	19	49261364	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	381831	49261364	9867619	1083	70163											
GYS1	2997	broad.mit.edu	37	chr19	49481210	49481210	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagatggctctcttcatcaTagtgaagtcttccttatcca	11	14	6	10	0	4	2	2	1	2	1	7	2	6	2	2	1	0	1	2	1	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:49481210T>C	uc002plp.2	-	10	1520	c.1279A>G	c.(1279-1281)ATG>GTG	p.M427V	GYS1_uc010xzy.1_Missense_Mutation_p.M60V|GYS1_uc010emm.2_Missense_Mutation_p.M363V|GYS1_uc010xzz.1_Missense_Mutation_p.M347V|GYS1_uc010yaa.1_RNA	NM_002103	NP_002094	P13807	GYS1_HUMAN	glycogen synthase 1 (muscle) isoform 1	427					glucose metabolic process|glycogen biosynthetic process	cytosol	glycogen (starch) synthase activity|protein binding			ovary(2)	2		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000164)|all cancers(93;0.000226)|GBM - Glioblastoma multiforme(486;0.00561)|Epithelial(262;0.0286)		CTCTTCATCATAGTGAAGTCT	0.537													9	62					0	0	0.008291	0	0		C	49481210	C	C	49481210	3	2	127	1	0	0	0	0	1	0	0	0	6928	1406	49	3	962	3	GYS1	19	49481210	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	219846	49481210	9647773	1084	70164											
KCNA7	3743	broad.mit.edu	37	chr19	49575336	49575336	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgccgtcgcggtcgtcGcggaagtcaggcagcgtctc	4	7	15	15	8	2	0	1	0	1	0	6	1	2	1	2	3	2	1	2	3	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:49575336G>A	uc002pmg.2	-	1	863	c.507C>T	c.(505-507)CGC>CGT	p.R169R		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	169						voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)		CGCGGTCGTCGCGGAAGTCAG	0.711													3	13					0	0	0.001984	0	0		A	49575336	A	A	49575336	2	1	127	1	0	0	0	0	0	0	0	1	8024	1074	38	1		1	KCNA7	19	49575336	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	94126	49575336	9553647	1085	70165											
ALDH16A1	126133	broad.mit.edu	37	chr19	49971789	49971789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggtcatggtgcccagtgCggcctgtcctctgctggccc	2	11	14	14	1	2	0	1	0	1	0	3	0	3	0	4	4	3	1	4	4	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:49971789C>T	uc002pnt.2	+	15	2206	c.2090C>T	c.(2089-2091)GCG>GTG	p.A697V	ALDH16A1_uc010yar.1_Missense_Mutation_p.A646V|ALDH16A1_uc010yas.1_Missense_Mutation_p.A532V|ALDH16A1_uc010yat.1_Missense_Mutation_p.A534V	NM_153329	NP_699160	Q8IZ83	A16A1_HUMAN	aldehyde dehydrogenase 16 family, member A1	697							oxidoreductase activity|protein binding			skin(1)	1		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00156)|GBM - Glioblastoma multiforme(486;0.0251)		GTGCCCAGTGCGGCCTGTCCT	0.667													30	176					0	0	0.004878	0	0		T	49971789	T	T	49971789	3	4	127	1	0	0	0	0	1	0	0	0	488	768	27	1	2148	1	ALDH16A1	19	49971789	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	396453	49971789	9157194	1086	70166											
AP2A1	160	broad.mit.edu	37	chr19	50305853	50305853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgacccagctccagctgCtgagtaaggggtggcctggg	6	7	17	11	0	0	2	0	2	0	0	1	2	1	2	3	5	3	5	3	5	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:50305853C>T	uc002ppn.2	+	16	2388	c.2177C>T	c.(2176-2178)GCT>GTT	p.A726V	AP2A1_uc010enj.1_Intron|AP2A1_uc002ppo.2_Intron|AP2A1_uc002ppp.1_3'UTR|AP2A1_uc010enk.2_5'Flank	NM_014203	NP_055018	O95782	AP2A1_HUMAN	adaptor-related protein complex 2, alpha 1	726					axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|Golgi to endosome transport|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|clathrin coat of trans-Golgi network vesicle|cytosol	protein binding|protein transporter activity			ovary(2)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0023)|GBM - Glioblastoma multiforme(134;0.0157)		GCTCCAGCTGCTGAGTAAGGG	0.667													4	20					0	0	0.009096	0	0		T	50305853	T	T	50305853	3	4	127	1	0	0	0	0	1	0	0	0	739	797	28	2	2239	2	AP2A1	19	50305853	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	334064	50305853	8823130	1087	70167											
MYBPC2	4606	broad.mit.edu	37	chr19	50957409	50957409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaccccgtcggcgaggacGtggcttccatcttcctgcaa	7	8	10	16	4	1	0	0	0	1	0	4	2	3	1	5	3	2	2	5	3	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:50957409G>A	uc002psf.2	+	17	1933	c.1882G>A	c.(1882-1884)GTG>ATG	p.V628M		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	628	Ig-like C2-type 5.				cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		CGGCGAGGACGTGGCTTCCAT	0.627													10	20					0	0	0.008291	0	0		A	50957409	A	A	50957409	3	1	127	1	0	0	0	0	1	0	0	0	10030	1145	40	1	1948	1	MYBPC2	19	50957409	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	651556	50957409	8171574	1088	70168											
SIGLEC8	27181	broad.mit.edu	37	chr19	51955642	51955642	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctatgagaatcagcctctGacttctttgctggaggggtt	7	15	11	8	0	4	2	1	2	3	1	4	4	4	3	1	3	2	2	1	3	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:51955642G>A	uc002pwt.2	-	7	1558	c.1491C>T	c.(1489-1491)GTC>GTT	p.V497V	SIGLEC8_uc010yda.1_Silent_p.V388V|SIGLEC8_uc002pwu.2_Intron|SIGLEC8_uc010eox.2_Silent_p.V404V	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	497	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		ATCAGCCTCTGACTTCTTTGC	0.318													15	113					0	0	0.004007	0	0		A	51955642	A	A	51955642	2	1	127	1	0	0	0	0	0	0	0	1	14339	1277	45	4		4	SIGLEC8	19	51955642	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	998233	51955642	7173341	1089	70169											
PPP2R1A	5518	broad.mit.edu	37	chr19	52716250	52716250	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggcgtgcgtgaacatcGcccagcttctgccccaggag	7	7	14	13	3	1	1	0	1	1	0	2	3	1	3	3	3	4	1	3	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:52716250G>A	uc002pyp.2	+	6	853	c.694G>A	c.(694-696)GCC>ACC	p.A232T	PPP2R1A_uc010ydk.1_Missense_Mutation_p.A177T|PPP2R1A_uc010epm.1_Missense_Mutation_p.A272T|PPP2R1A_uc002pyq.2_Missense_Mutation_p.A53T	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	232	PP2A subunit B binding.|SV40 small T antigen binding.|HEAT 6.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		CGTGAACATCGCCCAGCTTCT	0.652			Mis		clear cell ovarian carcinoma								10	34					0	0	0.008291	0	0		A	52716250	A	A	52716250	3	1	127	1	0	0	0	0	1	0	0	0	12404	1087	38	1	716	1	PPP2R1A	19	52716250	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	760608	52716250	6412733	1090	70170											
ZNF845	91664	broad.mit.edu	37	chr19	53855284	53855284	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagctttcagtttcaaatcGaaccttgaaagacataggag	15	10	9	7	1	2	2	2	1	0	1	3	5	2	3	1	1	2	2	1	1	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:53855284G>A	uc010ydv.1	+	4	1473	c.1356G>A	c.(1354-1356)TCG>TCA	p.S452S	ZNF845_uc010ydw.1_Silent_p.S452S	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	452	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTTCAAATCGAACCTTGAAA	0.398													5	153					0	0	0.001168	0	0		A	53855284	A	A	53855284	2	1	127	1	0	0	0	0	0	0	0	1	18216	1045	37	1		1	ZNF845	19	53855284	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1139034	53855284	5273699	1091	70171											
NLRP12	91662	broad.mit.edu	37	chr19	54327438	54327438	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcgtagcatgggggtgccGtgagccccaaaggagaggac	9	6	17	9	2	0	2	0	1	0	1	1	4	0	3	3	4	3	3	3	4	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:54327438G>A	uc002qch.3	-	1	211	c.-9C>T	c.(-11--7)CACGG>CATGG		NLRP12_uc002qci.3_Translation_Start_Site|NLRP12_uc002qcj.3_Translation_Start_Site|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Translation_Start_Site	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform						negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		TGGGGGTGCCGTGAGCCCCAA	0.592													8	37					0	0	0.004482	0	0		A	54327438	A	A	54327438	1	1	127	1	0	0	0	0	0	0	0	0	10493	1160	40	1		1	NLRP12	19	54327438	Translation_Start_Site	SNP	G	TCGA-CG-4305-01A-01D-1158-08	472154	54327438	4801545	1092	70172											
LENG8	114823	broad.mit.edu	37	chr19	54968979	54968979	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggaaagagaagcaggaCtacgcgtttgcctgcgagca	12	6	13	10	3	0	1	0	0	0	1	0	5	0	3	1	2	5	3	1	2	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:54968979C>T	uc002qfv.1	+	11	1818	c.1674C>T	c.(1672-1674)GAC>GAT	p.D558D	LENG8_uc002qfw.2_Silent_p.D595D			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	558							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		AGAAGCAGGACTACGCGTTTG	0.567													35	113					0	0	0.003755	0	0		T	54968979	T	T	54968979	2	4	127	1	0	0	0	0	0	0	0	1	8740	564	20	4		4	LENG8	19	54968979	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	641541	54968979	4160004	1093	70173											
NLRP11	204801	broad.mit.edu	37	chr19	56303675	56303675	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagacttactgaagctcCtctaactgacaggttggaaa	12	10	11	8	0	1	3	0	2	1	1	2	5	2	4	1	3	3	2	1	3	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:56303675C>A	uc010ygf.1	-	9	3216	c.2505G>T	c.(2503-2505)GAG>GAT	p.E835D	NLRP11_uc002qlz.2_Missense_Mutation_p.E682D|NLRP11_uc002qmb.2_Missense_Mutation_p.E736D|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	835							ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		ACTGAAGCTCCTCTAACTGAC	0.483													32	102					2.48696e-23	2.81246e-23	0.003271	1	0		A	56303675	A	A	56303675	3	1	127	1	0	0	0	0	1	0	0	0	10492	680	24	5	612	5	NLRP11	19	56303675	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1334696	56303675	2825308	1094	70174											
ZNF71	58491	broad.mit.edu	37	chr19	57133765	57133765	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaagaactcctcgctcacGcagcaccagcgcatccacac	12	4	7	18	3	1	1	1	0	0	1	4	1	3	1	3	0	4	5	3	0	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:57133765G>A	uc002qnm.3	+	3	1348	c.1110G>A	c.(1108-1110)ACG>ACA	p.T370T		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	370	C2H2-type 9.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		CCTCGCTCACGCAGCACCAGC	0.617													13	73					0	0	0.001855	0	0		A	57133765	A	A	57133765	2	1	127	1	0	0	0	0	0	0	0	1	18139	1074	38	1		1	ZNF71	19	57133765	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	830090	57133765	1995218	1095	70175											
ZNF211	10520	broad.mit.edu	37	chr19	58152147	58152147	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaagagtgccacagttcaGgacttccaaagaaggttcat	15	8	10	8	0	2	3	2	0	0	3	3	4	3	4	2	2	1	2	2	2	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:58152147G>T	uc002qpq.2	+	3	473	c.293G>T	c.(292-294)AGG>ATG	p.R98M	ZNF211_uc010yhb.1_Missense_Mutation_p.R102M|ZNF211_uc002qpp.2_Missense_Mutation_p.R111M|ZNF211_uc002qpr.2_Missense_Mutation_p.R162M|ZNF211_uc002qps.2_Missense_Mutation_p.R163M|ZNF211_uc002qpt.2_Missense_Mutation_p.R110M|ZNF211_uc010yhc.1_Missense_Mutation_p.R110M|ZNF211_uc010yhd.1_Missense_Mutation_p.R37M|ZNF211_uc010yhe.1_Missense_Mutation_p.R89M	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	98	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CCACAGTTCAGGACTTCCAAA	0.438													15	73					7.93312e-07	8.30838e-07	0.00245	1	0		T	58152147	T	T	58152147	3	4	127	1	0	0	0	0	1	0	0	0	17792	1000	35	5	346	5	ZNF211	19	58152147	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1018382	58152147	976836	1096	70176											
ZSCAN22	342945	broad.mit.edu	37	chr19	58850593	58850593	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcaccagaggatccacacGggagagaagccttataagtg	14	5	13	9	1	0	2	0	0	0	2	1	6	1	4	3	2	2	1	3	2	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:58850593G>T	uc002qsc.2	+	3	1524	c.1377G>T	c.(1375-1377)ACG>ACT	p.T459T	ZSCAN22_uc010yhz.1_3'UTR	NM_181846	NP_862829	P10073	ZSC22_HUMAN	zinc finger and SCAN domain containing 22	459					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0289)		GGATCCACACGGGAGAGAAGC	0.532													18	64					2.39187e-15	2.67083e-15	0.008871	1	0		T	58850593	T	T	58850593	2	4	127	1	0	0	0	0	0	0	0	1	18259	1103	39	5		5	ZSCAN22	19	58850593	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	698446	58850593	278390	1097	70177											
ZNF446	55663	broad.mit.edu	37	chr19	58992029	58992029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgcagtgactgtggccGcgccttcgactggaagtcgc	5	10	13	13	4	1	1	0	1	1	0	3	3	1	2	2	2	1	1	2	2	1	2	rs142233722	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr19:58992029G>A	uc002qsz.2	+	7	1406	c.1289G>A	c.(1288-1290)CGC>CAC	p.R430H	ZNF446_uc002qta.2_3'UTR|ZNF446_uc010eur.2_3'UTR|SLC27A5_uc002qtb.2_RNA	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	430	C2H2-type 3.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		GACTGTGGCCGCGCCTTCGAC	0.652													4	23					0	0	0.006214	0	0		A	58992029	A	A	58992029	3	1	127	1	0	0	0	0	1	0	0	0	17944	1087	38	1	1311	1	ZNF446	19	58992029	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	141436	58992029	136954	1098	70178											
CSNK2A1	1457	broad.mit.edu	37	chr20	472991	472991	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgataaaactcagccaaaccCcagtctattagtcgtagctg	13	10	7	11	1	2	1	1	1	1	0	3	1	2	1	3	0	4	2	3	0	6	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:472991C>A	uc002wdw.1	-	9	921	c.528G>T	c.(526-528)TGG>TGT	p.W176C	CSNK2A1_uc002wdx.1_Missense_Mutation_p.W176C|CSNK2A1_uc002wdy.1_Missense_Mutation_p.W40C	NM_177559	NP_808227	P68400	CSK21_HUMAN	casein kinase II alpha 1 subunit isoform a	176	Protein kinase.				axon guidance|Wnt receptor signaling pathway	cytosol|NuRD complex|plasma membrane|Sin3 complex	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			ovary(1)	1		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)			CAGCCAAACCCCAGTCTATTA	0.393													13	65					1.3612e-06	1.42244e-06	0.003163	1	0		A	472991	A	A	472991	3	1	127	1	0	0	0	0	1	0	0	0	3960	624	22	5	671	5	CSNK2A1	20	472991	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08		472991	62552529	1099	70179											
C20orf54	113278	broad.mit.edu	37	chr20	745873	745873	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgcgatgtcagtctccctCgtgggtacagggcttggtac	5	12	14	10	2	2	0	1	0	1	0	4	1	2	0	1	3	3	3	1	3	2	3	rs139965967	byFrequency	TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:745873C>T	uc002wed.3	-	2	885	c.546G>A	c.(544-546)ACG>ACA	p.T182T	C20orf54_uc002wee.2_Silent_p.T182T	NM_033409	NP_212134	Q9NQ40	RFT2_HUMAN	hypothetical protein LOC113278 precursor	182					sensory perception of sound	integral to plasma membrane	riboflavin transporter activity			ovary(2)	2						CAGTCTCCCTCGTGGGTACAG	0.493													17	83					0	0	0.00499	0	0		T	745873	T	T	745873	2	4	127	1	0	0	0	0	0	0	0	1	2117	871	31	1		1	C20orf54	20	745873	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	272882	745873	62279647	1100	70180											
VPS16	64601	broad.mit.edu	37	chr20	2840753	2840753	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctagtgtgaggccagtgCtcgatatatactctgcttcc	7	13	10	11	1	1	1	0	1	1	0	3	2	2	1	2	1	4	3	2	1	4	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:2840753C>A	uc002whe.2	+	3	244	c.196C>A	c.(196-198)CTC>ATC	p.L66I	VPS16_uc002whh.2_5'Flank|VPS16_uc002whf.2_Missense_Mutation_p.L66I|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	66					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						GAGGCCAGTGCTCGATATATA	0.592													29	78					2.61193e-14	2.90283e-14	0.009535	1	0		A	2840753	A	A	2840753	3	1	127	1	0	0	0	0	1	0	0	0	17219	797	28	5	206	5	VPS16	20	2840753	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2094880	2840753	60184767	1101	70181											
PTPRA	5786	broad.mit.edu	37	chr20	2969091	2969091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaaccggagaatggcagacGacaataagctcttcagggag	14	7	12	8	2	2	2	1	0	1	2	2	5	2	3	1	3	2	2	1	3	4	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:2969091G>A	uc010zqd.1	+	8	1059	c.742G>A	c.(742-744)GAC>AAC	p.D248N	PTPRA_uc002whj.2_Missense_Mutation_p.D237N|PTPRA_uc010zqc.1_Missense_Mutation_p.D122N|PTPRA_uc002whk.2_Missense_Mutation_p.D228N|PTPRA_uc002whl.2_Missense_Mutation_p.D228N|PTPRA_uc002whm.2_Missense_Mutation_p.D4N|PTPRA_uc002whn.2_Missense_Mutation_p.D228N|PTPRA_uc002who.2_5'UTR	NM_002836	NP_002827	P18433	PTPRA_HUMAN	protein tyrosine phosphatase, receptor type, A	237	Cytoplasmic (Potential).				axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1						AATGGCAGACGACAATAAGCT	0.507													16	99					0	0	0.00499	0	0		A	2969091	A	A	2969091	3	1	127	1	0	0	0	0	1	0	0	0	12820	1058	37	1	731	1	PTPRA	20	2969091	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	128338	2969091	60056429	1102	70182											
MAVS	57506	broad.mit.edu	37	chr20	3838363	3838363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atacccttcagcggcggcccGgctgggtggagtacttcatt	6	10	13	12	3	2	0	2	0	0	0	2	1	2	1	2	5	3	2	2	5	2	5	rs142867936		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:3838363G>A	uc002wjw.3	+	3	368	c.199G>A	c.(199-201)GGC>AGC	p.G67S	MAVS_uc002wjv.2_Missense_Mutation_p.G67S|MAVS_uc010zqn.1_Missense_Mutation_p.G67S|MAVS_uc002wjx.3_Intron|MAVS_uc002wjy.3_5'UTR	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	67	Cytoplasmic (Probable).|Required for interaction with NLRX1.|CARD.			GWV->AAA: Impairs ability to induce IFN- beta.	activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0						GCGGCGGCCCGGCTGGGTGGA	0.612													22	94					0	0	0.010818	0	0		A	3838363	A	A	3838363	3	1	127	1	0	0	0	0	1	0	0	0	9356	1116	39	1	205	1	MAVS	20	3838363	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	869272	3838363	59187157	1103	70183											
PRNP	5621	broad.mit.edu	37	chr20	4680115	4680115	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggtggtggctggggacaGcctcatggtggtggctgggg	4	9	21	7	0	1	0	1	0	0	0	1	1	1	1	1	10	1	2	1	10	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:4680115G>A	uc002wku.2	+	2	612	c.249G>A	c.(247-249)CAG>CAA	p.Q83Q	PRNP_uc002wkv.2_Silent_p.Q83Q|PRNP_uc002wkw.2_Silent_p.Q83Q|PRNP_uc002wkx.2_Silent_p.Q83Q|PRNP_uc002wkt.1_Silent_p.Q83Q|PRNP_uc002wky.2_Silent_p.Q83Q|PRNP_uc010gbe.1_Silent_p.Q83Q	NM_001080122	NP_001073591	P04156	PRIO_HUMAN	prion protein preproprotein	83	Interaction with GRB2, ERI3 and SYN1 (By similarity).|5 X 8 AA tandem repeats of P-H-G-G-G-W-G- Q.|4.				axon guidance|cell cycle arrest|cellular copper ion homeostasis|metabolic process|negative regulation of activated T cell proliferation|negative regulation of calcineurin-NFAT signaling pathway|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-2 production|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell receptor signaling pathway|protein homooligomerization|response to oxidative stress	anchored to membrane|endoplasmic reticulum|extrinsic to membrane|Golgi apparatus|membrane raft|nucleus|plasma membrane	copper ion binding|identical protein binding|microtubule binding			central_nervous_system(1)	1					Tetracycline(DB00759)	GCTGGGGACAGCCTCATGGTG	0.647													5	33					0	0	0.001984	0	0		A	4680115	A	A	4680115	2	1	127	1	0	0	0	0	0	0	0	1	12566	962	34	2		2	PRNP	20	4680115	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	841752	4680115	58345405	1104	70184											
PRND	23627	broad.mit.edu	37	chr20	4705306	4705306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacagaatcaagtggaacCggaaggccctgcccagcact	13	4	11	13	1	1	1	1	0	0	1	1	3	1	3	3	3	4	2	3	3	4	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:4705306C>T	uc002wkz.2	+	2	180	c.109C>T	c.(109-111)CGG>TGG	p.R37W		NM_012409	NP_036541	Q9UKY0	PRND_HUMAN	prion-like protein doppel preproprotein	37	Flexible tail.				protein homooligomerization	anchored to membrane|plasma membrane					0						CAAGTGGAACCGGAAGGCCCT	0.617													26	84					0	0	0.005443	0	0		T	4705306	T	T	4705306	3	4	127	1	0	0	0	0	1	0	0	0	12565	643	23	1	111	1	PRND	20	4705306	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	25191	4705306	58320214	1105	70185											
GPCPD1	56261	broad.mit.edu	37	chr20	5579450	5579450	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagcatcacagcttccacAtatcgcaaaaacttctccta	15	9	3	14	1	2	0	1	0	1	0	5	0	3	0	2	0	3	3	2	0	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:5579450A>G	uc002wme.3	-	3	280	c.67T>C	c.(67-69)TGT>CGT	p.C23R		NM_019593	NP_062539	Q9NPB8	GPCP1_HUMAN	hypothetical protein LOC56261	23	CBM20.				glycerol metabolic process|lipid metabolic process		carbohydrate binding|glycerophosphodiester phosphodiesterase activity				0						CAGCTTCCACATATCGCAAAA	0.423													16	59					0	0	0.00499	0	0		G	5579450	G	G	5579450	3	3	127	1	0	0	0	0	1	0	0	0	6618	217	8	3	2023	3	GPCPD1	20	5579450	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	874144	5579450	57446070	1106	70186											
PLCB4	5332	broad.mit.edu	37	chr20	9438112	9438112	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagaaatcaaaattcagacGctgacatcagatcacaaatc	19	7	5	10	1	4	4	4	1	0	3	5	4	4	4	0	0	0	1	0	0	4	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:9438112G>A	uc002wnf.2	+	32	3148	c.3012G>A	c.(3010-3012)ACG>ACA	p.T1004T	PLCB4_uc010gbw.1_Silent_p.T1004T|PLCB4_uc010gbx.2_Silent_p.T1016T|PLCB4_uc002wne.2_Silent_p.T1004T|PLCB4_uc002wnh.2_Silent_p.T851T	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	1004					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						AAATTCAGACGCTGACATCAG	0.348													12	40					0	0	0.001855	0	0		A	9438112	A	A	9438112	2	1	127	1	0	0	0	0	0	0	0	1	12049	1074	38	1		1	PLCB4	20	9438112	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3858662	9438112	53587408	1107	70187											
TASP1	55617	broad.mit.edu	37	chr20	13463963	13463963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attctctagccagtatggtgCgcacaagatgctctccacat	10	11	8	12	1	2	1	0	0	2	1	4	1	2	1	2	1	3	3	2	1	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:13463963C>T	uc002woi.2	-	11	1013	c.896G>A	c.(895-897)CGC>CAC	p.R299H	TASP1_uc010zri.1_RNA|TASP1_uc002woh.2_Missense_Mutation_p.R276H|TASP1_uc010zrj.1_RNA	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	299					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						CAGTATGGTGCGCACAAGATG	0.433													16	126					0	0	0.005443	0	0		T	13463963	T	T	13463963	3	4	127	1	0	0	0	0	1	0	0	0	15614	768	27	1	382	1	TASP1	20	13463963	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4025851	13463963	49561557	1108	70188											
HM13	81502	broad.mit.edu	37	chr20	30126018	30126018	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcaacctcctgctgtccAtgtatttcttcgtgctggga	7	14	8	12	1	2	0	1	0	1	0	5	1	4	1	3	1	3	3	3	1	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:30126018A>G	uc002wwe.2	+	3	433	c.319A>G	c.(319-321)ATG>GTG	p.M107V	HM13_uc002wwc.2_Missense_Mutation_p.M107V|HM13_uc002wwd.2_Missense_Mutation_p.M107V|HM13_uc002wwb.1_Missense_Mutation_p.M107V	NM_030789	NP_110416	Q8TCT9	HM13_HUMAN	minor histocompatibility antigen 13 isoform 1	107	Helical; (Potential).				membrane protein proteolysis	cell surface|endoplasmic reticulum membrane|integral to membrane|plasma membrane	aspartic-type endopeptidase activity|protein binding			breast(1)	1	all_cancers(5;3.44e-05)|Lung NSC(7;4.38e-06)|all_lung(7;7.65e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		all cancers(5;0.000479)|Colorectal(19;0.00202)|COAD - Colon adenocarcinoma(19;0.0264)			CCTGCTGTCCATGTATTTCTT	0.473													28	159					0	0	0.012213	0	0		G	30126018	G	G	30126018	3	3	127	1	0	0	0	0	1	0	0	0	7233	217	8	3	329	3	HM13	20	30126018	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	16662055	30126018	32899502	1109	70189											
TTLL9	164395	broad.mit.edu	37	chr20	30521638	30521638	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtggctgtgcaaaaaacaTctcccgactaccacccaaag	14	6	7	14	2	1	0	0	0	1	0	2	1	1	0	3	1	3	2	3	1	5	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:30521638T>C	uc010gdx.1	+	11	1037	c.784T>C	c.(784-786)TCT>CCT	p.S262P	TTLL9_uc002wwy.1_RNA|TTLL9_uc002wwz.1_RNA|TTLL9_uc002wxa.1_RNA|TTLL9_uc002wxb.1_RNA|TTLL9_uc010zto.1_RNA|TTLL9_uc002wxc.2_Missense_Mutation_p.S164P|TTLL9_uc010ztp.1_RNA|TTLL9_uc010ztq.1_RNA	NM_001008409	NP_001008409	Q3SXZ7	TTLL9_HUMAN	tubulin tyrosine ligase-like family, member 9	262	TTL.				protein modification process	cilium|microtubule|microtubule basal body	ATP binding|tubulin-tyrosine ligase activity			ovary(2)	2			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			GCAAAAAACATCTCCCGACTA	0.607													7	47					0	0	0.006214	0	0		C	30521638	C	C	30521638	3	2	127	1	0	0	0	0	1	0	0	0	16760	1435	50	3	822	3	TTLL9	20	30521638	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	395620	30521638	32503882	1110	70190											
KIF3B	9371	broad.mit.edu	37	chr20	30904022	30904022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tactttgtttctcactcaggCcatggagagtaagttgcttg	8	15	10	8	0	2	1	2	0	1	1	3	2	2	1	1	2	2	4	1	2	2	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:30904022C>T	uc002wxq.2	+	3	1573	c.1406C>T	c.(1405-1407)GCC>GTC	p.A469V	KIF3B_uc010ztw.1_Missense_Mutation_p.A407V	NM_004798	NP_004789	O15066	KIF3B_HUMAN	kinesin family member 3B	469	Potential.				anterograde axon cargo transport|blood coagulation|determination of left/right symmetry|mitotic centrosome separation|plus-end-directed vesicle transport along microtubule|spindle assembly involved in mitosis	centrosome|cytosol|kinesin II complex|plus-end kinesin complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|Rho GTPase binding			central_nervous_system(3)|ovary(2)	5			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CTCACTCAGGCCATGGAGAGT	0.428													33	151					0	0	0.013726	0	0		T	30904022	T	T	30904022	3	4	127	1	0	0	0	0	1	0	0	0	8317	753	26	2	1412	2	KIF3B	20	30904022	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	382384	30904022	32121498	1111	70191											
ZNF341	84905	broad.mit.edu	37	chr20	32332958	32332958	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtaagaagcaattcaactcGctgccagcgtttatgaccca	12	10	8	11	2	1	2	1	1	0	1	2	2	1	2	2	0	4	4	2	0	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:32332958G>A	uc002wzy.2	+	3	212	c.192G>A	c.(190-192)TCG>TCA	p.S64S	ZNF341_uc002wzx.2_Silent_p.S64S|ZNF341_uc010geq.2_Intron|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	64	C2H2-type 1; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						AATTCAACTCGCTGCCAGCGT	0.562													23	100					0	0	0.004656	0	0		A	32332958	A	A	32332958	2	1	127	1	0	0	0	0	0	0	0	1	17882	1074	38	1		1	ZNF341	20	32332958	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1428936	32332958	30692562	1112	70192											
NCOA6	23054	broad.mit.edu	37	chr20	33342667	33342667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtgggaggcgtttaggCattccttaatagaaaacaat	13	10	11	7	1	0	1	0	0	0	1	1	2	1	2	2	4	1	2	2	4	6	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:33342667C>T	uc002xav.2	-	9	4104	c.1533G>A	c.(1531-1533)ATG>ATA	p.M511I	NCOA6_uc002xaw.2_Missense_Mutation_p.M511I	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	511	TBP/GTF2A-binding region.|NCOA1-binding region.|Gln-rich.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						GGCGTTTAGGCATTCCTTAAT	0.463													9	57					0	0	0.004482	0	0		T	33342667	T	T	33342667	3	4	127	1	0	0	0	0	1	0	0	0	10252	710	25	2	4690	2	NCOA6	20	33342667	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1009709	33342667	29682853	1113	70193											
CPNE1	8904	broad.mit.edu	37	chr20	34218826	34218826	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagcaggtactcacgagTcatagtcctgaaccacgctg	12	7	11	11	2	2	2	2	1	0	1	3	4	3	2	2	1	3	3	2	1	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:34218826T>C	uc002xdf.2	-	13	1355	c.992A>G	c.(991-993)GAC>GGC	p.D331G	CPNE1_uc002xdc.2_5'UTR|CPNE1_uc010zvj.1_Missense_Mutation_p.D336G|CPNE1_uc002xde.2_Missense_Mutation_p.D307G|CPNE1_uc002xdg.2_Missense_Mutation_p.D331G|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Missense_Mutation_p.D331G|CPNE1_uc002xdi.2_Missense_Mutation_p.D331G|CPNE1_uc002xdj.2_Missense_Mutation_p.D331G|CPNE1_uc002xdk.2_Missense_Mutation_p.D331G|CPNE1_uc002xdl.2_Missense_Mutation_p.D331G|CPNE1_uc002xdm.2_Missense_Mutation_p.D331G|CPNE1_uc010gfk.1_3'UTR	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	331	VWFA.				lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			TACTCACGAGTCATAGTCCTG	0.562													24	140					0	0	0.00632	0	0		C	34218826	C	C	34218826	3	2	127	1	0	0	0	0	1	0	0	0	3814	1667	58	3	645	3	CPNE1	20	34218826	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	876159	34218826	28806694	1114	70194											
C20orf117	140710	broad.mit.edu	37	chr20	35433186	35433186	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctctgtctcccaggtagcCttggccttggcaaactgttg	5	12	11	13	1	2	0	0	0	2	0	3	0	2	0	3	3	2	4	3	3	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:35433186C>A	uc002xgd.1	-	10	2652	c.2325G>T	c.(2323-2325)AAG>AAT	p.K775N	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	775											0		Myeloproliferative disorder(115;0.00874)				CCCAGGTAGCCTTGGCCTTGG	0.617													5	85					0.000602214	0.00061524	0.000602	1	0		A	35433186	A	A	35433186	3	1	127	1	0	0	0	0	1	0	0	0	2086	680	24	5	2032	5	C20orf117	20	35433186	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1214360	35433186	27592334	1115	70195											
RPRD1B	58490	broad.mit.edu	37	chr20	36686021	36686021	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggcagctactctcctcAggatccttctgcaggacccc	6	9	8	18	0	3	0	1	0	2	0	5	2	4	2	5	3	3	3	5	3	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:36686021A>G	uc002xho.3	+	4	905	c.503A>G	c.(502-504)CAG>CGG	p.Q168R		NM_021215	NP_067038	Q9NQG5	RPR1B_HUMAN	Regulation of nuclear pre-mRNA domain containing	168										pancreas(1)	1						TACTCTCCTCAGGATCCTTCT	0.493											OREG0025919	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	74					0	0	0.00245	0	0		G	36686021	G	G	36686021	3	3	127	1	0	0	0	0	1	0	0	0	13641	188	7	3	517	3	RPRD1B	20	36686021	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1252835	36686021	26339499	1116	70196											
SLC32A1	140679	broad.mit.edu	37	chr20	37356284	37356284	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccatagccaacgcctgcTgcgccccgcgcttcccaacg	6	6	10	19	5	0	0	0	0	0	0	1	0	1	0	6	1	5	2	6	1	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:37356284T>G	uc002xjc.2	+	2	843	c.580T>G	c.(580-582)TGC>GGC	p.C194G		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	194	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CAACGCCTGCTGCGCCCCGCG	0.632													5	53					0	0	0.00308	0	0		G	37356284	G	G	37356284	3	3	127	1	0	0	0	0	1	0	0	0	14590	1580	55	5	586	5	SLC32A1	20	37356284	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	670263	37356284	25669236	1117	70197											
CHD6	84181	broad.mit.edu	37	chr20	40102126	40102126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcctggcgcaggtttccccGtactcgcccatcaattcgct	5	11	9	16	4	1	0	1	0	0	0	4	0	2	0	4	2	2	4	4	2	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:40102126G>A	uc002xka.1	-	17	2678	c.2500C>T	c.(2500-2502)CGG>TGG	p.R834W	CHD6_uc002xkd.2_Missense_Mutation_p.R812W	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	834	Helicase C-terminal.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				AGGTTTCCCCGTACTCGCCCA	0.532													19	81					0	0	0.006122	0	0		A	40102126	A	A	40102126	3	1	127	1	0	0	0	0	1	0	0	0	3332	1144	40	1	5731	1	CHD6	20	40102126	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2745842	40102126	22923394	1118	70198											
PTPRT	11122	broad.mit.edu	37	chr20	40713354	40713354	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtacgtccctccctcccGtcatactgctcctgccactt	6	11	5	19	2	1	0	1	0	0	0	5	0	5	0	5	0	4	2	5	0	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:40713354G>A	uc002xkg.2	-	29	4288	c.4104C>T	c.(4102-4104)GAC>GAT	p.D1368D	PTPRT_uc010ggj.2_Silent_p.D1387D|PTPRT_uc010ggi.2_Silent_p.D571D	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1368	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CCTCCCTCCCGTCATACTGCT	0.602													7	27					0	0	0.001984	0	0		A	40713354	A	A	40713354	2	1	127	1	0	0	0	0	0	0	0	1	12837	1136	40	1		1	PTPRT	20	40713354	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	611228	40713354	22312166	1119	70199											
PTPRT	11122	broad.mit.edu	37	chr20	40747077	40747077	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtttgtgaccatgacgAtgctggcggagttctcctgc	6	11	13	11	2	1	2	0	2	1	0	2	4	1	3	3	3	2	3	3	3	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:40747077A>G	uc002xkg.2	-	21	3132	c.2948T>C	c.(2947-2949)ATC>ACC	p.I983T	PTPRT_uc010ggj.2_Missense_Mutation_p.I1002T|PTPRT_uc010ggi.2_Missense_Mutation_p.I186T	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	983	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GACCATGACGATGCTGGCGGA	0.517													16	78					0	0	0.014323	0	0		G	40747077	G	G	40747077	3	3	127	1	0	0	0	0	1	0	0	0	12837	333	12	3	1421	3	PTPRT	20	40747077	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	33723	40747077	22278443	1120	70200											
WISP2	8839	broad.mit.edu	37	chr20	43355865	43355865	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaccagaaccgcttctgcCgactggagacccagcgccgc	9	4	10	18	4	1	2	0	0	1	2	1	4	1	2	6	1	4	1	6	1	2	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:43355865C>T	uc002xmn.2	+	5	1023	c.670C>T	c.(670-672)CGA>TGA	p.R224*	uc002xml.1_Intron|uc002xmm.1_Intron|WISP2_uc002xmp.2_Nonsense_Mutation_p.R224*|WISP2_uc002xmq.2_Silent_p.A141A	NM_003881	NP_003872	O76076	WISP2_HUMAN	WNT1 inducible signaling pathway protein 2	224	TSP type-1.				cell adhesion|cell-cell signaling|signal transduction	extracellular region|soluble fraction	insulin-like growth factor binding			skin(1)	1		Myeloproliferative disorder(115;0.0122)				CCGCTTCTGCCGACTGGAGAC	0.677													10	53					0	0	0.00245	0	0		T	43355865	T	T	43355865	4	4	127	1	0	0	0	0	0	1	0	0	17399	644	23	1	684	1	WISP2	20	43355865	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2608788	43355865	19669655	1121	70201											
PABPC1L	80336	broad.mit.edu	37	chr20	43566708	43566708	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgttccacacaggggagcGtctctacccccttatccatg	7	10	10	14	1	1	0	0	0	1	0	4	1	3	1	4	3	2	1	4	3	2	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:43566708G>A	uc010ggv.1	+	13	1734	c.1652G>A	c.(1651-1653)CGT>CAT	p.R551H	PABPC1L_uc010zwq.1_RNA|PABPC1L_uc002xmv.2_RNA|PABPC1L_uc002xmw.2_Missense_Mutation_p.R105H|PABPC1L_uc002xmx.2_Missense_Mutation_p.R105H	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	551	PABC.						nucleotide binding|RNA binding			ovary(1)	1						ACAGGGGAGCGTCTCTACCCC	0.577													6	45					0	0	0.001168	0	0		A	43566708	A	A	43566708	3	1	127	1	0	0	0	0	1	0	0	0	11383	1145	40	1	1702	1	PABPC1L	20	43566708	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	210843	43566708	19458812	1122	70202											
KCNS1	3787	broad.mit.edu	37	chr20	43727255	43727255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgccacccacgttcacgCgcagcgcctcgtcgcttcgc	5	6	10	20	8	1	0	1	0	0	0	4	0	1	0	3	0	1	4	3	0	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:43727255C>T	uc002xnc.2	-	4	555	c.158G>A	c.(157-159)CGC>CAC	p.R53H	KCNS1_uc002xnd.2_Missense_Mutation_p.R53H	NM_002251	NP_002242	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel	53	Cytoplasmic (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity|protein binding				0		Myeloproliferative disorder(115;0.0122)				CACGTTCACGCGCAGCGCCTC	0.751													4	6					0	0	0.000602	0	0		T	43727255	T	T	43727255	3	4	127	1	0	0	0	0	1	0	0	0	8104	768	27	1	1430	1	KCNS1	20	43727255	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	160547	43727255	19298265	1123	70203											
SLC2A10	81031	broad.mit.edu	37	chr20	45354636	45354636	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcctcgtcagctttgccGtgcccatggactcaggccca	6	9	11	15	2	2	0	2	0	0	0	3	1	2	1	4	3	3	1	4	3	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:45354636G>A	uc002xsl.2	+	2	1058	c.961G>A	c.(961-963)GTG>ATG	p.V321M		NM_030777	NP_110404	O95528	GTR10_HUMAN	solute carrier family 2 member 10	321	Extracellular (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CAGCTTTGCCGTGCCCATGGA	0.657													12	71					0	0	0.00499	0	0		A	45354636	A	A	45354636	3	1	127	1	0	0	0	0	1	0	0	0	14564	1145	40	1	967	1	SLC2A10	20	45354636	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1627381	45354636	17670884	1124	70204											
NCOA3	8202	broad.mit.edu	37	chr20	46251037	46251037	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccactggccagtgattcaCgaaaacgcaaattgccatgt	13	9	8	11	2	1	1	1	1	0	0	2	2	2	1	3	1	2	1	3	1	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:46251037C>T	uc002xtk.2	+	3	251	c.46C>T	c.(46-48)CGA>TGA	p.R16*	NCOA3_uc010ght.1_Nonsense_Mutation_p.R16*|NCOA3_uc002xtl.2_Nonsense_Mutation_p.R16*|NCOA3_uc002xtm.2_Nonsense_Mutation_p.R16*|NCOA3_uc002xtn.2_Nonsense_Mutation_p.R16*	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	16					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						CAGTGATTCACGAAAACGCAA	0.383													14	109					0	0	0.006122	0	0		T	46251037	T	T	46251037	4	4	127	1	0	0	0	0	0	1	0	0	10249	528	19	1	48	1	NCOA3	20	46251037	Nonsense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	896401	46251037	16774483	1125	70205											
ARFGEF2	10564	broad.mit.edu	37	chr20	47630223	47630223	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatagatgcaagttagatgtAcgaacaaggtaaccatgttc	16	10	9	6	1	0	2	0	0	0	2	1	3	0	2	1	1	4	5	1	1	8	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:47630223A>G	uc002xtx.3	+	29	4193	c.4041A>G	c.(4039-4041)GTA>GTG	p.V1347V	ARFGEF2_uc010zyf.1_Silent_p.V640V	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1347					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			AGTTAGATGTACGAACAAGGT	0.488													21	97					0	0	0.008871	0	0		G	47630223	G	G	47630223	2	3	127	1	0	0	0	0	0	0	0	1	853	378	14	3		3	ARFGEF2	20	47630223	Silent	SNP	A	TCGA-CG-4305-01A-01D-1158-08	1379186	47630223	15395297	1126	70206											
ZNFX1	57169	broad.mit.edu	37	chr20	47886982	47886982	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgaagttgtccttggacAtgcataccaaagacccatag	12	10	8	11	1	1	1	0	0	1	1	3	3	2	2	3	1	2	2	3	1	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:47886982A>G	uc002xui.2	-	3	1614	c.1367T>C	c.(1366-1368)ATG>ACG	p.M456T		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	456							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GTCCTTGGACATGCATACCAA	0.458													56	252					0	0	0.01441	0	0		G	47886982	G	G	47886982	3	3	127	1	0	0	0	0	1	0	0	0	18230	217	8	3	4437	3	ZNFX1	20	47886982	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	256759	47886982	15138538	1127	70207											
NFATC2	4773	broad.mit.edu	37	chr20	50133480	50133480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcaagtggagggagggatGcagtcactgggatgctaaag	12	7	16	6	0	2	0	2	0	0	0	2	4	2	4	0	4	2	2	0	4	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:50133480G>A	uc002xwd.2	-	3	1395	c.1175C>T	c.(1174-1176)GCA>GTA	p.A392V	NFATC2_uc002xwc.2_Missense_Mutation_p.A392V|NFATC2_uc010zyv.1_Missense_Mutation_p.A173V|NFATC2_uc010zyw.1_Missense_Mutation_p.A173V|NFATC2_uc010zyx.1_Missense_Mutation_p.A372V|NFATC2_uc010zyy.1_Missense_Mutation_p.A173V|NFATC2_uc010zyz.1_Missense_Mutation_p.A173V|NFATC2_uc002xwe.2_Missense_Mutation_p.A372V	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	392	RHD.				B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					AGGGAGGGATGCAGTCACTGG	0.493													6	29					0	0	0.004482	0	0		A	50133480	A	A	50133480	3	1	127	1	0	0	0	0	1	0	0	0	10381	1319	46	2	1682	2	NFATC2	20	50133480	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2246498	50133480	12892040	1128	70208											
ZFP64	55734	broad.mit.edu	37	chr20	50769032	50769032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtggtcagcaggacagccgGctgggtcattgcgcccgcct	5	7	16	13	3	2	0	2	0	0	0	2	1	2	1	3	5	3	2	3	5	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:50769032G>A	uc002xwl.2	-	6	2048	c.1699C>T	c.(1699-1701)CCG>TCG	p.P567S	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.P565S|ZFP64_uc002xwn.2_Missense_Mutation_p.P513S	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	567					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						AGGACAGCCGGCTGGGTCATT	0.682													17	67					0	0	0.010504	0	0		A	50769032	A	A	50769032	3	1	127	1	0	0	0	0	1	0	0	0	17677	1203	42	2	1541	2	ZFP64	20	50769032	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	635552	50769032	12256488	1129	70209											
ZFP64	55734	broad.mit.edu	37	chr20	50769441	50769441	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccgcatgaaggaggcatcGcatatatcgcagtggaaact	12	8	11	10	3	0	1	0	1	0	0	3	3	1	3	1	3	1	4	1	3	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:50769441G>A	uc002xwl.2	-	6	1639	c.1290C>T	c.(1288-1290)TGC>TGT	p.C430C	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Silent_p.C428C|ZFP64_uc002xwn.2_Silent_p.C376C	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	430	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						AGGAGGCATCGCATATATCGC	0.562													17	51					0	0	0.008871	0	0		A	50769441	A	A	50769441	2	1	127	1	0	0	0	0	0	0	0	1	17677	1079	38	1		1	ZFP64	20	50769441	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	409	50769441	12256079	1130	70210											
BCAS1	8537	broad.mit.edu	37	chr20	52645024	52645024	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttggcttcctgttggctGtcacctggcaccttttcctg	2	16	9	14	0	2	0	1	0	1	0	4	0	4	0	4	3	0	4	4	3	0	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:52645024G>A	uc002xws.2	-	4	968	c.630C>T	c.(628-630)GAC>GAT	p.D210D	BCAS1_uc010zzb.1_Silent_p.D113D|BCAS1_uc010gim.2_Silent_p.D113D|BCAS1_uc002xwt.2_Silent_p.D210D|BCAS1_uc010gil.1_Silent_p.D210D|BCAS1_uc010zzc.1_Silent_p.D113D	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	210						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			CCTGTTGGCTGTCACCTGGCA	0.547													92	367					0	0	0.01441	0	0		A	52645024	A	A	52645024	2	1	127	1	0	0	0	0	0	0	0	1	1351	1368	48	4		4	BCAS1	20	52645024	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1875583	52645024	10380496	1131	70211											
MC3R	4159	broad.mit.edu	37	chr20	54824345	54824345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacgtcaccatcttttacgCgctccgctaccacagcatca	9	10	6	16	4	3	0	2	0	1	0	4	0	4	0	3	0	4	4	3	0	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:54824345C>T	uc002xxb.2	+	1	558	c.446C>T	c.(445-447)GCG>GTG	p.A149V		NM_019888	NP_063941	P41968	MC3R_HUMAN	melanocortin 3 receptor	186	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|protein binding			ovary(2)|breast(2)	4			Colorectal(105;0.202)			ATCTTTTACGCGCTCCGCTAC	0.582													23	120					0	0	0.00278	0	0		T	54824345	T	T	54824345	3	4	127	1	0	0	0	0	1	0	0	0	9383	768	27	1	448	1	MC3R	20	54824345	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2179321	54824345	8201175	1132	70212											
CTSZ	1522	broad.mit.edu	37	chr20	57571762	57571762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgatgccccacccagccaCagaaacgacatggtttatat	13	8	7	13	1	0	2	0	1	0	1	0	3	0	2	4	1	3	1	4	1	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:57571762C>T	uc002yai.2	-	5	859	c.733G>A	c.(733-735)GTG>ATG	p.V245M	CTSZ_uc002yaj.3_Missense_Mutation_p.V245M	NM_001336	NP_001327	Q9UBR2	CATZ_HUMAN	cathepsin Z preproprotein	245					proteolysis	endoplasmic reticulum|extracellular space|lysosome	cysteine-type endopeptidase activity			kidney(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)			CACCCAGCCACAGAAACGACA	0.468													5	142					0	0	0.000602	0	0		T	57571762	T	T	57571762	3	4	127	1	0	0	0	0	1	0	0	0	4046	478	17	4	186	4	CTSZ	20	57571762	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2747417	57571762	5453758	1133	70213											
ZNF831	128611	broad.mit.edu	37	chr20	57766684	57766684	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacaactcccggctgtccTcagagtccgagggcgccggg	7	6	13	15	4	2	1	2	0	0	1	5	2	5	1	4	3	2	1	4	3	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:57766684T>A	uc002yan.2	+	1	610	c.610T>A	c.(610-612)TCA>ACA	p.S204T		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	204						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CCGGCTGTCCTCAGAGTCCGA	0.677													18	113					0	0	0.008871	0	0		A	57766684	A	A	57766684	3	1	127	1	0	0	0	0	1	0	0	0	18210	1551	54	5	612	5	ZNF831	20	57766684	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	194922	57766684	5258836	1134	70214											
PHACTR3	116154	broad.mit.edu	37	chr20	58348477	58348477	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcattgaggagctgcacAgggcgctggccacgaagcac	9	5	15	12	3	1	1	1	1	0	0	1	3	1	2	1	3	3	4	1	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:58348477A>G	uc002yau.2	+	6	1362	c.895A>G	c.(895-897)AGG>GGG	p.R299G	PHACTR3_uc002yat.2_Missense_Mutation_p.R296G|PHACTR3_uc010zzw.1_Missense_Mutation_p.R258G|PHACTR3_uc002yav.2_Missense_Mutation_p.R258G|PHACTR3_uc002yaw.2_Missense_Mutation_p.R258G|PHACTR3_uc002yax.2_Missense_Mutation_p.R188G	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	299						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			GGAGCTGCACAGGGCGCTGGC	0.687													4	23					0	0	0.00308	0	0		G	58348477	G	G	58348477	3	3	127	1	0	0	0	0	1	0	0	0	11830	179	7	3	917	3	PHACTR3	20	58348477	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	581793	58348477	4677043	1135	70215											
SYCP2	10388	broad.mit.edu	37	chr20	58457178	58457178	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagaagtaacattaacaaAggtagtcttcagttttctgt	13	15	7	6	0	4	1	2	0	2	1	4	1	4	1	0	1	2	3	0	1	5	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:58457178A>C	uc002yaz.2	-	26	2711	c.2572T>G	c.(2572-2574)TTT>GTT	p.F858V		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	858					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			ACATTAACAAAGGTAGTCTTC	0.199													4	30					0	0	0.009096	0	0		C	58457178	C	C	58457178	3	2	127	1	0	0	0	0	1	0	0	0	15457	72	3	5	2096	5	SYCP2	20	58457178	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	108701	58457178	4568342	1136	70216											
SYCP2	10388	broad.mit.edu	37	chr20	58490556	58490556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggttagagagtattttcCgggcatcttgaggcattttg	7	16	12	6	1	1	2	0	1	1	1	2	3	2	2	1	3	0	4	1	3	2	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:58490556C>T	uc002yaz.2	-	8	702	c.563G>A	c.(562-564)CGG>CAG	p.R188Q	SYCP2_uc010gju.1_Missense_Mutation_p.R89Q	NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	188					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			GAGTATTTTCCGGGCATCTTG	0.274													19	148					0	0	0.010504	0	0		T	58490556	T	T	58490556	3	4	127	1	0	0	0	0	1	0	0	0	15457	652	23	1	4177	1	SYCP2	20	58490556	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	33378	58490556	4534964	1137	70217											
C20orf177	63939	broad.mit.edu	37	chr20	58519297	58519297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaagtgatctctctgattCggaaagaattcccattcctc	10	13	7	11	1	2	3	0	2	2	1	7	4	4	4	2	1	1	1	2	1	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:58519297C>T	uc002yba.2	+	5	714	c.299C>T	c.(298-300)TCG>TTG	p.S100L	C20orf177_uc010zzx.1_Intron|C20orf177_uc002ybc.2_Missense_Mutation_p.S100L	NM_022106	NP_071389	Q9NTX9	CT177_HUMAN	hypothetical protein LOC63939	100										ovary(2)|breast(1)	3	all_lung(29;0.00693)		BRCA - Breast invasive adenocarcinoma(7;1.22e-08)			CTCTCTGATTCGGAAAGAATT	0.428													17	106					0	0	0.00499	0	0		T	58519297	T	T	58519297	3	4	127	1	0	0	0	0	1	0	0	0	2099	893	31	1	301	1	C20orf177	20	58519297	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	28741	58519297	4506223	1138	70218											
OGFR	11054	broad.mit.edu	37	chr20	61441914	61441914	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctcacgctcagggaggtCgaggtgagccaggccttggc	6	6	15	14	2	2	1	2	1	0	0	3	3	2	2	4	5	1	1	4	5	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:61441914C>T	uc002ydj.2	+	5	497	c.462C>T	c.(460-462)GTC>GTT	p.V154V	OGFR_uc002ydk.2_Silent_p.V137V|OGFR_uc002ydl.2_Silent_p.V102V	NM_007346	NP_031372	Q9NZT2	OGFR_HUMAN	opioid growth factor receptor	154					regulation of cell growth	cytoplasm|membrane|nucleus	opioid receptor activity				0	Breast(26;3.65e-08)					TCAGGGAGGTCGAGGTGAGCC	0.622													10	74					0	0	0.013537	0	0		T	61441914	T	T	61441914	2	4	127	1	0	0	0	0	0	0	0	1	10862	871	31	1		1	OGFR	20	61441914	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2922617	61441914	1583606	1139	70219											
PRIC285	85441	broad.mit.edu	37	chr20	62203577	62203577	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgcgcagtggttctcgaaGgcctcctgagagtggcaggt	7	9	16	9	2	1	1	0	1	1	1	3	4	2	1	2	4	1	3	2	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:62203577G>T	uc002yfm.2	-	2	1054	c.162C>A	c.(160-162)GCC>GCA	p.A54A	PRIC285_uc002yfn.2_Silent_p.A54A	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	54	C2H2-type; atypical.				cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			GGTTCTCGAAGGCCTCCTGAG	0.701													4	14					2.56e-06	2.67319e-06	0.009096	1	0		T	62203577	T	T	62203577	2	4	127	1	0	0	0	0	0	0	0	1	12507	987	35	5		5	PRIC285	20	62203577	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	761663	62203577	821943	1140	70220											
SLC2A4RG	56731	broad.mit.edu	37	chr20	62373487	62373487	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgttgctgcagagccCggcccaggtcatgttccagt	5	9	12	15	1	1	1	1	0	0	1	2	1	2	1	5	2	3	4	5	2	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:62373487C>T	uc002ygq.2	+	5	639	c.584C>T	c.(583-585)CCG>CTG	p.P195L	SLC2A4RG_uc002ygr.2_Missense_Mutation_p.P90L|SLC2A4RG_uc011abj.1_Missense_Mutation_p.P90L|SLC2A4RG_uc002ygs.2_5'UTR|SLC2A4RG_uc002ygt.2_5'UTR	NM_020062	NP_064446	Q9NR83	S2A4R_HUMAN	SLC2A4 regulator	195						cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					CTGCAGAGCCCGGCCCAGGTC	0.677													3	10					0	0	0.009096	0	0		T	62373487	T	T	62373487	3	4	127	1	0	0	0	0	1	0	0	0	14572	652	23	1	602	1	SLC2A4RG	20	62373487	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	169910	62373487	652033	1141	70221											
OPRL1	4987	broad.mit.edu	37	chr20	62729726	62729726	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttcatcgtccccgtgctCgtcatctctgtctgctacag	4	14	7	16	3	4	0	2	0	2	0	9	0	6	0	3	0	3	2	3	0	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr20:62729726C>T	uc002yic.2	+	5	1089	c.687C>T	c.(685-687)CTC>CTT	p.L229L	OPRL1_uc002yid.2_Silent_p.L229L|OPRL1_uc002yif.3_Silent_p.L224L	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	229	Helical; Name=5; (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					TCCCCGTGCTCGTCATCTCTG	0.617													24	183					0	0	0.005443	0	0		T	62729726	T	T	62729726	2	4	127	1	0	0	0	0	0	0	0	1	10905	871	31	1		1	OPRL1	20	62729726	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	356239	62729726	295794	1142	70222											
NRIP1	8204	broad.mit.edu	37	chr21	16339612	16339612	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttcttgcaatctggccAtagcagcaagtctttcactt	9	15	6	11	0	4	0	1	0	3	0	4	0	4	0	1	1	3	3	1	1	3	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr21:16339612A>G	uc002yjx.2	-	4	1500	c.902T>C	c.(901-903)ATG>ACG	p.M301T		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	301	Repression domain 1.				androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		CAATCTGGCCATAGCAGCAAG	0.443													12	66					0	0	0.001855	0	0		G	16339612	G	G	16339612	3	3	127	1	0	0	0	0	1	0	0	0	10671	217	8	3	2578	3	NRIP1	21	16339612	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08		16339612	31790283	1143	70223											
MRPL39	54148	broad.mit.edu	37	chr21	26979736	26979736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccatttgatcccgccaccggGtgcgaccagccagagccgca	8	5	11	17	4	0	2	0	1	0	1	1	3	1	2	7	1	3	1	7	1	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr21:26979736G>A	uc002ylo.2	-	1	66	c.52C>T	c.(52-54)CCC>TCC	p.P18S	MRPL39_uc002yln.2_Missense_Mutation_p.P18S	NM_017446	NP_059142	Q9NYK5	RM39_HUMAN	mitochondrial ribosomal protein L39 isoform a	18						mitochondrial ribosome	nucleotide binding				0						CCGCCACCGGGTGCGACCAGC	0.662											OREG0026146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	38					0	0	0.00245	0	0		A	26979736	A	A	26979736	3	1	127	1	0	0	0	0	1	0	0	0	9820	1261	44	4	1097	4	MRPL39	21	26979736	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	10640124	26979736	21150159	1144	70224											
ADAMTS5	11096	broad.mit.edu	37	chr21	28338229	28338229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggctttagggtgtagcgcGcgtgcttgaccgcgaagaag	7	9	17	8	5	0	2	0	1	0	1	0	3	0	2	1	2	2	3	1	2	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr21:28338229G>A	uc002ymg.2	-	1	1211	c.482C>T	c.(481-483)GCG>GTG	p.A161V		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	161					proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						GGTGTAGCGCGCGTGCTTGAC	0.642													4	17					0	0	0.000602	0	0		A	28338229	A	A	28338229	3	1	127	1	0	0	0	0	1	0	0	0	269	1087	38	1	2342	1	ADAMTS5	21	28338229	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1358493	28338229	19791666	1145	70225											
IFNAR2	3455	broad.mit.edu	37	chr21	34635606	34635606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaagcccctctgatgctatCgtctcatctggaagagatgg	10	10	11	10	1	3	3	1	1	3	2	5	5	3	4	2	2	2	1	2	2	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr21:34635606C>T	uc002yrd.2	+	9	1677	c.1349C>T	c.(1348-1350)TCG>TTG	p.S450L	IFNAR2_uc002yre.2_Missense_Mutation_p.S450L|IFNAR2_uc002yrf.2_3'UTR|IL10RB_uc002yrh.1_Intron|IL10RB_uc002yri.1_Intron	NM_207585	NP_997468	P48551	INAR2_HUMAN	interferon alpha/beta receptor 2 isoform a	450	Cytoplasmic (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to interferon-alpha|response to virus|type I interferon-mediated signaling pathway	extracellular region|extracellular space|integral to plasma membrane	protein kinase binding|type I interferon binding|type I interferon receptor activity				0					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	CTGATGCTATCGTCTCATCTG	0.493													22	455					0	0	0.00632	0	0		T	34635606	T	T	34635606	3	4	127	1	0	0	0	0	1	0	0	0	7561	893	31	1	1539	1	IFNAR2	21	34635606	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	6297377	34635606	13494289	1146	70226											
IFNAR1	3454	broad.mit.edu	37	chr21	34726001	34726001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgcattatttgctctccCgtttgtcatttatgctgcga	6	19	7	9	2	2	0	1	0	1	0	3	1	2	0	1	0	4	4	1	0	3	7			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr21:34726001C>T	uc002yrn.2	+	10	1499	c.1352C>T	c.(1351-1353)CCG>CTG	p.P451L	IFNAR1_uc011adv.1_Missense_Mutation_p.P382L	NM_000629	NP_000620	P17181	INAR1_HUMAN	interferon-alpha receptor 1 precursor	451	Helical; (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	integral to plasma membrane	type I interferon receptor activity			central_nervous_system(1)|skin(1)	2					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	TTTGCTCTCCCGTTTGTCATT	0.318													26	92					0	0	0.003954	0	0		T	34726001	T	T	34726001	3	4	127	1	0	0	0	0	1	0	0	0	7560	652	23	1	1390	1	IFNAR1	21	34726001	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	90395	34726001	13403894	1147	70227											
DOPEY2	9980	broad.mit.edu	37	chr21	37583892	37583892	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttggactcaaatgttctTgtgcaaagaaataatctgga	13	13	9	6	0	3	1	1	0	2	1	3	3	3	3	0	2	1	3	0	2	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr21:37583892T>C	uc002yvg.2	+	6	802	c.723T>C	c.(721-723)CTT>CTC	p.L241L	DOPEY2_uc011aeb.1_Silent_p.L241L	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	241					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						CAAATGTTCTTGTGCAAAGAA	0.398													32	130					0	0	0.003271	0	0		C	37583892	C	C	37583892	2	2	127	1	0	0	0	0	0	0	0	1	4714	1799	63	3		3	DOPEY2	21	37583892	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2857891	37583892	10546003	1148	70228											
IGSF5	150084	broad.mit.edu	37	chr21	41151197	41151197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgttgtggctgcaactgctGctgccgttgttgtttctgct	2	18	12	9	1	1	0	0	0	1	0	1	0	1	0	1	1	6	9	1	1	1	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr21:41151197G>A	uc002yyo.2	+	5	1002	c.899G>A	c.(898-900)TGC>TAC	p.C300Y		NM_001080444	NP_001073913	Q9NSI5	IGSF5_HUMAN	immunoglobulin superfamily 5 like	300	Cytoplasmic (Potential).|Cys-rich.					integral to membrane|tight junction					0		Prostate(19;5.35e-06)				tgcaactgctgctgccgttgt	0.259													4	8					0	0	0.010729	0	0		A	41151197	A	A	41151197	3	1	127	1	0	0	0	0	1	0	0	0	7618	1319	46	2	917	2	IGSF5	21	41151197	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3567305	41151197	6978698	1149	70229											
RIPK4	54101	broad.mit.edu	37	chr21	43161140	43161140	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcggccaggtgcagcGcgctgagcccctgctcgtcg	3	6	16	16	5	0	1	0	1	0	0	2	1	0	1	4	3	4	3	4	3	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr21:43161140G>T	uc002yzn.1	-	8	2261	c.2213C>A	c.(2212-2214)GCG>GAG	p.A738E		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	738						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						CAGGTGCAGCGCGCTGAGCCC	0.687													23	105					1.42536e-11	1.55603e-11	0.004656	1	0		T	43161140	T	T	43161140	3	4	127	1	0	0	0	0	1	0	0	0	13408	1087	38	5	145	5	RIPK4	21	43161140	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	2009943	43161140	4968755	1150	70230											
COL6A2	1292	broad.mit.edu	37	chr21	47537842	47537842	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggggagcgaggagaccaaGgcggcaaggtaagtggcctt	11	4	18	8	2	0	1	0	0	0	1	0	4	0	2	2	7	1	2	2	7	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr21:47537842G>T	uc002zia.1	+	12	1190	c.1108G>T	c.(1108-1110)GGC>TGC	p.G370C	COL6A2_uc002zhy.1_Missense_Mutation_p.G370C|COL6A2_uc002zhz.1_Missense_Mutation_p.G370C|COL6A2_uc002zib.1_Intron	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	370	Triple-helical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		AGGAGACCAAGGCGGCAAGGT	0.682													3	19					1.024e-07	1.08284e-07	0.000602	1	0		T	47537842	T	T	47537842	3	4	127	1	0	0	0	0	1	0	0	0	3703	1000	35	5	1150	5	COL6A2	21	47537842	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	4376702	47537842	592053	1151	70231											
C21orf56	84221	broad.mit.edu	37	chr21	47581501	47581501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaggaactcgctgaacgccGggtgcacgtcgcggctgtag	7	7	16	11	6	0	2	0	2	0	0	2	3	0	3	1	3	3	4	1	3	3	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr21:47581501G>A	uc011afu.1	-	5	1877	c.815C>T	c.(814-816)CCG>CTG	p.P272L	C21orf56_uc002zii.2_Missense_Mutation_p.P118L	NM_001142854	NP_001136326	Q9H0A9	CU056_HUMAN	hypothetical protein LOC84221 isoform 1	272							protein binding			skin(1)	1	Breast(49;0.214)			Colorectal(79;0.241)		GCTGAACGCCGGGTGCACGTC	0.697													3	11					0	0	0.009096	0	0		A	47581501	A	A	47581501	3	1	127	1	0	0	0	0	1	0	0	0	2130	1116	39	1	211	1	C21orf56	21	47581501	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	43659	47581501	548394	1152	70232											
ARVCF	421	broad.mit.edu	37	chr22	19965533	19965533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcagggcatgcaggagcGcgtccaccagcccttcacac	9	5	11	16	2	1	0	1	0	0	0	2	1	2	1	3	2	4	3	3	2	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:19965533G>A	uc002zqz.2	-	8	1917	c.1646C>T	c.(1645-1647)GCG>GTG	p.A549V	ARVCF_uc002zqy.2_Missense_Mutation_p.A71V	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	549	ARM 5.				cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					ATGCAGGAGCGCGTCCACCAG	0.657													5	37					0	0	0.000602	0	0		A	19965533	A	A	19965533	3	1	127	1	0	0	0	0	1	0	0	0	1004	1087	38	1	1290	1	ARVCF	22	19965533	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08		19965533	31339033	1153	70233											
PI4KA	5297	broad.mit.edu	37	chr22	21098990	21098990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcttcacacaggccgggcGctcgctcagctgagttgcct	5	11	11	14	3	3	1	2	1	1	0	4	1	3	1	2	2	2	4	2	2	0	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:21098990G>A	uc002zsz.3	-	30	3439	c.3208C>T	c.(3208-3210)CGC>TGC	p.R1070C		NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1070					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding	p.R1070L(1)		lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			CAGGCCGGGCGCTCGCTCAGC	0.527													12	54					0	0	0.010729	0	0		A	21098990	A	A	21098990	3	1	127	1	0	0	0	0	1	0	0	0	11892	1087	38	1	3030	1	PI4KA	22	21098990	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1133457	21098990	30205576	1154	70234											
SERPIND1	3053	broad.mit.edu	37	chr22	21134357	21134357	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaggcccagatagctgacTtctcagaccctgccttcata	9	10	8	14	0	2	4	2	2	1	2	3	4	2	4	3	1	2	1	3	1	2	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:21134357T>G	uc002ztb.1	+	2	824	c.757T>G	c.(757-759)TTC>GTC	p.F253V	PI4KA_uc002zsz.3_Intron|SERPIND1_uc002ztc.2_Missense_Mutation_p.F281V	NM_000185	NP_000176	P05546	HEP2_HUMAN	heparin cofactor II precursor	253					blood coagulation|chemotaxis|regulation of proteolysis	extracellular region	heparin binding|serine-type endopeptidase inhibitor activity				0	all_cancers(11;6.16e-25)|all_epithelial(7;1.02e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)		Ardeparin(DB00407)	GATAGCTGACTTCTCAGACCC	0.433													49	221					0	0	0.01441	0	0		G	21134357	G	G	21134357	3	3	127	1	0	0	0	0	1	0	0	0	14135	1609	56	5	759	5	SERPIND1	22	21134357	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	35367	21134357	30170209	1155	70235											
GAL3ST1	9514	broad.mit.edu	37	chr22	30951162	30951162	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcggcggcgtccacggcGtggcccccgtcgatgcagat	5	6	16	14	7	0	1	0	0	0	1	2	2	1	1	3	5	1	1	3	5	0	0	rs146972531		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:30951162G>A	uc003aig.1	-	4	1190	c.1050C>T	c.(1048-1050)CAC>CAT	p.H350H	GAL3ST1_uc003aih.1_Silent_p.H350H|GAL3ST1_uc003aii.1_Silent_p.H350H|GAL3ST1_uc010gvz.1_Silent_p.H350H	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	350	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						CGTCCACGGCGTGGCCCCCGT	0.706													6	22					0	0	0.004482	0	0		A	30951162	A	A	30951162	2	1	127	1	0	0	0	0	0	0	0	1	6212	1136	40	1		1	GAL3ST1	22	30951162	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	9816805	30951162	20353404	1156	70236											
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31859740	31859740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtccttatcgctaagaCggtgatccttctcaaaggtc	9	11	10	11	2	1	2	1	1	1	1	6	2	3	2	2	3	0	2	2	3	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:31859740C>T	uc003akz.1	-	5	676	c.512G>A	c.(511-513)CGT>CAT	p.R171H	EIF4ENIF1_uc003ala.1_Missense_Mutation_p.R171H|EIF4ENIF1_uc003alb.1_Intron	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	171	Arg-rich.					nucleus	protein binding|protein transporter activity			ovary(1)	1						ATCGCTAAGACGGTGATCCTT	0.458													25	93					0	0	0.00278	0	0		T	31859740	T	T	31859740	3	4	127	1	0	0	0	0	1	0	0	0	5043	536	19	1	2508	1	EIF4ENIF1	22	31859740	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	908578	31859740	19444826	1157	70237											
HMOX1	3162	broad.mit.edu	37	chr22	35783051	35783051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcaccttccccaacattgCcagtgccaccaagttcaagc	10	9	5	17	0	2	0	2	0	0	0	3	0	3	0	6	0	4	1	6	0	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:35783051C>T	uc003ant.1	+	3	598	c.518C>T	c.(517-519)GCC>GTC	p.A173V		NM_002133	NP_002124	P09601	HMOX1_HUMAN	heme oxygenase (decyclizing) 1	173					angiogenesis|anti-apoptosis|cell death|cellular iron ion homeostasis|endothelial cell proliferation|erythrocyte homeostasis|heme catabolic process|heme oxidation|intracellular protein kinase cascade|low-density lipoprotein particle clearance|negative regulation of leukocyte migration|negative regulation of smooth muscle cell proliferation|positive regulation of chemokine biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of smooth muscle cell proliferation|protein homooligomerization|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hydrogen peroxide|response to nicotine|smooth muscle hyperplasia|transmembrane transport|wound healing involved in inflammatory response	endoplasmic reticulum membrane|extracellular space|microsome	enzyme binding|heme binding|heme oxygenase (decyclizing) activity|protein homodimerization activity|signal transducer activity			ovary(1)	1					NADH(DB00157)	CCCAACATTGCCAGTGCCACC	0.602													25	82					0	0	0.005443	0	0		T	35783051	T	T	35783051	3	4	127	1	0	0	0	0	1	0	0	0	7259	739	26	2	528	2	HMOX1	22	35783051	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3923311	35783051	15521515	1158	70238											
APOL2	23780	broad.mit.edu	37	chr22	36624266	36624266	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatcgtggcggtttttgtcCttcatgaccatgtgacttgc	5	17	10	9	2	1	2	1	2	0	0	3	2	2	2	2	2	1	1	2	2	1	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:36624266C>T	uc003aoz.2	-	5	534	c.198G>A	c.(196-198)AAG>AAA	p.K66K	APOL2_uc011amm.1_Silent_p.K178K|APOL2_uc003apa.2_Silent_p.K66K	NM_030882	NP_112092	Q9BQE5	APOL2_HUMAN	apolipoprotein L2	66					acute-phase response|cholesterol metabolic process|lipid transport|lipoprotein metabolic process|maternal process involved in female pregnancy|multicellular organismal development	endoplasmic reticulum membrane|extracellular region	high-density lipoprotein particle binding|lipid binding|receptor binding				0						GGTTTTTGTCCTTCATGACCA	0.463													40	142					0	0	0.011902	0	0		T	36624266	T	T	36624266	2	4	127	1	0	0	0	0	0	0	0	1	806	680	24	4		4	APOL2	22	36624266	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	841215	36624266	14680300	1159	70239											
MYH9	4627	broad.mit.edu	37	chr22	36682871	36682871	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgggtgtcatccagctcgcGcatgcagtccttcatctggg	5	10	13	13	3	3	0	2	0	1	0	6	0	5	0	2	2	2	3	2	2	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:36682871G>A	uc003apg.2	-	35	5185	c.4954C>T	c.(4954-4956)CGC>TGC	p.R1652C		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1652	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						TCCAGCTCGCGCATGCAGTCC	0.627			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated		OREG0026519	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	132					0	0	0.003755	0	0		A	36682871	A	A	36682871	3	1	127	1	0	0	0	0	1	0	0	0	10060	1087	38	1	956	1	MYH9	22	36682871	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	58605	36682871	14621695	1160	70240											
CSF2RB	1439	broad.mit.edu	37	chr22	37325725	37325725	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctcccaggccaccctgggGccagagcacctcatgcccag	8	4	10	19	0	1	1	1	0	0	1	2	1	2	1	7	3	2	1	7	3	0	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:37325725G>A	uc003aqa.3	+	6	811	c.594G>A	c.(592-594)GGG>GGA	p.G198G	CSF2RB_uc003aqc.3_Silent_p.G198G	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	198	Fibronectin type-III 1.|Extracellular (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	CCACCCTGGGGCCAGAGCACC	0.682													15	72					0	0	0.007413	0	0		A	37325725	A	A	37325725	2	1	127	1	0	0	0	0	0	0	0	1	3938	1190	42	2		2	CSF2RB	22	37325725	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	642854	37325725	13978841	1161	70241											
GCAT	23464	broad.mit.edu	37	chr22	38212245	38212245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctgctggcttcactatctCgggagccagtcaccccatct	7	10	9	15	1	4	0	2	0	2	0	5	1	4	1	3	2	3	3	3	2	1	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:38212245C>T	uc003atz.2	+	8	1045	c.1025C>T	c.(1024-1026)TCG>TTG	p.S342L	GCAT_uc003aua.1_Missense_Mutation_p.S368L	NM_014291	NP_055106	O75600	KBL_HUMAN	glycine C-acetyltransferase precursor	342					biosynthetic process|cellular amino acid metabolic process		glycine C-acetyltransferase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups				0	Melanoma(58;0.045)				Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	TTCACTATCTCGGGAGCCAGT	0.592													7	36					0	0	0.006214	0	0		T	38212245	T	T	38212245	3	4	127	1	0	0	0	0	1	0	0	0	6299	893	31	1	1133	1	GCAT	22	38212245	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	886520	38212245	13092321	1162	70242											
TAB1	10454	broad.mit.edu	37	chr22	39826095	39826095	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctctgacggaggcctCttccgctcccggcccgccca	4	7	10	20	4	2	1	0	1	2	0	5	2	5	2	6	3	1	2	6	3	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:39826095C>A	uc003axt.2	+	11	1432	c.1383C>A	c.(1381-1383)CTC>CTA	p.L461L	TAB1_uc003axr.2_Silent_p.L537L|TAB1_uc011aok.1_Silent_p.L295L|TAB1_uc003axu.1_Intron	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	461					activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1						ACGGAGGCCTCTTCCGCTCCC	0.647													16	81					3.51602e-12	3.86217e-12	0.008871	1	0		A	39826095	A	A	39826095	2	1	127	1	0	0	0	0	0	0	0	1	15520	900	32	5		5	TAB1	22	39826095	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1613850	39826095	11478471	1163	70243											
SGSM3	27352	broad.mit.edu	37	chr22	40802507	40802507	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgctatcggatatcccgtcGcagatggaggacgcggagct	9	7	14	11	6	0	1	0	0	0	1	3	5	1	5	1	4	1	3	1	4	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:40802507G>A	uc003ayu.1	+	10	1235	c.1026G>A	c.(1024-1026)TCG>TCA	p.S342S	SGSM3_uc010gyc.1_3'UTR|SGSM3_uc011aos.1_Silent_p.S275S|SGSM3_uc011aot.1_Silent_p.S279S|SGSM3_uc010gyd.1_Silent_p.S342S	NM_015705	NP_056520	Q96HU1	SGSM3_HUMAN	small G protein signaling modulator 3	342					cell cycle arrest|Rap protein signal transduction	cytoplasm	Rab GTPase activator activity|Rab GTPase binding			ovary(2)	2						ATATCCCGTCGCAGATGGAGG	0.642													6	15					0	0	0.001984	0	0		A	40802507	A	A	40802507	2	1	127	1	0	0	0	0	0	0	0	1	14249	1074	38	1		1	SGSM3	22	40802507	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	976412	40802507	10502059	1164	70244											
DNAJB7	150353	broad.mit.edu	37	chr22	41257517	41257517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccttcatgccccaatgaaCcctgtgatgtatatcctgta	9	12	8	12	0	1	2	1	2	0	0	2	2	2	2	5	1	2	2	5	1	5	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:41257517C>T	uc003azj.2	-	1	614	c.482G>A	c.(481-483)GGT>GAT	p.G161D	XPNPEP3_uc011aox.1_Intron|XPNPEP3_uc003azh.2_Intron|XPNPEP3_uc003azi.2_Intron|XPNPEP3_uc011aoy.1_5'Flank|XPNPEP3_uc003azg.1_Intron|XPNPEP3_uc003azf.1_Intron|XPNPEP3_uc010gyh.1_5'Flank	NM_145174	NP_660157	Q7Z6W7	DNJB7_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 7	161					protein folding		heat shock protein binding|unfolded protein binding			ovary(1)	1						CCCCAATGAACCCTGTGATGT	0.383													28	152					0	0	0.005443	0	0		T	41257517	T	T	41257517	3	4	127	1	0	0	0	0	1	0	0	0	4631	507	18	4	451	4	DNAJB7	22	41257517	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	455010	41257517	10047049	1165	70245											
EFCAB6	64800	broad.mit.edu	37	chr22	43926824	43926824	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcagagtaaaaagatggCgtctccgcgccggcttcttt	10	9	12	10	4	2	3	0	0	2	3	3	3	2	3	2	2	1	3	2	2	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:43926824C>T	uc003bdy.1	-	31	4469	c.4254G>A	c.(4252-4254)ACG>ACA	p.T1418T	EFCAB6_uc003bdz.1_Silent_p.T1266T|EFCAB6_uc010gzi.1_Silent_p.T1266T	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1418	Interaction with AR.|Interaction with PARK7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				AAAAAGATGGCGTCTCCGCGC	0.483													15	63					0	0	0.004007	0	0		T	43926824	T	T	43926824	2	4	127	1	0	0	0	0	0	0	0	1	4945	755	27	1		1	EFCAB6	22	43926824	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	2669307	43926824	7377742	1166	70246											
NUP50	10762	broad.mit.edu	37	chr22	45571922	45571922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaccagtgcccctcccttcGccagtgcaaaggcagcggca	9	6	10	16	2	0	0	0	0	0	0	2	0	1	0	5	2	4	3	5	2	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:45571922G>A	uc003bfr.2	+	4	763	c.301G>A	c.(301-303)GCC>ACC	p.A101T	NUP50_uc003bfs.2_Missense_Mutation_p.A73T|NUP50_uc011aqn.1_Intron|NUP50_uc003bft.2_Missense_Mutation_p.A73T|NUP50_uc011aqo.1_5'Flank	NM_007172	NP_009103	Q9UKX7	NUP50_HUMAN	nucleoporin 50kDa isoform b	101	5 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|intracellular transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore|nucleoplasm	protein binding				0		Ovarian(80;0.00965)|all_neural(38;0.0244)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		CCCTCCCTTCGCCAGTGCAAA	0.522													9	57					0	0	0.010729	0	0		A	45571922	A	A	45571922	3	1	127	1	0	0	0	0	1	0	0	0	10785	1087	38	1	311	1	NUP50	22	45571922	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1645098	45571922	5732644	1167	70247											
FBLN1	2192	broad.mit.edu	37	chr22	45996204	45996204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtgtcgtgcgccaggtgCggcccatcgtgggcccattt	4	9	15	13	4	0	0	0	0	0	0	2	0	0	0	3	4	2	0	3	4	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:45996204C>T	uc003bgj.1	+	17	2137	c.1990C>T	c.(1990-1992)CGG>TGG	p.R664W	FBLN1_uc003bgk.1_RNA	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	664					interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GCGCCAGGTGCGGCCCATCGT	0.557													71	395					0	0	0.01441	0	0		T	45996204	T	T	45996204	3	4	127	1	0	0	0	0	1	0	0	0	5712	759	27	1	2536	1	FBLN1	22	45996204	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	424282	45996204	5308362	1168	70248											
TBC1D22A	25771	broad.mit.edu	37	chr22	47193446	47193446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcactctcagcagctcagCgctgagcgaaagagaggcct	11	5	12	13	2	2	2	2	1	1	1	3	4	2	2	1	1	5	4	1	1	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:47193446C>T	uc003bib.2	+	4	701	c.566C>T	c.(565-567)GCG>GTG	p.A189V	TBC1D22A_uc010haf.2_Missense_Mutation_p.A159V|TBC1D22A_uc003bic.2_Intron|TBC1D22A_uc003bie.2_Intron|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.A142V	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	189						intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		AGCAGCTCAGCGCTGAGCGAA	0.652											OREG0026659	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	45					0	0	0.010504	0	0		T	47193446	T	T	47193446	3	4	127	1	0	0	0	0	1	0	0	0	15636	768	27	1	580	1	TBC1D22A	22	47193446	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1197242	47193446	4111120	1169	70249											
ZBED4	9889	broad.mit.edu	37	chr22	50279870	50279870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacctgctgagcctcgccCggaagatctgcgagcgggtg	8	6	15	12	4	1	3	0	1	1	2	2	5	1	4	3	2	5	1	3	2	2	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:50279870C>T	uc003bix.2	+	2	3030	c.2560C>T	c.(2560-2562)CGG>TGG	p.R854W		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	854						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		GAGCCTCGCCCGGAAGATCTG	0.627													6	19					0	0	0.001168	0	0		T	50279870	T	T	50279870	3	4	127	1	0	0	0	0	1	0	0	0	17545	643	23	1	2562	1	ZBED4	22	50279870	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3086424	50279870	1024696	1170	70250											
MLC1	23209	broad.mit.edu	37	chr22	50523291	50523291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctccagcgtgggcatcCggtcataggccagctcctct	5	8	11	17	3	2	0	1	0	1	0	5	0	5	0	5	3	2	3	5	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:50523291C>T	uc003bjg.1	-	2	314	c.41G>A	c.(40-42)CGG>CAG	p.R14Q	MLC1_uc011arl.1_Missense_Mutation_p.R14Q|MLC1_uc003bjh.1_Missense_Mutation_p.R14Q|MLC1_uc011arm.1_Missense_Mutation_p.R14Q|MLC1_uc011arn.1_Intron|MLC1_uc011aro.1_Missense_Mutation_p.R14Q	NM_139202	NP_631941	Q15049	MLC1_HUMAN	megalencephalic leukoencephalopathy with	14						basolateral plasma membrane|endosome|integral to membrane|integral to membrane of membrane fraction	ion channel activity			pancreas(1)	1		all_cancers(38;7.69e-11)|all_epithelial(38;9.52e-10)|all_lung(38;3.67e-05)|Breast(42;0.000776)|Lung NSC(38;0.000946)|Ovarian(80;0.0365)|Lung SC(80;0.113)		READ - Rectum adenocarcinoma(2;0.000669)|Colorectal(2;0.00242)|LUAD - Lung adenocarcinoma(64;0.0695)|BRCA - Breast invasive adenocarcinoma(115;0.216)		CGTGGGCATCCGGTCATAGGC	0.627													7	39					0	0	0.00308	0	0		T	50523291	T	T	50523291	3	4	127	1	0	0	0	0	1	0	0	0	9630	652	23	1	1136	1	MLC1	22	50523291	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	243421	50523291	781275	1171	70251											
MOV10L1	54456	broad.mit.edu	37	chr22	50591566	50591566	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggaactcgaggtctgtgcGgaccccacagtggtgacctc	8	7	14	12	2	1	1	0	1	1	0	3	4	1	3	3	4	2	0	3	4	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:50591566G>A	uc003bjj.2	+	22	3068	c.2985G>A	c.(2983-2985)GCG>GCA	p.A995A	MOV10L1_uc003bjk.3_Silent_p.A995A|MOV10L1_uc011arp.1_Silent_p.A975A|MOV10L1_uc003bjl.2_Silent_p.A122A|MOV10L1_uc003bjm.1_Silent_p.A38A	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	995					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		AGGTCTGTGCGGACCCCACAG	0.582													23	125					0	0	0.00278	0	0		A	50591566	A	A	50591566	2	1	127	1	0	0	0	0	0	0	0	1	9737	1103	39	1		1	MOV10L1	22	50591566	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	68275	50591566	713000	1172	70252											
TUBGCP6	85378	broad.mit.edu	37	chr22	50656171	50656171	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcagagcagcctcaggcGtcctggtagtagttgttgaa	8	9	13	11	2	1	2	1	1	0	1	2	2	2	2	3	2	2	6	3	2	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chr22:50656171G>A	uc003bkb.1	-	25	5966	c.5454C>T	c.(5452-5454)GAC>GAT	p.D1818D	TUBGCP6_uc003bka.1_Silent_p.D888D|TUBGCP6_uc010har.1_Silent_p.D1810D|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	1818					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		AGCCTCAGGCGTCCTGGTAGT	0.622													5	18					0	0	0.000602	0	0		A	50656171	A	A	50656171	2	1	127	1	0	0	0	0	0	0	0	1	16796	1136	40	1		1	TUBGCP6	22	50656171	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	64605	50656171	648395	1173	70253											
PLCXD1	55344	broad.mit.edu	37	chrX	200930	200930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaacgaggactggatgtcgGcactgtgtccccggctctgg	6	8	14	13	3	1	0	0	0	1	0	3	3	2	2	3	5	1	2	3	5	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:200930G>A	uc004cpc.2	+	2	388	c.76G>A	c.(76-78)GCA>ACA	p.A26T	PLCXD1_uc011mgx.1_RNA	NM_018390	NP_060860	Q9NUJ7	PLCX1_HUMAN	phosphatidylinositol-specific phospholipase C, X	26					intracellular signal transduction|lipid metabolic process		phospholipase C activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CTGGATGTCGGCACTGTGTCC	0.642													20	68					0	0	0.010504	0	0		A	200930	A	A	200930	3	1	127	1	0	0	0	0	1	0	0	0	12060	1203	42	2	78	2	PLCXD1	23	200930	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08		200930	155069630	1174	70254											
KAL1	3730	broad.mit.edu	37	chrX	8504917	8504917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggagtgactttttggccGtattggttggacagtcacct	6	15	12	8	1	1	1	1	1	0	0	1	3	1	3	2	4	0	2	2	4	1	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:8504917G>A	uc004csf.2	-	11	1666	c.1516C>T	c.(1516-1518)CGG>TGG	p.R506W		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	506	Fibronectin type-III 3.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						CTTTTTGGCCGTATTGGTTGG	0.443													15	19					0	0	0.003163	0	0		A	8504917	A	A	8504917	3	1	127	1	0	0	0	0	1	0	0	0	7990	1144	40	1	542	1	KAL1	23	8504917	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	8303987	8504917	146765643	1175	70255											
WWC3	55841	broad.mit.edu	37	chrX	10046875	10046875	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaatacaaagtatgaccCacaccaaattaaagcagaaa	23	5	4	9	0	0	2	0	1	0	1	0	2	0	2	2	0	3	2	2	0	9	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:10046875C>A	uc004csx.3	+	4	455	c.257C>A	c.(256-258)CCA>CAA	p.P86Q	WWC3_uc010nds.2_5'UTR|WWC3_uc010ndt.2_5'Flank	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	86	Potential.									ovary(4)	4						AAGTATGACCCACACCAAATT	0.378													42	48					1.59932e-28	1.8232e-28	0.007835	1	0		A	10046875	A	A	10046875	3	1	127	1	0	0	0	0	1	0	0	0	17439	594	21	5	267	5	WWC3	23	10046875	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1541958	10046875	145223685	1176	70256											
ARHGAP6	395	broad.mit.edu	37	chrX	11682500	11682500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggatgctggaagcgcttCggctactggctggcccggcc	6	7	16	12	3	0	1	0	0	0	1	1	3	0	3	2	6	3	4	2	6	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:11682500C>T	uc004cup.1	-	1	1322	c.449G>A	c.(448-450)CGA>CAA	p.R150Q	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cur.1_Missense_Mutation_p.R150Q	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	150					actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						GGAAGCGCTTCGGCTACTGGC	0.622													8	8					0	0	0.006214	0	0		T	11682500	T	T	11682500	3	4	127	1	0	0	0	0	1	0	0	0	887	884	31	1	2649	1	ARHGAP6	23	11682500	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1635625	11682500	143588060	1177	70257											
ASB9	140462	broad.mit.edu	37	chrX	15287932	15287932	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggtttgaaagaagcctgAtgccaggaaagtcccttggc	11	9	13	8	0	0	3	0	2	0	1	1	4	1	4	3	3	2	1	3	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:15287932A>C	uc004cwl.2	-	1	312	c.65T>G	c.(64-66)ATC>AGC	p.I22S	ASB9_uc004cwk.2_Missense_Mutation_p.I22S|ASB9_uc004cwm.2_Missense_Mutation_p.I22S|ASB9_uc010ner.2_Missense_Mutation_p.I22S|ASB9_uc004cwn.2_Missense_Mutation_p.I22S	NM_001031739	NP_001026909	Q96DX5	ASB9_HUMAN	ankyrin repeat and SOCS box-containing 9 isoform	22					intracellular signal transduction						0	Hepatocellular(33;0.183)					AAGAAGCCTGATGCCAGGAAA	0.582													19	31					0	0	0.008871	0	0		C	15287932	C	C	15287932	3	2	127	1	0	0	0	0	1	0	0	0	1031	333	12	5	876	5	ASB9	23	15287932	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	3605432	15287932	139982628	1178	70258											
SYAP1	94056	broad.mit.edu	37	chrX	16773179	16773179	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggccgcagggaaggaggaGaagagcaatggcagagagca	15	1	18	7	1	0	3	0	0	0	3	0	7	0	5	1	5	2	4	1	5	3	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:16773179G>A	uc004cxp.2	+	6	780	c.687G>A	c.(685-687)GAG>GAA	p.E229E	SYAP1_uc004cxo.2_Silent_p.E229E|SYAP1_uc011miv.1_Silent_p.E195E	NM_032796	NP_116185	Q96A49	SYAP1_HUMAN	SYAP1 protein	229										skin(1)	1	Hepatocellular(33;0.0997)					GGAAGGAGGAGAAGAGCAATG	0.517													30	71					0	0	0.010818	0	0		A	16773179	A	A	16773179	2	1	127	1	0	0	0	0	0	0	0	1	15451	933	33	4		4	SYAP1	23	16773179	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1485247	16773179	138497381	1179	70259											
SCML2	10389	broad.mit.edu	37	chrX	18278348	18278348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctttatataacatgccacGgtctctggtcagcgatttta	10	15	7	9	2	3	0	1	0	2	0	4	1	3	0	1	2	3	0	1	2	4	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:18278348G>A	uc004cyl.2	-	9	1169	c.1012C>T	c.(1012-1014)CGT>TGT	p.R338C	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_Missense_Mutation_p.R338C|SCML2_uc011miz.1_Missense_Mutation_p.R272C|SCML2_uc010nfc.2_Missense_Mutation_p.R74C	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	338					anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					AACATGCCACGGTCTCTGGTC	0.338													9	22					0	0	0.008291	0	0		A	18278348	A	A	18278348	3	1	127	1	0	0	0	0	1	0	0	0	13935	1116	39	1	1118	1	SCML2	23	18278348	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	1505169	18278348	136992212	1180	70260											
PPEF1	5475	broad.mit.edu	37	chrX	18836177	18836177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggatactatggaaaacaGcgccatcaagatattaagag	17	8	10	6	1	1	2	1	0	0	2	1	4	1	4	1	2	3	0	1	2	7	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:18836177G>A	uc004cyq.2	+	16	1896	c.1415G>A	c.(1414-1416)AGC>AAC	p.S472N	PPEF1_uc004cyp.2_Missense_Mutation_p.S444N|PPEF1_uc004cyr.2_Missense_Mutation_p.S410N|PPEF1_uc004cys.2_Missense_Mutation_p.S472N|PPEF1_uc011mja.1_Missense_Mutation_p.S407N|PPEF1_uc011mjb.1_Missense_Mutation_p.S416N	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding	472					detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)					ATGGAAAACAGCGCCATCAAG	0.333													21	39					0	0	0.003954	0	0		A	18836177	A	A	18836177	3	1	127	1	0	0	0	0	1	0	0	0	12326	971	34	2	1465	2	PPEF1	23	18836177	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	557829	18836177	136434383	1181	70261											
PHKA2	5256	broad.mit.edu	37	chrX	18949781	18949781	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaacagcgagctgaggAtgtacaaggattggccccac	11	6	12	12	1	0	1	0	1	0	0	0	4	0	3	3	3	5	2	3	3	3	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:18949781A>G	uc004cyv.3	-	12	1653	c.1223T>C	c.(1222-1224)ATC>ACC	p.I408T		NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	408					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					CGAGCTGAGGATGTACAAGGA	0.527											OREG0019698	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	60	94					0	0	0.01441	0	0		G	18949781	G	G	18949781	3	3	127	1	0	0	0	0	1	0	0	0	11863	333	12	3	2572	3	PHKA2	23	18949781	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	113604	18949781	136320779	1182	70262											
PHKA2	5256	broad.mit.edu	37	chrX	18969342	18969342	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgttgtacttggcgtgcaGgctgtccttggtgctctgag	3	14	16	8	1	1	1	0	1	1	0	2	1	2	1	1	4	3	5	1	4	1	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:18969342G>T	uc004cyv.3	-	4	764	c.334C>A	c.(334-336)CTG>ATG	p.L112M	PHKA2_uc010nfh.1_Intron|PHKA2_uc010nfi.1_Missense_Mutation_p.L54M	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	112					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					TTGGCGTGCAGGCTGTCCTTG	0.602													24	41					3.08376e-08	3.27073e-08	0.00333	1	0		T	18969342	T	T	18969342	3	4	127	1	0	0	0	0	1	0	0	0	11863	991	35	5	3493	5	PHKA2	23	18969342	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	19561	18969342	136301218	1183	70263											
FAM47A	158724	broad.mit.edu	37	chrX	34148723	34148723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggagctttgggaggctccGggtggagactggacacccga	7	7	17	10	2	0	1	0	0	0	1	1	6	1	4	2	6	1	2	2	6	0	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:34148723G>A	uc004ddg.2	-	1	1706	c.1673C>T	c.(1672-1674)CCG>CTG	p.P558L		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	558										ovary(4)|central_nervous_system(1)	5						GGGAGGCTCCGGGTGGAGACT	0.582													24	31					0	0	0.004656	0	0		A	34148723	A	A	34148723	3	1	127	1	0	0	0	0	1	0	0	0	5583	1116	39	1	706	1	FAM47A	23	34148723	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	15179381	34148723	121121837	1184	70264											
FAM47C	442444	broad.mit.edu	37	chrX	37026602	37026602	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcacaggcgcctgaggtTcccgcctgtggacacccaga	9	5	12	15	2	0	2	0	1	0	1	1	3	1	3	4	3	1	2	4	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:37026602T>C	uc004ddl.1	+	1	133	c.119T>C	c.(118-120)TTC>TCC	p.F40S		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	40										ovary(3)	3						CGCCTGAGGTTCCCGCCTGTG	0.607													11	10					0	0	0.004007	0	0		C	37026602	C	C	37026602	3	2	127	1	0	0	0	0	1	0	0	0	5585	1783	62	3	121	3	FAM47C	23	37026602	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2877879	37026602	118243958	1185	70265											
KDM6A	7403	broad.mit.edu	37	chrX	44918711	44918711	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacgaattaagtatttacaGgtaaaatttttaaatggcag	16	13	8	4	1	0	0	0	0	0	0	0	1	0	0	0	2	1	4	0	2	8	8			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:44918711G>T	uc004dge.3	+	12	1569	c.1194G>T	c.(1192-1194)CAG>CAT	p.Q398H	KDM6A_uc010nhk.2_Missense_Mutation_p.Q398H|KDM6A_uc011mkz.1_Missense_Mutation_p.Q398H|KDM6A_uc011mla.1_Missense_Mutation_p.Q398H|KDM6A_uc011mlb.1_Missense_Mutation_p.Q398H|KDM6A_uc011mlc.1_Missense_Mutation_p.Q147H|KDM6A_uc011mld.1_Missense_Mutation_p.Q64H	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	398					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						AGTATTTACAGGTAAAATTTT	0.393			D|N|F|S		renal|oesophageal SCC|MM								4	16					0.00909568	0.00921271	0.009096	1	0		T	44918711	T	T	44918711	3	4	127	1	0	0	0	0	1	0	0	0	8153	1014	35	5	1240	5	KDM6A	23	44918711	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	7892109	44918711	110351849	1186	70266											
KCND1	3750	broad.mit.edu	37	chrX	48826374	48826374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccgtgggcaatgcagcCgccccgttcggtagaagttc	6	8	13	14	4	0	1	0	0	0	1	2	1	0	1	5	2	3	5	5	2	3	3	rs147541534		TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:48826374C>T	uc004dlx.1	-	1	1878	c.305G>A	c.(304-306)CGG>CAG	p.R102Q	KCND1_uc004dlw.1_5'Flank	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	102	Cytoplasmic (Potential).					voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						GCAATGCAGCCGCCCCGTTCG	0.577													5	6					0	0	0.001168	0	0		T	48826374	T	T	48826374	3	4	127	1	0	0	0	0	1	0	0	0	8034	652	23	1	1662	1	KCND1	23	48826374	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	3907663	48826374	106444186	1187	70267											
MAGIX	79917	broad.mit.edu	37	chrX	49022484	49022484	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctcgcagcagcagcactTccctagttcagcaccctcca	8	8	8	17	1	2	0	1	0	1	0	5	0	4	0	3	1	4	6	3	1	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:49022484T>A	uc010nin.1	+	6	798	c.751T>A	c.(751-753)TCC>ACC	p.S251T	MAGIX_uc010nio.1_Missense_Mutation_p.S175T|MAGIX_uc004dmt.2_Missense_Mutation_p.S170T|MAGIX_uc004dmu.2_Missense_Mutation_p.S192T|MAGIX_uc004dmw.2_Missense_Mutation_p.S179T	NM_024859	NP_079135	Q9H6Y5	MAGIX_HUMAN	MAGI family member, X-linked isoform a	251											0						CAGCAGCACTTCCCTAGTTCA	0.647													17	22					0	0	0.010504	0	0		A	49022484	A	A	49022484	3	1	127	1	0	0	0	0	1	0	0	0	9211	1783	62	5	813	5	MAGIX	23	49022484	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	196110	49022484	106248076	1188	70268											
GSPT2	23708	broad.mit.edu	37	chrX	51488294	51488294	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggacgcacgtttgatgtTcagatagtgattattgagca	10	14	11	6	2	2	4	1	3	1	1	2	5	2	5	0	1	1	4	0	1	2	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:51488294T>C	uc004dpl.2	+	1	1798	c.1572T>C	c.(1570-1572)GTT>GTC	p.V524V		NM_018094	NP_060564	Q8IYD1	ERF3B_HUMAN	peptide chain release factor 3	524					cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|translational termination	cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1	Ovarian(276;0.236)					CGTTTGATGTTCAGATAGTGA	0.403													42	62					0	0	0.01441	0	0		C	51488294	C	C	51488294	2	2	127	1	0	0	0	0	0	0	0	1	6843	1770	62	3		3	GSPT2	23	51488294	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	2465810	51488294	103782266	1189	70269											
ZXDA	7789	broad.mit.edu	37	chrX	57935575	57935575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgtcatattgcttgctgCagccagggaaagagcaggaa	11	9	12	9	0	1	1	1	0	0	1	1	3	1	3	2	2	5	4	2	2	3	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:57935575C>T	uc004dve.2	-	1	1493	c.1280G>A	c.(1279-1281)TGC>TAC	p.C427Y		NM_007156	NP_009087	P98168	ZXDA_HUMAN	zinc finger, X-linked, duplicated A	427	C2H2-type 6.|Required for interaction with ZXDC.				positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						TTGCTTGCTGCAGCCAGGGAA	0.502													21	25					0	0	0.014323	0	0		T	57935575	T	T	57935575	3	4	127	1	0	0	0	0	1	0	0	0	18275	710	25	2	1123	2	ZXDA	23	57935575	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	6447281	57935575	97334985	1190	70270											
ZC4H2	55906	broad.mit.edu	37	chrX	64139033	64139033	+	Frame_Shift_Del	DEL	G	-	-																															gcggccagggactcagggatGgggggctcctgaggttctgt																										TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:64139033delG	uc004dvu.2	-	4	538	c.450delC	c.(448-450)CCCfs	p.P150fs	ZC4H2_uc004dvv.2_Frame_Shift_Del_p.P127fs|ZC4H2_uc011mov.1_Frame_Shift_Del_p.P127fs|ZC4H2_uc011mow.1_Intron|ZC4H2_uc004dvw.1_3'UTR	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	150							metal ion binding|protein binding			ovary(1)	1						ACTCAGGGATGGGGGGCTCCT	0.572													16	30	---	---	---	---						.	-	64139033	-	-	64139033	7	5	127	1	0	1	0	1	0	0	0	0	17603	1335	47	0	251	0	ZC4H2	23	64139033	Frame_Shift_Del	DEL	G	TCGA-CG-4305-01A-01D-1158-08	6203458	64139033	91131527	1191	70271											
SLC7A3	84889	broad.mit.edu	37	chrX	70148313	70148313	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaccatctaacctataggTgtcattgagttcagccatgg	10	12	10	9	0	3	2	2	2	1	0	3	2	3	2	3	2	2	1	3	2	3	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:70148313T>C	uc004dyn.2	-	4	858	c.700A>G	c.(700-702)ACC>GCC	p.T234A	SLC7A3_uc004dyo.2_Missense_Mutation_p.T234A	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	234	Helical; Name=6; (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AACCTATAGGTGTCATTGAGT	0.493													7	4					0	0	0.001984	0	0		C	70148313	C	C	70148313	3	2	127	1	0	0	0	0	1	0	0	0	14723	1696	59	3	1195	3	SLC7A3	23	70148313	Missense_Mutation	SNP	T	TCGA-CG-4305-01A-01D-1158-08	6009280	70148313	85122247	1192	70272											
SLC16A2	6567	broad.mit.edu	37	chrX	73641744	73641744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacccgcggcaccgcgcgcgGcttccagcctcccgaaggtg	5	4	14	18	7	0	0	0	0	0	0	2	2	2	0	5	3	1	2	5	3	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:73641744G>A	uc004ebt.2	+	1	660	c.494G>A	c.(493-495)GGC>GAC	p.G165D		NM_006517	NP_006508	P36021	MOT8_HUMAN	solute carrier family 16, member 2	91	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			breast(2)|ovary(1)	3					Pyruvic acid(DB00119)	ACCGCGCGCGGCTTCCAGCCT	0.677													7	3					0	0	0.008291	0	0		A	73641744	A	A	73641744	3	1	127	1	0	0	0	0	1	0	0	0	14433	1203	42	2	496	2	SLC16A2	23	73641744	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	3493431	73641744	81628816	1193	70273											
BRWD3	254065	broad.mit.edu	37	chrX	79942445	79942446	+	Frame_Shift_Ins	INS	-	T	T																															ctcaatagttccttgcattgINSttttttccaagcatcaggat																										TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:79942445_79942446insT	uc004edt.2	-	35	4184_4185	c.3921_3922insA	c.(3919-3924)AAACAAfs	p.K1307fs	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Frame_Shift_Ins_p.K903fs|BRWD3_uc004edp.2_Frame_Shift_Ins_p.K1136fs|BRWD3_uc004edq.2_Frame_Shift_Ins_p.K903fs|BRWD3_uc010nmj.1_Frame_Shift_Ins_p.K903fs|BRWD3_uc004edr.2_Frame_Shift_Ins_p.K977fs|BRWD3_uc004eds.2_Frame_Shift_Ins_p.K903fs|BRWD3_uc004edu.2_Frame_Shift_Ins_p.K977fs|BRWD3_uc004edv.2_Frame_Shift_Ins_p.K903fs|BRWD3_uc004edw.2_Frame_Shift_Ins_p.K903fs|BRWD3_uc004edx.2_Frame_Shift_Ins_p.K903fs|BRWD3_uc004edy.2_Frame_Shift_Ins_p.K903fs|BRWD3_uc004edz.2_Frame_Shift_Ins_p.K977fs|BRWD3_uc004eea.2_Frame_Shift_Ins_p.K977fs|BRWD3_uc004eeb.2_Frame_Shift_Ins_p.K903fs	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	1307_1308										ovary(4)	4						TCCTTGCATTGTTTTTTCCAAG	0.386													18	40	---	---	---	---						.	T	79942446	T	T	79942445	7	5	127	1	0	1	1	0	0	0	0	0	1529	1386	48	0	1514	0	BRWD3	23	79942445	Frame_Shift_Ins	INS	-	TCGA-CG-4305-01A-01D-1158-08	6300701	79942445	75328115	1194	70274											
SATL1	340562	broad.mit.edu	37	chrX	84362935	84362935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcggtggacctggttggCttatgcttgcttcactcagg	4	14	14	9	1	2	0	2	0	0	0	2	1	2	1	1	5	3	5	1	5	1	5			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:84362935C>T	uc011mqx.1	-	1	1040	c.1040G>A	c.(1039-1041)AGC>AAC	p.S347N	SATL1_uc004een.2_Missense_Mutation_p.S347N	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	160	Gln-rich.						N-acetyltransferase activity			breast(2)	2						ACCTGGTTGGCTTATGCTTGC	0.547													17	27					0	0	0.006122	0	0		T	84362935	T	T	84362935	3	4	127	1	0	0	0	0	1	0	0	0	13880	797	28	2	878	2	SATL1	23	84362935	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	4420490	84362935	70907625	1195	70275											
CHM	1121	broad.mit.edu	37	chrX	85219036	85219036	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcagtgcaccagcttcttcGacatcttcatgcaaatcctg	9	12	7	13	1	3	0	1	0	2	0	5	1	4	0	2	0	4	4	2	0	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:85219036G>A	uc004eet.2	-	5	366	c.336C>T	c.(334-336)GTC>GTT	p.V112V	CHM_uc011mqz.1_5'UTR	NM_000390	NP_000381	P24386	RAE1_HUMAN	choroideremia isoform a	112					intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)				CAGCTTCTTCGACATCTTCAT	0.398													18	29					0	0	0.00499	0	0		A	85219036	A	A	85219036	2	1	127	1	0	0	0	0	0	0	0	1	3353	1045	37	1		1	CHM	23	85219036	Silent	SNP	G	TCGA-CG-4305-01A-01D-1158-08	856101	85219036	70051524	1196	70276											
CSTF2	1478	broad.mit.edu	37	chrX	100079177	100079177	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagccagtccatggtgcTgggcctggctcaggatccaa	7	8	12	14	0	2	0	2	0	0	0	4	1	4	1	5	4	2	2	5	4	1	0			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:100079177T>C	uc004egh.2	+	6	691	c.633T>C	c.(631-633)GCT>GCC	p.A211A	CSTF2_uc010nnd.2_Silent_p.A211A|CSTF2_uc004egi.2_Silent_p.A211A	NM_001325	NP_001316	P33240	CSTF2_HUMAN	cleavage stimulation factor subunit 2	211	Interactions with CSTF3 and SYMPK.|Gly/Pro-rich.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cleavage body|mRNA cleavage and polyadenylation specificity factor complex	nucleotide binding|protein binding|protein binding|RNA binding			skin(1)	1						TCCATGGTGCTGGGCCTGGCT	0.478													33	43					0	0	0.003271	0	0		C	100079177	C	C	100079177	2	2	127	1	0	0	0	0	0	0	0	1	3987	1567	55	3		3	CSTF2	23	100079177	Silent	SNP	T	TCGA-CG-4305-01A-01D-1158-08	14860141	100079177	55191383	1197	70277											
TCEAL6	158931	broad.mit.edu	37	chrX	101396012	101396012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctccagccgggcgcttttCggcggcccgcggctggccct	2	8	14	17	6	1	0	0	0	1	0	3	0	1	0	4	5	1	2	4	5	0	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:101396012C>T	uc004eiq.2	-	3	453	c.292G>A	c.(292-294)GAA>AAA	p.E98K		NM_001006938	NP_001006939	Q6IPX3	TCAL6_HUMAN	transcription elongation factor A (SII)-like 6	98					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						GGGCGCTTTTCGGCGGCCCGC	0.612													42	48					0	0	0.01441	0	0		T	101396012	T	T	101396012	3	4	127	1	0	0	0	0	1	0	0	0	15700	893	31	1	263	1	TCEAL6	23	101396012	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	1316835	101396012	53874548	1198	70278											
GPRASP2	114928	broad.mit.edu	37	chrX	101972170	101972170	+	Frame_Shift_Del	DEL	A	-	-																															cagaatatcagtaacattatAaaaagtggaaagatgtcctt																										TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:101972170delA	uc004ejk.2	+	4	3707	c.2373delA	c.(2371-2373)ATAfs	p.I791fs	GPRASP2_uc004ejl.2_Frame_Shift_Del_p.I791fs|GPRASP2_uc004ejm.2_Frame_Shift_Del_p.I791fs|GPRASP2_uc011mrp.1_Frame_Shift_Del_p.I130fs	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	791						cytoplasm	protein binding			ovary(1)	1						GTAACATTATAAAAAGTGGAA	0.323													72	117	---	---	---	---						.	-	101972170	-	-	101972170	7	5	127	1	0	1	0	1	0	0	0	0	6739	352	13	0	2375	0	GPRASP2	23	101972170	Frame_Shift_Del	DEL	A	TCGA-CG-4305-01A-01D-1158-08	576158	101972170	53298390	1199	70279											
NGFRAP1	27018	broad.mit.edu	37	chrX	102632528	102632528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcctgcaggaaatcgaCggggacaggctcgccgactt	10	5	13	13	4	0	0	0	0	0	0	2	4	0	2	3	4	2	2	3	4	1	1			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:102632528C>T	uc004eki.2	+	3	491	c.109C>T	c.(109-111)CGG>TGG	p.R37W	NGFRAP1_uc004ekh.2_Missense_Mutation_p.R27W|NGFRAP1_uc004ekj.1_Missense_Mutation_p.R37W	NM_206915	NP_996798	Q00994	BEX3_HUMAN	nerve growth factor receptor (TNFRSF16)	37					apoptosis|multicellular organismal development|nerve growth factor receptor signaling pathway	cytosol|nucleus	caspase regulator activity|metal ion binding				0						AGGAAATCGACGGGGACAGGC	0.522													34	91					0	0	0.01441	0	0		T	102632528	T	T	102632528	3	4	127	1	0	0	0	0	1	0	0	0	10416	527	19	1	111	1	NGFRAP1	23	102632528	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	660358	102632528	52638032	1200	70280											
FAM199X	139231	broad.mit.edu	37	chrX	103434328	103434328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttacagcagaaggccttcCgcaagaggcagctgaaggag	13	5	14	9	1	0	3	0	1	0	2	1	4	1	4	2	3	3	5	2	3	4	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:103434328C>T	uc004elw.2	+	6	1202	c.1036C>T	c.(1036-1038)CGC>TGC	p.R346C	FAM199X_uc004elx.2_Missense_Mutation_p.R120C	NM_207318	NP_997201	Q6PEV8	F199X_HUMAN	hypothetical protein LOC139231	346										ovary(1)	1						GAAGGCCTTCCGCAAGAGGCA	0.483													31	48					0	0	0.006999	0	0		T	103434328	T	T	103434328	3	4	127	1	0	0	0	0	1	0	0	0	5541	652	23	1	1058	1	FAM199X	23	103434328	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	801800	103434328	51836232	1201	70281											
SLC6A14	11254	broad.mit.edu	37	chrX	115582794	115582794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctatattgggacacatggCccatatatctggaaaggaag	13	11	10	7	0	2	0	0	0	2	0	2	3	2	3	1	4	0	0	1	4	6	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:115582794C>T	uc004eqi.2	+	8	1222	c.1118C>T	c.(1117-1119)GCC>GTC	p.A373V		NM_007231	NP_009162	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid	373					cellular amino acid metabolic process|response to toxin	integral to membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)|pancreas(1)	3					L-Proline(DB00172)	GGACACATGGCCCATATATCT	0.328													41	54					0	0	0.007835	0	0		T	115582794	T	T	115582794	3	4	127	1	0	0	0	0	1	0	0	0	14702	739	26	2	1148	2	SLC6A14	23	115582794	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	12148466	115582794	39687766	1202	70282											
XPNPEP2	7512	broad.mit.edu	37	chrX	128879240	128879240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaggctttacagggtctgCaggtgacaatcattacccag	11	10	10	10	0	2	1	1	1	1	0	2	1	2	1	1	3	4	2	1	3	4	4			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:128879240C>T	uc004eut.1	+	4	540	c.296C>T	c.(295-297)GCA>GTA	p.A99V	XPNPEP2_uc011mum.1_Missense_Mutation_p.A99V	NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound	99					cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						ACAGGGTCTGCAGGTGACAAT	0.507													11	12					0	0	0.010729	0	0		T	128879240	T	T	128879240	3	4	127	1	0	0	0	0	1	0	0	0	17469	710	25	2	310	2	XPNPEP2	23	128879240	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	13296446	128879240	26391320	1203	70283											
UTP14A	10813	broad.mit.edu	37	chrX	129060265	129060265	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caagaaaagataagaatttgCcaaatgtgattatcaatgag	19	10	8	4	0	1	5	1	2	0	3	1	5	1	5	1	0	1	0	1	0	8	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:129060265C>T	uc004euz.2	+	14	2021	c.1993C>T	c.(1993-1995)CCA>TCA	p.P665S	UTP14A_uc011mup.1_Missense_Mutation_p.P613S|UTP14A_uc011muq.1_Missense_Mutation_p.P611S	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	665					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						TAAGAATTTGCCAAATGTGAT	0.458											OREG0019920	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	32					0	0	0.00333	0	0		T	129060265	T	T	129060265	3	4	127	1	0	0	0	0	1	0	0	0	17121	739	26	2	2047	2	UTP14A	23	129060265	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	181025	129060265	26210295	1204	70284											
FHL1	2273	broad.mit.edu	37	chrX	135290661	135290661	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatcagccctggcatgcCgattgctttgtgtgtgttac	6	13	12	10	1	1	0	1	0	0	0	1	2	1	1	2	2	4	3	2	2	1	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:135290661C>T	uc004ezo.2	+	5	649	c.549C>T	c.(547-549)GCC>GCT	p.A183A	FHL1_uc010nrz.2_Silent_p.A183A|FHL1_uc004ezm.2_RNA|FHL1_uc004ezl.2_Silent_p.A183A|FHL1_uc004ezq.2_Intron|FHL1_uc011mvy.1_Silent_p.A183A|FHL1_uc011mvz.1_Silent_p.A183A|FHL1_uc004ezn.2_Silent_p.A183A|FHL1_uc011mwa.1_Silent_p.A212A|FHL1_uc011mwb.1_RNA|FHL1_uc004ezp.2_Silent_p.A199A|FHL1_uc004ezr.2_Missense_Mutation_p.P2L	NM_001159702	NP_001153174	Q13642	FHL1_HUMAN	four and a half LIM domains 1 isoform 1	183	LIM zinc-binding 3.				cell differentiation|cell growth|muscle organ development|organ morphogenesis	cytosol|nucleus|plasma membrane	protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(192;0.000127)					CCTGGCATGCCGATTGCTTTG	0.478													72	115					0	0	0.01441	0	0		T	135290661	T	T	135290661	2	4	127	1	0	0	0	0	0	0	0	1	5892	639	23	1		1	FHL1	23	135290661	Silent	SNP	C	TCGA-CG-4305-01A-01D-1158-08	6230396	135290661	19979899	1205	70285											
VGLL1	51442	broad.mit.edu	37	chrX	135631137	135631137	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagctggaagcacagggttgCtcttcaacctgcctcccggc	7	9	11	14	1	2	0	1	0	1	0	3	1	3	1	3	3	5	4	3	3	3	3			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:135631137C>T	uc004ezy.2	+	3	774	c.604C>T	c.(604-606)CTC>TTC	p.L202F	MIR934_hsa-mir-934|MI0005756_5'Flank	NM_016267	NP_057351	Q99990	VGLL1_HUMAN	vestigial like 1	202					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	transcription coactivator activity				0	Acute lymphoblastic leukemia(192;0.000127)					CACAGGGTTGCTCTTCAACCT	0.552													37	48					0	0	0.004289	0	0		T	135631137	T	T	135631137	3	4	127	1	0	0	0	0	1	0	0	0	17184	797	28	2	610	2	VGLL1	23	135631137	Missense_Mutation	SNP	C	TCGA-CG-4305-01A-01D-1158-08	340476	135631137	19639423	1206	70286											
F9	2158	broad.mit.edu	37	chrX	138630579	138630579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttgtaaaaatagtgctgAtaacaaggtggtttgctcct	11	15	10	5	0	0	1	0	1	0	0	1	1	1	1	1	2	3	5	1	2	6	6			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:138630579A>G	uc004fas.1	+	5	478	c.449A>G	c.(448-450)GAT>GGT	p.D150G	F9_uc004fat.1_Missense_Mutation_p.D112G	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	150	EGF-like 2.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	AATAGTGCTGATAACAAGGTG	0.368													27	39					0	0	0.005443	0	0		G	138630579	G	G	138630579	3	3	127	1	0	0	0	0	1	0	0	0	5362	333	12	3	467	3	F9	23	138630579	Missense_Mutation	SNP	A	TCGA-CG-4305-01A-01D-1158-08	2999442	138630579	16639981	1207	70287											
HCFC1	3054	broad.mit.edu	37	chrX	153220897	153220897	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtgggctgttctgtagtcgGggaggccagaatggacacag	8	8	18	7	1	1	1	0	0	1	1	2	3	1	3	1	6	0	3	1	6	2	2			TCGA-CG-4305-01A-01D-1158-08	TCGA-CG-4305-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e33b1465-3e69-4cd5-b490-45852d5763ed	092ef146-44f8-430f-96ae-0a9a8ef08773	g.chrX:153220897G>T	uc004fjp.2	-	17	3481	c.2953C>A	c.(2953-2955)CCG>ACG	p.P985T		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	985					cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TCTGTAGTCGGGGAGGCCAGA	0.637													16	26					3.51602e-12	3.86217e-12	0.008871	1	0		T	153220897	T	T	153220897	3	4	127	1	0	0	0	0	1	0	0	0	7007	1232	43	5	3194	5	HCFC1	23	153220897	Missense_Mutation	SNP	G	TCGA-CG-4305-01A-01D-1158-08	14590318	153220897	2049663	1208	70288											
AGRN	375790	broad.mit.edu	37	chr1	989920	989920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcagctggacactgatggagCcctgtggcttggtgagtgtt	6	11	16	8	0	0	2	0	2	0	0	0	4	0	4	1	4	2	4	1	4	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:989920C>T	uc001ack.1	+	35	6019	c.5969C>T	c.(5968-5970)GCC>GTC	p.A1990V		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	1990	Laminin G-like 3.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		ACTGATGGAGCCCTGTGGCTT	0.642													4	17					0	0	0.009096	0	0		T	989920	T	T	989920	3	4	128	1	0	0	0	0	1	0	0	0	397	739	26	2	6107	2	AGRN	1	989920	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08		989920	248260701	1	70289											
MXRA8	54587	broad.mit.edu	37	chr1	1290438	1290438	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgccggtcggtccacacGtgcccgcggttcacgcaggt	5	7	14	15	7	1	0	1	0	0	0	3	0	2	0	3	4	2	2	3	4	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:1290438G>A	uc001aew.2	-	5	604	c.573C>T	c.(571-573)CAC>CAT	p.H191H	MXRA8_uc001aex.3_Silent_p.H191H|MXRA8_uc001aey.3_Silent_p.H191H|MXRA8_uc010nyl.1_Silent_p.H191H|MXRA8_uc001aez.2_Silent_p.H90H|MXRA8_uc001afa.2_Silent_p.H182H	NM_032348	NP_115724	Q9BRK3	MXRA8_HUMAN	matrix-remodelling associated 8 precursor	191	Ig-like V-type 2.|Extracellular (Potential).					integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		CGGTCCACACGTGCCCGCGGT	0.657													8	15					0	0	0.004482	0	0		A	1290438	A	A	1290438	2	1	128	1	0	0	0	0	0	0	0	1	10023	1136	40	1		1	MXRA8	1	1290438	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	300518	1290438	247960183	2	70290											
MEGF6	1953	broad.mit.edu	37	chr1	3418428	3418428	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgtgaccccgtggcaggggGcccccccacaggagcaggag	7	2	16	16	2	0	1	0	1	0	0	0	3	0	3	6	5	1	2	6	5	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:3418428G>C	uc001akl.2	-	18	2473	c.2246C>G	c.(2245-2247)GCC>GGC	p.A749G	MEGF6_uc001akk.2_Missense_Mutation_p.A644G	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	749	EGF-like 12.					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		GTGGCAGGGGGCCCCCCCACA	0.697													6	27					0	0	0.010729	0	0		C	3418428	C	C	3418428	3	2	128	1	0	0	0	0	1	0	0	0	9480	1203	42	5	2459	5	MEGF6	1	3418428	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2127990	3418428	245832193	3	70291											
NPHP4	261734	broad.mit.edu	37	chr1	6038351	6038351	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattaaagacgatcctggaCggcggtctcttcgtcggctt	7	12	11	11	5	2	1	1	0	1	1	6	3	3	2	1	4	0	1	1	4	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:6038351C>T	uc001alq.1	-	3	524	c.258G>A	c.(256-258)CCG>CCA	p.P86P	NPHP4_uc001als.1_RNA|NPHP4_uc009vlt.1_RNA|NPHP4_uc001alt.1_Intron	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	86					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		CGATCCTGGACGGCGGTCTCT	0.592													6	25					0	0	0.001168	0	0		T	6038351	T	T	6038351	2	4	128	1	0	0	0	0	0	0	0	1	10600	523	19	1		1	NPHP4	1	6038351	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2619923	6038351	243212270	4	70292											
CHD5	26038	broad.mit.edu	37	chr1	6184676	6184676	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaaggtctctgcaccatcCgcccccggctcacacaggtg	7	6	11	17	3	2	0	1	0	1	0	4	1	3	0	4	3	1	2	4	3	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:6184676C>T	uc001amb.1	-	30	4540	c.4440G>A	c.(4438-4440)GCG>GCA	p.A1480A	CHD5_uc001alz.1_Silent_p.A337A|CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA|CHD5_uc009vlx.1_Intron	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1480					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		CTGCACCATCCGCCCCCGGCT	0.677													3	11					0	0	0.004672	0	0		T	6184676	T	T	6184676	2	4	128	1	0	0	0	0	0	0	0	1	3331	639	23	1		1	CHD5	1	6184676	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	146325	6184676	243065945	5	70293											
NOL9	79707	broad.mit.edu	37	chr1	6586028	6586028	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagtttaaaattgtaatcCgttgtgacataaggtactgt	13	14	10	4	1	0	1	0	1	0	0	1	2	1	2	1	2	1	4	1	2	6	7	rs146670350		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:6586028C>T	uc001ans.2	-	12	2014	c.1995G>A	c.(1993-1995)ACG>ACA	p.T665T	NOL9_uc010nzs.1_RNA	NM_024654	NP_078930	Q5SY16	NOL9_HUMAN	nucleolar protein 9	665					maturation of 5.8S rRNA	nucleolus	ATP binding|polynucleotide 5'-hydroxyl-kinase activity|RNA binding			skin(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;2.46e-35)|all_epithelial(116;1.41e-22)|all_lung(118;7.59e-07)|Lung NSC(185;4.28e-06)|Colorectal(325;4.52e-05)|Breast(487;0.000353)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.47e-07)|COAD - Colon adenocarcinoma(227;1.47e-05)|Kidney(185;5.27e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|BRCA - Breast invasive adenocarcinoma(365;0.00113)|STAD - Stomach adenocarcinoma(132;0.0017)|READ - Rectum adenocarcinoma(331;0.0649)		AATTGTAATCCGTTGTGACAT	0.468													58	137					0	0	0.01441	0	0		T	6586028	T	T	6586028	2	4	128	1	0	0	0	0	0	0	0	1	10547	639	23	1		1	NOL9	1	6586028	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	401352	6586028	242664593	6	70294											
CAMTA1	23261	broad.mit.edu	37	chr1	7725039	7725039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagtcagaggacggggcgcGggcccccttcacccaggcag	8	3	15	15	3	2	1	2	0	0	1	2	2	2	2	3	5	0	1	3	5	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:7725039G>A	uc001aoi.2	+	9	2639	c.2432G>A	c.(2431-2433)CGG>CAG	p.R811Q		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	811					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		GACGGGGCGCGGGCCCCCTTC	0.687													100	235					0	0	0.01441	0	0		A	7725039	A	A	7725039	3	1	128	1	0	0	0	0	1	0	0	0	2616	1116	39	1	2466	1	CAMTA1	1	7725039	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1139011	7725039	241525582	7	70295											
RERE	473	broad.mit.edu	37	chr1	8420188	8420188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacctagctgactggctggCgtgactgggggtgtccacca	6	9	15	11	1	0	2	0	2	0	0	1	2	1	2	3	4	2	3	3	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:8420188C>T	uc001ape.2	-	19	4189	c.3379G>A	c.(3379-3381)GCC>ACC	p.A1127T	RERE_uc001apf.2_Missense_Mutation_p.A1127T|RERE_uc010nzx.1_Missense_Mutation_p.A859T|RERE_uc001apd.2_Missense_Mutation_p.A573T	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1127					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		GACTGGCTGGCGTGACTGGGG	0.697													3	11					0	0	0.004672	0	0		T	8420188	T	T	8420188	3	4	128	1	0	0	0	0	1	0	0	0	13256	768	27	1	1345	1	RERE	1	8420188	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	695149	8420188	240830433	8	70296											
PTCHD2	57540	broad.mit.edu	37	chr1	11595533	11595533	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccctgctgtctccttgcAggcatcgtgtgcctggtggt	2	12	12	15	1	1	0	0	0	1	0	3	0	1	0	5	3	3	3	5	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:11595533A>G	uc001ash.3	+	20	3788	c.3650_splice	c.e20-2	p.G1217_splice		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2						cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GTCTCCTTGCAGGCATCGTGT	0.657													4	175					0	0	0.014758	0	0		G	11595533	G	G	11595533	5	3	128	1	0	0	0	0	0	0	1	0	12755	202	7	3	3722	3	PTCHD2	1	11595533	Splice_Site	SNP	A	TCGA-CG-4306-01A-01D-1158-08	3175345	11595533	237655088	9	70297											
ZBTB17	7709	broad.mit.edu	37	chr1	16268632	16268632	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgatagaagtccgcgtctgtCtggaacatgaccagtgcctg	9	10	12	10	2	2	3	0	2	2	1	3	4	3	4	3	1	2	0	3	1	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:16268632C>T	uc001axl.3	-	16	2483	c.2244G>A	c.(2242-2244)CAG>CAA	p.Q748Q	ZBTB17_uc010obq.1_Silent_p.Q665Q|ZBTB17_uc010obr.1_Silent_p.Q755Q|ZBTB17_uc010obs.1_Silent_p.Q672Q	NM_003443	NP_003434	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17	748	Interaction with HCFC1.				negative regulation of cell cycle	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		CCGCGTCTGTCTGGAACATGA	0.632													37	91					0	0	0.007835	0	0		T	16268632	T	T	16268632	2	4	128	1	0	0	0	0	0	0	0	1	17552	912	32	4		4	ZBTB17	1	16268632	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4673099	16268632	232981989	10	70298											
CROCC	9696	broad.mit.edu	37	chr1	17281945	17281945	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaggaggcaggcgagctgCgacgcagcctgggcgagggt	7	3	20	11	4	0	0	0	0	0	0	0	4	0	1	2	5	3	3	2	5	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:17281945C>T	uc001azt.2	+	24	3673	c.3604C>T	c.(3604-3606)CGA>TGA	p.R1202*	CROCC_uc001azu.2_Nonsense_Mutation_p.R505*	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	1202	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		AGGCGAGCTGCGACGCAGCCT	0.706													7	13					0	0	0.00308	0	0		T	17281945	T	T	17281945	4	4	128	1	0	0	0	0	0	1	0	0	3896	760	27	1	3698	1	CROCC	1	17281945	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1013313	17281945	231968676	11	70299											
RCC2	55920	broad.mit.edu	37	chr1	17747226	17747226	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacccagctgaccatattcAgggcacccaaaggaatagag	15	6	9	11	0	1	2	1	1	0	1	1	3	1	3	3	2	2	2	3	2	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:17747226A>G	uc001bal.2	-	6	890	c.843T>C	c.(841-843)CCT>CCC	p.P281P	RCC2_uc001bam.2_Silent_p.P281P	NM_001136204	NP_001129676	Q9P258	RCC2_HUMAN	regulator of chromosome condensation 2	281	RCC1 4.				cell division|mitotic prometaphase	chromosome, centromeric region|cytosol|microtubule|nucleolus|spindle					0		Colorectal(325;0.000147)|Breast(348;0.00122)|Renal(390;0.00145)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;7.69e-06)|COAD - Colon adenocarcinoma(227;1.19e-05)|Kidney(64;0.000189)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.0135)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)		GACCATATTCAGGGCACCCAA	0.428													31	106					0	0	0.009535	0	0		G	17747226	G	G	17747226	2	3	128	1	0	0	0	0	0	0	0	1	13199	175	7	3		3	RCC2	1	17747226	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	465281	17747226	231503395	12	70300											
HSPG2	3339	broad.mit.edu	37	chr1	22174254	22174254	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggctgcctggcgaccacGcagttcagatccaaggtctg	7	8	14	12	2	2	1	1	0	1	1	3	2	3	1	3	4	1	3	3	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:22174254G>A	uc001bfj.2	-	61	7993	c.7953C>T	c.(7951-7953)TGC>TGT	p.C2651C	HSPG2_uc009vqd.2_Silent_p.C2652C	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2651	Ig-like C2-type 12.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TGGCGACCACGCAGTTCAGAT	0.647													5	23					0	0	0.014758	0	0		A	22174254	A	A	22174254	2	1	128	1	0	0	0	0	0	0	0	1	7446	1079	38	1		1	HSPG2	1	22174254	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4427028	22174254	227076367	13	70301											
GRHL3	57822	broad.mit.edu	37	chr1	24669458	24669458	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagactgacctggagacGccacccgtgctgttcatccc	8	7	10	16	2	1	3	1	1	0	2	2	5	2	3	5	1	1	2	5	1	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:24669458G>A	uc001biy.2	+	11	1423	c.1377G>A	c.(1375-1377)ACG>ACA	p.T459T	GRHL3_uc001bix.2_Silent_p.T454T|GRHL3_uc001biz.2_Silent_p.T361T	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	454					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		ACCTGGAGACGCCACCCGTGC	0.632													84	224					0	0	0.01441	0	0		A	24669458	A	A	24669458	2	1	128	1	0	0	0	0	0	0	0	1	6781	1074	38	1		1	GRHL3	1	24669458	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2495204	24669458	224581163	14	70302											
FGR	2268	broad.mit.edu	37	chr1	27949552	27949552	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaggtggcctggtcacttaCgtattgttcaggatgtggaa	8	13	13	7	1	2	0	2	0	0	0	2	2	2	2	1	5	1	2	1	5	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:27949552C>T	uc001boj.2	-	2	475	c.329_splice	c.e2+1	p.T110_splice	FGR_uc001bok.2_Splice_Site_p.T110_splice|FGR_uc001bol.2_Splice_Site_p.T110_splice|FGR_uc001bom.2_Splice_Site_p.T110_splice	NM_005248	NP_005239	P09769	FGR_HUMAN	proto-oncogene tyrosine-protein kinase FGR						platelet activation|response to virus	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity			skin(2)	2		all_lung(284;2.05e-05)|Colorectal(325;3.46e-05)|Lung NSC(340;3.67e-05)|Renal(390;0.00121)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.25e-24)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00244)|KIRC - Kidney renal clear cell carcinoma(1967;0.0027)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		TGGTCACTTACGTATTGTTCA	0.333													14	51					0	0	0.020292	0	0		T	27949552	T	T	27949552	5	4	128	1	0	0	0	0	0	0	1	0	5888	550	19	1	1299	1	FGR	1	27949552	Splice_Site	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3280094	27949552	221301069	15	70303											
LAPTM5	7805	broad.mit.edu	37	chr1	31208095	31208095	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatctgtagcaccgccacacGcacttgaacatgtagacctg	12	8	8	13	2	1	2	0	1	1	1	1	2	1	2	3	0	2	4	3	0	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:31208095G>T	uc001bsc.2	-	7	715	c.624C>A	c.(622-624)TGC>TGA	p.C208*		NM_006762	NP_006753	Q13571	LAPM5_HUMAN	lysosomal protein transmembrane 5	208					transport	integral to plasma membrane|lysosomal membrane					0		Colorectal(325;0.0199)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0966)|Medulloblastoma(700;0.151)|Ovarian(437;0.192)		STAD - Stomach adenocarcinoma(196;0.0196)|READ - Rectum adenocarcinoma(331;0.0649)		ACCGCCACACGCACTTGAACA	0.537													59	223					3.61411e-23	3.94375e-23	0.01441	1	0		T	31208095	T	T	31208095	4	4	128	1	0	0	0	0	0	1	0	0	8642	1079	38	5	172	5	LAPTM5	1	31208095	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3258543	31208095	218042526	16	70304											
COL16A1	1307	broad.mit.edu	37	chr1	32145288	32145288	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaatacctggtggacccTgagggagagagaaaagagtc	13	5	16	7	1	0	4	0	1	0	3	1	8	0	6	2	4	1	0	2	4	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:32145288T>C	uc001btk.1	-	42	3084	c.2719_splice	c.e42-1	p.G907_splice	COL16A1_uc001btj.1_Splice_Site_p.G720_splice|COL16A1_uc001btl.3_Intron	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor						cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		TGGTGGACCCTGAGGGAGAGA	0.622													61	208					0	0	0.01441	0	0		C	32145288	C	C	32145288	5	2	128	1	0	0	0	0	0	0	1	0	3676	1594	55	3	2217	3	COL16A1	1	32145288	Splice_Site	SNP	T	TCGA-CG-4306-01A-01D-1158-08	937193	32145288	217105333	17	70305											
C1orf94	84970	broad.mit.edu	37	chr1	34663184	34663184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggacagaggacaggggcCgcatcctaggtgactccaac	11	4	15	11	1	0	2	0	1	0	1	2	4	2	4	3	6	1	1	3	6	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:34663184C>T	uc001bxs.3	+	2	508	c.109C>T	c.(109-111)CGC>TGC	p.R37C	C1orf94_uc001bxt.2_Missense_Mutation_p.R227C	NM_032884	NP_116273	Q6P1W5	CA094_HUMAN	hypothetical protein LOC84970 isoform b	37							protein binding				0		Myeloproliferative disorder(586;0.0393)				GGACAGGGGCCGCATCCTAGG	0.542													17	78					0	0	0.006122	0	0		T	34663184	T	T	34663184	3	4	128	1	0	0	0	0	1	0	0	0	2074	652	23	1	685	1	C1orf94	1	34663184	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2517896	34663184	214587437	18	70306											
NCDN	23154	broad.mit.edu	37	chr1	36024729	36024729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggcaaggcgagcatcatgGcctcggattgcgagccagct	8	7	15	11	3	1	0	1	0	0	0	2	3	1	1	2	4	4	3	2	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:36024729G>A	uc001bza.2	+	3	182	c.55G>A	c.(55-57)GCC>ACC	p.A19T	KIAA0319L_uc001byx.2_5'Flank|KIAA0319L_uc010ohw.1_5'Flank|KIAA0319L_uc001byz.2_5'Flank|KIAA0319L_uc010ohx.1_5'Flank|NCDN_uc001bzb.2_Missense_Mutation_p.A19T|NCDN_uc001bzc.2_Missense_Mutation_p.A2T	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	19					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GAGCATCATGGCCTCGGATTG	0.488													5	121					0	0	0.001984	0	0		A	36024729	A	A	36024729	3	1	128	1	0	0	0	0	1	0	0	0	10233	1203	42	2	61	2	NCDN	1	36024729	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1361545	36024729	213225892	19	70307											
EIF2C4	192670	broad.mit.edu	37	chr1	36307280	36307280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttggaagaagattaccggCcaggaataacttatattgtg	13	11	11	6	1	0	2	0	0	0	2	0	4	0	4	2	3	2	1	2	3	7	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:36307280C>T	uc001bzj.1	+	15	2294	c.2104C>T	c.(2104-2106)CCA>TCA	p.P702S		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4	702	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				AGATTACCGGCCAGGAATAAC	0.353													45	146					0	0	0.01441	0	0		T	36307280	T	T	36307280	3	4	128	1	0	0	0	0	1	0	0	0	5014	739	26	2	2162	2	EIF2C4	1	36307280	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	282551	36307280	212943341	20	70308											
EIF2C1	26523	broad.mit.edu	37	chr1	36358210	36358210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcctcagatctttggtgatCgcaagcctgtgtatgatgga	9	12	12	8	1	2	3	1	2	1	1	3	4	2	4	2	2	2	2	2	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:36358210C>T	uc001bzl.2	+	3	475	c.262C>T	c.(262-264)CGC>TGC	p.R88C	EIF2C1_uc001bzk.2_Missense_Mutation_p.R13C|EIF2C1_uc009vuy.2_5'Flank	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	88					negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CTTTGGTGATCGCAAGCCTGT	0.517													20	72					0	0	0.012319	0	0		T	36358210	T	T	36358210	3	4	128	1	0	0	0	0	1	0	0	0	5011	884	31	1	272	1	EIF2C1	1	36358210	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	50930	36358210	212892411	21	70309											
EIF2C3	192669	broad.mit.edu	37	chr1	36432609	36432609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtaactatatttggagaccGtagaccagtttatgatggaa	14	12	10	5	1	0	3	0	1	0	2	0	5	0	4	2	2	1	3	2	2	6	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:36432609G>A	uc001bzp.2	+	3	501	c.245G>A	c.(244-246)CGT>CAT	p.R82H	EIF2C3_uc001bzn.1_Missense_Mutation_p.R82H|EIF2C3_uc001bzo.2_RNA|EIF2C3_uc001bzq.2_Intron	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	82					mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TTTGGAGACCGTAGACCAGTT	0.383													21	63					0	0	0.010504	0	0		A	36432609	A	A	36432609	3	1	128	1	0	0	0	0	1	0	0	0	5013	1145	40	1	255	1	EIF2C3	1	36432609	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	74399	36432609	212818012	22	70310											
MFSD2A	84879	broad.mit.edu	37	chr1	40433301	40433301	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctttgtccatccacagcTctcggccactttaaccattc	7	12	4	18	1	1	0	0	0	1	0	5	0	3	0	6	1	2	1	6	1	1	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:40433301T>G	uc001cev.2	+	10	1233	c.1052T>G	c.(1051-1053)CTC>CGC	p.L351R	MFSD2A_uc010ojb.1_Missense_Mutation_p.L299R|MFSD2A_uc001ceu.2_Missense_Mutation_p.L338R|MFSD2A_uc010ojc.1_Missense_Mutation_p.L182R|MFSD2A_uc009vvy.2_Intron|MFSD2A_uc001cex.2_Missense_Mutation_p.L2R	NM_001136493	NP_001129965	Q8NA29	MFS2A_HUMAN	major facilitator superfamily domain containing	351	Helical; (Potential).				transmembrane transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)|pancreas(1)	2						CATCCACAGCTCTCGGCCACT	0.557													40	156					0	0	0.00874	0	0		G	40433301	G	G	40433301	3	3	128	1	0	0	0	0	1	0	0	0	9548	1565	54	5	1090	5	MFSD2A	1	40433301	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	4000692	40433301	208817320	23	70311											
KIAA0467	23334	broad.mit.edu	37	chr1	43903494	43903494	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccttagacatggtctctagCcgcagttcagatgctgctcg	7	11	10	13	2	2	2	1	0	1	2	4	2	2	2	2	1	3	4	2	1	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:43903494C>T	uc001cjk.1	+	31	4194	c.3732C>T	c.(3730-3732)AGC>AGT	p.S1244S		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	2143						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGGTCTCTAGCCGCAGTTCAG	0.577													42	120					0	0	0.010771	0	0		T	43903494	T	T	43903494	2	4	128	1	0	0	0	0	0	0	0	1	8194	738	26	2		2	KIAA0467	1	43903494	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3470193	43903494	205347127	24	70312											
B4GALT2	8704	broad.mit.edu	37	chr1	44447558	44447558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctacaccccatcttgaggCggcagcggctgcgctacggc	7	7	12	15	4	2	1	0	1	2	0	2	1	2	1	2	4	4	3	2	4	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:44447558C>T	uc001clg.2	+	3	881	c.511C>T	c.(511-513)CGG>TGG	p.R171W	B4GALT2_uc001clh.2_Missense_Mutation_p.R105W|B4GALT2_uc010okl.1_Missense_Mutation_p.R200W|B4GALT2_uc001cli.2_Missense_Mutation_p.R171W	NM_003780	NP_003771	O60909	B4GT2_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	171	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			N-Acetyl-D-glucosamine(DB00141)	CATCTTGAGGCGGCAGCGGCT	0.612													15	51					0	0	0.004007	0	0		T	44447558	T	T	44447558	3	4	128	1	0	0	0	0	1	0	0	0	1272	759	27	1	517	1	B4GALT2	1	44447558	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	544064	44447558	204803063	25	70313											
TMEM53	79639	broad.mit.edu	37	chr1	45120723	45120723	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtacagcatgacgccaccGttgctgaagacatggaagag	12	6	13	10	3	0	4	0	2	0	2	0	5	0	5	2	2	3	4	2	2	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:45120723G>A	uc001cmc.2	-	3	378	c.342C>T	c.(340-342)AAC>AAT	p.N114N	TMEM53_uc001cmb.1_Intron|TMEM53_uc001cmd.2_Silent_p.N41N|TMEM53_uc009vxh.1_Translation_Start_Site|TMEM53_uc010ola.1_Translation_Start_Site	NM_024587	NP_078863	Q6P2H8	TMM53_HUMAN	transmembrane protein 53	114						integral to membrane				ovary(2)	2	Acute lymphoblastic leukemia(166;0.155)					TGACGCCACCGTTGCTGAAGA	0.577											OREG0013446	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	51					0	0	0.010504	0	0		A	45120723	A	A	45120723	2	1	128	1	0	0	0	0	0	0	0	1	16204	1136	40	1		1	TMEM53	1	45120723	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	673165	45120723	204129898	26	70314											
HPDL	84842	broad.mit.edu	37	chr1	45793721	45793721	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggcagatccgagctgcaGggcacgagcctcatctgctt	9	7	13	12	2	2	2	1	0	1	2	3	4	3	2	2	2	4	5	2	2	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:45793721G>T	uc001cne.2	+	1	1177	c.901G>T	c.(901-903)GGG>TGG	p.G301W		NM_032756	NP_116145	Q96IR7	HPDL_HUMAN	glyoxalase domain containing 1	301					aromatic amino acid family metabolic process		4-hydroxyphenylpyruvate dioxygenase activity|metal ion binding				0	Acute lymphoblastic leukemia(166;0.155)					CCGAGCTGCAGGGCACGAGCC	0.582													30	75					5.60225e-13	5.95183e-13	0.009535	1	0		T	45793721	T	T	45793721	3	4	128	1	0	0	0	0	1	0	0	0	7349	1000	35	5	903	5	HPDL	1	45793721	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	672998	45793721	203456900	27	70315											
NASP	4678	broad.mit.edu	37	chr1	46073759	46073759	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggagatcagactcctatTgaaccacagacttctataga	14	10	8	9	0	2	5	1	1	1	4	3	6	3	5	2	1	1	1	2	1	5	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:46073759T>C	uc001coi.1	+	6	1278	c.1176T>C	c.(1174-1176)ATT>ATC	p.I392I	NASP_uc010olq.1_Silent_p.I355I|NASP_uc001coh.1_Silent_p.I394I|NASP_uc001coj.1_Intron|NASP_uc010olr.1_Silent_p.I328I|NASP_uc001cok.1_Silent_p.I275I	NM_002482	NP_002473	P49321	NASP_HUMAN	nuclear autoantigenic sperm protein isoform 2	392	Glu-rich (acidic).				blastocyst development|cell cycle|cell proliferation|DNA replication|histone exchange|protein transport	cytoplasm|nucleus	Hsp90 protein binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.211)					AGACTCCTATTGAACCACAGA	0.493													6	266					0	0	0.001168	0	0		C	46073759	C	C	46073759	2	2	128	1	0	0	0	0	0	0	0	1	10190	1800	63	3		3	NASP	1	46073759	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	280038	46073759	203176862	28	70316											
GPX7	2882	broad.mit.edu	37	chr1	53074041	53074041	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcagtggaggaggtcagaCcccagatcacagcgctcgtg	9	7	14	11	2	3	2	3	0	0	2	4	4	3	4	2	3	1	1	2	3	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:53074041C>A	uc001cue.2	+	3	547	c.508C>A	c.(508-510)CCC>ACC	p.P170T		NM_015696	NP_056511	Q96SL4	GPX7_HUMAN	glutathione peroxidase 7 precursor	170					response to oxidative stress	extracellular region	glutathione peroxidase activity				0					Glutathione(DB00143)	GGAGGTCAGACCCCAGATCAC	0.577													51	183					9.55421e-19	1.03575e-18	0.01441	1	0		A	53074041	A	A	53074041	3	1	128	1	0	0	0	0	1	0	0	0	6761	507	18	5	518	5	GPX7	1	53074041	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	7000282	53074041	196176580	29	70317											
FAM151A	338094	broad.mit.edu	37	chr1	55075579	55075579	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttttcagccacagttccctCgaggccagtgttcagcagga	8	10	11	12	1	2	0	2	0	0	0	4	2	3	1	3	2	2	4	3	2	0	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:55075579C>T	uc001cxn.2	-	8	1252	c.1120G>A	c.(1120-1122)GAG>AAG	p.E374K	ACOT11_uc001cxj.1_3'UTR|ACOT11_uc001cxl.1_3'UTR|ACOT11_uc001cxm.1_Intron	NM_176782	NP_788954	Q8WW52	F151A_HUMAN	hypothetical protein LOC338094	374						integral to membrane					0						ACAGTTCCCTCGAGGCCAGTG	0.547													22	59					0	0	0.005443	0	0		T	55075579	T	T	55075579	3	4	128	1	0	0	0	0	1	0	0	0	5469	893	31	1	641	1	FAM151A	1	55075579	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2001538	55075579	194175042	30	70318											
TMEM61	199964	broad.mit.edu	37	chr1	55457540	55457540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggttgacatccccacttacGaggaagccgtgagcttccca	9	9	10	13	2	0	2	0	2	0	0	2	4	2	3	4	2	3	2	4	2	2	3	rs142872695		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:55457540G>A	uc001cyd.2	+	3	671	c.397G>A	c.(397-399)GAG>AAG	p.E133K		NM_182532	NP_872338	Q8N0U2	TMM61_HUMAN	transmembrane protein 61	133						integral to membrane					0						CCCCACTTACGAGGAAGCCGT	0.627													46	137					0	0	0.01441	0	0		A	55457540	A	A	55457540	3	1	128	1	0	0	0	0	1	0	0	0	16213	1059	37	1	407	1	TMEM61	1	55457540	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	381961	55457540	193793081	31	70319											
JAK1	3716	broad.mit.edu	37	chr1	65335080	65335080	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagccatccctagacactcGttctcaatatcatgtccatc	11	11	4	15	1	2	1	2	0	1	1	7	1	4	1	3	0	1	1	3	0	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:65335080G>A	uc001dbu.1	-	6	810	c.561C>T	c.(559-561)AAC>AAT	p.N187N	JAK1_uc009wam.1_Silent_p.N175N	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	187	FERM.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		CTAGACACTCGTTCTCAATAT	0.512			Mis		ALL								35	106					0	0	0.005524	0	0		A	65335080	A	A	65335080	2	1	128	1	0	0	0	0	0	0	0	1	7953	1136	40	1		1	JAK1	1	65335080	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	9877540	65335080	183915541	32	70320											
IL12RB2	3595	broad.mit.edu	37	chr1	67861543	67861543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacccagcctgtccctggaCggtgctcccagcaggtgacc	8	6	11	16	1	0	1	0	1	0	0	2	2	2	2	5	3	4	2	5	3	1	0	rs141507006		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:67861543C>T	uc001ddu.2	+	16	3000	c.2360C>T	c.(2359-2361)ACG>ATG	p.T787M	IL12RB2_uc010oqi.1_3'UTR|IL12RB2_uc010oqj.1_3'UTR|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Missense_Mutation_p.T701M|IL12RB2_uc010oqm.1_3'UTR|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	787	Cytoplasmic (Potential).				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						TGTCCCTGGACGGTGCTCCCA	0.582													84	281					0	0	0.01441	0	0		T	67861543	T	T	67861543	3	4	128	1	0	0	0	0	1	0	0	0	7643	536	19	1	2418	1	IL12RB2	1	67861543	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2526463	67861543	181389078	33	70321											
SERBP1	26135	broad.mit.edu	37	chr1	67895978	67895978	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccttcctgtaagtgcccAggcatgatggtggctcggcg	7	9	14	11	2	0	1	0	1	0	0	2	1	1	1	3	4	2	3	3	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:67895978A>G	uc001ddv.2	-	1	146	c.6T>C	c.(4-6)CCT>CCC	p.P2P	SERBP1_uc001ddx.2_Silent_p.P2P|SERBP1_uc001ddy.2_Silent_p.P2P|SERBP1_uc001ddw.2_Silent_p.P2P	NM_001018067	NP_001018077	Q8NC51	PAIRB_HUMAN	SERPINE1 mRNA binding protein 1 isoform 1	2					regulation of mRNA stability	nucleus|perinuclear region of cytoplasm	mRNA 3'-UTR binding|protein binding			skin(1)	1						GTAAGTGCCCAGGCATGATGG	0.632													26	97					0	0	0.015359	0	0		G	67895978	G	G	67895978	2	3	128	1	0	0	0	0	0	0	0	1	14100	175	7	3		3	SERBP1	1	67895978	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	34435	67895978	181354643	34	70322											
LRRC7	57554	broad.mit.edu	37	chr1	70504915	70504915	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgaatgaggatgctgtGgtgaatgcccagttcgcaag	9	11	14	7	1	1	3	0	3	1	0	2	4	1	4	1	2	2	3	1	2	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:70504915G>T	uc001dep.2	+	19	3324	c.3294G>T	c.(3292-3294)GTG>GTT	p.V1098V	LRRC7_uc009wbg.2_Silent_p.V382V|LRRC7_uc001deq.2_Silent_p.V339V	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1098						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						AGGATGCTGTGGTGAATGCCC	0.527													53	143					1.4374e-25	1.57758e-25	0.01441	1	0		T	70504915	T	T	70504915	2	4	128	1	0	0	0	0	0	0	0	1	9038	1335	47	5		5	LRRC7	1	70504915	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2608937	70504915	178745706	35	70323											
CTH	1491	broad.mit.edu	37	chr1	70877194	70877194	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggccaggatccagagcaatgGacctccagggctgtagtgcc	9	6	14	12	0	0	1	0	0	0	1	2	3	2	3	5	4	2	3	5	4	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:70877194G>A	uc001dfd.2	+	1	240	c.96G>A	c.(94-96)TGG>TGA	p.W32*	CTH_uc009wbl.1_RNA|CTH_uc001dfe.2_Nonsense_Mutation_p.W32*|CTH_uc010oqq.1_Nonsense_Mutation_p.W32*	NM_001902	NP_001893	P32929	CGL_HUMAN	cystathionase isoform 1	32					cysteine biosynthetic process|hydrogen sulfide biosynthetic process|protein homotetramerization|protein-pyridoxal-5-phosphate linkage via peptidyl-N6-pyridoxal phosphate-L-lysine	cytoplasm|nucleus	cystathionine gamma-lyase activity|L-cysteine desulfhydrase activity|pyridoxal phosphate binding			lung(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	CAGAGCAATGGACCTCCAGGG	0.602													5	169					0	0	0.014758	0	0		A	70877194	A	A	70877194	4	1	128	1	0	0	0	0	0	1	0	0	4012	1183	41	4	98	4	CTH	1	70877194	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	372279	70877194	178373427	36	70324											
NEXN	91624	broad.mit.edu	37	chr1	78395171	78395171	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaaaagaaggcgtttgcTgaagcaaggagaaatatggt	17	7	14	3	1	0	4	0	1	0	3	0	6	0	4	0	3	2	3	0	3	8	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:78395171T>C	uc001dic.3	+	9	1332	c.1035T>C	c.(1033-1035)GCT>GCC	p.A345A	NEXN_uc001dia.3_Silent_p.A331A|NEXN_uc009wcb.1_Silent_p.A267A|NEXN_uc001dib.3_Silent_p.A281A|NEXN_uc001did.1_Silent_p.A255A|NEXN_uc001dif.1_Silent_p.A237A	NM_144573	NP_653174	Q0ZGT2	NEXN_HUMAN	nexilin (F actin binding protein)	345	Glu-rich.				regulation of cell migration|regulation of cytoskeleton organization	cytoskeleton|Z disc	actin filament binding|structural constituent of muscle			ovary(2)	2				Colorectal(170;0.114)		agGCGTTTGCTGAAGCAAGGA	0.194													32	82					0	0	0.012213	0	0		C	78395171	C	C	78395171	2	2	128	1	0	0	0	0	0	0	0	1	10374	1567	55	3		3	NEXN	1	78395171	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	7517977	78395171	170855450	37	70325											
FUBP1	8880	broad.mit.edu	37	chr1	78428529	78428529	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgaattgtaaataacttcaTattaggatctgcatttggtg	13	15	8	5	1	2	0	1	0	1	0	2	2	2	1	0	2	2	2	0	2	6	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:78428529T>C	uc001dii.2	-	14	1359	c.1270A>G	c.(1270-1272)ATG>GTG	p.M424V	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Missense_Mutation_p.M445V	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	424	KH 4.				transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						AATAACTTCATATTAGGATCT	0.363													36	153					0	0	0.006999	0	0		C	78428529	C	C	78428529	3	2	128	1	0	0	0	0	1	0	0	0	6106	1406	49	3	692	3	FUBP1	1	78428529	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	33358	78428529	170822092	38	70326											
PRKACB	5567	broad.mit.edu	37	chr1	84650786	84650786	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttatttgttcataggatAattctaatttatacatggtt	11	22	5	3	0	2	0	1	0	1	0	2	1	2	1	0	2	1	2	0	2	6	13			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:84650786A>G	uc001djj.2	+	5	604	c.340A>G	c.(340-342)AAT>GAT	p.N114D	PRKACB_uc001djl.2_Missense_Mutation_p.N161D|PRKACB_uc010ort.1_Missense_Mutation_p.N121D|PRKACB_uc001djn.2_Missense_Mutation_p.N118D|PRKACB_uc010oru.1_Missense_Mutation_p.N102D|PRKACB_uc001djp.2_Missense_Mutation_p.N120D|PRKACB_uc001djq.2_Missense_Mutation_p.N84D|PRKACB_uc010orv.1_Missense_Mutation_p.N101D|PRKACB_uc001dji.2_Missense_Mutation_p.N114D|PRKACB_uc001djk.2_Missense_Mutation_p.N161D|PRKACB_uc009wcf.1_Missense_Mutation_p.N120D	NM_002731	NP_002722	P22694	KAPCB_HUMAN	cAMP-dependent protein kinase catalytic subunit	114	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|regulation of insulin secretion|synaptic transmission|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|magnesium ion binding|protein binding			lung(2)|ovary(1)	3				all cancers(265;0.00536)|Epithelial(280;0.0161)|OV - Ovarian serous cystadenocarcinoma(397;0.141)		TTCATAGGATAATTCTAATTT	0.274													51	130					0	0	0.01441	0	0		G	84650786	G	G	84650786	3	3	128	1	0	0	0	0	1	0	0	0	12520	362	13	3	549	3	PRKACB	1	84650786	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	6222257	84650786	164599835	39	70327											
ZNHIT6	54680	broad.mit.edu	37	chr1	86173931	86173931	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agctacgctgtggagacctcCcccagacttcccttcatttt	7	12	7	15	1	1	2	1	0	0	2	3	3	3	2	4	1	2	2	4	1	1	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:86173931C>A	uc001dlh.2	-	1	171	c.37G>T	c.(37-39)GGA>TGA	p.G13*	ZNHIT6_uc010osc.1_Nonsense_Mutation_p.G13*	NM_017953	NP_060423	Q9NWK9	BCD1_HUMAN	zinc finger, HIT type 6	13					box C/D snoRNP assembly|ribosome biogenesis	pre-snoRNP complex	identical protein binding|metal ion binding			large_intestine(1)	1						TGGAGACCTCCCCCAGACTTC	0.587													31	118					8.53417e-09	8.93096e-09	0.013726	1	0		A	86173931	A	A	86173931	4	1	128	1	0	0	0	0	0	1	0	0	18234	632	22	5	1415	5	ZNHIT6	1	86173931	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1523145	86173931	163076690	40	70328											
GBP6	163351	broad.mit.edu	37	chr1	89847424	89847424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaagctccccacagacaCgctccaggagctgctggaca	11	5	11	14	1	0	2	0	1	0	1	2	4	2	4	3	2	3	4	3	2	1	0	rs141648455	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:89847424C>T	uc001dnf.2	+	7	1317	c.1043C>T	c.(1042-1044)ACG>ATG	p.T348M	GBP6_uc010ost.1_Missense_Mutation_p.T218M	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	348							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		CCCACAGACACGCTCCAGGAG	0.567													24	65					0	0	0.00632	0	0		T	89847424	T	T	89847424	3	4	128	1	0	0	0	0	1	0	0	0	6293	536	19	1	1065	1	GBP6	1	89847424	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3673493	89847424	159403197	41	70329											
AGL	178	broad.mit.edu	37	chr1	100353617	100353617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaggaagatggtggagggtGctatgacataccaaactggt	14	8	14	5	0	0	2	0	1	0	1	0	4	0	4	1	5	3	1	1	5	5	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:100353617G>A	uc001dsi.1	+	21	3165	c.2765G>A	c.(2764-2766)TGC>TAC	p.C922Y	AGL_uc001dsj.1_Missense_Mutation_p.C922Y|AGL_uc001dsk.1_Missense_Mutation_p.C922Y|AGL_uc001dsl.1_Missense_Mutation_p.C922Y|AGL_uc001dsm.1_Missense_Mutation_p.C906Y|AGL_uc001dsn.1_Missense_Mutation_p.C905Y	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	922	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		GGTGGAGGGTGCTATGACATA	0.408													25	93					0	0	0.01892	0	0		A	100353617	A	A	100353617	3	1	128	1	0	0	0	0	1	0	0	0	384	1319	46	2	2912	2	AGL	1	100353617	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	10506193	100353617	148897004	42	70330											
SLC35A3	23443	broad.mit.edu	37	chr1	100480939	100480939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaagaatggattttttcaggGatataaccgactgacctgga	14	11	10	6	1	1	2	1	1	0	1	1	6	1	5	2	3	1	0	2	3	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:100480939G>A	uc001dsp.1	+	6	913	c.716G>A	c.(715-717)GGA>GAA	p.G239E	SLC35A3_uc001dsq.1_Missense_Mutation_p.G239E|SLC35A3_uc009wdy.1_Intron|SLC35A3_uc001dsr.1_Missense_Mutation_p.G281E|SLC35A3_uc001dss.1_Missense_Mutation_p.G158E	NM_012243	NP_036375	Q9Y2D2	S35A3_HUMAN	solute carrier family 35 member 3A	239					UDP-N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	sugar:hydrogen symporter activity|UDP-N-acetylglucosamine transmembrane transporter activity				0		all_epithelial(167;0.000686)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.124)|all cancers(265;0.198)|Lung(183;0.199)		TTTTTTCAGGGATATAACCGA	0.294													16	62					0	0	0.007413	0	0		A	100480939	A	A	100480939	3	1	128	1	0	0	0	0	1	0	0	0	14597	1174	41	4	734	4	SLC35A3	1	100480939	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	127322	100480939	148769682	43	70331											
S1PR1	1901	broad.mit.edu	37	chr1	101705604	101705604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaattcagccgcagcaaatCggacaattcctcccaccccc	11	6	7	17	2	1	0	1	0	0	0	4	2	3	2	5	2	2	2	5	2	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:101705604C>T	uc001dud.2	+	2	1578	c.1064C>T	c.(1063-1065)TCG>TTG	p.S355L	S1PR1_uc009weg.2_Missense_Mutation_p.S355L	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	355	Cytoplasmic (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						CGCAGCAAATCGGACAATTCC	0.537													52	112					0	0	0.01441	0	0		T	101705604	T	T	101705604	3	4	128	1	0	0	0	0	1	0	0	0	13818	893	31	1	1066	1	S1PR1	1	101705604	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1224665	101705604	147545017	44	70332											
OLFM3	118427	broad.mit.edu	37	chr1	102270106	102270106	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcacctccaaggtatcttgGttaagttggctgatgacaat	11	13	9	8	0	2	2	1	2	1	0	3	2	3	2	2	3	0	4	2	3	4	4	rs144970574	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:102270106G>A	uc001duf.2	-	6	1196	c.1125C>T	c.(1123-1125)AAC>AAT	p.N375N	OLFM3_uc001dug.2_Silent_p.N355N|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_Silent_p.N280N|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	375	Olfactomedin-like.					extracellular region				ovary(2)|skin(1)	3		all_epithelial(167;1.87e-06)|all_lung(203;8.12e-05)|Lung NSC(277;0.000189)		all cancers(265;0.0843)|Epithelial(280;0.0921)|COAD - Colon adenocarcinoma(174;0.145)		AGGTATCTTGGTTAAGTTGGC	0.483													34	98					0	0	0.012213	0	0		A	102270106	A	A	102270106	2	1	128	1	0	0	0	0	0	0	0	1	10873	1252	44	4		4	OLFM3	1	102270106	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	564502	102270106	146980515	45	70333											
COL11A1	1301	broad.mit.edu	37	chr1	103345259	103345259	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcacaaccatcatacagtgTtttgataaaaggattattgt	14	13	7	7	1	1	1	1	1	0	0	1	2	1	2	1	1	2	2	1	1	5	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:103345259T>C	uc001dul.2	-	66	5572	c.5254A>G	c.(5254-5256)ACA>GCA	p.T1752A	COL11A1_uc001duk.2_Missense_Mutation_p.T948A|COL11A1_uc001dum.2_Missense_Mutation_p.T1764A|COL11A1_uc001dun.2_Missense_Mutation_p.T1713A|COL11A1_uc009weh.2_Missense_Mutation_p.T1636A	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1752	Fibrillar collagen NC1.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TCATACAGTGTTTTGATAAAA	0.438													4	117					0	0	0.009096	0	0		C	103345259	C	C	103345259	3	2	128	1	0	0	0	0	1	0	0	0	3670	1725	60	3	174	3	COL11A1	1	103345259	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1075153	103345259	145905362	46	70334											
SLC25A24	29957	broad.mit.edu	37	chr1	108681756	108681756	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtgctggataaggcaccGcatcccagcaacaccatgac	12	5	10	14	1	0	1	0	1	0	0	1	2	1	2	3	3	3	4	3	3	2	1	rs144919358		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:108681756G>A	uc001dvn.3	-	9	1387	c.1173C>T	c.(1171-1173)TGC>TGT	p.C391C	SLC25A24_uc001dvm.2_Silent_p.C372C	NM_013386	NP_037518	Q6NUK1	SCMC1_HUMAN	solute carrier family 25 member 24 isoform 1	391	Solcar 3.|Helical; Name=5; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)	1		all_epithelial(167;3.72e-05)|all_lung(203;0.000567)|Lung NSC(277;0.0011)|Melanoma(281;0.211)		Colorectal(144;0.0345)|Lung(183;0.0971)|COAD - Colon adenocarcinoma(174;0.127)|Epithelial(280;0.134)		ATAAGGCACCGCATCCCAGCA	0.463													31	77					0	0	0.009535	0	0		A	108681756	A	A	108681756	2	1	128	1	0	0	0	0	0	0	0	1	14512	1079	38	1		1	SLC25A24	1	108681756	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5336497	108681756	140568865	47	70335											
SORT1	6272	broad.mit.edu	37	chr1	109857386	109857386	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaggataattggaacagaAtttgacttggaattcttgag	13	12	11	5	0	1	3	0	2	1	1	1	6	1	6	1	3	1	0	1	3	4	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:109857386A>C	uc001dxm.1	-	18	2314	c.2265T>G	c.(2263-2265)AAT>AAG	p.N755K	SORT1_uc010ovi.1_Missense_Mutation_p.N618K	NM_002959	NP_002950	Q99523	SORT_HUMAN	sortilin 1 preproprotein	755	Interactions with LRPAP1 and NGFB.|Extracellular (Potential).				endocytosis|endosome to lysosome transport|endosome transport via multivesicular body sorting pathway|glucose import|Golgi to endosome transport|induction of apoptosis by extracellular signals|myotube differentiation|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|neuropeptide signaling pathway|ossification|plasma membrane to endosome transport|regulation of gene expression|response to insulin stimulus|vesicle organization	cell surface|coated pit|early endosome|endoplasmic reticulum membrane|endosome membrane|Golgi cisterna membrane|integral to membrane|lysosomal membrane|microsome|nuclear membrane|perinuclear region of cytoplasm|plasma membrane	enzyme binding|nerve growth factor binding|nerve growth factor receptor activity|neurotensin receptor activity, non-G-protein coupled			ovary(1)	1		all_epithelial(167;4.69e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0529)|Colorectal(144;0.142)|Epithelial(280;0.145)|Kidney(133;0.169)|all cancers(265;0.184)		TTGGAACAGAATTTGACTTGG	0.438													16	43					0	0	0.004007	0	0		C	109857386	C	C	109857386	3	2	128	1	0	0	0	0	1	0	0	0	14960	98	4	5	242	5	SORT1	1	109857386	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	1175630	109857386	139393235	48	70336											
RHOC	389	broad.mit.edu	37	chr1	113245673	113245673	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggatgacatcagtgtcCgggtaggagagaggccgcag	11	6	17	7	2	1	3	1	2	0	1	2	6	2	5	2	4	0	2	2	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:113245673C>T	uc001ecp.1	-	4	525	c.225G>A	c.(223-225)CCG>CCA	p.P75P	RHOC_uc001ecq.1_Silent_p.P75P|RHOC_uc001ecr.1_Silent_p.P75P|RHOC_uc009wgk.1_Silent_p.P75P	NM_001042679	NP_001036144	P08134	RHOC_HUMAN	ras homolog gene family, member C precursor	75					axon guidance|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|signal transducer activity			ovary(1)	1	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CATCAGTGTCCGGGTAGGAGA	0.602													46	129					0	0	0.013114	0	0		T	113245673	T	T	113245673	2	4	128	1	0	0	0	0	0	0	0	1	13361	639	23	1		1	RHOC	1	113245673	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3388287	113245673	136004948	49	70337											
AMPD1	270	broad.mit.edu	37	chr1	115217434	115217434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaatgctgtcatgagatggGtgagggctccagcttctcca	8	11	13	9	0	2	3	1	3	1	1	4	4	3	3	2	2	2	3	2	2	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:115217434G>A	uc001efe.1	-	13	1823	c.1739C>T	c.(1738-1740)ACC>ATC	p.T580I	AMPD1_uc001eff.1_Missense_Mutation_p.T576I	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	580					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	CATGAGATGGGTGAGGGCTCC	0.453													35	88					0	0	0.019004	0	0		A	115217434	A	A	115217434	3	1	128	1	0	0	0	0	1	0	0	0	585	1261	44	4	520	4	AMPD1	1	115217434	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1971761	115217434	134033187	50	70338											
WARS2	10352	broad.mit.edu	37	chr1	119575735	119575735	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagcagtgttcatgcccgcGctgcggcgcaccacttcctc	5	8	11	17	5	1	0	1	0	0	0	3	1	2	0	3	1	3	4	3	1	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:119575735G>A	uc001ehn.2	-	6	910	c.882C>T	c.(880-882)AGC>AGT	p.S294S	WARS2_uc010oxf.1_Silent_p.S200S|WARS2_uc001ehm.2_3'UTR|WARS2_uc010oxg.1_Silent_p.S237S|WARS2_uc010oxh.1_3'UTR	NM_015836	NP_056651	Q9UGM6	SYWM_HUMAN	mitochondrial tryptophanyl tRNA synthetase 2	294					tryptophanyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|tryptophan-tRNA ligase activity				0	all_neural(166;0.187)	all_lung(203;2.48e-06)|Lung NSC(69;1.74e-05)|all_epithelial(167;0.000564)		Lung(183;0.0629)	L-Tryptophan(DB00150)	TCATGCCCGCGCTGCGGCGCA	0.597													66	138					0	0	0.01441	0	0		A	119575735	A	A	119575735	2	1	128	1	0	0	0	0	0	0	0	1	17276	1078	38	1		1	WARS2	1	119575735	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4358301	119575735	129674886	51	70339											
ANKRD35	148741	broad.mit.edu	37	chr1	145561338	145561338	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagattcgagagcaggcgcaGgagctaggggtcctcctatc	9	7	14	11	2	0	2	0	0	0	2	4	4	2	3	2	4	2	3	2	4	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:145561338G>A	uc001eob.1	+	10	1134	c.1026G>A	c.(1024-1026)CAG>CAA	p.Q342Q	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Silent_p.Q185Q	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	342	Potential.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					AGCAGGCGCAGGAGCTAGGGG	0.572													17	30					0	0	0.00499	0	0		A	145561338	A	A	145561338	2	1	128	1	0	0	0	0	0	0	0	1	664	991	35	4		4	ANKRD35	1	145561338	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	25985603	145561338	103689283	52	70340											
CHD1L	9557	broad.mit.edu	37	chr1	146757977	146757977	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctggcctgctaaaggaTggcctggtgggaatccaaca	9	9	13	10	0	1	0	0	0	1	0	3	2	2	2	3	5	2	1	3	5	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:146757977T>C	uc001epm.3	+	18	2084	c.2021T>C	c.(2020-2022)ATG>ACG	p.M674T	uc001epp.2_Intron|CHD1L_uc001epn.3_Missense_Mutation_p.M561T|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Missense_Mutation_p.M580T|CHD1L_uc010ozp.1_Missense_Mutation_p.M393T|CHD1L_uc001epo.3_Missense_Mutation_p.M470T|CHD1L_uc009wji.2_Missense_Mutation_p.M393T	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	674	Potential.			M -> V (in Ref. 2; BAA91637).	chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)					TGCTAAAGGATGGCCTGGTGG	0.488													29	75					0	0	0.012213	0	0		C	146757977	C	C	146757977	3	2	128	1	0	0	0	0	1	0	0	0	3327	1464	51	3	2091	3	CHD1L	1	146757977	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1196639	146757977	102492644	53	70341											
GJA8	2703	broad.mit.edu	37	chr1	147380609	147380609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacttcctgtacgggttccGgatcctgcctctgtaccgct	4	13	9	15	3	1	0	0	0	1	0	4	1	4	1	5	2	4	4	5	2	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:147380609G>A	uc001epu.1	+	2	590	c.527G>A	c.(526-528)CGG>CAG	p.R176Q		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	176	Extracellular (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					TACGGGTTCCGGATCCTGCCT	0.587													25	77					0	0	0.00632	0	0		A	147380609	A	A	147380609	3	1	128	1	0	0	0	0	1	0	0	0	6420	1116	39	1	529	1	GJA8	1	147380609	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	622632	147380609	101870012	54	70342											
HIST2H2BF	440689	broad.mit.edu	37	chr1	149398889	149398889	+	RNA	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcagcaggcgcacggcCgtctggatctcgcgggacgt	6	5	17	13	6	2	0	0	0	2	0	3	2	2	2	1	5	2	4	1	5	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:149398889C>T	uc010pbi.1	-	1		c.341G>A						Q5QNW6	H2B2F_HUMAN	Homo sapiens histone cluster 2, H3, pseudogene 2, mRNA (cDNA clone IMAGE:5190019).						nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)					GGCGCACGGCCGTCTGGATCT	0.647													27	169					0	0	0.021022	0	0		T	149398889	T	T	149398889	1	4	128	0	1	0	0	0	0	0	0	0	7196	639	23	1		1	HIST2H2BF	1	149398889	RNA	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2018280	149398889	99851732	55	70343											
SEMA6C	10500	broad.mit.edu	37	chr1	151108547	151108547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacagcggggtccagcagcGggtgagccttgatgaaggtc	8	7	17	9	2	0	3	0	3	0	0	2	3	1	3	2	4	5	2	2	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:151108547G>A	uc001ewu.2	-	13	1499	c.1199C>T	c.(1198-1200)CCG>CTG	p.P400L	SEMA6C_uc001ewv.2_Missense_Mutation_p.P400L|SEMA6C_uc001eww.2_Missense_Mutation_p.P360L|SEMA6C_uc010pcq.1_Missense_Mutation_p.P400L	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	400	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GTCCAGCAGCGGGTGAGCCTT	0.587													26	83					0	0	0.004656	0	0		A	151108547	A	A	151108547	3	1	128	1	0	0	0	0	1	0	0	0	14066	1116	39	1	1721	1	SEMA6C	1	151108547	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1709658	151108547	98142074	56	70344											
ZNF687	57592	broad.mit.edu	37	chr1	151261166	151261166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcctgtctgcacgtctctCgccgtgtaggatacaggtgc	6	10	13	12	3	2	0	0	0	2	0	4	1	2	1	2	3	3	2	2	3	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:151261166C>T	uc001exq.2	+	3	2376	c.2278C>T	c.(2278-2280)CGC>TGC	p.R760C	ZNF687_uc009wmo.2_Missense_Mutation_p.R760C|ZNF687_uc009wmp.2_Missense_Mutation_p.R760C	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	760					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GCACGTCTCTCGCCGTGTAGG	0.562													46	130					0	0	0.01441	0	0		T	151261166	T	T	151261166	3	4	128	1	0	0	0	0	1	0	0	0	18117	884	31	1	2284	1	ZNF687	1	151261166	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	152619	151261166	97989455	57	70345											
ZNF687	57592	broad.mit.edu	37	chr1	151263250	151263250	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgaggagcctgacagcacGacaccgccagccaagtcccc	11	3	11	16	2	0	2	0	2	0	0	1	4	1	3	6	1	3	1	6	1	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:151263250G>A	uc001exq.2	+	9	3377	c.3279G>A	c.(3277-3279)ACG>ACA	p.T1093T	ZNF687_uc009wmo.2_Silent_p.T1093T|ZNF687_uc009wmp.2_3'UTR	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	1093					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CTGACAGCACGACACCGCCAG	0.622													29	77					0	0	0.006999	0	0		A	151263250	A	A	151263250	2	1	128	1	0	0	0	0	0	0	0	1	18117	1045	37	1		1	ZNF687	1	151263250	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2084	151263250	97987371	58	70346											
CGN	57530	broad.mit.edu	37	chr1	151491196	151491196	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgggcagccctttgtggtGctcaacagtggggagaaagg	8	8	17	8	0	1	1	1	0	0	1	1	2	1	1	1	5	3	3	1	5	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:151491196G>A	uc009wmw.2	+	2	345	c.201G>A	c.(199-201)GTG>GTA	p.V67V		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	61	Head.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			CCTTTGTGGTGCTCAACAGTG	0.592													33	91					0	0	0.010818	0	0		A	151491196	A	A	151491196	2	1	128	1	0	0	0	0	0	0	0	1	3306	1306	46	2		2	CGN	1	151491196	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	227946	151491196	97759425	59	70347											
CGN	57530	broad.mit.edu	37	chr1	151508742	151508742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttctgcagtctaccaatcGaaaactggagcggaaagtta	14	9	10	8	2	2	0	0	0	2	0	3	3	2	2	1	2	4	3	1	2	6	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:151508742G>A	uc009wmw.2	+	19	3371	c.3227G>A	c.(3226-3228)CGA>CAA	p.R1076Q	CGN_uc010pde.1_Missense_Mutation_p.R70Q	NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	1070	Potential.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			TCTACCAATCGAAAACTGGAG	0.483													27	82					0	0	0.004656	0	0		A	151508742	A	A	151508742	3	1	128	1	0	0	0	0	1	0	0	0	3306	1058	37	1	3297	1	CGN	1	151508742	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	17546	151508742	97741879	60	70348											
RORC	6097	broad.mit.edu	37	chr1	151785741	151785741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcggaacagctccatgccaCcgtatttgccttcaaaaaag	12	9	7	13	2	1	0	1	0	0	0	3	1	2	1	4	1	4	2	4	1	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:151785741C>T	uc001ezh.2	-	8	1256	c.1148G>A	c.(1147-1149)GGT>GAT	p.G383D	RORC_uc001ezg.2_Missense_Mutation_p.G362D|RORC_uc010pdo.1_Missense_Mutation_p.G437D|RORC_uc010pdp.1_Intron	NM_005060	NP_005051	P51449	RORG_HUMAN	RAR-related orphan receptor C isoform a	383	Ligand-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			CTCCATGCCACCGTATTTGCC	0.567													126	456					0	0	0.01441	0	0		T	151785741	T	T	151785741	3	4	128	1	0	0	0	0	1	0	0	0	13555	507	18	4	424	4	RORC	1	151785741	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	276999	151785741	97464880	61	70349											
TCHHL1	126637	broad.mit.edu	37	chr1	152058006	152058006	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagactttctaacagagtatTctgggcctctgttgctcttc	7	16	8	10	0	4	2	0	0	4	2	5	2	4	2	1	1	2	3	1	1	3	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:152058006T>G	uc001ezo.1	-	3	2217	c.2152A>C	c.(2152-2154)AAT>CAT	p.N718H		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	718							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			AACAGAGTATTCTGGGCCTCT	0.443													68	196					0	0	0.01441	0	0		G	152058006	G	G	152058006	3	3	128	1	0	0	0	0	1	0	0	0	15726	1783	62	5	566	5	TCHHL1	1	152058006	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	272265	152058006	97192615	62	70350											
FLG	2312	broad.mit.edu	37	chr1	152286125	152286125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgctagacccccggtgtcCacgatcgctgactgcagatg	8	7	11	15	4	0	3	0	1	0	2	2	4	1	3	4	1	1	3	4	1	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:152286125C>T	uc001ezu.1	-	3	1273	c.1237G>A	c.(1237-1239)GGA>AGA	p.G413R	uc001ezv.2_RNA	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	413	Ser-rich.|Filaggrin 2.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCCCGGTGTCCACGATCGCTG	0.587									Ichthyosis				146	446					0	0	0.01441	0	0		T	152286125	T	T	152286125	3	4	128	1	0	0	0	0	1	0	0	0	5936	603	21	4	10952	4	FLG	1	152286125	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	228119	152286125	96964496	63	70351											
LCE5A	254910	broad.mit.edu	37	chr1	152484143	152484143	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccagtgttcagccccatgcCcacctccagtctcttcctgc	5	10	6	20	0	2	0	1	0	1	0	5	0	4	0	7	0	3	1	7	0	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:152484143C>A	uc001ezy.2	+	2	309	c.133C>A	c.(133-135)CCA>ACA	p.P45T	CRCT1_uc001ezz.2_5'Flank	NM_178438	NP_848525	Q5TCM9	LCE5A_HUMAN	late cornified envelope 5A	45	Cys-rich.				keratinization					ovary(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGCCCCATGCCCACCTCCAGT	0.502													34	205					4.65686e-17	5.0279e-17	0.017118	1	0		A	152484143	A	A	152484143	3	1	128	1	0	0	0	0	1	0	0	0	8691	623	22	5	135	5	LCE5A	1	152484143	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	198018	152484143	96766478	64	70352											
S100A7A	338324	broad.mit.edu	37	chr1	153390650	153390650	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaagattgagaagccaaGcctgctgacgatgatgaagg	13	7	14	7	1	0	5	0	4	0	2	0	7	0	5	2	2	3	2	2	2	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:153390650G>T	uc001fbt.1	+	2	149	c.92G>T	c.(91-93)AGC>ATC	p.S31I		NM_176823	NP_789793	Q86SG5	S1A7A_HUMAN	S100 calcium binding protein A7-like 1	31	EF-hand 1.					cytoplasm	calcium ion binding			skin(1)	1	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			GAGAAGCCAAGCCTGCTGACG	0.488													41	166					1.48341e-19	1.60945e-19	0.01441	1	0		T	153390650	T	T	153390650	3	4	128	1	0	0	0	0	1	0	0	0	13809	971	34	5	94	5	S100A7A	1	153390650	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	906507	153390650	95859971	65	70353											
KCNN3	3782	broad.mit.edu	37	chr1	154680583	154680583	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcgatgatggcagacaGgagctgctgctgctgctggc	6	8	16	11	1	0	2	0	1	0	1	1	4	0	3	1	4	5	6	1	4	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:154680583G>T	uc001ffp.2	-	8	2379	c.2065C>A	c.(2065-2067)CTG>ATG	p.L689M	KCNN3_uc001ffo.2_Missense_Mutation_p.L384M	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	694						integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			ATGGCAGACAGGAGCTGCTGC	0.652													26	83					1.00001e-27	1.10117e-27	0.009718	1	0		T	154680583	T	T	154680583	3	4	128	1	0	0	0	0	1	0	0	0	8096	991	35	5	134	5	KCNN3	1	154680583	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1289933	154680583	94570038	66	70354											
THBS3	7059	broad.mit.edu	37	chr1	155167338	155167338	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgcttccacatgactacGtagaagcggccactgtcttg	8	11	10	12	2	2	2	0	1	2	1	3	2	3	2	2	1	3	2	2	1	3	4	rs139408803		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:155167338G>A	uc001fix.2	-	20	2438	c.2415C>T	c.(2413-2415)TAC>TAT	p.Y805Y	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Silent_p.Y796Y|THBS3_uc001fiz.2_Silent_p.Y768Y|THBS3_uc001fiy.2_Silent_p.Y334Y|THBS3_uc010pfu.1_Silent_p.Y685Y	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	805	TSP C-terminal.				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			ACATGACTACGTAGAAGCGGC	0.562													25	66					0	0	0.017118	0	0		A	155167338	A	A	155167338	2	1	128	1	0	0	0	0	0	0	0	1	15880	1140	40	1		1	THBS3	1	155167338	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	486755	155167338	94083283	67	70355											
CLK2	1196	broad.mit.edu	37	chr1	155237889	155237889	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacttctccacattcttaaTgatcttcagggcaactcgag	10	13	7	11	1	4	1	1	1	3	0	6	2	4	1	1	1	2	2	1	1	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:155237889T>C	uc001fjy.2	-	6	873	c.583A>G	c.(583-585)ATT>GTT	p.I195V	RAG1AP1_uc010pey.1_Intron|CLK2_uc001fjw.2_Missense_Mutation_p.I194V|CLK2_uc001fjx.2_5'UTR|CLK2_uc009wqm.2_Missense_Mutation_p.I195V	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	195	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			ACATTCTTAATGATCTTCAGG	0.473								Other_conserved_DNA_damage_response_genes					23	205					0	0	0.021523	0	0		C	155237889	C	C	155237889	3	2	128	1	0	0	0	0	1	0	0	0	3540	1464	51	3	948	3	CLK2	1	155237889	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	70551	155237889	94012732	68	70356											
PKLR	5313	broad.mit.edu	37	chr1	155264997	155264997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacaatattggggtagtccaCccacacggtgttcgcgttcc	8	10	11	12	3	0	0	0	0	0	0	3	1	2	0	3	3	0	3	3	3	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:155264997C>T	uc001fkb.3	-	5	643	c.604G>A	c.(604-606)GTG>ATG	p.V202M	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Missense_Mutation_p.V171M	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	202					endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	GGGTAGTCCACCCACACGGTG	0.637													89	235					0	0	0.01441	0	0		T	155264997	T	T	155264997	3	4	128	1	0	0	0	0	1	0	0	0	11995	507	18	4	1148	4	PKLR	1	155264997	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	27108	155264997	93985624	69	70357											
ASH1L	55870	broad.mit.edu	37	chr1	155449273	155449273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaatatggcactgaactggGttcaacaaaacctgcatcac	15	8	7	11	0	2	1	2	1	0	0	2	1	2	1	1	2	4	3	1	2	6	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:155449273G>A	uc009wqq.2	-	3	3868	c.3388C>T	c.(3388-3390)CCC>TCC	p.P1130S	ASH1L_uc001fkt.2_Missense_Mutation_p.P1130S|ASH1L_uc009wqr.1_Missense_Mutation_p.P1130S	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1130					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			ACTGAACTGGGTTCAACAAAA	0.473													26	90					0	0	0.021523	0	0		A	155449273	A	A	155449273	3	1	128	1	0	0	0	0	1	0	0	0	1042	1261	44	4	5610	4	ASH1L	1	155449273	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	184276	155449273	93801348	70	70358											
ASH1L	55870	broad.mit.edu	37	chr1	155451950	155451950	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgccagttcctaacttcttCggttttgtcttggaagactt	6	17	9	9	1	2	1	0	0	2	1	4	2	3	2	2	2	2	2	2	2	2	8			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:155451950C>T	uc009wqq.2	-	3	1191	c.711G>A	c.(709-711)CCG>CCA	p.P237P	ASH1L_uc001fkt.2_Silent_p.P237P|ASH1L_uc009wqr.1_Silent_p.P237P	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	237					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			CTAACTTCTTCGGTTTTGTCT	0.428													55	138					0	0	0.01441	0	0		T	155451950	T	T	155451950	2	4	128	1	0	0	0	0	0	0	0	1	1042	871	31	1		1	ASH1L	1	155451950	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2677	155451950	93798671	71	70359											
PAQR6	79957	broad.mit.edu	37	chr1	156214585	156214585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcgtcctggtgccagcctttCaggcaggtgggaggcgaaga	7	7	17	10	2	1	1	1	0	0	1	2	3	2	2	3	5	2	1	3	5	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:156214585C>T	uc001fnu.1	-	7	797	c.727G>A	c.(727-729)GAA>AAA	p.E243K	PAQR6_uc010phf.1_Intron|PAQR6_uc001fny.1_Silent_p.L20L|PAQR6_uc001fnv.1_Missense_Mutation_p.E219K|PAQR6_uc010phg.1_Missense_Mutation_p.E240K|PAQR6_uc001fnx.1_Missense_Mutation_p.E137K|PAQR6_uc001fnw.1_Missense_Mutation_p.E137K|PAQR6_uc001fnz.1_Missense_Mutation_p.E137K|PAQR6_uc010phh.1_Missense_Mutation_p.E243K|PAQR6_uc001foa.1_Missense_Mutation_p.E137K|PAQR6_uc001fob.1_RNA	NM_198406	NP_940798	Q6TCH4	PAQR6_HUMAN	progestin and adipoQ receptor family member VI	243	Extracellular (Potential).					integral to membrane	receptor activity				0	Hepatocellular(266;0.158)					GCCAGCCTTTCAGGCAGGTGG	0.647													11	55					0	0	0.010729	0	0		T	156214585	T	T	156214585	3	4	128	1	0	0	0	0	1	0	0	0	11458	835	29	4	654	4	PAQR6	1	156214585	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	762635	156214585	93036036	72	70360											
PYHIN1	149628	broad.mit.edu	37	chr1	158908274	158908274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgtatcctgctacacctgCatgcaccccaagcaaccgtc	10	8	7	16	1	0	0	0	0	0	0	2	0	1	0	5	0	6	5	5	0	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:158908274C>T	uc001ftb.2	+	3	598	c.353C>T	c.(352-354)GCA>GTA	p.A118V	PYHIN1_uc001fta.3_Missense_Mutation_p.A118V|PYHIN1_uc001ftc.2_Missense_Mutation_p.A109V|PYHIN1_uc001ftd.2_Missense_Mutation_p.A118V|PYHIN1_uc001fte.2_Missense_Mutation_p.A109V	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	118					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					GCTACACCTGCATGCACCCCA	0.448													29	95					0	0	0.009535	0	0		T	158908274	T	T	158908274	3	4	128	1	0	0	0	0	1	0	0	0	12890	710	25	2	359	2	PYHIN1	1	158908274	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2693689	158908274	90342347	73	70361											
PYHIN1	149628	broad.mit.edu	37	chr1	158911818	158911818	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccagtaaaaatattttcCgagaagacccaataatcgcg	15	9	7	10	3	0	2	0	0	0	2	2	3	1	2	3	0	1	1	3	0	7	5	rs144716673		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:158911818C>T	uc001ftb.2	+	5	876	c.631C>T	c.(631-633)CGA>TGA	p.R211*	PYHIN1_uc001ftc.2_Nonsense_Mutation_p.R202*|PYHIN1_uc001ftd.2_Nonsense_Mutation_p.R211*|PYHIN1_uc001fte.2_Nonsense_Mutation_p.R202*	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	211	HIN-200.				cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					AAATATTTTCCGAGAAGACCC	0.373													24	69					0	0	0.008361	0	0		T	158911818	T	T	158911818	4	4	128	1	0	0	0	0	0	1	0	0	12890	644	23	1	645	1	PYHIN1	1	158911818	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3544	158911818	90338803	74	70362											
DCAF8	50717	broad.mit.edu	37	chr1	160251955	160251955	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatgcctagcccctccatGgccttggtcagctcttcttc	4	13	7	17	0	3	0	1	0	2	0	6	0	5	0	6	2	3	1	6	2	1	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:160251955G>T	uc010pjc.1	-	3	299	c.27C>A	c.(25-27)GCC>GCA	p.A9A	PEX19_uc010pje.1_RNA|PEX19_uc001fvs.2_Silent_p.A156A|PEX19_uc001fvt.2_Silent_p.A66A	NM_015726	NP_056541	Q5TAQ9	DCAF8_HUMAN	DDB1 and CUL4 associated factor 8	Error:Variant_position_missing_in_Q5TAQ9_after_alignment						CUL4 RING ubiquitin ligase complex	protein binding			skin(2)	2						GCCCCTCCATGGCCTTGGTCA	0.522													34	85					3.77016e-25	4.131e-25	0.013114	1	0		T	160251955	T	T	160251955	2	4	128	1	0	0	0	0	0	0	0	1	4279	1335	47	5		5	DCAF8	1	160251955	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1340137	160251955	88998666	75	70363											
OLFML2B	25903	broad.mit.edu	37	chr1	161953686	161953686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacagcaccccacagatgaCgaagcagttgccgtagaaat	15	6	9	11	2	0	3	0	1	0	2	0	4	0	3	3	0	4	4	3	0	4	3	rs141909728	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:161953686C>T	uc001gbu.2	-	8	2456	c.2032G>A	c.(2032-2034)GTC>ATC	p.V678I	OLFML2B_uc001gbt.2_Missense_Mutation_p.V161I|OLFML2B_uc010pkq.1_Missense_Mutation_p.V679I	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	678	Olfactomedin-like.									skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			CCACAGATGACGAAGCAGTTG	0.572													53	166					0	0	0.01441	0	0		T	161953686	T	T	161953686	3	4	128	1	0	0	0	0	1	0	0	0	10877	536	19	1	224	1	OLFML2B	1	161953686	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1701731	161953686	87296935	76	70364											
ADCY10	55811	broad.mit.edu	37	chr1	167802290	167802290	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtctgtttttctcgacatgGatatggagaaacaaggagat	12	13	11	5	1	2	2	0	0	2	2	3	6	2	3	0	3	1	1	0	3	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:167802290G>T	uc001ger.2	-	25	3826	c.3528C>A	c.(3526-3528)ATC>ATA	p.I1176I	ADCY10_uc009wvj.2_RNA|ADCY10_uc009wvk.2_Silent_p.I1084I|ADCY10_uc010plj.1_Silent_p.I1023I	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	1176					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						TCTCGACATGGATATGGAGAA	0.478													12	473					9.31168e-06	9.58598e-06	0.016723	1	0		T	167802290	T	T	167802290	2	4	128	1	0	0	0	0	0	0	0	1	293	1164	41	5		5	ADCY10	1	167802290	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5848604	167802290	81448331	77	70365											
RC3H1	149041	broad.mit.edu	37	chr1	173951935	173951935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagaggcttgaggaaacCgtggctccaatctttgcacc	9	12	10	10	1	1	2	0	1	1	1	2	3	2	3	3	3	2	3	3	3	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:173951935C>T	uc001gju.3	-	4	785	c.698G>A	c.(697-699)CGG>CAG	p.R233Q	RC3H1_uc010pms.1_Missense_Mutation_p.R233Q|RC3H1_uc001gjv.2_Missense_Mutation_p.R233Q|RC3H1_uc010pmt.1_Missense_Mutation_p.R233Q	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	233					cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TTGAGGAAACCGTGGCTCCAA	0.433													39	91					0	0	0.00874	0	0		T	173951935	T	T	173951935	3	4	128	1	0	0	0	0	1	0	0	0	13191	652	23	1	2767	1	RC3H1	1	173951935	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	6149645	173951935	75298686	78	70366											
RABGAP1L	9910	broad.mit.edu	37	chr1	174780992	174780992	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaaggaagaccttctgcAggctgattttgaaggtgctt	10	12	11	8	0	2	3	1	2	1	1	2	4	2	4	1	3	2	3	1	3	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:174780992A>G	uc001gjx.2	+	19	2429	c.2234A>G	c.(2233-2235)CAG>CGG	p.Q745R	RABGAP1L_uc001gkb.3_5'UTR|RABGAP1L_uc001gkc.3_Missense_Mutation_p.Q52R|RABGAP1L_uc001gkd.3_Missense_Mutation_p.Q71R|RABGAP1L_uc001gke.3_Missense_Mutation_p.Q64R	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	745					regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						GACCTTCTGCAGGCTGATTTT	0.378													20	118					0	0	0.008871	0	0		G	174780992	G	G	174780992	3	3	128	1	0	0	0	0	1	0	0	0	12990	188	7	3	2304	3	RABGAP1L	1	174780992	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	829057	174780992	74469629	79	70367											
ASTN1	460	broad.mit.edu	37	chr1	176918359	176918359	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatacaaggtggggtcgtcCgggaagggcgccatctgctg	7	9	16	9	3	1	0	0	0	1	0	3	1	2	1	2	5	2	1	2	5	4	2	rs34739197		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:176918359C>T	uc001glc.2	-	12	2228	c.2016G>A	c.(2014-2016)CCG>CCA	p.P672P	ASTN1_uc001glb.1_Silent_p.P672P|ASTN1_uc001gld.1_Silent_p.P672P|ASTN1_uc009wwx.1_Silent_p.P672P	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	680	EGF-like 3.				cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						TGGGGTCGTCCGGGAAGGGCG	0.552											OREG0014004	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	87					0	0	0.00499	0	0		T	176918359	T	T	176918359	2	4	128	1	0	0	0	0	0	0	0	1	1065	639	23	1		1	ASTN1	1	176918359	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2137367	176918359	72332262	80	70368											
KIAA1614	57710	broad.mit.edu	37	chr1	180886022	180886022	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatagcacatccctgacctcCgaggaggtctttgtccccag	8	9	10	14	1	1	1	0	1	1	0	4	4	4	2	5	2	1	1	5	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:180886022C>T	uc001gok.2	+	2	850	c.783C>T	c.(781-783)TCC>TCT	p.S261S		NM_020950	NP_066001	Q5VZ46	K1614_HUMAN	hypothetical protein LOC57710	261										ovary(3)|skin(1)	4						CCCTGACCTCCGAGGAGGTCT	0.597													105	326					0	0	0.01441	0	0		T	180886022	T	T	180886022	2	4	128	1	0	0	0	0	0	0	0	1	8264	639	23	1		1	KIAA1614	1	180886022	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3967663	180886022	68364599	81	70369											
GLT25D2	23127	broad.mit.edu	37	chr1	183908027	183908027	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctatcccagtcggtggcCactgtctcattgtcccagat	6	12	9	14	1	1	1	1	0	1	1	6	1	4	1	4	2	0	0	4	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:183908027C>A	uc001gqr.2	-	12	2121	c.1749G>T	c.(1747-1749)GTG>GTT	p.V583V	GLT25D2_uc010poj.1_Intron|GLT25D2_uc001gqp.2_Silent_p.V191V|GLT25D2_uc001gqq.2_Silent_p.V320V|GLT25D2_uc001gqs.2_Silent_p.V463V	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	583					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						AGTCGGTGGCCACTGTCTCAT	0.592													41	111					1.76056e-25	1.93065e-25	0.011902	1	0		A	183908027	A	A	183908027	2	1	128	1	0	0	0	0	0	0	0	1	6482	581	21	5		5	GLT25D2	1	183908027	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3022005	183908027	65342594	82	70370											
C1orf25	81627	broad.mit.edu	37	chr1	185106864	185106864	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaactctcacaactaccaAcacaaaatgttccagagcca	18	6	3	14	0	1	1	1	0	1	1	3	1	2	1	3	0	5	1	3	0	7	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:185106864A>T	uc001grf.3	-	10	1659	c.1387T>A	c.(1387-1389)TTG>ATG	p.L463M	C1orf25_uc010pon.1_Missense_Mutation_p.L307M	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	463						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						ACAACTACCAACACAAAATGT	0.408													48	167					0	0	0.01441	0	0		T	185106864	T	T	185106864	3	4	128	1	0	0	0	0	1	0	0	0	2037	40	2	5	838	5	C1orf25	1	185106864	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	1198837	185106864	64143757	83	70371											
CDC73	79577	broad.mit.edu	37	chr1	193107230	193107230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaggatgaagagtgtgtgCgccttgataaagagagattg	12	10	14	5	1	0	5	0	2	0	3	1	7	1	6	2	1	1	0	2	1	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:193107230C>T	uc001gtb.2	+	6	682	c.439C>T	c.(439-441)CGC>TGC	p.R147C		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	147					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding	p.R147C(1)		parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						AGAGTGTGTGCGCCTTGATAA	0.363									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				68	206					0	0	0.01441	0	0		T	193107230	T	T	193107230	3	4	128	1	0	0	0	0	1	0	0	0	3088	768	27	1	461	1	CDC73	1	193107230	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	8000366	193107230	56143391	84	70372											
CFH	3075	broad.mit.edu	37	chr1	196648770	196648770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tagaaatttcatgcaaatccCcagatgttataaatggatct	15	13	6	7	0	2	2	1	0	1	2	3	3	3	3	2	1	1	2	2	1	6	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:196648770C>T	uc001gtj.3	+	6	877	c.637C>T	c.(637-639)CCA>TCA	p.P213S	CFH_uc001gti.3_Missense_Mutation_p.P213S|CFH_uc009wyw.2_Missense_Mutation_p.P213S|CFH_uc009wyx.2_Missense_Mutation_p.P149S	NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	213	Sushi 4.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						ATGCAAATCCCCAGATGTTAT	0.284													6	44					0	0	0.001984	0	0		T	196648770	T	T	196648770	3	4	128	1	0	0	0	0	1	0	0	0	3286	623	22	4	659	4	CFH	1	196648770	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3541540	196648770	52601851	85	70373											
F13B	2165	broad.mit.edu	37	chr1	197026313	197026313	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggtggttcctcacaggctAccttctcctgtccttctgaa	6	13	9	13	0	3	1	1	1	2	0	6	1	5	1	4	3	1	2	4	3	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:197026313A>G	uc001gtt.1	-	7	1045	c.1001T>C	c.(1000-1002)GTA>GCA	p.V334A		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	334	Sushi 6.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CTCACAGGCTACCTTCTCCTG	0.393													25	81					0	0	0.005443	0	0		G	197026313	G	G	197026313	3	3	128	1	0	0	0	0	1	0	0	0	5349	391	14	3	1008	3	F13B	1	197026313	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	377543	197026313	52224308	86	70374											
KIF14	9928	broad.mit.edu	37	chr1	200522567	200522567	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcctctgagctcactgctggGgatgagccatggagctcata	8	10	12	11	0	3	2	2	2	1	0	4	4	4	4	2	3	4	3	2	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:200522567G>A	uc010ppk.1	-	30	5335	c.4896C>T	c.(4894-4896)TCC>TCT	p.S1632S	KIF14_uc010ppj.1_Silent_p.S1141S	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	1632	Required for CIT-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						TCACTGCTGGGGATGAGCCAT	0.443													76	232					0	0	0.01441	0	0		A	200522567	A	A	200522567	2	1	128	1	0	0	0	0	0	0	0	1	8292	1219	43	4		4	KIF14	1	200522567	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3496254	200522567	48728054	87	70375											
LGR6	59352	broad.mit.edu	37	chr1	202163322	202163322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggacctggaccccctgacgGcttacctgtgagtactgccc	6	8	12	15	1	0	2	0	2	0	0	0	4	0	4	5	3	3	2	5	3	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:202163322G>A	uc001gxu.2	+	1	205	c.205G>A	c.(205-207)GCT>ACT	p.A69T		NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	69	Extracellular (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity	p.299_300insGRS(1)		large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						CCCCCTGACGGCTTACCTGTG	0.662													9	24					0	0	0.010729	0	0		A	202163322	A	A	202163322	3	1	128	1	0	0	0	0	1	0	0	0	8774	1203	42	2	207	2	LGR6	1	202163322	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1640755	202163322	47087299	88	70376											
PPP1R12B	4660	broad.mit.edu	37	chr1	202318225	202318225	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcttctggcaagaggtgcTgatatcaacacggtcaacgt	12	9	11	9	2	3	2	2	1	1	1	3	2	3	2	0	3	4	3	0	3	5	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:202318225T>G	uc001gya.1	+	1	390	c.246T>G	c.(244-246)GCT>GCG	p.A82A	PPP1R12B_uc001gxy.2_Silent_p.A82A|PPP1R12B_uc009xad.1_5'UTR|PPP1R12B_uc009xae.1_Silent_p.A82A|PPP1R12B_uc001gxz.1_Silent_p.A82A	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	82	ANK 1.				regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			CAAGAGGTGCTGATATCAACA	0.592													13	46					0	0	0.004007	0	0		G	202318225	G	G	202318225	2	3	128	1	0	0	0	0	0	0	0	1	12377	1567	55	5		5	PPP1R12B	1	202318225	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	154903	202318225	46932396	89	70377											
OPTC	26254	broad.mit.edu	37	chr1	203465253	203465253	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcccagggaaggcgattcCtttgaagttctgcctctgcg	7	11	12	11	2	2	1	0	1	2	0	3	3	3	2	3	2	3	1	3	2	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:203465253C>A	uc001gzu.1	+	2	236	c.120C>A	c.(118-120)TCC>TCA	p.S40S		NM_014359	NP_055174	Q9UBM4	OPT_HUMAN	opticin precursor	40						proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.109)			AAGGCGATTCCTTTGAAGTTC	0.537													18	78					5.03518e-11	5.32807e-11	0.007413	1	0		A	203465253	A	A	203465253	2	1	128	1	0	0	0	0	0	0	0	1	10907	668	24	5		5	OPTC	1	203465253	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1147028	203465253	45785368	90	70378											
TMCC2	9911	broad.mit.edu	37	chr1	205238752	205238752	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccagccccaagtatggCagcgatgatgagtgctccag	9	8	12	12	1	1	2	0	2	1	0	3	3	2	2	4	1	3	3	4	1	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:205238752C>T	uc001hbz.1	+	4	1866	c.1422C>T	c.(1420-1422)GGC>GGT	p.G474G	TMCC2_uc010prf.1_Silent_p.G396G|TMCC2_uc001hca.2_Silent_p.G249G|TMCC2_uc001hcb.1_Silent_p.G234G|TMCC2_uc001hcc.1_Silent_p.G95G|TMCC2_uc001hcd.2_Silent_p.G241G	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	474						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CCAAGTATGGCAGCGATGATG	0.682													6	82					0	0	0.001984	0	0		T	205238752	T	T	205238752	2	4	128	1	0	0	0	0	0	0	0	1	16018	697	25	2		2	TMCC2	1	205238752	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1773499	205238752	44011869	91	70379											
KLHDC8A	55220	broad.mit.edu	37	chr1	205312590	205312590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggggagtagacctcgaagCagtccatggggacgccgttg	8	6	16	11	4	0	1	0	0	0	1	2	4	1	3	4	4	1	3	4	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:205312590C>T	uc001hcf.1	-	2	711	c.143G>A	c.(142-144)TGC>TAC	p.C48Y	KLHDC8A_uc010prg.1_Intron|KLHDC8A_uc001hcg.1_Missense_Mutation_p.C48Y	NM_018203	NP_060673	Q8IYD2	KLD8A_HUMAN	kelch domain containing 8A	48	Kelch 2.									ovary(1)	1	Breast(84;0.23)		BRCA - Breast invasive adenocarcinoma(75;0.117)			GACCTCGAAGCAGTCCATGGG	0.721													23	77					0	0	0.01892	0	0		T	205312590	T	T	205312590	3	4	128	1	0	0	0	0	1	0	0	0	8378	710	25	2	929	2	KLHDC8A	1	205312590	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	73838	205312590	43938031	92	70380											
CTSE	1510	broad.mit.edu	37	chr1	206328752	206328752	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactgttatgttctgctcCgagggctgccaggccattgt	5	12	13	11	1	1	0	0	0	1	0	2	1	2	0	3	3	2	5	3	3	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:206328752C>T	uc001hdu.2	+	7	937	c.819C>T	c.(817-819)TCC>TCT	p.S273S	CTSE_uc001hdv.2_Intron|CTSE_uc010prs.1_Intron	NM_001910	NP_001901	P14091	CATE_HUMAN	cathepsin E isoform a preproprotein	278					antigen processing and presentation of exogenous peptide antigen via MHC class II|digestion|proteolysis	endosome	aspartic-type endopeptidase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(75;0.0754)			TGTTCTGCTCCGAGGGCTGCC	0.607													33	100					0	0	0.019004	0	0		T	206328752	T	T	206328752	2	4	128	1	0	0	0	0	0	0	0	1	4036	639	23	1		1	CTSE	1	206328752	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1016162	206328752	42921869	93	70381											
CR1L	1379	broad.mit.edu	37	chr1	207881608	207881608	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagccaccaatttgtcaaCgtgagttgaaatctctttcc	11	13	7	10	1	2	3	1	3	1	0	4	3	3	3	3	0	2	1	3	0	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:207881608C>T	uc001hga.3	+	10	1535	c.1414C>T	c.(1414-1416)CAA>TAA	p.Q472*	CR1L_uc001hfz.2_Intron|CR1L_uc001hgb.1_Intron	NM_175710	NP_783641	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	472	Sushi 7.					cytoplasm|extracellular region|membrane					0						AATTTGTCAACGtgagttgaa	0.239													43	129					0	0	0.00874	0	0		T	207881608	T	T	207881608	4	4	128	1	0	0	0	0	0	1	0	0	3844	550	19	1	1452	1	CR1L	1	207881608	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1552856	207881608	41369013	94	70382											
SLC30A1	7779	broad.mit.edu	37	chr1	211751694	211751694	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaacagaggccagtcaggaaGatggcgttcaccagagcccc	13	4	12	12	1	2	3	2	0	0	3	2	4	2	4	4	3	2	1	4	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:211751694G>A	uc001hio.1	-	1	406	c.261C>T	c.(259-261)ATC>ATT	p.I87I		NM_021194	NP_067017	Q9Y6M5	ZNT1_HUMAN	solute carrier family 30 (zinc transporter),	87	Helical; (Potential).				cadmium ion transmembrane transport|cellular calcium ion homeostasis|cellular zinc ion homeostasis|negative regulation of calcium ion import|negative regulation of neurotransmitter secretion|negative regulation of zinc ion import	integral to membrane|T-tubule	calcium channel inhibitor activity|zinc ion transmembrane transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(81;0.00535)|GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.0604)|Epithelial(68;0.0978)		CAGTCAGGAAGATGGCGTTCA	0.667													4	28					0	0	0.014758	0	0		A	211751694	A	A	211751694	2	1	128	1	0	0	0	0	0	0	0	1	14578	932	33	4		4	SLC30A1	1	211751694	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3870086	211751694	37498927	95	70383											
CENPF	1063	broad.mit.edu	37	chr1	214814768	214814768	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttattttactacaaagatgTgaagaaaccggaaatgcata	17	11	7	6	1	0	3	0	1	0	2	0	4	0	4	1	1	4	1	1	1	8	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:214814768T>C	uc001hkm.2	+	12	3261	c.3087T>C	c.(3085-3087)TGT>TGC	p.C1029C		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	1029	Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TACAAAGATGTGAAGAAACCG	0.328													33	133					0	0	0.010818	0	0		C	214814768	C	C	214814768	2	2	128	1	0	0	0	0	0	0	0	1	3234	1702	59	3		3	CENPF	1	214814768	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	3063074	214814768	34435853	96	70384											
DISP1	84976	broad.mit.edu	37	chr1	223156446	223156446	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagacctttcaagttgccAaaaaggtaaagtaatctggg	14	10	9	8	0	2	1	1	0	1	1	3	1	3	1	3	2	1	3	3	2	6	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:223156446A>C	uc001hnu.1	+	3	681	c.534A>C	c.(532-534)CCA>CCC	p.P178P		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	178					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TCAAGTTGCCAAAAAGGTAAA	0.313													27	95					0	0	0.00632	0	0		C	223156446	C	C	223156446	2	2	128	1	0	0	0	0	0	0	0	1	4545	117	5	5		5	DISP1	1	223156446	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	8341678	223156446	26094175	97	70385											
DISP1	84976	broad.mit.edu	37	chr1	223176379	223176379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcctattttctctatcGtgtagtatttcacttcgaat	7	21	5	8	2	2	0	1	0	1	0	6	1	3	0	1	0	0	3	1	0	5	9			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:223176379G>A	uc001hnu.1	+	8	1787	c.1640G>A	c.(1639-1641)CGT>CAT	p.R547H		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	547	SSD.				diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TTTCTCTATCGTGTAGTATTT	0.358													30	127					0	0	0.007291	0	0		A	223176379	A	A	223176379	3	1	128	1	0	0	0	0	1	0	0	0	4545	1145	40	1	1666	1	DISP1	1	223176379	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	19933	223176379	26074242	98	70386											
PSEN2	5664	broad.mit.edu	37	chr1	227075861	227075861	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacctatatctaccttgggTaagtgacagataagcagcag	13	10	9	9	0	2	2	1	1	1	1	2	2	2	2	2	1	3	3	2	1	5	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:227075861T>C	uc009xeo.1	+	7	993	c.566_splice	c.e7+2	p.G189_splice	PSEN2_uc009xep.1_Splice_Site_p.G189_splice|PSEN2_uc001hqk.2_Splice_Site	NM_000447	NP_000438	P49810	PSN2_HUMAN	presenilin 2 isoform 1						amyloid precursor protein catabolic process|anti-apoptosis|apoptosis|beta-amyloid metabolic process|calcium ion transport|induction of apoptosis by extracellular signals|intracellular signal transduction|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear inner membrane|perinuclear region of cytoplasm|Z disc	aspartic-type endopeptidase activity|protein binding			lung(2)	2		Prostate(94;0.0771)				CTACCTTGGGTAAGTGACAGA	0.517													37	80					0	0	0.005524	0	0		C	227075861	C	C	227075861	5	2	128	1	0	0	0	0	0	0	1	0	12673	1652	57	3	582	3	PSEN2	1	227075861	Splice_Site	SNP	T	TCGA-CG-4306-01A-01D-1158-08	3899482	227075861	22174760	99	70387											
OBSCN	84033	broad.mit.edu	37	chr1	228476440	228476440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggagtggaggaaggggcGtgagagcctcagagatgggg	9	5	22	5	2	1	2	1	1	0	2	1	7	1	5	1	7	1	0	1	7	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:228476440G>A	uc009xez.1	+	38	10234	c.10190G>A	c.(10189-10191)CGT>CAT	p.R3397H	OBSCN_uc001hsn.2_Missense_Mutation_p.R3397H|OBSCN_uc001hsq.1_Missense_Mutation_p.R653H	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3397	Ig-like 34.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGGAAGGGGCGTGAGAGCCTC	0.622													33	74					0	0	0.013726	0	0		A	228476440	A	A	228476440	3	1	128	1	0	0	0	0	1	0	0	0	10831	1145	40	1	10336	1	OBSCN	1	228476440	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1400579	228476440	20774181	100	70388											
OBSCN	84033	broad.mit.edu	37	chr1	228496852	228496852	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacgtgcagctcagtgagggCcaggatgccagcttccagtg	8	7	15	11	1	1	1	1	1	0	0	2	3	2	2	3	2	4	3	3	2	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:228496852C>T	uc009xez.1	+	48	12836	c.12792C>T	c.(12790-12792)GGC>GGT	p.G4264G	OBSCN_uc001hsn.2_Silent_p.G4264G	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4264	Ig-like 44.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TCAGTGAGGGCCAGGATGCCA	0.647													9	9					0	0	0.008291	0	0		T	228496852	T	T	228496852	2	4	128	1	0	0	0	0	0	0	0	1	10831	726	26	2		2	OBSCN	1	228496852	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	20412	228496852	20753769	101	70389											
DISC1	27185	broad.mit.edu	37	chr1	231830287	231830287	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacgaggacccgcgatgTctctctcggcccttcagtct	5	10	9	17	4	5	0	2	0	3	0	7	3	5	1	3	2	0	0	3	2	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:231830287T>C	uc001huz.2	+	2	836	c.783T>C	c.(781-783)TGT>TGC	p.C261C	TSNAX-DISC1_uc010pwe.1_Silent_p.C216C|TSNAX-DISC1_uc010pwf.1_Silent_p.C216C|TSNAX-DISC1_uc010pwg.1_Silent_p.C250C|TSNAX-DISC1_uc010pwh.1_Silent_p.C216C|TSNAX-DISC1_uc010pwi.1_Silent_p.C216C|TSNAX-DISC1_uc010pwj.1_Silent_p.C250C|TSNAX-DISC1_uc010pwk.1_Silent_p.C250C|TSNAX-DISC1_uc010pwl.1_RNA|DISC1_uc010pwo.1_Silent_p.C261C|DISC1_uc010pwp.1_Silent_p.C261C|DISC1_uc010pwq.1_Silent_p.C261C|DISC1_uc010pwr.1_Silent_p.C261C|DISC1_uc010pws.1_Silent_p.C261C|DISC1_uc010pwt.1_Silent_p.C261C|DISC1_uc010pwu.1_Intron|DISC1_uc010pwv.1_RNA|DISC1_uc010pww.1_Silent_p.C261C|DISC1_uc010pwx.1_RNA|DISC1_uc010pwy.1_RNA|DISC1_uc010pwz.1_RNA|DISC1_uc010pxa.1_RNA|DISC1_uc001huy.2_Silent_p.C261C|DISC1_uc010pxb.1_Silent_p.C261C|DISC1_uc010pxc.1_Silent_p.C261C|DISC1_uc010pxd.1_5'UTR|DISC1_uc010pxe.1_Silent_p.C261C|DISC1_uc009xfr.2_Silent_p.C216C|DISC1_uc010pxf.1_Silent_p.C261C|DISC1_uc010pxg.1_Silent_p.C261C|DISC1_uc010pxh.1_Silent_p.C261C|DISC1_uc010pxi.1_RNA|DISC1_uc010pxj.1_5'UTR|DISC1_uc010pxk.1_RNA|DISC1_uc010pxl.1_RNA|DISC1_uc010pxm.1_Silent_p.C261C|DISC1_uc010pxn.1_5'UTR|DISC1_uc001hva.2_Silent_p.C261C|DISC1_uc010pwm.1_Silent_p.C261C|DISC1_uc001hux.1_Silent_p.C261C|DISC1_uc001hvc.3_Silent_p.C261C|DISC1_uc010pwn.1_Silent_p.C261C	NM_018662	NP_061132	Q9NRI5	DISC1_HUMAN	disrupted in schizophrenia 1 isoform L	261	Interaction with MAP1A.				microtubule cytoskeleton organization|neuron migration|positive regulation of neuroblast proliferation|positive regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	centrosome|microtubule	protein binding			skin(1)	1		all_cancers(173;0.0208)|Prostate(94;0.0975)				ACCCGCGATGTCTCTCTCGGC	0.622													5	69					0	0	0.014758	0	0		C	231830287	C	C	231830287	2	2	128	1	0	0	0	0	0	0	0	1	4544	1673	58	3		3	DISC1	1	231830287	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	3333435	231830287	17420334	102	70390											
KIAA1383	54627	broad.mit.edu	37	chr1	232941415	232941415	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttggtttaccctcctgacGgccccggcgctcccgccgcc	2	9	11	19	5	0	1	0	1	0	0	2	1	2	1	7	3	1	3	7	3	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:232941415G>A	uc001hvh.2	+	1	778	c.646G>A	c.(646-648)GGC>AGC	p.G216S		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	74										ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				CCCTCCTGACGGCCCCGGCGC	0.652													8	16					0	0	0.004482	0	0		A	232941415	A	A	232941415	3	1	128	1	0	0	0	0	1	0	0	0	8244	1116	39	1	648	1	KIAA1383	1	232941415	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1111128	232941415	16309206	103	70391											
KIAA1804	84451	broad.mit.edu	37	chr1	233497844	233497844	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgactcgggcggctctgcagCagaagtctcaggaggagctg	8	7	16	10	2	2	2	1	1	2	1	4	4	2	4	0	4	3	4	0	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:233497844C>T	uc001hvt.3	+	5	1618	c.1357C>T	c.(1357-1359)CAG>TAG	p.Q453*	KIAA1804_uc001hvs.1_Nonsense_Mutation_p.Q453*	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	453					activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				GGCTCTGCAGCAGAAGTCTCA	0.582													11	20					0	0	0.010729	0	0		T	233497844	T	T	233497844	4	4	128	1	0	0	0	0	0	1	0	0	8275	711	25	2	1375	2	KIAA1804	1	233497844	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	556429	233497844	15752777	104	70392											
RYR2	6262	broad.mit.edu	37	chr1	237872219	237872219	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaaaactcatttcttgccGttaatggagaaactcaagaa	15	12	7	7	1	3	3	2	1	1	2	3	4	3	3	1	1	3	1	1	1	6	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:237872219G>A	uc001hyl.1	+	69	10083	c.9963G>A	c.(9961-9963)CCG>CCA	p.P3321P	RYR2_uc010pxz.1_Silent_p.P276P	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3321					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			ATTTCTTGCCGTTAATGGAGA	0.443													5	20					0	0	0.014758	0	0		A	237872219	A	A	237872219	2	1	128	1	0	0	0	0	0	0	0	1	13794	1132	40	1		1	RYR2	1	237872219	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4374375	237872219	11378402	105	70393											
RYR2	6262	broad.mit.edu	37	chr1	237947592	237947592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactctttgtgaacttctgcGaggacaccatctttgaaatg	11	13	8	9	1	3	2	0	2	3	0	3	4	3	3	1	1	3	0	1	1	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:237947592G>A	uc001hyl.1	+	90	12700	c.12580G>A	c.(12580-12582)GAG>AAG	p.E4194K	RYR2_uc010pya.1_Missense_Mutation_p.E609K	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4194					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GAACTTCTGCGAGGACACCAT	0.512													35	122					0	0	0.019004	0	0		A	237947592	A	A	237947592	3	1	128	1	0	0	0	0	1	0	0	0	13794	1059	37	1	12938	1	RYR2	1	237947592	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	75373	237947592	11303029	106	70394											
FMN2	56776	broad.mit.edu	37	chr1	240370335	240370335	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcataggattttagaggcGaaatcgatacagacttcccc	13	10	8	10	2	1	2	1	0	0	2	3	5	2	3	2	2	1	0	2	2	4	5	rs144753167		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:240370335G>A	uc010pyd.1	+	5	2448	c.2223G>A	c.(2221-2223)GCG>GCA	p.A741A	FMN2_uc010pye.1_Silent_p.A745A	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	741					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TTTTAGAGGCGAAATCGATAC	0.562													13	36					0	0	0.016723	0	0		A	240370335	A	A	240370335	2	1	128	1	0	0	0	0	0	0	0	1	5964	1045	37	1		1	FMN2	1	240370335	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2422743	240370335	8880286	107	70395											
CNST	163882	broad.mit.edu	37	chr1	246797236	246797236	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctattcagatgagaaagcAatgaaattcattcagctaga	16	12	7	6	0	4	4	3	2	1	3	4	5	4	4	0	0	2	2	0	0	5	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:246797236A>G	uc001ibp.2	+	5	1005	c.627A>G	c.(625-627)GCA>GCG	p.A209A	CNST_uc001ibo.3_Silent_p.A209A	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	209					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						ATGAGAAAGCAATGAAATTCA	0.343													18	56					0	0	0.007413	0	0		G	246797236	G	G	246797236	2	3	128	1	0	0	0	0	0	0	0	1	3637	117	5	3		3	CNST	1	246797236	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	6426901	246797236	2453385	108	70396											
ZNF496	84838	broad.mit.edu	37	chr1	247464565	247464565	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgttctctagagatcgCgggttgccgccagctacagg	7	9	14	11	3	1	1	0	0	1	1	3	2	1	1	2	3	3	4	2	3	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:247464565C>T	uc001ico.2	-	9	1485	c.1020G>A	c.(1018-1020)CCG>CCA	p.P340P	ZNF496_uc009xgv.2_Silent_p.P376P|ZNF496_uc001icp.2_Silent_p.P340P	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	340					positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			CTAGAGATCGCGGGTTGCCGC	0.602													18	73					0	0	0.012319	0	0		T	247464565	T	T	247464565	2	4	128	1	0	0	0	0	0	0	0	1	17970	755	27	1		1	ZNF496	1	247464565	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	667329	247464565	1786056	109	70397											
OR11L1	391189	broad.mit.edu	37	chr1	248005039	248005039	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacataggggagtgcagtcGcaggccctggctcaccacgg	8	6	15	12	2	1	0	1	0	0	0	2	1	1	1	2	5	2	4	2	5	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:248005039G>A	uc001idn.1	-	1	160	c.160C>T	c.(160-162)CGA>TGA	p.R54*		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GAGTGCAGTCGCAGGCCCTGG	0.537													9	34					0	0	0.006214	0	0		A	248005039	A	A	248005039	4	1	128	1	0	0	0	0	0	1	0	0	10949	1095	38	1	812	1	OR11L1	1	248005039	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	540474	248005039	1245582	110	70398											
OR2L8	391190	broad.mit.edu	37	chr1	248112877	248112877	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaaagcctatttgaccTgcagcacccacctcactgta	12	8	8	13	0	1	2	1	1	0	1	1	3	1	3	4	1	3	3	4	1	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:248112877T>C	uc001idt.1	+	1	718	c.718T>C	c.(718-720)TGC>CGC	p.C240R	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	240	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			CTATTTGACCTGCAGCACCCA	0.458													15	240					0	0	0.004007	0	0		C	248112877	C	C	248112877	3	2	128	1	0	0	0	0	1	0	0	0	11028	1580	55	3	720	3	OR2L8	1	248112877	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	107838	248112877	1137744	111	70399											
OR2T2	401992	broad.mit.edu	37	chr1	248616240	248616240	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagccaacttggtcatgattCtgctcatccacatggactcc	9	11	7	14	0	3	1	2	1	1	0	5	2	5	2	3	2	3	1	3	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr1:248616240C>G	uc001iek.1	+	1	142	c.142C>G	c.(142-144)CTG>GTG	p.L48V		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	48	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGTCATGATTCTGCTCATCCA	0.517													19	155					0	0	0.008361	0	0		G	248616240	G	G	248616240	3	3	128	1	0	0	0	0	1	0	0	0	11039	912	32	5	144	5	OR2T2	1	248616240	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	503363	248616240	634381	112	70400											
SNTG2	54221	broad.mit.edu	37	chr2	1263213	1263213	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctatttaaagttcacaaGgtaggtatcttttgcacttc	10	16	8	7	0	2	0	1	0	1	0	3	0	2	0	0	2	2	5	0	2	6	9			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:1263213G>A	uc002qwq.2	+	13	1205	c.1077G>A	c.(1075-1077)AAG>AAA	p.K359K	SNTG2_uc010ewi.2_Silent_p.K232K	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	359	PH.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		AAGTTCACAAGGTAGGTATCT	0.433													13	61					0	0	0.013537	0	0		A	1263213	A	A	1263213	2	1	128	1	0	0	0	0	0	0	0	1	14900	1014	35	4		4	SNTG2	2	1263213	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08		1263213	241936160	113	70401											
LPIN1	23175	broad.mit.edu	37	chr2	11964797	11964797	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagtcgaccacgttttcccGttgctgaaaagaagccattc	10	11	9	11	3	0	2	0	1	0	1	3	3	1	2	3	0	2	4	3	0	4	5	rs114931326	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:11964797G>A	uc010yjn.1	+	21	2827	c.2553G>A	c.(2551-2553)CCG>CCA	p.P851P	LPIN1_uc010yjm.1_Silent_p.P936P|LPIN1_uc002rbt.2_Silent_p.P851P|LPIN1_uc010yjo.1_Silent_p.P352P	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	851					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		ACGTTTTCCCGTTGCTGAAAA	0.498													5	145					0	0	0.014758	0	0		A	11964797	A	A	11964797	2	1	128	1	0	0	0	0	0	0	0	1	8936	1132	40	1		1	LPIN1	2	11964797	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	10701584	11964797	231234576	114	70402											
NBAS	51594	broad.mit.edu	37	chr2	15613424	15613424	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaggtcagtatccaggccGtaggtatgagccaaggacaa	14	6	12	9	1	1	1	1	1	0	0	2	2	2	2	3	4	1	3	3	4	6	3	rs138310172		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:15613424G>A	uc002rcc.1	-	16	1673	c.1647C>T	c.(1645-1647)TAC>TAT	p.Y549Y	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	549										ovary(2)|liver(1)|skin(1)	4						TATCCAGGCCGTAGGTATGAG	0.408													23	51					0	0	0.004656	0	0		A	15613424	A	A	15613424	2	1	128	1	0	0	0	0	0	0	0	1	10204	1140	40	1		1	NBAS	2	15613424	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3648627	15613424	227585949	115	70403											
HS1BP3	64342	broad.mit.edu	37	chr2	20845204	20845204	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtccagacatcatcttgcCccgtacctcctggtgctggg	5	11	11	14	1	2	1	1	0	1	1	4	1	4	1	5	2	3	2	5	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:20845204C>A	uc002rdw.1	-	2	135	c.94G>T	c.(94-96)GGC>TGC	p.G32C	HS1BP3_uc002rdx.2_Missense_Mutation_p.G32C|HS1BP3_uc002rdy.2_Missense_Mutation_p.G32C	NM_022460	NP_071905	Q53T59	H1BP3_HUMAN	HCLS1 binding protein 3	32	PX.				cell communication		phosphatidylinositol binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATCATCTTGCCCCGTACCTCC	0.607													36	93					6.29468e-14	6.72513e-14	0.021022	1	0		A	20845204	A	A	20845204	3	1	128	1	0	0	0	0	1	0	0	0	7377	623	22	5	1108	5	HS1BP3	2	20845204	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5231780	20845204	222354169	116	70404											
APOB	338	broad.mit.edu	37	chr2	21228330	21228330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagggaatcaaggagtcttCtggttgagaatattttgtta	13	14	11	3	0	3	1	1	1	2	1	3	4	3	3	0	3	0	2	0	3	6	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:21228330C>T	uc002red.2	-	26	11538	c.11410G>A	c.(11410-11412)GAA>AAA	p.E3804K		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3804					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AAGGAGTCTTCTGGTTGAGAA	0.423													84	266					0	0	0.01441	0	0		T	21228330	T	T	21228330	3	4	128	1	0	0	0	0	1	0	0	0	785	922	32	4	2297	4	APOB	2	21228330	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	383126	21228330	221971043	117	70405											
APOB	338	broad.mit.edu	37	chr2	21228376	21228376	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacttcagggaattttacCtcggggagtgttggtaggtt	8	14	13	6	1	2	0	2	0	0	0	3	2	2	2	1	5	2	3	1	5	4	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:21228376C>T	uc002red.2	-	26	11492	c.11364G>A	c.(11362-11364)GAG>GAA	p.E3788E		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3788					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GGAATTTTACCTCGGGGAGTG	0.398													89	243					0	0	0.01441	0	0		T	21228376	T	T	21228376	2	4	128	1	0	0	0	0	0	0	0	1	785	680	24	4		4	APOB	2	21228376	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	46	21228376	221970997	118	70406											
APOB	338	broad.mit.edu	37	chr2	21265342	21265342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggtgcttgaatcgggtcGcatcttctaacgtggggaga	8	10	16	7	3	2	2	0	1	2	1	4	4	2	3	0	5	2	2	0	5	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:21265342G>A	uc002red.2	-	3	256	c.128C>T	c.(127-129)GCG>GTG	p.A43V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	43	Heparin-binding.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GAATCGGGTCGCATCTTCTAA	0.517											OREG0014485	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	40	98					0	0	0.007835	0	0		A	21265342	A	A	21265342	3	1	128	1	0	0	0	0	1	0	0	0	785	1087	38	1	13671	1	APOB	2	21265342	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	36966	21265342	221934031	119	70407											
C2orf79	391356	broad.mit.edu	37	chr2	25013338	25013338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttccttggggtagggcCggagagcaatacaagtggcg	8	9	15	9	2	1	1	0	0	1	1	2	2	2	1	2	5	2	2	2	5	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:25013338C>T	uc002rfm.2	-	2	370	c.365G>A	c.(364-366)CGG>CAG	p.R122Q	CENPO_uc002rfn.2_5'Flank|CENPO_uc002rfo.1_5'Flank|CENPO_uc002rfp.1_5'Flank|CENPO_uc002rfq.1_5'Flank	NM_001013663	NP_001013685	Q6GMV3	PTRD1_HUMAN	hypothetical protein LOC391356	122					translation		aminoacyl-tRNA hydrolase activity|protein tyrosine phosphatase activity				0						GGGGTAGGGCCGGAGAGCAAT	0.502													24	70					0	0	0.021523	0	0		T	25013338	T	T	25013338	3	4	128	1	0	0	0	0	1	0	0	0	2199	652	23	1	61	1	C2orf79	2	25013338	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3747996	25013338	218186035	120	70408											
DNMT3A	1788	broad.mit.edu	37	chr2	25464521	25464521	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatggagtcctcacacacCtccgaggcaatgtagcggtc	9	8	12	12	2	1	1	1	1	0	0	4	3	3	2	3	3	1	2	3	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:25464521C>A	uc002rgc.2	-	17	2249	c.1992G>T	c.(1990-1992)GAG>GAT	p.E664D	DNMT3A_uc002rgd.2_Missense_Mutation_p.E664D|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Missense_Mutation_p.E475D	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	664					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCTCACACACCTCCGAGGCAA	0.597			Mis|F|N|S		AML								11	41					0.000978159	0.000992357	0.010729	1	0		A	25464521	A	A	25464521	3	1	128	1	0	0	0	0	1	0	0	0	4682	680	24	5	774	5	DNMT3A	2	25464521	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	451183	25464521	217734852	121	70409											
EMILIN1	11117	broad.mit.edu	37	chr2	27305168	27305168	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaatgagatccagcaccaGctgcagctcctggacacccg	10	6	9	16	1	1	1	1	1	0	1	3	3	3	2	4	1	4	4	4	1	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:27305168G>A	uc002rii.3	+	4	1157	c.729G>A	c.(727-729)CAG>CAA	p.Q243Q	EMILIN1_uc010eyq.1_Silent_p.Q243Q|EMILIN1_uc002rik.3_5'Flank	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	243	Potential.				cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCAGCACCAGCTGCAGCTCC	0.647													19	53					0	0	0.010504	0	0		A	27305168	A	A	27305168	2	1	128	1	0	0	0	0	0	0	0	1	5101	962	34	2		2	EMILIN1	2	27305168	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1840647	27305168	215894205	122	70410											
CAD	790	broad.mit.edu	37	chr2	27456970	27456970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgtgcattcaggtgatgCgacgctggtgacccccccac	7	8	13	13	2	1	2	1	2	0	0	1	3	1	2	3	3	2	2	3	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:27456970C>T	uc002rji.2	+	22	3656	c.3494C>T	c.(3493-3495)GCG>GTG	p.A1165V	CAD_uc010eyw.2_Missense_Mutation_p.A1102V	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1165	CPSase B.|ATP-grasp 2.|CPSase (Carbamoyl-phosphate synthase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	TCAGGTGATGCGACGCTGGTG	0.582													6	67					0	0	0.001168	0	0		T	27456970	T	T	27456970	3	4	128	1	0	0	0	0	1	0	0	0	2568	768	27	1	3580	1	CAD	2	27456970	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	151802	27456970	215742403	123	70411											
EIF2B4	8890	broad.mit.edu	37	chr2	27587741	27587741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccgttggccaagagtgcatGagctcccaatagcaccttgg	9	8	11	13	1	0	2	0	1	0	1	1	2	1	2	4	2	3	4	4	2	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:27587741G>A	uc002rkb.2	-	12	1359	c.1216C>T	c.(1216-1218)CAT>TAT	p.H406Y	EIF2B4_uc002rjz.2_Missense_Mutation_p.H426Y|EIF2B4_uc002rka.2_Missense_Mutation_p.H391Y|EIF2B4_uc002rkc.2_Missense_Mutation_p.H405Y|EIF2B4_uc002rkd.2_Missense_Mutation_p.H200Y|EIF2B4_uc002rke.2_Missense_Mutation_p.H375Y	NM_001034116	NP_001029288	Q9UI10	EI2BD_HUMAN	eukaryotic translation initiation factor 2B,	406					myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	translation initiation factor activity|translation initiation factor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAGAGTGCATGAGCTCCCAAT	0.488													22	49					0	0	0.014323	0	0		A	27587741	A	A	27587741	3	1	128	1	0	0	0	0	1	0	0	0	5009	1290	45	4	363	4	EIF2B4	2	27587741	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	130771	27587741	215611632	124	70412											
PPP1CB	5500	broad.mit.edu	37	chr2	29022154	29022154	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctcgaacagctaatccGccgaagaaaaggtgaagaaa	17	4	9	11	3	0	3	0	1	0	2	2	5	1	3	4	1	2	1	4	1	7	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:29022154G>A	uc002rmg.2	+	9	1129	c.969G>A	c.(967-969)CCG>CCA	p.P323P	PPP1CB_uc010ymj.1_Silent_p.P295P|PPP1CB_uc010yml.1_Silent_p.P295P|PPP1CB_uc002rmh.2_Silent_p.P323P|SPDYA_uc002rmi.2_5'UTR	NM_206876	NP_996759	P62140	PP1B_HUMAN	protein phosphatase 1, catalytic subunit, beta	323					cell cycle|cell division|glycogen metabolic process|triglyceride catabolic process	MLL5-L complex|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|myosin phosphatase activity|myosin-light-chain-phosphatase activity|protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)					CAGCTAATCCGCCGAAGAAAA	0.383													5	78					0	0	0.014758	0	0		A	29022154	A	A	29022154	2	1	128	1	0	0	0	0	0	0	0	1	12372	1074	38	1		1	PPP1CB	2	29022154	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1434413	29022154	214177219	125	70413											
NLRC4	58484	broad.mit.edu	37	chr2	32476488	32476488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcagggtcagctgctccaCgcggtgatggtgttggtcct	5	12	14	10	2	2	1	2	1	0	0	4	1	4	1	2	4	2	3	2	4	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:32476488C>T	uc002roi.2	-	4	691	c.445G>A	c.(445-447)GTG>ATG	p.V149M	NLRC4_uc002roj.1_Missense_Mutation_p.V149M|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	149					activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					AGCTGCTCCACGCGGTGATGG	0.502													27	84					0	0	0.005443	0	0		T	32476488	T	T	32476488	3	4	128	1	0	0	0	0	1	0	0	0	10488	536	19	1	2653	1	NLRC4	2	32476488	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3454334	32476488	210722885	126	70414											
BIRC6	57448	broad.mit.edu	37	chr2	32824935	32824935	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caactggtggtcatagcgtgCgattcaatccaaacctttat	11	12	8	10	2	2	0	2	0	0	0	3	1	3	0	2	2	4	0	2	2	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:32824935C>T	uc010ezu.2	+	70	14094	c.13960C>T	c.(13960-13962)CGA>TGA	p.R4654*		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4654	Ubiquitin-conjugating.				anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					TCATAGCGTGCGATTCAATCC	0.358													14	46					0	0	0.004007	0	0		T	32824935	T	T	32824935	4	4	128	1	0	0	0	0	0	1	0	0	1439	760	27	1	14238	1	BIRC6	2	32824935	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	348447	32824935	210374438	127	70415											
LTBP1	4052	broad.mit.edu	37	chr2	33500077	33500077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacctctgctcccagggccGctgtgaaaacaccgagggaa	11	5	11	14	2	1	1	0	1	1	0	2	3	2	2	4	2	2	2	4	2	3	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:33500077G>A	uc002ros.2	+	17	2792	c.2792G>A	c.(2791-2793)CGC>CAC	p.R931H	LTBP1_uc002rot.2_Missense_Mutation_p.R605H|LTBP1_uc002rou.2_Missense_Mutation_p.R604H|LTBP1_uc002rov.2_Missense_Mutation_p.R551H|LTBP1_uc010ymz.1_Missense_Mutation_p.R604H|LTBP1_uc010yna.1_Missense_Mutation_p.R551H	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	930	EGF-like 5; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				TCCCAGGGCCGCTGTGAAAAC	0.428													52	162					0	0	0.01441	0	0		A	33500077	A	A	33500077	3	1	128	1	0	0	0	0	1	0	0	0	9091	1087	38	1	2910	1	LTBP1	2	33500077	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	675142	33500077	209699296	128	70416											
SULT6B1	391365	broad.mit.edu	37	chr2	37414569	37414569	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacttttttttagaaacagCatatattaattcactgacaa	16	16	3	6	0	1	2	1	1	0	1	1	2	1	2	0	0	3	1	0	0	7	9			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:37414569C>A	uc002rpu.2	-	2	148	c.127G>T	c.(127-129)GCT>TCT	p.A43S	SULT6B1_uc010yni.1_RNA	NM_001032377	NP_001027549	Q6IMI4	ST6B1_HUMAN	sulfotransferase family, cytosolic, 6B, member	81						cytoplasm	sulfotransferase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(82;0.248)				TTAGAAACAGCATATATTAAT	0.333													13	60					0.00010058	0.000102667	0.013537	1	0		A	37414569	A	A	37414569	3	1	128	1	0	0	0	0	1	0	0	0	15409	710	25	5	694	5	SULT6B1	2	37414569	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3914492	37414569	205784804	129	70417											
KIAA1841	84542	broad.mit.edu	37	chr2	61319641	61319641	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtatttgaatagtcttttCgaagaattaaaatcttggag	14	15	9	3	1	2	2	0	1	2	1	3	5	2	3	0	1	0	1	0	1	7	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:61319641C>T	uc002saw.3	+	11	1434	c.1131C>T	c.(1129-1131)TTC>TTT	p.F377F	KIAA1841_uc002sax.3_Silent_p.F231F|KIAA1841_uc002say.2_Silent_p.F377F	NM_001129993	NP_001123465	Q6NSI8	K1841_HUMAN	KIAA1841 protein isoform a	377											0			Epithelial(17;0.193)			ATAGTCTTTTCGAAGAATTAA	0.313													36	131					0	0	0.015359	0	0		T	61319641	T	T	61319641	2	4	128	1	0	0	0	0	0	0	0	1	8277	883	31	1		1	KIAA1841	2	61319641	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	23905072	61319641	181879732	130	70418											
USP34	9736	broad.mit.edu	37	chr2	61433932	61433932	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgtgtagacttcaaaacCgaaagaaatattgacagaag	17	7	11	6	2	1	4	1	1	0	3	1	5	1	4	1	1	1	1	1	1	7	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:61433932C>T	uc002sbe.2	-	71	9031	c.9009G>A	c.(9007-9009)TCG>TCA	p.S3003S	USP34_uc002sbd.2_5'Flank	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	3003					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ACTTCAAAACCGAAAGAAATA	0.373													18	42					0	0	0.008871	0	0		T	61433932	T	T	61433932	2	4	128	1	0	0	0	0	0	0	0	1	17091	639	23	1		1	USP34	2	61433932	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	114291	61433932	181765441	131	70419											
OTX1	5013	broad.mit.edu	37	chr2	63282962	63282962	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagcgcccgcgtccgtgtcGgtgccggagccattggccgc	3	7	15	16	7	1	0	1	0	0	0	3	1	2	1	5	3	3	0	5	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:63282962G>A	uc002scd.2	+	5	824	c.576G>A	c.(574-576)TCG>TCA	p.S192S	OTX1_uc010ypt.1_Silent_p.S126S	NM_014562	NP_055377	P32242	OTX1_HUMAN	orthodenticle homeobox 1	192						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(2)	2	Lung NSC(7;0.121)|all_lung(7;0.211)					CGTCCGTGTCGGTGCCGGAGC	0.682													11	17					0	0	0.016723	0	0		A	63282962	A	A	63282962	2	1	128	1	0	0	0	0	0	0	0	1	11339	1103	39	1		1	OTX1	2	63282962	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1849030	63282962	179916411	132	70420											
ANTXR1	84168	broad.mit.edu	37	chr2	69271944	69271944	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgaaactgacagaagacAggtaaggatacttcttatct	16	11	8	6	0	2	4	0	2	2	2	2	5	2	5	0	2	2	1	0	2	6	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:69271944A>G	uc002sfg.2	+	3	651	c.295A>G	c.(295-297)AGA>GGA	p.R99G	ANTXR1_uc002sfe.2_Missense_Mutation_p.R99G|ANTXR1_uc002sff.2_Missense_Mutation_p.R99G|ANTXR1_uc002sfd.2_Missense_Mutation_p.R99G	NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	99	Extracellular (Potential).|VWFA.				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						GACAGAAGACAGGTAAGGATA	0.428									Familial_Infantile_Hemangioma				31	103					0	0	0.012213	0	0		G	69271944	G	G	69271944	3	3	128	1	0	0	0	0	1	0	0	0	711	202	7	3	305	3	ANTXR1	2	69271944	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	5988982	69271944	173927429	133	70421											
ADD2	119	broad.mit.edu	37	chr2	70905912	70905912	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgcaggtaggtgttgggcGtattgagccagcgggtcttc	5	10	16	10	3	1	1	0	1	1	0	2	1	1	1	2	4	2	4	2	4	2	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:70905912G>A	uc002sgz.2	-	11	1772	c.1307C>T	c.(1306-1308)ACG>ATG	p.T436M	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Missense_Mutation_p.T436M|ADD2_uc002sha.2_Intron|ADD2_uc002sgx.2_Missense_Mutation_p.T436M|ADD2_uc010fdt.1_Missense_Mutation_p.T436M|ADD2_uc002shc.1_Missense_Mutation_p.T436M|ADD2_uc002shd.1_Intron|ADD2_uc010fdu.1_Missense_Mutation_p.T452M	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	436	Interaction with calmodulin (Potential).				actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						GGTGTTGGGCGTATTGAGCCA	0.647													83	223					0	0	0.01441	0	0		A	70905912	A	A	70905912	3	1	128	1	0	0	0	0	1	0	0	0	305	1145	40	1	1074	1	ADD2	2	70905912	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1633968	70905912	172293461	134	70422											
DYSF	8291	broad.mit.edu	37	chr2	71753393	71753393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacaaggaggacattgaaaGcaacctgctccggcccacag	14	4	11	12	1	0	2	0	1	0	1	1	4	1	4	3	3	3	2	3	3	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:71753393G>A	uc002sie.2	+	12	1473	c.1097G>A	c.(1096-1098)AGC>AAC	p.S366N	DYSF_uc010feg.2_Missense_Mutation_p.S397N|DYSF_uc010feh.2_Missense_Mutation_p.S366N|DYSF_uc002sig.3_Missense_Mutation_p.S366N|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.S366N|DYSF_uc010fef.2_Missense_Mutation_p.S397N|DYSF_uc010fei.2_Missense_Mutation_p.S397N|DYSF_uc010fek.2_Missense_Mutation_p.S398N|DYSF_uc010fej.2_Missense_Mutation_p.S367N|DYSF_uc010fel.2_Missense_Mutation_p.S367N|DYSF_uc010feo.2_Missense_Mutation_p.S398N|DYSF_uc010fem.2_Missense_Mutation_p.S367N|DYSF_uc010fen.2_Missense_Mutation_p.S398N|DYSF_uc002sif.2_Missense_Mutation_p.S367N	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	366	Cytoplasmic (Potential).|C2 3.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GACATTGAAAGCAACCTGCTC	0.577													94	320					0	0	0.01441	0	0		A	71753393	A	A	71753393	3	1	128	1	0	0	0	0	1	0	0	0	4865	971	34	2	1335	2	DYSF	2	71753393	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	847481	71753393	171445980	135	70423											
SMYD5	10322	broad.mit.edu	37	chr2	73452826	73452826	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagccgccacaagatccTcaggtgccagctggggacat	10	5	11	15	1	1	1	1	0	0	1	2	2	2	2	5	3	3	1	5	3	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:73452826T>C	uc002siw.2	+	12	1132	c.1103T>C	c.(1102-1104)CTC>CCC	p.L368P	SMYD5_uc010yre.1_Missense_Mutation_p.L252P|SMYD5_uc002six.1_RNA	NM_006062	NP_006053	Q6GMV2	SMYD5_HUMAN	SMYD family member 5	368							metal ion binding				0						CACAAGATCCTCAGGTGCCAG	0.602													97	246					0	0	0.01441	0	0		C	73452826	C	C	73452826	3	2	128	1	0	0	0	0	1	0	0	0	14850	1551	54	3	1149	3	SMYD5	2	73452826	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1699433	73452826	169746547	136	70424											
SMYD5	10322	broad.mit.edu	37	chr2	73453008	73453008	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctcagaagaggaagaggaAgaggaggaggaggaggaagg	17	1	20	3	0	1	4	1	0	0	4	1	11	1	11	1	8	0	0	1	8	4	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:73453008A>G	uc002siw.2	+	13	1220	c.1191A>G	c.(1189-1191)GAA>GAG	p.E397E	SMYD5_uc010yre.1_Silent_p.E281E|SMYD5_uc002six.1_RNA	NM_006062	NP_006053	Q6GMV2	SMYD5_HUMAN	SMYD family member 5	397	Glu-rich.						metal ion binding				0						aggaagaggaagaggaggagg	0.463													5	196					0	0	0.014758	0	0		G	73453008	G	G	73453008	2	3	128	1	0	0	0	0	0	0	0	1	14850	69	3	3		3	SMYD5	2	73453008	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	182	73453008	169746365	137	70425											
ALMS1	7840	broad.mit.edu	37	chr2	73826620	73826620	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgcaacaagcagaatgtAcacatgttaaacaagggcat	16	10	8	7	0	0	1	0	0	0	1	0	1	0	1	0	1	5	5	0	1	7	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:73826620A>G	uc002sje.1	+	19	11754	c.11643A>G	c.(11641-11643)GTA>GTG	p.V3881V	ALMS1_uc002sjf.1_Silent_p.V3837V|ALMS1_uc002sjh.1_Silent_p.V3267V	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3879					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AGCAGAATGTACACATGTTAA	0.279													83	234					0	0	0.01441	0	0		G	73826620	G	G	73826620	2	3	128	1	0	0	0	0	0	0	0	1	535	378	14	3		3	ALMS1	2	73826620	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	373612	73826620	169372753	138	70426											
C2orf78	388960	broad.mit.edu	37	chr2	74043233	74043233	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccgaagctccctaggcaTgcacatgctagagtccgtgc	8	7	11	15	2	0	1	0	0	0	1	2	2	2	1	4	1	4	4	4	1	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:74043233T>C	uc002sjr.1	+	3	2004	c.1883T>C	c.(1882-1884)ATG>ACG	p.M628T		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	628										ovary(2)	2						TCCCTAGGCATGCACATGCTA	0.463													20	78					0	0	0.010504	0	0		C	74043233	C	C	74043233	3	2	128	1	0	0	0	0	1	0	0	0	2198	1464	51	3	1893	3	C2orf78	2	74043233	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	216613	74043233	169156140	139	70427											
ACTG2	72	broad.mit.edu	37	chr2	74143792	74143792	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catccgtaaggacttatatgCcaacaatgtcctctctgggg	10	11	9	11	1	1	0	0	0	1	0	4	1	3	1	3	3	2	1	3	3	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:74143792C>G	uc002sjw.2	+	8	1009	c.887C>G	c.(886-888)GCC>GGC	p.A296G	ACTG2_uc010fey.2_Missense_Mutation_p.A296G|ACTG2_uc010yrn.1_Missense_Mutation_p.A253G	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	296					muscle contraction	cytoskeleton|cytosol	ATP binding				0						GACTTATATGCCAACAATGTC	0.507													23	76					0	0	0.014323	0	0		G	74143792	G	G	74143792	3	3	128	1	0	0	0	0	1	0	0	0	197	739	26	5	913	5	ACTG2	2	74143792	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	100559	74143792	169055581	140	70428											
AUP1	550	broad.mit.edu	37	chr2	74755569	74755569	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccaggggtctctgaactTgcagggtaagaggttgtacc	10	9	14	8	0	1	3	0	1	1	2	2	3	1	3	2	4	3	4	2	4	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:74755569T>C	uc010yrx.1	-	4	869	c.743A>G	c.(742-744)CAA>CGA	p.Q248R	DQX1_uc010yrw.1_5'Flank|AUP1_uc002sme.2_5'Flank|AUP1_uc002smf.2_Missense_Mutation_p.Q191R|AUP1_uc002smg.2_RNA|AUP1_uc002smh.2_Missense_Mutation_p.Q100R|HTRA2_uc002smi.1_5'Flank|HTRA2_uc002smj.1_5'Flank|HTRA2_uc002smk.1_5'Flank|HTRA2_uc002sml.1_5'Flank|HTRA2_uc002smm.1_5'Flank|HTRA2_uc002smn.1_5'Flank|HTRA2_uc010ffl.2_5'Flank			Q9Y679	AUP1_HUMAN	SubName: Full=cDNA FLJ57204, highly similar to Homo sapiens ancient ubiquitous protein 1 (AUP1), transcript variant 2, mRNA;	257	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nucleus	protein binding				0						TCTCTGAACTTGCAGGGTAAG	0.527													24	77					0	0	0.01892	0	0		C	74755569	C	C	74755569	3	2	128	1	0	0	0	0	1	0	0	0	1221	1812	63	3	692	3	AUP1	2	74755569	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	611777	74755569	168443804	141	70429											
CTNNA2	1496	broad.mit.edu	37	chr2	80646660	80646660	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcattgaggctgcaaagagCggaaatgaaaaggaagtgaa	17	6	13	5	1	1	4	1	3	0	1	1	6	1	6	0	3	2	2	0	3	6	1	rs148134866	by1000genomes	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:80646660C>A	uc010ysh.1	+	8	1229	c.1224C>A	c.(1222-1224)AGC>AGA	p.S408R	CTNNA2_uc010yse.1_Missense_Mutation_p.S408R|CTNNA2_uc010ysf.1_Missense_Mutation_p.S408R|CTNNA2_uc010ysg.1_Missense_Mutation_p.S408R|CTNNA2_uc010ysi.1_Missense_Mutation_p.S40R	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	408					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						CTGCAAAGAGCGGAAATGAAA	0.443													42	140					6.2361e-21	6.77704e-21	0.007835	1	0		A	80646660	A	A	80646660	3	1	128	1	0	0	0	0	1	0	0	0	4016	767	27	5	1046	5	CTNNA2	2	80646660	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5891091	80646660	162552713	142	70430											
SFTPB	6439	broad.mit.edu	37	chr2	85892493	85892493	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaatggggaattgctgctcGgagagatcctggggaaagaa	12	7	17	5	1	0	2	0	0	0	2	2	7	1	6	1	6	2	2	1	6	4	1	rs45530632	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:85892493G>A	uc002sqh.2	-	6	597	c.591C>T	c.(589-591)TCC>TCT	p.S197S	SFTPB_uc002sqi.2_Silent_p.S209S|SFTPB_uc002sqj.2_Silent_p.S197S	NM_198843	NP_942140	P07988	PSPB_HUMAN	surfactant, pulmonary-associated protein B	197					organ morphogenesis|respiratory gaseous exchange|sphingolipid metabolic process	extracellular space|lysosome				ovary(1)|central_nervous_system(1)	2						ATTGCTGCTCGGAGAGATCCT	0.592													69	177					0	0	0.01441	0	0		A	85892493	A	A	85892493	2	1	128	1	0	0	0	0	0	0	0	1	14216	1103	39	1		1	SFTPB	2	85892493	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5245833	85892493	157306880	143	70431											
PTCD3	55037	broad.mit.edu	37	chr2	86352130	86352130	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtctagagcaaaaaacaaCgctgagagaatcttttctct	14	11	8	8	1	3	3	0	1	3	2	4	4	3	3	0	0	3	2	0	0	6	3	rs75290041		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:86352130C>T	uc002sqw.2	+	10	795	c.729C>T	c.(727-729)AAC>AAT	p.N243N	PTCD3_uc010ytc.1_RNA|PTCD3_uc002sqx.1_Translation_Start_Site	NM_017952	NP_060422	Q96EY7	PTCD3_HUMAN	pentatricopeptide repeat domain 3 precursor	243						mitochondrion	protein binding	p.N243N(1)		ovary(1)	1						CAAAAAACAACGCTGAGAGAA	0.284													12	39					0	0	0.016723	0	0		T	86352130	T	T	86352130	2	4	128	1	0	0	0	0	0	0	0	1	12751	535	19	1		1	PTCD3	2	86352130	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	459637	86352130	156847243	144	70432											
KDM3A	55818	broad.mit.edu	37	chr2	86677036	86677036	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acataatttggttttagctgAacgaaagtcacctgaaattt	14	14	7	6	1	1	2	1	2	0	0	1	3	1	2	1	1	2	2	1	1	5	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:86677036A>G	uc002sri.3	+	3	620	c.293A>G	c.(292-294)GAA>GGA	p.E98G	KDM3A_uc010ytj.1_Missense_Mutation_p.E98G|KDM3A_uc010ytk.1_Intron	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	98					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						GTTTTAGCTGAACGAAAGTCA	0.393													46	168					0	0	0.01441	0	0		G	86677036	G	G	86677036	3	3	128	1	0	0	0	0	1	0	0	0	8142	246	9	3	299	3	KDM3A	2	86677036	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	324906	86677036	156522337	145	70433											
FAHD2B	151313	broad.mit.edu	37	chr2	97751910	97751910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctttctttccaatgaccacgGccagctccacttcccaatct	8	12	4	17	1	2	1	0	1	2	0	5	1	5	1	5	1	1	1	5	1	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:97751910G>A	uc002sxm.2	-	4	639	c.488C>T	c.(487-489)GCC>GTC	p.A163V		NM_199336	NP_955368	Q6P2I3	FAH2B_HUMAN	fumarylacetoacetate hydrolase domain containing	163							hydrolase activity|metal ion binding				0						AATGACCACGGCCAGCTCCAC	0.587													5	29					0	0	0.001168	0	0		A	97751910	A	A	97751910	3	1	128	1	0	0	0	0	1	0	0	0	5385	1203	42	2	476	2	FAHD2B	2	97751910	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	11074874	97751910	145447463	146	70434											
VWA3B	200403	broad.mit.edu	37	chr2	98804519	98804519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgggagcttggtccacGtcaacattaccaaagagaag	14	7	12	8	1	1	1	1	0	0	1	2	4	2	3	2	3	3	1	2	3	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:98804519G>A	uc002syo.2	+	10	1657	c.1393G>A	c.(1393-1395)GTC>ATC	p.V465I	VWA3B_uc010yvh.1_Missense_Mutation_p.V315I|VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_Intron|VWA3B_uc002syl.1_Intron|VWA3B_uc002sym.2_Missense_Mutation_p.V465I|VWA3B_uc002syn.1_Intron|VWA3B_uc010yvi.1_Missense_Mutation_p.V122I	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	465										ovary(3)|large_intestine(2)|skin(1)	6						CTTGGTCCACGTCAACATTAC	0.488													35	89					0	0	0.019004	0	0		A	98804519	A	A	98804519	3	1	128	1	0	0	0	0	1	0	0	0	17267	1145	40	1	1427	1	VWA3B	2	98804519	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1052609	98804519	144394854	147	70435											
LONRF2	164832	broad.mit.edu	37	chr2	100916228	100916228	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcaggtgcatcctccacGtcatccggaaactgtctctt	8	11	9	13	2	3	0	2	0	1	0	7	1	6	1	3	3	2	1	3	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:100916228G>A	uc002tal.3	-	5	1858	c.1218C>T	c.(1216-1218)GAC>GAT	p.D406D	LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	406					proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						CATCCTCCACGTCATCCGGAA	0.458													19	127					0	0	0.016522	0	0		A	100916228	A	A	100916228	2	1	128	1	0	0	0	0	0	0	0	1	8913	1136	40	1		1	LONRF2	2	100916228	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2111709	100916228	142283145	148	70436											
C2orf29	55571	broad.mit.edu	37	chr2	101885796	101885796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattgaattcagtaggatacGagaagctgctggtcttttcc	10	14	10	7	1	2	2	1	1	1	1	3	4	3	3	1	2	3	3	1	2	5	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:101885796G>A	uc002taw.3	+	7	1536	c.1454G>A	c.(1453-1455)CGA>CAA	p.R485Q		NM_017546	NP_060016	Q9UKZ1	CB029_HUMAN	hypothetical protein LOC55571	485					cell proliferation|nuclear-transcribed mRNA poly(A) tail shortening	cytosol				ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						AGTAGGATACGAGAAGCTGCT	0.393													36	94					0	0	0.005524	0	0		A	101885796	A	A	101885796	3	1	128	1	0	0	0	0	1	0	0	0	2164	1058	37	1	1480	1	C2orf29	2	101885796	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	969568	101885796	141313577	149	70437											
EN1	2019	broad.mit.edu	37	chr2	119600627	119600627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggctttcttgatcttggCgcgcttgttctggaaccaga	5	15	12	9	2	3	2	0	1	3	1	3	3	3	3	1	3	1	3	1	3	1	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:119600627C>T	uc002tlm.2	-	2	2082	c.1066G>A	c.(1066-1068)GCC>ACC	p.A356T		NM_001426	NP_001417	Q05925	HME1_HUMAN	engrailed homeobox 1	356	Homeobox.				skeletal system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|lung(1)	2						TTGATCTTGGCGCGCTTGTTC	0.597													21	52					0	0	0.008871	0	0		T	119600627	T	T	119600627	3	4	128	1	0	0	0	0	1	0	0	0	5117	768	27	1	116	1	EN1	2	119600627	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	17714831	119600627	123598746	150	70438											
WDR33	55339	broad.mit.edu	37	chr2	128476878	128476878	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccatcacctagcagaggCgttttctgttgctggaatgg	7	11	13	10	1	2	1	1	0	1	1	2	2	2	2	2	4	2	4	2	4	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:128476878C>T	uc002tpg.1	-	16	2904	c.2721G>A	c.(2719-2721)ACG>ACA	p.T907T		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	907					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		CTAGCAGAGGCGTTTTCTGTT	0.547													41	275					0	0	0.013114	0	0		T	128476878	T	T	128476878	2	4	128	1	0	0	0	0	0	0	0	1	17313	755	27	1		1	WDR33	2	128476878	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	8876251	128476878	114722495	151	70439											
WDR33	55339	broad.mit.edu	37	chr2	128476952	128476952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggttctgctgtccctgagGtccggggggtccttgcatgc	2	12	16	11	1	1	1	0	1	1	0	4	1	4	1	3	5	3	3	3	5	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:128476952G>A	uc002tpg.1	-	16	2830	c.2647C>T	c.(2647-2649)CCT>TCT	p.P883S		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	883					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		TGTCCCTGAGGTCCGGGGGGT	0.632													53	191					0	0	0.01441	0	0		A	128476952	A	A	128476952	3	1	128	1	0	0	0	0	1	0	0	0	17313	1261	44	4	1391	4	WDR33	2	128476952	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	74	128476952	114722421	152	70440											
FAM123C	205147	broad.mit.edu	37	chr2	131521965	131521965	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggcctctgtggaggaccagCccttgcagctcagcacagag	8	6	14	13	0	2	1	1	0	1	1	2	3	2	3	3	3	4	3	3	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:131521965C>T	uc002trw.2	+	2	2510	c.2320C>T	c.(2320-2322)CCC>TCC	p.P774S	FAM123C_uc010fmv.2_Missense_Mutation_p.P774S|FAM123C_uc010fms.1_Missense_Mutation_p.P774S|FAM123C_uc010fmt.1_Missense_Mutation_p.P774S|FAM123C_uc010fmu.1_Missense_Mutation_p.P774S	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	774										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GGAGGACCAGCCCTTGCAGCT	0.677													12	26					0	0	0.010729	0	0		T	131521965	T	T	131521965	3	4	128	1	0	0	0	0	1	0	0	0	5435	739	26	2	2322	2	FAM123C	2	131521965	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3045013	131521965	111677408	153	70441											
NCKAP5	344148	broad.mit.edu	37	chr2	133483297	133483297	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtcactattactgccaccGctggcagagtacgtacacat	10	10	8	13	2	1	1	1	0	0	1	1	1	1	1	2	1	4	4	2	1	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:133483297G>A	uc002ttp.2	-	19	5990	c.5616C>T	c.(5614-5616)AGC>AGT	p.S1872S	NCKAP5_uc002ttq.2_Silent_p.S553S	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1872							protein binding				0						TACTGCCACCGCTGGCAGAGT	0.458													8	23					0	0	0.010729	0	0		A	133483297	A	A	133483297	2	1	128	1	0	0	0	0	0	0	0	1	10242	1078	38	1		1	NCKAP5	2	133483297	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1961332	133483297	109716076	154	70442											
TMEM163	81615	broad.mit.edu	37	chr2	135215680	135215680	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccagaccgccgagtcatgCttgaacacttccgcgctcag	9	8	9	15	4	2	2	2	1	0	1	3	3	3	2	4	0	3	2	4	0	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:135215680C>T	uc002ttx.2	-	7	798	c.732G>A	c.(730-732)AAG>AAA	p.K244K	TMEM163_uc002tty.2_RNA	NM_030923	NP_112185	Q8TC26	TM163_HUMAN	transmembrane protein 163	244						integral to membrane					0				BRCA - Breast invasive adenocarcinoma(221;0.154)		CCGAGTCATGCTTGAACACTT	0.547													36	121					0	0	0.00874	0	0		T	135215680	T	T	135215680	2	4	128	1	0	0	0	0	0	0	0	1	16103	796	28	2		2	TMEM163	2	135215680	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1732383	135215680	107983693	155	70443											
LRP1B	53353	broad.mit.edu	37	chr2	141201956	141201956	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcccattacatcttaagtTtactgggatacatttctggt	9	17	7	8	0	2	0	0	0	2	0	2	1	2	1	1	2	4	1	1	2	4	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:141201956T>C	uc002tvj.1	-	65	11209	c.10237A>G	c.(10237-10239)AAC>GAC	p.N3413D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3413	Extracellular (Potential).|LDL-receptor class A 23.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CATCTTAAGTTTACTGGGATA	0.398										TSP Lung(27;0.18)			47	161					0	0	0.01441	0	0		C	141201956	C	C	141201956	3	2	128	1	0	0	0	0	1	0	0	0	8973	1841	64	3	3670	3	LRP1B	2	141201956	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	5986276	141201956	101997417	156	70444											
LRP1B	53353	broad.mit.edu	37	chr2	141660492	141660492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaaatagttacttaccaaCacttgtacaactttcaccgt	15	12	3	11	1	1	0	1	0	0	0	1	0	1	0	2	0	5	2	2	0	8	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:141660492C>T	uc002tvj.1	-	23	4735	c.3763G>A	c.(3763-3765)GTT>ATT	p.V1255I	LRP1B_uc010fnl.1_Missense_Mutation_p.V437I	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1255	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TACTTACCAACACTTGTACAA	0.373										TSP Lung(27;0.18)			23	105					0	0	0.012319	0	0		T	141660492	T	T	141660492	3	4	128	1	0	0	0	0	1	0	0	0	8973	478	17	4	10312	4	LRP1B	2	141660492	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	458536	141660492	101538881	157	70445											
CACNB4	785	broad.mit.edu	37	chr2	152739824	152739824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgtcgaattgcttcccGgtcctcttccaaagagacat	8	12	7	14	2	1	1	0	0	1	1	6	3	5	1	4	1	1	1	4	1	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:152739824G>A	uc002tya.2	-	3	276	c.208C>T	c.(208-210)CGG>TGG	p.R70W	CACNB4_uc002txy.2_Missense_Mutation_p.R36W|CACNB4_uc002txz.2_Missense_Mutation_p.R52W|CACNB4_uc010fnz.2_Missense_Mutation_p.R70W|CACNB4_uc002tyb.2_Missense_Mutation_p.R36W	NM_000726	NP_000717	O00305	CACB4_HUMAN	calcium channel, voltage-dependent, beta 4	70					axon guidance|membrane depolarization|synaptic transmission	cytosol|internal side of plasma membrane|plasma membrane|synapse|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.156)	Verapamil(DB00661)	ATTGCTTCCCGGTCCTCTTCC	0.483													31	156					0	0	0.017118	0	0		A	152739824	A	A	152739824	3	1	128	1	0	0	0	0	1	0	0	0	2558	1115	39	1	1402	1	CACNB4	2	152739824	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	11079332	152739824	90459549	158	70446											
TANC1	85461	broad.mit.edu	37	chr2	160025864	160025864	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcacaatacggccggaggTagggcacaggaagttaaagg	13	5	16	7	2	0	0	0	0	0	0	0	2	0	2	1	7	1	4	1	7	6	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:160025864T>C	uc002uag.2	+	9	1324	c.1050T>C	c.(1048-1050)GGT>GGC	p.G350G	TANC1_uc010fol.1_Silent_p.G244G|TANC1_uc010zcm.1_Splice_Site_p.A349_splice|TANC1_uc010fom.1_Silent_p.G156G	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	350						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CGGCCGGAGGTAGGGCACAGG	0.438													51	114					0	0	0.01441	0	0		C	160025864	C	C	160025864	2	2	128	1	0	0	0	0	0	0	0	1	15569	1652	57	3		3	TANC1	2	160025864	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	7286040	160025864	83173509	159	70447											
TBR1	10716	broad.mit.edu	37	chr2	162280585	162280585	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagcgactcggggatttaCgagcaggccaagcggaggcg	9	5	16	11	5	0	0	0	0	0	0	2	4	1	2	2	5	4	1	2	5	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:162280585C>T	uc002ubw.1	+	6	2198	c.1896C>T	c.(1894-1896)TAC>TAT	p.Y632Y	TBR1_uc010foy.2_Silent_p.Y345Y	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	632						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CGGGGATTTACGAGCAGGCCA	0.672													9	11					0	0	0.010729	0	0		T	162280585	T	T	162280585	2	4	128	1	0	0	0	0	0	0	0	1	15672	547	19	1		1	TBR1	2	162280585	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2254721	162280585	80918788	160	70448											
LRP2	4036	broad.mit.edu	37	chr2	170042445	170042445	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgagcttgtaaccaggaCgacaggaacaatagaaactg	17	6	10	8	1	0	2	0	1	0	1	0	5	0	4	1	2	4	2	1	2	5	3	rs35086590	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:170042445C>A	uc002ues.2	-	50	9626	c.9413G>T	c.(9412-9414)CGT>CTT	p.R3138L		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3138	EGF-like 11.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GTAACCAGGACGACAGGAACA	0.433													45	116					3.4345e-17	3.71116e-17	0.011902	1	0		A	170042445	A	A	170042445	3	1	128	1	0	0	0	0	1	0	0	0	8974	536	19	5	4674	5	LRP2	2	170042445	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	7761860	170042445	73156928	161	70449											
UBR3	130507	broad.mit.edu	37	chr2	170938287	170938287	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatacaaagttcttgagcaAcagtggatttctcatacttt	13	14	7	7	0	2	2	1	1	2	1	3	3	2	3	0	1	4	2	0	1	4	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:170938287A>G	uc010zdi.1	+	39	5601	c.5601A>G	c.(5599-5601)CAA>CAG	p.Q1867Q	UBR3_uc002ufr.3_RNA|UBR3_uc010fqa.2_Silent_p.Q688Q|UBR3_uc002uft.3_Silent_p.Q724Q|UBR3_uc010zdj.1_Silent_p.Q558Q|UBR3_uc002ufu.3_Silent_p.Q373Q	NM_172070	NP_742067	Q6ZT12	UBR3_HUMAN	E3 ubiquitin-protein ligase UBR3	1867					sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0						TTCTTGAGCAACAGTGGATTT	0.368													45	120					0	0	0.011902	0	0		G	170938287	G	G	170938287	2	3	128	1	0	0	0	0	0	0	0	1	16929	40	2	3		3	UBR3	2	170938287	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	895842	170938287	72261086	162	70450											
GORASP2	26003	broad.mit.edu	37	chr2	171822463	171822463	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccaccagcaacgcaccCtccgaccctgccacaactac	10	3	5	23	3	0	0	0	0	0	0	1	1	1	0	7	0	5	2	7	0	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:171822463C>T	uc002ugk.2	+	10	1322	c.1182C>T	c.(1180-1182)CCC>CCT	p.P394P	GORASP2_uc002ugj.2_Silent_p.P326P|GORASP2_uc010zdl.1_Silent_p.P406P|GORASP2_uc010zdm.1_Silent_p.P350P|GORASP2_uc002ugl.2_Silent_p.P326P|GORASP2_uc002ugm.2_Silent_p.P176P	NM_015530	NP_056345	Q9H8Y8	GORS2_HUMAN	golgi reassembly stacking protein 2	394						Golgi membrane				breast(1)|central_nervous_system(1)	2						GCAACGCACCCTCCGACCCTG	0.622													24	70					0	0	0.008361	0	0		T	171822463	T	T	171822463	2	4	128	1	0	0	0	0	0	0	0	1	6591	668	24	4		4	GORASP2	2	171822463	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	884176	171822463	71376910	163	70451											
CDCA7	83879	broad.mit.edu	37	chr2	174229538	174229538	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagcaatcaaggagaccgCgaaggcgtacattcccgggt	11	8	12	10	4	1	1	1	0	0	1	2	3	2	1	2	3	2	2	2	3	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:174229538C>T	uc002uid.1	+	5	609	c.478C>T	c.(478-480)CGA>TGA	p.R160*	CDCA7_uc002uic.1_Nonsense_Mutation_p.R239*|CDCA7_uc010zej.1_Nonsense_Mutation_p.R195*|CDCA7_uc010zek.1_Nonsense_Mutation_p.R118*	NM_145810	NP_665809	Q9BWT1	CDCA7_HUMAN	cell division cycle associated 7 isoform 2	160	Arg-rich.				regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.116)			AAGGAGACCGCGAAGGCGTAC	0.493													11	141					0	0	0.008291	0	0		T	174229538	T	T	174229538	4	4	128	1	0	0	0	0	0	1	0	0	3093	760	27	1	737	1	CDCA7	2	174229538	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2407075	174229538	68969835	164	70452											
HOXD9	3235	broad.mit.edu	37	chr2	176987559	176987559	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaccctcagcaactactaCgtggactcgcttataggcca	10	8	9	14	2	1	0	1	0	0	0	2	1	1	1	2	3	4	3	2	3	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:176987559C>T	uc010zex.1	+	1	147	c.63C>T	c.(61-63)TAC>TAT	p.Y21Y		NM_014213	NP_055028	P28356	HXD9_HUMAN	homeobox D9	21						nucleus	sequence-specific DNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		GCAACTACTACGTGGACTCGC	0.687													9	26					0	0	0.006214	0	0		T	176987559	T	T	176987559	2	4	128	1	0	0	0	0	0	0	0	1	7342	547	19	1		1	HOXD9	2	176987559	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2758021	176987559	66211814	165	70453											
PDE11A	50940	broad.mit.edu	37	chr2	178740634	178740634	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggacatcaattcaaaggatTtggtaaatttcaccacctgt	13	12	8	8	0	3	0	3	0	0	0	3	2	3	2	2	3	0	1	2	3	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:178740634T>C	uc002ulq.2	-	5	1637	c.1319A>G	c.(1318-1320)AAA>AGA	p.K440R	PDE11A_uc002ulp.2_5'UTR|PDE11A_uc002ulr.2_Missense_Mutation_p.K190R|PDE11A_uc002uls.1_Missense_Mutation_p.K82R|PDE11A_uc002ult.1_Missense_Mutation_p.K190R|PDE11A_uc002ulu.1_Missense_Mutation_p.K82R	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	440	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TTCAAAGGATTTGGTAAATTT	0.368									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				6	108					0	0	0.001984	0	0		C	178740634	C	C	178740634	3	2	128	1	0	0	0	0	1	0	0	0	11650	1841	64	3	1546	3	PDE11A	2	178740634	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1753075	178740634	64458739	166	70454											
TTN	7273	broad.mit.edu	37	chr2	179443547	179443547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttaccaaatggatgtctcGcaacaattggctccgatttc	11	12	7	11	2	1	0	0	0	1	0	4	2	2	1	2	2	2	2	2	2	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:179443547G>A	uc010zfg.1	-	269	60730	c.60506C>T	c.(60505-60507)GCG>GTG	p.A20169V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A13864V|TTN_uc010zfi.1_Missense_Mutation_p.A13797V|TTN_uc010zfj.1_Missense_Mutation_p.A13672V|uc002umv.1_5'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21096							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGATGTCTCGCAACAATTGG	0.398													36	113					0	0	0.006999	0	0		A	179443547	A	A	179443547	3	1	128	1	0	0	0	0	1	0	0	0	16761	1087	38	1	39941	1	TTN	2	179443547	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	702913	179443547	63755826	167	70455											
TTN	7273	broad.mit.edu	37	chr2	179474231	179474231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggtgatccagaaatacttGcatcaagtgctatttcatca	14	12	7	8	0	3	2	3	1	0	1	4	2	4	2	1	1	3	2	1	1	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:179474231G>A	uc010zfg.1	-	222	44326	c.44102C>T	c.(44101-44103)GCA>GTA	p.A14701V	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A8396V|TTN_uc010zfi.1_Missense_Mutation_p.A8329V|TTN_uc010zfj.1_Missense_Mutation_p.A8204V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15628							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGAAATACTTGCATCAAGTGC	0.383													4	90					0	0	0.009096	0	0		A	179474231	A	A	179474231	3	1	128	1	0	0	0	0	1	0	0	0	16761	1319	46	2	56247	2	TTN	2	179474231	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	30684	179474231	63725142	168	70456											
TTN	7273	broad.mit.edu	37	chr2	179474816	179474816	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatccatgtccaaacttaCgctttggatcttgagcaatg	10	13	8	10	1	1	1	0	1	1	0	3	2	3	2	2	1	4	3	2	1	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:179474816C>T	uc010zfg.1	-	220	43956	c.43732_splice	c.e220+1	p.Q14578_splice	uc002ump.1_Intron|TTN_uc010zfh.1_Splice_Site_p.Q8273_splice|TTN_uc010zfi.1_Splice_Site_p.Q8206_splice|TTN_uc010zfj.1_Splice_Site_p.Q8081_splice	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A								ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCCAAACTTACGCTTTGGATC	0.363													29	83					0	0	0.007291	0	0		T	179474816	T	T	179474816	5	4	128	1	0	0	0	0	0	0	1	0	16761	550	19	1	56624	1	TTN	2	179474816	Splice_Site	SNP	C	TCGA-CG-4306-01A-01D-1158-08	585	179474816	63724557	169	70457											
TTN	7273	broad.mit.edu	37	chr2	179576715	179576715	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaaacttctcccacgctgTtttcagctttgcagatatat	10	14	6	11	1	2	2	1	0	1	2	3	2	2	2	1	0	3	4	1	0	3	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:179576715T>C	uc010zfg.1	-	93	24334	c.24110A>G	c.(24109-24111)AAC>AGC	p.N8037S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.N4698S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8964							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCCCACGCTGTTTTCAGCTTT	0.338													20	86					0	0	0.016522	0	0		C	179576715	C	C	179576715	3	2	128	1	0	0	0	0	1	0	0	0	16761	1725	60	3	76755	3	TTN	2	179576715	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	101899	179576715	63622658	170	70458											
TTN	7273	broad.mit.edu	37	chr2	179580340	179580340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcacagccaccgagtcaaCgaatgacattctgaatttac	14	8	7	12	2	2	2	1	2	1	0	2	4	2	2	2	0	4	1	2	0	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:179580340C>T	uc010zfg.1	-	86	22293	c.22069G>A	c.(22069-22071)GTT>ATT	p.V7357I	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.V4018I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8284							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACCGAGTCAACGAATGACATT	0.463													19	32					0	0	0.004656	0	0		T	179580340	T	T	179580340	3	4	128	1	0	0	0	0	1	0	0	0	16761	536	19	1	78824	1	TTN	2	179580340	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3625	179580340	63619033	171	70459											
ITGA4	3676	broad.mit.edu	37	chr2	182323028	182323028	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaatcccggccagacgtgCgaacagctccagctgggtga	11	5	13	12	3	0	3	0	1	0	2	2	4	2	3	3	2	4	2	3	2	3	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:182323028C>T	uc002unu.2	+	2	1066	c.303C>T	c.(301-303)TGC>TGT	p.C101C	ITGA4_uc002unt.2_Silent_p.C101C|ITGA4_uc010zfl.1_Silent_p.C101C	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	101	Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	GCCAGACGTGCGAACAGCTCC	0.587													5	25					0	0	0.014758	0	0		T	182323028	T	T	182323028	2	4	128	1	0	0	0	0	0	0	0	1	7894	776	27	1		1	ITGA4	2	182323028	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2742688	182323028	60876345	172	70460											
MYO1B	4430	broad.mit.edu	37	chr2	192141734	192141734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcaacaacctcaagaagcGctttgaccacagtgaaatat	16	8	6	11	1	2	3	2	2	0	1	2	3	2	3	2	0	3	1	2	0	6	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:192141734G>A	uc010fsg.2	+	2	368	c.113G>A	c.(112-114)CGC>CAC	p.R38H	MYO1B_uc002usq.2_Missense_Mutation_p.R38H|MYO1B_uc002usr.2_Missense_Mutation_p.R38H|MYO1B_uc002uss.1_Missense_Mutation_p.R38H	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	38	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			CTCAAGAAGCGCTTTGACCAC	0.413													5	188					0	0	0.001168	0	0		A	192141734	A	A	192141734	3	1	128	1	0	0	0	0	1	0	0	0	10087	1087	38	1	115	1	MYO1B	2	192141734	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	9818706	192141734	51057639	173	70461											
STK17B	9262	broad.mit.edu	37	chr2	197002360	197002360	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatgatcctgagtttgagaGgaactggaagtttcttcagg	11	12	13	5	0	2	3	1	3	1	1	3	7	3	5	1	3	1	2	1	3	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:197002360G>T	uc002utk.2	-	8	1254	c.930C>A	c.(928-930)TCC>TCA	p.S310S	STK17B_uc010fsh.2_Silent_p.S310S	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	310	Poly-Ser.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			GAGTTTGAGAGGAACTGGAAG	0.418													8	148					5.68852e-11	6.00983e-11	0.004482	1	0		T	197002360	T	T	197002360	2	4	128	1	0	0	0	0	0	0	0	1	15316	987	35	5		5	STK17B	2	197002360	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4860626	197002360	46197013	174	70462											
HECW2	57520	broad.mit.edu	37	chr2	197183855	197183855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcggcttcctcctgatgCatcggaagtccctgtgtctg	4	14	10	13	2	2	1	0	1	2	0	7	2	5	2	3	2	1	2	3	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:197183855C>T	uc002utm.1	-	9	1942	c.1759G>A	c.(1759-1761)GCA>ACA	p.A587T	HECW2_uc002utl.1_Missense_Mutation_p.A231T	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	587					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						CCTCCTGATGCATCGGAAGTC	0.587													6	36					0	0	0.010729	0	0		T	197183855	T	T	197183855	3	4	128	1	0	0	0	0	1	0	0	0	7059	710	25	2	3043	2	HECW2	2	197183855	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	181495	197183855	46015518	175	70463											
SGOL2	151246	broad.mit.edu	37	chr2	201437347	201437347	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccctggaaacctagaaGacccaagtgagtttgaaaca	15	8	8	10	0	1	4	1	2	0	2	2	5	2	5	3	1	2	1	3	1	5	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:201437347G>T	uc002uvw.2	+	7	2391	c.2278G>T	c.(2278-2280)GAC>TAC	p.D760Y	SGOL2_uc010zhd.1_Missense_Mutation_p.D760Y|SGOL2_uc010zhe.1_Missense_Mutation_p.D760Y	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	760					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						AAACCTAGAAGACCCAAGTGA	0.363													29	128					5.09552e-08	5.31985e-08	0.010818	1	0		T	201437347	T	T	201437347	3	4	128	1	0	0	0	0	1	0	0	0	14242	942	33	5	2300	5	SGOL2	2	201437347	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4253492	201437347	41762026	176	70464											
CASP8	841	broad.mit.edu	37	chr2	202149917	202149917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcaaacgagatatatccCggatgaggctgactttctgc	11	10	9	11	2	2	3	1	2	1	1	3	5	3	4	2	2	2	1	2	2	3	3	rs34208389		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:202149917C>T	uc002uxr.1	+	9	1390	c.1181C>T	c.(1180-1182)CCG>CTG	p.P394L	CASP8_uc002uxp.1_Missense_Mutation_p.P411L|CASP8_uc002uxq.1_Missense_Mutation_p.P379L|CASP8_uc002uxt.1_Missense_Mutation_p.P453L|CASP8_uc002uxu.1_RNA|CASP8_uc002uxw.1_Missense_Mutation_p.P379L|CASP8_uc002uxy.1_Intron|CASP8_uc002uxx.1_Intron|CASP8_uc010ftf.2_Missense_Mutation_p.P310L	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	394					activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						AGATATATCCCGGATGAGGCT	0.473										HNSCC(4;0.00038)			29	89					0	0	0.005443	0	0		T	202149917	T	T	202149917	3	4	128	1	0	0	0	0	1	0	0	0	2680	652	23	1	1488	1	CASP8	2	202149917	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	712570	202149917	41049456	177	70465											
SPAG16	79582	broad.mit.edu	37	chr2	214878701	214878701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgcagatgtactttgtatgGacatacagattctgtgaaca	13	13	9	6	0	1	3	0	1	1	2	1	4	1	4	0	1	4	3	0	1	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:214878701G>A	uc002veq.2	+	13	1519	c.1427G>A	c.(1426-1428)GGA>GAA	p.G476E	SPAG16_uc010fuz.1_Missense_Mutation_p.G327E|SPAG16_uc002ver.2_Missense_Mutation_p.G422E|SPAG16_uc010zjk.1_Missense_Mutation_p.G382E	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	476	WD 4.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		ACTTTGTATGGACATACAGAT	0.338													54	182					0	0	0.01441	0	0		A	214878701	A	A	214878701	3	1	128	1	0	0	0	0	1	0	0	0	15003	1174	41	4	1493	4	SPAG16	2	214878701	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	12728784	214878701	28320672	178	70466											
ABCA12	26154	broad.mit.edu	37	chr2	215839522	215839522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcactggtgttcagacaCatgttgtcaattccagggaa	12	11	10	8	0	3	2	3	0	0	2	4	3	4	3	1	2	0	2	1	2	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:215839522C>T	uc002vew.2	-	35	5668	c.5448G>A	c.(5446-5448)ATG>ATA	p.M1816I	ABCA12_uc002vev.2_Missense_Mutation_p.M1498I|ABCA12_uc010zjn.1_Missense_Mutation_p.M743I	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1816					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TGTTCAGACACATGTTGTCAA	0.333													38	114					0	0	0.006999	0	0		T	215839522	T	T	215839522	3	4	128	1	0	0	0	0	1	0	0	0	30	478	17	4	2415	4	ABCA12	2	215839522	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	960821	215839522	27359851	179	70467											
MREG	55686	broad.mit.edu	37	chr2	216809613	216809613	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggaaacggaaggtagtgCagttctttctggccatctgc	8	12	12	9	1	3	0	0	0	3	0	3	2	3	2	1	4	3	3	1	4	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:216809613C>T	uc002vfo.2	-	5	914	c.618G>A	c.(616-618)CTG>CTA	p.L206L	MREG_uc002vfq.2_RNA	NM_018000	NP_060470	Q8N565	MREG_HUMAN	whn-dependent transcript 2	206						apical plasma membrane					0		Renal(323;0.0328)		Epithelial(149;4.64e-07)|all cancers(144;5.56e-05)|LUSC - Lung squamous cell carcinoma(224;0.00832)|Lung(261;0.0111)		GAAGGTAGTGCAGTTCTTTCT	0.493													15	59					0	0	0.004007	0	0		T	216809613	T	T	216809613	2	4	128	1	0	0	0	0	0	0	0	1	9778	697	25	2		2	MREG	2	216809613	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	970091	216809613	26389760	180	70468											
IGFBP5	3488	broad.mit.edu	37	chr2	217559282	217559282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcagcccctgggcgcagcGctcggtgtagacgccgcacg	5	4	16	16	7	0	1	0	0	0	1	1	1	0	1	3	2	2	5	3	2	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:217559282G>A	uc002vgj.3	-	1	991	c.217C>T	c.(217-219)CGC>TGC	p.R73C		NM_000599	NP_000590	P24593	IBP5_HUMAN	insulin-like growth factor binding protein 5	73	IGFBP N-terminal.				negative regulation of insulin-like growth factor receptor signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of translation|signal transduction		insulin-like growth factor I binding				0		Renal(323;0.0822)		Epithelial(149;2.1e-06)|all cancers(144;0.000165)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGGGCGCAGCGCTCGGTGTAG	0.726													3	6					0	0	0.004672	0	0		A	217559282	A	A	217559282	3	1	128	1	0	0	0	0	1	0	0	0	7598	1087	38	1	617	1	IGFBP5	2	217559282	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	749669	217559282	25640091	181	70469											
RNF25	64320	broad.mit.edu	37	chr2	219532655	219532655	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaatgagttcatacagcaTggcagtgcccagcccagcct	10	8	9	14	0	2	1	2	1	0	0	2	1	2	1	3	1	5	3	3	1	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:219532655T>C	uc002vit.2	-	5	425	c.337A>G	c.(337-339)ATG>GTG	p.M113V	RNF25_uc010fvw.2_Missense_Mutation_p.M1V	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	113	RWD.				positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCATACAGCATGGCAGTGCCC	0.517													59	201					0	0	0.01441	0	0		C	219532655	C	C	219532655	3	2	128	1	0	0	0	0	1	0	0	0	13510	1464	51	3	1066	3	RNF25	2	219532655	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1973373	219532655	23666718	182	70470											
CDK5R2	8941	broad.mit.edu	37	chr2	219825311	219825311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgagctggcgtcggccgccGagctgcaggccgccttcctc	4	6	14	17	6	0	0	0	0	0	0	3	2	1	0	5	3	3	3	5	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:219825311G>A	uc002vjf.2	+	1	914	c.769G>A	c.(769-771)GAG>AAG	p.E257K		NM_003936	NP_003927	Q13319	CD5R2_HUMAN	cyclin-dependent kinase 5, regulatory subunit 2	257					regulation of cyclin-dependent protein kinase activity	cyclin-dependent protein kinase 5 holoenzyme complex	cyclin-dependent protein kinase 5 activator activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;9.77e-07)|all cancers(144;0.000167)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GTCGGCCGCCGAGCTGCAGGC	0.642													43	113					0	0	0.01441	0	0		A	219825311	A	A	219825311	3	1	128	1	0	0	0	0	1	0	0	0	3147	1059	37	1	771	1	CDK5R2	2	219825311	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	292656	219825311	23374062	183	70471											
PTPRN	5798	broad.mit.edu	37	chr2	220164503	220164503	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactcctgcagccaggctcAggggcctggagatgggagaa	9	6	15	11	0	2	2	2	0	0	2	3	4	3	2	3	5	2	2	3	5	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:220164503A>G	uc002vkz.2	-	10	1531	c.1442T>C	c.(1441-1443)CTG>CCG	p.L481P	PTPRN_uc010zlc.1_Missense_Mutation_p.L391P|PTPRN_uc002vla.2_Intron	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	481	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		AGCCAGGCTCAGGGGCCTGGA	0.577													25	81					0	0	0.009535	0	0		G	220164503	G	G	220164503	3	3	128	1	0	0	0	0	1	0	0	0	12832	188	7	3	1553	3	PTPRN	2	220164503	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	339192	220164503	23034870	184	70472											
CHPF	79586	broad.mit.edu	37	chr2	220404955	220404955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaggcaagatctccacgCggctcagcggccggagcagc	9	3	14	15	4	2	1	1	0	1	1	3	2	2	2	2	4	3	4	2	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:220404955C>T	uc002vmc.3	-	4	1705	c.1478G>A	c.(1477-1479)CGC>CAC	p.R493H	CHPF_uc010zlh.1_Missense_Mutation_p.R331H	NM_024536	NP_078812	Q8IZ52	CHSS2_HUMAN	chondroitin polymerizing factor	493	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity|protein binding				0		Renal(207;0.0183)		Epithelial(149;3.02e-08)|all cancers(144;3.41e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		GATCTCCACGCGGCTCAGCGG	0.662													7	24					0	0	0.004482	0	0		T	220404955	T	T	220404955	3	4	128	1	0	0	0	0	1	0	0	0	3371	768	27	1	853	1	CHPF	2	220404955	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	240452	220404955	22794418	185	70473											
SLC4A3	6508	broad.mit.edu	37	chr2	220494985	220494985	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgcccaggcagtgcccTgggcaacccaggtggtccag	7	6	14	14	0	0	0	0	0	0	0	1	0	1	0	4	4	3	2	4	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:220494985T>G	uc002vmp.3	+	6	991	c.722T>G	c.(721-723)CTG>CGG	p.L241R	SLC4A3_uc002vmn.2_Missense_Mutation_p.L268R|SLC4A3_uc002vmo.3_Missense_Mutation_p.L268R|SLC4A3_uc010fwm.2_5'UTR|SLC4A3_uc010fwn.1_5'Flank	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	241	Cytoplasmic.				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGCAGTGCCCTGGGCAACCCA	0.672													8	37					0	0	0.006214	0	0		G	220494985	G	G	220494985	3	3	128	1	0	0	0	0	1	0	0	0	14680	1580	55	5	821	5	SLC4A3	2	220494985	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	90030	220494985	22704388	186	70474											
SLC4A3	6508	broad.mit.edu	37	chr2	220501408	220501408	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacccccacctagttctgcCgagcccaggacctggagtac	8	7	9	17	1	1	0	0	0	1	0	1	3	1	2	6	2	4	2	6	2	3	4	rs150010736		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:220501408C>T	uc002vmp.3	+	16	2616	c.2347C>T	c.(2347-2349)CGA>TGA	p.R783*	SLC4A3_uc002vmo.3_Nonsense_Mutation_p.R810*|SLC4A3_uc010fwm.2_Nonsense_Mutation_p.R333*|SLC4A3_uc010fwn.1_Nonsense_Mutation_p.R292*	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	783	Membrane (anion exchange).				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTAGTTCTGCCGAGCCCAGGA	0.637													22	109					0	0	0.004656	0	0		T	220501408	T	T	220501408	4	4	128	1	0	0	0	0	0	1	0	0	14680	644	23	1	2486	1	SLC4A3	2	220501408	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	6423	220501408	22697965	187	70475											
EPHA4	2043	broad.mit.edu	37	chr2	222308249	222308249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaatcttaatgcaggatgCgtcaatttctttggcaaact	11	15	7	8	1	4	0	2	0	2	0	4	1	4	1	0	2	3	2	0	2	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:222308249C>T	uc002vmq.2	-	10	1894	c.1852G>A	c.(1852-1854)GCA>ACA	p.A618T	EPHA4_uc002vmr.2_Missense_Mutation_p.A618T|EPHA4_uc010zlm.1_Missense_Mutation_p.A559T|EPHA4_uc010zln.1_Missense_Mutation_p.A618T	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	618	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		ATGCAGGATGCGTCAATTTCT	0.403													8	172					0	0	0.00308	0	0		T	222308249	T	T	222308249	3	4	128	1	0	0	0	0	1	0	0	0	5177	768	27	1	1140	1	EPHA4	2	222308249	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1806841	222308249	20891124	188	70476											
KIAA1486	57624	broad.mit.edu	37	chr2	226447379	226447379	+	Frame_Shift_Del	DEL	C	-	-																															cgctctcctcgtcgcccccaCccccgtctacgctgtaccga																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:226447379delC	uc002voe.2	+	4	1421	c.1246delC	c.(1246-1248)CCCfs	p.P416fs	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Frame_Shift_Del_p.P186fs	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	416	Pro-rich.									ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		GTCGCCCCCACCCCCGTCTAC	0.677													7	9	---	---	---	---						.	-	226447379	-	-	226447379	7	5	128	1	0	1	0	1	0	0	0	0	8253	507	18	0	1256	0	KIAA1486	2	226447379	Frame_Shift_Del	DEL	C	TCGA-CG-4306-01A-01D-1158-08	4139130	226447379	16751994	189	70477											
B3GNT7	93010	broad.mit.edu	37	chr2	232262945	232262945	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggggccgaggcgccgtgcGcaccctcttcctgctgggca	3	7	16	15	4	1	0	0	0	1	0	2	1	2	0	4	4	2	3	4	4	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:232262945G>A	uc002vrs.2	+	2	695	c.515G>A	c.(514-516)CGC>CAC	p.R172H		NM_145236	NP_660279	Q8NFL0	B3GN7_HUMAN	UDP-GlcNAc:betaGal	172	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;3.22e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0139)		GGCGCCGTGCGCACCCTCTTC	0.706													14	41					0	0	0.003163	0	0		A	232262945	A	A	232262945	3	1	128	1	0	0	0	0	1	0	0	0	1263	1087	38	1	521	1	B3GNT7	2	232262945	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5815566	232262945	10936428	190	70478											
TRPM8	79054	broad.mit.edu	37	chr2	234854587	234854587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacacacatttgctgctcGtggacaatggctgtcatgga	10	10	10	11	1	1	0	1	0	0	0	2	2	1	2	1	3	2	3	1	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:234854587G>A	uc002vvh.2	+	7	827	c.787G>A	c.(787-789)GTG>ATG	p.V263M	TRPM8_uc010fyj.2_Translation_Start_Site	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	263	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	TTTGCTGCTCGTGGACAATGG	0.463													53	137					0	0	0.01441	0	0		A	234854587	A	A	234854587	3	1	128	1	0	0	0	0	1	0	0	0	16618	1145	40	1	809	1	TRPM8	2	234854587	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2591642	234854587	8344786	191	70479											
RNPEPL1	57140	broad.mit.edu	37	chr2	241517269	241517269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttggggacgaggcccccaGcagtgccatctctctcaggg	6	7	14	14	1	2	0	1	0	2	0	4	2	2	1	3	4	2	2	3	4	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:241517269G>A	uc002vzi.2	+	11	2038	c.1445G>A	c.(1444-1446)AGC>AAC	p.S482N	RNPEPL1_uc010fzf.2_Missense_Mutation_p.S388N|RNPEPL1_uc002vzj.2_Missense_Mutation_p.S130N	NM_018226	NP_060696	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like	482					leukotriene biosynthetic process|proteolysis		aminopeptidase activity|metallopeptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)		GAGGCCCCCAGCAGTGCCATC	0.642													13	16					0	0	0.016723	0	0		A	241517269	A	A	241517269	3	1	128	1	0	0	0	0	1	0	0	0	13535	971	34	2	1479	2	RNPEPL1	2	241517269	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	6662682	241517269	1682104	192	70480											
GPR35	2859	broad.mit.edu	37	chr2	241569626	241569626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgagacacctcagacaCgccgctgtgccagctctccc	7	6	9	19	3	2	2	1	0	1	2	3	3	2	2	5	0	3	2	5	0	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr2:241569626C>T	uc002vzs.1	+	1	832	c.257C>T	c.(256-258)ACG>ATG	p.T86M	GPR35_uc010fzh.1_Missense_Mutation_p.T117M|GPR35_uc010fzi.1_Missense_Mutation_p.T117M	NM_005301	NP_005292	Q9HC97	GPR35_HUMAN	G protein-coupled receptor 35	86	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(2)|pancreas(1)	3		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;5.29e-32)|all cancers(36;1.38e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.02e-06)|Lung(119;0.00163)|Colorectal(34;0.00463)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.031)		ACCTCAGACACGCCGCTGTGC	0.642													26	81					0	0	0.021523	0	0		T	241569626	T	T	241569626	3	4	128	1	0	0	0	0	1	0	0	0	6705	536	19	1	259	1	GPR35	2	241569626	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	52357	241569626	1629747	193	70481											
CNTN6	27255	broad.mit.edu	37	chr3	1424848	1424848	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactgtgaccattgtctacTctggggaagatggtaagttg	9	13	13	6	0	2	2	0	1	2	1	2	3	2	3	1	3	2	3	1	3	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:1424848T>C	uc003boz.2	+	18	2656	c.2389T>C	c.(2389-2391)TCT>CCT	p.S797P	CNTN6_uc011asj.1_Missense_Mutation_p.S725P|CNTN6_uc003bpa.2_Missense_Mutation_p.S797P	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	797					axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		CATTGTCTACTCTGGGGAAGA	0.418													36	114					0	0	0.021022	0	0		C	1424848	C	C	1424848	3	2	128	1	0	0	0	0	1	0	0	0	3648	1551	54	3	2455	3	CNTN6	3	1424848	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08		1424848	196597582	194	70482											
CNTN4	152330	broad.mit.edu	37	chr3	3081856	3081856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgttcaggaatgagagcGtgcaccccttctctcccttt	7	12	9	13	2	2	1	1	1	1	1	4	3	3	2	3	1	2	2	3	1	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:3081856G>A	uc003bpc.2	+	19	2520	c.2299G>A	c.(2299-2301)GTG>ATG	p.V767M	CNTN4_uc003bpb.1_Missense_Mutation_p.V438M|CNTN4_uc003bpe.2_Missense_Mutation_p.V439M|CNTN4_uc003bpf.2_Missense_Mutation_p.V438M|CNTN4_uc003bpg.2_Missense_Mutation_p.V23M	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	767	Fibronectin type-III 2.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		GAATGAGAGCGTGCACCCCTT	0.517													38	115					0	0	0.00623	0	0		A	3081856	A	A	3081856	3	1	128	1	0	0	0	0	1	0	0	0	3646	1145	40	1	2365	1	CNTN4	3	3081856	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1657008	3081856	194940574	195	70483											
IL5RA	3568	broad.mit.edu	37	chr3	3143376	3143376	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttggaggcctgctttacCtggtggggcatgaagttcag	6	13	14	8	0	1	1	1	1	0	0	1	2	1	2	2	5	2	3	2	5	2	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:3143376C>A	uc011ask.1	-	6	1011	c.367G>T	c.(367-369)GGG>TGG	p.G123W	IL5RA_uc010hbq.2_Missense_Mutation_p.G123W|IL5RA_uc010hbr.2_Nonsense_Mutation_p.G123*|IL5RA_uc010hbs.2_Missense_Mutation_p.G123W|IL5RA_uc011asl.1_Missense_Mutation_p.G123W|IL5RA_uc011asm.1_Missense_Mutation_p.G123W|IL5RA_uc010hbt.2_Missense_Mutation_p.G123W|IL5RA_uc011asn.1_Missense_Mutation_p.G123W|IL5RA_uc010hbu.2_Missense_Mutation_p.G123W	NM_000564	NP_000555	Q01344	IL5RA_HUMAN	interleukin 5 receptor, alpha isoform 1	123	Extracellular (Potential).				cell proliferation	extracellular space|integral to membrane|plasma membrane	interleukin-5 receptor activity			ovary(1)	1				Epithelial(13;0.00278)|all cancers(10;0.00809)|OV - Ovarian serous cystadenocarcinoma(96;0.00944)		CCTGCTTTACCTGGTGGGGCA	0.468													19	91					1.64293e-13	1.74965e-13	0.01892	1	0		A	3143376	A	A	3143376	3	1	128	1	0	0	0	0	1	0	0	0	7716	695	24	5	953	5	IL5RA	3	3143376	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	61520	3143376	194879054	196	70484											
OXTR	5021	broad.mit.edu	37	chr3	8809756	8809756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaccgccacctccacgcGcgccagggcctcgttgcgcc	5	4	11	21	6	0	0	0	0	0	0	2	0	1	0	7	1	2	2	7	1	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:8809756G>A	uc003brc.2	-	3	740	c.118C>T	c.(118-120)CGC>TGC	p.R40C		NM_000916	NP_000907	P30559	OXYR_HUMAN	oxytocin receptor	40	Helical; Name=1; (Potential).				female pregnancy|lactation|muscle contraction	integral to plasma membrane	oxytocin receptor activity|vasopressin receptor activity				0				OV - Ovarian serous cystadenocarcinoma(96;0.15)	Carbetocin(DB01282)	ACCTCCACGCGCGCCAGGGCC	0.647													6	10					0	0	0.004482	0	0		A	8809756	A	A	8809756	3	1	128	1	0	0	0	0	1	0	0	0	11357	1087	38	1	1059	1	OXTR	3	8809756	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5666380	8809756	189212674	197	70485											
IRAK2	3656	broad.mit.edu	37	chr3	10206671	10206671	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atctaccagctgccctcctgGgtgctggacgacctgtgccg	5	9	12	15	2	1	0	0	0	1	0	2	2	2	1	5	2	5	2	5	2	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:10206671G>T	uc003bve.1	+	1	109	c.33G>T	c.(31-33)TGG>TGT	p.W11C		NM_001570	NP_001561	O43187	IRAK2_HUMAN	interleukin-1 receptor-associated kinase 2	11					activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|endosome membrane|plasma membrane	ATP binding|NF-kappaB-inducing kinase activity|protein heterodimerization activity|protein homodimerization activity			lung(5)|breast(3)	8						TGCCCTCCTGGGTGCTGGACG	0.701													11	30					3.07112e-06	3.17389e-06	0.010729	1	0		T	10206671	T	T	10206671	3	4	128	1	0	0	0	0	1	0	0	0	7839	1241	43	5	35	5	IRAK2	3	10206671	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1396915	10206671	187815759	198	70486											
ATG7	10533	broad.mit.edu	37	chr3	11372885	11372885	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctttgaggaattttttggtCctagcagcccacagatggta	9	13	10	9	0	0	2	0	1	0	1	1	3	1	3	3	3	2	2	3	3	3	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:11372885C>T	uc003bwc.2	+	8	867	c.750C>T	c.(748-750)GTC>GTT	p.V250V	ATG7_uc003bwd.2_Silent_p.V250V|ATG7_uc011aum.1_Silent_p.V211V	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	250					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						ATTTTTTGGTCCTAGCAGCCC	0.398													22	287					0	0	0.01892	0	0		T	11372885	T	T	11372885	2	4	128	1	0	0	0	0	0	0	0	1	1102	842	30	4		4	ATG7	3	11372885	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1166214	11372885	186649545	199	70487											
FBLN2	2199	broad.mit.edu	37	chr3	13679178	13679178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgcctgcgcatatcttccGcattggccccgcgccagcct	4	9	11	17	4	1	0	0	0	1	0	2	0	2	0	6	2	3	2	6	2	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:13679178G>A	uc011avb.1	+	17	3439	c.3314G>A	c.(3313-3315)CGC>CAC	p.R1105H	FBLN2_uc011auz.1_Missense_Mutation_p.R1131H|FBLN2_uc011ava.1_Missense_Mutation_p.R1152H|FBLN2_uc011avc.1_Missense_Mutation_p.R1152H	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	1105	Domain III.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			CATATCTTCCGCATTGGCCCC	0.617													10	26					0	0	0.008291	0	0		A	13679178	A	A	13679178	3	1	128	1	0	0	0	0	1	0	0	0	5713	1087	38	1	2211	1	FBLN2	3	13679178	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2306293	13679178	184343252	200	70488											
RFTN1	23180	broad.mit.edu	37	chr3	16358500	16358500	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acacccaccccacacagcagGccaccaggggacagctgttc	11	3	9	18	0	0	0	0	0	0	0	1	1	0	1	5	3	2	3	5	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:16358500G>A	uc003cay.2	-	10	1854	c.1572C>T	c.(1570-1572)GGC>GGT	p.G524G	RFTN1_uc010hes.2_Silent_p.G488G|OXNAD1_uc003cax.2_Intron|OXNAD1_uc011awb.1_Intron	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	524						plasma membrane				ovary(3)|central_nervous_system(1)	4						CACACAGCAGGCCACCAGGGG	0.617													54	126					0	0	0.01441	0	0		A	16358500	A	A	16358500	2	1	128	1	0	0	0	0	0	0	0	1	13283	1190	42	2		2	RFTN1	3	16358500	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2679322	16358500	181663930	201	70489											
THRB	7068	broad.mit.edu	37	chr3	24185082	24185082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgagctcccattcctcGtctgtgggctctggcttgtg	3	15	12	11	1	2	2	0	2	2	0	5	2	4	2	2	2	1	3	2	2	0	3	rs143993214		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:24185082G>A	uc003ccx.3	-	8	997	c.648C>T	c.(646-648)GAC>GAT	p.D216D	THRB_uc010hfe.2_Silent_p.D216D|THRB_uc003ccy.3_Silent_p.D216D|THRB_uc003ccz.3_Silent_p.D211D	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	216					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)	CCCATTCCTCGTCTGTGGGCT	0.567													49	123					0	0	0.01441	0	0		A	24185082	A	A	24185082	2	1	128	1	0	0	0	0	0	0	0	1	15900	1136	40	1		1	THRB	3	24185082	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	7826582	24185082	173837348	202	70490											
NEK10	152110	broad.mit.edu	37	chr3	27326330	27326330	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttaatgaagataaaagcataCctgtataaatattttccata	18	14	4	5	0	0	2	0	1	0	1	1	2	1	2	2	0	2	2	2	0	10	9			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:27326330C>T	uc003cdt.1	-	22	2185	c.1911_splice	c.e22+1	p.Q637_splice	NEK10_uc003cds.1_Splice_Site_p.Q34_splice	NM_199347	NP_955379	Q6ZWH5	NEK10_HUMAN	NIMA-related kinase 10 isoform 3								ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						TAAAAGCATACCTGTATAAAT	0.368													28	99					0	0	0.00632	0	0		T	27326330	T	T	27326330	5	4	128	1	0	0	0	0	0	0	1	0	10341	521	18	4	242	4	NEK10	3	27326330	Splice_Site	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3141248	27326330	170696100	203	70491											
EOMES	8320	broad.mit.edu	37	chr3	27758906	27758906	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgacctccccaccctgcCattgcaggaaaggttgggtc	7	8	10	16	1	0	0	0	0	0	0	3	2	1	1	6	3	2	2	6	3	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:27758906C>A	uc003cdx.2	-	6	1716	c.1716G>T	c.(1714-1716)ATG>ATT	p.M572I	EOMES_uc003cdy.3_Missense_Mutation_p.M591I|EOMES_uc010hfn.2_3'UTR|EOMES_uc011axc.1_Missense_Mutation_p.M296I	NM_005442	NP_005433	O95936	EOMES_HUMAN	eomesodermin	572	Required for transcription activation (By similarity).				CD8-positive, alpha-beta T cell differentiation involved in immune response|cell differentiation involved in embryonic placenta development|endoderm formation|mesoderm formation|mesodermal to mesenchymal transition involved in gastrulation|positive regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|breast(1)	4						CCCACCCTGCCATTGCAGGAA	0.517													31	81					5.45727e-16	5.86347e-16	0.008361	1	0		A	27758906	A	A	27758906	3	1	128	1	0	0	0	0	1	0	0	0	5155	594	21	5	348	5	EOMES	3	27758906	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	432576	27758906	170263524	204	70492											
TRIM71	131405	broad.mit.edu	37	chr3	32859669	32859669	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaactcgtccgcgtcgTcgtcctcctcgcagacgtcc	4	9	8	20	7	0	1	0	0	0	1	9	1	5	1	6	0	1	1	6	0	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:32859669T>C	uc003cff.2	+	1	160	c.97T>C	c.(97-99)TCG>CCG	p.S33P		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	33	RING-type.|Ser-rich.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						GTCCGCGTCGTCGTCCTCCTC	0.502													14	45					0	0	0.020292	0	0		C	32859669	C	C	32859669	3	2	128	1	0	0	0	0	1	0	0	0	16570	1667	58	3	99	3	TRIM71	3	32859669	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	5100763	32859669	165162761	205	70493											
CRTAP	10491	broad.mit.edu	37	chr3	33165922	33165922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgttcatccgagcagtgcGggcatacaacggtgagaact	10	8	12	11	3	1	1	1	1	0	1	2	3	2	1	2	2	5	3	2	2	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:33165922G>A	uc003cfl.3	+	3	764	c.644G>A	c.(643-645)CGG>CAG	p.R215Q	CRTAP_uc010hfz.2_Missense_Mutation_p.R215Q|CRTAP_uc003cfm.2_Missense_Mutation_p.R36Q|CRTAP_uc003cfn.2_Missense_Mutation_p.R36Q	NM_006371	NP_006362	O75718	CRTAP_HUMAN	cartilage associated protein precursor	215						proteinaceous extracellular matrix	binding				0						CGAGCAGTGCGGGCATACAAC	0.537													30	80					0	0	0.009535	0	0		A	33165922	A	A	33165922	3	1	128	1	0	0	0	0	1	0	0	0	3901	1116	39	1	654	1	CRTAP	3	33165922	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	306253	33165922	164856508	206	70494											
ACVR2B	93	broad.mit.edu	37	chr3	38524744	38524744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gattcggaggtcggtcaacgGcactacctcggactgtctcg	7	9	13	12	5	2	0	1	0	1	0	6	3	2	2	1	5	2	1	1	5	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:38524744G>A	uc003cif.2	+	11	1484	c.1460G>A	c.(1459-1461)GGC>GAC	p.G487D	ACVR2B_uc003cig.2_Missense_Mutation_p.G278D	NM_001106	NP_001097	Q13705	AVR2B_HUMAN	activin A receptor, type IIB precursor	487	Cytoplasmic (Potential).				activin receptor signaling pathway|anterior/posterior pattern formation|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|regulation of transcription, DNA-dependent	cell surface|cytoplasm|integral to plasma membrane	activin receptor activity|ATP binding|growth factor binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)		TCGGTCAACGGCACTACCTCG	0.587													44	145					0	0	0.013114	0	0		A	38524744	A	A	38524744	3	1	128	1	0	0	0	0	1	0	0	0	224	1203	42	2	1502	2	ACVR2B	3	38524744	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5358822	38524744	159497686	207	70495											
SCN5A	6331	broad.mit.edu	37	chr3	38592438	38592438	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacaggaccgaatactcaaTaaactgagtggcctctgggt	13	8	11	9	1	2	2	1	1	1	1	2	4	2	3	2	3	2	0	2	3	5	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:38592438T>C	uc003cio.2	-	28	5619	c.5425A>G	c.(5425-5427)ATT>GTT	p.I1809V	SCN5A_uc003cin.2_Missense_Mutation_p.I1808V|SCN5A_uc003cil.3_Missense_Mutation_p.I1809V|SCN5A_uc010hhi.2_Missense_Mutation_p.I1791V|SCN5A_uc010hhk.2_Missense_Mutation_p.I1776V|SCN5A_uc011ayr.1_Missense_Mutation_p.I1755V	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1809					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	GAATACTCAATAAACTGAGTG	0.542													25	81					0	0	0.016522	0	0		C	38592438	C	C	38592438	3	2	128	1	0	0	0	0	1	0	0	0	13947	1406	49	3	629	3	SCN5A	3	38592438	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	67694	38592438	159429992	208	70496											
SCN10A	6336	broad.mit.edu	37	chr3	38739967	38739967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggatcagtctgaggatgcGgccaattcgggccaggcgga	8	7	16	10	4	2	1	1	1	1	0	4	4	2	4	2	6	1	0	2	6	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:38739967G>A	uc003ciq.2	-	27	4744	c.4744C>T	c.(4744-4746)CGC>TGC	p.R1582C		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1582	IV.|Helical; Voltage-sensor; Name=S4 of repeat IV; (Potential).				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CTGAGGATGCGGCCAATTCGG	0.517													55	154					0	0	0.01441	0	0		A	38739967	A	A	38739967	3	1	128	1	0	0	0	0	1	0	0	0	13937	1116	39	1	1130	1	SCN10A	3	38739967	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	147529	38739967	159282463	209	70497											
XIRP1	165904	broad.mit.edu	37	chr3	39228640	39228640	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagctgcagtctcctggCtctcttgcatcctgttgcct	3	14	8	16	0	3	0	1	0	2	0	6	0	4	0	4	1	4	5	4	1	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:39228640C>T	uc003cjk.1	-	2	2518	c.2297G>A	c.(2296-2298)AGC>AAC	p.S766N	XIRP1_uc003cji.2_Missense_Mutation_p.S766N|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	766							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		AGTCTCCTGGCTCTCTTGCAT	0.637													11	76					0	0	0.008291	0	0		T	39228640	T	T	39228640	3	4	128	1	0	0	0	0	1	0	0	0	17455	797	28	2	3238	2	XIRP1	3	39228640	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	488673	39228640	158793790	210	70498											
SEC22C	9117	broad.mit.edu	37	chr3	42605070	42605070	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaatgcaggtagtgtcataGgaagctgtgaattcccacca	12	9	10	10	0	1	1	1	1	0	0	2	2	2	2	3	2	2	3	3	2	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:42605070G>T	uc003clj.2	-	3	409	c.291C>A	c.(289-291)TCC>TCA	p.S97S	SEC22C_uc003clh.2_Silent_p.S97S|SEC22C_uc011azo.1_Silent_p.S27S|SEC22C_uc010hic.2_Silent_p.S97S|SEC22C_uc003cli.2_Silent_p.S97S	NM_032970	NP_116752	Q9BRL7	SC22C_HUMAN	SEC22 vesicle trafficking protein homolog C	97	Longin.|Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.222)		TAGTGTCATAGGAAGCTGTGA	0.507													26	91					2.24059e-21	2.43694e-21	0.00632	1	0		T	42605070	T	T	42605070	2	4	128	1	0	0	0	0	0	0	0	1	14015	987	35	5		5	SEC22C	3	42605070	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3376430	42605070	155417360	211	70499											
ZNF445	353274	broad.mit.edu	37	chr3	44488178	44488178	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgagtatgaaatctcttgtgGctaatgagttgtgaactctt	10	15	10	6	1	2	3	0	3	2	0	3	4	2	3	0	1	1	3	0	1	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:44488178G>T	uc003cnf.2	-	8	3333	c.2985C>A	c.(2983-2985)AGC>AGA	p.S995R	ZNF445_uc011azv.1_Missense_Mutation_p.S983R|ZNF445_uc011azw.1_Missense_Mutation_p.S995R	NM_181489	NP_852466	P59923	ZN445_HUMAN	zinc finger protein 445	995	C2H2-type 13.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		ATCTCTTGTGGCTAATGAGTT	0.458													39	139					2.00842e-17	2.17374e-17	0.010771	1	0		T	44488178	T	T	44488178	3	4	128	1	0	0	0	0	1	0	0	0	17943	1194	42	5	114	5	ZNF445	3	44488178	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1883108	44488178	153534252	212	70500											
ZNF35	7584	broad.mit.edu	37	chr3	44700211	44700211	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgctgaaaccaagaaccTacagttactggttccaaaaa	16	8	8	9	0	0	2	0	1	0	1	1	2	1	2	3	2	5	3	3	2	7	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:44700211T>C	uc003cnq.2	+	4	577	c.356T>C	c.(355-357)CTA>CCA	p.L119P	ZNF35_uc003cnr.2_5'UTR	NM_003420	NP_003411	P13682	ZNF35_HUMAN	zinc finger protein 35	119	Globular domain.				cellular response to retinoic acid|spermatogenesis	nucleus|perinuclear region of cytoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(412;0.0228)		OV - Ovarian serous cystadenocarcinoma(275;2.49e-27)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)		ACCAAGAACCTACAGTTACTG	0.388													27	94					0	0	0.009535	0	0		C	44700211	C	C	44700211	3	2	128	1	0	0	0	0	1	0	0	0	17887	1522	53	3	366	3	ZNF35	3	44700211	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	212033	44700211	153322219	213	70501											
CLEC3B	7123	broad.mit.edu	37	chr3	45077254	45077254	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgggtggacatgaccggCgcccgcatcgcctacaagaa	10	5	12	14	4	0	2	0	1	0	1	1	3	0	3	4	3	1	1	4	3	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:45077254C>T	uc003cok.3	+	3	543	c.447C>T	c.(445-447)GGC>GGT	p.G149G	CLEC3B_uc003col.2_Silent_p.G107G	NM_003278	NP_003269	P05452	TETN_HUMAN	C-type lectin domain family 3, member B	149	C-type lectin.				skeletal system development	extracellular space	protein binding|sugar binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00863)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACATGACCGGCGCCCGCATCG	0.667													11	54					0	0	0.013537	0	0		T	45077254	T	T	45077254	2	4	128	1	0	0	0	0	0	0	0	1	3514	755	27	1		1	CLEC3B	3	45077254	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	377043	45077254	152945176	214	70502											
LTF	4057	broad.mit.edu	37	chr3	46487972	46487972	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttaggatcagggtcactgCtttgttgggattctgaaaga	10	13	13	5	0	3	2	2	1	1	1	3	4	3	4	0	3	1	3	0	3	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:46487972C>A	uc003cpq.2	-	11	1354	c.1316G>T	c.(1315-1317)AGC>ATC	p.S439I	LTF_uc003fzr.2_Missense_Mutation_p.S395I|LTF_uc010hjh.2_Missense_Mutation_p.S437I|LTF_uc003cpr.2_Missense_Mutation_p.S426I	NM_002343	NP_002334	P02788	TRFL_HUMAN	lactotransferrin precursor	439	Transferrin-like 2.				cellular iron ion homeostasis|defense response to bacterium|humoral immune response|iron ion transport	extracellular region|stored secretory granule	ferric iron binding|heparin binding|protein binding|serine-type endopeptidase activity			central_nervous_system(2)|ovary(1)|lung(1)	4				all cancers(1;7.55e-14)|GBM - Glioblastoma multiforme(1;2.1e-09)|Epithelial(1;9.25e-07)|Colorectal(1;3.81e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00129)|COAD - Colon adenocarcinoma(1;0.00308)|KIRC - Kidney renal clear cell carcinoma(197;0.0205)|Kidney(197;0.0242)|OV - Ovarian serous cystadenocarcinoma(275;0.089)	Pefloxacin(DB00487)	AGGGTCACTGCTTTGTTGGGA	0.423													16	59					1.99824e-07	2.07804e-07	0.00499	1	0		A	46487972	A	A	46487972	3	1	128	1	0	0	0	0	1	0	0	0	9097	797	28	5	844	5	LTF	3	46487972	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1410718	46487972	151534458	215	70503											
COL7A1	1294	broad.mit.edu	37	chr3	48611124	48611124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgttccctggtcactcaccGgggcaccaggtggtccaggg	5	8	15	13	1	2	0	2	0	0	0	4	0	4	0	4	6	0	2	4	6	0	1	rs140543032		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:48611124G>A	uc003ctz.2	-	81	6573	c.6572C>T	c.(6571-6573)CCG>CTG	p.P2191L		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2191	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GTCACTCACCGGGGCACCAGG	0.592													16	15					0	0	0.00499	0	0		A	48611124	A	A	48611124	3	1	128	1	0	0	0	0	1	0	0	0	3707	1130	39	1	2414	1	COL7A1	3	48611124	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2123152	48611124	149411306	216	70504											
CELSR3	1951	broad.mit.edu	37	chr3	48692475	48692475	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactagggggcaggggcctcActtcttggagcttgtttgca	6	11	15	9	0	2	0	1	0	1	0	2	2	2	1	1	5	2	4	1	5	1	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:48692475A>G	uc003cul.2	-	6	5269	c.4988_splice	c.e6+1	p.K1663_splice	CELSR3_uc003cuf.1_Splice_Site_p.K1733_splice|CELSR3_uc010hkg.2_5'Flank	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3						homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CAGGGGCCTCACTTCTTGGAG	0.567													19	49					0	0	0.016522	0	0		G	48692475	G	G	48692475	5	3	128	1	0	0	0	0	0	0	1	0	3226	173	6	3	5068	3	CELSR3	3	48692475	Splice_Site	SNP	A	TCGA-CG-4306-01A-01D-1158-08	81351	48692475	149329955	217	70505											
CELSR3	1951	broad.mit.edu	37	chr3	48699498	48699498	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcgggagcctgtcccagcGttccgctgggaggacaccgg	5	7	16	13	4	0	0	0	0	0	0	2	3	2	3	4	4	3	2	4	4	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:48699498G>A	uc003cul.2	-	1	851	c.570C>T	c.(568-570)AAC>AAT	p.N190N	CELSR3_uc003cuf.1_Silent_p.N260N	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	190	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CTGTCCCAGCGTTCCGCTGGG	0.652													41	144					0	0	0.01441	0	0		A	48699498	A	A	48699498	2	1	128	1	0	0	0	0	0	0	0	1	3226	1136	40	1		1	CELSR3	3	48699498	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	7023	48699498	149322932	218	70506											
LAMB2	3913	broad.mit.edu	37	chr3	49161199	49161199	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccacaagctgtgcagtggaGgcggctgaggtgttgcgggc	6	8	18	9	2	0	1	0	1	0	0	1	2	1	2	1	5	3	4	1	5	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:49161199G>T	uc003cwe.2	-	24	4058	c.3759C>A	c.(3757-3759)GCC>GCA	p.A1253A	USP19_uc003cvz.3_5'Flank|USP19_uc011bcg.1_5'Flank|USP19_uc003cwb.2_5'Flank|USP19_uc003cwd.1_5'Flank|USP19_uc011bch.1_5'Flank|USP19_uc011bci.1_5'Flank	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1253	Domain II.|Potential.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GTGCAGTGGAGGCGGCTGAGG	0.622													15	80					1.2644e-06	1.30977e-06	0.010504	1	0		T	49161199	T	T	49161199	2	4	128	1	0	0	0	0	0	0	0	1	8627	987	35	5		5	LAMB2	3	49161199	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	461701	49161199	148861231	219	70507											
RNF123	63891	broad.mit.edu	37	chr3	49742418	49742418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctttcttcactgcagcGccccatgcaggccctggctg	4	9	10	18	2	2	0	1	0	1	0	2	0	2	0	5	2	3	3	5	2	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:49742418G>A	uc003cxh.2	+	23	2047	c.1961G>A	c.(1960-1962)CGC>CAC	p.R654H	RNF123_uc010hky.1_Missense_Mutation_p.R316H|RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	654						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		TCACTGCAGCGCCCCATGCAG	0.677													3	17					0	0	0.009096	0	0		A	49742418	A	A	49742418	3	1	128	1	0	0	0	0	1	0	0	0	13458	1101	38	1	2047	1	RNF123	3	49742418	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	581219	49742418	148280012	220	70508											
MST1R	4486	broad.mit.edu	37	chr3	49940481	49940481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctggccttgctcaaccaCagttacacgggtgcccaatg	8	8	11	14	1	1	0	1	0	0	0	1	0	1	0	4	3	4	2	4	3	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:49940481C>T	uc003cxy.3	-	1	826	c.562G>A	c.(562-564)GTG>ATG	p.V188M	MST1R_uc011bdd.1_Missense_Mutation_p.V188M|MST1R_uc011bde.1_Missense_Mutation_p.V188M|MST1R_uc011bdf.1_Missense_Mutation_p.V188M|MST1R_uc011bdg.1_Missense_Mutation_p.V188M	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	188	Extracellular (Potential).|Sema.				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		TGCTCAACCACAGTTACACGG	0.627													20	56					0	0	0.01892	0	0		T	49940481	T	T	49940481	3	4	128	1	0	0	0	0	1	0	0	0	9909	478	17	4	3720	4	MST1R	3	49940481	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	198063	49940481	148081949	221	70509											
VPRBP	9730	broad.mit.edu	37	chr3	51455629	51455629	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggctggctccaagtagcAgatgtcagcagcaaggaccc	13	5	12	11	0	1	1	1	0	0	1	2	2	2	2	2	3	3	6	2	3	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:51455629A>G	uc003dbe.1	-	16	3627	c.3459T>C	c.(3457-3459)TCT>TCC	p.S1153S	VPRBP_uc003dbf.1_Silent_p.S429S	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	1153	WD 2.|WD repeat-like region.				interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		TCCAAGTAGCAGATGTCAGCA	0.423													4	25					0	0	0.009096	0	0		G	51455629	G	G	51455629	2	3	128	1	0	0	0	0	0	0	0	1	17211	175	7	3		3	VPRBP	3	51455629	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	1515148	51455629	146566801	222	70510											
VPRBP	9730	broad.mit.edu	37	chr3	51464938	51464938	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatagctgcgctgggccatAttctatcaaaaattccatca	13	12	6	10	1	3	0	2	0	1	0	4	0	4	0	2	1	2	2	2	1	6	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:51464938A>G	uc003dbe.1	-	12	1900	c.1732T>C	c.(1732-1734)TAT>CAT	p.Y578H		NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	578					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		GCTGGGCCATATTCTATCAAA	0.353													8	28					0	0	0.00308	0	0		G	51464938	G	G	51464938	3	3	128	1	0	0	0	0	1	0	0	0	17211	449	16	3	2843	3	VPRBP	3	51464938	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	9309	51464938	146557492	223	70511											
DNAH1	25981	broad.mit.edu	37	chr3	52423487	52423487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctccccagggccagtaccGcacggtgctctacgacagct	8	7	10	16	3	2	0	0	0	2	0	3	1	2	0	4	2	4	4	4	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:52423487G>A	uc011bef.1	+	60	9767	c.9506G>A	c.(9505-9507)CGC>CAC	p.R3169H	DNAH1_uc003ddv.2_Missense_Mutation_p.R27H	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3234					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GGCCAGTACCGCACGGTGCTC	0.552													3	23					0	0	0.004672	0	0		A	52423487	A	A	52423487	3	1	128	1	0	0	0	0	1	0	0	0	4603	1087	38	1	9740	1	DNAH1	3	52423487	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	958549	52423487	145598943	224	70512											
APPL1	26060	broad.mit.edu	37	chr3	57283464	57283464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatttaatgagtcaggccCgtggggatgtagcaggaggc	11	8	16	6	1	1	1	1	1	0	0	1	4	1	3	1	5	1	2	1	5	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:57283464C>T	uc003dio.2	+	11	1087	c.940C>T	c.(940-942)CGT>TGT	p.R314C	APPL1_uc010hnb.2_Missense_Mutation_p.R314C|APPL1_uc011bey.1_Missense_Mutation_p.R297C	NM_012096	NP_036228	Q9UKG1	DP13A_HUMAN	adaptor protein, phosphotyrosine interaction, PH	314	Required for RAB5A binding.|PH.				apoptosis|cell cycle|cell proliferation|insulin receptor signaling pathway|regulation of apoptosis|regulation of establishment of protein localization in plasma membrane|regulation of glucose import	cytosol|early endosome membrane|microsome|nucleus|vesicle membrane	protein kinase B binding			breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0124)|Kidney(284;0.0144)		GAGTCAGGCCCGTGGGGATGT	0.468													41	138					0	0	0.007835	0	0		T	57283464	T	T	57283464	3	4	128	1	0	0	0	0	1	0	0	0	817	652	23	1	982	1	APPL1	3	57283464	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4859977	57283464	140738966	225	70513											
PTPRG	5793	broad.mit.edu	37	chr3	62153736	62153736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactttcgaccacagcagcGtctgcatgacagggtggtgt	9	10	12	10	2	1	1	0	1	1	0	2	2	1	1	1	2	4	2	1	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:62153736G>A	uc003dlb.2	+	8	1651	c.932G>A	c.(931-933)CGT>CAT	p.R311H	PTPRG_uc003dlc.2_Missense_Mutation_p.R311H	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	311	Extracellular (Potential).|Alpha-carbonic anhydrase.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		CCACAGCAGCGTCTGCATGAC	0.507													23	68					0	0	0.012319	0	0		A	62153736	A	A	62153736	3	1	128	1	0	0	0	0	1	0	0	0	12827	1145	40	1	962	1	PTPRG	3	62153736	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4870272	62153736	135868694	226	70514											
PRICKLE2	166336	broad.mit.edu	37	chr3	64133071	64133071	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggggtctacgtcggctgaCagccggttagaactcacttg	8	9	14	10	3	2	2	1	1	1	1	3	2	2	2	1	4	3	2	1	4	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:64133071C>T	uc003dmf.2	-	7	1681	c.1095G>A	c.(1093-1095)CTG>CTA	p.L365L		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	365						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		CGTCGGCTGACAGCCGGTTAG	0.612													45	123					0	0	0.01441	0	0		T	64133071	T	T	64133071	2	4	128	1	0	0	0	0	0	0	0	1	12509	465	17	4		4	PRICKLE2	3	64133071	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1979335	64133071	133889359	227	70515											
MAGI1	9223	broad.mit.edu	37	chr3	65416494	65416494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagccacgactgcttttccGcagctttgtgtgaatgaact	10	12	9	10	2	0	2	0	2	0	0	1	3	1	2	2	0	4	3	2	0	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:65416494G>A	uc003dmn.2	-	11	1952	c.1426C>T	c.(1426-1428)CGG>TGG	p.R476W	MAGI1_uc003dmm.2_Missense_Mutation_p.R476W|MAGI1_uc003dmo.2_Missense_Mutation_p.R476W|MAGI1_uc003dmp.2_Missense_Mutation_p.R476W|MAGI1_uc010hny.2_Missense_Mutation_p.R361W	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	476	PDZ 2.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		CTGCTTTTCCGCAGCTTTGTG	0.463													32	89					0	0	0.015359	0	0		A	65416494	A	A	65416494	3	1	128	1	0	0	0	0	1	0	0	0	9208	1086	38	1	3248	1	MAGI1	3	65416494	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1283423	65416494	132605936	228	70516											
KBTBD8	84541	broad.mit.edu	37	chr3	67058751	67058751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggctctgggaccttggccGgcattttgaatgtgctgttg	4	14	14	9	2	1	1	0	1	1	0	2	2	1	2	2	4	1	4	2	4	1	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:67058751G>A	uc003dmy.2	+	4	1801	c.1748G>A	c.(1747-1749)CGG>CAG	p.R583Q	KBTBD8_uc011bfv.1_Missense_Mutation_p.R141Q	NM_032505	NP_115894	Q8NFY9	KBTB8_HUMAN	T-cell activation kelch repeat protein	583	Kelch 5.									ovary(2)|large_intestine(1)|breast(1)	4		Lung NSC(201;0.0765)		BRCA - Breast invasive adenocarcinoma(55;6.02e-06)|KIRC - Kidney renal clear cell carcinoma(39;0.105)|Kidney(39;0.125)		GACCTTGGCCGGCATTTTGAA	0.443													30	86					0	0	0.007291	0	0		A	67058751	A	A	67058751	3	1	128	1	0	0	0	0	1	0	0	0	8015	1116	39	1	1762	1	KBTBD8	3	67058751	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1642257	67058751	130963679	229	70517											
ROBO2	6092	broad.mit.edu	37	chr3	77607139	77607139	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattctacaaggcccagccAaccaaacgctggcagtggat	13	7	9	12	1	1	0	0	0	1	0	1	1	1	1	3	3	4	2	3	3	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:77607139A>G	uc003dpy.3	+	9	1919	c.1276A>G	c.(1276-1278)AAC>GAC	p.N426D	ROBO2_uc003dpz.2_Missense_Mutation_p.N430D|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.N430D	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	426	Ig-like C2-type 5.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		AGGCCCAGCCAACCAAACGCT	0.418													24	68					0	0	0.010818	0	0		G	77607139	G	G	77607139	3	3	128	1	0	0	0	0	1	0	0	0	13539	130	5	3	1312	3	ROBO2	3	77607139	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	10548388	77607139	120415291	230	70518											
ARL13B	200894	broad.mit.edu	37	chr3	93755588	93755588	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaacgagtgcgaaaattaCgagaagaaaggtaagtagat	18	7	12	4	3	0	4	0	1	0	3	0	7	0	4	0	1	3	2	0	1	8	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:93755588C>T	uc003drc.2	+	5	965	c.679C>T	c.(679-681)CGA>TGA	p.R227*	ARL13B_uc010hop.2_Nonsense_Mutation_p.R78*|ARL13B_uc003drd.2_Nonsense_Mutation_p.R120*|ARL13B_uc003dre.2_Nonsense_Mutation_p.R212*|ARL13B_uc003drf.2_Nonsense_Mutation_p.R227*|ARL13B_uc003drg.2_Nonsense_Mutation_p.R124*	NM_182896	NP_878899	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 2-like 1 isoform 1	227	Potential.						GTP binding				0						GCGAAAATTACGAGAAGAAAG	0.358													16	32					0	0	0.00499	0	0		T	93755588	T	T	93755588	4	4	128	1	0	0	0	0	0	1	0	0	929	528	19	1	697	1	ARL13B	3	93755588	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	16148449	93755588	104266842	231	70519											
ARHGAP31	57514	broad.mit.edu	37	chr3	119134094	119134094	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggaaaaacaggccttcttcCctcaacttggaccctgccat	10	9	8	14	0	2	0	1	0	1	0	3	2	3	2	4	3	3	0	4	3	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:119134094C>A	uc003ecj.3	+	12	3850	c.3318C>A	c.(3316-3318)TCC>TCA	p.S1106S		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	1106					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						GGCCTTCTTCCCTCAACTTGG	0.547													62	194					5.0973e-17	5.49896e-17	0.01441	1	0		A	119134094	A	A	119134094	2	1	128	1	0	0	0	0	0	0	0	1	880	610	22	5		5	ARHGAP31	3	119134094	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	25378506	119134094	78888336	232	70520											
GTF2E1	2960	broad.mit.edu	37	chr3	120500198	120500198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattgtcatggtggctggcCgtccgttctcctacagtgaa	6	12	11	12	2	2	1	1	1	1	0	4	1	3	1	4	3	1	2	4	3	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:120500198C>T	uc003edz.3	+	5	1315	c.1201C>T	c.(1201-1203)CGT>TGT	p.R401C		NM_005513	NP_005504	P29083	T2EA_HUMAN	general transcription factor IIE, polypeptide 1,	401					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.159)		GGTGGCTGGCCGTCCGTTCTC	0.517													20	97					0	0	0.016522	0	0		T	120500198	T	T	120500198	3	4	128	1	0	0	0	0	1	0	0	0	6872	652	23	1	1215	1	GTF2E1	3	120500198	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1366104	120500198	77522232	233	70521											
GOLGB1	2804	broad.mit.edu	37	chr3	121415620	121415620	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgcttgggagttttccGtctatggattcccttacttg	4	18	10	9	1	2	0	0	0	2	0	4	2	4	2	2	2	2	2	2	2	2	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:121415620G>A	uc003eei.3	-	13	3861	c.3735C>T	c.(3733-3735)GAC>GAT	p.D1245D	GOLGB1_uc010hrc.2_Silent_p.D1250D|GOLGB1_uc003eej.3_Silent_p.D1211D|GOLGB1_uc011bjm.1_Silent_p.D1131D|GOLGB1_uc010hrd.1_Silent_p.D1209D	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1245	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		GGAGTTTTCCGTCTATGGATT	0.438													73	178					0	0	0.01441	0	0		A	121415620	A	A	121415620	2	1	128	1	0	0	0	0	0	0	0	1	6580	1136	40	1		1	GOLGB1	3	121415620	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	915422	121415620	76606810	234	70522											
GOLGB1	2804	broad.mit.edu	37	chr3	121416977	121416977	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggatctgttcagtgagcAggttgtcatgggcagtttgg	7	14	15	5	0	3	1	2	1	1	0	3	2	3	2	0	4	1	5	0	4	1	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:121416977A>G	uc003eei.3	-	13	2504	c.2378T>C	c.(2377-2379)CTG>CCG	p.L793P	GOLGB1_uc010hrc.2_Missense_Mutation_p.L798P|GOLGB1_uc003eej.3_Missense_Mutation_p.L759P|GOLGB1_uc011bjm.1_Missense_Mutation_p.L679P|GOLGB1_uc010hrd.1_Missense_Mutation_p.L757P	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	793	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TTCAGTGAGCAGGTTGTCATG	0.408													62	190					0	0	0.01441	0	0		G	121416977	G	G	121416977	3	3	128	1	0	0	0	0	1	0	0	0	6580	188	7	3	7441	3	GOLGB1	3	121416977	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	1357	121416977	76605453	235	70523											
SEMA5B	54437	broad.mit.edu	37	chr3	122632777	122632777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgctgcaacttcgctggCggacctggaagccgatgcca	7	8	14	12	3	0	0	0	0	0	0	1	3	0	2	3	4	5	4	3	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:122632777C>T	uc003efz.1	-	15	2364	c.2060G>A	c.(2059-2061)CGC>CAC	p.R687H	SEMA5B_uc011bju.1_Missense_Mutation_p.R629H|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.R687H|SEMA5B_uc010hro.1_Missense_Mutation_p.R629H|SEMA5B_uc003efy.1_5'Flank	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	687	Extracellular (Potential).|TSP type-1 1.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		ACTTCGCTGGCGGACCTGGAA	0.677													11	36					0	0	0.006122	0	0		T	122632777	T	T	122632777	3	4	128	1	0	0	0	0	1	0	0	0	14063	768	27	1	1431	1	SEMA5B	3	122632777	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1215800	122632777	75389653	236	70524											
KALRN	8997	broad.mit.edu	37	chr3	123987730	123987730	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagttcttcaacagcgcCgtgcacctgctctcgcgcct	6	9	11	15	4	3	0	1	0	2	0	4	2	3	1	3	1	4	3	3	1	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:123987730C>T	uc003ehg.2	+	5	718	c.591C>T	c.(589-591)GCC>GCT	p.A197A	KALRN_uc010hrv.1_Silent_p.A197A|KALRN_uc003ehf.1_Silent_p.A197A|KALRN_uc011bjy.1_Silent_p.A197A	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	197	Spectrin 1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						TCAACAGCGCCGTGCACCTGC	0.607													15	52					0	0	0.00499	0	0		T	123987730	T	T	123987730	2	4	128	1	0	0	0	0	0	0	0	1	7991	639	23	1		1	KALRN	3	123987730	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1354953	123987730	74034700	237	70525											
SLC12A8	84561	broad.mit.edu	37	chr3	124810944	124810944	+	Splice_Site	DEL	C	-	-																															gatcaagatgaagttactcaCccccaacagggagacccagg																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:124810944delC	uc003ehv.3	-	11	1914	c.1803_splice	c.e11+1	p.G601_splice	SLC12A8_uc003ehw.3_Splice_Site_p.G630_splice|SLC12A8_uc003eht.3_Splice_Site_p.G402_splice|SLC12A8_uc003ehu.3_Splice_Site_p.G354_splice|SLC12A8_uc010hry.2_Intron	NM_024628	NP_078904	A0AV02	S12A8_HUMAN	solute carrier family 12, member 8						potassium ion transport	integral to membrane	symporter activity				0						AAGTTACTCACCCCCAACAGG	0.493													23	50	---	---	---	---						.	-	124810944	-	-	124810944	8	5	128	1	0	1	0	1	0	0	1	0	14414	521	18	0	356	0	SLC12A8	3	124810944	Splice_Site	DEL	C	TCGA-CG-4306-01A-01D-1158-08	823214	124810944	73211486	238	70526											
ATP2C1	27032	broad.mit.edu	37	chr3	130682921	130682921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggccattgtgaaaaagctgCctattgttgaaactctgggt	10	12	12	7	0	1	2	0	2	1	0	1	2	1	2	2	2	3	2	2	2	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:130682921C>T	uc003enl.2	+	13	1228	c.1006C>T	c.(1006-1008)CCT>TCT	p.P336S	ATP2C1_uc011blg.1_Missense_Mutation_p.P370S|ATP2C1_uc011blh.1_Missense_Mutation_p.P331S|ATP2C1_uc011bli.1_Missense_Mutation_p.P370S|ATP2C1_uc003enk.2_Missense_Mutation_p.P320S|ATP2C1_uc003enm.2_Missense_Mutation_p.P336S|ATP2C1_uc003enn.2_Missense_Mutation_p.P320S|ATP2C1_uc003eno.2_Missense_Mutation_p.P336S|ATP2C1_uc003enp.2_Missense_Mutation_p.P336S|ATP2C1_uc003enq.2_Missense_Mutation_p.P336S|ATP2C1_uc003enr.2_Missense_Mutation_p.P336S|ATP2C1_uc003ens.2_Missense_Mutation_p.P336S|ATP2C1_uc003ent.2_Missense_Mutation_p.P336S|ATP2C1_uc003enu.2_Missense_Mutation_p.P14S	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	336	Cytoplasmic (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	GAAAAAGCTGCCTATTGTTGA	0.408									Hailey-Hailey_disease				52	217					0	0	0.01441	0	0		T	130682921	T	T	130682921	3	4	128	1	0	0	0	0	1	0	0	0	1144	739	26	2	1052	2	ATP2C1	3	130682921	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5871977	130682921	67339509	239	70527											
NPHP3	27031	broad.mit.edu	37	chr3	132403629	132403629	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggaacgcttcagaaactgGtcagctgttctgtgaacaca	13	9	10	9	1	3	2	2	1	1	1	3	3	3	3	0	2	4	3	0	2	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:132403629G>A	uc003epe.1	-	24	3416	c.3339C>T	c.(3337-3339)GAC>GAT	p.D1113D	NPHP3_uc003eoz.1_5'UTR|NPHP3_uc003epd.1_Silent_p.D355D	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	1113	TPR 7.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						TCAGAAACTGGTCAGCTGTTC	0.428													24	88					0	0	0.004656	0	0		A	132403629	A	A	132403629	2	1	128	1	0	0	0	0	0	0	0	1	10599	1252	44	4		4	NPHP3	3	132403629	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1720708	132403629	65618801	240	70528											
TF	7018	broad.mit.edu	37	chr3	133476768	133476768	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tatgagtatgtcactgccatCcggaatctacgggaaggcac	11	9	11	10	2	2	1	1	1	1	0	3	3	3	3	2	3	2	2	2	3	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:133476768C>T	uc003epu.1	+	13	2754	c.1026C>T	c.(1024-1026)ATC>ATT	p.I342I	TF_uc011blt.1_Silent_p.I215I|TF_uc003epw.1_Intron|TF_uc003epv.1_Silent_p.I342I	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	342	Transferrin-like 1.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	TCACTGCCATCCGGAATCTAC	0.532													31	88					0	0	0.015359	0	0		T	133476768	T	T	133476768	2	4	128	1	0	0	0	0	0	0	0	1	15810	845	30	4		4	TF	3	133476768	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1073139	133476768	64545662	241	70529											
PPP2R3A	5523	broad.mit.edu	37	chr3	135721723	135721723	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctactcatcttaaaaaatgCcccaccccaatgcaaaatga	16	8	4	13	0	2	1	1	1	1	0	2	1	2	1	4	0	3	2	4	0	7	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:135721723C>T	uc003eqv.1	+	2	1948	c.1383C>T	c.(1381-1383)TGC>TGT	p.C461C	PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	461					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						TTAAAAAATGCCCCACCCCAA	0.328													4	201					0	0	0.009096	0	0		T	135721723	T	T	135721723	2	4	128	1	0	0	0	0	0	0	0	1	12410	747	26	2		2	PPP2R3A	3	135721723	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2244955	135721723	62300707	242	70530											
PCCB	5096	broad.mit.edu	37	chr3	136048788	136048788	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccttcttccacacgtgccCgaatctgctgtgacctggat	8	11	8	14	2	2	1	0	1	2	0	3	3	3	2	4	1	3	1	4	1	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:136048788C>T	uc003eqy.1	+	15	1591	c.1540C>T	c.(1540-1542)CGA>TGA	p.R514*	PCCB_uc003eqz.1_Nonsense_Mutation_p.R514*|PCCB_uc011bmc.1_Nonsense_Mutation_p.R534*	NM_000532	NP_000523	P05166	PCCB_HUMAN	propionyl Coenzyme A carboxylase, beta	514	Carboxyltransferase.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|propionyl-CoA carboxylase activity				0					Biotin(DB00121)|L-Valine(DB00161)	CACACGTGCCCGAATCTGCTG	0.468													44	156					0	0	0.011902	0	0		T	136048788	T	T	136048788	4	4	128	1	0	0	0	0	0	1	0	0	11524	644	23	1	1662	1	PCCB	3	136048788	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	327065	136048788	61973642	243	70531											
FOXL2	668	broad.mit.edu	37	chr3	138665438	138665438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcttctccggggctgtccCgccgccacccccaccgccct	2	6	10	23	5	1	0	0	0	1	0	3	0	2	0	8	3	0	2	8	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:138665438C>T	uc003esw.2	-	1	545	c.127G>A	c.(127-129)GGG>AGG	p.G43R	uc003esv.1_5'Flank|C3orf72_uc003esx.1_5'Flank|C3orf72_uc011bmr.1_5'Flank	NM_023067	NP_075555	P58012	FOXL2_HUMAN	forkhead box L2	43	Poly-Gly.				convergent extension|DNA fragmentation involved in apoptotic nuclear change|embryonic eye morphogenesis|extraocular skeletal muscle development|female somatic sex determination|induction of apoptosis|menstruation|negative regulation of transcription, DNA-dependent|ovarian follicle development|pattern specification process|positive regulation of caspase activity|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	caspase regulator activity|DNA bending activity|double-stranded DNA binding|estrogen receptor binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|ubiquitin conjugating enzyme binding			ovary(266)|large_intestine(1)|skin(1)	268						GGGGCTGTCCCGCCGCCACCC	0.741			Mis		granulosa-cell tumour of the ovary		Blepharophimosis|ptosis and epicanthus inversus Types I|II; Premature ovarian failure type III						10	15					0	0	0.020292	0	0		T	138665438	T	T	138665438	3	4	128	1	0	0	0	0	1	0	0	0	6031	652	23	1	1007	1	FOXL2	3	138665438	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2616650	138665438	59356992	244	70532											
COPB2	9276	broad.mit.edu	37	chr3	139077618	139077618	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcttgagggctgaaagtCttttccctcttccatgacat	9	14	8	10	0	3	4	0	3	3	1	5	4	5	4	2	1	0	1	2	1	1	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:139077618C>A	uc003etf.3	-	20	2651	c.2521G>T	c.(2521-2523)GAC>TAC	p.D841Y	COPB2_uc011bmv.1_Missense_Mutation_p.D812Y|COPB2_uc010hui.2_Missense_Mutation_p.D812Y	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	841					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						GGCTGAAAGTCTTTTCCCTCT	0.333													26	120					4.87955e-14	5.22163e-14	0.005443	1	0		A	139077618	A	A	139077618	3	1	128	1	0	0	0	0	1	0	0	0	3732	913	32	5	211	5	COPB2	3	139077618	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	412180	139077618	58944812	245	70533											
COPB2	9276	broad.mit.edu	37	chr3	139093415	139093415	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcatgtccttccagtgtctGcacacatgttttattctgta	7	16	8	10	0	2	0	0	0	2	0	4	0	4	0	2	1	1	4	2	1	2	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:139093415G>A	uc003etf.3	-	7	797	c.667C>T	c.(667-669)CAG>TAG	p.Q223*	COPB2_uc011bmv.1_Nonsense_Mutation_p.Q194*|COPB2_uc010hui.2_Nonsense_Mutation_p.Q194*|COPB2_uc011bmw.1_Nonsense_Mutation_p.Q223*	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	223	WD 5.				COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						TCCAGTGTCTGCACACATGTT	0.378													9	214					0	0	0.004482	0	0		A	139093415	A	A	139093415	4	1	128	1	0	0	0	0	0	1	0	0	3732	1328	46	2	2117	2	COPB2	3	139093415	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	15797	139093415	58929015	246	70534											
XRN1	54464	broad.mit.edu	37	chr3	142051258	142051258	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagagggtaatccatatTcatctcttctgttagaggaa	11	13	10	7	0	3	2	1	1	2	2	5	4	4	3	1	2	0	3	1	2	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:142051258T>C	uc003eus.2	-	36	4245	c.4178A>G	c.(4177-4179)GAA>GGA	p.E1393G	XRN1_uc010huu.2_Missense_Mutation_p.E860G|XRN1_uc003eut.2_Missense_Mutation_p.E1393G|XRN1_uc003euu.2_Missense_Mutation_p.E1394G	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	1393					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						TAATCCATATTCATCTCTTCT	0.289													23	69					0	0	0.004656	0	0		C	142051258	C	C	142051258	3	2	128	1	0	0	0	0	1	0	0	0	17485	1783	62	3	970	3	XRN1	3	142051258	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	2957843	142051258	55971172	247	70535											
XRN1	54464	broad.mit.edu	37	chr3	142137373	142137373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacgtcaacccccatcttcGtcatgtaatatgttctttta	9	16	4	12	2	4	0	2	0	2	0	5	0	4	0	2	0	2	2	2	0	5	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:142137373G>A	uc003eus.2	-	12	1386	c.1319C>T	c.(1318-1320)ACG>ATG	p.T440M	XRN1_uc003eut.2_Missense_Mutation_p.T440M|XRN1_uc003euu.2_Missense_Mutation_p.T440M|XRN1_uc003euv.1_Missense_Mutation_p.T301M|XRN1_uc003euw.2_Missense_Mutation_p.T440M|XRN1_uc011bnh.1_Missense_Mutation_p.T230M	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	440					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						CCCCATCTTCGTCATGTAATA	0.299													51	113					0	0	0.01441	0	0		A	142137373	A	A	142137373	3	1	128	1	0	0	0	0	1	0	0	0	17485	1145	40	1	3925	1	XRN1	3	142137373	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	86115	142137373	55885057	248	70536											
ATR	545	broad.mit.edu	37	chr3	142272237	142272237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtaccaaatctccttttgcGgccctaaaattaaaaacaac	15	10	5	11	1	1	0	0	0	1	0	2	0	1	0	3	2	4	1	3	2	8	5	rs150512706		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:142272237G>A	uc003eux.3	-	13	2759	c.2637C>T	c.(2635-2637)GCC>GCT	p.A879A		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	879					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						CTCCTTTTGCGGCCCTAAAAT	0.289								Other_conserved_DNA_damage_response_genes					21	77					0	0	0.012319	0	0		A	142272237	A	A	142272237	2	1	128	1	0	0	0	0	0	0	0	1	1205	1103	39	1		1	ATR	3	142272237	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	134864	142272237	55750193	249	70537											
SELT	51714	broad.mit.edu	37	chr3	150344892	150344892	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgaagctcaatgtgcatAtggattcaatcccacaccat	15	10	6	10	0	2	1	2	1	0	0	3	2	3	2	2	1	2	2	2	1	5	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:150344892A>G	uc011bnx.1	+	6	643	c.559A>G	c.(559-561)ATG>GTG	p.M187V		NM_016275	NP_057359	P62341	SELT_HUMAN	selenoprotein T precursor	187					cell redox homeostasis|selenocysteine incorporation		selenium binding				0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CAATGTGCATATGGATTCAAT	0.378													4	176					0	0	0.001168	0	0		G	150344892	G	G	150344892	3	3	128	1	0	0	0	0	1	0	0	0	14047	449	16	3	577	3	SELT	3	150344892	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	8072655	150344892	47677538	250	70538											
VEPH1	79674	broad.mit.edu	37	chr3	157081500	157081500	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttttcatcttcgccgtcaTctgaacccacaccctttgtg	6	15	6	14	2	4	1	2	1	2	0	5	1	4	1	3	0	1	1	3	0	1	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:157081500T>C	uc003fbj.1	-	9	1705	c.1388A>G	c.(1387-1389)GAT>GGT	p.D463G	VEPH1_uc003fbk.1_Missense_Mutation_p.D463G|VEPH1_uc010hvu.1_Missense_Mutation_p.D463G	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	463						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			TTCGCCGTCATCTGAACCCAC	0.443													3	167					0	0	0.004672	0	0		C	157081500	C	C	157081500	3	2	128	1	0	0	0	0	1	0	0	0	17180	1435	50	3	1137	3	VEPH1	3	157081500	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	6736608	157081500	40940930	251	70539											
WDR49	151790	broad.mit.edu	37	chr3	167319987	167319987	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctattacactggctgagtgGccccaaaggacacccactgg	10	7	11	13	0	0	1	0	1	0	0	0	2	0	2	3	4	1	2	3	4	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:167319987G>A	uc003fev.1	-	3	486	c.180C>T	c.(178-180)GGC>GGT	p.G60G	WDR49_uc011bpd.1_Silent_p.G113G|WDR49_uc003few.1_Silent_p.G401G	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	60	WD 2.									large_intestine(1)|ovary(1)|skin(1)	3						TGGCTGAGTGGCCCCAAAGGA	0.373													34	107					0	0	0.015359	0	0		A	167319987	A	A	167319987	2	1	128	1	0	0	0	0	0	0	0	1	17328	1190	42	2		2	WDR49	3	167319987	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	10238487	167319987	30702443	252	70540											
PHC3	80012	broad.mit.edu	37	chr3	169890411	169890411	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgaagagctgcagtatgCagcatcaagtgctgttgttg	9	12	13	7	0	1	2	1	1	0	1	1	2	1	2	0	0	6	9	0	0	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:169890411C>T	uc010hws.1	-	3	298	c.234G>A	c.(232-234)CTG>CTA	p.L78L	PHC3_uc003fgl.2_Silent_p.L90L|PHC3_uc011bpq.1_Silent_p.L90L|PHC3_uc011bpr.1_Silent_p.L90L|PHC3_uc003fgm.2_Silent_p.L90L|PHC3_uc003fgo.1_Silent_p.L74L|PHC3_uc003fgp.3_Silent_p.L86L|PHC3_uc003fgq.3_Silent_p.L90L	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	78					multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			CTGCAGTATGCAGCATCAAGT	0.473													35	95					0	0	0.017118	0	0		T	169890411	T	T	169890411	2	4	128	1	0	0	0	0	0	0	0	1	11837	697	25	2		2	PHC3	3	169890411	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2570424	169890411	28132019	253	70541											
KCNMB3	27094	broad.mit.edu	37	chr3	178984477	178984477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgaagtgtgatttgcaCggggatgctgaagggctgca	8	9	16	8	1	0	3	0	3	0	0	0	4	0	4	1	3	3	4	1	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:178984477C>T	uc003fjp.1	-	1	362	c.22G>A	c.(22-24)GTG>ATG	p.V8M	KCNMB3_uc011bqc.1_Missense_Mutation_p.V8M	NM_171828	NP_741979	Q9NPA1	KCMB3_HUMAN	calcium-activated potassium channel beta 3	Error:Variant_position_missing_in_Q9NPA1_after_alignment					detection of calcium ion|platelet activation|regulation of action potential in neuron	voltage-gated potassium channel complex	calcium-activated potassium channel activity|potassium channel regulator activity				0	all_cancers(143;5.6e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;2.41e-27)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.03)			GTGATTTGCACGGGGATGCTG	0.582													8	42					0	0	0.004482	0	0		T	178984477	T	T	178984477	3	4	128	1	0	0	0	0	1	0	0	0	8092	536	19	1	1034	1	KCNMB3	3	178984477	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	9094066	178984477	19037953	254	70542											
USP13	8975	broad.mit.edu	37	chr3	179448448	179448448	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggccagtattcaaagcCtccggtgaaatctgaactca	12	9	8	12	1	4	2	3	2	1	0	5	2	5	2	3	2	2	1	3	2	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:179448448C>A	uc003fkh.2	+	10	1286	c.1205C>A	c.(1204-1206)CCT>CAT	p.P402H	USP13_uc003fkf.2_Missense_Mutation_p.P402H	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	402					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			TATTCAAAGCCTCCGGTGAAA	0.453													11	55					1.49906e-05	1.53964e-05	0.020292	1	0		A	179448448	A	A	179448448	3	1	128	1	0	0	0	0	1	0	0	0	17070	681	24	5	1243	5	USP13	3	179448448	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	463971	179448448	18573982	255	70543											
PEX5L	51555	broad.mit.edu	37	chr3	179754369	179754369	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctatagaaatgtcttacctGcatgtgtccctggtacattc	9	14	7	11	0	1	1	0	0	1	1	3	1	2	1	3	1	3	2	3	1	5	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:179754369G>A	uc003fki.1	-	1	149	c.19C>T	c.(19-21)CAG>TAG	p.Q7*	PEX5L_uc003fkj.1_Nonsense_Mutation_p.Q7*|PEX5L_uc010hxd.1_Nonsense_Mutation_p.Q7*|PEX5L_uc011bqg.1_Nonsense_Mutation_p.Q7*|PEX5L_uc011bqh.1_Nonsense_Mutation_p.Q7*	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	7					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			TGTCTTACCTGCATGTGTCCC	0.517													81	288					0	0	0.01441	0	0		A	179754369	A	A	179754369	4	1	128	1	0	0	0	0	0	1	0	0	11768	1328	46	2	1921	2	PEX5L	3	179754369	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	305921	179754369	18268061	256	70544											
MAP6D1	79929	broad.mit.edu	37	chr3	183535841	183535841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggttgtgatgactcgggCtggttttgtctttgtggatc	3	17	16	5	1	1	2	0	2	1	0	3	3	1	3	0	4	0	3	0	4	0	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr3:183535841C>T	uc003fmc.2	-	2	518	c.460G>A	c.(460-462)GCC>ACC	p.A154T		NM_024871	NP_079147	Q9H9H5	MA6D1_HUMAN	MAP6 domain containing 1	154						cytoskeleton					0	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;5.15e-42)|Epithelial(37;4.29e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			ATGACTCGGGCTGGTTTTGTC	0.582													47	129					0	0	0.01441	0	0		T	183535841	T	T	183535841	3	4	128	1	0	0	0	0	1	0	0	0	9283	797	28	2	147	2	MAP6D1	3	183535841	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3781472	183535841	14486589	257	70545											
PDE6B	5158	broad.mit.edu	37	chr4	619512	619512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aactgagccctgagaatgtgGccgcggcctgcgaggacggg	8	5	17	11	4	0	2	0	2	0	1	0	5	0	3	3	4	3	0	3	4	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:619512G>A	uc003gap.2	+	1	150	c.97G>A	c.(97-99)GCC>ACC	p.A33T	PDE6B_uc003gao.3_Missense_Mutation_p.A33T	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	33				AAA -> GRG (in Ref. 1; CAA44569, 2; CAA46932 and 3; AAB22690).	cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						TGAGAATGTGGCCGCGGCCTG	0.488													10	64					0	0	0.003163	0	0		A	619512	A	A	619512	3	1	128	1	0	0	0	0	1	0	0	0	11665	1203	42	2	99	2	PDE6B	4	619512	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08		619512	190534764	258	70546											
PDE6B	5158	broad.mit.edu	37	chr4	619707	619707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagcctcttcatgtacCgccagcgcaacggcgtggcc	6	7	12	16	4	2	0	1	0	1	0	2	0	2	0	4	2	5	4	4	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:619707C>T	uc003gap.2	+	1	345	c.292C>T	c.(292-294)CGC>TGC	p.R98C	PDE6B_uc003gao.3_Missense_Mutation_p.R98C	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	98	GAF 1.				cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						CTTCATGTACCGCCAGCGCAA	0.662													4	8					0	0	0.001984	0	0		T	619707	T	T	619707	3	4	128	1	0	0	0	0	1	0	0	0	11665	652	23	1	294	1	PDE6B	4	619707	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	195	619707	190534569	259	70547											
TMEM175	84286	broad.mit.edu	37	chr4	941650	941650	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcatgctcagcttcagtgaCgccctgctgtccatcatcgc	6	10	9	16	3	3	1	3	1	0	0	5	1	4	1	2	0	3	4	2	0	0	1	rs34645349	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:941650C>T	uc003gbq.2	+	2	221	c.123C>T	c.(121-123)GAC>GAT	p.D41D	TMEM175_uc010ibl.1_Silent_p.D41D|TMEM175_uc003gbp.1_Translation_Start_Site|TMEM175_uc003gbr.2_Translation_Start_Site|TMEM175_uc003gbu.2_Intron|TMEM175_uc003gbs.2_Translation_Start_Site|TMEM175_uc003gbt.2_Translation_Start_Site|TMEM175_uc003gbv.2_Intron	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	41	Helical; (Potential).					integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GCTTCAGTGACGCCCTGCTGT	0.672													17	58					0	0	0.00499	0	0		T	941650	T	T	941650	2	4	128	1	0	0	0	0	0	0	0	1	16116	535	19	1		1	TMEM175	4	941650	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	321943	941650	190212626	260	70548											
HTT	3064	broad.mit.edu	37	chr4	3208281	3208281	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgtaaatcacattcaagAtctgatcagcctttcccacg	12	12	5	12	1	4	2	3	1	1	1	5	2	5	2	2	0	1	1	2	0	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:3208281A>G	uc011bvq.1	+	44	5928	c.5783A>G	c.(5782-5784)GAT>GGT	p.D1928G		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1926					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		CACATTCAAGATCTGATCAGC	0.463													41	104					0	0	0.011902	0	0		G	3208281	G	G	3208281	3	3	128	1	0	0	0	0	1	0	0	0	7473	333	12	3	5947	3	HTT	4	3208281	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	2266631	3208281	187945995	261	70549											
EVC	2121	broad.mit.edu	37	chr4	5803721	5803721	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagagcgtctacgtgaccagCgctggtgtcagccgcctggt	6	8	15	12	4	2	2	1	1	1	1	2	3	2	2	3	2	4	1	3	2	1	1	rs138114051		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:5803721C>T	uc003gil.1	+	16	2533	c.2349C>T	c.(2347-2349)AGC>AGT	p.S783S	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	783					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				ACGTGACCAGCGCTGGTGTCA	0.592													9	23					0	0	0.004482	0	0		T	5803721	T	T	5803721	2	4	128	1	0	0	0	0	0	0	0	1	5293	767	27	1		1	EVC	4	5803721	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2595440	5803721	185350555	262	70550											
WFS1	7466	broad.mit.edu	37	chr4	6296857	6296857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcctgttcctgcaggacGacgaagatgatgacgagctg	10	7	14	10	3	0	3	0	2	0	1	1	7	1	4	2	1	3	4	2	1	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:6296857G>A	uc003giy.2	+	7	968	c.802G>A	c.(802-804)GAC>AAC	p.D268N	WFS1_uc003gix.2_Missense_Mutation_p.D268N|WFS1_uc003giz.2_Missense_Mutation_p.D86N	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	268					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		CCTGCAGGACGACGAAGATGA	0.597													28	98					0	0	0.006999	0	0		A	6296857	A	A	6296857	3	1	128	1	0	0	0	0	1	0	0	0	17386	1058	37	1	824	1	WFS1	4	6296857	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	493136	6296857	184857419	263	70551											
TBC1D14	57533	broad.mit.edu	37	chr4	6925426	6925426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagcgggccttccagagcGcctgcgcgctgccatcctgt	4	7	13	17	5	0	1	0	0	0	1	2	2	2	1	6	1	4	1	6	1	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:6925426G>A	uc011bwg.1	+	2	389	c.310G>A	c.(310-312)GCC>ACC	p.A104T	TBC1D14_uc003gjs.3_Missense_Mutation_p.A104T	NM_001113361	NP_001106832	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14 isoform a	104						intracellular	Rab GTPase activator activity			ovary(1)|pancreas(1)	2						CTTCCAGAGCGCCTGCGCGCT	0.662													57	180					0	0	0.01441	0	0		A	6925426	A	A	6925426	3	1	128	1	0	0	0	0	1	0	0	0	15628	1087	38	1	312	1	TBC1D14	4	6925426	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	628569	6925426	184228850	264	70552											
CCDC96	257236	broad.mit.edu	37	chr4	7043869	7043869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccccggtcagccacctcaGcggcctccaggcccttcttt	4	8	9	20	3	3	0	2	0	1	0	4	0	4	0	7	3	2	0	7	3	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:7043869G>A	uc003gjv.2	-	1	860	c.797C>T	c.(796-798)GCT>GTT	p.A266V	TADA2B_uc003gjw.3_5'Flank|TADA2B_uc010idi.2_5'Flank	NM_153376	NP_699207	Q2M329	CCD96_HUMAN	coiled-coil domain containing 96	266											0						AGCCACCTCAGCGGCCTCCAG	0.647													56	182					0	0	0.01441	0	0		A	7043869	A	A	7043869	3	1	128	1	0	0	0	0	1	0	0	0	2877	971	34	2	874	2	CCDC96	4	7043869	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	118443	7043869	184110407	265	70553											
AFAP1	60312	broad.mit.edu	37	chr4	7802370	7802370	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcggctgttggagagcacGttcagatagcctgcggagac	9	7	15	10	3	1	3	1	0	0	3	1	5	1	3	1	3	4	4	1	3	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:7802370G>A	uc003gkg.1	-	10	1338	c.1065C>T	c.(1063-1065)AAC>AAT	p.N355N	AFAP1_uc011bwk.1_Silent_p.N355N	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	355	PH 2.					actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						TGGAGAGCACGTTCAGATAGC	0.577													8	25					0	0	0.006214	0	0		A	7802370	A	A	7802370	2	1	128	1	0	0	0	0	0	0	0	1	353	1136	40	1		1	AFAP1	4	7802370	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	758501	7802370	183351906	266	70554											
BOD1L	259282	broad.mit.edu	37	chr4	13605718	13605718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtctggttttggagtggttgCctgttttgtggcaccttctt	2	19	13	7	0	2	0	0	0	2	0	2	1	2	1	2	4	1	4	2	4	0	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:13605718C>T	uc003gmz.1	-	10	2923	c.2806G>A	c.(2806-2808)GCA>ACA	p.A936T	BOD1L_uc010idr.1_Missense_Mutation_p.A273T	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	936	Lys-rich.						DNA binding			ovary(5)|breast(1)	6						GGAGTGGTTGCCTGTTTTGTG	0.373													73	216					0	0	0.01441	0	0		T	13605718	T	T	13605718	3	4	128	1	0	0	0	0	1	0	0	0	1484	739	26	2	6417	2	BOD1L	4	13605718	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5803348	13605718	177548558	267	70555											
DHX15	1665	broad.mit.edu	37	chr4	24542564	24542564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacgcaaaatctcaggatagGtgttatcctagcaaagaaca	17	8	8	8	1	1	1	1	0	1	1	3	2	2	2	1	2	3	3	1	2	8	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:24542564G>A	uc003gqx.2	-	9	1661	c.1493C>T	c.(1492-1494)ACC>ATC	p.T498I	DHX15_uc003gqw.2_5'Flank	NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	498	Helicase C-terminal.				mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				CTCAGGATAGGTGTTATCCTA	0.353													12	32					0	0	0.013537	0	0		A	24542564	A	A	24542564	3	1	128	1	0	0	0	0	1	0	0	0	4507	1261	44	4	918	4	DHX15	4	24542564	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	10936846	24542564	166611712	268	70556											
ZCCHC4	29063	broad.mit.edu	37	chr4	25335563	25335563	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaagttgacagcatcaggTgacaagaagtctaacattaa	17	9	8	7	0	3	3	2	2	1	1	3	3	3	3	0	1	2	2	0	1	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:25335563T>C	uc003grl.3	+	5	675	c.639T>C	c.(637-639)GGT>GGC	p.G213G	ZCCHC4_uc003grm.1_RNA|ZCCHC4_uc003grn.3_5'UTR	NM_024936	NP_079212	Q9H5U6	ZCHC4_HUMAN	zinc finger, CCHC domain containing 4	213							methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(2)	2		Breast(46;0.0503)				CAGCATCAGGTGACAAGAAGT	0.308													17	67					0	0	0.006122	0	0		C	25335563	C	C	25335563	2	2	128	1	0	0	0	0	0	0	0	1	17615	1683	59	3		3	ZCCHC4	4	25335563	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	792999	25335563	165818713	269	70557											
KLHL5	51088	broad.mit.edu	37	chr4	39077615	39077615	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagtcagacattatcatcCtgtcatactatggagccatg	12	12	8	9	0	3	1	3	0	0	1	4	2	4	2	2	1	2	1	2	1	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:39077615C>A	uc003gts.2	+	2	627	c.552C>A	c.(550-552)TCC>TCA	p.S184S	KLHL5_uc003gtp.2_Silent_p.S138S|KLHL5_uc003gtq.2_Translation_Start_Site|KLHL5_uc003gtr.1_Silent_p.S184S|KLHL5_uc003gtt.2_Intron	NM_015990	NP_057074	Q96PQ7	KLHL5_HUMAN	kelch-like 5 isoform 1	184						cytoplasm|cytoskeleton	actin binding			ovary(1)	1						CATTATCATCCTGTCATACTA	0.313													51	204					1.19403e-26	1.31265e-26	0.01441	1	0		A	39077615	A	A	39077615	2	1	128	1	0	0	0	0	0	0	0	1	8408	668	24	5		5	KLHL5	4	39077615	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	13742052	39077615	152076661	270	70558											
LNX1	84708	broad.mit.edu	37	chr4	54439943	54439943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccagaggcttgcggtccatgGgacagaagtccttctccacc	8	8	11	14	1	1	2	0	0	1	2	4	3	3	3	5	3	1	1	5	3	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:54439943G>A	uc003hag.3	-	2	483	c.227C>T	c.(226-228)CCC>CTC	p.P76L	PDGFRA_uc003haa.2_Intron|LNX1_uc003hah.3_RNA	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	76	RING-type.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			GCGGTCCATGGGACAGAAGTC	0.572													5	13					0	0	0.014758	0	0		A	54439943	A	A	54439943	3	1	128	1	0	0	0	0	1	0	0	0	8882	1232	43	4	2095	4	LNX1	4	54439943	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	15362328	54439943	136714333	271	70559											
LPHN3	23284	broad.mit.edu	37	chr4	62800606	62800606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagccacaagctttgaatGcatggagagacctgactacg	12	9	10	10	1	1	3	1	2	0	1	1	5	1	4	2	1	4	2	2	1	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:62800606G>A	uc010ihh.2	+	11	2130	c.1957G>A	c.(1957-1959)GCA>ACA	p.A653T	LPHN3_uc003hcq.3_Missense_Mutation_p.A653T|LPHN3_uc003hct.2_Missense_Mutation_p.A46T|LPHN3_uc003hcs.1_Missense_Mutation_p.A469T	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	640	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						AGCTTTGAATGCATGGAGAGA	0.478													22	59					0	0	0.014323	0	0		A	62800606	A	A	62800606	3	1	128	1	0	0	0	0	1	0	0	0	8935	1319	46	2	1999	2	LPHN3	4	62800606	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	8360663	62800606	128353670	272	70560											
EPHA5	2044	broad.mit.edu	37	chr4	66233137	66233137	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttgctttgctgtagccaCaccgcctggaacaaagtaag	10	11	10	10	1	0	0	0	0	0	0	0	1	0	1	3	1	4	5	3	1	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:66233137C>T	uc003hcy.2	-	10	2055	c.1862G>A	c.(1861-1863)TGT>TAT	p.C621Y	EPHA5_uc003hcx.2_Missense_Mutation_p.C553Y|EPHA5_uc003hcz.2_Missense_Mutation_p.C599Y|EPHA5_uc011cah.1_Missense_Mutation_p.C622Y|EPHA5_uc011cai.1_Missense_Mutation_p.C600Y|EPHA5_uc003hda.2_Missense_Mutation_p.C622Y	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	621	Cytoplasmic (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						GCTGTAGCCACACCGCCTGGA	0.373										TSP Lung(17;0.13)			20	56					0	0	0.012319	0	0		T	66233137	T	T	66233137	3	4	128	1	0	0	0	0	1	0	0	0	5178	478	17	4	1287	4	EPHA5	4	66233137	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3432531	66233137	124921139	273	70561											
RUFY3	22902	broad.mit.edu	37	chr4	71654646	71654646	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatctcttcggcagcagctgGatgacctcagagctctcaag	9	10	10	12	1	3	2	2	1	2	1	6	3	3	3	1	2	3	4	1	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:71654646G>T	uc003hfq.2	+	11	1790	c.1195G>T	c.(1195-1197)GAT>TAT	p.D399Y	RUFY3_uc003hfp.3_Missense_Mutation_p.D459Y|RUFY3_uc011cax.1_Missense_Mutation_p.D417Y|RUFY3_uc003hfr.2_Missense_Mutation_p.D399Y|RUFY3_uc011cay.1_Missense_Mutation_p.D335Y	NM_014961	NP_055776	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 2	399	Potential.				negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			GCAGCAGCTGGATGACCTCAG	0.507													24	76					2.41591e-17	2.61265e-17	0.004656	1	0		T	71654646	T	T	71654646	3	4	128	1	0	0	0	0	1	0	0	0	13765	1174	41	5	1599	5	RUFY3	4	71654646	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5421509	71654646	119499630	274	70562											
ADAMTS3	9508	broad.mit.edu	37	chr4	73149282	73149282	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgagtttcagcagcttcTagaaggtatggtggtggcag	9	12	14	6	0	3	2	2	1	1	1	3	2	3	2	0	4	2	5	0	4	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:73149282T>C	uc003hgk.1	-	22	3226	c.3189A>G	c.(3187-3189)CTA>CTG	p.L1063L		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1063					collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CAGCAGCTTCTAGAAGGTATG	0.473													40	134					0	0	0.01441	0	0		C	73149282	C	C	73149282	2	2	128	1	0	0	0	0	0	0	0	1	267	1509	53	3		3	ADAMTS3	4	73149282	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1494636	73149282	118004994	275	70563											
ADAMTS3	9508	broad.mit.edu	37	chr4	73205406	73205406	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcaaggccttccaggtcCgactctaataagagacaaaa	15	8	7	11	1	3	1	2	0	1	1	5	3	5	1	3	2	0	0	3	2	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:73205406C>T	uc003hgk.1	-	5	703	c.666G>A	c.(664-666)TCG>TCA	p.S222S		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	222					collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CTTCCAGGTCCGACTCTAATA	0.453													53	143					0	0	0.01441	0	0		T	73205406	T	T	73205406	2	4	128	1	0	0	0	0	0	0	0	1	267	639	23	1		1	ADAMTS3	4	73205406	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	56124	73205406	117948870	276	70564											
HERC6	55008	broad.mit.edu	37	chr4	89326038	89326038	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttccctgaaggatactagttCcacacgtgctcccgggaaaa	11	9	9	12	2	0	1	0	1	0	0	3	3	3	3	3	2	2	2	3	2	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:89326038C>G	uc011cdi.1	+	9	1286	c.1103C>G	c.(1102-1104)TCC>TGC	p.S368C	HERC6_uc011cdj.1_Missense_Mutation_p.S368C|HERC6_uc011cdk.1_Intron|HERC6_uc011cdl.1_Intron	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	368					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		GATACTAGTTCCACACGTGCT	0.428													25	68					0	0	0.021523	0	0		G	89326038	G	G	89326038	3	3	128	1	0	0	0	0	1	0	0	0	7078	855	30	5	934	5	HERC6	4	89326038	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	16120632	89326038	101828238	277	70565											
GRID2	2895	broad.mit.edu	37	chr4	94032033	94032033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagaatagaagaactgaatCgctatcgagacactcttagg	15	9	10	7	2	1	5	0	2	1	4	3	7	1	5	0	1	1	1	0	1	7	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:94032033C>T	uc011cdt.1	+	4	922	c.664C>T	c.(664-666)CGC>TGC	p.R222C	GRID2_uc010ikx.2_Missense_Mutation_p.R222C|GRID2_uc011cdu.1_Missense_Mutation_p.R127C|GRID2_uc011cdv.1_RNA	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	222	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	AGAACTGAATCGCTATCGAGA	0.418													51	143					0	0	0.01441	0	0		T	94032033	T	T	94032033	3	4	128	1	0	0	0	0	1	0	0	0	6788	884	31	1	678	1	GRID2	4	94032033	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4705995	94032033	97122243	278	70566											
KIAA1109	84162	broad.mit.edu	37	chr4	123184039	123184039	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaaggagagcctactcAgctacctgactggaagcttc	12	7	11	11	0	1	2	1	1	0	1	2	5	1	4	2	3	5	2	2	3	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:123184039A>G	uc003ieh.2	+	41	6928	c.6883A>G	c.(6883-6885)AGC>GGC	p.S2295G	KIAA1109_uc003iel.1_Missense_Mutation_p.S230G|KIAA1109_uc003iek.2_Missense_Mutation_p.S914G	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2295					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GAGCCTACTCAGCTACCTGAC	0.532													3	128					0	0	0.004672	0	0		G	123184039	G	G	123184039	3	3	128	1	0	0	0	0	1	0	0	0	8224	188	7	3	7045	3	KIAA1109	4	123184039	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	29152006	123184039	67970237	279	70567											
PHF17	79960	broad.mit.edu	37	chr4	129776926	129776926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggaaccaagtgggtccacGttagctgtgctctgtggatc	7	10	14	10	2	1	0	0	0	1	0	3	2	2	2	2	3	3	3	2	3	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:129776926G>A	uc003igk.2	+	7	1118	c.838G>A	c.(838-840)GTT>ATT	p.V280I	PHF17_uc003igj.2_Missense_Mutation_p.V280I|PHF17_uc003igl.2_Missense_Mutation_p.V268I|PHF17_uc011cgy.1_Missense_Mutation_p.V280I|PHF17_uc003igm.2_Missense_Mutation_p.V280I	NM_199320	NP_955352	Q6IE81	JADE1_HUMAN	PHD finger protein 17 long isoform	280					apoptosis|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell growth|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	histone acetyltransferase complex|mitochondrion	protein binding|zinc ion binding				0						GTGGGTCCACGTTAGCTGTGC	0.403													20	53					0	0	0.014323	0	0		A	129776926	A	A	129776926	3	1	128	1	0	0	0	0	1	0	0	0	11847	1145	40	1	860	1	PHF17	4	129776926	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	6592887	129776926	61377350	280	70568											
PCDH18	54510	broad.mit.edu	37	chr4	138442446	138442446	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccgctaccccctgtgggtAacccacagttttggctggca	6	10	11	14	1	0	0	0	0	0	0	0	0	0	0	4	3	3	5	4	3	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:138442446A>G	uc003ihe.3	-	4	3532	c.3145T>C	c.(3145-3147)TAC>CAC	p.Y1049H	PCDH18_uc003ihf.3_Missense_Mutation_p.Y1041H|PCDH18_uc011cgz.1_Missense_Mutation_p.Y260H|PCDH18_uc003ihg.3_Missense_Mutation_p.Y828H|PCDH18_uc011cha.1_Missense_Mutation_p.Y229H	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	1049	Interaction with DAB1 (By similarity).|Cytoplasmic (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					CCCTGTGGGTAACCCACAGTT	0.582													15	36					0	0	0.003163	0	0		G	138442446	G	G	138442446	3	3	128	1	0	0	0	0	1	0	0	0	11532	362	13	3	266	3	PCDH18	4	138442446	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	8665520	138442446	52711830	281	70569											
MAML3	55534	broad.mit.edu	37	chr4	140641171	140641171	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agccactcaccattccaaccCcctgcccagaggcaggttgc	9	6	8	18	0	1	1	1	0	0	1	2	1	2	1	6	2	4	2	6	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:140641171C>A	uc003ihz.1	-	7	3460	c.2708G>T	c.(2707-2709)GGG>GTG	p.G903V	MGST2_uc010ioi.1_Intron|MAML3_uc011chd.1_Missense_Mutation_p.G371V	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	904	Gln-rich.				Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					CATTCCAACCCCCTGCCCAGA	0.557													18	423					1.00905e-13	1.07545e-13	0.008871	1	0		A	140641171	A	A	140641171	3	1	128	1	0	0	0	0	1	0	0	0	9225	623	22	5	697	5	MAML3	4	140641171	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2198725	140641171	50513105	282	70570											
MMAA	166785	broad.mit.edu	37	chr4	146576477	146576477	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agagcatttcaggacccaccCcacagtccgggaacagattc	12	6	9	14	1	1	2	1	0	0	2	3	4	2	4	4	2	2	1	4	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:146576477C>A	uc003ikh.3	+	7	1233	c.1148C>A	c.(1147-1149)CCC>CAC	p.P383H	MMAA_uc010iow.2_RNA	NM_172250	NP_758454	Q8IVH4	MMAA_HUMAN	methylmalonic aciduria type A precursor	383						mitochondrion	GTP binding|nucleoside-triphosphatase activity			ovary(1)	1	all_hematologic(180;0.151)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AGGACCCACCCCACAGTCCGG	0.493													5	151					0.000602214	0.000612359	0.014758	1	0		A	146576477	A	A	146576477	3	1	128	1	0	0	0	0	1	0	0	0	9657	623	22	5	1170	5	MMAA	4	146576477	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5935306	146576477	44577799	283	70571											
NR3C2	4306	broad.mit.edu	37	chr4	149357534	149357534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagacataaatgatctcaagGgcgtgttcacacaacttaga	15	9	8	9	1	2	3	2	1	1	2	3	3	2	3	0	1	1	1	0	1	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:149357534G>A	uc003ilj.3	-	2	813	c.479C>T	c.(478-480)CCC>CTC	p.P160L	NR3C2_uc003ilk.3_Missense_Mutation_p.P160L|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	160	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	TGATCTCAAGGGCGTGTTCAC	0.463													57	194					0	0	0.01441	0	0		A	149357534	A	A	149357534	3	1	128	1	0	0	0	0	1	0	0	0	10650	1232	43	4	2507	4	NR3C2	4	149357534	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2781057	149357534	41796742	284	70572											
DCHS2	54798	broad.mit.edu	37	chr4	155250793	155250793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggggagccgcggtctGtcactagcacagtcatctca	7	9	14	11	2	4	0	3	0	2	0	5	1	4	1	1	4	2	1	1	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:155250793G>A	uc003inw.2	-	11	2435	c.2435C>T	c.(2434-2436)ACA>ATA	p.T812I	DCHS2_uc003inx.2_Missense_Mutation_p.T1267I	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	812	Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GCCGCGGTCTGTCACTAGCAC	0.552													21	62					0	0	0.021523	0	0		A	155250793	A	A	155250793	3	1	128	1	0	0	0	0	1	0	0	0	4291	1377	48	4	6471	4	DCHS2	4	155250793	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5893259	155250793	35903483	285	70573											
FAM198B	51313	broad.mit.edu	37	chr4	159092457	159092457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccggctgctccagagcttaCgcacccgcgggacgcacagg	7	4	14	16	5	0	1	0	0	0	1	1	2	1	2	3	3	3	5	3	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:159092457C>T	uc003ipp.3	-	2	523	c.71G>A	c.(70-72)CGT>CAT	p.R24H	uc003ipu.1_5'Flank|FAM198B_uc003ipq.3_Missense_Mutation_p.R24H|FAM198B_uc003ipr.3_Missense_Mutation_p.R24H|FAM198B_uc003ips.2_Missense_Mutation_p.R24H|uc003ipt.1_RNA	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	24	Cytoplasmic (Potential).					Golgi membrane|integral to membrane					0						CCAGAGCTTACGCACCCGCGG	0.612													27	89					0	0	0.012213	0	0		T	159092457	T	T	159092457	3	4	128	1	0	0	0	0	1	0	0	0	5540	536	19	1	1609	1	FAM198B	4	159092457	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3841664	159092457	32061819	286	70574											
FNIP2	57600	broad.mit.edu	37	chr4	159756572	159756572	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttagcacacagcacaccagTtgatatgccaagcagaggac	14	6	9	12	0	0	2	0	1	0	1	0	3	0	3	2	1	4	4	2	1	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:159756572T>A	uc003iqe.3	+	7	854	c.671T>A	c.(670-672)GTT>GAT	p.V224D		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	224					DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		AGCACACCAGTTGATATGCCA	0.373													86	287					0	0	0.01441	0	0		A	159756572	A	A	159756572	3	1	128	1	0	0	0	0	1	0	0	0	5990	1725	60	5	697	5	FNIP2	4	159756572	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	664115	159756572	31397704	287	70575											
MFAP3L	9848	broad.mit.edu	37	chr4	170913207	170913207	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaagaactcattgatggcCttctcagtcttctttagatg	10	15	7	9	0	4	3	2	1	3	2	5	3	4	3	1	1	1	0	1	1	4	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:170913207C>A	uc003isp.3	-	3	730	c.552G>T	c.(550-552)AAG>AAT	p.K184N	MFAP3L_uc003isn.3_Missense_Mutation_p.K81N	NM_021647	NP_067679	O75121	MFA3L_HUMAN	microfibrillar-associated protein 3-like isoform	184	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0201)|LUSC - Lung squamous cell carcinoma(193;0.116)		CATTGATGGCCTTCTCAGTCT	0.517													47	125					8.48111e-28	9.34681e-28	0.01441	1	0		A	170913207	A	A	170913207	3	1	128	1	0	0	0	0	1	0	0	0	9534	680	24	5	681	5	MFAP3L	4	170913207	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	11156635	170913207	20241069	288	70576											
GALNTL6	442117	broad.mit.edu	37	chr4	172735778	172735778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatgactttgttgttcaCggtggctttaattttcctgc	6	17	10	8	1	1	2	1	1	0	1	2	2	2	2	1	2	1	4	1	2	1	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:172735778C>T	uc003isv.2	+	2	783	c.47C>T	c.(46-48)ACG>ATG	p.T16M		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	16	Helical; Signal-anchor for type II membrane protein; (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						TTGTTGTTCACGGTGGCTTTA	0.478													27	103					0	0	0.00632	0	0		T	172735778	T	T	172735778	3	4	128	1	0	0	0	0	1	0	0	0	6240	536	19	1	49	1	GALNTL6	4	172735778	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1822571	172735778	18418498	289	70577											
ASB5	140458	broad.mit.edu	37	chr4	177146478	177146478	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcttcatgtagtggtgatcGatctgcccaggaacctgtca	8	12	11	10	1	3	1	2	1	1	0	4	3	3	2	2	2	3	2	2	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:177146478G>A	uc003iuq.1	-	2	227	c.211C>T	c.(211-213)CGA>TGA	p.R71*	ASB5_uc003iup.1_Nonsense_Mutation_p.R18*	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	71	ANK 1.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		AGTGGTGATCGATCTGCCCAG	0.338													46	180					0	0	0.01441	0	0		A	177146478	A	A	177146478	4	1	128	1	0	0	0	0	0	1	0	0	1027	1066	37	1	802	1	ASB5	4	177146478	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4410700	177146478	14007798	290	70578											
C4orf41	60684	broad.mit.edu	37	chr4	184605943	184605943	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaagtgctcctacctcAtggcccaattaaaggattac	11	11	7	12	0	2	1	1	1	1	0	3	2	3	2	3	2	3	1	3	2	6	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:184605943A>G	uc003ivx.2	+	15	1692	c.1516A>G	c.(1516-1518)ATG>GTG	p.M506V	C4orf41_uc003ivw.2_Missense_Mutation_p.M506V|C4orf41_uc010isc.2_Intron|C4orf41_uc003ivy.2_Missense_Mutation_p.M112V	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	506											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		CTCCTACCTCATGGCCCAATT	0.383													41	140					0	0	0.00623	0	0		G	184605943	G	G	184605943	3	3	128	1	0	0	0	0	1	0	0	0	2273	217	8	3	1570	3	C4orf41	4	184605943	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	7459465	184605943	6548333	291	70579											
HELT	391723	broad.mit.edu	37	chr4	185941867	185941867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcattacctcaacctgatcGgccacgcgcaccccaacgcc	9	5	8	19	4	1	1	1	1	0	0	2	1	1	1	6	2	3	2	6	2	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:185941867G>A	uc011ckq.1	+	4	925	c.925G>A	c.(925-927)GGC>AGC	p.G309S	HELT_uc011cko.1_Missense_Mutation_p.G224S|HELT_uc003ixa.3_Missense_Mutation_p.G223S|HELT_uc011ckp.1_Missense_Mutation_p.G167S	NM_001029887	NP_001025058	A6NFD8	HELT_HUMAN	HES/HEY-like transcription factor	309							DNA binding				0		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;8.92e-26)|Epithelial(43;3.02e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-11)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		CAACCTGATCGGCCACGCGCA	0.692													35	98					0	0	0.006999	0	0		A	185941867	A	A	185941867	3	1	128	1	0	0	0	0	1	0	0	0	7064	1116	39	1	939	1	HELT	4	185941867	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1335924	185941867	5212409	292	70580											
FAT1	2195	broad.mit.edu	37	chr4	187527365	187527365	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accgtgagcgtgtaacctgaAatcttttcaggcaaaagaca	14	9	9	9	2	2	3	1	2	1	1	2	3	2	3	2	1	2	2	2	1	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr4:187527365A>T	uc003izf.2	-	17	10397	c.10209T>A	c.(10207-10209)ATT>ATA	p.I3403I		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3403	Extracellular (Potential).|Cadherin 31.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TGTAACCTGAAATCTTTTCAG	0.512										HNSCC(5;0.00058)			10	58					0	0	0.010729	0	0		T	187527365	T	T	187527365	2	4	128	1	0	0	0	0	0	0	0	1	5703	10	1	5		5	FAT1	4	187527365	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	1585498	187527365	3626911	293	70581											
IRX1	79192	broad.mit.edu	37	chr5	3601109	3601109	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatgcagctctctggccccGcaggagggaacgccgcggat	7	5	14	15	4	1	0	0	0	1	0	2	3	1	3	4	4	3	3	4	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:3601109G>A	uc003jde.2	+	4	1450	c.1398G>A	c.(1396-1398)CCG>CCA	p.P466P		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	466						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CTCTGGCCCCGCAGGAGGGAA	0.657													41	111					0	0	0.01441	0	0		A	3601109	A	A	3601109	2	1	128	1	0	0	0	0	0	0	0	1	7859	1074	38	1		1	IRX1	5	3601109	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08		3601109	177314151	294	70582											
ADAMTS16	170690	broad.mit.edu	37	chr5	5303789	5303789	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgacgctgtctgcacctcCgagcccaagcccaggatgca	8	5	10	18	3	1	0	0	0	1	0	2	3	2	1	5	1	4	3	5	1	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:5303789C>T	uc003jdl.2	+	20	3234	c.3096C>T	c.(3094-3096)TCC>TCT	p.S1032S	ADAMTS16_uc003jdk.1_Silent_p.S1032S	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1032	TSP type-1 4.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TCTGCACCTCCGAGCCCAAGC	0.652													11	36					0	0	0.008291	0	0		T	5303789	T	T	5303789	2	4	128	1	0	0	0	0	0	0	0	1	261	639	23	1		1	ADAMTS16	5	5303789	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1702680	5303789	175611471	295	70583											
SEMA5A	9037	broad.mit.edu	37	chr5	9052130	9052130	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaccagtccgaccactcCgaccagctctctgcagagac	10	6	8	17	2	2	2	1	0	1	2	5	5	4	2	5	0	2	2	5	0	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:9052130C>T	uc003jek.2	-	20	3412	c.2700G>A	c.(2698-2700)TCG>TCA	p.S900S		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	900	Extracellular (Potential).|TSP type-1 7.				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						CCGACCACTCCGACCAGCTCT	0.577													14	25					0	0	0.020292	0	0		T	9052130	T	T	9052130	2	4	128	1	0	0	0	0	0	0	0	1	14062	639	23	1		1	SEMA5A	5	9052130	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3748341	9052130	171863130	296	70584											
DAP	1611	broad.mit.edu	37	chr5	10681222	10681222	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggaaggatgcttgtccatGgaggcatgcggcttctggtg	6	10	18	7	1	1	0	0	0	1	0	2	3	2	3	1	7	2	3	1	7	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:10681222G>A	uc003jez.3	-	4	462	c.255C>T	c.(253-255)TCC>TCT	p.S85S	DAP_uc011cmw.1_Missense_Mutation_p.P71L	NM_004394	NP_004385	P51397	DAP1_HUMAN	death-associated protein	85					activation of caspase activity|cellular response to amino acid starvation|induction of apoptosis by extracellular signals|negative regulation of autophagy|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent		death domain binding				0		Ovarian(839;1.34e-05)|Breast(839;0.0634)|Lung NSC(810;0.0804)				GCTTGTCCATGGAGGCATGCG	0.602													3	16					0	0	0.001984	0	0		A	10681222	A	A	10681222	2	1	128	1	0	0	0	0	0	0	0	1	4236	1335	47	4		4	DAP	5	10681222	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1629092	10681222	170234038	297	70585											
CTNND2	1501	broad.mit.edu	37	chr5	11082891	11082891	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacacggtcattgtctattCggagcagctccacgaggatg	9	9	11	12	3	2	0	1	0	1	0	4	3	3	2	2	3	2	2	2	3	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:11082891C>T	uc003jfa.1	-	16	2850	c.2705G>A	c.(2704-2706)CGA>CAA	p.R902Q	CTNND2_uc010itt.2_Missense_Mutation_p.R811Q|CTNND2_uc011cmy.1_Missense_Mutation_p.R565Q|CTNND2_uc011cmz.1_Missense_Mutation_p.R469Q|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.R494Q	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	902	ARM 8.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						ATTGTCTATTCGGAGCAGCTC	0.547													43	100					0	0	0.007835	0	0		T	11082891	T	T	11082891	3	4	128	1	0	0	0	0	1	0	0	0	4023	884	31	1	1000	1	CTNND2	5	11082891	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	401669	11082891	169832369	298	70586											
DNAH5	1767	broad.mit.edu	37	chr5	13735996	13735996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatacatctcattaaccaagCgcatctcagtaatgaggaag	15	9	8	9	1	2	1	2	1	2	0	4	3	2	2	1	1	3	2	1	1	5	3	rs139914691		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:13735996C>T	uc003jfd.2	-	67	11543	c.11501G>A	c.(11500-11502)CGC>CAC	p.R3834H	DNAH5_uc003jfc.2_Missense_Mutation_p.R2H	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3834					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					ATTAACCAAGCGCATCTCAGT	0.488									Kartagener_syndrome				25	113					0	0	0.01892	0	0		T	13735996	T	T	13735996	3	4	128	1	0	0	0	0	1	0	0	0	4610	768	27	1	2425	1	DNAH5	5	13735996	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2653105	13735996	167179264	299	70587											
PDZD2	23037	broad.mit.edu	37	chr5	31799500	31799500	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggagtacatccagctgAactttgctgtggatgagagt	10	11	13	7	0	0	2	0	2	0	1	1	5	1	4	1	2	5	4	1	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:31799500A>G	uc003jhl.2	+	2	533	c.145A>G	c.(145-147)AAC>GAC	p.N49D	PDZD2_uc003jhm.2_Missense_Mutation_p.N49D	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	49					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CATCCAGCTGAACTTTGCTGT	0.602													49	188					0	0	0.01441	0	0		G	31799500	G	G	31799500	3	3	128	1	0	0	0	0	1	0	0	0	11720	246	9	3	147	3	PDZD2	5	31799500	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	18063504	31799500	149115760	300	70588											
PDZD2	23037	broad.mit.edu	37	chr5	32048734	32048734	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggatgttggaggtctccCgagatggccggaaacactcc	8	8	13	12	3	1	1	0	0	1	1	4	5	3	4	4	5	1	1	4	5	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:32048734C>T	uc003jhl.2	+	8	1997	c.1609C>T	c.(1609-1611)CGA>TGA	p.R537*	PDZD2_uc003jhm.2_Nonsense_Mutation_p.R537*|PDZD2_uc011cnx.1_Nonsense_Mutation_p.R363*	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	537					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GGAGGTCTCCCGAGATGGCCG	0.562													20	71					0	0	0.008871	0	0		T	32048734	T	T	32048734	4	4	128	1	0	0	0	0	0	1	0	0	11720	644	23	1	1635	1	PDZD2	5	32048734	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	249234	32048734	148866526	301	70589											
PARP8	79668	broad.mit.edu	37	chr5	50137811	50137811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtatttcagctatgaagacgGccaagtgggagatgcaaata	14	9	12	6	1	1	3	1	1	0	2	1	4	1	3	1	2	2	3	1	2	6	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:50137811G>A	uc003jon.3	+	27	2656	c.2474G>A	c.(2473-2475)GGC>GAC	p.G825D	PARP8_uc011cpz.1_Missense_Mutation_p.G717D|PARP8_uc003joo.2_Missense_Mutation_p.G825D|PARP8_uc003jop.2_Missense_Mutation_p.G783D	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	825	PARP catalytic.					intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				TATGAAGACGGCCAAGTGGGA	0.338													4	115					0	0	0.009096	0	0		A	50137811	A	A	50137811	3	1	128	1	0	0	0	0	1	0	0	0	11484	1203	42	2	2576	2	PARP8	5	50137811	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	18089077	50137811	130777449	302	70590											
SKIV2L2	23517	broad.mit.edu	37	chr5	54696084	54696084	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcagaaacgttttcctgaCggcatccccttattagaccc	9	12	7	13	2	1	3	1	1	0	2	3	3	3	3	4	1	1	3	4	1	3	5	rs143135345	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:54696084C>T	uc003jpy.3	+	21	2582	c.2316C>T	c.(2314-2316)GAC>GAT	p.D772D	SKIV2L2_uc011cqi.1_Silent_p.D671D	NM_015360	NP_056175	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2	772					maturation of 5.8S rRNA	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(1)|skin(1)	2		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				GTTTTCCTGACGGCATCCCCT	0.343													24	56					0	0	0.00632	0	0		T	54696084	T	T	54696084	2	4	128	1	0	0	0	0	0	0	0	1	14385	535	19	1		1	SKIV2L2	5	54696084	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4558273	54696084	126219176	303	70591											
MAP3K1	4214	broad.mit.edu	37	chr5	56179395	56179395	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cataccaaagcaaaacaaccGtatagagaagacactgaatg	20	5	7	9	1	0	3	0	1	0	2	0	4	0	3	2	0	4	2	2	0	9	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:56179395G>A	uc003jqw.3	+	15	4209	c.3708G>A	c.(3706-3708)CCG>CCA	p.P1236P		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	1236					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		CAAAACAACCGTATAGAGAAG	0.383													37	102					0	0	0.00623	0	0		A	56179395	A	A	56179395	2	1	128	1	0	0	0	0	0	0	0	1	9261	1132	40	1		1	MAP3K1	5	56179395	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1483311	56179395	124735865	304	70592											
RGNEF	64283	broad.mit.edu	37	chr5	73045775	73045775	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtcatgattgcagagcgCatcgaggataacgttctcca	11	10	10	10	3	2	2	1	1	1	1	4	4	2	3	1	1	3	3	1	1	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:73045775C>T	uc011csq.1	+	2	158	c.147C>T	c.(145-147)CGC>CGT	p.R49R	RGNEF_uc003kcx.2_Silent_p.R49R|RGNEF_uc003kcy.1_Silent_p.R49R|RGNEF_uc010izf.2_Silent_p.R49R	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	49					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		TTGCAGAGCGCATCGAGGATA	0.458													39	118					0	0	0.011902	0	0		T	73045775	T	T	73045775	2	4	128	1	0	0	0	0	0	0	0	1	13308	697	25	2		2	RGNEF	5	73045775	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	16866380	73045775	107869485	305	70593											
COL4A3BP	10087	broad.mit.edu	37	chr5	74681788	74681788	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacttcatgtcctgtgacGcctttaactgcatgggtagc	8	12	10	11	1	1	2	1	1	0	1	2	2	2	2	2	1	3	2	2	1	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:74681788G>A	uc011csu.1	-	13	1778	c.1356C>T	c.(1354-1356)GGC>GGT	p.G452G	COL4A3BP_uc003kds.2_Silent_p.G426G|COL4A3BP_uc003kdt.2_Silent_p.G580G|COL4A3BP_uc003kdu.2_Silent_p.G452G	NM_005713	NP_005704	Q9Y5P4	C43BP_HUMAN	alpha 3 type IV collagen binding protein isoform	452	START.				ER to Golgi ceramide transport|immune response	cytosol|endoplasmic reticulum membrane|Golgi apparatus	ceramide binding|phosphatidylinositol-4-phosphate binding|protein binding|protein kinase activity			skin(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;1e-53)		GTCCTGTGACGCCTTTAACTG	0.333													11	23					0	0	0.008291	0	0		A	74681788	A	A	74681788	2	1	128	1	0	0	0	0	0	0	0	1	3695	1074	38	1		1	COL4A3BP	5	74681788	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1636013	74681788	106233472	306	70594											
CMYA5	202333	broad.mit.edu	37	chr5	79089347	79089347	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactgcccagcatatcgactCggcatctgctccagctcggc	7	8	10	16	3	1	0	0	0	1	0	5	2	2	0	2	2	4	4	2	2	1	1	rs148082008	by1000genomes	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:79089347C>T	uc003kgc.2	+	12	11949	c.11877C>T	c.(11875-11877)CTC>CTT	p.L3959L		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3959	B30.2/SPRY.					perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CATATCGACTCGGCATCTGCT	0.587													20	62					0	0	0.014323	0	0		T	79089347	T	T	79089347	2	4	128	1	0	0	0	0	0	0	0	1	3593	871	31	1		1	CMYA5	5	79089347	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4407559	79089347	101825913	307	70595											
ZFYVE16	9765	broad.mit.edu	37	chr5	79746297	79746297	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaccaatggattgcatggcTtgggacaggcagaaattatt	13	10	11	7	0	0	1	0	0	0	1	0	3	0	3	1	4	2	3	1	4	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:79746297T>C	uc003kgr.3	+	10	3576	c.3274T>C	c.(3274-3276)TTG>CTG	p.L1092L	ZFYVE16_uc003kgp.2_Silent_p.L1092L|ZFYVE16_uc003kgq.3_Silent_p.L1092L|ZFYVE16_uc003kgs.3_Silent_p.L1092L|ZFYVE16_uc003kgt.3_Silent_p.L180L	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	1092					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		ATTGCATGGCTTGGGACAGGC	0.308													44	116					0	0	0.013114	0	0		C	79746297	C	C	79746297	2	2	128	1	0	0	0	0	0	0	0	1	17689	1606	56	3		3	ZFYVE16	5	79746297	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	656950	79746297	101168963	308	70596											
RASGRF2	5924	broad.mit.edu	37	chr5	80256573	80256573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaccatgcagaagagcgtgCgctacaacgaggggcacgcc	11	3	14	13	4	0	2	0	0	0	2	0	3	0	2	2	2	5	4	2	2	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:80256573C>T	uc003kha.1	+	1	16	c.16C>T	c.(16-18)CGC>TGC	p.R6C	RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	6					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		GAAGAGCGTGCGCTACAACGA	0.711													7	15					0	0	0.00308	0	0		T	80256573	T	T	80256573	3	4	128	1	0	0	0	0	1	0	0	0	13098	768	27	1	18	1	RASGRF2	5	80256573	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	510276	80256573	100658687	309	70597											
HAPLN1	1404	broad.mit.edu	37	chr5	82940461	82940461	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagattgtagcgccccagtcGtggaaagtaagggaatacca	13	7	13	8	2	0	1	0	0	0	1	1	4	0	3	3	2	2	2	3	2	5	4	rs147329529	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:82940461G>A	uc003kim.2	-	3	567	c.496C>T	c.(496-498)CGA>TGA	p.R166*	HAPLN1_uc003kin.2_Nonsense_Mutation_p.R166*	NM_001884	NP_001875	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	166	Link 1.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)		CGCCCCAGTCGTGGAAAGTAA	0.532													15	45					0	0	0.003163	0	0		A	82940461	A	A	82940461	4	1	128	1	0	0	0	0	0	1	0	0	6970	1153	40	1	576	1	HAPLN1	5	82940461	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2683888	82940461	97974799	310	70598											
RASA1	5921	broad.mit.edu	37	chr5	86668007	86668007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacatccaataaacgccttCgtcaggtgaagcttaatttt	12	12	8	9	2	1	1	1	1	0	0	3	2	2	2	2	2	2	1	2	2	5	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:86668007C>T	uc003kiw.2	+	13	1889	c.1771C>T	c.(1771-1773)CGT>TGT	p.R591C	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Missense_Mutation_p.R414C|RASA1_uc011ctv.1_Missense_Mutation_p.R424C|RASA1_uc011ctw.1_Missense_Mutation_p.R425C|RASA1_uc010jaw.2_Missense_Mutation_p.R413C	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	591	C2.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		TAAACGCCTTCGTCAGGTGAA	0.353													19	87					0	0	0.004656	0	0		T	86668007	T	T	86668007	3	4	128	1	0	0	0	0	1	0	0	0	13085	884	31	1	1833	1	RASA1	5	86668007	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3727546	86668007	94247253	311	70599											
MEF2C	4208	broad.mit.edu	37	chr5	88025035	88025035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatgacaaagctactcacCggtaccatatgttgttgaaa	14	10	7	10	1	1	2	1	2	0	0	1	2	1	2	2	1	3	4	2	1	5	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:88025035C>T	uc003kjj.2	-	9	1637	c.964G>A	c.(964-966)GAG>AAG	p.E322K	MEF2C_uc003kji.2_Missense_Mutation_p.E314K|MEF2C_uc003kjk.2_Missense_Mutation_p.E322K|MEF2C_uc003kjm.2_Missense_Mutation_p.E312K|MEF2C_uc003kjl.2_Missense_Mutation_p.E332K	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	322					apoptosis|B cell proliferation|innate immune response|learning or memory|muscle cell differentiation|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|neuron development|positive regulation of muscle cell differentiation|positive regulation of survival gene product expression|positive regulation of transcription from RNA polymerase II promoter|regulation of germinal center formation|regulation of megakaryocyte differentiation|regulation of synaptic activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nuclear speck	activating transcription factor binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(3)|breast(2)|ovary(1)|large_intestine(1)	7		all_cancers(142;6.67e-05)|all_epithelial(76;7.77e-07)|Lung NSC(167;0.00566)|all_lung(232;0.00732)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;1.04e-33)|Epithelial(54;1.6e-28)|all cancers(79;2.9e-25)		AGCTACTCACCGGTACCATAT	0.378										HNSCC(66;0.2)			20	52					0	0	0.010504	0	0		T	88025035	T	T	88025035	3	4	128	1	0	0	0	0	1	0	0	0	9475	666	23	1	469	1	MEF2C	5	88025035	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1357028	88025035	92890225	312	70600											
RGMB	285704	broad.mit.edu	37	chr5	98115403	98115403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagttttgcaaggccttgCgtgcctatgctggctgcacc	5	12	12	12	1	0	1	0	1	0	0	0	1	0	1	3	2	5	5	3	2	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:98115403C>T	uc003knc.2	+	4	781	c.379C>T	c.(379-381)CGT>TGT	p.R127C	RGMB_uc003knb.2_Missense_Mutation_p.R127C	NM_001012761	NP_001012779	Q6NW40	RGMB_HUMAN	RGM domain family, member B	86					axon guidance|BMP signaling pathway|cell adhesion|positive regulation of transcription, DNA-dependent	anchored to plasma membrane|ER-Golgi intermediate compartment|membrane raft	identical protein binding				0		all_cancers(142;2.76e-08)|all_epithelial(76;2.98e-11)|all_lung(232;0.000485)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0587)		CAAGGCCTTGCGTGCCTATGC	0.542													8	232					0	0	0.00308	0	0		T	98115403	T	T	98115403	3	4	128	1	0	0	0	0	1	0	0	0	13306	768	27	1	389	1	RGMB	5	98115403	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	10090368	98115403	82799857	313	70601											
WDR36	134430	broad.mit.edu	37	chr5	110446870	110446870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcatttatcttgctagtGgcattctgggactcgccttg	5	15	12	9	1	2	0	0	0	2	0	3	1	2	1	1	3	2	3	1	3	2	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:110446870G>A	uc003kpd.2	+	15	1894	c.1777G>A	c.(1777-1779)GGC>AGC	p.G593S	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	593					response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		TCTTGCTAGTGGCATTCTGGG	0.388													87	360					0	0	0.01441	0	0		A	110446870	A	A	110446870	3	1	128	1	0	0	0	0	1	0	0	0	17316	1362	47	4	1835	4	WDR36	5	110446870	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	12331467	110446870	70468390	314	70602											
APC	324	broad.mit.edu	37	chr5	112175150	112175150	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcatcagctgaagatgaaAtaggatgtaatcagacgaca	16	9	10	6	1	3	4	3	2	0	2	3	6	3	5	0	1	1	2	0	1	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:112175150A>C	uc010jby.2	+	16	4239	c.3859A>C	c.(3859-3861)ATA>CTA	p.I1287L	APC_uc011cvt.1_Missense_Mutation_p.I1269L|APC_uc003kpz.3_Missense_Mutation_p.I1287L|APC_uc003kpy.3_Missense_Mutation_p.I1287L|APC_uc010jbz.2_Missense_Mutation_p.I1004L|APC_uc010jca.2_Missense_Mutation_p.I587L	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1287	Ser-rich.|Responsible for down-regulation through a process mediated by direct ubiquitination.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.I1287fs*1(2)|p.I1287fs*3(2)|p.I1287fs*18(1)|p.?(1)|p.I1287fs*4(1)|p.K1192fs*3(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGAAGATGAAATAGGATGTAA	0.348		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			23	57					0	0	0.016522	0	0		C	112175150	C	C	112175150	3	2	128	1	0	0	0	0	1	0	0	0	763	101	4	5	3917	5	APC	5	112175150	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	1728280	112175150	68740110	315	70603											
APC	324	broad.mit.edu	37	chr5	112176568	112176568	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctgcgtcttcttctgcAcccaacaaaaatcagttaga	12	11	6	12	1	5	1	1	0	4	1	5	1	5	1	1	0	3	3	1	0	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:112176568A>C	uc010jby.2	+	16	5657	c.5277A>C	c.(5275-5277)GCA>GCC	p.A1759A	APC_uc011cvt.1_Silent_p.A1741A|APC_uc003kpz.3_Silent_p.A1759A|APC_uc003kpy.3_Silent_p.A1759A|APC_uc010jbz.2_Silent_p.A1476A|APC_uc010jca.2_Silent_p.A1059A	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1759	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.K1192fs*3(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		CTTCTTCTGCACCCAACAAAA	0.388		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			27	74					0	0	0.021523	0	0		C	112176568	C	C	112176568	2	2	128	1	0	0	0	0	0	0	0	1	763	146	6	5		5	APC	5	112176568	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	1418	112176568	68738692	316	70604											
DCP2	167227	broad.mit.edu	37	chr5	112337338	112337338	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggattttcctcaactggtaGcacgccggctaaacccactg	9	10	9	13	2	1	0	1	0	0	0	2	1	2	1	3	3	3	3	3	3	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:112337338G>A	uc003kqh.2	+	7	971	c.773G>A	c.(772-774)AGC>AAC	p.S258N	DCP2_uc011cwa.1_Missense_Mutation_p.S47N|DCP2_uc010jcc.2_Missense_Mutation_p.S164N	NM_152624	NP_689837	Q8IU60	DCP2_HUMAN	DCP2 decapping enzyme	258					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasmic mRNA processing body|cytosol|nucleus|RNA-induced silencing complex	exoribonuclease activity, producing 5'-phosphomonoesters|manganese ion binding|protein binding|protein binding|RNA binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		OV - Ovarian serous cystadenocarcinoma(64;6.98e-08)|Epithelial(69;7.87e-08)|all cancers(49;1.06e-05)|COAD - Colon adenocarcinoma(37;0.0123)|Colorectal(14;0.0171)		TCAACTGGTAGCACGCCGGCT	0.373													5	405					0	0	0.001984	0	0		A	112337338	A	A	112337338	3	1	128	1	0	0	0	0	1	0	0	0	4303	971	34	2	799	2	DCP2	5	112337338	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	160770	112337338	68577922	317	70605											
ZNF474	133923	broad.mit.edu	37	chr5	121488178	121488178	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcagagtgcccaggctcagCtgctgccctgtgaatcctgt	6	11	11	13	0	2	2	2	1	0	1	3	2	3	2	3	1	4	3	3	1	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:121488178C>A	uc003ksv.2	+	2	869	c.493C>A	c.(493-495)CTG>ATG	p.L165M		NM_207317	NP_997200	Q6S9Z5	ZN474_HUMAN	zinc finger protein 474	165						intracellular	zinc ion binding				0		all_cancers(142;0.229)|Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000197)|Epithelial(69;0.00029)|all cancers(49;0.00415)		CCAGGCTCAGCTGCTGCCCTG	0.557													19	50					1.50039e-11	1.58893e-11	0.012319	1	0		A	121488178	A	A	121488178	3	1	128	1	0	0	0	0	1	0	0	0	17957	796	28	5	495	5	ZNF474	5	121488178	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	9150840	121488178	59427082	318	70606											
MEGF10	84466	broad.mit.edu	37	chr5	126776468	126776468	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatggaaaagattgtgcactGatatgccaatgtcaaaacgg	15	10	10	6	1	1	2	1	1	0	1	1	3	1	3	1	2	3	1	1	2	7	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:126776468G>A	uc003kuh.3	+	19	2633	c.2271G>A	c.(2269-2271)CTG>CTA	p.L757L	MEGF10_uc003kui.3_Silent_p.L757L	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	757	Extracellular (Potential).|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.|EGF-like 14.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		ATTGTGCACTGATATGCCAAT	0.512													32	167					0	0	0.006999	0	0		A	126776468	A	A	126776468	2	1	128	1	0	0	0	0	0	0	0	1	9478	1277	45	4		4	MEGF10	5	126776468	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5288290	126776468	54138792	319	70607											
SLC27A6	28965	broad.mit.edu	37	chr5	128359405	128359405	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtattcatgtgaaaaaaggTaagacttctatttgaagaca	16	13	8	4	0	2	4	1	2	1	2	2	4	2	4	0	1	0	2	0	1	7	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:128359405T>C	uc003kuy.2	+	7	1651	c.1255_splice	c.e7+2	p.G419_splice	SLC27A6_uc003kuz.2_Splice_Site_p.G419_splice	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid						long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		TGAAAAAAGGTAAGACTTCTA	0.274													11	46					0	0	0.016723	0	0		C	128359405	C	C	128359405	5	2	128	1	0	0	0	0	0	0	1	0	14555	1652	57	3	1279	3	SLC27A6	5	128359405	Splice_Site	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1582937	128359405	52555855	320	70608											
CHSY3	337876	broad.mit.edu	37	chr5	129241165	129241165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagcagccccccaacgccGgccagcccccgccacccctg	6	1	9	25	3	0	0	0	0	0	0	0	0	0	0	11	1	4	1	11	1	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:129241165G>A	uc003kvd.2	+	1	643	c.643G>A	c.(643-645)GGC>AGC	p.G215S		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	215	Lumenal (Potential).|Pro-rich.					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		CCCCAACGCCGGCCAGCCCCC	0.657													16	40					0	0	0.004007	0	0		A	129241165	A	A	129241165	3	1	128	1	0	0	0	0	1	0	0	0	3416	1116	39	1	645	1	CHSY3	5	129241165	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	881760	129241165	51674095	321	70609											
ACSL6	23305	broad.mit.edu	37	chr5	131305865	131305865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaggtacatccagctgtgCactcagtttggccataacct	10	11	9	11	0	1	1	1	1	0	0	2	1	2	1	3	2	4	4	3	2	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:131305865C>T	uc010jdo.1	-	15	1471	c.1388G>A	c.(1387-1389)TGC>TAC	p.C463Y	ACSL6_uc003kvv.1_RNA|ACSL6_uc003kvx.1_Missense_Mutation_p.C488Y|ACSL6_uc003kvy.1_Missense_Mutation_p.C488Y|ACSL6_uc003kwb.2_Missense_Mutation_p.C453Y|ACSL6_uc003kvz.1_Missense_Mutation_p.C388Y|ACSL6_uc003kwa.1_Missense_Mutation_p.C474Y|ACSL6_uc003kvw.1_Missense_Mutation_p.C109Y|ACSL6_uc010jdn.1_Missense_Mutation_p.C478Y	NM_015256	NP_056071	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6	463	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCCAGCTGTGCACTCAGTTTG	0.527													46	166					0	0	0.01441	0	0		T	131305865	T	T	131305865	3	4	128	1	0	0	0	0	1	0	0	0	181	710	25	2	733	2	ACSL6	5	131305865	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2064700	131305865	49609395	322	70610											
ACSL6	23305	broad.mit.edu	37	chr5	131329888	131329888	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcacctagctcaggcagtcGcagtatcctcaggatctcct	8	10	9	14	1	4	0	3	0	1	0	7	1	5	1	3	2	1	4	3	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:131329888G>A	uc010jdo.1	-	2	114	c.31C>T	c.(31-33)CGA>TGA	p.R11*	ACSL6_uc003kvv.1_RNA|ACSL6_uc003kvx.1_Nonsense_Mutation_p.R36*|ACSL6_uc003kvy.1_Nonsense_Mutation_p.R36*|ACSL6_uc003kwb.2_Nonsense_Mutation_p.R36*|ACSL6_uc003kvz.1_Nonsense_Mutation_p.R11*|ACSL6_uc003kwa.1_Nonsense_Mutation_p.R22*|ACSL6_uc003kwc.1_Nonsense_Mutation_p.R11*|ACSL6_uc003kwd.1_Nonsense_Mutation_p.R11*|ACSL6_uc010jdn.1_Nonsense_Mutation_p.R11*	NM_015256	NP_056071	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6	11					fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCAGGCAGTCGCAGTATCCTC	0.542													19	40					0	0	0.010504	0	0		A	131329888	A	A	131329888	4	1	128	1	0	0	0	0	0	1	0	0	181	1095	38	1	2224	1	ACSL6	5	131329888	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	24023	131329888	49585372	323	70611											
RAD50	10111	broad.mit.edu	37	chr5	131911487	131911487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttgctcaagaaacagatGtgagagcccagattcgtctg	12	9	12	8	1	2	4	1	1	1	4	3	5	2	4	1	1	3	2	1	1	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:131911487G>A	uc003kxi.2	+	3	619	c.232G>A	c.(232-234)GTG>ATG	p.V78M	RAD50_uc003kxg.1_Translation_Start_Site|RAD50_uc003kxh.2_Translation_Start_Site	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	78					DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGAAACAGATGTGAGAGCCCA	0.373								Homologous_recombination					18	97					0	0	0.008871	0	0		A	131911487	A	A	131911487	3	1	128	1	0	0	0	0	1	0	0	0	13009	1377	48	4	242	4	RAD50	5	131911487	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	581599	131911487	49003773	324	70612											
AFF4	27125	broad.mit.edu	37	chr5	132270345	132270345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgccactactgctacctgCgctggtccgctggctactat	6	11	10	14	2	0	0	0	0	0	0	1	0	1	0	3	2	6	4	3	2	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:132270345C>T	uc003kyd.2	-	3	820	c.412G>A	c.(412-414)GCA>ACA	p.A138T	AFF4_uc011cxk.1_5'UTR|AFF4_uc003kye.1_Missense_Mutation_p.A138T|AFF4_uc003kyf.3_Missense_Mutation_p.A138T	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	138	Ser-rich.				transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CTGCTACCTGCGCTGGTCCGC	0.537													43	106					0	0	0.01441	0	0		T	132270345	T	T	132270345	3	4	128	1	0	0	0	0	1	0	0	0	359	768	27	1	3155	1	AFF4	5	132270345	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	358858	132270345	48644915	325	70613											
CATSPER3	347732	broad.mit.edu	37	chr5	134305722	134305722	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcactgtcacatcgaatgcGttttttatggccttgtggac	8	14	10	9	2	1	0	1	0	0	0	2	2	1	1	1	2	2	2	1	2	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:134305722G>A	uc003lag.2	+	2	260	c.192G>A	c.(190-192)GCG>GCA	p.A64A		NM_178019	NP_821138	Q86XQ3	CTSR3_HUMAN	cation channel, sperm associated 3	64	Helical; Name=Segment S1; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CATCGAATGCGTTTTTTATGG	0.388													80	239					0	0	0.01441	0	0		A	134305722	A	A	134305722	2	1	128	1	0	0	0	0	0	0	0	1	2692	1132	40	1		1	CATSPER3	5	134305722	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2035377	134305722	46609538	326	70614											
CATSPER3	347732	broad.mit.edu	37	chr5	134346089	134346089	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgactgcacaagtttcagTgagctggtggagaactttaa	11	11	12	7	0	1	3	1	2	0	1	1	4	1	3	0	2	3	4	0	2	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:134346089T>C	uc003lag.2	+	7	1031	c.963T>C	c.(961-963)AGT>AGC	p.S321S		NM_178019	NP_821138	Q86XQ3	CTSR3_HUMAN	cation channel, sperm associated 3	321					cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CAAGTTTCAGTGAGCTGGTGG	0.468													31	114					0	0	0.009535	0	0		C	134346089	C	C	134346089	2	2	128	1	0	0	0	0	0	0	0	1	2692	1693	59	3		3	CATSPER3	5	134346089	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	40367	134346089	46569171	327	70615											
EGR1	1958	broad.mit.edu	37	chr5	137803102	137803102	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcaaacccagccgcatgCgcaagtaccccaaccggccc	11	4	7	19	3	2	0	2	0	0	0	2	0	2	0	6	1	5	3	6	1	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:137803102C>T	uc003ldb.1	+	2	1234	c.964C>T	c.(964-966)CGC>TGC	p.R322C	EGR1_uc011cyu.1_Intron	NM_001964	NP_001955	P18146	EGR1_HUMAN	early growth response 1	322					cellular response to heparin|cellular response to mycophenolic acid|glomerular mesangial cell proliferation|interleukin-1-mediated signaling pathway|positive regulation of glomerular metanephric mesangial cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of protein sumoylation|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytoplasm|nucleus	histone acetyltransferase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CAGCCGCATGCGCAAGTACCC	0.617													58	173					0	0	0.01441	0	0		T	137803102	T	T	137803102	3	4	128	1	0	0	0	0	1	0	0	0	4977	768	27	1	970	1	EGR1	5	137803102	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3457013	137803102	43112158	328	70616											
SIL1	64374	broad.mit.edu	37	chr5	138287504	138287504	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcagtgagcggctgctcCgtggccaggatgaccagcag	7	8	15	11	2	0	2	0	2	0	0	1	3	1	3	3	3	4	4	3	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:138287504C>T	uc003ldm.2	-	7	854	c.837G>A	c.(835-837)ACG>ACA	p.T279T	SIL1_uc003ldn.2_Silent_p.T278T|SIL1_uc003ldo.2_Silent_p.T279T|SIL1_uc003ldp.2_Silent_p.T279T|SIL1_uc003ldq.1_Silent_p.T72T	NM_022464	NP_071909	Q9H173	SIL1_HUMAN	SIL1 protein precursor	279					intracellular protein transport|protein folding|transmembrane transport	endoplasmic reticulum lumen	unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GCGGCTGCTCCGTGGCCAGGA	0.607									Marinesco-Sj_gren_syndrome				21	101					0	0	0.008361	0	0		T	138287504	T	T	138287504	2	4	128	1	0	0	0	0	0	0	0	1	14346	639	23	1		1	SIL1	5	138287504	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	484402	138287504	42627756	329	70617											
CXXC5	51523	broad.mit.edu	37	chr5	139060917	139060917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcatgtgcgcgccctgccGgcggcgcatcaactgcgagc	5	5	15	16	7	1	0	1	0	0	0	1	1	1	0	2	3	5	2	2	3	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:139060917G>A	uc010jfg.1	+	2	1099	c.809G>A	c.(808-810)CGG>CAG	p.R270Q	CXXC5_uc003let.2_Missense_Mutation_p.R270Q	NM_016463	NP_057547	Q7LFL8	CXXC5_HUMAN	CXXC finger 5	270	CXXC-type.				positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|nucleus	DNA binding|signal transducer activity|zinc ion binding			central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGCCCTGCCGGCGGCGCATC	0.572													50	155					0	0	0.01441	0	0		A	139060917	A	A	139060917	3	1	128	1	0	0	0	0	1	0	0	0	4102	1116	39	1	811	1	CXXC5	5	139060917	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	773413	139060917	41854343	330	70618											
PCDHA5	56143	broad.mit.edu	37	chr5	140202504	140202504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgtgactcaggtgccaacGggcaggtgacctgctcccta	8	7	12	14	2	1	2	1	2	0	0	2	2	2	2	4	3	3	2	4	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140202504G>A	uc003lhl.2	+	1	1144	c.1144G>A	c.(1144-1146)GGG>AGG	p.G382R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.G382R|PCDHA5_uc003lhj.1_Missense_Mutation_p.G382R	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	382	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGTGCCAACGGGCAGGTGAC	0.577													50	176					0	0	0.01441	0	0		A	140202504	A	A	140202504	3	1	128	1	0	0	0	0	1	0	0	0	11546	1116	39	1	1146	1	PCDHA5	5	140202504	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1141587	140202504	40712756	331	70619											
PCDHA8	56140	broad.mit.edu	37	chr5	140221143	140221143	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccttctggaggtaagtctGcagaatggcattttgtttgt	8	15	12	6	0	2	1	0	0	2	1	2	3	2	2	1	3	1	4	1	3	2	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140221143G>A	uc003lhs.2	+	1	237	c.237G>A	c.(235-237)CTG>CTA	p.L79L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.L79L	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	79	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGTAAGTCTGCAGAATGGCA	0.642													8	340					0	0	0.008291	0	0		A	140221143	A	A	140221143	2	1	128	1	0	0	0	0	0	0	0	1	11549	1306	46	2		2	PCDHA8	5	140221143	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	18639	140221143	40694117	332	70620											
PCDHAC2	56134	broad.mit.edu	37	chr5	140346615	140346615	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtgcgcccagtccgcgCtacctggagctggacctgac	5	7	14	15	3	0	1	0	1	0	0	1	3	1	3	4	3	3	2	4	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140346615C>T	uc003lii.2	+	1	504	c.264C>T	c.(262-264)CGC>CGT	p.R88R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Silent_p.R88R	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	88	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGTCCGCGCTACCTGGAGC	0.687													4	58					0	0	0.009096	0	0		T	140346615	T	T	140346615	2	4	128	1	0	0	0	0	0	0	0	1	11552	784	28	2		2	PCDHAC2	5	140346615	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	125472	140346615	40568645	333	70621											
PCDHB8	56128	broad.mit.edu	37	chr5	140558711	140558711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaatgcgcctgaaactgtgGttgcacttttcagtgtttca	9	14	10	8	1	2	2	2	1	0	1	2	2	2	2	1	1	3	3	1	1	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140558711G>A	uc011dai.1	+	1	1282	c.1096G>A	c.(1096-1098)GTT>ATT	p.V366I	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	366	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGAAACTGTGGTTGCACTTTT	0.458													68	794					0	0	0.01441	0	0		A	140558711	A	A	140558711	3	1	128	1	0	0	0	0	1	0	0	0	11567	1261	44	4	1098	4	PCDHB8	5	140558711	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	212096	140558711	40356549	334	70622											
PCDHB16	57717	broad.mit.edu	37	chr5	140564305	140564305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggcggcctcggtgggccGctgctcgatgcctgagggcc	3	6	18	14	4	0	1	0	1	0	0	2	2	0	1	4	5	2	2	4	5	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140564305G>A	uc003liv.2	+	1	3326	c.2171G>A	c.(2170-2172)CGC>CAC	p.R724H	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	724	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGGTGGGCCGCTGCTCGATG	0.662													66	198					0	0	0.01441	0	0		A	140564305	A	A	140564305	3	1	128	1	0	0	0	0	1	0	0	0	11560	1087	38	1	2173	1	PCDHB16	5	140564305	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5594	140564305	40350955	335	70623											
PCDHB9	56127	broad.mit.edu	37	chr5	140569020	140569020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggtgctcctgttcgtggCggtgcggctgtgcaggagga	3	10	18	10	4	0	0	0	0	0	0	3	2	1	2	1	6	3	4	1	6	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140569020C>T	uc003liw.1	+	3	2129	c.2129C>T	c.(2128-2130)GCG>GTG	p.A710V	PCDHB10_uc003lix.2_5'Flank	NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	710	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGTTCGTGGCGGTGCGGCTG	0.701													5	170					0	0	0.003163	0	0		T	140569020	T	T	140569020	3	4	128	1	0	0	0	0	1	0	0	0	11568	759	27	1	2130	1	PCDHB9	5	140569020	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4715	140569020	40346240	336	70624											
PCDHB10	56126	broad.mit.edu	37	chr5	140574260	140574260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggtgctcctgttcgtggCggtgcggctgtgcaggagga	3	10	18	10	4	0	0	0	0	0	0	3	2	1	2	1	6	3	4	1	6	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140574260C>T	uc003lix.2	+	1	2309	c.2135C>T	c.(2134-2136)GCG>GTG	p.A712V		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	712	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGTTCGTGGCGGTGCGGCTG	0.692													20	119					0	0	0.021022	0	0		T	140574260	T	T	140574260	3	4	128	1	0	0	0	0	1	0	0	0	11554	768	27	1	2137	1	PCDHB10	5	140574260	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5240	140574260	40341000	337	70625											
SLC25A2	83884	broad.mit.edu	37	chr5	140683317	140683317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtacaggtcagggaacGtctgcatcttcacttttatt	8	15	8	10	1	4	0	2	0	2	0	4	1	4	1	1	2	3	2	1	2	3	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140683317G>A	uc003ljf.2	-	1	296	c.116C>T	c.(115-117)ACG>ATG	p.T39M		NM_031947	NP_114153	Q9BXI2	ORNT2_HUMAN	solute carrier family 25 member 2	39	Solcar 1.				mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity	p.T39M(1)		ovary(1)	1		all_lung(500;0.000249)|Lung NSC(810;0.0011)|Ovarian(839;0.00556)|Breast(839;0.0173)|all_hematologic(541;0.152)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.00204)	L-Ornithine(DB00129)	GTCAGGGAACGTCTGCATCTT	0.612													11	142					0	0	0.013537	0	0		A	140683317	A	A	140683317	3	1	128	1	0	0	0	0	1	0	0	0	14507	1145	40	1	793	1	SLC25A2	5	140683317	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	109057	140683317	40231943	338	70626											
PCDHGA1	56114	broad.mit.edu	37	chr5	140712162	140712162	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctgctggacagagacgcGctcaagcagagtctcgtggt	8	7	14	12	3	2	2	1	0	1	2	3	4	2	3	1	2	2	3	1	2	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140712162G>A	uc003lji.1	+	1	1911	c.1911G>A	c.(1909-1911)GCG>GCA	p.A637A	PCDHGA1_uc011dan.1_Silent_p.A637A	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	637	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.A637A(1)		ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAGAGACGCGCTCAAGCAGA	0.697													10	110					0	0	0.008871	0	0		A	140712162	A	A	140712162	2	1	128	1	0	0	0	0	0	0	0	1	11569	1074	38	1		1	PCDHGA1	5	140712162	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	28845	140712162	40203098	339	70627											
PCDHGA5	56110	broad.mit.edu	37	chr5	140745766	140745766	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgcggttgggctgcacacGggcgaggtgcgcacagcgcg	5	7	18	11	6	0	0	0	0	0	0	0	1	0	0	0	4	4	4	0	4	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140745766G>A	uc003lju.1	+	1	1869	c.1869G>A	c.(1867-1869)ACG>ACA	p.T623T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Silent_p.T623T	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	623	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCTGCACACGGGCGAGGTGC	0.652													40	156					0	0	0.007835	0	0		A	140745766	A	A	140745766	2	1	128	1	0	0	0	0	0	0	0	1	11576	1103	39	1		1	PCDHGA5	5	140745766	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	33604	140745766	40169494	340	70628											
PCDHGB5	56101	broad.mit.edu	37	chr5	140779369	140779369	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgacaacgcaccgcgggtgCtgtaccccgcgctgggtccc	6	5	13	17	6	0	0	0	0	0	0	1	1	1	0	4	2	3	4	4	2	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140779369C>T	uc003lkf.1	+	1	1675	c.1675C>T	c.(1675-1677)CTG>TTG	p.L559L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Silent_p.L559L	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	559	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCGCGGGTGCTGTACCCCGC	0.687													11	43					0	0	0.003163	0	0		T	140779369	T	T	140779369	2	4	128	1	0	0	0	0	0	0	0	1	11585	796	28	2		2	PCDHGB5	5	140779369	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	33603	140779369	40135891	341	70629											
PCDHGA10	56106	broad.mit.edu	37	chr5	140792807	140792807	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgggctggtcctgctctgccTtttcttcgggattccatggg	2	14	13	12	2	2	0	0	0	2	0	5	1	4	1	3	4	2	2	3	4	0	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140792807T>A	uc003lkl.1	+	1	65	c.65T>A	c.(64-66)CTT>CAT	p.L22H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.L22H	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	22					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCTCTGCCTTTTCTTCGGG	0.512											OREG0016862	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	85					0	0	0.009535	0	0		A	140792807	A	A	140792807	3	1	128	1	0	0	0	0	1	0	0	0	11570	1609	56	5	67	5	PCDHGA10	5	140792807	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	13438	140792807	40122453	342	70630											
PCDHGA10	56106	broad.mit.edu	37	chr5	140794633	140794633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagcacacgggcgaggtgCgcacggcgcgagccctgctg	6	3	19	13	6	0	0	0	0	0	0	0	3	0	1	1	4	4	3	1	4	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:140794633C>T	uc003lkl.1	+	1	1891	c.1891C>T	c.(1891-1893)CGC>TGC	p.R631C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.R631C|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	631	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCGAGGTGCGCACGGCGCG	0.692													26	138					0	0	0.005443	0	0		T	140794633	T	T	140794633	3	4	128	1	0	0	0	0	1	0	0	0	11570	768	27	1	1893	1	PCDHGA10	5	140794633	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1826	140794633	40120627	343	70631											
PCDH1	5097	broad.mit.edu	37	chr5	141243184	141243184	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgtttcccttggaggcCttgccactgggcttgggggc	2	14	14	11	0	0	0	0	0	0	0	1	1	1	1	3	5	1	2	3	5	0	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:141243184C>A	uc003llq.2	-	3	2829	c.2712G>T	c.(2710-2712)AAG>AAT	p.K904N	PCDH1_uc003llp.2_Missense_Mutation_p.K904N|PCDH1_uc011dbf.1_Missense_Mutation_p.K882N	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	904	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		CCTTGGAGGCCTTGCCACTGG	0.582													77	219					1.71382e-40	1.90138e-40	0.01441	1	0		A	141243184	A	A	141243184	3	1	128	1	0	0	0	0	1	0	0	0	11525	680	24	5	1097	5	PCDH1	5	141243184	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	448551	141243184	39672076	344	70632											
ARHGAP26	23092	broad.mit.edu	37	chr5	142273906	142273906	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaagatgtttgagtttgTggagcctgtaagtagatatt	12	14	13	2	0	0	4	0	1	0	3	0	6	0	5	1	1	1	4	1	1	4	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:142273906T>G	uc011dbj.1	+	6	625	c.590T>G	c.(589-591)GTG>GGG	p.V197G	ARHGAP26_uc003lmt.2_Missense_Mutation_p.V197G|ARHGAP26_uc003lmw.2_Missense_Mutation_p.V197G	NM_015071	NP_055886	Q9UNA1	RHG26_HUMAN	GTPase regulator associated with the focal	197					actin cytoskeleton organization|filopodium assembly|nervous system development|small GTPase mediated signal transduction	cytoskeleton|cytosol|focal adhesion	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(1)	1		all_hematologic(541;0.0416)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTTGAGTTTGTGGAGCCTGTA	0.408													15	47					0	0	0.00499	0	0		G	142273906	G	G	142273906	3	3	128	1	0	0	0	0	1	0	0	0	875	1696	59	5	612	5	ARHGAP26	5	142273906	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1030722	142273906	38641354	345	70633											
ARHGEF37	389337	broad.mit.edu	37	chr5	149011746	149011746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctgtggggctggagtctgCcctcttagggtaccctcttt	3	15	12	11	0	4	0	0	0	4	0	4	1	4	1	2	4	2	2	2	4	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:149011746C>T	uc003lra.1	+	13	2084	c.2020C>T	c.(2020-2022)CCC>TCC	p.P674S		NM_001001669	NP_001001669	A1IGU5	ARH37_HUMAN	hypothetical protein LOC389337	674					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0						CTGGAGTCTGCCCTCTTAGGG	0.577													3	70					0	0	0.009096	0	0		T	149011746	T	T	149011746	3	4	128	1	0	0	0	0	1	0	0	0	906	739	26	2	2066	2	ARHGEF37	5	149011746	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	6737840	149011746	31903514	346	70634											
PDGFRB	5159	broad.mit.edu	37	chr5	149498404	149498404	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttcccagcacttctgcAtgatctcatagctggggata	8	13	8	12	0	3	1	1	1	3	0	6	2	4	2	1	2	3	3	1	2	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:149498404A>G	uc003lro.2	-	21	3279	c.2810T>C	c.(2809-2811)ATG>ACG	p.M937T	PDGFRB_uc010jhd.2_Missense_Mutation_p.M776T	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	937	Cytoplasmic (Potential).|Protein kinase.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	GCACTTCTGCATGATCTCATA	0.582			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								16	121					0	0	0.003163	0	0		G	149498404	G	G	149498404	3	3	128	1	0	0	0	0	1	0	0	0	11681	217	8	3	522	3	PDGFRB	5	149498404	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	486658	149498404	31416856	347	70635											
CAMK2A	815	broad.mit.edu	37	chr5	149602647	149602647	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggtctcctccgactgggcGgtgcgtgggatgccgccagc	3	7	17	14	5	1	0	0	0	1	0	3	2	2	1	4	4	3	0	4	4	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:149602647G>A	uc003lru.2	-	17	1553	c.1338C>T	c.(1336-1338)ACC>ACT	p.T446T	CAMK2A_uc003lrs.2_Silent_p.T157T|CAMK2A_uc003lrt.2_Silent_p.T457T	NM_171825	NP_741960	Q9UQM7	KCC2A_HUMAN	calcium/calmodulin-dependent protein kinase II	446					interferon-gamma-mediated signaling pathway|positive regulation of NF-kappaB transcription factor activity|synaptic transmission	cell junction|cytosol|endocytic vesicle membrane|nucleoplasm|presynaptic membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)	1		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCGACTGGGCGGTGCGTGGGA	0.647													35	104					0	0	0.00623	0	0		A	149602647	A	A	149602647	2	1	128	1	0	0	0	0	0	0	0	1	2602	1103	39	1		1	CAMK2A	5	149602647	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	104243	149602647	31312613	348	70636											
FAT2	2196	broad.mit.edu	37	chr5	150946634	150946634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgataaaagggcgtttgaggGatatcactccggagaaatga	14	9	13	5	2	1	4	1	3	0	1	2	6	2	5	1	3	0	1	1	3	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:150946634G>A	uc003lue.3	-	1	1872	c.1859C>T	c.(1858-1860)TCC>TTC	p.S620F	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.S620F	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	620	Extracellular (Potential).|Cadherin 5.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCGTTTGAGGGATATCACTCC	0.418													33	129					0	0	0.012213	0	0		A	150946634	A	A	150946634	3	1	128	1	0	0	0	0	1	0	0	0	5704	1174	41	4	11282	4	FAT2	5	150946634	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1343987	150946634	29968626	349	70637											
HAVCR1	26762	broad.mit.edu	37	chr5	156482260	156482260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcatgtcattgaaccaccCacggtgctcaacacggcaac	11	9	7	14	2	3	1	3	1	0	0	3	1	3	1	2	2	4	2	2	2	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:156482260C>T	uc010jij.1	-	3	516	c.331G>A	c.(331-333)GGG>AGG	p.G111R	HAVCR1_uc011ddl.1_5'Flank|HAVCR1_uc003lwi.2_Missense_Mutation_p.G111R|HAVCR1_uc011ddm.1_Missense_Mutation_p.G111R	NM_001099414	NP_001092884	Q96D42	HAVR1_HUMAN	hepatitis A virus cellular receptor 1	111	Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms	integral to membrane	receptor activity			ovary(1)|skin(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TTGAACCACCCACGGTGCTCA	0.408													37	111					0	0	0.005524	0	0		T	156482260	T	T	156482260	3	4	128	1	0	0	0	0	1	0	0	0	6989	594	21	4	791	4	HAVCR1	5	156482260	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5535626	156482260	24433000	350	70638											
CYFIP2	26999	broad.mit.edu	37	chr5	156747709	156747709	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgactgggagggagggCgagagccccctaatgaccca	9	6	15	11	1	1	3	0	2	1	1	1	6	1	5	3	3	1	0	3	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:156747709C>T	uc003lwq.2	+	17	1708	c.1570C>T	c.(1570-1572)CGA>TGA	p.R524*	CYFIP2_uc011ddn.1_Nonsense_Mutation_p.R498*|CYFIP2_uc011ddo.1_Nonsense_Mutation_p.R328*|CYFIP2_uc003lwr.2_Nonsense_Mutation_p.R524*|CYFIP2_uc003lws.2_Nonsense_Mutation_p.R524*|CYFIP2_uc003lwt.2_Nonsense_Mutation_p.R402*|CYFIP2_uc011ddp.1_Nonsense_Mutation_p.R258*	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	524					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GGAGGGAGGGCGAGAGCCCCC	0.557													6	51					0	0	0.001984	0	0		T	156747709	T	T	156747709	4	4	128	1	0	0	0	0	0	1	0	0	4141	760	27	1	1624	1	CYFIP2	5	156747709	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	265449	156747709	24167551	351	70639											
PWWP2A	114825	broad.mit.edu	37	chr5	159520917	159520917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaagctcagctcgggatgcGggacaggagaagggtcatcg	10	5	16	10	3	2	1	2	0	0	1	4	4	2	3	1	4	3	2	1	4	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:159520917G>A	uc011ded.1	-	2	797	c.740C>T	c.(739-741)CCG>CTG	p.P247L	PWWP2A_uc003lxv.3_Missense_Mutation_p.P247L|PWWP2A_uc011dec.1_Missense_Mutation_p.P247L	NM_001130864	NP_001124336	Q96N64	PWP2A_HUMAN	PWWP domain containing 2A isoform b	247	Pro-rich.										0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTCGGGATGCGGGACAGGAGA	0.517													25	128					0	0	0.016522	0	0		A	159520917	A	A	159520917	3	1	128	1	0	0	0	0	1	0	0	0	12870	1116	39	1	1673	1	PWWP2A	5	159520917	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2773208	159520917	21394343	352	70640											
CCNJL	79616	broad.mit.edu	37	chr5	159680793	159680793	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctacggcatccttgaggacGttgtcatacactctgaaacg	10	10	10	11	3	2	2	1	2	1	0	3	3	3	3	1	2	3	3	1	2	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:159680793G>A	uc003lyb.1	-	7	1152	c.900C>T	c.(898-900)AAC>AAT	p.N300N	CCNJL_uc011dee.1_Silent_p.N252N|CCNJL_uc003lyc.1_RNA	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	300						nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCTTGAGGACGTTGTCATACA	0.582													16	53					0	0	0.00499	0	0		A	159680793	A	A	159680793	2	1	128	1	0	0	0	0	0	0	0	1	2932	1136	40	1		1	CCNJL	5	159680793	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	159876	159680793	21234467	353	70641											
WWC1	23286	broad.mit.edu	37	chr5	167835607	167835607	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggagagttcgagtttcccGctaccgaaacagtacctgga	10	9	11	11	3	0	1	0	0	0	1	2	5	1	2	3	2	3	4	3	2	3	4	rs140218628	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:167835607G>A	uc003lzu.2	+	7	909	c.816G>A	c.(814-816)CCG>CCA	p.P272P	WWC1_uc003lzv.2_Silent_p.P272P|WWC1_uc011den.1_Silent_p.P272P|WWC1_uc003lzw.2_Silent_p.P71P	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	272					cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		CGAGTTTCCCGCTACCGAAAC	0.592													71	235					0	0	0.01441	0	0		A	167835607	A	A	167835607	2	1	128	1	0	0	0	0	0	0	0	1	17437	1074	38	1		1	WWC1	5	167835607	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	8154814	167835607	13079653	354	70642											
GPRIN1	114787	broad.mit.edu	37	chr5	176024847	176024847	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttctctgaggcctgtggTgtctcctttttcaaacacac	7	14	7	13	0	3	1	1	1	2	0	5	1	3	1	3	2	1	0	3	2	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:176024847T>C	uc003meo.1	-	2	2164	c.1989A>G	c.(1987-1989)ACA>ACG	p.T663T		NM_052899	NP_443131	Q7Z2K8	GRIN1_HUMAN	G protein-regulated inducer of neurite outgrowth	663						growth cone|plasma membrane				ovary(2)	2	all_cancers(89;0.00263)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGGCCTGTGGTGTCTCCTTTT	0.597													23	52					0	0	0.014323	0	0		C	176024847	C	C	176024847	2	2	128	1	0	0	0	0	0	0	0	1	6745	1683	59	3		3	GPRIN1	5	176024847	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	8189240	176024847	4890413	355	70643											
GPRIN1	114787	broad.mit.edu	37	chr5	176025084	176025084	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccttccccgagggcacCgggactgtttttcctggagt	5	11	11	14	2	0	0	0	0	0	0	3	3	3	2	6	3	0	2	6	3	0	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:176025084C>T	uc003meo.1	-	2	1927	c.1752G>A	c.(1750-1752)CCG>CCA	p.P584P		NM_052899	NP_443131	Q7Z2K8	GRIN1_HUMAN	G protein-regulated inducer of neurite outgrowth	584						growth cone|plasma membrane				ovary(2)	2	all_cancers(89;0.00263)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCGAGGGCACCGGGACTGTTT	0.562													40	124					0	0	0.007835	0	0		T	176025084	T	T	176025084	2	4	128	1	0	0	0	0	0	0	0	1	6745	639	23	1		1	GPRIN1	5	176025084	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	237	176025084	4890176	356	70644											
LMAN2	10960	broad.mit.edu	37	chr5	176765576	176765576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtggactttgaagtggaCgtgcatttcccagtctttga	7	13	12	9	2	1	2	0	2	1	0	2	4	2	4	2	2	1	1	2	2	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:176765576C>T	uc003mge.2	-	3	583	c.346G>A	c.(346-348)GTC>ATC	p.V116I	LMAN2_uc003mgd.2_Missense_Mutation_p.V116I	NM_006816	NP_006807	Q12907	LMAN2_HUMAN	lectin, mannose-binding 2 precursor	116	Lumenal (Potential).|L-type lectin-like.				protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	metal ion binding|sugar binding				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TTGAAGTGGACGTGCATTTCC	0.617													80	322					0	0	0.01441	0	0		T	176765576	T	T	176765576	3	4	128	1	0	0	0	0	1	0	0	0	8855	536	19	1	748	1	LMAN2	5	176765576	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	740492	176765576	4149684	357	70645											
TRIM7	81786	broad.mit.edu	37	chr5	180622450	180622450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcaggccctttcggcgcaCgctctcgcgggccacgccaa	5	6	12	18	7	2	0	1	0	1	0	4	0	2	0	3	3	0	2	3	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr5:180622450C>T	uc003mmz.1	-	7	1319	c.1252G>A	c.(1252-1254)GTG>ATG	p.V418M	TRIM7_uc003mmv.1_Missense_Mutation_p.V236M|TRIM7_uc003mmw.1_Missense_Mutation_p.V210M|TRIM7_uc003mmx.1_Missense_Mutation_p.V210M|TRIM7_uc003mmy.1_Missense_Mutation_p.V210M	NM_203293	NP_976038	Q9C029	TRIM7_HUMAN	tripartite motif-containing 7 isoform 1	418	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;6.03e-06)|all_epithelial(37;7.1e-07)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000172)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;2e-06)|Epithelial(171;1.35e-05)|OV - Ovarian serous cystadenocarcinoma(192;0.000128)|Kidney(146;0.0674)|GBM - Glioblastoma multiforme(465;0.0802)		TTTCGGCGCACGCTCTCGCGG	0.721													12	15					0	0	0.013537	0	0		T	180622450	T	T	180622450	3	4	128	1	0	0	0	0	1	0	0	0	16569	536	19	1	287	1	TRIM7	5	180622450	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3856874	180622450	292810	358	70646											
EXOC2	55770	broad.mit.edu	37	chr6	599180	599180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatctgccttgtctttcCgacctaatacttcttgaaac	9	15	6	11	1	3	1	0	1	3	0	4	3	4	2	3	1	3	0	3	1	4	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:599180C>T	uc003mtd.2	-	8	922	c.788G>A	c.(787-789)CGG>CAG	p.R263Q	EXOC2_uc003mte.2_Missense_Mutation_p.R263Q|EXOC2_uc011dho.1_Intron	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	263					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		CTTGTCTTTCCGACCTAATAC	0.338													80	227					0	0	0.01441	0	0		T	599180	T	T	599180	3	4	128	1	0	0	0	0	1	0	0	0	5310	652	23	1	2070	1	EXOC2	6	599180	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08		599180	170515887	359	70647											
SYCP2L	221711	broad.mit.edu	37	chr6	10902994	10902994	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcatttgcttcaacaggAggtgagttgcaagtaacaaa	16	10	9	6	0	2	1	2	1	0	0	2	2	2	2	0	2	4	4	0	2	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:10902994A>T	uc003mzo.2	+	7	847	c.551A>T	c.(550-552)GAG>GTG	p.E184V	SYCP2L_uc011din.1_Missense_Mutation_p.E25V|SYCP2L_uc010jow.2_5'UTR	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	184						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			CTTCAACAGGAGGTGAGTTGC	0.373													19	63					0	0	0.007413	0	0		T	10902994	T	T	10902994	3	4	128	1	0	0	0	0	1	0	0	0	15458	318	11	5	577	5	SYCP2L	6	10902994	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	10303814	10902994	160212073	360	70648											
GFOD1	54438	broad.mit.edu	37	chr6	13365583	13365583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccttgacggccttttggcCggtgaggaaggtgagcaggt	7	9	17	8	2	0	3	0	3	0	0	0	5	0	4	3	6	1	1	3	6	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:13365583C>T	uc003nat.1	-	2	1230	c.565G>A	c.(565-567)GGC>AGC	p.G189S	GFOD1_uc003nas.1_Missense_Mutation_p.G86S	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	189						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			GCCTTTTGGCCGGTGAGGAAG	0.602													18	50					0	0	0.006122	0	0		T	13365583	T	T	13365583	3	4	128	1	0	0	0	0	1	0	0	0	6358	652	23	1	611	1	GFOD1	6	13365583	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2462589	13365583	157749484	361	70649											
JARID2	3720	broad.mit.edu	37	chr6	15497312	15497312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacatccacaagctgggccGgcgctggggccccaacgtgc	7	4	14	16	3	0	0	0	0	0	0	1	0	1	0	4	4	3	3	4	4	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:15497312G>A	uc003nbj.2	+	7	2100	c.1856G>A	c.(1855-1857)CGG>CAG	p.R619Q	JARID2_uc011diu.1_Missense_Mutation_p.R483Q|JARID2_uc011div.1_Missense_Mutation_p.R447Q|JARID2_uc011diw.1_Missense_Mutation_p.R581Q	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	619					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				AAGCTGGGCCGGCGCTGGGGC	0.622													3	21					0	0	0.009096	0	0		A	15497312	A	A	15497312	3	1	128	1	0	0	0	0	1	0	0	0	7961	1116	39	1	1882	1	JARID2	6	15497312	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2131729	15497312	155617755	362	70650											
GPLD1	2822	broad.mit.edu	37	chr6	24448144	24448144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagaataaaacgcagccaCaattcccttctgcttccctc	11	9	5	16	1	1	1	0	0	1	1	4	1	3	1	4	0	3	2	4	0	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:24448144C>T	uc003ned.1	-	17	1750	c.1639G>A	c.(1639-1641)GTG>ATG	p.V547M	GPLD1_uc010jpr.1_Missense_Mutation_p.V384M|GPLD1_uc010jps.1_Missense_Mutation_p.V547M	NM_001503	NP_001494	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific	547	FG-GAP 3.					extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3						AACGCAGCCACAATTCCCTTC	0.557													12	48					0	0	0.003163	0	0		T	24448144	T	T	24448144	3	4	128	1	0	0	0	0	1	0	0	0	6629	478	17	4	919	4	GPLD1	6	24448144	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	8950832	24448144	146666923	363	70651											
GPLD1	2822	broad.mit.edu	37	chr6	24450073	24450073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccacggccaggtcaggcaCgccgtccacgttaaagtcca	9	6	10	16	4	1	0	1	0	0	0	4	0	4	0	5	3	0	2	5	3	2	1	rs144999503		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:24450073C>T	uc003ned.1	-	15	1501	c.1390G>A	c.(1390-1392)GTG>ATG	p.V464M	GPLD1_uc010jpr.1_Missense_Mutation_p.V301M|GPLD1_uc010jps.1_Missense_Mutation_p.V464M	NM_001503	NP_001494	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific	464	FG-GAP 2.					extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3						AGGTCAGGCACGCCGTCCACG	0.622													33	126					0	0	0.019004	0	0		T	24450073	T	T	24450073	3	4	128	1	0	0	0	0	1	0	0	0	6629	536	19	1	1176	1	GPLD1	6	24450073	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1929	24450073	146664994	364	70652											
FAM65B	9750	broad.mit.edu	37	chr6	24873113	24873113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcatagtacctaccaggCgagagtttcttttcatatct	10	14	7	10	1	3	1	1	0	2	1	3	2	3	1	2	1	3	3	2	1	4	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:24873113C>T	uc003neo.1	-	4	508	c.332G>A	c.(331-333)CGC>CAC	p.R111H	FAM65B_uc011djs.1_Missense_Mutation_p.R140H|FAM65B_uc011dju.1_Missense_Mutation_p.R145H|FAM65B_uc003nep.2_Missense_Mutation_p.R111H|FAM65B_uc011djt.1_Missense_Mutation_p.R111H	NM_014722	NP_055537	Q9Y4F9	FA65B_HUMAN	hypothetical protein LOC9750 isoform 1	111	Potential.|Involved in cell filopodia formation.				cell differentiation|muscle organ development	cytoskeleton|filopodium|mitochondrion	binding			ovary(1)	1						ACCTACCAGGCGAGAGTTTCT	0.408													14	60					0	0	0.004007	0	0		T	24873113	T	T	24873113	3	4	128	1	0	0	0	0	1	0	0	0	5614	768	27	1	2964	1	FAM65B	6	24873113	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	423040	24873113	146241954	365	70653											
SCAND3	114821	broad.mit.edu	37	chr6	28540659	28540659	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcatggcaagactttctcGatgaatgaagcaatgtgttg	11	14	10	6	1	2	3	1	2	1	1	3	4	2	3	0	1	1	3	0	1	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:28540659G>A	uc003nlo.2	-	4	3625	c.3007C>T	c.(3007-3009)CGA>TGA	p.R1003*		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	1003					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						agactttctcgatgaatgaag	0													43	130					0	0	0.009718	0	0		A	28540659	A	A	28540659	4	1	128	1	0	0	0	0	0	1	0	0	13901	1066	37	1	974	1	SCAND3	6	28540659	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3667546	28540659	142574408	366	70654											
OR14J1	442191	broad.mit.edu	37	chr6	29274617	29274617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccatcattaccgtggacCgtcgtctccattcccccatg	7	11	6	17	3	3	0	2	0	1	0	6	1	4	1	6	1	1	0	6	1	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:29274617C>T	uc011dln.1	+	1	151	c.151C>T	c.(151-153)CGT>TGT	p.R51C		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	51	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TACCGTGGACCGTCGTCTCCA	0.468													89	253					0	0	0.01441	0	0		T	29274617	T	T	29274617	3	4	128	1	0	0	0	0	1	0	0	0	10967	652	23	1	153	1	OR14J1	6	29274617	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	733958	29274617	141840450	367	70655											
OR2H1	26716	broad.mit.edu	37	chr6	29429649	29429649	+	Silent	SNP	T	C	C																															ttgtcttcacttcctacctcTtgaccctggtgggcaacaca																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:29429649T>C	uc003nmi.2	+	3	546	c.103T>C	c.(103-105)TTG>CTG	p.L35L	OR2H1_uc003nmj.1_Silent_p.L35L|OR2H1_uc010jri.1_Intron	NM_030883	NP_112145	Q9GZK4	OR2H1_HUMAN	olfactory receptor, family 2, subfamily H,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTCCTACCTCTTGACCCTGGT	0.522													29	239					0	0	0.01441	0	0		C	29429649	C	C	29429649	2	2	128	1	0	0	0	0	0	0	0	1	11020	1606	56	3		3	OR2H1	6	29429649	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	155032	29429649	141685418	368	70656	131	3									
OR2H1	26716	broad.mit.edu	37	chr6	29429651	29429651	+	Silent	SNP	G	A	A																															gtcttcacttcctacctcttGaccctggtgggcaacacact																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:29429651G>A	uc003nmi.2	+	3	548	c.105G>A	c.(103-105)TTG>TTA	p.L35L	OR2H1_uc003nmj.1_Silent_p.L35L|OR2H1_uc010jri.1_Intron	NM_030883	NP_112145	Q9GZK4	OR2H1_HUMAN	olfactory receptor, family 2, subfamily H,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCTACCTCTTGACCCTGGTGG	0.522													23	244					0	0	0.01441	0	0		A	29429651	A	A	29429651	2	1	128	1	0	0	0	0	0	0	0	1	11020	1281	45	4		4	OR2H1	6	29429651	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2	29429651	141685416	369	70657	131	3									
OR2H1	26716	broad.mit.edu	37	chr6	29429657	29429657	+	Silent	SNP	G	A	A																															acttcctacctcttgaccctGgtgggcaacacactcatcat																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:29429657G>A	uc003nmi.2	+	3	554	c.111G>A	c.(109-111)CTG>CTA	p.L37L	OR2H1_uc003nmj.1_Silent_p.L37L|OR2H1_uc010jri.1_Intron	NM_030883	NP_112145	Q9GZK4	OR2H1_HUMAN	olfactory receptor, family 2, subfamily H,	37	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCTTGACCCTGGTGGGCAACA	0.527													20	242					0	0	0.01441	0	0		A	29429657	A	A	29429657	2	1	128	1	0	0	0	0	0	0	0	1	11020	1335	47	4		4	OR2H1	6	29429657	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	6	29429657	141685410	370	70658	131	3									
MDC1	9656	broad.mit.edu	37	chr6	30671304	30671304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcttgcctggttttggaGtcacgacatcctgagattga	7	15	10	9	1	2	2	1	2	1	1	4	5	3	3	2	2	1	1	2	2	0	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:30671304G>A	uc003nrg.3	-	11	6013	c.5573C>T	c.(5572-5574)ACT>ATT	p.T1858I	MDC1_uc003nrf.3_Missense_Mutation_p.T489I	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1858	Required for nuclear localization (NLS2).				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TGGTTTTGGAGTCACGACATC	0.507								Other_conserved_DNA_damage_response_genes					78	236					0	0	0.01441	0	0		A	30671304	A	A	30671304	3	1	128	1	0	0	0	0	1	0	0	0	9421	1029	36	4	716	4	MDC1	6	30671304	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1241647	30671304	140443763	371	70659											
VARS2	57176	broad.mit.edu	37	chr6	30887543	30887543	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcccttcagcatctacaCgggcgacagcttcgtcaccc	7	9	7	18	3	3	0	2	0	1	0	5	1	4	0	3	1	3	2	3	1	1	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:30887543C>T	uc003nsc.1	+	11	1715	c.1083C>T	c.(1081-1083)CAC>CAT	p.H361H	VARS2_uc011dmx.1_Silent_p.H361H|VARS2_uc011dmy.1_Silent_p.H221H|VARS2_uc011dmz.1_Silent_p.H391H|VARS2_uc011dna.1_Silent_p.H361H|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_Translation_Start_Site|VARS2_uc010jsg.1_Translation_Start_Site	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	361					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						AGCATCTACACGGGCGACAGC	0.592													109	350					0	0	0.01441	0	0		T	30887543	T	T	30887543	2	4	128	1	0	0	0	0	0	0	0	1	17150	535	19	1		1	VARS2	6	30887543	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	216239	30887543	140227524	372	70660											
TCF19	6941	broad.mit.edu	37	chr6	31129358	31129358	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttcatgttccaacaagtaCgagtcaagcctcaggacttt	12	11	7	11	1	3	0	3	0	0	0	4	2	4	1	2	1	3	2	2	1	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:31129358C>T	uc003nss.2	+	3	897	c.373C>T	c.(373-375)CGA>TGA	p.R125*	TCF19_uc003nst.2_Nonsense_Mutation_p.R125*	NM_001077511	NP_001070979	Q9Y242	TCF19_HUMAN	transcription factor 19	125					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCAACAAGTACGAGTCAAGCC	0.597													6	205					0	0	0.001984	0	0		T	31129358	T	T	31129358	4	4	128	1	0	0	0	0	0	1	0	0	15714	528	19	1	379	1	TCF19	6	31129358	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	241815	31129358	139985709	373	70661											
C2	717	broad.mit.edu	37	chr6	31868847	31868847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagcaagtcggccacgatgCgtgcactgtgcatcagggag	9	6	16	10	3	1	0	1	0	0	0	2	3	1	2	1	3	4	3	1	3	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:31868847C>T	uc011dop.1	+	1	72	c.4C>T	c.(4-6)CGT>TGT	p.R2C	C2_uc003nyc.2_Intron|C2_uc011doo.1_Intron|ZBTB12_uc003nyd.1_Missense_Mutation_p.R79H	NM_001145903	NP_001139375	P06681	CO2_HUMAN	complement component 2 isoform 2 preproprotein	Error:Variant_position_missing_in_P06681_after_alignment					complement activation, classical pathway|innate immune response|proteolysis	extracellular space	serine-type endopeptidase activity			ovary(1)|skin(1)	2		Ovarian(999;0.00965)		LUAD - Lung adenocarcinoma(999;0.247)		GGCCACGATGCGTGCACTGTG	0.612													24	80					0	0	0.004656	0	0		T	31868847	T	T	31868847	3	4	128	1	0	0	0	0	1	0	0	0	2077	768	27	1	6	1	C2	6	31868847	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	739489	31868847	139246220	374	70662											
BAK1	578	broad.mit.edu	37	chr6	33541918	33541918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaggccatgctggtagaCgtgtagggccagacggtagc	9	7	16	9	2	1	2	1	0	0	2	1	2	1	2	2	4	2	4	2	4	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:33541918C>T	uc003oes.2	-	5	724	c.424G>A	c.(424-426)GTC>ATC	p.V142I	BAK1_uc003oer.2_Missense_Mutation_p.V72I|BAK1_uc003oet.2_RNA|BAK1_uc010jvb.2_Missense_Mutation_p.V142I|BAK1_uc003oeu.2_Missense_Mutation_p.V83I	NM_001188	NP_001179	Q16611	BAK_HUMAN	BCL2-antagonist/killer 1	142					activation of pro-apoptotic gene products|cellular response to mechanical stimulus|cellular response to UV|establishment or maintenance of transmembrane electrochemical gradient|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|release of cytochrome c from mitochondria	integral to mitochondrial outer membrane|pore complex	metal ion binding|protein heterodimerization activity			ovary(1)	1						TGCTGGTAGACGTGTAGGGCC	0.597													3	51					0	0	0.009096	0	0		T	33541918	T	T	33541918	3	4	128	1	0	0	0	0	1	0	0	0	1306	536	19	1	219	1	BAK1	6	33541918	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1673071	33541918	137573149	375	70663											
GRM4	2914	broad.mit.edu	37	chr6	34029714	34029714	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgatgactgccctggcgttCgaagtctccaggaggcggcg	7	8	15	11	4	1	2	0	2	1	0	3	4	1	3	2	4	1	1	2	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:34029714C>T	uc003oir.3	-	3	998	c.828G>A	c.(826-828)TCG>TCA	p.S276S	GRM4_uc011dsn.1_Silent_p.S276S|GRM4_uc010jvh.2_Silent_p.S276S|GRM4_uc010jvi.2_5'UTR|GRM4_uc003oio.2_5'UTR|GRM4_uc003oip.2_RNA|GRM4_uc011dsl.1_Silent_p.S136S|GRM4_uc003oiq.2_Silent_p.S143S|GRM4_uc011dsm.1_Silent_p.S107S	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	276	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	CCCTGGCGTTCGAAGTCTCCA	0.632													32	120					0	0	0.010818	0	0		T	34029714	T	T	34029714	2	4	128	1	0	0	0	0	0	0	0	1	6815	871	31	1		1	GRM4	6	34029714	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	487796	34029714	137085353	376	70664											
HMGA1	3159	broad.mit.edu	37	chr6	34210525	34210525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccaacacctaagagacctCggggccgaccaaagggaagc	13	3	12	13	2	0	1	0	0	0	1	1	4	0	2	5	3	3	0	5	3	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:34210525C>T	uc003oit.2	+	4	494	c.172C>T	c.(172-174)CGG>TGG	p.R58W	HMGA1_uc011dso.1_Missense_Mutation_p.R58W|HMGA1_uc003oiv.2_Missense_Mutation_p.R47W|HMGA1_uc003oiw.2_Missense_Mutation_p.R47W|HMGA1_uc003oiu.2_Missense_Mutation_p.R58W|HMGA1_uc003oiy.2_Missense_Mutation_p.R47W|HMGA1_uc003oiz.2_Missense_Mutation_p.R58W|HMGA1_uc003oja.2_Missense_Mutation_p.R47W|HMGA1_uc003oix.2_Missense_Mutation_p.R47W|HMGA1_uc010jvl.2_Intron|HMGA1_uc003ojc.2_Missense_Mutation_p.R47W|HMGA1_uc011dsp.1_RNA|HMGA1_uc003ojd.2_Missense_Mutation_p.R46W	NM_145899	NP_665906	P17096	HMGA1_HUMAN	high mobility group AT-hook 1 isoform a	58	Interaction with HIPK2 (By similarity).|A.T hook 2.			R->A: Decreases methylation by PRMT6. Abolishes methylation by PRMT6; when associated with A-60.	DNA unwinding involved in replication|initiation of viral infection|interspecies interaction between organisms|loss of chromatin silencing|nucleosome disassembly|protein complex assembly|provirus integration	chromatin|cytosol|transcription factor complex	AT DNA binding|enzyme binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|protein binding|retinoid X receptor binding|sequence-specific DNA binding transcription factor activity				0						TAAGAGACCTCGGGGCCGACC	0.562			T	?	microfollicular thyroid adenoma| various benign mesenchymal tumors,								4	17					0	0	0.014758	0	0		T	34210525	T	T	34210525	3	4	128	1	0	0	0	0	1	0	0	0	7239	875	31	1	178	1	HMGA1	6	34210525	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	180811	34210525	136904542	377	70665											
ZNF76	7629	broad.mit.edu	37	chr6	35259413	35259413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catccgcaaggtacatgtgcGcacccacacaggcgagaggc	11	4	12	14	3	0	1	0	0	0	1	1	2	1	1	2	3	2	3	2	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:35259413G>A	uc003oki.1	+	9	1035	c.830G>A	c.(829-831)CGC>CAC	p.R277H	ZNF76_uc011dsy.1_Missense_Mutation_p.R277H|ZNF76_uc011dsz.1_Missense_Mutation_p.R277H|ZNF76_uc003okj.1_Missense_Mutation_p.R277H	NM_003427	NP_003418	P36508	ZNF76_HUMAN	zinc finger protein 76 (expressed in testis)	277	C2H2-type 4.				regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTACATGTGCGCACCCACACA	0.597													7	115					0	0	0.00308	0	0		A	35259413	A	A	35259413	3	1	128	1	0	0	0	0	1	0	0	0	18160	1087	38	1	860	1	ZNF76	6	35259413	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1048888	35259413	135855654	378	70666											
MOCS1	4337	broad.mit.edu	37	chr6	39874786	39874786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctttccataaagtggccaCctggctggagaaactcattc	10	11	8	12	0	1	1	1	0	0	1	4	2	3	1	4	3	1	1	4	3	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:39874786C>T	uc003opb.2	-	10	1396	c.1258G>A	c.(1258-1260)GTG>ATG	p.V420M	MOCS1_uc003opa.2_3'UTR|MOCS1_uc003opc.2_Missense_Mutation_p.V404M|MOCS1_uc003opd.2_3'UTR|MOCS1_uc003ope.2_Missense_Mutation_p.V317M	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	420	Molybdenum cofactor biosynthesis protein C.				Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding			ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					AAAGTGGCCACCTGGCTGGAG	0.567													38	122					0	0	0.009718	0	0		T	39874786	T	T	39874786	3	4	128	1	0	0	0	0	1	0	0	0	9708	522	18	4		4	MOCS1	6	39874786	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4615373	39874786	131240281	379	70667											
USP49	25862	broad.mit.edu	37	chr6	41774419	41774419	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtttctggccccggacCgccaggagggagcttcttag	5	10	13	13	2	2	0	0	0	2	0	3	3	3	3	5	4	1	2	5	4	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:41774419C>T	uc003ori.2	-	4	525	c.303G>A	c.(301-303)GCG>GCA	p.A101A		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	101					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GGCCCCGGACCGCCAGGAGGG	0.627													36	109					0	0	0.00874	0	0		T	41774419	T	T	41774419	2	4	128	1	0	0	0	0	0	0	0	1	17106	639	23	1		1	USP49	6	41774419	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1899633	41774419	129340648	380	70668											
CUL7	9820	broad.mit.edu	37	chr6	43019980	43019980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacagggcttgtatcatccGgcctgcactccagcgaatct	8	9	11	13	2	2	0	1	0	1	0	4	2	4	1	3	3	2	3	3	3	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:43019980G>A	uc003otq.2	-	2	850	c.547C>T	c.(547-549)CGG>TGG	p.R183W	CUL7_uc011dvb.1_Missense_Mutation_p.R235W|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	183					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			TGTATCATCCGGCCTGCACTC	0.572													21	49					0	0	0.005443	0	0		A	43019980	A	A	43019980	3	1	128	1	0	0	0	0	1	0	0	0	4063	1115	39	1	4745	1	CUL7	6	43019980	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1245561	43019980	128095087	381	70669											
TMEM63B	55362	broad.mit.edu	37	chr6	44116118	44116118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacaatgagactatcaccGccatgtgagtccccaactcg	11	8	7	15	2	1	2	1	2	0	1	4	3	3	2	5	0	1	0	5	0	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:44116118G>A	uc003owr.2	+	13	1181	c.1117G>A	c.(1117-1119)GCC>ACC	p.A373T	TMEM63B_uc003owq.1_Missense_Mutation_p.A373T|TMEM63B_uc003ows.2_Missense_Mutation_p.A276T|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	373						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			GACTATCACCGCCATGTGAGT	0.597													31	120					0	0	0.019004	0	0		A	44116118	A	A	44116118	3	1	128	1	0	0	0	0	1	0	0	0	16216	1087	38	1	1163	1	TMEM63B	6	44116118	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1096138	44116118	126998949	382	70670											
TMEM63B	55362	broad.mit.edu	37	chr6	44122158	44122158	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaatggacggccccccacTgctgctgctgtccccaaatc	8	7	9	17	1	0	0	0	0	0	0	2	1	1	1	5	2	4	4	5	2	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:44122158T>C	uc003owr.2	+	23	2347	c.2283T>C	c.(2281-2283)ACT>ACC	p.T761T	TMEM63B_uc003ows.2_Silent_p.T664T|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	761						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			GGCCCCCCACTGCTGCTGCTG	0.592													8	95					0	0	0.007291	0	0		C	44122158	C	C	44122158	2	2	128	1	0	0	0	0	0	0	0	1	16216	1567	55	3		3	TMEM63B	6	44122158	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	6040	44122158	126992909	383	70671											
RHAG	6005	broad.mit.edu	37	chr6	49586939	49586939	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggctttgcaggattccCtgtacaatagtgccccactg	7	11	9	14	0	0	0	0	0	0	0	1	1	1	1	4	2	3	3	4	2	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:49586939C>A	uc003ozk.3	-	2	356	c.294G>T	c.(292-294)CAG>CAT	p.Q98H	RHAG_uc010jzl.2_Missense_Mutation_p.Q98H|RHAG_uc010jzm.2_Missense_Mutation_p.Q98H	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein	98	Helical; (Potential).				carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					GCAGGATTCCCTGTACAATAG	0.373													23	70					3.6726e-16	3.95236e-16	0.021523	1	0		A	49586939	A	A	49586939	3	1	128	1	0	0	0	0	1	0	0	0	13340	680	24	5	971	5	RHAG	6	49586939	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5464781	49586939	121528128	384	70672											
GSTA1	2938	broad.mit.edu	37	chr6	52661013	52661013	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatgtctttcccatagaggTtgtatttgctggcaatgtag	8	17	10	6	0	1	1	0	0	1	1	2	1	2	1	1	2	1	5	1	2	5	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:52661013T>C	uc003paz.2	-	4	351	c.239A>G	c.(238-240)AAC>AGC	p.N80S		NM_145740	NP_665683	P08263	GSTA1_HUMAN	glutathione S-transferase alpha 1	80	GST N-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.118)				Amsacrine(DB00276)|Busulfan(DB01008)|Glutathione(DB00143)	CCCATAGAGGTTGTATTTGCT	0.448													111	367					0	0	0.01441	0	0		C	52661013	C	C	52661013	3	2	128	1	0	0	0	0	1	0	0	0	6846	1725	60	3	445	3	GSTA1	6	52661013	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	3074074	52661013	118454054	385	70673											
FAM83B	222584	broad.mit.edu	37	chr6	54805455	54805455	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaacagttgtacaactggCtcctcaaattcaactatcat	13	13	5	10	0	3	0	3	0	0	0	4	0	4	0	1	1	4	4	1	1	6	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:54805455C>T	uc003pck.2	+	5	1802	c.1686C>T	c.(1684-1686)GGC>GGT	p.G562G		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	562										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					GTACAACTGGCTCCTCAAATT	0.438													23	63					0	0	0.012319	0	0		T	54805455	T	T	54805455	2	4	128	1	0	0	0	0	0	0	0	1	5648	784	28	2		2	FAM83B	6	54805455	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2144442	54805455	116309612	386	70674											
FAM83B	222584	broad.mit.edu	37	chr6	54805606	54805606	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggcaccaaaaatgcacAccttgcaggttcctgaaaac	15	6	8	12	0	0	2	0	1	0	1	1	2	1	2	3	2	3	4	3	2	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:54805606A>G	uc003pck.2	+	5	1953	c.1837A>G	c.(1837-1839)ACC>GCC	p.T613A		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	613										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					AAAAATGCACACCTTGCAGGT	0.428													32	98					0	0	0.013726	0	0		G	54805606	G	G	54805606	3	3	128	1	0	0	0	0	1	0	0	0	5648	159	6	3	1851	3	FAM83B	6	54805606	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	151	54805606	116309461	387	70675											
FAM135A	57579	broad.mit.edu	37	chr6	71162259	71162259	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccacagagtagaagctagtTtgttgcatgcaacaggtaag	13	9	11	8	0	0	2	0	0	0	2	0	2	0	2	1	1	4	7	1	1	5	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:71162259T>A	uc003pfj.2	+	3	275	c.142T>A	c.(142-144)TTG>ATG	p.L48M	FAM135A_uc003pfi.2_Missense_Mutation_p.L48M|FAM135A_uc003pfh.2_Intron|FAM135A_uc003pfk.2_Missense_Mutation_p.L48M|FAM135A_uc003pfl.2_Translation_Start_Site	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	48										central_nervous_system(1)	1						AGAAGCTAGTTTGTTGCATGC	0.294													10	42					0	0	0.016723	0	0		A	71162259	A	A	71162259	3	1	128	1	0	0	0	0	1	0	0	0	5459	1838	64	5	148	5	FAM135A	6	71162259	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	16356653	71162259	99952808	388	70676											
B3GAT2	135152	broad.mit.edu	37	chr6	71665875	71665875	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgggcggctgtaggtgggCgtgatggcatagatggtggg	6	8	21	6	3	0	2	0	1	0	1	0	2	0	2	1	7	0	3	1	7	2	2	rs147151504		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:71665875C>T	uc003pfv.2	-	1	914	c.258G>A	c.(256-258)ACG>ACA	p.T86T	B3GAT2_uc011dxz.1_RNA|B3GAT2_uc003pfw.2_Silent_p.T86T	NM_080742	NP_542780	Q9NPZ5	B3GA2_HUMAN	beta-1,3-glucuronyltransferase 2	86	Lumenal (Potential).				carbohydrate biosynthetic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						TGTAGGTGGGCGTGATGGCAT	0.706													9	46					0	0	0.006214	0	0		T	71665875	T	T	71665875	2	4	128	1	0	0	0	0	0	0	0	1	1255	755	27	1		1	B3GAT2	6	71665875	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	503616	71665875	99449192	389	70677											
EEF1A1	1915	broad.mit.edu	37	chr6	74228320	74228320	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccactcggccaacaggAacagtaccaatacctaaaaa	16	6	6	13	1	1	0	0	0	1	0	3	1	1	1	4	2	4	1	4	2	8	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:74228320A>G	uc003phi.2	-	5	823	c.786T>C	c.(784-786)GTT>GTC	p.V262V	EEF1A1_uc003phd.2_5'UTR|EEF1A1_uc003phe.2_Silent_p.V252V|EEF1A1_uc003phf.2_Silent_p.V262V|EEF1A1_uc003phg.2_Silent_p.V262V|EEF1A1_uc003phh.2_Silent_p.V108V|EEF1A1_uc003phj.2_Silent_p.V262V|EEF1A1_uc003phk.2_Silent_p.V262V|EEF1A1_uc003phl.2_Intron|EEF1A1_uc003phm.1_Intron	NM_001402	NP_001393	P68104	EF1A1_HUMAN	eukaryotic translation elongation factor 1 alpha	262						cytosol|eukaryotic translation elongation factor 1 complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0						GGCCAACAGGAACAGTACCAA	0.418											OREG0003895	type=REGULATORY REGION|Gene=D16891|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	43	120					0	0	0.013114	0	0		G	74228320	G	G	74228320	2	3	128	1	0	0	0	0	0	0	0	1	4929	233	9	3		3	EEF1A1	6	74228320	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	2562445	74228320	96886747	390	70678											
COL12A1	1303	broad.mit.edu	37	chr6	75839937	75839937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agactctcaggttccttggtCcactgcgtggtactaaataa	10	12	9	10	1	1	1	1	0	1	1	4	1	3	1	2	3	2	2	2	3	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:75839937C>T	uc003phs.2	-	37	6246	c.6080G>A	c.(6079-6081)GGA>GAA	p.G2027E	COL12A1_uc003pht.2_Missense_Mutation_p.G863E	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2027	Fibronectin type-III 16.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GTTCCTTGGTCCACTGCGTGG	0.438													18	88					0	0	0.006122	0	0		T	75839937	T	T	75839937	3	4	128	1	0	0	0	0	1	0	0	0	3672	855	30	4	3231	4	COL12A1	6	75839937	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1611617	75839937	95275130	391	70679											
IMPG1	3617	broad.mit.edu	37	chr6	76640734	76640734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccagggccacagaggcctgGttccagaccgtccaggctcc	7	5	13	16	1	0	2	0	0	0	2	3	2	3	2	7	4	0	2	7	4	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:76640734G>A	uc003pik.1	-	15	2309	c.2179C>T	c.(2179-2181)CCA>TCA	p.P727S		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	727					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				CAGAGGCCTGGTTCCAGACCG	0.572													37	120					0	0	0.019004	0	0		A	76640734	A	A	76640734	3	1	128	1	0	0	0	0	1	0	0	0	7744	1261	44	4	226	4	IMPG1	6	76640734	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	800797	76640734	94474333	392	70680											
HTR1B	3351	broad.mit.edu	37	chr6	78172202	78172202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggctttgcgctccctagCggccatgagtttcttctttt	3	16	11	11	2	2	1	0	1	2	0	3	1	3	1	2	3	2	3	2	3	1	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:78172202C>T	uc003pil.1	-	1	919	c.919G>A	c.(919-921)GCT>ACT	p.A307T		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	307	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	CGCTCCCTAGCGGCCATGAGT	0.532													60	376					0	0	0.01441	0	0		T	78172202	T	T	78172202	3	4	128	1	0	0	0	0	1	0	0	0	7453	768	27	1	257	1	HTR1B	6	78172202	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1531468	78172202	92942865	393	70681											
HTR1B	3351	broad.mit.edu	37	chr6	78172495	78172495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaccgtggagtagaccGtgtagaggatgtggtcggtg	8	8	16	9	3	0	2	0	0	0	2	1	4	0	4	3	4	0	2	3	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:78172495G>A	uc003pil.1	-	1	626	c.626C>T	c.(625-627)ACG>ATG	p.T209M		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	209	Helical; Name=5; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	GGAGTAGACCGTGTAGAGGAT	0.577													24	68					0	0	0.021523	0	0		A	78172495	A	A	78172495	3	1	128	1	0	0	0	0	1	0	0	0	7453	1145	40	1	550	1	HTR1B	6	78172495	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	293	78172495	92942572	394	70682											
MDN1	23195	broad.mit.edu	37	chr6	90397120	90397120	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcaaatcaagatgtttcCgcaaagacaaagctcgactt	15	10	7	9	2	2	3	2	1	0	2	4	4	3	3	1	0	1	3	1	0	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:90397120C>A	uc003pnn.1	-	68	11509	c.11393G>T	c.(11392-11394)CGG>CTG	p.R3798L		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	3798					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		AAGATGTTTCCGCAAAGACAA	0.403													16	81					6.94344e-10	7.30079e-10	0.006122	1	0		A	90397120	A	A	90397120	3	1	128	1	0	0	0	0	1	0	0	0	9433	652	23	5	5537	5	MDN1	6	90397120	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	12224625	90397120	80717947	395	70683											
MDN1	23195	broad.mit.edu	37	chr6	90402222	90402222	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctcccttgcataacacGtgggagcgcaggtaaaggag	12	7	12	10	2	1	0	0	0	1	0	2	2	1	2	1	3	4	3	1	3	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:90402222G>A	uc003pnn.1	-	63	10643	c.10527C>T	c.(10525-10527)CAC>CAT	p.H3509H		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	3509					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TGCATAACACGTGGGAGCGCA	0.597													17	63					0	0	0.008871	0	0		A	90402222	A	A	90402222	2	1	128	1	0	0	0	0	0	0	0	1	9433	1136	40	1		1	MDN1	6	90402222	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5102	90402222	80712845	396	70684											
MDN1	23195	broad.mit.edu	37	chr6	90428683	90428683	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggttggaatgactggtgcaGgagcaacaggggatggcggg	9	6	21	5	1	0	1	0	1	0	0	0	4	0	4	0	8	3	3	0	8	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:90428683G>A	uc003pnn.1	-	42	6240	c.6124C>T	c.(6124-6126)CTG>TTG	p.L2042L		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2042					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GACTGGTGCAGGAGCAACAGG	0.567													41	108					0	0	0.00874	0	0		A	90428683	A	A	90428683	2	1	128	1	0	0	0	0	0	0	0	1	9433	991	35	4		4	MDN1	6	90428683	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	26461	90428683	80686384	397	70685											
RTN4IP1	84816	broad.mit.edu	37	chr6	107035691	107035691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttcttgagaaaatctggagCccatgtttcagtggatccgc	9	13	10	9	1	3	1	1	1	2	1	4	4	4	3	2	2	1	1	2	2	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:107035691C>T	uc003prj.2	-	7	1330	c.853G>A	c.(853-855)GCT>ACT	p.A285T	RTN4IP1_uc010kdd.2_Intron|RTN4IP1_uc003prk.2_Missense_Mutation_p.A185T	NM_032730	NP_116119	Q8WWV3	RT4I1_HUMAN	reticulon 4 interacting protein 1 precursor	285						mitochondrion	oxidoreductase activity|zinc ion binding				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;9.45e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.0144)	Epithelial(6;0.000873)|all cancers(7;0.00363)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0394)	all cancers(137;0.113)|BRCA - Breast invasive adenocarcinoma(108;0.127)|Epithelial(106;0.144)		AAATCTGGAGCCCATGTTTCA	0.448													25	63					0	0	0.021523	0	0		T	107035691	T	T	107035691	3	4	128	1	0	0	0	0	1	0	0	0	13754	739	26	2	349	2	RTN4IP1	6	107035691	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	16607008	107035691	64079376	398	70686											
AKD1	221264	broad.mit.edu	37	chr6	109816558	109816558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aacctgttccagatatccagGcaaaggaagactagtaagaa	17	7	9	8	0	0	3	0	0	0	3	2	4	2	4	3	2	1	3	3	2	7	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:109816558G>A	uc003ptn.2	-	39	5478	c.5401C>T	c.(5401-5403)CCT>TCT	p.P1801S	AKD1_uc011eas.1_Missense_Mutation_p.P186S	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1801					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						AGATATCCAGGCAAAGGAAGA	0.368													4	96					0	0	0.009096	0	0		A	109816558	A	A	109816558	3	1	128	1	0	0	0	0	1	0	0	0	460	1203	42	2	346	2	AKD1	6	109816558	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2780867	109816558	61298509	399	70687											
CDC40	51362	broad.mit.edu	37	chr6	110538952	110538952	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaatactgcaggaacaCagttcctcagtgcagcctat	11	10	8	12	0	2	0	2	0	0	0	3	1	3	1	2	1	5	4	2	1	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:110538952C>T	uc003pua.2	+	10	1060	c.1036C>T	c.(1036-1038)CAG>TAG	p.Q346*		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	346	WD 2.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		TGCAGGAACACAGTTCCTCAG	0.408													10	66					0	0	0.008291	0	0		T	110538952	T	T	110538952	4	4	128	1	0	0	0	0	0	1	0	0	3073	479	17	4	1074	4	CDC40	6	110538952	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	722394	110538952	60576115	400	70688											
C6orf186	728464	broad.mit.edu	37	chr6	110620349	110620349	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgggtatcatcacttcCtagcctataaagaaagagga	17	9	8	7	0	2	2	2	0	0	2	3	3	3	3	2	2	1	1	2	2	8	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:110620349C>A	uc010kdu.1	-	4	562	c.562G>T	c.(562-564)GGA>TGA	p.G188*	C6orf186_uc003pub.2_Translation_Start_Site	NM_001123364	NP_001116836	Q5JXM2	CF186_HUMAN	chromosome 6 open reading frame 186 precursor	188						extracellular region					0						TCATCACTTCCTAGCCTATAA	0.418													24	30					2.98393e-07	3.09825e-07	0.016522	1	0		A	110620349	A	A	110620349	4	1	128	1	0	0	0	0	0	1	0	0	2350	690	24	5	546	5	C6orf186	6	110620349	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	81397	110620349	60494718	401	70689											
FYN	2534	broad.mit.edu	37	chr6	111983105	111983105	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctgcgggcagggcatcCtgtagcctcgctccacctgc	5	8	12	16	2	0	0	0	0	0	0	4	0	3	0	5	2	3	4	5	2	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:111983105C>A	uc003pvj.2	-	13	1791	c.1451G>T	c.(1450-1452)AGG>ATG	p.R484M	FYN_uc003pvi.2_Missense_Mutation_p.R429M|FYN_uc003pvk.2_Missense_Mutation_p.R484M|FYN_uc003pvh.2_Missense_Mutation_p.R481M	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	484	Protein kinase.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	GCAGGGCATCCTGTAGCCTCG	0.607													62	149					2.18419e-29	2.41115e-29	0.01441	1	0		A	111983105	A	A	111983105	3	1	128	1	0	0	0	0	1	0	0	0	6140	681	24	5	166	5	FYN	6	111983105	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1362756	111983105	59131962	402	70690											
LAMA4	3910	broad.mit.edu	37	chr6	112455712	112455712	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcctccaatgtatatatCtgtaaaaggtattttcatct	12	16	5	8	0	3	0	1	0	2	0	5	0	5	0	2	1	1	4	2	1	7	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:112455712C>A	uc003pvu.2	-	26	3823	c.3514G>T	c.(3514-3516)GAT>TAT	p.D1172Y	LAMA4_uc003pvv.2_Missense_Mutation_p.D1165Y|LAMA4_uc003pvt.2_Missense_Mutation_p.D1165Y	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1172	Laminin G-like 2.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		ATGTATATATCTGTAAAAGGT	0.373													25	101					3.28513e-13	3.49291e-13	0.021523	1	0		A	112455712	A	A	112455712	3	1	128	1	0	0	0	0	1	0	0	0	8624	913	32	5	2013	5	LAMA4	6	112455712	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	472607	112455712	58659355	403	70691											
TSPYL4	23270	broad.mit.edu	37	chr6	116574172	116574172	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctgggggtcttggcctcGgtgccagcggattggagtgg	4	9	19	9	2	1	0	0	0	1	0	2	2	1	2	3	7	3	0	3	7	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:116574172G>A	uc003pwn.2	-	1	1090	c.1000C>T	c.(1000-1002)CGA>TGA	p.R334*	DSE_uc011ebf.1_5'Flank|TSPYL4_uc011ebe.1_Nonsense_Mutation_p.R162*|uc003pwo.1_5'Flank	NM_021648	NP_067680	Q9UJ04	TSYL4_HUMAN	TSPY-like 4	334					nucleosome assembly	nucleus					0		all_cancers(87;0.0144)|all_epithelial(87;0.021)|Colorectal(196;0.234)		all cancers(137;0.045)|OV - Ovarian serous cystadenocarcinoma(136;0.0666)|GBM - Glioblastoma multiforme(226;0.095)|Epithelial(106;0.125)		TCTTGGCCTCGGTGCCAGCGG	0.532													4	76					0	0	0.009096	0	0		A	116574172	A	A	116574172	4	1	128	1	0	0	0	0	0	1	0	0	16687	1124	39	1	248	1	TSPYL4	6	116574172	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4118460	116574172	54540895	404	70692											
GOPC	57120	broad.mit.edu	37	chr6	117884469	117884469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatcatctaattttgaagcaCcgtcatctagcggagtttca	11	13	8	9	2	5	1	3	1	2	0	5	3	5	2	1	1	2	2	1	1	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:117884469C>T	uc003pxu.2	-	9	1567	c.1337G>A	c.(1336-1338)GGT>GAT	p.G446D	GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxs.2_Intron|GOPC_uc003pxv.2_Missense_Mutation_p.G438D	NM_020399	NP_065132	Q9HD26	GOPC_HUMAN	golgi associated PDZ and coiled-coil motif	446					apical protein localization|cytoplasmic sequestering of CFTR protein|ER to Golgi vesicle-mediated transport|Golgi to plasma membrane transport|protein homooligomerization|protein transport	cell junction|dendrite|Golgi membrane|postsynaptic density|postsynaptic membrane|trans-Golgi network transport vesicle	cystic fibrosis transmembrane conductance regulator binding			ovary(1)	1		all_cancers(87;0.00844)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0363)|OV - Ovarian serous cystadenocarcinoma(136;0.0821)|all cancers(137;0.0976)		TTTTGAAGCACCGTCATCTAG	0.353			O	ROS1	glioblastoma								50	154					0	0	0.01441	0	0		T	117884469	T	T	117884469	3	4	128	1	0	0	0	0	1	0	0	0	6588	507	18	4	55	4	GOPC	6	117884469	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1310297	117884469	53230598	405	70693											
TPD52L1	7164	broad.mit.edu	37	chr6	125541338	125541338	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaaaagcagagttagttcAggtatgtttagtaatcttat	13	16	9	3	0	2	1	1	0	1	1	2	1	2	1	0	1	1	7	0	1	7	8			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:125541338A>G	uc003pzu.1	+	2	353	c.134A>G	c.(133-135)CAG>CGG	p.Q45R	TPD52L1_uc003pzv.1_Missense_Mutation_p.Q45R|TPD52L1_uc003pzw.1_Missense_Mutation_p.Q45R|TPD52L1_uc003pzx.1_Missense_Mutation_p.Q16R|TPD52L1_uc003pzy.1_Missense_Mutation_p.Q16R|TPD52L1_uc003pzz.1_Missense_Mutation_p.Q16R	NM_003287	NP_003278	Q16890	TPD53_HUMAN	tumor protein D52-like 1 isoform 1	45	Potential.				DNA fragmentation involved in apoptotic nuclear change|G2/M transition of mitotic cell cycle|induction of apoptosis|positive regulation of JNK cascade|positive regulation of MAP kinase activity	perinuclear region of cytoplasm	caspase activator activity|protein heterodimerization activity|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0265)		GAGTTAGTTCAGGTATGTTTA	0.353													21	47					0	0	0.010504	0	0		G	125541338	G	G	125541338	3	3	128	1	0	0	0	0	1	0	0	0	16424	202	7	3	140	3	TPD52L1	6	125541338	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	7656869	125541338	45573729	406	70694											
LAMA2	3908	broad.mit.edu	37	chr6	129785509	129785509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attggtcagccgtcccattcGctggtaccccaacatctcca	8	10	7	16	2	2	0	1	0	1	0	5	0	3	0	5	2	3	2	5	2	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:129785509G>A	uc003qbn.2	+	49	7172	c.7067G>A	c.(7066-7068)CGC>CAC	p.R2356H	LAMA2_uc003qbo.2_Missense_Mutation_p.R2356H	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2356	Laminin G-like 2.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		CGTCCCATTCGCTGGTACCCC	0.448													64	203					0	0	0.01441	0	0		A	129785509	A	A	129785509	3	1	128	1	0	0	0	0	1	0	0	0	8622	1087	38	1	7265	1	LAMA2	6	129785509	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4244171	129785509	41329558	407	70695											
HBS1L	10767	broad.mit.edu	37	chr6	135317929	135317929	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactacctttccctttcttcGccagtttcatccaagaccca	8	13	4	16	1	2	1	1	0	1	1	5	2	4	1	5	0	1	1	5	0	2	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:135317929G>A	uc003qez.2	-	7	1158	c.951C>T	c.(949-951)GGC>GGT	p.G317G	HBS1L_uc003qey.2_Silent_p.G153G|HBS1L_uc011ecy.1_Silent_p.G41G|HBS1L_uc011ecz.1_Silent_p.G153G|HBS1L_uc011eda.1_Silent_p.G275G	NM_006620	NP_006611	Q9Y450	HBS1L_HUMAN	Hsp70 subfamily B suppressor 1-like protein	317					signal transduction		GTP binding|GTPase activity|translation elongation factor activity			skin(2)	2	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0046)|GBM - Glioblastoma multiforme(68;0.00702)		CCCTTTCTTCGCCAGTTTCAT	0.333													52	309					0	0	0.01441	0	0		A	135317929	A	A	135317929	2	1	128	1	0	0	0	0	0	0	0	1	7003	1074	38	1		1	HBS1L	6	135317929	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5532420	135317929	35797138	408	70696											
MAP7	9053	broad.mit.edu	37	chr6	136687112	136687112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggtggcaaggaggatgtcGgtctgggtgtgccaggcaaa	8	7	19	7	2	1	0	0	0	1	0	2	2	1	2	1	7	1	2	1	7	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:136687112G>A	uc003qgz.2	-	10	1280	c.1034C>T	c.(1033-1035)CCG>CTG	p.P345L	MAP7_uc011edf.1_Missense_Mutation_p.P330L|MAP7_uc011edg.1_Missense_Mutation_p.P375L|MAP7_uc010kgu.2_Missense_Mutation_p.P367L|MAP7_uc011edh.1_Missense_Mutation_p.P330L|MAP7_uc010kgv.2_Missense_Mutation_p.P367L|MAP7_uc010kgs.2_Missense_Mutation_p.P199L|MAP7_uc011edi.1_Missense_Mutation_p.P199L|MAP7_uc010kgq.1_Missense_Mutation_p.P251L|MAP7_uc003qha.1_Missense_Mutation_p.P308L|MAP7_uc010kgr.2_Missense_Mutation_p.P199L	NM_003980	NP_003971	Q14244	MAP7_HUMAN	microtubule-associated protein 7	345	Pro-rich.				establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)		GGAGGATGTCGGTCTGGGTGT	0.587													21	92					0	0	0.012319	0	0		A	136687112	A	A	136687112	3	1	128	1	0	0	0	0	1	0	0	0	9284	1116	39	1	1251	1	MAP7	6	136687112	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1369183	136687112	34427955	409	70697											
IL20RA	53832	broad.mit.edu	37	chr6	137322794	137322794	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggagccggctcctcataGagtctagatagaagaccctc	10	9	10	12	1	3	4	1	0	2	4	5	5	4	5	3	2	1	1	3	2	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:137322794G>T	uc003qhj.2	-	7	1996	c.1563C>A	c.(1561-1563)CTC>CTA	p.L521L	IL20RA_uc011edl.1_Silent_p.L472L|IL20RA_uc003qhk.2_Silent_p.L410L|IL20RA_uc003qhi.2_Silent_p.L253L	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	521	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)		GCTCCTCATAGAGTCTAGATA	0.527													60	171					1.53122e-18	1.65861e-18	0.01441	1	0		T	137322794	T	T	137322794	2	4	128	1	0	0	0	0	0	0	0	1	7684	929	33	5		5	IL20RA	6	137322794	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	635682	137322794	33792273	410	70698											
GRM1	2911	broad.mit.edu	37	chr6	146720132	146720132	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcactctcattgccaaacctActaccacctcctgctacctc	9	11	2	19	0	2	0	2	0	1	0	5	0	3	0	6	0	6	1	6	0	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:146720132A>G	uc010khw.1	+	8	2427	c.1957A>G	c.(1957-1959)ACT>GCT	p.T653A	GRM1_uc010khv.1_Missense_Mutation_p.T653A|GRM1_uc003qll.2_Missense_Mutation_p.T653A|GRM1_uc011edz.1_Missense_Mutation_p.T653A|GRM1_uc011eea.1_Missense_Mutation_p.T653A	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	653	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	TGCCAAACCTACTACCACCTC	0.517													137	434					0	0	0.01441	0	0		G	146720132	G	G	146720132	3	3	128	1	0	0	0	0	1	0	0	0	6812	391	14	3	1983	3	GRM1	6	146720132	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	9397338	146720132	24394935	411	70699											
GRM1	2911	broad.mit.edu	37	chr6	146755775	146755775	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaccccggatgattcgcCtgcgctgacgcctccgtcgc	5	8	11	17	6	0	3	0	3	0	0	3	4	1	4	5	1	1	1	5	1	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:146755775C>A	uc010khw.1	+	9	3898	c.3428C>A	c.(3427-3429)CCT>CAT	p.P1143H	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	1143	Ser-rich.|Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GATGATTCGCCTGCGCTGACG	0.662													33	71					6.29468e-14	6.72513e-14	0.021022	1	0		A	146755775	A	A	146755775	3	1	128	1	0	0	0	0	1	0	0	0	6812	681	24	5	3523	5	GRM1	6	146755775	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	35643	146755775	24359292	412	70700											
STXBP5	134957	broad.mit.edu	37	chr6	147637446	147637446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacctttgccaacacccGtgggagggtccaaccctcag	9	6	9	17	1	1	0	1	0	0	0	2	1	2	1	6	2	3	0	6	2	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:147637446G>A	uc003qlz.2	+	16	1866	c.1705G>A	c.(1705-1707)GTG>ATG	p.V569M	STXBP5_uc010khz.1_Missense_Mutation_p.V569M|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Missense_Mutation_p.V240M	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	569	WD 9.				exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		GCCAACACCCGTGGGAGGGTC	0.463													24	72					0	0	0.021523	0	0		A	147637446	A	A	147637446	3	1	128	1	0	0	0	0	1	0	0	0	15381	1145	40	1	1767	1	STXBP5	6	147637446	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	881671	147637446	23477621	413	70701											
UST	10090	broad.mit.edu	37	chr6	149285641	149285641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgtcgctttggagactggaGaggggaacaaaatcacatga	13	7	13	8	2	1	3	1	1	0	2	2	6	1	4	1	4	1	1	1	4	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:149285641G>A	uc003qmg.2	+	5	919	c.623G>A	c.(622-624)AGA>AAA	p.R208K	uc003qmh.1_Intron	NM_005715	NP_005706	Q9Y2C2	UST_HUMAN	uronyl-2-sulfotransferase	208	Lumenal (Potential).				protein sulfation	Golgi membrane|integral to membrane	sulfotransferase activity			ovary(2)	2		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.78e-10)|GBM - Glioblastoma multiforme(68;0.138)		GGAGACTGGAGAGGGGAACAA	0.532													26	85					0	0	0.007291	0	0		A	149285641	A	A	149285641	3	1	128	1	0	0	0	0	1	0	0	0	17119	942	33	4	641	4	UST	6	149285641	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1648195	149285641	21829426	414	70702											
PNLDC1	154197	broad.mit.edu	37	chr6	160230165	160230165	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggggtttttctgtcttttTccaaatgctggtgaaagccc	8	15	10	8	0	2	1	0	1	2	0	3	1	3	1	2	3	2	2	2	3	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:160230165T>C	uc003qsx.1	+	9	896	c.725T>C	c.(724-726)TTC>TCC	p.F242S	PNLDC1_uc003qsy.1_Missense_Mutation_p.F253S	NM_173516	NP_775787	Q8NA58	PNDC1_HUMAN	poly(A)-specific ribonuclease (PARN)-like domain	242	Cytoplasmic (Potential).					integral to membrane|nucleus	nucleic acid binding				0		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;1.55e-18)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		TCTGTCTTTTTCCAAATGCTG	0.413													6	122					0	0	0.001168	0	0		C	160230165	C	C	160230165	3	2	128	1	0	0	0	0	1	0	0	0	12167	1783	62	3	755	3	PNLDC1	6	160230165	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	10944524	160230165	10884902	415	70703											
PARK2	5071	broad.mit.edu	37	chr6	161990428	161990428	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgatggagctctttaaTcaaggagttgggacagccag	12	9	14	6	0	2	1	1	1	1	0	2	5	2	4	1	3	2	2	1	3	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:161990428T>A	uc003qtx.3	-	8	1026	c.892A>T	c.(892-894)ATT>TTT	p.I298F	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Missense_Mutation_p.I107F|PARK2_uc003qtw.3_Missense_Mutation_p.I107F|PARK2_uc003qty.3_Missense_Mutation_p.I270F|PARK2_uc003qtz.3_Missense_Mutation_p.I149F|PARK2_uc010kke.1_Missense_Mutation_p.I317F|PARK2_uc011egf.1_5'UTR	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	298					aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		AGCTCTTTAATCAAGGAGTTG	0.423													15	62					0	0	0.004007	0	0		A	161990428	A	A	161990428	3	1	128	1	0	0	0	0	1	0	0	0	11468	1435	50	5	525	5	PARK2	6	161990428	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1760263	161990428	9124639	416	70704											
THBS2	7058	broad.mit.edu	37	chr6	169629684	169629684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttctcatcggtcacacCgtcattgtcatcgtcatcat	8	14	5	14	3	6	0	6	0	1	0	9	0	6	0	2	1	1	0	2	1	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:169629684C>T	uc003qwt.2	-	15	2490	c.2242G>A	c.(2242-2244)GGT>AGT	p.G748S		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	748	TSP type-3 2.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		TCGGTCACACCGTCATTGTCA	0.562													49	165					0	0	0.01441	0	0		T	169629684	T	T	169629684	3	4	128	1	0	0	0	0	1	0	0	0	15879	652	23	1	1312	1	THBS2	6	169629684	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	7639256	169629684	1485383	417	70705											
THBS2	7058	broad.mit.edu	37	chr6	169632789	169632789	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcttggctgcttccaggccGaccccgacgggctggttccc	3	9	13	16	3	1	0	0	0	1	0	3	2	3	0	5	4	1	4	5	4	0	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:169632789G>A	uc003qwt.2	-	13	2150	c.1902C>T	c.(1900-1902)GTC>GTT	p.V634V		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	634	EGF-like 2; calcium-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CTTCCAGGCCGACCCCGACGG	0.602													30	126					0	0	0.012213	0	0		A	169632789	A	A	169632789	2	1	128	1	0	0	0	0	0	0	0	1	15879	1045	37	1		1	THBS2	6	169632789	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3105	169632789	1482278	418	70706											
DLL1	28514	broad.mit.edu	37	chr6	170592160	170592160	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttgaagttgaacagccCgagtccggcctttttctttc	6	16	8	11	2	2	2	0	2	2	0	4	3	3	2	3	1	2	1	3	1	2	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr6:170592160C>T	uc003qxm.2	-	10	2552	c.2082G>A	c.(2080-2082)TCG>TCA	p.S694S		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	694	Cytoplasmic (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		TTGAACAGCCCGAGTCCGGCC	0.463													81	225					0	0	0.01441	0	0		T	170592160	T	T	170592160	2	4	128	1	0	0	0	0	0	0	0	1	4572	639	23	1		1	DLL1	6	170592160	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	959371	170592160	522907	419	70707											
IQCE	23288	broad.mit.edu	37	chr7	2625867	2625867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggagaagaagacgggcGccaaaaggcagaagaagatg	16	2	18	5	2	0	6	0	0	0	6	0	7	0	6	1	4	0	1	1	4	6	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:2625867G>A	uc003smo.3	+	12	1034	c.850G>A	c.(850-852)GCC>ACC	p.A284T	IQCE_uc010ksm.1_Missense_Mutation_p.A284T|IQCE_uc003sml.1_Missense_Mutation_p.A284T|IQCE_uc011jvy.1_Missense_Mutation_p.A268T|IQCE_uc011jvz.1_Missense_Mutation_p.A219T|IQCE_uc003smk.3_Missense_Mutation_p.A268T|IQCE_uc003smn.3_Missense_Mutation_p.A219T	NM_152558	NP_689771	Q6IPM2	IQCE_HUMAN	IQ motif containing E isoform 1	284											0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.23e-13)		GAAGACGGGCGCCAAAAGGCA	0.572													23	52					0	0	0.01892	0	0		A	2625867	A	A	2625867	3	1	128	1	0	0	0	0	1	0	0	0	7822	1087	38	1	896	1	IQCE	7	2625867	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08		2625867	156512796	420	70708											
CARD11	84433	broad.mit.edu	37	chr7	2953041	2953041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgctcgcagtagaaggcgcGtaccaggctgtaggggatga	9	6	17	9	4	0	2	0	1	0	1	1	3	0	3	1	4	1	6	1	4	4	3	rs149857605	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:2953041G>A	uc003smv.2	-	22	3303	c.2899C>T	c.(2899-2901)CGC>TGC	p.R967C		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	967					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		TAGAAGGCGCGTACCAGGCTG	0.677			Mis		DLBCL								24	65					0	0	0.005443	0	0		A	2953041	A	A	2953041	3	1	128	1	0	0	0	0	1	0	0	0	2648	1145	40	1	581	1	CARD11	7	2953041	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	327174	2953041	156185622	421	70709											
SDK1	221935	broad.mit.edu	37	chr7	4011175	4011175	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgctgcactgtggtgccAcacatgacccccgggtttca	7	8	10	16	2	1	1	1	1	0	0	1	1	1	1	4	2	2	3	4	2	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:4011175A>G	uc003smx.2	+	12	1931	c.1792A>G	c.(1792-1794)ACA>GCA	p.T598A		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	598	Ig-like C2-type 6.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CTGTGGTGCCACACATGACCC	0.522													3	23					0	0	0.009096	0	0		G	4011175	G	G	4011175	3	3	128	1	0	0	0	0	1	0	0	0	13993	159	6	3	1838	3	SDK1	7	4011175	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	1058134	4011175	155127488	422	70710											
SDK1	221935	broad.mit.edu	37	chr7	4091419	4091419	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcaccacccctggggaCgggcctcccagcacacctca	7	6	9	19	1	2	0	2	0	0	0	3	1	3	1	6	3	2	2	6	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:4091419C>T	uc003smx.2	+	19	3007	c.2868C>T	c.(2866-2868)GAC>GAT	p.D956D	SDK1_uc010kso.2_Silent_p.D232D	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	956	Fibronectin type-III 3.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CCCCTGGGGACGGGCCTCCCA	0.527													31	160					0	0	0.017118	0	0		T	4091419	T	T	4091419	2	4	128	1	0	0	0	0	0	0	0	1	13993	535	19	1		1	SDK1	7	4091419	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	80244	4091419	155047244	423	70711											
KIAA0415	9907	broad.mit.edu	37	chr7	4828500	4828500	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actccaccagctgctgcagcCcatggccggctgtgcccgcg	5	6	12	18	3	0	0	0	0	0	0	1	0	1	0	5	2	5	4	5	2	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:4828500C>A	uc003sne.2	+	13	1708	c.1625C>A	c.(1624-1626)CCC>CAC	p.P542H	KIAA0415_uc010ksp.2_RNA|KIAA0415_uc003snf.2_5'UTR	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	542					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		CTGCTGCAGCCCATGGCCGGC	0.706													7	18					1.12685e-05	1.15915e-05	0.004482	1	0		A	4828500	A	A	4828500	3	1	128	1	0	0	0	0	1	0	0	0	8191	623	22	5	1675	5	KIAA0415	7	4828500	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	737081	4828500	154310163	424	70712											
ZDHHC4	55146	broad.mit.edu	37	chr7	6628377	6628377	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagactactaacgagtggTacagaggtgactgggcctgg	11	7	14	9	1	0	3	0	1	0	2	0	4	0	3	2	4	3	1	2	4	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:6628377T>C	uc003sqi.2	+	9	1229	c.871T>C	c.(871-873)TAC>CAC	p.Y291H	ZDHHC4_uc003sql.2_Missense_Mutation_p.Y291H|ZDHHC4_uc003sqh.2_Missense_Mutation_p.Y291H|ZDHHC4_uc003sqj.2_Missense_Mutation_p.Y291H|ZDHHC4_uc003sqk.2_Missense_Mutation_p.Y291H|ZDHHC4_uc003sqm.2_Missense_Mutation_p.Y291H|uc011jwy.1_5'Flank|C7orf26_uc003sqo.1_5'Flank|C7orf26_uc003sqp.1_5'Flank|C7orf26_uc003sqq.1_5'Flank	NM_001134388	NP_001127860	Q9NPG8	ZDHC4_HUMAN	zinc finger, DHHC-type containing 4	291						integral to membrane	acyltransferase activity|zinc ion binding			breast(1)|pancreas(1)	2		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.1)		TAACGAGTGGTACAGAGGTGA	0.592													61	166					0	0	0.01441	0	0		C	6628377	C	C	6628377	3	2	128	1	0	0	0	0	1	0	0	0	17642	1638	57	3	893	3	ZDHHC4	7	6628377	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1799877	6628377	152510286	425	70713											
THSD7A	221981	broad.mit.edu	37	chr7	11521445	11521445	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcataggccagaatggatcGtgctcgtatctgtttccctt	7	13	10	11	3	1	1	0	0	1	1	4	2	2	2	2	2	1	4	2	2	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:11521445G>A	uc003ssf.3	-	7	2239	c.1987C>T	c.(1987-1989)CGA>TGA	p.R663*		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	663	TSP type-1 6.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		AGAATGGATCGTGCTCGTATC	0.517										HNSCC(18;0.044)			32	77					0	0	0.012213	0	0		A	11521445	A	A	11521445	4	1	128	1	0	0	0	0	0	1	0	0	15904	1153	40	1	3070	1	THSD7A	7	11521445	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4893068	11521445	147617218	426	70714											
SCIN	85477	broad.mit.edu	37	chr7	12668733	12668733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattccttccagatttggcGtgtagaaaacaatggtagga	12	11	10	8	1	0	2	0	0	0	2	2	3	2	3	3	3	1	2	3	3	5	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:12668733G>A	uc003ssn.3	+	9	1415	c.1205G>A	c.(1204-1206)CGT>CAT	p.R402H	SCIN_uc010ktt.2_RNA|SCIN_uc003sso.3_Missense_Mutation_p.R155H	NM_001112706	NP_001106177	Q9Y6U3	ADSV_HUMAN	scinderin isoform 1	402	Ca(2+)-dependent actin binding.|Gelsolin-like 4.				actin filament capping|actin filament severing|actin nucleation|calcium ion-dependent exocytosis|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of megakaryocyte differentiation|positive regulation of secretion|regulation of chondrocyte differentiation	cell cortex|cytoskeleton	1-phosphatidylinositol binding|actin filament binding|calcium ion binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		CAGATTTGGCGTGTAGAAAAC	0.338													19	59					0	0	0.006122	0	0		A	12668733	A	A	12668733	3	1	128	1	0	0	0	0	1	0	0	0	13930	1145	40	1	1239	1	SCIN	7	12668733	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1147288	12668733	146469930	427	70715											
HOXA1	3198	broad.mit.edu	37	chr7	27135012	27135012	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caaggagttattatacgtagCcagggccaggctctggtgct	9	10	13	9	1	1	0	0	0	1	0	1	1	1	1	2	4	3	4	2	4	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:27135012C>A	uc003sye.2	-	1	614	c.520G>T	c.(520-522)GCT>TCT	p.A174S	HOXA1_uc003syd.2_Intron|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	174						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3						TTATACGTAGCCAGGGCCAGG	0.592													64	157					5.26073e-25	5.75948e-25	0.01441	1	0		A	27135012	A	A	27135012	3	1	128	1	0	0	0	0	1	0	0	0	7304	739	26	5	495	5	HOXA1	7	27135012	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	14466279	27135012	132003651	428	70716											
HOXA13	3209	broad.mit.edu	37	chr7	27237864	27237864	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttttttctctttaacccTcctgttctggaaccagattg	7	17	6	11	0	2	1	0	0	2	1	4	3	3	2	3	1	2	1	3	1	2	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:27237864T>C	uc003szb.1	-	2	1149	c.1120A>G	c.(1120-1122)AGG>GGG	p.R374G	uc003szc.1_5'Flank	NM_000522	NP_000513	P31271	HXA13_HUMAN	homeobox A13	374	Homeobox.				skeletal system development	nucleus	sequence-specific DNA binding			breast(1)	1						TCTTTAACCCTCCTGTTCTGG	0.418			T	NUP98	AML								81	255					0	0	0.01441	0	0		C	27237864	C	C	27237864	3	2	128	1	0	0	0	0	1	0	0	0	7307	1550	54	3	50	3	HOXA13	7	27237864	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	102852	27237864	131900799	429	70717											
CPVL	54504	broad.mit.edu	37	chr7	29134756	29134756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggggaagtctctgtcacGcactgtgaaaacaaagaaga	15	6	11	9	1	2	3	1	1	1	2	3	4	2	4	1	2	1	1	1	2	5	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:29134756G>A	uc003szv.2	-	5	525	c.406C>T	c.(406-408)CGT>TGT	p.R136C	CPVL_uc003szw.2_Missense_Mutation_p.R136C|CPVL_uc003szx.2_Missense_Mutation_p.R136C	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	136					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						TCTCTGTCACGCACTGTGAAA	0.547													20	62					0	0	0.010504	0	0		A	29134756	A	A	29134756	3	1	128	1	0	0	0	0	1	0	0	0	3838	1087	38	1	1060	1	CPVL	7	29134756	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1896892	29134756	130003907	430	70718											
NOD1	10392	broad.mit.edu	37	chr7	30492371	30492371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctgcgtctagccggcccGtggcccagaggctctgcagc	4	6	13	18	3	2	1	0	0	2	1	2	1	2	1	5	3	4	2	5	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:30492371G>A	uc003tav.2	-	6	1185	c.662C>T	c.(661-663)ACG>ATG	p.T221M	NOD1_uc010kvs.2_Intron	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	221	NACHT.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						TAGCCGGCCCGTGGCCCAGAG	0.592													28	67					0	0	0.007291	0	0		A	30492371	A	A	30492371	3	1	128	1	0	0	0	0	1	0	0	0	10535	1145	40	1	2235	1	NOD1	7	30492371	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1357615	30492371	128646292	431	70719											
ADCYAP1R1	117	broad.mit.edu	37	chr7	31124942	31124942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggaagctgcactgcacacGcaacttcatccacatgaacc	13	7	7	14	1	1	1	1	1	0	0	2	2	2	2	2	1	5	4	2	1	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:31124942G>A	uc003tca.1	+	9	777	c.554G>A	c.(553-555)CGC>CAC	p.R185H	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.R164H|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.R185H|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.R185H|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.R185H|ADCYAP1R1_uc003tcf.1_5'Flank	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	185	Cytoplasmic (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						CACTGCACACGCAACTTCATC	0.542													39	96					0	0	0.00874	0	0		A	31124942	A	A	31124942	3	1	128	1	0	0	0	0	1	0	0	0	303	1087	38	1	584	1	ADCYAP1R1	7	31124942	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	632571	31124942	128013721	432	70720											
GLI3	2737	broad.mit.edu	37	chr7	42005764	42005764	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggggcatgaactggaggcagGgccacgccaggctcgagggc	8	3	19	11	2	0	1	0	1	0	0	1	3	0	2	2	7	1	3	2	7	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:42005764G>T	uc011kbh.1	-	15	2998	c.2907C>A	c.(2905-2907)GCC>GCA	p.A969A	GLI3_uc011kbg.1_Silent_p.A910A	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	969					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CTGGAGGCAGGGCCACGCCAG	0.741									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				10	14					3.86212e-05	3.95138e-05	0.008291	1	0		T	42005764	T	T	42005764	2	4	128	1	0	0	0	0	0	0	0	1	6454	1219	43	5		5	GLI3	7	42005764	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	10880822	42005764	117132899	433	70721											
HECW1	23072	broad.mit.edu	37	chr7	43484841	43484841	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcctcgtgctacagcacGtcctgctacagcagctcgtg	7	9	10	15	3	0	0	0	0	0	0	4	0	2	0	2	0	8	6	2	0	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:43484841G>A	uc003tid.1	+	11	2675	c.2070G>A	c.(2068-2070)ACG>ACA	p.T690T	HECW1_uc011kbi.1_Silent_p.T690T	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	690	Cys-rich.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GCTACAGCACGTCCTGCTACA	0.652													14	69					0	0	0.003163	0	0		A	43484841	A	A	43484841	2	1	128	1	0	0	0	0	0	0	0	1	7058	1132	40	1		1	HECW1	7	43484841	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1479077	43484841	115653822	434	70722											
NPC1L1	29881	broad.mit.edu	37	chr7	44571767	44571767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccctctccctggccaggcGggggcagctcctggggcttg	2	7	16	16	1	1	0	0	0	1	0	3	0	2	0	5	6	1	3	5	6	0	1	rs151211428		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:44571767G>A	uc003tlb.2	-	9	2515	c.2459C>T	c.(2458-2460)CCG>CTG	p.P820L	NPC1L1_uc003tlc.2_Missense_Mutation_p.P820L|NPC1L1_uc011kbw.1_Missense_Mutation_p.P820L	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	820	Cytoplasmic (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	CTGGCCAGGCGGGGGCAGCTC	0.642													4	199					0	0	0.001984	0	0		A	44571767	A	A	44571767	3	1	128	1	0	0	0	0	1	0	0	0	10590	1116	39	1	1668	1	NPC1L1	7	44571767	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1086926	44571767	114566896	435	70723											
ZMIZ2	83637	broad.mit.edu	37	chr7	44801116	44801116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggtcctggagcccttcCgcctgcagcacaacctggct	5	8	13	15	1	0	0	0	0	0	0	2	1	2	1	5	4	4	3	5	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:44801116C>T	uc003tlr.2	+	10	1432	c.1309C>T	c.(1309-1311)CGC>TGC	p.R437C	ZMIZ2_uc003tlq.2_Missense_Mutation_p.R379C|ZMIZ2_uc003tls.2_Missense_Mutation_p.R411C|ZMIZ2_uc003tlt.2_Missense_Mutation_p.R60C|ZMIZ2_uc010kyj.2_5'UTR	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	437	Interaction with AR.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						GGAGCCCTTCCGCCTGCAGCA	0.627													23	77					0	0	0.01892	0	0		T	44801116	T	T	44801116	3	4	128	1	0	0	0	0	1	0	0	0	17722	652	23	1	1343	1	ZMIZ2	7	44801116	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	229349	44801116	114337547	436	70724											
ZPBP	11055	broad.mit.edu	37	chr7	49977188	49977188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcaatgaattccatcaCgggggttatatgatccaggg	12	9	13	7	1	1	2	1	2	0	0	3	3	3	2	2	4	0	2	2	4	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:49977188C>T	uc003tou.2	-	8	1062	c.992G>A	c.(991-993)CGT>CAT	p.R331H	ZPBP_uc011kci.1_Missense_Mutation_p.R257H|ZPBP_uc010kyw.2_Missense_Mutation_p.R330H	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	331					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					AATTCCATCACGGGGGTTATA	0.318													36	137					0	0	0.005524	0	0		T	49977188	T	T	49977188	3	4	128	1	0	0	0	0	1	0	0	0	18244	536	19	1	67	1	ZPBP	7	49977188	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5176072	49977188	109161475	437	70725											
GRB10	2887	broad.mit.edu	37	chr7	50683938	50683938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttggtggagcaataaaggCcagatctccgcaaacacaca	14	6	9	12	1	1	1	0	0	1	1	2	2	1	2	3	3	2	2	3	3	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:50683938C>T	uc003tpi.2	-	8	984	c.953G>A	c.(952-954)GGC>GAC	p.G318D	GRB10_uc003tph.3_Missense_Mutation_p.G260D|GRB10_uc003tpj.2_Intron|GRB10_uc003tpk.2_Missense_Mutation_p.G318D|GRB10_uc010kzb.2_Missense_Mutation_p.G260D|GRB10_uc003tpl.2_Missense_Mutation_p.G312D|GRB10_uc003tpm.2_Missense_Mutation_p.G260D|GRB10_uc003tpn.2_Missense_Mutation_p.G260D	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	318	PH.				insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					GCAATAAAGGCCAGATCTCCG	0.473									Russell-Silver_syndrome				18	83					0	0	0.010504	0	0		T	50683938	T	T	50683938	3	4	128	1	0	0	0	0	1	0	0	0	6772	739	26	2	867	2	GRB10	7	50683938	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	706750	50683938	108454725	438	70726											
LANCL2	55915	broad.mit.edu	37	chr7	55479657	55479657	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgaaacccagtattgatTatgtgcgccacaaaaaattc	14	11	8	8	1	0	2	0	2	0	0	1	2	0	2	2	1	2	1	2	1	6	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:55479657T>C	uc003tqp.2	+	6	1461	c.883T>C	c.(883-885)TAT>CAT	p.Y295H		NM_018697	NP_061167	Q9NS86	LANC2_HUMAN	LanC lantibiotic synthetase component C-like 2	295					negative regulation of transcription, DNA-dependent|positive regulation of abscisic acid mediated signaling pathway	cortical actin cytoskeleton|cytosol|nucleus|plasma membrane	ATP binding|catalytic activity|GTP binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding			ovary(1)|skin(1)	2	Breast(14;0.0379)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00128)|Epithelial(13;0.0706)			CAGTATTGATTATGTGCGCCA	0.448													14	172					0	0	0.020292	0	0		C	55479657	C	C	55479657	3	2	128	1	0	0	0	0	1	0	0	0	8637	1754	61	3	905	3	LANCL2	7	55479657	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	4795719	55479657	103659006	439	70727											
ZNF713	349075	broad.mit.edu	37	chr7	55990944	55990944	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaagaacctctatcgagaCgtgatgctggagaactacag	15	7	10	9	2	1	4	0	1	1	3	2	6	1	4	1	1	4	1	1	1	6	2	rs147455939		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:55990944C>T	uc003trc.1	+	2	176	c.138C>T	c.(136-138)GAC>GAT	p.D46D	ZNF713_uc003tra.1_Silent_p.D59D|MRPS17_uc003trb.2_Silent_p.D46D	NM_182633	NP_872439	Q8N859	ZN713_HUMAN	zinc finger protein 713	46	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TCTATCGAGACGTGATGCTGG	0.512													45	107					0	0	0.01441	0	0		T	55990944	T	T	55990944	2	4	128	1	0	0	0	0	0	0	0	1	18142	535	19	1		1	ZNF713	7	55990944	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	511287	55990944	103147719	440	70728											
ASL	435	broad.mit.edu	37	chr7	65557802	65557802	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtgggactacgggcacaGtgtggagcagtatggtgccc	7	8	17	9	2	0	0	0	0	0	0	0	2	0	2	1	4	3	3	1	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:65557802G>T	uc003tuo.2	+	17	1409	c.1298G>T	c.(1297-1299)AGT>ATT	p.S433I	ASL_uc003tup.2_Missense_Mutation_p.S433I|ASL_uc003tur.2_Missense_Mutation_p.S407I|ASL_uc003tuq.2_Missense_Mutation_p.S413I	NM_000048	NP_000039	P04424	ARLY_HUMAN	argininosuccinate lyase isoform 1	433					arginine biosynthetic process via ornithine|arginine catabolic process|urea cycle	cytosol	argininosuccinate lyase activity			breast(2)	2					L-Arginine(DB00125)	TACGGGCACAGTGTGGAGCAG	0.697													52	157					4.48537e-47	4.98876e-47	0.01441	1	0		T	65557802	T	T	65557802	3	4	128	1	0	0	0	0	1	0	0	0	1045	1029	36	5	1360	5	ASL	7	65557802	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	9566858	65557802	93580861	441	70729											
WBSCR17	64409	broad.mit.edu	37	chr7	71130562	71130562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagtctcatgtgtacatagCgtggaacctgccgctggagg	9	9	13	10	2	1	0	1	0	1	0	2	2	1	2	2	3	4	2	2	3	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:71130562C>T	uc003tvy.2	+	7	1247	c.1247C>T	c.(1246-1248)GCG>GTG	p.A416V	WBSCR17_uc003tvz.2_Missense_Mutation_p.A115V	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	416	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				GTGTACATAGCGTGGAACCTG	0.463													10	39					0	0	0.020292	0	0		T	71130562	T	T	71130562	3	4	128	1	0	0	0	0	1	0	0	0	17290	768	27	1	1273	1	WBSCR17	7	71130562	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5572760	71130562	88008101	442	70730											
MLXIPL	51085	broad.mit.edu	37	chr7	73010969	73010969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaacccctctctttacCgctgggcgctgggggtgaga	5	9	13	14	2	1	1	0	1	1	1	2	2	1	1	4	3	3	3	4	3	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:73010969C>T	uc003tyn.1	-	11	1870	c.1822G>A	c.(1822-1824)GGC>AGC	p.G608S	MLXIPL_uc003tyj.1_Intron|MLXIPL_uc003tyk.1_Missense_Mutation_p.G608S|MLXIPL_uc003tyl.1_Missense_Mutation_p.G608S|MLXIPL_uc003tym.1_Missense_Mutation_p.G608S|MLXIPL_uc003tyo.1_Intron|MLXIPL_uc003typ.1_Missense_Mutation_p.G514S	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	608					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				CTCTCTTTACCGCTGGGCGCT	0.667													4	12					0	0	0.001168	0	0		T	73010969	T	T	73010969	3	4	128	1	0	0	0	0	1	0	0	0	9655	666	23	1	764	1	MLXIPL	7	73010969	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1880407	73010969	86127694	443	70731											
PCLO	27445	broad.mit.edu	37	chr7	82582682	82582682	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcctgttggtttggggtgTatatctgttggtttttgtgt	3	20	15	3	0	1	0	0	0	1	0	1	0	1	0	1	5	0	5	1	5	2	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:82582682T>C	uc003uhx.2	-	5	7876	c.7587A>G	c.(7585-7587)ATA>ATG	p.I2529M	PCLO_uc003uhv.2_Missense_Mutation_p.I2529M|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2460	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GTTTGGGGTGTATATCTGTTG	0.448													15	115					0	0	0.004007	0	0		C	82582682	C	C	82582682	3	2	128	1	0	0	0	0	1	0	0	0	11602	1628	57	3	7942	3	PCLO	7	82582682	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	9571713	82582682	76555981	444	70732											
PCLO	27445	broad.mit.edu	37	chr7	82583741	82583741	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaaggtgtgtcagagggtggGacagatgtagcactttctga	10	10	16	5	0	2	3	1	1	1	2	2	5	2	4	0	3	1	2	0	3	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:82583741G>A	uc003uhx.2	-	5	6817	c.6528C>T	c.(6526-6528)GTC>GTT	p.V2176V	PCLO_uc003uhv.2_Silent_p.V2176V|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2107					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CAGAGGGTGGGACAGATGTAG	0.428													27	97					0	0	0.00632	0	0		A	82583741	A	A	82583741	2	1	128	1	0	0	0	0	0	0	0	1	11602	1161	41	4		4	PCLO	7	82583741	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1059	82583741	76554922	445	70733											
SEMA3E	9723	broad.mit.edu	37	chr7	83029537	83029537	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatagtccttggtggttccGtatctccctccatttacttt	5	17	8	11	1	1	0	0	0	1	0	5	1	4	1	4	3	1	2	4	3	3	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:83029537G>A	uc003uhy.1	-	11	1639	c.1173C>T	c.(1171-1173)TAC>TAT	p.Y391Y		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	391	Sema.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				TGGTGGTTCCGTATCTCCCTC	0.388													54	154					0	0	0.01441	0	0		A	83029537	A	A	83029537	2	1	128	1	0	0	0	0	0	0	0	1	14053	1140	40	1		1	SEMA3E	7	83029537	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	445796	83029537	76109126	446	70734											
COL1A2	1278	broad.mit.edu	37	chr7	94039080	94039080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggcctccctggaccccgcGgtattcctggccctgttggt	2	10	12	17	3	0	0	0	0	0	0	2	1	2	1	7	5	0	2	7	5	1	3	rs66612022		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:94039080G>A	uc003ung.1	+	19	1453	c.982G>A	c.(982-984)GGT>AGT	p.G328S	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	328			G -> S (in OI1, OI3 AND OI4).		axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TGGACCCCGCGGTATTCCTGG	0.587										HNSCC(75;0.22)			35	122					0	0	0.021022	0	0		A	94039080	A	A	94039080	3	1	128	1	0	0	0	0	1	0	0	0	3681	1116	39	1	1056	1	COL1A2	7	94039080	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	11009543	94039080	65099583	447	70735											
CUX1	1523	broad.mit.edu	37	chr7	101755048	101755048	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcataaggttcagagcctaCaaacaggtttgatactctcc	13	10	8	10	0	2	2	1	1	1	1	3	2	2	2	2	2	5	3	2	2	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:101755048C>T	uc003uyx.3	+	7	639	c.601C>T	c.(601-603)CAA>TAA	p.Q201*	CUX1_uc003uys.3_Nonsense_Mutation_p.Q212*|CUX1_uc003uyt.2_Nonsense_Mutation_p.Q212*|CUX1_uc011kkn.1_Nonsense_Mutation_p.Q175*|CUX1_uc003uyw.2_Nonsense_Mutation_p.Q166*|CUX1_uc003uyv.2_Nonsense_Mutation_p.Q196*|CUX1_uc003uyu.2_Nonsense_Mutation_p.Q212*	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	201	Potential.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						TCAGAGCCTACAAACAGGTTT	0.562													10	36					0	0	0.008291	0	0		T	101755048	T	T	101755048	4	4	128	1	0	0	0	0	0	1	0	0	4067	479	17	4	694	4	CUX1	7	101755048	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	7715968	101755048	57383615	448	70736											
ARMC10	83787	broad.mit.edu	37	chr7	102738782	102738782	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttccctttatgacagccacGtagcaaaggagattcttctt	10	14	7	10	1	2	2	0	1	2	1	3	3	3	2	2	1	2	2	2	1	3	7	rs142543653		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:102738782G>A	uc003vaw.1	+	7	1206	c.814G>A	c.(814-816)GTA>ATA	p.V272I	ARMC10_uc003vay.1_Missense_Mutation_p.V213I|ARMC10_uc003vax.1_Missense_Mutation_p.V237I|ARMC10_uc003vbb.1_Missense_Mutation_p.V178I|ARMC10_uc011kli.1_Missense_Mutation_p.V213I|ARMC10_uc010lis.1_Missense_Mutation_p.V154I|ARMC10_uc003vba.1_RNA|ARMC10_uc003vaz.1_Missense_Mutation_p.V150I	NM_031905	NP_114111	Q8N2F6	ARM10_HUMAN	SVH protein isoform a	272					regulation of growth	endoplasmic reticulum membrane|integral to membrane	binding			ovary(1)	1						TGACAGCCACGTAGCAAAGGA	0.328													13	51					0	0	0.013537	0	0		A	102738782	A	A	102738782	3	1	128	1	0	0	0	0	1	0	0	0	951	1145	40	1	840	1	ARMC10	7	102738782	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	983734	102738782	56399881	449	70737											
RELN	5649	broad.mit.edu	37	chr7	103163896	103163896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtctatgcagccatcccCgatatagacattatctattg	11	13	6	11	1	2	1	0	0	2	1	3	2	3	1	3	0	2	1	3	0	5	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:103163896C>T	uc003vca.2	-	47	7592	c.7432G>A	c.(7432-7434)GGG>AGG	p.G2478R	RELN_uc010liz.2_Missense_Mutation_p.G2478R	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2478	EGF-like 6.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CAGCCATCCCCGATATAGACA	0.473													51	187					0	0	0.01441	0	0		T	103163896	T	T	103163896	3	4	128	1	0	0	0	0	1	0	0	0	13245	652	23	1	3026	1	RELN	7	103163896	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	425114	103163896	55974767	450	70738											
MLL5	55904	broad.mit.edu	37	chr7	104681433	104681433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccattgggggttgatacaGcagagacgtcatacttggaa	11	10	12	8	1	1	2	1	1	0	1	2	4	2	3	1	3	3	2	1	3	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:104681433G>A	uc003vcm.2	+	3	568	c.34G>A	c.(34-36)GCA>ACA	p.A12T	MLL5_uc010lja.1_5'UTR|MLL5_uc010ljb.1_Missense_Mutation_p.A12T|MLL5_uc003vcl.2_Missense_Mutation_p.A12T|MLL5_uc010ljc.2_Missense_Mutation_p.A12T	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	12					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						GGTTGATACAGCAGAGACGTC	0.408													43	134					0	0	0.01441	0	0		A	104681433	A	A	104681433	3	1	128	1	0	0	0	0	1	0	0	0	9642	971	34	2	36	2	MLL5	7	104681433	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1517537	104681433	54457230	451	70739											
FOXP2	93986	broad.mit.edu	37	chr7	114304351	114304351	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttggcagagagcagtttAcctttgctaagtaatcctgg	9	12	11	9	0	0	1	0	0	0	1	1	2	1	1	3	2	3	5	3	2	3	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:114304351A>G	uc003vhb.2	+	16	2237	c.1863A>G	c.(1861-1863)TTA>TTG	p.L621L	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Silent_p.L646L|FOXP2_uc003vha.2_Silent_p.L529L|FOXP2_uc011kmu.1_Silent_p.L638L|FOXP2_uc011kmv.1_Silent_p.L620L|FOXP2_uc010ljz.1_Silent_p.L436L	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	621					camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						AGAGCAGTTTACCTTTGCTAA	0.388													16	64					0	0	0.010504	0	0		G	114304351	G	G	114304351	2	3	128	1	0	0	0	0	0	0	0	1	6041	388	14	3		3	FOXP2	7	114304351	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	9622918	114304351	44834312	452	70740											
RNF133	168433	broad.mit.edu	37	chr7	122338804	122338804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccaaagactccagtctctcCcaactctgacaacacatgat	13	9	4	15	0	2	3	0	2	2	1	6	3	5	3	3	0	2	0	3	0	3	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:122338804C>T	uc003vkj.1	-	1	405	c.169G>A	c.(169-171)GGA>AGA	p.G57R	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron	NM_139175	NP_631914	Q8WVZ7	RN133_HUMAN	ring finger protein 133	57						endoplasmic reticulum membrane|integral to membrane	ligase activity|zinc ion binding			skin(1)	1						CCAGTCTCTCCCAACTCTGAC	0.423													6	242					0	0	0.00308	0	0		T	122338804	T	T	122338804	3	4	128	1	0	0	0	0	1	0	0	0	13464	632	22	4	965	4	RNF133	7	122338804	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	8034453	122338804	36799859	453	70741											
GCC1	79571	broad.mit.edu	37	chr7	127224963	127224963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcggtcccagtgctatcctCgctgtgagtggagcaccggt	5	9	15	12	3	0	1	0	1	0	0	3	2	2	2	3	4	2	3	3	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:127224963C>T	uc003vma.2	-	1	692	c.274G>A	c.(274-276)GAG>AAG	p.E92K		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	92						Golgi membrane|plasma membrane	protein binding			ovary(2)	2						GTGCTATCCTCGCTGTGAGTG	0.612													15	68					0	0	0.007413	0	0		T	127224963	T	T	127224963	3	4	128	1	0	0	0	0	1	0	0	0	6300	893	31	1	2061	1	GCC1	7	127224963	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4886159	127224963	31913700	454	70742											
SND1	27044	broad.mit.edu	37	chr7	127447556	127447556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggataagaacaagaaactgCgtcccctgtatgacattcct	14	9	8	10	1	0	3	0	1	0	2	2	4	2	4	3	1	3	1	3	1	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:127447556C>T	uc003vmi.2	+	11	1397	c.1171C>T	c.(1171-1173)CGT>TGT	p.R391C	SND1_uc010lle.2_Missense_Mutation_p.R44C	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	391	Nuclear localization signal (Potential).|TNase-like 3.				gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						CAAGAAACTGCGTCCCCTGTA	0.358													32	110					0	0	0.015359	0	0		T	127447556	T	T	127447556	3	4	128	1	0	0	0	0	1	0	0	0	14869	768	27	1	1213	1	SND1	7	127447556	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	222593	127447556	31691107	455	70743											
LRRC4	64101	broad.mit.edu	37	chr7	127670140	127670140	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctccctcagagatatacTccagcttcttgagctccccc	9	10	6	16	0	2	2	1	1	1	1	5	3	5	2	4	0	4	3	4	0	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:127670140T>A	uc003vmk.2	-	2	691	c.554A>T	c.(553-555)GAG>GTG	p.E185V	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	185	LRR 5.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		AGAGATATACTCCAGCTTCTT	0.547													24	127					0	0	0.021523	0	0		A	127670140	A	A	127670140	3	1	128	1	0	0	0	0	1	0	0	0	9015	1551	54	5	1411	5	LRRC4	7	127670140	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	222584	127670140	31468523	456	70744											
SMO	6608	broad.mit.edu	37	chr7	128845210	128845210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacatgcacagctacatcgCggccttcggggccgtcacgg	7	6	14	14	5	1	0	1	0	0	0	3	1	1	1	2	5	3	2	2	5	1	2	rs142599757		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:128845210C>T	uc003vor.2	+	3	984	c.704C>T	c.(703-705)GCG>GTG	p.A235V	SMO_uc003vos.2_5'Flank	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	235	Helical; Name=1; (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						AGCTACATCGCGGCCTTCGGG	0.677			Mis		skin basal cell 								14	29					0	0	0.003163	0	0		T	128845210	T	T	128845210	3	4	128	1	0	0	0	0	1	0	0	0	14825	768	27	1	714	1	SMO	7	128845210	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1175070	128845210	30293453	457	70745											
SMO	6608	broad.mit.edu	37	chr7	128845574	128845574	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcatggatggtgcccgcCgagagatcgtctgccgtgca	7	9	14	11	4	2	1	1	0	1	1	3	4	2	2	3	2	3	2	3	2	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:128845574C>T	uc003vor.2	+	4	1151	c.871C>T	c.(871-873)CGA>TGA	p.R291*	SMO_uc003vos.2_5'Flank	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	291	Extracellular (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						TGGTGCCCGCCGAGAGATCGT	0.577			Mis		skin basal cell 								30	65					0	0	0.009535	0	0		T	128845574	T	T	128845574	4	4	128	1	0	0	0	0	0	1	0	0	14825	644	23	1	885	1	SMO	7	128845574	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	364	128845574	30293089	458	70746											
PLXNA4	91584	broad.mit.edu	37	chr7	132192529	132192530	+	Missense_Mutation	DNP	GC	AA	AA																															aggtaggcagcctgcagcagGcggtactccaccccactgcg																								rs149257060		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:132192529_132192530GC>AA	uc003vra.3	-	2	1152_1153	c.923_924GC>TT	c.(922-924)CGC>CTT	p.R308L	PLXNA4_uc003vrc.2_Missense_Mutation_p.R308L|PLXNA4_uc003vrb.2_Missense_Mutation_p.R308L	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	308	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CCTGCAGCAGGCGGTACTCCAC	0.584													11	40					0	0	0.004672	0	0		AA	132192530	AA	AA	132192529	3	1	128	1	0	0	0	0	1	0	0	0	12141	1190	42	2	5198	2	PLXNA4	7	132192529	Missense_Mutation	DNP	GC	TCGA-CG-4306-01A-01D-1158-08	3346955	132192529	26946134	459	70747											
CALD1	800	broad.mit.edu	37	chr7	134617839	134617839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctcggcgtgaggaaagaCgccaaaaacgccttcaggag	12	5	14	10	4	1	2	1	1	0	1	2	4	1	4	2	4	1	1	2	4	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:134617839C>T	uc003vrz.2	+	5	778	c.319C>T	c.(319-321)CGC>TGC	p.R107C	CALD1_uc003vry.2_Missense_Mutation_p.R107C|CALD1_uc003vsa.2_Missense_Mutation_p.R107C|CALD1_uc003vsb.2_Missense_Mutation_p.R107C|CALD1_uc010lmm.2_Missense_Mutation_p.R107C|CALD1_uc011kpt.1_Intron|CALD1_uc003vsc.2_Missense_Mutation_p.R101C|CALD1_uc003vsd.2_Missense_Mutation_p.R101C|CALD1_uc011kpu.1_Missense_Mutation_p.R112C|CALD1_uc011kpv.1_Translation_Start_Site|CALD1_uc003vse.2_Translation_Start_Site	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	107	Myosin and calmodulin-binding (By similarity).				cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						TGAGGAAAGACGCCAAAAACG	0.552													14	47					0	0	0.003163	0	0		T	134617839	T	T	134617839	3	4	128	1	0	0	0	0	1	0	0	0	2584	536	19	1	386	1	CALD1	7	134617839	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2425310	134617839	24520824	460	70748											
CALD1	800	broad.mit.edu	37	chr7	134635160	134635160	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctaaaggaagagattgaaagGcgaagagcagaagctgctga	17	5	14	5	1	0	5	0	2	0	3	0	8	0	6	0	2	3	3	0	2	6	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:134635160G>A	uc003vrz.2	+	9	2289	c.1830G>A	c.(1828-1830)AGG>AGA	p.R610R	CALD1_uc003vry.2_Silent_p.R355R|CALD1_uc003vsa.2_Silent_p.R381R|CALD1_uc003vsb.2_Silent_p.R355R|CALD1_uc010lmm.2_Silent_p.R381R|CALD1_uc011kpt.1_Silent_p.R129R|CALD1_uc003vsc.2_Silent_p.R375R|CALD1_uc003vsd.2_Silent_p.R349R|CALD1_uc011kpu.1_Silent_p.R360R|CALD1_uc011kpv.1_Silent_p.R219R|CALD1_uc003vse.2_Silent_p.R474R	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	610	Tropomyosin-binding (Potential).				cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						AGATTGAAAGGCGAAGAGCAG	0.458													20	56					0	0	0.010504	0	0		A	134635160	A	A	134635160	2	1	128	1	0	0	0	0	0	0	0	1	2584	1194	42	2		2	CALD1	7	134635160	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	17321	134635160	24503503	461	70749											
DENND2A	27147	broad.mit.edu	37	chr7	140285478	140285478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcgaccatgtaactcgaTgtcctcataagggttctcct	9	11	9	12	2	2	0	1	0	1	0	5	2	3	0	3	1	2	3	3	1	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:140285478T>C	uc010lnj.2	-	3	1301	c.1156A>G	c.(1156-1158)ATC>GTC	p.I386V	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.I386V|DENND2A_uc003vvw.2_Missense_Mutation_p.I386V|DENND2A_uc003vvx.2_Missense_Mutation_p.I386V	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	386										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					TGTAACTCGATGTCCTCATAA	0.488													49	157					0	0	0.01441	0	0		C	140285478	C	C	140285478	3	2	128	1	0	0	0	0	1	0	0	0	4435	1464	51	3	1937	3	DENND2A	7	140285478	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	5650318	140285478	18853185	462	70750											
SSBP1	6742	broad.mit.edu	37	chr7	141443711	141443711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgatttaggtgatgtcaGtcaaaagacaacatggcaca	15	11	9	6	0	2	3	2	2	0	1	2	3	2	3	0	2	1	1	0	2	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:141443711G>A	uc003vwo.1	+	5	314	c.236G>A	c.(235-237)AGT>AAT	p.S79N	SSBP1_uc011kri.1_Missense_Mutation_p.S79N|SSBP1_uc010lnp.1_Missense_Mutation_p.S79N	NM_003143	NP_003134	Q04837	SSBP_HUMAN	single-stranded DNA binding protein 1 precursor	79	SSB.				DNA replication|positive regulation of helicase activity	mitochondrial nucleoid	single-stranded DNA binding			ovary(1)	1	Melanoma(164;0.0171)					GGTGATGTCAGTCAAAAGACA	0.408													18	61					0	0	0.00499	0	0		A	141443711	A	A	141443711	3	1	128	1	0	0	0	0	1	0	0	0	15204	1029	36	4	250	4	SSBP1	7	141443711	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1158233	141443711	17694952	463	70751											
NOBOX	135935	broad.mit.edu	37	chr7	144098304	144098304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgggttgtgtgtggcacGggctgagttaggggcacccg	5	9	18	9	2	0	1	0	1	0	0	0	1	0	1	1	5	0	5	1	5	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:144098304G>A	uc011kue.1	-	4	679	c.679C>T	c.(679-681)CGT>TGT	p.R227C		NM_001080413	NP_001073882	O60393	NOBOX_HUMAN	NOBOX oogenesis homeobox	227					cell differentiation|oogenesis	nucleus	sequence-specific DNA binding			ovary(1)	1	Melanoma(164;0.14)					TGTGTGGCACGGGCTGAGTTA	0.597													12	39					0	0	0.016723	0	0		A	144098304	A	A	144098304	3	1	128	1	0	0	0	0	1	0	0	0	10531	1116	39	1	1328	1	NOBOX	7	144098304	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2654593	144098304	15040359	464	70752											
CNTNAP2	26047	broad.mit.edu	37	chr7	147092805	147092805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcaacttgtaaatttatacGaagtggcacaaaggaagccg	16	9	9	7	2	1	0	1	0	0	0	1	2	1	1	1	2	3	2	1	2	8	5	rs76475298	by1000genomes	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:147092805G>A	uc003weu.1	+	10	2119	c.1603G>A	c.(1603-1605)GAA>AAA	p.E535K		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	535	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			AAATTTATACGAAGTGGCACA	0.438										HNSCC(39;0.1)			7	309					0	0	0.001984	0	0		A	147092805	A	A	147092805	3	1	128	1	0	0	0	0	1	0	0	0	3650	1059	37	1	1641	1	CNTNAP2	7	147092805	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2994501	147092805	12045858	465	70753											
ZNF777	27153	broad.mit.edu	37	chr7	149129019	149129019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgaagcgcttgccgcactCggcgcagtggtagggccgct	5	7	16	13	6	0	1	0	1	0	0	1	1	0	1	2	3	2	5	2	3	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:149129019C>T	uc003wfv.2	-	6	2507	c.2344G>A	c.(2344-2346)GAG>AAG	p.E782K		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	Error:Variant_position_missing_in_Q9ULD5_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			TTGCCGCACTCGGCGCAGTGG	0.692													28	56					0	0	0.009535	0	0		T	149129019	T	T	149129019	3	4	128	1	0	0	0	0	1	0	0	0	18175	893	31	1	155	1	ZNF777	7	149129019	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2036214	149129019	10009644	466	70754											
ZNF777	27153	broad.mit.edu	37	chr7	149129035	149129035	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cactcggcgcagtggtagggCcgctcgcctgtgtggatgcg	4	8	17	12	5	0	0	0	0	0	0	2	1	0	1	2	4	1	3	2	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:149129035C>T	uc003wfv.2	-	6	2491	c.2328G>A	c.(2326-2328)CGG>CGA	p.R776R		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	Error:Variant_position_missing_in_Q9ULD5_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			AGTGGTAGGGCCGCTCGCCTG	0.706													7	63					0	0	0.016723	0	0		T	149129035	T	T	149129035	2	4	128	1	0	0	0	0	0	0	0	1	18175	726	26	2		2	ZNF777	7	149129035	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	16	149129035	10009628	467	70755											
ABCB8	11194	broad.mit.edu	37	chr7	150732996	150732996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcaatgggcgtagcagacGaggccctgggcaatgtgcgg	8	5	19	9	3	0	1	0	0	0	1	0	2	0	1	1	5	2	4	1	5	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:150732996G>A	uc003wil.3	+	8	1099	c.1006G>A	c.(1006-1008)GAG>AAG	p.E336K	ABCB8_uc003wii.2_Missense_Mutation_p.E356K|ABCB8_uc003wij.3_Missense_Mutation_p.E319K|ABCB8_uc010lpw.1_Missense_Mutation_p.R184Q|ABCB8_uc010lpx.2_Missense_Mutation_p.E319K|ABCB8_uc011kvd.1_Missense_Mutation_p.E231K|ABCB8_uc003wim.3_Missense_Mutation_p.E114K|ABCB8_uc003wik.3_Missense_Mutation_p.E319K	NM_007188	NP_009119	Q9NUT2	ABCB8_HUMAN	ATP-binding cassette, sub-family B, member 8	336	ABC transmembrane type-1.					ATP-binding cassette (ABC) transporter complex|integral to membrane|membrane fraction|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGTAGCAGACGAGGCCCTGGG	0.617													13	80					0	0	0.016723	0	0		A	150732996	A	A	150732996	3	1	128	1	0	0	0	0	1	0	0	0	47	1059	37	1	981	1	ABCB8	7	150732996	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1603961	150732996	8405667	468	70756											
CDK5	1020	broad.mit.edu	37	chr7	150751541	150751541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccactgctcctcggtgggcGtccccagcagtgtgtccacg	4	8	13	16	3	0	0	0	0	0	0	4	0	3	0	5	2	2	2	5	2	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:150751541G>A	uc003wir.1	-	10	723	c.662C>T	c.(661-663)ACG>ATG	p.T221M		NM_004935	NP_004926	Q00535	CDK5_HUMAN	cyclin-dependent kinase 5 isoform 1	221	Protein kinase.				activation of pro-apoptotic gene products|blood coagulation|cell division|cell proliferation|embryo development|negative regulation of transcription, DNA-dependent|positive regulation of neuron apoptosis	axon|cytosol|dendrite|growth cone|lamellipodium|membrane|neuromuscular junction|neuronal cell body	acetylcholine receptor activator activity|ATP binding|cyclin-dependent protein kinase activity|ErbB-2 class receptor binding|ErbB-3 class receptor binding|tau-protein kinase activity			lung(1)|central_nervous_system(1)	2		Breast(660;0.159)|Ovarian(593;0.182)	OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)|LUSC - Lung squamous cell carcinoma(290;0.008)|Lung(243;0.00942)|BRCA - Breast invasive adenocarcinoma(188;0.242)		CTCGGTGGGCGTCCCCAGCAG	0.597													21	57					0	0	0.012319	0	0		A	150751541	A	A	150751541	3	1	128	1	0	0	0	0	1	0	0	0	3145	1145	40	1	228	1	CDK5	7	150751541	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	18545	150751541	8387122	469	70757											
SLC4A2	6522	broad.mit.edu	37	chr7	150771346	150771346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcatcgccttcttcctgcGcaaattcaagaacagccggt	9	11	7	14	3	3	1	2	0	1	1	5	1	4	1	3	1	3	1	3	1	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:150771346G>A	uc003wit.3	+	17	3012	c.2756G>A	c.(2755-2757)CGC>CAC	p.R919H	SLC4A2_uc011kve.1_Missense_Mutation_p.R910H|SLC4A2_uc003wiu.3_Missense_Mutation_p.R905H|SLC4A2_uc003wiv.3_Missense_Mutation_p.R113H	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	919	Membrane (anion exchange).|Cytoplasmic (Potential).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TTCTTCCTGCGCAAATTCAAG	0.652													24	62					0	0	0.004656	0	0		A	150771346	A	A	150771346	3	1	128	1	0	0	0	0	1	0	0	0	14679	1087	38	1	2818	1	SLC4A2	7	150771346	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	19805	150771346	8367317	470	70758											
MLL3	58508	broad.mit.edu	37	chr7	151879075	151879075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataggggtcattatttgtcGtggaagaagaacataaatct	14	12	10	5	1	2	2	1	0	1	2	3	3	2	3	0	3	1	0	0	3	7	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:151879075G>A	uc003wla.2	-	36	6089	c.5870C>T	c.(5869-5871)ACG>ATG	p.T1957M	MLL3_uc003wkz.2_Missense_Mutation_p.T1018M	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1957	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ATTATTTGTCGTGGAAGAAGA	0.453			N		medulloblastoma								91	379					0	0	0.01441	0	0		A	151879075	A	A	151879075	3	1	128	1	0	0	0	0	1	0	0	0	9640	1145	40	1	8961	1	MLL3	7	151879075	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1107729	151879075	7259588	471	70759											
CNPY1	285888	broad.mit.edu	37	chr7	155301590	155301590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcaaggaagagagcttaccGcaaatttcaaaggtctgtaa	15	9	10	7	1	2	1	1	0	1	1	2	3	2	2	1	2	3	4	1	2	6	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:155301590G>A	uc003wmc.1	-	2	288	c.143C>T	c.(142-144)GCG>GTG	p.A48V		NM_001103176	NP_001096646	Q3B7I2	CNPY1_HUMAN	canopy 1 homolog	48											0	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		AGAGCTTACCGCAAATTTCAA	0.343													33	103					0	0	0.013726	0	0		A	155301590	A	A	155301590	3	1	128	1	0	0	0	0	1	0	0	0	3630	1101	38	1	147	1	CNPY1	7	155301590	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3422515	155301590	3837073	472	70760											
RBM33	155435	broad.mit.edu	37	chr7	155503962	155503962	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcagaagcctgttccagccGcagccgctgcagccgctgct	7	7	11	16	3	1	1	1	0	0	1	2	1	2	1	5	0	6	6	5	0	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr7:155503962G>A	uc010lqk.1	+	8	1382	c.1014G>A	c.(1012-1014)CCG>CCA	p.P338P	RBM33_uc011kvv.1_Silent_p.P147P	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	338	Pro-rich.						nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		TGTTCCAGCCGCAGCCGCTGC	0.642													7	19					0	0	0.008291	0	0		A	155503962	A	A	155503962	2	1	128	1	0	0	0	0	0	0	0	1	13155	1074	38	1		1	RBM33	7	155503962	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	202372	155503962	3634701	473	70761											
FBXO25	26260	broad.mit.edu	37	chr8	418731	418731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaggactcaggacacccctGcacggcggccgaccctgaca	10	3	11	17	3	1	1	1	1	0	0	1	4	1	3	4	4	1	1	4	4	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:418731G>A	uc003wox.2	+	11	1297	c.1031G>A	c.(1030-1032)TGC>TAC	p.C344Y	FBXO25_uc003woy.2_Missense_Mutation_p.C335Y|FBXO25_uc003woz.2_Missense_Mutation_p.C268Y|FBXO25_uc003wpa.2_Missense_Mutation_p.C118Y	NM_183421	NP_904357	Q8TCJ0	FBX25_HUMAN	F-box only protein 25 isoform 1	344						nucleus|SCF ubiquitin ligase complex	actin binding|ubiquitin-protein ligase activity			lung(1)	1		Ovarian(12;0.00965)|Colorectal(14;0.0815)|Myeloproliferative disorder(644;0.116)|all_neural(12;0.122)		Epithelial(5;3.14e-14)|OV - Ovarian serous cystadenocarcinoma(5;1.56e-07)|BRCA - Breast invasive adenocarcinoma(11;1.88e-06)		GGACACCCCTGCACGGCGGCC	0.617													14	42					0	0	0.006122	0	0		A	418731	A	A	418731	3	1	128	1	0	0	0	0	1	0	0	0	5750	1319	46	2	1069	2	FBXO25	8	418731	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08		418731	145945291	474	70762											
MYOM2	9172	broad.mit.edu	37	chr8	2041865	2041865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caaggcggtcaatgctgtggGgatgagtgaaaattcccagg	11	8	15	7	1	1	2	1	2	0	0	2	3	2	3	1	5	1	1	1	5	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:2041865G>A	uc003wpx.3	+	17	2210	c.2072G>A	c.(2071-2073)GGG>GAG	p.G691E	MYOM2_uc011kwi.1_Missense_Mutation_p.G116E	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	691	Fibronectin type-III 3.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		AATGCTGTGGGGATGAGTGAA	0.527													41	96					0	0	0.007835	0	0		A	2041865	A	A	2041865	3	1	128	1	0	0	0	0	1	0	0	0	10110	1232	43	4	2134	4	MYOM2	8	2041865	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1623134	2041865	144322157	475	70763											
RP1L1	94137	broad.mit.edu	37	chr8	10468839	10468839	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcaaggtcttctcctcGgacagcccccgagaccccgc	6	7	8	20	3	3	1	1	0	2	1	6	3	4	2	6	2	1	0	6	2	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:10468839G>A	uc003wtc.2	-	4	2998	c.2769C>T	c.(2767-2769)TCC>TCT	p.S923S		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	923					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TCTTCTCCTCGGACAGCCCCC	0.697													19	45					0	0	0.010504	0	0		A	10468839	A	A	10468839	2	1	128	1	0	0	0	0	0	0	0	1	13558	1103	39	1		1	RP1L1	8	10468839	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	8426974	10468839	135895183	476	70764											
RP1L1	94137	broad.mit.edu	37	chr8	10470600	10470600	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctccgggaccataggagCgtgtcctcgccgaccaggtg	7	7	13	14	4	0	0	0	0	0	0	4	3	3	2	6	3	1	0	6	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:10470600C>T	uc003wtc.2	-	4	1237	c.1008G>A	c.(1006-1008)ACG>ACA	p.T336T		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	336					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		ACCATAGGAGCGTGTCCTCGC	0.642													47	126					0	0	0.01441	0	0		T	10470600	T	T	10470600	2	4	128	1	0	0	0	0	0	0	0	1	13558	755	27	1		1	RP1L1	8	10470600	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1761	10470600	135893422	477	70765											
NEIL2	252969	broad.mit.edu	37	chr8	11637219	11637219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgcagaaggaaggggctgCggacccaaagcaggtcgggg	11	3	19	8	2	0	1	0	0	0	1	1	3	0	3	1	7	3	3	1	7	3	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:11637219C>T	uc003wug.2	+	3	926	c.251C>T	c.(250-252)GCG>GTG	p.A84V	NEIL2_uc003wue.2_Missense_Mutation_p.A84V|NEIL2_uc003wuf.2_Missense_Mutation_p.A23V|NEIL2_uc011kxd.1_Intron	NM_145043	NP_659480	Q969S2	NEIL2_HUMAN	nei like 2 isoform a	84					base-excision repair|nucleotide-excision repair	nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|hydrolase activity, hydrolyzing N-glycosyl compounds|zinc ion binding				0	all_epithelial(15;0.103)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.166)		GAAGGGGCTGCGGACCCAAAG	0.557								BER_DNA_glycosylases					59	162					0	0	0.01441	0	0		T	11637219	T	T	11637219	3	4	128	1	0	0	0	0	1	0	0	0	10338	768	27	1	262	1	NEIL2	8	11637219	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1166619	11637219	134726803	478	70766											
NEIL2	252969	broad.mit.edu	37	chr8	11643696	11643696	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaggaggcgtttgggcccGaagatgggttacagaggctc	9	8	17	7	2	0	3	0	1	0	2	1	5	0	4	1	5	1	3	1	5	3	2	rs139505292	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:11643696G>A	uc003wug.2	+	5	1588	c.913G>A	c.(913-915)GAA>AAA	p.E305K	NEIL2_uc003wue.2_Missense_Mutation_p.E305K|NEIL2_uc003wuf.2_Missense_Mutation_p.E244K|NEIL2_uc011kxd.1_Missense_Mutation_p.E189K	NM_145043	NP_659480	Q969S2	NEIL2_HUMAN	nei like 2 isoform a	305	FPG-type.				base-excision repair|nucleotide-excision repair	nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|hydrolase activity, hydrolyzing N-glycosyl compounds|zinc ion binding				0	all_epithelial(15;0.103)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.166)		GTTTGGGCCCGAAGATGGGTT	0.612								BER_DNA_glycosylases					19	59					0	0	0.006122	0	0		A	11643696	A	A	11643696	3	1	128	1	0	0	0	0	1	0	0	0	10338	1059	37	1	932	1	NEIL2	8	11643696	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	6477	11643696	134720326	479	70767											
LONRF1	91694	broad.mit.edu	37	chr8	12586437	12586437	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttccagatattcaatgtcGgcagtgcaatatccatcttt	10	15	6	10	1	3	1	1	0	2	1	6	1	5	1	2	1	1	2	2	1	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:12586437G>A	uc003wwd.1	-	10	2046	c.1983C>T	c.(1981-1983)GCC>GCT	p.A661A	LONRF1_uc011kxv.1_Silent_p.A250A|LONRF1_uc010lsp.1_Silent_p.A261A	NM_152271	NP_689484	Q17RB8	LONF1_HUMAN	LON peptidase N-terminal domain and ring finger	661	Lon.				proteolysis		ATP-dependent peptidase activity|zinc ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(644;0.236)		ATTCAATGTCGGCAGTGCAAT	0.423													40	145					0	0	0.013114	0	0		A	12586437	A	A	12586437	2	1	128	1	0	0	0	0	0	0	0	1	8912	1103	39	1		1	LONRF1	8	12586437	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	942741	12586437	133777585	480	70768											
GFRA2	2675	broad.mit.edu	37	chr8	21608381	21608381	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcttcttgcagttgtcAttcaggttgcaggccttggc	5	13	12	11	1	3	0	2	0	1	0	3	0	3	0	1	3	3	6	1	3	0	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:21608381A>G	uc003wzu.1	-	4	1188	c.513T>C	c.(511-513)AAT>AAC	p.N171N	GFRA2_uc003wzv.1_Silent_p.N66N|GFRA2_uc003wzw.1_Silent_p.N38N|DOK2_uc003wzx.1_Intron	NM_001495	NP_001486	O00451	GFRA2_HUMAN	GDNF family receptor alpha 2 isoform a	171						anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity				0				Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)		TGCAGTTGTCATTCAGGTTGC	0.617													20	69					0	0	0.010504	0	0		G	21608381	G	G	21608381	2	3	128	1	0	0	0	0	0	0	0	1	6363	214	8	3		3	GFRA2	8	21608381	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	9021944	21608381	124755641	481	70769											
XPO7	23039	broad.mit.edu	37	chr8	21853019	21853019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acagatatccatcctatatgCcaattctccaacgggcaatt	13	11	5	12	1	1	1	0	0	1	1	4	1	3	1	4	1	2	1	4	1	6	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:21853019C>T	uc003xaa.3	+	21	2356	c.2254C>T	c.(2254-2256)CCA>TCA	p.P752S	XPO7_uc010lti.2_Missense_Mutation_p.P761S|XPO7_uc010ltk.2_Missense_Mutation_p.P753S	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	752					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		ATCCTATATGCCAATTCTCCA	0.398													6	18					0	0	0.006214	0	0		T	21853019	T	T	21853019	3	4	128	1	0	0	0	0	1	0	0	0	17475	739	26	2	2388	2	XPO7	8	21853019	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	244638	21853019	124511003	482	70770											
HR	55806	broad.mit.edu	37	chr8	21984985	21984985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaggatgaacagcagccccGctgggtgacaggcggctcag	9	5	16	11	2	1	2	1	2	0	0	1	3	1	3	2	4	3	4	2	4	2	1	rs143170974	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:21984985G>A	uc003xas.2	-	3	1635	c.970C>T	c.(970-972)CGG>TGG	p.R324W	HR_uc003xat.2_Missense_Mutation_p.R324W	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	324							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		CAGCAGCCCCGCTGGGTGACA	0.667													18	46					0	0	0.012319	0	0		A	21984985	A	A	21984985	3	1	128	1	0	0	0	0	1	0	0	0	7363	1086	38	1	2667	1	HR	8	21984985	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	131966	21984985	124379037	483	70771											
STMN4	81551	broad.mit.edu	37	chr8	27097669	27097669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaggtgtttcaggagctccGcttcctggtactggggaagc	6	11	14	10	1	1	0	1	0	0	0	3	2	3	2	2	5	3	4	2	5	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:27097669G>A	uc003xfk.2	-	5	443	c.329C>T	c.(328-330)GCG>GTG	p.A110V	STMN4_uc003xfj.2_Missense_Mutation_p.A137V|STMN4_uc011lai.1_Missense_Mutation_p.A137V|STMN4_uc011laj.1_Missense_Mutation_p.A101V|STMN4_uc011lak.1_Missense_Mutation_p.A137V|STMN4_uc010luo.2_Missense_Mutation_p.A110V			Q9H169	STMN4_HUMAN	RecName: Full=Stathmin-4; AltName: Full=Stathmin-like protein B3;          Short=RB3;	110	Potential.				intracellular signal transduction					large_intestine(1)|pancreas(1)	2		Ovarian(32;0.00167)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0214)|Epithelial(17;9.82e-10)|Colorectal(74;0.142)		CAGGAGCTCCGCTTCCTGGTA	0.493													49	120					0	0	0.01441	0	0		A	27097669	A	A	27097669	3	1	128	1	0	0	0	0	1	0	0	0	15336	1087	38	1	248	1	STMN4	8	27097669	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5112684	27097669	119266353	484	70772											
SCARA3	51435	broad.mit.edu	37	chr8	27516059	27516059	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgccatgaagctgggcaGctggggccagagatccgaaa	10	7	14	10	1	1	2	0	1	1	1	2	4	2	2	3	3	3	3	3	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:27516059G>T	uc003xga.1	+	5	513	c.372G>T	c.(370-372)CAG>CAT	p.Q124H	SCARA3_uc003xgb.1_Missense_Mutation_p.Q124H	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	124	Extracellular (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		AAGCTGGGCAGCTGGGGCCAG	0.567													70	252					2.0493e-37	2.26789e-37	0.01441	1	0		T	27516059	T	T	27516059	3	4	128	1	0	0	0	0	1	0	0	0	13904	962	34	5	390	5	SCARA3	8	27516059	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	418390	27516059	118847963	485	70773											
KCNU1	157855	broad.mit.edu	37	chr8	36721991	36721991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatcagggcaggattctcCgccaagggtatctgcaagca	11	9	11	10	1	3	0	1	0	2	0	4	1	3	1	2	3	2	4	2	3	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:36721991C>T	uc010lvw.2	+	19	2048	c.1961C>T	c.(1960-1962)CCG>CTG	p.P654L	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	654	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		CAGGATTCTCCGCCAAGGGTA	0.448													24	116					0	0	0.005443	0	0		T	36721991	T	T	36721991	3	4	128	1	0	0	0	0	1	0	0	0	8109	652	23	1	2035	1	KCNU1	8	36721991	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	9205932	36721991	109642031	486	70774											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37729675	37729675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggggaggaggaggtgatccGctggggaggctggcgcacca	8	4	21	8	2	0	1	0	1	0	0	1	5	1	5	2	9	0	3	2	9	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:37729675G>A	uc003xkm.1	-	4	2689	c.2645C>T	c.(2644-2646)GCG>GTG	p.A882V	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Missense_Mutation_p.A211V|RAB11FIP1_uc003xko.1_Missense_Mutation_p.A211V|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	882					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			GAGGTGATCCGCTGGGGAGGC	0.607													21	50					0	0	0.004656	0	0		A	37729675	A	A	37729675	3	1	128	1	0	0	0	0	1	0	0	0	12918	1087	38	1	1218	1	RAB11FIP1	8	37729675	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1007684	37729675	108634347	487	70775											
PLAT	5327	broad.mit.edu	37	chr8	42033662	42033662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacacaccagggggcctcccGaatcgccctgcaaaggagat	11	4	12	14	2	0	1	0	0	0	1	2	4	1	1	4	3	1	1	4	3	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:42033662G>A	uc003xos.2	-	14	1747	c.1538C>T	c.(1537-1539)TCG>TTG	p.S513L	PLAT_uc010lxf.1_Missense_Mutation_p.S430L|PLAT_uc010lxg.1_Missense_Mutation_p.S338L|PLAT_uc003xot.2_Missense_Mutation_p.S467L|PLAT_uc011lcm.1_Missense_Mutation_p.S424L|PLAT_uc011lcn.1_Missense_Mutation_p.S387L	NM_000930	NP_000921	P00750	TPA_HUMAN	plasminogen activator, tissue isoform 1	513	Peptidase S1.	Charge relay system.			blood coagulation|fibrinolysis|negative regulation of proteolysis|protein modification process|proteolysis	cell surface|cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			breast(1)|skin(1)	2	all_cancers(6;3.84e-26)|all_epithelial(6;9.61e-28)|all_lung(13;7.2e-13)|Lung NSC(13;1.18e-11)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000378)|Lung NSC(58;0.00145)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00135)|Colorectal(10;0.00165)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)		Alteplase(DB00009)|Aminocaproic Acid(DB00513)|Anistreplase(DB00029)|Iloprost(DB01088)|Reteplase(DB00015)|Tenecteplase(DB00031)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	GGGGCCTCCCGAATCGCCCTG	0.522													14	21					0	0	0.003163	0	0		A	42033662	A	A	42033662	3	1	128	1	0	0	0	0	1	0	0	0	12040	1059	37	1	154	1	PLAT	8	42033662	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4303987	42033662	104330360	488	70776											
VDAC3	7419	broad.mit.edu	37	chr8	42252652	42252652	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaagtcttgtagtggagtgGtgagtatctaatatattttt	10	17	10	4	0	2	1	0	1	2	0	2	2	2	2	1	2	0	2	1	2	6	8			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:42252652G>A	uc011lct.1	+	4	260	c.117_splice	c.e4+1	p.V39_splice	VDAC3_uc010lxk.2_Splice_Site_p.V39_splice|VDAC3_uc003xpc.2_Splice_Site_p.V39_splice	NM_005662	NP_005653	Q9Y277	VDAC3_HUMAN	voltage-dependent anion channel 3 isoform b						adenine transport	mitochondrial outer membrane|pore complex	nucleotide binding|porin activity|protein binding|voltage-gated anion channel activity			upper_aerodigestive_tract(1)	1	all_cancers(6;3.86e-23)|all_lung(13;6.47e-12)|Lung NSC(13;1.08e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;3.48e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00266)|Lung(22;0.00849)|LUSC - Lung squamous cell carcinoma(45;0.024)		Dihydroxyaluminium(DB01375)	TAGTGGAGTGGTGAGTATCTA	0.348													8	110					0	0	0.004482	0	0		A	42252652	A	A	42252652	5	1	128	1	0	0	0	0	0	0	1	0	17174	1275	44	4	124	4	VDAC3	8	42252652	Splice_Site	SNP	G	TCGA-CG-4306-01A-01D-1158-08	218990	42252652	104111370	489	70777											
ST18	9705	broad.mit.edu	37	chr8	53092689	53092689	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctccttgctacctgcggtAgagtgaccatgtgtttccaa	7	13	9	12	1	0	2	0	1	0	1	3	2	3	2	5	1	3	3	5	1	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:53092689A>G	uc003xqz.2	-	4	426	c.270T>C	c.(268-270)TCT>TCC	p.S90S	ST18_uc011ldq.1_5'UTR|ST18_uc011ldr.1_Silent_p.S55S|ST18_uc011lds.1_5'UTR|ST18_uc003xra.2_Silent_p.S90S|ST18_uc003xrb.2_Silent_p.S90S|ST18_uc010lyb.2_RNA	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	90						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				TACCTGCGGTAGAGTGACCAT	0.517													80	274					0	0	0.01441	0	0		G	53092689	G	G	53092689	2	3	128	1	0	0	0	0	0	0	0	1	15237	407	15	3		3	ST18	8	53092689	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	10840037	53092689	93271333	490	70778											
NPBWR1	2831	broad.mit.edu	37	chr8	53852517	53852517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgccaacgcatcgggccCggacccggcgctgagctgct	5	4	14	18	6	0	1	0	1	0	0	1	2	0	2	4	3	3	4	4	3	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:53852517C>T	uc011ldu.1	+	1	50	c.50C>T	c.(49-51)CCG>CTG	p.P17L		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	17	Extracellular (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				GCATCGGGCCCGGACCCGGCG	0.711													6	11					0	0	0.001984	0	0		T	53852517	T	T	53852517	3	4	128	1	0	0	0	0	1	0	0	0	10587	652	23	1	52	1	NPBWR1	8	53852517	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	759828	53852517	92511505	491	70779											
CHD7	55636	broad.mit.edu	37	chr8	61754314	61754314	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgatgccttaaatgggaggGtgagtaagaagtcccattcg	11	11	13	6	1	0	3	0	2	0	1	2	4	1	4	2	2	1	1	2	2	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:61754314G>A	uc003xue.2	+	20	5121	c.4644_splice	c.e20+1	p.R1548_splice		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7						central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			AAATGGGAGGGTGAGTAAGAA	0.393													17	46					0	0	0.007413	0	0		A	61754314	A	A	61754314	5	1	128	1	0	0	0	0	0	0	1	0	3333	1275	44	4	4719	4	CHD7	8	61754314	Splice_Site	SNP	G	TCGA-CG-4306-01A-01D-1158-08	7901797	61754314	84609708	492	70780											
CHD7	55636	broad.mit.edu	37	chr8	61764678	61764678	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcattactgcctatcagcgCagctataaaaggcaacagat	14	9	7	11	1	2	1	2	0	0	1	2	1	2	1	1	1	5	3	1	1	6	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:61764678C>T	uc003xue.2	+	29	6243	c.5766C>T	c.(5764-5766)CGC>CGT	p.R1922R		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1922					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			CCTATCAGCGCAGCTATAAAA	0.547													21	68					0	0	0.010504	0	0		T	61764678	T	T	61764678	2	4	128	1	0	0	0	0	0	0	0	1	3333	697	25	2		2	CHD7	8	61764678	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	10364	61764678	84599344	493	70781											
TRIM55	84675	broad.mit.edu	37	chr8	67064641	67064641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaagaagaagaagaaggcGgagaaggagaaaaagaagga	23	1	16	1	1	0	8	0	1	0	7	0	11	0	9	0	4	0	0	0	4	9	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:67064641G>A	uc003xvv.2	+	8	1241	c.1015G>A	c.(1015-1017)GGA>AGA	p.G339R	TRIM55_uc003xvu.2_Missense_Mutation_p.G339R|TRIM55_uc003xvw.2_Missense_Mutation_p.G339R|TRIM55_uc003xvx.2_Intron	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	339						cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			agaagaaggcggagaaggaga	0.199													8	16					0	0	0.00308	0	0		A	67064641	A	A	67064641	3	1	128	1	0	0	0	0	1	0	0	0	16555	1117	39	1	1045	1	TRIM55	8	67064641	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5299963	67064641	79299381	494	70782											
NCOA2	10499	broad.mit.edu	37	chr8	71041179	71041179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctccagcatgatgttggaatCctgacttgagaactgttctg	9	13	10	9	0	1	3	0	3	1	1	3	5	3	4	2	1	2	3	2	1	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:71041179C>T	uc003xyn.1	-	17	3523	c.3361G>A	c.(3361-3363)GAT>AAT	p.D1121N	NCOA2_uc011lfb.1_Missense_Mutation_p.D209N	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	1121					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			ATGTTGGAATCCTGACTTGAG	0.448			T	RUNXBP2	AML								8	16					0	0	0.004482	0	0		T	71041179	T	T	71041179	3	4	128	1	0	0	0	0	1	0	0	0	10248	855	30	4	1061	4	NCOA2	8	71041179	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3976538	71041179	75322843	495	70783											
KCNB2	9312	broad.mit.edu	37	chr8	73849334	73849334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaatggaagaagtggtgtgtCcacaggagcagctggccgtg	11	7	16	7	1	0	1	0	0	0	1	1	3	1	3	2	4	2	2	2	4	3	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:73849334C>T	uc003xzb.2	+	3	2332	c.1744C>T	c.(1744-1746)CCA>TCA	p.P582S		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	582	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			AGTGGTGTGTCCACAGGAGCA	0.532													25	75					0	0	0.007291	0	0		T	73849334	T	T	73849334	3	4	128	1	0	0	0	0	1	0	0	0	8029	855	30	4	1750	4	KCNB2	8	73849334	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2808155	73849334	72514688	496	70784											
PEX2	5828	broad.mit.edu	37	chr8	77896329	77896329	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaccaaactagctgctccAgggccttgtttagttcaagt	9	11	11	10	0	1	0	1	0	0	0	2	1	2	1	3	2	3	4	3	2	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:77896329A>G	uc003yax.2	-	4	544	c.86T>C	c.(85-87)CTG>CCG	p.L29P	PEX2_uc003yay.2_Missense_Mutation_p.L29P|PEX2_uc003yaz.2_Missense_Mutation_p.L29P	NM_000318	NP_000309	P28328	PEX2_HUMAN	peroxin 2	29					peroxisome organization	integral to peroxisomal membrane	protein binding|zinc ion binding			ovary(1)	1						TAGCTGCTCCAGGGCCTTGTT	0.468													39	124					0	0	0.021022	0	0		G	77896329	G	G	77896329	3	3	128	1	0	0	0	0	1	0	0	0	11764	188	7	3	835	3	PEX2	8	77896329	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	4046995	77896329	68467693	497	70785											
IMPA1	3612	broad.mit.edu	37	chr8	82572840	82572840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaattcccatttcataatatGcatctgctccgccagttgcc	9	13	6	13	1	2	0	1	0	1	0	4	1	4	0	4	0	3	3	4	0	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:82572840G>A	uc003ych.2	-	8	756	c.629C>T	c.(628-630)GCA>GTA	p.A210V	IMPA1_uc011lfq.1_Missense_Mutation_p.A269V|IMPA1_uc011lfr.1_Missense_Mutation_p.H174Y	NM_005536	NP_005527	P29218	IMPA1_HUMAN	inositol(myo)-1(or 4)-monophosphatase 1 isoform	210					inositol phosphate dephosphorylation|phosphatidylinositol biosynthetic process|signal transduction	cytoplasm	inositol-1(or 4)-monophosphatase activity|metal ion binding|protein homodimerization activity			skin(1)	1					Lithium(DB01356)	TTCATAATATGCATCTGCTCC	0.403													37	87					0	0	0.017118	0	0		A	82572840	A	A	82572840	3	1	128	1	0	0	0	0	1	0	0	0	7738	1319	46	2	212	2	IMPA1	8	82572840	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4676511	82572840	63791182	498	70786											
RIPK2	8767	broad.mit.edu	37	chr8	90770396	90770396	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcactgtgtcgtccgcccgCcacgcagactggcgcgtcca	5	6	13	17	6	0	1	0	0	0	1	3	1	2	1	4	2	0	2	4	2	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:90770396C>T	uc003yee.2	+	1	422	c.108C>T	c.(106-108)CGC>CGT	p.R36R	uc003yed.2_5'Flank|RIPK2_uc003yef.2_5'UTR	NM_003821	NP_003812	O43353	RIPK2_HUMAN	receptor-interacting serine-threonine kinase 2	36	Protein kinase.				activation of MAPK activity|anti-apoptosis|apoptosis|inflammatory response|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|CARD domain binding|LIM domain binding|protein homodimerization activity|protein serine/threonine kinase activity|signal transducer activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.0474)			CGTCCGCCCGCCACGCAGACT	0.677													3	11					0	0	0.014758	0	0		T	90770396	T	T	90770396	2	4	128	1	0	0	0	0	0	0	0	1	13406	726	26	2		2	RIPK2	8	90770396	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	8197556	90770396	55593626	499	70787											
NBN	4683	broad.mit.edu	37	chr8	90967518	90967518	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaaaacagaccttttttTggtagacggctgaaagtagt	14	12	9	6	1	1	3	1	1	0	2	1	3	1	3	1	2	1	3	1	2	5	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:90967518T>C	uc003yej.1	-	10	1500	c.1390A>G	c.(1390-1392)AAA>GAA	p.K464E	NBN_uc003yei.1_Missense_Mutation_p.K382E|NBN_uc011lgb.1_Missense_Mutation_p.K464E	NM_002485	NP_002476	O60934	NBN_HUMAN	nibrin	464	Nuclear localization signal.				cell cycle arrest|DNA damage response, signal transduction by p53 class mediator|DNA duplex unwinding|double-strand break repair via homologous recombination|meiosis|mitotic cell cycle G1/S transition checkpoint|mitotic cell cycle G2/M transition DNA damage checkpoint|positive regulation of kinase activity|positive regulation of protein autophosphorylation|regulation of DNA-dependent DNA replication initiation|telomere maintenance	Mre11 complex|nuclear chromosome, telomeric region|nuclear inclusion body|nucleolus|nucleoplasm	protein N-terminus binding|transcription factor binding			central_nervous_system(3)|kidney(3)|lung(1)	7			BRCA - Breast invasive adenocarcinoma(11;0.0344)			GACCTTTTTTTGGTAGACGGC	0.348								Direct_reversal_of_damage|Homologous_recombination	Nijmegen_Breakage_syndrome				8	256					0	0	0.006214	0	0		C	90967518	C	C	90967518	3	2	128	1	0	0	0	0	1	0	0	0	10209	1821	63	3	902	3	NBN	8	90967518	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	197122	90967518	55396504	500	70788											
KIAA1429	25962	broad.mit.edu	37	chr8	95539535	95539535	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggatacttaaatgtttcacGttccaagtcagcaattccat	12	14	6	9	1	2	0	2	0	0	0	4	1	4	1	2	1	2	3	2	1	5	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:95539535G>A	uc003ygo.1	-	8	950	c.937C>T	c.(937-939)CGT>TGT	p.R313C	KIAA1429_uc003ygp.2_Missense_Mutation_p.R313C|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	313	Glu-rich.				mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			AATGTTTCACGTTCCAAGTCA	0.348													24	63					0	0	0.016522	0	0		A	95539535	A	A	95539535	3	1	128	1	0	0	0	0	1	0	0	0	8247	1145	40	1	4623	1	KIAA1429	8	95539535	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4572017	95539535	50824487	501	70789											
DPY19L4	286148	broad.mit.edu	37	chr8	95796029	95796029	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttctcaagagaaatgaaaAtgtaagacattttaaattct	17	14	5	5	0	3	3	1	1	3	2	4	4	3	3	0	0	0	1	0	0	7	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:95796029A>G	uc003ygx.2	+	17	1971	c.1847A>G	c.(1846-1848)AAT>AGT	p.N616S		NM_181787	NP_861452	Q7Z388	D19L4_HUMAN	dpy-19-like 4	616						integral to membrane				ovary(2)	2	Breast(36;3.85e-06)					AGAAATGAAAATGTAAGACAT	0.368													13	51					0	0	0.016723	0	0		G	95796029	G	G	95796029	3	3	128	1	0	0	0	0	1	0	0	0	4749	115	4	3	1913	3	DPY19L4	8	95796029	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	256494	95796029	50567993	502	70790											
SDC2	6383	broad.mit.edu	37	chr8	97620628	97620628	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggaaaatggacccagcCgaagaggatacaaatgtgta	18	5	12	6	1	0	1	0	0	0	1	0	6	0	4	2	3	2	1	2	3	7	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:97620628C>T	uc003yhv.1	+	4	990	c.372C>T	c.(370-372)GCC>GCT	p.A124A	SDC2_uc011lgu.1_Silent_p.A95A	NM_002998	NP_002989	P34741	SDC2_HUMAN	syndecan 2 precursor	124	Extracellular (Potential).					integral to plasma membrane	cytoskeletal protein binding|PDZ domain binding			ovary(2)	2	Breast(36;3.41e-05)				Sargramostim(DB00020)	TGGACCCAGCCGAAGAGGATA	0.453													24	74					0	0	0.01892	0	0		T	97620628	T	T	97620628	2	4	128	1	0	0	0	0	0	0	0	1	13977	639	23	1		1	SDC2	8	97620628	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1824599	97620628	48743394	503	70791											
MTDH	92140	broad.mit.edu	37	chr8	98699707	98699707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaacgacagcagcgtaaaCgtgataaggtgctgactgat	15	7	12	7	3	0	4	0	3	0	1	0	5	0	4	0	1	5	3	0	1	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:98699707C>T	uc003yhz.2	+	4	947	c.619C>T	c.(619-621)CGT>TGT	p.R207C		NM_178812	NP_848927	Q86UE4	LYRIC_HUMAN	metadherin	207	Cytoplasmic (Potential).				lipopolysaccharide-mediated signaling pathway|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of angiogenesis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein kinase B signaling cascade	apical plasma membrane|endoplasmic reticulum membrane|integral to membrane|intercellular canaliculus|nuclear body|nuclear membrane|nucleolus|perinuclear region of cytoplasm|tight junction	NF-kappaB binding|RNA polymerase II transcription factor binding|transcription coactivator activity			liver(1)|central_nervous_system(1)	2	Breast(36;2.56e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.178)			GCAGCGTAAACGTGATAAGGT	0.418													51	172					0	0	0.01441	0	0		T	98699707	T	T	98699707	3	4	128	1	0	0	0	0	1	0	0	0	9935	536	19	1	633	1	MTDH	8	98699707	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1079079	98699707	47664315	504	70792											
VPS13B	157680	broad.mit.edu	37	chr8	100866034	100866034	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagagttggaagaatacAaggaaaaatgttttatcaaa	21	9	8	3	0	1	2	1	0	0	2	1	4	1	4	0	2	1	2	0	2	9	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:100866034A>G	uc003yiv.2	+	56	10603	c.10492A>G	c.(10492-10494)AAG>GAG	p.K3498E	VPS13B_uc003yiw.2_Missense_Mutation_p.K3473E	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3498					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			GGAAGAATACAAGGAAAAATG	0.393													56	192					0	0	0.01441	0	0		G	100866034	G	G	100866034	3	3	128	1	0	0	0	0	1	0	0	0	17216	131	5	3	10904	3	VPS13B	8	100866034	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	2166327	100866034	45497988	505	70793											
LRP12	29967	broad.mit.edu	37	chr8	105509306	105509306	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacggcagcagtgatgactcTtgtaggcacgattactgggc	9	9	14	9	2	1	2	0	2	1	0	1	4	1	2	0	3	2	4	0	3	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:105509306T>A	uc003yma.2	-	5	1569	c.1474A>T	c.(1474-1476)AGA>TGA	p.R492*	LRP12_uc003ymb.2_Nonsense_Mutation_p.R473*|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	492	Extracellular (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GTGATGACTCTTGTAGGCACG	0.438													23	96					0	0	0.005443	0	0		A	105509306	A	A	105509306	4	1	128	1	0	0	0	0	0	1	0	0	8972	1617	56	5	1117	5	LRP12	8	105509306	Nonsense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	4643272	105509306	40854716	506	70794											
CSMD3	114788	broad.mit.edu	37	chr8	113668504	113668504	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccattgtaagatccaagCaagggtgacagaagatttgg	13	9	13	6	0	0	4	0	1	0	3	1	4	1	4	2	2	2	2	2	2	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:113668504C>T	uc003ynu.2	-	18	3042	c.2883G>A	c.(2881-2883)TTG>TTA	p.L961L	CSMD3_uc003yns.2_Silent_p.L233L|CSMD3_uc003ynt.2_Silent_p.L921L|CSMD3_uc011lhx.1_Silent_p.L857L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	961	Extracellular (Potential).|CUB 5.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AAGATCCAAGCAAGGGTGACA	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			12	71					0	0	0.016723	0	0		T	113668504	T	T	113668504	2	4	128	1	0	0	0	0	0	0	0	1	3949	709	25	2		2	CSMD3	8	113668504	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	8159198	113668504	32695518	507	70795											
SLC45A4	57210	broad.mit.edu	37	chr8	142228905	142228905	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggaaggcagggacgccGtgcggctcgcccccatccag	6	5	15	15	4	1	0	0	0	1	0	3	2	2	2	4	4	1	2	4	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:142228905G>A	uc003ywd.1	-	4	989	c.681C>T	c.(679-681)CAC>CAT	p.H227H	SLC45A4_uc003ywc.1_Silent_p.H227H|SLC45A4_uc010meq.1_Silent_p.H225H	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	278					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CAGGGACGCCGTGCGGCTCGC	0.682													36	139					0	0	0.010771	0	0		A	142228905	A	A	142228905	2	1	128	1	0	0	0	0	0	0	0	1	14668	1136	40	1		1	SLC45A4	8	142228905	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	28560401	142228905	4135117	508	70796											
FLJ43860	389690	broad.mit.edu	37	chr8	142445309	142445309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgtgcagtagccgccagCggagcagcacagcacagcgg	9	3	17	12	3	0	0	0	0	0	0	0	1	0	1	2	3	7	5	2	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:142445309C>T	uc003ywi.2	-	29	3677	c.3596G>A	c.(3595-3597)CGC>CAC	p.R1199H	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	1199							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			TAGCCGCCAGCGGAGCAGCAC	0.662													12	47					0	0	0.00499	0	0		T	142445309	T	T	142445309	3	4	128	1	0	0	0	0	1	0	0	0	5944	768	27	1	376	1	FLJ43860	8	142445309	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	216404	142445309	3918713	509	70797											
BAI1	575	broad.mit.edu	37	chr8	143570403	143570403	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttcttccagaggccgaTgaagcatccgtgtttgtggt	7	13	11	10	2	1	2	0	1	1	1	3	3	3	2	3	2	1	2	3	2	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:143570403T>C	uc003ywm.2	+	14	2643	c.2460T>C	c.(2458-2460)GAT>GAC	p.D820D		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	820	Extracellular (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CAGAGGCCGATGAAGCATCCG	0.662													5	23					0	0	0.001168	0	0		C	143570403	C	C	143570403	2	2	128	1	0	0	0	0	0	0	0	1	1299	1461	51	3		3	BAI1	8	143570403	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1125094	143570403	2793619	510	70798											
MAPK15	225689	broad.mit.edu	37	chr8	144804001	144804001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccaaccaggccctgatccGgggtgactggaaccggggcg	7	4	17	13	3	0	2	0	2	0	0	1	3	1	3	5	7	2	0	5	7	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:144804001G>A	uc003yzj.2	+	13	1450	c.1409G>A	c.(1408-1410)CGG>CAG	p.R470Q		NM_139021	NP_620590	Q8TD08	MK15_HUMAN	mitogen-activated protein kinase 15	470					protein autophosphorylation	extracellular region	ATP binding|MAP kinase activity|SH3 domain binding			lung(2)	2	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GCCCTGATCCGGGGTGACTGG	0.582													25	48					0	0	0.005443	0	0		A	144804001	A	A	144804001	3	1	128	1	0	0	0	0	1	0	0	0	9295	1116	39	1	1459	1	MAPK15	8	144804001	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1233598	144804001	1560021	511	70799											
EPPK1	83481	broad.mit.edu	37	chr8	144945705	144945705	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcgatgatctcggctttcaGcagctctcctggtgtcacgg	5	12	12	12	3	4	1	2	1	2	0	7	2	4	1	1	3	2	3	1	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr8:144945705G>T	uc003zaa.1	-	1	1730	c.1717C>A	c.(1717-1719)CTG>ATG	p.L573M		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	573	Plectin 10.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TCGGCTTTCAGCAGCTCTCCT	0.637													4	12					0.00024832	0.000252697	0.009096	1	0		T	144945705	T	T	144945705	3	4	128	1	0	0	0	0	1	0	0	0	5198	962	34	5	5549	5	EPPK1	8	144945705	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	141704	144945705	1418317	512	70800											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													4	111					0	0	0.006214	0	0		G	164038	G	G	164038	5	3	128	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-CG-4306-01A-01D-1158-08		164038	141049393	513	70801											
SMARCA2	6595	broad.mit.edu	37	chr9	2110275	2110275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaccaagtctgaagatcGtgctgctttgctgaagaaat	12	10	9	10	1	1	4	0	2	1	2	2	4	1	4	2	0	3	3	2	0	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:2110275G>A	uc003zhc.2	+	24	3413	c.3314G>A	c.(3313-3315)CGT>CAT	p.R1105H	SMARCA2_uc003zhd.2_Missense_Mutation_p.R1105H|SMARCA2_uc010mha.2_Missense_Mutation_p.R1038H	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1105	Helicase C-terminal.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		TCTGAAGATCGTGCTGCTTTG	0.438													61	150					0	0	0.01441	0	0		A	2110275	A	A	2110275	3	1	128	1	0	0	0	0	1	0	0	0	14794	1145	40	1	3404	1	SMARCA2	9	2110275	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1946237	2110275	139103156	514	70802											
KCNV2	169522	broad.mit.edu	37	chr9	2718008	2718008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaagcccgagggccccaGcgaccctccggccctgctgt	5	4	12	20	4	0	0	0	0	0	0	1	2	1	0	7	2	3	1	7	2	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:2718008G>A	uc003zho.1	+	1	483	c.269G>A	c.(268-270)AGC>AAC	p.S90N		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	90	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		GAGGGCCCCAGCGACCCTCCG	0.667													6	29					0	0	0.006214	0	0		A	2718008	A	A	2718008	3	1	128	1	0	0	0	0	1	0	0	0	8111	971	34	2	271	2	KCNV2	9	2718008	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	607733	2718008	138495423	515	70803											
UHRF2	115426	broad.mit.edu	37	chr9	6482085	6482085	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgttggatcaacttggAgatttagagttcaggtatgt	9	16	11	5	0	2	2	2	0	0	2	3	4	3	3	1	3	1	3	1	3	3	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:6482085A>T	uc003zjy.2	+	8	1718	c.1378A>T	c.(1378-1380)AGA>TGA	p.R460*	UHRF2_uc003zjz.2_RNA|UHRF2_uc003zka.1_Nonsense_Mutation_p.R237*	NM_152896	NP_690856	Q96PU4	UHRF2_HUMAN	ubiquitin-like with PHD and ring finger domains	460	YDG.|Methyl-CpG binding and interaction with HDAC1.				cell cycle|cell differentiation|cell proliferation|protein autoubiquitination|regulation of cell cycle|ubiquitin-dependent protein catabolic process	nucleus	DNA binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0392)|Lung(218;0.129)		ATCAACTTGGAGATTTAGAGT	0.398													74	200					0	0	0.01441	0	0		T	6482085	T	T	6482085	4	4	128	1	0	0	0	0	0	1	0	0	16996	296	11	5	1408	5	UHRF2	9	6482085	Nonsense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	3764077	6482085	134731346	516	70804											
TYRP1	7306	broad.mit.edu	37	chr9	12694160	12694160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgggcctgggacagaccGctgtggctcatcatcaggga	7	8	15	11	1	4	1	3	0	1	1	4	3	4	3	2	4	0	2	2	4	0	0	rs139670838		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:12694160G>A	uc003zkv.3	+	2	342	c.164G>A	c.(163-165)CGC>CAC	p.R55H		NM_000550	NP_000541	P17643	TYRP1_HUMAN	tyrosinase-related protein 1 precursor	55	Lumenal, melanosome (Potential).				melanin biosynthetic process	clathrin-coated endocytic vesicle membrane|endosome membrane|integral to membrane|melanosome membrane	copper ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, another compound as one donor, and incorporation of one atom of oxygen|protein heterodimerization activity|protein homodimerization activity			lung(1)	1		all_cancers(3;3.1e-05)|all_lung(3;1.7e-06)|Lung NSC(3;2.09e-06)|all_epithelial(3;0.000695)|all_hematologic(3;0.0033)|Acute lymphoblastic leukemia(23;0.0744)		GBM - Glioblastoma multiforme(50;9.85e-06)		GGGACAGACCGCTGTGGCTCA	0.602									Oculocutaneous_Albinism				21	51					0	0	0.014323	0	0		A	12694160	A	A	12694160	3	1	128	1	0	0	0	0	1	0	0	0	16842	1087	38	1	166	1	TYRP1	9	12694160	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	6212075	12694160	128519271	517	70805											
PSIP1	11168	broad.mit.edu	37	chr9	15479598	15479598	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaatcctacctgcaggtcGtcctcttttaggactcactt	8	14	7	12	1	2	0	1	0	1	0	5	1	4	1	3	2	2	2	3	2	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:15479598G>A	uc003zlv.3	-	7	874	c.544C>T	c.(544-546)CGA>TGA	p.R182*	PSIP1_uc003zlw.3_Nonsense_Mutation_p.R182*|PSIP1_uc003zlz.3_Nonsense_Mutation_p.R182*|PSIP1_uc003zma.3_Nonsense_Mutation_p.R173*|PSIP1_uc003zly.2_Nonsense_Mutation_p.R182*	NM_033222	NP_150091	O75475	PSIP1_HUMAN	PC4 and SFRS1 interacting protein 1 isoform 2	182					initiation of viral infection|interspecies interaction between organisms|nuclear mRNA 5'-splice site recognition|provirus integration|regulation of transcription, DNA-dependent|response to heat|response to oxidative stress|transcription, DNA-dependent	cytosol|nuclear heterochromatin|nuclear periphery|nucleoplasm|nucleoplasm|transcriptionally active chromatin	activating transcription factor binding|chromatin binding|DNA secondary structure binding|RNA polymerase II transcription coactivator activity			breast(1)	1				GBM - Glioblastoma multiforme(50;2.38e-06)		CCTGCAGGTCGTCCTCTTTTA	0.373													6	161					0	0	0.001984	0	0		A	15479598	A	A	15479598	4	1	128	1	0	0	0	0	0	1	0	0	12685	1153	40	1	1117	1	PSIP1	9	15479598	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2785438	15479598	125733833	518	70806											
IFNA8	3445	broad.mit.edu	37	chr9	21409548	21409548	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctggagtcctgtgtgatgCaggaagtgggggtgatagag	9	9	18	5	0	0	3	0	2	0	1	1	5	1	5	2	4	1	1	2	4	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:21409548C>T	uc003zpc.1	+	1	403	c.373C>T	c.(373-375)CAG>TAG	p.Q125*		NM_002170	NP_002161	P32881	IFNA8_HUMAN	interferon, alpha 8 precursor	125					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.0174)		CTGTGTGATGCAGGAAGTGGG	0.478													77	217					0	0	0.01441	0	0		T	21409548	T	T	21409548	4	4	128	1	0	0	0	0	0	1	0	0	7559	711	25	2	375	2	IFNA8	9	21409548	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5929950	21409548	119803883	519	70807											
TOPORS	10210	broad.mit.edu	37	chr9	32542476	32542476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatctctatttctgctccGtgatcttcttttaccatgat	7	18	5	11	2	4	2	0	2	4	0	6	3	5	2	2	0	2	1	2	0	2	5	rs143249653		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:32542476G>A	uc003zrb.2	-	3	2214	c.2047C>T	c.(2047-2049)CGG>TGG	p.R683W	TOPORS_uc003zrc.2_Missense_Mutation_p.R616W	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	683	Interaction with TOP1.|Arg-rich.|Interaction with p53/TP53.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		TTTCTGCTCCGTGATCTTCTT	0.388													115	311					0	0	0.01441	0	0		A	32542476	A	A	32542476	3	1	128	1	0	0	0	0	1	0	0	0	16396	1144	40	1	1094	1	TOPORS	9	32542476	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	11132928	32542476	108670955	520	70808											
DNAJA1	3301	broad.mit.edu	37	chr9	33038834	33038834	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggaaagacggcgccactAcaatggagaagcatatgagg	15	5	13	8	2	1	3	1	1	0	2	1	5	1	4	1	4	2	1	1	4	5	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:33038834A>G	uc003zsd.1	+	9	1310	c.1127A>G	c.(1126-1128)TAC>TGC	p.Y376C	DNAJA1_uc011lnt.1_Missense_Mutation_p.Y219C	NM_001539	NP_001530	P31689	DNJA1_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 1	376					protein folding|response to heat|response to unfolded protein	membrane	ATP binding|heat shock protein binding|low-density lipoprotein particle receptor binding|metal ion binding|unfolded protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.0227)	GBM - Glioblastoma multiforme(74;0.102)		CGGCGCCACTACAATGGAGAA	0.473													8	93					0	0	0.004482	0	0		G	33038834	G	G	33038834	3	3	128	1	0	0	0	0	1	0	0	0	4617	391	14	3	1157	3	DNAJA1	9	33038834	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	496358	33038834	108174597	521	70809											
NOL6	65083	broad.mit.edu	37	chr9	33467247	33467247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgggatccccagaactggCggaatttagcagcctgagga	11	6	14	10	2	0	2	0	1	0	1	1	5	1	5	3	4	4	1	3	4	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:33467247C>T	uc003zsz.2	-	14	1840	c.1739G>A	c.(1738-1740)CGC>CAC	p.R580H	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zsy.2_5'Flank|NOL6_uc003zta.2_Missense_Mutation_p.R580H|NOL6_uc010mjv.2_Missense_Mutation_p.R577H|NOL6_uc011lob.1_Missense_Mutation_p.R528H|NOL6_uc003ztb.1_Missense_Mutation_p.R580H	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	580					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		CCAGAACTGGCGGAATTTAGC	0.607											OREG0019137	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	42					0	0	0.003163	0	0		T	33467247	T	T	33467247	3	4	128	1	0	0	0	0	1	0	0	0	10544	768	27	1	1753	1	NOL6	9	33467247	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	428413	33467247	107746184	522	70810											
KIAA1161	57462	broad.mit.edu	37	chr9	34372899	34372899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagcagccaggccggcggcGgcgggggtaggcctggctct	4	5	20	12	4	1	0	0	0	1	0	1	0	1	0	3	8	2	4	3	8	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:34372899G>A	uc003zue.3	-	2	210	c.43C>T	c.(43-45)CGC>TGC	p.R15C		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	15	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		GGCCGGCGGCGGCGGGGGTAG	0.627													60	132					0	0	0.01441	0	0		A	34372899	A	A	34372899	3	1	128	1	0	0	0	0	1	0	0	0	8227	1116	39	1	2105	1	KIAA1161	9	34372899	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	905652	34372899	106840532	523	70811											
DCTN3	11258	broad.mit.edu	37	chr9	34617918	34617918	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttagaggcatcaggtaTggcaatgcggtcgatgtact	10	10	13	8	2	1	1	1	0	0	1	2	2	1	1	0	4	3	5	0	4	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:34617918T>C	uc003zux.1	-	3	267	c.232A>G	c.(232-234)ATA>GTA	p.I78V	DCTN3_uc003zuw.1_Missense_Mutation_p.I78V	NM_007234	NP_009165	O75935	DCTN3_HUMAN	dynactin 3 isoform 1	78					cytokinesis|G2/M transition of mitotic cell cycle|mitosis	centrosome|cleavage furrow|condensed chromosome kinetochore|cytosol|dynactin complex|midbody|perinuclear region of cytoplasm|spindle	protein binding|structural molecule activity				0	all_epithelial(49;0.0863)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.0388)		GCATCAGGTATGGCAATGCGG	0.478													22	59					0	0	0.00632	0	0		C	34617918	C	C	34617918	3	2	128	1	0	0	0	0	1	0	0	0	4311	1464	51	3	445	3	DCTN3	9	34617918	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	245019	34617918	106595513	524	70812											
STOML2	30968	broad.mit.edu	37	chr9	35101920	35101920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgtaagggtccatgatgCgcaggtaaaggactccatcg	10	9	12	10	2	0	1	0	1	0	0	3	2	2	2	3	3	1	3	3	3	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:35101920C>T	uc003zwi.2	-	4	386	c.323G>A	c.(322-324)CGC>CAC	p.R108H	STOML2_uc003zwh.2_5'UTR|STOML2_uc003zwj.2_5'UTR|STOML2_uc011lou.1_Missense_Mutation_p.R108H|STOML2_uc003zwk.2_Missense_Mutation_p.R57H	NM_013442	NP_038470	Q9UJZ1	STML2_HUMAN	stomatin (EPB72)-like 2	108						cytoskeleton	receptor binding				0			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GTCCATGATGCGCAGGTAAAG	0.473													38	129					0	0	0.007835	0	0		T	35101920	T	T	35101920	3	4	128	1	0	0	0	0	1	0	0	0	15339	768	27	1	775	1	STOML2	9	35101920	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	484002	35101920	106111511	525	70813											
RUSC2	9853	broad.mit.edu	37	chr9	35559222	35559222	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttcacctgtctccctacaGcatccggtccctggagttct	5	13	7	16	1	4	0	1	0	3	0	7	1	6	1	4	2	2	2	4	2	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:35559222G>T	uc003zww.2	+	9	3597	c.3342_splice	c.e9-1	p.N1114_splice	RUSC2_uc010mkq.2_Splice_Site|RUSC2_uc003zwx.3_Splice_Site_p.N1114_splice	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2							cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			TCTCCCTACAGCATCCGGTCC	0.502													38	87					4.67007e-22	5.08348e-22	0.00874	1	0		T	35559222	T	T	35559222	5	4	128	1	0	0	0	0	0	0	1	0	13776	985	34	5	3371	5	RUSC2	9	35559222	Splice_Site	SNP	G	TCGA-CG-4306-01A-01D-1158-08	457302	35559222	105654209	526	70814											
NPR2	4882	broad.mit.edu	37	chr9	35794060	35794060	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggccctggcaggacaatcGcacccgggaacaggcccagg	9	2	14	16	3	0	0	0	0	0	0	1	2	0	2	4	6	1	2	4	6	2	0	rs114995755	by1000genomes	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:35794060G>A	uc003zyd.2	+	2	833	c.833G>A	c.(832-834)CGC>CAC	p.R278H	NPR2_uc010mlb.2_Missense_Mutation_p.R278H	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	278	Extracellular (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	CAGGACAATCGCACCCGGgaa	0.378													24	82					0	0	0.007291	0	0		A	35794060	A	A	35794060	3	1	128	1	0	0	0	0	1	0	0	0	10614	1087	38	1	839	1	NPR2	9	35794060	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	234838	35794060	105419371	527	70815											
FBXO10	26267	broad.mit.edu	37	chr9	37541398	37541398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggccatggccaaggcaCtgcccaggctgtcaaactca	9	6	12	14	0	2	0	2	0	0	0	2	0	2	0	3	5	2	3	3	5	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:37541398C>T	uc004aab.2	-	2	417	c.368G>A	c.(367-369)AGT>AAT	p.S123N	FBXO10_uc004aac.2_Missense_Mutation_p.S139N|FBXO10_uc004aad.2_Intron	NM_012166	NP_036298	Q9UK96	FBX10_HUMAN	F-box protein 10	123						ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(5)	5				GBM - Glioblastoma multiforme(29;0.0107)		GGCCAAGGCACTGCCCAGGCT	0.542													42	140					0	0	0.007835	0	0		T	37541398	T	T	37541398	3	4	128	1	0	0	0	0	1	0	0	0	5740	565	20	4	2542	4	FBXO10	9	37541398	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1747338	37541398	103672033	528	70816											
TRPM3	80036	broad.mit.edu	37	chr9	73152135	73152135	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgtccgtgcagtctgaCgaggtcctcgagcggatttt	5	10	15	11	6	1	1	0	1	1	0	4	4	3	2	2	3	2	1	2	3	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:73152135C>T	uc004aid.2	-	25	4102	c.3858G>A	c.(3856-3858)TCG>TCA	p.S1286S	TRPM3_uc004ahu.2_Silent_p.S1128S|TRPM3_uc004ahv.2_Silent_p.S1088S|TRPM3_uc004ahw.2_Silent_p.S1158S|TRPM3_uc004ahx.2_Silent_p.S1145S|TRPM3_uc004ahy.2_Silent_p.S1148S|TRPM3_uc004ahz.2_Silent_p.S1135S|TRPM3_uc004aia.2_Silent_p.S1133S|TRPM3_uc004aib.2_Silent_p.S1123S|TRPM3_uc004aic.2_Silent_p.S1286S	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1311	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						TGCAGTCTGACGAGGTCCTCG	0.612													49	121					0	0	0.01441	0	0		T	73152135	T	T	73152135	2	4	128	1	0	0	0	0	0	0	0	1	16613	523	19	1		1	TRPM3	9	73152135	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	35610737	73152135	68061296	529	70817											
TMC1	117531	broad.mit.edu	37	chr9	75369791	75369791	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaactttggtgtgttgtaCgacttcaatgtaagtgtctc	9	15	10	7	1	2	0	1	0	1	0	3	1	2	0	0	1	2	4	0	1	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:75369791C>T	uc004aiz.1	+	12	1272	c.732C>T	c.(730-732)TAC>TAT	p.Y244Y	TMC1_uc010moz.1_Silent_p.Y202Y|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Silent_p.Y98Y|TMC1_uc010mpa.1_Silent_p.Y98Y	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	244	Extracellular (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						GTGTGTTGTACGACTTCAATG	0.458													18	50					0	0	0.007413	0	0		T	75369791	T	T	75369791	2	4	128	1	0	0	0	0	0	0	0	1	16009	547	19	1		1	TMC1	9	75369791	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2217656	75369791	65843640	530	70818											
VPS13A	23230	broad.mit.edu	37	chr9	79792679	79792679	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttgggggactatgtggTggacttggacacgtcccagc	6	11	15	9	1	1	0	0	0	1	0	2	3	2	3	1	5	1	1	1	5	1	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:79792679T>C	uc004akr.2	+	1	319	c.59T>C	c.(58-60)GTG>GCG	p.V20A	VPS13A_uc004akp.3_Missense_Mutation_p.V20A|VPS13A_uc004akq.3_Missense_Mutation_p.V20A|VPS13A_uc004aks.2_Missense_Mutation_p.V20A|uc011lsn.1_RNA	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	20					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GACTATGTGGTGGACTTGGAC	0.667													9	53					0	0	0.010729	0	0		C	79792679	C	C	79792679	3	2	128	1	0	0	0	0	1	0	0	0	17215	1696	59	3	61	3	VPS13A	9	79792679	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	4422888	79792679	61420752	531	70819											
CTSL1	1514	broad.mit.edu	37	chr9	90343560	90343560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgaaggacagatgttcCggaaaactgggaggcttatc	11	10	12	8	1	1	2	0	1	1	1	3	5	2	5	1	4	1	2	1	4	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:90343560C>T	uc004aph.2	+	5	807	c.457C>T	c.(457-459)CGG>TGG	p.R153W	CTSL1_uc004api.2_Missense_Mutation_p.R153W|CTSL1_uc004apj.2_Missense_Mutation_p.R98W|CTSL1_uc010mqh.2_Intron|CTSL1_uc004apk.2_Missense_Mutation_p.R153W|CTSL1_uc004apl.2_Missense_Mutation_p.R153W	NM_001912	NP_001903	P07711	CATL1_HUMAN	cathepsin L1 preproprotein	153					macrophage apoptosis|proteolysis	extracellular region|lysosome|nucleus	cysteine-type endopeptidase activity|histone binding			ovary(3)	3					Glucagon recombinant(DB00040)	ACAGATGTTCCGGAAAACTGG	0.463													55	187					0	0	0.01441	0	0		T	90343560	T	T	90343560	3	4	128	1	0	0	0	0	1	0	0	0	4041	643	23	1	471	1	CTSL1	9	90343560	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	10550881	90343560	50869871	532	70820											
CKS2	1164	broad.mit.edu	37	chr9	91926143	91926143	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttgttgcctgggctggaCgtggttttgtctgctgcgcc	2	14	16	9	2	1	0	0	0	1	0	1	2	1	1	2	3	3	5	2	3	0	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:91926143C>T	uc004aqh.2	+	1	31	c.-64C>T	c.(-66--62)GACGT>GATGT		hsa-mir-3153|MI0014180_5'Flank	NM_001827	NP_001818	P33552	CKS2_HUMAN	CDC28 protein kinase 2						cell division|cell proliferation|phosphatidylinositol-mediated signaling|regulation of cyclin-dependent protein kinase activity|spindle organization		cyclin-dependent protein kinase regulator activity				0						CTGGGCTGGACGTGGTTTTGT	0.607													4	13					0	0	0.009096	0	0		T	91926143	T	T	91926143	1	4	128	1	0	0	0	0	0	0	0	0	3456	551	19	1		1	CKS2	9	91926143	Translation_Start_Site	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1582583	91926143	49287288	533	70821											
SECISBP2	79048	broad.mit.edu	37	chr9	91964707	91964707	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggccagaggggatggaCgaactgatctccactccttc	10	7	13	11	1	1	2	0	1	1	1	4	6	2	4	3	4	1	0	3	4	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:91964707C>T	uc004aqj.1	+	13	1835	c.1755C>T	c.(1753-1755)GAC>GAT	p.D585D	SECISBP2_uc011ltk.1_Silent_p.D584D|SECISBP2_uc004aqk.1_Silent_p.D512D|SECISBP2_uc010mqo.1_Silent_p.D290D|SECISBP2_uc011ltl.1_Silent_p.D517D	NM_024077	NP_076982	Q96T21	SEBP2_HUMAN	SECIS binding protein 2	585					translation	nucleus	mRNA 3'-UTR binding			ovary(2)|skin(1)	3						AGGGGATGGACGAACTGATCT	0.567													33	143					0	0	0.017118	0	0		T	91964707	T	T	91964707	2	4	128	1	0	0	0	0	0	0	0	1	14031	535	19	1		1	SECISBP2	9	91964707	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	38564	91964707	49248724	534	70822											
IARS	3376	broad.mit.edu	37	chr9	95012488	95012488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctttatgggaatagtttttCggtctctgatcactcttcca	7	17	7	10	1	3	1	1	1	2	0	6	2	4	2	2	2	0	1	2	2	3	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:95012488C>T	uc004art.1	-	24	2770	c.2513G>A	c.(2512-2514)CGA>CAA	p.R838Q	IARS_uc004ars.1_Missense_Mutation_p.R683Q|IARS_uc004aru.3_Missense_Mutation_p.R838Q|IARS_uc010mqr.2_Missense_Mutation_p.R728Q|IARS_uc010mqt.2_Missense_Mutation_p.R61Q	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	838					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	AATAGTTTTTCGGTCTCTGAT	0.353													26	126					0	0	0.004656	0	0		T	95012488	T	T	95012488	3	4	128	1	0	0	0	0	1	0	0	0	7489	884	31	1	1319	1	IARS	9	95012488	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3047781	95012488	46200943	535	70823											
NOL8	55035	broad.mit.edu	37	chr9	95073456	95073456	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctctcctggatggctcTgctcctgagtcgatgtctcc	4	14	9	14	1	3	1	0	1	3	0	8	3	5	2	4	2	1	2	4	2	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:95073456T>C	uc004arv.2	-	8	2781	c.2444A>G	c.(2443-2445)CAG>CGG	p.Q815R	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Missense_Mutation_p.Q47R|NOL8_uc011ltw.1_Missense_Mutation_p.Q747R	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	815					DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						TGGATGGCTCTGCTCCTGAGT	0.493													12	56					0	0	0.003163	0	0		C	95073456	C	C	95073456	3	2	128	1	0	0	0	0	1	0	0	0	10546	1580	55	3	1099	3	NOL8	9	95073456	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	60968	95073456	46139975	536	70824											
FAM120A	23196	broad.mit.edu	37	chr9	96214614	96214614	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccaaaggtctggttcctGccgcccgtctgcatggccca	5	8	11	17	3	2	0	0	0	2	0	3	0	3	0	6	3	2	2	6	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:96214614G>A	uc004atw.2	+	1	442	c.417G>A	c.(415-417)CTG>CTA	p.L139L	FAM120AOS_uc004atm.2_5'Flank|FAM120AOS_uc004atn.3_5'Flank|FAM120AOS_uc004ato.3_5'Flank|FAM120AOS_uc004atp.3_5'Flank|FAM120AOS_uc004atq.3_5'Flank|FAM120AOS_uc004atr.3_5'Flank|FAM120AOS_uc004ats.3_Intron|FAM120AOS_uc004att.3_Intron|FAM120AOS_uc004atu.3_Silent_p.G126G|FAM120A_uc004atv.2_Silent_p.L139L	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	139						cytoplasm|plasma membrane	RNA binding				0						TCTGGTTCCTGCCGCCCGTCT	0.567													7	20					0	0	0.006214	0	0		A	96214614	A	A	96214614	2	1	128	1	0	0	0	0	0	0	0	1	5426	1306	46	2		2	FAM120A	9	96214614	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1141158	96214614	44998817	537	70825											
ZNF367	195828	broad.mit.edu	37	chr9	99150564	99150564	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttggcaagctctatgagCgcgagggctccatgcaggcg	8	7	16	10	3	1	1	0	1	1	0	2	2	2	1	1	4	3	5	1	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:99150564C>T	uc004awf.2	-	5	1363	c.1008G>A	c.(1006-1008)GCG>GCA	p.A336A		NM_153695	NP_710162	Q7RTV3	ZN367_HUMAN	zinc finger protein 367	336	Potential.				regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0167)				GCTCTATGAGCGCGAGGGCTC	0.577													16	81					0	0	0.006122	0	0		T	99150564	T	T	99150564	2	4	128	1	0	0	0	0	0	0	0	1	17896	755	27	1		1	ZNF367	9	99150564	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2935950	99150564	42062867	538	70826											
ERP44	23071	broad.mit.edu	37	chr9	102778630	102778630	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attttcaaatgttatttctcGgacaagaggaacacatttat	14	15	6	6	1	2	1	1	0	1	1	3	3	2	3	0	2	1	1	0	2	5	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:102778630G>A	uc004bam.2	-	8	944	c.736C>T	c.(736-738)CGA>TGA	p.R246*	ERP44_uc010msy.2_RNA|ERP44_uc010msz.2_Nonsense_Mutation_p.R246*	NM_015051	NP_055866	Q9BS26	ERP44_HUMAN	thioredoxin domain containing 4 (endoplasmic	246	Interaction with ITPR1 (By similarity).				cell redox homeostasis|glycoprotein metabolic process|protein folding|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane|ER-Golgi intermediate compartment	protein binding|protein disulfide isomerase activity				0						GTTATTTCTCGGACAAGAGGA	0.373													15	172					0	0	0.003163	0	0		A	102778630	A	A	102778630	4	1	128	1	0	0	0	0	0	1	0	0	5251	1124	39	1	504	1	ERP44	9	102778630	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3628066	102778630	38434801	539	70827											
ERP44	23071	broad.mit.edu	37	chr9	102782969	102782969	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaaactctatagttgtcCgagtccttttgctcaaaata	13	14	5	9	1	3	0	2	0	1	0	5	1	5	0	2	0	2	2	2	0	7	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:102782969C>T	uc004bam.2	-	6	724	c.516G>A	c.(514-516)TCG>TCA	p.S172S	ERP44_uc010msy.2_RNA|ERP44_uc010msz.2_Silent_p.S172S	NM_015051	NP_055866	Q9BS26	ERP44_HUMAN	thioredoxin domain containing 4 (endoplasmic	172					cell redox homeostasis|glycoprotein metabolic process|protein folding|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane|ER-Golgi intermediate compartment	protein binding|protein disulfide isomerase activity				0						TATAGTTGTCCGAGTCCTTTT	0.313													15	62					0	0	0.004007	0	0		T	102782969	T	T	102782969	2	4	128	1	0	0	0	0	0	0	0	1	5251	639	23	1		1	ERP44	9	102782969	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4339	102782969	38430462	540	70828											
OR13C4	138804	broad.mit.edu	37	chr9	107289389	107289389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaattagaatcactacgtaCataactagaatcagagcaaa	19	8	5	9	1	2	3	2	0	0	3	2	3	2	3	1	0	4	2	1	0	9	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:107289389C>T	uc011lvn.1	-	1	102	c.102G>A	c.(100-102)ATG>ATA	p.M34I		NM_001001919	NP_001001919	Q8NGS5	O13C4_HUMAN	olfactory receptor, family 13, subfamily C,	34	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TCACTACGTACATAACTAGAA	0.413													45	150					0	0	0.011902	0	0		T	107289389	T	T	107289389	3	4	128	1	0	0	0	0	1	0	0	0	10955	478	17	4	856	4	OR13C4	9	107289389	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4506420	107289389	33924042	541	70829											
ZNF462	58499	broad.mit.edu	37	chr9	109692859	109692859	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagaggaaagtggtgggCtacaaatgtaaattctgtgt	14	10	14	3	0	1	1	0	0	1	1	1	3	1	2	0	4	1	2	0	4	6	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:109692859C>T	uc004bcz.2	+	4	6190	c.5901C>T	c.(5899-5901)GGC>GGT	p.G1967G	ZNF462_uc010mto.2_Silent_p.G1815G|ZNF462_uc004bda.2_Silent_p.G1815G|ZNF462_uc011lvz.1_5'Flank	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1967					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						AAGTGGTGGGCTACAAATGTA	0.507													17	53					0	0	0.007413	0	0		T	109692859	T	T	109692859	2	4	128	1	0	0	0	0	0	0	0	1	17951	784	28	2		2	ZNF462	9	109692859	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2403470	109692859	31520572	542	70830											
ZNF462	58499	broad.mit.edu	37	chr9	109694807	109694807	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacagctgccagtattgctcGtttgtttctgctttcaggca	6	16	9	10	1	2	0	1	0	1	0	3	0	2	0	1	1	5	7	1	1	2	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:109694807G>A	uc004bcz.2	+	5	6382	c.6093G>A	c.(6091-6093)TCG>TCA	p.S2031S	ZNF462_uc010mto.2_Silent_p.S1940S|ZNF462_uc004bda.2_Silent_p.S1939S|ZNF462_uc011lvz.1_5'Flank	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	2031	C2H2-type 19.				transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						AGTATTGCTCGTTTGTTTCTG	0.527													11	46					0	0	0.008871	0	0		A	109694807	A	A	109694807	2	1	128	1	0	0	0	0	0	0	0	1	17951	1132	40	1		1	ZNF462	9	109694807	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1948	109694807	31518624	543	70831											
KLF4	9314	broad.mit.edu	37	chr9	110248069	110248069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgtaaggcgaggtggtccGacctggaaaatgctcggtcg	8	9	16	8	4	0	0	0	0	0	0	3	3	1	1	2	5	1	2	2	5	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:110248069G>A	uc004bdh.2	-	4	2099	c.1478C>T	c.(1477-1479)TCG>TTG	p.S493L	KLF4_uc004bdf.1_Missense_Mutation_p.S418L|KLF4_uc004bdg.2_Missense_Mutation_p.S468L	NM_004235	NP_004226	O43474	KLF4_HUMAN	Kruppel-like factor 4 (gut)	502	C2H2-type 3.|Interaction with target DNA (By similarity).				fat cell differentiation|mesodermal cell fate determination|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|stem cell maintenance|transcription from RNA polymerase II promoter	nucleus	RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor recruiting transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(2)|lung(1)	3						GAGGTGGTCCGACCTGGAAAA	0.493													104	278					0	0	0.01441	0	0		A	110248069	A	A	110248069	3	1	128	1	0	0	0	0	1	0	0	0	8364	1059	37	1	40	1	KLF4	9	110248069	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	553262	110248069	30965362	544	70832											
ALAD	210	broad.mit.edu	37	chr9	116152094	116152094	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcaaatttggcactgtaGctcatcaccgatacctatgg	12	10	9	10	1	2	0	2	0	0	0	2	2	2	0	2	2	3	4	2	2	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:116152094G>A	uc011lxf.1	-	8	787	c.585C>T	c.(583-585)AGC>AGT	p.S195S	ALAD_uc011lxe.1_Silent_p.S178S|ALAD_uc004bhl.3_Silent_p.S224S	NM_000031	NP_000022	P13716	HEM2_HUMAN	delta-aminolevulinic acid dehydratase	195					heme biosynthetic process|protein homooligomerization	cytosol	identical protein binding|lead ion binding|porphobilinogen synthase activity|zinc ion binding				0					Aminolevulinic acid(DB00855)	TGGCACTGTAGCTCATCACCG	0.562													20	63					0	0	0.01892	0	0		A	116152094	A	A	116152094	2	1	128	1	0	0	0	0	0	0	0	1	483	962	34	2		2	ALAD	9	116152094	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5904025	116152094	25061337	545	70833											
PTGS1	5742	broad.mit.edu	37	chr9	125148845	125148845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaataccgcaaccgcattgCcatggagttcaaccatctct	11	9	6	15	2	2	0	1	0	1	0	3	1	2	1	5	1	4	3	5	1	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:125148845C>T	uc004bmg.1	+	9	1265	c.1130C>T	c.(1129-1131)GCC>GTC	p.A377V	PTGS1_uc011lys.1_Missense_Mutation_p.A352V|PTGS1_uc010mwb.1_Missense_Mutation_p.A268V|PTGS1_uc004bmf.1_Missense_Mutation_p.A377V|PTGS1_uc004bmh.1_Missense_Mutation_p.A268V|PTGS1_uc011lyt.1_Missense_Mutation_p.A268V	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	377					cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	AACCGCATTGCCATGGAGTTC	0.542													6	356					0	0	0.001984	0	0		T	125148845	T	T	125148845	3	4	128	1	0	0	0	0	1	0	0	0	12778	739	26	2	1164	2	PTGS1	9	125148845	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	8996751	125148845	16064586	546	70834											
OR1Q1	158131	broad.mit.edu	37	chr9	125377740	125377740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaaccttttctacctgcGgctcccacctcactgtggtg	7	11	9	14	1	2	0	1	0	1	0	3	1	3	1	4	3	3	1	4	3	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:125377740G>A	uc011lyy.1	+	1	724	c.724G>A	c.(724-726)GGC>AGC	p.G242S		NM_012364	NP_036496	Q15612	OR1Q1_HUMAN	olfactory receptor, family 1, subfamily Q,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTCTACCTGCGGCTCCCACCT	0.557													48	79					0	0	0.01441	0	0		A	125377740	A	A	125377740	3	1	128	1	0	0	0	0	1	0	0	0	10990	1116	39	1	726	1	OR1Q1	9	125377740	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	228895	125377740	15835691	547	70835											
GPR21	2844	broad.mit.edu	37	chr9	125797169	125797169	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccagatatttggttttgtAgtatcagttctgaagagcgt	9	16	11	5	1	2	3	1	1	1	2	2	3	2	3	1	1	2	4	1	1	4	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:125797169A>G	uc011lzk.1	+	1	324	c.324A>G	c.(322-324)GTA>GTG	p.V108V	RABGAP1_uc004bnl.3_Intron|RABGAP1_uc011lzh.1_Intron|RABGAP1_uc011lzj.1_Intron|GPR21_uc011lzi.1_RNA	NM_005294	NP_005285	Q99679	GPR21_HUMAN	G protein-coupled receptor 21	108	Helical; Name=3; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1						TTGGTTTTGTAGTATCAGTTC	0.443													30	70					0	0	0.008361	0	0		G	125797169	G	G	125797169	2	3	128	1	0	0	0	0	0	0	0	1	6696	407	15	3		3	GPR21	9	125797169	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	419429	125797169	15416262	548	70836											
NR5A1	2516	broad.mit.edu	37	chr9	127262518	127262518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagcccaagatgcgggcccGcacctggtcctcatccggct	6	6	12	17	3	1	1	1	0	0	1	3	1	3	1	5	3	2	3	5	3	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:127262518G>A	uc004boo.1	-	4	908	c.721C>T	c.(721-723)CGG>TGG	p.R241W		NM_004959	NP_004950	Q13285	STF1_HUMAN	nuclear receptor subfamily 5, group A, member 1	241	Important for dimerization.				cell-cell signaling|male gonad development|positive regulation of transcription from RNA polymerase II promoter|primary sex determination|regulation of steroid biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|phospholipid binding|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						ATGCGGGCCCGCACCTGGTCC	0.677													7	16					0	0	0.001984	0	0		A	127262518	A	A	127262518	3	1	128	1	0	0	0	0	1	0	0	0	10654	1086	38	1	680	1	NR5A1	9	127262518	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1465349	127262518	13950913	549	70837											
NR6A1	2649	broad.mit.edu	37	chr9	127289148	127289148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgatagaggtagatgagccGctcgatcacctccatccctt	9	10	10	12	2	1	4	1	2	0	2	4	5	3	4	4	1	1	2	4	1	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:127289148G>A	uc004bor.1	-	8	1289	c.1111C>T	c.(1111-1113)CGG>TGG	p.R371W	NR6A1_uc004boq.1_Missense_Mutation_p.R366W|NR6A1_uc010mwq.1_Missense_Mutation_p.R367W	NM_033334	NP_201591	Q15406	NR6A1_HUMAN	nuclear receptor subfamily 6, group A, member 1	371					cell proliferation|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	transcription factor complex	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						TAGATGAGCCGCTCGATCACC	0.488													40	108					0	0	0.007835	0	0		A	127289148	A	A	127289148	3	1	128	1	0	0	0	0	1	0	0	0	10656	1086	38	1	343	1	NR6A1	9	127289148	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	26630	127289148	13924283	550	70838											
FAM129B	64855	broad.mit.edu	37	chr9	130272446	130272446	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcccagcttgtcaatgccGccctcgttgatgacgttcag	6	11	10	14	4	2	2	2	2	0	0	4	2	2	2	3	0	2	3	3	0	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:130272446G>A	uc004brh.2	-	9	1342	c.1140C>T	c.(1138-1140)GGC>GGT	p.G380G	FAM129B_uc004bri.2_Silent_p.G367G|FAM129B_uc004brj.3_Silent_p.G380G	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	380							protein binding				0						TGTCAATGCCGCCCTCGTTGA	0.632													39	124					0	0	0.00623	0	0		A	130272446	A	A	130272446	2	1	128	1	0	0	0	0	0	0	0	1	5448	1074	38	1		1	FAM129B	9	130272446	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2983298	130272446	10940985	551	70839											
SH2D3C	10044	broad.mit.edu	37	chr9	130507379	130507379	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcggcatggacacgggttaCtgcagaaaggtagagagaga	13	5	17	6	2	0	3	0	0	0	3	0	6	0	4	0	5	2	4	0	5	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:130507379C>T	uc004bsc.2	-	7	1407	c.1265_splice	c.e7-1	p.V422_splice	SH2D3C_uc010mxo.2_Splice_Site_p.V262_splice|SH2D3C_uc004bry.2_Splice_Site_p.V264_splice|SH2D3C_uc004brz.3_Splice_Site_p.V68_splice|SH2D3C_uc011mak.1_Splice_Site_p.V68_splice|SH2D3C_uc004bsa.2_Splice_Site_p.V265_splice|SH2D3C_uc004bsb.2_Splice_Site_p.V354_splice	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a						JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						ACACGGGTTACTGCAGAAAGG	0.622													22	52					0	0	0.010504	0	0		T	130507379	T	T	130507379	5	4	128	1	0	0	0	0	0	0	1	0	14259	579	20	4	1342	4	SH2D3C	9	130507379	Splice_Site	SNP	C	TCGA-CG-4306-01A-01D-1158-08	234933	130507379	10706052	552	70840											
CERCAM	51148	broad.mit.edu	37	chr9	131191074	131191074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcctcagctcatgtgactCggccctctaagaggcccagc	8	7	11	15	1	3	2	2	1	1	1	4	2	3	2	3	3	2	1	3	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:131191074C>T	uc004buz.3	+	7	1323	c.925C>T	c.(925-927)CGG>TGG	p.R309W	CERCAM_uc004buy.1_Missense_Mutation_p.R231W|CERCAM_uc010mxz.2_Missense_Mutation_p.R231W|CERCAM_uc010mya.1_Missense_Mutation_p.R150W	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	309					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						TCATGTGACTCGGCCCTCTAA	0.617													17	100					0	0	0.008871	0	0		T	131191074	T	T	131191074	3	4	128	1	0	0	0	0	1	0	0	0	3269	875	31	1	951	1	CERCAM	9	131191074	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	683695	131191074	10022357	553	70841											
SET	6418	broad.mit.edu	37	chr9	131455924	131455924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtattcatttaggatttgaCgaaacgttcgagtcaaacgc	12	12	10	7	4	2	1	2	1	0	0	3	4	2	2	0	2	2	2	0	2	4	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:131455924C>T	uc004bvt.3	+	6	780	c.539C>T	c.(538-540)ACG>ATG	p.T180M	SET_uc004bvu.3_Missense_Mutation_p.T167M|SET_uc010myg.2_RNA|SET_uc011mbj.1_Missense_Mutation_p.T156M	NM_001122821	NP_001116293	Q01105	SET_HUMAN	SET translocation (myeloid leukemia-associated)	180					DNA replication|mRNA metabolic process|negative regulation of histone acetylation|negative regulation of neuron apoptosis|negative regulation of transcription, DNA-dependent|nucleocytoplasmic transport|nucleosome assembly|nucleosome disassembly	cytosol|endoplasmic reticulum|nucleoplasm|perinuclear region of cytoplasm|protein complex	histone binding|protein phosphatase inhibitor activity|protein phosphatase type 2A regulator activity				0		Myeloproliferative disorder(178;0.204)		GBM - Glioblastoma multiforme(294;3.1e-09)		TAGGATTTGACGAAACGTTCG	0.408			T	NUP214	AML								13	37					0	0	0.013537	0	0		T	131455924	T	T	131455924	3	4	128	1	0	0	0	0	1	0	0	0	14153	536	19	1	638	1	SET	9	131455924	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	264850	131455924	9757507	554	70842											
LAMC3	10319	broad.mit.edu	37	chr9	133914292	133914292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgaggaatgcacgtttgatCgggagctcttccgcagcaca	9	8	12	12	4	1	1	0	1	1	0	3	4	2	3	2	2	3	5	2	2	1	2	rs146887458		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:133914292C>T	uc004caa.1	+	5	1116	c.1018C>T	c.(1018-1020)CGG>TGG	p.R340W		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	340	Laminin EGF-like 2.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		CACGTTTGATCGGGAGCTCTT	0.607													25	75					0	0	0.021022	0	0		T	133914292	T	T	133914292	3	4	128	1	0	0	0	0	1	0	0	0	8632	875	31	1	1036	1	LAMC3	9	133914292	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2458368	133914292	7299139	555	70843											
LAMC3	10319	broad.mit.edu	37	chr9	133942368	133942368	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgctgtgaggtctgtgAtgatggcttttttggggacc	4	13	17	7	2	1	3	0	3	1	0	1	4	1	4	1	5	0	2	1	5	0	3	rs147529316		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:133942368A>G	uc004caa.1	+	14	2467	c.2369A>G	c.(2368-2370)GAT>GGT	p.D790G		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	790	Laminin EGF-like 7.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		GAGGTCTGTGATGATGGCTTT	0.637													28	96					0	0	0.009535	0	0		G	133942368	G	G	133942368	3	3	128	1	0	0	0	0	1	0	0	0	8632	333	12	3	2423	3	LAMC3	9	133942368	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	28076	133942368	7271063	556	70844											
BRD3	8019	broad.mit.edu	37	chr9	136901415	136901415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctctgagtcgtaggaggCagatgcctgcttgccgcctt	5	12	12	12	2	1	2	0	1	1	1	3	3	2	3	4	2	3	3	4	2	1	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:136901415C>T	uc004cew.2	-	10	1863	c.1675G>A	c.(1675-1677)GCC>ACC	p.A559T	BRD3_uc004cex.2_3'UTR	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	559						nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		TCGTAGGAGGCAGATGCCTGC	0.607			T	NUT|C15orf55	lethal midline carcinoma of young people								20	72					0	0	0.012319	0	0		T	136901415	T	T	136901415	3	4	128	1	0	0	0	0	1	0	0	0	1506	710	25	2	517	2	BRD3	9	136901415	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2959047	136901415	4312016	557	70845											
OLFM1	10439	broad.mit.edu	37	chr9	138011370	138011370	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggtacatggacggctaTcacaacaaccgcttcgtacg	10	9	11	11	4	1	0	1	0	0	0	2	1	1	1	1	3	4	4	1	3	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:138011370T>A	uc010nar.2	+	6	1120	c.804T>A	c.(802-804)TAT>TAA	p.Y268*	OLFM1_uc004cfl.3_Nonsense_Mutation_p.Y250*|OLFM1_uc004cfn.3_Nonsense_Mutation_p.Y19*	NM_014279	NP_055094	Q99784	NOE1_HUMAN	olfactomedin related ER localized protein	268	Olfactomedin-like.				nervous system development	endoplasmic reticulum lumen	protein binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(178;0.0333)		Epithelial(140;5.49e-08)|OV - Ovarian serous cystadenocarcinoma(145;9.68e-08)|all cancers(34;1.88e-07)		TGGACGGCTATCACAACAACC	0.557													43	108					0	0	0.01441	0	0		A	138011370	A	A	138011370	4	1	128	1	0	0	0	0	0	1	0	0	10871	1442	50	5	782	5	OLFM1	9	138011370	Nonsense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1109955	138011370	3202061	558	70846											
QSOX2	169714	broad.mit.edu	37	chr9	139113734	139113734	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagaaatgctttgtccccGtccagtgctcgggtcaccac	7	10	9	15	2	1	1	1	0	0	1	5	1	4	1	5	1	2	2	5	1	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:139113734G>A	uc010nbi.2	-	6	767	c.729C>T	c.(727-729)GAC>GAT	p.D243D		NM_181701	NP_859052	Q6ZRP7	QSOX2_HUMAN	quiescin Q6 sulfhydryl oxidase 2 precursor	243					cell redox homeostasis	extracellular region|integral to membrane|nuclear membrane|plasma membrane	thiol oxidase activity			ovary(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;7.78e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.55e-07)		CTTTGTCCCCGTCCAGTGCTC	0.507													36	114					0	0	0.005524	0	0		A	139113734	A	A	139113734	2	1	128	1	0	0	0	0	0	0	0	1	12909	1136	40	1		1	QSOX2	9	139113734	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1102364	139113734	2099697	559	70847											
SNAPC4	6621	broad.mit.edu	37	chr9	139279234	139279234	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttaaattccaccgacccTttttcaagctgaaatgtaat	12	15	4	10	1	1	1	1	1	0	0	2	2	2	1	3	0	1	2	3	0	5	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:139279234T>C	uc004chh.2	-	13	1367	c.1358A>G	c.(1357-1359)AAG>AGG	p.K453R		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	453	HTH myb-type 3.				snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		CCACCGACCCTTTTTCAAGCT	0.403													22	85					0	0	0.016522	0	0		C	139279234	C	C	139279234	3	2	128	1	0	0	0	0	1	0	0	0	14862	1609	56	3	3091	3	SNAPC4	9	139279234	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	165500	139279234	1934197	560	70848											
NOTCH1	4851	broad.mit.edu	37	chr9	139412379	139412379	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacttgcccgcatgctcgcaGgggttggcacctggcgaggg	5	7	16	13	3	0	0	0	0	0	0	1	1	0	0	2	5	2	5	2	5	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:139412379G>T	uc004chz.2	-	8	1266	c.1266C>A	c.(1264-1266)CCC>CCA	p.P422P		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	422	Extracellular (Potential).|EGF-like 11; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CATGCTCGCAGGGGTTGGCAC	0.662			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			14	39					4.7546e-09	4.97959e-09	0.004007	1	0		T	139412379	T	T	139412379	2	4	128	1	0	0	0	0	0	0	0	1	10566	987	35	5		5	NOTCH1	9	139412379	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	133145	139412379	1801052	561	70849											
KIAA1984	84960	broad.mit.edu	37	chr9	139699855	139699855	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatggaataccagtcgggCgtgactgctgtggtggagaa	11	8	16	6	2	0	2	0	1	0	1	1	5	0	3	1	4	2	1	1	4	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:139699855C>T	uc004cjf.2	+	9	942	c.894C>T	c.(892-894)GGC>GGT	p.G298G	C9orf86_uc004cjm.2_5'Flank|C9orf86_uc004cjh.2_5'Flank|C9orf86_uc004cjj.1_5'Flank|C9orf86_uc004cjk.1_5'Flank|C9orf86_uc004cji.1_5'Flank|C9orf86_uc010nbr.1_5'Flank|LOC100131193_uc004cjg.1_RNA	NM_001039374	NP_001034463	Q5T5S1	K1984_HUMAN	hypothetical protein LOC84960	298										ovary(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.33e-06)|Epithelial(140;0.000124)		ACCAGTCGGGCGTGACTGCTG	0.602													13	42					0	0	0.003163	0	0		T	139699855	T	T	139699855	2	4	128	1	0	0	0	0	0	0	0	1	8282	755	27	1		1	KIAA1984	9	139699855	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	287476	139699855	1513576	562	70850											
C9orf172	389813	broad.mit.edu	37	chr9	139741105	139741105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtgtcggcttcctgtcgCgcggccgcggcgtgctcttc	0	10	15	16	9	1	0	0	0	1	0	5	0	2	0	2	3	1	2	2	3	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:139741105C>T	uc011meh.1	+	1	2239	c.2239C>T	c.(2239-2241)CGC>TGC	p.R747C	PHPT1_uc004cjp.2_5'Flank|PHPT1_uc011mei.1_5'Flank|PHPT1_uc004cjq.3_5'Flank	NM_001080482	NP_001073951	C9J069	CI172_HUMAN	chromosome 9 open reading frame 172	747											0						CTTCCTGTCGCGCGGCCGCGG	0.697													5	16					0	0	0.004482	0	0		T	139741105	T	T	139741105	3	4	128	1	0	0	0	0	1	0	0	0	2474	768	27	1	2241	1	C9orf172	9	139741105	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	41250	139741105	1472326	563	70851											
EDF1	8721	broad.mit.edu	37	chr9	139757759	139757759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtggccaggtccttctgcGtaagccccttgctctgccga	4	10	11	16	3	2	0	0	0	2	0	3	1	3	0	6	2	4	2	6	2	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:139757759G>A	uc004cjt.1	-	3	300	c.272C>T	c.(271-273)ACG>ATG	p.T91M	EDF1_uc004cju.1_Missense_Mutation_p.T91M	NM_003792	NP_003783	O60869	EDF1_HUMAN	endothelial differentiation-related factor 1	91	Interaction with TBP and NR5A1.|HTH cro/C1-type.|Interaction with NR5A2, PPARG and NR1H3.			T->A: No effect on CALM-binding.|T->D: Partial loss of interaction with CALM. Complete loss of interaction; when associated with D-40; D-58 and D-111.	endothelial cell differentiation|multicellular organismal development|positive regulation of DNA binding|positive regulation of transcription, DNA-dependent|regulation of lipid metabolic process|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleolus|nucleus	calmodulin binding|protein binding|protein binding|sequence-specific DNA binding|transcription coactivator activity				0	all_cancers(76;0.0841)|all_epithelial(76;0.217)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		GTCCTTCTGCGTAAGCCCCTT	0.657													31	102					0	0	0.017118	0	0		A	139757759	A	A	139757759	3	1	128	1	0	0	0	0	1	0	0	0	4920	1145	40	1	221	1	EDF1	9	139757759	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	16654	139757759	1455672	564	70852											
C9orf142	286257	broad.mit.edu	37	chr9	139888076	139888076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacctggagtcaggaggCggtgtccaggagagtcgctc	7	7	17	10	2	1	1	1	0	0	1	4	5	2	4	2	6	0	1	2	6	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:139888076C>T	uc004cki.2	+	6	561	c.535C>T	c.(535-537)CGG>TGG	p.R179W		NM_183241	NP_899064	Q9BUH6	CI142_HUMAN	hypothetical protein LOC286257	179											0	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0821)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		AGTCAGGAGGCGGTGTCCAGG	0.637													20	94					0	0	0.012319	0	0		T	139888076	T	T	139888076	3	4	128	1	0	0	0	0	1	0	0	0	2464	759	27	1	557	1	C9orf142	9	139888076	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	130317	139888076	1325355	565	70853											
CACNA1B	774	broad.mit.edu	37	chr9	140809195	140809195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgccatcctcatgtttGccatcattggcctggagttc	5	16	8	12	0	3	0	2	0	1	0	5	1	4	1	4	2	2	2	4	2	0	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr9:140809195G>A	uc004cog.2	+	5	857	c.712G>A	c.(712-714)GCC>ACC	p.A238T		NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	238	Helical; Name=S5 of repeat I; (Potential).|I.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	CCTCATGTTTGCCATCATTGG	0.562													15	41					0	0	0.004007	0	0		A	140809195	A	A	140809195	3	1	128	1	0	0	0	0	1	0	0	0	2542	1319	46	2	730	2	CACNA1B	9	140809195	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	921119	140809195	404236	566	70854											
ADARB2	105	broad.mit.edu	37	chr10	1279635	1279635	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtaaaagcatggtctcttaCggtctgtggtgatctcgtag	8	13	13	7	2	3	1	0	1	3	0	5	1	3	1	0	4	2	3	0	4	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:1279635C>T	uc009xhq.2	-	6	1887	c.1513_splice	c.e6+1	p.L505_splice		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2						mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		TGGTCTCTTACGGTCTGTGGT	0.597													63	162					0	0	0.01441	0	0		T	1279635	T	T	1279635	5	4	128	1	0	0	0	0	0	0	1	0	283	550	19	1	725	1	ADARB2	10	1279635	Splice_Site	SNP	C	TCGA-CG-4306-01A-01D-1158-08		1279635	134255112	567	70855											
AKR1C3	8644	broad.mit.edu	37	chr10	5144398	5144398	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggatctcaacgagacaaaCgatggtaataaaaacaatgg	18	7	10	6	2	1	1	1	0	1	1	2	4	1	2	0	3	3	1	0	3	7	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:5144398C>T	uc001ihr.2	+	6	859	c.676C>T	c.(676-678)CGA>TGA	p.R226*	AKR1C3_uc010qap.1_Nonsense_Mutation_p.R203*|AKR1C3_uc001ihu.2_Nonsense_Mutation_p.R226*	NM_003739	NP_003730	P42330	AK1C3_HUMAN	aldo-keto reductase family 1, member C3	226	NADP (By similarity).				prostaglandin metabolic process	cytoplasm	aldo-keto reductase (NADP) activity|androsterone dehydrogenase (A-specific) activity|indanol dehydrogenase activity|prostaglandin-F synthase activity|testosterone 17-beta-dehydrogenase (NAD+) activity|testosterone 17-beta-dehydrogenase (NADP+) activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity			skin(1)	1					Dimethyl sulfoxide(DB01093)|NADH(DB00157)	ACGAGACAAACGATGGTAATA	0.378													37	103					0	0	0.00623	0	0		T	5144398	T	T	5144398	4	4	128	1	0	0	0	0	0	1	0	0	471	528	19	1	698	1	AKR1C3	10	5144398	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3864763	5144398	130390349	568	70856											
C10orf18	54906	broad.mit.edu	37	chr10	5799586	5799586	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaccaagaactgtttcgtgCaggaggctttgtgatatcag	10	12	11	8	1	1	2	1	1	0	1	2	3	1	3	1	2	3	3	1	2	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:5799586C>A	uc001iij.2	+	17	7461	c.6836C>A	c.(6835-6837)GCA>GAA	p.A2279E	C10orf18_uc001iik.2_Missense_Mutation_p.A1123E	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	2279										ovary(1)|central_nervous_system(1)	2						CTGTTTCGTGCAGGAGGCTTT	0.423													119	328					5.2246e-62	5.82558e-62	0.01441	1	0		A	5799586	A	A	5799586	3	1	128	1	0	0	0	0	1	0	0	0	1599	710	25	5	6890	5	C10orf18	10	5799586	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	655188	5799586	129735161	569	70857											
IL2RA	3559	broad.mit.edu	37	chr10	6067873	6067873	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagcatatagagtgacccGctttttattctgcggaaacc	11	11	9	10	2	1	3	0	1	1	2	1	4	1	4	2	1	3	2	2	1	4	6	rs74162093		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:6067873G>A	uc001iiz.1	-	2	339	c.180C>T	c.(178-180)AGC>AGT	p.S60S	IL2RA_uc009xih.1_Silent_p.S60S|IL2RA_uc001ija.1_Silent_p.S22S	NM_000417	NP_000408	P01589	IL2RA_HUMAN	interleukin 2 receptor, alpha chain precursor	60	Sushi 1.|Extracellular (Potential).				cell proliferation	integral to membrane	interleukin-2 receptor activity			ovary(1)|skin(1)	2					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	AGAGTGACCCGCTTTTTATTC	0.498													31	86					0	0	0.008361	0	0		A	6067873	A	A	6067873	2	1	128	1	0	0	0	0	0	0	0	1	7702	1078	38	1		1	IL2RA	10	6067873	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	268287	6067873	129466874	570	70858											
CELF2	10659	broad.mit.edu	37	chr10	11363317	11363317	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacagccagagcctgctgcAgcagcagagcgctgcaggca	10	4	14	13	1	0	2	0	0	0	2	0	2	0	2	2	1	9	8	2	1	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:11363317A>C	uc001iki.3	+	11	1315	c.1223A>C	c.(1222-1224)CAG>CCG	p.Q408P	CELF2_uc010qbj.1_Missense_Mutation_p.Q414P|CELF2_uc001ikk.2_Missense_Mutation_p.Q433P|CELF2_uc001ikl.3_Missense_Mutation_p.Q421P|CELF2_uc010qbl.1_Missense_Mutation_p.Q384P|CELF2_uc010qbm.1_Missense_Mutation_p.Q180P|CELF2_uc001iko.3_Missense_Mutation_p.Q388P|CELF2_uc001ikp.3_Missense_Mutation_p.Q390P|CELF2_uc010qbn.1_Missense_Mutation_p.Q396P|CELF2_uc010qbo.1_Missense_Mutation_p.Q303P|CELF2_uc010qbp.1_Missense_Mutation_p.Q180P	NM_001025077	NP_001020248	O95319	CELF2_HUMAN	CUG triplet repeat, RNA binding protein 2	408	Necessary for RNA-binding, TNNT2 exon 5 and NMDA R1 exon 21 inclusion.				mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0						AGCCTGCTGCAGCAGCAGAGC	0.667													12	32					0	0	0.00632	0	0		C	11363317	C	C	11363317	3	2	128	1	0	0	0	0	1	0	0	0	3219	188	7	5	1373	5	CELF2	10	11363317	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	5295444	11363317	124171430	571	70859											
CUBN	8029	broad.mit.edu	37	chr10	16990509	16990509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggtgaccgtggtgtggaaaCccccagcactgatgctagaa	10	7	13	11	2	0	3	0	2	0	1	0	4	0	4	3	3	3	2	3	3	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:16990509C>T	uc001ioo.2	-	35	5229	c.5177G>A	c.(5176-5178)GGT>GAT	p.G1726D		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1726	CUB 11.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GGTGTGGAAACCCCCAGCACT	0.517													8	44					0	0	0.008291	0	0		T	16990509	T	T	16990509	3	4	128	1	0	0	0	0	1	0	0	0	4054	507	18	4	5826	4	CUBN	10	16990509	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5627192	16990509	118544238	572	70860											
MRC1	4360	broad.mit.edu	37	chr10	18138557	18138557	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggtggccgtatgccggTcactgttacaagattcacag	9	10	12	10	2	2	1	2	0	0	1	2	1	2	1	2	3	2	2	2	3	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:18138557T>C	uc001ipm.2	+	7	1216	c.1113T>C	c.(1111-1113)GGT>GGC	p.G371G		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	371	Extracellular (Potential).|C-type lectin 2.				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						CGTATGCCGGTCACTGTTACA	0.438													26	136					0	0	0.006999	0	0		C	18138557	C	C	18138557	2	2	128	1	0	0	0	0	0	0	0	1	9774	1654	58	3		3	MRC1	10	18138557	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1148048	18138557	117396190	573	70861											
KIAA1217	56243	broad.mit.edu	37	chr10	24825761	24825761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtcatgctgagccatcccGggctgacagtcacgttaaag	10	8	11	12	2	2	2	2	2	0	0	3	2	3	2	2	1	2	3	2	1	2	1	rs145406190		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:24825761G>A	uc001iru.3	+	17	3876	c.3473G>A	c.(3472-3474)CGG>CAG	p.R1158Q	KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Missense_Mutation_p.R1122Q|KIAA1217_uc010qcz.1_Missense_Mutation_p.R1123Q|KIAA1217_uc001irw.2_Missense_Mutation_p.R841Q|KIAA1217_uc001irz.2_Intron|KIAA1217_uc001irx.2_Missense_Mutation_p.R841Q|KIAA1217_uc001iry.2_Missense_Mutation_p.R841Q	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	1158					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						GAGCCATCCCGGGCTGACAGT	0.488													60	174					0	0	0.01441	0	0		A	24825761	A	A	24825761	3	1	128	1	0	0	0	0	1	0	0	0	8232	1116	39	1	3539	1	KIAA1217	10	24825761	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	6687204	24825761	110708986	574	70862											
GPR158	57512	broad.mit.edu	37	chr10	25886723	25886723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgagctgaaaaaactctatgCccaactggaaatatataaaa	19	8	6	8	1	1	1	0	1	1	0	1	3	1	2	1	1	4	1	1	1	10	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:25886723C>T	uc001isj.2	+	11	2228	c.2168C>T	c.(2167-2169)GCC>GTC	p.A723V	GPR158_uc001isk.2_Missense_Mutation_p.A98V	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	723	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						AAACTCTATGCCCAACTGGAA	0.413													48	171					0	0	0.01441	0	0		T	25886723	T	T	25886723	3	4	128	1	0	0	0	0	1	0	0	0	6678	739	26	2	2210	2	GPR158	10	25886723	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1060962	25886723	109648024	575	70863											
FZD8	8325	broad.mit.edu	37	chr10	35929020	35929020	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gacttgacgctgggcacaagCcacgcggccaggtggaagta	10	5	15	11	3	0	1	0	1	0	0	0	3	0	2	2	4	1	3	2	4	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:35929020C>T	uc001iyz.1	-	1	1343	c.1338G>A	c.(1336-1338)TGG>TGA	p.W446*		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	446	Helical; Name=4; (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						TGGGCACAAGCCACGCGGCCA	0.657													11	19					0	0	0.008291	0	0		T	35929020	T	T	35929020	4	4	128	1	0	0	0	0	0	1	0	0	6150	740	26	2	750	2	FZD8	10	35929020	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	10042297	35929020	99605727	576	70864											
ZNF248	57209	broad.mit.edu	37	chr10	38120692	38120692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttagtgagagctgatttttCacagaaggttttcccacatt	10	16	8	7	0	1	3	1	2	0	2	2	4	2	3	1	1	1	2	1	1	2	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:38120692C>T	uc001izd.1	-	6	2090	c.1591G>A	c.(1591-1593)GAA>AAA	p.E531K	ZNF248_uc009xmc.2_Intron|ZNF248_uc001izb.2_Intron|ZNF248_uc001izc.2_Intron|ZNF248_uc010qeu.1_Missense_Mutation_p.E531K	NM_021045	NP_066383	Q8NDW4	ZN248_HUMAN	zinc finger protein 248	531	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GCTGATTTTTCACAGAAGGTT	0.433													43	135					0	0	0.011902	0	0		T	38120692	T	T	38120692	3	4	128	1	0	0	0	0	1	0	0	0	17818	835	29	4	152	4	ZNF248	10	38120692	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2191672	38120692	97414055	577	70865											
ZNF25	219749	broad.mit.edu	37	chr10	38241644	38241644	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaggctttcccacactccTtacactcatagggtttctcc	10	12	5	14	0	2	0	1	0	1	0	5	0	4	0	3	2	1	2	3	2	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:38241644T>G	uc001ize.1	-	6	887	c.782A>C	c.(781-783)AAG>ACG	p.K261T	ZNF25_uc001izf.1_Missense_Mutation_p.K225T	NM_145011	NP_659448	P17030	ZNF25_HUMAN	zinc finger protein 25	261	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|central_nervous_system(1)	4		all_neural(218;0.0218)|Breast(68;0.0389)|Ovarian(717;0.0443)|Renal(717;0.157)				CCCACACTCCTTACACTCATA	0.433													4	201					0	0	0.001168	0	0		G	38241644	G	G	38241644	3	3	128	1	0	0	0	0	1	0	0	0	17819	1609	56	5	592	5	ZNF25	10	38241644	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	120952	38241644	97293103	578	70866											
BMS1	9790	broad.mit.edu	37	chr10	43292210	43292210	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatttgctgacagtgacgaTgaccttgagaggagctcagc	10	9	13	9	1	1	4	1	4	0	1	1	7	1	5	1	1	3	3	1	1	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:43292210T>C	uc001jaj.2	+	10	1876	c.1518T>C	c.(1516-1518)GAT>GAC	p.D506D		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	506					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						ACAGTGACGATGACCTTGAGA	0.488													31	98					0	0	0.010818	0	0		C	43292210	C	C	43292210	2	2	128	1	0	0	0	0	0	0	0	1	1473	1461	51	3		3	BMS1	10	43292210	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	5050566	43292210	92242537	579	70867											
ZNF239	8187	broad.mit.edu	37	chr10	44052449	44052449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accggtgaatgtgaaggttcGagctctgactgaagcccttc	9	10	12	10	2	1	4	0	4	1	0	3	5	1	4	2	2	2	2	2	2	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:44052449G>A	uc001jaw.3	-	2	1732	c.1079C>T	c.(1078-1080)TCG>TTG	p.S360L	ZNF239_uc001jax.3_Missense_Mutation_p.S360L|ZNF239_uc009xmj.2_Missense_Mutation_p.S360L|ZNF239_uc009xmk.2_Missense_Mutation_p.S360L	NM_005674	NP_005665	Q16600	ZN239_HUMAN	zinc finger protein 239	360	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|RNA binding|zinc ion binding				0						GTGAAGGTTCGAGCTCTGACT	0.542													24	109					0	0	0.021523	0	0		A	44052449	A	A	44052449	3	1	128	1	0	0	0	0	1	0	0	0	17816	1059	37	1	301	1	ZNF239	10	44052449	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	760239	44052449	91482298	580	70868											
GPRIN2	9721	broad.mit.edu	37	chr10	46999541	46999541	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccaaagctgctgaacagCtggctaccaccacctgccat	11	6	8	16	0	0	1	0	1	0	0	0	1	0	1	5	1	7	4	5	1	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:46999541C>T	uc001jec.2	+	3	796	c.661C>T	c.(661-663)CTG>TTG	p.L221L	GPRIN2_uc010qfq.1_5'Flank	NM_014696	NP_055511	O60269	GRIN2_HUMAN	G protein-regulated inducer of neurite outgrowth	221											0						TGCTGAACAGCTGGCTACCAC	0.637													17	71					0	0	0.004007	0	0		T	46999541	T	T	46999541	2	4	128	1	0	0	0	0	0	0	0	1	6746	796	28	2		2	GPRIN2	10	46999541	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2947092	46999541	88535206	581	70869											
PPYR1	5540	broad.mit.edu	37	chr10	47087175	47087175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgacggtctccatcctctCgctcgtcctcgtggccctgg	2	11	12	16	4	2	1	0	1	2	0	8	1	4	1	4	4	0	1	4	4	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:47087175C>T	uc001jee.2	+	3	811	c.392C>T	c.(391-393)TCG>TTG	p.S131L	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.S131L	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	131	Helical; Name=3; (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						TCCATCCTCTCGCTCGTCCTC	0.577													48	304					0	0	0.01441	0	0		T	47087175	T	T	47087175	3	4	128	1	0	0	0	0	1	0	0	0	12438	893	31	1	394	1	PPYR1	10	47087175	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	87634	47087175	88447572	582	70870											
RBP3	5949	broad.mit.edu	37	chr10	48389221	48389221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgactgcataaggaaggCgaactcctccgcggccgtgg	9	5	14	13	5	0	0	0	0	0	0	2	3	2	1	3	4	3	1	3	4	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:48389221C>T	uc001jez.2	-	1	1771	c.1657G>A	c.(1657-1659)GCC>ACC	p.A553T		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	553	4 X approximate tandem repeats.|2.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	ATAAGGAAGGCGAACTCCTCC	0.672													24	53					0	0	0.005443	0	0		T	48389221	T	T	48389221	3	4	128	1	0	0	0	0	1	0	0	0	13182	768	27	1	2102	1	RBP3	10	48389221	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1302046	48389221	87145526	583	70871											
GDF2	2658	broad.mit.edu	37	chr10	48414123	48414123	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaagaagggcaggtttcTggaacctggggggacactga	13	6	15	7	0	1	2	0	1	1	1	1	4	1	4	1	6	2	2	1	6	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:48414123T>C	uc001jfa.1	-	2	908	c.745A>G	c.(745-747)AGA>GGA	p.R249G		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	249					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						GGCAGGTTTCTGGAACCTGGG	0.557													24	89					0	0	0.004656	0	0		C	48414123	C	C	48414123	3	2	128	1	0	0	0	0	1	0	0	0	6329	1588	55	3	548	3	GDF2	10	48414123	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	24902	48414123	87120624	584	70872											
C10orf72	196740	broad.mit.edu	37	chr10	50315742	50315742	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgcccttgatcggagggCtgcagtgtcaagacggagag	10	8	15	8	2	1	3	1	1	0	2	2	5	1	4	1	3	2	2	1	3	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:50315742C>T	uc001jhf.2	-	2	383	c.354G>A	c.(352-354)CAG>CAA	p.Q118Q	C10orf72_uc001jhh.2_Silent_p.Q118Q	NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	118	Ig-like.|Extracellular (Potential).					integral to membrane|plasma membrane					0						GATCGGAGGGCTGCAGTGTCA	0.607													41	85					0	0	0.006999	0	0		T	50315742	T	T	50315742	2	4	128	1	0	0	0	0	0	0	0	1	1618	796	28	2		2	C10orf72	10	50315742	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1901619	50315742	85219005	585	70873											
TFAM	7019	broad.mit.edu	37	chr10	60154714	60154714	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcagcatgctaaagaggaCgaaactcgttatcataatga	16	10	8	7	2	2	2	2	1	0	1	3	4	2	3	0	1	3	3	0	1	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:60154714C>T	uc001jkf.2	+	7	753	c.621C>T	c.(619-621)GAC>GAT	p.D207D	TFAM_uc001jkg.2_RNA|TFAM_uc001jkh.2_Silent_p.D175D	NM_003201	NP_003192	Q00059	TFAM_HUMAN	transcription factor A, mitochondrial precursor	207	HMG box 2.				DNA-dependent DNA replication|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase I promoter|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	mitochondrial light strand promoter sense binding|protein binding|sequence-specific DNA binding transcription factor activity				0						CTAAAGAGGACGAAACTCGTT	0.289													10	48					0	0	0.008291	0	0		T	60154714	T	T	60154714	2	4	128	1	0	0	0	0	0	0	0	1	15811	535	19	1		1	TFAM	10	60154714	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	9838972	60154714	75380033	586	70874											
PHYHIPL	84457	broad.mit.edu	37	chr10	60994193	60994193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggattcaaaatcaaaggatcGcattacacactattttattg	15	13	6	7	1	2	0	2	0	0	0	3	2	2	2	0	2	1	1	0	2	6	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:60994193G>A	uc001jkk.3	+	2	502	c.236G>A	c.(235-237)CGC>CAC	p.R79H	PHYHIPL_uc001jkl.3_Missense_Mutation_p.R33H|PHYHIPL_uc001jkm.3_Missense_Mutation_p.R53H	NM_032439	NP_115815	Q96FC7	PHIPL_HUMAN	phytanoyl-CoA 2-hydroxylase interacting	79	Fibronectin type-III.										0						TCAAAGGATCGCATTACACAC	0.323													16	72					0	0	0.004007	0	0		A	60994193	A	A	60994193	3	1	128	1	0	0	0	0	1	0	0	0	11886	1087	38	1	274	1	PHYHIPL	10	60994193	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	839479	60994193	74540554	587	70875											
ANK3	288	broad.mit.edu	37	chr10	61831926	61831926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgtttgttaacaatttgcGttctctctcagtcacagaca	9	14	7	11	2	3	1	2	0	2	1	5	1	3	1	1	0	2	3	1	0	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:61831926G>A	uc001jky.2	-	37	8905	c.8713C>T	c.(8713-8715)CGC>TGC	p.R2905C	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2905					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						AACAATTTGCGTTCTCTCTCA	0.358													30	82					0	0	0.009535	0	0		A	61831926	A	A	61831926	3	1	128	1	0	0	0	0	1	0	0	0	622	1145	40	1	4761	1	ANK3	10	61831926	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	837733	61831926	73702821	588	70876											
EGR2	1959	broad.mit.edu	37	chr10	64573218	64573218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggcgaagggcttctcacCggtgtgggtgcggatatggg	7	8	18	8	3	1	0	1	0	1	0	2	2	1	1	1	6	1	1	1	6	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:64573218C>T	uc010qim.1	-	3	1334	c.1180G>A	c.(1180-1182)GGT>AGT	p.G394S	EGR2_uc010qin.1_Missense_Mutation_p.G344S|EGR2_uc001jmi.2_Missense_Mutation_p.G394S|EGR2_uc010qio.1_Missense_Mutation_p.G407S|EGR2_uc009xph.2_Missense_Mutation_p.G394S	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	394					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GGCTTCTCACCGGTGTGGGTG	0.577													40	173					0	0	0.01441	0	0		T	64573218	T	T	64573218	3	4	128	1	0	0	0	0	1	0	0	0	4978	652	23	1	254	1	EGR2	10	64573218	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2741292	64573218	70961529	589	70877											
EGR2	1959	broad.mit.edu	37	chr10	64573837	64573837	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtggctgctgacaggaaCgcagaagggtcctggtagag	9	7	18	7	1	0	3	0	1	0	2	1	4	1	4	1	5	2	4	1	5	3	1	rs144739493	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:64573837C>T	uc010qim.1	-	3	715	c.561G>A	c.(559-561)GCG>GCA	p.A187A	EGR2_uc010qin.1_Silent_p.A137A|EGR2_uc001jmi.2_Silent_p.A187A|EGR2_uc010qio.1_Silent_p.A200A|EGR2_uc009xph.2_Silent_p.A187A	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	187					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					CTGACAGGAACGCAGAAGGGT	0.627													34	97					0	0	0.019004	0	0		T	64573837	T	T	64573837	2	4	128	1	0	0	0	0	0	0	0	1	4978	523	19	1		1	EGR2	10	64573837	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	619	64573837	70960910	590	70878											
JMJD1C	221037	broad.mit.edu	37	chr10	64968900	64968900	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagaggccgatgaggctcTgcactggaaggtctgacagg	10	8	15	8	1	2	3	0	2	2	1	2	5	2	4	1	5	1	2	1	5	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:64968900T>C	uc001jmn.2	-	9	3090	c.2790A>G	c.(2788-2790)GCA>GCG	p.A930A	JMJD1C_uc001jml.2_Silent_p.A711A|JMJD1C_uc001jmm.2_Silent_p.A642A|JMJD1C_uc010qiq.1_Silent_p.A748A|JMJD1C_uc009xpi.2_Silent_p.A748A|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_5'Flank	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	930					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					GATGAGGCTCTGCACTGGAAG	0.443													53	136					0	0	0.01441	0	0		C	64968900	C	C	64968900	2	2	128	1	0	0	0	0	0	0	0	1	7966	1567	55	3		3	JMJD1C	10	64968900	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	395063	64968900	70565847	591	70879											
CTNNA3	29119	broad.mit.edu	37	chr10	69407188	69407188	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacctggattatgagaggCtccagtagcttctccacggt	10	11	10	10	1	1	1	0	1	1	1	3	3	2	2	3	3	2	3	3	3	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:69407188C>T	uc009xpn.1	-	2	207	c.84G>A	c.(82-84)GAG>GAA	p.E28E	CTNNA3_uc001jmw.2_Silent_p.E28E|CTNNA3_uc001jmx.3_Silent_p.E28E|CTNNA3_uc009xpo.1_5'UTR|CTNNA3_uc001jna.2_Silent_p.E40E	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	28					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						TTATGAGAGGCTCCAGTAGCT	0.383													4	115					0	0	0.009096	0	0		T	69407188	T	T	69407188	2	4	128	1	0	0	0	0	0	0	0	1	4017	796	28	2		2	CTNNA3	10	69407188	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4438288	69407188	66127559	592	70880											
HERC4	26091	broad.mit.edu	37	chr10	69804277	69804277	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtatgagcttctccacaTgaaacagctacaatattttg	14	12	6	9	1	1	2	0	2	1	0	2	2	1	2	1	0	5	3	1	0	6	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:69804277T>C	uc001jng.3	-	4	581	c.270A>G	c.(268-270)TCA>TCG	p.S90S	HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Silent_p.S90S|HERC4_uc009xpr.2_Silent_p.S90S|HERC4_uc001jni.3_Intron|HERC4_uc001jnj.2_Silent_p.S90S	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	90	RCC1 2.				cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						CTTCTCCACATGAAACAGCTA	0.433													4	222					0	0	0.001168	0	0		C	69804277	C	C	69804277	2	2	128	1	0	0	0	0	0	0	0	1	7076	1451	51	3		3	HERC4	10	69804277	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	397089	69804277	65730470	593	70881											
ATOH7	220202	broad.mit.edu	37	chr10	69991318	69991318	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccgccaggcgcctgcgCgccgcgctctccagccgccc	2	5	13	21	7	1	0	0	0	1	0	2	0	1	0	7	2	2	1	7	2	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:69991318C>T	uc001jnq.2	-	1	538	c.117G>A	c.(115-117)GCG>GCA	p.A39A		NM_145178	NP_660161	Q8N100	ATOH7_HUMAN	atonal homolog 7	39					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0						GGCGCCTGCGCGCCGCGCTCT	0.801													4	16					0	0	0.014758	0	0		T	69991318	T	T	69991318	2	4	128	1	0	0	0	0	0	0	0	1	1114	755	27	1		1	ATOH7	10	69991318	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	187041	69991318	65543429	594	70882											
H2AFY2	55506	broad.mit.edu	37	chr10	71851564	71851564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgtcctgcccagaattcacCccgaactgctggccaaaaag	11	6	9	15	2	1	1	1	0	0	1	2	2	2	1	5	1	3	1	5	1	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:71851564C>T	uc001jqm.2	+	4	790	c.331C>T	c.(331-333)CCC>TCC	p.P111S	H2AFY2_uc001jqn.2_RNA	NM_018649	NP_061119	Q9P0M6	H2AW_HUMAN	H2A histone family, member Y2	111	Histone H2A.				chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding			skin(1)	1						CAGAATTCACCCCGAACTGCT	0.557													15	70					0	0	0.004007	0	0		T	71851564	T	T	71851564	3	4	128	1	0	0	0	0	1	0	0	0	6946	623	22	4	341	4	H2AFY2	10	71851564	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1860246	71851564	63683183	595	70883											
ADAMTS14	140766	broad.mit.edu	37	chr10	72511870	72511870	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggatccagttcaccaaataCggctgccggcgcagacgaga	11	5	13	12	4	1	2	1	0	0	2	2	4	2	3	3	3	2	3	3	3	2	2	rs147720294		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:72511870C>T	uc001jrh.2	+	18	2616	c.2616C>T	c.(2614-2616)TAC>TAT	p.Y872Y	ADAMTS14_uc001jrg.2_Silent_p.Y875Y	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	872	TSP type-1 2.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						TCACCAAATACGGCTGCCGGC	0.662													8	14					0	0	0.003163	0	0		T	72511870	T	T	72511870	2	4	128	1	0	0	0	0	0	0	0	1	259	547	19	1		1	ADAMTS14	10	72511870	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	660306	72511870	63022877	596	70884											
ADAMTS14	140766	broad.mit.edu	37	chr10	72511949	72511949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggcccaagcccatccgcCggcgctgcaaccagcacccg	9	2	11	19	4	0	1	0	0	0	1	1	1	1	1	6	2	4	3	6	2	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:72511949C>T	uc001jrh.2	+	18	2695	c.2695C>T	c.(2695-2697)CGG>TGG	p.R899W	ADAMTS14_uc001jrg.2_Missense_Mutation_p.R902W	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	899	TSP type-1 2.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						GCCCATCCGCCGGCGCTGCAA	0.657													15	64					0	0	0.006122	0	0		T	72511949	T	T	72511949	3	4	128	1	0	0	0	0	1	0	0	0	259	643	23	1	2774	1	ADAMTS14	10	72511949	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	79	72511949	63022798	597	70885											
UNC5B	219699	broad.mit.edu	37	chr10	73047450	73047450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccggacctgcaccaaccccGctccactcaacggaggggcc	8	3	10	20	3	1	0	1	0	0	0	2	2	2	2	7	4	3	2	7	4	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:73047450G>A	uc001jro.2	+	6	1274	c.829G>A	c.(829-831)GCT>ACT	p.A277T	UNC5B_uc001jrp.2_Missense_Mutation_p.A277T	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	277	TSP type-1 1.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						CACCAACCCCGCTCCACTCAA	0.662													8	131					0	0	0.00308	0	0		A	73047450	A	A	73047450	3	1	128	1	0	0	0	0	1	0	0	0	17018	1087	38	1	851	1	UNC5B	10	73047450	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	535501	73047450	62487297	598	70886											
DUPD1	338599	broad.mit.edu	37	chr10	76803595	76803595	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcgatgaaggctgccgcCgggtagaagaagacactgag	11	6	15	9	3	0	5	0	2	0	3	1	6	0	5	2	2	1	2	2	2	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:76803595C>T	uc001jwq.1	-	2	381	c.381G>A	c.(379-381)CCG>CCA	p.P127P		NM_001003892	NP_001003892	Q68J44	DUPD1_HUMAN	dual specificity phosphatase and pro isomerase	127	Tyrosine-protein phosphatase.					cytoplasm	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)	2	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					AGGCTGCCGCCGGGTAGAAGA	0.483													32	106					0	0	0.00623	0	0		T	76803595	T	T	76803595	2	4	128	1	0	0	0	0	0	0	0	1	4810	639	23	1		1	DUPD1	10	76803595	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3756145	76803595	58731152	599	70887											
MAT1A	4143	broad.mit.edu	37	chr10	82034359	82034359	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcttctgagaggttccgtaGgtgaagatggaaatggacag	11	10	15	5	1	2	3	0	2	2	2	3	6	3	5	1	4	0	2	1	4	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:82034359G>T	uc001kbw.2	-	8	1257	c.1002C>A	c.(1000-1002)ACC>ACA	p.T334T		NM_000429	NP_000420	Q00266	METK1_HUMAN	methionine adenosyltransferase I, alpha	334					methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0			Colorectal(32;0.229)		L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	AGGTTCCGTAGGTGAAGATGG	0.572													48	110					6.3237e-29	6.97498e-29	0.01441	1	0		T	82034359	T	T	82034359	2	4	128	1	0	0	0	0	0	0	0	1	9347	987	35	5		5	MAT1A	10	82034359	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5230764	82034359	53500388	600	70888											
MMRN2	79812	broad.mit.edu	37	chr10	88696544	88696544	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaaatgcagtgcccgacaGgcttctctttgttattgatc	8	13	8	12	1	1	1	0	1	1	0	3	2	1	1	2	1	2	3	2	1	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:88696544G>T	uc001kea.2	-	7	2933	c.2806C>A	c.(2806-2808)CTG>ATG	p.L936M	MMRN2_uc010qmn.1_Missense_Mutation_p.L579M	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	936	C1q.					extracellular space				large_intestine(1)	1						GTGCCCGACAGGCTTCTCTTT	0.552													87	272					7.49063e-41	8.31736e-41	0.01441	1	0		T	88696544	T	T	88696544	3	4	128	1	0	0	0	0	1	0	0	0	9689	991	35	5	47	5	MMRN2	10	88696544	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	6662185	88696544	46838203	601	70889											
RNLS	55328	broad.mit.edu	37	chr10	90122398	90122398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaagggacatcaatcttcGtaccagcttcataaaagagg	14	8	8	11	1	3	1	2	0	1	1	4	2	3	2	2	2	2	2	2	2	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:90122398G>A	uc001kfe.2	-	5	746	c.611C>T	c.(610-612)ACG>ATG	p.T204M	RNLS_uc010qms.1_Missense_Mutation_p.T121M|RNLS_uc001kfd.2_Missense_Mutation_p.T204M|RNLS_uc009xtj.2_Missense_Mutation_p.T36M	NM_001031709	NP_001026879	Q5VYX0	RNLS_HUMAN	renalase isoform 1	204						extracellular region	oxidoreductase activity			ovary(1)	1						ATCAATCTTCGTACCAGCTTC	0.468													31	98					0	0	0.010818	0	0		A	90122398	A	A	90122398	3	1	128	1	0	0	0	0	1	0	0	0	13530	1145	40	1	505	1	RNLS	10	90122398	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1425854	90122398	45412349	602	70890											
PANK1	53354	broad.mit.edu	37	chr10	91353042	91353042	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cgaggtcttccttgctgatgGaatctcgcttttctttactc	5	17	8	11	2	3	1	0	1	3	0	6	3	4	2	1	2	2	2	1	2	2	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:91353042G>C	uc001kgp.1	-	5	1679	c.1523C>G	c.(1522-1524)TCC>TGC	p.S508C	PANK1_uc001kgn.1_Missense_Mutation_p.S283C|PANK1_uc001kgo.1_Missense_Mutation_p.S224C|PANK1_uc009xtu.1_Missense_Mutation_p.S310C|uc001kgq.1_5'Flank|MIR107_hsa-mir-107|MI0000114_5'Flank	NM_148977	NP_683878	Q8TE04	PANK1_HUMAN	pantothenate kinase 1 isoform alpha	508					coenzyme A biosynthetic process|pantothenate metabolic process	cytosol|nucleus	ATP binding|pantothenate kinase activity				0					Bezafibrate(DB01393)	CTTGCTGATGGAATCTCGCTT	0.502													24	50					0	0	0.01892	0	0		C	91353042	C	C	91353042	3	2	128	1	0	0	0	0	1	0	0	0	11435	1174	41	5	285	5	PANK1	10	91353042	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1230644	91353042	44181705	603	70891											
PPP1R3C	5507	broad.mit.edu	37	chr10	93390388	93390388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagtcagcaaacacaacgcGcttcttggcttggttgtgtg	8	11	13	9	2	2	0	1	0	1	0	2	1	2	1	0	3	3	4	0	3	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:93390388G>A	uc001kho.2	-	2	382	c.250C>T	c.(250-252)CGC>TGC	p.R84C		NM_005398	NP_005389	Q9UQK1	PPR3C_HUMAN	protein phosphatase 1, regulatory (inhibitor)	84							protein serine/threonine phosphatase activity			breast(1)	1		Colorectal(252;0.235)				AACACAACGCGCTTCTTGGCT	0.458													53	125					0	0	0.01441	0	0		A	93390388	A	A	93390388	3	1	128	1	0	0	0	0	1	0	0	0	12395	1087	38	1	707	1	PPP1R3C	10	93390388	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2037346	93390388	42144359	604	70892											
PDE6C	5146	broad.mit.edu	37	chr10	95381733	95381733	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatttgaagaactcacagaTgttgagcgacagtttcacaa	14	11	9	7	1	2	4	2	2	0	2	2	5	2	4	0	0	2	3	0	0	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:95381733T>C	uc001kiu.3	+	4	906	c.768T>C	c.(766-768)GAT>GAC	p.D256D		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	256	GAF 2.				visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				AACTCACAGATGTTGAGCGAC	0.398													38	137					0	0	0.006999	0	0		C	95381733	C	C	95381733	2	2	128	1	0	0	0	0	0	0	0	1	11666	1461	51	3		3	PDE6C	10	95381733	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1991345	95381733	40153014	605	70893											
BLNK	29760	broad.mit.edu	37	chr10	97987263	97987263	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcatcagcgttctcctcGgcgggcatcacgtacatctc	6	11	9	15	4	5	0	3	0	2	0	8	0	5	0	1	2	2	3	1	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:97987263G>A	uc001kls.3	-	5	442	c.264C>T	c.(262-264)GCC>GCT	p.A88A	BLNK_uc001kme.3_Silent_p.A6A|BLNK_uc001klt.3_Silent_p.A6A|BLNK_uc009xvc.2_Intron|BLNK_uc001klu.3_Silent_p.A6A|BLNK_uc001klv.3_Silent_p.A88A|BLNK_uc001klw.3_RNA|BLNK_uc001klx.3_Silent_p.A88A|BLNK_uc001kly.3_Silent_p.A88A|BLNK_uc001klz.3_RNA|BLNK_uc001kma.3_Silent_p.A88A|BLNK_uc001kmb.3_5'UTR|BLNK_uc001kmc.3_RNA|BLNK_uc001kmd.3_Silent_p.A6A|BLNK_uc009xvd.2_RNA	NM_013314	NP_037446	Q8WV28	BLNK_HUMAN	B-cell linker isoform 1	88					B cell differentiation|humoral immune response|inflammatory response|intracellular signal transduction	cytoplasm|plasma membrane	SH3/SH2 adaptor activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(2)	2		Colorectal(252;0.083)		Epithelial(162;7.89e-08)|all cancers(201;2.27e-06)		CGTTCTCCTCGGCGGGCATCA	0.582													55	134					0	0	0.01441	0	0		A	97987263	A	A	97987263	2	1	128	1	0	0	0	0	0	0	0	1	1448	1103	39	1		1	BLNK	10	97987263	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2605530	97987263	37547484	606	70894											
HPS1	3257	broad.mit.edu	37	chr10	100185361	100185361	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctggcgcaggtctcccacGaggggctgggagcgcaggga	6	5	18	12	3	2	0	0	0	2	0	3	3	2	2	1	6	1	3	1	6	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:100185361G>A	uc010qpf.1	-	13	1518	c.1272C>T	c.(1270-1272)CTC>CTT	p.L424L	HPS1_uc001kpi.1_Silent_p.L424L|HPS1_uc001kpj.1_Silent_p.L331L|HPS1_uc001kpk.1_Silent_p.L248L|HPS1_uc010qpg.1_Silent_p.L44L|HPS1_uc009xwb.2_RNA	NM_000195	NP_000186	Q92902	HPS1_HUMAN	Hermansky-Pudlak syndrome 1 protein isoform a	424					lysosome organization|response to stimulus|visual perception	cytoplasmic membrane-bounded vesicle|integral to plasma membrane|lysosome|membrane fraction|soluble fraction	protein dimerization activity			skin(1)	1		Colorectal(252;0.234)		Epithelial(162;3.87e-12)|all cancers(201;5.63e-10)		GGTCTCCCACGAGGGGCTGGG	0.622									Hermansky-Pudlak_syndrome		OREG0020430	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	27					0	0	0.016723	0	0		A	100185361	A	A	100185361	2	1	128	1	0	0	0	0	0	0	0	1	7355	1045	37	1		1	HPS1	10	100185361	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2198098	100185361	35349386	607	70895											
DNMBP	23268	broad.mit.edu	37	chr10	101639896	101639896	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacattcttttggcggaggaGatgcatcttgaggctgcttc	7	13	12	9	1	2	2	0	1	2	1	3	4	2	3	0	4	2	3	0	4	0	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:101639896G>T	uc001kqj.2	-	16	4312	c.4220C>A	c.(4219-4221)TCT>TAT	p.S1407Y	DNMBP_uc010qpl.1_Missense_Mutation_p.S343Y|DNMBP_uc001kqg.2_Missense_Mutation_p.S695Y|DNMBP_uc001kqh.2_Missense_Mutation_p.S1039Y	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	1407	Ser-rich.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		TGGCGGAGGAGATGCATCTTG	0.542													57	234					5.45122e-27	5.9977e-27	0.01441	1	0		T	101639896	T	T	101639896	3	4	128	1	0	0	0	0	1	0	0	0	4680	942	33	5	521	5	DNMBP	10	101639896	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1454535	101639896	33894851	608	70896											
HPS6	79803	broad.mit.edu	37	chr10	103826053	103826053	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggctgtacacacctgggcCccaactccccagggcctgct	6	7	10	18	0	0	0	0	0	0	0	1	0	1	0	6	3	3	3	6	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:103826053C>A	uc001kuj.2	+	1	907	c.822C>A	c.(820-822)GCC>GCA	p.A274A		NM_024747	NP_079023	Q86YV9	HPS6_HUMAN	Hermansky-Pudlak syndrome-6	274						cytosol|early endosome membrane|endoplasmic reticulum|microsome					0		Colorectal(252;0.122)		Epithelial(162;5.93e-08)|all cancers(201;1.03e-06)		ACACCTGGGCCCCAACTCCCC	0.657									Hermansky-Pudlak_syndrome				25	89					1.33986e-20	1.4549e-20	0.004656	1	0		A	103826053	A	A	103826053	2	1	128	1	0	0	0	0	0	0	0	1	7359	610	22	5		5	HPS6	10	103826053	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2186157	103826053	31708694	609	70897											
TDRD1	56165	broad.mit.edu	37	chr10	115981158	115981158	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacgatagaattgccagTggataaaactatacaagcaa	19	7	9	6	1	0	2	0	0	0	2	0	5	0	3	1	1	4	1	1	1	9	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:115981158T>C	uc001lbg.1	+	20	2966	c.2813T>C	c.(2812-2814)GTG>GCG	p.V938A	TDRD1_uc001lbf.2_Missense_Mutation_p.V815A|TDRD1_uc001lbh.1_Missense_Mutation_p.V925A|TDRD1_uc001lbi.1_Missense_Mutation_p.V929A|TDRD1_uc010qsc.1_Missense_Mutation_p.V542A|TDRD1_uc001lbj.2_Missense_Mutation_p.V647A	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	938					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		GAATTGCCAGTGGATAAAACT	0.368													31	96					0	0	0.015359	0	0		C	115981158	C	C	115981158	3	2	128	1	0	0	0	0	1	0	0	0	15755	1696	59	3	2887	3	TDRD1	10	115981158	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	12155105	115981158	19553589	610	70898											
C10orf46	143384	broad.mit.edu	37	chr10	120460856	120460856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttttctgcaacatgttccGtaaacagctttataaggtca	11	14	7	9	1	2	0	1	0	1	0	3	0	3	0	1	1	4	5	1	1	5	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:120460856G>A	uc001lds.1	-	5	1242	c.758C>T	c.(757-759)ACG>ATG	p.T253M	C10orf46_uc010qst.1_RNA	NM_153810	NP_722517	Q86Y37	CJ046_HUMAN	chromosome 10 open reading frame 46	253					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding				0		Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0131)		AACATGTTCCGTAAACAGCTT	0.303													16	66					0	0	0.007413	0	0		A	120460856	A	A	120460856	3	1	128	1	0	0	0	0	1	0	0	0	1607	1145	40	1	371	1	C10orf46	10	120460856	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4479698	120460856	15073891	611	70899											
PRDX3	10935	broad.mit.edu	37	chr10	120928781	120928781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcggagggtttcttccaCgcttcggcccactgggagat	7	9	13	12	3	1	1	0	0	1	1	3	3	2	2	2	4	1	2	2	4	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:120928781C>T	uc001lec.2	-	6	668	c.625G>A	c.(625-627)GTG>ATG	p.V209M		NM_006793	NP_006784	P30048	PRDX3_HUMAN	peroxiredoxin 3 isoform a precursor	209	Thioredoxin.				cell redox homeostasis|hydrogen peroxide catabolic process|mitochondrion organization|myeloid cell differentiation|negative regulation of kinase activity|positive regulation of cell proliferation|positive regulation of NF-kappaB transcription factor activity|regulation of mitochondrial membrane potential|response to lipopolysaccharide	early endosome|mitochondrion	alkyl hydroperoxide reductase activity|caspase inhibitor activity|peroxidase activity|peroxiredoxin activity|protein C-terminus binding|protein kinase binding				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0245)		GTTTCTTCCACGCTTCGGCCC	0.502													27	63					0	0	0.00632	0	0		T	120928781	T	T	120928781	3	4	128	1	0	0	0	0	1	0	0	0	12488	536	19	1	153	1	PRDX3	10	120928781	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	467925	120928781	14605966	612	70900											
CPXM2	119587	broad.mit.edu	37	chr10	125601919	125601919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgaatctggtcaggcgcCgagcatccacttcaatccac	10	8	9	14	2	3	1	2	1	1	0	5	2	5	1	3	2	1	1	3	2	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:125601919C>T	uc001lhk.1	-	4	924	c.599G>A	c.(598-600)CGG>CAG	p.R200Q	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	200	F5/8 type C.				cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		GGTCAGGCGCCGAGCATCCAC	0.498													16	60					0	0	0.006122	0	0		T	125601919	T	T	125601919	3	4	128	1	0	0	0	0	1	0	0	0	3841	652	23	1	1715	1	CPXM2	10	125601919	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4673138	125601919	9932828	613	70901											
CHST15	51363	broad.mit.edu	37	chr10	125805706	125805706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtcgggtaacagctgtatgCagcaattaatgcagtgcctc	10	10	11	10	2	0	0	0	0	0	0	2	0	0	0	1	1	6	6	1	1	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:125805706C>T	uc001lhl.2	-	1	536	c.23G>A	c.(22-24)TGC>TAC	p.C8Y	CHST15_uc001lhm.2_Missense_Mutation_p.C8Y|CHST15_uc001lhn.2_Missense_Mutation_p.C8Y|CHST15_uc010que.1_Missense_Mutation_p.C8Y|CHST15_uc001lho.2_Missense_Mutation_p.C8Y	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	8	Cytoplasmic (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1						CAGCTGTATGCAGCAATTAAT	0.617													14	73					0	0	0.00499	0	0		T	125805706	T	T	125805706	3	4	128	1	0	0	0	0	1	0	0	0	3406	710	25	2	1690	2	CHST15	10	125805706	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	203787	125805706	9729041	614	70902											
LHPP	64077	broad.mit.edu	37	chr10	126172753	126172753	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggttctgcaccaacgagtcGcagaagtcccgggcagagct	10	6	13	12	3	1	2	0	0	1	2	3	3	2	2	2	2	3	5	2	2	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:126172753G>A	uc001lhs.1	+	2	191	c.171G>A	c.(169-171)TCG>TCA	p.S57S	LHPP_uc001lht.1_Silent_p.S57S|LHPP_uc009yai.1_Silent_p.S57S	NM_022126	NP_071409	Q9H008	LHPP_HUMAN	phospholysine phosphohistidine inorganic	57					protein dephosphorylation	cytosol|nucleus	inorganic diphosphatase activity|magnesium ion binding|phosphohistidine phosphatase activity|protein homodimerization activity				0		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.163)|Colorectal(40;0.187)		CCAACGAGTCGCAGAAGTCCC	0.642													24	41					0	0	0.009535	0	0		A	126172753	A	A	126172753	2	1	128	1	0	0	0	0	0	0	0	1	8785	1074	38	1		1	LHPP	10	126172753	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	367047	126172753	9361994	615	70903											
C10orf137	26098	broad.mit.edu	37	chr10	127436239	127436239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacagcaagattatgctccGttatctagaaaagctcagga	14	10	8	9	1	2	2	1	0	1	2	3	3	3	3	1	1	4	4	1	1	7	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:127436239G>A	uc001liq.1	+	20	3242	c.2949G>A	c.(2947-2949)CCG>CCA	p.P983P	C10orf137_uc001lin.2_Silent_p.P949P|C10orf137_uc001lio.1_Silent_p.P949P|C10orf137_uc001lip.1_Silent_p.P687P|C10orf137_uc001lis.1_Silent_p.P309P|C10orf137_uc001lit.1_5'Flank	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	983					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				ATTATGCTCCGTTATCTAGAA	0.388													38	67					0	0	0.00623	0	0		A	127436239	A	A	127436239	2	1	128	1	0	0	0	0	0	0	0	1	1597	1132	40	1		1	C10orf137	10	127436239	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1263486	127436239	8098508	616	70904											
FAM196A	642938	broad.mit.edu	37	chr10	128974523	128974523	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatatccttaaaccgcaccTgcagggctttgttccgtttt	8	14	8	11	2	0	1	0	0	0	1	2	1	2	1	4	1	2	5	4	1	3	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:128974523T>C	uc001lju.1	-	1	178	c.137A>G	c.(136-138)CAG>CGG	p.Q46R	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.Q46R|FAM196A_uc001ljv.1_Missense_Mutation_p.Q46R|FAM196A_uc009yap.1_Missense_Mutation_p.Q46R	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	46										ovary(2)	2						AAACCGCACCTGCAGGGCTTT	0.607													87	280					0	0	0.01441	0	0		C	128974523	C	C	128974523	3	2	128	1	0	0	0	0	1	0	0	0	5539	1580	55	3	1314	3	FAM196A	10	128974523	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1538284	128974523	6560224	617	70905											
CLRN3	119467	broad.mit.edu	37	chr10	129676427	129676427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaattcagaataaaattcCgtcccttggagcatattcca	14	11	7	9	1	1	2	1	0	0	2	4	4	4	3	3	1	1	1	3	1	5	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:129676427C>T	uc001lka.1	-	3	830	c.667G>A	c.(667-669)GGA>AGA	p.G223R	CLRN3_uc001ljz.1_Missense_Mutation_p.G155R	NM_152311	NP_689524	Q8NCR9	CLRN3_HUMAN	clarin 3	223						integral to membrane				skin(1)	1		all_epithelial(44;0.00168)|all_lung(145;0.0586)|Lung NSC(174;0.0765)|all_neural(114;0.201)|Glioma(114;0.222)|Colorectal(57;0.235)				AATAAAATTCCGTCCCTTGGA	0.418													48	127					0	0	0.01441	0	0		T	129676427	T	T	129676427	3	4	128	1	0	0	0	0	1	0	0	0	3562	661	23	1	17	1	CLRN3	10	129676427	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	701904	129676427	5858320	618	70906											
MKI67	4288	broad.mit.edu	37	chr10	129904057	129904057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgacgtctgtgtgagcttgCcgactggtaggacctcttct	5	13	12	11	2	3	2	0	2	3	0	3	4	3	3	2	2	2	2	2	2	1	3	rs150525316		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:129904057C>T	uc001lke.2	-	13	6242	c.6047G>A	c.(6046-6048)GGC>GAC	p.G2016D	MKI67_uc001lkf.2_Missense_Mutation_p.G1656D|MKI67_uc009yav.1_Missense_Mutation_p.G1591D|MKI67_uc009yaw.1_Missense_Mutation_p.G1166D	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2016	16 X 122 AA approximate repeats.|9.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TGTGAGCTTGCCGACTGGTAG	0.498													12	666					0	0	0.016723	0	0		T	129904057	T	T	129904057	3	4	128	1	0	0	0	0	1	0	0	0	9616	739	26	2	3735	2	MKI67	10	129904057	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	227630	129904057	5630690	619	70907											
KNDC1	85442	broad.mit.edu	37	chr10	134996942	134996942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagccaagacctcgaggCgctgctgagccggatgcagg	8	5	16	12	3	0	3	0	2	0	1	1	5	0	4	3	3	4	4	3	3	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:134996942C>T	uc001llz.1	+	4	456	c.455C>T	c.(454-456)GCG>GTG	p.A152V	KNDC1_uc001lma.1_Missense_Mutation_p.A87V	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	152	KIND 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		GACCTCGAGGCGCTGCTGAGC	0.697													4	11					0	0	0.009096	0	0		T	134996942	T	T	134996942	3	4	128	1	0	0	0	0	1	0	0	0	8442	768	27	1	469	1	KNDC1	10	134996942	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5092885	134996942	537805	620	70908											
KNDC1	85442	broad.mit.edu	37	chr10	135026413	135026413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctcttcagccagctcaCgctgctacagcaggtgagga	9	7	11	14	1	3	1	2	1	1	0	3	2	3	2	2	2	6	5	2	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr10:135026413C>T	uc001llz.1	+	24	4431	c.4430C>T	c.(4429-4431)ACG>ATG	p.T1477M		NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1477	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		AGCCAGCTCACGCTGCTACAG	0.647													10	41					0	0	0.008291	0	0		T	135026413	T	T	135026413	3	4	128	1	0	0	0	0	1	0	0	0	8442	536	19	1	4524	1	KNDC1	10	135026413	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	29471	135026413	508334	621	70909											
RIC8A	60626	broad.mit.edu	37	chr11	214277	214277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtccccggggtcatcttaCgtccctgcaggatgccatgt	6	10	12	13	2	2	0	1	0	1	0	4	2	4	1	4	3	3	1	4	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:214277C>T	uc001log.2	+	10	1848	c.1523C>T	c.(1522-1524)ACG>ATG	p.T508M	RIC8A_uc001lof.2_Missense_Mutation_p.T514M|RIC8A_uc001loh.2_Missense_Mutation_p.T501M	NM_021932	NP_068751	Q9NPQ8	RIC8A_HUMAN	resistance to inhibitors of cholinesterase 8	508						cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity				0		all_cancers(49;9.23e-07)|all_epithelial(84;0.000315)|Breast(177;0.00122)|Ovarian(85;0.0202)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.45e-27)|Epithelial(43;2.94e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.86e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		GGTCATCTTACGTCCCTGCAG	0.537													6	19					0	0	0.001984	0	0		T	214277	T	T	214277	3	4	128	1	0	0	0	0	1	0	0	0	13380	536	19	1	1579	1	RIC8A	11	214277	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08		214277	134792239	622	70910											
CEND1	51286	broad.mit.edu	37	chr11	788202	788202	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccacacccccagccaccagCagggggttgaagttctcaca	10	5	10	16	0	1	1	1	1	1	0	2	1	1	1	5	2	2	3	5	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:788202C>T	uc001lrh.1	-	2	554	c.375G>A	c.(373-375)CTG>CTA	p.L125L		NM_016564	NP_057648	Q8N111	CEND_HUMAN	cell cycle exit and neuronal differentiation 1	125	Cytoplasmic (Potential).					integral to membrane					0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;6.27e-26)|Epithelial(43;4.84e-25)|OV - Ovarian serous cystadenocarcinoma(40;2.72e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CAGCCACCAGCAGGGGGTTGA	0.677													4	14					0	0	0.001984	0	0		T	788202	T	T	788202	2	4	128	1	0	0	0	0	0	0	0	1	3228	697	25	2		2	CEND1	11	788202	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	573925	788202	134218314	623	70911											
MUC6	4588	broad.mit.edu	37	chr11	1016104	1016104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggatggggtgggagacaCggtaacagtggatatgggga	10	7	20	4	1	0	1	0	0	0	1	0	5	0	4	0	8	1	2	0	8	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:1016104C>T	uc001lsw.2	-	31	6748	c.6697G>A	c.(6697-6699)GTG>ATG	p.V2233M		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2233	Ser-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GTGGGAGACACGGTAACAGTG	0.597													25	87					0	0	0.021523	0	0		T	1016104	T	T	1016104	3	4	128	1	0	0	0	0	1	0	0	0	9998	536	19	1	634	1	MUC6	11	1016104	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	227902	1016104	133990412	624	70912											
MUC6	4588	broad.mit.edu	37	chr11	1025025	1025025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccacgtacctgctgcgcGtctcgaagtcgtccttcatg	6	11	10	14	5	2	0	1	0	1	0	5	1	3	0	3	0	4	2	3	0	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:1025025G>A	uc001lsw.2	-	24	3095	c.3044C>T	c.(3043-3045)ACG>ATG	p.T1015M		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1015	VWFD 3.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCTGCTGCGCGTCTCGAAGTC	0.637													13	38					0	0	0.016723	0	0		A	1025025	A	A	1025025	3	1	128	1	0	0	0	0	1	0	0	0	9998	1145	40	1	4315	1	MUC6	11	1025025	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	8921	1025025	133981491	625	70913											
MUC2	4583	broad.mit.edu	37	chr11	1090915	1090915	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctgaccaccttcaccacCatcaccctccccaccacccc	9	5	1	26	0	2	1	2	1	0	0	3	1	3	1	11	0	0	0	11	0	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:1090915C>A	uc001lsx.1	+	28	3837	c.3810C>A	c.(3808-3810)ACC>ACA	p.T1270T		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	1270						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	ccttcaccaccatcaccctcc	0.398													7	23					5.68852e-11	6.00983e-11	0.004482	1	0		A	1090915	A	A	1090915	2	1	128	1	0	0	0	0	0	0	0	1	9993	581	21	5		5	MUC2	11	1090915	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	65890	1090915	133915601	626	70914											
TNNI2	7136	broad.mit.edu	37	chr11	1862321	1862321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttcaagcggcccccactgCggagggtgcgcatgtcggcc	6	6	15	14	4	1	0	1	0	0	0	2	1	1	1	3	4	3	2	3	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:1862321C>T	uc010qxe.1	+	5	359	c.337C>T	c.(337-339)CGG>TGG	p.R113W	TNNI2_uc010qxc.1_Missense_Mutation_p.R111W|TNNI2_uc010qxd.1_Missense_Mutation_p.R111W	NM_001145841	NP_001139313	P48788	TNNI2_HUMAN	fast-twitch skeletal muscle troponin I isoform	113	Involved in binding TNC and actin.				muscle filament sliding|positive regulation of transcription, DNA-dependent|skeletal muscle contraction	cytosol|nucleus|troponin complex	actin binding|troponin T binding				0		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GCCCCCACTGCGGAGGGTGCG	0.637													10	36					0	0	0.008291	0	0		T	1862321	T	T	1862321	3	4	128	1	0	0	0	0	1	0	0	0	16352	759	27	1	374	1	TNNI2	11	1862321	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	771406	1862321	133144195	627	70915											
CD81	975	broad.mit.edu	37	chr11	2415337	2415337	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcaaggcatctacatccTcatcgctgtgggcgctgtca	7	9	10	15	3	3	0	2	0	1	0	5	0	4	0	2	2	1	4	2	2	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:2415337T>G	uc001lwf.1	+	3	427	c.194T>G	c.(193-195)CTC>CGC	p.L65R	CD81_uc001lwg.1_Missense_Mutation_p.L58R|CD81_uc001lwh.1_5'Flank	NM_004356	NP_004347	P60033	CD81_HUMAN	CD81 antigen	65	Helical; (Potential).				activation of MAPK activity|cell proliferation|phosphatidylinositol biosynthetic process|positive regulation of 1-phosphatidylinositol 4-kinase activity|positive regulation of cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|protein localization|regulation of immune response|virion attachment, binding of host cell surface receptor	integral to plasma membrane	protein binding				0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.000338)|LUSC - Lung squamous cell carcinoma(625;0.191)		ATCTACATCCTCATCGCTGTG	0.647													22	75					0	0	0.021523	0	0		G	2415337	G	G	2415337	3	3	128	1	0	0	0	0	1	0	0	0	3042	1551	54	5	204	5	CD81	11	2415337	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	553016	2415337	132591179	628	70916											
KCNQ1	3784	broad.mit.edu	37	chr11	2798261	2798261	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgttcatctccgtctcAggtgggtttctgtgtcagtt	4	17	10	10	1	6	0	4	0	3	0	8	0	6	0	1	2	0	3	1	2	0	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:2798261A>C	uc001lwn.2	+	14	1839	c.1731A>C	c.(1729-1731)TCA>TCC	p.S577S	KCNQ1_uc009ydp.1_Silent_p.S361S|KCNQ1_uc001lwo.2_Silent_p.S450S	NM_000218	NP_000209	P51787	KCNQ1_HUMAN	potassium voltage-gated channel, KQT-like	577	Cytoplasmic (Potential).				blood circulation|membrane depolarization|muscle contraction|sensory perception of sound		delayed rectifier potassium channel activity|protein binding			ovary(1)	1		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)	TCTCCGTCTCAGGTGGGTTTC	0.592													13	33					0	0	0.013537	0	0		C	2798261	C	C	2798261	2	2	128	1	0	0	0	0	0	0	0	1	8098	202	7	5		5	KCNQ1	11	2798261	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	382924	2798261	132208255	629	70917											
MRGPRE	116534	broad.mit.edu	37	chr11	3249839	3249839	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagatccgcgcaggccacgTccaggaggtagatggcgaag	10	5	16	10	4	0	2	0	1	0	2	2	5	2	3	3	4	0	2	3	4	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:3249839T>C	uc001lxq.3	-	2	498	c.188A>G	c.(187-189)GAC>GGC	p.D63G		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	63	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		Medulloblastoma(188;0.00106)|all_epithelial(84;0.00111)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00529)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCAGGCCACGTCCAGGAGGTA	0.647													35	123					0	0	0.021022	0	0		C	3249839	C	C	3249839	3	2	128	1	0	0	0	0	1	0	0	0	9782	1667	58	3	751	3	MRGPRE	11	3249839	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	451578	3249839	131756677	630	70918											
OR51I1	390063	broad.mit.edu	37	chr11	5461995	5461995	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgggcacataaaaggccagCactgcacagatgtgtgacat	14	7	11	9	0	0	2	0	1	0	1	0	2	0	2	1	2	2	3	1	2	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:5461995C>T	uc010qze.1	-	1	750	c.750G>A	c.(748-750)GTG>GTA	p.V250V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005288	NP_001005288	Q9H343	O51I1_HUMAN	olfactory receptor, family 51, subfamily I,	250	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAAAGGCCAGCACTGCACAGA	0.493													21	64					0	0	0.014323	0	0		T	5461995	T	T	5461995	2	4	128	1	0	0	0	0	0	0	0	1	11119	697	25	2		2	OR51I1	11	5461995	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2212156	5461995	129544521	631	70919											
OR52E8	390079	broad.mit.edu	37	chr11	5878912	5878912	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaactgggtgtgattagaCgtagacattcttcctgccat	9	13	11	8	1	1	3	0	1	1	2	2	4	2	4	2	2	2	1	2	2	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:5878912C>T	uc010qzr.1	-	1	21	c.21G>A	c.(19-21)ACG>ACA	p.T7T	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	7	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGTGATTAGACGTAGACATTC	0.418													24	89					0	0	0.005443	0	0		T	5878912	T	T	5878912	2	4	128	1	0	0	0	0	0	0	0	1	11137	523	19	1		1	OR52E8	11	5878912	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	416917	5878912	129127604	632	70920											
TRIM3	10612	broad.mit.edu	37	chr11	6477697	6477697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtggcaggtcccccggaCgcagggcacgcacgcggaag	9	2	17	13	5	0	0	0	0	0	0	1	2	1	2	2	6	0	4	2	6	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:6477697C>T	uc001mdh.2	-	7	1646	c.1259G>A	c.(1258-1260)CGT>CAT	p.R420H	TRIM3_uc001mdi.2_Missense_Mutation_p.R420H|TRIM3_uc010raj.1_Missense_Mutation_p.R301H|TRIM3_uc009yfd.2_Missense_Mutation_p.R420H|TRIM3_uc010rak.1_Missense_Mutation_p.R420H|TRIM3_uc001mdj.2_Missense_Mutation_p.R301H	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	420					nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding			central_nervous_system(2)|large_intestine(1)|ovary(1)|skin(1)	5		all_lung(207;9.97e-06)|Lung NSC(207;1.74e-05)|Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;9.34e-10)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.133)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTCCCCCGGACGCAGGGCACG	0.701													10	23					0	0	0.004007	0	0		T	6477697	T	T	6477697	3	4	128	1	0	0	0	0	1	0	0	0	16530	536	19	1	1003	1	TRIM3	11	6477697	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	598785	6477697	128528819	633	70921											
NLRP14	338323	broad.mit.edu	37	chr11	7065142	7065142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaagcactgccggtgtttgCggaccatcaggctgtctgta	7	12	12	10	2	2	0	1	0	1	0	2	1	2	1	2	3	3	4	2	3	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:7065142C>T	uc001mfb.1	+	4	2208	c.1885C>T	c.(1885-1887)CGG>TGG	p.R629W		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	629					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		CCGGTGTTTGCGGACCATCAG	0.423													5	197					0	0	0.014758	0	0		T	7065142	T	T	7065142	3	4	128	1	0	0	0	0	1	0	0	0	10495	759	27	1	1895	1	NLRP14	11	7065142	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	587445	7065142	127941374	634	70922											
LMO1	4004	broad.mit.edu	37	chr11	8248584	8248584	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acgttgtcccgggcccgcatCaccatctcgaaggctgggat	7	8	12	14	4	2	0	1	0	1	0	4	2	3	1	3	3	0	3	3	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:8248584C>T	uc001mgg.1	-	3	800	c.303G>A	c.(301-303)GTG>GTA	p.V101V	LMO1_uc009yfo.1_RNA|LMO1_uc001mgh.1_Silent_p.V100V	NM_002315	NP_002306	P25800	RBTN1_HUMAN	LIM domain only 1	101	LIM zinc-binding 2.				cell proliferation|multicellular organismal development|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;1.59e-07)|BRCA - Breast invasive adenocarcinoma(625;0.203)		GGGCCCGCATCACCATCTCGA	0.617			T|A	TRD@	T-ALL|neuroblastoma	neuroblastoma							22	43					0	0	0.010504	0	0		T	8248584	T	T	8248584	2	4	128	1	0	0	0	0	0	0	0	1	8868	813	29	4		4	LMO1	11	8248584	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1183442	8248584	126757932	635	70923											
SWAP70	23075	broad.mit.edu	37	chr11	9746422	9746422	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgaacttatattagatgTgttaaagcaggtaagaattc	16	14	8	3	0	0	3	0	1	0	2	1	3	0	3	0	1	2	3	0	1	9	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:9746422T>C	uc001mhw.2	+	4	731	c.632T>C	c.(631-633)GTG>GCG	p.V211A	SWAP70_uc001mhv.2_Missense_Mutation_p.V211A|SWAP70_uc001mhx.2_Missense_Mutation_p.V153A	NM_015055	NP_055870	Q9UH65	SWP70_HUMAN	SWAP-70 protein	211	PH.					cytoplasm|lamellipodium|nucleus|plasma membrane	calcium ion binding|DNA binding			ovary(2)|central_nervous_system(1)	3				all cancers(16;1.21e-10)|Epithelial(150;2.81e-09)|BRCA - Breast invasive adenocarcinoma(625;0.00649)		ATATTAGATGTGTTAAAGCAG	0.308													40	103					0	0	0.006999	0	0		C	9746422	C	C	9746422	3	2	128	1	0	0	0	0	1	0	0	0	15450	1696	59	3	646	3	SWAP70	11	9746422	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1497838	9746422	125260094	636	70924											
CALCA	796	broad.mit.edu	37	chr11	14991505	14991505	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctctctctcttgctccTgctccagctcactggccttc	3	13	6	19	0	3	0	1	0	2	0	8	0	5	0	4	1	4	3	4	1	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:14991505T>A	uc001mlt.1	-	3	278	c.203A>T	c.(202-204)CAG>CTG	p.Q68L	CALCA_uc001mlu.1_RNA|CALCA_uc001mlv.1_Missense_Mutation_p.Q68L|CALCA_uc001mlw.1_Missense_Mutation_p.Q68L	NM_001033953	NP_001029125	P06881	CALCA_HUMAN	calcitonin isoform CGRP preproprotein	68					activation of adenylate cyclase activity|cell-cell signaling|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|endothelial cell migration|endothelial cell proliferation|leukocyte cell-cell adhesion|negative regulation of blood pressure|negative regulation of bone resorption|negative regulation of calcium ion transport into cytosol|negative regulation of osteoclast differentiation|neurological system process involved in regulation of systemic arterial blood pressure|positive regulation of interleukin-1 alpha production|positive regulation of interleukin-8 production|positive regulation of macrophage differentiation|positive regulation of vasodilation|regulation of blood pressure|vasculature development|vasodilation	cytosol|extracellular space	hormone activity			central_nervous_system(1)	1					Phentolamine(DB00692)	CTCTTGCTCCTGCTCCAGCTC	0.637											OREG0020791	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	43	129					0	0	0.009718	0	0		A	14991505	A	A	14991505	3	1	128	1	0	0	0	0	1	0	0	0	2578	1580	55	5	394	5	CALCA	11	14991505	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	5245083	14991505	120015011	637	70925											
SOX6	55553	broad.mit.edu	37	chr11	16071413	16071413	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggttctgggtgggagaCgttggggactttacaggctc	8	10	17	6	1	1	2	0	0	1	2	2	4	1	3	0	6	1	3	0	6	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:16071413C>T	uc001mme.2	-	11	1395	c.1362G>A	c.(1360-1362)ACG>ACA	p.T454T	SOX6_uc001mmd.2_Silent_p.T403T|SOX6_uc001mmf.2_Silent_p.T400T|SOX6_uc001mmg.2_Silent_p.T441T	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	441					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						GGGTGGGAGACGTTGGGGACT	0.507													102	390					0	0	0.01441	0	0		T	16071413	T	T	16071413	2	4	128	1	0	0	0	0	0	0	0	1	14980	523	19	1		1	SOX6	11	16071413	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1079908	16071413	118935103	638	70926											
MYOD1	4654	broad.mit.edu	37	chr11	17741309	17741309	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgggcgaagccaggaccGtgccgcgccaccgccaggat	7	4	16	14	5	0	0	0	0	0	0	0	3	0	2	6	4	2	1	6	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:17741309G>A	uc001mni.2	+	1	200	c.-20G>A	c.(-22--18)CCGTG>CCATG			NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1						muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						AGCCAGGACCGTGCCGCGCCA	0.652													21	65					0	0	0.008871	0	0		A	17741309	A	A	17741309	1	1	128	1	0	0	0	0	0	0	0	0	10106	1160	40	1		1	MYOD1	11	17741309	Translation_Start_Site	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1669896	17741309	117265207	639	70927											
KCNC1	3746	broad.mit.edu	37	chr11	17793913	17793913	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgtgtgcgctggcgggCgtgctcaccatcgccatgcc	3	9	14	15	4	2	0	1	0	1	0	3	0	2	0	3	2	3	3	3	2	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:17793913C>T	uc001mnk.3	+	2	1327	c.1272C>T	c.(1270-1272)GGC>GGT	p.G424G	KCNC1_uc009yhc.1_Silent_p.G424G	NM_004976	NP_004967	P48547	KCNC1_HUMAN	Shaw-related voltage-gated potassium channel	424	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)	1						CGCTGGCGGGCGTGCTCACCA	0.572													28	82					0	0	0.005443	0	0		T	17793913	T	T	17793913	2	4	128	1	0	0	0	0	0	0	0	1	8030	755	27	1		1	KCNC1	11	17793913	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	52604	17793913	117212603	640	70928											
LDHC	3948	broad.mit.edu	37	chr11	18436832	18436832	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttctttagtacttcaaaGattacttctggaaaaggtta	12	17	6	6	0	3	1	1	0	2	1	3	2	3	2	0	2	2	2	0	2	7	9			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:18436832G>T	uc001mon.3	+	3	340	c.228G>T	c.(226-228)AAG>AAT	p.K76N	LDHC_uc001mom.3_Missense_Mutation_p.K76N|LDHC_uc009yhp.2_Missense_Mutation_p.K76N|LDHC_uc001moo.3_Intron|LDHC_uc009yhq.2_Intron|LDHC_uc009yhr.2_Intron	NM_017448	NP_059144	P07864	LDHC_HUMAN	L-lactate dehydrogenase C	76					glycolysis	cytoplasm	binding|L-lactate dehydrogenase activity				0					NADH(DB00157)	GTACTTCAAAGATTACTTCTG	0.294													20	81					1.96292e-10	2.06886e-10	0.010504	1	0		T	18436832	T	T	18436832	3	4	128	1	0	0	0	0	1	0	0	0	8718	933	33	5	234	5	LDHC	11	18436832	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	642919	18436832	116569684	641	70929											
LIN7C	55327	broad.mit.edu	37	chr11	27520241	27520241	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctcattttttcaaagcgCgactccatttcttctaagac	10	15	5	11	2	4	1	2	0	3	1	6	3	5	1	1	0	1	0	1	0	2	6	rs146421701		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:27520241C>T	uc001mrl.2	-	5	576	c.549G>A	c.(547-549)TCG>TCA	p.S183S	LIN7C_uc009yii.2_Silent_p.S159S	NM_018362	NP_060832	Q9NUP9	LIN7C_HUMAN	lin-7 homolog C	183					exocytosis|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction					0						TTTCAAAGCGCGACTCCATTT	0.383													54	214					0	0	0.01441	0	0		T	27520241	T	T	27520241	2	4	128	1	0	0	0	0	0	0	0	1	8829	755	27	1		1	LIN7C	11	27520241	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	9083409	27520241	107486275	642	70930											
ELP4	26610	broad.mit.edu	37	chr11	31625347	31625347	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcttcaagatttggtcaCtattatgatgcatcaaaaag	14	14	6	7	0	5	2	4	1	1	1	5	2	5	2	0	1	1	1	0	1	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:31625347C>T	uc001mtb.2	+	5	581	c.546C>T	c.(544-546)CAC>CAT	p.H182H	ELP4_uc001mta.1_RNA|ELP4_uc001mtc.2_Silent_p.H182H|ELP4_uc010rdz.1_Silent_p.H183H	NM_019040	NP_061913	Q96EB1	ELP4_HUMAN	elongation protein 4 homolog	182					histone acetylation|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|Elongator holoenzyme complex|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|prostate(1)	3	Lung SC(675;0.225)					GATTTGGTCACTATTATGATG	0.318													28	102					0	0	0.008361	0	0		T	31625347	T	T	31625347	2	4	128	1	0	0	0	0	0	0	0	1	5090	564	20	4		4	ELP4	11	31625347	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4105106	31625347	103381169	643	70931											
CHRM4	1132	broad.mit.edu	37	chr11	46407572	46407572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcactggttgtcgggcaccGtccgcttacccaccacaaac	9	7	9	16	3	0	0	0	0	0	0	2	0	1	0	4	2	3	4	4	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:46407572G>A	uc001nct.1	-	1	536	c.536C>T	c.(535-537)ACG>ATG	p.T179M		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	179	Extracellular (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	GTCGGGCACCGTCCGCTTACC	0.577													9	14					0	0	0.013537	0	0		A	46407572	A	A	46407572	3	1	128	1	0	0	0	0	1	0	0	0	3382	1145	40	1	907	1	CHRM4	11	46407572	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	14782225	46407572	88598944	644	70932											
MTCH2	23788	broad.mit.edu	37	chr11	47640459	47640459	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaataagctatttcctcGgctcatattcccctggaaaa	14	11	6	10	1	1	0	1	0	0	0	4	2	3	1	3	2	1	2	3	2	7	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:47640459G>A	uc010rho.1	-	13	1027	c.838C>T	c.(838-840)CGA>TGA	p.R280*	MTCH2_uc001nge.2_Nonsense_Mutation_p.R153*|MTCH2_uc010rhp.1_Nonsense_Mutation_p.R132*	NM_014342	NP_055157	Q9Y6C9	MTCH2_HUMAN	mitochondrial carrier 2	280					transport	integral to membrane|mitochondrial inner membrane					0						CTATTTCCTCGGCTCATATTC	0.393													38	126					0	0	0.007835	0	0		A	47640459	A	A	47640459	4	1	128	1	0	0	0	0	0	1	0	0	9932	1124	39	1	77	1	MTCH2	11	47640459	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1232887	47640459	87366057	645	70933											
AGBL2	79841	broad.mit.edu	37	chr11	47732033	47732033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttccgaacatgctgatgcGtagcagagtttggtaaactg	10	12	11	8	2	1	2	0	1	1	1	2	3	2	2	1	1	5	5	1	1	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:47732033G>A	uc001ngg.2	-	3	228	c.128C>T	c.(127-129)ACG>ATG	p.T43M	AGBL2_uc010rhq.1_Missense_Mutation_p.T43M|AGBL2_uc001ngh.1_Missense_Mutation_p.T43M	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	43					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						ATGCTGATGCGTAGCAGAGTT	0.433													32	156					0	0	0.009535	0	0		A	47732033	A	A	47732033	3	1	128	1	0	0	0	0	1	0	0	0	376	1145	40	1	2644	1	AGBL2	11	47732033	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	91574	47732033	87274483	646	70934											
OR4B1	119765	broad.mit.edu	37	chr11	48238570	48238570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtccttggtggagatcaGttattcctccactatcgccc	6	13	8	14	1	1	1	1	0	0	1	5	2	4	1	5	2	0	1	5	2	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:48238570G>A	uc010rhs.1	+	1	209	c.209G>A	c.(208-210)AGT>AAT	p.S70N		NM_001005470	NP_001005470	Q8NGF8	OR4B1_HUMAN	olfactory receptor, family 4, subfamily B,	70	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|pancreas(1)	4						GTGGAGATCAGTTATTCCTCC	0.468													8	261					0	0	0.004482	0	0		A	48238570	A	A	48238570	3	1	128	1	0	0	0	0	1	0	0	0	11063	1029	36	4	211	4	OR4B1	11	48238570	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	506537	48238570	86767946	647	70935											
OR4X1	390113	broad.mit.edu	37	chr11	48286188	48286188	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccttggtctatattaggcCctgtgtcaccctccctgcag	5	13	8	15	0	2	0	1	0	1	0	4	0	4	0	4	2	1	1	4	2	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:48286188C>A	uc010rht.1	+	1	776	c.776C>A	c.(775-777)CCC>CAC	p.P259H		NM_001004726	NP_001004726	Q8NH49	OR4X1_HUMAN	olfactory receptor, family 4, subfamily X,	259	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3						TATATTAGGCCCTGTGTCACC	0.493													53	238					1.3268e-25	1.4574e-25	0.01441	1	0		A	48286188	A	A	48286188	3	1	128	1	0	0	0	0	1	0	0	0	11103	623	22	5	778	5	OR4X1	11	48286188	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	47618	48286188	86720328	648	70936											
OR5R1	219479	broad.mit.edu	37	chr11	56184864	56184864	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagggggtttaacatggggAtcaccactgtgtaaaataca	13	11	11	6	0	1	0	1	0	0	0	1	1	1	1	1	4	2	2	1	4	5	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:56184864A>G	uc010rji.1	-	1	845	c.845T>C	c.(844-846)ATC>ACC	p.I282T		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	282	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TAACATGGGGATCACCACTGT	0.383													61	157					0	0	0.01441	0	0		G	56184864	G	G	56184864	3	3	128	1	0	0	0	0	1	0	0	0	11199	333	12	3	131	3	OR5R1	11	56184864	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	7898676	56184864	78821652	649	70937											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57088081	57088081	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagccaggggaccccggggaGgccgaggcccaacaggcacc	9	0	16	16	2	0	0	0	0	0	0	0	3	0	2	6	7	2	1	6	7	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:57088081G>T	uc001njr.2	-	2	512	c.200C>A	c.(199-201)CCT>CAT	p.P67H	TNKS1BP1_uc001njs.2_Missense_Mutation_p.P67H|TNKS1BP1_uc009ymd.1_5'UTR	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	67	Arg/Glu/Lys/Pro-rich (charged).				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				ACCCCGGGGAGGCCGAGGCCC	0.672													18	40					6.94344e-10	7.30079e-10	0.006122	1	0		T	57088081	T	T	57088081	3	4	128	1	0	0	0	0	1	0	0	0	16345	1000	35	5	5025	5	TNKS1BP1	11	57088081	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	903217	57088081	77918435	650	70938											
SLC43A1	8501	broad.mit.edu	37	chr11	57263584	57263584	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaaagataaggcaggccagGccagaccaggtgaacatgat	16	4	13	8	0	0	5	0	2	0	3	0	5	0	5	3	4	1	1	3	4	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:57263584G>A	uc001nkk.2	-	7	730	c.612C>T	c.(610-612)GGC>GGT	p.G204G	SLC43A1_uc001nkl.2_Silent_p.G204G	NM_003627	NP_003618	O75387	LAT3_HUMAN	solute carrier family 43, member 1	204	Helical; (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	neutral amino acid transmembrane transporter activity				0						GGCAGGCCAGGCCAGACCAGG	0.607													22	56					0	0	0.014323	0	0		A	57263584	A	A	57263584	2	1	128	1	0	0	0	0	0	0	0	1	14657	1190	42	2		2	SLC43A1	11	57263584	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	175503	57263584	77742932	651	70939											
ZDHHC5	25921	broad.mit.edu	37	chr11	57460087	57460087	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttttctccctctaggttaCgggtaaattccggggaggtg	6	15	12	8	2	2	0	0	0	2	0	4	1	3	1	2	5	1	2	2	5	4	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:57460087C>T	uc001nkx.1	+	7	1921	c.665C>T	c.(664-666)ACG>ATG	p.T222M	ZDHHC5_uc001nky.1_Missense_Mutation_p.T169M|ZDHHC5_uc001nkz.1_Missense_Mutation_p.T36M	NM_015457	NP_056272	Q9C0B5	ZDHC5_HUMAN	zinc finger, DHHC domain containing 5	222						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)	1						CTCTAGGTTACGGGTAAATTC	0.458													19	55					0	0	0.010504	0	0		T	57460087	T	T	57460087	3	4	128	1	0	0	0	0	1	0	0	0	17643	536	19	1	687	1	ZDHHC5	11	57460087	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	196503	57460087	77546429	652	70940											
OR10Q1	219960	broad.mit.edu	37	chr11	57995632	57995632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggagaaggcccggcggCggccctcggcagaacggatg	8	3	19	11	5	0	2	0	0	0	2	1	4	0	3	2	8	1	1	2	8	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:57995632C>T	uc010rkd.1	-	1	716	c.716G>A	c.(715-717)CGC>CAC	p.R239H		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	239	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				GGCCCGGCGGCGGCCCTCGGC	0.632													20	61					0	0	0.012319	0	0		T	57995632	T	T	57995632	3	4	128	1	0	0	0	0	1	0	0	0	10935	768	27	1	247	1	OR10Q1	11	57995632	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	535545	57995632	77010884	653	70941											
OR10Q1	219960	broad.mit.edu	37	chr11	57996170	57996170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaaatacatcggggtgcGgagggtgctgtgtgtgcaca	10	8	17	6	2	0	1	0	0	0	1	1	3	0	2	0	4	4	2	0	4	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:57996170G>A	uc010rkd.1	-	1	178	c.178C>T	c.(178-180)CGC>TGC	p.R60C		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	60	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				ATCGGGGTGCGGAGGGTGCTG	0.522													38	108					0	0	0.021022	0	0		A	57996170	A	A	57996170	3	1	128	1	0	0	0	0	1	0	0	0	10935	1116	39	1	785	1	OR10Q1	11	57996170	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	538	57996170	77010346	654	70942											
ASRGL1	80150	broad.mit.edu	37	chr11	62156702	62156702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaataaaatggtcggccgcGttggggactcaccgtgtcta	9	11	12	9	4	2	0	1	0	1	0	3	1	2	1	2	4	0	1	2	4	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:62156702G>A	uc001nte.3	+	5	873	c.589G>A	c.(589-591)GTT>ATT	p.V197I	ASRGL1_uc001ntf.3_Missense_Mutation_p.V197I|ASRGL1_uc001ntg.3_Missense_Mutation_p.V69I	NM_025080	NP_079356	Q7L266	ASGL1_HUMAN	asparaginase-like 1	197					asparagine catabolic process via L-aspartate|protein maturation	cytoplasm|microtubule cytoskeleton|nucleus	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0					L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)	GGTCGGCCGCGTTGGGGACTC	0.577													30	115					0	0	0.013726	0	0		A	62156702	A	A	62156702	3	1	128	1	0	0	0	0	1	0	0	0	1061	1145	40	1	603	1	ASRGL1	11	62156702	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4160532	62156702	72849814	655	70943											
AHNAK	79026	broad.mit.edu	37	chr11	62284598	62284598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataaggagaatttgcctttcGgtgaagaggcttcggcctct	9	12	12	8	2	1	3	0	1	1	2	3	4	1	3	2	4	1	1	2	4	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:62284598G>A	uc001ntl.2	-	5	17591	c.17291C>T	c.(17290-17292)CCG>CTG	p.P5764L	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	5764					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TTTGCCTTTCGGTGAAGAGGC	0.507													42	103					0	0	0.01441	0	0		A	62284598	A	A	62284598	3	1	128	1	0	0	0	0	1	0	0	0	414	1116	39	1	501	1	AHNAK	11	62284598	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	127896	62284598	72721918	656	70944											
ATL3	25923	broad.mit.edu	37	chr11	63414021	63414021	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatccattgccagacgaccGtattctgtgaagagctttaa	11	12	8	10	2	2	3	1	1	1	2	3	4	3	3	3	0	2	2	3	0	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:63414021G>A	uc001nxk.1	-	6	852	c.576C>T	c.(574-576)TAC>TAT	p.Y192Y	ATL3_uc010rms.1_Silent_p.Y174Y	NM_015459	NP_056274	Q6DD88	ATLA3_HUMAN	atlastin 3	192	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			pancreas(1)	1						CCAGACGACCGTATTCTGTGA	0.269													15	77					0	0	0.003163	0	0		A	63414021	A	A	63414021	2	1	128	1	0	0	0	0	0	0	0	1	1109	1140	40	1		1	ATL3	11	63414021	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1129423	63414021	71592495	657	70945											
C11orf84	144097	broad.mit.edu	37	chr11	63585406	63585406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagcagcccaggaggcaGcgggcgggcactgtgcatgg	7	3	20	11	2	0	0	0	0	0	0	0	1	0	1	1	6	4	5	1	6	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:63585406G>A	uc001nxt.2	+	2	493	c.257G>A	c.(256-258)AGC>AAC	p.S86N		NM_138471	NP_612480	Q9BUA3	CK084_HUMAN	hypothetical protein LOC144097	86											0						CCAGGAGGCAGCGGGCGGGCA	0.662													18	39					0	0	0.010504	0	0		A	63585406	A	A	63585406	3	1	128	1	0	0	0	0	1	0	0	0	1670	971	34	2	263	2	C11orf84	11	63585406	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	171385	63585406	71421110	658	70946											
PPP2R5B	5526	broad.mit.edu	37	chr11	64697985	64697985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcgctgcccctgaagaCggagcacaagcagttcctgg	8	8	12	13	2	0	2	0	1	0	1	1	3	1	3	3	2	4	4	3	2	2	2	rs147891521	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:64697985C>T	uc001oby.2	+	8	1400	c.815C>T	c.(814-816)ACG>ATG	p.T272M	PPP2R5B_uc001obz.2_Missense_Mutation_p.T272M	NM_006244	NP_006235	Q15173	2A5B_HUMAN	beta isoform of regulatory subunit B56, protein	272					signal transduction	cytoplasm|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(2)	2						CCCCTGAAGACGGAGCACAAG	0.607													28	108					0	0	0.009535	0	0		T	64697985	T	T	64697985	3	4	128	1	0	0	0	0	1	0	0	0	12415	536	19	1	841	1	PPP2R5B	11	64697985	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1112579	64697985	70308531	659	70947											
SLC25A45	283130	broad.mit.edu	37	chr11	65144509	65144509	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggctctgtctggttttgtagCcggactttgatgaggtcaaa	7	14	13	7	1	3	2	1	2	2	0	3	3	3	3	1	4	1	3	1	4	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:65144509C>A	uc001odp.1	-	5	800	c.378G>T	c.(376-378)CGG>CGT	p.R126R	SLC25A45_uc009yqi.1_Silent_p.R64R|SLC25A45_uc001odq.1_Silent_p.R102R|SLC25A45_uc001odr.1_Silent_p.R126R|SLC25A45_uc001ods.1_Silent_p.R84R|SLC25A45_uc001odt.1_Silent_p.R84R	NM_001077241	NP_001070709	Q8N413	S2545_HUMAN	solute carrier family 25, member 45 isoform b	126	Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0						GGTTTTGTAGCCGGACTTTGA	0.632													17	46					9.16793e-09	9.58662e-09	0.00499	1	0		A	65144509	A	A	65144509	2	1	128	1	0	0	0	0	0	0	0	1	14535	726	26	5		5	SLC25A45	11	65144509	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	446524	65144509	69862007	660	70948											
MAP3K11	4296	broad.mit.edu	37	chr11	65365885	65365885	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagaaggggtctgagtcCgggaacaaggtccagggtgc	9	6	16	10	1	1	2	0	1	1	1	4	3	4	3	3	5	2	0	3	5	3	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:65365885C>T	uc001oew.2	-	10	2914	c.2421G>A	c.(2419-2421)CCG>CCA	p.P807P	KCNK7_uc001oeq.2_5'Flank|KCNK7_uc001oer.2_5'Flank|KCNK7_uc001oes.2_5'Flank|KCNK7_uc001oeu.2_5'Flank|MAP3K11_uc001oev.2_Silent_p.P223P|MAP3K11_uc010rol.1_Silent_p.P550P|MAP3K11_uc001oex.1_Silent_p.P296P	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	807	Pro-rich.				activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						GGTCTGAGTCCGGGAACAAGG	0.672													20	52					0	0	0.012319	0	0		T	65365885	T	T	65365885	2	4	128	1	0	0	0	0	0	0	0	1	9263	639	23	1		1	MAP3K11	11	65365885	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	221376	65365885	69640631	661	70949											
PCNXL3	399909	broad.mit.edu	37	chr11	65390989	65390989	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagtgctggagaacatcttCggcgtgggcctgagcagcct	7	8	16	10	2	1	2	0	1	1	1	2	4	1	3	2	4	4	2	2	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:65390989C>T	uc001oey.2	+	12	2385	c.2385C>T	c.(2383-2385)TTC>TTT	p.F795F	PCNXL3_uc009yqn.2_5'Flank	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	795	Helical; (Potential).					integral to membrane					0						AGAACATCTTCGGCGTGGGCC	0.617													16	55					0	0	0.00499	0	0		T	65390989	T	T	65390989	2	4	128	1	0	0	0	0	0	0	0	1	11612	883	31	1		1	PCNXL3	11	65390989	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	25104	65390989	69615527	662	70950											
CTSF	8722	broad.mit.edu	37	chr11	66331420	66331420	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttcagtccaccaccgccGagctggccatggtgttcacg	6	9	10	16	3	3	0	2	0	1	0	4	1	4	0	5	2	1	2	5	2	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:66331420G>A	uc001oip.2	-	13	1529	c.1439C>T	c.(1438-1440)TCG>TTG	p.S480L		NM_003793	NP_003784	Q9UBX1	CATF_HUMAN	cathepsin F precursor	480				SDVPFWAIKNSWGTDWGEKGYYYLHRGSGACGVNTMASSAV VD -> EFRCLSCIQPGHRQGWDHSISGPLEGK (in Ref. 9).	proteolysis	lysosome	cysteine-type endopeptidase activity				0						CACCACCGCCGAGCTGGCCAT	0.672													23	30					0	0	0.004656	0	0		A	66331420	A	A	66331420	3	1	128	1	0	0	0	0	1	0	0	0	4037	1059	37	1	19	1	CTSF	11	66331420	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	940431	66331420	68675096	663	70951											
RBM14	10432	broad.mit.edu	37	chr11	66392099	66392099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgggagctgcctacagggCccagccttctgcctctttgg	5	10	12	14	0	2	0	0	0	2	0	2	1	2	1	4	3	5	1	4	3	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:66392099C>T	uc001oit.2	+	2	891	c.752C>T	c.(751-753)GCC>GTC	p.A251V	RBM14_uc009yrh.2_Intron|RBM14_uc009yri.2_Intron|RBM4_uc009yrj.2_Intron|RBM4_uc009yrk.2_Intron	NM_006328	NP_006319	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	251	Ala-rich.				DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|histone deacetylation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus	mediator complex|ribonucleoprotein complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|protein binding, bridging|RNA binding|RNA polymerase II transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						GCCTACAGGGCCCAGCCTTCT	0.657													15	143					0	0	0.008871	0	0		T	66392099	T	T	66392099	3	4	128	1	0	0	0	0	1	0	0	0	13140	739	26	2	758	2	RBM14	11	66392099	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	60679	66392099	68614417	664	70952											
ANKRD13D	338692	broad.mit.edu	37	chr11	67068991	67068991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcgaggtggaccccaccGtgtttgaagtgcccaacggg	7	7	15	12	4	0	1	0	1	0	0	0	3	0	2	4	3	3	1	4	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:67068991G>A	uc001okc.1	+	14	1631	c.1120G>A	c.(1120-1122)GTG>ATG	p.V374M	ANKRD13D_uc001okd.1_Missense_Mutation_p.V461M|ANKRD13D_uc001oke.1_Missense_Mutation_p.V374M|ANKRD13D_uc001okg.1_Missense_Mutation_p.V157M|ANKRD13D_uc001okh.1_Missense_Mutation_p.V157M|ANKRD13D_uc001oki.1_Missense_Mutation_p.V111M|SSH3_uc001okj.2_5'Flank|SSH3_uc001okk.2_5'Flank|SSH3_uc001okl.2_5'Flank	NM_207354	NP_997237	Q6ZTN6	AN13D_HUMAN	ankyrin repeat domain 13 family, member D	374										ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			GGACCCCACCGTGTTTGAAGT	0.657													20	81					0	0	0.010504	0	0		A	67068991	A	A	67068991	3	1	128	1	0	0	0	0	1	0	0	0	644	1145	40	1	1431	1	ANKRD13D	11	67068991	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	676892	67068991	67937525	665	70953											
NDUFV1	4723	broad.mit.edu	37	chr11	67379380	67379380	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacccagacggacatcgtgAaagccatcgcccgcctcatt	10	7	8	16	4	2	2	2	1	0	1	4	3	2	3	4	1	1	0	4	1	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:67379380A>G	uc001omj.2	+	8	1246	c.1093A>G	c.(1093-1095)AAA>GAA	p.K365E	NDUFV1_uc010rpv.1_Missense_Mutation_p.K264E|NDUFV1_uc001oml.2_Missense_Mutation_p.K358E|NDUFV1_uc001omk.3_Missense_Mutation_p.K356E|NDUFV1_uc009yrz.1_Missense_Mutation_p.E224G|NDUFV1_uc010rpw.1_Missense_Mutation_p.K74E	NM_007103	NP_009034	P49821	NDUV1_HUMAN	NADH dehydrogenase ubiquinone flavoprotein 1	365					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|FMN binding|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity			skin(1)	1					NADH(DB00157)	GGACATCGTGAAAGCCATCGC	0.632													19	60					0	0	0.010504	0	0		G	67379380	G	G	67379380	3	3	128	1	0	0	0	0	1	0	0	0	10318	247	9	3	1123	3	NDUFV1	11	67379380	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	310389	67379380	67627136	666	70954											
ANO1	55107	broad.mit.edu	37	chr11	70009435	70009435	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacattttccgttccttcCgaatggaagaggtaaccgaa	11	12	9	9	3	0	1	0	0	0	1	3	4	3	2	4	2	2	3	4	2	5	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:70009435C>T	uc001opj.2	+	19	2244	c.1939C>T	c.(1939-1941)CGA>TGA	p.R647*	ANO1_uc001opk.1_Nonsense_Mutation_p.R589*|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Nonsense_Mutation_p.R356*	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	647	Extracellular (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						CCGTTCCTTCCGAATGGAAGA	0.517													8	27					0	0	0.00308	0	0		T	70009435	T	T	70009435	4	4	128	1	0	0	0	0	0	1	0	0	695	644	23	1	2013	1	ANO1	11	70009435	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2630055	70009435	64997081	667	70955											
INPPL1	3636	broad.mit.edu	37	chr11	71939254	71939254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcagaagcatgtgcacaCgtatcgcattctgcctgatg	10	11	10	10	2	2	2	1	1	1	1	3	2	2	2	1	0	3	5	1	0	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:71939254C>T	uc001osf.2	+	2	350	c.203C>T	c.(202-204)ACG>ATG	p.T68M	INPPL1_uc001osg.2_Translation_Start_Site	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	68	SH2.				actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						CATGTGCACACGTATCGCATT	0.582													34	102					0	0	0.005524	0	0		T	71939254	T	T	71939254	3	4	128	1	0	0	0	0	1	0	0	0	7777	536	19	1	209	1	INPPL1	11	71939254	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1929819	71939254	63067262	668	70956											
PDE2A	5138	broad.mit.edu	37	chr11	72295930	72295930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacctcatcatccaccaCgcccccgtcgaacaccttgg	8	8	5	20	3	3	0	3	0	1	0	6	1	4	0	6	1	1	0	6	1	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:72295930C>T	uc010rrc.1	-	17	1588	c.1345G>A	c.(1345-1347)GTG>ATG	p.V449M	PDE2A_uc001oso.2_Missense_Mutation_p.V428M|PDE2A_uc010rra.1_Missense_Mutation_p.V442M|PDE2A_uc001osn.2_Missense_Mutation_p.V193M|PDE2A_uc010rrb.1_Missense_Mutation_p.V440M|PDE2A_uc010rrd.1_Missense_Mutation_p.V334M	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	449	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	TCATCCACCACGCCCCCGTCG	0.647													34	90					0	0	0.017118	0	0		T	72295930	T	T	72295930	3	4	128	1	0	0	0	0	1	0	0	0	11655	536	19	1	1540	1	PDE2A	11	72295930	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	356676	72295930	62710586	669	70957											
CHRDL2	25884	broad.mit.edu	37	chr11	74441890	74441890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggggaaccagagcagcGcgagtcccagcaaggaggag	12	1	17	11	2	0	1	0	0	0	1	1	5	1	4	3	4	4	2	3	4	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:74441890G>A	uc001ovi.2	-	1	297	c.44C>T	c.(43-45)GCG>GTG	p.A15V	CHRDL2_uc001ovh.2_Missense_Mutation_p.A15V|CHRDL2_uc001ovk.1_Missense_Mutation_p.A15V			Q6WN34	CRDL2_HUMAN	RecName: Full=Chordin-like protein 2; AltName: Full=Chordin-related protein 2; AltName: Full=Breast tumor novel factor 1;          Short=BNF-1; Flags: Precursor;	15					cartilage development|cell differentiation|ossification	extracellular region|mitochondrion					0	Hepatocellular(1;0.098)					CCAGAGCAGCGCGAGTCCCAG	0.672													3	24					0	0	0.004672	0	0		A	74441890	A	A	74441890	3	1	128	1	0	0	0	0	1	0	0	0	3377	1087	38	1	1359	1	CHRDL2	11	74441890	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2145960	74441890	60564626	670	70958											
MAP6	4135	broad.mit.edu	37	chr11	75379314	75379314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgggtgctcggtggcctccGagtacttggtgaaaaccagc	7	8	14	12	3	0	1	0	1	0	0	2	2	1	1	4	4	4	2	4	4	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:75379314G>A	uc001owu.2	-	1	166	c.101C>T	c.(100-102)TCG>TTG	p.S34L	MAP6_uc001owv.2_Missense_Mutation_p.S34L	NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	34						Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					GGTGGCCTCCGAGTACTTGGT	0.388													9	28					0	0	0.004482	0	0		A	75379314	A	A	75379314	3	1	128	1	0	0	0	0	1	0	0	0	9282	1059	37	1	2360	1	MAP6	11	75379314	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	937424	75379314	59627202	671	70959											
USP35	57558	broad.mit.edu	37	chr11	77921181	77921181	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctgagggctcccgctcCgtcctggacctggttaacta	5	10	12	14	2	1	1	0	1	1	0	4	2	4	2	4	4	1	4	4	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:77921181C>T	uc009yva.1	+	10	2526	c.2280C>T	c.(2278-2280)TCC>TCT	p.S760S	USP35_uc001oze.2_Silent_p.S516S|USP35_uc001ozc.2_Silent_p.S328S|USP35_uc010rsp.1_Silent_p.S192S|USP35_uc001ozd.2_Silent_p.S371S|USP35_uc001ozf.2_Silent_p.S491S	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	760					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			GCTCCCGCTCCGTCCTGGACC	0.577													30	98					0	0	0.008361	0	0		T	77921181	T	T	77921181	2	4	128	1	0	0	0	0	0	0	0	1	17092	639	23	1		1	USP35	11	77921181	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2541867	77921181	57085335	672	70960											
PCF11	51585	broad.mit.edu	37	chr11	82877374	82877374	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagatcgagtactagaaagCgatcaagatctcgatcaccc	14	7	10	10	3	3	3	2	0	1	3	5	7	3	3	1	1	2	1	1	1	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:82877374C>T	uc001ozx.3	+	5	1780	c.1435C>T	c.(1435-1437)CGA>TGA	p.R479*	PCF11_uc010rsu.1_Nonsense_Mutation_p.R479*	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	479					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						TACTAGAAAGCGATCAAGATC	0.408													19	37					0	0	0.006122	0	0		T	82877374	T	T	82877374	4	4	128	1	0	0	0	0	0	1	0	0	11592	760	27	1	1453	1	PCF11	11	82877374	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4956193	82877374	52129142	673	70961											
DLG2	1740	broad.mit.edu	37	chr11	83770433	83770433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctacgcacatacagccgaaCgatagaccctgcttccttca	11	9	6	15	3	2	1	1	0	1	1	3	3	3	1	3	0	5	2	3	0	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:83770433C>T	uc001paj.2	-	6	832	c.529G>A	c.(529-531)GTT>ATT	p.V177I	DLG2_uc001pai.2_Missense_Mutation_p.V126I|DLG2_uc010rsy.1_Missense_Mutation_p.V144I|DLG2_uc010rsz.1_Missense_Mutation_p.V177I|DLG2_uc010rta.1_Missense_Mutation_p.V177I|DLG2_uc001pak.2_Missense_Mutation_p.V282I|DLG2_uc010rtb.1_Missense_Mutation_p.V144I|DLG2_uc001pal.1_Missense_Mutation_p.V177I|DLG2_uc001pam.1_Missense_Mutation_p.V216I	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	177	PDZ 1.			V -> A (in Ref. 1; AAB04949).		cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				TACAGCCGAACGATAGACCCT	0.453													51	97					0	0	0.01441	0	0		T	83770433	T	T	83770433	3	4	128	1	0	0	0	0	1	0	0	0	4561	536	19	1	2205	1	DLG2	11	83770433	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	893059	83770433	51236083	674	70962											
GRM5	2915	broad.mit.edu	37	chr11	88780735	88780735	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgctctagggccacagcCgaatgccagcaggagtccct	8	7	11	15	1	2	0	0	0	2	0	3	2	3	1	4	2	4	2	4	2	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:88780735C>T	uc001pcq.2	-	1	506	c.306G>A	c.(304-306)TCG>TCA	p.S102S	GRM5_uc009yvm.2_Silent_p.S102S|GRM5_uc009yvn.1_Silent_p.S102S	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	102	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	GGGCCACAGCCGAATGCCAGC	0.522													19	43					0	0	0.006122	0	0		T	88780735	T	T	88780735	2	4	128	1	0	0	0	0	0	0	0	1	6816	639	23	1		1	GRM5	11	88780735	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5010302	88780735	46225781	675	70963											
FAT3	120114	broad.mit.edu	37	chr11	92533495	92533495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattttatctgggaatgaccGgacgagctttctgatggaca	10	12	11	8	2	2	2	0	2	2	0	2	6	2	5	1	3	1	1	1	3	2	3	rs149993900	by1000genomes	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:92533495G>A	uc001pdj.3	+	9	7333	c.7316G>A	c.(7315-7317)CGG>CAG	p.R2439Q		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2439	Cadherin 22.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GGGAATGACCGGACGAGCTTT	0.493										TCGA Ovarian(4;0.039)			29	100					0	0	0.010818	0	0		A	92533495	A	A	92533495	3	1	128	1	0	0	0	0	1	0	0	0	5705	1116	39	1	7350	1	FAT3	11	92533495	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3752760	92533495	42473021	676	70964											
FAT3	120114	broad.mit.edu	37	chr11	92613994	92613994	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccggaatggaggatcctgCgatccaataggaaacacttt	12	9	11	9	2	0	0	0	0	0	0	2	5	2	4	3	4	3	0	3	4	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:92613994C>T	uc001pdj.3	+	22	12242	c.12225C>T	c.(12223-12225)TGC>TGT	p.C4075C	FAT3_uc001pdi.3_Silent_p.C515C	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4075	EGF-like 3.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GAGGATCCTGCGATCCAATAG	0.458										TCGA Ovarian(4;0.039)			15	298					0	0	0.003163	0	0		T	92613994	T	T	92613994	2	4	128	1	0	0	0	0	0	0	0	1	5705	776	27	1		1	FAT3	11	92613994	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	80499	92613994	42392522	677	70965											
CCDC82	79780	broad.mit.edu	37	chr11	96117864	96117864	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagatttctgctcaggcacGtgactcttagaatttctcct	8	14	8	11	2	4	3	1	1	3	2	5	4	4	3	1	1	1	2	1	1	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:96117864G>A	uc009ywp.2	-	1	291	c.48C>T	c.(46-48)CAC>CAT	p.H16H	CCDC82_uc009ywq.2_Silent_p.H16H|CCDC82_uc001pfx.3_Silent_p.H16H|CCDC82_uc009ywr.2_Silent_p.H16H|CCDC82_uc009yws.2_Silent_p.H16H	NM_024725	NP_079001	Q8N4S0	CCD82_HUMAN	coiled-coil domain containing 82	16							protein binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.154)		GCTCAGGCACGTGACTCTTAG	0.343													23	60					0	0	0.004656	0	0		A	96117864	A	A	96117864	2	1	128	1	0	0	0	0	0	0	0	1	2859	1136	40	1		1	CCDC82	11	96117864	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3503870	96117864	38888652	678	70966											
KIAA1377	57562	broad.mit.edu	37	chr11	101786106	101786106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagagcccccctcggccctCgggagagcggcgggcatcac	7	3	14	17	4	1	2	1	0	0	2	3	3	1	2	4	4	2	1	4	4	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:101786106C>T	uc001pgm.2	+	1	361	c.91C>T	c.(91-93)CGG>TGG	p.R31W	ANGPTL5_uc001pgl.2_Intron	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	31							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		CCTCGGCCCTCGGGAGAGCGG	0.642													48	167					0	0	0.01441	0	0		T	101786106	T	T	101786106	3	4	128	1	0	0	0	0	1	0	0	0	8243	875	31	1	93	1	KIAA1377	11	101786106	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5668242	101786106	33220410	679	70967											
PIH1D2	120379	broad.mit.edu	37	chr11	111941920	111941920	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgcatttcatggccatcTgaattaactgattttttttc	10	18	5	8	0	2	2	1	2	1	0	3	2	2	2	1	1	2	1	1	1	3	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:111941920T>C	uc001pmq.3	-	4	471	c.389A>G	c.(388-390)CAG>CGG	p.Q130R	PIH1D2_uc009yyl.2_Missense_Mutation_p.Q130R|PIH1D2_uc001pmp.3_Missense_Mutation_p.Q130R|PIH1D2_uc010rws.1_Missense_Mutation_p.Q130R	NM_138789	NP_620144	Q8WWB5	PIHD2_HUMAN	PIH1 domain containing 2 isoform 1	130										ovary(1)	1		all_cancers(61;1.09e-14)|all_epithelial(67;7.64e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.19e-07)|BRCA - Breast invasive adenocarcinoma(274;6.17e-07)|all cancers(92;6.18e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0508)		CATGGCCATCTGAATTAACTG	0.363													85	301					0	0	0.01441	0	0		C	111941920	C	C	111941920	3	2	128	1	0	0	0	0	1	0	0	0	11926	1580	55	3	628	3	PIH1D2	11	111941920	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	10155814	111941920	23064596	680	70968											
APOA4	337	broad.mit.edu	37	chr11	116691981	116691981	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaagggcgccagcctctGccgcagctcctcggcactgg	5	5	14	17	3	1	0	0	0	1	0	3	0	2	0	5	4	3	3	5	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:116691981G>A	uc001pps.1	-	3	897	c.793C>T	c.(793-795)CAG>TAG	p.Q265*		NM_000482	NP_000473			apolipoprotein A-IV precursor												0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		GCCAGCCTCTGCCGCAGCTCC	0.652													26	64					0	0	0.015359	0	0		A	116691981	A	A	116691981	4	1	128	1	0	0	0	0	0	1	0	0	783	1328	46	2	401	2	APOA4	11	116691981	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4750061	116691981	18314535	681	70969											
BACE1	23621	broad.mit.edu	37	chr11	117186283	117186283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcccacggtcatctccaCgtagtagccctgccccgact	6	8	9	18	3	2	0	1	0	1	0	3	1	2	0	5	1	3	3	5	1	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:117186283C>T	uc001pqz.2	-	1	690	c.229G>A	c.(229-231)GTG>ATG	p.V77M	BACE1_uc001pqw.2_Missense_Mutation_p.V77M|BACE1_uc001pqx.2_Missense_Mutation_p.V77M|BACE1_uc001pqy.2_Missense_Mutation_p.V77M|BACE1_uc001pra.1_Missense_Mutation_p.V77M	NM_012104	NP_036236	P56817	BACE1_HUMAN	beta-site APP-cleaving enzyme 1 isoform A	77	Extracellular (Potential).				beta-amyloid metabolic process|membrane protein ectodomain proteolysis	cell surface|cytoplasmic vesicle membrane|endoplasmic reticulum|endosome|integral to plasma membrane|trans-Golgi network	aspartic-type endopeptidase activity|beta-aspartyl-peptidase activity|protein binding			ovary(1)	1	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000563)|all cancers(92;0.0032)		GTCATCTCCACGTAGTAGCCC	0.682													7	33					0	0	0.00308	0	0		T	117186283	T	T	117186283	3	4	128	1	0	0	0	0	1	0	0	0	1282	536	19	1	1312	1	BACE1	11	117186283	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	494302	117186283	17820233	682	70970											
DSCAML1	57453	broad.mit.edu	37	chr11	117387410	117387410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgataagggtgtcccgccCggcgactgctgtgatgttcc	5	11	14	11	3	0	2	0	2	0	0	2	3	2	2	3	2	1	3	3	2	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:117387410C>T	uc001prh.1	-	8	1737	c.1735G>A	c.(1735-1737)GGG>AGG	p.G579R		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	519	Extracellular (Potential).|Ig-like C2-type 6.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GTGTCCCGCCCGGCGACTGCT	0.607													12	45					0	0	0.010729	0	0		T	117387410	T	T	117387410	3	4	128	1	0	0	0	0	1	0	0	0	4775	652	23	1	4710	1	DSCAML1	11	117387410	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	201127	117387410	17619106	683	70971											
DSCAML1	57453	broad.mit.edu	37	chr11	117651423	117651423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccgcgctgggggagcccGcggccgggcagggcaccacc	4	1	20	16	5	0	0	0	0	0	0	0	1	0	1	5	6	1	3	5	6	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:117651423G>A	uc001prh.1	-	2	331	c.329C>T	c.(328-330)GCG>GTG	p.A110V	DSCAML1_uc001pri.1_5'UTR	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	50	Extracellular (Potential).|Ig-like C2-type 1.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GGGGGAGCCCGCGGCCGGGCA	0.657													39	139					0	0	0.006999	0	0		A	117651423	A	A	117651423	3	1	128	1	0	0	0	0	1	0	0	0	4775	1087	38	1	6140	1	DSCAML1	11	117651423	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	264013	117651423	17355093	684	70972											
ATP5L	10632	broad.mit.edu	37	chr11	118279806	118279806	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggggcatcattggctatgAtgtttgaagaccaatcttta	10	13	11	7	1	2	3	1	2	1	1	2	3	2	3	1	3	0	3	1	3	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:118279806A>G	uc001psx.2	+	3	582	c.305A>G	c.(304-306)GAT>GGT	p.D102G		NM_006476	NP_006467	O75964	ATP5L_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	102					ATP catabolic process|respiratory electron transport chain	mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity|protein binding				0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)		ATTGGCTATGATGTTTGAAGA	0.378													18	57					0	0	0.007413	0	0		G	118279806	G	G	118279806	3	3	128	1	0	0	0	0	1	0	0	0	1161	333	12	3	315	3	ATP5L	11	118279806	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	628383	118279806	16726710	685	70973											
PHLDB1	23187	broad.mit.edu	37	chr11	118499199	118499199	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactggggcttcaccctgcCagagtccctgtgtccagagg	6	10	12	13	0	1	2	1	0	0	2	3	2	3	2	4	3	2	1	4	3	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:118499199C>A	uc001ptr.1	+	7	2013	c.1660C>A	c.(1660-1662)CAG>AAG	p.Q554K	PHLDB1_uc001pts.2_Missense_Mutation_p.Q554K|PHLDB1_uc001ptt.2_Missense_Mutation_p.Q554K|PHLDB1_uc001ptu.1_Intron|PHLDB1_uc001ptv.1_Missense_Mutation_p.Q354K|PHLDB1_uc001ptw.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	554											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		TTCACCCTGCCAGAGTCCCTG	0.592													6	39					8.12818e-05	8.30325e-05	0.001984	1	0		A	118499199	A	A	118499199	3	1	128	1	0	0	0	0	1	0	0	0	11870	595	21	5	1678	5	PHLDB1	11	118499199	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	219393	118499199	16507317	686	70974											
PDZD3	79849	broad.mit.edu	37	chr11	119058114	119058114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcccaggggtccggcccCggctgtgccacatagtgaaa	8	6	14	13	2	0	1	0	1	0	0	1	1	1	1	5	5	1	1	5	5	3	2	rs140060249		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:119058114C>T	uc001pwb.2	+	3	1188	c.664C>T	c.(664-666)CGG>TGG	p.R222W	PDZD3_uc001pvy.2_Missense_Mutation_p.R156W|PDZD3_uc001pvz.2_Missense_Mutation_p.R156W|PDZD3_uc010rzd.1_Missense_Mutation_p.R143W|PDZD3_uc001pwa.2_5'UTR			Q86UT5	NHRF4_HUMAN	RecName: Full=Na(+)/H(+) exchange regulatory cofactor NHE-RF4;          Short=NHERF-4; AltName: Full=PDZ domain-containing protein 3; AltName: Full=PDZ domain-containing protein 2; AltName: Full=Intestinal and kidney-enriched PDZ protein; AltName: Full=Sodium-hydrogen exchanger regulatory factor 4;	222					cGMP-mediated signaling|ion transport|negative regulation of cGMP biosynthetic process|response to toxin|water transport	apical part of cell|brush border|cytosol|membrane fraction|subapical complex	guanylate cyclase inhibitor activity|ion channel inhibitor activity|protein C-terminus binding			breast(1)	1	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;7.52e-05)		GGTCCGGCCCCGGCTGTGCCA	0.622													13	53					0	0	0.020292	0	0		T	119058114	T	T	119058114	3	4	128	1	0	0	0	0	1	0	0	0	11721	643	23	1	484	1	PDZD3	11	119058114	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	558915	119058114	15948402	687	70975											
MFRP	83552	broad.mit.edu	37	chr11	119213688	119213688	+	Frame_Shift_Del	DEL	G	-	-																															atggtgcgaggagacgaggtGggggggtggctctgctccac																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:119213688delG	uc001pwj.2	-	10	1310	c.1150delC	c.(1150-1152)CACfs	p.H384fs	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Frame_Shift_Del_p.P308fs	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		GAGACGAGGTGGGGGGGTGGC	0.622													12	26	---	---	---	---						.	-	119213688	-	-	119213688	7	5	128	1	0	1	0	1	0	0	0	0	9544	1348	47	0	605	0	MFRP	11	119213688	Frame_Shift_Del	DEL	G	TCGA-CG-4306-01A-01D-1158-08	155574	119213688	15792828	688	70976											
TRIM29	23650	broad.mit.edu	37	chr11	120008304	120008304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgttccgccgggtctcccCgggctccatgatggacaccg	4	8	13	16	4	1	1	0	1	1	0	4	2	3	2	6	3	0	3	6	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:120008304C>T	uc001pwz.2	-	1	560	c.436G>A	c.(436-438)GGG>AGG	p.G146R	TRIM29_uc001pxa.2_RNA	NM_012101	NP_036233	Q14134	TRI29_HUMAN	tripartite motif protein TRIM29	146					transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(109;0.00117)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)		CGGGTCTCCCCGGGCTCCATG	0.642													83	211					0	0	0.01441	0	0		T	120008304	T	T	120008304	3	4	128	1	0	0	0	0	1	0	0	0	16529	652	23	1	1366	1	TRIM29	11	120008304	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	794616	120008304	14998212	689	70977											
ARHGEF12	23365	broad.mit.edu	37	chr11	120350842	120350842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attctggtgaaggacatatgCcctttagaactggaactggt	11	12	11	7	0	1	2	0	1	1	1	1	4	1	4	1	4	3	0	1	4	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:120350842C>T	uc001pxl.1	+	38	3947	c.3940C>T	c.(3940-3942)CCC>TCC	p.P1314S	ARHGEF12_uc009zat.2_Missense_Mutation_p.P1295S|ARHGEF12_uc009zau.1_Missense_Mutation_p.P1211S	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	1314					apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		AGGACATATGCCCTTTAGAAC	0.483			T	MLL	AML								72	241					0	0	0.01441	0	0		T	120350842	T	T	120350842	3	4	128	1	0	0	0	0	1	0	0	0	897	739	26	2	4090	2	ARHGEF12	11	120350842	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	342538	120350842	14655674	690	70978											
GRIK4	2900	broad.mit.edu	37	chr11	120827592	120827592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcctctggtttccggtcGgggggttcatgcagcaaggc	6	9	15	11	2	2	0	1	0	1	0	4	0	3	0	2	6	3	4	2	6	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:120827592G>A	uc001pxn.2	+	16	2091	c.1804G>A	c.(1804-1806)GGG>AGG	p.G602R	GRIK4_uc009zav.1_Missense_Mutation_p.G602R|GRIK4_uc009zaw.1_Missense_Mutation_p.G602R|GRIK4_uc009zax.1_Missense_Mutation_p.G602R	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	602	Cytoplasmic (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	GTTTCCGGTCGGGGGGTTCAT	0.652													13	41					0	0	0.009535	0	0		A	120827592	A	A	120827592	3	1	128	1	0	0	0	0	1	0	0	0	6792	1116	39	1	1858	1	GRIK4	11	120827592	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	476750	120827592	14178924	691	70979											
UBASH3B	84959	broad.mit.edu	37	chr11	122678801	122678801	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatcctgattgtggcccacGcatcttcccttgaagcgtgt	7	12	9	13	2	1	2	0	2	1	0	3	2	3	2	3	1	1	1	3	1	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:122678801G>A	uc001pyi.3	+	13	2089	c.1729G>A	c.(1729-1731)GCA>ACA	p.A577T		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	577	Protein tyrosine phosphatase (By similarity).					cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		TGTGGCCCACGCATCTTCCCT	0.458													172	552					0	0	0.01441	0	0		A	122678801	A	A	122678801	3	1	128	1	0	0	0	0	1	0	0	0	16866	1087	38	1	1779	1	UBASH3B	11	122678801	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1851209	122678801	12327715	692	70980											
BSX	390259	broad.mit.edu	37	chr11	122848490	122848490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtggcggcctctgaaccgCgggggctgccctcggggctt	2	7	18	14	5	1	1	0	1	1	0	2	1	1	1	3	7	2	2	3	7	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:122848490C>T	uc010rzs.1	-	3	569	c.569G>A	c.(568-570)CGC>CAC	p.R190H		NM_001098169	NP_001091639	Q3C1V8	BSH_HUMAN	brain specific homeobox	190											0		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0361)		CTCTGAACCGCGGGGGCTGCC	0.652													15	28					0	0	0.010504	0	0		T	122848490	T	T	122848490	3	4	128	1	0	0	0	0	1	0	0	0	1538	768	27	1	135	1	BSX	11	122848490	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	169689	122848490	12158026	693	70981											
NRGN	4900	broad.mit.edu	37	chr11	124615423	124615423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcctgctccaagccggacGacgacattctagacatcccg	10	6	9	16	5	1	1	0	0	1	1	3	4	3	2	4	1	2	1	4	1	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:124615423G>A	uc001qaq.2	+	2	192	c.40G>A	c.(40-42)GAC>AAC	p.D14N	NRGN_uc001qar.2_Missense_Mutation_p.D14N	NM_006176	NP_006167	Q92686	NEUG_HUMAN	neurogranin	14					nervous system development|signal transduction		calmodulin binding				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		CAAGCCGGACGACGACATTCT	0.632													13	57					0	0	0.004007	0	0		A	124615423	A	A	124615423	3	1	128	1	0	0	0	0	1	0	0	0	10670	1058	37	1	46	1	NRGN	11	124615423	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1766933	124615423	10391093	694	70982											
VSIG2	23584	broad.mit.edu	37	chr11	124618378	124618378	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagcaactgacagcaacagCacgcccaggagcaccccaat	14	2	9	16	1	0	1	0	1	0	0	0	2	0	2	3	1	6	5	3	1	3	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:124618378C>T	uc001qas.2	-	6	835	c.759G>A	c.(757-759)GTG>GTA	p.V253V	VSIG2_uc001qat.2_Silent_p.V253V	NM_014312	NP_055127	Q96IQ7	VSIG2_HUMAN	V-set and immunoglobulin domain containing 2	253	Helical; (Potential).					integral to plasma membrane|membrane fraction				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.215)	Breast(109;0.00663)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0215)		ACAGCAACAGCACGCCCAGGA	0.587													31	97					0	0	0.010818	0	0		T	124618378	T	T	124618378	2	4	128	1	0	0	0	0	0	0	0	1	17250	697	25	2		2	VSIG2	11	124618378	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2955	124618378	10388138	695	70983											
ADAMTS8	11095	broad.mit.edu	37	chr11	130275467	130275467	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgaatcacagggggcacaGctggctttcgcagggcttgg	7	8	15	11	1	1	1	1	1	0	0	2	1	1	1	1	5	1	5	1	5	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:130275467G>A	uc001qgg.3	-	9	3014	c.2656C>T	c.(2656-2658)CTG>TTG	p.L886L	ADAMTS8_uc001qgf.2_Silent_p.L367L	NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	886	TSP type-1 2.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		AGGGGGCACAGCTGGCTTTCG	0.637													7	151					0	0	0.001984	0	0		A	130275467	A	A	130275467	2	1	128	1	0	0	0	0	0	0	0	1	272	962	34	2		2	ADAMTS8	11	130275467	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5657089	130275467	4731049	696	70984											
NCAPD3	23310	broad.mit.edu	37	chr11	134051038	134051038	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgttggagaggcggtgctcGcaggtggagagtacatcccc	8	8	16	9	2	0	2	0	0	0	2	2	4	1	2	2	5	2	4	2	5	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:134051038G>A	uc001qhd.1	-	20	3099	c.2493C>T	c.(2491-2493)TGC>TGT	p.C831C	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	831					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		GGCGGTGCTCGCAGGTGGAGA	0.522													13	37					0	0	0.013537	0	0		A	134051038	A	A	134051038	2	1	128	1	0	0	0	0	0	0	0	1	10225	1079	38	1		1	NCAPD3	11	134051038	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3775571	134051038	955478	697	70985											
GLB1L2	89944	broad.mit.edu	37	chr11	134212846	134212846	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcttgaacaccctcaccacGtaggtgctgcccctgtcccc	6	8	9	18	1	1	1	1	1	0	0	2	1	2	1	6	2	3	3	6	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr11:134212846G>A	uc001qhp.2	+	2	472	c.284_splice	c.e2+1	p.T95_splice		NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor						carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		CCCTCACCACGTAGGTGCTGC	0.612													29	61					0	0	0.008361	0	0		A	134212846	A	A	134212846	5	1	128	1	0	0	0	0	0	0	1	0	6444	1159	40	1	291	1	GLB1L2	11	134212846	Splice_Site	SNP	G	TCGA-CG-4306-01A-01D-1158-08	161808	134212846	793670	698	70986											
WNK1	65125	broad.mit.edu	37	chr12	1005427	1005427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcagatgtgccagagagtgCccacaaaactactgcctcag	12	8	9	12	0	2	2	2	0	0	2	2	3	2	2	3	0	5	0	3	0	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:1005427C>T	uc001qio.3	+	24	6281	c.5774C>T	c.(5773-5775)GCC>GTC	p.A1925V	WNK1_uc001qip.3_Missense_Mutation_p.A1677V|WNK1_uc001qir.3_Missense_Mutation_p.A1098V	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1925					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CCAGAGAGTGCCCACAAAACT	0.498													6	118					0	0	0.001168	0	0		T	1005427	T	T	1005427	3	4	128	1	0	0	0	0	1	0	0	0	17403	739	26	2	7370	2	WNK1	12	1005427	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08		1005427	132846468	699	70987											
PARP11	57097	broad.mit.edu	37	chr12	3939057	3939057	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaaaggaaaggaggtaccTgaaacatgtgccacttccca	15	8	9	9	0	0	1	0	1	0	0	1	3	1	3	3	3	3	1	3	3	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:3939057T>C	uc001qmk.1	-	1	180	c.125A>G	c.(124-126)CAG>CGG	p.Q42R	PARP11_uc001qml.2_Missense_Mutation_p.Q49R|PARP11_uc009zef.2_RNA|PARP11_uc001qmm.2_Silent_p.S8S|PARP11_uc001qmn.2_Silent_p.S8S	NM_020367	NP_065100	Q9NR21	PAR11_HUMAN	poly (ADP-ribose) polymerase family, member 11	42	WWE.						NAD+ ADP-ribosyltransferase activity			ovary(1)|central_nervous_system(1)	2			all cancers(3;1.58e-07)|OV - Ovarian serous cystadenocarcinoma(31;0.00287)|GBM - Glioblastoma multiforme(3;0.0141)|COAD - Colon adenocarcinoma(12;0.0264)			AGGAGGTACCTGAAACATGTG	0.388													21	93					0	0	0.016522	0	0		C	3939057	C	C	3939057	3	2	128	1	0	0	0	0	1	0	0	0	11475	1594	55	3	898	3	PARP11	12	3939057	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	2933630	3939057	129912838	700	70988											
PLEKHG6	55200	broad.mit.edu	37	chr12	6425053	6425053	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgctagccgccggcctgCtgaacctgcagcgagtggga	7	6	15	13	3	0	1	0	1	0	0	0	3	0	2	4	2	7	4	4	2	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:6425053C>T	uc001qnr.2	+	6	722	c.574C>T	c.(574-576)CTG>TTG	p.L192L	PLEKHG6_uc001qns.2_Silent_p.L192L|PLEKHG6_uc010sew.1_Silent_p.L192L|PLEKHG6_uc010sex.1_Silent_p.L160L	NM_018173	NP_060643	Q3KR16	PKHG6_HUMAN	pleckstrin homology domain-containing family G	192	DH.				regulation of Rho protein signal transduction	cleavage furrow|cytoplasm|spindle pole	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|skin(1)	2						CGCCGGCCTGCTGAACCTGCA	0.667													3	5					0	0	0.014758	0	0		T	6425053	T	T	6425053	2	4	128	1	0	0	0	0	0	0	0	1	12093	796	28	2		2	PLEKHG6	12	6425053	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2485996	6425053	127426842	701	70989											
M6PR	4074	broad.mit.edu	37	chr12	9094486	9094486	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcccccacaccacgataTgctgcaggcacatttcgagg	10	8	8	15	2	1	0	1	0	0	0	3	2	2	0	3	2	2	3	3	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:9094486T>A	uc001qvf.2	-	7	932	c.762A>T	c.(760-762)GCA>GCT	p.A254A		NM_002355	NP_002346	P20645	MPRD_HUMAN	cation-dependent mannose-6-phosphate receptor	254	Cytoplasmic (Potential).				endosome to lysosome transport|receptor-mediated endocytosis	cell surface|endosome|integral to plasma membrane|lysosomal membrane	mannose binding|mannose transmembrane transporter activity|transmembrane receptor activity				0		Hepatocellular(102;0.137)		BRCA - Breast invasive adenocarcinoma(232;0.0146)		CACCACGATATGCTGCAGGCA	0.463													28	96					0	0	0.007291	0	0		A	9094486	A	A	9094486	2	1	128	1	0	0	0	0	0	0	0	1	9158	1451	51	5		5	M6PR	12	9094486	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	2669433	9094486	124757409	702	70990											
PZP	5858	broad.mit.edu	37	chr12	9349220	9349220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taagcttcatttcaaagcccGtatttgtaatctggagcatt	11	15	7	8	1	3	0	2	0	1	0	3	1	3	1	1	1	3	4	1	1	4	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:9349220G>A	uc001qvl.2	-	9	958	c.929C>T	c.(928-930)ACG>ATG	p.T310M	PZP_uc009zgl.2_Missense_Mutation_p.T179M	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						TTCAAAGCCCGTATTTGTAAT	0.388													44	136					0	0	0.01441	0	0		A	9349220	A	A	9349220	3	1	128	1	0	0	0	0	1	0	0	0	12894	1145	40	1	3631	1	PZP	12	9349220	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	254734	9349220	124502675	703	70991											
PRH2	5555	broad.mit.edu	37	chr12	11083297	11083297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttcatagatgaggagcGtcagggaccacctttgggag	10	8	15	8	1	2	2	2	1	0	1	2	5	2	5	2	3	1	2	2	3	1	3	rs147911411	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:11083297G>A	uc009zhr.2	+	3	175	c.137G>A	c.(136-138)CGT>CAT	p.R46H	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH2_uc001qzh.2_Missense_Mutation_p.R46H|PRH2_uc001qzi.3_Missense_Mutation_p.R46H	NM_001110213	NP_001103683	P02810	PRPC_HUMAN	proline-rich protein HaeIII subfamily 2	46	Inhibits hydroxyapatite formation, binds to hydroxyapatite and calcium.					extracellular space	protein binding				0						GATGAGGAGCGTCAGGGACCA	0.532													28	155					0	0	0.007291	0	0		A	11083297	A	A	11083297	3	1	128	1	0	0	0	0	1	0	0	0	12505	1145	40	1	147	1	PRH2	12	11083297	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1734077	11083297	122768598	704	70992											
WBP11	51729	broad.mit.edu	37	chr12	14940008	14940008	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcaaaagctgtcacagtagCccttccatctctttcatgaa	12	12	5	12	0	4	1	3	1	1	0	6	1	5	1	2	0	2	2	2	0	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:14940008C>A	uc001rci.2	-	12	2078	c.1917G>T	c.(1915-1917)GGG>GGT	p.G639G		NM_016312	NP_057396	Q9Y2W2	WBP11_HUMAN	WW domain binding protein 11	639					mRNA processing|RNA splicing|rRNA processing	cytoplasm	single-stranded DNA binding|WW domain binding			ovary(1)|lung(1)	2						GTCACAGTAGCCCTTCCATCT	0.453													11	50					1.58986e-06	1.64563e-06	0.008291	1	0		A	14940008	A	A	14940008	2	1	128	1	0	0	0	0	0	0	0	1	17284	726	26	5		5	WBP11	12	14940008	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3856711	14940008	118911887	705	70993											
TMTC1	83857	broad.mit.edu	37	chr12	29904657	29904657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccactgctcttgggttctgGtggcagtggagagtggcagc	5	11	16	9	0	2	1	0	0	2	1	3	2	3	1	1	5	2	4	1	5	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:29904657G>A	uc001rjb.2	-	5	1030	c.556C>T	c.(556-558)CCA>TCA	p.P186S	TMTC1_uc001rjc.1_Missense_Mutation_p.P186S	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	294						integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					TTGGGTTCTGGTGGCAGTGGA	0.403													27	61					0	0	0.009535	0	0		A	29904657	A	A	29904657	3	1	128	1	0	0	0	0	1	0	0	0	16285	1261	44	4	1824	4	TMTC1	12	29904657	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	14964649	29904657	103947238	706	70994											
SFRS2IP	9169	broad.mit.edu	37	chr12	46322094	46322094	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactctttcctctgtatcatAatttgcagtatgcttctcac	8	18	4	11	0	4	0	2	0	3	0	6	0	5	0	1	0	3	4	1	0	4	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:46322094A>G	uc001rox.2	-	11	1677	c.1390T>C	c.(1390-1392)TAT>CAT	p.Y464H	SFRS2IP_uc001row.2_Missense_Mutation_p.Y149H|SFRS2IP_uc001roy.1_Missense_Mutation_p.Y538H	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	464					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		TCTGTATCATAATTTGCAGTA	0.388													40	111					0	0	0.00874	0	0		G	46322094	G	G	46322094	3	3	128	1	0	0	0	0	1	0	0	0	14202	362	13	3	3021	3	SFRS2IP	12	46322094	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	16417437	46322094	87529801	707	70995											
HDAC7	51564	broad.mit.edu	37	chr12	48192418	48192418	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccacctgcaactcgggcatCggcgtgtccatggagagctg	7	7	13	14	3	0	1	0	0	0	1	3	2	1	1	3	3	3	3	3	3	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:48192418C>T	uc009zkv.1	-	2	374	c.159G>A	c.(157-159)CCG>CCA	p.P53P	HDAC7_uc010slo.1_Silent_p.P92P|HDAC7_uc001rqj.3_Silent_p.P92P|HDAC7_uc001rqk.3_Silent_p.P75P			Q8WUI4	HDAC7_HUMAN	Synthetic construct DNA, clone: pF1KB0470, Homo sapiens HDAC7 gene for histone deacetylase 7, without stop codon, in Flexi system.	53	Interaction with MEF2A (By similarity).|Transcription repression 1 (By similarity).|Interaction with MEF2C (By similarity).				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		ACTCGGGCATCGGCGTGTCCA	0.632													8	29					0	0	0.006214	0	0		T	48192418	T	T	48192418	2	4	128	1	0	0	0	0	0	0	0	1	7028	871	31	1		1	HDAC7	12	48192418	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1870324	48192418	85659477	708	70996											
DDX23	9416	broad.mit.edu	37	chr12	49237796	49237796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccttcttattccgatcccGctccttatctcgttctcgtt	3	18	5	15	4	3	0	0	0	3	0	9	1	7	0	4	0	0	3	4	0	2	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:49237796G>A	uc001rsm.2	-	3	338	c.247C>T	c.(247-249)CGG>TGG	p.R83W		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	83	Arg-rich.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6						TTCCGATCCCGCTCCTTATCT	0.493													117	352					0	0	0.01441	0	0		A	49237796	A	A	49237796	3	1	128	1	0	0	0	0	1	0	0	0	4353	1086	38	1	2275	1	DDX23	12	49237796	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1045378	49237796	84614099	709	70997											
CSRNP2	81566	broad.mit.edu	37	chr12	51458168	51458168	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttgagccgctccagttcCtctgcactctgcaggtgcat	5	11	10	15	1	2	1	0	1	2	0	4	1	4	1	4	1	4	5	4	1	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:51458168C>A	uc001rxu.1	-	5	1291	c.993G>T	c.(991-993)GAG>GAT	p.E331D		NM_030809	NP_110436	Q9H175	CSRN2_HUMAN	TGF-beta induced apoptosis protein 12	331					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GCTCCAGTTCCTCTGCACTCT	0.582													56	161					1.38814e-16	1.49509e-16	0.01441	1	0		A	51458168	A	A	51458168	3	1	128	1	0	0	0	0	1	0	0	0	3967	680	24	5	642	5	CSRNP2	12	51458168	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2220372	51458168	82393727	710	70998											
KRT5	3852	broad.mit.edu	37	chr12	52910981	52910981	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgttgcggaggtcatcGccatgccggccagctgtctg	4	11	15	11	3	2	0	1	0	1	0	3	1	2	1	3	4	3	2	3	4	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:52910981G>A	uc001san.2	-	6	1291	c.1128C>T	c.(1126-1128)GGC>GGT	p.G376G	KRT5_uc009zmh.2_Silent_p.G376G	NM_000424	NP_000415	P13647	K2C5_HUMAN	keratin 5	376	Rod.|Coil 2.				epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		GGAGGTCATCGCCATGCCGGC	0.498													47	143					0	0	0.01441	0	0		A	52910981	A	A	52910981	2	1	128	1	0	0	0	0	0	0	0	1	8495	1074	38	1		1	KRT5	12	52910981	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1452813	52910981	80940914	711	70999											
TARBP2	6895	broad.mit.edu	37	chr12	53899445	53899445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgacagggtgtgggctccCgcctggatggtcttcgaaac	6	10	14	11	2	1	1	0	1	1	0	3	3	2	2	2	4	1	1	2	4	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:53899445C>T	uc001sdo.2	+	8	1242	c.754C>T	c.(754-756)CGC>TGC	p.R252C	TARBP2_uc001sdp.2_Missense_Mutation_p.R231C|TARBP2_uc001sdq.2_Missense_Mutation_p.R108C|TARBP2_uc001sdr.2_Missense_Mutation_p.R108C|TARBP2_uc001sds.2_Missense_Mutation_p.P209L|TARBP2_uc001sdt.2_Missense_Mutation_p.R231C|TARBP2_uc001sdu.2_Missense_Mutation_p.R108C|TARBP2_uc001sdv.2_RNA	NM_134323	NP_599150	Q15633	TRBP2_HUMAN	TAR RNA binding protein 2 isoform a	252	Sufficient for interaction with DICER1.				miRNA loading onto RISC involved in gene silencing by miRNA|negative regulation of defense response to virus by host|negative regulation of protein kinase activity|positive regulation of viral genome replication|pre-miRNA processing|production of siRNA involved in RNA interference|regulation of transcription from RNA polymerase II promoter|regulation of translation|regulation of viral transcription|targeting of mRNA for destruction involved in RNA interference	cytosol|nucleus|perinuclear region of cytoplasm|RNA-induced silencing complex	double-stranded RNA binding|protein homodimerization activity|siRNA binding			central_nervous_system(1)	1						TGTGGGCTCCCGCCTGGATGG	0.547													90	318					0	0	0.01441	0	0		T	53899445	T	T	53899445	3	4	128	1	0	0	0	0	1	0	0	0	15581	652	23	1	784	1	TARBP2	12	53899445	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	988464	53899445	79952450	712	71000											
HOXC9	3225	broad.mit.edu	37	chr12	54396222	54396222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccctccaggcaaccccGtggccaactggattcacgcc	7	7	10	17	2	1	0	1	0	0	0	2	1	2	1	6	4	2	1	6	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:54396222G>A	uc001sep.2	+	3	645	c.547G>A	c.(547-549)GTG>ATG	p.V183M	HOXC9_uc001seq.2_Missense_Mutation_p.V183M	NM_006897	NP_008828	P31274	HXC9_HUMAN	homeobox C9	183					multicellular organismal development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)|skin(1)	3						AGGCAACCCCGTGGCCAACTG	0.577													49	145					0	0	0.01441	0	0		A	54396222	A	A	54396222	3	1	128	1	0	0	0	0	1	0	0	0	7333	1145	40	1	553	1	HOXC9	12	54396222	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	496777	54396222	79455673	713	71001											
NCKAP1L	3071	broad.mit.edu	37	chr12	54925281	54925281	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcctggactacagaagctgGtggtggaaaacatggacata	13	9	12	7	0	0	1	0	0	0	1	1	4	1	4	1	5	3	1	1	5	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:54925281G>C	uc001sgc.3	+	24	2690	c.2611G>C	c.(2611-2613)GTG>CTG	p.V871L	NCKAP1L_uc010sox.1_Missense_Mutation_p.V413L|NCKAP1L_uc010soy.1_Missense_Mutation_p.V821L	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	871					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						ACAGAAGCTGGTGGTGGAAAA	0.493													77	214					0	0	0.01441	0	0		C	54925281	C	C	54925281	3	2	128	1	0	0	0	0	1	0	0	0	10241	1261	44	5	2705	5	NCKAP1L	12	54925281	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	529059	54925281	78926614	714	71002											
OR6C1	390321	broad.mit.edu	37	chr12	55714547	55714547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggattcccacctgcagaCccccatgtatttcttcctca	7	12	6	16	0	2	1	1	0	1	1	4	2	4	2	5	1	1	3	5	1	1	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:55714547C>T	uc010spi.1	+	1	164	c.164C>T	c.(163-165)ACC>ATC	p.T55I		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	55	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						CACCTGCAGACCCCCATGTAT	0.428													22	96					0	0	0.010504	0	0		T	55714547	T	T	55714547	3	4	128	1	0	0	0	0	1	0	0	0	11209	507	18	4	166	4	OR6C1	12	55714547	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	789266	55714547	78137348	715	71003											
SMARCC2	6601	broad.mit.edu	37	chr12	56575376	56575376	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtcgatctgaatctgggctGttcacctataggatggagaa	10	11	12	8	2	3	2	1	1	2	1	4	5	3	3	1	3	0	2	1	3	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:56575376G>A	uc001skb.2	-	10	952	c.846C>T	c.(844-846)AAC>AAT	p.N282N	SMARCC2_uc001skd.2_Silent_p.N282N|SMARCC2_uc001ska.2_Silent_p.N282N|SMARCC2_uc001skc.2_Silent_p.N282N|SMARCC2_uc010sqf.1_Silent_p.N171N	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	282					chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			AATCTGGGCTGTTCACCTATA	0.473													42	163					0	0	0.010771	0	0		A	56575376	A	A	56575376	2	1	128	1	0	0	0	0	0	0	0	1	14801	1368	48	4		4	SMARCC2	12	56575376	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	860829	56575376	77276519	716	71004											
TIMELESS	8914	broad.mit.edu	37	chr12	56814799	56814799	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaaggactaagctaccCtggacttgttctgcttctga	9	14	9	9	0	2	2	0	2	2	0	2	4	2	4	1	2	3	3	1	2	3	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:56814799C>A	uc001slf.2	-	24	3156	c.2988G>T	c.(2986-2988)CAG>CAT	p.Q996H		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	996					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						CTAAGCTACCCTGGACTTGTT	0.498													50	172					1.0331e-37	1.14425e-37	0.01441	1	0		A	56814799	A	A	56814799	3	1	128	1	0	0	0	0	1	0	0	0	15929	680	24	5	662	5	TIMELESS	12	56814799	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	239423	56814799	77037096	717	71005											
BAZ2A	11176	broad.mit.edu	37	chr12	56992956	56992956	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggttccgcatagagagtcGccgccgcttggagggggaga	7	7	18	9	4	0	2	0	0	0	2	2	5	1	3	3	4	0	3	3	4	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:56992956G>A	uc001slq.1	-	27	5559	c.5365C>T	c.(5365-5367)CGA>TGA	p.R1789*	BAZ2A_uc001slp.1_Nonsense_Mutation_p.R1787*|BAZ2A_uc001slo.1_Nonsense_Mutation_p.R595*|BAZ2A_uc009zov.1_Nonsense_Mutation_p.R755*|BAZ2A_uc009zow.1_Nonsense_Mutation_p.R1757*	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1789					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						ATAGAGAGTCGCCGCCGCTTG	0.622													5	11					0	0	0.001168	0	0		A	56992956	A	A	56992956	4	1	128	1	0	0	0	0	0	1	0	0	1332	1095	38	1	364	1	BAZ2A	12	56992956	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	178157	56992956	76858939	718	71006											
C12orf66	144577	broad.mit.edu	37	chr12	64615816	64615816	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtaggtgaggctgtgatAgaccttctcggccgcggcca	7	8	15	11	3	1	3	0	2	1	1	2	3	1	3	3	5	0	2	3	5	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:64615816A>C	uc001srw.3	-	1	261	c.202T>G	c.(202-204)TAT>GAT	p.Y68D	uc001srx.2_5'Flank|C12orf66_uc009zql.2_Intron	NM_152440	NP_689653	Q96MD2	CL066_HUMAN	hypothetical protein LOC144577	68										ovary(1)	1						AGGCTGTGATAGACCTTCTCG	0.652													5	17					0	0	0.00308	0	0		C	64615816	C	C	64615816	3	2	128	1	0	0	0	0	1	0	0	0	1712	420	15	5	1147	5	C12orf66	12	64615816	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	7622860	64615816	69236079	719	71007											
C12orf66	144577	broad.mit.edu	37	chr12	64615836	64615836	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccttctcggccgcggccAggtgcgccaaggccgccagc	6	4	14	17	5	1	1	0	0	1	1	2	1	1	1	6	4	2	0	6	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:64615836A>C	uc001srw.3	-	1	241	c.182T>G	c.(181-183)CTG>CGG	p.L61R	uc001srx.2_5'Flank|C12orf66_uc009zql.2_Intron	NM_152440	NP_689653	Q96MD2	CL066_HUMAN	hypothetical protein LOC144577	61										ovary(1)	1						GGCCGCGGCCAGGTGCGCCAA	0.637													6	15					0	0	0.006214	0	0		C	64615836	C	C	64615836	3	2	128	1	0	0	0	0	1	0	0	0	1712	188	7	5	1167	5	C12orf66	12	64615836	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	20	64615836	69236059	720	71008											
LEMD3	23592	broad.mit.edu	37	chr12	65639549	65639549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagtagacaaaaattcaCgtgaggtaaagtaacttttg	15	12	9	5	1	1	2	1	1	0	1	1	2	1	2	0	1	2	4	0	1	6	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:65639549C>T	uc001ssl.1	+	11	2494	c.2488C>T	c.(2488-2490)CGT>TGT	p.R830C	LEMD3_uc009zqo.1_Missense_Mutation_p.R829C	NM_014319	NP_055134	Q9Y2U8	MAN1_HUMAN	LEM domain containing 3	830	Interaction with SMAD1, SMAD2, SMAD3 and SMAD5.				negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway	integral to nuclear inner membrane|membrane fraction	DNA binding|nucleotide binding|protein binding			central_nervous_system(3)|ovary(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0104)		CAAAAATTCACGTGAGGTAAA	0.323													38	123					0	0	0.019004	0	0		T	65639549	T	T	65639549	3	4	128	1	0	0	0	0	1	0	0	0	8737	536	19	1	2530	1	LEMD3	12	65639549	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1023713	65639549	68212346	721	71009											
CAPS2	84698	broad.mit.edu	37	chr12	75692742	75692742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctgcaagcatcacgtcCattactggaaaaatagaatg	14	10	7	10	1	2	1	1	0	1	1	4	2	3	2	1	1	3	2	1	1	6	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:75692742C>T	uc001sxk.3	-	11	1113	c.916G>A	c.(916-918)GGA>AGA	p.G306R	CAPS2_uc001sxm.3_Missense_Mutation_p.G74R|CAPS2_uc009zsa.2_Intron|CAPS2_uc001sxi.3_Intron|CAPS2_uc001sxj.3_Intron|CAPS2_uc001sxl.3_Missense_Mutation_p.G287R	NM_032606	NP_115995	Q9BXY5	CAYP2_HUMAN	calcyphosine 2	306							calcium ion binding			ovary(2)	2						GCATCACGTCCATTACTGGAA	0.323													15	53					0	0	0.020292	0	0		T	75692742	T	T	75692742	3	4	128	1	0	0	0	0	1	0	0	0	2641	603	21	4	789	4	CAPS2	12	75692742	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	10053193	75692742	58159153	722	71010											
CEP290	80184	broad.mit.edu	37	chr12	88477714	88477714	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggtcttcctcatgtttcttCacaatttctctttgctcctg	5	19	5	12	0	5	0	2	0	3	0	8	0	7	0	2	1	1	2	2	1	1	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:88477714C>T	uc001tar.2	-	36	5066	c.4722G>A	c.(4720-4722)GTG>GTA	p.V1574V	CEP290_uc001taq.2_Silent_p.V634V	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1574	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						CATGTTTCTTCACAATTTCTC	0.308													6	17					0	0	0.001984	0	0		T	88477714	T	T	88477714	2	4	128	1	0	0	0	0	0	0	0	1	3256	813	29	4		4	CEP290	12	88477714	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	12784972	88477714	45374181	723	71011											
CDK17	5128	broad.mit.edu	37	chr12	96692660	96692660	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attataccttctcttatagcTgtgcagggtgcaccttcttc	7	16	7	11	0	2	0	0	0	2	0	4	0	2	0	2	1	4	3	2	1	4	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:96692660T>G	uc001tep.1	-	7	1191	c.702A>C	c.(700-702)ACA>ACC	p.T234T	CDK17_uc009ztk.2_Silent_p.T234T|CDK17_uc010svb.1_Silent_p.T181T	NM_002595	NP_002586	Q00537	CDK17_HUMAN	PCTAIRE protein kinase 2	234	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity			ovary(3)|lung(2)|kidney(1)|central_nervous_system(1)	7						CTCTTATAGCTGTGCAGGGTG	0.323													41	136					0	0	0.007835	0	0		G	96692660	G	G	96692660	2	3	128	1	0	0	0	0	0	0	0	1	3136	1567	55	5		5	CDK17	12	96692660	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	8214946	96692660	37159235	724	71012											
TXNRD1	7296	broad.mit.edu	37	chr12	104705167	104705167	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatcatcattggaggtggcTcaggaggtctggcagctgct	7	12	14	8	0	4	0	3	0	1	0	4	2	4	2	0	6	2	4	0	6	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:104705167T>C	uc010swk.1	+	5	536	c.514T>C	c.(514-516)TCA>CCA	p.S172P	TXNRD1_uc010swl.1_Missense_Mutation_p.S22P|TXNRD1_uc010swm.1_Missense_Mutation_p.S74P|TXNRD1_uc010swn.1_Missense_Mutation_p.S22P|TXNRD1_uc010swo.1_Missense_Mutation_p.S22P|TXNRD1_uc010swp.1_Intron|TXNRD1_uc010swq.1_Missense_Mutation_p.S72P|TXNRD1_uc001tku.2_RNA|TXNRD1_uc009zun.2_Missense_Mutation_p.S88P|TXNRD1_uc001tko.1_RNA|TXNRD1_uc001tkp.1_RNA|TXNRD1_uc001tkv.1_RNA	NM_001093771	NP_001087240	Q16881	TRXR1_HUMAN	thioredoxin reductase 1 isoform 3	172					cell redox homeostasis|cellular lipid metabolic process|electron transport chain|nucleobase, nucleoside and nucleotide interconversion|signal transduction|transport	cytosol|nucleolus	electron carrier activity|flavin adenine dinucleotide binding|NADP binding|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity				0						TGGAGGTGGCTCAGGAGGTCT	0.478													9	32					0	0	0.013537	0	0		C	104705167	C	C	104705167	3	2	128	1	0	0	0	0	1	0	0	0	16833	1551	54	3	546	3	TXNRD1	12	104705167	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	8012507	104705167	29146728	725	71013											
ALDH1L2	160428	broad.mit.edu	37	chr12	105464436	105464436	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggactatcaattatatccaTgggaatgaactgagtgcaga	14	11	10	6	0	1	3	1	2	0	1	2	5	2	5	1	2	2	1	1	2	6	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:105464436T>C	uc001tlc.2	-	3	467	c.340A>G	c.(340-342)ATG>GTG	p.M114V	ALDH1L2_uc009zup.2_RNA	NM_001034173	NP_001029345	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	114	GART.				10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1						ATTATATCCATGGGAATGAAC	0.478													36	94					0	0	0.015359	0	0		C	105464436	C	C	105464436	3	2	128	1	0	0	0	0	1	0	0	0	495	1464	51	3	2515	3	ALDH1L2	12	105464436	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	759269	105464436	28387459	726	71014											
KIAA1033	23325	broad.mit.edu	37	chr12	105540264	105540264	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaattatgagaaacattcAtatatttgtgtcccgatacc	15	13	6	7	1	1	2	1	1	0	2	2	4	2	2	2	0	2	0	2	0	6	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:105540264A>G	uc001tld.2	+	23	2456	c.2369A>G	c.(2368-2370)CAT>CGT	p.H790R	KIAA1033_uc010swr.1_Missense_Mutation_p.H791R|KIAA1033_uc010sws.1_Missense_Mutation_p.H602R	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	790					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						AGAAACATTCATATATTTGTG	0.294													4	99					0	0	0.014758	0	0		G	105540264	G	G	105540264	3	3	128	1	0	0	0	0	1	0	0	0	8222	217	8	3	2459	3	KIAA1033	12	105540264	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	75828	105540264	28311631	727	71015											
CKAP4	10970	broad.mit.edu	37	chr12	106633328	106633328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggctctcggtctggcgcGcagaagccacctgcatggag	7	6	14	14	3	2	1	0	0	2	1	3	2	2	2	3	4	2	3	3	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:106633328G>A	uc001tlk.2	-	2	1367	c.1283C>T	c.(1282-1284)GCG>GTG	p.A428V		NM_006825	NP_006816	Q07065	CKAP4_HUMAN	cytoskeleton-associated protein 4	428	Potential.					ER-Golgi intermediate compartment membrane|integral to membrane|membrane fraction					0						GGTCTGGCGCGCAGAAGCCAC	0.662													36	91					0	0	0.017118	0	0		A	106633328	A	A	106633328	3	1	128	1	0	0	0	0	1	0	0	0	3447	1087	38	1	529	1	CKAP4	12	106633328	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1093064	106633328	27218567	728	71016											
CUX2	23316	broad.mit.edu	37	chr12	111779614	111779614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgtcgctatggcctcatcaGcaccggctcagacagtgagt	9	8	11	13	3	3	2	3	1	0	1	4	2	3	2	2	2	1	3	2	2	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:111779614G>A	uc001tsa.1	+	21	3569	c.3416G>A	c.(3415-3417)AGC>AAC	p.S1139N		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	1139						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						GGCCTCATCAGCACCGGCTCA	0.652													39	141					0	0	0.011902	0	0		A	111779614	A	A	111779614	3	1	128	1	0	0	0	0	1	0	0	0	4068	971	34	2	3498	2	CUX2	12	111779614	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5146286	111779614	22072281	729	71017											
BRAP	8315	broad.mit.edu	37	chr12	112121078	112121078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagctgaggctagtgtcGtcttttttatctcctcatca	7	16	7	11	1	4	1	2	1	2	0	6	1	4	1	1	1	2	2	1	1	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:112121078G>A	uc001tsn.3	-	2	310	c.116C>T	c.(115-117)ACG>ATG	p.T39M	BRAP_uc010syh.1_5'Flank|BRAP_uc009zvv.2_Missense_Mutation_p.T9M|ACAD10_uc009zvw.2_5'Flank|ACAD10_uc001tso.3_5'Flank|ACAD10_uc001tsp.2_5'Flank|ACAD10_uc009zvx.2_5'Flank|ACAD10_uc001tsq.2_5'Flank	NM_006768	NP_006759	Q7Z569	BRAP_HUMAN	BRCA1 associated protein	39					MAPKKK cascade|negative regulation of signal transduction|Ras protein signal transduction	cytoplasm|ubiquitin ligase complex	identical protein binding|nuclear localization sequence binding|nucleotide binding|ubiquitin-protein ligase activity|zinc ion binding			lung(1)	1						GGCTAGTGTCGTCTTTTTTAT	0.433													79	204					0	0	0.01441	0	0		A	112121078	A	A	112121078	3	1	128	1	0	0	0	0	1	0	0	0	1500	1145	40	1	1706	1	BRAP	12	112121078	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	341464	112121078	21730817	730	71018											
ACAD10	80724	broad.mit.edu	37	chr12	112182668	112182668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccagaagcttccccagctCatacctcaaggggaggtctg	9	9	10	13	0	3	1	2	0	1	1	5	2	5	2	4	3	3	2	4	3	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:112182668C>T	uc001tsq.2	+	13	2136	c.1936C>T	c.(1936-1938)CAT>TAT	p.H646Y	ACAD10_uc001tsp.2_Missense_Mutation_p.H646Y|ACAD10_uc009zvx.2_Missense_Mutation_p.H677Y|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	646							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						TTCCCCAGCTCATACCTCAAG	0.572													22	74					0	0	0.01892	0	0		T	112182668	T	T	112182668	3	4	128	1	0	0	0	0	1	0	0	0	108	826	29	4	2079	4	ACAD10	12	112182668	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	61590	112182668	21669227	731	71019											
IQCD	115811	broad.mit.edu	37	chr12	113633445	113633445	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccttgtcctttgctttgcCcttgccccgcttcttcttgg	0	18	7	16	1	2	0	0	0	2	0	4	0	4	0	5	1	3	2	5	1	0	7	rs117969623	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:113633445C>A	uc001tuu.2	-	3	1151	c.979G>T	c.(979-981)GGC>TGC	p.G327C		NM_138451	NP_612460	Q96DY2	IQCD_HUMAN	IQ motif containing D	Error:Variant_position_missing_in_Q96DY2_after_alignment										ovary(1)	1						tttgctttgcccttgccccgc	0.378													12	217					1.49906e-05	1.53964e-05	0.020292	1	0		A	113633445	A	A	113633445	3	1	128	1	0	0	0	0	1	0	0	0	7821	623	22	5	68	5	IQCD	12	113633445	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1450777	113633445	20218450	732	71020											
PLBD2	196463	broad.mit.edu	37	chr12	113821994	113821994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgtgtgctggagtgggtaCgcaacatcgtggccaaccgc	7	8	15	11	3	0	0	0	0	0	0	1	1	0	1	2	3	4	4	2	3	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:113821994C>T	uc001tve.2	+	7	1077	c.1042C>T	c.(1042-1044)CGC>TGC	p.R348C	PLBD2_uc001tvf.2_Missense_Mutation_p.R348C	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	348					lipid catabolic process	lysosomal lumen	hydrolase activity				0						GGAGTGGGTACGCAACATCGT	0.617													14	47					0	0	0.004007	0	0		T	113821994	T	T	113821994	3	4	128	1	0	0	0	0	1	0	0	0	12045	536	19	1	1068	1	PLBD2	12	113821994	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	188549	113821994	20029901	733	71021											
TAOK3	51347	broad.mit.edu	37	chr12	118636867	118636867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacctactttcttatgcaCgacggaggagctggaattga	12	10	11	8	2	1	1	0	1	1	0	1	6	1	4	1	3	4	2	1	3	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:118636867C>T	uc001twx.2	-	13	1478	c.1183G>A	c.(1183-1185)GTG>ATG	p.V395M	TAOK3_uc001tww.2_Missense_Mutation_p.V225M|TAOK3_uc001twy.3_Missense_Mutation_p.V395M	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	395					MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TTCTTATGCACGACGGAGGAG	0.468													27	125					0	0	0.012213	0	0		T	118636867	T	T	118636867	3	4	128	1	0	0	0	0	1	0	0	0	15574	536	19	1	1549	1	TAOK3	12	118636867	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4814873	118636867	15215028	734	71022											
SUDS3	64426	broad.mit.edu	37	chr12	118852224	118852224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcttcgtgatccgccggCgctcagctgcttgactttct	3	13	11	14	4	3	2	1	2	2	0	5	2	4	2	2	2	2	4	2	2	0	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:118852224C>T	uc001twz.2	+	12	1112	c.973C>T	c.(973-975)CGC>TGC	p.R325C		NM_022491	NP_071936	Q9H7L9	SDS3_HUMAN	suppressor of defective silencing 3	325					chromatin modification|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	Sin3 complex	histone deacetylase binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GATCCGCCGGCGCTCAGCTGC	0.488													6	10					0	0	0.001984	0	0		T	118852224	T	T	118852224	3	4	128	1	0	0	0	0	1	0	0	0	15392	768	27	1	1019	1	SUDS3	12	118852224	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	215357	118852224	14999671	735	71023											
CIT	11113	broad.mit.edu	37	chr12	120128233	120128233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgatgtgctcgttgtacGtgggtgggcctcgcttgttg	2	15	17	7	3	0	1	0	1	0	0	2	1	0	1	1	3	2	5	1	3	1	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:120128233G>A	uc001txi.1	-	46	5836	c.5783C>T	c.(5782-5784)ACG>ATG	p.T1928M	CIT_uc001txh.1_Missense_Mutation_p.T1446M|CIT_uc001txj.1_Missense_Mutation_p.T1970M	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1928					intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		CTCGTTGTACGTGGGTGGGCC	0.662													11	20					0	0	0.008291	0	0		A	120128233	A	A	120128233	3	1	128	1	0	0	0	0	1	0	0	0	3441	1145	40	1	308	1	CIT	12	120128233	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1276009	120128233	13723662	736	71024											
GCN1L1	10985	broad.mit.edu	37	chr12	120591043	120591043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagggggtggagagggcagCgatgagcttggcaacaatgg	10	5	21	5	1	0	2	0	1	0	1	0	5	0	3	0	7	3	3	0	7	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:120591043C>T	uc001txo.2	-	33	4049	c.4036G>A	c.(4036-4038)GCT>ACT	p.A1346T		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	1346	HEAT 6.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GAGAGGGCAGCGATGAGCTTG	0.597													16	69					0	0	0.007413	0	0		T	120591043	T	T	120591043	3	4	128	1	0	0	0	0	1	0	0	0	6314	768	27	1	4083	1	GCN1L1	12	120591043	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	462810	120591043	13260852	737	71025											
HNF1A	6927	broad.mit.edu	37	chr12	121432117	121432118	+	Frame_Shift_Del	DEL	GC	-	-																															gccatggacacgtacagcggGccccccccagggccaggccc																								rs56348580	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:121432117_121432118delGC	uc001tzg.2	+	4	887_888	c.864_865delGC	c.(862-867)GGGCCCfs	p.G288fs	HNF1A_uc001tze.1_Frame_Shift_Del_p.G288fs|HNF1A_uc001tzf.2_Frame_Shift_Del_p.G288fs|HNF1A_uc010szn.1_Frame_Shift_Del_p.G288fs	NM_000545	NP_000536	P20823	HNF1A_HUMAN	hepatic nuclear factor-1-alpha	288_289					glucose homeostasis|glucose import|insulin secretion|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|renal glucose absorption	cytoplasm|nucleus|protein complex	DNA binding|protein dimerization activity|protein heterodimerization activity|protein homodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			liver(92)|large_intestine(15)|endometrium(6)|breast(2)|lung(1)	116	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CGTACAGCGGGCCCCCCCCAGG	0.663									Hepatic_Adenoma_Familial_Clustering_of				7	14	---	---	---	---						.	-	121432118	-	-	121432117	7	5	128	1	0	1	0	1	0	0	0	0	7267	1190	42	0	878	0	HNF1A	12	121432117	Frame_Shift_Del	DEL	GC	TCGA-CG-4306-01A-01D-1158-08	841074	121432117	12419778	738	71026											
CCDC62	84660	broad.mit.edu	37	chr12	123286259	123286259	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccacccgagtaacttcatAattgaagccccaggccacat	12	8	7	14	1	1	1	1	1	0	0	1	2	1	1	5	1	3	1	5	1	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:123286259A>G	uc001udc.2	+	9	1711	c.1566A>G	c.(1564-1566)ATA>ATG	p.I522M	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Missense_Mutation_p.I522M|CCDC62_uc001ude.2_Missense_Mutation_p.I283M	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	522						cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		GTAACTTCATAATTGAAGCCC	0.493													80	231					0	0	0.01441	0	0		G	123286259	G	G	123286259	3	3	128	1	0	0	0	0	1	0	0	0	2836	352	13	3	1600	3	CCDC62	12	123286259	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	1854142	123286259	10565636	739	71027											
ABCB9	23457	broad.mit.edu	37	chr12	123433334	123433334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctgggagaccaggtcgCtgaccatggtggtgtccgag	6	10	16	9	2	1	2	0	1	1	1	3	4	2	2	3	4	0	2	3	4	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:123433334C>T	uc001udm.3	-	5	1200	c.890G>A	c.(889-891)AGC>AAC	p.S297N	ABCB9_uc009zxr.2_Intron|ABCB9_uc001udo.3_Missense_Mutation_p.S297N|ABCB9_uc010taj.1_Missense_Mutation_p.S297N|ABCB9_uc001udp.2_Missense_Mutation_p.S297N|ABCB9_uc001udq.2_Missense_Mutation_p.S79N|ABCB9_uc001udr.2_Missense_Mutation_p.S297N	NM_019625	NP_062571	Q9NP78	ABCB9_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	297	ABC transmembrane type-1.				positive regulation of T cell mediated cytotoxicity|protein transport	lysosomal membrane|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.84e-05)|Epithelial(86;0.000152)|BRCA - Breast invasive adenocarcinoma(302;0.111)		GACCAGGTCGCTGACCATGGT	0.617													4	76					0	0	0.009096	0	0		T	123433334	T	T	123433334	3	4	128	1	0	0	0	0	1	0	0	0	48	797	28	2	1442	2	ABCB9	12	123433334	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	147075	123433334	10418561	740	71028											
MPHOSPH9	10198	broad.mit.edu	37	chr12	123687402	123687402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatttttccaagagtccaccGgagaagcttttgtgtgtgag	9	13	12	7	1	0	3	0	1	0	2	2	5	2	3	3	1	1	1	3	1	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:123687402G>A	uc001uel.2	-	6	1201	c.1094C>T	c.(1093-1095)CCG>CTG	p.P365L	MPHOSPH9_uc010tal.1_Intron|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Intron	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	365					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		AGAGTCCACCGGAGAAGCTTT	0.408													7	323					0	0	0.001984	0	0		A	123687402	A	A	123687402	3	1	128	1	0	0	0	0	1	0	0	0	9746	1116	39	1	2061	1	MPHOSPH9	12	123687402	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	254068	123687402	10164493	741	71029											
C12orf65	91574	broad.mit.edu	37	chr12	123741554	123741554	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagctacttaaagaactgtgGgagtcaagtaaaaaggtcca	17	8	10	6	0	1	1	1	0	0	1	2	2	2	2	1	2	3	2	1	2	9	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:123741554G>T	uc001uen.2	+	3	743	c.477G>T	c.(475-477)TGG>TGT	p.W159C	C12orf65_uc001ueo.2_RNA|C12orf65_uc010tan.1_Missense_Mutation_p.W159C	NM_152269	NP_689482	Q9H3J6	CL065_HUMAN	hypothetical protein LOC91574	159	Potential.					mitochondrion	translation release factor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000595)|Epithelial(86;0.00199)		AAGAACTGTGGGAGTCAAGTA	0.313													11	37					0.000673444	0.000684264	0.008291	1	0		T	123741554	T	T	123741554	3	4	128	1	0	0	0	0	1	0	0	0	1711	1241	43	5	483	5	C12orf65	12	123741554	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	54152	123741554	10110341	742	71030											
DDX55	57696	broad.mit.edu	37	chr12	124102324	124102324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgccttcgtgcatcgctgcGgtcgcacagctcgcattggc	4	10	13	14	5	0	0	0	0	0	0	4	0	0	0	1	2	4	5	1	2	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:124102324G>A	uc001ufi.2	+	11	1093	c.1069G>A	c.(1069-1071)GGT>AGT	p.G357S	DDX55_uc001ufh.2_Missense_Mutation_p.G210S|DDX55_uc001ufj.1_Missense_Mutation_p.G210S|DDX55_uc001ufk.2_Missense_Mutation_p.G210S|DDX55_uc001ufl.2_5'Flank	NM_020936	NP_065987	Q8NHQ9	DDX55_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 55	357	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000142)|Epithelial(86;0.000637)|all cancers(50;0.00772)		GCATCGCTGCGGTCGCACAGC	0.517													26	115					0	0	0.007291	0	0		A	124102324	A	A	124102324	3	1	128	1	0	0	0	0	1	0	0	0	4376	1116	39	1	1111	1	DDX55	12	124102324	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	360770	124102324	9749571	743	71031											
NCOR2	9612	broad.mit.edu	37	chr12	124812140	124812140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagccccatgttggtgctgGcatgttcctgcaccgcctgg	4	10	12	15	1	0	0	0	0	0	0	1	0	1	0	6	3	3	5	6	3	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:124812140G>A	uc010tay.1	-	47	7184	c.7028C>T	c.(7027-7029)GCC>GTC	p.A2343V	NCOR2_uc010taz.1_Missense_Mutation_p.A2327V|NCOR2_uc010tax.1_Intron	NM_006312	NP_006303	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 1	2344					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GTTGGTGCTGGCATGTTCCTG	0.512													7	41					0	0	0.006214	0	0		A	124812140	A	A	124812140	3	1	128	1	0	0	0	0	1	0	0	0	10255	1203	42	2	558	2	NCOR2	12	124812140	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	709816	124812140	9039755	744	71032											
SCARB1	949	broad.mit.edu	37	chr12	125292364	125292364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggcacgggcagaagccttCgttgggtgggtagatggacc	8	7	17	9	2	0	2	0	0	0	2	1	3	0	3	2	5	1	4	2	5	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:125292364C>T	uc001ugo.3	-	7	1205	c.952G>A	c.(952-954)GAA>AAA	p.E318K	SCARB1_uc001ugn.3_Missense_Mutation_p.E318K|SCARB1_uc001ugm.3_Missense_Mutation_p.E318K|SCARB1_uc010tbd.1_Missense_Mutation_p.E318K|SCARB1_uc010tbe.1_Missense_Mutation_p.E277K|SCARB1_uc001ugp.3_Missense_Mutation_p.E318K	NM_005505	NP_005496	Q8WTV0	SCRB1_HUMAN	scavenger receptor class B, member 1 isoform 1	318	Extracellular (Potential).				adhesion to symbiont|cell adhesion|cholesterol efflux|cholesterol homeostasis|cholesterol import|detection of lipopolysaccharide|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|lipopolysaccharide transport|lipoprotein metabolic process|positive regulation of cholesterol storage|positive regulation of endothelial cell migration|positive regulation of nitric-oxide synthase activity|recognition of apoptotic cell|reverse cholesterol transport|triglyceride homeostasis|wound healing	caveola	1-phosphatidylinositol binding|apolipoprotein A-I binding|high-density lipoprotein particle receptor activity|lipopolysaccharide receptor activity|low-density lipoprotein particle binding|phosphatidylserine binding|transporter activity			kidney(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000116)|Epithelial(86;0.000415)|all cancers(50;0.00395)	Phosphatidylserine(DB00144)	CAGAAGCCTTCGTTGGGTGGG	0.587													24	63					0	0	0.005443	0	0		T	125292364	T	T	125292364	3	4	128	1	0	0	0	0	1	0	0	0	13906	893	31	1	725	1	SCARB1	12	125292364	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	480224	125292364	8559531	745	71033											
BRI3BP	140707	broad.mit.edu	37	chr12	125509930	125509930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagactgctcaacatccGtctcaaccgggtgctcgaga	9	8	11	13	3	3	2	3	0	1	2	6	3	4	2	2	2	4	2	2	2	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:125509930G>A	uc001uha.1	+	3	853	c.710G>A	c.(709-711)CGT>CAT	p.R237H		NM_080626	NP_542193	Q8WY22	BRI3B_HUMAN	BRI3-binding protein	237	Potential.					integral to membrane|mitochondrial outer membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.35e-05)|Epithelial(86;0.000426)|all cancers(50;0.00576)		CTCAACATCCGTCTCAACCGG	0.537													6	27					0	0	0.00308	0	0		A	125509930	A	A	125509930	3	1	128	1	0	0	0	0	1	0	0	0	1516	1145	40	1	720	1	BRI3BP	12	125509930	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	217566	125509930	8341965	746	71034											
TMEM132B	114795	broad.mit.edu	37	chr12	126137090	126137090	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcagctcgtagctggcaTgtctctctccctgcagccac	6	10	10	15	1	2	0	0	0	2	0	5	0	2	0	2	1	5	6	2	1	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:126137090T>C	uc001uhe.1	+	8	2011	c.2003T>C	c.(2002-2004)ATG>ACG	p.M668T	TMEM132B_uc001uhf.1_Missense_Mutation_p.M180T	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	668	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		GTAGCTGGCATGTCTCTCTCC	0.597													21	82					0	0	0.01892	0	0		C	126137090	C	C	126137090	3	2	128	1	0	0	0	0	1	0	0	0	16071	1464	51	3	2033	3	TMEM132B	12	126137090	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	627160	126137090	7714805	747	71035											
GLT1D1	144423	broad.mit.edu	37	chr12	129383782	129383782	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttttgttcatttactagaTttgctgtcgctttcacagag	8	19	7	7	1	2	2	2	0	0	2	3	2	2	2	0	0	2	3	0	0	2	8			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:129383782T>G	uc010tbh.1	+	4	301	c.292T>G	c.(292-294)TTT>GTT	p.F98V	GLT1D1_uc001uhx.1_Missense_Mutation_p.F109V|GLT1D1_uc001uhy.1_Intron	NM_144669	NP_653270	Q96MS3	GL1D1_HUMAN	glycosyltransferase 1 domain containing 1	109					biosynthetic process	extracellular region	transferase activity, transferring glycosyl groups				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.97e-06)|Epithelial(86;3.97e-05)|all cancers(50;0.00019)		ATTTACTAGATTTGCTGTCGC	0.363													47	158					0	0	0.01441	0	0		G	129383782	G	G	129383782	3	3	128	1	0	0	0	0	1	0	0	0	6480	1507	52	5	339	5	GLT1D1	12	129383782	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	3246692	129383782	4468113	748	71036											
TMEM132D	121256	broad.mit.edu	37	chr12	130184752	130184752	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagctcggccacgcacaGccccaggtccccctgcagcc	6	4	9	22	2	0	0	0	0	0	0	3	0	2	0	7	2	4	3	7	2	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:130184752G>A	uc009zyl.1	-	2	899	c.571C>T	c.(571-573)CTG>TTG	p.L191L		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	191	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GCCACGCACAGCCCCAGGTCC	0.716													14	34					0	0	0.003163	0	0		A	130184752	A	A	130184752	2	1	128	1	0	0	0	0	0	0	0	1	16072	962	34	2		2	TMEM132D	12	130184752	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	800970	130184752	3667143	749	71037											
GPR133	283383	broad.mit.edu	37	chr12	131569208	131569208	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcaggtggtcccgctggaGgtaagagccaggcctcaggg	8	6	17	10	1	1	1	1	0	0	1	2	2	2	2	3	6	2	3	3	6	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:131569208G>T	uc001uit.3	+	15	2230	c.1671G>T	c.(1669-1671)GAG>GAT	p.E557D	GPR133_uc010tbm.1_Missense_Mutation_p.E589D|GPR133_uc009zyo.2_Missense_Mutation_p.E7D|GPR133_uc001uiv.1_Missense_Mutation_p.E76D	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	557	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		TCCCGCTGGAGGTAAGAGCCA	0.662													4	61					0.00909568	0.00917862	0.009096	1	0		T	131569208	T	T	131569208	3	4	128	1	0	0	0	0	1	0	0	0	6658	1014	35	5	1729	5	GPR133	12	131569208	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1384456	131569208	2282687	750	71038											
ULK1	8408	broad.mit.edu	37	chr12	132394519	132394519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctcctggccctactgcaaCgcaaccacaaggaccgcatg	10	6	9	16	2	0	0	0	0	0	0	1	1	1	1	4	2	5	4	4	2	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:132394519C>T	uc001uje.2	+	10	1049	c.781C>T	c.(781-783)CGC>TGC	p.R261C		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	261	Protein kinase.				autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		CCTACTGCAACGCAACCACAA	0.687													9	50					0	0	0.008291	0	0		T	132394519	T	T	132394519	3	4	128	1	0	0	0	0	1	0	0	0	17001	536	19	1	819	1	ULK1	12	132394519	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	825311	132394519	1457376	751	71039											
P2RX2	22953	broad.mit.edu	37	chr12	133195509	133195509	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgcccaaggtgatcgtggTgaggaaccggcgcctggggg	7	5	19	10	4	0	2	0	2	0	0	1	4	0	3	3	6	1	0	3	6	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:133195509T>C	uc001ukj.1	+	1	107	c.107T>C	c.(106-108)GTG>GCG	p.V36A	P2RX2_uc001uki.1_Missense_Mutation_p.V36A|P2RX2_uc001ukk.1_Missense_Mutation_p.V36A|P2RX2_uc001ukl.1_Missense_Mutation_p.V36A|P2RX2_uc001ukm.1_Splice_Site_p.V35_splice|P2RX2_uc001ukn.1_Splice_Site_p.V35_splice|P2RX2_uc009zyt.1_Missense_Mutation_p.V36A|P2RX2_uc001uko.1_Missense_Mutation_p.V36A	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	36	Cytoplasmic (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		GTGATCGTGGTGAGGAACCGG	0.433													14	36					0	0	0.003163	0	0		C	133195509	C	C	133195509	3	2	128	1	0	0	0	0	1	0	0	0	11359	1710	59	3	109	3	P2RX2	12	133195509	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	800990	133195509	656386	752	71040											
POLE	5426	broad.mit.edu	37	chr12	133257271	133257271	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatcttcatctaaaatctcGgtctacaagagaatcagtca	14	13	5	9	1	7	1	3	0	4	1	8	2	7	1	0	1	1	0	0	1	6	4	rs146986360	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr12:133257271G>A	uc001uks.1	-	3	251	c.207C>T	c.(205-207)ACC>ACT	p.T69T	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Intron	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	69					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CTAAAATCTCGGTCTACAAGA	0.428								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					28	88					0	0	0.007291	0	0		A	133257271	A	A	133257271	2	1	128	1	0	0	0	0	0	0	0	1	12215	1103	39	1		1	POLE	12	133257271	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	61762	133257271	594624	753	71041											
ATP12A	479	broad.mit.edu	37	chr13	25262530	25262530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacccctcccaagcagaCgcctgagatcgtcaagttcc	9	7	7	18	2	2	2	2	1	0	2	5	3	4	2	6	0	1	2	6	0	2	1	rs146927457		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:25262530C>T	uc001upp.2	+	4	489	c.302C>T	c.(301-303)ACG>ATG	p.T101M	ATP12A_uc010aaa.2_Missense_Mutation_p.T101M	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	101	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	CCCAAGCAGACGCCTGAGATC	0.587													197	592					0	0	0.01441	0	0		T	25262530	T	T	25262530	3	4	128	1	0	0	0	0	1	0	0	0	1123	536	19	1	316	1	ATP12A	13	25262530	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08		25262530	89907348	754	71042											
ATP12A	479	broad.mit.edu	37	chr13	25265317	25265317	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccctgaagtatcaagtcCtggactccatcatcttcctc	8	13	6	14	0	3	1	2	1	1	0	8	2	7	2	4	1	0	1	4	1	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:25265317C>A	uc001upp.2	+	8	1184	c.997C>A	c.(997-999)CTG>ATG	p.L333M	ATP12A_uc010aaa.2_Missense_Mutation_p.L339M	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	333	Lumenal (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	GTATCAAGTCCTGGACTCCAT	0.527													30	51					2.14196e-07	2.22576e-07	0.007291	1	0		A	25265317	A	A	25265317	3	1	128	1	0	0	0	0	1	0	0	0	1123	680	24	5	1045	5	ATP12A	13	25265317	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2787	25265317	89904561	755	71043											
ATP12A	479	broad.mit.edu	37	chr13	25266681	25266681	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctcggacaagactgggAcactgacccagaacaggatg	12	6	12	11	1	1	3	0	1	1	2	2	6	1	6	1	3	2	1	1	3	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:25266681A>G	uc001upp.2	+	9	1370	c.1183A>G	c.(1183-1185)ACA>GCA	p.T395A	ATP12A_uc010aaa.2_Missense_Mutation_p.T401A	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	395	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	CAAGACTGGGACACTGACCCA	0.532													26	75					0	0	0.004656	0	0		G	25266681	G	G	25266681	3	3	128	1	0	0	0	0	1	0	0	0	1123	275	10	3	1235	3	ATP12A	13	25266681	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	1364	25266681	89903197	756	71044											
CENPJ	55835	broad.mit.edu	37	chr13	25478079	25478079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtacctgagtttttccaagGcactttctcgttcaatgcga	8	14	8	11	3	2	1	1	1	1	0	4	2	3	1	2	1	2	4	2	1	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:25478079G>A	uc001upt.3	-	8	3063	c.2810C>T	c.(2809-2811)GCC>GTC	p.A937V	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA|CENPJ_uc001upu.2_5'UTR	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	937					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		TTTTTCCAAGGCACTTTCTCG	0.353													60	229					0	0	0.01441	0	0		A	25478079	A	A	25478079	3	1	128	1	0	0	0	0	1	0	0	0	3237	1203	42	2	1246	2	CENPJ	13	25478079	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	211398	25478079	89691799	757	71045											
RASL11A	387496	broad.mit.edu	37	chr13	27845850	27845850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggatactcccgggggcGtccaggtaagaaccgccagg	9	5	14	13	3	0	1	0	0	0	1	3	2	3	2	5	5	2	1	5	5	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:27845850G>A	uc001urd.1	+	3	874	c.256G>A	c.(256-258)GTC>ATC	p.V86I		NM_206827	NP_996563	Q6T310	RSLBA_HUMAN	RAS-like, family 11, member A	86	Small GTPase-like.				positive regulation of transcription from RNA polymerase I promoter|small GTPase mediated signal transduction|transcription, DNA-dependent	membrane|nucleolus	GTP binding|GTPase activity			breast(1)	1		Lung SC(185;0.0161)	Colorectal(13;0.00042)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.0173)|GBM - Glioblastoma multiforme(144;0.0557)|OV - Ovarian serous cystadenocarcinoma(117;0.152)|Epithelial(112;0.164)		TCCCGGGGGCGTCCAGGTAAG	0.622											OREG0022312	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	103					0	0	0.013726	0	0		A	27845850	A	A	27845850	3	1	128	1	0	0	0	0	1	0	0	0	13106	1145	40	1	266	1	RASL11A	13	27845850	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2367771	27845850	87324028	758	71046											
UBL3	5412	broad.mit.edu	37	chr13	30341433	30341433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actctctccagtcttctcacGattcctctgacctagggaaa	9	12	6	14	1	4	1	1	1	4	0	8	3	6	2	3	1	0	0	3	1	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:30341433G>A	uc001usp.2	-	5	1458	c.313C>T	c.(313-315)CGT>TGT	p.R105C		NM_007106	NP_009037	O95164	UBL3_HUMAN	ubiquitin-like 3 precursor	105						intracellular|plasma membrane					0		Lung SC(185;0.0281)		all cancers(112;0.0598)|GBM - Glioblastoma multiforme(144;0.142)|OV - Ovarian serous cystadenocarcinoma(117;0.147)		GTCTTCTCACGATTCCTCTGA	0.423													29	92					0	0	0.008361	0	0		A	30341433	A	A	30341433	3	1	128	1	0	0	0	0	1	0	0	0	16912	1058	37	1	44	1	UBL3	13	30341433	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2495583	30341433	84828445	759	71047											
HSPH1	10808	broad.mit.edu	37	chr13	31712653	31712653	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccatcacttcattaacaGacttctccacttttttcatt	10	18	1	12	0	4	1	3	0	1	1	6	1	5	1	2	0	1	0	2	0	1	8			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:31712653G>T	uc001utj.2	-	17	2659	c.2261C>A	c.(2260-2262)TCT>TAT	p.S754Y	HSPH1_uc001utk.2_Missense_Mutation_p.S710Y|HSPH1_uc010aaw.2_Missense_Mutation_p.S713Y|HSPH1_uc001utl.2_Missense_Mutation_p.S756Y|HSPH1_uc010tds.1_Missense_Mutation_p.S678Y	NM_006644	NP_006635	Q92598	HS105_HUMAN	heat shock 105kD	754					positive regulation of MHC class I biosynthetic process|positive regulation of NK T cell activation|response to unfolded protein	cytoplasm|extracellular region	ATP binding				0		Lung SC(185;0.0257)		all cancers(112;0.00385)|Epithelial(112;0.0328)|OV - Ovarian serous cystadenocarcinoma(117;0.0375)|GBM - Glioblastoma multiforme(144;0.125)		TTCATTAACAGACTTCTCCAC	0.343													72	205					3.37205e-40	3.73797e-40	0.01441	1	0		T	31712653	T	T	31712653	3	4	128	1	0	0	0	0	1	0	0	0	7447	942	33	5	323	5	HSPH1	13	31712653	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1371220	31712653	83457225	760	71048											
STARD13	90627	broad.mit.edu	37	chr13	33685010	33685010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatctcagcctccacatacGagttacgagactgggccacc	10	7	10	14	2	1	1	1	0	1	1	3	4	2	2	4	2	3	1	4	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:33685010G>A	uc001uuw.2	-	11	2768	c.2642C>T	c.(2641-2643)TCG>TTG	p.S881L	STARD13_uc001uuu.2_Missense_Mutation_p.S873L|STARD13_uc001uuv.2_Missense_Mutation_p.S763L|STARD13_uc001uux.2_Missense_Mutation_p.S846L|STARD13_uc010tec.1_RNA	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	881					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		CTCCACATACGAGTTACGAGA	0.532													30	68					0	0	0.013726	0	0		A	33685010	A	A	33685010	3	1	128	1	0	0	0	0	1	0	0	0	15281	1059	37	1	715	1	STARD13	13	33685010	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1972357	33685010	81484868	761	71049											
SLC25A15	10166	broad.mit.edu	37	chr13	41381560	41381560	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtggctatgaactgagcCggtccttttttgcatcaggg	6	13	13	9	2	1	2	1	2	0	0	3	2	2	2	2	4	3	2	2	4	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:41381560C>A	uc001uxn.2	+	5	905	c.583C>A	c.(583-585)CGG>AGG	p.R195R	SUGT1L1_uc001uxp.1_Intron|SLC25A15_uc010tfb.1_Silent_p.R101R|SUGT1L1_uc001uxo.1_RNA	NM_014252	NP_055067	Q9Y619	ORNT1_HUMAN	mitochondrial ornithine transporter 1	195	Solcar 2.				cellular amino acid metabolic process|mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity				0		Lung NSC(96;3.55e-06)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;1.48e-08)|Epithelial(112;7.51e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000191)|GBM - Glioblastoma multiforme(144;0.00231)|BRCA - Breast invasive adenocarcinoma(63;0.0704)	L-Ornithine(DB00129)	TGAACTGAGCCGGTCCTTTTT	0.468													63	173					1.20466e-24	1.3167e-24	0.01441	1	0		A	41381560	A	A	41381560	2	1	128	1	0	0	0	0	0	0	0	1	14502	643	23	5		5	SLC25A15	13	41381560	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	7696550	41381560	73788318	762	71050											
ZC3H13	23091	broad.mit.edu	37	chr13	46541933	46541933	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgttctctctctcgttctcGttctcgcaatctatctcgat	4	18	5	14	5	6	0	0	0	6	0	13	1	6	0	0	0	0	4	0	0	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:46541933G>A	uc010tfw.1	-	14	4033	c.4027C>T	c.(4027-4029)CGA>TGA	p.R1343*	ZC3H13_uc001vaq.2_Translation_Start_Site|ZC3H13_uc001vas.1_Nonsense_Mutation_p.R1343*	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	1343	Potential.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		tctcgttctcgttctcgcaat	0.03													11	44					0	0	0.008291	0	0		A	46541933	A	A	46541933	4	1	128	1	0	0	0	0	0	1	0	0	17590	1153	40	1	679	1	ZC3H13	13	46541933	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5160373	46541933	68627945	763	71051											
CCDC70	83446	broad.mit.edu	37	chr13	52439918	52439918	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaaggaggataaggcctTctggaaagaggacaatgcct	13	7	14	7	0	1	1	0	0	1	1	1	6	1	6	2	6	1	0	2	6	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:52439918T>G	uc001vfu.3	+	2	700	c.404T>G	c.(403-405)TTC>TGC	p.F135C	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	135						extracellular region|plasma membrane					0		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)		GATAAGGCCTTCTGGAAAGAG	0.473													74	347					0	0	0.01441	0	0		G	52439918	G	G	52439918	3	3	128	1	0	0	0	0	1	0	0	0	2846	1783	62	5	406	5	CCDC70	13	52439918	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	5897985	52439918	62729960	764	71052											
UTP14C	9724	broad.mit.edu	37	chr13	52603136	52603136	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aattggctgagaggtctgagGctagtctgaaagtgtcagag	11	10	15	5	0	3	4	1	3	2	2	3	5	3	4	0	3	0	2	0	3	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:52603136G>T	uc001vgb.2	+	2	731	c.196G>T	c.(196-198)GCT>TCT	p.A66S	UTP14C_uc001vga.2_3'UTR|UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	66					cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)		GAGGTCTGAGGCTAGTCTGAA	0.463													102	334					3.19611e-63	3.56675e-63	0.01441	1	0		T	52603136	T	T	52603136	3	4	128	1	0	0	0	0	1	0	0	0	17122	1203	42	5	198	5	UTP14C	13	52603136	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	163218	52603136	62566742	765	71053											
SLITRK1	114798	broad.mit.edu	37	chr13	84455202	84455202	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaagtcctggaaggccccCgggtctatatctcgtaataa	10	11	9	11	2	3	0	1	0	2	0	5	1	4	1	3	3	0	1	3	3	6	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:84455202C>G	uc001vlk.2	-	1	1327	c.441G>C	c.(439-441)CCG>CCC	p.P147P		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	147	LRR 4.|Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GGAAGGCCCCCGGGTCTATAT	0.463													41	149					0	0	0.006999	0	0		G	84455202	G	G	84455202	2	3	128	1	0	0	0	0	0	0	0	1	14767	639	23	5		5	SLITRK1	13	84455202	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	31852066	84455202	30714676	766	71054											
UGGT2	55757	broad.mit.edu	37	chr13	96536762	96536762	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacatcctttaagtgaatatTatcaaggtcacagttgctgt	12	15	7	7	0	2	1	2	1	0	0	3	1	3	1	1	1	2	2	1	1	6	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:96536762T>C	uc001vmt.2	-	27	3381	c.3211A>G	c.(3211-3213)AAT>GAT	p.N1071D	UGGT2_uc001vmu.1_Missense_Mutation_p.N158D	NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	1071					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						AAGTGAATATTATCAAGGTCA	0.353													46	92					0	0	0.01441	0	0		C	96536762	C	C	96536762	3	2	128	1	0	0	0	0	1	0	0	0	16968	1754	61	3	1391	3	UGGT2	13	96536762	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	12081560	96536762	18633116	767	71055											
NALCN	259232	broad.mit.edu	37	chr13	101720335	101720335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagatcattgtaacttaaaaGctggtcctcctcagtggaat	13	12	8	8	0	2	1	2	0	0	1	4	2	4	2	2	2	2	2	2	2	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:101720335G>A	uc001vox.1	-	39	4570	c.4381C>T	c.(4381-4383)CTT>TTT	p.L1461F		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1461	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TAACTTAAAAGCTGGTCCTCC	0.368													25	80					0	0	0.004656	0	0		A	101720335	A	A	101720335	3	1	128	1	0	0	0	0	1	0	0	0	10166	971	34	2	859	2	NALCN	13	101720335	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5183573	101720335	13449543	768	71056											
COL4A2	1284	broad.mit.edu	37	chr13	111077160	111077160	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgggactgcagggacgtaAaggagacaagggtgaaaggg	13	3	18	7	2	0	2	0	1	0	1	0	5	0	4	1	5	1	2	1	5	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:111077160A>G	uc001vqx.2	+	5	549	c.260A>G	c.(259-261)AAA>AGA	p.K87R		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	87					angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			CAGGGACGTAAAGGAGACAAG	0.632													41	152					0	0	0.006999	0	0		G	111077160	G	G	111077160	3	3	128	1	0	0	0	0	1	0	0	0	3693	14	1	3	274	3	COL4A2	13	111077160	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	9356825	111077160	4092718	769	71057											
GAS6	2621	broad.mit.edu	37	chr13	114535710	114535710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggccacgctgaagggcaCgcacggcaagatgtcctgcc	8	6	13	14	3	0	2	0	1	0	1	1	2	1	2	3	3	1	4	3	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr13:114535710C>T	uc001vud.2	-	9	1003	c.850G>A	c.(850-852)GTG>ATG	p.V284M	GAS6_uc001vug.2_Translation_Start_Site|GAS6_uc001vuf.2_Missense_Mutation_p.V11M	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	327					cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				CTGAAGGGCACGCACGGCAAG	0.687													25	71					0	0	0.004656	0	0		T	114535710	T	T	114535710	3	4	128	1	0	0	0	0	1	0	0	0	6264	536	19	1	1214	1	GAS6	13	114535710	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3458550	114535710	634168	770	71058											
OR4Q3	441669	broad.mit.edu	37	chr14	20216082	20216082	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggtcatactagtcatcCagctgcctttctgtgggccc	6	12	10	13	0	3	0	2	0	1	0	4	0	4	0	3	2	4	2	3	2	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:20216082C>A	uc010tkt.1	+	1	496	c.496C>A	c.(496-498)CAG>AAG	p.Q166K		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	166	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ACTAGTCATCCAGCTGCCTTT	0.507													16	150					5.3912e-06	5.56728e-06	0.006122	1	0		A	20216082	A	A	20216082	3	1	128	1	0	0	0	0	1	0	0	0	11100	595	21	5	498	5	OR4Q3	14	20216082	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08		20216082	87133458	771	71059											
C14orf93	60686	broad.mit.edu	37	chr14	23467754	23467754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggctgctcccagctgcCgcagctcctcaatcaccacc	7	7	8	19	1	2	1	2	1	0	0	4	1	4	1	5	1	4	5	5	1	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:23467754C>T	uc001wib.1	-	2	789	c.479G>A	c.(478-480)CGG>CAG	p.R160Q	C14orf93_uc001wic.1_5'UTR|C14orf93_uc001wid.1_Missense_Mutation_p.R160Q|C14orf93_uc001wig.2_Missense_Mutation_p.R160Q|C14orf93_uc001wih.2_Missense_Mutation_p.R160Q|C14orf93_uc001wie.2_Missense_Mutation_p.R160Q|C14orf93_uc001wia.3_Missense_Mutation_p.R160Q|C14orf93_uc001wif.2_5'UTR	NM_021944	NP_068763	Q9H972	CN093_HUMAN	hypothetical protein LOC60686 precursor	160						extracellular region				ovary(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.0127)		TCCCAGCTGCCGCAGCTCCTC	0.657													5	32					0	0	0.00308	0	0		T	23467754	T	T	23467754	3	4	128	1	0	0	0	0	1	0	0	0	1785	652	23	1	1161	1	C14orf93	14	23467754	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3251672	23467754	83881786	772	71060											
HOMEZ	57594	broad.mit.edu	37	chr14	23745515	23745515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtgggacacagcctagtgGctggaggggtttagaggcgg	7	8	19	7	1	0	1	0	0	0	1	0	3	0	3	1	7	1	2	1	7	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:23745515G>A	uc001wja.2	-	2	1070	c.922C>T	c.(922-924)CCA>TCA	p.P308S	HOMEZ_uc001wjb.2_Missense_Mutation_p.P310S	NM_020834	NP_065885	Q8IX15	HOMEZ_HUMAN	homeodomain leucine zipper protein	308						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		CAGCCTAGTGGCTGGAGGGGT	0.552													20	52					0	0	0.016522	0	0		A	23745515	A	A	23745515	3	1	128	1	0	0	0	0	1	0	0	0	7297	1203	42	2	734	2	HOMEZ	14	23745515	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	277761	23745515	83604025	773	71061											
MYH7	4625	broad.mit.edu	37	chr14	23898213	23898213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactcctatgaagtactggCgtggctgcttggtctccagg	6	11	14	10	1	1	1	0	1	1	0	3	2	2	2	2	5	2	3	2	5	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:23898213C>T	uc001wjx.2	-	14	1464	c.1358G>A	c.(1357-1359)CGC>CAC	p.R453H		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	453	Myosin head-like.		R -> C (in CMH1).|R -> H (in CMH1).		adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		GAAGTACTGGCGTGGCTGCTT	0.552													19	85					0	0	0.005443	0	0		T	23898213	T	T	23898213	3	4	128	1	0	0	0	0	1	0	0	0	10057	768	27	1	4557	1	MYH7	14	23898213	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	152698	23898213	83451327	774	71062											
LRRC16B	90668	broad.mit.edu	37	chr14	24523631	24523631	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggagacggagcgtggcatGgtgagcatgcgactgccatc	8	7	17	9	3	0	2	0	1	0	1	1	5	0	3	1	4	4	2	1	4	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:24523631G>T	uc001wlj.2	+	5	430	c.273G>T	c.(271-273)ATG>ATT	p.M91I		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	91										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		AGCGTGGCATGGTGAGCATGC	0.627													27	85					3.1745e-13	3.37799e-13	0.008361	1	0		T	24523631	T	T	24523631	3	4	128	1	0	0	0	0	1	0	0	0	8990	1348	47	5	291	5	LRRC16B	14	24523631	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	625418	24523631	82825909	775	71063											
NOVA1	4857	broad.mit.edu	37	chr14	26917185	26917185	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacccactttctgaggatTggcagcccgaactccttgct	8	11	8	14	1	2	1	1	1	1	0	3	3	3	2	3	2	4	2	3	2	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:26917185T>C	uc001wpy.2	-	5	1822	c.1504A>G	c.(1504-1506)AAT>GAT	p.N502D	NOVA1_uc001wpz.2_Missense_Mutation_p.N478D|NOVA1_uc001wqa.2_Missense_Mutation_p.N380D	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	505					locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		TTCTGAGGATTGGCAGCCCGA	0.443													25	70					0	0	0.012213	0	0		C	26917185	C	C	26917185	3	2	128	1	0	0	0	0	1	0	0	0	10573	1812	63	3	23	3	NOVA1	14	26917185	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	2393554	26917185	80432355	776	71064											
MIPOL1	145282	broad.mit.edu	37	chr14	37838737	37838737	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagtgcaaacggttagagCaggagcttcatcatgtgaaa	13	8	13	7	1	2	2	2	1	0	1	2	3	2	3	0	3	4	5	0	3	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:37838737C>T	uc001wuc.2	+	11	1347	c.844C>T	c.(844-846)CAG>TAG	p.Q282*	MIPOL1_uc010amr.2_Intron|MIPOL1_uc001wub.3_Nonsense_Mutation_p.Q251*|MIPOL1_uc001wud.2_Nonsense_Mutation_p.Q282*|MIPOL1_uc010ams.2_Nonsense_Mutation_p.Q282*|MIPOL1_uc001wue.2_Nonsense_Mutation_p.Q251*|MIPOL1_uc010amt.2_Nonsense_Mutation_p.Q101*	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	282	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		ACGGTTAGAGCAGGAGCTTCA	0.393													29	86					0	0	0.013726	0	0		T	37838737	T	T	37838737	4	4	128	1	0	0	0	0	0	1	0	0	9611	711	25	2	874	2	MIPOL1	14	37838737	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	10921552	37838737	69510803	777	71065											
L2HGDH	79944	broad.mit.edu	37	chr14	50734531	50734531	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagggtctgtaaccctctCgtttaaaggcaagaactgca	13	9	9	10	1	2	1	0	0	2	1	3	1	2	1	1	2	3	4	1	2	6	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:50734531C>T	uc001wxu.2	-	8	1083	c.1004G>A	c.(1003-1005)CGA>CAA	p.R335Q	L2HGDH_uc010tqn.1_Missense_Mutation_p.R335Q|L2HGDH_uc010tqo.1_Missense_Mutation_p.R335Q	NM_024884	NP_079160	Q9H9P8	L2HDH_HUMAN	L-2-hydroxyglutarate dehydrogenase precursor	335					2-oxoglutarate metabolic process|cellular protein metabolic process	integral to mitochondrial inner membrane	2-hydroxyglutarate dehydrogenase activity			ovary(2)	2	all_epithelial(31;0.000599)|Breast(41;0.0102)					GTAACCCTCTCGTTTAAAGGC	0.388													33	135					0	0	0.019004	0	0		T	50734531	T	T	50734531	3	4	128	1	0	0	0	0	1	0	0	0	8606	884	31	1	399	1	L2HGDH	14	50734531	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	12895794	50734531	56615009	778	71066											
SYNE2	23224	broad.mit.edu	37	chr14	64653220	64653220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcggacttaacccggcacGttctcgtggaagatgtgatg	9	9	14	9	4	1	2	0	1	1	1	2	4	1	4	1	4	1	2	1	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:64653220G>A	uc001xgm.2	+	97	17865	c.17635G>A	c.(17635-17637)GTT>ATT	p.V5879I	SYNE2_uc001xgl.2_Missense_Mutation_p.V5879I|SYNE2_uc010apy.2_Missense_Mutation_p.V2264I|SYNE2_uc001xgn.2_Missense_Mutation_p.V841I|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_5'UTR|SYNE2_uc001xgq.2_Missense_Mutation_p.V244I	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5879	Spectrin 4.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AACCCGGCACGTTCTCGTGGA	0.468													77	256					0	0	0.01441	0	0		A	64653220	A	A	64653220	3	1	128	1	0	0	0	0	1	0	0	0	15471	1145	40	1	18017	1	SYNE2	14	64653220	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	13918689	64653220	42696320	779	71067											
PLEK2	26499	broad.mit.edu	37	chr14	67862233	67862233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaaaggcccaggcatccCgctcctctcgagaacaggcc	9	6	9	17	2	2	1	1	0	2	1	6	2	4	1	4	3	1	2	4	3	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:67862233C>T	uc001xjh.1	-	3	327	c.275G>A	c.(274-276)CGG>CAG	p.R92Q		NM_016445	NP_057529	Q9NYT0	PLEK2_HUMAN	pleckstrin 2	92	PH 1.				actin cytoskeleton organization|intracellular signal transduction	cytoplasm|cytoskeleton|lamellipodium membrane				ovary(1)|pancreas(1)	2				all cancers(60;0.000728)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.00953)		CCAGGCATCCCGCTCCTCTCG	0.592													64	187					0	0	0.01441	0	0		T	67862233	T	T	67862233	3	4	128	1	0	0	0	0	1	0	0	0	12073	652	23	1	814	1	PLEK2	14	67862233	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3209013	67862233	39487307	780	71068											
SIPA1L1	26037	broad.mit.edu	37	chr14	72056033	72056033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagagtgaaaagatacatcGtggaacacgtagatctgggt	15	9	12	5	2	1	4	0	1	1	3	2	5	1	5	0	2	2	1	0	2	6	3	rs148152996		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:72056033G>A	uc001xms.2	+	2	1792	c.1444G>A	c.(1444-1446)GTG>ATG	p.V482M	SIPA1L1_uc001xmt.2_Missense_Mutation_p.V482M|SIPA1L1_uc001xmu.2_Missense_Mutation_p.V482M|SIPA1L1_uc001xmv.2_Missense_Mutation_p.V482M	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	482					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		AAGATACATCGTGGAACACGT	0.398													28	66					0	0	0.00632	0	0		A	72056033	A	A	72056033	3	1	128	1	0	0	0	0	1	0	0	0	14354	1145	40	1	1446	1	SIPA1L1	14	72056033	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4193800	72056033	35293507	781	71069											
LTBP2	4053	broad.mit.edu	37	chr14	75078312	75078312	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtggctggacacgccgCgactgctgcgcgcgggacgg	5	4	19	13	7	0	0	0	0	0	0	0	3	0	2	1	5	2	3	1	5	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:75078312C>T	uc001xqa.2	-	1	723	c.336G>A	c.(334-336)TCG>TCA	p.S112S		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	112					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GGACACGCCGCGACTGCTGCG	0.781													4	16					0	0	0.009096	0	0		T	75078312	T	T	75078312	2	4	128	1	0	0	0	0	0	0	0	1	9092	755	27	1		1	LTBP2	14	75078312	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3022279	75078312	32271228	782	71070											
TTLL5	23093	broad.mit.edu	37	chr14	76219283	76219283	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactatatgctggcaacacGcctcttccaggacaggtaga	12	8	10	11	1	1	1	0	0	1	1	2	3	2	2	2	3	3	3	2	3	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:76219283G>A	uc001xrx.2	+	18	1740	c.1535G>A	c.(1534-1536)CGC>CAC	p.R512H	TTLL5_uc010ask.1_Missense_Mutation_p.R526H|TTLL5_uc001xrz.2_Missense_Mutation_p.R74H|TTLL5_uc001xry.1_RNA	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	512					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		CTGGCAACACGCCTCTTCCAG	0.373													29	78					0	0	0.013726	0	0		A	76219283	A	A	76219283	3	1	128	1	0	0	0	0	1	0	0	0	16756	1087	38	1	1601	1	TTLL5	14	76219283	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1140971	76219283	31130257	783	71071											
C14orf145	145508	broad.mit.edu	37	chr14	80993231	80993231	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actttgaaacttttggttctGtacttggtgtcatcttggtg	6	19	10	6	0	3	1	1	1	2	0	3	1	3	1	0	3	2	2	0	3	2	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:80993231G>A	uc001xux.2	-	22	3225	c.3054C>T	c.(3052-3054)TAC>TAT	p.Y1018Y	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	1018						centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TTTTGGTTCTGTACTTGGTGT	0.378													30	73					0	0	0.012213	0	0		A	80993231	A	A	80993231	2	1	128	1	0	0	0	0	0	0	0	1	1752	1372	48	4		4	C14orf145	14	80993231	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4773948	80993231	26356309	784	71072											
FLRT2	23768	broad.mit.edu	37	chr14	86089507	86089507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggcttgatcgggggcgCggtgatatttgtgctggtgg	3	11	21	6	4	0	2	0	2	0	0	1	2	0	2	0	7	1	2	0	7	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:86089507C>T	uc001xvr.2	+	2	2416	c.1649C>T	c.(1648-1650)GCG>GTG	p.A550V	FLRT2_uc010atd.2_Missense_Mutation_p.A550V	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	550	Helical; (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		ATCGGGGGCGCGGTGATATTT	0.587													43	141					0	0	0.009718	0	0		T	86089507	T	T	86089507	3	4	128	1	0	0	0	0	1	0	0	0	5953	768	27	1	1651	1	FLRT2	14	86089507	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5096276	86089507	21260033	785	71073											
TTC7B	145567	broad.mit.edu	37	chr14	91142956	91142956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actctgcagactgatgaggcGgtcactcttgtgttcaggta	8	12	12	9	1	4	3	2	2	2	1	4	3	4	3	0	3	1	3	0	3	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:91142956G>A	uc001xyp.2	-	9	1185	c.1063C>T	c.(1063-1065)CGC>TGC	p.R355C	TTC7B_uc010ats.2_RNA	NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	355							binding			ovary(2)	2		Melanoma(154;0.222)				CTGATGAGGCGGTCACTCTTG	0.502													35	100					0	0	0.019004	0	0		A	91142956	A	A	91142956	3	1	128	1	0	0	0	0	1	0	0	0	16739	1116	39	1	1516	1	TTC7B	14	91142956	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5053449	91142956	16206584	786	71074											
SLC24A4	123041	broad.mit.edu	37	chr14	92920308	92920308	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gacgagattatgagctccagCcctcccaagttcaccttccc	9	9	7	16	1	1	2	1	1	0	1	4	4	4	2	5	0	2	2	5	0	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:92920308C>T	uc001yak.2	+	11	918	c.894C>T	c.(892-894)AGC>AGT	p.S298S	SLC24A4_uc001yai.2_Silent_p.S251S|SLC24A4_uc010twm.1_Silent_p.S296S|SLC24A4_uc001yaj.2_Silent_p.S279S|SLC24A4_uc010auj.2_Silent_p.S187S|SLC24A4_uc010twn.1_Silent_p.S71S|SLC24A4_uc001yan.2_Silent_p.S9S	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	315	Extracellular (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		TGAGCTCCAGCCCTCCCAAGT	0.517													18	78					0	0	0.014323	0	0		T	92920308	T	T	92920308	2	4	128	1	0	0	0	0	0	0	0	1	14493	738	26	2		2	SLC24A4	14	92920308	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1777352	92920308	14429232	787	71075											
KIAA1409	57578	broad.mit.edu	37	chr14	94173133	94173133	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaaggacgctgccgggctcGggccagagcagtgctggcct	6	6	16	13	3	0	1	0	0	0	1	1	2	0	2	3	4	3	4	3	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:94173133G>A	uc001ybv.1	+	48	7409	c.7326G>A	c.(7324-7326)TCG>TCA	p.S2442S	KIAA1409_uc001ybs.1_Silent_p.S2420S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2597						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TGCCGGGCTCGGGCCAGAGCA	0.597													31	83					0	0	0.019004	0	0		A	94173133	A	A	94173133	2	1	128	1	0	0	0	0	0	0	0	1	8246	1103	39	1		1	KIAA1409	14	94173133	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1252825	94173133	13176407	788	71076											
EML1	2009	broad.mit.edu	37	chr14	100405583	100405583	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gacatcaatgccgtctgtcgGgcccatgagaagaaactcct	11	8	10	12	2	2	2	1	1	1	2	4	4	3	2	3	1	2	0	3	1	3	0	rs61986043		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:100405583G>T	uc001ygs.2	+	21	2310	c.2241G>T	c.(2239-2241)CGG>CGT	p.R747R	EML1_uc010tww.1_Silent_p.R735R|EML1_uc001ygr.2_Silent_p.R766R	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	747	WD 10.					cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				CCGTCTGTCGGGCCCATGAGA	0.552													30	88					6.38683e-12	6.77453e-12	0.008361	1	0		T	100405583	T	T	100405583	2	4	128	1	0	0	0	0	0	0	0	1	5104	1219	43	5		5	EML1	14	100405583	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	6232450	100405583	6943957	789	71077											
CDC42BPB	9578	broad.mit.edu	37	chr14	103435030	103435030	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgctctaaggtggcaccCgctccccggcctccttgctt	3	11	11	16	2	1	0	0	0	1	0	3	0	3	0	5	4	2	4	5	4	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:103435030C>T	uc001ymi.1	-	15	2251	c.2019G>A	c.(2017-2019)GCG>GCA	p.A673A		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	673	Potential.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		AGGTGGCACCCGCTCCCCGGC	0.473													59	158					0	0	0.01441	0	0		T	103435030	T	T	103435030	2	4	128	1	0	0	0	0	0	0	0	1	3076	639	23	1		1	CDC42BPB	14	103435030	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3029447	103435030	3914510	790	71078											
JAG2	3714	broad.mit.edu	37	chr14	105634420	105634420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcgcgctcagctgcagctCgaaatagcccatgggccgcg	8	5	13	15	5	1	0	1	0	0	0	2	1	1	0	2	1	5	4	2	1	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr14:105634420C>T	uc001yqg.2	-	2	495	c.91G>A	c.(91-93)GAG>AAG	p.E31K	JAG2_uc001yqh.2_Missense_Mutation_p.E31K	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	31	Extracellular (Potential).				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding			lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		AGCTGCAGCTCGAAATAGCCC	0.547													13	17					0	0	0.016723	0	0		T	105634420	T	T	105634420	3	4	128	1	0	0	0	0	1	0	0	0	7951	893	31	1	3725	1	JAG2	14	105634420	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2199390	105634420	1715120	791	71079											
ATP10A	57194	broad.mit.edu	37	chr15	25959016	25959016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacacttggtcgtgcagccGctccacaagcacgcagttgt	8	9	11	13	3	0	1	0	1	0	0	2	1	1	1	2	1	3	5	2	1	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:25959016G>A	uc010ayu.2	-	10	2255	c.2149C>T	c.(2149-2151)CGG>TGG	p.R717W		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	717	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TCGTGCAGCCGCTCCACAAGC	0.642													18	70					0	0	0.010818	0	0		A	25959016	A	A	25959016	3	1	128	1	0	0	0	0	1	0	0	0	1117	1086	38	1	2398	1	ATP10A	15	25959016	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08		25959016	76572376	792	71080											
OCA2	4948	broad.mit.edu	37	chr15	28230313	28230313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatcatggcccacacccGtccccgggagagccggtatg	8	6	13	14	3	1	2	1	1	0	1	2	4	2	2	5	3	1	1	5	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:28230313G>A	uc001zbh.3	-	13	1371	c.1261C>T	c.(1261-1263)CGG>TGG	p.R421W	OCA2_uc010ayv.2_Missense_Mutation_p.R397W	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	421	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		GCCCACACCCGTCCCCGGGAG	0.572									Oculocutaneous_Albinism				15	36					0	0	0.003163	0	0		A	28230313	A	A	28230313	3	1	128	1	0	0	0	0	1	0	0	0	10834	1144	40	1	1303	1	OCA2	15	28230313	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2271297	28230313	74301079	793	71081											
HERC2	8924	broad.mit.edu	37	chr15	28482137	28482137	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaatctcgacaggagacagCggtgtgctcattgccaaata	12	9	10	10	2	3	1	2	0	1	1	4	3	3	1	1	2	3	1	1	2	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:28482137C>T	uc001zbj.2	-	26	4081	c.3975G>A	c.(3973-3975)CCG>CCA	p.P1325P		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1325					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CAGGAGACAGCGGTGTGCTCA	0.448													41	105					0	0	0.01441	0	0		T	28482137	T	T	28482137	2	4	128	1	0	0	0	0	0	0	0	1	7074	755	27	1		1	HERC2	15	28482137	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	251824	28482137	74049255	794	71082											
TJP1	7082	broad.mit.edu	37	chr15	30092850	30092850	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgcaacacaaacttaccCtgtgaagcgtcactgtatgt	12	11	7	11	1	1	1	1	1	0	0	1	1	1	1	1	0	6	2	1	0	6	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:30092850C>A	uc001zcr.2	-	2	558	c.83G>T	c.(82-84)AGG>ATG	p.R28M	TJP1_uc010azl.2_Missense_Mutation_p.R16M|TJP1_uc001zcq.2_Missense_Mutation_p.R32M|TJP1_uc001zcs.2_Missense_Mutation_p.R28M	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	28	PDZ 1.				cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		CAAACTTACCCTGTGAAGCGT	0.398													34	141					1.42033e-22	1.5486e-22	0.019004	1	0		A	30092850	A	A	30092850	3	1	128	1	0	0	0	0	1	0	0	0	15954	695	24	5	5271	5	TJP1	15	30092850	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1610713	30092850	72438542	795	71083											
RYR3	6263	broad.mit.edu	37	chr15	34040421	34040421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagctttggttcaacagcGggaaaatgagaagcttcgaa	15	8	12	6	2	1	2	1	1	0	2	2	5	1	3	0	2	4	3	0	2	6	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:34040421G>A	uc001zhi.2	+	54	8166	c.8096G>A	c.(8095-8097)CGG>CAG	p.R2699Q	RYR3_uc010bar.2_Missense_Mutation_p.R2699Q	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2699	3.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GTTCAACAGCGGGAAAATGAG	0.562													20	54					0	0	0.008871	0	0		A	34040421	A	A	34040421	3	1	128	1	0	0	0	0	1	0	0	0	13795	1116	39	1	8310	1	RYR3	15	34040421	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3947571	34040421	68490971	796	71084											
C15orf55	256646	broad.mit.edu	37	chr15	34642991	34642991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgcaggagtgggagcacaCcagcaactttgaccggatga	11	7	14	9	1	0	2	0	2	0	0	0	5	0	5	2	3	4	3	2	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:34642991C>T	uc001zif.2	+	3	967	c.812C>T	c.(811-813)ACC>ATC	p.T271I	C15orf55_uc010ucc.1_Missense_Mutation_p.T299I|C15orf55_uc010ucd.1_Missense_Mutation_p.T289I	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	271						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		TGGGAGCACACCAGCAACTTT	0.552			T	BRD3|BRD4	lethal midline carcinoma								20	54					0	0	0.010504	0	0		T	34642991	T	T	34642991	3	4	128	1	0	0	0	0	1	0	0	0	1806	507	18	4	822	4	C15orf55	15	34642991	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	602570	34642991	67888401	797	71085											
VPS18	57617	broad.mit.edu	37	chr15	41191772	41191772	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggctctttgcagcttacacGgaccacccacccccattccg	7	8	8	18	2	1	0	0	0	1	0	2	1	2	1	5	2	3	3	5	2	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:41191772G>A	uc001zne.2	+	4	1095	c.756G>A	c.(754-756)ACG>ACA	p.T252T		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	252					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		CAGCTTACACGGACCACCCAC	0.622													59	157					0	0	0.01441	0	0		A	41191772	A	A	41191772	2	1	128	1	0	0	0	0	0	0	0	1	17220	1103	39	1		1	VPS18	15	41191772	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	6548781	41191772	61339620	798	71086											
INO80	54617	broad.mit.edu	37	chr15	41277580	41277580	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcttgcgctctttcactcGgttggtttcctcctgttgcc	1	16	9	15	3	2	0	1	0	1	0	5	0	4	0	4	2	2	5	4	2	0	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:41277580G>A	uc001zni.2	-	32	4090	c.3877C>T	c.(3877-3879)CGA>TGA	p.R1293*	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	1293	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						TCTTTCACTCGGTTGGTTTCC	0.488													29	91					0	0	0.007291	0	0		A	41277580	A	A	41277580	4	1	128	1	0	0	0	0	0	1	0	0	7762	1124	39	1	813	1	INO80	15	41277580	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	85808	41277580	61253812	799	71087											
MAPKBP1	23005	broad.mit.edu	37	chr15	42105142	42105142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgccactgtgcccttgctggGccgctcagggctgctgggag	3	9	16	13	1	1	0	1	0	0	0	1	1	1	1	3	3	4	4	3	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:42105142G>A	uc001zok.3	+	8	948	c.662G>A	c.(661-663)GGC>GAC	p.G221D	MAPKBP1_uc001zoj.3_Missense_Mutation_p.G221D|MAPKBP1_uc010bcj.2_5'UTR|MAPKBP1_uc010bci.2_Missense_Mutation_p.G221D|MAPKBP1_uc010udb.1_Missense_Mutation_p.G109D|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_5'UTR	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	221										central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		CCCTTGCTGGGCCGCTCAGGG	0.592													40	117					0	0	0.007835	0	0		A	42105142	A	A	42105142	3	1	128	1	0	0	0	0	1	0	0	0	9310	1203	42	2	688	2	MAPKBP1	15	42105142	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	827562	42105142	60426250	800	71088											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42134087	42134087	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaggcctctgtgggcacTggcaccttccgcttccactg	5	9	12	15	1	1	0	0	0	1	0	3	1	3	1	4	4	0	3	4	4	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:42134087T>A	uc010bco.2	+	8	662	c.561T>A	c.(559-561)ACT>ACA	p.T187T	JMJD7-PLA2G4B_uc001zoo.3_Silent_p.T418T|JMJD7-PLA2G4B_uc010bcn.2_Silent_p.T418T|JMJD7-PLA2G4B_uc001zoq.3_5'UTR|JMJD7-PLA2G4B_uc001zor.1_5'Flank	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	187					arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						CTGTGGGCACTGGCACCTTCC	0.632													4	17					0	0	0.014758	0	0		A	42134087	A	A	42134087	2	1	128	1	0	0	0	0	0	0	0	1	7971	1567	55	5		5	JMJD7-PLA2G4B	15	42134087	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	28945	42134087	60397305	801	71089											
CDAN1	146059	broad.mit.edu	37	chr15	43028259	43028259	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccggagttgggttgatcCtgcgagaaggcttcgtcctg	6	11	14	10	3	1	2	1	1	0	1	4	4	3	3	3	3	1	3	3	3	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:43028259C>A	uc001zql.2	-	3	704	c.587G>T	c.(586-588)AGG>ATG	p.R196M	CDAN1_uc001zqk.2_5'Flank|CDAN1_uc010bcx.1_5'Flank|uc001zqm.2_5'Flank	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	196						integral to membrane	protein binding			ovary(2)	2		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		TGGGTTGATCCTGCGAGAAGG	0.552													15	47					7.05477e-17	7.60449e-17	0.00499	1	0		A	43028259	A	A	43028259	3	1	128	1	0	0	0	0	1	0	0	0	3057	681	24	5	3200	5	CDAN1	15	43028259	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	894172	43028259	59503133	802	71090											
TUBGCP4	27229	broad.mit.edu	37	chr15	43675579	43675579	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactcctcttggaccagcaTgaagaattctttatcaaaca	13	11	7	10	0	3	2	1	1	2	1	4	4	4	4	2	2	2	1	2	2	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:43675579T>C	uc001zro.2	+	7	840	c.600T>C	c.(598-600)CAT>CAC	p.H200H	TUBGCP4_uc001zrn.2_Silent_p.H200H|TUBGCP4_uc010bdh.2_RNA	NM_014444	NP_055259	Q9UGJ1	GCP4_HUMAN	tubulin, gamma complex associated protein 4	200					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	structural constituent of cytoskeleton			ovary(3)	3		all_cancers(109;1.27e-10)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.72e-06)|all_lung(180;1.59e-05)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;3.53e-07)		TGGACCAGCATGAAGAATTCT	0.507													32	83					0	0	0.012213	0	0		C	43675579	C	C	43675579	2	2	128	1	0	0	0	0	0	0	0	1	16794	1461	51	3		3	TUBGCP4	15	43675579	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	647320	43675579	58855813	803	71091											
MAP1A	4130	broad.mit.edu	37	chr15	43815140	43815140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaaaatagacaggagccGtgctatccgtggggagaagg	13	6	15	7	2	1	2	1	0	0	2	2	4	2	3	2	4	2	1	2	4	5	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:43815140G>A	uc001zrt.2	+	4	1936	c.1469G>A	c.(1468-1470)CGT>CAT	p.R490H		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	490	Lys-rich (basic).|9 X 3 AA repeats of K-K-[DE].					cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	GACAGGAGCCGTGCTATCCGT	0.542													15	48					0	0	0.003163	0	0		A	43815140	A	A	43815140	3	1	128	1	0	0	0	0	1	0	0	0	9245	1145	40	1	1471	1	MAP1A	15	43815140	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	139561	43815140	58716252	804	71092											
DUOXA2	405753	broad.mit.edu	37	chr15	45409435	45409435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctagcgtgccgctctgccCgctccgcctaggctcctccg	2	9	10	20	5	2	0	0	0	2	0	5	0	5	0	6	1	3	3	6	1	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:45409435C>T	uc001zuo.2	+	5	981	c.701C>T	c.(700-702)CCG>CTG	p.P234L	DUOXA2_uc010beb.2_RNA	NM_207581	NP_997464	Q1HG44	DOXA2_HUMAN	dual oxidase activator 2	234	Extracellular (Potential).				protein transport	endoplasmic reticulum membrane|integral to membrane					0		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;2.88e-18)|GBM - Glioblastoma multiforme(94;3.95e-07)|COAD - Colon adenocarcinoma(120;0.0652)|Colorectal(133;0.0659)		CCGCTCTGCCCGCTCCGCCTA	0.701													4	24					0	0	0.009096	0	0		T	45409435	T	T	45409435	3	4	128	1	0	0	0	0	1	0	0	0	4809	652	23	1	719	1	DUOXA2	15	45409435	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1594295	45409435	57121957	805	71093											
GATM	2628	broad.mit.edu	37	chr15	45660384	45660384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactcaaagaagcgtgaacGccatgccatgggagcctcga	12	6	12	11	3	1	2	1	1	0	1	2	4	1	3	3	1	5	1	3	1	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:45660384G>A	uc001zvc.2	-	4	888	c.559C>T	c.(559-561)CGT>TGT	p.R187C	GATM_uc001zvb.2_Missense_Mutation_p.R58C|GATM_uc010uev.1_Missense_Mutation_p.R240C	NM_001482	NP_001473	P50440	GATM_HUMAN	L-arginine:glycine amidinotransferase precursor	187					creatine biosynthetic process	mitochondrial inner membrane|mitochondrial intermembrane space	glycine amidinotransferase activity|protein binding				0		all_cancers(109;1.25e-09)|all_epithelial(112;5.56e-08)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;4.87e-16)|GBM - Glioblastoma multiforme(94;1.97e-06)	Creatine(DB00148)|Glycine(DB00145)|L-Ornithine(DB00129)	AAGCGTGAACGCCATGCCATG	0.488													19	45					0	0	0.008871	0	0		A	45660384	A	A	45660384	3	1	128	1	0	0	0	0	1	0	0	0	6278	1087	38	1	736	1	GATM	15	45660384	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	250949	45660384	56871008	806	71094											
SEMA6D	80031	broad.mit.edu	37	chr15	48052032	48052032	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgtgcctacatactgctgCtgatggtttcccagttgagg	6	15	11	9	0	0	2	0	2	0	0	1	2	1	2	2	2	5	4	2	2	2	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:48052032C>T	uc010bek.2	+	2	397	c.37C>T	c.(37-39)CTG>TTG	p.L13L	SEMA6D_uc001zvw.2_Silent_p.L13L|SEMA6D_uc001zvx.1_Silent_p.L13L|SEMA6D_uc001zvy.2_Silent_p.L13L|SEMA6D_uc001zvz.2_Silent_p.L13L|SEMA6D_uc001zwa.2_Silent_p.L13L|SEMA6D_uc001zwb.2_Silent_p.L13L|SEMA6D_uc001zwc.2_Silent_p.L13L	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	13					axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		CATACTGCTGCTGATGGTTTC	0.498													15	54					0	0	0.003163	0	0		T	48052032	T	T	48052032	2	4	128	1	0	0	0	0	0	0	0	1	14067	796	28	2		2	SEMA6D	15	48052032	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2391648	48052032	54479360	807	71095											
FBN1	2200	broad.mit.edu	37	chr15	48782150	48782150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttctcatgggacactcctCgcattcctcagtaccccagg	8	11	7	15	1	2	0	2	0	1	0	6	1	4	1	4	2	1	2	4	2	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:48782150C>T	uc001zwx.1	-	25	3308	c.2980G>A	c.(2980-2982)GAG>AAG	p.E994K		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	994	TB 5.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GGACACTCCTCGCATTCCTCA	0.567													38	115					0	0	0.005524	0	0		T	48782150	T	T	48782150	3	4	128	1	0	0	0	0	1	0	0	0	5716	893	31	1	5803	1	FBN1	15	48782150	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	730118	48782150	53749242	808	71096											
C15orf33	196951	broad.mit.edu	37	chr15	49907322	49907322	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtggaagcttccttaccccgGggccagctctgctgctcctc	4	10	11	16	1	1	0	0	0	1	0	4	1	3	1	5	3	5	4	5	3	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:49907322G>T	uc001zxl.2	-	2	341	c.47C>A	c.(46-48)CCC>CAC	p.P16H	C15orf33_uc001zxm.2_Missense_Mutation_p.P16H	NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	16										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)		CCTTACCCCGGGGCCAGCTCT	0.463													72	251					2.93416e-43	3.26072e-43	0.01441	1	0		T	49907322	T	T	49907322	3	4	128	1	0	0	0	0	1	0	0	0	1794	1232	43	5	1539	5	C15orf33	15	49907322	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1125172	49907322	52624070	809	71097											
SLC27A2	11001	broad.mit.edu	37	chr15	50474821	50474821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggagaaagcgcgccagaCgccacacaagccttttctgc	10	6	10	15	3	1	2	0	0	1	2	1	3	1	2	4	1	3	0	4	1	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:50474821C>T	uc001zxw.2	+	1	429	c.197C>T	c.(196-198)ACG>ATG	p.T66M	SLC27A2_uc010bes.2_Missense_Mutation_p.T66M	NM_003645	NP_003636	O14975	S27A2_HUMAN	solute carrier family 27 (fatty acid	66	Cytoplasmic (Potential).				bile acid biosynthetic process|fatty acid alpha-oxidation	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity|phytanate-CoA ligase activity|pristanate-CoA ligase activity			ovary(1)|skin(1)	2		all_lung(180;0.00177)		all cancers(107;1.16e-06)|GBM - Glioblastoma multiforme(94;0.000113)		GCGCGCCAGACGCCACACAAG	0.687													16	49					0	0	0.003163	0	0		T	50474821	T	T	50474821	3	4	128	1	0	0	0	0	1	0	0	0	14551	536	19	1	199	1	SLC27A2	15	50474821	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	567499	50474821	52056571	810	71098											
GABPB1	2553	broad.mit.edu	37	chr15	50570857	50570857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctttattagtctgaagaCgagtcatagcttccaacttc	10	15	6	10	1	3	2	1	1	2	1	5	3	4	2	1	0	2	1	1	0	5	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:50570857C>T	uc001zyb.2	-	9	1584	c.1160G>A	c.(1159-1161)CGT>CAT	p.R387H	GABPB1_uc001zya.2_Missense_Mutation_p.R375H|GABPB1_uc010ufg.1_Missense_Mutation_p.R311H	NM_005254	NP_005245	Q06547	GABP1_HUMAN	GA binding protein transcription factor, beta	387					positive regulation of transcription from RNA polymerase II promoter	nucleus	protein binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)	1						AGTCTGAAGACGAGTCATAGC	0.373													46	184					0	0	0.011902	0	0		T	50570857	T	T	50570857	3	4	128	1	0	0	0	0	1	0	0	0	6172	536	19	1	31	1	GABPB1	15	50570857	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	96036	50570857	51960535	811	71099											
SCG3	29106	broad.mit.edu	37	chr15	52011689	52011689	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catccttgacaaggaagaagCcgaggccatcaagcgcattt	13	7	10	11	2	1	2	1	1	0	1	2	4	2	3	3	2	2	1	3	2	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:52011689C>T	uc002abh.2	+	12	1781	c.1373C>T	c.(1372-1374)GCC>GTC	p.A458V	SCG3_uc010ufz.1_Missense_Mutation_p.A226V	NM_013243	NP_037375	Q8WXD2	SCG3_HUMAN	secretogranin III isoform 1 precursor	458					platelet activation|platelet degranulation	extracellular region|stored secretory granule				ovary(1)	1				all cancers(107;0.00488)		AAGGAAGAAGCCGAGGCCATC	0.368													14	45					0	0	0.016723	0	0		T	52011689	T	T	52011689	3	4	128	1	0	0	0	0	1	0	0	0	13917	739	26	2	1419	2	SCG3	15	52011689	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1440832	52011689	50519703	812	71100											
PRTG	283659	broad.mit.edu	37	chr15	55971645	55971645	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaacaaatgaaggaggagcTatttttaaagaaaaaaatga	21	9	8	3	0	1	3	1	2	0	1	1	5	1	5	0	2	2	1	0	2	9	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:55971645T>C	uc002adg.2	-	7	1022	c.974_splice	c.e7-1	p.A325_splice		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor						multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		AAGGAGGAGCTATTTTTAAAG	0.413													13	55					0	0	0.00499	0	0		C	55971645	C	C	55971645	5	2	128	1	0	0	0	0	0	0	1	0	12660	1536	53	3	2536	3	PRTG	15	55971645	Splice_Site	SNP	T	TCGA-CG-4306-01A-01D-1158-08	3959956	55971645	46559747	813	71101											
RFX7	64864	broad.mit.edu	37	chr15	56386864	56386864	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgaatgcaaacggattcCtgcattcaacagggctgggg	11	8	14	8	1	1	1	1	1	0	0	2	3	2	2	1	4	4	3	1	4	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:56386864C>A	uc010bfn.2	-	9	3062	c.3062G>T	c.(3061-3063)AGG>ATG	p.R1021M	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Missense_Mutation_p.R835M	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	924					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						AAACGGATTCCTGCATTCAAC	0.498													16	68					8.00594e-06	8.25457e-06	0.007413	1	0		A	56386864	A	A	56386864	3	1	128	1	0	0	0	0	1	0	0	0	13293	681	24	5	1324	5	RFX7	15	56386864	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	415219	56386864	46144528	814	71102											
FAM63B	54629	broad.mit.edu	37	chr15	59080107	59080107	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taatattttgtttttcaggtGaaacttccaccgatgatgga	11	16	8	6	1	1	2	1	2	0	0	2	4	2	3	2	2	1	1	2	2	3	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:59080107G>A	uc002afj.2	+	2	1045	c.843G>A	c.(841-843)GTG>GTA	p.V281V	FAM63B_uc002afi.2_Silent_p.V281V|FAM63B_uc002afk.2_RNA|FAM63B_uc002afl.2_RNA	NM_001040450	NP_001035540	Q8NBR6	FA63B_HUMAN	hypothetical protein LOC54629 isoform a	281										central_nervous_system(1)	1						TTTTTCAGGTGAAACTTCCAC	0.289													30	129					0	0	0.013726	0	0		A	59080107	A	A	59080107	2	1	128	1	0	0	0	0	0	0	0	1	5611	1277	45	4		4	FAM63B	15	59080107	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2693243	59080107	43451285	815	71103											
FOXB1	27023	broad.mit.edu	37	chr15	60297902	60297902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacggcgtgccgttgaagcCgctgtgccacgcggcgggcc	4	6	16	15	7	0	1	0	1	0	0	0	1	0	1	4	3	4	2	4	3	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:60297902C>T	uc002agj.1	+	2	1219	c.740C>T	c.(739-741)CCG>CTG	p.P247L	FOXB1_uc010bgh.1_Intron	NM_012182	NP_036314	Q99853	FOXB1_HUMAN	forkhead box B1	247					axon target recognition|cell migration in diencephalon|epithelial cell differentiation involved in mammary gland alveolus development|floor plate development|hypothalamus cell migration|inferior colliculus development|lactation|mammillothalamic axonal tract development|negative regulation of neuron apoptosis|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|telencephalon cell migration|visual learning	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|central_nervous_system(1)	2						CCGTTGAAGCCGCTGTGCCAC	0.721													3	9					0	0	0.009096	0	0		T	60297902	T	T	60297902	3	4	128	1	0	0	0	0	1	0	0	0	6006	652	23	1	742	1	FOXB1	15	60297902	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1217795	60297902	42233490	816	71104											
TLN2	83660	broad.mit.edu	37	chr15	63004189	63004189	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggtcagatgcagaagcCgaaatcgacatggagaattc	15	7	12	7	2	1	4	1	1	0	3	3	7	1	4	1	2	2	1	1	2	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:63004189C>T	uc002alb.3	+	19	2547	c.2547C>T	c.(2545-2547)GCC>GCT	p.A849A		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	849					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						ATGCAGAAGCCGAAATCGACA	0.517													13	67					0	0	0.020292	0	0		T	63004189	T	T	63004189	2	4	128	1	0	0	0	0	0	0	0	1	15973	639	23	1		1	TLN2	15	63004189	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2706287	63004189	39527203	817	71105											
LACTB	114294	broad.mit.edu	37	chr15	63433525	63433525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgtcaacacaccttacGtggataactcctataaatgg	12	12	7	10	1	2	0	1	0	1	0	3	1	3	1	2	2	3	0	2	2	6	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:63433525G>A	uc002alw.2	+	6	1204	c.1165G>A	c.(1165-1167)GTG>ATG	p.V389M		NM_032857	NP_116246	P83111	LACTB_HUMAN	lactamase, beta isoform a	389						mitochondrion	hydrolase activity				0						CACACCTTACGTGGATAACTC	0.373													49	124					0	0	0.01441	0	0		A	63433525	A	A	63433525	3	1	128	1	0	0	0	0	1	0	0	0	8613	1145	40	1	1191	1	LACTB	15	63433525	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	429336	63433525	39097867	818	71106											
HERC1	8925	broad.mit.edu	37	chr15	63918223	63918223	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagcagtctccaggatgaGtacatgaggtcagagaagtg	12	9	13	7	0	3	3	2	2	1	1	4	5	3	4	1	2	2	2	1	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:63918223G>A	uc002amp.2	-	71	13384	c.13236C>T	c.(13234-13236)TAC>TAT	p.Y4412Y		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	4412					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TCCAGGATGAGTACATGAGGT	0.592													9	21					0	0	0.004482	0	0		A	63918223	A	A	63918223	2	1	128	1	0	0	0	0	0	0	0	1	7073	1024	36	4		4	HERC1	15	63918223	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	484698	63918223	38613169	819	71107											
SNX1	6642	broad.mit.edu	37	chr15	64419453	64419453	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagggccgctttagaaaggTaagtgccatgcagccatttt	10	10	13	8	1	0	1	0	0	0	1	0	2	0	2	3	3	3	3	3	3	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:64419453T>C	uc002amv.2	+	7	767	c.731_splice	c.e7+2	p.R244_splice	SNX1_uc010bgv.2_Splice_Site|SNX1_uc010uio.1_Splice_Site_p.R244_splice|SNX1_uc002amw.2_Splice_Site_p.R244_splice|SNX1_uc002amx.2_Splice_Site_p.R179_splice|SNX1_uc002amy.2_Splice_Site_p.R173_splice|SNX1_uc010bgw.2_Splice_Site_p.R146_splice	NM_003099	NP_003090	Q13596	SNX1_HUMAN	sorting nexin 1 isoform a						cell communication|early endosome to Golgi transport|endocytosis|intracellular protein transport	early endosome membrane|Golgi apparatus	phosphatidylinositol binding|protein binding|protein transporter activity				0						TTTAGAAAGGTAAGTGCCATG	0.393													16	34					0	0	0.003163	0	0		C	64419453	C	C	64419453	5	2	128	1	0	0	0	0	0	0	1	0	14905	1652	57	3	759	3	SNX1	15	64419453	Splice_Site	SNP	T	TCGA-CG-4306-01A-01D-1158-08	501230	64419453	38111939	820	71108											
LCTL	197021	broad.mit.edu	37	chr15	66845477	66845477	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagttcctttccgtgatgtAccgagtagtaaaatgaccta	11	13	9	8	2	0	2	0	2	0	0	2	3	2	2	4	0	1	5	4	0	6	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:66845477A>G	uc002aqc.2	-	9	1174	c.1042T>C	c.(1042-1044)TAC>CAC	p.Y348H	LCTL_uc002aqd.3_Missense_Mutation_p.Y175H|LCTL_uc010bhw.2_Missense_Mutation_p.Y46H	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	348	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						TCCGTGATGTACCGAGTAGTA	0.527													65	176					0	0	0.01441	0	0		G	66845477	G	G	66845477	3	3	128	1	0	0	0	0	1	0	0	0	8710	391	14	3	681	3	LCTL	15	66845477	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	2426024	66845477	35685915	821	71109											
UACA	55075	broad.mit.edu	37	chr15	70961645	70961645	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcattttggagcttcagtcGgtcttgttttgctgactcac	5	18	9	9	1	4	1	3	1	1	0	5	2	4	2	0	2	2	3	0	2	0	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:70961645G>A	uc002asr.2	-	16	1482	c.1378C>T	c.(1378-1380)CGA>TGA	p.R460*	UACA_uc010uke.1_Nonsense_Mutation_p.R351*|UACA_uc002asq.2_Nonsense_Mutation_p.R447*|UACA_uc010bin.1_Nonsense_Mutation_p.R435*	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	460	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						AGCTTCAGTCGGTCTTGTTTT	0.388													61	219					0	0	0.01441	0	0		A	70961645	A	A	70961645	4	1	128	1	0	0	0	0	0	1	0	0	16850	1124	39	1	2888	1	UACA	15	70961645	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4116168	70961645	31569747	822	71110											
NEO1	4756	broad.mit.edu	37	chr15	73418762	73418762	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttttttttttagatccTgaggtgatatcagacttggt	7	22	8	4	0	1	4	1	2	0	2	2	4	2	4	1	2	0	0	1	2	2	9			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:73418762T>C	uc002avm.3	+	4	871	c.729T>C	c.(727-729)CCT>CCC	p.P243P	NEO1_uc010ukx.1_Silent_p.P243P|NEO1_uc010uky.1_Silent_p.P243P|NEO1_uc010ukz.1_5'UTR	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	243	Extracellular (Potential).|Ig-like C2-type 3.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						TTTTAGATCCTGAGGTGATAT	0.269													52	157					0	0	0.01441	0	0		C	73418762	C	C	73418762	2	2	128	1	0	0	0	0	0	0	0	1	10355	1567	55	3		3	NEO1	15	73418762	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	2457117	73418762	29112630	823	71111											
TMC3	342125	broad.mit.edu	37	chr15	81631013	81631013	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaaaagcaggagtactgcGggcaggatgaccacggggct	12	4	15	10	2	0	1	0	1	0	0	0	3	0	3	1	5	3	4	1	5	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:81631013G>A	uc002bgo.1	-	18	2064	c.2064C>T	c.(2062-2064)CCC>CCT	p.P688P	TMC3_uc010blr.1_RNA|TMC3_uc002bgp.2_Silent_p.P688P	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	688	Helical; (Potential).					integral to membrane				ovary(1)|liver(1)	2						GGAGTACTGCGGGCAGGATGA	0.463													17	83					0	0	0.007413	0	0		A	81631013	A	A	81631013	2	1	128	1	0	0	0	0	0	0	0	1	16011	1103	39	1		1	TMC3	15	81631013	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	8212251	81631013	20900379	824	71112											
MEX3B	84206	broad.mit.edu	37	chr15	82336392	82336392	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttgcggccgggggtgggCgtgatgctgggggtgggctt	1	9	24	7	3	0	1	0	1	0	0	0	1	0	1	1	8	2	3	1	8	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:82336392C>T	uc002bgq.1	-	2	1134	c.819G>A	c.(817-819)ACG>ACA	p.T273T		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	273					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						CGGGGGTGGGCGTGATGCTGG	0.652													18	21					0	0	0.012319	0	0		T	82336392	T	T	82336392	2	4	128	1	0	0	0	0	0	0	0	1	9528	755	27	1		1	MEX3B	15	82336392	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	705379	82336392	20195000	825	71113											
BTBD1	53339	broad.mit.edu	37	chr15	83735743	83735743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcgaagcgctccttcagcGacgccttggtcgcctgccag	6	7	13	15	5	1	0	1	0	0	0	3	2	2	0	4	2	3	1	4	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:83735743G>A	uc002bjn.2	-	1	364	c.161C>T	c.(160-162)TCG>TTG	p.S54L	BTBD1_uc002bjo.2_Missense_Mutation_p.S54L	NM_025238	NP_079514	Q9H0C5	BTBD1_HUMAN	BTB (POZ) domain containing 1 isoform 1	54						cytoplasmic mRNA processing body|protein complex	protein binding			ovary(1)|central_nervous_system(1)	2				all cancers(203;0.000186)		CTCCTTCAGCGACGCCTTGGT	0.468													3	11					0	0	0.004672	0	0		A	83735743	A	A	83735743	3	1	128	1	0	0	0	0	1	0	0	0	1540	1059	37	1	1319	1	BTBD1	15	83735743	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1399351	83735743	18795649	826	71114											
WDR73	84942	broad.mit.edu	37	chr15	85191826	85191826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgaaaatcctccatggcGcactttgaaatctctttctg	9	14	7	11	1	3	2	0	2	3	0	6	2	5	2	2	1	0	1	2	1	3	2	rs150818024	by1000genomes	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:85191826G>A	uc002bkw.2	-	4	245	c.229C>T	c.(229-231)CGC>TGC	p.R77C	WDR73_uc002bkv.2_RNA|WDR73_uc002bkx.2_RNA|WDR73_uc010upa.1_Missense_Mutation_p.R77C	NM_032856	NP_116245	Q6P4I2	WDR73_HUMAN	WD repeat domain 73	77											0						CCTCCATGGCGCACTTTGAAA	0.433													44	135					0	0	0.01441	0	0		A	85191826	A	A	85191826	3	1	128	1	0	0	0	0	1	0	0	0	17349	1087	38	1	927	1	WDR73	15	85191826	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1456083	85191826	17339566	827	71115											
AGBL1	123624	broad.mit.edu	37	chr15	86838491	86838491	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttctgctccagactcaTcttgacatcctggaaaagag	11	13	7	10	0	3	3	1	1	2	2	5	4	5	4	2	1	1	1	2	1	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:86838491T>C	uc002blz.1	+	16	2168	c.2088T>C	c.(2086-2088)CAT>CAC	p.H696H	AGBL1_uc002bma.1_Silent_p.H427H|AGBL1_uc002bmb.1_Silent_p.H390H	NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	696					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						TCCAGACTCATCTTGACATCC	0.408													11	39					0	0	0.008291	0	0		C	86838491	C	C	86838491	2	2	128	1	0	0	0	0	0	0	0	1	375	1432	50	3		3	AGBL1	15	86838491	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1646665	86838491	15692901	828	71116											
DET1	55070	broad.mit.edu	37	chr15	89074530	89074530	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccggttcaggtgctcaccaTtggccgcaacattggtaatg	8	10	11	12	2	2	0	2	0	0	0	2	0	2	0	3	4	2	4	3	4	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:89074530T>C	uc002bmr.2	-	2	559	c.407A>G	c.(406-408)AAT>AGT	p.N136S	DET1_uc002bmp.3_RNA|DET1_uc010bnk.2_RNA|DET1_uc002bmq.2_Missense_Mutation_p.N147S	NM_001144074	NP_001137546	Q7L5Y6	DET1_HUMAN	de-etiolated 1 isoform 2	136						nucleus				lung(1)|pancreas(1)	2	Lung NSC(78;0.105)|all_lung(78;0.182)		BRCA - Breast invasive adenocarcinoma(143;0.188)			GTGCTCACCATTGGCCGCAAC	0.552													13	59					0	0	0.020292	0	0		C	89074530	C	C	89074530	3	2	128	1	0	0	0	0	1	0	0	0	4456	1493	52	3	1261	3	DET1	15	89074530	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	2236039	89074530	13456862	829	71117											
ANPEP	290	broad.mit.edu	37	chr15	90346503	90346503	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccacaggttcaggtagatGgtgttctggtaggcaaaggt	9	11	14	7	0	2	1	1	0	1	1	3	1	3	1	1	6	0	5	1	6	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:90346503G>A	uc002bop.3	-	10	1828	c.1536C>T	c.(1534-1536)ACC>ACT	p.T512T		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	512	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	TCAGGTAGATGGTGTTCTGGT	0.617													39	170					0	0	0.005524	0	0		A	90346503	A	A	90346503	2	1	128	1	0	0	0	0	0	0	0	1	710	1335	47	4		4	ANPEP	15	90346503	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1271973	90346503	12184889	830	71118											
BLM	641	broad.mit.edu	37	chr15	91346819	91346819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttattcacgacacaatgccGaaagactttttaaaaagctg	15	11	6	9	2	1	1	1	0	0	1	1	3	1	1	1	0	2	1	1	0	6	5	rs140387675		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:91346819G>A	uc002bpr.2	+	18	3524	c.3427G>A	c.(3427-3429)GAA>AAA	p.E1143K	BLM_uc010uqh.1_Missense_Mutation_p.E1143K|BLM_uc010uqi.1_Missense_Mutation_p.E768K|BLM_uc010bnx.2_Intron|BLM_uc002bpt.2_Missense_Mutation_p.E118K	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	1143					double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			ACACAATGCCGAAAGACTTTT	0.373			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				41	147					0	0	0.00874	0	0		A	91346819	A	A	91346819	3	1	128	1	0	0	0	0	1	0	0	0	1446	1059	37	1	3493	1	BLM	15	91346819	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1000316	91346819	11184573	831	71119											
IGF1R	3480	broad.mit.edu	37	chr15	99434589	99434589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgggaagcgggcgtgcaccGagaacaatgagtgctgccac	10	5	16	10	3	0	2	0	1	0	1	0	4	0	3	2	2	5	2	2	2	3	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:99434589G>A	uc002bul.2	+	3	726	c.676G>A	c.(676-678)GAG>AAG	p.E226K	IGF1R_uc010urq.1_Missense_Mutation_p.E226K|IGF1R_uc010bon.2_Missense_Mutation_p.E226K	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	226					anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	GGCGTGCACCGAGAACAATGA	0.647													6	24					0	0	0.004482	0	0		A	99434589	A	A	99434589	3	1	128	1	0	0	0	0	1	0	0	0	7587	1059	37	1	686	1	IGF1R	15	99434589	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	8087770	99434589	3096803	832	71120											
SYNM	23336	broad.mit.edu	37	chr15	99670476	99670476	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgattccatgacagaaacCgtagcagaaaacatcgttac	15	7	9	10	3	0	3	0	1	0	2	2	4	1	3	2	1	4	3	2	1	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr15:99670476C>T	uc002bup.2	+	6	2031	c.1911C>T	c.(1909-1911)ACC>ACT	p.T637T	SYNM_uc002buo.2_Silent_p.T637T|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	637	Tail.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						TGACAGAAACCGTAGCAGAAA	0.502													8	41					0	0	0.00308	0	0		T	99670476	T	T	99670476	2	4	128	1	0	0	0	0	0	0	0	1	15480	639	23	1		1	SYNM	15	99670476	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	235887	99670476	2860916	833	71121											
RAB40C	57799	broad.mit.edu	37	chr16	675439	675439	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctgttgcaggggatccTcttggtgtatgacatcacca	7	13	11	10	0	3	1	1	1	2	0	5	2	4	2	2	3	1	3	2	3	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:675439T>G	uc002chr.2	+	4	388	c.272T>G	c.(271-273)CTC>CGC	p.L91R	RAB40C_uc002chq.2_Missense_Mutation_p.L91R	NM_021168	NP_066991	Q96S21	RB40C_HUMAN	RAB40C, member RAS oncogene family	91					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0		Hepatocellular(780;0.0218)				CAGGGGATCCTCTTGGTGTAT	0.642													10	51					0	0	0.008291	0	0		G	675439	G	G	675439	3	3	128	1	0	0	0	0	1	0	0	0	12967	1551	54	5	286	5	RAB40C	16	675439	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08		675439	89679314	834	71122											
BAIAP3	8938	broad.mit.edu	37	chr16	1396487	1396487	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacagcacatcagtctctcGcctgactccatccagaacga	11	8	7	15	2	2	2	1	1	1	1	6	3	4	2	3	0	3	2	3	0	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:1396487G>A	uc002clk.1	+	26	2643	c.2643G>A	c.(2641-2643)TCG>TCA	p.S881S	BAIAP3_uc002clj.2_Silent_p.S863S|BAIAP3_uc010uuz.1_Silent_p.S846S|BAIAP3_uc010uva.1_Silent_p.S818S|BAIAP3_uc010uvc.1_Silent_p.S810S	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	881					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				TCAGTCTCTCGCCTGACTCCA	0.647													6	11					0	0	0.001984	0	0		A	1396487	A	A	1396487	2	1	128	1	0	0	0	0	0	0	0	1	1305	1074	38	1		1	BAIAP3	16	1396487	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	721048	1396487	88958266	835	71123											
HAGH	3029	broad.mit.edu	37	chr16	1867196	1867196	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggagccggcccaagacCtccagcagagctttacacat	10	5	13	13	1	0	2	0	0	0	2	1	3	1	3	4	4	4	2	4	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:1867196C>A	uc002cna.2	-	6	1025	c.618G>T	c.(616-618)GAG>GAT	p.E206D	HAGH_uc002cmz.2_Missense_Mutation_p.E158D|HAGH_uc010uvp.1_Missense_Mutation_p.R170M|HAGH_uc002cnb.1_Missense_Mutation_p.E158D	NM_005326	NP_005317	Q16775	GLO2_HUMAN	hydroxyacylglutathione hydrolase isoform 1	206					glutathione biosynthetic process	cytoplasm|mitochondrial matrix|mitochondrial matrix	hydroxyacylglutathione hydrolase activity|zinc ion binding			ovary(1)	1		Hepatocellular(780;0.00335)			Glutathione(DB00143)	GGCCCAAGACCTCCAGCAGAG	0.647													15	65					0.000219431	0.000223642	0.020292	1	0		A	1867196	A	A	1867196	3	1	128	1	0	0	0	0	1	0	0	0	6961	680	24	5	324	5	HAGH	16	1867196	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	470709	1867196	88487557	836	71124											
CCNF	899	broad.mit.edu	37	chr16	2487153	2487153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgtctgatgaggcccgcGcagaagtgaatggcctgaag	9	8	15	9	2	1	5	0	4	1	1	1	5	1	5	2	2	0	1	2	2	3	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:2487153G>A	uc002cqd.1	+	5	458	c.370G>A	c.(370-372)GCA>ACA	p.A124T	CCNF_uc002cqe.1_5'UTR	NM_001761	NP_001752	P41002	CCNF_HUMAN	cyclin F	124					cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)				TGAGGCCCGCGCAGAAGTGAA	0.592													78	207					0	0	0.01441	0	0		A	2487153	A	A	2487153	3	1	128	1	0	0	0	0	1	0	0	0	2925	1087	38	1	388	1	CCNF	16	2487153	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	619957	2487153	87867600	837	71125											
AMDHD2	51005	broad.mit.edu	37	chr16	2577820	2577820	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccgggagaagcggggcgcGcaccccgaggcccacctccg	7	1	16	17	6	0	1	0	0	0	1	1	3	1	1	6	4	2	1	6	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:2577820G>A	uc002cqq.2	+	5	559	c.462G>A	c.(460-462)GCG>GCA	p.A154A	AMDHD2_uc002cqp.2_Silent_p.A154A|AMDHD2_uc010uwc.1_Silent_p.A154A|AMDHD2_uc010uwd.1_5'UTR	NM_015944	NP_057028	Q9Y303	NAGA_HUMAN	amidohydrolase domain containing 2 isoform 1	154				A -> T (in Ref. 1; AAD27723).	N-acetylglucosamine metabolic process		N-acetylglucosamine-6-phosphate deacetylase activity			skin(2)|large_intestine(1)|breast(1)	4						AGCGGGGCGCGCACCCCGAGG	0.697													13	22					0	0	0.007413	0	0		A	2577820	A	A	2577820	2	1	128	1	0	0	0	0	0	0	0	1	568	1074	38	1		1	AMDHD2	16	2577820	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	90667	2577820	87776933	838	71126											
SRRM2	23524	broad.mit.edu	37	chr16	2818182	2818182	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcatcatcgtcgtcgtcGtcctcctcctcctctggctc	2	15	6	18	4	4	0	2	0	2	0	13	0	8	0	4	1	0	1	4	1	0	1	rs149616150	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:2818182G>C	uc002crk.2	+	11	8202	c.7653G>C	c.(7651-7653)TCG>TCC	p.S2551S	SRRM2_uc002crj.1_Silent_p.S2455S|SRRM2_uc002crl.1_Silent_p.S2551S|SRRM2_uc010bsu.1_Silent_p.S2455S	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2551	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						cgtcgtcgtcgtcctcctcct	0.368													11	43					0	0	0.013537	0	0		C	2818182	C	C	2818182	2	2	128	1	0	0	0	0	0	0	0	1	15194	1132	40	5		5	SRRM2	16	2818182	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	240362	2818182	87536571	839	71127											
ZSCAN10	84891	broad.mit.edu	37	chr16	3140201	3140201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgagctctggcggaagcGgtggccgcacaggtggcagg	6	5	20	10	4	1	0	0	0	1	0	1	2	1	1	1	7	3	3	1	7	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:3140201G>A	uc002ctv.1	-	5	1157	c.1069C>T	c.(1069-1071)CGC>TGC	p.R357C	ZSCAN10_uc002cty.1_Missense_Mutation_p.R18C|ZSCAN10_uc002ctw.1_Missense_Mutation_p.R275C|ZSCAN10_uc002ctx.1_Missense_Mutation_p.R285C	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	357	C2H2-type 3.				negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						TGGCGGAAGCGGTGGCCGCAC	0.692													34	109					0	0	0.010771	0	0		A	3140201	A	A	3140201	3	1	128	1	0	0	0	0	1	0	0	0	18252	1116	39	1	1112	1	ZSCAN10	16	3140201	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	322019	3140201	87214552	840	71128											
ZNF597	146434	broad.mit.edu	37	chr16	3487250	3487250	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacacatttttggctcctTcccagggagaatcaagaatt	11	13	8	9	0	1	2	1	0	0	2	3	3	3	2	2	2	1	2	2	2	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:3487250T>A	uc002cvd.2	-	4	633	c.449A>T	c.(448-450)GAA>GTA	p.E150V		NM_152457	NP_689670	Q96LX8	ZN597_HUMAN	zinc finger protein 597	150					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTGGCTCCTTCCCAGGGAGA	0.378													97	273					0	0	0.01441	0	0		A	3487250	A	A	3487250	3	1	128	1	0	0	0	0	1	0	0	0	18052	1783	62	5	829	5	ZNF597	16	3487250	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	347049	3487250	86867503	841	71129											
CLUAP1	23059	broad.mit.edu	37	chr16	3558347	3558347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatcaagcagatgggtatgCggtaaaagagctgctgaaga	14	9	13	5	1	1	4	1	1	0	3	1	4	1	4	0	2	4	5	0	2	6	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:3558347C>T	uc002cvk.1	+	4	383	c.278C>T	c.(277-279)GCG>GTG	p.A93V	CLUAP1_uc002cvj.1_Missense_Mutation_p.A93V|CLUAP1_uc002cvl.1_Missense_Mutation_p.A93V|CLUAP1_uc002cvm.1_5'Flank	NM_015041	NP_055856	Q96AJ1	CLUA1_HUMAN	clusterin associated protein 1 isoform 1	93						nucleus	protein binding			ovary(1)|breast(1)|pancreas(1)	3						GATGGGTATGCGGTAAAAGAG	0.403													7	155					0	0	0.001984	0	0		T	3558347	T	T	3558347	3	4	128	1	0	0	0	0	1	0	0	0	3572	768	27	1	292	1	CLUAP1	16	3558347	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	71097	3558347	86796406	842	71130											
TFAP4	7023	broad.mit.edu	37	chr16	4308193	4308193	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcttcacgatgacagctcGccgctgctcctcctccagct	6	9	9	17	3	1	1	1	1	0	0	5	2	4	1	4	1	3	5	4	1	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:4308193G>A	uc010uxg.1	-	7	1134	c.880C>T	c.(880-882)CGA>TGA	p.R294*		NM_003223	NP_003214	Q01664	TFAP4_HUMAN	transcription factor AP-4 (activating enhancer	294					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation by host of viral transcription|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|regulation of S phase of mitotic cell cycle	transcriptional repressor complex	E-box binding|histone deacetylase binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						ATGACAGCTCGCCGCTGCTCC	0.652													12	41					0	0	0.013537	0	0		A	4308193	A	A	4308193	4	1	128	1	0	0	0	0	0	1	0	0	15817	1095	38	1	140	1	TFAP4	16	4308193	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	749846	4308193	86046560	843	71131											
A2BP1	54715	broad.mit.edu	37	chr16	7703854	7703854	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagccaccgccgcggcCgcctaccgaggggcgcacct	6	2	13	20	6	0	0	0	0	0	0	0	1	0	0	8	3	3	2	8	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:7703854C>T	uc002cys.2	+	12	1783	c.795C>T	c.(793-795)GCC>GCT	p.A265A	A2BP1_uc010buf.1_Silent_p.A265A|A2BP1_uc002cyr.1_Silent_p.A264A|A2BP1_uc002cyt.2_Silent_p.A238A|A2BP1_uc010uxz.1_Silent_p.A308A|A2BP1_uc010uya.1_Silent_p.A222A|A2BP1_uc002cyv.1_Silent_p.A265A|A2BP1_uc010uyb.1_Silent_p.A265A|A2BP1_uc002cyw.2_Silent_p.A285A|A2BP1_uc002cyy.2_Silent_p.A285A|A2BP1_uc002cyx.2_Silent_p.A285A|A2BP1_uc010uyc.1_Silent_p.A258A	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	265					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		CCGCCGCGGCCGCCTACCGAG	0.592													6	26					0	0	0.020292	0	0		T	7703854	T	T	7703854	2	4	128	1	0	0	0	0	0	0	0	1	3	639	23	1		1	A2BP1	16	7703854	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3395661	7703854	82650899	844	71132											
TMEM186	25880	broad.mit.edu	37	chr16	8889880	8889880	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggatgcgtccatagcgcaGggtgacgtagaaggtctgtt	9	9	15	8	3	1	2	0	1	1	1	2	3	2	3	1	3	2	3	1	3	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:8889880G>A	uc002cze.2	-	2	605	c.571C>T	c.(571-573)CTG>TTG	p.L191L	PMM2_uc002czf.3_5'Flank|PMM2_uc010uyf.1_5'Flank|PMM2_uc010uyg.1_5'Flank|PMM2_uc010uyh.1_5'Flank|PMM2_uc010buj.2_5'Flank|PMM2_uc010uyi.1_5'Flank|PMM2_uc010uye.1_5'Flank	NM_015421	NP_056236	Q96B77	TM186_HUMAN	transmembrane protein 186	191						integral to membrane|mitochondrion				ovary(1)	1						CCATAGCGCAGGGTGACGTAG	0.542													52	168					0	0	0.01441	0	0		A	8889880	A	A	8889880	2	1	128	1	0	0	0	0	0	0	0	1	16133	991	35	4		4	TMEM186	16	8889880	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1186026	8889880	81464873	845	71133											
TNFRSF17	608	broad.mit.edu	37	chr16	12061469	12061469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taacattgacctggaaaagaGcaggactggtgatgaaatta	16	9	11	5	0	0	4	0	3	0	1	0	6	0	6	1	3	2	1	1	3	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:12061469G>A	uc002dbv.2	+	3	538	c.320G>A	c.(319-321)AGC>AAC	p.S107N	TNFRSF17_uc010buy.2_3'UTR|TNFRSF17_uc010buz.2_Missense_Mutation_p.S58N	NM_001192	NP_001183	Q02223	TNR17_HUMAN	tumor necrosis factor receptor superfamily,	107	Cytoplasmic (Potential).				cell proliferation|multicellular organismal development	endomembrane system|integral to membrane|plasma membrane					0						CTGGAAAAGAGCAGGACTGGT	0.463			T	IL2	intestinal T-cell lymphoma								25	146					0	0	0.004656	0	0		A	12061469	A	A	12061469	3	1	128	1	0	0	0	0	1	0	0	0	16315	971	34	2	330	2	TNFRSF17	16	12061469	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3171589	12061469	78293284	846	71134											
SMG1	23049	broad.mit.edu	37	chr16	18844470	18844470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctggaaatatgatttgccGgaaattcgaattcaattcct	12	15	7	7	2	2	1	1	1	1	0	4	4	3	3	2	2	1	0	2	2	5	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:18844470G>A	uc002dfm.2	-	51	8947	c.8584C>T	c.(8584-8586)CGG>TGG	p.R2862W	SMG1_uc010bwb.2_Missense_Mutation_p.R2722W|SMG1_uc010bwa.2_Missense_Mutation_p.R1593W	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2862					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						ATGATTTGCCGGAAATTCGAA	0.343													16	74					0	0	0.004007	0	0		A	18844470	A	A	18844470	3	1	128	1	0	0	0	0	1	0	0	0	14820	1115	39	1	2453	1	SMG1	16	18844470	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	6783001	18844470	71510283	847	71135											
SYT17	51760	broad.mit.edu	37	chr16	19195148	19195148	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcgtgatcgaggccagggaCctgccacctcccatctccca	7	6	10	18	3	1	1	0	1	1	0	4	3	2	2	6	2	1	0	6	2	0	0	rs143824200		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:19195148C>T	uc002dfw.2	+	5	961	c.630C>T	c.(628-630)GAC>GAT	p.D210D	SYT17_uc002dfx.2_Silent_p.D149D|SYT17_uc002dfy.2_Silent_p.D206D|SYT17_uc002dfv.1_Silent_p.D149D	NM_016524	NP_057608	Q9BSW7	SYT17_HUMAN	B/K protein	210	C2 1.					membrane|synaptic vesicle	transporter activity			ovary(1)	1						AGGCCAGGGACCTGCCACCTC	0.602													13	274					0	0	0.003163	0	0		T	19195148	T	T	19195148	2	4	128	1	0	0	0	0	0	0	0	1	15498	506	18	4		4	SYT17	16	19195148	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	350678	19195148	71159605	848	71136											
TMC5	79838	broad.mit.edu	37	chr16	19501878	19501878	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcacttctttttcatcctcaCcctcattgtgctgtgagtgt	5	17	7	12	0	4	1	3	1	1	0	5	1	5	1	2	0	1	2	2	0	0	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:19501878C>A	uc002dgc.3	+	18	3484	c.2735C>A	c.(2734-2736)ACC>AAC	p.T912N	TMC5_uc010vaq.1_Missense_Mutation_p.T860N|TMC5_uc002dgb.3_Intron|TMC5_uc010var.1_Missense_Mutation_p.T912N|TMC5_uc002dgd.1_Missense_Mutation_p.T666N|TMC5_uc002dge.3_Missense_Mutation_p.T666N|TMC5_uc002dgf.3_Missense_Mutation_p.T595N|TMC5_uc002dgg.3_Missense_Mutation_p.T553N	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	912	Helical; (Potential).					integral to membrane				skin(1)	1						TTCATCCTCACCCTCATTGTG	0.512													81	265					3.91271e-57	4.35912e-57	0.01441	1	0		A	19501878	A	A	19501878	3	1	128	1	0	0	0	0	1	0	0	0	16013	507	18	5	3111	5	TMC5	16	19501878	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	306730	19501878	70852875	849	71137											
ACSM2A	123876	broad.mit.edu	37	chr16	20482476	20482476	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcactagtgggaccagtggTcttcccaagatggcagaaca	11	9	11	10	0	2	2	1	0	1	2	3	3	3	3	2	3	1	1	2	3	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:20482476T>C	uc010bwe.2	+	6	917	c.678T>C	c.(676-678)GGT>GGC	p.G226G	ACSM2A_uc010bwd.1_Intron|ACSM2A_uc010vax.1_Silent_p.G147G|ACSM2A_uc002dhf.3_Silent_p.G226G|ACSM2A_uc002dhg.3_Silent_p.G226G|ACSM2A_uc010vay.1_Silent_p.G147G	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	226	ATP.				fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						GGACCAGTGGTCTTCCCAAGA	0.512													37	100					0	0	0.01441	0	0		C	20482476	C	C	20482476	2	2	128	1	0	0	0	0	0	0	0	1	183	1654	58	3		3	ACSM2A	16	20482476	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	980598	20482476	69872277	850	71138											
DNAH3	55567	broad.mit.edu	37	chr16	20975756	20975756	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcctcatgtactcaactccTtgctgtttgaatgttgcctt	7	16	7	11	0	2	1	2	1	0	0	3	1	3	1	3	0	5	4	3	0	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:20975756T>C	uc010vbe.1	-	53	9450	c.9450A>G	c.(9448-9450)CAA>CAG	p.Q3150Q	DNAH3_uc010vbd.1_Silent_p.Q585Q	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3150	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ACTCAACTCCTTGCTGTTTGA	0.443													89	265					0	0	0.01441	0	0		C	20975756	C	C	20975756	2	2	128	1	0	0	0	0	0	0	0	1	4609	1606	56	3		3	DNAH3	16	20975756	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	493280	20975756	69378997	851	71139											
HS3ST2	9956	broad.mit.edu	37	chr16	22826074	22826074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgacctgggtcggagccGcctcctcggcgcgcctcgct	3	6	14	18	8	0	0	0	0	0	0	4	3	1	1	5	3	1	1	5	3	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:22826074G>A	uc002dli.2	+	1	215	c.143G>A	c.(142-144)CGC>CAC	p.R48H	HS3ST2_uc002dlj.2_RNA	NM_006043	NP_006034	Q9Y278	HS3S2_HUMAN	heparan sulfate D-glucosaminyl	48	Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 2 activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(48;0.0299)		GGTCGGAGCCGCCTCCTCGGC	0.706													4	11					0	0	0.001168	0	0		A	22826074	A	A	22826074	3	1	128	1	0	0	0	0	1	0	0	0	7380	1087	38	1	145	1	HS3ST2	16	22826074	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1850318	22826074	67528679	852	71140											
CHP2	63928	broad.mit.edu	37	chr16	23767738	23767738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctctatgacctggatcgcGatgggaagatctccaggcat	10	9	12	10	2	2	2	0	1	2	1	4	5	2	4	2	3	1	2	2	3	2	1	rs79455352	by1000genomes	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:23767738G>A	uc002dmb.1	+	5	805	c.382G>A	c.(382-384)GAT>AAT	p.D128N		NM_022097	NP_071380	O43745	CHP2_HUMAN	hepatocellular carcinoma antigen gene 520	128	EF-hand 3.|1 (Potential).						calcium ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(48;0.0144)		CCTGGATCGCGATGGGAAGAT	0.537													15	41					0	0	0.004007	0	0		A	23767738	A	A	23767738	3	1	128	1	0	0	0	0	1	0	0	0	3370	1058	37	1	400	1	CHP2	16	23767738	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	941664	23767738	66587015	853	71141											
GTF3C1	2975	broad.mit.edu	37	chr16	27514179	27514179	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacagacagacagctccttaCgtgaataaactctcgattaa	15	9	7	10	2	1	3	0	1	1	2	3	5	2	3	1	0	3	1	1	0	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:27514179C>T	uc002dov.1	-	11	1947	c.1907_splice	c.e11+1	p.T636_splice	GTF3C1_uc002dou.2_Splice_Site_p.T636_splice	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide							transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						cagCTCCTTACGTGAATAAAC	0.418													6	12					0	0	0.001168	0	0		T	27514179	T	T	27514179	5	4	128	1	0	0	0	0	0	0	1	0	6888	550	19	1	4529	1	GTF3C1	16	27514179	Splice_Site	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3746441	27514179	62840574	854	71142											
XPO6	23214	broad.mit.edu	37	chr16	28167579	28167579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggacccccagccggccgcGctcctgacccgagacacagt	8	3	11	19	4	0	2	0	1	0	1	1	4	1	3	6	2	1	1	6	2	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:28167579G>A	uc002dpa.1	-	7	1414	c.913C>T	c.(913-915)CGC>TGC	p.R305C	XPO6_uc002dpb.1_Missense_Mutation_p.R291C|XPO6_uc010vcp.1_Missense_Mutation_p.R305C	NM_015171	NP_055986	Q96QU8	XPO6_HUMAN	exportin 6	305					protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2						AGCCGGCCGCGCTCCTGACCC	0.537													28	60					0	0	0.013726	0	0		A	28167579	A	A	28167579	3	1	128	1	0	0	0	0	1	0	0	0	17474	1087	38	1	2536	1	XPO6	16	28167579	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	653400	28167579	62187174	855	71143											
ITGAD	3681	broad.mit.edu	37	chr16	31434704	31434704	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagcgagatctggccaTcagcattaacttctgggttc	9	10	10	12	1	3	1	1	0	2	1	4	2	3	1	2	2	4	2	2	2	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:31434704T>C	uc002ebv.1	+	25	2940	c.2891T>C	c.(2890-2892)ATC>ACC	p.I964T	ITGAD_uc010cap.1_Missense_Mutation_p.I965T	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	964	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						GATCTGGCCATCAGCATTAAC	0.547													35	80					0	0	0.021022	0	0		C	31434704	C	C	31434704	3	2	128	1	0	0	0	0	1	0	0	0	7900	1435	50	3	2989	3	ITGAD	16	31434704	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	3267125	31434704	58920049	856	71144											
ABCC12	94160	broad.mit.edu	37	chr16	48174686	48174686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccttcaaccggatggccGtgcggtagttgatggcccag	7	8	13	13	3	1	1	1	1	0	0	1	2	1	2	5	4	2	2	5	4	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:48174686G>A	uc002efc.1	-	4	915	c.569C>T	c.(568-570)ACG>ATG	p.T190M	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.T190M|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	190	ABC transmembrane type-1 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CCGGATGGCCGTGCGGTAGTT	0.532													63	180					0	0	0.01441	0	0		A	48174686	A	A	48174686	3	1	128	1	0	0	0	0	1	0	0	0	52	1145	40	1	3614	1	ABCC12	16	48174686	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	16739982	48174686	42180067	857	71145											
NKD1	85407	broad.mit.edu	37	chr16	50667286	50667286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagctccagcaacggctccGgggcacccaggacgggagca	10	2	15	14	3	0	1	0	0	0	1	2	3	2	3	3	5	4	5	3	5	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:50667286G>A	uc002egg.1	+	10	1231	c.1007G>A	c.(1006-1008)CGG>CAG	p.R336Q		NM_033119	NP_149110	Q969G9	NKD1_HUMAN	naked cuticle homolog 1	336					Wnt receptor signaling pathway	cytoplasm|plasma membrane	calcium ion binding|protein binding				0		all_cancers(37;0.229)		GBM - Glioblastoma multiforme(240;0.243)		CAACGGCTCCGGGGCACCCAG	0.642													58	139					0	0	0.01441	0	0		A	50667286	A	A	50667286	3	1	128	1	0	0	0	0	1	0	0	0	10460	1116	39	1	1045	1	NKD1	16	50667286	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2492600	50667286	39687467	858	71146											
CHD9	80205	broad.mit.edu	37	chr16	53358011	53358011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtaagcaggcgggggagacGgcctaaaagtggaattgcaa	14	5	16	6	2	0	1	0	0	0	1	0	3	0	2	1	5	2	3	1	5	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:53358011G>A	uc002ehb.2	+	38	8062	c.7898G>A	c.(7897-7899)CGG>CAG	p.R2633Q	CHD9_uc002egy.2_Missense_Mutation_p.R2617Q|CHD9_uc002ehc.2_Missense_Mutation_p.R2618Q|CHD9_uc002ehf.2_Missense_Mutation_p.R1731Q|CHD9_uc010cbw.2_Missense_Mutation_p.R699Q	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	2633					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				CGGGGGAGACGGCCTAAAAGT	0.483													49	189					0	0	0.01441	0	0		A	53358011	A	A	53358011	3	1	128	1	0	0	0	0	1	0	0	0	3335	1116	39	1	8000	1	CHD9	16	53358011	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2690725	53358011	36996742	859	71147											
NUDT21	11051	broad.mit.edu	37	chr16	56485017	56485017	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggttgatggtgcgctccAgggtgaggggcttcgtctgc	5	10	17	9	2	1	2	0	2	1	0	3	2	2	2	1	5	2	3	1	5	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:56485017A>C	uc002eja.2	-	1	245	c.98T>G	c.(97-99)CTG>CGG	p.L33R	OGFOD1_uc002ejb.2_5'Flank|OGFOD1_uc002ejc.2_5'Flank	NM_007006	NP_008937	O43809	CPSF5_HUMAN	cleavage and polyadenylation specific factor 5	33	Necessary for RNA-binding.				mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|protein tetramerization|termination of RNA polymerase II transcription	centrosome|mRNA cleavage factor complex|paraspeckles	AU-rich element binding|histone deacetylase binding|hydrolase activity|mRNA binding|protein homodimerization activity				0						GGTGCGCTCCAGGGTGAGGGG	0.637													33	160					0	0	0.013726	0	0		C	56485017	C	C	56485017	3	2	128	1	0	0	0	0	1	0	0	0	10757	188	7	5	613	5	NUDT21	16	56485017	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	3127006	56485017	33869736	860	71148											
BBS2	583	broad.mit.edu	37	chr16	56536265	56536265	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagttacggagttccagcaaCagattctgcttcttctgact	9	14	8	10	1	3	2	0	1	3	1	4	3	4	3	1	1	4	4	1	1	3	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:56536265C>T	uc002ejd.2	-	9	1278	c.1044G>A	c.(1042-1044)CTG>CTA	p.L348L	BBS2_uc010ccg.2_3'UTR	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein	348					adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						GTTCCAGCAACAGATTCTGCT	0.537									Bardet-Biedl_syndrome				96	272					0	0	0.01441	0	0		T	56536265	T	T	56536265	2	4	128	1	0	0	0	0	0	0	0	1	1339	465	17	4		4	BBS2	16	56536265	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	51248	56536265	33818488	861	71149											
CX3CL1	6376	broad.mit.edu	37	chr16	57416231	57416231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagagctgccgacgggcGtgactggttcctcagggacc	6	6	14	15	3	1	2	1	1	0	1	2	4	2	3	5	3	2	2	5	3	0	1	rs138964688	by1000genomes	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:57416231G>A	uc002eli.2	+	3	548	c.481G>A	c.(481-483)GTG>ATG	p.V161M		NM_002996	NP_002987	P78423	X3CL1_HUMAN	chemokine (C-X3-C motif) ligand 1 precursor	161	Mucin-like stalk.|Extracellular (Potential).				cell adhesion|cytokine-mediated signaling pathway|defense response|immune response|leukocyte adhesive activation|positive regulation of calcium-independent cell-cell adhesion|positive regulation of inflammatory response	cell surface|extracellular space|integral to membrane|plasma membrane	chemokine activity				0						GCCGACGGGCGTGACTGGTTC	0.672													24	68					0	0	0.009535	0	0		A	57416231	A	A	57416231	3	1	128	1	0	0	0	0	1	0	0	0	4077	1145	40	1	491	1	CX3CL1	16	57416231	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	879966	57416231	32938522	862	71150											
CCDC135	84229	broad.mit.edu	37	chr16	57760170	57760170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaacaagatcatcatgaCgcccgacatgtgcatcagct	13	7	9	12	2	3	2	3	1	0	1	3	3	3	2	1	1	3	3	1	1	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:57760170C>T	uc002emi.2	+	13	2038	c.1949C>T	c.(1948-1950)ACG>ATG	p.T650M	CCDC135_uc002emj.2_Missense_Mutation_p.T650M|CCDC135_uc002emk.2_Missense_Mutation_p.T585M	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	650						cytoplasm				central_nervous_system(1)	1						ATCATCATGACGCCCGACATG	0.642													17	95					0	0	0.006122	0	0		T	57760170	T	T	57760170	3	4	128	1	0	0	0	0	1	0	0	0	2772	536	19	1	1995	1	CCDC135	16	57760170	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	343939	57760170	32594583	863	71151											
CCDC113	29070	broad.mit.edu	37	chr16	58296349	58296349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagttgaagatagagaacGctcaatttcttgagacaatt	15	11	9	6	1	2	4	1	2	1	3	2	6	2	4	0	0	2	3	0	0	5	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:58296349G>A	uc002ene.2	+	6	767	c.688G>A	c.(688-690)GCT>ACT	p.A230T	CCDC113_uc010vid.1_Missense_Mutation_p.A176T	NM_014157	NP_054876	Q9H0I3	CC113_HUMAN	coiled-coil domain containing 113 isoform 1	230	Potential.					protein complex					0						GATAGAGAACGCTCAATTTCT	0.423													8	219					0	0	0.004482	0	0		A	58296349	A	A	58296349	3	1	128	1	0	0	0	0	1	0	0	0	2753	1087	38	1	710	1	CCDC113	16	58296349	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	536179	58296349	32058404	864	71152											
CDH11	1009	broad.mit.edu	37	chr16	65005898	65005898	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcataaggggcagcaaacTtgggagcattatcgttgaca	12	10	11	8	1	1	1	1	1	0	0	2	2	1	2	0	3	3	4	0	3	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:65005898T>A	uc002eoi.2	-	10	1894	c.1460A>T	c.(1459-1461)AAG>ATG	p.K487M	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Missense_Mutation_p.K487M|CDH11_uc010vin.1_Missense_Mutation_p.K361M	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	487	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		GGCAGCAAACTTGGGAGCATT	0.473			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			7	58					0	0	0.001984	0	0		A	65005898	A	A	65005898	3	1	128	1	0	0	0	0	1	0	0	0	3100	1609	56	5	946	5	CDH11	16	65005898	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	6709549	65005898	25348855	865	71153											
CDH16	1014	broad.mit.edu	37	chr16	66948222	66948222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagacttccacggtggcaGtggcctggtggcctgaggcc	5	8	17	11	1	0	2	0	1	0	1	1	3	1	2	4	7	0	1	4	7	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:66948222G>A	uc002eql.2	-	7	750	c.677C>T	c.(676-678)ACT>ATT	p.T226I	CDH16_uc010cdy.2_Missense_Mutation_p.T226I|CDH16_uc002eqm.2_Missense_Mutation_p.T129I	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	226	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		CACGGTGGCAGTGGCCTGGTG	0.592													17	127					0	0	0.007413	0	0		A	66948222	A	A	66948222	3	1	128	1	0	0	0	0	1	0	0	0	3104	1029	36	4	1860	4	CDH16	16	66948222	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1942324	66948222	23406531	866	71154											
B3GNT9	84752	broad.mit.edu	37	chr16	67184159	67184159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaaagggtcccgtaggcGtgggcggcgccggtgtgtcc	5	7	18	11	5	1	0	1	0	0	0	3	0	3	0	3	5	0	1	3	5	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:67184159G>A	uc002erf.2	-	2	551	c.230C>T	c.(229-231)ACG>ATG	p.T77M	uc002erg.1_3'UTR	NM_033309	NP_171608	Q6UX72	B3GN9_HUMAN	UDP-GlcNAc:betaGal	77	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0						TCCCGTAGGCGTGGGCGGCGC	0.716													10	28					0	0	0.010729	0	0		A	67184159	A	A	67184159	3	1	128	1	0	0	0	0	1	0	0	0	1265	1145	40	1	982	1	B3GNT9	16	67184159	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	235937	67184159	23170594	867	71155											
ACD	65057	broad.mit.edu	37	chr16	67692931	67692931	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcacacgagtgcccccTgatgctcctggtcctcccgc	5	7	10	19	2	0	1	0	1	0	0	3	2	3	1	6	2	2	2	6	2	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:67692931T>C	uc002etq.3	-	7	1140	c.803A>G	c.(802-804)CAG>CGG	p.Q268R	ACD_uc002etp.3_Missense_Mutation_p.Q265R|ACD_uc002etr.3_Missense_Mutation_p.Q265R|ACD_uc010vjt.1_3'UTR|PARD6A_uc002ets.2_5'Flank|PARD6A_uc002ett.2_5'Flank|PARD6A_uc002etu.2_5'Flank	NM_001082486	NP_001075955	Q96AP0	ACD_HUMAN	adrenocortical dysplasia homolog isoform 1	268	Interaction with POT1.				intracellular protein transport|negative regulation of telomere maintenance via telomerase|positive regulation of single-stranded telomeric DNA binding|positive regulation of telomerase activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|telomere assembly	nuclear telomere cap complex|nucleoplasm	DNA binding|DNA polymerase binding			pancreas(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		GAGTGCCCCCTGATGCTCCTG	0.622													30	107					0	0	0.010818	0	0		C	67692931	C	C	67692931	3	2	128	1	0	0	0	0	1	0	0	0	135	1580	55	3	855	3	ACD	16	67692931	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	508772	67692931	22661822	868	71156											
DUS2L	54920	broad.mit.edu	37	chr16	68104974	68104974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcaaggagggtctgcGgcccctggaggaggtcatgc	6	8	15	12	1	3	0	2	0	1	0	4	3	4	3	3	6	2	0	3	6	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:68104974G>A	uc002evi.2	+	12	922	c.773G>A	c.(772-774)CGG>CAG	p.R258Q	DUS2L_uc002evj.2_Missense_Mutation_p.R258Q|DUS2L_uc010vkk.1_Missense_Mutation_p.R223Q|DUS2L_uc010cez.2_Missense_Mutation_p.R171Q	NM_017803	NP_060273	Q9NX74	DUS2L_HUMAN	dihydrouridine synthase 2-like, SMM1 homolog	258					tRNA processing	endoplasmic reticulum	double-stranded RNA binding|flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0131)|Epithelial(162;0.0564)		GAGGGTCTGCGGCCCCTGGAG	0.527													33	104					0	0	0.006999	0	0		A	68104974	A	A	68104974	3	1	128	1	0	0	0	0	1	0	0	0	4812	1116	39	1	811	1	DUS2L	16	68104974	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	412043	68104974	22249779	869	71157											
NOB1	28987	broad.mit.edu	37	chr16	69782198	69782198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcagcatgccgttcaccGccagcacgtgcagccccatc	9	6	9	17	3	2	0	2	0	0	0	3	1	2	0	5	0	5	4	5	0	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:69782198G>A	uc002exs.2	-	7	777	c.761C>T	c.(760-762)GCG>GTG	p.A254V		NM_014062	NP_054781	Q9ULX3	NOB1_HUMAN	nin one binding protein	254						nucleus	metal ion binding|protein binding				0						GCCGTTCACCGCCAGCACGTG	0.488													17	48					0	0	0.010504	0	0		A	69782198	A	A	69782198	3	1	128	1	0	0	0	0	1	0	0	0	10530	1087	38	1	489	1	NOB1	16	69782198	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1677224	69782198	20572555	870	71158											
COG4	25839	broad.mit.edu	37	chr16	70514920	70514920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatccaggcagctacaggCgcagcctcttgatatcttca	9	10	8	14	1	4	1	2	1	2	0	5	1	5	1	2	2	3	3	2	2	2	4	rs142971847		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:70514920C>T	uc002ezc.2	-	19	2374	c.2363G>A	c.(2362-2364)CGC>CAC	p.R788H	COG4_uc002eza.2_Missense_Mutation_p.R125H|COG4_uc002ezb.2_Missense_Mutation_p.R244H|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Missense_Mutation_p.R767H|COG4_uc002eze.2_Missense_Mutation_p.R482H	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	784	E domain; essential for proper cell surface glycosylation.				Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)				CAGCTACAGGCGCAGCCTCTT	0.627													23	70					0	0	0.009535	0	0		T	70514920	T	T	70514920	3	4	128	1	0	0	0	0	1	0	0	0	3663	768	27	1	10	1	COG4	16	70514920	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	732722	70514920	19839833	871	71159											
IL34	146433	broad.mit.edu	37	chr16	70693588	70693588	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccccagggccaaacctgaAgctggtgcggcccaaagccc	9	4	12	16	1	0	1	0	1	0	0	0	1	0	1	6	3	5	1	6	3	3	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:70693588A>T	uc002ezh.1	+	5	853	c.470A>T	c.(469-471)AAG>ATG	p.K157M	IL34_uc002ezi.1_Missense_Mutation_p.K156M	NM_152456	NP_689669	Q6ZMJ4	IL34_HUMAN	interleukin 34 precursor	157					positive regulation of cell proliferation|positive regulation of protein phosphorylation	extracellular space	cytokine activity|growth factor activity|macrophage colony-stimulating factor receptor binding			central_nervous_system(1)|skin(1)	2						CCAAACCTGAAGCTGGTGCGG	0.617													8	34					0	0	0.00308	0	0		T	70693588	T	T	70693588	3	4	128	1	0	0	0	0	1	0	0	0	7710	72	3	5	488	5	IL34	16	70693588	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	178668	70693588	19661165	872	71160											
MTSS1L	92154	broad.mit.edu	37	chr16	70697624	70697624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgttggtgacggtcctgcGgagccggaccccacgccgga	5	6	16	14	6	0	1	0	1	0	0	2	4	1	4	5	5	2	1	5	5	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:70697624G>A	uc002ezj.2	-	15	2460	c.2200C>T	c.(2200-2202)CGC>TGC	p.R734C		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	734	WH2.				filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						ACGGTCCTGCGGAGCCGGACC	0.721													4	5					0	0	0.014758	0	0		A	70697624	A	A	70697624	3	1	128	1	0	0	0	0	1	0	0	0	9981	1116	39	1	47	1	MTSS1L	16	70697624	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4036	70697624	19657129	873	71161											
PHLPP2	23035	broad.mit.edu	37	chr16	71715761	71715761	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatgctcaggaacctcctcGaggctgtaacacgagagatc	12	7	11	11	2	1	2	1	0	0	2	4	6	2	3	2	2	3	3	2	2	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:71715761G>A	uc002fax.2	-	5	789	c.783C>T	c.(781-783)CTC>CTT	p.L261L	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Silent_p.L261L|PHLPP2_uc002fay.1_Silent_p.L261L	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	261	LRR 1.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						GAACCTCCTCGAGGCTGTAAC	0.478													36	113					0	0	0.019004	0	0		A	71715761	A	A	71715761	2	1	128	1	0	0	0	0	0	0	0	1	11874	1045	37	1		1	PHLPP2	16	71715761	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1018137	71715761	18638992	874	71162											
WDR59	79726	broad.mit.edu	37	chr16	74976648	74976648	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttactcaccctcttatcccaTatccgcacatcgccgtcatg	8	12	4	17	3	3	0	2	0	1	0	6	0	5	0	4	0	1	1	4	0	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:74976648T>C	uc002fdh.1	-	7	624	c.522A>G	c.(520-522)ATA>ATG	p.I174M	WDR59_uc002fdi.2_Missense_Mutation_p.I174M|WDR59_uc002fdj.2_Missense_Mutation_p.I174M	NM_030581	NP_085058	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	174	WD 3.									ovary(1)|breast(1)	2						TCTTATCCCATATCCGCACAT	0.473													24	79					0	0	0.010818	0	0		C	74976648	C	C	74976648	3	2	128	1	0	0	0	0	1	0	0	0	17334	1396	49	3	2482	3	WDR59	16	74976648	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	3260887	74976648	15378105	875	71163											
TERF2IP	54386	broad.mit.edu	37	chr16	75681991	75681991	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccagcccggggaggcgCtggccgaggcctcgggtgat	4	5	19	13	4	0	1	0	1	0	0	1	3	0	2	4	7	1	1	4	7	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:75681991C>T	uc002fet.1	+	1	308	c.211C>T	c.(211-213)CTG>TTG	p.L71L	KARS_uc002fer.2_5'Flank|KARS_uc002feq.2_5'Flank|KARS_uc002fes.2_5'Flank|KARS_uc010cha.1_Intron	NM_018975	NP_061848	Q9NYB0	TE2IP_HUMAN	telomeric repeat binding factor 2, interacting	71					negative regulation of DNA recombination at telomere|negative regulation of telomere maintenance|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of double-strand break repair via homologous recombination|telomere maintenance via telomerase|transcription, DNA-dependent	cytoplasm|nuclear telomere cap complex|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1						CGGGGAGGCGCTGGCCGAGGC	0.716													5	9					0	0	0.014758	0	0		T	75681991	T	T	75681991	2	4	128	1	0	0	0	0	0	0	0	1	15788	796	28	2		2	TERF2IP	16	75681991	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	705343	75681991	14672762	876	71164											
CDYL2	124359	broad.mit.edu	37	chr16	80718806	80718806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttctcaaccgacgggcctCgactgtcacgcagcagcttg	7	9	11	14	4	2	0	2	0	1	0	4	2	2	0	2	1	3	4	2	1	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:80718806C>T	uc002ffs.2	-	2	350	c.245G>A	c.(244-246)CGA>CAA	p.R82Q		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	82						nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						CGACGGGCCTCGACTGTCACG	0.527													41	107					0	0	0.00623	0	0		T	80718806	T	T	80718806	3	4	128	1	0	0	0	0	1	0	0	0	3189	884	31	1	1299	1	CDYL2	16	80718806	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5036815	80718806	9635947	877	71165											
PKD1L2	114780	broad.mit.edu	37	chr16	81211460	81211460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcccagggctgtggaggCgttgcagaagatggcaaagc	9	6	18	8	1	0	2	0	0	0	2	1	3	1	3	1	5	2	4	1	5	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:81211460C>T	uc002fgh.1	-	14	2389	c.2389G>A	c.(2389-2391)GCC>ACC	p.A797T	PKD1L2_uc002fgg.1_RNA|PKD1L2_uc002fgi.2_Missense_Mutation_p.A112T|PKD1L2_uc002fgj.2_Missense_Mutation_p.A797T|PKD1L2_uc002fgk.1_5'UTR|PKD1L2_uc002fgl.1_Intron	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	797	REJ.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GCTGTGGAGGCGTTGCAGAAG	0.592													47	191					0	0	0.01441	0	0		T	81211460	T	T	81211460	3	4	128	1	0	0	0	0	1	0	0	0	11984	768	27	1	5179	1	PKD1L2	16	81211460	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	492654	81211460	9143293	878	71166											
KCNG4	93107	broad.mit.edu	37	chr16	84256030	84256030	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaggtgtggaagatagaCgtggccgggaaggccatgat	12	6	18	5	2	0	4	0	1	0	3	0	7	0	6	2	5	0	0	2	5	4	1	rs113215329	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:84256030C>T	uc010voc.1	-	3	1474	c.1353G>A	c.(1351-1353)ACG>ACA	p.T451T		NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	451	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						GGAAGATAGACGTGGCCGGGA	0.642													63	142					0	0	0.01441	0	0		T	84256030	T	T	84256030	2	4	128	1	0	0	0	0	0	0	0	1	8046	523	19	1		1	KCNG4	16	84256030	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3044570	84256030	6098723	879	71167											
FOXC2	2303	broad.mit.edu	37	chr16	86601603	86601603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgaggcggcgtccccggCgctgccggtcatcaccaagg	6	4	16	15	6	2	0	2	0	0	0	3	2	3	0	4	5	2	1	4	5	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:86601603C>T	uc002fjq.2	+	1	747	c.662C>T	c.(661-663)GCG>GTG	p.A221V		NM_005251	NP_005242	Q99958	FOXC2_HUMAN	forkhead box C2	221					anti-apoptosis|artery morphogenesis|blood vessel remodeling|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|embryonic viscerocranium morphogenesis|insulin receptor signaling pathway|lymphangiogenesis|metanephros development|negative regulation of transcription from RNA polymerase II promoter|neural crest cell fate commitment|Notch signaling pathway|ossification|paraxial mesodermal cell fate commitment|patterning of blood vessels|positive regulation of cell adhesion mediated by integrin|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of vascular wound healing|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding|transcription regulatory region DNA binding				0						GCGTCCCCGGCGCTGCCGGTC	0.766									Late-onset_Hereditary_Lymphedema				5	9					0	0	0.001168	0	0		T	86601603	T	T	86601603	3	4	128	1	0	0	0	0	1	0	0	0	6009	768	27	1	664	1	FOXC2	16	86601603	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2345573	86601603	3753150	880	71168											
ZCCHC14	23174	broad.mit.edu	37	chr16	87445714	87445714	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttcagggacggaggacagCgccgggctggagctgggggc	6	5	20	10	3	1	0	1	0	0	0	1	4	1	4	1	7	2	2	1	7	0	1	rs142665318		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:87445714C>T	uc002fjz.1	-	12	2229	c.2202G>A	c.(2200-2202)GCG>GCA	p.A734A	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Silent_p.A510A	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	734	Ser-rich.				cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		CGGAGGACAGCGCCGGGCTGG	0.572													13	88					0	0	0.003163	0	0		T	87445714	T	T	87445714	2	4	128	1	0	0	0	0	0	0	0	1	17608	755	27	1		1	ZCCHC14	16	87445714	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	844111	87445714	2909039	881	71169											
PABPN1L	390748	broad.mit.edu	37	chr16	88931440	88931440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacactgaccccttggggtGtccagagaacttgtcacaca	10	8	9	14	0	1	2	1	1	0	1	2	3	2	2	4	2	1	0	4	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:88931440G>A	uc010vpe.1	-	4	556	c.556C>T	c.(556-558)CAC>TAC	p.H186Y	PABPN1L_uc010vpd.1_Missense_Mutation_p.H186Y|PABPN1L_uc002fmi.2_Missense_Mutation_p.H186Y|PABPN1L_uc002fmj.2_Intron	NM_001080487	NP_001073956	A6NDY0	EPAB2_HUMAN	similar to poly(A)binding protein nuclear-like	186	RRM.					cytoplasm	nucleotide binding|RNA binding				0						CCCTTGGGGTGTCCAGAGAAC	0.572													4	8					0	0	0.009096	0	0		A	88931440	A	A	88931440	3	1	128	1	0	0	0	0	1	0	0	0	11388	1377	48	4	328	4	PABPN1L	16	88931440	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1485726	88931440	1423313	882	71170											
C16orf7	9605	broad.mit.edu	37	chr16	89783024	89783024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcatggttggcttcaggcGtgttttccctgcaagccatg	6	12	13	10	1	1	0	1	0	0	0	2	0	2	0	2	4	2	5	2	4	1	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:89783024G>A	uc002fom.1	-	4	402	c.277C>T	c.(277-279)CGC>TGC	p.R93C	C16orf7_uc002fol.1_Missense_Mutation_p.R23C|uc002fon.1_RNA|uc002foo.1_Translation_Start_Site	NM_004913	NP_004904	Q9Y2B5	CP007_HUMAN	chromosome 16 open reading frame 7	93					ATP synthesis coupled proton transport		GTPase activator activity|transporter activity				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GGCTTCAGGCGTGTTTTCCCT	0.617													44	149					0	0	0.01441	0	0		A	89783024	A	A	89783024	3	1	128	1	0	0	0	0	1	0	0	0	1831	1145	40	1	1666	1	C16orf7	16	89783024	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	851584	89783024	571729	883	71171											
ZNF276	92822	broad.mit.edu	37	chr16	89789790	89789790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctccgagtactgcggcGtcatccaggtcgtgtggggc	4	10	15	12	4	1	0	1	0	0	0	5	1	4	0	3	4	2	1	3	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:89789790G>A	uc002fos.3	+	4	776	c.679G>A	c.(679-681)GTC>ATC	p.V227I	C16orf7_uc002fom.1_5'Flank|ZNF276_uc010ciq.2_Silent_p.A23A|ZNF276_uc002fop.2_Silent_p.A145A|ZNF276_uc002foq.3_Missense_Mutation_p.V152I|ZNF276_uc010cir.2_RNA|ZNF276_uc002for.3_Silent_p.A23A|ZNF276_uc010cis.2_5'UTR|ZNF276_uc002fot.3_RNA|ZNF276_uc010vpm.1_Missense_Mutation_p.V65I|ZNF276_uc010cit.1_5'UTR	NM_001113525	NP_001106997	Q8N554	ZN276_HUMAN	zinc finger protein 276 isoform a	227					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0278)		GTACTGCGGCGTCATCCAGGT	0.652													24	64					0	0	0.00632	0	0		A	89789790	A	A	89789790	3	1	128	1	0	0	0	0	1	0	0	0	17836	1145	40	1	693	1	ZNF276	16	89789790	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	6766	89789790	564963	884	71172											
TUBB3	10381	broad.mit.edu	37	chr16	90001343	90001343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtgaggagtatcccgacCgcatcatgaacaccttcagc	10	8	10	13	3	2	2	2	2	0	0	3	4	3	3	3	1	3	2	3	1	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:90001343C>T	uc002fph.1	+	4	549	c.484C>T	c.(484-486)CGC>TGC	p.R162C	TUBB3_uc002fpf.2_Missense_Mutation_p.R509C|TUBB3_uc010ciz.1_Missense_Mutation_p.R90C|TUBB3_uc002fpg.1_Missense_Mutation_p.R16C|TUBB3_uc002fpi.1_Missense_Mutation_p.R90C|TUBB3_uc002fpj.1_Missense_Mutation_p.R90C|TUBB3_uc010cjb.1_Missense_Mutation_p.R16C|TUBB3_uc002fpk.1_Missense_Mutation_p.R16C	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	162					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GTATCCCGACCGCATCATGAA	0.642													36	125					0	0	0.005524	0	0		T	90001343	T	T	90001343	3	4	128	1	0	0	0	0	1	0	0	0	16783	652	23	1	498	1	TUBB3	16	90001343	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	211553	90001343	353410	885	71173											
C16orf3	750	broad.mit.edu	37	chr16	90095641	90095641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggggcaggcccttgcactgCacatcgcacgttgagccaca	8	6	12	15	3	0	1	0	1	0	0	1	1	0	1	2	3	3	5	2	3	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr16:90095641C>T	uc002fqk.1	-	1	669	c.110G>A	c.(109-111)TGC>TAC	p.C37Y	GAS8_uc010vps.1_Intron|GAS8_uc002fqh.2_Intron|GAS8_uc010vpt.1_Intron|GAS8_uc010vpu.1_Intron|GAS8_uc010vpv.1_Intron|GAS8_uc010cjc.1_Intron|GAS8_uc002fqi.1_Intron|GAS8_uc010vpw.1_Intron|GAS8_uc002fqj.1_Intron	NM_001214	NP_001205	O95177	CP003_HUMAN	hypothetical protein LOC750	37											0		all_cancers(9;9.01e-08)|Hepatocellular(780;0.000325)|Lung NSC(15;0.0104)|all_lung(18;0.0239)		BRCA - Breast invasive adenocarcinoma(80;0.0272)		CCTTGCACTGCACATCGCACG	0.204													19	68					0	0	0.010504	0	0		T	90095641	T	T	90095641	3	4	128	1	0	0	0	0	1	0	0	0	1815	710	25	2	247	2	C16orf3	16	90095641	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	94298	90095641	259112	886	71174											
GEMIN4	50628	broad.mit.edu	37	chr17	649966	649966	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctgttactccccaggcaGgctacccactcgtccgagaa	8	7	9	17	2	0	1	0	0	0	1	3	2	2	1	5	2	2	3	5	2	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:649966G>T	uc002frs.1	-	2	1436	c.1317C>A	c.(1315-1317)GCC>GCA	p.A439A	GEMIN4_uc010vqa.1_3'UTR	NM_015721	NP_056536	P57678	GEMI4_HUMAN	gemin 4	439					rRNA processing|spliceosomal snRNP assembly	Cajal body|cytosol|nucleolus|small nuclear ribonucleoprotein complex|spliceosomal complex	protein binding			ovary(2)|kidney(1)|skin(1)	4		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		TCCCCAGGCAGGCTACCCACT	0.562													19	65					2.4624e-09	2.58299e-09	0.008871	1	0		T	649966	T	T	649966	2	4	128	1	0	0	0	0	0	0	0	1	6345	987	35	5		5	GEMIN4	17	649966	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08		649966	80545244	887	71175											
TUSC5	286753	broad.mit.edu	37	chr17	1183346	1183346	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcacaggagccaggctcCgccgcattcctggacctgcc	7	6	11	17	2	1	0	1	0	0	0	3	2	3	2	6	3	3	3	6	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:1183346C>T	uc002fsi.1	+	1	390	c.51C>T	c.(49-51)TCC>TCT	p.S17S		NM_172367	NP_758955	Q8IXB3	TUSC5_HUMAN	LOST1	17					response to biotic stimulus	integral to membrane				skin(2)	2				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		AGCCAGGCTCCGCCGCATTCC	0.642													28	113					0	0	0.009535	0	0		T	1183346	T	T	1183346	2	4	128	1	0	0	0	0	0	0	0	1	16805	639	23	1		1	TUSC5	17	1183346	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	533380	1183346	80011864	888	71176											
YWHAE	7531	broad.mit.edu	37	chr17	1248762	1248762	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgattttcgtcttccacGtcctgcagcgcttctttatt	5	17	6	13	3	2	1	0	1	2	0	5	1	4	1	2	0	2	2	2	0	1	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:1248762G>A	uc002fsj.2	-	6	899	c.747C>T	c.(745-747)GAC>GAT	p.D249D	YWHAE_uc002fsk.2_Silent_p.D227D|YWHAE_uc010vqh.1_RNA|YWHAE_uc010vqi.1_RNA	NM_006761	NP_006752	P62258	1433E_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	249					apoptosis|G2/M transition of mitotic cell cycle|induction of apoptosis by extracellular signals|interspecies interaction between organisms|intracellular signal transduction|nerve growth factor receptor signaling pathway	cytosol|melanosome	histone deacetylase binding|phosphoserine binding			lung(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(18;0.203)	UCEC - Uterine corpus endometrioid carcinoma (25;0.0887)		CGTCTTCCACGTCCTGCAGCG	0.443													69	248					0	0	0.01441	0	0		A	1248762	A	A	1248762	2	1	128	1	0	0	0	0	0	0	0	1	17528	1136	40	1		1	YWHAE	17	1248762	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	65416	1248762	79946448	889	71177											
CRK	1398	broad.mit.edu	37	chr17	1359408	1359408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccgagtcgaagttgcccgCcatggctgcctccgcgccta	5	8	11	17	5	0	0	0	0	0	0	3	2	2	0	6	1	2	2	6	1	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:1359408C>T	uc002fsl.2	-	1	137	c.4G>A	c.(4-6)GCG>ACG	p.A2T	CRK_uc002fsm.2_Missense_Mutation_p.A2T	NM_016823	NP_058431	P46108	CRK_HUMAN	v-crk sarcoma virus CT10 oncogene homolog	2					actin cytoskeleton organization|activation of MAPKK activity|blood coagulation|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of transcription from RNA polymerase II promoter	cytosol|endosome|nucleus|plasma membrane	protein binding|SH2 domain binding			lung(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (25;0.083)		AAGTTGCCCGCCATGGCTGCC	0.532													3	4					0	0	0.001168	0	0		T	1359408	T	T	1359408	3	4	128	1	0	0	0	0	1	0	0	0	3887	739	26	2	922	2	CRK	17	1359408	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	110646	1359408	79835802	890	71178											
MNT	4335	broad.mit.edu	37	chr17	2298413	2298413	+	Frame_Shift_Del	DEL	G	-	-																															cacctgcggcctgctgggcaGgggggcaggctccttaatgc																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:2298413delG	uc002fur.2	-	2	661	c.409delC	c.(409-411)CTGfs	p.L137fs		NM_020310	NP_064706	Q99583	MNT_HUMAN	MAX binding protein	137					multicellular organismal development|negative regulation of cell proliferation|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			skin(1)	1				Colorectal(2;1.37e-05)|READ - Rectum adenocarcinoma(2;8.68e-05)		CTGCTGGGCAGGGGGGCAGGC	0.662													4	5	---	---	---	---						.	-	2298413	-	-	2298413	7	5	128	1	0	1	0	1	0	0	0	0	9696	991	35	0	1359	0	MNT	17	2298413	Frame_Shift_Del	DEL	G	TCGA-CG-4306-01A-01D-1158-08	939005	2298413	78896797	891	71179											
KIAA0753	9851	broad.mit.edu	37	chr17	6510238	6510238	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagctttgagctcattcAgttcctttgttcttctagaa	7	18	6	10	0	5	2	3	1	2	1	6	2	6	2	1	0	2	4	1	0	2	8			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:6510238A>C	uc002gde.3	-	12	2323	c.1964T>G	c.(1963-1965)CTG>CGG	p.L655R	KIAA0753_uc010vtd.1_Missense_Mutation_p.L111R|KIAA0753_uc010clo.2_Missense_Mutation_p.L356R|KIAA0753_uc010vte.1_Missense_Mutation_p.L356R	NM_014804	NP_055619	Q2KHM9	K0753_HUMAN	hypothetical protein LOC9851	655						centrosome					0				COAD - Colon adenocarcinoma(228;0.157)		GAGCTCATTCAGTTCCTTTGT	0.423													32	108					0	0	0.009535	0	0		C	6510238	C	C	6510238	3	2	128	1	0	0	0	0	1	0	0	0	8207	188	7	5	971	5	KIAA0753	17	6510238	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	4211825	6510238	74684972	892	71180											
SLC16A13	201232	broad.mit.edu	37	chr17	6940102	6940102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcccgtggtgatgactGgaggcatcttggctgcgctg	5	9	16	11	2	1	2	0	2	1	0	1	3	1	3	2	5	1	3	2	5	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:6940102G>A	uc002geh.2	+	2	564	c.256G>A	c.(256-258)GGA>AGA	p.G86R		NM_201566	NP_963860	Q7RTY0	MOT13_HUMAN	monocarboxylate transporter 13	86	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(1)|skin(1)	2						GGTGATGACTGGAGGCATCTT	0.607													71	244					0	0	0.01441	0	0		A	6940102	A	A	6940102	3	1	128	1	0	0	0	0	1	0	0	0	14431	1349	47	4	262	4	SLC16A13	17	6940102	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	429864	6940102	74255108	893	71181											
DLG4	1742	broad.mit.edu	37	chr17	7095236	7095236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctccagggagcgggggCggatgaagatggcgatgggg	8	6	20	7	3	1	2	0	1	1	1	2	5	1	4	1	7	1	0	1	7	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:7095236C>T	uc002get.3	-	20	3282	c.2081G>A	c.(2080-2082)CGC>CAC	p.R694H	DLG4_uc010vtm.1_Intron|DLG4_uc010vtn.1_Missense_Mutation_p.R591H|DLG4_uc010cly.2_Missense_Mutation_p.R648H|DLG4_uc010vto.1_Missense_Mutation_p.R691H	NM_001365	NP_001356	P78352	DLG4_HUMAN	post-synaptic density protein 95 isoform 1	651	Guanylate kinase-like.				axon guidance|learning|protein complex assembly|protein localization to synapse|signal transduction|synaptic transmission	cell junction|cortical cytoskeleton|endocytic vesicle membrane|neuron spine|postsynaptic density|postsynaptic membrane|synaptosome	protein binding|protein C-terminus binding			ovary(1)|breast(1)	2						GGAGCGGGGGCGGATGAAGAT	0.677													28	69					0	0	0.005443	0	0		T	7095236	T	T	7095236	3	4	128	1	0	0	0	0	1	0	0	0	4563	768	27	1	234	1	DLG4	17	7095236	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	155134	7095236	74099974	894	71182											
DVL2	1856	broad.mit.edu	37	chr17	7131322	7131322	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagagtgaaataggcctgaGgagagggatcccagcacttg	12	6	16	7	0	0	4	0	2	0	2	1	7	1	5	2	4	1	1	2	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:7131322G>T	uc002gez.1	-	10	1358	c.1076C>A	c.(1075-1077)CCT>CAT	p.P359H	DVL2_uc010vtr.1_Missense_Mutation_p.P353H	NM_004422	NP_004413	O14641	DVL2_HUMAN	dishevelled 2	359					canonical Wnt receptor signaling pathway involved in regulation of cell proliferation|intracellular signal transduction|neural tube closure|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|segment specification|transcription from RNA polymerase II promoter	cytosol|nucleus|plasma membrane	frizzled binding|identical protein binding|signal transducer activity			lung(1)|kidney(1)	2						ATAGGCCTGAGGAGAGGGATC	0.652													11	59					3.07112e-06	3.17389e-06	0.010729	1	0		T	7131322	T	T	7131322	3	4	128	1	0	0	0	0	1	0	0	0	4842	1000	35	5	1158	5	DVL2	17	7131322	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	36086	7131322	74063888	895	71183											
DVL2	1856	broad.mit.edu	37	chr17	7132917	7132917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccctcaccctctccaggCggggtggcctctgcttcctt	4	10	9	18	1	3	0	1	0	2	0	5	0	4	0	6	4	2	1	6	4	1	2	rs142190934		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:7132917C>T	uc002gez.1	-	6	1019	c.737G>A	c.(736-738)CGC>CAC	p.R246H	DVL2_uc010vtr.1_Missense_Mutation_p.R240H|DVL2_uc010vts.1_Missense_Mutation_p.R148H|DVL2_uc010clz.1_3'UTR	NM_004422	NP_004413	O14641	DVL2_HUMAN	dishevelled 2	246					canonical Wnt receptor signaling pathway involved in regulation of cell proliferation|intracellular signal transduction|neural tube closure|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|segment specification|transcription from RNA polymerase II promoter	cytosol|nucleus|plasma membrane	frizzled binding|identical protein binding|signal transducer activity			lung(1)|kidney(1)	2						CCTCTCCAGGCGGGGTGGCCT	0.667													34	152					0	0	0.021022	0	0		T	7132917	T	T	7132917	3	4	128	1	0	0	0	0	1	0	0	0	4842	768	27	1	1513	1	DVL2	17	7132917	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1595	7132917	74062293	896	71184											
KDM6B	23135	broad.mit.edu	37	chr17	7749498	7749498	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggctttgggaacagctTgggcaactgtacgagtcaga	10	8	14	9	1	1	1	1	0	0	1	1	3	1	2	1	3	4	4	1	3	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:7749498T>C	uc002giw.1	+	6	715	c.339T>C	c.(337-339)CTT>CTC	p.L113L	KDM6B_uc002gix.2_5'Flank	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	113					inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						GGGAACAGCTTGGGCAACTGT	0.632													13	40					0	0	0.003163	0	0		C	7749498	C	C	7749498	2	2	128	1	0	0	0	0	0	0	0	1	8154	1799	63	3		3	KDM6B	17	7749498	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	616581	7749498	73445712	897	71185											
ALOX12B	242	broad.mit.edu	37	chr17	7976509	7976509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtccagagcaccagcagcGtgatgcacgtggtcttcaca	9	7	13	12	2	2	2	1	1	1	1	3	2	3	2	2	2	4	3	2	2	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:7976509G>A	uc002gjy.1	-	14	2144	c.1883C>T	c.(1882-1884)ACG>ATG	p.T628M		NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	628	Lipoxygenase.				epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						CACCAGCAGCGTGATGCACGT	0.622										Multiple Myeloma(8;0.094)			101	256					0	0	0.01441	0	0		A	7976509	A	A	7976509	3	1	128	1	0	0	0	0	1	0	0	0	537	1145	40	1	230	1	ALOX12B	17	7976509	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	227011	7976509	73218701	898	71186											
ALOX12B	242	broad.mit.edu	37	chr17	7980427	7980427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtagaactccgcatagcGtacccacgtcttggctagca	9	9	10	13	3	1	1	0	0	1	1	2	1	2	1	2	1	4	6	2	1	5	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:7980427G>A	uc002gjy.1	-	9	1417	c.1156C>T	c.(1156-1158)CGC>TGC	p.R386C	uc010cnq.1_5'Flank	NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	386	Lipoxygenase.				epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						TCCGCATAGCGTACCCACGTC	0.602										Multiple Myeloma(8;0.094)			9	18					0	0	0.006214	0	0		A	7980427	A	A	7980427	3	1	128	1	0	0	0	0	1	0	0	0	537	1145	40	1	977	1	ALOX12B	17	7980427	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3918	7980427	73214783	899	71187											
MYH10	4628	broad.mit.edu	37	chr17	8409646	8409646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgcagacctggccagtgCgccctgcagctcctcctcct	4	8	11	18	1	0	1	0	0	0	1	3	1	3	1	6	2	4	4	6	2	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:8409646C>T	uc002gll.2	-	25	3379	c.3283G>A	c.(3283-3285)GCA>ACA	p.A1095T	MYH10_uc002glm.2_Missense_Mutation_p.A1126T|MYH10_uc010cnx.2_Missense_Mutation_p.A1104T	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1095	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						CTGGCCAGTGCGCCCTGCAGC	0.617													32	105					0	0	0.015359	0	0		T	8409646	T	T	8409646	3	4	128	1	0	0	0	0	1	0	0	0	10048	768	27	1	2715	1	MYH10	17	8409646	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	429219	8409646	72785564	900	71188											
MFSD6L	162387	broad.mit.edu	37	chr17	8701914	8701914	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtcctagctccttcaacGgagggcgctaagtagacgtg	8	9	14	10	3	1	1	1	0	0	1	3	2	3	2	2	3	2	3	2	3	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:8701914G>A	uc002glp.1	-	1	673	c.525C>T	c.(523-525)TCC>TCT	p.S175S		NM_152599	NP_689812	Q8IWD5	MFS6L_HUMAN	major facilitator superfamily domain containing	175						integral to membrane				central_nervous_system(1)	1						CTCCTTCAACGGAGGGCGCTA	0.532													35	135					0	0	0.00623	0	0		A	8701914	A	A	8701914	2	1	128	1	0	0	0	0	0	0	0	1	9554	1103	39	1		1	MFSD6L	17	8701914	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	292268	8701914	72493296	901	71189											
GLP2R	9340	broad.mit.edu	37	chr17	9760756	9760756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaaaactccactgcacgCgcaactacatccacatgaac	16	5	5	15	2	0	2	0	1	0	1	2	2	2	2	2	0	5	2	2	0	5	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:9760756C>T	uc002gmd.1	+	6	628	c.628C>T	c.(628-630)CGC>TGC	p.R210C		NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	210	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	CCACTGCACGCGCAACTACAT	0.493													19	64					0	0	0.007413	0	0		T	9760756	T	T	9760756	3	4	128	1	0	0	0	0	1	0	0	0	6468	768	27	1	650	1	GLP2R	17	9760756	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1058842	9760756	71434454	902	71190											
MYH13	8735	broad.mit.edu	37	chr17	10216027	10216027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgcacttggagttcgccGtctccgtgttctcctctgct	3	14	10	14	4	3	0	0	0	3	0	6	1	3	1	3	1	2	4	3	1	0	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:10216027G>A	uc002gmk.1	-	31	4319	c.4229C>T	c.(4228-4230)ACG>ATG	p.T1410M		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1410	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GGAGTTCGCCGTCTCCGTGTT	0.532													10	24					0	0	0.013537	0	0		A	10216027	A	A	10216027	3	1	128	1	0	0	0	0	1	0	0	0	10050	1145	40	1	1631	1	MYH13	17	10216027	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	455271	10216027	70979183	903	71191											
MYH4	4622	broad.mit.edu	37	chr17	10360811	10360811	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctggtacagccccaccAcagtctcattcagggggtcc	8	9	9	15	0	3	0	2	0	2	0	5	0	4	0	4	3	2	1	4	3	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:10360811A>G	uc002gmn.2	-	16	1934	c.1823T>C	c.(1822-1824)GTG>GCG	p.V608A	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	608	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CAGCCCCACCACAGTCTCATT	0.517													32	94					0	0	0.013726	0	0		G	10360811	G	G	10360811	3	3	128	1	0	0	0	0	1	0	0	0	10055	159	6	3	4096	3	MYH4	17	10360811	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	144784	10360811	70834399	904	71192											
NCOR1	9611	broad.mit.edu	37	chr17	16075241	16075241	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtggtcgcttcgattccAgtgaatcatgatccactggg	8	11	12	10	3	1	2	1	2	0	0	5	4	3	2	2	2	0	1	2	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:16075241A>G	uc002gpo.2	-	4	551	c.311T>C	c.(310-312)CTG>CCG	p.L104P	NCOR1_uc002gpn.2_Missense_Mutation_p.L104P|NCOR1_uc002gpp.1_Intron|NCOR1_uc002gpr.2_Intron|NCOR1_uc002gps.1_Missense_Mutation_p.L104P|NCOR1_uc010coz.1_5'UTR|NCOR1_uc010cpb.1_Missense_Mutation_p.L104P|NCOR1_uc010cpa.1_Missense_Mutation_p.L104P|NCOR1_uc002gpu.2_Missense_Mutation_p.L104P	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	104	Interaction with ZBTB33 and HEXIM1.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CTTCGATTCCAGTGAATCATG	0.468													16	56					0	0	0.006122	0	0		G	16075241	G	G	16075241	3	3	128	1	0	0	0	0	1	0	0	0	10254	188	7	3	7183	3	NCOR1	17	16075241	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	5714430	16075241	65119969	905	71193											
LLGL1	3996	broad.mit.edu	37	chr17	18140801	18140801	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggctgtgggctcaggtgctgGtactggagcttagtgatgtg	5	12	18	6	0	1	1	1	1	0	0	1	2	1	2	0	5	3	5	0	5	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:18140801G>A	uc002gsp.2	+	14	1679	c.1618G>A	c.(1618-1620)GTA>ATA	p.V540I		NM_004140	NP_004131	Q15334	L2GL1_HUMAN	lethal giant larvae homolog 1	540	WD 9.				cortical actin cytoskeleton organization|exocytosis|protein complex assembly	cortical actin cytoskeleton	protein kinase binding|structural molecule activity			breast(2)|skin(2)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)	6	all_neural(463;0.228)					TCAGGTGCTGGTACTGGAGCT	0.682													9	24					0	0	0.008291	0	0		A	18140801	A	A	18140801	3	1	128	1	0	0	0	0	1	0	0	0	8850	1261	44	4	1672	4	LLGL1	17	18140801	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2065560	18140801	63054409	906	71194											
SLC5A10	125206	broad.mit.edu	37	chr17	18880290	18880290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccgggcatgatcagccgcGcattgttcccaggtaggacg	7	8	14	12	4	1	1	1	1	0	0	2	2	2	2	3	3	2	4	3	3	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:18880290G>A	uc002guu.1	+	9	1011	c.970G>A	c.(970-972)GCA>ACA	p.A324T	SLC5A10_uc002gur.1_Missense_Mutation_p.A241T|SLC5A10_uc002gut.1_Missense_Mutation_p.A324T|SLC5A10_uc002guv.1_Missense_Mutation_p.A297T|SLC5A10_uc010vyl.1_Missense_Mutation_p.A324T|FAM83G_uc002guw.2_Intron	NM_001042450	NP_001035915	A0PJK1	SC5AA_HUMAN	solute carrier family 5 (sodium/glucose	324	Extracellular (Potential).				sodium ion transport|transmembrane transport	integral to membrane	transporter activity			ovary(1)	1						GATCAGCCGCGCATTGTTCCC	0.632													32	112					0	0	0.019004	0	0		A	18880290	A	A	18880290	3	1	128	1	0	0	0	0	1	0	0	0	14687	1087	38	1	1004	1	SLC5A10	17	18880290	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	739489	18880290	62314920	907	71195											
ULK2	9706	broad.mit.edu	37	chr17	19685239	19685239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgactgatctggtccaccaCcacactctcctggatctggt	7	11	8	15	0	3	2	0	2	3	0	5	3	4	3	4	3	0	0	4	3	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:19685239C>T	uc002gwm.3	-	23	3111	c.2602G>A	c.(2602-2604)GTG>ATG	p.V868M	ULK2_uc002gwn.2_Missense_Mutation_p.V868M	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	868					signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					TGGTCCACCACCACACTCTCC	0.517													21	105					0	0	0.016522	0	0		T	19685239	T	T	19685239	3	4	128	1	0	0	0	0	1	0	0	0	17002	507	18	4	528	4	ULK2	17	19685239	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	804949	19685239	61509971	908	71196											
LGALS9B	284194	broad.mit.edu	37	chr17	20354922	20354922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggggttcatgtggaaggCgatgtggctcccagagcaca	9	7	16	9	2	1	1	1	0	0	1	2	3	2	2	1	5	1	3	1	5	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:20354922C>T	uc002gxa.1	-	10	861	c.796G>A	c.(796-798)GCC>ACC	p.A266T	LGALS9B_uc002gwz.1_Missense_Mutation_p.A265T|LGALS9B_uc010vzh.1_Missense_Mutation_p.A178T	NM_001042685	NP_001036150	Q3B8N2	LEG9B_HUMAN	galectin-9 like	266	Galectin 2.						sugar binding			skin(1)	1						ATGTGGAAGGCGATGTGGCTC	0.552													13	75					0	0	0.009535	0	0		T	20354922	T	T	20354922	3	4	128	1	0	0	0	0	1	0	0	0	8765	768	27	1	282	1	LGALS9B	17	20354922	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	669683	20354922	60840288	909	71197											
LGALS9B	284194	broad.mit.edu	37	chr17	20356361	20356361	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagaggcgctctgcaccGtgtggatgactgtctgggtc	5	10	15	11	2	2	2	0	1	2	1	4	3	3	3	2	3	1	2	2	3	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:20356361G>A	uc002gxa.1	-	7	661	c.596C>T	c.(595-597)ACG>ATG	p.T199M	LGALS9B_uc002gwz.1_Missense_Mutation_p.T199M|LGALS9B_uc010vzh.1_Missense_Mutation_p.T111M	NM_001042685	NP_001036150	Q3B8N2	LEG9B_HUMAN	galectin-9 like	199							sugar binding			skin(1)	1						GCTCTGCACCGTGTGGATGAC	0.547													72	189					0	0	0.01441	0	0		A	20356361	A	A	20356361	3	1	128	1	0	0	0	0	1	0	0	0	8765	1145	40	1	491	1	LGALS9B	17	20356361	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1439	20356361	60838849	910	71198											
KIAA0100	9703	broad.mit.edu	37	chr17	26960634	26960634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctccatggaacagaagaCggctcttgtcccaccagggc	10	7	11	13	1	2	2	0	0	2	2	4	3	3	3	3	3	1	1	3	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:26960634C>T	uc002hbu.2	-	18	3497	c.3398G>A	c.(3397-3399)CGT>CAT	p.R1133H		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	1133						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					GAACAGAAGACGGCTCTTGTC	0.562													12	41					0	0	0.010729	0	0		T	26960634	T	T	26960634	3	4	128	1	0	0	0	0	1	0	0	0	8170	536	19	1	3397	1	KIAA0100	17	26960634	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	6604273	26960634	54234576	911	71199											
KIAA0100	9703	broad.mit.edu	37	chr17	26961600	26961600	+	Frame_Shift_Del	DEL	G	-	-																															tgacaagatctaatccctcaGggggaaaagggctgcctgga																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:26961600delG	uc002hbu.2	-	16	3104	c.3005delC	c.(3004-3006)CCTfs	p.P1002fs		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	1002						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					TAATCCCTCAGGGGGAAAAGG	0.502													71	163	---	---	---	---						.	-	26961600	-	-	26961600	7	5	128	1	0	1	0	1	0	0	0	0	8170	1000	35	0	3798	0	KIAA0100	17	26961600	Frame_Shift_Del	DEL	G	TCGA-CG-4306-01A-01D-1158-08	966	26961600	54233610	912	71200											
TP53I13	90313	broad.mit.edu	37	chr17	27899562	27899562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccggggccccaccccaCgcactgaagaggccgcctgg	7	2	13	19	3	0	2	0	1	0	1	0	2	0	2	7	4	1	1	7	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:27899562C>T	uc002hee.2	+	6	954	c.916C>T	c.(916-918)CGC>TGC	p.R306C		NM_138349	NP_612358	Q8NBR0	P5I13_HUMAN	tumor protein p53 inducible protein 13	306	Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane					0				READ - Rectum adenocarcinoma(3;0.236)		CCCCACCCCACGCACTGAAGA	0.701													4	8					0	0	0.014758	0	0		T	27899562	T	T	27899562	3	4	128	1	0	0	0	0	1	0	0	0	16412	536	19	1	938	1	TP53I13	17	27899562	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	937962	27899562	53295648	913	71201											
NLE1	54475	broad.mit.edu	37	chr17	33464048	33464048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctccagactttgatggtgCggtcctgggaggcagagtag	7	10	15	9	1	1	3	0	1	1	2	3	4	2	4	2	4	1	2	2	4	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:33464048C>T	uc002hiy.1	-	7	828	c.800G>A	c.(799-801)CGC>CAC	p.R267H	NLE1_uc010ctn.1_5'UTR|NLE1_uc002hiz.1_5'UTR	NM_018096	NP_060566	Q9NVX2	NLE1_HUMAN	Notchless gene homolog isoform a	267	WD 4.					nucleolus				breast(3)|ovary(1)	4		Ovarian(249;0.17)				TTTGATGGTGCGGTCCTGGGA	0.592													33	159					0	0	0.017118	0	0		T	33464048	T	T	33464048	3	4	128	1	0	0	0	0	1	0	0	0	10479	768	27	1	685	1	NLE1	17	33464048	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	5564486	33464048	47731162	914	71202											
AP2B1	163	broad.mit.edu	37	chr17	33963434	33963434	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattatgtggtccaagaagcAattgttgtcatcagggacat	13	12	10	6	0	2	1	2	0	0	1	3	2	3	2	1	2	1	2	1	2	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:33963434A>G	uc002hjr.2	+	10	1419	c.1230A>G	c.(1228-1230)GCA>GCG	p.A410A	AP2B1_uc002hjq.2_Silent_p.A410A|AP2B1_uc010wci.1_Silent_p.A372A|AP2B1_uc002hjs.2_Silent_p.A353A|AP2B1_uc002hjt.2_Silent_p.A410A|AP2B1_uc010ctv.2_Silent_p.A410A|AP2B1_uc010wcj.1_Silent_p.A147A	NM_001282	NP_001273	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1	410					axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|coated pit|cytosol|endocytic vesicle membrane|plasma membrane	clathrin binding|protein transporter activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		TCCAAGAAGCAATTGTTGTCA	0.398													16	60					0	0	0.007413	0	0		G	33963434	G	G	33963434	2	3	128	1	0	0	0	0	0	0	0	1	741	117	5	3		3	AP2B1	17	33963434	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	499386	33963434	47231776	915	71203											
TAF15	8148	broad.mit.edu	37	chr17	34171771	34171771	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggctatggaggagacCgaggtggaggctatggtgga	9	7	21	4	1	0	1	0	0	0	1	0	7	0	4	1	9	0	2	1	9	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:34171771C>T	uc002hkd.2	+	15	1554	c.1468C>T	c.(1468-1470)CGA>TGA	p.R490*	TAF15_uc002hkc.2_Nonsense_Mutation_p.R487*	NM_139215	NP_631961	Q92804	RBP56_HUMAN	TBP-associated factor 15 isoform 1	490	Arg/Gly-rich.|11.|21 X approximate tandem repeats of D-R- [S,G](0,3)-G-G-Y-G-G.				positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding|zinc ion binding		TAF15/NR4A3(33)	bone(33)|lung(1)|skin(1)	35		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		tggaggagaccgaggtggagg	0			T	TEC|CHN1|ZNF384	extraskeletal myxoid chondrosarcomas|ALL								7	33					0	0	0.004482	0	0		T	34171771	T	T	34171771	4	4	128	1	0	0	0	0	0	1	0	0	15543	644	23	1	1526	1	TAF15	17	34171771	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	208337	34171771	47023439	916	71204											
MRM1	79922	broad.mit.edu	37	chr17	34964141	34964141	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctggctcgtggccggcacGgtgggctgcccaagcacaga	6	5	17	13	3	0	1	0	0	0	1	1	1	0	1	2	6	2	5	2	6	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:34964141G>A	uc002hne.2	+	3	887	c.672G>A	c.(670-672)ACG>ACA	p.T224T	MRM1_uc002hnf.2_Silent_p.T29T	NM_024864	NP_079140	Q6IN84	MRM1_HUMAN	mitochondrial rRNA methyltransferase 1 homolog	224					RNA processing	mitochondrion	RNA binding|RNA methyltransferase activity				0		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		TGGCCGGCACGGTGGGCTGCC	0.478													95	250					0	0	0.01441	0	0		A	34964141	A	A	34964141	2	1	128	1	0	0	0	0	0	0	0	1	9789	1103	39	1		1	MRM1	17	34964141	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	792370	34964141	46231069	917	71205											
CACNB1	782	broad.mit.edu	37	chr17	37343783	37343783	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggtgatggccactccctgCacaggcacctcatcccctgg	8	7	10	16	0	1	1	1	1	0	0	3	1	3	1	5	4	1	2	5	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:37343783C>T	uc002hrm.1	-	4	516	c.363G>A	c.(361-363)GTG>GTA	p.V121V	CACNB1_uc002hrl.1_5'UTR|CACNB1_uc002hrn.2_Silent_p.V121V|CACNB1_uc002hro.2_Silent_p.V121V|CACNB1_uc002hrp.1_Silent_p.V121V|CACNB1_uc010web.1_Silent_p.V74V	NM_000723	NP_000714	Q02641	CACB1_HUMAN	calcium channel, voltage-dependent, beta 1	121	SH3.				axon guidance	voltage-gated calcium channel complex				large_intestine(1)|ovary(1)	2					Ibutilide(DB00308)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Verapamil(DB00661)	CCACTCCCTGCACAGGCACCT	0.488													42	139					0	0	0.009718	0	0		T	37343783	T	T	37343783	2	4	128	1	0	0	0	0	0	0	0	1	2555	697	25	2		2	CACNB1	17	37343783	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2379642	37343783	43851427	918	71206											
PNMT	5409	broad.mit.edu	37	chr17	37826239	37826239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taaggagcgccagctgcgagCcagggtgaaacgggtcctgc	9	5	16	11	3	0	1	0	1	0	0	1	3	1	2	3	3	6	1	3	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:37826239C>T	uc002hsi.1	+	3	668	c.446C>T	c.(445-447)GCC>GTC	p.A149V		NM_002686	NP_002677	P11086	PNMT_HUMAN	phenylethanolamine N-methyltransferase	149					catecholamine biosynthetic process|hormone biosynthetic process	cytosol	phenylethanolamine N-methyltransferase activity			ovary(1)	1	all_cancers(6;6.59e-85)|all_epithelial(6;2.89e-103)|Breast(7;1.05e-86)|Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;3.87e-45)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CAGCTGCGAGCCAGGGTGAAA	0.662													15	65					0	0	0.004007	0	0		T	37826239	T	T	37826239	3	4	128	1	0	0	0	0	1	0	0	0	12178	739	26	2	456	2	PNMT	17	37826239	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	482456	37826239	43368971	919	71207											
KRT20	54474	broad.mit.edu	37	chr17	39034577	39034577	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctaactggctgctgtaaCgggccttggtctcctctaga	6	12	12	11	1	2	1	0	0	2	1	3	1	2	1	2	4	3	4	2	4	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:39034577C>T	uc002hvl.2	-	6	1001	c.959G>A	c.(958-960)CGT>CAT	p.R320H		NM_019010	NP_061883	P35900	K1C20_HUMAN	keratin 20	320	Rod.|Coil 2.				apoptosis|intermediate filament organization	Golgi apparatus|intermediate filament	protein binding|structural constituent of cytoskeleton			large_intestine(1)|kidney(1)|skin(1)	3		Breast(137;0.000301)|Ovarian(249;0.15)				GCTGCTGTAACGGGCCTTGGT	0.488													27	132					0	0	0.021523	0	0		T	39034577	T	T	39034577	3	4	128	1	0	0	0	0	1	0	0	0	8474	536	19	1	327	1	KRT20	17	39034577	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1208338	39034577	42160633	920	71208											
CCR10	2826	broad.mit.edu	37	chr17	40832446	40832446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggtgggcgagcgcgctgCgcgtcgggctgccaggtggg	4	5	22	10	6	0	1	0	0	0	1	1	2	0	1	1	5	3	2	1	5	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:40832446C>T	uc002iax.3	-	2	218	c.214G>A	c.(214-216)GCA>ACA	p.A72T	CNTNAP1_uc002iay.2_5'Flank|CNTNAP1_uc010wgs.1_5'Flank	NM_016602	NP_057686	P46092	CCR10_HUMAN	CC chemokine receptor 10	72	Cytoplasmic (Potential).					integral to plasma membrane					0		Breast(137;0.000153)		BRCA - Breast invasive adenocarcinoma(366;0.14)		GAGCGCGCTGCGCGTCGGGCT	0.716													6	12					0	0	0.001168	0	0		T	40832446	T	T	40832446	3	4	128	1	0	0	0	0	1	0	0	0	2943	768	27	1	878	1	CCR10	17	40832446	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1797869	40832446	40362764	921	71209											
CNTNAP1	8506	broad.mit.edu	37	chr17	40836173	40836173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctttaattcttgggactggGtcacacgttacatgctactc	8	14	8	11	1	2	0	1	0	1	0	3	1	2	1	1	2	3	2	1	2	3	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:40836173G>A	uc002iay.2	+	3	505	c.289G>A	c.(289-291)GTC>ATC	p.V97I	CCR10_uc002iax.3_5'Flank|CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	97	Extracellular (Potential).|F5/8 type C.				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		TTGGGACTGGGTCACACGTTA	0.577													89	279					0	0	0.01441	0	0		A	40836173	A	A	40836173	3	1	128	1	0	0	0	0	1	0	0	0	3649	1261	44	4	299	4	CNTNAP1	17	40836173	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3727	40836173	40359037	922	71210											
BRCA1	672	broad.mit.edu	37	chr17	41244466	41244466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attttctctaatgttattacGgctaattgtgctcactgtac	9	18	6	8	1	2	0	1	0	1	0	3	0	2	0	0	1	3	4	0	1	5	8	rs80357049		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:41244466G>A	uc002icq.2	-	10	3314	c.3082C>T	c.(3082-3084)CGT>TGT	p.R1028C	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.R957C|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.R981C|BRCA1_uc002ict.2_Missense_Mutation_p.R1028C|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.R1028C|BRCA1_uc002ide.1_Missense_Mutation_p.R859C|BRCA1_uc010cyy.1_Missense_Mutation_p.R1028C|BRCA1_uc010whs.1_Missense_Mutation_p.R1028C|BRCA1_uc010cyz.2_Missense_Mutation_p.R981C|BRCA1_uc010cza.2_Missense_Mutation_p.R1002C|BRCA1_uc010wht.1_Missense_Mutation_p.R732C	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	1028					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		ATGTTATTACGGCTAATTGTG	0.348			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			58	240					0	0	0.01441	0	0		A	41244466	A	A	41244466	3	1	128	1	0	0	0	0	1	0	0	0	1501	1116	39	1	2635	1	BRCA1	17	41244466	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	408293	41244466	39950744	923	71211											
MPP2	4355	broad.mit.edu	37	chr17	41958160	41958160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcagtaccagggttttcCggcggaacgggggcatgcgg	8	7	16	10	4	1	0	1	0	0	0	2	1	2	1	2	6	3	3	2	6	3	3	rs149942811		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:41958160C>T	uc010wip.1	-	10	1241	c.1184G>A	c.(1183-1185)CGG>CAG	p.R395Q	MPP2_uc002ien.1_Missense_Mutation_p.R367Q|MPP2_uc010wim.1_Missense_Mutation_p.R339Q|MPP2_uc002ieo.1_Missense_Mutation_p.R350Q|MPP2_uc010win.1_Missense_Mutation_p.R211Q|MPP2_uc010wio.1_Missense_Mutation_p.R339Q	NM_005374	NP_005365	Q14168	MPP2_HUMAN	palmitoylated membrane protein 2	374	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane|membrane fraction	guanylate kinase activity				0		Breast(137;0.00314)		BRCA - Breast invasive adenocarcinoma(366;0.12)		CAGGGTTTTCCGGCGGAACGG	0.617											OREG0024443	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	114					0	0	0.009535	0	0		T	41958160	T	T	41958160	3	4	128	1	0	0	0	0	1	0	0	0	9752	652	23	1	625	1	MPP2	17	41958160	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	713694	41958160	39237050	924	71212											
SLC4A1	6521	broad.mit.edu	37	chr17	42330716	42330716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggagcccttgaccatcttgCgctcaggtttgctgacaatc	7	11	10	13	2	2	2	1	2	1	0	3	3	2	3	2	2	3	3	2	2	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:42330716C>T	uc002igf.3	-	17	2230	c.2081G>A	c.(2080-2082)CGC>CAC	p.R694H		NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	694	Membrane (anion exchange).				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		GACCATCTTGCGCTCAGGTTT	0.622													18	60					0	0	0.006122	0	0		T	42330716	T	T	42330716	3	4	128	1	0	0	0	0	1	0	0	0	14675	768	27	1	670	1	SLC4A1	17	42330716	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	372556	42330716	38864494	925	71213											
FZD2	2535	broad.mit.edu	37	chr17	42636530	42636530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttccgcgagcactgggagCgctcgtgggtgagccagcac	6	6	15	14	4	0	1	0	1	0	0	2	3	1	2	3	2	4	3	3	2	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:42636530C>T	uc002igx.1	+	1	1606	c.1474C>T	c.(1474-1476)CGC>TGC	p.R492C		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	492	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		GCACTGGGAGCGCTCGTGGGT	0.627													13	46					0	0	0.016723	0	0		T	42636530	T	T	42636530	3	4	128	1	0	0	0	0	1	0	0	0	6144	768	27	1	1476	1	FZD2	17	42636530	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	305814	42636530	38558680	926	71214											
C1QL1	10882	broad.mit.edu	37	chr17	43037677	43037677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccaggtgcaggatcacgCtgttgctggcgtagtcgtag	6	10	15	10	4	1	0	1	0	0	0	3	1	2	1	1	3	2	6	1	3	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:43037677C>T	uc002ihv.2	-	2	884	c.656G>A	c.(655-657)AGC>AAC	p.S219N		NM_006688	NP_006679	O75973	C1QRF_HUMAN	complement component 1, q subcomponent-like 1	219	C1q.				locomotory behavior	collagen					0		Prostate(33;0.155)				CAGGATCACGCTGTTGCTGGC	0.542													29	89					0	0	0.010818	0	0		T	43037677	T	T	43037677	3	4	128	1	0	0	0	0	1	0	0	0	1961	797	28	2	124	2	C1QL1	17	43037677	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	401147	43037677	38157533	927	71215											
PLCD3	113026	broad.mit.edu	37	chr17	43196290	43196290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcaggggcactcagcaCgcggtcctcgcccgagtact	7	6	12	16	4	2	0	2	0	0	0	4	1	3	0	2	3	3	4	2	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:43196290C>T	uc002iib.2	-	5	919	c.805G>A	c.(805-807)GTG>ATG	p.V269M		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	269	EF-hand 3.				intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	GCACTCAGCACGCGGTCCTCG	0.657													8	27					0	0	0.004482	0	0		T	43196290	T	T	43196290	3	4	128	1	0	0	0	0	1	0	0	0	12051	536	19	1	1607	1	PLCD3	17	43196290	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	158613	43196290	37998920	928	71216											
ARHGAP27	201176	broad.mit.edu	37	chr17	43474387	43474387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctctgggggcagctctgCggactggattcccatagcct	5	10	12	14	1	2	0	0	0	2	0	4	2	4	2	3	4	3	2	3	4	1	2	rs147050844		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:43474387C>T	uc002iix.2	-	11	1272	c.823G>A	c.(823-825)GCA>ACA	p.A275T	ARHGAP27_uc010dak.2_Missense_Mutation_p.A248T	NM_199282	NP_954976	Q6ZUM4	RHG27_HUMAN	Rho GTPase activating protein 27 isoform a	616					positive regulation of Cdc42 GTPase activity|receptor-mediated endocytosis|signal transduction	cytoplasm|membrane	Rac GTPase activator activity|SH3 domain binding				0	Renal(3;0.0405)					GGCAGCTCTGCGGACTGGATT	0.642													12	57					0	0	0.016723	0	0		T	43474387	T	T	43474387	3	4	128	1	0	0	0	0	1	0	0	0	876	768	27	1	851	1	ARHGAP27	17	43474387	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	278097	43474387	37720823	929	71217											
HOXB4	3214	broad.mit.edu	37	chr17	46654330	46654330	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccaagacctgctggcgCgtgtaggcggtccgagagcg	7	6	16	12	5	0	2	0	0	0	2	2	3	2	2	3	3	3	3	3	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:46654330C>T	uc002inp.2	-	2	572	c.510G>A	c.(508-510)ACG>ACA	p.T170T	HOXB3_uc010wlm.1_Intron|HOXB3_uc010dbf.2_Intron|HOXB3_uc010dbg.2_Intron|HOXB3_uc002ino.2_5'Flank|HOXB3_uc010wlk.1_5'Flank|HOXB3_uc010wll.1_Intron	NM_024015	NP_076920	P17483	HXB4_HUMAN	homeobox B4	170	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCTGCTGGCGCGTGTAGGCGG	0.617													46	130					0	0	0.01441	0	0		T	46654330	T	T	46654330	2	4	128	1	0	0	0	0	0	0	0	1	7319	755	27	1		1	HOXB4	17	46654330	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3179943	46654330	34540880	930	71218											
SPOP	8405	broad.mit.edu	37	chr17	47696653	47696653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagaatttgaattttgcccGaacttcactctttggacagc	10	13	9	9	1	2	2	1	1	1	1	2	5	2	3	1	2	3	0	1	2	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:47696653G>A	uc010dbk.2	-	5	927	c.295C>T	c.(295-297)CGG>TGG	p.R99W	SPOP_uc002ipb.2_Missense_Mutation_p.R99W|SPOP_uc002ipc.2_Missense_Mutation_p.R99W|SPOP_uc002ipd.2_Missense_Mutation_p.R99W|SPOP_uc002ipe.2_Missense_Mutation_p.R99W|SPOP_uc002ipf.2_Missense_Mutation_p.R99W|SPOP_uc002ipg.2_Missense_Mutation_p.R99W	NM_003563	NP_003554	O43791	SPOP_HUMAN	speckle-type POZ protein	99	MATH.|Required for nuclear localization.				mRNA processing	nucleus	protein binding			prostate(2)|ovary(2)|lung(2)	6						AATTTTGCCCGAACTTCACTC	0.423										Prostate(2;0.17)			39	145					0	0	0.013114	0	0		A	47696653	A	A	47696653	3	1	128	1	0	0	0	0	1	0	0	0	15109	1057	37	1	857	1	SPOP	17	47696653	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1042323	47696653	33498557	931	71219											
SPOP	8405	broad.mit.edu	37	chr17	47700149	47700149	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgacatttctgccggaggTggaggacttggaacccttga	8	10	13	10	2	1	1	0	1	1	0	2	6	1	5	2	5	2	0	2	5	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:47700149T>C	uc010dbk.2	-	3	656	c.24A>G	c.(22-24)CCA>CCG	p.P8P	SPOP_uc002ipb.2_Silent_p.P8P|SPOP_uc002ipc.2_Silent_p.P8P|SPOP_uc002ipd.2_Silent_p.P8P|SPOP_uc002ipe.2_Silent_p.P8P|SPOP_uc002ipf.2_Silent_p.P8P|SPOP_uc002ipg.2_Silent_p.P8P|SPOP_uc010wlx.1_RNA	NM_003563	NP_003554	O43791	SPOP_HUMAN	speckle-type POZ protein	8					mRNA processing	nucleus	protein binding			prostate(2)|ovary(2)|lung(2)	6						CTGCCGGAGGTGGAGGACTTG	0.502										Prostate(2;0.17)			38	128					0	0	0.007835	0	0		C	47700149	C	C	47700149	2	2	128	1	0	0	0	0	0	0	0	1	15109	1683	59	3		3	SPOP	17	47700149	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	3496	47700149	33495061	932	71220											
SPATA20	64847	broad.mit.edu	37	chr17	48627597	48627597	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctactccacagaccgccAgtggcacgtccctcactttg	7	8	8	18	3	1	1	1	0	0	1	3	1	3	1	5	1	1	2	5	1	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:48627597A>G	uc002irf.2	+	8	1115	c.974A>G	c.(973-975)CAG>CGG	p.Q325R	SPATA20_uc002irc.2_5'UTR|SPATA20_uc002ire.2_Missense_Mutation_p.Q281R|SPATA20_uc002ird.2_Missense_Mutation_p.Q341R|SPATA20_uc010wmv.1_Missense_Mutation_p.S382G|SPATA20_uc002irg.2_RNA	NM_022827	NP_073738	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	325					cell differentiation|mannose metabolic process|multicellular organismal development|spermatogenesis	extracellular region	mannose-6-phosphate isomerase activity|protein binding				0	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			ACAGACCGCCAGTGGCACGTC	0.637											OREG0024568	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	103					0	0	0.019004	0	0		G	48627597	G	G	48627597	3	3	128	1	0	0	0	0	1	0	0	0	15031	188	7	3	1056	3	SPATA20	17	48627597	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	927448	48627597	32567613	933	71221											
WFIKKN2	124857	broad.mit.edu	37	chr17	48917620	48917620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaatggcacggctttccCggcggccgagtgcctgaagc	6	6	13	16	4	0	1	0	1	0	0	1	2	1	1	5	4	2	2	5	4	2	1	rs141860715	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:48917620C>T	uc002isv.3	+	2	1665	c.971C>T	c.(970-972)CCG>CTG	p.P324L	WFIKKN2_uc010dbu.2_Missense_Mutation_p.P231L	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	324						extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			ACGGCTTTCCCGGCGGCCGAG	0.647													15	55					0	0	0.014323	0	0		T	48917620	T	T	48917620	3	4	128	1	0	0	0	0	1	0	0	0	17385	652	23	1	977	1	WFIKKN2	17	48917620	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	290023	48917620	32277590	934	71222											
SPAG9	9043	broad.mit.edu	37	chr17	49067155	49067155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgtcttcagctgaccccGcattcccttctgtagcttca	5	14	7	15	1	4	1	2	1	2	0	5	1	5	1	3	0	2	4	3	0	1	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:49067155G>A	uc002itc.2	-	21	2905	c.2696C>T	c.(2695-2697)GCG>GTG	p.A899V	SPAG9_uc002itb.2_Missense_Mutation_p.A885V|SPAG9_uc002itd.2_Missense_Mutation_p.A889V|SPAG9_uc002itf.2_Missense_Mutation_p.A720V|SPAG9_uc002ita.2_Missense_Mutation_p.A742V|SPAG9_uc002ite.2_Missense_Mutation_p.A729V	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	899					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			AGCTGACCCCGCATTCCCTTC	0.443													71	198					0	0	0.01441	0	0		A	49067155	A	A	49067155	3	1	128	1	0	0	0	0	1	0	0	0	15010	1087	38	1	1309	1	SPAG9	17	49067155	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	149535	49067155	32128055	935	71223											
C17orf71	55181	broad.mit.edu	37	chr17	57288418	57288418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgccaaccaagctttcGtgtacatagtaccgggaagc	10	9	10	12	2	0	0	0	0	0	0	1	1	0	1	4	1	7	3	4	1	6	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:57288418G>A	uc002ixi.2	+	1	1048	c.1006G>A	c.(1006-1008)GTG>ATG	p.V336M		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	336					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					CCAAGCTTTCGTGTACATAGT	0.502													17	79					0	0	0.010504	0	0		A	57288418	A	A	57288418	3	1	128	1	0	0	0	0	1	0	0	0	1881	1145	40	1	1008	1	C17orf71	17	57288418	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	8221263	57288418	23906792	936	71224											
RPS6KB1	6198	broad.mit.edu	37	chr17	57970683	57970683	+	Frame_Shift_Del	DEL	G	-	-																															tctgaggatgagctggaggaGggggtgaggcccggggtccc																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:57970683delG	uc002ixy.2	+	1	241	c.138delG	c.(136-138)GAGfs	p.E46fs	TUBD1_uc010ddf.1_5'Flank|TUBD1_uc002ixw.1_5'Flank|TUBD1_uc010ddg.1_5'Flank|TUBD1_uc010ddh.1_5'Flank|TUBD1_uc010wok.1_5'Flank|TUBD1_uc002ixx.1_5'Flank|TUBD1_uc010wol.1_5'Flank|TUBD1_uc010ddi.1_5'Flank|RPS6KB1_uc010ddj.1_Frame_Shift_Del_p.E46fs|RPS6KB1_uc010wom.1_5'UTR|RPS6KB1_uc010won.1_Frame_Shift_Del_p.E46fs	NM_003161	NP_003152	P23443	KS6B1_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	46					apoptosis|G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|negative regulation of apoptosis|phosphatidylinositol-mediated signaling|positive regulation of mitotic cell cycle|positive regulation of translational initiation|TOR signaling cascade	cell junction|cytoplasm|cytosol|mitochondrial outer membrane|nucleus|nucleus|synapse|synaptosome	ATP binding|protein binding|protein kinase activity			large_intestine(1)	1	all_cancers(5;1.63e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.57e-12)|all cancers(12;6.41e-11)			AGCTGGAGGAGGGGGTGAGGC	0.592													6	11	---	---	---	---						.	-	57970683	-	-	57970683	7	5	128	1	0	1	0	1	0	0	0	0	13681	991	35	0	140	0	RPS6KB1	17	57970683	Frame_Shift_Del	DEL	G	TCGA-CG-4306-01A-01D-1158-08	682265	57970683	23224527	937	71225											
HEATR6	63897	broad.mit.edu	37	chr17	58121371	58121371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatactggtcaacagacccGtactgctctctcttccccgg	7	10	8	16	2	3	1	1	0	2	1	5	1	4	1	3	2	4	3	3	2	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:58121371G>A	uc002iyk.1	-	20	3116	c.3099C>T	c.(3097-3099)TAC>TAT	p.Y1033Y	HEATR6_uc010ddk.1_Silent_p.Y572Y|HEATR6_uc010wos.1_Silent_p.Y753Y	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	1033							binding			ovary(1)|skin(1)	2	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			CAACAGACCCGTACTGCTCTC	0.498													72	180					0	0	0.01441	0	0		A	58121371	A	A	58121371	2	1	128	1	0	0	0	0	0	0	0	1	7049	1140	40	1		1	HEATR6	17	58121371	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	150688	58121371	23073839	938	71226											
GH2	2689	broad.mit.edu	37	chr17	61957720	61957720	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tccacagagcggcactgcacGatgcgcaggaatgtctcgac	10	6	12	13	4	1	1	0	0	1	1	3	4	2	2	1	2	3	3	1	2	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:61957720G>C	uc002jco.1	-	5	677	c.615C>G	c.(613-615)ATC>ATG	p.I205M	GH2_uc002jcj.2_Intron|CSH2_uc002jck.2_Intron|GH2_uc002jcl.1_3'UTR|GH2_uc002jcm.1_Missense_Mutation_p.S204W|GH2_uc002jcn.1_Missense_Mutation_p.I190M	NM_002059	NP_002050	P01242	SOM2_HUMAN	growth hormone 2 isoform 1	205						extracellular region	hormone activity			upper_aerodigestive_tract(2)|pancreas(1)	3						GGCACTGCACGATGCGCAGGA	0.587													4	85					0	0	0.001168	0	0		C	61957720	C	C	61957720	3	2	128	1	0	0	0	0	1	0	0	0	6383	1059	37	5	130	5	GH2	17	61957720	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3836349	61957720	19237490	939	71227											
SCN4A	6329	broad.mit.edu	37	chr17	62036661	62036661	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcacagacagtccctgtacGttggccaggcctagctctac	9	8	10	14	1	1	1	0	0	1	1	2	1	2	1	3	2	4	4	3	2	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:62036661G>A	uc002jds.1	-	12	2060	c.1983C>T	c.(1981-1983)AAC>AAT	p.N661N		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	661	II.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GTCCCTGTACGTTGGCCAGGC	0.587													17	54					0	0	0.01892	0	0		A	62036661	A	A	62036661	2	1	128	1	0	0	0	0	0	0	0	1	13945	1136	40	1		1	SCN4A	17	62036661	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	78941	62036661	19158549	940	71228											
NOL11	25926	broad.mit.edu	37	chr17	65720282	65720282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttttactgcatctgtagatCggaaattcatctctttgatg	9	17	8	7	1	3	2	1	1	2	1	5	3	3	3	0	1	2	3	0	1	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:65720282C>T	uc002jgd.1	+	6	640	c.637C>T	c.(637-639)CGG>TGG	p.R213W	NOL11_uc010wql.1_Missense_Mutation_p.R31W|NOL11_uc010deu.1_5'UTR	NM_015462	NP_056277	Q9H8H0	NOL11_HUMAN	nucleolar protein 11	213						nucleolus					0	all_cancers(12;1.54e-10)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0518)|COAD - Colon adenocarcinoma(4;0.0977)|LUSC - Lung squamous cell carcinoma(166;0.24)			ATCTGTAGATCGGAAATTCAT	0.299													8	43					0	0	0.00308	0	0		T	65720282	T	T	65720282	3	4	128	1	0	0	0	0	1	0	0	0	10540	875	31	1	659	1	NOL11	17	65720282	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3683621	65720282	15474928	941	71229											
ABCA9	10350	broad.mit.edu	37	chr17	66982438	66982438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccccaggaagcccaggggttCccctccaccgctccctttca	6	7	8	20	1	1	0	1	0	0	0	4	1	4	1	8	3	1	2	8	3	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:66982438C>T	uc002jhu.2	-	32	4218	c.4075G>A	c.(4075-4077)GAA>AAA	p.E1359K	ABCA9_uc010dez.2_Missense_Mutation_p.E1321K	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1359	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					CCCAGGGGTTCCCCTCCACCG	0.507													24	115					0	0	0.021523	0	0		T	66982438	T	T	66982438	3	4	128	1	0	0	0	0	1	0	0	0	39	864	30	4	831	4	ABCA9	17	66982438	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1262156	66982438	14212772	942	71230											
SSTR2	6752	broad.mit.edu	37	chr17	71166486	71166486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatggggagcggagtgacaGtaagcaggacaaatcccggc	12	5	16	8	2	0	2	0	2	0	0	1	5	1	5	1	5	2	2	1	5	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:71166486G>A	uc002jje.2	+	2	1388	c.1028G>A	c.(1027-1029)AGT>AAT	p.S343N		NM_001050	NP_001041	P30874	SSR2_HUMAN	somatostatin receptor 2	343	Cytoplasmic (Potential).				digestion|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	PDZ domain binding|somatostatin receptor activity				0			LUSC - Lung squamous cell carcinoma(166;0.197)			CGGAGTGACAGTAAGCAGGAC	0.532													42	92					0	0	0.010771	0	0		A	71166486	A	A	71166486	3	1	128	1	0	0	0	0	1	0	0	0	15223	1029	36	4	1030	4	SSTR2	17	71166486	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4184048	71166486	10028724	943	71231											
SLC16A5	9121	broad.mit.edu	37	chr17	73096287	73096287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaccttccttgtcttcggcGggatctttctccactgctgc	3	15	9	14	2	3	0	0	0	3	0	6	1	4	1	3	2	3	2	3	2	1	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:73096287G>A	uc002jmr.2	+	5	901	c.529G>A	c.(529-531)GGG>AGG	p.G177R	SLC16A5_uc002jms.1_Missense_Mutation_p.G177R|SLC16A5_uc002jmt.2_Missense_Mutation_p.G177R|SLC16A5_uc002jmu.2_Missense_Mutation_p.G177R|SLC16A5_uc010wrt.1_Missense_Mutation_p.G217R	NM_004695	NP_004686	O15375	MOT6_HUMAN	solute carrier family 16, member 5	177	Helical; (Potential).				organic anion transport	integral to plasma membrane|membrane fraction	secondary active monocarboxylate transmembrane transporter activity|symporter activity			central_nervous_system(1)	1	all_lung(278;0.226)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)		Pyruvic acid(DB00119)	TGTCTTCGGCGGGATCTTTCT	0.642													14	36					0	0	0.003163	0	0		A	73096287	A	A	73096287	3	1	128	1	0	0	0	0	1	0	0	0	14436	1116	39	1	539	1	SLC16A5	17	73096287	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1929801	73096287	8098923	944	71232											
NUP85	79902	broad.mit.edu	37	chr17	73230741	73230741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcgccataggaaagtatcGcgagttccaccgtatgtacg	10	11	10	10	5	0	0	0	0	0	0	3	2	1	1	3	1	1	4	3	1	5	6	rs147921665		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:73230741G>A	uc002jng.1	+	17	1885	c.1625G>A	c.(1624-1626)CGC>CAC	p.R542H	NUP85_uc010dgd.1_Missense_Mutation_p.R497H|NUP85_uc010wrv.1_Missense_Mutation_p.R496H|NUP85_uc002jnh.1_Missense_Mutation_p.R145H	NM_024844	NP_079120	Q9BW27	NUP85_HUMAN	nucleoporin 85	542					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|nuclear membrane|Nup107-160 complex|spindle	protein binding			ovary(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		all cancers(21;3.45e-06)			GGAAAGTATCGCGAGTTCCAC	0.522													71	275					0	0	0.01441	0	0		A	73230741	A	A	73230741	3	1	128	1	0	0	0	0	1	0	0	0	10789	1087	38	1	1691	1	NUP85	17	73230741	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	134454	73230741	7964469	945	71233											
LLGL2	3993	broad.mit.edu	37	chr17	73539557	73539557	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgtgcgggagaggctcaAgcgggacctgttccagttta	7	9	14	11	2	1	1	1	0	0	1	2	3	2	2	3	3	2	3	3	3	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:73539557A>G	uc002joh.2	+	2	204	c.50A>G	c.(49-51)AAG>AGG	p.K17R	LLGL2_uc002jog.1_Missense_Mutation_p.K17R|LLGL2_uc010dgf.1_Missense_Mutation_p.K17R|LLGL2_uc002joi.2_Missense_Mutation_p.K17R|LLGL2_uc010dgg.1_Missense_Mutation_p.K17R	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	17					cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			GAGAGGCTCAAGCGGGACCTG	0.393													37	111					0	0	0.019004	0	0		G	73539557	G	G	73539557	3	3	128	1	0	0	0	0	1	0	0	0	8851	72	3	3	52	3	LLGL2	17	73539557	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	308816	73539557	7655653	946	71234											
ITGB4	3691	broad.mit.edu	37	chr17	73723340	73723340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtgtggataaggactgcGcctactgcacagacgaggtg	9	8	14	10	3	0	1	0	0	0	1	1	4	1	3	2	3	3	1	2	3	2	2	rs146966502		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:73723340G>A	uc002jpg.2	+	3	332	c.145G>A	c.(145-147)GCC>ACC	p.A49T	ITGB4_uc002jph.2_Missense_Mutation_p.A49T|ITGB4_uc010dgo.2_Missense_Mutation_p.A49T|ITGB4_uc002jpi.3_Missense_Mutation_p.A49T|ITGB4_uc010dgp.1_Missense_Mutation_p.A49T|ITGB4_uc002jpj.2_Missense_Mutation_p.A49T	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	49	PSI.|Extracellular (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			TAAGGACTGCGCCTACTGCAC	0.602													19	43					0	0	0.012319	0	0		A	73723340	A	A	73723340	3	1	128	1	0	0	0	0	1	0	0	0	7913	1087	38	1	151	1	ITGB4	17	73723340	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	183783	73723340	7471870	947	71235											
ITGB4	3691	broad.mit.edu	37	chr17	73733432	73733432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggtgcgctgctccttcCgggacgaggatgacgactgc	5	9	16	11	4	0	1	0	1	0	0	2	5	2	3	2	4	3	2	2	4	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:73733432C>T	uc002jpg.2	+	17	2207	c.2020C>T	c.(2020-2022)CGG>TGG	p.R674W	ITGB4_uc002jph.2_Missense_Mutation_p.R674W|ITGB4_uc010dgo.2_Missense_Mutation_p.R674W|ITGB4_uc002jpi.3_Missense_Mutation_p.R674W|ITGB4_uc010dgp.1_Missense_Mutation_p.R674W|ITGB4_uc002jpj.2_Missense_Mutation_p.R674W	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	674	Extracellular (Potential).			IHPGLCEDLRSCVQCQAWGTGEKKGRTCEECNFKVKMVDEL KRAEEVVVRCSFRDEDDDCTYSYTMEGDGAPGPNSTVLVHK KK -> STRASARTYAPACSARRGAPARRRGARVRNATSRS RWWTSLREARRWWCAAPSGTRMTTAPTATPWKVTAPLGPTA LSWCTRRR (in Ref. 5; CAB61345).	cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			CTGCTCCTTCCGGGACGAGGA	0.652													3	7					0	0	0.004672	0	0		T	73733432	T	T	73733432	3	4	128	1	0	0	0	0	1	0	0	0	7913	643	23	1	2082	1	ITGB4	17	73733432	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	10092	73733432	7461778	948	71236											
JMJD6	23210	broad.mit.edu	37	chr17	74719969	74719969	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaccaggtaatagcttcGtcttgctggttccctccttc	7	15	7	12	1	1	0	0	0	1	0	5	0	3	0	3	2	3	4	3	2	4	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:74719969G>A	uc002jso.2	-	3	1014	c.690C>T	c.(688-690)GAC>GAT	p.D230D	JMJD6_uc002jsn.1_Silent_p.D230D|JMJD6_uc010dgz.2_Silent_p.D230D|C17orf95_uc002jsp.2_5'Flank|C17orf95_uc002jsq.2_5'Flank|C17orf95_uc002jsr.2_5'Flank|C17orf95_uc002jss.2_5'Flank|C17orf95_uc002jst.2_5'Flank	NM_015167	NP_055982	Q6NYC1	JMJD6_HUMAN	jumonji domain containing 6 isoform 2	230	JmjC.				mRNA processing|peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine|regulation of nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|sprouting angiogenesis|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-R2 specific)|histone demethylase activity (H4-R3 specific)|identical protein binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptidyl-lysine 5-dioxygenase activity|single-stranded RNA binding			skin(2)|ovary(1)	3						TAATAGCTTCGTCTTGCTGGT	0.502													57	138					0	0	0.01441	0	0		A	74719969	A	A	74719969	2	1	128	1	0	0	0	0	0	0	0	1	7969	1136	40	1		1	JMJD6	17	74719969	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	986537	74719969	6475241	949	71237											
SEC14L1	6397	broad.mit.edu	37	chr17	75196739	75196739	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gattactacgcgggaggctgGcatcatcacgacaaaggtac	12	7	12	10	3	2	0	2	0	0	0	2	3	2	1	0	4	3	3	0	4	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:75196739G>A	uc002jto.2	+	9	1260	c.993G>A	c.(991-993)TGG>TGA	p.W331*	SEC14L1_uc010dhc.2_Nonsense_Mutation_p.W331*|SEC14L1_uc010wth.1_Nonsense_Mutation_p.W331*|SEC14L1_uc002jtm.2_Nonsense_Mutation_p.W331*|SEC14L1_uc010wti.1_Nonsense_Mutation_p.W297*	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	331	CRAL-TRIO.				transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						CGGGAGGCTGGCATCATCACG	0.498													7	181					0	0	0.00308	0	0		A	75196739	A	A	75196739	4	1	128	1	0	0	0	0	0	1	0	0	14006	1212	42	2	1019	2	SEC14L1	17	75196739	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	476770	75196739	5998471	950	71238											
DNAH17	8632	broad.mit.edu	37	chr17	76503643	76503643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctccaggtggctccaggttCgctggacctcaaaccagatg	8	9	11	13	1	2	1	1	0	1	1	5	2	3	2	4	4	1	3	4	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:76503643C>T	uc010wtu.1	-	2	533	c.356G>A	c.(355-357)CGA>CAA	p.R119Q						full-length cDNA clone CS0DJ002YI14 of T cells (Jurkat cell line) Cot 10-normalized of Homo sapiens (human).											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			GCTCCAGGTTCGCTGGACCTC	0.592													17	45					0	0	0.006122	0	0		T	76503643	T	T	76503643	3	4	128	1	0	0	0	0	1	0	0	0	4607	884	31	1	9123	1	DNAH17	17	76503643	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1306904	76503643	4691567	951	71239											
CBX8	57332	broad.mit.edu	37	chr17	77770056	77770056	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaagggtctgtacctttcctCaaaggctgcgagcaagcgag	10	8	13	10	2	2	0	1	0	1	0	3	3	3	0	2	2	4	3	2	2	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:77770056C>G	uc002jxd.1	-	3	265	c.172G>C	c.(172-174)GAG>CAG	p.E58Q		NM_020649	NP_065700	Q9HC52	CBX8_HUMAN	chromobox homolog 8	58	Chromo.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear chromatin|PcG protein complex	methylated histone residue binding				0			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			TACCTTTCCTCAAAGGCTGCG	0.517													52	257					0	0	0.01441	0	0		G	77770056	G	G	77770056	3	3	128	1	0	0	0	0	1	0	0	0	2727	837	29	5	984	5	CBX8	17	77770056	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1266413	77770056	3425154	952	71240											
AZI1	22994	broad.mit.edu	37	chr17	79173615	79173615	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtccaagagggtcccctcGcctgaccgctgccgctgctc	5	7	12	17	3	0	2	0	1	0	1	4	2	2	2	6	2	2	3	6	2	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:79173615G>A	uc002jzp.1	-	9	1127	c.927C>T	c.(925-927)GGC>GGT	p.G309G	AZI1_uc002jzm.1_5'Flank|AZI1_uc002jzn.1_Silent_p.G309G|AZI1_uc002jzo.1_Silent_p.G309G|AZI1_uc010wum.1_Silent_p.G309G	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	309					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			GGGTCCCCTCGCCTGACCGCT	0.632													35	131					0	0	0.017118	0	0		A	79173615	A	A	79173615	2	1	128	1	0	0	0	0	0	0	0	1	1241	1074	38	1		1	AZI1	17	79173615	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1403559	79173615	2021595	953	71241											
TBCD	6904	broad.mit.edu	37	chr17	80863898	80863898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgcagaagttgcttacGccttgtacaaacttgcagcc	9	10	9	13	2	0	1	0	0	0	1	0	1	0	1	3	0	7	5	3	0	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:80863898G>A	uc002kfz.2	+	20	2021	c.1891G>A	c.(1891-1893)GCC>ACC	p.A631T	TBCD_uc002kfx.1_Missense_Mutation_p.A614T|TBCD_uc002kfy.1_Missense_Mutation_p.A631T|TBCD_uc002kgb.1_5'UTR	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	631	HEAT 3.				'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			AGTTGCTTACGCCTTGTACAA	0.547													11	24					0	0	0.010729	0	0		A	80863898	A	A	80863898	3	1	128	1	0	0	0	0	1	0	0	0	15658	1087	38	1	1969	1	TBCD	17	80863898	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1690283	80863898	331312	954	71242											
METRNL	284207	broad.mit.edu	37	chr17	81052065	81052065	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggactcagccatccacctGcgcgtgagcagactctatcg	9	7	10	15	3	2	2	1	1	1	1	4	3	3	3	3	1	3	1	3	1	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr17:81052065G>A	uc002kgh.2	+	4	806	c.681G>A	c.(679-681)CTG>CTA	p.L227L	METRNL_uc002kgi.2_Silent_p.L145L	NM_001004431	NP_001004431	Q641Q3	METRL_HUMAN	meteorin, glial cell differentiation	227						extracellular region					0	Breast(20;0.000443)|all_neural(118;0.0779)		BRCA - Breast invasive adenocarcinoma(99;0.0517)|OV - Ovarian serous cystadenocarcinoma(97;0.0868)			CCATCCACCTGCGCGTGAGCA	0.652													24	76					0	0	0.00632	0	0		A	81052065	A	A	81052065	2	1	128	1	0	0	0	0	0	0	0	1	9507	1306	46	2		2	METRNL	17	81052065	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	188167	81052065	143145	955	71243											
PTPRM	5797	broad.mit.edu	37	chr18	8379271	8379271	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacatcctgcccccagaccGctgcctgcccttcctcatca	6	8	7	20	1	2	1	2	0	0	1	4	2	4	2	7	1	3	1	7	1	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:8379271G>T	uc002knn.3	+	26	4183	c.3680G>T	c.(3679-3681)CGC>CTC	p.R1227L	PTPRM_uc010dkv.2_Missense_Mutation_p.R1240L|PTPRM_uc010wzl.1_Missense_Mutation_p.R1014L	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1227	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				CCCCCAGACCGCTGCCTGCCC	0.607													19	95					2.4624e-09	2.58299e-09	0.008871	1	0		T	8379271	T	T	8379271	3	4	128	1	0	0	0	0	1	0	0	0	12831	1087	38	5	3829	5	PTPRM	18	8379271	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08		8379271	69697977	956	71244											
RIOK3	8780	broad.mit.edu	37	chr18	21056996	21056996	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggcagttatatcatgaatgTacgcttgtccatgctgacct	9	13	9	10	2	1	2	1	2	0	0	2	2	2	2	2	1	2	5	2	1	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:21056996T>C	uc002kui.3	+	10	1817	c.1200T>C	c.(1198-1200)TGT>TGC	p.C400C	RIOK3_uc010dls.2_Silent_p.C400C|RIOK3_uc010xas.1_Silent_p.C384C|RIOK3_uc010xat.1_Silent_p.C144C	NM_003831	NP_003822	O14730	RIOK3_HUMAN	sudD suppressor of bimD6 homolog	400	Protein kinase.				chromosome segregation		ATP binding|protein binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(21;0.000106)|all_epithelial(16;6.74e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0202)|Ovarian(20;0.127)					ATCATGAATGTACGCTTGTCC	0.393													11	49					0	0	0.016723	0	0		C	21056996	C	C	21056996	2	2	128	1	0	0	0	0	0	0	0	1	13404	1644	57	3		3	RIOK3	18	21056996	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	12677725	21056996	57020252	957	71245											
NPC1	4864	broad.mit.edu	37	chr18	21112182	21112182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctagaaatttagaagcCgttcgcgctctgttcctttg	8	13	11	9	3	1	2	0	0	1	2	3	2	2	2	2	1	1	4	2	1	4	6	rs151305963		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:21112182C>T	uc002kum.3	-	25	4095	c.3821G>A	c.(3820-3822)CGG>CAG	p.R1274Q	NPC1_uc010dlu.1_Intron|NPC1_uc010xaz.1_Missense_Mutation_p.R1007Q	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	1274					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					ATTTAGAAGCCGTTCGCGCTC	0.498													58	207					0	0	0.01441	0	0		T	21112182	T	T	21112182	3	4	128	1	0	0	0	0	1	0	0	0	10589	652	23	1	19	1	NPC1	18	21112182	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	55186	21112182	56965066	958	71246											
KLHL14	57565	broad.mit.edu	37	chr18	30275442	30275442	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttaccattcggattccactgGtcctctccacccaacacgaa	10	10	5	16	2	1	0	0	0	1	0	5	2	3	1	5	2	2	0	5	2	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:30275442G>A	uc002kxm.1	-	4	1531	c.1143C>T	c.(1141-1143)GAC>GAT	p.D381D	KLHL14_uc010dmd.1_5'UTR	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	381	Kelch 2.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						GATTCCACTGGTCCTCTCCAC	0.408													12	50					0	0	0.013537	0	0		A	30275442	A	A	30275442	2	1	128	1	0	0	0	0	0	0	0	1	8386	1252	44	4		4	KLHL14	18	30275442	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	9163260	30275442	47801806	959	71247											
ASXL3	80816	broad.mit.edu	37	chr18	31323088	31323088	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatgggaagtccaggagaGggtggaaagacgagaactct	13	5	16	7	1	1	3	0	0	1	3	2	7	2	5	2	4	1	0	2	4	3	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:31323088G>T	uc010dmg.1	+	12	3331	c.3276G>T	c.(3274-3276)GAG>GAT	p.E1092D	ASXL3_uc002kxq.2_Missense_Mutation_p.E799D	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1092					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						GTCCAGGAGAGGGTGGAAAGA	0.577													13	56					1.15088e-07	1.19778e-07	0.004007	1	0		T	31323088	T	T	31323088	3	4	128	1	0	0	0	0	1	0	0	0	1069	991	35	5	3322	5	ASXL3	18	31323088	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1047646	31323088	46754160	960	71248											
SLC14A2	8170	broad.mit.edu	37	chr18	43262376	43262376	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgccatctacaagctcccGctcagcaaagtcacctaccc	10	6	5	20	2	3	0	2	0	1	0	4	0	4	0	5	0	4	3	5	0	4	2	rs143610580		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:43262376G>A	uc010dnj.2	+	21	2976	c.2655G>A	c.(2653-2655)CCG>CCA	p.P885P	SLC14A2_uc002lbe.2_Silent_p.P885P	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	885						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity	p.P885P(1)		upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						ACAAGCTCCCGCTCAGCAAAG	0.542													129	281					0	0	0.01441	0	0		A	43262376	A	A	43262376	2	1	128	1	0	0	0	0	0	0	0	1	14422	1074	38	1		1	SLC14A2	18	43262376	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	11939288	43262376	34814872	961	71249											
KIAA1632	57724	broad.mit.edu	37	chr18	43446800	43446800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtaggaatagaaaggcccGcagacacttttaggagcttc	13	8	11	9	1	0	2	0	0	0	2	1	4	0	4	1	3	1	3	1	3	5	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:43446800G>A	uc002lbm.2	-	38	6684	c.6584C>T	c.(6583-6585)GCG>GTG	p.A2195V	KIAA1632_uc010xcq.1_Missense_Mutation_p.A749V|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.A1070V	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	2195					autophagy						0						AGAAAGGCCCGCAGACACTTT	0.448													79	302					0	0	0.01441	0	0		A	43446800	A	A	43446800	3	1	128	1	0	0	0	0	1	0	0	0	8265	1087	38	1	1183	1	KIAA1632	18	43446800	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	184424	43446800	34630448	962	71250											
TCEB3B	51224	broad.mit.edu	37	chr18	44561181	44561181	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggcactttctctcagctCtgggctcgcgactgtgagac	5	11	13	12	2	3	1	1	1	2	1	5	3	3	1	0	3	1	3	0	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:44561181C>A	uc002lcr.1	-	1	808	c.455G>T	c.(454-456)AGA>ATA	p.R152I	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	152					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TCTCTCAGCTCTGGGCTCGCG	0.657													49	141					9.52127e-25	1.04154e-24	0.01441	1	0		A	44561181	A	A	44561181	3	1	128	1	0	0	0	0	1	0	0	0	15707	913	32	5	1810	5	TCEB3B	18	44561181	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1114381	44561181	33516067	963	71251											
MYO5B	4645	broad.mit.edu	37	chr18	47390531	47390531	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgttcctgccggcgagtcGccgctggtcggcgctcacga	3	7	15	16	9	1	0	1	0	0	0	4	2	2	0	3	3	1	3	3	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:47390531G>A	uc002leb.2	-	28	4111	c.3823C>T	c.(3823-3825)CGA>TGA	p.R1275*	MYO5B_uc002lea.2_Nonsense_Mutation_p.R416*	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	1275					protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		CCGGCGAGTCGCCGCTGGTCG	0.612													23	64					0	0	0.00632	0	0		A	47390531	A	A	47390531	4	1	128	1	0	0	0	0	0	1	0	0	10097	1095	38	1	1775	1	MYO5B	18	47390531	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2829350	47390531	30686717	964	71252											
CCDC11	220136	broad.mit.edu	37	chr18	47778135	47778135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatagataacaattcaacacGgagctcctcacagcgttccc	13	8	7	13	2	2	1	2	0	0	1	4	3	4	2	2	1	4	2	2	1	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:47778135G>A	uc002lee.2	-	4	584	c.493C>T	c.(493-495)CGT>TGT	p.R165C		NM_145020	NP_659457	Q96M91	CCD11_HUMAN	coiled-coil domain containing 11	165										ovary(1)|pancreas(1)|skin(1)	3				STAD - Stomach adenocarcinoma(97;2.66e-05)|Colorectal(21;7.57e-05)|Lung(128;0.00932)|READ - Rectum adenocarcinoma(32;0.164)		AATTCAACACGGAGCTCCTCA	0.453													121	309					0	0	0.01441	0	0		A	47778135	A	A	47778135	3	1	128	1	0	0	0	0	1	0	0	0	2749	1116	39	1	1071	1	CCDC11	18	47778135	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	387604	47778135	30299113	965	71253											
MBD1	4152	broad.mit.edu	37	chr18	47803053	47803053	+	Frame_Shift_Del	DEL	T	-	-																															tcgacagtctttgcacaacgTtttgagccgctgcctttggg																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:47803053delT	uc010dow.1	-	5	891	c.454delA	c.(454-456)ACGfs	p.T152fs	MBD1_uc002lef.2_5'UTR|MBD1_uc002leg.2_Frame_Shift_Del_p.T152fs|MBD1_uc010xdi.1_Frame_Shift_Del_p.T178fs|MBD1_uc002leh.3_Frame_Shift_Del_p.T152fs|MBD1_uc002len.2_Frame_Shift_Del_p.T152fs|MBD1_uc002lei.3_Frame_Shift_Del_p.T152fs|MBD1_uc002lej.3_Frame_Shift_Del_p.T152fs|MBD1_uc002lek.3_Frame_Shift_Del_p.T152fs|MBD1_uc002lel.3_Frame_Shift_Del_p.T152fs|MBD1_uc002lem.3_Frame_Shift_Del_p.T152fs|MBD1_uc010xdj.1_Frame_Shift_Del_p.T152fs|MBD1_uc010xdk.1_Frame_Shift_Del_p.T152fs|MBD1_uc010dox.1_Frame_Shift_Del_p.T152fs|MBD1_uc002leo.2_Frame_Shift_Del_p.T152fs	NM_015846	NP_056671	Q9UIS9	MBD1_HUMAN	methyl-CpG binding domain protein 1 isoform 1	152					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|nuclear speck	methyl-CpG binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TTGCACAACGTTTTGAGCCGC	0.582													36	57	---	---	---	---						.	-	47803053	-	-	47803053	7	5	128	1	0	1	0	1	0	0	0	0	9360	1725	60	0	1605	0	MBD1	18	47803053	Frame_Shift_Del	DEL	T	TCGA-CG-4306-01A-01D-1158-08	24918	47803053	30274195	966	71254											
ALPK2	115701	broad.mit.edu	37	chr18	56204716	56204716	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggcaccttcactagcTgtgtgtgaaatgttcaaggt	8	13	11	9	0	2	1	2	1	0	0	2	1	2	1	2	2	1	3	2	2	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:56204716T>G	uc002lhj.3	-	5	2917	c.2703A>C	c.(2701-2703)ACA>ACC	p.T901T	ALPK2_uc002lhk.1_Silent_p.T232T	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	901							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						CTTCACTAGCTGTGTGTGAAA	0.512													23	69					0	0	0.01892	0	0		G	56204716	G	G	56204716	2	3	128	1	0	0	0	0	0	0	0	1	545	1567	55	5		5	ALPK2	18	56204716	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	8401663	56204716	21872532	967	71255											
CPLX4	339302	broad.mit.edu	37	chr18	56963955	56963955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacggaacacttctgctccGctgtctgcttgatttcagtg	6	14	9	12	2	4	1	2	1	2	0	5	2	5	2	1	1	3	3	1	1	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:56963955G>A	uc002lhy.2	-	3	645	c.458C>T	c.(457-459)GCG>GTG	p.A153V		NM_181654	NP_857637	Q7Z7G2	CPLX4_HUMAN	complexin 4 precursor	153					exocytosis|neurotransmitter transport	cell junction|synapse	syntaxin binding			ovary(1)	1		Colorectal(73;0.175)				CTTCTGCTCCGCTGTCTGCTT	0.498													27	63					0	0	0.013726	0	0		A	56963955	A	A	56963955	3	1	128	1	0	0	0	0	1	0	0	0	3810	1087	38	1	28	1	CPLX4	18	56963955	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	759239	56963955	21113293	968	71256											
CDH20	28316	broad.mit.edu	37	chr18	59221671	59221671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctacgtgcctcagacgtgcGcagtgaacagcactgtccac	9	7	11	14	3	1	2	1	1	0	1	2	2	2	2	2	0	5	3	2	0	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:59221671G>A	uc010dps.1	+	11	2161	c.2149G>A	c.(2149-2151)GCA>ACA	p.A717T	CDH20_uc002lif.2_Missense_Mutation_p.A711T	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	717	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				TCAGACGTGCGCAGTGAACAG	0.662													17	46					0	0	0.007413	0	0		A	59221671	A	A	59221671	3	1	128	1	0	0	0	0	1	0	0	0	3109	1087	38	1	2191	1	CDH20	18	59221671	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2257716	59221671	18855577	969	71257											
PHLPP1	23239	broad.mit.edu	37	chr18	60646006	60646006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagcctccgatgagccccCgcccggagccctaagcgaga	10	3	11	17	4	0	2	0	1	0	1	1	5	1	3	6	1	5	0	6	1	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:60646006C>T	uc002lis.2	+	18	3138	c.2960C>T	c.(2959-2961)CCG>CTG	p.P987L		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	1499					apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						GATGAGCCCCCGCCCGGAGCC	0.632													4	19					0	0	0.001984	0	0		T	60646006	T	T	60646006	3	4	128	1	0	0	0	0	1	0	0	0	11873	652	23	1	4562	1	PHLPP1	18	60646006	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1424335	60646006	17431242	970	71258											
SOCS6	9306	broad.mit.edu	37	chr18	67992102	67992102	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgaaaaaggcggaaaaaaCagatcaaaaagcgagagcct	21	3	11	6	2	1	3	1	1	0	2	1	6	1	4	1	2	3	0	1	2	7	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:67992102C>T	uc002lkr.1	+	2	514	c.198C>T	c.(196-198)AAC>AAT	p.N66N	SOCS6_uc010dqq.2_Silent_p.N66N	NM_004232	NP_004223	O14544	SOCS6_HUMAN	suppressor of cytokine signaling 6	66					defense response|JAK-STAT cascade|negative regulation of signal transduction|regulation of growth	cytoplasm				large_intestine(1)|lung(1)	2		Esophageal squamous(42;0.129)|Colorectal(73;0.152)				GCGGAAAAAACAGATCAAAAA	0.478													25	121					0	0	0.00632	0	0		T	67992102	T	T	67992102	2	4	128	1	0	0	0	0	0	0	0	1	14943	477	17	4		4	SOCS6	18	67992102	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	7346096	67992102	10085146	971	71259											
ATP9B	374868	broad.mit.edu	37	chr18	77067118	77067118	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccatcgtgctgtgtcacAacgtgacccccgtgtatgag	9	9	11	12	3	1	2	1	2	0	0	2	2	1	2	3	0	3	2	3	0	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:77067118A>G	uc002lmx.2	+	15	1671	c.1657A>G	c.(1657-1659)AAC>GAC	p.N553D	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Missense_Mutation_p.N553D|ATP9B_uc002lmz.1_Missense_Mutation_p.N247D	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	553	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		GCTGTGTCACAACGTGACCCC	0.517													33	118					0	0	0.019004	0	0		G	77067118	G	G	77067118	3	3	128	1	0	0	0	0	1	0	0	0	1200	130	5	3	1715	3	ATP9B	18	77067118	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	9075016	77067118	1010130	972	71260											
CTDP1	9150	broad.mit.edu	37	chr18	77477825	77477825	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagggagaacagccctgcGgcctttcccgaccgggaggg	8	4	16	13	3	0	1	0	0	0	1	1	5	1	2	4	4	3	0	4	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:77477825G>A	uc002lnh.1	+	10	2373	c.2226G>A	c.(2224-2226)GCG>GCA	p.A742A	CTDP1_uc002lni.1_Silent_p.A742A|CTDP1_uc010drd.1_Silent_p.A742A	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	742					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		ACAGCCCTGCGGCCTTTCCCG	0.667													6	99					0	0	0.004482	0	0		A	77477825	A	A	77477825	2	1	128	1	0	0	0	0	0	0	0	1	4005	1103	39	1		1	CTDP1	18	77477825	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	410707	77477825	599423	973	71261											
C18orf22	79863	broad.mit.edu	37	chr18	77798609	77798609	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctgcagagaagtgccgcGcacatgaggtgatgaccttt	9	9	13	10	2	0	4	0	3	0	1	1	5	1	4	3	1	2	2	3	1	1	1	rs143262320	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr18:77798609G>A	uc002lns.2	+	4	621	c.483G>A	c.(481-483)GCG>GCA	p.A161A	C18orf22_uc010drh.2_Silent_p.A161A|C18orf22_uc010dri.1_Intron|C18orf22_uc002lnt.2_5'Flank	NM_024805	NP_079081	Q8N0V3	RBFA_HUMAN	hypothetical protein LOC79863 precursor	161					rRNA processing	mitochondrion					0		all_cancers(4;3.21e-14)|all_epithelial(4;7.11e-09)|all_lung(4;0.00366)|Lung NSC(4;0.00683)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0545)|all_hematologic(56;0.15)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;6.46e-08)|BRCA - Breast invasive adenocarcinoma(31;0.00376)		GAAGTGCCGCGCACATGAGGT	0.498													4	103					0	0	0.014758	0	0		A	77798609	A	A	77798609	2	1	128	1	0	0	0	0	0	0	0	1	1901	1074	38	1		1	C18orf22	18	77798609	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	320784	77798609	278639	974	71262											
SHC2	25759	broad.mit.edu	37	chr19	422256	422256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcgcacaaggaagtccccgtCagctcgaagcatcctctctg	9	8	9	15	3	2	0	1	0	1	0	7	2	4	1	3	1	2	3	3	1	3	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:422256C>T	uc002loq.3	-	11	1510	c.1510G>A	c.(1510-1512)GAC>AAC	p.D504N	SHC2_uc002lop.3_Missense_Mutation_p.D245N	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	504	SH2.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGTCCCCGTCAGCTCGAAGC	0.701													17	15					0	0	0.007413	0	0		T	422256	T	T	422256	3	4	128	1	0	0	0	0	1	0	0	0	14296	826	29	4	246	4	SHC2	19	422256	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08		422256	58706727	975	71263											
ABCA7	10347	broad.mit.edu	37	chr19	1048922	1048922	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggatccctgaaccatggaaTtttccttttcggaggagcta	9	12	11	9	1	0	1	0	1	0	0	3	5	2	5	3	4	2	1	3	4	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:1048922T>A	uc002lqw.3	+	17	2529	c.2298T>A	c.(2296-2298)AAT>AAA	p.N766K	ABCA7_uc010dsb.1_Missense_Mutation_p.N628K	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	766					phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AACCATGGAATTTTCCTTTTC	0.592													5	14					0	0	0.00308	0	0		A	1048922	A	A	1048922	3	1	128	1	0	0	0	0	1	0	0	0	37	1490	52	5	2360	5	ABCA7	19	1048922	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	626666	1048922	58080061	976	71264											
APC2	10297	broad.mit.edu	37	chr19	1455462	1455462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgctcgctgatggaggagcGcttcggcacctcggacgaga	7	6	15	13	6	0	2	0	1	0	1	3	6	0	5	2	4	1	4	2	4	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:1455462G>A	uc002lsr.1	+	6	810	c.602G>A	c.(601-603)CGC>CAC	p.R201H	APC2_uc002lss.1_5'UTR|APC2_uc002lst.1_Missense_Mutation_p.R201H|APC2_uc002lsu.1_Missense_Mutation_p.R200H	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	201					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATGGAGGAGCGCTTCGGCACC	0.692													11	0					0	0	0.008291	0	0		A	1455462	A	A	1455462	3	1	128	1	0	0	0	0	1	0	0	0	764	1087	38	1	620	1	APC2	19	1455462	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	406540	1455462	57673521	977	71265											
TMEM146	257062	broad.mit.edu	37	chr19	5745968	5745968	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccctcaaccggagtttcggGctgtcttttgactataatgg	7	13	10	11	2	2	1	1	1	1	0	3	2	2	2	3	3	1	2	3	3	3	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:5745968G>T	uc002mda.2	+	9	763	c.702G>T	c.(700-702)GGG>GGT	p.G234G	TMEM146_uc010duj.1_5'UTR	NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	234	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						GGAGTTTCGGGCTGTCTTTTG	0.522													22	405					1.55795e-14	1.66851e-14	0.012319	1	0		T	5745968	T	T	5745968	2	4	128	1	0	0	0	0	0	0	0	1	16085	1190	42	5		5	TMEM146	19	5745968	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4290506	5745968	53383015	978	71266											
RANBP3	8498	broad.mit.edu	37	chr19	5933443	5933443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcgctgggggcttggcCgtggatcagcgttggtggct	3	10	18	10	3	1	0	1	0	0	0	1	1	1	1	2	6	2	4	2	6	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:5933443C>T	uc002mdw.2	-	6	681	c.454G>A	c.(454-456)GGC>AGC	p.G152S	RANBP3_uc002mdv.2_5'UTR|RANBP3_uc002mdx.2_Missense_Mutation_p.G152S|RANBP3_uc002mdy.2_Missense_Mutation_p.G84S|RANBP3_uc002mdz.2_Missense_Mutation_p.G84S|RANBP3_uc010duq.2_Missense_Mutation_p.G62S|RANBP3_uc002mea.2_Missense_Mutation_p.G24S|RANBP3_uc010xix.1_Missense_Mutation_p.G24S	NM_007322	NP_015561	Q9H6Z4	RANB3_HUMAN	RAN binding protein 3 isoform RANBP3-d	152					intracellular transport|protein transport	cytoplasm|nucleus	Ran GTPase binding			breast(1)	1						GGGGCTTGGCCGTGGATCAGC	0.622													23	30					0	0	0.013726	0	0		T	5933443	T	T	5933443	3	4	128	1	0	0	0	0	1	0	0	0	13054	652	23	1	1297	1	RANBP3	19	5933443	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	187475	5933443	53195540	979	71267											
CD209	30835	broad.mit.edu	37	chr19	7810788	7810788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggtcagctcctggtagatctCctgcagcttagatttctctg	6	14	10	11	0	3	2	1	0	2	2	6	2	4	2	2	2	3	4	2	2	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:7810788C>T	uc002mht.2	-	4	431	c.364G>A	c.(364-366)GAG>AAG	p.E122K	CD209_uc010xju.1_Intron|CD209_uc010dvp.2_Missense_Mutation_p.E98K|CD209_uc002mhr.2_Missense_Mutation_p.E98K|CD209_uc002mhs.2_Missense_Mutation_p.E98K|CD209_uc002mhu.2_Missense_Mutation_p.E122K|CD209_uc010dvq.2_Missense_Mutation_p.E122K|CD209_uc002mhq.2_Missense_Mutation_p.E122K|CD209_uc002mhv.2_Missense_Mutation_p.E98K|CD209_uc002mhx.2_Missense_Mutation_p.E78K|CD209_uc002mhw.2_Missense_Mutation_p.E78K|CD209_uc010dvr.2_Intron	NM_021155	NP_066978	Q9NNX6	CD209_HUMAN	CD209 molecule isoform 1	122	Extracellular (Probable).|2.|7 X approximate tandem repeats.				cell-cell recognition|endocytosis|heterophilic cell-cell adhesion|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to membrane|plasma membrane	mannose binding|metal ion binding|peptide antigen binding|receptor activity|virion binding			skin(1)	1						TGGTAGATCTCCTGCAGCTTA	0.562													139	174					0	0	0.01441	0	0		T	7810788	T	T	7810788	3	4	128	1	0	0	0	0	1	0	0	0	2987	864	30	4	866	4	CD209	19	7810788	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1877345	7810788	51318195	980	71268											
MUC16	94025	broad.mit.edu	37	chr19	9019283	9019283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actagtacttacttgcggggCttgggagggagaatggagtc	9	10	16	6	1	0	1	0	0	0	1	1	4	0	3	0	5	3	2	0	5	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:9019283C>T	uc002mkp.2	-	23	37808	c.37604G>A	c.(37603-37605)AGC>AAC	p.S12535N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12537	Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACTTGCGGGGCTTGGGAGGGA	0.443													11	40					0	0	0.008291	0	0		T	9019283	T	T	9019283	3	4	128	1	0	0	0	0	1	0	0	0	9991	797	28	2	6167	2	MUC16	19	9019283	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1208495	9019283	50109700	981	71269											
MUC16	94025	broad.mit.edu	37	chr19	9061718	9061718	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgctctctggtaatgtggaGaaaaaagaagttgaggtcat	14	11	12	4	0	2	3	1	1	1	2	3	4	2	3	0	3	1	3	0	3	5	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:9061718G>A	uc002mkp.2	-	3	25932	c.25728C>T	c.(25726-25728)TTC>TTT	p.F8576F		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8578	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTAATGTGGAGAAAAAAGAAG	0.537													18	43					0	0	0.008871	0	0		A	9061718	A	A	9061718	2	1	128	1	0	0	0	0	0	0	0	1	9991	933	33	4		4	MUC16	19	9061718	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	42435	9061718	50067265	982	71270											
COL5A3	50509	broad.mit.edu	37	chr19	10076989	10076989	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaggtttgggttactcaCgatctcaaacttcttgtcgg	8	14	11	8	2	3	1	2	1	2	1	5	3	3	1	0	3	2	2	0	3	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:10076989C>T	uc002mmq.1	-	64	4868	c.4782_splice	c.e64+1	p.I1594_splice		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein						collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			GGGTTACTCACGATCTCAAAC	0.542													5	64					0	0	0.004482	0	0		T	10076989	T	T	10076989	5	4	128	1	0	0	0	0	0	0	1	0	3701	550	19	1	470	1	COL5A3	19	10076989	Splice_Site	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1015271	10076989	49051994	983	71271											
ILF3	3609	broad.mit.edu	37	chr19	10793817	10793817	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgagaacgtaaaacagcaggGgccgatcctgacaaagcacg	15	4	12	10	3	0	2	0	2	0	1	1	4	1	2	2	2	4	3	2	2	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:10793817G>T	uc002mpn.2	+	14	1870	c.1553G>T	c.(1552-1554)GGG>GTG	p.G518V	ILF3_uc002mpm.2_Missense_Mutation_p.G522V|ILF3_uc002mpl.2_Missense_Mutation_p.G518V|ILF3_uc002mpk.2_Missense_Mutation_p.G518V|ILF3_uc010xli.1_Missense_Mutation_p.G116V|ILF3_uc002mpo.2_Missense_Mutation_p.G522V|ILF3_uc002mpp.2_Missense_Mutation_p.G343V|ILF3_uc002mpq.2_5'Flank	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	518					M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			AAACAGCAGGGGCCGATCCTG	0.567													77	84					2.17741e-50	2.42381e-50	0.01441	1	0		T	10793817	T	T	10793817	3	4	128	1	0	0	0	0	1	0	0	0	7728	1232	43	5	1615	5	ILF3	19	10793817	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	716828	10793817	48335166	984	71272											
ILF3	3609	broad.mit.edu	37	chr19	10798154	10798154	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggtgcccccaaaacacgCtgggaagaagcagccgcacg	12	2	12	15	4	0	1	0	0	0	1	0	2	0	2	4	2	4	3	4	2	4	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:10798154C>A	uc002mpn.2	+	18	2509	c.2192C>A	c.(2191-2193)GCT>GAT	p.A731D	ILF3_uc002mpo.2_Missense_Mutation_p.A735D|ILF3_uc002mpq.2_Missense_Mutation_p.L34M	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	731	Interaction with PRMT1.				M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			CCAAAACACGCTGGGAAGAAG	0.657													18	20					1.02788e-11	1.08941e-11	0.00499	1	0		A	10798154	A	A	10798154	3	1	128	1	0	0	0	0	1	0	0	0	7728	797	28	5	2342	5	ILF3	19	10798154	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4337	10798154	48330829	985	71273											
LOC55908	55908	broad.mit.edu	37	chr19	11350389	11350389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcagcggcccccatgggcGgcccagaactggcacagcat	8	4	12	17	2	1	1	1	0	0	1	1	1	1	1	4	4	3	2	4	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:11350389G>A	uc010dxx.2	+	2	237	c.235G>A	c.(235-237)GGC>AGC	p.G79S	DOCK6_uc010xlq.1_5'Flank|DOCK6_uc002mqs.3_Intron|LOC55908_uc010dxw.2_Intron	NM_018687	NP_061157	Q6UXH0	TD26_HUMAN	hepatocellular carcinoma-associated gene TD26	26						extracellular region					0						CCCCATGGGCGGCCCAGAACT	0.657													23	24					0	0	0.014323	0	0		A	11350389	A	A	11350389	3	1	128	1	0	0	0	0	1	0	0	0	8899	1116	39	1	78	1	LOC55908	19	11350389	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	552235	11350389	47778594	986	71274											
LPPR2	64748	broad.mit.edu	37	chr19	11470601	11470601	+	Frame_Shift_Del	DEL	C	-	-																															ggggcctgctgccgcttcagCcccccagtgcggaggctggt																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:11470601delC	uc002mre.1	+	5	697	c.360delC	c.(358-360)AGCfs	p.S120fs	LPPR2_uc002mrf.1_Frame_Shift_Del_p.S95fs|LPPR2_uc010dxy.1_5'UTR	NM_022737	NP_073574	Q96GM1	LPPR2_HUMAN	lipid phosphate phosphatase-related protein type	120						integral to membrane	phosphatidate phosphatase activity			large_intestine(1)	1						GCCGCTTCAGCCCCCCAGTGC	0.627													19	41	---	---	---	---						.	-	11470601	-	-	11470601	7	5	128	1	0	1	0	1	0	0	0	0	8943	738	26	0	370	0	LPPR2	19	11470601	Frame_Shift_Del	DEL	C	TCGA-CG-4306-01A-01D-1158-08	120212	11470601	47658382	987	71275											
ZNF440	126070	broad.mit.edu	37	chr19	11943295	11943295	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtgggaaagccttcagatAtgtgaataaccttcaaagtc	14	11	9	7	0	2	2	2	1	0	1	3	3	2	3	2	1	2	0	2	1	5	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:11943295A>C	uc002msp.1	+	4	1460	c.1304A>C	c.(1303-1305)TAT>TCT	p.Y435S		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	435	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCCTTCAGATATGTGAATAAC	0.413													23	163					0	0	0.017118	0	0		C	11943295	C	C	11943295	3	2	128	1	0	0	0	0	1	0	0	0	17938	449	16	5	1318	5	ZNF440	19	11943295	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	472694	11943295	47185688	988	71276			1	32		3	3	116	N	T_A	8.958176e-06
ZNF440	126070	broad.mit.edu	37	chr19	11943375	11943375	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagacgttataaatgtaagAtatgtgggaaaggcttttat	16	13	10	2	1	0	2	0	0	0	2	0	3	0	3	0	2	0	3	0	2	8	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:11943375A>C	uc002msp.1	+	4	1540	c.1384A>C	c.(1384-1386)ATA>CTA	p.I462L		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	462	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TAAATGTAAGATATGTGGGAA	0.368													9	117					0	0	0.006214	0	0		C	11943375	C	C	11943375	3	2	128	1	0	0	0	0	1	0	0	0	17938	333	12	5	1398	5	ZNF440	19	11943375	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	80	11943375	47185608	989	71277			1	32		3	3	116	N	T_A	8.958176e-06
ZNF440	126070	broad.mit.edu	37	chr19	11943410	11943410	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttattgtcccaaatcattTcaaagacatgaaaaaactca	17	13	3	8	0	3	2	3	1	0	1	4	2	4	2	1	0	1	0	1	0	6	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:11943410T>G	uc002msp.1	+	4	1575	c.1419T>G	c.(1417-1419)TTT>TTG	p.F473L		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	473	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCAAATCATTTCAAAGACATG	0.358													5	92					0	0	0.001984	0	0		G	11943410	G	G	11943410	3	3	128	1	0	0	0	0	1	0	0	0	17938	1780	62	5	1433	5	ZNF440	19	11943410	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	35	11943410	47185573	990	71278			1	32		3	3	116	N	T_A	8.958176e-06
GCDH	2639	broad.mit.edu	37	chr19	13008623	13008623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggggaatgggatttctgacGagtatcacgtgatccggcac	9	9	15	8	3	2	2	1	2	1	0	3	5	3	4	1	4	0	2	1	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:13008623G>A	uc002mvq.2	+	11	1266	c.1189G>A	c.(1189-1191)GAG>AAG	p.E397K	GCDH_uc010xms.1_3'UTR|GCDH_uc002mvp.2_Missense_Mutation_p.E397K|GCDH_uc010xmt.1_Missense_Mutation_p.E231K|GCDH_uc010xmu.1_Missense_Mutation_p.E353K	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a	397					lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						GATTTCTGACGAGTATCACGT	0.567													4	150					0	0	0.009096	0	0		A	13008623	A	A	13008623	3	1	128	1	0	0	0	0	1	0	0	0	6302	1059	37	1	1227	1	GCDH	19	13008623	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1065213	13008623	46120360	991	71279											
IER2	9592	broad.mit.edu	37	chr19	13264528	13264528	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttcccaacctggcccgCgtcctgcagaggcgcttctc	4	9	10	18	3	1	1	0	0	1	1	4	1	3	1	5	2	2	2	5	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:13264528C>T	uc002mwr.2	+	2	856	c.528C>T	c.(526-528)CGC>CGT	p.R176R		NM_004907	NP_004898	Q9BTL4	IER2_HUMAN	immediate early response 2	176								p.A175fs*42(1)		kidney(1)	1			OV - Ovarian serous cystadenocarcinoma(19;3.41e-21)			ACCTGGCCCGCGTCCTGCAGA	0.721													24	19					0	0	0.004656	0	0		T	13264528	T	T	13264528	2	4	128	1	0	0	0	0	0	0	0	1	7521	755	27	1		1	IER2	19	13264528	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	255905	13264528	45864455	992	71280											
NOTCH3	4854	broad.mit.edu	37	chr19	15278099	15278099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccatgccatcagcatctgCgtcgccctgtggtggtgtca	6	11	11	13	2	3	0	2	0	1	0	5	0	4	0	3	2	3	1	3	2	0	0	rs139983430		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:15278099C>T	uc002nan.2	-	29	5399	c.5323G>A	c.(5323-5325)GCA>ACA	p.A1775T		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1775	Cytoplasmic (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			TCAGCATCTGCGTCGCCCTGT	0.587													13	289					0	0	0.003163	0	0		T	15278099	T	T	15278099	3	4	128	1	0	0	0	0	1	0	0	0	10569	768	27	1	1662	1	NOTCH3	19	15278099	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2013571	15278099	43850884	993	71281											
NOTCH3	4854	broad.mit.edu	37	chr19	15302604	15302604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggtgttgacgccatccaCgcatgtccccccattgagac	9	9	9	14	2	0	2	0	2	0	1	2	3	2	2	5	1	0	2	5	1	1	3	rs115836330	by1000genomes	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:15302604C>T	uc002nan.2	-	5	830	c.754G>A	c.(754-756)GTG>ATG	p.V252M	NOTCH3_uc002nao.1_Missense_Mutation_p.V252M	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	252	Extracellular (Potential).|EGF-like 6; calcium-binding (Potential).		Missing (in CADASIL).		Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			ACGCCATCCACGCATGTCCCC	0.612													31	29					0	0	0.005524	0	0		T	15302604	T	T	15302604	3	4	128	1	0	0	0	0	1	0	0	0	10569	536	19	1	6327	1	NOTCH3	19	15302604	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	24505	15302604	43826379	994	71282											
MYO9B	4650	broad.mit.edu	37	chr19	17322569	17322569	+	Frame_Shift_Del	DEL	G	-	-																															gctggaggagcgggccgggcGgggggcctcggaaggtcagt																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:17322569delG	uc010eak.2	+	39	6196	c.6044delG	c.(6043-6045)CGGfs	p.R2015fs	MYO9B_uc002nfi.2_Frame_Shift_Del_p.R2015fs|MYO9B_uc002nfm.1_Frame_Shift_Del_p.R175fs	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	2015	Tail.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						CGGGCCGGGCGGGGGGCCTCG	0.692													49	59	---	---	---	---						.	-	17322569	-	-	17322569	7	5	128	1	0	1	0	1	0	0	0	0	10103	1116	39	0	6194	0	MYO9B	19	17322569	Frame_Shift_Del	DEL	G	TCGA-CG-4306-01A-01D-1158-08	2019965	17322569	41806414	995	71283											
ZNF101	94039	broad.mit.edu	37	chr19	19790942	19790942	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggtggtgcagttccctcCgaagacatgaaatgactcac	10	10	11	10	1	1	3	1	2	0	1	3	4	3	3	2	2	1	2	2	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:19790942C>A	uc002nni.1	+	4	1254	c.1144C>A	c.(1144-1146)CGA>AGA	p.R382R	ZNF101_uc010ecg.1_Silent_p.R262R|ZNF101_uc002nnj.1_Silent_p.R262R	NM_033204	NP_149981	Q8IZC7	ZN101_HUMAN	zinc finger protein 101	382	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CAGTTCCCTCCGAAGACATGA	0.378													63	63					1.66068e-10	1.75169e-10	0.01441	1	0		A	19790942	A	A	19790942	2	1	128	1	0	0	0	0	0	0	0	1	17739	644	23	5		5	ZNF101	19	19790942	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2468373	19790942	39338041	996	71284											
ZNF100	163227	broad.mit.edu	37	chr19	21909815	21909815	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattaaaagctttgccacaTtcttcacatttgtagggttt	10	17	6	8	0	3	0	2	0	1	0	3	0	3	0	1	1	2	3	1	1	3	7			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:21909815T>C	uc002nqi.2	-	5	1498	c.1299A>G	c.(1297-1299)GAA>GAG	p.E433E	ZNF100_uc002nqh.2_Silent_p.E369E	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	433	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTTGCCACATTCTTCACATT	0.403													28	271					0	0	0.005443	0	0		C	21909815	C	C	21909815	2	2	128	1	0	0	0	0	0	0	0	1	17738	1490	52	3		3	ZNF100	19	21909815	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	2118873	21909815	37219168	997	71285											
C19orf2	8725	broad.mit.edu	37	chr19	30505891	30505891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actacccactattccagaacGaaaggaagttctgttggaag	14	9	9	9	1	1	1	0	0	1	1	2	4	2	3	2	2	2	2	2	2	6	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:30505891G>A	uc002nsr.2	+	11	1553	c.1523G>A	c.(1522-1524)CGA>CAA	p.R508Q	C19orf2_uc002nsq.2_Intron|C19orf2_uc002nss.2_Missense_Mutation_p.R468Q|C19orf2_uc002nst.2_Missense_Mutation_p.R432Q	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	508					protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		ATTCCAGAACGAAAGGAAGTT	0.433													82	243					0	0	0.01441	0	0		A	30505891	A	A	30505891	3	1	128	1	0	0	0	0	1	0	0	0	1914	1058	37	1	1565	1	C19orf2	19	30505891	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	8596076	30505891	28623092	998	71286											
PEPD	5184	broad.mit.edu	37	chr19	33968993	33968993	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaatggtattgttgacttcGaacctgtagggcgaaaagaa	14	10	12	5	2	0	3	0	1	0	2	1	5	0	3	1	2	1	3	1	2	7	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:33968993G>A	uc002nur.3	-	7	642	c.507C>T	c.(505-507)TTC>TTT	p.F169F	PEPD_uc010xrr.1_Silent_p.F169F|PEPD_uc010xrs.1_Silent_p.F105F	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	169					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)					TGTTGACTTCGAACCTGTAGG	0.478													4	15					0	0	0.014758	0	0		A	33968993	A	A	33968993	2	1	128	1	0	0	0	0	0	0	0	1	11747	1049	37	1		1	PEPD	19	33968993	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	3463102	33968993	25159990	999	71287											
PEPD	5184	broad.mit.edu	37	chr19	33980958	33980958	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccgctgtccgtgttgacGccacgctggggagagagaac	7	7	15	12	4	0	3	0	1	0	2	1	5	1	3	3	2	2	3	3	2	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:33980958G>A	uc002nur.3	-	6	582	c.447C>T	c.(445-447)GGC>GGT	p.G149G	PEPD_uc010xrr.1_Silent_p.G149G|PEPD_uc010xrs.1_Silent_p.G85G	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	149					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity	p.G149G(1)		ovary(2)	2	Esophageal squamous(110;0.137)					CCGTGTTGACGCCACGCTGGG	0.652													12	21					0	0	0.016723	0	0		A	33980958	A	A	33980958	2	1	128	1	0	0	0	0	0	0	0	1	11747	1074	38	1		1	PEPD	19	33980958	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	11965	33980958	25148025	1000	71288											
HPN	3249	broad.mit.edu	37	chr19	35550661	35550661	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtgctcctcgcgctccaAcgccagggtagccggactca	6	7	12	16	4	1	0	1	0	0	0	4	1	3	1	4	2	3	4	4	2	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:35550661A>G	uc002nxq.1	+	6	490	c.245A>G	c.(244-246)AAC>AGC	p.N82S	HPN_uc002nxr.1_Missense_Mutation_p.N82S|HPN_uc002nxs.1_Missense_Mutation_p.N34S|HPN_uc010xsh.1_Missense_Mutation_p.N51S|HPN_uc002nxt.1_5'UTR|LOC100128675_uc010xsi.1_Silent_p.L82L	NM_002151	NP_002142	P05981	HEPS_HUMAN	hepsin	82	SRCR.|Extracellular (Potential).				cell growth|proteolysis	cytoplasm|integral to plasma membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2	all_lung(56;5.38e-08)|Lung NSC(56;8.61e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)		Coagulation factor VIIa(DB00036)	TCGCGCTCCAACGCCAGGGTA	0.682													3	14					0	0	0.004672	0	0		G	35550661	G	G	35550661	3	3	128	1	0	0	0	0	1	0	0	0	7352	43	2	3	259	3	HPN	19	35550661	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	1569703	35550661	23578322	1001	71289											
MAG	4099	broad.mit.edu	37	chr19	35801452	35801452	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcttttctgtcctcagatCgactgatgtgggccaagatc	7	13	11	10	1	3	3	1	1	2	2	6	4	4	3	2	2	0	0	2	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:35801452C>T	uc002nyy.1	+	9	1671	c.1522C>T	c.(1522-1524)CGA>TGA	p.R508*	MAG_uc002nyx.1_Nonsense_Mutation_p.R508*|MAG_uc010eds.1_Nonsense_Mutation_p.R483*|MAG_uc002nyz.1_Nonsense_Mutation_p.R508*	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	508	Ig-like C2-type 4.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GTCCTCAGATCGACTGATGTG	0.562													16	63					0	0	0.00499	0	0		T	35801452	T	T	35801452	4	4	128	1	0	0	0	0	0	1	0	0	9180	876	31	1	1548	1	MAG	19	35801452	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	250791	35801452	23327531	1002	71290											
FFAR1	2864	broad.mit.edu	37	chr19	35842942	35842942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctgggcatcaacacacCggtcaacggctctccggtct	7	8	9	17	3	4	0	2	0	2	0	6	0	5	0	3	4	2	2	3	4	2	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:35842942C>T	uc002nzc.2	+	1	498	c.488C>T	c.(487-489)CCG>CTG	p.P163L		NM_005303	NP_005294	O14842	FFAR1_HUMAN	free fatty acid receptor 1	163	Extracellular (Potential).				energy reserve metabolic process|regulation of insulin secretion	integral to plasma membrane	G-protein coupled receptor activity|guanyl-nucleotide exchange factor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;4.58e-20)|OV - Ovarian serous cystadenocarcinoma(14;6.67e-19)|all cancers(14;2.01e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)		Icosapent(DB00159)	ATCAACACACCGGTCAACGGC	0.657													20	76					0	0	0.008871	0	0		T	35842942	T	T	35842942	3	4	128	1	0	0	0	0	1	0	0	0	5841	652	23	1	490	1	FFAR1	19	35842942	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	41490	35842942	23286041	1003	71291											
MLL4	9757	broad.mit.edu	37	chr19	36229028	36229028	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgggggagatggtcatcgAgtactctggcattgtcatcc	7	10	14	10	3	3	1	2	0	1	1	5	3	4	1	1	4	1	2	1	4	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:36229028A>C	uc010eei.2	+	37	7808	c.7808A>C	c.(7807-7809)GAG>GCG	p.E2603A		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2603	SET.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			ATGGTCATCGAGTACTCTGGC	0.592													14	44					0	0	0.003163	0	0		C	36229028	C	C	36229028	3	2	128	1	0	0	0	0	1	0	0	0	9641	304	11	5	7950	5	MLL4	19	36229028	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	386086	36229028	22899955	1004	71292											
ARHGAP33	115703	broad.mit.edu	37	chr19	36279193	36279193	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggcagccccgccagcctaCggaagggggggcgagctcca	8	2	17	14	3	0	0	0	0	0	0	1	2	1	1	5	5	4	2	5	5	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:36279193C>T	uc002obs.1	+	21	3328	c.3243C>T	c.(3241-3243)TAC>TAT	p.Y1081Y	ARHGAP33_uc002obt.1_Silent_p.Y1078Y|ARHGAP33_uc010eel.2_Intron|ARHGAP33_uc002obv.1_Silent_p.Y830Y	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	1242					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						CGCCAGCCTACGGAAGGGGGG	0.687													6	25					0	0	0.006214	0	0		T	36279193	T	T	36279193	2	4	128	1	0	0	0	0	0	0	0	1	882	547	19	1		1	ARHGAP33	19	36279193	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	50165	36279193	22849790	1005	71293											
LRFN3	79414	broad.mit.edu	37	chr19	36430659	36430659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgacctgcgggccctgcgtgCcctgcacctggatggcaacc	5	6	13	17	3	0	0	0	0	0	0	0	2	0	1	5	3	5	2	5	3	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:36430659C>T	uc002oco.2	+	2	784	c.332C>T	c.(331-333)GCC>GTC	p.A111V		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	111	LRR 3.|Extracellular (Potential).				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GCCCTGCGTGCCCTGCACCTG	0.682													13	27					0	0	0.00499	0	0		T	36430659	T	T	36430659	3	4	128	1	0	0	0	0	1	0	0	0	8957	739	26	2	334	2	LRFN3	19	36430659	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	151466	36430659	22698324	1006	71294											
ZNF461	92283	broad.mit.edu	37	chr19	37130820	37130820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagttgccttcccagatagCgctgaaaattgatctctcag	11	11	8	11	1	2	3	1	2	1	1	4	3	3	3	2	0	2	2	2	0	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:37130820C>T	uc002oem.2	-	6	655	c.427G>A	c.(427-429)GCT>ACT	p.A143T	ZNF461_uc002oen.2_Missense_Mutation_p.A112T|ZNF461_uc010xtj.1_Missense_Mutation_p.A120T	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	143					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TCCCAGATAGCGCTGAAAATT	0.373													75	312					0	0	0.01441	0	0		T	37130820	T	T	37130820	3	4	128	1	0	0	0	0	1	0	0	0	17950	768	27	1	1268	1	ZNF461	19	37130820	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	700161	37130820	21998163	1007	71295											
ZNF793	390927	broad.mit.edu	37	chr19	38027882	38027882	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagccataagcaagaaaacaTtgcccaaggagaaaagctgt	18	5	9	9	0	0	2	0	0	0	2	0	3	0	2	2	1	5	2	2	1	7	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:38027882T>A	uc010efm.2	+	8	764	c.322T>A	c.(322-324)TTG>ATG	p.L108M	ZNF793_uc010xts.1_Missense_Mutation_p.L108M|ZNF793_uc010efo.2_Missense_Mutation_p.L108M	NM_001013659	NP_001013681	Q6ZN11	ZN793_HUMAN	zinc finger protein 793	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CAAGAAAACATTGCCCAAGGA	0.433													10	30					0	0	0.013537	0	0		A	38027882	A	A	38027882	3	1	128	1	0	0	0	0	1	0	0	0	18190	1490	52	5	336	5	ZNF793	19	38027882	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	897062	38027882	21101101	1008	71296											
SPINT2	10653	broad.mit.edu	37	chr19	38780920	38780920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcatgctccgctgcttcCgtaagtctgcagcccctcag	5	10	9	17	2	2	0	1	0	1	0	4	0	4	0	5	0	5	6	5	0	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:38780920C>T	uc002ohr.1	+	5	884	c.553C>T	c.(553-555)CGC>TGC	p.R185C	SPINT2_uc002ohs.1_Missense_Mutation_p.R128C	NM_021102	NP_066925	O43291	SPIT2_HUMAN	serine protease inhibitor, Kunitz type, 2	185	Extracellular (Potential).				cellular component movement	cytoplasm|extracellular region|integral to membrane|soluble fraction	serine-type endopeptidase inhibitor activity				0	all_cancers(60;6.83e-07)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CCGCTGCTTCCGTAAGTCTGC	0.567													12	31					0	0	0.010729	0	0		T	38780920	T	T	38780920	3	4	128	1	0	0	0	0	1	0	0	0	15094	666	23	1	571	1	SPINT2	19	38780920	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	753038	38780920	20348063	1009	71297											
RYR1	6261	broad.mit.edu	37	chr19	38980003	38980003	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgaggaaaaagaggaagagGaggcagcagaaggggagaaa	20	1	18	2	0	0	5	0	1	0	4	0	9	0	8	0	6	1	2	0	6	5	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:38980003G>T	uc002oit.2	+	35	5864	c.5734G>T	c.(5734-5736)GAG>TAG	p.E1912*	RYR1_uc002oiu.2_Nonsense_Mutation_p.E1912*	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1912	Glu-rich (acidic).|Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	agaggaagaggaggCAGCAGA	0.264													24	83					1.22574e-08	1.28071e-08	0.014323	1	0		T	38980003	T	T	38980003	4	4	128	1	0	0	0	0	0	1	0	0	13793	1175	41	5	5872	5	RYR1	19	38980003	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	199083	38980003	20148980	1010	71298											
RYR1	6261	broad.mit.edu	37	chr19	39019617	39019617	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggagcaggaggaggaggaGgaagaggtggaagagaagaa	16	1	23	1	0	0	3	0	0	0	3	0	11	0	10	0	9	1	1	0	9	4	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:39019617G>A	uc002oit.2	+	76	11191	c.11061G>A	c.(11059-11061)GAG>GAA	p.E3687E	RYR1_uc002oiu.2_Silent_p.E3682E|RYR1_uc002oiv.1_Silent_p.E602E|RYR1_uc010xuf.1_Silent_p.E607E	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3687					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	aggaggaggaggaagaggtgg	0.493													3	26					0	0	0.004672	0	0		A	39019617	A	A	39019617	2	1	128	1	0	0	0	0	0	0	0	1	13793	991	35	4		4	RYR1	19	39019617	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	39614	39019617	20109366	1011	71299											
HNRNPL	3191	broad.mit.edu	37	chr19	39329144	39329144	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctctggggtggagaaccGattgttccgggattcactga	7	11	14	9	2	2	2	1	1	1	1	3	5	3	3	2	4	2	2	2	4	1	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:39329144G>T	uc010xul.1	-	10	1461	c.1450C>A	c.(1450-1452)CGG>AGG	p.R484R	HNRNPL_uc010ege.1_Intron|HNRNPL_uc002ojj.1_Silent_p.R140R|HNRNPL_uc002ojo.1_Silent_p.R62R|HNRNPL_uc002ojk.2_Silent_p.R140R|HNRNPL_uc002ojl.2_Silent_p.R140R|HNRNPL_uc010xum.1_Silent_p.R351R	NM_001533	NP_001524	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	484					nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			GTGGAGAACCGATTGTTCCGG	0.572													9	44					0.000978159	0.000992357	0.010729	1	0		T	39329144	T	T	39329144	2	4	128	1	0	0	0	0	0	0	0	1	7286	1057	37	5		5	HNRNPL	19	39329144	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	309527	39329144	19799839	1012	71300											
LRFN1	57622	broad.mit.edu	37	chr19	39805733	39805733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgttggcgaagtctcggcGgcgcacggcggcgatgaagt	7	7	17	10	7	1	1	0	1	1	0	2	3	1	1	0	5	0	2	0	5	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:39805733G>A	uc002okw.2	-	1	244	c.244C>T	c.(244-246)CGC>TGC	p.R82C		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	82	LRR 1.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane				ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			AAGTCTCGGCGGCGCACGGCG	0.677													3	3					0	0	0.009096	0	0		A	39805733	A	A	39805733	3	1	128	1	0	0	0	0	1	0	0	0	8955	1116	39	1	2079	1	LRFN1	19	39805733	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	476589	39805733	19323250	1013	71301											
PLEKHG2	64857	broad.mit.edu	37	chr19	39914611	39914611	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaaggaggttcccggcaTgtccaggctccagccgccac	8	5	13	15	2	0	0	0	0	0	0	3	2	3	1	5	4	2	4	5	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:39914611T>C	uc010xuz.1	+	19	3163	c.2838T>C	c.(2836-2838)CAT>CAC	p.H946H	PLEKHG2_uc010xuy.1_Silent_p.H887H|PLEKHG2_uc002olj.2_Intron|PLEKHG2_uc010xva.1_Silent_p.H724H	NM_022835	NP_073746	Q9H7P9	PKHG2_HUMAN	common-site lymphoma/leukemia guanine nucleotide	946					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			skin(2)|pancreas(1)|breast(1)	4	all_cancers(60;3.08e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;6.57e-07)|Ovarian(47;0.0569)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GTTCCCGGCATGTCCAGGCTC	0.567													33	83					0	0	0.017118	0	0		C	39914611	C	C	39914611	2	2	128	1	0	0	0	0	0	0	0	1	12088	1461	51	3		3	PLEKHG2	19	39914611	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	108878	39914611	19214372	1014	71302											
SUPT5H	6829	broad.mit.edu	37	chr19	39961140	39961140	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agactgtgggtgtcatcgtgCgactagaacgggagaccttc	9	9	14	9	3	1	3	1	0	0	3	3	5	1	3	1	2	2	0	1	2	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:39961140C>T	uc002olo.3	+	18	1833	c.1654C>T	c.(1654-1656)CGA>TGA	p.R552*	SUPT5H_uc002olp.3_Nonsense_Mutation_p.R552*|SUPT5H_uc002olq.3_Nonsense_Mutation_p.R548*|SUPT5H_uc002oln.3_Nonsense_Mutation_p.R552*|SUPT5H_uc002olr.3_Nonsense_Mutation_p.R552*|SUPT5H_uc002ols.1_Nonsense_Mutation_p.R175*|SUPT5H_uc010egp.1_5'Flank	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	552					cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			TGTCATCGTGCGACTAGAACG	0.597													85	289					0	0	0.01441	0	0		T	39961140	T	T	39961140	4	4	128	1	0	0	0	0	0	1	0	0	15424	760	27	1	1720	1	SUPT5H	19	39961140	Nonsense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	46529	39961140	19167843	1015	71303											
DLL3	10683	broad.mit.edu	37	chr19	39995921	39995921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgggttctacgggctgcGgtgtgaggtgagcggggtga	4	9	22	6	4	1	3	0	3	1	0	1	3	1	3	0	6	3	2	0	6	1	2	rs141671275	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:39995921G>A	uc002olx.2	+	6	981	c.923G>A	c.(922-924)CGG>CAG	p.R308Q	DLL3_uc010egq.2_Missense_Mutation_p.R308Q|DLL3_uc002olw.2_Missense_Mutation_p.R308Q	NM_016941	NP_058637	Q9NYJ7	DLL3_HUMAN	delta-like 3 protein isoform 1 precursor	308	EGF-like 2.|Extracellular (Potential).				Notch signaling pathway|skeletal system development	integral to membrane	Notch binding			central_nervous_system(2)|breast(1)	3	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			TACGGGCTGCGGTGTGAGGTG	0.592													46	149					0	0	0.01441	0	0		A	39995921	A	A	39995921	3	1	128	1	0	0	0	0	1	0	0	0	4573	1116	39	1	945	1	DLL3	19	39995921	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	34781	39995921	19133062	1016	71304											
FCGBP	8857	broad.mit.edu	37	chr19	40384036	40384036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacttaacacgaaacccgCgtcgcactggcagccctcca	11	5	8	17	4	0	0	0	0	0	0	2	1	1	0	3	1	4	3	3	1	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:40384036C>T	uc002omp.3	-	21	9582	c.9574G>A	c.(9574-9576)GCG>ACG	p.A3192T		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	3192	TIL 7.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			ACGAAACCCGCGTCGCACTGG	0.667													6	74					0	0	0.01892	0	0		T	40384036	T	T	40384036	3	4	128	1	0	0	0	0	1	0	0	0	5792	768	27	1	6707	1	FCGBP	19	40384036	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	388115	40384036	18744947	1017	71305											
ZNF780A	284323	broad.mit.edu	37	chr19	40581529	40581529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttacattcatatggttttaCaccagaatgaatactctgat	13	15	5	8	0	2	3	1	2	1	1	2	3	2	3	1	1	3	1	1	1	6	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:40581529C>T	uc002omy.2	-	6	1045	c.820G>A	c.(820-822)GTA>ATA	p.V274I	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.V274I|ZNF780A_uc010xvh.1_Missense_Mutation_p.V275I	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	274					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TATGGTTTTACACCAGAATGA	0.388													6	390					0	0	0.001168	0	0		T	40581529	T	T	40581529	3	4	128	1	0	0	0	0	1	0	0	0	18177	478	17	4	1236	4	ZNF780A	19	40581529	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	197493	40581529	18547454	1018	71306											
MAP3K10	4294	broad.mit.edu	37	chr19	40710471	40710471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggccgtggcgtatggcGtggctatgaataagctgacg	7	10	15	9	4	0	2	0	2	0	0	0	2	0	2	2	4	1	3	2	4	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:40710471G>A	uc002ona.2	+	3	1231	c.943G>A	c.(943-945)GTG>ATG	p.V315M	MAP3K10_uc002onb.2_Translation_Start_Site	NM_002446	NP_002437	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase	315	Protein kinase.				activation of JUN kinase activity|induction of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of JNK cascade|protein autophosphorylation|smoothened signaling pathway	cytoplasm	ATP binding|bHLH transcription factor binding|JUN kinase kinase kinase activity|protein homodimerization activity|transcription corepressor activity			ovary(2)|lung(2)|skin(1)|pancreas(1)	6						GGCGTATGGCGTGGCTATGAA	0.682													10	89					0	0	0.016723	0	0		A	40710471	A	A	40710471	3	1	128	1	0	0	0	0	1	0	0	0	9262	1145	40	1	953	1	MAP3K10	19	40710471	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	128942	40710471	18418512	1019	71307											
HIPK4	147746	broad.mit.edu	37	chr19	40887032	40887032	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcactgtctcaatctggTccaacgacttgagcatatac	11	12	6	12	1	3	1	2	1	2	0	5	2	4	1	1	1	3	1	1	1	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:40887032T>C	uc002onp.2	-	3	1151	c.866A>G	c.(865-867)GAC>GGC	p.D289G		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	289	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			CTCAATCTGGTCCAACGACTT	0.632													6	84					0	0	0.001168	0	0		C	40887032	C	C	40887032	3	2	128	1	0	0	0	0	1	0	0	0	7135	1667	58	3	992	3	HIPK4	19	40887032	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	176561	40887032	18241951	1020	71308											
PRX	57716	broad.mit.edu	37	chr19	40901531	40901531	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttcctcaatttccacggCgggcagctgtggggtgacaa	7	9	12	13	2	1	1	1	1	0	0	3	1	3	1	3	4	1	2	3	4	2	2	rs145203783		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:40901531C>T	uc002onr.2	-	7	2997	c.2728G>A	c.(2728-2730)GCC>ACC	p.A910T	PRX_uc002onq.2_Missense_Mutation_p.A771T|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	910					axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			ATTTCCACGGCGGGCAGCTGT	0.587													31	102					0	0	0.010818	0	0		T	40901531	T	T	40901531	3	4	128	1	0	0	0	0	1	0	0	0	12664	768	27	1	1661	1	PRX	19	40901531	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	14499	40901531	18227452	1021	71309											
SHKBP1	92799	broad.mit.edu	37	chr19	41094670	41094670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgggcatggcggctgcagtGctggcaatgacattggtgcc	7	9	16	9	1	0	1	0	1	0	0	0	1	0	1	1	5	3	5	1	5	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:41094670G>A	uc002oob.2	+	14	1526	c.1477G>A	c.(1477-1479)GCT>ACT	p.A493T	SHKBP1_uc002ooc.2_Missense_Mutation_p.A468T|SHKBP1_uc002ood.2_Missense_Mutation_p.A493T|SHKBP1_uc010xvl.1_Missense_Mutation_p.A416T|SHKBP1_uc002ooe.2_Missense_Mutation_p.A330T|SHKBP1_uc002oof.2_Missense_Mutation_p.A330T|SHKBP1_uc010xvm.1_Missense_Mutation_p.A273T|SHKBP1_uc010xvn.1_Missense_Mutation_p.A371T	NM_138392	NP_612401	Q8TBC3	SHKB1_HUMAN	SH3KBP1 binding protein 1	493						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|pancreas(1)	2			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CGGCTGCAGTGCTGGCAATGA	0.627													18	46					0	0	0.006122	0	0		A	41094670	A	A	41094670	3	1	128	1	0	0	0	0	1	0	0	0	14309	1319	46	2	1531	2	SHKBP1	19	41094670	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	193139	41094670	18034313	1022	71310											
HNRNPUL1	11100	broad.mit.edu	37	chr19	41782099	41782099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttcaaggtggcccgagatCggagtagtggctatccgctc	8	9	13	11	3	1	1	1	0	0	1	4	3	2	2	2	4	0	3	2	4	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:41782099C>T	uc002oqb.3	+	5	971	c.682C>T	c.(682-684)CGG>TGG	p.R228W	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Missense_Mutation_p.R128W|HNRNPUL1_uc002oqa.3_Missense_Mutation_p.R128W|HNRNPUL1_uc010ehm.2_Missense_Mutation_p.R228W|HNRNPUL1_uc002oqc.3_Missense_Mutation_p.R185W|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Missense_Mutation_p.R128W|HNRNPUL1_uc010ehn.2_Missense_Mutation_p.R128W|HNRNPUL1_uc010eho.2_Missense_Mutation_p.R128W|HNRNPUL1_uc010xvy.1_Missense_Mutation_p.R128W|HNRNPUL1_uc010ehp.2_Missense_Mutation_p.R84W|HNRNPUL1_uc010ehl.1_Missense_Mutation_p.R128W	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	228	B30.2/SPRY.|Necessary for interaction with TP53.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						GGCCCGAGATCGGAGTAGTGG	0.463													41	166					0	0	0.01441	0	0		T	41782099	T	T	41782099	3	4	128	1	0	0	0	0	1	0	0	0	7290	875	31	1	700	1	HNRNPUL1	19	41782099	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	687429	41782099	17346884	1023	71311											
B3GNT8	374907	broad.mit.edu	37	chr19	41931674	41931674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctcggatgcaaaggccaGtgtagacgtcctcaaagggg	10	6	16	9	2	1	1	1	0	0	1	3	2	2	2	2	5	1	3	2	5	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:41931674G>A	uc002oqs.2	-	3	1464	c.1010C>T	c.(1009-1011)ACT>ATT	p.T337I	CYP2F1_uc010xvw.1_Intron|B3GNT8_uc002oqt.1_Intron	NM_198540	NP_940942	Q7Z7M8	B3GN8_HUMAN	UDP-GlcNAc:betaGal	337	Lumenal (Potential).				poly-N-acetyllactosamine biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity|protein N-acetylglucosaminyltransferase activity				0						GCAAAGGCCAGTGTAGACGTC	0.687													30	121					0	0	0.008361	0	0		A	41931674	A	A	41931674	3	1	128	1	0	0	0	0	1	0	0	0	1264	1029	36	4	187	4	B3GNT8	19	41931674	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	149575	41931674	17197309	1024	71312											
ATP1A3	478	broad.mit.edu	37	chr19	42486241	42486241	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccgggccatgcgcttggcGgtcagcgtcagacacacctg	6	8	13	14	4	2	1	2	0	0	1	3	1	3	1	3	3	2	1	3	3	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:42486241G>A	uc002osg.2	-	9	1165	c.1011C>T	c.(1009-1011)ACC>ACT	p.T337T	ATP1A3_uc010xwf.1_Silent_p.T348T|ATP1A3_uc010xwg.1_Silent_p.T307T|ATP1A3_uc010xwh.1_Silent_p.T350T|ATP1A3_uc002osh.2_Silent_p.T337T	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	337	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						TGCGCTTGGCGGTCAGCGTCA	0.493													56	176					0	0	0.01441	0	0		A	42486241	A	A	42486241	2	1	128	1	0	0	0	0	0	0	0	1	1131	1103	39	1		1	ATP1A3	19	42486241	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	554567	42486241	16642742	1025	71313											
CEACAM1	634	broad.mit.edu	37	chr19	43023168	43023168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagacctcacaccaatacGtcccagcatcctccctcttg	10	9	5	17	1	2	2	1	1	1	1	5	2	5	2	5	0	2	1	5	0	3	2	rs138618516	by1000genomes	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:43023168G>A	uc002otv.2	-	5	1291	c.1178C>T	c.(1177-1179)ACG>ATG	p.T393M	uc010eif.1_Intron|uc002ott.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron|CEACAM1_uc010eii.2_Intron|CEACAM1_uc002otw.2_Missense_Mutation_p.T393M|CEACAM1_uc010eij.2_Missense_Mutation_p.T393M|CEACAM1_uc002otx.2_Intron|CEACAM1_uc002oty.2_Intron|CEACAM1_uc002otz.2_Intron|CEACAM1_uc010eik.2_Intron|CEACAM1_uc002oua.2_Missense_Mutation_p.T393M|CEACAM1_uc002oub.2_Silent_p.D348D	NM_001712	NP_001703	P13688	CEAM1_HUMAN	carcinoembryonic antigen-related cell adhesion	393	Ig-like C2-type 3.|Extracellular (Potential).				angiogenesis|cell migration|homophilic cell adhesion|integrin-mediated signaling pathway	extracellular region|integral to plasma membrane|membrane fraction				ovary(1)|central_nervous_system(1)	2		Prostate(69;0.00682)		GBM - Glioblastoma multiforme(486;0.00148)	Arcitumomab(DB00113)	ACACCAATACGTCCCAGCATC	0.512													51	140					0	0	0.01441	0	0		A	43023168	A	A	43023168	3	1	128	1	0	0	0	0	1	0	0	0	3190	1145	40	1	519	1	CEACAM1	19	43023168	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	536927	43023168	16105815	1026	71314											
PSG3	5671	broad.mit.edu	37	chr19	43233450	43233450	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctggtgggttagagtcCgcgaagcaggacaagtagag	10	8	16	7	2	1	2	0	0	1	2	2	4	2	3	1	3	2	4	1	3	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:43233450C>T	uc002oue.2	-	5	1200	c.1068G>A	c.(1066-1068)GCG>GCA	p.A356A	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Silent_p.A356A|PSG3_uc010eil.2_Silent_p.A378A	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	356	Ig-like C2-type 3.			Missing (in Ref. 9).	defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				GGTTAGAGTCCGCGAAGCAGG	0.443													101	327					0	0	0.01441	0	0		T	43233450	T	T	43233450	2	4	128	1	0	0	0	0	0	0	0	1	12678	639	23	1		1	PSG3	19	43233450	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	210282	43233450	15895533	1027	71315											
IRGC	56269	broad.mit.edu	37	chr19	44223611	44223611	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatccactcactgcgtggcTaccaccgcagctttggtctg	6	11	9	15	2	3	0	2	0	1	0	4	0	4	0	3	2	3	3	3	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:44223611T>C	uc002oxh.2	+	2	1048	c.901T>C	c.(901-903)TAC>CAC	p.Y301H		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	301						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				ACTGCGTGGCTACCACCGCAG	0.667													4	84					0	0	0.009096	0	0		C	44223611	C	C	44223611	3	2	128	1	0	0	0	0	1	0	0	0	7854	1522	53	3	903	3	IRGC	19	44223611	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	990161	44223611	14905372	1028	71316											
SFRS16	11129	broad.mit.edu	37	chr19	45556099	45556099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgaccgattcgatgtccGtgcccacctggaccacatcc	8	9	9	15	3	0	1	0	1	0	0	3	5	2	2	6	1	1	0	6	1	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:45556099G>A	uc002pak.2	+	4	346	c.248G>A	c.(247-249)CGT>CAT	p.R83H	SFRS16_uc002pal.2_RNA|SFRS16_uc010xxh.1_Intron|SFRS16_uc002pam.2_Missense_Mutation_p.R83H|SFRS16_uc002pan.1_RNA	NM_007056	NP_008987	Q8N2M8	CLASR_HUMAN	splicing factor, arginine/serine-rich 16	83					mRNA processing|RNA splicing	nucleus					0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		TTCGATGTCCGTGCCCACCTG	0.607													32	99					0	0	0.012213	0	0		A	45556099	A	A	45556099	3	1	128	1	0	0	0	0	1	0	0	0	14197	1145	40	1	258	1	SFRS16	19	45556099	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1332488	45556099	13572884	1029	71317											
ERCC2	2068	broad.mit.edu	37	chr19	45867584	45867584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcatggagtcgatgcagaCgttgtctggagaagggggag	9	8	18	6	2	2	2	1	0	1	2	3	6	2	4	0	4	1	3	0	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:45867584C>T	uc002pbj.2	-	9	771	c.724G>A	c.(724-726)GTC>ATC	p.V242I	ERCC2_uc002pbi.2_5'Flank|ERCC2_uc010ejz.2_Missense_Mutation_p.V164I|ERCC2_uc002pbk.2_Missense_Mutation_p.V218I|ERCC2_uc002pbl.3_Missense_Mutation_p.V218I|ERCC2_uc010xxj.1_RNA	NM_000400	NP_000391	P18074	ERCC2_HUMAN	excision repair cross-complementing rodent	242	Helicase ATP-binding.				cell cycle checkpoint|chromosome segregation|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|UV protection|viral reproduction	cytoplasm|holo TFIIH complex|MMXD complex	5'-3' DNA helicase activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding|protein C-terminus binding|protein N-terminus binding			lung(2)|pancreas(1)	3		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		TCGATGCAGACGTTGTCTGGA	0.677			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				14	42					0	0	0.016723	0	0		T	45867584	T	T	45867584	3	4	128	1	0	0	0	0	1	0	0	0	5221	536	19	1	1675	1	ERCC2	19	45867584	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	311485	45867584	13261399	1030	71318											
FBXO46	23403	broad.mit.edu	37	chr19	46215641	46215641	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcactcatctaccacgccCgtcaccaccacgtccacgtg	9	7	6	19	4	3	0	2	0	1	0	4	0	4	0	5	0	2	1	5	0	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:46215641C>T	uc002pcy.2	-	2	1238	c.1113G>A	c.(1111-1113)ACG>ACA	p.T371T	FBXO46_uc002pcz.2_Silent_p.T371T	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	371							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		CTACCACGCCCGTCACCACCA	0.692													27	62					0	0	0.007291	0	0		T	46215641	T	T	46215641	2	4	128	1	0	0	0	0	0	0	0	1	5769	639	23	1		1	FBXO46	19	46215641	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	348057	46215641	12913342	1031	71319											
FBXO46	23403	broad.mit.edu	37	chr19	46215859	46215859	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgatcttgtccttggctcGggccccaggacctgggctgc	3	11	14	13	1	1	1	0	1	1	0	3	2	2	2	4	4	1	2	4	4	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:46215859G>T	uc002pcy.2	-	2	1020	c.895C>A	c.(895-897)CGA>AGA	p.R299R	FBXO46_uc002pcz.2_Silent_p.R299R	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	299							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		TCCTTGGCTCGGGCCCCAGGA	0.682													12	14					2.68362e-12	2.8488e-12	0.013537	1	0		T	46215859	T	T	46215859	2	4	128	1	0	0	0	0	0	0	0	1	5769	1124	39	5		5	FBXO46	19	46215859	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	218	46215859	12913124	1032	71320											
RSPH6A	81492	broad.mit.edu	37	chr19	46314009	46314009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggaaccactcccactgcGtggtgcggttcagagactcc	7	8	13	13	2	1	1	1	0	0	1	3	3	3	2	3	4	3	1	3	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:46314009G>A	uc002pdm.2	-	2	883	c.740C>T	c.(739-741)ACG>ATG	p.T247M	RSPH6A_uc002pdl.2_Translation_Start_Site	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	247						intracellular				ovary(1)|central_nervous_system(1)	2						CTCCCACTGCGTGGTGCGGTT	0.622													24	81					0	0	0.021523	0	0		A	46314009	A	A	46314009	3	1	128	1	0	0	0	0	1	0	0	0	13732	1145	40	1	1433	1	RSPH6A	19	46314009	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	98150	46314009	12814974	1033	71321											
CCDC8	83987	broad.mit.edu	37	chr19	46915101	46915101	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccccctggtcagctggggCccctgccctctgattacctg	3	10	11	17	0	2	1	1	1	1	0	2	1	2	1	6	3	4	1	6	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:46915101C>G	uc002pep.2	-	1	1819	c.967G>C	c.(967-969)GCC>CCC	p.A323P		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	323						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		TCAGCTGGGGCCCCTGCCCTC	0.627													68	239					0	0	0.01441	0	0		G	46915101	G	G	46915101	3	3	128	1	0	0	0	0	1	0	0	0	2856	739	26	5	653	5	CCDC8	19	46915101	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	601092	46915101	12213882	1034	71322											
PNMAL1	55228	broad.mit.edu	37	chr19	46973245	46973245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggcagacacccaggccaCggccttcttctttggtgggc	5	10	12	14	1	2	1	0	0	2	1	2	1	2	1	3	5	0	1	3	5	0	4	rs144904720	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:46973245C>T	uc002peq.3	-	2	1354	c.1048G>A	c.(1048-1050)GTG>ATG	p.V350M	PNMAL1_uc002per.3_Missense_Mutation_p.V350M	NM_018215	NP_060685	Q86V59	PNML1_HUMAN	PNMA-like 1 isoform a	350											0		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000166)|all cancers(93;0.0014)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		ACCCAGGCCACGGCCTTCTTC	0.597													137	422					0	0	0.01441	0	0		T	46973245	T	T	46973245	3	4	128	1	0	0	0	0	1	0	0	0	12176	536	19	1	301	1	PNMAL1	19	46973245	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	58144	46973245	12155738	1035	71323											
PNMAL2	57469	broad.mit.edu	37	chr19	46998617	46998617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcggctgcaggacggcttCgacgtctgcctgctccaggc	4	8	15	14	4	1	0	0	0	1	0	4	2	2	1	2	5	3	4	2	5	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:46998617C>T	uc002pes.2	-	1	553	c.106G>A	c.(106-108)GAA>AAA	p.E36K	uc002peu.1_3'UTR	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	36										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		aggacggcttcgacgtctgcc	0													24	55					0	0	0.00632	0	0		T	46998617	T	T	46998617	3	4	128	1	0	0	0	0	1	0	0	0	12177	893	31	1	1805	1	PNMAL2	19	46998617	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	25372	46998617	12130366	1036	71324											
GLTSCR1	29998	broad.mit.edu	37	chr19	48201924	48201924	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcacaaacaccagggctcCgtcctgcaccccgactacaa	11	6	7	17	2	0	0	0	0	0	0	2	1	2	0	5	1	4	3	5	1	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:48201924C>T	uc002phh.3	+	12	3476	c.3282C>T	c.(3280-3282)TCC>TCT	p.S1094S	GLTSCR1_uc002phi.3_Silent_p.S852S	NM_015711	NP_056526	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	1094							protein binding			pancreas(3)	3		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		ACCAGGGCTCCGTCCTGCACC	0.662											OREG0025594	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	63					0	0	0.010504	0	0		T	48201924	T	T	48201924	2	4	128	1	0	0	0	0	0	0	0	1	6489	639	23	1		1	GLTSCR1	19	48201924	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1203307	48201924	10927059	1037	71325											
PLEKHA4	57664	broad.mit.edu	37	chr19	49340665	49340665	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggtgggacctcctccacGcccactccctcggcgagaga	6	5	14	16	3	0	1	0	0	0	1	4	4	3	2	5	4	0	0	5	4	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:49340665G>A	uc002pkx.2	-	20	2772	c.2221C>T	c.(2221-2223)CGT>TGT	p.R741C	HSD17B14_uc002pkv.1_5'Flank|HSD17B14_uc010emk.1_5'Flank|PLEKHA4_uc002pkw.1_3'UTR|PLEKHA4_uc010eml.2_3'UTR	NM_020904	NP_065955	Q9H4M7	PKHA4_HUMAN	pleckstrin homology domain containing family A	741						cytoplasm|membrane	1-phosphatidylinositol binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;0.000108)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.00027)|all cancers(93;0.00084)|GBM - Glioblastoma multiforme(486;0.0244)|Epithelial(262;0.0364)		CCTCCTCCACGCCCACTCCCT	0.711													24	50					0	0	0.021523	0	0		A	49340665	A	A	49340665	3	1	128	1	0	0	0	0	1	0	0	0	12077	1087	38	1	122	1	PLEKHA4	19	49340665	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1138741	49340665	9788318	1038	71326											
NUCB1	4924	broad.mit.edu	37	chr19	49404120	49404120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctgctcctgcttcgcGccgtgctggctgtccccctg	0	12	12	17	3	0	0	0	0	0	0	3	0	2	0	4	1	5	6	4	1	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:49404120G>A	uc002plb.3	+	2	139	c.67G>A	c.(67-69)GCC>ACC	p.A23T	NUCB1_uc002pla.2_Missense_Mutation_p.A23T|NUCB1_uc002plc.2_Missense_Mutation_p.A23T|TULP2_uc002pkz.2_5'Flank	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	23						ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		cctgctTCGCGCCGTGCTGGC	0.582													25	48					0	0	0.00632	0	0		A	49404120	A	A	49404120	3	1	128	1	0	0	0	0	1	0	0	0	10737	1087	38	1	69	1	NUCB1	19	49404120	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	63455	49404120	9724863	1039	71327											
DHDH	27294	broad.mit.edu	37	chr19	49439393	49439393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcccacgggcgtgaacGcggcggaagttcgcgagatg	10	4	17	10	7	0	3	0	1	0	2	1	5	0	4	1	3	2	1	1	3	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:49439393G>A	uc002ple.1	+	3	347	c.307G>A	c.(307-309)GCG>ACG	p.A103T		NM_014475	NP_055290	Q9UQ10	DHDH_HUMAN	dimeric dihydrodiol dehydrogenase	103					carbohydrate metabolic process		binding|D-xylose 1-dehydrogenase (NADP+) activity|electron carrier activity|NAD(P)+ transhydrogenase activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000158)|all cancers(93;0.000258)|Epithelial(262;0.0173)|GBM - Glioblastoma multiforme(486;0.0179)		GGGCGTGAACGCGGCGGAAGT	0.647													3	19					0	0	0.004672	0	0		A	49439393	A	A	49439393	3	1	128	1	0	0	0	0	1	0	0	0	4485	1087	38	1	317	1	DHDH	19	49439393	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	35273	49439393	9689590	1040	71328											
NUP62	23636	broad.mit.edu	37	chr19	50412220	50412220	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggtggtgctgctgctgctgGtggtggtggcggtggcggtg	0	11	23	7	3	0	0	0	0	0	0	0	0	0	0	0	9	4	4	0	9	0	0	rs149572563	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:50412220G>C	uc002pqx.2	-	2	949	c.845C>G	c.(844-846)ACC>AGC	p.T282S	IL4I1_uc002pqv.1_Intron|IL4I1_uc010eno.1_Intron|IL4I1_uc002pqw.1_Intron|IL4I1_uc002pqu.1_Intron|NUP62_uc002pqy.2_Missense_Mutation_p.T282S|NUP62_uc002pqz.2_Missense_Mutation_p.T282S|NUP62_uc002pra.2_Missense_Mutation_p.T282S|NUP62_uc002prb.2_Missense_Mutation_p.T282S|NUP62_uc002prc.2_Intron	NM_153719	NP_714941	P37198	NUP62_HUMAN	nucleoporin 62kDa	282	15 X 9 AA approximate repeats.|Ala-rich.|Thr-rich.				carbohydrate metabolic process|cell death|cell surface receptor linked signaling pathway|glucose transport|hormone-mediated signaling pathway|mRNA transport|negative regulation of apoptosis|negative regulation of cell proliferation|nucleocytoplasmic transport|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|protein transport|regulation of glucose transport|transcription, DNA-dependent|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleocytoplasmic shuttling complex|ribonucleoprotein complex|spindle pole	chromatin binding|protein serine/threonine kinase activity|receptor signaling complex scaffold activity|SH2 domain binding|structural constituent of nuclear pore|thyroid hormone receptor binding|ubiquitin binding				0		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00242)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		gctgctgctggtggtggtggc	0.448													8	32					0	0	0.01892	0	0		C	50412220	C	C	50412220	3	2	128	1	0	0	0	0	1	0	0	0	10787	1261	44	5	727	5	NUP62	19	50412220	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	972827	50412220	8716763	1041	71329											
SIGLEC5	8778	broad.mit.edu	37	chr19	52115550	52115550	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctggtccttaggctccctCgacttcatctcagaaaaact	9	12	6	14	1	2	1	2	0	1	1	7	2	5	1	3	2	1	1	3	2	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:52115550C>T	uc002pxe.2	-	9	1729	c.1590G>A	c.(1588-1590)TCG>TCA	p.S530S		NM_003830	NP_003821	O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5 precursor	530	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding			skin(2)|breast(1)|central_nervous_system(1)	4		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		TAGGCTCCCTCGACTTCATCT	0.552													68	201					0	0	0.01441	0	0		T	52115550	T	T	52115550	2	4	128	1	0	0	0	0	0	0	0	1	14336	871	31	1		1	SIGLEC5	19	52115550	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1703330	52115550	7013433	1042	71330											
ZNF880	400713	broad.mit.edu	37	chr19	52888041	52888041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcatcatagaatgcacaCgggagagcaaccttacaaat	17	7	7	10	1	2	2	2	0	0	2	2	3	2	2	1	1	4	2	1	1	6	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:52888041C>T	uc002pzc.2	+	4	1257	c.1208C>T	c.(1207-1209)ACG>ATG	p.T403M		NM_001145434	NP_001138906	Q6PDB4	ZN880_HUMAN	zinc finger protein LOC400713	403					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						AGAATGCACACGGGAGAGCAA	0.408													12	19					0	0	0.020292	0	0		T	52888041	T	T	52888041	3	4	128	1	0	0	0	0	1	0	0	0	18222	536	19	1	1222	1	ZNF880	19	52888041	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	772491	52888041	6240942	1043	71331											
LILRB2	10288	broad.mit.edu	37	chr19	54783692	54783692	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagctcagaccaccgagcGcggctgtaatactgacagcc	10	6	11	14	3	1	3	1	2	0	1	1	4	1	3	3	1	4	3	3	1	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:54783692G>A	uc002qfb.2	-	4	575	c.309C>T	c.(307-309)CGC>CGT	p.R103R	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Silent_p.R103R|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Silent_p.R103R|LILRB2_uc010yet.1_5'UTR|LILRB2_uc010yeu.1_RNA	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	103	Extracellular (Potential).|Ig-like C2-type 1.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		ACCACCGAGCGCGGCTGTAAT	0.587													48	154					0	0	0.01441	0	0		A	54783692	A	A	54783692	2	1	128	1	0	0	0	0	0	0	0	1	8807	1074	38	1		1	LILRB2	19	54783692	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1895651	54783692	4345291	1044	71332											
LILRB4	11006	broad.mit.edu	37	chr19	55177749	55177749	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgagccagagcccaaggaCgggggcctacagaggaggta	11	2	17	11	2	0	2	0	0	0	2	0	5	0	4	4	5	3	1	4	5	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:55177749C>T	uc002qgp.2	+	8	1295	c.933C>T	c.(931-933)GAC>GAT	p.D311D	LILRB4_uc002qgq.2_Silent_p.D311D|LILRB4_uc002qgr.2_Silent_p.D352D|LILRB4_uc010ert.2_Silent_p.D352D|LILRB4_uc010eru.2_Silent_p.D340D	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	311	Cytoplasmic (Potential).					integral to membrane|plasma membrane	antigen binding|receptor activity			ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)		AGCCCAAGGACGGGGGCCTAC	0.602													10	64					0	0	0.008291	0	0		T	55177749	T	T	55177749	2	4	128	1	0	0	0	0	0	0	0	1	8809	535	19	1		1	LILRB4	19	55177749	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	394057	55177749	3951234	1045	71333											
KIR2DL1	3802	broad.mit.edu	37	chr19	55286823	55286823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgggccctgccacccacGgagggacctacagatgcttc	7	7	11	16	1	1	1	0	0	1	1	2	3	1	3	4	3	3	1	4	3	1	2	rs147043371	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:55286823G>A	uc002qhb.1	+	4	615	c.577G>A	c.(577-579)GGA>AGA	p.G193R	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_RNA|KIR3DP1_uc010yfi.1_Intron|KIR2DL1_uc010erz.1_Missense_Mutation_p.G193R	NM_014218	NP_055033	P43626	KI2L1_HUMAN	killer cell immunoglobulin-like receptor, two	193	Extracellular (Potential).|Ig-like C2-type 2.				immune response|natural killer cell inhibitory signaling pathway	integral to plasma membrane	protein binding|receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		TGCCACCCACGGAGGGACCTA	0.572													85	269					0	0	0.01441	0	0		A	55286823	A	A	55286823	3	1	128	1	0	0	0	0	1	0	0	0	8332	1117	39	1	591	1	KIR2DL1	19	55286823	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	109074	55286823	3842160	1046	71334											
ZNF579	163033	broad.mit.edu	37	chr19	56090051	56090051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctgagggggccgtggaCgcggcggtgctggcggaggt	4	5	23	9	5	0	1	0	1	0	0	0	3	0	3	1	9	1	2	1	9	0	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:56090051C>T	uc002qlh.2	-	2	1008	c.955G>A	c.(955-957)GTC>ATC	p.V319I		NM_152600	NP_689813	Q8NAF0	ZN579_HUMAN	zinc finger protein 579	319	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.106)		GGGCCGTGGACGCGGCGGTGC	0.746													4	18					0	0	0.001984	0	0		T	56090051	T	T	56090051	3	4	128	1	0	0	0	0	1	0	0	0	18036	536	19	1	737	1	ZNF579	19	56090051	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	803228	56090051	3038932	1047	71335											
FIZ1	84922	broad.mit.edu	37	chr19	56104559	56104559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgggccctgcaggtcgtGcgtcagcttgtgccgctcca	3	8	14	16	4	1	0	1	0	0	0	3	0	2	0	4	2	4	3	4	2	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:56104559G>A	uc002qli.3	-	3	838	c.748C>T	c.(748-750)CAC>TAC	p.H250Y	FIZ1_uc002qlj.3_Missense_Mutation_p.H250Y	NM_032836	NP_116225	Q96SL8	FIZ1_HUMAN	FLT3-interacting zinc finger 1	250	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein kinase binding|receptor binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		TGCAGGTCGTGCGTCAGCTTG	0.587													4	5					0	0	0.001168	0	0		A	56104559	A	A	56104559	3	1	128	1	0	0	0	0	1	0	0	0	5914	1319	46	2	746	2	FIZ1	19	56104559	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	14508	56104559	3024424	1048	71336											
ZNF580	51157	broad.mit.edu	37	chr19	56153990	56153992	+	In_Frame_Del	DEL	CTT	-	-																															ggaaggcccctcctccactcCttcctcggcggcggggcccc																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:56153990_56153992delCTT	uc002qlo.2	+	2	286_288	c.116_118delCTT	c.(115-120)CCTTCC>CCC	p.S41del	ZNF580_uc002qlm.2_In_Frame_Del_p.S54del|ZNF581_uc002qln.2_Intron|ZNF580_uc002qlp.2_In_Frame_Del_p.S41del|ZNF580_uc010ygd.1_In_Frame_Del_p.S41del|ZNF581_uc002qlq.2_5'Flank	NM_207115	NP_996998	Q9UK33	ZN580_HUMAN	zinc finger protein 580	41	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		TCCTCCACTCCTTCCTcggcggc	0.567													6	9	---	---	---	---						.	-	56153992	-	-	56153990	7	5	128	1	0	1	0	1	0	0	0	0	18037	681	24	0	118	0	ZNF580	19	56153990	In_Frame_Del	DEL	CTT	TCGA-CG-4306-01A-01D-1158-08	49431	56153990	2974993	1049	71337											
NLRP5	126206	broad.mit.edu	37	chr19	56538862	56538862	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagctcaagtcagaggtCgtgtctccccgttacctgtt	8	11	11	11	2	3	2	2	0	1	2	5	3	3	2	3	1	2	3	3	1	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:56538862C>A	uc002qmj.2	+	7	1263	c.1263C>A	c.(1261-1263)GTC>GTA	p.V421V	NLRP5_uc002qmi.2_Silent_p.V402V	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	421	NACHT.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		AGTCAGAGGTCGTGTCTCCCC	0.547													6	35					2.17888e-05	2.23613e-05	0.006214	1	0		A	56538862	A	A	56538862	2	1	128	1	0	0	0	0	0	0	0	1	10499	871	31	5		5	NLRP5	19	56538862	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	384872	56538862	2590121	1050	71338											
ZNF71	58491	broad.mit.edu	37	chr19	57133352	57133352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcctctctcacccagcacGagcggatccacacgggggag	8	6	11	16	3	2	0	1	0	1	0	5	3	4	2	3	3	2	1	3	3	0	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:57133352G>A	uc002qnm.3	+	3	935	c.697G>A	c.(697-699)GAG>AAG	p.E233K		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	233	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		CACCCAGCACGAGCGGATCCA	0.647													21	74					0	0	0.014323	0	0		A	57133352	A	A	57133352	3	1	128	1	0	0	0	0	1	0	0	0	18139	1059	37	1	699	1	ZNF71	19	57133352	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	594490	57133352	1995631	1051	71339											
USP29	57663	broad.mit.edu	37	chr19	57642249	57642249	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatggctgaacagctccagCagtgtattgaggagagcatc	12	8	13	8	0	0	3	0	2	0	1	2	5	1	3	1	2	4	5	1	2	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:57642249C>A	uc002qny.2	+	4	2562	c.2206C>A	c.(2206-2208)CAG>AAG	p.Q736K		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	736					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ACAGCTCCAGCAGTGTATTGA	0.458													41	100					1.62957e-23	1.77966e-23	0.00874	1	0		A	57642249	A	A	57642249	3	1	128	1	0	0	0	0	1	0	0	0	17085	711	25	5	2208	5	USP29	19	57642249	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	508897	57642249	1486734	1052	71340											
ZNF543	125919	broad.mit.edu	37	chr19	57839291	57839291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaaatgagttctgaacGtgatggtttggggtcagatg	11	11	16	3	1	2	5	1	3	1	2	2	6	2	5	0	4	1	2	0	4	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:57839291G>A	uc002qoi.1	+	4	806	c.461G>A	c.(460-462)CGT>CAT	p.R154H		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	154					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		AGTTCTGAACGTGATGGTTTG	0.453													25	98					0	0	0.004656	0	0		A	57839291	A	A	57839291	3	1	128	1	0	0	0	0	1	0	0	0	18001	1145	40	1	475	1	ZNF543	19	57839291	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	197042	57839291	1289692	1053	71341											
ZNF211	10520	broad.mit.edu	37	chr19	58153212	58153212	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacacaggggaaaggccttAtgtgtgtggggaatgtggga	10	8	17	6	0	0	0	0	0	0	0	0	3	0	3	2	6	0	0	2	6	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:58153212A>G	uc002qpq.2	+	3	1538	c.1358A>G	c.(1357-1359)TAT>TGT	p.Y453C	ZNF211_uc010yhb.1_Missense_Mutation_p.Y457C|ZNF211_uc002qpp.2_Missense_Mutation_p.Y466C|ZNF211_uc002qpr.2_Missense_Mutation_p.Y517C|ZNF211_uc002qps.2_Missense_Mutation_p.Y518C|ZNF211_uc002qpt.2_Missense_Mutation_p.Y465C|ZNF211_uc010yhc.1_Missense_Mutation_p.Y465C|ZNF211_uc010yhd.1_Missense_Mutation_p.Y392C|ZNF211_uc010yhe.1_Missense_Mutation_p.Y444C	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	453	C2H2-type 9.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GAAAGGCCTTATGTGTGTGGG	0.468													36	128					0	0	0.021022	0	0		G	58153212	G	G	58153212	3	3	128	1	0	0	0	0	1	0	0	0	17792	449	16	3	1411	3	ZNF211	19	58153212	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	313921	58153212	975771	1054	71342											
ZSCAN4	201516	broad.mit.edu	37	chr19	58189782	58189782	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaggtgtccctatggtgatgGgagcagggtgtatctctcaa	9	11	14	7	0	2	1	1	1	1	0	4	2	3	2	1	4	1	2	1	4	4	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:58189782G>T	uc002qpu.2	+	5	1508	c.811G>T	c.(811-813)GGA>TGA	p.G271*		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	271					telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TATGGTGATGGGAGCAGGGTG	0.493													32	104					8.4185e-14	8.98695e-14	0.012213	1	0		T	58189782	T	T	58189782	4	4	128	1	0	0	0	0	0	1	0	0	18262	1233	43	5	821	5	ZSCAN4	19	58189782	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	36570	58189782	939201	1055	71343											
C19orf18	147685	broad.mit.edu	37	chr19	58483842	58483842	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcttacctttattcctcAggaatttcatggggttcgta	7	17	9	8	1	2	0	2	0	0	0	4	1	3	1	2	4	1	3	2	4	4	8			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:58483842A>G	uc002qqv.2	-	3	361	c.257T>C	c.(256-258)CTG>CCG	p.L86P		NM_152474	NP_689687	Q8NEA5	CS018_HUMAN	hypothetical protein LOC147685 precursor	86	Extracellular (Potential).					integral to membrane				ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)		TTTATTCCTCAGGAATTTCAT	0.498													6	45					0	0	0.001984	0	0		G	58483842	G	G	58483842	3	3	128	1	0	0	0	0	1	0	0	0	1913	188	7	3	406	3	C19orf18	19	58483842	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	294060	58483842	645141	1056	71344											
SLC27A5	10998	broad.mit.edu	37	chr19	59011987	59011987	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccagatccgaataggaccGaagcgctgctggaaggtctc	10	7	12	12	3	1	1	0	0	1	1	4	5	3	3	3	3	2	2	3	3	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:59011987G>A	uc002qtc.2	-	5	1379	c.1269C>T	c.(1267-1269)TTC>TTT	p.F423F	SLC27A5_uc002qtb.2_5'Flank	NM_012254	NP_036386	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid	423	Cytoplasmic (Probable).				bile acid and bile salt transport|bile acid biosynthetic process|very long-chain fatty acid metabolic process	endoplasmic reticulum membrane|integral to membrane	ATP binding|cholate-CoA ligase activity|long-chain fatty acid-CoA ligase activity				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.181)		GAATAGGACCGAAGCGCTGCT	0.592													29	85					0	0	0.010818	0	0		A	59011987	A	A	59011987	2	1	128	1	0	0	0	0	0	0	0	1	14554	1049	37	1		1	SLC27A5	19	59011987	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	528145	59011987	116996	1057	71345											
SLC27A5	10998	broad.mit.edu	37	chr19	59022708	59022708	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcatcccccggccatgcggGttgatccaggctgttgggca	5	8	15	13	2	0	1	0	1	0	0	2	1	2	1	4	5	1	5	4	5	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr19:59022708G>T	uc002qtc.2	-	1	725	c.615C>A	c.(613-615)AAC>AAA	p.N205K		NM_012254	NP_036386	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid	205	Cytoplasmic (Probable).				bile acid and bile salt transport|bile acid biosynthetic process|very long-chain fatty acid metabolic process	endoplasmic reticulum membrane|integral to membrane	ATP binding|cholate-CoA ligase activity|long-chain fatty acid-CoA ligase activity				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.181)		GGCCATGCGGGTTGATCCAGG	0.677													4	18					0.00116845	0.0011836	0.001168	1	0		T	59022708	T	T	59022708	3	4	128	1	0	0	0	0	1	0	0	0	14554	1252	44	5	1497	5	SLC27A5	19	59022708	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	10721	59022708	106275	1058	71346											
RSPO4	343637	broad.mit.edu	37	chr20	947858	947858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggccaaagtgcccggcGggcaggtgggcagacacttc	7	5	18	11	2	0	1	0	0	0	1	1	1	0	1	2	6	1	2	2	6	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:947858G>A	uc002wej.2	-	3	465	c.368C>T	c.(367-369)CCG>CTG	p.P123L	RSPO4_uc002wek.2_Missense_Mutation_p.P123L	NM_001029871	NP_001025042	Q2I0M5	RSPO4_HUMAN	R-spondin family, member 4 isoform 1 precursor	123	FU.				Wnt receptor signaling pathway	extracellular region	heparin binding				0						AGTGCCCGGCGGGCAGGTGGG	0.647													20	64					0	0	0.014323	0	0		A	947858	A	A	947858	3	1	128	1	0	0	0	0	1	0	0	0	13737	1116	39	1	348	1	RSPO4	20	947858	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08		947858	62077662	1059	71347											
SDCBP2	27111	broad.mit.edu	37	chr20	1294021	1294021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcagcccggtcttgccgCgctcgtccttgcacaggtgg	3	9	13	16	4	2	0	1	0	1	0	4	0	3	0	4	3	3	2	4	3	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:1294021C>T	uc002wev.3	-	5	476	c.347G>A	c.(346-348)CGC>CAC	p.R116H	SDCBP2_uc002weu.3_Missense_Mutation_p.R31H|SDCBP2_uc010zpq.1_Missense_Mutation_p.R116H	NM_080489	NP_536737	Q9H190	SDCB2_HUMAN	syndecan binding protein 2 isoform a	116	PDZ 1.				intracellular signal transduction|intracellular transport|nervous system development	cytoplasm	protein C-terminus binding|protein heterodimerization activity|protein homodimerization activity			large_intestine(1)|skin(1)	2						GGTCTTGCCGCGCTCGTCCTT	0.711													7	21					0	0	0.001984	0	0		T	1294021	T	T	1294021	3	4	128	1	0	0	0	0	1	0	0	0	13981	768	27	1	551	1	SDCBP2	20	1294021	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	346163	1294021	61731499	1060	71348											
TMX4	56255	broad.mit.edu	37	chr20	7980484	7980484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agattcctgggccacgataaCggcggaatatcccatccttt	10	10	9	12	3	0	1	0	0	0	1	3	3	3	2	4	3	1	0	4	3	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:7980484C>T	uc002wmx.1	-	4	495	c.362G>A	c.(361-363)CGT>CAT	p.R121H		NM_021156	NP_066979	Q9H1E5	TMX4_HUMAN	thioredoxin-related transmembrane protein 4	121	Thioredoxin.				cell redox homeostasis|electron transport chain|transport	integral to membrane					0						GCCACGATAACGGCGGAATAT	0.383													26	66					0	0	0.004656	0	0		T	7980484	T	T	7980484	3	4	128	1	0	0	0	0	1	0	0	0	16294	536	19	1	707	1	TMX4	20	7980484	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	6686463	7980484	55045036	1061	71349											
PLCB1	23236	broad.mit.edu	37	chr20	8608995	8608995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatcgggcgcctggagcagCgcatgatcacagtggtgtat	9	8	14	10	3	1	1	1	1	0	0	2	2	1	2	1	3	2	3	1	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:8608995C>T	uc002wnb.2	+	4	304	c.301C>T	c.(301-303)CGC>TGC	p.R101C	PLCB1_uc010zrb.1_5'UTR|PLCB1_uc010gbv.1_Missense_Mutation_p.R101C|PLCB1_uc002wmz.1_Missense_Mutation_p.R101C|PLCB1_uc002wna.2_Missense_Mutation_p.R101C|PLCB1_uc002wnc.1_5'UTR	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	101					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						CCTGGAGCAGCGCATGATCAC	0.458													19	109					0	0	0.008871	0	0		T	8608995	T	T	8608995	3	4	128	1	0	0	0	0	1	0	0	0	12046	768	27	1	315	1	PLCB1	20	8608995	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	628511	8608995	54416525	1062	71350											
RRBP1	6238	broad.mit.edu	37	chr20	17610604	17610604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcactctccctgtgggaCgcctggggacgggcagggga	5	7	16	13	2	2	0	1	0	1	0	4	3	3	3	3	6	0	1	3	6	0	0	rs138539631	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:17610604C>T	uc010gcm.1	-	4	429	c.71G>A	c.(70-72)CGT>CAT	p.R24H	RRBP1_uc002wpu.2_Silent_p.A212A|RRBP1_uc002wpv.1_Silent_p.A438A|RRBP1_uc002wpw.1_Silent_p.A438A|RRBP1_uc010gcl.1_Silent_p.A212A			Q9P2E9	RRBP1_HUMAN	Homo sapiens mRNA for KIAA1398 protein, partial cds.	Error:Variant_position_missing_in_Q9P2E9_after_alignment					protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						CCCTGTGGGACGCCTGGGGAC	0.687													18	43					0	0	0.008871	0	0		T	17610604	T	T	17610604	3	4	128	1	0	0	0	0	1	0	0	0	13703	523	19	1	1687	1	RRBP1	20	17610604	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	9001609	17610604	45414916	1063	71351											
SEC23B	10483	broad.mit.edu	37	chr20	18511337	18511337	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacctagaggctacatggtaAtgggagattctttcaacact	12	12	9	8	0	2	2	1	0	1	2	2	3	2	2	1	3	3	2	1	3	5	6			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:18511337A>T	uc002wqz.1	+	10	1566	c.1123A>T	c.(1123-1125)ATG>TTG	p.M375L	SEC23B_uc002wra.1_Missense_Mutation_p.M375L|SEC23B_uc002wrb.1_Missense_Mutation_p.M375L|SEC23B_uc010zsb.1_Missense_Mutation_p.M357L|SEC23B_uc002wrc.1_Missense_Mutation_p.M375L	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	375					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						CTACATGGTAATGGGAGATTC	0.333													32	151					0	0	0.015359	0	0		T	18511337	T	T	18511337	3	4	128	1	0	0	0	0	1	0	0	0	14017	101	4	5	1157	5	SEC23B	20	18511337	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	900733	18511337	44514183	1064	71352											
PAX1	5075	broad.mit.edu	37	chr20	21687581	21687581	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcccgtgtcgcccacgggCgccaagatgggcagccaccc	7	4	13	17	4	0	1	0	0	0	1	2	1	1	1	5	2	1	1	5	2	1	0	rs140128849		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:21687581C>T	uc002wsj.2	+	2	846	c.792C>T	c.(790-792)GGC>GGT	p.G264G	PAX1_uc010zsl.1_Silent_p.G264G|PAX1_uc010zsm.1_Silent_p.G240G	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	264					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						CGCCCACGGGCGCCAAGATGG	0.692													16	63					0	0	0.006122	0	0		T	21687581	T	T	21687581	2	4	128	1	0	0	0	0	0	0	0	1	11497	755	27	1		1	PAX1	20	21687581	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3176244	21687581	41337939	1065	71353											
TPX2	22974	broad.mit.edu	37	chr20	30381814	30381814	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagaaaataaaagaacTgcagaaaggggaggtaggtg	19	4	16	2	0	0	4	0	0	0	4	0	6	0	5	0	5	2	2	0	5	8	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:30381814T>C	uc002wwp.1	+	14	2371	c.1673T>C	c.(1672-1674)CTG>CCG	p.L558P	TPX2_uc010gdv.1_Missense_Mutation_p.L594P	NM_012112	NP_036244	Q9ULW0	TPX2_HUMAN	TPX2, microtubule-associated protein homolog	558					activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2			Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)			ATAAAAGAACTGCAGAAAGGG	0.358													34	95					0	0	0.015359	0	0		C	30381814	C	C	30381814	3	2	128	1	0	0	0	0	1	0	0	0	16458	1580	55	3	1719	3	TPX2	20	30381814	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	8694233	30381814	32643706	1066	71354											
MAP1LC3A	84557	broad.mit.edu	37	chr20	33147545	33147545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgccggctgcaggcgccGcctgcagctgaaccccacgc	5	4	12	20	5	0	1	0	1	0	0	1	1	1	1	6	2	4	4	6	2	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:33147545G>A	uc002xaq.1	+	4	363	c.209G>A	c.(208-210)CGC>CAC	p.R70H	MAP1LC3A_uc002xap.1_Missense_Mutation_p.R74H	NM_032514	NP_115903	Q9H492	MLP3A_HUMAN	microtubule-associated protein 1 light chain 3	70					autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|cytosol|endomembrane system|microtubule	phosphatidylethanolamine binding|protein binding				0						TGCAGGCGCCGCCTGCAGCTG	0.627													37	83					0	0	0.011902	0	0		A	33147545	A	A	33147545	3	1	128	1	0	0	0	0	1	0	0	0	9248	1087	38	1	279	1	MAP1LC3A	20	33147545	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2765731	33147545	29877975	1067	71355											
MMP24	10893	broad.mit.edu	37	chr20	33862135	33862135	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaaccagaaactgagcgTggagccaggctacccgcgca	12	4	12	13	3	0	3	0	2	0	1	0	4	0	4	3	2	5	2	3	2	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:33862135T>C	uc002xbu.2	+	9	1664	c.1661T>C	c.(1660-1662)GTG>GCG	p.V554A	EDEM2_uc010zuv.1_Intron	NM_006690	NP_006681	Q9Y5R2	MMP24_HUMAN	matrix metalloproteinase 24 preproprotein	554	Extracellular (Potential).|Hemopexin-like 4.				proteolysis	integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00252)			AAACTGAGCGTGGAGCCAGGC	0.587													63	151					0	0	0.01441	0	0		C	33862135	C	C	33862135	3	2	128	1	0	0	0	0	1	0	0	0	9679	1696	59	3	1445	3	MMP24	20	33862135	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	714590	33862135	29163385	1068	71356											
GDF5	8200	broad.mit.edu	37	chr20	34022366	34022366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccgtccaggcctggcaCggagcgcacatccagcaagg	10	4	13	14	3	0	1	0	0	0	1	3	2	3	2	4	4	2	3	4	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:34022366C>T	uc002xck.1	-	2	1166	c.847G>A	c.(847-849)GTG>ATG	p.V283M	GDF5_uc010gfc.1_Missense_Mutation_p.V283M|uc002xcj.2_Silent_p.H259H|GDF5_uc010zvc.1_Missense_Mutation_p.V283M	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	283					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			AGGCCTGGCACGGAGCGCACA	0.687													7	27					0	0	0.004482	0	0		T	34022366	T	T	34022366	3	4	128	1	0	0	0	0	1	0	0	0	6331	536	19	1	662	1	GDF5	20	34022366	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	160231	34022366	29003154	1069	71357											
C20orf118	140711	broad.mit.edu	37	chr20	35507503	35507503	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtctggtcttctgcacGtcaagggacggtttcagcct	6	12	13	10	2	5	0	2	0	3	0	5	2	5	2	1	4	2	2	1	4	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:35507503G>A	uc002xgg.1	+	3	257	c.249G>A	c.(247-249)ACG>ACA	p.T83T		NM_080628	NP_542195	A0PJX2	CT118_HUMAN	hypothetical protein LOC140711	83	TLD.										0		Myeloproliferative disorder(115;0.00874)				TCTTCTGCACGTCAAGGGACG	0.632													32	89					0	0	0.012213	0	0		A	35507503	A	A	35507503	2	1	128	1	0	0	0	0	0	0	0	1	2087	1132	40	1		1	C20orf118	20	35507503	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1485137	35507503	27518017	1070	71358											
TGM2	7052	broad.mit.edu	37	chr20	36760853	36760853	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgatgaggttggactccgtAaggcagtcacggtatttctc	8	13	12	8	2	2	2	1	2	1	0	4	3	3	3	1	4	0	4	1	4	2	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:36760853A>G	uc002xhr.2	-	11	1765	c.1665T>C	c.(1663-1665)CTT>CTC	p.L555L	TGM2_uc002xhq.2_Silent_p.L156L|TGM2_uc010zvx.1_Silent_p.L474L|TGM2_uc010zvy.1_Silent_p.L495L|TGM2_uc002xhs.1_Silent_p.L531L	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	555					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)	TGGACTCCGTAAGGCAGTCAC	0.542													4	449					0	0	0.001984	0	0		G	36760853	G	G	36760853	2	3	128	1	0	0	0	0	0	0	0	1	15855	349	13	3		3	TGM2	20	36760853	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	1253350	36760853	26264667	1071	71359											
EMILIN3	90187	broad.mit.edu	37	chr20	39990546	39990546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctgctggagcagtgctgCgtggctggccacctggcgta	5	8	17	11	2	0	0	0	0	0	0	0	2	0	1	2	4	5	6	2	4	1	1	rs139544093		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:39990546C>T	uc002xjy.1	-	4	1887	c.1663G>A	c.(1663-1665)GCA>ACA	p.A555T		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	555						proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				AGCAGTGCTGCGTGGCTGGCC	0.657													4	117					0	0	0.001168	0	0		T	39990546	T	T	39990546	3	4	128	1	0	0	0	0	1	0	0	0	5103	768	27	1	641	1	EMILIN3	20	39990546	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	3229693	39990546	23034974	1072	71360											
PTPRT	11122	broad.mit.edu	37	chr20	41101154	41101154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccactgcagggtcagctgcCgggctctgatgtctacgatt	6	10	12	13	2	3	1	1	1	2	0	3	2	3	1	2	2	4	3	2	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:41101154C>T	uc002xkg.2	-	8	1386	c.1202G>A	c.(1201-1203)CGG>CAG	p.R401Q	PTPRT_uc010ggj.2_Missense_Mutation_p.R401Q	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	401	Extracellular (Potential).|Fibronectin type-III 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GGTCAGCTGCCGGGCTCTGAT	0.567													13	45					0	0	0.016522	0	0		T	41101154	T	T	41101154	3	4	128	1	0	0	0	0	1	0	0	0	12837	652	23	1	3280	1	PTPRT	20	41101154	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1110608	41101154	21924366	1073	71361											
SFRS6	6431	broad.mit.edu	37	chr20	42088725	42088725	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcggatgcccacaaggaacGaacaaatgagggtgtaattg	14	7	13	7	2	0	1	0	1	0	0	0	4	0	3	1	3	4	1	1	3	5	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:42088725G>A	uc010zwg.1	+	4	604	c.434G>A	c.(433-435)CGA>CAA	p.R145Q	SFRS6_uc002xki.2_Missense_Mutation_p.R16Q|SFRS6_uc002xkk.2_Missense_Mutation_p.R145Q	NM_006275	NP_006266	Q13247	SRSF6_HUMAN	arginine/serine-rich splicing factor 6	145	RRM 2.		R -> Q (in a colorectal cancer sample; somatic mutation).		mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding	p.R145Q(1)			0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			CACAAGGAACGAACAAATGAG	0.413													23	116					0	0	0.016522	0	0		A	42088725	A	A	42088725	3	1	128	1	0	0	0	0	1	0	0	0	14206	1058	37	1	448	1	SFRS6	20	42088725	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	987571	42088725	20936795	1074	71362											
HNF4A	3172	broad.mit.edu	37	chr20	43058237	43058237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagctcctgccgggagccGtcgccacaatcgtcaagccc	9	6	10	16	4	1	0	1	0	0	0	4	1	2	1	5	1	4	1	5	1	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:43058237G>A	uc002xma.2	+	10	1446	c.1357G>A	c.(1357-1359)GTC>ATC	p.V453I	HNF4A_uc002xlu.2_Missense_Mutation_p.V421I|HNF4A_uc002xlv.2_Missense_Mutation_p.V431I|HNF4A_uc002xlz.2_Missense_Mutation_p.V443I|HNF4A_uc010ggq.2_Missense_Mutation_p.V446I	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	453			V -> I.		blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			GCCGGGAGCCGTCGCCACAAT	0.637													55	142					0	0	0.01441	0	0		A	43058237	A	A	43058237	3	1	128	1	0	0	0	0	1	0	0	0	7269	1145	40	1	1573	1	HNF4A	20	43058237	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	969512	43058237	19967283	1075	71363											
ZMYND8	23613	broad.mit.edu	37	chr20	45867695	45867695	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtctccttcggtaaaagCggcctctgctttttcactgg	6	13	10	12	2	3	0	1	0	2	0	5	0	3	0	2	3	2	3	2	3	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:45867695C>T	uc002xta.1	-	15	2666	c.2412G>A	c.(2410-2412)CCG>CCA	p.P804P	ZMYND8_uc010ghq.1_Silent_p.P481P|ZMYND8_uc010ghr.1_Silent_p.P779P|ZMYND8_uc002xst.1_Silent_p.P732P|ZMYND8_uc002xsu.1_Intron|ZMYND8_uc002xsv.1_Silent_p.P732P|ZMYND8_uc002xsw.1_Silent_p.P556P|ZMYND8_uc002xsx.1_Silent_p.P556P|ZMYND8_uc002xsy.1_Silent_p.P779P|ZMYND8_uc002xsz.1_Silent_p.P741P|ZMYND8_uc010zxy.1_Silent_p.P831P|ZMYND8_uc002xtb.1_Silent_p.P824P|ZMYND8_uc002xss.2_Silent_p.P804P|ZMYND8_uc010zxz.1_Intron|ZMYND8_uc002xtc.1_Silent_p.P824P|ZMYND8_uc002xtd.1_Silent_p.P799P|ZMYND8_uc002xte.1_Silent_p.P804P|ZMYND8_uc010zya.1_Silent_p.P804P|ZMYND8_uc002xtf.1_Silent_p.P824P|ZMYND8_uc002xtg.2_Silent_p.P798P|ZMYND8_uc010ghs.1_Silent_p.P798P|ZMYND8_uc002xsr.1_5'UTR	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	804							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			TCGGTAAAAGCGGCCTCTGCT	0.627													41	151					0	0	0.01441	0	0		T	45867695	T	T	45867695	2	4	128	1	0	0	0	0	0	0	0	1	17736	755	27	1		1	ZMYND8	20	45867695	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2809458	45867695	17157825	1076	71364											
PREX1	57580	broad.mit.edu	37	chr20	47270000	47270000	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgaccttcagaatgcactGaccagcacagagccctgcag	12	7	9	13	0	1	4	1	2	0	2	1	4	1	4	3	0	4	3	3	0	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:47270000G>A	uc002xtw.1	-	20	2268	c.2245C>T	c.(2245-2247)CAG>TAG	p.Q749*	PREX1_uc002xtv.1_Nonsense_Mutation_p.Q46*	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	749					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			AGAATGCACTGACCAGCACAG	0.597													39	149					0	0	0.01441	0	0		A	47270000	A	A	47270000	4	1	128	1	0	0	0	0	0	1	0	0	12498	1299	45	4	2818	4	PREX1	20	47270000	Nonsense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1402305	47270000	15755520	1077	71365											
STAU1	6780	broad.mit.edu	37	chr20	47739654	47739654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacaaactccctgcggcgcGggaggcctcgctctgtgagg	6	7	14	14	4	2	1	1	1	1	0	4	2	3	2	2	4	2	1	2	4	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:47739654G>A	uc002xud.2	-	8	1352	c.941C>T	c.(940-942)CCG>CTG	p.P314L	STAU1_uc002xua.2_Missense_Mutation_p.P233L|STAU1_uc002xub.2_Missense_Mutation_p.P239L|STAU1_uc002xuc.2_Missense_Mutation_p.P233L|STAU1_uc002xue.2_Missense_Mutation_p.P233L|STAU1_uc002xuf.2_Missense_Mutation_p.P239L|STAU1_uc002xug.2_Missense_Mutation_p.P314L	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	314	DRBM 3.					microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			CCTGCGGCGCGGGAGGCCTCG	0.617													14	55					0	0	0.006122	0	0		A	47739654	A	A	47739654	3	1	128	1	0	0	0	0	1	0	0	0	15297	1116	39	1	820	1	STAU1	20	47739654	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	469654	47739654	15285866	1078	71366											
KCNB1	3745	broad.mit.edu	37	chr20	47990503	47990503	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggccatcttattgtacaTgtcttccaactgctgaacgt	8	15	7	11	1	2	1	0	1	2	0	3	1	3	1	2	1	4	2	2	1	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:47990503T>C	uc002xur.1	-	2	1758	c.1594A>G	c.(1594-1596)ATG>GTG	p.M532V	KCNB1_uc002xus.1_Missense_Mutation_p.M532V	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	532	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TTATTGTACATGTCTTCCAAC	0.468													93	290					0	0	0.01441	0	0		C	47990503	C	C	47990503	3	2	128	1	0	0	0	0	1	0	0	0	8028	1464	51	3	986	3	KCNB1	20	47990503	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	250849	47990503	15035017	1079	71367											
ATP9A	10079	broad.mit.edu	37	chr20	50244187	50244187	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagacttctttgccaccacGagcacccgcagcccttctcg	8	8	8	17	3	2	1	0	0	2	1	3	3	2	1	4	0	3	2	4	0	0	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:50244187G>A	uc002xwg.1	-	17	1797	c.1797C>T	c.(1795-1797)CTC>CTT	p.L599L	ATP9A_uc010gih.1_Silent_p.L463L|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	599	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						TTGCCACCACGAGCACCCGCA	0.433													122	397					0	0	0.01441	0	0		A	50244187	A	A	50244187	2	1	128	1	0	0	0	0	0	0	0	1	1199	1045	37	1		1	ATP9A	20	50244187	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2253684	50244187	12781333	1080	71368											
DOK5	55816	broad.mit.edu	37	chr20	53226972	53226972	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatctttcagacccgagaCggggaggccatctatcagaa	11	10	10	10	2	4	3	2	0	2	3	4	5	4	4	2	3	0	0	2	3	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:53226972C>T	uc002xwy.2	+	6	865	c.645C>T	c.(643-645)GAC>GAT	p.D215D	DOK5_uc010gin.2_Silent_p.D107D|DOK5_uc002xwz.2_Silent_p.D77D	NM_018431	NP_060901	Q9P104	DOK5_HUMAN	docking protein 5	215	IRS-type PTB.						insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)			AGACCCGAGACGGGGAGGCCA	0.493													23	78					0	0	0.016522	0	0		T	53226972	T	T	53226972	2	4	128	1	0	0	0	0	0	0	0	1	4706	535	19	1		1	DOK5	20	53226972	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2982785	53226972	9798548	1081	71369											
CASS4	57091	broad.mit.edu	37	chr20	55012542	55012542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcagatgaggagttgggCggaggggccccagcccccta	8	5	17	11	1	0	3	0	2	0	1	0	5	0	5	4	5	2	2	4	5	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:55012542C>T	uc002xxp.2	+	3	584	c.359C>T	c.(358-360)GCG>GTG	p.A120V	CASS4_uc002xxq.3_Missense_Mutation_p.A120V|CASS4_uc002xxr.2_Missense_Mutation_p.A120V|CASS4_uc010zze.1_Intron|CASS4_uc010gio.2_Missense_Mutation_p.A120V	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	120					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						AGGAGTTGGGCGGAGGGGCCC	0.587													49	210					0	0	0.01441	0	0		T	55012542	T	T	55012542	3	4	128	1	0	0	0	0	1	0	0	0	2686	768	27	1	365	1	CASS4	20	55012542	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1785570	55012542	8012978	1082	71370											
CTCFL	140690	broad.mit.edu	37	chr20	56094287	56094287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggtgttaacatggttccGcagcagagtgaccgtacgga	9	9	15	8	3	0	2	0	1	0	1	1	3	1	3	2	3	3	5	2	3	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:56094287G>A	uc010gix.1	-	3	1563	c.901C>T	c.(901-903)CGG>TGG	p.R301W	CTCFL_uc010giw.1_Missense_Mutation_p.R301W|CTCFL_uc002xym.2_Missense_Mutation_p.R301W|CTCFL_uc010giz.1_5'UTR|CTCFL_uc010giy.1_5'UTR|CTCFL_uc010gja.1_Missense_Mutation_p.R301W|CTCFL_uc010gjb.1_Missense_Mutation_p.R301W|CTCFL_uc010gjc.1_Missense_Mutation_p.R301W|CTCFL_uc010gjd.1_Missense_Mutation_p.R301W|CTCFL_uc010gje.2_Missense_Mutation_p.R301W|CTCFL_uc010gjf.2_Missense_Mutation_p.R96W|CTCFL_uc010gjg.2_Missense_Mutation_p.R33W|CTCFL_uc010gjh.1_Missense_Mutation_p.R301W|CTCFL_uc010gji.1_Missense_Mutation_p.R96W|CTCFL_uc010gjj.1_Missense_Mutation_p.R301W|CTCFL_uc010gjk.1_Missense_Mutation_p.R301W|CTCFL_uc010gjl.1_Missense_Mutation_p.R301W	NM_080618	NP_542185	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor-like protein	301	C2H2-type 2.				cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			ACATGGTTCCGCAGCAGAGTG	0.453													45	127					0	0	0.013114	0	0		A	56094287	A	A	56094287	3	1	128	1	0	0	0	0	1	0	0	0	4004	1086	38	1	1122	1	CTCFL	20	56094287	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1081745	56094287	6931233	1083	71371											
LSM14B	149986	broad.mit.edu	37	chr20	60701385	60701385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgggttctgcctccgcctCgcccttccagccgcacgtgc	2	9	10	20	4	1	0	0	0	1	0	4	0	3	0	7	1	3	2	7	1	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:60701385C>T	uc010gjy.1	+	3	523	c.317C>T	c.(316-318)TCG>TTG	p.S106L	LSM14B_uc002ybt.2_Missense_Mutation_p.S106L|LSM14B_uc010gjx.1_Missense_Mutation_p.S132L|LSM14B_uc002ybv.2_Missense_Mutation_p.S106L|LSM14B_uc010gjz.1_5'UTR|LSM14B_uc010zzz.1_5'UTR	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	106					multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			GCCTCCGCCTCGCCCTTCCAG	0.662													10	40					0	0	0.006214	0	0		T	60701385	T	T	60701385	3	4	128	1	0	0	0	0	1	0	0	0	9073	893	31	1	327	1	LSM14B	20	60701385	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4607098	60701385	2324135	1084	71372											
LAMA5	3911	broad.mit.edu	37	chr20	60908501	60908501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgcagctgcaggagcgccgCctcgtagtatgcgctaggca	7	6	14	14	5	0	0	0	0	0	0	1	1	0	1	3	2	4	7	3	2	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:60908501C>T	uc002ycq.2	-	25	3125	c.3058G>A	c.(3058-3060)GCG>ACG	p.A1020T		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	1020	Domain IV 1 (domain IV B).				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGGAGCGCCGCCTCGTAGTAT	0.687													13	32					0	0	0.004007	0	0		T	60908501	T	T	60908501	3	4	128	1	0	0	0	0	1	0	0	0	8625	739	26	2	8253	2	LAMA5	20	60908501	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	207116	60908501	2117019	1085	71373											
RTEL1	51750	broad.mit.edu	37	chr20	62321132	62321132	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcaggagtggtaccggcaGcaggcgtccagggctgtgaa	8	5	19	9	2	0	1	0	1	0	0	1	2	1	2	2	6	2	5	2	6	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:62321132G>A	uc002yfu.1	+	24	2398	c.2055G>A	c.(2053-2055)CAG>CAA	p.Q685Q	RTEL1_uc011abc.1_RNA|RTEL1_uc002yft.1_Silent_p.Q685Q|RTEL1_uc011abd.1_Silent_p.Q709Q|RTEL1_uc011abe.1_Silent_p.Q462Q|RTEL1_uc002yfw.2_RNA|RTEL1_uc002yfx.1_5'UTR	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1	685					DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)			GGTACCGGCAGCAGGCGTCCA	0.697													19	29					0	0	0.010504	0	0		A	62321132	A	A	62321132	2	1	128	1	0	0	0	0	0	0	0	1	13745	962	34	2		2	RTEL1	20	62321132	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1412631	62321132	704388	1086	71374											
TPD52L2	7165	broad.mit.edu	37	chr20	62520579	62520579	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcgtttgaggaccgagtTgggaccataaaggtaattgt	12	11	13	5	2	0	1	0	1	0	0	1	4	0	3	2	3	0	3	2	3	4	5			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:62520579T>C	uc002yhc.2	+	6	642	c.513T>C	c.(511-513)GTT>GTC	p.V171V	TPD52L2_uc002ygy.2_Silent_p.V194V|TPD52L2_uc002ygz.2_Silent_p.V185V|TPD52L2_uc002yha.2_Silent_p.V174V|TPD52L2_uc002yhb.2_Silent_p.V165V|TPD52L2_uc002yhd.2_Silent_p.V151V|TPD52L2_uc011abk.1_Silent_p.V122V|TPD52L2_uc011abl.1_Silent_p.V128V|TPD52L2_uc002yhe.2_Silent_p.V70V	NM_003288	NP_003279	O43399	TPD54_HUMAN	tumor protein D52-like 2 isoform e	171					regulation of cell proliferation	perinuclear region of cytoplasm	protein binding|protein homodimerization activity			ovary(1)|skin(1)	2	all_cancers(38;1.3e-12)|all_epithelial(29;2.23e-14)|Lung NSC(23;5.92e-10)|all_lung(23;2.08e-09)					AGGACCGAGTTGGGACCATAA	0.438													8	27					0	0	0.004482	0	0		C	62520579	C	C	62520579	2	2	128	1	0	0	0	0	0	0	0	1	16425	1799	63	3		3	TPD52L2	20	62520579	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	199447	62520579	504941	1087	71375											
NPBWR2	2832	broad.mit.edu	37	chr20	62737475	62737475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgcacggcccgcagcctgCgcaggaggtctgtgtagagc	6	5	16	14	4	1	1	0	0	1	1	1	2	1	2	3	3	3	4	3	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:62737475C>T	uc011abt.1	-	1	710	c.710G>A	c.(709-711)CGC>CAC	p.R237H		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	237	Cytoplasmic (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					CCGCAGCCTGCGCAGGAGGTC	0.667													9	33					0	0	0.006214	0	0		T	62737475	T	T	62737475	3	4	128	1	0	0	0	0	1	0	0	0	10588	768	27	1	294	1	NPBWR2	20	62737475	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	216896	62737475	288045	1088	71376											
MYT1	4661	broad.mit.edu	37	chr20	62836917	62836917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcccagtttacagagctGccccctggccaagaagagga	10	6	10	15	0	0	3	0	0	0	3	1	4	1	4	5	2	3	2	5	2	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr20:62836917G>A	uc002yii.2	+	6	525	c.161G>A	c.(160-162)TGC>TAC	p.C54Y	MYT1_uc002yih.2_Missense_Mutation_p.C54Y|MYT1_uc002yij.2_5'Flank	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	54	C2HC-type 1.				cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					TTACAGAGCTGCCCCCTGGCC	0.642													37	115					0	0	0.00874	0	0		A	62836917	A	A	62836917	3	1	128	1	0	0	0	0	1	0	0	0	10124	1319	46	2	175	2	MYT1	20	62836917	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	99442	62836917	188603	1089	71377											
BACH1	571	broad.mit.edu	37	chr21	30698948	30698948	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatgcctgggaggagtccCggagtgtagagatttgcagg	9	9	17	6	1	0	2	0	1	0	1	1	6	1	5	2	4	2	2	2	4	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr21:30698948C>T	uc002ynj.2	+	3	918	c.803C>T	c.(802-804)CCG>CTG	p.P268L	BACH1_uc002ynk.2_Missense_Mutation_p.P268L|BACH1_uc002ynl.2_RNA	NM_001186	NP_001177	O14867	BACH1_HUMAN	BTB and CNC homology 1 transcription factor	268						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|liver(1)	2						GGAGGAGTCCCGGAGTGTAGA	0.443													24	98					0	0	0.014323	0	0		T	30698948	T	T	30698948	3	4	128	1	0	0	0	0	1	0	0	0	1284	652	23	1	809	1	BACH1	21	30698948	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08		30698948	17430947	1090	71378											
HUNK	30811	broad.mit.edu	37	chr21	33246192	33246192	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcatcggcagcaggaagctgGgcgagggctcctttgccaag	8	7	15	11	2	1	0	1	0	0	0	3	2	2	1	2	4	3	4	2	4	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr21:33246192G>T	uc002yph.2	+	1	565	c.205G>T	c.(205-207)GGC>TGC	p.G69C		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	69	ATP (By similarity).|Protein kinase.				multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						CAGGAAGCTGGGCGAGGGCTC	0.711													3	16					0.00909568	0.00917862	0.009096	1	0		T	33246192	T	T	33246192	3	4	128	1	0	0	0	0	1	0	0	0	7474	1232	43	5	207	5	HUNK	21	33246192	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2547244	33246192	14883703	1091	71379											
PCP4	5121	broad.mit.edu	37	chr21	41270416	41270416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttagcgacaaggtgctgggGcaaccaatggaaaagacaag	15	6	13	7	1	0	1	0	0	0	1	0	3	0	2	1	4	3	2	1	4	7	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr21:41270416G>A	uc002yyp.2	+	2	106	c.25G>A	c.(25-27)GCA>ACA	p.A9T		NM_006198	NP_006189	P48539	PCP4_HUMAN	Purkinje cell protein 4	9				A -> P (in Ref. 1; CAA63724).	central nervous system development	cytosol|nucleus				large_intestine(1)	1		Prostate(19;2.65e-06)|all_epithelial(19;0.138)				AGGTGCTGGGGCAACCAATGG	0.393													29	63					0	0	0.010818	0	0		A	41270416	A	A	41270416	3	1	128	1	0	0	0	0	1	0	0	0	11617	1203	42	2	31	2	PCP4	21	41270416	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	8024224	41270416	6859479	1092	71380											
DSCAM	1826	broad.mit.edu	37	chr21	41516548	41516548	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtaaacctcactgtccccGctggtgtcgacactgataat	9	11	9	12	2	1	1	1	1	0	0	3	2	2	1	3	1	1	2	3	1	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr21:41516548G>A	uc002yyq.1	-	17	3581	c.3129C>T	c.(3127-3129)AGC>AGT	p.S1043S	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1043	Fibronectin type-III 2.|Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CACTGTCCCCGCTGGTGTCGA	0.522													42	139					0	0	0.009718	0	0		A	41516548	A	A	41516548	2	1	128	1	0	0	0	0	0	0	0	1	4774	1078	38	1		1	DSCAM	21	41516548	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	246132	41516548	6613347	1093	71381											
FAM3B	54097	broad.mit.edu	37	chr21	42718974	42718974	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacaaagtttattcagagTgctgctccaaaatccctgct	12	12	7	10	0	1	2	1	1	0	1	3	2	3	2	2	0	3	4	2	0	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr21:42718974T>C	uc002yzb.1	+	6	578	c.432T>C	c.(430-432)AGT>AGC	p.S144S	FAM3B_uc002yza.2_RNA|FAM3B_uc002yzc.1_Silent_p.S96S|FAM3B_uc002yzd.1_Silent_p.S167S	NM_058186	NP_478066	P58499	FAM3B_HUMAN	family with sequence similarity 3, member B	144					apoptosis|insulin secretion	extracellular space	cytokine activity				0		Prostate(19;1.57e-07)|all_epithelial(19;0.0404)				TTATTCAGAGTGCTGCTCCAA	0.517													48	184					0	0	0.01441	0	0		C	42718974	C	C	42718974	2	2	128	1	0	0	0	0	0	0	0	1	5571	1693	59	3		3	FAM3B	21	42718974	Silent	SNP	T	TCGA-CG-4306-01A-01D-1158-08	1202426	42718974	5410921	1094	71382											
PDE9A	5152	broad.mit.edu	37	chr21	44182210	44182210	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtaccagatcaatgcccGcacagagctggcggtccgct	9	6	12	14	3	1	2	1	0	0	2	2	2	2	2	3	3	3	4	3	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr21:44182210G>A	uc002zbm.2	+	14	1166	c.1103G>A	c.(1102-1104)CGC>CAC	p.R368H	PDE9A_uc002zbn.2_Missense_Mutation_p.R241H|PDE9A_uc002zbo.2_Missense_Mutation_p.R315H|PDE9A_uc002zbp.2_Missense_Mutation_p.R161H|PDE9A_uc002zbq.2_Missense_Mutation_p.R266H|PDE9A_uc002zbs.2_Missense_Mutation_p.R161H|PDE9A_uc002zbr.2_Missense_Mutation_p.R161H|PDE9A_uc002zbt.2_Missense_Mutation_p.R240H|PDE9A_uc002zbu.2_Missense_Mutation_p.R234H|PDE9A_uc002zbv.2_Missense_Mutation_p.R208H|PDE9A_uc002zbw.2_Missense_Mutation_p.R151H|PDE9A_uc002zbx.2_Missense_Mutation_p.R308H|PDE9A_uc002zby.2_Missense_Mutation_p.R151H|PDE9A_uc002zbz.2_Missense_Mutation_p.R260H|PDE9A_uc002zca.2_Missense_Mutation_p.R327H|PDE9A_uc002zcb.2_Missense_Mutation_p.R342H|PDE9A_uc002zcc.2_Missense_Mutation_p.R267H|PDE9A_uc002zcd.2_Missense_Mutation_p.R282H|PDE9A_uc002zce.2_Missense_Mutation_p.R301H|PDE9A_uc002zcf.2_Missense_Mutation_p.R161H|PDE9A_uc002zcg.2_Missense_Mutation_p.R161H|PDE9A_uc002zch.2_Missense_Mutation_p.R151H|PDE9A_uc010gpf.1_Missense_Mutation_p.R161H	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a	368	Catalytic (By similarity).				platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						ATCAATGCCCGCACAGAGCTG	0.617													18	57					0	0	0.012319	0	0		A	44182210	A	A	44182210	3	1	128	1	0	0	0	0	1	0	0	0	11674	1087	38	1	1237	1	PDE9A	21	44182210	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1463236	44182210	3947685	1095	71383											
PKNOX1	5316	broad.mit.edu	37	chr21	44438317	44438317	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagacattgtcgcctgggAcaattaggatccagaactcc	12	8	9	12	1	0	2	0	0	0	2	3	4	2	4	3	2	1	0	3	2	3	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr21:44438317A>T	uc002zcq.1	+	7	885	c.697A>T	c.(697-699)ACA>TCA	p.T233S	PKNOX1_uc002zcp.1_Missense_Mutation_p.T233S|PKNOX1_uc011aex.1_Missense_Mutation_p.T116S	NM_004571	NP_004562	P55347	PKNX1_HUMAN	PBX/knotted 1 homeobox 1	233							sequence-specific DNA binding			large_intestine(2)	2						GTCGCCTGGGACAATTAGGAT	0.542													16	46					0	0	0.003163	0	0		T	44438317	T	T	44438317	3	4	128	1	0	0	0	0	1	0	0	0	12001	275	10	5	719	5	PKNOX1	21	44438317	Missense_Mutation	SNP	A	TCGA-CG-4306-01A-01D-1158-08	256107	44438317	3691578	1096	71384											
MICAL3	57553	broad.mit.edu	37	chr22	18301213	18301213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctctgtcggacggggacCggggggttggcagggacaac	6	6	19	10	3	1	0	0	0	1	0	3	3	1	3	1	8	1	3	1	8	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:18301213C>T	uc002zng.3	-	26	4567	c.4214G>A	c.(4213-4215)CGG>CAG	p.R1405Q	MICAL3_uc011agl.1_Missense_Mutation_p.R1321Q|MICAL3_uc010gre.1_5'Flank	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	1405	Pro-rich.					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		GGACGGGGACCGGGGGGTTGG	0.667													19	82					0	0	0.01441	0	0		T	18301213	T	T	18301213	3	4	128	1	0	0	0	0	1	0	0	0	9589	652	23	1	1822	1	MICAL3	22	18301213	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08		18301213	33003353	1097	71385											
TSSK2	23617	broad.mit.edu	37	chr22	19119120	19119120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctggcaactgtcaaccacGgctccatcatcaagacttac	11	9	6	15	1	3	1	3	0	0	1	5	1	5	1	3	2	3	2	3	2	4	1	rs141724999		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:19119120G>A	uc002zow.2	+	1	800	c.208G>A	c.(208-210)GGC>AGC	p.G70S	DGCR14_uc002zot.2_3'UTR|DGCR14_uc002zou.2_3'UTR|DGCR14_uc002zov.2_RNA	NM_053006	NP_443732	Q96PF2	TSSK2_HUMAN	testis-specific serine kinase 2	70	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1	Colorectal(54;0.0993)					TGTCAACCACGGCTCCATCAT	0.512													17	41					0	0	0.00499	0	0		A	19119120	A	A	19119120	3	1	128	1	0	0	0	0	1	0	0	0	16695	1116	39	1	210	1	TSSK2	22	19119120	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	817907	19119120	32185446	1098	71386											
HIRA	7290	broad.mit.edu	37	chr22	19396104	19396104	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tattccagatcacaaccttcCcagaatcctgccctggaaca	12	9	5	15	0	1	2	1	0	0	2	4	3	4	3	5	1	3	0	5	1	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:19396104C>A	uc002zpf.1	-	3	333	c.113G>T	c.(112-114)GGG>GTG	p.G38V	HIRA_uc011agx.1_5'UTR|HIRA_uc010grn.1_Missense_Mutation_p.G38V|HIRA_uc010gro.1_5'UTR|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	38	WD 1.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					CACAACCTTCCCAGAATCCTG	0.408													28	84					5.45727e-16	5.86347e-16	0.008361	1	0		A	19396104	A	A	19396104	3	1	128	1	0	0	0	0	1	0	0	0	7136	623	22	5	3032	5	HIRA	22	19396104	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	276984	19396104	31908462	1099	71387											
UFD1L	7353	broad.mit.edu	37	chr22	19463058	19463058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatggacacagagaagcagCggtactgtgtggagaagcgg	12	5	17	7	2	0	2	0	0	0	2	0	5	0	3	0	4	4	3	0	4	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:19463058C>T	uc002zpm.2	-	2	201	c.71G>A	c.(70-72)CGC>CAC	p.R24H	UFD1L_uc002zpo.2_Missense_Mutation_p.R24H|UFD1L_uc011agy.1_Missense_Mutation_p.R24H|UFD1L_uc002zpp.2_5'UTR|UFD1L_uc010grq.2_5'UTR	NM_005659	NP_005650	Q92890	UFD1_HUMAN	ubiquitin fusion degradation 1-like isoform A	24					skeletal system development|ubiquitin-dependent protein catabolic process	cytosol|nucleus	protein binding|ubiquitin-specific protease activity				0	Colorectal(54;0.0993)					AGAGAAGCAGCGGTACTGTGT	0.438													41	143					0	0	0.011902	0	0		T	19463058	T	T	19463058	3	4	128	1	0	0	0	0	1	0	0	0	16961	768	27	1	896	1	UFD1L	22	19463058	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	66954	19463058	31841508	1100	71388											
TRMT2A	27037	broad.mit.edu	37	chr22	20103586	20103586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtttctgcagcacctgctCgcactccagctgcttccgct	6	11	8	16	2	1	0	0	0	1	0	4	0	3	0	3	0	5	8	3	0	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:20103586C>T	uc002zrk.1	-	3	789	c.574G>A	c.(574-576)GAG>AAG	p.E192K	TRMT2A_uc002zrl.1_Missense_Mutation_p.E192K|TRMT2A_uc002zrm.1_Silent_p.A12A|TRMT2A_uc002zrn.1_Missense_Mutation_p.E192K|TRMT2A_uc011ahk.1_Missense_Mutation_p.E192K|RANBP1_uc011ahl.1_5'Flank|RANBP1_uc002zro.1_5'Flank|RANBP1_uc002zrp.2_5'Flank	NM_182984	NP_892029	Q8IZ69	TRM2A_HUMAN	HpaII tiny fragments locus 9C	192	Potential.				RNA processing		nucleotide binding|RNA binding|RNA methyltransferase activity			breast(1)	1						AGCACCTGCTCGCACTCCAGC	0.627													25	77					0	0	0.01892	0	0		T	20103586	T	T	20103586	3	4	128	1	0	0	0	0	1	0	0	0	16591	893	31	1	1347	1	TRMT2A	22	20103586	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	640528	20103586	31200980	1101	71389											
AIFM3	150209	broad.mit.edu	37	chr22	21330537	21330537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgagaactaagaaggtcGtgttcaaggatggcttcaag	13	9	13	6	2	2	2	2	1	0	2	3	4	2	3	0	3	1	2	0	3	5	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:21330537G>A	uc002ztj.2	+	10	1059	c.841G>A	c.(841-843)GTG>ATG	p.V281M	AIFM3_uc002ztk.2_Missense_Mutation_p.V281M|AIFM3_uc002ztl.2_Missense_Mutation_p.V287M|AIFM3_uc011ahx.1_Missense_Mutation_p.V269M|AIFM3_uc002ztm.1_Missense_Mutation_p.V93M	NM_144704	NP_653305	Q96NN9	AIFM3_HUMAN	apoptosis-inducing factor,	281					activation of caspase activity by cytochrome c|cell redox homeostasis|electron transport chain|induction of apoptosis|mitochondrial depolarization|transport	endoplasmic reticulum|mitochondrial inner membrane	2 iron, 2 sulfur cluster binding|caspase activator activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity|protein binding			ovary(2)|lung(2)	4	all_cancers(11;3.71e-26)|all_epithelial(7;1.59e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0367)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			TAAGAAGGTCGTGTTCAAGGA	0.612													11	34					0	0	0.013537	0	0		A	21330537	A	A	21330537	3	1	128	1	0	0	0	0	1	0	0	0	428	1145	40	1	893	1	AIFM3	22	21330537	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1226951	21330537	29974029	1102	71390											
P2RX6	9127	broad.mit.edu	37	chr22	21377631	21377631	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctatgaaccacaattcagcCcctactgtcccgtgttccgc	8	10	7	16	2	1	1	1	1	0	0	3	1	3	1	5	0	3	2	5	0	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:21377631C>A	uc010gsu.1	+	7	706	c.706C>A	c.(706-708)CCC>ACC	p.P236T	P2RX6_uc002ztz.2_Missense_Mutation_p.P210T|P2RX6_uc002zua.2_RNA|P2RX6_uc002zuc.1_RNA	NM_005446	NP_005437	O15547	P2RX6_HUMAN	purinergic receptor P2X6 isoform 1	236	Extracellular (Potential).				muscle contraction|protein homooligomerization	cell junction|cytoplasm|integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0						ACAATTCAGCCCCTACTGTCC	0.597													58	171					2.60599e-31	2.87917e-31	0.01441	1	0		A	21377631	A	A	21377631	3	1	128	1	0	0	0	0	1	0	0	0	11363	623	22	5	732	5	P2RX6	22	21377631	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	47094	21377631	29926935	1103	71391											
MAPK1	5594	broad.mit.edu	37	chr22	22153338	22153338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctggagccctgtaccaaCgtgtggccacatattctgtc	7	13	9	12	1	2	0	0	0	2	0	3	1	2	1	3	2	3	1	3	2	3	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:22153338C>T	uc002zvn.2	-	4	812	c.572G>A	c.(571-573)CGT>CAT	p.R191H	MAPK1_uc002zvo.2_Missense_Mutation_p.R191H|MAPK1_uc010gtk.1_Missense_Mutation_p.R191H	NM_002745	NP_002736	P28482	MK01_HUMAN	mitogen-activated protein kinase 1	191	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|induction of apoptosis|innate immune response|insulin receptor signaling pathway|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription, DNA-dependent	cytosol|nucleoplasm	ATP binding|DNA binding|MAP kinase activity|phosphatase binding|RNA polymerase II carboxy-terminal domain kinase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	Colorectal(54;0.105)	all_lung(157;3.89e-05)		READ - Rectum adenocarcinoma(21;0.0689)	Arsenic trioxide(DB01169)	CCTGTACCAACGTGTGGCCAC	0.428													19	69					0	0	0.007413	0	0		T	22153338	T	T	22153338	3	4	128	1	0	0	0	0	1	0	0	0	9289	536	19	1	530	1	MAPK1	22	22153338	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	775707	22153338	29151228	1104	71392											
MYO18B	84700	broad.mit.edu	37	chr22	26423348	26423348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgggcaagacggttcacagCgttcaagcatccactttgaa	11	9	11	10	2	2	2	2	1	0	1	3	2	3	2	1	2	2	4	1	2	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:26423348C>T	uc003abz.1	+	43	7658	c.7408C>T	c.(7408-7410)CGT>TGT	p.R2470C	MYO18B_uc003aca.1_Missense_Mutation_p.R2351C|MYO18B_uc010guy.1_Missense_Mutation_p.R2352C|MYO18B_uc010guz.1_Missense_Mutation_p.R2350C|MYO18B_uc011aka.1_Missense_Mutation_p.R1624C|MYO18B_uc011akb.1_Missense_Mutation_p.R1983C|MYO18B_uc010gva.1_Missense_Mutation_p.R453C|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2470						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CGGTTCACAGCGTTCAAGCAT	0.552													27	76					0	0	0.008361	0	0		T	26423348	T	T	26423348	3	4	128	1	0	0	0	0	1	0	0	0	10084	768	27	1	7574	1	MYO18B	22	26423348	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4270010	26423348	24881218	1105	71393											
SEZ6L	23544	broad.mit.edu	37	chr22	26761352	26761352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttcagcggaggagtccctgGcatgtgacaacccagggctg	8	8	14	11	1	1	1	1	1	0	0	2	3	2	3	2	4	2	2	2	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:26761352G>A	uc003acb.2	+	13	2770	c.2614G>A	c.(2614-2616)GCA>ACA	p.A872T	SEZ6L_uc003acc.2_Missense_Mutation_p.A872T|SEZ6L_uc011akc.1_Missense_Mutation_p.A872T|SEZ6L_uc003acd.2_Missense_Mutation_p.A808T|SEZ6L_uc011akd.1_Missense_Mutation_p.A872T|SEZ6L_uc003ace.2_Intron|SEZ6L_uc003acf.1_Missense_Mutation_p.A645T|SEZ6L_uc010gvc.1_Intron|SEZ6L_uc011ake.1_RNA	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	872	Sushi 5.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						GGAGTCCCTGGCATGTGACAA	0.522													4	223					0	0	0.014758	0	0		A	26761352	A	A	26761352	3	1	128	1	0	0	0	0	1	0	0	0	14168	1203	42	2	2664	2	SEZ6L	22	26761352	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	338004	26761352	24543214	1106	71394											
SEC14L3	266629	broad.mit.edu	37	chr22	30856091	30856091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaagctgaccttcttggCgtggacaaagctataggtgt	9	12	13	7	1	1	2	0	2	1	0	1	3	1	3	1	3	2	2	1	3	4	4	rs142573310	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:30856091C>T	uc003ahy.2	-	12	1209	c.1120G>A	c.(1120-1122)GCC>ACC	p.A374T	SEC14L3_uc003ahz.2_Missense_Mutation_p.A297T|SEC14L3_uc003aia.2_Missense_Mutation_p.A315T|SEC14L3_uc003aib.2_Missense_Mutation_p.A315T	NM_174975	NP_777635	Q9UDX4	S14L3_HUMAN	SEC14-like 3	374	GOLD.					integral to membrane|intracellular	lipid binding|transporter activity			ovary(3)|pancreas(1)|skin(1)	5					Vitamin E(DB00163)	ACCTTCTTGGCGTGGACAAAG	0.527													7	144					0	0	0.004482	0	0		T	30856091	T	T	30856091	3	4	128	1	0	0	0	0	1	0	0	0	14008	768	27	1	86	1	SEC14L3	22	30856091	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	4094739	30856091	20448475	1107	71395											
SEC14L4	284904	broad.mit.edu	37	chr22	30887696	30887696	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcaggaaaaccccaaaGccgatgtccccaccatctga	12	7	7	15	1	3	1	1	1	2	0	4	3	4	2	6	1	2	0	6	1	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:30887696G>A	uc003aid.2	-	11	1045	c.945C>T	c.(943-945)GGC>GGT	p.G315G	SEC14L4_uc011akz.1_Silent_p.G315G|SEC14L4_uc003aie.2_Silent_p.G300G|SEC14L4_uc003aif.2_Silent_p.G261G	NM_174977	NP_777637	Q9UDX3	S14L4_HUMAN	SEC14p-like protein TAP3 isoform a	315	GOLD.					integral to membrane|intracellular	lipid binding|transporter activity			skin(1)	1					Vitamin E(DB00163)	AAACCCCAAAGCCGATGTCCC	0.622													37	120					0	0	0.007835	0	0		A	30887696	A	A	30887696	2	1	128	1	0	0	0	0	0	0	0	1	14009	958	34	2		2	SEC14L4	22	30887696	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	31605	30887696	20416870	1108	71396											
OSBP2	23762	broad.mit.edu	37	chr22	31301891	31301891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaacgagcacgaggagggcGtagcgccaaccgacagccgc	11	2	14	14	6	1	0	1	0	0	0	1	4	1	1	3	2	5	2	3	2	3	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:31301891G>A	uc003aiy.1	+	13	2547	c.2443G>A	c.(2443-2445)GTA>ATA	p.V815I	OSBP2_uc011ala.1_Missense_Mutation_p.V649I|OSBP2_uc010gwc.1_Missense_Mutation_p.V642I|OSBP2_uc011alb.1_Missense_Mutation_p.V766I|OSBP2_uc003aiz.1_Missense_Mutation_p.V814I|OSBP2_uc003aja.1_Missense_Mutation_p.V448I|OSBP2_uc011alc.1_Missense_Mutation_p.V557I|OSBP2_uc003ajb.2_Missense_Mutation_p.V360I|OSBP2_uc011ald.1_Missense_Mutation_p.V359I|OSBP2_uc010gwd.1_Missense_Mutation_p.R298H	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	815					lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						CGAGGAGGGCGTAGCGCCAAC	0.552													7	27					0	0	0.008291	0	0		A	31301891	A	A	31301891	3	1	128	1	0	0	0	0	1	0	0	0	11293	1145	40	1	2493	1	OSBP2	22	31301891	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	414195	31301891	20002675	1109	71397											
MCM5	4174	broad.mit.edu	37	chr22	35817310	35817310	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcacgctgttgcccccacaGgcagctggaggccattgtgc	7	7	13	14	1	0	0	0	0	0	0	0	1	0	1	3	3	4	5	3	3	0	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:35817310G>T	uc003anu.3	+	15	1927	c.1833_splice	c.e15-1	p.R611_splice	MCM5_uc010gwr.2_Splice_Site_p.R420_splice|MCM5_uc003anv.3_Splice_Site_p.R568_splice|MCM5_uc003anw.1_Splice_Site_p.R395_splice	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5						cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						TGCCCCCACAGGCAGCTGGAG	0.632													21	33					4.35082e-09	4.56029e-09	0.010504	1	0		T	35817310	T	T	35817310	5	4	128	1	0	0	0	0	0	0	1	0	9408	1014	35	5	1886	5	MCM5	22	35817310	Splice_Site	SNP	G	TCGA-CG-4306-01A-01D-1158-08	4515419	35817310	15487256	1110	71398											
ELFN2	114794	broad.mit.edu	37	chr22	37769658	37769658	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaggctaaagaccttggcGctcttgatggaaccactgga	10	9	11	11	1	1	2	0	1	1	1	2	4	2	4	3	4	1	2	3	4	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:37769658G>A	uc003asq.3	-	3	2703	c.1917C>T	c.(1915-1917)AGC>AGT	p.S639S		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	639	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					AGACCTTGGCGCTCTTGATGG	0.652													7	20					0	0	0.001984	0	0		A	37769658	A	A	37769658	2	1	128	1	0	0	0	0	0	0	0	1	5066	1078	38	1		1	ELFN2	22	37769658	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1952348	37769658	13534908	1111	71399											
GGA1	26088	broad.mit.edu	37	chr22	38019393	38019393	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatcgaggaggtgaacaaCaatgtgaaactgctcacgga	14	6	12	9	2	1	2	1	2	0	0	2	5	1	4	1	3	4	1	1	3	4	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:38019393C>T	uc003atc.2	+	8	1034	c.669C>T	c.(667-669)AAC>AAT	p.N223N	GGA1_uc003atd.2_Silent_p.N223N|GGA1_uc003ate.2_Silent_p.N223N|GGA1_uc003atf.2_Silent_p.N150N	NM_013365	NP_037497	Q9UJY5	GGA1_HUMAN	golgi associated, gamma adaptin ear containing,	223	Interaction with ARF3.|GAT.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|Golgi apparatus part	protein binding			breast(2)|ovary(1)	3	Melanoma(58;0.0574)					AGGTGAACAACAATGTGAAAC	0.602											OREG0026543	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	337					0	0	0.001984	0	0		T	38019393	T	T	38019393	2	4	128	1	0	0	0	0	0	0	0	1	6367	477	17	4		4	GGA1	22	38019393	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	249735	38019393	13285173	1112	71400											
PLA2G6	8398	broad.mit.edu	37	chr22	38528987	38528987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcggagctggtgctgttcaCgttgcagccccgtttcagca	5	10	13	13	4	2	0	2	0	0	0	2	1	2	1	2	2	5	7	2	2	0	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:38528987C>T	uc003auy.1	-	7	1064	c.928G>A	c.(928-930)GTG>ATG	p.V310M	PLA2G6_uc003auz.1_Missense_Mutation_p.V310M|PLA2G6_uc003ava.1_Missense_Mutation_p.V310M|PLA2G6_uc003avb.2_Missense_Mutation_p.V310M|PLA2G6_uc010gxk.1_RNA|PLA2G6_uc011ano.1_Missense_Mutation_p.V275M	NM_003560	NP_003551	O60733	PA2G6_HUMAN	phospholipase A2, group VI isoform a	310	ANK 5.		V -> E (in NBIA2A).		cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)	GTGCTGTTCACGTTGCAGCCC	0.677													3	13					0	0	0.014758	0	0		T	38528987	T	T	38528987	3	4	128	1	0	0	0	0	1	0	0	0	12027	536	19	1	1536	1	PLA2G6	22	38528987	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	509594	38528987	12775579	1113	71401											
SLC25A17	10478	broad.mit.edu	37	chr22	41195058	41195058	+	Frame_Shift_Del	DEL	A	-	-																															agtctagctgtatccaggggAaaaaacactgtcattgctgt																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:41195058delA	uc003azc.2	-	2	224	c.84delT	c.(82-84)TTTfs	p.F28fs	SLC25A17_uc010gyg.2_RNA|SLC25A17_uc011aou.1_5'UTR|SLC25A17_uc003azd.2_RNA|SLC25A17_uc011aov.1_Frame_Shift_Del_p.F28fs	NM_006358	NP_006349	O43808	PM34_HUMAN	solute carrier family 25 (mitochondrial carrier;	28	Solcar 1.|Helical; Name=1; (Potential).				fatty acid alpha-oxidation	integral to plasma membrane|mitochondrial inner membrane|peroxisomal membrane	adenine nucleotide transmembrane transporter activity|protein binding				0						TATCCAGGGGAAAAAACACTG	0.348													25	55	---	---	---	---						.	-	41195058	-	-	41195058	7	5	128	1	0	1	0	1	0	0	0	0	14504	243	9	0	871	0	SLC25A17	22	41195058	Frame_Shift_Del	DEL	A	TCGA-CG-4306-01A-01D-1158-08	2666071	41195058	10109508	1114	71402											
ST13	6767	broad.mit.edu	37	chr22	41226918	41226918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgatctctcgctcttcacGttttcgctcatactttctcc	4	19	4	14	3	5	1	2	1	3	0	9	1	5	1	1	0	1	3	1	0	1	6	rs36082289		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:41226918G>A	uc003aze.2	-	9	867	c.724C>T	c.(724-726)CGT>TGT	p.R242C	ST13_uc011aow.1_Missense_Mutation_p.R232C	NM_003932	NP_003923	P50502	F10A1_HUMAN	heat shock 70kD protein binding protein	242							protein binding, bridging				0						CGCTCTTCACGTTTTCGCTCA	0.413													38	107					0	0	0.019004	0	0		A	41226918	A	A	41226918	3	1	128	1	0	0	0	0	1	0	0	0	15235	1145	40	1	401	1	ST13	22	41226918	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	31860	41226918	10077648	1115	71403											
SCUBE1	80274	broad.mit.edu	37	chr22	43735243	43735243	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccacgtcgactgacccTgtgggtaggggtgtgggggg	5	9	18	9	2	1	1	1	1	0	0	3	2	2	1	2	6	0	1	2	6	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:43735243T>C	uc003bdt.1	-	2	177	c.89_splice	c.e2-1	p.G30_splice	SCUBE1_uc003bdu.1_Splice_Site_p.G30_splice	NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1						adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				CGACTGACCCTGTGGGTAGGG	0.592													17	62					0	0	0.004007	0	0		C	43735243	C	C	43735243	5	2	128	1	0	0	0	0	0	0	1	0	13969	1594	55	3	2963	3	SCUBE1	22	43735243	Splice_Site	SNP	T	TCGA-CG-4306-01A-01D-1158-08	2508325	43735243	7569323	1116	71404											
MPPED1	758	broad.mit.edu	37	chr22	43898596	43898596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaacacggtgcagaggcGcgtccagccgcggttacatg	8	6	14	13	5	1	1	1	0	0	1	2	1	2	1	2	3	4	3	2	3	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:43898596G>A	uc011apv.1	+	6	1044	c.821G>A	c.(820-822)CGC>CAC	p.R274H	MPPED1_uc011apw.1_Missense_Mutation_p.R168H|MPPED1_uc011apx.1_Missense_Mutation_p.R116H|MPPED1_uc011apy.1_Missense_Mutation_p.R274H|MPPED1_uc011apz.1_Missense_Mutation_p.R307H	NM_001044370	NP_001037835	O15442	MPPD1_HUMAN	metallophosphoesterase domain containing 1	274							hydrolase activity				0		all_neural(38;0.0244)|Ovarian(80;0.0694)				GTGCAGAGGCGCGTCCAGCCG	0.622													20	95					0	0	0.021523	0	0		A	43898596	A	A	43898596	3	1	128	1	0	0	0	0	1	0	0	0	9759	1087	38	1	719	1	MPPED1	22	43898596	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	163353	43898596	7405970	1117	71405											
EFCAB6	64800	broad.mit.edu	37	chr22	44031067	44031067	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagggcatactgatcatcGtccatgggcatcccagtgtc	9	9	11	12	1	1	1	1	1	0	0	5	1	3	1	2	2	2	3	2	2	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:44031067G>A	uc003bdy.1	-	18	2228	c.2013C>T	c.(2011-2013)GAC>GAT	p.D671D	EFCAB6_uc003bdz.1_Silent_p.D519D|EFCAB6_uc010gzi.1_Silent_p.D519D|EFCAB6_uc010gzj.1_Intron|EFCAB6_uc010gzk.1_Intron	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	671					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				ACTGATCATCGTCCATGGGCA	0.542													37	78					0	0	0.00874	0	0		A	44031067	A	A	44031067	2	1	128	1	0	0	0	0	0	0	0	1	4945	1136	40	1		1	EFCAB6	22	44031067	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	132471	44031067	7273499	1118	71406											
CELSR1	9620	broad.mit.edu	37	chr22	46792559	46792559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcgcacacgtagccctgcGgggagccgggggagcgcacg	7	3	17	14	6	0	0	0	0	0	0	1	2	0	2	2	4	4	3	2	4	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:46792559G>A	uc003bhw.1	-	13	5786	c.5786C>T	c.(5785-5787)CCG>CTG	p.P1929L	CELSR1_uc011arc.1_Missense_Mutation_p.P250L	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1929	Extracellular (Potential).|EGF-like 6; calcium-binding.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GTAGCCCTGCGGGGAGCCGGG	0.622													14	29					0	0	0.004007	0	0		A	46792559	A	A	46792559	3	1	128	1	0	0	0	0	1	0	0	0	3224	1116	39	1	3350	1	CELSR1	22	46792559	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2761492	46792559	4512007	1119	71407											
FAM19A5	25817	broad.mit.edu	37	chr22	49103656	49103656	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggaggataaagaccaccacGgtatgtggccctcggctttc	9	8	13	11	2	0	1	0	0	0	1	2	3	0	3	3	5	0	2	3	5	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:49103656G>A	uc003bim.3	+	3	507	c.390G>A	c.(388-390)ACG>ACA	p.T130T	FAM19A5_uc003bio.3_Silent_p.T123T	NM_001082967	NP_001076436	Q7Z5A7	F19A5_HUMAN	family with sequence similarity 19 (chemokine	130						extracellular region|integral to membrane				large_intestine(1)	1		all_cancers(38;2.95e-11)|all_epithelial(38;3.07e-10)|all_lung(38;2.89e-05)|Breast(42;0.000396)|Lung NSC(38;0.000471)|Ovarian(80;0.00934)|Lung SC(80;0.195)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0227)|BRCA - Breast invasive adenocarcinoma(115;0.119)		AGACCACCACGGTATGTGGCC	0.662													68	134					0	0	0.01441	0	0		A	49103656	A	A	49103656	2	1	128	1	0	0	0	0	0	0	0	1	5546	1130	39	1		1	FAM19A5	22	49103656	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	2311097	49103656	2200910	1120	71408											
BRD1	23774	broad.mit.edu	37	chr22	50191612	50191612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgcggctctatagaacaCggtgtccctggcattgtact	8	10	10	13	3	1	1	0	0	1	1	2	1	2	1	2	3	2	3	2	3	4	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:50191612C>T	uc003biv.2	-	5	2426	c.1939G>A	c.(1939-1941)GTG>ATG	p.V647M	BRD1_uc011arf.1_Missense_Mutation_p.V242M|BRD1_uc011arg.1_Missense_Mutation_p.V696M|BRD1_uc011arh.1_Missense_Mutation_p.V647M|BRD1_uc003biu.3_Missense_Mutation_p.V647M	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	647	Bromo.				histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CTATAGAACACGGTGTCCCTG	0.532													21	74					0	0	0.008871	0	0		T	50191612	T	T	50191612	3	4	128	1	0	0	0	0	1	0	0	0	1504	536	19	1	1269	1	BRD1	22	50191612	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1087956	50191612	1112954	1121	71409											
CRELD2	79174	broad.mit.edu	37	chr22	50316958	50316958	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgccaacggctcctacacGtgcgaaggtgggccaggcgg	9	4	15	13	5	0	0	0	0	0	0	1	1	1	0	3	5	4	1	3	5	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:50316958G>A	uc003bja.2	+	7	900	c.765G>A	c.(763-765)ACG>ACA	p.T255T	CRELD2_uc003biz.3_Silent_p.T255T|CRELD2_uc010haj.2_Silent_p.T255T|CRELD2_uc010hal.2_Silent_p.T304T|CRELD2_uc010hak.2_Intron|CRELD2_uc010ham.2_Silent_p.T255T	NM_024324	NP_077300	Q6UXH1	CREL2_HUMAN	cysteine-rich with EGF-like domains 2 isoform b	255	FU 2.					endoplasmic reticulum|extracellular region	calcium ion binding				0		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.198)|LUAD - Lung adenocarcinoma(64;0.247)		GCTCCTACACGTGCGAAGGTG	0.617													12	24					0	0	0.010729	0	0		A	50316958	A	A	50316958	2	1	128	1	0	0	0	0	0	0	0	1	3870	1132	40	1		1	CRELD2	22	50316958	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	125346	50316958	987608	1122	71410											
TUBGCP6	85378	broad.mit.edu	37	chr22	50658984	50658984	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcggagggatgggtacatgGgtgttccaccgtggccgggt	5	8	20	8	3	0	0	0	0	0	0	1	2	1	2	3	7	1	2	3	7	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chr22:50658984G>T	uc003bkb.1	-	16	4316	c.3804C>A	c.(3802-3804)ACC>ACA	p.T1268T	TUBGCP6_uc003bka.1_Silent_p.T355T|TUBGCP6_uc010har.1_Silent_p.T1260T|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	1268	9 X 27 AA tandem repeats.|9.				G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		TGGGTACATGGGTGTTCCACC	0.652													10	54					5.50884e-06	5.68433e-06	0.013537	1	0		T	50658984	T	T	50658984	2	4	128	1	0	0	0	0	0	0	0	1	16796	1219	43	5		5	TUBGCP6	22	50658984	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	342026	50658984	645582	1123	71411											
SHOX	6473	broad.mit.edu	37	chrX	591692	591692	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaaaagcaaggacggtaaCggcggaggcggaggcggcgg	12	1	20	8	6	0	1	0	0	0	1	0	4	0	4	0	9	2	2	0	9	4	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:591692C>T	uc004cph.1	+	2	751	c.60C>T	c.(58-60)AAC>AAT	p.N20N	SHOX_uc004cpi.2_Silent_p.N20N	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	20	Poly-Gly.				skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AGGACGGTAACGGCGGAGGCG	0.622													46	124					0	0	0.01441	0	0		T	591692	T	T	591692	2	4	128	1	0	0	0	0	0	0	0	1	14313	535	19	1		1	SHOX	23	591692	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08		591692	154678868	1124	71412											
ZBED1	9189	broad.mit.edu	37	chrX	2407993	2407993	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggcgctgatgccccactcGatgaagacctcatagagcac	10	8	10	13	2	1	4	1	2	0	2	2	5	1	4	3	1	2	2	3	1	2	2	rs141687518		TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:2407993G>A	uc004cqg.2	-	2	969	c.768C>T	c.(766-768)ATC>ATT	p.I256I	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Silent_p.I256I	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	256						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TGCCCCACTCGATGAAGACCT	0.617													51	91					0	0	0.01441	0	0		A	2407993	A	A	2407993	2	1	128	1	0	0	0	0	0	0	0	1	17543	1048	37	1		1	ZBED1	23	2407993	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	1816301	2407993	152862567	1125	71413											
KAL1	3730	broad.mit.edu	37	chrX	8503692	8503692	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgttctgtctgctttcCgtagtgacctcagcccaagt	6	13	10	12	1	3	1	1	1	2	0	4	1	4	1	3	1	2	4	3	1	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:8503692C>T	uc004csf.2	-	12	1932	c.1782G>A	c.(1780-1782)ACG>ACA	p.T594T		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	594	Fibronectin type-III 4.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						GTCTGCTTTCCGTAGTGACCT	0.493													25	25					0	0	0.004656	0	0		T	8503692	T	T	8503692	2	4	128	1	0	0	0	0	0	0	0	1	7990	639	23	1		1	KAL1	23	8503692	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	6095699	8503692	146766868	1126	71414											
ASB11	140456	broad.mit.edu	37	chrX	15333660	15333660	+	Frame_Shift_Del	DEL	A	-	-																															ctttaattaaaagcttaaagAaaaaaaacgtagcaaacatt																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:15333660delA	uc004cwp.1	-	1	68	c.68delT	c.(67-69)TTCfs	p.F23fs	ASB11_uc004cwo.1_5'Flank|ASB11_uc010nes.1_RNA|ASB11_uc010net.1_Frame_Shift_Del_p.F23fs	NM_080873	NP_543149	Q8WXH4	ASB11_HUMAN	ankyrin repeat and SOCS box-containing protein	23					intracellular signal transduction					breast(2)|skin(1)	3	Hepatocellular(33;0.183)					AAGCTTAAAGAAAAAAAACGT	0.338													46	62	---	---	---	---						.	-	15333660	-	-	15333660	7	5	128	1	0	1	0	1	0	0	0	0	1016	246	9	0	1053	0	ASB11	23	15333660	Frame_Shift_Del	DEL	A	TCGA-CG-4306-01A-01D-1158-08	6829968	15333660	139936900	1127	71415											
ARX	170302	broad.mit.edu	37	chrX	25033731	25033731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgcggctcccagcaaccGcattttgcacgggctcctcc	5	8	10	18	4	0	0	0	0	0	0	3	0	3	0	4	2	4	5	4	2	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:25033731G>A	uc004dbp.3	-	1	335	c.124C>T	c.(124-126)CGG>TGG	p.R42W		NM_139058	NP_620689	Q96QS3	ARX_HUMAN	aristaless related homeobox	42						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CCCAGCAACCGCATTTTGCAC	0.622													7	11					0	0	0.004482	0	0		A	25033731	A	A	25033731	3	1	128	1	0	0	0	0	1	0	0	0	1005	1086	38	1	1584	1	ARX	23	25033731	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	9700071	25033731	130236829	1128	71416											
BCOR	54880	broad.mit.edu	37	chrX	39931787	39931788	+	Frame_Shift_Ins	INS	-	G	G																															gctccatctttggtataggtINSgggggtcacatccacacttg																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:39931787_39931788insG	uc004den.3	-	4	3103_3104	c.2811_2812insC	c.(2809-2814)CCCACCfs	p.P937fs	BCOR_uc004dep.3_Frame_Shift_Ins_p.P937fs|BCOR_uc004deo.3_Frame_Shift_Ins_p.P937fs|BCOR_uc004dem.3_Frame_Shift_Ins_p.P937fs|BCOR_uc004deq.3_Frame_Shift_Ins_p.P937fs	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	937_938					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						TTGGTATAGGTGGGGGTCACAT	0.515													27	32	---	---	---	---						.	G	39931788	G	G	39931787	7	5	128	1	0	1	1	0	0	0	0	0	1387	1696	59	0	2503	0	BCOR	23	39931787	Frame_Shift_Ins	INS	-	TCGA-CG-4306-01A-01D-1158-08	14898056	39931787	115338773	1129	71417											
KDM6A	7403	broad.mit.edu	37	chrX	44922797	44922798	+	Frame_Shift_Del	DEL	TC	-	-																															tctgaccagagtgcctagcgTctctcagcctggagtccgtc																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:44922797_44922798delTC	uc004dge.3	+	16	2033_2034	c.1658_1659delTC	c.(1657-1659)GTCfs	p.V553fs	KDM6A_uc010nhk.2_Frame_Shift_Del_p.V519fs|KDM6A_uc011mkz.1_Frame_Shift_Del_p.V605fs|KDM6A_uc011mla.1_Frame_Shift_Del_p.V508fs|KDM6A_uc011mlb.1_Frame_Shift_Del_p.V560fs|KDM6A_uc011mlc.1_Frame_Shift_Del_p.V257fs|KDM6A_uc011mld.1_Frame_Shift_Del_p.V192fs	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	553					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						GTGCCTAGCGTCTCTCAGCCTG	0.564			D|N|F|S		renal|oesophageal SCC|MM								27	44	---	---	---	---						.	-	44922798	-	-	44922797	7	5	128	1	0	1	0	1	0	0	0	0	8153	1667	58	0	1720	0	KDM6A	23	44922797	Frame_Shift_Del	DEL	TC	TCGA-CG-4306-01A-01D-1158-08	4991010	44922797	110347763	1130	71418											
HDAC6	10013	broad.mit.edu	37	chrX	48661558	48661558	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaccttgaggctgaagcActggctggcactggcttggt	7	10	14	10	0	0	3	0	3	0	0	0	3	0	3	1	5	2	5	1	5	2	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:48661558A>G	uc011mmi.1	+	4	341	c.246A>G	c.(244-246)GCA>GCG	p.A82A	HDAC6_uc004dkr.1_Silent_p.A82A|HDAC6_uc004dks.1_Silent_p.A82A|HDAC6_uc010nig.1_5'UTR|HDAC6_uc004dkt.1_Silent_p.A82A|HDAC6_uc004dku.3_Silent_p.A82A|HDAC6_uc011mmj.1_Silent_p.A27A|HDAC6_uc011mmk.1_Silent_p.A63A	NM_006044	NP_006035	Q9UBN7	HDAC6_HUMAN	histone deacetylase 6	82					aggresome assembly|cellular response to hydrogen peroxide|Hsp90 deacetylation|lysosome localization|macroautophagy|misfolded or incompletely synthesized protein catabolic process|negative regulation of proteolysis|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|polyubiquitinated misfolded protein transport|positive regulation of apoptosis|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of epithelial cell migration|positive regulation of receptor biosynthetic process|positive regulation of signal transduction|regulation of androgen receptor signaling pathway|regulation of receptor activity|response to growth factor stimulus|response to toxin|transcription, DNA-dependent|tubulin deacetylation	aggresome|caveola|cell leading edge|cytosol|histone deacetylase complex|microtubule associated complex|perinuclear region of cytoplasm	actin binding|alpha-tubulin binding|beta-catenin binding|dynein complex binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|Hsp90 protein binding|microtubule binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|polyubiquitin binding|tau protein binding|tubulin deacetylase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4					Vorinostat(DB02546)	AGGCTGAAGCACTGGCTGGCA	0.527													13	14					0	0	0.007413	0	0		G	48661558	G	G	48661558	2	3	128	1	0	0	0	0	0	0	0	1	7027	146	6	3		3	HDAC6	23	48661558	Silent	SNP	A	TCGA-CG-4306-01A-01D-1158-08	3738761	48661558	106609002	1131	71419											
PPP1R3F	89801	broad.mit.edu	37	chrX	49138500	49138500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtagcccccacccctctcCgtccatggccccagatgaca	7	7	8	19	1	1	2	0	1	1	1	3	2	2	2	8	2	1	1	8	2	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:49138500C>T	uc004dnh.1	+	3	1133	c.1117C>T	c.(1117-1119)CGT>TGT	p.R373C	PPP1R3F_uc011mnd.1_Missense_Mutation_p.R44C|PPP1R3F_uc004dni.2_Missense_Mutation_p.R27C|PPP1R3F_uc004dnj.1_Missense_Mutation_p.R27C	NM_033215	NP_149992	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory (inhibitor)	373	Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	Ovarian(276;0.236)					CACCCCTCTCCGTCCATGGCC	0.567													8	24					0	0	0.004482	0	0		T	49138500	T	T	49138500	3	4	128	1	0	0	0	0	1	0	0	0	12397	652	23	1	1127	1	PPP1R3F	23	49138500	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	476942	49138500	106132060	1132	71420											
ALAS2	212	broad.mit.edu	37	chrX	55039970	55039970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggggggagggtgccaagcGcaggagctcttcaccccggg	6	5	19	11	2	2	0	1	0	1	0	2	2	2	2	3	6	3	2	3	6	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:55039970G>A	uc004dua.3	-	10	1687	c.1549C>T	c.(1549-1551)CGC>TGC	p.R517C	ALAS2_uc004dub.3_Missense_Mutation_p.R504C|ALAS2_uc004dud.3_Missense_Mutation_p.R480C	NM_000032	NP_000023	P22557	HEM0_HUMAN	5-aminolevulinate synthase 2 isoform a	517					cellular iron ion homeostasis|erythrocyte differentiation|heme biosynthetic process|hemoglobin biosynthetic process|oxygen homeostasis|response to hypoxia	mitochondrial inner membrane|mitochondrial matrix	5-aminolevulinate synthase activity|coenzyme binding|glycine binding|protein binding|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(1)	1					Glycine(DB00145)	GGTGCCAAGCGCAGGAGCTCT	0.577													26	26					0	0	0.01892	0	0		A	55039970	A	A	55039970	3	1	128	1	0	0	0	0	1	0	0	0	485	1087	38	1	222	1	ALAS2	23	55039970	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5901470	55039970	100230590	1133	71421											
ZC4H2	55906	broad.mit.edu	37	chrX	64139033	64139033	+	Frame_Shift_Del	DEL	G	-	-																															gcggccagggactcagggatGgggggctcctgaggttctgt																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:64139033delG	uc004dvu.2	-	4	538	c.450delC	c.(448-450)CCCfs	p.P150fs	ZC4H2_uc004dvv.2_Frame_Shift_Del_p.P127fs|ZC4H2_uc011mov.1_Frame_Shift_Del_p.P127fs|ZC4H2_uc011mow.1_Intron|ZC4H2_uc004dvw.1_3'UTR	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	150							metal ion binding|protein binding			ovary(1)	1						ACTCAGGGATGGGGGGCTCCT	0.572													14	30	---	---	---	---						.	-	64139033	-	-	64139033	7	5	128	1	0	1	0	1	0	0	0	0	17603	1335	47	0	251	0	ZC4H2	23	64139033	Frame_Shift_Del	DEL	G	TCGA-CG-4306-01A-01D-1158-08	9099063	64139033	91131527	1134	71422											
NAP1L2	4674	broad.mit.edu	37	chrX	72433105	72433106	+	Frame_Shift_Ins	INS	-	A	A																															attccagtgcatcacctgagINSaaaaataatactgatcttgg																										TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:72433105_72433106insA	uc004ebi.2	-	1	1579_1580	c.1223_1224insT	c.(1222-1224)TTCfs	p.F408fs	NAP1L2_uc011mqj.1_Frame_Shift_Ins_p.F266fs	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	408					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					CATCACCTGAGAAAAATAATAC	0.356													21	43	---	---	---	---						.	A	72433106	A	A	72433105	7	5	128	1	0	1	1	0	0	0	0	0	10175	933	33	0	162	0	NAP1L2	23	72433105	Frame_Shift_Ins	INS	-	TCGA-CG-4306-01A-01D-1158-08	8294072	72433105	82837455	1135	71423											
PCDH19	57526	broad.mit.edu	37	chrX	99662749	99662749	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagagctcgcgcgtgcggtCgttgacgtagccatagaagg	10	7	15	9	6	0	3	0	1	0	2	2	3	0	3	1	2	3	3	1	2	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:99662749C>T	uc010nmz.2	-	1	2523	c.847G>A	c.(847-849)GAC>AAC	p.D283N	PCDH19_uc004efw.3_Missense_Mutation_p.D283N|PCDH19_uc004efx.3_Missense_Mutation_p.D283N	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	283	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CGCGTGCGGTCGTTGACGTAG	0.602													41	47					0	0	0.009718	0	0		T	99662749	T	T	99662749	3	4	128	1	0	0	0	0	1	0	0	0	11533	884	31	1	2623	1	PCDH19	23	99662749	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	27229644	99662749	55607811	1136	71424											
GPRASP2	114928	broad.mit.edu	37	chrX	101971337	101971337	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttccgatccacaagccccTttggaattcccgaagaggct	9	9	9	14	2	0	1	0	0	0	1	3	4	3	2	5	2	1	2	5	2	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:101971337T>G	uc004ejk.2	+	4	2874	c.1540T>G	c.(1540-1542)TTT>GTT	p.F514V	GPRASP2_uc004ejl.2_Missense_Mutation_p.F514V|GPRASP2_uc004ejm.2_Missense_Mutation_p.F514V|GPRASP2_uc011mrp.1_5'Flank	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	514						cytoplasm	protein binding			ovary(1)	1						CACAAGCCCCTTTGGAATTCC	0.512													59	45					0	0	0.01441	0	0		G	101971337	G	G	101971337	3	3	128	1	0	0	0	0	1	0	0	0	6739	1609	56	5	1542	5	GPRASP2	23	101971337	Missense_Mutation	SNP	T	TCGA-CG-4306-01A-01D-1158-08	2308588	101971337	53299223	1137	71425											
COL4A6	1288	broad.mit.edu	37	chrX	107402789	107402789	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaatggcttgcgagggtGcctcacacacagagcagcgg	10	5	14	12	2	1	1	1	0	0	1	1	2	1	1	1	3	5	3	1	3	1	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:107402789G>A	uc004enw.3	-	44	4821	c.4718C>T	c.(4717-4719)GCA>GTA	p.A1573V	COL4A6_uc004env.3_Missense_Mutation_p.A1572V|COL4A6_uc011msn.1_Missense_Mutation_p.A1548V|COL4A6_uc010npk.2_Missense_Mutation_p.A1515V|COL4A6_uc011msm.1_Missense_Mutation_p.A107V|COL4A6_uc010npj.2_Missense_Mutation_p.A52V	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1573	Collagen IV NC1.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						TTGCGAGGGTGCCTCACACAC	0.592									Alport_syndrome_with_Diffuse_Leiomyomatosis				17	21					0	0	0.019004	0	0		A	107402789	A	A	107402789	3	1	128	1	0	0	0	0	1	0	0	0	3698	1319	46	2	365	2	COL4A6	23	107402789	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5431452	107402789	47867771	1138	71426											
IRS4	8471	broad.mit.edu	37	chrX	107979542	107979542	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacctcttagtcttcttgtCgcttggtcgcgagtgaagga	6	13	12	10	3	3	1	0	1	3	0	5	3	3	2	1	2	0	2	1	2	2	4			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:107979542C>T	uc004eoc.2	-	1	66	c.33G>A	c.(31-33)GCG>GCA	p.A11A		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	11						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						GTCTTCTTGTCGCTTGGTCGC	0.597													26	22					0	0	0.010818	0	0		T	107979542	T	T	107979542	2	4	128	1	0	0	0	0	0	0	0	1	7858	871	31	1		1	IRS4	23	107979542	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	576753	107979542	47291018	1139	71427											
CAPN6	827	broad.mit.edu	37	chrX	110495724	110495724	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggcctcataacagcctagCagcctgagggcaagtatgca	12	6	12	11	0	1	1	1	1	0	0	1	1	1	1	3	2	5	4	3	2	4	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:110495724C>A	uc004epc.1	-	5	678	c.510G>T	c.(508-510)CTG>CTT	p.L170L	CAPN6_uc011msu.1_Intron	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	170	Calpain catalytic.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						AACAGCCTAGCAGCCTGAGGG	0.423													30	24					1.08312e-15	1.16186e-15	0.009535	1	0		A	110495724	A	A	110495724	2	1	128	1	0	0	0	0	0	0	0	1	2633	697	25	5		5	CAPN6	23	110495724	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	2516182	110495724	44774836	1140	71428											
DCAF12L1	139170	broad.mit.edu	37	chrX	125686397	125686397	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgaagccctggagcctggcGgggccccacccgcctacctc	5	5	12	19	3	0	0	0	0	0	0	2	2	0	1	7	4	3	0	7	4	2	1			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:125686397G>A	uc004eul.2	-	1	446	c.195C>T	c.(193-195)CCC>CCT	p.P65P		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	65										skin(3)|ovary(1)	4						GGAGCCTGGCGGGGCCCCACC	0.687													35	34					0	0	0.01441	0	0		A	125686397	A	A	125686397	2	1	128	1	0	0	0	0	0	0	0	1	4267	1103	39	1		1	DCAF12L1	23	125686397	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	15190673	125686397	29584163	1141	71429											
ACTRT1	139741	broad.mit.edu	37	chrX	127185702	127185702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatggggacagtgcaagtgaCcccatctccactgtccacca	10	7	10	14	0	1	1	0	1	1	0	3	3	2	2	5	2	1	1	5	2	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:127185702C>T	uc004eum.2	-	1	681	c.484G>A	c.(484-486)GTC>ATC	p.V162I		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	162						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						GTGCAAGTGACCCCATCTCCA	0.577													86	90					0	0	0.01441	0	0		T	127185702	T	T	127185702	3	4	128	1	0	0	0	0	1	0	0	0	218	507	18	4	650	4	ACTRT1	23	127185702	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	1499305	127185702	28084858	1142	71430											
GPC3	2719	broad.mit.edu	37	chrX	132887949	132887949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcacgtcttgctcctcggaGgcactcattgatgtccaagg	7	11	11	12	2	3	1	2	1	1	0	6	2	5	2	2	3	1	2	2	3	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:132887949G>A	uc004exe.1	-	3	782	c.592C>T	c.(592-594)CTC>TTC	p.L198F	GPC3_uc004exd.1_Missense_Mutation_p.L70F|GPC3_uc010nrn.1_Missense_Mutation_p.L198F|GPC3_uc011mvh.1_Missense_Mutation_p.L182F|GPC3_uc010nro.1_Missense_Mutation_p.L144F|GPC3_uc010nrp.1_Missense_Mutation_p.L70F	NM_004484	NP_004475	P51654	GPC3_HUMAN	glypican 3 isoform 2 precursor	198						extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding|peptidyl-dipeptidase inhibitor activity			lung(2)|prostate(1)|breast(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					GCTCCTCGGAGGCACTCATTG	0.468			T|D|Mis|N|F|S			Wilms tumour			Simpson-Golabi-Behmel_syndrome				24	206					0	0	0.01892	0	0		A	132887949	A	A	132887949	3	1	128	1	0	0	0	0	1	0	0	0	6614	1000	35	4	1247	4	GPC3	23	132887949	Missense_Mutation	SNP	G	TCGA-CG-4306-01A-01D-1158-08	5702247	132887949	22382611	1143	71431											
MAGEA1	4100	broad.mit.edu	37	chrX	152482987	152482987	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcctcaggcttgcagtgCagactcctctgctcaagaga	8	10	10	13	0	3	2	2	0	1	2	5	3	5	2	2	1	3	5	2	1	1	2			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:152482987C>T	uc004fhf.2	-	3	244	c.24G>A	c.(22-24)CTG>CTA	p.L8L		NM_004988	NP_004979	P43355	MAGA1_HUMAN	melanoma antigen family A, 1	8						cytoplasm|plasma membrane				central_nervous_system(7)|ovary(1)|lung(1)|breast(1)	10	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCTTGCAGTGCAGACTCCTCT	0.627													7	77					0	0	0.00308	0	0		T	152482987	T	T	152482987	2	4	128	1	0	0	0	0	0	0	0	1	9181	697	25	2		2	MAGEA1	23	152482987	Silent	SNP	C	TCGA-CG-4306-01A-01D-1158-08	19595038	152482987	2787573	1144	71432											
DUSP9	1852	broad.mit.edu	37	chrX	152915111	152915111	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggagccagaacctgtcGcggttctttccggaggccat	7	9	12	13	3	1	1	0	0	1	1	3	3	2	3	4	4	2	1	4	4	1	2	rs137969779	byFrequency	TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:152915111G>A	uc004fhx.3	+	3	1002	c.798G>A	c.(796-798)TCG>TCA	p.S266S	DUSP9_uc004fhy.3_Silent_p.S266S	NM_001395	NP_001386	Q99956	DUS9_HUMAN	dual specificity phosphatase 9	266	Tyrosine-protein phosphatase.				inactivation of MAPK activity|JNK cascade	cytosol|endoplasmic reticulum|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)	2	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGAACCTGTCGCGGTTCTTTC	0.572													47	68					0	0	0.01441	0	0		A	152915111	A	A	152915111	2	1	128	1	0	0	0	0	0	0	0	1	4838	1074	38	1		1	DUSP9	23	152915111	Silent	SNP	G	TCGA-CG-4306-01A-01D-1158-08	432124	152915111	2355449	1145	71433											
HCFC1	3054	broad.mit.edu	37	chrX	153219639	153219639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggagccagcagcgcggtgCcagcctggggggtgacgctg	7	4	19	11	3	0	1	0	1	0	0	0	2	0	2	3	5	5	2	3	5	1	0			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:153219639C>T	uc004fjp.2	-	17	4739	c.4211G>A	c.(4210-4212)GGC>GAC	p.G1404D		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1404					cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CAGCGCGGTGCCAGCCTGGGG	0.677													4	33					0	0	0.009096	0	0		T	153219639	T	T	153219639	3	4	128	1	0	0	0	0	1	0	0	0	7007	739	26	2	1936	2	HCFC1	23	153219639	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	304528	153219639	2050921	1146	71434											
FLNA	2316	broad.mit.edu	37	chrX	153596065	153596065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcctctcgcgcattggtaaCgggcttgctggcgtcccaag	5	9	14	13	4	1	0	0	0	1	0	3	0	2	0	2	4	2	4	2	4	2	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:153596065C>T	uc004fkk.2	-	4	913	c.664G>A	c.(664-666)GTT>ATT	p.V222I	FLNA_uc010nuu.1_Missense_Mutation_p.V222I	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	222	CH 2.|Actin-binding.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GCATTGGTAACGGGCTTGCTG	0.677													57	70					0	0	0.01441	0	0		T	153596065	T	T	153596065	3	4	128	1	0	0	0	0	1	0	0	0	5947	536	19	1	7459	1	FLNA	23	153596065	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	376426	153596065	1674495	1147	71435											
PLXNA3	55558	broad.mit.edu	37	chrX	153693146	153693146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccactggtgtaagtacCgccacacgtgtaccagccgc	8	7	10	16	3	0	0	0	0	0	0	0	0	0	0	6	1	4	3	6	1	3	3			TCGA-CG-4306-01A-01D-1158-08	TCGA-CG-4306-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	87515ac6-17e2-43ac-a6ed-af54e8fa3e8f	c6b012b4-95e2-4c81-a11d-931c8a2ba665	g.chrX:153693146C>T	uc004flm.2	+	10	2151	c.1978C>T	c.(1978-1980)CGC>TGC	p.R660C		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	660	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GTGTAAGTACCGCCACACGTG	0.647													8	7					0	0	0.004482	0	0		T	153693146	T	T	153693146	3	4	128	1	0	0	0	0	1	0	0	0	12140	652	23	1	2012	1	PLXNA3	23	153693146	Missense_Mutation	SNP	C	TCGA-CG-4306-01A-01D-1158-08	97081	153693146	1577414	1148	71436											
PRAMEF4	400735	broad.mit.edu	37	chr1	12942129	12942129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgccgtcctctcatccttgGacagtcctccactggttttt	4	15	7	15	1	1	0	1	0	1	0	6	1	5	1	5	2	1	1	5	2	0	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:12942129G>A	uc001aun.2	-	3	492	c.421C>T	c.(421-423)CCA>TCA	p.P141S		NM_001009611	NP_001009611	O60810	PRAM4_HUMAN	PRAME family member 4	141										ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CTCATCCTTGGACAGTCCTCC	0.502													34	283					0	0	0.004289	0	0		A	12942129	A	A	12942129	3	1	129	1	0	0	0	0	1	0	0	0	12459	1174	41	4	1023	4	PRAMEF4	1	12942129	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08		12942129	236308492	1	71437											
DMAP1	55929	broad.mit.edu	37	chr1	44684864	44684864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagcagcggcgcacggaacGcaaggcccccaaaaagaagc	15	0	13	13	4	0	2	0	0	0	2	0	3	0	3	2	3	4	3	2	3	5	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:44684864G>A	uc001clq.1	+	7	937	c.857G>A	c.(856-858)CGC>CAC	p.R286H	DMAP1_uc001clr.1_Missense_Mutation_p.R286H|DMAP1_uc001cls.1_Missense_Mutation_p.R286H|DMAP1_uc010oku.1_Missense_Mutation_p.R276H	NM_001034024	NP_001029196	Q9NPF5	DMAP1_HUMAN	DNA methyltransferase 1 associated protein 1	286					DNA methylation|histone H2A acetylation|histone H4 acetylation|negative regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex	DNA binding|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					CGCACGGAACGCAAGGCCCCC	0.612													6	53					0	0	0.001984	0	0		A	44684864	A	A	44684864	3	1	129	1	0	0	0	0	1	0	0	0	4582	1087	38	1	879	1	DMAP1	1	44684864	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	31742735	44684864	204565757	2	71438											
LRRIQ3	127255	broad.mit.edu	37	chr1	74621486	74621486	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactggtgaattatgagccAgaattgcattaatttttgaa	15	14	8	4	0	0	4	0	3	0	1	0	4	0	4	1	1	3	1	1	1	6	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:74621486A>G	uc001dfy.3	-	4	830	c.638T>C	c.(637-639)CTG>CCG	p.L213P	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	213										ovary(2)	2						ATTATGAGCCAGAATTGCATT	0.244													4	18					0	0	0.000602	0	0		G	74621486	G	G	74621486	3	3	129	1	0	0	0	0	1	0	0	0	9048	188	7	3	1256	3	LRRIQ3	1	74621486	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	29936622	74621486	174629135	3	71439											
DRAM2	128338	broad.mit.edu	37	chr1	111663184	111663184	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ataaccaacaacagtctgatCcagaagacttgtttgccatg	14	10	7	10	0	1	3	0	1	1	2	2	3	2	3	3	0	4	1	3	0	4	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:111663184C>G	uc001ead.3	-	6	728	c.471G>C	c.(469-471)TGG>TGC	p.W157C	DRAM2_uc001eae.3_Missense_Mutation_p.W157C|DRAM2_uc009wfy.2_RNA|DRAM2_uc001eaf.3_Missense_Mutation_p.W27C	NM_178454	NP_848549	Q6UX65	DRAM2_HUMAN	transmembrane protein 77	157					apoptosis|induction of apoptosis	Golgi apparatus|integral to membrane|lysosomal membrane					0						ACAGTCTGATCCAGAAGACTT	0.423													3	52					0	0	0.004672	0	0		G	111663184	G	G	111663184	3	3	129	1	0	0	0	0	1	0	0	0	4760	856	30	5	345	5	DRAM2	1	111663184	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	37041698	111663184	137587437	4	71440											
FLG	2312	broad.mit.edu	37	chr1	152284662	152284662	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggagccgtctcttgattgTtcctcattacgtgttgttct	4	18	9	10	2	3	1	1	1	2	0	5	2	4	2	2	1	2	3	2	1	1	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:152284662T>C	uc001ezu.1	-	3	2736	c.2700A>G	c.(2698-2700)GAA>GAG	p.E900E	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	900	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTCTTGATTGTTCCTCATTAC	0.562									Ichthyosis				37	689					0	0	0.005524	0	0		C	152284662	C	C	152284662	2	2	129	1	0	0	0	0	0	0	0	1	5936	1722	60	3		3	FLG	1	152284662	Silent	SNP	T	TCGA-CG-4436-01A-01D-1158-08	40621478	152284662	96965959	5	71441											
LCE2C	353140	broad.mit.edu	37	chr1	152648577	152648577	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaatgtccacctaagtgtcCccccaaatgcccaccacagt	13	7	5	16	0	0	0	0	0	0	0	2	0	2	0	7	0	1	0	7	0	4	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:152648577C>G	uc001fah.2	+	2	141	c.86C>G	c.(85-87)CCC>CGC	p.P29R		NM_178429	NP_848516	Q5TA81	LCE2C_HUMAN	late cornified envelope 2C	29	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			cctaagtgtccccccaaATGC	0.438													26	241					0	0	0.005443	0	0		G	152648577	G	G	152648577	3	3	129	1	0	0	0	0	1	0	0	0	8683	623	22	5	88	5	LCE2C	1	152648577	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	363915	152648577	96602044	6	71442											
FCRL2	79368	broad.mit.edu	37	chr1	157739893	157739893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggctcactggacccccttCgatgggctggaaggagctgg	7	7	15	12	1	1	0	1	0	0	0	2	4	1	3	2	6	1	3	2	6	1	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:157739893C>T	uc001fre.2	-	4	417	c.358G>A	c.(358-360)GAA>AAA	p.E120K	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Missense_Mutation_p.E120K|FCRL2_uc009wsp.2_Intron|FCRL2_uc010pia.1_Missense_Mutation_p.E120K	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	120	Extracellular (Potential).|Ig-like C2-type 2.				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GGACCCCCTTCGATGGGCTGG	0.532													5	87					0	0	0.001984	0	0		T	157739893	T	T	157739893	3	4	129	1	0	0	0	0	1	0	0	0	5809	893	31	1	1204	1	FCRL2	1	157739893	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	5091316	157739893	91510728	7	71443											
ADAMTS4	9507	broad.mit.edu	37	chr1	161166028	161166028	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatggcacagctccgagcCgggtcacagacggtgcccac	10	4	12	15	3	1	1	1	0	0	1	2	2	2	1	3	3	3	2	3	3	1	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:161166028C>T	uc001fyt.3	-	3	1451	c.1023G>A	c.(1021-1023)CCG>CCA	p.P341P	ADAMTS4_uc001fyu.2_3'UTR	NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	341	Peptidase M12B.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			AGCTCCGAGCCGGGTCACAGA	0.562													30	38					0	0	0.012213	0	0		T	161166028	T	T	161166028	2	4	129	1	0	0	0	0	0	0	0	1	268	639	23	1		1	ADAMTS4	1	161166028	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	3426135	161166028	88084593	8	71444											
PAPPA2	60676	broad.mit.edu	37	chr1	176668713	176668713	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgacacattctcacaggaAgttcacggacgtgtgagttt	10	11	12	8	2	2	2	2	2	1	0	3	4	2	4	0	3	0	2	0	3	1	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:176668713A>C	uc001gkz.2	+	8	4388	c.3224A>C	c.(3223-3225)AAG>ACG	p.K1075T	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1075					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TCTCACAGGAAGTTCACGGAC	0.537													25	269					0	0	0.009535	0	0		C	176668713	C	C	176668713	3	2	129	1	0	0	0	0	1	0	0	0	11452	72	3	5	3303	5	PAPPA2	1	176668713	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	15502685	176668713	72581908	9	71445											
B3GALT2	8707	broad.mit.edu	37	chr1	193150565	193150565	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccagtcatgatgattgAaaaacaaaaacatagcaaaa	21	6	7	7	0	1	3	1	3	0	0	1	3	1	3	1	0	4	2	1	0	7	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:193150565A>T	uc001gtc.3	-	2	843	c.128T>A	c.(127-129)TTC>TAC	p.F43Y	CDC73_uc001gtb.2_Intron	NM_003783	NP_003774	O43825	B3GT2_HUMAN	UDP-Gal:betaGlcNAc beta	43	Helical; Signal-anchor for type II membrane protein; (Potential).				protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1						ATGATGATTGAAAAACAAAAA	0.418													10	78					0	0	0.006214	0	0		T	193150565	T	T	193150565	3	4	129	1	0	0	0	0	1	0	0	0	1249	246	9	5	1144	5	B3GALT2	1	193150565	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	16481852	193150565	56100056	10	71446											
KCNT2	343450	broad.mit.edu	37	chr1	196250003	196250003	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaaacctcagatgtagtaAgtttctgagactcagtcctg	11	12	8	10	0	3	2	2	1	1	2	5	3	5	2	3	0	1	3	3	0	3	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:196250003A>G	uc001gtd.1	-	25	2957	c.2897T>C	c.(2896-2898)CTT>CCT	p.L966P	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.L892P|KCNT2_uc001gtf.1_Missense_Mutation_p.L942P|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.L942P|KCNT2_uc001gth.1_Missense_Mutation_p.L463P	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	966	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						AGATGTAGTAAGTTTCTGAGA	0.328													9	64					0	0	0.008291	0	0		G	196250003	G	G	196250003	3	3	129	1	0	0	0	0	1	0	0	0	8108	72	3	3	526	3	KCNT2	1	196250003	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	3099438	196250003	53000618	11	71447											
ZNF281	23528	broad.mit.edu	37	chr1	200377112	200377112	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggtgcctcattgtccaaAacactgacacctgcagactg	12	9	8	12	0	1	2	1	1	0	1	2	2	2	2	3	1	3	1	3	1	3	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:200377112A>C	uc001gve.2	-	2	1829	c.1722T>G	c.(1720-1722)GTT>GTG	p.V574V	ZNF281_uc001gvf.1_Silent_p.V574V|ZNF281_uc001gvg.1_Silent_p.V538V	NM_012482	NP_036614	Q9Y2X9	ZN281_HUMAN	zinc finger protein 281	574					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)	2						CATTGTCCAAAACACTGACAC	0.423													6	42					0	0	0.001168	0	0		C	200377112	C	C	200377112	2	2	129	1	0	0	0	0	0	0	0	1	17843	1	1	5		5	ZNF281	1	200377112	Silent	SNP	A	TCGA-CG-4436-01A-01D-1158-08	4127109	200377112	48873509	12	71448											
CR1	1378	broad.mit.edu	37	chr1	207684998	207684998	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaaacacctatttgtgaCagtgagttgaaatatccctt	14	13	7	7	0	0	4	0	4	0	0	1	4	1	4	2	0	1	1	2	0	5	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:207684998C>G	uc001hfy.2	+	4	626	c.486C>G	c.(484-486)GAC>GAG	p.D162E	CR1_uc009xcl.1_Missense_Mutation_p.D162E|CR1_uc001hfx.2_Missense_Mutation_p.D162E|CR1_uc009xcj.1_Missense_Mutation_p.D162E|CR1_uc009xck.1_Missense_Mutation_p.D162E	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	162	Extracellular (Potential).|Sushi 2.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						CTATTTGTGACAGtgagttga	0.214													9	65					0	0	0.004482	0	0		G	207684998	G	G	207684998	3	3	129	1	0	0	0	0	1	0	0	0	3843	492	17	5	500	5	CR1	1	207684998	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	7307886	207684998	41565623	13	71449											
LIN9	286826	broad.mit.edu	37	chr1	226475499	226475499	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacattgttgctgtaaatttCtatacaataaaaaaaagaga	19	12	6	4	0	1	1	0	0	1	1	1	3	1	1	0	0	2	3	0	0	9	7			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:226475499C>T	uc001hqa.2	-	5	623	c.313_splice	c.e5-1	p.K105_splice	LIN9_uc001hqb.2_Splice_Site_p.K70_splice|LIN9_uc001hqc.2_Splice_Site_p.K37_splice|LIN9_uc009xel.1_Splice_Site_p.K70_splice	NM_173083	NP_775106	Q5TKA1	LIN9_HUMAN	lin-9 homolog						cell cycle|DNA replication	nucleoplasm					0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.131)		CTGTAAATTTCTATACAATAA	0.294													9	71					0	0	0.006214	0	0		T	226475499	T	T	226475499	5	4	129	1	0	0	0	0	0	0	1	0	8830	927	32	4	1408	4	LIN9	1	226475499	Splice_Site	SNP	C	TCGA-CG-4436-01A-01D-1158-08	18790501	226475499	22775122	14	71450											
ACTA1	58	broad.mit.edu	37	chr1	229568156	229568156	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacgttgtgggtgacgccGtcgccggagtccagcacgat	6	7	16	12	6	0	1	0	1	0	0	2	3	1	2	3	3	1	3	3	3	0	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:229568156G>A	uc001htm.2	-	4	582	c.477C>T	c.(475-477)GAC>GAT	p.D159D		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	159					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	GGGTGACGCCGTCGCCGGAGT	0.637													6	56					0	0	0.001984	0	0		A	229568156	A	A	229568156	2	1	129	1	0	0	0	0	0	0	0	1	191	1136	40	1		1	ACTA1	1	229568156	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	3092657	229568156	19682465	15	71451											
ACTN2	88	broad.mit.edu	37	chr1	236902755	236902755	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatgccagctggagatcAacttcaacacgctgcagacc	14	6	9	12	1	2	3	2	0	0	3	2	4	2	3	2	1	5	3	2	1	3	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:236902755A>G	uc001hyf.2	+	10	1234	c.1030A>G	c.(1030-1032)AAC>GAC	p.N344D	ACTN2_uc001hyg.2_Missense_Mutation_p.N136D|ACTN2_uc009xgi.1_Missense_Mutation_p.N344D|ACTN2_uc010pxu.1_Intron|ACTN2_uc001hyh.2_Missense_Mutation_p.N32D	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	344	Spectrin 1.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GCTGGAGATCAACTTCAACAC	0.582													9	110					0	0	0.010729	0	0		G	236902755	G	G	236902755	3	3	129	1	0	0	0	0	1	0	0	0	205	130	5	3	1068	3	ACTN2	1	236902755	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	7334599	236902755	12347866	16	71452											
ACTN2	88	broad.mit.edu	37	chr1	236910982	236910982	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagtgaactggactatcaCgacgctgtgaatgtcaatga	14	10	10	7	2	2	3	2	3	0	0	2	5	2	4	0	1	1	1	0	1	6	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:236910982C>T	uc001hyf.2	+	13	1626	c.1422C>T	c.(1420-1422)CAC>CAT	p.H474H	ACTN2_uc001hyg.2_Silent_p.H266H|ACTN2_uc009xgi.1_Silent_p.H474H|ACTN2_uc010pxu.1_Silent_p.H163H|ACTN2_uc001hyh.2_Silent_p.H162H	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	474	Spectrin 2.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			TGGACTATCACGACGCTGTGA	0.408													4	40					0	0	0.000602	0	0		T	236910982	T	T	236910982	2	4	129	1	0	0	0	0	0	0	0	1	205	535	19	1		1	ACTN2	1	236910982	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	8227	236910982	12339639	17	71453											
TRIM58	25893	broad.mit.edu	37	chr1	248020713	248020713	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgcgcagggcggcgtctaCgcctgtccgcagtgccgggg	3	5	19	14	7	1	0	0	0	1	0	2	0	2	0	3	5	2	2	3	5	1	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr1:248020713C>T	uc001ido.2	+	1	213	c.165C>T	c.(163-165)TAC>TAT	p.Y55Y		NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	55	RING-type.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GCGGCGTCTACGCCTGTCCGC	0.701													5	13					0	0	0.001168	0	0		T	248020713	T	T	248020713	2	4	129	1	0	0	0	0	0	0	0	1	16557	547	19	1		1	TRIM58	1	248020713	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	11109731	248020713	1229908	18	71454											
WDR43	23160	broad.mit.edu	37	chr2	29137031	29137031	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgatggaattacaggtcttTatttcttatctggagcagta	10	17	9	5	0	3	1	0	1	3	0	3	3	3	3	0	3	2	2	0	3	5	7			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:29137031T>C	uc002rmo.2	+	5	735	c.703T>C	c.(703-705)TAT>CAT	p.Y235H		NM_015131	NP_055946	Q15061	WDR43_HUMAN	WD repeat domain 43	235	WD 5.					nucleolus				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TACAGGTCTTTATTTCTTATC	0.428													6	47					0	0	0.001168	0	0		C	29137031	C	C	29137031	3	2	129	1	0	0	0	0	1	0	0	0	17321	1754	61	3	721	3	WDR43	2	29137031	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08		29137031	214062342	19	71455											
TTC27	55622	broad.mit.edu	37	chr2	32958967	32958967	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agattttctattgctgtcaaGtaccacctcactgggccatt	9	14	7	11	0	3	1	2	0	1	1	3	1	3	1	3	1	2	2	3	1	3	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:32958967G>T	uc002rom.2	+	11	1537	c.1306G>T	c.(1306-1308)GTA>TTA	p.V436L	TTC27_uc010ymx.1_Missense_Mutation_p.V386L|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	436							protein binding			central_nervous_system(1)	1						TTGCTGTCAAGTACCACCTCA	0.353													16	124					2.94398e-08	3.16446e-08	0.007413	1	0		T	32958967	T	T	32958967	3	4	129	1	0	0	0	0	1	0	0	0	16721	1029	36	5	1348	5	TTC27	2	32958967	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	3821936	32958967	210240406	20	71456											
LTBP1	4052	broad.mit.edu	37	chr2	33623444	33623444	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgcagatgtaaatgaatgCgatgagttgaacaaccggat	15	10	11	5	2	0	4	0	3	0	1	0	6	0	5	1	1	4	3	1	1	5	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:33623444C>T	uc002ros.2	+	34	5001	c.5001C>T	c.(4999-5001)TGC>TGT	p.C1667C	LTBP1_uc002rot.2_Silent_p.C1341C|LTBP1_uc002rou.2_Silent_p.C1340C|LTBP1_uc002rov.2_Silent_p.C1287C|LTBP1_uc010ymz.1_Silent_p.C1298C|LTBP1_uc010yna.1_Silent_p.C1245C|LTBP1_uc010ynb.1_Silent_p.C564C	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1666	EGF-like 18; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				TAAATGAATGCGATGAGTTGA	0.463													28	55					0	0	0.009535	0	0		T	33623444	T	T	33623444	2	4	129	1	0	0	0	0	0	0	0	1	9091	776	27	1		1	LTBP1	2	33623444	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	664477	33623444	209575929	21	71457											
ST6GAL2	84620	broad.mit.edu	37	chr2	107450508	107450508	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactccatctgtcttacctgCgaattaatgatgcgtatggt	9	14	8	10	2	2	1	0	1	2	0	3	2	3	1	2	1	3	1	2	1	4	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:107450508C>T	uc002tdq.2	-	3	1157	c.1038G>A	c.(1036-1038)TCG>TCA	p.S346S	ST6GAL2_uc002tdr.2_Silent_p.S346S|ST6GAL2_uc002tds.3_Silent_p.S346S	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	346	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						GTCTTACCTGCGAATTAATGA	0.388													8	114					0	0	0.00308	0	0		T	107450508	T	T	107450508	2	4	129	1	0	0	0	0	0	0	0	1	15247	755	27	1		1	ST6GAL2	2	107450508	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	73827064	107450508	135748865	22	71458											
CCDC138	165055	broad.mit.edu	37	chr2	109429148	109429148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctaaaagagttcaagctcGtttagataatttacaggtaa	15	12	9	5	1	1	2	1	0	0	2	2	2	1	2	0	2	2	5	0	2	7	8			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:109429148G>A	uc002ten.1	+	8	977	c.917G>A	c.(916-918)CGT>CAT	p.R306H	CCDC138_uc002teo.1_Missense_Mutation_p.R306H|CCDC138_uc002tep.1_5'UTR|CCDC138_uc010fjm.1_5'UTR	NM_144978	NP_659415	Q96M89	CC138_HUMAN	coiled-coil domain containing 138	306	Potential.										0						GTTCAAGCTCGTTTAGATAAT	0.318													10	79					0	0	0.008291	0	0		A	109429148	A	A	109429148	3	1	129	1	0	0	0	0	1	0	0	0	2775	1145	40	1	947	1	CCDC138	2	109429148	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	1978640	109429148	133770225	23	71459											
NCKAP5	344148	broad.mit.edu	37	chr2	133542769	133542769	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggacagctgctggcgcaacTtgtcagcttttcaggccttt	6	12	12	11	1	2	0	2	0	0	0	2	1	2	1	1	3	4	4	1	3	1	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:133542769T>G	uc002ttp.2	-	14	1989	c.1615A>C	c.(1615-1617)AGT>CGT	p.S539R	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	539							protein binding				0						CTGGCGCAACTTGTCAGCTTT	0.552													23	132					0	0	0.004656	0	0		G	133542769	G	G	133542769	3	3	129	1	0	0	0	0	1	0	0	0	10242	1609	56	5	4142	5	NCKAP5	2	133542769	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	24113621	133542769	109656604	24	71460											
XIRP2	129446	broad.mit.edu	37	chr2	168103323	168103323	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtactgttagtgaaactgaCatcatccctggagatgtgca	11	11	10	9	1	1	3	1	2	0	1	2	4	2	3	1	1	3	3	1	1	3	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:168103323C>G	uc002udx.2	+	8	5439	c.5421C>G	c.(5419-5421)GAC>GAG	p.D1807E	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.D1632E|XIRP2_uc010fpq.2_Missense_Mutation_p.D1585E|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1632					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GTGAAACTGACATCATCCCTG	0.388													52	97					0	0	0.01441	0	0		G	168103323	G	G	168103323	3	3	129	1	0	0	0	0	1	0	0	0	17456	477	17	5	5451	5	XIRP2	2	168103323	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	34560554	168103323	75096050	25	71461											
MYO3B	140469	broad.mit.edu	37	chr2	171323173	171323173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggagacagtcagcatccGccgccagggctattcccacc	8	7	10	16	2	2	1	1	0	1	1	4	2	4	1	5	2	1	2	5	2	1	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:171323173G>A	uc002ufy.2	+	25	3109	c.2966G>A	c.(2965-2967)CGC>CAC	p.R989H	MYO3B_uc002ufv.2_Missense_Mutation_p.R976H|MYO3B_uc010fqb.1_Missense_Mutation_p.R976H|MYO3B_uc002ufz.2_Missense_Mutation_p.R989H|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_Intron	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	989	Myosin head-like.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						GTCAGCATCCGCCGCCAGGGC	0.522													26	74					0	0	0.003271	0	0		A	171323173	A	A	171323173	3	1	129	1	0	0	0	0	1	0	0	0	10095	1087	38	1	3064	1	MYO3B	2	171323173	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	3219850	171323173	71876200	26	71462											
TTN	7273	broad.mit.edu	37	chr2	179438783	179438783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atccacctttatctttggtgCctcaacatcatccctgcaag	9	13	5	14	0	3	0	2	0	1	0	5	0	5	0	4	1	3	1	4	1	3	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:179438783C>T	uc010zfg.1	-	275	64596	c.64372G>A	c.(64372-64374)GCA>ACA	p.A21458T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A15153T|TTN_uc010zfi.1_Missense_Mutation_p.A15086T|TTN_uc010zfj.1_Missense_Mutation_p.A14961T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22385							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATCTTTGGTGCCTCAACATCA	0.468													23	48					0	0	0.012319	0	0		T	179438783	T	T	179438783	3	4	129	1	0	0	0	0	1	0	0	0	16761	739	26	2	36051	2	TTN	2	179438783	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	8115610	179438783	63760590	27	71463											
TTN	7273	broad.mit.edu	37	chr2	179495978	179495978	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtagaataacttcatctttCtctacaccagtataatcttg	12	16	4	9	0	4	1	1	0	3	1	5	1	4	1	1	0	2	2	1	0	6	8			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:179495978C>G	uc010zfg.1	-	186	36317	c.36093G>C	c.(36091-36093)GAG>GAC	p.E12031D	TTN_uc010zfh.1_Missense_Mutation_p.E5726D|TTN_uc010zfi.1_Missense_Mutation_p.E5659D|TTN_uc010zfj.1_Missense_Mutation_p.E5534D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12958							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTCATCTTTCTCTACACCAG	0.353													4	26					0	0	0.009096	0	0		G	179495978	G	G	179495978	3	3	129	1	0	0	0	0	1	0	0	0	16761	912	32	5	64400	5	TTN	2	179495978	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	57195	179495978	63703395	28	71464											
ERBB4	2066	broad.mit.edu	37	chr2	212426722	212426722	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggcagccatggggcataAgttgagtaaccagctggatg	12	7	14	8	0	0	1	0	1	0	0	0	2	0	2	2	4	3	5	2	4	2	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:212426722A>G	uc002veg.1	-	20	2491	c.2393T>C	c.(2392-2394)CTT>CCT	p.L798P	ERBB4_uc002veh.1_Missense_Mutation_p.L798P|ERBB4_uc010zji.1_Missense_Mutation_p.L788P|ERBB4_uc010zjj.1_Missense_Mutation_p.L788P|ERBB4_uc010fut.1_Missense_Mutation_p.L798P	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	798	ATP (By similarity).|Protein kinase.|Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		ATGGGGCATAAGTTGAGTAAC	0.493										TSP Lung(8;0.080)			11	130					0	0	0.010729	0	0		G	212426722	G	G	212426722	3	3	129	1	0	0	0	0	1	0	0	0	5217	72	3	3	1569	3	ERBB4	2	212426722	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	32930744	212426722	30772651	29	71465											
ABCA12	26154	broad.mit.edu	37	chr2	215818800	215818800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgggaaaatcaggaaaatgCgcttgagggtttcagaaata	15	9	13	4	1	2	2	2	1	0	1	2	4	2	4	0	3	1	2	0	3	6	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:215818800C>T	uc002vew.2	-	44	6645	c.6425G>A	c.(6424-6426)CGC>CAC	p.R2142H	ABCA12_uc002vev.2_Missense_Mutation_p.R1824H|ABCA12_uc010zjn.1_Missense_Mutation_p.R1069H	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	2142					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		CAGGAAAATGCGCTTGAGGGT	0.333													12	118					0	0	0.001855	0	0		T	215818800	T	T	215818800	3	4	129	1	0	0	0	0	1	0	0	0	30	768	27	1	1402	1	ABCA12	2	215818800	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	3392078	215818800	27380573	30	71466											
CXCR2	3579	broad.mit.edu	37	chr2	219000083	219000083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttacttttccgaaggaccGtctactcatccaatgttagc	9	14	6	12	2	3	0	1	0	2	0	5	2	5	1	3	1	3	1	3	1	5	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:219000083G>A	uc002vgz.1	+	4	784	c.559G>A	c.(559-561)GTC>ATC	p.V187I	CXCR2_uc002vha.1_Missense_Mutation_p.V187I|CXCR2_uc002vhb.1_Missense_Mutation_p.V187I	NM_001557	NP_001548	P25025	CXCR2_HUMAN	interleukin 8 receptor beta	187	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cellular defense response|dendritic cell chemotaxis|inflammatory response|neutrophil activation|neutrophil chemotaxis|positive regulation of cell proliferation	cell surface|integral to plasma membrane|mast cell granule	interleukin-8 receptor activity			lung(1)|breast(1)	2						CCGAAGGACCGTCTACTCATC	0.527													13	105					0	0	0.001855	0	0		A	219000083	A	A	219000083	3	1	129	1	0	0	0	0	1	0	0	0	4094	1145	40	1	561	1	CXCR2	2	219000083	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	3181283	219000083	24199290	31	71467											
ALPP	250	broad.mit.edu	37	chr2	233246019	233246019	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggtcctcctatacggaaaCggtccaggctatgtgctcaa	10	9	10	12	3	1	0	1	0	0	0	4	1	4	1	3	4	3	2	3	4	5	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:233246019C>T	uc002vsq.2	+	10	1416	c.1251C>T	c.(1249-1251)AAC>AAT	p.N417N	ALPP_uc002vsr.2_RNA	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	417						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		TATACGGAAACGGTCCAGGCT	0.657													9	63					0	0	0.003163	0	0		T	233246019	T	T	233246019	2	4	129	1	0	0	0	0	0	0	0	1	548	535	19	1		1	ALPP	2	233246019	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	14245936	233246019	9953354	32	71468											
ANO7	50636	broad.mit.edu	37	chr2	242142897	242142897	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcggggagaaggtggccctCtacttcgcctggctcggtga	5	10	15	11	3	1	2	0	1	1	1	4	3	1	2	2	6	1	1	2	6	2	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr2:242142897C>G	uc002wax.2	+	9	1138	c.1035C>G	c.(1033-1035)CTC>CTG	p.L345L		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	345	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						AGGTGGCCCTCTACTTCGCCT	0.647													3	12					0	0	0.009096	0	0		G	242142897	G	G	242142897	2	3	129	1	0	0	0	0	0	0	0	1	702	900	32	5		5	ANO7	2	242142897	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	8896878	242142897	1056476	33	71469											
MITF	4286	broad.mit.edu	37	chr3	70014029	70014029	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggctcgagctcatggacTttcccttattccatccacgg	7	11	9	14	2	1	0	1	0	0	0	5	2	4	1	3	3	1	3	3	3	1	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:70014029T>C	uc003dnz.2	+	10	1309	c.1193T>C	c.(1192-1194)CTT>CCT	p.L398P	MITF_uc011bgb.1_Missense_Mutation_p.L346P|MITF_uc003doa.2_Missense_Mutation_p.L397P|MITF_uc003dob.2_Missense_Mutation_p.L382P|MITF_uc003dod.2_Missense_Mutation_p.L373P|MITF_uc003doe.2_Missense_Mutation_p.L291P|MITF_uc003dof.2_Missense_Mutation_p.L297P	NM_198159	NP_937802	O75030	MITF_HUMAN	microphthalmia-associated transcription factor	404	DNA binding regulation.				melanocyte differentiation|multicellular organismal development|protein complex assembly	nucleus|protein complex	DNA binding|protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			ovary(2)	2		Lung NSC(201;0.0384)|Prostate(884;0.0526)		BRCA - Breast invasive adenocarcinoma(55;3.07e-05)|Epithelial(33;0.000138)|LUSC - Lung squamous cell carcinoma(21;0.008)|Lung(16;0.0107)|KIRC - Kidney renal clear cell carcinoma(39;0.204)|Kidney(39;0.239)		GCTCATGGACTTTCCCTTATT	0.363			A		melanoma 		Waardenburg syndrome type 2|Tietz syndrome						22	129					0	0	0.003954	0	0		C	70014029	C	C	70014029	3	2	129	1	0	0	0	0	1	0	0	0	9614	1609	56	3	1470	3	MITF	3	70014029	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08		70014029	128008401	34	71470											
ROBO1	6091	broad.mit.edu	37	chr3	78667086	78667086	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcgtcttcttcctcttcTggcgcatccgtatccatatc	4	16	6	15	3	4	0	0	0	4	0	9	0	7	0	3	1	0	3	3	1	2	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:78667086T>C	uc003dqe.2	-	27	4189	c.3981A>G	c.(3979-3981)CCA>CCG	p.P1327P	ROBO1_uc003dqb.2_Silent_p.P1288P|ROBO1_uc003dqc.2_Silent_p.P1227P|ROBO1_uc003dqd.2_Silent_p.P1282P|ROBO1_uc010hoh.2_Silent_p.P519P|ROBO1_uc011bgl.1_Silent_p.P899P	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1327	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		CTTCCTCTTCTGGCGCATCCG	0.557													3	43					0	0	0.001168	0	0		C	78667086	C	C	78667086	2	2	129	1	0	0	0	0	0	0	0	1	13538	1567	55	3		3	ROBO1	3	78667086	Silent	SNP	T	TCGA-CG-4436-01A-01D-1158-08	8653057	78667086	119355344	35	71471											
EPHA3	2042	broad.mit.edu	37	chr3	89259476	89259476	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtgcccatttacagtgaAgaatctggctatgtttccag	12	12	9	8	0	1	2	0	1	1	1	2	2	2	2	2	1	2	2	2	1	5	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:89259476A>C	uc003dqy.2	+	3	845	c.620A>C	c.(619-621)AAG>ACG	p.K207T	EPHA3_uc003dqx.1_Missense_Mutation_p.K207T|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	207	Extracellular (Potential).|Cys-rich.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		TTTACAGTGAAGAATCTGGCT	0.453										TSP Lung(6;0.00050)			14	124					0	0	0.004007	0	0		C	89259476	C	C	89259476	3	2	129	1	0	0	0	0	1	0	0	0	5176	72	3	5	630	5	EPHA3	3	89259476	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	10592390	89259476	108762954	36	71472											
EPHA3	2042	broad.mit.edu	37	chr3	89468391	89468391	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcagtggtcgcttaaaacTtccttcaaaaaaagagattt	14	12	8	7	1	1	1	1	0	0	1	3	2	2	1	1	1	2	2	1	1	5	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:89468391T>G	uc003dqy.2	+	11	2150	c.1925T>G	c.(1924-1926)CTT>CGT	p.L642R	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	642	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		CGCTTAAAACTTCCTTCAAAA	0.393										TSP Lung(6;0.00050)			18	89					0	0	0.012319	0	0		G	89468391	G	G	89468391	3	3	129	1	0	0	0	0	1	0	0	0	5176	1609	56	5	1993	5	EPHA3	3	89468391	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	208915	89468391	108554039	37	71473											
CCDC52	152185	broad.mit.edu	37	chr3	113187981	113187981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaaagagcagatgatggcGttcctggaggagttatttgt	11	12	14	4	1	0	4	0	2	0	2	1	6	1	6	1	3	1	3	1	3	2	3	rs148983792	byFrequency	TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:113187981G>A	uc003eag.3	-	8	1007	c.716C>T	c.(715-717)ACG>ATG	p.T239M	CCDC52_uc003eaf.3_RNA|CCDC52_uc003eah.1_Missense_Mutation_p.T135M	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52	239					cell division|mitosis	centriole|spindle	protein binding				0						AGATGATGGCGTTCCTGGAGG	0.398													32	134					0	0	0.003271	0	0		A	113187981	A	A	113187981	3	1	129	1	0	0	0	0	1	0	0	0	2825	1145	40	1	1895	1	CCDC52	3	113187981	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	23719590	113187981	84834449	38	71474											
GOLGB1	2804	broad.mit.edu	37	chr3	121448164	121448164	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttttagttttttaattttGttatcagcagcttttctctc	7	23	5	6	0	2	0	1	0	1	0	4	0	2	0	0	0	2	5	0	0	3	10			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:121448164G>C	uc003eei.3	-	4	399	c.273C>G	c.(271-273)AAC>AAG	p.N91K	GOLGB1_uc010hrc.2_Missense_Mutation_p.N91K|GOLGB1_uc003eej.3_Missense_Mutation_p.N52K|GOLGB1_uc011bjm.1_Missense_Mutation_p.N52K|GOLGB1_uc010hrd.1_Missense_Mutation_p.N91K	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	91	Potential.|Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TTTTAATTTTGTTATCAGCAG	0.323													13	157					0	0	0.00245	0	0		C	121448164	C	C	121448164	3	2	129	1	0	0	0	0	1	0	0	0	6580	1368	48	5	9582	5	GOLGB1	3	121448164	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	8260183	121448164	76574266	39	71475											
MSL2	55167	broad.mit.edu	37	chr3	135870294	135870294	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaagggcagcgttggcctcGgcatgtaagaacacttggat	10	8	14	9	2	0	1	0	0	0	1	1	2	0	2	1	4	2	5	1	4	3	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:135870294G>A	uc003eqx.1	-	2	2162	c.1429C>T	c.(1429-1431)CGA>TGA	p.R477*	MSL2_uc011bmb.1_Nonsense_Mutation_p.R403*	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	477					histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						CGTTGGCCTCGGCATGTAAGA	0.478													17	53					0	0	0.00499	0	0		A	135870294	A	A	135870294	4	1	129	1	0	0	0	0	0	1	0	0	9896	1124	39	1	308	1	MSL2	3	135870294	Nonsense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	14422130	135870294	62152136	40	71476											
SR140	23350	broad.mit.edu	37	chr3	142756989	142756989	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaaagaatgagcctatatTtaaagttgccccatcaaaat	19	10	5	7	0	1	2	1	1	0	1	1	2	1	2	3	0	2	1	3	0	10	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:142756989T>G	uc003evh.1	+	22	2360	c.2261T>G	c.(2260-2262)TTT>TGT	p.F754C	SR140_uc003evi.1_Missense_Mutation_p.F345C|SR140_uc003evj.1_RNA|SR140_uc003evk.1_Missense_Mutation_p.F753C|SR140_uc003evl.1_Missense_Mutation_p.F321C	NM_001080415	NP_001073884	O15042	SR140_HUMAN	U2-associated SR140 protein	754					RNA processing	nucleus	nucleotide binding|RNA binding				0						GAGCCTATATTTAAAGTTGCC	0.348													3	9					0	0	0.000602	0	0		G	142756989	G	G	142756989	3	3	129	1	0	0	0	0	1	0	0	0	15156	1841	64	5	2347	5	SR140	3	142756989	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	6886695	142756989	55265441	41	71477											
P2RY14	9934	broad.mit.edu	37	chr3	150931143	150931143	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttttgattctggaaatgTctaggtcattctgagctttt	7	19	8	7	0	5	2	1	2	4	0	5	3	5	3	0	2	1	1	0	2	2	7			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:150931143T>C	uc003eyr.1	-	3	1440	c.962A>G	c.(961-963)GAC>GGC	p.D321G	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY14_uc003eys.1_Missense_Mutation_p.D321G	NM_001081455	NP_001074924	Q15391	P2Y14_HUMAN	P2Y14 receptor	321	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled|UDP-activated nucleotide receptor activity			large_intestine(2)|ovary(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TCTGGAAATGTCTAGGTCATT	0.378													30	213					0	0	0.008361	0	0		C	150931143	C	C	150931143	3	2	129	1	0	0	0	0	1	0	0	0	11370	1667	58	3	58	3	P2RY14	3	150931143	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	8174154	150931143	47091287	42	71478											
IGSF10	285313	broad.mit.edu	37	chr3	151156235	151156235	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactgcttgtggtcaattttGgcaggtttcagtcttaggct	6	17	11	7	0	3	0	2	0	1	0	3	0	3	0	0	4	2	4	0	4	3	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:151156235G>A	uc011bod.1	-	6	6114	c.6114C>T	c.(6112-6114)GCC>GCT	p.A2038A	IGSF10_uc011bob.1_Silent_p.A65A|IGSF10_uc011boc.1_Silent_p.A17A	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	2038	Ig-like C2-type 7.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GGTCAATTTTGGCAGGTTTCA	0.433													11	143					0	0	0.013537	0	0		A	151156235	A	A	151156235	2	1	129	1	0	0	0	0	0	0	0	1	7613	1335	47	4		4	IGSF10	3	151156235	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	225092	151156235	46866195	43	71479											
FNDC3B	64778	broad.mit.edu	37	chr3	172061989	172061989	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagctggagtgcaccgtcGgcaacctgcttcctggaacc	8	7	12	14	2	0	1	0	0	0	1	2	3	1	3	4	3	5	4	4	3	2	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:172061989G>A	uc003fhy.2	+	19	2363	c.2191G>A	c.(2191-2193)GGC>AGC	p.G731S	FNDC3B_uc003fhz.3_Missense_Mutation_p.G731S	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	731	Fibronectin type-III 5.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		GTGCACCGTCGGCAACCTGCT	0.562													56	197					0	0	0.01441	0	0		A	172061989	A	A	172061989	3	1	129	1	0	0	0	0	1	0	0	0	5984	1116	39	1	2261	1	FNDC3B	3	172061989	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	20905754	172061989	25960441	44	71480											
KCNMB3	27094	broad.mit.edu	37	chr3	178984528	178984528	+	Translation_Start_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctgagaaaatggctcccTttcacctgagtcatgcccct	8	11	9	13	0	3	2	2	2	1	1	4	3	4	2	4	2	1	1	4	2	2	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:178984528T>A	uc003fjp.1	-	1	311	c.-29A>T	c.(-31--27)AAAGG>AATGG		KCNMB3_uc011bqc.1_Translation_Start_Site	NM_171828	NP_741979	Q9NPA1	KCMB3_HUMAN	calcium-activated potassium channel beta 3						detection of calcium ion|platelet activation|regulation of action potential in neuron	voltage-gated potassium channel complex	calcium-activated potassium channel activity|potassium channel regulator activity				0	all_cancers(143;5.6e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;2.41e-27)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.03)			AATGGCTCCCTTTCACCTGAG	0.627													6	42					0	0	0.001168	0	0		A	178984528	A	A	178984528	1	1	129	1	0	0	0	0	0	0	0	0	8092	1624	56	5		5	KCNMB3	3	178984528	Translation_Start_Site	SNP	T	TCGA-CG-4436-01A-01D-1158-08	6922539	178984528	19037902	45	71481											
ECE2	9718	broad.mit.edu	37	chr3	184008402	184008402	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttccaactaagaatgagatCgtcttccccgctggcatcct	9	11	7	14	2	1	2	0	1	1	2	5	3	4	2	4	1	1	2	4	1	3	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:184008402C>T	uc003fni.3	+	15	2105	c.2067C>T	c.(2065-2067)ATC>ATT	p.I689I	ECE2_uc011brh.1_Silent_p.I542I|ECE2_uc003fnl.3_Silent_p.I617I|ECE2_uc003fnm.3_Silent_p.I571I|ECE2_uc003fnk.3_Silent_p.I542I|ECE2_uc011bri.1_Silent_p.I604I|ECE2_uc010hxv.2_Silent_p.I333I	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	689	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGAATGAGATCGTCTTCCCCG	0.507													66	89					0	0	0.01441	0	0		T	184008402	T	T	184008402	2	4	129	1	0	0	0	0	0	0	0	1	4896	874	31	1		1	ECE2	3	184008402	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	5023874	184008402	14014028	46	71482											
IGF2BP2	10644	broad.mit.edu	37	chr3	185369933	185369933	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaccatcctttcgctgacGtctgggccttccgcaggggc	5	10	12	14	3	1	2	0	2	1	0	4	2	3	2	4	3	0	2	4	3	0	2	rs147590133	byFrequency	TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr3:185369933G>A	uc003fpo.2	-	13	1489	c.1410C>T	c.(1408-1410)GAC>GAT	p.D470D	IGF2BP2_uc010hyi.2_Silent_p.D413D|IGF2BP2_uc010hyj.2_Silent_p.D407D|IGF2BP2_uc010hyk.2_Silent_p.D334D|IGF2BP2_uc010hyl.2_Silent_p.D364D|IGF2BP2_uc003fpp.2_Silent_p.D427D|IGF2BP2_uc003fpq.2_Silent_p.D475D	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	470	KH 3.				anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			TTTCGCTGACGTCTGGGCCTT	0.597													16	41					0	0	0.004007	0	0		A	185369933	A	A	185369933	2	1	129	1	0	0	0	0	0	0	0	1	7590	1136	40	1		1	IGF2BP2	3	185369933	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	1361531	185369933	12652497	47	71483											
CPZ	8532	broad.mit.edu	37	chr4	8602891	8602891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggacctgcagtgatgccGcctacaaccacaccaccttc	10	7	7	17	1	1	1	1	1	0	0	2	2	1	2	6	1	4	1	6	1	2	2	rs145429481		TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:8602891G>A	uc003glm.2	+	3	289	c.163G>A	c.(163-165)GCC>ACC	p.A55T	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_5'UTR|CPZ_uc003glo.2_Missense_Mutation_p.A44T|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	55	FZ.				proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						CAGTGATGCCGCCTACAACCA	0.642													12	52					0	0	0.001855	0	0		A	8602891	A	A	8602891	3	1	129	1	0	0	0	0	1	0	0	0	3842	1087	38	1	173	1	CPZ	4	8602891	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08		8602891	182551385	48	71484											
EPHA5	2044	broad.mit.edu	37	chr4	66197825	66197825	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagatcctagtgggctatgTtctgccaataaattagatac	12	12	8	9	0	1	2	0	0	1	2	2	2	2	2	3	1	2	2	3	1	7	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:66197825T>C	uc003hcy.2	-	17	3067	c.2874A>G	c.(2872-2874)GAA>GAG	p.E958E	EPHA5_uc003hcx.2_Silent_p.E890E|EPHA5_uc003hcz.2_Silent_p.E936E|EPHA5_uc011cah.1_Silent_p.E959E|EPHA5_uc011cai.1_Silent_p.E937E|EPHA5_uc003hda.2_Silent_p.E959E	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	958	Cytoplasmic (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						GTGGGCTATGTTCTGCCAATA	0.328										TSP Lung(17;0.13)			6	33					0	0	0.001984	0	0		C	66197825	C	C	66197825	2	2	129	1	0	0	0	0	0	0	0	1	5178	1722	60	3		3	EPHA5	4	66197825	Silent	SNP	T	TCGA-CG-4436-01A-01D-1158-08	57594934	66197825	124956451	49	71485											
EPHA5	2044	broad.mit.edu	37	chr4	66231771	66231771	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagttcttactcctggcagTttaactgtaaatataaattg	13	16	6	6	0	1	0	0	0	1	0	2	0	2	0	1	1	2	4	1	1	8	9			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:66231771T>G	uc003hcy.2	-	11	2122	c.1929A>C	c.(1927-1929)AAA>AAC	p.K643N	EPHA5_uc003hcx.2_Missense_Mutation_p.K575N|EPHA5_uc003hcz.2_Missense_Mutation_p.K621N|EPHA5_uc011cah.1_Missense_Mutation_p.K644N|EPHA5_uc011cai.1_Missense_Mutation_p.K622N|EPHA5_uc003hda.2_Missense_Mutation_p.K644N	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	643	Cytoplasmic (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CTCCTGGCAGTTTAACTGTAA	0.348										TSP Lung(17;0.13)			4	39					0	0	0.009096	0	0		G	66231771	G	G	66231771	3	3	129	1	0	0	0	0	1	0	0	0	5178	1722	60	5	1216	5	EPHA5	4	66231771	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	33946	66231771	124922505	50	71486											
GC	2638	broad.mit.edu	37	chr4	72620134	72620134	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaagtttcttactttttcTtgtactcagtaaatgtattt	11	20	4	6	0	3	0	1	0	2	0	3	0	3	0	0	0	3	4	0	0	7	9			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:72620134T>G	uc003hge.2	-	10	1409	c.1256A>C	c.(1255-1257)AAG>ACG	p.K419T	GC_uc003hgd.2_Missense_Mutation_p.K297T|GC_uc010iie.2_Missense_Mutation_p.K419T|GC_uc010iif.2_Missense_Mutation_p.K438T	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	419	Albumin 3.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	TTACTTTTTCTTGTACTCAGT	0.328													3	6					0	0	0.004672	0	0		G	72620134	G	G	72620134	3	3	129	1	0	0	0	0	1	0	0	0	6297	1609	56	5	180	5	GC	4	72620134	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	6388363	72620134	118534142	51	71487											
PDHA2	5161	broad.mit.edu	37	chr4	96761480	96761480	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcactagggcggaggggcTtaaatactacaggatgatgc	11	8	14	8	1	1	1	1	1	0	0	1	3	1	3	0	5	3	2	0	5	5	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:96761480T>G	uc003htr.3	+	1	242	c.179T>G	c.(178-180)CTT>CGT	p.L60R		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	60					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	GCGGAGGGGCTTAAATACTAC	0.458													6	50					0	0	0.001984	0	0		G	96761480	G	G	96761480	3	3	129	1	0	0	0	0	1	0	0	0	11684	1609	56	5	181	5	PDHA2	4	96761480	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	24141346	96761480	94392796	52	71488											
FAT4	79633	broad.mit.edu	37	chr4	126240751	126240751	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtgaactggaccgtgaacTtcaagacagatatgttttaa	15	11	9	6	1	1	4	1	2	0	2	1	5	1	5	1	1	2	1	1	1	6	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:126240751T>G	uc003ifj.3	+	1	3185	c.3185T>G	c.(3184-3186)CTT>CGT	p.L1062R		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1062	Cadherin 10.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GACCGTGAACTTCAAGACAGA	0.383													25	155					0	0	0.008361	0	0		G	126240751	G	G	126240751	3	3	129	1	0	0	0	0	1	0	0	0	5706	1609	56	5	3187	5	FAT4	4	126240751	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	29479271	126240751	64913525	53	71489											
FAT4	79633	broad.mit.edu	37	chr4	126371122	126371122	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacaatgcacctcaatttcTtaaaagtaaatatttcactc	15	14	3	9	0	3	1	2	1	1	0	4	1	3	1	1	0	1	2	1	0	7	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:126371122T>G	uc003ifj.3	+	9	8951	c.8951T>G	c.(8950-8952)CTT>CGT	p.L2984R	FAT4_uc011cgp.1_Missense_Mutation_p.L1282R|FAT4_uc003ifi.1_Missense_Mutation_p.L462R	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2984	Extracellular (Potential).|Cadherin 29.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CCTCAATTTCTTAAAAGTAAA	0.338													8	74					0	0	0.00308	0	0		G	126371122	G	G	126371122	3	3	129	1	0	0	0	0	1	0	0	0	5706	1609	56	5	8985	5	FAT4	4	126371122	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	130371	126371122	64783154	54	71490											
HSPA4L	22824	broad.mit.edu	37	chr4	128726846	128726846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacatcttattttcagtgtgCgattctctcaccagcattta	9	17	5	10	1	4	0	2	0	2	0	5	1	4	0	1	0	3	1	1	0	3	7			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:128726846C>T	uc003ifm.2	+	10	1395	c.1142C>T	c.(1141-1143)GCG>GTG	p.A381V	HSPA4L_uc010iny.1_Missense_Mutation_p.A340V|HSPA4L_uc011cgr.1_Missense_Mutation_p.A348V	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	381					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						TTTCAGTGTGCGATTCTCTCA	0.353													7	43					0	0	0.001984	0	0		T	128726846	T	T	128726846	3	4	129	1	0	0	0	0	1	0	0	0	7429	768	27	1	1180	1	HSPA4L	4	128726846	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	2355724	128726846	62427430	55	71491											
PCDH18	54510	broad.mit.edu	37	chr4	138452730	138452730	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gcagagagcgagtatgtgtgGagggaattttccccaacatc	11	9	13	8	1	0	1	0	0	0	1	2	5	1	3	2	2	2	2	2	2	3	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:138452730G>C	uc003ihe.3	-	1	900	c.513C>G	c.(511-513)CTC>CTG	p.L171L	PCDH18_uc003ihf.3_Silent_p.L164L|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_5'UTR|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	171	Extracellular (Potential).|Cadherin 2.				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					AGTATGTGTGGAGGGAATTTT	0.463													9	52					0	0	0.008291	0	0		C	138452730	C	C	138452730	2	2	129	1	0	0	0	0	0	0	0	1	11532	1161	41	5		5	PCDH18	4	138452730	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	9725884	138452730	52701546	56	71492											
FGA	2243	broad.mit.edu	37	chr4	155508714	155508714	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctaacatttttctgcagaaGctggatatgctgtacttttt	9	18	7	7	0	2	1	0	0	2	1	2	2	2	2	0	1	5	4	0	1	4	7			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:155508714G>T	uc003iod.1	-	4	518	c.460C>A	c.(460-462)CTT>ATT	p.L154I	FGA_uc003ioe.1_Missense_Mutation_p.L154I|FGA_uc003iof.1_Intron	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	154	By similarity.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	TTCTGCAGAAGCTGGATATGC	0.438													8	96					0.000157383	0.000165524	0.00308	1	0		T	155508714	T	T	155508714	3	4	129	1	0	0	0	0	1	0	0	0	5844	971	34	5	2196	5	FGA	4	155508714	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	17055984	155508714	35645562	57	71493											
FSTL5	56884	broad.mit.edu	37	chr4	162680664	162680664	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcaaagagatccttgccaAgttcttcctgttttatcacc	11	14	5	11	0	3	1	2	0	1	1	5	2	5	1	4	0	1	2	4	0	4	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:162680664A>G	uc003iqh.2	-	6	1062	c.626T>C	c.(625-627)CTT>CCT	p.L209P	FSTL5_uc003iqi.2_Missense_Mutation_p.L208P|FSTL5_uc010iqv.2_Missense_Mutation_p.L208P	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	209	EF-hand 1.					extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		ATCCTTGCCAAGTTCTTCCTG	0.269													6	68					0	0	0.004482	0	0		G	162680664	G	G	162680664	3	3	129	1	0	0	0	0	1	0	0	0	6094	72	3	3	1961	3	FSTL5	4	162680664	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	7171950	162680664	28473612	58	71494											
ODZ3	55714	broad.mit.edu	37	chr4	183714348	183714348	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcgtctgacaccccttcgcTatgacctgcgagacagaatc	9	8	9	15	4	1	4	0	2	1	2	3	5	1	4	3	0	1	1	3	0	2	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:183714348T>C	uc003ivd.1	+	25	6560	c.6523T>C	c.(6523-6525)TAT>CAT	p.Y2175H		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2175	Extracellular (Potential).|YD 20.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		ACCCCTTCGCTATGACCTGCG	0.453													20	57					0	0	0.008871	0	0		C	183714348	C	C	183714348	3	2	129	1	0	0	0	0	1	0	0	0	10855	1522	53	3	6621	3	ODZ3	4	183714348	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	21033684	183714348	7439928	59	71495											
TRIML1	339976	broad.mit.edu	37	chr4	189068074	189068074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagcagacagcagctacccGacaacccggaaagatttgac	15	4	10	12	2	0	3	0	1	0	2	0	6	0	4	2	1	5	3	2	1	4	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr4:189068074G>A	uc003izm.1	+	6	1070	c.955G>A	c.(955-957)GAC>AAC	p.D319N	TRIML1_uc003izn.1_Missense_Mutation_p.D43N	NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	319	B30.2/SPRY.				multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		GCAGCTACCCGACAACCCGGA	0.542													15	113					0	0	0.00499	0	0		A	189068074	A	A	189068074	3	1	129	1	0	0	0	0	1	0	0	0	16576	1058	37	1	977	1	TRIML1	4	189068074	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	5353726	189068074	2086202	60	71496											
AGXT2	64902	broad.mit.edu	37	chr5	35033594	35033594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acctgtcccaccagggagttCcatcttgtaggtccctacgt	7	11	9	14	1	1	0	0	0	1	0	4	1	4	1	5	2	1	2	5	2	2	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr5:35033594C>T	uc003jjf.2	-	6	725	c.646G>A	c.(646-648)GAA>AAA	p.E216K	AGXT2_uc011com.1_Missense_Mutation_p.E216K|AGXT2_uc011con.1_Missense_Mutation_p.E124K	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	216					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	CCAGGGAGTTCCATCTTGTAG	0.473													6	111					0	0	0.001984	0	0		T	35033594	T	T	35033594	3	4	129	1	0	0	0	0	1	0	0	0	405	864	30	4	934	4	AGXT2	5	35033594	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08		35033594	145881666	61	71497											
HCN1	348980	broad.mit.edu	37	chr5	45645499	45645499	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaaataattcatcttgaTcactttggggtccaggatga	11	16	8	6	0	3	2	2	2	1	0	4	3	4	3	1	3	0	0	1	3	3	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr5:45645499T>A	uc003jok.2	-	2	662	c.637A>T	c.(637-639)ATC>TTC	p.I213F		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	213	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TTCATCTTGATCACTTTGGGG	0.378													6	113					0	0	0.001984	0	0		A	45645499	A	A	45645499	3	1	129	1	0	0	0	0	1	0	0	0	7012	1435	50	5	2063	5	HCN1	5	45645499	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	10611905	45645499	135269761	62	71498											
PCDHB10	56126	broad.mit.edu	37	chr5	140572542	140572542	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttcaggacaaagaaacagtCttaaaaatatcagaaaatac	21	9	5	6	0	3	2	2	0	1	2	3	3	3	3	0	1	2	0	0	1	9	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr5:140572542C>G	uc003lix.2	+	1	591	c.417C>G	c.(415-417)GTC>GTG	p.V139V		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	139	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAGAAACAGTCTTAAAAATAT	0.408													28	127					0	0	0.00632	0	0		G	140572542	G	G	140572542	2	3	129	1	0	0	0	0	0	0	0	1	11554	900	32	5		5	PCDHB10	5	140572542	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	94927043	140572542	40342718	63	71499											
PCDHGA8	9708	broad.mit.edu	37	chr5	140773068	140773068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagcacagtgcgcatccacGtgacagtgttggatacaaat	12	9	10	10	2	0	1	0	1	0	0	1	2	1	2	1	1	3	3	1	1	3	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr5:140773068G>A	uc003lkd.1	+	1	1586	c.688G>A	c.(688-690)GTG>ATG	p.V230M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.V230M	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	230	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGCATCCACGTGACAGTGTT	0.607													43	44					0	0	0.013114	0	0		A	140773068	A	A	140773068	3	1	129	1	0	0	0	0	1	0	0	0	11579	1145	40	1	690	1	PCDHGA8	5	140773068	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	200526	140773068	40142192	64	71500											
GABRA1	2554	broad.mit.edu	37	chr5	161322857	161322857	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttatgcatgggatggcaaaAgtgtggttccagaaaaggta	13	10	14	4	0	0	1	0	0	0	1	1	2	1	2	1	4	1	5	1	4	6	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr5:161322857A>G	uc010jiw.2	+	10	1510	c.1042A>G	c.(1042-1044)AGT>GGT	p.S348G	GABRA1_uc010jix.2_Missense_Mutation_p.S348G|GABRA1_uc010jiy.2_Missense_Mutation_p.S348G|GABRA1_uc003lyx.3_Missense_Mutation_p.S348G|GABRA1_uc010jiz.2_Missense_Mutation_p.S348G|GABRA1_uc010jja.2_Missense_Mutation_p.S348G|GABRA1_uc010jjb.2_Missense_Mutation_p.S348G	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	348	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	GGATGGCAAAAGTGTGGTTCC	0.383													10	110					0	0	0.010729	0	0		G	161322857	G	G	161322857	3	3	129	1	0	0	0	0	1	0	0	0	6174	72	3	3	1072	3	GABRA1	5	161322857	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	20549789	161322857	19592403	65	71501											
MUC21	394263	broad.mit.edu	37	chr6	30955932	30955932	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaggagaccagtatcctcGatagccatggagatgagcgg	11	7	15	8	2	0	3	0	1	0	2	2	7	1	4	3	4	2	1	3	4	2	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr6:30955932G>A	uc003nsh.2	+	3	1913	c.1662G>A	c.(1660-1662)TCG>TCA	p.S554S	MUC21_uc003nsi.1_RNA	NM_001010909	NP_001010909	Q5SSG8	MUC21_HUMAN	mucin 21 precursor	554	Cytoplasmic (Potential).|Cytoplasmic tail.					integral to membrane|plasma membrane				ovary(1)|skin(1)	2						CAGTATCCTCGATAGCCATGG	0.617													9	26					0	0	0.010729	0	0		A	30955932	A	A	30955932	2	1	129	1	0	0	0	0	0	0	0	1	9995	1045	37	1		1	MUC21	6	30955932	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08		30955932	140159135	66	71502											
TNXB	7148	broad.mit.edu	37	chr6	32015679	32015679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatccttgtactggaccaCgaaggagtcgaattcgccct	9	11	9	12	3	0	0	0	0	0	0	3	4	1	2	3	2	1	1	3	2	4	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr6:32015679C>T	uc003nzl.2	-	30	10352	c.10150G>A	c.(10150-10152)GTG>ATG	p.V3384M	TNXB_uc003nzg.1_5'Flank|TNXB_uc003nzh.1_5'Flank	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3431	Fibronectin type-III 26.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TACTGGACCACGAAGGAGTCG	0.632													6	51					0	0	0.001168	0	0		T	32015679	T	T	32015679	3	4	129	1	0	0	0	0	1	0	0	0	16371	536	19	1	4623	1	TNXB	6	32015679	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	1059747	32015679	139099388	67	71503											
BRD2	6046	broad.mit.edu	37	chr6	32945673	32945673	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggaaagtagcagtgagagctCctctgaggaagaggaggagg	13	5	18	5	0	1	3	0	2	1	2	2	8	2	7	1	5	2	3	1	5	3	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr6:32945673C>G	uc003ocn.3	+	9	3170	c.1469C>G	c.(1468-1470)TCC>TGC	p.S490C	BRD2_uc003oco.2_RNA|BRD2_uc003ocq.3_Missense_Mutation_p.S490C|BRD2_uc003ocp.3_Missense_Mutation_p.S370C|BRD2_uc010juh.2_Missense_Mutation_p.S490C	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	490	Glu/Ser-rich.				spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						AGTGAGAGCTCCTCTgaggaa	0.408													46	64					0	0	0.011902	0	0		G	32945673	G	G	32945673	3	3	129	1	0	0	0	0	1	0	0	0	1505	855	30	5	1499	5	BRD2	6	32945673	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	929994	32945673	138169394	68	71504											
SCUBE3	222663	broad.mit.edu	37	chr6	35199583	35199583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctatgagtgccactgccGggaaggcttcttcctcagcg	7	9	12	13	2	2	1	1	1	1	0	3	2	3	2	3	2	4	2	3	2	2	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr6:35199583G>A	uc003okf.1	+	4	422	c.416G>A	c.(415-417)CGG>CAG	p.R139Q	SCUBE3_uc003okg.1_Missense_Mutation_p.R139Q|SCUBE3_uc003okh.1_Missense_Mutation_p.R10Q	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	139	EGF-like 3; calcium-binding (Potential).				protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						TGCCACTGCCGGGAAGGCTTC	0.607													9	72					0	0	0.006214	0	0		A	35199583	A	A	35199583	3	1	129	1	0	0	0	0	1	0	0	0	13971	1116	39	1	430	1	SCUBE3	6	35199583	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	2253910	35199583	135915484	69	71505											
NCR2	9436	broad.mit.edu	37	chr6	41309551	41309551	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctgcctccacacagacCtcctggactccccgcgacct	6	7	7	21	2	1	1	0	0	1	1	4	3	4	2	8	1	1	0	8	1	0	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr6:41309551C>A	uc003oqh.2	+	3	501	c.414C>A	c.(412-414)ACC>ACA	p.T138T	NCR2_uc003oqi.2_Silent_p.T138T|NCR2_uc003oqj.2_Silent_p.T138T	NM_004828	NP_004819	O95944	NCTR2_HUMAN	natural cytotoxicity triggering receptor 2	138	Extracellular (Potential).				cellular defense response	integral to plasma membrane	transmembrane receptor activity			ovary(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					CCACACAGACCTCCTGGACTC	0.622													9	119					1.08611e-07	1.15725e-07	0.010729	1	0		A	41309551	A	A	41309551	2	1	129	1	0	0	0	0	0	0	0	1	10257	668	24	5		5	NCR2	6	41309551	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	6109968	41309551	129805516	70	71506											
RIMS1	22999	broad.mit.edu	37	chr6	72678732	72678732	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctgcctgcaaaacaccaAgaaatgctgaaaaccagccc	15	5	7	14	0	0	2	0	1	0	1	0	2	0	2	4	0	7	3	4	0	6	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr6:72678732A>C	uc003pga.2	+	2	288	c.211A>C	c.(211-213)AGA>CGA	p.R71R		NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	71	RabBD.				calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				CAAAACACCAAGAAATGCTGA	0.453													14	89					0	0	0.004007	0	0		C	72678732	C	C	72678732	2	2	129	1	0	0	0	0	0	0	0	1	13392	64	3	5		5	RIMS1	6	72678732	Silent	SNP	A	TCGA-CG-4436-01A-01D-1158-08	31369181	72678732	98436335	71	71507											
KCNQ5	56479	broad.mit.edu	37	chr6	73751677	73751677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagttcgtgatgattgtcGtctttggtttggagttcatc	6	17	13	5	2	2	2	1	2	1	0	5	4	2	4	0	3	0	3	0	3	0	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr6:73751677G>A	uc003pgk.2	+	3	855	c.508G>A	c.(508-510)GTC>ATC	p.V170I	KCNQ5_uc003pgj.3_Missense_Mutation_p.V170I|KCNQ5_uc011dyh.1_Missense_Mutation_p.V170I|KCNQ5_uc011dyi.1_Missense_Mutation_p.V170I|KCNQ5_uc010kat.2_Missense_Mutation_p.V170I|KCNQ5_uc011dyj.1_Missense_Mutation_p.V170I|KCNQ5_uc011dyk.1_Intron	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	170	Helical; Name=Segment S2; (Potential).				protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		GATGATTGTCGTCTTTGGTTT	0.423													117	266					0	0	0.01441	0	0		A	73751677	A	A	73751677	3	1	129	1	0	0	0	0	1	0	0	0	8102	1145	40	1	518	1	KCNQ5	6	73751677	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	1072945	73751677	97363390	72	71508											
EEF1A1	1915	broad.mit.edu	37	chr6	74229182	74229182	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atcaatggtgataccacgttCacgctcagctttcagtttat	10	14	7	10	2	4	1	4	1	0	0	4	1	4	1	1	1	2	4	1	1	3	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr6:74229182C>G	uc003phi.2	-	2	239	c.202G>C	c.(202-204)GAA>CAA	p.E68Q	EEF1A1_uc003phd.2_5'Flank|EEF1A1_uc003phe.2_Missense_Mutation_p.E68Q|EEF1A1_uc003phf.2_Missense_Mutation_p.E68Q|EEF1A1_uc003phg.2_Missense_Mutation_p.E68Q|EEF1A1_uc003phh.2_Intron|EEF1A1_uc003phj.2_Missense_Mutation_p.E68Q|EEF1A1_uc003phk.2_Missense_Mutation_p.E68Q|EEF1A1_uc003phl.2_Missense_Mutation_p.E68Q|EEF1A1_uc003phm.1_Intron	NM_001402	NP_001393	P68104	EF1A1_HUMAN	eukaryotic translation elongation factor 1 alpha	68						cytosol|eukaryotic translation elongation factor 1 complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0						ATACCACGTTCACGCTCAGCT	0.418											OREG0003890	type=REGULATORY REGION|Gene=LOC477388|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	47	148					0	0	0.01441	0	0		G	74229182	G	G	74229182	3	3	129	1	0	0	0	0	1	0	0	0	4929	835	29	5	1210	5	EEF1A1	6	74229182	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	477505	74229182	96885885	73	71509											
TBX18	9096	broad.mit.edu	37	chr6	85470009	85470009	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccactggtacaatatccatgGcaatgtaatattgctggtga	12	12	9	8	0	0	1	0	1	0	0	1	1	1	1	2	3	2	4	2	3	6	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr6:85470009G>C	uc003pkl.1	-	3	563	c.563C>G	c.(562-564)GCC>GGC	p.A188G	TBX18_uc010kbq.1_Missense_Mutation_p.A30G	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	188	T-box.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		AATATCCATGGCAATGTAATA	0.398													6	39					0	0	0.001168	0	0		C	85470009	C	C	85470009	3	2	129	1	0	0	0	0	1	0	0	0	15678	1203	42	5	1284	5	TBX18	6	85470009	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	11240827	85470009	85645058	74	71510											
ASCC3	10973	broad.mit.edu	37	chr6	101246604	101246604	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctcacctcatctaagtcttgGatataaactggcttttcctc	9	15	5	12	0	4	0	2	0	2	0	6	1	5	1	2	2	1	1	2	2	4	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr6:101246604G>C	uc003pqk.2	-	8	1709	c.1380C>G	c.(1378-1380)ATC>ATG	p.I460M	ASCC3_uc011eai.1_Missense_Mutation_p.I362M|ASCC3_uc003pql.2_Missense_Mutation_p.I460M	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	460					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CTAAGTCTTGGATATAAACTG	0.368													7	80					0	0	0.001984	0	0		C	101246604	C	C	101246604	3	2	129	1	0	0	0	0	1	0	0	0	1034	1164	41	5	5368	5	ASCC3	6	101246604	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	15776595	101246604	69868463	75	71511											
TXNDC3	51314	broad.mit.edu	37	chr7	37907401	37907401	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caatcctccctctgaagaaaCcgaaccacagactgacaccg	14	5	6	16	2	1	4	0	2	1	2	3	5	3	4	5	0	2	0	5	0	4	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr7:37907401C>A	uc003tfn.2	+	11	1091	c.719C>A	c.(718-720)ACC>AAC	p.T240N		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	240	NDK 1.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						TCTGAAGAAACCGAACCACAG	0.438									Kartagener_syndrome				7	88					7.48243e-07	7.93788e-07	0.006214	1	0		A	37907401	A	A	37907401	3	1	129	1	0	0	0	0	1	0	0	0	16824	507	18	5	753	5	TXNDC3	7	37907401	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08		37907401	121231262	76	71512											
PCLO	27445	broad.mit.edu	37	chr7	82585562	82585562	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcatcttcagaacctgaAgcatcttcatcagcactcat	12	12	4	13	0	8	2	6	1	2	1	8	2	8	2	1	0	3	2	1	0	2	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr7:82585562A>C	uc003uhx.2	-	5	4996	c.4707T>G	c.(4705-4707)GCT>GCG	p.A1569A	PCLO_uc003uhv.2_Silent_p.A1569A	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1500					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CAGAACCTGAAGCATCTTCAT	0.418													19	312					0	0	0.006122	0	0		C	82585562	C	C	82585562	2	2	129	1	0	0	0	0	0	0	0	1	11602	59	3	5		5	PCLO	7	82585562	Silent	SNP	A	TCGA-CG-4436-01A-01D-1158-08	44678161	82585562	76553101	77	71513											
PCLO	27445	broad.mit.edu	37	chr7	82586037	82586037	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataggactgtactttctaacTtagccaaatctgaggggctg	11	12	10	8	0	2	1	0	1	2	0	2	2	2	2	1	3	3	2	1	3	5	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr7:82586037T>G	uc003uhx.2	-	5	4521	c.4232A>C	c.(4231-4233)AAG>ACG	p.K1411T	PCLO_uc003uhv.2_Missense_Mutation_p.K1411T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1342					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ACTTTCTAACTTAGCCAAATC	0.403													8	126					0	0	0.004482	0	0		G	82586037	G	G	82586037	3	3	129	1	0	0	0	0	1	0	0	0	11602	1609	56	5	11297	5	PCLO	7	82586037	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	475	82586037	76552626	78	71514											
ZNF804B	219578	broad.mit.edu	37	chr7	88965033	88965033	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccttcagaaaccacagaaTcaaacactgcagaaggagag	17	4	9	11	0	2	4	2	0	0	4	2	5	2	4	2	1	3	1	2	1	4	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr7:88965033T>G	uc011khi.1	+	4	3275	c.2737T>G	c.(2737-2739)TCA>GCA	p.S913A		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	913						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AACCACAGAATCAAACACTGC	0.428										HNSCC(36;0.09)			6	317					0	0	0.001168	0	0		G	88965033	G	G	88965033	3	3	129	1	0	0	0	0	1	0	0	0	18196	1435	50	5	2751	5	ZNF804B	7	88965033	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	6378996	88965033	70173630	79	71515											
COL1A2	1278	broad.mit.edu	37	chr7	94038701	94038701	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccccgtggtgaagtgggtcTtccaggcctctccggccccg	3	9	13	16	3	2	1	0	1	2	0	5	1	4	1	7	4	0	0	7	4	1	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr7:94038701T>A	uc003ung.1	+	17	1331	c.860T>A	c.(859-861)CTT>CAT	p.L287H	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	287					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GAAGTGGGTCTTCCAGGCCTC	0.493										HNSCC(75;0.22)			9	145					0	0	0.006122	0	0		A	94038701	A	A	94038701	3	1	129	1	0	0	0	0	1	0	0	0	3681	1609	56	5	926	5	COL1A2	7	94038701	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	5073668	94038701	65099962	80	71516											
COPS6	10980	broad.mit.edu	37	chr7	99689073	99689073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttaatcatgagatcctgcGggaggcctatgctctgtgtc	7	13	11	10	1	2	1	1	1	1	1	4	3	3	2	2	2	2	1	2	2	2	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr7:99689073G>A	uc003usu.2	+	9	804	c.773G>A	c.(772-774)CGG>CAG	p.R258Q		NM_006833	NP_006824	Q7L5N1	CSN6_HUMAN	COP9 signalosome subunit 6	258	Interaction with Vpr.				cullin deneddylation|interspecies interaction between organisms	cytoplasm|signalosome	protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			GAGATCCTGCGGGAGGCCTAT	0.507													18	283					0	0	0.012319	0	0		A	99689073	A	A	99689073	3	1	129	1	0	0	0	0	1	0	0	0	3740	1116	39	1	807	1	COPS6	7	99689073	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	5650372	99689073	59449590	81	71517											
NAPEPLD	222236	broad.mit.edu	37	chr7	102760348	102760348	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcacaaaccatctcaacTcattaccaaatcgctcattc	15	9	3	14	1	3	0	3	0	1	0	6	0	3	0	2	1	3	2	2	1	5	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr7:102760348T>G	uc003vbc.2	-	3	945	c.617A>C	c.(616-618)GAG>GCG	p.E206A	NAPEPLD_uc003vbd.2_Missense_Mutation_p.E206A|NAPEPLD_uc011klj.1_Missense_Mutation_p.E279A|NAPEPLD_uc003vbe.2_RNA	NM_198990	NP_945341	Q6IQ20	NAPEP_HUMAN	N-acyl phosphatidylethanolamine phospholipase D	206					phospholipid catabolic process	membrane	metal ion binding			skin(1)	1						CCATCTCAACTCATTACCAAA	0.458													21	335					0	0	0.014323	0	0		G	102760348	G	G	102760348	3	3	129	1	0	0	0	0	1	0	0	0	10181	1551	54	5	576	5	NAPEPLD	7	102760348	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	3071275	102760348	56378315	82	71518											
GRM8	2918	broad.mit.edu	37	chr7	126882958	126882958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagcacgtgtcgaggatgcGgacacccagagtgatgttgg	10	7	16	8	3	0	3	0	1	0	2	1	6	0	5	1	3	2	2	1	3	0	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr7:126882958G>A	uc003vlr.2	-	1	612	c.301C>T	c.(301-303)CGC>TGC	p.R101C	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.R101C|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	101	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TCGAGGATGCGGACACCCAGA	0.483										HNSCC(24;0.065)			6	126					0	0	0.001984	0	0		A	126882958	A	A	126882958	3	1	129	1	0	0	0	0	1	0	0	0	6819	1116	39	1	2515	1	GRM8	7	126882958	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	24122610	126882958	32255705	83	71519											
MLL3	58508	broad.mit.edu	37	chr7	151860470	151860470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaacgttccttacgttcccGttcttgaaaactttcactaa	11	15	4	11	3	2	1	1	1	1	0	4	1	4	1	2	0	3	3	2	0	6	8			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr7:151860470G>A	uc003wla.2	-	43	10411	c.10192C>T	c.(10192-10194)CGG>TGG	p.R3398W	MLL3_uc003wkz.2_Missense_Mutation_p.R2459W|MLL3_uc003wky.2_Missense_Mutation_p.R907W	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3398	Potential.|Gln-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTACGTTCCCGTTCTTGAAAA	0.468			N		medulloblastoma								30	371					0	0	0.007291	0	0		A	151860470	A	A	151860470	3	1	129	1	0	0	0	0	1	0	0	0	9640	1144	40	1	4611	1	MLL3	7	151860470	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	24977512	151860470	7278193	84	71520											
PTPRN2	5799	broad.mit.edu	37	chr7	157874063	157874063	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaaggtcactgctggtccGagaaccctggaagggataat	11	9	13	8	1	1	2	1	1	0	1	2	5	2	4	2	4	2	1	2	4	4	2	rs145797552		TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr7:157874063G>A	uc003wno.2	-	11	1771	c.1650C>T	c.(1648-1650)CTC>CTT	p.L550L	PTPRN2_uc003wnp.2_Silent_p.L533L|PTPRN2_uc003wnq.2_Silent_p.L521L|PTPRN2_uc003wnr.2_Silent_p.L512L|PTPRN2_uc011kwa.1_Silent_p.L573L	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	550	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CTGCTGGTCCGAGAACCCTGG	0.433													11	126					0	0	0.008291	0	0		A	157874063	A	A	157874063	2	1	129	1	0	0	0	0	0	0	0	1	12833	1045	37	1		1	PTPRN2	7	157874063	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	6013593	157874063	1264600	85	71521											
DKK4	27121	broad.mit.edu	37	chr8	42232307	42232307	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtgatttcttaatactTggcttccttttgggttggtt	4	21	9	7	0	1	1	0	1	1	0	2	1	2	1	2	3	1	3	2	3	2	10			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr8:42232307T>G	uc003xpb.2	-	3	498	c.387A>C	c.(385-387)CCA>CCC	p.P129P		NM_014420	NP_055235	Q9UBT3	DKK4_HUMAN	dickkopf homolog 4 precursor	129					multicellular organismal development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region				ovary(1)	1	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;2.58e-12)|Lung NSC(13;4.24e-11)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.1)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;3.48e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00523)|Lung(22;0.00597)|LUSC - Lung squamous cell carcinoma(45;0.024)			TCTTAATACTTGGCTTCCTTT	0.448													24	455					0	0	0.005443	0	0		G	42232307	G	G	42232307	2	3	129	1	0	0	0	0	0	0	0	1	4553	1799	63	5		5	DKK4	8	42232307	Silent	SNP	T	TCGA-CG-4436-01A-01D-1158-08		42232307	104131715	86	71522											
PXDNL	137902	broad.mit.edu	37	chr8	52322010	52322010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtcgtgggcgcggtacttcGcatggaaacaccggttggag	7	8	16	10	6	0	0	0	0	0	0	2	2	0	2	1	5	2	3	1	5	2	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr8:52322010G>A	uc003xqu.3	-	17	2275	c.2174C>T	c.(2173-2175)GCG>GTG	p.A725V	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	725					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GCGGTACTTCGCATGGAAACA	0.652													14	46					0	0	0.001855	0	0		A	52322010	A	A	52322010	3	1	129	1	0	0	0	0	1	0	0	0	12873	1087	38	1	2245	1	PXDNL	8	52322010	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	10089703	52322010	94042012	87	71523											
FAM110B	90362	broad.mit.edu	37	chr8	59059176	59059176	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacatcatcaatagctccgaGggctctagctcgggctcggg	9	8	12	12	3	3	0	2	0	1	0	6	1	4	0	1	3	3	4	1	3	4	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr8:59059176G>A	uc003xtj.1	+	5	1267	c.387G>A	c.(385-387)GAG>GAA	p.E129E		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	129						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				ATAGCTCCGAGGGCTCTAGCT	0.632													7	43					0	0	0.001984	0	0		A	59059176	A	A	59059176	2	1	129	1	0	0	0	0	0	0	0	1	5408	991	35	4		4	FAM110B	8	59059176	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	6737166	59059176	87304846	88	71524											
RIMS2	9699	broad.mit.edu	37	chr8	104898169	104898169	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacccatagatagaccagacTtgaggcgtactgactcacta	13	9	8	11	1	1	5	1	2	0	3	1	5	1	5	2	1	2	1	2	1	5	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr8:104898169T>G	uc003yls.2	+	2	917	c.676T>G	c.(676-678)TTG>GTG	p.L226V	RIMS2_uc003ylp.2_Missense_Mutation_p.L448V|RIMS2_uc003ylw.2_Missense_Mutation_p.L256V|RIMS2_uc003ylq.2_Missense_Mutation_p.L256V|RIMS2_uc003ylr.2_Missense_Mutation_p.L256V	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	479					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TAGACCAGACTTGAGGCGTAC	0.463										HNSCC(12;0.0054)			13	93					0	0	0.00245	0	0		G	104898169	G	G	104898169	3	3	129	1	0	0	0	0	1	0	0	0	13393	1606	56	5	1482	5	RIMS2	8	104898169	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	45838993	104898169	41465853	89	71525											
KCNV1	27012	broad.mit.edu	37	chr8	110980483	110980483	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctttagggcttcacgctgtCtaacagctgcttccttgagt	6	15	9	11	1	3	1	1	1	2	0	4	1	4	1	1	1	3	4	1	1	2	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr8:110980483C>G	uc003ynr.3	-	3	1679	c.1337G>C	c.(1336-1338)AGA>ACA	p.R446T	KCNV1_uc010mcw.2_Missense_Mutation_p.R446T	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	446	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			TTCACGCTGTCTAACAGCTGC	0.423													21	75					0	0	0.010504	0	0		G	110980483	G	G	110980483	3	3	129	1	0	0	0	0	1	0	0	0	8110	913	32	5	169	5	KCNV1	8	110980483	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	6082314	110980483	35383539	90	71526											
COL22A1	169044	broad.mit.edu	37	chr8	139626133	139626133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgggccccttggtccttgggGaccctgtggcccagtgggtc	2	10	16	13	0	0	0	0	0	0	0	2	1	1	1	5	6	0	0	5	6	0	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr8:139626133G>A	uc003yvd.2	-	56	4402	c.3955C>T	c.(3955-3957)CCC>TCC	p.P1319S	COL22A1_uc011ljo.1_Missense_Mutation_p.P599S	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1319	Pro-rich.|Gly-rich.|Collagen-like 13.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GGTCCTTGGGGACCCTGTGGC	0.453										HNSCC(7;0.00092)			18	255					0	0	0.007413	0	0		A	139626133	A	A	139626133	3	1	129	1	0	0	0	0	1	0	0	0	3684	1174	41	4	965	4	COL22A1	8	139626133	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	28645650	139626133	6737889	91	71527											
DENND3	22898	broad.mit.edu	37	chr8	142188188	142188188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcactacgtccagcaggCgctgaccaacgtcttgctga	8	8	9	16	3	2	2	1	2	1	0	3	2	3	2	3	1	4	3	3	1	2	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr8:142188188C>T	uc003yvy.2	+	16	2767	c.2489C>T	c.(2488-2490)GCG>GTG	p.A830V	DENND3_uc010mep.2_Missense_Mutation_p.A791V	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	830										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			GTCCAGCAGGCGCTGACCAAC	0.517													36	93					0	0	0.010771	0	0		T	142188188	T	T	142188188	3	4	129	1	0	0	0	0	1	0	0	0	4438	768	27	1	2547	1	DENND3	8	142188188	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	2562055	142188188	4175834	92	71528											
SMU1	55234	broad.mit.edu	37	chr9	33068845	33068845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccagcaatgccatgagacGagatggaggcaccacactga	13	5	11	12	1	0	3	0	2	0	2	1	6	1	4	3	2	2	2	3	2	1	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr9:33068845G>A	uc003zsf.1	-	4	586	c.478C>T	c.(478-480)CGT>TGT	p.R160C	SMU1_uc010mjo.1_Missense_Mutation_p.R160C|SMU1_uc010mjp.1_Missense_Mutation_p.R160C|SMU1_uc011lnu.1_5'UTR	NM_018225	NP_060695	Q2TAY7	SMU1_HUMAN	smu-1 suppressor of mec-8 and unc-52 homolog	160						cytoplasm|nucleus				ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0227)	GBM - Glioblastoma multiforme(74;0.11)		GCCATGAGACGAGATGGAGGC	0.348													31	47					0	0	0.012213	0	0		A	33068845	A	A	33068845	3	1	129	1	0	0	0	0	1	0	0	0	14842	1058	37	1	1099	1	SMU1	9	33068845	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08		33068845	108144586	93	71529											
FAM75A6	389730	broad.mit.edu	37	chr9	43624889	43624889	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctggctcttgagagtggcTtgttgactgctggctgcata	5	13	13	10	0	1	2	0	2	1	1	1	3	1	2	1	3	2	6	1	3	1	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr9:43624889T>G	uc011lrb.1	-	4	3827	c.3798A>C	c.(3796-3798)CAA>CAC	p.Q1266H		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	1266						integral to membrane					0						TGAGAGTGGCTTGTTGACTGC	0.517													13	178					0	0	0.00499	0	0		G	43624889	G	G	43624889	3	3	129	1	0	0	0	0	1	0	0	0	5636	1606	56	5	237	5	FAM75A6	9	43624889	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	10556044	43624889	97588542	94	71530											
FAM75A6	389730	broad.mit.edu	37	chr9	43627131	43627131	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgcgatgcagggcaagctActccagtgttcttaatcagg	9	11	11	10	1	3	0	1	0	2	0	4	1	4	0	1	2	4	4	1	2	3	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr9:43627131A>T	uc011lrb.1	-	4	1585	c.1556T>A	c.(1555-1557)GTA>GAA	p.V519E		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	519						integral to membrane					0						AGGGCAAGCTACTCCAGTGTT	0.512													53	302					0	0	0.01441	0	0		T	43627131	T	T	43627131	3	4	129	1	0	0	0	0	1	0	0	0	5636	391	14	5	2479	5	FAM75A6	9	43627131	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	2242	43627131	97586300	95	71531											
PCSK5	5125	broad.mit.edu	37	chr9	78601082	78601082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcaagtggtaaaaaagcGgacaaagagggattatgact	18	6	12	5	1	0	2	0	1	0	1	0	4	0	4	0	3	2	2	0	3	6	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr9:78601082G>A	uc004ajz.2	+	3	870	c.332G>A	c.(331-333)CGG>CAG	p.R111Q	PCSK5_uc004ajy.2_Missense_Mutation_p.R111Q|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	111					anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						GTAAAAAAGCGGACAAAGAGG	0.443													41	58					0	0	0.01441	0	0		A	78601082	A	A	78601082	3	1	129	1	0	0	0	0	1	0	0	0	11622	1116	39	1	342	1	PCSK5	9	78601082	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	34973951	78601082	62612349	96	71532											
NTRK2	4915	broad.mit.edu	37	chr9	87570233	87570233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccgtgctgatggctgaggGcaacccgcccacggaactga	8	6	14	13	3	0	3	0	3	0	0	0	4	0	4	3	3	4	3	3	3	2	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr9:87570233G>A	uc004aoa.1	+	18	2863	c.1925G>A	c.(1924-1926)GGC>GAC	p.G642D	NTRK2_uc004any.1_Missense_Mutation_p.G642D|NTRK2_uc004anz.1_Missense_Mutation_p.G658D	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	neurotrophic tyrosine kinase, receptor, type 2	642	Protein kinase.|Cytoplasmic (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16						ATGGCTGAGGGCAACCCGCCC	0.642										TSP Lung(25;0.17)			3	11					0	0	0.004672	0	0		A	87570233	A	A	87570233	3	1	129	1	0	0	0	0	1	0	0	0	10726	1203	42	2	2110	2	NTRK2	9	87570233	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	8969151	87570233	53643198	97	71533											
ACTL7B	10880	broad.mit.edu	37	chr9	111618016	111618016	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggcctcggctctcccgcGtagccgcacttgcagtactg	4	9	13	15	4	1	0	0	0	1	0	3	0	1	0	3	2	3	5	3	2	2	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr9:111618016G>A	uc004bdi.2	-	1	260	c.195C>T	c.(193-195)TAC>TAT	p.Y65Y		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	65						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						GCTCTCCCGCGTAGCCGCACT	0.632													101	136					0	0	0.01441	0	0		A	111618016	A	A	111618016	2	1	129	1	0	0	0	0	0	0	0	1	201	1140	40	1		1	ACTL7B	9	111618016	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	24047783	111618016	29595415	98	71534											
SVEP1	79987	broad.mit.edu	37	chr9	113173353	113173353	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtctcttacctccagaaagCcattctcaaccttaggtggt	9	12	8	12	0	2	1	1	0	2	1	5	1	3	1	4	3	3	0	4	3	4	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr9:113173353C>A	uc010mtz.2	-	37	6975	c.6638G>T	c.(6637-6639)GGC>GTC	p.G2213V	SVEP1_uc010mty.2_Missense_Mutation_p.G139V	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	2213	Sushi 14.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						CTCCAGAAAGCCATTCTCAAC	0.458													10	45					0.00136819	0.00142666	0.013537	1	0		A	113173353	A	A	113173353	3	1	129	1	0	0	0	0	1	0	0	0	15445	739	26	5	4125	5	SVEP1	9	113173353	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	1555337	113173353	28040078	99	71535											
OR1L3	26735	broad.mit.edu	37	chr9	125437503	125437503	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccactctttgccctctttcTtatcatatacctggtcactt	6	17	4	14	0	5	0	2	0	3	0	5	0	5	0	3	1	2	0	3	1	3	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr9:125437503T>G	uc011lzb.1	+	1	95	c.95T>G	c.(94-96)CTT>CGT	p.L32R		NM_001005234	NP_001005234	Q8NH93	OR1L3_HUMAN	olfactory receptor, family 1, subfamily L,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GCCCTCTTTCTTATCATATAC	0.443													26	155					0	0	0.003954	0	0		G	125437503	G	G	125437503	3	3	129	1	0	0	0	0	1	0	0	0	10983	1609	56	5	97	5	OR1L3	9	125437503	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	12264150	125437503	15775928	100	71536											
ABL1	25	broad.mit.edu	37	chr9	133759379	133759379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggaccatgagcctgccGtgtctccattgctccctcga	5	11	9	16	2	2	1	0	1	2	0	5	3	3	2	5	1	3	1	5	1	0	1	rs141983052		TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr9:133759379G>A	uc004bzw.2	+	11	1705	c.1702G>A	c.(1702-1704)GTG>ATG	p.V568M	ABL1_uc004bzv.2_Missense_Mutation_p.V587M	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	568					actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	TGAGCCTGCCGTGTCTCCATT	0.418			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								16	154					0	0	0.008871	0	0		A	133759379	A	A	133759379	3	1	129	1	0	0	0	0	1	0	0	0	92	1145	40	1	1884	1	ABL1	9	133759379	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	8321876	133759379	7454052	101	71537											
KIAA1462	57608	broad.mit.edu	37	chr10	30318221	30318221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcctcccaaacttaggccGgggaaatggggctgagcagc	9	5	16	11	1	0	1	0	1	0	0	1	2	1	2	3	6	3	2	3	6	3	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr10:30318221G>A	uc001iux.2	-	2	915	c.856C>T	c.(856-858)CGG>TGG	p.R286W	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.R148W|KIAA1462_uc009xle.1_Missense_Mutation_p.R286W	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	286	Pro-rich.									ovary(4)	4						AACTTAGGCCGGGGAAATGGG	0.562													7	79					0	0	0.001984	0	0		A	30318221	A	A	30318221	3	1	129	1	0	0	0	0	1	0	0	0	8250	1115	39	1	3231	1	KIAA1462	10	30318221	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08		30318221	105216526	102	71538											
PCDH15	65217	broad.mit.edu	37	chr10	56423950	56423950	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accatcatcatactggcccaAgcagatttcaaagagagagc	15	7	8	11	0	3	3	3	0	0	3	3	4	3	3	2	1	3	1	2	1	3	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr10:56423950A>C	uc001jju.1	-	2	468	c.73T>G	c.(73-75)TTG>GTG	p.L25V	PCDH15_uc010qhq.1_Missense_Mutation_p.L25V|PCDH15_uc010qhr.1_Missense_Mutation_p.L25V|PCDH15_uc010qhs.1_Missense_Mutation_p.L25V|PCDH15_uc010qht.1_Missense_Mutation_p.L25V|PCDH15_uc010qhu.1_Missense_Mutation_p.L25V|PCDH15_uc001jjv.1_Missense_Mutation_p.L25V|PCDH15_uc010qhv.1_Missense_Mutation_p.L25V|PCDH15_uc010qhw.1_Missense_Mutation_p.L25V|PCDH15_uc010qhx.1_Missense_Mutation_p.L25V|PCDH15_uc010qhy.1_Missense_Mutation_p.L25V|PCDH15_uc010qhz.1_Missense_Mutation_p.L25V|PCDH15_uc010qia.1_Missense_Mutation_p.L25V|PCDH15_uc010qib.1_Missense_Mutation_p.L25V|PCDH15_uc001jjw.2_Missense_Mutation_p.L25V	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	25					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TACTGGCCCAAGCAGATTTCA	0.388										HNSCC(58;0.16)			4	35					0	0	0.009096	0	0		C	56423950	C	C	56423950	3	2	129	1	0	0	0	0	1	0	0	0	11530	69	3	5	7585	5	PCDH15	10	56423950	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	26105729	56423950	79110797	103	71539											
TRIM22	10346	broad.mit.edu	37	chr11	5730455	5730455	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcggggaaatattactgggaAgtagatgtgtctggaaagat	13	11	14	3	1	1	2	0	0	1	2	2	5	1	5	0	4	1	1	0	4	6	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:5730455A>C	uc001mbr.2	+	8	1351	c.1074A>C	c.(1072-1074)GAA>GAC	p.E358D	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|TRIM22_uc009yes.2_Missense_Mutation_p.E354D|TRIM22_uc010qzm.1_Missense_Mutation_p.E186D|TRIM22_uc009yeu.2_Missense_Mutation_p.E169D|OR56B1_uc001mbs.1_Intron|OR56B1_uc009yev.1_Intron	NM_006074	NP_006065	Q8IYM9	TRI22_HUMAN	tripartite motif-containing 22	358	B30.2/SPRY.				immune response|interspecies interaction between organisms|protein trimerization|response to virus	Cajal body|Golgi apparatus|nuclear speck	ligase activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)		ATTACTGGGAAGTAGATGTGT	0.418													20	139					0	0	0.014323	0	0		C	5730455	C	C	5730455	3	2	129	1	0	0	0	0	1	0	0	0	16522	69	3	5	1100	5	TRIM22	11	5730455	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08		5730455	129276061	104	71540											
NLRP14	338323	broad.mit.edu	37	chr11	7064388	7064388	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtgctgggccgcttgtacTtgtctgaagcagcaaatgga	8	11	14	8	1	1	1	0	1	1	0	1	2	1	2	1	2	4	5	1	2	3	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:7064388T>G	uc001mfb.1	+	4	1454	c.1131T>G	c.(1129-1131)ACT>ACG	p.T377T		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	377	NACHT.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		CCGCTTGTACTTGTCTGAAGC	0.463													19	145					0	0	0.012319	0	0		G	7064388	G	G	7064388	2	3	129	1	0	0	0	0	0	0	0	1	10495	1596	56	5		5	NLRP14	11	7064388	Silent	SNP	T	TCGA-CG-4436-01A-01D-1158-08	1333933	7064388	127942128	105	71541											
OR10A6	390093	broad.mit.edu	37	chr11	7950014	7950014	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcaggtccaccacagataAgttcaggagaaacaggtaca	16	6	9	10	0	2	2	2	0	0	2	3	3	3	2	2	3	2	2	2	3	3	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:7950014A>C	uc010rbh.1	-	1	196	c.196T>G	c.(196-198)TTA>GTA	p.L66V		NM_001004461	NP_001004461	Q8NH74	O10A6_HUMAN	olfactory receptor, family 10, subfamily A,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2				Epithelial(150;1.38e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ACCACAGATAAGTTCAGGAGA	0.443													20	166					0	0	0.00278	0	0		C	7950014	C	C	7950014	3	2	129	1	0	0	0	0	1	0	0	0	10913	69	3	5	751	5	OR10A6	11	7950014	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	885626	7950014	127056502	106	71542											
AMPD3	272	broad.mit.edu	37	chr11	10500162	10500162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccccccggcagccagtcCggccatgtctcccacaaccc	6	4	10	21	2	1	0	0	0	1	0	3	0	2	0	8	3	2	1	8	3	1	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:10500162C>T	uc001mio.1	+	3	646	c.311C>T	c.(310-312)CCG>CTG	p.P104L	AMPD3_uc010rbz.1_Intron|AMPD3_uc001min.1_Missense_Mutation_p.P113L|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfx.1_Missense_Mutation_p.P104L|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.P111L|AMPD3_uc009yfy.2_Missense_Mutation_p.P104L	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	104					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		GCAGCCAGTCCGGCCATGTCT	0.592													8	84					0	0	0.007291	0	0		T	10500162	T	T	10500162	3	4	129	1	0	0	0	0	1	0	0	0	587	652	23	1	368	1	AMPD3	11	10500162	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	2550148	10500162	124506354	107	71543											
COPB1	1315	broad.mit.edu	37	chr11	14497331	14497331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatatgtgccataaattacCtgtcttcctctttcttggtg	7	18	7	9	0	3	0	0	0	3	0	4	0	4	0	3	1	2	1	3	1	5	7			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:14497331C>T	uc001mli.2	-	13	1923	c.1616G>A	c.(1615-1617)AGA>AAA	p.R539K	COPB1_uc001mlg.2_Missense_Mutation_p.R539K|COPB1_uc001mlh.2_Missense_Mutation_p.R539K	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	539					COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						CATAAATTACCTGTCTTCCTC	0.403													4	123					0	0	0.000602	0	0		T	14497331	T	T	14497331	3	4	129	1	0	0	0	0	1	0	0	0	3731	695	24	4	1285	4	COPB1	11	14497331	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	3997169	14497331	120509185	108	71544											
QSER1	79832	broad.mit.edu	37	chr11	32954335	32954335	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgactttttctgggtcaTctcagactgtaactcctgaa	9	15	7	10	0	3	3	2	2	2	1	5	3	4	3	1	1	1	1	1	1	2	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:32954335T>G	uc001mty.2	+	4	1411	c.1144T>G	c.(1144-1146)TCT>GCT	p.S382A	QSER1_uc001mtz.1_Intron|QSER1_uc001mua.2_5'Flank	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	382	Ser-rich.									ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					TTCTGGGTCATCTCAGACTGT	0.383													25	123					0	0	0.007291	0	0		G	32954335	G	G	32954335	3	3	129	1	0	0	0	0	1	0	0	0	12907	1435	50	5	1150	5	QSER1	11	32954335	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	18457004	32954335	102052181	109	71545											
OR4A15	81328	broad.mit.edu	37	chr11	55135904	55135904	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcctggattggaggctttcTtcactcattggttcaatttc	6	16	10	9	0	4	0	3	0	1	0	5	2	4	2	1	5	0	2	1	5	1	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:55135904T>G	uc010rif.1	+	1	545	c.545T>G	c.(544-546)CTT>CGT	p.L182R		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	182	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GGAGGCTTTCTTCACTCATTG	0.423													31	271					0	0	0.010818	0	0		G	55135904	G	G	55135904	3	3	129	1	0	0	0	0	1	0	0	0	11059	1609	56	5	547	5	OR4A15	11	55135904	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	22181569	55135904	79870612	110	71546											
OR4C15	81309	broad.mit.edu	37	chr11	55322128	55322128	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctcctatgtacttcttcTtgggcttcctgtccttcctg	2	19	7	13	0	3	0	0	0	3	0	7	0	6	0	4	1	1	2	4	1	2	7			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:55322128T>C	uc010rig.1	+	1	346	c.346T>C	c.(346-348)TTG>CTG	p.L116L		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	62	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GTACTTCTTCTTGGGCTTCCT	0.448										HNSCC(20;0.049)			23	268					0	0	0.012319	0	0		C	55322128	C	C	55322128	2	2	129	1	0	0	0	0	0	0	0	1	11067	1606	56	3		3	OR4C15	11	55322128	Silent	SNP	T	TCGA-CG-4436-01A-01D-1158-08	186224	55322128	79684388	111	71547											
OR4C15	81309	broad.mit.edu	37	chr11	55322572	55322572	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtttatctgcatcataaacTtctccttgttgcttgtctcc	6	18	6	11	0	4	0	1	0	3	0	6	0	4	0	2	1	3	4	2	1	3	7			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:55322572T>C	uc010rig.1	+	1	790	c.790T>C	c.(790-792)TTC>CTC	p.F264L		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CATCATAAACTTCTCCTTGTT	0.478										HNSCC(20;0.049)			13	115					0	0	0.013537	0	0		C	55322572	C	C	55322572	3	2	129	1	0	0	0	0	1	0	0	0	11067	1609	56	3	792	3	OR4C15	11	55322572	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	444	55322572	79683944	112	71548											
OR5L2	26338	broad.mit.edu	37	chr11	55595575	55595575	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgatctacagcctgagaaAtaaggatgtgaacaaagctc	15	8	9	9	0	1	3	0	3	1	1	2	5	1	4	2	1	4	1	2	1	5	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:55595575A>T	uc001nhy.1	+	1	881	c.881A>T	c.(880-882)AAT>ATT	p.N294I		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	294	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				AGCCTGAGAAATAAGGATGTG	0.468										HNSCC(27;0.073)			5	73					0	0	0.001984	0	0		T	55595575	T	T	55595575	3	4	129	1	0	0	0	0	1	0	0	0	11190	101	4	5	883	5	OR5L2	11	55595575	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	273003	55595575	79410941	113	71549											
OR5W2	390148	broad.mit.edu	37	chr11	55681965	55681965	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaatgatataaacagccaAgaatacagcaaatagggtca	20	8	7	6	0	1	2	1	1	0	1	1	2	1	2	1	1	4	1	1	1	9	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:55681965A>G	uc010rir.1	-	1	94	c.94T>C	c.(94-96)TTG>CTG	p.L32L		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TAAACAGCCAAGAATACAGCA	0.353													10	54					0	0	0.008291	0	0		G	55681965	G	G	55681965	2	3	129	1	0	0	0	0	0	0	0	1	11204	69	3	3		3	OR5W2	11	55681965	Silent	SNP	A	TCGA-CG-4436-01A-01D-1158-08	86390	55681965	79324551	114	71550											
OR8H3	390152	broad.mit.edu	37	chr11	55890599	55890599	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctcttgggagtcaccatcTtctatggaactatgattttt	9	17	7	8	0	4	1	1	1	3	0	5	3	4	3	1	2	1	0	1	2	3	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:55890599T>C	uc001nii.1	+	1	751	c.751T>C	c.(751-753)TTC>CTC	p.F251L		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	251	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					AGTCACCATCTTCTATGGAAC	0.388													4	117					0	0	0.009096	0	0		C	55890599	C	C	55890599	3	2	129	1	0	0	0	0	1	0	0	0	11258	1609	56	3	753	3	OR8H3	11	55890599	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	208634	55890599	79115917	115	71551											
SLC29A2	3177	broad.mit.edu	37	chr11	66134027	66134027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggactactgggaatccCgttctcatctggggtgaggg	6	10	16	9	1	2	1	1	1	2	0	4	3	3	3	1	6	1	1	1	6	2	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:66134027C>T	uc001oht.2	-	8	971	c.742G>A	c.(742-744)GGG>AGG	p.G248R	SLC29A2_uc001ohs.2_Missense_Mutation_p.G128R|SLC29A2_uc010rpb.1_RNA|SLC29A2_uc009yrf.2_Missense_Mutation_p.G128R|SLC29A2_uc001ohu.2_Missense_Mutation_p.G248R|SLC29A2_uc001ohv.2_Intron|uc001ohw.1_5'Flank	NM_001532	NP_001523	Q14542	S29A2_HUMAN	solute carrier family 29 (nucleoside	248					cell proliferation|nucleobase, nucleoside and nucleotide metabolic process	basolateral plasma membrane|integral to plasma membrane|nuclear membrane|nucleolus	nucleoside transmembrane transporter activity			ovary(1)	1						CTGGGAATCCCGTTCTCATCT	0.577													4	59					0	0	0.009096	0	0		T	66134027	T	T	66134027	3	4	129	1	0	0	0	0	1	0	0	0	14560	652	23	1	648	1	SLC29A2	11	66134027	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	10243428	66134027	68872489	116	71552											
PDE2A	5138	broad.mit.edu	37	chr11	72291953	72291953	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccacctggaaagagttgtTtgtgcctctgtggtccaggt	6	12	14	9	0	1	1	0	0	1	1	2	2	2	2	4	4	1	2	4	4	1	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:72291953T>A	uc010rrc.1	-	24	2353	c.2110A>T	c.(2110-2112)AAC>TAC	p.N704Y	PDE2A_uc001oso.2_Missense_Mutation_p.N683Y|PDE2A_uc010rra.1_Missense_Mutation_p.N697Y|PDE2A_uc001osn.2_Missense_Mutation_p.N448Y|PDE2A_uc010rrb.1_Missense_Mutation_p.N695Y|PDE2A_uc010rrd.1_Missense_Mutation_p.N589Y	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	704	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	AAAGAGTTGTTTGTGCCTCTG	0.532													5	62					0	0	0.001168	0	0		A	72291953	A	A	72291953	3	1	129	1	0	0	0	0	1	0	0	0	11655	1841	64	5	747	5	PDE2A	11	72291953	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	6157926	72291953	62714563	117	71553											
FAT3	120114	broad.mit.edu	37	chr11	92531044	92531044	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgaaccggtcctaggcaTcatcaccatttgcaaagaac	13	8	8	12	2	2	1	2	0	0	1	4	3	3	1	3	2	3	2	3	2	4	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:92531044T>A	uc001pdj.3	+	9	4882	c.4865T>A	c.(4864-4866)ATC>AAC	p.I1622N		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1622	Cadherin 15.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GTCCTAGGCATCATCACCATT	0.443										TCGA Ovarian(4;0.039)			13	93					0	0	0.004007	0	0		A	92531044	A	A	92531044	3	1	129	1	0	0	0	0	1	0	0	0	5705	1435	50	5	4899	5	FAT3	11	92531044	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	20239091	92531044	42475472	118	71554											
TMEM133	83935	broad.mit.edu	37	chr11	100863358	100863358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtatccctcattgtcaccGttatccccctgcttcaaaat	8	14	4	15	1	3	0	3	0	0	0	5	0	5	0	4	0	1	3	4	0	4	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:100863358G>A	uc001pgf.2	+	1	548	c.319G>A	c.(319-321)GTT>ATT	p.V107I		NM_032021	NP_114410	Q9H2Q1	TM133_HUMAN	transmembrane protein 133	107	Helical; (Potential).					integral to membrane					0		Acute lymphoblastic leukemia(157;0.000869)|all_hematologic(158;0.014)		BRCA - Breast invasive adenocarcinoma(274;0.0675)		CATTGTCACCGTTATCCCCCT	0.413													59	136					0	0	0.01441	0	0		A	100863358	A	A	100863358	3	1	129	1	0	0	0	0	1	0	0	0	16074	1145	40	1	321	1	TMEM133	11	100863358	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	8332314	100863358	34143158	119	71555											
DDI1	414301	broad.mit.edu	37	chr11	103908678	103908678	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctaggatggtaagtgggcaAgatgagtcttcggacaagga	12	9	15	5	1	2	2	0	1	2	1	3	5	2	5	0	5	0	2	0	5	4	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:103908678A>C	uc001phr.2	+	1	1371	c.1128A>C	c.(1126-1128)CAA>CAC	p.Q376H	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	376					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		TAAGTGGGCAAGATGAGTCTT	0.443													8	57					0	0	0.004482	0	0		C	103908678	C	C	103908678	3	2	129	1	0	0	0	0	1	0	0	0	4331	69	3	5	1130	5	DDI1	11	103908678	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	3045320	103908678	31097838	120	71556											
FEZ1	9638	broad.mit.edu	37	chr11	125359440	125359440	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctaggttctcggtcttggcGttgtagttccgaaagcagac	7	12	13	9	3	2	1	0	0	2	1	4	2	3	1	1	3	1	6	1	3	3	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:125359440G>A	uc001qbx.2	-	2	386	c.234C>T	c.(232-234)AAC>AAT	p.N78N	FEZ1_uc010sbc.1_Silent_p.N78N|FEZ1_uc001qby.1_Silent_p.N78N	NM_005103	NP_005094	Q99689	FEZ1_HUMAN	zygin 1 isoform 1	78					axon guidance|cell adhesion|transport	microtubule|plasma membrane				central_nervous_system(3)|ovary(1)	4	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0934)		CGGTCTTGGCGTTGTAGTTCC	0.458													46	88					0	0	0.01441	0	0		A	125359440	A	A	125359440	2	1	129	1	0	0	0	0	0	0	0	1	5837	1136	40	1		1	FEZ1	11	125359440	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	21450762	125359440	9647076	121	71557											
OPCML	4978	broad.mit.edu	37	chr11	132527068	132527068	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccttcgtcatacacatccAcattttggatcatgatgctg	10	13	7	11	1	2	1	2	1	0	0	4	3	3	2	2	1	2	1	2	1	1	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr11:132527068A>G	uc001qgs.2	-	2	364	c.314T>C	c.(313-315)GTG>GCG	p.V105A	OPCML_uc001qgu.2_Missense_Mutation_p.V98A|OPCML_uc010sck.1_Missense_Mutation_p.V105A|OPCML_uc001qgt.2_Missense_Mutation_p.V105A|OPCML_uc010scl.1_Missense_Mutation_p.V64A	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	105	Ig-like C2-type 1.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		ATACACATCCACATTTTGGAT	0.502													13	90					0	0	0.00245	0	0		G	132527068	G	G	132527068	3	3	129	1	0	0	0	0	1	0	0	0	10893	159	6	3	747	3	OPCML	11	132527068	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	7167628	132527068	2479448	122	71558											
ATF7IP	55729	broad.mit.edu	37	chr12	14577210	14577210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccataatataactccagaaCcagtctctaaactgcctgct	13	10	4	14	0	1	1	0	0	1	1	3	1	2	1	4	0	5	1	4	0	6	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr12:14577210C>T	uc001rbw.2	+	2	519	c.361C>T	c.(361-363)CCA>TCA	p.P121S	ATF7IP_uc010shs.1_Missense_Mutation_p.P121S|ATF7IP_uc001rbu.2_Missense_Mutation_p.P121S|ATF7IP_uc001rbv.1_Missense_Mutation_p.P121S|ATF7IP_uc001rbx.2_Missense_Mutation_p.P121S|ATF7IP_uc010sht.1_Missense_Mutation_p.P121S|ATF7IP_uc001rby.3_Missense_Mutation_p.P121S|ATF7IP_uc001rbz.1_Missense_Mutation_p.P121S|ATF7IP_uc001rca.2_Missense_Mutation_p.P121S|ATF7IP_uc001rcb.2_5'Flank	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	121					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						AACTCCAGAACCAGTCTCTAA	0.463													8	96					0	0	0.004482	0	0		T	14577210	T	T	14577210	3	4	129	1	0	0	0	0	1	0	0	0	1088	507	18	4	363	4	ATF7IP	12	14577210	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08		14577210	119274685	123	71559											
PLCZ1	89869	broad.mit.edu	37	chr12	18865822	18865822	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggataacagttttaaacagaAgtttgcttgtgagtgtgtag	12	14	12	3	0	0	2	0	1	0	1	0	3	0	3	0	1	3	4	0	1	5	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr12:18865822A>C	uc010sid.1	-	6	859	c.668T>G	c.(667-669)CTT>CGT	p.L223R	PLCZ1_uc001rdv.3_Missense_Mutation_p.L119R|PLCZ1_uc001rdw.3_Intron|PLCZ1_uc001rdu.1_5'UTR|PLCZ1_uc009zil.1_RNA	NM_033123	NP_149114	Q86YW0	PLCZ1_HUMAN	phospholipase C, zeta 1	223	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process|multicellular organismal development	nucleus|perinuclear region of cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)					TTTAAACAGAAGTTTGCTTGT	0.378													5	37					0	0	0.000602	0	0		C	18865822	C	C	18865822	3	2	129	1	0	0	0	0	1	0	0	0	12063	72	3	5	1198	5	PLCZ1	12	18865822	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	4288612	18865822	114986073	124	71560											
GYS2	2998	broad.mit.edu	37	chr12	21733310	21733310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tattcattgcgtccactgctCttctgacagcatcatttaca	9	15	5	12	1	4	1	2	1	2	0	5	1	5	1	1	0	4	2	1	0	2	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr12:21733310C>T	uc001rfb.2	-	2	524	c.269G>A	c.(268-270)AGA>AAA	p.R90K		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	90					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						GTCCACTGCTCTTCTGACAGC	0.408													17	181					0	0	0.008871	0	0		T	21733310	T	T	21733310	3	4	129	1	0	0	0	0	1	0	0	0	6929	913	32	4	1902	4	GYS2	12	21733310	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	2867488	21733310	112118585	125	71561											
TM7SF3	51768	broad.mit.edu	37	chr12	27148201	27148201	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccttcacctggggcacaCtgaccatcctctgcagatgc	7	9	10	15	0	2	2	1	1	1	1	3	2	3	2	4	3	2	2	4	3	0	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr12:27148201C>A	uc010sjl.1	-	5	897	c.659G>T	c.(658-660)AGT>ATT	p.S220I		NM_016551	NP_057635	Q9NS93	TM7S3_HUMAN	transmembrane 7 superfamily member 3 precursor	220						integral to membrane|plasma membrane				upper_aerodigestive_tract(2)	2	Colorectal(261;0.0847)					CTGGGGCACACTGACCATCCT	0.498													44	58					1.23713e-20	1.35363e-20	0.01441	1	0		A	27148201	A	A	27148201	3	1	129	1	0	0	0	0	1	0	0	0	16000	565	20	5	1085	5	TM7SF3	12	27148201	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	5414891	27148201	106703694	126	71562											
CPNE8	144402	broad.mit.edu	37	chr12	39087498	39087498	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccttccatctggaggcagTtttgcaccaaatcctagagc	10	11	8	12	0	1	1	0	0	1	1	4	2	4	2	4	2	2	3	4	2	2	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr12:39087498T>G	uc001rls.1	-	15	1188	c.1104A>C	c.(1102-1104)AAA>AAC	p.K368N	CPNE8_uc001rlr.1_Missense_Mutation_p.K27N	NM_153634	NP_705898	Q86YQ8	CPNE8_HUMAN	copine VIII	368	VWFA.									pancreas(1)	1	Esophageal squamous(101;0.187)	Lung NSC(34;0.137)|Melanoma(24;0.152)|all_lung(34;0.157)				CTGGAGGCAGTTTTGCACCAA	0.353													5	139					0	0	0.001168	0	0		G	39087498	G	G	39087498	3	3	129	1	0	0	0	0	1	0	0	0	3821	1722	60	5	614	5	CPNE8	12	39087498	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	11939297	39087498	94764397	127	71563											
SLC38A4	55089	broad.mit.edu	37	chr12	47173394	47173394	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtcatcacatcacttacCacactaacaaaaaacaccat	18	8	1	14	0	3	0	3	0	0	0	3	0	3	0	2	0	3	0	2	0	5	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr12:47173394C>T	uc001rpi.2	-	10	1116	c.717G>A	c.(715-717)GTG>GTA	p.V239V	SLC38A4_uc001rpj.2_Silent_p.V239V|SLC38A4_uc009zkl.2_Silent_p.V239V	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	239	Helical; (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Lung SC(27;0.192)|Renal(347;0.236)					CATCACTTACCACACTAACAA	0.378													15	94					0	0	0.004007	0	0		T	47173394	T	T	47173394	2	4	129	1	0	0	0	0	0	0	0	1	14631	608	21	4		4	SLC38A4	12	47173394	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	8085896	47173394	86678501	128	71564											
VDR	7421	broad.mit.edu	37	chr12	48272758	48272758	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggagggctcacctgaagaAgcctttgcagccttcacagg	10	7	13	11	0	2	2	2	1	0	1	2	4	2	3	3	3	3	2	3	3	2	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr12:48272758A>T	uc001rqm.2	-	4	421	c.139T>A	c.(139-141)TTC>ATC	p.F47I	VDR_uc001rql.2_Missense_Mutation_p.F97I|VDR_uc001rqn.2_Missense_Mutation_p.F47I|VDR_uc010slq.1_5'UTR	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	47	Nuclear receptor.		F -> I (in VDDR2A).		decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	CACCTGAAGAAGCCTTTGCAG	0.557													4	65					0	0	0.000602	0	0		T	48272758	T	T	48272758	3	4	129	1	0	0	0	0	1	0	0	0	17175	72	3	5	1176	5	VDR	12	48272758	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	1099364	48272758	85579137	129	71565											
AQP2	359	broad.mit.edu	37	chr12	50344953	50344953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacgccagcagacatccgcGgggacctggctgtcaatgct	8	7	12	14	3	2	1	2	0	0	1	3	2	3	2	3	3	2	3	3	3	1	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr12:50344953G>A	uc001rvn.2	+	1	430	c.340G>A	c.(340-342)GGG>AGG	p.G114R		NM_000486	NP_000477	P41181	AQP2_HUMAN	aquaporin 2	114	Extracellular (Potential).				cellular response to copper ion|cellular response to mercury ion|excretion	apical plasma membrane|integral to membrane|transport vesicle membrane	glycerol transmembrane transporter activity|water channel activity			ovary(2)	2						AGACATCCGCGGGGACCTGGC	0.627													5	10					0	0	0.001168	0	0		A	50344953	A	A	50344953	3	1	129	1	0	0	0	0	1	0	0	0	826	1116	39	1	342	1	AQP2	12	50344953	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	2072195	50344953	83506942	130	71566											
KRT5	3852	broad.mit.edu	37	chr12	52910460	52910460	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcttgcggtaagtggcgAtctccacgtccagggccagc	7	7	14	13	3	1	0	0	0	1	0	3	1	2	0	3	3	3	3	3	3	1	2	rs60271599		TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr12:52910460A>G	uc001san.2	-	7	1563	c.1400T>C	c.(1399-1401)ATC>ACC	p.I467T	KRT5_uc009zmh.2_Missense_Mutation_p.I467T	NM_000424	NP_000415	P13647	K2C5_HUMAN	keratin 5	467	Rod.|Coil 2.		I -> T (in DM-EBS).		epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		GTAAGTGGCGATCTCCACGTC	0.587													18	141					0	0	0.014323	0	0		G	52910460	G	G	52910460	3	3	129	1	0	0	0	0	1	0	0	0	8495	333	12	3	384	3	KRT5	12	52910460	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	2565507	52910460	80941435	131	71567											
MYO1H	283446	broad.mit.edu	37	chr12	109826622	109826622	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttgtcgacaacctccgCaagcgtttcagcgagaacct	9	9	9	14	4	1	1	1	0	0	1	3	3	2	1	4	0	4	2	4	0	3	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr12:109826622C>A	uc010sxn.1	+	1	99	c.99C>A	c.(97-99)CGC>CGA	p.R33R		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						ACAACCTCCGCAAGCGTTTCA	0.527													19	313					4.72057e-08	5.05184e-08	0.003954	1	0		A	109826622	A	A	109826622	2	1	129	1	0	0	0	0	0	0	0	1	10093	697	25	5		5	MYO1H	12	109826622	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	56916162	109826622	24025273	132	71568											
KNTC1	9735	broad.mit.edu	37	chr12	123019236	123019236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaaatccaaagatacaggCatgcagcttaagtgatgggt	15	10	10	6	0	0	2	0	1	0	1	1	2	1	2	1	2	3	3	1	2	5	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr12:123019236C>T	uc001ucv.2	+	3	318	c.155C>T	c.(154-156)GCA>GTA	p.A52V	KNTC1_uc010taf.1_Missense_Mutation_p.A52V	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	52					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		AAGATACAGGCATGCAGCTTA	0.338													3	7					0	0	0.009096	0	0		T	123019236	T	T	123019236	3	4	129	1	0	0	0	0	1	0	0	0	8444	710	25	2	161	2	KNTC1	12	123019236	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	13192614	123019236	10832659	133	71569											
FZD10	11211	broad.mit.edu	37	chr12	130648113	130648113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagcgcgtcgtgcgcgcCgctctgcacgcccggcgtgg	4	5	17	15	9	1	1	0	0	1	1	2	2	1	1	2	2	3	2	2	2	1	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr12:130648113C>T	uc001uii.2	+	1	1082	c.626C>T	c.(625-627)CCG>CTG	p.P209L	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	209	Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		TCGTGCGCGCCGCTCTGCACG	0.602													3	25					0	0	0.009096	0	0		T	130648113	T	T	130648113	3	4	129	1	0	0	0	0	1	0	0	0	6143	652	23	1	628	1	FZD10	12	130648113	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	7628877	130648113	3203782	134	71570											
USPL1	10208	broad.mit.edu	37	chr13	31232148	31232148	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatgtaatgaaaagcttaTtcaagaccaatttgtggaca	15	12	7	7	0	1	2	1	1	0	1	2	3	2	3	2	1	1	2	2	1	6	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr13:31232148T>C	uc001utc.2	+	9	2366	c.1934T>C	c.(1933-1935)ATT>ACT	p.I645T	USPL1_uc001utd.2_Missense_Mutation_p.I316T|USPL1_uc001ute.1_Missense_Mutation_p.I316T	NM_005800	NP_005791	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	645					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			pancreas(2)|skin(1)	3		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0306)|Epithelial(112;0.131)|OV - Ovarian serous cystadenocarcinoma(117;0.134)		GAAAAGCTTATTCAAGACCAA	0.348													22	126					0	0	0.012319	0	0		C	31232148	C	C	31232148	3	2	129	1	0	0	0	0	1	0	0	0	17118	1493	52	3	1964	3	USPL1	13	31232148	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08		31232148	83937730	135	71571											
NBEA	26960	broad.mit.edu	37	chr13	36006493	36006493	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaatgcatttggctccacTcatgctgaagcattgctgaa	10	11	9	11	1	1	2	1	2	0	0	2	2	2	2	1	1	4	6	1	1	3	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr13:36006493T>G	uc001uvb.2	+	39	6473	c.6267T>G	c.(6265-6267)ACT>ACG	p.T2089T	NBEA_uc010abi.2_Silent_p.T745T	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2089						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TTGGCTCCACTCATGCTGAAG	0.433													10	19					0	0	0.008291	0	0		G	36006493	G	G	36006493	2	3	129	1	0	0	0	0	0	0	0	1	10205	1538	54	5		5	NBEA	13	36006493	Silent	SNP	T	TCGA-CG-4436-01A-01D-1158-08	4774345	36006493	79163385	136	71572											
ENOX1	55068	broad.mit.edu	37	chr13	43896631	43896631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcactttgagcattccGgagctcctgcaagtagagga	9	10	11	11	1	1	2	1	1	0	1	3	4	3	4	2	2	4	5	2	2	2	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr13:43896631G>A	uc001uza.3	-	11	1450	c.1150C>T	c.(1150-1152)CGG>TGG	p.R384W	ENOX1_uc001uzb.3_Missense_Mutation_p.R384W|ENOX1_uc001uzc.3_Missense_Mutation_p.R384W|ENOX1_uc001uyz.3_5'UTR|ENOX1_uc010tfm.1_Missense_Mutation_p.R197W	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	384					electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		TGAGCATTCCGGAGCTCCTGC	0.448													17	135					0	0	0.012319	0	0		A	43896631	A	A	43896631	3	1	129	1	0	0	0	0	1	0	0	0	5134	1115	39	1	809	1	ENOX1	13	43896631	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	7890138	43896631	71273247	137	71573											
C13orf31	144811	broad.mit.edu	37	chr13	44455529	44455529	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatttgaagatttgcaagtGacttttaggggagggctttt	10	15	13	3	0	0	3	0	2	0	1	0	5	0	4	0	3	1	2	0	3	4	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr13:44455529G>T	uc010acg.2	+	2	893	c.408G>T	c.(406-408)GTG>GTT	p.V136V	CCDC122_uc010acf.2_5'Flank|C13orf31_uc001uzf.3_Silent_p.V136V	NM_001128303	NP_001121775	Q8IV20	CM031_HUMAN	hypothetical protein LOC144811	136											0		Lung NSC(96;0.000163)|all_hematologic(4;0.0127)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Breast(139;0.0364)|Lung SC(185;0.0367)|Acute lymphoblastic leukemia(4;0.138)		GBM - Glioblastoma multiforme(144;0.000573)|BRCA - Breast invasive adenocarcinoma(63;0.121)		ATTTGCAAGTGACTTTTAGGG	0.328													8	190					0.00448238	0.00465405	0.004482	1	0		T	44455529	T	T	44455529	2	4	129	1	0	0	0	0	0	0	0	1	1729	1277	45	5		5	C13orf31	13	44455529	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	558898	44455529	70714349	138	71574											
THSD1	55901	broad.mit.edu	37	chr13	52952648	52952648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtcccctggactccccGtgggcccgtctcccccatcc	2	9	9	21	2	1	0	0	0	1	0	5	1	4	1	8	2	0	0	8	2	0	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr13:52952648G>A	uc001vgo.2	-	5	2002	c.1457C>T	c.(1456-1458)ACG>ATG	p.T486M	THSD1_uc001vgp.2_Missense_Mutation_p.T433M|THSD1_uc010tgz.1_Missense_Mutation_p.T107M|THSD1_uc010aea.2_Translation_Start_Site	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	486	Cytoplasmic (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		TGGACTCCCCGTGGGCCCGTC	0.652													12	177					0	0	0.001855	0	0		A	52952648	A	A	52952648	3	1	129	1	0	0	0	0	1	0	0	0	15902	1145	40	1	1105	1	THSD1	13	52952648	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	8497119	52952648	62217230	139	71575											
PCDH17	27253	broad.mit.edu	37	chr13	58299057	58299057	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaggtcccctcagcatcaAgcagcccaaccaaggcgtgc	12	4	10	15	1	2	1	2	0	0	1	3	1	3	1	4	2	5	2	4	2	4	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr13:58299057A>C	uc001vhq.1	+	4	4001	c.3109A>C	c.(3109-3111)AGC>CGC	p.S1037R	PCDH17_uc010aec.1_Missense_Mutation_p.S1036R|PCDH17_uc001vhr.1_Missense_Mutation_p.S126R	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	1037	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CTCAGCATCAAGCAGCCCAAC	0.532													6	169					0	0	0.004482	0	0		C	58299057	C	C	58299057	3	2	129	1	0	0	0	0	1	0	0	0	11531	72	3	5	3123	5	PCDH17	13	58299057	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	5346409	58299057	56870821	140	71576											
SCEL	8796	broad.mit.edu	37	chr13	78130848	78130848	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaacgccctgaagaagaaaAgtaagctggtgtggagcgtg	14	6	15	6	2	0	3	0	1	0	2	0	5	0	4	1	2	3	2	1	2	6	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr13:78130848A>C	uc001vki.2	+	3	331	c.161A>C	c.(160-162)AAA>ACA	p.K54T	SCEL_uc001vkj.2_Missense_Mutation_p.K54T|SCEL_uc010thx.1_Missense_Mutation_p.K54T	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	54					embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		GAAGAAGAAAAGTAAGCTGGT	0.453													4	91					0	0	0.009096	0	0		C	78130848	C	C	78130848	3	2	129	1	0	0	0	0	1	0	0	0	13913	86	3	5	167	5	SCEL	13	78130848	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	19831791	78130848	37039030	141	71577											
SLITRK1	114798	broad.mit.edu	37	chr13	84453960	84453960	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttctaaagaagttcacCggcgtctcacacttgaggtc	9	12	8	12	2	3	2	2	1	2	1	6	2	4	2	2	2	0	1	2	2	3	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr13:84453960C>T	uc001vlk.2	-	1	2569	c.1683G>A	c.(1681-1683)CCG>CCA	p.P561P		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	561	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		AGAAGTTCACCGGCGTCTCAC	0.522													15	18					0	0	0.00245	0	0		T	84453960	T	T	84453960	2	4	129	1	0	0	0	0	0	0	0	1	14767	639	23	1		1	SLITRK1	13	84453960	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	6323112	84453960	30715918	142	71578											
PRKD1	5587	broad.mit.edu	37	chr14	30068245	30068245	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacttgcctgaggaaaaggAtcagctgaggctagcaacac	14	7	11	9	0	1	2	1	2	0	0	1	4	1	4	1	3	5	3	1	3	5	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr14:30068245A>G	uc001wqh.2	-	15	2335	c.2154T>C	c.(2152-2154)GAT>GAC	p.D718D		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	718	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		GAGGAAAAGGATCAGCTGAGG	0.423													23	144					0	0	0.007291	0	0		G	30068245	G	G	30068245	2	3	129	1	0	0	0	0	0	0	0	1	12540	330	12	3		3	PRKD1	14	30068245	Silent	SNP	A	TCGA-CG-4436-01A-01D-1158-08		30068245	77281295	143	71579											
PPP2R3C	55012	broad.mit.edu	37	chr14	35554856	35554856	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaacaagagcctctctgttCtcgtaagtccagaagccatt	11	10	8	12	1	2	2	0	0	2	2	5	2	3	2	3	0	3	3	3	0	4	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr14:35554856C>T	uc001wss.2	-	13	1656	c.1302G>A	c.(1300-1302)GAG>GAA	p.E434E	PPP2R3C_uc001wst.2_Silent_p.E318E|PPP2R3C_uc010tpr.1_Silent_p.E318E|PPP2R3C_uc001wsu.2_RNA	NM_017917	NP_060387	Q969Q6	P2R3C_HUMAN	serine/threonine-protein phosphatase 2A	434						centrosome|nucleus	calcium ion binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;8.62e-06)|LUAD - Lung adenocarcinoma(48;1.42e-05)|Epithelial(34;0.0177)|all cancers(34;0.0491)	GBM - Glioblastoma multiforme(112;0.0803)		CCTCTCTGTTCTCGTAAGTCC	0.383													10	77					0	0	0.008291	0	0		T	35554856	T	T	35554856	2	4	129	1	0	0	0	0	0	0	0	1	12412	912	32	4		4	PPP2R3C	14	35554856	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	5486611	35554856	71794684	144	71580											
LRFN5	145581	broad.mit.edu	37	chr14	42356892	42356892	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtaaaggatacaggtgcttTtacctgcattgcttccaatc	10	14	8	9	0	0	0	0	0	0	0	2	1	1	1	2	2	5	4	2	2	5	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr14:42356892T>G	uc001wvm.2	+	3	2262	c.1064T>G	c.(1063-1065)TTT>TGT	p.F355C	LRFN5_uc010ana.2_Missense_Mutation_p.F355C	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	355	Extracellular (Potential).|Ig-like.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		ACAGGTGCTTTTACCTGCATT	0.388										HNSCC(30;0.082)			8	156					0	0	0.00308	0	0		G	42356892	G	G	42356892	3	3	129	1	0	0	0	0	1	0	0	0	8959	1841	64	5	1066	5	LRFN5	14	42356892	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	6802036	42356892	64992648	145	71581											
C14orf106	55320	broad.mit.edu	37	chr14	45716199	45716199	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttttaatccatccttgttGggctttatagcactgatatc	8	19	6	8	0	0	1	0	1	0	0	3	1	2	1	2	1	1	3	2	1	4	9			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr14:45716199G>A	uc001wwf.2	-	2	750	c.291C>T	c.(289-291)CCC>CCT	p.P97P	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	97					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						CATCCTTGTTGGGCTTTATAG	0.313													9	104					0	0	0.004482	0	0		A	45716199	A	A	45716199	2	1	129	1	0	0	0	0	0	0	0	1	1741	1335	47	4		4	C14orf106	14	45716199	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	3359307	45716199	61633341	146	71582											
ABHD12B	145447	broad.mit.edu	37	chr14	51368592	51368592	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtacacttatggatgccCtgagaaaagacaaaataatc	17	9	7	8	1	0	2	0	1	0	2	1	4	0	3	1	1	3	1	1	1	8	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr14:51368592C>G	uc001wys.2	+	10	841	c.826C>G	c.(826-828)CTG>GTG	p.L276V	ABHD12B_uc001wyq.2_Missense_Mutation_p.L169V|ABHD12B_uc001wyr.2_Missense_Mutation_p.L199V|ABHD12B_uc010any.2_RNA	NM_181533	NP_853511	Q7Z5M8	AB12B_HUMAN	abhydrolase domain containing 12B isoform b	276							hydrolase activity			breast(1)	1	all_epithelial(31;0.00481)|Breast(41;0.148)					TATGGATGCCCTGAGAAAAGA	0.308													4	60					0	0	0.000602	0	0		G	51368592	G	G	51368592	3	3	129	1	0	0	0	0	1	0	0	0	77	680	24	5	643	5	ABHD12B	14	51368592	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	5652393	51368592	55980948	147	71583											
RHOJ	57381	broad.mit.edu	37	chr14	63735880	63735880	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcggactgtatgacaccgcGggacaggtacatttttatta	10	12	10	9	3	0	1	0	1	0	0	1	3	0	3	1	3	1	2	1	3	4	6	rs148425776		TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr14:63735880G>A	uc001xgb.1	+	2	674	c.231G>A	c.(229-231)GCG>GCA	p.A77A		NM_020663	NP_065714	Q9H4E5	RHOJ_HUMAN	ras homolog gene family, member J precursor	77	GTP (By similarity).				actin cytoskeleton organization|regulation of cell shape|regulation of small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.00326)|all cancers(60;0.031)|BRCA - Breast invasive adenocarcinoma(234;0.119)		ATGACACCGCGGGACAGGTAC	0.398													37	24					0	0	0.010771	0	0		A	63735880	A	A	63735880	2	1	129	1	0	0	0	0	0	0	0	1	13366	1103	39	1		1	RHOJ	14	63735880	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	12367288	63735880	43613660	148	71584											
SIPA1L1	26037	broad.mit.edu	37	chr14	72138230	72138230	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttagggatctccaatgagTtcattgtgctcattgaacag	10	15	9	7	0	3	2	2	2	1	0	4	3	3	3	1	1	2	2	1	1	3	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr14:72138230T>C	uc001xms.2	+	8	2998	c.2650T>C	c.(2650-2652)TTC>CTC	p.F884L	SIPA1L1_uc001xmt.2_Missense_Mutation_p.F884L|SIPA1L1_uc001xmu.2_Missense_Mutation_p.F884L|SIPA1L1_uc001xmv.2_Missense_Mutation_p.F884L|SIPA1L1_uc010ttm.1_Missense_Mutation_p.F359L	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	884					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		CTCCAATGAGTTCATTGTGCT	0.488													6	140					0	0	0.001984	0	0		C	72138230	C	C	72138230	3	2	129	1	0	0	0	0	1	0	0	0	14354	1725	60	3	2676	3	SIPA1L1	14	72138230	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	8402350	72138230	35211310	149	71585											
TJP1	7082	broad.mit.edu	37	chr15	30010566	30010567	+	Missense_Mutation	DNP	CT	GG	GG																															ctggtgagtacagactgtggCttcattgctggatcttcctc																										TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr15:30010566_30010567CT>GG	uc001zcr.2	-	21	4254_4255	c.3779_3780AG>CC	c.(3778-3780)AAG>ACC	p.K1260T	TJP1_uc010azl.2_Missense_Mutation_p.K1248T|TJP1_uc001zcq.2_Missense_Mutation_p.K1184T|TJP1_uc001zcs.2_Missense_Mutation_p.K1180T	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	1260					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		CAGACTGTGGCTTCATTGCTGG	0.441													10	77					0	0	0.004672	0	0		GG	30010567	GG	GG	30010566	3	3	129	1	0	0	0	0	1	0	0	0	15954	796	28	5	1498	5	TJP1	15	30010566	Missense_Mutation	DNP	CT	TCGA-CG-4436-01A-01D-1158-08		30010566	72520826	150	71586											
RYR3	6263	broad.mit.edu	37	chr15	34134178	34134178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcagaaggttgagaagcCggaagctttcacagccaatt	12	9	12	8	1	2	2	2	1	0	2	2	4	2	3	2	3	3	2	2	3	4	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr15:34134178C>T	uc001zhi.2	+	91	13221	c.13151C>T	c.(13150-13152)CCG>CTG	p.P4384L	RYR3_uc010bar.2_Missense_Mutation_p.P4379L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4384					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GTTGAGAAGCCGGAAGCTTTC	0.473													4	1					0	0	0.000602	0	0		T	34134178	T	T	34134178	3	4	129	1	0	0	0	0	1	0	0	0	13795	652	23	1	13513	1	RYR3	15	34134178	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	4123612	34134178	68397214	151	71587											
GPR176	11245	broad.mit.edu	37	chr15	40094423	40094423	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggacttggcatcagatattTtcctctccagtggatagagg	9	12	12	8	0	2	2	1	0	1	2	4	4	3	4	2	4	0	1	2	4	2	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr15:40094423T>C	uc001zkj.1	-	3	1324	c.458A>G	c.(457-459)AAA>AGA	p.K153R	GPR176_uc010uck.1_Missense_Mutation_p.K93R	NM_007223	NP_009154	Q14439	GP176_HUMAN	G protein-coupled receptor 176	153	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		all_cancers(109;4.05e-15)|all_epithelial(112;2.96e-13)|Lung NSC(122;8.53e-11)|all_lung(180;2.71e-09)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;4.4e-06)|BRCA - Breast invasive adenocarcinoma(123;0.123)		ATCAGATATTTTCCTCTCCAG	0.448											OREG0023053	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	36					0	0	0.01441	0	0		C	40094423	C	C	40094423	3	2	129	1	0	0	0	0	1	0	0	0	6688	1841	64	3	1093	3	GPR176	15	40094423	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	5960245	40094423	62436969	152	71588											
SEMA6D	80031	broad.mit.edu	37	chr15	48052517	48052517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagattcaaggcaatatccGgtttttagaggacgcccttc	10	11	10	10	2	1	2	1	0	0	2	3	3	2	3	2	3	0	3	2	3	4	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr15:48052517G>A	uc010bek.2	+	3	486	c.126G>A	c.(124-126)CCG>CCA	p.P42P	SEMA6D_uc001zvw.2_Silent_p.P42P|SEMA6D_uc001zvx.1_Silent_p.P42P|SEMA6D_uc001zvy.2_Silent_p.P42P|SEMA6D_uc001zvz.2_Silent_p.P42P|SEMA6D_uc001zwa.2_Silent_p.P42P|SEMA6D_uc001zwb.2_Silent_p.P42P|SEMA6D_uc001zwc.2_Silent_p.P42P	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	42	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		GGCAATATCCGGTTTTTAGAG	0.413													21	19					0	0	0.012319	0	0		A	48052517	A	A	48052517	2	1	129	1	0	0	0	0	0	0	0	1	14067	1103	39	1		1	SEMA6D	15	48052517	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	7958094	48052517	54478875	153	71589											
USP8	9101	broad.mit.edu	37	chr15	50791187	50791187	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggtttaagtttgatgatcatGaagtttctgatatctccgtt	9	18	9	5	1	3	4	1	4	2	0	4	4	3	4	1	1	0	4	1	1	3	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr15:50791187G>C	uc001zym.3	+	21	3759	c.3259G>C	c.(3259-3261)GAA>CAA	p.E1087Q	USP8_uc001zyl.3_Missense_Mutation_p.E1087Q|USP8_uc001zyn.3_Missense_Mutation_p.E1087Q|USP8_uc010ufh.1_Missense_Mutation_p.E981Q|USP8_uc001zyp.3_Missense_Mutation_p.E254Q	NM_001128611	NP_001122083	P40818	UBP8_HUMAN	ubiquitin specific peptidase 8	1087					cell cycle|cell proliferation|endosome organization|protein K48-linked deubiquitination|protein K63-linked deubiquitination|ubiquitin-dependent protein catabolic process	cytosol|early endosome|extrinsic to plasma membrane|nucleus	cysteine-type endopeptidase activity|SH3 domain binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)|central_nervous_system(1)	2				all cancers(107;0.000225)|GBM - Glioblastoma multiforme(94;0.000771)		TGATGATCATGAAGTTTCTGA	0.423													9	85					0	0	0.004482	0	0		C	50791187	C	C	50791187	3	2	129	1	0	0	0	0	1	0	0	0	17115	1291	45	5	3333	5	USP8	15	50791187	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	2738670	50791187	51740205	154	71590											
SGK269	79834	broad.mit.edu	37	chr15	77407493	77407493	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttcagtctcttccatgtcatCctcatccttttcagggtcat	6	17	5	13	0	6	0	5	0	1	0	10	0	9	0	3	1	0	0	3	1	0	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr15:77407493C>G	uc002bcm.2	-	6	4554	c.4246G>C	c.(4246-4248)GAT>CAT	p.D1416H		NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	1416	Protein kinase.				cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		TCCATGTCATCCTCATCCTTT	0.488													11	102					0	0	0.008291	0	0		G	77407493	G	G	77407493	3	3	129	1	0	0	0	0	1	0	0	0	14236	855	30	5	998	5	SGK269	15	77407493	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	26616306	77407493	25123899	155	71591											
MEX3B	84206	broad.mit.edu	37	chr15	82336855	82336857	+	In_Frame_Del	DEL	TCC	-	-																															ccctccgagccatggccacaTcctccttcctgcccgtcaca																										TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr15:82336855_82336857delTCC	uc002bgq.1	-	2	669_671	c.354_356delGGA	c.(352-357)GAGGAT>GAT	p.E118del		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	118	KH 1.				protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						CATGGCCACATCCTCCTTCCTGC	0.576													11	25	---	---	---	---						.	-	82336857	-	-	82336855	7	5	129	1	0	1	0	1	0	0	0	0	9528	1435	50	0	1357	0	MEX3B	15	82336855	In_Frame_Del	DEL	TCC	TCGA-CG-4436-01A-01D-1158-08	4929362	82336855	20194537	156	71592											
RHBDF1	64285	broad.mit.edu	37	chr16	108437	108437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacagcggacaggatagaCgtagaagaggaccaccaggc	14	3	13	11	2	1	3	1	0	0	3	1	6	1	6	2	4	1	1	2	4	3	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr16:108437C>T	uc002cfl.3	-	21	2618	c.2470G>A	c.(2470-2472)GTC>ATC	p.V824I		NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	824	Helical; (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				ACAGGATAGACGTAGAAGAGG	0.557													111	172					0	0	0.01441	0	0		T	108437	T	T	108437	3	4	129	1	0	0	0	0	1	0	0	0	13344	536	19	1	101	1	RHBDF1	16	108437	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08		108437	90246316	157	71593											
BTBD12	84464	broad.mit.edu	37	chr16	3639115	3639115	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaaacgtcccacagagcCgaattcagaaagctcggcct	12	6	8	15	3	1	2	1	0	0	2	4	3	3	2	4	1	3	1	4	1	3	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr16:3639115C>T	uc002cvp.2	-	12	5151	c.4524G>A	c.(4522-4524)TCG>TCA	p.S1508S		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1508	Interaction with MUS81.|Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						CCCACAGAGCCGAATTCAGAA	0.632								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				22	226					0	0	0.003954	0	0		T	3639115	T	T	3639115	2	4	129	1	0	0	0	0	0	0	0	1	1543	639	23	1		1	BTBD12	16	3639115	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	3530678	3639115	86715638	158	71594											
DNAH3	55567	broad.mit.edu	37	chr16	21008739	21008739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actgcctcaggagctcgatgGgtggctgggccccatacacc	7	7	13	14	1	1	0	1	0	0	0	2	2	1	1	4	4	3	2	4	4	1	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr16:21008739G>A	uc010vbe.1	-	44	6467	c.6467C>T	c.(6466-6468)CCC>CTC	p.P2156L		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2156	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GAGCTCGATGGGTGGCTGGGC	0.522													10	104					0	0	0.013537	0	0		A	21008739	A	A	21008739	3	1	129	1	0	0	0	0	1	0	0	0	4609	1232	43	4	5958	4	DNAH3	16	21008739	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	17369624	21008739	69346014	159	71595											
SETD1A	9739	broad.mit.edu	37	chr16	30980994	30980994	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtggataccacaaagaaggaGacagaggtgtcggatggtga	14	6	16	5	1	0	4	0	1	0	3	1	7	0	6	1	5	1	0	1	5	3	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr16:30980994G>C	uc002ead.1	+	12	3686	c.3000G>C	c.(2998-3000)GAG>GAC	p.E1000D		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1000	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						CAAAGAAGGAGACAGAGGTGT	0.507													6	81					0	0	0.001168	0	0		C	30980994	C	C	30980994	3	2	129	1	0	0	0	0	1	0	0	0	14155	933	33	5	3042	5	SETD1A	16	30980994	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	9972255	30980994	59373759	160	71596											
VKORC1	79001	broad.mit.edu	37	chr16	31104640	31104640	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggagccactcacctaacaaTagctgtagtgtgtagaagat	13	9	10	9	1	1	2	1	0	0	2	1	3	1	3	2	1	3	3	2	1	6	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr16:31104640T>A	uc002eas.2	-	2	502	c.276A>T	c.(274-276)CTA>CTT	p.L92L	PRSS53_uc002ear.2_5'UTR|VKORC1_uc002eat.2_Intron|VKORC1_uc002eau.2_Silent_p.L92L	NM_024006	NP_076869	Q9BQB6	VKOR1_HUMAN	vitamin K epoxide reductase complex, subunit 1	92	Cytoplasmic (Potential).				peptidyl-glutamic acid carboxylation|post-translational protein modification	endoplasmic reticulum membrane|integral to membrane	vitamin-K-epoxide reductase (warfarin-sensitive) activity				0					Acenocoumarol(DB01418)|Dicumarol(DB00266)|Menadione(DB00170)|Phenindione(DB00498)|Phenprocoumon(DB00946)|Warfarin(DB00682)	CACCTAACAATAGCTGTAGTG	0.343													33	51					0	0	0.005524	0	0		A	31104640	A	A	31104640	2	1	129	1	0	0	0	0	0	0	0	1	17198	1393	49	5		5	VKORC1	16	31104640	Silent	SNP	T	TCGA-CG-4436-01A-01D-1158-08	123646	31104640	59250113	161	71597											
TMEM102	284114	broad.mit.edu	37	chr17	7339728	7339728	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggaatcctgttacgcacagGtctgcctcccagagatggtg	8	10	12	11	1	1	1	0	0	1	1	3	3	3	2	3	3	2	2	3	3	2	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr17:7339728G>T	uc002ggx.1	+	3	703	c.430G>T	c.(430-432)GTC>TTC	p.V144F	FGF11_uc010vtw.1_Intron|TMEM102_uc002ggy.1_Missense_Mutation_p.V144F	NM_178518	NP_848613	Q8N9M5	TM102_HUMAN	transmembrane protein 102	144	Extracellular (Potential).				regulation of apoptosis|response to cytokine stimulus|signal transduction	cell surface|integral to membrane|intracellular	protein binding				0		Prostate(122;0.173)				TTACGCACAGGTCTGCCTCCC	0.592													8	59					0.00621372	0.00642435	0.006214	1	0		T	7339728	T	T	7339728	3	4	129	1	0	0	0	0	1	0	0	0	16042	1261	44	5	436	5	TMEM102	17	7339728	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08		7339728	73855482	162	71598											
SHBG	6462	broad.mit.edu	37	chr17	7535245	7535245	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggccttctctttggacctggGactcaagcaggcagcaggct	7	9	13	12	0	2	0	1	0	1	0	3	2	2	2	2	5	2	4	2	5	1	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr17:7535245G>C	uc002gie.2	+	6	802	c.764G>C	c.(763-765)GGA>GCA	p.G255A	SHBG_uc010cmo.2_Missense_Mutation_p.G143A|SHBG_uc010cmp.2_Intron|SHBG_uc010cmq.2_Missense_Mutation_p.G143A|SHBG_uc010cmr.2_Intron|SHBG_uc010cms.2_Intron|SHBG_uc010cmt.2_Missense_Mutation_p.G197A|SHBG_uc010cmu.2_Missense_Mutation_p.G197A|SHBG_uc010cmz.2_Intron|SHBG_uc010cmv.2_Missense_Mutation_p.G143A|SHBG_uc010cmw.2_Intron|SHBG_uc010cmx.2_Intron|SHBG_uc010cmy.2_Missense_Mutation_p.G197A|SHBG_uc002gid.3_Missense_Mutation_p.G197A|SHBG_uc010cnd.2_Intron|SHBG_uc010cna.2_Intron|SHBG_uc010vue.1_Missense_Mutation_p.G237A|SHBG_uc010vuf.1_Missense_Mutation_p.G255A|SHBG_uc010cnb.2_Intron|SHBG_uc010cnc.2_Missense_Mutation_p.G201A	NM_001040	NP_001031	P04278	SHBG_HUMAN	sex hormone-binding globulin isoform 1	255	Laminin G-like 2.				hormone transport	extracellular region	androgen binding|protein homodimerization activity	p.0?(1)|p.?(1)			0		all_cancers(10;0.0867)		READ - Rectum adenocarcinoma(115;0.168)	Danazol(DB01406)|Dromostanolone(DB00858)|Estradiol(DB00783)|Estrone(DB00655)|Fluoxymesterone(DB01185)|Hydrocortisone(DB00741)|Mitotane(DB00648)|Norethindrone(DB00717)|Testosterone(DB00624)	TTGGACCTGGGACTCAAGCAG	0.572													161	131					0	0	0.01441	0	0		C	7535245	C	C	7535245	3	2	129	1	0	0	0	0	1	0	0	0	14294	1174	41	5	786	5	SHBG	17	7535245	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	195517	7535245	73659965	163	71599											
TP53	7157	broad.mit.edu	37	chr17	7576897	7576897	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtggtttcttctttggctGgggagaggagctggtgttgt	4	15	17	5	0	2	1	0	0	2	1	2	3	2	2	0	6	1	4	0	6	0	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr17:7576897G>A	uc002gim.2	-	9	1143	c.949C>T	c.(949-951)CAG>TAG	p.Q317*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.Q317*|TP53_uc010cne.1_RNA|TP53_uc010cnf.1_Nonsense_Mutation_p.Q185*|TP53_uc010cng.1_Nonsense_Mutation_p.Q185*|TP53_uc002gii.1_Nonsense_Mutation_p.Q185*|TP53_uc010cnh.1_Nonsense_Mutation_p.Q317*|TP53_uc010cni.1_Nonsense_Mutation_p.Q317*|TP53_uc002gij.2_Nonsense_Mutation_p.Q317*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	317	Bipartite nuclear localization signal.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.		Q -> H (in a kidney cancer with no family history; germline mutation and in a sporadic cancer; somatic mutation).|Q -> P (in a sporadic cancer; somatic mutation).|Q -> K (in sporadic cancers; somatic mutation).|Q -> L (in a sporadic cancer; somatic mutation).|Q -> R (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Q317*(19)|p.0?(7)|p.Q317K(3)|p.Q317R(2)|p.S315fs*22(1)|p.?(1)|p.S314fs*25(1)|p.L308fs*15(1)|p.Q317P(1)|p.Q317fs*28(1)|p.Q317fs*45(1)|p.Q317fs*19(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TTCTTTGGCTGGGGAGAGGAG	0.473		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			49	39					0	0	0.01441	0	0		A	7576897	A	A	7576897	4	1	129	1	0	0	0	0	0	1	0	0	16407	1357	47	4	333	4	TP53	17	7576897	Nonsense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	41652	7576897	73618313	164	71600											
C17orf63	55731	broad.mit.edu	37	chr17	27085478	27085478	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcttgccactggaccgcccCcggtccctgctcggtagtgg	3	8	14	16	3	0	0	0	0	0	0	2	1	1	1	5	5	2	3	5	5	1	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr17:27085478C>A	uc002hct.1	-	3	1766	c.1499G>T	c.(1498-1500)GGG>GTG	p.G500V	C17orf63_uc010wax.1_Missense_Mutation_p.G500V|C17orf63_uc010way.1_Missense_Mutation_p.G500V|C17orf63_uc002hcw.2_Missense_Mutation_p.G372V	NM_018182	NP_060652	Q8WU58	CQ063_HUMAN	hypothetical protein LOC55731	500										ovary(1)	1	all_epithelial(6;5.06e-20)|Lung NSC(42;0.01)		Epithelial(11;3.38e-06)|all cancers(11;2.46e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.104)			TGGACCGCCCCCGGTCCCTGC	0.637													11	50					7.03913e-09	7.59976e-09	0.013537	1	0		A	27085478	A	A	27085478	3	1	129	1	0	0	0	0	1	0	0	0	1874	623	22	5		5	C17orf63	17	27085478	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	19508581	27085478	54109732	165	71601											
CCL8	6355	broad.mit.edu	37	chr17	32646540	32646540	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgaaggtttctgcagcgcTtctgtgcctgctgctcatgg	5	13	13	10	1	3	1	1	1	2	0	3	2	3	1	1	2	5	5	1	2	1	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr17:32646540T>G	uc002hib.2	+	1	475	c.20T>G	c.(19-21)CTT>CGT	p.L7R		NM_005623	NP_005614	P80075	CCL8_HUMAN	small inducible cytokine A8 precursor	7					calcium ion transport|cell-cell signaling|chemotaxis|exocytosis|immune response|inflammatory response|response to virus	extracellular space	chemokine activity|heparin binding|signal transducer activity				0		Ovarian(249;0.0443)|Breast(31;0.151)				TCTGCAGCGCTTCTGTGCCTG	0.532													13	61					0	0	0.003163	0	0		G	32646540	G	G	32646540	3	3	129	1	0	0	0	0	1	0	0	0	2910	1609	56	5	22	5	CCL8	17	32646540	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	5561062	32646540	48548670	166	71602											
CWC25	54883	broad.mit.edu	37	chr17	36963083	36963083	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcctgtcccgggacccTgcttccctggtgctcttctt	2	13	9	17	1	2	0	0	0	2	0	5	2	5	1	5	2	2	2	5	2	0	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr17:36963083T>A	uc002hqu.2	-	7	990	c.837A>T	c.(835-837)GCA>GCT	p.A279A	CWC25_uc010wdv.1_Silent_p.A216A|CWC25_uc010wdw.1_RNA|CWC25_uc010wdx.1_RNA	NM_017748	NP_060218	Q9NXE8	CWC25_HUMAN	coiled-coil domain containing 49	279											0						CCCGGGACCCTGCTTCCCTGG	0.567													9	103					0	0	0.010729	0	0		A	36963083	A	A	36963083	2	1	129	1	0	0	0	0	0	0	0	1	4072	1567	55	5		5	CWC25	17	36963083	Silent	SNP	T	TCGA-CG-4436-01A-01D-1158-08	4316543	36963083	44232127	167	71603											
KIF2B	84643	broad.mit.edu	37	chr17	51901928	51901928	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctttataggccagaacTcctccacttgcatgattgct	9	13	6	13	0	0	2	0	1	0	1	3	2	3	2	4	1	3	2	4	1	3	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr17:51901928T>A	uc002iua.2	+	1	1690	c.1534T>A	c.(1534-1536)TCC>ACC	p.S512T	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	512					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						AGGCCAGAACTCCTCCACTTG	0.448													5	70					0	0	0.000602	0	0		A	51901928	A	A	51901928	3	1	129	1	0	0	0	0	1	0	0	0	8314	1551	54	5	1536	5	KIF2B	17	51901928	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	14938845	51901928	29293282	168	71604											
TEX14	56155	broad.mit.edu	37	chr17	56699054	56699054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacgggctgtagacaagccGctgcggggagtctatcttct	7	9	15	10	3	3	1	0	0	3	1	3	3	3	3	1	4	2	3	1	4	3	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr17:56699054G>A	uc010dcz.1	-	5	629	c.511C>T	c.(511-513)CGG>TGG	p.R171W	TEX14_uc002iwr.1_Missense_Mutation_p.R171W|TEX14_uc002iws.1_Missense_Mutation_p.R171W|TEX14_uc010dda.1_5'UTR	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	171						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TAGACAAGCCGCTGCGGGGAG	0.587													5	54					0	0	0.00308	0	0		A	56699054	A	A	56699054	3	1	129	1	0	0	0	0	1	0	0	0	15803	1086	38	1	4080	1	TEX14	17	56699054	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	4797126	56699054	24496156	169	71605											
CACNG1	786	broad.mit.edu	37	chr17	65040761	65040761	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccctgcccagggcacccaCgcctcggcgaccaccatgtc	7	4	10	20	3	0	0	0	0	0	0	2	2	0	0	6	2	1	1	6	2	0	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr17:65040761C>T	uc002jfu.2	+	1	56	c.-15C>T	c.(-17--13)CACGC>CATGC			NM_000727	NP_000718	Q06432	CCG1_HUMAN	voltage-dependent calcium channel gamma-1						muscle contraction	voltage-gated calcium channel complex	voltage-gated calcium channel activity				0	all_cancers(12;1.04e-10)|Breast(2;1.45e-16)|all_epithelial(3;4.81e-12)				Amlodipine(DB00381)|Diltiazem(DB00343)|Ibutilide(DB00308)|Lercanidipine(DB00528)|Magnesium Sulfate(DB00653)|Nimodipine(DB00393)|Nitrendipine(DB01054)|Verapamil(DB00661)	AGGGCACCCACGCCTCGGCGA	0.647													4	42					0	0	0.000602	0	0		T	65040761	T	T	65040761	1	4	129	1	0	0	0	0	0	0	0	0	2559	551	19	1		1	CACNG1	17	65040761	Translation_Start_Site	SNP	C	TCGA-CG-4436-01A-01D-1158-08	8341707	65040761	16154449	170	71606											
DNAH17	8632	broad.mit.edu	37	chr17	76437168	76437168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttcaaggggtcaacccccGgggagaggatgaagaagatt	12	7	14	8	1	2	4	2	1	0	3	2	6	2	5	2	5	1	0	2	5	4	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr17:76437168G>A	uc010dhp.1	-	17	2864	c.2642C>T	c.(2641-2643)CCG>CTG	p.P881L	DNAH17_uc002jvq.2_Missense_Mutation_p.P166L|DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			GTCAACCCCCGGGGAGAGGAT	0.473													7	18					0	0	0.001984	0	0		A	76437168	A	A	76437168	3	1	129	1	0	0	0	0	1	0	0	0	4607	1116	39	1	1786	1	DNAH17	17	76437168	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	11396407	76437168	4758042	171	71607											
EPB41L3	23136	broad.mit.edu	37	chr18	5394733	5394733	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctctttatggaccactacTttggtcactgacatgtcagg	8	14	9	10	0	3	1	2	1	1	0	4	2	3	2	1	3	1	0	1	3	2	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr18:5394733T>C	uc002kmt.1	-	22	3299	c.3213A>G	c.(3211-3213)AAA>AAG	p.K1071K	EPB41L3_uc010wzh.1_Intron|EPB41L3_uc002kmu.1_Silent_p.K849K|EPB41L3_uc010dkq.1_Silent_p.K740K|EPB41L3_uc002kms.1_Silent_p.K306K|EPB41L3_uc010wze.1_Silent_p.K376K|EPB41L3_uc010wzf.1_Silent_p.K368K|EPB41L3_uc010wzg.1_Silent_p.K343K|EPB41L3_uc010dkr.2_Silent_p.K463K	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	1071	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GGACCACTACTTTGGTCACTG	0.507													4	104					0	0	0.001168	0	0		C	5394733	C	C	5394733	2	2	129	1	0	0	0	0	0	0	0	1	5162	1606	56	3		3	EPB41L3	18	5394733	Silent	SNP	T	TCGA-CG-4436-01A-01D-1158-08		5394733	72682515	172	71608											
C18orf34	374864	broad.mit.edu	37	chr18	30672872	30672872	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaagtgaatcagctattatTttctagaaggtaaaaaaata	18	13	6	4	0	3	2	2	1	1	1	3	2	3	2	0	1	1	2	0	1	11	7			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr18:30672872T>A	uc002kxn.2	-	20	2383	c.2241A>T	c.(2239-2241)AAA>AAT	p.K747N	C18orf34_uc010xbq.1_Intron|C18orf34_uc010dme.1_Intron|C18orf34_uc010xbr.1_Missense_Mutation_p.K747N|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.K709N|C18orf34_uc002kxp.2_Missense_Mutation_p.K747N	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	747										ovary(1)	1						CAGCTATTATTTTCTAGAAGG	0.234													4	8					0	0	0.009096	0	0		A	30672872	A	A	30672872	3	1	129	1	0	0	0	0	1	0	0	0	1905	1838	64	5	374	5	C18orf34	18	30672872	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	25278139	30672872	47404376	173	71609											
C18orf34	374864	broad.mit.edu	37	chr18	30846889	30846889	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcaaatttacctttcattgGtttttactgttattttgtta	8	23	5	5	0	1	0	1	0	0	0	1	0	1	0	1	1	3	4	1	1	5	11			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr18:30846889G>T	uc002kxn.2	-	13	1542	c.1400C>A	c.(1399-1401)ACC>AAC	p.T467N	C18orf34_uc010dme.1_5'UTR|C18orf34_uc010xbr.1_Missense_Mutation_p.T467N|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.T467N|C18orf34_uc002kxp.2_Missense_Mutation_p.T467N	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	467	Potential.									ovary(1)	1						CCTTTCATTGGTTTTTACTGT	0.294													6	6					3.59834e-05	3.80084e-05	0.001168	1	0		T	30846889	T	T	30846889	3	4	129	1	0	0	0	0	1	0	0	0	1905	1261	44	5	1243	5	C18orf34	18	30846889	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	174017	30846889	47230359	174	71610											
TCEB3C	162699	broad.mit.edu	37	chr18	44554652	44554652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttcttggcagcctgttttCgggttttgtccgcgggcgcc	1	15	13	12	4	1	0	0	0	1	0	3	0	2	0	3	3	1	3	3	3	0	6			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr18:44554652C>T	uc010xdb.1	-	1	1798	c.1562G>A	c.(1561-1563)CGA>CAA	p.R521Q	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	521					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						AGCCTGTTTTCGGGTTTTGTc	0.353													17	307					0	0	0.004289	0	0		T	44554652	T	T	44554652	3	4	129	1	0	0	0	0	1	0	0	0	15708	884	31	1	1725	1	TCEB3C	18	44554652	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	13707763	44554652	33522596	175	71611											
PTPRS	5802	broad.mit.edu	37	chr19	5265160	5265160	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccgctccaccaccttcaActgtgggcccatgtcgatgt	6	11	9	15	2	1	0	1	0	0	0	4	1	3	0	5	1	1	1	5	1	1	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:5265160A>G	uc002mbv.2	-	5	661	c.427T>C	c.(427-429)TTG>CTG	p.L143L	PTPRS_uc002mbu.1_Silent_p.L143L|PTPRS_uc010xin.1_Silent_p.L143L|PTPRS_uc002mbw.2_Silent_p.L143L|PTPRS_uc002mbx.2_Silent_p.L143L|PTPRS_uc002mby.2_Silent_p.L143L	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	143	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		ACCACCTTCAACTGTGGGCCC	0.602													13	34					0	0	0.001855	0	0		G	5265160	G	G	5265160	2	3	129	1	0	0	0	0	0	0	0	1	12836	40	2	3		3	PTPRS	19	5265160	Silent	SNP	A	TCGA-CG-4436-01A-01D-1158-08		5265160	53863823	176	71612											
ZNRF4	148066	broad.mit.edu	37	chr19	5456567	5456567	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgtgcaaacagtcggtGgccgccacagaagacagctt	10	6	12	13	3	0	2	0	0	0	2	1	2	0	2	3	2	3	2	3	2	2	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:5456567G>A	uc002mca.3	+	1	1142	c.1065G>A	c.(1063-1065)GTG>GTA	p.V355V		NM_181710	NP_859061	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4 precursor	355	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			large_intestine(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		AACAGTCGGTGGCCGCCACAG	0.637													15	50					0	0	0.00499	0	0		A	5456567	A	A	5456567	2	1	129	1	0	0	0	0	0	0	0	1	18239	1335	47	4		4	ZNRF4	19	5456567	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	191407	5456567	53672416	177	71613											
STXBP2	6813	broad.mit.edu	37	chr19	7707378	7707378	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctggacgaggacgatgaCttgtgggtggagcttcgcca	7	10	16	8	3	0	1	0	1	0	0	1	6	0	4	1	4	2	2	1	4	0	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:7707378C>A	uc002mha.3	+	10	903	c.858C>A	c.(856-858)GAC>GAA	p.D286E	STXBP2_uc002mhb.3_Missense_Mutation_p.D283E|STXBP2_uc010dvj.2_RNA|STXBP2_uc010xjr.1_Missense_Mutation_p.D297E|STXBP2_uc010dvk.2_Missense_Mutation_p.D254E|STXBP2_uc002mhc.3_Missense_Mutation_p.D54E|STXBP2_uc002mhe.1_5'Flank	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a	286					leukocyte mediated cytotoxicity|neutrophil degranulation|protein transport|regulation of mast cell degranulation|vesicle docking involved in exocytosis	azurophil granule|cytolytic granule|cytosol|specific granule|tertiary granule	syntaxin-3 binding			central_nervous_system(1)	1						AGGACGATGACTTGTGGGTGG	0.667													29	170					1.39806e-14	1.52288e-14	0.008361	1	0		A	7707378	A	A	7707378	3	1	129	1	0	0	0	0	1	0	0	0	15378	564	20	5	896	5	STXBP2	19	7707378	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	2250811	7707378	51421605	178	71614											
SLC1A6	6511	broad.mit.edu	37	chr19	15072963	15072963	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggcgttgatgccattggcGgagccaggcacgggtacagt	8	7	17	9	3	0	1	0	1	0	0	0	2	0	2	2	5	3	3	2	5	1	3	rs115350519	byFrequency	TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:15072963G>A	uc002naa.1	-	5	794	c.786C>T	c.(784-786)TCC>TCT	p.S262S	SLC1A6_uc010dzu.1_Silent_p.S262S|SLC1A6_uc010xod.1_Silent_p.S198S|SLC1A6_uc002nab.2_Silent_p.S262S|SLC1A6_uc002nac.2_Silent_p.S262S	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	262	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	TGCCATTGGCGGAGCCAGGCA	0.582													9	65					0	0	0.010729	0	0		A	15072963	A	A	15072963	2	1	129	1	0	0	0	0	0	0	0	1	14461	1103	39	1		1	SLC1A6	19	15072963	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	7365585	15072963	44056020	179	71615											
OR10H2	26538	broad.mit.edu	37	chr19	15839756	15839756	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaagaactgaaggttgcCatgaagaggaccttcctcag	15	7	10	9	0	1	4	1	2	0	2	2	5	2	5	3	2	3	1	3	2	5	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:15839756C>T	uc002nbm.2	+	1	923	c.903C>T	c.(901-903)GCC>GCT	p.A301A		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					TGAAGGTTGCCATGAAGAGGA	0.517													4	36					0	0	0.009096	0	0		T	15839756	T	T	15839756	2	4	129	1	0	0	0	0	0	0	0	1	10925	581	21	4		4	OR10H2	19	15839756	Silent	SNP	C	TCGA-CG-4436-01A-01D-1158-08	766793	15839756	43289227	180	71616											
ZNF493	284443	broad.mit.edu	37	chr19	21607715	21607715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtggcaaagcttttaggCggtcttcacatcttagtaga	10	13	10	8	1	3	1	1	0	2	1	3	1	3	1	0	3	1	3	0	3	4	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:21607715C>T	uc002npx.2	+	2	2150	c.1870C>T	c.(1870-1872)CGG>TGG	p.R624W	ZNF493_uc002npw.2_Missense_Mutation_p.R752W|ZNF493_uc002npy.2_Missense_Mutation_p.R624W	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	624	C2H2-type 22.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGCTTTTAGGCGGTCTTCACA	0.373													10	27					0	0	0.006214	0	0		T	21607715	T	T	21607715	3	4	129	1	0	0	0	0	1	0	0	0	17969	759	27	1	2331	1	ZNF493	19	21607715	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	5767959	21607715	37521268	181	71617											
STRN4	29888	broad.mit.edu	37	chr19	47234126	47234126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgccatctttgcctgccgCgttcctgccaaagacagcag	7	11	9	14	2	1	1	0	0	1	1	2	1	2	1	5	0	5	2	5	0	1	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:47234126C>T	uc002pfl.2	-	6	775	c.742G>A	c.(742-744)GCG>ACG	p.A248T	STRN4_uc002pfm.2_Missense_Mutation_p.A248T|STRN4_uc010xyf.1_RNA|STRN4_uc010xyg.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	248						cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)		TTGCCTGCCGCGTTCCTGCCA	0.612													8	124					0	0	0.003163	0	0		T	47234126	T	T	47234126	3	4	129	1	0	0	0	0	1	0	0	0	15356	768	27	1	1588	1	STRN4	19	47234126	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	25626411	47234126	11894857	182	71618											
SYT3	84258	broad.mit.edu	37	chr19	51132647	51132647	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacctggccgatgaggtcGtgccgcgagaagcggtcaaa	10	5	14	12	5	1	2	1	1	0	1	2	4	1	2	4	3	2	0	4	3	2	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:51132647G>A	uc002pst.2	-	4	1819	c.1185C>T	c.(1183-1185)CAC>CAT	p.H395H	SYT3_uc002psv.2_Silent_p.H395H|SYT3_uc010ycd.1_Silent_p.H395H	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	395	C2 1.|Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		CGATGAGGTCGTGCCGCGAGA	0.637													11	13					0	0	0.004007	0	0		A	51132647	A	A	51132647	2	1	129	1	0	0	0	0	0	0	0	1	15500	1136	40	1		1	SYT3	19	51132647	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08	3898521	51132647	7996336	183	71619											
CLEC11A	6320	broad.mit.edu	37	chr19	51228685	51228685	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcctggtgggaccacgactgCcagcggcgtctctactacgt	6	9	12	14	4	1	0	0	0	1	0	3	2	2	1	3	3	4	0	3	3	2	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:51228685C>A	uc002psy.2	+	4	1111	c.933C>A	c.(931-933)TGC>TGA	p.C311*		NM_002975	NP_002966	Q9Y240	CLC11_HUMAN	stem cell growth factor precursor	311	C-type lectin.				positive regulation of cell proliferation	cytoplasm|extracellular region	growth factor activity|sugar binding			ovary(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		ACCACGACTGCCAGCGGCGTC	0.711													4	13					0.00116845	0.00122361	0.001168	1	0		A	51228685	A	A	51228685	4	1	129	1	0	0	0	0	0	1	0	0	3499	747	26	5	947	5	CLEC11A	19	51228685	Nonsense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	96038	51228685	7900298	184	71620											
ZIM2	23619	broad.mit.edu	37	chr19	57286430	57286430	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcctcctgactgtgaattcTtacacgttcacagagattcg	9	13	8	11	2	2	3	1	2	1	1	5	4	4	3	2	0	1	1	2	0	2	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:57286430T>G	uc002qnr.2	-	11	1592	c.1210A>C	c.(1210-1212)AGA>CGA	p.R404R	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Silent_p.R200R|ZIM2_uc010ygr.1_Silent_p.R200R|ZIM2_uc002qnq.2_Silent_p.R404R|ZIM2_uc010etp.2_Silent_p.R404R|ZIM2_uc010ygs.1_Silent_p.R404R	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	404					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		CTGTGAATTCTTACACGTTCA	0.468													8	57					0	0	0.00308	0	0		G	57286430	G	G	57286430	2	3	129	1	0	0	0	0	0	0	0	1	17709	1617	56	5		5	ZIM2	19	57286430	Silent	SNP	T	TCGA-CG-4436-01A-01D-1158-08	6057745	57286430	1842553	185	71621											
VN1R1	57191	broad.mit.edu	37	chr19	57967836	57967836	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcagtggagacagaagttTtaatgtgtctccaaccatat	13	12	8	8	0	2	2	1	0	1	2	3	3	2	2	2	1	1	1	2	1	4	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:57967836T>G	uc002qos.1	-	1	19	c.19A>C	c.(19-21)AAA>CAA	p.K7Q	ZNF547_uc002qpm.3_Intron	NM_020633	NP_065684	Q9GZP7	VN1R1_HUMAN	vomeronasal 1 receptor 1	7	Extracellular (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)|Breast(46;0.222)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)|Lung(386;0.171)		GACAGAAGTTTTAATGTGTCT	0.373													5	58					0	0	0.001984	0	0		G	57967836	G	G	57967836	3	3	129	1	0	0	0	0	1	0	0	0	17204	1850	64	5	1046	5	VN1R1	19	57967836	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08	681406	57967836	1161147	186	71622											
ZSCAN4	201516	broad.mit.edu	37	chr19	58190001	58190001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggccatttgtttgtcccGagtgtcaaaaaggcttcttc	9	13	10	9	1	2	1	1	0	1	1	4	2	3	1	2	2	0	2	2	2	2	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:58190001G>A	uc002qpu.2	+	5	1727	c.1030G>A	c.(1030-1032)GAG>AAG	p.E344K		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	344	C2H2-type 2.				telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGTTTGTCCCGAGTGTCAAAA	0.423													25	71					0	0	0.00333	0	0		A	58190001	A	A	58190001	3	1	129	1	0	0	0	0	1	0	0	0	18262	1059	37	1	1040	1	ZSCAN4	19	58190001	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	222165	58190001	938982	187	71623											
ZSCAN18	65982	broad.mit.edu	37	chr19	58601321	58601321	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccaccacccagggccggAccttatcaggcaggatgccc	8	5	12	16	1	1	0	1	0	0	0	1	2	1	2	6	4	2	1	6	4	1	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr19:58601321A>C	uc002qri.2	-	2	623	c.314T>G	c.(313-315)GTC>GGC	p.V105G	ZSCAN18_uc002qrj.3_Missense_Mutation_p.V105G|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Missense_Mutation_p.V105G|ZSCAN18_uc010yht.1_Missense_Mutation_p.V161G|ZSCAN18_uc002qrk.1_Missense_Mutation_p.V105G|ZSCAN18_uc002qrl.2_Missense_Mutation_p.V105G	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	105	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		CCAGGGCCGGACCTTATCAGG	0.647													7	103					0	0	0.004482	0	0		C	58601321	C	C	58601321	3	2	129	1	0	0	0	0	1	0	0	0	18255	275	10	5	1242	5	ZSCAN18	19	58601321	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	411320	58601321	527662	188	71624											
EIF6	3692	broad.mit.edu	37	chr20	33868600	33868600	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcagctcctggtcggtggTattgttgggtaccaggagac	6	12	15	8	1	0	1	0	0	0	1	2	2	1	1	2	5	3	5	2	5	2	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr20:33868600T>C	uc002xbv.1	-	3	442	c.226A>G	c.(226-228)ACC>GCC	p.T76A	EDEM2_uc010zuv.1_5'Flank|EIF6_uc002xbx.1_Missense_Mutation_p.T76A|EIF6_uc002xbz.1_Intron|EIF6_uc002xby.1_Intron	NM_181468	NP_852133	P56537	IF6_HUMAN	eukaryotic translation initiation factor 6	76					mature ribosome assembly	cytoplasm|nucleolus	protein binding|ribosome binding|translation initiation factor activity			pancreas(1)	1			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TGGTCGGTGGTATTGTTGGGT	0.567													4	54					0	0	0.009096	0	0		C	33868600	C	C	33868600	3	2	129	1	0	0	0	0	1	0	0	0	5053	1638	57	3	527	3	EIF6	20	33868600	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08		33868600	29156920	189	71625											
UQCC	55245	broad.mit.edu	37	chr20	33935043	33935043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacatgtacttcccactcCggccttcctgcttcattcgg	6	12	7	16	2	1	0	1	0	0	0	5	1	4	0	4	2	2	2	4	2	1	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr20:33935043C>T	uc002xcd.2	-	7	564	c.497G>A	c.(496-498)CGG>CAG	p.R166Q	UQCC_uc010zuy.1_Missense_Mutation_p.R67Q|UQCC_uc010zuz.1_Missense_Mutation_p.R11Q|UQCC_uc010zva.1_Intron|UQCC_uc002xce.2_Missense_Mutation_p.R139Q|UQCC_uc002xcg.2_Missense_Mutation_p.R32Q|UQCC_uc010gfb.2_Missense_Mutation_p.R166Q|UQCC_uc010zvb.1_Missense_Mutation_p.R98Q|UQCC_uc002xcf.2_Missense_Mutation_p.R54Q|GDF5_uc010gfc.1_Intron|UQCC_uc002xci.1_Missense_Mutation_p.R120Q|UQCC_uc010gfd.1_Missense_Mutation_p.R152Q	NM_018244	NP_060714	Q9NVA1	UQCC_HUMAN	basic FGF-repressed Zic binding protein isoform	166						cytoplasmic membrane-bounded vesicle				breast(1)	1			BRCA - Breast invasive adenocarcinoma(18;0.00252)			CTTCCCACTCCGGCCTTCCTG	0.473													14	252					0	0	0.004007	0	0		T	33935043	T	T	33935043	3	4	129	1	0	0	0	0	1	0	0	0	17041	652	23	1	418	1	UQCC	20	33935043	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	66443	33935043	29090477	190	71626											
PTPRT	11122	broad.mit.edu	37	chr20	40790013	40790013	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtattcctccttgaacccGtagccctggcctctcttcat	5	14	6	16	2	2	1	1	1	1	0	6	1	4	1	5	1	2	2	5	1	3	5			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr20:40790013G>T	uc002xkg.2	-	17	2845	c.2661C>A	c.(2659-2661)TAC>TAA	p.Y887*	PTPRT_uc010ggj.2_Nonsense_Mutation_p.Y906*|PTPRT_uc010ggi.2_Nonsense_Mutation_p.Y90*	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	887	Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CCTTGAACCCGTAGCCCTGGC	0.512													11	127					4.36969e-10	4.73869e-10	0.001855	1	0		T	40790013	T	T	40790013	4	4	129	1	0	0	0	0	0	1	0	0	12837	1140	40	5	1724	5	PTPRT	20	40790013	Nonsense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	6854970	40790013	22235507	191	71627											
ZSWIM3	140831	broad.mit.edu	37	chr20	44486607	44486607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccatggcacctccatccGcgaagacatcctgtaagggc	11	6	9	15	2	0	1	0	0	0	1	3	2	3	1	5	2	1	2	5	2	3	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr20:44486607G>A	uc002xqd.2	+	1	346	c.143G>A	c.(142-144)CGC>CAC	p.R48H	ACOT8_uc002xqa.1_5'Flank|ACOT8_uc010zxe.1_5'Flank|ACOT8_uc002xqc.1_5'Flank|ACOT8_uc010zxf.1_5'Flank|ZSWIM3_uc010zxg.1_5'UTR	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	48							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				ACCTCCATCCGCGAAGACATC	0.532													9	83					0	0	0.007413	0	0		A	44486607	A	A	44486607	3	1	129	1	0	0	0	0	1	0	0	0	18267	1087	38	1	145	1	ZSWIM3	20	44486607	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	3696594	44486607	18538913	192	71628											
SYCP2	10388	broad.mit.edu	37	chr20	58450395	58450395	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taagtcaaggcaattatctcGtatagcatcttttagtagag	13	14	8	6	1	3	1	1	0	2	1	4	1	3	1	0	1	1	4	0	1	8	7			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr20:58450395G>C	uc002yaz.2	-	33	3419	c.3280C>G	c.(3280-3282)CGA>GGA	p.R1094G		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	1094					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			CAATTATCTCGTATAGCATCT	0.348													6	60					0	0	0.001984	0	0		C	58450395	C	C	58450395	3	2	129	1	0	0	0	0	1	0	0	0	15457	1153	40	5	1360	5	SYCP2	20	58450395	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	13963788	58450395	4575125	193	71629											
OSBPL2	9885	broad.mit.edu	37	chr20	60847217	60847217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgatgccaatcgccttcaacGagcctctgagcttcttgcag	8	10	9	14	3	3	1	1	1	2	0	4	3	3	1	3	0	5	2	3	0	2	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr20:60847217G>A	uc002yck.1	+	5	497	c.295G>A	c.(295-297)GAG>AAG	p.E99K	OSBPL2_uc002ycl.1_Missense_Mutation_p.E87K|OSBPL2_uc011aah.1_Missense_Mutation_p.E7K	NM_144498	NP_653081	Q9H1P3	OSBL2_HUMAN	oxysterol-binding protein-like protein 2 isoform	99					lipid transport		lipid binding			ovary(1)|central_nervous_system(1)	2	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;1.33e-06)			CGCCTTCAACGAGCCTCTGAG	0.602													5	86					0	0	0.00308	0	0		A	60847217	A	A	60847217	3	1	129	1	0	0	0	0	1	0	0	0	11297	1059	37	1	309	1	OSBPL2	20	60847217	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	2396822	60847217	2178303	194	71630											
POTED	317754	broad.mit.edu	37	chr21	14982839	14982839	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgaagatgctcaggagcaAgatgggcaagtggtgctgtc	11	9	15	6	0	1	3	1	1	0	2	2	4	1	4	0	3	3	4	0	3	4	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr21:14982839A>C	uc002yjb.1	+	1	342	c.290A>C	c.(289-291)AAG>ACG	p.K97T		NM_174981	NP_778146	Q86YR6	POTED_HUMAN	pote protein	97						plasma membrane				ovary(3)|skin(3)	6						CTCAGGAGCAAGATGGGCAAG	0.607													5	79					0	0	0.00308	0	0		C	14982839	C	C	14982839	3	2	129	1	0	0	0	0	1	0	0	0	12282	72	3	5	292	5	POTED	21	14982839	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08		14982839	33147056	195	71631											
CCT8	10694	broad.mit.edu	37	chr21	30433674	30433674	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagttttctgccagtgcgCggggaatagcttcaaatgcc	9	10	12	10	2	2	1	1	0	1	1	2	2	2	2	2	2	4	2	2	2	3	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr21:30433674C>T	uc002ynb.2	-	13	1448	c.1349G>A	c.(1348-1350)CGC>CAC	p.R450H	CCT8_uc002ymz.2_Missense_Mutation_p.R66H|CCT8_uc011acp.1_Missense_Mutation_p.R431H|CCT8_uc002yna.2_Missense_Mutation_p.R399H|CCT8_uc002ync.2_Missense_Mutation_p.R449H|CCT8_uc010glm.2_Missense_Mutation_p.R391H|CCT8_uc011acq.1_Missense_Mutation_p.R377H	NM_006585	NP_006576	P50990	TCPQ_HUMAN	chaperonin containing TCP1, subunit 8 (theta)	450					'de novo' posttranslational protein folding	aggresome|cytosol|intermediate filament cytoskeleton|microtubule organizing center	ATP binding|ATPase activity, coupled|unfolded protein binding				0						TGCCAGTGCGCGGGGAATAGC	0.368													10	111					0	0	0.013537	0	0		T	30433674	T	T	30433674	3	4	129	1	0	0	0	0	1	0	0	0	2963	768	27	1	309	1	CCT8	21	30433674	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	15450835	30433674	17696221	196	71632											
GAL3ST1	9514	broad.mit.edu	37	chr22	30951855	30951855	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaggctgcgggcgaagaaGgtcgggtagtcgaagtcatt	10	7	16	8	4	1	1	1	0	0	1	3	3	1	1	1	4	1	2	1	4	4	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr22:30951855G>A	uc003aig.1	-	4	497	c.357C>T	c.(355-357)ACC>ACT	p.T119T	GAL3ST1_uc003aih.1_Silent_p.T119T|GAL3ST1_uc003aii.1_Silent_p.T119T|GAL3ST1_uc010gvz.1_Silent_p.T119T	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	119	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						GGGCGAAGAAGGTCGGGTAGT	0.632													9	107					0	0	0.003163	0	0		A	30951855	A	A	30951855	2	1	129	1	0	0	0	0	0	0	0	1	6212	987	35	4		4	GAL3ST1	22	30951855	Silent	SNP	G	TCGA-CG-4436-01A-01D-1158-08		30951855	20352711	197	71633											
CYTH4	27128	broad.mit.edu	37	chr22	37688719	37688719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagaggatcaagtggcaccGaaagcagctcctggaggaca	14	4	13	10	1	1	1	1	0	0	1	2	5	2	4	2	4	2	3	2	4	2	0			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr22:37688719G>A	uc003arf.2	+	2	193	c.77G>A	c.(76-78)CGA>CAA	p.R26Q	CYTH4_uc003ard.3_Missense_Mutation_p.R26Q|CYTH4_uc003are.2_Missense_Mutation_p.R26Q|CYTH4_uc011amw.1_5'UTR|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	26	Potential.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						AAGTGGCACCGAAAGCAGCTC	0.612													18	152					0	0	0.008871	0	0		A	37688719	A	A	37688719	3	1	129	1	0	0	0	0	1	0	0	0	4209	1058	37	1	83	1	CYTH4	22	37688719	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	6736864	37688719	13615847	198	71634											
TRIOBP	11078	broad.mit.edu	37	chr22	38120337	38120337	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagagcctcctctcccaatAgagctacacgagacaacccc	12	5	6	18	1	1	3	0	0	1	3	3	4	2	3	6	0	4	1	6	0	4	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr22:38120337A>G	uc003atr.2	+	7	2045	c.1774A>G	c.(1774-1776)AGA>GGA	p.R592G	TRIOBP_uc003atu.2_Missense_Mutation_p.R420G|TRIOBP_uc003atq.1_Missense_Mutation_p.R592G|TRIOBP_uc003ats.1_Missense_Mutation_p.R420G	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	592					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CTCTCCCAATAGAGCTACACG	0.582													7	344					0	0	0.006214	0	0		G	38120337	G	G	38120337	3	3	129	1	0	0	0	0	1	0	0	0	16579	412	15	3	1792	3	TRIOBP	22	38120337	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	431618	38120337	13184229	199	71635											
SLC16A8	23539	broad.mit.edu	37	chr22	38474460	38474460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtgggctcgccccgggCgctgagcacctccagggcct	3	8	14	16	3	1	1	0	1	1	0	3	1	2	1	5	3	1	3	5	3	0	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr22:38474460C>T	uc003auu.2	-	5	1580	c.1450G>A	c.(1450-1452)GCC>ACC	p.A484T		NM_013356	NP_037488	O95907	MOT3_HUMAN	solute carrier family 16, member 8	484	Cytoplasmic (Potential).				blood coagulation|leukocyte migration|pyruvate metabolic process	integral to plasma membrane|membrane fraction	lactate transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity				0	Melanoma(58;0.045)				Pyruvic acid(DB00119)	TCGCCCCGGGCGCTGAGCACC	0.642													61	70					0	0	0.01441	0	0		T	38474460	T	T	38474460	3	4	129	1	0	0	0	0	1	0	0	0	14439	768	27	1	68	1	SLC16A8	22	38474460	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	354123	38474460	12830106	200	71636											
SREBF2	6721	broad.mit.edu	37	chr22	42276858	42276858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctgcagaagctacgcctgGtgcgctggctgctcaagaaa	9	7	13	12	2	1	2	1	0	0	2	1	2	1	2	2	2	5	5	2	2	4	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr22:42276858G>A	uc003bbi.2	+	10	2069	c.1900G>A	c.(1900-1902)GTG>ATG	p.V634M	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|SREBF2_uc003bbj.2_RNA	NM_004599	NP_004590	Q12772	SRBP2_HUMAN	sterol regulatory element-binding transcription	634	Cytoplasmic (Potential).				cholesterol metabolic process	ER to Golgi transport vesicle membrane|Golgi membrane|nucleus|SREBP-SCAP-Insig complex	protein C-terminus binding			breast(2)|ovary(1)|central_nervous_system(1)	4						GCTACGCCTGGTGCGCTGGCT	0.662													7	47					0	0	0.00308	0	0		A	42276858	A	A	42276858	3	1	129	1	0	0	0	0	1	0	0	0	15167	1261	44	4	1938	4	SREBF2	22	42276858	Missense_Mutation	SNP	G	TCGA-CG-4436-01A-01D-1158-08	3802398	42276858	9027708	201	71637											
KIAA1644	85352	broad.mit.edu	37	chr22	44681488	44681488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggggtcctgtttcatccatCgtccttggatgccccaccgt	4	12	11	14	2	1	0	1	0	0	0	5	1	4	1	6	3	1	1	6	3	0	2			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr22:44681488C>T	uc003bet.2	-	4	552	c.419G>A	c.(418-420)CGA>CAA	p.R140Q		NM_001099294	NP_001092764	Q3SXP7	K1644_HUMAN	hypothetical protein LOC85352 precursor	140	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1		all_neural(38;0.0762)|Ovarian(80;0.105)|Glioma(61;0.222)				TTTCATCCATCGTCCTTGGAT	0.637													66	172					0	0	0.01441	0	0		T	44681488	T	T	44681488	3	4	129	1	0	0	0	0	1	0	0	0	8266	884	31	1	188	1	KIAA1644	22	44681488	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	2404630	44681488	6623078	202	71638											
NUP50	10762	broad.mit.edu	37	chr22	45564068	45564068	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttcgaaaacatggccaaaAgaaatgccgagaaggaactg	17	5	12	7	2	0	2	0	0	0	2	1	5	0	3	2	3	3	1	2	3	7	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chr22:45564068A>G	uc003bfr.2	+	2	472	c.10A>G	c.(10-12)AGA>GGA	p.R4G	NUP50_uc003bfs.2_5'UTR|NUP50_uc011aqn.1_5'UTR|NUP50_uc003bft.2_5'UTR	NM_007172	NP_009103	Q9UKX7	NUP50_HUMAN	nucleoporin 50kDa isoform b	4					carbohydrate metabolic process|glucose transport|intracellular transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore|nucleoplasm	protein binding				0		Ovarian(80;0.00965)|all_neural(38;0.0244)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		CATGGCCAAAAGAAATGCCGA	0.328													6	79					0	0	0.004482	0	0		G	45564068	G	G	45564068	3	3	129	1	0	0	0	0	1	0	0	0	10785	64	3	3	12	3	NUP50	22	45564068	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	882580	45564068	5740498	203	71639											
KAL1	3730	broad.mit.edu	37	chrX	8555953	8555953	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattgaatttcgaggaccacTtaacctccagctgtccagac	11	11	7	12	1	0	2	0	1	0	1	3	4	2	3	4	1	2	1	4	1	3	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chrX:8555953T>G	uc004csf.2	-	5	758	c.608A>C	c.(607-609)AAG>ACG	p.K203T		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	203	Fibronectin type-III 1.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						CGAGGACCACTTAACCTCCAG	0.438													7	32					0	0	0.004482	0	0		G	8555953	G	G	8555953	3	3	129	1	0	0	0	0	1	0	0	0	7990	1609	56	5	1474	5	KAL1	23	8555953	Missense_Mutation	SNP	T	TCGA-CG-4436-01A-01D-1158-08		8555953	146714607	204	71640											
DMD	1756	broad.mit.edu	37	chrX	32381009	32381009	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaccgcggtttgccatcaAgtttgctgcttggtcacgtg	5	13	12	11	3	3	0	3	0	0	0	3	0	3	0	2	2	3	4	2	2	1	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chrX:32381009A>C	uc004dda.1	-	37	5465	c.5221T>G	c.(5221-5223)TTG>GTG	p.L1741V	DMD_uc004dcw.2_Missense_Mutation_p.L397V|DMD_uc004dcx.2_Missense_Mutation_p.L400V|DMD_uc004dcz.2_Missense_Mutation_p.L1618V|DMD_uc004dcy.1_Missense_Mutation_p.L1737V|DMD_uc004ddb.1_Missense_Mutation_p.L1733V|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1741	Spectrin 12.|Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTTGCCATCAAGTTTGCTGCT	0.463													11	77					0	0	0.008291	0	0		C	32381009	C	C	32381009	3	2	129	1	0	0	0	0	1	0	0	0	4586	69	3	5	6156	5	DMD	23	32381009	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	23825056	32381009	122889551	205	71641											
DMD	1756	broad.mit.edu	37	chrX	32430012	32430012	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggatgctctgttcaagcaActtttgcctccttacagcct	7	14	7	13	0	2	0	1	0	1	0	3	1	3	1	3	1	6	3	3	1	3	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chrX:32430012A>C	uc004dda.1	-	30	4334	c.4090T>G	c.(4090-4092)TTG>GTG	p.L1364V	DMD_uc004dcw.2_Missense_Mutation_p.L20V|DMD_uc004dcx.2_Missense_Mutation_p.L23V|DMD_uc004dcz.2_Missense_Mutation_p.L1241V|DMD_uc004dcy.1_Missense_Mutation_p.L1360V|DMD_uc004ddb.1_Missense_Mutation_p.L1356V|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1364	Spectrin 9.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGTTCAAGCAACTTTTGCCTC	0.393													6	24					0	0	0.001984	0	0		C	32430012	C	C	32430012	3	2	129	1	0	0	0	0	1	0	0	0	4586	40	2	5	7315	5	DMD	23	32430012	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	49003	32430012	122840548	206	71642											
CXorf59	286464	broad.mit.edu	37	chrX	36122739	36122739	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatattctgattctgaaagaAttttgcttagttggatgaac	12	17	8	4	0	2	4	0	3	2	1	2	5	2	5	0	1	2	2	0	1	6	8			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chrX:36122739A>T	uc004ddk.1	+	8	1162	c.976A>T	c.(976-978)ATT>TTT	p.I326F		NM_173695	NP_775966	Q8N9S7	CX059_HUMAN	hypothetical protein LOC286464	326						integral to membrane				central_nervous_system(1)	1						TTCTGAAAGAATTTTGCTTAG	0.338													13	62					0	0	0.013537	0	0		T	36122739	T	T	36122739	3	4	129	1	0	0	0	0	1	0	0	0	4118	101	4	5	1002	5	CXorf59	23	36122739	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	3692727	36122739	119147821	207	71643											
USP11	8237	broad.mit.edu	37	chrX	47104245	47104245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggcccccaaggcgacgaCgcaagcagctgttcaccctg	9	5	12	15	3	1	0	1	0	0	0	1	2	1	0	3	2	2	4	3	2	2	1			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chrX:47104245C>T	uc004dhp.2	+	15	2137	c.2137C>T	c.(2137-2139)CGC>TGC	p.R713C	USP11_uc004dhq.2_Missense_Mutation_p.R439C	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	713					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						AAGGCGACGACGCAAGCAGCT	0.597													22	11					0	0	0.003954	0	0		T	47104245	T	T	47104245	3	4	129	1	0	0	0	0	1	0	0	0	17068	536	19	1	2195	1	USP11	23	47104245	Missense_Mutation	SNP	C	TCGA-CG-4436-01A-01D-1158-08	10981506	47104245	108166315	208	71644											
MAGEH1	28986	broad.mit.edu	37	chrX	55479467	55479467	+	Nonstop_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggggttattccgccccttaAgtagatctgaggcagaccct	9	10	11	11	1	1	3	0	1	1	2	2	3	2	3	4	3	0	3	4	3	3	4			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chrX:55479467A>C	uc004dum.2	+	1	930	c.660A>C	c.(658-660)TAA>TAC	p.*220Y		NM_014061	NP_054780	Q9H213	MAGH1_HUMAN	melanoma antigen, family H, 1 protein	220					apoptosis					ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CCGCCCCTTAAGTAGATCTGA	0.502													7	72					0	0	0.004482	0	0		C	55479467	C	C	55479467	4	2	129	1	0	0	0	0	0	0	0	0	9206	79	3	5	662	5	MAGEH1	23	55479467	Nonstop_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	8375222	55479467	99791093	209	71645											
CYLC1	1538	broad.mit.edu	37	chrX	83128879	83128879	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgattcaagaaatttgaAgaaagcttcaaagaatgatg	20	10	8	3	0	2	6	2	3	0	3	2	6	2	6	0	0	1	1	0	0	7	3			TCGA-CG-4436-01A-01D-1158-08	TCGA-CG-4436-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	bdc1981a-f12f-47b8-a23a-439aaac8c9ce	27c8e775-c1fc-4bfa-b1e4-f0b353eff25b	g.chrX:83128879A>C	uc004eei.1	+	4	1184	c.1163A>C	c.(1162-1164)AAG>ACG	p.K388T	CYLC1_uc004eeh.1_Missense_Mutation_p.K387T	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	388	4.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						AGAAATTTGAAGAAAGCTTCA	0.303													6	11					0	0	0.001984	0	0		C	83128879	C	C	83128879	3	2	129	1	0	0	0	0	1	0	0	0	4144	72	3	5	1177	5	CYLC1	23	83128879	Missense_Mutation	SNP	A	TCGA-CG-4436-01A-01D-1158-08	27649412	83128879	72141681	210	71646											
NPHP4	261734	broad.mit.edu	37	chr1	5965732	5965732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacaataggggcatgcaaagGcgtgaacggcagctcctgta	13	6	13	9	2	0	1	0	1	0	0	1	1	1	1	1	4	4	5	1	4	6	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:5965732G>A	uc001alq.1	-	14	1989	c.1723C>T	c.(1723-1725)CCT>TCT	p.P575S	NPHP4_uc001als.1_RNA|NPHP4_uc009vlt.1_RNA|NPHP4_uc001alt.1_RNA|NPHP4_uc009vlu.1_5'Flank	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	575					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		GCATGCAAAGGCGTGAACGGC	0.592													5	22					0	0	0.001168	0	0		A	5965732	A	A	5965732	3	1	130	1	0	0	0	0	1	0	0	0	10600	1203	42	2	2625	2	NPHP4	1	5965732	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08		5965732	243284889	1	71647											
KIF1B	23095	broad.mit.edu	37	chr1	10321979	10321979	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctagttatgtgaagaactttTtgagaaaatcaatgacaact	16	13	7	5	0	1	4	1	3	0	2	1	5	1	4	0	0	2	1	0	0	8	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:10321979T>G	uc001aqx.3	+	5	582	c.380T>G	c.(379-381)TTT>TGT	p.F127C	KIF1B_uc001aqv.3_Missense_Mutation_p.F127C|KIF1B_uc001aqw.3_Missense_Mutation_p.F127C|KIF1B_uc001aqy.2_Missense_Mutation_p.F127C|KIF1B_uc001aqz.2_Missense_Mutation_p.F127C|KIF1B_uc001ara.2_Missense_Mutation_p.F127C|KIF1B_uc001arb.2_Missense_Mutation_p.F127C|KIF1B_uc009vmt.2_RNA	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	127	Kinesin-motor.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		GAAGAACTTTTTGAGAAAATC	0.418													22	30					0	0	0.014323	0	0		G	10321979	G	G	10321979	3	3	130	1	0	0	0	0	1	0	0	0	8300	1841	64	5	394	5	KIF1B	1	10321979	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	4356247	10321979	238928642	2	71648											
PRAMEF1	65121	broad.mit.edu	37	chr1	12855915	12855915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgccctgaaggacctgctgCgccacaccagtgggctgagc	8	5	13	15	2	0	2	0	2	0	0	0	3	0	3	4	2	3	2	4	2	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:12855915C>T	uc001auj.1	+	4	1298	c.1195C>T	c.(1195-1197)CGC>TGC	p.R399C		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	399											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GGACCTGCTGCGCCACACCAG	0.557													14	141					0	0	0.00245	0	0		T	12855915	T	T	12855915	3	4	130	1	0	0	0	0	1	0	0	0	12447	768	27	1	1205	1	PRAMEF1	1	12855915	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2533936	12855915	236394706	3	71649											
CELA2A	63036	broad.mit.edu	37	chr1	15793956	15793956	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcatcgtcagcttcgggTctcgcctcggctgcaactac	6	9	11	15	5	2	0	1	0	1	0	6	0	2	0	1	3	4	4	1	3	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:15793956T>G	uc001awk.2	+	7	741	c.715T>G	c.(715-717)TCT>GCT	p.S239A		NM_033440	NP_254275	P08217	CEL2A_HUMAN	elastase 2A preproprotein	239	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						CAGCTTCGGGTCTCGCCTCGG	0.602													13	21					0	0	0.013537	0	0		G	15793956	G	G	15793956	3	3	130	1	0	0	0	0	1	0	0	0	3214	1667	58	5	741	5	CELA2A	1	15793956	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	2938041	15793956	233456665	4	71650											
PAX7	5081	broad.mit.edu	37	chr1	19062421	19062421	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtccccattccttctcccaCccccagggcctcctgcttgt	3	11	6	21	1	1	0	0	0	1	0	5	0	4	0	8	1	1	1	8	1	0	3	rs142059630		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:19062421C>A	uc001bay.2	+	8	2049	c.1451C>A	c.(1450-1452)ACC>AAC	p.T484N	PAX7_uc001baz.2_Missense_Mutation_p.T482N|PAX7_uc010oct.1_Intron	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	484					anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		CCTTCTCCCACCCCCAGGGCC	0.433			T	FOXO1A	alveolar rhabdomyosarcoma								6	31					0.00198382	0.00203119	0.001984	1	0		A	19062421	A	A	19062421	3	1	130	1	0	0	0	0	1	0	0	0	11503	507	18	5	1481	5	PAX7	1	19062421	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3268465	19062421	230188200	5	71651											
PQLC2	54896	broad.mit.edu	37	chr1	19653095	19653095	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgttgtacctgctttcccGgctgcctcagatccgcacca	5	11	9	16	3	1	1	1	0	0	1	3	1	3	1	5	1	3	5	5	1	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:19653095G>T	uc001bby.2	+	7	948	c.596G>T	c.(595-597)CGG>CTG	p.R199L	PQLC2_uc001bbz.2_Missense_Mutation_p.R134L|PQLC2_uc001bca.2_Missense_Mutation_p.R199L|PQLC2_uc001bcb.2_Missense_Mutation_p.R88L|PQLC2_uc001bcc.2_Missense_Mutation_p.R88L	NM_017765	NP_060235	Q6ZP29	PQLC2_HUMAN	PQ loop repeat containing 2 isoform 1	199	PQ-loop 2.|Helical; (Potential).					integral to membrane					0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;1.89e-05)|Kidney(64;0.000177)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CTGCTTTCCCGGCTGCCTCAG	0.652													14	64					5.3912e-06	5.68979e-06	0.006122	1	0		T	19653095	T	T	19653095	3	4	130	1	0	0	0	0	1	0	0	0	12441	1116	39	5	614	5	PQLC2	1	19653095	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	590674	19653095	229597526	6	71652											
PLA2G2E	30814	broad.mit.edu	37	chr1	20249202	20249202	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcggacttgcctgtcatcttCtcgatcatcaccccaaactg	8	11	7	15	2	5	0	3	0	2	0	6	2	5	1	3	1	2	0	3	1	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:20249202C>G	uc001bct.1	-	2	145	c.87G>C	c.(85-87)GAG>GAC	p.E29D		NM_014589	NP_055404	Q9NZK7	PA2GE_HUMAN	phospholipase A2, group IIE precursor	29					inflammatory response|lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|phospholipase A2 activity				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|GBM - Glioblastoma multiforme(114;0.000146)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CTGTCATCTTCTCGATCATCA	0.522													35	82					0	0	0.006999	0	0		G	20249202	G	G	20249202	3	3	130	1	0	0	0	0	1	0	0	0	12017	912	32	5	353	5	PLA2G2E	1	20249202	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	596107	20249202	229001419	7	71653											
EPHA8	2046	broad.mit.edu	37	chr1	22927279	22927279	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcctatggggagcggccCtactggaacatgaccaaccg	9	6	13	13	2	0	1	0	1	0	0	0	3	0	3	4	5	4	0	4	5	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:22927279C>T	uc001bfx.1	+	14	2639	c.2514C>T	c.(2512-2514)CCC>CCT	p.P838P		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	838	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GGGAGCGGCCCTACTGGAACA	0.692													26	78					0	0	0.008361	0	0		T	22927279	T	T	22927279	2	4	130	1	0	0	0	0	0	0	0	1	5181	668	24	4		4	EPHA8	1	22927279	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2678077	22927279	226323342	8	71654											
ASAP3	55616	broad.mit.edu	37	chr1	23763691	23763691	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccgcgatgagcagctttGtgaggtcgtgcggctcccca	5	9	13	14	4	0	2	0	2	0	0	3	3	2	2	4	2	3	3	4	2	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:23763691G>C	uc001bha.2	-	14	1398	c.1274C>G	c.(1273-1275)ACA>AGA	p.T425R	ASAP3_uc001bgy.1_5'Flank|ASAP3_uc001bgz.1_5'Flank|ASAP3_uc010odz.1_Missense_Mutation_p.T294R|ASAP3_uc010oea.1_Missense_Mutation_p.T416R|ASAP3_uc001bhb.2_5'UTR	NM_017707	NP_060177	Q8TDY4	ASAP3_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	425					regulation of ARF GTPase activity	cytoplasm	ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						GAGCAGCTTTGTGAGGTCGTG	0.716													5	13					0	0	0.000602	0	0		C	23763691	C	C	23763691	3	2	130	1	0	0	0	0	1	0	0	0	1013	1377	48	5	1485	5	ASAP3	1	23763691	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	836412	23763691	225486930	9	71655											
GRHL3	57822	broad.mit.edu	37	chr1	24663062	24663062	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacagagaacgtgtctggAaccccagagtacccagattt	12	8	10	11	1	1	4	0	1	1	3	1	6	1	5	3	1	3	1	3	1	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:24663062A>G	uc001biy.2	+	4	418	c.372A>G	c.(370-372)GGA>GGG	p.G124G	GRHL3_uc001bix.2_Silent_p.G119G|GRHL3_uc001biz.2_Silent_p.G26G	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	119					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		ACGTGTCTGGAACCCCAGAGT	0.562													22	133					0	0	0.00278	0	0		G	24663062	G	G	24663062	2	3	130	1	0	0	0	0	0	0	0	1	6781	233	9	3		3	GRHL3	1	24663062	Silent	SNP	A	TCGA-CG-4437-01A-01D-1800-08	899371	24663062	224587559	10	71656											
RPS6KA1	6195	broad.mit.edu	37	chr1	26888123	26888123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctttgtcctgcacaccattgGcaaaactgtggagtatctgc	9	12	9	11	0	1	0	0	0	1	0	2	1	2	1	2	2	3	3	2	2	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:26888123G>A	uc001bmr.1	+	17	1722	c.1559G>A	c.(1558-1560)GGC>GAC	p.G520D	RPS6KA1_uc010ofe.1_Missense_Mutation_p.G428D|RPS6KA1_uc010off.1_Missense_Mutation_p.G504D|RPS6KA1_uc001bms.1_Missense_Mutation_p.G529D|RPS6KA1_uc009vsl.1_Missense_Mutation_p.G363D	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	520	Protein kinase 2.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		CACACCATTGGCAAAACTGTG	0.567													28	82					0	0	0.00632	0	0		A	26888123	A	A	26888123	3	1	130	1	0	0	0	0	1	0	0	0	13675	1203	42	2	1764	2	RPS6KA1	1	26888123	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2225061	26888123	222362498	11	71657											
CSMD2	114784	broad.mit.edu	37	chr1	34554768	34554768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaactgtcccattgggacCgtgcagttggaacgtgcagt	8	10	12	11	2	1	0	1	0	0	0	2	2	2	2	2	2	4	3	2	2	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:34554768C>T	uc001bxn.1	-	2	123	c.94G>A	c.(94-96)GGT>AGT	p.G32S	CSMD2_uc001bxm.1_Missense_Mutation_p.G72S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	32	CUB 1.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CCATTGGGACCGTGCAGTTGG	0.527													10	25					0	0	0.006214	0	0		T	34554768	T	T	34554768	3	4	130	1	0	0	0	0	1	0	0	0	3948	652	23	1	10641	1	CSMD2	1	34554768	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	7666645	34554768	214695853	12	71658											
COL8A2	1296	broad.mit.edu	37	chr1	36564121	36564121	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgaatgccaggcactccTgggggtcctccaggccctgc	5	7	12	17	1	0	0	0	0	0	0	4	1	3	0	6	4	2	1	6	4	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:36564121T>A	uc001bzv.1	-	2	1168	c.1161A>T	c.(1159-1161)CCA>CCT	p.P387P	COL8A2_uc001bzw.1_Silent_p.P322P	NM_005202	NP_005193	P25067	CO8A2_HUMAN	collagen, type VIII, alpha 2 precursor	387	Triple-helical region.				angiogenesis|cell-cell adhesion|extracellular matrix organization	basement membrane|collagen	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CAGGCACTCCTGGGGGTCCTC	0.692													4	9					0	0	0.009096	0	0		A	36564121	A	A	36564121	2	1	130	1	0	0	0	0	0	0	0	1	3709	1567	55	5		5	COL8A2	1	36564121	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	2009353	36564121	212686500	13	71659											
CSF3R	1441	broad.mit.edu	37	chr1	36932035	36932035	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgagcagtggcccaaagaCacagtcgtcctcctggcttg	8	9	12	12	1	0	2	0	1	0	1	3	2	2	2	3	2	1	3	3	2	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:36932035C>A	uc001caw.1	-	17	2612	c.2434G>T	c.(2434-2436)GTC>TTC	p.V812F	MRPS15_uc001cas.2_5'Flank|CSF3R_uc001cat.1_Missense_Mutation_p.V374F|CSF3R_uc009vvc.1_Missense_Mutation_p.V341F|CSF3R_uc001cau.1_Missense_Mutation_p.V212F|CSF3R_uc001cav.1_Intron|CSF3R_uc001cax.1_Missense_Mutation_p.V839F|CSF3R_uc001cay.1_3'UTR	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	812	Cytoplasmic (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	GGCCCAAAGACACAGTCGTCC	0.647													10	30					2.74318e-10	3.06486e-10	0.006214	1	0		A	36932035	A	A	36932035	3	1	130	1	0	0	0	0	1	0	0	0	3940	478	17	5	189	5	CSF3R	1	36932035	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	367914	36932035	212318586	14	71660											
CSF3R	1441	broad.mit.edu	37	chr1	36938253	36938254	+	Missense_Mutation	DNP	GT	AC	AC																															ggggccgcttcagggctgggGtccatggtccgcagcatggg																										TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:36938253_36938254GT>AC	uc001caw.1	-	7	885_886	c.707_708AC>GT	c.(706-708)GAC>GGT	p.D236G	CSF3R_uc001cat.1_5'Flank|CSF3R_uc009vvc.1_5'Flank|CSF3R_uc001cau.1_5'Flank|CSF3R_uc001cav.1_Missense_Mutation_p.D236G|CSF3R_uc001cax.1_Missense_Mutation_p.D236G|CSF3R_uc001cay.1_Missense_Mutation_p.D236G	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	236	Extracellular (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	CAGGGCTGGGGTCCATGGTCCG	0.639													5	14					0	0	0.004672	0	0		AC	36938254	AC	AC	36938253	3	1	130	1	0	0	0	0	1	0	0	0	3940	1252	44	4	2036	4	CSF3R	1	36938253	Missense_Mutation	DNP	GT	TCGA-CG-4437-01A-01D-1800-08	6218	36938253	212312368	15	71661											
EPHA10	284656	broad.mit.edu	37	chr1	38227298	38227298	+	Missense_Mutation	SNP	T	G	G																															cccgcacggtggcgcggcacTgcttgtagtagacgcgcacc																										TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:38227298T>G	uc009vvi.2	-	3	715	c.629A>C	c.(628-630)CAG>CCG	p.Q210P	EPHA10_uc001cbw.3_Missense_Mutation_p.Q210P	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	210	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GGCGCGGCACTGCTTGTAGTA	0.697													11	32					0	0	0.010729	0	0		G	38227298	G	G	38227298	3	3	130	1	0	0	0	0	1	0	0	0	5174	1580	55	5	2495	5	EPHA10	1	38227298	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1289045	38227298	211023323	16	71662	132	2									
EPHA10	284656	broad.mit.edu	37	chr1	38227300	38227300	+	Missense_Mutation	SNP	C	G	G																															cgcacggtggcgcggcactgCttgtagtagacgcgcaccga																										TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:38227300C>G	uc009vvi.2	-	3	713	c.627G>C	c.(625-627)AAG>AAC	p.K209N	EPHA10_uc001cbw.3_Missense_Mutation_p.K209N	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	209	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CGCGGCACTGCTTGTAGTAGA	0.697													12	32					0	0	0.013537	0	0		G	38227300	G	G	38227300	3	3	130	1	0	0	0	0	1	0	0	0	5174	796	28	5	2497	5	EPHA10	1	38227300	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2	38227300	211023321	17	71663	132	2									
TMEM53	79639	broad.mit.edu	37	chr1	45120509	45120509	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgatgggagcaagcaggaCgtggaacaggacgaccacca	13	4	15	9	2	0	1	0	1	0	0	0	6	0	5	2	4	3	2	2	4	2	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:45120509C>G	uc001cmc.2	-	3	592	c.556G>C	c.(556-558)GTC>CTC	p.V186L	TMEM53_uc001cmb.1_Intron|TMEM53_uc001cmd.2_Missense_Mutation_p.V113L|TMEM53_uc009vxh.1_Missense_Mutation_p.V69L|TMEM53_uc010ola.1_Missense_Mutation_p.V69L	NM_024587	NP_078863	Q6P2H8	TMM53_HUMAN	transmembrane protein 53	186	Helical; (Potential).					integral to membrane				ovary(2)	2	Acute lymphoblastic leukemia(166;0.155)					GCAAGCAGGACGTGGAACAGG	0.667													6	34					0	0	0.001168	0	0		G	45120509	G	G	45120509	3	3	130	1	0	0	0	0	1	0	0	0	16204	536	19	5	281	5	TMEM53	1	45120509	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	6893209	45120509	204130112	18	71664											
DMBX1	127343	broad.mit.edu	37	chr1	46976756	46976756	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagctggacactgagcaGcccccacgtctgcctggcag	8	5	11	17	1	1	1	0	1	1	0	1	2	1	2	4	2	4	3	4	2	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:46976756G>T	uc001cpx.2	+	3	513	c.498G>T	c.(496-498)CAG>CAT	p.Q166H	DMBX1_uc001cpw.2_Missense_Mutation_p.Q161H	NM_147192	NP_671725	Q8NFW5	DMBX1_HUMAN	diencephalon/mesencephalon homeobox 1 isoform b	166					brain development|developmental growth|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					ACACTGAGCAGCCCCCACGTC	0.647													8	91					2.17888e-05	2.282e-05	0.006214	1	0		T	46976756	T	T	46976756	3	4	130	1	0	0	0	0	1	0	0	0	4584	962	34	5	508	5	DMBX1	1	46976756	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1856247	46976756	202273865	19	71665											
C1orf168	199920	broad.mit.edu	37	chr1	57258129	57258129	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgattatctcaacatttgaTtgagtcacctctaacagcag	12	13	7	9	0	3	3	2	3	2	0	4	3	3	3	1	0	3	1	1	0	3	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:57258129T>C	uc001cym.3	-	2	763	c.357A>G	c.(355-357)CAA>CAG	p.Q119Q	C1orf168_uc009vzu.1_RNA|C1orf168_uc009vzv.1_Silent_p.Q119Q	NM_001004303	NP_001004303	Q5VWT5	CA168_HUMAN	hypothetical protein LOC199920	119										ovary(3)|skin(2)	5						CAACATTTGATTGAGTCACCT	0.408													17	138					0	0	0.00499	0	0		C	57258129	C	C	57258129	2	2	130	1	0	0	0	0	0	0	0	1	2015	1490	52	3		3	C1orf168	1	57258129	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	10281373	57258129	191992492	20	71666											
C8B	732	broad.mit.edu	37	chr1	57411524	57411524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catggcctctttgttcataaCgagggtgtattcataaatgc	10	14	9	8	1	3	0	2	0	1	0	3	1	3	0	1	2	2	2	1	2	4	6	rs148695486	by1000genomes	TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:57411524C>T	uc001cyp.2	-	7	1142	c.1075G>A	c.(1075-1077)GTT>ATT	p.V359I	C8B_uc010oon.1_Missense_Mutation_p.V297I|C8B_uc010ooo.1_Missense_Mutation_p.V307I	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	359	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						TTGTTCATAACGAGGGTGTAT	0.468													30	40					0	0	0.007291	0	0		T	57411524	T	T	57411524	3	4	130	1	0	0	0	0	1	0	0	0	2420	536	19	1	724	1	C8B	1	57411524	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	153395	57411524	191839097	21	71667											
ROR1	4919	broad.mit.edu	37	chr1	64515551	64515551	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatggctctcggctgcggAttagaaacctcgacaccaca	10	9	9	13	3	2	1	0	0	2	1	4	3	2	2	2	3	2	2	2	3	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:64515551A>G	uc001dbj.2	+	3	751	c.352A>G	c.(352-354)ATT>GTT	p.I118V	ROR1_uc001dbi.3_Missense_Mutation_p.I118V	NM_005012	NP_005003	Q01973	ROR1_HUMAN	receptor tyrosine kinase-like orphan receptor 1	118	Ig-like C2-type.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19						TCGGCTGCGGATTAGAAACCT	0.552													28	144					0	0	0.008361	0	0		G	64515551	G	G	64515551	3	3	130	1	0	0	0	0	1	0	0	0	13551	333	12	3	362	3	ROR1	1	64515551	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	7104027	64515551	184735070	22	71668											
LEPR	3953	broad.mit.edu	37	chr1	66102502	66102502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactgacaagtcaagggtatCgtgcccattcccagccccct	9	8	9	15	1	1	1	1	1	0	0	3	2	2	1	4	1	2	1	4	1	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:66102502C>T	uc001dci.2	+	20	3504	c.3302C>T	c.(3301-3303)TCG>TTG	p.S1101L	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	1101	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		TCAAGGGTATCGTGCCCATTC	0.403													12	59					0	0	0.010729	0	0		T	66102502	T	T	66102502	3	4	130	1	0	0	0	0	1	0	0	0	8744	893	31	1	3602	1	LEPR	1	66102502	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1586951	66102502	183148119	23	71669											
CTH	1491	broad.mit.edu	37	chr1	70904487	70904487	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagacctactggaagatcTagatcaagctttgaaggcag	14	8	12	7	0	2	4	1	1	1	3	2	6	2	6	1	3	2	2	1	3	6	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:70904487T>C	uc001dfd.2	+	11	1313	c.1169T>C	c.(1168-1170)CTA>CCA	p.L390P	CTH_uc001dfe.2_Missense_Mutation_p.L346P|CTH_uc010oqq.1_Missense_Mutation_p.L358P	NM_001902	NP_001893	P32929	CGL_HUMAN	cystathionase isoform 1	390					cysteine biosynthetic process|hydrogen sulfide biosynthetic process|protein homotetramerization|protein-pyridoxal-5-phosphate linkage via peptidyl-N6-pyridoxal phosphate-L-lysine	cytoplasm|nucleus	cystathionine gamma-lyase activity|L-cysteine desulfhydrase activity|pyridoxal phosphate binding			lung(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	CTGGAAGATCTAGATCAAGCT	0.363													27	40					0	0	0.00632	0	0		C	70904487	C	C	70904487	3	2	130	1	0	0	0	0	1	0	0	0	4012	1522	53	3	1211	3	CTH	1	70904487	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	4801985	70904487	178346134	24	71670											
SYDE2	84144	broad.mit.edu	37	chr1	85648626	85648626	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcagtatgatgaacttctcGgcagttatatttagacaaag	14	13	8	6	1	2	3	1	2	1	1	3	3	2	3	0	1	1	3	0	1	6	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:85648626G>A	uc009wcm.2	-	3	1748	c.1699C>T	c.(1699-1701)CGA>TGA	p.R567*	SYDE2_uc001dku.3_Nonsense_Mutation_p.R567*	NM_032184	NP_115560	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2	567					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|central_nervous_system(1)	2				all cancers(265;0.0126)|Epithelial(280;0.0336)		TGAACTTCTCGGCAGTTATAT	0.398													107	133					0	0	0.01441	0	0		A	85648626	A	A	85648626	4	1	130	1	0	0	0	0	0	1	0	0	15461	1124	39	1	1905	1	SYDE2	1	85648626	Nonsense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	14744139	85648626	163601995	25	71671											
COL24A1	255631	broad.mit.edu	37	chr1	86591326	86591326	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatatctgcagtagtctgcAgatgcttctgcagaaggaat	12	11	10	8	0	3	2	0	0	3	2	3	3	3	3	0	1	4	5	0	1	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:86591326A>C	uc001dlj.2	-	3	735	c.693T>G	c.(691-693)TCT>TCG	p.S231S	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Silent_p.S231S	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	231					cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		AGTAGTCTGCAGATGCTTCTG	0.358													23	42					0	0	0.014323	0	0		C	86591326	C	C	86591326	2	2	130	1	0	0	0	0	0	0	0	1	3686	175	7	5		5	COL24A1	1	86591326	Silent	SNP	A	TCGA-CG-4437-01A-01D-1800-08	942700	86591326	162659295	26	71672											
FNDC7	163479	broad.mit.edu	37	chr1	109270518	109270518	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtccgtggtgccgaactGtatgaaaccaaggctgtaga	10	9	12	10	2	0	2	0	1	0	1	1	3	1	2	4	2	3	3	4	2	5	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:109270518G>C	uc001dvx.2	+	7	1200	c.1200G>C	c.(1198-1200)CTG>CTC	p.L400L	FNDC7_uc010ova.1_Silent_p.L167L	NM_001144937	NP_001138409	Q5VTL7	FNDC7_HUMAN	fibronectin type III domain containing 7	401	Fibronectin type-III 5.					extracellular region				ovary(1)|skin(1)	2		all_lung(203;0.00439)|Lung NSC(277;0.00683)|all_epithelial(167;0.00728)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.173)|all cancers(265;0.244)		GTGCCGAACTGTATGAAACCA	0.507													17	96					0	0	0.004007	0	0		C	109270518	C	C	109270518	2	2	130	1	0	0	0	0	0	0	0	1	5987	1364	48	5		5	FNDC7	1	109270518	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	22679192	109270518	139980103	27	71673											
SLC6A17	388662	broad.mit.edu	37	chr1	110714700	110714700	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtgcttacctggtgccctAcctggtgctgctgatcatca	6	12	11	12	0	2	1	2	1	0	0	2	1	2	1	3	3	6	3	3	3	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:110714700A>T	uc009wfq.2	+	3	766	c.305A>T	c.(304-306)TAC>TTC	p.Y102F		NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	102	Helical; Name=2; (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		CTGGTGCCCTACCTGGTGCTG	0.617													6	20					0	0	0.001984	0	0		T	110714700	T	T	110714700	3	4	130	1	0	0	0	0	1	0	0	0	14705	391	14	5	311	5	SLC6A17	1	110714700	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	1444182	110714700	138535921	28	71674											
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112998804	112998804	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaaagagaggcttgcaGactgaggcccaggtagagaa	15	4	16	6	0	0	5	0	1	0	4	0	9	0	5	1	3	1	3	1	3	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:112998804G>T	uc001ebx.2	+	6	918	c.690G>T	c.(688-690)CAG>CAT	p.Q230H	CTTNBP2NL_uc001ebz.2_5'Flank	NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	230	Potential.					actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAGGCTTGCAGACTGAGGCCC	0.502													12	65					5.16669e-11	5.8104e-11	0.010729	1	0		T	112998804	T	T	112998804	3	4	130	1	0	0	0	0	1	0	0	0	4049	933	33	5	704	5	CTTNBP2NL	1	112998804	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2284104	112998804	136251817	29	71675											
NOTCH2	4853	broad.mit.edu	37	chr1	120497838	120497838	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggaggcacactcatcaatgtCaatgttacatctctgccctg	10	11	8	12	0	4	0	3	0	1	0	5	1	4	1	1	2	2	2	1	2	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:120497838C>G	uc001eik.2	-	13	2300	c.2044G>C	c.(2044-2046)GAC>CAC	p.D682H	NOTCH2_uc001eil.2_Missense_Mutation_p.D682H|NOTCH2_uc001eim.3_Missense_Mutation_p.D599H	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	682	EGF-like 18; calcium-binding (Potential).|Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCATCAATGTCAATGTTACAT	0.483			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				6	48					0	0	0.001168	0	0		G	120497838	G	G	120497838	3	3	130	1	0	0	0	0	1	0	0	0	10567	826	29	5	5459	5	NOTCH2	1	120497838	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	7499034	120497838	128752783	30	71676											
ITGA10	8515	broad.mit.edu	37	chr1	145530340	145530340	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacccctggtctgaagttcaGaccttcctacgaagactggt	9	11	9	12	1	2	3	1	1	1	2	3	4	3	3	4	2	2	1	4	2	4	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:145530340G>C	uc001eoa.2	+	6	631	c.555G>C	c.(553-555)CAG>CAC	p.Q185H	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.Q54H|ITGA10_uc009wiw.2_Missense_Mutation_p.Q42H|ITGA10_uc010oyw.1_Missense_Mutation_p.Q130H	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	185	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CTGAAGTTCAGACCTTCCTAC	0.488													60	143					0	0	0.01441	0	0		C	145530340	C	C	145530340	3	2	130	1	0	0	0	0	1	0	0	0	7889	933	33	5	577	5	ITGA10	1	145530340	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	25032502	145530340	103720281	31	71677											
GJA5	2702	broad.mit.edu	37	chr1	147231318	147231318	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgtgtacttcctccaggAaatttcccaggaagctccaa	10	11	8	12	0	0	0	0	0	0	0	4	2	4	2	4	2	2	3	4	2	4	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:147231318A>C	uc001eps.1	-	2	170	c.29T>G	c.(28-30)TTC>TGC	p.F10C	GJA5_uc001ept.1_Missense_Mutation_p.F10C	NM_181703	NP_859054	P36382	CXA5_HUMAN	connexin 40	10	Cytoplasmic (Potential).				angiogenesis|cell-cell junction assembly|muscle contraction	integral to membrane				ovary(1)	1	all_hematologic(923;0.0276)		LUSC - Lung squamous cell carcinoma(543;0.202)			TTCCTCCAGGAAATTTCCCAG	0.517													21	62					0	0	0.012319	0	0		C	147231318	C	C	147231318	3	2	130	1	0	0	0	0	1	0	0	0	6419	246	9	5	1051	5	GJA5	1	147231318	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	1700978	147231318	102019303	32	71678											
SMCP	4184	broad.mit.edu	37	chr1	152856909	152856909	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcagaagatgtgtgaccAgacaaaacacagtaaatgct	16	9	9	7	0	1	4	1	1	0	3	1	4	1	4	1	0	2	3	1	0	5	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:152856909A>T	uc001fat.2	+	2	156	c.11A>T	c.(10-12)CAG>CTG	p.Q4L		NM_030663	NP_109588	P49901	MCSP_HUMAN	sperm mitochondria-associated cysteine-rich	4					penetration of zona pellucida|sperm motility	mitochondrial membrane					0	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			ATGTGTGACCAGACAAAACAC	0.448													4	57					0	0	0.000602	0	0		T	152856909	T	T	152856909	3	4	130	1	0	0	0	0	1	0	0	0	14814	188	7	5	13	5	SMCP	1	152856909	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	5625591	152856909	96393712	33	71679											
DCST2	127579	broad.mit.edu	37	chr1	155005612	155005612	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagcacttcggcggtctGgttcagggccagctctgccc	4	10	13	14	2	3	0	1	0	2	0	4	0	3	0	2	4	3	4	2	4	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:155005612G>C	uc001fgm.2	-	2	477	c.397C>G	c.(397-399)CAG>GAG	p.Q133E	DCST2_uc009wpb.2_RNA|DCST1_uc010per.1_5'Flank|DCST1_uc001fgn.1_5'Flank|DCST1_uc010pes.1_5'Flank	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	133	Cytoplasmic (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TCGGCGGTCTGGTTCAGGGCC	0.627													4	16					0	0	0.009096	0	0		C	155005612	C	C	155005612	3	2	130	1	0	0	0	0	1	0	0	0	4306	1357	47	5	1980	5	DCST2	1	155005612	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2148703	155005612	94245009	34	71680											
RHBG	57127	broad.mit.edu	37	chr1	156339103	156339103	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttcccctgctgtgcctcttCctccagggcgccactgccgt	2	11	9	19	2	1	0	0	0	1	0	4	0	4	0	7	1	3	1	7	1	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:156339103C>T	uc010pho.1	+	1	101	c.63C>T	c.(61-63)TTC>TTT	p.F21F	RHBG_uc010phm.1_Silent_p.F21F|RHBG_uc010phn.1_RNA|RHBG_uc001fos.2_5'UTR|RHBG_uc009wrz.2_5'UTR|RHBG_uc001for.2_5'UTR	NM_020407	NP_065140	Q9H310	RHBG_HUMAN	Rhesus blood group, B glycoprotein	21	Helical; (Potential).				transepithelial ammonium transport	anchored to plasma membrane|basolateral plasma membrane|cytoplasmic vesicle membrane|integral to plasma membrane|spectrin-associated cytoskeleton	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			ovary(2)	2	Hepatocellular(266;0.158)					TGTGCCTCTTCCTCCAGGGCG	0.662													16	58					0	0	0.00499	0	0		T	156339103	T	T	156339103	2	4	130	1	0	0	0	0	0	0	0	1	13349	854	30	4		4	RHBG	1	156339103	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1333491	156339103	92911518	35	71681											
OR10Z1	128368	broad.mit.edu	37	chr1	158577100	158577100	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttaatcccattgtttataGtctaaggaatagggctatac	12	14	7	8	0	1	0	0	0	1	0	2	1	2	1	2	2	1	2	2	2	8	9			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:158577100G>T	uc010pio.1	+	1	872	c.872G>T	c.(871-873)AGT>ATT	p.S291I		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	291	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					ATTGTTTATAGTCTAAGGAAT	0.463													36	276					1.04594e-18	1.20997e-18	0.00623	1	0		T	158577100	T	T	158577100	3	4	130	1	0	0	0	0	1	0	0	0	10942	1029	36	5	874	5	OR10Z1	1	158577100	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2237997	158577100	90673521	36	71682											
ATP1A2	477	broad.mit.edu	37	chr1	160104959	160104959	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaggcatgcgtggtgcaCggctctgacctgaaggacat	9	7	14	11	2	1	2	0	2	1	0	1	3	1	3	2	4	2	3	2	4	2	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:160104959C>T	uc001fvc.2	+	15	2121	c.1989C>T	c.(1987-1989)CAC>CAT	p.H663H	ATP1A2_uc001fvb.2_Silent_p.H663H|ATP1A2_uc001fvd.2_Silent_p.H399H	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	663	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GCGTGGTGCACGGCTCTGACC	0.597													12	51					0	0	0.001855	0	0		T	160104959	T	T	160104959	2	4	130	1	0	0	0	0	0	0	0	1	1130	535	19	1		1	ATP1A2	1	160104959	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1527859	160104959	89145662	37	71683											
OLFML2B	25903	broad.mit.edu	37	chr1	161953891	161953891	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgccatcgccagggggtGgcctcctcgtaggccacgtc	4	7	13	17	3	0	0	0	0	0	0	4	0	1	0	6	4	1	1	6	4	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:161953891G>C	uc001gbu.2	-	8	2251	c.1827C>G	c.(1825-1827)GCC>GCG	p.A609A	OLFML2B_uc001gbt.2_Silent_p.A92A|OLFML2B_uc010pkq.1_Silent_p.A610A	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	609	Olfactomedin-like.									skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			GCCAGGGGGTGGCCTCCTCGT	0.617													8	51					0	0	0.004482	0	0		C	161953891	C	C	161953891	2	2	130	1	0	0	0	0	0	0	0	1	10877	1335	47	5		5	OLFML2B	1	161953891	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1848932	161953891	87296730	38	71684											
C1orf49	84066	broad.mit.edu	37	chr1	178489991	178489991	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcactggatccccttcaTcactgtgggacctgctgcgt	5	11	11	14	1	3	0	3	0	0	0	4	2	4	2	3	3	2	2	3	3	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:178489991T>A	uc001glt.1	+	7	637	c.525T>A	c.(523-525)CAT>CAA	p.H175Q	C1orf49_uc001glu.1_Missense_Mutation_p.H175Q|C1orf49_uc001glv.1_RNA|C1orf49_uc001glw.1_Missense_Mutation_p.H183Q	NM_032126	NP_115502	Q5T0J7	CA049_HUMAN	hypothetical protein LOC84066	175						microtubule cytoskeleton					0						ATCCCCTTCATCACTGTGGGA	0.577													22	51					0	0	0.014323	0	0		A	178489991	A	A	178489991	3	1	130	1	0	0	0	0	1	0	0	0	2044	1432	50	5	575	5	C1orf49	1	178489991	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	16536100	178489991	70760630	39	71685											
ZNF648	127665	broad.mit.edu	37	chr1	182026102	182026102	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctggtgtttgcgcaggtcCgaagagcgcacgaaggcctt	7	8	15	11	5	0	1	0	0	0	1	1	3	1	1	2	3	2	4	2	3	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:182026102C>T	uc001goz.2	-	2	1252	c.1044G>A	c.(1042-1044)TCG>TCA	p.S348S		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	348	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGCGCAGGTCCGAAGAGCGCA	0.632													5	22					0	0	0.000602	0	0		T	182026102	T	T	182026102	2	4	130	1	0	0	0	0	0	0	0	1	18088	639	23	1		1	ZNF648	1	182026102	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3536111	182026102	67224519	40	71686											
HMCN1	83872	broad.mit.edu	37	chr1	185894223	185894223	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agaaaaccccaggatactatCtgcagccgggccaaattccc	13	6	8	14	1	1	1	0	0	1	1	2	2	2	2	5	2	4	1	5	2	5	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:185894223C>G	uc001grq.1	+	9	1559	c.1330C>G	c.(1330-1332)CTG>GTG	p.L444V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	444	Ig-like C2-type 1.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AGGATACTATCTGCAGCCGGG	0.393													4	40					0	0	0.009096	0	0		G	185894223	G	G	185894223	3	3	130	1	0	0	0	0	1	0	0	0	7236	912	32	5	1364	5	HMCN1	1	185894223	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3868121	185894223	63356398	41	71687											
HMCN1	83872	broad.mit.edu	37	chr1	186056779	186056779	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacattaagaaagctgaggTgcatcttttattcttgtttg	11	16	8	6	0	2	2	0	1	2	1	2	2	2	2	0	1	2	3	0	1	3	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:186056779T>A	uc001grq.1	+	60	9592	c.9363_splice	c.e60+2	p.E3121_splice		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor						response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AAAGCTGAGGTGCATCTTTTA	0.403													9	131					0	0	0.006214	0	0		A	186056779	A	A	186056779	5	1	130	1	0	0	0	0	0	0	1	0	7236	1710	59	5	9603	5	HMCN1	1	186056779	Splice_Site	SNP	T	TCGA-CG-4437-01A-01D-1800-08	162556	186056779	63193842	42	71688											
KIF14	9928	broad.mit.edu	37	chr1	200559309	200559309	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagctttttgagaagaaaGctcttgctgagccatttctt	9	15	9	8	0	2	3	0	2	2	2	2	4	2	3	1	0	5	4	1	0	2	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:200559309G>T	uc010ppk.1	-	17	3344	c.2905C>A	c.(2905-2907)CTT>ATT	p.L969I	KIF14_uc010ppj.1_Missense_Mutation_p.L478I	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	969	Potential.|Required for CIT-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						TGAGAAGAAAGCTCTTGCTGA	0.368													94	125					5.48297e-45	6.48503e-45	0.01441	1	0		T	200559309	T	T	200559309	3	4	130	1	0	0	0	0	1	0	0	0	8292	971	34	5	2097	5	KIF14	1	200559309	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	14502530	200559309	48691312	43	71689											
MYBPH	4608	broad.mit.edu	37	chr1	203144770	203144770	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcacctgctcttctctggtGgactctgatactgccacttc	5	13	9	14	0	3	1	0	1	3	0	5	2	3	2	2	3	3	2	2	3	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:203144770G>A	uc001gzh.1	-	1	173	c.114C>T	c.(112-114)TCC>TCT	p.S38S	FMOD_uc010pqi.1_Intron	NM_004997	NP_004988	Q13203	MYBPH_HUMAN	myosin binding protein H	38					cell adhesion|regulation of striated muscle contraction	myosin filament	structural constituent of muscle				0			BRCA - Breast invasive adenocarcinoma(75;0.153)	Colorectal(1306;0.0306)		CTTCTCTGGTGGACTCTGATA	0.632													21	216					0	0	0.014323	0	0		A	203144770	A	A	203144770	2	1	130	1	0	0	0	0	0	0	0	1	10032	1335	47	4		4	MYBPH	1	203144770	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2585461	203144770	46105851	44	71690											
NFASC	23114	broad.mit.edu	37	chr1	204943805	204943805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttaagaatgggcaaggaaGcaacctggatggtggcaact	13	8	14	6	0	0	1	0	0	0	1	0	3	0	3	1	5	3	4	1	5	6	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:204943805G>A	uc001hbj.2	+	14	1740	c.1412G>A	c.(1411-1413)AGC>AAC	p.S471N	NFASC_uc001hbh.2_Missense_Mutation_p.S471N|NFASC_uc010pqz.1_Missense_Mutation_p.S465N|NFASC_uc010pra.1_Missense_Mutation_p.S482N|NFASC_uc001hbi.2_Missense_Mutation_p.S482N|NFASC_uc009xbg.1_3'UTR|NFASC_uc010prb.1_Missense_Mutation_p.S482N|NFASC_uc010prc.1_Missense_Mutation_p.S38N|NFASC_uc001hbk.1_Missense_Mutation_p.S292N	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	471	Extracellular (Potential).|Ig-like C2-type 5.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			GGGCAAGGAAGCAACCTGGAT	0.517													28	194					0	0	0.005443	0	0		A	204943805	A	A	204943805	3	1	130	1	0	0	0	0	1	0	0	0	10378	971	34	2	1513	2	NFASC	1	204943805	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1799035	204943805	44306816	45	71691											
TMCC2	9911	broad.mit.edu	37	chr1	205210856	205210856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcacgacctgcccgcccGgcccaccgccttcaaccgcg	5	4	9	23	6	1	0	1	0	0	0	1	1	1	0	8	1	3	1	8	1	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:205210856G>A	uc001hbz.1	+	3	875	c.431G>A	c.(430-432)CGG>CAG	p.R144Q	TMCC2_uc010prf.1_Missense_Mutation_p.R66Q	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	144						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CTGCCCGCCCGGCCCACCGCC	0.582													7	36					0	0	0.001984	0	0		A	205210856	A	A	205210856	3	1	130	1	0	0	0	0	1	0	0	0	16018	1116	39	1	437	1	TMCC2	1	205210856	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	267051	205210856	44039765	46	71692											
IKBKE	9641	broad.mit.edu	37	chr1	206647762	206647762	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgagggagtttgaggtccTgcggaagctgaaccaccaga	11	7	15	8	1	0	4	0	3	0	1	1	6	1	6	3	3	3	2	3	3	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:206647762T>C	uc001hdz.1	+	4	544	c.176T>C	c.(175-177)CTG>CCG	p.L59P	IKBKE_uc009xbu.1_Missense_Mutation_p.L59P|IKBKE_uc009xbv.1_Missense_Mutation_p.L59P|IKBKE_uc001hea.1_5'UTR	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	59	Protein kinase.				DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding			ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)					TTTGAGGTCCTGCGGAAGCTG	0.562													5	46					0	0	0.001984	0	0		C	206647762	C	C	206647762	3	2	130	1	0	0	0	0	1	0	0	0	7628	1580	55	3	182	3	IKBKE	1	206647762	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1436906	206647762	42602859	47	71693											
CR1L	1379	broad.mit.edu	37	chr1	207850787	207850787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaggcctaccaacctaactGatgactttgagtttcccatt	10	12	6	13	0	0	3	0	3	0	0	1	3	1	3	5	1	3	1	5	1	3	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:207850787G>A	uc001hga.3	+	2	272	c.151G>A	c.(151-153)GAT>AAT	p.D51N	CR1L_uc001hfz.2_RNA|CR1L_uc001hgb.1_RNA	NM_175710	NP_783641	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	51	Sushi 1.					cytoplasm|extracellular region|membrane					0						CAACCTAACTGATGACTTTGA	0.458													47	136					0	0	0.013114	0	0		A	207850787	A	A	207850787	3	1	130	1	0	0	0	0	1	0	0	0	3844	1290	45	4	157	4	CR1L	1	207850787	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1203025	207850787	41399834	48	71694											
LAMB3	3914	broad.mit.edu	37	chr1	209799127	209799127	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccaggccacggtcctccagCccaggccctgaccacaggct	7	4	11	19	1	0	1	0	1	0	0	2	1	2	1	7	4	1	1	7	4	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:209799127C>G	uc001hhg.2	-	13	2232	c.1842G>C	c.(1840-1842)GGG>GGC	p.G614G	LAMB3_uc009xco.2_Silent_p.G614G|LAMB3_uc001hhh.2_Silent_p.G614G|LAMB3_uc010psl.1_Intron|hsa-mir-4260|MI0015859_5'Flank	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	614	Domain II.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		GGTCCTCCAGCCCAGGCCCTG	0.632													47	43					0	0	0.013114	0	0		G	209799127	G	G	209799127	2	3	130	1	0	0	0	0	0	0	0	1	8628	726	26	5		5	LAMB3	1	209799127	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1948340	209799127	39451494	49	71695											
USH2A	7399	broad.mit.edu	37	chr1	215844540	215844540	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtacctccagatgtggagggGgttgcatcaaaggtgcaatc	10	9	14	8	0	1	1	1	0	0	1	3	2	2	2	2	4	3	4	2	4	3	2	rs150600947		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:215844540G>T	uc001hku.1	-	64	14294	c.13907C>A	c.(13906-13908)CCC>CAC	p.P4636H		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4636	Fibronectin type-III 32.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATGTGGAGGGGGTTGCATCAA	0.483										HNSCC(13;0.011)			12	108					3.07112e-06	3.25121e-06	0.010729	1	0		T	215844540	T	T	215844540	3	4	130	1	0	0	0	0	1	0	0	0	17062	1232	43	5	1737	5	USH2A	1	215844540	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	6045413	215844540	33406081	50	71696											
SLC30A10	55532	broad.mit.edu	37	chr1	220091794	220091794	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatggccgtgatgaccacaAccacggaccccagggcatct	10	6	11	14	2	1	3	0	3	1	0	1	4	1	4	5	3	1	1	5	3	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:220091794A>T	uc001hlw.2	-	3	972	c.761T>A	c.(760-762)GTT>GAT	p.V254D	SLC30A10_uc001hlu.1_RNA|SLC30A10_uc001hlv.2_Missense_Mutation_p.V9D|SLC30A10_uc001hlx.2_Missense_Mutation_p.V29D	NM_018713	NP_061183	Q6XR72	ZNT10_HUMAN	solute carrier family 30 (zinc transporter),	254	Helical; (Potential).|Poly-Val.				zinc ion transport	integral to membrane|plasma membrane	cation transmembrane transporter activity				0				GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.209)		GATGACCACAACCACGGACCC	0.527													72	104					0	0	0.01441	0	0		T	220091794	T	T	220091794	3	4	130	1	0	0	0	0	1	0	0	0	14579	43	2	5	704	5	SLC30A10	1	220091794	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	4247254	220091794	29158827	51	71697											
DEGS1	8560	broad.mit.edu	37	chr1	224377672	224377672	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctgtaccgctttcagaaAgtttatatgggttattcttc	8	18	7	8	1	3	1	1	0	2	1	4	1	3	1	1	1	1	4	1	1	5	9			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:224377672A>G	uc001hoj.2	+	2	587	c.476A>G	c.(475-477)AAG>AGG	p.K159R	DEGS1_uc001hoi.2_Missense_Mutation_p.K138R	NM_144780	NP_659004	O15121	DEGS1_HUMAN	degenerative spermatocyte homolog 1, lipid	159	Helical; (Potential).				sphingolipid metabolic process|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	electron carrier activity|protein binding|sphingolipid delta-4 desaturase activity				0	Breast(184;0.193)			GBM - Glioblastoma multiforme(131;0.00643)		GCTTTCAGAAAGTTTATATGG	0.438													6	286					0	0	0.001984	0	0		G	224377672	G	G	224377672	3	3	130	1	0	0	0	0	1	0	0	0	4428	72	3	3	482	3	DEGS1	1	224377672	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	4285878	224377672	24872949	52	71698											
CNIH3	149111	broad.mit.edu	37	chr1	224922345	224922345	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgacactttgagttactGtcagaaggaggcctggtgta	9	11	13	8	1	1	2	1	1	0	1	1	4	1	3	2	3	2	2	2	3	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:224922345G>T	uc001hos.1	+	5	1090	c.392G>T	c.(391-393)TGT>TTT	p.C131F		NM_152495	NP_689708	Q8TBE1	CNIH3_HUMAN	cornichon homolog 3	131	Cytoplasmic (Potential).				intracellular signal transduction|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic shaft|postsynaptic membrane					0	Breast(184;0.218)			GBM - Glioblastoma multiforme(131;0.073)		TTGAGTTACTGTCAGAAGGAG	0.522													45	121					2.35958e-20	2.74817e-20	0.009718	1	0		T	224922345	T	T	224922345	3	4	130	1	0	0	0	0	1	0	0	0	3607	1377	48	5	410	5	CNIH3	1	224922345	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	544673	224922345	24328276	53	71699											
C1orf55	163859	broad.mit.edu	37	chr1	226175773	226175773	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actctctgccttcttctcctGggtctcttctgtttctgtaa	3	19	6	13	0	6	0	0	0	6	0	9	0	6	0	2	1	1	2	2	1	1	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:226175773G>C	uc001hpu.3	-	6	1011	c.958C>G	c.(958-960)CAG>GAG	p.Q320E	C1orf55_uc001hpv.2_Missense_Mutation_p.Q320E	NM_152608	NP_689821	Q6IQ49	CA055_HUMAN	hypothetical protein LOC163859	320										lung(1)	1	Breast(184;0.197)					TTCTTCTCCTGGGTCTCTTCT	0.488													78	115					0	0	0.01441	0	0		C	226175773	C	C	226175773	3	2	130	1	0	0	0	0	1	0	0	0	2050	1357	47	5	405	5	C1orf55	1	226175773	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1253428	226175773	23074848	54	71700											
GALNT2	2590	broad.mit.edu	37	chr1	230379172	230379172	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctggaaagggtggcggAggtgagatgacgggggctgg	7	6	21	7	2	0	2	0	2	0	1	1	5	1	4	2	8	0	1	2	8	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:230379172A>C	uc010pwa.1	+	7	800	c.728A>C	c.(727-729)GAG>GCG	p.E243A	GALNT2_uc010pvy.1_Missense_Mutation_p.E205A|GALNT2_uc010pvz.1_RNA	NM_004481	NP_004472	Q10471	GALT2_HUMAN	polypeptide N-acetylgalactosaminyltransferase 2	243	Lumenal (Potential).				immunoglobulin biosynthetic process|protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2	Breast(184;0.193)|Ovarian(103;0.249)	all_cancers(173;0.156)|Prostate(94;0.179)				AGGGTGGCGGAGGTGAGATGA	0.642													9	48					0	0	0.004482	0	0		C	230379172	C	C	230379172	3	2	130	1	0	0	0	0	1	0	0	0	6228	318	11	5	754	5	GALNT2	1	230379172	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	4203399	230379172	18871449	55	71701											
ADSS	159	broad.mit.edu	37	chr1	244582180	244582180	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccagtacaaacacctccaAcagtacaatttgaagaggtt	17	8	6	10	0	0	2	0	1	0	1	1	2	1	2	3	1	5	3	3	1	7	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:244582180A>T	uc001iaj.2	-	9	1121	c.827T>A	c.(826-828)GTT>GAT	p.V276D		NM_001126	NP_001117	P30520	PURA2_HUMAN	adenylosuccinate synthase	276					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol|plasma membrane	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(2)|kidney(1)	3	all_cancers(71;2.17e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)	all_cancers(173;0.0896)|all_epithelial(177;0.172)	all cancers(7;9.71e-08)|GBM - Glioblastoma multiforme(7;1.28e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.0014)		L-Aspartic Acid(DB00128)	AACACCTCCAACAGTACAATT	0.353													13	39					0	0	0.013537	0	0		T	244582180	T	T	244582180	3	4	130	1	0	0	0	0	1	0	0	0	347	43	2	5	563	5	ADSS	1	244582180	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	14203008	244582180	4668441	56	71702											
PPPDE1	51029	broad.mit.edu	37	chr1	244849945	244849945	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattggaattggagtttttcAttcaggaattgaagtctatg	11	16	10	4	0	3	1	2	1	1	0	3	4	3	4	0	3	0	1	0	3	4	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:244849945A>C	uc001iao.2	+	2	353	c.89A>C	c.(88-90)CAT>CCT	p.H30P	PPPDE1_uc001iap.2_Missense_Mutation_p.H30P	NM_016076	NP_057160	Q9BSY9	PPDE1_HUMAN	PPPDE peptidase domain containing 1	30	PPPDE peptidase.									breast(3)	3						GGAGTTTTTCATTCAGGAATT	0.328													32	71					0	0	0.003755	0	0		C	244849945	C	C	244849945	3	2	130	1	0	0	0	0	1	0	0	0	12430	217	8	5	95	5	PPPDE1	1	244849945	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	267765	244849945	4400676	57	71703											
OR14A16	284532	broad.mit.edu	37	chr1	247978674	247978674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgacatatagcagtatagcGgtcaaaggacatcaccgtga	14	8	11	8	2	2	2	2	2	0	0	2	3	2	3	1	2	2	2	1	2	5	4	rs147527565		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr1:247978674G>A	uc001idm.1	-	1	358	c.358C>T	c.(358-360)CGC>TGC	p.R120C		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	120	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GCAGTATAGCGGTCAAAGGAC	0.493													48	80					0	0	0.013114	0	0		A	247978674	A	A	247978674	3	1	130	1	0	0	0	0	1	0	0	0	10964	1116	39	1	575	1	OR14A16	1	247978674	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3128729	247978674	1271947	58	71704											
GREB1	9687	broad.mit.edu	37	chr2	11765369	11765369	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagttgccctttgactacAtcattcacgacccgaagtat	12	11	7	11	2	2	2	2	1	0	1	2	4	2	2	2	0	2	2	2	0	4	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:11765369A>G	uc002rbk.1	+	24	4537	c.4237A>G	c.(4237-4239)ATC>GTC	p.I1413V	GREB1_uc002rbp.1_Missense_Mutation_p.I411V	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1413						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		CTTTGACTACATCATTCACGA	0.473													9	401					0	0	0.013537	0	0		G	11765369	G	G	11765369	3	3	130	1	0	0	0	0	1	0	0	0	6776	217	8	3	4435	3	GREB1	2	11765369	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08		11765369	231434004	59	71705											
APOB	338	broad.mit.edu	37	chr2	21228333	21228333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggaatcaaggagtcttctgGttgagaatattttgttaaca	12	14	11	4	0	3	1	1	1	2	1	3	4	3	3	0	3	1	2	0	3	5	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:21228333G>A	uc002red.2	-	26	11535	c.11407C>T	c.(11407-11409)CCA>TCA	p.P3803S		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3803					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GAGTCTTCTGGTTGAGAATAT	0.413													43	123					0	0	0.013114	0	0		A	21228333	A	A	21228333	3	1	130	1	0	0	0	0	1	0	0	0	785	1261	44	4	2300	4	APOB	2	21228333	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	9462964	21228333	221971040	60	71706											
GPR113	165082	broad.mit.edu	37	chr2	26536310	26536310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtggaccggcccccagaCtccgtcagccccacagagcc	7	4	11	19	2	1	2	1	0	0	2	2	3	2	3	7	2	2	1	7	2	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:26536310C>T	uc002rhe.3	-	9	1408	c.1408G>A	c.(1408-1410)GTC>ATC	p.V470I	GPR113_uc010yky.1_Missense_Mutation_p.V401I|GPR113_uc002rhb.1_Missense_Mutation_p.V73I|GPR113_uc010eyk.1_Missense_Mutation_p.V271I|GPR113_uc002rhc.1_Missense_Mutation_p.V73I|GPR113_uc002rhd.1_RNA	NM_001145168	NP_001138640	Q8IZF5	GP113_HUMAN	G-protein coupled receptor 113 isoform 1	470	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCCCCCAGACTCCGTCAGCC	0.637													3	13					0	0	0.004672	0	0		T	26536310	T	T	26536310	3	4	130	1	0	0	0	0	1	0	0	0	6645	565	20	4	1940	4	GPR113	2	26536310	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	5307977	26536310	216663063	61	71707											
VIT	5212	broad.mit.edu	37	chr2	37041500	37041500	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcaactcacagcctcggaActgaattcagagcaggcaga	13	7	10	11	1	3	3	3	1	0	2	4	4	3	4	1	2	4	3	1	2	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:37041500A>C	uc002rpl.2	+	16	2299	c.2078A>C	c.(2077-2079)AAC>ACC	p.N693T	VIT_uc002rpm.2_Missense_Mutation_p.N671T|VIT_uc010ezv.2_Missense_Mutation_p.N649T|VIT_uc010ezw.2_Missense_Mutation_p.N650T	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	678						proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				CAGCCTCGGAACTGAATTCAG	0.512													20	53					0	0	0.012319	0	0		C	37041500	C	C	37041500	3	2	130	1	0	0	0	0	1	0	0	0	17197	43	2	5	2261	5	VIT	2	37041500	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	10505190	37041500	206157873	62	71708											
FSHR	2492	broad.mit.edu	37	chr2	49210097	49210097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaaacatcattaggcaattCttctaaattattattatcgc	15	15	4	7	1	3	0	1	0	2	0	4	1	3	0	0	1	1	1	0	1	9	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:49210097C>T	uc002rww.2	-	8	696	c.622G>A	c.(622-624)GAA>AAA	p.E208K	FSHR_uc002rwx.2_Missense_Mutation_p.E208K|FSHR_uc010fbn.2_Missense_Mutation_p.E182K	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	208	LRR 7.|Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	TTAGGCAATTCTTCTAAATTA	0.398									Gonadal_Dysgenesis_46_XX				3	26					0	0	0.009096	0	0		T	49210097	T	T	49210097	3	4	130	1	0	0	0	0	1	0	0	0	6087	922	32	4	1477	4	FSHR	2	49210097	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	12168597	49210097	193989276	63	71709											
RPS27A	6233	broad.mit.edu	37	chr2	55461288	55461288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagcagagactgatctttgCtggcaagcagctggaagatg	11	9	13	8	0	2	3	1	1	1	2	2	5	2	4	0	2	4	5	0	2	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:55461288C>T	uc010yow.1	+	4	334	c.137C>T	c.(136-138)GCT>GTT	p.A46V	C2orf63_uc002ryh.2_5'Flank|C2orf63_uc002ryi.2_5'Flank|C2orf63_uc002ryj.2_5'Flank|RPS27A_uc002ryk.2_Missense_Mutation_p.A46V|RPS27A_uc002ryl.2_RNA|RPS27A_uc002rym.2_RNA	NM_001135592	NP_001129064	P62979	RS27A_HUMAN	ubiquitin and ribosomal protein S27a precursor	46	Ubiquitin-like.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endocrine pancreas development|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	metal ion binding|structural constituent of ribosome			ovary(1)	1						CTGATCTTTGCTGGCAAGCAG	0.398													31	61					0	0	0.003755	0	0		T	55461288	T	T	55461288	3	4	130	1	0	0	0	0	1	0	0	0	13664	797	28	2	147	2	RPS27A	2	55461288	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	6251191	55461288	187738085	64	71710											
CCDC88A	55704	broad.mit.edu	37	chr2	55615954	55615954	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctcaccaaaatggatagaTtgtgcattctaagtgaggca	13	11	10	7	0	2	2	1	1	2	1	3	3	2	3	1	2	1	2	1	2	4	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:55615954T>C	uc002ryv.2	-	3	1075	c.233A>G	c.(232-234)AAT>AGT	p.N78S	CCDC88A_uc010yoz.1_Missense_Mutation_p.N78S|CCDC88A_uc010ypa.1_Missense_Mutation_p.N78S	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	78					activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						AATGGATAGATTGTGCATTCT	0.269													34	84					0	0	0.006999	0	0		C	55615954	C	C	55615954	3	2	130	1	0	0	0	0	1	0	0	0	2866	1493	52	3	5502	3	CCDC88A	2	55615954	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	154666	55615954	187583419	65	71711											
ACTG2	72	broad.mit.edu	37	chr2	74141874	74141874	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccctggattttgagaatgaGatggccacagcagcttcctc	9	10	11	11	0	0	2	0	2	0	2	2	5	1	3	3	2	2	2	3	2	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:74141874G>C	uc002sjw.2	+	7	803	c.681G>C	c.(679-681)GAG>GAC	p.E227D	ACTG2_uc010fey.2_Missense_Mutation_p.E227D|ACTG2_uc010yrn.1_Missense_Mutation_p.E184D	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	227					muscle contraction	cytoskeleton|cytosol	ATP binding				0						TTGAGAATGAGATGGCCACAG	0.517													14	53					0	0	0.001855	0	0		C	74141874	C	C	74141874	3	2	130	1	0	0	0	0	1	0	0	0	197	933	33	5	703	5	ACTG2	2	74141874	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	18525920	74141874	169057499	66	71712											
CCDC142	84865	broad.mit.edu	37	chr2	74702165	74702165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggtctggcggagatcagggGacaggctccactgctcctct	6	8	15	12	1	3	1	1	0	2	1	5	3	5	2	2	6	1	2	2	6	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:74702165G>A	uc002slr.2	-	8	2267	c.1874C>T	c.(1873-1875)TCC>TTC	p.S625F	MRPL53_uc002sln.2_5'Flank|CCDC142_uc002slo.2_RNA|CCDC142_uc002slq.2_Missense_Mutation_p.S618F|CCDC142_uc002slp.2_Missense_Mutation_p.S625F	NM_032779	NP_116168	Q17RM4	CC142_HUMAN	coiled-coil domain containing 142	625										central_nervous_system(1)	1						GAGATCAGGGGACAGGCTCCA	0.597													41	93					0	0	0.009718	0	0		A	74702165	A	A	74702165	3	1	130	1	0	0	0	0	1	0	0	0	2779	1174	41	4	386	4	CCDC142	2	74702165	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	560291	74702165	168497208	67	71713											
HTRA2	27429	broad.mit.edu	37	chr2	74757811	74757811	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtggtggctgccgatgggCtcattgtcaccaacgcccat	6	10	12	13	3	2	0	2	0	0	0	3	1	2	0	3	3	2	2	3	3	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:74757811C>A	uc002smi.1	+	2	1176	c.574C>A	c.(574-576)CTC>ATC	p.L192I	AUP1_uc002sme.2_5'Flank|AUP1_uc002smf.2_5'Flank|AUP1_uc002smg.2_5'Flank|AUP1_uc002smh.2_5'Flank|AUP1_uc010yrx.1_5'Flank|AUP1_uc010yry.1_5'Flank|HTRA2_uc002smj.1_Missense_Mutation_p.L192I|HTRA2_uc002smk.1_Missense_Mutation_p.L192I|HTRA2_uc002sml.1_Missense_Mutation_p.L192I|HTRA2_uc002smm.1_5'UTR|HTRA2_uc002smn.1_5'UTR|HTRA2_uc010ffl.2_5'UTR	NM_013247	NP_037379	O43464	HTRA2_HUMAN	HtrA serine peptidase 2 isoform 1 preproprotein	192	Serine protease.				apoptosis|proteolysis|response to stress	CD40 receptor complex|endoplasmic reticulum membrane|internal side of plasma membrane|mitochondrial intermembrane space|mitochondrial membrane|nucleus	serine-type endopeptidase activity|unfolded protein binding			ovary(1)	1						TGCCGATGGGCTCATTGTCAC	0.597													11	50					1.33987e-11	1.51176e-11	0.008291	1	0		A	74757811	A	A	74757811	3	1	130	1	0	0	0	0	1	0	0	0	7470	797	28	5	580	5	HTRA2	2	74757811	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	55646	74757811	168441562	68	71714											
KCNIP3	30818	broad.mit.edu	37	chr2	96040133	96040133	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaccaagttcaccaagAaggagctgcagtctctctac	12	7	8	14	0	3	2	1	0	2	2	4	3	3	3	3	1	3	3	3	1	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:96040133A>G	uc002sup.2	+	3	386	c.271A>G	c.(271-273)AAG>GAG	p.K91E	KCNIP3_uc002suq.2_Missense_Mutation_p.K65E	NM_013434	NP_038462	Q9Y2W7	CSEN_HUMAN	Kv channel interacting protein 3 isoform 1	91	EF-hand 1; degenerate.				apoptosis|signal transduction|transcription, DNA-dependent	endoplasmic reticulum|Golgi apparatus|nucleus|plasma membrane	calcium ion binding|DNA binding|potassium channel activity|transcription corepressor activity|voltage-gated ion channel activity			breast(2)|ovary(1)	3				READ - Rectum adenocarcinoma(193;0.13)		GTTCACCAAGAAGGAGCTGCA	0.602													11	49					0	0	0.010729	0	0		G	96040133	G	G	96040133	3	3	130	1	0	0	0	0	1	0	0	0	8057	247	9	3	388	3	KCNIP3	2	96040133	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	21282322	96040133	147159240	69	71715											
VWA3B	200403	broad.mit.edu	37	chr2	98797602	98797602	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtatgatgtgcttgccgactGctctttccgccacgctgatg	5	13	11	12	3	1	2	0	2	1	0	2	3	2	2	3	0	3	4	3	0	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:98797602G>T	uc002syo.2	+	9	1502	c.1238G>T	c.(1237-1239)TGC>TTC	p.C413F	VWA3B_uc010yvh.1_Missense_Mutation_p.C263F|VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_5'UTR|VWA3B_uc002sym.2_Missense_Mutation_p.C413F|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.C70F	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	413										ovary(3)|large_intestine(2)|skin(1)	6						CTTGCCGACTGCTCTTTCCGC	0.527													34	97					7.11191e-15	8.07743e-15	0.013726	1	0		T	98797602	T	T	98797602	3	4	130	1	0	0	0	0	1	0	0	0	17267	1319	46	5	1268	5	VWA3B	2	98797602	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2757469	98797602	144401771	70	71716											
CNGA3	1261	broad.mit.edu	37	chr2	99012681	99012681	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagcatgggcgcctctccAggaagtacatttacagtctc	10	9	10	12	1	2	1	0	0	2	1	4	2	2	2	2	2	3	2	2	2	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:99012681A>G	uc002syt.2	+	8	1465	c.1048A>G	c.(1048-1050)AGG>GGG	p.R350G	CNGA3_uc002syu.2_Missense_Mutation_p.R332G|CNGA3_uc010fij.2_Missense_Mutation_p.R354G	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	350					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						GCGCCTCTCCAGGAAGTACAT	0.507													15	104					0	0	0.00245	0	0		G	99012681	G	G	99012681	3	3	130	1	0	0	0	0	1	0	0	0	3601	179	7	3	1074	3	CNGA3	2	99012681	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	215079	99012681	144186692	71	71717											
SLC9A2	6549	broad.mit.edu	37	chr2	103281631	103281631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgtgtttgcaggaatcGccaacttctttgttgtggga	7	16	12	6	1	1	1	0	1	1	0	2	3	1	3	1	2	2	3	1	2	2	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:103281631G>A	uc002tca.2	+	3	968	c.826G>A	c.(826-828)GCC>ACC	p.A276T		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	276	Extracellular (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						TGCAGGAATCGCCAACTTCTT	0.433													17	155					0	0	0.00499	0	0		A	103281631	A	A	103281631	3	1	130	1	0	0	0	0	1	0	0	0	14737	1087	38	1	836	1	SLC9A2	2	103281631	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	4268950	103281631	139917742	72	71718											
POU3F3	5455	broad.mit.edu	37	chr2	105472909	105472909	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgacccgcactcggacgAggacacgccgacgtcggacg	9	2	13	17	9	0	0	0	0	0	0	2	6	0	3	3	3	0	1	3	3	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:105472909A>T	uc010ywg.1	+	1	941	c.941A>T	c.(940-942)GAG>GTG	p.E314V		NM_006236	NP_006227	P20264	PO3F3_HUMAN	POU class 3 homeobox 3	314	POU-specific.				metanephric ascending thin limb development|metanephric DCT cell differentiation|metanephric macula densa development|metanephric thick ascending limb development|negative regulation of apoptosis|positive regulation of cell proliferation	nucleus	sequence-specific DNA binding			ovary(1)	1						CACTCGGACGAGGACACGCCG	0.637													5	16					0	0	0.000602	0	0		T	105472909	T	T	105472909	3	4	130	1	0	0	0	0	1	0	0	0	12295	304	11	5	943	5	POU3F3	2	105472909	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	2191278	105472909	137726464	73	71719											
MARCO	8685	broad.mit.edu	37	chr2	119735455	119735455	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaggcgatgggggtctcaTtggcccaaaaggggaaactg	12	6	15	8	1	1	0	1	0	1	0	2	2	1	1	1	6	1	0	1	6	4	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:119735455T>A	uc002tln.1	+	8	842	c.710T>A	c.(709-711)ATT>AAT	p.I237N	MARCO_uc010yyf.1_Missense_Mutation_p.I159N	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	237	Collagen-like.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						GGGGGTCTCATTGGCCCAAAA	0.592													7	18					0	0	0.00308	0	0		A	119735455	A	A	119735455	3	1	130	1	0	0	0	0	1	0	0	0	9329	1493	52	5	740	5	MARCO	2	119735455	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	14262546	119735455	123463918	74	71720											
TMEM177	80775	broad.mit.edu	37	chr2	120439105	120439105	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggattctctcactcatGccgtggagtcctggctggac	6	10	11	14	1	3	0	2	0	1	0	5	3	4	3	3	4	1	1	3	4	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:120439105G>T	uc010flg.1	+	2	1149	c.676G>T	c.(676-678)GCC>TCC	p.A226S	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Missense_Mutation_p.A226S|TMEM177_uc002tmd.2_Missense_Mutation_p.A226S|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	226						integral to membrane				ovary(1)	1	Colorectal(110;0.196)					TCTCACTCATGCCGTGGAGTC	0.612													19	57					1.96292e-10	2.20027e-10	0.010504	1	0		T	120439105	T	T	120439105	3	4	130	1	0	0	0	0	1	0	0	0	16119	1319	46	5	678	5	TMEM177	2	120439105	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	703650	120439105	122760268	75	71721											
GLI2	2736	broad.mit.edu	37	chr2	121736059	121736059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagaaggagtttgtgtgccGctggcaggcctgcacgcggg	7	7	18	9	3	0	1	0	0	0	1	0	3	0	2	2	4	2	4	2	4	2	1	rs150170739		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:121736059G>A	uc010flp.2	+	9	1448	c.1418G>A	c.(1417-1419)CGC>CAC	p.R473H	GLI2_uc002tmq.1_Missense_Mutation_p.R145H|GLI2_uc002tmr.1_Missense_Mutation_p.R128H|GLI2_uc002tmt.3_Missense_Mutation_p.R145H|GLI2_uc002tmu.3_Missense_Mutation_p.R128H|GLI2_uc002tmw.1_Missense_Mutation_p.R456H	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	473					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				TTTGTGTGCCGCTGGCAGGCC	0.632													58	143					0	0	0.01441	0	0		A	121736059	A	A	121736059	3	1	130	1	0	0	0	0	1	0	0	0	6453	1087	38	1	1452	1	GLI2	2	121736059	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1296954	121736059	121463314	76	71722											
GLI2	2736	broad.mit.edu	37	chr2	121747917	121747917	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtcccagccaccacagcCacaggcctgtcaggacagca	10	3	11	17	1	1	0	1	0	0	0	2	1	2	1	5	3	3	1	5	3	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:121747917C>G	uc010flp.2	+	13	4457	c.4427C>G	c.(4426-4428)CCA>CGA	p.P1476R	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Missense_Mutation_p.P1148R|GLI2_uc002tmu.3_Missense_Mutation_p.P1131R	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	1476					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				CCACCACAGCCACAGGCCTGT	0.637													5	96					0	0	0.001168	0	0		G	121747917	G	G	121747917	3	3	130	1	0	0	0	0	1	0	0	0	6453	594	21	5	4477	5	GLI2	2	121747917	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	11858	121747917	121451456	77	71723											
MYO7B	4648	broad.mit.edu	37	chr2	128351207	128351207	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaaagcggggaagacaaaAattttcctgagggtgagacc	14	7	14	6	1	0	3	0	2	0	2	1	6	1	5	2	4	1	0	2	4	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:128351207A>T	uc002top.2	+	18	2285	c.2232A>T	c.(2230-2232)AAA>AAT	p.K744N		NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	744						apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GGAAGACAAAAATTTTCCTGA	0.597													34	87					0	0	0.004289	0	0		T	128351207	T	T	128351207	3	4	130	1	0	0	0	0	1	0	0	0	10101	11	1	5	2298	5	MYO7B	2	128351207	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	6603290	128351207	114848166	78	71724											
SMPD4	55627	broad.mit.edu	37	chr2	130918787	130918787	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgtggagggcctggaggctgGgttgggcggggctgtagagg	4	7	24	6	2	0	1	0	0	0	1	0	3	0	3	1	9	0	4	1	9	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:130918787G>C	uc002tqq.1	-	11	1560	c.1040C>G	c.(1039-1041)CCC>CGC	p.P347R	SMPD4_uc002tqp.1_Missense_Mutation_p.P40R|SMPD4_uc010yzy.1_Intron|SMPD4_uc010yzz.1_Intron|SMPD4_uc002tqr.1_Intron|SMPD4_uc002tqs.1_Missense_Mutation_p.P215R|SMPD4_uc002tqt.1_Intron|SMPD4_uc010zaa.1_Intron|SMPD4_uc010zab.1_Intron|SMPD4_uc010zac.1_Missense_Mutation_p.P61A|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	308					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	CTGGAGGCTGGGTTGGGCGGG	0.562													12	75					0	0	0.004007	0	0		C	130918787	C	C	130918787	3	2	130	1	0	0	0	0	1	0	0	0	14832	1232	43	5	1600	5	SMPD4	2	130918787	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2567580	130918787	112280586	79	71725											
THSD7B	80731	broad.mit.edu	37	chr2	137814637	137814637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaaagaaattaatccaagcGgaagaactgttctggatttt	15	13	8	5	1	1	2	0	0	1	2	2	4	2	4	1	2	2	1	1	2	7	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:137814637G>A	uc002tva.1	+	2	694	c.694G>A	c.(694-696)GGA>AGA	p.G232R	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Missense_Mutation_p.G122R	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TAATCCAAGCGGAAGAACTGT	0.393													49	122					0	0	0.01441	0	0		A	137814637	A	A	137814637	3	1	130	1	0	0	0	0	1	0	0	0	15905	1117	39	1	700	1	THSD7B	2	137814637	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	6895850	137814637	105384736	80	71726											
PRPF40A	55660	broad.mit.edu	37	chr2	153526775	153526775	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcatcttctgcaaaagttgGattatccatcagatactgct	11	14	6	10	0	4	1	2	0	2	1	5	2	5	2	1	1	3	3	1	1	4	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:153526775G>T	uc002tyh.3	-	15	1622	c.1600C>A	c.(1600-1602)CCA>ACA	p.P534T	PRPF40A_uc002tyg.3_5'Flank|PRPF40A_uc010zcd.1_Missense_Mutation_p.P481T	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	561	FF 3.				mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						GCAAAAGTTGGATTATCCATC	0.368													5	64					1.23904e-05	1.29967e-05	0.000602	1	0		T	153526775	T	T	153526775	3	4	130	1	0	0	0	0	1	0	0	0	12593	1174	41	5	1240	5	PRPF40A	2	153526775	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	15712138	153526775	89672598	81	71727											
DPP4	1803	broad.mit.edu	37	chr2	162873627	162873627	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaaatacctttatcatTcacgctgctgtgtagagtat	12	14	8	7	1	2	2	2	1	0	2	2	3	2	2	1	0	2	4	1	0	6	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:162873627T>G	uc002ubz.2	-	17	2020	c.1459A>C	c.(1459-1461)AAT>CAT	p.N487H	DPP4_uc010fpb.2_Missense_Mutation_p.N163H	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	487	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	CCTTTATCATTCACGCTGCTG	0.348													4	36					0	0	0.000602	0	0		G	162873627	G	G	162873627	3	3	130	1	0	0	0	0	1	0	0	0	4735	1783	62	5	881	5	DPP4	2	162873627	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	9346852	162873627	80325746	82	71728											
SCN3A	6328	broad.mit.edu	37	chr2	166012305	166012305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttcccagtagtcttgagtCatgagtcgaaatagagacag	12	12	10	7	1	2	3	1	2	1	1	4	5	3	3	1	0	0	1	1	0	3	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:166012305C>T	uc002ucx.2	-	10	1632	c.1140G>A	c.(1138-1140)ATG>ATA	p.M380I	SCN3A_uc002ucy.2_Missense_Mutation_p.M380I|SCN3A_uc002ucz.2_Missense_Mutation_p.M380I|SCN3A_uc002uda.1_Missense_Mutation_p.M249I|SCN3A_uc002udb.1_Missense_Mutation_p.M249I	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	380						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	AGTCTTGAGTCATGAGTCGAA	0.393													10	96					0	0	0.008291	0	0		T	166012305	T	T	166012305	3	4	130	1	0	0	0	0	1	0	0	0	13943	826	29	4	4938	4	SCN3A	2	166012305	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3138678	166012305	77187068	83	71729											
SCN1A	6323	broad.mit.edu	37	chr2	166848165	166848165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccactctctcctagaacccGctttgtaaaagcaaataaga	14	10	5	12	1	1	2	0	0	1	2	4	2	3	2	3	0	2	3	3	0	6	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:166848165G>A	uc010zcz.1	-	26	5605	c.5587C>T	c.(5587-5589)CGG>TGG	p.R1863W		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1874						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CCTAGAACCCGCTTTGTAAAA	0.473													39	105					0	0	0.004878	0	0		A	166848165	A	A	166848165	3	1	130	1	0	0	0	0	1	0	0	0	13939	1086	38	1	413	1	SCN1A	2	166848165	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	835860	166848165	76351208	84	71730											
KBTBD10	10324	broad.mit.edu	37	chr2	170366566	170366566	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatcatcaaatacctgtactCtgccagtattgatctcaatg	13	13	5	10	0	4	1	3	1	2	0	5	1	4	1	2	0	3	2	2	0	6	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:170366566C>G	uc002ueu.1	+	1	355	c.278C>G	c.(277-279)TCT>TGT	p.S93C	KBTBD10_uc010zdh.1_Intron	NM_006063	NP_006054	O60662	KBTBA_HUMAN	kelch repeat and BTB (POZ) domain containing 10	93	BTB.				striated muscle contraction	centrosome|nucleolus|plasma membrane|pseudopodium|ruffle					0						TACCTGTACTCTGCCAGTATT	0.393													61	115					0	0	0.01441	0	0		G	170366566	G	G	170366566	3	3	130	1	0	0	0	0	1	0	0	0	8006	913	32	5	280	5	KBTBD10	2	170366566	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3518401	170366566	72832807	85	71731											
UBR3	130507	broad.mit.edu	37	chr2	170863659	170863659	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagcatacaagatctcataAaggaagtggaggagctgcag	17	6	12	6	0	1	1	1	0	1	1	2	4	1	4	0	3	4	3	0	3	6	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:170863659A>T	uc010zdi.1	+	28	4189	c.4189A>T	c.(4189-4191)AAG>TAG	p.K1397*	UBR3_uc002ufr.3_RNA|UBR3_uc010fqa.2_Nonsense_Mutation_p.K218*|UBR3_uc002uft.3_Nonsense_Mutation_p.K250*|UBR3_uc010zdj.1_Nonsense_Mutation_p.K59*	NM_172070	NP_742067	Q6ZT12	UBR3_HUMAN	E3 ubiquitin-protein ligase UBR3	1397					sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0						AGATCTCATAAAGGAAGTGGA	0.448													5	22					0	0	0.000602	0	0		T	170863659	T	T	170863659	4	4	130	1	0	0	0	0	0	1	0	0	16929	15	1	5	4299	5	UBR3	2	170863659	Nonsense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	497093	170863659	72335714	86	71732											
CYBRD1	79901	broad.mit.edu	37	chr2	172398199	172398199	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccattcttgcaattatcTctgtggtggccgtgtttgag	5	16	11	9	1	2	1	0	1	2	0	3	1	2	1	2	2	2	2	2	2	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:172398199T>A	uc002ugy.3	+	2	488	c.298T>A	c.(298-300)TCT>ACT	p.S100T	CYBRD1_uc002ugz.3_Intron	NM_024843	NP_079119	Q53TN4	CYBR1_HUMAN	cytochrome b reductase 1 isoform 1	100	Cytochrome b561.|Helical; Name=3; (Potential).				cellular iron ion homeostasis|electron transport chain|transmembrane transport	integral to membrane	ferric-chelate reductase activity|metal ion binding				0						TGCAATTATCTCTGTGGTGGC	0.453													20	119					0	0	0.008871	0	0		A	172398199	A	A	172398199	3	1	130	1	0	0	0	0	1	0	0	0	4137	1551	54	5	304	5	CYBRD1	2	172398199	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1534540	172398199	70801174	87	71733											
TTN	7273	broad.mit.edu	37	chr2	179414985	179414985	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtattcagggccaaacTctactattggtggaactata	14	11	8	8	0	2	0	1	0	1	0	2	1	2	1	1	3	3	1	1	3	8	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:179414985T>C	uc010zfg.1	-	286	84100	c.83876A>G	c.(83875-83877)GAG>GGG	p.E27959G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E21654G|TTN_uc010zfi.1_Missense_Mutation_p.E21587G|TTN_uc010zfj.1_Missense_Mutation_p.E21462G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28886							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGGGCCAAACTCTACTATTGG	0.353													22	95					0	0	0.012319	0	0		C	179414985	C	C	179414985	3	2	130	1	0	0	0	0	1	0	0	0	16761	1551	54	3	16503	3	TTN	2	179414985	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	7016786	179414985	63784388	88	71734											
TTN	7273	broad.mit.edu	37	chr2	179569607	179569607	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacataattctttttacctcTgtctgtgacagtctttgctg	8	18	6	9	0	4	1	0	1	4	0	4	1	4	1	1	0	3	1	1	0	3	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:179569607T>A	uc010zfg.1	-	101	26183	c.25959A>T	c.(25957-25959)ACA>ACT	p.T8653T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.T5314T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9580							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTTTACCTCTGTCTGTGACA	0.313													75	146					0	0	0.01441	0	0		A	179569607	A	A	179569607	2	1	130	1	0	0	0	0	0	0	0	1	16761	1567	55	5		5	TTN	2	179569607	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	154622	179569607	63629766	89	71735											
TTN	7273	broad.mit.edu	37	chr2	179594203	179594203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagccaagtgacttcaaacGgaggtgttcccgtaacttca	11	10	9	11	2	3	1	3	1	0	0	4	2	4	2	2	2	3	2	2	2	3	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:179594203G>A	uc010zfg.1	-	61	15172	c.14948C>T	c.(14947-14949)CCG>CTG	p.P4983L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P1644L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5910							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GACTTCAAACGGAGGTGTTCC	0.443													25	124					0	0	0.004656	0	0		A	179594203	A	A	179594203	3	1	130	1	0	0	0	0	1	0	0	0	16761	1116	39	1	86045	1	TTN	2	179594203	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	24596	179594203	63605170	90	71736											
PPP1R1C	151242	broad.mit.edu	37	chr2	182850902	182850902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attccagagtcagattgcacCtgaagcagcagagcaggtat	13	8	11	9	0	1	4	1	1	0	3	2	4	2	4	2	1	4	5	2	1	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:182850902C>T	uc002uoo.2	+	1	352	c.65C>T	c.(64-66)CCT>CTT	p.P22L	PPP1R1C_uc002uon.2_Intron|PPP1R1C_uc002uop.1_Missense_Mutation_p.P22L|PPP1R1C_uc010frm.1_Missense_Mutation_p.P22L|PPP1R1C_uc010frn.1_RNA	NM_001080545	NP_001074014	Q8WVI7	PPR1C_HUMAN	protein phosphatase 1, regulatory (inhibitor)	22					signal transduction	cytoplasm	protein phosphatase inhibitor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0628)			CAGATTGCACCTGAAGCAGCA	0.408													16	150					0	0	0.00499	0	0		T	182850902	T	T	182850902	3	4	130	1	0	0	0	0	1	0	0	0	12391	681	24	4	67	4	PPP1R1C	2	182850902	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3256699	182850902	60348471	91	71737											
DNAJC10	54431	broad.mit.edu	37	chr2	183623585	183623585	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agttacaatggttggaatagGgatgcttattccctgagaat	12	13	11	5	0	0	1	0	1	0	1	1	4	1	3	1	3	2	3	1	3	6	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:183623585G>A	uc002uow.1	+	20	2380	c.1965G>A	c.(1963-1965)AGG>AGA	p.R655R	DNAJC10_uc002uox.1_RNA|DNAJC10_uc002uoy.1_RNA|DNAJC10_uc002uoz.1_Silent_p.R609R|DNAJC10_uc010fro.1_RNA	NM_018981	NP_061854	Q8IXB1	DJC10_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 10	655	Thioredoxin 3.				apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|ER-associated protein catabolic process|glycerol ether metabolic process|negative regulation of protein phosphorylation|protein folding|response to endoplasmic reticulum stress	endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|extracellular region	ATPase activator activity|ATPase binding|chaperone binding|electron carrier activity|heat shock protein binding|misfolded protein binding|protein disulfide oxidoreductase activity|unfolded protein binding			ovary(1)|large_intestine(1)|breast(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			GTTGGAATAGGGATGCTTATT	0.318													24	91					0	0	0.005443	0	0		A	183623585	A	A	183623585	2	1	130	1	0	0	0	0	0	0	0	1	4635	1223	43	4		4	DNAJC10	2	183623585	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	772683	183623585	59575788	92	71738											
TFPI	7035	broad.mit.edu	37	chr2	188332507	188332507	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatgccctcagacattcttGtttggaagtaaaattgtttt	11	16	7	7	0	2	1	1	0	1	1	2	2	2	2	1	1	1	3	1	1	3	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:188332507G>C	uc002upx.2	-	7	814	c.781C>G	c.(781-783)CAA>GAA	p.Q261E	TFPI_uc002upy.2_Missense_Mutation_p.Q261E|TFPI_uc002upz.2_Missense_Mutation_p.Q257E	NM_006287	NP_006278	P10646	TFPI1_HUMAN	tissue factor pathway inhibitor isoform a	261	BPTI/Kunitz inhibitor 3.				blood coagulation, extrinsic pathway	extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0554)		Coagulation factor VIIa(DB00036)	AGACATTCTTGTTTGGAAGTA	0.343													9	118					0	0	0.010729	0	0		C	188332507	C	C	188332507	3	2	130	1	0	0	0	0	1	0	0	0	15833	1386	48	5	141	5	TFPI	2	188332507	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	4708922	188332507	54866866	93	71739											
DNAH7	56171	broad.mit.edu	37	chr2	196750979	196750979	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccggaccaagtttgtatcGgaagtaggagataattcctg	12	10	12	7	2	0	1	0	0	0	1	2	5	1	3	3	3	0	3	3	3	5	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:196750979G>T	uc002utj.3	-	34	5525	c.5424C>A	c.(5422-5424)TCC>TCA	p.S1808S		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1808					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AGTTTGTATCGGAAGTAGGAG	0.323													23	40					0.00047179	0.000488894	0.00333	1	0		T	196750979	T	T	196750979	2	4	130	1	0	0	0	0	0	0	0	1	4612	1103	39	5		5	DNAH7	2	196750979	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	8418472	196750979	46448394	94	71740											
CPO	130749	broad.mit.edu	37	chr2	207820236	207820236	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtacaaggaagtggtgaCacagcatttcctaggagtga	14	8	13	6	0	0	2	0	2	0	0	1	5	1	4	1	3	2	2	1	3	5	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:207820236C>A	uc002vby.2	+	3	261	c.215C>A	c.(214-216)ACA>AAA	p.T72K		NM_173077	NP_775100	Q8IVL8	CBPO_HUMAN	carboxypeptidase O precursor	72					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				LUSC - Lung squamous cell carcinoma(261;0.0744)|Epithelial(149;0.0807)|Lung(261;0.142)		GAAGTGGTGACACAGCATTTC	0.458													20	88					2.98393e-07	3.20843e-07	0.00278	1	0		A	207820236	A	A	207820236	3	1	130	1	0	0	0	0	1	0	0	0	3823	478	17	5	225	5	CPO	2	207820236	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	11069257	207820236	35379137	95	71741											
VWC2L	402117	broad.mit.edu	37	chr2	215279274	215279274	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaacttctgtgaatatcaCgggaaaaattacaaaatctt	19	11	5	6	1	3	1	1	1	2	0	3	2	3	2	0	1	2	0	0	1	9	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:215279274C>T	uc002vet.2	+	2	487	c.357C>T	c.(355-357)CAC>CAT	p.H119H	VWC2L_uc010zjl.1_Silent_p.H119H	NM_001080500	NP_001073969	B2RUY7	VWC2L_HUMAN	von Willebrand factor C domain-containing	119	VWFC 2.					extracellular region					0						GTGAATATCACGGGAAAAATT	0.368													7	25					0	0	0.004482	0	0		T	215279274	T	T	215279274	2	4	130	1	0	0	0	0	0	0	0	1	17270	535	19	1		1	VWC2L	2	215279274	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	7459038	215279274	27920099	96	71742											
ABCA12	26154	broad.mit.edu	37	chr2	215821416	215821416	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtaggagagatacagcGcctaggttgttttcactgta	12	11	12	6	1	1	2	1	0	0	2	1	4	1	3	1	2	2	4	1	2	5	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:215821416G>A	uc002vew.2	-	42	6424	c.6204C>T	c.(6202-6204)GGC>GGT	p.G2068G	ABCA12_uc002vev.2_Silent_p.G1750G|ABCA12_uc010zjn.1_Silent_p.G995G	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	2068					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GAGATACAGCGCCTAGGTTGT	0.373													17	82					0	0	0.007413	0	0		A	215821416	A	A	215821416	2	1	130	1	0	0	0	0	0	0	0	1	30	1074	38	1		1	ABCA12	2	215821416	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	542142	215821416	27377957	97	71743											
ABCA12	26154	broad.mit.edu	37	chr2	215839501	215839501	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagagcaagaaccacttaCagatcactggtgttcagaca	16	7	9	9	0	2	5	2	0	0	5	2	5	2	5	1	1	3	2	1	1	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:215839501C>A	uc002vew.2	-	35	5688	c.5468_splice	c.e35+1	p.L1823_splice	ABCA12_uc002vev.2_Splice_Site_p.L1505_splice|ABCA12_uc010zjn.1_Splice_Site_p.L750_splice	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12						cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GAACCACTTACAGATCACTGG	0.333													30	110					4.3181e-19	5.00374e-19	0.013726	1	0		A	215839501	A	A	215839501	5	1	130	1	0	0	0	0	0	0	1	0	30	492	17	5	2394	5	ABCA12	2	215839501	Splice_Site	SNP	C	TCGA-CG-4437-01A-01D-1800-08	18085	215839501	27359872	98	71744											
FN1	2335	broad.mit.edu	37	chr2	216243985	216243985	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgggtggtgtccactgggcGctcaggcttgtgggtgtgac	3	12	18	8	1	1	1	1	1	0	0	2	1	2	1	1	5	0	2	1	5	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:216243985G>A	uc002vfa.2	-	34	5756	c.5490C>T	c.(5488-5490)AGC>AGT	p.S1830S	FN1_uc002vfb.2_Silent_p.S1649S|FN1_uc002vfc.2_Silent_p.S1649S|FN1_uc002vfd.2_Silent_p.S1830S|FN1_uc002vfe.2_Silent_p.S1739S|FN1_uc002vff.2_Silent_p.S1739S|FN1_uc002vfg.2_Silent_p.S1649S|FN1_uc002vfh.2_Silent_p.S1649S|FN1_uc002vfi.2_Silent_p.S1830S|FN1_uc002vfj.2_Silent_p.S1740S|FN1_uc002vez.2_Silent_p.S24S|FN1_uc010zjp.1_Silent_p.S367S|FN1_uc002vfk.1_5'Flank|FN1_uc010fva.1_5'Flank|FN1_uc010fvb.1_5'Flank|FN1_uc010fvc.1_Silent_p.S192S|FN1_uc010fvd.1_Intron	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCCACTGGGCGCTCAGGCTTG	0.512													27	76					0	0	0.00632	0	0		A	216243985	A	A	216243985	2	1	130	1	0	0	0	0	0	0	0	1	5976	1078	38	1		1	FN1	2	216243985	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	404484	216243985	26955388	99	71745											
SPEG	10290	broad.mit.edu	37	chr2	220357372	220357372	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggttgcaggacgcctaccTgatgaagctgcgccgccaga	9	7	13	12	3	0	3	0	2	0	1	0	4	0	4	4	2	4	3	4	2	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:220357372T>A	uc010fwg.2	+	41	9668	c.9668T>A	c.(9667-9669)CTG>CAG	p.L3223Q		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	3223					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GACGCCTACCTGATGAAGCTG	0.682													20	92					0	0	0.008871	0	0		A	220357372	A	A	220357372	3	1	130	1	0	0	0	0	1	0	0	0	15061	1580	55	5	9842	5	SPEG	2	220357372	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	4113387	220357372	22842001	100	71746											
CCDC140	151278	broad.mit.edu	37	chr2	223168875	223168875	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagcgcggacctgggacTgcagagaggcgttttgaaga	9	6	19	7	3	0	3	0	1	0	2	0	7	0	6	1	5	2	2	1	5	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:223168875T>A	uc002vnb.1	+	2	638	c.254T>A	c.(253-255)CTG>CAG	p.L85Q		NM_153038	NP_694583	Q96MF4	CC140_HUMAN	coiled-coil domain containing 140	85											0		Renal(207;0.0376)		Epithelial(121;4.03e-10)|all cancers(144;1.8e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GACCTGGGACTGCAGAGAGGC	0.632													13	25					0	0	0.001855	0	0		A	223168875	A	A	223168875	3	1	130	1	0	0	0	0	1	0	0	0	2777	1580	55	5	256	5	CCDC140	2	223168875	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	2811503	223168875	20030498	101	71747											
KIAA1486	57624	broad.mit.edu	37	chr2	226447157	226447157	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgctggtatttccccccGcccccgtgcattgctccccc	2	10	8	21	3	0	0	0	0	0	0	2	0	2	0	7	1	3	5	7	1	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:226447157G>A	uc002voe.2	+	4	1199	c.1024G>A	c.(1024-1026)GCC>ACC	p.A342T	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.A112T	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	342	Pro-rich.									ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		ATTTCCCCCCGCCCCCGTGCA	0.632													4	18					0	0	0.009096	0	0		A	226447157	A	A	226447157	3	1	130	1	0	0	0	0	1	0	0	0	8253	1087	38	1	1034	1	KIAA1486	2	226447157	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3278282	226447157	16752216	102	71748											
SLC19A3	80704	broad.mit.edu	37	chr2	228563524	228563524	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggcgccttgtaatcccAcaggatttgaacatagttca	11	11	10	9	1	1	1	1	1	0	0	2	3	2	3	2	3	1	2	2	3	3	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:228563524A>G	uc002vpi.2	-	3	996	c.907T>C	c.(907-909)TGG>CGG	p.W303R	SLC19A3_uc002vpj.2_RNA|SLC19A3_uc010zlv.1_Missense_Mutation_p.W299R	NM_025243	NP_079519	Q9BZV2	S19A3_HUMAN	solute carrier family 19, member 3	303	Helical; (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)	TTGTAATCCCACAGGATTTGA	0.443													20	86					0	0	0.010504	0	0		G	228563524	G	G	228563524	3	3	130	1	0	0	0	0	1	0	0	0	14455	159	6	3	599	3	SLC19A3	2	228563524	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	2116367	228563524	14635849	103	71749											
DNER	92737	broad.mit.edu	37	chr2	230231600	230231600	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acagccaacctggcatgccgGatggatgcaatggcattgct	10	8	12	11	1	0	0	0	0	0	0	0	2	0	2	3	4	5	4	3	4	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:230231600G>A	uc002vpv.2	-	12	2238	c.2091C>T	c.(2089-2091)ATC>ATT	p.I697I		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	697	Cytoplasmic (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		TGGCATGCCGGATGGATGCAA	0.542													19	78					0	0	0.010504	0	0		A	230231600	A	A	230231600	2	1	130	1	0	0	0	0	0	0	0	1	4673	1164	41	4		4	DNER	2	230231600	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1668076	230231600	12967773	104	71750											
ARMC9	80210	broad.mit.edu	37	chr2	232135733	232135733	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcactccacgagcgacgtGgtgcggcagtacatggccag	8	6	14	13	4	0	0	0	0	0	0	1	2	1	0	2	3	4	3	2	3	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:232135733G>C	uc002vrq.3	+	13	1270	c.1158G>C	c.(1156-1158)GTG>GTC	p.V386V	ARMC9_uc002vrp.3_Silent_p.V386V|ARMC9_uc002vrr.1_RNA	NM_025139	NP_079415	Q7Z3E5	ARMC9_HUMAN	armadillo repeat containing 9	386							binding			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0744)|all_hematologic(139;0.0749)|Acute lymphoblastic leukemia(138;0.167)|Medulloblastoma(418;0.184)|Lung NSC(271;0.205)		Epithelial(121;1.43e-10)|LUSC - Lung squamous cell carcinoma(224;0.017)|Lung(119;0.0189)		CGAGCGACGTGGTGCGGCAGT	0.498													14	35					0	0	0.00245	0	0		C	232135733	C	C	232135733	2	2	130	1	0	0	0	0	0	0	0	1	959	1335	47	5		5	ARMC9	2	232135733	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1904133	232135733	11063640	105	71751											
EFHD1	80303	broad.mit.edu	37	chr2	233527521	233527521	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccctgcaggtatgacgcTgggcgggatggcttcatcga	7	9	15	10	3	1	2	1	2	0	0	2	4	1	3	1	4	1	4	1	4	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:233527521T>C	uc002vtc.2	+	2	520	c.312T>C	c.(310-312)GCT>GCC	p.A104A	EFHD1_uc010fyf.2_Silent_p.A8A|EFHD1_uc002vtd.2_5'UTR	NM_025202	NP_079478	Q9BUP0	EFHD1_HUMAN	EF-hand domain family, member D1	104	1 (Potential).|EF-hand 1.						calcium ion binding|protein binding				0		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Breast(86;0.0199)|Renal(207;0.025)		Epithelial(121;2.08e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00825)|Lung(119;0.0101)		GGTATGACGCTGGGCGGGATG	0.532													10	53					0	0	0.010729	0	0		C	233527521	C	C	233527521	2	2	130	1	0	0	0	0	0	0	0	1	4954	1567	55	3		3	EFHD1	2	233527521	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1391788	233527521	9671852	106	71752											
ANO7	50636	broad.mit.edu	37	chr2	242157201	242157201	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatccgcttggacgcgcgCaagttcgtctgcgagtaccg	7	8	14	12	7	1	1	0	0	1	1	3	4	2	2	2	1	2	4	2	1	2	3	rs138830051		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr2:242157201C>A	uc002wax.2	+	20	2338	c.2235C>A	c.(2233-2235)CGC>CGA	p.R745R		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	745	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						TGGACGCGCGCAAGTTCGTCT	0.672													6	16					0.00116845	0.00120173	0.001168	1	0		A	242157201	A	A	242157201	2	1	130	1	0	0	0	0	0	0	0	1	702	697	25	5		5	ANO7	2	242157201	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	8629680	242157201	1042172	107	71753											
CNTN4	152330	broad.mit.edu	37	chr3	2924862	2924862	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgagcccaaaatagaagTgcagttcccagaaacagttc	16	8	8	9	0	0	3	0	1	0	2	2	3	1	3	2	0	3	3	2	0	6	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:2924862T>A	uc003bpc.2	+	8	907	c.686T>A	c.(685-687)GTG>GAG	p.V229E	CNTN4_uc003bpb.1_Intron|CNTN4_uc003bpd.1_Missense_Mutation_p.V229E	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	229	Ig-like C2-type 3.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		AAAATAGAAGTGCAGTTCCCA	0.393													4	25					0	0	0.009096	0	0		A	2924862	A	A	2924862	3	1	130	1	0	0	0	0	1	0	0	0	3646	1696	59	5	708	5	CNTN4	3	2924862	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08		2924862	195097568	108	71754											
HRH1	3269	broad.mit.edu	37	chr3	11301940	11301940	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtatgtatctgggttgcAcatgaaccgcgaaaggaagg	13	8	13	7	2	1	1	0	1	1	0	1	3	1	2	1	3	2	4	1	3	5	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:11301940A>T	uc010hdr.2	+	2	1559	c.1217A>T	c.(1216-1218)CAC>CTC	p.H406L	HRH1_uc010hds.2_Missense_Mutation_p.H406L|HRH1_uc010hdt.2_Missense_Mutation_p.H406L|HRH1_uc003bwb.3_Missense_Mutation_p.H406L	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1	406	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	TCTGGGTTGCACATGAACCGC	0.478													20	116					0	0	0.010504	0	0		T	11301940	T	T	11301940	3	4	130	1	0	0	0	0	1	0	0	0	7371	159	6	5	1219	5	HRH1	3	11301940	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	8377078	11301940	186720490	109	71755											
IQSEC1	9922	broad.mit.edu	37	chr3	12977448	12977448	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgctccacccgcagccgCtgctcctgccgctccagcga	6	6	10	19	4	0	1	0	0	0	1	3	2	3	1	6	0	5	5	6	0	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:12977448C>T	uc003bxt.2	-	3	1119	c.1110G>A	c.(1108-1110)CAG>CAA	p.Q370Q	IQSEC1_uc003bxu.3_Silent_p.Q248Q|IQSEC1_uc011auw.1_Silent_p.Q356Q	NM_014869	NP_055684	Q6DN90	IQEC1_HUMAN	IQ motif and Sec7 domain 1 isoform b	370					regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1						CCCGCAGCCGCTGCTCCTGCC	0.687													7	25					0	0	0.004482	0	0		T	12977448	T	T	12977448	2	4	130	1	0	0	0	0	0	0	0	1	7833	796	28	2		2	IQSEC1	3	12977448	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1675508	12977448	185044982	110	71756											
RBMS3	27303	broad.mit.edu	37	chr3	29323137	29323137	+	Translation_Start_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggggcactataccctgtcatCcagttccctgcctcggagat	7	10	10	14	1	1	1	1	0	0	1	4	2	3	1	4	3	2	2	4	3	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:29323137C>G	uc003cel.2	+	1	195	c.-35C>G	c.(-37--33)ATCCA>ATGCA		RBMS3_uc003cek.2_Translation_Start_Site|RBMS3_uc010hfq.2_Translation_Start_Site|RBMS3_uc003cem.2_Translation_Start_Site|RBMS3_uc010hfr.2_Translation_Start_Site	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting							cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				ACCCTGTCATCCAGTTCCCTG	0.512													14	26					0	0	0.001855	0	0		G	29323137	G	G	29323137	1	3	130	1	0	0	0	0	0	0	0	0	13175	870	30	5		5	RBMS3	3	29323137	Translation_Start_Site	SNP	C	TCGA-CG-4437-01A-01D-1800-08	16345689	29323137	168699293	111	71757											
CNOT10	25904	broad.mit.edu	37	chr3	32804301	32804301	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgccattactcacttgaacCcggagaatgtcactgatgtc	11	11	8	11	1	2	3	2	2	0	1	3	4	2	3	2	1	3	0	2	1	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:32804301C>G	uc003cfc.1	+	15	2041	c.1786C>G	c.(1786-1788)CCG>GCG	p.P596A	CNOT10_uc011axi.1_Missense_Mutation_p.P368A|CNOT10_uc003cfd.1_Missense_Mutation_p.P595A|CNOT10_uc003cfe.1_Missense_Mutation_p.P569A|CNOT10_uc010hfv.1_RNA|CNOT10_uc011axj.1_Missense_Mutation_p.P656A|CNOT10_uc010hfw.1_Missense_Mutation_p.P291A	NM_015442	NP_056257	Q9H9A5	CNOTA_HUMAN	CCR4-NOT transcription complex, subunit 10	596					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	protein binding			central_nervous_system(1)|skin(1)	2						TCACTTGAACCCGGAGAATGT	0.413													19	33					0	0	0.007413	0	0		G	32804301	G	G	32804301	3	3	130	1	0	0	0	0	1	0	0	0	3621	623	22	5	1844	5	CNOT10	3	32804301	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3481164	32804301	165218129	112	71758											
ZNF445	353274	broad.mit.edu	37	chr3	44496716	44496716	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcacccaaacccggagctccCcaggcaggatgctcaggaac	11	3	11	16	1	1	0	1	0	0	0	2	3	2	3	4	4	4	4	4	4	2	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:44496716C>G	uc003cnf.2	-	3	674	c.326G>C	c.(325-327)GGG>GCG	p.G109A	ZNF445_uc011azv.1_Missense_Mutation_p.G109A|ZNF445_uc011azw.1_Missense_Mutation_p.G109A	NM_181489	NP_852466	P59923	ZN445_HUMAN	zinc finger protein 445	109	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		CCGGAGCTCCCCAGGCAGGAT	0.612													16	46					0	0	0.003163	0	0		G	44496716	G	G	44496716	3	3	130	1	0	0	0	0	1	0	0	0	17943	623	22	5	2793	5	ZNF445	3	44496716	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	11692415	44496716	153525714	113	71759											
GLYCTK	132158	broad.mit.edu	37	chr3	52325000	52325000	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgctgctgaagccacatagCcgtgtccaggtattcgaggg	9	9	13	10	2	0	1	0	1	0	0	2	2	1	1	3	2	4	3	3	2	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:52325000C>T	uc003ddo.2	+	3	498	c.402C>T	c.(400-402)AGC>AGT	p.S134S	GLYCTK_uc003ddq.2_Silent_p.S134S|GLYCTK_uc003ddm.2_RNA|GLYCTK_uc003ddn.2_RNA|GLYCTK_uc003ddp.1_Silent_p.S134S|GLYCTK_uc003ddr.2_5'Flank	NM_145262	NP_660305	Q8IVS8	GLCTK_HUMAN	glycerate kinase isoform 1	134					protein phosphorylation	Golgi apparatus|mitochondrion	ATP binding|glycerate kinase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;3.56e-05)|Kidney(197;0.00171)|KIRC - Kidney renal clear cell carcinoma(197;0.00194)|OV - Ovarian serous cystadenocarcinoma(275;0.235)		AGCCACATAGCCGTGTCCAGG	0.612													3	67					0	0	0.009096	0	0		T	52325000	T	T	52325000	2	4	130	1	0	0	0	0	0	0	0	1	6497	738	26	2		2	GLYCTK	3	52325000	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	7828284	52325000	145697430	114	71760											
HESX1	8820	broad.mit.edu	37	chr3	57233803	57233803	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcatacctgatgagctgcaGgtgtctgcccagggcctgtg	6	9	15	11	0	1	2	0	2	1	0	1	2	1	2	3	3	4	3	3	3	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:57233803G>A	uc003din.3	-	1	478	c.144C>T	c.(142-144)ACC>ACT	p.T48T		NM_003865	NP_003856	Q9UBX0	HESX1_HUMAN	HESX homeobox 1	48						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0109)|Kidney(284;0.0126)		ATGAGCTGCAGGTGTCTGCCC	0.403													29	43					0	0	0.012213	0	0		A	57233803	A	A	57233803	2	1	130	1	0	0	0	0	0	0	0	1	7088	987	35	4		4	HESX1	3	57233803	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	4908803	57233803	140788627	115	71761											
CADPS	8618	broad.mit.edu	37	chr3	62751640	62751640	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaccggtccttgactgtcTgcagctgctgtttgctgatc	6	13	11	11	1	1	2	0	2	1	0	3	3	2	2	2	1	5	5	2	1	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:62751640T>G	uc003dll.2	-	2	821	c.461A>C	c.(460-462)CAG>CCG	p.Q154P	CADPS_uc003dlm.2_Missense_Mutation_p.Q154P|CADPS_uc003dln.2_Missense_Mutation_p.Q154P	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	154					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		CTTGACTGTCTGCAGCTGCTG	0.463													14	106					0	0	0.004007	0	0		G	62751640	G	G	62751640	3	3	130	1	0	0	0	0	1	0	0	0	2573	1580	55	5	3789	5	CADPS	3	62751640	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	5517837	62751640	135270790	116	71762											
ROBO1	6091	broad.mit.edu	37	chr3	78795966	78795966	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgggctcaggatggcctCgtggaggttggcattccatt	5	12	16	8	1	1	0	1	0	0	0	3	2	2	2	2	7	0	3	2	7	0	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:78795966C>A	uc003dqe.2	-	5	792	c.584G>T	c.(583-585)CGA>CTA	p.R195L	ROBO1_uc003dqb.2_Missense_Mutation_p.R156L|ROBO1_uc003dqc.2_Missense_Mutation_p.R156L|ROBO1_uc003dqd.2_Missense_Mutation_p.R156L	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	195	Extracellular (Potential).|Ig-like C2-type 2.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		AGGATGGCCTCGTGGAGGTTG	0.453													28	79					1.42536e-11	1.60557e-11	0.004656	1	0		A	78795966	A	A	78795966	3	1	130	1	0	0	0	0	1	0	0	0	13538	884	31	5	4492	5	ROBO1	3	78795966	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	16044326	78795966	119226464	117	71763											
GABRR3	200959	broad.mit.edu	37	chr3	97711779	97711779	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaatgactgacaggaacaCaaagagggagctgacccaca	16	4	10	11	0	1	4	1	3	0	1	1	6	1	6	1	2	2	1	1	2	3	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:97711779C>G	uc011bgr.1	-	8	1021	c.1021G>C	c.(1021-1023)GTG>CTG	p.V341L		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	341	Helical; (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0						GACAGGAACACAAAGAGGGAG	0.522													54	151					0	0	0.01441	0	0		G	97711779	G	G	97711779	3	3	130	1	0	0	0	0	1	0	0	0	6192	478	17	5	389	5	GABRR3	3	97711779	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	18915813	97711779	100310651	118	71764											
LNP1	348801	broad.mit.edu	37	chr3	100148706	100148706	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgcaagccaccagtcacAggaaaacctccctgccctgc	11	5	8	17	0	1	0	1	0	0	0	2	2	2	1	5	1	5	1	5	1	3	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:100148706A>G	uc003dtx.3	+	2	1413	c.133A>G	c.(133-135)AGG>GGG	p.R45G	LNP1_uc003dty.3_RNA|LNP1_uc011bhb.1_RNA	NM_001085451	NP_001078920	A1A4G5	LNP1_HUMAN	leukemia NUP98 fusion partner 1	45											0						CACCAGTCACAGGAAAACCTC	0.547													18	174					0	0	0.006122	0	0		G	100148706	G	G	100148706	3	3	130	1	0	0	0	0	1	0	0	0	8880	179	7	3	135	3	LNP1	3	100148706	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	2436927	100148706	97873724	119	71765											
ABI3BP	25890	broad.mit.edu	37	chr3	100645191	100645191	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagcgggaagagggaagtActggtttggtgatacattgc	10	11	15	5	1	1	2	1	1	0	1	1	4	1	4	0	4	4	2	0	4	4	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:100645191A>C	uc003dun.2	-	2	320	c.235T>G	c.(235-237)TAC>GAC	p.Y79D	ABI3BP_uc003duo.2_Missense_Mutation_p.Y72D|ABI3BP_uc003dup.3_Missense_Mutation_p.Y72D	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	79						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						AGAGGGAAGTACTGGTTTGGT	0.493													7	85					0	0	0.001984	0	0		C	100645191	C	C	100645191	3	2	130	1	0	0	0	0	1	0	0	0	91	391	14	5	3128	5	ABI3BP	3	100645191	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	496485	100645191	97377239	120	71766											
PHLDB2	90102	broad.mit.edu	37	chr3	111693337	111693337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctattatatggtagccccatCgccagaagccatgcggatct	10	10	9	12	2	1	1	0	0	1	1	2	2	1	2	4	2	3	1	4	2	5	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:111693337C>T	uc010hqa.2	+	18	4100	c.3689C>T	c.(3688-3690)TCG>TTG	p.S1230L	PHLDB2_uc003dyc.2_Missense_Mutation_p.S1214L|PHLDB2_uc003dyd.2_Missense_Mutation_p.S1187L|PHLDB2_uc003dyg.2_Missense_Mutation_p.S1230L|PHLDB2_uc003dyh.2_Missense_Mutation_p.S1187L|PHLDB2_uc003dyi.2_Missense_Mutation_p.S721L|PHLDB2_uc003dyj.2_Missense_Mutation_p.S285L	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	1230	PH.					cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						GTAGCCCCATCGCCAGAAGCC	0.423													46	116					0	0	0.011902	0	0		T	111693337	T	T	111693337	3	4	130	1	0	0	0	0	1	0	0	0	11871	893	31	1	3840	1	PHLDB2	3	111693337	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	11048146	111693337	86329093	121	71767											
CCDC80	151887	broad.mit.edu	37	chr3	112349073	112349073	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccagatattcatcacgtTgttgcacatacatattgttc	10	17	5	9	1	2	1	2	0	0	1	4	1	3	1	1	0	2	4	1	0	3	9			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:112349073T>C	uc003dzf.2	-	3	2140	c.1922A>G	c.(1921-1923)CAA>CGA	p.Q641R	CCDC80_uc011bhv.1_Missense_Mutation_p.Q641R|CCDC80_uc003dzg.2_Missense_Mutation_p.Q641R|CCDC80_uc003dzh.1_Missense_Mutation_p.Q641R	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	641										ovary(2)	2						TTCATCACGTTGTTGCACATA	0.433													22	88					0	0	0.00278	0	0		C	112349073	C	C	112349073	3	2	130	1	0	0	0	0	1	0	0	0	2857	1812	63	3	954	3	CCDC80	3	112349073	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	655736	112349073	85673357	122	71768											
KIAA2018	205717	broad.mit.edu	37	chr3	113378877	113378877	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggctgaagaattataacaTtttgattagttggagctgaa	13	14	11	3	0	0	4	0	3	0	1	0	5	0	5	0	2	2	3	0	2	6	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:113378877T>A	uc003eam.2	-	7	2063	c.1652A>T	c.(1651-1653)AAT>ATT	p.N551I	KIAA2018_uc003eal.2_Missense_Mutation_p.N495I	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	551					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						AATTATAACATTTTGATTAGT	0.443													32	100					0	0	0.010818	0	0		A	113378877	A	A	113378877	3	1	130	1	0	0	0	0	1	0	0	0	8284	1493	52	5	5089	5	KIAA2018	3	113378877	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1029804	113378877	84643553	123	71769											
HGD	3081	broad.mit.edu	37	chr3	120365162	120365162	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggacaccatagacctccaAgatgtagcccctggtctcct	9	9	9	14	0	1	2	0	0	1	2	3	3	2	3	6	2	1	1	6	2	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:120365162A>C	uc003edw.2	-	9	971	c.601T>G	c.(601-603)TTG>GTG	p.L201V	HGD_uc003edv.2_Missense_Mutation_p.L60V	NM_000187	NP_000178	Q93099	HGD_HUMAN	homogentisate 1,2-dioxygenase	201					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	homogentisate 1,2-dioxygenase activity|metal ion binding				0				GBM - Glioblastoma multiforme(114;0.158)		TAGACCTCCAAGATGTAGCCC	0.478													24	112					0	0	0.003954	0	0		C	120365162	C	C	120365162	3	2	130	1	0	0	0	0	1	0	0	0	7100	69	3	5	760	5	HGD	3	120365162	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	6986285	120365162	77657268	124	71770											
STXBP5L	9515	broad.mit.edu	37	chr3	120976161	120976161	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctagtgaaggagtaacaaagGacagtattccatgcctcaag	15	8	10	8	0	1	1	1	1	0	0	2	3	2	3	2	2	2	2	2	2	6	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:120976161G>T	uc003eec.3	+	17	1953	c.1813G>T	c.(1813-1815)GAC>TAC	p.D605Y	STXBP5L_uc011bji.1_Missense_Mutation_p.D605Y	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	605	WD 9.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		AGTAACAAAGGACAGTATTCC	0.368													20	61					4.63292e-17	5.33253e-17	0.008871	1	0		T	120976161	T	T	120976161	3	4	130	1	0	0	0	0	1	0	0	0	15382	1174	41	5	1875	5	STXBP5L	3	120976161	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	610999	120976161	77046269	125	71771											
KALRN	8997	broad.mit.edu	37	chr3	124180761	124180761	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attatggctgaactactccaGacagagaaggcttatgtaag	14	10	10	7	0	0	3	0	1	0	2	1	4	1	3	1	2	2	3	1	2	6	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:124180761G>C	uc003ehg.2	+	24	4000	c.3873G>C	c.(3871-3873)CAG>CAC	p.Q1291H	KALRN_uc010hrv.1_Missense_Mutation_p.Q1282H|KALRN_uc003ehf.1_Missense_Mutation_p.Q1291H|KALRN_uc011bjy.1_Missense_Mutation_p.Q1282H|KALRN_uc003ehh.1_Missense_Mutation_p.Q637H	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1291	DH 1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						AACTACTCCAGACAGAGAAGG	0.413													24	68					0	0	0.00632	0	0		C	124180761	C	C	124180761	3	2	130	1	0	0	0	0	1	0	0	0	7991	933	33	5	3967	5	KALRN	3	124180761	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3204600	124180761	73841669	126	71772											
CNBP	7555	broad.mit.edu	37	chr3	128890519	128890519	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccacggcttctcattcCacgaccacggcctccaccag	7	8	7	19	3	2	0	1	0	2	0	5	1	4	0	6	2	1	1	6	2	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:128890519C>A	uc003elq.3	-	2	288	c.82G>T	c.(82-84)GGA>TGA	p.G28*	CNBP_uc003elr.3_Nonsense_Mutation_p.G28*|CNBP_uc011bku.1_Nonsense_Mutation_p.G28*	NM_003418	NP_003409	P62633	CNBP_HUMAN	zinc finger protein 9 isoform 3	28					cholesterol biosynthetic process	endoplasmic reticulum	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTTCTCATTCCACGACCACGG	0.488													3	41					1.23904e-05	1.29967e-05	0.000602	1	0		A	128890519	A	A	128890519	4	1	130	1	0	0	0	0	0	1	0	0	3595	603	21	5	473	5	CNBP	3	128890519	Nonsense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	4709758	128890519	69131911	127	71773											
MSL2	55167	broad.mit.edu	37	chr3	135871472	135871472	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaactgctcatagtctttgCaccagctacaggaaggtttc	11	11	8	11	0	2	0	1	0	1	0	3	1	2	1	1	2	5	4	1	2	4	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:135871472C>A	uc003eqx.1	-	2	984	c.251G>T	c.(250-252)TGC>TTC	p.C84F	MSL2_uc011bmb.1_Missense_Mutation_p.C10F	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	84	RING-type.				histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						ATAGTCTTTGCACCAGCTACA	0.423													98	108					4.10057e-40	4.84164e-40	0.01441	1	0		A	135871472	A	A	135871472	3	1	130	1	0	0	0	0	1	0	0	0	9896	710	25	5	1486	5	MSL2	3	135871472	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	6980953	135871472	62150958	128	71774											
PPM1L	151742	broad.mit.edu	37	chr3	160783228	160783228	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctctgctatcagataaagaCctcactgtggccaacgtggg	10	9	11	11	1	3	2	2	0	1	2	3	2	3	2	2	2	2	2	2	2	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:160783228C>G	uc003fdr.2	+	3	713	c.612C>G	c.(610-612)GAC>GAG	p.D204E	PPM1L_uc003fds.2_Missense_Mutation_p.D25E|PPM1L_uc003fdt.2_Missense_Mutation_p.D77E|PPM1L_uc010hwf.2_RNA	NM_139245	NP_640338	Q5SGD2	PPM1L_HUMAN	protein phosphatase 1 (formerly 2C)-like	204	Cytoplasmic (Potential).|PP2C-like.				protein dephosphorylation|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(1)	1			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			CAGATAAAGACCTCACTGTGG	0.498													62	65					0	0	0.01441	0	0		G	160783228	G	G	160783228	3	3	130	1	0	0	0	0	1	0	0	0	12366	506	18	5	622	5	PPM1L	3	160783228	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	24911756	160783228	37239202	129	71775											
TNIK	23043	broad.mit.edu	37	chr3	170929005	170929005	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcttcaacatgttaattTcttgtttgatttcttcctct	7	23	3	8	0	5	1	1	1	4	0	6	1	6	1	1	0	1	2	1	0	2	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:170929005T>A	uc003fhh.2	-	4	551	c.206A>T	c.(205-207)GAA>GTA	p.E69V	TNIK_uc003fhi.2_Missense_Mutation_p.E69V|TNIK_uc003fhj.2_Missense_Mutation_p.E69V|TNIK_uc003fhk.2_Missense_Mutation_p.E69V|TNIK_uc003fhl.2_Missense_Mutation_p.E69V|TNIK_uc003fhm.2_Missense_Mutation_p.E69V|TNIK_uc003fhn.2_Missense_Mutation_p.E69V|TNIK_uc003fho.2_Missense_Mutation_p.E69V	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	69	Protein kinase.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			CATGTTAATTTCTTGTTTGAT	0.348													24	179					0	0	0.004656	0	0		A	170929005	A	A	170929005	3	1	130	1	0	0	0	0	1	0	0	0	16338	1783	62	5	3996	5	TNIK	3	170929005	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	10145777	170929005	27093425	130	71776											
ZNF639	51193	broad.mit.edu	37	chr3	179052209	179052209	+	Nonstop_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccagtccatgagacaacttGattattctctttaacttaca	12	15	4	10	0	1	2	0	2	1	1	4	3	3	2	2	0	3	0	2	0	4	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:179052209G>C	uc003fjq.1	+	6	1800	c.1457G>C	c.(1456-1458)TGA>TCA	p.*486S	ZNF639_uc003fjr.1_Nonstop_Mutation_p.*486S	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	486					initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			GAGACAACTTGATTATTCTCT	0.318													21	48					0	0	0.010504	0	0		C	179052209	C	C	179052209	4	2	130	1	0	0	0	0	0	0	0	0	18081	1285	45	5	1471	5	ZNF639	3	179052209	Nonstop_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	8123204	179052209	18970221	131	71777											
ATP13A5	344905	broad.mit.edu	37	chr3	193052762	193052762	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcccctgcccagagggcTtgacctggataacttctgtt	7	10	11	13	0	1	2	0	1	1	1	1	3	1	3	4	3	2	2	4	3	1	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:193052762T>C	uc011bsq.1	-	10	1070	c.1070A>G	c.(1069-1071)AAG>AGG	p.K357R		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	357				K -> E (in Ref. 2; BAC85490).	ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		CCCAGAGGGCTTGACCTGGAT	0.468													65	126					0	0	0.01441	0	0		C	193052762	C	C	193052762	3	2	130	1	0	0	0	0	1	0	0	0	1128	1609	56	3	2668	3	ATP13A5	3	193052762	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	14000553	193052762	4969668	132	71778											
ACAP2	23527	broad.mit.edu	37	chr3	195016595	195016595	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttcctctccacatattttGctctgatatatgcctccttc	7	18	3	13	0	2	1	0	1	2	0	6	1	4	1	4	0	2	1	4	0	3	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:195016595G>A	uc003fun.3	-	17	1755	c.1514C>T	c.(1513-1515)GCA>GTA	p.A505V		NM_012287	NP_036419	Q15057	ACAP2_HUMAN	centaurin, beta 2	505	Arf-GAP.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)	2						CACATATTTTGCTCTGATATA	0.353													5	64					0	0	0.001168	0	0		A	195016595	A	A	195016595	3	1	130	1	0	0	0	0	1	0	0	0	119	1319	46	2	850	2	ACAP2	3	195016595	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1963833	195016595	3005835	133	71779											
MUC4	4585	broad.mit.edu	37	chr3	195515615	195515615	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttgtggagatgtaagccCagtggatgtgatcgatggag	9	11	17	4	1	0	2	0	1	0	1	1	6	0	4	1	4	1	2	1	4	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:195515615C>G	uc011bto.1	-	2	3296	c.2836G>C	c.(2836-2838)GGG>CGG	p.G946R	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.G828R	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	951	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GATGTAAGCCCAGTGGATGTG	0.567													5	75					0	0	0.006214	0	0		G	195515615	G	G	195515615	3	3	130	1	0	0	0	0	1	0	0	0	9996	594	21	5		5	MUC4	3	195515615	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	499020	195515615	2506815	134	71780											
PCYT1A	5130	broad.mit.edu	37	chr3	195965617	195965617	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttgtgcctggagagatttGctggggagcaaggtggggaa	8	9	18	6	0	0	1	0	0	0	1	0	5	0	4	2	6	3	2	2	6	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:195965617G>C	uc003fwg.2	-	10	1219	c.1046C>G	c.(1045-1047)GCA>GGA	p.A349G	uc003fwf.1_5'Flank|PCYT1A_uc003fwh.2_Missense_Mutation_p.A349G	NM_005017	NP_005008	P49585	PCY1A_HUMAN	choline phosphate cytidylyltransferase 1 alpha	349						cytosol|soluble fraction	choline-phosphate cytidylyltransferase activity				0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.28e-24)|all cancers(36;1.01e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00259)	Choline(DB00122)	GGAGAGATTTGCTGGGGAGCA	0.577													10	192					0	0	0.006214	0	0		C	195965617	C	C	195965617	3	2	130	1	0	0	0	0	1	0	0	0	11629	1319	46	5	61	5	PCYT1A	3	195965617	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	450002	195965617	2056813	135	71781											
MFI2	4241	broad.mit.edu	37	chr3	196748317	196748317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgcttcacaaaagccaCgtcccctgccccttccgcca	7	8	7	19	2	1	0	1	0	0	0	3	0	3	0	7	0	3	2	7	0	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr3:196748317C>T	uc003fxk.3	-	6	783	c.670G>A	c.(670-672)GTG>ATG	p.V224M	MFI2_uc003fxl.3_Missense_Mutation_p.V224M|MFI2_uc011bua.1_Silent_p.T196T	NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	224	Transferrin-like 1.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		ACAAAAGCCACGTCCCCTGCC	0.672													27	68					0	0	0.009535	0	0		T	196748317	T	T	196748317	3	4	130	1	0	0	0	0	1	0	0	0	9540	536	19	1	1791	1	MFI2	3	196748317	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	782700	196748317	1274113	136	71782											
EVC2	132884	broad.mit.edu	37	chr4	5567010	5567010	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttctcttgcgggcccacaGcatcttttctaatcctctgc	5	15	6	15	1	4	0	0	0	4	0	6	0	5	0	2	1	3	1	2	1	1	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:5567010G>A	uc003gij.2	-	21	3688	c.3634C>T	c.(3634-3636)CTG>TTG	p.L1212L	EVC2_uc011bwb.1_Silent_p.L652L|EVC2_uc003gik.2_Silent_p.L1132L	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1212						integral to membrane				large_intestine(3)|ovary(2)	5						CGGGCCCACAGCATCTTTTCT	0.562													16	89					0	0	0.004007	0	0		A	5567010	A	A	5567010	2	1	130	1	0	0	0	0	0	0	0	1	5294	962	34	2		2	EVC2	4	5567010	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08		5567010	185587266	137	71783											
TBC1D1	23216	broad.mit.edu	37	chr4	38138770	38138770	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctccaggtggcaaatggtagGatccaaagccttgaggccac	11	7	12	11	0	0	1	0	1	0	0	2	2	2	2	4	5	1	2	4	5	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:38138770G>C	uc003gtb.2	+	20	3664	c.3321G>C	c.(3319-3321)AGG>AGC	p.R1107S	TBC1D1_uc011byd.1_Missense_Mutation_p.R1098S|TBC1D1_uc010ifd.2_Missense_Mutation_p.R894S|TBC1D1_uc003gtd.2_Missense_Mutation_p.R119S	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	1107						nucleus	Rab GTPase activator activity			ovary(1)	1						CAAATGGTAGGATCCAAAGCC	0.532													28	60					0	0	0.007291	0	0		C	38138770	C	C	38138770	3	2	130	1	0	0	0	0	1	0	0	0	15622	1165	41	5	3395	5	TBC1D1	4	38138770	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	32571760	38138770	153015506	138	71784											
ATP10D	57205	broad.mit.edu	37	chr4	47565665	47565665	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagaagctcttcacaaagcGggcatcaagatctggatgct	13	9	10	9	1	4	2	2	0	2	2	4	3	4	3	0	2	3	3	0	2	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:47565665G>A	uc003gxk.1	+	15	2900	c.2736G>A	c.(2734-2736)GCG>GCA	p.A912A	ATP10D_uc003gxl.1_Silent_p.A160A	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	912	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						TTCACAAAGCGGGCATCAAGA	0.463													13	38					0	0	0.00245	0	0		A	47565665	A	A	47565665	2	1	130	1	0	0	0	0	0	0	0	1	1119	1103	39	1		1	ATP10D	4	47565665	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	9426895	47565665	143588611	139	71785											
PPEF2	5470	broad.mit.edu	37	chr4	76813023	76813023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttgacttggtcttgctgcCcagcatattctatagactgg	7	14	9	11	0	2	2	0	1	2	1	2	2	2	2	2	2	3	2	2	2	3	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:76813023C>T	uc003hix.2	-	3	521	c.164G>A	c.(163-165)GGG>GAG	p.G55E	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Missense_Mutation_p.G55E	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	55					detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			GTCTTGCTGCCCAGCATATTC	0.602													10	68					0	0	0.008291	0	0		T	76813023	T	T	76813023	3	4	130	1	0	0	0	0	1	0	0	0	12327	623	22	4	2157	4	PPEF2	4	76813023	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	29247358	76813023	114341253	140	71786											
WDFY3	23001	broad.mit.edu	37	chr4	85750257	85750257	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttgaggaaacaagaaaGcccagcaaacatttcgacaa	18	7	7	9	1	1	2	0	1	1	1	2	4	1	3	1	1	4	1	1	1	5	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:85750257G>C	uc003hpd.2	-	9	1264	c.856C>G	c.(856-858)CTT>GTT	p.L286V	WDFY3_uc003hpf.2_Missense_Mutation_p.L286V	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	286						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AAACAAGAAAGCCCAGCAAAC	0.383													5	83					0	0	0.001168	0	0		C	85750257	C	C	85750257	3	2	130	1	0	0	0	0	1	0	0	0	17296	971	34	5	10007	5	WDFY3	4	85750257	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	8937234	85750257	105404019	141	71787											
PTPN13	5783	broad.mit.edu	37	chr4	87696333	87696333	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtttttgtaggttaatgatAcagatgttactaatatgact	12	18	8	3	0	0	3	0	2	0	1	0	3	0	3	0	1	2	4	0	1	6	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:87696333A>G	uc003hpz.2	+	34	5998	c.5518A>G	c.(5518-5520)ACA>GCA	p.T1840A	PTPN13_uc003hpy.2_Missense_Mutation_p.T1845A|PTPN13_uc003hqa.2_Missense_Mutation_p.T1821A|PTPN13_uc003hqb.2_Missense_Mutation_p.T1649A|PTPN13_uc003hqc.1_Missense_Mutation_p.T206A	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1840	PDZ 4.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		GGTTAATGATACAGATGTTAC	0.353													3	19					0	0	0.004672	0	0		G	87696333	G	G	87696333	3	3	130	1	0	0	0	0	1	0	0	0	12805	391	14	3	5663	3	PTPN13	4	87696333	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	1946076	87696333	103457943	142	71788											
MMRN1	22915	broad.mit.edu	37	chr4	90848951	90848951	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttctatatgcagaagtgAtgcaaaaaatgactgatcag	15	11	8	7	0	3	4	1	3	2	1	3	4	3	4	0	0	2	2	0	0	6	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:90848951A>T	uc003hst.2	+	5	1032	c.961A>T	c.(961-963)ATG>TTG	p.M321L	MMRN1_uc010iku.2_Missense_Mutation_p.M287L|MMRN1_uc011cds.1_Missense_Mutation_p.M63L	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	321					cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		TGCAGAAGTGATGCAAAAAAT	0.244													19	94					0	0	0.010504	0	0		T	90848951	T	T	90848951	3	4	130	1	0	0	0	0	1	0	0	0	9688	333	12	5	979	5	MMRN1	4	90848951	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	3152618	90848951	100305325	143	71789											
GRID2	2895	broad.mit.edu	37	chr4	94690491	94690491	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgccctggacataaagagcTttgcaggggtcttttgtatc	8	12	12	9	1	1	1	0	0	1	1	2	2	1	2	1	3	2	3	1	3	3	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:94690491T>A	uc011cdt.1	+	15	2749	c.2491T>A	c.(2491-2493)TTT>ATT	p.F831I	GRID2_uc011cdu.1_Missense_Mutation_p.F736I	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	831	Helical; (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CATAAAGAGCTTTGCAGGGGT	0.537													11	77					0	0	0.010729	0	0		A	94690491	A	A	94690491	3	1	130	1	0	0	0	0	1	0	0	0	6788	1609	56	5	2549	5	GRID2	4	94690491	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	3841540	94690491	96463785	144	71790											
UNC5C	8633	broad.mit.edu	37	chr4	96123976	96123976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagatggccagcttgaggCgcttcgcagccgctttggtg	7	9	14	11	3	0	2	0	1	0	1	1	2	0	2	2	3	2	4	2	3	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:96123976C>T	uc003htp.1	-	12	2196	c.2042G>A	c.(2041-2043)CGC>CAC	p.R681H	UNC5C_uc010ilc.1_Missense_Mutation_p.R700H	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	681	Cytoplasmic (Potential).				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		CAGCTTGAGGCGCTTCGCAGC	0.582													9	72					0	0	0.004482	0	0		T	96123976	T	T	96123976	3	4	130	1	0	0	0	0	1	0	0	0	17019	768	27	1	773	1	UNC5C	4	96123976	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1433485	96123976	95030300	145	71791											
EGF	1950	broad.mit.edu	37	chr4	110897291	110897291	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggaataacgattgacttCttaactgacaagttgtactg	13	13	9	6	1	1	2	0	2	1	0	1	4	1	3	0	1	3	2	0	1	5	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:110897291C>A	uc003hzy.3	+	13	2405	c.1953C>A	c.(1951-1953)TTC>TTA	p.F651L	EGF_uc011cfu.1_Missense_Mutation_p.F609L|EGF_uc011cfv.1_Missense_Mutation_p.F651L	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	651	Extracellular (Potential).|LDL-receptor class B 8.				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	CGATTGACTTCTTAACTGACA	0.463													34	83					4.3181e-19	5.00374e-19	0.013726	1	0		A	110897291	A	A	110897291	3	1	130	1	0	0	0	0	1	0	0	0	4968	912	32	5	2003	5	EGF	4	110897291	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	14773315	110897291	80256985	146	71792											
ANK2	287	broad.mit.edu	37	chr4	114275081	114275081	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attggttccataaaggacaaAgtaaaggcccttcagaagcg	15	8	10	8	1	1	1	1	0	0	1	2	2	2	2	2	3	1	2	2	3	6	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:114275081A>T	uc003ibe.3	+	38	5407	c.5307A>T	c.(5305-5307)AAA>AAT	p.K1769N	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_5'Flank|ANK2_uc011cgb.1_Missense_Mutation_p.K1784N	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1736					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TAAAGGACAAAGTAAAGGCCC	0.493													106	240					0	0	0.01441	0	0		T	114275081	T	T	114275081	3	4	130	1	0	0	0	0	1	0	0	0	621	69	3	5	5522	5	ANK2	4	114275081	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	3377790	114275081	76879195	147	71793											
UGT8	7368	broad.mit.edu	37	chr4	115597140	115597140	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcaacctggtcaccctgTcaatcgaactatctattgga	11	11	8	11	1	4	0	3	0	1	0	5	3	4	2	2	3	2	0	2	3	5	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:115597140T>A	uc003ibs.2	+	6	1844	c.1322T>A	c.(1321-1323)GTC>GAC	p.V441D	UGT8_uc003ibt.2_Missense_Mutation_p.V441D|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	441					central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		GGTCACCCTGTCAATCGAACT	0.428													17	67					0	0	0.00499	0	0		A	115597140	A	A	115597140	3	1	130	1	0	0	0	0	1	0	0	0	16991	1667	58	5	1340	5	UGT8	4	115597140	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1322059	115597140	75557136	148	71794											
TRAM1L1	133022	broad.mit.edu	37	chr4	118006297	118006297	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattgccaccagcatgtagaAgaaaaccgtggccaaatctt	14	8	9	10	1	1	2	0	0	1	2	1	3	1	2	4	1	3	2	4	1	5	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:118006297A>C	uc003ibv.3	-	1	440	c.253T>G	c.(253-255)TTC>GTC	p.F85V		NM_152402	NP_689615	Q8N609	TR1L1_HUMAN	translocation associated membrane protein 1-like	85	Helical; (Potential).				protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane				central_nervous_system(1)	1						AGCATGTAGAAGAAAACCGTG	0.428													5	34					0	0	0.001984	0	0		C	118006297	C	C	118006297	3	2	130	1	0	0	0	0	1	0	0	0	16478	72	3	5	860	5	TRAM1L1	4	118006297	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	2409157	118006297	73147979	149	71795											
PRDM5	11107	broad.mit.edu	37	chr4	121774656	121774656	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagtgccgtgggttggtagCatccaaaatgtacaaaactt	12	10	12	7	1	0	0	0	0	0	0	1	1	1	1	2	3	4	4	2	3	6	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:121774656C>A	uc003idn.2	-	3	467	c.217G>T	c.(217-219)GCT>TCT	p.A73S	PRDM5_uc003ido.2_Missense_Mutation_p.A73S|PRDM5_uc010ine.2_Missense_Mutation_p.A73S|PRDM5_uc010inf.2_Missense_Mutation_p.A73S|PRDM5_uc003idp.1_Missense_Mutation_p.A73S	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	73	SET.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						GGGTTGGTAGCATCCAAAATG	0.448													37	320					2.04263e-09	2.26739e-09	0.004289	1	0		A	121774656	A	A	121774656	3	1	130	1	0	0	0	0	1	0	0	0	12482	710	25	5	1731	5	PRDM5	4	121774656	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3768359	121774656	69379620	150	71796											
INTU	27152	broad.mit.edu	37	chr4	128628051	128628051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctttagcccccatactaCaccggatgcagtacggaagc	10	8	10	13	2	0	0	0	0	0	0	0	2	0	2	3	3	6	3	3	3	5	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:128628051C>T	uc003ifk.1	+	12	2268	c.2198C>T	c.(2197-2199)ACA>ATA	p.T733I	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	733										ovary(1)	1						CCCCATACTACACCGGATGCA	0.458													43	178					0	0	0.011902	0	0		T	128628051	T	T	128628051	3	4	130	1	0	0	0	0	1	0	0	0	7802	478	17	4	2244	4	INTU	4	128628051	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	6853395	128628051	62526225	151	71797											
C4orf33	132321	broad.mit.edu	37	chr4	130030807	130030807	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacctcagcatgaactgcaGcaaggacaaaaacctgattt	15	8	8	10	0	1	2	1	2	0	0	1	3	1	3	2	1	6	4	2	1	5	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:130030807G>C	uc003igu.3	+	5	838	c.474G>C	c.(472-474)CAG>CAC	p.Q158H	C4orf33_uc010ioc.1_Missense_Mutation_p.Q158H|C4orf33_uc010iod.2_Missense_Mutation_p.Q158H	NM_173487	NP_775758	Q8N1A6	CD033_HUMAN	hypothetical protein LOC132321	158										upper_aerodigestive_tract(1)	1						ATGAACTGCAGCAAGGACAAA	0.338													7	49					0	0	0.00308	0	0		C	130030807	C	C	130030807	3	2	130	1	0	0	0	0	1	0	0	0	2266	962	34	5	488	5	C4orf33	4	130030807	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1402756	130030807	61123469	152	71798											
HHIP	64399	broad.mit.edu	37	chr4	145655992	145655992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacggctactgcacccccacGggaaagtgctgctgcagtcc	9	6	11	15	2	0	0	0	0	0	0	1	1	1	1	3	2	6	5	3	2	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:145655992G>A	uc003ijs.1	+	12	2515	c.1860G>A	c.(1858-1860)ACG>ACA	p.T620T		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	620	EGF-like 1.					cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		GCACCCCCACGGGAAAGTGCT	0.537													9	38					0	0	0.006214	0	0		A	145655992	A	A	145655992	2	1	130	1	0	0	0	0	0	0	0	1	7108	1103	39	1		1	HHIP	4	145655992	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	15625185	145655992	45498284	153	71799											
DCHS2	54798	broad.mit.edu	37	chr4	155237055	155237055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgggatgaagaaagtgctGgtgtgccatcatccagtgcc	9	10	13	9	0	2	2	1	1	1	1	3	3	3	3	3	2	3	1	3	2	2	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:155237055G>A	uc003inw.2	-	15	3740	c.3740C>T	c.(3739-3741)CCA>CTA	p.P1247L		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1247	Cadherin 10.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AGAAAGTGCTGGTGTGCCATC	0.408													5	55					0	0	0.000602	0	0		A	155237055	A	A	155237055	3	1	130	1	0	0	0	0	1	0	0	0	4291	1348	47	4	5054	4	DCHS2	4	155237055	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	9581063	155237055	35917221	154	71800											
DCHS2	54798	broad.mit.edu	37	chr4	155241793	155241793	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgatcagatgctgttacTgtcaggatgacagttggaat	10	12	12	7	0	2	3	2	2	0	1	2	5	2	5	1	2	2	3	1	2	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:155241793T>A	uc003inw.2	-	14	3393	c.3393A>T	c.(3391-3393)ACA>ACT	p.T1131T		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1131	Cadherin 9.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		ATGCTGTTACTGTCAGGATGA	0.478													93	194					0	0	0.01441	0	0		A	155241793	A	A	155241793	2	1	130	1	0	0	0	0	0	0	0	1	4291	1567	55	5		5	DCHS2	4	155241793	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	4738	155241793	35912483	155	71801											
NEK1	4750	broad.mit.edu	37	chr4	170508717	170508717	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttctacttacagcatgtTtaagtgtacacagctcataa	14	13	5	9	0	2	0	1	0	1	0	2	0	2	0	0	0	6	4	0	0	6	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:170508717T>A	uc003isb.1	-	8	1091	c.599A>T	c.(598-600)AAA>ATA	p.K200I	NEK1_uc003isc.1_Missense_Mutation_p.K200I|NEK1_uc003isd.1_Missense_Mutation_p.K200I|NEK1_uc003ise.1_Missense_Mutation_p.K200I|NEK1_uc003isf.1_Missense_Mutation_p.K200I|NEK1_uc003isg.1_Missense_Mutation_p.K121I	NM_012224	NP_036356	Q96PY6	NEK1_HUMAN	NIMA-related kinase 1	200	Protein kinase.				cell division|cilium assembly|mitosis	nucleus|pericentriolar material	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(3)|ovary(2)|large_intestine(1)	6		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)|KIRC - Kidney renal clear cell carcinoma(143;0.0325)|Kidney(143;0.0385)|LUSC - Lung squamous cell carcinoma(193;0.14)		TACAGCATGTTTAAGTGTACA	0.289													6	8					0	0	0.001984	0	0		A	170508717	A	A	170508717	3	1	130	1	0	0	0	0	1	0	0	0	10340	1841	64	5	3285	5	NEK1	4	170508717	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	15266924	170508717	20645559	156	71802											
CLCN3	1182	broad.mit.edu	37	chr4	170557218	170557218	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catctgaagatgacaatttaTtagatggtgacactgcagtt	13	13	9	6	0	1	5	0	3	1	2	1	5	1	5	0	1	1	2	0	1	4	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr4:170557218T>C	uc003isi.2	+	2	648	c.139T>C	c.(139-141)TTA>CTA	p.L47L	CLCN3_uc003ish.2_Silent_p.L47L|CLCN3_uc011cjz.1_5'UTR|CLCN3_uc011cka.1_Silent_p.L47L	NM_001829	NP_001820	P51790	CLCN3_HUMAN	chloride channel 3 isoform b	47	Cytoplasmic (By similarity).				endosomal lumen acidification	cell surface|early endosome membrane|Golgi membrane|integral to membrane|late endosome membrane|transport vesicle membrane	antiporter activity|ATP binding|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|voltage-gated chloride channel activity			breast(2)|ovary(1)	3		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0233)|LUSC - Lung squamous cell carcinoma(193;0.131)		TGACAATTTATTAGATGGTGA	0.343													42	85					0	0	0.013114	0	0		C	170557218	C	C	170557218	2	2	130	1	0	0	0	0	0	0	0	1	3467	1490	52	3		3	CLCN3	4	170557218	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	48501	170557218	20597058	157	71803											
ADAMTS16	170690	broad.mit.edu	37	chr5	5239336	5239336	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtgtaacgggaataacTcagcctgcacgattcacagg	11	8	13	9	2	2	0	2	0	0	0	2	2	2	1	1	3	4	2	1	3	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:5239336T>C	uc003jdl.2	+	15	2365	c.2227T>C	c.(2227-2229)TCA>CCA	p.S743P	ADAMTS16_uc003jdk.1_Missense_Mutation_p.S743P|ADAMTS16_uc010itk.1_RNA	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	743	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CGGGAATAACTCAGCCTGCAC	0.512													56	130					0	0	0.01441	0	0		C	5239336	C	C	5239336	3	2	130	1	0	0	0	0	1	0	0	0	261	1551	54	3	2285	3	ADAMTS16	5	5239336	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08		5239336	175675924	158	71804											
KIAA0947	23379	broad.mit.edu	37	chr5	5462216	5462216	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggtggctgctgtgaaaagCatttcaccagaagtttctgc	10	11	12	8	0	2	2	1	1	1	1	2	3	2	2	1	2	3	4	1	2	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:5462216C>G	uc003jdm.3	+	13	2991	c.2769C>G	c.(2767-2769)AGC>AGG	p.S923R		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	923										ovary(1)|central_nervous_system(1)	2						CTGTGAAAAGCATTTCACCAG	0.393													21	46					0	0	0.012319	0	0		G	5462216	G	G	5462216	3	3	130	1	0	0	0	0	1	0	0	0	8218	709	25	5	2819	5	KIAA0947	5	5462216	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	222880	5462216	175453044	159	71805											
CDH9	1007	broad.mit.edu	37	chr5	26881298	26881298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcggcaagttttttgaaacGaggcccccagtcactgaggt	10	10	11	10	2	1	2	1	2	0	0	2	3	1	2	2	3	1	2	2	3	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:26881298G>A	uc003jgs.1	-	12	2486	c.2317C>T	c.(2317-2319)CGT>TGT	p.R773C	CDH9_uc011cnv.1_Missense_Mutation_p.R366C	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	773	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TTTTTGAAACGAGGCCCCCAG	0.408													16	90					0	0	0.00499	0	0		A	26881298	A	A	26881298	3	1	130	1	0	0	0	0	1	0	0	0	3120	1058	37	1	56	1	CDH9	5	26881298	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	21419082	26881298	154033962	160	71806											
ZFR	51663	broad.mit.edu	37	chr5	32420129	32420129	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagcagtaactgtgtgagCagctactggagcctgatgga	10	8	15	8	0	0	2	0	2	0	0	0	4	0	4	1	3	6	5	1	3	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:32420129C>A	uc003jhr.1	-	3	297	c.217G>T	c.(217-219)GCT>TCT	p.A73S	ZFR_uc010iun.1_Missense_Mutation_p.A73S	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	73	Ala-rich.				multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		ACTGTGTGAGCAGCTACTGGA	0.542													7	45					0.00198382	0.00203119	0.001984	1	0		A	32420129	A	A	32420129	3	1	130	1	0	0	0	0	1	0	0	0	17684	710	25	5	3079	5	ZFR	5	32420129	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	5538831	32420129	148495131	161	71807											
MAST4	375449	broad.mit.edu	37	chr5	66460529	66460529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgagggcctctgtgccacCagttctccccagcagcagtg	6	8	12	15	1	2	1	0	1	2	0	3	1	2	1	5	1	3	3	5	1	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:66460529C>T	uc003jut.1	+	28	5023	c.4955C>T	c.(4954-4956)CCA>CTA	p.P1652L	MAST4_uc003juw.2_Missense_Mutation_p.P1580L|MAST4_uc003jux.2_5'Flank	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1844						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		TCTGTGCCACCAGTTCTCCCC	0.562													5	54					0	0	0.000602	0	0		T	66460529	T	T	66460529	3	4	130	1	0	0	0	0	1	0	0	0	9345	594	21	4	5766	4	MAST4	5	66460529	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	34040400	66460529	114454731	162	71808											
PDE8B	8622	broad.mit.edu	37	chr5	76721718	76721718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagacatgtttgatgcttggGatggtaagacagttactgtt	10	14	12	5	0	0	3	0	1	0	2	0	4	0	4	0	2	2	5	0	2	2	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:76721718G>A	uc003kfa.2	+	21	2590	c.2545G>A	c.(2545-2547)GAT>AAT	p.D849N	PDE8B_uc003kfb.2_Missense_Mutation_p.D829N|PDE8B_uc003kfc.2_Missense_Mutation_p.D794N|PDE8B_uc003kfd.2_Missense_Mutation_p.D802N|PDE8B_uc003kfe.2_Missense_Mutation_p.D752N	NM_003719	NP_003710	O95263	PDE8B_HUMAN	phosphodiesterase 8B isoform 1	849	Catalytic (By similarity).				cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity				0		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)		TGATGCTTGGGATGGTAAGAC	0.388													15	52					0	0	0.003163	0	0		A	76721718	A	A	76721718	3	1	130	1	0	0	0	0	1	0	0	0	11673	1174	41	4	2627	4	PDE8B	5	76721718	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	10261189	76721718	104193542	163	71809											
GPR98	84059	broad.mit.edu	37	chr5	90008210	90008210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctgattttaacaaatcCttctcctggactagagctag	11	13	7	10	0	2	2	1	1	1	1	4	3	3	3	2	1	3	2	2	1	4	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:90008210C>T	uc003kju.2	+	42	9245	c.9149C>T	c.(9148-9150)CCT>CTT	p.P3050L	GPR98_uc003kjt.2_Missense_Mutation_p.P756L|GPR98_uc003kjv.2_Missense_Mutation_p.P650L	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3050	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TTAACAAATCCTTCTCCTGGA	0.348													3	2					0	0	0.004672	0	0		T	90008210	T	T	90008210	3	4	130	1	0	0	0	0	1	0	0	0	6737	681	24	4	9315	4	GPR98	5	90008210	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	13286492	90008210	90907050	164	71810											
ELL2	22936	broad.mit.edu	37	chr5	95242421	95242421	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagggttcatgggggttgAccttttcctctcaggaactg	6	13	13	9	0	2	1	2	1	1	0	4	2	3	2	2	4	2	3	2	4	1	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:95242421A>C	uc003klr.3	-	5	897	c.547T>G	c.(547-549)TCA>GCA	p.S183A		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	183					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		ATGGGGGTTGACCTTTTCCTC	0.458													42	137					0	0	0.007835	0	0		C	95242421	C	C	95242421	3	2	130	1	0	0	0	0	1	0	0	0	5071	275	10	5	1407	5	ELL2	5	95242421	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	5234211	95242421	85672839	165	71811											
SRP19	6728	broad.mit.edu	37	chr5	112228333	112228333	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagaggaaaacactgcaacTttcttcatgtgttcagaaat	15	11	7	8	0	3	2	2	0	1	2	3	3	3	3	0	1	3	2	0	1	5	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:112228333T>A	uc011cvv.1	+	4	1327	c.1072T>A	c.(1072-1074)TTT>ATT	p.F358I	SRP19_uc011cvu.1_Missense_Mutation_p.F343I|REEP5_uc011cvw.1_Intron|REEP5_uc003kqe.1_Intron|REEP5_uc011cvx.1_RNA|REEP5_uc011cvy.1_Intron|REEP5_uc011cvz.1_Intron			P09132	SRP19_HUMAN	SubName: Full=Zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 2;	Error:Variant_position_missing_in_P09132_after_alignment					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|mitochondrion|nucleolus|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding				0		all_cancers(142;0.00328)|all_epithelial(76;6.39e-05)|Prostate(80;0.00174)|Colorectal(10;0.00372)|Ovarian(225;0.156)		Epithelial(69;1.7e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.17e-08)|all cancers(49;3.96e-07)|Colorectal(14;0.0056)|COAD - Colon adenocarcinoma(37;0.0104)		ACACTGCAACTTTCTTCATGT	0.428													8	96					0	0	0.008291	0	0		A	112228333	A	A	112228333	3	1	130	1	0	0	0	0	1	0	0	0	15179	1624	56	5		5	SRP19	5	112228333	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	16985912	112228333	68686927	166	71812											
TGFBI	7045	broad.mit.edu	37	chr5	135382059	135382059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctttacgagaccctgggaGtcgttggatccaccaccact	9	9	9	14	2	0	1	0	0	0	1	2	4	1	3	5	2	1	1	5	2	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:135382059G>A	uc003lbf.3	+	4	495	c.334G>A	c.(334-336)GTC>ATC	p.V112I	TGFBI_uc003lbg.3_5'UTR|TGFBI_uc003lbh.3_5'UTR|TGFBI_uc011cyb.1_5'UTR	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	112	FAS1 1.				angiogenesis|cell adhesion|cell proliferation|negative regulation of cell adhesion|response to stimulus|visual perception	extracellular space|proteinaceous extracellular matrix	integrin binding			breast(3)|ovary(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GACCCTGGGAGTCGTTGGATC	0.612													11	59					0	0	0.013537	0	0		A	135382059	A	A	135382059	3	1	130	1	0	0	0	0	1	0	0	0	15845	1029	36	4	348	4	TGFBI	5	135382059	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	23153726	135382059	45533201	167	71813											
TGFBI	7045	broad.mit.edu	37	chr5	135396544	135396544	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacaatgtggtgagtgtcAacaaggagcctgttgccgag	13	8	13	7	1	1	1	1	1	0	0	1	3	1	2	2	2	4	1	2	2	5	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:135396544A>C	uc003lbf.3	+	14	1986	c.1825A>C	c.(1825-1827)AAC>CAC	p.N609H	TGFBI_uc003lbg.3_Missense_Mutation_p.N342H|TGFBI_uc003lbh.3_Missense_Mutation_p.N435H|TGFBI_uc011cyb.1_Missense_Mutation_p.N435H|TGFBI_uc010jed.2_Missense_Mutation_p.N342H|TGFBI_uc010jee.2_5'Flank	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	609	FAS1 4.				angiogenesis|cell adhesion|cell proliferation|negative regulation of cell adhesion|response to stimulus|visual perception	extracellular space|proteinaceous extracellular matrix	integrin binding			breast(3)|ovary(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GGTGAGTGTCAACAAGGAGCC	0.388													8	31					0	0	0.010729	0	0		C	135396544	C	C	135396544	3	2	130	1	0	0	0	0	1	0	0	0	15845	130	5	5	1879	5	TGFBI	5	135396544	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	14485	135396544	45518716	168	71814											
PCDHA8	56140	broad.mit.edu	37	chr5	140222821	140222821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaccactcgtgtcctggacGaagcggactctccgcgccac	7	6	11	17	5	1	0	0	0	1	0	4	3	2	2	4	2	1	1	4	2	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:140222821G>A	uc003lhs.2	+	1	1915	c.1915G>A	c.(1915-1917)GAA>AAA	p.E639K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.E639K	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	639	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCCTGGACGAAGCGGACTC	0.647													47	106					0	0	0.01441	0	0		A	140222821	A	A	140222821	3	1	130	1	0	0	0	0	1	0	0	0	11549	1059	37	1	1917	1	PCDHA8	5	140222821	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	4826277	140222821	40692439	169	71815											
PCDHA11	56138	broad.mit.edu	37	chr5	140250586	140250586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgggcgagataagcacaaCgcgtgccctggacgaggcag	11	3	15	12	5	0	1	0	0	0	1	0	4	0	2	1	3	3	2	1	3	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:140250586C>T	uc003lia.2	+	1	2756	c.1898C>T	c.(1897-1899)ACG>ATG	p.T633M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.T633M	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	633	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATAAGCACAACGCGTGCCCTG	0.662													34	70					0	0	0.013726	0	0		T	140250586	T	T	140250586	3	4	130	1	0	0	0	0	1	0	0	0	11540	536	19	1	1900	1	PCDHA11	5	140250586	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	27765	140250586	40664674	170	71816											
PCDHB1	29930	broad.mit.edu	37	chr5	140432602	140432602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaatgggaagctctacgCgctgagaaccatggattatg	12	8	13	8	2	1	1	0	1	1	1	1	4	1	3	1	3	3	3	1	3	5	2	rs116101801	by1000genomes	TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:140432602C>T	uc003lik.1	+	1	1624	c.1547C>T	c.(1546-1548)GCG>GTG	p.A516V		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	516	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAGCTCTACGCGCTGAGAACC	0.428													6	52					0	0	0.001168	0	0		T	140432602	T	T	140432602	3	4	130	1	0	0	0	0	1	0	0	0	11553	768	27	1	1549	1	PCDHB1	5	140432602	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	182016	140432602	40482658	171	71817											
PCDHB3	56132	broad.mit.edu	37	chr5	140482191	140482191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatggcgagcctccgcgctCggccaccgccacgctgcatg	6	5	12	18	6	0	0	0	0	0	0	2	1	1	0	5	2	2	3	5	2	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:140482191C>T	uc003lio.2	+	1	1958	c.1958C>T	c.(1957-1959)TCG>TTG	p.S653L	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	653	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTCCGCGCTCGGCCACCGCC	0.706													32	82					0	0	0.010818	0	0		T	140482191	T	T	140482191	3	4	130	1	0	0	0	0	1	0	0	0	11562	893	31	1	1960	1	PCDHB3	5	140482191	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	49589	140482191	40433069	172	71818											
PCDHB11	56125	broad.mit.edu	37	chr5	140581647	140581647	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacaaatgaattcaagttccTaaaaccggttatccctaata	16	11	5	9	1	1	1	1	1	0	0	3	2	3	1	3	1	1	2	3	1	8	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:140581647T>C	uc003liy.2	+	1	2300	c.2300T>C	c.(2299-2301)CTA>CCA	p.L767P	PCDHB11_uc011daj.1_Missense_Mutation_p.L402P	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	767	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCAAGTTCCTAAAACCGGTT	0.463													33	86					0	0	0.012213	0	0		C	140581647	C	C	140581647	3	2	130	1	0	0	0	0	1	0	0	0	11555	1522	53	3	2302	3	PCDHB11	5	140581647	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	99456	140581647	40333613	173	71819											
PCDHGB1	56104	broad.mit.edu	37	chr5	140731731	140731731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgacagggacgcggcccGccagcgcctgctggtcgctg	4	4	18	15	6	0	0	0	0	0	0	1	2	0	1	3	4	2	2	3	4	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:140731731G>A	uc003ljo.1	+	1	1904	c.1904G>A	c.(1903-1905)CGC>CAC	p.R635H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Missense_Mutation_p.R635H	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	635	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGCGGCCCGCCAGCGCCTG	0.687													15	44					0	0	0.006122	0	0		A	140731731	A	A	140731731	3	1	130	1	0	0	0	0	1	0	0	0	11581	1087	38	1	1906	1	PCDHGB1	5	140731731	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	150084	140731731	40183529	174	71820											
FGF1	2246	broad.mit.edu	37	chr5	141974992	141974992	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcttcttggatatataggTgttgtaatggttctcctcca	8	17	9	7	0	2	0	0	0	2	0	4	1	3	1	2	3	1	4	2	3	4	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:141974992T>G	uc003lmm.2	-	4	411	c.331A>C	c.(331-333)ACC>CCC	p.T111P	FGF1_uc011dbi.1_3'UTR|FGF1_uc003lmn.3_Missense_Mutation_p.T111P|FGF1_uc003lmp.3_3'UTR|FGF1_uc003lmq.2_Missense_Mutation_p.T111P|FGF1_uc010jgj.2_Missense_Mutation_p.T110P|FGF1_uc003lmr.2_Missense_Mutation_p.T111P|FGF1_uc003lms.3_Missense_Mutation_p.T111P	NM_001144892	NP_001138364	P05230	FGF1_HUMAN	fibroblast growth factor 1 (acidic) isoform 1	111					angiogenesis|cellular response to heat|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of angiogenesis|positive regulation of cell division|positive regulation of cell migration|positive regulation of cholesterol biosynthetic process|positive regulation of intracellular protein kinase cascade|positive regulation of transcription from RNA polymerase II promoter	cell cortex|cytosol|extracellular space	fibroblast growth factor receptor binding|growth factor activity|heparin binding|S100 alpha binding				0		all_neural(839;0.0416)|Ovarian(839;0.0955)|all_hematologic(541;0.1)|Prostate(461;0.157)|Lung NSC(810;0.21)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.00032)	Pentosan Polysulfate(DB00686)	GATATATAGGTGTTGTAATGG	0.443													16	56					0	0	0.006122	0	0		G	141974992	G	G	141974992	3	3	130	1	0	0	0	0	1	0	0	0	5852	1696	59	5	140	5	FGF1	5	141974992	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1243261	141974992	38940268	175	71821											
FAT2	2196	broad.mit.edu	37	chr5	150945266	150945266	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatgctgaaggctgcgagtCcagtgccagcacgcaggaag	10	6	15	10	2	0	2	0	2	0	0	1	4	1	3	2	2	4	4	2	2	2	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:150945266C>A	uc003lue.3	-	1	3240	c.3227G>T	c.(3226-3228)GGA>GTA	p.G1076V	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.G1076V	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1076	Cadherin 9.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGCTGCGAGTCCAGTGCCAGC	0.587													12	26					2.80697e-09	3.10578e-09	0.010729	1	0		A	150945266	A	A	150945266	3	1	130	1	0	0	0	0	1	0	0	0	5704	855	30	5	9914	5	FAT2	5	150945266	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	8970274	150945266	29969994	176	71822											
C5orf54	63920	broad.mit.edu	37	chr5	159821852	159821852	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagattgaacacatctattcCtttcatggatagctgcaatg	12	13	8	8	0	2	2	1	1	1	1	3	4	3	3	1	1	3	2	1	1	4	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:159821852C>A	uc003lye.1	-	2	1110	c.646G>T	c.(646-648)GGA>TGA	p.G216*	C5orf54_uc003lyf.1_Nonsense_Mutation_p.G216*	NM_022090	NP_071373	Q8IZ13	CE054_HUMAN	transposon-derived Buster3 transposase-like	216										pancreas(1)	1						acatctattcctttcatggat	0													6	61					0.00116845	0.00120173	0.001168	1	0		A	159821852	A	A	159821852	4	1	130	1	0	0	0	0	0	1	0	0	2313	690	24	5	1142	5	C5orf54	5	159821852	Nonsense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	8876586	159821852	21093408	177	71823											
ATP10B	23120	broad.mit.edu	37	chr5	160061518	160061518	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cattgaatggataaatcggtCtcttcatcatacaggtcaag	13	12	8	8	1	4	1	3	1	1	0	6	2	4	2	0	3	1	0	0	3	5	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:160061518C>G	uc003lym.1	-	12	2071	c.1224G>C	c.(1222-1224)GAG>GAC	p.E408D	ATP10B_uc003lyp.2_Missense_Mutation_p.E408D|ATP10B_uc011deg.1_Missense_Mutation_p.E452D|ATP10B_uc003lyn.2_5'UTR|ATP10B_uc003lyo.2_Missense_Mutation_p.E380D	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	408	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATAAATCGGTCTCTTCATCAT	0.493													45	131					0	0	0.010771	0	0		G	160061518	G	G	160061518	3	3	130	1	0	0	0	0	1	0	0	0	1118	912	32	5	3221	5	ATP10B	5	160061518	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	239666	160061518	20853742	178	71824											
C5orf41	153222	broad.mit.edu	37	chr5	172513607	172513607	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttagcaaacagttcggAtccagatttcatgtatgaac	12	13	7	9	1	2	2	1	1	1	1	5	3	3	3	1	1	3	3	1	1	4	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:172513607A>G	uc003mch.2	+	3	417	c.113A>G	c.(112-114)GAT>GGT	p.D38G	C5orf41_uc003mcg.2_Missense_Mutation_p.D38G|C5orf41_uc003mcf.2_Missense_Mutation_p.D38G|C5orf41_uc011dfd.1_Missense_Mutation_p.D38G	NM_153607	NP_705835	Q8IUR6	CE041_HUMAN	luman-recruiting factor	38							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AACAGTTCGGATCCAGATTTC	0.418													14	111					0	0	0.003163	0	0		G	172513607	G	G	172513607	3	3	130	1	0	0	0	0	1	0	0	0	2303	333	12	3	119	3	C5orf41	5	172513607	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	12452089	172513607	8401653	179	71825											
DBN1	1627	broad.mit.edu	37	chr5	176894295	176894295	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgctctcggttaatccgcttCatttccacagctgcatccgt	6	14	7	14	3	2	0	1	0	1	0	6	0	5	0	3	1	3	5	3	1	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:176894295C>G	uc003mgy.2	-	6	688	c.516G>C	c.(514-516)ATG>ATC	p.M172I	DBN1_uc003mgx.2_Missense_Mutation_p.M174I|DBN1_uc010jkn.1_Missense_Mutation_p.M122I|DBN1_uc003mgz.1_Missense_Mutation_p.M109I	NM_004395	NP_004386	Q16643	DREB_HUMAN	drebrin 1 isoform a	172					actin filament organization|regulation of dendrite development|regulation of neuronal synaptic plasticity	actomyosin|cytoplasm|dendrite	actin binding|profilin binding			breast(3)|ovary(1)|lung(1)|skin(1)	6	all_cancers(89;2.17e-05)|Renal(175;0.000269)|Lung NSC(126;0.0014)|all_lung(126;0.0025)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TAATCCGCTTCATTTCCACAG	0.602													62	229					0	0	0.01441	0	0		G	176894295	G	G	176894295	3	3	130	1	0	0	0	0	1	0	0	0	4255	826	29	5	1469	5	DBN1	5	176894295	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	4380688	176894295	4020965	180	71826											
NHP2	55651	broad.mit.edu	37	chr5	177580502	177580502	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttcttaccctttttctcCtttgttgacaaatttctgaa	8	19	5	9	0	3	2	0	2	3	0	4	2	3	2	2	1	1	2	2	1	3	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:177580502C>G	uc003mir.2	-	2	363	c.220G>C	c.(220-222)GGA>CGA	p.G74R	NHP2_uc003mis.2_Missense_Mutation_p.G74R	NM_017838	NP_060308	Q9NX24	NHP2_HUMAN	nucleolar protein family A, member 2 isoform a	74					rRNA pseudouridine synthesis	Cajal body|nucleolus|small nucleolar ribonucleoprotein complex	protein binding|snoRNA binding				0						CCTTTTTCTCCTTTGTTGACA	0.483													31	126					0	0	0.010818	0	0		G	177580502	G	G	177580502	3	3	130	1	0	0	0	0	1	0	0	0	10428	690	24	5	253	5	NHP2	5	177580502	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	686207	177580502	3334758	181	71827											
ADAMTS2	9509	broad.mit.edu	37	chr5	178634644	178634644	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcctgcgtgccctccgcCtcgagctgttggcgtgctcc	2	10	12	17	4	0	0	0	0	0	0	3	1	2	0	5	1	5	3	5	1	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:178634644C>G	uc003mjw.2	-	4	761	c.761G>C	c.(760-762)AGG>ACG	p.R254T	ADAMTS2_uc011dgm.1_Missense_Mutation_p.R254T	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	254					collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		TGCCCTCCGCCTCGAGCTGTT	0.652													11	88					0	0	0.010729	0	0		G	178634644	G	G	178634644	3	3	130	1	0	0	0	0	1	0	0	0	265	681	24	5	3025	5	ADAMTS2	5	178634644	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1054142	178634644	2280616	182	71828											
FLT4	2324	broad.mit.edu	37	chr5	180057790	180057790	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccaagcccactcgaggggGtgctgtcccctggcagagga	7	5	16	13	1	0	1	0	0	0	1	2	3	1	2	4	5	2	2	4	5	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:180057790G>A	uc003mma.3	-	3	244	c.165C>T	c.(163-165)CAC>CAT	p.H55H	FLT4_uc003mlz.3_Silent_p.H55H|FLT4_uc003mmb.1_5'Flank|FLT4_uc011dgy.1_Silent_p.H55H|FLT4_uc011dgz.1_Silent_p.H55H|FLT4_uc011dha.1_Silent_p.H55H	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	55	Ig-like C2-type 1.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	ACTCGAGGGGGTGCTGTCCCC	0.692									Congenital_Hereditary_Lymphedema				8	20					0	0	0.006214	0	0		A	180057790	A	A	180057790	2	1	130	1	0	0	0	0	0	0	0	1	5958	1252	44	4		4	FLT4	5	180057790	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1423146	180057790	857470	183	71829											
MGAT1	4245	broad.mit.edu	37	chr5	180219900	180219900	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcgtccagaagaagaggagCagcagggcattccaggccac	12	3	14	12	2	0	3	0	0	0	3	2	4	2	4	3	3	2	3	3	3	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr5:180219900C>G	uc003mmg.3	-	2	567	c.72G>C	c.(70-72)CTG>CTC	p.L24L	MGAT1_uc010jlf.2_Silent_p.L24L|MGAT1_uc010jlg.2_Silent_p.L24L|MGAT1_uc003mmh.3_Silent_p.L24L|MGAT1_uc010jlh.2_Silent_p.L24L|MGAT1_uc003mmi.3_Silent_p.L24L	NM_002406	NP_002397	P26572	MGAT1_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	24	Helical; Signal-anchor for type II membrane protein; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(1)	1	all_cancers(89;1.11e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.0027)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00356)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGAAGAGGAGCAGCAGGGCAT	0.667													6	9					0	0	0.001168	0	0		G	180219900	G	G	180219900	2	3	130	1	0	0	0	0	0	0	0	1	9560	697	25	5		5	MGAT1	5	180219900	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	162110	180219900	695360	184	71830											
TUBB2A	7280	broad.mit.edu	37	chr6	3154817	3154817	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cggaagcagatgtcatacagGgcctcgttatcaatggagta	12	9	12	8	2	2	1	2	0	0	1	3	3	2	3	1	3	2	3	1	3	5	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:3154817G>C	uc003mvc.2	-	4	704	c.618C>G	c.(616-618)GCC>GCG	p.A206A	TUBB2A_uc003mvb.2_Silent_p.A199A|TUBB2A_uc003mvd.2_Silent_p.A169A	NM_001069	NP_001060	Q13885	TBB2A_HUMAN	tubulin, beta 2	206					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			skin(1)	1	Ovarian(93;0.0386)	all_hematologic(90;0.0895)				TGTCATACAGGGCCTCGTTAT	0.597													63	100					0	0	0.01441	0	0		C	3154817	C	C	3154817	2	2	130	1	0	0	0	0	0	0	0	1	16780	1219	43	5		5	TUBB2A	6	3154817	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08		3154817	167960250	185	71831											
HIVEP1	3096	broad.mit.edu	37	chr6	12125636	12125636	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catccacatcattaactcttAcagttcgaagttcacctgct	11	13	4	13	1	3	0	2	0	1	0	5	1	4	0	2	0	3	3	2	0	3	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:12125636A>C	uc003nac.2	+	4	5787	c.5608A>C	c.(5608-5610)ACA>CCA	p.T1870P	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1870					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				ATTAACTCTTACAGTTCGAAG	0.348													11	52					0	0	0.008291	0	0		C	12125636	C	C	12125636	3	2	130	1	0	0	0	0	1	0	0	0	7202	391	14	5	5618	5	HIVEP1	6	12125636	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	8970819	12125636	158989431	186	71832											
TPMT	7172	broad.mit.edu	37	chr6	18149277	18149277	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacccacttgtcttgccattCttccagagttagtacttggt	7	15	7	12	0	2	1	0	0	2	1	3	1	3	1	3	1	2	2	3	1	2	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:18149277C>G	uc003ncm.2	-	2	237	c.82G>C	c.(82-84)GAA>CAA	p.E28Q	TPMT_uc010jpm.1_Missense_Mutation_p.E28Q	NM_000367	NP_000358	P51580	TPMT_HUMAN	thiopurine S-methyltransferase	28					xenobiotic metabolic process	cytosol	thiopurine S-methyltransferase activity				0	Ovarian(93;0.016)|Breast(50;0.0245)	all_hematologic(90;0.146)	all cancers(50;0.06)|Epithelial(50;0.0654)		Mercaptopurine(DB01033)	TCTTGCCATTCTTCCAGAGTT	0.388													38	197					0	0	0.007835	0	0		G	18149277	G	G	18149277	3	3	130	1	0	0	0	0	1	0	0	0	16435	922	32	5	687	5	TPMT	6	18149277	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	6023641	18149277	152965790	187	71833											
DCDC2	51473	broad.mit.edu	37	chr6	24289091	24289091	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatacttacactccctttagActttctggatcctacaatag	11	14	5	11	0	1	1	0	0	1	1	3	3	3	2	2	1	3	0	2	1	6	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:24289091A>G	uc003ndx.2	-	6	1050	c.748T>C	c.(748-750)TCT>CCT	p.S250P	DCDC2_uc003ndy.2_Missense_Mutation_p.S250P	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	250					cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				CTCCCTTTAGACTTTCTGGAT	0.343													4	31					0	0	0.001168	0	0		G	24289091	G	G	24289091	3	3	130	1	0	0	0	0	1	0	0	0	4288	275	10	3	702	3	DCDC2	6	24289091	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	6139814	24289091	146825976	188	71834											
SLC17A4	10050	broad.mit.edu	37	chr6	25769239	25769239	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttcagtccgacatgggctgGccctcatcttgcagctctgt	5	12	11	13	1	4	0	2	0	2	0	5	1	5	0	2	2	2	4	2	2	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:25769239G>T	uc003nfe.2	+	3	237	c.118G>T	c.(118-120)GCC>TCC	p.A40S	SLC17A4_uc011djx.1_Missense_Mutation_p.A40S|SLC17A4_uc003nff.1_5'UTR|SLC17A4_uc003nfg.2_5'UTR	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),	40					phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						ACATGGGCTGGCCCTCATCTT	0.463													28	48					4.02929e-09	4.45103e-09	0.010818	1	0		T	25769239	T	T	25769239	3	4	130	1	0	0	0	0	1	0	0	0	14444	1203	42	5	124	5	SLC17A4	6	25769239	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1480148	25769239	145345828	189	71835											
SLC17A2	10246	broad.mit.edu	37	chr6	25916075	25916075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcttgcagcagcaataaaagGcagggaggacagaactccac	15	4	12	10	0	0	1	0	0	0	1	1	3	1	3	1	3	4	5	1	3	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:25916075G>A	uc011dkb.1	-	8	1035	c.952C>T	c.(952-954)CCT>TCT	p.P318S	SLC17A2_uc011dkc.1_Missense_Mutation_p.P318S|SLC17A2_uc003nfl.2_Missense_Mutation_p.P318S			O00624	NPT3_HUMAN	SubName: Full=Solute carrier family 17 (Sodium phosphate), member 2, isoform CRA_b; SubName: Full=Putative uncharacterized protein SLC17A2;	318	Helical; (Potential).				phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			ovary(1)	1						GCAATAAAAGGCAGGGAGGAC	0.428													13	20					0	0	0.013537	0	0		A	25916075	A	A	25916075	3	1	130	1	0	0	0	0	1	0	0	0	14442	1203	42	2	370	2	SLC17A2	6	25916075	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	146836	25916075	145198992	190	71836											
HIST1H3J	8356	broad.mit.edu	37	chr6	27858481	27858481	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacaccgccagtcgctggAgcgcttttgcgcgctgcctt	4	11	11	15	5	1	0	1	0	0	0	2	1	1	1	3	1	3	3	3	1	0	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:27858481A>C	uc003nka.2	-	1	90	c.90T>G	c.(88-90)GCT>GCG	p.A30A	HIST1H2BO_uc003nkc.1_5'Flank	NM_003535	NP_003526	P68431	H31_HUMAN	histone cluster 1, H3j	30					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1						CAGTCGCTGGAGCGCTTTTGC	0.632													8	74					0	0	0.00308	0	0		C	27858481	C	C	27858481	2	2	130	1	0	0	0	0	0	0	0	1	7180	291	11	5		5	HIST1H3J	6	27858481	Silent	SNP	A	TCGA-CG-4437-01A-01D-1800-08	1942406	27858481	143256586	191	71837											
GPX6	257202	broad.mit.edu	37	chr6	28472173	28472173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agggactccatcgggccccaCcagaaatttctcaaagttcc	11	8	8	14	1	1	1	1	0	1	1	5	2	3	2	5	2	0	1	5	2	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:28472173C>T	uc011dlj.1	-	6	612	c.562G>A	c.(562-564)GTG>ATG	p.V188M	GPX6_uc010jrg.1_RNA	NM_182701	NP_874360	P59796	GPX6_HUMAN	glutathione peroxidase 6 precursor	188					response to oxidative stress	extracellular region	glutathione peroxidase activity			ovary(3)|pancreas(1)|skin(1)	5					Glutathione(DB00143)	TCGGGCCCCACCAGAAATTTC	0.527													26	64					0	0	0.003954	0	0		T	28472173	T	T	28472173	3	4	130	1	0	0	0	0	1	0	0	0	6760	507	18	4	107	4	GPX6	6	28472173	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	613692	28472173	142642894	192	71838											
TRIM40	135644	broad.mit.edu	37	chr6	30114861	30114861	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctcagcagtggctgggcCagctggagcacatgccagca	8	6	13	14	0	1	0	1	0	0	0	2	1	2	1	3	3	5	5	3	3	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:30114861C>G	uc003npk.2	+	4	927	c.541C>G	c.(541-543)CAG>GAG	p.Q181E	TRIM40_uc003npm.2_Missense_Mutation_p.Q152E	NM_138700	NP_619645	Q6P9F5	TRI40_HUMAN	tripartite motif-containing 40	181						intracellular	zinc ion binding			ovary(1)	1						GTGGCTGGGCCAGCTGGAGCA	0.607													15	23					0	0	0.00245	0	0		G	30114861	G	G	30114861	3	3	130	1	0	0	0	0	1	0	0	0	16541	595	21	5	464	5	TRIM40	6	30114861	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1642688	30114861	141000206	193	71839											
TNXB	7148	broad.mit.edu	37	chr6	32065796	32065796	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctccttccactgtgtgctcGtaaagctgagaagaggggct	8	10	12	11	1	0	2	0	1	0	2	3	3	2	2	3	2	2	4	3	2	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:32065796G>A	uc003nzl.2	-	2	382	c.180C>T	c.(178-180)TAC>TAT	p.Y60Y	TNXB_uc010jts.1_Silent_p.Y59Y|ATF6B_uc003nzm.1_3'UTR	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	60					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CTGTGTGCTCGTAAAGCTGAG	0.657													3	37					0	0	0.009096	0	0		A	32065796	A	A	32065796	2	1	130	1	0	0	0	0	0	0	0	1	16371	1140	40	1		1	TNXB	6	32065796	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1950935	32065796	139049271	194	71840											
UHRF1BP1	54887	broad.mit.edu	37	chr6	34825517	34825517	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagttccttgtcctaatctCtacattcagttaaatggtct	9	16	5	11	0	3	0	1	0	2	0	6	0	5	0	3	1	1	2	3	1	4	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:34825517C>T	uc003oju.3	+	13	1824	c.1590C>T	c.(1588-1590)CTC>CTT	p.L530L	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_5'Flank	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	530										ovary(3)	3						GTCCTAATCTCTACATTCAGT	0.398													19	130					0	0	0.012319	0	0		T	34825517	T	T	34825517	2	4	130	1	0	0	0	0	0	0	0	1	16994	900	32	4		4	UHRF1BP1	6	34825517	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2759721	34825517	136289550	195	71841											
SCUBE3	222663	broad.mit.edu	37	chr6	35199608	35199608	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcttcttcctcagcgacaaCcagcatacctgtatccagcg	9	9	8	15	2	2	0	1	0	1	0	4	1	4	0	4	1	5	3	4	1	3	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:35199608C>G	uc003okf.1	+	4	447	c.441C>G	c.(439-441)AAC>AAG	p.N147K	SCUBE3_uc003okg.1_Missense_Mutation_p.N147K|SCUBE3_uc003okh.1_Missense_Mutation_p.N18K	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	147	EGF-like 3; calcium-binding (Potential).				protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						TCAGCGACAACCAGCATACCT	0.622													9	48					0	0	0.006214	0	0		G	35199608	G	G	35199608	3	3	130	1	0	0	0	0	1	0	0	0	13971	506	18	5	455	5	SCUBE3	6	35199608	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	374091	35199608	135915459	196	71842											
SLC26A8	116369	broad.mit.edu	37	chr6	35980070	35980070	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taagtctcccagaagccaatCctttaatcgatacatacaca	15	10	4	12	1	1	1	0	0	1	1	4	2	2	1	3	0	3	0	3	0	6	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:35980070C>A	uc003olm.2	-	3	379	c.268G>T	c.(268-270)GAT>TAT	p.D90Y	SLC26A8_uc003oln.2_Missense_Mutation_p.D90Y|SLC26A8_uc003oll.2_Missense_Mutation_p.D90Y	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	90	Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						AGAAGCCAATCCTTTAATCGA	0.458													93	136					4.21773e-46	4.99718e-46	0.01441	1	0		A	35980070	A	A	35980070	3	1	130	1	0	0	0	0	1	0	0	0	14548	855	30	5	2716	5	SLC26A8	6	35980070	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	780462	35980070	135134997	197	71843											
BRPF3	27154	broad.mit.edu	37	chr6	36169369	36169369	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atggagaggaggaagaagagGaagaggtggaggaagaagag	18	2	21	0	0	0	6	0	0	0	6	0	12	0	11	0	7	0	0	0	7	5	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:36169369G>A	uc003olv.3	+	2	1494	c.1270G>A	c.(1270-1272)GAA>AAA	p.E424K	BRPF3_uc010jwb.2_Missense_Mutation_p.E424K|BRPF3_uc011dtj.1_RNA|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Missense_Mutation_p.E424K	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	424	Glu-rich.				histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						ggaagaagaggaagaggtgga	0.448													9	16					0	0	0.004482	0	0		A	36169369	A	A	36169369	3	1	130	1	0	0	0	0	1	0	0	0	1524	1175	41	4	1272	4	BRPF3	6	36169369	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	189299	36169369	134945698	198	71844											
FOXP4	116113	broad.mit.edu	37	chr6	41558042	41558042	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatgagttctacaagaacgCcgacgtccggccccccttca	9	8	8	16	4	3	2	2	1	1	1	4	3	4	2	5	1	2	1	5	1	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:41558042C>A	uc003oql.2	+	12	1849	c.1391C>A	c.(1390-1392)GCC>GAC	p.A464D	FOXP4_uc003oqm.2_Missense_Mutation_p.A462D|FOXP4_uc003oqn.2_Missense_Mutation_p.A451D	NM_001012426	NP_001012426	Q8IVH2	FOXP4_HUMAN	forkhead box P4 isoform 1	464			A -> T (in a breast cancer sample; somatic mutation).		embryonic foregut morphogenesis|heart development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					TACAAGAACGCCGACGTCCGG	0.622													51	128					1.38909e-20	1.62061e-20	0.01441	1	0		A	41558042	A	A	41558042	3	1	130	1	0	0	0	0	1	0	0	0	6043	739	26	5	1433	5	FOXP4	6	41558042	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	5388673	41558042	129557025	199	71845											
SRF	6722	broad.mit.edu	37	chr6	43141605	43141605	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcctatgagctgtccacgctGacagggacacaggtgctgtt	8	9	13	11	1	0	2	0	2	0	0	1	3	1	3	2	2	2	4	2	2	1	2	rs142020494	byFrequency	TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:43141605G>A	uc003oui.2	+	2	1009	c.534G>A	c.(532-534)CTG>CTA	p.L178L	SRF_uc011dvf.1_5'UTR	NM_003131	NP_003122	P11831	SRF_HUMAN	serum response factor (c-fos serum response	178	MADS-box.||Involved in dimerization.				angiogenesis involved in wound healing|cell migration involved in sprouting angiogenesis|cellular senescence|heart looping|muscle cell homeostasis|neuron development|positive regulation of cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of smooth muscle cell differentiation|response to cytokine stimulus|response to hormone stimulus|response to toxin|transcription from RNA polymerase II promoter|trophectodermal cell differentiation	endoplasmic reticulum	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			ovary(1)|breast(1)|central_nervous_system(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.011)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			TGTCCACGCTGACAGGGACAC	0.522													21	62					0	0	0.00278	0	0		A	43141605	A	A	43141605	2	1	130	1	0	0	0	0	0	0	0	1	15168	1277	45	4		4	SRF	6	43141605	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1583563	43141605	127973462	200	71846											
TDRD6	221400	broad.mit.edu	37	chr6	46658338	46658338	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaaacacccttgcttgtttgGctaagcgaacagtaaacaga	14	9	9	9	1	0	1	0	0	0	1	0	3	0	1	1	1	5	4	1	1	5	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:46658338G>C	uc003oyj.2	+	1	2473	c.2473G>C	c.(2473-2475)GCT>CCT	p.A825P	TDRD6_uc010jze.2_Missense_Mutation_p.A819P	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	825	Tudor 4.				cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			TGCTTGTTTGGCTAAGCGAAC	0.413													8	84					0	0	0.00308	0	0		C	46658338	C	C	46658338	3	2	130	1	0	0	0	0	1	0	0	0	15759	1203	42	5	2475	5	TDRD6	6	46658338	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3516733	46658338	124456729	201	71847											
MEP1A	4224	broad.mit.edu	37	chr6	46801255	46801255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcatggtgttcactacctCgaagtcgcacacatctccag	11	9	8	13	2	2	0	1	0	1	0	5	1	2	0	2	1	2	3	2	1	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:46801255C>T	uc010jzh.1	+	11	1631	c.1589C>T	c.(1588-1590)TCG>TTG	p.S530L	MEP1A_uc011dwg.1_Missense_Mutation_p.S252L|MEP1A_uc011dwh.1_Missense_Mutation_p.S558L|MEP1A_uc011dwi.1_Missense_Mutation_p.S430L	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	530	MATH.|Extracellular (Potential).				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			TTCACTACCTCGAAGTCGCAC	0.522													12	136					0	0	0.013537	0	0		T	46801255	T	T	46801255	3	4	130	1	0	0	0	0	1	0	0	0	9493	893	31	1	1631	1	MEP1A	6	46801255	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	142917	46801255	124313812	202	71848											
PKHD1	5314	broad.mit.edu	37	chr6	51640698	51640698	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaagcttttgttcctttTctaagggattttctaaagta	10	18	7	6	0	3	1	1	0	2	1	4	2	4	2	1	1	1	3	1	1	5	10			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:51640698T>C	uc003pah.1	-	54	8738	c.8462A>G	c.(8461-8463)GAA>GGA	p.E2821G	PKHD1_uc010jzn.1_Missense_Mutation_p.E804G|PKHD1_uc003pai.2_Missense_Mutation_p.E2821G	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2821	G8 2.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TTGTTCCTTTTCTAAGGGATT	0.338													25	67					0	0	0.00333	0	0		C	51640698	C	C	51640698	3	2	130	1	0	0	0	0	1	0	0	0	11990	1783	62	3	3857	3	PKHD1	6	51640698	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	4839443	51640698	119474369	203	71849											
GSTA5	221357	broad.mit.edu	37	chr6	52696671	52696671	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgaaaatcttccttgctTcttctaaagatttctcatcc	10	16	3	12	0	4	2	1	1	4	1	7	2	6	2	3	0	1	1	3	0	4	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:52696671T>A	uc003pba.1	-	7	714	c.644A>T	c.(643-645)GAA>GTA	p.E215V		NM_153699	NP_714543	Q7RTV2	GSTA5_HUMAN	glutathione S-transferase alpha 5	215					glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity	p.E215K(1)		ovary(1)	1	Lung NSC(77;0.0912)				Glutathione(DB00143)	CTTCCTTGCTTCTTCTAAAGA	0.453													29	108					0	0	0.00632	0	0		A	52696671	A	A	52696671	3	1	130	1	0	0	0	0	1	0	0	0	6850	1783	62	5	28	5	GSTA5	6	52696671	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1055973	52696671	118418396	204	71850											
KIAA1586	57691	broad.mit.edu	37	chr6	56917860	56917860	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaggaatggattgcatattTagtaacccctaatggcagta	14	11	9	7	0	0	0	0	0	0	0	0	2	0	2	2	3	2	4	2	3	7	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:56917860T>C	uc003pdj.2	+	4	733	c.563T>C	c.(562-564)TTA>TCA	p.L188S	KIAA1586_uc011dxm.1_Missense_Mutation_p.L161S	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	188							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			ATTGCATATTTAGTAACCCCT	0.378													8	62					0	0	0.006214	0	0		C	56917860	C	C	56917860	3	2	130	1	0	0	0	0	1	0	0	0	8261	1764	61	3	577	3	KIAA1586	6	56917860	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	4221189	56917860	114197207	205	71851											
LGSN	51557	broad.mit.edu	37	chr6	63989980	63989980	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctatttcttcattctcCaactcatatttcttcatggc	8	17	4	12	0	6	0	3	0	3	0	7	0	6	0	1	1	2	2	1	1	3	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:63989980C>G	uc003peh.2	-	4	1510	c.1476G>C	c.(1474-1476)TTG>TTC	p.L492F	LGSN_uc003pei.2_3'UTR	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	492					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	CTTCATTCTCCAACTCATATT	0.353													23	65					0	0	0.014323	0	0		G	63989980	G	G	63989980	3	3	130	1	0	0	0	0	1	0	0	0	8775	593	21	5	57	5	LGSN	6	63989980	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	7072120	63989980	107125087	206	71852											
COL19A1	1310	broad.mit.edu	37	chr6	70812095	70812095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaggacctcccggaaaacCaggacccccaggaccacctg	13	2	9	17	1	0	0	0	0	0	0	1	4	1	4	7	4	2	0	7	4	3	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:70812095C>T	uc003pfc.1	+	16	1376	c.1259C>T	c.(1258-1260)CCA>CTA	p.P420L	COL19A1_uc010kam.1_Missense_Mutation_p.P316L	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	420	Triple-helical region 2 (COL2).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CCCGGAAAACCAGGACCCCCA	0.388													14	47					0	0	0.003163	0	0		T	70812095	T	T	70812095	3	4	130	1	0	0	0	0	1	0	0	0	3679	594	21	4	1317	4	COL19A1	6	70812095	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	6822115	70812095	100302972	207	71853											
GJA1	2697	broad.mit.edu	37	chr6	121768639	121768639	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcatcatcttcatgctggtgGtgtccttggtgtccctggcc	3	15	11	12	0	4	0	3	0	1	0	6	0	6	0	3	4	1	1	3	4	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:121768639G>C	uc003pyr.2	+	2	896	c.646G>C	c.(646-648)GTG>CTG	p.V216L	GJA1_uc011ebo.1_Missense_Mutation_p.V117L|GJA1_uc011ebp.1_Missense_Mutation_p.V4L	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	216	Helical; (Potential).		V -> L (in ODDD).		cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	CATGCTGGTGGTGTCCTTGGT	0.488													23	175					0	0	0.004656	0	0		C	121768639	C	C	121768639	3	2	130	1	0	0	0	0	1	0	0	0	6415	1261	44	5	648	5	GJA1	6	121768639	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	50956544	121768639	49346428	208	71854											
LAMA2	3908	broad.mit.edu	37	chr6	129371152	129371152	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacctgaaatgtactgcAaattggtagaacatgtccct	14	10	9	8	0	0	2	0	1	0	1	1	3	1	3	2	2	3	3	2	2	6	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:129371152A>T	uc003qbn.2	+	2	307	c.202A>T	c.(202-204)AAA>TAA	p.K68*	LAMA2_uc003qbo.2_Nonsense_Mutation_p.K68*	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	68	Laminin N-terminal.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		AATGTACTGCAAATTGGTAGA	0.433													14	65					0	0	0.001855	0	0		T	129371152	T	T	129371152	4	4	130	1	0	0	0	0	0	1	0	0	8622	131	5	5	208	5	LAMA2	6	129371152	Nonsense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	7602513	129371152	41743915	209	71855											
LAMA2	3908	broad.mit.edu	37	chr6	129465225	129465225	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccccattgtcaccagaagAgtaagttatgatgaatcata	15	10	8	8	0	2	4	2	2	0	2	2	5	2	4	3	0	0	2	3	0	5	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:129465225A>T	uc003qbn.2	+	5	924	c.819A>T	c.(817-819)AGA>AGT	p.R273S	LAMA2_uc003qbo.2_Missense_Mutation_p.R273S	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	273	Laminin N-terminal.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TCACCAGAAGAGTAAGTTATG	0.368													17	35					0	0	0.008871	0	0		T	129465225	T	T	129465225	3	4	130	1	0	0	0	0	1	0	0	0	8622	318	11	5	837	5	LAMA2	6	129465225	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	94073	129465225	41649842	210	71856											
MED23	9439	broad.mit.edu	37	chr6	131919758	131919758	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttccagagaagacaaagaaaGagaggaggggagccctgcat	16	4	14	7	0	0	4	0	0	0	4	1	8	1	6	2	3	2	1	2	3	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:131919758G>C	uc003qcs.1	-	19	2538	c.2364C>G	c.(2362-2364)CTC>CTG	p.L788L	MED23_uc003qcq.2_Silent_p.L794L|MED23_uc011eca.1_Silent_p.L429L|MED23_uc003qct.1_Silent_p.L794L	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	788					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		GACAAAGAAAGAGAGGAGGGG	0.388													10	61					0	0	0.008291	0	0		C	131919758	C	C	131919758	2	2	130	1	0	0	0	0	0	0	0	1	9459	929	33	5		5	MED23	6	131919758	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2454533	131919758	39195309	211	71857											
MED23	9439	broad.mit.edu	37	chr6	131944588	131944588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagtgtcagagtttatcaggGattcacaaaccagcctataa	14	10	9	8	0	3	1	3	0	0	1	3	3	3	2	2	1	2	1	2	1	4	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:131944588G>A	uc003qcs.1	-	5	473	c.299C>T	c.(298-300)TCC>TTC	p.S100F	MED23_uc003qcq.2_Missense_Mutation_p.S100F|MED23_uc003qct.1_Missense_Mutation_p.S100F|MED23_uc011ecb.1_RNA	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	100					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		GTTTATCAGGGATTCACAAAC	0.358													14	58					0	0	0.003163	0	0		A	131944588	A	A	131944588	3	1	130	1	0	0	0	0	1	0	0	0	9459	1174	41	4	3936	4	MED23	6	131944588	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	24830	131944588	39170479	212	71858											
KIAA1244	57221	broad.mit.edu	37	chr6	138583879	138583879	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatgcatcaagggtggcaTcgaagcttgctatgcagccg	10	8	13	10	2	1	0	1	0	0	0	2	1	1	0	1	2	6	6	1	2	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:138583879T>G	uc003qhu.2	+	12	1259	c.1259T>G	c.(1258-1260)ATC>AGC	p.I420S		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	420					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		AAGGGTGGCATCGAAGCTTGC	0.493													20	154					0	0	0.012319	0	0		G	138583879	G	G	138583879	3	3	130	1	0	0	0	0	1	0	0	0	8233	1435	50	5	1305	5	KIAA1244	6	138583879	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	6639291	138583879	32531188	213	71859											
GRM1	2911	broad.mit.edu	37	chr6	146755717	146755717	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaacacggaagaagacgaaCtggaagaggaggaggaggac	17	1	18	5	2	0	3	0	0	0	3	0	11	0	10	0	7	2	0	0	7	5	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:146755717C>T	uc010khw.1	+	9	3840	c.3370C>T	c.(3370-3372)CTG>TTG	p.L1124L	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	1124	Asp/Glu-rich (acidic).|Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	AGAAGACGAACTGGAAGAGGA	0.642													10	112					0	0	0.008291	0	0		T	146755717	T	T	146755717	2	4	130	1	0	0	0	0	0	0	0	1	6812	564	20	4		4	GRM1	6	146755717	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	8171838	146755717	24359350	214	71860											
MTHFD1L	25902	broad.mit.edu	37	chr6	151203921	151203921	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atagatgaaatcttaaagatCaatgaagataccagagtaca	20	9	7	5	0	2	6	1	2	1	4	2	6	2	6	1	0	2	1	1	0	8	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:151203921C>T	uc003qob.2	+	5	709	c.441C>T	c.(439-441)ATC>ATT	p.I147I	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Silent_p.I147I|MTHFD1L_uc003qoc.2_Silent_p.I94I|MTHFD1L_uc003qoa.1_Silent_p.I147I|MTHFD1L_uc010kil.1_RNA	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	147	Methylenetetrahydrofolate dehydrogenase and cyclohydrolase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		TCTTAAAGATCAATGAAGATA	0.323													12	21					0	0	0.001855	0	0		T	151203921	T	T	151203921	2	4	130	1	0	0	0	0	0	0	0	1	9946	816	29	4		4	MTHFD1L	6	151203921	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	4448204	151203921	19911146	215	71861											
SYNE1	23345	broad.mit.edu	37	chr6	152650897	152650897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggcttcctggatgtctcCatccagctctgagagctcag	8	11	10	12	0	3	1	1	1	2	1	6	3	5	2	3	2	2	3	3	2	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:152650897C>T	uc010kiw.2	-	78	15525	c.14923G>A	c.(14923-14925)GGA>AGA	p.G4975R	SYNE1_uc003qot.3_Missense_Mutation_p.G4904R|SYNE1_uc003qou.3_Missense_Mutation_p.G4975R|SYNE1_uc010kiz.2_Missense_Mutation_p.G730R	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4975	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TGGATGTCTCCATCCAGCTCT	0.463										HNSCC(10;0.0054)			37	90					0	0	0.003755	0	0		T	152650897	T	T	152650897	3	4	130	1	0	0	0	0	1	0	0	0	15470	603	21	4	11819	4	SYNE1	6	152650897	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1446976	152650897	18464170	216	71862											
SYNE1	23345	broad.mit.edu	37	chr6	152712632	152712632	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagctgggaacacaggcggCcctcctgcccagcaccgtgg	7	4	15	15	2	0	0	0	0	0	0	1	2	1	2	4	5	4	2	4	5	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:152712632C>A	uc010kiw.2	-	52	8386	c.7784G>T	c.(7783-7785)GGC>GTC	p.G2595V	SYNE1_uc003qot.3_Missense_Mutation_p.G2602V|SYNE1_uc003qou.3_Missense_Mutation_p.G2595V|SYNE1_uc010kjb.1_Missense_Mutation_p.G2578V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2595	Cytoplasmic (Potential).|Spectrin 5.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		ACACAGGCGGCCCTCCTGCCC	0.502										HNSCC(10;0.0054)			22	37					1.22574e-08	1.34969e-08	0.014323	1	0		A	152712632	A	A	152712632	3	1	130	1	0	0	0	0	1	0	0	0	15470	739	26	5	19062	5	SYNE1	6	152712632	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	61735	152712632	18402435	217	71863											
SYNE1	23345	broad.mit.edu	37	chr6	152841659	152841659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcatggattcgcttcatccGgcgtccttgttcacaaggct	7	12	10	12	3	2	0	2	0	0	0	5	1	4	1	2	3	1	4	2	3	1	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:152841659G>A	uc010kiw.2	-	6	846	c.244C>T	c.(244-246)CGG>TGG	p.R82W	SYNE1_uc003qot.3_Missense_Mutation_p.R82W|SYNE1_uc003qou.3_Missense_Mutation_p.R82W|SYNE1_uc010kjb.1_Missense_Mutation_p.R82W|SYNE1_uc003qpa.1_Missense_Mutation_p.R82W	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	82	Actin-binding.|Cytoplasmic (Potential).|CH 1.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CGCTTCATCCGGCGTCCTTGT	0.393										HNSCC(10;0.0054)			47	91					0	0	0.01441	0	0		A	152841659	A	A	152841659	3	1	130	1	0	0	0	0	1	0	0	0	15470	1115	39	1	26811	1	SYNE1	6	152841659	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	129027	152841659	18273408	218	71864											
PARK2	5071	broad.mit.edu	37	chr6	161969977	161969977	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacagccagggcgggggcatAacacgccccccatctgcagg	9	3	13	16	2	1	0	0	0	1	0	1	0	1	0	4	4	3	2	4	4	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:161969977A>T	uc003qtx.3	-	9	1126	c.992T>A	c.(991-993)TTA>TAA	p.L331*	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Nonsense_Mutation_p.L140*|PARK2_uc003qtw.3_Nonsense_Mutation_p.L140*|PARK2_uc003qty.3_Nonsense_Mutation_p.L303*|PARK2_uc003qtz.3_Nonsense_Mutation_p.L182*|PARK2_uc010kke.1_Nonsense_Mutation_p.L350*|PARK2_uc011egf.1_Nonsense_Mutation_p.L5*	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	331	IBR-type.				aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GCGGGGGCATAACACGCCCCC	0.597													12	50					0	0	0.010729	0	0		T	161969977	T	T	161969977	4	4	130	1	0	0	0	0	0	1	0	0	11468	372	13	5	421	5	PARK2	6	161969977	Nonsense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	9128318	161969977	9145090	219	71865											
RPS6KA2	6196	broad.mit.edu	37	chr6	166883360	166883360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcacaaagaagggatggCgcttaatttcctccactccg	10	10	10	11	2	1	1	1	0	0	1	4	2	4	2	3	3	0	1	3	3	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr6:166883360C>T	uc003qvb.1	-	11	1160	c.941G>A	c.(940-942)CGC>CAC	p.R314H	RPS6KA2_uc011ego.1_Missense_Mutation_p.R225H|RPS6KA2_uc010kkl.1_Missense_Mutation_p.R225H|RPS6KA2_uc003qvc.1_Missense_Mutation_p.R322H|RPS6KA2_uc003qvd.1_Missense_Mutation_p.R339H	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	314	Protein kinase 1.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		GAAGGGATGGCGCTTAATTTC	0.502													13	52					0	0	0.001855	0	0		T	166883360	T	T	166883360	3	4	130	1	0	0	0	0	1	0	0	0	13676	768	27	1	1304	1	RPS6KA2	6	166883360	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	4913383	166883360	4231707	220	71866											
COL28A1	340267	broad.mit.edu	37	chr7	7555464	7555464	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtcacccttgtacccaGgaattccctaatttaaaaag	12	12	5	12	0	1	0	1	0	0	0	2	1	2	1	4	1	1	1	4	1	6	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:7555464G>T	uc003src.1	-	8	980	c.863C>A	c.(862-864)CCT>CAT	p.P288H	COL28A1_uc011jxe.1_Translation_Start_Site|COL28A1_uc003srd.2_Translation_Start_Site	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	288					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		CTTGTACCCAGGAATTCCCTA	0.284													21	121					8.24728e-16	9.44514e-16	0.004656	1	0		T	7555464	T	T	7555464	3	4	130	1	0	0	0	0	1	0	0	0	3689	1000	35	5	2626	5	COL28A1	7	7555464	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08		7555464	151583199	221	71867											
PRPS1L1	221823	broad.mit.edu	37	chr7	18067192	18067192	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcaggcattaatcatgaTcaaaagctccattagactgt	13	12	7	9	0	2	2	2	1	0	1	3	2	3	2	1	1	2	3	1	1	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:18067192T>A	uc003stz.2	-	1	295	c.214A>T	c.(214-216)ATC>TTC	p.I72F		NM_175886	NP_787082	P21108	PRPS3_HUMAN	phosphoribosyl pyrophosphate synthetase 1-like	72					nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			ovary(1)	1	Lung NSC(10;0.0385)|all_lung(11;0.0736)					TTAATCATGATCAAAAGCTCC	0.488													95	325					0	0	0.01441	0	0		A	18067192	A	A	18067192	3	1	130	1	0	0	0	0	1	0	0	0	12601	1435	50	5	746	5	PRPS1L1	7	18067192	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	10511728	18067192	141071471	222	71868											
GPNMB	10457	broad.mit.edu	37	chr7	23286540	23286540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagattgccacttgatgccGccaaacgtgagtaaccctta	12	9	8	12	2	0	3	0	2	0	1	0	3	0	3	4	0	4	1	4	0	4	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:23286540G>A	uc003swc.2	+	1	225	c.64G>A	c.(64-66)GCC>ACC	p.A22T	GPNMB_uc003swa.2_Missense_Mutation_p.A22T|GPNMB_uc003swb.2_Missense_Mutation_p.A22T|GPNMB_uc011jyy.1_Missense_Mutation_p.A22T|GPNMB_uc011jyz.1_Missense_Mutation_p.A22T	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	22	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			ACTTGATGCCGCCAAACGTGA	0.448													6	159					0	0	0.001168	0	0		A	23286540	A	A	23286540	3	1	130	1	0	0	0	0	1	0	0	0	6635	1087	38	1	66	1	GPNMB	7	23286540	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	5219348	23286540	135852123	223	71869											
GPNMB	10457	broad.mit.edu	37	chr7	23296606	23296606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggccaaagccatcataacGtcttccctgatgggaaacct	11	8	8	14	2	2	1	1	1	1	0	3	2	3	2	5	2	3	0	5	2	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:23296606G>A	uc003swc.2	+	4	624	c.463G>A	c.(463-465)GTC>ATC	p.V155I	GPNMB_uc003swa.2_Missense_Mutation_p.V155I|GPNMB_uc003swb.2_Missense_Mutation_p.V155I|GPNMB_uc011jyy.1_Intron|GPNMB_uc011jyz.1_Missense_Mutation_p.V56I	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	155	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			CCATCATAACGTCTTCCCTGA	0.483													23	120					0	0	0.00278	0	0		A	23296606	A	A	23296606	3	1	130	1	0	0	0	0	1	0	0	0	6635	1145	40	1	477	1	GPNMB	7	23296606	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	10066	23296606	135842057	224	71870											
GPNMB	10457	broad.mit.edu	37	chr7	23307588	23307588	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagctccctaatagactttGtcgtgacctgccaagggagg	11	9	11	10	1	0	2	0	1	0	1	2	3	1	3	3	2	2	1	3	2	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:23307588G>C	uc003swc.2	+	8	1398	c.1237G>C	c.(1237-1239)GTC>CTC	p.V413L	GPNMB_uc003swb.2_Missense_Mutation_p.V401L|GPNMB_uc011jyy.1_Missense_Mutation_p.V355L|GPNMB_uc011jyz.1_Missense_Mutation_p.V302L	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	413	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			AATAGACTTTGTCGTGACCTG	0.493													37	157					0	0	0.003271	0	0		C	23307588	C	C	23307588	3	2	130	1	0	0	0	0	1	0	0	0	6635	1377	48	5	1267	5	GPNMB	7	23307588	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	10982	23307588	135831075	225	71871											
IGF2BP3	10643	broad.mit.edu	37	chr7	23385595	23385595	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtgtctgtgtcttgctcaAtttttttaagatttcttcct	6	22	6	7	0	4	1	1	0	3	1	5	1	5	1	1	0	1	1	1	0	3	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:23385595A>T	uc003swg.2	-	8	1171	c.905T>A	c.(904-906)ATT>AAT	p.I302N	IGF2BP3_uc003swf.2_Translation_Start_Site	NM_006547	NP_006538	O00425	IF2B3_HUMAN	insulin-like growth factor 2 mRNA binding	302	KH 2.				anatomical structure morphogenesis|negative regulation of translation|translation	cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			ovary(2)	2						GTCTTGCTCAATTTTTTTAAG	0.348													36	55					0	0	0.004878	0	0		T	23385595	T	T	23385595	3	4	130	1	0	0	0	0	1	0	0	0	7591	101	4	5	866	5	IGF2BP3	7	23385595	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	78007	23385595	135753068	226	71872											
HERPUD2	64224	broad.mit.edu	37	chr7	35673968	35673968	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattttgcccatcattgttaActtcggcattattgttggga	8	17	8	8	1	1	0	1	0	0	0	2	1	1	1	1	2	2	3	1	2	2	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:35673968A>C	uc003tet.2	-	7	1818	c.1013T>G	c.(1012-1014)GTT>GGT	p.V338G	HERPUD2_uc003tes.3_Missense_Mutation_p.V338G	NM_022373	NP_071768	Q9BSE4	HERP2_HUMAN	HERPUD family member 2	338					response to unfolded protein	integral to membrane				ovary(3)	3						ATCATTGTTAACTTCGGCATT	0.383													14	45					0	0	0.00245	0	0		C	35673968	C	C	35673968	3	2	130	1	0	0	0	0	1	0	0	0	7080	43	2	5	215	5	HERPUD2	7	35673968	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	12288373	35673968	123464695	227	71873											
ABCA13	154664	broad.mit.edu	37	chr7	48321025	48321025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaaagtgaagatgatggtcGtacgtgtgctcaccatcgtt	11	11	12	7	3	1	4	1	2	0	2	3	4	1	4	1	1	2	3	1	1	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:48321025G>A	uc003toq.2	+	19	8837	c.8812G>A	c.(8812-8814)GTA>ATA	p.V2938I	ABCA13_uc010kys.1_Missense_Mutation_p.V12I	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2938					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GATGATGGTCGTACGTGTGCT	0.463													3	13					0	0	0.004672	0	0		A	48321025	A	A	48321025	3	1	130	1	0	0	0	0	1	0	0	0	31	1145	40	1	8715	1	ABCA13	7	48321025	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	12647057	48321025	110817638	228	71874											
ABCA13	154664	broad.mit.edu	37	chr7	48494772	48494772	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacctgctgctgccagtccTcttcgtggccttggccatgg	3	11	12	15	2	1	0	0	0	1	0	3	1	2	0	5	3	3	2	5	3	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:48494772T>A	uc003toq.2	+	43	12729	c.12704T>A	c.(12703-12705)CTC>CAC	p.L4235H	ABCA13_uc010kys.1_Missense_Mutation_p.L1309H|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4235	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CTGCCAGTCCTCTTCGTGGCC	0.687													3	7					0	0	0.004672	0	0		A	48494772	A	A	48494772	3	1	130	1	0	0	0	0	1	0	0	0	31	1551	54	5	12703	5	ABCA13	7	48494772	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	173747	48494772	110643891	229	71875											
ABCA13	154664	broad.mit.edu	37	chr7	48559761	48559761	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgacctgacccacaacttcgGcattgattcctatgtgagtc	9	12	8	12	1	0	4	0	4	0	0	3	4	1	4	3	1	1	1	3	1	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:48559761G>T	uc003toq.2	+	53	13947	c.13922G>T	c.(13921-13923)GGC>GTC	p.G4641V	ABCA13_uc010kys.1_Missense_Mutation_p.G1716V|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Missense_Mutation_p.G371V	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4641					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CACAACTTCGGCATTGATTCC	0.463													8	46					0.000157383	0.000163583	0.00308	1	0		T	48559761	T	T	48559761	3	4	130	1	0	0	0	0	1	0	0	0	31	1203	42	5	13961	5	ABCA13	7	48559761	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	64989	48559761	110578902	230	71876											
GTF2IRD1	9569	broad.mit.edu	37	chr7	73973284	73973284	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catcgaggggctgcccccagGaatcccgttccgaaagccct	8	6	11	16	3	0	0	0	0	0	0	3	3	2	1	5	3	2	2	5	3	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:73973284G>T	uc003uaq.2	+	21	2639	c.2246G>T	c.(2245-2247)GGA>GTA	p.G749V	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.G766V|GTF2IRD1_uc003uap.2_Missense_Mutation_p.G734V|GTF2IRD1_uc003uar.1_Missense_Mutation_p.G734V	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	749	GTF2I-like 4.					nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CTGCCCCCAGGAATCCCGTTC	0.587													29	78					3.73148e-12	4.21712e-12	0.007291	1	0		T	73973284	T	T	73973284	3	4	130	1	0	0	0	0	1	0	0	0	6884	1174	41	5	2324	5	GTF2IRD1	7	73973284	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	25413523	73973284	85165379	231	71877											
ABCB4	5244	broad.mit.edu	37	chr7	87092195	87092195	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggtacccagcgacataaaCaatttatcctgccaatcgga	14	9	7	11	2	0	0	0	0	0	0	2	2	1	1	3	2	4	1	3	2	6	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:87092195C>A	uc003uiv.1	-	4	241	c.165G>T	c.(163-165)TTG>TTT	p.L55F	ABCB4_uc003uiw.1_Missense_Mutation_p.L55F|ABCB4_uc003uix.1_Missense_Mutation_p.L55F|ABCB4_uc003uiy.2_Missense_Mutation_p.L55F	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	55	Helical; (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					GCGACATAAACAATTTATCCT	0.373													9	28					0.000673444	0.000695757	0.008291	1	0		A	87092195	A	A	87092195	3	1	130	1	0	0	0	0	1	0	0	0	43	477	17	5	3795	5	ABCB4	7	87092195	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	13118911	87092195	72046468	232	71878											
ZNF804B	219578	broad.mit.edu	37	chr7	88956755	88956755	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagcacttaaacgacttcAtcagctggctgagttaaggc	14	9	9	9	1	2	1	2	1	0	0	2	2	2	1	0	2	3	4	0	2	5	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:88956755A>G	uc011khi.1	+	3	885	c.347A>G	c.(346-348)CAT>CGT	p.H116R		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	116						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AAACGACTTCATCAGCTGGCT	0.383										HNSCC(36;0.09)			20	49					0	0	0.008871	0	0		G	88956755	G	G	88956755	3	3	130	1	0	0	0	0	1	0	0	0	18196	217	8	3	357	3	ZNF804B	7	88956755	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	1864560	88956755	70181908	233	71879											
KRIT1	889	broad.mit.edu	37	chr7	91871404	91871404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actggcagtattctttggacGaataacagcaacatatgcat	14	11	8	8	1	1	0	0	0	1	0	1	2	1	1	0	2	4	4	0	2	5	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:91871404G>A	uc003ulq.1	-	2	217	c.46C>T	c.(46-48)CGT>TGT	p.R16C	KRIT1_uc010lev.1_5'Flank|KRIT1_uc003ulr.1_Missense_Mutation_p.R16C|KRIT1_uc003uls.1_Missense_Mutation_p.R16C|KRIT1_uc003ult.1_Missense_Mutation_p.R16C|KRIT1_uc003ulu.1_Missense_Mutation_p.R16C|KRIT1_uc003ulv.1_Missense_Mutation_p.R16C	NM_194456	NP_919438	O00522	KRIT1_HUMAN	krev interaction trapped 1 isoform 1	16					angiogenesis|cell redox homeostasis|negative regulation of angiogenesis|negative regulation of endothelial cell apoptosis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|regulation of establishment of cell polarity|small GTPase mediated signal transduction	cell-cell junction|cytoskeleton	protein binding|small GTPase regulator activity			ovary(2)|lung(1)	3	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTCTTTGGACGAATAACAGCA	0.303									Familial_Cerebral_Cavernous_Angioma				25	171					0	0	0.00632	0	0		A	91871404	A	A	91871404	3	1	130	1	0	0	0	0	1	0	0	0	8461	1058	37	1	2228	1	KRIT1	7	91871404	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2914649	91871404	67267259	234	71880											
CALCR	799	broad.mit.edu	37	chr7	93108743	93108743	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatcatcttctttcgtcctAcgacgtaaagaaatggcttg	10	13	7	11	3	3	1	1	0	2	1	5	2	4	1	2	1	1	2	2	1	4	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:93108743A>C	uc003umv.1	-	4	443	c.182T>G	c.(181-183)GTA>GGA	p.V61G	CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.V43G|CALCR_uc003umw.2_Missense_Mutation_p.V43G	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	43	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	CTTTCGTCCTACGACGTAAAG	0.403													42	132					0	0	0.009718	0	0		C	93108743	C	C	93108743	3	2	130	1	0	0	0	0	1	0	0	0	2582	391	14	5	1392	5	CALCR	7	93108743	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	1237339	93108743	66029920	235	71881											
ASB4	51666	broad.mit.edu	37	chr7	95165756	95165756	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcctctgcaggtgatacAggcctgccattcttgtccta	6	13	9	13	0	2	1	0	1	2	0	4	1	4	1	4	2	3	2	4	2	2	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:95165756A>G	uc011kij.1	+	4	986	c.986A>G	c.(985-987)CAG>CGG	p.Q329R		NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	329					intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			CAGGTGATACAGGCCTGCCAT	0.428													10	32					0	0	0.008291	0	0		G	95165756	G	G	95165756	3	3	130	1	0	0	0	0	1	0	0	0	1026	188	7	3	1072	3	ASB4	7	95165756	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	2057013	95165756	63972907	236	71882											
ZAN	7455	broad.mit.edu	37	chr7	100350051	100350051	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccccagaaaaactcaccAtccccacagaaaaacccacc	16	4	2	19	0	2	2	1	0	1	2	4	2	3	2	7	0	2	0	7	0	4	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:100350051A>T	uc003uwj.2	+	14	2488	c.2323A>T	c.(2323-2325)ATC>TTC	p.I775F	ZAN_uc003uwk.2_Missense_Mutation_p.I775F|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	775	66 X heptapeptide repeats (approximate) (mucin-like domain).|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AAAACTCACCATCCCCACAGA	0.532													37	63					0	0	0.004289	0	0		T	100350051	T	T	100350051	3	4	130	1	0	0	0	0	1	0	0	0	17539	217	8	5	2373	5	ZAN	7	100350051	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	5184295	100350051	58788612	237	71883											
ZAN	7455	broad.mit.edu	37	chr7	100386946	100386946	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgactttgagctggtcgtcaGctttggtggaaggaaaaatg	10	11	14	6	2	1	1	1	1	0	0	2	4	1	3	0	4	2	2	0	4	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:100386946G>C	uc003uwj.2	+	40	7499	c.7334G>C	c.(7333-7335)AGC>ACC	p.S2445T	ZAN_uc003uwk.2_Missense_Mutation_p.S2445T|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.S495T	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2445	VWFD 4.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CTGGTCGTCAGCTTTGGTGGA	0.532													22	59					0	0	0.014323	0	0		C	100386946	C	C	100386946	3	2	130	1	0	0	0	0	1	0	0	0	17539	971	34	5	7483	5	ZAN	7	100386946	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	36895	100386946	58751717	238	71884											
MOGAT3	346606	broad.mit.edu	37	chr7	100843711	100843711	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttgggtgtgtcccagtcCacatagagccacaccaagta	10	9	11	11	0	0	1	0	0	0	1	2	1	2	1	4	2	1	2	4	2	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:100843711C>G	uc003uyc.2	-	2	362	c.195G>C	c.(193-195)GTG>GTC	p.V65V	MOGAT3_uc010lhr.2_Silent_p.V65V	NM_178176	NP_835470	Q86VF5	MOGT3_HUMAN	monoacylglycerol O-acyltransferase 3	65	Helical; (Potential).				glycerol metabolic process|lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity|diacylglycerol O-acyltransferase activity			ovary(2)	2	Lung NSC(181;0.168)|all_lung(186;0.215)					TGTCCCAGTCCACATAGAGCC	0.592													9	14					0	0	0.004482	0	0		G	100843711	G	G	100843711	2	3	130	1	0	0	0	0	0	0	0	1	9714	581	21	5		5	MOGAT3	7	100843711	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	456765	100843711	58294952	239	71885											
LHFPL3	375612	broad.mit.edu	37	chr7	104377251	104377251	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccgctgggcatacatccTggctattattggaattttgg	8	14	11	8	1	0	0	0	0	0	0	2	1	2	1	2	4	1	3	2	4	4	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:104377251T>C	uc003vce.2	+	2	699	c.575T>C	c.(574-576)CTG>CCG	p.L192P	LHFPL3_uc003vcf.2_Missense_Mutation_p.L192P	NM_199000	NP_945351	Q86UP9	LHPL3_HUMAN	lipoma HMGIC fusion partner-like 3	178	Helical; (Potential).					integral to membrane					0						GCATACATCCTGGCTATTATT	0.473													14	30					0	0	0.00245	0	0		C	104377251	C	C	104377251	3	2	130	1	0	0	0	0	1	0	0	0	8782	1580	55	3	581	3	LHFPL3	7	104377251	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	3533540	104377251	54761412	240	71886											
MLL5	55904	broad.mit.edu	37	chr7	104753013	104753013	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacagttccaggacaccacGtgactccagggcattttttg	11	10	9	11	1	0	1	0	1	0	0	2	2	2	2	3	2	1	2	3	2	1	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:104753013G>C	uc003vcm.2	+	27	5344	c.4810G>C	c.(4810-4812)GTG>CTG	p.V1604L	MLL5_uc010ljc.2_Missense_Mutation_p.V1604L|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Missense_Mutation_p.V338L	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1604	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						AGGACACCACGTGACTCCAGG	0.527													52	112					0	0	0.01441	0	0		C	104753013	C	C	104753013	3	2	130	1	0	0	0	0	1	0	0	0	9642	1145	40	5	4908	5	MLL5	7	104753013	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	375762	104753013	54385650	241	71887											
IMMP2L	83943	broad.mit.edu	37	chr7	111127338	111127338	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtacttcaaaattcctcacTttccagtggttcaaaagcac	12	13	5	11	0	3	0	3	0	0	0	5	0	5	0	2	1	2	3	2	1	5	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:111127338T>A	uc003vfq.1	-	3	638	c.195A>T	c.(193-195)AAA>AAT	p.K65N	IMMP2L_uc010ljr.1_Missense_Mutation_p.K65N|IMMP2L_uc003vfr.2_Missense_Mutation_p.K65N	NM_032549	NP_115938	Q96T52	IMP2L_HUMAN	IMP2 inner mitochondrial membrane protease-like	65					protein processing involved in protein targeting to mitochondrion|proteolysis	integral to membrane|mitochondrial inner membrane peptidase complex|nucleus	serine-type peptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)		AATTCCTCACTTTCCAGTGGT	0.363													29	78					0	0	0.013726	0	0		A	111127338	A	A	111127338	3	1	130	1	0	0	0	0	1	0	0	0	7733	1606	56	5	348	5	IMMP2L	7	111127338	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	6374325	111127338	48011325	242	71888											
TRIM24	8805	broad.mit.edu	37	chr7	138252371	138252371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaaccccctacagatggCtttcttggctcaacaagcca	11	8	7	15	0	2	1	1	0	1	1	2	1	2	1	4	2	4	2	4	2	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:138252371C>T	uc003vuc.2	+	10	1891	c.1676C>T	c.(1675-1677)GCT>GTT	p.A559V	TRIM24_uc003vub.2_Missense_Mutation_p.A525V	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	559					cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						CTACAGATGGCTTTCTTGGCT	0.408													21	50					0	0	0.00278	0	0		T	138252371	T	T	138252371	3	4	130	1	0	0	0	0	1	0	0	0	16524	797	28	2	1714	2	TRIM24	7	138252371	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	27125033	138252371	20886292	243	71889											
ATP6V0A4	50617	broad.mit.edu	37	chr7	138453928	138453928	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attggcttacggaggattctCtccagtgattcacaccttct	8	14	8	11	1	3	1	1	1	2	0	5	3	4	3	2	3	1	1	2	3	1	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:138453928C>G	uc003vuf.2	-	3	424	c.186G>C	c.(184-186)GAG>GAC	p.E62D	ATP6V0A4_uc003vug.2_Missense_Mutation_p.E62D|ATP6V0A4_uc003vuh.2_Missense_Mutation_p.E62D	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	62	Cytoplasmic (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						GGAGGATTCTCTCCAGTGATT	0.353													8	88					0	0	0.004482	0	0		G	138453928	G	G	138453928	3	3	130	1	0	0	0	0	1	0	0	0	1171	912	32	5	2412	5	ATP6V0A4	7	138453928	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	201557	138453928	20684735	244	71890											
CHPF2	54480	broad.mit.edu	37	chr7	150934818	150934818	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaatgtgtgacacagcgtgGgcaccggcgggccctggctc	6	6	17	12	3	0	1	0	1	0	0	1	2	0	2	2	5	1	2	2	5	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:150934818G>C	uc003wjr.1	+	4	2883	c.1370G>C	c.(1369-1371)GGG>GCG	p.G457A	CHPF2_uc003wjq.1_Missense_Mutation_p.G449A|MIR671_hsa-mir-671|MI0003760_5'Flank	NM_019015	NP_061888	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	457	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(1)	1						ACACAGCGTGGGCACCGGCGG	0.642													6	44					0	0	0.001984	0	0		C	150934818	C	C	150934818	3	2	130	1	0	0	0	0	1	0	0	0	3372	1232	43	5	1384	5	CHPF2	7	150934818	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	12480890	150934818	8203845	245	71891											
ACTR3B	57180	broad.mit.edu	37	chr7	152517527	152517527	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaccgcaaaagccattaaGgtaaaaacagatgggaaacc	19	4	10	8	1	0	2	0	0	0	2	0	4	0	3	3	2	3	2	3	2	7	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr7:152517527G>T	uc003wle.1	+	7	801	c.684G>T	c.(682-684)AAG>AAT	p.K228N	ACTR3B_uc003wlf.1_Missense_Mutation_p.K228N|ACTR3B_uc003wlg.1_Missense_Mutation_p.K140N|ACTR3B_uc011kvp.1_Missense_Mutation_p.K140N	NM_020445	NP_065178	Q9P1U1	ARP3B_HUMAN	actin-related protein 3-beta isoform 1	228					regulation of actin filament polymerization	cell projection|cytoplasm|cytoskeleton	actin binding|ATP binding				0		all_hematologic(28;0.0592)|Prostate(32;0.191)	OV - Ovarian serous cystadenocarcinoma(82;0.0287)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0434)		AAGCCATTAAGGTAAAAACAG	0.517													6	6					2.74318e-10	3.06486e-10	0.006214	1	0		T	152517527	T	T	152517527	3	4	130	1	0	0	0	0	1	0	0	0	213	1014	35	5	710	5	ACTR3B	7	152517527	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1582709	152517527	6621136	246	71892											
ERICH1	157697	broad.mit.edu	37	chr8	618699	618699	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgtggtacaggatggacAcgtctgagggcagcatgctg	9	9	15	8	1	2	1	1	1	1	0	2	3	2	3	0	4	3	4	0	4	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:618699A>T	uc003wph.2	-	5	1222	c.1157T>A	c.(1156-1158)GTG>GAG	p.V386E	ERICH1_uc011kwh.1_Missense_Mutation_p.V386E|ERICH1_uc003wpe.1_Missense_Mutation_p.V292E|ERICH1_uc003wpi.2_Missense_Mutation_p.V198E	NM_207332	NP_997215	Q86X53	ERIC1_HUMAN	glutamate-rich 1	386										large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		CAGGATGGACACGTCTGAGGG	0.547													4	46					0	0	0.000602	0	0		T	618699	T	T	618699	3	4	130	1	0	0	0	0	1	0	0	0	5238	159	6	5	182	5	ERICH1	8	618699	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08		618699	145745323	247	71893											
LZTS1	11178	broad.mit.edu	37	chr8	20107748	20107748	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcagctccaggccctccaGcttgccccgcgtgtccttca	4	9	8	20	2	2	0	2	0	0	0	5	0	5	0	7	1	3	2	7	1	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:20107748G>A	uc003wzr.2	-	3	1387	c.1276C>T	c.(1276-1278)CTG>TTG	p.L426L	LZTS1_uc010ltg.1_Silent_p.L426L	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	426					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		AGGCCCTCCAGCTTGCCCCGC	0.637													21	56					0	0	0.010504	0	0		A	20107748	A	A	20107748	2	1	130	1	0	0	0	0	0	0	0	1	9156	962	34	2		2	LZTS1	8	20107748	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	19489049	20107748	126256274	248	71894											
XPO7	23039	broad.mit.edu	37	chr8	21842211	21842211	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggtccagcagcagttggaCcagctgtccaccattgggcg	7	8	13	13	1	0	0	0	0	0	0	2	1	2	1	4	3	3	4	4	3	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:21842211C>G	uc003xaa.3	+	12	1434	c.1332C>G	c.(1330-1332)GAC>GAG	p.D444E	XPO7_uc010lti.2_Missense_Mutation_p.D453E|XPO7_uc010ltk.2_Missense_Mutation_p.D445E	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	444				Missing (in Ref. 3; BAA34465).	mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		AGCAGTTGGACCAGCTGTCCA	0.537													6	16					0	0	0.001168	0	0		G	21842211	G	G	21842211	3	3	130	1	0	0	0	0	1	0	0	0	17475	506	18	5	1430	5	XPO7	8	21842211	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1734463	21842211	124521811	249	71895											
FAM160B2	64760	broad.mit.edu	37	chr8	21959336	21959336	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acttcctccgagtgctgtttGaccgcatgtcccggattctg	5	13	10	13	3	1	1	0	1	1	0	4	3	4	2	4	1	1	3	4	1	0	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:21959336G>C	uc011kyx.1	+	14	1876	c.1825G>C	c.(1825-1827)GAC>CAC	p.D609H	FAM160B2_uc011kyy.1_RNA	NM_022749	NP_073586	Q86V87	F16B2_HUMAN	retinoic acid induced 16	609											0						AGTGCTGTTTGACCGCATGTC	0.642													4	18					0	0	0.009096	0	0		C	21959336	C	C	21959336	3	2	130	1	0	0	0	0	1	0	0	0	5482	1290	45	5	1678	5	FAM160B2	8	21959336	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	117125	21959336	124404686	250	71896											
LGI3	203190	broad.mit.edu	37	chr8	22006340	22006340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctaggtcgttaggcttgCgcacgcgctgcgggtcaatg	5	11	14	11	5	2	0	1	0	1	0	3	0	2	0	0	3	2	4	0	3	3	4	rs143158388	by1000genomes	TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:22006340C>T	uc003xav.2	-	8	1269	c.980G>A	c.(979-981)CGC>CAC	p.R327H	LGI3_uc010ltu.2_Missense_Mutation_p.R303H	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	327	EAR 3.				exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		GTTAGGCTTGCGCACGCGCTG	0.617													5	28					0	0	0.000602	0	0		T	22006340	T	T	22006340	3	4	130	1	0	0	0	0	1	0	0	0	8769	768	27	1	670	1	LGI3	8	22006340	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	47004	22006340	124357682	251	71897											
C8orf58	541565	broad.mit.edu	37	chr8	22458487	22458487	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctgcccacgggtgctcaTcctgggagagaggtgacaag	9	6	15	11	2	1	2	1	1	0	1	2	4	2	3	2	3	2	2	2	3	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:22458487T>A	uc003xce.2	+	2	245	c.133T>A	c.(133-135)TCC>ACC	p.S45T	C8orf58_uc011kzl.1_Missense_Mutation_p.S45T|C8orf58_uc003xcf.2_Missense_Mutation_p.S45T	NM_001013842	NP_001013864	Q8NAV2	CH058_HUMAN	hypothetical protein LOC541565	45										skin(1)	1		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00563)|Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		CGGGTGCTCATCCTGGGAGAG	0.637													8	35					0	0	0.004482	0	0		A	22458487	A	A	22458487	3	1	130	1	0	0	0	0	1	0	0	0	2436	1435	50	5	139	5	C8orf58	8	22458487	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	452147	22458487	123905535	252	71898											
PTK2B	2185	broad.mit.edu	37	chr8	27278199	27278199	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accttcaaatccgctacttgCcagaagacttcatggagagc	12	9	8	12	1	2	3	2	0	0	3	3	4	3	3	3	1	3	1	3	1	3	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:27278199C>A	uc003xfn.1	+	9	1217	c.409C>A	c.(409-411)CCA>ACA	p.P137T	PTK2B_uc003xfo.1_Missense_Mutation_p.P137T|PTK2B_uc003xfp.1_Missense_Mutation_p.P137T|PTK2B_uc003xfq.1_Missense_Mutation_p.P137T	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	137	FERM.				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		CCGCTACTTGCCAGAAGACTT	0.498													15	98					5.35267e-07	5.71062e-07	0.007413	1	0		A	27278199	A	A	27278199	3	1	130	1	0	0	0	0	1	0	0	0	12786	739	26	5	419	5	PTK2B	8	27278199	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	4819712	27278199	119085823	253	71899											
CLU	1191	broad.mit.edu	37	chr8	27462624	27462624	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttgggaaagaagaagtgagGcctccggtggggcaggctga	10	6	18	7	1	0	4	0	2	0	2	1	5	1	5	2	6	0	2	2	6	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:27462624G>T	uc003xfw.1	-	4	704	c.646C>A	c.(646-648)CCT>ACT	p.P216T	CLU_uc010lux.1_Missense_Mutation_p.P81T|CLU_uc003xfx.1_Missense_Mutation_p.P216T|CLU_uc003xfy.1_Missense_Mutation_p.P227T|CLU_uc003xfz.1_Missense_Mutation_p.P268T	NM_203339	NP_976084	P10909	CLUS_HUMAN	clusterin isoform 2	216					chaperone-mediated protein folding|complement activation, classical pathway|innate immune response|lipid metabolic process|negative regulation of apoptosis|negative regulation of protein homooligomerization|platelet activation|platelet degranulation|positive regulation of NF-kappaB transcription factor activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|response to misfolded protein|response to virus|reverse cholesterol transport	chromaffin granule|cytosol|endoplasmic reticulum|microsome|mitochondrial membrane|nucleus|perinuclear region of cytoplasm|platelet alpha granule lumen|spherical high-density lipoprotein particle	misfolded protein binding|ubiquitin protein ligase binding			ovary(2)	2		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|Colorectal(74;0.132)		AAGAAGTGAGGCCTCCGGTGG	0.602													8	73					0.00307968	0.00314852	0.00308	1	0		T	27462624	T	T	27462624	3	4	130	1	0	0	0	0	1	0	0	0	3571	1203	42	5	723	5	CLU	8	27462624	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	184425	27462624	118901398	254	71900											
EXTL3	2137	broad.mit.edu	37	chr8	28574839	28574839	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggagagcgggaggaccgCttggaattgctgaagctctc	8	9	16	8	2	1	2	0	1	1	1	2	6	1	5	1	4	3	3	1	4	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:28574839C>G	uc003xgz.1	+	3	1856	c.1263C>G	c.(1261-1263)CGC>CGG	p.R421R		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	421	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		GGGAGGACCGCTTGGAATTGC	0.587													6	60					0	0	0.001168	0	0		G	28574839	G	G	28574839	2	3	130	1	0	0	0	0	0	0	0	1	5335	784	28	5		5	EXTL3	8	28574839	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1112215	28574839	117789183	255	71901											
ADAM2	2515	broad.mit.edu	37	chr8	39613329	39613329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcaaattccacagcaatgCagagatgtccacttatgttg	12	11	9	9	0	0	1	0	0	0	1	2	2	2	1	2	1	2	4	2	1	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:39613329C>T	uc003xnj.2	-	16	1790	c.1715G>A	c.(1714-1716)TGC>TAC	p.C572Y	ADAM2_uc003xnk.2_Missense_Mutation_p.C553Y|ADAM2_uc011lck.1_Intron|ADAM2_uc003xnl.2_Missense_Mutation_p.C416Y	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	572	Extracellular (Potential).|Cys-rich.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		CACAGCAATGCAGAGATGTCC	0.348													14	62					0	0	0.004007	0	0		T	39613329	T	T	39613329	3	4	130	1	0	0	0	0	1	0	0	0	241	710	25	2	512	2	ADAM2	8	39613329	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	11038490	39613329	106750693	256	71902											
FAM110B	90362	broad.mit.edu	37	chr8	59058842	59058842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagccggtcagccccgCgggcaccttcacctctgctg	5	7	13	16	3	3	1	2	1	1	0	3	1	3	1	5	3	3	2	5	3	1	1	rs140524173		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:59058842C>T	uc003xtj.1	+	5	933	c.53C>T	c.(52-54)GCG>GTG	p.A18V		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	18						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				GTCAGCCCCGCGGGCACCTTC	0.667													10	16					0	0	0.006214	0	0		T	59058842	T	T	59058842	3	4	130	1	0	0	0	0	1	0	0	0	5408	768	27	1	55	1	FAM110B	8	59058842	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	19445513	59058842	87305180	257	71903											
PREX2	80243	broad.mit.edu	37	chr8	69030851	69030851	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagcagccagtgcagctcGtatttccacagtgatgaaat	11	10	10	10	1	0	2	0	2	0	0	2	2	1	2	2	0	5	5	2	0	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:69030851G>C	uc003xxv.1	+	27	3420	c.3393G>C	c.(3391-3393)TCG>TCC	p.S1131S		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1131					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						AGTGCAGCTCGTATTTCCACA	0.433													5	162					0	0	0.001984	0	0		C	69030851	C	C	69030851	2	2	130	1	0	0	0	0	0	0	0	1	12499	1132	40	5		5	PREX2	8	69030851	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	9972009	69030851	77333171	258	71904											
PREX2	80243	broad.mit.edu	37	chr8	69033245	69033245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggaatcttcccagcagcGtccggactcttgctcagaac	8	10	9	14	2	3	1	1	0	2	1	5	3	5	3	2	2	4	2	2	2	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:69033245G>A	uc003xxv.1	+	30	3712	c.3685G>A	c.(3685-3687)GTC>ATC	p.V1229I		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1229					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TCCCAGCAGCGTCCGGACTCT	0.388													8	62					0	0	0.006214	0	0		A	69033245	A	A	69033245	3	1	130	1	0	0	0	0	1	0	0	0	12499	1145	40	1	4032	1	PREX2	8	69033245	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2394	69033245	77330777	259	71905											
MMP16	4325	broad.mit.edu	37	chr8	89339508	89339508	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccctctccctccctccctcGtttcctttcaaaaaaaagtc	8	13	2	18	1	2	0	1	0	1	0	9	0	6	0	5	0	0	1	5	0	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:89339508G>A	uc003yeb.3	-	1	210	c.-72C>T	c.(-74--70)AACGA>AATGA		MMP16_uc003yec.2_Translation_Start_Site	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1						collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						tccctccctcGTTTCCTTTCA	0.483													7	39					0	0	0.001984	0	0		A	89339508	A	A	89339508	1	1	130	1	0	0	0	0	0	0	0	0	9673	1160	40	1		1	MMP16	8	89339508	Translation_Start_Site	SNP	G	TCGA-CG-4437-01A-01D-1800-08	20306263	89339508	57024514	260	71906											
RGS22	26166	broad.mit.edu	37	chr8	101083727	101083727	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctactgtgaaattcatgccgGacttgctccatcttacttgt	8	15	7	11	1	2	1	1	1	1	0	3	2	3	2	2	1	4	1	2	1	3	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:101083727G>C	uc003yjb.1	-	6	659	c.464C>G	c.(463-465)TCC>TGC	p.S155C	RGS22_uc003yja.1_Intron|RGS22_uc003yjc.1_Missense_Mutation_p.S155C|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	155					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			ATTCATGCCGGACTTGCTCCA	0.378													16	70					0	0	0.007413	0	0		C	101083727	C	C	101083727	3	2	130	1	0	0	0	0	1	0	0	0	13330	1174	41	5	3418	5	RGS22	8	101083727	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	11744219	101083727	45280295	261	71907											
ABRA	137735	broad.mit.edu	37	chr8	107773616	107773616	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcgtaatcaaactcttcactGaaaggattgagcttctggga	12	12	9	8	1	4	2	2	2	2	0	5	4	4	4	0	2	2	2	0	2	3	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:107773616G>A	uc003ymm.3	-	2	849	c.795C>T	c.(793-795)TTC>TTT	p.F265F		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	265	Interaction with actin (By similarity).				positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			ACTCTTCACTGAAAGGATTGA	0.507													12	109					0	0	0.013537	0	0		A	107773616	A	A	107773616	2	1	130	1	0	0	0	0	0	0	0	1	100	1281	45	4		4	ABRA	8	107773616	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	6689889	107773616	38590406	262	71908											
CSMD3	114788	broad.mit.edu	37	chr8	113363439	113363439	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggataattccatcttcttAcaggtcctggcatacatgta	10	15	7	9	0	2	0	0	0	2	0	4	1	4	1	2	3	2	2	2	3	4	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:113363439A>T	uc003ynu.2	-	40	6449	c.6290T>A	c.(6289-6291)GTA>GAA	p.V2097E	CSMD3_uc003yns.2_Missense_Mutation_p.V1299E|CSMD3_uc003ynt.2_Missense_Mutation_p.V2057E|CSMD3_uc011lhx.1_Missense_Mutation_p.V1993E	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2097	Extracellular (Potential).|Sushi 11.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCATCTTCTTACAGGTCCTGG	0.299										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	154					0	0	0.001855	0	0		T	113363439	T	T	113363439	3	4	130	1	0	0	0	0	1	0	0	0	3949	391	14	5	4961	5	CSMD3	8	113363439	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	5589823	113363439	33000583	263	71909											
CSMD3	114788	broad.mit.edu	37	chr8	113662442	113662442	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggtttttttcgcatagaagGggctcttcatgactcaacct	8	15	9	9	1	3	2	2	1	1	1	4	2	3	2	1	3	1	3	1	3	3	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:113662442G>A	uc003ynu.2	-	19	3300	c.3141C>T	c.(3139-3141)CCC>CCT	p.P1047P	CSMD3_uc003yns.2_Silent_p.P319P|CSMD3_uc003ynt.2_Silent_p.P1007P|CSMD3_uc011lhx.1_Silent_p.P943P	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1047	Extracellular (Potential).|Sushi 5.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CGCATAGAAGGGGCTCTTCAT	0.408										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			49	69					0	0	0.01441	0	0		A	113662442	A	A	113662442	2	1	130	1	0	0	0	0	0	0	0	1	3949	1219	43	4		4	CSMD3	8	113662442	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	299003	113662442	32701580	264	71910											
COL14A1	7373	broad.mit.edu	37	chr8	121293176	121293176	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaggatttaagatgatggaAatgtttggtttggttgaaaa	13	16	12	0	0	0	3	0	2	0	1	0	5	0	5	0	4	0	3	0	4	5	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:121293176A>C	uc003yox.2	+	31	3967	c.3702A>C	c.(3700-3702)GAA>GAC	p.E1234D	COL14A1_uc003yoz.2_Missense_Mutation_p.E199D	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	1234	Nonhelical region (NC4).|TSP N-terminal.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			AGATGATGGAAATGTTTGGTT	0.284													4	32					0	0	0.009096	0	0		C	121293176	C	C	121293176	3	2	130	1	0	0	0	0	1	0	0	0	3674	11	1	5	3820	5	COL14A1	8	121293176	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	7630734	121293176	25070846	265	71911											
C8orf76	84933	broad.mit.edu	37	chr8	124251354	124251354	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagtcagcacttcaacatCatcactgctttctgtttctt	9	15	6	11	0	6	1	4	0	2	1	6	2	6	1	0	0	3	3	0	0	1	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:124251354C>A	uc003yqc.1	-	2	179	c.148G>T	c.(148-150)GAT>TAT	p.D50Y	C8orf76_uc003yqd.2_Missense_Mutation_p.D18Y	NM_032847	NP_116236	Q96K31	CH076_HUMAN	hypothetical protein LOC84933	50							binding			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			ACTTCAACATCATCACTGCTT	0.398													43	140					3.39706e-21	3.96998e-21	0.01441	1	0		A	124251354	A	A	124251354	3	1	130	1	0	0	0	0	1	0	0	0	2440	826	29	5	1014	5	C8orf76	8	124251354	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2958178	124251354	22112668	266	71912											
ADCY8	114	broad.mit.edu	37	chr8	131859736	131859736	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcaggttcttcaagggtatCgacttgtcaaaatcacacca	12	11	8	10	1	5	0	4	0	1	0	6	1	5	0	1	2	0	2	1	2	4	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:131859736C>T	uc003ytd.3	-	11	2692	c.2436G>A	c.(2434-2436)TCG>TCA	p.S812S	ADCY8_uc010mds.2_Intron	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	812					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TCAAGGGTATCGACTTGTCAA	0.348										HNSCC(32;0.087)			8	78					0	0	0.008291	0	0		T	131859736	T	T	131859736	2	4	130	1	0	0	0	0	0	0	0	1	300	871	31	1		1	ADCY8	8	131859736	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	7608382	131859736	14504286	267	71913											
COL22A1	169044	broad.mit.edu	37	chr8	139636017	139636017	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccatctctgccctctttGccttcttctccctgcaagag	4	16	5	16	0	4	1	0	0	4	1	7	1	5	1	4	0	3	1	4	0	1	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:139636017G>A	uc003yvd.2	-	52	4176	c.3729C>T	c.(3727-3729)GGC>GGT	p.G1243G	COL22A1_uc011ljo.1_Silent_p.G523G	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1243	Pro-rich.|Gly-rich.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			TGCCCTCTTTGCCTTCTTCTC	0.463										HNSCC(7;0.00092)			122	187					0	0	0.01441	0	0		A	139636017	A	A	139636017	2	1	130	1	0	0	0	0	0	0	0	1	3684	1306	46	2		2	COL22A1	8	139636017	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	7776281	139636017	6728005	268	71914											
FLJ43860	389690	broad.mit.edu	37	chr8	142446065	142446065	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaggagcaggggcaccatgCtctggtgcacctgggtccgc	6	7	16	12	1	1	0	0	0	1	0	2	1	2	1	3	5	3	5	3	5	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:142446065C>G	uc003ywi.2	-	28	3584	c.3503G>C	c.(3502-3504)AGC>ACC	p.S1168T	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	1168							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GGGCACCATGCTCTGGTGCAC	0.672													5	67					0	0	0.001168	0	0		G	142446065	G	G	142446065	3	3	130	1	0	0	0	0	1	0	0	0	5944	797	28	5	473	5	FLJ43860	8	142446065	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2810048	142446065	3917957	269	71915											
BAI1	575	broad.mit.edu	37	chr8	143558756	143558756	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctgcagtgcatggtgcCtgggatgagtggtcgccctg	4	10	15	12	1	1	1	0	1	1	0	2	2	1	2	3	3	3	2	3	3	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr8:143558756C>G	uc003ywm.2	+	5	1416	c.1233C>G	c.(1231-1233)GCC>GCG	p.A411A		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	411	Extracellular (Potential).|TSP type-1 3.				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					TGCATGGTGCCTGGGATGAGT	0.726													16	94					0	0	0.004007	0	0		G	143558756	G	G	143558756	2	3	130	1	0	0	0	0	0	0	0	1	1299	668	24	5		5	BAI1	8	143558756	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1112691	143558756	2805266	270	71916											
SMARCA2	6595	broad.mit.edu	37	chr9	2086906	2086906	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagctgactcaggtcttgaaCactcactatgtggcccccag	10	9	9	13	0	3	2	2	2	1	0	3	2	3	2	2	2	2	1	2	2	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:2086906C>A	uc003zhc.2	+	18	2703	c.2604C>A	c.(2602-2604)AAC>AAA	p.N868K	SMARCA2_uc003zhd.2_Missense_Mutation_p.N868K|SMARCA2_uc010mha.2_Intron	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	868	Helicase ATP-binding.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		AGGTCTTGAACACTCACTATG	0.522													30	83					9.80776e-20	1.14036e-19	0.00632	1	0		A	2086906	A	A	2086906	3	1	130	1	0	0	0	0	1	0	0	0	14794	477	17	5	2670	5	SMARCA2	9	2086906	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08		2086906	139126525	271	71917											
C9orf46	55848	broad.mit.edu	37	chr9	5431897	5431897	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaattattttaaaacatacCtgaagtcgagcattcataag	16	14	5	6	1	1	1	1	1	0	0	2	2	1	1	1	0	3	1	1	0	7	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:5431897C>T	uc003zjc.2	-	3	285	c.81G>A	c.(79-81)CAG>CAA	p.Q27Q	C9orf46_uc003zjd.2_Silent_p.Q27Q	NM_018465	NP_060935	Q9HBL7	CI046_HUMAN	hypothetical protein LOC55848	27						integral to membrane				ovary(1)	1	all_hematologic(13;0.158)	Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.00106)|Lung(218;0.125)		TAAAACATACCTGAAGTCGAG	0.303													8	43					0	0	0.006214	0	0		T	5431897	T	T	5431897	2	4	130	1	0	0	0	0	0	0	0	1	2487	695	24	4		4	C9orf46	9	5431897	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3344991	5431897	135781534	272	71918											
LINGO2	158038	broad.mit.edu	37	chr9	27949741	27949741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagtgaggctcaatggtgCgaagctgggcccccactata	10	7	14	10	1	1	1	1	1	0	0	1	3	1	2	2	4	2	2	2	4	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:27949741C>T	uc003zqu.1	-	2	1123	c.929G>A	c.(928-930)CGC>CAC	p.R310H	LINGO2_uc010mjf.1_Missense_Mutation_p.R310H|LINGO2_uc003zqv.1_Missense_Mutation_p.R310H	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	310	LRR 11.|Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		CTCAATGGTGCGAAGCTGGGC	0.527													9	120					0	0	0.006214	0	0		T	27949741	T	T	27949741	3	4	130	1	0	0	0	0	1	0	0	0	8832	768	27	1	895	1	LINGO2	9	27949741	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	22517844	27949741	113263690	273	71919											
DNAJB5	25822	broad.mit.edu	37	chr9	34993435	34993435	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gcctgtatgaccagtatgggGaggaaggtaagagggcagca	12	6	17	6	0	0	2	0	1	0	1	0	4	0	4	2	5	1	5	2	5	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:34993435G>C	uc003zvt.2	+	2	343	c.205G>C	c.(205-207)GAG>CAG	p.E69Q	DNAJB5_uc003zvs.2_Missense_Mutation_p.E103Q|DNAJB5_uc011los.1_Missense_Mutation_p.E141Q	NM_012266	NP_036398	O75953	DNJB5_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 5	69					protein folding|response to unfolded protein		heat shock protein binding|unfolded protein binding				0			LUSC - Lung squamous cell carcinoma(32;0.00575)			CCAGTATGGGGAGGAAGGTAA	0.562													52	96					0	0	0.01441	0	0		C	34993435	C	C	34993435	3	2	130	1	0	0	0	0	1	0	0	0	4629	1175	41	5	427	5	DNAJB5	9	34993435	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	7043694	34993435	106219996	274	71920											
FAM189A2	9413	broad.mit.edu	37	chr9	72006631	72006631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcacaccttcacaccagcgGggaggccccgagccgagagg	9	4	13	15	3	2	1	2	0	0	1	2	4	2	2	5	4	2	0	5	4	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:72006631G>A	uc010mon.1	+	11	1368	c.1264G>A	c.(1264-1266)GGG>AGG	p.G422R	FAM189A2_uc004ahg.2_Missense_Mutation_p.G422R|FAM189A2_uc010moo.1_Missense_Mutation_p.G159E	NM_001127608	NP_001121080	Q15884	F1892_HUMAN	chromosome 9 open reading frame 61 precursor	422						integral to membrane					0						CACACCAGCGGGGAGGCCCCG	0.677													8	52					0	0	0.004482	0	0		A	72006631	A	A	72006631	3	1	130	1	0	0	0	0	1	0	0	0	5527	1232	43	4	1302	4	FAM189A2	9	72006631	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	37013196	72006631	69206800	275	71921											
PRUNE2	158471	broad.mit.edu	37	chr9	79270385	79270385	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcacgccctcttcaaaGgggatgtccattcctacatc	9	10	7	15	1	3	0	2	0	1	0	6	1	5	1	3	2	2	1	3	2	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:79270385G>T	uc010mpk.2	-	10	8434	c.8310C>A	c.(8308-8310)CCC>CCA	p.P2770P	PRUNE2_uc011lsk.1_Silent_p.P19P|PRUNE2_uc011lsl.1_Silent_p.P34P|PRUNE2_uc011lsm.1_Silent_p.P34P|PRUNE2_uc004akj.3_Silent_p.P223P|PRUNE2_uc010mpl.1_Silent_p.P223P	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	2770					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CCTCTTCAAAGGGGATGTCCA	0.453													4	35					0.00909568	0.00927138	0.009096	1	0		T	79270385	T	T	79270385	2	4	130	1	0	0	0	0	0	0	0	1	12663	987	35	5		5	PRUNE2	9	79270385	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	7263754	79270385	61943046	276	71922											
VPS13A	23230	broad.mit.edu	37	chr9	79824435	79824435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatttccagtatccatattcGttatgaagatgatgtaagta	14	15	7	5	1	0	3	0	2	0	1	3	3	2	3	2	0	0	4	2	0	7	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:79824435G>A	uc004akr.2	+	6	742	c.482G>A	c.(481-483)CGT>CAT	p.R161H	VPS13A_uc004akp.3_Missense_Mutation_p.R161H|VPS13A_uc004akq.3_Missense_Mutation_p.R161H|VPS13A_uc004aks.2_Missense_Mutation_p.R161H	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	161			R -> H (in a colorectal cancer sample; somatic mutation).		Golgi to endosome transport|protein transport	intracellular	protein binding	p.R161H(1)		pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ATCCATATTCGTTATGAAGAT	0.274													3	28					0	0	0.004672	0	0		A	79824435	A	A	79824435	3	1	130	1	0	0	0	0	1	0	0	0	17215	1145	40	1	504	1	VPS13A	9	79824435	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	554050	79824435	61388996	277	71923											
OGN	4969	broad.mit.edu	37	chr9	95152246	95152246	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtagttgattttcagcaaGtgaaagttcttctaacagag	13	14	9	5	0	3	3	1	2	2	1	3	3	3	3	0	0	2	4	0	0	5	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:95152246G>C	uc004asa.2	-	5	755	c.520C>G	c.(520-522)CTT>GTT	p.L174V	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|OGN_uc004asb.2_Missense_Mutation_p.L174V|OGN_uc011ltx.1_Missense_Mutation_p.L192V	NM_014057	NP_054776	P20774	MIME_HUMAN	osteoglycin preproprotein	174	LRR 3.					extracellular space|proteinaceous extracellular matrix	growth factor activity				0						TTTTCAGCAAGTGAAAGTTCT	0.333													43	56					0	0	0.009718	0	0		C	95152246	C	C	95152246	3	2	130	1	0	0	0	0	1	0	0	0	10865	1029	36	5	388	5	OGN	9	95152246	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	15327811	95152246	46061185	278	71924											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112900351	112900351	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgactgtagaggaagctgaaGctgcggctttcggctcagaa	10	8	14	9	3	1	3	1	1	0	2	2	5	1	4	0	3	3	5	0	3	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:112900351G>T	uc004bei.2	+	9	3415	c.3223G>T	c.(3223-3225)GCT>TCT	p.A1075S	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.A843S|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.A843S|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.A653S|AKAP2_uc011lwi.1_Missense_Mutation_p.A701S|AKAP2_uc004bem.2_Missense_Mutation_p.A701S|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.A661S|AKAP2_uc011lwj.1_Missense_Mutation_p.A612S|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.A612S	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	612							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						GGAAGCTGAAGCTGCGGCTTT	0.512													11	46					1.61879e-10	1.8175e-10	0.013537	1	0		T	112900351	T	T	112900351	3	4	130	1	0	0	0	0	1	0	0	0	11429	971	34	5	2557	5	PALM2-AKAP2	9	112900351	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	17748105	112900351	28313080	279	71925											
OR1Q1	158131	broad.mit.edu	37	chr9	125377696	125377696	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcatcctggtggtcctccGgatcccctcagccaagggca	7	8	10	16	1	2	0	2	0	0	0	6	1	6	1	6	4	1	1	6	4	1	0	rs138056123		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:125377696G>A	uc011lyy.1	+	1	680	c.680G>A	c.(679-681)CGG>CAG	p.R227Q		NM_012364	NP_036496	Q15612	OR1Q1_HUMAN	olfactory receptor, family 1, subfamily Q,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTGGTCCTCCGGATCCCCTCA	0.537													20	123					0	0	0.008871	0	0		A	125377696	A	A	125377696	3	1	130	1	0	0	0	0	1	0	0	0	10990	1116	39	1	682	1	OR1Q1	9	125377696	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	12477345	125377696	15835735	280	71926											
NEK6	10783	broad.mit.edu	37	chr9	127089678	127089678	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagctcggtgaccttggTctgggccgcttcttcagctc	4	12	13	12	2	3	2	1	2	2	0	5	2	3	2	2	3	2	3	2	3	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:127089678T>C	uc004bog.2	+	7	725	c.576T>C	c.(574-576)GGT>GGC	p.G192G	NEK6_uc004bof.2_Silent_p.G210G|NEK6_uc004boh.2_Silent_p.G226G|NEK6_uc010mwj.2_Silent_p.G145G|NEK6_uc010mwk.2_Silent_p.G192G|NEK6_uc004boi.2_Silent_p.G192G	NM_014397	NP_055212	Q9HC98	NEK6_HUMAN	NIMA-related kinase 6 isoform 2	192	Protein kinase.				apoptosis|cell division|chromosome segregation|mitosis|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of mitotic metaphase/anaphase transition	cytoplasm|nucleus	ATP binding|kinesin binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|kidney(1)	3						GTGACCTTGGTCTGGGCCGCT	0.632													22	182					0	0	0.00333	0	0		C	127089678	C	C	127089678	2	2	130	1	0	0	0	0	0	0	0	1	10347	1654	58	3		3	NEK6	9	127089678	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1711982	127089678	14123753	281	71927											
OLFML2A	169611	broad.mit.edu	37	chr9	127572405	127572405	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcttggaccccggcgatcTctccgtgcaccgggagacca	6	7	12	16	5	1	1	0	0	1	1	4	4	2	2	5	3	1	2	5	3	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:127572405T>C	uc004bov.2	+	8	1786	c.1673T>C	c.(1672-1674)CTC>CCC	p.L558P	OLFML2A_uc004bow.2_Missense_Mutation_p.L344P	NM_182487	NP_872293	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A precursor	558	Olfactomedin-like.										0						CCCGGCGATCTCTCCGTGCAC	0.662													23	35					0	0	0.014323	0	0		C	127572405	C	C	127572405	3	2	130	1	0	0	0	0	1	0	0	0	10876	1551	54	3	1703	3	OLFML2A	9	127572405	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	482727	127572405	13641026	282	71928											
SH2D3C	10044	broad.mit.edu	37	chr9	130507127	130507127	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtcgctgcccactctcGgctgccacgcacgggaggct	5	7	12	17	4	2	0	1	0	1	0	4	1	2	1	2	3	2	4	2	3	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:130507127G>A	uc004bsc.2	-	7	1658	c.1516C>T	c.(1516-1518)CGA>TGA	p.R506*	SH2D3C_uc010mxo.2_Nonsense_Mutation_p.R346*|SH2D3C_uc004bry.2_Nonsense_Mutation_p.R348*|SH2D3C_uc004brz.3_Nonsense_Mutation_p.R152*|SH2D3C_uc011mak.1_Nonsense_Mutation_p.R152*|SH2D3C_uc004bsa.2_Nonsense_Mutation_p.R349*|SH2D3C_uc004bsb.2_Nonsense_Mutation_p.R438*	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a	506					JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						GCCCACTCTCGGCTGCCACGC	0.642													68	125					0	0	0.01441	0	0		A	130507127	A	A	130507127	4	1	130	1	0	0	0	0	0	1	0	0	14259	1124	39	1	1090	1	SH2D3C	9	130507127	Nonsense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2934722	130507127	10706304	283	71929											
GTF3C5	9328	broad.mit.edu	37	chr9	135926336	135926336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagtctgcactaaccccgtgGaccggaaggtggaggaggag	10	5	17	9	2	1	0	0	0	1	0	1	6	1	5	3	6	2	1	3	6	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:135926336G>A	uc004cci.3	+	4	1076	c.739G>A	c.(739-741)GAC>AAC	p.D247N	GTF3C5_uc010mzz.2_Missense_Mutation_p.D122N|GTF3C5_uc004ccj.3_Missense_Mutation_p.D247N	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	247						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		TAACCCCGTGGACCGGAAGGT	0.622													4	25					0	0	0.001168	0	0		A	135926336	A	A	135926336	3	1	130	1	0	0	0	0	1	0	0	0	6892	1174	41	4	753	4	GTF3C5	9	135926336	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	5419209	135926336	5287095	284	71930											
MAMDC4	158056	broad.mit.edu	37	chr9	139753255	139753255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcctctgccggccacccCagcctcctgcctccgcttct	3	8	8	22	3	2	0	0	0	2	0	4	1	4	0	9	1	4	1	9	1	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:139753255C>T	uc004cjs.2	+	23	2956	c.2906C>T	c.(2905-2907)CCA>CTA	p.P969L	MAMDC4_uc011mej.1_Missense_Mutation_p.P306L	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	1048	Extracellular (Potential).|MAM 6.				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		CCGGCCACCCCAGCCTCCTGC	0.567													4	27					0	0	0.001168	0	0		T	139753255	T	T	139753255	3	4	130	1	0	0	0	0	1	0	0	0	9222	594	21	4	2996	4	MAMDC4	9	139753255	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3826919	139753255	1460176	285	71931											
CACNA1B	774	broad.mit.edu	37	chr9	140773521	140773521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgcactccattcgagtatatGatcctggccaccatcatcgc	9	10	7	15	3	1	1	1	1	0	0	5	2	3	1	4	1	0	2	4	1	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr9:140773521G>A	uc004cog.2	+	2	445	c.300G>A	c.(298-300)ATG>ATA	p.M100I	uc004cof.1_Intron	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	100	Helical; Name=S1 of repeat I; (Potential).|I.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TCGAGTATATGATCCTGGCCA	0.637													7	25					0	0	0.001984	0	0		A	140773521	A	A	140773521	3	1	130	1	0	0	0	0	1	0	0	0	2542	1290	45	4	306	4	CACNA1B	9	140773521	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1020266	140773521	439910	286	71932											
ITIH5	80760	broad.mit.edu	37	chr10	7618424	7618424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcctcgtacctggctgcGtgccagctcctcgcacgctc	3	9	12	17	4	0	0	0	0	0	0	4	0	1	0	4	2	5	5	4	2	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:7618424G>A	uc001ijq.2	-	10	2049	c.1970C>T	c.(1969-1971)ACG>ATG	p.T657M	ITIH5_uc001ijp.2_Missense_Mutation_p.T443M|ITIH5_uc001ijr.1_Missense_Mutation_p.T657M	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	657					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						ACCTGGCTGCGTGCCAGCTCC	0.682													6	13					0	0	0.001168	0	0		A	7618424	A	A	7618424	3	1	130	1	0	0	0	0	1	0	0	0	7923	1145	40	1	1001	1	ITIH5	10	7618424	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08		7618424	127916323	287	71933											
DHTKD1	55526	broad.mit.edu	37	chr10	12136219	12136219	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacaggcagtggggccacaAtgagctggatgagccattct	10	8	13	10	0	1	2	0	2	1	0	1	3	1	3	2	4	3	2	2	4	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:12136219A>T	uc001ild.3	+	7	1406	c.1307A>T	c.(1306-1308)AAT>ATT	p.N436I		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	436					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			TGGGGCCACAATGAGCTGGAT	0.453													8	84					0	0	0.008291	0	0		T	12136219	T	T	12136219	3	4	130	1	0	0	0	0	1	0	0	0	4506	101	4	5	1333	5	DHTKD1	10	12136219	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	4517795	12136219	123398528	288	71934											
BEND7	222389	broad.mit.edu	37	chr10	13523094	13523094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagatttaggcataaacaCgtcaaagccttcagcaagtt	14	10	8	9	1	2	1	2	1	0	1	2	2	2	1	1	1	3	3	1	1	5	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:13523094C>T	uc001imm.2	-	6	1009	c.712G>A	c.(712-714)GTG>ATG	p.V238M	BEND7_uc001imn.2_Translation_Start_Site|BEND7_uc001imo.3_Missense_Mutation_p.V251M	NM_152751	NP_689964	Q8N7W2	BEND7_HUMAN	BEN domain containing 7 isoform 1	290	BEN.						protein binding			ovary(1)|breast(1)	2						GGCATAAACACGTCAAAGCCT	0.398													7	57					0	0	0.00308	0	0		T	13523094	T	T	13523094	3	4	130	1	0	0	0	0	1	0	0	0	1404	536	19	1	722	1	BEND7	10	13523094	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1386875	13523094	122011653	289	71935											
PTF1A	256297	broad.mit.edu	37	chr10	23481531	23481531	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgtacttcgacgaggaCgacttcttcaccgaccagtc	8	11	8	14	5	3	0	1	0	2	0	6	5	3	1	2	1	1	1	2	1	1	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:23481531C>T	uc001irp.2	+	1	72	c.72C>T	c.(70-72)GAC>GAT	p.D24D		NM_178161	NP_835455	Q7RTS3	PTF1A_HUMAN	pancreas specific transcription factor, 1a	24					endocrine pancreas development|exocrine pancreas development|regulation of transcription, DNA-dependent|tissue development|transcription, DNA-dependent	cytoplasm|transcription factor complex				pancreas(1)|skin(1)	2						TCGACGAGGACGACTTCTTCA	0.657													18	50					0	0	0.006122	0	0		T	23481531	T	T	23481531	2	4	130	1	0	0	0	0	0	0	0	1	12762	535	19	1		1	PTF1A	10	23481531	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	9958437	23481531	112053216	290	71936											
NRP1	8829	broad.mit.edu	37	chr10	33481257	33481257	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtcaacacactccactTgagctgcacgtgattgtcat	9	11	9	12	1	2	2	2	2	0	0	3	2	3	2	1	1	3	3	1	1	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:33481257T>C	uc001iwx.3	-	13	2537	c.2014A>G	c.(2014-2016)AAG>GAG	p.K672E	NRP1_uc001iwv.3_Missense_Mutation_p.K672E|NRP1_uc009xlz.2_Missense_Mutation_p.K665E|NRP1_uc001iww.3_Missense_Mutation_p.K484E|NRP1_uc001iwy.3_Missense_Mutation_p.K665E	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	672	Extracellular (Potential).|MAM.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	ACACTCCACTTGAGCTGCACG	0.488													108	277					0	0	0.01441	0	0		C	33481257	C	C	33481257	3	2	130	1	0	0	0	0	1	0	0	0	10679	1821	63	3	777	3	NRP1	10	33481257	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	9999726	33481257	102053490	291	71937											
CDH23	64072	broad.mit.edu	37	chr10	73544812	73544812	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgcacgcctcaccttcaaCatcactgcgggcaaccgcga	11	6	8	16	4	3	0	3	0	0	0	3	1	3	0	3	1	4	2	3	1	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:73544812C>A	uc001jrx.3	+	41	6044	c.5667C>A	c.(5665-5667)AAC>AAA	p.N1889K		NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1889	Cadherin 18.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						TCACCTTCAACATCACTGCGG	0.582													54	30					1.17673e-23	1.37754e-23	0.01441	1	0		A	73544812	A	A	73544812	3	1	130	1	0	0	0	0	1	0	0	0	3111	477	17	5	6178	5	CDH23	10	73544812	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	40063555	73544812	61989935	292	71938											
CDH23	64072	broad.mit.edu	37	chr10	73553038	73553038	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctcaggaccgcttcctcaTtcatctggtcaccggggtca	6	10	11	14	2	6	0	5	0	1	0	7	1	7	1	3	5	0	2	3	5	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:73553038T>A	uc001jrx.3	+	46	6730	c.6353T>A	c.(6352-6354)ATT>AAT	p.I2118N	CDH23_uc001jsg.3_5'Flank|CDH23_uc001jsh.3_5'Flank	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	2118	Cadherin 20.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CGCTTCCTCATTCATCTGGTC	0.587													12	45					0	0	0.013537	0	0		A	73553038	A	A	73553038	3	1	130	1	0	0	0	0	1	0	0	0	3111	1493	52	5	6884	5	CDH23	10	73553038	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	8226	73553038	61981709	293	71939											
DNAJB12	54788	broad.mit.edu	37	chr10	74098034	74098034	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacacgagaatcaggatgagGataggcatcagctgcacaaa	16	5	12	8	1	2	2	2	1	0	1	2	6	2	4	0	3	2	3	0	3	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:74098034G>T	uc010qjv.1	-	6	1011	c.861C>A	c.(859-861)ATC>ATA	p.I287I	DNAJB12_uc001jsz.2_Silent_p.I287I|DNAJB12_uc001jta.2_Silent_p.I287I	NM_017626	NP_060096	Q9NXW2	DJB12_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 12	253	Helical; (Potential).				protein folding	endoplasmic reticulum|integral to membrane	heat shock protein binding|unfolded protein binding				0						TCAGGATGAGGATAGGCATCA	0.587													40	43					7.66079e-34	9.01424e-34	0.010771	1	0		T	74098034	T	T	74098034	2	4	130	1	0	0	0	0	0	0	0	1	4623	1164	41	5		5	DNAJB12	10	74098034	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	544996	74098034	61436713	294	71940											
KIF11	3832	broad.mit.edu	37	chr10	94405294	94405294	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctggaaaaaatatctcaagaGactgaacagagatgtgaatc	18	8	9	6	0	1	4	1	2	1	2	3	7	1	5	0	1	1	0	0	1	7	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:94405294G>C	uc001kic.2	+	18	2750	c.2442G>C	c.(2440-2442)GAG>GAC	p.E814D	KIF11_uc010qnq.1_Intron	NM_004523	NP_004514	P52732	KIF11_HUMAN	kinesin family member 11	814					blood coagulation|cell division|microtubule-based movement|spindle assembly involved in mitosis	chromatin remodeling complex|cytosol|kinesin complex|microtubule|spindle pole	ATP binding|microtubule motor activity|protein kinase binding			skin(1)	1						TATCTCAAGAGACTGAACAGA	0.353													33	29					0	0	0.012213	0	0		C	94405294	C	C	94405294	3	2	130	1	0	0	0	0	1	0	0	0	8288	933	33	5	2512	5	KIF11	10	94405294	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	20307260	94405294	41129453	295	71941											
TCTN3	26123	broad.mit.edu	37	chr10	97423868	97423868	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaagtagtaagaggcacaGgataaggatgggagagactg	15	6	15	5	0	0	2	0	0	0	2	1	6	1	5	1	4	0	3	1	4	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:97423868G>C	uc001klb.3	-	14	2024	c.1780C>G	c.(1780-1782)CTG>GTG	p.L594V	TCTN3_uc001kla.3_Missense_Mutation_p.L438V|TCTN3_uc010qoi.1_Missense_Mutation_p.L446V	NM_015631	NP_056446	Q6NUS6	TECT3_HUMAN	tectonic 3 isoform a precursor	594	Helical; (Potential).				apoptosis	integral to membrane					0		Colorectal(252;0.0815)		Epithelial(162;1.69e-07)|all cancers(201;5.63e-06)		AAGAGGCACAGGATAAGGATG	0.423													24	241					0	0	0.00278	0	0		C	97423868	C	C	97423868	3	2	130	1	0	0	0	0	1	0	0	0	15749	991	35	5	47	5	TCTN3	10	97423868	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3018574	97423868	38110879	296	71942											
ABCC2	1244	broad.mit.edu	37	chr10	101565153	101565153	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggcaggtcaaaaatatgaaGaataaagacaaacgtttaaa	21	8	8	4	1	1	3	1	1	0	2	1	3	1	3	0	2	1	2	0	2	10	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:101565153G>A	uc001kqf.2	+	11	1618	c.1479G>A	c.(1477-1479)AAG>AAA	p.K493K		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	493	Cytoplasmic (By similarity).|ABC transmembrane type-1 1.					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	AAAATATGAAGAATAAAGACA	0.423													33	77					0	0	0.003271	0	0		A	101565153	A	A	101565153	2	1	130	1	0	0	0	0	0	0	0	1	53	933	33	4		4	ABCC2	10	101565153	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	4141285	101565153	33969594	297	71943											
ARL3	403	broad.mit.edu	37	chr10	104459163	104459163	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttcaaaataattcttccaGtatggtctgattttcctctg	9	19	5	8	0	4	1	1	1	3	0	6	1	6	1	2	1	0	1	2	1	4	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:104459163G>C	uc001kwa.2	-	3	389	c.231C>G	c.(229-231)TAC>TAG	p.Y77*		NM_004311	NP_004302	P36405	ARL3_HUMAN	ADP-ribosylation factor-like 3	77					cell cycle|cytokinesis|small GTPase mediated signal transduction	centrosome|cytoplasmic microtubule|Golgi membrane|midbody|nucleus|photoreceptor connecting cilium|spindle microtubule	GDP binding|GTP binding|metal ion binding|microtubule binding				0		Colorectal(252;0.122)		Epithelial(162;4.88e-09)|all cancers(201;1.29e-07)|BRCA - Breast invasive adenocarcinoma(275;0.22)		AATTCTTCCAGTATGGTCTGA	0.363													7	28					0	0	0.001984	0	0		C	104459163	C	C	104459163	4	2	130	1	0	0	0	0	0	1	0	0	936	1024	36	5	333	5	ARL3	10	104459163	Nonsense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2894010	104459163	31075584	298	71944											
NEURL	9148	broad.mit.edu	37	chr10	105331527	105331527	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggtccgcacggccgacccGctctgggccctggtggacgt	3	6	17	15	5	1	0	0	0	1	0	2	2	2	1	4	6	0	2	4	6	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:105331527G>A	uc001kxh.2	+	3	1007	c.597G>A	c.(595-597)CCG>CCA	p.P199P		NM_004210	NP_004201	O76050	NEU1A_HUMAN	neuralized-like	199	NHR 1.				nervous system development	perinuclear region of cytoplasm	zinc ion binding				0				Epithelial(162;2.12e-09)|all cancers(201;6.99e-08)|BRCA - Breast invasive adenocarcinoma(275;0.125)		CGGCCGACCCGCTCTGGGCCC	0.662													13	66					0	0	0.001855	0	0		A	105331527	A	A	105331527	2	1	130	1	0	0	0	0	0	0	0	1	10364	1074	38	1		1	NEURL	10	105331527	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	872364	105331527	30203220	299	71945											
SORCS3	22986	broad.mit.edu	37	chr10	107016591	107016591	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagctccattggtggacTccagtgctgggcacagcagc	8	8	12	13	0	0	0	0	0	0	0	3	1	3	1	3	3	4	4	3	3	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:107016591T>C	uc001kyi.1	+	25	3579	c.3352T>C	c.(3352-3354)TCC>CCC	p.S1118P		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	1118	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		ATTGGTGGACTCCAGTGCTGG	0.448													31	24					0	0	0.012213	0	0		C	107016591	C	C	107016591	3	2	130	1	0	0	0	0	1	0	0	0	14957	1551	54	3	3450	3	SORCS3	10	107016591	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1685064	107016591	28518156	300	71946											
MKI67	4288	broad.mit.edu	37	chr10	129908757	129908757	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacatgtgcttgtcaactgCggttgctccttcactggggt	5	14	12	10	1	2	1	2	1	0	0	3	1	3	1	1	3	4	3	1	3	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:129908757C>T	uc001lke.2	-	12	2496	c.2301G>A	c.(2299-2301)CCG>CCA	p.P767P	MKI67_uc001lkf.2_Silent_p.P407P|MKI67_uc009yav.1_Silent_p.P342P|MKI67_uc009yaw.1_Intron	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	767					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TTGTCAACTGCGGTTGCTCCT	0.403													17	150					0	0	0.006122	0	0		T	129908757	T	T	129908757	2	4	130	1	0	0	0	0	0	0	0	1	9616	755	27	1		1	MKI67	10	129908757	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	22892166	129908757	5625990	301	71947											
GPR123	84435	broad.mit.edu	37	chr10	134896275	134896275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgacagaaccctgtgccGtccccctgtaagcctggatg	7	7	12	15	2	0	1	0	0	0	1	1	3	1	2	6	2	3	1	6	2	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr10:134896275G>A	uc001llw.2	+	7	1287	c.1287G>A	c.(1285-1287)CCG>CCA	p.P429P				Q86SQ6	GP123_HUMAN	RecName: Full=Probable G-protein coupled receptor 123;	Error:Variant_position_missing_in_Q86SQ6_after_alignment						integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		ACCCTGTGCCGTCCCCCTGTA	0.667													13	9					0	0	0.00245	0	0		A	134896275	A	A	134896275	2	1	130	1	0	0	0	0	0	0	0	1	6652	1160	40	1		1	GPR123	10	134896275	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	4987518	134896275	638472	302	71948											
UBQLN3	50613	broad.mit.edu	37	chr11	5529220	5529220	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccctgctcaatctgccgcagGgcttgcagggcacgggggtt	5	8	15	13	2	2	0	1	0	1	0	2	0	2	0	2	4	3	6	2	4	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:5529220G>C	uc001may.1	-	2	1655	c.1569C>G	c.(1567-1569)GCC>GCG	p.A523A	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	523										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCTGCCGCAGGGCTTGCAGGG	0.582													5	47					0	0	0.000602	0	0		C	5529220	C	C	5529220	2	2	130	1	0	0	0	0	0	0	0	1	16924	1219	43	5		5	UBQLN3	11	5529220	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08		5529220	129477296	303	71949											
TRIM6-TRIM34	445372	broad.mit.edu	37	chr11	5656043	5656043	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagttggtgagagagctcatCtcagatgtggagtgtcggag	9	10	16	6	1	2	3	2	1	1	2	4	6	2	5	0	3	1	2	0	3	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:5656043C>T	uc001mbf.2	+	10	2008	c.1764C>T	c.(1762-1764)ATC>ATT	p.I588I	HBG2_uc001mak.1_Intron|TRIM34_uc001mbh.2_Silent_p.I234I|TRIM34_uc009yeq.2_5'UTR|TRIM34_uc001mbi.2_Silent_p.I234I|TRIM34_uc001mbj.2_Silent_p.I234I	NM_001003819	NP_001003819	B2RNG4	B2RNG4_HUMAN	tripartite motif-containing 6 and tripartite	588						intracellular	zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;1.01e-08)|BRCA - Breast invasive adenocarcinoma(625;0.145)		GAGAGCTCATCTCAGATGTGG	0.488													14	34					0	0	0.003163	0	0		T	5656043	T	T	5656043	2	4	130	1	0	0	0	0	0	0	0	1	16560	903	32	4		4	TRIM6-TRIM34	11	5656043	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	126823	5656043	129350473	304	71950											
NLRP10	338322	broad.mit.edu	37	chr11	7982669	7982669	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaactaaggatggggccaGtgagggcttttcccctgaat	10	9	12	10	0	0	2	0	2	0	0	1	3	1	3	3	4	1	1	3	4	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:7982669G>A	uc001mfv.1	-	2	507	c.490C>T	c.(490-492)CTG>TTG	p.L164L		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	164							ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GATGGGGCCAGTGAGGGCTTT	0.577													6	45					0	0	0.00308	0	0		A	7982669	A	A	7982669	2	1	130	1	0	0	0	0	0	0	0	1	10491	1020	36	4		4	NLRP10	11	7982669	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2326626	7982669	127023847	305	71951											
AMPD3	272	broad.mit.edu	37	chr11	10516557	10516557	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaactatctgggaggagagTactttgctcggatggtcaag	12	10	13	6	1	2	1	1	0	1	1	3	4	2	3	0	4	3	2	0	4	5	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:10516557T>G	uc001mio.1	+	8	1581	c.1246T>G	c.(1246-1248)TAC>GAC	p.Y416D	AMPD3_uc010rbz.1_Missense_Mutation_p.Y257D|AMPD3_uc001min.1_Missense_Mutation_p.Y425D|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.Y423D|AMPD3_uc009yfy.2_Missense_Mutation_p.Y416D	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	416					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		GGGAGGAGAGTACTTTGCTCG	0.532													44	166					0	0	0.011902	0	0		G	10516557	G	G	10516557	3	3	130	1	0	0	0	0	1	0	0	0	587	1638	57	5	1323	5	AMPD3	11	10516557	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	2533888	10516557	124489959	306	71952											
GALNTL4	374378	broad.mit.edu	37	chr11	11398919	11398919	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttgatgcgggtgagtacagGttcagccctgggcagagagg	8	8	17	8	1	1	3	1	2	0	1	1	4	1	3	1	4	3	3	1	4	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:11398919G>C	uc001mjo.2	-	5	1208	c.787C>G	c.(787-789)CCT>GCT	p.P263A		NM_198516	NP_940918	Q6P9A2	GLTL4_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	263	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)		GTGAGTACAGGTTCAGCCCTG	0.507													15	33					0	0	0.007413	0	0		C	11398919	C	C	11398919	3	2	130	1	0	0	0	0	1	0	0	0	6238	1261	44	5	1064	5	GALNTL4	11	11398919	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	882362	11398919	123607597	307	71953											
SOX6	55553	broad.mit.edu	37	chr11	15994530	15994530	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctggatgaccgggaggctgGgctccgggctggccgaggtg	4	7	20	10	3	1	1	0	1	1	0	2	4	2	3	3	7	0	3	3	7	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:15994530G>T	uc001mme.2	-	16	2384	c.2351C>A	c.(2350-2352)CCC>CAC	p.P784H	SOX6_uc001mmd.2_Missense_Mutation_p.P747H|SOX6_uc001mmf.2_Missense_Mutation_p.P744H|SOX6_uc001mmg.2_Missense_Mutation_p.P751H	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	771					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						CGGGAGGCTGGGCTCCGGGCT	0.512													14	100					0.000219431	0.000227731	0.00245	1	0		T	15994530	T	T	15994530	3	4	130	1	0	0	0	0	1	0	0	0	14980	1232	43	5	178	5	SOX6	11	15994530	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	4595611	15994530	119011986	308	71954											
SLC5A12	159963	broad.mit.edu	37	chr11	26708084	26708084	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggtacacatcacgccaaaTaagagacctgaaagaaagaa	20	4	9	8	1	1	4	1	1	0	3	1	6	1	4	2	1	1	1	2	1	6	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:26708084T>C	uc001mra.2	-	10	1474	c.1161A>G	c.(1159-1161)TTA>TTG	p.L387L	SLC5A12_uc001mrb.2_RNA	NM_178498	NP_848593	Q1EHB4	SC5AC_HUMAN	solute carrier family 5 (sodium/glucose	387	Helical; (Potential).				sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(1)|skin(1)	2						TCACGCCAAATAAGAGACCTG	0.448													8	37					0	0	0.00308	0	0		C	26708084	C	C	26708084	2	2	130	1	0	0	0	0	0	0	0	1	14689	1403	49	3		3	SLC5A12	11	26708084	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	10713554	26708084	108298432	309	71955											
CAPRIN1	4076	broad.mit.edu	37	chr11	34112103	34112103	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctttaaatacagaccagActacagcatcatcatccctt	13	12	3	13	0	3	2	2	0	1	2	5	2	4	2	2	0	3	1	2	0	4	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:34112103A>C	uc001mvh.1	+	14	1621	c.1432A>C	c.(1432-1434)ACT>CCT	p.T478P	CAPRIN1_uc001mvg.2_Missense_Mutation_p.T478P|CAPRIN1_uc001mvi.2_Missense_Mutation_p.T478P|CAPRIN1_uc001mvj.1_Missense_Mutation_p.T397P	NM_005898	NP_005889	Q14444	CAPR1_HUMAN	membrane component chromosome 11 surface marker	478					negative regulation of translation|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis	cytoplasmic mRNA processing body|cytosol|dendrite|integral to plasma membrane|stress granule	protein binding|RNA binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.00045)|all_hematologic(20;0.0016)				TACAGACCAGACTACAGCATC	0.408													9	63					0	0	0.010729	0	0		C	34112103	C	C	34112103	3	2	130	1	0	0	0	0	1	0	0	0	2638	275	10	5	1482	5	CAPRIN1	11	34112103	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	7404019	34112103	100894413	310	71956											
PRDM11	56981	broad.mit.edu	37	chr11	45204573	45204573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactagtggagagagtgacGtgcgatgtgtaaacgaggtc	12	8	15	6	3	0	2	0	1	0	1	1	6	0	3	0	2	2	1	0	2	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:45204573G>A	uc001myo.2	+	5	736	c.487G>A	c.(487-489)GTG>ATG	p.V163M		NM_020229	NP_064614	Q9NQV5	PRD11_HUMAN	PR domain containing 11	163	SET.									upper_aerodigestive_tract(1)	1						AGAGAGTGACGTGCGATGTGT	0.607													14	35					0	0	0.003163	0	0		A	45204573	A	A	45204573	3	1	130	1	0	0	0	0	1	0	0	0	12474	1145	40	1	501	1	PRDM11	11	45204573	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	11092470	45204573	89801943	311	71957											
PSMC3	5702	broad.mit.edu	37	chr11	47446159	47446159	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctgagccacgctcaccTgtcgtgtagaggttttgatc	7	13	11	10	2	1	3	1	2	0	1	3	3	1	3	2	1	2	4	2	1	1	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:47446159T>G	uc001nfh.2	-	4	583	c.389A>C	c.(388-390)CAG>CCG	p.Q130P	PSMC3_uc009ylr.1_Missense_Mutation_p.Q88P	NM_002804	NP_002795	P17980	PRS6A_HUMAN	proteasome 26S ATPase subunit 3	130					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|nucleoside-triphosphatase activity|protein binding|transcription coactivator activity|transcription corepressor activity			ovary(4)	4				Lung(87;0.0932)|BRCA - Breast invasive adenocarcinoma(625;0.13)		CACGCTCACCTGTCGTGTAGA	0.552													20	58					0	0	0.012319	0	0		G	47446159	G	G	47446159	3	3	130	1	0	0	0	0	1	0	0	0	12709	1594	55	5	966	5	PSMC3	11	47446159	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	2241586	47446159	87560357	312	71958											
AGBL2	79841	broad.mit.edu	37	chr11	47712177	47712177	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtgttgttcttgtagtacTtgatttcatttccttctctc	4	21	6	10	1	3	1	1	1	2	0	6	1	4	1	2	0	1	4	2	0	2	9			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:47712177T>C	uc001ngg.2	-	9	1182	c.1082A>G	c.(1081-1083)AAG>AGG	p.K361R	AGBL2_uc001ngf.2_RNA|AGBL2_uc010rhq.1_Missense_Mutation_p.K323R|AGBL2_uc001ngh.1_Missense_Mutation_p.K305R	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	361					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						CTTGTAGTACTTGATTTCATT	0.473													52	134					0	0	0.01441	0	0		C	47712177	C	C	47712177	3	2	130	1	0	0	0	0	1	0	0	0	376	1609	56	3	1666	3	AGBL2	11	47712177	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	266018	47712177	87294339	313	71959											
OR4A15	81328	broad.mit.edu	37	chr11	55135745	55135745	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagggttgtatggctcaacTttttatggatcatttatttg	8	19	9	5	0	3	0	3	0	0	0	3	1	3	1	0	3	1	3	0	3	4	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:55135745T>C	uc010rif.1	+	1	386	c.386T>C	c.(385-387)CTT>CCT	p.L129P		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	129	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						ATGGCTCAACTTTTTATGGAT	0.398													48	130					0	0	0.01441	0	0		C	55135745	C	C	55135745	3	2	130	1	0	0	0	0	1	0	0	0	11059	1609	56	3	388	3	OR4A15	11	55135745	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	7423568	55135745	79870771	314	71960											
OR4C15	81309	broad.mit.edu	37	chr11	55322517	55322517	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcttgcctgcactgatacTcacatctttggcctcatggt	7	13	9	12	0	3	1	2	1	1	0	3	2	3	1	2	2	4	2	2	2	1	3	rs145900465		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:55322517T>C	uc010rig.1	+	1	735	c.735T>C	c.(733-735)ACT>ACC	p.T245T		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCACTGATACTCACATCTTTG	0.438										HNSCC(20;0.049)			18	40					0	0	0.00499	0	0		C	55322517	C	C	55322517	2	2	130	1	0	0	0	0	0	0	0	1	11067	1538	54	3		3	OR4C15	11	55322517	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	186772	55322517	79683999	315	71961											
OR8H1	219469	broad.mit.edu	37	chr11	56058115	56058115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atagggcccagtgacaagagCgcaacacagccttttggaca	13	6	11	11	1	0	2	0	1	0	1	0	3	0	3	2	2	3	1	2	2	3	3	rs142532321		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:56058115C>T	uc010rje.1	-	1	424	c.424G>A	c.(424-426)GCT>ACT	p.A142T		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					GTGACAAGAGCGCAACACAGC	0.443													21	57					0	0	0.008871	0	0		T	56058115	T	T	56058115	3	4	130	1	0	0	0	0	1	0	0	0	11256	768	27	1	513	1	OR8H1	11	56058115	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	735598	56058115	78948401	316	71962											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57077309	57077309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaccactgctgtagtccCttatccaagcgctcttccca	7	11	6	17	1	1	0	0	0	1	0	4	0	4	0	5	0	3	3	5	0	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:57077309C>T	uc001njr.2	-	5	3188	c.2876G>A	c.(2875-2877)AGG>AAG	p.R959K	TNKS1BP1_uc001njs.2_Missense_Mutation_p.R959K|TNKS1BP1_uc009ymd.1_Missense_Mutation_p.R410K	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	959	Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GCTGTAGTCCCTTATCCAAGC	0.602													51	168					0	0	0.01441	0	0		T	57077309	T	T	57077309	3	4	130	1	0	0	0	0	1	0	0	0	16345	681	24	4	2337	4	TNKS1BP1	11	57077309	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1019194	57077309	77929207	317	71963											
OR5B3	441608	broad.mit.edu	37	chr11	58170549	58170549	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataggccattgaggccaagaGgtaattttccacagtggcaa	13	9	11	8	0	0	2	0	1	0	1	1	2	1	2	3	4	0	2	3	4	4	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:58170549G>C	uc010rkf.1	-	1	334	c.334C>G	c.(334-336)CTC>GTC	p.L112V		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GAGGCCAAGAGGTAATTTTCC	0.463													25	102					0	0	0.003954	0	0		C	58170549	C	C	58170549	3	2	130	1	0	0	0	0	1	0	0	0	11171	1000	35	5	612	5	OR5B3	11	58170549	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1093240	58170549	76835967	318	71964											
EML3	256364	broad.mit.edu	37	chr11	62374527	62374527	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgagaatgtctccatcCggaaggaacacaaagcaagg	15	5	11	10	1	1	1	0	1	1	1	3	4	2	3	3	3	2	1	3	3	5	0	rs149158420		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:62374527C>T	uc001ntu.1	-	12	1715	c.1407G>A	c.(1405-1407)CCG>CCA	p.P469P	EML3_uc001ntr.1_Silent_p.P441P|EML3_uc001nts.1_Silent_p.P441P|EML3_uc001ntt.1_Silent_p.P353P|EML3_uc010rly.1_Silent_p.P469P|EML3_uc009yny.1_Silent_p.P252P	NM_153265	NP_694997	Q32P44	EMAL3_HUMAN	echinoderm microtubule associated protein like	469	WD 4.					cytoplasm|microtubule	protein binding			ovary(1)	1						TGTCTCCATCCGGAAGGAACA	0.522													14	121					0	0	0.001855	0	0		T	62374527	T	T	62374527	2	4	130	1	0	0	0	0	0	0	0	1	5106	639	23	1		1	EML3	11	62374527	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	4203978	62374527	72631989	319	71965											
RTN3	10313	broad.mit.edu	37	chr11	63517497	63517497	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctggagagatgtgaagaaGactgggtttgtctttggcac	9	13	14	5	0	2	4	0	1	2	3	2	6	2	5	0	3	0	2	0	3	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:63517497G>C	uc001nxq.2	+	4	2752	c.2565G>C	c.(2563-2565)AAG>AAC	p.K855N	RTN3_uc001nxo.2_Missense_Mutation_p.K59N|RTN3_uc001nxm.2_Missense_Mutation_p.K78N|RTN3_uc001nxn.2_Missense_Mutation_p.K836N|RTN3_uc001nxp.2_Missense_Mutation_p.K59N|RTN3_uc009yov.2_Missense_Mutation_p.K743N|RTN3_uc010rmt.1_RNA|RTN3_uc010rmu.1_Missense_Mutation_p.K59N	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	855	Reticulon.				apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						ATGTGAAGAAGACTGGGTTTG	0.443													9	22					0	0	0.008291	0	0		C	63517497	C	C	63517497	3	2	130	1	0	0	0	0	1	0	0	0	13752	933	33	5	2579	5	RTN3	11	63517497	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1142970	63517497	71489019	320	71966											
RASGRP2	10235	broad.mit.edu	37	chr11	64504226	64504226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccccctgctcctcaccGtgagcaggctcagcaggtcg	5	7	11	18	2	2	1	2	1	0	0	4	1	3	1	5	2	4	4	5	2	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:64504226G>A	uc009ypu.2	-	9	1321	c.1094C>T	c.(1093-1095)ACG>ATG	p.T365M	RASGRP2_uc001oat.2_Missense_Mutation_p.T267M|RASGRP2_uc001oau.2_Missense_Mutation_p.T220M|RASGRP2_uc009ypv.2_Missense_Mutation_p.T365M|RASGRP2_uc009ypw.2_Missense_Mutation_p.T365M	NM_001098671	NP_001092141	Q7LDG7	GRP2_HUMAN	RAS guanyl releasing protein 2	365	Ras-GEF.				platelet activation|Ras protein signal transduction|regulation of cell growth|regulation of small GTPase mediated signal transduction	cell junction|cytosol|ruffle membrane|synapse|synaptosome	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity				0						GCTCCTCACCGTGAGCAGGCT	0.662													4	10					0	0	0.009096	0	0		A	64504226	A	A	64504226	3	1	130	1	0	0	0	0	1	0	0	0	13100	1159	40	1	767	1	RASGRP2	11	64504226	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	986729	64504226	70502290	321	71967											
ATG2A	23130	broad.mit.edu	37	chr11	64673264	64673264	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcaggatggtgatgacCgtcgggggcaggtagcccag	7	7	19	8	2	0	2	0	2	0	0	1	3	0	3	2	5	2	3	2	5	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:64673264C>A	uc001obx.2	-	23	3436	c.3321G>T	c.(3319-3321)ACG>ACT	p.T1107T	ATG2A_uc001obw.2_5'Flank	NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1107							protein binding			ovary(1)|central_nervous_system(1)	2						TGGTGATGACCGTCGGGGGCA	0.617													9	76					3.09899e-07	3.31138e-07	0.004482	1	0		A	64673264	A	A	64673264	2	1	130	1	0	0	0	0	0	0	0	1	1094	639	23	5		5	ATG2A	11	64673264	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	169038	64673264	70333252	322	71968											
SNX32	254122	broad.mit.edu	37	chr11	65617469	65617469	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatctggctgcatgatgccTacgtggagaatgaggagtac	10	10	13	8	1	2	3	1	2	1	1	2	5	2	4	1	3	4	3	1	3	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:65617469T>C	uc001ofr.2	+	3	347	c.220T>C	c.(220-222)TAC>CAC	p.Y74H	SNX32_uc009yqt.2_3'UTR|SNX32_uc010rop.1_Missense_Mutation_p.Y74H	NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B	74	PX.				cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		GCATGATGCCTACGTGGAGAA	0.627													11	38					0	0	0.003163	0	0		C	65617469	C	C	65617469	3	2	130	1	0	0	0	0	1	0	0	0	14927	1522	53	3	230	3	SNX32	11	65617469	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	944205	65617469	69389047	323	71969											
SNX32	254122	broad.mit.edu	37	chr11	65620002	65620002	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatgctgaggtactacatgCgtgactcacaggcagccaag	12	7	11	11	1	1	2	1	2	0	0	1	2	1	2	1	2	5	3	1	2	3	2	rs137872295		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:65620002C>T	uc001ofr.2	+	10	1019	c.892C>T	c.(892-894)CGT>TGT	p.R298C		NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B	298	Potential.				cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		GTACTACATGCGTGACTCACA	0.627													10	65					0	0	0.006214	0	0		T	65620002	T	T	65620002	3	4	130	1	0	0	0	0	1	0	0	0	14927	768	27	1	930	1	SNX32	11	65620002	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2533	65620002	69386514	324	71970											
RBM4B	83759	broad.mit.edu	37	chr11	66444180	66444180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccctgatggcctccactGcatcctctgcccgctccatg	4	9	9	19	1	1	1	0	1	1	0	4	1	4	1	7	2	2	2	7	2	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:66444180G>A	uc001oja.2	-	1	1040	c.371C>T	c.(370-372)GCA>GTA	p.A124V	RBM4B_uc001ojb.2_Missense_Mutation_p.A124V	NM_031492	NP_113680	Q9BQ04	RBM4B_HUMAN	RNA binding motif protein 4B	124	RRM 2.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|RNA splicing	nucleolus	nucleotide binding|RNA binding|zinc ion binding				0						GGCCTCCACTGCATCCTCTGC	0.537													45	123					0	0	0.01441	0	0		A	66444180	A	A	66444180	3	1	130	1	0	0	0	0	1	0	0	0	13167	1319	46	2	716	2	RBM4B	11	66444180	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	824178	66444180	68562336	325	71971											
NUMA1	4926	broad.mit.edu	37	chr11	71724269	71724269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catagctggccttctctgccCgcagctgctgagctgttcgc	4	11	11	15	2	1	1	0	1	1	0	3	1	1	1	2	1	5	6	2	1	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:71724269C>T	uc001orl.1	-	15	4452	c.4280G>A	c.(4279-4281)CGG>CAG	p.R1427Q	NUMA1_uc009ysw.1_Missense_Mutation_p.R990Q|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.R1427Q|NUMA1_uc001orn.2_Missense_Mutation_p.R990Q|NUMA1_uc009ysx.1_Missense_Mutation_p.R1427Q|NUMA1_uc001oro.1_Missense_Mutation_p.R1427Q	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1427	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						CTTCTCTGCCCGCAGCTGCTG	0.662			T	RARA	APL								22	69					0	0	0.00333	0	0		T	71724269	T	T	71724269	3	4	130	1	0	0	0	0	1	0	0	0	10769	652	23	1	2119	1	NUMA1	11	71724269	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	5280089	71724269	63282247	326	71972											
NUMA1	4926	broad.mit.edu	37	chr11	71727513	71727513	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggttatcctgcagctgggAcaagtgttcttccagctgtg	6	13	13	9	0	1	0	0	0	1	0	3	1	3	1	2	2	3	5	2	2	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:71727513A>G	uc001orl.1	-	14	1355	c.1183T>C	c.(1183-1185)TCC>CCC	p.S395P	NUMA1_uc009ysw.1_5'Flank|NUMA1_uc001ork.1_Missense_Mutation_p.S395P|NUMA1_uc001orm.1_Missense_Mutation_p.S395P|NUMA1_uc001orn.2_5'Flank|NUMA1_uc009ysx.1_Missense_Mutation_p.S395P|NUMA1_uc001oro.1_Missense_Mutation_p.S395P	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	395	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						TGCAGCTGGGACAAGTGTTCT	0.517			T	RARA	APL								18	96					0	0	0.00499	0	0		G	71727513	G	G	71727513	3	3	130	1	0	0	0	0	1	0	0	0	10769	275	10	3	5220	3	NUMA1	11	71727513	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	3244	71727513	63279003	327	71973											
CLPB	81570	broad.mit.edu	37	chr11	72006684	72006684	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcttcccttttccatctgtCagccggccctgggaagggaa	6	11	11	13	1	3	0	1	0	2	0	5	2	5	2	4	3	1	0	4	3	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:72006684C>T	uc001osj.2	-	13	1478	c.1428G>A	c.(1426-1428)CTG>CTA	p.L476L	CLPB_uc010rqx.1_Silent_p.L431L|CLPB_uc010rqy.1_Silent_p.L417L|CLPB_uc001osk.2_Silent_p.L446L|CLPB_uc009ytg.2_RNA|CLPB_uc010rqz.1_Silent_p.L275L|CLPB_uc001osi.2_Silent_p.L84L	NM_030813	NP_110440	Q9H078	CLPB_HUMAN	caseinolytic peptidase B	476					cellular response to heat		ATP binding|nucleoside-triphosphatase activity|protein binding			pancreas(1)	1						TTCCATCTGTCAGCCGGCCCT	0.453													4	21					0	0	0.000602	0	0		T	72006684	T	T	72006684	2	4	130	1	0	0	0	0	0	0	0	1	3554	813	29	4		4	CLPB	11	72006684	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	279171	72006684	62999832	328	71974											
PDE2A	5138	broad.mit.edu	37	chr11	72295356	72295356	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcggccacaccgatgacCtctggggaagggagaggggc	9	4	17	11	2	1	2	0	1	1	1	2	5	1	3	3	6	1	1	3	6	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:72295356C>T	uc010rrc.1	-	19	1782	c.1539G>A	c.(1537-1539)GAG>GAA	p.E513E	PDE2A_uc001oso.2_Silent_p.E492E|PDE2A_uc010rra.1_Silent_p.E506E|PDE2A_uc001osn.2_Silent_p.E257E|PDE2A_uc010rrb.1_Silent_p.E504E|PDE2A_uc010rrd.1_Silent_p.E398E	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	513	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	CACCGATGACCTCTGGGGAAG	0.627													7	21					0	0	0.001984	0	0		T	72295356	T	T	72295356	2	4	130	1	0	0	0	0	0	0	0	1	11655	695	24	4		4	PDE2A	11	72295356	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	288672	72295356	62711160	329	71975											
RNF169	254225	broad.mit.edu	37	chr11	74545757	74545757	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggaaaggagtcagagctgTagtgacacagcccaggaaag	14	5	15	7	0	1	2	1	1	0	1	1	5	1	5	1	3	2	2	1	3	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:74545757T>C	uc001ovl.3	+	5	892	c.879T>C	c.(877-879)TGT>TGC	p.C293C	XRRA1_uc001ovm.2_Intron	NM_001098638	NP_001092108	Q8NCN4	RN169_HUMAN	ring finger protein 169	293							zinc ion binding			ovary(1)	1						GTCAGAGCTGTAGTGACACAG	0.458													24	54					0	0	0.005443	0	0		C	74545757	C	C	74545757	2	2	130	1	0	0	0	0	0	0	0	1	13485	1644	57	3		3	RNF169	11	74545757	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	2250401	74545757	60460759	330	71976											
SLCO2B1	11309	broad.mit.edu	37	chr11	74876911	74876911	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaatgattggctatggggCtatccttgtggccctggcgg	5	11	15	10	2	0	1	0	1	0	0	1	2	1	1	3	6	0	2	3	6	3	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:74876911C>A	uc001owb.2	+	4	752	c.365C>A	c.(364-366)GCT>GAT	p.A122D	SLCO2B1_uc010rrq.1_Intron|SLCO2B1_uc010rrr.1_Intron|SLCO2B1_uc010rrs.1_Missense_Mutation_p.A6D|SLCO2B1_uc001owc.2_Missense_Mutation_p.A6D|SLCO2B1_uc001owd.2_Missense_Mutation_p.A100D	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	122	Helical; Name=3; (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	GGCTATGGGGCTATCCTTGTG	0.592													52	146					2.43139e-17	2.80325e-17	0.01441	1	0		A	74876911	A	A	74876911	3	1	130	1	0	0	0	0	1	0	0	0	14752	797	28	5	379	5	SLCO2B1	11	74876911	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	331154	74876911	60129605	331	71977											
RSF1	51773	broad.mit.edu	37	chr11	77412830	77412830	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgttccatttccctccgTgatgatatttctgtccttag	5	18	6	12	1	2	2	0	2	2	0	6	2	6	2	4	0	0	1	4	0	2	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:77412830T>G	uc001oyn.2	-	6	1564	c.1444A>C	c.(1444-1446)ACG>CCG	p.T482P	RSF1_uc001oym.2_Missense_Mutation_p.T230P	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	482					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			TTTCCCTCCGTGATGATATTT	0.398													51	105					0	0	0.01441	0	0		G	77412830	G	G	77412830	3	3	130	1	0	0	0	0	1	0	0	0	13724	1696	59	5	2925	5	RSF1	11	77412830	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	2535919	77412830	57593686	332	71978											
NDUFC2	4718	broad.mit.edu	37	chr11	77784130	77784130	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggtagtcttcacgttttAcaagataatatccagcaaaa	16	11	6	8	1	2	1	1	0	1	1	3	1	3	1	1	1	2	3	1	1	7	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:77784130A>C	uc009yuw.2	-	2	699	c.224T>G	c.(223-225)GTA>GGA	p.V75G		NM_004549	NP_004540	O95298	NDUC2_HUMAN	NADH dehydrogenase (ubiquinone) 1, subcomplex	75	Helical; (Potential).				mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0	all_cancers(14;2.23e-19)|all_epithelial(13;7.49e-22)|Breast(9;6.38e-17)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;2.15e-25)		Carvedilol(DB01136)|NADH(DB00157)	TTCACGTTTTACAAGATAATA	0.353													23	77					0	0	0.003954	0	0		C	77784130	C	C	77784130	3	2	130	1	0	0	0	0	1	0	0	0	10309	391	14	5	143	5	NDUFC2	11	77784130	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	371300	77784130	57222386	333	71979											
TAF1D	79101	broad.mit.edu	37	chr11	93469351	93469351	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcaggcctctctgtccAgtatttttggcttttgtagc	5	19	8	9	0	2	0	1	0	1	0	4	0	3	0	2	2	1	3	2	2	2	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:93469351A>G	uc001ped.2	-	6	1015	c.813T>C	c.(811-813)ACT>ACC	p.T271T	SNORA8_uc001pec.2_5'Flank|TAF1D_uc001pdz.2_RNA|TAF1D_uc001pea.1_Intron|SNORD5_uc009ywf.1_5'Flank|SNORA18_uc009ywg.1_5'Flank|MIR1304_hsa-mir-1304|MI0006371_5'Flank|SNORA40_uc009ywh.2_5'Flank	NM_024116	NP_077021	Q9H5J8	TAF1D_HUMAN	TATA box binding protein (TBP)-associated	271					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding				0						CTCTCTGTCCAGTATTTTTGG	0.353													20	129					0	0	0.004656	0	0		G	93469351	G	G	93469351	2	3	130	1	0	0	0	0	0	0	0	1	15547	175	7	3		3	TAF1D	11	93469351	Silent	SNP	A	TCGA-CG-4437-01A-01D-1800-08	15685221	93469351	41537165	334	71980											
TAF1D	79101	broad.mit.edu	37	chr11	93469380	93469380	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcttttgtagctctcttttTagacaaagcagcttcttcag	8	16	8	9	0	3	1	1	0	2	1	4	1	3	1	0	1	3	5	0	1	3	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:93469380T>A	uc001ped.2	-	6	986	c.784A>T	c.(784-786)AAA>TAA	p.K262*	SNORA8_uc001pec.2_5'Flank|TAF1D_uc001pdz.2_RNA|TAF1D_uc001pea.1_Intron|SNORD5_uc009ywf.1_5'Flank|SNORA18_uc009ywg.1_5'Flank|MIR1304_hsa-mir-1304|MI0006371_5'Flank|SNORA40_uc009ywh.2_5'Flank	NM_024116	NP_077021	Q9H5J8	TAF1D_HUMAN	TATA box binding protein (TBP)-associated	262					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding				0						GCTCTCTTTTTAGACAAAGCA	0.373													12	104					0	0	0.001855	0	0		A	93469380	A	A	93469380	4	1	130	1	0	0	0	0	0	1	0	0	15547	1763	61	5	56	5	TAF1D	11	93469380	Nonsense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	29	93469380	41537136	335	71981											
FUT4	2526	broad.mit.edu	37	chr11	94277451	94277451	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggcggtgcccggttgggCgtcctggccagctcaccttg	3	8	16	14	4	1	0	1	0	0	0	2	0	2	0	4	5	2	2	4	5	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:94277451C>G	uc001pez.2	+	1	435	c.152C>G	c.(151-153)GCG>GGG	p.A51G	PIWIL4_uc010rue.1_Intron|PIWIL4_uc009ywk.1_5'Flank	NM_002033	NP_002024	P22083	FUT4_HUMAN	fucosyltransferase 4	51	Cytoplasmic (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane|membrane fraction	alpha(1,3)-fucosyltransferase activity			skin(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CCCGGTTGGGCGTCCTGGCCA	0.761													3	8					0	0	0.004672	0	0		G	94277451	G	G	94277451	3	3	130	1	0	0	0	0	1	0	0	0	6120	768	27	5	154	5	FUT4	11	94277451	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	808071	94277451	40729065	336	71982											
DDI1	414301	broad.mit.edu	37	chr11	103908451	103908451	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacacagagaattattggcCgtgttcatctagctcagatt	11	12	9	9	1	3	2	2	0	1	2	3	3	3	2	1	1	1	3	1	1	3	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:103908451C>A	uc001phr.2	+	1	1144	c.901C>A	c.(901-903)CGT>AGT	p.R301S	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	301					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		AATTATTGGCCGTGTTCATCT	0.483													12	45					7.03913e-09	7.76341e-09	0.013537	1	0		A	103908451	A	A	103908451	3	1	130	1	0	0	0	0	1	0	0	0	4331	652	23	5	903	5	DDI1	11	103908451	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	9631000	103908451	31098065	337	71983											
NPAT	4863	broad.mit.edu	37	chr11	108047806	108047806	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatagcttcttcagacatGtgaatttcactctgcaagaa	12	14	7	8	0	4	3	2	1	2	2	4	3	4	3	0	0	2	3	0	0	5	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:108047806G>T	uc001pjz.3	-	11	1020	c.918C>A	c.(916-918)CAC>CAA	p.H306Q	NPAT_uc001pka.2_Missense_Mutation_p.H101Q	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	306	Mediates transcriptional activation.|Interaction with MIZF.				positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		CTTCAGACATGTGAATTTCAC	0.313													7	28					3.09899e-07	3.31138e-07	0.004482	1	0		T	108047806	T	T	108047806	3	4	130	1	0	0	0	0	1	0	0	0	10585	1368	48	5	3397	5	NPAT	11	108047806	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	4139355	108047806	26958710	338	71984											
ZBTB16	7704	broad.mit.edu	37	chr11	114057740	114057740	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggaggatgccctggagaCacacaggcagacccatactg	13	4	13	11	0	0	2	0	0	0	2	0	6	0	4	2	4	2	1	2	4	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:114057740C>G	uc001pop.2	+	4	1697	c.1433C>G	c.(1432-1434)ACA>AGA	p.T478R	ZBTB16_uc001poo.1_Missense_Mutation_p.T478R|ZBTB16_uc001poq.2_Missense_Mutation_p.T478R	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	478	C2H2-type 3.				apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		GCCCTGGAGACACACAGGCAG	0.522													12	62					0	0	0.001855	0	0		G	114057740	G	G	114057740	3	3	130	1	0	0	0	0	1	0	0	0	17551	478	17	5	1443	5	ZBTB16	11	114057740	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	6009934	114057740	20948776	339	71985											
FAM55D	54827	broad.mit.edu	37	chr11	114453606	114453606	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgggatctgctgatctagTttctctatgatttcctttat	6	19	9	7	0	3	2	0	2	3	0	5	3	4	3	1	2	1	2	1	2	3	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:114453606T>C	uc001ppc.2	-	3	415	c.234A>G	c.(232-234)AAA>AAG	p.K78K	FAM55D_uc001ppd.2_5'UTR	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	78						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		GCTGATCTAGTTTCTCTATGA	0.463													37	186					0	0	0.004878	0	0		C	114453606	C	C	114453606	2	2	130	1	0	0	0	0	0	0	0	1	5601	1722	60	3		3	FAM55D	11	114453606	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	395866	114453606	20552910	340	71986											
MFRP	83552	broad.mit.edu	37	chr11	119217082	119217082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggcaggattgcagaactcGgtctggaagggggagatact	12	7	16	6	1	1	2	0	0	1	2	2	5	1	4	0	6	3	2	0	6	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:119217082G>A	uc001pwj.2	-	2	217	c.57C>T	c.(55-57)ACC>ACT	p.T19T	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Silent_p.T19T	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		TGCAGAACTCGGTCTGGAAGG	0.592													10	42					0	0	0.013537	0	0		A	119217082	A	A	119217082	2	1	130	1	0	0	0	0	0	0	0	1	9544	1103	39	1		1	MFRP	11	119217082	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	4763476	119217082	15789434	341	71987											
OR8D4	338662	broad.mit.edu	37	chr11	123778075	123778075	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaagaaaaatatctttatctCcaggataaatatgctcttta	16	14	5	6	0	3	1	0	0	3	1	4	3	3	2	1	1	1	1	1	1	9	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:123778075C>G	uc010saa.1	+	1	937	c.937C>G	c.(937-939)CCA>GCA	p.P313A		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	313	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		ATCTTTATCTCCAGGATAAAT	0.269													3	21					0	0	0.004672	0	0		G	123778075	G	G	123778075	3	3	130	1	0	0	0	0	1	0	0	0	11252	855	30	5	939	5	OR8D4	11	123778075	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	4560993	123778075	11228441	342	71988											
VWA5A	4013	broad.mit.edu	37	chr11	124012317	124012317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttttcaggttttcgaaaggCcttacactctgaccgtcctc	7	15	7	12	2	2	1	1	1	1	0	5	2	3	1	3	2	1	1	3	2	2	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr11:124012317C>T	uc001pzu.2	+	16	2101	c.1892C>T	c.(1891-1893)GCC>GTC	p.A631V	VWA5A_uc001pzt.2_Missense_Mutation_p.A631V	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	631										upper_aerodigestive_tract(1)|ovary(1)	2						TTTCGAAAGGCCTTACACTCT	0.463													13	81					0	0	0.013537	0	0		T	124012317	T	T	124012317	3	4	130	1	0	0	0	0	1	0	0	0	17268	739	26	2	1950	2	VWA5A	11	124012317	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	234242	124012317	10994199	343	71989											
B4GALNT3	283358	broad.mit.edu	37	chr12	659023	659023	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacgctcttcccagggaTgagcagccgcccgctgacat	8	7	10	16	3	1	2	0	2	1	0	3	3	3	3	4	1	3	3	4	1	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:659023T>C	uc001qii.1	+	10	942	c.942T>C	c.(940-942)GAT>GAC	p.D314D	B4GALNT3_uc001qij.1_Silent_p.D216D|B4GALNT3_uc001qik.1_5'Flank	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	314	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			TTCCCAGGGATGAGCAGCCGC	0.642													5	32					0	0	0.000602	0	0		C	659023	C	C	659023	2	2	130	1	0	0	0	0	0	0	0	1	1269	1461	51	3		3	B4GALNT3	12	659023	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08		659023	133192872	344	71990											
CACNA1C	775	broad.mit.edu	37	chr12	2800085	2800085	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcttgatttcagaaggacTggggcagtttgctcaagatc	9	12	13	7	0	3	3	2	1	1	2	4	4	3	4	0	4	1	3	0	4	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:2800085T>G	uc009zdu.1	+	50	6699	c.6386T>G	c.(6385-6387)CTG>CGG	p.L2129R	CACNA1C_uc009zdv.1_Missense_Mutation_p.L2043R|CACNA1C_uc001qkb.2_Missense_Mutation_p.L2046R|CACNA1C_uc001qkc.2_Missense_Mutation_p.L2065R|CACNA1C_uc001qke.2_Missense_Mutation_p.L2035R|CACNA1C_uc001qkf.2_Missense_Mutation_p.L2054R|CACNA1C_uc001qjz.2_Missense_Mutation_p.L2046R|CACNA1C_uc001qkd.2_Missense_Mutation_p.L2065R|CACNA1C_uc001qkg.2_Missense_Mutation_p.L2052R|CACNA1C_uc009zdw.1_Missense_Mutation_p.L2087R|CACNA1C_uc001qkh.2_Missense_Mutation_p.L2054R|CACNA1C_uc001qkl.2_Missense_Mutation_p.L2094R|CACNA1C_uc001qkn.2_Missense_Mutation_p.L2046R|CACNA1C_uc001qko.2_Missense_Mutation_p.L2066R|CACNA1C_uc001qkp.2_Missense_Mutation_p.L2046R|CACNA1C_uc001qkr.2_Missense_Mutation_p.L2063R|CACNA1C_uc001qku.2_Missense_Mutation_p.L2081R|CACNA1C_uc001qkq.2_Missense_Mutation_p.L2074R|CACNA1C_uc001qks.2_Missense_Mutation_p.L2046R|CACNA1C_uc001qkt.2_Missense_Mutation_p.L2065R|CACNA1C_uc001qki.1_Missense_Mutation_p.L1853R|CACNA1C_uc001qkj.1_Missense_Mutation_p.L1817R|CACNA1C_uc001qkk.1_Missense_Mutation_p.L1782R|CACNA1C_uc001qkm.1_Missense_Mutation_p.L1842R|CACNA1C_uc010sea.1_Missense_Mutation_p.L737R|uc001qkx.1_RNA|CACNA1C_uc001qky.1_Missense_Mutation_p.L364R	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	2129	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	TCAGAAGGACTGGGGCAGTTT	0.582													5	8					0	0	0.000602	0	0		G	2800085	G	G	2800085	3	3	130	1	0	0	0	0	1	0	0	0	2543	1580	55	5	7032	5	CACNA1C	12	2800085	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	2141062	2800085	131051810	345	71991											
FGF6	2251	broad.mit.edu	37	chr12	4554416	4554416	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggttctcctcgtgggtcccGctgatccggccgtcggggag	2	9	17	13	5	1	1	0	1	1	0	6	2	3	2	4	5	0	2	4	5	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:4554416G>A	uc001qmr.1	-	1	365	c.321C>T	c.(319-321)AGC>AGT	p.S107S		NM_020996	NP_066276	P10767	FGF6_HUMAN	fibroblast growth factor 6 precursor	107					angiogenesis|cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	growth factor activity			lung(2)|ovary(1)	3			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)			CGTGGGTCCCGCTGATCCGGC	0.637													5	15					0	0	0.001168	0	0		A	4554416	A	A	4554416	2	1	130	1	0	0	0	0	0	0	0	1	5870	1078	38	1		1	FGF6	12	4554416	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1754331	4554416	129297479	346	71992											
SLC2A3	6515	broad.mit.edu	37	chr12	8083958	8083958	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaaacctgtgcagagtccGcagaagaggccaataaccaa	17	4	9	11	1	0	3	0	0	0	3	1	3	1	3	4	1	3	2	4	1	6	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:8083958G>A	uc001qtr.2	-	4	655	c.393C>T	c.(391-393)TGC>TGT	p.C131C	SLC2A3_uc001qts.2_Silent_p.C131C	NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	131	Helical; Name=4; (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		TGCAGAGTCCGCAGAAGAGGC	0.537													19	73					0	0	0.008871	0	0		A	8083958	A	A	8083958	2	1	130	1	0	0	0	0	0	0	0	1	14570	1079	38	1		1	SLC2A3	12	8083958	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3529542	8083958	125767937	347	71993											
CLEC6A	93978	broad.mit.edu	37	chr12	8610506	8610506	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggacagagaaaagaggctGgttgtccctgagactctggt	10	10	14	7	0	1	3	0	1	1	3	2	6	2	4	1	4	0	2	1	4	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:8610506G>T	uc001qum.1	+	2	161	c.44G>T	c.(43-45)TGG>TTG	p.W15L		NM_001007033	NP_001007034	Q6EIG7	CLC6A_HUMAN	dectin-2	15	Cytoplasmic (Potential).				defense response to fungus|innate immune response|positive regulation of cytokine secretion|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	sugar binding			breast(1)	1	Lung SC(5;0.184)					AAAAGAGGCTGGTTGTCCCTG	0.488													14	57					6.31663e-08	6.8672e-08	0.003163	1	0		T	8610506	T	T	8610506	3	4	130	1	0	0	0	0	1	0	0	0	3523	1357	47	5	50	5	CLEC6A	12	8610506	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	526548	8610506	125241389	348	71994											
TAS2R30	259293	broad.mit.edu	37	chr12	11286388	11286388	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatattcttttgtccatacAgtctcatccatgtttatcac	9	18	3	11	0	4	0	3	0	2	0	7	0	6	0	2	0	1	1	2	0	3	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:11286388A>C	uc009zhs.1	-	1	456	c.456T>G	c.(454-456)ACT>ACG	p.T152T	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_001097643	NP_001091112			type 2 taste receptor member 30												0						TTGTCCATACAGTCTCATCCA	0.378													21	174					0	0	0.010504	0	0		C	11286388	C	C	11286388	2	2	130	1	0	0	0	0	0	0	0	1	15598	175	7	5		5	TAS2R30	12	11286388	Silent	SNP	A	TCGA-CG-4437-01A-01D-1800-08	2675882	11286388	122565507	349	71995											
PIK3C2G	5288	broad.mit.edu	37	chr12	18544106	18544106	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgaaacctgattctgaagaGaatagaagtaatcttgaaga	18	10	9	4	0	2	7	0	4	2	3	2	8	2	7	1	0	1	1	1	0	7	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:18544106G>C	uc001rdt.2	+	14	2039	c.1923G>C	c.(1921-1923)GAG>GAC	p.E641D	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.E682D|PIK3C2G_uc010sic.1_Missense_Mutation_p.E460D	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	641					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				ATTCTGAAGAGAATAGAAGTA	0.378													17	33					0	0	0.006122	0	0		C	18544106	C	C	18544106	3	2	130	1	0	0	0	0	1	0	0	0	11930	933	33	5	1973	5	PIK3C2G	12	18544106	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	7257718	18544106	115307789	350	71996											
KCNH3	23416	broad.mit.edu	37	chr12	49949443	49949443	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggcgacaatacccttatgtCcacgctggaggagaaggaga	12	6	13	10	3	0	2	0	0	0	2	1	6	1	3	2	4	1	1	2	4	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:49949443C>A	uc001ruh.1	+	12	2437	c.2177C>A	c.(2176-2178)TCC>TAC	p.S726Y	KCNH3_uc010smj.1_Missense_Mutation_p.S666Y	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	726	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						ACCCTTATGTCCACGCTGGAG	0.627													6	18					0.00198382	0.00203119	0.001984	1	0		A	49949443	A	A	49949443	3	1	130	1	0	0	0	0	1	0	0	0	8049	855	30	5	2223	5	KCNH3	12	49949443	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	31405337	49949443	83902452	351	71997											
KRT81	3887	broad.mit.edu	37	chr12	52681408	52681408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcattctccacctcggccGtcagcctttggatcatgcgg	5	11	11	14	3	3	0	2	0	1	0	5	1	3	1	4	4	2	1	4	4	0	2	rs34187924	byFrequency	TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:52681408G>A	uc001sab.2	-	6	1048	c.998C>T	c.(997-999)ACG>ATG	p.T333M	KRT86_uc010snq.1_Intron|KRT86_uc009zmg.2_Intron|KRT81_uc001sac.2_Intron	NM_002281	NP_002272	Q14533	KRT81_HUMAN	keratin, hair, basic, 1	333	Rod.|Coil 2.					keratin filament	protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		CACCTCGGCCGTCAGCCTTTG	0.592													16	47					0	0	0.004007	0	0		A	52681408	A	A	52681408	3	1	130	1	0	0	0	0	1	0	0	0	8511	1145	40	1	535	1	KRT81	12	52681408	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2731965	52681408	81170487	352	71998											
KRT4	3851	broad.mit.edu	37	chr12	53207397	53207397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaccttgtcgatgaaggagGcaaacttgttgttgaggagc	10	11	13	7	1	1	2	1	2	0	0	2	5	1	4	1	3	2	3	1	3	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:53207397G>A	uc001saz.2	-	1	939	c.668C>T	c.(667-669)GCC>GTC	p.A223V		NM_002272	NP_002263	B4DRS2	B4DRS2_HUMAN	keratin 4	149						keratin filament	structural molecule activity			ovary(4)|skin(2)	6						GATGAAGGAGGCAAACTTGTT	0.582													54	200					0	0	0.01441	0	0		A	53207397	A	A	53207397	3	1	130	1	0	0	0	0	1	0	0	0	8493	1203	42	2	1152	2	KRT4	12	53207397	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	525989	53207397	80644498	353	71999											
CSAD	51380	broad.mit.edu	37	chr12	53567221	53567221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacagccactgggtcccCagcaagggaggggagtgctt	8	7	14	12	0	0	0	0	0	0	0	2	2	2	2	4	4	3	2	4	4	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:53567221C>T	uc001sby.2	-	3	160	c.34G>A	c.(34-36)GGG>AGG	p.G12R	CSAD_uc001sbw.2_Missense_Mutation_p.G12R|CSAD_uc009zmt.2_5'UTR|CSAD_uc010snx.1_Missense_Mutation_p.G39R|CSAD_uc001sbz.2_Missense_Mutation_p.G12R|CSAD_uc009zmu.2_Missense_Mutation_p.G12R|CSAD_uc001sca.3_RNA|CSAD_uc010sny.1_Missense_Mutation_p.G12R	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	12					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	ACTGGGTCCCCAGCAAGGGAG	0.587									Hereditary_Prostate_Cancer				19	58					0	0	0.007413	0	0		T	53567221	T	T	53567221	3	4	130	1	0	0	0	0	1	0	0	0	3928	594	21	4	1503	4	CSAD	12	53567221	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	359824	53567221	80284674	354	72000											
COPZ1	22818	broad.mit.edu	37	chr12	54743432	54743432	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcccccttacggagcagaCcgtgtctcaggtatgactct	7	11	10	13	2	2	2	1	1	2	1	4	3	3	3	3	2	2	2	3	2	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:54743432C>A	uc001sfs.1	+	8	513	c.476C>A	c.(475-477)ACC>AAC	p.T159N	COPZ1_uc001sft.2_Missense_Mutation_p.T108N|COPZ1_uc009znm.1_Missense_Mutation_p.T167N|COPZ1_uc010sot.1_Missense_Mutation_p.T136N	NM_016057	NP_057141	P61923	COPZ1_HUMAN	coatomer protein complex, subunit zeta 1	159					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol					0						ACGGAGCAGACCGTGTCTCAG	0.483													102	309					1.67525e-54	1.98827e-54	0.01441	1	0		A	54743432	A	A	54743432	3	1	130	1	0	0	0	0	1	0	0	0	3744	507	18	5	506	5	COPZ1	12	54743432	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1176211	54743432	79108463	355	72001											
KIAA0748	9840	broad.mit.edu	37	chr12	55356846	55356846	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctttccgaaggcggtctctgGgtgactggggttcaggctct	4	12	15	10	2	3	1	1	1	2	0	5	2	4	1	1	6	0	2	1	6	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:55356846G>T	uc001sgn.3	-	9	946	c.836C>A	c.(835-837)CCC>CAC	p.P279H	KIAA0748_uc001sgl.3_Missense_Mutation_p.P141H|KIAA0748_uc001sgm.3_Missense_Mutation_p.P26H|KIAA0748_uc010spb.1_Missense_Mutation_p.P26H|KIAA0748_uc010spc.1_Missense_Mutation_p.P141H|KIAA0748_uc010spd.1_Missense_Mutation_p.P279H|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	279										ovary(1)|central_nervous_system(1)	2						GCGGTCTCTGGGTGACTGGGG	0.547													17	32					2.94398e-08	3.21077e-08	0.007413	1	0		T	55356846	T	T	55356846	3	4	130	1	0	0	0	0	1	0	0	0	8206	1232	43	5	737	5	KIAA0748	12	55356846	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	613414	55356846	78495049	356	72002											
ATP5B	506	broad.mit.edu	37	chr12	57036523	57036523	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtacatcttgaccttcttgGtctctgaagtattcagccac	9	14	7	11	0	4	2	1	2	3	0	5	2	4	2	2	1	2	2	2	1	3	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:57036523G>A	uc001slr.2	-	6	990	c.885C>T	c.(883-885)GAC>GAT	p.D295D		NM_001686	NP_001677	P06576	ATPB_HUMAN	mitochondrial ATP synthase beta subunit	295					angiogenesis|ATP hydrolysis coupled proton transport|regulation of intracellular pH|respiratory electron transport chain	cell surface|mitochondrial nucleoid|mitochondrial proton-transporting ATP synthase, catalytic core|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|hydrogen-exporting ATPase activity, phosphorylative mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)	1						GACCTTCTTGGTCTCTGAAGT	0.498													20	67					0	0	0.012319	0	0		A	57036523	A	A	57036523	2	1	130	1	0	0	0	0	0	0	0	1	1149	1252	44	4		4	ATP5B	12	57036523	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1679677	57036523	76815372	357	72003											
PTPRB	5787	broad.mit.edu	37	chr12	70949667	70949667	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacggtctatcattgtgataGtgctgtcttcaaccacctcg	8	14	8	11	2	4	1	2	1	2	0	5	1	4	1	2	1	3	1	2	1	4	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:70949667G>T	uc001swb.3	-	17	4352	c.4322C>A	c.(4321-4323)ACT>AAT	p.T1441N	PTPRB_uc010sto.1_Missense_Mutation_p.T1351N|PTPRB_uc010stp.1_Missense_Mutation_p.T1351N|PTPRB_uc001swc.3_Missense_Mutation_p.T1659N|PTPRB_uc001swa.3_Missense_Mutation_p.T1571N	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1441	Fibronectin type-III 16.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CATTGTGATAGTGCTGTCTTC	0.527													17	36					2.94398e-08	3.21077e-08	0.007413	1	0		T	70949667	T	T	70949667	3	4	130	1	0	0	0	0	1	0	0	0	12821	1029	36	5	1735	5	PTPRB	12	70949667	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	13913144	70949667	62902228	358	72004											
PTPRB	5787	broad.mit.edu	37	chr12	70974915	70974915	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacttgagagagtggaagcTgtatctgctggtctcactgg	8	11	15	7	0	2	2	1	1	2	1	3	5	2	4	0	4	2	3	0	4	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:70974915T>A	uc001swb.3	-	8	1855	c.1825A>T	c.(1825-1827)AGC>TGC	p.S609C	PTPRB_uc010sto.1_Missense_Mutation_p.S609C|PTPRB_uc010stp.1_Missense_Mutation_p.S519C|PTPRB_uc001swc.3_Missense_Mutation_p.S827C|PTPRB_uc001swa.3_Missense_Mutation_p.S827C|PTPRB_uc001swd.3_Missense_Mutation_p.S826C|PTPRB_uc009zrr.1_Missense_Mutation_p.S706C	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	609	Fibronectin type-III 7.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			GAGTGGAAGCTGTATCTGCTG	0.488													50	159					0	0	0.01441	0	0		A	70974915	A	A	70974915	3	1	130	1	0	0	0	0	1	0	0	0	12821	1580	55	5	4268	5	PTPRB	12	70974915	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	25248	70974915	62876980	359	72005											
PPFIA2	8499	broad.mit.edu	37	chr12	82147870	82147870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaagggtgtctagaagaCgatccctttcatctagcata	11	10	9	11	2	3	2	1	0	2	2	4	4	4	2	2	1	1	1	2	1	5	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:82147870C>T	uc001szo.1	-	3	292	c.131G>A	c.(130-132)CGT>CAT	p.R44H	PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(3)|lung(2)|pancreas(1)	6						GTCTAGAAGACGATCCCTTTC	0.532													7	30					0	0	0.001984	0	0		T	82147870	T	T	82147870	3	4	130	1	0	0	0	0	1	0	0	0	12329	536	19	1	3762	1	PPFIA2	12	82147870	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	11172955	82147870	51704025	360	72006											
C12orf51	283450	broad.mit.edu	37	chr12	112621028	112621028	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcaagtcattattgttaaAtaaacttgctcgaattttct	14	17	4	6	1	3	0	2	0	1	0	4	1	3	0	0	0	2	2	0	0	8	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:112621028A>T	uc009zwc.2	-	55	9574	c.9556T>A	c.(9556-9558)TTT>ATT	p.F3186I		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TTATTGTTAAATAAACTTGCT	0.378													45	229					0	0	0.01441	0	0		T	112621028	T	T	112621028	3	4	130	1	0	0	0	0	1	0	0	0	1699	101	4	5	2494	5	C12orf51	12	112621028	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	30473158	112621028	21230867	361	72007											
KSR2	283455	broad.mit.edu	37	chr12	117993048	117993048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcgaggtggcttccgtagagGgttgttgatgtcacacggaa	8	10	16	7	3	1	2	1	1	0	1	2	4	2	3	1	4	0	4	1	4	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:117993048G>A	uc001two.2	-	9	1412	c.1357C>T	c.(1357-1359)CCT>TCT	p.P453S		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	482					intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TTCCGTAGAGGGTTGTTGATG	0.493													14	29					0	0	0.001855	0	0		A	117993048	A	A	117993048	3	1	130	1	0	0	0	0	1	0	0	0	8598	1232	43	4	1456	4	KSR2	12	117993048	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	5372020	117993048	15858847	362	72008											
WSB2	55884	broad.mit.edu	37	chr12	118480940	118480940	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaggaatgacctacctGtctgcacctcccagatcttg	9	9	8	15	0	2	2	0	1	2	1	3	3	3	3	5	1	3	1	5	1	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:118480940G>C	uc001twr.2	-	3	523	c.425C>G	c.(424-426)ACA>AGA	p.T142R	WSB2_uc010sza.1_5'UTR|WSB2_uc010szb.1_Intron|WSB2_uc009zws.1_Missense_Mutation_p.T142R	NM_018639	NP_061109	Q9NYS7	WSB2_HUMAN	WD SOCS-box protein 2	142	WD 1.				intracellular signal transduction					ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGACCTACCTGTCTGCACCTC	0.602													4	94					0	0	0.001168	0	0		C	118480940	C	C	118480940	3	2	130	1	0	0	0	0	1	0	0	0	17431	1377	48	5	817	5	WSB2	12	118480940	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	487892	118480940	15370955	363	72009											
CIT	11113	broad.mit.edu	37	chr12	120128120	120128120	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggagacttgtccctgcgcaGctcggtccgcccctcgcggt	4	8	13	16	5	0	1	0	0	0	1	4	2	2	1	4	3	2	2	4	3	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:120128120G>C	uc001txi.1	-	46	5949	c.5896C>G	c.(5896-5898)CTG>GTG	p.L1966V	CIT_uc001txh.1_Missense_Mutation_p.L1484V|CIT_uc001txj.1_Missense_Mutation_p.L2008V	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1966					intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		TCCCTGCGCAGCTCGGTCCGC	0.726													10	19					0	0	0.006214	0	0		C	120128120	C	C	120128120	3	2	130	1	0	0	0	0	1	0	0	0	3441	962	34	5	195	5	CIT	12	120128120	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1647180	120128120	13723775	364	72010											
P2RX7	5027	broad.mit.edu	37	chr12	121622455	121622455	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccaccaacagccggctgcgGcactgtgcctacaggtgcta	8	7	11	15	2	0	0	0	0	0	0	1	0	1	0	4	3	6	3	4	3	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:121622455G>A	uc001tzm.2	+	13	1734	c.1638G>A	c.(1636-1638)CGG>CGA	p.R546R	P2RX7_uc001tzn.2_Silent_p.R456R|P2RX7_uc001tzo.2_RNA|P2RX7_uc001tzp.2_Silent_p.R257R|P2RX7_uc001tzq.2_Silent_p.R376R	NM_002562	NP_002553	Q99572	P2RX7_HUMAN	purinergic receptor P2X7	546						integral to membrane	ATP binding|ion channel activity|receptor activity			large_intestine(2)|lung(1)|breast(1)|skin(1)	5	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GCCGGCTGCGGCACTGTGCCT	0.632													4	6					0	0	0.009096	0	0		A	121622455	A	A	121622455	2	1	130	1	0	0	0	0	0	0	0	1	11364	1190	42	2		2	P2RX7	12	121622455	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1494335	121622455	12229440	365	72011											
ZCCHC8	55596	broad.mit.edu	37	chr12	122958648	122958648	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcctcatccacagctccaGatgctgttctggtctggggt	5	12	11	13	1	3	1	1	0	2	1	6	1	6	1	3	3	2	3	3	3	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:122958648G>T	uc001ucn.2	-	14	1651	c.1520C>A	c.(1519-1521)TCT>TAT	p.S507Y	ZCCHC8_uc001ucl.2_Missense_Mutation_p.S118Y|ZCCHC8_uc001ucm.2_Missense_Mutation_p.S269Y|ZCCHC8_uc009zxp.2_Missense_Mutation_p.S269Y|ZCCHC8_uc009zxq.2_Missense_Mutation_p.S269Y	NM_017612	NP_060082	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	507						catalytic step 2 spliceosome	nucleic acid binding|protein binding|zinc ion binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.25e-05)|Epithelial(86;0.000113)|BRCA - Breast invasive adenocarcinoma(302;0.202)		CACAGCTCCAGATGCTGTTCT	0.612													28	73					2.44723e-14	2.77488e-14	0.004656	1	0		T	122958648	T	T	122958648	3	4	130	1	0	0	0	0	1	0	0	0	17619	942	33	5	607	5	ZCCHC8	12	122958648	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1336193	122958648	10893247	366	72012											
DNAH10	196385	broad.mit.edu	37	chr12	124352050	124352050	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatagtctctttgagaagTatgtgccctatctcatggat	10	15	9	7	0	2	2	1	2	2	1	4	4	2	3	1	1	1	1	1	1	5	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:124352050T>C	uc001uft.3	+	41	6875	c.6850T>C	c.(6850-6852)TAT>CAT	p.Y2284H		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2284	AAA 2 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		CTTTGAGAAGTATGTGCCCTA	0.373													8	35					0	0	0.00308	0	0		C	124352050	C	C	124352050	3	2	130	1	0	0	0	0	1	0	0	0	4604	1638	57	3	7012	3	DNAH10	12	124352050	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1393402	124352050	9499845	367	72013											
TMEM132D	121256	broad.mit.edu	37	chr12	129558601	129558601	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attttacccttttcctttttGaggtaggggatgttgggggc	5	17	13	6	0	0	1	0	1	0	0	1	2	1	2	2	5	1	2	2	5	2	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:129558601G>C	uc009zyl.1	-	9	3447	c.3119C>G	c.(3118-3120)TCA>TGA	p.S1040*	TMEM132D_uc001uia.2_Nonsense_Mutation_p.S578*	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	1040	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TTTCCTTTTTGAGGTAGGGGA	0.483													24	72					0	0	0.00278	0	0		C	129558601	C	C	129558601	4	2	130	1	0	0	0	0	0	1	0	0	16072	1294	45	5	184	5	TMEM132D	12	129558601	Nonsense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	5206551	129558601	4293294	368	72014											
RIMBP2	23504	broad.mit.edu	37	chr12	130892274	130892274	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtgtttggctggtacctcGacatcgacgttgggcgagct	6	11	14	10	4	0	0	0	0	0	0	2	3	0	0	1	3	2	5	1	3	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:130892274G>A	uc001uil.2	-	16	3086	c.2922C>T	c.(2920-2922)GTC>GTT	p.V974V		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	974	SH3 3.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		CTGGTACCTCGACATCGACGT	0.567													69	281					0	0	0.01441	0	0		A	130892274	A	A	130892274	2	1	130	1	0	0	0	0	0	0	0	1	13388	1045	37	1		1	RIMBP2	12	130892274	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1333673	130892274	2959621	369	72015											
STX2	2054	broad.mit.edu	37	chr12	131286027	131286027	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctcgtcgtctgtggtggttCtcccagctgaaagacccgca	6	10	12	13	3	2	2	0	1	2	1	5	2	2	2	2	2	1	4	2	2	1	1	rs74523053		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:131286027C>G	uc001uio.2	-	7	637	c.470G>C	c.(469-471)AGA>ACA	p.R157T	STX2_uc001uip.2_Missense_Mutation_p.R157T|STX2_uc010tbj.1_Missense_Mutation_p.R157T	NM_194356	NP_919337	P32856	STX2_HUMAN	syntaxin 2 isoform 2	157	Cytoplasmic (Potential).				acrosome reaction|ectoderm development|intracellular protein transport|organ morphogenesis|signal transduction	basolateral plasma membrane|integral to membrane|microsome|soluble fraction	calcium-dependent protein binding|SNAP receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.79e-06)|all cancers(50;5.27e-05)|Epithelial(86;5.29e-05)		TGTGGTGGTTCTCCCAGCTGA	0.517													20	68					0	0	0.010504	0	0		G	131286027	G	G	131286027	3	3	130	1	0	0	0	0	1	0	0	0	15370	913	32	5	494	5	STX2	12	131286027	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	393753	131286027	2565868	370	72016											
ULK1	8408	broad.mit.edu	37	chr12	132394492	132394492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagacctcggccccgctgCggcagctgctcctggcccta	4	6	14	17	3	0	1	0	0	0	1	2	2	1	1	5	4	3	4	5	4	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:132394492C>T	uc001uje.2	+	10	1022	c.754C>T	c.(754-756)CGG>TGG	p.R252W		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	252	Protein kinase.				autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		GGCCCCGCTGCGGCAGCTGCT	0.716													22	51					0	0	0.00333	0	0		T	132394492	T	T	132394492	3	4	130	1	0	0	0	0	1	0	0	0	17001	759	27	1	792	1	ULK1	12	132394492	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1108465	132394492	1457403	371	72017											
GALNT9	50614	broad.mit.edu	37	chr12	132681779	132681779	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcagcggcccgtggccCggctcacaatggggccactc	6	4	14	17	3	1	0	1	0	0	0	2	0	1	0	4	6	1	2	4	6	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr12:132681779C>G	uc001ukc.3	-	11	1801	c.1685G>C	c.(1684-1686)CGG>CCG	p.R562P	GALNT9_uc009zyr.2_Missense_Mutation_p.R336P|GALNT9_uc001ukb.2_Missense_Mutation_p.R419P|GALNT9_uc001uka.2_Missense_Mutation_p.R196P	NM_001122636	NP_001116108	Q9HCQ5	GALT9_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	562	Ricin B-type lectin.|Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.241)		OV - Ovarian serous cystadenocarcinoma(86;7.49e-08)|Epithelial(86;3.55e-07)|all cancers(50;2.09e-05)		GCCCGTGGCCCGGCTCACAAT	0.637													7	52					0	0	0.00308	0	0		G	132681779	G	G	132681779	3	3	130	1	0	0	0	0	1	0	0	0	6235	652	23	5	130	5	GALNT9	12	132681779	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	287287	132681779	1170116	372	72018											
ATP12A	479	broad.mit.edu	37	chr13	25281425	25281425	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctgcctaggtcgcctgAtctttgacaacctcaagaag	9	11	8	13	1	3	3	1	2	2	1	5	3	3	3	3	1	2	0	3	1	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:25281425A>G	uc001upp.2	+	17	2534	c.2347A>G	c.(2347-2349)ATC>GTC	p.I783V	ATP12A_uc010aaa.2_Missense_Mutation_p.I789V	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	783	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	AGGTCGCCTGATCTTTGACAA	0.537													34	169					0	0	0.003755	0	0		G	25281425	G	G	25281425	3	3	130	1	0	0	0	0	1	0	0	0	1123	333	12	3	2431	3	ATP12A	13	25281425	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08		25281425	89888453	373	72019											
PABPC3	5042	broad.mit.edu	37	chr13	25671743	25671743	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcttcacaggttccacgAgtcatgtcaacgcagcgtgt	8	11	10	12	3	4	0	3	0	1	0	5	1	5	0	1	1	2	3	1	1	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:25671743A>G	uc001upy.2	+	1	1468	c.1407A>G	c.(1405-1407)CGA>CGG	p.R469R		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	469					mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		AGGTTCCACGAGTCATGTCAA	0.428													15	117					0	0	0.003163	0	0		G	25671743	G	G	25671743	2	3	130	1	0	0	0	0	0	0	0	1	11384	291	11	3		3	PABPC3	13	25671743	Silent	SNP	A	TCGA-CG-4437-01A-01D-1800-08	390318	25671743	89498135	374	72020											
SLC7A1	6541	broad.mit.edu	37	chr13	30109978	30109978	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgatgtaggagaggattaaGttccagccggtgatgaaggc	12	9	15	5	1	0	4	0	3	0	1	1	6	1	5	2	4	1	2	2	4	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:30109978G>A	uc001uso.2	-	3	735	c.348C>T	c.(346-348)AAC>AAT	p.N116N		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	116	Helical; (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AGAGGATTAAGTTCCAGCCGG	0.572													17	56					0	0	0.007413	0	0		A	30109978	A	A	30109978	2	1	130	1	0	0	0	0	0	0	0	1	14717	1020	36	4		4	SLC7A1	13	30109978	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	4438235	30109978	85059900	375	72021											
TRPC4	7223	broad.mit.edu	37	chr13	38237650	38237650	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caattgatttaggccatttgCaaatgctagcaacacaaggc	14	10	8	9	0	0	1	0	1	0	0	0	1	0	1	1	2	4	3	1	2	6	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:38237650C>A	uc001uws.2	-	6	1826	c.1591G>T	c.(1591-1593)GCA>TCA	p.A531S	TRPC4_uc010abv.2_Missense_Mutation_p.A111S|TRPC4_uc001uwt.2_Missense_Mutation_p.A531S|TRPC4_uc010tey.1_Missense_Mutation_p.A531S|TRPC4_uc010abw.2_Missense_Mutation_p.A358S|TRPC4_uc010abx.2_Missense_Mutation_p.A531S|TRPC4_uc010aby.2_Missense_Mutation_p.A531S	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	531	Helical; (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		AGGCCATTTGCAAATGCTAGC	0.378													24	54					5.45024e-15	6.20044e-15	0.00333	1	0		A	38237650	A	A	38237650	3	1	130	1	0	0	0	0	1	0	0	0	16606	710	25	5	1381	5	TRPC4	13	38237650	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	8127672	38237650	76932228	376	72022											
SLC25A15	10166	broad.mit.edu	37	chr13	41383755	41383755	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggagcactctttttggcCtacgaatatagcaggaagtt	12	12	10	7	1	1	0	0	0	1	0	1	3	1	2	1	3	3	3	1	3	6	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:41383755C>G	uc001uxn.2	+	7	1180	c.858C>G	c.(856-858)GCC>GCG	p.A286A	SUGT1L1_uc001uxp.1_Intron|SLC25A15_uc010tfb.1_Silent_p.A192A|SUGT1L1_uc001uxo.1_5'Flank|MIR621_hsa-mir-621|MI0003635_5'Flank	NM_014252	NP_055067	Q9Y619	ORNT1_HUMAN	mitochondrial ornithine transporter 1	286	Solcar 3.				cellular amino acid metabolic process|mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity				0		Lung NSC(96;3.55e-06)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;1.48e-08)|Epithelial(112;7.51e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000191)|GBM - Glioblastoma multiforme(144;0.00231)|BRCA - Breast invasive adenocarcinoma(63;0.0704)	L-Ornithine(DB00129)	TCTTTTTGGCCTACGAATATA	0.453													25	129					0	0	0.004656	0	0		G	41383755	G	G	41383755	2	3	130	1	0	0	0	0	0	0	0	1	14502	668	24	5		5	SLC25A15	13	41383755	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3146105	41383755	73786123	377	72023											
NUFIP1	26747	broad.mit.edu	37	chr13	45533532	45533532	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttaccagaatcactgtttatCaaaacaccaagaggatctgc	15	10	6	10	0	3	2	2	0	1	2	3	3	3	3	2	1	3	1	2	1	6	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:45533532C>G	uc001uzp.2	-	7	1047	c.1005G>C	c.(1003-1005)TTG>TTC	p.L335F		NM_012345	NP_036477	Q9UHK0	NUFP1_HUMAN	nuclear fragile X mental retardation protein	335					box C/D snoRNP assembly|positive regulation of transcription from RNA polymerase II promoter|RNA processing	actin cytoskeleton|cytosolic ribosome|nuclear matrix|nucleolus|perichromatin fibrils|pre-snoRNP complex|presynaptic active zone|transcription elongation factor complex	DNA binding|identical protein binding|protein binding, bridging|RNA binding|zinc ion binding				0		Lung NSC(96;8.23e-05)|Breast(139;0.00378)|Prostate(109;0.0107)|all_hematologic(4;0.014)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)|Acute lymphoblastic leukemia(4;0.143)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000306)|BRCA - Breast invasive adenocarcinoma(63;0.125)		CACTGTTTATCAAAACACCAA	0.403													9	157					0	0	0.006214	0	0		G	45533532	G	G	45533532	3	3	130	1	0	0	0	0	1	0	0	0	10767	825	29	5	498	5	NUFIP1	13	45533532	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	4149777	45533532	69636346	378	72024											
C13orf18	80183	broad.mit.edu	37	chr13	46930568	46930568	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccattatccgtacttactAggctctactggagttccaca	10	13	6	12	1	1	0	0	0	1	0	4	1	4	1	3	2	3	3	3	2	5	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:46930568A>C	uc010acl.2	-	10	1934	c.1329T>G	c.(1327-1329)CCT>CCG	p.P443P	C13orf18_uc001vbf.3_Silent_p.P376P|C13orf18_uc001vbg.3_Silent_p.P171P|C13orf18_uc010tfz.1_Silent_p.P286P|C13orf18_uc010acm.2_Silent_p.P308P|C13orf18_uc010acn.2_Silent_p.P228P|C13orf18_uc001vbe.3_Silent_p.P443P|C13orf18_uc001vbh.3_Silent_p.P443P|C13orf18_uc001vbi.3_Silent_p.P286P|C13orf18_uc010aco.1_Silent_p.P443P	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	443											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		CGTACTTACTAGGCTCTACTG	0.458													3	40					0	0	0.009096	0	0		C	46930568	C	C	46930568	2	2	130	1	0	0	0	0	0	0	0	1	1723	434	15	5		5	C13orf18	13	46930568	Silent	SNP	A	TCGA-CG-4437-01A-01D-1800-08	1397036	46930568	68239310	379	72025											
THSD1	55901	broad.mit.edu	37	chr13	52972273	52972273	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacatacactgtgtcgtTgcttagtgctacatggcctg	8	13	9	11	1	0	0	0	0	0	0	2	0	1	0	2	1	4	3	2	1	3	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:52972273T>A	uc001vgo.2	-	3	660	c.115A>T	c.(115-117)AAC>TAC	p.N39Y	THSD1_uc001vgp.2_Missense_Mutation_p.N39Y|THSD1_uc010tgz.1_Intron|THSD1_uc010aea.2_Intron	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	39	Extracellular (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		ACTGTGTCGTTGCTTAGTGCT	0.433													8	125					0	0	0.00308	0	0		A	52972273	A	A	52972273	3	1	130	1	0	0	0	0	1	0	0	0	15902	1812	63	5	2455	5	THSD1	13	52972273	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	6041705	52972273	62197605	380	72026											
LECT1	11061	broad.mit.edu	37	chr13	53298169	53298169	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtttggtcacggcgcccAcctcaggaatacgagccttc	7	10	10	14	3	3	0	2	0	1	0	4	2	3	1	3	3	2	1	3	3	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:53298169A>C	uc001vhf.2	-	4	542	c.431T>G	c.(430-432)GTG>GGG	p.V144G	LECT1_uc001vhg.2_Missense_Mutation_p.V144G|LECT1_uc001vhh.2_Intron	NM_007015	NP_008946	O75829	LECT1_HUMAN	leukocyte cell derived chemotaxin 1 isoform 1	144	BRICHOS.				cartilage development|proteoglycan metabolic process	endomembrane system|extracellular region|integral to membrane				ovary(2)	2		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.38e-08)		CACGGCGCCCACCTCAGGAAT	0.493													13	37					0	0	0.00245	0	0		C	53298169	C	C	53298169	3	2	130	1	0	0	0	0	1	0	0	0	8728	159	6	5	589	5	LECT1	13	53298169	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	325896	53298169	61871709	381	72027											
PCDH20	64881	broad.mit.edu	37	chr13	61987872	61987872	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcagtccccgggaggccagGctgaaggagagaggggggtt	8	5	19	9	1	1	2	1	1	0	1	2	5	2	4	3	7	0	2	3	7	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:61987872G>A	uc001vid.3	-	2	724	c.360C>T	c.(358-360)AGC>AGT	p.S120S	PCDH20_uc010thj.1_Silent_p.S120S	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	93	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		GGGAGGCCAGGCTGAAGGAGA	0.672													7	21					0	0	0.001984	0	0		A	61987872	A	A	61987872	2	1	130	1	0	0	0	0	0	0	0	1	11534	1194	42	2		2	PCDH20	13	61987872	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	8689703	61987872	53182006	382	72028											
KLHL1	57626	broad.mit.edu	37	chr13	70681469	70681469	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcctctagtgactccacGtagaagagagtcctggctgg	8	10	11	12	1	1	3	0	1	1	2	5	4	5	3	4	2	0	2	4	2	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:70681469G>A	uc001vip.2	-	1	1157	c.363C>T	c.(361-363)TAC>TAT	p.Y121Y	KLHL1_uc010thm.1_Silent_p.Y121Y|ATXN8OS_uc010aej.1_RNA	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	121					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		GTGACTCCACGTAGAAGAGAG	0.577													20	49					0	0	0.008871	0	0		A	70681469	A	A	70681469	2	1	130	1	0	0	0	0	0	0	0	1	8381	1140	40	1		1	KLHL1	13	70681469	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	8693597	70681469	44488409	383	72029											
SLITRK6	84189	broad.mit.edu	37	chr13	86369359	86369359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagaccaaggaacatgcCtttacttaatttggtcaggt	12	12	10	7	0	1	1	1	0	0	1	1	3	1	2	2	4	3	0	2	4	4	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:86369359C>T	uc001vll.1	-	2	1744	c.1285G>A	c.(1285-1287)GGC>AGC	p.G429S	SLITRK6_uc010afe.1_Intron	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	429	Extracellular (Potential).|LRR 8.					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		AGGAACATGCCTTTACTTAAT	0.338													9	48					0	0	0.004482	0	0		T	86369359	T	T	86369359	3	4	130	1	0	0	0	0	1	0	0	0	14772	681	24	4	1244	4	SLITRK6	13	86369359	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	15687890	86369359	28800519	384	72030											
COL4A1	1282	broad.mit.edu	37	chr13	110815821	110815821	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaacctaccagtaggcccgGcaggtcccatctctcctttc	7	9	8	17	1	1	0	0	0	1	0	5	0	3	0	5	3	2	3	5	3	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr13:110815821G>T	uc001vqw.3	-	47	4360	c.4238C>A	c.(4237-4239)GCC>GAC	p.A1413D	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1413	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			AGTAGGCCCGGCAGGTCCCAT	0.542													15	18					1.3612e-06	1.44773e-06	0.003163	1	0		T	110815821	T	T	110815821	3	4	130	1	0	0	0	0	1	0	0	0	3692	1203	42	5	795	5	COL4A1	13	110815821	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	24446462	110815821	4354057	385	72031											
SUPT16H	11198	broad.mit.edu	37	chr14	21829373	21829373	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatttgatgctcggtatgtaCtgcagaaaagcaacagcatt	13	12	9	7	1	0	2	0	1	0	1	1	2	0	2	0	1	6	6	0	1	6	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:21829373C>T	uc001wao.2	-	16	2133	c.1794_splice	c.e16-1	p.I598_splice	SUPT16H_uc001wan.2_5'Flank	NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation						DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		TCGGTATGTACTGCAGAAAAG	0.378													25	57					0	0	0.00333	0	0		T	21829373	T	T	21829373	5	4	130	1	0	0	0	0	0	0	1	0	15421	579	20	4	1394	4	SUPT16H	14	21829373	Splice_Site	SNP	C	TCGA-CG-4437-01A-01D-1800-08		21829373	85520167	386	72032											
ACIN1	22985	broad.mit.edu	37	chr14	23531679	23531679	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaaggcctcttccaccaaGgttcctgtgcgccccaacaa	10	7	8	16	1	1	1	0	0	1	1	3	1	3	1	6	2	2	1	6	2	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:23531679G>T	uc001wit.3	-	15	3439	c.3111C>A	c.(3109-3111)ACC>ACA	p.T1037T	ACIN1_uc001wio.3_RNA|ACIN1_uc001wip.3_Silent_p.T279T|ACIN1_uc001wiq.3_Silent_p.T279T|ACIN1_uc001wir.3_Silent_p.T310T|ACIN1_uc001wis.3_Silent_p.T718T|ACIN1_uc010akg.2_Silent_p.T1024T	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	1037					apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		CTTCCACCAAGGTTCCTGTGC	0.468													53	248					1.13205e-32	1.32977e-32	0.01441	1	0		T	23531679	T	T	23531679	2	4	130	1	0	0	0	0	0	0	0	1	142	987	35	5		5	ACIN1	14	23531679	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1702306	23531679	83817861	387	72033											
NFATC4	4776	broad.mit.edu	37	chr14	24842993	24842993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcaaaaacacacgtgtacGgctggtgttccgggtacacg	10	7	13	11	5	0	0	0	0	0	0	1	0	1	0	1	3	3	5	1	3	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:24842993G>A	uc001wpc.2	+	5	1973	c.1652G>A	c.(1651-1653)CGG>CAG	p.R551Q	NFATC4_uc010tok.1_Missense_Mutation_p.R614Q|NFATC4_uc010tol.1_Missense_Mutation_p.R614Q|NFATC4_uc010alr.2_Missense_Mutation_p.R614Q|NFATC4_uc010als.2_Missense_Mutation_p.R564Q|NFATC4_uc010tom.1_Missense_Mutation_p.R564Q|NFATC4_uc010ton.1_Missense_Mutation_p.R564Q|NFATC4_uc010too.1_Missense_Mutation_p.R564Q|NFATC4_uc010alt.2_Missense_Mutation_p.R583Q|NFATC4_uc010top.1_Missense_Mutation_p.R583Q|NFATC4_uc010toq.1_Missense_Mutation_p.R583Q|NFATC4_uc010alu.2_Missense_Mutation_p.R243Q|NFATC4_uc010tor.1_Missense_Mutation_p.R551Q|NFATC4_uc010tos.1_Missense_Mutation_p.R481Q|NFATC4_uc010tot.1_Missense_Mutation_p.R539Q|NFATC4_uc010tou.1_Missense_Mutation_p.R481Q|NFATC4_uc010tov.1_Missense_Mutation_p.R539Q|NFATC4_uc010tow.1_Missense_Mutation_p.R481Q|NFATC4_uc010alv.2_Missense_Mutation_p.R539Q|NFATC4_uc010tox.1_Missense_Mutation_p.R481Q|NFATC4_uc001wpd.2_Missense_Mutation_p.R86Q|NFATC4_uc010toy.1_Missense_Mutation_p.R86Q|NFATC4_uc010toz.1_Missense_Mutation_p.R86Q|NFATC4_uc010tpa.1_5'UTR|NFATC4_uc010tpb.1_5'UTR	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	551	RHD.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		ACACGTGTACGGCTGGTGTTC	0.607													11	72					0	0	0.008291	0	0		A	24842993	A	A	24842993	3	1	130	1	0	0	0	0	1	0	0	0	10384	1116	39	1	1863	1	NFATC4	14	24842993	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1311314	24842993	82506547	388	72034											
FOXG1	2290	broad.mit.edu	37	chr14	29237640	29237640	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacggccgccgcgctagcCgcctcggtgccctgcggcct	2	6	13	20	7	1	0	1	0	0	0	2	0	1	0	6	3	3	1	6	3	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:29237640C>T	uc001wqe.2	+	1	1354	c.1155C>T	c.(1153-1155)GCC>GCT	p.A385A		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	385	Interaction with KDM5B.			A -> T (in Ref. 1; CAA52240 and 2; CAA55038).	axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		CCGCGCTAGCCGCCTCGGTGC	0.677													11	24					0	0	0.013537	0	0		T	29237640	T	T	29237640	2	4	130	1	0	0	0	0	0	0	0	1	6021	639	23	1		1	FOXG1	14	29237640	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	4394647	29237640	78111900	389	72035											
SNX6	58533	broad.mit.edu	37	chr14	35036958	35036958	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatgcagcaactcttctTgtcttaaaatctataagttc	12	15	5	9	0	4	1	0	1	4	0	5	1	4	1	0	0	3	3	0	0	6	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:35036958T>C	uc001wsf.1	-	13	1145	c.1137A>G	c.(1135-1137)ACA>ACG	p.T379T	SNX6_uc001wse.1_Silent_p.T251T|SNX6_uc010tpm.1_Silent_p.T255T	NM_152233	NP_689419	Q9UNH7	SNX6_HUMAN	sorting nexin 6 isoform b	367					cell communication|intracellular protein transport|negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent|negative regulation of transforming growth factor beta receptor signaling pathway|retrograde transport, endosome to Golgi	cytoplasmic vesicle membrane|early endosome membrane|nucleus	phosphatidylinositol binding|protein homodimerization activity				0	Breast(36;0.0473)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00199)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.0245)		CAACTCTTCTTGTCTTAAAAT	0.279													7	37					0	0	0.001984	0	0		C	35036958	C	C	35036958	2	2	130	1	0	0	0	0	0	0	0	1	14931	1799	63	3		3	SNX6	14	35036958	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	5799318	35036958	72312582	390	72036											
PELI2	57161	broad.mit.edu	37	chr14	56757161	56757161	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaccaggtcggcccagcAacgaggaaagctggtgagtg	13	4	15	9	2	0	2	0	1	0	1	1	4	0	3	2	4	4	2	2	4	3	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:56757161A>C	uc001xch.2	+	5	969	c.683A>C	c.(682-684)CAA>CCA	p.Q228P		NM_021255	NP_067078	Q9HAT8	PELI2_HUMAN	pellino 2	228					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1						TCGGCCCAGCAACGAGGAAAG	0.557													30	90					0	0	0.010818	0	0		C	56757161	C	C	56757161	3	2	130	1	0	0	0	0	1	0	0	0	11741	130	5	5	701	5	PELI2	14	56757161	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	21720203	56757161	50592379	391	72037											
SLC38A6	145389	broad.mit.edu	37	chr14	61449344	61449344	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttttggctaataccggtgTctttggatttaggtgagtct	6	18	12	5	1	2	1	0	1	2	0	2	2	2	2	1	4	1	2	1	4	3	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:61449344T>G	uc001xfg.1	+	2	340	c.224T>G	c.(223-225)GTC>GGC	p.V75G	SLC38A6_uc001xfh.1_Missense_Mutation_p.V75G|SLC38A6_uc001xfi.2_RNA|SLC38A6_uc001xfj.1_RNA|SLC38A6_uc001xfk.2_RNA|SLC38A6_uc010trz.1_Missense_Mutation_p.V52G|TRMT5_uc001xff.3_5'Flank	NM_153811	NP_722518	Q8IZM9	S38A6_HUMAN	solute carrier family 38, member 6	75					amino acid transport|sodium ion transport	integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(108;0.0981)		AATACCGGTGTCTTTGGATTT	0.363													11	105					0	0	0.010729	0	0		G	61449344	G	G	61449344	3	3	130	1	0	0	0	0	1	0	0	0	14633	1667	58	5	230	5	SLC38A6	14	61449344	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	4692183	61449344	45900196	392	72038											
ESR2	2100	broad.mit.edu	37	chr14	64699872	64699872	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcactgagactgtgggtTctgggagccctctttgcttt	4	14	13	10	1	3	1	1	1	2	1	3	3	3	2	1	2	2	2	1	2	0	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:64699872T>A	uc001xha.1	-	9	2044	c.1576A>T	c.(1576-1578)AAC>TAC	p.N526Y	ESR2_uc001xgu.2_Intron|ESR2_uc001xgv.2_Intron|ESR2_uc001xgw.2_Intron|ESR2_uc001xgx.2_Intron|ESR2_uc001xgy.1_Intron|ESR2_uc001xgz.1_3'UTR|ESR2_uc010aqb.1_RNA|ESR2_uc010aqc.1_Missense_Mutation_p.N435Y	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1	526	Steroid-binding.				cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	GACTGTGGGTTCTGGGAGCCC	0.607													20	54					0	0	0.012319	0	0		A	64699872	A	A	64699872	3	1	130	1	0	0	0	0	1	0	0	0	5265	1783	62	5	106	5	ESR2	14	64699872	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	3250528	64699872	42649668	393	72039											
RDH11	51109	broad.mit.edu	37	chr14	68159758	68159758	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgatgtacacaccccactgGacagcattttcctgcagaca	11	10	7	13	0	0	2	0	1	0	1	1	3	1	3	3	1	3	3	3	1	1	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:68159758G>T	uc001xjv.3	-	2	176	c.86C>A	c.(85-87)TCC>TAC	p.S29Y	RDH11_uc001xjw.3_Missense_Mutation_p.S29Y|RDH11_uc001xjx.3_Missense_Mutation_p.S29Y	NM_016026	NP_057110	Q8TC12	RDH11_HUMAN	retinol dehydrogenase 11	29	Cytoplasmic (Potential).				retinol metabolic process|steroid metabolic process	endoplasmic reticulum membrane|integral to membrane	binding|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(1)	1				all cancers(60;0.00047)|OV - Ovarian serous cystadenocarcinoma(108;0.00206)|BRCA - Breast invasive adenocarcinoma(234;0.00924)	Vitamin A(DB00162)	CACCCCACTGGACAGCATTTT	0.502													15	48					5.01169e-05	5.21703e-05	0.00499	1	0		T	68159758	T	T	68159758	3	4	130	1	0	0	0	0	1	0	0	0	13215	1174	41	5	894	5	RDH11	14	68159758	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3459886	68159758	39189782	394	72040											
MED6	10001	broad.mit.edu	37	chr14	71063376	71063376	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgaatgatgaaaagaatggGctcttgagcatgcaaaagga	16	7	12	6	1	1	4	0	3	1	1	1	6	1	5	1	2	2	3	1	2	6	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:71063376G>A	uc001xmf.2	-	3	256	c.226C>T	c.(226-228)CCC>TCC	p.P76S	MED6_uc010tth.1_Missense_Mutation_p.P76S|MED6_uc010tti.1_Missense_Mutation_p.P76S|MED6_uc001xmg.1_Missense_Mutation_p.P76S|MED6_uc010ttj.1_Missense_Mutation_p.P76S	NM_005466	NP_005457	O75586	MED6_HUMAN	mediator of RNA polymerase II transcription,	76					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex	transcription coactivator activity				0				all cancers(60;0.00315)|BRCA - Breast invasive adenocarcinoma(234;0.00685)|OV - Ovarian serous cystadenocarcinoma(108;0.0352)		AAAAGAATGGGCTCTTGAGCA	0.373													10	61					0	0	0.013537	0	0		A	71063376	A	A	71063376	3	1	130	1	0	0	0	0	1	0	0	0	9469	1203	42	2	538	2	MED6	14	71063376	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2903618	71063376	36286164	395	72041											
DCAF4	26094	broad.mit.edu	37	chr14	73422256	73422256	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgctgtttaatggctgccGctctggggaaatctttgcca	6	14	11	10	1	3	0	0	0	3	0	3	1	3	1	2	3	3	4	2	3	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:73422256G>A	uc001xng.2	+	12	1251	c.1031G>A	c.(1030-1032)CGC>CAC	p.R344H	DCAF4_uc001xnj.2_Missense_Mutation_p.R338H|DCAF4_uc010ttr.1_Missense_Mutation_p.R323H|DCAF4_uc001xnh.2_Missense_Mutation_p.R244H|DCAF4_uc010tts.1_Missense_Mutation_p.R284H|DCAF4_uc010ttt.1_Missense_Mutation_p.R130H|DCAF4_uc001xni.2_Missense_Mutation_p.R174H|DCAF4_uc001xnk.2_Missense_Mutation_p.R344H	NM_015604	NP_056419	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4 isoform 1	344						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)|skin(1)	3						AATGGCTGCCGCTCTGGGGAA	0.562													57	190					0	0	0.01441	0	0		A	73422256	A	A	73422256	3	1	130	1	0	0	0	0	1	0	0	0	4273	1087	38	1	1076	1	DCAF4	14	73422256	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2358880	73422256	33927284	396	72042											
C14orf115	55237	broad.mit.edu	37	chr14	74823592	74823592	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgcttccttggaggccaagCaggtcctgtcttccttcact	5	13	10	13	0	2	0	1	0	1	0	5	1	5	1	4	3	2	2	4	3	1	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:74823592C>G	uc001xpw.3	+	2	297	c.106C>G	c.(106-108)CAG>GAG	p.Q36E		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	36					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		GGAGGCCAAGCAGGTCCTGTC	0.622													25	60					0	0	0.00333	0	0		G	74823592	G	G	74823592	3	3	130	1	0	0	0	0	1	0	0	0	1743	711	25	5	108	5	C14orf115	14	74823592	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1401336	74823592	32525948	397	72043											
FLRT2	23768	broad.mit.edu	37	chr14	86088581	86088581	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttcaattgtacgtaattcGctgtcccaccctcctcccga	7	14	5	15	3	1	0	1	0	0	0	5	1	4	0	4	0	1	3	4	0	3	6	rs145351543	byFrequency	TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:86088581G>A	uc001xvr.2	+	2	1490	c.723G>A	c.(721-723)TCG>TCA	p.S241S	FLRT2_uc010atd.2_Silent_p.S241S	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	241	Extracellular (Potential).|LRR 8.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		TACGTAATTCGCTGTCCCACC	0.502													25	85					0	0	0.00333	0	0		A	86088581	A	A	86088581	2	1	130	1	0	0	0	0	0	0	0	1	5953	1074	38	1		1	FLRT2	14	86088581	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	11264989	86088581	21260959	398	72044											
SERPINA10	51156	broad.mit.edu	37	chr14	94756223	94756223	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atcaaagtacctttgaacaaGatgtaatccacaagaattaa	19	10	5	7	0	1	3	1	1	0	2	2	3	2	3	2	0	2	2	2	0	8	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr14:94756223G>C	uc001yct.2	-	2	1174	c.708C>G	c.(706-708)ATC>ATG	p.I236M	SERPINA10_uc001ycu.3_Missense_Mutation_p.I236M	NM_016186	NP_057270	Q9UK55	ZPI_HUMAN	serine (or cysteine) proteinase inhibitor, clade	236					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_cancers(154;0.105)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)		CTTTGAACAAGATGTAATCCA	0.413													11	52					0	0	0.010729	0	0		C	94756223	C	C	94756223	3	2	130	1	0	0	0	0	1	0	0	0	14112	932	33	5	642	5	SERPINA10	14	94756223	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	8667642	94756223	12593317	399	72045											
ATP10A	57194	broad.mit.edu	37	chr15	25966922	25966922	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatctgtcctaagtcttcCgtgatgttcagagctcggca	7	14	10	10	2	3	2	1	1	2	1	6	2	5	2	2	1	1	4	2	1	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:25966922C>T	uc010ayu.2	-	7	1351	c.1245G>A	c.(1243-1245)ACG>ACA	p.T415T		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	415	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CTAAGTCTTCCGTGATGTTCA	0.423													38	81					0	0	0.010771	0	0		T	25966922	T	T	25966922	2	4	130	1	0	0	0	0	0	0	0	1	1117	639	23	1		1	ATP10A	15	25966922	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08		25966922	76564470	400	72046											
TRPM1	4308	broad.mit.edu	37	chr15	31362292	31362292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaactccataggaatctgttGggtagctctgggtgtgcttg	7	13	14	7	0	2	0	0	0	2	0	3	2	3	1	1	3	3	4	1	3	4	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:31362292G>A	uc001zfm.2	-	3	283	c.155C>T	c.(154-156)CCA>CTA	p.P52L	TRPM1_uc010azy.2_5'Flank|TRPM1_uc001zfl.2_5'Flank|TRPM1_uc001zfn.3_Missense_Mutation_p.P52L|uc010ubn.1_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	52	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		GGAATCTGTTGGGTAGCTCTG	0.493													165	352					0	0	0.01441	0	0		A	31362292	A	A	31362292	3	1	130	1	0	0	0	0	1	0	0	0	16611	1348	47	4	4756	4	TRPM1	15	31362292	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	5395370	31362292	71169100	401	72047											
RYR3	6263	broad.mit.edu	37	chr15	34080419	34080420	+	Missense_Mutation	DNP	TG	CA	CA																															gaggctctttgtaaacgcagTgtatgcacagcccatcatca																										TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:34080419_34080420TG>CA	uc001zhi.2	+	67	9660_9661	c.9590_9591TG>CA	c.(9589-9591)GTG>GCA	p.V3197A	RYR3_uc010bar.2_Missense_Mutation_p.V3197A	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3197					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GTAAACGCAGTGTATGCACAGC	0.5													23	154					0	0	0.004672	0	0		CA	34080420	CA	CA	34080419	3	2	130	1	0	0	0	0	1	0	0	0	13795	1710	59	3	9856	3	RYR3	15	34080419	Missense_Mutation	DNP	TG	TCGA-CG-4437-01A-01D-1800-08	2718127	34080419	68450973	402	72048											
DISP2	85455	broad.mit.edu	37	chr15	40657356	40657356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctccacttcagctcgagctCccacaacactctgaggcctg	8	9	7	17	1	3	1	1	1	2	0	6	2	4	1	3	1	3	2	3	1	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:40657356C>T	uc001zlk.1	+	6	817	c.728C>T	c.(727-729)TCC>TTC	p.S243F		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	243					smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		AGCTCGAGCTCCCACAACACT	0.602													19	109					0	0	0.007413	0	0		T	40657356	T	T	40657356	3	4	130	1	0	0	0	0	1	0	0	0	4546	855	30	4	750	4	DISP2	15	40657356	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	6576937	40657356	61874036	403	72049											
CASC5	57082	broad.mit.edu	37	chr15	40914168	40914168	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaagactgaactcttatcagGtgaaaatatggatttgactg	15	12	9	5	0	2	4	1	3	1	1	2	5	2	5	0	2	1	0	0	2	6	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:40914168G>C	uc010bbs.1	+	11	1945	c.1784G>C	c.(1783-1785)GGT>GCT	p.G595A	CASC5_uc010ucq.1_Missense_Mutation_p.G419A|CASC5_uc001zme.2_Missense_Mutation_p.G569A|CASC5_uc010bbt.1_Missense_Mutation_p.G569A	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	595	Interaction with BUB1 and BUB1B.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		CTCTTATCAGGTGAAAATATG	0.393													3	47					0	0	0.004672	0	0		C	40914168	C	C	40914168	3	2	130	1	0	0	0	0	1	0	0	0	2666	1261	44	5	1822	5	CASC5	15	40914168	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	256812	40914168	61617224	404	72050											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42138151	42138151	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctctttcaggtatctggagCaacctgtatgcagccaacct	9	11	9	12	0	3	0	1	0	2	0	3	1	3	1	3	2	5	5	3	2	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:42138151C>T	uc010bco.2	+	16	1607	c.1506C>T	c.(1504-1506)AGC>AGT	p.S502S	JMJD7-PLA2G4B_uc001zoo.3_Silent_p.S733S|JMJD7-PLA2G4B_uc010bcn.2_Silent_p.S733S|JMJD7-PLA2G4B_uc001zoq.3_Silent_p.S203S|JMJD7-PLA2G4B_uc001zor.1_Silent_p.S203S	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	502	PLA2c.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						GTATCTGGAGCAACCTGTATG	0.602													12	45					0	0	0.001855	0	0		T	42138151	T	T	42138151	2	4	130	1	0	0	0	0	0	0	0	1	7971	709	25	2		2	JMJD7-PLA2G4B	15	42138151	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1223983	42138151	60393241	405	72051											
GLDN	342035	broad.mit.edu	37	chr15	51687079	51687079	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gggaaaggggagaaaagggaGaccatggtgaactgggcctg	13	4	19	5	0	0	3	0	1	0	2	0	6	0	4	2	6	1	0	2	6	4	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:51687079G>C	uc002aba.2	+	5	758	c.589G>C	c.(589-591)GAC>CAC	p.D197H	GLDN_uc002abb.2_Missense_Mutation_p.D73H	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	197	Collagen-like 2.|Extracellular (Potential).				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		AGAAAAGGGAGACCATGGTGA	0.527													9	38					0	0	0.010729	0	0		C	51687079	C	C	51687079	3	2	130	1	0	0	0	0	1	0	0	0	6449	942	33	5	607	5	GLDN	15	51687079	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	9548928	51687079	50844313	406	72052											
CGNL1	84952	broad.mit.edu	37	chr15	57808977	57808977	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttgctttgtgtttttaacaGaatgtcgaggtcttggcgag	7	17	12	5	2	1	1	0	0	1	1	2	3	1	1	0	2	2	2	0	2	2	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:57808977G>C	uc002aeg.2	+	9	2480	c.2404_splice	c.e9-1	p.N802_splice	CGNL1_uc010bfw.2_Splice_Site_p.N802_splice	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1							myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		GTTTTTAACAGAATGTCGAGG	0.507													6	31					0	0	0.001168	0	0		C	57808977	C	C	57808977	5	2	130	1	0	0	0	0	0	0	1	0	3307	956	33	5	2433	5	CGNL1	15	57808977	Splice_Site	SNP	G	TCGA-CG-4437-01A-01D-1800-08	6121898	57808977	44722415	407	72053											
CGNL1	84952	broad.mit.edu	37	chr15	57815798	57815798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaacgagatggagaatgagCggtggcacctgggcaaaacc	14	4	15	8	2	0	4	0	1	0	3	0	6	0	4	2	4	3	2	2	4	4	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:57815798C>T	uc002aeg.2	+	11	2903	c.2827C>T	c.(2827-2829)CGG>TGG	p.R943W	CGNL1_uc010bfw.2_Missense_Mutation_p.R943W	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	943	Potential.					myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		GGAGAATGAGCGGTGGCACCT	0.527													24	66					0	0	0.00333	0	0		T	57815798	T	T	57815798	3	4	130	1	0	0	0	0	1	0	0	0	3307	759	27	1	2865	1	CGNL1	15	57815798	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	6821	57815798	44715594	408	72054											
APH1B	83464	broad.mit.edu	37	chr15	63571457	63571457	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atggaccaacacagaaatatCtgctgatctttggagcgttt	12	12	9	8	1	2	2	0	1	2	1	2	4	2	4	1	2	3	2	1	2	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:63571457C>G	uc002ama.2	+	2	285	c.211C>G	c.(211-213)CTG>GTG	p.L71V	APH1B_uc002amb.2_Missense_Mutation_p.L71V|APH1B_uc010bgq.2_Missense_Mutation_p.L17V|APH1B_uc010bgr.2_Missense_Mutation_p.L17V	NM_031301	NP_112591	Q8WW43	APH1B_HUMAN	presenilin stabilization factor-like isoform 1	71	Helical; Name=3; (Potential).				apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	integral to membrane|plasma membrane|transport vesicle	peptidase activity|protein binding				0						ACAGAAATATCTGCTGATCTT	0.378													32	105					0	0	0.010818	0	0		G	63571457	G	G	63571457	3	3	130	1	0	0	0	0	1	0	0	0	772	912	32	5	217	5	APH1B	15	63571457	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	5755659	63571457	38959935	409	72055											
TRIP4	9325	broad.mit.edu	37	chr15	64686249	64686249	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attcatagaagaacttataaCcaaatggcaaaagaatgatc	20	9	6	6	0	1	4	1	1	0	3	2	4	1	4	1	1	2	1	1	1	9	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:64686249C>A	uc002anm.2	+	2	249	c.206C>A	c.(205-207)ACC>AAC	p.T69N		NM_016213	NP_057297	Q15650	TRIP4_HUMAN	thyroid hormone receptor interactor 4	69					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ligand-dependent nuclear receptor binding|transcription coactivator activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3						GAACTTATAACCAAATGGCAA	0.348													8	39					1.12685e-05	1.18561e-05	0.004482	1	0		A	64686249	A	A	64686249	3	1	130	1	0	0	0	0	1	0	0	0	16584	507	18	5	212	5	TRIP4	15	64686249	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1114792	64686249	37845143	410	72056											
PIF1	80119	broad.mit.edu	37	chr15	65113607	65113607	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaacaggtctgcctccacCattgagatctcgtcaatgac	11	10	7	13	1	4	2	2	2	2	1	6	3	5	2	3	1	2	0	3	1	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:65113607C>G	uc002ant.2	-	5	996	c.930G>C	c.(928-930)ATG>ATC	p.M310I	PIF1_uc002anr.2_5'Flank|PIF1_uc002ans.2_Missense_Mutation_p.M1I|PIF1_uc010uiq.1_Missense_Mutation_p.M310I	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	310	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0						CTGCCTCCACCATTGAGATCT	0.617													13	152					0	0	0.001855	0	0		G	65113607	G	G	65113607	3	3	130	1	0	0	0	0	1	0	0	0	11902	594	21	5	1031	5	PIF1	15	65113607	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	427358	65113607	37417785	411	72057											
IQCH	64799	broad.mit.edu	37	chr15	67768148	67768148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggcccatggcattggctatGatgttgaggtatgaagggtt	8	12	16	5	0	0	3	0	3	0	0	0	3	0	3	1	5	0	5	1	5	3	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:67768148G>A	uc002aqo.1	+	18	2838	c.2791G>A	c.(2791-2793)GAT>AAT	p.D931N	IQCH_uc002aqq.1_Missense_Mutation_p.D588N|IQCH_uc002aqp.1_Missense_Mutation_p.D592N|uc002aqr.1_Intron	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	931										skin(3)|ovary(1)	4				Colorectal(3;0.0856)		CATTGGCTATGATGTTGAGGT	0.483													28	44					0	0	0.00632	0	0		A	67768148	A	A	67768148	3	1	130	1	0	0	0	0	1	0	0	0	7827	1290	45	4	2989	4	IQCH	15	67768148	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2654541	67768148	34763244	412	72058											
THAP10	56906	broad.mit.edu	37	chr15	71174850	71174850	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaatcactctgttcactCttgatatcccagtctgtatc	10	14	5	12	0	5	1	2	1	3	0	7	2	6	1	1	0	0	2	1	0	3	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:71174850C>A	uc002asv.2	-	3	859	c.717G>T	c.(715-717)AAG>AAT	p.K239N	LRRC49_uc002asu.2_Intron	NM_020147	NP_064532	Q9P2Z0	THA10_HUMAN	THAP domain containing 10	239							DNA binding|metal ion binding			ovary(1)|skin(1)	2						TCTGTTCACTCTTGATATCCC	0.368													79	102					2.16136e-38	2.54758e-38	0.01441	1	0		A	71174850	A	A	71174850	3	1	130	1	0	0	0	0	1	0	0	0	15867	912	32	5	60	5	THAP10	15	71174850	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3406702	71174850	31356542	413	72059											
MAN2C1	4123	broad.mit.edu	37	chr15	75648717	75648717	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggcgggcgctgggctGggggctggcagagccaacag	6	4	22	9	2	0	1	0	0	0	1	0	2	0	1	1	7	2	4	1	7	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:75648717G>C	uc002baf.2	-	24	2828	c.2811C>G	c.(2809-2811)CCC>CCG	p.P937P	MIR631_hsa-mir-631|MI0003645_5'Flank|MAN2C1_uc002bag.2_Silent_p.P914P|MAN2C1_uc002bah.2_Silent_p.P954P|MAN2C1_uc010bkk.2_Silent_p.P838P	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	937					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						GCGCTGGGCTGGGGGCTGGCA	0.622													8	19					0	0	0.00308	0	0		C	75648717	C	C	75648717	2	2	130	1	0	0	0	0	0	0	0	1	9236	1335	47	5		5	MAN2C1	15	75648717	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	4473867	75648717	26882675	414	72060											
KIAA1199	57214	broad.mit.edu	37	chr15	81235367	81235367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagggcgcgtggtgagcCacacgagcttcaggaactcc	10	5	13	13	3	1	1	1	1	0	0	2	3	2	2	3	3	3	1	3	3	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:81235367C>T	uc002bfw.1	+	27	4041	c.3781C>T	c.(3781-3783)CAC>TAC	p.H1261Y	KIAA1199_uc010unn.1_Missense_Mutation_p.H1261Y	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	1261										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CGTGGTGAGCCACACGAGCTT	0.552													45	383					0	0	0.01441	0	0		T	81235367	T	T	81235367	3	4	130	1	0	0	0	0	1	0	0	0	8229	594	21	4	3883	4	KIAA1199	15	81235367	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	5586650	81235367	21296025	415	72061											
FSD2	123722	broad.mit.edu	37	chr15	83437669	83437669	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggactttcagcctgggTcagctccacagtgtacgagt	7	12	11	11	1	3	0	2	0	1	0	4	2	4	1	2	2	3	2	2	2	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:83437669T>A	uc002bjd.2	-	9	1683	c.1516A>T	c.(1516-1518)ACC>TCC	p.T506S	FSD2_uc010uol.1_Missense_Mutation_p.T461S|FSD2_uc010uom.1_Missense_Mutation_p.T461S	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	506	Fibronectin type-III 2.									central_nervous_system(1)	1						TCAGCCTGGGTCAGCTCCACA	0.512													4	21					0	0	0.009096	0	0		A	83437669	A	A	83437669	3	1	130	1	0	0	0	0	1	0	0	0	6085	1667	58	5	753	5	FSD2	15	83437669	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	2202302	83437669	19093723	416	72062											
NMB	4828	broad.mit.edu	37	chr15	85200517	85200517	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtccctcagggaggtgtGgggagctgtccccaatgggg	5	8	18	10	0	1	0	1	0	0	0	3	2	3	2	3	7	1	1	3	7	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:85200517G>A	uc002bkz.2	-	2	639	c.220C>T	c.(220-222)CAC>TAC	p.H74Y	WDR73_uc002bkw.2_5'Flank|WDR73_uc002bkx.2_5'Flank|WDR73_uc010upa.1_5'Flank|NMB_uc002bla.2_Missense_Mutation_p.H74Y	NM_021077	NP_066563	P08949	NMB_HUMAN	neuromedin B isoform 1	74				PLGTAPHTS -> HWGQLPTPP (in Ref. 1; AAA59934).	cell-cell signaling|neuropeptide signaling pathway	extracellular region|soluble fraction	hormone activity				0				all cancers(203;3.5e-06)		AGGGAGGTGTGGGGAGCTGTC	0.607													7	4					0	0	0.001984	0	0		A	85200517	A	A	85200517	3	1	130	1	0	0	0	0	1	0	0	0	10505	1348	47	4	257	4	NMB	15	85200517	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1762848	85200517	17330875	417	72063											
KLHL25	64410	broad.mit.edu	37	chr15	86311917	86311917	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatggccaaagcgggcaatCagcatgggcgccgccttgga	9	5	14	13	3	1	0	1	0	0	0	1	1	1	1	4	4	2	2	4	4	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:86311917C>T	uc002bly.2	-	2	1328	c.1125G>A	c.(1123-1125)CTG>CTA	p.L375L		NM_022480	NP_071925	Q9H0H3	ENC2_HUMAN	BTB/POZ KELCH domain protein	375	Kelch 2.					cytoplasm				ovary(2)	2						AGCGGGCAATCAGCATGGGCG	0.627													5	53					0	0	0.001168	0	0		T	86311917	T	T	86311917	2	4	130	1	0	0	0	0	0	0	0	1	8396	813	29	4		4	KLHL25	15	86311917	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1111400	86311917	16219475	418	72064											
FURIN	5045	broad.mit.edu	37	chr15	91424224	91424224	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggggctgcccgtacctccAgaaagcagtggctgcaagac	10	5	14	12	1	0	2	0	0	0	2	1	3	1	2	3	3	4	5	3	3	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:91424224A>G	uc002bpu.1	+	15	1962	c.1746A>G	c.(1744-1746)CCA>CCG	p.P582P		NM_002569	NP_002560	P09958	FURIN_HUMAN	furin preproprotein	582	Cys-rich.				cell proliferation|negative regulation of low-density lipoprotein particle receptor catabolic process|negative regulation of transforming growth factor-beta1 production|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|Notch signaling pathway|peptide biosynthetic process|peptidyl-glutamic acid carboxylation|post-translational protein modification|secretion by cell|signal peptide processing|transforming growth factor beta receptor signaling pathway|viral assembly, maturation, egress, and release	cell surface|Golgi lumen|Golgi membrane|integral to membrane|membrane raft|plasma membrane|trans-Golgi network|trans-Golgi network transport vesicle	metal ion binding|nerve growth factor binding|peptide binding|protease binding|serine-type endopeptidase activity|serine-type endopeptidase inhibitor activity			central_nervous_system(4)|lung(2)|breast(1)	7	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			CCGTACCTCCAGAAAGCAGTG	0.622													5	110					0	0	0.001168	0	0		G	91424224	G	G	91424224	2	3	130	1	0	0	0	0	0	0	0	1	6113	175	7	3		3	FURIN	15	91424224	Silent	SNP	A	TCGA-CG-4437-01A-01D-1800-08	5112307	91424224	11107168	419	72065											
ST8SIA2	8128	broad.mit.edu	37	chr15	93007443	93007443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacggcttctggccctttcCgctggatcagaaccagaacc	8	9	9	15	2	2	2	1	0	1	2	3	3	3	3	4	3	3	2	4	3	3	3	rs143696221	by1000genomes	TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr15:93007443C>T	uc002bra.2	+	6	1111	c.956C>T	c.(955-957)CCG>CTG	p.P319L	ST8SIA2_uc002brb.2_Missense_Mutation_p.P298L	NM_006011	NP_006002	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide	319	Lumenal (Potential).				axon guidance|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity				0	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			TGGCCCTTTCCGCTGGATCAG	0.517													42	42					0	0	0.010771	0	0		T	93007443	T	T	93007443	3	4	130	1	0	0	0	0	1	0	0	0	15257	652	23	1	978	1	ST8SIA2	15	93007443	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1583219	93007443	9523949	420	72066											
RHBDL1	9028	broad.mit.edu	37	chr16	727688	727688	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttgctgaggatggtgctggCcttggtgtgcagtgagtagg	5	12	19	5	0	0	2	0	2	0	0	0	3	0	3	1	5	3	5	1	5	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:727688C>A	uc002cis.1	+	6	1061	c.1034C>A	c.(1033-1035)GCC>GAC	p.A345D	RHBDL1_uc002cir.1_Missense_Mutation_p.A280D|RHBDL1_uc010uun.1_Silent_p.G306G|STUB1_uc002cit.2_5'Flank|STUB1_uc002ciu.2_5'Flank|STUB1_uc010bqz.2_5'Flank|STUB1_uc002civ.2_5'Flank	NM_003961	NP_003952	O75783	RHBL1_HUMAN	rhomboid protease 1	345	Helical; (Potential).				proteolysis|signal transduction	integral to plasma membrane|membrane fraction	calcium ion binding|serine-type endopeptidase activity				0		Hepatocellular(780;0.0218)				ATGGTGCTGGCCTTGGTGTGC	0.667													9	34					0.000673444	0.000695757	0.008291	1	0		A	727688	A	A	727688	3	1	130	1	0	0	0	0	1	0	0	0	13346	739	26	5	1056	5	RHBDL1	16	727688	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08		727688	89627065	421	72067											
IFT140	9742	broad.mit.edu	37	chr16	1637198	1637198	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccaggccaggaagcctcaCctttgactttacagtaacac	11	9	8	13	0	1	1	1	1	0	0	1	2	1	2	4	2	4	1	4	2	3	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:1637198C>A	uc002cmb.2	-	9	1371	c.1009_splice	c.e9+1	p.G337_splice	IFT140_uc002clz.2_5'Flank	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140											ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				GGAAGCCTCACCTTTGACTTT	0.448													18	67					6.94344e-10	7.71994e-10	0.006122	1	0		A	1637198	A	A	1637198	5	1	130	1	0	0	0	0	0	0	1	0	7572	521	18	5	3470	5	IFT140	16	1637198	Splice_Site	SNP	C	TCGA-CG-4437-01A-01D-1800-08	909510	1637198	88717555	422	72068											
CASKIN1	57524	broad.mit.edu	37	chr16	2231826	2231826	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgatctcctgcaggtcctcCcaggtgatgtcggtgatgaa	7	10	12	12	2	1	3	0	3	1	0	5	4	3	3	4	3	1	1	4	3	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:2231826C>T	uc010bsg.1	-	17	1766	c.1734G>A	c.(1732-1734)TGG>TGA	p.W578*		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	578	SAM 2.				signal transduction	cytoplasm				skin(2)	2						GCAGGTCCTCCCAGGTGATGT	0.393													44	67					0	0	0.01441	0	0		T	2231826	T	T	2231826	4	4	130	1	0	0	0	0	0	1	0	0	2669	624	22	4	2577	4	CASKIN1	16	2231826	Nonsense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	594628	2231826	88122927	423	72069											
ZNF213	7760	broad.mit.edu	37	chr16	3191066	3191066	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtgcgccaccaaggcgtGcacacgggcgagaagccctt	8	5	14	14	4	0	1	0	0	0	1	0	2	0	1	3	3	3	1	3	3	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:3191066G>A	uc010uws.1	+	6	1545	c.1098G>A	c.(1096-1098)GTG>GTA	p.V366V	ZNF213_uc002cud.2_RNA|ZNF213_uc010btf.2_3'UTR|ZNF213_uc010bth.2_Silent_p.V366V|ZNF213_uc010uwt.1_3'UTR	NM_004220	NP_004211	O14771	ZN213_HUMAN	zinc finger protein 213	366	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ACCAAGGCGTGCACACGGGCG	0.672													9	37					0	0	0.004482	0	0		A	3191066	A	A	3191066	2	1	130	1	0	0	0	0	0	0	0	1	17794	1306	46	2		2	ZNF213	16	3191066	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	959240	3191066	87163687	424	72070											
ZNF200	7752	broad.mit.edu	37	chr16	3282916	3282916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagcttcaccaagggacgagGatgcactggggaaagaggaa	15	4	15	7	1	1	1	1	0	0	1	1	6	1	5	1	5	2	2	1	5	4	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:3282916G>A	uc002cuj.2	-	3	888	c.256C>T	c.(256-258)CCT>TCT	p.P86S	ZNF200_uc002cum.3_Missense_Mutation_p.P86S|ZNF200_uc010bti.2_Missense_Mutation_p.P86S|ZNF200_uc002cuk.2_Missense_Mutation_p.P86S|ZNF200_uc002cui.2_Missense_Mutation_p.P86S|ZNF200_uc002cul.3_Missense_Mutation_p.P86S	NM_003454	NP_003445	P98182	ZN200_HUMAN	zinc finger protein 200 isoform 1	86					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						AAGGGACGAGGATGCACTGGG	0.493													5	34					0	0	0.001168	0	0		A	3282916	A	A	3282916	3	1	130	1	0	0	0	0	1	0	0	0	17787	1174	41	4	943	4	ZNF200	16	3282916	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	91850	3282916	87071837	425	72071											
GLYR1	84656	broad.mit.edu	37	chr16	4862095	4862095	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcgtgttacctaggaagAaggaggtcttccccatcgcc	9	8	12	12	2	1	1	0	0	1	1	3	3	2	3	4	4	1	1	4	4	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:4862095A>G	uc002cxx.3	-	13	1311	c.1274T>C	c.(1273-1275)TTC>TCC	p.F425S	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Missense_Mutation_p.F339S|GLYR1_uc002cya.2_Missense_Mutation_p.F419S|GLYR1_uc010uxv.1_Missense_Mutation_p.F344S	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	425					pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						ACCTAGGAAGAAGGAGGTCTT	0.572													22	36					0	0	0.014323	0	0		G	4862095	G	G	4862095	3	3	130	1	0	0	0	0	1	0	0	0	6498	246	9	3	403	3	GLYR1	16	4862095	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	1579179	4862095	85492658	426	72072											
A2BP1	54715	broad.mit.edu	37	chr16	7568333	7568333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtaccctcccgcccagaCgcactccgagcagagcccgg	7	4	10	20	4	0	2	0	0	0	2	2	3	2	2	6	1	3	3	6	1	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:7568333C>T	uc002cys.2	+	5	1200	c.212C>T	c.(211-213)ACG>ATG	p.T71M	A2BP1_uc010buf.1_Missense_Mutation_p.T71M|A2BP1_uc002cyr.1_Missense_Mutation_p.T71M|A2BP1_uc002cyt.2_Missense_Mutation_p.T71M|A2BP1_uc010uxz.1_Missense_Mutation_p.T114M|A2BP1_uc010uya.1_Missense_Mutation_p.T107M|A2BP1_uc002cyv.1_Missense_Mutation_p.T71M|A2BP1_uc010uyb.1_Missense_Mutation_p.T71M|A2BP1_uc002cyw.2_Missense_Mutation_p.T91M|A2BP1_uc002cyy.2_Missense_Mutation_p.T91M|A2BP1_uc002cyx.2_Missense_Mutation_p.T91M|A2BP1_uc010uyc.1_Missense_Mutation_p.T91M	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	71					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		CCCGCCCAGACGCACTCCGAG	0.652													36	156					0	0	0.00874	0	0		T	7568333	T	T	7568333	3	4	130	1	0	0	0	0	1	0	0	0	3	536	19	1	309	1	A2BP1	16	7568333	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2706238	7568333	82786420	427	72073											
GRIN2A	2903	broad.mit.edu	37	chr16	9858092	9858092	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttggttttcaggtaggtGcgctcgacctcactacagtc	7	13	11	10	2	2	0	2	0	0	0	4	2	2	0	1	3	2	3	1	3	2	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:9858092G>T	uc002czo.3	-	13	3857	c.3309C>A	c.(3307-3309)CGC>CGA	p.R1103R	GRIN2A_uc010uym.1_Silent_p.R1103R|GRIN2A_uc010uyn.1_Silent_p.R946R|GRIN2A_uc002czr.3_Silent_p.R1103R	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1103	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TCAGGTAGGTGCGCTCGACCT	0.483													40	162					1.7489e-18	2.01978e-18	0.011902	1	0		T	9858092	T	T	9858092	2	4	130	1	0	0	0	0	0	0	0	1	6795	1306	46	5		5	GRIN2A	16	9858092	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2289759	9858092	80496661	428	72074											
ACSM1	116285	broad.mit.edu	37	chr16	20693649	20693649	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggagcttggttttcagagaGgggcactgagaagctatgga	11	9	16	5	0	1	2	1	1	0	2	1	6	1	4	0	5	2	4	0	5	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:20693649G>A	uc002dhm.1	-	3	608	c.540C>T	c.(538-540)CCC>CCT	p.P180P	ACSM1_uc002dhn.1_RNA|ACSM1_uc010bwg.1_Silent_p.P180P	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	180					benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						TTTTCAGAGAGGGGCACTGAG	0.498													18	54					0	0	0.007413	0	0		A	20693649	A	A	20693649	2	1	130	1	0	0	0	0	0	0	0	1	182	987	35	4		4	ACSM1	16	20693649	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	10835557	20693649	69661104	429	72075											
AQP8	343	broad.mit.edu	37	chr16	25238439	25238439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcccgtgcttttggacctgCggtggtggccaaccactgga	5	9	14	13	3	0	0	0	0	0	0	0	2	0	2	4	5	3	1	4	5	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:25238439C>T	uc002doc.2	+	5	735	c.653C>T	c.(652-654)GCG>GTG	p.A218V		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	218	Extracellular (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		TTTGGACCTGCGGTGGTGGCC	0.607													5	56					0	0	0.000602	0	0		T	25238439	T	T	25238439	3	4	130	1	0	0	0	0	1	0	0	0	832	768	27	1	671	1	AQP8	16	25238439	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	4544790	25238439	65116314	430	72076											
CLN3	1201	broad.mit.edu	37	chr16	28488892	28488892	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aagccaggagccccgacaggGagatccccagtgtgtcagag	11	4	14	12	1	1	2	1	0	0	2	2	5	2	3	5	2	2	0	5	2	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:28488892G>C	uc002dpo.2	-	15	1585	c.1262C>G	c.(1261-1263)TCC>TGC	p.S421C	uc010vct.1_Intron|CLN3_uc002dpl.2_Missense_Mutation_p.S343C|CLN3_uc010vcu.1_Missense_Mutation_p.S321C|CLN3_uc002dpn.2_Missense_Mutation_p.S322C|CLN3_uc002dpm.2_Missense_Mutation_p.S367C|CLN3_uc010vcv.1_Missense_Mutation_p.S397C|CLN3_uc010byd.2_Missense_Mutation_p.S324C|CLN3_uc002dpp.2_Missense_Mutation_p.S421C|CLN3_uc002dpt.1_Missense_Mutation_p.S321C|CLN3_uc002dpq.1_Missense_Mutation_p.S373C|CLN3_uc010bye.1_Missense_Mutation_p.S404C|CLN3_uc002dpr.1_RNA|CLN3_uc010byf.1_RNA|CLN3_uc002dps.1_Missense_Mutation_p.S294C|CLN3_uc002dpu.1_Missense_Mutation_p.S319C	NM_000086	NP_000077	Q13286	CLN3_HUMAN	ceroid-lipofuscinosis, neuronal 3	421	Helical; (Potential).				amyloid precursor protein catabolic process|arginine transport|associative learning|autophagic vacuole fusion|cell death|cellular amino acid metabolic process|cytosolic calcium ion homeostasis|galactosylceramide metabolic process|globoside metabolic process|glucosylceramide metabolic process|ionotropic glutamate receptor signaling pathway|lysosomal lumen acidification|lysosomal lumen pH elevation|negative regulation of catalytic activity|negative regulation of macroautophagy|negative regulation of neuron apoptosis|negative regulation of proteolysis|neuromuscular process controlling balance|neurotransmitter metabolic process|protein catabolic process|protein folding|protein processing|receptor-mediated endocytosis|regulation of action potential|sphingomyelin metabolic process|vacuolar transport	autophagic vacuole|caveola|cytosol|early endosome|Golgi membrane|Golgi stack|integral to endoplasmic reticulum membrane|late endosome|lysosomal membrane|membrane fraction|mitochondrion|neuron projection|nucleus|synaptic vesicle|trans-Golgi network	unfolded protein binding				0						CCCCGACAGGGAGATCCCCAG	0.607													25	63					0	0	0.00333	0	0		C	28488892	C	C	28488892	3	2	130	1	0	0	0	0	1	0	0	0	3546	1174	41	5	58	5	CLN3	16	28488892	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3250453	28488892	61865861	431	72077											
RNF40	9810	broad.mit.edu	37	chr16	30783174	30783174	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtagaagccgcccagctGgccgaggacctgaaggtgca	9	5	15	12	2	0	2	0	1	0	1	0	4	0	3	4	3	3	4	4	3	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:30783174G>C	uc002dzq.2	+	18	2730	c.2607G>C	c.(2605-2607)CTG>CTC	p.L869L	RNF40_uc010caa.2_Silent_p.L869L|RNF40_uc010cab.2_Silent_p.L769L|RNF40_uc010vfa.1_Silent_p.L201L|RNF40_uc002dzr.2_Silent_p.L869L|RNF40_uc010vfb.1_Silent_p.L561L|RNF40_uc010vfc.1_Silent_p.L201L	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	869	Potential.				histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			CCGCCCAGCTGGCCGAGGACC	0.632													14	73					0	0	0.00499	0	0		C	30783174	C	C	30783174	2	2	130	1	0	0	0	0	0	0	0	1	13518	1335	47	5		5	RNF40	16	30783174	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2294282	30783174	59571579	432	72078											
ARMC5	79798	broad.mit.edu	37	chr16	31475984	31475984	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacttgtgaccggcccggCgctgtacggcctgctgacct	4	8	14	15	4	0	2	0	2	0	0	0	2	0	2	4	4	2	4	4	4	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:31475984C>G	uc002ecc.2	+	4	2169	c.1640C>G	c.(1639-1641)GCG>GGG	p.A547G	ARMC5_uc010vfn.1_Missense_Mutation_p.A642G|ARMC5_uc010vfo.1_Missense_Mutation_p.A579G|ARMC5_uc002eca.3_Missense_Mutation_p.A547G|ARMC5_uc010vfp.1_Missense_Mutation_p.A355G|ARMC5_uc002ecb.2_Missense_Mutation_p.A547G	NM_001105247	NP_001098717	Q96C12	ARMC5_HUMAN	armadillo repeat containing 5 isoform a	547							binding			pancreas(1)	1						ACCGGCCCGGCGCTGTACGGC	0.697													3	24					0	0	0.009096	0	0		G	31475984	G	G	31475984	3	3	130	1	0	0	0	0	1	0	0	0	955	768	27	5	1654	5	ARMC5	16	31475984	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	692810	31475984	58878769	433	72079											
HEATR3	55027	broad.mit.edu	37	chr16	50100171	50100171	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgggccggcggcggagctGctggaaaaggtgaggcgagg	8	3	22	8	5	0	1	0	1	0	0	0	5	0	3	1	8	2	2	1	8	2	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:50100171G>C	uc002efw.2	+	1	291	c.129G>C	c.(127-129)CTG>CTC	p.L43L	HEATR3_uc002efx.2_Missense_Mutation_p.C15S	NM_182922	NP_891552	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3	43	HEAT 1.						binding			ovary(1)|skin(1)	2						CGGCGGAGCTGCTGGAAAAGG	0.711													4	8					0	0	0.009096	0	0		C	50100171	C	C	50100171	2	2	130	1	0	0	0	0	0	0	0	1	7045	1306	46	5		5	HEATR3	16	50100171	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	18624187	50100171	40254582	434	72080											
SALL1	6299	broad.mit.edu	37	chr16	51174348	51174348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggctgactcagggcccccGgagtcacttttgactgagcc	6	9	13	13	1	2	3	2	3	0	0	2	4	2	4	3	3	1	1	3	3	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:51174348G>A	uc010vgs.1	-	2	1816	c.1785C>T	c.(1783-1785)TCC>TCT	p.S595S	SALL1_uc010vgr.1_Silent_p.S498S|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	595					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			CAGGGCCCCCGGAGTCACTTT	0.612													11	45					0	0	0.010729	0	0		A	51174348	A	A	51174348	2	1	130	1	0	0	0	0	0	0	0	1	13835	1103	39	1		1	SALL1	16	51174348	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1074177	51174348	39180405	435	72081											
CHD9	80205	broad.mit.edu	37	chr16	53190912	53190912	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaaatcagactttatctgAttttactggaagtaattcct	13	16	5	7	0	2	2	1	1	1	1	3	3	3	3	1	1	2	1	1	1	6	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:53190912A>C	uc002ehb.2	+	1	1075	c.911A>C	c.(910-912)GAT>GCT	p.D304A	CHD9_uc002egy.2_Missense_Mutation_p.D304A|CHD9_uc002egz.1_Missense_Mutation_p.D304A|CHD9_uc002eha.1_Missense_Mutation_p.D304A|CHD9_uc002ehc.2_Missense_Mutation_p.D304A	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	304	Ser-rich.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				ACTTTATCTGATTTTACTGGA	0.338													34	87					0	0	0.012213	0	0		C	53190912	C	C	53190912	3	2	130	1	0	0	0	0	1	0	0	0	3335	333	12	5	913	5	CHD9	16	53190912	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	2016564	53190912	37163841	436	72082											
SLC12A3	6559	broad.mit.edu	37	chr16	56903669	56903669	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggatcatcatcctgctgtcGgtcacggtgacctccatcac	7	11	9	14	2	4	1	4	1	0	0	7	2	6	2	3	3	1	1	3	3	0	0	rs140931462		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:56903669G>A	uc010ccm.2	+	4	563	c.534G>A	c.(532-534)TCG>TCA	p.S178S	SLC12A3_uc002ekd.3_Silent_p.S178S|SLC12A3_uc010ccn.2_Silent_p.S177S	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	178	Helical; (Potential).		S -> L (in GS).		sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	TCCTGCTGTCGGTCACGGTGA	0.522													16	39					0	0	0.006122	0	0		A	56903669	A	A	56903669	2	1	130	1	0	0	0	0	0	0	0	1	14409	1103	39	1		1	SLC12A3	16	56903669	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3712757	56903669	33451084	437	72083											
RRAD	6236	broad.mit.edu	37	chr16	66958847	66958847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctgccccctgagctgagcGagtcctcggagtcctcgggc	4	7	14	16	4	0	2	0	2	0	0	4	4	2	3	4	2	3	2	4	2	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:66958847G>A	uc002eqn.2	-	2	388	c.236C>T	c.(235-237)TCG>TTG	p.S79L	RRAD_uc002eqo.2_Missense_Mutation_p.S79L	NM_001128850	NP_001122322	P55042	RAD_HUMAN	Ras-related associated with diabetes	79					small GTPase mediated signal transduction	plasma membrane	calmodulin binding|GTP binding|GTPase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0862)|Epithelial(162;0.198)		TGAGCTGAGCGAGTCCTCGGA	0.741													5	11					0	0	0.000602	0	0		A	66958847	A	A	66958847	3	1	130	1	0	0	0	0	1	0	0	0	13696	1059	37	1	706	1	RRAD	16	66958847	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	10055178	66958847	23395906	438	72084											
EXOC3L	283849	broad.mit.edu	37	chr16	67219060	67219060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaccgtggggttccgcacGcgccagaagtcccggcagaa	9	5	14	13	5	0	3	0	1	0	2	2	3	2	3	4	3	1	3	4	3	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:67219060G>A	uc002erx.1	-	11	1969	c.1728C>T	c.(1726-1728)CGC>CGT	p.R576R	KIAA0895L_uc002ert.2_5'Flank|KIAA0895L_uc002eru.2_5'Flank|EXOC3L_uc002erv.1_RNA|EXOC3L_uc002erw.1_Silent_p.R227R|EXOC3L_uc002ery.1_Silent_p.R478R|EXOC3L_uc010vje.1_Silent_p.R473R	NM_178516	NP_848611	Q86VI1	EX3L1_HUMAN	exocyst complex component 3-like	576					exocytosis|peptide hormone secretion	exocyst|stored secretory granule|transport vesicle					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0021)|Epithelial(162;0.0073)|all cancers(182;0.0616)		GGTTCCGCACGCGCCAGAAGT	0.677													7	50					0	0	0.001984	0	0		A	67219060	A	A	67219060	2	1	130	1	0	0	0	0	0	0	0	1	5312	1074	38	1		1	EXOC3L	16	67219060	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	260213	67219060	23135693	439	72085											
SLC9A5	6553	broad.mit.edu	37	chr16	67290884	67290884	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacaagattgaccaagtggtGatgtcctatgggggcctgcg	9	9	15	8	1	0	3	0	2	0	1	1	4	1	3	3	3	1	0	3	3	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:67290884G>C	uc002esm.2	+	7	1266	c.1203G>C	c.(1201-1203)GTG>GTC	p.V401V	SLC9A5_uc010cee.2_Silent_p.V106V|SLC9A5_uc010vji.1_5'UTR	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	401	Helical; (Potential).				regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		ACCAAGTGGTGATGTCCTATG	0.587													32	93					0	0	0.010818	0	0		C	67290884	C	C	67290884	2	2	130	1	0	0	0	0	0	0	0	1	14742	1277	45	5		5	SLC9A5	16	67290884	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	71824	67290884	23063869	440	72086											
RLTPR	146206	broad.mit.edu	37	chr16	67681832	67681832	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggacctttctgggaatcctGgggcgctgggggcctccgag	4	9	17	11	2	1	0	0	0	1	0	3	3	3	2	4	6	0	1	4	6	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:67681832G>C	uc002etn.2	+	13	1162	c.1042G>C	c.(1042-1044)GGG>CGG	p.G348R	RLTPR_uc010cel.1_Missense_Mutation_p.G348R|RLTPR_uc010vjr.1_Missense_Mutation_p.G348R	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	348	LRR 6.									breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		TGGGAATCCTGGGGCGCTGGG	0.662													4	23					0	0	0.000602	0	0		C	67681832	C	C	67681832	3	2	130	1	0	0	0	0	1	0	0	0	13419	1348	47	5	1092	5	RLTPR	16	67681832	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	390948	67681832	22672921	441	72087											
SF3B3	23450	broad.mit.edu	37	chr16	70575719	70575719	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgagttggacagcctctcTcccattctgttttgccaggt	6	14	10	11	0	2	1	0	1	2	0	4	3	3	2	3	2	2	2	3	2	0	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:70575719T>C	uc002ezf.2	+	9	1426	c.1215T>C	c.(1213-1215)TCT>TCC	p.S405S		NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3	405					protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				ACAGCCTCTCTCCCATTCTGT	0.428													41	125					0	0	0.005524	0	0		C	70575719	C	C	70575719	2	2	130	1	0	0	0	0	0	0	0	1	14177	1538	54	3		3	SF3B3	16	70575719	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	2893887	70575719	19779034	442	72088											
ZFHX3	463	broad.mit.edu	37	chr16	72992656	72992656	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctcctcttcctcctcCgcctcctcttcggctggctc	0	14	5	22	2	2	0	0	0	2	0	11	0	9	0	8	2	0	2	8	2	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:72992656C>T	uc002fck.2	-	2	2062	c.1389G>A	c.(1387-1389)GCG>GCA	p.A463A	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	463	Poly-Glu.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				cttcctcctccgcctcctctt	0.318													10	55					0	0	0.008291	0	0		T	72992656	T	T	72992656	2	4	130	1	0	0	0	0	0	0	0	1	17659	639	23	1		1	ZFHX3	16	72992656	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2416937	72992656	17362097	443	72089											
ADAMTS18	170692	broad.mit.edu	37	chr16	77323228	77323228	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accggaggtttctgatggagCagacaacttgaggaaggccg	11	7	15	8	2	1	3	0	2	1	1	1	6	1	6	2	5	2	2	2	5	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:77323228C>G	uc002ffc.3	-	22	3902	c.3483G>C	c.(3481-3483)CTG>CTC	p.L1161L		NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1161	TSP type-1 5.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TCTGATGGAGCAGACAACTTG	0.537													18	122					0	0	0.006122	0	0		G	77323228	G	G	77323228	2	3	130	1	0	0	0	0	0	0	0	1	263	697	25	5		5	ADAMTS18	16	77323228	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	4330572	77323228	13031525	444	72090											
SLC7A5	8140	broad.mit.edu	37	chr16	87866582	87866582	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actcggcctcctggctatgtCtcctgggggaccacctgcat	5	10	11	15	1	1	0	0	0	1	0	4	1	2	1	5	4	1	2	5	4	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr16:87866582C>G	uc002fkm.2	-	10	1590	c.1518G>C	c.(1516-1518)GAG>GAC	p.E506D		NM_003486	NP_003477	Q01650	LAT1_HUMAN	solute carrier family 7 (cationic amino acid	506					blood coagulation|cell differentiation|cellular amino acid metabolic process|ion transport|leukocyte migration|nervous system development	apical plasma membrane|cytosol|integral to membrane	neutral amino acid transmembrane transporter activity|peptide antigen binding				0				BRCA - Breast invasive adenocarcinoma(80;0.049)		CTGGCTATGTCTCCTGGGGGA	0.622													54	149					0	0	0.01441	0	0		G	87866582	G	G	87866582	3	3	130	1	0	0	0	0	1	0	0	0	14725	912	32	5	9	5	SLC7A5	16	87866582	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	10543354	87866582	2488171	445	72091											
FAM101B	359845	broad.mit.edu	37	chr17	293071	293071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccagggtggtggtgtagaCggccttggggtacttggggt	5	11	19	6	1	0	1	0	0	0	1	1	1	1	1	2	8	1	2	2	8	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:293071C>T	uc002frj.2	-	2	593	c.319G>A	c.(319-321)GTC>ATC	p.V107I		NM_182705	NP_874364	Q8N5W9	F101B_HUMAN	hypothetical protein LOC359845	177											0		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.0216)		GTGGTGTAGACGGCCTTGGGG	0.642													28	33					0	0	0.008361	0	0		T	293071	T	T	293071	3	4	130	1	0	0	0	0	1	0	0	0	5392	536	19	1	119	1	FAM101B	17	293071	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08		293071	80902139	446	72092											
PRPF8	10594	broad.mit.edu	37	chr17	1565203	1565203	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgaaccaggctgtacctgAggtcggattgggggatgagc	8	9	17	7	1	0	3	0	3	0	0	1	5	0	5	2	5	3	3	2	5	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:1565203A>C	uc002fte.2	-	25	4133	c.4019T>G	c.(4018-4020)CTC>CGC	p.L1340R		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	1340						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		GCTGTACCTGAGGTCGGATTG	0.488													10	88					0	0	0.013537	0	0		C	1565203	C	C	1565203	3	2	130	1	0	0	0	0	1	0	0	0	12597	304	11	5	3064	5	PRPF8	17	1565203	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	1272132	1565203	79630007	447	72093											
ZMYND15	84225	broad.mit.edu	37	chr17	4648177	4648177	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtctgcaggatttaactccgGgtttgctctcaaggatacgt	8	13	11	9	2	2	0	1	0	2	0	4	2	3	2	1	3	4	3	1	3	3	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:4648177G>C	uc002fyt.2	+	11	1772	c.1733G>C	c.(1732-1734)GGG>GCG	p.G578A	ZMYND15_uc002fyv.2_Missense_Mutation_p.G617A|ZMYND15_uc002fyu.2_Missense_Mutation_p.G625A	NM_032265	NP_115641	Q9H091	ZMY15_HUMAN	zinc finger, MYND-type containing 15 isoform 2	578							zinc ion binding				0						TTTAACTCCGGGTTTGCTCTC	0.607													14	106					0	0	0.00245	0	0		C	4648177	C	C	4648177	3	2	130	1	0	0	0	0	1	0	0	0	17733	1232	43	5	1892	5	ZMYND15	17	4648177	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3082974	4648177	76547033	448	72094											
SLC2A4	6517	broad.mit.edu	37	chr17	7187687	7187687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catccagaatctcgaggggcCtgccagaaagagtaagctct	12	7	11	11	1	2	3	0	0	2	3	4	4	3	3	3	2	2	2	3	2	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:7187687C>T	uc002gfp.2	+	6	916	c.716C>T	c.(715-717)CCT>CTT	p.P239L	SLC2A4_uc002gfo.2_Missense_Mutation_p.P239L|SLC2A4_uc010cmd.2_RNA	NM_001042	NP_001033	P14672	GTR4_HUMAN	glucose transporter 4	239	Cytoplasmic (Potential).				carbohydrate metabolic process|glucose homeostasis|glucose import	external side of plasma membrane|integral to plasma membrane|perinuclear region of cytoplasm	D-glucose transmembrane transporter activity|protein binding				0						CTCGAGGGGCCTGCCAGAAAG	0.642													3	22					0	0	0.004672	0	0		T	7187687	T	T	7187687	3	4	130	1	0	0	0	0	1	0	0	0	14571	681	24	4	738	4	SLC2A4	17	7187687	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2539510	7187687	74007523	449	72095											
NLGN2	57555	broad.mit.edu	37	chr17	7317669	7317669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctccccacacagatatccGtgaccctgggaagaagcctg	10	6	9	16	1	0	3	0	1	0	2	2	4	2	4	6	1	1	0	6	1	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:7317669G>A	uc002ggt.1	+	3	588	c.515G>A	c.(514-516)CGT>CAT	p.R172H		NM_020795	NP_065846	Q8NFZ4	NLGN2_HUMAN	neuroligin 2 precursor	172	Extracellular (Potential).				cell-cell junction maintenance|neuron cell-cell adhesion|positive regulation of synaptogenesis|regulation of inhibitory postsynaptic membrane potential|synapse assembly	cell surface|integral to plasma membrane|postsynaptic membrane	neurexin binding|receptor activity			central_nervous_system(1)	1		Prostate(122;0.157)				ACAGATATCCGTGACCCTGGG	0.627													8	14					0	0	0.004482	0	0		A	7317669	A	A	7317669	3	1	130	1	0	0	0	0	1	0	0	0	10481	1145	40	1	525	1	NLGN2	17	7317669	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	129982	7317669	73877541	450	72096											
WRAP53	55135	broad.mit.edu	37	chr17	7604143	7604143	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagcccagccagacaccTcctagtaagtaatgtttgcc	10	9	7	15	0	1	1	1	0	0	1	2	1	2	1	6	0	3	3	6	0	3	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:7604143T>G	uc010vuh.1	+	5	882	c.727T>G	c.(727-729)TCC>GCC	p.S243A	WRAP53_uc010vui.1_Missense_Mutation_p.S243A|WRAP53_uc002gip.2_Missense_Mutation_p.S243A|WRAP53_uc002gir.2_Missense_Mutation_p.S243A|WRAP53_uc002giq.2_RNA|WRAP53_uc010cnl.2_Missense_Mutation_p.S210A|WRAP53_uc010vuj.1_Missense_Mutation_p.S24A	NM_001143990	NP_001137462	Q9BUR4	WAP53_HUMAN	WD repeat domain 79 isoform 2	243	WD 2.				positive regulation of telomerase activity|telomere formation via telomerase	Cajal body|cytoplasm|telomerase holoenzyme complex	protein binding|RNA binding				0						GCCAGACACCTCCTAGTAAGT	0.557													7	72					0	0	0.00308	0	0		G	7604143	G	G	7604143	3	3	130	1	0	0	0	0	1	0	0	0	17426	1551	54	5	741	5	WRAP53	17	7604143	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	286474	7604143	73591067	451	72097											
DNAH2	146754	broad.mit.edu	37	chr17	7705023	7705023	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagtagacctgggaactcagGagaatgtgagcccctcctcc	10	7	12	12	0	1	3	1	1	0	2	3	6	3	4	5	2	2	1	5	2	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:7705023G>T	uc002giu.1	+	56	8841	c.8827G>T	c.(8827-8829)GAG>TAG	p.E2943*	DNAH2_uc010cnm.1_5'Flank	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2943	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GGGAACTCAGGAGAATGTGAG	0.308													7	49					2.0095e-06	2.13392e-06	0.001984	1	0		T	7705023	T	T	7705023	4	4	130	1	0	0	0	0	0	1	0	0	4608	1175	41	5	9049	5	DNAH2	17	7705023	Nonsense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	100880	7705023	73490187	452	72098											
MYH13	8735	broad.mit.edu	37	chr17	10227552	10227552	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgatgagtccttcacaccgTtcctcagcgtccatcagatt	8	13	7	13	2	3	3	3	2	0	1	6	3	6	3	4	0	1	1	4	0	0	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:10227552T>C	uc002gmk.1	-	23	2811	c.2721A>G	c.(2719-2721)GAA>GAG	p.E907E	MYH13_uc010vve.1_Silent_p.E5E	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	907	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						CTTCACACCGTTCCTCAGCGT	0.428													22	65					0	0	0.014323	0	0		C	10227552	C	C	10227552	2	2	130	1	0	0	0	0	0	0	0	1	10050	1722	60	3		3	MYH13	17	10227552	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	2522529	10227552	70967658	453	72099											
MYH4	4622	broad.mit.edu	37	chr17	10355590	10355590	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcagagcgctgcttctctgCtttggcccgggaggcccgct	3	10	14	14	3	2	1	1	0	1	1	3	2	2	2	2	3	3	4	2	3	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:10355590C>A	uc002gmn.2	-	27	3517	c.3406G>T	c.(3406-3408)GCA>TCA	p.A1136S	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1136	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TGCTTCTCTGCTTTGGCCCGG	0.552													16	100					5.3912e-06	5.68979e-06	0.006122	1	0		A	10355590	A	A	10355590	3	1	130	1	0	0	0	0	1	0	0	0	10055	797	28	5	2469	5	MYH4	17	10355590	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	128038	10355590	70839620	454	72100											
MYH2	4620	broad.mit.edu	37	chr17	10435038	10435038	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcctttttgcctctgacttgGcaagttcgtctttaattttc	5	20	6	10	1	2	1	0	1	2	0	5	1	3	1	2	1	1	2	2	1	2	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:10435038G>T	uc010coi.2	-	22	2737	c.2609C>A	c.(2608-2610)GCC>GAC	p.A870D	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.A870D|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	870	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTCTGACTTGGCAAGTTCGTC	0.418													15	97					1.15088e-07	1.24136e-07	0.004007	1	0		T	10435038	T	T	10435038	3	4	130	1	0	0	0	0	1	0	0	0	10053	1203	42	5	3292	5	MYH2	17	10435038	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	79448	10435038	70760172	455	72101											
NCOR1	9611	broad.mit.edu	37	chr17	16040687	16040688	+	Nonsense_Mutation	DNP	TC	AA	AA																															ggctttataattctcattttTcttggttaaatagtaataca																										TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:16040687_16040688TC>AA	uc002gpo.2	-	14	1686_1687	c.1446_1447GA>TT	c.(1444-1449)AAGAAA>AATTAA	p.482_483KK>N*	NCOR1_uc002gpn.2_Nonsense_Mutation_p.482_483KK>N*|NCOR1_uc002gpp.1_Nonsense_Mutation_p.373_374KK>N*|NCOR1_uc002gpr.2_Nonsense_Mutation_p.373_374KK>N*|NCOR1_uc002gps.1_Nonsense_Mutation_p.491_492KK>N*|NCOR1_uc010coz.1_Nonsense_Mutation_p.298_299KK>N*|NCOR1_uc010cpb.1_Nonsense_Mutation_p.491_492KK>N*|NCOR1_uc010cpa.1_Nonsense_Mutation_p.482_483KK>N*	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	482_483	SANT 1.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		TTCTCATTTTTCTTGGTTAAAT	0.297													12	32					0	0	0.004672	0	0		AA	16040688	AA	AA	16040687	4	1	130	1	0	0	0	0	0	1	0	0	10254	1792	62	5	6007	5	NCOR1	17	16040687	Nonsense_Mutation	DNP	TC	TCGA-CG-4437-01A-01D-1800-08	5605649	16040687	65154523	456	72102											
EVPLL	645027	broad.mit.edu	37	chr17	18284812	18284812	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccggcggctcaagcacccGcaggctgaggagactgagaa	10	3	15	13	3	1	3	1	2	0	2	1	5	1	3	2	4	1	4	2	4	2	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:18284812G>A	uc002gte.2	+	3	450	c.195G>A	c.(193-195)CCG>CCA	p.P65P		NM_001145127	NP_001138599	A8MZ36	EVPLL_HUMAN	envoplakin-like	65	Potential.										0						TCAAGCACCCGCAGGCTGAGG	0.677													4	30					0	0	0.000602	0	0		A	18284812	A	A	18284812	2	1	130	1	0	0	0	0	0	0	0	1	5301	1074	38	1		1	EVPLL	17	18284812	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2244125	18284812	62910398	457	72103											
ABHD15	116236	broad.mit.edu	37	chr17	27893668	27893668	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagtggcagagggtctgcAggtggggcccggagaaccag	9	4	19	9	2	1	2	0	0	1	2	1	4	1	2	2	6	2	2	2	6	2	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:27893668A>C	uc002hed.1	-	1	381	c.317T>G	c.(316-318)CTG>CGG	p.L106R	TP53I13_uc002hee.2_5'Flank	NM_198147	NP_937790	Q6UXT9	ABH15_HUMAN	abhydrolase domain containing 15 precursor	106						extracellular region	carboxylesterase activity				0						GAGGGTCTGCAGGTGGGGCCC	0.726													5	17					0	0	0.001168	0	0		C	27893668	C	C	27893668	3	2	130	1	0	0	0	0	1	0	0	0	81	188	7	5	1097	5	ABHD15	17	27893668	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	9608856	27893668	53301542	458	72104											
CPD	1362	broad.mit.edu	37	chr17	28783287	28783287	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctatagtggaaaataaagaGactctgaagcatttggcatc	15	11	9	6	0	2	2	0	1	2	1	3	4	2	3	0	2	1	2	0	2	7	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:28783287G>A	uc002hfb.1	+	16	3366	c.3351G>A	c.(3349-3351)GAG>GAA	p.E1117E	CPD_uc010wbo.1_Silent_p.E870E|CPD_uc010wbp.1_Intron	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	1117	Extracellular (Potential).|Carboxypeptidase-like 3.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						AAAATAAAGAGACTCTGAAGC	0.368													24	56					0	0	0.00278	0	0		A	28783287	A	A	28783287	2	1	130	1	0	0	0	0	0	0	0	1	3801	933	33	4		4	CPD	17	28783287	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	889619	28783287	52411923	459	72105											
ATAD5	79915	broad.mit.edu	37	chr17	29161318	29161318	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagacttcacccacaaaTgagaagacacaattagggaa	20	5	8	8	0	1	4	1	1	0	4	1	6	1	5	1	1	0	0	1	1	6	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:29161318T>G	uc002hfs.1	+	2	565	c.219T>G	c.(217-219)AAT>AAG	p.N73K	ATAD5_uc002hft.1_5'UTR	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	73					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				CACCCACAAATGAGAAGACAC	0.383													9	70					0	0	0.004482	0	0		G	29161318	G	G	29161318	3	3	130	1	0	0	0	0	1	0	0	0	1077	1461	51	5	225	5	ATAD5	17	29161318	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	378031	29161318	52033892	460	72106											
TMEM98	26022	broad.mit.edu	37	chr17	31266499	31266499	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttgcctccggtcagggtgGatgatgttgtgaagtcgatg	6	14	15	6	2	1	2	1	2	0	0	3	4	2	3	2	3	1	1	2	3	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:31266499G>T	uc002hhq.2	+	7	876	c.418G>T	c.(418-420)GAT>TAT	p.D140Y	TMEM98_uc002hhr.2_Missense_Mutation_p.D140Y	NM_015544	NP_056359	Q9Y2Y6	TMM98_HUMAN	transmembrane protein 98	140						endoplasmic reticulum|integral to membrane					0		Ovarian(249;0.182)|Breast(31;0.244)	BRCA - Breast invasive adenocarcinoma(9;0.0769)			GGTCAGGGTGGATGATGTTGT	0.408													15	50					6.49762e-13	7.35539e-13	0.006122	1	0		T	31266499	T	T	31266499	3	4	130	1	0	0	0	0	1	0	0	0	16250	1174	41	5	436	5	TMEM98	17	31266499	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2105181	31266499	49928711	461	72107											
LIG3	3980	broad.mit.edu	37	chr17	33328293	33328293	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaagctgccgtgtgggaGatcacaggggctgaattctc	10	8	14	9	1	2	3	1	1	1	2	3	4	2	3	1	3	2	2	1	3	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:33328293G>T	uc002hik.1	+	17	2457	c.2349G>T	c.(2347-2349)GAG>GAT	p.E783D	LIG3_uc002hij.2_Missense_Mutation_p.E783D	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	783					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	CCGTGTGGGAGATCACAGGGG	0.438								Other_BER_factors					10	39					2.80697e-09	3.10578e-09	0.010729	1	0		T	33328293	T	T	33328293	3	4	130	1	0	0	0	0	1	0	0	0	8798	933	33	5	2411	5	LIG3	17	33328293	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2061794	33328293	47866917	462	72108											
RFFL	117584	broad.mit.edu	37	chr17	33348714	33348714	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggctgtagctcgaaaccgTtggcagagaaggcagaggcg	12	5	16	8	3	0	2	0	0	0	2	1	4	0	2	1	4	2	6	1	4	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:33348714T>C	uc002hin.1	-	3	440	c.267A>G	c.(265-267)CAA>CAG	p.Q89Q	RFFL_uc002hiq.2_Intron|RFFL_uc002him.1_Silent_p.Q89Q|RFFL_uc010cti.1_Silent_p.Q95Q|RFFL_uc002hip.1_Silent_p.Q89Q|RFFL_uc002hio.1_Silent_p.Q89Q	NM_001017368	NP_001017368	Q8WZ73	RFFL_HUMAN	rififylin	89	FYVE-type.				apoptosis	membrane	ligase activity|zinc ion binding				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		CTCGAAACCGTTGGCAGAGAA	0.502													32	78					0	0	0.013726	0	0		C	33348714	C	C	33348714	2	2	130	1	0	0	0	0	0	0	0	1	13275	1722	60	3		3	RFFL	17	33348714	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	20421	33348714	47846496	463	72109											
GGNBP2	79893	broad.mit.edu	37	chr17	34935804	34935804	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcagaagagcagacatggcaGatgcttttctatcttggtgt	10	12	12	7	0	2	4	0	0	2	4	2	4	2	4	0	2	2	4	0	2	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:34935804G>A	uc002hnb.2	+	8	1224	c.975G>A	c.(973-975)CAG>CAA	p.Q325Q	GGNBP2_uc002hna.2_Silent_p.Q325Q|GGNBP2_uc002hnc.1_Silent_p.Q154Q	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	325					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		AGACATGGCAGATGCTTTTCT	0.433													47	135					0	0	0.01441	0	0		A	34935804	A	A	34935804	2	1	130	1	0	0	0	0	0	0	0	1	6374	933	33	4		4	GGNBP2	17	34935804	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1587090	34935804	46259406	464	72110											
SRCIN1	80725	broad.mit.edu	37	chr17	36717698	36717698	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcctggttaacgtccctcaCctggtctccgtgtccttggc	3	12	11	15	2	2	0	1	0	1	0	5	0	4	0	5	4	1	1	5	4	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:36717698C>G	uc002hqd.2	-	7	1925	c.1700_splice	c.e7+1	p.R567_splice	SRCIN1_uc002hqf.1_Splice_Site_p.R439_splice|SRCIN1_uc002hqe.2_Splice_Site_p.R421_splice|SRCIN1_uc002hqg.2_5'Flank	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein						exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						ACGTCCCTCACCTGGTCTCCG	0.677													5	12					0	0	0.000602	0	0		G	36717698	G	G	36717698	5	3	130	1	0	0	0	0	0	0	1	0	15161	521	18	5	1902	5	SRCIN1	17	36717698	Splice_Site	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1781894	36717698	44477512	465	72111											
GRB7	2886	broad.mit.edu	37	chr17	37899172	37899172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tagtaaaggtgtacagtgagGatggggcctgcaggtctgtg	9	10	17	5	0	1	1	0	1	1	0	1	2	1	2	1	5	2	3	1	5	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:37899172G>A	uc002hsr.2	+	4	578	c.328G>A	c.(328-330)GAT>AAT	p.D110N	GRB7_uc002hss.2_Missense_Mutation_p.D110N|GRB7_uc010cwc.2_Missense_Mutation_p.D110N|GRB7_uc002hst.2_Missense_Mutation_p.D110N	NM_005310	NP_005301	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	110	Ras-associating.				blood coagulation|epidermal growth factor receptor signaling pathway|leukocyte migration|negative regulation of translation|positive regulation of cell migration|stress granule assembly	cytosol|focal adhesion|stress granule	phosphatidylinositol binding|protein kinase binding|SH3/SH2 adaptor activity			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GTACAGTGAGGATGGGGCCTG	0.597													31	77					0	0	0.013726	0	0		A	37899172	A	A	37899172	3	1	130	1	0	0	0	0	1	0	0	0	6775	1174	41	4	338	4	GRB7	17	37899172	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1181474	37899172	43296038	466	72112											
KRT27	342574	broad.mit.edu	37	chr17	38938687	38938687	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccccactagagagcctcacaGagccagtgcccccgcaagag	11	3	10	17	1	1	3	1	0	0	3	1	4	1	3	6	0	3	1	6	0	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:38938687G>C	uc002hvg.2	-	1	100	c.59C>G	c.(58-60)TCT>TGT	p.S20C		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	20	Head.|Gly-rich.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				GAGCCTCACAGAGCCAGTGCC	0.582													7	7					0	0	0.00308	0	0		C	38938687	C	C	38938687	3	2	130	1	0	0	0	0	1	0	0	0	8480	942	33	5	1352	5	KRT27	17	38938687	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1039515	38938687	42256523	467	72113											
KRT12	3859	broad.mit.edu	37	chr17	39019999	39019999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccttccgattctgctcagCgatggtttcatactgcgccc	5	13	9	14	3	3	0	2	0	1	0	5	2	5	0	3	1	4	2	3	1	1	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:39019999C>T	uc002hvk.2	-	4	949	c.925G>A	c.(925-927)GCT>ACT	p.A309T		NM_000223	NP_000214	Q99456	K1C12_HUMAN	keratin 12	309	Rod.|Coil 2.				visual perception	intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				TTCTGCTCAGCGATGGTTTCA	0.552													18	48					0	0	0.006122	0	0		T	39019999	T	T	39019999	3	4	130	1	0	0	0	0	1	0	0	0	8465	768	27	1	579	1	KRT12	17	39019999	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	81312	39019999	42175211	468	72114											
KRTAP4-8	728224	broad.mit.edu	37	chr17	39254069	39254069	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcagcagctagggtggcAgcaggtgggctggcagcaca	9	5	18	9	0	0	0	0	0	0	0	0	1	0	0	0	5	5	8	0	5	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:39254069A>T	uc010wfo.1	-	1	307	c.268T>A	c.(268-270)TGC>AGC	p.C90S		NM_031960	NP_114166	Q9BYQ9	KRA48_HUMAN	keratin associated protein 4.8	90	25 X 5 AA repeats of C-C-[IKRQVHEC]- [SPRT]-[STCVQPR].|14.					keratin filament					0						cTAGGGTGGCAGCAGGTGGGC	0.363													13	50					0	0	0.004007	0	0		T	39254069	T	T	39254069	3	4	130	1	0	0	0	0	1	0	0	0	8572	188	7	5	293	5	KRTAP4-8	17	39254069	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	234070	39254069	41941141	469	72115											
KRT37	8688	broad.mit.edu	37	chr17	39578678	39578678	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagctgactcctcagaatCtttacttcctgcagaaatgg	10	11	7	13	0	2	3	1	1	1	2	4	3	4	3	3	1	3	2	3	1	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:39578678C>A	uc002hwp.1	-	4	788	c.741G>T	c.(739-741)AAG>AAT	p.K247N	uc002hwo.1_Intron	NM_003770	NP_003761	O76014	KRT37_HUMAN	keratin 37	247	Rod.|Coil 1B.					intermediate filament	structural molecule activity			skin(1)	1		Breast(137;0.000496)				TCCTCAGAATCTTTACTTCCT	0.562													60	113					5.0973e-17	5.8572e-17	0.01441	1	0		A	39578678	A	A	39578678	3	1	130	1	0	0	0	0	1	0	0	0	8490	912	32	5	624	5	KRT37	17	39578678	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	324609	39578678	41616532	470	72116											
KRT38	8687	broad.mit.edu	37	chr17	39596900	39596900	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttcaccataggccccacAgattccaatgttgccaggaa	11	10	8	12	0	1	1	1	0	0	1	2	2	2	2	5	2	1	2	5	2	3	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:39596900A>G	uc002hwq.1	-	1	697	c.274T>C	c.(274-276)TGT>CGT	p.C92R		NM_006771	NP_006762	O76015	KRT38_HUMAN	keratin 38	92	Head.					intermediate filament	structural molecule activity			skin(2)	2		Breast(137;0.000496)				TAGGCCCCACAGATTCCAATG	0.602													28	59					0	0	0.004656	0	0		G	39596900	G	G	39596900	3	3	130	1	0	0	0	0	1	0	0	0	8491	188	7	3	1124	3	KRT38	17	39596900	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	18222	39596900	41598310	471	72117											
KRT36	8689	broad.mit.edu	37	chr17	39643923	39643923	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatcttgttgagatccaCtgggggagcagcgtccacct	8	9	13	11	1	1	1	0	1	1	1	3	4	3	3	3	3	2	2	3	3	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:39643923C>G	uc002hwt.2	-	4	766	c.766G>C	c.(766-768)GTG>CTG	p.V256L		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	256	Rod.|Linker 12.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)				TTGAGATCCACTGGGGGAGCA	0.517													16	124					0	0	0.003163	0	0		G	39643923	G	G	39643923	3	3	130	1	0	0	0	0	1	0	0	0	8489	565	20	5	653	5	KRT36	17	39643923	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	47023	39643923	41551287	472	72118											
KCNH4	23415	broad.mit.edu	37	chr17	40321495	40321495	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggagaccctgcaggctacCtcgttggcgtcgatgccgct	5	10	13	13	4	0	1	0	0	0	1	2	3	0	1	3	3	3	4	3	3	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:40321495C>T	uc002hzb.2	-	9	1923	c.1590G>A	c.(1588-1590)GAG>GAA	p.E530E		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	530	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	two-component sensor activity|voltage-gated potassium channel activity			large_intestine(1)	1		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TGCAGGCTACCTCGTTGGCGT	0.627													18	51					0	0	0.00499	0	0		T	40321495	T	T	40321495	2	4	130	1	0	0	0	0	0	0	0	1	8050	695	24	4		4	KCNH4	17	40321495	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	677572	40321495	40873715	473	72119											
ATP6V0A1	535	broad.mit.edu	37	chr17	40639384	40639384	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgcactcagaaggggcaCggtgagtccccaaagctaac	11	7	12	11	1	1	2	1	1	0	1	2	2	2	2	2	3	3	4	2	3	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:40639384C>A	uc002hzr.2	+	10	1189	c.1022C>A	c.(1021-1023)ACG>AAG	p.T341K	ATP6V0A1_uc002hzq.2_Missense_Mutation_p.T341K|ATP6V0A1_uc002hzs.2_Missense_Mutation_p.T348K|ATP6V0A1_uc010wgj.1_Missense_Mutation_p.T298K|ATP6V0A1_uc010wgk.1_Missense_Mutation_p.T298K|ATP6V0A1_uc010cyg.2_5'UTR|ATP6V0A1_uc010wgl.1_Missense_Mutation_p.T200K	NM_001130021	NP_001123493	Q93050	VPP1_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a1	341	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytoplasmic vesicle membrane|endosome membrane|Golgi apparatus|integral to membrane|melanosome|nucleus|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1		all_cancers(22;1.18e-05)|Breast(137;0.000105)|all_epithelial(22;0.000254)		BRCA - Breast invasive adenocarcinoma(366;0.137)		AGAAGGGGCACGGTGAGTCCC	0.438													8	76					3.09899e-07	3.31138e-07	0.004482	1	0		A	40639384	A	A	40639384	3	1	130	1	0	0	0	0	1	0	0	0	1169	550	19	5	1077	5	ATP6V0A1	17	40639384	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	317889	40639384	40555826	474	72120											
CNTNAP1	8506	broad.mit.edu	37	chr17	40839832	40839832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcccggtttcccacgccGtggccgcctggcagtctcat	4	9	12	16	4	1	0	1	0	1	0	3	0	2	0	5	3	1	2	5	3	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:40839832G>A	uc002iay.2	+	8	1355	c.1139G>A	c.(1138-1140)CGT>CAT	p.R380H	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	380	Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity	p.R380H(1)		ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		TTCCCACGCCGTGGCCGCCTG	0.637													24	69					0	0	0.00333	0	0		A	40839832	A	A	40839832	3	1	130	1	0	0	0	0	1	0	0	0	3649	1145	40	1	1169	1	CNTNAP1	17	40839832	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	200448	40839832	40355378	475	72121											
CNTNAP1	8506	broad.mit.edu	37	chr17	40840604	40840604	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tcatacccgttgctgatccgGacagggacctcatatttctt	8	13	8	12	2	3	1	2	1	1	0	4	3	4	3	3	2	2	2	3	2	2	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:40840604G>C	uc002iay.2	+	9	1647	c.1431G>C	c.(1429-1431)CGG>CGC	p.R477R	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	477	Laminin G-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		TGCTGATCCGGACAGGGACCT	0.547													23	62					0	0	0.014323	0	0		C	40840604	C	C	40840604	2	2	130	1	0	0	0	0	0	0	0	1	3649	1161	41	5		5	CNTNAP1	17	40840604	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	772	40840604	40354606	476	72122											
DHX8	1659	broad.mit.edu	37	chr17	41584565	41584565	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttgttgcttaggccaagaGgtaagtagatagtggagtcg	10	11	16	4	1	0	2	0	0	0	2	1	3	0	3	1	4	1	5	1	4	5	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:41584565G>A	uc002idu.1	+	13	1996	c.1923G>A	c.(1921-1923)GAG>GAA	p.E641E	DHX8_uc010wif.1_Silent_p.E550E|DHX8_uc010wig.1_Silent_p.E641E	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	641	Helicase ATP-binding.					catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		TAGGCCAAGAGGTAAGTAGAT	0.458													38	76					0	0	0.004878	0	0		A	41584565	A	A	41584565	2	1	130	1	0	0	0	0	0	0	0	1	4521	1014	35	4		4	DHX8	17	41584565	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	743961	41584565	39610645	477	72123											
TRIM25	7706	broad.mit.edu	37	chr17	54991410	54991410	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tccgaggccgccgaggaaacGaaacctagctcgagaggagc	12	3	14	12	5	0	1	0	0	0	1	2	7	1	3	4	3	4	1	4	3	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:54991410G>C	uc002iut.2	-	1	1	c.-59_splice	c.e1-1		TRIM25_uc010dcj.2_Splice_Site	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25						innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)					CCGAGGAAACGAAACCTAGCT	0.706													6	19					0	0	0.001984	0	0		C	54991410	C	C	54991410	5	2	130	1	0	0	0	0	0	0	1	0	16525	1073	37	5		5	TRIM25	17	54991410	Splice_Site	SNP	G	TCGA-CG-4437-01A-01D-1800-08	13406845	54991410	26203800	478	72124											
SCPEP1	59342	broad.mit.edu	37	chr17	55062741	55062741	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttctctcttccatagggCggtccaggcggttctagcac	5	13	10	13	2	4	0	0	0	4	0	7	0	6	0	2	4	1	2	2	4	2	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:55062741C>T	uc002iuv.3	+	3	281	c.228C>T	c.(226-228)GGC>GGT	p.G76G	SCPEP1_uc010dcl.2_RNA|SCPEP1_uc010wnk.1_Silent_p.G26G	NM_021626	NP_067639	Q9HB40	RISC_HUMAN	serine carboxypeptidase 1 precursor	76					proteolysis	extracellular region	serine-type carboxypeptidase activity			skin(1)	1	Breast(9;2.86e-08)					TTCCATAGGGCGGTCCAGGCG	0.428													10	104					0	0	0.008291	0	0		T	55062741	T	T	55062741	2	4	130	1	0	0	0	0	0	0	0	1	13960	755	27	1		1	SCPEP1	17	55062741	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	71331	55062741	26132469	479	72125											
MTMR4	9110	broad.mit.edu	37	chr17	56581218	56581218	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gctggcagataaacagctgtCcagaggtgcagggcccggac	10	5	15	11	1	0	2	0	0	0	2	1	3	1	3	2	4	3	4	2	4	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:56581218C>T	uc002iwj.2	-	15	1808	c.1698G>A	c.(1696-1698)TGG>TGA	p.W566*		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	566	Myotubularin phosphatase.					cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AAACAGCTGTCCAGAGGTGCA	0.522													29	301					0	0	0.009535	0	0		T	56581218	T	T	56581218	4	4	130	1	0	0	0	0	0	1	0	0	9964	856	30	4	1909	4	MTMR4	17	56581218	Nonsense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1518477	56581218	24613992	480	72126											
TEX14	56155	broad.mit.edu	37	chr17	56676672	56676672	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcttttgaagagctctcAtcctcactgccaaaacaaca	13	10	5	13	0	3	2	3	1	1	1	5	2	4	2	2	0	5	2	2	0	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:56676672A>G	uc010dcz.1	-	14	2170	c.2052T>C	c.(2050-2052)GAT>GAC	p.D684D	TEX14_uc002iwr.1_Silent_p.D678D|TEX14_uc002iws.1_Silent_p.D678D|TEX14_uc010dda.1_Silent_p.D458D	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	684						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AAGAGCTCTCATCCTCACTGC	0.483													14	171					0	0	0.004007	0	0		G	56676672	G	G	56676672	2	3	130	1	0	0	0	0	0	0	0	1	15803	214	8	3		3	TEX14	17	56676672	Silent	SNP	A	TCGA-CG-4437-01A-01D-1800-08	95454	56676672	24518538	481	72127											
DHX40	79665	broad.mit.edu	37	chr17	57684433	57684433	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttaaagaaaatgcaaagaaGaaatgatgacaaatccatat	22	8	6	5	0	0	5	0	2	0	3	1	5	1	5	1	0	1	1	1	0	9	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:57684433G>C	uc002ixn.1	+	18	2387	c.2240G>C	c.(2239-2241)AGA>ACA	p.R747T	DHX40_uc010woe.1_Missense_Mutation_p.R670T|DHX40_uc010wof.1_Missense_Mutation_p.R262T	NM_024612	NP_078888	Q8IX18	DHX40_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 40	747							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					ATGCAAAGAAGAAATGATGAC	0.383													32	125					0	0	0.009535	0	0		C	57684433	C	C	57684433	3	2	130	1	0	0	0	0	1	0	0	0	4518	942	33	5	2310	5	DHX40	17	57684433	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1007761	57684433	23510777	482	72128											
USP32	84669	broad.mit.edu	37	chr17	58258984	58258984	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacttgacagtttattttTgctgccaatctggggcagcc	8	14	9	10	0	1	1	0	1	1	0	1	1	1	1	2	2	4	3	2	2	3	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:58258984T>C	uc002iyo.1	-	32	4535	c.4249A>G	c.(4249-4251)AAA>GAA	p.K1417E	USP32_uc002iyn.1_Missense_Mutation_p.K1087E	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	1417					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			AGTTTATTTTTGCTGCCAATC	0.537													5	71					0	0	0.001168	0	0		C	58258984	C	C	58258984	3	2	130	1	0	0	0	0	1	0	0	0	17089	1821	63	3	577	3	USP32	17	58258984	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	574551	58258984	22936226	483	72129											
MED13	9969	broad.mit.edu	37	chr17	60129928	60129928	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggtttttcatctttttcaTaaggctttacaaaccacttg	10	18	5	8	0	3	0	2	0	1	0	3	0	3	0	1	2	2	2	1	2	4	9			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:60129928T>C	uc002izo.2	-	3	517	c.440A>G	c.(439-441)TAT>TGT	p.Y147C		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	147					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						ATCTTTTTCATAAGGCTTTAC	0.328													16	175					0	0	0.006122	0	0		C	60129928	C	C	60129928	3	2	130	1	0	0	0	0	1	0	0	0	9448	1406	49	3	6196	3	MED13	17	60129928	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1870944	60129928	21065282	484	72130											
FTSJ3	117246	broad.mit.edu	37	chr17	61897523	61897523	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctggtctgctccagcCtcttcagcatctgcaaagga	7	12	8	14	0	5	0	1	0	4	0	7	1	7	1	3	2	4	3	3	2	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:61897523C>G	uc002jbz.2	-	19	2345	c.2267G>C	c.(2266-2268)AGG>ACG	p.R756T	FTSJ3_uc002jca.2_Missense_Mutation_p.R756T	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	756					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						CTGCTCCAGCCTCTTCAGCAT	0.572													36	108					0	0	0.004878	0	0		G	61897523	G	G	61897523	3	3	130	1	0	0	0	0	1	0	0	0	6103	681	24	5	284	5	FTSJ3	17	61897523	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1767595	61897523	19297687	485	72131											
SCN4A	6329	broad.mit.edu	37	chr17	62020205	62020205	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cccacaatggacaggatgacGaccacgaagtcaaagatgtt	15	6	10	10	2	1	2	1	1	0	1	1	6	1	4	2	2	0	1	2	2	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:62020205G>C	uc002jds.1	-	23	4346	c.4269C>G	c.(4267-4269)GTC>GTG	p.V1423V		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1423	Helical; Name=S3 of repeat IV; (Potential).|IV.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	ACAGGATGACGACCACGAAGT	0.592													6	45					0	0	0.001168	0	0		C	62020205	C	C	62020205	2	2	130	1	0	0	0	0	0	0	0	1	13945	1045	37	5		5	SCN4A	17	62020205	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	122682	62020205	19175005	486	72132											
ERN1	2081	broad.mit.edu	37	chr17	62125323	62125323	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atcgcaatcatcttctctatCaattcacgtgcaatgacgtc	11	13	5	12	3	5	1	3	1	2	0	8	1	5	1	0	0	1	2	0	0	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:62125323C>G	uc002jdz.2	-	19	2537	c.2424G>C	c.(2422-2424)TTG>TTC	p.L808F		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	808	Cytoplasmic (Potential).|Protein kinase.				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						TCTTCTCTATCAATTCACGTG	0.413													14	38					0	0	0.001855	0	0		G	62125323	G	G	62125323	3	3	130	1	0	0	0	0	1	0	0	0	5245	825	29	5	525	5	ERN1	17	62125323	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	105118	62125323	19069887	487	72133											
LRRC37A3	374819	broad.mit.edu	37	chr17	62893266	62893266	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacccactccagaggctgaGcctccttgactagtagccac	9	8	9	15	0	0	4	0	3	0	1	2	4	2	4	5	1	2	2	5	1	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:62893266G>C	uc002jey.2	-	3	641	c.110C>G	c.(109-111)GCT>GGT	p.A37G	LRRC37A3_uc010wqg.1_Intron|LRRC37A3_uc010wqf.1_Intron	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	37	Extracellular (Potential).					integral to membrane					0						CAGAGGCTGAGCCTCCTTGAC	0.627													15	145					0	0	0.014323	0	0		C	62893266	C	C	62893266	3	2	130	1	0	0	0	0	1	0	0	0	9011	971	34	5	4842	5	LRRC37A3	17	62893266	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	767943	62893266	18301944	488	72134											
PITPNC1	26207	broad.mit.edu	37	chr17	65548449	65548449	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcttggaactattatcccTacacaattacaggtaagtcc	13	11	7	10	0	0	0	0	0	0	0	2	1	2	1	2	3	3	2	2	3	7	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:65548449T>C	uc002jgc.2	+	3	621	c.274T>C	c.(274-276)TAC>CAC	p.Y92H	PITPNC1_uc002jgb.2_Missense_Mutation_p.Y92H	NM_012417	NP_036549	Q9UKF7	PITC1_HUMAN	phosphatidylinositol transfer protein,	92					signal transduction	cytoplasm	lipid binding|phosphatidylinositol transporter activity|protein binding			skin(1)	1	all_cancers(12;3.03e-10)		BRCA - Breast invasive adenocarcinoma(8;2.08e-08)|Colorectal(3;0.198)			CTATTATCCCTACACAATTAC	0.388													54	89					0	0	0.01441	0	0		C	65548449	C	C	65548449	3	2	130	1	0	0	0	0	1	0	0	0	11968	1522	53	3	284	3	PITPNC1	17	65548449	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	2655183	65548449	15646761	489	72135											
MAP2K6	5608	broad.mit.edu	37	chr17	67519748	67519748	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggtggactctgttgctaAaacaattgatgcaggttgca	10	13	11	7	0	1	1	0	1	1	0	1	2	1	2	0	3	4	5	0	3	3	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:67519748A>G	uc002jij.2	+	8	917	c.629A>G	c.(628-630)AAA>AGA	p.K210R		NM_002758	NP_002749	P52564	MP2K6_HUMAN	mitogen-activated protein kinase kinase 6	210	Protein kinase.				activation of MAPK activity|cell cycle arrest|DNA damage induced protein phosphorylation|innate immune response|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of muscle cell differentiation|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|pancreas(1)	5	Breast(10;6.05e-10)					TCTGTTGCTAAAACAATTGAT	0.448													35	255					0	0	0.013726	0	0		G	67519748	G	G	67519748	3	3	130	1	0	0	0	0	1	0	0	0	9259	14	1	3	659	3	MAP2K6	17	67519748	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	1971299	67519748	13675462	490	72136											
GRIN2C	2905	broad.mit.edu	37	chr17	72848621	72848626	+	In_Frame_Del	DEL	GCGCGT	-	-																															gcgcacgccctccaggaagaGcgcgtggcccgggtgcaggc																										TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:72848621_72848626delGCGCGT	uc002jlt.1	-	3	680_685	c.524_529delACGCGC	c.(523-531)CACGCGCTC>CTC	p.HA175del	GRIN2C_uc010wrh.1_RNA|GRIN2C_uc002jlu.1_In_Frame_Del_p.HA175del|GRIN2C_uc002jlv.1_3'UTR	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	175_176	Extracellular (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	TCCAGGAAGAGCGCGTGGCCCGGGTG	0.714													4	6	---	---	---	---						.	-	72848626	-	-	72848621	7	5	130	1	0	1	0	1	0	0	0	0	6797	971	34	0	3216	0	GRIN2C	17	72848621	In_Frame_Del	DEL	GCGCGT	TCGA-CG-4437-01A-01D-1800-08	5328873	72848621	8346589	491	72137											
FBF1	85302	broad.mit.edu	37	chr17	73921502	73921502	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggctccaaaggtgaagtcCtcgtcaccccacatatcttc	10	10	7	14	1	2	1	1	1	1	0	6	1	4	1	4	2	0	1	4	2	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:73921502C>T	uc002jqc.2	-	12	1126	c.852G>A	c.(850-852)GAG>GAA	p.E284E	FBF1_uc002jqa.1_RNA|FBF1_uc010wsp.1_Silent_p.E274E|FBF1_uc002jqd.1_Silent_p.E284E	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1	284											0						AGGTGAAGTCCTCGTCACCCC	0.562													23	19					0	0	0.00333	0	0		T	73921502	T	T	73921502	2	4	130	1	0	0	0	0	0	0	0	1	5709	680	24	4		4	FBF1	17	73921502	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1072881	73921502	7273708	492	72138											
DNAH17	8632	broad.mit.edu	37	chr17	76503864	76503864	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaattccatcatgctccaGgtactgtccagggctttcag	8	12	10	11	0	2	0	2	0	0	0	5	1	5	1	3	3	2	3	3	3	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:76503864G>A	uc010wtu.1	-	2	312	c.135C>T	c.(133-135)ACC>ACT	p.T45T						full-length cDNA clone CS0DJ002YI14 of T cells (Jurkat cell line) Cot 10-normalized of Homo sapiens (human).											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			TCATGCTCCAGGTACTGTCCA	0.567													7	9					0	0	0.00308	0	0		A	76503864	A	A	76503864	2	1	130	1	0	0	0	0	0	0	0	1	4607	987	35	4		4	DNAH17	17	76503864	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2582362	76503864	4691346	493	72139											
DNAH17	8632	broad.mit.edu	37	chr17	76557965	76557965	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaagatcttagcattgtctAgctcagcgtcaaacagctcc	12	10	7	12	1	4	1	2	0	2	1	5	1	5	1	1	0	5	3	1	0	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:76557965A>C	uc002jvv.1	-	8	879	c.773T>G	c.(772-774)CTA>CGA	p.L258R						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			AGCATTGTCTAGCTCAGCGTC	0.597													7	41					0	0	0.00308	0	0		C	76557965	C	C	76557965	3	2	130	1	0	0	0	0	1	0	0	0	4607	420	15	5	12001	5	DNAH17	17	76557965	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	54101	76557965	4637245	494	72140											
PYCR1	5831	broad.mit.edu	37	chr17	79894654	79894654	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagcccttggccagggcaaAagccagctggccagcgccga	10	3	14	14	2	0	0	0	0	0	0	0	2	0	0	5	3	4	2	5	3	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr17:79894654A>C	uc002kcr.1	-	1	315	c.37T>G	c.(37-39)TTT>GTT	p.F13V	PYCR1_uc002kcq.1_Missense_Mutation_p.F13V|PYCR1_uc002kcp.2_Missense_Mutation_p.F13V|PYCR1_uc002kcs.1_Missense_Mutation_p.F13V|PYCR1_uc010wvd.1_Missense_Mutation_p.F40V|PYCR1_uc002kct.1_Missense_Mutation_p.F13V|PYCR1_uc002kcu.1_Missense_Mutation_p.F13V|PYCR1_uc010wve.1_5'Flank	NM_006907	NP_008838	P32322	P5CR1_HUMAN	pyrroline-5-carboxylate reductase 1 isoform 1	13					cellular response to oxidative stress|proline biosynthetic process	mitochondrial matrix	binding|pyrroline-5-carboxylate reductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0165)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)		L-Proline(DB00172)|NADH(DB00157)	GCCAGGGCAAAAGCCAGCTGG	0.677													6	10					0	0	0.004482	0	0		C	79894654	C	C	79894654	3	2	130	1	0	0	0	0	1	0	0	0	12880	14	1	5	1038	5	PYCR1	17	79894654	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	3336689	79894654	1300556	495	72141											
SMCHD1	23347	broad.mit.edu	37	chr18	2674039	2674039	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaaacacaaggaaaacCtgctgttgcagtgatagata	16	9	10	6	0	0	4	0	3	0	1	0	5	0	5	1	1	4	3	1	1	6	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr18:2674039C>G	uc002klm.3	+	5	722	c.533C>G	c.(532-534)CCT>CGT	p.P178R		NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	178					chromosome organization		ATP binding				0						CAAGGAAAACCTGCTGTTGCA	0.343													3	8					0	0	0.004672	0	0		G	2674039	G	G	2674039	3	3	130	1	0	0	0	0	1	0	0	0	14813	681	24	5	551	5	SMCHD1	18	2674039	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08		2674039	75403209	496	72142											
EPB41L3	23136	broad.mit.edu	37	chr18	5489161	5489161	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccggcttggattccgagtCtgatccagattcggtcgtca	6	12	12	11	4	2	2	1	1	1	1	7	4	5	3	3	3	0	1	3	3	0	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr18:5489161C>A	uc002kmt.1	-	2	108	c.22G>T	c.(22-24)GAC>TAC	p.D8Y	EPB41L3_uc010wzh.1_Missense_Mutation_p.D8Y|EPB41L3_uc002kmu.1_Missense_Mutation_p.D8Y|EPB41L3_uc010dkq.1_Splice_Site|EPB41L3_uc010dks.1_Missense_Mutation_p.D30Y|EPB41L3_uc002kmv.1_Splice_Site	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	8					cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GATTCCGAGTCTGATCCAGAT	0.473													9	45					1.08611e-07	1.17334e-07	0.010729	1	0		A	5489161	A	A	5489161	3	1	130	1	0	0	0	0	1	0	0	0	5162	913	32	5	3325	5	EPB41L3	18	5489161	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2815122	5489161	72588087	497	72143											
SPIRE1	56907	broad.mit.edu	37	chr18	12546865	12546865	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccttcaaaccatagtcCagtgctttataaataataat	14	15	3	9	0	2	0	1	0	1	0	4	0	3	0	3	0	2	1	3	0	7	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr18:12546865C>A	uc002kre.2	-	3	458	c.411G>T	c.(409-411)CTG>CTT	p.L137L	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Silent_p.L17L|SPIRE1_uc010wzx.1_Intron|SPIRE1_uc010wzy.1_Silent_p.L137L	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	137	KIND.					cytoskeleton|perinuclear region of cytoplasm	actin binding				0						AACCATAGTCCAGTGCTTTAT	0.403													16	54					6.31663e-08	6.8672e-08	0.003163	1	0		A	12546865	A	A	12546865	2	1	130	1	0	0	0	0	0	0	0	1	15096	581	21	5		5	SPIRE1	18	12546865	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	7057704	12546865	65530383	498	72144											
NPC1	4864	broad.mit.edu	37	chr18	21134742	21134742	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtacgcagtacagaaagtgCgtgtggtaatcggcatacac	12	8	12	9	4	0	1	0	0	0	1	1	1	0	1	0	2	4	5	0	2	5	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr18:21134742C>T	uc002kum.3	-	9	1807	c.1533G>A	c.(1531-1533)ACG>ACA	p.T511T	NPC1_uc010xaz.1_Silent_p.T312T|NPC1_uc010xba.1_Silent_p.T356T	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	511					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					ACAGAAAGTGCGTGTGGTAAT	0.443													10	25					0	0	0.008291	0	0		T	21134742	T	T	21134742	2	4	130	1	0	0	0	0	0	0	0	1	10589	755	27	1		1	NPC1	18	21134742	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	8587877	21134742	56942506	499	72145											
CABYR	26256	broad.mit.edu	37	chr18	21736146	21736146	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctcctcttgtgtgttcTggaaaggtgctagaagtgca	7	13	13	8	0	2	1	0	0	2	1	3	2	3	2	1	2	3	5	1	2	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr18:21736146T>C	uc002kux.2	+	4	833	c.681T>C	c.(679-681)TCT>TCC	p.S227S	CABYR_uc010xbb.1_Silent_p.S129S|CABYR_uc002kuy.2_Intron|CABYR_uc002kuz.2_Intron|CABYR_uc002kva.2_Silent_p.S209S|CABYR_uc002kvb.2_Intron|CABYR_uc002kvc.2_Intron|CABYR_uc010dlw.2_RNA	NM_012189	NP_036321	O75952	CABYR_HUMAN	calcium-binding tyrosine	227					ciliary or flagellar motility|signal transduction|sperm capacitation	cytoplasm|cytoskeleton|flagellum|motile cilium|nucleus	calcium ion binding|cAMP-dependent protein kinase regulator activity|enzyme binding|protein heterodimerization activity|SH3 domain binding				0	all_cancers(21;9.13e-05)|all_epithelial(16;5.49e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0305)|Ovarian(20;0.17)					TTGTGTGTTCTGGAAAGGTGC	0.478													15	44					0	0	0.00245	0	0		C	21736146	C	C	21736146	2	2	130	1	0	0	0	0	0	0	0	1	2539	1567	55	3		3	CABYR	18	21736146	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	601404	21736146	56341102	500	72146											
CDH2	1000	broad.mit.edu	37	chr18	25583075	25583075	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acgattctgtacctcaacatCccattgagggcattgggatc	10	11	9	11	1	2	1	1	1	1	0	4	3	3	2	2	2	2	2	2	2	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr18:25583075C>T	uc002kwg.2	-	7	1365	c.906G>A	c.(904-906)GGG>GGA	p.G302G	CDH2_uc010xbn.1_Silent_p.G271G	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	302	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						ACCTCAACATCCCATTGAGGG	0.458													8	50					0	0	0.00308	0	0		T	25583075	T	T	25583075	2	4	130	1	0	0	0	0	0	0	0	1	3108	842	30	4		4	CDH2	18	25583075	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3846929	25583075	52494173	501	72147											
FHOD3	80206	broad.mit.edu	37	chr18	34192035	34192035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggactgacctggacttaGtggagcaactcaacatttat	13	10	10	8	0	1	1	1	1	0	0	1	4	1	4	1	3	3	1	1	3	5	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr18:34192035G>A	uc002kzt.1	+	9	1031	c.934G>A	c.(934-936)GTG>ATG	p.V312M	FHOD3_uc002kzr.1_Missense_Mutation_p.V312M|FHOD3_uc002kzs.1_Missense_Mutation_p.V312M|FHOD3_uc002kzu.1_Missense_Mutation_p.V137M|FHOD3_uc010dmz.1_Missense_Mutation_p.V65M	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	312	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CCTGGACTTAGTGGAGCAACT	0.507													10	53					0	0	0.008291	0	0		A	34192035	A	A	34192035	3	1	130	1	0	0	0	0	1	0	0	0	5897	1029	36	4	968	4	FHOD3	18	34192035	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	8608960	34192035	43885213	502	72148											
RTTN	25914	broad.mit.edu	37	chr18	67871435	67871435	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcagatttggctccacattaGaccgaagcttagataagaac	14	9	9	9	1	0	4	0	0	0	4	1	5	1	4	2	1	2	3	2	1	5	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr18:67871435G>C	uc002lkp.2	-	3	352	c.284C>G	c.(283-285)TCT>TGT	p.S95C	RTTN_uc010xfb.1_5'UTR|RTTN_uc002lkq.1_Missense_Mutation_p.S95C	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	95							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				CTCCACATTAGACCGAAGCTT	0.428													10	83					0	0	0.010729	0	0		C	67871435	C	C	67871435	3	2	130	1	0	0	0	0	1	0	0	0	13762	942	33	5	6584	5	RTTN	18	67871435	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	33679400	67871435	10205813	503	72149											
LMNB2	84823	broad.mit.edu	37	chr19	2433911	2433911	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccgaggccgaggcctgctgGgccaggtggaagccaccgct	6	4	16	15	3	0	0	0	0	0	0	0	3	0	1	6	5	2	2	6	5	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:2433911G>A	uc002lvy.2	-	8	1422	c.1335C>T	c.(1333-1335)GCC>GCT	p.A445A	LMNB2_uc002lwa.1_Silent_p.A465A	NM_032737	NP_116126	Q03252	LMNB2_HUMAN	lamin B2	445	Tail.			LEVEEPLGSGPSVLGTGTGGSGGFHLAQQASASGSVS -> WRWRSPWQRPKRPGHGHGWQRWLPPGPAGLGLGQRH (in Ref. 5; AAA80979).		nuclear inner membrane	structural molecule activity			large_intestine(1)|ovary(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGCCTGCTGGGCCAGGTGGA	0.662													11	56					0	0	0.008291	0	0		A	2433911	A	A	2433911	2	1	130	1	0	0	0	0	0	0	0	1	8867	1219	43	4		4	LMNB2	19	2433911	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08		2433911	56695072	504	72150											
FZR1	51343	broad.mit.edu	37	chr19	3525967	3525967	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tccagagccggagccaactgGagcgtgaacttccacaggat	11	6	12	12	2	0	2	0	1	0	1	2	5	2	5	4	3	5	0	4	3	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:3525967G>C	uc010dtk.2	+	2	205	c.171G>C	c.(169-171)TGG>TGC	p.W57C	FZR1_uc002lxt.2_Missense_Mutation_p.W57C|FZR1_uc002lxv.2_Missense_Mutation_p.W57C	NM_001136198	NP_001129670	Q9UM11	FZR_HUMAN	Fzr1 protein isoform 1	57					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|DNA repair|G2/M transition DNA damage checkpoint|mitosis|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	protein binding			lung(1)|kidney(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		GAGCCAACTGGAGCGTGAACT	0.672													7	21					0	0	0.001984	0	0		C	3525967	C	C	3525967	3	2	130	1	0	0	0	0	1	0	0	0	6152	1183	41	5	177	5	FZR1	19	3525967	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1092056	3525967	55603016	505	72151											
UBXN6	80700	broad.mit.edu	37	chr19	4446345	4446345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgtacttgcgcagccccCgctgctcctccttctcccgc	3	11	8	19	3	1	0	0	0	1	0	4	0	3	0	5	0	4	5	5	0	1	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:4446345C>T	uc002man.1	-	9	1082	c.986G>A	c.(985-987)CGG>CAG	p.R329Q	UBXN6_uc010dty.1_Missense_Mutation_p.R233Q|UBXN6_uc002mam.1_Missense_Mutation_p.R276Q	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	329						microtubule organizing center|nucleus	protein binding				0						GCGCAGCCCCCGCTGCTCCTC	0.721													6	6					0	0	0.001168	0	0		T	4446345	T	T	4446345	3	4	130	1	0	0	0	0	1	0	0	0	16943	652	23	1	351	1	UBXN6	19	4446345	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	920378	4446345	54682638	506	72152											
TICAM1	148022	broad.mit.edu	37	chr19	4818286	4818286	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctgcccctggcagcctGggcgtggggtcttcagtttg	2	11	16	12	1	2	0	1	0	1	0	3	0	3	0	4	5	2	2	4	5	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:4818286G>C	uc002mbi.2	-	2	355	c.104C>G	c.(103-105)CCA>CGA	p.P35R		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	35					apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		CTGGCAGCCTGGGCGTGGGGT	0.592													9	49					0	0	0.006214	0	0		C	4818286	C	C	4818286	3	2	130	1	0	0	0	0	1	0	0	0	15917	1348	47	5	2038	5	TICAM1	19	4818286	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	371941	4818286	54310697	507	72153											
PTPRS	5802	broad.mit.edu	37	chr19	5244018	5244018	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcctccagcaggctgccCacggtggtcagcaggctgtc	5	8	13	15	2	1	0	1	0	0	0	5	0	3	0	3	4	3	4	3	4	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:5244018C>A	uc002mbv.2	-	11	1698	c.1464G>T	c.(1462-1464)GTG>GTT	p.V488V	PTPRS_uc002mbu.1_Silent_p.V475V|PTPRS_uc010xin.1_Silent_p.V475V|PTPRS_uc002mbw.2_Silent_p.V475V|PTPRS_uc002mbx.2_Silent_p.V479V|PTPRS_uc002mby.2_Silent_p.V475V	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	488	Extracellular (Potential).|Fibronectin type-III 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GCAGGCTGCCCACGGTGGTCA	0.672													22	33					6.44725e-10	7.17989e-10	0.014323	1	0		A	5244018	A	A	5244018	2	1	130	1	0	0	0	0	0	0	0	1	12836	581	21	5		5	PTPRS	19	5244018	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	425732	5244018	53884965	508	72154											
TNFSF9	8744	broad.mit.edu	37	chr19	6535071	6535071	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggactcccttcaccgaggtcGgaataacgtccagcctgggt	8	8	12	13	3	1	0	1	0	0	0	4	3	3	2	4	4	2	0	4	4	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:6535071G>A	uc002mfh.2	+	3	797	c.759G>A	c.(757-759)TCG>TCA	p.S253S		NM_003811	NP_003802	P41273	TNFL9_HUMAN	tumor necrosis factor (ligand) superfamily,	253	Extracellular (Potential).				apoptosis|cell proliferation|cell-cell signaling|immune response|signal transduction	extracellular space|integral to membrane	cytokine activity|tumor necrosis factor receptor binding			central_nervous_system(1)	1						CACCGAGGTCGGAATAACGTC	0.627													4	18					0	0	0.000602	0	0		A	6535071	A	A	6535071	2	1	130	1	0	0	0	0	0	0	0	1	16337	1103	39	1		1	TNFSF9	19	6535071	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1291053	6535071	52593912	509	72155											
SNAPC2	6618	broad.mit.edu	37	chr19	7987364	7987364	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgacctgctcatgtcactTccagaggagctgccactcct	7	10	8	16	1	2	1	2	0	0	1	5	3	4	2	4	1	3	2	4	1	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:7987364T>G	uc002miw.1	+	5	743	c.720T>G	c.(718-720)CTT>CTG	p.L240L	SNAPC2_uc002mix.1_RNA	NM_003083	NP_003074	Q13487	SNPC2_HUMAN	small nuclear RNA activating complex,	240					snRNA transcription|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	sequence-specific DNA binding transcription factor activity				0						TCATGTCACTTCCAGAGGAGC	0.627													30	65					0	0	0.013726	0	0		G	7987364	G	G	7987364	2	3	130	1	0	0	0	0	0	0	0	1	14860	1770	62	5		5	SNAPC2	19	7987364	Silent	SNP	T	TCGA-CG-4437-01A-01D-1800-08	1452293	7987364	51141619	510	72156											
ADAMTS10	81794	broad.mit.edu	37	chr19	8661972	8661972	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatttctgccacttacagaaGctgtccagggacttcccggc	8	10	10	13	1	1	1	0	0	1	1	3	3	3	2	3	2	3	1	3	2	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:8661972G>C	uc002mkj.1	-	8	1213	c.939C>G	c.(937-939)AGC>AGG	p.S313R	ADAMTS10_uc002mkk.1_5'UTR	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	313	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						ACTTACAGAAGCTGTCCAGGG	0.587													34	107					0	0	0.003271	0	0		C	8661972	C	C	8661972	3	2	130	1	0	0	0	0	1	0	0	0	256	962	34	5	2448	5	ADAMTS10	19	8661972	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	674608	8661972	50467011	511	72157											
PIN1	5300	broad.mit.edu	37	chr19	9959825	9959825	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcggacgggggagatgagcGggcccgtgttcacggattcc	6	7	18	10	5	1	2	1	1	0	1	2	5	2	4	2	5	2	1	2	5	0	2	rs139473099		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:9959825G>C	uc002mml.1	+	4	464	c.442G>C	c.(442-444)GGG>CGG	p.G148R	PIN1_uc002mmm.1_3'UTR|PIN1_uc002mmn.1_RNA	NM_006221	NP_006212	Q13526	PIN1_HUMAN	protein (peptidyl-prolyl cis/trans isomerase)	148	PpiC.				cell cycle|negative regulation of cell motility|negative regulation of ERK1 and ERK2 cascade|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of type I interferon production|positive regulation of Rho GTPase activity|positive regulation of ubiquitin-protein ligase activity|protein folding|regulation of mitosis|regulation of pathway-restricted SMAD protein phosphorylation	nucleoplasm	GTPase activating protein binding|mitogen-activated protein kinase kinase binding|peptidyl-prolyl cis-trans isomerase activity|phosphoserine binding|phosphothreonine binding			skin(1)	1						GGAGATGAGCGGGCCCGTGTT	0.687													8	13					0	0	0.004482	0	0		C	9959825	C	C	9959825	3	2	130	1	0	0	0	0	1	0	0	0	11949	1116	39	5	456	5	PIN1	19	9959825	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1297853	9959825	49169158	512	72158											
CACNA1A	773	broad.mit.edu	37	chr19	13397751	13397751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggttgacaggttggggcccGacacagggaccccggagccc	7	5	16	13	2	0	1	0	1	0	0	0	4	0	3	4	6	1	2	4	6	0	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:13397751G>A	uc010dze.2	-	20	3358	c.3122C>T	c.(3121-3123)TCG>TTG	p.S1041L	CACNA1A_uc010dzc.2_Missense_Mutation_p.S566L|CACNA1A_uc002mwy.3_Missense_Mutation_p.S1040L|CACNA1A_uc010xne.1_Missense_Mutation_p.S569L	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1041	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	GTTGGGGCCCGACACAGGGAC	0.537													20	55					0	0	0.010504	0	0		A	13397751	A	A	13397751	3	1	130	1	0	0	0	0	1	0	0	0	2541	1059	37	1	4615	1	CACNA1A	19	13397751	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3437926	13397751	45731232	513	72159											
NOTCH3	4854	broad.mit.edu	37	chr19	15302590	15302590	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcactggcagttataggtGttgacgccatccacgcatgt	8	10	13	10	2	0	1	0	1	0	0	1	1	1	1	2	3	0	5	2	3	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:15302590G>A	uc002nan.2	-	5	844	c.768C>T	c.(766-768)AAC>AAT	p.N256N	NOTCH3_uc002nao.1_Silent_p.N256N	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	256	Extracellular (Potential).|EGF-like 6; calcium-binding (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			AGTTATAGGTGTTGACGCCAT	0.617													13	46					0	0	0.013537	0	0		A	15302590	A	A	15302590	2	1	130	1	0	0	0	0	0	0	0	1	10569	1368	48	4		4	NOTCH3	19	15302590	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1904839	15302590	43826393	514	72160											
CYP4F8	11283	broad.mit.edu	37	chr19	15730504	15730504	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccaccgtcgcttgtgacgCctgccttccatttcaacatc	7	11	6	17	3	1	1	1	1	0	0	4	1	2	1	5	0	2	1	5	0	1	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:15730504C>A	uc002nbi.2	+	7	521	c.457C>A	c.(457-459)CCT>ACT	p.P153T	CYP4F8_uc010xoi.1_3'UTR|CYP4F8_uc010xoj.1_Intron	NM_007253	NP_009184	P98187	CP4F8_HUMAN	cytochrome P450, family 4, subfamily F,	153					prostaglandin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	alkane 1-monooxygenase activity|aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			large_intestine(1)	1						GCTTGTGACGCCTGCCTTCCA	0.507													14	44					1.67942e-08	1.84628e-08	0.006122	1	0		A	15730504	A	A	15730504	3	1	130	1	0	0	0	0	1	0	0	0	4194	726	26	5	470	5	CYP4F8	19	15730504	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	427914	15730504	43398479	515	72161											
JAK3	3718	broad.mit.edu	37	chr19	17952465	17952465	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactaaaatctggttgtctGtcctggtaacagtgaccagg	10	11	10	10	0	2	1	0	1	2	0	3	1	3	1	3	3	1	2	3	3	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:17952465G>C	uc002nhn.3	-	7	1068	c.968C>G	c.(967-969)ACA>AGA	p.T323R	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Missense_Mutation_p.T323R|JAK3_uc010xpx.1_Missense_Mutation_p.T323R	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	323	FERM.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						CTGGTTGTCTGTCCTGGTAAC	0.612		2	Mis		acute megakaryocytic leukemia|								7	50					0	0	0.001984	0	0		C	17952465	C	C	17952465	3	2	130	1	0	0	0	0	1	0	0	0	7955	1377	48	5	2478	5	JAK3	19	17952465	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2221961	17952465	41176518	516	72162											
UPF1	5976	broad.mit.edu	37	chr19	18971148	18971148	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agcggatcgtgtgaagaaggGatttgacttccagtggcccc	9	9	14	9	2	0	3	0	2	0	1	2	5	1	5	3	3	1	0	3	3	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:18971148G>C	uc002nkg.2	+	16	2509	c.2234G>C	c.(2233-2235)GGA>GCA	p.G745A	UPF1_uc002nkf.2_Missense_Mutation_p.G734A|UPF1_uc002nkh.2_5'UTR	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	745					cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GTGAAGAAGGGATTTGACTTC	0.537													49	153					0	0	0.01441	0	0		C	18971148	C	C	18971148	3	2	130	1	0	0	0	0	1	0	0	0	17029	1174	41	5	2263	5	UPF1	19	18971148	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1018683	18971148	40157835	517	72163											
KIAA0355	9710	broad.mit.edu	37	chr19	34842423	34842423	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttggttcttgcaggaaaCacagcagtggagagcaagac	12	8	12	9	0	2	2	0	0	2	2	2	4	2	3	0	3	4	4	0	3	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:34842423C>G	uc002nvd.3	+	13	3689	c.2830C>G	c.(2830-2832)CAC>GAC	p.H944D		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	944										ovary(1)	1	Esophageal squamous(110;0.162)					TTGCAGGAAACACAGCAGTGG	0.587													7	47					0	0	0.00308	0	0		G	34842423	G	G	34842423	3	3	130	1	0	0	0	0	1	0	0	0	8186	478	17	5	2876	5	KIAA0355	19	34842423	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	15871275	34842423	24286560	518	72164											
RASGRP4	115727	broad.mit.edu	37	chr19	38912651	38912651	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagctcatcttcgctgcAgccgccctcactcagcaggc	7	7	9	18	2	4	0	3	0	1	0	5	0	4	0	2	1	5	5	2	1	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:38912651A>T	uc002oir.2	-	2	380	c.166T>A	c.(166-168)TGC>AGC	p.C56S	RASGRP4_uc010efz.1_5'Flank|RASGRP4_uc010ega.1_5'Flank|RASGRP4_uc010xua.1_Missense_Mutation_p.C56S|RASGRP4_uc010xub.1_Missense_Mutation_p.C56S|RASGRP4_uc010xuc.1_Missense_Mutation_p.C56S|RASGRP4_uc010xud.1_Missense_Mutation_p.C56S|RASGRP4_uc010xue.1_Missense_Mutation_p.C56S|RASGRP4_uc010egb.2_Missense_Mutation_p.C56S	NM_170604	NP_733749	Q8TDF6	GRP4_HUMAN	RAS guanyl releasing protein 4 isoform a	56	N-terminal Ras-GEF.				activation of phospholipase C activity|cell growth|cell proliferation|myeloid cell differentiation|positive regulation of Ras protein signal transduction|regulation of G-protein coupled receptor protein signaling pathway|response to extracellular stimulus|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|membrane fraction|plasma membrane|soluble fraction	diacylglycerol binding|GTP-dependent protein binding|metal ion binding|Ras guanyl-nucleotide exchange factor activity			pancreas(1)|lung(1)|skin(1)	3	all_cancers(60;4.21e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TCTTCGCTGCAGCCGCCCTCA	0.562													3	25					0	0	0.004672	0	0		T	38912651	T	T	38912651	3	4	130	1	0	0	0	0	1	0	0	0	13102	188	7	5	1919	5	RASGRP4	19	38912651	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	4070228	38912651	20216332	519	72165											
RYR1	6261	broad.mit.edu	37	chr19	39068820	39068820	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcaagtaccagatctggaaGttcggggtcatcttcacaga	11	10	11	9	1	5	2	3	0	2	2	6	3	5	3	1	3	1	2	1	3	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:39068820G>C	uc002oit.2	+	99	14470	c.14340G>C	c.(14338-14340)AAG>AAC	p.K4780N	RYR1_uc002oiu.2_Missense_Mutation_p.K4775N	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4780					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AGATCTGGAAGTTCGGGGTCA	0.612													6	18					0	0	0.001168	0	0		C	39068820	C	C	39068820	3	2	130	1	0	0	0	0	1	0	0	0	13793	1020	36	5	14734	5	RYR1	19	39068820	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	156169	39068820	20060163	520	72166											
AXL	558	broad.mit.edu	37	chr19	41726605	41726605	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcacaggtgcccggggactCacgggcacccttcggtgtca	7	7	13	14	3	3	0	3	0	0	0	4	1	3	1	2	5	1	1	2	5	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:41726605C>T	uc010ehj.2	+	2	340	c.150C>T	c.(148-150)CTC>CTT	p.L50L	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Silent_p.L50L|AXL_uc010ehk.2_Silent_p.L50L	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	50	Extracellular (Potential).|Interaction with GAS6.|Ig-like C2-type 1.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						CCCGGGGACTCACGGGCACCC	0.617													7	10					0	0	0.001984	0	0		T	41726605	T	T	41726605	2	4	130	1	0	0	0	0	0	0	0	1	1239	813	29	4		4	AXL	19	41726605	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2657785	41726605	17402378	521	72167											
ZNF404	342908	broad.mit.edu	37	chr19	44378005	44378005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttgtgttatttctcttatGtagaggaagggatttatgtt	8	20	10	3	0	2	1	0	0	2	1	3	3	2	3	0	2	0	3	0	2	5	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:44378005G>A	uc002oxs.3	-	2	361	c.352C>T	c.(352-354)CAT>TAT	p.H118Y		NM_001033719	NP_001028891	Q494X3	ZN404_HUMAN	zinc finger protein 404	121					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				TTTCTCTTATGTAGAGGAAGG	0.348													57	166					0	0	0.01441	0	0		A	44378005	A	A	44378005	3	1	130	1	0	0	0	0	1	0	0	0	17911	1377	48	4	1301	4	ZNF404	19	44378005	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	2651400	44378005	14750978	522	72168											
IGFL4	444882	broad.mit.edu	37	chr19	46543422	46543422	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagatccttacctgggcaCagatcctggtgataggggag	9	9	14	9	0	1	3	1	1	0	2	3	4	3	4	3	4	1	1	3	4	2	2	rs147872869	by1000genomes	TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:46543422C>G	uc002pdy.1	-	3	377	c.323G>C	c.(322-324)TGT>TCT	p.C108S		NM_001002923	NP_001002923	Q6B9Z1	IGFL4_HUMAN	IGF-like family member 4 precursor	108						extracellular region					0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.0036)|GBM - Glioblastoma multiforme(486;0.022)|Epithelial(262;0.208)		TACCTGGGCACAGATCCTGGT	0.567													10	125					0	0	0.010729	0	0		G	46543422	G	G	46543422	3	3	130	1	0	0	0	0	1	0	0	0	7605	478	17	5	59	5	IGFL4	19	46543422	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2165417	46543422	12585561	523	72169											
IGFL2	147920	broad.mit.edu	37	chr19	46664038	46664038	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctttgagctctgctgtCttgattcctttggcctcaca	4	16	8	13	0	3	2	1	2	2	0	4	2	4	2	3	1	3	3	3	1	0	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:46664038C>A	uc010xxv.1	+	3	277	c.241C>A	c.(241-243)CTT>ATT	p.L81I	IGFL2_uc002peb.2_Missense_Mutation_p.L92I	NM_001135113	NP_001128585	Q6UWQ7	IGFL2_HUMAN	IGF-like family member 2 isoform b	81						extracellular region	protein binding				0		Ovarian(192;0.0908)|all_neural(266;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(486;0.031)|Epithelial(262;0.247)		GCTCTGCTGTCTTGATTCCTT	0.527													37	280					1.47197e-15	1.68015e-15	0.007835	1	0		A	46664038	A	A	46664038	3	1	130	1	0	0	0	0	1	0	0	0	7603	913	32	5	307	5	IGFL2	19	46664038	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	120616	46664038	12464945	524	72170											
PPP5C	5536	broad.mit.edu	37	chr19	46893354	46893354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acatccacctccagggctctGacctacggcctcagttccac	8	8	7	18	1	2	1	1	1	1	0	5	1	5	1	6	2	1	2	6	2	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:46893354G>A	uc002pem.2	+	12	1462	c.1402G>A	c.(1402-1404)GAC>AAC	p.D468N	PPP5C_uc010xya.1_Missense_Mutation_p.D335N|PPP5C_uc002pen.2_Missense_Mutation_p.D446N	NM_006247	NP_006238	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	468	Catalytic.				mitosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein dephosphorylation|transcription, DNA-dependent	Golgi apparatus|nucleus	metal ion binding|protein binding|protein serine/threonine phosphatase activity|signal transducer activity			lung(1)|pancreas(1)	2		Ovarian(192;0.0731)|all_neural(266;0.196)		OV - Ovarian serous cystadenocarcinoma(262;0.000196)|all cancers(93;0.00192)|GBM - Glioblastoma multiforme(486;0.0499)|Epithelial(262;0.0504)		CCAGGGCTCTGACCTACGGCC	0.642													19	70					0	0	0.012319	0	0		A	46893354	A	A	46893354	3	1	130	1	0	0	0	0	1	0	0	0	12428	1290	45	4	1448	4	PPP5C	19	46893354	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	229316	46893354	12235629	525	72171											
GYS1	2997	broad.mit.edu	37	chr19	49477581	49477581	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gcttgtggaggagaggaactCcgggtggaaaatcacctggt	10	8	16	7	1	1	1	1	0	0	1	2	5	2	4	2	6	1	1	2	6	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:49477581C>G	uc002plp.2	-	12	1679	c.1438G>C	c.(1438-1440)GAG>CAG	p.E480Q	GYS1_uc010xzy.1_Missense_Mutation_p.E113Q|GYS1_uc010emm.2_Missense_Mutation_p.E416Q|GYS1_uc010xzz.1_Missense_Mutation_p.E400Q	NM_002103	NP_002094	P13807	GYS1_HUMAN	glycogen synthase 1 (muscle) isoform 1	480					glucose metabolic process|glycogen biosynthetic process	cytosol	glycogen (starch) synthase activity|protein binding			ovary(2)	2		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000164)|all cancers(93;0.000226)|GBM - Glioblastoma multiforme(486;0.00561)|Epithelial(262;0.0286)		GAGAGGAACTCCGGGTGGAAA	0.488													11	21					0	0	0.008291	0	0		G	49477581	G	G	49477581	3	3	130	1	0	0	0	0	1	0	0	0	6928	864	30	5	795	5	GYS1	19	49477581	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	2584227	49477581	9651402	526	72172											
NR1H2	7376	broad.mit.edu	37	chr19	50883102	50883102	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatcaccttcttgaaggaCttcacctacagcaaggacga	12	10	8	11	1	3	1	2	1	1	0	3	4	3	3	2	2	2	2	2	2	4	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:50883102C>T	uc010enw.2	+	9	1272	c.996C>T	c.(994-996)GAC>GAT	p.D332D	NR1H2_uc002prv.3_RNA|NR1H2_uc002prz.3_Silent_p.D287D|NR1H2_uc002psa.3_Silent_p.D234D	NM_007121	NP_009052	P55055	NR1H2_HUMAN	nuclear receptor subfamily 1, group H, member 2	331	Ligand-binding (Potential).				negative regulation of cholesterol storage|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of pinocytosis|negative regulation of transcription, DNA-dependent|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		TCTTGAAGGACTTCACCTACA	0.478													8	58					0	0	0.006214	0	0		T	50883102	T	T	50883102	2	4	130	1	0	0	0	0	0	0	0	1	10636	564	20	4		4	NR1H2	19	50883102	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1405521	50883102	8245881	527	72173											
C19orf75	284369	broad.mit.edu	37	chr19	51770751	51770751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaggaaccaggaaaacccGtagtcgccacattttctgag	12	8	10	11	2	1	2	0	2	1	0	2	4	1	4	3	2	2	1	3	2	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:51770751G>A	uc002pwb.1	+	5	916	c.535G>A	c.(535-537)GTA>ATA	p.V179I	C19orf75_uc010eov.1_RNA|C19orf75_uc010ycw.1_Missense_Mutation_p.V85I	NM_173635	NP_775906	Q8N7X8	CS075_HUMAN	hypothetical protein LOC284369	179						integral to membrane				ovary(1)|pancreas(1)	2						AGGAAAACCCGTAGTCGCCAC	0.463													35	93					0	0	0.004289	0	0		A	51770751	A	A	51770751	3	1	130	1	0	0	0	0	1	0	0	0	1952	1145	40	1	549	1	C19orf75	19	51770751	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	887649	51770751	7358232	528	72174											
ZNF808	388558	broad.mit.edu	37	chr19	53067359	53067359	+	RNA	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaagactttcaggattaagCggtttctggccaacaaccaa	14	9	8	10	1	2	1	1	0	1	1	2	2	2	2	2	3	3	1	2	3	5	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:53067359C>T	uc002pzq.2	+	4		c.3871C>T						Q8N4W9	ZN808_HUMAN	Homo sapiens zinc finger protein 808, mRNA (cDNA clone IMAGE:3542548), complete cds.						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		CAGGATTAAGCGGTTTCTGGC	0.428													9	25					0	0	0.004482	0	0		T	53067359	T	T	53067359	1	4	130	0	1	0	0	0	0	0	0	0	18198	783	27	1		1	ZNF808	19	53067359	RNA	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1296608	53067359	6061624	529	72175											
ZIM2	23619	broad.mit.edu	37	chr19	57286491	57286491	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaccttcattgcagccagaAgtcttcctaccagaatgggt	10	11	8	12	0	2	2	1	0	1	2	3	2	3	2	4	1	4	1	4	1	4	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr19:57286491A>C	uc002qnr.2	-	11	1531	c.1149T>G	c.(1147-1149)ACT>ACG	p.T383T	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Silent_p.T179T|ZIM2_uc010ygr.1_Silent_p.T179T|ZIM2_uc002qnq.2_Silent_p.T383T|ZIM2_uc010etp.2_Silent_p.T383T|ZIM2_uc010ygs.1_Silent_p.T383T	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	383					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		TGCAGCCAGAAGTCTTCCTAC	0.448													23	62					0	0	0.012319	0	0		C	57286491	C	C	57286491	2	2	130	1	0	0	0	0	0	0	0	1	17709	59	3	5		5	ZIM2	19	57286491	Silent	SNP	A	TCGA-CG-4437-01A-01D-1800-08	4219132	57286491	1842492	530	72176											
IDH3B	3420	broad.mit.edu	37	chr20	2641184	2641184	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgaactttgcaatccgcTgagacttggctcgtgtgaca	9	10	12	10	3	0	2	0	2	0	1	2	4	1	2	1	2	2	3	1	2	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr20:2641184T>G	uc002wgp.2	-	7	593	c.584A>C	c.(583-585)CAG>CCG	p.Q195P	IDH3B_uc002wgq.2_Missense_Mutation_p.Q195P|IDH3B_uc002wgr.2_Missense_Mutation_p.Q43P|IDH3B_uc010zpz.1_3'UTR	NM_006899	NP_008830	O43837	IDH3B_HUMAN	isocitrate dehydrogenase 3, beta subunit isoform	195					isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	electron carrier activity|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0					NADH(DB00157)	TGCAATCCGCTGAGACTTGGC	0.522													15	143					0	0	0.008871	0	0		G	2641184	G	G	2641184	3	3	130	1	0	0	0	0	1	0	0	0	7513	1580	55	5	682	5	IDH3B	20	2641184	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08		2641184	60384336	531	72177											
MCM8	84515	broad.mit.edu	37	chr20	5958554	5958554	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgccccacgtggcgtgtaTgtttgtggtaacaccacgac	7	11	12	11	3	0	0	0	0	0	0	0	1	0	0	3	2	2	4	3	2	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr20:5958554T>A	uc002wmi.2	+	13	1805	c.1428T>A	c.(1426-1428)TAT>TAA	p.Y476*	MCM8_uc002wmj.2_Nonsense_Mutation_p.Y460*|MCM8_uc002wmk.2_Nonsense_Mutation_p.Y516*|MCM8_uc002wml.2_Nonsense_Mutation_p.Y476*|MCM8_uc010gbp.2_Nonsense_Mutation_p.Y429*|MCM8_uc002wmm.2_Nonsense_Mutation_p.Y14*	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	476	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						GTGGCGTGTATGTTTGTGGTA	0.408													4	47					0	0	0.009096	0	0		A	5958554	A	A	5958554	4	1	130	1	0	0	0	0	0	1	0	0	9411	1471	51	5	1474	5	MCM8	20	5958554	Nonsense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	3317370	5958554	57066966	532	72178											
LRRN4	164312	broad.mit.edu	37	chr20	6022174	6022174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggtgtcttccccgctgaGgccggggcaccggcaccgcc	4	6	15	16	4	1	1	0	1	1	0	2	2	2	1	6	5	0	3	6	5	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr20:6022174G>A	uc002wmo.2	-	5	1941	c.1717C>T	c.(1717-1719)CTC>TTC	p.L573F		NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	573	Extracellular (Potential).					integral to membrane				skin(3)	3						TCCCCGCTGAGGCCGGGGCAC	0.697													12	73					0	0	0.010729	0	0		A	6022174	A	A	6022174	3	1	130	1	0	0	0	0	1	0	0	0	9055	1000	35	4	509	4	LRRN4	20	6022174	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	63620	6022174	57003346	533	72179											
PLK1S1	55857	broad.mit.edu	37	chr20	21224925	21224925	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatcaatttaaaatctaaTggtgagagagataatcggac	16	11	10	4	1	2	3	1	2	1	2	3	6	2	4	0	2	0	0	0	2	5	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr20:21224925T>A	uc002wsb.2	+	13	2056	c.1923T>A	c.(1921-1923)AAT>AAA	p.N641K	PLK1S1_uc010zsh.1_Missense_Mutation_p.N538K|PLK1S1_uc010zsi.1_Missense_Mutation_p.N508K|PLK1S1_uc010zsj.1_RNA|PLK1S1_uc002wsd.2_RNA	NM_018474	NP_060944	Q2M2Z5	KIZ_HUMAN	polo-like kinase 1 substrate 1 isoform 1	641					spindle organization	centrosome	protein kinase binding				0						TAAAATCTAATGGTGAGAGAG	0.333													10	51					0	0	0.010729	0	0		A	21224925	A	A	21224925	3	1	130	1	0	0	0	0	1	0	0	0	12114	1478	51	5	1968	5	PLK1S1	20	21224925	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	15202751	21224925	41800595	534	72180											
C20orf185	359710	broad.mit.edu	37	chr20	31652354	31652354	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacatagaactggacatcaaCgtgagtaaccagaggggcct	14	7	11	9	1	1	3	1	1	0	2	1	4	1	4	2	3	4	1	2	3	5	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr20:31652354C>T	uc002wym.1	+	7	744	c.744C>T	c.(742-744)AAC>AAT	p.N248N		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	248					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						TGGACATCAACGTGAGTAACC	0.597													5	52					0	0	0.001168	0	0		T	31652354	T	T	31652354	2	4	130	1	0	0	0	0	0	0	0	1	2100	550	19	1		1	C20orf185	20	31652354	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	10427429	31652354	31373166	535	72181											
ZNF341	84905	broad.mit.edu	37	chr20	32346586	32346586	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacaagtcattcaccaaaaaCtttgacctgcagcagcacat	15	8	6	12	0	2	1	2	1	0	0	2	2	2	1	2	0	4	3	2	0	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr20:32346586C>T	uc002wzy.2	+	7	1022	c.1002C>T	c.(1000-1002)AAC>AAT	p.N334N	ZNF341_uc002wzx.2_Silent_p.N327N|ZNF341_uc010geq.2_Silent_p.N244N|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	334	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TCACCAAAAACTTTGACCTGC	0.547													14	49					0	0	0.004007	0	0		T	32346586	T	T	32346586	2	4	130	1	0	0	0	0	0	0	0	1	17882	564	20	4		4	ZNF341	20	32346586	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	694232	32346586	30678934	536	72182											
CHD6	84181	broad.mit.edu	37	chr20	40044125	40044125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggagaggtccatagctgactCcccatgccagccattgagga	10	7	12	12	0	0	3	0	2	0	1	2	5	2	4	5	3	3	1	5	3	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr20:40044125C>T	uc002xka.1	-	34	6818	c.6640G>A	c.(6640-6642)GAG>AAG	p.E2214K	CHD6_uc002xjz.1_5'Flank	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2214					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				ATAGCTGACTCCCCATGCCAG	0.597													12	28					0	0	0.010729	0	0		T	40044125	T	T	40044125	3	4	130	1	0	0	0	0	1	0	0	0	3332	864	30	4	1523	4	CHD6	20	40044125	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	7697539	40044125	22981395	537	72183											
SEMG1	6406	broad.mit.edu	37	chr20	43837255	43837255	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggattggatattgtaattatAgagcaggaagatgacagtga	15	11	13	2	0	0	4	0	2	0	2	0	7	0	7	0	3	1	2	0	3	5	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr20:43837255A>T	uc002xni.2	+	2	1374	c.1317A>T	c.(1315-1317)ATA>ATT	p.I439I	SEMG1_uc002xnj.2_Silent_p.I379I|SEMG2_uc010ggz.2_Intron|SEMG1_uc002xnh.2_Silent_p.I379I	NM_003007	NP_002998	P04279	SEMG1_HUMAN	semenogelin I preproprotein	439	42 AA repeat 3.				insemination|sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(2)	2		Myeloproliferative disorder(115;0.0122)				TTGTAATTATAGAGCAGGAAG	0.408													16	133					0	0	0.00499	0	0		T	43837255	T	T	43837255	2	4	130	1	0	0	0	0	0	0	0	1	14069	410	15	5		5	SEMG1	20	43837255	Silent	SNP	A	TCGA-CG-4437-01A-01D-1800-08	3793130	43837255	19188265	538	72184											
SALL4	57167	broad.mit.edu	37	chr20	50408838	50408838	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacgaagccgctttactgTggcttcatcctcactcgcca	7	10	8	16	4	2	0	2	0	0	0	4	2	3	0	4	1	2	2	4	1	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr20:50408838T>C	uc002xwh.3	-	2	285	c.184A>G	c.(184-186)ACA>GCA	p.T62A	SALL4_uc010gii.2_Missense_Mutation_p.T62A|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	62					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CGCTTTACTGTGGCTTCATCC	0.502													16	89					0	0	0.004007	0	0		C	50408838	C	C	50408838	3	2	130	1	0	0	0	0	1	0	0	0	13838	1696	59	3	2989	3	SALL4	20	50408838	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	6571583	50408838	12616682	539	72185											
ZBTB46	140685	broad.mit.edu	37	chr20	62378595	62378595	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgatgcccacgctggcGgcggacatgaagacgcggct	7	6	15	13	5	0	3	0	2	0	1	0	4	0	4	2	4	2	2	2	4	1	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr20:62378595G>A	uc002ygv.1	-	5	1659	c.1458C>T	c.(1456-1458)GCC>GCT	p.A486A	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	486					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					CCACGCTGGCGGCGGACATGA	0.557													5	3					0	0	0.000602	0	0		A	62378595	A	A	62378595	2	1	130	1	0	0	0	0	0	0	0	1	17572	1103	39	1		1	ZBTB46	20	62378595	Silent	SNP	G	TCGA-CG-4437-01A-01D-1800-08	11969757	62378595	646925	540	72186											
NPBWR2	2832	broad.mit.edu	37	chr20	62737475	62737475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgcacggcccgcagcctgCgcaggaggtctgtgtagagc	6	5	16	14	4	1	1	0	0	1	1	1	2	1	2	3	3	3	4	3	3	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr20:62737475C>T	uc011abt.1	-	1	710	c.710G>A	c.(709-711)CGC>CAC	p.R237H		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	237	Cytoplasmic (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					CCGCAGCCTGCGCAGGAGGTC	0.667													10	20					0	0	0.006214	0	0		T	62737475	T	T	62737475	3	4	130	1	0	0	0	0	1	0	0	0	10588	768	27	1	294	1	NPBWR2	20	62737475	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	358880	62737475	288045	541	72187											
BAGE2	85319	broad.mit.edu	37	chr21	11097572	11097572	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgccatcttcaggctccaaCctccagctcaccacagggga	9	7	9	16	0	3	0	2	0	1	0	5	1	5	1	5	3	3	2	5	3	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr21:11097572C>A	uc002yit.1	-	2	298	c.90G>T	c.(88-90)AGG>AGT	p.R30S	BAGE_uc002yix.2_RNA	NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		caggctccaacctccagctca	0.09													6	96					1.06961e-07	1.15917e-07	0.00308	1	0		A	11097572	A	A	11097572	3	1	130	1	0	0	0	0	1	0	0	0	1293	506	18	5	251	5	BAGE2	21	11097572	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08		11097572	37032323	542	72188											
APP	351	broad.mit.edu	37	chr21	27394255	27394255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtagggttcctcagcctcttCctctacctcatcaccatcct	6	13	5	17	0	5	0	3	0	2	0	8	0	8	0	6	1	2	2	6	1	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr21:27394255C>T	uc002ylz.2	-	6	966	c.766G>A	c.(766-768)GAA>AAA	p.E256K	APP_uc010glk.2_Missense_Mutation_p.E251K|APP_uc002yma.2_Missense_Mutation_p.E256K|APP_uc011ach.1_Missense_Mutation_p.E200K|APP_uc002ymb.2_Missense_Mutation_p.E256K|APP_uc010glj.2_Missense_Mutation_p.E200K|APP_uc011aci.1_Missense_Mutation_p.E221K|APP_uc011acj.1_Missense_Mutation_p.E256K	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	256	Extracellular (Potential).|Asp/Glu-rich (acidic).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				tcagcctcttcctctacctca	0.139													5	25					0	0	0.000602	0	0		T	27394255	T	T	27394255	3	4	130	1	0	0	0	0	1	0	0	0	815	864	30	4	1598	4	APP	21	27394255	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	16296683	27394255	20735640	543	72189											
GRIK1	2897	broad.mit.edu	37	chr21	31015175	31015175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggttcataaatctgggtcCgaggcgccatggcttatgtc	8	11	12	10	2	2	0	1	0	1	0	4	1	3	0	2	4	0	2	2	4	3	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr21:31015175C>T	uc002yno.1	-	7	1533	c.1069G>A	c.(1069-1071)GGA>AGA	p.G357R	GRIK1_uc002ynn.2_Missense_Mutation_p.G357R|GRIK1_uc011acs.1_Missense_Mutation_p.G357R|GRIK1_uc011act.1_Missense_Mutation_p.G301R|GRIK1_uc010glq.1_Missense_Mutation_p.G215R|GRIK1_uc002ynr.2_Missense_Mutation_p.G357R	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	357	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	AATCTGGGTCCGAGGCGCCAT	0.572													13	41					0	0	0.003163	0	0		T	31015175	T	T	31015175	3	4	130	1	0	0	0	0	1	0	0	0	6789	661	23	1	1891	1	GRIK1	21	31015175	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3620920	31015175	17114720	544	72190											
KRTAP26-1	388818	broad.mit.edu	37	chr21	31691743	31691743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtccagagcaagatggaCgacacgtgctgaacacatgg	14	5	12	10	2	0	3	0	1	0	2	1	5	1	4	1	2	3	2	1	2	2	0	rs146155445		TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr21:31691743C>T	uc002ynw.2	-	1	865	c.611G>A	c.(610-612)CGT>CAT	p.R204H		NM_203405	NP_981950	Q6PEX3	KR261_HUMAN	keratin associated protein 26-1	204						intermediate filament				ovary(1)	1						GCAAGATGGACGACACGTGCT	0.488													45	176					0	0	0.010771	0	0		T	31691743	T	T	31691743	3	4	130	1	0	0	0	0	1	0	0	0	8559	536	19	1	25	1	KRTAP26-1	21	31691743	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	676568	31691743	16438152	545	72191											
KRTAP27-1	643812	broad.mit.edu	37	chr21	31709495	31709495	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggattcagggttctgagaCtgacactgacattggctaga	10	11	12	8	0	2	4	1	3	1	2	2	6	2	5	0	3	0	2	0	3	1	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr21:31709495C>T	uc002ynx.1	-	1	518	c.492G>A	c.(490-492)CAG>CAA	p.Q164Q		NM_001077711	NP_001071179	Q3LI81	KR271_HUMAN	keratin associated protein 27-1	164						intermediate filament				ovary(2)	2						GGTTCTGAGACTGACACTGAC	0.488													39	122					0	0	0.006999	0	0		T	31709495	T	T	31709495	2	4	130	1	0	0	0	0	0	0	0	1	8560	564	20	4		4	KRTAP27-1	21	31709495	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	17752	31709495	16420400	546	72192											
CRYZL1	9946	broad.mit.edu	37	chr21	34962174	34962174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccttgatttttctgaacaGcttccatggaaacttttgcc	8	17	6	10	0	1	2	0	2	1	0	3	3	3	3	3	1	4	1	3	1	2	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr21:34962174G>A	uc011adw.1	-	13	1184	c.1004C>T	c.(1003-1005)GCT>GTT	p.A335V	DONSON_uc002ysn.1_Intron|DONSON_uc002ysj.2_5'Flank|DONSON_uc002ysk.2_5'Flank|DONSON_uc002ysl.2_5'Flank|DONSON_uc010gme.2_5'Flank|DONSON_uc002ysm.2_5'UTR	NM_145858	NP_665857	O95825	QORL1_HUMAN	crystallin, zeta-like 1	335					quinone cofactor metabolic process	cytosol	NADP binding|NADPH:quinone reductase activity|zinc ion binding				0						TTTCTGAACAGCTTCCATGGA	0.363													14	43					0	0	0.007413	0	0		A	34962174	A	A	34962174	3	1	130	1	0	0	0	0	1	0	0	0	3926	971	34	2	49	2	CRYZL1	21	34962174	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3252679	34962174	13167721	547	72193											
DSCR3	10311	broad.mit.edu	37	chr21	38639585	38639585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttaatcttgatgtccaggGcggtccccatctccaattct	7	15	7	12	1	3	1	0	1	3	0	6	1	5	1	4	2	0	0	4	2	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr21:38639585G>A	uc002ywf.1	-	2	250	c.11C>T	c.(10-12)GCC>GTC	p.A4V	DSCR3_uc010gnm.1_RNA|DSCR3_uc010gnn.1_5'UTR|DSCR3_uc010gnl.2_Missense_Mutation_p.A4V|DSCR3_uc011aeg.1_Missense_Mutation_p.A4V|DSCR3_uc011aeh.1_Missense_Mutation_p.A4V	NM_006052	NP_006043	O14972	DSCR3_HUMAN	Down syndrome critical region protein 3	4					vacuolar transport	nucleus|retromer complex					0						GATGTCCAGGGCGGTCCCCAT	0.507													6	50					0	0	0.00308	0	0		A	38639585	A	A	38639585	3	1	130	1	0	0	0	0	1	0	0	0	4777	1203	42	2	914	2	DSCR3	21	38639585	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	3677411	38639585	9490310	548	72194											
DNMT3L	29947	broad.mit.edu	37	chr21	45680690	45680690	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acactcaccttctatatttcGctggttagccttgacttcat	8	16	5	12	1	3	1	2	1	1	0	4	1	3	1	2	1	1	2	2	1	3	7			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr21:45680690G>A	uc002zeg.1	-	3	623	c.139C>T	c.(139-141)CGA>TGA	p.R47*	DNMT3L_uc002zeh.1_Nonsense_Mutation_p.R47*	NM_175867	NP_787063	Q9UJW3	DNM3L_HUMAN	cytosine-5-methyltransferase 3-like protein	47	ADD.				DNA methylation|negative regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|spermatogenesis	cytosol	enzyme activator activity|enzyme binding|metal ion binding			skin(2)	2				Colorectal(79;0.0165)|READ - Rectum adenocarcinoma(84;0.0781)		TCTATATTTCGCTGGTTAGCC	0.323													29	55					0	0	0.003271	0	0		A	45680690	A	A	45680690	4	1	130	1	0	0	0	0	0	1	0	0	4684	1095	38	1	1064	1	DNMT3L	21	45680690	Nonsense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	7041105	45680690	2449205	549	72195											
GAB4	128954	broad.mit.edu	37	chr22	17451031	17451031	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagattttgcatggctgTgtttctcctcatgatgaatg	8	15	11	7	0	2	3	1	2	1	1	3	3	2	3	1	2	1	4	1	2	2	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:17451031T>C	uc002zlw.2	-	4	847	c.739A>G	c.(739-741)ACA>GCA	p.T247A	GAB4_uc010gqs.1_Intron	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	247										large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				TGCATGGCTGTGTTTCTCCTC	0.552													40	91					0	0	0.007835	0	0		C	17451031	C	C	17451031	3	2	130	1	0	0	0	0	1	0	0	0	6165	1696	59	3	1013	3	GAB4	22	17451031	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08		17451031	33853535	550	72196											
DGCR2	9993	broad.mit.edu	37	chr22	19028772	19028772	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgtctgggccgtaatcaaAgccagggatcctgcggccga	8	6	13	14	4	2	0	1	0	1	0	3	2	3	1	5	3	2	1	5	3	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:19028772A>T	uc002zoq.1	-	9	1443	c.1195T>A	c.(1195-1197)TTT>ATT	p.F399I	DGCR2_uc002zor.1_Missense_Mutation_p.F175I|DGCR2_uc011agr.1_Missense_Mutation_p.F355I	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	399	Cytoplasmic (Potential).				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					CCGTAATCAAAGCCAGGGATC	0.612													7	59					0	0	0.001984	0	0		T	19028772	T	T	19028772	3	4	130	1	0	0	0	0	1	0	0	0	4467	72	3	5	465	5	DGCR2	22	19028772	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	1577741	19028772	32275794	551	72197											
UFD1L	7353	broad.mit.edu	37	chr22	19442339	19442339	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttaccaagtttaaattcaTaattgggaattcctctgtaa	13	16	5	7	0	3	0	1	0	2	0	4	1	4	1	2	1	1	2	2	1	7	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:19442339T>C	uc002zpm.2	-	11	912	c.782A>G	c.(781-783)TAT>TGT	p.Y261C	UFD1L_uc002zpo.2_Missense_Mutation_p.Y261C|UFD1L_uc011agy.1_Missense_Mutation_p.Y261C|UFD1L_uc002zpp.2_Missense_Mutation_p.Y214C	NM_005659	NP_005650	Q92890	UFD1_HUMAN	ubiquitin fusion degradation 1-like isoform A	261					skeletal system development|ubiquitin-dependent protein catabolic process	cytosol|nucleus	protein binding|ubiquitin-specific protease activity				0	Colorectal(54;0.0993)					TTTAAATTCATAATTGGGAAT	0.358													6	40					0	0	0.001168	0	0		C	19442339	C	C	19442339	3	2	130	1	0	0	0	0	1	0	0	0	16961	1406	49	3	149	3	UFD1L	22	19442339	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	413567	19442339	31862227	552	72198											
SRRD	402055	broad.mit.edu	37	chr22	26887495	26887495	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatggacatatttaatgatAcctctgtccactggttccct	10	14	6	11	0	1	1	0	1	1	0	3	2	3	2	3	2	1	1	3	2	3	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:26887495A>T	uc010gve.2	+	7	884	c.877A>T	c.(877-879)ACC>TCC	p.T293S	SRRD_uc003acp.3_Missense_Mutation_p.T286S|uc003acu.1_5'Flank	NM_001013694	NP_001013716	Q9UH36	SRR1L_HUMAN	SRR1 domain containing	293					rhythmic process						0						ATTTAATGATACCTCTGTCCA	0.403													11	74					0	0	0.00245	0	0		T	26887495	T	T	26887495	3	4	130	1	0	0	0	0	1	0	0	0	15192	391	14	5	903	5	SRRD	22	26887495	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	7445156	26887495	24417071	553	72199											
PES1	23481	broad.mit.edu	37	chr22	30977396	30977396	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttgggcctgaccctcgagCtagtaggcaaagggaaggtc	9	7	15	10	1	0	1	0	1	0	0	2	3	0	2	2	4	1	4	2	4	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:30977396C>G	uc003aij.1	-	8	822	c.748_splice	c.e8-1	p.L250_splice	PES1_uc003aik.1_Splice_Site_p.L250_splice|PES1_uc003ail.1_Splice_Site_p.L233_splice|PES1_uc003aim.1_Splice_Site_p.L250_splice|PES1_uc003ain.1_Splice_Site_p.L111_splice|PES1_uc003aio.1_Splice_Site_p.L111_splice	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain						cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						GACCCTCGAGCTAGTAGGCAA	0.632													6	33					0	0	0.001168	0	0		G	30977396	G	G	30977396	5	3	130	1	0	0	0	0	0	0	1	0	11752	811	28	5	1051	5	PES1	22	30977396	Splice_Site	SNP	C	TCGA-CG-4437-01A-01D-1800-08	4089901	30977396	20327170	554	72200											
PLA2G3	50487	broad.mit.edu	37	chr22	31531724	31531724	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtcactggctccaggaCttctgctgcctgtcgggtct	4	12	13	12	1	3	1	1	1	2	0	5	2	4	2	2	4	2	2	2	4	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:31531724C>A	uc003aka.2	-	7	1644	c.1515G>T	c.(1513-1515)AAG>AAT	p.K505N		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	505					cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						GGCTCCAGGACTTCTGCTGCC	0.612													34	75					3.33393e-15	3.79913e-15	0.004878	1	0		A	31531724	A	A	31531724	3	1	130	1	0	0	0	0	1	0	0	0	12019	564	20	5	18	5	PLA2G3	22	31531724	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	554328	31531724	19772842	555	72201											
PISD	23761	broad.mit.edu	37	chr22	32058137	32058137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgctgctatacctgctccGccacggcgcgaccccgtgca	5	6	11	19	7	0	0	0	0	0	0	1	1	1	0	5	1	4	4	5	1	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:32058137G>A	uc003alm.3	-	1	65	c.58C>T	c.(58-60)CGG>TGG	p.R20W	PISD_uc003aln.3_Missense_Mutation_p.R20W	NM_014338	NP_055153	Q9UG56	PISD_HUMAN	phosphatidylserine decarboxylase	20					phospholipid biosynthetic process	mitochondrion	phosphatidylserine decarboxylase activity			central_nervous_system(2)|ovary(1)	3					Phosphatidylserine(DB00144)	TACCTGCTCCGCCACGGCGCG	0.642													24	107					0	0	0.003954	0	0		A	32058137	A	A	32058137	3	1	130	1	0	0	0	0	1	0	0	0	11965	1102	38	1		1	PISD	22	32058137	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	526413	32058137	19246429	556	72202											
YWHAH	7533	broad.mit.edu	37	chr22	32352156	32352156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaatgaacctctctccaatGaagatcgaaatctcctctct	12	12	5	12	1	3	4	0	3	3	1	8	5	4	4	3	0	1	0	3	0	5	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:32352156G>A	uc003alz.2	+	2	359	c.118G>A	c.(118-120)GAA>AAA	p.E40K	YWHAH_uc010gwl.2_5'UTR|YWHAH_uc003ama.2_5'UTR|YWHAH_uc010gwm.2_Missense_Mutation_p.E27K	NM_003405	NP_003396	Q04917	1433F_HUMAN	tyrosine 3-monooxygenase/tryptophan	40					glucocorticoid catabolic process|glucocorticoid receptor signaling pathway|intracellular protein transport|negative regulation of dendrite morphogenesis|positive regulation of transcription, DNA-dependent|regulation of synaptic plasticity	cytoplasm	enzyme binding|glucocorticoid receptor binding|insulin-like growth factor receptor binding|protein domain specific binding			central_nervous_system(1)	1						TCTCTCCAATGAAGATCGAAA	0.448													10	78					0	0	0.008291	0	0		A	32352156	A	A	32352156	3	1	130	1	0	0	0	0	1	0	0	0	17530	1291	45	4	124	4	YWHAH	22	32352156	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	294019	32352156	18952410	557	72203											
SLC5A4	6527	broad.mit.edu	37	chr22	32630885	32630885	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtgcaccagtaccacaaaGctgtaatgggcattccaaat	13	10	8	10	0	0	0	0	0	0	0	1	0	1	0	3	1	3	5	3	1	4	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:32630885G>T	uc003ami.2	-	8	862	c.860C>A	c.(859-861)GCT>GAT	p.A287D		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	287	Helical; (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						GTACCACAAAGCTGTAATGGG	0.363													37	150					2.2871e-25	2.68196e-25	0.007835	1	0		T	32630885	T	T	32630885	3	4	130	1	0	0	0	0	1	0	0	0	14692	971	34	5	1151	5	SLC5A4	22	32630885	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	278729	32630885	18673681	558	72204											
APOL5	80831	broad.mit.edu	37	chr22	36122594	36122594	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggtttggccctagcacCtgtgacagcaggaggcagtc	7	8	14	12	0	0	1	0	1	0	0	1	2	0	2	3	4	2	4	3	4	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:36122594C>G	uc003aof.2	+	3	479	c.479C>G	c.(478-480)CCT>CGT	p.P160R		NM_030642	NP_085145	Q9BWW9	APOL5_HUMAN	apolipoprotein L5	160					lipid metabolic process|lipid transport|lipoprotein metabolic process	cytoplasm|extracellular region	high-density lipoprotein particle binding|lipid binding|protein binding				0						GCCCTAGCACCTGTGACAGCA	0.542													30	80					0	0	0.010818	0	0		G	36122594	G	G	36122594	3	3	130	1	0	0	0	0	1	0	0	0	809	681	24	5	489	5	APOL5	22	36122594	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3491709	36122594	15181972	559	72205											
APOL1	8542	broad.mit.edu	37	chr22	36661728	36661728	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacgaggcattgggaaggaCatccgtgccctcagacgagc	11	5	13	12	3	1	1	1	0	0	1	2	5	2	3	2	3	2	1	2	3	1	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:36661728C>T	uc003apf.2	+	6	1014	c.846C>T	c.(844-846)GAC>GAT	p.D282D	APOL1_uc011amn.1_Silent_p.D159D|APOL1_uc003apc.2_RNA|APOL1_uc003ape.2_Silent_p.D298D|APOL1_uc011amo.1_Silent_p.D159D|APOL1_uc011amp.1_Silent_p.D282D|APOL1_uc011amq.1_Silent_p.D264D|APOL1_uc010gwx.2_Silent_p.D159D	NM_003661	NP_003652	O14791	APOL1_HUMAN	apolipoprotein L1 isoform a precursor	282					cholesterol metabolic process|cytolysis|innate immune response|killing of cells of other organism|lipid transport|lipoprotein metabolic process	high-density lipoprotein particle|very-low-density lipoprotein particle	chloride channel activity|lipid binding|protein binding			breast(2)|ovary(1)	3						TTGGGAAGGACATCCGTGCCC	0.527													12	71					0	0	0.010729	0	0		T	36661728	T	T	36661728	2	4	130	1	0	0	0	0	0	0	0	1	805	477	17	4		4	APOL1	22	36661728	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	539134	36661728	14642838	560	72206											
KCTD17	79734	broad.mit.edu	37	chr22	37458585	37458585	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgttacaagccagaggcacCcggatgtgaggccccagatc	10	6	12	13	1	0	3	0	1	0	2	1	4	0	4	4	3	2	2	4	3	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:37458585C>G	uc010gxb.2	+	9	918	c.896C>G	c.(895-897)CCC>CGC	p.P299R	KCTD17_uc011amv.1_Missense_Mutation_p.P282R|KCTD17_uc010gxc.2_3'UTR	NM_024681	NP_078957	Q8N5Z5	KCD17_HUMAN	potassium channel tetramerisation domain	306	Pro-rich.					voltage-gated potassium channel complex	identical protein binding|voltage-gated potassium channel activity				0						CCAGAGGCACCCGGATGTGAG	0.348													5	16					0	0	0.001984	0	0		G	37458585	G	G	37458585	3	3	130	1	0	0	0	0	1	0	0	0	8120	623	22	5	875	5	KCTD17	22	37458585	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	796857	37458585	13845981	561	72207											
FAM109B	150368	broad.mit.edu	37	chr22	42473397	42473397	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggggggcccagggaccccaCcgacccccagtggcactggc	6	2	16	17	1	0	0	0	0	0	0	0	2	0	1	6	6	0	1	6	6	0	0			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:42473397C>A	uc003bbz.2	+	3	287	c.100C>A	c.(100-102)CCG>ACG	p.P34T	C22orf32_uc003bca.2_5'Flank	NM_001002034	NP_001002034	Q6ICB4	SESQ2_HUMAN	hypothetical protein LOC150368	34	PH.				endosome organization|receptor recycling|retrograde transport, endosome to Golgi	clathrin-coated vesicle|early endosome|recycling endosome|trans-Golgi network	protein homodimerization activity				0						AGGGACCCCACCGACCCCCAG	0.642													15	92					1.99824e-07	2.15195e-07	0.00499	1	0		A	42473397	A	A	42473397	3	1	130	1	0	0	0	0	1	0	0	0	5406	507	18	5	102	5	FAM109B	22	42473397	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	5014812	42473397	8831169	562	72208											
EFCAB6	64800	broad.mit.edu	37	chr22	43924769	43924769	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cggaggaagtcgttgtaggaGatttttgaagacagcgtctt	10	12	14	5	3	1	3	0	1	1	2	2	6	1	5	0	3	1	2	0	3	3	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:43924769G>C	uc003bdy.1	-	32	4685	c.4470C>G	c.(4468-4470)ATC>ATG	p.I1490M	EFCAB6_uc003bdz.1_Missense_Mutation_p.I1338M|EFCAB6_uc010gzi.1_Missense_Mutation_p.I1338M	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1490	Interaction with AR.|Interaction with PARK7.|EF-hand 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CGTTGTAGGAGATTTTTGAAG	0.502													59	120					0	0	0.01441	0	0		C	43924769	C	C	43924769	3	2	130	1	0	0	0	0	1	0	0	0	4945	932	33	5	39	5	EFCAB6	22	43924769	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1451372	43924769	7379797	563	72209											
PANX2	56666	broad.mit.edu	37	chr22	50616220	50616220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaccgcgaccacatcaagtCgctcaaccggctggacttca	11	6	9	15	4	3	0	3	0	0	0	4	3	3	1	3	2	2	2	3	2	3	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chr22:50616220C>T	uc003bjn.3	+	2	1079	c.1079C>T	c.(1078-1080)TCG>TTG	p.S360L	PANX2_uc003bjp.3_Missense_Mutation_p.S226L|PANX2_uc003bjo.3_Missense_Mutation_p.S360L	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	360	Cytoplasmic (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		CACATCAAGTCGCTCAACCGG	0.627													7	29					0	0	0.001984	0	0		T	50616220	T	T	50616220	3	4	130	1	0	0	0	0	1	0	0	0	11440	893	31	1	1085	1	PANX2	22	50616220	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	6691451	50616220	688346	564	72210											
MAGEB6	158809	broad.mit.edu	37	chrX	26212099	26212099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actcttcctcatcctcttctCgcgcttgtctgggtgattgt	3	17	8	13	2	5	1	1	1	4	0	8	1	7	1	2	1	0	1	2	1	0	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:26212099C>T	uc004dbr.2	+	2	285	c.136C>T	c.(136-138)CGC>TGC	p.R46C	MAGEB6_uc010ngc.1_5'UTR	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	46	Ser-rich.							p.R46H(1)		ovary(3)	3						ATCCTCTTCTCGCGCTTGTCT	0.552													14	37					0	0	0.00245	0	0		T	26212099	T	T	26212099	3	4	130	1	0	0	0	0	1	0	0	0	9197	884	31	1	138	1	MAGEB6	23	26212099	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08		26212099	129058461	565	72211											
SYTL5	94122	broad.mit.edu	37	chrX	37961644	37961644	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgccttagtgtcctcgcAgttatctacaaacactcacc	10	12	6	13	1	2	1	1	1	1	0	4	1	3	1	3	0	3	2	3	0	4	3			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:37961644A>T	uc004ddu.2	+	11	1646	c.1112A>T	c.(1111-1113)CAG>CTG	p.Q371L	SYTL5_uc004ddv.2_Missense_Mutation_p.Q371L|SYTL5_uc004ddx.2_Missense_Mutation_p.Q371L	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	371					intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						GTGTCCTCGCAGTTATCTACA	0.403													21	21					0	0	0.00333	0	0		T	37961644	T	T	37961644	3	4	130	1	0	0	0	0	1	0	0	0	15511	188	7	5	1146	5	SYTL5	23	37961644	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	11749545	37961644	117308916	566	72212											
MAGED1	9500	broad.mit.edu	37	chrX	51640305	51640305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctttttccctcccaggCaaataagttggtcaagtact	9	15	6	11	0	1	0	1	0	0	0	4	0	4	0	3	2	1	3	3	2	4	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:51640305C>T	uc004dpm.2	+	5	1519	c.1424C>T	c.(1423-1425)GCA>GTA	p.A475V	MAGED1_uc004dpn.2_Missense_Mutation_p.A531V|MAGED1_uc004dpo.2_Missense_Mutation_p.A475V	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	475	MAGE.				apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					CCCTCCCAGGCAAATAAGTTG	0.418										Multiple Myeloma(10;0.10)			22	21					0	0	0.00333	0	0		T	51640305	T	T	51640305	3	4	130	1	0	0	0	0	1	0	0	0	9201	724	25	2	1610	2	MAGED1	23	51640305	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	13678661	51640305	103630255	567	72213											
HEPH	9843	broad.mit.edu	37	chrX	65417541	65417541	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggctcatcttaccctggCttggttgccaagccctttga	7	12	9	13	0	2	1	1	1	1	0	2	1	2	1	3	3	3	3	3	3	2	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:65417541C>A	uc011moz.1	+	10	1587	c.1527C>A	c.(1525-1527)GGC>GGA	p.G509G	HEPH_uc004dwn.2_Silent_p.G509G|HEPH_uc004dwo.2_Silent_p.G239G|HEPH_uc010nkr.2_Intron|HEPH_uc011mpa.1_Silent_p.G509G	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	506	Extracellular (Potential).|Plastocyanin-like 3.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						CTTACCCTGGCTTGGTTGCCA	0.458													19	22					8.28177e-16	9.46883e-16	0.007413	1	0		A	65417541	A	A	65417541	2	1	130	1	0	0	0	0	0	0	0	1	7070	784	28	5		5	HEPH	23	65417541	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	13777236	65417541	89853019	568	72214											
ZMYM3	9203	broad.mit.edu	37	chrX	70466474	70466474	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcccattttcctctggggTcctcactgtgttgctgttct	3	18	8	12	0	3	0	1	0	2	0	6	0	6	0	3	2	1	3	3	2	0	5			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:70466474T>A	uc004dzh.1	-	14	2470	c.2383A>T	c.(2383-2385)ACC>TCC	p.T795S	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Missense_Mutation_p.T795S|ZMYM3_uc004dzj.1_Intron	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	795					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					TCCTCTGGGGTCCTCACTGTG	0.512													20	15					0	0	0.012319	0	0		A	70466474	A	A	70466474	3	1	130	1	0	0	0	0	1	0	0	0	17726	1667	58	5	1777	5	ZMYM3	23	70466474	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	5048933	70466474	84804086	569	72215											
SLC16A2	6567	broad.mit.edu	37	chrX	73749163	73749163	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgcgatggcttcttcatcaCcatcatggcccccattgcat	7	13	7	14	1	4	0	3	0	1	0	4	1	4	0	3	2	2	2	3	2	0	4			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:73749163C>G	uc004ebt.2	+	5	1674	c.1508C>G	c.(1507-1509)ACC>AGC	p.T503S	SLC16A2_uc010nlr.1_Intron	NM_006517	NP_006508	P36021	MOT8_HUMAN	solute carrier family 16, member 2	429	Helical; (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			breast(2)|ovary(1)	3					Pyruvic acid(DB00119)	TTCTTCATCACCATCATGGCC	0.587													4	23					0	0	0.000602	0	0		G	73749163	G	G	73749163	3	3	130	1	0	0	0	0	1	0	0	0	14433	507	18	5	1526	5	SLC16A2	23	73749163	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	3282689	73749163	81521397	570	72216											
HDX	139324	broad.mit.edu	37	chrX	83576953	83576953	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatacactgaatgaggtatCatcaggctccagtgaggcat	13	9	11	8	0	2	4	2	3	0	1	3	4	3	4	1	3	1	3	1	3	3	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:83576953C>A	uc004eek.1	-	10	2126	c.2017G>T	c.(2017-2019)GAT>TAT	p.D673Y	HDX_uc011mqv.1_Missense_Mutation_p.D673Y|HDX_uc004eel.1_Missense_Mutation_p.D615Y	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	673						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						AATGAGGTATCATCAGGCTCC	0.358													8	10					1.12685e-05	1.18561e-05	0.004482	1	0		A	83576953	A	A	83576953	3	1	130	1	0	0	0	0	1	0	0	0	7042	826	29	5	59	5	HDX	23	83576953	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	9827790	83576953	71693607	571	72217											
TBC1D8B	54885	broad.mit.edu	37	chrX	106083920	106083920	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgctgttaatgacatggctActaatcctgactattatact	11	15	7	8	0	0	2	0	2	0	0	1	2	1	2	1	1	3	3	1	1	6	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:106083920A>T	uc004emo.2	+	10	1690	c.1525A>T	c.(1525-1527)ACT>TCT	p.T509S	MORC4_uc004emp.3_Intron|TBC1D8B_uc004emn.2_Missense_Mutation_p.T509S	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	509	Rab-GAP TBC.					intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						TGACATGGCTACTAATCCTGA	0.373													43	46					0	0	0.01441	0	0		T	106083920	T	T	106083920	3	4	130	1	0	0	0	0	1	0	0	0	15651	391	14	5	1563	5	TBC1D8B	23	106083920	Missense_Mutation	SNP	A	TCGA-CG-4437-01A-01D-1800-08	22506967	106083920	49186640	572	72218											
THOC2	57187	broad.mit.edu	37	chrX	122820398	122820398	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatacacgtttttctttacCtggtaaaacttgaatttgaa	13	16	5	7	1	1	2	0	2	1	0	1	2	1	2	1	1	3	2	1	1	6	8			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:122820398C>G	uc004etu.2	-	8	800	c.768G>C	c.(766-768)CAG>CAC	p.Q256H	THOC2_uc011muh.1_Missense_Mutation_p.Q177H|THOC2_uc011mui.1_Missense_Mutation_p.Q141H	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	256					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TTTTCTTTACCTGGTAAAACT	0.284													19	27					0	0	0.008871	0	0		G	122820398	G	G	122820398	3	3	130	1	0	0	0	0	1	0	0	0	15890	695	24	5	4137	5	THOC2	23	122820398	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	16736478	122820398	32450162	573	72219											
THOC2	57187	broad.mit.edu	37	chrX	122829949	122829949	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgccccaattcagcaatcaGcttggcataaccttcattct	10	13	5	13	0	4	0	3	0	1	0	4	0	4	0	3	1	4	3	3	1	3	6			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:122829949G>C	uc004etu.2	-	7	555	c.523C>G	c.(523-525)CTG>GTG	p.L175V	THOC2_uc011muh.1_Missense_Mutation_p.L96V|THOC2_uc011mui.1_Missense_Mutation_p.L60V	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	175					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TCAGCAATCAGCTTGGCATAA	0.274													23	15					0	0	0.00333	0	0		C	122829949	C	C	122829949	3	2	130	1	0	0	0	0	1	0	0	0	15890	962	34	5	4386	5	THOC2	23	122829949	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	9551	122829949	32440611	574	72220											
GPC4	2239	broad.mit.edu	37	chrX	132439865	132439865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtgatgtggtctgaagcGagcactgaaggcactttcag	9	9	16	7	1	2	3	1	3	1	0	2	4	2	3	0	4	2	2	0	4	2	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:132439865G>A	uc004exc.1	-	6	1302	c.1090C>T	c.(1090-1092)CGC>TGC	p.R364C	GPC4_uc011mvg.1_Missense_Mutation_p.R294C	NM_001448	NP_001439	O75487	GPC4_HUMAN	glypican 4 precursor	364					anatomical structure morphogenesis|cell proliferation	anchored to membrane|external side of plasma membrane|extracellular space|insoluble fraction|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	Acute lymphoblastic leukemia(192;0.000127)					GGTCTGAAGCGAGCACTGAAG	0.552													120	106					0	0	0.01441	0	0		A	132439865	A	A	132439865	3	1	130	1	0	0	0	0	1	0	0	0	6615	1058	37	1	596	1	GPC4	23	132439865	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	9609916	132439865	22830695	575	72221											
MAMLD1	10046	broad.mit.edu	37	chrX	149638353	149638353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgagaaaatcaacagcgtgCcggctgtagaccaggagctt	13	7	12	9	2	1	2	1	1	0	2	1	4	1	3	2	2	4	3	2	2	4	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:149638353C>T	uc004fee.1	+	3	584	c.508C>T	c.(508-510)CCG>TCG	p.P170S	MAMLD1_uc011mxt.1_Missense_Mutation_p.P132S|MAMLD1_uc011mxu.1_Missense_Mutation_p.P145S|MAMLD1_uc011mxv.1_Missense_Mutation_p.P145S|MAMLD1_uc011mxw.1_Missense_Mutation_p.P97S	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	170					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					CAACAGCGTGCCGGCTGTAGA	0.483													51	38					0	0	0.01441	0	0		T	149638353	T	T	149638353	3	4	130	1	0	0	0	0	1	0	0	0	9226	739	26	2	518	2	MAMLD1	23	149638353	Missense_Mutation	SNP	C	TCGA-CG-4437-01A-01D-1800-08	17198488	149638353	5632207	576	72222											
PASD1	139135	broad.mit.edu	37	chrX	150832640	150832640	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgaggtgaatccattgtaCagggcagacccagtggacct	10	8	12	11	0	0	3	0	2	0	1	1	4	1	4	4	3	1	2	4	3	2	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:150832640C>T	uc004fev.3	+	11	1223	c.891C>T	c.(889-891)TAC>TAT	p.Y297Y		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	297						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ATCCATTGTACAGGGCAGACC	0.532													13	68					0	0	0.003163	0	0		T	150832640	T	T	150832640	2	4	130	1	0	0	0	0	0	0	0	1	11490	489	17	4		4	PASD1	23	150832640	Silent	SNP	C	TCGA-CG-4437-01A-01D-1800-08	1194287	150832640	4437920	577	72223											
ATP2B3	492	broad.mit.edu	37	chrX	152818720	152818720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcattgaggaccctgtgcGgcccgaggtagccaccacct	7	6	14	14	2	0	1	0	1	0	0	0	3	0	2	5	4	2	2	5	4	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:152818720G>A	uc004fht.1	+	11	2177	c.2051G>A	c.(2050-2052)CGG>CAG	p.R684Q	ATP2B3_uc004fhs.1_Missense_Mutation_p.R684Q	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	684	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GACCCTGTGCGGCCCGAGGTA	0.632													22	16					0	0	0.010504	0	0		A	152818720	A	A	152818720	3	1	130	1	0	0	0	0	1	0	0	0	1142	1116	39	1	2093	1	ATP2B3	23	152818720	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	1986080	152818720	2451840	578	72224											
FLNA	2316	broad.mit.edu	37	chrX	153580566	153580566	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctggcactccagcttcaGctctctccaggccagggccc	6	8	9	18	0	2	0	1	0	1	0	5	0	4	0	5	3	3	3	5	3	1	2			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:153580566G>A	uc004fkk.2	-	41	7001	c.6752C>T	c.(6751-6753)GCT>GTT	p.A2251V	FLNA_uc004fki.2_Missense_Mutation_p.A294V|FLNA_uc011mzn.1_Missense_Mutation_p.A384V|FLNA_uc010nuu.1_Missense_Mutation_p.A2243V	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2251	Filamin 21.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TCCAGCTTCAGCTCTCTCCAG	0.692													10	3					0	0	0.010729	0	0		A	153580566	A	A	153580566	3	1	130	1	0	0	0	0	1	0	0	0	5947	971	34	2	1223	2	FLNA	23	153580566	Missense_Mutation	SNP	G	TCGA-CG-4437-01A-01D-1800-08	761846	153580566	1689994	579	72225											
GAB3	139716	broad.mit.edu	37	chrX	153925470	153925470	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcgagaggtttctcaggTccagaggaggtggccgtgct	7	10	16	8	2	1	3	1	1	1	2	4	5	2	4	2	5	1	2	2	5	0	1			TCGA-CG-4437-01A-01D-1800-08	TCGA-CG-4437-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	c7af611a-7351-4fe8-b3b3-fabe89a44ea6	cd37ded9-4afc-410a-b58b-e20900435be4	g.chrX:153925470T>C	uc004fmj.1	-	7	1409	c.1361A>G	c.(1360-1362)GAC>GGC	p.D454G	GAB3_uc004fmk.1_Missense_Mutation_p.D455G|GAB3_uc010nve.1_Missense_Mutation_p.D455G|GAB3_uc004fml.1_Missense_Mutation_p.D74G	NM_080612	NP_542179	Q8WWW8	GAB3_HUMAN	Gab3 protein isoform 2	454										ovary(1)	1	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GTTTCTCAGGTCCAGAGGAGG	0.507													34	30					0	0	0.007835	0	0		C	153925470	C	C	153925470	3	2	130	1	0	0	0	0	1	0	0	0	6164	1667	58	3	415	3	GAB3	23	153925470	Missense_Mutation	SNP	T	TCGA-CG-4437-01A-01D-1800-08	344904	153925470	1345090	580	72226											
KIAA1751	85452	broad.mit.edu	37	chr1	1895280	1895280	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttaccaacgtgatctttttCttgtacactttgccaatatc	9	18	4	10	1	2	1	0	1	2	0	3	1	2	1	2	0	4	1	2	0	5	8			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:1895280C>G	uc001aim.1	-	14	1758	c.1602G>C	c.(1600-1602)AAG>AAC	p.K534N	KIAA1751_uc009vkz.1_Missense_Mutation_p.K534N	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	534										pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		TGATCTTTTTCTTGTACACTT	0.547													20	68					0	0	0.007413	0	0		G	1895280	G	G	1895280	3	3	131	1	0	0	0	0	1	0	0	0	8272	912	32	5	706	5	KIAA1751	1	1895280	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08		1895280	247355341	1	72227											
LRRC47	57470	broad.mit.edu	37	chr1	3712477	3712477	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagttctcggaggcagttGtcagcagccgccagttcact	7	10	12	12	2	3	1	2	1	1	0	4	2	3	2	2	2	2	5	2	2	0	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:3712477G>A	uc001akx.1	-	1	592	c.564C>T	c.(562-564)GAC>GAT	p.D188D		NM_020710	NP_065761	Q8N1G4	LRC47_HUMAN	leucine rich repeat containing 47	188	LRR 5.				translation		phenylalanine-tRNA ligase activity|RNA binding			large_intestine(1)|ovary(1)	2	all_cancers(77;0.0375)|Ovarian(185;0.0634)|all_lung(157;0.208)|Lung NSC(156;0.21)	all_epithelial(116;1.34e-16)|all_lung(118;2.53e-06)|Lung NSC(185;0.00028)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;5.49e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.43e-22)|GBM - Glioblastoma multiforme(42;3.69e-16)|Colorectal(212;1.21e-05)|COAD - Colon adenocarcinoma(227;5.87e-05)|Kidney(185;0.000367)|BRCA - Breast invasive adenocarcinoma(365;0.000704)|KIRC - Kidney renal clear cell carcinoma(229;0.00567)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		GGAGGCAGTTGTCAGCAGCCG	0.687													8	11					0	0	0.006214	0	0		A	3712477	A	A	3712477	2	1	131	1	0	0	0	0	0	0	0	1	9022	1368	48	4		4	LRRC47	1	3712477	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08	1817197	3712477	245538144	2	72228											
RNF207	388591	broad.mit.edu	37	chr1	6270330	6270330	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggagcagctctctcactTggccaccttgctgcccaccc	7	8	8	18	0	2	0	1	0	1	0	3	1	2	1	4	2	4	3	4	2	1	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:6270330T>G	uc001amg.2	+	9	1022	c.848T>G	c.(847-849)TTG>TGG	p.L283W	RNF207_uc001amh.2_Silent_p.L171L|RNF207_uc010nzp.1_RNA	NM_207396	NP_997279	Q6ZRF8	RN207_HUMAN	ring finger protein 207	283						intracellular	zinc ion binding				0	Ovarian(185;0.0634)	all_cancers(23;1.22e-38)|all_epithelial(116;4.25e-22)|all_lung(118;7.95e-08)|Lung NSC(185;1.6e-06)|all_neural(13;3.18e-06)|all_hematologic(16;8.99e-06)|Acute lymphoblastic leukemia(12;0.000365)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00104)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)|Medulloblastoma(700;0.211)		Epithelial(90;4.84e-38)|GBM - Glioblastoma multiforme(13;5.77e-32)|OV - Ovarian serous cystadenocarcinoma(86;2.88e-19)|Colorectal(212;6.9e-08)|COAD - Colon adenocarcinoma(227;8.13e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.00311)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.182)		CTCTCTCACTTGGCCACCTTG	0.687													22	42					0	0	0.005443	0	0		G	6270330	G	G	6270330	3	3	131	1	0	0	0	0	1	0	0	0	13499	1821	63	5	878	5	RNF207	1	6270330	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	2557853	6270330	242980291	3	72229											
ASAP3	55616	broad.mit.edu	37	chr1	23763414	23763414	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccgccctcaccaacaactcgGaggggcccagcaggtccaag	10	3	11	17	2	1	0	1	0	0	0	3	1	2	1	5	4	3	1	5	4	3	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:23763414G>C	uc001bha.2	-	15	1590	c.1466C>G	c.(1465-1467)TCC>TGC	p.S489C	ASAP3_uc001bgy.1_5'Flank|ASAP3_uc001bgz.1_RNA|ASAP3_uc010odz.1_Missense_Mutation_p.S358C|ASAP3_uc010oea.1_Missense_Mutation_p.S480C|ASAP3_uc001bhb.2_Missense_Mutation_p.S12C	NM_017707	NP_060177	Q8TDY4	ASAP3_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	489	Arf-GAP.				regulation of ARF GTPase activity	cytoplasm	ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						CAACAACTCGGAGGGGCCCAG	0.672													7	14					0	0	0.004482	0	0		C	23763414	C	C	23763414	3	2	131	1	0	0	0	0	1	0	0	0	1013	1174	41	5	1289	5	ASAP3	1	23763414	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	17493084	23763414	225487207	4	72230											
SLC9A1	6548	broad.mit.edu	37	chr1	27428929	27428929	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcccatgcccccgctctcCaccagctcgatggcctgctt	4	10	8	19	2	1	0	0	0	1	0	3	1	1	0	6	1	4	3	6	1	0	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:27428929C>T	uc001bnm.2	-	8	2393	c.1767G>A	c.(1765-1767)GTG>GTA	p.V589V	SLC9A1_uc001bnl.2_Silent_p.V93V|SLC9A1_uc010ofk.1_Silent_p.V250V	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	589	Cytoplasmic (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	CCCCGCTCTCCACCAGCTCGA	0.602													38	86					0	0	0.009718	0	0		T	27428929	T	T	27428929	2	4	131	1	0	0	0	0	0	0	0	1	14734	581	21	4		4	SLC9A1	1	27428929	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	3665515	27428929	221821692	5	72231											
PUM1	9698	broad.mit.edu	37	chr1	31418206	31418206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacttacctgtcccttaaacGcatcgatgataaattgcaaa	14	11	5	11	2	0	1	0	1	0	0	2	2	1	1	2	0	3	2	2	0	6	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:31418206G>A	uc001bsi.1	-	18	3088	c.2975C>T	c.(2974-2976)GCG>GTG	p.A992V	PUM1_uc001bsf.1_Missense_Mutation_p.A660V|PUM1_uc001bsg.1_Missense_Mutation_p.A726V|PUM1_uc001bsh.1_Missense_Mutation_p.A994V|PUM1_uc001bsj.1_Missense_Mutation_p.A968V|PUM1_uc010oga.1_Missense_Mutation_p.A850V|PUM1_uc001bsk.1_Missense_Mutation_p.A1030V|PUM1_uc010ogb.1_Missense_Mutation_p.A933V|SNORD103A_uc009vts.1_Intron	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	992	PUM-HD.|Pumilio 5.				cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		TCCCTTAAACGCATCGATGAT	0.408													35	63					0	0	0.006999	0	0		A	31418206	A	A	31418206	3	1	131	1	0	0	0	0	1	0	0	0	12850	1087	38	1	605	1	PUM1	1	31418206	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	3989277	31418206	217832415	6	72232											
KIAA0754	643314	broad.mit.edu	37	chr1	39878360	39878360	+	Frame_Shift_Del	DEL	T	-	-																															ttcagattcattcctaaataTttttccagagaaacaagtta																										TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:39878360delT	uc009vvt.1	+	1	3185	c.2423delT	c.(2422-2424)ATTfs	p.I808fs	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc010oiu.1_Intron	NM_015038	NP_055853	O94854	K0754_HUMAN	hypothetical protein LOC643314	672											0	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TTCCTAAATATTTTTCCAGAG	0.463													20	30	---	---	---	---						.	-	39878360	-	-	39878360	7	5	131	1	0	1	0	1	0	0	0	0	8208	1493	52	0	2425	0	KIAA0754	1	39878360	Frame_Shift_Del	DEL	T	TCGA-CG-4438-01A-01D-1158-08	8460154	39878360	209372261	7	72233											
COL11A1	1301	broad.mit.edu	37	chr1	103470026	103470026	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggaagacctcttggtcCaatttctccatcttctccct	7	14	5	15	0	4	1	0	0	4	1	7	2	5	2	5	2	0	0	5	2	2	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:103470026C>A	uc001dul.2	-	20	2236	c.1918G>T	c.(1918-1920)GGA>TGA	p.G640*	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Nonsense_Mutation_p.G652*|COL11A1_uc001dun.2_Nonsense_Mutation_p.G601*|COL11A1_uc009weh.2_Nonsense_Mutation_p.G524*	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	640	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCTCTTGGTCCAATTTCTCCA	0.303													9	27					1.58986e-06	1.77395e-06	0.008291	1	0		A	103470026	A	A	103470026	4	1	131	1	0	0	0	0	0	1	0	0	3670	603	21	5	3694	5	COL11A1	1	103470026	Nonsense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	63591666	103470026	145780595	8	72234											
AKNAD1	254268	broad.mit.edu	37	chr1	109363183	109363183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttactttcctggtgtgggctCatgttcacctttaaaggatt	7	17	9	8	0	2	0	2	0	0	0	3	1	3	1	2	3	1	2	2	3	3	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:109363183C>T	uc001dwa.2	-	14	2502	c.2233G>A	c.(2233-2235)GAG>AAG	p.E745K	AKNAD1_uc001dwb.2_Intron	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	745										ovary(3)	3						GGTGTGGGCTCATGTTCACCT	0.318													33	55					0	0	0.015359	0	0		T	109363183	T	T	109363183	3	4	131	1	0	0	0	0	1	0	0	0	464	835	29	4	289	4	AKNAD1	1	109363183	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	5893157	109363183	139887438	9	72235											
KCNA3	3738	broad.mit.edu	37	chr1	111216728	111216728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcacggacacgatggcgatgCcccgggccggcccggagctc	6	3	16	16	6	0	0	0	0	0	0	1	4	0	2	4	5	2	2	4	5	0	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:111216728C>T	uc001dzv.1	-	1	928	c.704G>A	c.(703-705)GGC>GAC	p.G235D		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	235	Helical; Name=Segment S1; (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		GATGGCGATGCCCCGGGCCGG	0.682													14	32					0	0	0.020292	0	0		T	111216728	T	T	111216728	3	4	131	1	0	0	0	0	1	0	0	0	8020	739	26	2	1027	2	KCNA3	1	111216728	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	1853545	111216728	138033893	10	72236											
NBPF9	400818	broad.mit.edu	37	chr1	144828697	144828697	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggaacagcacatcagcttCgccctttacgtggacaatag	12	8	10	11	2	1	0	1	0	0	0	2	3	1	2	1	2	4	2	1	2	4	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:144828697C>T	uc009wig.1	+	23	2818	c.2742C>T	c.(2740-2742)TTC>TTT	p.F914F	NBPF9_uc010oxn.1_Silent_p.F812F|NBPF9_uc010oxo.1_Silent_p.F839F|NBPF9_uc010oxr.1_Silent_p.F941F|NBPF9_uc010oxt.1_Silent_p.F729F|NBPF9_uc001ekg.1_Silent_p.F241F|NBPF9_uc001ekk.1_Silent_p.F485F|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Silent_p.F241F|NBPF9_uc010oye.1_Intron|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Silent_p.F574F|uc001elr.3_5'Flank	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	914	NBPF 7.					cytoplasm					0						ACATCAGCTTCGCCCTTTACG	0.428													50	311					0	0	0.01441	0	0		T	144828697	T	T	144828697	2	4	131	1	0	0	0	0	0	0	0	1	10218	883	31	1		1	NBPF9	1	144828697	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	33611969	144828697	104421924	11	72237											
UBE2Q1	55585	broad.mit.edu	37	chr1	154528413	154528413	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcagactccaccgaccAgatggggggcacagcagggt	10	5	14	12	1	2	2	2	0	0	2	3	3	3	2	3	4	1	2	3	4	0	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:154528413A>T	uc001fff.1	-	2	446	c.355T>A	c.(355-357)TGG>AGG	p.W119R		NM_017582	NP_060052	Q7Z7E8	UB2Q1_HUMAN	ubiquitin-conjugating enzyme E2Q	119							ATP binding|protein binding|ubiquitin-protein ligase activity				0	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			TCCACCGACCAGATGGGGGGC	0.527													18	114					0	0	0.008871	0	0		T	154528413	T	T	154528413	3	4	131	1	0	0	0	0	1	0	0	0	16895	188	7	5	961	5	UBE2Q1	1	154528413	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	9699716	154528413	94722208	12	72238											
KIAA0907	22889	broad.mit.edu	37	chr1	155899127	155899127	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcagttgtcatgaaccTccctcgagttgatactgcag	8	13	8	12	1	2	2	2	2	0	0	5	3	4	2	3	0	3	3	3	0	2	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:155899127T>C	uc001fmi.1	-	4	448	c.424A>G	c.(424-426)AGG>GGG	p.R142G	KIAA0907_uc001fmj.1_Missense_Mutation_p.R142G|KIAA0907_uc009wrk.1_Missense_Mutation_p.R142G|KIAA0907_uc009wrl.1_RNA|KIAA0907_uc001fml.1_Missense_Mutation_p.R142G|KIAA0907_uc001fmm.2_Missense_Mutation_p.R142G|KIAA0907_uc001fmo.2_Missense_Mutation_p.R142G	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	142											0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			GTCATGAACCTCCCTCGAGTT	0.433													7	102					0	0	0.004482	0	0		C	155899127	C	C	155899127	3	2	131	1	0	0	0	0	1	0	0	0	8215	1550	54	3	1464	3	KIAA0907	1	155899127	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	1370714	155899127	93351494	13	72239											
NTRK1	4914	broad.mit.edu	37	chr1	156837949	156837949	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccctgcgctggctacagcGctgggaggaggagggactgg	6	6	19	10	2	0	0	0	0	0	0	0	4	0	4	1	6	4	3	1	6	1	1	rs150271893	byFrequency	TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:156837949G>C	uc001fqh.1	+	5	538	c.482G>C	c.(481-483)CGC>CCC	p.R161P	NTRK1_uc001fqf.1_Missense_Mutation_p.R131P|NTRK1_uc009wsi.1_5'UTR|NTRK1_uc001fqi.1_Missense_Mutation_p.R161P|NTRK1_uc009wsk.1_Missense_Mutation_p.R161P	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	161	LRRCT.|Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	TGGCTACAGCGCTGGGAGGAG	0.647			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			18	92					0	0	0.01892	0	0		C	156837949	C	C	156837949	3	2	131	1	0	0	0	0	1	0	0	0	10725	1087	38	5	630	5	NTRK1	1	156837949	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	938822	156837949	92412672	14	72240											
FMO3	2328	broad.mit.edu	37	chr1	171086533	171086533	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttccattggctgaagcTctttgcaattcctattctgt	6	19	6	10	0	2	1	0	1	2	0	4	1	4	1	2	1	2	3	2	1	3	7			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:171086533T>G	uc001ghi.2	+	9	1661	c.1550T>G	c.(1549-1551)CTC>CGC	p.L517R	FMO3_uc001ghh.2_Missense_Mutation_p.L517R|FMO3_uc010pmb.1_Missense_Mutation_p.L497R|FMO3_uc010pmc.1_Missense_Mutation_p.L454R	NM_001002294	NP_001002294	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	517					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TGGCTGAAGCTCTTTGCAATT	0.453													44	53					0	0	0.010771	0	0		G	171086533	G	G	171086533	3	3	131	1	0	0	0	0	1	0	0	0	5970	1551	54	5	1580	5	FMO3	1	171086533	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	14248584	171086533	78164088	15	72241											
HMCN1	83872	broad.mit.edu	37	chr1	186023018	186023018	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatctgggggcaggcaattAcaaatttcaattgctgaaaa	14	12	9	6	0	2	1	1	1	1	0	2	1	2	1	0	3	2	3	0	3	7	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:186023018A>C	uc001grq.1	+	44	6991	c.6762A>C	c.(6760-6762)TTA>TTC	p.L2254F		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2254	Ig-like C2-type 20.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GCAGGCAATTACAAATTTCAA	0.428													52	42					0	0	0.01441	0	0		C	186023018	C	C	186023018	3	2	131	1	0	0	0	0	1	0	0	0	7236	388	14	5	6936	5	HMCN1	1	186023018	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	14936485	186023018	63227603	16	72242											
PIK3C2B	5287	broad.mit.edu	37	chr1	204429459	204429459	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccacactcacctgctgaTggtctgcttgacaggcctct	6	11	9	15	0	3	2	1	2	2	0	3	2	3	2	3	2	3	2	3	2	0	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:204429459T>G	uc001haw.2	-	8	1974	c.1495A>C	c.(1495-1497)ATC>CTC	p.I499L	PIK3C2B_uc010pqv.1_Missense_Mutation_p.I499L|PIK3C2B_uc001hax.1_Missense_Mutation_p.I499L|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	499					cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			CACCTGCTGATGGTCTGCTTG	0.522													37	48					0	0	0.017118	0	0		G	204429459	G	G	204429459	3	3	131	1	0	0	0	0	1	0	0	0	11929	1464	51	5	3517	5	PIK3C2B	1	204429459	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	18406441	204429459	44821162	17	72243											
DUSP10	11221	broad.mit.edu	37	chr1	221879717	221879717	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtagcaagctcgaggccgcGgatgcgccgccccccacctc	6	4	13	18	5	0	0	0	0	0	0	2	2	0	1	6	3	3	3	6	3	2	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:221879717G>A	uc001hmy.1	-	3	1085	c.903C>T	c.(901-903)TCC>TCT	p.S301S	DUSP10_uc001hmx.1_5'UTR|DUSP10_uc001hmz.1_5'UTR	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	301					inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		TCGAGGCCGCGGATGCGCCGC	0.587													58	53					0	0	0.01441	0	0		A	221879717	A	A	221879717	2	1	131	1	0	0	0	0	0	0	0	1	4816	1103	39	1		1	DUSP10	1	221879717	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08	17450258	221879717	27370904	18	72244											
DISP1	84976	broad.mit.edu	37	chr1	223116388	223116388	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttagacaaccaaagaatgCctcagatgttaccccaatgc	14	9	6	12	0	1	3	1	0	0	3	1	3	1	3	4	0	4	1	4	0	6	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:223116388C>G	uc001hnu.1	+	2	370	c.223C>G	c.(223-225)CCT>GCT	p.P75A		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	75					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		CCAAAGAATGCCTCAGATGTT	0.498													8	156					0	0	0.004482	0	0		G	223116388	G	G	223116388	3	3	131	1	0	0	0	0	1	0	0	0	4545	739	26	5	225	5	DISP1	1	223116388	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	1236671	223116388	26134233	19	72245											
C1orf55	163859	broad.mit.edu	37	chr1	226175632	226175632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctttcctgcagtttggcaaCggcaacgttttccctttctt	5	16	8	12	2	1	0	0	0	1	0	3	0	3	0	2	2	3	6	2	2	2	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:226175632C>T	uc001hpu.3	-	6	1152	c.1099G>A	c.(1099-1101)GTT>ATT	p.V367I	C1orf55_uc001hpv.2_Missense_Mutation_p.V367I	NM_152608	NP_689821	Q6IQ49	CA055_HUMAN	hypothetical protein LOC163859	367										lung(1)	1	Breast(184;0.197)					AGTTTGGCAACGGCAACGTTT	0.458													13	147					0	0	0.003163	0	0		T	226175632	T	T	226175632	3	4	131	1	0	0	0	0	1	0	0	0	2050	536	19	1	264	1	C1orf55	1	226175632	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	3059244	226175632	23074989	20	72246											
OR2T6	254879	broad.mit.edu	37	chr1	248551027	248551027	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcttcttcatggccatgAtagctaatggggtcatgatc	8	13	10	10	1	4	2	2	2	2	0	5	2	4	2	2	3	1	1	2	3	2	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr1:248551027A>G	uc001iei.1	+	1	118	c.118A>G	c.(118-120)ATA>GTA	p.I40V		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CATGGCCATGATAGCTAATGG	0.468													20	99					0	0	0.007413	0	0		G	248551027	G	G	248551027	3	3	131	1	0	0	0	0	1	0	0	0	11048	333	12	3	120	3	OR2T6	1	248551027	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	22375395	248551027	699594	21	72247											
GEN1	348654	broad.mit.edu	37	chr2	17952527	17952527	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgctagtcactaaaaaactgGctcattgttccgtatgttcc	10	14	7	10	1	2	0	2	0	0	0	4	0	4	0	2	1	2	5	2	1	5	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr2:17952527G>C	uc002rct.2	+	7	848	c.775G>C	c.(775-777)GCT>CCT	p.A259P	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Missense_Mutation_p.A259P|GEN1_uc002rcu.2_Missense_Mutation_p.A259P	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease	259					DNA repair	nucleus	DNA binding|endonuclease activity|metal ion binding			breast(5)|kidney(1)|central_nervous_system(1)|skin(1)	8	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TAAAAAACTGGCTCATTGTTC	0.338								Homologous_recombination					13	73					0	0	0.003163	0	0		C	17952527	C	C	17952527	3	2	131	1	0	0	0	0	1	0	0	0	6350	1203	42	5	797	5	GEN1	2	17952527	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08		17952527	225246846	22	72248											
PLB1	151056	broad.mit.edu	37	chr2	28814580	28814580	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccttagggtcatgggacctGgctgccatgcagggacagag	8	7	15	11	0	1	1	1	0	0	1	1	3	1	3	3	4	2	2	3	4	1	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr2:28814580G>T	uc002rmb.1	+	31	2141	c.2141G>T	c.(2140-2142)TGG>TTG	p.W714L	PLB1_uc010ezj.1_Missense_Mutation_p.W703L|PLB1_uc002rmc.2_Missense_Mutation_p.W402L|PLB1_uc002rmd.1_Missense_Mutation_p.W224L	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	714	4 X 308-326 AA approximate repeats.|Extracellular (Potential).|3.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					CATGGGACCTGGCTGCCATGC	0.463													15	87					3.32936e-07	3.73452e-07	0.006122	1	0		T	28814580	T	T	28814580	3	4	131	1	0	0	0	0	1	0	0	0	12043	1357	47	5	2296	5	PLB1	2	28814580	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	10862053	28814580	214384793	23	72249											
SLC3A1	6519	broad.mit.edu	37	chr2	44547601	44547601	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttaagtaccaattctgcCgacaaaggcagtaaagttga	15	9	10	7	1	1	1	0	1	1	0	1	2	1	1	2	2	2	5	2	2	6	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr2:44547601C>T	uc002ruc.3	+	10	1959	c.1881C>T	c.(1879-1881)GCC>GCT	p.A627A	PREPL_uc002ruf.2_3'UTR|PREPL_uc002rug.2_3'UTR|PREPL_uc002ruh.2_3'UTR|PREPL_uc010fax.2_3'UTR|PREPL_uc002rui.3_3'UTR|PREPL_uc002ruj.1_3'UTR|PREPL_uc002ruk.1_3'UTR|SLC3A1_uc002rud.3_Silent_p.A349A|SLC3A1_uc002rue.3_Silent_p.A247A	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	627	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	CCAATTCTGCCGACAAAGGCA	0.408													67	42					0	0	0.01441	0	0		T	44547601	T	T	44547601	2	4	131	1	0	0	0	0	0	0	0	1	14651	639	23	1		1	SLC3A1	2	44547601	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	15733021	44547601	198651772	24	72250											
XIRP2	129446	broad.mit.edu	37	chr2	168102961	168102961	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaagatgaaaaaggagatAttaacatgactatctattgt	18	11	9	3	0	1	4	0	2	1	2	1	6	1	5	0	2	1	0	0	2	7	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr2:168102961A>G	uc002udx.2	+	8	5077	c.5059A>G	c.(5059-5061)ATT>GTT	p.I1687V	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.I1512V|XIRP2_uc010fpq.2_Missense_Mutation_p.I1465V|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1512					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAAAGGAGATATTAACATGAC	0.343													3	86					0	0	0.004672	0	0		G	168102961	G	G	168102961	3	3	131	1	0	0	0	0	1	0	0	0	17456	449	16	3	5089	3	XIRP2	2	168102961	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	123555360	168102961	75096412	25	72251											
NOSTRIN	115677	broad.mit.edu	37	chr2	169721415	169721415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgaatgggaaaaaaggcCattttcctgccgcttatgtg	10	13	10	8	1	0	1	0	1	0	0	1	2	1	2	3	2	1	1	3	2	5	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr2:169721415C>T	uc002ueg.2	+	16	1460	c.1456C>T	c.(1456-1458)CAT>TAT	p.H486Y	NOSTRIN_uc002uef.2_Missense_Mutation_p.H543Y|NOSTRIN_uc002uei.2_Missense_Mutation_p.H369Y|NOSTRIN_uc010fpu.2_Missense_Mutation_p.H458Y|NOSTRIN_uc002ueh.2_Missense_Mutation_p.H408Y|NOSTRIN_uc002uej.2_Missense_Mutation_p.H369Y|NOSTRIN_uc002uek.2_Missense_Mutation_p.H170Y	NM_001039724	NP_001034813	Q8IVI9	NOSTN_HUMAN	nitric oxide synthase trafficker isoform 2	486	SH3.				endocytosis|nitric oxide metabolic process|regulation of nitric-oxide synthase activity	cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	protein binding				0						GAAAAAAGGCCATTTTCCTGC	0.418													59	54					0	0	0.01441	0	0		T	169721415	T	T	169721415	3	4	131	1	0	0	0	0	1	0	0	0	10565	594	21	4	1693	4	NOSTRIN	2	169721415	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	1618454	169721415	73477958	26	72252											
ZNF142	7701	broad.mit.edu	37	chr2	219509370	219509370	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagggctctgaatctggtggGggtgttgggccctgcatggc	4	10	19	8	0	2	1	0	1	2	0	2	2	2	1	1	6	1	3	1	6	1	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr2:219509370G>C	uc002vin.2	-	8	2305	c.1869C>G	c.(1867-1869)CCC>CCG	p.P623P	ZNF142_uc002vil.2_Silent_p.P584P|ZNF142_uc010fvt.2_Silent_p.P460P|ZNF142_uc002vim.2_Silent_p.P460P	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	623					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		AATCTGGTGGGGGTGTTGGGC	0.637													8	51					0	0	0.008291	0	0		C	219509370	C	C	219509370	2	2	131	1	0	0	0	0	0	0	0	1	17756	1219	43	5		5	ZNF142	2	219509370	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08	49787955	219509370	23690003	27	72253											
SP140	11262	broad.mit.edu	37	chr2	231103004	231103004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcagtgaactggagaagaCatttggctggtcacatctgg	11	10	12	8	0	3	3	2	1	1	2	3	4	3	3	0	4	1	1	0	4	2	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr2:231103004C>T	uc002vql.2	+	3	429	c.314C>T	c.(313-315)ACA>ATA	p.T105I	SP140_uc010zma.1_RNA|SP140_uc002vqj.2_Missense_Mutation_p.T105I|SP140_uc002vqk.2_Missense_Mutation_p.T105I|SP140_uc002vqn.2_Missense_Mutation_p.T105I|SP140_uc002vqm.2_Missense_Mutation_p.T105I|SP140_uc010fxl.2_Missense_Mutation_p.T105I	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	105	HSR.				defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CTGGAGAAGACATTTGGCTGG	0.383													15	136					0	0	0.004007	0	0		T	231103004	T	T	231103004	3	4	131	1	0	0	0	0	1	0	0	0	14987	478	17	4	324	4	SP140	2	231103004	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	11593634	231103004	12096369	28	72254											
MTERFD2	130916	broad.mit.edu	37	chr2	242035736	242035736	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccttcttatcaggggtttGgtaccgtcccaggcgctcca	5	11	10	15	2	2	0	1	0	1	0	4	0	4	0	5	4	1	3	5	4	2	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr2:242035736G>T	uc002wan.1	-	3	1403	c.910C>A	c.(910-912)CAA>AAA	p.Q304K	MTERFD2_uc010zoj.1_Missense_Mutation_p.Q87K	NM_182501	NP_872307	Q7Z6M4	MTER2_HUMAN	MTERF domain containing 2	275										ovary(1)	1		all_cancers(19;4.67e-31)|all_epithelial(40;8.67e-13)|Breast(86;0.000141)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;2.47e-32)|all cancers(36;1.79e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-14)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;2.81e-06)|Lung(119;0.000509)|LUSC - Lung squamous cell carcinoma(224;0.00442)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0886)		TCAGGGGTTTGGTACCGTCCC	0.473													123	106					1.43771e-72	1.72201e-72	0.01441	1	0		T	242035736	T	T	242035736	3	4	131	1	0	0	0	0	1	0	0	0	9938	1357	47	5	326	5	MTERFD2	2	242035736	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	10932732	242035736	1163637	29	72255											
PBRM1	55193	broad.mit.edu	37	chr3	52621493	52621493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtggaatgtttcatttggtCggtaaaaccaacagccatac	12	11	10	8	1	1	0	1	0	0	0	2	1	1	1	2	4	4	2	2	4	5	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr3:52621493C>T	uc003des.2	-	19	3011	c.2999G>A	c.(2998-3000)CGA>CAA	p.R1000Q	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.R1000Q|PBRM1_uc003der.2_Missense_Mutation_p.R968Q|PBRM1_uc003det.2_Missense_Mutation_p.R1015Q|PBRM1_uc003deu.2_Missense_Mutation_p.R1015Q|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.R1000Q|PBRM1_uc010hmk.1_Intron|PBRM1_uc003dey.2_Intron|PBRM1_uc003dez.1_Missense_Mutation_p.R999Q|PBRM1_uc003dfb.1_Missense_Mutation_p.R912Q|PBRM1_uc003dfa.1_Missense_Mutation_p.R346Q	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	1000	BAH 1.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TTCATTTGGTCGGTAAAACCA	0.368			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								19	39					0	0	0.007413	0	0		T	52621493	T	T	52621493	3	4	131	1	0	0	0	0	1	0	0	0	11510	884	31	1	1949	1	PBRM1	3	52621493	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08		52621493	145400937	30	72256											
ERC2	26059	broad.mit.edu	37	chr3	56468565	56468565	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaggtcattctctctctgCagttctttcagctgggcctg	5	14	11	11	0	5	0	2	0	3	0	7	1	5	1	1	3	2	3	1	3	0	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr3:56468565C>A	uc003dhr.1	-	2	727	c.471G>T	c.(469-471)CTG>CTT	p.L157L		NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	157	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		TCTCTCTCTGCAGTTCTTTCA	0.488													59	193					4.88506e-25	5.78565e-25	0.01441	1	0		A	56468565	A	A	56468565	2	1	131	1	0	0	0	0	0	0	0	1	5219	697	25	5		5	ERC2	3	56468565	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	3847072	56468565	141553865	31	72257											
TLR1	7096	broad.mit.edu	37	chr4	38798807	38798807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acttataagaatcaggccagCcctctaacacttcacttgat	13	11	5	12	0	3	2	2	1	1	1	3	2	3	2	2	1	2	0	2	1	4	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr4:38798807C>T	uc003gtl.2	-	4	1920	c.1646G>A	c.(1645-1647)GGC>GAC	p.G549D		NM_003263	NP_003254	Q15399	TLR1_HUMAN	toll-like receptor 1 precursor	549	Extracellular (Potential).|LRRCT.				cellular response to triacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|inflammatory response|innate immune response|macrophage activation|positive regulation of interleukin-6 biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	integral to plasma membrane|phagocytic vesicle membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	protein heterodimerization activity|transmembrane receptor activity			lung(2)|skin(2)|prostate(1)	5						ATCAGGCCAGCCCTCTAACAC	0.408													88	259					0	0	0.01441	0	0		T	38798807	T	T	38798807	3	4	131	1	0	0	0	0	1	0	0	0	15974	739	26	2	718	2	TLR1	4	38798807	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08		38798807	152355469	32	72258											
KIAA1109	84162	broad.mit.edu	37	chr4	123167363	123167363	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcagtctacaataggaacGactaaccaaggacaagcaca	18	4	9	10	1	1	0	0	0	1	0	1	4	1	2	1	2	5	2	1	2	7	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr4:123167363G>A	uc003ieh.2	+	31	5139	c.5094G>A	c.(5092-5094)ACG>ACA	p.T1698T	KIAA1109_uc003iek.2_Silent_p.T317T	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1698					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CAATAGGAACGACTAACCAAG	0.328													23	57					0	0	0.004656	0	0		A	123167363	A	A	123167363	2	1	131	1	0	0	0	0	0	0	0	1	8224	1045	37	1		1	KIAA1109	4	123167363	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08	84368556	123167363	67986913	33	72259											
FAT4	79633	broad.mit.edu	37	chr4	126370353	126370353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactggtgaaattagaagcGttagacctttggacagggaa	13	10	12	6	1	0	3	0	1	0	2	0	5	0	5	1	3	2	1	1	3	6	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr4:126370353G>A	uc003ifj.3	+	9	8182	c.8182G>A	c.(8182-8184)GTT>ATT	p.V2728I	FAT4_uc011cgp.1_Missense_Mutation_p.V1026I|FAT4_uc003ifi.1_Missense_Mutation_p.V206I	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2728	Cadherin 26.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AATTAGAAGCGTTAGACCTTT	0.383													91	31					0	0	0.01441	0	0		A	126370353	A	A	126370353	3	1	131	1	0	0	0	0	1	0	0	0	5706	1145	40	1	8216	1	FAT4	4	126370353	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	3202990	126370353	64783923	34	72260											
TRIM2	23321	broad.mit.edu	37	chr4	154216639	154216639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacttccccttgcacccgCgggagaacgaccagctggat	9	6	12	14	3	0	1	0	0	0	1	1	5	1	3	4	3	3	2	4	3	1	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr4:154216639C>T	uc003ing.2	+	6	1081	c.880C>T	c.(880-882)CGG>TGG	p.R294W	TRIM2_uc003inh.2_Missense_Mutation_p.R321W	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	294						cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		CTTGCACCCGCGGGAGAACGA	0.592													18	15					0	0	0.007413	0	0		T	154216639	T	T	154216639	3	4	131	1	0	0	0	0	1	0	0	0	16520	759	27	1	983	1	TRIM2	4	154216639	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	27846286	154216639	36937637	35	72261											
ADAMTS16	170690	broad.mit.edu	37	chr5	5232503	5232503	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccggggaggacagtgtgTgaaatatggtgatgaaggcc	10	8	18	5	1	0	3	0	3	0	0	0	5	0	5	2	5	1	0	2	5	3	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr5:5232503T>G	uc003jdl.2	+	12	1862	c.1724T>G	c.(1723-1725)GTG>GGG	p.V575G	ADAMTS16_uc003jdk.1_Missense_Mutation_p.V575G|ADAMTS16_uc010itk.1_5'Flank	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	575	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GGACAGTGTGTGAAATATGGT	0.507													62	74					0	0	0.01441	0	0		G	5232503	G	G	5232503	3	3	131	1	0	0	0	0	1	0	0	0	261	1696	59	5	1770	5	ADAMTS16	5	5232503	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08		5232503	175682757	36	72262											
C6	729	broad.mit.edu	37	chr5	41160429	41160429	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttgttccgttttgtcactGcacaggggatgtttcttacc	5	16	11	9	1	2	0	1	0	1	0	3	1	3	1	2	3	2	5	2	3	1	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr5:41160429G>T	uc003jmk.2	-	11	1709	c.1499C>A	c.(1498-1500)GCA>GAA	p.A500E	C6_uc003jml.1_Missense_Mutation_p.A500E	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	500	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TTTTGTCACTGCACAGGGGAT	0.512													5	125					0.00116845	0.00127686	0.001168	1	0		T	41160429	T	T	41160429	3	4	131	1	0	0	0	0	1	0	0	0	2318	1319	46	5	1337	5	C6	5	41160429	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	35927926	41160429	139754831	37	72263											
SGTB	54557	broad.mit.edu	37	chr5	64967780	64967780	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcagttaggcccccaacTccagcagcaggtcccccaat	10	6	9	16	0	1	0	1	0	0	0	3	0	3	0	5	3	3	3	5	3	3	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr5:64967780T>G	uc003jud.2	-	10	985	c.765A>C	c.(763-765)GGA>GGC	p.G255G		NM_019072	NP_061945	Q96EQ0	SGTB_HUMAN	small glutamine-rich tetratricopeptide repeat	255							binding				0		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Ovarian(174;0.0545)|Breast(144;0.174)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0657)|Lung(70;0.00487)		GGCCCCCAACTCCAGCAGCAG	0.388													4	44					0	0	0.009096	0	0		G	64967780	G	G	64967780	2	3	131	1	0	0	0	0	0	0	0	1	14251	1538	54	5		5	SGTB	5	64967780	Silent	SNP	T	TCGA-CG-4438-01A-01D-1158-08	23807351	64967780	115947480	38	72264											
HEXB	3074	broad.mit.edu	37	chr5	73992920	73992920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atctgccagttaagattattCttaaaactctggtaagtaat	14	15	6	6	0	3	1	0	0	3	1	3	1	3	1	1	1	2	3	1	1	6	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr5:73992920C>T	uc003kdf.3	+	5	775	c.658C>T	c.(658-660)CTT>TTT	p.L220F	HEXB_uc003kdd.2_5'UTR|HEXB_uc003kde.2_Missense_Mutation_p.L220F|HEXB_uc010izh.2_RNA	NM_000521	NP_000512	P07686	HEXB_HUMAN	hexosaminidase B preproprotein	220					cell death	lysosome	cation binding|protein heterodimerization activity|protein homodimerization activity			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.72e-57)		TAAGATTATTCTTAAAACTCT	0.323													34	22					0	0	0.021022	0	0		T	73992920	T	T	73992920	3	4	131	1	0	0	0	0	1	0	0	0	7090	913	32	4	676	4	HEXB	5	73992920	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	9025140	73992920	106922340	39	72265											
OTP	23440	broad.mit.edu	37	chr5	76932669	76932669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcgggactcggtcagccCgatacgcagtgccagctcct	7	7	11	16	4	1	0	1	0	0	0	4	2	2	1	3	2	4	2	3	2	1	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr5:76932669C>T	uc003kfg.2	-	2	572	c.424G>A	c.(424-426)GGG>AGG	p.G142R		NM_032109	NP_115485	Q5XKR4	OTP_HUMAN	orthopedia homeobox	142	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.000601)|Ovarian(174;0.0105)|Prostate(461;0.214)		OV - Ovarian serous cystadenocarcinoma(54;9.04e-51)|Epithelial(54;1.62e-45)|all cancers(79;4.4e-41)		TCGGTCAGCCCGATACGCAGT	0.617													64	39					0	0	0.01441	0	0		T	76932669	T	T	76932669	3	4	131	1	0	0	0	0	1	0	0	0	11329	652	23	1	561	1	OTP	5	76932669	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	2939749	76932669	103982591	40	72266											
SLC4A9	83697	broad.mit.edu	37	chr5	139745844	139745844	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctcatggtacccagagagTtcaaggtgagagccagggaa	13	6	14	8	0	2	2	2	1	0	2	2	5	2	3	2	3	3	3	2	3	3	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr5:139745844T>C	uc003lfm.2	+	14	2115	c.2080T>C	c.(2080-2082)TTC>CTC	p.F694L	SLC4A9_uc003lfj.2_Missense_Mutation_p.F670L|SLC4A9_uc011czg.1_Missense_Mutation_p.F607L|SLC4A9_uc003lfl.2_Missense_Mutation_p.F670L|SLC4A9_uc003lfk.2_Missense_Mutation_p.F656L	NM_031467	NP_113655	Q96Q91	B3A4_HUMAN	solute carrier family 4, sodium bicarbonate	694	Cytoplasmic (Potential).|Membrane (anion exchange).					integral to membrane|plasma membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCCAGAGAGTTCAAGGTGAG	0.547													2	1					0	0	0.004672	0	0		C	139745844	C	C	139745844	3	2	131	1	0	0	0	0	1	0	0	0	14685	1725	60	3	2062	3	SLC4A9	5	139745844	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	62813175	139745844	41169416	41	72267											
BMP6	654	broad.mit.edu	37	chr6	7862613	7862613	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccttcatggtggctttCttcaaagtgagtgaggtgca	8	12	12	9	0	3	2	2	2	1	0	3	2	3	2	1	3	2	2	1	3	1	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:7862613C>A	uc003mxu.3	+	4	1264	c.1086C>A	c.(1084-1086)TTC>TTA	p.F362L		NM_001718	NP_001709	P22004	BMP6_HUMAN	bone morphogenetic protein 6 preproprotein	362					BMP signaling pathway|cartilage development|growth|immune response|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	BMP receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity			large_intestine(2)|ovary(1)	3	Ovarian(93;0.0721)					TGGTGGCTTTCTTCAAAGTGA	0.607													36	104					2.05212e-20	2.40359e-20	0.005524	1	0		A	7862613	A	A	7862613	3	1	131	1	0	0	0	0	1	0	0	0	1465	912	32	5	1100	5	BMP6	6	7862613	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08		7862613	163252454	42	72268											
GABBR1	2550	broad.mit.edu	37	chr6	29598366	29598366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgggaggtccccacccGtcaggaaaaccttcccattt	9	8	10	14	1	1	0	1	0	0	0	3	3	3	2	5	3	2	1	5	3	2	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:29598366G>A	uc003nmt.3	-	4	680	c.344C>T	c.(343-345)ACG>ATG	p.T115M	GABBR1_uc003nmp.3_5'Flank|GABBR1_uc003nms.3_5'Flank|GABBR1_uc003nmu.3_Intron|GABBR1_uc011dlr.1_Translation_Start_Site|GABBR1_uc011dls.1_Missense_Mutation_p.T115M	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	115	Extracellular (Potential).|Sushi 2.				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity	p.T115M(1)		ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	GTCCCCACCCGTCAGGAAAAC	0.562													31	68					0	0	0.013726	0	0		A	29598366	A	A	29598366	3	1	131	1	0	0	0	0	1	0	0	0	6169	1145	40	1	2766	1	GABBR1	6	29598366	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	21735753	29598366	141516701	43	72269											
HLA-A	3105	broad.mit.edu	37	chr6	29912352	29912352	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccttggagctgtgatcactgGagctgtggtcgctgccgtga	5	11	15	10	2	1	2	1	2	0	0	2	4	1	4	2	3	3	3	2	3	0	1	rs45461999		TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:29912352G>C	uc003nol.2	+	5	971	c.971G>C	c.(970-972)GGA>GCA	p.G324A	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_5'Flank|HLA-A_uc010jrq.2_Missense_Mutation_p.G203A|HLA-A_uc003nok.2_Missense_Mutation_p.G203A|HLA-A_uc003non.2_Missense_Mutation_p.G324A|HLA-A_uc003noo.2_Missense_Mutation_p.G324A|HLA-A_uc010jrr.2_Intron|HLA-A_uc003nom.2_Missense_Mutation_p.G203A|HLA-A_uc010klp.2_Intron|HLA-A_uc011dmc.1_Missense_Mutation_p.G203A|HLA-A_uc011dmd.1_Missense_Mutation_p.G203A	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A	324	Helical; (Potential).				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2						GTGATCACTGGAGCTGTGGTC	0.587									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of|Osteosarcoma_Familial_Clustering_of|Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of	Multiple Myeloma(9;0.094)			10	111					0	0	0.020292	0	0		C	29912352	C	C	29912352	3	2	131	1	0	0	0	0	1	0	0	0	7211	1174	41	5	989	5	HLA-A	6	29912352	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	313986	29912352	141202715	44	72270											
HLA-DMB	3109	broad.mit.edu	37	chr6	32906580	32906580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgctgtgagaggacattcGccaagctattcagcacccca	10	8	11	12	1	1	1	1	1	0	1	2	3	1	2	3	2	3	3	3	2	2	3	rs12176347		TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:32906580G>A	uc003ocl.1	-	2	451	c.218C>T	c.(217-219)GCG>GTG	p.A73V	HLA-DMB_uc003ocj.1_Missense_Mutation_p.A73V|HLA-DMB_uc003ock.1_5'Flank|HLA-DMB_uc010jud.1_5'Flank|HLA-DMB_uc010jue.1_5'Flank|HLA-DMB_uc010juf.1_5'Flank|HLA-DMB_uc011dql.1_Missense_Mutation_p.A73V	NM_002118	NP_002109	P28068	DMB_HUMAN	major histocompatibility complex, class II, DM	73	Beta-1.|Lumenal (Potential).				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0						GAGGACATTCGCCAAGCTATT	0.527													32	111					0	0	0.012213	0	0		A	32906580	A	A	32906580	3	1	131	1	0	0	0	0	1	0	0	0	7215	1087	38	1	593	1	HLA-DMB	6	32906580	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	2994228	32906580	138208487	45	72271											
PRPH2	5961	broad.mit.edu	37	chr6	42672253	42672253	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtgctgagttgttggtgatCtgatactggatgcagggccg	6	13	16	6	1	1	3	0	3	1	0	1	4	1	4	1	3	3	4	1	3	1	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:42672253C>G	uc003osk.2	-	2	964	c.678G>C	c.(676-678)CAG>CAC	p.Q226H		NM_000322	NP_000313	P23942	PRPH2_HUMAN	peripherin 2	226	Lumenal (Potential).				cell adhesion|visual perception	integral to membrane				ovary(4)|central_nervous_system(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.00178)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0904)			TGTTGGTGATCTGATACTGGA	0.582													5	37					0	0	0.014758	0	0		G	42672253	G	G	42672253	3	3	131	1	0	0	0	0	1	0	0	0	12599	912	32	5	370	5	PRPH2	6	42672253	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	9765673	42672253	128442814	46	72272											
PKHD1	5314	broad.mit.edu	37	chr6	51619630	51619630	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcctcacatggtggccctTgacttctttcacagtgagga	8	12	10	11	0	3	2	2	2	1	0	4	4	4	3	2	3	0	0	2	3	0	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:51619630T>C	uc003pah.1	-	56	9025	c.8749A>G	c.(8749-8751)AAG>GAG	p.K2917E	PKHD1_uc010jzn.1_Missense_Mutation_p.K900E|PKHD1_uc003pai.2_Missense_Mutation_p.K2917E	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2917	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TGGTGGCCCTTGACTTCTTTC	0.473													29	112					0	0	0.007291	0	0		C	51619630	C	C	51619630	3	2	131	1	0	0	0	0	1	0	0	0	11990	1821	63	3	3562	3	PKHD1	6	51619630	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	8947377	51619630	119495437	47	72273											
COL19A1	1310	broad.mit.edu	37	chr6	70669903	70669903	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttagggtgaaaatggtttaCatggtgctccaggattccct	9	14	11	7	0	0	1	0	1	0	0	2	2	2	2	2	4	2	2	2	4	4	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:70669903C>A	uc003pfc.1	+	10	1069	c.952C>A	c.(952-954)CAT>AAT	p.H318N	COL19A1_uc010kam.1_Missense_Mutation_p.H214N	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	318	Triple-helical region 1 (COL1).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						AAATGGTTTACATGGTGCTCC	0.308													15	66					4.7546e-09	5.39025e-09	0.004007	1	0		A	70669903	A	A	70669903	3	1	131	1	0	0	0	0	1	0	0	0	3679	478	17	5	986	5	COL19A1	6	70669903	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	19050273	70669903	100445164	48	72274											
MDN1	23195	broad.mit.edu	37	chr6	90425374	90425374	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtaagagatacaaatacctGaaattgggatttggtgttat	14	14	10	3	0	0	2	0	1	0	1	0	4	0	3	1	2	2	2	1	2	6	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:90425374G>A	uc003pnn.1	-	45	6974	c.6858C>T	c.(6856-6858)TTC>TTT	p.F2286F		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2286					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		ACAAATACCTGAAATTGGGAT	0.403													22	150					0	0	0.004656	0	0		A	90425374	A	A	90425374	2	1	131	1	0	0	0	0	0	0	0	1	9433	1281	45	4		4	MDN1	6	90425374	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08	19755471	90425374	80689693	49	72275											
EPHA7	2045	broad.mit.edu	37	chr6	93969191	93969191	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaggttttggtgcctggaAatttaactgtaatgatgtaa	11	16	11	3	0	0	1	0	1	0	0	0	2	0	2	1	3	2	4	1	3	5	7			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:93969191A>T	uc003poe.2	-	10	2046	c.1805T>A	c.(1804-1806)TTT>TAT	p.F602Y	EPHA7_uc003pof.2_Missense_Mutation_p.F597Y|EPHA7_uc011eac.1_Intron	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	602	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		GGTGCCTGGAAATTTAACTGT	0.423													77	136					0	0	0.01441	0	0		T	93969191	T	T	93969191	3	4	131	1	0	0	0	0	1	0	0	0	5180	14	1	5	1223	5	EPHA7	6	93969191	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	3543817	93969191	77145876	50	72276											
LAMA2	3908	broad.mit.edu	37	chr6	129663595	129663595	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagcaatgtgcctgccctctGatttcttccagtaacaagta	10	12	7	12	0	2	1	0	1	2	0	3	1	3	1	3	0	4	3	3	0	4	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:129663595G>A	uc003qbn.2	+	30	4524	c.4419G>A	c.(4417-4419)CTG>CTA	p.L1473L	LAMA2_uc003qbo.2_Silent_p.L1473L	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1473	Laminin EGF-like 16.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		CCTGCCCTCTGATTTCTTCCA	0.418													76	111					0	0	0.01441	0	0		A	129663595	A	A	129663595	2	1	131	1	0	0	0	0	0	0	0	1	8622	1277	45	4		4	LAMA2	6	129663595	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08	35694404	129663595	41451472	51	72277											
SYNE1	23345	broad.mit.edu	37	chr6	152765653	152765653	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaattaattcttcgagagAatttttgactatttctttgt	12	19	6	4	1	2	3	0	1	2	2	3	5	2	3	0	0	0	0	0	0	4	8			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:152765653A>T	uc010kiw.2	-	30	4332	c.3730T>A	c.(3730-3732)TCT>ACT	p.S1244T	SYNE1_uc003qot.3_Missense_Mutation_p.S1251T|SYNE1_uc003qou.3_Missense_Mutation_p.S1244T|SYNE1_uc010kjb.1_Missense_Mutation_p.S1227T|SYNE1_uc003qow.2_Missense_Mutation_p.S539T|SYNE1_uc003qox.1_Missense_Mutation_p.S760T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1244	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCTTCGAGAGAATTTTTGACT	0.343										HNSCC(10;0.0054)			19	86					0	0	0.007413	0	0		T	152765653	T	T	152765653	3	4	131	1	0	0	0	0	1	0	0	0	15470	246	9	5	23204	5	SYNE1	6	152765653	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	23102058	152765653	18349414	52	72278											
SYNE1	23345	broad.mit.edu	37	chr6	152841662	152841662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggattcgcttcatccggcGtccttgttcacaaggctgta	7	13	10	11	3	2	0	2	0	0	0	5	1	4	1	2	3	0	4	2	3	2	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:152841662G>A	uc010kiw.2	-	6	843	c.241C>T	c.(241-243)CGC>TGC	p.R81C	SYNE1_uc003qot.3_Missense_Mutation_p.R81C|SYNE1_uc003qou.3_Missense_Mutation_p.R81C|SYNE1_uc010kjb.1_Missense_Mutation_p.R81C|SYNE1_uc003qpa.1_Missense_Mutation_p.R81C	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	81	Actin-binding.|Cytoplasmic (Potential).|CH 1.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTCATCCGGCGTCCTTGTTCA	0.388										HNSCC(10;0.0054)			38	226					0	0	0.009718	0	0		A	152841662	A	A	152841662	3	1	131	1	0	0	0	0	1	0	0	0	15470	1145	40	1	26814	1	SYNE1	6	152841662	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	76009	152841662	18273405	53	72279											
IPCEF1	26034	broad.mit.edu	37	chr6	154520945	154520945	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgttttccagggccttgTggatgcctgcctctgagggt	5	13	13	10	0	1	1	0	1	1	0	2	2	2	2	4	3	3	1	4	3	1	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:154520945T>C	uc003qpx.2	-	10	920	c.764A>G	c.(763-765)CAC>CGC	p.H255R	OPRM1_uc003qpt.1_Intron|IPCEF1_uc003qpv.2_Missense_Mutation_p.H126R|IPCEF1_uc003qpw.2_Missense_Mutation_p.H256R|IPCEF1_uc010kjh.2_Missense_Mutation_p.H256R	NM_015553	NP_056368	Q8WWN9	ICEF1_HUMAN	phosphoinositide-binding protein PIP3-E isoform	255	Ser-rich.				response to oxidative stress	cytoplasm|plasma membrane	oxygen transporter activity|peroxidase activity				0						CAGGGCCTTGTGGATGCCTGC	0.428													105	198					0	0	0.01441	0	0		C	154520945	C	C	154520945	3	2	131	1	0	0	0	0	1	0	0	0	7807	1696	59	3	561	3	IPCEF1	6	154520945	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	1679283	154520945	16594122	54	72280											
TIAM2	26230	broad.mit.edu	37	chr6	155458677	155458677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaagcccctggtcactGtgcagaaggaaaggaagctt	11	9	11	10	0	3	1	2	0	1	1	3	3	3	3	2	3	3	2	2	3	4	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:155458677G>A	uc003qqb.2	+	7	2834	c.1561G>A	c.(1561-1563)GTG>ATG	p.V521M	TIAM2_uc003qqe.2_Missense_Mutation_p.V521M|TIAM2_uc010kjj.2_Missense_Mutation_p.V54M	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	521	PH 1.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CCTGGTCACTGTGCAGAAGGA	0.562													45	68					0	0	0.01441	0	0		A	155458677	A	A	155458677	3	1	131	1	0	0	0	0	1	0	0	0	15916	1377	48	4	1567	4	TIAM2	6	155458677	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	937732	155458677	15656390	55	72281											
LPA	4018	broad.mit.edu	37	chr6	160952872	160952872	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccaagaagtgactccttgTaaaatgtatttgtccttctc	10	14	6	11	0	1	2	0	1	1	1	4	2	3	2	4	0	0	2	4	0	5	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:160952872T>G	uc003qtl.2	-	40	6132	c.6012A>C	c.(6010-6012)TTA>TTC	p.L2004F		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4512	Peptidase S1.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	TGACTCCTTGTAAAATGTATT	0.468													3	121					0	0	0.001984	0	0		G	160952872	G	G	160952872	3	3	131	1	0	0	0	0	1	0	0	0	8921	1635	57	5	114	5	LPA	6	160952872	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	5494195	160952872	10162195	56	72282											
PLG	5340	broad.mit.edu	37	chr6	161173982	161173982	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaaggacaaatacattttAcaaggagtcacttcttgggg	14	10	11	6	0	2	1	1	0	1	1	2	4	2	3	0	4	2	0	0	4	5	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr6:161173982A>C	uc003qtm.3	+	19	2385	c.2322A>C	c.(2320-2322)TTA>TTC	p.L774F		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	774	Peptidase S1.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	AATACATTTTACAAGGAGTCA	0.478													16	72					0	0	0.016522	0	0		C	161173982	C	C	161173982	3	2	131	1	0	0	0	0	1	0	0	0	12105	388	14	5	2400	5	PLG	6	161173982	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	221110	161173982	9941085	57	72283											
SDK1	221935	broad.mit.edu	37	chr7	4304904	4304904	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggcggtggcgggctccgAggcgggcgcgcagctgcacc	4	3	20	14	7	0	0	0	0	0	0	1	2	1	0	2	6	2	4	2	6	0	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr7:4304904A>T	uc003smx.2	+	45	6669	c.6530A>T	c.(6529-6531)GAG>GTG	p.E2177V	SDK1_uc010kso.2_Missense_Mutation_p.E1433V|SDK1_uc003smy.2_Intron|SDK1_uc003smz.2_Missense_Mutation_p.E237V	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	2177	Extracellular (Potential).|Cytoplasmic (Potential).				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GCGGGCTCCGAGGCGGGCGCG	0.721													3	18					0	0	0.004672	0	0		T	4304904	T	T	4304904	3	4	131	1	0	0	0	0	1	0	0	0	13993	304	11	5	6708	5	SDK1	7	4304904	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08		4304904	154833759	58	72284											
HECW1	23072	broad.mit.edu	37	chr7	43547663	43547663	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggagggaaccttcaatcagGtgatggcctattcgcggaaa	11	9	13	8	2	2	1	2	1	0	0	3	4	2	4	2	5	1	0	2	5	4	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr7:43547663G>C	uc003tid.1	+	23	4404	c.3799G>C	c.(3799-3801)GTG>CTG	p.V1267L	HECW1_uc011kbi.1_Missense_Mutation_p.V1233L	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1267					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CTTCAATCAGGTGATGGCCTA	0.532													8	64					0	0	0.010729	0	0		C	43547663	C	C	43547663	3	2	131	1	0	0	0	0	1	0	0	0	7058	1261	44	5	3881	5	HECW1	7	43547663	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	39242759	43547663	115591000	59	72285											
ADCY1	107	broad.mit.edu	37	chr7	45743282	45743282	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttctacatcgagctggaCggcaacaacatgggggtgga	11	7	14	9	2	1	0	0	0	1	0	2	4	1	2	0	5	4	2	0	5	3	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr7:45743282C>T	uc003tne.3	+	16	2673	c.2655C>T	c.(2653-2655)GAC>GAT	p.D885D		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	885	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TCGAGCTGGACGGCAACAACA	0.562													27	86					0	0	0.00623	0	0		T	45743282	T	T	45743282	2	4	131	1	0	0	0	0	0	0	0	1	292	535	19	1		1	ADCY1	7	45743282	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	2195619	45743282	113395381	60	72286											
PKD1L1	168507	broad.mit.edu	37	chr7	47947794	47947794	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataataaggcccaagctccaCttcggttccatgaaactcgt	12	10	7	12	2	0	1	0	1	0	0	4	1	2	1	3	2	2	2	3	2	4	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr7:47947794C>G	uc003tny.1	-	9	1282	c.1282G>C	c.(1282-1284)GTG>CTG	p.V428L		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	428	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CCAAGCTCCACTTCGGTTCCA	0.418													24	32					0	0	0.004656	0	0		G	47947794	G	G	47947794	3	3	131	1	0	0	0	0	1	0	0	0	11983	565	20	5	7463	5	PKD1L1	7	47947794	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	2204512	47947794	111190869	61	72287											
CASD1	64921	broad.mit.edu	37	chr7	94181701	94181701	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcagttgtaaaaacaaagcaGagtgcaatgaactccatccg	16	7	9	9	1	0	2	0	1	0	1	2	2	2	2	2	0	4	5	2	0	6	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr7:94181701G>C	uc003uni.3	+	16	2223	c.1996G>C	c.(1996-1998)GAG>CAG	p.E666Q	CASD1_uc003unj.3_Missense_Mutation_p.E666Q	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	666						integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			AAACAAAGCAGAGTGCAATGA	0.328													18	91					0	0	0.008871	0	0		C	94181701	C	C	94181701	3	2	131	1	0	0	0	0	1	0	0	0	2667	943	33	5	2058	5	CASD1	7	94181701	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	46233907	94181701	64956962	62	72288											
SLC26A3	1811	broad.mit.edu	37	chr7	107434890	107434890	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctttttatgattttccTcaaaagcatttgtagaatac	11	18	5	7	0	2	2	1	1	1	1	3	2	3	2	1	0	2	2	1	0	6	8			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr7:107434890T>A	uc003ver.2	-	2	276	c.65A>T	c.(64-66)GAG>GTG	p.E22V	SLC26A3_uc003ves.2_Missense_Mutation_p.R4W	NM_000111	NP_000102	P40879	S26A3_HUMAN	solute carrier family 26, member 3	22					excretion	integral to membrane|membrane fraction	inorganic anion exchanger activity|secondary active sulfate transmembrane transporter activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(3)|skin(1)	4						ATGATTTTCCTCAAAAGCATT	0.363													36	73					0	0	0.019004	0	0		A	107434890	A	A	107434890	3	1	131	1	0	0	0	0	1	0	0	0	14543	1551	54	5	2309	5	SLC26A3	7	107434890	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	13253189	107434890	51703773	63	72289											
PPP1R3A	5506	broad.mit.edu	37	chr7	113558764	113558764	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctgtgtggaaaatgtcCgtccctaagtcaaaagtggt	10	13	10	8	1	3	0	1	0	2	0	5	1	5	1	2	2	0	0	2	2	5	2	rs111896635	byFrequency	TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr7:113558764C>T	uc010ljy.1	-	1	319	c.288G>A	c.(286-288)ACG>ACA	p.T96T		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	96					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						GGAAAATGTCCGTCCCTAAGT	0.383													31	87					0	0	0.012213	0	0		T	113558764	T	T	113558764	2	4	131	1	0	0	0	0	0	0	0	1	12393	639	23	1		1	PPP1R3A	7	113558764	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	6123874	113558764	45579899	64	72290											
MET	4233	broad.mit.edu	37	chr7	116435940	116435940	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgtctttctttttggaacaGatatgaagtaatgctaaaat	14	16	7	4	0	2	2	0	1	2	1	2	3	2	3	0	1	2	2	0	1	6	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr7:116435940G>C	uc003vij.2	+	21	4123	c.3936_splice	c.e21-1	p.L1312_splice	MET_uc010lkh.2_Splice_Site_p.L1330_splice|MET_uc011knj.1_Splice_Site_p.L882_splice	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor						axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			TTTTGGAACAGATATGAAGTA	0.423			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				10	924					0	0	0.008291	0	0		C	116435940	C	C	116435940	5	2	131	1	0	0	0	0	0	0	1	0	9503	956	33	5	4067	5	MET	7	116435940	Splice_Site	SNP	G	TCGA-CG-4438-01A-01D-1158-08	2877176	116435940	42702723	65	72291											
DGKI	9162	broad.mit.edu	37	chr7	137092659	137092659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcacaatctccccgttgccgGttttagctgcgtagtgaagg	7	12	11	11	3	2	1	1	1	1	0	3	1	2	1	3	2	3	4	3	2	4	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr7:137092659G>A	uc003vtt.2	-	31	2907	c.2906C>T	c.(2905-2907)ACC>ATC	p.T969I	DGKI_uc003vtu.2_Missense_Mutation_p.T638I	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	969	ANK 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						CCCGTTGCCGGTTTTAGCTGC	0.433													5	103					0	0	0.001984	0	0		A	137092659	A	A	137092659	3	1	131	1	0	0	0	0	1	0	0	0	4477	1261	44	4	307	4	DGKI	7	137092659	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	20656719	137092659	22046004	66	72292											
EFHA2	286097	broad.mit.edu	37	chr8	16973996	16973996	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctactggactcaaatttTcaccacatttagtgaacact	13	13	5	10	0	2	1	2	1	0	0	2	2	2	2	1	1	3	1	1	1	5	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr8:16973996T>C	uc003wxd.2	+	13	1453	c.1411T>C	c.(1411-1413)TCA>CCA	p.S471P		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	471	EF-hand 3.					integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		ACTCAAATTTTCACCACATTT	0.284													27	14					0	0	0.007291	0	0		C	16973996	C	C	16973996	3	2	131	1	0	0	0	0	1	0	0	0	4950	1783	62	3	1461	3	EFHA2	8	16973996	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08		16973996	129390026	67	72293											
PREX2	80243	broad.mit.edu	37	chr8	69050688	69050688	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagaagatacactggttgcActatttgatttggaaaaggt	13	14	10	4	0	0	3	0	1	0	2	0	4	0	4	0	3	2	2	0	3	6	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr8:69050688A>C	uc003xxv.1	+	33	4050	c.4023A>C	c.(4021-4023)GCA>GCC	p.A1341A		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1341					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CACTGGTTGCACTATTTGATT	0.259													21	110					0	0	0.00632	0	0		C	69050688	C	C	69050688	2	2	131	1	0	0	0	0	0	0	0	1	12499	146	6	5		5	PREX2	8	69050688	Silent	SNP	A	TCGA-CG-4438-01A-01D-1158-08	52076692	69050688	77313334	68	72294											
PSKH2	85481	broad.mit.edu	37	chr8	87060893	87060893	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagccatggtgatcaccCagggatggtccagggcctgg	7	7	15	12	0	1	1	1	1	0	0	2	2	2	2	4	5	2	1	4	5	0	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr8:87060893C>G	uc011lfy.1	-	3	956	c.956G>C	c.(955-957)TGG>TCG	p.W319S		NM_033126	NP_149117	Q96QS6	KPSH2_HUMAN	protein serine kinase H2	319	Protein kinase.						ATP binding|protein serine/threonine kinase activity			stomach(2)|lung(2)|ovary(1)	5			STAD - Stomach adenocarcinoma(118;0.129)			GGTGATCACCCAGGGATGGTC	0.552													7	212					0	0	0.001984	0	0		G	87060893	G	G	87060893	3	3	131	1	0	0	0	0	1	0	0	0	12687	595	21	5	203	5	PSKH2	8	87060893	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	18010205	87060893	59303129	69	72295											
PKHD1L1	93035	broad.mit.edu	37	chr8	110478930	110478930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcttcagtcagctttcaccGtttagcgttcaaccagcctt	7	14	7	13	2	4	0	4	0	0	0	4	0	4	0	3	0	5	4	3	0	2	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr8:110478930G>A	uc003yne.2	+	50	8641	c.8537G>A	c.(8536-8538)CGT>CAT	p.R2846H		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2846	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			AGCTTTCACCGTTTAGCGTTC	0.438										HNSCC(38;0.096)			13	44					0	0	0.00499	0	0		A	110478930	A	A	110478930	3	1	131	1	0	0	0	0	1	0	0	0	11991	1145	40	1	8735	1	PKHD1L1	8	110478930	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	23418037	110478930	35885092	70	72296											
TOPORS	10210	broad.mit.edu	37	chr9	32541411	32541411	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	catatcacagtctctaccaaGacatactgacattaatgatg	15	11	5	10	0	2	3	1	2	1	1	3	3	2	3	1	0	2	0	1	0	5	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr9:32541411G>C	uc003zrb.2	-	3	3279	c.3112C>G	c.(3112-3114)CTT>GTT	p.L1038V	TOPORS_uc003zrc.2_Missense_Mutation_p.L971V	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	1038					DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		TCTCTACCAAGACATACTGAC	0.393													6	48					0	0	0.004482	0	0		C	32541411	C	C	32541411	3	2	131	1	0	0	0	0	1	0	0	0	16396	942	33	5	29	5	TOPORS	9	32541411	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08		32541411	108672020	71	72297											
FAM75C1	441452	broad.mit.edu	37	chr9	90535880	90535880	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accccaattccggcccacacCtatggctcaggccgaggctc	8	6	9	18	2	1	0	1	0	0	0	3	1	2	0	6	4	0	2	6	4	2	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr9:90535880C>A	uc010mqi.2	+	4	1087	c.1058C>A	c.(1057-1059)CCT>CAT	p.P353H	FAM75C1_uc004apq.3_Missense_Mutation_p.P336H	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						CGGCCCACACCTATGGCTCAG	0.562													204	139					4.89683e-108	5.89845e-108	0.01441	1	0		A	90535880	A	A	90535880	3	1	131	1	0	0	0	0	1	0	0	0	5637	681	24	5	1072	5	FAM75C1	9	90535880	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	57994469	90535880	50677551	72	72298											
ZNF462	58499	broad.mit.edu	37	chr9	109689843	109689843	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tcattatcagaagaagcaccGagacttcaaggccaatgcag	15	7	9	10	1	3	3	3	0	0	3	3	4	3	3	2	1	2	2	2	1	5	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr9:109689843G>C	uc004bcz.2	+	3	3939	c.3650G>C	c.(3649-3651)CGA>CCA	p.R1217P	ZNF462_uc010mto.2_Missense_Mutation_p.R1065P|ZNF462_uc004bda.2_Missense_Mutation_p.R1065P	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1217					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						AAGAAGCACCGAGACTTCAAG	0.527													103	316					0	0	0.01441	0	0		C	109689843	C	C	109689843	3	2	131	1	0	0	0	0	1	0	0	0	17951	1058	37	5	3656	5	ZNF462	9	109689843	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	19153963	109689843	31523588	73	72299											
PBX3	5090	broad.mit.edu	37	chr9	128725303	128725303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctaggtggataccctcCgtcatgttatcaatcagacg	10	12	8	11	2	4	1	3	0	1	1	5	2	5	2	2	2	1	1	2	2	4	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr9:128725303C>T	uc004bqb.2	+	8	1251	c.1135C>T	c.(1135-1137)CGT>TGT	p.R379C	PBX3_uc004bqc.2_Missense_Mutation_p.R198C|PBX3_uc004bqd.2_Missense_Mutation_p.P160L|PBX3_uc011lzw.1_Missense_Mutation_p.R304C|PBX3_uc011lzx.1_Missense_Mutation_p.P252L|PBX3_uc004bqe.2_Missense_Mutation_p.R287C	NM_006195	NP_006186	P40426	PBX3_HUMAN	pre-B-cell leukemia homeobox 3 isoform 1	379					anterior compartment pattern formation|posterior compartment specification		sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						GGATACCCTCCGTCATGTTAT	0.398													8	39					0	0	0.006214	0	0		T	128725303	T	T	128725303	3	4	131	1	0	0	0	0	1	0	0	0	11513	652	23	1	1165	1	PBX3	9	128725303	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	19035460	128725303	12488128	74	72300											
WDR34	89891	broad.mit.edu	37	chr9	131396198	131396198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agacagggctttcatcctggGtttgcttgatcaaaactgtg	9	13	11	8	0	2	2	2	1	0	1	3	2	3	2	1	2	2	3	1	2	2	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr9:131396198G>A	uc004bvq.1	-	9	1560	c.1436C>T	c.(1435-1437)ACC>ATC	p.T479I	WDR34_uc004bvs.1_Missense_Mutation_p.T470I|WDR34_uc004bvr.1_Missense_Mutation_p.T451I	NM_052844	NP_443076	Q96EX3	WDR34_HUMAN	WD repeat domain 34	479						cytoplasm				central_nervous_system(2)|skin(1)	3						TTCATCCTGGGTTTGCTTGAT	0.527													58	43					0	0	0.01441	0	0		A	131396198	A	A	131396198	3	1	131	1	0	0	0	0	1	0	0	0	17314	1261	44	4	178	4	WDR34	9	131396198	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	2670895	131396198	9817233	75	72301											
NDST2	8509	broad.mit.edu	37	chr10	75563058	75563058	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggggtctgggaggaggcTgaaatcacctgatagaaggt	12	7	17	5	0	2	4	1	2	1	2	2	6	2	6	1	6	0	1	1	6	3	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr10:75563058T>C	uc001jvk.2	-	12	3006	c.2202A>G	c.(2200-2202)TCA>TCG	p.S734S	NDST2_uc010qks.1_Silent_p.S360S|NDST2_uc010qkt.1_Silent_p.S611S|NDST2_uc001jvl.1_Silent_p.S141S|NDST2_uc009xro.2_Silent_p.S360S|NDST2_uc010qku.1_Silent_p.S609S	NM_003635	NP_003626	P52849	NDST2_HUMAN	heparan glucosaminyl	734	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 2.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			ovary(1)	1	Prostate(51;0.0112)					GGGAGGAGGCTGAAATCACCT	0.527													12	179					0	0	0.020292	0	0		C	75563058	C	C	75563058	2	2	131	1	0	0	0	0	0	0	0	1	10275	1567	55	3		3	NDST2	10	75563058	Silent	SNP	T	TCGA-CG-4438-01A-01D-1158-08		75563058	59971689	76	72302											
FAM190B	54462	broad.mit.edu	37	chr10	86177563	86177563	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgaatcatgtgaccttgagGatgatgatcttatgcttgat	10	16	10	5	0	2	6	1	6	1	0	2	7	2	7	1	1	1	1	1	1	2	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr10:86177563G>T	uc001kdh.1	+	4	1845	c.1651G>T	c.(1651-1653)GAT>TAT	p.D551Y	FAM190B_uc010qmd.1_Missense_Mutation_p.D551Y|FAM190B_uc001kdi.1_5'UTR	NM_018999	NP_061872	Q9H7U1	F190B_HUMAN	granule cell antiserum positive 14	551										ovary(3)|skin(1)	4						TGACCTTGAGGATGATGATCT	0.348													45	59					9.22156e-22	1.08609e-21	0.01441	1	0		T	86177563	T	T	86177563	3	4	131	1	0	0	0	0	1	0	0	0	5533	1174	41	5	1661	5	FAM190B	10	86177563	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	10614505	86177563	49357184	77	72303											
PDLIM1	9124	broad.mit.edu	37	chr10	97023620	97023620	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggactcctgggctacttaCggtctgctgttcgcctccac	5	11	11	14	2	1	0	0	0	1	0	4	2	3	1	3	3	3	3	3	3	2	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr10:97023620C>T	uc001kkh.2	-	4	642	c.533_splice	c.e4+1	p.P178_splice	PDLIM1_uc001kki.2_Splice_Site_p.P178_splice|PDLIM1_uc009xuv.2_Splice_Site_p.P178_splice|PDLIM1_uc001kkj.1_Splice_Site_p.P178_splice	NM_020992	NP_066272	O00151	PDLI1_HUMAN	PDZ and LIM domain 1						response to oxidative stress	cytoplasm|cytoskeleton	zinc ion binding				0		Colorectal(252;0.083)		Epithelial(162;1.64e-06)|all cancers(201;3.71e-05)		GGGCTACTTACGGTCTGCTGT	0.582													17	24					0	0	0.010504	0	0		T	97023620	T	T	97023620	5	4	131	1	0	0	0	0	0	0	1	0	11698	550	19	1	471	1	PDLIM1	10	97023620	Splice_Site	SNP	C	TCGA-CG-4438-01A-01D-1158-08	10846057	97023620	38511127	78	72304											
TLL2	7093	broad.mit.edu	37	chr10	98172985	98172985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttccgggcttgagctatgtCtccctgactgagccgcacgc	5	10	11	15	3	1	3	0	3	1	0	3	3	2	3	3	1	2	3	3	1	1	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr10:98172985C>T	uc001kml.1	-	8	1238	c.1012G>A	c.(1012-1014)GAC>AAC	p.D338N	TLL2_uc009xvf.1_Missense_Mutation_p.D286N	NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	338	Metalloprotease (By similarity).				cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		TGAGCTATGTCTCCCTGACTG	0.557													10	32					0	0	0.008291	0	0		T	98172985	T	T	98172985	3	4	131	1	0	0	0	0	1	0	0	0	15971	913	32	4	2091	4	TLL2	10	98172985	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	1149365	98172985	37361762	79	72305											
TAF5	6877	broad.mit.edu	37	chr10	105145090	105145090	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttctctcaggaactatCtgctttcctcttcagaggac	7	15	6	13	0	6	1	2	0	4	1	9	3	7	3	1	2	2	1	1	2	2	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr10:105145090C>A	uc001kwv.2	+	8	1695	c.1672C>A	c.(1672-1674)CTG>ATG	p.L558M	TAF5_uc010qqq.1_Intron	NM_006951	NP_008882	Q15542	TAF5_HUMAN	TBP-associated factor 5	558	WD 2.				histone acetylation|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	actin cytoskeleton|transcription factor TFIID complex|transcription factor TFTC complex	protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;1.83e-09)|all cancers(201;1.4e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		CAGGAACTATCTGCTTTCCTC	0.383													14	59					2.23348e-06	2.47905e-06	0.004007	1	0		A	105145090	A	A	105145090	3	1	131	1	0	0	0	0	1	0	0	0	15553	912	32	5	1702	5	TAF5	10	105145090	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	6972105	105145090	30389657	80	72306											
NRAP	4892	broad.mit.edu	37	chr10	115377264	115377264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggaccatctccggagtgtCtttaatactggtaaacttca	10	13	8	10	1	3	0	1	0	2	0	4	2	3	2	2	3	2	1	2	3	4	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr10:115377264C>T	uc001laj.2	-	26	3087	c.2923G>A	c.(2923-2925)GAC>AAC	p.D975N	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Missense_Mutation_p.D940N|NRAP_uc001lal.3_Missense_Mutation_p.D975N	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	975	Nebulin 25.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		TCCGGAGTGTCTTTAATACTG	0.408													54	157					0	0	0.01441	0	0		T	115377264	T	T	115377264	3	4	131	1	0	0	0	0	1	0	0	0	10657	913	32	4	2337	4	NRAP	10	115377264	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	10232174	115377264	20157483	81	72307											
RAB11FIP2	22841	broad.mit.edu	37	chr10	119805578	119805578	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatagtgtatgtgtcattggTaccacttttgccttttggct	6	19	9	7	0	1	0	1	0	0	0	1	0	1	0	2	2	2	3	2	2	4	9			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr10:119805578T>C	uc001ldj.1	-	1	537	c.97A>G	c.(97-99)ACC>GCC	p.T33A	RAB11FIP2_uc009xyz.1_Missense_Mutation_p.T33A|CASC2_uc001ldm.3_5'Flank|CASC2_uc009xzc.2_5'Flank|CASC2_uc001ldk.2_5'Flank|CASC2_uc009xza.2_5'Flank|CASC2_uc009xzb.2_5'Flank	NM_014904	NP_055719	Q7L804	RFIP2_HUMAN	RAB11 family interacting protein 2	33	C2.|Necessary for its cellular translocation to the plasma membrane.				protein transport	plasma membrane|recycling endosome membrane	protein homodimerization activity				0		Colorectal(252;0.235)		all cancers(201;0.0238)		GTGTCATTGGTACCACTTTTG	0.493													113	149					0	0	0.01441	0	0		C	119805578	C	C	119805578	3	2	131	1	0	0	0	0	1	0	0	0	12919	1638	57	3	1461	3	RAB11FIP2	10	119805578	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	4428314	119805578	15729169	82	72308											
GPR123	84435	broad.mit.edu	37	chr10	134942261	134942261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccaccactgcgccaagcGtgaggacgtgtggcagtgct	8	7	13	13	3	0	1	0	1	0	0	1	2	1	2	3	2	3	2	3	2	1	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr10:134942261G>A	uc001llx.3	+	7	1365	c.929G>A	c.(928-930)CGT>CAT	p.R310H	GPR123_uc001llw.2_Missense_Mutation_p.R1029H	NM_001083909	NP_001077378	Q86SQ6	GP123_HUMAN	G protein-coupled receptor 123	310	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		TGCGCCAAGCGTGAGGACGTG	0.692													16	39					0	0	0.010504	0	0		A	134942261	A	A	134942261	3	1	131	1	0	0	0	0	1	0	0	0	6652	1145	40	1	951	1	GPR123	10	134942261	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	15136683	134942261	592486	83	72309											
MUC5B	727897	broad.mit.edu	37	chr11	1276096	1276097	+	Missense_Mutation	DNP	CC	AG	AG																															cagcctcttccacaacaacaCcgagggccagtgcggtgagt																										TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr11:1276096_1276097CC>AG	uc009ycr.1	+	57	16787_16788	c.16661_16662CC>AG	c.(16660-16662)ACC>AAG	p.T5554K	MUC5B_uc001ltb.2_Missense_Mutation_p.T5220K	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5217	VWFD 4.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CACAACAACACCGAGGGCCAGT	0.658													5	25					0	0	0.004672	0	0		AG	1276097	AG	AG	1276096	3	1	131	1	0	0	0	0	1	0	0	0	9997	507	18	5	15797	5	MUC5B	11	1276096	Missense_Mutation	DNP	CC	TCGA-CG-4438-01A-01D-1158-08		1276096	133730420	84	72310											
OR52L1	338751	broad.mit.edu	37	chr11	6007357	6007357	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaattccagggacatagaaGaccaggatgacacaaatatg	19	6	9	7	0	0	3	0	1	0	2	1	5	1	5	2	2	0	0	2	2	6	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr11:6007357G>A	uc001mcd.2	-	1	859	c.804C>T	c.(802-804)GTC>GTT	p.V268V		NM_001005173	NP_001005173	Q8NGH7	O52L1_HUMAN	olfactory receptor, family 52, subfamily L,	268	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.98e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGACATAGAAGACCAGGATGA	0.512													41	55					0	0	0.006999	0	0		A	6007357	A	A	6007357	2	1	131	1	0	0	0	0	0	0	0	1	11144	929	33	4		4	OR52L1	11	6007357	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08	4731261	6007357	128999159	85	72311											
SLC6A5	9152	broad.mit.edu	37	chr11	20657905	20657905	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccttaaccaggctgcctctCtctccgttctgggccatcat	5	12	8	16	1	4	0	1	0	3	0	6	0	4	0	5	2	2	2	5	2	1	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr11:20657905C>G	uc001mqd.2	+	11	1950	c.1677C>G	c.(1675-1677)CTC>CTG	p.L559L	SLC6A5_uc009yic.2_Silent_p.L324L	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	559	Helical; Name=8; (Potential).				synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	GGCTGCCTCTCTCTCCGTTCT	0.493													9	63					0	0	0.00499	0	0		G	20657905	G	G	20657905	2	3	131	1	0	0	0	0	0	0	0	1	14712	900	32	5		5	SLC6A5	11	20657905	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	14650548	20657905	114348611	86	72312											
LTBP3	4054	broad.mit.edu	37	chr11	65315174	65315174	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgctcacccacgcacgagcgCcccccggcgcccacgtgcag	6	2	11	22	7	1	0	1	0	0	0	1	1	1	0	5	1	2	3	5	1	0	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr11:65315174C>T	uc001oej.2	-	13	2234	c.1965G>A	c.(1963-1965)GGG>GGA	p.G655G	LTBP3_uc001oeg.2_5'Flank|LTBP3_uc001oeh.2_Silent_p.G85G|LTBP3_uc010roi.1_Silent_p.G538G|LTBP3_uc001oei.2_Silent_p.G655G|LTBP3_uc010roj.1_Silent_p.G356G|LTBP3_uc010rok.1_Silent_p.G566G	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	655	EGF-like 4; calcium-binding (Potential).|Cys-rich.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						CGCACGAGCGCCCCCCGGCGC	0.736													5	13					0	0	0.004482	0	0		T	65315174	T	T	65315174	2	4	131	1	0	0	0	0	0	0	0	1	9093	726	26	2		2	LTBP3	11	65315174	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	44657269	65315174	69691342	87	72313											
RAB30	27314	broad.mit.edu	37	chr11	82698634	82698634	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagcccttacttacccactAacacagtgatgaccttgttg	10	13	6	12	0	0	2	0	2	0	0	0	2	0	2	3	0	4	1	3	0	4	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr11:82698634A>G	uc001ozu.2	-	5	617	c.356T>C	c.(355-357)TTA>TCA	p.L119S	RAB30_uc009yve.2_Missense_Mutation_p.L117S|RAB30_uc010rst.1_Missense_Mutation_p.L117S|RAB30_uc001ozv.2_Missense_Mutation_p.L117S|RAB30_uc009yvg.1_Missense_Mutation_p.L89S	NM_014488	NP_055303	Q15771	RAB30_HUMAN	RAB30, member RAS oncogene family	119					protein transport|small GTPase mediated signal transduction	Golgi stack|plasma membrane	GTP binding|GTPase activity				0						CTTACCCACTAACACAGTGAT	0.433													34	94					0	0	0.013726	0	0		G	82698634	G	G	82698634	3	3	131	1	0	0	0	0	1	0	0	0	12944	372	13	3	263	3	RAB30	11	82698634	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	17383460	82698634	52307882	88	72314											
MMP20	9313	broad.mit.edu	37	chr11	102482556	102482556	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaagctcagagggacggcGctactccaggcctgcaaggc	11	4	13	13	2	1	1	1	0	0	1	2	2	2	2	2	4	3	3	2	4	3	1	rs143965716	byFrequency	TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr11:102482556G>A	uc001phc.2	-	3	466	c.453C>T	c.(451-453)AGC>AGT	p.S151S		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein	151					proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		GAGGGACGGCGCTACTCCAGG	0.443													22	45					0	0	0.01892	0	0		A	102482556	A	A	102482556	2	1	131	1	0	0	0	0	0	0	0	1	9677	1078	38	1		1	MMP20	11	102482556	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08	19783922	102482556	32523960	89	72315											
MMP1	4312	broad.mit.edu	37	chr11	102663365	102663365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accggacttcatctctgtcgGcaaattcgtaagcagcttca	10	11	8	12	3	3	0	2	0	1	0	6	1	3	1	1	2	2	4	1	2	2	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr11:102663365G>A	uc001phi.2	-	7	1147	c.1004C>T	c.(1003-1005)GCC>GTC	p.A335V	uc001phh.1_Intron|MMP1_uc010ruv.1_Missense_Mutation_p.A269V	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	335	Hemopexin-like 2.				blood coagulation|collagen catabolic process|interspecies interaction between organisms|leukocyte migration|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)|lung(1)	4	all_epithelial(12;0.0127)	all_neural(303;0.000318)|all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.072)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.233)	OV - Ovarian serous cystadenocarcinoma(223;1.82e-07)|Epithelial(105;1.51e-06)|BRCA - Breast invasive adenocarcinoma(274;0.014)		ATCTCTGTCGGCAAATTCGTA	0.393													4	230					0	0	0.009096	0	0		A	102663365	A	A	102663365	3	1	131	1	0	0	0	0	1	0	0	0	9666	1203	42	2	421	2	MMP1	11	102663365	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	180809	102663365	32343151	90	72316											
ELMOD1	55531	broad.mit.edu	37	chr11	107535878	107535878	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagaacccagacatggcGctgtgcccacattttgctgc	8	9	10	14	1	0	2	0	0	0	2	0	2	0	2	2	1	5	3	2	1	1	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr11:107535878G>A	uc010rvs.1	+	12	1364	c.960G>A	c.(958-960)GCG>GCA	p.A320A	ELMOD1_uc001pjm.2_Silent_p.A312A|ELMOD1_uc010rvt.1_Silent_p.A314A	NM_018712	NP_061182	Q8N336	ELMD1_HUMAN	ELMO/CED-12 domain containing 1 isoform 1	320					phagocytosis	cytoskeleton	GTPase activator activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00304)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Epithelial(105;0.00027)|all cancers(92;0.00481)		CAGACATGGCGCTGTGCCCAC	0.478													73	165					0	0	0.01441	0	0		A	107535878	A	A	107535878	2	1	131	1	0	0	0	0	0	0	0	1	5076	1074	38	1		1	ELMOD1	11	107535878	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08	4872513	107535878	27470638	91	72317											
PIH1D2	120379	broad.mit.edu	37	chr11	111942457	111942457	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtccactgacacaggttgAtaaaaagtattttttctttt	11	18	6	6	0	1	2	0	2	1	0	2	2	2	2	1	1	0	2	1	1	4	9			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr11:111942457A>C	uc001pmq.3	-	3	285	c.203T>G	c.(202-204)ATC>AGC	p.I68S	PIH1D2_uc009yyl.2_Missense_Mutation_p.I68S|PIH1D2_uc001pmp.3_Missense_Mutation_p.I68S|PIH1D2_uc010rws.1_Missense_Mutation_p.I68S|C11orf57_uc001pmu.2_5'Flank|C11orf57_uc001pmw.3_5'Flank|C11orf57_uc001pmt.3_5'Flank|C11orf57_uc001pmr.3_5'Flank|C11orf57_uc001pmv.3_5'Flank|C11orf57_uc001pms.3_5'Flank	NM_138789	NP_620144	Q8WWB5	PIHD2_HUMAN	PIH1 domain containing 2 isoform 1	68										ovary(1)	1		all_cancers(61;1.09e-14)|all_epithelial(67;7.64e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.19e-07)|BRCA - Breast invasive adenocarcinoma(274;6.17e-07)|all cancers(92;6.18e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0508)		ACACAGGTTGATAAAAAGTAT	0.333													13	113					0	0	0.013537	0	0		C	111942457	C	C	111942457	3	2	131	1	0	0	0	0	1	0	0	0	11926	333	12	5	818	5	PIH1D2	11	111942457	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	4406579	111942457	23064059	92	72318											
MLL	4297	broad.mit.edu	37	chr11	118390341	118390341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgattcttctaggtgttaacGgtttgaggatgctggggatt	7	16	14	4	1	2	2	0	2	2	0	2	4	2	4	0	5	2	3	0	5	2	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr11:118390341G>A	uc001pta.2	+	32	11169	c.11146G>A	c.(11146-11148)GGT>AGT	p.G3716S	MLL_uc001ptb.2_Missense_Mutation_p.G3719S	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3716	FYR C-terminal.				apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		AGGTGTTAACGGTTTGAGGAT	0.478			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								61	171					0	0	0.01441	0	0		A	118390341	A	A	118390341	3	1	131	1	0	0	0	0	1	0	0	0	9638	1116	39	1	11272	1	MLL	11	118390341	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	6447884	118390341	16616175	93	72319											
LRMP	4033	broad.mit.edu	37	chr12	25232696	25232696	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcccacgatagaggcccaAggtaaaatgttgacaggtgt	12	9	11	9	1	1	2	0	1	1	1	2	3	1	2	2	3	0	2	2	3	4	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr12:25232696A>G	uc001rgh.2	+	8	1277	c.243A>G	c.(241-243)CAA>CAG	p.Q81Q	LRMP_uc001rgg.1_RNA|LRMP_uc010sja.1_Silent_p.Q81Q|LRMP_uc010sjb.1_Silent_p.Q28Q|LRMP_uc001rgi.2_RNA|LRMP_uc010sjc.1_Silent_p.Q81Q|LRMP_uc010sjd.1_Silent_p.Q28Q	NM_006152	NP_006143	Q12912	LRMP_HUMAN	lymphoid-restricted membrane protein	137	Cytoplasmic (Potential).				vesicle fusion|vesicle targeting	endoplasmic reticulum membrane|integral to plasma membrane				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Colorectal(261;0.11)					TAGAGGCCCAAGGTAAAATGT	0.383													31	38					0	0	0.013726	0	0		G	25232696	G	G	25232696	2	3	131	1	0	0	0	0	0	0	0	1	8968	86	3	3		3	LRMP	12	25232696	Silent	SNP	A	TCGA-CG-4438-01A-01D-1158-08		25232696	108619199	94	72320											
SLC48A1	55652	broad.mit.edu	37	chr12	48174023	48174023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctatgcccaccgctacCgggctgactttgctgacatc	6	10	9	16	2	1	2	0	2	1	0	2	2	1	2	4	1	3	3	4	1	2	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr12:48174023C>T	uc001rqd.2	+	3	521	c.400C>T	c.(400-402)CGG>TGG	p.R134W	SLC48A1_uc001rqc.2_RNA	NM_017842	NP_060312	Q6P1K1	HRG1_HUMAN	heme-responsive gene 1	134					transport	endosome membrane|integral to membrane|lysosomal membrane					0						CCACCGCTACCGGGCTGACTT	0.602													30	66					0	0	0.015359	0	0		T	48174023	T	T	48174023	3	4	131	1	0	0	0	0	1	0	0	0	14674	643	23	1	410	1	SLC48A1	12	48174023	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	22941327	48174023	85677872	95	72321											
MLL2	8085	broad.mit.edu	37	chr12	49431894	49431894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccccgcagcagggcctccCgttcagccttctcattagcc	5	8	8	20	2	2	0	2	0	1	0	4	0	3	0	7	1	3	3	7	1	1	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr12:49431894C>T	uc001rta.3	-	34	9245	c.9245G>A	c.(9244-9246)CGG>CAG	p.R3082Q		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3082					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CAGGGCCTCCCGTTCAGCCTT	0.612			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			11	27					0	0	0.010729	0	0		T	49431894	T	T	49431894	3	4	131	1	0	0	0	0	1	0	0	0	9639	652	23	1	7452	1	MLL2	12	49431894	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	1257871	49431894	84420001	96	72322											
TUBA1C	84790	broad.mit.edu	37	chr12	49663249	49663249	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttcttcctcccacagcGtgagtgcatctccatccacg	6	12	6	17	2	2	1	0	1	2	0	7	1	6	1	5	0	2	1	5	0	0	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr12:49663249G>C	uc001rtt.1	+	2	105	c.5G>C	c.(4-6)CGT>CCT	p.R2P	TUBA1C_uc001rts.2_5'UTR|TUBA1C_uc010smh.1_Missense_Mutation_p.R72P	NM_032704	NP_116093	Q9BQE3	TBA1C_HUMAN	tubulin alpha 6	2					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0						CTCCCACAGCGTGAGTGCATC	0.502													8	76					0	0	0.006214	0	0		C	49663249	C	C	49663249	3	2	131	1	0	0	0	0	1	0	0	0	16771	1159	40	5	11	5	TUBA1C	12	49663249	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	231355	49663249	84188646	97	72323											
AAAS	8086	broad.mit.edu	37	chr12	53708088	53708088	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctactaggacttaccgggtaGacaaggaggtagggtccagg	11	7	15	8	1	0	1	0	0	0	1	1	3	1	3	2	6	2	2	2	6	6	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr12:53708088G>C	uc001scr.3	-	7	846	c.683C>G	c.(682-684)TCT>TGT	p.S228C	AAAS_uc001scs.3_Missense_Mutation_p.S195C	NM_015665	NP_056480	Q9NRG9	AAAS_HUMAN	achalasia, adrenocortical insufficiency,	228	WD 2.				carbohydrate metabolic process|glucose transport|nucleocytoplasmic transport|regulation of glucose transport|regulation of nucleocytoplasmic transport|transmembrane transport|viral reproduction	nuclear pore				ovary(1)	1						TTACCGGGTAGACAAGGAGGT	0.552													47	189					0	0	0.01441	0	0		C	53708088	C	C	53708088	3	2	131	1	0	0	0	0	1	0	0	0	8	942	33	5	997	5	AAAS	12	53708088	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	4044839	53708088	80143807	98	72324											
CKAP4	10970	broad.mit.edu	37	chr12	106633923	106633923	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgttctccagggacgtgaAgtcccgctcccgggcgtcct	4	9	13	15	5	1	1	0	1	1	0	5	2	4	2	4	2	0	2	4	2	1	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr12:106633923A>C	uc001tlk.2	-	2	772	c.688T>G	c.(688-690)TTC>GTC	p.F230V		NM_006825	NP_006816	Q07065	CKAP4_HUMAN	cytoskeleton-associated protein 4	230						ER-Golgi intermediate compartment membrane|integral to membrane|membrane fraction					0						AGGGACGTGAAGTCCCGCTCC	0.567													19	94					0	0	0.008361	0	0		C	106633923	C	C	106633923	3	2	131	1	0	0	0	0	1	0	0	0	3447	72	3	5	1124	5	CKAP4	12	106633923	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	52925835	106633923	27217972	99	72325											
TBX5	6910	broad.mit.edu	37	chr12	114803972	114803972	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggggtgatcacactcacctTtcctcttggtacaatggtaa	10	12	9	10	0	3	1	2	1	1	0	4	1	4	1	2	4	1	2	2	4	3	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr12:114803972T>G	uc001tvo.2	-	8	1475	c.980A>C	c.(979-981)AAA>ACA	p.K327T	TBX5_uc001tvp.2_Missense_Mutation_p.K327T|TBX5_uc001tvq.2_Missense_Mutation_p.K277T|TBX5_uc010syv.1_Missense_Mutation_p.K327T	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	327					cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		ACACTCACCTTTCCTCTTGGT	0.502													25	32					0	0	0.005443	0	0		G	114803972	G	G	114803972	3	3	131	1	0	0	0	0	1	0	0	0	15686	1841	64	5	651	5	TBX5	12	114803972	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	8170049	114803972	19047923	100	72326											
LRRC43	254050	broad.mit.edu	37	chr12	122676081	122676081	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgaaagatgaagaaggCgaaatgaatgagtccgcggg	14	8	15	4	3	0	6	0	4	0	2	1	7	1	6	1	2	0	0	1	2	5	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr12:122676081C>T	uc009zxm.2	+	6	1081	c.1056C>T	c.(1054-1056)GGC>GGT	p.G352G	LRRC43_uc001ubw.3_Silent_p.G167G|LRRC43_uc009zxn.2_Silent_p.G113G	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	352	Glu-rich.										0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		ATGAAGAAGGCGAAATGAATG	0.552											OREG0022219	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	87					0	0	0.016522	0	0		T	122676081	T	T	122676081	2	4	131	1	0	0	0	0	0	0	0	1	9019	755	27	1		1	LRRC43	12	122676081	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	7872109	122676081	11175814	101	72327											
C13orf23	80209	broad.mit.edu	37	chr13	39588424	39588424	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctgaggtgtgtgaacggctGaggagacctgccctgggaac	8	7	17	9	1	0	4	0	3	0	1	0	6	0	5	2	4	3	2	2	4	2	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr13:39588424G>C	uc001uwy.2	-	11	1838	c.965C>G	c.(964-966)TCA>TGA	p.S322*	C13orf23_uc001uwz.2_Nonsense_Mutation_p.S300*	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	322	Pro-rich.									ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		GTGAACGGCTGAGGAGACCTG	0.507													9	54					0	0	0.004482	0	0		C	39588424	C	C	39588424	4	2	131	1	0	0	0	0	0	1	0	0	1724	1294	45	5	1881	5	C13orf23	13	39588424	Nonsense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08		39588424	75581454	102	72328											
KLHL1	57626	broad.mit.edu	37	chr13	70681344	70681344	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttactgtacctgtgtccaCatccttcacctgttgcctgg	6	14	7	14	0	1	0	1	0	0	0	3	0	3	0	5	1	3	2	5	1	2	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr13:70681344C>A	uc001vip.2	-	1	1282	c.488G>T	c.(487-489)TGT>TTT	p.C163F	KLHL1_uc010thm.1_Missense_Mutation_p.C163F|ATXN8OS_uc010aej.1_5'Flank	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	163					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		CCTGTGTCCACATCCTTCACC	0.512													26	148					1.16021e-09	1.32954e-09	0.007291	1	0		A	70681344	A	A	70681344	3	1	131	1	0	0	0	0	1	0	0	0	8381	478	17	5	1802	5	KLHL1	13	70681344	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	31092920	70681344	44488534	103	72329											
UCHL3	7347	broad.mit.edu	37	chr13	76135004	76135004	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtcttacttctctttcCtattacagaaaaggtaattg	11	16	6	8	0	2	1	0	0	2	1	4	1	3	1	1	1	3	2	1	1	6	7			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr13:76135004C>G	uc001vjq.2	+	3	200	c.170C>G	c.(169-171)CCT>CGT	p.P57R	UCHL3_uc001vjr.2_Missense_Mutation_p.P21R	NM_006002	NP_005993	P15374	UCHL3_HUMAN	ubiquitin carboxyl-terminal esterase L3	57					ubiquitin-dependent protein catabolic process	cytoplasm	cysteine-type peptidase activity|ubiquitin binding|ubiquitin thiolesterase activity				0				GBM - Glioblastoma multiforme(99;0.0125)		CTTCTCTTTCCTATTACAGAA	0.284													19	107					0	0	0.007413	0	0		G	76135004	G	G	76135004	3	3	131	1	0	0	0	0	1	0	0	0	16947	681	24	5	180	5	UCHL3	13	76135004	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	5453660	76135004	39034874	104	72330											
NALCN	259232	broad.mit.edu	37	chr13	101712255	101712255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgggcgggttcagaaacCggctcagctcttgctgctga	6	10	14	11	2	3	2	2	1	1	1	3	2	3	2	1	3	5	6	1	3	1	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr13:101712255C>T	uc001vox.1	-	42	5009	c.4820G>A	c.(4819-4821)CGG>CAG	p.R1607Q		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1607	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GTTCAGAAACCGGCTCAGCTC	0.532													69	26					0	0	0.01441	0	0		T	101712255	T	T	101712255	3	4	131	1	0	0	0	0	1	0	0	0	10166	652	23	1	408	1	NALCN	13	101712255	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	25577251	101712255	13457623	105	72331											
DDHD1	80821	broad.mit.edu	37	chr14	53513599	53513599	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggcagtatgcgacgtgaCagctgaccaatagcggctct	11	8	12	10	3	1	2	0	2	1	0	1	3	1	2	1	2	3	4	1	2	4	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr14:53513599C>A	uc001xai.2	-	13	2820	c.2590G>T	c.(2590-2592)GTC>TTC	p.V864F	DDHD1_uc001xaj.2_Missense_Mutation_p.V843F|DDHD1_uc001xah.2_Missense_Mutation_p.V836F|DDHD1_uc001xag.2_Missense_Mutation_p.V418F	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	864	DDHD.				lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					TGCGACGTGACAGCTGACCAA	0.403													22	48					5.35356e-11	6.16823e-11	0.016522	1	0		A	53513599	A	A	53513599	3	1	131	1	0	0	0	0	1	0	0	0	4329	478	17	5	116	5	DDHD1	14	53513599	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08		53513599	53835941	106	72332											
SPTB	6710	broad.mit.edu	37	chr14	65259825	65259825	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtctgtctccccgaacacCgtgtacaggtccagggcttc	6	9	11	15	3	2	0	0	0	2	0	5	1	3	0	4	2	2	2	4	2	2	2	rs141787926		TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr14:65259825C>T	uc001xht.2	-	13	2610	c.2556G>A	c.(2554-2556)ACG>ACA	p.T852T	SPTB_uc001xhr.2_Silent_p.T852T|SPTB_uc001xhs.2_Silent_p.T852T|SPTB_uc001xhu.2_Silent_p.T852T	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	852	Spectrin 6.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		CCCCGAACACCGTGTACAGGT	0.642													3	50					0	0	0.009096	0	0		T	65259825	T	T	65259825	2	4	131	1	0	0	0	0	0	0	0	1	15143	639	23	1		1	SPTB	14	65259825	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	11746226	65259825	42089715	107	72333											
AK7	122481	broad.mit.edu	37	chr14	96922757	96922757	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagaattggccaactactAcaaactgcatcacatccaac	17	8	4	12	0	1	1	1	0	0	1	2	1	2	1	2	1	6	1	2	1	8	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr14:96922757A>G	uc001yfn.2	+	11	1216	c.1172A>G	c.(1171-1173)TAC>TGC	p.Y391C		NM_152327	NP_689540	Q96M32	KAD7_HUMAN	adenylate kinase 7	391	Adenylate kinase.|Potential.				cell projection organization	cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity			ovary(1)	1		all_cancers(154;0.0482)|all_epithelial(191;0.128)|Melanoma(154;0.155)		Epithelial(152;0.134)|COAD - Colon adenocarcinoma(157;0.228)		GCCAACTACTACAAACTGCAT	0.393													23	77					0	0	0.016522	0	0		G	96922757	G	G	96922757	3	3	131	1	0	0	0	0	1	0	0	0	444	391	14	3	1214	3	AK7	14	96922757	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	31662932	96922757	10426783	108	72334											
BEGAIN	57596	broad.mit.edu	37	chr14	101012976	101012976	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacagccgcttgcgcagcTcgcccttctgctcctgcagc	5	8	11	17	3	1	0	0	0	1	0	3	1	2	1	3	1	6	5	3	1	0	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr14:101012976T>G	uc010txa.1	-	2	184	c.38A>C	c.(37-39)GAG>GCG	p.E13A	BEGAIN_uc001yhp.2_5'UTR|BEGAIN_uc001yhq.2_Missense_Mutation_p.E13A	NM_001159531	NP_001153003	Q9BUH8	BEGIN_HUMAN	brain-enriched guanylate kinase-associated	13						cytoplasm|membrane	protein binding				0		Melanoma(154;0.212)				CTTGCGCAGCTCGCCCTTCTG	0.582													5	13					0	0	0.001168	0	0		G	101012976	G	G	101012976	3	3	131	1	0	0	0	0	1	0	0	0	1398	1551	54	5	1763	5	BEGAIN	14	101012976	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	4090219	101012976	6336564	109	72335											
MARK3	4140	broad.mit.edu	37	chr14	103871565	103871565	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcggcaaggggaattttgcAaaagtaaaattggcaagaca	17	8	11	5	1	0	1	0	0	0	1	1	2	0	2	0	4	1	4	0	4	7	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr14:103871565A>G	uc001ymz.3	+	2	870	c.204A>G	c.(202-204)GCA>GCG	p.A68A	MARK3_uc001ymx.3_Silent_p.A68A|MARK3_uc001ymw.3_Silent_p.A68A|MARK3_uc001yna.3_Silent_p.A68A|MARK3_uc001ymy.3_Silent_p.A68A|MARK3_uc010awp.2_Silent_p.A68A	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	68	ATP (By similarity).|Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			GGAATTTTGCAAAAGTAAAAT	0.408													17	59					0	0	0.008871	0	0		G	103871565	G	G	103871565	2	3	131	1	0	0	0	0	0	0	0	1	9332	117	5	3		3	MARK3	14	103871565	Silent	SNP	A	TCGA-CG-4438-01A-01D-1158-08	2858589	103871565	3477975	110	72336											
C15orf55	256646	broad.mit.edu	37	chr15	34649144	34649144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaccttgctcctttacaaGagagtcaggagtcttacaca	14	10	7	10	0	2	1	1	0	1	1	3	3	3	2	2	1	4	1	2	1	5	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr15:34649144G>A	uc001zif.2	+	7	3006	c.2851G>A	c.(2851-2853)GAG>AAG	p.E951K	C15orf55_uc010ucc.1_Missense_Mutation_p.E979K|C15orf55_uc010ucd.1_Missense_Mutation_p.E969K	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	951						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		TCCTTTACAAGAGAGTCAGGA	0.507			T	BRD3|BRD4	lethal midline carcinoma								38	14					0	0	0.006999	0	0		A	34649144	A	A	34649144	3	1	131	1	0	0	0	0	1	0	0	0	1806	943	33	4	2877	4	C15orf55	15	34649144	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08		34649144	67882248	111	72337											
WDR72	256764	broad.mit.edu	37	chr15	53908006	53908006	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatggcaaaaggcaagaCagaaacaattttgctgtgtc	14	8	9	10	0	0	2	0	0	0	2	1	2	0	2	2	2	2	3	2	2	5	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr15:53908006C>A	uc002acj.2	-	15	2439	c.2397G>T	c.(2395-2397)CTG>CTT	p.L799L	WDR72_uc010bfi.1_Silent_p.L799L	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	799										lung(1)|skin(1)	2				all cancers(107;0.0511)		AAAGGCAAGACAGAAACAATT	0.363													64	279					5.44642e-36	6.48675e-36	0.01441	1	0		A	53908006	A	A	53908006	2	1	131	1	0	0	0	0	0	0	0	1	17348	465	17	5		5	WDR72	15	53908006	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	19258862	53908006	48623386	112	72338											
AKAP13	11214	broad.mit.edu	37	chr15	86266314	86266314	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccttccaagacaatgaagtgGagcaggaagatctagcacag	15	6	11	9	0	1	3	0	1	1	2	2	5	2	5	2	2	2	2	2	2	5	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr15:86266314G>C	uc002blv.1	+	26	6678	c.6508G>C	c.(6508-6510)GAG>CAG	p.E2170Q	AKAP13_uc002blu.1_Missense_Mutation_p.E2174Q|AKAP13_uc010bnf.1_Missense_Mutation_p.E791Q|AKAP13_uc002blw.1_Missense_Mutation_p.E635Q|AKAP13_uc002blx.1_Missense_Mutation_p.E415Q	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2170	Interaction with ESR1.|DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CAATGAAGTGGAGCAGGAAGA	0.433													18	70					0	0	0.007413	0	0		C	86266314	C	C	86266314	3	2	131	1	0	0	0	0	1	0	0	0	449	1175	41	5	6676	5	AKAP13	15	86266314	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	32358308	86266314	16265078	113	72339											
MEFV	4210	broad.mit.edu	37	chr16	3294540	3294540	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagttggatcttttgtttTatctcttgaggagtggtcca	7	17	12	5	0	2	1	0	1	2	0	4	4	3	4	1	4	0	2	1	4	1	6			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr16:3294540T>C	uc002cun.1	-	7	1699	c.1659A>G	c.(1657-1659)ATA>ATG	p.I553M		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	553					inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	TCTTTTGTTTTATCTCTTGAG	0.507													40	71					0	0	0.006999	0	0		C	3294540	C	C	3294540	3	2	131	1	0	0	0	0	1	0	0	0	9477	1744	61	3	702	3	MEFV	16	3294540	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08		3294540	87060213	114	72340											
FBXO31	79791	broad.mit.edu	37	chr16	87377307	87377307	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagaggcttgaatctcataGggtcatcgacgtgggggtca	10	9	14	8	2	3	2	3	1	1	1	5	3	3	2	0	4	0	1	0	4	2	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr16:87377307G>C	uc002fjw.2	-	4	598	c.554C>G	c.(553-555)CCT>CGT	p.P185R	FBXO31_uc010vot.1_Missense_Mutation_p.P13R|FBXO31_uc002fjv.2_Missense_Mutation_p.P77R	NM_024735	NP_079011	Q5XUX0	FBX31_HUMAN	F-box protein 31	185					cell cycle|cyclin catabolic process|mitotic cell cycle G1/S transition DNA damage checkpoint|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	SCF ubiquitin ligase complex	cyclin binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0272)		GAATCTCATAGGGTCATCGAC	0.587													9	39					0	0	0.016723	0	0		C	87377307	C	C	87377307	3	2	131	1	0	0	0	0	1	0	0	0	5755	1000	35	5	1089	5	FBXO31	16	87377307	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	84082767	87377307	2977446	115	72341											
ANKRD11	29123	broad.mit.edu	37	chr16	89357087	89357087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgatgagctctttgatgcGccgggcgtccccgcggatgg	4	9	16	12	5	1	3	0	3	1	0	2	4	2	4	3	3	2	2	3	3	0	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr16:89357087G>A	uc002fmx.1	-	6	1008	c.547C>T	c.(547-549)CGC>TGC	p.R183C	ANKRD11_uc002fmy.1_Missense_Mutation_p.R183C|ANKRD11_uc002fnc.1_Missense_Mutation_p.R183C|ANKRD11_uc002fnd.2_Missense_Mutation_p.R149C|ANKRD11_uc002fne.2_Missense_Mutation_p.R149C|ANKRD11_uc002fnb.1_Missense_Mutation_p.R140C	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	183	ANK 1.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TCTTTGATGCGCCGGGCGTCC	0.622													71	46					0	0	0.01441	0	0		A	89357087	A	A	89357087	3	1	131	1	0	0	0	0	1	0	0	0	639	1087	38	1	7476	1	ANKRD11	16	89357087	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	1979780	89357087	997666	116	72342											
TP53	7157	broad.mit.edu	37	chr17	7578212	7578212	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcaccaccacactatgtcGaaaagtgtttctgtcatcca	11	10	8	12	1	2	0	1	0	1	0	4	1	3	0	3	1	0	2	3	1	3	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr17:7578212G>A	uc002gim.2	-	6	831	c.637C>T	c.(637-639)CGA>TGA	p.R213*	TP53_uc002gig.1_Nonsense_Mutation_p.R213*|TP53_uc002gih.2_Nonsense_Mutation_p.R213*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R81*|TP53_uc010cng.1_Nonsense_Mutation_p.R81*|TP53_uc002gii.1_Nonsense_Mutation_p.R81*|TP53_uc010cnh.1_Nonsense_Mutation_p.R213*|TP53_uc010cni.1_Nonsense_Mutation_p.R213*|TP53_uc002gij.2_Nonsense_Mutation_p.R213*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.R120*|TP53_uc002gio.2_Nonsense_Mutation_p.R81*|TP53_uc010vug.1_Nonsense_Mutation_p.R174*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	213	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(186)|p.R213L(25)|p.R213Q(22)|p.R213fs*34(10)|p.0?(7)|p.R213P(5)|p.R81*(2)|p.R120*(2)|p.R213G(2)|p.K164_P219del(1)|p.D208_V216delDRNTFRHSV(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R213*33(1)|p.D208fs*1(1)|p.R213>L(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ACACTATGTCGAAAAGTGTTT	0.532		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			20	13					0	0	0.014323	0	0		A	7578212	A	A	7578212	4	1	131	1	0	0	0	0	0	1	0	0	16407	1066	37	1	657	1	TP53	17	7578212	Nonsense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08		7578212	73616998	117	72343											
PIK3R6	146850	broad.mit.edu	37	chr17	8707449	8707449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggatctggatattgttcGtcctgaaggtgttggtcact	6	16	12	7	1	3	1	1	1	2	0	5	3	4	3	1	4	0	2	1	4	2	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr17:8707449G>A	uc002glq.1	-	20	2258	c.2018C>T	c.(2017-2019)ACG>ATG	p.T673M	PIK3R6_uc002glr.1_RNA|PIK3R6_uc002gls.1_RNA	NM_001010855	NP_001010855	Q5UE93	PI3R6_HUMAN	phosphoinositide-3-kinase, regulatory subunit 6	673					platelet activation	cytosol					0						GATATTGTTCGTCCTGAAGGT	0.572													24	7					0	0	0.016522	0	0		A	8707449	A	A	8707449	3	1	131	1	0	0	0	0	1	0	0	0	11942	1145	40	1	254	1	PIK3R6	17	8707449	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	1129237	8707449	72487761	118	72344											
DNAH9	1770	broad.mit.edu	37	chr17	11711130	11711130	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gggagcggcaagcagagcctGacaaggctggcagctttcat	10	6	15	10	1	1	2	1	1	0	1	1	3	1	3	1	4	4	5	1	4	2	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr17:11711130G>C	uc002gne.2	+	44	8570	c.8502G>C	c.(8500-8502)CTG>CTC	p.L2834L	DNAH9_uc010coo.2_Silent_p.L2128L	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2834	AAA 4 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AGCAGAGCCTGACAAGGCTGG	0.547													16	51					0	0	0.004007	0	0		C	11711130	C	C	11711130	2	2	131	1	0	0	0	0	0	0	0	1	4614	1277	45	5		5	DNAH9	17	11711130	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08	3003681	11711130	69484080	119	72345											
ATAD5	79915	broad.mit.edu	37	chr17	29182287	29182287	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagctgctgcgctggatgtGtacaatgcagtgagtaccag	11	9	13	8	1	0	1	0	1	0	0	0	2	0	2	1	1	6	6	1	1	4	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr17:29182287G>A	uc002hfs.1	+	7	2923	c.2577G>A	c.(2575-2577)GTG>GTA	p.V859V	ATAD5_uc002hft.1_Silent_p.V756V	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	859					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				CGCTGGATGTGTACAATGCAG	0.388													13	57					0	0	0.020292	0	0		A	29182287	A	A	29182287	2	1	131	1	0	0	0	0	0	0	0	1	1077	1364	48	4		4	ATAD5	17	29182287	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08	17471157	29182287	52012923	120	72346											
GSDMA	284110	broad.mit.edu	37	chr17	38131252	38131252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcgccatcctctatttcGttggagccctaacaggtaag	8	11	11	11	2	1	0	0	0	1	0	3	1	2	1	3	3	2	2	3	3	3	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr17:38131252G>A	uc002htl.1	+	10	1124	c.1006G>A	c.(1006-1008)GTT>ATT	p.V336I	GSDMA_uc002htm.1_Missense_Mutation_p.V336I	NM_178171	NP_835465	Q96QA5	GSDMA_HUMAN	gasdermin 1	336					apoptosis|induction of apoptosis	perinuclear region of cytoplasm					0						CCTCTATTTCGTTGGAGCCCT	0.443													8	14					0	0	0.006214	0	0		A	38131252	A	A	38131252	3	1	131	1	0	0	0	0	1	0	0	0	6832	1145	40	1	1040	1	GSDMA	17	38131252	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	8948965	38131252	43063958	121	72347											
CSF3	1440	broad.mit.edu	37	chr17	38173124	38173124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgcctctgctttccagcGccgggcaggaggggtcctgg	3	9	15	14	3	1	0	0	0	1	0	4	1	3	1	4	5	2	2	4	5	0	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr17:38173124G>A	uc002htp.2	+	5	576	c.536G>A	c.(535-537)CGC>CAC	p.R179H	CSF3_uc002hto.2_Missense_Mutation_p.R176H|CSF3_uc002htq.2_Missense_Mutation_p.R172H|CSF3_uc010wep.1_Missense_Mutation_p.R136H	NM_000759	NP_000750	P09919	CSF3_HUMAN	colony stimulating factor 3 isoform a precursor	179					cytokine-mediated signaling pathway|granulocyte differentiation|immune response|positive regulation of cell proliferation	extracellular space	cytokine activity|enzyme binding|granulocyte colony-stimulating factor receptor binding|growth factor activity			ovary(1)	1	Colorectal(19;0.000442)	Myeloproliferative disorder(1115;0.0255)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	GCTTTCCAGCGCCGGGCAGGA	0.652													13	48					0	0	0.020292	0	0		A	38173124	A	A	38173124	3	1	131	1	0	0	0	0	1	0	0	0	3939	1087	38	1	554	1	CSF3	17	38173124	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	41872	38173124	43022086	122	72348											
HEXIM1	10614	broad.mit.edu	37	chr17	43227413	43227413	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgcagaacatgagcaagcagGagctcatcaaggagtacctg	14	6	12	9	0	2	2	2	1	0	1	2	4	2	4	1	2	6	5	1	2	4	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr17:43227413G>C	uc002iig.2	+	1	2730	c.856G>C	c.(856-858)GAG>CAG	p.E286Q		NM_006460	NP_006451	O94992	HEXI1_HUMAN	hexamethylene bis-acetamide inducible 1	286	Mediates interaction with CCNT1.|Potential.				negative regulation of cyclin-dependent protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	cyclin-dependent protein kinase inhibitor activity|protein binding|snRNA binding			ovary(1)	1						GAGCAAGCAGGAGCTCATCAA	0.622													31	116					0	0	0.009535	0	0		C	43227413	C	C	43227413	3	2	131	1	0	0	0	0	1	0	0	0	7092	1175	41	5	858	5	HEXIM1	17	43227413	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	5054289	43227413	37967797	123	72349											
KIF2B	84643	broad.mit.edu	37	chr17	51902309	51902309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatattgatttttgcattGcccggtctttgtccattttg	6	20	8	7	1	1	2	0	2	1	0	2	2	2	2	2	1	2	1	2	1	1	8			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr17:51902309G>A	uc002iua.2	+	1	2071	c.1915G>A	c.(1915-1917)GCC>ACC	p.A639T	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	639					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TTTTTGCATTGCCCGGTCTTT	0.448													19	42					0	0	0.006122	0	0		A	51902309	A	A	51902309	3	1	131	1	0	0	0	0	1	0	0	0	8314	1319	46	2	1917	2	KIF2B	17	51902309	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	8674896	51902309	29292901	124	72350											
ZFP161	7541	broad.mit.edu	37	chr18	5292000	5292000	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaccgaagaactatcaacCtcaagcttcttgaaaagctt	15	10	6	10	1	3	3	2	2	1	1	3	4	3	3	2	0	4	2	2	0	7	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr18:5292000C>A	uc002kmq.2	-	4	368	c.207G>T	c.(205-207)GAG>GAT	p.E69D	ZFP161_uc002kmr.2_Missense_Mutation_p.E69D|ZFP161_uc010dkp.2_Missense_Mutation_p.E69D	NM_003409	NP_003400	O43829	ZF161_HUMAN	zinc finger protein 161 homolog	69	BTB.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AACTATCAACCTCAAGCTTCT	0.378													25	100					1.85244e-09	2.11138e-09	0.01892	1	0		A	5292000	A	A	5292000	3	1	131	1	0	0	0	0	1	0	0	0	17665	680	24	5	1146	5	ZFP161	18	5292000	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08		5292000	72785248	125	72351											
C18orf54	162681	broad.mit.edu	37	chr18	51888235	51888235	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacattgagaagaatccacAttttcaaggaccctacactt	14	10	7	10	0	1	2	1	1	0	2	2	5	2	4	2	2	1	0	2	2	4	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr18:51888235A>G	uc002lfn.3	+	3	622	c.506A>G	c.(505-507)CAT>CGT	p.H169R	C18orf54_uc002lfo.3_Missense_Mutation_p.H169R	NM_173529	NP_775800	Q8IYD9	CR054_HUMAN	hypothetical protein LOC162681 precursor	169						extracellular region				ovary(1)|skin(1)	2				Colorectal(16;0.0206)|READ - Rectum adenocarcinoma(59;0.186)		AAGAATCCACATTTTCAAGGA	0.408													16	22					0	0	0.00499	0	0		G	51888235	G	G	51888235	3	3	131	1	0	0	0	0	1	0	0	0	1907	217	8	3	512	3	C18orf54	18	51888235	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	46596235	51888235	26189013	126	72352											
KIAA1468	57614	broad.mit.edu	37	chr18	59925233	59925233	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcaacaaatgttaatggAagataaggcagatttggtaa	16	11	11	3	0	0	2	0	0	0	2	0	3	0	3	0	3	2	5	0	3	6	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr18:59925233A>C	uc002lil.2	+	14	2164	c.1949A>C	c.(1948-1950)GAA>GCA	p.E650A	KIAA1468_uc002lik.1_Missense_Mutation_p.E650A|KIAA1468_uc010xel.1_Missense_Mutation_p.E650A|KIAA1468_uc002lim.2_Missense_Mutation_p.E294A	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	650	HEAT 2.						binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				ATGTTAATGGAAGATAAGGCA	0.333													28	15					0	0	0.009535	0	0		C	59925233	C	C	59925233	3	2	131	1	0	0	0	0	1	0	0	0	8252	246	9	5	2003	5	KIAA1468	18	59925233	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	8036998	59925233	18152015	127	72353											
TMEM59L	25789	broad.mit.edu	37	chr19	18729278	18729278	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctccaccctggtgaccgcGcctggccagcacctcaagtt	6	8	10	17	2	1	1	1	1	0	0	2	1	2	1	6	2	2	3	6	2	1	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:18729278G>A	uc002njy.3	+	7	963	c.876G>A	c.(874-876)GCG>GCA	p.A292A		NM_012109	NP_036241	Q9UK28	TM59L_HUMAN	brain-specific membrane-anchored protein	292						Golgi membrane|integral to membrane|membrane fraction				ovary(2)|skin(2)	4						TGGTGACCGCGCCTGGCCAGC	0.657													6	8					0	0	0.00308	0	0		A	18729278	A	A	18729278	2	1	131	1	0	0	0	0	0	0	0	1	16211	1074	38	1		1	TMEM59L	19	18729278	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08		18729278	40399705	128	72354											
ZNF345	25850	broad.mit.edu	37	chr19	37369000	37369000	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagaatacacactggtgAgaaaccctatgaatgtaagg	16	7	10	8	0	0	3	0	2	0	2	0	5	0	3	2	2	2	1	2	2	6	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:37369000A>G	uc002oex.2	+	3	1646	c.1268A>G	c.(1267-1269)GAG>GGG	p.E423G	ZNF345_uc002oey.3_Missense_Mutation_p.E423G|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	423					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CACACTGGTGAGAAACCCTAT	0.408													44	88					0	0	0.00874	0	0		G	37369000	G	G	37369000	3	3	131	1	0	0	0	0	1	0	0	0	17884	304	11	3	1270	3	ZNF345	19	37369000	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	18639722	37369000	21759983	129	72355											
ZNF569	148266	broad.mit.edu	37	chr19	37904383	37904383	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacagtaagggctgagctttGagagaaggcttttccacact	11	11	11	8	0	0	3	0	2	0	1	1	4	1	3	1	2	2	4	1	2	3	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:37904383G>C	uc002ogi.2	-	6	1735	c.1177C>G	c.(1177-1179)CAA>GAA	p.Q393E	ZNF569_uc002ogh.2_Missense_Mutation_p.Q234E|ZNF569_uc002ogj.2_Missense_Mutation_p.Q417E	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	393	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GCTGAGCTTTGAGAGAAGGCT	0.388													36	141					0	0	0.005524	0	0		C	37904383	C	C	37904383	3	2	131	1	0	0	0	0	1	0	0	0	18025	1299	45	5	887	5	ZNF569	19	37904383	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	535383	37904383	21224600	130	72356											
RYR1	6261	broad.mit.edu	37	chr19	39019004	39019004	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcttttgtccaaacagcGccggcgggcagtcgtggcct	7	8	13	13	4	0	0	0	0	0	0	2	0	1	0	3	3	3	2	3	3	2	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:39019004G>T	uc002oit.2	+	74	11013	c.10883G>T	c.(10882-10884)CGC>CTC	p.R3628L	RYR1_uc002oiu.2_Missense_Mutation_p.R3623L|RYR1_uc002oiv.1_Missense_Mutation_p.R543L|RYR1_uc010xuf.1_Missense_Mutation_p.R548L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3628					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TCCAAACAGCGCCGGCGGGCA	0.612													9	139					0.000442599	0.000488703	0.006214	1	0		T	39019004	T	T	39019004	3	4	131	1	0	0	0	0	1	0	0	0	13793	1087	38	5	11177	5	RYR1	19	39019004	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	1114621	39019004	20109979	131	72357											
FCGBP	8857	broad.mit.edu	37	chr19	40368443	40368443	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacacagcccttgaagaagCtctcaggtggcacatgagca	13	6	11	11	0	1	3	1	2	1	1	2	4	1	3	1	2	4	3	1	2	3	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:40368443C>G	uc002omp.3	-	28	12913	c.12905G>C	c.(12904-12906)AGC>ACC	p.S4302T		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4302						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CTTGAAGAAGCTCTCAGGTGG	0.627													9	156					0	0	0.012319	0	0		G	40368443	G	G	40368443	3	3	131	1	0	0	0	0	1	0	0	0	5792	797	28	5	3348	5	FCGBP	19	40368443	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	1349439	40368443	18760540	132	72358											
MAP3K10	4294	broad.mit.edu	37	chr19	40719571	40719571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgtccgcgccccccgctcGgtggggacacggcgcccggc	2	3	16	20	8	0	0	0	0	0	0	2	1	1	1	6	5	0	1	6	5	0	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:40719571G>A	uc002ona.2	+	9	2273	c.1985G>A	c.(1984-1986)CGG>CAG	p.R662Q	MAP3K10_uc002onb.2_Missense_Mutation_p.R51Q	NM_002446	NP_002437	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase	662					activation of JUN kinase activity|induction of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of JNK cascade|protein autophosphorylation|smoothened signaling pathway	cytoplasm	ATP binding|bHLH transcription factor binding|JUN kinase kinase kinase activity|protein homodimerization activity|transcription corepressor activity			ovary(2)|lung(2)|skin(1)|pancreas(1)	6						ccccccgcTCGGTGGGGACAC	0.577													2	1					0	0	0.004672	0	0		A	40719571	A	A	40719571	3	1	131	1	0	0	0	0	1	0	0	0	9262	1116	39	1	2019	1	MAP3K10	19	40719571	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	351128	40719571	18409412	133	72359											
HIPK4	147746	broad.mit.edu	37	chr19	40889902	40889902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgcagctcagccatgaCgcagcccagggaccacacgt	10	4	12	15	2	1	1	1	1	0	0	1	2	1	2	3	2	4	3	3	2	0	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:40889902C>T	uc002onp.2	-	2	895	c.610G>A	c.(610-612)GTC>ATC	p.V204I		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	204	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			TCAGCCATGACGCAGCCCAGG	0.642													31	73					0	0	0.010818	0	0		T	40889902	T	T	40889902	3	4	131	1	0	0	0	0	1	0	0	0	7135	536	19	1	1252	1	HIPK4	19	40889902	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	170331	40889902	18239081	134	72360											
RAB4B	53916	broad.mit.edu	37	chr19	41289882	41289882	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgcccgcaccctggccaGccccaacatcgtggtcatcc	7	6	10	18	2	1	0	1	0	0	0	3	1	2	1	6	3	3	1	6	3	1	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:41289882G>T	uc002opd.1	+	5	442	c.332G>T	c.(331-333)AGC>ATC	p.S111I	RAB4B_uc002opc.1_RNA|RAB4B_uc002ope.1_Intron|EGLN2_uc010ehd.2_5'UTR|RAB4B_uc002opf.1_Missense_Mutation_p.S137I	NM_016154	NP_057238	P61018	RAB4B_HUMAN	ras-related GTP-binding protein 4b	111					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	intracellular|plasma membrane	GTP binding|GTPase activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			ACCCTGGCCAGCCCCAACATC	0.622													9	63					1.76689e-08	1.99245e-08	0.006214	1	0		T	41289882	T	T	41289882	3	4	131	1	0	0	0	0	1	0	0	0	12972	971	34	5	350	5	RAB4B	19	41289882	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	399980	41289882	17839101	135	72361											
PRR19	284338	broad.mit.edu	37	chr19	42814223	42814223	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgccacaggccttccccCggaggaacctgattcaggat	8	9	11	13	1	1	1	1	1	0	0	2	4	2	4	5	4	2	1	5	4	1	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:42814223C>G	uc002oti.2	+	2	865	c.487C>G	c.(487-489)CGG>GGG	p.R163G	PRR19_uc002oth.1_Missense_Mutation_p.R163G|PRR19_uc002otj.2_Missense_Mutation_p.R163G	NM_199285	NP_954979	A6NJB7	PRR19_HUMAN	proline rich 19	163											0		Prostate(69;0.00682)				GGCCTTCCCCCGGAGGAACCT	0.637													9	69					0	0	0.006214	0	0		G	42814223	G	G	42814223	3	3	131	1	0	0	0	0	1	0	0	0	12613	643	23	5	489	5	PRR19	19	42814223	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	1524341	42814223	16314760	136	72362											
PSG1	5669	broad.mit.edu	37	chr19	43382106	43382106	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtccagttactcctctagtcCcatcatctccctttatgatg	7	15	5	14	0	3	1	1	1	2	0	7	1	6	1	4	0	1	1	4	0	3	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:43382106C>G	uc002ovb.2	-	2	527	c.389G>C	c.(388-390)GGG>GCG	p.G130A	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Missense_Mutation_p.G130A|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_RNA|PSG1_uc002our.1_Missense_Mutation_p.G130A|PSG1_uc010eio.1_Missense_Mutation_p.G130A|PSG1_uc002oux.1_Missense_Mutation_p.G59A|PSG1_uc002ouy.1_Missense_Mutation_p.G130A|PSG1_uc002ouz.1_Missense_Mutation_p.G130A|PSG1_uc002ova.1_Missense_Mutation_p.G130A|PSG1_uc002ovc.2_Missense_Mutation_p.G130A|PSG1_uc002ovd.1_Missense_Mutation_p.G130A	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	130	Ig-like V-type.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				TCCTCTAGTCCCATCATCTCC	0.507													78	466					0	0	0.01441	0	0		G	43382106	G	G	43382106	3	3	131	1	0	0	0	0	1	0	0	0	12675	623	22	5	943	5	PSG1	19	43382106	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	567883	43382106	15746877	137	72363											
ZNF473	25888	broad.mit.edu	37	chr19	50548396	50548396	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcactggatcactcatacTagggagaaacccactgtcca	13	7	8	13	0	2	1	2	0	0	1	3	3	3	2	2	2	3	1	2	2	3	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:50548396T>G	uc002prn.2	+	5	933	c.696T>G	c.(694-696)ACT>ACG	p.T232T	ZNF473_uc002prm.2_Silent_p.T232T|ZNF473_uc010ybo.1_Silent_p.T220T	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	232					histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		TCACTCATACTAGGGAGAAAC	0.463													71	111					0	0	0.01441	0	0		G	50548396	G	G	50548396	2	3	131	1	0	0	0	0	0	0	0	1	17956	1509	53	5		5	ZNF473	19	50548396	Silent	SNP	T	TCGA-CG-4438-01A-01D-1158-08	7166290	50548396	8580587	138	72364											
ZFP28	140612	broad.mit.edu	37	chr19	57065109	57065109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaagcaagattcatatgctGaaggggtaacagacagaacc	17	6	10	8	0	1	4	1	1	0	3	1	4	1	4	1	2	4	3	1	2	6	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:57065109G>A	uc002qnj.2	+	8	1026	c.955G>A	c.(955-957)GAA>AAA	p.E319K	uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	319					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		TTCATATGCTGAAGGGGTAAC	0.403													11	112					0	0	0.013537	0	0		A	57065109	A	A	57065109	3	1	131	1	0	0	0	0	1	0	0	0	17667	1291	45	4	985	4	ZFP28	19	57065109	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	6516713	57065109	2063874	139	72365											
PEG3	5178	broad.mit.edu	37	chr19	57325084	57325084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtctggcgagggacaggcGgtcattgaagagctgcccac	8	7	16	10	2	2	2	1	1	1	1	2	4	2	3	1	4	2	1	1	4	1	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:57325084G>A	uc002qnu.2	-	7	5077	c.4726C>T	c.(4726-4728)CGC>TGC	p.R1576C	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.R1547C|PEG3_uc002qnv.2_Missense_Mutation_p.R1576C|PEG3_uc002qnw.2_Missense_Mutation_p.R1452C|PEG3_uc002qnx.2_Missense_Mutation_p.R1450C|PEG3_uc010etr.2_Missense_Mutation_p.R1576C|PEG3AS_uc010ets.1_RNA	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1576	C2H2-type 12.		R -> L.		apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		AGGGACAGGCGGTCATTGAAG	0.532													31	47					0	0	0.012213	0	0		A	57325084	A	A	57325084	3	1	131	1	0	0	0	0	1	0	0	0	11739	1116	39	1	44	1	PEG3	19	57325084	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	259975	57325084	1803899	140	72366											
ZNF543	125919	broad.mit.edu	37	chr19	57840315	57840315	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaccgcagctcacacctcacGaggcaccaacagattcacac	14	4	6	17	2	3	1	3	0	0	1	3	2	3	1	3	1	3	3	3	1	2	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:57840315G>A	uc002qoi.1	+	4	1830	c.1485G>A	c.(1483-1485)ACG>ACA	p.T495T		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	495	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		CACACCTCACGAGGCACCAAC	0.522													19	90					0	0	0.012319	0	0		A	57840315	A	A	57840315	2	1	131	1	0	0	0	0	0	0	0	1	18001	1045	37	1		1	ZNF543	19	57840315	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08	515231	57840315	1288668	141	72367											
ZNF552	79818	broad.mit.edu	37	chr19	58319637	58319637	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgtagagctgtgggtaaatGacttcccacaatcactgcat	12	11	9	9	0	1	2	1	1	0	1	2	2	2	2	1	1	2	4	1	1	4	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr19:58319637G>C	uc002qqg.2	-	3	1165	c.995C>G	c.(994-996)TCA>TGA	p.S332*	ZNF587_uc002qqb.2_Intron|ZNF552_uc010yhg.1_Nonsense_Mutation_p.S328*	NM_024762	NP_079038	Q9H707	ZN552_HUMAN	zinc finger protein 552	332	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		GTGGGTAAATGACTTCCCACA	0.448													4	144					0	0	0.009096	0	0		C	58319637	C	C	58319637	4	2	131	1	0	0	0	0	0	1	0	0	18009	1294	45	5	232	5	ZNF552	19	58319637	Nonsense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	479322	58319637	809346	142	72368											
SIRPB1	10326	broad.mit.edu	37	chr20	1546812	1546812	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacttacagtcaggccttctGtttccagcagatgtagatgg	10	12	10	9	0	2	2	1	0	1	2	3	2	3	2	2	2	3	3	2	2	3	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr20:1546812G>A	uc010gai.2	-	5	1285	c.1186C>T	c.(1186-1188)CAG>TAG	p.Q396*	SIRPB1_uc002wfk.3_Nonsense_Mutation_p.Q179*	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	396	Cytoplasmic (Potential).				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						CAGGCCTTCTGTTTCCAGCAG	0.587													5	32					0	0	0.001168	0	0		A	1546812	A	A	1546812	4	1	131	1	0	0	0	0	0	1	0	0	14358	1386	48	4	14	4	SIRPB1	20	1546812	Nonsense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08		1546812	61478708	143	72369											
PDYN	5173	broad.mit.edu	37	chr20	1963678	1963678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgacaggcagtccgctgtgGtggaggggaacatgaggagg	9	5	20	7	2	0	1	0	1	0	0	1	5	1	4	1	7	1	2	1	7	1	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr20:1963678G>A	uc010gaj.2	-	2	295	c.53C>T	c.(52-54)ACC>ATC	p.T18I	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.T18I|PDYN_uc010zpt.1_Intron	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	18					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						GTCCGCTGTGGTGGAGGGGAA	0.562													26	87					0	0	0.008361	0	0		A	1963678	A	A	1963678	3	1	131	1	0	0	0	0	1	0	0	0	11718	1261	44	4	719	4	PDYN	20	1963678	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	416866	1963678	61061842	144	72370											
IDH3B	3420	broad.mit.edu	37	chr20	2639420	2639420	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctccctttagtctgcaggtGaccgatgacagacttgatga	9	11	11	10	1	1	5	0	4	1	1	2	6	2	5	2	1	1	2	2	1	1	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr20:2639420G>C	uc002wgp.2	-	12	1144	c.1135C>G	c.(1135-1137)CAC>GAC	p.H379D	IDH3B_uc002wgq.2_Intron|IDH3B_uc002wgr.2_Missense_Mutation_p.H227D	NM_006899	NP_008830	O43837	IDH3B_HUMAN	isocitrate dehydrogenase 3, beta subunit isoform	379					isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	electron carrier activity|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0					NADH(DB00157)	GTCTGCAGGTGACCGATGACA	0.562													9	288					0	0	0.004482	0	0		C	2639420	C	C	2639420	3	2	131	1	0	0	0	0	1	0	0	0	7513	1290	45	5	111	5	IDH3B	20	2639420	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	675742	2639420	60386100	145	72371											
PLCB1	23236	broad.mit.edu	37	chr20	8745967	8745967	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactacttgagaaggagagcCgctttggaaaagtccgccaa	13	7	12	9	2	0	2	0	1	0	2	1	6	1	3	3	2	2	1	3	2	5	3			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr20:8745967C>T	uc002wnb.2	+	26	2895	c.2892C>T	c.(2890-2892)GCC>GCT	p.A964A	PLCB1_uc010zrb.1_Silent_p.A863A|PLCB1_uc002wna.2_Silent_p.A964A|PLCB1_uc002wnc.1_Silent_p.A863A|PLCB1_uc002wnd.1_Silent_p.A541A	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	964					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						GAAGGAGAGCCGCTTTGGAAA	0.358													11	100					0	0	0.010729	0	0		T	8745967	T	T	8745967	2	4	131	1	0	0	0	0	0	0	0	1	12046	639	23	1		1	PLCB1	20	8745967	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	6106547	8745967	54279553	146	72372											
RBM39	9584	broad.mit.edu	37	chr20	34297154	34297154	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcaactcaccttcagtcTgctgggaaagtcttgtttgc	8	14	8	11	0	5	0	3	0	2	0	5	1	5	1	1	1	3	2	1	1	2	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr20:34297154T>C	uc002xeb.2	-	13	1561	c.1217A>G	c.(1216-1218)CAG>CGG	p.Q406R	RBM39_uc002xdz.2_Missense_Mutation_p.Q382R|RBM39_uc002xea.2_Missense_Mutation_p.Q249R|RBM39_uc010gfn.2_Missense_Mutation_p.Q249R|RBM39_uc010zvm.1_Missense_Mutation_p.Q378R|RBM39_uc002xeg.2_Missense_Mutation_p.Q384R|RBM39_uc002xec.2_Missense_Mutation_p.Q400R|RBM39_uc002xed.2_Missense_Mutation_p.Q124R|RBM39_uc002xee.2_Missense_Mutation_p.Q249R|RBM39_uc002xef.2_Missense_Mutation_p.Q243R|RBM39_uc010zvn.1_Missense_Mutation_p.Q249R	NM_184234	NP_909122	Q14498	RBM39_HUMAN	RNA binding motif protein 39 isoform a	406	Interaction with ESR1 and ESR2 (By similarity).|Interaction with NCOA6 (By similarity).|Interaction with JUN (By similarity).				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	centrosome|nuclear speck	nucleotide binding|protein binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_epithelial(2;0.00295)|Lung NSC(9;0.00453)|Breast(12;0.00544)|all_lung(11;0.00676)					ACCTTCAGTCTGCTGGGAAAG	0.313													13	177					0	0	0.016723	0	0		C	34297154	C	C	34297154	3	2	131	1	0	0	0	0	1	0	0	0	13158	1580	55	3	395	3	RBM39	20	34297154	Missense_Mutation	SNP	T	TCGA-CG-4438-01A-01D-1158-08	25551187	34297154	28728366	147	72373											
TOX2	84969	broad.mit.edu	37	chr20	42680082	42680082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catctcgcagatgggcatccGgagcagcatcgcccacagct	9	6	11	15	3	1	1	0	0	1	1	4	2	2	2	2	2	3	5	2	2	0	0			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr20:42680082G>A	uc002xlf.3	+	4	592	c.575G>A	c.(574-576)CGG>CAG	p.R192Q	TOX2_uc010ggo.2_Missense_Mutation_p.R183Q|TOX2_uc002xle.3_Missense_Mutation_p.R141Q|TOX2_uc010ggp.2_Missense_Mutation_p.R141Q|TOX2_uc002xlg.2_Missense_Mutation_p.R141Q|TOX2_uc010zwk.1_Missense_Mutation_p.R61Q	NM_001098798	NP_001092268	Q96NM4	TOX2_HUMAN	TOX high mobility group box family member 2	192					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)			ATGGGCATCCGGAGCAGCATC	0.677													16	50					0	0	0.016522	0	0		A	42680082	A	A	42680082	3	1	131	1	0	0	0	0	1	0	0	0	16404	1116	39	1	692	1	TOX2	20	42680082	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	8382928	42680082	20345438	148	72374											
ZFP64	55734	broad.mit.edu	37	chr20	50769645	50769645	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcggtgcagtggatacgCtcgtggatgcgcagggcggc	5	7	19	10	6	0	0	0	0	0	0	2	2	0	2	0	6	3	3	0	6	1	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr20:50769645C>T	uc002xwl.2	-	6	1435	c.1086G>A	c.(1084-1086)GAG>GAA	p.E362E	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Silent_p.E360E|ZFP64_uc002xwn.2_Silent_p.E308E	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	362	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						AGTGGATACGCTCGTGGATGC	0.602													73	110					0	0	0.01441	0	0		T	50769645	T	T	50769645	2	4	131	1	0	0	0	0	0	0	0	1	17677	796	28	2		2	ZFP64	20	50769645	Silent	SNP	C	TCGA-CG-4438-01A-01D-1158-08	8089563	50769645	12255875	149	72375											
OGFR	11054	broad.mit.edu	37	chr20	61440999	61440999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgacctccttgaggacaatCactcctacatccagtggtga	11	10	8	12	0	1	3	1	3	0	0	4	4	4	4	4	2	1	0	4	2	2	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr20:61440999C>T	uc002ydj.2	+	4	417	c.382C>T	c.(382-384)CAC>TAC	p.H128Y	OGFR_uc002ydk.2_Missense_Mutation_p.H111Y|OGFR_uc002ydl.2_Missense_Mutation_p.H76Y	NM_007346	NP_031372	Q9NZT2	OGFR_HUMAN	opioid growth factor receptor	128					regulation of cell growth	cytoplasm|membrane|nucleus	opioid receptor activity				0	Breast(26;3.65e-08)					TGAGGACAATCACTCCTACAT	0.617													15	186					0	0	0.007413	0	0		T	61440999	T	T	61440999	3	4	131	1	0	0	0	0	1	0	0	0	10862	826	29	4	396	4	OGFR	20	61440999	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	10671354	61440999	1584521	150	72376											
KCNQ2	3785	broad.mit.edu	37	chr20	62044861	62044861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggccggctgagtactgctCgatgacgtccatcacgtcgt	6	10	13	12	5	1	2	1	2	0	0	4	3	2	2	2	2	2	3	2	2	1	1			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr20:62044861C>T	uc002yey.1	-	15	1882	c.1705G>A	c.(1705-1707)GAG>AAG	p.E569K	KCNQ2_uc002yez.1_Missense_Mutation_p.E538K|KCNQ2_uc002yfa.1_Missense_Mutation_p.E551K|KCNQ2_uc002yfb.1_Missense_Mutation_p.E541K	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	569	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	GAGTACTGCTCGATGACGTCC	0.632													78	240					0	0	0.01441	0	0		T	62044861	T	T	62044861	3	4	131	1	0	0	0	0	1	0	0	0	8099	893	31	1	925	1	KCNQ2	20	62044861	Missense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	603862	62044861	980659	151	72377											
USP16	10600	broad.mit.edu	37	chr21	30415748	30415748	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttatctatattttaagagtgGtaagaaaagtgtaaatgata	17	15	8	1	0	1	3	0	1	1	2	1	3	1	3	0	1	0	2	0	1	10	8			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr21:30415748G>C	uc002ymy.2	+	13	1386	c.1184G>C	c.(1183-1185)GGT>GCT	p.G395A	USP16_uc002ymx.2_Missense_Mutation_p.G394A|USP16_uc002ymw.2_Missense_Mutation_p.G395A|USP16_uc011acm.1_Missense_Mutation_p.G380A|USP16_uc011acn.1_Missense_Mutation_p.G61A|USP16_uc011aco.1_Missense_Mutation_p.G85A	NM_006447	NP_006438	Q9Y5T5	UBP16_HUMAN	ubiquitin specific protease 16 isoform a	395					cell division|histone deubiquitination|mitosis|positive regulation of transcription, DNA-dependent|protein homotetramerization|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|histone binding|transcription coactivator activity|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(2)|breast(1)|pancreas(1)	4						TTTAAGAGTGGTAAGAAAAGT	0.279													8	17					0	0	0.00308	0	0		C	30415748	C	C	30415748	3	2	131	1	0	0	0	0	1	0	0	0	17073	1261	44	5	1230	5	USP16	21	30415748	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08		30415748	17714147	152	72378											
DIP2A	23181	broad.mit.edu	37	chr21	47976888	47976888	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcgccttatgccgctccAtaaagctgcagtgtgagctg	9	9	11	12	2	0	1	0	1	0	0	1	1	1	1	3	0	5	4	3	0	4	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr21:47976888A>G	uc002zjo.2	+	30	3718	c.3535A>G	c.(3535-3537)ATA>GTA	p.I1179V	DIP2A_uc011afz.1_Missense_Mutation_p.I1175V|DIP2A_uc002zjr.2_Missense_Mutation_p.I146V	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1179					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		ATGCCGCTCCATAAAGCTGCA	0.517													4	4					0	0	0.001168	0	0		G	47976888	G	G	47976888	3	3	131	1	0	0	0	0	1	0	0	0	4533	217	8	3	3766	3	DIP2A	21	47976888	Missense_Mutation	SNP	A	TCGA-CG-4438-01A-01D-1158-08	17561140	47976888	153007	153	72379											
APOL3	80833	broad.mit.edu	37	chr22	36537683	36537683	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accttcaatcggtcaatgctGgttgcagtcagcctgctggc	7	11	11	12	1	3	0	3	0	0	0	4	0	3	0	2	3	4	4	2	3	2	2			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chr22:36537683G>A	uc003aot.2	-	3	812	c.774C>T	c.(772-774)ACC>ACT	p.T258T	APOL3_uc003aoq.2_Silent_p.T187T|APOL3_uc003aor.2_Silent_p.T187T|APOL3_uc003aos.2_Silent_p.T187T|APOL3_uc003aou.2_Silent_p.T58T|APOL3_uc003aov.2_Silent_p.T58T	NM_145640	NP_663615	O95236	APOL3_HUMAN	apolipoprotein L3 isoform 1	258					inflammatory response|lipoprotein metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|extracellular region	lipid binding|lipid transporter activity|signal transducer activity				0						GGTCAATGCTGGTTGCAGTCA	0.483													15	48					0	0	0.004007	0	0		A	36537683	A	A	36537683	2	1	131	1	0	0	0	0	0	0	0	1	807	1335	47	4		4	APOL3	22	36537683	Silent	SNP	G	TCGA-CG-4438-01A-01D-1158-08		36537683	14766883	154	72380											
PRDX4	10549	broad.mit.edu	37	chrX	23697385	23697385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	actatggtgtatacctagagGactcaggccacactcttagg	11	10	10	10	0	2	1	1	0	1	1	2	2	2	2	2	4	1	1	2	4	5	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chrX:23697385G>A	uc004dam.2	+	4	623	c.580G>A	c.(580-582)GAC>AAC	p.D194N		NM_006406	NP_006397	Q13162	PRDX4_HUMAN	peroxiredoxin 4	194	Thioredoxin.				cell redox homeostasis|I-kappaB phosphorylation		thioredoxin peroxidase activity			upper_aerodigestive_tract(1)	1						ATACCTAGAGGACTCAGGCCA	0.393													57	78					0	0	0.01441	0	0		A	23697385	A	A	23697385	3	1	131	1	0	0	0	0	1	0	0	0	12489	1174	41	4	594	4	PRDX4	23	23697385	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08		23697385	131573175	155	72381											
MED12	9968	broad.mit.edu	37	chrX	70344686	70344686	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgaggacatggagaagcctGatttctcagtaagttcaatc	12	12	10	7	0	2	3	2	2	1	1	4	5	2	4	1	2	1	2	1	2	3	4			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chrX:70344686G>C	uc004dyy.2	+	14	2246	c.2047G>C	c.(2047-2049)GAT>CAT	p.D683H	MED12_uc011mpq.1_Missense_Mutation_p.D683H|MED12_uc004dyz.2_Missense_Mutation_p.D683H|MED12_uc004dza.2_Missense_Mutation_p.D530H	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	683					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					GGAGAAGCCTGATTTCTCAGT	0.468													7	31					0	0	0.001984	0	0		C	70344686	C	C	70344686	3	2	131	1	0	0	0	0	1	0	0	0	9446	1290	45	5	2101	5	MED12	23	70344686	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	46647301	70344686	84925874	156	72382											
ATP7A	538	broad.mit.edu	37	chrX	77243797	77243797	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctaaactacagactccaaaGaccctacaggaagctattga	16	7	6	12	0	0	3	0	1	0	2	1	4	1	4	3	1	4	1	3	1	7	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chrX:77243797G>C	uc004ecx.3	+	3	340	c.180G>C	c.(178-180)AAG>AAC	p.K60N	ATP7A_uc004ecw.2_Missense_Mutation_p.K60N	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	60	HMA 1.|Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						AGACTCCAAAGACCCTACAGG	0.378													55	233					0	0	0.01441	0	0		C	77243797	C	C	77243797	3	2	131	1	0	0	0	0	1	0	0	0	1191	933	33	5	186	5	ATP7A	23	77243797	Missense_Mutation	SNP	G	TCGA-CG-4438-01A-01D-1158-08	6899111	77243797	78026763	157	72383											
DACH2	117154	broad.mit.edu	37	chrX	86069699	86069699	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttacatttcagctactatgCaaaagcgcctgaagaaggag	14	10	9	8	1	1	2	1	1	0	1	1	3	1	3	1	1	5	2	1	1	7	5			TCGA-CG-4438-01A-01D-1158-08	TCGA-CG-4438-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	0865b5f7-872c-4a12-9c56-920b1a0e9507	cd292dea-13b3-44d2-a0bd-dc31297be244	g.chrX:86069699C>T	uc004eew.2	+	10	1716	c.1546C>T	c.(1546-1548)CAA>TAA	p.Q516*	DACH2_uc004eex.2_Nonsense_Mutation_p.Q503*|DACH2_uc010nmq.2_Nonsense_Mutation_p.Q382*|DACH2_uc011mra.1_Nonsense_Mutation_p.Q349*|DACH2_uc010nmr.2_Nonsense_Mutation_p.Q297*|DACH2_uc004eey.2_Nonsense_Mutation_p.Q209*|DACH2_uc004eez.2_Nonsense_Mutation_p.Q199*	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	516	Potential.|DACHbox-C.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						AGCTACTATGCAAAAGCGCCT	0.398													17	6					0	0	0.012319	0	0		T	86069699	T	T	86069699	4	4	131	1	0	0	0	0	0	1	0	0	4224	711	25	2	1584	2	DACH2	23	86069699	Nonsense_Mutation	SNP	C	TCGA-CG-4438-01A-01D-1158-08	8825902	86069699	69200861	158	72384											
VPS13D	55187	broad.mit.edu	37	chr1	12395817	12395817	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattactgtaaagatgacaaGgacatagagtcagctaaatc	17	9	9	6	0	1	3	1	1	0	2	2	5	1	4	0	1	2	2	0	1	7	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr1:12395817G>T	uc001atv.2	+	39	8625	c.8484G>T	c.(8482-8484)AAG>AAT	p.K2828N	VPS13D_uc001atw.2_Missense_Mutation_p.K2828N|VPS13D_uc001atx.2_Missense_Mutation_p.K2016N|VPS13D_uc001aty.1_Missense_Mutation_p.K566N	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2828					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AAGATGACAAGGACATAGAGT	0.393													27	146					8.24728e-16	9.21755e-16	0.004656	1	0		T	12395817	T	T	12395817	3	4	132	1	0	0	0	0	1	0	0	0	17218	991	35	5	8634	5	VPS13D	1	12395817	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08		12395817	236854804	1	72385											
ALDH4A1	8659	broad.mit.edu	37	chr1	19208375	19208375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggcttccataggaccaCgttgccctgcccgggaggtg	6	8	14	13	2	0	0	0	0	0	0	1	2	1	2	4	4	2	2	4	4	1	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr1:19208375C>T	uc001bbb.2	-	8	961	c.685G>A	c.(685-687)GTG>ATG	p.V229M	ALDH4A1_uc010ocu.1_Missense_Mutation_p.V169M|ALDH4A1_uc001bbc.2_Missense_Mutation_p.V229M	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	229					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	CATAGGACCACGTTGCCCTGC	0.617													7	33					0	0	0.00308	0	0		T	19208375	T	T	19208375	3	4	132	1	0	0	0	0	1	0	0	0	501	536	19	1	1038	1	ALDH4A1	1	19208375	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	6812558	19208375	230042246	2	72386											
EPHB2	2048	broad.mit.edu	37	chr1	23237000	23237000	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcccaagttcggccaaatTgtcaacacgctagacaagat	13	7	9	12	3	1	2	1	0	0	2	2	2	1	2	2	2	1	2	2	2	5	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr1:23237000T>G	uc009vqj.1	+	14	2773	c.2628T>G	c.(2626-2628)ATT>ATG	p.I876M	EPHB2_uc001bge.2_Missense_Mutation_p.I877M|EPHB2_uc001bgf.2_Missense_Mutation_p.I876M|EPHB2_uc010odu.1_Missense_Mutation_p.I818M	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	876	Cytoplasmic (Potential).|Protein kinase.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		TCGGCCAAATTGTCAACACGC	0.632									Hereditary_Prostate_Cancer				20	59					0	0	0.014323	0	0		G	23237000	G	G	23237000	3	3	132	1	0	0	0	0	1	0	0	0	5183	1800	63	5	2685	5	EPHB2	1	23237000	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	4028625	23237000	226013621	3	72387											
FAM159A	348378	broad.mit.edu	37	chr1	53108542	53108542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctcttcccagcattggcGctctcataggcctgtccgta	5	13	8	15	2	2	0	1	0	2	0	6	0	4	0	3	2	1	3	3	2	2	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr1:53108542G>A	uc001cuf.2	+	2	290	c.190G>A	c.(190-192)GCT>ACT	p.A64T	FAM159A_uc001cug.1_RNA|FAM159A_uc001cuh.2_RNA	NM_001042693	NP_001036158	Q6UWV7	F159A_HUMAN	hypothetical protein LOC348378	64	Helical; (Potential).					integral to membrane					0						CAGCATTGGCGCTCTCATAGG	0.512													102	554					0	0	0.01441	0	0		A	53108542	A	A	53108542	3	1	132	1	0	0	0	0	1	0	0	0	5479	1087	38	1	196	1	FAM159A	1	53108542	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	29871542	53108542	196142079	4	72388											
HSD3B1	3283	broad.mit.edu	37	chr1	120050104	120050104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctactttggatggccatgaCgggctggagctgccttgtga	6	11	15	9	1	0	2	0	2	0	0	0	4	0	4	2	4	3	3	2	4	1	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr1:120050104C>T	uc001ehv.1	+	2	150	c.5C>T	c.(4-6)ACG>ATG	p.T2M	HSD3B1_uc001ehw.2_Missense_Mutation_p.T4M	NM_000862	NP_000853	P14060	3BHS1_HUMAN	3 beta-hydroxysteroid dehydrogenase 1	2					androgen biosynthetic process|estrogen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.219)	all_lung(203;3.16e-06)|Lung NSC(69;2.19e-05)|all_epithelial(167;0.000624)		Lung(183;0.0106)|LUSC - Lung squamous cell carcinoma(189;0.0554)	NADH(DB00157)|Trilostane(DB01108)	ATGGCCATGACGGGCTGGAGC	0.542													20	76					0	0	0.012319	0	0		T	120050104	T	T	120050104	3	4	132	1	0	0	0	0	1	0	0	0	7406	536	19	1	7	1	HSD3B1	1	120050104	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	66941562	120050104	129200517	5	72389											
NPR1	4881	broad.mit.edu	37	chr1	153661563	153661563	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgaggccctgctctaccAgatcctgcctcagtgagtgc	6	9	12	14	0	2	3	1	2	1	1	3	3	3	3	4	2	4	2	4	2	1	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr1:153661563A>G	uc001fcs.3	+	16	2973	c.2552A>G	c.(2551-2553)CAG>CGG	p.Q851R	NPR1_uc010pdz.1_Missense_Mutation_p.Q597R|NPR1_uc010pea.1_Missense_Mutation_p.Q329R	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	851	Cytoplasmic (Potential).				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	CTGCTCTACCAGATCCTGCCT	0.627													44	353					0	0	0.01441	0	0		G	153661563	G	G	153661563	3	3	132	1	0	0	0	0	1	0	0	0	10613	188	7	3	2614	3	NPR1	1	153661563	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08	33611459	153661563	95589058	6	72390											
AQP10	89872	broad.mit.edu	37	chr1	154294533	154294533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctacgtgggtggtaacgtctCaggtgaggagggtggggtct	6	10	19	6	2	2	1	1	1	2	0	3	2	2	2	0	7	2	1	0	7	2	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr1:154294533C>T	uc001feu.2	+	2	270	c.230C>T	c.(229-231)TCA>TTA	p.S77L	AQP10_uc001fev.2_Missense_Mutation_p.S77L	NM_080429	NP_536354	Q96PS8	AQP10_HUMAN	aquaporin 10	77	Cytoplasmic (Potential).				response to toxin|transmembrane transport|water transport	integral to membrane|plasma membrane	transporter activity			central_nervous_system(1)	1	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GGTAACGTCTCAGGTGAGGAG	0.542													6	44					0	0	0.008291	0	0		T	154294533	T	T	154294533	3	4	132	1	0	0	0	0	1	0	0	0	822	838	29	4	236	4	AQP10	1	154294533	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	632970	154294533	94956088	7	72391											
FCRLA	84824	broad.mit.edu	37	chr1	161680576	161680576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttttgagacgctgcagtgtGagggacctgtctgcactgag	7	11	15	8	1	1	3	0	3	1	1	1	5	1	4	1	1	2	4	1	1	0	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr1:161680576G>A	uc001gbe.2	+	3	417	c.175G>A	c.(175-177)GAG>AAG	p.E59K	FCRLA_uc001gbd.2_Missense_Mutation_p.E53K|FCRLA_uc001gbf.2_Missense_Mutation_p.E53K|FCRLA_uc001gbg.2_Intron|FCRLA_uc009wuo.2_Intron|FCRLA_uc009wup.2_Missense_Mutation_p.E53K|FCRLA_uc009wuq.2_Intron	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	36					cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			GCTGCAGTGTGAGGGACCTGT	0.542													20	41					0	0	0.012319	0	0		A	161680576	A	A	161680576	3	1	132	1	0	0	0	0	1	0	0	0	5814	1291	45	4	185	4	FCRLA	1	161680576	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	7386043	161680576	87570045	8	72392											
C1orf112	55732	broad.mit.edu	37	chr1	169816931	169816931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaggaaaactttttatacCtgaagctatccaggtaatat	14	15	6	6	0	0	1	0	1	0	0	1	2	1	2	2	2	3	2	2	2	9	9			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr1:169816931C>T	uc001ggp.2	+	21	2355	c.2045C>T	c.(2044-2046)CCT>CTT	p.P682L	C1orf112_uc001ggj.2_RNA|C1orf112_uc001ggq.2_Missense_Mutation_p.P682L|C1orf112_uc009wvt.2_Missense_Mutation_p.P359L|C1orf112_uc009wvu.1_Missense_Mutation_p.P558L|C1orf112_uc001ggr.2_Missense_Mutation_p.P547L|C1orf112_uc010plv.1_Missense_Mutation_p.P624L	NM_018186	NP_060656	Q9NSG2	CA112_HUMAN	hypothetical protein LOC55732	682											0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CTTTTTATACCTGAAGCTATC	0.328													19	156					0	0	0.010504	0	0		T	169816931	T	T	169816931	3	4	132	1	0	0	0	0	1	0	0	0	1988	681	24	4	2115	4	C1orf112	1	169816931	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	8136355	169816931	79433690	9	72393											
FMN2	56776	broad.mit.edu	37	chr1	240370099	240370099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgtccttgtcgcccttcagGaagttgttgacatgaagtct	7	14	10	10	1	2	2	1	2	1	0	4	3	3	3	2	1	0	2	2	1	2	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr1:240370099G>A	uc010pyd.1	+	5	2212	c.1987G>A	c.(1987-1989)GAA>AAA	p.E663K	FMN2_uc010pye.1_Missense_Mutation_p.E667K	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	663					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CGCCCTTCAGGAAGTTGTTGA	0.393													8	66					0	0	0.004482	0	0		A	240370099	A	A	240370099	3	1	132	1	0	0	0	0	1	0	0	0	5964	1188	41	4	2005	4	FMN2	1	240370099	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	70553168	240370099	8880522	10	72394											
AHCTF1	25909	broad.mit.edu	37	chr1	247024375	247024375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgacggtgcatcctgatactCtaaggtagtctcatcggatg	9	12	11	9	2	2	2	1	2	2	0	5	3	3	3	1	3	2	2	1	3	3	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr1:247024375C>T	uc001ibu.1	-	28	3965	c.3958G>A	c.(3958-3960)GAG>AAG	p.E1320K	AHCTF1_uc001ibv.1_Missense_Mutation_p.E1329K|AHCTF1_uc009xgs.1_Missense_Mutation_p.E181K|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	1320	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			TCCTGATACTCTAAGGTAGTC	0.453													30	40					0	0	0.009535	0	0		T	247024375	T	T	247024375	3	4	132	1	0	0	0	0	1	0	0	0	408	922	32	4	2874	4	AHCTF1	1	247024375	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	6654276	247024375	2226246	11	72395											
OR6F1	343169	broad.mit.edu	37	chr1	247875864	247875864	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatctccaggaaggagaggTtgctcagaaagaagtacatg	16	7	12	6	0	2	3	1	0	1	3	3	5	2	4	1	3	2	3	1	3	5	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr1:247875864T>G	uc001idj.1	-	1	194	c.194A>C	c.(193-195)AAC>ACC	p.N65T		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			GAAGGAGAGGTTGCTCAGAAA	0.483													53	114					0	0	0.01441	0	0		G	247875864	G	G	247875864	3	3	132	1	0	0	0	0	1	0	0	0	11220	1725	60	5	736	5	OR6F1	1	247875864	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	851489	247875864	1374757	12	72396											
WDR35	57539	broad.mit.edu	37	chr2	20133220	20133220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgactacatttcaaaaatGcagtcactgcttgttcacac	12	13	6	10	0	3	1	3	1	0	0	3	1	3	1	0	0	3	4	0	0	3	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr2:20133220G>A	uc002rdi.2	-	23	2741	c.2633C>T	c.(2632-2634)GCA>GTA	p.A878V	WDR35_uc002rdj.2_Missense_Mutation_p.A867V|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Intron	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	878										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTTCAAAAATGCAGTCACTGC	0.383													49	64					0	0	0.01441	0	0		A	20133220	A	A	20133220	3	1	132	1	0	0	0	0	1	0	0	0	17315	1319	46	2	936	2	WDR35	2	20133220	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08		20133220	223066153	13	72397											
CAPN13	92291	broad.mit.edu	37	chr2	30985951	30985951	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcagccagccttacctgCtcagccccagtcacagtgta	9	7	8	17	0	2	0	2	0	0	0	2	0	2	0	6	0	6	3	6	0	2	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr2:30985951C>T	uc002rnn.2	-	7	947	c.771G>A	c.(769-771)GAG>GAA	p.E257E	CAPN13_uc002rnp.1_Silent_p.E257E	NM_144575	NP_653176	Q6MZZ7	CAN13_HUMAN	calpain 13	257	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			large_intestine(1)|ovary(1)	2	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					GCCTTACCTGCTCAGCCCCAG	0.547													3	11					0	0	0.004672	0	0		T	30985951	T	T	30985951	2	4	132	1	0	0	0	0	0	0	0	1	2629	796	28	2		2	CAPN13	2	30985951	Silent	SNP	C	TCGA-CG-4440-01A-01D-1158-08	10852731	30985951	212213422	14	72398											
UGGT1	56886	broad.mit.edu	37	chr2	128918778	128918778	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacctcctcgaaaatatcAtcttaaaaacctcaggacag	15	9	4	13	1	3	0	2	0	1	0	6	2	5	1	4	1	1	0	4	1	6	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr2:128918778A>C	uc002tps.2	+	25	2939	c.2761A>C	c.(2761-2763)ATC>CTC	p.I921L	UGGT1_uc010fme.1_Missense_Mutation_p.I796L|UGGT1_uc002tpr.2_Missense_Mutation_p.I897L	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	921					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						CGAAAATATCATCTTAAAAAC	0.418													41	191					0	0	0.00874	0	0		C	128918778	C	C	128918778	3	2	132	1	0	0	0	0	1	0	0	0	16967	217	8	5	2859	5	UGGT1	2	128918778	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08	97932827	128918778	114280595	15	72399											
NCKAP5	344148	broad.mit.edu	37	chr2	133540771	133540771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggtagggtcacatttctttCacccgctgtgatctccatgc	6	13	9	13	2	4	1	2	1	2	0	5	1	4	1	2	2	1	2	2	2	1	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr2:133540771C>T	uc002ttp.2	-	14	3987	c.3613G>A	c.(3613-3615)GAA>AAA	p.E1205K	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1205							protein binding				0						ACATTTCTTTCACCCGCTGTG	0.488													54	72					0	0	0.01441	0	0		T	133540771	T	T	133540771	3	4	132	1	0	0	0	0	1	0	0	0	10242	835	29	4	2144	4	NCKAP5	2	133540771	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	4621993	133540771	109658602	16	72400											
PRPF40A	55660	broad.mit.edu	37	chr2	153573876	153573876	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccatttcactcaccatgagGcctccacgctcagctcccgt	7	10	6	18	2	3	1	3	1	0	0	6	1	6	1	5	1	1	2	5	1	0	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr2:153573876G>T	uc002tyi.2	-	1	46	c.33C>A	c.(31-33)GGC>GGA	p.G11G	ARL6IP6_uc002tyn.2_5'Flank|ARL6IP6_uc002tym.2_5'Flank|ARL6IP6_uc002tyo.2_5'Flank|PRPF40A_uc002tyh.3_Silent_p.G26G|PRPF40A_uc010zcd.1_Silent_p.G26G|PRPF40A_uc002tyj.2_5'UTR|PRPF40A_uc002tyl.1_Silent_p.G11G	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	11					mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						TCACCATGAGGCCTCCACGCT	0.647													12	54					1.5842e-08	1.6826e-08	0.016723	1	0		T	153573876	T	T	153573876	2	4	132	1	0	0	0	0	0	0	0	1	12593	1190	42	5		5	PRPF40A	2	153573876	Silent	SNP	G	TCGA-CG-4440-01A-01D-1158-08	20033105	153573876	89625497	17	72401											
SLC4A10	57282	broad.mit.edu	37	chr2	162751304	162751304	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agaatgggatccaagcattcGaatagagcctcccaaaaatg	16	7	9	9	1	0	2	0	0	0	2	3	4	2	3	3	1	2	1	3	1	6	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr2:162751304G>C	uc002ubx.3	+	11	1494	c.1310G>C	c.(1309-1311)CGA>CCA	p.R437P	SLC4A10_uc010fpa.1_Missense_Mutation_p.R449P|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.R407P|SLC4A10_uc010zcs.1_Missense_Mutation_p.R418P	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	437	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						CCAAGCATTCGAATAGAGCCT	0.353													51	71					0	0	0.01441	0	0		C	162751304	C	C	162751304	3	2	132	1	0	0	0	0	1	0	0	0	14676	1058	37	5	1437	5	SLC4A10	2	162751304	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	9177428	162751304	80448069	18	72402											
PTPRN	5798	broad.mit.edu	37	chr2	220167050	220167050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgaaaaagctgggcaggtGaaggccctggaaggtccccg	10	6	15	10	1	0	2	0	2	0	0	1	3	1	3	3	5	1	2	3	5	4	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr2:220167050G>A	uc002vkz.2	-	6	892	c.803C>T	c.(802-804)TCA>TTA	p.S268L	PTPRN_uc010zlc.1_Missense_Mutation_p.S178L|PTPRN_uc002vla.2_Missense_Mutation_p.S268L	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	268	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		CTGGGCAGGTGAAGGCCCTGG	0.632													6	46					0	0	0.001984	0	0		A	220167050	A	A	220167050	3	1	132	1	0	0	0	0	1	0	0	0	12832	1294	45	4	2208	4	PTPRN	2	220167050	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	57415746	220167050	23032323	19	72403											
UGT1A5	54579	broad.mit.edu	37	chr2	234676494	234676494	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctctttttgcccctcccaGgtcctgtggcggtacactgg	3	13	11	14	1	1	0	0	0	1	0	3	0	3	0	4	4	3	2	4	4	1	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr2:234676494G>A	uc002vuw.2	+	3	1000	c.1000_splice	c.e3-1	p.V334_splice	UGT1A8_uc010zmv.1_Splice_Site_p.V330_splice|UGT1A8_uc002vup.2_Splice_Site_p.V330_splice|UGT1A10_uc002vuq.3_Splice_Site_p.V330_splice|UGT1A10_uc002vur.2_Splice_Site_p.V330_splice|UGT1A9_uc010zmw.1_Splice_Site_p.V330_splice|UGT1A9_uc002vus.2_Splice_Site_p.V330_splice|UGT1A7_uc010zmx.1_Splice_Site_p.V330_splice|UGT1A7_uc002vut.2_Splice_Site_p.V330_splice|UGT1A6_uc002vuu.2_Splice_Site_p.V65_splice|UGT1A6_uc010zmy.1_Splice_Site_p.V332_splice|UGT1A6_uc002vuv.3_Splice_Site_p.V332_splice|UGT1A5_uc010zmz.1_Splice_Site_p.V334_splice|UGT1A4_uc010zna.1_Splice_Site_p.V334_splice|UGT1A4_uc002vux.2_Splice_Site_p.V334_splice|UGT1A3_uc010znb.1_Splice_Site_p.V334_splice|UGT1A3_uc002vuy.2_Splice_Site_p.V334_splice|UGT1A9_uc002vva.2_Splice_Site|UGT1A1_uc010znc.1_Splice_Site_p.V333_splice|UGT1A1_uc002vvb.2_Splice_Site_p.V333_splice	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5						xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		GCCCCTCCCAGGTCCTGTGGC	0.453													26	122					0	0	0.012213	0	0		A	234676494	A	A	234676494	5	1	132	1	0	0	0	0	0	0	1	0	16974	1014	35	4	1009	4	UGT1A5	2	234676494	Splice_Site	SNP	G	TCGA-CG-4440-01A-01D-1158-08	14509444	234676494	8522879	20	72404											
CXCR7	57007	broad.mit.edu	37	chr2	237489447	237489447	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaccagtggcccatgggCgagctcacgtgcaaagtcac	11	5	11	14	2	2	0	2	0	0	0	2	1	2	0	2	2	3	2	2	2	2	0			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr2:237489447C>T	uc010fyq.2	+	3	569	c.339C>T	c.(337-339)GGC>GGT	p.G113G	CXCR7_uc002vwd.2_Silent_p.G113G	NM_020311	NP_064707	P25106	CXCR7_HUMAN	chemokine orphan receptor 1	113	Extracellular (Potential).				interspecies interaction between organisms	integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3		Breast(86;0.000182)|Renal(207;0.00339)|all_hematologic(139;0.0048)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|all_lung(227;0.147)|all_neural(83;0.223)		Epithelial(121;8.35e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.09e-11)|Kidney(56;1.11e-07)|KIRC - Kidney renal clear cell carcinoma(57;3.03e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000176)|Lung(119;0.00468)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.118)		GGCCCATGGGCGAGCTCACGT	0.562													24	217					0	0	0.01892	0	0		T	237489447	T	T	237489447	2	4	132	1	0	0	0	0	0	0	0	1	4099	755	27	1		1	CXCR7	2	237489447	Silent	SNP	C	TCGA-CG-4440-01A-01D-1158-08	2812953	237489447	5709926	21	72405											
OXSR1	9943	broad.mit.edu	37	chr3	38207426	38207426	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggacgattacgagctgcAggaggtgatcggtgagagca	11	6	17	7	3	0	2	0	2	0	1	1	7	0	4	0	4	4	3	0	4	1	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr3:38207426A>C	uc003chy.2	+	1	401	c.59A>C	c.(58-60)CAG>CCG	p.Q20P	OXSR1_uc010hhb.2_5'UTR|OXSR1_uc010hha.1_5'UTR	NM_005109	NP_005100	O95747	OXSR1_HUMAN	oxidative-stress responsive 1	20	Protein kinase.				intracellular protein kinase cascade|response to oxidative stress		ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		TACGAGCTGCAGGAGGTGATC	0.716													11	17					0	0	0.008871	0	0		C	38207426	C	C	38207426	3	2	132	1	0	0	0	0	1	0	0	0	11355	188	7	5	61	5	OXSR1	3	38207426	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08		38207426	159815004	22	72406											
SCN10A	6336	broad.mit.edu	37	chr3	38797307	38797307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggttgtaaggatcagagCggggtgatttgttgtcttct	6	15	15	5	1	3	2	1	1	2	1	3	3	3	3	0	4	1	4	0	4	1	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr3:38797307C>T	uc003ciq.2	-	10	1433	c.1433G>A	c.(1432-1434)CGC>CAC	p.R478H		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	478					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	AGGATCAGAGCGGGGTGATTT	0.274													159	113					0	0	0.01441	0	0		T	38797307	T	T	38797307	3	4	132	1	0	0	0	0	1	0	0	0	13937	768	27	1	4509	1	SCN10A	3	38797307	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	589881	38797307	159225123	23	72407											
CEP97	79598	broad.mit.edu	37	chr3	101451490	101451490	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatggatatgtgatttctcaGaaggaaaggtaaacatgtgc	14	11	12	4	0	1	2	1	1	1	1	2	5	1	4	0	3	2	1	0	3	5	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr3:101451490G>A	uc003dvk.1	+	6	747	c.720G>A	c.(718-720)CAG>CAA	p.Q240Q	CEP97_uc010hpm.1_Silent_p.Q206Q|CEP97_uc011bhf.1_Silent_p.Q240Q|CEP97_uc003dvl.1_5'UTR|CEP97_uc003dvm.1_Silent_p.Q78Q	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	240	LRRCT.					centrosome|nucleus	protein binding			ovary(2)	2						TGATTTCTCAGAAGGAAAGGT	0.393													10	62					0	0	0.010729	0	0		A	101451490	A	A	101451490	2	1	132	1	0	0	0	0	0	0	0	1	3266	933	33	4		4	CEP97	3	101451490	Silent	SNP	G	TCGA-CG-4440-01A-01D-1158-08	62654183	101451490	96570940	24	72408											
DPPA4	55211	broad.mit.edu	37	chr3	109049629	109049629	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttgcaatgatttccggaTtttggcctcttttgctgtgc	4	20	9	8	1	1	1	0	1	1	0	2	2	2	2	2	2	3	2	2	2	1	7			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr3:109049629T>C	uc003dxq.3	-	5	476	c.421A>G	c.(421-423)ATC>GTC	p.I141V	DPPA4_uc011bho.1_Intron|DPPA4_uc011bhp.1_Missense_Mutation_p.I141V	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	141						nucleus	protein binding			upper_aerodigestive_tract(1)	1						GATTTCCGGATTTTGGCCTCT	0.368													21	113					0	0	0.016522	0	0		C	109049629	C	C	109049629	3	2	132	1	0	0	0	0	1	0	0	0	4742	1493	52	3	505	3	DPPA4	3	109049629	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	7598139	109049629	88972801	25	72409											
QTRTD1	79691	broad.mit.edu	37	chr3	113804674	113804674	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaacactactttgggtttTtccattacatccgggaagca	10	14	8	9	1	0	1	0	1	0	0	2	2	2	2	2	2	4	2	2	2	4	6			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr3:113804674T>C	uc003eay.2	+	10	1401	c.1171T>C	c.(1171-1173)TTC>CTC	p.F391L	QTRTD1_uc003eaz.2_Missense_Mutation_p.F403L|QTRTD1_uc011biq.1_Missense_Mutation_p.F268L|QTRTD1_uc011bir.1_Missense_Mutation_p.F285L	NM_024638	NP_078914	Q9H974	QTRD1_HUMAN	queuine tRNA-ribosyltransferase domain	391					queuosine biosynthetic process	mitochondrion	metal ion binding|queuine tRNA-ribosyltransferase activity			central_nervous_system(1)|skin(1)	2						CTTTGGGTTTTTCCATTACAT	0.468													64	143					0	0	0.01441	0	0		C	113804674	C	C	113804674	3	2	132	1	0	0	0	0	1	0	0	0	12911	1841	64	3	1201	3	QTRTD1	3	113804674	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	4755045	113804674	84217756	26	72410											
GSK3B	2932	broad.mit.edu	37	chr3	119720972	119720972	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtttggcttgatataccacaCcaaatgatccatttccaatc	12	13	5	11	0	0	2	0	2	0	0	3	2	2	2	4	1	1	2	4	1	4	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr3:119720972C>A	uc003edo.2	-	2	1186	c.203G>T	c.(202-204)GGT>GTT	p.G68V	GSK3B_uc003edn.2_Missense_Mutation_p.G68V	NM_001146156	NP_001139628	P49841	GSK3B_HUMAN	glycogen synthase kinase 3 beta isoform 2	68	Protein kinase.|ATP (By similarity).				axon guidance|epithelial to mesenchymal transition|ER overload response|glycogen metabolic process|hippocampus development|negative regulation of apoptosis|negative regulation of protein binding|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|positive regulation of cell-matrix adhesion|positive regulation of protein complex assembly|positive regulation of protein export from nucleus|positive regulation of Rac GTPase activity|regulation of microtubule-based process|superior temporal gyrus development	Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|nucleus|plasma membrane	ATP binding|beta-catenin binding|NF-kappaB binding|p53 binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|RNA polymerase II transcription factor binding|tau-protein kinase activity|ubiquitin protein ligase binding			lung(2)	2				GBM - Glioblastoma multiforme(114;0.24)	Lithium(DB01356)	ATATACCACACCAAATGATCC	0.438													95	237					3.93621e-41	4.54792e-41	0.01441	1	0		A	119720972	A	A	119720972	3	1	132	1	0	0	0	0	1	0	0	0	6840	507	18	5	1142	5	GSK3B	3	119720972	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	5916298	119720972	78301458	27	72411											
POLQ	10721	broad.mit.edu	37	chr3	121238895	121238895	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgagaccttgacgaaaggCtccttcaatgatatccctct	12	11	7	11	1	2	3	1	3	1	1	4	5	4	3	3	1	0	1	3	1	4	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr3:121238895C>G	uc003eee.3	-	9	1420	c.1291G>C	c.(1291-1293)GCC>CCC	p.A431P		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	431	Helicase C-terminal.				DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TGACGAAAGGCTCCTTCAATG	0.378								DNA_polymerases_(catalytic_subunits)					39	103					0	0	0.007835	0	0		G	121238895	G	G	121238895	3	3	132	1	0	0	0	0	1	0	0	0	12227	797	28	5	6569	5	POLQ	3	121238895	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	1517923	121238895	76783535	28	72412											
PDIA5	10954	broad.mit.edu	37	chr3	122864408	122864408	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgaagccggagtttgagaAggcagcagaagccctccatg	13	6	13	9	1	0	3	0	2	0	2	1	5	1	4	3	2	3	3	3	2	4	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr3:122864408A>G	uc003egc.1	+	12	1006	c.950A>G	c.(949-951)AAG>AGG	p.K317R	PDIA5_uc003egd.1_RNA	NM_006810	NP_006801	Q14554	PDIA5_HUMAN	protein disulfide isomerase A5 precursor	317	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|protein folding|response to stress	endoplasmic reticulum lumen	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0427)		GAGTTTGAGAAGGCAGCAGAA	0.512													25	61					0	0	0.010818	0	0		G	122864408	G	G	122864408	3	3	132	1	0	0	0	0	1	0	0	0	11690	72	3	3	996	3	PDIA5	3	122864408	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08	1625513	122864408	75158022	29	72413											
IFT122	55764	broad.mit.edu	37	chr3	129226544	129226544	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacacaatgcttggcaagtTctaccacttccagcgtttgg	9	11	10	11	1	1	0	0	0	1	0	2	1	2	1	2	3	3	4	2	3	3	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr3:129226544T>G	uc003emm.2	+	23	3031	c.2825T>G	c.(2824-2826)TTC>TGC	p.F942C	IFT122_uc003eml.2_Missense_Mutation_p.F993C|IFT122_uc003emn.2_Missense_Mutation_p.F883C|IFT122_uc003emo.2_Missense_Mutation_p.F832C|IFT122_uc003emp.2_Missense_Mutation_p.F792C|IFT122_uc010htc.2_Missense_Mutation_p.F935C|IFT122_uc011bky.1_Missense_Mutation_p.F733C|IFT122_uc003emq.2_Missense_Mutation_p.F782C|IFT122_uc003emr.2_Missense_Mutation_p.F695C|IFT122_uc011bla.1_Missense_Mutation_p.F716C|IFT122_uc010hte.2_Missense_Mutation_p.F268C|IFT122_uc003ems.2_Missense_Mutation_p.F324C|IFT122_uc011bkx.1_Missense_Mutation_p.F783C|IFT122_uc010htd.1_Missense_Mutation_p.F421C	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	942					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						CTTGGCAAGTTCTACCACTTC	0.577													31	130					0	0	0.017118	0	0		G	129226544	G	G	129226544	3	3	132	1	0	0	0	0	1	0	0	0	7571	1783	62	5	3075	5	IFT122	3	129226544	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	6362136	129226544	68795886	30	72414											
PRKCI	5584	broad.mit.edu	37	chr3	170013719	170013719	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattttggaaaaacaaattCgcataccacgttctctgtct	12	15	5	9	2	2	0	0	0	2	0	4	1	2	1	1	1	2	2	1	1	5	6			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr3:170013719C>A	uc003fgs.2	+	15	1676	c.1438C>A	c.(1438-1440)CGC>AGC	p.R480S	PRKCI_uc003fgt.2_Missense_Mutation_p.R35S	NM_002740	NP_002731	P41743	KPCI_HUMAN	protein kinase C, iota	480	Protein kinase.				anti-apoptosis|cellular membrane organization|cellular response to insulin stimulus|establishment or maintenance of epithelial cell apical/basal polarity|intracellular signal transduction|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|protein targeting to membrane|secretion|tight junction assembly|vesicle-mediated transport	cytosol|endosome|nucleus|polarisome	ATP binding|phospholipid binding|protein binding|protein kinase C activity|zinc ion binding	p.R471C(1)		lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			AAAACAAATTCGCATACCACG	0.229													9	75					0.000442599	0.000458694	0.006214	1	0		A	170013719	A	A	170013719	3	1	132	1	0	0	0	0	1	0	0	0	12536	884	31	5	1496	5	PRKCI	3	170013719	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	40787175	170013719	28008711	31	72415											
NLGN1	22871	broad.mit.edu	37	chr3	173998882	173998882	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatccacatgaggtggttcTtcggaccgcctgtcccccag	6	10	10	15	2	2	1	1	1	1	0	5	2	4	2	5	3	0	1	5	3	0	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr3:173998882T>A	uc003fio.1	+	7	2684	c.2261T>A	c.(2260-2262)CTT>CAT	p.L754H	NLGN1_uc003fip.1_Missense_Mutation_p.L754H	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	771	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			GAGGTGGTTCTTCGGACCGCC	0.463													23	89					0	0	0.012319	0	0		A	173998882	A	A	173998882	3	1	132	1	0	0	0	0	1	0	0	0	10480	1609	56	5	2279	5	NLGN1	3	173998882	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	3985163	173998882	24023548	32	72416											
KIAA1211	57482	broad.mit.edu	37	chr4	57189674	57189674	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgggagcagcaggcgacgCgggaggagagaaagcaagcc	12	2	18	9	4	0	1	0	0	0	1	1	6	0	4	1	4	4	3	1	4	2	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr4:57189674C>T	uc003hbk.2	+	9	3710	c.3319C>T	c.(3319-3321)CGG>TGG	p.R1107W	KIAA1211_uc010iha.2_Missense_Mutation_p.R1100W	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	1107										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					GCAGGCGACGCGGGAGGAGAG	0.512													26	19					0	0	0.021523	0	0		T	57189674	T	T	57189674	3	4	132	1	0	0	0	0	1	0	0	0	8231	759	27	1	3341	1	KIAA1211	4	57189674	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08		57189674	133964602	33	72417											
LPHN3	23284	broad.mit.edu	37	chr4	62758415	62758415	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcatgggaagcactaccAccagtaccacccttcggacc	10	7	9	15	1	0	0	0	0	0	0	1	2	0	2	5	3	3	3	5	3	3	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr4:62758415A>T	uc010ihh.2	+	7	1491	c.1318A>T	c.(1318-1320)ACC>TCC	p.T440S	LPHN3_uc003hcq.3_Missense_Mutation_p.T440S|LPHN3_uc003hcs.1_Missense_Mutation_p.T269S	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	440	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						AAGCACTACCACCAGTACCAC	0.488													20	112					0	0	0.010504	0	0		T	62758415	T	T	62758415	3	4	132	1	0	0	0	0	1	0	0	0	8935	159	6	5	1344	5	LPHN3	4	62758415	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08	5568741	62758415	128395861	34	72418											
EPHA5	2044	broad.mit.edu	37	chr4	66189849	66189849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttacaatggcaccattcCgtttaccagctgcaccttca	11	11	6	13	1	1	0	1	0	0	0	2	0	2	0	4	1	4	5	4	1	4	5	rs139793674		TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr4:66189849C>T	uc003hcy.2	-	18	3290	c.3097G>A	c.(3097-3099)GGA>AGA	p.G1033R	EPHA5_uc003hcx.2_Missense_Mutation_p.G965R|EPHA5_uc003hcz.2_Missense_Mutation_p.G1011R|EPHA5_uc011cah.1_Missense_Mutation_p.G1034R|EPHA5_uc011cai.1_Missense_Mutation_p.G1012R	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	1033	Cytoplasmic (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						GGCACCATTCCGTTTACCAGC	0.418										TSP Lung(17;0.13)			4	79					0	0	0.014758	0	0		T	66189849	T	T	66189849	3	4	132	1	0	0	0	0	1	0	0	0	5178	661	23	1	20	1	EPHA5	4	66189849	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	3431434	66189849	124964427	35	72419											
GC	2638	broad.mit.edu	37	chr4	72631275	72631275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcagagctttcgttccaggCcctctttggtgcagcactca	6	12	10	13	1	2	1	1	0	1	1	4	1	3	1	2	2	4	5	2	2	0	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr4:72631275C>T	uc003hge.2	-	4	500	c.347G>A	c.(346-348)GGC>GAC	p.G116D	GC_uc003hgd.2_5'UTR|GC_uc010iie.2_Missense_Mutation_p.G116D|GC_uc010iif.2_Missense_Mutation_p.G135D	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	116	Albumin 1.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	TCGTTCCAGGCCCTCTTTGGT	0.532													23	135					0	0	0.014323	0	0		T	72631275	T	T	72631275	3	4	132	1	0	0	0	0	1	0	0	0	6297	739	26	2	1113	2	GC	4	72631275	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	6441426	72631275	118523001	36	72420											
FRAS1	80144	broad.mit.edu	37	chr4	79421075	79421075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtcttgaagttcagtcccGgtaattgaatgccaacctca	11	11	9	10	1	3	2	2	2	1	0	4	3	4	2	3	1	2	2	3	1	4	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr4:79421075G>A	uc003hlb.2	+	61	9756	c.9316G>A	c.(9316-9318)GGT>AGT	p.G3106S	FRAS1_uc003hlc.1_Missense_Mutation_p.G108S	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	3101	Calx-beta 5.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						GTTCAGTCCCGGTAATTGAAT	0.318													35	76					0	0	0.019004	0	0		A	79421075	A	A	79421075	3	1	132	1	0	0	0	0	1	0	0	0	6056	1130	39	1	9633	1	FRAS1	4	79421075	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	6789800	79421075	111733201	37	72421											
TMSL3	7117	broad.mit.edu	37	chr4	91760143	91760143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctctgtcttcttcagtttcgGcttatcgaatttctcgatct	5	19	6	11	3	6	0	1	0	5	0	9	2	6	0	0	1	0	2	0	1	2	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr4:91760143G>A	uc003hsy.2	-	1	127	c.46C>T	c.(46-48)CCG>TCG	p.P16S	FAM190A_uc003hsv.3_Intron|FAM190A_uc010ikv.2_Intron|FAM190A_uc003hsx.2_Intron	NM_183049	NP_898870			thymosin-like 3												0		all_cancers(2;6.48e-24)|all_epithelial(2;3.86e-25)|Colorectal(2;8.52e-12)|all_lung(2;3.73e-07)|Lung NSC(2;7.99e-07)|Renal(2;0.0243)|Hepatocellular(203;0.0411)		Epithelial(2;5.28e-11)|OV - Ovarian serous cystadenocarcinoma(123;8.9e-10)|all cancers(2;3.21e-09)|STAD - Stomach adenocarcinoma(1;0.0201)		TTCAGTTTCGGCTTATCGAAT	0.517													14	237					0	0	0.005443	0	0		A	91760143	A	A	91760143	3	1	132	1	0	0	0	0	1	0	0	0	16284	1203	42	2	92	2	TMSL3	4	91760143	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	12339068	91760143	99394133	38	72422											
CCNA2	890	broad.mit.edu	37	chr4	122740665	122740665	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccattctcagaacttgtttCttggtgtaggtatcatctgt	7	18	8	8	0	4	1	2	0	3	1	6	1	5	1	1	2	1	3	1	2	3	6			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr4:122740665C>T	uc003iec.3	-	5	1169	c.864G>A	c.(862-864)AAG>AAA	p.K288K		NM_001237	NP_001228	P20248	CCNA2_HUMAN	cyclin A	288					cell division|mitosis|mitotic cell cycle G2/M transition DNA damage checkpoint|Ras protein signal transduction|regulation of cyclin-dependent protein kinase activity	cytoplasm|nucleoplasm	protein kinase binding			ovary(1)	1						GAACTTGTTTCTTGGTGTAGG	0.358													38	133					0	0	0.00623	0	0		T	122740665	T	T	122740665	2	4	132	1	0	0	0	0	0	0	0	1	2913	912	32	4		4	CCNA2	4	122740665	Silent	SNP	C	TCGA-CG-4440-01A-01D-1158-08	30980522	122740665	68413611	39	72423											
SPRY1	10252	broad.mit.edu	37	chr4	124323037	124323037	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagacacacaagccacctGggacatgcagtactcccaag	14	4	8	15	0	0	1	0	0	0	1	1	2	1	2	3	1	3	2	3	1	3	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr4:124323037G>T	uc003ifa.2	+	2	479	c.291G>T	c.(289-291)CTG>CTT	p.L97L	SPRY1_uc003ifb.2_Silent_p.L97L	NM_199327	NP_955359	O43609	SPY1_HUMAN	sprouty homolog 1, antagonist of FGF signaling	97					epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|lamellipodium|plasma membrane				skin(2)|ovary(1)	3						CAAGCCACCTGGGACATGCAG	0.493													83	62					3.80207e-26	4.30566e-26	0.01441	1	0		T	124323037	T	T	124323037	2	4	132	1	0	0	0	0	0	0	0	1	15130	1335	47	5		5	SPRY1	4	124323037	Silent	SNP	G	TCGA-CG-4440-01A-01D-1158-08	1582372	124323037	66831239	40	72424											
MLF1IP	79682	broad.mit.edu	37	chr4	185637777	185637777	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcactaatgggcctgagcTttcttcctggctgtgtgaaa	8	13	10	10	0	2	2	1	2	1	0	3	2	3	2	2	2	1	2	2	2	2	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr4:185637777T>G	uc003iwq.2	-	6	462	c.392A>C	c.(391-393)AAG>ACG	p.K131T	MLF1IP_uc003iwp.2_RNA|MLF1IP_uc003iwr.1_Missense_Mutation_p.K131T	NM_024629	NP_078905	Q71F23	CENPU_HUMAN	MLF1 interacting protein	131					CenH3-containing nucleosome assembly at centromere|interspecies interaction between organisms|mitotic prometaphase|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|condensed chromosome kinetochore|cytosol|nucleoplasm					0		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Hepatocellular(41;0.000519)|Colorectal(36;0.00172)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.0299)|all_hematologic(60;0.0592)|Medulloblastoma(177;0.146)		all cancers(43;7.83e-28)|Epithelial(43;2.56e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.5e-11)|Colorectal(24;3.27e-06)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.16e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000252)|COAD - Colon adenocarcinoma(29;0.000512)|LUSC - Lung squamous cell carcinoma(40;0.01)|READ - Rectum adenocarcinoma(43;0.0419)		GGGCCTGAGCTTTCTTCCTGG	0.343													18	45					0	0	0.01892	0	0		G	185637777	G	G	185637777	3	3	132	1	0	0	0	0	1	0	0	0	9633	1609	56	5	896	5	MLF1IP	4	185637777	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	61314740	185637777	5516499	41	72425											
DNAJC21	134218	broad.mit.edu	37	chr5	34939087	34939087	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cggatgaaaatgaaatggaaGaacatgaactcaaagatgag	20	6	11	4	1	1	6	1	4	0	2	1	8	1	8	0	2	2	0	0	2	7	0			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr5:34939087G>C	uc003jjc.2	+	6	1095	c.868G>C	c.(868-870)GAA>CAA	p.E290Q	DNAJC21_uc003jjb.2_Missense_Mutation_p.E290Q|DNAJC21_uc010iuu.1_Missense_Mutation_p.E174Q	NM_001012339	NP_001012339	Q5F1R6	DJC21_HUMAN	DnaJ homology subfamily A member 5 isoform 2	290	Glu-rich.				protein folding	ribosome	heat shock protein binding|nucleic acid binding|unfolded protein binding|zinc ion binding			breast(1)|skin(1)	2	all_lung(31;7.08e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)			TGAAATGGAAGAACATGAACT	0.308													10	27					0	0	0.008291	0	0		C	34939087	C	C	34939087	3	2	132	1	0	0	0	0	1	0	0	0	4646	943	33	5	890	5	DNAJC21	5	34939087	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08		34939087	145976173	42	72426											
PTCD2	79810	broad.mit.edu	37	chr5	71634515	71634515	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctctactcaaaggagaaattCtctccaggagagcatcctgt	12	10	8	11	0	3	2	1	0	2	2	6	4	5	2	2	2	2	1	2	2	3	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr5:71634515C>G	uc003kcb.2	+	7	716	c.706C>G	c.(706-708)CTC>GTC	p.L236V	PTCD2_uc011csf.1_Missense_Mutation_p.L46V|PTCD2_uc003kcc.2_Missense_Mutation_p.L84V|PTCD2_uc011csg.1_Missense_Mutation_p.L64V|PTCD2_uc011csh.1_Missense_Mutation_p.L127V|PTCD2_uc003kcd.2_RNA	NM_024754	NP_079030	Q8WV60	PTCD2_HUMAN	pentatricopeptide repeat domain 2	236											0		Lung NSC(167;0.00237)|Ovarian(174;0.0175)|Prostate(461;0.141)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.73e-53)		AGGAGAAATTCTCTCCAGGAG	0.418													23	60					0	0	0.01892	0	0		G	71634515	G	G	71634515	3	3	132	1	0	0	0	0	1	0	0	0	12750	913	32	5	732	5	PTCD2	5	71634515	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	36695428	71634515	109280745	43	72427											
PCDHB14	56122	broad.mit.edu	37	chr5	140603363	140603363	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactagaccgagacgagctgTgtggctccaccgagccctgt	9	7	12	13	3	0	2	0	0	0	2	1	5	1	2	4	1	3	2	4	1	2	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr5:140603363T>C	uc003ljb.2	+	1	286	c.286T>C	c.(286-288)TGT>CGT	p.C96R	PCDHB14_uc011dal.1_Intron	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	96	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGACGAGCTGTGTGGCTCCAC	0.438													120	263					0	0	0.01441	0	0		C	140603363	C	C	140603363	3	2	132	1	0	0	0	0	1	0	0	0	11558	1696	59	3	288	3	PCDHB14	5	140603363	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	68968848	140603363	40311897	44	72428											
PCDHGB3	56102	broad.mit.edu	37	chr5	140750067	140750067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccgaaccgatccgctacGctattcccgaggagctggac	8	8	10	15	5	1	0	0	0	1	0	4	5	3	2	4	2	3	3	4	2	3	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr5:140750067G>A	uc003ljw.1	+	1	106	c.106G>A	c.(106-108)GCT>ACT	p.A36T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc011dat.1_Missense_Mutation_p.A36T	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	36	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATCCGCTACGCTATTCCCGA	0.577													20	109					0	0	0.00632	0	0		A	140750067	A	A	140750067	3	1	132	1	0	0	0	0	1	0	0	0	11583	1087	38	1	108	1	PCDHGB3	5	140750067	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	146704	140750067	40165193	45	72429											
TDRD6	221400	broad.mit.edu	37	chr6	46656928	46656928	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaaggaaggagttagtgAgttgcagcagccttcggtac	11	9	15	6	1	0	1	0	1	0	0	1	4	0	4	1	4	4	5	1	4	4	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr6:46656928A>G	uc003oyj.2	+	1	1063	c.1063A>G	c.(1063-1065)AGT>GGT	p.S355G	TDRD6_uc010jze.2_Missense_Mutation_p.S349G	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	355	Tudor 2.				cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			GGAGTTAGTGAGTTGCAGCAG	0.542													66	81					0	0	0.01441	0	0		G	46656928	G	G	46656928	3	3	132	1	0	0	0	0	1	0	0	0	15759	304	11	3	1065	3	TDRD6	6	46656928	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08		46656928	124458139	46	72430											
DPPA5	340168	broad.mit.edu	37	chr6	74063727	74063727	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggccttgctcacctgctcGatgtaagggattcgagatcc	8	11	11	11	2	1	1	1	0	0	1	4	4	2	2	3	2	2	3	3	2	1	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr6:74063727G>A	uc003pgs.1	-	2	146	c.141C>T	c.(139-141)ATC>ATT	p.I47I		NM_001025290	NP_001020461	A6NC42	DPPA5_HUMAN	developmental pluripotency associated 5	47	KH; atypical.				multicellular organismal development	cytoplasm	RNA binding				0						TCACCTGCTCGATGTAAGGGA	0.612													56	74					0	0	0.01441	0	0		A	74063727	A	A	74063727	2	1	132	1	0	0	0	0	0	0	0	1	4743	1048	37	1		1	DPPA5	6	74063727	Silent	SNP	G	TCGA-CG-4440-01A-01D-1158-08	27406799	74063727	97051340	47	72431											
SYNE1	23345	broad.mit.edu	37	chr6	152712629	152712629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggagctgggaacacaggCggccctcctgcccagcaccg	8	4	14	15	2	0	1	0	1	0	0	1	3	1	3	4	4	4	2	4	4	1	0			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr6:152712629C>T	uc010kiw.2	-	52	8389	c.7787G>A	c.(7786-7788)CGC>CAC	p.R2596H	SYNE1_uc003qot.3_Missense_Mutation_p.R2603H|SYNE1_uc003qou.3_Missense_Mutation_p.R2596H|SYNE1_uc010kjb.1_Missense_Mutation_p.R2579H	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2596	Cytoplasmic (Potential).|Spectrin 5.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GGAACACAGGCGGCCCTCCTG	0.512										HNSCC(10;0.0054)			15	80					0	0	0.004007	0	0		T	152712629	T	T	152712629	3	4	132	1	0	0	0	0	1	0	0	0	15470	768	27	1	19059	1	SYNE1	6	152712629	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	78648902	152712629	18402438	48	72432											
PRKAR1B	5575	broad.mit.edu	37	chr7	716895	716895	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgtcatccaggtgagcgaaGagcacgttcttggagatggc	9	10	14	8	2	2	3	1	1	1	2	3	5	3	3	1	3	2	2	1	3	1	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr7:716895G>C	uc003siu.1	-	5	517	c.411C>G	c.(409-411)CTC>CTG	p.L137L	PRKAR1B_uc003siv.2_Silent_p.L137L|PRKAR1B_uc003siw.1_Silent_p.L137L	NM_002735	NP_002726	P31321	KAP1_HUMAN	protein kinase, cAMP-dependent, regulatory, type	137	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)		GGTGAGCGAAGAGCACGTTCT	0.632													68	179					0	0	0.01441	0	0		C	716895	C	C	716895	2	2	132	1	0	0	0	0	0	0	0	1	12526	929	33	5		5	PRKAR1B	7	716895	Silent	SNP	G	TCGA-CG-4440-01A-01D-1158-08		716895	158421768	49	72433											
FKBP14	55033	broad.mit.edu	37	chr7	30058688	30058688	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggatcttggtccatttcgaAtctccaggagatcaatatta	11	13	9	8	1	3	1	1	0	2	1	6	4	4	2	2	3	0	0	2	3	4	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr7:30058688A>C	uc003tal.1	-	3	545	c.401T>G	c.(400-402)ATT>AGT	p.I134S	FKBP14_uc010kvq.1_RNA	NM_017946	NP_060416	Q9NWM8	FKB14_HUMAN	FK506 binding protein 14 precursor	134	PPIase FKBP-type.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0						TCCATTTCGAATCTCCAGGAG	0.383													29	162					0	0	0.007291	0	0		C	30058688	C	C	30058688	3	2	132	1	0	0	0	0	1	0	0	0	5918	101	4	5	242	5	FKBP14	7	30058688	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08	29341793	30058688	129079975	50	72434											
TNS3	64759	broad.mit.edu	37	chr7	47408817	47408817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catctcgtcatccagaatgtCtgtctcccgatccttcagag	8	12	7	14	2	5	2	2	0	3	2	9	3	7	2	3	0	0	0	3	0	1	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr7:47408817C>T	uc003tnv.2	-	17	1793	c.1426G>A	c.(1426-1428)GAC>AAC	p.D476N	TNS3_uc003tnw.2_Missense_Mutation_p.D476N	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	476						focal adhesion	protein binding			ovary(4)	4						TCCAGAATGTCTGTCTCCCGA	0.612													28	51					0	0	0.005443	0	0		T	47408817	T	T	47408817	3	4	132	1	0	0	0	0	1	0	0	0	16369	913	32	4	2971	4	TNS3	7	47408817	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	17350129	47408817	111729846	51	72435											
PCLO	27445	broad.mit.edu	37	chr7	82584756	82584756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgacgtaactcttctgtcGgagatgcatcttcaatggga	9	12	10	10	2	4	2	1	1	3	1	5	4	4	3	1	2	2	2	1	2	2	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr7:82584756G>A	uc003uhx.2	-	5	5802	c.5513C>T	c.(5512-5514)CCG>CTG	p.P1838L	PCLO_uc003uhv.2_Missense_Mutation_p.P1838L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1769					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CTCTTCTGTCGGAGATGCATC	0.428													71	460					0	0	0.01441	0	0		A	82584756	A	A	82584756	3	1	132	1	0	0	0	0	1	0	0	0	11602	1116	39	1	10016	1	PCLO	7	82584756	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	35175939	82584756	76553907	52	72436											
ZNF804B	219578	broad.mit.edu	37	chr7	88847482	88847482	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaaaggattttgcagaaaAgaagtccacagcaaaggccc	16	7	9	9	0	0	2	0	0	0	2	1	3	1	3	2	2	2	2	2	2	6	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr7:88847482A>C	uc011khi.1	+	2	660	c.122A>C	c.(121-123)AAG>ACG	p.K41T		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	41						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TTTGCAGAAAAGAAGTCCACA	0.343										HNSCC(36;0.09)			56	79					0	0	0.01441	0	0		C	88847482	C	C	88847482	3	2	132	1	0	0	0	0	1	0	0	0	18196	72	3	5	128	5	ZNF804B	7	88847482	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08	6262726	88847482	70291181	53	72437											
PTPRZ1	5803	broad.mit.edu	37	chr7	121679509	121679509	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacattttcttttgcagaGaaaatgtgatcagtactggc	11	15	8	7	0	3	2	1	1	2	1	3	3	3	2	0	1	3	2	0	1	4	6			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr7:121679509G>T	uc003vjy.2	+	20	5899	c.5504G>T	c.(5503-5505)AGA>ATA	p.R1835I	PTPRZ1_uc003vjz.2_Missense_Mutation_p.R968I|PTPRZ1_uc011knt.1_Missense_Mutation_p.R425I	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1835	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						CTTTTGCAGAGAAAATGTGAT	0.433													18	145					1.33834e-09	1.43934e-09	0.007413	1	0		T	121679509	T	T	121679509	3	4	132	1	0	0	0	0	1	0	0	0	12839	956	33	5	5582	5	PTPRZ1	7	121679509	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	32832027	121679509	37459154	54	72438											
CASP2	835	broad.mit.edu	37	chr7	142991371	142991371	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatggtcctgtctgccttcAggtgaagccttgcactcctg	6	12	11	12	0	2	2	1	1	1	1	4	2	4	2	4	2	3	1	4	2	1	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr7:142991371A>G	uc003wco.2	+	5	671	c.524A>G	c.(523-525)CAG>CGG	p.Q175R	CASP2_uc003wcp.2_Splice_Site_p.C103_splice|CASP2_uc011kta.1_Missense_Mutation_p.Q59R|CASP2_uc003wcq.2_RNA	NM_032982	NP_116764	P42575	CASP2_HUMAN	caspase 2 isoform 1 preproprotein	175					apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|protein maturation by peptide bond cleavage	cytosol	cysteine-type endopeptidase activity|enzyme binding|protein binding|protein domain specific binding			lung(2)|ovary(1)	3	Melanoma(164;0.059)					GTCTGCCTTCAGGTGAAGCCT	0.403													19	282					0	0	0.016522	0	0		G	142991371	G	G	142991371	3	3	132	1	0	0	0	0	1	0	0	0	2674	202	7	3	542	3	CASP2	7	142991371	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08	21311862	142991371	16147292	55	72439											
DPP6	1804	broad.mit.edu	37	chr7	154564623	154564623	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacccacccatgatctggaGatgatgccgcctgatgatcc	9	8	11	13	1	1	5	0	4	1	1	2	7	2	6	5	2	1	0	5	2	0	0			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr7:154564623G>T	uc003wlk.2	+	10	1236	c.1107G>T	c.(1105-1107)GAG>GAT	p.E369D	DPP6_uc003wli.2_Missense_Mutation_p.E305D|DPP6_uc003wlm.2_Missense_Mutation_p.E307D|DPP6_uc011kvq.1_Missense_Mutation_p.E262D	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	369	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			ATGATCTGGAGATGATGCCGC	0.433													6	47					1.12685e-05	1.18216e-05	0.004482	1	0		T	154564623	T	T	154564623	3	4	132	1	0	0	0	0	1	0	0	0	4736	933	33	5	1261	5	DPP6	7	154564623	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	11573252	154564623	4574040	56	72440											
NRG1	3084	broad.mit.edu	37	chr8	32621861	32621861	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggccgcttctcgacacagGaagaaatccaggccaggctg	11	5	12	13	2	1	1	0	0	1	1	3	3	2	2	3	4	0	2	3	4	2	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr8:32621861G>T	uc003xiv.2	+	12	2381	c.1864G>T	c.(1864-1866)GAA>TAA	p.E622*	NRG1_uc010lvo.2_3'UTR|NRG1_uc003xiu.2_Nonsense_Mutation_p.E627*|NRG1_uc003xiw.2_Nonsense_Mutation_p.E619*|NRG1_uc003xit.2_3'UTR|NRG1_uc010lvr.2_Nonsense_Mutation_p.E364*|NRG1_uc010lvs.2_Nonsense_Mutation_p.E364*|NRG1_uc010lvp.2_Nonsense_Mutation_p.E576*|NRG1_uc010lvq.2_Nonsense_Mutation_p.E559*|NRG1_uc011lbg.1_3'UTR|NRG1_uc011lbh.1_Nonsense_Mutation_p.E465*|NRG1_uc003xja.2_Nonsense_Mutation_p.E433*	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	622	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		CTCGACACAGGAAGAAATCCA	0.493													16	55					3.41278e-10	3.71711e-10	0.00499	1	0		T	32621861	T	T	32621861	4	4	132	1	0	0	0	0	0	1	0	0	10666	1175	41	5	3635	5	NRG1	8	32621861	Nonsense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08		32621861	113742161	57	72441											
ATP6V1H	51606	broad.mit.edu	37	chr8	54682258	54682258	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatttgtgcacaggactccaTtccaaccttccagatttaag	11	12	7	11	0	0	1	0	0	0	1	3	3	3	2	4	1	2	1	4	1	2	5	rs57348174	byFrequency	TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr8:54682258T>C	uc003xrl.2	-	11	1247	c.1095A>G	c.(1093-1095)GAA>GAG	p.E365E	ATP6V1H_uc003xrk.2_Silent_p.E325E|ATP6V1H_uc003xrm.2_Silent_p.E365E|ATP6V1H_uc003xrn.2_Silent_p.E347E|ATP6V1H_uc011ldv.1_Silent_p.E285E|ATP6V1H_uc010lyd.2_Silent_p.E301E	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	365					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)			CAGGACTCCATTCCAACCTTC	0.323													4	77					0	0	0.009096	0	0		C	54682258	C	C	54682258	2	2	132	1	0	0	0	0	0	0	0	1	1190	1490	52	3		3	ATP6V1H	8	54682258	Silent	SNP	T	TCGA-CG-4440-01A-01D-1158-08	22060397	54682258	91681764	58	72442											
KHDRBS3	10656	broad.mit.edu	37	chr8	136594304	136594304	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacccccgacacaagagacTtatggagaatatgtaagtga	15	7	9	10	1	0	3	0	1	0	2	0	6	0	3	3	1	0	1	3	1	5	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr8:136594304T>G	uc003yuv.2	+	6	1189	c.795T>G	c.(793-795)ACT>ACG	p.T265T	KHDRBS3_uc003yuw.2_Silent_p.T265T|KHDRBS3_uc010mek.2_RNA	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal	265					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			CACAAGAGACTTATGGAGAAT	0.527													19	46					0	0	0.004656	0	0		G	136594304	G	G	136594304	2	3	132	1	0	0	0	0	0	0	0	1	8164	1596	56	5		5	KHDRBS3	8	136594304	Silent	SNP	T	TCGA-CG-4440-01A-01D-1158-08	81912046	136594304	9769718	59	72443											
PLEC	5339	broad.mit.edu	37	chr8	144995534	144995534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacgcggtggctgtgcaCggggtcgataacgccgcccg	5	5	18	13	7	0	0	0	0	0	0	1	1	0	0	2	5	2	3	2	5	1	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr8:144995534C>T	uc003zaf.1	-	32	9036	c.8866G>A	c.(8866-8868)GTG>ATG	p.V2956M	PLEC_uc003zab.1_Missense_Mutation_p.V2819M|PLEC_uc003zac.1_Missense_Mutation_p.V2823M|PLEC_uc003zad.2_Missense_Mutation_p.V2819M|PLEC_uc003zae.1_Missense_Mutation_p.V2787M|PLEC_uc003zag.1_Missense_Mutation_p.V2797M|PLEC_uc003zah.2_Missense_Mutation_p.V2805M|PLEC_uc003zaj.2_Missense_Mutation_p.V2846M	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2956	Plectin 4.|Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TGGCTGTGCACGGGGTCGATA	0.682													54	91					0	0	0.01441	0	0		T	144995534	T	T	144995534	3	4	132	1	0	0	0	0	1	0	0	0	12071	536	19	1	5192	1	PLEC	8	144995534	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	8401230	144995534	1368488	60	72444											
C9orf25	203259	broad.mit.edu	37	chr9	34401082	34401082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcatctaaccggtagccGtccttcagcagctggatgtt	8	12	9	12	2	3	0	2	0	2	0	5	1	4	1	3	2	4	4	3	2	2	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr9:34401082G>A	uc011lok.1	-	6	745	c.438C>T	c.(436-438)GAC>GAT	p.D146D	C9orf25_uc003zuj.2_Silent_p.D129D|C9orf25_uc003zuk.2_Silent_p.D118D|C9orf25_uc011lol.1_Silent_p.D134D|C9orf25_uc003zul.2_Silent_p.D117D	NM_147202	NP_671735	Q8IW50	CI025_HUMAN	hypothetical protein LOC203259	146											0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.0858)		ACCGGTAGCCGTCCTTCAGCA	0.617													22	102					0	0	0.005443	0	0		A	34401082	A	A	34401082	2	1	132	1	0	0	0	0	0	0	0	1	2479	1136	40	1		1	C9orf25	9	34401082	Silent	SNP	G	TCGA-CG-4440-01A-01D-1158-08		34401082	106812349	61	72445											
COL5A1	1289	broad.mit.edu	37	chr9	137619115	137619115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgtctcttcttttccagggtGacatccagcagctgctcttt	5	15	8	13	1	3	1	0	1	3	0	6	1	5	1	2	1	3	3	2	1	0	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr9:137619115G>A	uc004cfe.2	+	5	1040	c.658G>A	c.(658-660)GAC>AAC	p.D220N		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	220	TSP N-terminal.|Laminin G-like.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		TTTCCAGGGTGACATCCAGCA	0.562													20	143					0	0	0.010504	0	0		A	137619115	A	A	137619115	3	1	132	1	0	0	0	0	1	0	0	0	3699	1290	45	4	676	4	COL5A1	9	137619115	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	103218033	137619115	3594316	62	72446											
GTPBP4	23560	broad.mit.edu	37	chr10	1058414	1058414	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttttaaagaaattggaaGaattagaaaaagaagaagag	22	9	9	1	0	0	6	0	0	0	6	0	7	0	7	0	1	0	0	0	1	10	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr10:1058414G>T	uc001ift.2	+	14	1425	c.1354G>T	c.(1354-1356)GAA>TAA	p.E452*	GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Nonsense_Mutation_p.E336*|GTPBP4_uc010qae.1_Nonsense_Mutation_p.E405*	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	452					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		GAAATTGGAAGAATTAGAAAA	0.408													25	83					1.85244e-09	1.9798e-09	0.01892	1	0		T	1058414	T	T	1058414	4	4	132	1	0	0	0	0	0	1	0	0	6898	943	33	5	1408	5	GTPBP4	10	1058414	Nonsense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08		1058414	134476333	63	72447											
ADARB2	105	broad.mit.edu	37	chr10	1405937	1405937	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgggcgccaccgaccaCgacagcttcttccagaccag	8	8	9	16	3	2	1	0	0	2	1	3	3	3	1	5	1	1	1	5	1	0	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr10:1405937C>T	uc009xhq.2	-	3	737	c.363G>A	c.(361-363)TCG>TCA	p.S121S		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	121					mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		CCACCGACCACGACAGCTTCT	0.587													30	24					0	0	0.017118	0	0		T	1405937	T	T	1405937	2	4	132	1	0	0	0	0	0	0	0	1	283	523	19	1		1	ADARB2	10	1405937	Silent	SNP	C	TCGA-CG-4440-01A-01D-1158-08	347523	1405937	134128810	64	72448											
PARD3	56288	broad.mit.edu	37	chr10	34671584	34671584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcggatggtggttttcccGaggggtgtgcgctatgaggt	5	11	19	6	3	0	1	0	1	0	0	1	4	1	2	1	6	2	2	1	6	1	3	rs141769427		TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr10:34671584G>A	uc010qej.1	-	9	1283	c.1283C>T	c.(1282-1284)TCG>TTG	p.S428L	PARD3_uc010qek.1_Missense_Mutation_p.S428L|PARD3_uc010qel.1_Missense_Mutation_p.S428L|PARD3_uc010qem.1_Missense_Mutation_p.S428L|PARD3_uc010qen.1_Missense_Mutation_p.S428L|PARD3_uc010qeo.1_Missense_Mutation_p.S428L|PARD3_uc010qep.1_Missense_Mutation_p.S384L|PARD3_uc010qeq.1_Missense_Mutation_p.S384L|PARD3_uc001ixo.1_Missense_Mutation_p.S158L|PARD3_uc001ixp.1_Missense_Mutation_p.S293L|PARD3_uc001ixq.1_Missense_Mutation_p.S428L|PARD3_uc001ixr.1_Missense_Mutation_p.S428L|PARD3_uc001ixt.1_Missense_Mutation_p.S249L|PARD3_uc001ixu.1_Missense_Mutation_p.S384L|PARD3_uc001ixs.1_Missense_Mutation_p.S81L	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	428					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				TGGTTTTCCCGAGGGGTGTGC	0.517													48	137					0	0	0.01441	0	0		A	34671584	A	A	34671584	3	1	132	1	0	0	0	0	1	0	0	0	11462	1059	37	1	2890	1	PARD3	10	34671584	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	33265647	34671584	100863163	65	72449											
PTEN	5728	broad.mit.edu	37	chr10	89653801	89653801	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatttatccaaacattatTgctatgggatttcctgcaga	12	15	7	7	0	0	1	0	0	0	1	2	3	2	2	2	1	3	2	2	1	5	7			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr10:89653801T>C	uc001kfb.2	+	3	1130	c.99T>C	c.(97-99)ATT>ATC	p.I33I		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	33	Phosphatase tensin-type.		Missing (in CD).		activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(4)|p.Y27fs*1(2)|p.I33fs*21(2)|p.Y27_N212>Y(2)|p.I33del(1)|p.A34_G36del(1)|p.I33fs*20(1)|p.I33S(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		CAAACATTATTGCTATGGGAT	0.294		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			31	90					0	0	0.019004	0	0		C	89653801	C	C	89653801	2	2	132	1	0	0	0	0	0	0	0	1	12760	1800	63	3		3	PTEN	10	89653801	Silent	SNP	T	TCGA-CG-4440-01A-01D-1158-08	54982217	89653801	45880946	66	72450											
SORBS1	10580	broad.mit.edu	37	chr10	97174384	97174384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaaaggagccagaggcgCgggctggctggctgtggtgg	6	5	22	8	2	0	1	0	0	0	1	0	2	0	2	1	8	1	4	1	8	1	0			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr10:97174384C>T	uc001kkp.2	-	7	722	c.677G>A	c.(676-678)CGC>CAC	p.R226H	SORBS1_uc001kkl.2_5'UTR|SORBS1_uc001kkn.2_Intron|SORBS1_uc001kkm.2_Intron|SORBS1_uc001kko.2_Missense_Mutation_p.R226H|SORBS1_uc001kkq.2_Missense_Mutation_p.R157H|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_RNA|SORBS1_uc001kku.2_Intron|SORBS1_uc001kkv.2_Missense_Mutation_p.R194H|SORBS1_uc001kkw.2_Missense_Mutation_p.R226H|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Missense_Mutation_p.R424H|SORBS1_uc001kkx.1_Missense_Mutation_p.R194H	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	226				RAS -> SAC (in Ref. 3; AAF22175).	focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		GCCAGAGGCGCGGGCTGGCTG	0.652													14	27					0	0	0.020292	0	0		T	97174384	T	T	97174384	3	4	132	1	0	0	0	0	1	0	0	0	14952	768	27	1	3498	1	SORBS1	10	97174384	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	7520583	97174384	38360363	67	72451											
LZTS2	84445	broad.mit.edu	37	chr10	102765299	102765299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaggcacagcgggcacagCgggcccaacagctgctgcag	9	2	14	16	2	0	0	0	0	0	0	0	0	0	0	2	3	6	5	2	3	1	0			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr10:102765299C>T	uc001ksj.2	+	4	1222	c.1153C>T	c.(1153-1155)CGG>TGG	p.R385W	LZTS2_uc010qpw.1_Missense_Mutation_p.R385W|LZTS2_uc001ksk.2_Missense_Mutation_p.R385W|LZTS2_uc001ksl.2_Missense_Mutation_p.R385W|LZTS2_uc001ksm.2_RNA	NM_032429	NP_115805	Q9BRK4	LZTS2_HUMAN	leucine zipper, putative tumor suppressor 2	385	Potential.				cell division|mitosis|Wnt receptor signaling pathway	membrane|microtubule|microtubule organizing center				ovary(2)|large_intestine(1)|breast(1)	4				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		GCGGGCACAGCGGGCCCAACA	0.667													8	42					0	0	0.020292	0	0		T	102765299	T	T	102765299	3	4	132	1	0	0	0	0	1	0	0	0	9157	759	27	1	1163	1	LZTS2	10	102765299	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	5590915	102765299	32769448	68	72452											
OR51B4	79339	broad.mit.edu	37	chr11	5322906	5322906	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaacaggcagcatgggCaatctccctctggtctagca	10	8	12	11	0	3	1	0	1	3	0	4	1	3	1	1	4	3	4	1	4	3	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:5322906C>A	uc010qza.1	-	1	271	c.271G>T	c.(271-273)GCC>TCC	p.A91S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033179	NP_149419	Q9Y5P0	O51B4_HUMAN	olfactory receptor, family 51, subfamily B,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCAGCATGGGCAATCTCCCTC	0.502													41	73					1.59932e-28	1.83547e-28	0.007835	1	0		A	5322906	A	A	5322906	3	1	132	1	0	0	0	0	1	0	0	0	11109	710	25	5	664	5	OR51B4	11	5322906	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08		5322906	129683610	69	72453											
OR52N4	390072	broad.mit.edu	37	chr11	5776554	5776554	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgtcctgtggtaatgtcaAggtcaatgccatctatggtc	9	14	10	8	0	3	0	2	0	1	0	5	0	4	0	2	3	1	1	2	3	4	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:5776554A>C	uc001mbu.2	+	1	632	c.584A>C	c.(583-585)AAG>ACG	p.K195T	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005175	NP_001005175	Q8NGI2	O52N4_HUMAN	olfactory receptor, family 52, subfamily N,	195	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;1.87e-10)|LUSC - Lung squamous cell carcinoma(625;0.114)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.197)		GGTAATGTCAAGGTCAATGCC	0.488													9	191					0	0	0.010729	0	0		C	5776554	C	C	5776554	3	2	132	1	0	0	0	0	1	0	0	0	11148	72	3	5	586	5	OR52N4	11	5776554	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08	453648	5776554	129229962	70	72454											
LUZP2	338645	broad.mit.edu	37	chr11	24750779	24750779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagcgaagcaccattcttCgtcagctgacaaagacatca	14	7	9	11	2	3	2	2	1	1	1	4	4	3	3	1	1	3	2	1	1	2	2	rs150458536		TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:24750779C>T	uc001mqs.2	+	2	361	c.127C>T	c.(127-129)CGT>TGT	p.R43C	LUZP2_uc009yif.2_5'UTR|LUZP2_uc009yig.2_Missense_Mutation_p.R43C	NM_001009909	NP_001009909	Q86TE4	LUZP2_HUMAN	leucine zipper protein 2 precursor	43	Potential.					extracellular region		p.R43C(1)		ovary(1)|skin(1)	2						CACCATTCTTCGTCAGCTGAC	0.433													21	120					0	0	0.008871	0	0		T	24750779	T	T	24750779	3	4	132	1	0	0	0	0	1	0	0	0	9105	884	31	1	133	1	LUZP2	11	24750779	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	18974225	24750779	110255737	71	72455											
OR5I1	10798	broad.mit.edu	37	chr11	55703769	55703769	+	Missense_Mutation	SNP	C	A	A																															cctatcagaattatagcataCaatgtcagaaacatgaggaa																										TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:55703769C>A	uc010ris.1	-	1	108	c.108G>T	c.(106-108)TTG>TTT	p.L36F		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTATAGCATACAATGTCAGAA	0.393													20	95					7.45023e-12	8.16659e-12	0.010504	1	0		A	55703769	A	A	55703769	3	1	132	1	0	0	0	0	1	0	0	0	11183	477	17	5	839	5	OR5I1	11	55703769	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	30952990	55703769	79302747	72	72456	133	2									
OR5I1	10798	broad.mit.edu	37	chr11	55703771	55703771	+	Missense_Mutation	SNP	A	T	T																															tatcagaattatagcatacaAtgtcagaaacatgaggaaca																								rs111994551	byFrequency	TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:55703771A>T	uc010ris.1	-	1	106	c.106T>A	c.(106-108)TTG>ATG	p.L36M		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ATAGCATACAATGTCAGAAAC	0.393													20	92					0	0	0.012319	0	0		T	55703771	T	T	55703771	3	4	132	1	0	0	0	0	1	0	0	0	11183	98	4	5	841	5	OR5I1	11	55703771	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08	2	55703771	79302745	73	72457	133	2									
AHNAK	79026	broad.mit.edu	37	chr11	62298626	62298626	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caccctctatctttggtgcaGagatatctacatttcctttc	8	16	5	12	0	3	1	0	0	3	1	5	2	4	1	2	1	2	1	2	1	3	6			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:62298626G>C	uc001ntl.2	-	5	3563	c.3263C>G	c.(3262-3264)TCT>TGT	p.S1088C	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1088					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CTTTGGTGCAGAGATATCTAC	0.453													109	275					0	0	0.01441	0	0		C	62298626	C	C	62298626	3	2	132	1	0	0	0	0	1	0	0	0	414	942	33	5	14529	5	AHNAK	11	62298626	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	6594855	62298626	72707890	74	72458											
CHRM1	1128	broad.mit.edu	37	chr11	62677615	62677615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgtatttggggagctccGtgggggctgcttggtggggg	3	11	21	6	1	0	0	0	0	0	0	1	2	1	1	1	7	2	4	1	7	1	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:62677615G>A	uc001nwi.2	-	2	1359	c.958C>T	c.(958-960)CGG>TGG	p.R320W		NM_000738	NP_000729	P11229	ACM1_HUMAN	cholinergic receptor, muscarinic 1	320	Cytoplasmic (Potential).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell proliferation|nervous system development|positive regulation of cell proliferation|protein modification process	cell junction|integral to plasma membrane|membrane fraction|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity|protein binding				0					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Benztropine(DB00245)|Bethanechol(DB01019)|Biperiden(DB00810)|Buclizine(DB00354)|Carbachol(DB00411)|Carbinoxamine(DB00748)|Cevimeline(DB00185)|Clidinium(DB00771)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Cyclopentolate(DB00979)|Cycrimine(DB00942)|Desipramine(DB01151)|Dicyclomine(DB00804)|Diphenidol(DB01231)|Doxylamine(DB00366)|Ethopropazine(DB00392)|Flavoxate(DB01148)|Glycopyrrolate(DB00986)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methantheline(DB00940)|Methotrimeprazine(DB01403)|Methylscopolamine(DB00462)|Metixene(DB00340)|Metoclopramide(DB01233)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Oxyphenonium(DB00219)|Pilocarpine(DB01085)|Pirenzepine(DB00670)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propantheline(DB00782)|Propiomazine(DB00777)|Quinacrine(DB01103)|Scopolamine(DB00747)|Solifenacin(DB01591)|Succinylcholine(DB00202)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)|Trihexyphenidyl(DB00376)|Trospium(DB00209)	GGGGAGCTCCGTGGGGGCTGC	0.622													25	152					0	0	0.021523	0	0		A	62677615	A	A	62677615	3	1	132	1	0	0	0	0	1	0	0	0	3379	1144	40	1	428	1	CHRM1	11	62677615	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	378989	62677615	72328901	75	72459											
TSKU	25987	broad.mit.edu	37	chr11	76507252	76507252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctggaaccggctccatGccgtgcccaacctccgagac	7	6	11	17	3	0	1	0	0	0	1	2	3	2	2	7	3	4	1	7	3	2	0			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:76507252G>A	uc001oxt.2	+	2	764	c.592G>A	c.(592-594)GCC>ACC	p.A198T		NM_015516	NP_056331	Q8WUA8	TSK_HUMAN	tsukushin precursor	198	LRR 6.					extracellular region					0	Ovarian(111;0.112)					CCGGCTCCATGCCGTGCCCAA	0.677													64	151					0	0	0.01441	0	0		A	76507252	A	A	76507252	3	1	132	1	0	0	0	0	1	0	0	0	16653	1319	46	2	594	2	TSKU	11	76507252	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	13829637	76507252	58499264	76	72460											
TYR	7299	broad.mit.edu	37	chr11	88911920	88911920	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaacttactcagcccagcaTcattcttctcctcttggcag	8	13	5	15	0	5	0	2	0	3	0	6	0	5	0	2	1	4	2	2	1	2	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:88911920T>A	uc001pcs.2	+	1	881	c.799T>A	c.(799-801)TCA>ACA	p.S267T		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	267	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	CAGCCCAGCATCATTCTTCTC	0.458									Oculocutaneous_Albinism				18	87					0	0	0.007413	0	0		A	88911920	A	A	88911920	3	1	132	1	0	0	0	0	1	0	0	0	16839	1435	50	5	801	5	TYR	11	88911920	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	12404668	88911920	46094596	77	72461											
NOX4	50507	broad.mit.edu	37	chr11	89224395	89224395	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccttcgttggcgagccagCtcctccaggacacagccatg	7	7	10	17	2	0	0	0	0	0	0	3	2	2	1	6	2	3	2	6	2	0	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:89224395C>G	uc001pct.2	-	1	259	c.20G>C	c.(19-21)AGC>ACC	p.S7T	NOX4_uc009yvr.2_5'Flank|NOX4_uc001pcu.2_5'UTR|NOX4_uc001pcw.2_Missense_Mutation_p.S7T|NOX4_uc001pcx.2_Missense_Mutation_p.S7T|NOX4_uc001pcv.2_Missense_Mutation_p.S7T|NOX4_uc009yvo.2_RNA|NOX4_uc010rtu.1_5'UTR|NOX4_uc009yvp.2_Missense_Mutation_p.S7T|NOX4_uc010rtv.1_Intron|NOX4_uc009yvq.2_Intron|NOX4_uc009yvs.1_RNA|NOX4_uc001pcy.2_RNA	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	7	Cytoplasmic (Potential).				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				GGCGAGCCAGCTCCTCCAGGA	0.652													10	37					0	0	0.008291	0	0		G	89224395	G	G	89224395	3	3	132	1	0	0	0	0	1	0	0	0	10577	797	28	5	1788	5	NOX4	11	89224395	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	312475	89224395	45782121	78	72462											
UBE4A	9354	broad.mit.edu	37	chr11	118239372	118239372	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagctagcccagatgacTcggataatagcgtgtcagag	11	8	11	11	2	1	3	1	1	0	2	3	4	2	4	2	1	3	1	2	1	3	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:118239372T>G	uc001psw.2	+	3	277	c.148T>G	c.(148-150)TCG>GCG	p.S50A	UBE4A_uc001psv.2_Missense_Mutation_p.S50A	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	50					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		CCCAGATGACTCGGATAATAG	0.428													53	373					0	0	0.01441	0	0		G	118239372	G	G	118239372	3	3	132	1	0	0	0	0	1	0	0	0	16908	1551	54	5	154	5	UBE4A	11	118239372	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	29014977	118239372	16767144	79	72463											
SORL1	6653	broad.mit.edu	37	chr11	121420786	121420786	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctgtgggttctacttacagGagaacgagagggtatgtatc	10	11	13	7	1	1	2	0	0	1	2	2	4	1	2	1	3	3	3	1	3	5	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:121420786G>A	uc001pxx.2	+	15	2249	c.2169G>A	c.(2167-2169)AGG>AGA	p.R723R		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	723	Extracellular (Potential).				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		CTACTTACAGGAGAACGAGAG	0.507													26	66					0	0	0.004656	0	0		A	121420786	A	A	121420786	2	1	132	1	0	0	0	0	0	0	0	1	14959	1165	41	4		4	SORL1	11	121420786	Silent	SNP	G	TCGA-CG-4440-01A-01D-1158-08	3181414	121420786	13585730	80	72464											
OR8G2	26492	broad.mit.edu	37	chr11	124095819	124095819	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctatgttgccatctgcaGccccttgctgtacaatgtca	7	12	8	14	1	2	0	1	0	1	0	2	0	2	0	4	0	5	5	4	0	3	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr11:124095819G>T	uc010saf.1	+	1	422	c.422G>T	c.(421-423)AGC>ATC	p.S141I		NM_001007249	NP_001007250	Q15614	OR8G2_HUMAN	olfactory receptor, family 8, subfamily G,	141						integral to membrane	olfactory receptor activity				0		Breast(109;0.0157)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.91e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		GCCATCTGCAGCCCCTTGCTG	0.468													128	298					9.30538e-80	1.11274e-79	0.01441	1	0		T	124095819	T	T	124095819	3	4	132	1	0	0	0	0	1	0	0	0	11254	971	34	5	424	5	OR8G2	11	124095819	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	2675033	124095819	10910697	81	72465											
KCNA5	3741	broad.mit.edu	37	chr12	5154190	5154190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgccccaccagcctcccGcgcccgcccctggggccaac	4	2	11	24	5	0	0	0	0	0	0	1	0	1	0	9	3	2	0	9	3	1	0			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr12:5154190G>A	uc001qni.2	+	1	1106	c.877G>A	c.(877-879)GCG>ACG	p.A293T		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	293						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						CCAGCCTCCCGCGCCCGCCCC	0.687													23	26					0	0	0.01441	0	0		A	5154190	A	A	5154190	3	1	132	1	0	0	0	0	1	0	0	0	8022	1087	38	1	879	1	KCNA5	12	5154190	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08		5154190	128697705	82	72466											
CLEC4E	26253	broad.mit.edu	37	chr12	8688703	8688703	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacctcagagactttgtcaaAggtgtgccgtccacccattg	9	11	9	12	1	2	1	2	0	0	1	3	2	3	1	4	1	2	0	4	1	2	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr12:8688703A>T	uc001quo.1	-	5	636	c.471T>A	c.(469-471)CCT>CCA	p.P157P		NM_014358	NP_055173	Q9ULY5	CLC4E_HUMAN	C-type lectin domain family 4, member E	157	C-type lectin.|Extracellular (Potential).					integral to membrane	sugar binding			central_nervous_system(1)	1	Lung SC(5;0.184)					ACTTTGTCAAAGGTGTGCCGT	0.443													9	100					0	0	0.006214	0	0		T	8688703	T	T	8688703	2	4	132	1	0	0	0	0	0	0	0	1	3518	59	3	5		5	CLEC4E	12	8688703	Silent	SNP	A	TCGA-CG-4440-01A-01D-1158-08	3534513	8688703	125163192	83	72467											
PRB4	5545	broad.mit.edu	37	chr12	11461181	11461181	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgaatcctagattactgggGaggctgttgtccctgggcag	7	12	14	8	0	0	2	0	1	0	1	2	3	2	3	2	4	1	3	2	4	3	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr12:11461181G>T	uc001qzf.1	-	3	770	c.736C>A	c.(736-738)CCC>ACC	p.P246T	PRB4_uc001qzt.2_Missense_Mutation_p.P246T	NM_002723	NP_002714	P10163	PRB4_HUMAN	proline-rich protein BstNI subfamily 4	309						extracellular region				ovary(1)	1						GATTACTGGGGAGGCTGTTGT	0.473										HNSCC(22;0.051)			113	247					1.37143e-49	1.62858e-49	0.01441	1	0		T	11461181	T	T	11461181	3	4	132	1	0	0	0	0	1	0	0	0	12467	1174	41	5	11	5	PRB4	12	11461181	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	2772478	11461181	122390714	84	72468											
SLCO1C1	53919	broad.mit.edu	37	chr12	20874876	20874876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttaccaagatcccaaagtaGagaggattctaattcttcct	13	13	6	9	0	2	2	0	0	2	2	4	4	4	3	3	1	1	1	3	1	5	7			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr12:20874876G>A	uc001rej.3	+	9	1269	c.914G>A	c.(913-915)AGA>AAA	p.R305K	SLCO1C1_uc010sii.1_Missense_Mutation_p.R305K|SLCO1C1_uc010sij.1_Missense_Mutation_p.R256K|SLCO1C1_uc009zip.2_Missense_Mutation_p.R139K|SLCO1C1_uc001rei.2_Missense_Mutation_p.R305K|SLCO1C1_uc010sik.1_Missense_Mutation_p.R187K	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	305	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					TCCCAAAGTAGAGAGGATTCT	0.403													16	69					0	0	0.003163	0	0		A	20874876	A	A	20874876	3	1	132	1	0	0	0	0	1	0	0	0	14750	942	33	4	940	4	SLCO1C1	12	20874876	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	9413695	20874876	112977019	85	72469											
PDZRN4	29951	broad.mit.edu	37	chr12	41966380	41966380	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactctgggaagtgttgaacTtcagtacaatgagagcctcg	11	10	11	9	1	2	2	1	2	1	1	3	4	2	3	1	1	3	2	1	1	4	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr12:41966380T>G	uc010skn.1	+	10	1270	c.1202T>G	c.(1201-1203)CTT>CGT	p.L401R	PDZRN4_uc001rmq.3_Missense_Mutation_p.L342R|PDZRN4_uc009zjz.2_Missense_Mutation_p.L340R|PDZRN4_uc001rmr.2_Missense_Mutation_p.L227R	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	600							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				AGTGTTGAACTTCAGTACAAT	0.507													14	68					0	0	0.020292	0	0		G	41966380	G	G	41966380	3	3	132	1	0	0	0	0	1	0	0	0	11729	1609	56	5	1910	5	PDZRN4	12	41966380	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	21091504	41966380	91885515	86	72470											
IRAK3	11213	broad.mit.edu	37	chr12	66605310	66605311	+	Missense_Mutation	DNP	GA	TT	TT																															agacttcctaattggagaagGagagatttttgaggtataca																										TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr12:66605310_66605311GA>TT	uc001sth.2	+	5	623_624	c.521_522GA>TT	c.(520-522)GGA>GTT	p.G174V	IRAK3_uc010ssy.1_Missense_Mutation_p.G113V	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	174	ATP (By similarity).|Protein kinase.				interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		ATTGGAGAAGGAGAGATTTTTG	0.342													13	117					0	0	0.004672	0	0		TT	66605311	TT	TT	66605310	3	4	132	1	0	0	0	0	1	0	0	0	7840	1174	41	5	539	5	IRAK3	12	66605310	Missense_Mutation	DNP	GA	TCGA-CG-4440-01A-01D-1158-08	24638930	66605310	67246585	87	72471											
NAV3	89795	broad.mit.edu	37	chr12	78582033	78582033	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgttcttatttaggaccaAaaatctcaggcatatttgat	12	17	6	6	0	2	1	1	1	2	0	3	2	2	2	1	2	0	2	1	2	5	7			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr12:78582033A>C	uc001syp.2	+	32	5969	c.5796A>C	c.(5794-5796)CAA>CAC	p.Q1932H	NAV3_uc001syo.2_Missense_Mutation_p.Q1910H|NAV3_uc010sub.1_Missense_Mutation_p.Q1389H|NAV3_uc009zsf.2_Missense_Mutation_p.Q741H	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1932						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TTTAGGACCAAAAATCTCAGG	0.308										HNSCC(70;0.22)			20	116					0	0	0.012319	0	0		C	78582033	C	C	78582033	3	2	132	1	0	0	0	0	1	0	0	0	10203	11	1	5	5852	5	NAV3	12	78582033	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08	11976723	78582033	55269862	88	72472											
SART3	9733	broad.mit.edu	37	chr12	108920075	108920075	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccacaggcctcgaagagtGgcctgagcttcgtgtccggc	6	7	13	15	3	0	2	0	1	0	1	3	3	1	2	5	3	1	1	5	3	1	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr12:108920075G>C	uc001tmz.1	-	16	2406	c.2171C>G	c.(2170-2172)CCA>CGA	p.P724R	SART3_uc001tmy.1_Missense_Mutation_p.P250R|SART3_uc009zux.1_Missense_Mutation_p.P336R|SART3_uc010swx.1_Missense_Mutation_p.P688R|SART3_uc010swy.1_Missense_Mutation_p.P610R|SART3_uc010swz.1_Silent_p.A722A	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	724	RRM 1.				RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						CTCGAAGAGTGGCCTGAGCTT	0.567									Porokeratosis				64	51					0	0	0.01441	0	0		C	108920075	C	C	108920075	3	2	132	1	0	0	0	0	1	0	0	0	13872	1348	47	5	736	5	SART3	12	108920075	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	30338042	108920075	24931820	89	72473											
USP30	84749	broad.mit.edu	37	chr12	109523552	109523552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggacactttgtcacttaccGacggtccccaccttctgcca	7	11	7	16	2	2	0	1	0	1	0	3	2	3	1	5	2	2	0	5	2	1	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr12:109523552G>A	uc010sxi.1	+	13	1474	c.1370G>A	c.(1369-1371)CGA>CAA	p.R457Q	USP30_uc001tnu.3_Missense_Mutation_p.R426Q|USP30_uc001tnw.3_Missense_Mutation_p.R174Q	NM_032663	NP_116052	Q70CQ3	UBP30_HUMAN	ubiquitin specific peptidase 30	457	Cytoplasmic (Potential).				ubiquitin-dependent protein catabolic process	integral to membrane|mitochondrial outer membrane	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(1)	1						GTCACTTACCGACGGTCCCCA	0.562													26	154					0	0	0.005443	0	0		A	109523552	A	A	109523552	3	1	132	1	0	0	0	0	1	0	0	0	17087	1058	37	1	1420	1	USP30	12	109523552	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	603477	109523552	24328343	90	72474											
FZD10	11211	broad.mit.edu	37	chr12	130648388	130648388	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggccagctctatgtcatcCaggagggactggagagcacc	9	6	14	12	1	2	1	1	0	1	1	3	4	3	3	3	4	2	2	3	4	1	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr12:130648388C>A	uc001uii.2	+	1	1357	c.901C>A	c.(901-903)CAG>AAG	p.Q301K	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	301	Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		CTATGTCATCCAGGAGGGACT	0.647													27	149					6.50621e-10	7.04153e-10	0.013726	1	0		A	130648388	A	A	130648388	3	1	132	1	0	0	0	0	1	0	0	0	6143	595	21	5	903	5	FZD10	12	130648388	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	21124836	130648388	3203507	91	72475											
KBTBD6	89890	broad.mit.edu	37	chr13	41705329	41705329	+	Frame_Shift_Del	DEL	A	-	-																															taatagggtctcgcccccccAaaatgtagatatagccattg																										TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr13:41705329delA	uc001uxu.1	-	1	1608	c.1319delT	c.(1318-1320)TTGfs	p.L440fs	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Frame_Shift_Del_p.L374fs|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	440	Kelch 2.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		TCGCCCCCCCAAAATGTAGAT	0.478													89	147	---	---	---	---						.	-	41705329	-	-	41705329	7	5	132	1	0	1	0	1	0	0	0	0	8013	131	5	0	709	0	KBTBD6	13	41705329	Frame_Shift_Del	DEL	A	TCGA-CG-4440-01A-01D-1158-08		41705329	73464549	92	72476											
ZC3H13	23091	broad.mit.edu	37	chr13	46616346	46616346	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcgtttctggggctcagTgtccacgtcttggcgcttgt	3	16	12	10	3	3	0	1	0	2	0	5	0	4	0	1	3	0	3	1	3	0	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr13:46616346T>C	uc010tfw.1	-	3	298	c.292A>G	c.(292-294)ACT>GCT	p.T98A	ZC3H13_uc001vas.1_Missense_Mutation_p.T98A|ZC3H13_uc001vat.1_Missense_Mutation_p.T98A	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	98							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		TGGGGCTCAGTGTCCACGTCT	0.368													91	117					0	0	0.01441	0	0		C	46616346	C	C	46616346	3	2	132	1	0	0	0	0	1	0	0	0	17590	1696	59	3	4458	3	ZC3H13	13	46616346	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	4911017	46616346	68553532	93	72477											
WDFY2	115825	broad.mit.edu	37	chr13	52330495	52330495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcaagtgtgggaaggccGtctgtggcaagtgcagctcc	7	7	16	11	2	1	0	0	0	1	0	2	1	2	1	3	3	2	4	3	3	3	0	rs140912157		TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr13:52330495G>A	uc001vfp.2	+	10	1301	c.961G>A	c.(961-963)GTC>ATC	p.V321I		NM_052950	NP_443182	Q96P53	WDFY2_HUMAN	WD repeat and FYVE domain containing 2	321	FYVE-type.						metal ion binding				0		Breast(56;0.000208)|Lung NSC(96;0.000517)|Prostate(109;0.0041)|Hepatocellular(98;0.0652)|Myeloproliferative disorder(33;0.164)|all_neural(104;0.191)		GBM - Glioblastoma multiforme(99;9e-08)		TGGGAAGGCCGTCTGTGGCAA	0.597													78	90					0	0	0.01441	0	0		A	52330495	A	A	52330495	3	1	132	1	0	0	0	0	1	0	0	0	17295	1145	40	1	999	1	WDFY2	13	52330495	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	5714149	52330495	62839383	94	72478											
GPC6	10082	broad.mit.edu	37	chr13	93879869	93879869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccctaccaggagatcgcaGgtaagcgcgggcgcgctgca	8	5	14	14	5	0	1	0	0	0	1	2	2	1	1	3	3	3	4	3	3	2	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr13:93879869G>A	uc001vlt.2	+	1	792	c.160G>A	c.(160-162)GGG>AGG	p.G54R	GPC6_uc010tig.1_Missense_Mutation_p.G54R	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	54						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				GGAGATCGCAGGTAAGCGCGG	0.711											OREG0022460	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	35					0	0	0.001168	0	0		A	93879869	A	A	93879869	3	1	132	1	0	0	0	0	1	0	0	0	6617	1014	35	4	162	4	GPC6	13	93879869	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	41549374	93879869	21290009	95	72479											
OR4K1	79544	broad.mit.edu	37	chr14	20404608	20404608	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttatttctatatatggccTtttagcagacttcctgtgga	9	18	7	7	0	1	1	0	0	1	1	2	2	2	2	2	2	1	1	2	2	5	9			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr14:20404608T>G	uc001vwj.1	+	1	783	c.783T>G	c.(781-783)CCT>CCG	p.P261P		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		ATATATGGCCTTTTAGCAGAC	0.423													27	326					0	0	0.008361	0	0		G	20404608	G	G	20404608	2	3	132	1	0	0	0	0	0	0	0	1	11086	1596	56	5		5	OR4K1	14	20404608	Silent	SNP	T	TCGA-CG-4440-01A-01D-1158-08		20404608	86944932	96	72480											
ARID4A	5926	broad.mit.edu	37	chr14	58820474	58820474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgaaagtaaaatatggacGagggaagactcagaaaattt	19	8	11	3	1	1	3	1	1	0	2	1	6	1	5	0	2	0	1	0	2	7	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr14:58820474G>A	uc001xdp.2	+	17	2008	c.1754G>A	c.(1753-1755)CGA>CAA	p.R585Q	ARID4A_uc001xdo.2_Missense_Mutation_p.R585Q|ARID4A_uc001xdq.2_Missense_Mutation_p.R585Q|ARID4A_uc010apg.1_Missense_Mutation_p.R263Q	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	585					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						AAATATGGACGAGGGAAGACT	0.393													27	103					0	0	0.004656	0	0		A	58820474	A	A	58820474	3	1	132	1	0	0	0	0	1	0	0	0	919	1058	37	1	1816	1	ARID4A	14	58820474	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	38415866	58820474	48529066	97	72481											
SIPA1L1	26037	broad.mit.edu	37	chr14	72139213	72139213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctgaggcagggcagtcGcctggtggagatctgcaagg	8	6	19	8	1	1	2	0	1	1	1	2	3	1	2	1	6	1	4	1	6	1	0			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr14:72139213G>A	uc001xms.2	+	9	3326	c.2978G>A	c.(2977-2979)CGC>CAC	p.R993H	SIPA1L1_uc001xmt.2_Missense_Mutation_p.R993H|SIPA1L1_uc001xmu.2_Missense_Mutation_p.R993H|SIPA1L1_uc001xmv.2_Missense_Mutation_p.R993H|SIPA1L1_uc010ttm.1_Missense_Mutation_p.R468H	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	993	PDZ.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		CAGGGCAGTCGCCTGGTGGAG	0.582													25	56					0	0	0.021523	0	0		A	72139213	A	A	72139213	3	1	132	1	0	0	0	0	1	0	0	0	14354	1087	38	1	3008	1	SIPA1L1	14	72139213	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	13318739	72139213	35210327	98	72482											
SERPINA3	12	broad.mit.edu	37	chr14	95081025	95081025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccactgagcatctccaccGccttggccttcctgtctctg	4	11	7	19	1	2	1	0	1	2	0	5	1	3	1	7	1	1	1	7	1	0	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr14:95081025G>A	uc001ydp.2	+	2	326	c.247G>A	c.(247-249)GCC>ACC	p.A83T	SERPINA3_uc001ydo.3_Missense_Mutation_p.A108T|SERPINA3_uc010avf.1_RNA|SERPINA3_uc001ydr.2_RNA|SERPINA3_uc001ydq.2_Missense_Mutation_p.A83T|SERPINA3_uc001yds.2_Missense_Mutation_p.A83T|SERPINA3_uc010avg.2_Missense_Mutation_p.A83T	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3	83					acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		CATCTCCACCGCCTTGGCCTT	0.532													27	200					0	0	0.007291	0	0		A	95081025	A	A	95081025	3	1	132	1	0	0	0	0	1	0	0	0	14115	1087	38	1	249	1	SERPINA3	14	95081025	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	22941812	95081025	12268515	99	72483											
AHNAK2	113146	broad.mit.edu	37	chr14	105405265	105405265	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgtttgaatctctgacGtggggatctctgattcccgc	7	13	12	9	2	2	3	0	3	2	0	5	4	3	4	1	3	0	1	1	3	2	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr14:105405265G>C	uc010axc.1	-	7	16643	c.16523C>G	c.(16522-16524)ACG>AGG	p.T5508R	AHNAK2_uc001ypx.2_Missense_Mutation_p.T5408R	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5508						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			AATCTCTGACGTGGGGATCTC	0.458													6	51					0	0	0.001168	0	0		C	105405265	C	C	105405265	3	2	132	1	0	0	0	0	1	0	0	0	415	1145	40	5	868	5	AHNAK2	14	105405265	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	10324240	105405265	1944275	100	72484											
AHNAK2	113146	broad.mit.edu	37	chr14	105410061	105410061	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaggtccagcttggggccCttgatgtctatttcagggcc	5	14	12	10	0	2	1	1	1	1	0	3	1	3	1	3	4	1	1	3	4	2	6			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr14:105410061C>A	uc010axc.1	-	7	11847	c.11727G>T	c.(11725-11727)AAG>AAT	p.K3909N	AHNAK2_uc001ypx.2_Missense_Mutation_p.K3809N	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3909						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GCTTGGGGCCCTTGATGTCTA	0.597													155	348					1.56119e-44	1.82852e-44	0.01441	1	0		A	105410061	A	A	105410061	3	1	132	1	0	0	0	0	1	0	0	0	415	680	24	5	5664	5	AHNAK2	14	105410061	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	4796	105410061	1939479	101	72485											
FBN1	2200	broad.mit.edu	37	chr15	48748847	48748847	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacttaccttcacaaaccaaCaacttgtcattatagaagaa	17	10	3	11	0	2	2	2	0	0	2	2	2	2	2	2	0	4	0	2	0	8	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr15:48748847C>A	uc001zwx.1	-	44	5737	c.5409G>T	c.(5407-5409)TTG>TTT	p.L1803F	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1803	EGF-like 29; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CACAAACCAACAACTTGTCAT	0.433													29	132					8.16721e-17	9.18811e-17	0.010818	1	0		A	48748847	A	A	48748847	3	1	132	1	0	0	0	0	1	0	0	0	5716	477	17	5	3298	5	FBN1	15	48748847	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08		48748847	53782545	102	72486											
FBN1	2200	broad.mit.edu	37	chr15	48773939	48773939	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgttttcacaggtcccacTtaggcagatatttggattca	9	14	9	9	1	2	1	2	0	0	1	3	2	3	2	1	3	0	2	1	3	2	6			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr15:48773939T>G	uc001zwx.1	-	32	4205	c.3877A>C	c.(3877-3879)AGT>CGT	p.S1293R		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1293	EGF-like 21; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CAGGTCCCACTTAGGCAGATA	0.388													34	166					0	0	0.021022	0	0		G	48773939	G	G	48773939	3	3	132	1	0	0	0	0	1	0	0	0	5716	1609	56	5	4878	5	FBN1	15	48773939	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	25092	48773939	53757453	103	72487											
PDE8A	5151	broad.mit.edu	37	chr15	85681096	85681096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatactggaaaggactggacGaaatgaagctgcggaacctc	15	6	12	8	2	0	1	0	1	0	0	1	6	0	5	1	4	4	1	1	4	6	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr15:85681096G>A	uc002blh.2	+	22	2641	c.2452G>A	c.(2452-2454)GAA>AAA	p.E818K	PDE8A_uc002bli.2_Missense_Mutation_p.E772K|PDE8A_uc010bnc.2_Missense_Mutation_p.E571K|PDE8A_uc010bnd.2_Missense_Mutation_p.E571K|PDE8A_uc002blj.2_Missense_Mutation_p.E438K|PDE8A_uc002blk.2_Missense_Mutation_p.E438K|PDE8A_uc002bll.2_Missense_Mutation_p.E170K	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	818					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			AGGACTGGACGAAATGAAGCT	0.473													19	24					0	0	0.010504	0	0		A	85681096	A	A	85681096	3	1	132	1	0	0	0	0	1	0	0	0	11672	1059	37	1	2538	1	PDE8A	15	85681096	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	36907157	85681096	16850296	104	72488											
ZNF263	10127	broad.mit.edu	37	chr16	3338488	3338488	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcaggaggtcccaggcacCcaggtgggacaaggaggaaa	13	3	16	9	0	1	0	1	0	0	0	2	4	2	4	2	7	0	1	2	7	2	0			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr16:3338488C>G	uc002cuq.2	+	5	1136	c.804C>G	c.(802-804)ACC>ACG	p.T268T	ZNF263_uc010uww.1_Intron|ZNF263_uc002cur.2_5'Flank	NM_005741	NP_005732	O14978	ZN263_HUMAN	zinc finger protein 263	268	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(3)|ovary(1)	4						TCCCAGGCACCCAGGTGGGAC	0.542													15	76					0	0	0.004007	0	0		G	3338488	G	G	3338488	2	3	132	1	0	0	0	0	0	0	0	1	17828	610	22	5		5	ZNF263	16	3338488	Silent	SNP	C	TCGA-CG-4440-01A-01D-1158-08		3338488	87016265	105	72489											
SPNS2	124976	broad.mit.edu	37	chr17	4439624	4439624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcctgagcctgggctacGcgctcatgctctgccctttc	4	12	10	15	2	2	1	1	1	1	0	4	1	3	1	3	1	4	4	3	1	1	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr17:4439624G>A	uc002fxx.2	+	11	1724	c.1510G>A	c.(1510-1512)GCG>ACG	p.A504T	SPNS2_uc002fxy.2_5'Flank	NM_001124758	NP_001118230	Q8IVW8	SPNS2_HUMAN	spinster homolog 2	504					lipid transport|transmembrane transport	integral to membrane					0						CCTGGGCTACGCGCTCATGCT	0.632													21	74					0	0	0.010504	0	0		A	4439624	A	A	4439624	3	1	132	1	0	0	0	0	1	0	0	0	15100	1087	38	1	1552	1	SPNS2	17	4439624	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08		4439624	76755586	106	72490											
TP53	7157	broad.mit.edu	37	chr17	7577558	7577558	+	Frame_Shift_Del	DEL	G	-	-																															cggttcatgccgcccatgcaGgaactgttacacatgtagtt																										TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr17:7577558delG	uc002gim.2	-	7	917	c.723delC	c.(721-723)TCCfs	p.S241fs	TP53_uc002gig.1_Frame_Shift_Del_p.S241fs|TP53_uc002gih.2_Frame_Shift_Del_p.S241fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.S109fs|TP53_uc010cng.1_Frame_Shift_Del_p.S109fs|TP53_uc002gii.1_Frame_Shift_Del_p.S109fs|TP53_uc010cnh.1_Frame_Shift_Del_p.S241fs|TP53_uc010cni.1_Frame_Shift_Del_p.S241fs|TP53_uc002gij.2_Frame_Shift_Del_p.S241fs|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Frame_Shift_Del_p.S148fs|TP53_uc002gio.2_Frame_Shift_Del_p.S109fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	241	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		S -> A (in sporadic cancers; somatic mutation).|S -> P (in sporadic cancers; somatic mutation).|S -> C (in sporadic cancers; somatic mutation).|S -> Y (in sporadic cancers; somatic mutation).|S -> T (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.S241F(73)|p.S241C(24)|p.C242fs*5(9)|p.S241fs*6(8)|p.0?(7)|p.S241Y(7)|p.S241A(6)|p.S241del(5)|p.S241T(5)|p.N239_C242delNSSC(3)|p.S241S(3)|p.S241P(3)|p.S241fs*22(2)|p.C242fs*20(1)|p.C242fs*23(1)|p.Y236_M243delYMCNSSCM(1)|p.N239fs*4(1)|p.C238_M246delCNSSCMGGM(1)|p.S241_C242insX(1)|p.C238fs*21(1)|p.S241fs*7(1)|p.H233_C242del10(1)|p.N239_C242>S(1)|p.S241fs*23(1)|p.S241_G245delSCMGG(1)|p.N239_C242del(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CGCCCATGCAGGAACTGTTAC	0.577		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			48	62	---	---	---	---						.	-	7577558	-	-	7577558	7	5	132	1	0	1	0	1	0	0	0	0	16407	987	35	0	567	0	TP53	17	7577558	Frame_Shift_Del	DEL	G	TCGA-CG-4440-01A-01D-1158-08	3137934	7577558	73617652	107	72491											
NF1	4763	broad.mit.edu	37	chr17	29550553	29550553	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggttgcgggaaatattgAtctgcaggaataaatttctt	12	14	11	4	1	2	1	0	1	2	0	2	3	2	3	0	3	2	2	0	3	5	6			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr17:29550553A>T	uc002hgg.2	+	16	2146	c.1813A>T	c.(1813-1815)ATC>TTC	p.I605F	NF1_uc002hgh.2_Missense_Mutation_p.I605F|NF1_uc010csn.1_Missense_Mutation_p.I465F|NF1_uc002hgi.1_5'Flank	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	605					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		GGAAATATTGATCTGCAGGAA	0.313			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			15	112					0	0	0.00499	0	0		T	29550553	T	T	29550553	3	4	132	1	0	0	0	0	1	0	0	0	10375	333	12	5	1936	5	NF1	17	29550553	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08	21972995	29550553	51644657	108	72492											
EVI2B	2124	broad.mit.edu	37	chr17	29632425	29632425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggcaggtgatattgattgtCcagaaaaagtgtcgctgaat	12	12	12	5	1	0	4	0	3	0	1	2	4	1	4	1	2	0	2	1	2	4	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr17:29632425C>T	uc002hgk.2	-	2	358	c.203G>A	c.(202-204)GGA>GAA	p.G68E	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2B_uc010csq.2_Missense_Mutation_p.G83E	NM_006495	NP_006486	P34910	EVI2B_HUMAN	ecotropic viral integration site 2B precursor	68	Extracellular (Potential).					cytoplasm|integral to plasma membrane				ovary(2)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;6.88e-13)|Epithelial(4;8.95e-12)|OV - Ovarian serous cystadenocarcinoma(4;1.01e-11)|GBM - Glioblastoma multiforme(4;0.184)		TATTGATTGTCCAGAAAAAGT	0.428													56	336					0	0	0.01441	0	0		T	29632425	T	T	29632425	3	4	132	1	0	0	0	0	1	0	0	0	5296	855	30	4	1147	4	EVI2B	17	29632425	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	81872	29632425	51562785	109	72493			1	33		4	4	132	C		3.242182e-11
EVI2B	2124	broad.mit.edu	37	chr17	29632469	29632469	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gttggttgacccaaaggattCcctgttgtgttttgagaatt	8	16	11	6	0	0	2	0	2	0	1	1	4	1	3	2	2	0	4	2	2	2	7			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr17:29632469C>T	uc002hgk.2	-	2	314	c.159G>A	c.(157-159)GGG>GGA	p.G53G	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2B_uc010csq.2_Silent_p.G68G	NM_006495	NP_006486	P34910	EVI2B_HUMAN	ecotropic viral integration site 2B precursor	53	Extracellular (Potential).					cytoplasm|integral to plasma membrane				ovary(2)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;6.88e-13)|Epithelial(4;8.95e-12)|OV - Ovarian serous cystadenocarcinoma(4;1.01e-11)|GBM - Glioblastoma multiforme(4;0.184)		CCAAAGGATTCCCTGTTGTGT	0.418													52	379					0	0	0.01441	0	0		T	29632469	T	T	29632469	2	4	132	1	0	0	0	0	0	0	0	1	5296	842	30	4		4	EVI2B	17	29632469	Silent	SNP	C	TCGA-CG-4440-01A-01D-1158-08	44	29632469	51562741	110	72494			1	33		4	4	132	C		3.242182e-11
EVI2B	2124	broad.mit.edu	37	chr17	29632543	29632543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtaggctgtgactgcttctCtgttgtaattgtctctgtct	4	18	11	8	0	3	1	0	1	3	0	5	1	3	1	0	2	1	5	0	2	2	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr17:29632543C>T	uc002hgk.2	-	2	240	c.85G>A	c.(85-87)GAG>AAG	p.E29K	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2B_uc010csq.2_Missense_Mutation_p.E44K	NM_006495	NP_006486	P34910	EVI2B_HUMAN	ecotropic viral integration site 2B precursor	29	Extracellular (Potential).					cytoplasm|integral to plasma membrane				ovary(2)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;6.88e-13)|Epithelial(4;8.95e-12)|OV - Ovarian serous cystadenocarcinoma(4;1.01e-11)|GBM - Glioblastoma multiforme(4;0.184)		GACTGCTTCTCTGTTGTAATT	0.358													20	267					0	0	0.010818	0	0		T	29632543	T	T	29632543	3	4	132	1	0	0	0	0	1	0	0	0	5296	922	32	4	1265	4	EVI2B	17	29632543	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	74	29632543	51562667	111	72495			1	33		4	4	132	C		3.242182e-11
EVI2B	2124	broad.mit.edu	37	chr17	29632556	29632556	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttctctgttgtaattgtCtctgtctttgaaaaaaatgt	9	19	7	6	0	3	1	0	1	3	0	5	1	3	1	0	0	1	3	0	0	4	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr17:29632556C>A	uc002hgk.2	-	2	227	c.72G>T	c.(70-72)GAG>GAT	p.E24D	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2B_uc010csq.2_Missense_Mutation_p.E39D	NM_006495	NP_006486	P34910	EVI2B_HUMAN	ecotropic viral integration site 2B precursor	24	Extracellular (Potential).					cytoplasm|integral to plasma membrane				ovary(2)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;6.88e-13)|Epithelial(4;8.95e-12)|OV - Ovarian serous cystadenocarcinoma(4;1.01e-11)|GBM - Glioblastoma multiforme(4;0.184)		TTGTAATTGTCTCTGTCTTTG	0.363													12	238					9.39395e-14	1.03636e-13	0.00632	1	0		A	29632556	A	A	29632556	3	1	132	1	0	0	0	0	1	0	0	0	5296	912	32	5	1278	5	EVI2B	17	29632556	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	13	29632556	51562654	112	72496			1	33		4	4	132	C		3.242182e-11
SLFN11	91607	broad.mit.edu	37	chr17	33690427	33690427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagaggtctcagatctacGgtataatgaagaactgaggc	14	8	11	8	1	2	5	1	2	2	3	3	5	2	5	0	3	2	1	0	3	5	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr17:33690427G>A	uc010ctp.2	-	4	842	c.400C>T	c.(400-402)CGT>TGT	p.R134C	SLFN11_uc010ctq.2_Missense_Mutation_p.R134C|SLFN11_uc002hjh.3_Missense_Mutation_p.R134C|SLFN11_uc002hjg.3_Missense_Mutation_p.R134C|SLFN11_uc010ctr.2_Missense_Mutation_p.R134C	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	134						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TCAGATCTACGGTATAATGAA	0.453													54	76					0	0	0.01441	0	0		A	33690427	A	A	33690427	3	1	132	1	0	0	0	0	1	0	0	0	14758	1116	39	1	2321	1	SLFN11	17	33690427	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	4057871	33690427	47504783	113	72497											
C17orf53	78995	broad.mit.edu	37	chr17	42226115	42226115	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagtggcaaagctcatttacCcagacctcgaactcccaact	13	8	6	14	1	1	1	1	0	0	1	3	2	2	1	3	1	4	2	3	1	5	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr17:42226115C>A	uc002ifi.1	+	3	1129	c.944C>A	c.(943-945)CCC>CAC	p.P315H	C17orf53_uc010czq.1_Missense_Mutation_p.P315H|C17orf53_uc002ifj.1_Missense_Mutation_p.P315H|C17orf53_uc002ifk.1_RNA	NM_024032	NP_076937	Q8N3J3	CQ053_HUMAN	hypothetical protein LOC78995	315											0		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		GCTCATTTACCCAGACCTCGA	0.502													94	452					5.78178e-49	6.81852e-49	0.01441	1	0		A	42226115	A	A	42226115	3	1	132	1	0	0	0	0	1	0	0	0	1865	623	22	5	954	5	C17orf53	17	42226115	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	8535688	42226115	38969095	114	72498											
NFE2L1	4779	broad.mit.edu	37	chr17	46128984	46128984	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtcagtggagacttaacCaaagaggttagtggacctgt	12	9	12	8	0	1	2	1	0	0	2	1	4	1	3	3	3	1	1	3	3	3	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr17:46128984C>T	uc002imz.3	+	2	1155	c.504C>T	c.(502-504)ACC>ACT	p.T168T	NFE2L1_uc002ina.3_Silent_p.T168T|NFE2L1_uc002inb.3_Silent_p.T168T|NFE2L1_uc002inc.1_Silent_p.T168T	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	168	Asp/Glu-rich (acidic).				anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						GAGACTTAACCAAAGAGGTTA	0.587													42	98					0	0	0.01441	0	0		T	46128984	T	T	46128984	2	4	132	1	0	0	0	0	0	0	0	1	10386	581	21	4		4	NFE2L1	17	46128984	Silent	SNP	C	TCGA-CG-4440-01A-01D-1158-08	3902869	46128984	35066226	115	72499											
USH1G	124590	broad.mit.edu	37	chr17	72916295	72916295	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttctgcatcttggtcttGcccctggccgtgccgtgcag	2	14	11	14	2	4	0	0	0	4	0	4	0	4	0	4	2	4	2	4	2	0	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr17:72916295G>A	uc002jme.1	-	2	819	c.636C>T	c.(634-636)GGC>GGT	p.G212G	USH1G_uc010wro.1_Silent_p.G109G	NM_173477	NP_775748	Q495M9	USH1G_HUMAN	Usher syndrome 1G protein	212					equilibrioception|photoreceptor cell maintenance|sensory perception of sound	actin cytoskeleton				skin(2)	2	all_lung(278;0.172)|Lung NSC(278;0.207)					TCTTGGTCTTGCCCCTGGCCG	0.692													80	54					0	0	0.01441	0	0		A	72916295	A	A	72916295	2	1	132	1	0	0	0	0	0	0	0	1	17061	1306	46	2		2	USH1G	17	72916295	Silent	SNP	G	TCGA-CG-4440-01A-01D-1158-08	26787311	72916295	8278915	116	72500											
OR2Z1	284383	broad.mit.edu	37	chr19	8841852	8841852	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcctgggtggtaggtgtgctCaacgcctccatccagacctc	6	10	11	14	1	1	1	1	0	0	1	5	1	4	1	5	3	2	2	5	3	2	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr19:8841852C>G	uc010xkg.1	+	1	462	c.462C>G	c.(460-462)CTC>CTG	p.L154L		NM_001004699	NP_001004699	Q8NG97	OR2Z1_HUMAN	olfactory receptor, family 2, subfamily Z,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2						TAGGTGTGCTCAACGCCTCCA	0.547													37	147					0	0	0.019004	0	0		G	8841852	G	G	8841852	2	3	132	1	0	0	0	0	0	0	0	1	11055	813	29	5		5	OR2Z1	19	8841852	Silent	SNP	C	TCGA-CG-4440-01A-01D-1158-08		8841852	50287131	117	72501											
OR7G3	390883	broad.mit.edu	37	chr19	9237253	9237253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctcagtgggtgacagatgGccacaaatcgatcataggcc	12	7	11	11	1	2	2	2	1	0	1	3	3	2	2	3	3	0	0	3	3	2	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr19:9237253G>A	uc010xkl.1	-	1	374	c.374C>T	c.(373-375)GCC>GTC	p.A125V		NM_001001958	NP_001001958	Q8NG95	OR7G3_HUMAN	olfactory receptor, family 7, subfamily G,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTGACAGATGGCCACAAATCG	0.478													35	80					0	0	0.012213	0	0		A	9237253	A	A	9237253	3	1	132	1	0	0	0	0	1	0	0	0	11243	1203	42	2	567	2	OR7G3	19	9237253	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	395401	9237253	49891730	118	72502											
GCDH	2639	broad.mit.edu	37	chr19	13004403	13004403	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgagtgtccagtcctccctCgtcatgcaccctatctatgc	7	12	7	15	1	2	1	1	1	1	0	6	1	5	1	4	0	2	1	4	0	2	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr19:13004403C>T	uc002mvq.2	+	6	518	c.441C>T	c.(439-441)CTC>CTT	p.L147L	GCDH_uc010xms.1_Silent_p.L114L|GCDH_uc002mvp.2_Silent_p.L147L|GCDH_uc010xmt.1_5'UTR|GCDH_uc010xmu.1_Silent_p.L103L	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a	147					lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						AGTCCTCCCTCGTCATGCACC	0.632													17	74					0	0	0.014323	0	0		T	13004403	T	T	13004403	2	4	132	1	0	0	0	0	0	0	0	1	6302	871	31	1		1	GCDH	19	13004403	Silent	SNP	C	TCGA-CG-4440-01A-01D-1158-08	3767150	13004403	46124580	119	72503											
EMR3	84658	broad.mit.edu	37	chr19	14762009	14762009	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtctgtaatcgcttgagtTtcaatagctggtaagaaaag	12	14	10	5	1	2	2	1	1	1	1	3	2	2	2	0	1	1	5	0	1	6	6			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr19:14762009T>G	uc002mzi.3	-	7	733	c.585A>C	c.(583-585)GAA>GAC	p.E195D	EMR3_uc010dzp.2_Missense_Mutation_p.E143D|EMR3_uc010xnv.1_Missense_Mutation_p.E69D	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	195	Extracellular (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						TCGCTTGAGTTTCAATAGCTG	0.333													53	40					0	0	0.01441	0	0		G	14762009	G	G	14762009	3	3	132	1	0	0	0	0	1	0	0	0	5114	1838	64	5	1413	5	EMR3	19	14762009	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	1757606	14762009	44366974	120	72504											
TM6SF2	53345	broad.mit.edu	37	chr19	19381866	19381866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cataggagacctcgccatggGacaagctgtagaccgccacg	11	5	12	13	3	0	2	0	0	0	2	1	4	0	3	4	2	1	2	4	2	3	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr19:19381866G>A	uc002nmd.1	-	2	214	c.164C>T	c.(163-165)TCC>TTC	p.S55F	HAPLN4_uc002nmc.2_5'UTR	NM_001001524	NP_001001524	Q9BZW4	TM6S2_HUMAN	transmembrane 6 superfamily member 2	55						integral to membrane					0			Epithelial(12;0.0151)			CTCGCCATGGGACAAGCTGTA	0.597													38	54					0	0	0.007835	0	0		A	19381866	A	A	19381866	3	1	132	1	0	0	0	0	1	0	0	0	15998	1174	41	4	1005	4	TM6SF2	19	19381866	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	4619857	19381866	39747117	121	72505											
NOVA2	4858	broad.mit.edu	37	chr19	46443906	46443906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacatccgcggggctggCgtacggagagccggtggggt	6	5	19	11	5	0	1	0	0	0	1	1	2	1	1	2	7	3	3	2	7	1	1			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr19:46443906C>T	uc002pdv.2	-	4	742	c.694G>A	c.(694-696)GCC>ACC	p.A232T		NM_002516	NP_002507	Q9UNW9	NOVA2_HUMAN	neuro-oncological ventral antigen 2	232	Ala-rich.					nucleus	RNA binding				0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00245)|GBM - Glioblastoma multiforme(486;0.0782)|Epithelial(262;0.179)		GCGGGGCTGGCGTACGGAGAG	0.731													7	20					0	0	0.00308	0	0		T	46443906	T	T	46443906	3	4	132	1	0	0	0	0	1	0	0	0	10574	768	27	1	788	1	NOVA2	19	46443906	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	27062040	46443906	12685077	122	72506											
IGFL4	444882	broad.mit.edu	37	chr19	46543157	46543157	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccagaacagtctagatgAggtcagatcttgacacaggg	13	7	11	10	0	3	5	1	2	2	3	3	5	3	5	2	2	1	0	2	2	2	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr19:46543157A>C	uc002pdy.1	-	4	422	c.368T>G	c.(367-369)CTC>CGC	p.L123R		NM_001002923	NP_001002923	Q6B9Z1	IGFL4_HUMAN	IGF-like family member 4 precursor	123						extracellular region					0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.0036)|GBM - Glioblastoma multiforme(486;0.022)|Epithelial(262;0.208)		AGTCTAGATGAGGTCAGATCT	0.423													49	174					0	0	0.01441	0	0		C	46543157	C	C	46543157	3	2	132	1	0	0	0	0	1	0	0	0	7605	304	11	5	10	5	IGFL4	19	46543157	Missense_Mutation	SNP	A	TCGA-CG-4440-01A-01D-1158-08	99251	46543157	12585826	123	72507											
ZNF320	162967	broad.mit.edu	37	chr19	53367144	53367144	+	RNA	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agatacaaaataacatgctgGgcatggtggcacgtgcctgg	12	8	13	8	1	0	1	0	0	0	1	0	1	0	1	1	4	4	3	1	4	4	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr19:53367144G>C	uc010eqh.1	-	3		c.533C>G			ZNF320_uc010eqi.1_RNA			A2RRD8	ZN320_HUMAN	Homo sapiens full length insert cDNA clone ZD42C02.						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		taacatgctgggcatggtggc	0.134													5	19					0	0	0.014758	0	0		C	53367144	C	C	53367144	1	2	132	0	1	0	0	0	0	0	0	0	17864	1247	43	5		5	ZNF320	19	53367144	RNA	SNP	G	TCGA-CG-4440-01A-01D-1158-08	6823987	53367144	5761839	124	72508											
FIZ1	84922	broad.mit.edu	37	chr19	56104081	56104081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgaagatcttcttgccgCggccggagccagacgggggt	7	6	16	12	5	2	2	0	0	2	2	2	4	2	3	4	4	3	0	4	4	1	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr19:56104081C>T	uc002qli.3	-	3	1316	c.1226G>A	c.(1225-1227)CGC>CAC	p.R409H	FIZ1_uc002qlj.3_Missense_Mutation_p.R409H	NM_032836	NP_116225	Q96SL8	FIZ1_HUMAN	FLT3-interacting zinc finger 1	409					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein kinase binding|receptor binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		CTTCTTGCCGCGGCCGGAGCC	0.721													23	126					0	0	0.004656	0	0		T	56104081	T	T	56104081	3	4	132	1	0	0	0	0	1	0	0	0	5914	768	27	1	268	1	FIZ1	19	56104081	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	2736937	56104081	3024902	125	72509											
NLRP8	126205	broad.mit.edu	37	chr19	56465888	56465888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaaatacggcggtataaatCgaatgtgatggaaaagtttt	16	12	10	3	3	0	1	0	1	0	0	1	3	0	2	0	3	1	2	0	3	9	6			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr19:56465888C>T	uc002qmh.2	+	3	535	c.464C>T	c.(463-465)TCG>TTG	p.S155L	NLRP8_uc010etg.2_Missense_Mutation_p.S155L	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	155						cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		CGGTATAAATCGAATGTGATG	0.418													37	128					0	0	0.019004	0	0		T	56465888	T	T	56465888	3	4	132	1	0	0	0	0	1	0	0	0	10502	893	31	1	474	1	NLRP8	19	56465888	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	361807	56465888	2663095	126	72510											
TGM2	7052	broad.mit.edu	37	chr20	36767991	36767991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcaaagacaaagggcgcatCgtacttggtgctcaggtcgc	10	7	13	11	4	1	1	1	0	0	1	3	1	1	1	0	3	2	4	0	3	3	2	rs41274716		TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr20:36767991C>T	uc002xhr.2	-	9	1265	c.1165G>A	c.(1165-1167)GAT>AAT	p.D389N	TGM2_uc010zvx.1_Missense_Mutation_p.D308N|TGM2_uc010zvy.1_Missense_Mutation_p.D329N|TGM2_uc002xhs.1_Missense_Mutation_p.D365N|TGM2_uc002xht.2_Missense_Mutation_p.D389N	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	389					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)	AAGGGCGCATCGTACTTGGTG	0.582													18	118					0	0	0.00499	0	0		T	36767991	T	T	36767991	3	4	132	1	0	0	0	0	1	0	0	0	15855	884	31	1	950	1	TGM2	20	36767991	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08		36767991	26257529	127	72511											
TSHZ2	128553	broad.mit.edu	37	chr20	51872284	51872284	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtttgagaacagcgatCagcccattgacctgaccaag	12	8	9	12	1	1	3	1	3	0	1	1	5	1	3	4	0	3	1	4	0	2	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr20:51872284C>A	uc002xwo.2	+	2	3243	c.2287C>A	c.(2287-2289)CAG>AAG	p.Q763K		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	763					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GAACAGCGATCAGCCCATTGA	0.542													87	219					3.89792e-41	4.53432e-41	0.01441	1	0		A	51872284	A	A	51872284	3	1	132	1	0	0	0	0	1	0	0	0	16650	827	29	5	2293	5	TSHZ2	20	51872284	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	15104293	51872284	11153236	128	72512											
CDH26	60437	broad.mit.edu	37	chr20	58547035	58547035	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgttcaataatatgtctTataacatgtcactaatgtat	14	16	5	6	0	3	0	2	0	1	0	3	0	3	0	0	0	2	3	0	0	7	7			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr20:58547035T>C	uc002ybe.2	+	4	550	c.250T>C	c.(250-252)TAT>CAT	p.Y84H	CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	84	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			TAATATGTCTTATAACATGTC	0.358													70	134					0	0	0.01441	0	0		C	58547035	C	C	58547035	3	2	132	1	0	0	0	0	1	0	0	0	3113	1754	61	3	264	3	CDH26	20	58547035	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08	6674751	58547035	4478485	129	72513											
LAMA5	3911	broad.mit.edu	37	chr20	60899589	60899589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagagacctttgacgtcccGatagaagccgggggcacatt	11	7	13	10	3	0	3	0	1	0	2	1	6	1	3	3	2	1	1	3	2	3	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr20:60899589G>A	uc002ycq.2	-	42	5618	c.5551C>T	c.(5551-5553)CGG>TGG	p.R1851W		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	1851	Laminin EGF-like 16; second part.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTGACGTCCCGATAGAAGCCG	0.622													17	33					0	0	0.006122	0	0		A	60899589	A	A	60899589	3	1	132	1	0	0	0	0	1	0	0	0	8625	1057	37	1	5692	1	LAMA5	20	60899589	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	2352554	60899589	2125931	130	72514											
DSCAM	1826	broad.mit.edu	37	chr21	41561117	41561117	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agctcatctcctttttctgcCcctgcgtggccagggtagta	5	13	10	13	1	3	0	1	0	2	0	4	0	3	0	4	2	3	3	4	2	2	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr21:41561117C>A	uc002yyq.1	-	12	2857	c.2405G>T	c.(2404-2406)GGG>GTG	p.G802V	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	802	Ig-like C2-type 9.|Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CTTTTTCTGCCCCTGCGTGGC	0.493													25	80					4.87955e-14	5.41821e-14	0.005443	1	0		A	41561117	A	A	41561117	3	1	132	1	0	0	0	0	1	0	0	0	4774	623	22	5	3721	5	DSCAM	21	41561117	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08		41561117	6568778	131	72515											
UMODL1	89766	broad.mit.edu	37	chr21	43543199	43543199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctgcaacgtgagccacaGcaatggcacacacgtgctcc	10	6	9	16	2	0	1	0	1	0	0	2	1	2	1	3	1	5	4	3	1	2	0			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr21:43543199G>A	uc002zaf.1	+	17	3086	c.3086G>A	c.(3085-3087)AGC>AAC	p.S1029N	UMODL1_uc002zad.1_Missense_Mutation_p.S957N|UMODL1_uc002zae.1_Missense_Mutation_p.S1085N|UMODL1_uc002zag.1_Missense_Mutation_p.S1157N|UMODL1_uc002zal.1_5'UTR	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	1029	Extracellular (Potential).|ZP.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						GTGAGCCACAGCAATGGCACA	0.612													6	47					0	0	0.006214	0	0		A	43543199	A	A	43543199	3	1	132	1	0	0	0	0	1	0	0	0	17006	971	34	2	3532	2	UMODL1	21	43543199	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	1982082	43543199	4586696	132	72516											
C22orf31	25770	broad.mit.edu	37	chr22	29456825	29456825	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggtctcgtctcacattgaTtgggtgctagaattataagg	9	13	13	6	1	2	2	1	1	2	1	4	2	2	2	0	4	1	1	0	4	4	5			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr22:29456825T>G	uc003aej.1	-	2	137	c.10A>C	c.(10-12)ATC>CTC	p.I4L		NM_015370	NP_056185	O95567	CV031_HUMAN	hypothetical protein LOC25770	4											0						CTCACATTGATTGGGTGCTAG	0.418													50	191					0	0	0.01441	0	0		G	29456825	G	G	29456825	3	3	132	1	0	0	0	0	1	0	0	0	2146	1493	52	5	870	5	C22orf31	22	29456825	Missense_Mutation	SNP	T	TCGA-CG-4440-01A-01D-1158-08		29456825	21847741	133	72517											
C22orf28	51493	broad.mit.edu	37	chr22	32797882	32797882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacagttgatgtcaaaccCgacaccacctacaaaataga	17	6	5	13	1	1	2	1	1	0	1	1	3	1	2	4	0	2	1	4	0	5	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr22:32797882C>T	uc003amm.2	-	5	480	c.349G>A	c.(349-351)GGG>AGG	p.G117R	C22orf28_uc011ama.1_RNA	NM_014306	NP_055121	Q9Y3I0	RTCB_HUMAN	hypothetical protein LOC51493	117					cell-matrix adhesion|substrate adhesion-dependent cell spreading|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|tRNA-splicing ligase complex	ATP binding|metal ion binding|RNA ligase (ATP) activity|vinculin binding				0						ATGTCAAACCCGACACCACCT	0.433													20	41					0	0	0.008871	0	0		T	32797882	T	T	32797882	3	4	132	1	0	0	0	0	1	0	0	0	2143	652	23	1	1200	1	C22orf28	22	32797882	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	3341057	32797882	18506684	134	72518											
SYN3	8224	broad.mit.edu	37	chr22	32914313	32914313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaggagactgagcttggcGagggcctcctaaggggccag	8	6	17	10	1	0	3	0	2	0	1	1	5	1	3	3	5	1	1	3	5	1	2			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chr22:32914313G>A	uc003amx.2	-	12	1486	c.1327C>T	c.(1327-1329)CGC>TGC	p.R443C	SYN3_uc003amy.2_Intron|SYN3_uc003amz.2_Missense_Mutation_p.R442C|SYN3_uc011amc.1_Missense_Mutation_p.R77C	NM_003490	NP_003481	O14994	SYN3_HUMAN	synapsin III isoform IIIa	443	J; Pro-rich linker.				neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1						TGAGCTTGGCGAGGGCCTCCT	0.463													26	109					0	0	0.004656	0	0		A	32914313	A	A	32914313	3	1	132	1	0	0	0	0	1	0	0	0	15467	1058	37	1	423	1	SYN3	22	32914313	Missense_Mutation	SNP	G	TCGA-CG-4440-01A-01D-1158-08	116431	32914313	18390253	135	72519											
WAS	7454	broad.mit.edu	37	chrX	48542701	48542701	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actgcagttgttcagctgtaCctggcgctgccccctggagc	5	10	12	14	1	1	0	1	0	0	0	1	1	1	1	3	2	5	6	3	2	1	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chrX:48542701C>T	uc004dkm.3	+	2	219	c.162C>T	c.(160-162)TAC>TAT	p.Y54Y		NM_000377	NP_000368	P42768	WASP_HUMAN	Wiskott-Aldrich syndrome protein	54	WH1.				blood coagulation|defense response|epidermis development|immune response|T cell receptor signaling pathway	actin cytoskeleton|cytosol	identical protein binding|small GTPase regulator activity			ovary(1)	1		all_lung(315;1.27e-10)				TTCAGCTGTACCTGGCGCTGC	0.592			Mis|N|F|S			lymphoma			Wiskott-Aldrich_syndrome				18	37					0	0	0.012319	0	0		T	48542701	T	T	48542701	2	4	132	1	0	0	0	0	0	0	0	1	17277	518	18	4		4	WAS	23	48542701	Silent	SNP	C	TCGA-CG-4440-01A-01D-1158-08		48542701	106727859	136	72520											
PHF8	23133	broad.mit.edu	37	chrX	54020053	54020053	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctttgctttctggaaagagCctgtcttcagtgcctgatga	7	14	10	10	0	3	3	1	2	2	1	3	4	3	4	3	1	3	1	3	1	1	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chrX:54020053C>G	uc004dsu.2	-	13	1788	c.1715G>C	c.(1714-1716)GGC>GCC	p.G572A	PHF8_uc004dst.2_Missense_Mutation_p.G536A|PHF8_uc004dsv.2_Missense_Mutation_p.G402A|PHF8_uc004dsw.2_Intron|PHF8_uc004dsx.2_Missense_Mutation_p.G300A|PHF8_uc004dsy.2_Missense_Mutation_p.G536A	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	572					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						CTGGAAAGAGCCTGTCTTCAG	0.537													32	46					0	0	0.021022	0	0		G	54020053	G	G	54020053	3	3	132	1	0	0	0	0	1	0	0	0	11859	739	26	5	1677	5	PHF8	23	54020053	Missense_Mutation	SNP	C	TCGA-CG-4440-01A-01D-1158-08	5477352	54020053	101250507	137	72521											
KIAA1210	57481	broad.mit.edu	37	chrX	118223450	118223450	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaagtgcgagaaagggacAttcctggcagtcttattggt	11	10	13	7	1	1	1	0	0	1	1	2	4	2	2	1	3	1	1	1	3	3	3			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chrX:118223450A>G	uc004era.3	-	11	1743	c.1743T>C	c.(1741-1743)AAT>AAC	p.N581N		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	581										ovary(4)|skin(1)	5						AGAAAGGGACATTCCTGGCAG	0.488													50	52					0	0	0.01441	0	0		G	118223450	G	G	118223450	2	3	132	1	0	0	0	0	0	0	0	1	8230	214	8	3		3	KIAA1210	23	118223450	Silent	SNP	A	TCGA-CG-4440-01A-01D-1158-08	64203397	118223450	37047110	138	72522											
ATP11C	286410	broad.mit.edu	37	chrX	138880884	138880884	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagctcctttcagcaagagAttttcaggtcccaaagacct	11	11	8	11	0	2	2	2	0	0	2	4	3	4	2	3	1	2	3	3	1	3	4			TCGA-CG-4440-01A-01D-1158-08	TCGA-CG-4440-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	9fa09359-fa06-45ba-8f72-6ebaad4741d5	dabcae8d-c2d2-4c9d-aa90-04012910d357	g.chrX:138880884A>G	uc004faz.2	-	9	837	c.738T>C	c.(736-738)AAT>AAC	p.N246N	ATP11C_uc004fay.2_5'Flank|ATP11C_uc004fba.2_Silent_p.N246N	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	246	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					TCAGCAAGAGATTTTCAGGTC	0.373													9	40					0	0	0.006214	0	0		G	138880884	G	G	138880884	2	3	132	1	0	0	0	0	0	0	0	1	1122	330	12	3		3	ATP11C	23	138880884	Silent	SNP	A	TCGA-CG-4440-01A-01D-1158-08	20657434	138880884	16389676	139	72523											
TNFRSF9	3604	broad.mit.edu	37	chr1	7980916	7980916	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagttcacatcctccttcTtcttcttctggaaatcggca	8	14	5	14	1	5	0	1	0	4	0	8	1	7	1	2	2	0	2	2	2	1	5			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:7980916T>G	uc001aot.2	-	8	875	c.747A>C	c.(745-747)GAA>GAC	p.E249D		NM_001561	NP_001552	Q07011	TNR9_HUMAN	tumor necrosis factor receptor superfamily,	249	Cytoplasmic (Potential).|Interaction with LRR-1.				induction of apoptosis|negative regulation of cell proliferation	integral to plasma membrane	binding|receptor activity			large_intestine(1)|lung(1)|ovary(1)|skin(1)	4	Ovarian(185;0.0634)|all_lung(157;0.151)	all_epithelial(116;9.63e-21)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.000625)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.93e-71)|GBM - Glioblastoma multiforme(8;3.72e-37)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;7.71e-06)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000419)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00103)|READ - Rectum adenocarcinoma(331;0.0649)		ATCCTCCTTCTTCTTCTTCTG	0.378													50	102					0	0	0.048971	0	0		G	7980916	G	G	7980916	3	3	133	1	0	0	0	0	1	0	0	0	16325	1606	56	5	24	5	TNFRSF9	1	7980916	Missense_Mutation	SNP	T	TCGA-CG-4441-01A-01D-1800-08		7980916	241269705	1	72524											
PRAMEF6	440561	broad.mit.edu	37	chr1	13001286	13001286	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggacagtcctgcactggtgTtttgttcctcttggcattga	5	16	11	9	0	1	1	0	1	1	0	3	2	3	2	2	3	1	4	2	3	0	5			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:13001286T>G	uc001auq.2	-	3	483	c.397A>C	c.(397-399)ACA>CCA	p.T133P	PRAMEF5_uc001aur.2_Intron	NM_001010889	NP_001010889	Q5VXH4	PRAM6_HUMAN	PRAME family member 6	133											0	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TGCACTGGTGTTTTGTTCCTC	0.498													139	411					0	0	0.048971	0	0		G	13001286	G	G	13001286	3	3	133	1	0	0	0	0	1	0	0	0	12460	1725	60	5	1041	5	PRAMEF6	1	13001286	Missense_Mutation	SNP	T	TCGA-CG-4441-01A-01D-1800-08	5020370	13001286	236249335	2	72525											
SDHB	6390	broad.mit.edu	37	chr1	17349180	17349180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctgcagcttggccaggcGctcctctgtgaagtcatctc	5	11	11	14	1	3	1	1	1	2	0	6	1	5	1	3	2	2	3	3	2	1	1	rs138996609	by1000genomes	TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:17349180G>A	uc001bae.2	-	7	839	c.688C>T	c.(688-690)CGC>TGC	p.R230C		NM_003000	NP_002991	P21912	DHSB_HUMAN	succinate dehydrogenase complex, subunit B, iron	230			R -> C (in pheochromocytoma).		respiratory electron transport chain|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	2 iron, 2 sulfur cluster binding|3 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|protein binding|succinate dehydrogenase (ubiquinone) activity|ubiquinone binding			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0049)|COAD - Colon adenocarcinoma(227;1.18e-05)|BRCA - Breast invasive adenocarcinoma(304;2.41e-05)|Kidney(64;0.000188)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)	Succinic acid(DB00139)	TTGGCCAGGCGCTCCTCTGTG	0.562			Mis|N|F			paraganglioma|pheochromocytoma			Familial_Paragangliomas|Carney-Stratakis_syndrome|Cowden_syndrome				17	33					0	0	0.0333	0	0		A	17349180	A	A	17349180	3	1	133	1	0	0	0	0	1	0	0	0	13990	1087	38	1	162	1	SDHB	1	17349180	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	4347894	17349180	231901441	3	72526											
GRIK3	2899	broad.mit.edu	37	chr1	37356689	37356689	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggccgtccgcatactcgaAgattcctcctgtgaaagatg	9	9	12	11	3	0	3	0	1	0	2	4	4	3	3	4	2	1	1	4	2	3	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:37356689A>C	uc001caz.2	-	2	259	c.124T>G	c.(124-126)TTC>GTC	p.F42V	GRIK3_uc001cba.1_Missense_Mutation_p.F42V	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	42	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GCATACTCGAAGATTCCTCCT	0.502													50	121					0	0	0.048971	0	0		C	37356689	C	C	37356689	3	2	133	1	0	0	0	0	1	0	0	0	6791	72	3	5	2695	5	GRIK3	1	37356689	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08	20007509	37356689	211893932	4	72527											
MTF1	4520	broad.mit.edu	37	chr1	38323055	38323055	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagataatgtgctgcacataAccctgggacattgcttcatg	11	11	10	9	0	1	1	1	0	0	1	1	3	1	2	1	1	4	3	1	1	2	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:38323055A>C	uc001cce.1	-	2	417	c.276T>G	c.(274-276)GGT>GGG	p.G92G	MTF1_uc009vvj.1_5'UTR	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	92						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GCTGCACATAACCCTGGGACA	0.473													16	58					0	0	0.024245	0	0		C	38323055	C	C	38323055	2	2	133	1	0	0	0	0	0	0	0	1	9940	30	2	5		5	MTF1	1	38323055	Silent	SNP	A	TCGA-CG-4441-01A-01D-1800-08	966366	38323055	210927566	5	72528											
DHCR24	1718	broad.mit.edu	37	chr1	55337221	55337221	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggatgatgcggatctcagcGgccaccaggaaacccagcgt	10	5	14	12	3	1	1	1	1	1	0	2	4	1	4	3	4	4	0	3	4	1	0			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:55337221G>A	uc001cyc.1	-	5	807	c.678C>T	c.(676-678)GCC>GCT	p.A226A	DHCR24_uc010ooj.1_Silent_p.A88A|DHCR24_uc010ook.1_Silent_p.A185A	NM_014762	NP_055577	Q15392	DHC24_HUMAN	24-dehydrocholesterol reductase precursor	226	FAD-binding PCMH-type.				anti-apoptosis|apoptosis|cell cycle arrest|cholesterol biosynthetic process|negative regulation of caspase activity|neuroprotection|response to oxidative stress|skin development	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus	delta24-sterol reductase activity|enzyme binding|flavin adenine dinucleotide binding|peptide antigen binding			pancreas(1)	1						GGATCTCAGCGGCCACCAGGA	0.567													6	44					0	0	0.021553	0	0		A	55337221	A	A	55337221	2	1	133	1	0	0	0	0	0	0	0	1	4482	1103	39	1		1	DHCR24	1	55337221	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	17014166	55337221	193913400	6	72529											
C8B	732	broad.mit.edu	37	chr1	57420479	57420479	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattgtccccattgcaaagaAgtctgcggtttacacacctt	10	12	7	12	1	1	1	0	0	1	1	2	1	2	1	3	1	3	2	3	1	3	5			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:57420479A>C	uc001cyp.2	-	4	480	c.413T>G	c.(412-414)CTT>CGT	p.L138R	C8B_uc010oon.1_Missense_Mutation_p.L76R|C8B_uc010ooo.1_Missense_Mutation_p.L86R	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	138	LDL-receptor class A.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						ATTGCAAAGAAGTCTGCGGTT	0.423													5	106					0	0	0.02938	0	0		C	57420479	C	C	57420479	3	2	133	1	0	0	0	0	1	0	0	0	2420	72	3	5	1398	5	C8B	1	57420479	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08	2083258	57420479	191830142	7	72530											
C8B	732	broad.mit.edu	37	chr1	57425760	57425760	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctcacaatcaatgggcAtcagggtaacatccacactc	14	7	7	13	0	3	0	3	0	0	0	5	0	4	0	1	2	2	3	1	2	3	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:57425760A>T	uc001cyp.2	-	2	249	c.182T>A	c.(181-183)ATG>AAG	p.M61K	C8B_uc010oon.1_5'UTR|C8B_uc010ooo.1_Missense_Mutation_p.M9K	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	61					complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						ATCAATGGGCATCAGGGTAAC	0.488													3	60					0	0	0.009096	0	0		T	57425760	T	T	57425760	3	4	133	1	0	0	0	0	1	0	0	0	2420	217	8	5	1637	5	C8B	1	57425760	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08	5281	57425760	191824861	8	72531											
C1orf173	127254	broad.mit.edu	37	chr1	75037488	75037488	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcgcttctgtctccagagtGcactctttgtcctcttcctc	4	16	6	15	1	4	1	0	0	4	1	9	1	6	1	3	0	1	2	3	0	0	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:75037488G>T	uc001dgg.2	-	14	4125	c.3906C>A	c.(3904-3906)TGC>TGA	p.C1302*		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1302	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TCTCCAGAGTGCACTCTTTGT	0.542													7	170					0.00198382	0.00205821	0.02938	1	0		T	75037488	T	T	75037488	4	4	133	1	0	0	0	0	0	1	0	0	2017	1311	46	5	690	5	C1orf173	1	75037488	Nonsense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	17611728	75037488	174213133	9	72532											
HFM1	164045	broad.mit.edu	37	chr1	91859732	91859732	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcaggaacactcttctcagGtgctatctcagtgccaatgt	10	12	8	11	0	4	0	3	0	3	0	6	1	4	1	1	2	3	1	1	2	3	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:91859732G>T	uc001doa.3	-	4	512	c.412C>A	c.(412-414)CCT>ACT	p.P138T	HFM1_uc010osu.1_Intron|HFM1_uc010osv.1_Intron|HFM1_uc001doc.1_Missense_Mutation_p.P138T	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	138							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		CTCTTCTCAGGTGCTATCTCA	0.333													23	54					3.5997e-14	3.98367e-14	0.069288	1	0		T	91859732	T	T	91859732	3	4	133	1	0	0	0	0	1	0	0	0	7099	1261	44	5	4039	5	HFM1	1	91859732	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	16822244	91859732	157390889	10	72533											
OR6N1	128372	broad.mit.edu	37	chr1	158736261	158736261	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtggcagctgtatagccaAgctctgagaaggagagaatg	12	8	15	6	0	1	2	0	1	1	2	1	5	1	3	1	3	3	4	1	3	5	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:158736261A>C	uc010piq.1	-	1	212	c.212T>G	c.(211-213)CTT>CGT	p.L71R		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	71	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TGTATAGCCAAGCTCTGAGAA	0.488													28	61					0	0	0.041601	0	0		C	158736261	C	C	158736261	3	2	133	1	0	0	0	0	1	0	0	0	11225	72	3	5	729	5	OR6N1	1	158736261	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08	66876529	158736261	90514360	11	72534											
ATP1A2	477	broad.mit.edu	37	chr1	160097392	160097392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccggacggtgatgggcCgcatagctactctcgcctca	8	7	13	13	4	2	2	1	1	1	1	3	4	2	3	3	3	2	2	3	3	2	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:160097392C>T	uc001fvc.2	+	8	931	c.799C>T	c.(799-801)CGC>TGC	p.R267C	ATP1A2_uc001fvb.2_Missense_Mutation_p.R267C|ATP1A2_uc010piz.1_Missense_Mutation_p.R112C|ATP1A2_uc001fvd.2_Missense_Mutation_p.R3C|ATP1A2_uc009wtg.1_5'Flank	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	267	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GGTGATGGGCCGCATAGCTAC	0.592													28	66					0	0	0.108266	0	0		T	160097392	T	T	160097392	3	4	133	1	0	0	0	0	1	0	0	0	1130	652	23	1	829	1	ATP1A2	1	160097392	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	1361131	160097392	89153229	12	72535											
C1orf111	284680	broad.mit.edu	37	chr1	162344042	162344042	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggctcttgaggaagtccagGgtggggtacatgcggcagca	8	8	17	8	1	1	1	0	1	1	0	2	2	2	2	1	6	3	4	1	6	2	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:162344042G>A	uc001gbx.2	-	3	646	c.582C>T	c.(580-582)ACC>ACT	p.T194T		NM_182581	NP_872387	Q5T0L3	CA111_HUMAN	hypothetical protein LOC284680	194										ovary(1)	1	all_hematologic(112;0.15)		BRCA - Breast invasive adenocarcinoma(70;0.0938)			GGAAGTCCAGGGTGGGGTACA	0.582													55	133					0	0	0.048971	0	0		A	162344042	A	A	162344042	2	1	133	1	0	0	0	0	0	0	0	1	1987	1219	43	4		4	C1orf111	1	162344042	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	2246650	162344042	86906579	13	72536											
FMO2	2327	broad.mit.edu	37	chr1	171154909	171154909	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggcctaatttctctgaaGtgctgtgtggatgagggact	8	13	14	6	0	1	2	0	2	1	0	2	4	1	4	1	3	1	1	1	3	2	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:171154909G>A	uc001ghk.1	+	2	174	c.57G>A	c.(55-57)AAG>AAA	p.K19K	FMO2_uc010pmd.1_Intron	NM_001460	NP_001451	Q99518	FMO2_HUMAN	flavin containing monooxygenase 2	19					drug metabolic process|NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|host cell microsome|integral to membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TTTCTCTGAAGTGCTGTGTGG	0.463													14	143					0	0	0.105934	0	0		A	171154909	A	A	171154909	2	1	133	1	0	0	0	0	0	0	0	1	5969	1020	36	4		4	FMO2	1	171154909	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	8810867	171154909	78095712	14	72537											
FAM5B	57795	broad.mit.edu	37	chr1	177245501	177245501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccctgatgctgacatccagGccatggaggacagcctgctg	8	7	13	13	0	0	2	0	2	0	0	1	4	1	4	4	3	3	2	4	3	0	0			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:177245501G>A	uc001glf.2	+	6	1255	c.943G>A	c.(943-945)GCC>ACC	p.A315T	FAM5B_uc010pna.1_Missense_Mutation_p.A65T|FAM5B_uc001glg.2_Missense_Mutation_p.A210T	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	315						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TGACATCCAGGCCATGGAGGA	0.572													9	29					0	0	0.069234	0	0		A	177245501	A	A	177245501	3	1	133	1	0	0	0	0	1	0	0	0	5607	1203	42	2	961	2	FAM5B	1	177245501	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	6090592	177245501	72005120	15	72538											
CFH	3075	broad.mit.edu	37	chr1	196716376	196716376	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggatatcgtctttcatcacGttctcacacattgcgaacaa	11	12	7	11	3	4	0	3	0	2	0	6	2	4	1	0	1	2	1	0	1	3	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:196716376G>A	uc001gtj.3	+	22	3869	c.3629G>A	c.(3628-3630)CGT>CAT	p.R1210H		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	1210	Sushi 20.		R -> C (in CFH deficiency).		complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						CTTTCATCACGTTCTCACACA	0.388													28	57					0	0	0.037714	0	0		A	196716376	A	A	196716376	3	1	133	1	0	0	0	0	1	0	0	0	3286	1145	40	1	3733	1	CFH	1	196716376	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	19470875	196716376	52534245	16	72539											
OR2L13	284521	broad.mit.edu	37	chr1	248263095	248263095	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcatgagtaaaatgatgTgtgtgaagatgattggaggc	12	11	14	4	1	0	5	0	4	0	1	1	6	1	6	1	2	0	2	1	2	3	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:248263095T>A	uc001ids.2	+	3	755	c.418T>A	c.(418-420)TGT>AGT	p.C140S		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			TAAAATGATGTGTGTGAAGAT	0.498													74	151					0	0	0.048971	0	0		A	248263095	A	A	248263095	3	1	133	1	0	0	0	0	1	0	0	0	11025	1696	59	5	420	5	OR2L13	1	248263095	Missense_Mutation	SNP	T	TCGA-CG-4441-01A-01D-1800-08	51546719	248263095	987526	17	72540											
OR2T12	127064	broad.mit.edu	37	chr1	248457972	248457972	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaggtttacacacgtcccCagccaccgtttcagggcttc	7	12	8	14	2	1	0	1	0	0	0	3	0	2	0	4	2	2	3	4	2	2	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr1:248457972C>T	uc010pzj.1	-	1	909	c.909G>A	c.(907-909)CTG>CTA	p.L303L		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			CACACGTCCCCAGCCACCGTT	0.438													70	130					0	0	0.048971	0	0		T	248457972	T	T	248457972	2	4	133	1	0	0	0	0	0	0	0	1	11038	581	21	4		4	OR2T12	1	248457972	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08	194877	248457972	792649	18	72541											
RAB10	10890	broad.mit.edu	37	chr2	26350094	26350094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagttgtacctaaaggaaaaGgagaacaggtaaaaatctga	19	7	11	4	0	1	2	0	1	1	1	1	5	1	3	1	3	2	3	1	3	9	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr2:26350094G>A	uc002rgv.2	+	4	1158	c.409G>A	c.(409-411)GGA>AGA	p.G137R		NM_016131	NP_057215	P61026	RAB10_HUMAN	ras-related GTP-binding protein RAB10	137					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TAAAGGAAAAGGAGAACAGGT	0.318													13	141					0	0	0.0333	0	0		A	26350094	A	A	26350094	3	1	133	1	0	0	0	0	1	0	0	0	12915	1001	35	4	423	4	RAB10	2	26350094	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08		26350094	216849279	19	72542											
VAX2	25806	broad.mit.edu	37	chr2	71160232	71160232	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcggccccgctcctggaTctgcctgccggctacgaact	4	9	10	18	4	1	0	0	0	1	0	4	2	3	1	6	3	4	2	6	3	2	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr2:71160232T>A	uc002shh.2	+	3	803	c.771T>A	c.(769-771)GAT>GAA	p.D257E	ATP6V1B1_uc002shi.1_5'Flank|ATP6V1B1_uc002shj.2_5'Flank|ATP6V1B1_uc010fdv.2_5'Flank|ATP6V1B1_uc010fdw.2_5'Flank	NM_012476	NP_036608	Q9UIW0	VAX2_HUMAN	ventral anterior homeobox 2	257					ectoderm development|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CGCTCCTGGATCTGCCTGCCG	0.647													5	26					0	0	0.02938	0	0		A	71160232	A	A	71160232	3	1	133	1	0	0	0	0	1	0	0	0	17161	1432	50	5	781	5	VAX2	2	71160232	Missense_Mutation	SNP	T	TCGA-CG-4441-01A-01D-1800-08	44810138	71160232	172039141	20	72543											
BAZ2B	29994	broad.mit.edu	37	chr2	160245918	160245918	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcctttgccatttctaattCtaatcttcgctgctctagtt	6	20	4	11	1	4	0	0	0	4	0	6	0	5	0	2	0	2	3	2	0	3	9			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr2:160245918C>G	uc002uao.2	-	21	3506	c.3154G>C	c.(3154-3156)GAA>CAA	p.E1052Q	BAZ2B_uc002uap.2_Missense_Mutation_p.E1016Q	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	1052	Lys-rich.|Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						ATTTCTAATTCTAATCTTCGC	0.338													19	53					0	0	0.043863	0	0		G	160245918	G	G	160245918	3	3	133	1	0	0	0	0	1	0	0	0	1333	922	32	5	3420	5	BAZ2B	2	160245918	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	89085686	160245918	82953455	21	72544											
SCN7A	6332	broad.mit.edu	37	chr2	167301492	167301492	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagtataatgggcatatcTtcttggatttttcaagttct	10	17	7	7	0	4	0	1	0	3	0	4	1	4	1	1	2	0	3	1	2	4	8			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr2:167301492T>G	uc002udu.1	-	12	1533	c.1406A>C	c.(1405-1407)AAG>ACG	p.K469T	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	469					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TGGGCATATCTTCTTGGATTT	0.229													10	29					0	0	0.058154	0	0		G	167301492	G	G	167301492	3	3	133	1	0	0	0	0	1	0	0	0	13948	1609	56	5	3698	5	SCN7A	2	167301492	Missense_Mutation	SNP	T	TCGA-CG-4441-01A-01D-1800-08	7055574	167301492	75897881	22	72545											
TTN	7273	broad.mit.edu	37	chr2	179594026	179594026	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataactgacctttcagggcaActctagtactgcatgagcag	12	10	9	10	0	2	2	1	2	1	0	2	2	2	2	1	1	5	4	1	1	4	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr2:179594026A>C	uc010zfg.1	-	61	15349	c.15125T>G	c.(15124-15126)GTT>GGT	p.V5042G	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.V1703G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5969							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTCAGGGCAACTCTAGTACT	0.403													30	100					0	0	0.041601	0	0		C	179594026	C	C	179594026	3	2	133	1	0	0	0	0	1	0	0	0	16761	43	2	5	85868	5	TTN	2	179594026	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08	12292534	179594026	63605347	23	72546											
THAP4	51078	broad.mit.edu	37	chr2	242573185	242573185	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgggtttccactcgaggaCggtgaccaacctgcagctcc	8	8	11	14	3	0	1	0	1	0	0	4	3	2	2	4	3	3	3	4	3	1	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr2:242573185C>T	uc002wbt.2	-	2	610	c.387G>A	c.(385-387)CCG>CCA	p.P129P		NM_015963	NP_057047	Q8WY91	THAP4_HUMAN	THAP domain containing 4 isoform 1	129							DNA binding|metal ion binding				0		all_cancers(19;2.09e-34)|all_epithelial(40;2.09e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Ovarian(221;0.069)|Lung NSC(271;0.0886)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.2)		Epithelial(32;2.3e-33)|all cancers(36;8.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.68e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.65e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0844)		CACTCGAGGACGGTGACCAAC	0.657													40	56					0	0	0.074837	0	0		T	242573185	T	T	242573185	2	4	133	1	0	0	0	0	0	0	0	1	15871	523	19	1		1	THAP4	2	242573185	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08	62979159	242573185	626188	24	72547											
CNTN4	152330	broad.mit.edu	37	chr3	2908444	2908444	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcctttcagagctgagtTatgcctggatcttcaatgaa	9	16	8	8	0	3	3	2	2	1	1	4	4	4	4	2	1	2	2	2	1	3	5			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr3:2908444T>A	uc003bpc.2	+	7	684	c.463T>A	c.(463-465)TAT>AAT	p.Y155N	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Missense_Mutation_p.Y155N	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	155	Ig-like C2-type 2.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		AGAGCTGAGTTATGCCTGGAT	0.353													36	90					0	0	0.09836	0	0		A	2908444	A	A	2908444	3	1	133	1	0	0	0	0	1	0	0	0	3646	1754	61	5	481	5	CNTN4	3	2908444	Missense_Mutation	SNP	T	TCGA-CG-4441-01A-01D-1800-08		2908444	195113986	25	72548											
TTLL3	26140	broad.mit.edu	37	chr3	9868870	9868870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttaccgtgtggttctaccGcgacagctatatccgctttt	7	14	8	12	4	1	0	0	0	1	0	2	1	2	0	3	1	3	3	3	1	4	7	rs35644696	byFrequency	TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr3:9868870G>A	uc003btg.2	+	9	1280	c.1064G>A	c.(1063-1065)CGC>CAC	p.R355H	ARPC4_uc003btc.1_Intron|TTLL3_uc003btd.3_Missense_Mutation_p.R322H|TTLL3_uc003btf.3_Intron|TTLL3_uc010hco.1_Missense_Mutation_p.R291H|TTLL3_uc003bth.3_Missense_Mutation_p.R143H|TTLL3_uc011atj.1_Missense_Mutation_p.R291H|TTLL3_uc003btj.3_Missense_Mutation_p.R143H|TTLL3_uc003bti.3_Missense_Mutation_p.R143H|TTLL3_uc003btk.2_Missense_Mutation_p.R158H	NM_001025930	NP_001021100	Q9Y4R7	TTLL3_HUMAN	tubulin tyrosine ligase-like family, member 3	355	TTL.				axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)					TGGTTCTACCGCGACAGCTAT	0.393													31	64					0	0	0.037714	0	0		A	9868870	A	A	9868870	3	1	133	1	0	0	0	0	1	0	0	0	16754	1087	38	1	1094	1	TTLL3	3	9868870	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	6960426	9868870	188153560	26	72549											
CCR3	1232	broad.mit.edu	37	chr3	46307574	46307574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgttggagagaggttcCggaagtacctgcgccacttc	7	11	12	11	2	0	1	0	0	0	1	2	4	1	3	4	3	2	3	4	3	2	5			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr3:46307574C>T	uc003cpg.1	+	4	1468	c.925C>T	c.(925-927)CGG>TGG	p.R309W	CCR3_uc003cpi.1_Missense_Mutation_p.R309W|CCR3_uc003cpj.1_Missense_Mutation_p.R309W|CCR3_uc003cpk.1_Missense_Mutation_p.R330W|CCR3_uc010hjb.1_Missense_Mutation_p.R327W|CCR3_uc003cpl.1_Missense_Mutation_p.R342W	NM_178329	NP_847899	P51677	CCR3_HUMAN	CC chemokine receptor 3 isoform 1	309	Cytoplasmic (Potential).				cell adhesion|cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|inflammatory response|interspecies interaction between organisms|positive regulation of angiogenesis	integral to plasma membrane				ovary(3)|lung(3)|breast(1)|kidney(1)	8				BRCA - Breast invasive adenocarcinoma(193;0.00119)|KIRC - Kidney renal clear cell carcinoma(197;0.0183)|Kidney(197;0.0216)		AGAGAGGTTCCGGAAGTACCT	0.547													24	36					0	0	0.076483	0	0		T	46307574	T	T	46307574	3	4	133	1	0	0	0	0	1	0	0	0	2945	643	23	1	994	1	CCR3	3	46307574	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	36438704	46307574	151714856	27	72550											
BSN	8927	broad.mit.edu	37	chr3	49694711	49694711	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagagtctgggactgagccCtgtgtggtcaggaggattgc	7	10	16	8	0	2	2	1	1	1	1	2	5	2	5	1	4	2	0	1	4	1	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr3:49694711C>T	uc003cxe.3	+	5	7836	c.7722C>T	c.(7720-7722)CCC>CCT	p.P2574P		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2574					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		GGACTGAGCCCTGTGTGGTCA	0.642													18	42					0	0	0.043863	0	0		T	49694711	T	T	49694711	2	4	133	1	0	0	0	0	0	0	0	1	1533	668	24	4		4	BSN	3	49694711	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08	3387137	49694711	148327719	28	72551											
ACPL2	92370	broad.mit.edu	37	chr3	141011729	141011729	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagagctctttgccctctaCtctgctcatgatgtcactct	7	14	7	13	0	6	2	2	1	4	1	6	3	6	2	1	0	4	2	1	0	2	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr3:141011729C>T	uc003etu.2	+	8	1424	c.1125C>T	c.(1123-1125)TAC>TAT	p.Y375Y	ACPL2_uc003etv.2_Silent_p.Y375Y|ACPL2_uc011bna.1_Silent_p.Y337Y|ACPL2_uc011bnb.1_Silent_p.Y358Y	NM_152282	NP_689495	Q8TE99	ACPL2_HUMAN	acid phosphatase-like 2 precursor	375						extracellular region	acid phosphatase activity			skin(1)	1						TTGCCCTCTACTCTGCTCATG	0.562													60	110					0	0	0.048971	0	0		T	141011729	T	T	141011729	2	4	133	1	0	0	0	0	0	0	0	1	166	576	20	4		4	ACPL2	3	141011729	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08	91317018	141011729	57010701	29	72552											
NAALADL2	254827	broad.mit.edu	37	chr3	174814828	174814828	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacccaaaggaaggttcCagagacttcaagaagaatct	15	8	8	10	0	3	3	2	0	1	3	4	5	4	4	2	2	0	1	2	2	5	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr3:174814828C>A	uc003fit.2	+	2	379	c.292C>A	c.(292-294)CAG>AAG	p.Q98K	NAALADL2_uc003fiu.1_Missense_Mutation_p.Q91K	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	98	Cytoplasmic (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		AGGAAGGTTCCAGAGACTTCA	0.438													18	55					1.67942e-08	1.81028e-08	0.038395	1	0		A	174814828	A	A	174814828	3	1	133	1	0	0	0	0	1	0	0	0	10148	595	21	5	298	5	NAALADL2	3	174814828	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	33803099	174814828	23207602	30	72553											
RGS12	6002	broad.mit.edu	37	chr4	3318625	3318625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccattgagcttccttccaCgagctccaacctggagtccg	7	10	8	16	2	0	1	0	1	0	0	5	3	5	2	6	1	3	2	6	1	1	3	rs149618433		TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr4:3318625C>T	uc003ggw.2	+	2	1632	c.728C>T	c.(727-729)ACG>ATG	p.T243M	RGS12_uc003ggu.2_Missense_Mutation_p.T243M|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Missense_Mutation_p.T243M|RGS12_uc003ggx.1_Missense_Mutation_p.T243M	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	243	PID.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CTTCCTTCCACGAGCTCCAAC	0.532													22	41					0	0	0.069288	0	0		T	3318625	T	T	3318625	3	4	133	1	0	0	0	0	1	0	0	0	13320	536	19	1	730	1	RGS12	4	3318625	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08		3318625	187835651	31	72554											
SLIT2	9353	broad.mit.edu	37	chr4	20535276	20535276	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaaatgaaatacttcttacGagtaatcgtttggaaaatgt	15	14	8	4	2	1	1	0	1	1	0	2	3	1	2	0	1	2	3	0	1	8	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr4:20535276G>A	uc003gpr.1	+	18	1974	c.1770G>A	c.(1768-1770)ACG>ACA	p.T590T	SLIT2_uc003gps.1_Silent_p.T582T	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	590	LRR 14.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TACTTCTTACGAGTAATCGTT	0.348													13	76					0	0	0.024245	0	0		A	20535276	A	A	20535276	2	1	133	1	0	0	0	0	0	0	0	1	14765	1045	37	1		1	SLIT2	4	20535276	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	17216651	20535276	170619000	32	72555											
UGT2B10	7365	broad.mit.edu	37	chr4	69879852	69879852	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcaccatattctccagagctCtgtacaaactcctccatttg	10	12	5	14	0	2	1	0	0	2	1	5	1	4	1	4	0	3	3	4	0	3	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr4:69879852C>G	uc011cao.1	-	6	913	c.777G>C	c.(775-777)CAG>CAC	p.Q259H	UGT2B10_uc011can.1_Missense_Mutation_p.Q175H			P36537	UDB10_HUMAN	RecName: Full=UDP-glucuronosyltransferase 2B28;          Short=UDPGT 2B28;          EC=2.4.1.17; Flags: Precursor;	296					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						CTCCAGAGCTCTGTACAAACT	0.418													31	103					0	0	0.041601	0	0		G	69879852	G	G	69879852	3	3	133	1	0	0	0	0	1	0	0	0	16982	912	32	5	2325	5	UGT2B10	4	69879852	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	49344576	69879852	121274424	33	72556											
PTPN13	5783	broad.mit.edu	37	chr4	87610307	87610307	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctcattttcctacgtgaaAcacttggtaaaactggttct	10	14	6	11	1	2	1	1	1	1	0	3	1	3	1	2	2	3	2	2	2	4	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr4:87610307A>C	uc003hpz.2	+	5	990	c.510A>C	c.(508-510)AAA>AAC	p.K170N	PTPN13_uc003hpy.2_Missense_Mutation_p.K170N|PTPN13_uc003hqa.2_Missense_Mutation_p.K170N|PTPN13_uc003hqb.2_Missense_Mutation_p.K170N	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	170	KIND.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		CCTACGTGAAACACTTGGTAA	0.373													55	125					0	0	0.048971	0	0		C	87610307	C	C	87610307	3	2	133	1	0	0	0	0	1	0	0	0	12805	40	2	5	524	5	PTPN13	4	87610307	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08	17730455	87610307	103543969	34	72557											
ANP32C	23520	broad.mit.edu	37	chr4	165118489	165118489	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacacgttttctccgtagtcGttcaggttggttacctcgca	7	14	9	11	4	2	0	1	0	1	0	5	0	2	0	2	2	2	6	2	2	3	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr4:165118489G>A	uc011cjk.1	-	1	375	c.375C>T	c.(373-375)AAC>AAT	p.N125N	MARCH1_uc003iqs.1_Intron	NM_012403	NP_036535	O43423	AN32C_HUMAN	acidic nuclear phosphoprotein 32C	125	LRR 4.										0	all_hematologic(180;0.203)	Prostate(90;0.0138)|Melanoma(52;0.18)|all_neural(102;0.223)		KIRC - Kidney renal clear cell carcinoma(143;0.242)		CTCCGTAGTCGTTCAGGTTGG	0.458													36	111					0	0	0.074837	0	0		A	165118489	A	A	165118489	2	1	133	1	0	0	0	0	0	0	0	1	707	1136	40	1		1	ANP32C	4	165118489	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	77508182	165118489	26035787	35	72558											
TLL1	7092	broad.mit.edu	37	chr4	166924594	166924594	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ggacctcaggcaatctctatCggcaagaactgtgataaatt	13	10	9	9	1	2	2	1	1	1	1	4	3	2	3	1	3	1	2	1	3	6	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr4:166924594C>G	uc003irh.1	+	6	1331	c.684C>G	c.(682-684)ATC>ATG	p.I228M	TLL1_uc011cjn.1_Missense_Mutation_p.I228M|TLL1_uc011cjo.1_Missense_Mutation_p.I52M	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	228	Metalloprotease (By similarity).				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		CAATCTCTATCGGCAAGAACT	0.458													21	54					0	0	0.069288	0	0		G	166924594	G	G	166924594	3	3	133	1	0	0	0	0	1	0	0	0	15970	874	31	5	706	5	TLL1	4	166924594	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	1806105	166924594	24229682	36	72559											
FAT1	2195	broad.mit.edu	37	chr4	187516942	187516942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaaggcttttcctctagagGcttcttggaaagacagggat	10	11	13	7	0	2	2	0	0	2	2	3	5	3	5	1	5	0	2	1	5	3	5			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr4:187516942G>A	uc003izf.2	-	26	13227	c.13039C>T	c.(13039-13041)CCT>TCT	p.P4347S	FAT1_uc010isn.2_5'UTR|FAT1_uc003ize.2_Missense_Mutation_p.P238S	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4347	Cytoplasmic (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TCCTCTAGAGGCTTCTTGGAA	0.493										HNSCC(5;0.00058)			19	47					0	0	0.043863	0	0		A	187516942	A	A	187516942	3	1	133	1	0	0	0	0	1	0	0	0	5703	1203	42	2	735	2	FAT1	4	187516942	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	20592348	187516942	3637334	37	72560											
TAS2R1	50834	broad.mit.edu	37	chr5	9629933	9629933	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgatgaattctatgaagAagataacaatcacattaacg	19	10	6	6	1	2	5	1	3	1	2	2	5	2	5	0	0	2	0	0	0	7	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr5:9629933A>C	uc003jem.1	-	1	531	c.212T>G	c.(211-213)TTC>TGC	p.F71C		NM_019599	NP_062545	Q9NYW7	TA2R1_HUMAN	taste receptor T2R1	71	Helical; Name=2; (Potential).				chemosensory behavior|sensory perception of taste	integral to membrane	taste receptor activity			ovary(3)	3						TTCTATGAAGAAGATAACAAT	0.378													8	29					0	0	0.038147	0	0		C	9629933	C	C	9629933	3	2	133	1	0	0	0	0	1	0	0	0	15590	246	9	5	691	5	TAS2R1	5	9629933	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08		9629933	171285327	38	72561											
DNAH5	1767	broad.mit.edu	37	chr5	13786317	13786317	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaaccatggcatctgcaaAgaacaccatgtccatgccgg	12	7	10	12	1	1	2	0	1	1	1	2	2	2	2	4	2	4	2	4	2	3	0			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr5:13786317A>G	uc003jfd.2	-	52	8833	c.8791T>C	c.(8791-8793)TTT>CTT	p.F2931L		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2931	AAA 4 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GCATCTGCAAAGAACACCATG	0.488									Kartagener_syndrome				9	31					0	0	0.047766	0	0		G	13786317	G	G	13786317	3	3	133	1	0	0	0	0	1	0	0	0	4610	72	3	3	5195	3	DNAH5	5	13786317	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08	4156384	13786317	167128943	39	72562											
LIFR	3977	broad.mit.edu	37	chr5	38496666	38496667	+	Frame_Shift_Ins	INS	-	T	T																															cgatacattgtaggaaagtaINStttttccattagcttcatta																										TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr5:38496666_38496667insT	uc010ive.1	-	13	2034_2035	c.1702_1703insA	c.(1702-1704)ATAfs	p.I568fs	LIFR_uc003jli.2_Frame_Shift_Ins_p.I568fs	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	568	Extracellular (Potential).|Fibronectin type-III 4.				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					GTAGGAAAGTATTTTTCCATTA	0.381			T	PLAG1	salivary adenoma								20	36	---	---	---	---						.	T	38496667	T	T	38496666	7	5	133	1	0	1	1	0	0	0	0	0	8796	449	16	0	1622	0	LIFR	5	38496666	Frame_Shift_Ins	INS	-	TCGA-CG-4441-01A-01D-1800-08	24710349	38496666	142418594	40	72563											
P4HA2	8974	broad.mit.edu	37	chr5	131553527	131553527	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctttctctgcataaatcaGgtcagtcatgtgccctgcaa	9	13	7	12	0	5	0	3	0	2	0	6	0	5	0	1	1	3	2	1	1	3	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr5:131553527G>T	uc003kwh.2	-	3	661	c.97C>A	c.(97-99)CTG>ATG	p.L33M	P4HA2_uc003kwg.2_Missense_Mutation_p.L33M|P4HA2_uc003kwi.2_Missense_Mutation_p.L33M|P4HA2_uc003kwk.2_Missense_Mutation_p.L33M|P4HA2_uc003kwl.2_Missense_Mutation_p.L33M|P4HA2_uc003kwj.2_Missense_Mutation_p.L33M	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	33						endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	GCATAAATCAGGTCAGTCATG	0.498													30	74					5.45727e-16	6.12099e-16	0.037714	1	0		T	131553527	T	T	131553527	3	4	133	1	0	0	0	0	1	0	0	0	11376	991	35	5	1626	5	P4HA2	5	131553527	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	93056861	131553527	49361733	41	72564											
SEPT8	23176	broad.mit.edu	37	chr5	132101145	132101145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccctgagtgaccgacttgCtgaccagctggtcggggagg	7	7	16	11	2	0	3	0	3	0	0	1	5	0	4	3	4	3	2	3	4	0	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr5:132101145C>T	uc003kxr.2	-	2	345	c.107G>A	c.(106-108)AGC>AAC	p.S36N	SEPT8_uc003kxs.1_Missense_Mutation_p.S36N|SEPT8_uc003kxu.2_Missense_Mutation_p.S36N|SEPT8_uc011cxi.1_Missense_Mutation_p.S36N|SEPT8_uc003kxv.2_Missense_Mutation_p.S36N|SEPT8_uc003kxt.2_5'UTR	NM_001098811	NP_001092281	Q92599	SEPT8_HUMAN	septin 8 isoform a	36					cell cycle	septin complex	GTP binding|protein binding			ovary(2)	2		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GACCGACTTGCTGACCAGCTG	0.607													4	195					0	0	0.009096	0	0		T	132101145	T	T	132101145	3	4	133	1	0	0	0	0	1	0	0	0	14095	797	28	2	1435	2	SEPT8	5	132101145	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	547618	132101145	48814115	42	72565											
UQCRQ	27089	broad.mit.edu	37	chr5	132203255	132203255	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caagaggaagaatccagctgCctatgaaaatgacaaatgag	18	6	10	7	0	0	5	0	3	0	2	1	6	1	6	2	1	2	1	2	1	7	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr5:132203255C>G	uc003kya.1	+	3	304	c.230C>G	c.(229-231)GCC>GGC	p.A77G	GDF9_uc003kxz.1_5'Flank|GDF9_uc011cxj.1_5'Flank	NM_014402	NP_055217	O14949	QCR8_HUMAN	ubiquinol-cytochrome c reductase, complex III	77				KNPAAYENDK -> RIQLPMKMTNEQRIRMTVPCL (in Ref. 1; BAA23321).	respiratory electron transport chain	mitochondrial inner membrane|respiratory chain	ubiquinol-cytochrome-c reductase activity				0		all_cancers(142;0.105)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AATCCAGCTGCCTATGAAAAT	0.423													9	17					0	0	0.058154	0	0		G	132203255	G	G	132203255	3	3	133	1	0	0	0	0	1	0	0	0	17050	739	26	5	236	5	UQCRQ	5	132203255	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	102110	132203255	48712005	43	72566											
PCDHA1	56147	broad.mit.edu	37	chr5	140166387	140166387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacgctcttctaacgtacaCgctcagcccgagtgattatt	10	12	7	12	4	3	1	1	1	2	0	3	2	3	1	1	0	4	3	1	0	4	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr5:140166387C>T	uc003lhb.2	+	1	512	c.512C>T	c.(511-513)ACG>ATG	p.T171M	PCDHA1_uc003lha.2_Missense_Mutation_p.T171M|PCDHA1_uc003lgz.2_Missense_Mutation_p.T171M	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	171	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTAACGTACACGCTCAGCCCG	0.398													23	51					0	0	0.0918	0	0		T	140166387	T	T	140166387	3	4	133	1	0	0	0	0	1	0	0	0	11538	536	19	1	514	1	PCDHA1	5	140166387	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	7963132	140166387	40748873	44	72567											
PCDHB5	26167	broad.mit.edu	37	chr5	140517197	140517197	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggtcgctgctcggtgccCgagggcccctttccagggca	3	8	15	15	4	0	0	0	0	0	0	4	1	1	0	4	4	2	3	4	4	0	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr5:140517197C>T	uc003liq.2	+	1	2398	c.2181C>T	c.(2179-2181)CCC>CCT	p.P727P		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	727	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTCGGTGCCCGAGGGCCCCT	0.667													62	135					0	0	0.048971	0	0		T	140517197	T	T	140517197	2	4	133	1	0	0	0	0	0	0	0	1	11564	639	23	1		1	PCDHB5	5	140517197	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08	350810	140517197	40398063	45	72568											
PCDHGA7	56108	broad.mit.edu	37	chr5	140763523	140763523	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtgactatgacgtctttaAgtagctcaatccctgaagac	13	11	8	9	1	2	4	1	3	1	1	3	4	3	4	1	0	1	2	1	0	6	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr5:140763523A>G	uc003lka.1	+	1	1057	c.1057A>G	c.(1057-1059)AGT>GGT	p.S353G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.S353G	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	353	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGTCTTTAAGTAGCTCAAT	0.433													3	51					0	0	0.004672	0	0		G	140763523	G	G	140763523	3	3	133	1	0	0	0	0	1	0	0	0	11578	72	3	3	1059	3	PCDHGA7	5	140763523	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08	246326	140763523	40151737	46	72569											
AARS2	57505	broad.mit.edu	37	chr6	44270562	44270562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcctgctccccagtgaCggccagcaggcgggtagtgc	5	6	16	14	2	0	1	0	1	0	0	1	1	1	1	4	4	3	3	4	4	1	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr6:44270562C>T	uc010jza.1	-	17	2344	c.2341G>A	c.(2341-2343)GTC>ATC	p.V781I	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	781					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	TCCCCAGTGACGGCCAGCAGG	0.627													6	21					0	0	0.038147	0	0		T	44270562	T	T	44270562	3	4	133	1	0	0	0	0	1	0	0	0	20	536	19	1	640	1	AARS2	6	44270562	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08		44270562	126844505	47	72570											
DDX43	55510	broad.mit.edu	37	chr6	74104733	74104733	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggaggccggcggaggagttGaatcgaacaggtcctgaggg	10	5	19	7	3	0	2	0	2	0	0	2	6	1	5	2	7	1	1	2	7	2	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr6:74104733G>C	uc003pgw.2	+	1	449	c.105G>C	c.(103-105)TTG>TTC	p.L35F	OOEP_uc003pgv.3_5'UTR|DDX43_uc011dyn.1_RNA	NM_018665	NP_061135	Q9NXZ2	DDX43_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 43	35						intracellular	ATP binding|ATP-dependent RNA helicase activity|RNA binding			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4						CGGAGGAGTTGAATCGAACAG	0.657													40	85					0	0	0.09836	0	0		C	74104733	C	C	74104733	3	2	133	1	0	0	0	0	1	0	0	0	4366	1281	45	5	107	5	DDX43	6	74104733	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	29834171	74104733	97010334	48	72571											
FAM184A	79632	broad.mit.edu	37	chr6	119345242	119345242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaattttcctatagtttttCgtaaaattgcttcttgtccc	8	21	4	8	1	1	0	0	0	1	0	4	0	3	0	2	0	1	3	2	0	5	11			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr6:119345242C>T	uc003pyj.2	-	2	1244	c.896G>A	c.(895-897)CGA>CAA	p.R299Q	FAM184A_uc003pyk.3_Missense_Mutation_p.R179Q|FAM184A_uc003pyl.3_Missense_Mutation_p.R179Q	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	299	Potential.									ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						TATAGTTTTTCGTAAAATTGC	0.393													32	87					0	0	0.045705	0	0		T	119345242	T	T	119345242	3	4	133	1	0	0	0	0	1	0	0	0	5522	884	31	1	2594	1	FAM184A	6	119345242	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	45240509	119345242	51769825	49	72572											
HIVEP2	3097	broad.mit.edu	37	chr6	143081659	143081659	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgttaaatctccctggtcGtcaaagtcatcttcatcttc	8	15	7	11	1	6	0	3	0	3	0	9	0	6	0	1	2	0	1	1	2	3	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr6:143081659G>A	uc003qjd.2	-	9	6509	c.5766C>T	c.(5764-5766)GAC>GAT	p.D1922D		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1922	Asp/Glu-rich (acidic).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CTCCCTGGTCGTCAAAGtcat	0.373													5	29					0	0	0.021553	0	0		A	143081659	A	A	143081659	2	1	133	1	0	0	0	0	0	0	0	1	7203	1136	40	1		1	HIVEP2	6	143081659	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	23736417	143081659	28033408	50	72573											
TULP4	56995	broad.mit.edu	37	chr6	158919781	158919781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagttcggaaaatttccatgGactatattaatttacctgtc	13	15	6	7	1	0	0	0	0	0	0	3	2	1	2	2	2	1	1	2	2	7	7			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr6:158919781G>A	uc003qrf.2	+	12	3308	c.1951G>A	c.(1951-1953)GAC>AAC	p.D651N	TULP4_uc003qrg.2_Missense_Mutation_p.D651N	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	651					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		AATTTCCATGGACTATATTAA	0.433													45	97					0	0	0.11126	0	0		A	158919781	A	A	158919781	3	1	133	1	0	0	0	0	1	0	0	0	16802	1174	41	4	1997	4	TULP4	6	158919781	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	15838122	158919781	12195286	51	72574											
PLG	5340	broad.mit.edu	37	chr6	161160136	161160136	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctacaaggtcatcctgggTgcacaccaagaagtgaatct	12	9	9	11	0	2	2	1	1	1	1	4	2	4	2	3	2	2	1	3	2	5	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr6:161160136T>C	uc003qtm.3	+	16	1977	c.1914T>C	c.(1912-1914)GGT>GGC	p.G638G		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	638	Peptidase S1.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	TCATCCTGGGTGCACACCAAG	0.483													3	116					0	0	0.009096	0	0		C	161160136	C	C	161160136	2	2	133	1	0	0	0	0	0	0	0	1	12105	1683	59	3		3	PLG	6	161160136	Silent	SNP	T	TCGA-CG-4441-01A-01D-1800-08	2240355	161160136	9954931	52	72575											
GNA12	2768	broad.mit.edu	37	chr7	2770956	2770956	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggttccgtctcttcctgtcGaagcactggaccaggtagcg	6	10	12	13	4	1	0	0	0	1	0	5	2	3	1	3	3	2	3	3	3	2	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr7:2770956G>A	uc003smu.2	-	4	1169	c.1005C>T	c.(1003-1005)TTC>TTT	p.F335F	GNA12_uc011jwb.1_Silent_p.F318F|GNA12_uc003smt.2_Silent_p.F276F	NM_007353	NP_031379	Q03113	GNA12_HUMAN	guanine nucleotide binding protein (G protein)	335					G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|Rho protein signal transduction	brush border membrane|heterotrimeric G-protein complex	D5 dopamine receptor binding|G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.02e-13)		TCTTCCTGTCGAAGCACTGGA	0.592													29	42					0	0	0.030593	0	0		A	2770956	A	A	2770956	2	1	133	1	0	0	0	0	0	0	0	1	6515	1049	37	1		1	GNA12	7	2770956	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08		2770956	156367707	53	72576											
PAPOLB	56903	broad.mit.edu	37	chr7	4900190	4900190	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggaaatgactgtggatTcacatgtgccagtgtaataa	12	12	11	6	0	1	1	1	1	0	0	1	3	1	3	1	2	2	2	1	2	3	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr7:4900190T>C	uc003snk.2	-	1	1436	c.1252A>G	c.(1252-1254)AAT>GAT	p.N418D	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	417					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		GACTGTGGATTCACATGTGCC	0.408													97	217					0	0	0.048971	0	0		C	4900190	C	C	4900190	3	2	133	1	0	0	0	0	1	0	0	0	11449	1783	62	3	665	3	PAPOLB	7	4900190	Missense_Mutation	SNP	T	TCGA-CG-4441-01A-01D-1800-08	2129234	4900190	154238473	54	72577											
FSCN1	6624	broad.mit.edu	37	chr7	5642914	5642914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctgtctgccaatcaggacGaggagaccgaccaggagacc	12	4	12	13	2	2	2	1	0	1	2	2	7	2	3	5	3	1	0	5	3	1	0			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr7:5642914G>A	uc003sou.2	+	2	973	c.859G>A	c.(859-861)GAG>AAG	p.E287K	FSCN1_uc003sov.2_Missense_Mutation_p.E9K|FSCN1_uc003sow.2_Missense_Mutation_p.E9K	NM_003088	NP_003079	Q16658	FSCN1_HUMAN	fascin 1	287					actin filament bundle assembly|cell migration|cell proliferation	cell junction|cytoplasm|filopodium|invadopodium|stress fiber	actin filament binding|drug binding|protein binding, bridging			ovary(1)	1		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;1.21e-13)		CAATCAGGACGAGGAGACCGA	0.622													15	50					0	0	0.0333	0	0		A	5642914	A	A	5642914	3	1	133	1	0	0	0	0	1	0	0	0	6081	1059	37	1	865	1	FSCN1	7	5642914	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	742724	5642914	153495749	55	72578											
BUD31	8896	broad.mit.edu	37	chr7	99015077	99015077	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgaatattgtattaaagaAggctatgcagacaaaaacct	18	11	7	5	0	0	3	0	1	0	2	0	3	0	3	1	1	2	3	1	1	10	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr7:99015077A>G	uc003uqf.2	+	5	444	c.243A>G	c.(241-243)GAA>GAG	p.E81E	BUD31_uc011kiu.1_Silent_p.E81E|BUD31_uc011kiv.1_Silent_p.E81E|BUD31_uc003uqg.3_Silent_p.E81E	NM_003910	NP_003901	P41223	BUD31_HUMAN	G10 protein	81					regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_cancers(62;1.76e-08)|all_epithelial(64;1.63e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			GTATTAAAGAAGGCTATGCAG	0.428													4	41					0	0	0.009096	0	0		G	99015077	G	G	99015077	2	3	133	1	0	0	0	0	0	0	0	1	1577	69	3	3		3	BUD31	7	99015077	Silent	SNP	A	TCGA-CG-4441-01A-01D-1800-08	93372163	99015077	60123586	56	72579											
MCM7	4176	broad.mit.edu	37	chr7	99694968	99694968	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgacaggagctgagacttgGccacaccaggatcccccatc	11	6	10	14	0	0	2	0	2	0	1	2	5	1	4	4	3	1	1	4	3	0	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr7:99694968G>T	uc003usw.1	-	10	1667	c.1157C>A	c.(1156-1158)GCC>GAC	p.A386D	MCM7_uc003usv.1_Missense_Mutation_p.A210D|MCM7_uc003usx.1_Missense_Mutation_p.A210D	NM_005916	NP_005907	P33993	MCM7_HUMAN	minichromosome maintenance complex component 7	386	MCM.|ATP (Potential).				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of phosphorylation|response to DNA damage stimulus|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)				Atorvastatin(DB01076)	CTGAGACTTGGCCACACCAGG	0.537													10	42					9.31168e-06	9.90858e-06	0.105934	1	0		T	99694968	T	T	99694968	3	4	133	1	0	0	0	0	1	0	0	0	9410	1203	42	5	1026	5	MCM7	7	99694968	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	679891	99694968	59443695	57	72580											
CTTNBP2	83992	broad.mit.edu	37	chr7	117432148	117432148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggaaagcgggtacagaagCgccaatcaagtcaccatagg	14	5	13	9	2	2	1	2	0	0	1	2	2	2	2	2	3	3	1	2	3	6	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr7:117432148C>T	uc003vjf.2	-	4	1194	c.1102G>A	c.(1102-1104)GCT>ACT	p.A368T		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	368										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GGTACAGAAGCGCCAATCAAG	0.527													32	71					0	0	0.045705	0	0		T	117432148	T	T	117432148	3	4	133	1	0	0	0	0	1	0	0	0	4048	768	27	1	3969	1	CTTNBP2	7	117432148	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	17737180	117432148	41706515	58	72581											
OR2F2	135948	broad.mit.edu	37	chr7	143633227	143633227	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaagaggtgaagggggcctGgcataaactattagagaaat	16	8	13	4	0	0	3	0	1	0	2	0	4	0	3	1	4	1	1	1	4	8	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr7:143633227G>A	uc011ktv.1	+	1	902	c.902G>A	c.(901-903)TGG>TAG	p.W301*		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					AAGGGGGCCTGGCATAAACTA	0.418													14	38					0	0	0.024245	0	0		A	143633227	A	A	143633227	4	1	133	1	0	0	0	0	0	1	0	0	11016	1357	47	4	904	4	OR2F2	7	143633227	Nonsense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	26201079	143633227	15505436	59	72582											
PRKDC	5591	broad.mit.edu	37	chr8	48817430	48817430	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatcaactattacttaccAatatagcttctagtaaggca	16	12	5	8	0	2	1	1	0	1	1	2	1	2	1	1	1	4	3	1	1	10	8			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr8:48817430A>G	uc003xqi.2	-	26	3098	c.3041T>C	c.(3040-3042)TTG>TCG	p.L1014S	PRKDC_uc003xqj.2_Missense_Mutation_p.L1014S|PRKDC_uc011ldh.1_Missense_Mutation_p.L1014S	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1014	HEAT 2.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				ATTACTTACCAATATAGCTTC	0.289								NHEJ					20	73					0	0	0.055883	0	0		G	48817430	G	G	48817430	3	3	133	1	0	0	0	0	1	0	0	0	12543	144	5	3	9588	3	PRKDC	8	48817430	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08		48817430	97546592	60	72583											
MOS	4342	broad.mit.edu	37	chr8	57025798	57025798	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctcctttcaggagctcCggggcgcggtgggtgtatgt	3	11	15	12	3	2	0	1	0	1	0	4	1	3	1	3	5	1	2	3	5	1	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr8:57025798C>A	uc011leb.1	-	1	744	c.744G>T	c.(742-744)CCG>CCT	p.P248P		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	248	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			TCAGGAGCTCCGGGGCGCGGT	0.542													18	65					2.37509e-13	2.59385e-13	0.055883	1	0		A	57025798	A	A	57025798	2	1	133	1	0	0	0	0	0	0	0	1	9730	639	23	5		5	MOS	8	57025798	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08	8208368	57025798	89338224	61	72584											
HRSP12	10247	broad.mit.edu	37	chr8	99118518	99118518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgttagtgaagtcacagcCtgcagctttcagaatttcac	11	11	8	11	1	3	2	3	1	0	1	3	2	3	2	2	0	3	3	2	0	3	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr8:99118518C>T	uc003yii.1	-	3	302	c.208G>A	c.(208-210)GGC>AGC	p.G70S		NM_005836	NP_005827	P52758	UK114_HUMAN	heat-responsive protein 12	70					regulation of translational termination	nucleus	endonuclease activity			ovary(1)	1	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.214)			AAGTCACAGCCTGCAGCTTTC	0.343													7	121					0	0	0.02938	0	0		T	99118518	T	T	99118518	3	4	133	1	0	0	0	0	1	0	0	0	7376	681	24	4	221	4	HRSP12	8	99118518	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	42092720	99118518	47245504	62	72585											
SLC27A4	10999	broad.mit.edu	37	chr9	131117991	131117991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggcaactgtgacctggagCgctttgctcaggtcttggag	6	11	14	10	1	2	1	1	1	1	0	2	3	2	3	1	4	3	3	1	4	1	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr9:131117991C>T	uc004but.2	+	12	1974	c.1690C>T	c.(1690-1692)CGC>TGC	p.R564C	SLC27A4_uc004buu.2_Missense_Mutation_p.R158C	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	564					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						TGACCTGGAGCGCTTTGCTCA	0.642													25	53					0	0	0.030593	0	0		T	131117991	T	T	131117991	3	4	133	1	0	0	0	0	1	0	0	0	14553	768	27	1	1732	1	SLC27A4	9	131117991	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08		131117991	10095440	63	72586											
C9orf9	11092	broad.mit.edu	37	chr9	135762802	135762802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacagctccacagaccggcGggttctgctcatgttcctgg	7	9	11	14	2	2	1	1	0	1	1	4	1	4	1	3	3	3	4	3	3	1	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr9:135762802G>A	uc004cbx.1	+	3	302	c.191G>A	c.(190-192)CGG>CAG	p.R64Q	C9orf9_uc004cby.1_Missense_Mutation_p.R64Q|C9orf9_uc004cbz.1_Missense_Mutation_p.R64Q	NM_018956	NP_061829	Q96E40	CI009_HUMAN	Rsb-66 protein	64								p.?(1)			0				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|GBM - Glioblastoma multiforme(294;4.84e-07)|Epithelial(140;1.28e-06)		ACAGACCGGCGGGTTCTGCTC	0.597													10	91					0	0	0.058154	0	0		A	135762802	A	A	135762802	3	1	133	1	0	0	0	0	1	0	0	0	2507	1116	39	1	197	1	C9orf9	9	135762802	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	4644811	135762802	5450629	64	72587											
REXO4	57109	broad.mit.edu	37	chr9	136272968	136272968	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggacctggagcccaaggAtcttctctgaaagtagtctc	9	10	11	11	0	3	1	0	1	3	0	5	4	3	4	2	3	1	2	2	3	3	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr9:136272968A>C	uc004cdm.2	-	7	1312	c.1112T>G	c.(1111-1113)ATC>AGC	p.I371S	REXO4_uc011mde.1_Missense_Mutation_p.I234S|REXO4_uc011mdf.1_Missense_Mutation_p.I234S|REXO4_uc004cdn.2_Missense_Mutation_p.I122S|REXO4_uc004cdo.2_Missense_Mutation_p.I199S	NM_020385	NP_065118	Q9GZR2	REXO4_HUMAN	XPMC2 prevents mitotic catastrophe 2 homolog	371	Exonuclease.					nucleolus	exonuclease activity|nucleic acid binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.58e-08)|Epithelial(140;9.55e-07)|all cancers(34;1.05e-05)		GAGCCCAAGGATCTTCTCTGA	0.602													12	16					0	0	0.024245	0	0		C	136272968	C	C	136272968	3	2	133	1	0	0	0	0	1	0	0	0	13268	333	12	5	164	5	REXO4	9	136272968	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08	510166	136272968	4940463	65	72588											
BRD3	8019	broad.mit.edu	37	chr9	136907002	136907002	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttgctcaccatgggggcCgcgggggcaggcagcgccgg	4	4	18	15	4	1	0	1	0	0	0	1	0	1	0	4	6	2	3	4	6	0	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr9:136907002C>T	uc004cew.2	-	8	1475	c.1287G>A	c.(1285-1287)GCG>GCA	p.A429A	BRD3_uc004cex.2_Silent_p.A429A	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	429						nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		CCATGGGGGCCGCGGGGGCAG	0.662			T	NUT|C15orf55	lethal midline carcinoma of young people								11	17					0	0	0.069234	0	0		T	136907002	T	T	136907002	2	4	133	1	0	0	0	0	0	0	0	1	1506	639	23	1		1	BRD3	9	136907002	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08	634034	136907002	4306429	66	72589											
COL5A1	1289	broad.mit.edu	37	chr9	137687154	137687154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcatcactgggaagcctgGccccaaggtatgtttttggc	7	10	14	10	0	1	0	1	0	0	0	1	1	1	1	3	5	1	3	3	5	3	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr9:137687154G>A	uc004cfe.2	+	34	3174	c.2792G>A	c.(2791-2793)GGC>GAC	p.G931D		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	931	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GGGAAGCCTGGCCCCAAGGTA	0.602													7	73					0	0	0.038147	0	0		A	137687154	A	A	137687154	3	1	133	1	0	0	0	0	1	0	0	0	3699	1203	42	2	2926	2	COL5A1	9	137687154	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	780152	137687154	3526277	67	72590											
CAMK2G	818	broad.mit.edu	37	chr10	75612948	75612948	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accctcagaaagtggcacttAcaggtcaaacacgaggtagt	14	7	10	10	1	2	1	2	0	0	1	2	2	2	1	1	3	2	2	1	3	4	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr10:75612948A>G	uc001jvv.1	-	4	375	c.251_splice	c.e4+1	p.L84_splice	CAMK2G_uc001jvm.1_Splice_Site_p.L92_splice|CAMK2G_uc001jvo.1_Splice_Site_p.L92_splice|CAMK2G_uc001jvq.1_Splice_Site_p.L92_splice|CAMK2G_uc001jvr.1_Splice_Site_p.L92_splice|CAMK2G_uc001jvp.1_Splice_Site_p.L92_splice|CAMK2G_uc001jvs.1_Splice_Site_p.L92_splice|CAMK2G_uc001jvt.1_Intron|CAMK2G_uc001jvu.1_Splice_Site_p.L92_splice|CAMK2G_uc010qkv.1_Intron	NM_172171	NP_751911	Q13555	KCC2G_HUMAN	calcium/calmodulin-dependent protein kinase II						insulin secretion|interferon-gamma-mediated signaling pathway|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calcium-dependent protein serine/threonine phosphatase activity|calmodulin binding|calmodulin-dependent protein kinase activity			lung(1)|stomach(1)	2	Prostate(51;0.0112)					AGTGGCACTTACAGGTCAAAC	0.522													3	34					0	0	0.009096	0	0		G	75612948	G	G	75612948	5	3	133	1	0	0	0	0	0	0	1	0	2605	405	14	3	1565	3	CAMK2G	10	75612948	Splice_Site	SNP	A	TCGA-CG-4441-01A-01D-1800-08		75612948	59921799	68	72591											
HIF1AN	55662	broad.mit.edu	37	chr10	102304792	102304792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatgcatcttattccctcCggatcagttcgagtgcctct	7	13	8	13	3	3	0	1	0	2	0	6	3	5	1	3	1	2	2	3	1	1	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr10:102304792C>T	uc001krj.3	+	4	737	c.662C>T	c.(661-663)CCG>CTG	p.P221L		NM_017902	NP_060372	Q9NWT6	HIF1N_HUMAN	hypoxia-inducible factor 1, alpha subunit	221	JmjC.|Interaction with HIF1A.|Interaction with VHL.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|protein binding				0		Colorectal(252;0.234)		Epithelial(162;6.75e-10)|all cancers(201;4.88e-08)		TTATTCCCTCCGGATCAGTTC	0.463													19	49					0	0	0.049695	0	0		T	102304792	T	T	102304792	3	4	133	1	0	0	0	0	1	0	0	0	7120	652	23	1	676	1	HIF1AN	10	102304792	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	26691844	102304792	33229955	69	72592											
LZTS2	84445	broad.mit.edu	37	chr10	102762419	102762419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccggccctgtcccggggggCcagctcctccccgccaccac	3	4	12	22	3	0	0	0	0	0	0	3	0	3	0	9	4	1	1	9	4	0	0			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr10:102762419C>T	uc001ksj.2	+	2	193	c.124C>T	c.(124-126)CCA>TCA	p.P42S	LZTS2_uc010qpw.1_Missense_Mutation_p.P42S|LZTS2_uc001ksk.2_Missense_Mutation_p.P42S|LZTS2_uc001ksl.2_Missense_Mutation_p.P42S|LZTS2_uc001ksm.2_RNA	NM_032429	NP_115805	Q9BRK4	LZTS2_HUMAN	leucine zipper, putative tumor suppressor 2	42	Required for centrosomal localization (By similarity).				cell division|mitosis|Wnt receptor signaling pathway	membrane|microtubule|microtubule organizing center				ovary(2)|large_intestine(1)|breast(1)	4				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		TCCCGGGGGGCCAGCTCCTCC	0.682													18	49					0	0	0.076483	0	0		T	102762419	T	T	102762419	3	4	133	1	0	0	0	0	1	0	0	0	9157	739	26	2	126	2	LZTS2	10	102762419	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	457627	102762419	32772328	70	72593											
SMC3	9126	broad.mit.edu	37	chr10	112341745	112341745	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagagattacatactctagaGgaagaaaaggaagaactagc	19	6	11	5	0	1	4	0	0	1	4	1	8	1	6	0	2	4	0	0	2	9	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr10:112341745G>T	uc001kze.2	+	9	738	c.612G>T	c.(610-612)GAG>GAT	p.E204D		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	204	Potential.				cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		ATACTCTAGAGGAAGAAAAGG	0.388													44	79					8.20599e-20	9.26663e-20	0.042209	1	0		T	112341745	T	T	112341745	3	4	133	1	0	0	0	0	1	0	0	0	14809	991	35	5	646	5	SMC3	10	112341745	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	9579326	112341745	23193002	71	72594											
OR51A4	401666	broad.mit.edu	37	chr11	4967903	4967903	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atactatccctatttgggcaActctgacagttgtcaggatt	10	14	8	9	0	2	1	1	1	1	0	3	2	3	2	1	2	2	2	1	2	4	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr11:4967903A>C	uc010qys.1	-	1	428	c.428T>G	c.(427-429)GTT>GGT	p.V143G		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		TATTTGGGCAACTCTGACAGT	0.423													6	570					0	0	0.02938	0	0		C	4967903	C	C	4967903	3	2	133	1	0	0	0	0	1	0	0	0	11106	43	2	5	515	5	OR51A4	11	4967903	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08		4967903	130038613	72	72595											
OR51I1	390063	broad.mit.edu	37	chr11	5461820	5461820	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggcctgggatttatggaAgaacttgagaatccctttgc	10	12	11	8	0	1	2	1	1	0	2	2	5	2	4	2	3	2	0	2	3	4	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr11:5461820A>C	uc010qze.1	-	1	925	c.925T>G	c.(925-927)TTC>GTC	p.F309V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005288	NP_001005288	Q9H343	O51I1_HUMAN	olfactory receptor, family 51, subfamily I,	309	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GATTTATGGAAGAACTTGAGA	0.453													32	67					0	0	0.054565	0	0		C	5461820	C	C	5461820	3	2	133	1	0	0	0	0	1	0	0	0	11119	72	3	5	23	5	OR51I1	11	5461820	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08	493917	5461820	129544696	73	72596											
APBB1	322	broad.mit.edu	37	chr11	6416887	6416887	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggggtgctgggaggcaggaGgtggaggcctgggaacgggc	6	4	25	6	1	0	0	0	0	0	0	0	4	0	4	1	10	2	2	1	10	1	0			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr11:6416887G>C	uc001mdb.1	-	14	2110	c.2010C>G	c.(2008-2010)ACC>ACG	p.T670T	APBB1_uc001mcz.1_Silent_p.T289T|APBB1_uc001mdd.3_Silent_p.T448T|APBB1_uc001mda.2_Silent_p.T195T|APBB1_uc001mdc.1_Silent_p.T668T|APBB1_uc001mcy.1_Missense_Mutation_p.P108R	NM_001164	NP_001155	O00213	APBB1_HUMAN	amyloid beta A4 precursor protein-binding,	670	PID 2.				apoptosis|axonogenesis|cell cycle arrest|histone H4 acetylation|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of thymidylate synthase biosynthetic process|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|signal transduction|transcription, DNA-dependent	cytoplasm|growth cone|lamellipodium|nucleus|plasma membrane|synapse	beta-amyloid binding|chromatin binding|histone binding|proline-rich region binding|transcription factor binding			breast(2)	2		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;6.49e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		GGAGGCAGGAGGTGGAGGCCT	0.662													7	26					0	0	0.02938	0	0		C	6416887	C	C	6416887	2	2	133	1	0	0	0	0	0	0	0	1	759	987	35	5		5	APBB1	11	6416887	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	955067	6416887	128589629	74	72597											
HPX	3263	broad.mit.edu	37	chr11	6452560	6452560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatggatgaggtacaagcCgggaccattggcggaacatg	12	6	14	9	2	0	1	0	1	0	0	0	4	0	4	3	5	3	1	3	5	3	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr11:6452560C>T	uc001mdg.2	-	10	1331	c.1270G>A	c.(1270-1272)GGC>AGC	p.G424S	HPX_uc001mdf.2_Missense_Mutation_p.G170S|HPX_uc009yfc.2_RNA	NM_000613	NP_000604	P02790	HEMO_HUMAN	hemopexin precursor	424					cellular iron ion homeostasis|interspecies interaction between organisms	extracellular space	heme transporter activity|metal ion binding|protein binding				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;5.46e-08)|BRCA - Breast invasive adenocarcinoma(625;0.19)		AGGTACAAGCCGGGACCATTG	0.537													27	83					0	0	0.045705	0	0		T	6452560	T	T	6452560	3	4	133	1	0	0	0	0	1	0	0	0	7362	652	23	1	122	1	HPX	11	6452560	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	35673	6452560	128553956	75	72598											
SLC17A6	57084	broad.mit.edu	37	chr11	22360124	22360124	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttggccccaggaaaagagggGctaaagaattttgctggaaa	14	8	13	6	0	0	2	0	0	0	2	0	4	0	4	2	5	1	2	2	5	6	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr11:22360124G>C	uc001mqk.2	+	1	458	c.45G>C	c.(43-45)GGG>GGC	p.G15G		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	15	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						GAAAAGAGGGGCTAAAGAATT	0.443													19	42					0	0	0.062417	0	0		C	22360124	C	C	22360124	2	2	133	1	0	0	0	0	0	0	0	1	14446	1190	42	5		5	SLC17A6	11	22360124	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	15907564	22360124	112646392	76	72599											
OR5D18	219438	broad.mit.edu	37	chr11	55587672	55587672	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcactactctccctttcTtgctctgatacttacatcaa	8	16	2	15	0	5	1	2	1	3	0	7	1	6	1	2	0	4	1	2	0	4	5			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr11:55587672T>G	uc010rin.1	+	1	567	c.567T>G	c.(565-567)TCT>TCG	p.S189S		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				TCTCCCTTTCTTGCTCTGATA	0.408													48	84					0	0	0.048971	0	0		G	55587672	G	G	55587672	2	3	133	1	0	0	0	0	0	0	0	1	11176	1596	56	5		5	OR5D18	11	55587672	Silent	SNP	T	TCGA-CG-4441-01A-01D-1800-08	33227548	55587672	79418844	77	72600											
TCIRG1	10312	broad.mit.edu	37	chr11	67814973	67814973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggccacgggctgctcatGttcctgttcgccctggccat	3	11	13	14	2	1	0	1	0	0	0	3	0	2	0	4	3	1	4	4	3	0	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr11:67814973G>A	uc001one.2	+	11	1347	c.1239G>A	c.(1237-1239)ATG>ATA	p.M413I	TCIRG1_uc001ong.2_Missense_Mutation_p.M197I|TCIRG1_uc001onh.2_Missense_Mutation_p.M115I|TCIRG1_uc001oni.2_5'UTR|TCIRG1_uc009ysd.2_5'Flank	NM_006019	NP_006010	Q13488	VPP3_HUMAN	T-cell, immune regulator 1 isoform a	413	Helical; (Potential).				ATP hydrolysis coupled proton transport|cellular defense response|cellular iron ion homeostasis|insulin receptor signaling pathway|positive regulation of cell proliferation|transferrin transport	apical plasma membrane|endosome membrane|integral to plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity			ovary(1)	1						GGCTGCTCATGTTCCTGTTCG	0.637													11	21					0	0	0.105934	0	0		A	67814973	A	A	67814973	3	1	133	1	0	0	0	0	1	0	0	0	15728	1377	48	4	1277	4	TCIRG1	11	67814973	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	12227301	67814973	67191543	78	72601											
C11orf63	79864	broad.mit.edu	37	chr11	122817487	122817487	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaaaaagcataagaaaaGaagcagcagtaaggtaataa	23	4	11	3	0	0	2	0	0	0	2	0	3	0	3	0	2	3	5	0	2	10	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr11:122817487G>T	uc001pym.2	+	6	2213	c.1916G>T	c.(1915-1917)AGA>ATA	p.R639I		NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	639										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		CATAAGAAAAGAAGCAGCAGT	0.383													19	53					1.64293e-13	1.80614e-13	0.083992	1	0		T	122817487	T	T	122817487	3	4	133	1	0	0	0	0	1	0	0	0	1657	942	33	5	1998	5	C11orf63	11	122817487	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	55002514	122817487	12189029	79	72602											
OR6T1	219874	broad.mit.edu	37	chr11	123813599	123813599	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttgacttgtgaccctcAgtttcatcacagcagtgagc	8	13	8	12	0	3	3	3	3	0	0	4	3	4	3	2	0	2	2	2	0	0	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr11:123813599A>G	uc010sab.1	-	1	947	c.947T>C	c.(946-948)CTG>CCG	p.L316P		NM_001005187	NP_001005187	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T,	316	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		TGTGACCCTCAGTTTCATCAC	0.428													40	73					0	0	0.080422	0	0		G	123813599	G	G	123813599	3	3	133	1	0	0	0	0	1	0	0	0	11229	188	7	3	27	3	OR6T1	11	123813599	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08	996112	123813599	11192917	80	72603											
HDAC7	51564	broad.mit.edu	37	chr12	48183352	48183352	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctgggggccgcaccacagCgaaaccattctggaaaaaga	13	5	11	12	2	1	1	0	0	1	1	2	3	2	2	4	3	2	1	4	3	3	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr12:48183352C>T	uc010slo.1	-	18	2296	c.2101G>A	c.(2101-2103)GCT>ACT	p.A701T	HDAC7_uc009zku.2_Intron|HDAC7_uc001rqe.2_Missense_Mutation_p.A135T|HDAC7_uc001rqj.3_Missense_Mutation_p.A664T|HDAC7_uc001rqk.3_Missense_Mutation_p.A684T|HDAC7_uc010slp.1_5'Flank	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	662	Histone deacetylase.				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		CGCACCACAGCGAAACCATTC	0.532													13	32					0	0	0.028581	0	0		T	48183352	T	T	48183352	3	4	133	1	0	0	0	0	1	0	0	0	7028	768	27	1	910	1	HDAC7	12	48183352	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08		48183352	85668543	81	72604											
NCKAP1L	3071	broad.mit.edu	37	chr12	54913027	54913027	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgagaaccctgacttagcCaaggtgatgaacctcattgt	12	10	9	10	0	1	4	1	4	0	1	1	5	1	4	3	1	3	0	3	1	4	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr12:54913027C>A	uc001sgc.3	+	16	1615	c.1536C>A	c.(1534-1536)GCC>GCA	p.A512A	NCKAP1L_uc010sox.1_Silent_p.A54A|NCKAP1L_uc010soy.1_Silent_p.A462A	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	512					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						CTGACTTAGCCAAGGTGATGA	0.483													7	73					8.12818e-05	8.53974e-05	0.02938	1	0		A	54913027	A	A	54913027	2	1	133	1	0	0	0	0	0	0	0	1	10241	581	21	5		5	NCKAP1L	12	54913027	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08	6729675	54913027	78938868	82	72605											
NAV3	89795	broad.mit.edu	37	chr12	78513023	78513023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctccttaattagggaaaaCcgatgatgccaaagcttctg	12	12	8	9	1	2	1	0	1	2	0	3	3	2	2	3	1	3	1	3	1	5	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr12:78513023C>T	uc001syp.2	+	15	3220	c.3047C>T	c.(3046-3048)ACC>ATC	p.T1016I	NAV3_uc001syo.2_Missense_Mutation_p.T1016I|NAV3_uc010sub.1_Missense_Mutation_p.T516I|NAV3_uc009zsf.2_Missense_Mutation_p.T24I	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1016						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TTAGGGAAAACCGATGATGCC	0.388										HNSCC(70;0.22)			41	117					0	0	0.048971	0	0		T	78513023	T	T	78513023	3	4	133	1	0	0	0	0	1	0	0	0	10203	507	18	4	3105	4	NAV3	12	78513023	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	23599996	78513023	55338872	83	72606											
TBX3	6926	broad.mit.edu	37	chr12	115120924	115120924	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaccgcgctcatggcgaAgtccggcgcccggtgaggta	7	5	15	14	6	1	1	1	1	0	0	2	2	2	1	3	4	1	3	3	4	2	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr12:115120924A>C	uc001tvt.1	-	1	1046	c.82T>G	c.(82-84)TTC>GTC	p.F28V	TBX3_uc001tvu.1_Missense_Mutation_p.F28V|TBX3_uc010syw.1_Missense_Mutation_p.F28V	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	28					anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		CTCATGGCGAAGTCCGGCGCC	0.701											OREG0022153	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	57					0	0	0.004672	0	0		C	115120924	C	C	115120924	3	2	133	1	0	0	0	0	1	0	0	0	15684	72	3	5	2181	5	TBX3	12	115120924	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08	36607901	115120924	18730971	84	72607											
NCOR2	9612	broad.mit.edu	37	chr12	124824647	124824647	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctctgctggagggcatcctgGgtccgaggggagatgggcga	6	7	19	9	2	1	1	0	0	1	1	3	5	3	2	2	6	1	2	2	6	0	0			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr12:124824647G>A	uc010tay.1	-	39	5778	c.5622C>T	c.(5620-5622)ACC>ACT	p.T1874T	NCOR2_uc010taz.1_Silent_p.T1858T|NCOR2_uc010tax.1_5'UTR	NM_006312	NP_006303	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 1	1875					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GGGCATCCTGGGTCCGAGGGG	0.502													15	63					0	0	0.024245	0	0		A	124824647	A	A	124824647	2	1	133	1	0	0	0	0	0	0	0	1	10255	1219	43	4		4	NCOR2	12	124824647	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	9703723	124824647	9027248	85	72608											
TMEM132D	121256	broad.mit.edu	37	chr12	129566427	129566427	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgtccacttgccagtcTgagcccagcaggtgggccag	7	8	14	12	0	1	2	0	2	1	0	2	2	2	2	4	2	3	1	4	2	0	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr12:129566427T>G	uc009zyl.1	-	7	2128	c.1800A>C	c.(1798-1800)TCA>TCC	p.S600S	TMEM132D_uc001uia.2_Silent_p.S138S	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	600	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		CTTGCCAGTCTGAGCCCAGCA	0.642													14	46					0	0	0.0333	0	0		G	129566427	G	G	129566427	2	3	133	1	0	0	0	0	0	0	0	1	16072	1567	55	5		5	TMEM132D	12	129566427	Silent	SNP	T	TCGA-CG-4441-01A-01D-1800-08	4741780	129566427	4285468	86	72609											
SACS	26278	broad.mit.edu	37	chr13	23912948	23912948	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaatacattgactttacActctgagtgaaaatgataag	16	13	6	6	0	2	4	1	4	1	0	2	4	2	4	0	0	2	0	0	0	6	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr13:23912948A>G	uc001uon.2	-	10	5656	c.5067T>C	c.(5065-5067)AGT>AGC	p.S1689S	SACS_uc001uoo.2_Silent_p.S1542S|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1689					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TTGACTTTACACTCTGAGTGA	0.348													14	33					0	0	0.028581	0	0		G	23912948	G	G	23912948	2	3	133	1	0	0	0	0	0	0	0	1	13829	156	6	3		3	SACS	13	23912948	Silent	SNP	A	TCGA-CG-4441-01A-01D-1800-08		23912948	91256930	87	72610											
NALCN	259232	broad.mit.edu	37	chr13	101735457	101735457	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtaccttgacagagagcaAcaccgactgggccaggacga	14	4	12	11	2	0	2	0	1	0	1	0	6	0	3	3	2	3	2	3	2	3	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr13:101735457A>G	uc001vox.1	-	32	3865	c.3676T>C	c.(3676-3678)TTG>CTG	p.L1226L		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1226	Helical; Name=S1 of repeat IV; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					ACAGAGAGCAACACCGACTGG	0.413													14	30					0	0	0.105934	0	0		G	101735457	G	G	101735457	2	3	133	1	0	0	0	0	0	0	0	1	10166	40	2	3		3	NALCN	13	101735457	Silent	SNP	A	TCGA-CG-4441-01A-01D-1800-08	77822509	101735457	13434421	88	72611											
DAOA	267012	broad.mit.edu	37	chr13	106142294	106142294	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggaaaagtcttcatggcaaGaaactatgagttccttgcct	12	12	9	8	0	2	2	1	1	1	1	3	3	3	3	2	2	2	2	2	2	5	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr13:106142294G>C	uc001vqb.2	+	4	600	c.326G>C	c.(325-327)AGA>ACA	p.R109T	DAOA_uc010tjf.1_Missense_Mutation_p.R38T|DAOA_uc001vpz.2_RNA|DAOA_uc010agd.2_RNA|DAOA_uc010tjg.1_Missense_Mutation_p.R81T|DAOA_uc001vqc.2_RNA|DAOA_uc001vqe.2_RNA	NM_172370	NP_758958	P59103	DAOA_HUMAN	D-amino acid oxidase activator isoform 1	109						Golgi apparatus					0	Lung NSC(43;0.01)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					ttcatggcaagaaactatgag	0													10	39					0	0	0.069234	0	0		C	106142294	C	C	106142294	3	2	133	1	0	0	0	0	1	0	0	0	4235	942	33	5	449	5	DAOA	13	106142294	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	4406837	106142294	9027584	89	72612											
OR4Q3	441669	broad.mit.edu	37	chr14	20215736	20215736	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgatagtggtaacagtgcaAgcccatgctcacctgctcca	10	10	9	12	0	1	1	1	1	0	0	2	1	2	1	3	1	5	4	3	1	3	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr14:20215736A>C	uc010tkt.1	+	1	150	c.150A>C	c.(148-150)CAA>CAC	p.Q50H		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	50	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TAACAGTGCAAGCCCATGCTC	0.398													6	163					0	0	0.021553	0	0		C	20215736	C	C	20215736	3	2	133	1	0	0	0	0	1	0	0	0	11100	69	3	5	152	5	OR4Q3	14	20215736	Missense_Mutation	SNP	A	TCGA-CG-4441-01A-01D-1800-08		20215736	87133804	90	72613											
SLC24A4	123041	broad.mit.edu	37	chr14	92909097	92909097	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacgtcggggtgggcaccatCgtgggctctgctgtgttcaa	5	10	16	10	3	2	0	1	0	1	0	4	1	2	0	1	4	1	4	1	4	1	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr14:92909097C>T	uc001yak.2	+	6	492	c.468C>T	c.(466-468)ATC>ATT	p.I156I	SLC24A4_uc001yai.2_Silent_p.I109I|SLC24A4_uc010twm.1_Silent_p.I173I|SLC24A4_uc001yaj.2_Silent_p.I156I|SLC24A4_uc010auj.2_Silent_p.I64I|SLC24A4_uc010twn.1_5'Flank	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	173	Alpha-1.|Helical; (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		TGGGCACCATCGTGGGCTCTG	0.612													14	58					0	0	0.028581	0	0		T	92909097	T	T	92909097	2	4	133	1	0	0	0	0	0	0	0	1	14493	874	31	1		1	SLC24A4	14	92909097	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08	72693361	92909097	14440443	91	72614											
KIAA1409	57578	broad.mit.edu	37	chr14	94044282	94044282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgtttcggagtcctttgcGtagtccgtttcgtagccctt	3	16	10	12	5	0	0	0	0	0	0	5	1	3	1	4	1	2	4	4	1	2	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr14:94044282G>A	uc001ybv.1	+	15	1858	c.1775G>A	c.(1774-1776)CGT>CAT	p.R592H	KIAA1409_uc001ybs.1_Missense_Mutation_p.R592H	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	769						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		AGTCCTTTGCGTAGTCCGTTT	0.438													70	164					0	0	0.048971	0	0		A	94044282	A	A	94044282	3	1	133	1	0	0	0	0	1	0	0	0	8246	1145	40	1	1833	1	KIAA1409	14	94044282	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	1135185	94044282	13305258	92	72615											
RTL1	388015	broad.mit.edu	37	chr14	101348302	101348302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggatcatgatgggctcctCggtgttctccaggtagcggc	7	10	14	10	2	2	1	1	1	1	0	5	2	3	2	2	5	1	3	2	5	2	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr14:101348302C>T	uc010txj.1	-	1	2883	c.2824G>A	c.(2824-2826)GAG>AAG	p.E942K	MIR433_hsa-mir-433|MI0001723_RNA|uc001yig.3_5'Flank|MIR127_hsa-mir-127|MI0000472_5'Flank|MIR432_hsa-mir-432|MI0003133_5'Flank|uc010txk.1_5'Flank|MIR136_hsa-mir-136|MI0000475_5'Flank	NM_001134888	NP_001128360	A6NKG5	RTL1_HUMAN	retrotransposon-like 1	942										pancreas(1)	1						ATGGGCTCCTCGGTGTTCTCC	0.522													28	71					0	0	0.099896	0	0		T	101348302	T	T	101348302	3	4	133	1	0	0	0	0	1	0	0	0	13749	893	31	1	1256	1	RTL1	14	101348302	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	7304020	101348302	6001238	93	72616											
RYR3	6263	broad.mit.edu	37	chr15	33831637	33831637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcgatgacctcatcctcGtcagcgtgtcctctgaaaga	8	11	10	12	3	3	3	2	2	1	1	6	4	5	3	3	1	1	0	3	1	1	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr15:33831637G>A	uc001zhi.2	+	6	590	c.520G>A	c.(520-522)GTC>ATC	p.V174I	RYR3_uc010bar.2_Missense_Mutation_p.V174I	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	174	MIR 2.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CCTCATCCTCGTCAGCGTGTC	0.433													3	4					0	0	0.004672	0	0		A	33831637	A	A	33831637	3	1	133	1	0	0	0	0	1	0	0	0	13795	1145	40	1	542	1	RYR3	15	33831637	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08		33831637	68699755	94	72617											
CASC5	57082	broad.mit.edu	37	chr15	40915077	40915077	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagacgataagaatgataTggatatcactaagagttata	19	10	9	3	1	1	5	1	1	0	4	1	7	1	6	0	1	0	1	0	1	8	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr15:40915077T>C	uc010bbs.1	+	11	2854	c.2693T>C	c.(2692-2694)ATG>ACG	p.M898T	CASC5_uc010ucq.1_Missense_Mutation_p.M722T|CASC5_uc001zme.2_Missense_Mutation_p.M872T|CASC5_uc010bbt.1_Missense_Mutation_p.M872T	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	898	1.|2 X 104 AA approximate repeats.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		AAGAATGATATGGATATCACT	0.333													7	46					0	0	0.02938	0	0		C	40915077	C	C	40915077	3	2	133	1	0	0	0	0	1	0	0	0	2666	1464	51	3	2731	3	CASC5	15	40915077	Missense_Mutation	SNP	T	TCGA-CG-4441-01A-01D-1800-08	7083440	40915077	61616315	95	72618											
TMEM62	80021	broad.mit.edu	37	chr15	43438759	43438759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactccctttggcaactattCgttcatctgtgtagatgcca	8	15	7	11	1	2	1	1	0	1	1	4	1	3	1	2	1	3	3	2	1	4	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr15:43438759C>T	uc001zqr.2	+	5	824	c.545C>T	c.(544-546)TCG>TTG	p.S182L	TMEM62_uc010bda.2_Missense_Mutation_p.S52L	NM_024956	NP_079232	Q0P6H9	TMM62_HUMAN	transmembrane protein 62	182						integral to membrane				ovary(1)|breast(1)	2		all_cancers(109;1.16e-10)|all_epithelial(112;2.01e-09)|Lung NSC(122;8.91e-07)|all_lung(180;8.8e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;4.23e-07)		GGCAACTATTCGTTCATCTGT	0.393													67	143					0	0	0.048971	0	0		T	43438759	T	T	43438759	3	4	133	1	0	0	0	0	1	0	0	0	16214	893	31	1	563	1	TMEM62	15	43438759	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	2523682	43438759	59092633	96	72619											
AKAP13	11214	broad.mit.edu	37	chr15	86122866	86122866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagcctctgacgtgcacGtcacaagtaagcctgtggat	9	9	12	11	2	2	1	1	1	1	0	2	3	2	3	2	2	3	2	2	2	2	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr15:86122866G>A	uc002blv.1	+	7	1737	c.1567G>A	c.(1567-1569)GTC>ATC	p.V523I	AKAP13_uc002blt.1_Missense_Mutation_p.V523I|AKAP13_uc002blu.1_Missense_Mutation_p.V523I	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	523					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TGACGTGCACGTCACAAGTAA	0.473													15	100					0	0	0.028581	0	0		A	86122866	A	A	86122866	3	1	133	1	0	0	0	0	1	0	0	0	449	1145	40	1	1589	1	AKAP13	15	86122866	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	42684107	86122866	16408526	97	72620											
ACAN	176	broad.mit.edu	37	chr15	89389036	89389036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctttcccacacctggcctggGccctgccacggcattcacca	6	8	8	19	1	1	0	1	0	0	0	2	0	2	0	6	3	1	1	6	3	0	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr15:89389036G>A	uc010upo.1	+	7	1726	c.1352G>A	c.(1351-1353)GGC>GAC	p.G451D	ACAN_uc002bmx.2_Missense_Mutation_p.G451D|ACAN_uc010upp.1_Missense_Mutation_p.G451D|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	451					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CCTGGCCTGGGCCCTGCCACG	0.617													4	7					0	0	0.014758	0	0		A	89389036	A	A	89389036	3	1	133	1	0	0	0	0	1	0	0	0	117	1203	42	2	1374	2	ACAN	15	89389036	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	3266170	89389036	13142356	98	72621											
ASB7	140460	broad.mit.edu	37	chr15	101169958	101169958	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggaccacaatgccaacatCgacattcagaatggtttcct	12	10	7	12	1	1	1	1	0	0	1	3	3	2	2	3	2	2	1	3	2	3	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr15:101169958C>T	uc002bwk.2	+	5	1297	c.528C>T	c.(526-528)ATC>ATT	p.I176I	ASB7_uc002bwj.2_Silent_p.I176I	NM_198243	NP_937886	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box-containing protein 7	176	ANK 5.				intracellular signal transduction					skin(1)	1	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			ATGCCAACATCGACATTCAGA	0.488													13	24					0	0	0.09319	0	0		T	101169958	T	T	101169958	2	4	133	1	0	0	0	0	0	0	0	1	1029	874	31	1		1	ASB7	15	101169958	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08	11780922	101169958	1361434	99	72622											
OR4F15	390649	broad.mit.edu	37	chr15	102358889	102358889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttttgtggtagatttacCtttttgtggtcctaatatct	7	21	8	5	0	1	1	0	0	1	1	2	1	2	1	2	2	1	2	2	2	4	9			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr15:102358889C>T	uc010uts.1	+	1	500	c.500C>T	c.(499-501)CCT>CTT	p.P167L		NM_001001674	NP_001001674	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			GTAGATTTACCTTTTTGTGGT	0.423													53	133					0	0	0.048971	0	0		T	102358889	T	T	102358889	3	4	133	1	0	0	0	0	1	0	0	0	11080	681	24	4	502	4	OR4F15	15	102358889	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	1188931	102358889	172503	100	72623											
ABCC1	4363	broad.mit.edu	37	chr16	16215891	16215891	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtcggtcagccgctccccGgtctattcccatttcaacga	7	10	9	15	4	3	0	2	0	1	0	6	2	5	0	4	2	2	1	4	2	2	3	rs4148377		TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr16:16215891G>A	uc010bvi.2	+	24	3625	c.3450G>A	c.(3448-3450)CCG>CCA	p.P1150P	ABCC1_uc010bvj.2_Silent_p.P1091P|ABCC1_uc010bvk.2_Silent_p.P1094P|ABCC1_uc010bvl.2_Silent_p.P1150P|ABCC1_uc010bvm.2_Silent_p.P1035P|ABCC1_uc002del.3_Silent_p.P1044P	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1150	Cytoplasmic.|ABC transmembrane type-1 2.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GCCGCTCCCCGGTCTATTCCC	0.607													18	42					0	0	0.043863	0	0		A	16215891	A	A	16215891	2	1	133	1	0	0	0	0	0	0	0	1	49	1103	39	1		1	ABCC1	16	16215891	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08		16215891	74138862	101	72624											
HYDIN	54768	broad.mit.edu	37	chr16	70926295	70926295	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacaggctggtgctcaatcTtcacttccttttttgcatgg	7	15	9	10	0	3	0	2	0	1	0	4	1	4	0	1	3	3	3	1	3	2	5			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr16:70926295T>G	uc002ezr.2	-	56	9511	c.9383A>C	c.(9382-9384)AAG>ACG	p.K3128T		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3129										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GTGCTCAATCTTCACTTCCTT	0.473													13	79					0	0	0.024245	0	0		G	70926295	G	G	70926295	3	3	133	1	0	0	0	0	1	0	0	0	7483	1609	56	5	6103	5	HYDIN	16	70926295	Missense_Mutation	SNP	T	TCGA-CG-4441-01A-01D-1800-08	54710404	70926295	19428458	102	72625											
EFNB3	1949	broad.mit.edu	37	chr17	7611470	7611470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccttctcacttgtgatcGcccagacctggatctccgct	5	12	7	17	2	2	2	1	1	2	1	6	3	3	3	5	1	0	1	5	1	0	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr17:7611470G>A	uc002gis.2	+	2	714	c.317G>A	c.(316-318)CGC>CAC	p.R106H		NM_001406	NP_001397	Q15768	EFNB3_HUMAN	ephrin-B3 precursor	106	Extracellular (Potential).				cell-cell signaling|interspecies interaction between organisms	integral to plasma membrane	ephrin receptor binding|transmembrane-ephrin receptor activity			ovary(1)	1		all_cancers(10;1.14e-06)|Prostate(122;0.081)				ACTTGTGATCGCCCAGACCTG	0.557													32	79					0	0	0.064281	0	0		A	7611470	A	A	7611470	3	1	133	1	0	0	0	0	1	0	0	0	4963	1087	38	1	323	1	EFNB3	17	7611470	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08		7611470	73583740	103	72626											
OTOP3	347741	broad.mit.edu	37	chr17	72938070	72938070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacgatgtgagccacatcCgctgcaagtcacagctggac	10	7	11	13	2	1	1	1	1	0	0	2	3	2	2	2	1	4	4	2	1	2	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr17:72938070C>T	uc010wrr.1	+	3	565	c.565C>T	c.(565-567)CGC>TGC	p.R189C	OTOP3_uc010wrq.1_Missense_Mutation_p.R171C	NM_178233	NP_839947	Q7RTS5	OTOP3_HUMAN	otopetrin 3	189						integral to membrane|intracellular	zinc ion binding			ovary(1)	1	all_lung(278;0.151)|Lung NSC(278;0.185)					GAGCCACATCCGCTGCAAGTC	0.587													12	38					0	0	0.105934	0	0		T	72938070	T	T	72938070	3	4	133	1	0	0	0	0	1	0	0	0	11326	652	23	1	575	1	OTOP3	17	72938070	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	65326600	72938070	8257140	104	72627											
CASKIN2	57513	broad.mit.edu	37	chr17	73499210	73499210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctccgttctccagtccctCgatggccatcagctccggac	5	11	8	17	3	3	0	1	0	2	0	8	2	5	1	5	2	1	2	5	2	0	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr17:73499210C>T	uc002joc.2	-	18	2495	c.1945G>A	c.(1945-1947)GAG>AAG	p.E649K	CASKIN2_uc010wsc.1_Missense_Mutation_p.E567K	NM_020753	NP_065804	Q8WXE0	CSKI2_HUMAN	cask-interacting protein 2 isoform a	649						cytoplasm				pancreas(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			TCCAGTCCCTCGATGGCCATC	0.701													12	15					0	0	0.080935	0	0		T	73499210	T	T	73499210	3	4	133	1	0	0	0	0	1	0	0	0	2670	893	31	1	1675	1	CASKIN2	17	73499210	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	561140	73499210	7696000	105	72628											
ITGB4	3691	broad.mit.edu	37	chr17	73732147	73732147	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcagaccgaggacgctgctCcatgggccagtgtgtgtgtg	6	9	16	10	2	0	1	0	0	0	1	1	3	1	2	3	2	2	3	3	2	0	0			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr17:73732147C>A	uc002jpg.2	+	14	1860	c.1673C>A	c.(1672-1674)TCC>TAC	p.S558Y	ITGB4_uc002jph.2_Missense_Mutation_p.S558Y|ITGB4_uc010dgo.2_Missense_Mutation_p.S558Y|ITGB4_uc002jpi.3_Missense_Mutation_p.S558Y|ITGB4_uc010dgp.1_Missense_Mutation_p.S558Y|ITGB4_uc002jpj.2_Missense_Mutation_p.S558Y|ITGB4_uc010wsh.1_Missense_Mutation_p.S113Y	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	558	III.|Extracellular (Potential).|Cysteine-rich tandem repeats.				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGACGCTGCTCCATGGGCCAG	0.627													33	139					3.33393e-15	3.71432e-15	0.074837	1	0		A	73732147	A	A	73732147	3	1	133	1	0	0	0	0	1	0	0	0	7913	855	30	5	1723	5	ITGB4	17	73732147	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	232937	73732147	7463063	106	72629											
SLC38A10	124565	broad.mit.edu	37	chr17	79219698	79219698	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggctcctggacagcagcGtcctccccgcctctcggctg	3	8	12	18	3	1	0	0	0	1	0	5	1	4	1	5	3	2	3	5	3	0	0			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr17:79219698G>A	uc002jzz.1	-	16	3393	c.3018C>T	c.(3016-3018)GAC>GAT	p.D1006D	SLC38A10_uc002jzy.1_Silent_p.D924D	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	1006					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			GGACAGCAGCGTCCTCCCCGC	0.701													22	77					0	0	0.062417	0	0		A	79219698	A	A	79219698	2	1	133	1	0	0	0	0	0	0	0	1	14627	1136	40	1		1	SLC38A10	17	79219698	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	5487551	79219698	1975512	107	72630											
BAHCC1	57597	broad.mit.edu	37	chr17	79429767	79429767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccatgtcccccacagcGgcgtggcatgaaggggaagg	8	5	15	13	2	0	1	0	1	0	0	1	2	1	2	3	5	2	1	3	5	2	0			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr17:79429767G>A	uc002kaf.2	+	25	7385	c.7385G>A	c.(7384-7386)CGG>CAG	p.R2462Q		NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	2462							DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			CCCCCACAGCGGCGTGGCATG	0.612													28	110					0	0	0.034045	0	0		A	79429767	A	A	79429767	3	1	133	1	0	0	0	0	1	0	0	0	1297	1130	39	1	7322	1	BAHCC1	17	79429767	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	210069	79429767	1765443	108	72631											
CETN1	1068	broad.mit.edu	37	chr18	580610	580610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttcgaacccaggaaggaaGagatgaagaaaatgatctcc	16	6	11	8	1	1	4	0	2	1	2	3	8	1	6	2	2	1	1	2	2	6	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr18:580610G>A	uc002kko.1	+	1	244	c.202G>A	c.(202-204)GAG>AAG	p.E68K		NM_004066	NP_004057	Q12798	CETN1_HUMAN	centrin 1	68	EF-hand 2.				cell division|mitosis	spindle pole	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding			upper_aerodigestive_tract(1)|ovary(1)	2						CAGGAAGGAAGAGATGAAGAA	0.557													6	25					0	0	0.021553	0	0		A	580610	A	A	580610	3	1	133	1	0	0	0	0	1	0	0	0	3277	943	33	4	204	4	CETN1	18	580610	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08		580610	77496638	109	72632											
CDH2	1000	broad.mit.edu	37	chr18	25593761	25593761	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttggcatgctcagaagaGagtggaaagcttctcacggc	12	8	12	9	1	2	2	2	0	1	2	3	4	2	3	0	3	3	3	0	3	3	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr18:25593761G>T	uc002kwg.2	-	3	744	c.285C>A	c.(283-285)CTC>CTA	p.L95L	CDH2_uc010xbn.1_Silent_p.L64L	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	95					adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						GCTCAGAAGAGAGTGGAAAGC	0.448													7	131					8.12818e-05	8.53974e-05	0.02938	1	0		T	25593761	T	T	25593761	2	4	133	1	0	0	0	0	0	0	0	1	3108	929	33	5		5	CDH2	18	25593761	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	25013151	25593761	52483487	110	72633											
DSEL	92126	broad.mit.edu	37	chr18	65178313	65178313	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtttccaaacattagtaTtagttggtgatatttcccct	9	18	6	8	0	1	1	0	1	1	0	3	1	3	1	3	1	1	3	3	1	5	7			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr18:65178313T>G	uc002lke.1	-	2	4787	c.3563A>C	c.(3562-3564)AAT>ACT	p.N1188T		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	1178						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				AACATTAGTATTAGTTGGTGA	0.368													16	35					0	0	0.024245	0	0		G	65178313	G	G	65178313	3	3	133	1	0	0	0	0	1	0	0	0	4781	1493	52	5	109	5	DSEL	18	65178313	Missense_Mutation	SNP	T	TCGA-CG-4441-01A-01D-1800-08	39584552	65178313	12898935	111	72634											
MED16	10025	broad.mit.edu	37	chr19	879980	879980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagggccagtgacgtccacGatagctgcatagcctttaag	10	8	11	12	2	0	1	0	1	0	0	1	2	1	1	4	1	3	2	4	1	3	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr19:879980G>A	uc002lqd.1	-	8	1461	c.1310C>T	c.(1309-1311)TCG>TTG	p.S437L	MED16_uc010drw.1_Missense_Mutation_p.S262L|MED16_uc002lqe.2_Missense_Mutation_p.S426L|MED16_uc002lqf.2_Missense_Mutation_p.S426L|MED16_uc010xfv.1_Intron|MED16_uc010xfw.1_Missense_Mutation_p.S426L|MED16_uc010xfx.1_Missense_Mutation_p.S282L|MED16_uc010xfy.1_Intron	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	437					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGACGTCCACGATAGCTGCAT	0.682													5	9					0	0	0.014758	0	0		A	879980	A	A	879980	3	1	133	1	0	0	0	0	1	0	0	0	9452	1059	37	1	1359	1	MED16	19	879980	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08		879980	58249003	112	72635											
FZR1	51343	broad.mit.edu	37	chr19	3533300	3533300	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgccctccaggtgagcacGcacggctactcacagaacca	10	5	9	17	3	1	2	1	1	0	1	3	2	3	2	4	2	3	3	4	2	2	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr19:3533300G>T	uc010dtk.2	+	11	1285	c.1251G>T	c.(1249-1251)ACG>ACT	p.T417T	FZR1_uc002lxt.2_Silent_p.T417T|FZR1_uc002lxv.2_Silent_p.T328T	NM_001136198	NP_001129670	Q9UM11	FZR_HUMAN	Fzr1 protein isoform 1	417	WD 6.				activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|DNA repair|G2/M transition DNA damage checkpoint|mitosis|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	protein binding			lung(1)|kidney(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGTGAGCACGCACGGCTACT	0.662													16	40					2.35188e-11	2.55171e-11	0.038395	1	0		T	3533300	T	T	3533300	2	4	133	1	0	0	0	0	0	0	0	1	6152	1074	38	5		5	FZR1	19	3533300	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	2653320	3533300	55595683	113	72636											
ZNF562	54811	broad.mit.edu	37	chr19	9764240	9764240	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaatgtggattcccatGtgattatcaaggcttgcaaa	11	13	8	9	0	2	1	1	1	1	0	4	2	3	2	2	2	1	2	2	2	4	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr19:9764240G>A	uc010xks.1	-	6	829	c.666C>T	c.(664-666)CAC>CAT	p.H222H	ZNF562_uc002mly.2_Silent_p.H222H|ZNF562_uc002mlx.2_Silent_p.H150H|ZNF562_uc010xkt.1_Silent_p.H185H|ZNF562_uc010xku.1_Silent_p.H153H|ZNF562_uc010xkv.1_Silent_p.H221H|ZNF562_uc010xkw.1_Silent_p.H106H	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	222	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGATTCCCATGTGATTATCAA	0.413													16	35					0	0	0.024245	0	0		A	9764240	A	A	9764240	2	1	133	1	0	0	0	0	0	0	0	1	18018	1368	48	4		4	ZNF562	19	9764240	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	6230940	9764240	49364743	114	72637											
NCAN	1463	broad.mit.edu	37	chr19	19339331	19339331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgtcaccctgggcatagagGacttcgaactggaggtcctg	8	9	13	11	1	1	1	1	0	0	1	3	4	2	3	2	4	1	1	2	4	2	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr19:19339331G>A	uc002nlz.2	+	8	3001	c.2902G>A	c.(2902-2904)GAC>AAC	p.D968N	NCAN_uc010ecc.1_Missense_Mutation_p.D532N	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	968					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GGGCATAGAGGACTTCGAACT	0.642													4	140					0	0	0.014758	0	0		A	19339331	A	A	19339331	3	1	133	1	0	0	0	0	1	0	0	0	10223	1174	41	4	2928	4	NCAN	19	19339331	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	9575091	19339331	39789652	115	72638											
ATP4A	495	broad.mit.edu	37	chr19	36050871	36050871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccacaaaatgctcgatctCgatagcgatgggtgtcttct	9	12	10	10	3	3	0	0	0	3	0	6	3	4	0	1	1	2	1	1	1	3	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr19:36050871C>T	uc002oal.1	-	7	921	c.892G>A	c.(892-894)GAG>AAG	p.E298K	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	298	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	TGCTCGATCTCGATAGCGATG	0.587													10	44					0	0	0.080935	0	0		T	36050871	T	T	36050871	3	4	133	1	0	0	0	0	1	0	0	0	1146	893	31	1	2279	1	ATP4A	19	36050871	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	16711540	36050871	23078112	116	72639											
PAPL	390928	broad.mit.edu	37	chr19	39592115	39592115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccttccccaggtatttaacGgcagccgagagatgccctac	9	8	9	15	2	0	1	0	0	0	1	1	3	1	1	5	2	4	2	5	2	3	5			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr19:39592115G>A	uc002oki.2	+	11	1325	c.1051G>A	c.(1051-1053)GGC>AGC	p.G351S	PAPL_uc010egl.2_Silent_p.T309T	NM_001004318	NP_001004318	Q6ZNF0	PAPL_HUMAN	iron/zinc purple acid phosphatase-like protein	351						extracellular region	acid phosphatase activity|metal ion binding				0						GGTATTTAACGGCAGCCGAGA	0.612													14	18					0	0	0.020292	0	0		A	39592115	A	A	39592115	3	1	133	1	0	0	0	0	1	0	0	0	11446	1116	39	1	1089	1	PAPL	19	39592115	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	3541244	39592115	19536868	117	72640											
POLD1	5424	broad.mit.edu	37	chr19	50918996	50918996	+	Frame_Shift_Del	DEL	C	-	-																															cgcaggatgaggaagcgggaCcccgggagtgcgcccagcct																										TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr19:50918996delC	uc002psb.3	+	22	2789	c.2733delC	c.(2731-2733)GACfs	p.D911fs	POLD1_uc002psc.3_Frame_Shift_Del_p.D911fs|POLD1_uc010enx.2_Intron|POLD1_uc010eny.2_Frame_Shift_Del_p.D937fs	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	911					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		GGAAGCGGGACCCCGGGAGTG	0.478								DNA_polymerases_(catalytic_subunits)					2	4	---	---	---	---						.	-	50918996	-	-	50918996	7	5	133	1	0	1	0	1	0	0	0	0	12209	506	18	0	2815	0	POLD1	19	50918996	Frame_Shift_Del	DEL	C	TCGA-CG-4441-01A-01D-1800-08	11326881	50918996	8209987	118	72641											
ZNF677	342926	broad.mit.edu	37	chr19	53741786	53741786	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcctttggtgataatcccTtgcttgtaaatccaacagaa	11	15	6	9	0	0	2	0	1	0	1	3	2	3	2	3	1	2	2	3	1	5	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr19:53741786T>G	uc002qbf.1	-	5	379	c.194A>C	c.(193-195)AAG>ACG	p.K65T	ZNF677_uc002qbg.1_Missense_Mutation_p.K65T	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	65	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		TGATAATCCCTTGCTTGTAAA	0.303													11	35					0	0	0.069234	0	0		G	53741786	G	G	53741786	3	3	133	1	0	0	0	0	1	0	0	0	18109	1609	56	5	1564	5	ZNF677	19	53741786	Missense_Mutation	SNP	T	TCGA-CG-4441-01A-01D-1800-08	2822790	53741786	5387197	119	72642											
ZNF606	80095	broad.mit.edu	37	chr19	58490018	58490018	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattacatttatagggtttcTcaccagtgtgaattctccga	10	15	8	8	1	2	1	1	1	2	0	4	3	2	1	2	1	1	1	2	1	4	6			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr19:58490018T>C	uc002qqw.2	-	7	2648	c.2030A>G	c.(2029-2031)GAG>GGG	p.E677G	ZNF606_uc010yhp.1_Missense_Mutation_p.E587G	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	677					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		ATAGGGTTTCTCACCAGTGTG	0.418													24	51					0	0	0.083992	0	0		C	58490018	C	C	58490018	3	2	133	1	0	0	0	0	1	0	0	0	18057	1551	54	3	352	3	ZNF606	19	58490018	Missense_Mutation	SNP	T	TCGA-CG-4441-01A-01D-1800-08	4748232	58490018	638965	120	72643											
ACSS1	84532	broad.mit.edu	37	chr20	24993556	24993556	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagttcggtaagccccGtctccagtgaagtaatagcc	9	9	9	14	2	2	1	1	1	1	0	4	1	2	1	5	1	2	3	5	1	4	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr20:24993556G>A	uc002wub.2	-	11	2477	c.1599C>T	c.(1597-1599)GAC>GAT	p.D533D	ACSS1_uc002wuc.2_Silent_p.D531D|ACSS1_uc010gdc.2_Silent_p.D328D|ACSS1_uc002wud.1_RNA|ACSS1_uc002wua.2_Silent_p.D450D	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	533					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GGTAAGCCCCGTCTCCAGTGA	0.572													40	123					0	0	0.042209	0	0		A	24993556	A	A	24993556	2	1	133	1	0	0	0	0	0	0	0	1	188	1136	40	1		1	ACSS1	20	24993556	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08		24993556	38031964	121	72644											
PTPRT	11122	broad.mit.edu	37	chr20	41420056	41420056	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagggttggcaggagaaggtGggccttctggccagaggctc	7	7	18	9	0	1	2	0	0	1	2	2	3	1	2	2	7	0	3	2	7	1	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr20:41420056G>T	uc002xkg.2	-	3	449	c.265C>A	c.(265-267)CAC>AAC	p.H89N	PTPRT_uc010ggj.2_Missense_Mutation_p.H89N	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	89	Extracellular (Potential).|MAM.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				AGGAGAAGGTGGGCCTTCTGG	0.537													11	28					0.000673444	0.000703093	0.069234	1	0		T	41420056	T	T	41420056	3	4	133	1	0	0	0	0	1	0	0	0	12837	1348	47	5	4237	5	PTPRT	20	41420056	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	16426500	41420056	21605464	122	72645											
TP53TG5	27296	broad.mit.edu	37	chr20	44002629	44002629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accctctgctcgcacctctgGctctcgtccaggtcacatca	6	10	7	18	2	5	0	2	0	3	0	8	0	6	0	3	2	1	3	3	2	0	0			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr20:44002629G>A	uc002xny.2	-	5	872	c.791C>T	c.(790-792)GCC>GTC	p.A264V	SYS1_uc002xnw.1_Intron|SYS1-DBNDD2_uc002xnx.2_Intron	NM_014477	NP_055292	Q9Y2B4	T53G5_HUMAN	TP53-target gene 5 protein	264					intracellular signal transduction|negative regulation of cell growth	cytoplasm|nucleus				central_nervous_system(1)	1						CGCACCTCTGGCTCTCGTCCA	0.592											OREG0025981	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	77					0	0	0.062417	0	0		A	44002629	A	A	44002629	3	1	133	1	0	0	0	0	1	0	0	0	16417	1203	42	2	85	2	TP53TG5	20	44002629	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	2582573	44002629	19022891	123	72646											
PTK6	5753	broad.mit.edu	37	chr20	62165514	62165514	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagcggctaccttccggcaGggcgcggccagccgcaggcc	5	3	17	16	5	0	0	0	0	0	0	1	1	1	1	5	6	3	3	5	6	1	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr20:62165514G>A	uc002yfg.2	-	3	547	c.507C>T	c.(505-507)CCC>CCT	p.P169P	PTK6_uc011aay.1_Silent_p.P68P|PTK6_uc011aaz.1_5'Flank	NM_005975	NP_005966	Q13882	PTK6_HUMAN	PTK6 protein tyrosine kinase 6	169	SH2.					cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|kidney(1)	2	all_cancers(38;2.51e-11)		Epithelial(9;1.5e-08)|all cancers(9;8.67e-08)|BRCA - Breast invasive adenocarcinoma(10;6.43e-06)			CCTTCCGGCAGGGCGCGGCCA	0.687													3	5					0	0	0.004672	0	0		A	62165514	A	A	62165514	2	1	133	1	0	0	0	0	0	0	0	1	12787	987	35	4		4	PTK6	20	62165514	Silent	SNP	G	TCGA-CG-4441-01A-01D-1800-08	18162885	62165514	860006	124	72647											
DNAJC5	80331	broad.mit.edu	37	chr20	62562251	62562251	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtgctgctactgctgctgCtgtctgtgctgctgcttcaa	4	14	11	12	1	2	0	1	0	1	0	2	0	2	0	0	0	9	8	0	0	2	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr20:62562251C>T	uc002yhf.2	+	4	539	c.369C>T	c.(367-369)TGC>TGT	p.C123C	DNAJC5_uc002yhg.1_Silent_p.C123C|DNAJC5_uc002yhh.2_RNA	NM_025219	NP_079495	Q9H3Z4	DNJC5_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	123	Poly-Cys.				neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					actgctgctgctgtctgtgct	0.488													3	69					0	0	0.004672	0	0		T	62562251	T	T	62562251	2	4	133	1	0	0	0	0	0	0	0	1	4656	805	28	2		2	DNAJC5	20	62562251	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08	396737	62562251	463269	125	72648											
ADAMTS5	11096	broad.mit.edu	37	chr21	28338365	28338365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcactcgtcccgcctcctgCgggcacgaagccagcaatgc	7	5	11	18	5	0	0	0	0	0	0	3	1	2	0	4	1	4	3	4	1	2	0			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr21:28338365C>T	uc002ymg.2	-	1	1075	c.346G>A	c.(346-348)GCA>ACA	p.A116T		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	116					proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CCGCCTCCTGCGGGCACGAAG	0.682													12	60					0	0	0.09319	0	0		T	28338365	T	T	28338365	3	4	133	1	0	0	0	0	1	0	0	0	269	768	27	1	2478	1	ADAMTS5	21	28338365	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08		28338365	19791530	126	72649											
DSCR3	10311	broad.mit.edu	37	chr21	38612909	38612909	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgttggactgaatccttaCtcgatatgaccaccacgcca	10	10	9	12	2	0	2	0	2	0	0	2	4	1	3	4	2	1	1	4	2	3	3			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr21:38612909C>A	uc002ywf.1	-	3	328	c.89G>T	c.(88-90)AGT>ATT	p.S30I	DSCR3_uc010gnm.1_RNA|DSCR3_uc010gnn.1_5'UTR|DSCR3_uc010gnl.2_Missense_Mutation_p.S30I|DSCR3_uc011aeg.1_Missense_Mutation_p.S30I|DSCR3_uc011aeh.1_Intron	NM_006052	NP_006043	O14972	DSCR3_HUMAN	Down syndrome critical region protein 3	30					vacuolar transport	nucleus|retromer complex					0						TGAATCCTTACTCGATATGAC	0.453													15	23					1.3612e-06	1.4578e-06	0.024245	1	0		A	38612909	A	A	38612909	3	1	133	1	0	0	0	0	1	0	0	0	4777	565	20	5	832	5	DSCR3	21	38612909	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	10274544	38612909	9516986	127	72650											
TRPM2	7226	broad.mit.edu	37	chr21	45833814	45833814	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgcagccccaatggcacCgacccctacaagcctaagtg	11	5	8	17	1	0	0	0	0	0	0	0	1	0	0	6	1	4	2	6	1	4	2			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr21:45833814C>T	uc002zet.1	+	21	3216	c.3003C>T	c.(3001-3003)ACC>ACT	p.T1001T	TRPM2_uc002zeu.1_Silent_p.T1001T|TRPM2_uc002zew.1_Silent_p.T1001T|TRPM2_uc010gpt.1_Silent_p.T1001T|TRPM2_uc002zex.1_Silent_p.T787T|TRPM2_uc002zey.1_Silent_p.T514T	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	1001	Extracellular (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCAATGGCACCGACCCCTACA	0.612													26	190					0	0	0.099896	0	0		T	45833814	T	T	45833814	2	4	133	1	0	0	0	0	0	0	0	1	16612	639	23	1		1	TRPM2	21	45833814	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08	7220905	45833814	2296081	128	72651											
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31851888	31851888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgacccaagactgctggatCggcttcctgatctgctcggg	6	11	12	12	2	1	3	0	2	1	1	4	4	2	4	2	3	2	3	2	3	1	2	rs138781990		TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr22:31851888C>T	uc003akz.1	-	8	1213	c.1049G>A	c.(1048-1050)CGA>CAA	p.R350Q	EIF4ENIF1_uc003akx.1_Missense_Mutation_p.R29Q|EIF4ENIF1_uc003aky.1_Missense_Mutation_p.R29Q|EIF4ENIF1_uc003ala.1_Missense_Mutation_p.R350Q|EIF4ENIF1_uc003alb.1_Missense_Mutation_p.R187Q	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	350						nucleus	protein binding|protein transporter activity			ovary(1)	1						ACTGCTGGATCGGCTTCCTGA	0.478											OREG0003517	type=REGULATORY REGION|Gene=LOC486366|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	29	65					0	0	0.041601	0	0		T	31851888	T	T	31851888	3	4	133	1	0	0	0	0	1	0	0	0	5043	884	31	1	1959	1	EIF4ENIF1	22	31851888	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08		31851888	19452678	129	72652											
EP300	2033	broad.mit.edu	37	chr22	41572924	41572924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgccgcctgagtatccagCgctgcatccagtctctggtc	5	10	10	16	3	1	1	0	1	1	0	6	1	3	1	4	1	2	3	4	1	1	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr22:41572924C>T	uc003azl.3	+	31	5604	c.5209C>T	c.(5209-5211)CGC>TGC	p.R1737C		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1737	Binding region for E1A adenovirus.|TAZ-type 2.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						GAGTATCCAGCGCTGCATCCA	0.562			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				17	41					0	0	0.0333	0	0		T	41572924	T	T	41572924	3	4	133	1	0	0	0	0	1	0	0	0	5156	768	27	1	5331	1	EP300	22	41572924	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	9721036	41572924	9731642	130	72653											
MOV10L1	54456	broad.mit.edu	37	chr22	50555597	50555597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttcaagaaatcctggccGctgcaaggagctccttttgc	8	13	9	11	1	1	1	1	0	0	1	3	2	3	2	3	2	3	3	3	2	3	4			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chr22:50555597G>A	uc003bjj.2	+	9	1354	c.1271G>A	c.(1270-1272)CGC>CAC	p.R424H	MOV10L1_uc003bjk.3_Missense_Mutation_p.R424H|MOV10L1_uc011arp.1_Missense_Mutation_p.R404H|MOV10L1_uc011arq.1_Missense_Mutation_p.R185H|MOV10L1_uc010hao.1_RNA	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	424					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		AATCCTGGCCGCTGCAAGGAG	0.388													39	94					0	0	0.092188	0	0		A	50555597	A	A	50555597	3	1	133	1	0	0	0	0	1	0	0	0	9737	1087	38	1	1346	1	MOV10L1	22	50555597	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	8982673	50555597	748969	131	72654											
PPP2R3B	28227	broad.mit.edu	37	chrX	299398	299398	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgtcgtactcctcggcCgcgtacttctcccagtccga	6	10	10	15	5	1	0	0	0	1	0	6	2	3	1	4	2	2	2	4	2	2	3	rs140356111	byFrequency	TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chrX:299398C>T	uc004cpg.2	-	12	1719	c.1518G>A	c.(1516-1518)GCG>GCA	p.A506A	PPP2R3B_uc004cpf.2_Silent_p.A107A	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	506					cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ACTCCTCGGCCGCGTACTTCT	0.433													5	38					0	0	0.014758	0	0		T	299398	T	T	299398	2	4	133	1	0	0	0	0	0	0	0	1	12411	639	23	1		1	PPP2R3B	23	299398	Silent	SNP	C	TCGA-CG-4441-01A-01D-1800-08		299398	154971162	132	72655											
ARMCX6	54470	broad.mit.edu	37	chrX	100871324	100871324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgttttattgggtgtgctCggttggccttgcctccccct	1	16	12	12	1	0	0	0	0	0	0	2	0	1	0	4	3	2	4	4	3	1	5			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chrX:100871324C>T	uc004ehx.2	-	3	632	c.287G>A	c.(286-288)CGA>CAA	p.R96Q	ARMCX6_uc004ehy.2_Missense_Mutation_p.R96Q	NM_019007	NP_061880	Q7L4S7	ARMX6_HUMAN	armadillo repeat containing, X-linked 6	96						integral to membrane					0						TGGGTGTGCTCGGTTGGCCTT	0.537													63	22					0	0	0.048971	0	0		T	100871324	T	T	100871324	3	4	133	1	0	0	0	0	1	0	0	0	964	884	31	1	619	1	ARMCX6	23	100871324	Missense_Mutation	SNP	C	TCGA-CG-4441-01A-01D-1800-08	100571926	100871324	54399236	133	72656											
ZMAT1	84460	broad.mit.edu	37	chrX	101139163	101139163	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcctatctttctgaaacaAgtttttggctctagtcctct	7	18	5	11	0	5	1	0	1	5	0	7	1	6	1	2	1	1	2	2	1	4	5			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chrX:101139163A>C	uc004eim.2	-	2	4221	c.723T>G	c.(721-723)ACT>ACG	p.T241T	ZMAT1_uc011mrl.1_Silent_p.T412T|ZMAT1_uc004ein.2_Silent_p.T241T|ZMAT1_uc011mrm.1_Silent_p.T241T	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	241						nucleus	zinc ion binding			ovary(1)	1						TTCTGAAACAAGTTTTTGGCT	0.408													60	84					0	0	0.048971	0	0		C	101139163	C	C	101139163	2	2	133	1	0	0	0	0	0	0	0	1	17716	59	3	5		5	ZMAT1	23	101139163	Silent	SNP	A	TCGA-CG-4441-01A-01D-1800-08	267839	101139163	54131397	134	72657											
DCAF12L2	340578	broad.mit.edu	37	chrX	125298907	125298907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttctgctggcgctggcgcGgatccaggaaggagacgtgg	6	8	18	9	4	1	1	0	0	1	1	2	4	2	3	1	6	1	3	1	6	1	1			TCGA-CG-4441-01A-01D-1800-08	TCGA-CG-4441-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	3561742b-6710-43fc-be5f-e79fe27a2106	26a663df-034d-4549-b77e-aca4e2c7c522	g.chrX:125298907G>A	uc004euk.1	-	1	1028	c.1001C>T	c.(1000-1002)CCG>CTG	p.P334L		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	334										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						GCGCTGGCGCGGATCCAGGAA	0.617													44	23					0	0	0.039052	0	0		A	125298907	A	A	125298907	3	1	133	1	0	0	0	0	1	0	0	0	4268	1116	39	1	394	1	DCAF12L2	23	125298907	Missense_Mutation	SNP	G	TCGA-CG-4441-01A-01D-1800-08	24159744	125298907	29971653	135	72658											
CPSF3L	54973	broad.mit.edu	37	chr1	1249291	1249291	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagatgggcaccttcaggtTcatgcgctccctggggacca	7	9	13	12	1	2	1	2	0	0	1	3	2	3	2	3	4	1	4	3	4	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:1249291T>C	uc001aee.1	-	9	836	c.778A>G	c.(778-780)AAC>GAC	p.N260D	CPSF3L_uc009vjy.1_RNA|CPSF3L_uc001aef.1_Missense_Mutation_p.N266D|CPSF3L_uc009vjz.1_Missense_Mutation_p.N238D|CPSF3L_uc010nyj.1_Missense_Mutation_p.N231D|CPSF3L_uc001aeg.1_Missense_Mutation_p.N136D|CPSF3L_uc001aeh.1_Missense_Mutation_p.N159D|CPSF3L_uc001aei.1_Missense_Mutation_p.N162D|CPSF3L_uc001aej.1_Missense_Mutation_p.N87D|CPSF3L_uc001aek.1_Missense_Mutation_p.N2D	NM_017871	NP_060341	Q5TA45	INT11_HUMAN	cleavage and polyadenylation specific factor	260						Golgi apparatus|nucleus	hydrolase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(86;4.35e-21)|Colorectal(212;0.000166)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.00235)|BRCA - Breast invasive adenocarcinoma(365;0.00255)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0349)|Lung(427;0.201)		ACCTTCAGGTTCATGCGCTCC	0.622													4	117					0	0	0.000602	0	0		C	1249291	C	C	1249291	3	2	134	1	0	0	0	0	1	0	0	0	3830	1783	62	3	1060	3	CPSF3L	1	1249291	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08		1249291	248001330	1	72659											
MXRA8	54587	broad.mit.edu	37	chr1	1290349	1290349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcgtagaggtccagcaggCggtccgcgcggtcgtgcggg	5	5	19	12	8	0	1	0	0	0	1	3	1	2	1	2	5	2	2	2	5	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:1290349C>T	uc001aew.2	-	5	693	c.662G>A	c.(661-663)CGC>CAC	p.R221H	MXRA8_uc001aex.3_Missense_Mutation_p.R221H|MXRA8_uc001aey.3_Missense_Mutation_p.R221H|MXRA8_uc010nyl.1_Missense_Mutation_p.R221H|MXRA8_uc001aez.2_Missense_Mutation_p.R120H|MXRA8_uc001afa.2_Missense_Mutation_p.R212H	NM_032348	NP_115724	Q9BRK3	MXRA8_HUMAN	matrix-remodelling associated 8 precursor	221	Ig-like V-type 2.|Extracellular (Potential).					integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		GTCCAGCAGGCGGTCCGCGCG	0.736													12	13					0	0	0.010729	0	0		T	1290349	T	T	1290349	3	4	134	1	0	0	0	0	1	0	0	0	10023	768	27	1	690	1	MXRA8	1	1290349	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	41058	1290349	247960272	2	72660											
VWA1	64856	broad.mit.edu	37	chr1	1372689	1372689	+	Frame_Shift_Del	DEL	C	-	-																															ggctccagcgaccctgtgggCccccccatgcaggagctcaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:1372689delC	uc001afs.2	+	2	676	c.456delC	c.(454-456)GGCfs	p.G152fs	VWA1_uc001afr.2_Intron	NM_022834	NP_073745	Q6PCB0	VWA1_HUMAN	von Willebrand factor A domain containing 1	152	VWFA.					basement membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		ACCCTGTGGGCCCCCCCATGC	0.647													8	13	---	---	---	---						.	-	1372689	-	-	1372689	7	5	134	1	0	1	0	1	0	0	0	0	17264	726	26	0	462	0	VWA1	1	1372689	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	82340	1372689	247877932	3	72661											
SKI	6497	broad.mit.edu	37	chr1	2235477	2235477	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccagagacgctggcgccCgtggctgccccagaggagga	7	3	16	15	3	0	2	0	0	0	2	0	5	0	4	5	4	1	2	5	4	0	0	rs150985728	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:2235477C>T	uc001aja.3	+	4	1482	c.1410C>T	c.(1408-1410)CCC>CCT	p.P470P		NM_003036	NP_003027	P12755	SKI_HUMAN	v-ski sarcoma viral oncogene homolog	470					anterior/posterior axis specification|BMP signaling pathway|bone morphogenesis|cell motility|cell proliferation|embryonic limb morphogenesis|face morphogenesis|lens morphogenesis in camera-type eye|myelination in peripheral nervous system|myotube differentiation|negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of fibroblast proliferation|negative regulation of osteoblast differentiation|negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|neural tube closure|nose morphogenesis|olfactory bulb development|palate development|positive regulation of DNA binding|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|protein homotrimerization|regulation of apoptosis|retina development in camera-type eye|skeletal muscle fiber development|SMAD protein signal transduction|somatic stem cell maintenance|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|PML body|transcription factor complex|transcriptional repressor complex	histone deacetylase inhibitor activity|nucleotide binding|protein domain specific binding|protein kinase binding|repressing transcription factor binding|SMAD binding|transcription corepressor activity|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(77;0.000139)|all_epithelial(69;4.45e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)			Epithelial(90;2.14e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.72e-29)|GBM - Glioblastoma multiforme(42;2.45e-08)|Colorectal(212;5.33e-05)|COAD - Colon adenocarcinoma(227;0.000228)|Kidney(185;0.00268)|BRCA - Breast invasive adenocarcinoma(365;0.00471)|STAD - Stomach adenocarcinoma(132;0.0147)|KIRC - Kidney renal clear cell carcinoma(229;0.0385)|Lung(427;0.207)		CGCTGGCGCCCGTGGCTGCCC	0.667													8	21					0	0	0.007413	0	0		T	2235477	T	T	2235477	2	4	134	1	0	0	0	0	0	0	0	1	14382	639	23	1		1	SKI	1	2235477	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	862788	2235477	247015144	4	72662											
MORN1	79906	broad.mit.edu	37	chr1	2317268	2317268	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagcatctgcccagggcCgtgcctcttgttgtcatgga	8	10	12	11	1	3	1	1	0	2	1	3	2	3	2	3	2	3	2	3	2	1	2	rs147757432		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:2317268C>T	uc001ajb.1	-	5	448	c.427G>A	c.(427-429)GGC>AGC	p.G143S	MORN1_uc009vld.2_Missense_Mutation_p.G119S|MORN1_uc001ajd.1_Missense_Mutation_p.G143S|MORN1_uc010nyy.1_Silent_p.T85T	NM_024848	NP_079124	Q5T089	MORN1_HUMAN	MORN repeat containing 1	143	MORN 5.									ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.000194)|all_epithelial(69;9.96e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;3.3e-15)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;2.21e-37)|OV - Ovarian serous cystadenocarcinoma(86;5.01e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.00137)|BRCA - Breast invasive adenocarcinoma(365;0.00488)|STAD - Stomach adenocarcinoma(132;0.00665)|KIRC - Kidney renal clear cell carcinoma(229;0.0203)|Lung(427;0.212)		TGCCCAGGGCCGTGCCTCTTG	0.582													90	149					0	0	0.01441	0	0		T	2317268	T	T	2317268	3	4	134	1	0	0	0	0	1	0	0	0	9726	652	23	1	1106	1	MORN1	1	2317268	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	81791	2317268	246933353	5	72663											
MMEL1	79258	broad.mit.edu	37	chr1	2528129	2528129	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accattgtgccaaacagcgcCtggtggggccacccgatcat	9	7	11	14	2	1	0	1	0	0	0	1	1	1	0	5	3	3	0	5	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:2528129C>A	uc001ajy.2	-	14	1487	c.1273_splice	c.e14-1	p.A425_splice	MMEL1_uc009vlg.1_Splice_Site	NM_033467	NP_258428	Q495T6	MMEL1_HUMAN	membrane metallo-endopeptidase-like 1						proteolysis	extracellular region|integral to membrane|intracellular membrane-bounded organelle	metal ion binding|metalloendopeptidase activity				0	all_cancers(77;0.000233)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.03e-20)|all_lung(118;5.15e-09)|Lung NSC(185;9.02e-07)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;8.52e-23)|GBM - Glioblastoma multiforme(42;1.49e-08)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;0.000213)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00219)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.131)		CAAACAGCGCCTGGTGGGGCC	0.657													5	83					0.000602214	0.000656368	0.000602	1	0		A	2528129	A	A	2528129	5	1	134	1	0	0	0	0	0	0	1	0	9664	695	24	5	1111	5	MMEL1	1	2528129	Splice_Site	SNP	C	TCGA-CG-4442-01A-01D-1158-08	210861	2528129	246722492	6	72664											
LRRC47	57470	broad.mit.edu	37	chr1	3703754	3703754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctggtctggcagccgctgaCcatcttctccaggcgcttgt	4	12	11	14	2	4	1	0	1	4	0	5	1	4	1	3	3	1	3	3	3	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:3703754C>T	uc001akx.1	-	2	764	c.736G>A	c.(736-738)GTC>ATC	p.V246I		NM_020710	NP_065761	Q8N1G4	LRC47_HUMAN	leucine rich repeat containing 47	246	LRR 7.				translation		phenylalanine-tRNA ligase activity|RNA binding			large_intestine(1)|ovary(1)	2	all_cancers(77;0.0375)|Ovarian(185;0.0634)|all_lung(157;0.208)|Lung NSC(156;0.21)	all_epithelial(116;1.34e-16)|all_lung(118;2.53e-06)|Lung NSC(185;0.00028)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;5.49e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.43e-22)|GBM - Glioblastoma multiforme(42;3.69e-16)|Colorectal(212;1.21e-05)|COAD - Colon adenocarcinoma(227;5.87e-05)|Kidney(185;0.000367)|BRCA - Breast invasive adenocarcinoma(365;0.000704)|KIRC - Kidney renal clear cell carcinoma(229;0.00567)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		CAGCCGCTGACCATCTTCTCC	0.602													33	40					0	0	0.00874	0	0		T	3703754	T	T	3703754	3	4	134	1	0	0	0	0	1	0	0	0	9022	507	18	4	1039	4	LRRC47	1	3703754	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1175625	3703754	245546867	7	72665											
LRRC47	57470	broad.mit.edu	37	chr1	3703780	3703780	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaggcgcttgtccctcAgcttgttcccacggaaattg	6	12	9	14	2	2	0	1	0	1	0	5	1	4	1	3	2	1	3	3	2	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:3703780A>G	uc001akx.1	-	2	738	c.710T>C	c.(709-711)CTG>CCG	p.L237P		NM_020710	NP_065761	Q8N1G4	LRC47_HUMAN	leucine rich repeat containing 47	237	LRR 7.				translation		phenylalanine-tRNA ligase activity|RNA binding			large_intestine(1)|ovary(1)	2	all_cancers(77;0.0375)|Ovarian(185;0.0634)|all_lung(157;0.208)|Lung NSC(156;0.21)	all_epithelial(116;1.34e-16)|all_lung(118;2.53e-06)|Lung NSC(185;0.00028)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;5.49e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.43e-22)|GBM - Glioblastoma multiforme(42;3.69e-16)|Colorectal(212;1.21e-05)|COAD - Colon adenocarcinoma(227;5.87e-05)|Kidney(185;0.000367)|BRCA - Breast invasive adenocarcinoma(365;0.000704)|KIRC - Kidney renal clear cell carcinoma(229;0.00567)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		CTTGTCCCTCAGCTTGTTCCC	0.612													21	54					0	0	0.010818	0	0		G	3703780	G	G	3703780	3	3	134	1	0	0	0	0	1	0	0	0	9022	188	7	3	1065	3	LRRC47	1	3703780	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	26	3703780	245546841	8	72666											
CHD5	26038	broad.mit.edu	37	chr1	6208971	6208971	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcgggcagcggcgggttgagGcaatgcaggtggtaggagga	8	6	21	6	3	0	1	0	1	0	0	1	3	0	3	0	8	2	5	0	8	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:6208971G>A	uc001amb.1	-	9	1426	c.1326C>T	c.(1324-1326)TGC>TGT	p.C442C	CHD5_uc001amc.1_5'Flank	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	442	PHD-type 2.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		GCGGGTTGAGGCAATGCAGGT	0.502													28	58					0	0	0.008361	0	0		A	6208971	A	A	6208971	2	1	134	1	0	0	0	0	0	0	0	1	3331	1195	42	2		2	CHD5	1	6208971	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2505191	6208971	243041650	9	72667											
PLEKHG5	57449	broad.mit.edu	37	chr1	6534577	6534577	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggacaggggtgtgttggActggtccaggtagatgtcca	8	9	18	6	0	0	1	0	0	0	1	2	4	2	3	2	6	0	2	2	6	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:6534577A>T	uc001ano.1	-	7	642	c.541T>A	c.(541-543)TCC>ACC	p.S181T	PLEKHG5_uc001ann.1_Missense_Mutation_p.S162T|PLEKHG5_uc001anq.1_Missense_Mutation_p.S202T|PLEKHG5_uc001anp.1_Missense_Mutation_p.S202T|PLEKHG5_uc001anj.1_5'Flank|PLEKHG5_uc009vma.1_5'UTR|PLEKHG5_uc010nzr.1_Missense_Mutation_p.S194T|PLEKHG5_uc001ank.1_Missense_Mutation_p.S125T|PLEKHG5_uc009vmb.1_Missense_Mutation_p.S125T|PLEKHG5_uc001anl.1_Missense_Mutation_p.S125T|PLEKHG5_uc001anm.1_Missense_Mutation_p.S125T	NM_001042663	NP_001036128	O94827	PKHG5_HUMAN	pleckstrin homology domain containing family G	181					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			liver(1)	1	Ovarian(185;0.02)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;5.51e-35)|GBM - Glioblastoma multiforme(13;3.57e-27)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00159)|READ - Rectum adenocarcinoma(331;0.0419)		GGTGTGTTGGACTGGTCCAGG	0.592													27	34					0	0	0.004656	0	0		T	6534577	T	T	6534577	3	4	134	1	0	0	0	0	1	0	0	0	12092	275	10	5	2711	5	PLEKHG5	1	6534577	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	325606	6534577	242716044	10	72668											
SLC45A1	50651	broad.mit.edu	37	chr1	8384496	8384496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctactcggggtccgtgaCacgacacctcagtcaccggg	7	6	14	14	4	2	1	2	1	0	0	4	2	3	1	3	4	1	1	3	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:8384496C>T	uc001apb.2	+	1	107	c.107C>T	c.(106-108)ACA>ATA	p.T36I		NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	36					carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		GGGTCCGTGACACGACACCTC	0.682													79	125					0	0	0.01441	0	0		T	8384496	T	T	8384496	3	4	134	1	0	0	0	0	1	0	0	0	14665	478	17	4	109	4	SLC45A1	1	8384496	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1849919	8384496	240866125	11	72669											
RERE	473	broad.mit.edu	37	chr1	8420006	8420006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgaagtacaggtctgtccGggcacacgagttgtagcccc	9	8	12	12	2	1	1	0	1	1	0	2	2	2	1	3	2	2	4	3	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:8420006G>A	uc001ape.2	-	20	4246	c.3436C>T	c.(3436-3438)CGG>TGG	p.R1146W	RERE_uc001apf.2_Missense_Mutation_p.R1146W|RERE_uc001apd.2_Missense_Mutation_p.R592W	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1146					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		AGGTCTGTCCGGGCACACGAG	0.622													62	66					0	0	0.01441	0	0		A	8420006	A	A	8420006	3	1	134	1	0	0	0	0	1	0	0	0	13256	1115	39	1	1284	1	RERE	1	8420006	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	35510	8420006	240830615	12	72670											
RERE	473	broad.mit.edu	37	chr1	8420317	8420318	+	Frame_Shift_Ins	INS	-	C	C																															gtggggagtgggcaggacgaINScccccccgctatgctgcctc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:8420317_8420318insC	uc001ape.2	-	19	4059_4060	c.3249_3250insG	c.(3247-3252)GGGTCGfs	p.G1083fs	RERE_uc001apf.2_Frame_Shift_Ins_p.G1083fs|RERE_uc010nzx.1_Frame_Shift_Ins_p.G815fs|RERE_uc001apd.2_Frame_Shift_Ins_p.G529fs	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1083_1084	Pro-rich.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		GGGCAGGACGACCCCCCCGCTA	0.718													4	8	---	---	---	---						.	C	8420318	C	C	8420317	7	5	134	1	0	1	1	0	0	0	0	0	13256	275	10	0	1474	0	RERE	1	8420317	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	311	8420317	240830304	13	72671											
TARDBP	23435	broad.mit.edu	37	chr1	11082567	11082567	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggagccaaaccaggccttCggttctggaaataactctta	12	9	10	10	1	2	0	0	0	2	0	3	2	2	2	3	4	3	1	3	4	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:11082567C>T	uc001art.2	+	6	1235	c.1101C>T	c.(1099-1101)TTC>TTT	p.F367F	TARDBP_uc010oap.1_Silent_p.F251F	NM_007375	NP_031401	Q13148	TADBP_HUMAN	TAR DNA binding protein	367	Gly-rich.				3'-UTR-mediated mRNA stabilization|cell death|mRNA processing|negative regulation by host of viral transcription|RNA splicing|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0578)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.37e-07)|COAD - Colon adenocarcinoma(227;7.38e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000299)|Kidney(185;0.000754)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)		ACCAGGCCTTCGGTTCTGGAA	0.517													29	73					0	0	0.00632	0	0		T	11082567	T	T	11082567	2	4	134	1	0	0	0	0	0	0	0	1	15582	883	31	1		1	TARDBP	1	11082567	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2662250	11082567	238168054	14	72672											
MTOR	2475	broad.mit.edu	37	chr1	11307756	11307756	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatttggatcagcgagttcTtgctattcctgcatttcagc	7	16	8	10	1	4	0	3	0	1	0	5	2	5	1	1	1	4	3	1	1	1	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:11307756T>C	uc001asd.2	-	8	1272	c.1151A>G	c.(1150-1152)AAG>AGG	p.K384R		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	384					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						CAGCGAGTTCTTGCTATTCCT	0.498													52	105					0	0	0.01441	0	0		C	11307756	C	C	11307756	3	2	134	1	0	0	0	0	1	0	0	0	9972	1609	56	3	6702	3	MTOR	1	11307756	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	225189	11307756	237942865	15	72673											
CLCN6	1185	broad.mit.edu	37	chr1	11887152	11887152	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctctcctcagagacaaGagagactttgtatcagcagg	11	10	9	11	0	4	3	2	0	2	3	6	5	4	3	2	1	1	2	2	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:11887152G>T	uc001ate.3	+	10	827	c.714G>T	c.(712-714)AAG>AAT	p.K238N	CLCN6_uc009vnf.1_Nonsense_Mutation_p.E242*|CLCN6_uc009vng.1_Intron|CLCN6_uc009vnh.1_Missense_Mutation_p.K238N|CLCN6_uc010oat.1_Intron|CLCN6_uc010oau.1_Missense_Mutation_p.K216N	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	238					cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		TCAGAGACAAGAGAGACTTTG	0.527													21	23					2.08457e-15	2.35626e-15	0.010818	1	0		T	11887152	T	T	11887152	3	4	134	1	0	0	0	0	1	0	0	0	3470	943	33	5	762	5	CLCN6	1	11887152	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	579396	11887152	237363469	16	72674											
VPS13D	55187	broad.mit.edu	37	chr1	12337111	12337111	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcagagaacaaggaactTaccagtctacatatgaacaa	17	8	7	9	0	2	2	1	1	1	1	2	4	2	3	1	1	5	1	1	1	8	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:12337111T>C	uc001atv.2	+	19	3607	c.3466T>C	c.(3466-3468)TAC>CAC	p.Y1156H	VPS13D_uc001atw.2_Missense_Mutation_p.Y1156H|VPS13D_uc001atx.2_Missense_Mutation_p.Y344H	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	1156					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		ACAAGGAACTTACCAGTCTAC	0.378													9	162					0	0	0.006214	0	0		C	12337111	C	C	12337111	3	2	134	1	0	0	0	0	1	0	0	0	17218	1754	61	3	3536	3	VPS13D	1	12337111	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	449959	12337111	236913510	17	72675											
KAZ	23254	broad.mit.edu	37	chr1	15430600	15430600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cattcaatgccgaggccatgGccactgccctgggcatcccc	7	7	10	17	1	1	0	1	0	0	0	2	1	2	0	6	3	2	1	6	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:15430600G>A	uc001avm.3	+	13	2244	c.1963G>A	c.(1963-1965)GCC>ACC	p.A655T	KAZ_uc001avs.3_Missense_Mutation_p.A102T	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	655	SAM 3.				keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						CGAGGCCATGGCCACTGCCCT	0.647													12	12					0	0	0.010729	0	0		A	15430600	A	A	15430600	3	1	134	1	0	0	0	0	1	0	0	0	8004	1203	42	2	2269	2	KAZ	1	15430600	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3093489	15430600	233820021	18	72676											
ZBTB17	7709	broad.mit.edu	37	chr1	16269901	16269901	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggggcaggacctcttgcCgcagcgctcgcagacgtagg	7	5	17	12	4	1	1	0	0	1	1	2	3	1	2	2	4	2	5	2	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:16269901C>A	uc001axl.3	-	12	1929	c.1690G>T	c.(1690-1692)GGC>TGC	p.G564C	ZBTB17_uc010obq.1_Missense_Mutation_p.G481C|ZBTB17_uc010obr.1_Missense_Mutation_p.G564C|ZBTB17_uc010obs.1_Missense_Mutation_p.G488C	NM_003443	NP_003434	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17	564	C2H2-type 10.				negative regulation of cell cycle	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		GACCTCTTGCCGCAGCGCTCG	0.667													51	82					2.29192e-23	2.65324e-23	0.01441	1	0		A	16269901	A	A	16269901	3	1	134	1	0	0	0	0	1	0	0	0	17552	652	23	5	741	5	ZBTB17	1	16269901	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	839301	16269901	232980720	19	72677											
ZBTB17	7709	broad.mit.edu	37	chr1	16270392	16270392	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccttcaggttccctaccTgtgcccagggaggggtcagg	5	8	16	12	0	2	0	2	0	0	0	3	1	3	1	4	6	2	1	4	6	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:16270392T>C	uc001axl.3	-	10	1611	c.1372_splice	c.e10-1	p.V458_splice	ZBTB17_uc010obq.1_Splice_Site_p.V375_splice|ZBTB17_uc010obr.1_Splice_Site_p.V458_splice|ZBTB17_uc010obs.1_Splice_Site_p.V382_splice|ZBTB17_uc010obt.1_3'UTR|ZBTB17_uc010obu.1_3'UTR	NM_003443	NP_003434	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17						negative regulation of cell cycle	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		GTTCCCTACCTGTGCCCAGGG	0.652													4	8					0	0	0.009096	0	0		C	16270392	C	C	16270392	5	2	134	1	0	0	0	0	0	0	1	0	17552	1594	55	3	1069	3	ZBTB17	1	16270392	Splice_Site	SNP	T	TCGA-CG-4442-01A-01D-1158-08	491	16270392	232980229	20	72678											
PADI3	51702	broad.mit.edu	37	chr1	17609341	17609341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcttcccctttggactgcagGtgaacatgctggtgctgggg	5	11	15	10	0	0	1	0	1	0	0	1	2	1	2	2	5	4	4	2	5	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:17609341G>A	uc001bai.2	+	16	1802	c.1762G>A	c.(1762-1764)GTG>ATG	p.V588M		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	588					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	TGGACTGCAGGTGAACATGCT	0.582													12	10					0	0	0.013537	0	0		A	17609341	A	A	17609341	3	1	134	1	0	0	0	0	1	0	0	0	11398	1275	44	4	1824	4	PADI3	1	17609341	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1338949	17609341	231641280	21	72679											
KLHDC7A	127707	broad.mit.edu	37	chr1	18808480	18808480	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggctgcctcgggaggccaAgccggtgacacaaagggtgc	8	4	18	11	2	0	1	0	1	0	0	1	2	0	2	3	6	3	1	3	6	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:18808480A>G	uc001bax.2	+	1	1057	c.1005A>G	c.(1003-1005)CAA>CAG	p.Q335Q	KLHDC7A_uc009vpg.2_Silent_p.Q117Q	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	335	Kelch 1.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CGGGAGGCCAAGCCGGTGACA	0.687													17	7					0	0	0.006122	0	0		G	18808480	G	G	18808480	2	3	134	1	0	0	0	0	0	0	0	1	8376	69	3	3		3	KLHDC7A	1	18808480	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1199139	18808480	230442141	22	72680											
TAS1R2	80834	broad.mit.edu	37	chr1	19166520	19166520	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggactgaggcccgtggccAgcatgccaattaccacaatg	10	7	12	12	1	0	1	0	1	0	0	0	2	0	2	4	3	3	1	4	3	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:19166520A>G	uc001bba.1	-	6	2094	c.2093T>C	c.(2092-2094)CTG>CCG	p.L698P		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	698	Helical; Name=4; (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	GCCCGTGGCCAGCATGCCAAT	0.557													7	198					0	0	0.001984	0	0		G	19166520	G	G	19166520	3	3	134	1	0	0	0	0	1	0	0	0	15588	188	7	3	430	3	TAS1R2	1	19166520	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	358040	19166520	230084101	23	72681											
UBR4	23352	broad.mit.edu	37	chr1	19467923	19467923	+	Frame_Shift_Del	DEL	G	-	-																															tcaggtgggatgtccagcatGggggggaagccctctgcgcc																								rs145307465		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:19467923delG	uc001bbi.2	-	57	8410	c.8406delC	c.(8404-8406)CCCfs	p.P2802fs	UBR4_uc001bbk.1_Frame_Shift_Del_p.P484fs	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2802					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TGTCCAGCATGGGGGGGAAGC	0.587													48	81	---	---	---	---						.	-	19467923	-	-	19467923	7	5	134	1	0	1	0	1	0	0	0	0	16930	1335	47	0	7345	0	UBR4	1	19467923	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	301403	19467923	229782698	24	72682											
NBL1	4681	broad.mit.edu	37	chr1	19983449	19983449	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagctgccaggcctgcggcAaggagcctagtcacgagggg	8	5	17	11	2	1	0	1	0	0	0	1	2	1	1	3	5	4	3	3	5	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:19983449A>G	uc001bck.1	+	4	525	c.370A>G	c.(370-372)AAG>GAG	p.K124E	NBL1_uc009vpl.1_Missense_Mutation_p.K125E|NBL1_uc001bcj.1_Missense_Mutation_p.K160E|NBL1_uc009vpm.1_Missense_Mutation_p.K125E	NM_005380	NP_005371	P41271	NBL1_HUMAN	neuroblastoma, suppression of tumorigenicity 1 2	124						extracellular region				ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00043)|Ovarian(437;0.00373)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;5.9e-05)|Kidney(64;0.000173)|GBM - Glioblastoma multiforme(114;0.0012)|KIRC - Kidney renal clear cell carcinoma(64;0.0026)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GGCCTGCGGCAAGGAGCCTAG	0.577													4	9					0	0	0.001855	0	0		G	19983449	G	G	19983449	3	3	134	1	0	0	0	0	1	0	0	0	10208	131	5	3	492	3	NBL1	1	19983449	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	515526	19983449	229267172	25	72683											
HSPG2	3339	broad.mit.edu	37	chr1	22179477	22179477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgggcgtgggcctgcccggGcaccacgcagttcagatcca	6	6	14	15	3	1	1	1	0	0	1	2	1	2	1	4	3	1	3	4	3	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:22179477G>A	uc001bfj.2	-	51	6566	c.6526C>T	c.(6526-6528)CCC>TCC	p.P2176S	HSPG2_uc009vqd.2_Missense_Mutation_p.P2177S	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2176	Ig-like C2-type 7.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GCCTGCCCGGGCACCACGCAG	0.716													35	96					0	0	0.005524	0	0		A	22179477	A	A	22179477	3	1	134	1	0	0	0	0	1	0	0	0	7446	1203	42	2	6837	2	HSPG2	1	22179477	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2196028	22179477	227071144	26	72684											
E2F2	1870	broad.mit.edu	37	chr1	23845552	23845552	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgtctgcggaggggcctTgacggcaatcactgtctgct	5	11	13	12	3	4	1	1	1	3	0	5	2	4	2	1	4	2	2	1	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:23845552T>C	uc001bhe.1	-	5	1236	c.808A>G	c.(808-810)AAG>GAG	p.K270E		NM_004091	NP_004082	Q14209	E2F2_HUMAN	E2F transcription factor 2	270	Dimerization (Potential).				G1 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(2)|skin(2)	4		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.52e-24)|Colorectal(126;6.25e-08)|COAD - Colon adenocarcinoma(152;3.42e-06)|GBM - Glioblastoma multiforme(114;8.98e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00102)|KIRC - Kidney renal clear cell carcinoma(1967;0.00366)|STAD - Stomach adenocarcinoma(196;0.0132)|READ - Rectum adenocarcinoma(331;0.0652)|Lung(427;0.0888)|LUSC - Lung squamous cell carcinoma(448;0.19)		GGAGGGGCCTTGACGGCAATC	0.557													38	64					0	0	0.009718	0	0		C	23845552	C	C	23845552	3	2	134	1	0	0	0	0	1	0	0	0	4873	1821	63	3	517	3	E2F2	1	23845552	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1666075	23845552	225405069	27	72685											
ARID1A	8289	broad.mit.edu	37	chr1	27023769	27023769	+	Frame_Shift_Del	DEL	C	-	-																															aactccccagcccaccgccaCccccaccctcaaccaactgc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:27023769delC	uc001bmv.1	+	1	1248	c.875delC	c.(874-876)ACCfs	p.T292fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.T292fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.T292fs	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	292					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CCCACCGCCACCCCCACCCTC	0.761			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								4	9	---	---	---	---						.	-	27023769	-	-	27023769	7	5	134	1	0	1	0	1	0	0	0	0	913	507	18	0	877	0	ARID1A	1	27023769	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	3178217	27023769	222226852	28	72686											
EIF2C1	26523	broad.mit.edu	37	chr1	36358858	36358858	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagccctggatgtggccaTgaggcacctggcatccatga	9	7	13	12	0	0	2	0	2	0	0	1	3	1	3	4	4	1	3	4	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:36358858T>C	uc001bzl.2	+	4	704	c.491T>C	c.(490-492)ATG>ACG	p.M164T	EIF2C1_uc001bzk.2_Missense_Mutation_p.M89T|EIF2C1_uc009vuy.2_5'Flank	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	164					negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GATGTGGCCATGAGGCACCTG	0.562													33	79					0	0	0.004878	0	0		C	36358858	C	C	36358858	3	2	134	1	0	0	0	0	1	0	0	0	5011	1464	51	3	505	3	EIF2C1	1	36358858	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	9335089	36358858	212891763	29	72687											
MRPS15	64960	broad.mit.edu	37	chr1	36921835	36921835	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatcggcggtgggctcttcGgtaatacagaggggggaagg	9	7	19	6	3	1	1	0	0	1	1	3	3	1	2	0	8	1	2	0	8	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:36921835G>A	uc001cas.2	-	7	753	c.589C>T	c.(589-591)CGA>TGA	p.R197*		NM_031280	NP_112570	P82914	RT15_HUMAN	mitochondrial ribosomal protein S15 precursor	197					translation	mitochondrial small ribosomal subunit|nuclear membrane	structural constituent of ribosome			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TGGGCTCTTCGGTAATACAGA	0.522													19	41					0	0	0.012319	0	0		A	36921835	A	A	36921835	4	1	134	1	0	0	0	0	0	1	0	0	9843	1124	39	1	192	1	MRPS15	1	36921835	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	562977	36921835	212328786	30	72688											
CSF3R	1441	broad.mit.edu	37	chr1	36938264	36938264	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggctggggtccatggtccGcagcatggggggctccagtt	5	8	18	10	1	0	0	0	0	0	0	3	0	3	0	3	7	1	5	3	7	0	1	rs150616658		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:36938264G>A	uc001caw.1	-	7	875	c.697C>T	c.(697-699)CGG>TGG	p.R233W	CSF3R_uc001cat.1_5'Flank|CSF3R_uc009vvc.1_5'Flank|CSF3R_uc001cau.1_5'Flank|CSF3R_uc001cav.1_Missense_Mutation_p.R233W|CSF3R_uc001cax.1_Missense_Mutation_p.R233W|CSF3R_uc001cay.1_Missense_Mutation_p.R233W	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	233	Extracellular (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	TCCATGGTCCGCAGCATGGGG	0.627													18	21					0	0	0.008871	0	0		A	36938264	A	A	36938264	3	1	134	1	0	0	0	0	1	0	0	0	3940	1086	38	1	2047	1	CSF3R	1	36938264	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	16429	36938264	212312357	31	72689											
MACF1	23499	broad.mit.edu	37	chr1	39844153	39844153	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttccatactgccctctgtaGgaagctctgtaggcagtgta	8	12	11	10	0	2	0	0	0	2	0	3	1	3	1	2	2	3	6	2	2	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:39844153G>T	uc010oiu.1	+	17	8685	c.8554G>T	c.(8554-8556)GGA>TGA	p.G2852*	MACF1_uc010ois.1_Nonsense_Mutation_p.G2350*|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	4417				SILPSVG -> EYRLFKI (in Ref. 5; BAA86565).	cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GCCCTCTGTAGGAAGCTCTGT	0.468													50	82					1.67886e-27	1.96387e-27	0.01441	1	0		T	39844153	T	T	39844153	4	4	134	1	0	0	0	0	0	1	0	0	9162	1001	35	5	13389	5	MACF1	1	39844153	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2905889	39844153	209406468	32	72690											
KIAA0754	643314	broad.mit.edu	37	chr1	39876405	39876405	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctctcagtgaggtttcAgaagctggtgcttcaaatcc	8	13	10	10	0	4	2	3	1	1	1	6	2	5	2	1	2	2	4	1	2	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:39876405A>G	uc009vvt.1	+	1	1230	c.468A>G	c.(466-468)TCA>TCG	p.S156S	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc010oiu.1_Intron	NM_015038	NP_055853	O94854	K0754_HUMAN	hypothetical protein LOC643314	20											0	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GTGAGGTTTCAGAAGCTGGTG	0.463													3	154					0	0	0.004672	0	0		G	39876405	G	G	39876405	2	3	134	1	0	0	0	0	0	0	0	1	8208	175	7	3		3	KIAA0754	1	39876405	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	32252	39876405	209374216	33	72691											
HPCAL4	51440	broad.mit.edu	37	chr1	40149624	40149624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcacctcgatgatctccagCatctccaggcgcgtgatgcg	7	8	11	15	5	2	2	0	2	2	0	5	3	2	2	3	1	2	2	3	1	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:40149624C>T	uc001cdr.2	-	3	483	c.363G>A	c.(361-363)ATG>ATA	p.M121I	HPCAL4_uc010oix.1_Intron	NM_016257	NP_057341	Q9UM19	HPCL4_HUMAN	hippocalcin-like protein 4	121	EF-hand 3.				central nervous system development	intracellular	calcium ion binding			central_nervous_system(1)	1	all_cancers(7;4.65e-13)|Lung NSC(20;2.88e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TGATCTCCAGCATCTCCAGGC	0.701													17	43					0	0	0.00499	0	0		T	40149624	T	T	40149624	3	4	134	1	0	0	0	0	1	0	0	0	7347	710	25	2	220	2	HPCAL4	1	40149624	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	273219	40149624	209100997	34	72692											
TRIT1	54802	broad.mit.edu	37	chr1	40309854	40309854	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgttctcagcttcattgtAtggcatctttattggagtgg	6	18	10	7	0	3	0	2	0	2	0	4	1	3	1	0	3	1	4	0	3	2	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:40309854A>G	uc010oiz.1	-	10	1167	c.1153T>C	c.(1153-1155)TAC>CAC	p.Y385H	TRIT1_uc001cec.3_RNA|TRIT1_uc001ced.3_Missense_Mutation_p.Y81H|TRIT1_uc001cee.3_RNA|TRIT1_uc001cef.3_RNA|TRIT1_uc001ceg.3_Missense_Mutation_p.Y139H|TRIT1_uc001ceh.3_Missense_Mutation_p.Y139H|TRIT1_uc009vvv.2_Missense_Mutation_p.Y218H|TRIT1_uc001cei.3_Missense_Mutation_p.Y139H|TRIT1_uc001ceq.2_Missense_Mutation_p.Y81H|TRIT1_uc001cek.2_Missense_Mutation_p.Y81H|TRIT1_uc009vvx.2_RNA|TRIT1_uc001cel.2_Intron|TRIT1_uc001cem.2_Missense_Mutation_p.Y303H|TRIT1_uc001cen.2_Missense_Mutation_p.Y139H|TRIT1_uc001ceo.2_Missense_Mutation_p.Y139H|TRIT1_uc001cep.2_Missense_Mutation_p.Y139H	NM_017646	NP_060116	Q9H3H1	MOD5_HUMAN	tRNA isopentenyltransferase 1 precursor	385					tRNA processing	mitochondrion	ATP binding|metal ion binding|tRNA dimethylallyltransferase activity			ovary(1)	1	all_cancers(7;4.55e-14)|all_lung(5;1.23e-16)|all_epithelial(6;2.17e-16)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;3.29e-18)|Epithelial(16;3.07e-17)|all cancers(16;6.21e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			GCTTCATTGTATGGCATCTTT	0.448													4	120					0	0	0.009096	0	0		G	40309854	G	G	40309854	3	3	134	1	0	0	0	0	1	0	0	0	16586	449	16	3	258	3	TRIT1	1	40309854	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	160230	40309854	208940767	35	72693											
TRIT1	54802	broad.mit.edu	37	chr1	40312897	40312897	+	Frame_Shift_Del	DEL	A	-	-																															aaacatgagacttactgctcAaaaaacggtttttaacccat																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:40312897delA	uc010oiz.1	-	8	1015	c.1001delT	c.(1000-1002)TTGfs	p.L334fs	TRIT1_uc001cec.3_RNA|TRIT1_uc001ced.3_Frame_Shift_Del_p.L30fs|TRIT1_uc001cee.3_RNA|TRIT1_uc001cef.3_RNA|TRIT1_uc001ceg.3_Frame_Shift_Del_p.L88fs|TRIT1_uc001ceh.3_Frame_Shift_Del_p.L88fs|TRIT1_uc009vvv.2_Intron|TRIT1_uc001cei.3_Frame_Shift_Del_p.L88fs|TRIT1_uc001ceq.2_Frame_Shift_Del_p.L30fs|TRIT1_uc001cek.2_Frame_Shift_Del_p.L30fs|TRIT1_uc009vvx.2_Intron|TRIT1_uc001cel.2_Intron|TRIT1_uc001cem.2_Frame_Shift_Del_p.L252fs|TRIT1_uc001cen.2_Frame_Shift_Del_p.L88fs|TRIT1_uc001ceo.2_Frame_Shift_Del_p.L88fs|TRIT1_uc001cep.2_Frame_Shift_Del_p.L88fs	NM_017646	NP_060116	Q9H3H1	MOD5_HUMAN	tRNA isopentenyltransferase 1 precursor	334					tRNA processing	mitochondrion	ATP binding|metal ion binding|tRNA dimethylallyltransferase activity			ovary(1)	1	all_cancers(7;4.55e-14)|all_lung(5;1.23e-16)|all_epithelial(6;2.17e-16)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;3.29e-18)|Epithelial(16;3.07e-17)|all cancers(16;6.21e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CTTACTGCTCAAAAAACGGTT	0.368													31	51	---	---	---	---						.	-	40312897	-	-	40312897	7	5	134	1	0	1	0	1	0	0	0	0	16586	131	5	0	418	0	TRIT1	1	40312897	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	3043	40312897	208937724	36	72694											
ZNF642	339559	broad.mit.edu	37	chr1	40961584	40961584	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggaaaagcctataggcaTgattcatcctttaaaaaaca	16	11	7	7	0	1	1	1	1	0	0	2	2	2	2	2	2	2	1	2	2	7	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:40961584T>C	uc001cfo.2	+	6	1728	c.1434T>C	c.(1432-1434)CAT>CAC	p.H478H	ZNF642_uc009vwb.2_Silent_p.H478H|ZNF642_uc010ojk.1_Silent_p.H479H	NM_198494	NP_940896	Q49AA0	ZN642_HUMAN	zinc finger protein 642	478	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.81e-19)			CCTATAGGCATGATTCATCCT	0.398													46	100					0	0	0.01441	0	0		C	40961584	C	C	40961584	2	2	134	1	0	0	0	0	0	0	0	1	18083	1461	51	3		3	ZNF642	1	40961584	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	648687	40961584	208289037	37	72695											
LEPRE1	64175	broad.mit.edu	37	chr1	43224593	43224593	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagggcttctctcgactTgggtgggaagcaagctccgt	8	10	13	10	2	2	0	1	0	1	0	5	2	3	1	1	3	2	3	1	3	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:43224593T>C	uc001chv.2	-	4	983	c.870A>G	c.(868-870)CCA>CCG	p.P290P	LEPRE1_uc001chw.2_Silent_p.P290P|LEPRE1_uc001chx.3_Silent_p.P290P	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	290					negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	TCTCTCGACTTGGGTGGGAAG	0.443													48	85					0	0	0.01441	0	0		C	43224593	C	C	43224593	2	2	134	1	0	0	0	0	0	0	0	1	8745	1799	63	3		3	LEPRE1	1	43224593	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2263009	43224593	206026028	38	72696											
ZNF691	51058	broad.mit.edu	37	chr1	43317265	43317265	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaacagctccagctttggCgtgcatcaccgcacccacac	10	6	8	17	2	1	0	1	0	0	0	2	0	2	0	3	1	5	5	3	1	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:43317265C>T	uc001cih.2	+	2	768	c.717C>T	c.(715-717)GGC>GGT	p.G239G	ZNF691_uc001cig.2_Silent_p.G212G|ZNF691_uc009vwm.2_Silent_p.G232G	NM_015911	NP_056995	Q5VV52	ZN691_HUMAN	zinc finger protein 691	243	C2H2-type 5.					nucleus	DNA binding|zinc ion binding			ovary(2)	2	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCAGCTTTGGCGTGCATCACC	0.587													27	48					0	0	0.008361	0	0		T	43317265	T	T	43317265	2	4	134	1	0	0	0	0	0	0	0	1	18121	755	27	1		1	ZNF691	1	43317265	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	92672	43317265	205933356	39	72697											
ELOVL1	64834	broad.mit.edu	37	chr1	43829798	43829798	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgtgcagtgagaccaggAcaaactggatctaggataga	15	7	13	6	0	1	3	0	1	1	3	1	7	1	6	1	3	2	1	1	3	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:43829798A>G	uc001ciz.2	-	9	872	c.629T>C	c.(628-630)GTC>GCC	p.V210A	ELOVL1_uc001cja.2_Missense_Mutation_p.V210A|ELOVL1_uc001cjb.2_Missense_Mutation_p.V210A|ELOVL1_uc001cjc.2_RNA|ELOVL1_uc010okh.1_Missense_Mutation_p.V183A	NM_022821	NP_073732	Q9BW60	ELOV1_HUMAN	elongation of very long chain fatty acids-like	210	Helical; (Potential).				fatty acid elongation, monounsaturated fatty acid|fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|sphingolipid biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	fatty acid elongase activity|protein binding				0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				TGAGACCAGGACAAACTGGAT	0.478													29	47					0	0	0.00632	0	0		G	43829798	G	G	43829798	3	3	134	1	0	0	0	0	1	0	0	0	5081	275	10	3	214	3	ELOVL1	1	43829798	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	512533	43829798	205420823	40	72698											
KIAA0467	23334	broad.mit.edu	37	chr1	43896402	43896402	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgcacctcacgtgctcCgtgcggctacgtgggcagca	5	9	12	15	4	1	0	1	0	0	0	3	0	3	0	3	2	5	5	3	2	1	2	rs147043685		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:43896402C>T	uc001cjk.1	+	17	2481	c.2019C>T	c.(2017-2019)TCC>TCT	p.S673S		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1572						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TCACGTGCTCCGTGCGGCTAC	0.607													8	312					0	0	0.006214	0	0		T	43896402	T	T	43896402	2	4	134	1	0	0	0	0	0	0	0	1	8194	639	23	1		1	KIAA0467	1	43896402	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	66604	43896402	205354219	41	72699											
KDM4A	9682	broad.mit.edu	37	chr1	44163664	44163664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atggctccttcagcgacaatCtttatcctgaggacatagtg	10	12	9	10	1	2	1	1	1	1	0	4	3	4	2	2	2	1	1	2	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:44163664C>T	uc001cjx.2	+	19	2987	c.2821C>T	c.(2821-2823)CTT>TTT	p.L941F	KDM4A_uc010oki.1_Intron	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	941	Tudor 1.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1						CAGCGACAATCTTTATCCTGA	0.488													42	89					0	0	0.01441	0	0		T	44163664	T	T	44163664	3	4	134	1	0	0	0	0	1	0	0	0	8144	913	32	4	2891	4	KDM4A	1	44163664	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	267262	44163664	205086957	42	72700											
IPO13	9670	broad.mit.edu	37	chr1	44415386	44415386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcggctgtgcgtggcactgGcctcactggctctcagcatg	4	10	13	14	2	2	0	2	0	1	0	4	0	2	0	1	4	2	4	1	4	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:44415386G>A	uc001ckx.2	+	2	1177	c.382G>A	c.(382-384)GCC>ACC	p.A128T		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	128					protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				CGTGGCACTGGCCTCACTGGC	0.572													32	49					0	0	0.008361	0	0		A	44415386	A	A	44415386	3	1	134	1	0	0	0	0	1	0	0	0	7810	1203	42	2	388	2	IPO13	1	44415386	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	251722	44415386	204835235	43	72701											
DPH2	1802	broad.mit.edu	37	chr1	44437275	44437275	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaccttgacccagaccTgagtcggctgctcttggggt	6	9	12	14	1	1	4	0	2	1	2	2	4	1	4	4	3	1	2	4	3	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:44437275T>C	uc001ckz.2	+	4	896	c.701T>C	c.(700-702)CTG>CCG	p.L234P	DPH2_uc001cla.2_Intron|DPH2_uc010okk.1_Missense_Mutation_p.L99P|DPH2_uc001clb.2_Missense_Mutation_p.L158P	NM_001384	NP_001375	Q9BQC3	DPH2_HUMAN	diphthamide biosynthesis protein 2 isoform a	234					peptidyl-diphthamide biosynthetic process from peptidyl-histidine	cytoplasm				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				GACCCAGACCTGAGTCGGCTG	0.627													55	110					0	0	0.01441	0	0		C	44437275	C	C	44437275	3	2	134	1	0	0	0	0	1	0	0	0	4726	1580	55	3	715	3	DPH2	1	44437275	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	21889	44437275	204813346	44	72702											
B4GALT2	8704	broad.mit.edu	37	chr1	44447558	44447558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctacaccccatcttgaggCggcagcggctgcgctacggc	7	7	12	15	4	2	1	0	1	2	0	2	1	2	1	2	4	4	3	2	4	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:44447558C>T	uc001clg.2	+	3	881	c.511C>T	c.(511-513)CGG>TGG	p.R171W	B4GALT2_uc001clh.2_Missense_Mutation_p.R105W|B4GALT2_uc010okl.1_Missense_Mutation_p.R200W|B4GALT2_uc001cli.2_Missense_Mutation_p.R171W	NM_003780	NP_003771	O60909	B4GT2_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	171	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			N-Acetyl-D-glucosamine(DB00141)	CATCTTGAGGCGGCAGCGGCT	0.612													22	45					0	0	0.00632	0	0		T	44447558	T	T	44447558	3	4	134	1	0	0	0	0	1	0	0	0	1272	759	27	1	517	1	B4GALT2	1	44447558	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	10283	44447558	204803063	45	72703											
DMAP1	55929	broad.mit.edu	37	chr1	44684858	44684858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgcagagcagcggcgcaCggaacgcaaggcccccaaaa	13	1	12	15	4	0	1	0	0	0	1	0	2	0	2	2	3	4	4	2	3	4	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:44684858C>T	uc001clq.1	+	7	931	c.851C>T	c.(850-852)ACG>ATG	p.T284M	DMAP1_uc001clr.1_Missense_Mutation_p.T284M|DMAP1_uc001cls.1_Missense_Mutation_p.T284M|DMAP1_uc010oku.1_Missense_Mutation_p.T274M	NM_001034024	NP_001029196	Q9NPF5	DMAP1_HUMAN	DNA methyltransferase 1 associated protein 1	284					DNA methylation|histone H2A acetylation|histone H4 acetylation|negative regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex	DNA binding|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					CAGCGGCGCACGGAACGCAAG	0.622													41	77					0	0	0.013114	0	0		T	44684858	T	T	44684858	3	4	134	1	0	0	0	0	1	0	0	0	4582	536	19	1	873	1	DMAP1	1	44684858	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	237300	44684858	204565763	46	72704											
KIF2C	11004	broad.mit.edu	37	chr1	45218915	45218915	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagctcttctgcaaaccCtgtgaactcaggtagacaca	12	8	9	12	0	3	2	1	1	2	1	3	2	3	2	1	2	4	4	1	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:45218915C>A	uc001cmg.3	+	6	666	c.551C>A	c.(550-552)CCT>CAT	p.P184H	KIF2C_uc010olb.1_Intron|KIF2C_uc010olc.1_Missense_Mutation_p.P71H|KIF2C_uc001cmh.3_Missense_Mutation_p.P130H	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	184	Globular (Potential).				blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TCTGCAAACCCTGTGAACTCA	0.527													27	54					2.49675e-24	2.8937e-24	0.007291	1	0		A	45218915	A	A	45218915	3	1	134	1	0	0	0	0	1	0	0	0	8315	681	24	5	573	5	KIF2C	1	45218915	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	534057	45218915	204031706	47	72705											
ZSWIM5	57643	broad.mit.edu	37	chr1	45504669	45504669	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcagtcaaagtgagaaacagGcagtcgatgggatccagggg	13	6	15	7	1	2	1	2	1	0	1	4	4	3	2	1	4	1	1	1	4	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:45504669G>A	uc001cnd.2	-	8	2061	c.1833C>T	c.(1831-1833)TGC>TGT	p.C611C		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	611							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TGAGAAACAGGCAGTCGATGG	0.537													33	79					0	0	0.010818	0	0		A	45504669	A	A	45504669	2	1	134	1	0	0	0	0	0	0	0	1	18269	1195	42	2		2	ZSWIM5	1	45504669	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	285754	45504669	203745952	48	72706											
GPBP1L1	60313	broad.mit.edu	37	chr1	46094046	46094046	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggaactgcggctctgcAagaagccattctttccaaag	11	9	10	11	1	2	1	0	0	2	1	3	3	3	2	2	2	4	2	2	2	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:46094046A>G	uc001coq.2	-	13	2668	c.1307T>C	c.(1306-1308)TTG>TCG	p.L436S	GPBP1L1_uc001coo.2_Missense_Mutation_p.L180S	NM_021639	NP_067652	Q9HC44	GPBL1_HUMAN	GC-rich promoter binding protein 1-like 1	436					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GCGGCTCTGCAAGAAGCCATT	0.443													24	66					0	0	0.005524	0	0		G	46094046	G	G	46094046	3	3	134	1	0	0	0	0	1	0	0	0	6611	131	5	3	121	3	GPBP1L1	1	46094046	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	589377	46094046	203156575	49	72707											
GPBP1L1	60313	broad.mit.edu	37	chr1	46095321	46095321	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattctcatcattttcaggaTattcctgccaacccatagct	11	14	4	12	0	3	0	3	0	1	0	5	1	4	1	3	1	3	1	3	1	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:46095321T>C	uc001coq.2	-	12	2560	c.1199A>G	c.(1198-1200)TAT>TGT	p.Y400C	GPBP1L1_uc001coo.2_Missense_Mutation_p.Y144C	NM_021639	NP_067652	Q9HC44	GPBL1_HUMAN	GC-rich promoter binding protein 1-like 1	400					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					ATTTTCAGGATATTCCTGCCA	0.443													5	158					0	0	0.001168	0	0		C	46095321	C	C	46095321	3	2	134	1	0	0	0	0	1	0	0	0	6611	1406	49	3	233	3	GPBP1L1	1	46095321	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1275	46095321	203155300	50	72708											
MAST2	23139	broad.mit.edu	37	chr1	46500422	46500422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccaacagcttcacctcagCggtccccatcgcccctgtct	6	8	6	21	2	3	0	2	0	1	0	5	0	4	0	7	1	3	1	7	1	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:46500422C>T	uc001cov.2	+	29	4364	c.4081C>T	c.(4081-4083)CGG>TGG	p.R1361W	MAST2_uc001cow.2_Missense_Mutation_p.R1360W|MAST2_uc001cpa.2_Intron	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	1361					regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					TTCACCTCAGCGGTCCCCATC	0.642													65	139					0	0	0.01441	0	0		T	46500422	T	T	46500422	3	4	134	1	0	0	0	0	1	0	0	0	9343	759	27	1	4195	1	MAST2	1	46500422	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	405101	46500422	202750199	51	72709											
CYP4Z1	199974	broad.mit.edu	37	chr1	47571852	47571852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcatcaaggaatgcctcCgcctctacgcaccggtagta	9	9	10	13	3	2	0	1	0	1	0	3	1	3	1	4	2	3	4	4	2	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:47571852C>T	uc001cqu.1	+	9	1123	c.1120C>T	c.(1120-1122)CGC>TGC	p.R374C		NM_178134	NP_835235	Q86W10	CP4Z1_HUMAN	cytochrome P450 4Z1	374	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			skin(1)	1						GGAATGCCTCCGCCTCTACGC	0.493													68	132					0	0	0.01441	0	0		T	47571852	T	T	47571852	3	4	134	1	0	0	0	0	1	0	0	0	4197	652	23	1	1154	1	CYP4Z1	1	47571852	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1071430	47571852	201678769	52	72710											
ELAVL4	1996	broad.mit.edu	37	chr1	50663114	50663114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgcaggctggacaatttgCttaatatggcctatggcgta	9	14	11	7	1	0	0	0	0	0	0	0	1	0	1	1	4	2	4	1	4	5	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:50663114C>T	uc001csb.2	+	6	1016	c.748C>T	c.(748-750)CTT>TTT	p.L250F	ELAVL4_uc001cry.3_Missense_Mutation_p.L253F|ELAVL4_uc001crz.3_Missense_Mutation_p.L250F|ELAVL4_uc001csa.3_Missense_Mutation_p.L267F|ELAVL4_uc001csc.3_Missense_Mutation_p.L250F|ELAVL4_uc009vyu.2_Missense_Mutation_p.L255F|ELAVL4_uc010omz.1_Missense_Mutation_p.L255F	NM_021952	NP_068771	P26378	ELAV4_HUMAN	ELAV-like 4 isoform 1	250					mRNA processing		AU-rich element binding|mRNA 3'-UTR binding|nucleotide binding			ovary(1)|pancreas(1)	2						GGACAATTTGCTTAATATGGC	0.408													63	114					0	0	0.01441	0	0		T	50663114	T	T	50663114	3	4	134	1	0	0	0	0	1	0	0	0	5060	797	28	2	869	2	ELAVL4	1	50663114	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3091262	50663114	198587507	53	72711											
TTC39A	22996	broad.mit.edu	37	chr1	51771659	51771659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagcactcaccaggttgaagGcccctacaccaagcttcact	11	7	8	15	0	2	1	2	1	0	0	2	2	2	1	4	2	3	3	4	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:51771659G>A	uc001csl.2	-	7	791	c.686C>T	c.(685-687)GCC>GTC	p.A229V	TTC39A_uc001csk.2_Missense_Mutation_p.A194V|TTC39A_uc010ond.1_Missense_Mutation_p.A166V|TTC39A_uc010one.1_Missense_Mutation_p.A193V|TTC39A_uc010onf.1_Missense_Mutation_p.A197V|TTC39A_uc001csn.2_Missense_Mutation_p.A228V|TTC39A_uc001cso.1_Missense_Mutation_p.A225V|TTC39A_uc009vyy.1_Missense_Mutation_p.A166V	NM_001080494	NP_001073963	Q5SRH9	TT39A_HUMAN	tetratricopeptide repeat domain 39A isoform 2	229							binding			skin(1)	1						CAGGTTGAAGGCCCCTACACC	0.562													30	66					0	0	0.013726	0	0		A	51771659	A	A	51771659	3	1	134	1	0	0	0	0	1	0	0	0	16733	1203	42	2	1203	2	TTC39A	1	51771659	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1108545	51771659	197478962	54	72712											
OSBPL9	114883	broad.mit.edu	37	chr1	52179678	52179678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatcttttattccagcccGtgatgctgatgagcgagaga	11	12	10	8	2	1	4	0	3	1	1	2	6	2	4	2	0	3	1	2	0	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:52179678G>A	uc001cst.2	+	4	264	c.245G>A	c.(244-246)CGT>CAT	p.R82H	OSBPL9_uc001css.2_Missense_Mutation_p.R100H|OSBPL9_uc001csx.2_RNA|OSBPL9_uc009vza.2_Missense_Mutation_p.R83H|OSBPL9_uc001csu.2_Missense_Mutation_p.R82H|OSBPL9_uc001csv.2_Translation_Start_Site|OSBPL9_uc001csw.2_Missense_Mutation_p.R82H	NM_024586	NP_078862	Q96SU4	OSBL9_HUMAN	oxysterol binding protein-like 9 isoform e	82	PH.				lipid transport		lipid binding			central_nervous_system(1)	1						ATTCCAGCCCGTGATGCTGAT	0.328													30	50					0	0	0.010818	0	0		A	52179678	A	A	52179678	3	1	134	1	0	0	0	0	1	0	0	0	11303	1145	40	1	259	1	OSBPL9	1	52179678	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	408019	52179678	197070943	55	72713											
LRRC42	115353	broad.mit.edu	37	chr1	54433549	54433549	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacagaataactcttcacaAccttcaaagcagaaatatgt	18	9	5	9	0	3	2	2	0	1	2	3	3	3	2	1	0	4	1	1	0	7	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:54433549A>G	uc001cwj.1	+	8	1424	c.1224A>G	c.(1222-1224)CAA>CAG	p.Q408Q	LRRC42_uc001cwl.1_Silent_p.Q408Q|LRRC42_uc001cwk.1_Silent_p.Q408Q|LRRC42_uc009vzm.1_Silent_p.Q404Q	NM_052940	NP_443172	Q9Y546	LRC42_HUMAN	leucine rich repeat containing 42	408											0						ACTCTTCACAACCTTCAAAGC	0.433													39	93					0	0	0.00623	0	0		G	54433549	G	G	54433549	2	3	134	1	0	0	0	0	0	0	0	1	9018	40	2	3		3	LRRC42	1	54433549	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2253871	54433549	194817072	56	72714											
DHCR24	1718	broad.mit.edu	37	chr1	55337114	55337114	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccacgaagtggttctccTgccgctgggactcgtgggtg	4	11	14	12	3	1	0	0	0	1	0	4	2	2	1	3	3	1	2	3	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:55337114T>C	uc001cyc.1	-	5	914	c.785A>G	c.(784-786)CAG>CGG	p.Q262R	DHCR24_uc010ooj.1_Missense_Mutation_p.Q124R|DHCR24_uc010ook.1_Missense_Mutation_p.Q221R	NM_014762	NP_055577	Q15392	DHC24_HUMAN	24-dehydrocholesterol reductase precursor	262					anti-apoptosis|apoptosis|cell cycle arrest|cholesterol biosynthetic process|negative regulation of caspase activity|neuroprotection|response to oxidative stress|skin development	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus	delta24-sterol reductase activity|enzyme binding|flavin adenine dinucleotide binding|peptide antigen binding			pancreas(1)	1						GTGGTTCTCCTGCCGCTGGGA	0.582													4	95					0	0	0.009096	0	0		C	55337114	C	C	55337114	3	2	134	1	0	0	0	0	1	0	0	0	4482	1580	55	3	785	3	DHCR24	1	55337114	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	903565	55337114	193913507	57	72715											
USP24	23358	broad.mit.edu	37	chr1	55624658	55624658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccagatccggttggaagcGcatgcaaagtaacttaacgg	13	7	11	10	3	0	1	0	0	0	1	1	2	1	2	2	3	4	4	2	3	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:55624658G>A	uc001cyg.3	-	9	784	c.784C>T	c.(784-786)CGC>TGC	p.R262C		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	374					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						GGTTGGAAGCGCATGCAAAGT	0.378													12	16					0	0	0.001855	0	0		A	55624658	A	A	55624658	3	1	134	1	0	0	0	0	1	0	0	0	17081	1087	38	1	6978	1	USP24	1	55624658	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	287544	55624658	193625963	58	72716											
MYSM1	114803	broad.mit.edu	37	chr1	59126870	59126870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaagtcaggtcagaatccCggcgaaagattttatccatg	14	9	9	9	2	2	2	2	0	0	2	4	3	4	2	2	2	1	0	2	2	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:59126870C>T	uc009wab.1	-	19	2323	c.2300G>A	c.(2299-2301)CGG>CAG	p.R767Q	uc001cza.2_5'Flank|MYSM1_uc009waa.1_Missense_Mutation_p.R173Q|MYSM1_uc001czc.2_RNA	NM_001085487	NP_001078956	Q5VVJ2	MYSM1_HUMAN	Myb-like, SWIRM and MPN domains 1	767					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin remodeling complex	DNA binding|histone binding|metal ion binding|metallopeptidase activity|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(1)	1	all_cancers(7;9.36e-06)					GTCAGAATCCCGGCGAAAGAT	0.363													34	60					0	0	0.005524	0	0		T	59126870	T	T	59126870	3	4	134	1	0	0	0	0	1	0	0	0	10119	652	23	1	194	1	MYSM1	1	59126870	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3502212	59126870	190123751	59	72717											
MIER1	57708	broad.mit.edu	37	chr1	67436605	67436605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgagaagggtgtagaagCaattcctgaaggatctcaca	14	9	12	6	0	1	4	1	3	1	2	3	6	2	5	1	2	1	2	1	2	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:67436605C>T	uc001dde.2	+	9	1021	c.887C>T	c.(886-888)GCA>GTA	p.A296V	MIER1_uc010opf.1_Missense_Mutation_p.A260V|MIER1_uc009way.2_Missense_Mutation_p.A260V|MIER1_uc001ddc.2_Missense_Mutation_p.A296V|MIER1_uc001ddh.2_Missense_Mutation_p.A180V|MIER1_uc001ddf.2_Missense_Mutation_p.A260V|MIER1_uc001ddg.2_Missense_Mutation_p.A216V|MIER1_uc010opg.1_Missense_Mutation_p.A260V|MIER1_uc001ddj.1_Missense_Mutation_p.A243V|MIER1_uc001ddi.2_Missense_Mutation_p.A243V	NM_001077700	NP_001071168	Q8N108	MIER1_HUMAN	mesoderm induction early response 1 isoform b	267	ELM2.|Interaction with HDAC1.				positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)	1						GGTGTAGAAGCAATTCCTGAA	0.383													37	91					0	0	0.00623	0	0		T	67436605	T	T	67436605	3	4	134	1	0	0	0	0	1	0	0	0	9598	710	25	2	998	2	MIER1	1	67436605	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	8309735	67436605	181814016	60	72718											
PTGER3	5733	broad.mit.edu	37	chr1	71512898	71512898	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccccgacgggtcgatgtgCtcccaacgctgcttggacag	6	7	13	15	5	0	0	0	0	0	0	2	3	1	1	3	2	3	3	3	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:71512898C>T	uc001dfg.1	-	1	594	c.363G>A	c.(361-363)GAG>GAA	p.E121E	PTGER3_uc001dfh.1_RNA|PTGER3_uc001dfi.1_RNA|PTGER3_uc001dfj.1_RNA|PTGER3_uc001dfk.1_Silent_p.E121E|PTGER3_uc001dfl.1_Silent_p.E121E|PTGER3_uc009wbm.1_Silent_p.E121E|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Silent_p.E121E|PTGER3_uc009wbn.1_Silent_p.E121E|PTGER3_uc009wbo.2_Silent_p.E121E|PTGER3_uc001dfo.2_Silent_p.E121E|PTGER3_uc001dfp.1_Silent_p.E121E|PTGER3_uc001dfq.2_Silent_p.E121E|uc001dfr.2_RNA	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	121	Extracellular (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	GGTCGATGTGCTCCCAACGCT	0.642													3	11					0	0	0.000602	0	0		T	71512898	T	T	71512898	2	4	134	1	0	0	0	0	0	0	0	1	12767	796	28	2		2	PTGER3	1	71512898	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4076293	71512898	177737723	61	72719											
SLC44A5	204962	broad.mit.edu	37	chr1	75693519	75693519	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgttcctgaagattggtgtActgctggtaacagtgccata	9	12	12	8	1	0	2	0	1	0	1	1	2	1	2	2	2	4	4	2	2	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:75693519A>G	uc001dgu.2	-	13	1021	c.877T>C	c.(877-879)TAC>CAC	p.Y293H	SLC44A5_uc001dgt.2_Missense_Mutation_p.Y293H|SLC44A5_uc001dgs.2_Missense_Mutation_p.Y251H|SLC44A5_uc001dgr.2_Missense_Mutation_p.Y251H|SLC44A5_uc010oqz.1_Missense_Mutation_p.Y332H|SLC44A5_uc010ora.1_Missense_Mutation_p.Y287H|SLC44A5_uc010orb.1_Missense_Mutation_p.Y163H	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	293	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						AGATTGGTGTACTGCTGGTAA	0.343													3	109					0	0	0.009096	0	0		G	75693519	G	G	75693519	3	3	134	1	0	0	0	0	1	0	0	0	14664	391	14	3	1441	3	SLC44A5	1	75693519	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4180621	75693519	173557102	62	72720											
ELTD1	64123	broad.mit.edu	37	chr1	79383320	79383320	+	Missense_Mutation	SNP	A	G	G																															caattttatatatacatacaAgaatgattaggcatgctggt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:79383320A>G	uc001diq.3	-	12	1904	c.1748T>C	c.(1747-1749)CTT>CCT	p.L583P		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	583	Helical; Name=5; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		TATACATACAAGAATGATTAG	0.274													14	20					0	0	0.003163	0	0		G	79383320	G	G	79383320	3	3	134	1	0	0	0	0	1	0	0	0	5092	86	3	3	340	3	ELTD1	1	79383320	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3689801	79383320	169867301	63	72721	134	2									
ELTD1	64123	broad.mit.edu	37	chr1	79383329	79383329	+	Missense_Mutation	SNP	A	T	T																															atatacatacaagaatgattAggcatgctggtcctataaaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:79383329A>T	uc001diq.3	-	12	1895	c.1739T>A	c.(1738-1740)CTA>CAA	p.L580Q		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	580	Helical; Name=5; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		AAGAATGATTAGGCATGCTGG	0.284													14	24					0	0	0.00245	0	0		T	79383329	T	T	79383329	3	4	134	1	0	0	0	0	1	0	0	0	5092	420	15	5	349	5	ELTD1	1	79383329	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	9	79383329	169867292	64	72722	134	2									
CCBL2	56267	broad.mit.edu	37	chr1	89408688	89408688	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatagagcagggaacttacTttaatgaagcaaaaacgcac	18	7	8	8	1	0	2	0	1	0	1	0	3	0	3	0	1	5	3	0	1	8	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:89408688T>C	uc001dmp.2	-	13	1679	c.1302A>G	c.(1300-1302)AAA>AAG	p.K434K	CCBL2_uc001dmq.2_Silent_p.K400K|CCBL2_uc001dmr.2_Silent_p.K270K	NM_001008661	NP_001008661	Q6YP21	KAT3_HUMAN	kynurenine aminotransferase III isoform 1	434					biosynthetic process|kynurenine metabolic process|tryptophan catabolic process		cysteine-S-conjugate beta-lyase activity|kynurenine-glyoxylate transaminase activity|kynurenine-oxoglutarate transaminase activity|pyridoxal phosphate binding			ovary(1)	1		Lung NSC(277;0.123)		all cancers(265;0.0117)|Epithelial(280;0.0341)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GGGAACTTACTTTAATGAAGC	0.308													119	271					0	0	0.01441	0	0		C	89408688	C	C	89408688	2	2	134	1	0	0	0	0	0	0	0	1	2736	1623	56	3		3	CCBL2	1	89408688	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	10025359	89408688	159841933	65	72723											
LRRC8D	55144	broad.mit.edu	37	chr1	90399962	90399962	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagaagttagtgaaaataaActtagggaaattagtttgaa	18	12	9	2	0	1	3	1	2	0	1	1	4	1	4	0	1	1	2	0	1	10	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:90399962A>G	uc001dnm.2	+	3	1760	c.1335A>G	c.(1333-1335)AAA>AAG	p.K445K	LRRC8D_uc001dnn.2_Silent_p.K445K	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	445						integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		GTGAAAATAAACTTAGGGAAA	0.418													53	106					0	0	0.01441	0	0		G	90399962	G	G	90399962	2	3	134	1	0	0	0	0	0	0	0	1	9042	40	2	3		3	LRRC8D	1	90399962	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	991274	90399962	158850659	66	72724											
MTF2	22823	broad.mit.edu	37	chr1	93602519	93602519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaataccgagttttggcaCgtcgggtgacacttgatgga	12	10	12	7	3	0	2	0	2	0	0	1	4	0	3	1	3	1	2	1	3	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:93602519C>T	uc009wdj.2	+	15	2009	c.1717C>T	c.(1717-1719)CGT>TGT	p.R573C	MTF2_uc010oth.1_Missense_Mutation_p.R471C|MTF2_uc009wdk.2_Missense_Mutation_p.R516C|MTF2_uc001dpi.3_Missense_Mutation_p.R300C|MTF2_uc010oti.1_Missense_Mutation_p.R471C|MTF2_uc001dpj.3_Missense_Mutation_p.R471C|MTF2_uc001dpl.3_Missense_Mutation_p.R471C|MTF2_uc001dpm.3_Missense_Mutation_p.R242C	NM_007358	NP_031384	Q9Y483	MTF2_HUMAN	metal response element binding transcription	573						nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_lung(203;0.00196)|Lung NSC(277;0.00902)|Melanoma(281;0.099)|Ovarian(761;0.109)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00076)|GBM - Glioblastoma multiforme(16;0.00157)|Epithelial(280;0.0886)		AGTTTTGGCACGTCGGGTGAC	0.443													66	98					0	0	0.01441	0	0		T	93602519	T	T	93602519	3	4	134	1	0	0	0	0	1	0	0	0	9941	536	19	1	1775	1	MTF2	1	93602519	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3202557	93602519	155648102	67	72725											
GCLM	2730	broad.mit.edu	37	chr1	94360237	94360237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcagtcaaatctggtggCatcacacagcaggaggcaag	14	6	12	9	0	3	0	2	0	1	0	3	1	3	1	0	4	2	4	0	4	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:94360237C>T	uc001dqg.1	-	6	881	c.588G>A	c.(586-588)ATG>ATA	p.M196I		NM_002061	NP_002052	P48507	GSH0_HUMAN	glutamate-cysteine ligase regulatory protein	196					glutamate metabolic process|glutathione biosynthetic process|regulation of blood vessel size|response to drug|response to oxidative stress|xenobiotic metabolic process	cytosol|soluble fraction	glutamate-cysteine ligase catalytic subunit binding			ovary(1)	1		all_lung(203;0.000815)|Lung NSC(277;0.00363)		all cancers(265;0.00566)|GBM - Glioblastoma multiforme(16;0.0203)|Epithelial(280;0.131)	L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)	AATCTGGTGGCATCACACAGC	0.318													58	137					0	0	0.01441	0	0		T	94360237	T	T	94360237	3	4	134	1	0	0	0	0	1	0	0	0	6311	710	25	2	244	2	GCLM	1	94360237	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	757718	94360237	154890384	68	72726											
PTBP2	58155	broad.mit.edu	37	chr1	97250755	97250755	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttccatctggggatggacaAcctgcattggacccagctat	9	10	10	12	0	1	0	0	0	1	0	2	3	2	3	3	4	3	2	3	4	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:97250755A>G	uc001drq.2	+	8	1095	c.849A>G	c.(847-849)CAA>CAG	p.Q283Q	PTBP2_uc001drn.2_Silent_p.Q283Q|PTBP2_uc001dro.2_Silent_p.Q283Q|PTBP2_uc010otz.1_Silent_p.Q294Q|PTBP2_uc001drp.2_RNA|PTBP2_uc009wdw.2_Silent_p.Q231Q|PTBP2_uc001drr.2_Silent_p.Q283Q|PTBP2_uc010oua.1_Silent_p.Q291Q|PTBP2_uc001dru.2_RNA|PTBP2_uc001drs.1_5'UTR|PTBP2_uc001drt.2_5'UTR	NM_021190	NP_067013	Q9UKA9	PTBP2_HUMAN	polypyrimidine tract binding protein 2	283							nucleotide binding				0		all_epithelial(167;2.95e-05)|all_lung(203;0.000396)|Lung NSC(277;0.00171)		all cancers(265;0.0582)|Epithelial(280;0.0716)|Colorectal(170;0.0879)|KIRC - Kidney renal clear cell carcinoma(1967;0.202)		GGGATGGACAACCTGCATTGG	0.383													3	144					0	0	0.004672	0	0		G	97250755	G	G	97250755	2	3	134	1	0	0	0	0	0	0	0	1	12748	40	2	3		3	PTBP2	1	97250755	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2890518	97250755	151999866	69	72727											
WDR47	22911	broad.mit.edu	37	chr1	109525279	109525279	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtcctctttgacaatcggTtgtataaatgttacaatccc	10	15	6	10	1	1	1	0	1	1	0	4	1	3	1	2	1	1	3	2	1	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:109525279T>C	uc001dwj.2	-	12	2594	c.2218A>G	c.(2218-2220)ACC>GCC	p.T740A	WDR47_uc001dwl.2_Missense_Mutation_p.T748A|WDR47_uc001dwi.2_Missense_Mutation_p.T741A|WDR47_uc010ovf.1_Missense_Mutation_p.T665A	NM_001142551	NP_001136023	O94967	WDR47_HUMAN	WD repeat domain 47 isoform 3	740	WD 3.									ovary(1)	1		all_lung(203;0.00519)|all_epithelial(167;0.00611)|Lung NSC(277;0.00822)		Colorectal(144;0.0165)|Lung(183;0.0484)|COAD - Colon adenocarcinoma(174;0.128)|Epithelial(280;0.168)|all cancers(265;0.201)|LUSC - Lung squamous cell carcinoma(189;0.244)		TGACAATCGGTTGTATAAATG	0.413													10	283					0	0	0.006214	0	0		C	109525279	C	C	109525279	3	2	134	1	0	0	0	0	1	0	0	0	17326	1725	60	3	557	3	WDR47	1	109525279	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	12274524	109525279	139725342	70	72728											
NBPF9	400818	broad.mit.edu	37	chr1	144619403	144619403	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggatgagaaagtgcagAaatcatctgcccccaggtaa	15	6	12	8	0	2	2	1	1	1	2	2	5	2	4	2	3	2	2	2	3	3	1	rs4067646		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:144619403A>G	uc009wig.1	+	7	626	c.550A>G	c.(550-552)AAA>GAA	p.K184E	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Missense_Mutation_p.K184E|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Missense_Mutation_p.K115E|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Missense_Mutation_p.K115E|NBPF9_uc010oyg.1_Missense_Mutation_p.K149E|NBPF9_uc009wii.1_Intron	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	184	NBPF 1.					cytoplasm					0						GAAAGTGCAGAAATCATCTGC	0.413													6	440					0	0	0.001855	0	0		G	144619403	G	G	144619403	3	3	134	1	0	0	0	0	1	0	0	0	10218	247	9	3	562	3	NBPF9	1	144619403	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	35094124	144619403	104631218	71	72729											
LIX1L	128077	broad.mit.edu	37	chr1	145487432	145487432	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttatgtctgctatgtcAccctgcctgggggaagctgc	5	12	11	13	0	2	0	1	0	1	0	3	1	3	1	3	2	4	2	3	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:145487432A>G	uc001enr.2	+	2	495	c.421A>G	c.(421-423)ACC>GCC	p.T141A	NBPF10_uc001emp.3_Intron	NM_153713	NP_714924	Q8IVB5	LIX1L_HUMAN	Lix1 homolog (mouse) like	141										ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CTGCTATGTCACCCTGCCTGG	0.507													5	165					0	0	0.000602	0	0		G	145487432	G	G	145487432	3	3	134	1	0	0	0	0	1	0	0	0	8849	159	6	3	427	3	LIX1L	1	145487432	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	868029	145487432	103763189	72	72730											
POLR3C	10623	broad.mit.edu	37	chr1	145606365	145606365	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctccttttacctttcccTgccaaacaaacaattaaaca	13	12	1	15	0	0	0	0	0	0	0	3	0	3	0	5	0	5	0	5	0	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:145606365T>C	uc001eoh.2	-	5	751	c.590_splice	c.e5-1	p.G197_splice	NBPF10_uc001emp.3_Intron|POLR3C_uc001eog.2_Splice_Site_p.G210_splice|POLR3C_uc001eoi.2_Splice_Site|POLR3C_uc009wix.2_Splice_Site_p.G197_splice	NM_006468	NP_006459	Q9BUI4	RPC3_HUMAN	polymerase (RNA) III (DNA directed) polypeptide						innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|regulation of transcription from RNA polymerase III promoter|response to virus	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)		Epithelial(2;7.55e-13)			TACCTTTCCCTGCCAAACAAA	0.423													66	114					0	0	0.01441	0	0		C	145606365	C	C	145606365	5	2	134	1	0	0	0	0	0	0	1	0	12249	1594	55	3	1060	3	POLR3C	1	145606365	Splice_Site	SNP	T	TCGA-CG-4442-01A-01D-1158-08	118933	145606365	103644256	73	72731											
CTSK	1513	broad.mit.edu	37	chr1	150778663	150778663	+	Frame_Shift_Del	DEL	T	-	-																															ggatggaaatatacttcaggTttttttcccaaattaaacgc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:150778663delT	uc001evp.1	-	3	282	c.158delA	c.(157-159)AACfs	p.N53fs	CTSK_uc001evq.1_5'UTR|CTSK_uc009wma.1_RNA	NM_000396	NP_000387	P43235	CATK_HUMAN	cathepsin K preproprotein	53					proteolysis	lysosome	cysteine-type endopeptidase activity|protein binding			skin(1)	1	all_cancers(9;2.32e-51)|all_epithelial(9;3.89e-42)|all_lung(15;4.59e-35)|Lung NSC(24;1.7e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Colorectal(459;0.171)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0485)|BRCA - Breast invasive adenocarcinoma(12;0.00606)|LUSC - Lung squamous cell carcinoma(543;0.211)			ATACTTCAGGTTTTTTTCCCA	0.393													22	34	---	---	---	---						.	-	150778663	-	-	150778663	7	5	134	1	0	1	0	1	0	0	0	0	4040	1725	60	0	855	0	CTSK	1	150778663	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	5172298	150778663	98471958	74	72732											
SETDB1	9869	broad.mit.edu	37	chr1	150923206	150923206	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagcccggcgtcgagttaAccgcaagatgggctttcatg	9	8	13	11	4	1	1	1	0	0	1	2	3	1	1	2	2	2	3	2	2	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:150923206A>G	uc001evu.2	+	13	2043	c.1853A>G	c.(1852-1854)AAC>AGC	p.N618S	SETDB1_uc009wmf.2_Missense_Mutation_p.N619S|SETDB1_uc001evv.2_Missense_Mutation_p.N618S|SETDB1_uc009wmg.1_Missense_Mutation_p.N618S	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	618	MBD.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			CGTCGAGTTAACCGCAAGATG	0.527													51	98					0	0	0.01441	0	0		G	150923206	G	G	150923206	3	3	134	1	0	0	0	0	1	0	0	0	14163	43	2	3	1899	3	SETDB1	1	150923206	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	144543	150923206	98327415	75	72733											
TCHH	7062	broad.mit.edu	37	chr1	152081227	152081227	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcagctgttgttcctccTccaggaattttctgtcacgc	5	13	10	13	2	2	0	1	0	1	0	5	1	5	1	3	2	1	4	3	2	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:152081227T>C	uc001ezp.2	-	2	4466	c.4466A>G	c.(4465-4467)GAG>GGG	p.E1489G	TCHH_uc009wne.1_Missense_Mutation_p.E1489G	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1489	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTGTTCCTCCTCCAGGAATTT	0.552													82	210					0	0	0.01441	0	0		C	152081227	C	C	152081227	3	2	134	1	0	0	0	0	1	0	0	0	15725	1551	54	3	1369	3	TCHH	1	152081227	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1158021	152081227	97169394	76	72734											
HRNR	388697	broad.mit.edu	37	chr1	152188012	152188012	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacctgagctagctccatgTtggccacagctcgatgactg	8	10	11	12	1	0	3	0	3	0	0	2	4	1	3	3	1	3	4	3	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:152188012T>C	uc001ezt.1	-	3	6169	c.6093A>G	c.(6091-6093)CAA>CAG	p.Q2031Q		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2031	22.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TAGCTCCATGTTGGCCACAGC	0.562													73	681					0	0	0.01441	0	0		C	152188012	C	C	152188012	2	2	134	1	0	0	0	0	0	0	0	1	7375	1722	60	3		3	HRNR	1	152188012	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	106785	152188012	97062609	77	72735											
HRNR	388697	broad.mit.edu	37	chr1	152192230	152192230	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacctgaggtagctccatgTtggccacagctcgatgactg	8	10	12	11	1	0	3	0	3	0	0	2	4	1	3	3	2	2	4	3	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:152192230T>C	uc001ezt.1	-	3	1951	c.1875A>G	c.(1873-1875)CAA>CAG	p.Q625Q		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	625	6.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TAGCTCCATGTTGGCCACAGC	0.562													10	485					0	0	0.010729	0	0		C	152192230	C	C	152192230	2	2	134	1	0	0	0	0	0	0	0	1	7375	1722	60	3		3	HRNR	1	152192230	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4218	152192230	97058391	78	72736											
HRNR	388697	broad.mit.edu	37	chr1	152192934	152192934	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agactgacgtgagctggagcCatgttggccagagcttgatg	9	9	15	8	1	0	5	0	3	0	2	0	6	0	6	2	2	3	3	2	2	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:152192934C>A	uc001ezt.1	-	3	1247	c.1171G>T	c.(1171-1173)GGC>TGC	p.G391C		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	391	4.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GAGCTGGAGCCATGTTGGCCA	0.577													76	107					2.94884e-30	3.4676e-30	0.01441	1	0		A	152192934	A	A	152192934	3	1	134	1	0	0	0	0	1	0	0	0	7375	594	21	5	7385	5	HRNR	1	152192934	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	704	152192934	97057687	79	72737											
FLG2	388698	broad.mit.edu	37	chr1	152326514	152326514	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtccttgaccagactggcTatgtctagtggtatttattg	7	17	10	7	0	1	2	0	1	1	1	2	2	2	2	2	2	0	2	2	2	4	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:152326514T>C	uc001ezw.3	-	3	3821	c.3748A>G	c.(3748-3750)AGC>GGC	p.S1250G	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1250	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCAGACTGGCTATGTCTAGTG	0.473													119	207					0	0	0.01441	0	0		C	152326514	C	C	152326514	3	2	134	1	0	0	0	0	1	0	0	0	5937	1522	53	3	3431	3	FLG2	1	152326514	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	133580	152326514	96924107	80	72738											
LCE5A	254910	broad.mit.edu	37	chr1	152484072	152484072	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatgtacccctaaatgccCtcccaagtgtactcctaagt	12	10	5	14	0	0	0	0	0	0	0	2	0	2	0	5	0	3	2	5	0	7	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:152484072C>A	uc001ezy.2	+	2	238	c.62C>A	c.(61-63)CCT>CAT	p.P21H	CRCT1_uc001ezz.2_5'Flank	NM_178438	NP_848525	Q5TCM9	LCE5A_HUMAN	late cornified envelope 5A	21	Cys-rich.				keratinization					ovary(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTAAATGCcctcccaagtgt	0.428													60	100					8.13277e-46	9.68233e-46	0.01441	1	0		A	152484072	A	A	152484072	3	1	134	1	0	0	0	0	1	0	0	0	8691	681	24	5	64	5	LCE5A	1	152484072	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	157558	152484072	96766549	81	72739											
IVL	3713	broad.mit.edu	37	chr1	152882474	152882474	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaagcacatgactgctgtAaagggactgcctgagcaaga	15	6	12	8	0	0	3	0	2	0	1	0	5	0	4	1	1	4	4	1	1	5	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:152882474A>G	uc001fau.2	+	2	247	c.201A>G	c.(199-201)GTA>GTG	p.V67V		NM_005547	NP_005538	P07476	INVO_HUMAN	involucrin	67					isopeptide cross-linking via N6-(L-isoglutamyl)-L-lysine|keratinization|response to UV-B	cornified envelope|cytoplasm	protein binding, bridging|structural molecule activity			ovary(3)	3	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGACTGCTGTAAAGGGACTGC	0.373													4	72					0	0	0.001168	0	0		G	152882474	G	G	152882474	2	3	134	1	0	0	0	0	0	0	0	1	7945	349	13	3		3	IVL	1	152882474	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	398402	152882474	96368147	82	72740											
NPR1	4881	broad.mit.edu	37	chr1	153657446	153657446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcgtatcccaggaagatGcagctggagaaggaactggc	11	7	13	10	1	0	2	0	0	0	2	2	5	1	4	2	4	3	3	2	4	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:153657446G>A	uc001fcs.3	+	8	1912	c.1491G>A	c.(1489-1491)ATG>ATA	p.M497I	NPR1_uc010pdz.1_Missense_Mutation_p.M243I|NPR1_uc010pea.1_Missense_Mutation_p.M1I	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	497	Cytoplasmic (Potential).				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	CCAGGAAGATGCAGCTGGAGA	0.667													52	88					0	0	0.01441	0	0		A	153657446	A	A	153657446	3	1	134	1	0	0	0	0	1	0	0	0	10613	1319	46	2	1521	2	NPR1	1	153657446	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	774972	153657446	95593175	83	72741											
CREB3L4	148327	broad.mit.edu	37	chr1	153946445	153946445	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccacctggagccaaggaTgcaaatggctcaacaaggac	14	4	12	11	0	1	0	1	0	0	0	1	4	1	3	3	4	4	2	3	4	4	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:153946445T>C	uc001fdn.3	+	10	1358	c.1092T>C	c.(1090-1092)GAT>GAC	p.D364D	CREB3L4_uc010pef.1_Silent_p.D217D|CREB3L4_uc001fdo.3_Silent_p.D344D|CREB3L4_uc001fdm.1_Silent_p.D364D|CREB3L4_uc001fdp.1_Silent_p.D344D|CREB3L4_uc001fdr.2_Silent_p.D364D|CREB3L4_uc001fdq.2_Silent_p.D344D	NM_130898	NP_570968	Q8TEY5	CR3L4_HUMAN	cAMP responsive element binding protein 3-like	364	Lumenal (Potential).				response to unfolded protein	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GAGCCAAGGATGCAAATGGCT	0.542													4	93					0	0	0.001168	0	0		C	153946445	C	C	153946445	2	2	134	1	0	0	0	0	0	0	0	1	3862	1461	51	3		3	CREB3L4	1	153946445	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	288999	153946445	95304176	84	72742											
NUP210L	91181	broad.mit.edu	37	chr1	154112412	154112412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggggagcatattctgcttCggagtatttaagaatcctaa	11	13	11	6	1	1	1	0	0	1	1	3	3	2	3	1	3	2	3	1	3	5	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:154112412C>T	uc001fdw.2	-	5	655	c.583G>A	c.(583-585)GAA>AAA	p.E195K	NUP210L_uc010peh.1_Missense_Mutation_p.E195K	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	195						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TATTCTGCTTCGGAGTATTTA	0.363													172	326					0	0	0.01441	0	0		T	154112412	T	T	154112412	3	4	134	1	0	0	0	0	1	0	0	0	10780	893	31	1	5227	1	NUP210L	1	154112412	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	165967	154112412	95138209	85	72743											
UBAP2L	9898	broad.mit.edu	37	chr1	154239006	154239006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctccagtaacacgggcGtgccagatatctcgggttct	8	10	10	13	3	3	1	1	0	2	1	5	1	4	1	3	2	2	2	3	2	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:154239006G>A	uc001fep.3	+	25	3099	c.2932G>A	c.(2932-2934)GTG>ATG	p.V978M	UBAP2L_uc010pel.1_Missense_Mutation_p.V988M|UBAP2L_uc001feq.2_Missense_Mutation_p.V174M|UBAP2L_uc001fer.2_Missense_Mutation_p.V174M	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	978					binding of sperm to zona pellucida		protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TAACACGGGCGTGCCAGATAT	0.517													294	475					0	0	0.01441	0	0		A	154239006	A	A	154239006	3	1	134	1	0	0	0	0	1	0	0	0	16864	1145	40	1	3080	1	UBAP2L	1	154239006	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	126594	154239006	95011615	86	72744											
DCST1	149095	broad.mit.edu	37	chr1	155020285	155020285	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcctgccccagcctgtgggCctggatgccagggcctactg	4	8	14	15	0	0	0	0	0	0	0	0	1	0	1	7	3	5	0	7	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:155020285C>T	uc001fgn.1	+	15	1731	c.1635C>T	c.(1633-1635)GGC>GGT	p.G545G	DCST1_uc010pes.1_Silent_p.G520G|uc001fgo.2_Intron	NM_152494	NP_689707	Q5T197	DCST1_HUMAN	DC-STAMP domain containing 1 isoform 1	545	Extracellular (Potential).					integral to membrane	zinc ion binding			ovary(1)|skin(1)	2	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			AGCCTGTGGGCCTGGATGCCA	0.647													16	44					0	0	0.008871	0	0		T	155020285	T	T	155020285	2	4	134	1	0	0	0	0	0	0	0	1	4305	726	26	2		2	DCST1	1	155020285	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	781279	155020285	94230336	87	72745											
TRIM46	80128	broad.mit.edu	37	chr1	155154563	155154563	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctacttggtcaaggtgggCgtcgggctggagagcaagct	7	9	16	9	2	1	1	1	0	0	1	3	2	2	1	1	5	3	3	1	5	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:155154563C>T	uc001fhs.1	+	9	1907	c.1824C>T	c.(1822-1824)GGC>GGT	p.G608G	RAG1AP1_uc010pey.1_Intron|TRIM46_uc009wpe.1_RNA|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_Silent_p.G482G|TRIM46_uc001fhu.1_Silent_p.G585G|TRIM46_uc009wpg.1_Silent_p.G595G|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	608	B30.2/SPRY.					intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			TCAAGGTGGGCGTCGGGCTGG	0.642													7	28					0	0	0.004482	0	0		T	155154563	T	T	155154563	2	4	134	1	0	0	0	0	0	0	0	1	16547	755	27	1		1	TRIM46	1	155154563	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	134278	155154563	94096058	88	72746											
HCN3	57657	broad.mit.edu	37	chr1	155252506	155252506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtggtggagctggagccaCggttggacgctgaggtctac	7	9	17	8	2	1	1	0	1	1	0	1	4	1	4	1	6	3	3	1	6	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:155252506C>T	uc001fjz.1	+	2	591	c.583C>T	c.(583-585)CGG>TGG	p.R195W	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_Translation_Start_Site	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	195	Extracellular (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GCTGGAGCCACGGTTGGACGC	0.602													38	59					0	0	0.004878	0	0		T	155252506	T	T	155252506	3	4	134	1	0	0	0	0	1	0	0	0	7014	527	19	1	589	1	HCN3	1	155252506	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	97943	155252506	93998115	89	72747											
FDPS	2224	broad.mit.edu	37	chr1	155282155	155282155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgctgatagtctccagcGggcctggactgtgggctggt	5	10	17	9	1	1	1	0	1	1	0	2	3	1	3	2	5	2	2	2	5	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:155282155G>A	uc001fkc.2	+	4	668	c.449G>A	c.(448-450)CGG>CAG	p.R150Q	RAG1AP1_uc010pey.1_Intron|FDPS_uc001fkd.2_Missense_Mutation_p.R84Q|FDPS_uc001fke.2_Missense_Mutation_p.R150Q|FDPS_uc001fkf.2_Missense_Mutation_p.R84Q	NM_002004	NP_001995	P14324	FPPS_HUMAN	farnesyl diphosphate synthase isoform a	150					cholesterol biosynthetic process|interspecies interaction between organisms|isoprenoid biosynthetic process	cytosol|nucleus	dimethylallyltranstransferase activity|geranyltranstransferase activity|metal ion binding				0	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;2.03e-10)|all cancers(21;5.23e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)		Alendronate(DB00630)|Ibandronate(DB00710)|Pamidronate(DB00282)|Risedronate(DB00884)|Zoledronate(DB00399)	AGTCTCCAGCGGGCCTGGACT	0.567													32	42					0	0	0.010818	0	0		A	155282155	A	A	155282155	3	1	134	1	0	0	0	0	1	0	0	0	5817	1116	39	1	459	1	FDPS	1	155282155	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	29649	155282155	93968466	90	72748											
ASH1L	55870	broad.mit.edu	37	chr1	155448019	155448019	+	Frame_Shift_Del	DEL	T	-	-																															ttcctctctgtttattaagcTttttgaaggagagagatgag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:155448019delT	uc009wqq.2	-	3	5122	c.4642delA	c.(4642-4644)AGCfs	p.S1548fs	ASH1L_uc001fkt.2_Frame_Shift_Del_p.S1548fs|ASH1L_uc009wqr.1_Frame_Shift_Del_p.S1548fs	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1548					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TTTATTAAGCTTTTTGAAGGA	0.458													66	147	---	---	---	---						.	-	155448019	-	-	155448019	7	5	134	1	0	1	0	1	0	0	0	0	1042	1609	56	0	4356	0	ASH1L	1	155448019	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	165864	155448019	93802602	91	72749											
ASH1L	55870	broad.mit.edu	37	chr1	155451338	155451338	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgattattgatgtttgtActacaagaagccttaagcgg	11	14	9	7	1	0	3	0	2	0	1	1	3	1	3	2	1	4	2	2	1	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:155451338A>G	uc009wqq.2	-	3	1803	c.1323T>C	c.(1321-1323)AGT>AGC	p.S441S	ASH1L_uc001fkt.2_Silent_p.S441S|ASH1L_uc009wqr.1_Silent_p.S441S	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	441					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TGATGTTTGTACTACAAGAAG	0.418													24	72					0	0	0.00333	0	0		G	155451338	G	G	155451338	2	3	134	1	0	0	0	0	0	0	0	1	1042	388	14	3		3	ASH1L	1	155451338	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3319	155451338	93799283	92	72750											
LMNA	4000	broad.mit.edu	37	chr1	156105025	156105025	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggaacagcaacctggtgggGgctgcccacgaggagctgca	10	4	16	11	1	0	0	0	0	0	0	0	3	0	2	2	5	6	4	2	5	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:156105025G>A	uc001fni.2	+	5	1107	c.858G>A	c.(856-858)GGG>GGA	p.G286G	LMNA_uc001fnf.1_Silent_p.G286G|LMNA_uc001fng.2_Silent_p.G286G|LMNA_uc001fnh.2_Silent_p.G286G|LMNA_uc009wro.1_Silent_p.G286G|LMNA_uc010pgz.1_Silent_p.G174G|LMNA_uc001fnj.2_Silent_p.G205G|LMNA_uc001fnk.2_Silent_p.G187G|LMNA_uc009wrp.2_Missense_Mutation_p.G14E|LMNA_uc010pha.1_5'Flank	NM_170707	NP_733821	P02545	LMNA_HUMAN	lamin A/C isoform 1 precursor	286	Coil 2.|Rod.				cellular component disassembly involved in apoptosis|cellular response to hypoxia|establishment or maintenance of microtubule cytoskeleton polarity|muscle organ development|positive regulation of cell aging|regulation of apoptosis|regulation of cell migration	cytoplasm|lamin filament|nuclear envelope|nuclear envelope|perinuclear region of cytoplasm	protein binding|structural molecule activity|structural molecule activity			ovary(2)	2	Hepatocellular(266;0.158)					ACCTGGTGGGGGCTGCCCACG	0.637									Werner_syndrome|Hutchinson-Gilford_Progeria_Syndrome				5	53					0	0	0.001168	0	0		A	156105025	A	A	156105025	2	1	134	1	0	0	0	0	0	0	0	1	8865	1219	43	4		4	LMNA	1	156105025	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	653687	156105025	93145596	93	72751											
SMG5	23381	broad.mit.edu	37	chr1	156235734	156235734	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacatggcttgtagattgcTggcaatgctagcctcactgg	8	11	13	9	0	1	1	1	0	0	1	1	2	1	2	1	4	3	5	1	4	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:156235734T>G	uc001foc.3	-	12	1842	c.1693A>C	c.(1693-1695)AGC>CGC	p.S565R	SMG5_uc009wrv.2_Missense_Mutation_p.S50R	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	565					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					TGTAGATTGCTGGCAATGCTA	0.627													36	46					0	0	0.004878	0	0		G	156235734	G	G	156235734	3	3	134	1	0	0	0	0	1	0	0	0	14821	1580	55	5	1401	5	SMG5	1	156235734	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	130709	156235734	93014887	94	72752											
NES	10763	broad.mit.edu	37	chr1	156642747	156642747	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtctggagcagagagagAggagcatcctgggctctgat	9	9	16	7	0	2	3	0	1	2	2	3	7	3	5	1	3	2	3	1	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:156642747A>G	uc001fpq.2	-	4	1366	c.1233T>C	c.(1231-1233)CCT>CCC	p.P411P		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	411	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCAGAGAGAGAGGAGCATCCT	0.652													5	207					0	0	0.001984	0	0		G	156642747	G	G	156642747	2	3	134	1	0	0	0	0	0	0	0	1	10356	291	11	3		3	NES	1	156642747	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	407013	156642747	92607874	95	72753											
SH2D2A	9047	broad.mit.edu	37	chr1	156779193	156779193	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcttggggcgtggggccggGcggtgtcgtggaacagggat	4	7	23	7	4	0	0	0	0	0	0	1	2	0	2	1	9	1	1	1	9	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:156779193G>A	uc001fqd.2	-	7	944	c.804C>T	c.(802-804)CGC>CGT	p.R268R	SH2D2A_uc001fqc.1_Silent_p.R240R|SH2D2A_uc009wsh.2_Silent_p.R278R|SH2D2A_uc001fqe.2_Silent_p.R250R|SH2D2A_uc010phs.1_Silent_p.R268R	NM_003975	NP_003966	Q9NP31	SH22A_HUMAN	SH2 domain protein 2A isoform 2	268	Pro-rich.				angiogenesis|cell differentiation|signal transduction	cytoplasm|soluble fraction	SH3 domain binding|SH3/SH2 adaptor activity				0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GTGGGGCCGGGCGGTGTCGTG	0.632													97	153					0	0	0.01441	0	0		A	156779193	A	A	156779193	2	1	134	1	0	0	0	0	0	0	0	1	14257	1190	42	2		2	SH2D2A	1	156779193	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	136446	156779193	92471428	96	72754											
INSRR	3645	broad.mit.edu	37	chr1	156816356	156816356	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgggactctgggctccttGatgagggctgtcctcctcag	5	11	14	11	0	2	2	1	2	1	0	5	4	5	3	3	3	0	2	3	3	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:156816356G>A	uc010pht.1	-	8	2019	c.1765C>T	c.(1765-1767)CAA>TAA	p.Q589*	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	589	Fibronectin type-III 1.				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TGGGCTCCTTGATGAGGGCTG	0.597													22	30					0	0	0.00278	0	0		A	156816356	A	A	156816356	4	1	134	1	0	0	0	0	0	1	0	0	7790	1299	45	4	2187	4	INSRR	1	156816356	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	37163	156816356	92434265	97	72755											
CD1D	912	broad.mit.edu	37	chr1	158152042	158152042	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggctccttaatggcacCtgcccccaatttgtcagtgg	7	11	10	13	0	1	0	1	0	0	0	2	0	2	0	4	3	1	2	4	3	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:158152042C>T	uc001frr.2	+	4	1048	c.549C>T	c.(547-549)ACC>ACT	p.T183T	CD1D_uc009wsr.1_Silent_p.T183T|CD1D_uc009wss.2_Silent_p.T183T|CD1D_uc009wst.1_Silent_p.T79T	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	183	Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					TTAATGGCACCTGCCCCCAAT	0.547													92	204					0	0	0.01441	0	0		T	158152042	T	T	158152042	2	4	134	1	0	0	0	0	0	0	0	1	2980	668	24	4		4	CD1D	1	158152042	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1335686	158152042	91098579	98	72756											
CD1A	909	broad.mit.edu	37	chr1	158226686	158226686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtgtgggtgatgtggatgCggggtgagcaggagcagcag	7	7	21	6	2	0	2	0	2	0	0	0	4	0	4	1	5	4	3	1	5	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:158226686C>T	uc001frt.2	+	4	1248	c.715C>T	c.(715-717)CGG>TGG	p.R239W		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	239	Extracellular (Potential).|Ig-like.				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	GATGTGGATGCGGGGTGAGCA	0.642													78	110					0	0	0.01441	0	0		T	158226686	T	T	158226686	3	4	134	1	0	0	0	0	1	0	0	0	2977	759	27	1	729	1	CD1A	1	158226686	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	74644	158226686	91023935	99	72757											
CD1B	910	broad.mit.edu	37	chr1	158299763	158299763	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgtatgattagtgcacaGaatttctgtgccctgctgcc	8	15	9	9	0	1	2	0	1	1	1	1	2	1	2	2	0	4	3	2	0	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:158299763G>T	uc001frx.2	-	3	594	c.486C>A	c.(484-486)TTC>TTA	p.F162L	CD1B_uc001frw.2_Missense_Mutation_p.F55L	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	162	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					TTAGTGCACAGAATTTCTGTG	0.478													99	157					4.82855e-46	5.75195e-46	0.01441	1	0		T	158299763	T	T	158299763	3	4	134	1	0	0	0	0	1	0	0	0	2978	933	33	5	531	5	CD1B	1	158299763	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	73077	158299763	90950858	100	72758											
CD1E	913	broad.mit.edu	37	chr1	158325868	158325868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtgaaacacagcagtctaGggggccatgatctaatcatc	12	8	12	9	0	3	2	1	2	2	0	4	2	3	2	1	3	2	1	1	3	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:158325868G>A	uc001fse.2	+	4	1116	c.877G>A	c.(877-879)GGG>AGG	p.G293R	CD1E_uc010pid.1_Missense_Mutation_p.G291R|CD1E_uc010pie.1_Missense_Mutation_p.G194R|CD1E_uc010pif.1_Missense_Mutation_p.G104R|CD1E_uc001fsd.2_Intron|CD1E_uc001fsk.2_Missense_Mutation_p.G203R|CD1E_uc001fsj.2_Intron|CD1E_uc001fsc.2_Missense_Mutation_p.G104R|CD1E_uc010pig.1_Intron|CD1E_uc001fsa.2_Intron|CD1E_uc001fsf.2_Missense_Mutation_p.G293R|CD1E_uc001fry.2_Intron|CD1E_uc001fsg.2_Intron|CD1E_uc001fsh.2_Missense_Mutation_p.G104R|CD1E_uc001fsi.2_Intron|CD1E_uc009wsv.2_Missense_Mutation_p.G194R|CD1E_uc001frz.2_Missense_Mutation_p.G203R|CD1E_uc009wsw.2_Missense_Mutation_p.G51R	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	293	Ig-like.				antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					CAGCAGTCTAGGGGGCCATGA	0.557													7	116					0	0	0.001984	0	0		A	158325868	A	A	158325868	3	1	134	1	0	0	0	0	1	0	0	0	2981	1000	35	4	891	4	CD1E	1	158325868	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	26105	158325868	90924753	101	72759											
SPTA1	6708	broad.mit.edu	37	chr1	158581162	158581162	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtggcacagaatgacacTtgctctggggtaagggcctg	8	10	15	8	0	1	2	0	1	1	1	1	2	1	2	1	4	1	3	1	4	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:158581162T>G	uc001fst.1	-	52	7351	c.7152A>C	c.(7150-7152)CAA>CAC	p.Q2384H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2384	EF-hand 3.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					AGAATGACACTTGCTCTGGGG	0.443													59	107					0	0	0.01441	0	0		G	158581162	G	G	158581162	3	3	134	1	0	0	0	0	1	0	0	0	15141	1606	56	5	111	5	SPTA1	1	158581162	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	255294	158581162	90669459	102	72760											
OR6K3	391114	broad.mit.edu	37	chr1	158687251	158687251	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatatcacagtgacaattcTtacataggacagggcaatga	16	9	8	8	0	2	2	1	2	1	0	2	3	2	3	0	2	1	1	0	2	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:158687251T>C	uc010pip.1	-	1	703	c.703A>G	c.(703-705)AGA>GGA	p.R235G		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					GTGACAATTCTTACATAGGAC	0.458													59	67					0	0	0.01441	0	0		C	158687251	C	C	158687251	3	2	134	1	0	0	0	0	1	0	0	0	11222	1617	56	3	294	3	OR6K3	1	158687251	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	106089	158687251	90563370	103	72761											
IGSF9	57549	broad.mit.edu	37	chr1	159900941	159900941	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcacagtggggtgtaccAgacactgaatctctgcagat	11	9	10	11	0	2	3	1	1	1	2	3	3	2	3	1	2	2	2	1	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:159900941A>G	uc001fur.2	-	13	1822	c.1624T>C	c.(1624-1626)TGG>CGG	p.W542R	IGSF9_uc001fuq.2_Missense_Mutation_p.W526R|IGSF9_uc001fup.2_5'UTR	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	542	Fibronectin type-III 1.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			GGGGTGTACCAGACACTGAAT	0.532													13	21					0	0	0.003163	0	0		G	159900941	G	G	159900941	3	3	134	1	0	0	0	0	1	0	0	0	7621	188	7	3	1951	3	IGSF9	1	159900941	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1213690	159900941	89349680	104	72762											
PIGM	93183	broad.mit.edu	37	chr1	160001186	160001186	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgccccagccccttcagcAgcagcaggcggtataagagg	9	4	14	14	2	1	1	1	0	0	1	1	1	1	1	4	4	4	4	4	4	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:160001186A>G	uc001fuv.1	-	1	598	c.344T>C	c.(343-345)CTG>CCG	p.L115P		NM_145167	NP_660150	Q9H3S5	PIGM_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	115	Cytoplasmic (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CCCCTTCAGCAGCAGCAGGCG	0.572													3	69					0	0	0.009096	0	0		G	160001186	G	G	160001186	3	3	134	1	0	0	0	0	1	0	0	0	11911	188	7	3	931	3	PIGM	1	160001186	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	100245	160001186	89249435	105	72763											
ADAMTS4	9507	broad.mit.edu	37	chr1	161166471	161166471	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cactgggccccacttggggcCcctcctcgcctgaccccagg	4	6	11	20	1	0	1	0	1	0	0	2	1	1	1	8	4	0	0	8	4	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:161166471C>A	uc001fyt.3	-	2	1261	c.833G>T	c.(832-834)GGG>GTG	p.G278V	ADAMTS4_uc001fyu.2_Missense_Mutation_p.G278V|NDUFS2_uc001fyv.2_5'Flank	NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	278	Peptidase M12B.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CACTTGGGGCCCCTCCTCGCC	0.647													68	107					3.57465e-26	4.16939e-26	0.01441	1	0		A	161166471	A	A	161166471	3	1	134	1	0	0	0	0	1	0	0	0	268	623	22	5	1712	5	ADAMTS4	1	161166471	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1165285	161166471	88084150	106	72764											
NOS1AP	9722	broad.mit.edu	37	chr1	162325131	162325131	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaggaaggaggctctcaCacaggctccaaggtaggcaa	13	4	15	9	0	1	0	1	0	1	0	3	3	2	3	1	7	0	4	1	7	5	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:162325131C>T	uc001gbv.2	+	7	1137	c.750C>T	c.(748-750)CAC>CAT	p.H250H	NOS1AP_uc010pkr.1_Silent_p.H245H|NOS1AP_uc010pks.1_RNA|NOS1AP_uc001gbw.2_Silent_p.H245H	NM_014697	NP_055512	O75052	CAPON_HUMAN	nitric oxide synthase 1 (neuronal) adaptor	250					regulation of apoptosis|regulation of nitric oxide biosynthetic process|regulation of nitric-oxide synthase activity		nitric-oxide synthase binding|PDZ domain binding			lung(2)|upper_aerodigestive_tract(1)	3	all_hematologic(112;0.203)		BRCA - Breast invasive adenocarcinoma(70;0.0537)			GAGGCTCTCACACAGGCTCCA	0.562													44	81					0	0	0.01441	0	0		T	162325131	T	T	162325131	2	4	134	1	0	0	0	0	0	0	0	1	10561	477	17	4		4	NOS1AP	1	162325131	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1158660	162325131	86925490	107	72765											
UCK2	7371	broad.mit.edu	37	chr1	165876941	165876941	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccatcaacctcatcgtgCagcacatccaggacatcctg	10	8	8	15	1	2	0	2	0	0	0	5	1	4	1	4	2	3	2	4	2	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:165876941C>T	uc001gdp.2	+	7	848	c.667C>T	c.(667-669)CAG>TAG	p.Q223*	UCK2_uc010plb.1_Nonsense_Mutation_p.Q85*	NM_012474	NP_036606	Q9BZX2	UCK2_HUMAN	uridine-cytidine kinase 2	223					pyrimidine base metabolic process|pyrimidine nucleoside salvage	cytosol	ATP binding|phosphotransferase activity, alcohol group as acceptor|uridine kinase activity			ovary(1)	1	all_hematologic(923;0.048)|Acute lymphoblastic leukemia(8;0.155)					CCTCATCGTGCAGCACATCCA	0.612													31	80					0	0	0.010818	0	0		T	165876941	T	T	165876941	4	4	134	1	0	0	0	0	0	1	0	0	16950	711	25	2	693	2	UCK2	1	165876941	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3551810	165876941	83373680	108	72766											
MAEL	84944	broad.mit.edu	37	chr1	166958612	166958612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgaaccgtaaggccagccGgaatgcttactatttcttcg	9	10	10	12	4	1	0	0	0	1	0	2	2	1	1	4	2	4	2	4	2	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:166958612G>A	uc001gdy.1	+	1	94	c.23G>A	c.(22-24)CGG>CAG	p.R8Q	MAEL_uc001gdz.1_Missense_Mutation_p.R8Q|MAEL_uc009wvf.1_5'Flank	NM_032858	NP_116247	Q96JY0	MAEL_HUMAN	maelstrom homolog	8	HMG box.				cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|multicellular organismal development|piRNA metabolic process|spermatogenesis	piP-body	DNA binding			skin(1)	1						AAGGCCAGCCGGAATGCTTAC	0.607													8	19					0	0	0.00308	0	0		A	166958612	A	A	166958612	3	1	134	1	0	0	0	0	1	0	0	0	9172	1116	39	1	25	1	MAEL	1	166958612	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1081671	166958612	82292009	109	72767											
ADCY10	55811	broad.mit.edu	37	chr1	167865906	167865906	+	Frame_Shift_Del	DEL	G	-	-																															aattcatcaaaattaaaattGgggggtggttttaagaagtt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:167865906delG	uc001ger.2	-	7	964	c.666delC	c.(664-666)CCCfs	p.P222fs	ADCY10_uc009wvk.2_Frame_Shift_Del_p.P130fs|ADCY10_uc010plj.1_Frame_Shift_Del_p.P69fs|ADCY10_uc009wvl.2_Frame_Shift_Del_p.P221fs|ADCY10_uc009wvm.2_RNA	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	222					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						AATTAAAATTGGGGGGTGGTT	0.333													133	279	---	---	---	---						.	-	167865906	-	-	167865906	7	5	134	1	0	1	0	1	0	0	0	0	293	1335	47	0	4274	0	ADCY10	1	167865906	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	907294	167865906	81384715	110	72768											
BLZF1	8548	broad.mit.edu	37	chr1	169351458	169351458	+	Frame_Shift_Del	DEL	A	-	-																															aaatgttggcattaacaatcAaaaaaagattccatcaacag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:169351458delA	uc001gfx.1	+	6	1393	c.956delA	c.(955-957)CAAfs	p.Q319fs	BLZF1_uc001gfy.2_Frame_Shift_Del_p.Q319fs|BLZF1_uc009wvp.1_Intron	NM_003666	NP_003657	Q9H2G9	GO45_HUMAN	basic leucine zipper nuclear factor 1	319					cell proliferation|Golgi organization|Golgi to plasma membrane protein transport|regulation of cell growth|regulation of transcription from RNA polymerase II promoter	Golgi lumen|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|ubiquitin protein ligase binding			skin(1)	1	all_hematologic(923;0.208)					ATTAACAATCAAAAAAAGATT	0.383													53	122	---	---	---	---						.	-	169351458	-	-	169351458	7	5	134	1	0	1	0	1	0	0	0	0	1454	130	5	0	974	0	BLZF1	1	169351458	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	1485552	169351458	79899163	111	72769											
METTL13	51603	broad.mit.edu	37	chr1	171753504	171753504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctggctgtgcagccagctgCgccgcaaggccaggctgggg	5	5	17	14	2	0	0	0	0	0	0	0	0	0	0	4	5	4	5	4	5	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:171753504C>T	uc001ghz.2	+	2	1125	c.778C>T	c.(778-780)CGC>TGC	p.R260C	METTL13_uc001gia.2_Missense_Mutation_p.R174C|METTL13_uc001gib.2_Intron|METTL13_uc010pml.1_Missense_Mutation_p.R259C	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	260							methyltransferase activity|protein binding			kidney(1)	1						CAGCCAGCTGCGCCGCAAGGC	0.677													28	27					0	0	0.00632	0	0		T	171753504	T	T	171753504	3	4	134	1	0	0	0	0	1	0	0	0	9515	768	27	1	784	1	METTL13	1	171753504	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2402046	171753504	77497117	112	72770											
KLHL20	27252	broad.mit.edu	37	chr1	173702865	173702865	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctataggtgtaccaacattCgaccaggagagactggaatg	13	8	11	9	1	0	1	0	0	0	1	1	5	0	3	3	3	2	1	3	3	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:173702865C>T	uc001gjc.2	+	3	216	c.37C>T	c.(37-39)CGA>TGA	p.R13*	KLHL20_uc010pmr.1_Intron|KLHL20_uc009wwf.2_5'UTR|KLHL20_uc001gjd.2_Nonsense_Mutation_p.R13*	NM_014458	NP_055273	Q9Y2M5	KLH20_HUMAN	kelch-like 20	13					cytoskeleton organization|negative regulation of apoptosis|proteasomal ubiquitin-dependent protein catabolic process|response to interferon-alpha	actin cytoskeleton|cell surface|Cul3-RING ubiquitin ligase complex|Golgi apparatus|perinuclear region of cytoplasm|PML body	actin binding|interferon-gamma binding|ubiquitin-protein ligase activity			ovary(1)	1						TACCAACATTCGACCAGGAGA	0.473													29	91					0	0	0.010818	0	0		T	173702865	T	T	173702865	4	4	134	1	0	0	0	0	0	1	0	0	8391	876	31	1	43	1	KLHL20	1	173702865	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1949361	173702865	75547756	113	72771											
KLHL20	27252	broad.mit.edu	37	chr1	173735385	173735385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaggctttctttatgctGtgggtggccaggatggtgtg	4	15	17	5	0	1	0	0	0	1	0	1	2	1	2	1	6	1	2	1	6	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:173735385G>A	uc001gjc.2	+	8	1431	c.1252G>A	c.(1252-1254)GTG>ATG	p.V418M	KLHL20_uc010pmr.1_Missense_Mutation_p.V229M|KLHL20_uc009wwf.2_Missense_Mutation_p.V400M	NM_014458	NP_055273	Q9Y2M5	KLH20_HUMAN	kelch-like 20	418	Kelch 3.				cytoskeleton organization|negative regulation of apoptosis|proteasomal ubiquitin-dependent protein catabolic process|response to interferon-alpha	actin cytoskeleton|cell surface|Cul3-RING ubiquitin ligase complex|Golgi apparatus|perinuclear region of cytoplasm|PML body	actin binding|interferon-gamma binding|ubiquitin-protein ligase activity			ovary(1)	1						TCTTTATGCTGTGGGTGGCCA	0.438													132	196					0	0	0.01441	0	0		A	173735385	A	A	173735385	3	1	134	1	0	0	0	0	1	0	0	0	8391	1377	48	4	1278	4	KLHL20	1	173735385	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	32520	173735385	75515236	114	72772											
GPR52	9293	broad.mit.edu	37	chr1	174417458	174417458	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctttcattgtgctccacTgttacatcattatactacca	9	17	4	11	0	3	0	2	0	1	0	4	0	4	0	2	0	4	2	2	0	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:174417458T>C	uc001gka.1	+	1	247	c.209T>C	c.(208-210)CTG>CCG	p.L70P	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	70	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						TGTGCTCCACTGTTACATCAT	0.418													23	309					0	0	0.014323	0	0		C	174417458	C	C	174417458	3	2	134	1	0	0	0	0	1	0	0	0	6713	1580	55	3	211	3	GPR52	1	174417458	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	682073	174417458	74833163	115	72773											
TNR	7143	broad.mit.edu	37	chr1	175372584	175372584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcatccccgctgtactcgCtgtcacagatgcactggcca	8	9	9	15	2	2	1	2	0	0	1	4	1	3	1	3	1	2	4	3	1	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:175372584C>T	uc001gkp.1	-	2	749	c.668G>A	c.(667-669)AGC>AAC	p.S223N	TNR_uc009wwu.1_Missense_Mutation_p.S223N|TNR_uc010pmz.1_Missense_Mutation_p.S223N	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	223	Cys-rich.|EGF-like 2.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix		p.S223S(1)		pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GCTGTACTCGCTGTCACAGAT	0.627													103	169					0	0	0.01441	0	0		T	175372584	T	T	175372584	3	4	134	1	0	0	0	0	1	0	0	0	16363	797	28	2	3488	2	TNR	1	175372584	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	955126	175372584	73878037	116	72774											
RFWD2	64326	broad.mit.edu	37	chr1	175996767	175996767	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatttaacacagcacacaTtagcctttgcctcaatgctt	12	13	5	11	0	1	1	1	1	0	0	1	1	1	1	2	0	5	2	2	0	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:175996767T>C	uc001gku.1	-	15	1926	c.1670A>G	c.(1669-1671)AAT>AGT	p.N557S	RFWD2_uc001gkv.1_Missense_Mutation_p.N533S|RFWD2_uc001gkw.1_Missense_Mutation_p.N317S|RFWD2_uc009wwv.2_Missense_Mutation_p.N356S|RFWD2_uc001gkt.1_Missense_Mutation_p.N396S	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	557	WD 4.				DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						ACAGCACACATTAGCCTTTGC	0.413													6	113					0	0	0.001168	0	0		C	175996767	C	C	175996767	3	2	134	1	0	0	0	0	1	0	0	0	13285	1493	52	3	549	3	RFWD2	1	175996767	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	624183	175996767	73253854	117	72775											
RFWD2	64326	broad.mit.edu	37	chr1	176012905	176012905	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaataacagtgccttcatAatcactgctagctaacaggt	15	11	6	9	0	2	0	2	0	0	0	2	0	2	0	1	1	5	2	1	1	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:176012905A>G	uc001gku.1	-	13	1727	c.1471T>C	c.(1471-1473)TAT>CAT	p.Y491H	RFWD2_uc001gkv.1_Missense_Mutation_p.Y467H|RFWD2_uc001gkw.1_Missense_Mutation_p.Y251H|RFWD2_uc009wwv.2_Missense_Mutation_p.Y290H|RFWD2_uc001gkt.1_Missense_Mutation_p.Y330H	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	491	WD 2.				DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						GTGCCTTCATAATCACTGCTA	0.333													158	223					0	0	0.01441	0	0		G	176012905	G	G	176012905	3	3	134	1	0	0	0	0	1	0	0	0	13285	362	13	3	756	3	RFWD2	1	176012905	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	16138	176012905	73237716	118	72776											
CACNA1E	777	broad.mit.edu	37	chr1	181686388	181686388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcactcaacactgcctGtgtggccattgtccatcaca	8	11	9	13	0	2	0	2	0	0	0	3	0	3	0	3	2	2	1	3	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:181686388G>A	uc001gow.2	+	11	1640	c.1475G>A	c.(1474-1476)TGT>TAT	p.C492Y	CACNA1E_uc009wxs.2_Missense_Mutation_p.C399Y	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	492	Helical; Name=S1 of repeat II.|II.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						AACACTGCCTGTGTGGCCATT	0.552													48	71					0	0	0.01441	0	0		A	181686388	A	A	181686388	3	1	134	1	0	0	0	0	1	0	0	0	2545	1377	48	4	1517	4	CACNA1E	1	181686388	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5673483	181686388	67564233	119	72777											
HMCN1	83872	broad.mit.edu	37	chr1	186107029	186107029	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggacttgcaataatccaTcagttcagcatggtgggcgg	10	9	12	10	1	2	0	2	0	0	0	3	1	3	1	2	4	2	3	2	4	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:186107029T>A	uc001grq.1	+	89	14078	c.13849T>A	c.(13849-13851)TCA>ACA	p.S4617T	HMCN1_uc001grs.1_Missense_Mutation_p.S186T	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4617	TSP type-1 2.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CAATAATCCATCAGTTCAGCA	0.493													16	189					0	0	0.00499	0	0		A	186107029	A	A	186107029	3	1	134	1	0	0	0	0	1	0	0	0	7236	1435	50	5	14203	5	HMCN1	1	186107029	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4420641	186107029	63143592	120	72778											
TPR	7175	broad.mit.edu	37	chr1	186325579	186325579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgagctgaagctcagtgAttctgtagaaaaagtcggcc	11	11	12	7	1	2	4	1	3	1	1	3	4	2	4	1	1	2	4	1	1	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:186325579A>G	uc001grv.2	-	15	2024	c.1727T>C	c.(1726-1728)ATC>ACC	p.I576T		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	576	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		AAGCTCAGTGATTCTGTAGAA	0.408			T	NTRK1	papillary thyroid								19	29					0	0	0.010504	0	0		G	186325579	G	G	186325579	3	3	134	1	0	0	0	0	1	0	0	0	16442	333	12	3	5512	3	TPR	1	186325579	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	218550	186325579	62925042	121	72779											
PLA2G4A	5321	broad.mit.edu	37	chr1	186901899	186901899	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgcatcgtttcaggtgcCtgtggtagccatattgggtt	5	16	13	7	1	1	0	1	0	0	0	2	0	1	0	2	3	3	5	2	3	2	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:186901899C>A	uc001gsc.2	+	8	768	c.563C>A	c.(562-564)CCT>CAT	p.P188H	PLA2G4A_uc010pos.1_Missense_Mutation_p.P128H	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	188	PLA2c.				phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	TTTCAGGTGCCTGTGGTAGCC	0.408													92	154					1.81764e-44	2.16268e-44	0.01441	1	0		A	186901899	A	A	186901899	3	1	134	1	0	0	0	0	1	0	0	0	12020	681	24	5	589	5	PLA2G4A	1	186901899	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	576320	186901899	62348722	122	72780											
CRB1	23418	broad.mit.edu	37	chr1	197390889	197390889	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtttgtaggctgtctccAagacattaaaattgattgga	11	15	9	6	1	1	2	0	1	1	1	3	3	1	3	1	2	0	3	1	2	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:197390889A>G	uc001gtz.2	+	6	2066	c.1931A>G	c.(1930-1932)CAA>CGA	p.Q644R	CRB1_uc010poz.1_Missense_Mutation_p.Q575R|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.Q532R|CRB1_uc010ppb.1_Missense_Mutation_p.Q644R|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_Missense_Mutation_p.Q125R|CRB1_uc001gub.1_Missense_Mutation_p.Q293R	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	644	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						GGCTGTCTCCAAGACATTAAA	0.433													6	265					0	0	0.001168	0	0		G	197390889	G	G	197390889	3	3	134	1	0	0	0	0	1	0	0	0	3851	130	5	3	1953	3	CRB1	1	197390889	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	10488990	197390889	51859732	123	72781											
KIF21B	23046	broad.mit.edu	37	chr1	200977992	200977992	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgcccccaaagaggtgtgCgatggccctcgggatgatgc	9	7	14	11	2	0	2	0	1	0	1	1	4	0	3	3	3	3	0	3	3	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:200977992C>T	uc001gvs.1	-	3	669	c.352G>A	c.(352-354)GCA>ACA	p.A118T	KIF21B_uc001gvr.1_Missense_Mutation_p.A118T|KIF21B_uc009wzl.1_Missense_Mutation_p.A118T|KIF21B_uc010ppn.1_Missense_Mutation_p.A118T	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	118	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						AAGAGGTGTGCGATGGCCCTC	0.627													76	133					0	0	0.01441	0	0		T	200977992	T	T	200977992	3	4	134	1	0	0	0	0	1	0	0	0	8305	768	27	1	4650	1	KIF21B	1	200977992	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3587103	200977992	48272629	124	72782											
ARL8A	127829	broad.mit.edu	37	chr1	202107101	202107101	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtgtacttacacgatggcGctcactcctcggcagtagcg	7	9	11	14	5	1	0	1	0	0	0	3	1	2	0	2	2	3	4	2	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:202107101G>A	uc001gxk.1	-	3	436	c.270C>T	c.(268-270)AGC>AGT	p.S90S		NM_138795	NP_620150	Q96BM9	ARL8A_HUMAN	ADP-ribosylation factor-like 8A	90					cell division|chromosome segregation|mitosis|small GTPase mediated signal transduction	late endosome membrane|lysosomal membrane|midbody|spindle midzone	alpha-tubulin binding|beta-tubulin binding|GTP binding|GTPase activity			ovary(2)	2						ACACGATGGCGCTCACTCCTC	0.537													18	38					0	0	0.007413	0	0		A	202107101	A	A	202107101	2	1	134	1	0	0	0	0	0	0	0	1	947	1078	38	1		1	ARL8A	1	202107101	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1129109	202107101	47143520	125	72783											
PPFIA4	8497	broad.mit.edu	37	chr1	203015058	203015058	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgaggcaacatccatccaTgacctcaatgacaagctgga	13	7	9	12	1	1	3	1	3	0	0	3	4	3	4	3	2	2	2	3	2	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:203015058T>C	uc009xaj.2	+	12	1389	c.1389T>C	c.(1387-1389)CAT>CAC	p.H463H	PPFIA4_uc010pqf.1_Silent_p.H23H			O75335	LIPA4_HUMAN	SubName: Full=Liprin alpha4;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						CATCCATCCATGACCTCAATG	0.577													123	188					0	0	0.01441	0	0		C	203015058	C	C	203015058	2	2	134	1	0	0	0	0	0	0	0	1	12331	1479	51	3		3	PPFIA4	1	203015058	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	907957	203015058	46235563	126	72784											
CHI3L1	1116	broad.mit.edu	37	chr1	203152803	203152803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaatgctgtttgtctctcCgtccagggtagagccaggca	9	11	11	10	1	1	1	0	0	1	1	4	1	3	1	3	2	2	4	3	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:203152803C>T	uc001gzi.2	-	5	602	c.431G>A	c.(430-432)CGG>CAG	p.R144Q	FMOD_uc010pqi.1_Intron|CHI3L1_uc001gzk.1_5'Flank|CHI3L1_uc001gzj.2_Missense_Mutation_p.R144Q	NM_001276	NP_001267	P36222	CH3L1_HUMAN	chitinase 3-like 1 precursor	144					chitin catabolic process	extracellular space|proteinaceous extracellular matrix	cation binding|chitinase activity|extracellular matrix structural constituent|sugar binding			pancreas(1)	1						TTTGTCTCTCCGTCCAGGGTA	0.577													40	52					0	0	0.00874	0	0		T	203152803	T	T	203152803	3	4	134	1	0	0	0	0	1	0	0	0	3343	652	23	1	744	1	CHI3L1	1	203152803	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	137745	203152803	46097818	127	72785											
ZC3H11A	9877	broad.mit.edu	37	chr1	203819736	203819736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagtggagatgcacgctgCtgtcattgccgctgtgaagc	7	9	15	10	2	1	2	1	1	0	1	1	3	1	2	1	2	4	5	1	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:203819736C>T	uc001hac.2	+	18	2649	c.2033C>T	c.(2032-2034)GCT>GTT	p.A678V	ZC3H11A_uc001had.2_Missense_Mutation_p.A678V|ZC3H11A_uc001hae.2_Missense_Mutation_p.A678V|ZC3H11A_uc001haf.2_Missense_Mutation_p.A678V|ZC3H11A_uc010pqm.1_Missense_Mutation_p.A624V	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	678							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			ATGCACGCTGCTGTCATTGCC	0.502													26	73					0	0	0.005443	0	0		T	203819736	T	T	203819736	3	4	134	1	0	0	0	0	1	0	0	0	17585	797	28	2	2087	2	ZC3H11A	1	203819736	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	666933	203819736	45430885	128	72786											
TMCC2	9911	broad.mit.edu	37	chr1	205238532	205238532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catcagcggctttgggggcgGcgtggtggagggcgtcaagg	5	7	21	8	4	2	0	2	0	0	0	2	1	2	1	0	8	1	1	0	8	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:205238532G>A	uc001hbz.1	+	4	1646	c.1202G>A	c.(1201-1203)GGC>GAC	p.G401D	TMCC2_uc010prf.1_Missense_Mutation_p.G323D|TMCC2_uc001hca.2_Missense_Mutation_p.G176D|TMCC2_uc001hcb.1_Missense_Mutation_p.G161D|TMCC2_uc001hcc.1_Missense_Mutation_p.G22D|TMCC2_uc001hcd.2_Missense_Mutation_p.G168D	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	401						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			TTTGGGGGCGGCGTGGTGGAG	0.706													34	47					0	0	0.004289	0	0		A	205238532	A	A	205238532	3	1	134	1	0	0	0	0	1	0	0	0	16018	1203	42	2	1212	2	TMCC2	1	205238532	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1418796	205238532	44012089	129	72787											
CD55	1604	broad.mit.edu	37	chr1	207495788	207495788	+	Frame_Shift_Del	DEL	T	-	-																															gctttggaaggccgtacaagTtttcccgaggatactgtaat																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:207495788delT	uc001hfq.3	+	2	456	c.162delT	c.(160-162)AGTfs	p.S54fs	CD55_uc001hfp.3_Frame_Shift_Del_p.S54fs|CD55_uc001hfr.3_Frame_Shift_Del_p.S54fs|CD55_uc010psf.1_RNA|CD55_uc009xcf.2_Frame_Shift_Del_p.S54fs|CD55_uc009xce.2_Frame_Shift_Del_p.S54fs	NM_000574	NP_000565	P08174	DAF_HUMAN	decay accelerating factor for complement isoform	54	Sushi 1.				complement activation, classical pathway|elevation of cytosolic calcium ion concentration|innate immune response|respiratory burst	anchored to membrane|extracellular region|integral to plasma membrane|membrane raft|soluble fraction	receptor activity			ovary(1)	1					Chloramphenicol(DB00446)	GCCGTACAAGTTTTCCCGAGG	0.468													63	130	---	---	---	---						.	-	207495788	-	-	207495788	7	5	134	1	0	1	0	1	0	0	0	0	3027	1722	60	0	168	0	CD55	1	207495788	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	2257256	207495788	41754833	130	72788											
CR1	1378	broad.mit.edu	37	chr1	207739212	207739212	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaggcagctctgctagttAttgtgtcttggctggaatgg	9	13	13	6	0	2	0	0	0	2	0	2	1	2	1	0	4	2	5	0	4	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:207739212A>G	uc001hfy.2	+	16	2686	c.2546A>G	c.(2545-2547)TAT>TGT	p.Y849C	CR1_uc009xcl.1_Intron|CR1_uc001hfx.2_Missense_Mutation_p.Y1299C|CR1_uc009xck.1_Intron	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	849	Extracellular (Potential).|Sushi 13.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TCTGCTAGTTATTGTGTCTTG	0.423													42	119					0	0	0.01441	0	0		G	207739212	G	G	207739212	3	3	134	1	0	0	0	0	1	0	0	0	3843	449	16	3	3990	3	CR1	1	207739212	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	243424	207739212	41511409	131	72789											
CR1	1378	broad.mit.edu	37	chr1	207782932	207782932	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaccctcactgagatcaTcagatttagatgtcagcccg	10	12	7	12	1	4	3	4	1	0	3	4	4	4	3	2	0	2	0	2	0	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:207782932T>C	uc001hfy.2	+	29	4984	c.4844T>C	c.(4843-4845)ATC>ACC	p.I1615T	CR1_uc009xcl.1_Missense_Mutation_p.I1165T|CR1_uc001hfx.2_Missense_Mutation_p.I2065T	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1615	Extracellular (Potential).|Sushi 25.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						ACTGAGATCATCAGATTTAGA	0.502													3	45					0	0	0.009096	0	0		C	207782932	C	C	207782932	3	2	134	1	0	0	0	0	1	0	0	0	3843	1435	50	3	6340	3	CR1	1	207782932	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	43720	207782932	41467689	132	72790											
PLXNA2	5362	broad.mit.edu	37	chr1	208391087	208391087	+	Frame_Shift_Del	DEL	C	-	-																															gatggcccccacatagacggCccccgtcccttggtggacgg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:208391087delC	uc001hgz.2	-	2	939	c.181delG	c.(181-183)GCCfs	p.A61fs	PLXNA2_uc001hha.3_Frame_Shift_Del_p.A115fs	NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	61	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		ACATAGACGGCCCCCGTCCCT	0.592													64	140	---	---	---	---						.	-	208391087	-	-	208391087	7	5	134	1	0	1	0	1	0	0	0	0	12139	739	26	0	5627	0	PLXNA2	1	208391087	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	608155	208391087	40859534	133	72791											
LAMB3	3914	broad.mit.edu	37	chr1	209788709	209788709	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcaggtccgctgagcgCagcatgatggcctggctgcc	5	8	14	14	2	1	2	1	2	0	0	2	2	2	2	4	3	3	4	4	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:209788709C>T	uc001hhg.2	-	22	3816	c.3426G>A	c.(3424-3426)CTG>CTA	p.L1142L	LAMB3_uc009xco.2_Silent_p.L1142L|LAMB3_uc001hhh.2_Silent_p.L1142L	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	1142	Domain I.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		CCGCTGAGCGCAGCATGATGG	0.582													38	85					0	0	0.00874	0	0		T	209788709	T	T	209788709	2	4	134	1	0	0	0	0	0	0	0	1	8628	697	25	2		2	LAMB3	1	209788709	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1397622	209788709	39461912	134	72792											
LAMB3	3914	broad.mit.edu	37	chr1	209789929	209789929	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaactctgacccaaccggTccttcaactcagcatacttt	10	11	6	14	1	3	1	2	1	1	0	4	2	4	2	3	2	5	1	3	2	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:209789929T>C	uc001hhg.2	-	21	3659	c.3269A>G	c.(3268-3270)GAC>GGC	p.D1090G	LAMB3_uc009xco.2_Missense_Mutation_p.D1090G|LAMB3_uc001hhh.2_Missense_Mutation_p.D1090G	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	1090	Domain I.|Potential.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		ACCCAACCGGTCCTTCAACTC	0.488													7	183					0	0	0.001984	0	0		C	209789929	C	C	209789929	3	2	134	1	0	0	0	0	1	0	0	0	8628	1667	58	3	257	3	LAMB3	1	209789929	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1220	209789929	39460692	135	72793											
LAMB3	3914	broad.mit.edu	37	chr1	209803202	209803202	+	Frame_Shift_Del	DEL	C	-	-																															gtcacacacacctccatatgCcccctggctggcggcaaaca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:209803202delC	uc001hhg.2	-	9	1402	c.1012delG	c.(1012-1014)GCAfs	p.A338fs	LAMB3_uc009xco.2_Frame_Shift_Del_p.A338fs|LAMB3_uc001hhh.2_Frame_Shift_Del_p.A338fs|LAMB3_uc010psl.1_RNA	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	338	Laminin EGF-like 2.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		CCTCCATATGCCCCCTGGCTG	0.567													84	140	---	---	---	---						.	-	209803202	-	-	209803202	7	5	134	1	0	1	0	1	0	0	0	0	8628	739	26	0	2562	0	LAMB3	1	209803202	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	13273	209803202	39447419	136	72794											
SERTAD4	56256	broad.mit.edu	37	chr1	210415037	210415037	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaaaaggatccatggagaAattatcatgcagaataactg	18	9	9	5	0	1	3	1	1	0	2	2	5	2	4	1	2	2	1	1	2	6	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:210415037A>G	uc001hhy.2	+	4	605	c.426A>G	c.(424-426)GAA>GAG	p.E142E	SERTAD4_uc009xcw.2_Silent_p.E142E	NM_019605	NP_062551	Q9NUC0	SRTD4_HUMAN	SERTA domain containing 4	142	SERTA.						protein binding			ovary(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0237)|all cancers(67;0.127)		TCCATGGAGAAATTATCATGC	0.418													6	253					0	0	0.001984	0	0		G	210415037	G	G	210415037	2	3	134	1	0	0	0	0	0	0	0	1	14148	11	1	3		3	SERTAD4	1	210415037	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	611835	210415037	38835584	137	72795											
KCNH1	3756	broad.mit.edu	37	chr1	210857460	210857460	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcttcacgtttcacatcGctgatcttccggaacacaat	9	13	5	14	3	4	1	2	1	2	0	7	2	6	2	2	1	1	2	2	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:210857460G>A	uc001hib.2	-	11	2303	c.2133C>T	c.(2131-2133)AGC>AGT	p.S711S	KCNH1_uc001hic.2_Silent_p.S684S	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	711	Cytoplasmic (Potential).|Calmodulin-binding.				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		GTTTCACATCGCTGATCTTCC	0.562													23	45					0	0	0.00278	0	0		A	210857460	A	A	210857460	2	1	134	1	0	0	0	0	0	0	0	1	8047	1078	38	1		1	KCNH1	1	210857460	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	442423	210857460	38393161	138	72796											
PPP2R5A	5525	broad.mit.edu	37	chr1	212519208	212519208	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgaagactgttctgcacCgaatttatgggaaatttctt	10	15	8	8	1	2	2	0	1	2	1	3	4	3	3	2	1	1	2	2	1	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:212519208C>T	uc001hjb.2	+	5	1211	c.637C>T	c.(637-639)CGA>TGA	p.R213*	PPP2R5A_uc010ptd.1_Nonsense_Mutation_p.R154*	NM_006243	NP_006234	Q15172	2A5A_HUMAN	protein phosphatase 2, regulatory subunit B	213					negative regulation of establishment of protein localization in plasma membrane|negative regulation of lipid kinase activity|positive regulation of protein dephosphorylation|signal transduction	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex	kinase binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0125)|all cancers(67;0.029)|Epithelial(68;0.154)|GBM - Glioblastoma multiforme(131;0.155)		TGTTCTGCACCGAATTTATGG	0.323													38	107					0	0	0.005524	0	0		T	212519208	T	T	212519208	4	4	134	1	0	0	0	0	0	1	0	0	12414	644	23	1	655	1	PPP2R5A	1	212519208	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1661748	212519208	36731413	139	72797											
TATDN3	128387	broad.mit.edu	37	chr1	212981104	212981104	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggtactgctgcatgcaTttgatggtcggccatctgta	9	12	12	8	1	1	2	0	1	1	1	2	2	1	2	1	3	4	5	1	3	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:212981104T>C	uc001hjo.2	+	8	608	c.514T>C	c.(514-516)TTT>CTT	p.F172L	TATDN3_uc010ptj.1_Missense_Mutation_p.F172L|TATDN3_uc010ptk.1_Missense_Mutation_p.F172L|TATDN3_uc001hjp.2_Missense_Mutation_p.F172L|TATDN3_uc010ptl.1_Missense_Mutation_p.F151L|TATDN3_uc010ptm.1_Missense_Mutation_p.F120L	NM_001042552	NP_001036017	Q17R31	TATD3_HUMAN	TatD DNase domain containing 3 isoform 1	172						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00699)|all cancers(67;0.0118)|GBM - Glioblastoma multiforme(131;0.0801)|Epithelial(68;0.104)		GCTGCATGCATTTGATGGTCG	0.388													9	137					0	0	0.008291	0	0		C	212981104	C	C	212981104	3	2	134	1	0	0	0	0	1	0	0	0	15618	1493	52	3	544	3	TATDN3	1	212981104	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	461896	212981104	36269517	140	72798											
PROX1	5629	broad.mit.edu	37	chr1	214169903	214169903	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccatgacagcacagccCtcttaagccggcaaaccaag	13	5	8	15	1	1	2	0	2	1	0	1	2	1	2	4	1	4	2	4	1	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:214169903C>A	uc001hkh.2	+	2	297	c.25C>A	c.(25-27)CTC>ATC	p.L9I	PROX1_uc001hkg.1_Missense_Mutation_p.L9I	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	9					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		CAGCACAGCCCTCTTAAGCCG	0.512													38	79					2.26627e-22	2.61453e-22	0.007835	1	0		A	214169903	A	A	214169903	3	1	134	1	0	0	0	0	1	0	0	0	12582	681	24	5	27	5	PROX1	1	214169903	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1188799	214169903	35080718	141	72799											
KCNK2	3776	broad.mit.edu	37	chr1	215179291	215179291	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacccacgagcaaaaagggaTttctactgtgagtatctttg	13	11	9	8	1	2	1	0	1	2	0	2	3	2	2	1	1	3	2	1	1	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:215179291T>C	uc001hko.2	+	1	407	c.27T>C	c.(25-27)GAT>GAC	p.D9D	KCNK2_uc009xdm.2_RNA|KCNK2_uc001hkp.2_RNA	NM_001017424	NP_001017424	O95069	KCNK2_HUMAN	potassium channel, subfamily K, member 2 isoform	Error:Variant_position_missing_in_O95069_after_alignment							outward rectifier potassium channel activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.0399)|all cancers(67;0.0556)|GBM - Glioblastoma multiforme(131;0.068)	Dofetilide(DB00204)	CAAAAAGGGATTTCTACTGTG	0.373													30	61					0	0	0.008361	0	0		C	215179291	C	C	215179291	2	2	134	1	0	0	0	0	0	0	0	1	8082	1490	52	3		3	KCNK2	1	215179291	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1009388	215179291	34071330	142	72800											
KCTD3	51133	broad.mit.edu	37	chr1	215777493	215777493	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgtcagtggtaactggatCgagatcgcctatggtacgag	9	10	15	7	3	1	1	1	0	0	1	3	4	1	2	1	4	2	2	1	4	3	3	rs138597417	by1000genomes	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:215777493C>T	uc001hks.2	+	13	1452	c.1158C>T	c.(1156-1158)ATC>ATT	p.I386I	KCTD3_uc001hkt.2_Silent_p.I386I|KCTD3_uc010pub.1_Silent_p.I284I|KCTD3_uc009xdn.2_Silent_p.I138I	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	386						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		GTAACTGGATCGAGATCGCCT	0.443													47	108					0	0	0.01441	0	0		T	215777493	T	T	215777493	2	4	134	1	0	0	0	0	0	0	0	1	8126	874	31	1		1	KCTD3	1	215777493	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	598202	215777493	33473128	143	72801											
USH2A	7399	broad.mit.edu	37	chr1	216496967	216496967	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtattatagaagttattgtAtccaggacgataatttggtc	12	15	10	4	1	0	1	0	0	0	1	2	3	1	2	1	3	0	3	1	3	7	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:216496967A>G	uc001hku.1	-	8	1786	c.1399T>C	c.(1399-1401)TAC>CAC	p.Y467H	USH2A_uc001hkv.2_Missense_Mutation_p.Y467H	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	467	Laminin N-terminal.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AAGTTATTGTATCCAGGACGA	0.388										HNSCC(13;0.011)			5	265					0	0	0.000602	0	0		G	216496967	G	G	216496967	3	3	134	1	0	0	0	0	1	0	0	0	17062	449	16	3	14483	3	USH2A	1	216496967	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	719474	216496967	32753654	144	72802											
GPATCH2	55105	broad.mit.edu	37	chr1	217793264	217793264	+	Frame_Shift_Del	DEL	T	-	-																															tctgattattttcaactttcTttttttgactttgttcttgg																								rs71763020		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:217793264delT	uc001hlf.1	-	2	730	c.634delA	c.(634-636)AGAfs	p.R212fs	GPATCH2_uc001hlg.3_Frame_Shift_Del_p.R212fs	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	212						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		TTCAACTTTCTTTTTTTGACT	0.398													78	127	---	---	---	---						.	-	217793264	-	-	217793264	7	5	134	1	0	1	0	1	0	0	0	0	6606	1617	56	0	988	0	GPATCH2	1	217793264	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	1296297	217793264	31457357	145	72803											
TGFB2	7042	broad.mit.edu	37	chr1	218607454	218607454	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaagatttaacatctccaAcccagcgctacatcgacagc	14	7	5	15	2	1	1	0	0	1	1	3	2	1	1	3	0	5	1	3	0	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:218607454A>G	uc001hlm.2	+	3	1194	c.541A>G	c.(541-543)ACC>GCC	p.T181A	TGFB2_uc001hln.2_Missense_Mutation_p.T209A|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	181					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		AACATCTCCAACCCAGCGCTA	0.433													176	369					0	0	0.01441	0	0		G	218607454	G	G	218607454	3	3	134	1	0	0	0	0	1	0	0	0	15843	43	2	3	639	3	TGFB2	1	218607454	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	814190	218607454	30643167	146	72804											
LBR	3930	broad.mit.edu	37	chr1	225598068	225598068	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggccaaggatggaacagcGcggtcctgtattttcatttc	9	12	11	9	2	1	0	1	0	0	0	3	2	2	2	2	4	2	1	2	4	3	4	rs149483088		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:225598068G>A	uc001hoy.2	-	10	1382	c.1239C>T	c.(1237-1239)CGC>CGT	p.R413R	LBR_uc001hoz.2_Silent_p.R413R|LBR_uc001hpa.1_Silent_p.R413R	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	413					cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		ATGGAACAGCGCGGTCCTGTA	0.358													90	153					0	0	0.01441	0	0		A	225598068	A	A	225598068	2	1	134	1	0	0	0	0	0	0	0	1	8668	1074	38	1		1	LBR	1	225598068	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6990614	225598068	23652553	147	72805											
PARP1	142	broad.mit.edu	37	chr1	226562030	226562030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggtgccaggatttactGtcagcttcttcactgcctct	6	15	8	12	0	4	0	2	0	2	0	4	1	4	1	2	2	4	1	2	2	1	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:226562030G>A	uc001hqd.3	-	14	2138	c.1967C>T	c.(1966-1968)ACA>ATA	p.T656I		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	656					cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		AGGATTTACTGTCAGCTTCTT	0.468								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					23	46					0	0	0.003954	0	0		A	226562030	A	A	226562030	3	1	134	1	0	0	0	0	1	0	0	0	11473	1377	48	4	1117	4	PARP1	1	226562030	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	963962	226562030	22688591	148	72806											
OBSCN	84033	broad.mit.edu	37	chr1	228434434	228434434	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggtggtgcagcaggcaggCcaggcagatgctggggagta	8	6	19	8	0	0	1	0	0	0	1	0	2	0	2	1	7	3	6	1	7	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:228434434C>T	uc009xez.1	+	13	4007	c.3963C>T	c.(3961-3963)GGC>GGT	p.G1321G	OBSCN_uc001hsn.2_Silent_p.G1321G	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1321	Ig-like 13.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGCAGGCAGGCCAGGCAGATG	0.597													56	74					0	0	0.01441	0	0		T	228434434	T	T	228434434	2	4	134	1	0	0	0	0	0	0	0	1	10831	726	26	2		2	OBSCN	1	228434434	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1872404	228434434	20816187	149	72807											
OBSCN	84033	broad.mit.edu	37	chr1	228468282	228468282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacctgtccgcagaggagcGcggcaccctggccctgcagt	6	6	14	15	3	0	2	0	1	0	1	1	3	1	3	4	3	2	3	4	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:228468282G>A	uc009xez.1	+	30	8026	c.7982G>A	c.(7981-7983)CGC>CAC	p.R2661H	OBSCN_uc001hsn.2_Missense_Mutation_p.R2661H|OBSCN_uc001hsp.1_Missense_Mutation_p.R360H|OBSCN_uc001hsq.1_5'UTR	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2661	Ig-like 26.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCAGAGGAGCGCGGCACCCTG	0.637													33	38					0	0	0.010818	0	0		A	228468282	A	A	228468282	3	1	134	1	0	0	0	0	1	0	0	0	10831	1087	38	1	8096	1	OBSCN	1	228468282	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	33848	228468282	20782339	150	72808											
URB2	9816	broad.mit.edu	37	chr1	229770731	229770731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacatctgtgctgtccttcGatgttgccagggcatcctgt	7	13	10	11	1	1	0	0	0	1	0	4	1	3	0	3	1	3	3	3	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:229770731G>A	uc001hts.1	+	4	507	c.371G>A	c.(370-372)CGA>CAA	p.R124Q	URB2_uc009xfd.1_Missense_Mutation_p.R124Q	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	124						nucleolus				central_nervous_system(2)|ovary(1)	3						GCTGTCCTTCGATGTTGCCAG	0.498													5	89					0	0	0.000602	0	0		A	229770731	A	A	229770731	3	1	134	1	0	0	0	0	1	0	0	0	17051	1058	37	1	381	1	URB2	1	229770731	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1302449	229770731	19479890	151	72809											
C1orf198	84886	broad.mit.edu	37	chr1	230979463	230979463	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattgatcttccagaatgaCgcttcctcctccttcctggt	6	14	7	14	1	1	3	0	2	1	1	6	3	6	3	5	1	0	2	5	1	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:230979463C>T	uc001hub.2	-	3	608	c.564G>A	c.(562-564)GCG>GCA	p.A188A	C1orf198_uc009xfh.1_Silent_p.A58A|C1orf198_uc001huc.1_5'UTR|C1orf198_uc001hud.1_Silent_p.A150A	NM_032800	NP_116189	Q9H425	CA198_HUMAN	hypothetical protein LOC84886 isoform 1	188											0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				TCCAGAATGACGCTTCCTCCT	0.642													77	167					0	0	0.01441	0	0		T	230979463	T	T	230979463	2	4	134	1	0	0	0	0	0	0	0	1	2029	523	19	1		1	C1orf198	1	230979463	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1208732	230979463	18271158	152	72810											
SIPA1L2	57568	broad.mit.edu	37	chr1	232581327	232581327	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtgcttcgaggaatggcagCctgggcctgctggagcagct	6	8	17	10	1	0	0	0	0	0	0	1	3	0	2	2	5	5	5	2	5	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:232581327C>T	uc001hvg.2	-	9	3459	c.3301G>A	c.(3301-3303)GCT>ACT	p.A1101T	SIPA1L2_uc001hvf.2_Missense_Mutation_p.A175T	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1101					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GGAATGGCAGCCTGGGCCTGC	0.662													20	19					0	0	0.012319	0	0		T	232581327	T	T	232581327	3	4	134	1	0	0	0	0	1	0	0	0	14355	739	26	2	1919	2	SIPA1L2	1	232581327	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1601864	232581327	16669294	153	72811											
KIAA1804	84451	broad.mit.edu	37	chr1	233507898	233507898	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatgatgccccgactccgagCcatacagtgtgagctttctg	9	10	10	12	2	1	2	0	2	1	0	2	4	2	2	4	0	4	1	4	0	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:233507898C>T	uc001hvt.3	+	6	1928	c.1667C>T	c.(1666-1668)GCC>GTC	p.A556V	KIAA1804_uc001hvs.1_Missense_Mutation_p.A556V	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	556					activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				CGACTCCGAGCCATACAGTGT	0.547													37	63					0	0	0.007835	0	0		T	233507898	T	T	233507898	3	4	134	1	0	0	0	0	1	0	0	0	8275	739	26	2	1689	2	KIAA1804	1	233507898	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	926571	233507898	15742723	154	72812											
ARID4B	51742	broad.mit.edu	37	chr1	235345722	235345722	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcctttttgccaggtgAtccagtttttagacactctt	6	18	6	11	0	2	2	0	1	2	1	4	2	4	2	3	1	1	1	3	1	1	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:235345722A>C	uc001hwq.2	-	20	3010	c.2512T>G	c.(2512-2514)TCA>GCA	p.S838A	ARID4B_uc001hwr.2_Missense_Mutation_p.S752A|ARID4B_uc001hws.3_Missense_Mutation_p.S752A|ARID4B_uc001hwp.2_RNA|ARID4B_uc001hwt.3_Missense_Mutation_p.S519A	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	838					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			TTGCCAGGTGATCCAGTTTTT	0.373													6	300					0	0	0.001168	0	0		C	235345722	C	C	235345722	3	2	134	1	0	0	0	0	1	0	0	0	920	333	12	5	1446	5	ARID4B	1	235345722	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1837824	235345722	13904899	155	72813											
LYST	1130	broad.mit.edu	37	chr1	235840481	235840481	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccgccagactttgtacatAgcataacctgaaagaaaaaa	17	8	6	10	1	0	3	0	1	0	2	1	3	1	3	3	0	3	2	3	0	7	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:235840481A>C	uc001hxj.2	-	50	11123	c.10948T>G	c.(10948-10950)TAT>GAT	p.Y3650D	LYST_uc001hxi.2_Missense_Mutation_p.Y874D	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3650	WD 4.				defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			CTTTGTACATAGCATAACCTG	0.373									Chediak-Higashi_syndrome				4	95					0	0	0.009096	0	0		C	235840481	C	C	235840481	3	2	134	1	0	0	0	0	1	0	0	0	9146	420	15	5	473	5	LYST	1	235840481	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	494759	235840481	13410140	156	72814											
NID1	4811	broad.mit.edu	37	chr1	236208817	236208817	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttataagctccgttgctcTtccataagaatcccactgaa	11	13	6	11	1	1	2	0	1	1	1	4	2	4	2	3	0	2	4	3	0	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:236208817T>C	uc001hxo.2	-	3	794	c.692A>G	c.(691-693)AAG>AGG	p.K231R	NID1_uc009xgd.2_Missense_Mutation_p.K231R	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	231	NIDO.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	TCCGTTGCTCTTCCATAAGAA	0.408													72	126					0	0	0.01441	0	0		C	236208817	C	C	236208817	3	2	134	1	0	0	0	0	1	0	0	0	10433	1609	56	3	3123	3	NID1	1	236208817	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	368336	236208817	13041804	157	72815											
RYR2	6262	broad.mit.edu	37	chr1	237919637	237919637	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccagcaagcccgactccAcgatcgtggcgcggctgaga	10	5	12	14	5	0	1	0	1	0	1	2	4	1	1	3	2	3	2	3	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:237919637A>G	uc001hyl.1	+	81	11315	c.11195A>G	c.(11194-11196)CAC>CGC	p.H3732R	RYR2_uc010pya.1_Missense_Mutation_p.H147R	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3732					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GCCCGACTCCACGATCGTGGC	0.473													18	59					0	0	0.006122	0	0		G	237919637	G	G	237919637	3	3	134	1	0	0	0	0	1	0	0	0	13794	159	6	3	11517	3	RYR2	1	237919637	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1710820	237919637	11330984	158	72816											
RGS7	6000	broad.mit.edu	37	chr1	240990446	240990446	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatgacttcttaatgtcCacttcagttgtatttacaca	10	16	6	9	0	2	1	1	1	1	0	3	2	3	2	1	1	1	2	1	1	3	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:240990446C>A	uc001hyv.2	-	10	966	c.636G>T	c.(634-636)GTG>GTT	p.V212V	RGS7_uc010pyh.1_Silent_p.V186V|RGS7_uc010pyj.1_Silent_p.V128V|RGS7_uc001hyu.2_Silent_p.V212V|RGS7_uc009xgn.1_Silent_p.V159V|RGS7_uc001hyw.2_Silent_p.V212V|RGS7_uc001hyt.2_Silent_p.V44V	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	212					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			TCTTAATGTCCACTTCAGTTG	0.403													41	110					5.20837e-25	6.05037e-25	0.00874	1	0		A	240990446	A	A	240990446	2	1	134	1	0	0	0	0	0	0	0	1	13335	581	21	5		5	RGS7	1	240990446	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3070809	240990446	8260175	159	72817											
CHML	1122	broad.mit.edu	37	chr1	241798364	241798364	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgagaatacagcagtttTgacaccaaatcaatattaaa	17	11	5	8	0	1	2	1	2	0	1	1	3	1	2	2	0	2	2	2	0	7	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:241798364T>C	uc001hzd.2	-	1	869	c.705A>G	c.(703-705)TCA>TCG	p.S235S	OPN3_uc001hza.2_Intron|OPN3_uc001hzb.2_Intron|OPN3_uc001hzc.2_Intron	NM_001821	NP_001812	P26374	RAE2_HUMAN	choroideremia-like Rab escort protein 2	235					intracellular protein transport|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(4)|skin(2)	6	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			ACAGCAGTTTTGACACCAAAT	0.318													65	101					0	0	0.01441	0	0		C	241798364	C	C	241798364	2	2	134	1	0	0	0	0	0	0	0	1	3354	1799	63	3		3	CHML	1	241798364	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	807918	241798364	7452257	160	72818											
EXO1	9156	broad.mit.edu	37	chr1	242030359	242030359	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaaaagaccaagaagtggTacgtatttcagttttgcaaa	15	11	10	5	1	1	3	1	1	0	2	1	3	1	3	1	1	2	4	1	1	7	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:242030359T>C	uc001hzh.2	+	11	1807	c.1267_splice	c.e11+2	p.A423_splice	EXO1_uc001hzi.2_Splice_Site_p.A423_splice|EXO1_uc001hzj.2_Splice_Site_p.A423_splice|EXO1_uc009xgq.2_Splice_Site_p.E423_splice	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b						meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			CAAGAAGTGGTACGTATTTCA	0.264								Direct_reversal_of_damage|Editing_and_processing_nucleases					3	96					0	0	0.004672	0	0		C	242030359	C	C	242030359	5	2	134	1	0	0	0	0	0	0	1	0	5308	1652	57	3	1299	3	EXO1	1	242030359	Splice_Site	SNP	T	TCGA-CG-4442-01A-01D-1158-08	231995	242030359	7220262	161	72819											
ZNF695	57116	broad.mit.edu	37	chr1	247150914	247150914	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaacttaaaggatttgccAcattcttcacatttgtatgg	13	14	6	8	0	2	0	1	0	1	0	2	1	2	1	1	2	3	1	1	2	5	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:247150914A>G	uc009xgu.2	-	4	1048	c.903T>C	c.(901-903)TGT>TGC	p.C301C	ZNF695_uc001ica.2_Intron|ZNF695_uc001icb.1_Intron|ZNF695_uc009xgt.1_Intron|ZNF695_uc001ibx.2_Intron|ZNF695_uc001iby.2_Intron	NM_020394	NP_065127	Q8IW36	ZN695_HUMAN	zinc finger protein SBZF3	301	C2H2-type 6.				regulation of transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			AGGATTTGCCACATTCTTCAC	0.358													15	45					0	0	0.00499	0	0		G	247150914	G	G	247150914	2	3	134	1	0	0	0	0	0	0	0	1	18123	157	6	3		3	ZNF695	1	247150914	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	5120555	247150914	2099707	162	72820											
ZNF124	7678	broad.mit.edu	37	chr1	247319909	247319909	+	Frame_Shift_Del	DEL	T	-	-																															gggcttttctccagtatgagTttttttatgcttccaaaggg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:247319909delT	uc001ick.2	-	4	1154	c.1015delA	c.(1015-1017)ACTfs	p.T339fs	ZNF124_uc001ici.2_Intron|ZNF124_uc001icj.1_Frame_Shift_Del_p.T277fs	NM_003431	NP_003422	Q15973	ZN124_HUMAN	zinc finger protein 124	339	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	all_cancers(71;5.07e-05)|all_epithelial(71;8.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00739)			CCAGTATGAGTTTTTTTATGC	0.368													41	90	---	---	---	---						.	-	247319909	-	-	247319909	7	5	134	1	0	1	0	1	0	0	0	0	17745	1725	60	0	44	0	ZNF124	1	247319909	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	168995	247319909	1930712	163	72821											
OR2G3	81469	broad.mit.edu	37	chr1	247769239	247769239	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtatcctcttggctgacAtggccttggatcggtacatt	8	14	10	9	1	1	1	0	1	1	0	3	2	2	2	2	4	1	3	2	4	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:247769239A>G	uc010pyz.1	+	1	352	c.352A>G	c.(352-354)ATG>GTG	p.M118V		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	118	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			CTTGGCTGACATGGCCTTGGA	0.507													6	324					0	0	0.001168	0	0		G	247769239	G	G	247769239	3	3	134	1	0	0	0	0	1	0	0	0	11018	217	8	3	354	3	OR2G3	1	247769239	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	449330	247769239	1481382	164	72822											
OR2W3	343171	broad.mit.edu	37	chr1	248059019	248059019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccctcgtaggcaacaccaCcatcatcctggtgtcccggc	8	7	9	17	2	1	0	1	0	0	0	4	1	3	0	5	3	1	2	5	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:248059019C>T	uc001idp.1	+	3	400	c.131C>T	c.(130-132)ACC>ATC	p.T44I	OR2W3_uc010pzb.1_Missense_Mutation_p.T44I	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	44	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GGCAACACCACCATCATCCTG	0.577													101	170					0	0	0.01441	0	0		T	248059019	T	T	248059019	3	4	134	1	0	0	0	0	1	0	0	0	11052	507	18	4	133	4	OR2W3	1	248059019	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	289780	248059019	1191602	165	72823											
OR2M5	127059	broad.mit.edu	37	chr1	248309326	248309326	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccctcatctacagcctcCgcaacaaggaggtgaccaga	12	6	8	15	1	2	2	1	1	1	1	4	3	4	3	5	2	3	1	5	2	3	1	rs150445512	by1000genomes	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:248309326C>A	uc010pze.1	+	1	877	c.877C>A	c.(877-879)CGC>AGC	p.R293S		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	293	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			CTACAGCCTCCGCAACAAGGA	0.493													63	85					3.77215e-22	4.34933e-22	0.01441	1	0		A	248309326	A	A	248309326	3	1	134	1	0	0	0	0	1	0	0	0	11032	652	23	5	879	5	OR2M5	1	248309326	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	250307	248309326	941295	166	72824											
OR2T27	403239	broad.mit.edu	37	chr1	248813394	248813394	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgctcaggggtgtggtaAgaatgaggcagcacgtatgt	9	10	15	7	1	1	2	1	1	0	1	2	2	2	2	1	4	2	5	1	4	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:248813394A>G	uc010pzo.1	-	1	792	c.792T>C	c.(790-792)TCT>TCC	p.S264S		NM_001001824	NP_001001824	Q8NH04	O2T27_HUMAN	olfactory receptor, family 2, subfamily T,	264	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;1.15e-05)|all_epithelial(71;5.29e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.089)|Lung NSC(105;0.0969)|Melanoma(84;0.199)	all_cancers(173;0.237)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGGTGTGGTAAGAATGAGGCA	0.527													20	57					0	0	0.012319	0	0		G	248813394	G	G	248813394	2	3	134	1	0	0	0	0	0	0	0	1	11040	59	3	3		3	OR2T27	1	248813394	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	504068	248813394	437227	167	72825											
SH3BP5L	80851	broad.mit.edu	37	chr1	249107289	249107289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcttggacccgagcctcagCctgttggcacagccgagtca	7	7	13	14	2	2	0	2	0	0	0	2	3	2	1	4	3	3	3	4	3	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr1:249107289C>T	uc001iew.1	-	6	1162	c.610G>A	c.(610-612)GCT>ACT	p.A204T	SH3BP5L_uc010pzp.1_Missense_Mutation_p.A97T|SH3BP5L_uc010pzq.1_Missense_Mutation_p.A172T|SH3BP5L_uc001iev.1_Missense_Mutation_p.A85T	NM_030645	NP_085148	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	204	Potential.										0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			CGAGCCTCAGCCTGTTGGCAC	0.637													11	12					0	0	0.008871	0	0		T	249107289	T	T	249107289	3	4	134	1	0	0	0	0	1	0	0	0	14273	739	26	2	579	2	SH3BP5L	1	249107289	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	293895	249107289	143332	168	72826											
TMEM18	129787	broad.mit.edu	37	chr2	675542	675542	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgcccgatctgtagtctgTagcttcgggaggacaagcag	9	9	14	9	2	2	0	0	0	2	0	3	3	2	2	1	2	3	4	1	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:675542T>C	uc002qwl.2	-	2	240	c.146A>G	c.(145-147)TAC>TGC	p.Y49C	TMEM18_uc002qwk.2_RNA|uc002qwm.1_5'Flank	NM_152834	NP_690047	Q96B42	TMM18_HUMAN	transmembrane protein 18	49					cell migration	integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;5.27e-05)|all_epithelial(98;2.11e-06)|Ovarian(717;0.0253)		all cancers(51;1.95e-21)|Epithelial(75;9.47e-21)|OV - Ovarian serous cystadenocarcinoma(76;8.15e-18)|GBM - Glioblastoma multiforme(21;0.0285)		CTGTAGTCTGTAGCTTCGGGA	0.527													4	138					0	0	0.009096	0	0		C	675542	C	C	675542	3	2	134	1	0	0	0	0	1	0	0	0	16123	1638	57	3	292	3	TMEM18	2	675542	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08		675542	242523831	169	72827											
TPO	7173	broad.mit.edu	37	chr2	1500522	1500522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggaaggatgggatttccagCctcccctctgcaaaggtcag	10	8	12	11	0	2	0	1	0	1	0	4	3	4	3	4	4	2	1	4	4	2	1	rs113070603		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:1500522C>T	uc002qww.2	+	13	2462	c.2371C>T	c.(2371-2373)CCT>TCT	p.P791S	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Missense_Mutation_p.P734S|TPO_uc002qwr.2_Missense_Mutation_p.P791S|TPO_uc002qwx.2_Missense_Mutation_p.P734S|TPO_uc010yio.1_Missense_Mutation_p.P618S|TPO_uc010yip.1_Missense_Mutation_p.P791S|TPO_uc002qwy.1_Missense_Mutation_p.P131S|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	791	Extracellular (Potential).|Sushi.				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	GGATTTCCAGCCTCCCCTCTG	0.493													8	187					0	0	0.004482	0	0		T	1500522	T	T	1500522	3	4	134	1	0	0	0	0	1	0	0	0	16436	739	26	2	2417	2	TPO	2	1500522	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	824980	1500522	241698851	170	72828											
TPO	7173	broad.mit.edu	37	chr2	1544465	1544465	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggccgtagggacctcaccGcagcgggccgcagctcagga	8	3	15	15	4	2	0	2	0	0	0	2	2	2	2	4	4	2	4	4	4	1	1	rs149611408		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:1544465G>A	uc002qww.2	+	16	2809	c.2718G>A	c.(2716-2718)CCG>CCA	p.P906P	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Silent_p.P849P|TPO_uc002qwr.2_Silent_p.P906P|TPO_uc002qwx.2_Silent_p.P849P|TPO_uc010yio.1_Silent_p.P733P|TPO_uc010yip.1_Silent_p.P862P|TPO_uc002qwy.1_Silent_p.P202P|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	906	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	GGACCTCACCGCAGCGGGCCG	0.642													34	58					0	0	0.004878	0	0		A	1544465	A	A	1544465	2	1	134	1	0	0	0	0	0	0	0	1	16436	1074	38	1		1	TPO	2	1544465	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	43943	1544465	241654908	171	72829											
PXDN	7837	broad.mit.edu	37	chr2	1670198	1670198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggcgctgcactccagcGtgacgctctccccaaccagc	6	7	10	18	3	1	1	0	1	1	0	3	1	2	1	4	1	4	3	4	1	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:1670198G>A	uc002qxa.2	-	10	1143	c.1079C>T	c.(1078-1080)ACG>ATG	p.T360M	PXDN_uc002qxb.1_Missense_Mutation_p.T360M|PXDN_uc002qxc.1_Missense_Mutation_p.T177M	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	360	Ig-like C2-type 2.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GCACTCCAGCGTGACGCTCTC	0.572													4	22					0	0	0.000602	0	0		A	1670198	A	A	1670198	3	1	134	1	0	0	0	0	1	0	0	0	12872	1145	40	1	3416	1	PXDN	2	1670198	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	125733	1670198	241529175	172	72830											
PXDN	7837	broad.mit.edu	37	chr2	1684063	1684063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgcgttccccgactccGcgtaggttttcagcaaatcc	6	10	9	16	5	1	0	1	0	0	0	4	1	4	0	5	1	2	4	5	1	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:1684063G>A	uc002qxa.2	-	7	696	c.632C>T	c.(631-633)GCG>GTG	p.A211V	PXDN_uc002qxb.1_Missense_Mutation_p.A211V|PXDN_uc002qxc.1_Missense_Mutation_p.A28V	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	211	LRRCT.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CCCCGACTCCGCGTAGGTTTT	0.577													22	36					0	0	0.012319	0	0		A	1684063	A	A	1684063	3	1	134	1	0	0	0	0	1	0	0	0	12872	1087	38	1	3875	1	PXDN	2	1684063	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	13865	1684063	241515310	173	72831											
MYT1L	23040	broad.mit.edu	37	chr2	1926341	1926341	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatgacacccatcctccttCgcacagctggcaaacactct	10	9	5	17	1	2	1	1	1	1	0	5	1	4	1	3	1	2	3	3	1	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:1926341C>T	uc002qxe.2	-	10	2027	c.1200G>A	c.(1198-1200)GCG>GCA	p.A400A	MYT1L_uc002qxd.2_Silent_p.A400A|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	400					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CATCCTCCTTCGCACAGCTGG	0.597													28	58					0	0	0.005443	0	0		T	1926341	T	T	1926341	2	4	134	1	0	0	0	0	0	0	0	1	10125	871	31	1		1	MYT1L	2	1926341	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	242278	1926341	241273032	174	72832											
COLEC11	78989	broad.mit.edu	37	chr2	3687869	3687869	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgttttttattttcaggTgagaaaggagattccggtga	9	16	11	5	1	1	3	1	2	0	2	2	5	2	3	2	3	0	1	2	3	2	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:3687869T>C	uc002qya.2	+	5	424	c.276T>C	c.(274-276)GGT>GGC	p.G92G	COLEC11_uc002qxz.2_Silent_p.G89G|COLEC11_uc002qyb.2_Silent_p.G68G|COLEC11_uc002qyc.2_Silent_p.G68G|COLEC11_uc010ewo.2_Silent_p.G44G|COLEC11_uc010ewp.2_Silent_p.G66G|COLEC11_uc010ewq.2_Silent_p.G42G|COLEC11_uc010ewr.2_Silent_p.G42G|COLEC11_uc010ews.2_Silent_p.G18G	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	92	Collagen-like.					collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		TATTTTCAGGTGAGAAAGGAG	0.388													10	24					0	0	0.010729	0	0		C	3687869	C	C	3687869	2	2	134	1	0	0	0	0	0	0	0	1	3714	1710	59	3		3	COLEC11	2	3687869	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1761528	3687869	239511504	175	72833											
HPCAL1	3241	broad.mit.edu	37	chr2	10566920	10566920	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgtccgcctgctgcagtgCgaccccagcagtgccagtca	7	7	11	16	3	1	0	1	0	0	0	3	1	2	0	5	0	5	3	5	0	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:10566920C>T	uc002raj.2	+	5	929	c.555C>T	c.(553-555)TGC>TGT	p.C185C	HPCAL1_uc002rak.2_Silent_p.C185C|HPCAL1_uc002ral.2_Silent_p.C185C|HPCAL1_uc010exe.2_RNA|HPCAL1_uc010exf.2_Silent_p.C185C	NM_002149	NP_002140	P37235	HPCL1_HUMAN	hippocalcin-like 1	185							calcium ion binding			pancreas(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.214)		TGCTGCAGTGCGACCCCAGCA	0.572													48	107					0	0	0.01441	0	0		T	10566920	T	T	10566920	2	4	134	1	0	0	0	0	0	0	0	1	7346	776	27	1		1	HPCAL1	2	10566920	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	6879051	10566920	232632453	176	72834											
NTSR2	23620	broad.mit.edu	37	chr2	11809758	11809758	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgacggccatgggcagggcGaggccgagcgaggcggccca	8	2	19	12	5	0	1	0	1	0	0	0	4	0	1	3	6	1	1	3	6	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:11809758G>A	uc002rbq.3	-	1	572	c.498C>T	c.(496-498)CTC>CTT	p.L166L		NM_012344	NP_036476	O95665	NTR2_HUMAN	neurotensin receptor 2	166	Helical; Name=4; (Potential).				sensory perception	integral to plasma membrane					0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.129)|OV - Ovarian serous cystadenocarcinoma(76;0.24)	Levocabastine(DB01106)	TGGGCAGGGCGAGGCCGAGCG	0.741													8	21					0	0	0.00308	0	0		A	11809758	A	A	11809758	2	1	134	1	0	0	0	0	0	0	0	1	10730	1045	37	1		1	NTSR2	2	11809758	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1242838	11809758	231389615	177	72835											
MSGN1	343930	broad.mit.edu	37	chr2	17998228	17998228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatgccctgcacaccctccGgaattacctgccacctgtct	8	9	7	17	1	1	1	0	0	1	1	2	2	2	2	6	1	4	1	6	1	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:17998228G>A	uc010yjt.1	+	1	443	c.443G>A	c.(442-444)CGG>CAG	p.R148Q		NM_001105569	NP_001099039	A6NI15	MSGN1_HUMAN	mesogenin 1	148	Helix-loop-helix motif.				cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CACACCCTCCGGAATTACCTG	0.572													21	48					0	0	0.014323	0	0		A	17998228	A	A	17998228	3	1	134	1	0	0	0	0	1	0	0	0	9887	1116	39	1	445	1	MSGN1	2	17998228	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6188470	17998228	225201145	178	72836											
WDR35	57539	broad.mit.edu	37	chr2	20130156	20130156	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacattaggtgacatgcccaCctgtcttcagtgcagtgtcc	8	11	9	13	0	2	1	1	1	1	0	3	1	3	1	3	1	2	1	3	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:20130156C>T	uc002rdi.2	-	26	3262	c.3154_splice	c.e26+1	p.A1052_splice	WDR35_uc002rdj.2_Splice_Site_p.A1041_splice|WDR35_uc010ext.2_Splice_Site|WDR35_uc002rdh.2_Splice_Site_p.V525_splice	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1											ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GACATGCCCACCTGTCTTCAG	0.423													155	291					0	0	0.01441	0	0		T	20130156	T	T	20130156	5	4	134	1	0	0	0	0	0	0	1	0	17315	521	18	4	402	4	WDR35	2	20130156	Splice_Site	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2131928	20130156	223069217	179	72837											
GDF7	151449	broad.mit.edu	37	chr2	20870891	20870891	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccgctgcagccgcaagccGttgcacgtggacttcaagga	9	6	13	13	4	1	0	1	0	0	0	1	2	1	2	3	2	5	5	3	2	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:20870891G>A	uc002rdz.1	+	2	1635	c.1059G>A	c.(1057-1059)CCG>CCA	p.P353P		NM_182828	NP_878248	Q7Z4P5	GDF7_HUMAN	growth differentiation factor 7 preproprotein	353					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCCGCAAGCCGTTGCACGTGG	0.537													15	9					0	0	0.006122	0	0		A	20870891	A	A	20870891	2	1	134	1	0	0	0	0	0	0	0	1	6333	1132	40	1		1	GDF7	2	20870891	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	740735	20870891	222328482	180	72838											
POMC	5443	broad.mit.edu	37	chr2	25384348	25384348	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatggagtaggagcgctTgccctcgcgcgggcccggct	4	7	15	15	5	0	0	0	0	0	0	2	2	1	2	3	4	2	3	3	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:25384348T>C	uc002rfy.1	-	4	669	c.406A>G	c.(406-408)AAG>GAG	p.K136E	POMC_uc002rfz.1_Missense_Mutation_p.K136E|POMC_uc002rga.1_Missense_Mutation_p.K136E	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	136					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)	TAGGAGCGCTTGCCCTCGCGC	0.721													3	8					0	0	0.009096	0	0		C	25384348	C	C	25384348	3	2	134	1	0	0	0	0	1	0	0	0	12261	1821	63	3	401	3	POMC	2	25384348	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4513457	25384348	217815025	181	72839											
DNMT3A	1788	broad.mit.edu	37	chr2	25523110	25523110	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcctcctgctcctctccGtcctgcaggcacagacacag	6	8	9	18	1	1	1	0	0	1	1	6	1	5	1	5	2	2	4	5	2	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:25523110G>A	uc002rgc.2	-	3	332	c.75C>T	c.(73-75)GAC>GAT	p.D25D	DNMT3A_uc002rgd.2_Silent_p.D25D|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rge.2_Silent_p.D22D|DNMT3A_uc002rgf.2_Silent_p.D25D	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	25					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCTCCTCTCCGTCCTGCAGGC	0.687			Mis|F|N|S		AML								15	26					0	0	0.004007	0	0		A	25523110	A	A	25523110	2	1	134	1	0	0	0	0	0	0	0	1	4682	1136	40	1		1	DNMT3A	2	25523110	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	138762	25523110	217676263	182	72840											
OTOF	9381	broad.mit.edu	37	chr2	26684657	26684657	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctcgtcccaggagaacaTggactccttcttggagatga	9	10	12	10	1	2	3	0	1	2	2	5	6	4	4	2	4	1	0	2	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:26684657T>C	uc002rhk.2	-	43	5567	c.5440A>G	c.(5440-5442)ATG>GTG	p.M1814V	OTOF_uc010yla.1_Missense_Mutation_p.M544V|OTOF_uc002rhh.2_Missense_Mutation_p.M1047V|OTOF_uc002rhi.2_Missense_Mutation_p.M1124V|OTOF_uc002rhj.2_Missense_Mutation_p.M1047V	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1814	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGGAGAACATGGACTCCTTC	0.607													85	156					0	0	0.01441	0	0		C	26684657	C	C	26684657	3	2	134	1	0	0	0	0	1	0	0	0	11322	1464	51	3	754	3	OTOF	2	26684657	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1161547	26684657	216514716	183	72841											
EMILIN1	11117	broad.mit.edu	37	chr2	27306603	27306603	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggccggccagtgccccAgcttagaggggcgattgggc	7	5	16	13	2	0	1	0	0	0	1	0	2	0	1	4	5	2	1	4	5	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:27306603A>C	uc002rii.3	+	4	2592	c.2164A>C	c.(2164-2166)AGC>CGC	p.S722R	EMILIN1_uc002rik.3_5'UTR	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	722	Potential.				cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCAGTGCCCCAGCTTAGAGGG	0.627													49	126					0	0	0.01441	0	0		C	27306603	C	C	27306603	3	2	134	1	0	0	0	0	1	0	0	0	5101	188	7	5	2178	5	EMILIN1	2	27306603	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	621946	27306603	215892770	184	72842											
EIF2B4	8890	broad.mit.edu	37	chr2	27591882	27591882	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggaagatacctgagggggTttctccagctgtgctggggc	7	9	17	8	0	1	2	0	1	1	1	2	3	1	3	2	5	3	3	2	5	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:27591882T>G	uc002rkb.2	-	4	552	c.409A>C	c.(409-411)ACC>CCC	p.T137P	EIF2B4_uc002rjz.2_Missense_Mutation_p.T157P|EIF2B4_uc002rka.2_Missense_Mutation_p.T122P|EIF2B4_uc002rkc.2_Missense_Mutation_p.T136P|EIF2B4_uc002rkd.2_5'UTR|EIF2B4_uc002rke.2_Missense_Mutation_p.T106P|EIF2B4_uc002rkf.1_Missense_Mutation_p.T106P|SNX17_uc010ylj.1_5'Flank|SNX17_uc002rkg.1_5'Flank|SNX17_uc010ylk.1_5'Flank|SNX17_uc010eza.1_5'Flank|SNX17_uc002rki.1_5'Flank|SNX17_uc002rkh.1_5'Flank|SNX17_uc010yll.1_5'Flank|SNX17_uc010ylm.1_5'Flank|SNX17_uc010yln.1_5'Flank|SNX17_uc010ylo.1_5'Flank|SNX17_uc010ylp.1_5'Flank|SNX17_uc010ylq.1_5'Flank	NM_001034116	NP_001029288	Q9UI10	EI2BD_HUMAN	eukaryotic translation initiation factor 2B,	137					myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	translation initiation factor activity|translation initiation factor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCTGAGGGGGTTTCTCCAGCT	0.552													47	95					0	0	0.01441	0	0		G	27591882	G	G	27591882	3	3	134	1	0	0	0	0	1	0	0	0	5009	1725	60	5	1202	5	EIF2B4	2	27591882	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	285279	27591882	215607491	185	72843											
C2orf16	84226	broad.mit.edu	37	chr2	27801187	27801187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggaaacagtggagttgaCagggtttcaaattgtaaaaa	15	12	11	3	0	1	1	1	1	0	0	1	3	1	3	0	3	1	3	0	3	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:27801187C>T	uc002rkz.3	+	1	1799	c.1748C>T	c.(1747-1749)ACA>ATA	p.T583I		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	583										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					GTGGAGTTGACAGGGTTTCAA	0.413													34	52					0	0	0.012213	0	0		T	27801187	T	T	27801187	3	4	134	1	0	0	0	0	1	0	0	0	2160	478	17	4	1750	4	C2orf16	2	27801187	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	209305	27801187	215398186	186	72844											
C2orf16	84226	broad.mit.edu	37	chr2	27803773	27803773	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaacagccaagaagagcttActctttccaacccagacctc	13	8	5	15	0	2	3	1	0	1	3	4	3	3	3	4	0	5	1	4	0	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:27803773A>G	uc002rkz.3	+	1	4385	c.4334A>G	c.(4333-4335)TAC>TGC	p.Y1445C	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1445										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					AGAAGAGCTTACTCTTTCCAA	0.527													5	227					0	0	0.000602	0	0		G	27803773	G	G	27803773	3	3	134	1	0	0	0	0	1	0	0	0	2160	391	14	3	4336	3	C2orf16	2	27803773	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2586	27803773	215395600	187	72845											
RBKS	64080	broad.mit.edu	37	chr2	28050499	28050499	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaggttctgtctgtgacaGcaccacacatccttcagccc	8	10	7	16	0	4	1	2	1	2	0	5	1	5	1	3	1	2	2	3	1	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:28050499G>A	uc002rlo.1	-	7	741	c.730C>T	c.(730-732)CTG>TTG	p.L244L	RBKS_uc010ezi.1_Silent_p.L177L|RBKS_uc010ymg.1_Silent_p.L244L	NM_022128	NP_071411	Q9H477	RBSK_HUMAN	ribokinase	244					D-ribose metabolic process		ATP binding|ribokinase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)					GTCTGTGACAGCACCACACAT	0.493													7	187					0	0	0.001984	0	0		A	28050499	A	A	28050499	2	1	134	1	0	0	0	0	0	0	0	1	13133	962	34	2		2	RBKS	2	28050499	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	246726	28050499	215148874	188	72846											
TTC27	55622	broad.mit.edu	37	chr2	32961876	32961876	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgaaagagccgggcagcAcggaaaggtatgtaatagtc	14	8	13	6	2	0	2	0	1	0	1	1	3	0	3	1	3	2	4	1	3	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:32961876A>G	uc002rom.2	+	12	1676	c.1445A>G	c.(1444-1446)CAC>CGC	p.H482R	TTC27_uc010ymx.1_Missense_Mutation_p.H432R|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	482	TPR 2.						protein binding			central_nervous_system(1)	1						GCCGGGCAGCACGGAAAGGTA	0.423													28	38					0	0	0.005443	0	0		G	32961876	G	G	32961876	3	3	134	1	0	0	0	0	1	0	0	0	16721	159	6	3	1491	3	TTC27	2	32961876	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4911377	32961876	210237497	189	72847											
DHX57	90957	broad.mit.edu	37	chr2	39050138	39050138	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatgttgtttacttacaaaCggagacttaaaagccaaact	16	11	7	7	1	0	1	0	0	0	1	0	3	0	1	1	1	5	2	1	1	7	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:39050138C>T	uc002rrf.2	-	17	3387	c.3288G>A	c.(3286-3288)CCG>CCA	p.P1096P	DHX57_uc002rrd.3_Silent_p.P480P|DHX57_uc002rre.2_Silent_p.P529P	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	1096							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				TACTTACAAACGGAGACTTAA	0.463													22	39					0	0	0.010504	0	0		T	39050138	T	T	39050138	2	4	134	1	0	0	0	0	0	0	0	1	4519	523	19	1		1	DHX57	2	39050138	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	6088262	39050138	204149235	190	72848											
DHX57	90957	broad.mit.edu	37	chr2	39095333	39095333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttataatgacctggaagggCgccttgattcactgaagata	12	11	11	7	1	1	4	1	3	0	1	1	5	1	5	2	2	0	1	2	2	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:39095333C>T	uc002rrf.2	-	2	314	c.215G>A	c.(214-216)CGC>CAC	p.R72H	DHX57_uc002rre.2_5'Flank|DHX57_uc002rrg.2_Missense_Mutation_p.R72H	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	72							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				CCTGGAAGGGCGCCTTGATTC	0.338													48	98					0	0	0.01441	0	0		T	39095333	T	T	39095333	3	4	134	1	0	0	0	0	1	0	0	0	4519	768	27	1	4037	1	DHX57	2	39095333	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	45195	39095333	204104040	191	72849											
PKDCC	91461	broad.mit.edu	37	chr2	42281307	42281307	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtgacggacctggatgaCgcacgtgtggaggagacgcc	11	5	16	9	4	0	3	0	2	0	1	0	7	0	6	2	4	0	1	2	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:42281307C>T	uc002rsg.2	+	3	1073	c.894C>T	c.(892-894)GAC>GAT	p.D298D		NM_138370	NP_612379	Q504Y2	PKDCC_HUMAN	protein kinase-like protein SgK493	298	Protein kinase.				cell differentiation|embryonic digestive tract development|lung alveolus development|negative regulation of Golgi to plasma membrane protein transport|ossification|palate development|positive regulation of bone mineralization|positive regulation of chondrocyte differentiation|protein transport	Golgi apparatus	ATP binding|protein kinase activity			breast(1)	1						ACCTGGATGACGCACGTGTGG	0.647													15	18					0	0	0.003163	0	0		T	42281307	T	T	42281307	2	4	134	1	0	0	0	0	0	0	0	1	11988	535	19	1		1	PKDCC	2	42281307	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3185974	42281307	200918066	192	72850											
COX7A2L	9167	broad.mit.edu	37	chr2	42578377	42578377	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcatttgtttttgggctgCgaagccatgtagagggcgat	8	13	13	7	2	1	1	1	0	0	1	1	3	1	1	1	2	2	3	1	2	2	4	rs79591809	by1000genomes	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:42578377C>T	uc002rsk.2	-	3	382	c.327G>A	c.(325-327)TCG>TCA	p.S109S	COX7A2L_uc002rsl.2_RNA	NM_004718	NP_004709	O14548	COX7R_HUMAN	cytochrome c oxidase subunit VIIa polypeptide 2	109					respiratory electron transport chain	mitochondrial respiratory chain	cytochrome-c oxidase activity|electron carrier activity				0						TTTTGGGCTGCGAAGCCATGT	0.453													19	44					0	0	0.008871	0	0		T	42578377	T	T	42578377	2	4	134	1	0	0	0	0	0	0	0	1	3784	755	27	1		1	COX7A2L	2	42578377	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	297070	42578377	200620996	193	72851											
MCFD2	90411	broad.mit.edu	37	chr2	47135054	47135054	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagctgcaattcttgtggCgacatctccgcctctggttt	5	14	11	11	2	3	0	0	0	3	0	4	2	3	1	2	3	2	3	2	3	1	3	rs144700781		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:47135054C>T	uc002rvk.2	-	3	298	c.204G>A	c.(202-204)TCG>TCA	p.S68S	MCFD2_uc002rvl.2_Silent_p.S16S|MCFD2_uc010fba.2_Silent_p.S66S|MCFD2_uc010yof.1_Silent_p.S49S	NM_139279	NP_644808	Q8NI22	MCFD2_HUMAN	multiple coagulation factor deficiency 2	68	EF-hand 1.				post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|vesicle-mediated transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment|Golgi apparatus	calcium ion binding			central_nervous_system(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)		Antihemophilic Factor(DB00025)	ATTCTTGTGGCGACATCTCCG	0.428													31	80					0	0	0.012213	0	0		T	47135054	T	T	47135054	2	4	134	1	0	0	0	0	0	0	0	1	9399	755	27	1		1	MCFD2	2	47135054	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4556677	47135054	196064319	194	72852											
PSME4	23198	broad.mit.edu	37	chr2	54164655	54164655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccattcttctagcatctcagCggtggcatctgctggaaaat	9	12	9	11	1	4	0	1	0	4	0	5	1	4	1	1	3	3	3	1	3	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:54164655C>T	uc002rxp.2	-	5	624	c.568G>A	c.(568-570)GCT>ACT	p.A190T	PSME4_uc010yop.1_Missense_Mutation_p.A76T|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_5'UTR|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	190					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			AGCATCTCAGCGGTGGCATCT	0.368													56	92					0	0	0.01441	0	0		T	54164655	T	T	54164655	3	4	134	1	0	0	0	0	1	0	0	0	12731	768	27	1	5131	1	PSME4	2	54164655	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	7029601	54164655	189034718	195	72853											
SPTBN1	6711	broad.mit.edu	37	chr2	54895695	54895695	+	Frame_Shift_Del	DEL	A	-	-																															agcggttcagcctttttggcAaaaagaaatgaactcctttc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:54895695delA	uc002rxu.2	+	36	7333	c.7084delA	c.(7084-7086)AAAfs	p.K2362fs	SPTBN1_uc010you.1_Frame_Shift_Del_p.K352fs	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	2362					actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			CCTTTTTGGCAAAAAGAAATG	0.502													13	25	---	---	---	---						.	-	54895695	-	-	54895695	7	5	134	1	0	1	0	1	0	0	0	0	15144	131	5	0	7422	0	SPTBN1	2	54895695	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	731040	54895695	188303678	196	72854											
CCDC88A	55704	broad.mit.edu	37	chr2	55561924	55561925	+	Frame_Shift_Ins	INS	-	T	T																															atttttaaagctatccaatgINSttttttttaattttctattt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:55561924_55561925insT	uc002ryv.2	-	15	2874_2875	c.2032_2033insA	c.(2032-2034)ACAfs	p.T678fs	CCDC88A_uc010yoz.1_Frame_Shift_Ins_p.T678fs|CCDC88A_uc010ypa.1_Frame_Shift_Ins_p.T678fs|CCDC88A_uc010ypb.1_Frame_Shift_Ins_p.T580fs|CCDC88A_uc002ryu.2_5'UTR|CCDC88A_uc002ryw.2_5'UTR	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	678	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						GCTATCCAATGTTTTTTTTAAT	0.287													28	55	---	---	---	---						.	T	55561925	T	T	55561924	7	5	134	1	0	1	1	0	0	0	0	0	2866	1377	48	0	3654	0	CCDC88A	2	55561924	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	666229	55561924	187637449	197	72855											
EHBP1	23301	broad.mit.edu	37	chr2	63176204	63176205	+	Frame_Shift_Ins	INS	-	A	A																															gagatctagaccttgctaagINSaaaaaacatgcttccctgag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:63176204_63176205insA	uc002sby.2	+	14	2810_2811	c.2328_2329insA	c.(2326-2331)AAGAAAfs	p.K776fs	EHBP1_uc010fcp.2_Frame_Shift_Ins_p.K741fs|EHBP1_uc002sbz.2_Frame_Shift_Ins_p.K741fs|EHBP1_uc002scb.2_Frame_Shift_Ins_p.K741fs	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	776_777						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			ACCTTGCTAAGAAAAAACATGC	0.376									Hereditary_Prostate_Cancer				48	108	---	---	---	---						.	A	63176205	A	A	63176204	7	5	134	1	0	1	1	0	0	0	0	0	4981	933	33	0	2378	0	EHBP1	2	63176204	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	7614280	63176204	180023169	198	72856											
ARHGAP25	9938	broad.mit.edu	37	chr2	69049486	69049486	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctagacaagcgactctgaTacaaccagccccaccggaca	13	6	7	15	2	2	2	0	1	2	1	2	4	2	3	4	1	4	0	4	1	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:69049486T>C	uc002seu.2	+	10	1576	c.1212T>C	c.(1210-1212)GAT>GAC	p.D404D	ARHGAP25_uc010fdg.2_Silent_p.D405D|ARHGAP25_uc010yql.1_Silent_p.D365D|ARHGAP25_uc002sew.2_Silent_p.D397D|ARHGAP25_uc002sex.2_Silent_p.D398D|ARHGAP25_uc002sey.2_Silent_p.D131D	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	404					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						GCGACTCTGATACAACCAGCC	0.517													5	229					0	0	0.000602	0	0		C	69049486	C	C	69049486	2	2	134	1	0	0	0	0	0	0	0	1	874	1403	49	3		3	ARHGAP25	2	69049486	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	5873282	69049486	174149887	199	72857											
AAK1	22848	broad.mit.edu	37	chr2	69741805	69741805	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaattctgcattagctgcTgttgagagcctccttgggac	9	12	11	9	0	1	2	0	1	1	2	2	4	2	3	2	1	4	4	2	1	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:69741805T>G	uc002sfp.2	-	13	2079	c.1574A>C	c.(1573-1575)CAG>CCG	p.Q525P	AAK1_uc010fdk.2_Missense_Mutation_p.Q525P|AAK1_uc010yqm.1_Missense_Mutation_p.Q525P	NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	525	Gln-rich.					coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0						CATTAGCTGCTGTTGAGAGCC	0.388													11	14					0	0	0.013537	0	0		G	69741805	G	G	69741805	3	3	134	1	0	0	0	0	1	0	0	0	16	1580	55	5	1351	5	AAK1	2	69741805	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	692319	69741805	173457568	200	72858											
ADD2	119	broad.mit.edu	37	chr2	70933540	70933540	+	Frame_Shift_Del	DEL	T	-	-																															ggggaccgtctcttcgctcaTtttcccggtgggtttgcaat																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:70933540delT	uc002sgz.2	-	3	466	c.1delA	c.(1-3)ATGfs	p.M1fs	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Frame_Shift_Del_p.M1fs|ADD2_uc002sha.2_Frame_Shift_Del_p.M1fs|ADD2_uc002sgx.2_Frame_Shift_Del_p.M1fs|ADD2_uc010fdt.1_Frame_Shift_Del_p.M1fs|ADD2_uc002shc.1_Frame_Shift_Del_p.M1fs|ADD2_uc002shd.1_Frame_Shift_Del_p.M1fs|ADD2_uc010fdu.1_Frame_Shift_Del_p.M17fs	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	1					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						TCTTCGCTCATTTTCCCGGTG	0.617													43	85	---	---	---	---						.	-	70933540	-	-	70933540	7	5	134	1	0	1	0	1	0	0	0	0	305	1493	52	0	2416	0	ADD2	2	70933540	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	1191735	70933540	172265833	201	72859											
ZNF638	27332	broad.mit.edu	37	chr2	71577170	71577170	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgattaattcatctaacgtAcatgttggatcaagaggaag	14	12	10	5	1	3	2	2	1	1	1	3	4	3	4	0	2	2	2	0	2	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:71577170A>G	uc002shx.2	+	2	1405	c.1086A>G	c.(1084-1086)GTA>GTG	p.V362V	ZNF638_uc010fec.2_Silent_p.V468V|ZNF638_uc010yqw.1_Intron|ZNF638_uc002shw.2_Silent_p.V362V|ZNF638_uc002shy.2_Silent_p.V362V|ZNF638_uc002shz.2_Silent_p.V362V|ZNF638_uc002sia.2_Silent_p.V362V|ZNF638_uc002sib.1_Silent_p.V362V	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	362					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						CATCTAACGTACATGTTGGAT	0.428													5	218					0	0	0.001168	0	0		G	71577170	G	G	71577170	2	3	134	1	0	0	0	0	0	0	0	1	18080	378	14	3		3	ZNF638	2	71577170	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	643630	71577170	171622203	202	72860											
CCDC142	84865	broad.mit.edu	37	chr2	74702431	74702431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcctgaccaagggcaggggCctgggcttgaggtggcaacc	8	5	17	11	0	0	2	0	2	0	0	0	2	0	2	4	6	2	3	4	6	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:74702431C>T	uc002slr.2	-	7	2110	c.1717G>A	c.(1717-1719)GCC>ACC	p.A573T	MRPL53_uc002sln.2_5'Flank|CCDC142_uc002slo.2_RNA|CCDC142_uc002slq.2_Missense_Mutation_p.A566T|CCDC142_uc002slp.2_Missense_Mutation_p.A573T	NM_032779	NP_116168	Q17RM4	CC142_HUMAN	coiled-coil domain containing 142	573										central_nervous_system(1)	1						AGGGCAGGGGCCTGGGCTTGA	0.572													54	117					0	0	0.01441	0	0		T	74702431	T	T	74702431	3	4	134	1	0	0	0	0	1	0	0	0	2779	739	26	2	547	2	CCDC142	2	74702431	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3125261	74702431	168496942	203	72861											
DQX1	165545	broad.mit.edu	37	chr2	74746779	74746779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagggaagttcaattcgttgCatgagttctaggagttctcc	10	13	11	7	1	3	1	1	1	2	0	5	3	3	3	1	2	1	5	1	2	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:74746779C>T	uc010yrw.1	-	10	1875	c.1710G>A	c.(1708-1710)ATG>ATA	p.M570I	DQX1_uc002smc.2_Missense_Mutation_p.M131I	NM_133637	NP_598376	Q8TE96	DQX1_HUMAN	DEAQ box polypeptide 1 (RNA-dependent ATPase)	570						nucleus	ATP binding|helicase activity|nucleic acid binding			ovary(2)	2						CAATTCGTTGCATGAGTTCTA	0.512													77	136					0	0	0.01441	0	0		T	74746779	T	T	74746779	3	4	134	1	0	0	0	0	1	0	0	0	4757	710	25	2	455	2	DQX1	2	74746779	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	44348	74746779	168452594	204	72862											
DQX1	165545	broad.mit.edu	37	chr2	74747154	74747155	+	Frame_Shift_Ins	INS	-	G	G																															gtggaggacgggtaaacccaINSggggcagctggaggcagaag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:74747154_74747155insG	uc010yrw.1	-	9	1667_1668	c.1502_1503insC	c.(1501-1503)CCTfs	p.P501fs	DQX1_uc002smc.2_Frame_Shift_Ins_p.P62fs	NM_133637	NP_598376	Q8TE96	DQX1_HUMAN	DEAQ box polypeptide 1 (RNA-dependent ATPase)	501						nucleus	ATP binding|helicase activity|nucleic acid binding			ovary(2)	2						GGGTAAACCCAGGGGCAGCTGG	0.54													55	122	---	---	---	---						.	G	74747155	G	G	74747154	7	5	134	1	0	1	1	0	0	0	0	0	4757	175	7	0	666	0	DQX1	2	74747154	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	375	74747154	168452219	205	72863											
TACR1	6869	broad.mit.edu	37	chr2	75347784	75347784	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtctctgtggttgagtagTagccctgggggaaggccagc	6	10	17	8	0	1	1	0	1	1	0	2	2	1	2	2	5	2	3	2	5	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:75347784T>C	uc002sng.2	-	2	1085	c.500A>G	c.(499-501)TAC>TGC	p.Y167C	TACR1_uc002snh.2_Missense_Mutation_p.Y167C	NM_001058	NP_001049	P25103	NK1R_HUMAN	tachykinin receptor 1 isoform long	167	Helical; Name=4; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|detection of abiotic stimulus|mechanosensory behavior	integral to plasma membrane	protein binding			ovary(1)	1					Aprepitant(DB00673)|Ketamine(DB01221)|Vapreotide(DB04894)	GGTTGAGTAGTAGCCCTGGGG	0.547													43	115					0	0	0.009718	0	0		C	75347784	C	C	75347784	3	2	134	1	0	0	0	0	1	0	0	0	15530	1638	57	3	743	3	TACR1	2	75347784	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	600630	75347784	167851589	206	72864											
CTNNA2	1496	broad.mit.edu	37	chr2	80773145	80773145	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgagtgttgacagaggcCgtggatgacatcacctcagt	9	9	13	10	2	2	3	2	2	0	1	3	5	3	4	3	2	0	1	3	2	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:80773145C>T	uc010ysh.1	+	10	1502	c.1497C>T	c.(1495-1497)GCC>GCT	p.A499A	CTNNA2_uc010yse.1_Silent_p.A499A|CTNNA2_uc010ysf.1_Silent_p.A499A|CTNNA2_uc010ysg.1_Silent_p.A499A|CTNNA2_uc010ysi.1_Silent_p.A131A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	499					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TGACAGAGGCCGTGGATGACA	0.532													19	33					0	0	0.00278	0	0		T	80773145	T	T	80773145	2	4	134	1	0	0	0	0	0	0	0	1	4016	639	23	1		1	CTNNA2	2	80773145	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	5425361	80773145	162426228	207	72865											
SUCLG1	8802	broad.mit.edu	37	chr2	84668521	84668521	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatagcttcattaatggcAgcagcagcaaaaggcggagg	14	7	12	8	1	2	0	2	0	0	0	2	1	2	1	0	4	4	5	0	4	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:84668521A>G	uc002son.2	-	4	574	c.381T>C	c.(379-381)GCT>GCC	p.A127A	SUCLG1_uc010ysk.1_Silent_p.A114A	NM_003849	NP_003840	P53597	SUCA_HUMAN	succinate-CoA ligase, GDP-forming alpha subunit	127					tricarboxylic acid cycle		ATP citrate synthase activity|GTP binding|succinate-CoA ligase (GDP-forming) activity				0					Succinic acid(DB00139)	CATTAATGGCAGCAGCAGCAA	0.453													37	51					0	0	0.003755	0	0		G	84668521	G	G	84668521	2	3	134	1	0	0	0	0	0	0	0	1	15389	175	7	3		3	SUCLG1	2	84668521	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3895376	84668521	158530852	208	72866											
TCF7L1	83439	broad.mit.edu	37	chr2	85536512	85536512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccccgtccttccccgccaCgctccatgcccaccaggccc	4	6	6	25	3	0	0	0	0	0	0	4	0	4	0	10	1	1	1	10	1	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:85536512C>T	uc002soy.2	+	12	1768	c.1694C>T	c.(1693-1695)ACG>ATG	p.T565M		NM_031283	NP_112573	Q9HCS4	TF7L1_HUMAN	HMG-box transcription factor TCF-3	565					chromatin organization|regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)|central_nervous_system(1)	3						TTCCCCGCCACGCTCCATGCC	0.697													41	108					0	0	0.011902	0	0		T	85536512	T	T	85536512	3	4	134	1	0	0	0	0	1	0	0	0	15722	536	19	1	1740	1	TCF7L1	2	85536512	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	867991	85536512	157662861	209	72867											
GGCX	2677	broad.mit.edu	37	chr2	85779652	85779652	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcatattgcttcagcatGtctgcatgatccttccatcg	7	14	9	11	1	2	1	1	1	1	0	5	1	4	1	2	1	3	4	2	1	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:85779652G>A	uc002sps.2	-	10	1432	c.1326C>T	c.(1324-1326)GAC>GAT	p.D442D	GGCX_uc010yss.1_Silent_p.D281D|GGCX_uc010yst.1_Silent_p.D385D	NM_000821	NP_000812	P38435	VKGC_HUMAN	gamma-glutamyl carboxylase isoform 1	442	Lumenal (Potential).				blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification	endoplasmic reticulum membrane|integral to membrane|membrane fraction	gamma-glutamyl carboxylase activity			ovary(1)	1					Anisindione(DB01125)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Drotrecogin alfa(DB00055)|L-Glutamic Acid(DB00142)|Menadione(DB00170)|Phytonadione(DB01022)	GCTTCAGCATGTCTGCATGAT	0.478											OREG0014747	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	105	141					0	0	0.01441	0	0		A	85779652	A	A	85779652	2	1	134	1	0	0	0	0	0	0	0	1	6371	1368	48	4		4	GGCX	2	85779652	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	243140	85779652	157419721	210	72868											
POLR1A	25885	broad.mit.edu	37	chr2	86266558	86266558	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgggtgtcttgatgttggcGctggccaccatgagaatctc	7	12	13	9	1	2	2	0	2	2	1	3	3	2	2	2	3	0	2	2	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:86266558G>A	uc002sqs.2	-	26	4147	c.3768C>T	c.(3766-3768)AGC>AGT	p.S1256S	POLR1A_uc010ytb.1_Silent_p.S622S|POLR1A_uc002sqt.1_Silent_p.S279S	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	1256					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						TGATGTTGGCGCTGGCCACCA	0.522													12	532					0	0	0.00245	0	0		A	86266558	A	A	86266558	2	1	134	1	0	0	0	0	0	0	0	1	12228	1078	38	1		1	POLR1A	2	86266558	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	486906	86266558	156932815	211	72869											
TEKT4	150483	broad.mit.edu	37	chr2	95537771	95537771	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacctgcagtgccgtgagcgCcgcgagcaccccaacctcgt	8	5	11	17	5	0	1	0	1	0	0	1	2	0	1	6	0	6	2	6	0	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:95537771C>T	uc002stw.1	+	1	540	c.447C>T	c.(445-447)CGC>CGT	p.R149R	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	149	Potential.				cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						GCCGTGAGCGCCGCGAGCACC	0.657													6	6					0	0	0.001168	0	0		T	95537771	T	T	95537771	2	4	134	1	0	0	0	0	0	0	0	1	15780	726	26	2		2	TEKT4	2	95537771	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	9271213	95537771	147661602	212	72870											
SNRNP200	23020	broad.mit.edu	37	chr2	96956125	96956125	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatgtcaggaagctttgaaAccatctggctttcaatagga	12	11	10	8	0	3	1	2	1	1	0	3	3	3	3	1	3	2	3	1	3	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:96956125A>G	uc002svu.2	-	20	2767	c.2681T>C	c.(2680-2682)GTT>GCT	p.V894A	SNRNP200_uc002svw.1_5'Flank	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	894	Helicase C-terminal 1.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						AAGCTTTGAAACCATCTGGCT	0.478													93	193					0	0	0.01441	0	0		G	96956125	G	G	96956125	3	3	134	1	0	0	0	0	1	0	0	0	14877	43	2	3	3833	3	SNRNP200	2	96956125	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1418354	96956125	146243248	213	72871											
FER1L5	90342	broad.mit.edu	37	chr2	97368419	97368419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggccgacttcaactggCggttcatctttaccatggac	8	10	12	11	2	3	0	2	0	1	0	3	3	3	2	2	5	2	1	2	5	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:97368419C>T	uc010fia.2	+	47	5446	c.5446C>T	c.(5446-5448)CGG>TGG	p.R1816W	FER1L5_uc002sws.3_Missense_Mutation_p.R525W|FER1L5_uc002swt.3_Missense_Mutation_p.R525W|FER1L5_uc010yus.1_Missense_Mutation_p.R524W	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1816	C2 6.					integral to membrane				ovary(1)	1						CTTCAACTGGCGGTTCATCTT	0.587													4	18					0	0	0.009096	0	0		T	97368419	T	T	97368419	3	4	134	1	0	0	0	0	1	0	0	0	5828	759	27	1	5632	1	FER1L5	2	97368419	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	412294	97368419	145830954	214	72872											
ZAP70	7535	broad.mit.edu	37	chr2	98354255	98354255	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtggccgctcaagtggtaCgcacccgaatgcatcaactt	11	8	10	12	3	2	0	2	0	0	0	2	1	2	0	2	2	3	4	2	2	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:98354255C>T	uc002syd.1	+	12	1725	c.1518C>T	c.(1516-1518)TAC>TAT	p.Y506Y	ZAP70_uc002sye.1_Silent_p.Y396Y|ZAP70_uc002syf.1_Silent_p.Y199Y	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	506	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						TCAAGTGGTACGCACCCGAAT	0.632													79	164					0	0	0.01441	0	0		T	98354255	T	T	98354255	2	4	134	1	0	0	0	0	0	0	0	1	17540	547	19	1		1	ZAP70	2	98354255	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	985836	98354255	144845118	215	72873											
TSGA10	80705	broad.mit.edu	37	chr2	99695187	99695187	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttatccaaacatgcttgcaGgcattccttttctttagcca	9	16	5	11	0	1	0	0	0	1	0	3	0	3	0	3	1	4	3	3	1	3	8	rs17852533		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:99695187G>T	uc002szg.3	-	10	1445	c.817C>A	c.(817-819)CTG>ATG	p.L273M	TSGA10_uc002szh.3_Missense_Mutation_p.L273M|TSGA10_uc002szi.3_Missense_Mutation_p.L273M|TSGA10_uc010fin.1_Missense_Mutation_p.L273M|TSGA10_uc010yvn.1_Missense_Mutation_p.L273M	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	273				L -> M (in Ref. 5; AAH28366).	spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						CATGCTTGCAGGCATTCCTTT	0.378													50	78					1.47857e-17	1.68168e-17	0.01441	1	0		T	99695187	T	T	99695187	3	4	134	1	0	0	0	0	1	0	0	0	16643	991	35	5	1319	5	TSGA10	2	99695187	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1340932	99695187	143504186	216	72874											
C2orf15	150590	broad.mit.edu	37	chr2	99767017	99767017	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcacatttgttcagctaTcctaatgggattttcactta	9	18	5	9	0	3	0	3	0	0	0	4	1	4	1	1	1	1	2	1	1	3	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:99767017T>C	uc002szk.2	+	4	497	c.98T>C	c.(97-99)ATC>ACC	p.I33T	TSGA10_uc002szi.3_Intron|MRPL30_uc002szl.1_Intron	NM_144706	NP_653307	Q8WU43	CB015_HUMAN	hypothetical protein LOC150590	33											0						TGTTCAGCTATCCTAATGGGA	0.328													4	93					0	0	0.000602	0	0		C	99767017	C	C	99767017	3	2	134	1	0	0	0	0	1	0	0	0	2159	1435	50	3	104	3	C2orf15	2	99767017	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	71830	99767017	143432356	217	72875											
EIF5B	9669	broad.mit.edu	37	chr2	99978135	99978135	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggaagctgaaagaaaaagaAgagttagaaacaggtaaaaa	23	4	11	3	1	0	5	0	1	0	4	0	6	0	6	0	2	2	3	0	2	10	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:99978135A>G	uc002tab.2	+	4	955	c.771A>G	c.(769-771)GAA>GAG	p.E257E		NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	257					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						AAGAAAAAGAAGAGTTAGAAA	0.378													3	129					0	0	0.004672	0	0		G	99978135	G	G	99978135	2	3	134	1	0	0	0	0	0	0	0	1	5052	69	3	3		3	EIF5B	2	99978135	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	211118	99978135	143221238	218	72876											
NPAS2	4862	broad.mit.edu	37	chr2	101565870	101565870	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgccatcttctcagaggcAgcttgaacccaaaggaattt	12	11	8	10	0	2	2	1	1	2	1	3	3	2	3	2	2	3	2	2	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:101565870A>G	uc002tap.1	+	7	812	c.526A>G	c.(526-528)AGC>GGC	p.S176G	NPAS2_uc010yvt.1_Missense_Mutation_p.S241G	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	176					central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						TCTCAGAGGCAGCTTGAACCC	0.388													6	108					0	0	0.00308	0	0		G	101565870	G	G	101565870	3	3	134	1	0	0	0	0	1	0	0	0	10582	188	7	3	548	3	NPAS2	2	101565870	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1587735	101565870	141633503	219	72877											
MAP4K4	9448	broad.mit.edu	37	chr2	102476242	102476242	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcactcgcagcagccgccAccaccgcagcaggaaaggag	12	1	12	16	3	0	0	0	0	0	0	1	2	0	2	4	2	4	5	4	2	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:102476242A>G	uc002tbg.2	+	15	1675	c.1620A>G	c.(1618-1620)CCA>CCG	p.P540P	MAP4K4_uc002tbc.2_Silent_p.P540P|MAP4K4_uc002tbd.2_Silent_p.P509P|MAP4K4_uc002tbe.2_Silent_p.P509P|MAP4K4_uc002tbf.2_Silent_p.P509P|MAP4K4_uc010yvy.1_Silent_p.P509P|MAP4K4_uc002tbh.2_Silent_p.P509P|MAP4K4_uc002tbi.2_Silent_p.P393P|MAP4K4_uc010yvz.1_Silent_p.P489P|MAP4K4_uc002tbk.2_Silent_p.P49P|MAP4K4_uc002tbj.1_Silent_p.P405P	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	540					intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						AGCAGCCGCCACCACCGCAGC	0.592													4	7					0	0	0.001168	0	0		G	102476242	G	G	102476242	2	3	134	1	0	0	0	0	0	0	0	1	9280	146	6	3		3	MAP4K4	2	102476242	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	910372	102476242	140723131	220	72878											
UXS1	80146	broad.mit.edu	37	chr2	106717534	106717534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggttgaccgggctgctgaCgttgctgttcatgagagcca	7	10	14	10	2	1	3	1	3	0	1	1	4	1	3	2	2	3	6	2	2	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:106717534C>T	uc002tdm.2	-	12	1047	c.949G>A	c.(949-951)GTC>ATC	p.V317I	UXS1_uc002tdl.2_Missense_Mutation_p.V149I|UXS1_uc002tdn.2_Missense_Mutation_p.V322I|UXS1_uc002tdo.2_Missense_Mutation_p.V260I|UXS1_uc010ywh.1_Missense_Mutation_p.V161I	NM_025076	NP_079352	Q8NBZ7	UXS1_HUMAN	UDP-glucuronate decarboxylase 1	317	Lumenal (Potential).				cellular metabolic process	Golgi cisterna membrane|integral to membrane	coenzyme binding|UDP-glucuronate decarboxylase activity			ovary(2)	2						GGGCTGCTGACGTTGCTGTTC	0.552													33	71					0	0	0.004289	0	0		T	106717534	T	T	106717534	3	4	134	1	0	0	0	0	1	0	0	0	17135	536	19	1	329	1	UXS1	2	106717534	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4241292	106717534	136481839	221	72879											
SULT1C4	27233	broad.mit.edu	37	chr2	108994805	108994805	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacactaatggccttacaCgacatggaggattttacatt	12	13	7	9	1	0	0	0	0	0	0	0	3	0	2	1	3	3	0	1	3	4	6	rs144464562		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:108994805C>T	uc002tea.1	+	1	385	c.12C>T	c.(10-12)CAC>CAT	p.H4H	SULT1C4_uc002tdz.2_Silent_p.H4H|SULT1C4_uc010ywr.1_RNA|SULT1C4_uc002teb.1_Silent_p.H4H	NM_006588	NP_006579	O75897	ST1C4_HUMAN	sulfotransferase family, cytosolic, 1C, member	4					3'-phosphoadenosine 5'-phosphosulfate metabolic process|sulfation|xenobiotic metabolic process	cytosol	sulfotransferase activity				0						TGGCCTTACACGACATGGAGG	0.448													136	265					0	0	0.01441	0	0		T	108994805	T	T	108994805	2	4	134	1	0	0	0	0	0	0	0	1	15404	535	19	1		1	SULT1C4	2	108994805	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2277271	108994805	134204568	222	72880											
ANAPC1	64682	broad.mit.edu	37	chr2	112601029	112601029	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgtgttataacccatcAtgttcatgagacaagtcaca	12	12	8	9	0	4	1	3	1	1	1	4	2	4	1	1	1	1	2	1	1	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:112601029A>G	uc002thi.2	-	17	2247	c.2000T>C	c.(1999-2001)ATG>ACG	p.M667T		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	667					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						ATAACCCATCATGTTCATGAG	0.378													35	72					0	0	0.004289	0	0		G	112601029	G	G	112601029	3	3	134	1	0	0	0	0	1	0	0	0	598	217	8	3	3962	3	ANAPC1	2	112601029	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3606224	112601029	130598344	223	72881											
ANAPC1	64682	broad.mit.edu	37	chr2	112621311	112621311	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagactgggtgatgaggtTgagcgactctggctgtgaat	8	12	16	5	1	1	5	0	4	1	1	1	6	1	5	0	3	1	3	0	3	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:112621311T>C	uc002thi.2	-	9	1240	c.993A>G	c.(991-993)TCA>TCG	p.S331S		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	331					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						GTGATGAGGTTGAGCGACTCT	0.473													44	85					0	0	0.01441	0	0		C	112621311	C	C	112621311	2	2	134	1	0	0	0	0	0	0	0	1	598	1799	63	3		3	ANAPC1	2	112621311	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	20282	112621311	130578062	224	72882											
IL1F9	56300	broad.mit.edu	37	chr2	113742478	113742478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacccttccttttctaccGtgccaagactggtaggacct	9	11	8	13	1	1	1	0	0	1	1	2	3	2	2	5	2	3	1	5	2	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:113742478G>A	uc002tio.1	+	5	431	c.362G>A	c.(361-363)CGT>CAT	p.R121H	IL1F9_uc010fkr.1_Missense_Mutation_p.R86H	NM_019618	NP_062564	Q9NZH8	IL36G_HUMAN	interleukin 1 family, member 9	121					cell-cell signaling	extracellular space	cytokine activity|interleukin-1 receptor antagonist activity				0						CTTTTCTACCGTGCCAAGACT	0.512													70	144					0	0	0.01441	0	0		A	113742478	A	A	113742478	3	1	134	1	0	0	0	0	1	0	0	0	7673	1145	40	1	376	1	IL1F9	2	113742478	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1121167	113742478	129456895	225	72883											
SLC35F5	80255	broad.mit.edu	37	chr2	114512832	114512832	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctgcgctgagtgaaaccActgttctgggaattcattcg	8	11	11	11	3	2	2	1	2	1	0	3	3	2	3	2	1	2	2	2	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:114512832A>G	uc002tku.1	-	3	607	c.183T>C	c.(181-183)AGT>AGC	p.S61S	SLC35F5_uc002tkt.2_RNA|SLC35F5_uc002tkv.2_Silent_p.S55S|SLC35F5_uc002tkw.2_Silent_p.S61S	NM_025181	NP_079457	Q8WV83	S35F5_HUMAN	solute carrier family 35, member F5	61					transport	integral to membrane					0						GAGTGAAACCACTGTTCTGGG	0.393													26	78					0	0	0.005443	0	0		G	114512832	G	G	114512832	2	3	134	1	0	0	0	0	0	0	0	1	14617	156	6	3		3	SLC35F5	2	114512832	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	770354	114512832	128686541	226	72884											
DPP10	57628	broad.mit.edu	37	chr2	116520172	116520172	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagatgacatcagatacgTggctctctcagcaggtacag	12	9	11	9	1	3	3	2	2	1	2	4	4	3	3	0	2	3	3	0	2	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:116520172T>C	uc002tla.1	+	12	1556	c.1099T>C	c.(1099-1101)TGG>CGG	p.W367R	DPP10_uc002tlb.1_Missense_Mutation_p.W317R|DPP10_uc002tlc.1_Missense_Mutation_p.W363R|DPP10_uc002tle.2_Missense_Mutation_p.W371R|DPP10_uc002tlf.1_Missense_Mutation_p.W360R	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	367	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						ATCAGATACGTGGCTCTCTCA	0.343													83	162					0	0	0.01441	0	0		C	116520172	C	C	116520172	3	2	134	1	0	0	0	0	1	0	0	0	4733	1696	59	3	1316	3	DPP10	2	116520172	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2007340	116520172	126679201	227	72885											
INHBB	3625	broad.mit.edu	37	chr2	121103981	121103981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctcggccgagtggacggcGacttcctggaggcggtgaag	7	6	18	10	5	0	1	0	1	0	0	2	5	1	3	2	6	1	1	2	6	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:121103981G>A	uc002tmn.2	+	1	263	c.217G>A	c.(217-219)GAC>AAC	p.D73N		NM_002193	NP_002184	P09529	INHBB_HUMAN	inhibin beta B subunit preproprotein	73					activin receptor signaling pathway|cellular response to insulin stimulus|cellular response to starvation|defense response|fat cell differentiation|growth|negative regulation of follicle-stimulating hormone secretion|negative regulation of hepatocyte growth factor biosynthetic process|negative regulation of insulin secretion|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation	extracellular region|perinuclear region of cytoplasm	cytokine activity|growth factor activity|hormone activity|host cell surface receptor binding|protein homodimerization activity			pancreas(2)|skin(1)	3		Prostate(154;0.122)				AGTGGACGGCGACTTCCTGGA	0.647													3	10					0	0	0.004672	0	0		A	121103981	A	A	121103981	3	1	134	1	0	0	0	0	1	0	0	0	7758	1058	37	1	219	1	INHBB	2	121103981	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4583809	121103981	122095392	228	72886											
CNTNAP5	129684	broad.mit.edu	37	chr2	125192170	125192170	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaagttcaagagcatgcaAggagatggggtcctgttcca	11	9	13	8	0	1	3	1	1	0	2	3	4	3	3	2	3	2	4	2	3	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:125192170A>T	uc002tno.2	+	5	1003	c.639A>T	c.(637-639)CAA>CAT	p.Q213H	CNTNAP5_uc010flu.2_Missense_Mutation_p.Q213H	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	213	Laminin G-like 1.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		AGAGCATGCAAGGAGATGGGG	0.507													42	65					0	0	0.007835	0	0		T	125192170	T	T	125192170	3	4	134	1	0	0	0	0	1	0	0	0	3653	69	3	5	657	5	CNTNAP5	2	125192170	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4088189	125192170	118007203	229	72887											
CYP27C1	339761	broad.mit.edu	37	chr2	127952980	127952980	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgcagttggaacatgcCtttcccctaaattcttcaca	10	12	6	13	0	2	0	1	0	1	0	3	1	3	1	3	1	4	3	3	1	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:127952980C>A	uc002tod.2	-	5	781	c.650G>T	c.(649-651)AGG>ATG	p.R217M		NM_001001665	NP_001001665	Q4G0S4	C27C1_HUMAN	cytochrome P450, family 27, subfamily C,	217						membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.071)		TGGAACATGCCTTTCCCCTAA	0.532													46	62					5.2432e-18	5.97357e-18	0.01441	1	0		A	127952980	A	A	127952980	3	1	134	1	0	0	0	0	1	0	0	0	4163	681	24	5	484	5	CYP27C1	2	127952980	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2760810	127952980	115246393	230	72888											
PROC	5624	broad.mit.edu	37	chr2	128186037	128186037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaccaccgacaatgacatcGcactgctgcacctggcccag	10	5	9	17	2	0	1	0	1	0	0	1	2	0	1	4	1	2	4	4	1	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:128186037G>A	uc002tok.2	+	9	974	c.901G>A	c.(901-903)GCA>ACA	p.A301T	PROC_uc002tol.2_Missense_Mutation_p.A322T|PROC_uc010yzi.1_Missense_Mutation_p.A357T|PROC_uc010yzj.1_Missense_Mutation_p.A196T|PROC_uc010yzk.1_Missense_Mutation_p.A356T|PROC_uc002tom.2_Missense_Mutation_p.A335T	NM_000312	NP_000303	P04070	PROC_HUMAN	protein C	301	Peptidase S1.		A -> V (in patients with PROC deficiency).|A -> T (in patients with PROC deficiency).		blood coagulation|leukocyte migration|negative regulation of apoptosis|negative regulation of blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|protein binding|serine-type endopeptidase activity				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0673)	Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)|Sodium Tetradecyl Sulfate(DB00464)	CAATGACATCGCACTGCTGCA	0.637													49	95					0	0	0.01441	0	0		A	128186037	A	A	128186037	3	1	134	1	0	0	0	0	1	0	0	0	12567	1087	38	1	931	1	PROC	2	128186037	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	233057	128186037	115013336	231	72889											
LIMS2	55679	broad.mit.edu	37	chr2	128400603	128400603	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcagatgtacttgcccAggcccttggccttctcacgg	5	10	12	14	1	1	1	1	0	1	1	2	1	1	1	3	4	2	3	3	4	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:128400603A>G	uc002tpa.2	-	5	570	c.404T>C	c.(403-405)CTG>CCG	p.L135P	LIMS2_uc002tou.2_5'Flank|LIMS2_uc002tov.2_5'UTR|LIMS2_uc002tow.2_5'UTR|LIMS2_uc002tox.2_Missense_Mutation_p.L159P|LIMS2_uc010fmb.2_Missense_Mutation_p.L45P|LIMS2_uc002toy.2_Missense_Mutation_p.L130P|LIMS2_uc010yzm.1_Missense_Mutation_p.L157P|LIMS2_uc002toz.2_Missense_Mutation_p.L130P|LIMS2_uc002tpb.2_Missense_Mutation_p.L130P|GPR17_uc010yzn.1_5'Flank|GPR17_uc002tpc.2_5'Flank|GPR17_uc010yzo.1_5'Flank|GPR17_uc002tpd.2_5'Flank	NM_001161403	NP_001154875	Q7Z4I7	LIMS2_HUMAN	LIM and senescent cell antigen-like domains 2	135					cell junction assembly	cytosol|focal adhesion|nucleus	zinc ion binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0681)		GTACTTGCCCAGGCCCTTGGC	0.657													7	3					0	0	0.00308	0	0		G	128400603	G	G	128400603	3	3	134	1	0	0	0	0	1	0	0	0	8820	188	7	3	645	3	LIMS2	2	128400603	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	214566	128400603	114798770	232	72890											
SAP130	79595	broad.mit.edu	37	chr2	128712741	128712741	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaatggttgaaagggcaacGgctggttgtgacgggggact	9	8	19	5	2	0	2	0	2	0	0	0	4	0	4	0	7	1	4	0	7	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:128712741G>A	uc002tpp.2	-	15	2346	c.2214C>T	c.(2212-2214)GCC>GCT	p.A738A	SAP130_uc002tpn.2_Silent_p.A498A|SAP130_uc002tpo.2_Silent_p.A518A|SAP130_uc010fmd.2_Silent_p.A773A|SAP130_uc002tpq.1_Silent_p.A746A	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	738	Pro-rich.				histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		AAAGGGCAACGGCTGGTTGTG	0.577													41	55					0	0	0.01441	0	0		A	128712741	A	A	128712741	2	1	134	1	0	0	0	0	0	0	0	1	13856	1103	39	1		1	SAP130	2	128712741	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	312138	128712741	114486632	233	72891											
CCDC74B	91409	broad.mit.edu	37	chr2	130897150	130897150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaccgagcgatgcaggCgccgtttctgcattgcctgc	8	8	12	13	4	1	0	0	0	1	0	1	2	1	0	3	1	6	4	3	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:130897150C>T	uc002tqm.1	-	8	1183	c.1121G>A	c.(1120-1122)CGC>CAC	p.R374H	CCDC74B_uc010yzw.1_Missense_Mutation_p.R476H|CCDC74B_uc002tqn.1_Missense_Mutation_p.R308H	NM_207310	NP_997193	Q96LY2	CC74B_HUMAN	coiled-coil domain containing 74B	374											0	Colorectal(110;0.1)					GCGATGCAGGCGCCGTTTCTG	0.597													10	31					0	0	0.013537	0	0		T	130897150	T	T	130897150	3	4	134	1	0	0	0	0	1	0	0	0	2851	768	27	1	25	1	CCDC74B	2	130897150	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2184409	130897150	112302223	234	72892											
TUBA3E	112714	broad.mit.edu	37	chr2	130951615	130951615	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgtaggtggccagggggAagtggatgcgggggtacggc	6	5	24	6	3	0	0	0	0	0	0	0	2	0	2	1	9	2	2	1	9	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:130951615A>G	uc002tqv.2	-	4	901	c.800T>C	c.(799-801)TTC>TCC	p.F267S		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	267					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					GGCCAGGGGGAAGTGGATGCG	0.602													74	247					0	0	0.01441	0	0		G	130951615	G	G	130951615	3	3	134	1	0	0	0	0	1	0	0	0	16774	246	9	3	560	3	TUBA3E	2	130951615	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	54465	130951615	112247758	235	72893											
NCKAP5	344148	broad.mit.edu	37	chr2	133542601	133542601	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacttttctcatcactgcTctctatgtgcagctcatcaa	9	14	6	12	0	5	0	4	0	2	0	7	1	5	1	0	1	3	3	0	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:133542601T>A	uc002ttp.2	-	14	2157	c.1783A>T	c.(1783-1785)AGC>TGC	p.S595C	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	595							protein binding				0						TCATCACTGCTCTCTATGTGC	0.527													22	73					0	0	0.012319	0	0		A	133542601	A	A	133542601	3	1	134	1	0	0	0	0	1	0	0	0	10242	1551	54	5	3974	5	NCKAP5	2	133542601	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2590986	133542601	109656772	236	72894											
THSD7B	80731	broad.mit.edu	37	chr2	138208468	138208468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catttgattgcaagttaagcGattggtctagttgggggtct	8	15	13	5	1	2	1	0	1	2	0	2	2	2	1	0	3	2	3	0	3	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:138208468G>A	uc002tva.1	+	14	2920	c.2920G>A	c.(2920-2922)GAT>AAT	p.D974N	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CAAGTTAAGCGATTGGTCTAG	0.388													27	49					0	0	0.009535	0	0		A	138208468	A	A	138208468	3	1	134	1	0	0	0	0	1	0	0	0	15905	1058	37	1	2974	1	THSD7B	2	138208468	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4665867	138208468	104990905	237	72895											
LRP1B	53353	broad.mit.edu	37	chr2	141115624	141115624	+	Frame_Shift_Del	DEL	T	-	-																															tggagatccatagggatgcaTtttttattactacaagcaaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:141115624delT	uc002tvj.1	-	74	12291	c.11319delA	c.(11317-11319)AAAfs	p.K3773fs		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3773	Extracellular (Potential).|LDL-receptor class A 32.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TAGGGATGCATTTTTTATTAC	0.388										TSP Lung(27;0.18)			83	138	---	---	---	---						.	-	141115624	-	-	141115624	7	5	134	1	0	1	0	1	0	0	0	0	8973	1490	52	0	2552	0	LRP1B	2	141115624	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	2907156	141115624	102083749	238	72896											
LRP1B	53353	broad.mit.edu	37	chr2	141458106	141458106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttctgccaaatatccatggGcacaagcacaagttctccgg	11	9	8	13	1	2	0	0	0	2	0	4	0	3	0	3	2	2	3	3	2	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:141458106G>A	uc002tvj.1	-	41	7484	c.6512C>T	c.(6511-6513)GCC>GTC	p.A2171V		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2171	Extracellular (Potential).|EGF-like 5.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATATCCATGGGCACAAGCACA	0.408										TSP Lung(27;0.18)			10	307					0	0	0.006214	0	0		A	141458106	A	A	141458106	3	1	134	1	0	0	0	0	1	0	0	0	8973	1203	42	2	7491	2	LRP1B	2	141458106	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	342482	141458106	101741267	239	72897											
KYNU	8942	broad.mit.edu	37	chr2	143798151	143798151	+	Frame_Shift_Del	DEL	G	-	-																															tccgtctcatgtagaggagcGggggtgccagctaacaataa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:143798151delG	uc002tvl.2	+	13	1326	c.1196delG	c.(1195-1197)CGGfs	p.R399fs	KYNU_uc010fnm.2_Frame_Shift_Del_p.R399fs	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	399					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	GTAGAGGAGCGGGGGTGCCAG	0.408													42	94	---	---	---	---						.	-	143798151	-	-	143798151	7	5	134	1	0	1	0	1	0	0	0	0	8603	1116	39	0	1268	0	KYNU	2	143798151	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	2340045	143798151	99401222	240	72898											
ZEB2	9839	broad.mit.edu	37	chr2	145156685	145156685	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcgttgttcaaaccatTccttcacaaattcctgagga	10	15	5	11	1	2	1	2	1	0	0	5	2	4	2	3	1	1	2	3	1	2	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:145156685T>C	uc002tvu.2	-	8	2549	c.2069A>G	c.(2068-2070)GAA>GGA	p.E690G	ZEB2_uc002tvv.2_Missense_Mutation_p.E684G|ZEB2_uc010zbm.1_Missense_Mutation_p.E661G|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.E719G	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	690	Homeobox; atypical.					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TTCAAACCATTCCTTCACAAA	0.468													73	176					0	0	0.01441	0	0		C	145156685	C	C	145156685	3	2	134	1	0	0	0	0	1	0	0	0	17649	1783	62	3	1587	3	ZEB2	2	145156685	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1358534	145156685	98042688	241	72899											
KIF5C	3800	broad.mit.edu	37	chr2	149861973	149861973	+	Frame_Shift_Del	DEL	A	-	-																															aggatctgaccacccgagttAaaaaagtgagttctctttgt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:149861973delA	uc010zbu.1	+	22	2808	c.2440delA	c.(2440-2442)AAAfs	p.K814fs	KIF5C_uc002tws.1_RNA|KIF5C_uc002twu.1_Frame_Shift_Del_p.K96fs	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	814					microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		CACCCGAGTTAAAAAAGTGAG	0.423													16	36	---	---	---	---						.	-	149861973	-	-	149861973	7	5	134	1	0	1	0	1	0	0	0	0	8323	363	13	0	2448	0	KIF5C	2	149861973	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	4705288	149861973	93337400	242	72900											
GPD2	2820	broad.mit.edu	37	chr2	157425876	157425876	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatcaatttctttataggTggaaagtggacaacttatcg	12	15	8	6	1	3	0	1	0	2	0	4	2	3	2	0	3	1	0	0	3	7	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:157425876T>C	uc002tzf.3	+	11	1662	c.1302T>C	c.(1300-1302)GGT>GGC	p.G434G	GPD2_uc010zch.1_Silent_p.G207G|GPD2_uc002tzd.3_Silent_p.G434G|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	434					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						TCTTTATAGGTGGAAAGTGGA	0.343													41	75					0	0	0.013114	0	0		C	157425876	C	C	157425876	2	2	134	1	0	0	0	0	0	0	0	1	6621	1710	59	3		3	GPD2	2	157425876	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	7563903	157425876	85773497	243	72901											
ACVR1	90	broad.mit.edu	37	chr2	158634684	158634684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attggtggtgatgagcccttCgatagtgccatactccacgt	8	12	11	10	2	0	2	0	2	0	0	2	3	1	2	3	2	3	0	3	2	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:158634684C>T	uc002tzm.3	-	6	841	c.502G>A	c.(502-504)GAA>AAA	p.E168K	ACVR1_uc002tzn.3_Missense_Mutation_p.E168K|ACVR1_uc010fog.2_Missense_Mutation_p.E168K	NM_001111067	NP_001104537	Q04771	ACVR1_HUMAN	activin A receptor, type I precursor	168	Cytoplasmic (Potential).				BMP signaling pathway|G1/S transition of mitotic cell cycle|negative regulation of activin receptor signaling pathway|negative regulation of apoptosis|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	activin receptor complex	activin binding|ATP binding|follistatin binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta binding			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.104)	Adenosine triphosphate(DB00171)	ATGAGCCCTTCGATAGTGCCA	0.498													31	55					0	0	0.003271	0	0		T	158634684	T	T	158634684	3	4	134	1	0	0	0	0	1	0	0	0	220	893	31	1	1055	1	ACVR1	2	158634684	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1208808	158634684	84564689	244	72902											
TANC1	85461	broad.mit.edu	37	chr2	160019872	160019872	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaagatggaaacctaagatTaggggttcagaagggagtgc	15	8	14	4	0	1	3	1	0	0	3	1	5	1	5	1	4	2	1	1	4	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:160019872T>C	uc002uag.2	+	8	1035	c.761T>C	c.(760-762)TTA>TCA	p.L254S	TANC1_uc010fol.1_Missense_Mutation_p.L148S|TANC1_uc010zcm.1_Missense_Mutation_p.L253S|TANC1_uc010fom.1_Intron	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	254						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						AACCTAAGATTAGGGGTTCAG	0.493													6	158					0	0	0.001168	0	0		C	160019872	C	C	160019872	3	2	134	1	0	0	0	0	1	0	0	0	15569	1764	61	3	783	3	TANC1	2	160019872	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1385188	160019872	83179501	245	72903											
TANC1	85461	broad.mit.edu	37	chr2	160031474	160031474	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccccctaggtggtggcctAccactactgccaggctgaca	7	9	10	15	0	0	1	0	1	0	0	1	1	1	1	5	4	3	1	5	4	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:160031474A>G	uc002uag.2	+	12	1788	c.1514A>G	c.(1513-1515)TAC>TGC	p.Y505C	TANC1_uc010fol.1_Missense_Mutation_p.Y399C|TANC1_uc010zcm.1_Missense_Mutation_p.Y497C|TANC1_uc010fom.1_Missense_Mutation_p.Y311C|TANC1_uc002uai.1_5'Flank	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	505						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						GTGGTGGCCTACCACTACTGC	0.577													8	556					0	0	0.006214	0	0		G	160031474	G	G	160031474	3	3	134	1	0	0	0	0	1	0	0	0	15569	391	14	3	1552	3	TANC1	2	160031474	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	11602	160031474	83167899	246	72904											
XIRP2	129446	broad.mit.edu	37	chr2	168104267	168104267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atctgctggtaaaaccgttgGaaagcaacagacatatgaac	16	8	9	8	1	1	2	0	1	1	1	1	3	1	3	1	2	5	4	1	2	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:168104267G>A	uc002udx.2	+	8	6383	c.6365G>A	c.(6364-6366)GGA>GAA	p.G2122E	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.G1947E|XIRP2_uc010fpq.2_Missense_Mutation_p.G1900E|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'UTR	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1947					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAAACCGTTGGAAAGCAACAG	0.348													50	75					0	0	0.01441	0	0		A	168104267	A	A	168104267	3	1	134	1	0	0	0	0	1	0	0	0	17456	1174	41	4	6395	4	XIRP2	2	168104267	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	8072793	168104267	75095106	247	72905											
XIRP2	129446	broad.mit.edu	37	chr2	168107832	168107832	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctgtcagagcacacacaGagatatgaagcggccaaccg	13	4	11	13	3	1	3	1	1	0	2	1	4	1	3	3	1	3	1	3	1	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:168107832G>T	uc002udx.2	+	8	9948	c.9930G>T	c.(9928-9930)CAG>CAT	p.Q3310H	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.Q3135H|XIRP2_uc010fpq.2_Missense_Mutation_p.Q3088H|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3135					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGCACACACAGAGATATGAAG	0.458													92	132					4.64247e-43	5.51722e-43	0.01441	1	0		T	168107832	T	T	168107832	3	4	134	1	0	0	0	0	1	0	0	0	17456	933	33	5	9960	5	XIRP2	2	168107832	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3565	168107832	75091541	248	72906											
ABCB11	8647	broad.mit.edu	37	chr2	169828384	169828384	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtccatgatgaagttgtaGgcattggcctccttggcagc	8	11	13	9	0	0	2	0	2	0	0	2	2	2	2	3	4	1	4	3	4	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:169828384G>T	uc002ueo.1	-	14	1737	c.1611C>A	c.(1609-1611)GCC>GCA	p.A537A	ABCB11_uc010zda.1_5'UTR|ABCB11_uc010zdb.1_Silent_p.A13A	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	537	Cytoplasmic (Potential).|ABC transporter 1.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	TGAAGTTGTAGGCATTGGCCT	0.448													22	55					3.28513e-13	3.69462e-13	0.003954	1	0		T	169828384	T	T	169828384	2	4	134	1	0	0	0	0	0	0	0	1	42	987	35	5		5	ABCB11	2	169828384	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1720552	169828384	73370989	249	72907											
LRP2	4036	broad.mit.edu	37	chr2	170134319	170134319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagtcaacccagtaaacacGcttcgatatcatatccagag	15	8	7	11	2	2	2	2	0	0	2	4	3	3	2	2	0	2	2	2	0	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:170134319G>A	uc002ues.2	-	13	1921	c.1708C>T	c.(1708-1710)CGT>TGT	p.R570C	LRP2_uc010zdf.1_Intron	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	570	LDL-receptor class B 4.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CAGTAAACACGCTTCGATATC	0.408													102	142					0	0	0.01441	0	0		A	170134319	A	A	170134319	3	1	134	1	0	0	0	0	1	0	0	0	8974	1087	38	1	12527	1	LRP2	2	170134319	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	305935	170134319	73065054	250	72908											
PPIG	9360	broad.mit.edu	37	chr2	170488344	170488344	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgtccgtccagaagagaTccctcctatacctgaaaata	13	10	6	12	1	0	3	0	1	0	2	4	4	4	3	5	0	2	0	5	0	7	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:170488344T>A	uc002uez.2	+	11	1050	c.830T>A	c.(829-831)ATC>AAC	p.I277N	PPIG_uc010fpx.2_Missense_Mutation_p.I262N|PPIG_uc010fpy.2_Missense_Mutation_p.I270N|PPIG_uc002ufa.2_Missense_Mutation_p.I277N|PPIG_uc002ufb.2_Missense_Mutation_p.I277N|PPIG_uc002ufd.2_Missense_Mutation_p.I274N	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G	277					protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	CCAGAAGAGATCCCTCCTATA	0.328													15	227					0	0	0.003163	0	0		A	170488344	A	A	170488344	3	1	134	1	0	0	0	0	1	0	0	0	12346	1435	50	5	864	5	PPIG	2	170488344	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	354025	170488344	72711029	251	72909											
PHOSPHO2	493911	broad.mit.edu	37	chr2	170558005	170558005	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgaattatacacaaattgTttatattggtgatggtggaa	14	15	10	2	0	0	2	0	2	0	0	0	3	0	3	0	3	1	1	0	3	7	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:170558005T>A	uc002ufg.2	+	4	912	c.524T>A	c.(523-525)GTT>GAT	p.V175D	KLHL23_uc002ufh.1_Intron	NM_001008489	NP_001008489	Q8TCD6	PHOP2_HUMAN	phosphatase, orphan 2	175							metal ion binding|pyridoxal phosphatase activity			skin(1)	1						ACACAAATTGTTTATATTGGT	0.348													8	213					0	0	0.00308	0	0		A	170558005	A	A	170558005	3	1	134	1	0	0	0	0	1	0	0	0	11876	1725	60	5	526	5	PHOSPHO2	2	170558005	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	69661	170558005	72641368	252	72910											
ITGA6	3655	broad.mit.edu	37	chr2	173338908	173338910	+	In_Frame_Del	DEL	CTC	-	-																															gagacatgaagtctgcacatCtcctccctgagcacatattc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:173338908_173338910delCTC	uc002uhp.1	+	6	1104_1106	c.901_903delCTC	c.(901-903)CTCdel	p.L302del	ITGA6_uc010fqk.1_In_Frame_Del_p.L188del|ITGA6_uc010zdy.1_In_Frame_Del_p.L183del|ITGA6_uc002uho.1_In_Frame_Del_p.L302del|ITGA6_uc010fqm.1_5'Flank	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a	341	FG-GAP 5.|Extracellular (Potential).				blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			GTCTGCACATCTCCTCCCTGAGC	0.488													49	87	---	---	---	---						.	-	173338910	-	-	173338908	7	5	134	1	0	1	0	1	0	0	0	0	7896	913	32	0	923	0	ITGA6	2	173338908	In_Frame_Del	DEL	CTC	TCGA-CG-4442-01A-01D-1158-08	2780903	173338908	69860465	253	72911											
HOXD12	3238	broad.mit.edu	37	chr2	176964613	176964613	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gactctttctacttctccaaCctgaggccgaatggcggcca	8	10	9	14	2	3	1	0	1	3	0	4	3	3	1	4	3	2	0	4	3	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:176964613C>T	uc010zev.1	+	1	84	c.84C>T	c.(82-84)AAC>AAT	p.N28N	HOXD12_uc010zew.1_Silent_p.N28N	NM_021193	NP_067016	P35452	HXD12_HUMAN	homeobox D12	28						nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0521)|READ - Rectum adenocarcinoma(9;0.0678)		ACTTCTCCAACCTGAGGCCGA	0.662													64	119					0	0	0.01441	0	0		T	176964613	T	T	176964613	2	4	134	1	0	0	0	0	0	0	0	1	7337	506	18	4		4	HOXD12	2	176964613	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3625705	176964613	66234760	254	72912											
HOXD10	3236	broad.mit.edu	37	chr2	176981694	176981694	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctagcgcagacatggggAcctatggaatgcaaacctgt	12	7	11	11	1	0	1	0	0	0	1	0	3	0	3	3	3	3	2	3	3	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:176981694A>G	uc002ukj.2	+	1	203	c.133A>G	c.(133-135)ACC>GCC	p.T45A		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	45						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		AGACATGGGGACCTATGGAAT	0.468													65	134					0	0	0.01441	0	0		G	176981694	G	G	176981694	3	3	134	1	0	0	0	0	1	0	0	0	7335	275	10	3	135	3	HOXD10	2	176981694	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	17081	176981694	66217679	255	72913											
HNRNPA3	220988	broad.mit.edu	37	chr2	178080823	178080823	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagtatggcaagattgaaAccatagaagttatggaagac	19	8	10	4	0	0	4	0	1	0	3	0	5	0	5	1	2	1	3	1	2	9	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:178080823A>G	uc002ulb.1	+	4	566	c.460A>G	c.(460-462)ACC>GCC	p.T154A	HNRNPA3_uc002ulc.1_Missense_Mutation_p.T154A|HNRNPA3_uc002uld.2_Missense_Mutation_p.T132A|HNRNPA3_uc002ule.2_5'Flank	NM_194247	NP_919223	P51991	ROA3_HUMAN	heterogeneous nuclear ribonucleoprotein A3	154	RRM 2.					catalytic step 2 spliceosome|nucleolus|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(2)	2						CAAGATTGAAACCATAGAAGT	0.323													5	88					0	0	0.000602	0	0		G	178080823	G	G	178080823	3	3	134	1	0	0	0	0	1	0	0	0	7276	43	2	3	474	3	HNRNPA3	2	178080823	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1099129	178080823	65118550	256	72914											
TTN	7273	broad.mit.edu	37	chr2	179399998	179399998	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggtcttatcttctttggTtatggttggttctgaaggct	4	20	11	6	0	5	1	0	1	5	0	5	1	5	1	0	5	0	4	0	5	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:179399998T>C	uc010zfg.1	-	307	93864	c.93640A>G	c.(93640-93642)ACC>GCC	p.T31214A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T24909A|TTN_uc010zfi.1_Missense_Mutation_p.T24842A|TTN_uc010zfj.1_Missense_Mutation_p.T24717A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32141							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTTCTTTGGTTATGGTTGGT	0.408													53	101					0	0	0.01441	0	0		C	179399998	C	C	179399998	3	2	134	1	0	0	0	0	1	0	0	0	16761	1725	60	3	6655	3	TTN	2	179399998	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1319175	179399998	63799375	257	72915											
TTN	7273	broad.mit.edu	37	chr2	179407619	179407619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaccagctctactggtctgCcagctgggacatggatggtc	7	10	12	12	0	3	0	1	0	2	0	4	2	3	2	2	4	4	2	2	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:179407619C>T	uc010zfg.1	-	297	89482	c.89258G>A	c.(89257-89259)GGC>GAC	p.G29753D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G23448D|TTN_uc010zfi.1_Missense_Mutation_p.G23381D|TTN_uc010zfj.1_Missense_Mutation_p.G23256D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30680							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TACTGGTCTGCCAGCTGGGAC	0.458													170	302					0	0	0.01441	0	0		T	179407619	T	T	179407619	3	4	134	1	0	0	0	0	1	0	0	0	16761	739	26	2	11077	2	TTN	2	179407619	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	7621	179407619	63791754	258	72916											
TTN	7273	broad.mit.edu	37	chr2	179451992	179451992	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcttaacttctggggtaaCggtcgaccatgtctttctgt	6	17	9	9	2	4	0	0	0	4	0	5	1	4	0	1	3	2	1	1	3	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:179451992C>T	uc010zfg.1	-	256	56466	c.56242G>A	c.(56242-56244)GTT>ATT	p.V18748I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V12443I|TTN_uc010zfi.1_Missense_Mutation_p.V12376I|TTN_uc010zfj.1_Missense_Mutation_p.V12251I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19675							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTGGGGTAACGGTCGACCAT	0.488													47	95					0	0	0.013114	0	0		T	179451992	T	T	179451992	3	4	134	1	0	0	0	0	1	0	0	0	16761	536	19	1	44257	1	TTN	2	179451992	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	44373	179451992	63747381	259	72917											
TTN	7273	broad.mit.edu	37	chr2	179471746	179471746	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaatgaaaccttctcttttAcctagtggatcaactgcaag	13	12	6	10	0	2	1	1	1	1	0	3	2	2	2	2	1	4	1	2	1	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:179471746A>G	uc010zfg.1	-	227	46101	c.45877_splice	c.e227+1	p.G15293_splice	uc002ump.1_Intron|TTN_uc010zfh.1_Splice_Site_p.G8988_splice|TTN_uc010zfi.1_Splice_Site_p.G8921_splice|TTN_uc010zfj.1_Splice_Site_p.G8796_splice	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A								ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTCTCTTTTACCTAGTGGAT	0.373													43	80					0	0	0.011902	0	0		G	179471746	G	G	179471746	5	3	134	1	0	0	0	0	0	0	1	0	16761	405	14	3	54450	3	TTN	2	179471746	Splice_Site	SNP	A	TCGA-CG-4442-01A-01D-1158-08	19754	179471746	63727627	260	72918											
TTN	7273	broad.mit.edu	37	chr2	179485917	179485917	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgtggcatctttcacaacTaggaccctctttttaccatc	10	14	5	12	0	3	0	1	0	2	0	4	1	3	1	2	2	2	1	2	2	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:179485917T>C	uc010zfg.1	-	195	38048	c.37824A>G	c.(37822-37824)CTA>CTG	p.L12608L	TTN_uc010zfh.1_Silent_p.L6303L|TTN_uc010zfi.1_Silent_p.L6236L|TTN_uc010zfj.1_Silent_p.L6111L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13535							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTTCACAACTAGGACCCTCT	0.433													30	41					0	0	0.010818	0	0		C	179485917	C	C	179485917	2	2	134	1	0	0	0	0	0	0	0	1	16761	1509	53	3		3	TTN	2	179485917	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	14171	179485917	63713456	261	72919											
TTN	7273	broad.mit.edu	37	chr2	179486301	179486301	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatgaccaggattctctTccgtccttcagtcagtattt	8	15	7	11	1	3	2	2	2	1	0	6	3	5	3	3	1	0	1	3	1	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:179486301T>C	uc010zfg.1	-	194	37770	c.37546A>G	c.(37546-37548)AAG>GAG	p.K12516E	TTN_uc010zfh.1_Missense_Mutation_p.K6211E|TTN_uc010zfi.1_Missense_Mutation_p.K6144E|TTN_uc010zfj.1_Missense_Mutation_p.K6019E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13443							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGGATTCTCTTCCGTCCTTCA	0.468													61	83					0	0	0.01441	0	0		C	179486301	C	C	179486301	3	2	134	1	0	0	0	0	1	0	0	0	16761	1792	62	3	62915	3	TTN	2	179486301	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	384	179486301	63713072	262	72920											
TTN	7273	broad.mit.edu	37	chr2	179599675	179599675	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgattcacctgggagcatTaaataagagggatccacctt	12	10	10	9	0	1	2	1	1	0	1	2	4	2	4	3	2	1	2	3	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:179599675T>C	uc010zfg.1	-	48	11468	c.11244A>G	c.(11242-11244)TTA>TTG	p.L3748L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.L409L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4675							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGGGAGCATTAAATAAGAGG	0.403													11	12					0	0	0.010729	0	0		C	179599675	C	C	179599675	2	2	134	1	0	0	0	0	0	0	0	1	16761	1751	61	3		3	TTN	2	179599675	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	113374	179599675	63599698	263	72921											
TTN	7273	broad.mit.edu	37	chr2	179614709	179614709	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtgttttggtgattgagTaacttgatcttgaggcattg	7	18	12	4	0	2	4	0	4	2	0	2	4	2	4	0	2	1	3	0	2	1	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:179614709T>C	uc002unb.2	-	46	12642	c.12418A>G	c.(12418-12420)ACT>GCT	p.T4140A	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGTGATTGAGTAACTTGATCT	0.393													41	71					0	0	0.00874	0	0		C	179614709	C	C	179614709	3	2	134	1	0	0	0	0	1	0	0	0	16761	1638	57	3	97879	3	TTN	2	179614709	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	15034	179614709	63584664	264	72922											
UBE2E3	10477	broad.mit.edu	37	chr2	181846888	181846890	+	In_Frame_Del	DEL	CTT	-	-																															agaacaagaggaaagaaaacCttctgccacccagcagaaga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:181846888_181846890delCTT	uc002unq.1	+	3	338_340	c.119_121delCTT	c.(118-123)CCTTCT>CCT	p.S41del	UBE2E3_uc002unr.1_In_Frame_Del_p.S41del|UBE2E3_uc010fri.1_In_Frame_Del_p.S41del	NM_182678	NP_872619	Q969T4	UB2E3_HUMAN	ubiquitin-conjugating enzyme E2E 3	41					protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|regulation of growth	cytoplasm|nucleolus	ATP binding|protein binding|ubiquitin-protein ligase activity			ovary(1)	1						GAAAGAAAACCTTCTGCCACCCA	0.502													57	95	---	---	---	---						.	-	181846890	-	-	181846888	7	5	134	1	0	1	0	1	0	0	0	0	16880	681	24	0	121	0	UBE2E3	2	181846888	In_Frame_Del	DEL	CTT	TCGA-CG-4442-01A-01D-1158-08	2232179	181846888	61352485	265	72923											
CERKL	375298	broad.mit.edu	37	chr2	182468750	182468751	+	Frame_Shift_Del	DEL	AT	-	-																															ccgtttcagtttcacagagaAtatgtctttgagttcaataa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:182468750_182468751delAT	uc002unx.2	-	2	395_396	c.294_295delAT	c.(292-297)ATATTCfs	p.I98fs	CERKL_uc002uny.2_Frame_Shift_Del_p.I98fs|CERKL_uc010zfm.1_Frame_Shift_Del_p.I98fs|CERKL_uc002unz.2_5'UTR|CERKL_uc002uoa.2_Frame_Shift_Del_p.I98fs|CERKL_uc002uob.2_5'UTR|CERKL_uc002uoc.2_Frame_Shift_Del_p.I98fs|CERKL_uc010frk.2_RNA|CERKL_uc002uod.1_5'UTR|CERKL_uc002uoe.2_Frame_Shift_Del_p.I98fs	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	98_99					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			TTCACAGAGAATATGTCTTTGA	0.302													16	32	---	---	---	---						.	-	182468751	-	-	182468750	7	5	134	1	0	1	0	1	0	0	0	0	3271	101	4	0	1433	0	CERKL	2	182468750	Frame_Shift_Del	DEL	AT	TCGA-CG-4442-01A-01D-1158-08	621862	182468750	60730623	266	72924											
NEUROD1	4760	broad.mit.edu	37	chr2	182543033	182543033	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattgagttgcaggcagccCgcaaccaggttggtggtggg	7	8	18	8	1	0	1	0	1	0	0	0	2	0	2	2	6	3	5	2	6	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:182543033C>T	uc002uof.2	-	2	791	c.555G>A	c.(553-555)GCG>GCA	p.A185A	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	185				A -> G (in Ref. 2; BAA11558 and 5; BAA87605).	amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			GCAGGCAGCCCGCAACCAGGT	0.607													52	92					0	0	0.01441	0	0		T	182543033	T	T	182543033	2	4	134	1	0	0	0	0	0	0	0	1	10367	639	23	1		1	NEUROD1	2	182543033	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	74283	182543033	60656340	267	72925											
NCKAP1	10787	broad.mit.edu	37	chr2	183860523	183860523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcagctgaaagattccttCgaggatataccatttgaaga	13	11	10	7	1	1	4	1	2	0	2	3	6	2	5	2	2	2	1	2	2	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:183860523C>T	uc002upc.2	-	7	1049	c.647G>A	c.(646-648)CGA>CAA	p.R216Q	NCKAP1_uc002upb.2_Missense_Mutation_p.R222Q	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	216					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			AAGATTCCTTCGAGGATATAC	0.378													45	76					0	0	0.011902	0	0		T	183860523	T	T	183860523	3	4	134	1	0	0	0	0	1	0	0	0	10240	884	31	1	2839	1	NCKAP1	2	183860523	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1317490	183860523	59338850	268	72926											
TFPI	7035	broad.mit.edu	37	chr2	188332652	188332652	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagacaccatgagggaccGtgaaattctaaaaacaatca	17	7	9	8	1	2	3	1	3	1	1	2	5	2	4	2	1	1	0	2	1	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:188332652G>T	uc002upx.2	-	7	669	c.636C>A	c.(634-636)CAC>CAA	p.H212Q	TFPI_uc002upy.2_Missense_Mutation_p.H212Q|TFPI_uc002upz.2_Missense_Mutation_p.H208Q	NM_006287	NP_006278	P10646	TFPI1_HUMAN	tissue factor pathway inhibitor isoform a	212					blood coagulation, extrinsic pathway	extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0554)		Coagulation factor VIIa(DB00036)	ATGAGGGACCGTGAAATTCTA	0.388													34	75					3.86903e-22	4.45847e-22	0.013726	1	0		T	188332652	T	T	188332652	3	4	134	1	0	0	0	0	1	0	0	0	15833	1136	40	5	286	5	TFPI	2	188332652	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4472129	188332652	54866721	269	72927											
DNAH7	56171	broad.mit.edu	37	chr2	196746682	196746682	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattggaggagcttctttcAatttctttatccatggttcc	8	17	8	8	0	3	0	1	0	2	0	5	3	5	2	2	3	1	2	2	3	3	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:196746682A>G	uc002utj.3	-	36	5899	c.5798T>C	c.(5797-5799)TTG>TCG	p.L1933S		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1933					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AGCTTCTTTCAATTTCTTTAT	0.338													41	76					0	0	0.010771	0	0		G	196746682	G	G	196746682	3	3	134	1	0	0	0	0	1	0	0	0	4612	131	5	3	6396	3	DNAH7	2	196746682	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	8414030	196746682	46452691	270	72928											
C2orf66	401027	broad.mit.edu	37	chr2	197672182	197672182	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactttcagcctttgagataAttgtgaaaggagtttttctg	11	16	9	5	0	2	2	1	2	1	1	2	4	2	3	1	1	2	1	1	1	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:197672182A>G	uc002utv.2	-	2	1228	c.339T>C	c.(337-339)AAT>AAC	p.N113N		NM_213608	NP_998773	Q6UXQ4	CB066_HUMAN	hypothetical protein LOC401027 precursor	113						extracellular region					0						CTTTGAGATAATTGTGAAAGG	0.398													71	110					0	0	0.01441	0	0		G	197672182	G	G	197672182	2	3	134	1	0	0	0	0	0	0	0	1	2188	98	4	3		3	C2orf66	2	197672182	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	925500	197672182	45527191	271	72929											
CTLA4	1493	broad.mit.edu	37	chr2	204735621	204735621	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacccaccgccatactaccTgggcataggcaacggaaccc	11	5	9	16	2	0	0	0	0	0	0	0	1	0	1	5	3	5	3	5	3	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:204735621T>C	uc002vak.1	+	2	579	c.422T>C	c.(421-423)CTG>CCG	p.L141P	CTLA4_uc002val.1_Missense_Mutation_p.L141P|CTLA4_uc010fty.1_Intron|CTLA4_uc010ftz.1_Intron	NM_005214	NP_005205	P16410	CTLA4_HUMAN	cytotoxic T-lymphocyte-associated protein 4	141	Extracellular (Potential).				B cell receptor signaling pathway|immune response|negative regulation of B cell proliferation|negative regulation of regulatory T cell differentiation|positive regulation of apoptosis|response to DNA damage stimulus|T cell costimulation	clathrin-coated endocytic vesicle|external side of plasma membrane|Golgi apparatus|integral to plasma membrane|perinuclear region of cytoplasm					0					Abatacept(DB01281)	CCATACTACCTGGGCATAGGC	0.483													16	32					0	0	0.008871	0	0		C	204735621	C	C	204735621	3	2	134	1	0	0	0	0	1	0	0	0	4014	1580	55	3	428	3	CTLA4	2	204735621	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	7063439	204735621	38463752	272	72930											
PARD3B	117583	broad.mit.edu	37	chr2	206050586	206050586	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcgaagattacagccacAggtattgataaaatgatgta	15	10	9	7	1	0	3	0	2	0	1	1	4	0	3	2	1	2	2	2	1	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:206050586A>G	uc002var.1	+	14	2230	c.2023A>G	c.(2023-2025)AGC>GGC	p.S675G	PARD3B_uc010fub.1_Missense_Mutation_p.S675G|PARD3B_uc002vao.1_Missense_Mutation_p.S675G|PARD3B_uc002vap.1_Missense_Mutation_p.S613G|PARD3B_uc002vaq.1_Missense_Mutation_p.S675G	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	675					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		TTACAGCCACAGGTATTGATA	0.423													41	66					0	0	0.01441	0	0		G	206050586	G	G	206050586	3	3	134	1	0	0	0	0	1	0	0	0	11463	202	7	3	2077	3	PARD3B	2	206050586	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1314965	206050586	37148787	273	72931											
INO80D	54891	broad.mit.edu	37	chr2	206874370	206874370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttcccttgggggactgcaGgtggaatgggtttttggggt	4	13	19	5	0	0	0	0	0	0	0	1	2	1	2	1	8	1	3	1	8	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:206874370G>A	uc002vaz.3	-	9	2096	c.1691C>T	c.(1690-1692)CCT>CTT	p.P564L		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	564					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						GGGGACTGCAGGTGGAATGGG	0.547													4	81					0	0	0.009096	0	0		A	206874370	A	A	206874370	3	1	134	1	0	0	0	0	1	0	0	0	7765	1000	35	4	1404	4	INO80D	2	206874370	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	823784	206874370	36325003	274	72932											
ZDBF2	57683	broad.mit.edu	37	chr2	207174184	207174184	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgagtcacaaggacctgaTgagaaaatggtgaaatatat	17	9	10	5	1	1	3	1	3	0	1	1	6	1	4	1	2	1	0	1	2	7	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:207174184T>C	uc002vbp.2	+	5	5182	c.4932T>C	c.(4930-4932)GAT>GAC	p.D1644D		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1644							nucleic acid binding|zinc ion binding			ovary(3)	3						AAGGACCTGATGAGAAAATGG	0.368													41	61					0	0	0.00623	0	0		C	207174184	C	C	207174184	2	2	134	1	0	0	0	0	0	0	0	1	17624	1461	51	3		3	ZDBF2	2	207174184	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	299814	207174184	36025189	275	72933											
ADAM23	8745	broad.mit.edu	37	chr2	207308784	207308784	+	Frame_Shift_Del	DEL	G	-	-																															ctcgtcccggccccgcgcctGgggggctgctgcgcccagcg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:207308784delG	uc002vbq.2	+	1	417	c.194delG	c.(193-195)TGGfs	p.W65fs	ADAM23_uc010ziv.1_5'Flank	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	65					cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		CCCCGCGCCTGGGGGGCTGCT	0.761													5	2	---	---	---	---						.	-	207308784	-	-	207308784	7	5	134	1	0	1	0	1	0	0	0	0	245	1357	47	0	196	0	ADAM23	2	207308784	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	134600	207308784	35890589	276	72934											
ADAM23	8745	broad.mit.edu	37	chr2	207310055	207310055	+	Frame_Shift_Del	DEL	A	-	-																															gcattggaatgaaactgcagAaaaaaatttgggagtcctgg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:207310055delA	uc002vbq.2	+	2	462	c.239delA	c.(238-240)GAAfs	p.E80fs	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	80					cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		GAAACTGCAGAAAAAAATTTG	0.418													79	109	---	---	---	---						.	-	207310055	-	-	207310055	7	5	134	1	0	1	0	1	0	0	0	0	245	246	9	0	245	0	ADAM23	2	207310055	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	1271	207310055	35889318	277	72935											
ADAM23	8745	broad.mit.edu	37	chr2	207437886	207437886	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgctgtgaacgagtgtgaTattactgaatattgtactgg	11	14	12	4	1	0	3	0	3	0	0	0	5	0	3	0	1	4	2	0	1	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:207437886T>C	uc002vbq.2	+	18	1927	c.1704T>C	c.(1702-1704)GAT>GAC	p.D568D	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	568	Disintegrin.|May bind the integrin receptor.|Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		ACGAGTGTGATATTACTGAAT	0.323													11	449					0	0	0.001855	0	0		C	207437886	C	C	207437886	2	2	134	1	0	0	0	0	0	0	0	1	245	1403	49	3		3	ADAM23	2	207437886	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	127831	207437886	35761487	278	72936											
FAM119A	151194	broad.mit.edu	37	chr2	208477876	208477878	+	In_Frame_Del	DEL	AAG	-	-																															attgcctctccagcattgctAagaagttgttatcccgttca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:208477876_208477878delAAG	uc002vcf.2	-	4	709_711	c.549_551delCTT	c.(547-552)TTCTTA>TTA	p.F183del	FAM119A_uc002vce.2_Intron|FAM119A_uc010fuk.1_In_Frame_Del_p.F183del|FAM119A_uc002vcg.3_In_Frame_Del_p.F183del	NM_145280	NP_660323	Q8WXB1	MT21A_HUMAN	hypothetical protein LOC151194	183						integral to membrane	methyltransferase activity				0				LUSC - Lung squamous cell carcinoma(261;0.0705)|Epithelial(149;0.131)|Lung(261;0.135)		CAGCATTGCTAAGAAGTTGTTAT	0.409													127	216	---	---	---	---						.	-	208477878	-	-	208477876	7	5	134	1	0	1	0	1	0	0	0	0	5424	372	13	0	109	0	FAM119A	2	208477876	In_Frame_Del	DEL	AAG	TCGA-CG-4442-01A-01D-1158-08	1039990	208477876	34721497	279	72937											
FAM119A	151194	broad.mit.edu	37	chr2	208486582	208486582	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgccagcacccagctccacGgcagagcggcccctgagctc	7	4	12	18	2	0	2	0	1	0	1	2	2	1	2	5	2	5	4	5	2	0	0	rs150521439		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:208486582G>A	uc002vcf.2	-	3	367	c.207C>T	c.(205-207)GCC>GCT	p.A69A	FAM119A_uc002vce.2_Silent_p.A69A|FAM119A_uc010fuk.1_Silent_p.A69A|FAM119A_uc002vcg.3_Silent_p.A69A	NM_145280	NP_660323	Q8WXB1	MT21A_HUMAN	hypothetical protein LOC151194	69						integral to membrane	methyltransferase activity				0				LUSC - Lung squamous cell carcinoma(261;0.0705)|Epithelial(149;0.131)|Lung(261;0.135)		CCAGCTCCACGGCAGAGCGGC	0.557													6	228					0	0	0.001984	0	0		A	208486582	A	A	208486582	2	1	134	1	0	0	0	0	0	0	0	1	5424	1103	39	1		1	FAM119A	2	208486582	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	8706	208486582	34712791	280	72938											
IKZF2	22807	broad.mit.edu	37	chr2	213872794	213872794	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatatctgggtagctgaatcGcatgagcttttcccctggaa	10	12	10	9	1	1	2	0	2	1	0	3	3	2	3	2	2	2	4	2	2	5	4	rs146574423		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:213872794G>A	uc002vem.2	-	8	1040	c.871C>T	c.(871-873)CGA>TGA	p.R291*	IKZF2_uc010fuu.2_Nonsense_Mutation_p.R146*|IKZF2_uc002vej.2_Nonsense_Mutation_p.R238*|IKZF2_uc002vek.2_RNA|IKZF2_uc010fuv.2_Nonsense_Mutation_p.R217*|IKZF2_uc002vel.2_Nonsense_Mutation_p.R212*|IKZF2_uc010fuw.2_Nonsense_Mutation_p.R65*|IKZF2_uc010fux.2_Nonsense_Mutation_p.R65*|IKZF2_uc010fuy.2_Nonsense_Mutation_p.R219*|IKZF2_uc002ven.2_Nonsense_Mutation_p.R265*|IKZF2_uc002vei.2_Nonsense_Mutation_p.R69*	NM_016260	NP_057344	Q9UKS7	IKZF2_HUMAN	helios isoform 1	291					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		TAGCTGAATCGCATGAGCTTT	0.383													14	45					0	0	0.003163	0	0		A	213872794	A	A	213872794	4	1	134	1	0	0	0	0	0	1	0	0	7631	1095	38	1	713	1	IKZF2	2	213872794	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5386212	213872794	29326579	281	72939											
TNS1	7145	broad.mit.edu	37	chr2	218673324	218673324	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagctgtgtacaagagacttActttctttcctgtggatcca	10	14	8	9	0	1	1	0	0	1	1	3	3	3	2	2	1	3	2	2	1	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:218673324A>T	uc002vgt.2	-	31	5428	c.5030_splice	c.e31+1	p.K1677_splice	TNS1_uc002vgr.2_Splice_Site_p.K1663_splice|TNS1_uc002vgs.2_Splice_Site_p.K1656_splice|TNS1_uc002vgq.2_Splice_Site_p.K177_splice	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin							cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		CAAGAGACTTACTTTCTTTCC	0.363													101	203					0	0	0.01441	0	0		T	218673324	T	T	218673324	5	4	134	1	0	0	0	0	0	0	1	0	16368	405	14	5	187	5	TNS1	2	218673324	Splice_Site	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4800530	218673324	24526049	282	72940											
TNS1	7145	broad.mit.edu	37	chr2	218682650	218682650	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacggggaggtggcagggcTgctcaggccagggtagtagg	7	6	21	7	1	1	1	1	1	0	0	1	2	1	2	1	8	1	5	1	8	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:218682650T>G	uc002vgt.2	-	24	4491	c.4093A>C	c.(4093-4095)AGC>CGC	p.S1365R	TNS1_uc002vgr.2_Missense_Mutation_p.S1352R|TNS1_uc002vgs.2_Missense_Mutation_p.S1344R|TNS1_uc010zjv.1_Missense_Mutation_p.S1344R	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1365						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GTGGCAGGGCTGCTCAGGCCA	0.662													15	24					0	0	0.00245	0	0		G	218682650	G	G	218682650	3	3	134	1	0	0	0	0	1	0	0	0	16368	1580	55	5	1154	5	TNS1	2	218682650	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	9326	218682650	24516723	283	72941											
TNS1	7145	broad.mit.edu	37	chr2	218682831	218682831	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accacagatccagaccctccGaggtgacggcccaggctggg	9	4	13	15	2	0	3	0	1	0	2	2	4	2	3	5	4	0	1	5	4	0	0	rs149340421	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:218682831G>A	uc002vgt.2	-	24	4310	c.3912C>T	c.(3910-3912)CTC>CTT	p.L1304L	TNS1_uc002vgr.2_Silent_p.L1291L|TNS1_uc002vgs.2_Silent_p.L1283L|TNS1_uc010zjv.1_Silent_p.L1283L	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1304						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		CAGACCCTCCGAGGTGACGGC	0.657													13	25					0	0	0.00499	0	0		A	218682831	A	A	218682831	2	1	134	1	0	0	0	0	0	0	0	1	16368	1045	37	1		1	TNS1	2	218682831	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	181	218682831	24516542	284	72942											
RNF25	64320	broad.mit.edu	37	chr2	219528977	219528977	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgggtacctttaggggcGtggcactcccctccctttgg	4	11	12	14	2	1	0	1	0	0	0	3	0	3	0	4	5	1	2	4	5	2	4	rs148126928		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:219528977G>A	uc002vit.2	-	10	1171	c.1083C>T	c.(1081-1083)CAC>CAT	p.H361H	RNF25_uc010fvw.2_Silent_p.H249H	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	361					positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTTTAGGGGCGTGGCACTCCC	0.627													54	165					0	0	0.01441	0	0		A	219528977	A	A	219528977	2	1	134	1	0	0	0	0	0	0	0	1	13510	1136	40	1		1	RNF25	2	219528977	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	846146	219528977	23670396	285	72943											
STK36	27148	broad.mit.edu	37	chr2	219559251	219559251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttacctctcccacagagtGcagcagcctgtctattggga	8	12	9	12	0	2	1	0	0	2	1	3	2	2	2	3	1	4	2	3	1	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:219559251G>A	uc002viu.2	+	21	2670	c.2404G>A	c.(2404-2406)GCA>ACA	p.A802T	STK36_uc002viv.2_Missense_Mutation_p.A802T|STK36_uc002viw.2_5'UTR|STK36_uc002vix.2_5'Flank	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	802					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		CCCACAGAGTGCAGCAGCCTG	0.512													55	123					0	0	0.01441	0	0		A	219559251	A	A	219559251	3	1	134	1	0	0	0	0	1	0	0	0	15327	1319	46	2	2482	2	STK36	2	219559251	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	30274	219559251	23640122	286	72944											
STK36	27148	broad.mit.edu	37	chr2	219561249	219561249	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcatgtttctctctgacaGgttcggttgactccaccagg	6	14	9	12	1	3	2	1	2	2	0	6	2	4	2	2	3	0	3	2	3	0	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:219561249G>T	uc002viu.2	+	22	2778	c.2512_splice	c.e22-1	p.V838_splice	STK36_uc002viv.2_Intron|STK36_uc002viw.2_Splice_Site_p.V17_splice|STK36_uc002vix.2_5'Flank	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36						cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		CTCTCTGACAGGTTCGGTTGA	0.498													68	114					1.43675e-24	1.66806e-24	0.01441	1	0		T	219561249	T	T	219561249	5	4	134	1	0	0	0	0	0	0	1	0	15327	1014	35	5	2593	5	STK36	2	219561249	Splice_Site	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1998	219561249	23638124	287	72945											
CRYBA2	1412	broad.mit.edu	37	chr2	219856929	219856929	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccttctccagaatgaactgCtgtccctggaagtcggggta	8	10	11	12	1	1	2	0	1	1	1	4	3	2	3	3	3	2	2	3	3	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:219856929C>T	uc002vjj.1	-	3	233	c.198G>A	c.(196-198)CAG>CAA	p.Q66Q	CRYBA2_uc002vjk.1_Silent_p.Q66Q	NM_057094	NP_476435	P53672	CRBA2_HUMAN	crystallin, beta A2	66	Beta/gamma crystallin 'Greek key' 2.						structural constituent of eye lens				0		Renal(207;0.0474)		Epithelial(149;9.77e-07)|all cancers(144;0.000167)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GAATGAACTGCTGTCCCTGGA	0.612													23	75					0	0	0.00278	0	0		T	219856929	T	T	219856929	2	4	134	1	0	0	0	0	0	0	0	1	3911	796	28	2		2	CRYBA2	2	219856929	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	295680	219856929	23342444	288	72946											
CCDC108	255101	broad.mit.edu	37	chr2	219892637	219892637	+	Frame_Shift_Del	DEL	G	-	-																															caggctctacactgatgggcGgggggaagatggttatgtcg																								rs144433350		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:219892637delG	uc002vjl.1	-	13	2030	c.1946delC	c.(1945-1947)CCGfs	p.P649fs	CCDC108_uc010fwa.1_Frame_Shift_Del_p.P92fs|CCDC108_uc010zkp.1_Frame_Shift_Del_p.P638fs|CCDC108_uc010zkq.1_Frame_Shift_Del_p.P584fs	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	649						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACTGATGGGCGGGGGGAAGAT	0.617													44	72	---	---	---	---						.	-	219892637	-	-	219892637	7	5	134	1	0	1	0	1	0	0	0	0	2746	1116	39	0	3923	0	CCDC108	2	219892637	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	35708	219892637	23306736	289	72947											
MOGAT1	116255	broad.mit.edu	37	chr2	223553067	223553067	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttcttttcttacagggccGatgtccattggaatcactgt	7	17	8	9	1	3	0	1	0	2	0	4	2	4	1	2	2	1	0	2	2	2	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:223553067G>A	uc010fws.1	+	2	147	c.99G>A	c.(97-99)CCG>CCA	p.P33P	MOGAT1_uc010fwt.1_5'UTR	NM_058165	NP_477513	Q96PD6	MOGT1_HUMAN	monoacylglycerol O-acyltransferase 1	33	Helical; (Potential).				glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			breast(1)	1		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;2.06e-07)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0105)		TTACAGGGCCGATGTCCATTG	0.423													9	16					0	0	0.004482	0	0		A	223553067	A	A	223553067	2	1	134	1	0	0	0	0	0	0	0	1	9712	1045	37	1		1	MOGAT1	2	223553067	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3660430	223553067	19646306	290	72948											
SERPINE2	5270	broad.mit.edu	37	chr2	224842297	224842297	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaaaaacagaaaaggtcTgtctactataaaccagggag	18	7	10	6	0	2	2	0	1	2	1	2	4	2	3	1	2	3	0	1	2	8	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:224842297T>C	uc002vnu.2	-	8	1366	c.1123A>G	c.(1123-1125)AGA>GGA	p.R375G	SERPINE2_uc002vnt.2_Missense_Mutation_p.R374G|SERPINE2_uc010zlr.1_Missense_Mutation_p.R386G|SERPINE2_uc002vnv.2_Missense_Mutation_p.R374G	NM_006216	NP_006207	P07093	GDN_HUMAN	plasminogen activator inhibitor type 1, member 2	375					negative regulation of blood coagulation|negative regulation of plasminogen activation|negative regulation of platelet aggregation|positive regulation of astrocyte differentiation|regulation of cell migration	cytosol|extracellular matrix|extracellular space|extrinsic to external side of plasma membrane|neuromuscular junction|platelet alpha granule	heparin binding|receptor binding|serine-type endopeptidase inhibitor activity			breast(2)|ovary(1)|central_nervous_system(1)	4		Renal(207;0.025)|all_lung(227;0.0586)|Lung NSC(271;0.0682)|all_hematologic(139;0.0797)		Epithelial(121;5.68e-10)|all cancers(144;1.9e-07)|Lung(261;0.0088)|LUSC - Lung squamous cell carcinoma(224;0.00902)		AGAAAAGGTCTGTCTACTATA	0.413													93	144					0	0	0.01441	0	0		C	224842297	C	C	224842297	3	2	134	1	0	0	0	0	1	0	0	0	14137	1588	55	3	81	3	SERPINE2	2	224842297	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1289230	224842297	18357076	291	72949											
CUL3	8452	broad.mit.edu	37	chr2	225360635	225360635	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatatgtgcttccgtgtatTagagccagttacttgtgcac	9	14	9	9	1	0	1	0	0	0	1	1	1	1	1	2	0	4	4	2	0	5	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:225360635T>C	uc002vny.2	-	13	2140	c.1756A>G	c.(1756-1758)AAT>GAT	p.N586D	CUL3_uc010zls.1_Missense_Mutation_p.N520D|CUL3_uc010fwy.1_Missense_Mutation_p.N592D|CUL3_uc002vnz.1_Missense_Mutation_p.N33D	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	586					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		TTCCGTGTATTAGAGCCAGTT	0.348													6	160					0	0	0.00308	0	0		C	225360635	C	C	225360635	3	2	134	1	0	0	0	0	1	0	0	0	4059	1754	61	3	566	3	CUL3	2	225360635	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	518338	225360635	17838738	292	72950											
TRIP12	9320	broad.mit.edu	37	chr2	230723776	230723776	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggctacagcagaagacgAggaggaagtagaggcagcag	15	2	17	7	2	0	3	0	0	0	3	0	7	0	5	0	4	3	5	0	4	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:230723776A>G	uc002vpw.1	-	3	722	c.613T>C	c.(613-615)TCG>CCG	p.S205P	TRIP12_uc002vpx.1_Missense_Mutation_p.S247P|TRIP12_uc002vpy.1_Intron|TRIP12_uc010zlz.1_RNA|TRIP12_uc010fxh.1_Missense_Mutation_p.S205P	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	205					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		GCAGAAGACGAGGAGGAAGTA	0.537													4	66					0	0	0.009096	0	0		G	230723776	G	G	230723776	3	3	134	1	0	0	0	0	1	0	0	0	16582	304	11	3	5521	3	TRIP12	2	230723776	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	5363141	230723776	12475597	293	72951											
SP140	11262	broad.mit.edu	37	chr2	231106186	231106186	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagatagacccagattactAccatatggtaaacaaggtaa	18	8	8	7	0	0	3	0	0	0	3	0	4	0	3	2	2	3	2	2	2	9	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:231106186A>G	uc002vql.2	+	4	589	c.474A>G	c.(472-474)CTA>CTG	p.L158L	SP140_uc010zma.1_RNA|SP140_uc002vqk.2_Silent_p.L158L|SP140_uc002vqn.2_Silent_p.L158L|SP140_uc002vqm.2_Silent_p.L158L|SP140_uc010fxl.2_Silent_p.L158L	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	158					defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CCAGATTACTACCATATGGTA	0.358													3	68					0	0	0.004672	0	0		G	231106186	G	G	231106186	2	3	134	1	0	0	0	0	0	0	0	1	14987	378	14	3		3	SP140	2	231106186	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	382410	231106186	12093187	294	72952											
C2orf57	165100	broad.mit.edu	37	chr2	232458157	232458157	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagcacatggaggctcaGcccgtcgagagtgatgctga	10	6	13	12	2	1	3	1	2	0	1	2	5	1	4	2	2	3	3	2	2	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:232458157G>A	uc002vrz.2	+	1	546	c.495G>A	c.(493-495)CAG>CAA	p.Q165Q		NM_152614	NP_689827	Q53QW1	CB057_HUMAN	hypothetical protein LOC165100	165										ovary(1)	1		Renal(207;0.025)|all_hematologic(139;0.0735)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;1.33e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)		TGGAGGCTCAGCCCGTCGAGA	0.602													44	57					0	0	0.013114	0	0		A	232458157	A	A	232458157	2	1	134	1	0	0	0	0	0	0	0	1	2181	962	34	2		2	C2orf57	2	232458157	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1351971	232458157	10741216	295	72953											
CHRND	1144	broad.mit.edu	37	chr2	233392150	233392150	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactaccaatgtgtggataGagcacgtaagaatgcccctc	12	9	9	11	1	1	2	1	0	0	2	2	3	1	3	3	1	3	2	3	1	5	3	rs121909504		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:233392150G>T	uc002vsw.2	+	3	242	c.238G>T	c.(238-240)GAG>TAG	p.E80*	CHRND_uc010zmg.1_Intron|CHRND_uc010fyc.2_5'UTR|CHRND_uc010zmh.1_5'UTR	NM_000751	NP_000742	Q07001	ACHD_HUMAN	nicotinic acetylcholine receptor delta	80	Extracellular (Potential).		E -> K (in FCCMS; reduced adult and fetal AChR expression and a reduced probability of both adult and fetal AChR being in the open state).		muscle contraction|musculoskeletal movement|neuromuscular process|skeletal muscle tissue growth|synaptic transmission	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)|breast(1)|skin(1)	3		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.89e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00078)|Lung(119;0.00579)|LUSC - Lung squamous cell carcinoma(224;0.00754)		TGTGTGGATAGAGCACGTAAG	0.294													47	84					9.58827e-17	1.08685e-16	0.01441	1	0		T	233392150	T	T	233392150	4	4	134	1	0	0	0	0	0	1	0	0	3397	943	33	5	248	5	CHRND	2	233392150	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	933993	233392150	9807223	296	72954											
TRPM8	79054	broad.mit.edu	37	chr2	234835246	234835246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacactctggacagcaccCggaccctgtactccagcgcg	9	6	10	16	3	1	1	0	1	1	0	2	3	2	3	3	2	3	2	3	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:234835246C>T	uc002vvh.2	+	2	104	c.64C>T	c.(64-66)CGG>TGG	p.R22W	TRPM8_uc010fyj.2_5'UTR	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	22	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	GGACAGCACCCGGACCCTGTA	0.512													21	47					0	0	0.008871	0	0		T	234835246	T	T	234835246	3	4	134	1	0	0	0	0	1	0	0	0	16618	643	23	1	66	1	TRPM8	2	234835246	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1443096	234835246	8364127	297	72955											
AGAP1	116987	broad.mit.edu	37	chr2	237029052	237029052	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acggcgctgcatctggcctgCcgcaaggggaatgtggtcct	6	8	15	12	3	1	0	0	0	1	0	2	1	2	1	3	5	2	3	3	5	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:237029052C>T	uc002vvs.2	+	17	2926	c.2331C>T	c.(2329-2331)TGC>TGT	p.C777C	AGAP1_uc002vvt.2_Silent_p.C724C	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	777	ANK 1.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						ATCTGGCCTGCCGCAAGGGGA	0.682													56	71					0	0	0.01441	0	0		T	237029052	T	T	237029052	2	4	134	1	0	0	0	0	0	0	0	1	366	747	26	2		2	AGAP1	2	237029052	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2193806	237029052	6170321	298	72956											
HDAC4	9759	broad.mit.edu	37	chr2	240029856	240029856	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggtgcactggtgcttcaGcatcagcgtgtcatacacga	9	9	12	11	2	3	0	3	0	0	0	3	1	3	0	0	2	5	4	0	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:240029856G>C	uc002vyk.3	-	15	2779	c.1987C>G	c.(1987-1989)CTG>GTG	p.L663V	HDAC4_uc010fyz.1_Missense_Mutation_p.L658V|HDAC4_uc010zoa.1_Missense_Mutation_p.L663V|HDAC4_uc010fza.2_Missense_Mutation_p.L668V|HDAC4_uc010fyy.2_Missense_Mutation_p.L620V|HDAC4_uc010znz.1_Missense_Mutation_p.L546V	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	663	Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		TGGTGCTTCAGCATCAGCGTG	0.706													5	10					0	0	0.004482	0	0		C	240029856	C	C	240029856	3	2	134	1	0	0	0	0	1	0	0	0	7025	962	34	5	1319	5	HDAC4	2	240029856	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3000804	240029856	3169517	299	72957											
HDAC4	9759	broad.mit.edu	37	chr2	240048352	240048352	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaccaaccaaggactgtgCgtggaggggcagtgctccca	9	6	14	12	1	0	0	0	0	0	0	1	2	1	2	3	4	4	3	3	4	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:240048352C>T	uc002vyk.3	-	12	2110	c.1318G>A	c.(1318-1320)GCA>ACA	p.A440T	HDAC4_uc010fyz.1_Missense_Mutation_p.A435T|HDAC4_uc010zoa.1_Missense_Mutation_p.A440T|HDAC4_uc010fza.2_Missense_Mutation_p.A445T|HDAC4_uc010fyy.2_Missense_Mutation_p.A397T|HDAC4_uc010znz.1_Missense_Mutation_p.A323T|HDAC4_uc010fzb.1_RNA	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	440					B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		AAGGACTGTGCGTGGAGGGGC	0.622													19	41					0	0	0.008871	0	0		T	240048352	T	T	240048352	3	4	134	1	0	0	0	0	1	0	0	0	7025	768	27	1	2000	1	HDAC4	2	240048352	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	18496	240048352	3151021	300	72958											
NDUFA10	4705	broad.mit.edu	37	chr2	240954271	240954271	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcacctcgttgtagtggTccacacctggcacataggag	8	11	10	12	1	2	0	1	0	1	0	4	1	3	1	3	3	0	3	3	3	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:240954271T>C	uc002vyn.2	-	5	634	c.554A>G	c.(553-555)GAC>GGC	p.D185G	NDUFA10_uc010fzc.1_Missense_Mutation_p.D225G|NDUFA10_uc002vyo.1_Missense_Mutation_p.D185G	NM_004544	NP_004535	O95299	NDUAA_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	185					mitochondrial electron transport, NADH to ubiquinone|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transport	mitochondrial matrix|mitochondrial respiratory chain complex I	ATP binding|NADH dehydrogenase (ubiquinone) activity|phosphotransferase activity, alcohol group as acceptor			central_nervous_system(1)	1		all_epithelial(40;4.26e-15)|Breast(86;4.4e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0396)|Lung NSC(271;0.128)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(121;7.82e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.5e-13)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;2.39e-05)|Lung(119;0.00519)|LUSC - Lung squamous cell carcinoma(224;0.0202)	NADH(DB00157)	GTTGTAGTGGTCCACACCTGG	0.547													40	62					0	0	0.004878	0	0		C	240954271	C	C	240954271	3	2	134	1	0	0	0	0	1	0	0	0	10279	1667	58	3	537	3	NDUFA10	2	240954271	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	905919	240954271	2245102	301	72959											
RNPEPL1	57140	broad.mit.edu	37	chr2	241516004	241516004	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgccgctggctgagccGgacctgtctcagggatccag	5	6	15	15	3	1	1	1	1	1	0	3	3	2	3	5	4	1	2	5	4	0	0	rs139086666		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:241516004G>A	uc002vzi.2	+	9	1463	c.870G>A	c.(868-870)CCG>CCA	p.P290P	RNPEPL1_uc010fzf.2_Silent_p.P196P|RNPEPL1_uc002vzj.2_5'UTR	NM_018226	NP_060696	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like	290					leukotriene biosynthetic process|proteolysis		aminopeptidase activity|metallopeptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)		TGGCTGAGCCGGACCTGTCTC	0.682													17	27					0	0	0.010504	0	0		A	241516004	A	A	241516004	2	1	134	1	0	0	0	0	0	0	0	1	13535	1103	39	1		1	RNPEPL1	2	241516004	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	561733	241516004	1683369	302	72960											
KIF1A	547	broad.mit.edu	37	chr2	241683449	241683449	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggctcttgatgtactcaAtgaaggacttggtcacctcc	8	12	10	11	0	3	2	2	2	1	0	4	3	4	3	2	3	1	3	2	3	3	3	rs35698242		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:241683449A>G	uc002vzy.2	-	31	3337	c.3191T>C	c.(3190-3192)ATT>ACT	p.I1064T	KIF1A_uc010fzk.2_Missense_Mutation_p.I1165T|KIF1A_uc002vzz.1_Missense_Mutation_p.I1165T	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	1064					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		GATGTACTCAATGAAGGACTT	0.597													74	155					0	0	0.01441	0	0		G	241683449	G	G	241683449	3	3	134	1	0	0	0	0	1	0	0	0	8299	101	4	3	1949	3	KIF1A	2	241683449	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	167445	241683449	1515924	303	72961											
PPP1R7	5510	broad.mit.edu	37	chr2	242092999	242092999	+	Frame_Shift_Del	DEL	G	-	-																															cctgaaggatggggaggagcGgggggaggaggacccagaag																								rs140300724		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:242092999delG	uc002wat.1	+	2	176	c.161delG	c.(160-162)CGGfs	p.R54fs	PPP1R7_uc010fzm.1_Frame_Shift_Del_p.R38fs|PPP1R7_uc002war.2_Frame_Shift_Del_p.R54fs|PPP1R7_uc002was.2_Frame_Shift_Del_p.R54fs|PPP1R7_uc002wau.1_Intron|PPP1R7_uc002wav.1_5'UTR	NM_002712	NP_002703	Q15435	PP1R7_HUMAN	protein phosphatase 1, regulatory subunit 7	54						cytoplasm|nucleus	protein binding|protein phosphatase type 1 regulator activity			ovary(3)	3		all_cancers(19;6.1e-33)|all_epithelial(40;1.07e-13)|Breast(86;0.000141)|Renal(207;0.00528)|all_lung(227;0.0446)|Ovarian(221;0.104)|Lung NSC(271;0.115)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.92e-32)|all cancers(36;5.35e-29)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-14)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.24e-08)|BRCA - Breast invasive adenocarcinoma(100;3.56e-06)|Lung(119;0.000588)|LUSC - Lung squamous cell carcinoma(224;0.0048)|Colorectal(34;0.0137)|COAD - Colon adenocarcinoma(134;0.096)		GGGGAGGAGCGGGGGGAGGAG	0.627													75	114	---	---	---	---						.	-	242092999	-	-	242092999	7	5	134	1	0	1	0	1	0	0	0	0	12398	1116	39	0	167	0	PPP1R7	2	242092999	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	409550	242092999	1106374	304	72962											
HDLBP	3069	broad.mit.edu	37	chr2	242176107	242176107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacacctccttggagagcCggggtcacaatctttagcct	8	10	10	13	1	3	1	2	0	1	1	4	2	4	1	4	3	2	0	4	3	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:242176107C>T	uc002waz.2	-	21	3055	c.2827G>A	c.(2827-2829)GGC>AGC	p.G943S	HDLBP_uc002wba.2_Missense_Mutation_p.G943S|HDLBP_uc002wbb.2_Missense_Mutation_p.G895S	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	943	KH 11.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		CTTGGAGAGCCGGGGTCACAA	0.547													54	83					0	0	0.01441	0	0		T	242176107	T	T	242176107	3	4	134	1	0	0	0	0	1	0	0	0	7041	652	23	1	1011	1	HDLBP	2	242176107	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	83108	242176107	1023266	305	72963											
C2orf85	285093	broad.mit.edu	37	chr2	242815392	242815392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggctgatgtgcatgtgtcGgctgaaccccgggatctacc	6	10	13	12	2	1	2	0	2	1	0	2	3	1	3	3	3	3	3	3	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr2:242815392G>A	uc010fzu.1	+	2	1708	c.1685G>A	c.(1684-1686)CGG>CAG	p.R562Q		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	562						integral to membrane				ovary(1)	1						TGCATGTGTCGGCTGAACCCC	0.662													117	189					0	0	0.01441	0	0		A	242815392	A	A	242815392	3	1	134	1	0	0	0	0	1	0	0	0	2203	1116	39	1	1691	1	C2orf85	2	242815392	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	639285	242815392	383981	306	72964											
RAD18	56852	broad.mit.edu	37	chr3	8944121	8944121	+	Frame_Shift_Del	DEL	T	-	-																															ttcttttgttattgttactgTtttttgtgacattccagcaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:8944121delT	uc003brd.2	-	10	1188	c.1111delA	c.(1111-1113)ACAfs	p.T371fs	RAD18_uc003bre.2_RNA	NM_020165	NP_064550	Q9NS91	RAD18_HUMAN	postreplication repair protein hRAD18p	371					DNA repair	nucleus|replication fork	damaged DNA binding|ligase activity|ubiquitin protein ligase binding|Y-form DNA binding|zinc ion binding			skin(3)|ovary(2)	5				OV - Ovarian serous cystadenocarcinoma(96;0.0552)		ATTGTTACTGTTTTTTGTGAC	0.318								Rad6_pathway					64	112	---	---	---	---						.	-	8944121	-	-	8944121	7	5	134	1	0	1	0	1	0	0	0	0	13005	1725	60	0	392	0	RAD18	3	8944121	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08		8944121	189078309	307	72965											
ATP2B2	491	broad.mit.edu	37	chr3	10452437	10452437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtttttggcttctttggagGtataaagttttgcccaaaaa	10	16	10	5	0	1	0	0	0	1	0	1	1	1	1	1	4	1	4	1	4	5	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:10452437G>A	uc003bvt.2	-	3	701	c.262C>T	c.(262-264)CCT>TCT	p.P88S	ATP2B2_uc003bvv.2_Missense_Mutation_p.P88S|ATP2B2_uc003bvw.2_Missense_Mutation_p.P88S|ATP2B2_uc010hdp.2_Missense_Mutation_p.P88S|ATP2B2_uc010hdo.2_5'UTR	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	88	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						TTCTTTGGAGGTATAAAGTTT	0.557													223	430					0	0	0.01441	0	0		A	10452437	A	A	10452437	3	1	134	1	0	0	0	0	1	0	0	0	1141	1261	44	4	3553	4	ATP2B2	3	10452437	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1508316	10452437	187569993	308	72966											
TBC1D5	9779	broad.mit.edu	37	chr3	17208262	17208262	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcagagtttctgtacctgTttaatggcccctgacatttg	7	15	8	11	0	2	2	1	1	1	1	2	2	2	2	4	1	1	3	4	1	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:17208262T>C	uc003cbf.2	-	21	3756	c.2091A>G	c.(2089-2091)AAA>AAG	p.K697K	TBC1D5_uc010heu.2_Silent_p.K284K|TBC1D5_uc010hev.2_Silent_p.K719K|TBC1D5_uc003cbe.2_Silent_p.K697K	NM_014744	NP_055559	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5 isoform b	697						intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						TCTGTACCTGTTTAATGGCCC	0.483													7	158					0	0	0.00308	0	0		C	17208262	C	C	17208262	2	2	134	1	0	0	0	0	0	0	0	1	15648	1722	60	3		3	TBC1D5	3	17208262	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	6755825	17208262	180814168	309	72967											
EFHB	151651	broad.mit.edu	37	chr3	19974823	19974823	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtttccagcctcctttcTctgttcatgttgttgggcaa	6	17	8	10	0	2	0	1	0	1	0	5	0	4	0	3	1	1	5	3	1	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:19974823T>G	uc003cbl.3	-	1	884	c.688A>C	c.(688-690)AGA>CGA	p.R230R	EFHB_uc003cbm.2_Silent_p.R100R	NM_144715	NP_653316	Q8N7U6	EFHB_HUMAN	EF hand domain family, member B	230					signal transduction	proteinaceous extracellular matrix	calcium ion binding				0						GCCTCCTTTCTCTGTTCATGT	0.507													45	100					0	0	0.013114	0	0		G	19974823	G	G	19974823	2	3	134	1	0	0	0	0	0	0	0	1	4951	1559	54	5		5	EFHB	3	19974823	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2766561	19974823	178047607	310	72968											
THRB	7068	broad.mit.edu	37	chr3	24185077	24185077	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttttgatgagctcccatTcctcgtctgtgggctctggc	4	14	11	12	1	2	2	0	2	2	0	5	2	4	2	2	2	1	3	2	2	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:24185077T>C	uc003ccx.3	-	8	1002	c.653A>G	c.(652-654)GAA>GGA	p.E218G	THRB_uc010hfe.2_Missense_Mutation_p.E218G|THRB_uc003ccy.3_Missense_Mutation_p.E218G|THRB_uc003ccz.3_Missense_Mutation_p.E213G	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	218					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)	GAGCTCCCATTCCTCGTCTGT	0.567													74	99					0	0	0.01441	0	0		C	24185077	C	C	24185077	3	2	134	1	0	0	0	0	1	0	0	0	15900	1783	62	3	748	3	THRB	3	24185077	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4210254	24185077	173837353	311	72969											
ZNF860	344787	broad.mit.edu	37	chr3	32032263	32032263	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaattcatactggagagaaAccttacaaatgtgatgattt	16	12	8	5	0	1	4	1	2	0	2	1	6	1	5	1	1	3	0	1	1	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:32032263A>G	uc011axg.1	+	2	2241	c.1692A>G	c.(1690-1692)AAA>AAG	p.K564K		NM_001137674	NP_001131146	A6NHJ4	ZN860_HUMAN	zinc finger protein 860	564					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTGGAGAGAAACCTTACAAAT	0.378													4	62					0	0	0.009096	0	0		G	32032263	G	G	32032263	2	3	134	1	0	0	0	0	0	0	0	1	18219	40	2	3		3	ZNF860	3	32032263	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	7847186	32032263	165990167	312	72970											
TRANK1	9881	broad.mit.edu	37	chr3	36873314	36873314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaatctcccggaagtggCgatacaggagaggcttgcag	11	7	13	10	2	2	1	1	0	1	1	3	4	2	2	1	4	2	2	1	4	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:36873314C>T	uc003cgj.2	-	12	6280	c.5978G>A	c.(5977-5979)CGC>CAC	p.R1993H		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2543					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						CCGGAAGTGGCGATACAGGAG	0.592													29	58					0	0	0.01441	0	0		T	36873314	T	T	36873314	3	4	134	1	0	0	0	0	1	0	0	0	16480	768	27	1	1161	1	TRANK1	3	36873314	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4841051	36873314	161149116	313	72971											
TRANK1	9881	broad.mit.edu	37	chr3	36875321	36875321	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcttatttgcactcagaTactttgctgcagcttccaag	9	15	6	11	0	3	1	2	0	1	1	4	1	4	1	1	0	5	4	1	0	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:36875321T>A	uc003cgj.2	-	12	4273	c.3971A>T	c.(3970-3972)TAT>TTT	p.Y1324F		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1874					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TGCACTCAGATACTTTGCTGC	0.433													55	171					0	0	0.01441	0	0		A	36875321	A	A	36875321	3	1	134	1	0	0	0	0	1	0	0	0	16480	1406	49	5	3168	5	TRANK1	3	36875321	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2007	36875321	161147109	314	72972											
DLEC1	9940	broad.mit.edu	37	chr3	38139378	38139378	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagagcccagtctccctccaGgaaaggcctgaggatgtaag	11	6	13	11	0	1	2	0	1	1	1	3	5	2	4	4	3	1	1	4	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:38139378G>T	uc003cho.1	+	18	2730	c.2709G>T	c.(2707-2709)CAG>CAT	p.Q903H	DLEC1_uc003chp.1_Missense_Mutation_p.Q903H|DLEC1_uc010hgv.1_Missense_Mutation_p.Q903H|DLEC1_uc003chr.1_Missense_Mutation_p.Q9H|DLEC1_uc010hgx.1_RNA	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	903					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		TCTCCCTCCAGGAAAGGCCTG	0.587													40	46					5.20837e-25	6.05037e-25	0.00874	1	0		T	38139378	T	T	38139378	3	4	134	1	0	0	0	0	1	0	0	0	4558	991	35	5	2779	5	DLEC1	3	38139378	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1264057	38139378	159883052	315	72973											
OXSR1	9943	broad.mit.edu	37	chr3	38287635	38287635	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agatctctgctcatctacctCagccagctgggcagattgct	8	11	9	13	0	4	2	2	0	2	2	5	2	4	2	2	1	5	4	2	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:38287635C>T	uc003chy.2	+	13	1522	c.1180C>T	c.(1180-1182)CAG>TAG	p.Q394*	OXSR1_uc010hhb.2_Nonsense_Mutation_p.Q328*	NM_005109	NP_005100	O95747	OXSR1_HUMAN	oxidative-stress responsive 1	394					intracellular protein kinase cascade|response to oxidative stress		ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		TCATCTACCTCAGCCAGCTGG	0.493													60	131					0	0	0.01441	0	0		T	38287635	T	T	38287635	4	4	134	1	0	0	0	0	0	1	0	0	11355	827	29	4	1230	4	OXSR1	3	38287635	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	148257	38287635	159734795	316	72974											
WDR48	57599	broad.mit.edu	37	chr3	39107318	39107318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagcaagatccatatatagCatctatggaacaccatactg	15	10	6	10	0	2	1	1	0	1	1	3	2	3	2	2	1	4	2	2	1	7	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:39107318C>T	uc003cit.2	+	3	216	c.206C>T	c.(205-207)GCA>GTA	p.A69V	WDR48_uc011ayt.1_Missense_Mutation_p.A69V|WDR48_uc011ayu.1_Intron|WDR48_uc011ayv.1_Intron|WDR48_uc003ciu.2_RNA	NM_020839	NP_065890	Q8TAF3	WDR48_HUMAN	WD repeat domain 48	69					interspecies interaction between organisms|protein deubiquitination	lysosome|nucleus	protein binding			ovary(1)|breast(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		CCATATATAGCATCTATGGAA	0.289													70	115					0	0	0.01441	0	0		T	39107318	T	T	39107318	3	4	134	1	0	0	0	0	1	0	0	0	17327	710	25	2	216	2	WDR48	3	39107318	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	819683	39107318	158915112	317	72975											
ZNF620	253639	broad.mit.edu	37	chr3	40557593	40557593	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtcaagaatggagagaagTttgagaaattaggaaaaaat	20	8	12	1	0	1	3	1	1	0	3	1	7	1	5	0	3	0	1	0	3	8	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:40557593T>C	uc003ckk.2	+	5	657	c.508T>C	c.(508-510)TTT>CTT	p.F170L	ZNF620_uc003ckl.2_Missense_Mutation_p.F56L	NM_175888	NP_787084	Q6ZNG0	ZN620_HUMAN	zinc finger protein 620	170					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		TGGAGAGAAGTTTGAGAAATT	0.403													3	91					0	0	0.004672	0	0		C	40557593	C	C	40557593	3	2	134	1	0	0	0	0	1	0	0	0	18069	1725	60	3	522	3	ZNF620	3	40557593	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1450275	40557593	157464837	318	72976											
C3orf39	84892	broad.mit.edu	37	chr3	43122150	43122150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggatctcattgcctgagacGaggatgttggccttcgggcc	6	10	14	11	3	1	1	1	1	1	1	3	5	1	3	3	4	1	1	3	4	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:43122150G>A	uc003cmq.1	-	2	915	c.774C>T	c.(772-774)CTC>CTT	p.L258L	C3orf39_uc003cmr.1_Silent_p.L258L	NM_032806	NP_116195	Q8NAT1	AGO61_HUMAN	glycosyltransferase precursor	258						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)|skin(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0571)|Kidney(284;0.0718)		TGCCTGAGACGAGGATGTTGG	0.562													53	125					0	0	0.01441	0	0		A	43122150	A	A	43122150	2	1	134	1	0	0	0	0	0	0	0	1	2232	1045	37	1		1	C3orf39	3	43122150	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2564557	43122150	154900280	319	72977											
C3orf23	285343	broad.mit.edu	37	chr3	44434452	44434453	+	Nonsense_Mutation	DNP	GC	TT	TT																															gatgaactgtctcatcaattGcaactctcagatatcaggta																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:44434452_44434453GC>TT	uc010him.2	+	6	923_924	c.678_679GC>TT	c.(676-681)TTGCAA>TTTTAA	p.226_227LQ>F*	C3orf23_uc003cnd.3_Nonsense_Mutation_p.226_227LQ>F*|C3orf23_uc003cne.3_Nonsense_Mutation_p.82_83LQ>F*	NM_173826	NP_776187	Q8N3R3	CC023_HUMAN	hypothetical protein LOC285343 isoform 1	226_227						mitochondrion				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(197;0.0468)|Kidney(197;0.0585)		CTCATCAATTGCAACTCTCAGA	0.322													41	104					0	0	0.004672	0	0		TT	44434453	TT	TT	44434452	4	4	134	1	0	0	0	0	0	1	0	0	2219	1310	46	5	748	5	C3orf23	3	44434452	Nonsense_Mutation	DNP	GC	TCGA-CG-4442-01A-01D-1158-08	1312302	44434452	153587978	320	72978											
ZNF197	10168	broad.mit.edu	37	chr3	44683855	44683855	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaggctttattcagcgttcGagccttctaatgcatttacg	10	14	8	9	3	2	0	1	0	1	0	3	1	2	0	1	1	4	3	1	1	4	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:44683855G>A	uc003cnm.2	+	6	1439	c.1233G>A	c.(1231-1233)TCG>TCA	p.S411S	ZNF197_uc003cnn.2_Intron|ZNF197_uc003cno.2_Intron|ZNF197_uc003cnp.2_Intron	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	411	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|skin(1)	4				KIRC - Kidney renal clear cell carcinoma(197;0.0478)|Kidney(197;0.0598)		TTCAGCGTTCGAGCCTTCTAA	0.373													58	83					0	0	0.01441	0	0		A	44683855	A	A	44683855	2	1	134	1	0	0	0	0	0	0	0	1	17784	1045	37	1		1	ZNF197	3	44683855	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	249403	44683855	153338575	321	72979											
ZNF197	10168	broad.mit.edu	37	chr3	44684845	44684845	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtgaggattgtgggaaGgctttcagttacaattcaag	13	12	12	4	0	2	1	2	1	0	0	2	3	2	3	0	3	1	2	0	3	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:44684845G>T	uc003cnm.2	+	6	2429	c.2223G>T	c.(2221-2223)AAG>AAT	p.K741N	ZNF197_uc003cnn.2_Intron|ZNF197_uc003cno.2_Intron|ZNF197_uc003cnp.2_Intron	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	741	C2H2-type 14.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|skin(1)	4				KIRC - Kidney renal clear cell carcinoma(197;0.0478)|Kidney(197;0.0598)		ATTGTGGGAAGGCTTTCAGTT	0.423													112	178					1.20412e-61	1.44638e-61	0.01441	1	0		T	44684845	T	T	44684845	3	4	134	1	0	0	0	0	1	0	0	0	17784	991	35	5	2241	5	ZNF197	3	44684845	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	990	44684845	153337585	322	72980											
ZNF502	91392	broad.mit.edu	37	chr3	44762936	44762936	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaattcacactggagtgaaAccatatggatgtgagcagtg	14	9	12	6	0	1	3	1	2	0	1	1	5	1	5	1	2	2	1	1	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:44762936A>G	uc011baa.1	+	4	882	c.627A>G	c.(625-627)AAA>AAG	p.K209K	ZNF502_uc003cns.2_Silent_p.K209K|ZNF502_uc011bab.1_Silent_p.K209K|ZNF502_uc003cnt.2_Silent_p.K209K	NM_001134440	NP_001127912	Q8TBZ5	ZN502_HUMAN	zinc finger protein 502	209					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00855)|KIRC - Kidney renal clear cell carcinoma(197;0.0471)|Kidney(197;0.0589)		CTGGAGTGAAACCATATGGAT	0.408													7	398					0	0	0.004482	0	0		G	44762936	G	G	44762936	2	3	134	1	0	0	0	0	0	0	0	1	17975	40	2	3		3	ZNF502	3	44762936	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	78091	44762936	153259494	323	72981											
PTPN23	25930	broad.mit.edu	37	chr3	47451532	47451532	+	Frame_Shift_Del	DEL	C	-	-																															cctgaggagctgcgcagcctCccccctgacatggtggctgg																								rs77776224	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:47451532delC	uc003crf.1	+	20	2340	c.2244delC	c.(2242-2244)CTCfs	p.L748fs	PTPN23_uc011baw.1_Frame_Shift_Del_p.L713fs|PTPN23_uc011bax.1_Intron|PTPN23_uc011bay.1_Frame_Shift_Del_p.L618fs	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	748	Pro-rich.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TGCGCAGCCTCCCCCCTGACA	0.701													12	21	---	---	---	---						.	-	47451532	-	-	47451532	7	5	134	1	0	1	0	1	0	0	0	0	12813	842	30	0	2322	0	PTPN23	3	47451532	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	2688596	47451532	150570898	324	72982											
SMARCC1	6599	broad.mit.edu	37	chr3	47719787	47719787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtgtcaatcataaaatttCgatatgccaagtatctaaaa	17	12	5	7	2	3	0	2	0	1	0	4	1	3	0	1	0	1	1	1	0	8	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:47719787C>T	uc003crq.2	-	16	1590	c.1472G>A	c.(1471-1473)CGA>CAA	p.R491Q	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Missense_Mutation_p.R382Q	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	491	SWIRM.				chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		CATAAAATTTCGATATGCCAA	0.388													70	136					0	0	0.01441	0	0		T	47719787	T	T	47719787	3	4	134	1	0	0	0	0	1	0	0	0	14800	884	31	1	1897	1	SMARCC1	3	47719787	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	268255	47719787	150302643	325	72983											
DHX30	22907	broad.mit.edu	37	chr3	47888976	47888976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcaaaggagtgcagcagcGcctccaggaggccctgggca	10	4	15	12	1	1	0	1	0	0	0	2	3	2	2	3	4	3	3	3	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:47888976G>A	uc003cru.2	+	13	2486	c.2060G>A	c.(2059-2061)CGC>CAC	p.R687H	DHX30_uc003crt.2_Missense_Mutation_p.R648H|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	687	Helicase C-terminal.					mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		GTGCAGCAGCGCCTCCAGGAG	0.627													8	27					0	0	0.00308	0	0		A	47888976	A	A	47888976	3	1	134	1	0	0	0	0	1	0	0	0	4510	1087	38	1	2113	1	DHX30	3	47888976	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	169189	47888976	150133454	326	72984											
COL7A1	1294	broad.mit.edu	37	chr3	48628108	48628108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcctgcagtactcacccCggcggacagtgaggacactg	8	6	12	15	2	1	1	1	1	0	0	2	3	2	3	4	3	2	2	4	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:48628108C>T	uc003ctz.2	-	13	1779	c.1778G>A	c.(1777-1779)CGG>CAG	p.R593Q		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	593	Fibronectin type-III 4.|Nonhelical region (NC1).				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GTACTCACCCCGGCGGACAGT	0.592													45	55					0	0	0.013114	0	0		T	48628108	T	T	48628108	3	4	134	1	0	0	0	0	1	0	0	0	3707	652	23	1	7480	1	COL7A1	3	48628108	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	739132	48628108	149394322	327	72985											
COL7A1	1294	broad.mit.edu	37	chr3	48631901	48631901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcgagaaagctgcggacctCgcggaaattgctgcggccaa	10	7	13	11	5	0	1	0	0	0	1	2	4	0	3	2	3	4	2	2	3	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:48631901C>T	uc003ctz.2	-	2	167	c.166G>A	c.(166-168)GAG>AAG	p.E56K		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	56	Nonhelical region (NC1).|VWFA 1.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CTGCGGACCTCGCGGAAATTG	0.602													23	28					0	0	0.012319	0	0		T	48631901	T	T	48631901	3	4	134	1	0	0	0	0	1	0	0	0	3707	893	31	1	9136	1	COL7A1	3	48631901	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3793	48631901	149390529	328	72986											
UQCRC1	7384	broad.mit.edu	37	chr3	48636573	48636573	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcccgcctagaagcgcagCcagaacatgccgctacggat	10	6	10	15	4	0	2	0	0	0	2	1	3	1	3	4	1	5	2	4	1	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:48636573C>T	uc003cub.1	-	13	1476	c.1431G>A	c.(1429-1431)TGG>TGA	p.W477*	UQCRC1_uc003cua.1_Nonsense_Mutation_p.W362*|UQCRC1_uc003cuc.1_Nonsense_Mutation_p.W478*|UQCRC1_uc003cud.1_Nonsense_Mutation_p.W476*	NM_003365	NP_003356	P31930	QCR1_HUMAN	ubiquinol-cytochrome c reductase core protein I	477					aerobic respiration|proteolysis		metalloendopeptidase activity|ubiquinol-cytochrome-c reductase activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)	Atovaquone(DB01117)	AGAAGCGCAGCCAGAACATGC	0.627													67	101					0	0	0.01441	0	0		T	48636573	T	T	48636573	4	4	134	1	0	0	0	0	0	1	0	0	17045	740	26	2	15	2	UQCRC1	3	48636573	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4672	48636573	149385857	329	72987											
CELSR3	1951	broad.mit.edu	37	chr3	48677916	48677916	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacggtggcccaaggtggcTgcacggcaccaggacagctc	8	4	15	14	2	0	0	0	0	0	0	1	1	0	1	2	6	2	5	2	6	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:48677916T>G	uc003cul.2	-	34	9383	c.9102A>C	c.(9100-9102)GCA>GCC	p.A3034A	CELSR3_uc003cuf.1_Silent_p.A3132A|CELSR3_uc010hkf.2_Silent_p.A324A|CELSR3_uc010hkg.2_Silent_p.A1017A	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	3034	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CCAAGGTGGCTGCACGGCACC	0.632													22	35					0	0	0.012319	0	0		G	48677916	G	G	48677916	2	3	134	1	0	0	0	0	0	0	0	1	3226	1567	55	5		5	CELSR3	3	48677916	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	41343	48677916	149344514	330	72988											
AMT	275	broad.mit.edu	37	chr3	49459855	49459855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaggcgaaagcccagaCgggccaccacacttacagcc	11	3	10	17	2	0	1	0	0	0	1	0	2	0	1	5	2	4	1	5	2	2	1	rs150649086		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:49459855C>T	uc003cww.2	-	1	158	c.29G>A	c.(28-30)CGT>CAT	p.R10H	AMT_uc011bcn.1_5'UTR|AMT_uc003cwx.2_Missense_Mutation_p.R10H|AMT_uc011bco.1_Missense_Mutation_p.R10H|AMT_uc003cwy.2_5'UTR|AMT_uc011bcp.1_5'UTR|AMT_uc011bcq.1_Missense_Mutation_p.R10H|NICN1_uc003cwz.1_3'UTR	NM_000481	NP_000472	P48728	GCST_HUMAN	aminomethyltransferase isoform 1 precursor	10					glycine catabolic process	mitochondrion	aminomethyltransferase activity|transaminase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	AAAGCCCAGACGGGCCACCAC	0.642													22	34					0	0	0.00333	0	0		T	49459855	T	T	49459855	3	4	134	1	0	0	0	0	1	0	0	0	589	536	19	1	1246	1	AMT	3	49459855	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	781939	49459855	148562575	331	72989											
BSN	8927	broad.mit.edu	37	chr3	49700719	49700719	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtactcacagccatccCgtgcttcatccgcataccat	9	10	6	16	2	2	1	2	1	0	0	4	1	4	1	4	0	4	3	4	0	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:49700719C>A	uc003cxe.3	+	7	11242	c.11128C>A	c.(11128-11130)CGT>AGT	p.R3710S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	3710					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		ACAGCCATCCCGTGCTTCATC	0.632													55	88					4.09106e-26	4.76896e-26	0.01441	1	0		A	49700719	A	A	49700719	3	1	134	1	0	0	0	0	1	0	0	0	1533	652	23	5	11154	5	BSN	3	49700719	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	240864	49700719	148321711	332	72990											
APEH	327	broad.mit.edu	37	chr3	49714427	49714427	+	Frame_Shift_Del	DEL	C	-	-																															ctgcagtacccatctctgatCccccatcaccaatgcagcca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:49714427delC	uc003cxf.2	+	10	1369	c.969delC	c.(967-969)ATCfs	p.I323fs	APEH_uc010hkw.1_Frame_Shift_Del_p.I323fs	NM_001640	NP_001631	P13798	ACPH_HUMAN	N-acylaminoacyl-peptide hydrolase	323					proteolysis	cytoplasm|nuclear membrane	serine-type endopeptidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CATCTCTGATCCCCCATCACC	0.602													46	99	---	---	---	---						.	-	49714427	-	-	49714427	7	5	134	1	0	1	0	1	0	0	0	0	768	845	30	0	1007	0	APEH	3	49714427	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	13708	49714427	148308003	333	72991											
RNF123	63891	broad.mit.edu	37	chr3	49736480	49736480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtatggcctacttcccaGccatcagcctctctttcaag	7	12	8	14	0	3	0	2	0	1	0	5	0	4	0	4	2	3	1	4	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:49736480G>A	uc003cxh.2	+	10	792	c.706G>A	c.(706-708)GCC>ACC	p.A236T	RNF123_uc010hky.1_5'Flank|RNF123_uc003cxi.2_5'Flank	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	236	B30.2/SPRY.					cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		CTACTTCCCAGCCATCAGCCT	0.567													58	109					0	0	0.01441	0	0		A	49736480	A	A	49736480	3	1	134	1	0	0	0	0	1	0	0	0	13458	971	34	2	740	2	RNF123	3	49736480	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	22053	49736480	148285950	334	72992											
C3orf54	389119	broad.mit.edu	37	chr3	49842011	49842011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accacctgtccaccatccacGgcccaagtccaccccagacg	10	4	6	21	2	0	1	0	0	0	1	3	1	3	1	9	1	0	0	9	1	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:49842011G>A	uc003cxq.1	+	2	588	c.455G>A	c.(454-456)CGG>CAG	p.R152Q		NM_203370	NP_976248	Q96EL1	CC054_HUMAN	hypothetical protein LOC389119	150											0				BRCA - Breast invasive adenocarcinoma(193;3.55e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		CACCATCCACGGCCCAAGTCC	0.662													36	46					0	0	0.01441	0	0		A	49842011	A	A	49842011	3	1	134	1	0	0	0	0	1	0	0	0	2236	1116	39	1	461	1	C3orf54	3	49842011	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	105531	49842011	148180419	335	72993											
GNAI2	2771	broad.mit.edu	37	chr3	50293689	50293689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacacagcaagatgtgctacGgacccgcgtaaagaccacgg	13	4	11	13	4	0	2	0	0	0	2	0	3	0	3	2	2	3	3	2	2	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:50293689G>A	uc003cyq.1	+	5	651	c.530G>A	c.(529-531)CGG>CAG	p.R177Q	GNAI2_uc003cyo.1_Missense_Mutation_p.R161Q|GNAI2_uc003cyp.1_Missense_Mutation_p.R161Q|GNAI2_uc010hlg.1_Missense_Mutation_p.R96Q|GNAI2_uc011bdn.1_Missense_Mutation_p.R140Q|GNAI2_uc003cyr.1_Missense_Mutation_p.R96Q	NM_002070	NP_002061	P04899	GNAI2_HUMAN	guanine nucleotide binding protein (G protein),	177	GTP (By similarity).				adenosine receptor signaling pathway|cell cycle|cell division|gamma-aminobutyric acid signaling pathway|inhibition of adenylate cyclase activity by G-protein signaling pathway|negative regulation of calcium ion transport via voltage-gated calcium channel activity|platelet activation|response to nutrient|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000288)|KIRC - Kidney renal clear cell carcinoma(197;0.00571)|Kidney(197;0.00651)		GATGTGCTACGGACCCGCGTA	0.597													28	70					0	0	0.00632	0	0		A	50293689	A	A	50293689	3	1	134	1	0	0	0	0	1	0	0	0	6520	1116	39	1	559	1	GNAI2	3	50293689	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	451678	50293689	147728741	336	72994											
C3orf45	132228	broad.mit.edu	37	chr3	50316562	50316562	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgccatcattggccccCgactgcccactgcttgccat	6	10	9	16	1	1	0	1	0	0	0	1	2	1	1	5	2	4	1	5	2	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:50316562C>T	uc003cyz.2	+	1	45	c.18C>T	c.(16-18)CCC>CCT	p.P6P		NM_153215	NP_694947	Q8N112	CC045_HUMAN	hypothetical protein LOC132228	6						integral to membrane				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CATTGGCCCCCGACTGCCCAC	0.602													21	34					0	0	0.00278	0	0		T	50316562	T	T	50316562	2	4	134	1	0	0	0	0	0	0	0	1	2234	639	23	1		1	C3orf45	3	50316562	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	22873	50316562	147705868	337	72995											
MAPKAPK3	7867	broad.mit.edu	37	chr3	50683670	50683670	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtacggcttccccaatccTgagtggtcagaagtctctga	9	10	10	12	1	2	3	1	2	1	1	5	3	4	3	3	2	1	2	3	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:50683670T>C	uc003day.1	+	10	1400	c.804T>C	c.(802-804)CCT>CCC	p.P268P	MAPKAPK3_uc003daz.1_Silent_p.P268P|MAPKAPK3_uc003dba.1_Silent_p.P268P|MAPKAPK3_uc010hlr.1_Silent_p.P268P	NM_004635	NP_004626	Q16644	MAPK3_HUMAN	mitogen-activated protein kinase-activated	268	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.0188)|Kidney(197;0.0223)		TCCCCAATCCTGAGTGGTCAG	0.547													62	123					0	0	0.01441	0	0		C	50683670	C	C	50683670	2	2	134	1	0	0	0	0	0	0	0	1	9308	1567	55	3		3	MAPKAPK3	3	50683670	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	367108	50683670	147338760	338	72996											
RBM15B	29890	broad.mit.edu	37	chr3	51430939	51430939	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctggaagagccaaaacaCgagaccaaaaagctgaagaa	19	3	9	10	1	1	4	0	1	1	3	1	6	1	5	3	1	3	1	3	1	7	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:51430939C>T	uc003dbd.2	+	1	2209	c.2109C>T	c.(2107-2109)CAC>CAT	p.H703H		NM_013286	NP_037418	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	703					interspecies interaction between organisms|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleoplasm	nucleotide binding|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		AGCCAAAACACGAGACCAAAA	0.542													10	188					0	0	0.010729	0	0		T	51430939	T	T	51430939	2	4	134	1	0	0	0	0	0	0	0	1	13142	535	19	1		1	RBM15B	3	51430939	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	747269	51430939	146591491	339	72997											
RAD54L2	23132	broad.mit.edu	37	chr3	51696633	51696633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccccaagcaccaatgccGccctgcctggccccccggcc	5	4	9	23	2	0	0	0	0	0	0	1	0	1	0	10	2	3	2	10	2	2	0	rs146832677	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:51696633G>A	uc011bdt.1	+	22	3726	c.3601G>A	c.(3601-3603)GCC>ACC	p.A1201T	RAD54L2_uc003dbh.2_Missense_Mutation_p.A790T|RAD54L2_uc011bdu.1_Missense_Mutation_p.A895T|RAD54L2_uc003dbj.2_Missense_Mutation_p.A527T	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	1201						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		CACCAATGCCGCCCTGCCTGG	0.607													23	47					0	0	0.014323	0	0		A	51696633	A	A	51696633	3	1	134	1	0	0	0	0	1	0	0	0	13019	1087	38	1	3683	1	RAD54L2	3	51696633	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	265694	51696633	146325797	340	72998											
GRM2	2912	broad.mit.edu	37	chr3	51751698	51751698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcagcctcagcggctccGtggtgcttggctgcctcttt	3	12	12	14	2	3	0	2	0	1	0	4	0	4	0	3	3	4	3	3	3	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:51751698G>A	uc010hlv.2	+	5	2649	c.2410G>A	c.(2410-2412)GTG>ATG	p.V804M	GRM2_uc003dbo.3_Missense_Mutation_p.V186M|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	804	Helical; Name=7; (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	CAGCGGCTCCGTGGTGCTTGG	0.627													23	45					0	0	0.004656	0	0		A	51751698	A	A	51751698	3	1	134	1	0	0	0	0	1	0	0	0	6813	1145	40	1	2424	1	GRM2	3	51751698	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	55065	51751698	146270732	341	72999											
RRP9	9136	broad.mit.edu	37	chr3	51970485	51970485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagatggccatgcagaggaCgtggctgctgtggccagggg	7	6	20	8	1	0	2	0	0	0	2	0	4	0	3	2	7	2	3	2	7	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:51970485C>T	uc003dbw.1	-	7	643	c.604G>A	c.(604-606)GTC>ATC	p.V202I		NM_004704	NP_004695	O43818	U3IP2_HUMAN	RNA, U3 small nucleolar interacting protein 2	202	WD 2.				rRNA processing	nucleolus|small nuclear ribonucleoprotein complex|small nucleolar ribonucleoprotein complex	RNA binding			breast(2)|ovary(1)	3				BRCA - Breast invasive adenocarcinoma(193;8.04e-05)|Kidney(197;0.000553)|KIRC - Kidney renal clear cell carcinoma(197;0.000724)		ATGCAGAGGACGTGGCTGCTG	0.642													30	57					0	0	0.003755	0	0		T	51970485	T	T	51970485	3	4	134	1	0	0	0	0	1	0	0	0	13716	536	19	1	859	1	RRP9	3	51970485	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	218787	51970485	146051945	342	73000											
PARP3	10039	broad.mit.edu	37	chr3	51980202	51980202	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacagattccaggcccaCtccaaactgggtaatcggaa	14	6	10	11	1	0	2	0	0	0	2	3	4	2	3	3	3	1	1	3	3	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:51980202C>T	uc003dby.2	+	9	1490	c.1119C>T	c.(1117-1119)CAC>CAT	p.H373H	PARP3_uc003dbz.2_Silent_p.H380H	NM_005485	NP_005476	Q9Y6F1	PARP3_HUMAN	poly (ADP-ribose) polymerase family, member 3	373	PARP catalytic.				DNA repair|protein ADP-ribosylation	centriole|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		TCCAGGCCCACTCCAAACTGG	0.587													40	68					0	0	0.009718	0	0		T	51980202	T	T	51980202	2	4	134	1	0	0	0	0	0	0	0	1	11481	564	20	4		4	PARP3	3	51980202	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	9717	51980202	146042228	343	73001											
GPR62	118442	broad.mit.edu	37	chr3	51989789	51989789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctgctggtcgtggtgctgCgcacgccgggactgcgcgac	3	7	17	14	7	0	0	0	0	0	0	1	2	0	1	1	3	4	4	1	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:51989789C>T	uc003dca.3	+	1	460	c.121C>T	c.(121-123)CGC>TGC	p.R41C		NM_080865	NP_543141	Q9BZJ7	GPR62_HUMAN	G protein-coupled receptor 62	41	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CGTGGTGCTGCGCACGCCGGG	0.711													7	16					0	0	0.001984	0	0		T	51989789	T	T	51989789	3	4	134	1	0	0	0	0	1	0	0	0	6718	768	27	1	123	1	GPR62	3	51989789	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	9587	51989789	146032641	344	73002											
TLR9	54106	broad.mit.edu	37	chr3	52255388	52255388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagaggcgctggcgcagccGcacgtagcgggagcggcggc	6	2	20	13	7	0	1	0	0	0	1	0	2	0	2	1	5	3	5	1	5	1	1	rs142806370		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:52255388G>A	uc003dda.1	-	2	3578	c.2944C>T	c.(2944-2946)CGG>TGG	p.R982W	TLR9_uc003ddb.2_Missense_Mutation_p.R1079W	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	982	TIR.|Cytoplasmic (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	TGGCGCAGCCGCACGTAGCGG	0.716													24	37					0	0	0.00623	0	0		A	52255388	A	A	52255388	3	1	134	1	0	0	0	0	1	0	0	0	15983	1086	38	1	158	1	TLR9	3	52255388	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	265599	52255388	145767042	345	73003											
PHF7	51533	broad.mit.edu	37	chr3	52453868	52453868	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttatctagtaagctgcCtcagaggggccagtccaaca	11	9	10	11	0	3	1	1	0	2	1	4	2	4	1	3	2	3	2	3	2	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:52453868C>A	uc003ddy.2	+	5	1012	c.206C>A	c.(205-207)CCT>CAT	p.P69H	PHF7_uc003ddz.2_Missense_Mutation_p.P69H	NM_016483	NP_057567	Q9BWX1	PHF7_HUMAN	PHD finger protein 7 isoform 1	69						nucleus	zinc ion binding			breast(1)	1				BRCA - Breast invasive adenocarcinoma(193;1.71e-05)|Kidney(197;0.00178)|KIRC - Kidney renal clear cell carcinoma(197;0.00201)|OV - Ovarian serous cystadenocarcinoma(275;0.0275)		AGTAAGCTGCCTCAGAGGGGC	0.498													8	8					1.12685e-05	1.23554e-05	0.004482	1	0		A	52453868	A	A	52453868	3	1	134	1	0	0	0	0	1	0	0	0	11858	681	24	5	220	5	PHF7	3	52453868	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	198480	52453868	145568562	346	73004											
GNL3	26354	broad.mit.edu	37	chr3	52723158	52723158	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttggttgcagatgtccTcaggtagaagaggccattgt	8	12	12	9	0	2	3	1	0	1	3	3	3	3	3	3	3	1	3	3	3	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:52723158T>G	uc003dfd.2	+	6	650	c.477T>G	c.(475-477)CCT>CCG	p.P159P	GNL3_uc011beh.1_RNA|GNL3_uc003dfe.2_Silent_p.P147P|GNL3_uc003dff.2_Silent_p.P147P|SNORD19_uc003dfg.1_5'Flank|SNORD19B_uc010hml.1_5'Flank	NM_014366	NP_055181	Q9BVP2	GNL3_HUMAN	guanine nucleotide binding protein-like 3	159					regulation of cell proliferation	nucleolus	GTP binding|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;6.75e-05)|Kidney(197;0.000611)|KIRC - Kidney renal clear cell carcinoma(197;0.000773)|OV - Ovarian serous cystadenocarcinoma(275;0.048)		GCAGATGTCCTCAGGTAGAAG	0.428													8	322					0	0	0.006214	0	0		G	52723158	G	G	52723158	2	3	134	1	0	0	0	0	0	0	0	1	6552	1538	54	5		5	GNL3	3	52723158	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	269290	52723158	145299272	347	73005											
GLT8D1	55830	broad.mit.edu	37	chr3	52730046	52730046	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgctgtattgtaaagggcAagaatatcacctgaaataga	16	10	10	5	0	1	3	1	1	0	2	1	3	1	3	1	1	1	4	1	1	8	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:52730046A>G	uc003dfi.3	-	7	682	c.543T>C	c.(541-543)CTT>CTC	p.L181L	GLT8D1_uc003dfj.2_Silent_p.L181L|GLT8D1_uc003dfk.2_Silent_p.L181L|GLT8D1_uc003dfl.2_Silent_p.L181L|GLT8D1_uc003dfm.2_Silent_p.L181L|GLT8D1_uc003dfn.2_Silent_p.L181L|GLT8D1_uc003dfo.1_Silent_p.L181L	NM_152932	NP_690909	Q68CQ7	GL8D1_HUMAN	glycosyltransferase 8 domain containing 1	181	Lumenal (Potential).					integral to membrane|mitochondrion	transferase activity, transferring glycosyl groups				0				BRCA - Breast invasive adenocarcinoma(193;6.78e-05)|Kidney(197;0.000618)|KIRC - Kidney renal clear cell carcinoma(197;0.000779)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		TGTAAAGGGCAAGAATATCAC	0.428													3	70					0	0	0.004672	0	0		G	52730046	G	G	52730046	2	3	134	1	0	0	0	0	0	0	0	1	6484	117	5	3		3	GLT8D1	3	52730046	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	6888	52730046	145292384	348	73006											
NEK4	6787	broad.mit.edu	37	chr3	52786250	52786250	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattgtggctagttctgtggTattgctcaagtcctgtttgc	5	17	12	7	0	2	0	1	0	1	0	3	1	3	0	1	2	2	5	1	2	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:52786250T>C	uc003dfq.3	-	7	1255	c.1066A>G	c.(1066-1068)ACC>GCC	p.T356A	NEK4_uc011bej.1_Missense_Mutation_p.T267A|NEK4_uc003dfr.2_Missense_Mutation_p.T356A	NM_003157	NP_003148	P51957	NEK4_HUMAN	NIMA-related kinase 4	356					cell division|mitosis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.44e-05)|Kidney(197;0.000711)|KIRC - Kidney renal clear cell carcinoma(197;0.00086)|OV - Ovarian serous cystadenocarcinoma(275;0.0513)		AGTTCTGTGGTATTGCTCAAG	0.478													115	245					0	0	0.01441	0	0		C	52786250	C	C	52786250	3	2	134	1	0	0	0	0	1	0	0	0	10345	1638	57	3	1499	3	NEK4	3	52786250	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	56204	52786250	145236180	349	73007											
CACNA1D	776	broad.mit.edu	37	chr3	53806910	53806910	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgctgttcttcatctatgcGgtcattggcatgcaggtaag	8	14	11	8	1	4	0	2	0	2	0	4	0	4	0	0	3	3	5	0	3	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:53806910G>A	uc003dgv.3	+	33	4258	c.4095G>A	c.(4093-4095)GCG>GCA	p.A1365A	CACNA1D_uc003dgu.3_Silent_p.A1385A|CACNA1D_uc003dgy.3_Silent_p.A1350A|CACNA1D_uc003dgw.3_Silent_p.A1032A|CACNA1D_uc003dgx.1_Silent_p.A541A	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1365	IV.|Helical; Name=S5 of repeat IV; (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	TCATCTATGCGGTCATTGGCA	0.582													27	46					0	0	0.008361	0	0		A	53806910	A	A	53806910	2	1	134	1	0	0	0	0	0	0	0	1	2544	1103	39	1		1	CACNA1D	3	53806910	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1020660	53806910	144215520	350	73008											
WNT5A	7474	broad.mit.edu	37	chr3	55508419	55508419	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatgcgagcactctcgtaGgagcccttggcgtggatgcg	7	8	16	10	4	1	0	0	0	1	0	2	4	1	3	1	4	4	2	1	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:55508419G>T	uc003dhn.2	-	4	948	c.630C>A	c.(628-630)TCC>TCA	p.S210S	WNT5A_uc003dhm.2_Silent_p.S195S|WNT5A_uc010hmw.2_Silent_p.S195S|WNT5A_uc010hmx.2_Silent_p.S121S	NM_003392	NP_003383	P41221	WNT5A_HUMAN	wingless-type MMTV integration site family,	210					activation of JUN kinase activity|activation of protein kinase B activity|axon guidance|cartilage development|cellular protein localization|cellular response to calcium ion|cellular response to interferon-gamma|cellular response to lipopolysaccharide|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|cervix development|cochlea morphogenesis|convergent extension involved in organogenesis|dopaminergic neuron differentiation|dorsal/ventral axis specification|embryonic digit morphogenesis|embryonic skeletal system development|epithelial cell proliferation involved in mammary gland duct elongation|epithelial to mesenchymal transition|face development|genitalia development|heart looping|hemopoietic stem cell proliferation|keratinocyte differentiation|lateral sprouting involved in mammary gland duct morphogenesis|lens development in camera-type eye|male gonad development|mammary gland branching involved in thelarche|negative regulation of apoptosis|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of mesenchymal cell proliferation|negative regulation of transcription, DNA-dependent|neural tube closure|olfactory bulb interneuron development|optic cup formation involved in camera-type eye development|palate development|positive regulation of angiogenesis|positive regulation of cartilage development|positive regulation of cGMP metabolic process|positive regulation of chemokine biosynthetic process|positive regulation of cytokine secretion involved in immune response|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of macrophage activation|positive regulation of macrophage cytokine production|positive regulation of mesenchymal cell proliferation|positive regulation of neuron projection development|positive regulation of NF-kappaB transcription factor activity|positive regulation of ossification|positive regulation of protein catabolic process|positive regulation of protein kinase C signaling cascade|positive regulation of T cell chemotaxis|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|primitive streak formation|regulation of branching involved in mammary gland duct morphogenesis|somitogenesis|tail morphogenesis|type B pancreatic cell development|urinary bladder development|uterus development|vagina development|Wnt receptor signaling pathway, calcium modulating pathway|wound healing	extracellular space|membrane fraction|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|receptor tyrosine kinase-like orphan receptor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.00377)|Kidney(284;0.00408)|OV - Ovarian serous cystadenocarcinoma(275;0.204)		CACTCTCGTAGGAGCCCTTGG	0.667													14	19					3.27435e-08	3.61581e-08	0.00245	1	0		T	55508419	T	T	55508419	2	4	134	1	0	0	0	0	0	0	0	1	17417	987	35	5		5	WNT5A	3	55508419	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1701509	55508419	142514011	351	73009											
FAM116A	201627	broad.mit.edu	37	chr3	57619023	57619023	+	Frame_Shift_Del	DEL	A	-	-																															tgaaactttgtgtcagttccAaaaaatagcgtcgaagaata																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:57619023delA	uc003dja.2	-	15	1393	c.1322delT	c.(1321-1323)TTGfs	p.L441fs		NM_152678	NP_689891	Q8IWF6	F116A_HUMAN	hypothetical protein LOC201627	441										pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000621)|KIRC - Kidney renal clear cell carcinoma(284;0.0485)|Kidney(284;0.0607)		TGTCAGTTCCAAAAAATAGCG	0.328													47	68	---	---	---	---						.	-	57619023	-	-	57619023	7	5	134	1	0	1	0	1	0	0	0	0	5418	131	5	0	528	0	FAM116A	3	57619023	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	2110604	57619023	140403407	352	73010											
KCTD6	200845	broad.mit.edu	37	chr3	58486884	58486884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttcagaattgaccttacCgttggattttaaggaatttg	12	15	8	6	1	1	2	1	1	0	1	1	4	1	4	2	2	2	1	2	2	5	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:58486884C>T	uc003dkj.3	+	3	356	c.239C>T	c.(238-240)CCG>CTG	p.P80L	KCTD6_uc003dki.3_Missense_Mutation_p.P80L|KCTD6_uc003dkk.3_Missense_Mutation_p.P80L	NM_001128214	NP_001121686	Q8NC69	KCTD6_HUMAN	potassium channel tetramerisation domain	80	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000177)|Kidney(10;0.00229)|KIRC - Kidney renal clear cell carcinoma(10;0.00258)|OV - Ovarian serous cystadenocarcinoma(275;0.148)		TTGACCTTACCGTTGGATTTT	0.418													62	99					0	0	0.01441	0	0		T	58486884	T	T	58486884	3	4	134	1	0	0	0	0	1	0	0	0	8129	652	23	1	245	1	KCTD6	3	58486884	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	867861	58486884	139535546	353	73011											
PRICKLE2	166336	broad.mit.edu	37	chr3	64184458	64184458	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgctcccatccagaatggtAcctgttcaggcttcagaccc	9	10	8	14	0	2	2	2	0	0	2	4	2	4	2	4	2	2	4	4	2	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:64184458A>G	uc003dmf.2	-	2	730	c.144_splice	c.e2+1	p.Q48_splice		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2							cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		CCAGAATGGTACCTGTTCAGG	0.502													33	90					0	0	0.004878	0	0		G	64184458	G	G	64184458	5	3	134	1	0	0	0	0	0	0	1	0	12509	405	14	3	2416	3	PRICKLE2	3	64184458	Splice_Site	SNP	A	TCGA-CG-4442-01A-01D-1158-08	5697574	64184458	133837972	354	73012											
LRIG1	26018	broad.mit.edu	37	chr3	66455662	66455662	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgagaaggcgccgctcgTgtcctctattgtgcccgaaa	7	9	11	14	4	1	1	0	1	1	1	3	3	2	1	4	1	1	1	4	1	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:66455662T>C	uc003dmx.2	-	9	1134	c.1120A>G	c.(1120-1122)ACG>GCG	p.T374A	LRIG1_uc011bfu.1_5'Flank|LRIG1_uc003dmw.2_Missense_Mutation_p.T40A|LRIG1_uc010hnz.2_Missense_Mutation_p.T114A|LRIG1_uc010hoa.2_Missense_Mutation_p.T374A	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	374	Extracellular (Potential).|LRR 13.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		GCGCCGCTCGTGTCCTCTATT	0.612													13	42					0	0	0.00245	0	0		C	66455662	C	C	66455662	3	2	134	1	0	0	0	0	1	0	0	0	8962	1696	59	3	2205	3	LRIG1	3	66455662	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2271204	66455662	131566768	355	73013											
GPR27	2850	broad.mit.edu	37	chr3	71803853	71803853	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcaagatgcggcccgcgcGcctggtgcccgccgtcagcc	4	4	14	19	7	1	1	1	0	0	1	1	1	1	1	6	2	3	1	6	2	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:71803853G>A	uc011bge.1	+	1	653	c.653G>A	c.(652-654)CGC>CAC	p.R218H	EIF4E3_uc003dox.2_5'Flank|EIF4E3_uc011bgd.1_5'Flank|EIF4E3_uc010hoc.2_5'UTR	NM_018971	NP_061844	Q9NS67	GPR27_HUMAN	G protein-coupled receptor 27	218	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Prostate(10;0.00899)		BRCA - Breast invasive adenocarcinoma(55;1.78e-05)|Epithelial(33;5.75e-05)|Lung(16;0.0012)|LUSC - Lung squamous cell carcinoma(21;0.00156)		CGGCCCGCGCGCCTGGTGCCC	0.751													3	3					0	0	0.009096	0	0		A	71803853	A	A	71803853	3	1	134	1	0	0	0	0	1	0	0	0	6700	1087	38	1	655	1	GPR27	3	71803853	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5348191	71803853	126218577	356	73014											
CNTN3	5067	broad.mit.edu	37	chr3	74350697	74350697	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccatcgatgacctcaggCactacaaaggaatatttcag	13	10	7	11	1	2	1	2	1	0	0	4	3	3	2	2	2	1	1	2	2	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:74350697C>T	uc003dpm.1	-	15	2027	c.1947G>A	c.(1945-1947)GTG>GTA	p.V649V		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	649	Fibronectin type-III 1.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		TGACCTCAGGCACTACAAAGG	0.438													6	171					0	0	0.001984	0	0		T	74350697	T	T	74350697	2	4	134	1	0	0	0	0	0	0	0	1	3645	724	25	2		2	CNTN3	3	74350697	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2546844	74350697	123671733	357	73015											
OR5H1	26341	broad.mit.edu	37	chr3	97852151	97852151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taatggtttttattttctcaGgttcaattcaggtattcagc	9	19	7	6	0	4	0	4	0	1	0	5	0	4	0	0	3	1	3	0	3	4	10			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:97852151G>A	uc011bgt.1	+	1	610	c.610G>A	c.(610-612)GGT>AGT	p.G204S		NM_001005338	NP_001005338	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						TATTTTCTCAGGTTCAATTCA	0.313													37	60					0	0	0.00623	0	0		A	97852151	A	A	97852151	3	1	134	1	0	0	0	0	1	0	0	0	11178	1000	35	4	612	4	OR5H1	3	97852151	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	23501454	97852151	100170279	358	73016											
GPR128	84873	broad.mit.edu	37	chr3	100413713	100413713	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccttcagtgacgcggccgagGctgcgtgtaaagatgtataa	10	9	13	9	4	1	2	1	1	0	1	1	3	1	2	2	2	1	3	2	2	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:100413713G>A	uc003duc.2	+	16	2530	c.2262G>A	c.(2260-2262)AGG>AGA	p.R754R	GPR128_uc011bhc.1_Silent_p.R455R|GPR128_uc003dud.2_Silent_p.R277R	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	754	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						CGCGGCCGAGGCTGCGTGTAA	0.458													52	96					0	0	0.01441	0	0		A	100413713	A	A	100413713	2	1	134	1	0	0	0	0	0	0	0	1	6656	1194	42	2		2	GPR128	3	100413713	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2561562	100413713	97608717	359	73017											
SENP7	57337	broad.mit.edu	37	chr3	101136469	101136469	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaggctttggcgaagaggTtctaatttttgacatgtctc	9	16	10	6	1	2	2	0	1	2	1	3	3	2	2	0	3	0	2	0	3	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:101136469T>C	uc003dut.2	-	5	561	c.450A>G	c.(448-450)GAA>GAG	p.E150E	SENP7_uc003duu.2_Silent_p.E150E|SENP7_uc003duv.2_Silent_p.E117E|SENP7_uc003duw.2_Intron|SENP7_uc003dux.2_Intron	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	150					proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						GGCGAAGAGGTTCTAATTTTT	0.368													6	243					0	0	0.001984	0	0		C	101136469	C	C	101136469	2	2	134	1	0	0	0	0	0	0	0	1	14076	1722	60	3		3	SENP7	3	101136469	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	722756	101136469	96885961	360	73018											
CEP97	79598	broad.mit.edu	37	chr3	101481356	101481356	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaaagagatgaagaacgTattaaaaaatttgtacaaga	23	8	8	2	1	0	5	0	1	0	4	0	6	0	5	0	0	2	2	0	0	10	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:101481356T>C	uc003dvk.1	+	10	1872	c.1845T>C	c.(1843-1845)CGT>CGC	p.R615R	CEP97_uc011bhf.1_Silent_p.R556R|CEP97_uc003dvl.1_Silent_p.R311R|CEP97_uc003dvm.1_Silent_p.R453R	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	615	CEP110 binding.					centrosome|nucleus	protein binding			ovary(2)	2						ATGAAGAACGTATTAAAAAAT	0.333													8	165					0	0	0.004482	0	0		C	101481356	C	C	101481356	2	2	134	1	0	0	0	0	0	0	0	1	3266	1625	57	3		3	CEP97	3	101481356	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	344887	101481356	96541074	361	73019											
ALCAM	214	broad.mit.edu	37	chr3	105252520	105252520	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaatggaaaagtgctacAtccccttgaaggaggtgggt	12	8	14	7	0	0	1	0	1	0	0	1	4	1	4	2	5	2	1	2	5	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:105252520A>G	uc003dvx.2	+	5	1073	c.533A>G	c.(532-534)CAT>CGT	p.H178R	ALCAM_uc003dvw.1_Missense_Mutation_p.H178R|ALCAM_uc003dvy.2_Missense_Mutation_p.H178R|ALCAM_uc011bhh.1_Missense_Mutation_p.H127R|ALCAM_uc010hpp.2_5'UTR	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	178	Extracellular (Potential).|Ig-like V-type 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						AAAGTGCTACATCCCCTTGAA	0.413													23	80					0	0	0.00632	0	0		G	105252520	G	G	105252520	3	3	134	1	0	0	0	0	1	0	0	0	487	217	8	3	551	3	ALCAM	3	105252520	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3771164	105252520	92769910	362	73020											
CBLB	868	broad.mit.edu	37	chr3	105470339	105470339	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaaaatatcaaattcaaaAactgaaatgtaatcattgca	21	11	4	5	0	3	1	3	1	0	0	3	1	3	1	0	0	2	3	0	0	9	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:105470339A>G	uc003dwc.2	-	5	1012	c.690T>C	c.(688-690)GTT>GTC	p.V230V	CBLB_uc011bhi.1_Silent_p.V252V|CBLB_uc003dwd.1_Silent_p.V230V|CBLB_uc003dwe.1_Silent_p.V230V|CBLB_uc011bhj.1_RNA	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	230	Potential.|Cbl-PTB.|EF-hand-like.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						CAAATTCAAAAACTGAAATGT	0.318			Mis S		AML								21	49					0	0	0.012319	0	0		G	105470339	G	G	105470339	2	3	134	1	0	0	0	0	0	0	0	1	2704	1	1	3		3	CBLB	3	105470339	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	217819	105470339	92552091	363	73021											
HHLA2	11148	broad.mit.edu	37	chr3	108072520	108072520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagattcaaaatgggaatgCgtcgctatttttcagaagag	13	12	11	5	2	2	3	2	1	0	3	3	5	2	4	0	1	1	1	0	1	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:108072520C>T	uc003dwy.3	+	4	478	c.311C>T	c.(310-312)GCG>GTG	p.A104V	HHLA2_uc011bhl.1_Intron|HHLA2_uc010hpu.2_Missense_Mutation_p.A104V|HHLA2_uc003dwz.2_Missense_Mutation_p.A104V	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	104	Ig-like V-type 1.					integral to membrane				ovary(1)	1						AATGGGAATGCGTCGCTATTT	0.403													34	45					0	0	0.013726	0	0		T	108072520	T	T	108072520	3	4	134	1	0	0	0	0	1	0	0	0	7111	768	27	1	317	1	HHLA2	3	108072520	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2602181	108072520	89949910	364	73022											
PVRL3	25945	broad.mit.edu	37	chr3	110852716	110852716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggagaagacggacgtttcGtggagactactttgccaaga	12	9	13	7	3	0	4	0	0	0	4	1	7	0	5	1	3	2	1	1	3	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:110852716G>A	uc003dxt.1	+	6	1304	c.1304G>A	c.(1303-1305)CGT>CAT	p.R435H	PVRL3_uc003dxu.1_Intron	NM_015480	NP_056295	Q9NQS3	PVRL3_HUMAN	poliovirus receptor-related 3 precursor	435	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane	cell adhesion molecule binding|protein homodimerization activity	p.R435C(1)		upper_aerodigestive_tract(2)	2						CGGACGTTTCGTGGAGACTAC	0.418													84	123					0	0	0.01441	0	0		A	110852716	A	A	110852716	3	1	134	1	0	0	0	0	1	0	0	0	12866	1145	40	1	1326	1	PVRL3	3	110852716	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2780196	110852716	87169714	365	73023											
BOC	91653	broad.mit.edu	37	chr3	112991451	112991451	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcaacctcctcatcgacAccaccagcgaggaggactca	12	5	9	15	2	2	1	2	1	0	0	4	5	3	3	4	2	3	1	4	2	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:112991451A>G	uc003dzx.2	+	7	1483	c.862A>G	c.(862-864)ACC>GCC	p.T288A	BOC_uc003dzy.2_Missense_Mutation_p.T288A|BOC_uc003dzz.2_Missense_Mutation_p.T288A|BOC_uc003eab.2_5'UTR	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	288	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			CCTCATCGACACCACCAGCGA	0.627													5	141					0	0	0.001168	0	0		G	112991451	G	G	112991451	3	3	134	1	0	0	0	0	1	0	0	0	1482	159	6	3	880	3	BOC	3	112991451	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2138735	112991451	85030979	366	73024											
CCDC52	152185	broad.mit.edu	37	chr3	113179491	113179491	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccataactcttctacctgTggctccgctttctgatgcct	5	15	7	14	1	3	1	0	1	3	0	5	1	5	1	4	1	3	2	4	1	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:113179491T>A	uc003eag.3	-	12	1699	c.1408A>T	c.(1408-1410)ACA>TCA	p.T470S	CCDC52_uc003eaf.3_RNA|CCDC52_uc003eah.1_Missense_Mutation_p.T366S	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52	470					cell division|mitosis	centriole|spindle	protein binding				0						CTTCTACCTGTGGCTCCGCTT	0.413													68	155					0	0	0.01441	0	0		A	113179491	A	A	113179491	3	1	134	1	0	0	0	0	1	0	0	0	2825	1696	59	5	1187	5	CCDC52	3	113179491	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	188040	113179491	84842939	367	73025											
ZBTB20	26137	broad.mit.edu	37	chr3	114058003	114058003	+	Frame_Shift_Del	DEL	G	-	-																															cacctgggggtgtgcctgcaGggggggtcccattgctggca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:114058003delG	uc003ebi.2	-	5	2255	c.2075delC	c.(2074-2076)CCTfs	p.P692fs	ZBTB20_uc003ebj.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc010hqp.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebk.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebl.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebm.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebn.2_Frame_Shift_Del_p.P619fs	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	692					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TGTGCCTGCAGGGGGGGTCCC	0.632													60	104	---	---	---	---						.	-	114058003	-	-	114058003	7	5	134	1	0	1	0	1	0	0	0	0	17554	1000	35	0	154	0	ZBTB20	3	114058003	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	878512	114058003	83964427	368	73026											
UPK1B	7348	broad.mit.edu	37	chr3	118909928	118909928	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaacaatggagtcaccaaaAcctgggacaggctcatgctc	15	6	9	11	0	2	0	2	0	0	0	3	2	2	2	2	3	3	2	2	3	5	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:118909928A>G	uc003ecc.2	+	5	534	c.445A>G	c.(445-447)ACC>GCC	p.T149A	UPK1B_uc011bix.1_Missense_Mutation_p.T69A|UPK1B_uc003ecd.2_Missense_Mutation_p.T141A	NM_006952	NP_008883	O75841	UPK1B_HUMAN	uroplakin 1B	149	Extracellular (Potential).				epithelial cell differentiation	integral to membrane	structural molecule activity				0				GBM - Glioblastoma multiforme(114;0.222)		AGTCACCAAAACCTGGGACAG	0.493													15	391					0	0	0.004007	0	0		G	118909928	G	G	118909928	3	3	134	1	0	0	0	0	1	0	0	0	17034	43	2	3	459	3	UPK1B	3	118909928	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4851925	118909928	79112502	369	73027											
NR1I2	8856	broad.mit.edu	37	chr3	119531741	119531741	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctccctgctgccccacaTggctgacatgtcaacctaca	8	10	6	17	0	2	1	1	1	1	0	3	1	2	1	4	1	4	2	4	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:119531741T>C	uc003edj.2	+	5	2567	c.728T>C	c.(727-729)ATG>ACG	p.M243T	NR1I2_uc003edi.2_Missense_Mutation_p.M206T|NR1I2_uc003edk.2_Missense_Mutation_p.M282T|NR1I2_uc003edl.2_Missense_Mutation_p.M131T	NM_003889	NP_003880	O75469	NR1I2_HUMAN	nuclear receptor subfamily 1, group I, member 2	243	Ligand-binding.				drug export|exogenous drug catabolic process|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid metabolic process|xenobiotic metabolic process|xenobiotic transport	nucleoplasm	drug binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(114;0.175)	Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Rifampin(DB01045)|Vitamin E(DB00163)	CTGCCCCACATGGCTGACATG	0.547													30	48					0	0	0.010818	0	0		C	119531741	C	C	119531741	3	2	134	1	0	0	0	0	1	0	0	0	10639	1464	51	3	863	3	NR1I2	3	119531741	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	621813	119531741	78490689	370	73028											
POLQ	10721	broad.mit.edu	37	chr3	121206385	121206385	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaagcttgtgtcactaataGggctgttgtctttgaaccca	11	13	9	8	0	2	1	1	1	1	0	2	1	2	1	1	1	2	3	1	1	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:121206385G>T	uc003eee.3	-	16	5522	c.5393C>A	c.(5392-5394)CCT>CAT	p.P1798H	POLQ_uc003eed.2_Missense_Mutation_p.P970H	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1798					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		GTCACTAATAGGGCTGTTGTC	0.383								DNA_polymerases_(catalytic_subunits)					65	147					3.4887e-51	4.16821e-51	0.01441	1	0		T	121206385	T	T	121206385	3	4	134	1	0	0	0	0	1	0	0	0	12227	1000	35	5	2439	5	POLQ	3	121206385	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1674644	121206385	76816045	371	73029											
POLQ	10721	broad.mit.edu	37	chr3	121260235	121260235	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttagccacagaaacaaaGggaagaataaacaaagcttt	19	8	7	7	0	1	2	0	0	1	2	1	3	1	3	1	1	4	1	1	1	8	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:121260235G>T	uc003eee.3	-	3	564	c.435C>A	c.(433-435)CCC>CCA	p.P145P		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	145	Helicase ATP-binding.				DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		CAGAAACAAAGGGAAGAATAA	0.373								DNA_polymerases_(catalytic_subunits)					132	208					2.10578e-59	2.52794e-59	0.01441	1	0		T	121260235	T	T	121260235	2	4	134	1	0	0	0	0	0	0	0	1	12227	987	35	5		5	POLQ	3	121260235	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	53850	121260235	76762195	372	73030											
FBXO40	51725	broad.mit.edu	37	chr3	121340411	121340412	+	Frame_Shift_Ins	INS	-	T	T																															acctgctctgtggtgccaccINSttccacatgtgcaaagaggc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:121340411_121340412insT	uc003eeg.2	+	3	345_346	c.135_136insT	c.(133-138)ACCTTCfs	p.T45fs		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	45_46					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		GTGGTGCCACCTTCCACATGTG	0.574													81	143	---	---	---	---						.	T	121340412	T	T	121340411	7	5	134	1	0	1	1	0	0	0	0	0	5763	668	24	0	141	0	FBXO40	3	121340411	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	80176	121340411	76682019	373	73031											
KPNA1	3836	broad.mit.edu	37	chr3	122146494	122146494	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagccatttagggcaacctgTacaatcttagagtccatgac	13	10	8	10	0	1	2	0	1	1	1	2	2	2	2	3	1	3	2	3	1	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:122146494T>C	uc003efd.1	-	13	1356	c.1320A>G	c.(1318-1320)GTA>GTG	p.V440V	KPNA1_uc003efb.1_Silent_p.V239V|KPNA1_uc003efc.1_Silent_p.V239V|KPNA1_uc011bjr.1_Silent_p.V239V|KPNA1_uc010hrh.2_Silent_p.V239V|KPNA1_uc003efe.2_Silent_p.V440V	NM_002264	NP_002255	P52294	IMA1_HUMAN	karyopherin alpha 1	440	ARM 9.				DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|regulation of DNA recombination|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein binding|protein transporter activity				0				GBM - Glioblastoma multiforme(114;0.0898)		GGGCAACCTGTACAATCTTAG	0.428													5	171					0	0	0.000602	0	0		C	122146494	C	C	122146494	2	2	134	1	0	0	0	0	0	0	0	1	8445	1625	57	3		3	KPNA1	3	122146494	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	806083	122146494	75875936	374	73032											
ITGB5	3693	broad.mit.edu	37	chr3	124492710	124492710	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcagttacagttgtccccGatgtaacctgcatggcactt	9	11	10	11	1	0	0	0	0	0	0	1	2	1	0	3	1	4	6	3	1	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:124492710G>A	uc003eho.2	-	11	2040	c.1743C>T	c.(1741-1743)ATC>ATT	p.I581I	ITGB5_uc010hrx.2_RNA|ITGB5_uc003ehp.1_RNA	NM_002213	NP_002204	P18084	ITB5_HUMAN	integrin, beta 5 precursor	581	III.|Extracellular (Potential).|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)		AGTTGTCCCCGATGTAACCTG	0.527													29	58					0	0	0.013726	0	0		A	124492710	A	A	124492710	2	1	134	1	0	0	0	0	0	0	0	1	7914	1048	37	1		1	ITGB5	3	124492710	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2346216	124492710	73529720	375	73033											
CCDC37	348807	broad.mit.edu	37	chr3	126137587	126137587	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgacgagttcgtcagggagaAtgactgcagctccgtgcagg	9	7	15	10	4	1	2	1	1	0	1	3	5	2	2	1	2	3	4	1	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:126137587A>G	uc003eiu.1	+	7	719	c.620A>G	c.(619-621)AAT>AGT	p.N207S	CCDC37_uc010hsg.1_Missense_Mutation_p.N208S	NM_182628	NP_872434	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37	207										ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.166)		GTCAGGGAGAATGACTGCAGC	0.667													10	7					0	0	0.013537	0	0		G	126137587	G	G	126137587	3	3	134	1	0	0	0	0	1	0	0	0	2812	101	4	3	642	3	CCDC37	3	126137587	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1644877	126137587	71884843	376	73034											
C3orf22	152065	broad.mit.edu	37	chr3	126268739	126268739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccctggacagccctgccGccttgctggtctgggggcag	3	7	16	15	1	1	0	0	0	1	0	1	1	1	1	5	5	3	2	5	5	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:126268739G>A	uc003ejb.2	-	4	727	c.398C>T	c.(397-399)GCG>GTG	p.A133V		NM_152533	NP_689746	Q8N5N4	CC022_HUMAN	hypothetical protein LOC152065	133											0				GBM - Glioblastoma multiforme(114;0.147)		CAGCCCTGCCGCCTTGCTGGT	0.627													26	46					0	0	0.005443	0	0		A	126268739	A	A	126268739	3	1	134	1	0	0	0	0	1	0	0	0	2218	1087	38	1	31	1	C3orf22	3	126268739	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	131152	126268739	71753691	377	73035											
MCM2	4171	broad.mit.edu	37	chr3	127339714	127339714	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagttcagcgtcatgcgcagCatgcgcaaggtgggtgtgct	8	9	15	9	3	2	0	2	0	0	0	2	0	2	0	0	2	5	5	0	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:127339714C>G	uc003ejp.2	+	14	2496	c.2439C>G	c.(2437-2439)AGC>AGG	p.S813R	MCM2_uc011bkm.1_Missense_Mutation_p.S683R|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.S766R	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	813					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						TCATGCGCAGCATGCGCAAGG	0.597													63	115					0	0	0.01441	0	0		G	127339714	G	G	127339714	3	3	134	1	0	0	0	0	1	0	0	0	9404	709	25	5	2493	5	MCM2	3	127339714	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1070975	127339714	70682716	378	73036											
PIK3R4	30849	broad.mit.edu	37	chr3	130422668	130422668	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtgttcatcagagactctAattcgattcacagcagattt	12	13	8	8	1	4	2	3	0	1	2	5	5	4	2	0	0	1	2	0	0	1	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:130422668A>G	uc003enj.2	-	13	3578	c.2997T>C	c.(2995-2997)ATT>ATC	p.I999I		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	999	WD 1.				fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						CAGAGACTCTAATTCGATTCA	0.423													90	193					0	0	0.01441	0	0		G	130422668	G	G	130422668	2	3	134	1	0	0	0	0	0	0	0	1	11940	358	13	3		3	PIK3R4	3	130422668	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3082954	130422668	67599762	379	73037											
PIK3R4	30849	broad.mit.edu	37	chr3	130463961	130463961	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaactttaaaaaaccgagtActccccaggcttttatcata	14	11	5	11	1	1	0	1	0	0	0	2	1	2	0	3	1	3	3	3	1	7	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:130463961A>G	uc003enj.2	-	2	683	c.102T>C	c.(100-102)AGT>AGC	p.S34S		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	34	ATP (By similarity).|Protein kinase.				fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						AAAACCGAGTACTCCCCAGGC	0.438													45	78					0	0	0.01441	0	0		G	130463961	G	G	130463961	2	3	134	1	0	0	0	0	0	0	0	1	11940	388	14	3		3	PIK3R4	3	130463961	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	41293	130463961	67558469	380	73038											
ATP2C1	27032	broad.mit.edu	37	chr3	130717188	130717188	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaacaatgaccttcacatgCtttgtgttttttgacatgtt	10	17	6	8	0	1	2	1	2	0	0	1	2	1	2	1	0	2	3	1	0	2	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:130717188C>T	uc003enl.2	+	26	2664	c.2442C>T	c.(2440-2442)TGC>TGT	p.C814C	ATP2C1_uc011blg.1_Silent_p.C848C|ATP2C1_uc011blh.1_Silent_p.C809C|ATP2C1_uc011bli.1_Silent_p.C848C|ATP2C1_uc003enk.2_Silent_p.C798C|ATP2C1_uc003enm.2_Silent_p.C814C|ATP2C1_uc003enn.2_Silent_p.C798C|ATP2C1_uc003eno.2_Silent_p.C814C|ATP2C1_uc003enp.2_Silent_p.C814C|ATP2C1_uc003enq.2_Silent_p.C814C|ATP2C1_uc003enr.2_Silent_p.C814C|ATP2C1_uc003ens.2_Silent_p.C814C|ATP2C1_uc003ent.2_Silent_p.C814C|ATP2C1_uc003enu.2_Silent_p.C492C	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	814	Helical; Name=8; (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	CCTTCACATGCTTTGTGTTTT	0.388									Hailey-Hailey_disease				57	114					0	0	0.01441	0	0		T	130717188	T	T	130717188	2	4	134	1	0	0	0	0	0	0	0	1	1144	805	28	2		2	ATP2C1	3	130717188	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	253227	130717188	67305242	381	73039											
ACPP	55	broad.mit.edu	37	chr3	132071668	132071668	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaattgtactttgagaagggGtaagtgactaagtgcttttc	11	14	12	4	0	0	2	0	2	0	1	1	4	0	2	0	2	2	3	0	2	5	7	rs144833647		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:132071668G>A	uc010htp.2	+	9	1058	c.968_splice	c.e9+1	p.G323_splice	ACPP_uc003eon.3_Splice_Site_p.G290_splice|ACPP_uc003eop.3_Splice_Site_p.G323_splice	NM_001099	NP_001090	P15309	PPAP_HUMAN	acid phosphatase, prostate short isoform							extracellular region|lysosomal membrane	5'-nucleotidase activity|acid phosphatase activity			ovary(1)	1						TTGAGAAGGGGTAAGTGACTA	0.428													25	57					0	0	0.00278	0	0		A	132071668	A	A	132071668	5	1	134	1	0	0	0	0	0	0	1	0	167	1275	44	4	1003	4	ACPP	3	132071668	Splice_Site	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1354480	132071668	65950762	382	73040											
MSL2	55167	broad.mit.edu	37	chr3	135871342	135871344	+	In_Frame_Del	DEL	AGA	-	-																															ttaagcaaagccaaaatatcAgaagaacagtcaactgcttc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:135871342_135871344delAGA	uc003eqx.1	-	2	1112_1114	c.379_381delTCT	c.(379-381)TCTdel	p.S127del	MSL2_uc011bmb.1_In_Frame_Del_p.S53del	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	127					histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						CCAAAATATCAGAAGAACAGTCA	0.384													82	191	---	---	---	---						.	-	135871344	-	-	135871342	7	5	134	1	0	1	0	1	0	0	0	0	9896	175	7	0	1356	0	MSL2	3	135871342	In_Frame_Del	DEL	AGA	TCGA-CG-4442-01A-01D-1158-08	3799674	135871342	62151088	383	73041											
GRK7	131890	broad.mit.edu	37	chr3	141497368	141497368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccacagtgcccacgttccGcaaggcggcaaccttcctag	9	6	10	16	3	0	0	0	0	0	0	2	0	2	0	5	2	3	3	5	2	3	3	rs34429284	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:141497368G>A	uc011bnd.1	+	1	326	c.242G>A	c.(241-243)CGC>CAC	p.R81H		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	81	RGS.				visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						CCCACGTTCCGCAAGGCGGCA	0.647													19	30					0	0	0.005443	0	0		A	141497368	A	A	141497368	3	1	134	1	0	0	0	0	1	0	0	0	6810	1087	38	1	244	1	GRK7	3	141497368	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5626026	141497368	56525062	384	73042											
CPA3	1359	broad.mit.edu	37	chr3	148597629	148597629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacggattgtggcattcacGcacgagaatgggtctcccca	9	10	11	11	3	2	1	1	0	1	1	3	3	2	2	2	3	1	2	2	3	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:148597629G>A	uc003ewm.2	+	6	581	c.529G>A	c.(529-531)GCA>ACA	p.A177T		NM_001870	NP_001861	P15088	CBPA3_HUMAN	carboxypeptidase A3 precursor	177					proteolysis	stored secretory granule|transport vesicle	metallocarboxypeptidase activity|zinc ion binding			breast(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			TGGCATTCACGCACGAGAATG	0.413													72	126					0	0	0.01441	0	0		A	148597629	A	A	148597629	3	1	134	1	0	0	0	0	1	0	0	0	3794	1087	38	1	551	1	CPA3	3	148597629	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	7100261	148597629	49424801	385	73043											
FAM194A	131831	broad.mit.edu	37	chr3	150421606	150421606	+	Missense_Mutation	SNP	T	A	A																															cctcttcctcctcctcctccTcctctaactcctcctctgac																								rs140978408	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:150421606T>A	uc003eyg.2	-	1	137	c.80A>T	c.(79-81)GAG>GTG	p.E27V	FAM194A_uc003eyh.2_5'UTR	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	27	Glu-rich.									skin(2)|ovary(1)	3						ctcctcctcctcctctaactc	0.274													11	40					0	0	0.00245	0	0		A	150421606	A	A	150421606	3	1	134	1	0	0	0	0	1	0	0	0	5537	1551	54	5	1967	5	FAM194A	3	150421606	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1823977	150421606	47600824	386	73044	135	2									
FAM194A	131831	broad.mit.edu	37	chr3	150421612	150421613	+	Missense_Mutation	DNP	AA	TC	TC																															cctcctcctcctcctcctctAactcctcctctgactccttc																								rs144754399		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:150421612_150421613AA>TC	uc003eyg.2	-	1	130_131	c.73_74TT>GA	c.(73-75)TTA>GAA	p.L25E	FAM194A_uc003eyh.2_5'UTR	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	25	Glu-rich.									skin(2)|ovary(1)	3						ctcctcctctaactcctcctcT	0.297													11	40					0	0	0.004672	0	0		TC	150421613	TC	TC	150421612	3	4	134	1	0	0	0	0	1	0	0	0	5537	372	13	5	1973	5	FAM194A	3	150421612	Missense_Mutation	DNP	AA	TCGA-CG-4442-01A-01D-1158-08	6	150421612	47600818	387	73045	135	2									
SIAH2	6478	broad.mit.edu	37	chr3	150460129	150460129	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtctgtaggcaaagttctcGgcttgcttgcgggtgccaat	7	12	13	9	2	2	0	0	0	2	0	3	0	2	0	1	3	3	5	1	3	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:150460129G>A	uc003eyi.2	-	2	1401	c.774C>T	c.(772-774)GCC>GCT	p.A258A		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	258	SBD.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CAAAGTTCTCGGCTTGCTTGC	0.562													37	45					0	0	0.004878	0	0		A	150460129	A	A	150460129	2	1	134	1	0	0	0	0	0	0	0	1	14325	1103	39	1		1	SIAH2	3	150460129	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	38517	150460129	47562301	388	73046											
P2RY12	64805	broad.mit.edu	37	chr3	151055936	151055936	+	Frame_Shift_Del	DEL	T	-	-																															tgaaaactttgacgttcaccTttttcctggggactttacct																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:151055936delT	uc003eyw.1	-	2	914	c.698delA	c.(697-699)AAGfs	p.K233fs	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY12_uc011boa.1_3'UTR|P2RY12_uc003eyx.1_Frame_Shift_Del_p.K233fs	NM_176876	NP_795345	Q9H244	P2Y12_HUMAN	purinergic receptor P2Y12	233	Cytoplasmic (Potential).				platelet activation	integral to membrane|plasma membrane	guanyl-nucleotide exchange factor activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)		Clopidogrel(DB00758)|Epoprostenol(DB01240)|Ticlopidine(DB00208)|Treprostinil(DB00374)	GACGTTCACCTTTTTCCTGGG	0.373													53	74	---	---	---	---						.	-	151055936	-	-	151055936	7	5	134	1	0	1	0	1	0	0	0	0	11368	1609	56	0	334	0	P2RY12	3	151055936	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	595807	151055936	46966494	389	73047											
MED12L	116931	broad.mit.edu	37	chr3	151129094	151129094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acagggctatacaatgtatgGgacacagatgcctttgcagc	12	9	11	9	0	0	1	0	0	0	1	0	2	0	2	1	2	4	3	1	2	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:151129094G>A	uc003eyp.2	+	39	5872	c.5834G>A	c.(5833-5835)GGG>GAG	p.G1945E	MED12L_uc011bnz.1_Intron	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1945	Gln-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ACAATGTATGGGACACAGATG	0.512													42	83					0	0	0.011902	0	0		A	151129094	A	A	151129094	3	1	134	1	0	0	0	0	1	0	0	0	9447	1232	43	4	5988	4	MED12L	3	151129094	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	73158	151129094	46893336	390	73048											
MME	4311	broad.mit.edu	37	chr3	154861271	154861271	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaacagcaacttggagaCgttgtgcaaactatgtcaat	15	9	9	8	1	1	2	1	0	0	2	1	3	1	2	0	1	5	3	0	1	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:154861271C>T	uc010hvr.1	+	13	1439	c.1228C>T	c.(1228-1230)CGT>TGT	p.R410C	MME_uc003fab.1_Missense_Mutation_p.R410C|MME_uc003fac.1_Missense_Mutation_p.R410C|MME_uc003fad.1_Missense_Mutation_p.R410C|MME_uc003fae.1_Missense_Mutation_p.R410C	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	410	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	AACTTGGAGACGTTGTGCAAA	0.428													89	121					0	0	0.01441	0	0		T	154861271	T	T	154861271	3	4	134	1	0	0	0	0	1	0	0	0	9663	536	19	1	1274	1	MME	3	154861271	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3732177	154861271	43161159	391	73049											
NMD3	51068	broad.mit.edu	37	chr3	160964183	160964183	+	Frame_Shift_Del	DEL	T	-	-																															atgaatacagataaacagtaTttttgtcgtactcatttggg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:160964183delT	uc003feb.1	+	12	1196	c.1077delT	c.(1075-1077)TATfs	p.Y359fs	NMD3_uc003fec.2_Frame_Shift_Del_p.Y359fs|NMD3_uc003fed.1_Frame_Shift_Del_p.Y359fs|NMD3_uc010hwh.2_Frame_Shift_Del_p.Y179fs	NM_015938	NP_057022	Q96D46	NMD3_HUMAN	NMD3 homolog	359					protein transport	cytoplasm|nucleolus|nucleoplasm				ovary(1)	1			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			ATAAACAGTATTTTTGTCGTA	0.353													38	63	---	---	---	---						.	-	160964183	-	-	160964183	7	5	134	1	0	1	0	1	0	0	0	0	10507	1500	52	0	1119	0	NMD3	3	160964183	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	6102912	160964183	37058247	392	73050											
ZBBX	79740	broad.mit.edu	37	chr3	167045770	167045770	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtttcttgttgtcatcAtgatttccggttctccattg	4	21	7	9	1	5	1	2	1	3	0	7	1	6	1	2	1	0	3	2	1	0	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:167045770A>G	uc003fep.2	-	11	1145	c.822T>C	c.(820-822)CAT>CAC	p.H274H	ZBBX_uc011bpc.1_Silent_p.H274H|ZBBX_uc003feq.2_Silent_p.H245H	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	274						intracellular	zinc ion binding			ovary(2)	2						TGTTGTCATCATGATTTCCGG	0.303													96	163					0	0	0.01441	0	0		G	167045770	G	G	167045770	2	3	134	1	0	0	0	0	0	0	0	1	17542	214	8	3		3	ZBBX	3	167045770	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	6081587	167045770	30976660	393	73051											
PRKCI	5584	broad.mit.edu	37	chr3	170013723	170013723	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggaaaaacaaattcgcaTaccacgttctctgtctgtaa	13	13	6	9	2	2	0	0	0	2	0	4	1	2	1	1	1	2	3	1	1	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:170013723T>A	uc003fgs.2	+	15	1680	c.1442T>A	c.(1441-1443)ATA>AAA	p.I481K	PRKCI_uc003fgt.2_Missense_Mutation_p.I36K	NM_002740	NP_002731	P41743	KPCI_HUMAN	protein kinase C, iota	481	Protein kinase.				anti-apoptosis|cellular membrane organization|cellular response to insulin stimulus|establishment or maintenance of epithelial cell apical/basal polarity|intracellular signal transduction|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|protein targeting to membrane|secretion|tight junction assembly|vesicle-mediated transport	cytosol|endosome|nucleus|polarisome	ATP binding|phospholipid binding|protein binding|protein kinase C activity|zinc ion binding			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			CAAATTCGCATACCACGTTCT	0.234													8	130					0	0	0.00308	0	0		A	170013723	A	A	170013723	3	1	134	1	0	0	0	0	1	0	0	0	12536	1406	49	5	1500	5	PRKCI	3	170013723	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2967953	170013723	28008707	394	73052											
FNDC3B	64778	broad.mit.edu	37	chr3	172061960	172061960	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacgtagcctcggaagtgtAccatggcccagagctggagt	10	7	14	10	2	0	2	0	0	0	2	1	4	0	4	3	3	3	3	3	3	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:172061960A>G	uc003fhy.2	+	19	2334	c.2162A>G	c.(2161-2163)TAC>TGC	p.Y721C	FNDC3B_uc003fhz.3_Missense_Mutation_p.Y721C	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	721	Fibronectin type-III 5.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		TCGGAAGTGTACCATGGCCCA	0.562													8	240					0	0	0.006214	0	0		G	172061960	G	G	172061960	3	3	134	1	0	0	0	0	1	0	0	0	5984	391	14	3	2232	3	FNDC3B	3	172061960	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2048237	172061960	25960470	395	73053											
GHSR	2693	broad.mit.edu	37	chr3	172165646	172165646	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagggtcggtgccgttctcGtgctccaccccgactagcac	6	8	11	16	4	1	0	0	0	1	0	4	1	2	0	4	2	3	3	4	2	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:172165646G>A	uc003fib.1	-	1	558	c.558C>T	c.(556-558)CAC>CAT	p.H186H	GHSR_uc011bpv.1_Silent_p.H186H	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	186	Extracellular (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			TGCCGTTCTCGTGCTCCACCC	0.647													9	78					0	0	0.006214	0	0		A	172165646	A	A	172165646	2	1	134	1	0	0	0	0	0	0	0	1	6390	1136	40	1		1	GHSR	3	172165646	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	103686	172165646	25856784	396	73054											
PIK3CA	5290	broad.mit.edu	37	chr3	178952085	178952085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacaaatgaatgatgcacAtcatggtggctggacaacaa	17	7	10	7	0	1	2	1	2	0	0	1	4	1	3	0	3	3	2	0	3	5	0	rs121913279		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:178952085A>G	uc003fjk.2	+	21	3297	c.3140A>G	c.(3139-3141)CAT>CGT	p.H1047R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1047	PI3K/PI4K.		H -> L (in cancer).|H -> R (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; requires binding to p85 regulatory subunit to induce cellular transformation but not interaction with RAS; may mimic the conformatitonal change triggered by the interaction with RAS; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells; increases lipid kinase activity; may alter the interaction of the PI3K/ PI4K kinase domain with the cell membrane).|H -> Y (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.H1047R(1269)|p.H1047L(152)|p.H1047Y(31)|p.H1047Q(3)|p.H1047T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AATGATGCACATCATGGTGGC	0.378	H1047R(BT20_BREAST)|H1047R(NCIH1048_LUNG)|H1047R(MCAS_OVARY)|H1047R(HCC1954_BREAST)|H1047R(RKO_LARGE_INTESTINE)|H1047L(EFM19_BREAST)|H1047R(CAL33_UPPER_AERODIGESTIVE_TRACT)|H1047R(CAL29_URINARY_TRACT)|H1047R(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|H1047R(LS180_LARGE_INTESTINE)|H1047R(T47D_BREAST)|H1047R(HCT116_LARGE_INTESTINE)|H1047R(HSC2_UPPER_AERODIGESTIVE_TRACT)|H1047R(SKOV3_OVARY)|H1047R(MDAMB453_BREAST)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			54	82					0	0	0.01441	0	0		G	178952085	G	G	178952085	3	3	134	1	0	0	0	0	1	0	0	0	11932	217	8	3	3218	3	PIK3CA	3	178952085	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	6786439	178952085	19070345	397	73055											
GNB4	59345	broad.mit.edu	37	chr3	179123026	179123026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacattacaattaaagtcatCgtaaccagccaacaagagac	18	8	5	10	1	1	1	1	0	0	1	2	2	1	1	2	0	5	1	2	0	8	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:179123026C>T	uc003fjv.3	-	9	1148	c.868G>A	c.(868-870)GAT>AAT	p.D290N	GNB4_uc003fju.3_Intron	NM_021629	NP_067642	Q9HAV0	GBB4_HUMAN	guanine nucleotide-binding protein, beta-4	290	WD 6.				cellular response to glucagon stimulus|energy reserve metabolic process	plasma membrane	signal transducer activity			skin(2)	2	all_cancers(143;2.01e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.237)			TTAAAGTCATCGTAACCAGCC	0.398													63	119					0	0	0.01441	0	0		T	179123026	T	T	179123026	3	4	134	1	0	0	0	0	1	0	0	0	6535	884	31	1	162	1	GNB4	3	179123026	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	170941	179123026	18899404	398	73056											
USP13	8975	broad.mit.edu	37	chr3	179472611	179472611	+	Frame_Shift_Del	DEL	C	-	-																															gaagaacttccagacatcagCccccccatagtcattcctga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:179472611delC	uc003fkh.2	+	15	1971	c.1890delC	c.(1888-1890)AGCfs	p.S630fs	USP13_uc003fkf.2_Frame_Shift_Del_p.A558fs	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	630					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			CAGACATCAGCCCCCCCATAG	0.483													62	135	---	---	---	---						.	-	179472611	-	-	179472611	7	5	134	1	0	1	0	1	0	0	0	0	17070	738	26	0	1948	0	USP13	3	179472611	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	349585	179472611	18549819	399	73057											
ATP11B	23200	broad.mit.edu	37	chr3	182583408	182583408	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttatcttatcttagtagTttatcccatcttaacaactt	12	18	2	9	0	3	0	0	0	3	0	4	0	4	0	1	0	3	2	1	0	8	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:182583408T>C	uc003flb.2	+	13	1622	c.1365T>C	c.(1363-1365)AGT>AGC	p.S455S	ATP11B_uc003flc.2_Silent_p.S39S	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	455	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			ATCTTAGTAGTTTATCCCATC	0.338													6	211					0	0	0.001168	0	0		C	182583408	C	C	182583408	2	2	134	1	0	0	0	0	0	0	0	1	1121	1722	60	3		3	ATP11B	3	182583408	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3110797	182583408	15439022	400	73058											
EIF4G1	1981	broad.mit.edu	37	chr3	184035509	184035509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccttccccaccaggggcGttccacatacgttgtcccga	6	8	8	19	3	0	0	0	0	0	0	3	1	3	0	7	2	1	2	7	2	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:184035509G>A	uc003fnp.2	+	6	527	c.329G>A	c.(328-330)CGT>CAT	p.R110H	EIF4G1_uc003fno.1_Missense_Mutation_p.R51H|EIF4G1_uc010hxw.1_Intron|EIF4G1_uc003fnt.2_5'UTR|EIF4G1_uc003fnq.2_Missense_Mutation_p.R23H|EIF4G1_uc003fnr.2_5'UTR|EIF4G1_uc010hxx.2_Missense_Mutation_p.R117H|EIF4G1_uc003fns.2_Missense_Mutation_p.R70H|EIF4G1_uc010hxy.2_Missense_Mutation_p.R117H|EIF4G1_uc010hxz.1_Missense_Mutation_p.R23H|EIF4G1_uc003fnv.3_Missense_Mutation_p.R110H|EIF4G1_uc003fnu.3_Missense_Mutation_p.R110H|EIF4G1_uc003fnw.2_Missense_Mutation_p.R117H|EIF4G1_uc003fnx.2_5'Flank|EIF4G1_uc003fny.3_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	110					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CACCAGGGGCGTTCCACATAC	0.542													22	28					0	0	0.010504	0	0		A	184035509	A	A	184035509	3	1	134	1	0	0	0	0	1	0	0	0	5044	1145	40	1	343	1	EIF4G1	3	184035509	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1452101	184035509	13986921	401	73059											
EIF4G1	1981	broad.mit.edu	37	chr3	184042123	184042123	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagcaaaaagagatggaTgaagctgctacggtgagaga	18	5	14	4	1	0	5	0	2	0	3	0	8	0	6	0	2	4	3	0	2	6	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:184042123T>C	uc003fnp.2	+	17	2805	c.2607T>C	c.(2605-2607)GAT>GAC	p.D869D	EIF4G1_uc003fno.1_Silent_p.D810D|EIF4G1_uc010hxw.1_Silent_p.D705D|EIF4G1_uc003fnt.2_Silent_p.D580D|EIF4G1_uc003fnq.2_Silent_p.D782D|EIF4G1_uc003fnr.2_Silent_p.D705D|EIF4G1_uc010hxx.2_Silent_p.D876D|EIF4G1_uc003fns.2_Silent_p.D829D|EIF4G1_uc010hxy.2_Silent_p.D876D|EIF4G1_uc003fnv.3_Silent_p.D870D|EIF4G1_uc003fnu.3_Silent_p.D869D|EIF4G1_uc003fnw.2_Silent_p.D876D|EIF4G1_uc003fnx.2_Silent_p.D674D|EIF4G1_uc003fny.3_Silent_p.D673D|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	869	eIF3/EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AAGAGATGGATGAAGCTGCTA	0.438													66	93					0	0	0.01441	0	0		C	184042123	C	C	184042123	2	2	134	1	0	0	0	0	0	0	0	1	5044	1461	51	3		3	EIF4G1	3	184042123	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	6614	184042123	13980307	402	73060											
CLCN2	1181	broad.mit.edu	37	chr3	184071569	184071569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccatgatgtcctccacaCgcacccggtactgcctgggg	7	7	11	16	2	0	1	0	1	0	0	2	1	2	1	5	3	2	3	5	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:184071569C>T	uc003foi.2	-	16	1860	c.1736G>A	c.(1735-1737)CGT>CAT	p.R579H	CLCN2_uc003foh.2_Missense_Mutation_p.R103H|CLCN2_uc010hya.1_Missense_Mutation_p.R562H|CLCN2_uc011brl.1_Missense_Mutation_p.R579H|CLCN2_uc011brm.1_Missense_Mutation_p.R535H	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	579	Cytoplasmic (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	GTCCTCCACACGCACCCGGTA	0.642													5	13					0	0	0.000602	0	0		T	184071569	T	T	184071569	3	4	134	1	0	0	0	0	1	0	0	0	3466	536	19	1	996	1	CLCN2	3	184071569	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	29446	184071569	13950861	403	73061											
OPA1	4976	broad.mit.edu	37	chr3	193334982	193334982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccagagaaaattagaaaagCccttcctagttcagaagacc	16	8	7	10	0	1	4	1	0	0	4	3	5	3	4	4	0	1	1	4	0	7	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:193334982C>T	uc003ftm.2	+	4	698	c.464C>T	c.(463-465)GCC>GTC	p.A155V	OPA1_uc003ftg.2_Missense_Mutation_p.A155V|OPA1_uc003fth.2_Intron|OPA1_uc003fti.2_Missense_Mutation_p.A155V|OPA1_uc003ftj.2_Missense_Mutation_p.A155V|OPA1_uc003ftk.2_Intron|OPA1_uc003ftl.2_Intron|OPA1_uc003ftn.2_Intron	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1	155	Mitochondrial intermembrane (By similarity).				apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		ATTAGAAAAGCCCTTCCTAGT	0.269													22	58					0	0	0.010504	0	0		T	193334982	T	T	193334982	3	4	134	1	0	0	0	0	1	0	0	0	10890	739	26	2	478	2	OPA1	3	193334982	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	9263413	193334982	4687448	404	73062											
CPN2	1370	broad.mit.edu	37	chr3	194062086	194062086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaagcccaagtggtccCgggtgacgggacacaccagc	9	4	14	14	2	0	1	0	1	0	0	1	3	1	3	4	4	2	0	4	4	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:194062086C>T	uc003fts.2	-	2	1436	c.1346G>A	c.(1345-1347)CGG>CAG	p.R449Q		NM_001080513	NP_001073982	P22792	CPN2_HUMAN	carboxypeptidase N, polypeptide 2	449					protein stabilization	extracellular region	enzyme regulator activity			ovary(5)	5	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.65e-05)		CAAGTGGTCCCGGGTGACGGG	0.652													58	138					0	0	0.01441	0	0		T	194062086	T	T	194062086	3	4	134	1	0	0	0	0	1	0	0	0	3813	652	23	1	295	1	CPN2	3	194062086	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	727104	194062086	3960344	405	73063											
ATP13A3	79572	broad.mit.edu	37	chr3	194169309	194169309	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atataattcatctcctattcCtttcacatccactgaaggat	12	15	3	11	0	3	1	2	1	1	0	6	2	5	2	3	1	0	0	3	1	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:194169309C>A	uc003fty.3	-	11	1429	c.1027G>T	c.(1027-1029)GGA>TGA	p.G343*	ATP13A3_uc003ftz.1_Nonsense_Mutation_p.G49*	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	343					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		TCTCCTATTCCTTTCACATCC	0.338													43	90					5.20837e-25	6.05037e-25	0.00874	1	0		A	194169309	A	A	194169309	4	1	134	1	0	0	0	0	0	1	0	0	1126	690	24	5	2741	5	ATP13A3	3	194169309	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	107223	194169309	3853121	406	73064											
RNF168	165918	broad.mit.edu	37	chr3	196199224	196199224	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatccttgactgcttcaaaGgaagattcttggttttttct	8	17	9	7	0	3	2	1	1	2	1	4	4	4	4	1	3	1	2	1	3	2	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:196199224G>T	uc003fwq.2	-	6	1720	c.1182C>A	c.(1180-1182)TCC>TCA	p.S394S	RNF168_uc010iah.2_Silent_p.S227S|uc010iag.1_5'Flank	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	394					double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		CTGCTTCAAAGGAAGATTCTT	0.398													98	186					1.49228e-48	1.78082e-48	0.01441	1	0		T	196199224	T	T	196199224	2	4	134	1	0	0	0	0	0	0	0	1	13484	987	35	5		5	RNF168	3	196199224	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2029915	196199224	1823206	407	73065											
MFI2	4241	broad.mit.edu	37	chr3	196748318	196748318	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcttcacaaaagccacGtcccctgccccttccgccag	7	8	7	19	2	1	0	1	0	0	0	3	0	3	0	7	0	3	1	7	0	2	2	rs148913417	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr3:196748318G>A	uc003fxk.3	-	6	782	c.669C>T	c.(667-669)GAC>GAT	p.D223D	MFI2_uc003fxl.3_Silent_p.D223D|MFI2_uc011bua.1_Missense_Mutation_p.T196M	NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	223	Transferrin-like 1.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		CAAAAGCCACGTCCCCTGCCC	0.672													29	53					0	0	0.012213	0	0		A	196748318	A	A	196748318	2	1	134	1	0	0	0	0	0	0	0	1	9540	1136	40	1		1	MFI2	3	196748318	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	549094	196748318	1274112	408	73066											
ZNF718	255403	broad.mit.edu	37	chr4	155138	155138	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaaacataagagaattcaTgccagagagaaattctacaa	20	8	6	7	0	2	3	1	0	1	3	2	5	2	3	1	0	3	0	1	0	7	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:155138T>C	uc003fzt.3	+	8	796	c.663T>C	c.(661-663)CAT>CAC	p.H221H	ZNF595_uc003fzu.1_Intron|ZNF718_uc010iaz.2_RNA|ZNF718_uc003fzw.3_Missense_Mutation_p.M1T	NM_001039127	NP_001034216	Q3SXZ3	ZN718_HUMAN	zinc finger protein 718	221	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0681)|Epithelial(2;0.0838)|all cancers(2;0.135)|LUSC - Lung squamous cell carcinoma(95;0.18)		AGAGAATTCATGCCAGAGAGA	0.383													19	47					0	0	0.006122	0	0		C	155138	C	C	155138	2	2	134	1	0	0	0	0	0	0	0	1	18145	1461	51	3		3	ZNF718	4	155138	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08		155138	190999138	409	73067											
TMEM175	84286	broad.mit.edu	37	chr4	951976	951976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cggcgctgctgcaccaggcgGagacgctgcagccctcggtg	5	5	16	15	5	0	1	0	0	0	1	1	2	0	1	2	4	4	5	2	4	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:951976G>A	uc003gbq.2	+	11	1305	c.1207G>A	c.(1207-1209)GAG>AAG	p.E403K	TMEM175_uc003gbr.2_Missense_Mutation_p.E321K|TMEM175_uc003gbu.2_Missense_Mutation_p.E321K|TMEM175_uc003gbs.2_Missense_Mutation_p.E286K|TMEM175_uc003gbt.2_Missense_Mutation_p.E286K|TMEM175_uc003gbv.2_Missense_Mutation_p.E286K|TMEM175_uc010ibm.2_Missense_Mutation_p.E219K	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	403						integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GCACCAGGCGGAGACGCTGCA	0.667													11	35					0	0	0.001855	0	0		A	951976	A	A	951976	3	1	134	1	0	0	0	0	1	0	0	0	16116	1175	41	4	1245	4	TMEM175	4	951976	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	796838	951976	190202300	410	73068											
TMEM175	84286	broad.mit.edu	37	chr4	952157	952157	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgccttcctgttgctgcGcctgctcgtgggcctggccc	0	11	13	17	3	0	0	0	0	0	0	2	0	1	0	5	2	4	3	5	2	0	2	rs139453980		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:952157G>A	uc003gbq.2	+	11	1486	c.1388G>A	c.(1387-1389)CGC>CAC	p.R463H	TMEM175_uc003gbr.2_Missense_Mutation_p.R381H|TMEM175_uc003gbu.2_Missense_Mutation_p.R381H|TMEM175_uc003gbs.2_Missense_Mutation_p.R346H|TMEM175_uc003gbt.2_Missense_Mutation_p.R346H|TMEM175_uc003gbv.2_Missense_Mutation_p.R346H|TMEM175_uc010ibm.2_Missense_Mutation_p.R279H	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	463	Helical; (Potential).					integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CTGTTGCTGCGCCTGCTCGTG	0.721													16	42					0	0	0.007413	0	0		A	952157	A	A	952157	3	1	134	1	0	0	0	0	1	0	0	0	16116	1087	38	1	1426	1	TMEM175	4	952157	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	181	952157	190202119	411	73069											
IDUA	3425	broad.mit.edu	37	chr4	995261	995261	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggctcctctgcaggtaggTacggactggcgcatgtttcc	7	10	13	11	2	1	0	0	0	1	0	3	1	3	1	2	5	2	6	2	5	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:995261T>C	uc003gby.2	+	5	587	c.499T>C	c.(499-501)TAC>CAC	p.Y167H	IDUA_uc003gbz.2_RNA|IDUA_uc003gca.2_Missense_Mutation_p.Y120H	NM_000203	NP_000194	P35475	IDUA_HUMAN	alpha-L-iduronidase precursor	167					disaccharide metabolic process	lysosome	cation binding|L-iduronidase activity				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)		Laronidase(DB00090)	TGCAGGTAGGTACGGACTGGC	0.582													6	168					0	0	0.00308	0	0		C	995261	C	C	995261	3	2	134	1	0	0	0	0	1	0	0	0	7520	1638	57	3	517	3	IDUA	4	995261	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	43104	995261	190159015	412	73070											
CRIPAK	285464	broad.mit.edu	37	chr4	1388791	1388791	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcacacgtgccgacgtGgagtgcccgcctgctcacac	6	7	11	17	4	2	0	2	0	0	0	2	2	2	1	3	1	4	2	3	1	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:1388791G>A	uc003gdf.2	+	1	3452	c.492G>A	c.(490-492)GTG>GTA	p.V164V		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	164					ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			GTGCCGACGTGGAGTGCCCGC	0.687													10	252					0	0	0.007413	0	0		A	1388791	A	A	1388791	2	1	134	1	0	0	0	0	0	0	0	1	3880	1335	47	4		4	CRIPAK	4	1388791	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	393530	1388791	189765485	413	73071											
WHSC2	7469	broad.mit.edu	37	chr4	1993312	1993312	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatatcctgaacgttgggaTtctgctcctccagctccagg	9	11	9	12	1	1	1	0	1	1	0	5	2	5	2	4	2	3	3	4	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:1993312T>G	uc003gem.2	-	2	614	c.374A>C	c.(373-375)AAT>ACT	p.N125T	WHSC2_uc003gel.2_Missense_Mutation_p.N39T|WHSC2_uc003gen.2_Intron	NM_005663	NP_005654	Q9H3P2	NELFA_HUMAN	Wolf-Hirschhorn syndrome candidate 2 protein	114					multicellular organismal development|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm				skin(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0155)			AACGTTGGGATTCTGCTCCTC	0.502													57	142					0	0	0.01441	0	0		G	1993312	G	G	1993312	3	3	134	1	0	0	0	0	1	0	0	0	17390	1493	52	5	1285	5	WHSC2	4	1993312	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	604521	1993312	189160964	414	73072											
POLN	353497	broad.mit.edu	37	chr4	2083454	2083454	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggggtctccttctgcccatGatggacaccacacagcctga	9	8	10	14	0	2	2	0	2	2	0	3	3	2	3	4	3	2	0	4	3	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:2083454G>A	uc003ger.2	-	20	2214	c.2214C>T	c.(2212-2214)ATC>ATT	p.I738I	POLN_uc010icg.1_Silent_p.I186I|POLN_uc010ich.1_Silent_p.I270I	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	738					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			TTCTGCCCATGATGGACACCA	0.587								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					19	47					0	0	0.012319	0	0		A	2083454	A	A	2083454	2	1	134	1	0	0	0	0	0	0	0	1	12226	1280	45	4		4	POLN	4	2083454	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	90142	2083454	189070822	415	73073											
POLN	353497	broad.mit.edu	37	chr4	2200403	2200403	+	Frame_Shift_Del	DEL	T	-	-																															tggccaccctctgcttggcgTtttactaacaccacaattcc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:2200403delT	uc003ger.2	-	4	756	c.756delA	c.(754-756)AAAfs	p.K252fs	POLN_uc010ich.1_5'UTR|POLN_uc011bvi.1_Frame_Shift_Del_p.K252fs	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	252					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			CTGCTTGGCGTTTTACTAACA	0.458								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					72	127	---	---	---	---						.	-	2200403	-	-	2200403	7	5	134	1	0	1	0	1	0	0	0	0	12226	1722	60	0	2030	0	POLN	4	2200403	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	116949	2200403	188953873	416	73074											
SH3BP2	6452	broad.mit.edu	37	chr4	2831297	2831297	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccttctctgacatgcccCgggcccactcctttacctcc	5	10	6	20	1	1	1	0	1	1	0	4	1	3	1	7	1	3	0	7	1	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:2831297C>A	uc003gfi.3	+	8	784	c.664C>A	c.(664-666)CGG>AGG	p.R222R	SH3BP2_uc011bvp.1_Silent_p.R250R|SH3BP2_uc003gfj.3_Silent_p.R279R|SH3BP2_uc003gfk.3_Silent_p.R222R|SH3BP2_uc003gfl.3_Silent_p.R155R|SH3BP2_uc003gfm.3_Silent_p.R197R	NM_001122681	NP_001116153	P78314	3BP2_HUMAN	SH3-domain binding protein 2 isoform a	222					signal transduction		SH3 domain binding|SH3/SH2 adaptor activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.164)		TGACATGCCCCGGGCCCACTC	0.667									Cherubism				62	86					5.00936e-31	5.90095e-31	0.01441	1	0		A	2831297	A	A	2831297	2	1	134	1	0	0	0	0	0	0	0	1	14270	643	23	5		5	SH3BP2	4	2831297	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	630894	2831297	188322979	417	73075											
RGS12	6002	broad.mit.edu	37	chr4	3318198	3318198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattgctgaaggcgtcggcCgcttcgaatcctgttccagt	6	12	12	11	4	0	2	0	2	0	0	4	3	2	2	3	2	1	3	3	2	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:3318198C>T	uc003ggw.2	+	2	1205	c.301C>T	c.(301-303)CGC>TGC	p.R101C	RGS12_uc003ggu.2_Missense_Mutation_p.R101C|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Missense_Mutation_p.R101C|RGS12_uc003ggx.1_Missense_Mutation_p.R101C	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	101						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		AGGCGTCGGCCGCTTCGAATC	0.458													55	91					0	0	0.01441	0	0		T	3318198	T	T	3318198	3	4	134	1	0	0	0	0	1	0	0	0	13320	652	23	1	303	1	RGS12	4	3318198	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	486901	3318198	187836078	418	73076											
RGS12	6002	broad.mit.edu	37	chr4	3425305	3425305	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcccaccaagcccgtcacGgaggtgctgcggcccgtggt	7	5	14	15	4	1	0	1	0	0	0	1	1	1	1	4	4	4	1	4	4	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:3425305G>A	uc003ggw.2	+	13	4075	c.3171G>A	c.(3169-3171)ACG>ACA	p.T1057T	RGS12_uc003ggv.2_Silent_p.T1057T|RGS12_uc003ggy.1_Silent_p.T455T|RGS12_uc003ggz.2_Silent_p.T409T|RGS12_uc010icu.1_Silent_p.T256T|RGS12_uc011bvs.1_Silent_p.T399T|RGS12_uc003gha.2_Silent_p.T399T|RGS12_uc010icv.2_Silent_p.T256T|RGS12_uc003ghb.2_Silent_p.T256T	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	1057	RBD 2.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		AGCCCGTCACGGAGGTGCTGC	0.622													26	55					0	0	0.009535	0	0		A	3425305	A	A	3425305	2	1	134	1	0	0	0	0	0	0	0	1	13320	1103	39	1		1	RGS12	4	3425305	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	107107	3425305	187728971	419	73077											
HGFAC	3083	broad.mit.edu	37	chr4	3444812	3444812	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggccctgcaggttccccTtccgctacgggggccgcatg	4	7	15	15	3	0	0	0	0	0	0	2	1	2	1	5	5	2	4	5	5	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:3444812T>C	uc003ghc.2	+	3	337	c.334T>C	c.(334-336)TTC>CTC	p.F112L	HGFAC_uc010icw.2_Missense_Mutation_p.F112L	NM_001528	NP_001519	Q04756	HGFA_HUMAN	HGF activator preproprotein	112	Fibronectin type-II.				proteolysis	extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(2)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		CAGGTTCCCCTTCCGCTACGG	0.716													3	27					0	0	0.004672	0	0		C	3444812	C	C	3444812	3	2	134	1	0	0	0	0	1	0	0	0	7102	1609	56	3	344	3	HGFAC	4	3444812	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	19507	3444812	187709464	420	73078											
DOK7	285489	broad.mit.edu	37	chr4	3494914	3494914	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaccaggtgcccacctccCtgcgggcccactatgacaca	9	6	9	17	1	0	1	0	1	0	0	1	1	1	1	5	2	3	1	5	2	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:3494914C>A	uc003ghd.2	+	7	1271	c.1201C>A	c.(1201-1203)CTG>ATG	p.L401M	DOK7_uc003ghe.2_Missense_Mutation_p.L263M|DOK7_uc003ghf.2_Silent_p.P142P|DOK7_uc003ghg.1_Missense_Mutation_p.L91M	NM_173660	NP_775931	Q18PE1	DOK7_HUMAN	downstream of tyrosine kinase 7 isoform 1	401					positive regulation of protein tyrosine kinase activity	cell junction|synapse	insulin receptor binding|protein kinase binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		GCCCACCTCCCTGCGGGCCCA	0.697													10	23					1.58986e-06	1.74512e-06	0.008291	1	0		A	3494914	A	A	3494914	3	1	134	1	0	0	0	0	1	0	0	0	4708	680	24	5	1227	5	DOK7	4	3494914	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	50102	3494914	187659362	421	73079											
DOK7	285489	broad.mit.edu	37	chr4	3494970	3494970	+	Frame_Shift_Del	DEL	C	-	-																															ctggctcctagagaccacagCcccccctcacagggcagccc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:3494970delC	uc003ghd.2	+	7	1327	c.1257delC	c.(1255-1257)AGCfs	p.S419fs	DOK7_uc003ghe.2_Frame_Shift_Del_p.S281fs|DOK7_uc003ghf.2_Frame_Shift_Del_p.A161fs|DOK7_uc003ghg.1_Frame_Shift_Del_p.S109fs	NM_173660	NP_775931	Q18PE1	DOK7_HUMAN	downstream of tyrosine kinase 7 isoform 1	419					positive regulation of protein tyrosine kinase activity	cell junction|synapse	insulin receptor binding|protein kinase binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		GAGACCACAGCCCCCCCTCAC	0.711													13	27	---	---	---	---						.	-	3494970	-	-	3494970	7	5	134	1	0	1	0	1	0	0	0	0	4708	738	26	0	1283	0	DOK7	4	3494970	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	56	3494970	187659306	422	73080											
TMEM128	85013	broad.mit.edu	37	chr4	4239591	4239591	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagtgtgataaacatgacaAcccccataaactgggtaaac	16	7	9	9	0	0	2	0	2	0	0	0	3	0	3	2	2	4	1	2	2	7	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:4239591A>G	uc003ghr.1	-	4	500	c.470T>C	c.(469-471)GTT>GCT	p.V157A	TMEM128_uc003ghq.1_Missense_Mutation_p.V133A|TMEM128_uc003ghs.2_3'UTR|TMEM128_uc011bvv.1_Missense_Mutation_p.V157A|TMEM128_uc011bvw.1_Intron	NM_032927	NP_116316	Q5BJH2	TM128_HUMAN	transmembrane protein 128	157	Helical; (Potential).					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (64;0.166)		AAACATGACAACCCCCATAAA	0.363													13	36					0	0	0.003163	0	0		G	4239591	G	G	4239591	3	3	134	1	0	0	0	0	1	0	0	0	16066	43	2	3	31	3	TMEM128	4	4239591	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	744621	4239591	186914685	423	73081											
CYTL1	54360	broad.mit.edu	37	chr4	5021035	5021035	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccgagggctccgagacCtgcaggaggttgaagtcgcg	8	6	15	12	4	1	2	1	1	0	1	3	5	2	3	3	3	1	3	3	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:5021035C>A	uc003gig.2	-	1	163	c.138G>T	c.(136-138)CAG>CAT	p.Q46H		NM_018659	NP_061129	Q9NRR1	CYTL1_HUMAN	cytokine-like 1 precursor	46					signal transduction	extracellular space|soluble fraction	receptor binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.164)		GCTCCGAGACCTGCAGGAGGT	0.647													15	35					1.01871e-10	1.13366e-10	0.008871	1	0		A	5021035	A	A	5021035	3	1	134	1	0	0	0	0	1	0	0	0	4211	680	24	5	288	5	CYTL1	4	5021035	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	781444	5021035	186133241	424	73082											
MAN2B2	23324	broad.mit.edu	37	chr4	6621751	6621751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgctggagctggaggaCggggcctggccgccacagag	7	3	18	13	3	0	1	0	0	0	1	0	4	0	4	4	6	1	3	4	6	0	0	rs149521690	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:6621751C>T	uc003gjf.1	+	18	2948	c.2912C>T	c.(2911-2913)ACG>ATG	p.T971M	MAN2B2_uc003gje.1_3'UTR|MAN2B2_uc011bwf.1_Missense_Mutation_p.T920M	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	971					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						AGCTGGAGGACGGGGCCTGGC	0.677													9	18					0	0	0.010729	0	0		T	6621751	T	T	6621751	3	4	134	1	0	0	0	0	1	0	0	0	9235	536	19	1	2982	1	MAN2B2	4	6621751	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1600716	6621751	184532525	425	73083											
ABLIM2	84448	broad.mit.edu	37	chr4	7985021	7985021	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccggtccacgtctttgggCagtttcacgcgaattcggtt	5	13	12	11	5	2	0	1	0	1	0	5	1	4	0	2	3	0	3	2	3	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:7985021C>T	uc003gko.2	-	19	1835	c.1692G>A	c.(1690-1692)CTG>CTA	p.L564L	ABLIM2_uc003gkk.2_Silent_p.L189L|ABLIM2_uc003gkl.2_Silent_p.L292L|ABLIM2_uc003gkj.3_Silent_p.L598L|ABLIM2_uc003gkm.3_Silent_p.L512L|ABLIM2_uc003gkp.2_Silent_p.L484L|ABLIM2_uc003gkq.2_Silent_p.L525L|ABLIM2_uc003gkr.2_Silent_p.L474L|ABLIM2_uc003gki.2_RNA	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	564	HP.				axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3						CGTCTTTGGGCAGTTTCACGC	0.587													7	14					0	0	0.001984	0	0		T	7985021	T	T	7985021	2	4	134	1	0	0	0	0	0	0	0	1	95	697	25	2		2	ABLIM2	4	7985021	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1363270	7985021	183169255	426	73084											
DRD5	1816	broad.mit.edu	37	chr4	9783796	9783796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcaccgcctgcctgctgaCcctactcatcatctggaccc	6	9	8	18	1	4	1	3	1	1	0	4	2	4	2	5	2	3	1	5	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:9783796C>T	uc003gmb.3	+	1	539	c.143C>T	c.(142-144)ACC>ATC	p.T48I		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	48	Helical; Name=1; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	TGCCTGCTGACCCTACTCATC	0.677													7	25					0	0	0.00308	0	0		T	9783796	T	T	9783796	3	4	134	1	0	0	0	0	1	0	0	0	4766	507	18	4	145	4	DRD5	4	9783796	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1798775	9783796	181370480	427	73085											
BOD1L	259282	broad.mit.edu	37	chr4	13605418	13605418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcatctgatttattttcgtCcttcttttttatgtctttac	5	24	4	8	1	4	1	1	1	3	0	6	1	5	1	1	0	1	0	1	0	3	10			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:13605418C>T	uc003gmz.1	-	10	3223	c.3106G>A	c.(3106-3108)GAC>AAC	p.D1036N	BOD1L_uc010idr.1_Missense_Mutation_p.D373N	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1036	Lys-rich.						DNA binding			ovary(5)|breast(1)	6						TTATTTTCGTCCTTCTTTTTT	0.378													101	204					0	0	0.01441	0	0		T	13605418	T	T	13605418	3	4	134	1	0	0	0	0	1	0	0	0	1484	855	30	4	6117	4	BOD1L	4	13605418	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3821622	13605418	177548858	428	73086											
CPEB2	132864	broad.mit.edu	37	chr4	15055827	15055827	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagcagaaagcaagtcctAttttccaccaaaaggtaagg	17	8	8	8	0	0	1	0	0	0	1	2	1	2	1	3	2	2	3	3	2	8	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:15055827A>G	uc003gni.1	+	7	1199	c.1112A>G	c.(1111-1113)TAT>TGT	p.Y371C	CPEB2_uc003gnj.1_Missense_Mutation_p.Y341C|CPEB2_uc003gnk.1_Missense_Mutation_p.Y379C|CPEB2_uc003gnl.1_Missense_Mutation_p.Y352C|CPEB2_uc003gnm.1_Missense_Mutation_p.Y349C|CPEB2_uc003gnn.1_Missense_Mutation_p.Y344C	NM_182485	NP_872291	Q7Z5Q1	CPEB2_HUMAN	cytoplasmic polyadenylation element binding	371	RRM 1.				regulation of translation	cytoplasm	nucleotide binding|RNA binding			skin(1)	1						AGCAAGTCCTATTTTCCACCA	0.343													62	103					0	0	0.01441	0	0		G	15055827	G	G	15055827	3	3	134	1	0	0	0	0	1	0	0	0	3804	449	16	3	2486	3	CPEB2	4	15055827	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1450409	15055827	176098449	429	73087											
TAPT1	202018	broad.mit.edu	37	chr4	16165090	16165090	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcttgtcacaagtaatggTatgatattttccttttgatg	9	19	8	5	0	1	2	1	2	0	0	2	2	2	2	1	1	1	3	1	1	4	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:16165090T>C	uc010ied.1	-	14	1626	c.1545A>G	c.(1543-1545)ATA>ATG	p.I515M	TAPT1_uc011bxd.1_RNA|TAPT1_uc011bxe.1_Missense_Mutation_p.I404M	NM_153365	NP_699196	Q6NXT6	TAPT1_HUMAN	transmembrane anterior posterior transformation	515						integral to membrane	growth hormone-releasing hormone receptor activity				0						CAAGTAATGGTATGATATTTT	0.378													4	147					0	0	0.000602	0	0		C	16165090	C	C	16165090	3	2	134	1	0	0	0	0	1	0	0	0	15579	1628	57	3	162	3	TAPT1	4	16165090	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1109263	16165090	174989186	430	73088											
SLIT2	9353	broad.mit.edu	37	chr4	20490474	20490474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaacctgtattgtgactGccacctggcctggctctccg	8	10	9	14	1	1	1	0	1	1	0	2	1	1	1	5	2	3	2	5	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:20490474G>A	uc003gpr.1	+	8	848	c.644G>A	c.(643-645)TGC>TAC	p.C215Y	SLIT2_uc003gps.1_Missense_Mutation_p.C215Y	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	215	LRRCT 1.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TATTGTGACTGCCACCTGGCC	0.468													157	321					0	0	0.01441	0	0		A	20490474	A	A	20490474	3	1	134	1	0	0	0	0	1	0	0	0	14765	1319	46	2	674	2	SLIT2	4	20490474	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4325384	20490474	170663802	431	73089											
PI4K2B	55300	broad.mit.edu	37	chr4	25270149	25270149	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattctaccatatatttctgAcatgaactttgtgcaagatt	12	16	6	7	0	2	3	0	2	2	1	2	4	2	3	1	0	3	1	1	0	5	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:25270149A>G	uc003grk.2	+	8	1296	c.1163A>G	c.(1162-1164)GAC>GGC	p.D388G	PI4K2B_uc011bxs.1_Missense_Mutation_p.D292G	NM_018323	NP_060793	Q8TCG2	P4K2B_HUMAN	phosphatidylinositol 4-kinase type 2 beta	388	PI3K/PI4K.					cytoplasm|membrane	1-phosphatidylinositol 4-kinase activity|ATP binding			ovary(2)|skin(2)	4		Breast(46;0.173)				TATATTTCTGACATGAACTTT	0.303													15	43					0	0	0.003163	0	0		G	25270149	G	G	25270149	3	3	134	1	0	0	0	0	1	0	0	0	11891	275	10	3	1193	3	PI4K2B	4	25270149	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4779675	25270149	165884127	432	73090											
STIM2	57620	broad.mit.edu	37	chr4	27024487	27024487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgttcctcagctggcaacGacagtaaaccagttcaggaa	13	8	9	11	1	2	0	2	0	0	0	3	2	3	1	2	2	3	5	2	2	4	3	rs145387199		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:27024487G>A	uc003gsh.3	+	13	2611	c.2395G>A	c.(2395-2397)GAC>AAC	p.D799N	STIM2_uc003gsg.3_Missense_Mutation_p.D791N|STIM2_uc010iex.2_3'UTR|STIM2_uc010iey.2_3'UTR	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2	704	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)				AGCTGGCAACGACAGTAAACC	0.468													49	77					0	0	0.01441	0	0		A	27024487	A	A	27024487	3	1	134	1	0	0	0	0	1	0	0	0	15309	1058	37	1	2225	1	STIM2	4	27024487	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1754338	27024487	164129789	433	73091											
N4BP2	55728	broad.mit.edu	37	chr4	40108561	40108561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtggagtcattcttagtaCtgatgattatttttatataa	13	18	7	3	0	2	2	1	2	1	0	2	3	2	3	0	1	1	1	0	1	7	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:40108561C>T	uc003guy.3	+	5	1753	c.1415C>T	c.(1414-1416)ACT>ATT	p.T472I	N4BP2_uc010ifq.2_Missense_Mutation_p.T392I|N4BP2_uc010ifr.2_Missense_Mutation_p.T392I	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	472						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						ATTCTTAGTACTGATGATTAT	0.318													36	70					0	0	0.004878	0	0		T	40108561	T	T	40108561	3	4	134	1	0	0	0	0	1	0	0	0	10128	565	20	4	1425	4	N4BP2	4	40108561	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	13084074	40108561	151045715	434	73092											
RHOH	399	broad.mit.edu	37	chr4	40244932	40244932	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattccccttgctgaatggcGtgtgctgcagctgcccactg	5	11	11	14	1	0	1	0	1	0	0	1	1	1	1	3	1	5	4	3	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:40244932G>A	uc003guz.2	+	3	650	c.-74G>A	c.(-76--72)GCGTG>GCATG			NM_004310	NP_004301	Q15669	RHOH_HUMAN	ras homolog gene family, member H precursor						negative regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|T cell differentiation	cytosol|mitochondrion|plasma membrane	GTP binding|GTPase inhibitor activity|kinase inhibitor activity|Rho GTPase binding			ovary(1)|lung(1)	2						GCTGAATGGCGTGTGCTGCAG	0.557													11	27					0	0	0.010729	0	0		A	40244932	A	A	40244932	1	1	134	1	0	0	0	0	0	0	0	0	13365	1160	40	1		1	RHOH	4	40244932	Translation_Start_Site	SNP	G	TCGA-CG-4442-01A-01D-1158-08	136371	40244932	150909344	435	73093											
LIMCH1	22998	broad.mit.edu	37	chr4	41607973	41607973	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcacatcctacagcggaacGacactaaacctgaaggagtt	14	7	9	11	2	0	1	0	1	0	0	1	4	1	3	2	2	5	2	2	2	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:41607973G>A	uc003gvu.3	+	6	492	c.438G>A	c.(436-438)ACG>ACA	p.T146T	LIMCH1_uc003gvt.1_5'UTR|LIMCH1_uc003gvv.3_Silent_p.T146T|LIMCH1_uc003gvw.3_Silent_p.T146T|LIMCH1_uc003gvx.3_Silent_p.T146T|LIMCH1_uc003gwe.3_Silent_p.T146T|LIMCH1_uc003gvy.3_5'UTR|LIMCH1_uc003gwa.3_5'UTR|LIMCH1_uc003gvz.3_5'UTR	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	146					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						ACAGCGGAACGACACTAAACC	0.448													17	52					0	0	0.004007	0	0		A	41607973	A	A	41607973	2	1	134	1	0	0	0	0	0	0	0	1	8813	1045	37	1		1	LIMCH1	4	41607973	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1363041	41607973	149546303	436	73094											
GUF1	60558	broad.mit.edu	37	chr4	44699434	44699434	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttttacagtgtgaaagcCtataggaaaaacgttttggc	12	13	9	7	1	1	1	0	1	1	0	1	2	1	2	1	2	3	1	1	2	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:44699434C>T	uc003gww.3	+	16	2052	c.1845C>T	c.(1843-1845)GCC>GCT	p.A615A	GUF1_uc011bza.1_Silent_p.A22A	NM_021927	NP_068746	Q8N442	GUF1_HUMAN	GUF1 GTPase homolog	615					translation	mitochondrial inner membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)	1						GTGTGAAAGCCTATAGGAAAA	0.299													26	63					0	0	0.008361	0	0		T	44699434	T	T	44699434	2	4	134	1	0	0	0	0	0	0	0	1	6915	668	24	4		4	GUF1	4	44699434	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3091461	44699434	146454842	437	73095											
SLAIN2	57606	broad.mit.edu	37	chr4	48371975	48371975	+	Frame_Shift_Del	DEL	A	-	-																															gtcctgatgttgagtgtgctAaaaaatctcttatccacaaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:48371975delA	uc003gya.3	+	2	643	c.499delA	c.(499-501)AAAfs	p.K167fs		NM_020846	NP_065897	Q9P270	SLAI2_HUMAN	SLAIN motif family, member 2	167						centrosome					0						TGAGTGTGCTAAAAAATCTCT	0.343													31	43	---	---	---	---						.	-	48371975	-	-	48371975	7	5	134	1	0	1	0	1	0	0	0	0	14391	363	13	0	505	0	SLAIN2	4	48371975	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	3672541	48371975	142782301	438	73096											
SLAIN2	57606	broad.mit.edu	37	chr4	48384616	48384616	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatatgcagccaccacgtcTcggcgcagttctggttcatc	8	10	10	13	3	3	0	1	0	2	0	5	1	3	0	2	2	2	4	2	2	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:48384616T>C	uc003gya.3	+	5	1038	c.894T>C	c.(892-894)TCT>TCC	p.S298S	SLAIN2_uc003gyb.1_5'UTR	NM_020846	NP_065897	Q9P270	SLAI2_HUMAN	SLAIN motif family, member 2	298						centrosome					0						CCACCACGTCTCGGCGCAGTT	0.338													3	74					0	0	0.004672	0	0		C	48384616	C	C	48384616	2	2	134	1	0	0	0	0	0	0	0	1	14391	1538	54	3		3	SLAIN2	4	48384616	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	12641	48384616	142769660	439	73097											
FRYL	285527	broad.mit.edu	37	chr4	48588687	48588687	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcataccgtcaggaatcaAccttggaatcgcagcaatac	13	8	8	12	2	3	0	3	0	0	0	4	2	3	2	2	2	4	3	2	2	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:48588687A>G	uc003gyh.1	-	19	2304	c.1699T>C	c.(1699-1701)TTG>CTG	p.L567L	FRYL_uc003gyk.2_Silent_p.L567L	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	567					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TCAGGAATCAACCTTGGAATC	0.343													7	167					0	0	0.001984	0	0		G	48588687	G	G	48588687	2	3	134	1	0	0	0	0	0	0	0	1	6078	40	2	3		3	FRYL	4	48588687	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	204071	48588687	142565589	440	73098											
FRYL	285527	broad.mit.edu	37	chr4	48622719	48622719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttccgttccattttggCgtctgtaccagtcaaacaag	9	13	7	12	2	3	0	1	0	2	0	5	0	5	0	3	1	2	2	3	1	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:48622719C>T	uc003gyh.1	-	6	856	c.251G>A	c.(250-252)CGC>CAC	p.R84H	FRYL_uc003gyk.2_Missense_Mutation_p.R84H|FRYL_uc003gyl.1_Missense_Mutation_p.R135H|FRYL_uc003gym.1_Missense_Mutation_p.R84H	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	84					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TCCATTTTGGCGTCTGTACCA	0.418													89	144					0	0	0.01441	0	0		T	48622719	T	T	48622719	3	4	134	1	0	0	0	0	1	0	0	0	6078	768	27	1	9026	1	FRYL	4	48622719	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	34032	48622719	142531557	441	73099											
LRRC66	339977	broad.mit.edu	37	chr4	52883364	52883364	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttctgaagctgcttctgTggcgtttcacccatgaggac	6	14	11	10	1	3	2	1	2	2	0	3	3	3	3	1	2	2	4	1	2	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:52883364T>C	uc003gzi.2	-	1	429	c.416A>G	c.(415-417)CAC>CGC	p.H139R		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	139						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						GCTGCTTCTGTGGCGTTTCAC	0.433													9	220					0	0	0.006214	0	0		C	52883364	C	C	52883364	3	2	134	1	0	0	0	0	1	0	0	0	9036	1696	59	3	2242	3	LRRC66	4	52883364	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4260645	52883364	138270912	442	73100											
SPATA18	132671	broad.mit.edu	37	chr4	52943136	52943136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccaggcccgcctggacgCgcagtgcctgctgcggcgct	3	7	14	17	5	0	0	0	0	0	0	1	1	1	1	4	3	3	3	4	3	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:52943136C>T	uc003gzl.2	+	7	1228	c.950C>T	c.(949-951)GCG>GTG	p.A317V	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.A285V|SPATA18_uc003gzk.1_Missense_Mutation_p.A317V	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	317					mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			CGCCTGGACGCGCAGTGCCTG	0.642													14	26					0	0	0.004007	0	0		T	52943136	T	T	52943136	3	4	134	1	0	0	0	0	1	0	0	0	15028	768	27	1	976	1	SPATA18	4	52943136	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	59772	52943136	138211140	443	73101											
FIP1L1	81608	broad.mit.edu	37	chr4	54325484	54325484	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccagtaatagtagacgtcgCcatgaaagtgaagaaggaga	16	7	12	6	2	0	5	0	2	0	3	2	6	1	5	2	1	0	2	2	1	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:54325484C>T	uc003gzy.2	+	18	1839	c.1653C>T	c.(1651-1653)CGC>CGT	p.R551R	PDGFRA_uc003haa.2_Intron|FIP1L1_uc011bzu.1_Silent_p.R545R|FIP1L1_uc003gzz.2_Silent_p.R477R|FIP1L1_uc003hab.2_Silent_p.R516R|FIP1L1_uc003hac.2_Silent_p.R305R|FIP1L1_uc010ign.2_RNA|FIP1L1_uc003had.2_Missense_Mutation_p.A136V|FIP1L1_uc003hae.2_Missense_Mutation_p.A139V	NM_030917	NP_112179	Q6UN15	FIP1_HUMAN	FIP1 like 1 isoform 1	551	Arg-rich.|Sufficient for interaction with CPSF1 and CSTF3.|Glu-rich.				mRNA processing	nucleus	RNA binding			ovary(1)|skin(1)	2			GBM - Glioblastoma multiforme(3;3.31e-36)|LUSC - Lung squamous cell carcinoma(32;0.0134)			GTAGACGTCGCCATGAAAGTG	0.373			T	PDGFRA	idiopathic hypereosinophilic syndrome								13	24					0	0	0.001855	0	0		T	54325484	T	T	54325484	2	4	134	1	0	0	0	0	0	0	0	1	5910	726	26	2		2	FIP1L1	4	54325484	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1382348	54325484	136828792	444	73102											
STAP1	26228	broad.mit.edu	37	chr4	68456664	68456664	+	Frame_Shift_Del	DEL	A	-	-																															aaactacactattgaactggAaaaacctgtaagtaactatt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:68456664delA	uc003hde.3	+	7	804	c.722delA	c.(721-723)GAAfs	p.E241fs	STAP1_uc003hdf.2_Frame_Shift_Del_p.E241fs	NM_012108	NP_036240	Q9ULZ2	STAP1_HUMAN	signal transducing adaptor family member 1	241	SH2.				cellular membrane fusion|intracellular protein transport	cytoplasm					0						ATTGAACTGGAAAAACCTGTA	0.383													33	54	---	---	---	---						.	-	68456664	-	-	68456664	7	5	134	1	0	1	0	1	0	0	0	0	15277	246	9	0	748	0	STAP1	4	68456664	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	14131180	68456664	122697612	445	73103											
EREG	2069	broad.mit.edu	37	chr4	75246761	75246762	+	Frame_Shift_Del	DEL	AA	-	-																															agacaatccacgtgtggctcAagtgtcaataacaaagtgta																								rs145916659	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:75246761_75246762delAA	uc003hie.1	+	3	351_352	c.185_186delAA	c.(184-186)CAAfs	p.Q62fs	EREG_uc003hid.2_Frame_Shift_Del_p.Q56fs	NM_001432	NP_001423	O14944	EREG_HUMAN	epiregulin preproprotein	62	Extracellular (Potential).				angiogenesis|cell-cell signaling|cytokine-mediated signaling pathway|epidermal growth factor receptor signaling pathway|female meiosis|keratinocyte differentiation|keratinocyte proliferation|luteinizing hormone signaling pathway|mRNA transcription|negative regulation of epithelial cell proliferation|negative regulation of smooth muscle cell differentiation|negative regulation of transcription, DNA-dependent|oocyte maturation|organ morphogenesis|ovarian cumulus expansion|ovulation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of DNA replication|positive regulation of epidermal growth factor receptor activity|positive regulation of fibroblast proliferation|positive regulation of innate immune response|positive regulation of interleukin-6 biosynthetic process|positive regulation of mitosis|positive regulation of phosphorylation|positive regulation of smooth muscle cell proliferation|primary follicle stage|wound healing	extracellular space|integral to plasma membrane	epidermal growth factor receptor binding|growth factor activity			breast(1)|skin(1)	2			Lung(101;0.196)			CGTGTGGCTCAAGTGTCAATAA	0.396													80	169	---	---	---	---						.	-	75246762	-	-	75246761	7	5	134	1	0	1	0	1	0	0	0	0	5228	130	5	0	195	0	EREG	4	75246761	Frame_Shift_Del	DEL	AA	TCGA-CG-4442-01A-01D-1158-08	6790097	75246761	115907515	446	73104											
CDKL2	8999	broad.mit.edu	37	chr4	76522205	76522205	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattgtgtgtaagtgggggAattgccacgcttggattcct	8	13	14	6	1	0	1	0	0	0	1	1	3	1	3	2	3	1	2	2	3	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:76522205A>G	uc003hiq.2	-	9	1761	c.1236T>C	c.(1234-1236)ATT>ATC	p.I412I	CDKL2_uc011cbp.1_Silent_p.I412I	NM_003948	NP_003939	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2	412					sex differentiation|signal transduction	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(2)|stomach(2)|breast(2)|skin(1)	7			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			TAAGTGGGGGAATTGCCACGC	0.453													131	191					0	0	0.01441	0	0		G	76522205	G	G	76522205	2	3	134	1	0	0	0	0	0	0	0	1	3157	242	9	3		3	CDKL2	4	76522205	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1275444	76522205	114632071	447	73105											
SHROOM3	57619	broad.mit.edu	37	chr4	77662420	77662420	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgaacgaggtggggatcGtggaggaggccgaaccggca	11	4	19	7	4	0	2	0	1	0	1	1	7	0	5	2	7	2	1	2	7	2	0	rs151102508		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:77662420G>A	uc011cbx.1	+	5	4047	c.3094G>A	c.(3094-3096)GTG>ATG	p.V1032M	SHROOM3_uc011cbz.1_Missense_Mutation_p.V856M|SHROOM3_uc003hkf.1_Missense_Mutation_p.V907M|SHROOM3_uc003hkg.2_Missense_Mutation_p.V810M	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	1032					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			GGTGGGGATCGTGGAGGAGGC	0.697													29	35					0	0	0.003755	0	0		A	77662420	A	A	77662420	3	1	134	1	0	0	0	0	1	0	0	0	14320	1145	40	1	3112	1	SHROOM3	4	77662420	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1140215	77662420	113491856	448	73106											
PRDM8	56978	broad.mit.edu	37	chr4	81124490	81124490	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtgtctgcccgcgcagaActggtgcgccaagtgcaatg	7	8	14	12	3	1	1	0	0	1	1	1	1	1	1	2	1	4	3	2	1	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:81124490A>G	uc010ijo.2	+	8	2713	c.1874A>G	c.(1873-1875)AAC>AGC	p.N625S	PRDM8_uc003hmb.3_Missense_Mutation_p.N625S|PRDM8_uc003hmc.3_Missense_Mutation_p.N625S	NM_020226	NP_064611	Q9NQV8	PRDM8_HUMAN	PR domain containing 8	625	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CCCGCGCAGAACTGGTGCGCC	0.388													4	24					0	0	0.001984	0	0		G	81124490	G	G	81124490	3	3	134	1	0	0	0	0	1	0	0	0	12484	43	2	3	1884	3	PRDM8	4	81124490	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3462070	81124490	110029786	449	73107											
BMP3	651	broad.mit.edu	37	chr4	81967644	81967644	+	Frame_Shift_Del	DEL	A	-	-																															aatttgatgagcagaccctgAaaaaggcaaggagaaagcag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:81967644delA	uc003hmg.3	+	2	1389	c.1069delA	c.(1069-1071)AAAfs	p.K357fs		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	357					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						GCAGACCCTGAAAAAGGCAAG	0.478													53	102	---	---	---	---						.	-	81967644	-	-	81967644	7	5	134	1	0	1	0	1	0	0	0	0	1462	247	9	0	1075	0	BMP3	4	81967644	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	843154	81967644	109186632	450	73108											
HNRPDL	9987	broad.mit.edu	37	chr4	83348411	83348411	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacctttttgttgttgcTgttgctgcctatatacctct	4	20	6	11	0	1	0	0	0	1	0	2	0	2	0	4	0	4	5	4	0	3	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:83348411T>G	uc003hmr.2	-	5	1488	c.953A>C	c.(952-954)CAG>CCG	p.Q318P	HNRPDL_uc003hmq.2_RNA|HNRPDL_uc003hms.2_RNA|HNRPDL_uc003hmt.2_Missense_Mutation_p.Q318P	NM_031372	NP_112740	O14979	HNRDL_HUMAN	heterogeneous nuclear ribonucleoprotein D-like	318	Poly-Gln.				regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|heterogeneous nuclear ribonucleoprotein complex	double-stranded DNA binding|nucleotide binding|poly(A) RNA binding|protein binding|single-stranded DNA binding			skin(1)	1		Hepatocellular(203;0.114)				TTGTTGTTGCTGTTGCTGCCT	0.413													96	196					0	0	0.01441	0	0		G	83348411	G	G	83348411	3	3	134	1	0	0	0	0	1	0	0	0	7292	1580	55	5	321	5	HNRPDL	4	83348411	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1380767	83348411	107805865	451	73109											
SEC31A	22872	broad.mit.edu	37	chr4	83770124	83770124	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtcacgaagctgcatgaTatttggctaaaaaggattgg	12	12	11	6	1	2	1	1	1	1	0	2	3	2	2	0	3	2	3	0	3	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:83770124T>A	uc003hnf.2	-	20	2499	c.2335A>T	c.(2335-2337)ATC>TTC	p.I779F	SEC31A_uc003hne.2_Missense_Mutation_p.I512F|SEC31A_uc011ccl.1_Missense_Mutation_p.I740F|SEC31A_uc003hnl.2_Missense_Mutation_p.I740F|SEC31A_uc003hng.2_Missense_Mutation_p.I779F|SEC31A_uc003hnh.2_Missense_Mutation_p.I779F|SEC31A_uc003hni.2_Missense_Mutation_p.I779F|SEC31A_uc003hnj.2_Missense_Mutation_p.I740F|SEC31A_uc011ccm.1_Missense_Mutation_p.I774F|SEC31A_uc011ccn.1_Missense_Mutation_p.I779F|SEC31A_uc003hnk.2_Missense_Mutation_p.I740F|SEC31A_uc003hnm.2_Missense_Mutation_p.I779F|SEC31A_uc003hnn.1_Missense_Mutation_p.I779F	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	779					COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				AGCTGCATGATATTTGGCTAA	0.413													69	153					0	0	0.01441	0	0		A	83770124	A	A	83770124	3	1	134	1	0	0	0	0	1	0	0	0	14023	1406	49	5	1359	5	SEC31A	4	83770124	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	421713	83770124	107384152	452	73110											
COPS4	51138	broad.mit.edu	37	chr4	83978203	83978203	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgttgcttcagaatgaatcaAccaatgaacaattacagata	17	10	6	8	1	2	4	2	2	0	2	2	4	2	4	1	0	4	2	1	0	8	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:83978203A>G	uc003hoa.2	+	5	674	c.535A>G	c.(535-537)ACC>GCC	p.T179A	COPS4_uc003hob.2_Missense_Mutation_p.T179A|COPS4_uc010ijw.2_Missense_Mutation_p.T179A|COPS4_uc010ijx.2_Missense_Mutation_p.T179A	NM_016129	NP_057213	Q9BT78	CSN4_HUMAN	COP9 signalosome subunit 4	179					cullin deneddylation	cytoplasm|signalosome	protein binding			kidney(1)	1		Hepatocellular(203;0.114)				GAATGAATCAACCAATGAACA	0.373													6	176					0	0	0.001168	0	0		G	83978203	G	G	83978203	3	3	134	1	0	0	0	0	1	0	0	0	3738	43	2	3	553	3	COPS4	4	83978203	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	208079	83978203	107176073	453	73111											
PLAC8	51316	broad.mit.edu	37	chr4	84015872	84015872	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggctctccttctgttgaTatctctcttgatttggcaaa	7	17	7	10	0	4	2	0	2	4	0	6	2	4	2	1	2	0	3	1	2	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:84015872T>C	uc003hoe.2	-	4	477	c.316A>G	c.(316-318)ATC>GTC	p.I106V	PLAC8_uc011cco.1_Missense_Mutation_p.I106V|PLAC8_uc010ijy.2_RNA|PLAC8_uc010ijz.2_RNA|PLAC8_uc003hod.2_Missense_Mutation_p.I106V	NM_001130716	NP_001124188	Q9NZF1	PLAC8_HUMAN	placenta-specific 8	106										ovary(1)	1		Hepatocellular(203;0.114)				CTTCTGTTGATATCTCTCTTG	0.363													31	81					0	0	0.003755	0	0		C	84015872	C	C	84015872	3	2	134	1	0	0	0	0	1	0	0	0	12034	1406	49	3	35	3	PLAC8	4	84015872	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	37669	84015872	107138404	454	73112											
FAM175A	84142	broad.mit.edu	37	chr4	84383916	84383916	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatcgagatggtggttgtaGttacagctacttttagaaac	12	13	10	6	1	0	2	0	0	0	2	1	3	0	2	0	2	4	4	0	2	5	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:84383916G>T	uc003hou.2	-	9	1001	c.936C>A	c.(934-936)AAC>AAA	p.N312K	MRPS18C_uc011ccu.1_Intron|FAM175A_uc003hot.2_Missense_Mutation_p.N140K|FAM175A_uc003hov.2_Missense_Mutation_p.N203K	NM_139076	NP_620775	Q6UWZ7	F175A_HUMAN	coiled-coil domain containing 98	312					chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of DNA repair|response to ionizing radiation	BRCA1-A complex	polyubiquitin binding			kidney(1)	1						GGTGGTTGTAGTTACAGCTAC	0.363													11	154					0.00829132	0.00900277	0.008291	1	0		T	84383916	T	T	84383916	3	4	134	1	0	0	0	0	1	0	0	0	5508	1020	36	5	297	5	FAM175A	4	84383916	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	368044	84383916	106770360	455	73113											
WDFY3	23001	broad.mit.edu	37	chr4	85708820	85708820	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaccgtgctcaccactggtGgatttgccgaacctgaaccc	9	8	10	14	2	1	2	1	1	0	1	1	4	1	3	5	2	4	1	5	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:85708820G>T	uc003hpd.2	-	23	4124	c.3716C>A	c.(3715-3717)CCA>CAA	p.P1239Q		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1239						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CACCACTGGTGGATTTGCCGA	0.493													55	69					2.77742e-48	3.31249e-48	0.01441	1	0		T	85708820	T	T	85708820	3	4	134	1	0	0	0	0	1	0	0	0	17296	1348	47	5	7048	5	WDFY3	4	85708820	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1324904	85708820	105445456	456	73114											
SPP1	6696	broad.mit.edu	37	chr4	88902839	88902839	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacggacctgccagcaacCgaagttttcactccagttgt	9	9	8	15	2	1	0	1	0	0	0	2	2	2	1	5	1	3	3	5	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:88902839C>T	uc003hra.2	+	6	594	c.429C>T	c.(427-429)ACC>ACT	p.T143T	SPP1_uc003hrb.2_Silent_p.T116T|SPP1_uc003hrc.2_Silent_p.T129T|SPP1_uc011cde.1_Silent_p.T156T|SPP1_uc003hrd.2_Silent_p.T102T	NM_001040058	NP_001035147	P10451	OSTP_HUMAN	secreted phosphoprotein 1 isoform a	143					biomineral tissue development|cell adhesion|decidualization|embryo implantation|ossification|response to vitamin D	extracellular space	cytokine activity			ovary(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-05)		TGCCAGCAACCGAAGTTTTCA	0.458													69	128					0	0	0.01441	0	0		T	88902839	T	T	88902839	2	4	134	1	0	0	0	0	0	0	0	1	15111	639	23	1		1	SPP1	4	88902839	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3194019	88902839	102251437	457	73115											
PKD2	5311	broad.mit.edu	37	chr4	88979251	88979251	+	Frame_Shift_Del	DEL	T	-	-																															gttctttatgttcttcattcTtttggtatgtacatttttat																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:88979251delT	uc003hre.2	+	9	2081	c.2015delT	c.(2014-2016)CTTfs	p.L672fs	PKD2_uc011cdf.1_Frame_Shift_Del_p.L90fs|PKD2_uc011cdg.1_Intron|PKD2_uc011cdh.1_Intron	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	672	Helical; (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		TTCTTCATTCTTTTGGTATGT	0.308													27	53	---	---	---	---						.	-	88979251	-	-	88979251	7	5	134	1	0	1	0	1	0	0	0	0	11985	1609	56	0	2049	0	PKD2	4	88979251	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	76412	88979251	102175025	458	73116											
ABCG2	9429	broad.mit.edu	37	chr4	89052253	89052253	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagacctaactcttgaatgAccctgttaatccgttcgttt	9	14	6	12	2	1	3	0	2	1	1	3	3	2	3	4	0	1	3	4	0	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:89052253A>G	uc003hrg.2	-	5	984	c.491T>C	c.(490-492)GTC>GCC	p.V164A	ABCG2_uc003hrh.2_Missense_Mutation_p.V164A|ABCG2_uc003hrf.2_Missense_Mutation_p.V34A	NM_004827	NP_004818	Q9UNQ0	ABCG2_HUMAN	ATP-binding cassette, sub-family G, member 2	164	ABC transporter.|Cytoplasmic (Potential).				cellular iron ion homeostasis|urate metabolic process	integral to membrane|plasma membrane	ATP binding|heme transporter activity|protein homodimerization activity|xenobiotic-transporting ATPase activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Imatinib(DB00619)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nitrendipine(DB01054)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Topotecan(DB01030)	CTCTTGAATGACCCTGTTAAT	0.433													98	201					0	0	0.01441	0	0		G	89052253	G	G	89052253	3	3	134	1	0	0	0	0	1	0	0	0	69	275	10	3	1524	3	ABCG2	4	89052253	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	73002	89052253	102102023	459	73117											
HERC3	8916	broad.mit.edu	37	chr4	89589160	89589160	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctactccaggattccaagTattatataacattgactatt	13	14	4	10	0	0	1	0	1	0	0	2	2	2	2	3	1	2	1	3	1	7	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:89589160T>C	uc003hrw.1	+	14	1727	c.1561T>C	c.(1561-1563)TAT>CAT	p.Y521H	HERC3_uc011cdn.1_Missense_Mutation_p.Y403H|HERC3_uc011cdo.1_Intron	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	521					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		GGATTCCAAGTATTATATAAC	0.428													6	268					0	0	0.001168	0	0		C	89589160	C	C	89589160	3	2	134	1	0	0	0	0	1	0	0	0	7075	1638	57	3	1607	3	HERC3	4	89589160	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	536907	89589160	101565116	460	73118											
GPRIN3	285513	broad.mit.edu	37	chr4	90170454	90170454	+	Frame_Shift_Del	DEL	G	-	-																															tgccgaaggttcgctagtgaGgggggttggttgaggtgtca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:90170454delG	uc003hsm.1	-	2	1327	c.808delC	c.(808-810)CTCfs	p.L270fs		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	270										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		TCGCTAGTGAGGGGGGTTGGT	0.557													84	147	---	---	---	---						.	-	90170454	-	-	90170454	7	5	134	1	0	1	0	1	0	0	0	0	6747	1000	35	0	1526	0	GPRIN3	4	90170454	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	581294	90170454	100983822	461	73119											
GRID2	2895	broad.mit.edu	37	chr4	94316827	94316827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaattggagaataacatgCgtggagtggttctacgtgta	13	11	13	4	2	1	2	0	0	1	2	1	4	1	3	0	3	3	2	0	3	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:94316827C>T	uc011cdt.1	+	9	1573	c.1315C>T	c.(1315-1317)CGT>TGT	p.R439C	GRID2_uc011cdu.1_Missense_Mutation_p.R344C	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	439	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	GAATAACATGCGTGGAGTGGT	0.393													84	169					0	0	0.01441	0	0		T	94316827	T	T	94316827	3	4	134	1	0	0	0	0	1	0	0	0	6788	768	27	1	1349	1	GRID2	4	94316827	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4146373	94316827	96837449	462	73120											
BANK1	55024	broad.mit.edu	37	chr4	102951225	102951225	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagagaagaaagaagaggAaaaagagcaggaggaggaag	24	0	16	1	0	0	5	0	0	0	5	0	10	0	9	0	4	1	1	0	4	8	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:102951225A>G	uc003hvy.3	+	10	1977	c.1703A>G	c.(1702-1704)GAA>GGA	p.E568G	BANK1_uc003hvx.3_Missense_Mutation_p.E553G|BANK1_uc010ill.2_Missense_Mutation_p.E435G|BANK1_uc003hvz.3_Missense_Mutation_p.E538G	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	568					B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		aaagaagaggaaaaagagcag	0.294													53	74					0	0	0.01441	0	0		G	102951225	G	G	102951225	3	3	134	1	0	0	0	0	1	0	0	0	1310	246	9	3	1741	3	BANK1	4	102951225	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	8634398	102951225	88203051	463	73121											
TACR3	6870	broad.mit.edu	37	chr4	104640758	104640758	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccggcagctagcgaggcGgtcaggttcacggcgtctgc	5	6	16	14	5	3	0	2	0	1	0	3	1	3	0	2	5	3	3	2	5	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:104640758G>A	uc003hxe.1	-	1	218	c.75C>T	c.(73-75)ACC>ACT	p.T25T		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	25	Extracellular (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		CTAGCGAGGCGGTCAGGTTCA	0.687													31	52					0	0	0.012213	0	0		A	104640758	A	A	104640758	2	1	134	1	0	0	0	0	0	0	0	1	15532	1103	39	1		1	TACR3	4	104640758	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1689533	104640758	86513518	464	73122											
GSTCD	79807	broad.mit.edu	37	chr4	106755632	106755632	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtaggtagcattgcatgcTtgtggagtggcaacagacat	10	12	13	6	0	0	1	0	0	0	1	0	2	0	2	0	3	4	6	0	3	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:106755632T>C	uc003hxz.3	+	9	1617	c.1545T>C	c.(1543-1545)GCT>GCC	p.A515A	GSTCD_uc003hxy.3_Silent_p.A428A|GSTCD_uc011cfb.1_Silent_p.A138A	NM_001031720	NP_001026890	Q8NEC7	GSTCD_HUMAN	glutathione S-transferase, C-terminal domain	515						cytoplasm	rRNA methyltransferase activity			breast(1)|central_nervous_system(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.15e-07)|READ - Rectum adenocarcinoma(30;0.139)		CATTGCATGCTTGTGGAGTGG	0.423													79	152					0	0	0.01441	0	0		C	106755632	C	C	106755632	2	2	134	1	0	0	0	0	0	0	0	1	6851	1596	56	3		3	GSTCD	4	106755632	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2114874	106755632	84398644	465	73123											
SEC24B	10427	broad.mit.edu	37	chr4	110459743	110459743	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accattaagtccaatccttcAcatagtaaagtaagtacttt	15	13	4	9	0	1	0	1	0	0	0	3	0	3	0	3	0	1	3	3	0	7	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:110459743A>G	uc003hzk.2	+	23	3738	c.3683A>G	c.(3682-3684)CAC>CGC	p.H1228R	SEC24B_uc003hzl.2_Missense_Mutation_p.H1193R|SEC24B_uc011cfp.1_Missense_Mutation_p.H1258R|SEC24B_uc011cfq.1_Missense_Mutation_p.H1227R|SEC24B_uc011cfr.1_Missense_Mutation_p.H1192R	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	1228					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		CCAATCCTTCACATAGTAAAG	0.363													5	211					0	0	0.001168	0	0		G	110459743	G	G	110459743	3	3	134	1	0	0	0	0	1	0	0	0	14020	159	6	3	3773	3	SEC24B	4	110459743	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3704111	110459743	80694533	466	73124											
C4orf21	55345	broad.mit.edu	37	chr4	113539998	113539998	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatttctaattttacttcCtgattccaggatggatcatt	10	17	7	7	0	2	1	1	1	1	0	4	4	4	4	2	3	1	0	2	3	3	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:113539998C>A	uc003iau.2	-	6	1411	c.1200G>T	c.(1198-1200)CAG>CAT	p.Q400H	C4orf21_uc003iaw.2_Missense_Mutation_p.Q400H	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		ATTTTACTTCCTGATTCCAGG	0.343													55	95					3.19069e-20	3.66001e-20	0.01441	1	0		A	113539998	A	A	113539998	3	1	134	1	0	0	0	0	1	0	0	0	2257	680	24	5	5206	5	C4orf21	4	113539998	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3080255	113539998	77614278	467	73125											
ARSJ	79642	broad.mit.edu	37	chr4	114824636	114824636	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccccacttcccaaaagggaAccaaaaaaggtatcaaatcc	17	6	5	13	0	1	0	1	0	0	0	4	1	4	1	5	2	1	1	5	2	8	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:114824636A>G	uc003ibq.1	-	2	1482	c.594T>C	c.(592-594)GGT>GGC	p.G198G	ARSJ_uc010imu.1_Silent_p.G198G|ARSJ_uc010imv.1_Silent_p.G26G	NM_024590	NP_078866	Q5FYB0	ARSJ_HUMAN	arylsulfatase J precursor	198						extracellular region	arylsulfatase activity|metal ion binding			ovary(1)	1		Ovarian(17;0.0035)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00194)		CCAAAAGGGAACCAAAAAAGG	0.438													12	318					0	0	0.010729	0	0		G	114824636	G	G	114824636	2	3	134	1	0	0	0	0	0	0	0	1	996	30	2	3		3	ARSJ	4	114824636	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1284638	114824636	76329640	468	73126											
TRAM1L1	133022	broad.mit.edu	37	chr4	118005517	118005517	+	Frame_Shift_Del	DEL	T	-	-																															tcccactccgttttctgttcTttttttagaagatctcgacc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:118005517delT	uc003ibv.3	-	1	1220	c.1033delA	c.(1033-1035)AGAfs	p.R345fs		NM_152402	NP_689615	Q8N609	TR1L1_HUMAN	translocation associated membrane protein 1-like	345	Cytoplasmic (Potential).				protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane				central_nervous_system(1)	1						TTTTCTGTTCTTTTTTTAGAA	0.383													159	349	---	---	---	---						.	-	118005517	-	-	118005517	7	5	134	1	0	1	0	1	0	0	0	0	16478	1617	56	0	80	0	TRAM1L1	4	118005517	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	3180881	118005517	73148759	469	73127											
SYNPO2	171024	broad.mit.edu	37	chr4	119951132	119951132	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgatgtttaagaagcgacGtcggagggccaggaaataca	13	8	14	6	3	0	2	0	1	0	1	1	5	0	4	1	3	2	2	1	3	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:119951132G>A	uc003icm.3	+	4	1398	c.1202G>A	c.(1201-1203)CGT>CAT	p.R401H	SYNPO2_uc010ina.2_Missense_Mutation_p.R401H|SYNPO2_uc010inb.2_Missense_Mutation_p.R401H|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Missense_Mutation_p.R329H	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	401	Poly-Arg.					nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						AAGAAGCGACGTCGGAGGGCC	0.507													6	212					0	0	0.00308	0	0		A	119951132	A	A	119951132	3	1	134	1	0	0	0	0	1	0	0	0	15482	1145	40	1	1216	1	SYNPO2	4	119951132	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1945615	119951132	71203144	470	73128											
PDE5A	8654	broad.mit.edu	37	chr4	120427073	120427073	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttcttataagttcaaaaAattctcctcgcctcctacaa	12	16	2	11	1	3	0	1	0	2	0	6	0	4	0	3	0	1	1	3	0	7	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:120427073A>G	uc003idh.2	-	17	2359	c.2204T>C	c.(2203-2205)TTT>TCT	p.F735S	uc003ide.3_Intron|PDE5A_uc003idf.2_Missense_Mutation_p.F693S|PDE5A_uc003idg.2_Missense_Mutation_p.F683S	NM_001083	NP_001074	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 1	735	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)	AAGTTCAAAAAATTCTCCTCG	0.308													13	37					0	0	0.00245	0	0		G	120427073	G	G	120427073	3	3	134	1	0	0	0	0	1	0	0	0	11663	14	1	3	443	3	PDE5A	4	120427073	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	475941	120427073	70727203	471	73129											
TNIP3	79931	broad.mit.edu	37	chr4	122075732	122075732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggcgttttatttcacattCgtaatgttccttttccttgt	6	20	7	8	2	1	0	1	0	0	0	4	1	3	0	2	1	0	3	2	1	2	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:122075732C>T	uc010ing.2	-	5	662	c.466G>A	c.(466-468)GAA>AAA	p.E156K	TNIP3_uc010inh.2_Missense_Mutation_p.E156K|TNIP3_uc011cgj.1_Missense_Mutation_p.E214K|TNIP3_uc010ini.2_Missense_Mutation_p.E156K	NM_024873	NP_079149	Q96KP6	TNIP3_HUMAN	TNFAIP3 interacting protein 3	156	Potential.									ovary(1)	1						ATTTCACATTCGTAATGTTCC	0.358													73	123					0	0	0.01441	0	0		T	122075732	T	T	122075732	3	4	134	1	0	0	0	0	1	0	0	0	16341	893	31	1	539	1	TNIP3	4	122075732	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1648659	122075732	69078544	472	73130											
TMEM155	132332	broad.mit.edu	37	chr4	122682762	122682762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttgccattcccagaaaaGccagtgcatggcacactctg	11	8	8	14	0	1	1	0	0	1	1	2	1	2	1	4	1	3	2	4	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:122682762G>A	uc003idx.1	-	5	702	c.143C>T	c.(142-144)GCT>GTT	p.A48V	TMEM155_uc003idy.1_Missense_Mutation_p.A48V	NM_152399	NP_689612	Q4W5P6	TM155_HUMAN	transmembrane protein 155 precursor	48						extracellular region					0						TCCCAGAAAAGCCAGTGCATG	0.423													41	80					0	0	0.00874	0	0		A	122682762	A	A	122682762	3	1	134	1	0	0	0	0	1	0	0	0	16097	971	34	2	257	2	TMEM155	4	122682762	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	607030	122682762	68471514	473	73131											
TRPC3	7222	broad.mit.edu	37	chr4	122853842	122853842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggttgaggatggcctctaCgatgcgcacgtagcccttgc	6	10	14	11	3	1	1	0	1	1	0	1	3	1	2	2	3	4	3	2	3	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:122853842C>T	uc003ieg.2	-	2	645	c.571G>A	c.(571-573)GTA>ATA	p.V191I	TRPC3_uc010inr.2_Missense_Mutation_p.V118I|TRPC3_uc003ief.2_Missense_Mutation_p.V118I|TRPC3_uc011cgl.1_5'UTR	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	106	Cytoplasmic (Potential).|ANK 3.				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						ATGGCCTCTACGATGCGCACG	0.632													23	43					0	0	0.004656	0	0		T	122853842	T	T	122853842	3	4	134	1	0	0	0	0	1	0	0	0	16605	536	19	1	2238	1	TRPC3	4	122853842	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	171080	122853842	68300434	474	73132											
SPATA5	166378	broad.mit.edu	37	chr4	123859335	123859335	+	Frame_Shift_Del	DEL	G	-	-																															gcactttgtccgaaaagagaGggggcccagaatgaagtgga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:123859335delG	uc003iez.3	+	8	1462	c.1389delG	c.(1387-1389)GAGfs	p.E463fs	SPATA5_uc003iey.2_Frame_Shift_Del_p.E462fs	NM_145207	NP_660208	Q8NB90	SPAT5_HUMAN	spermatogenesis associated 5	463					cell differentiation|multicellular organismal development|spermatogenesis	mitochondrion	ATP binding|nucleoside-triphosphatase activity				0						CGAAAAGAGAGGGGGCCCAGA	0.363													93	203	---	---	---	---						.	-	123859335	-	-	123859335	7	5	134	1	0	1	0	1	0	0	0	0	15036	991	35	0	1419	0	SPATA5	4	123859335	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	1005493	123859335	67294941	475	73133											
FAT4	79633	broad.mit.edu	37	chr4	126239277	126239277	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctatgcccagcttgtagtaActctcctagatgtgaatgat	10	13	8	10	0	1	3	0	2	1	1	2	3	1	3	3	0	3	3	3	0	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:126239277A>C	uc003ifj.3	+	1	1711	c.1711A>C	c.(1711-1713)ACT>CCT	p.T571P		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	571	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GCTTGTAGTAACTCTCCTAGA	0.502											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	68					0	0	0.010818	0	0		C	126239277	C	C	126239277	3	2	134	1	0	0	0	0	1	0	0	0	5706	43	2	5	1713	5	FAT4	4	126239277	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2379942	126239277	64914999	476	73134											
FAT4	79633	broad.mit.edu	37	chr4	126371710	126371710	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaactggttactgcagtgTgaccgtaaatgtgattgatg	12	12	12	5	1	0	4	0	3	0	1	0	4	0	4	1	1	3	3	1	1	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:126371710T>C	uc003ifj.3	+	9	9539	c.9539T>C	c.(9538-9540)GTG>GCG	p.V3180A	FAT4_uc011cgp.1_Missense_Mutation_p.V1478A|FAT4_uc003ifi.1_Missense_Mutation_p.V658A	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3180	Cadherin 30.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TACTGCAGTGTGACCGTAAAT	0.413													6	187					0	0	0.001984	0	0		C	126371710	C	C	126371710	3	2	134	1	0	0	0	0	1	0	0	0	5706	1696	59	3	9573	3	FAT4	4	126371710	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	132433	126371710	64782566	477	73135											
FAT4	79633	broad.mit.edu	37	chr4	126373095	126373095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgtgaagccacaggatccaGatgtgttagacagcttccac	11	9	10	11	0	0	3	0	1	0	2	2	4	2	4	3	1	2	2	3	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:126373095G>A	uc003ifj.3	+	9	10924	c.10924G>A	c.(10924-10926)GAT>AAT	p.D3642N	FAT4_uc011cgp.1_Missense_Mutation_p.D1940N|FAT4_uc003ifi.1_Missense_Mutation_p.D1120N	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3642	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACAGGATCCAGATGTGTTAGA	0.473													38	94					0	0	0.007835	0	0		A	126373095	A	A	126373095	3	1	134	1	0	0	0	0	1	0	0	0	5706	942	33	4	10958	4	FAT4	4	126373095	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1385	126373095	64781181	478	73136											
PLK4	10733	broad.mit.edu	37	chr4	128814517	128814517	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttacactttaaaaagtgaaAgtgaagttaatagcttgaaa	18	12	7	4	0	0	3	0	3	0	0	0	3	0	3	0	0	2	2	0	0	9	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:128814517A>G	uc003ifo.2	+	11	2511	c.2266A>G	c.(2266-2268)AGT>GGT	p.S756G	PLK4_uc011cgs.1_Missense_Mutation_p.S724G|PLK4_uc011cgt.1_Missense_Mutation_p.S715G	NM_014264	NP_055079	O00444	PLK4_HUMAN	polo-like kinase 4	756					G2/M transition of mitotic cell cycle|positive regulation of centriole replication|trophoblast giant cell differentiation	centriole|cleavage furrow|cytosol|nucleolus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						AAAAAGTGAAAGTGAAGTTAA	0.294													4	142					0	0	0.009096	0	0		G	128814517	G	G	128814517	3	3	134	1	0	0	0	0	1	0	0	0	12117	72	3	3	2308	3	PLK4	4	128814517	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2441422	128814517	62339759	479	73137											
PCDH10	57575	broad.mit.edu	37	chr4	134072897	134072897	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgctccttcgactatgaGcagctgaaggacttcagttt	8	12	10	11	2	1	2	1	2	0	0	3	4	2	3	1	1	3	4	1	1	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:134072897G>A	uc003iha.2	+	1	2428	c.1602G>A	c.(1600-1602)GAG>GAA	p.E534E	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.E534E	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	534	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TCGACTATGAGCAGCTGAAGG	0.557													55	128					0	0	0.01441	0	0		A	134072897	A	A	134072897	2	1	134	1	0	0	0	0	0	0	0	1	11526	962	34	2		2	PCDH10	4	134072897	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5258380	134072897	57081379	480	73138											
MAML3	55534	broad.mit.edu	37	chr4	140641268	140641268	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatttgggtcatgcctgTgctcatattgtacattcctg	8	15	8	10	0	2	0	2	0	0	0	3	0	3	0	2	1	4	2	2	1	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:140641268T>C	uc003ihz.1	-	7	3363	c.2611A>G	c.(2611-2613)ACA>GCA	p.T871A	MGST2_uc010ioi.1_Intron|MAML3_uc011chd.1_Missense_Mutation_p.T339A	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	872	Gln-rich.				Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					GTCATGCCTGTGCTCATATTG	0.582													150	490					0	0	0.01441	0	0		C	140641268	C	C	140641268	3	2	134	1	0	0	0	0	1	0	0	0	9225	1696	59	3	794	3	MAML3	4	140641268	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	6568371	140641268	50513008	481	73139											
HHIP	64399	broad.mit.edu	37	chr4	145627734	145627734	+	Frame_Shift_Del	DEL	A	-	-																															cattccatcccaattacaagAaaaatggaaagttgtatgtg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:145627734delA	uc003ijs.1	+	5	1538	c.883delA	c.(883-885)AAAfs	p.K295fs		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	295						cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		CAATTACAAGAAAAATGGAAA	0.418													19	34	---	---	---	---						.	-	145627734	-	-	145627734	7	5	134	1	0	1	0	1	0	0	0	0	7108	247	9	0	901	0	HHIP	4	145627734	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	4986466	145627734	45526542	482	73140											
ANAPC10	10393	broad.mit.edu	37	chr4	145916687	145916687	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgtatcatgaatgtacgAgttggcttcttatgattgtc	9	17	9	6	1	3	2	1	2	2	0	4	3	3	2	0	1	1	4	0	1	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:145916687A>G	uc003iju.3	-	6	551	c.396T>C	c.(394-396)ACT>ACC	p.T132T	ANAPC10_uc003ijv.3_Silent_p.T132T|ANAPC10_uc003ijw.3_Silent_p.T132T	NM_014885	NP_055700	Q9UM13	APC10_HUMAN	anaphase promoting complex subunit 10	132	DOC.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	ubiquitin-protein ligase activity				0	all_hematologic(180;0.151)					TGAATGTACGAGTTGGCTTCT	0.398													48	148					0	0	0.01441	0	0		G	145916687	G	G	145916687	2	3	134	1	0	0	0	0	0	0	0	1	599	291	11	3		3	ANAPC10	4	145916687	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	288953	145916687	45237589	483	73141											
ABCE1	6059	broad.mit.edu	37	chr4	146041093	146041093	+	Frame_Shift_Del	DEL	T	-	-																															cttcccaacaggcataaacaTttttttggatggctatgttc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:146041093delT	uc003ijx.2	+	11	1372	c.932delT	c.(931-933)ATTfs	p.I311fs	ABCE1_uc003ijy.2_Frame_Shift_Del_p.I311fs|ABCE1_uc010iot.2_RNA	NM_001040876	NP_001035809	P61221	ABCE1_HUMAN	ATP-binding cassette, sub-family E, member 1	311	ABC transporter 1.				interspecies interaction between organisms|response to virus|RNA catabolic process	mitochondrion	ATP binding|ATPase activity|electron carrier activity|iron-sulfur cluster binding|ribonuclease inhibitor activity			skin(1)	1	all_hematologic(180;0.151)					GGCATAAACATTTTTTTGGAT	0.358													42	58	---	---	---	---						.	-	146041093	-	-	146041093	7	5	134	1	0	1	0	1	0	0	0	0	64	1493	52	0	970	0	ABCE1	4	146041093	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	124406	146041093	45113183	484	73142											
TMEM184C	55751	broad.mit.edu	37	chr4	148555054	148555054	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgggatgtctcagatattAgagatgatatttctgaacaa	13	14	10	4	0	2	4	1	2	2	2	3	6	2	5	0	1	1	0	0	1	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:148555054A>G	uc003ila.3	+	9	1587	c.1018A>G	c.(1018-1020)AGA>GGA	p.R340G		NM_018241	NP_060711	Q9NVA4	T184C_HUMAN	transmembrane protein 184C	340						integral to membrane					0						CTCAGATATTAGAGATGATAT	0.383													14	306					0	0	0.00245	0	0		G	148555054	G	G	148555054	3	3	134	1	0	0	0	0	1	0	0	0	16131	412	15	3	1052	3	TMEM184C	4	148555054	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2513961	148555054	42599222	485	73143											
FHDC1	85462	broad.mit.edu	37	chr4	153897218	153897218	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgaccagagctgtcatcccgGgggccctcccagaatccccc	7	5	10	19	2	1	2	1	0	0	2	4	3	4	2	6	2	1	1	6	2	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:153897218G>T	uc003inf.2	+	11	2850	c.2775G>T	c.(2773-2775)CGG>CGT	p.R925R		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	925					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					TGTCATCCCGGGGGCCCTCCC	0.667													19	39					2.4624e-09	2.72816e-09	0.008871	1	0		T	153897218	T	T	153897218	2	4	134	1	0	0	0	0	0	0	0	1	5890	1219	43	5		5	FHDC1	4	153897218	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5342164	153897218	37257058	486	73144											
TLR2	7097	broad.mit.edu	37	chr4	154625490	154625490	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttattttctttgaatttgccGcaactcaaagaactttatat	12	18	4	7	1	2	2	1	1	1	1	2	2	2	2	1	0	3	1	1	0	7	8	rs150700268		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:154625490G>A	uc003inq.2	+	3	1650	c.1431G>A	c.(1429-1431)CCG>CCA	p.P477P	TLR2_uc003inr.2_Silent_p.P477P|TLR2_uc003ins.2_Silent_p.P477P	NM_003264	NP_003255	O60603	TLR2_HUMAN	toll-like receptor 2 precursor	477	LRR 13.|Extracellular (Potential).				cellular response to diacyl bacterial lipopeptide|cellular response to lipoteichoic acid|cellular response to triacyl bacterial lipopeptide|detection of diacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|I-kappaB phosphorylation|induction of apoptosis|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of interferon-beta production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of Wnt receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|integral to plasma membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	Gram-positive bacterial cell surface binding|lipopolysaccharide receptor activity|peptidoglycan binding|protein heterodimerization activity|transmembrane receptor activity|triacyl lipopeptide binding			ovary(1)|lung(1)|breast(1)	3	all_hematologic(180;0.093)	Renal(120;0.117)				TGAATTTGCCGCAACTCAAAG	0.373													86	151					0	0	0.01441	0	0		A	154625490	A	A	154625490	2	1	134	1	0	0	0	0	0	0	0	1	15976	1074	38	1		1	TLR2	4	154625490	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	728272	154625490	36528786	487	73145											
DCHS2	54798	broad.mit.edu	37	chr4	155163886	155163886	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgattacagtcgtattagaaAgcctgggcatccctttatct	10	14	8	9	1	1	2	0	1	1	1	3	2	2	2	2	1	2	2	2	1	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:155163886A>G	uc003inw.2	-	22	5615	c.5615T>C	c.(5614-5616)CTT>CCT	p.L1872P		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1872	Cadherin 16.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CGTATTAGAAAGCCTGGGCAT	0.398													3	130					0	0	0.009096	0	0		G	155163886	G	G	155163886	3	3	134	1	0	0	0	0	1	0	0	0	4291	72	3	3	3151	3	DCHS2	4	155163886	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	538396	155163886	35990390	488	73146											
RBM46	166863	broad.mit.edu	37	chr4	155720146	155720146	+	Frame_Shift_Del	DEL	T	-	-																															gagattatgcttttgttcacTttttcaaccgagaagatgca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:155720146delT	uc003ioo.2	+	4	1005	c.832delT	c.(832-834)TTTfs	p.F278fs	RBM46_uc011cim.1_Frame_Shift_Del_p.F278fs|RBM46_uc003iop.1_Frame_Shift_Del_p.F278fs	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	278	RRM 3.						nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				TTTTGTTCACTTTTTCAACCG	0.368													32	60	---	---	---	---						.	-	155720146	-	-	155720146	7	5	134	1	0	1	0	1	0	0	0	0	13165	1609	56	0	842	0	RBM46	4	155720146	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	556260	155720146	35434130	489	73147											
GLRB	2743	broad.mit.edu	37	chr4	158060032	158060032	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaattagaaaaaattgccTtgcctcaatttgatatcaaa	16	13	5	7	0	2	2	2	1	0	1	2	2	2	2	2	0	3	1	2	0	8	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:158060032T>C	uc003ipj.2	+	7	884	c.682T>C	c.(682-684)TTG>CTG	p.L228L		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	228	Extracellular (Probable).				nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	AAAAATTGCCTTGCCTCAATT	0.299													3	136					0	0	0.009096	0	0		C	158060032	C	C	158060032	2	2	134	1	0	0	0	0	0	0	0	1	6473	1606	56	3		3	GLRB	4	158060032	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2339886	158060032	33094244	490	73148											
KLHL2	11275	broad.mit.edu	37	chr4	166218824	166218824	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggcaagagtttatggccCgactgatggaacatgtacgg	11	9	14	7	2	0	3	0	2	0	1	0	5	0	4	1	4	2	3	1	4	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:166218824C>T	uc003irb.2	+	7	977	c.718C>T	c.(718-720)CGA>TGA	p.R240*	KLHL2_uc011cjm.1_Nonsense_Mutation_p.R244*|KLHL2_uc003irc.2_Nonsense_Mutation_p.R152*|KLHL2_uc010ira.2_5'UTR	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	240					intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		GTTTATGGCCCGACTGATGGA	0.398													33	63					0	0	0.010818	0	0		T	166218824	T	T	166218824	4	4	134	1	0	0	0	0	0	1	0	0	8390	644	23	1	786	1	KLHL2	4	166218824	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	8158792	166218824	24935452	491	73149											
KLHL2	11275	broad.mit.edu	37	chr4	166231869	166231869	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctgtgttaaatggattaTtatacgctgtgggaggcttt	8	16	12	5	1	0	0	0	0	0	0	0	2	0	2	0	3	2	4	0	3	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:166231869T>C	uc003irb.2	+	10	1463	c.1204T>C	c.(1204-1206)TTA>CTA	p.L402L	KLHL2_uc011cjm.1_Silent_p.L406L|KLHL2_uc003irc.2_Silent_p.L314L|KLHL2_uc010ira.2_Silent_p.L55L	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	402	Kelch 3.				intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		AAATGGATTATTATACGCTGT	0.423													20	533					0	0	0.003954	0	0		C	166231869	C	C	166231869	2	2	134	1	0	0	0	0	0	0	0	1	8390	1490	52	3		3	KLHL2	4	166231869	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	13045	166231869	24922407	492	73150											
GALNTL6	442117	broad.mit.edu	37	chr4	173730604	173730604	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaggactcatccggaccCgtctcctgggggcatctatg	8	8	13	12	2	3	1	1	0	2	1	5	4	4	3	3	4	0	1	3	4	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:173730604C>A	uc003isv.2	+	6	1382	c.646C>A	c.(646-648)CGT>AGT	p.R216S		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	216	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						CATCCGGACCCGTCTCCTGGG	0.517													4	99					0.00909568	0.0098655	0.009096	1	0		A	173730604	A	A	173730604	3	1	134	1	0	0	0	0	1	0	0	0	6240	652	23	5	664	5	GALNTL6	4	173730604	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	7498735	173730604	17423672	493	73151											
SPCS3	60559	broad.mit.edu	37	chr4	177241279	177241279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcgccttctcgctgagcGtgatggcggcgctcaccttc	3	12	12	14	5	2	2	1	2	1	0	5	2	2	2	2	2	1	3	2	2	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:177241279G>A	uc003iur.3	+	1	190	c.52G>A	c.(52-54)GTG>ATG	p.V18M		NM_021928	NP_068747	P61009	SPCS3_HUMAN	signal peptidase complex subunit 3	18	Helical; Signal-anchor for type II membrane protein; (Potential).				energy reserve metabolic process|regulation of insulin secretion|signal peptide processing	integral to membrane|microsome|signal peptidase complex	peptidase activity			ovary(1)	1		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.43e-19)|Epithelial(43;1.84e-16)|OV - Ovarian serous cystadenocarcinoma(60;4.51e-09)|GBM - Glioblastoma multiforme(59;0.000142)|STAD - Stomach adenocarcinoma(60;0.00279)|LUSC - Lung squamous cell carcinoma(193;0.0319)		CTCGCTGAGCGTGATGGCGGC	0.637													82	132					0	0	0.01441	0	0		A	177241279	A	A	177241279	3	1	134	1	0	0	0	0	1	0	0	0	15050	1145	40	1	54	1	SPCS3	4	177241279	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3510675	177241279	13912997	494	73152											
ODZ3	55714	broad.mit.edu	37	chr4	183664526	183664526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggcgatttcaactatgtgCggcggatattcccttctgga	8	13	11	9	3	2	0	1	0	1	0	3	3	3	2	1	4	2	0	1	4	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:183664526C>T	uc003ivd.1	+	18	3620	c.3583C>T	c.(3583-3585)CGG>TGG	p.R1195W	ODZ3_uc003ive.1_Missense_Mutation_p.R601W	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1195	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CAACTATGTGCGGCGGATATT	0.453													35	76					0	0	0.007835	0	0		T	183664526	T	T	183664526	3	4	134	1	0	0	0	0	1	0	0	0	10855	759	27	1	3653	1	ODZ3	4	183664526	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	6423247	183664526	7489750	495	73153											
ODZ3	55714	broad.mit.edu	37	chr4	183696226	183696226	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgactttgcctggcgagAacggtcaaaacttggtggaa	12	9	12	8	2	1	2	1	1	0	1	1	4	1	3	1	4	3	0	1	4	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:183696226A>G	uc003ivd.1	+	23	5261	c.5224A>G	c.(5224-5226)AAC>GAC	p.N1742D		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1742	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GCCTGGCGAGAACGGTCAAAA	0.542													37	71					0	0	0.006999	0	0		G	183696226	G	G	183696226	3	3	134	1	0	0	0	0	1	0	0	0	10855	246	9	3	5314	3	ODZ3	4	183696226	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	31700	183696226	7458050	496	73154											
C4orf41	60684	broad.mit.edu	37	chr4	184614802	184614802	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgaaccccctgcactgacTaatgaaatgtattgtttggt	11	13	8	9	0	0	3	0	3	0	0	0	3	0	3	2	1	2	3	2	1	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:184614802T>C	uc003ivx.2	+	21	2474	c.2298T>C	c.(2296-2298)ACT>ACC	p.T766T	C4orf41_uc003ivw.2_Silent_p.T766T|C4orf41_uc010isc.2_Silent_p.T110T|C4orf41_uc003ivy.2_Silent_p.T372T	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	766											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		CTGCACTGACTAATGAAATGT	0.403													103	195					0	0	0.01441	0	0		C	184614802	C	C	184614802	2	2	134	1	0	0	0	0	0	0	0	1	2273	1509	53	3		3	C4orf41	4	184614802	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	918576	184614802	6539474	497	73155											
PDLIM3	27295	broad.mit.edu	37	chr4	186423511	186423511	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttgtgcgggctcttgcGtgggtttcgcagtacagctc	3	13	15	10	3	1	0	0	0	1	0	3	0	1	0	0	3	4	6	0	3	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:186423511G>A	uc003ixw.3	-	8	1156	c.1032C>T	c.(1030-1032)CAC>CAT	p.H344H	PDLIM3_uc003ixx.3_Silent_p.H296H|PDLIM3_uc010isi.2_RNA	NM_014476	NP_055291	Q53GG5	PDLI3_HUMAN	PDZ and LIM domain protein 3 isoform a	344	LIM zinc-binding.					sarcomere	zinc ion binding			ovary(2)	2		all_lung(41;1.03e-13)|Lung NSC(41;2.49e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.00996)|Colorectal(36;0.0161)|all_hematologic(60;0.0592)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.4e-10)|BRCA - Breast invasive adenocarcinoma(30;8.64e-05)|GBM - Glioblastoma multiforme(59;0.000167)|STAD - Stomach adenocarcinoma(60;0.000828)|LUSC - Lung squamous cell carcinoma(40;0.00984)|COAD - Colon adenocarcinoma(29;0.0115)|READ - Rectum adenocarcinoma(43;0.171)		GGGCTCTTGCGTGGGTTTCGC	0.498													109	134					0	0	0.01441	0	0		A	186423511	A	A	186423511	2	1	134	1	0	0	0	0	0	0	0	1	11700	1136	40	1		1	PDLIM3	4	186423511	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1808709	186423511	4730765	498	73156											
MTNR1A	4543	broad.mit.edu	37	chr4	187454877	187454877	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctttactacattattgttgGtcatcagtggagacggtttc	8	16	9	8	1	2	1	2	0	0	1	3	2	2	1	1	3	2	2	1	3	3	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:187454877G>T	uc003izd.1	-	2	1037	c.1019C>A	c.(1018-1020)ACC>AAC	p.T340N		NM_005958	NP_005949	P48039	MTR1A_HUMAN	melatonin receptor 1A	340	Cytoplasmic (Potential).				circadian rhythm|G-protein signaling, coupled to cyclic nucleotide second messenger|mating behavior	integral to plasma membrane	melatonin receptor activity			ovary(1)|skin(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5		all_cancers(14;6.39e-56)|all_epithelial(14;1.48e-41)|all_lung(41;2.45e-15)|Lung NSC(41;7.26e-15)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00335)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|Renal(120;0.0183)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;7.63e-12)|BRCA - Breast invasive adenocarcinoma(30;6.68e-07)|GBM - Glioblastoma multiforme(59;3.44e-05)|LUSC - Lung squamous cell carcinoma(40;0.000106)|STAD - Stomach adenocarcinoma(60;0.000279)|READ - Rectum adenocarcinoma(43;0.159)	Melatonin(DB01065)|Ramelteon(DB00980)	ATTATTGTTGGTCATCAGTGG	0.502													74	111					1.92865e-43	2.2934e-43	0.01441	1	0		T	187454877	T	T	187454877	3	4	134	1	0	0	0	0	1	0	0	0	9969	1261	44	5	37	5	MTNR1A	4	187454877	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1031366	187454877	3699399	499	73157											
FAT1	2195	broad.mit.edu	37	chr4	187510305	187510305	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgctcatcaatcacctcaTagttggggaactcttgtatg	9	14	8	10	0	6	0	4	0	2	0	6	1	6	1	1	2	2	3	1	2	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:187510305T>C	uc003izf.2	-	27	13396	c.13208A>G	c.(13207-13209)TAT>TGT	p.Y4403C	FAT1_uc010isn.2_Missense_Mutation_p.Y50C|FAT1_uc003ize.2_Missense_Mutation_p.Y294C	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4403	Cytoplasmic (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AATCACCTCATAGTTGGGGAA	0.483										HNSCC(5;0.00058)			4	290					0	0	0.009096	0	0		C	187510305	C	C	187510305	3	2	134	1	0	0	0	0	1	0	0	0	5703	1406	49	3	562	3	FAT1	4	187510305	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	55428	187510305	3643971	500	73158											
FAT1	2195	broad.mit.edu	37	chr4	187530973	187530973	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtgatgacagactgctcAagaacggcatcttcactgat	12	9	9	11	2	3	5	2	3	1	2	3	5	3	5	1	1	2	2	1	1	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:187530973A>G	uc003izf.2	-	15	10238	c.10050T>C	c.(10048-10050)CTT>CTC	p.L3350L		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3350	Extracellular (Potential).|Cadherin 31.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CAGACTGCTCAAGAACGGCAT	0.398										HNSCC(5;0.00058)			16	42					0	0	0.004007	0	0		G	187530973	G	G	187530973	2	3	134	1	0	0	0	0	0	0	0	1	5703	117	5	3		3	FAT1	4	187530973	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	20668	187530973	3623303	501	73159											
FAT1	2195	broad.mit.edu	37	chr4	187628465	187628465	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaacctggatgatttcActatgtacctccttgtcttc	7	16	6	12	0	3	1	2	1	1	0	5	2	4	2	3	1	2	2	3	1	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr4:187628465A>G	uc003izf.2	-	2	2705	c.2517T>C	c.(2515-2517)AGT>AGC	p.S839S	FAT1_uc010iso.1_Silent_p.S839S	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	839	Extracellular (Potential).|Cadherin 7.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GGATGATTTCACTATGTACCT	0.453										HNSCC(5;0.00058)			8	204					0	0	0.004482	0	0		G	187628465	G	G	187628465	2	3	134	1	0	0	0	0	0	0	0	1	5703	156	6	3		3	FAT1	4	187628465	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	97492	187628465	3525811	502	73160											
SLC9A3	6550	broad.mit.edu	37	chr5	475020	475020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtggactcggggagggCggcggggggccgctcctcgg	2	6	23	10	5	0	0	0	0	0	0	3	2	1	2	2	9	0	1	2	9	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:475020C>T	uc003jbe.2	-	16	2591	c.2479G>A	c.(2479-2481)GCC>ACC	p.A827T	SLC9A3_uc011clx.1_Missense_Mutation_p.A818T|LOC25845_uc003jbd.2_5'Flank|LOC25845_uc010itb.1_5'Flank	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	827	Cytoplasmic (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			TCGGGGAGGGCGGCGGGGGGC	0.592													9	4					0	0	0.013537	0	0		T	475020	T	T	475020	3	4	134	1	0	0	0	0	1	0	0	0	14738	768	27	1	33	1	SLC9A3	5	475020	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08		475020	180440240	503	73161											
ADAMTS16	170690	broad.mit.edu	37	chr5	5146476	5146476	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacaggcactaagtctgtgCagactttaccgccagaggac	12	7	11	11	1	1	3	0	0	1	3	1	4	1	4	2	2	2	2	2	2	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:5146476C>T	uc003jdl.2	+	3	547	c.409C>T	c.(409-411)CAG>TAG	p.Q137*	ADAMTS16_uc003jdk.1_Nonsense_Mutation_p.Q137*|ADAMTS16_uc003jdj.1_Nonsense_Mutation_p.Q137*	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	137					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TAAGTCTGTGCAGACTTTACC	0.522													86	185					0	0	0.01441	0	0		T	5146476	T	T	5146476	4	4	134	1	0	0	0	0	0	1	0	0	261	711	25	2	419	2	ADAMTS16	5	5146476	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4671456	5146476	175768784	504	73162											
CTNND2	1501	broad.mit.edu	37	chr5	11159846	11159846	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attggcattttgagtgcatcGcatgaggagaggttccaaag	11	11	13	6	1	0	3	0	2	0	1	2	4	1	3	1	3	1	4	1	3	1	4	rs149766664	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:11159846G>A	uc003jfa.1	-	12	2146	c.2001C>T	c.(1999-2001)TGC>TGT	p.C667C	CTNND2_uc010itt.2_Silent_p.C576C|CTNND2_uc011cmy.1_Silent_p.C330C|CTNND2_uc011cmz.1_Silent_p.C234C|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Silent_p.C234C	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	667					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						TGAGTGCATCGCATGAGGAGA	0.483													45	90					0	0	0.01441	0	0		A	11159846	A	A	11159846	2	1	134	1	0	0	0	0	0	0	0	1	4023	1079	38	1		1	CTNND2	5	11159846	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6013370	11159846	169755414	505	73163											
DNAH5	1767	broad.mit.edu	37	chr5	13845086	13845087	+	Frame_Shift_Ins	INS	-	T	T																															aaccgaggaaagcacagtcgINSttttttctccaagtacctac																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:13845086_13845087insT	uc003jfd.2	-	32	5172_5173	c.5130_5131insA	c.(5128-5133)AAACGAfs	p.K1710fs		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1710_1711	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AAGCACAGTCGTTTTTTCTCCA	0.46									Kartagener_syndrome				36	82	---	---	---	---						.	T	13845087	T	T	13845086	7	5	134	1	0	1	1	0	0	0	0	0	4610	1153	40	0	8935	0	DNAH5	5	13845086	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	2685240	13845086	167070174	506	73164											
DNAH5	1767	broad.mit.edu	37	chr5	13876895	13876895	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttggtttgcacgggaatGggtaaatttacagatgctat	10	15	11	5	1	1	1	0	0	1	1	1	2	1	2	0	3	3	4	0	3	5	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:13876895G>T	uc003jfd.2	-	22	3336	c.3294C>A	c.(3292-3294)CCC>CCA	p.P1098P		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1098	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GCACGGGAATGGGTAAATTTA	0.328									Kartagener_syndrome				37	79					2.75727e-19	3.15386e-19	0.004878	1	0		T	13876895	T	T	13876895	2	4	134	1	0	0	0	0	0	0	0	1	4610	1335	47	5		5	DNAH5	5	13876895	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	31809	13876895	167038365	507	73165											
TRIO	7204	broad.mit.edu	37	chr5	14378154	14378154	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcttccaacgggagaacaGggtattgcattactggacca	12	9	10	10	1	1	1	0	0	1	1	2	3	2	2	2	3	4	2	2	3	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:14378154G>T	uc003jff.2	+	20	3371	c.3365G>T	c.(3364-3366)AGG>ATG	p.R1122M	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.R1073M|TRIO_uc003jfh.1_Missense_Mutation_p.R771M	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1122	Spectrin 4.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					CGGGAGAACAGGGTATTGCAT	0.458													9	33					2.52707e-12	2.83415e-12	0.006214	1	0		T	14378154	T	T	14378154	3	4	134	1	0	0	0	0	1	0	0	0	16578	1000	35	5	3443	5	TRIO	5	14378154	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	501259	14378154	166537106	508	73166											
TRIO	7204	broad.mit.edu	37	chr5	14498693	14498693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgacggcatctacacgtGcatcgctgtcaatgacatgg	11	9	11	10	3	2	3	1	2	1	1	3	3	2	3	0	2	2	3	0	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:14498693G>A	uc003jff.2	+	53	8282	c.8276G>A	c.(8275-8277)TGC>TAC	p.C2759Y	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2759	Ig-like C2-type.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					ATCTACACGTGCATCGCTGTC	0.587													69	109					0	0	0.01441	0	0		A	14498693	A	A	14498693	3	1	134	1	0	0	0	0	1	0	0	0	16578	1319	46	2	8486	2	TRIO	5	14498693	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	120539	14498693	166416567	509	73167											
PRDM9	56979	broad.mit.edu	37	chr5	23527575	23527575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agataagtcaaacctcctcaGtcaccagaggacacacacag	16	5	7	13	0	3	2	3	0	0	2	4	3	4	3	3	1	1	0	3	1	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:23527575G>A	uc003jgo.2	+	11	2560	c.2378G>A	c.(2377-2379)AGT>AAT	p.S793N		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	793	C2H2-type 11.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AACCTCCTCAGTCACCAGAGG	0.562										HNSCC(3;0.000094)			83	205					0	0	0.01441	0	0		A	23527575	A	A	23527575	3	1	134	1	0	0	0	0	1	0	0	0	12485	1029	36	4	2416	4	PRDM9	5	23527575	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	9028882	23527575	157387685	510	73168											
RNASEN	29102	broad.mit.edu	37	chr5	31449427	31449427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgaacttttctgtctcCgtatttgggctgccgaattc	6	16	10	9	2	2	2	0	2	2	0	4	3	2	2	2	1	2	2	2	1	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:31449427C>T	uc003jhg.2	-	21	3141	c.2782G>A	c.(2782-2784)GGA>AGA	p.G928R	RNASEN_uc003jhh.2_Missense_Mutation_p.G891R|RNASEN_uc003jhi.2_Missense_Mutation_p.G891R	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	928	Necessary for interaction with DGCR8 and pri-miRNA processing activity.|RNase III 1.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						TTTCTGTCTCCGTATTTGGGC	0.398													13	28					0	0	0.004007	0	0		T	31449427	T	T	31449427	3	4	134	1	0	0	0	0	1	0	0	0	13442	661	23	1	1402	1	RNASEN	5	31449427	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	7921852	31449427	149465833	511	73169											
PDZD2	23037	broad.mit.edu	37	chr5	31983706	31983706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaccacaagcaatgacaaaCgccgcttctcaaaaggtggg	14	6	10	11	2	1	2	1	2	1	0	2	2	1	2	2	2	2	2	2	2	5	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:31983706C>T	uc003jhl.2	+	3	1310	c.922C>T	c.(922-924)CGC>TGC	p.R308C	PDZD2_uc003jhm.2_Missense_Mutation_p.R308C|PDZD2_uc011cnx.1_Missense_Mutation_p.R134C	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	308					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CAATGACAAACGCCGCTTCTC	0.493													113	151					0	0	0.01441	0	0		T	31983706	T	T	31983706	3	4	134	1	0	0	0	0	1	0	0	0	11720	536	19	1	928	1	PDZD2	5	31983706	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	534279	31983706	148931554	512	73170											
TARS	6897	broad.mit.edu	37	chr5	33467736	33467736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaataaggtccacggggaaCgcaccatttctgaaactatc	14	8	8	11	2	1	1	0	1	1	0	3	2	2	2	2	3	2	1	2	3	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:33467736C>T	uc003jhy.2	+	19	2390	c.2095C>T	c.(2095-2097)CGC>TGC	p.R699C	TARS_uc011cob.1_Missense_Mutation_p.R687C|TARS_uc011coc.1_Missense_Mutation_p.R720C|TARS_uc003jhz.2_Missense_Mutation_p.R595C|TARS_uc011cod.1_Missense_Mutation_p.R578C	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	699					threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)	CCACGGGGAACGCACCATTTC	0.418													5	86					0	0	0.001984	0	0		T	33467736	T	T	33467736	3	4	134	1	0	0	0	0	1	0	0	0	15584	536	19	1	2169	1	TARS	5	33467736	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1484030	33467736	147447524	513	73171											
RAI14	26064	broad.mit.edu	37	chr5	34814751	34814751	+	Frame_Shift_Del	DEL	T	-	-																															tatcgggaaaggaatcggtaTtttttgctgaaccacccttc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:34814751delT	uc003jir.2	+	12	1112	c.916delT	c.(916-918)TTTfs	p.F306fs	RAI14_uc010iur.2_Frame_Shift_Del_p.F277fs|RAI14_uc011coj.1_Frame_Shift_Del_p.F306fs|RAI14_uc010ius.1_Frame_Shift_Del_p.F235fs|RAI14_uc003jis.2_Frame_Shift_Del_p.F309fs|RAI14_uc003jit.2_Frame_Shift_Del_p.F306fs|RAI14_uc011cok.1_Frame_Shift_Del_p.F298fs	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	306						cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					GGAATCGGTATTTTTTGCTGA	0.323													46	78	---	---	---	---						.	-	34814751	-	-	34814751	7	5	134	1	0	1	0	1	0	0	0	0	13033	1493	52	0	1023	0	RAI14	5	34814751	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	1347015	34814751	146100509	514	73172											
C5orf42	65250	broad.mit.edu	37	chr5	37162611	37162611	+	Frame_Shift_Del	DEL	T	-	-																															cttgacttcctatagctttcTtttttacagaggccatgaaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:37162611delT	uc011cpa.1	-	38	7877	c.7646delA	c.(7645-7647)AAGfs	p.K2549fs	C5orf42_uc011coy.1_Frame_Shift_Del_p.K1049fs|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Frame_Shift_Del_p.K1624fs	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2549										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			TATAGCTTTCTTTTTTACAGA	0.284													95	178	---	---	---	---						.	-	37162611	-	-	37162611	7	5	134	1	0	1	0	1	0	0	0	0	2304	1609	56	0	2007	0	C5orf42	5	37162611	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	2347860	37162611	143752649	515	73173											
PLCXD3	345557	broad.mit.edu	37	chr5	41382376	41382376	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctcctcaaggccttcatTgactttggcactgaacaaac	11	11	7	12	0	3	2	2	2	1	0	4	3	3	2	2	2	2	1	2	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:41382376T>C	uc003jmm.1	-	2	466	c.364A>G	c.(364-366)AAT>GAT	p.N122D		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	122	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						AGGCCTTCATTGACTTTGGCA	0.433													115	134					0	0	0.01441	0	0		C	41382376	C	C	41382376	3	2	134	1	0	0	0	0	1	0	0	0	12062	1812	63	3	609	3	PLCXD3	5	41382376	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4219765	41382376	139532884	516	73174											
NNT	23530	broad.mit.edu	37	chr5	43659315	43659315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggggtgctgacatgcccGtcgttatcactgtgctgaac	6	12	13	10	2	1	2	1	2	0	0	2	2	1	2	1	2	4	3	1	2	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:43659315G>A	uc003joe.2	+	17	2752	c.2497G>A	c.(2497-2499)GTC>ATC	p.V833I	NNT_uc003jof.2_Missense_Mutation_p.V833I	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	833	Helical; (Potential).				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	TGACATGCCCGTCGTTATCAC	0.473													103	191					0	0	0.01441	0	0		A	43659315	A	A	43659315	3	1	134	1	0	0	0	0	1	0	0	0	10529	1145	40	1	2559	1	NNT	5	43659315	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2276939	43659315	137255945	517	73175											
PARP8	79668	broad.mit.edu	37	chr5	50057724	50057724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attccgaagaattttattacGgagggcaggtaaggaaacct	14	10	11	6	2	0	1	0	0	0	1	1	4	1	3	2	4	2	2	2	4	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:50057724G>A	uc003jon.3	+	7	597	c.415G>A	c.(415-417)GGA>AGA	p.G139R	PARP8_uc011cpz.1_Missense_Mutation_p.G31R|PARP8_uc003joo.2_Missense_Mutation_p.G139R|PARP8_uc003jop.2_Missense_Mutation_p.G139R	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	139						intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				ATTTTATTACGGAGGGCAGGT	0.373													43	84					0	0	0.009718	0	0		A	50057724	A	A	50057724	3	1	134	1	0	0	0	0	1	0	0	0	11484	1117	39	1	437	1	PARP8	5	50057724	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6398409	50057724	130857536	518	73176											
DHX29	54505	broad.mit.edu	37	chr5	54579187	54579187	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagaaaatgtggtacctgAgtacttttaccactccctgt	12	13	7	9	0	0	2	0	1	0	1	1	2	1	2	3	1	3	2	3	1	7	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:54579187A>G	uc003jpx.2	-	11	1929	c.1809T>C	c.(1807-1809)ACT>ACC	p.T603T	DHX29_uc010ivw.2_RNA	NM_019030	NP_061903	Q7Z478	DHX29_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 29	603	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|translation initiation factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0544)|Prostate(74;0.183)				GTGGTACCTGAGTACTTTTAC	0.413													62	169					0	0	0.01441	0	0		G	54579187	G	G	54579187	2	3	134	1	0	0	0	0	0	0	0	1	4509	291	11	3		3	DHX29	5	54579187	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4521463	54579187	126336073	519	73177											
GCNT4	51301	broad.mit.edu	37	chr5	74324987	74324987	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatatctgaatgttatggggGggtgcttccttggagatgtt	8	15	14	4	0	1	2	0	1	1	1	2	3	2	2	1	4	1	3	1	4	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:74324987G>C	uc003kdn.2	-	1	1738	c.876C>G	c.(874-876)CCC>CCG	p.P292P		NM_016591	NP_057675	Q9P109	GCNT4_HUMAN	core 2 beta-1,6-N-acetylglucosaminyltransferase	292	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;8.44e-57)		TGTTATGGGGGGGTGCTTCCT	0.358													4	133					0	0	0.001984	0	0		C	74324987	C	C	74324987	2	2	134	1	0	0	0	0	0	0	0	1	6318	1219	43	5		5	GCNT4	5	74324987	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	19745800	74324987	106590273	520	73178											
HMGCR	3156	broad.mit.edu	37	chr5	74643031	74643031	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtttgatctgttttaggaTgaagtaagggaaaatattgc	13	15	11	2	0	1	2	0	2	1	0	1	4	1	4	0	2	1	3	0	2	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:74643031T>C	uc003kdp.2	+	6	609	c.453T>C	c.(451-453)GAT>GAC	p.D151D	HMGCR_uc011cst.1_Silent_p.D171D|HMGCR_uc003kdq.2_Silent_p.D151D|HMGCR_uc010izn.1_5'UTR	NM_000859	NP_000850	P04035	HMDH_HUMAN	3-hydroxy-3-methylglutaryl-Coenzyme A reductase	151					cholesterol biosynthetic process|coenzyme A metabolic process|germ cell migration|gonad development|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal membrane	hydroxymethylglutaryl-CoA reductase (NADPH) activity|NADP binding			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;2.24e-54)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Cerivastatin(DB00439)|Fluvastatin(DB01095)|Lovastatin(DB00227)|NADH(DB00157)|Pravastatin(DB00175)|Rosuvastatin(DB01098)|Simvastatin(DB00641)	TGTTTTAGGATGAAGTAAGGG	0.358													14	461					0	0	0.001855	0	0		C	74643031	C	C	74643031	2	2	134	1	0	0	0	0	0	0	0	1	7247	1461	51	3		3	HMGCR	5	74643031	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	318044	74643031	106272229	521	73179											
ATP6AP1L	92270	broad.mit.edu	37	chr5	81613882	81613882	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgcgcctcctccttctcGccagcttttctgatcggcct	3	13	8	17	3	2	1	0	1	2	0	6	2	4	1	5	1	2	1	5	1	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:81613882G>A	uc003khv.2	+	10	1763	c.438G>A	c.(436-438)TCG>TCA	p.S146S	ATP6AP1L_uc003khw.2_Silent_p.S146S	NM_001017971	NP_001017971	Q52LC2	VAS1L_HUMAN	ATPase, H+ transporting, lysosomal accessory	146					ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						CCTCCTTCTCGCCAGCTTTTC	0.537													49	85					0	0	0.01441	0	0		A	81613882	A	A	81613882	2	1	134	1	0	0	0	0	0	0	0	1	1167	1074	38	1		1	ATP6AP1L	5	81613882	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6970851	81613882	99301378	522	73180											
RASA1	5921	broad.mit.edu	37	chr5	86645084	86645084	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagataatactcctggcgatTattcactttatttccggacc	10	14	6	11	2	1	1	1	0	0	1	3	3	3	2	3	2	1	0	3	2	4	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:86645084T>C	uc003kiw.2	+	8	1274	c.1156T>C	c.(1156-1158)TAT>CAT	p.Y386H	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Missense_Mutation_p.Y209H|RASA1_uc011ctv.1_Missense_Mutation_p.Y219H|RASA1_uc011ctw.1_Missense_Mutation_p.Y220H|RASA1_uc010jaw.2_Missense_Mutation_p.Y208H	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	386	SH2 2.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		TCCTGGCGATTATTCACTTTA	0.358													5	221					0	0	0.001168	0	0		C	86645084	C	C	86645084	3	2	134	1	0	0	0	0	1	0	0	0	13085	1754	61	3	1198	3	RASA1	5	86645084	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	5031202	86645084	94270176	523	73181											
POLR3G	10622	broad.mit.edu	37	chr5	89783832	89783832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacaggatacagattataaaCcagtgccactgaaaacagga	19	6	8	8	0	0	2	0	1	0	1	0	4	0	4	2	2	5	0	2	2	7	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:89783832C>T	uc003kjq.2	+	3	333	c.133C>T	c.(133-135)CCA>TCA	p.P45S	POLR3G_uc011cuc.1_Missense_Mutation_p.P45S	NM_006467	NP_006458	O15318	RPC7_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	45					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|regulation of transcription from RNA polymerase III promoter|response to virus	DNA-directed RNA polymerase III complex	DNA-directed RNA polymerase activity				0		all_cancers(142;5.03e-09)|all_epithelial(76;1.23e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;2.74e-31)|Epithelial(54;8.2e-26)|all cancers(79;3.86e-22)		AGATTATAAACCAGTGCCACT	0.303													39	79					0	0	0.00874	0	0		T	89783832	T	T	89783832	3	4	134	1	0	0	0	0	1	0	0	0	12253	507	18	4	139	4	POLR3G	5	89783832	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3138748	89783832	91131428	524	73182											
ANKRD32	84250	broad.mit.edu	37	chr5	94030769	94030769	+	Frame_Shift_Del	DEL	A	-	-																															ttgatttatcttcagagttcAttttagcttccaaagggtta																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:94030769delA	uc003kkr.3	+	21	3009	c.2929delA	c.(2929-2931)ATTfs	p.I977fs	ANKRD32_uc003kks.2_Frame_Shift_Del_p.I341fs	NM_032290	NP_115666	Q9BQI6	ANR32_HUMAN	ankyrin repeat domain 32	977										ovary(2)	2		all_cancers(142;1.51e-09)|all_epithelial(76;4.68e-12)|all_lung(232;5.94e-05)|Ovarian(174;0.000953)|Lung NSC(167;0.00105)|Colorectal(57;0.122)|Lung SC(612;0.152)		all cancers(79;3.88e-18)		TTCAGAGTTCATTTTAGCTTC	0.333													30	65	---	---	---	---						.	-	94030769	-	-	94030769	7	5	134	1	0	1	0	1	0	0	0	0	660	217	8	0	3007	0	ANKRD32	5	94030769	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	4246937	94030769	86884491	525	73183											
RFESD	317671	broad.mit.edu	37	chr5	94991908	94991908	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaggattcacacagtgacAgtagacaacggaaatattta	18	8	8	7	1	1	2	1	1	0	1	1	4	1	4	0	2	1	1	0	2	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:94991908A>G	uc003klf.2	+	5	1761	c.369A>G	c.(367-369)ACA>ACG	p.T123T	RFESD_uc003klg.2_Silent_p.T176T|RFESD_uc011cun.1_Silent_p.T176T|SPATA9_uc010jbh.1_Intron|SPATA9_uc003klh.1_Intron|SPATA9_uc003kli.1_Intron	NM_173362	NP_775498	Q8TAC1	RFESD_HUMAN	Rieske (Fe-S) domain containing isoform 2	123	Rieske 2.						2 iron, 2 sulfur cluster binding|metal ion binding|oxidoreductase activity				0		all_cancers(142;0.000215)|all_epithelial(76;7.43e-07)|all_lung(232;0.0318)|Lung NSC(167;0.041)|Ovarian(225;0.051)|Colorectal(57;0.162)		all cancers(79;5.94e-17)		ACACAGTGACAGTAGACAACG	0.383													6	156					0	0	0.001168	0	0		G	94991908	G	G	94991908	2	3	134	1	0	0	0	0	0	0	0	1	13274	175	7	3		3	RFESD	5	94991908	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	961139	94991908	85923352	526	73184											
ERAP2	64167	broad.mit.edu	37	chr5	96239120	96239120	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaccagttgggtgaaatTtaatgtggactcaaatggtt	14	12	11	4	0	1	2	1	1	0	1	1	3	1	3	1	3	0	2	1	3	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:96239120T>C	uc003kmq.2	+	13	2578	c.1868T>C	c.(1867-1869)TTT>TCT	p.F623S	uc003kmo.1_Intron|ERAP2_uc003kmt.2_Missense_Mutation_p.F623S|ERAP2_uc003kmr.2_RNA|ERAP2_uc003kms.2_Missense_Mutation_p.F572S|ERAP2_uc003kmu.2_RNA	NM_022350	NP_071745	Q6P179	ERAP2_HUMAN	endoplasmic reticulum aminopeptidase 2	623	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|proteolysis|regulation of blood pressure	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding				0		all_cancers(142;0.000311)|all_epithelial(76;1.54e-06)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0596)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0703)		TGGGTGAAATTTAATGTGGAC	0.398													3	155					0	0	0.004672	0	0		C	96239120	C	C	96239120	3	2	134	1	0	0	0	0	1	0	0	0	5212	1841	64	3	1914	3	ERAP2	5	96239120	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1247212	96239120	84676140	527	73185											
ERAP2	64167	broad.mit.edu	37	chr5	96253217	96253217	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggatcacatctggatattTttcaaactgttctggaaacg	13	13	8	7	1	4	0	2	0	2	0	4	3	4	3	0	3	2	1	0	3	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:96253217T>C	uc003kmq.2	+	19	3501	c.2791T>C	c.(2791-2793)TTT>CTT	p.F931L	uc003kmo.1_Intron|ERAP2_uc003kmt.2_Missense_Mutation_p.F931L|ERAP2_uc003kmr.2_RNA|ERAP2_uc003kms.2_Missense_Mutation_p.F880L|ERAP2_uc003kmu.2_RNA	NM_022350	NP_071745	Q6P179	ERAP2_HUMAN	endoplasmic reticulum aminopeptidase 2	931	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|proteolysis|regulation of blood pressure	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding				0		all_cancers(142;0.000311)|all_epithelial(76;1.54e-06)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0596)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0703)		TCTGGATATTTTTCAAACTGT	0.313													76	120					0	0	0.01441	0	0		C	96253217	C	C	96253217	3	2	134	1	0	0	0	0	1	0	0	0	5212	1841	64	3	2861	3	ERAP2	5	96253217	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	14097	96253217	84662043	528	73186											
LNPEP	4012	broad.mit.edu	37	chr5	96362455	96362455	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagaactggaataagcttgTacagaagtaagtttctcaga	16	10	10	5	0	1	3	1	0	1	3	2	5	1	4	0	1	3	4	0	1	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:96362455T>C	uc003kmv.1	+	16	3372	c.2858T>C	c.(2857-2859)GTA>GCA	p.V953A	LNPEP_uc003kmw.1_Missense_Mutation_p.V939A	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1	953	Extracellular (Potential).				cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		AATAAGCTTGTACAGAAGTAA	0.378													79	135					0	0	0.01441	0	0		C	96362455	C	C	96362455	3	2	134	1	0	0	0	0	1	0	0	0	8881	1638	57	3	2920	3	LNPEP	5	96362455	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	109238	96362455	84552805	529	73187											
ST8SIA4	7903	broad.mit.edu	37	chr5	100191913	100191913	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtgcttctctcctccttTgaccatgaaagcaggaatcc	9	11	7	14	1	1	2	0	2	1	0	5	3	4	3	4	1	2	2	4	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:100191913T>C	uc003knk.2	-	4	1019	c.691A>G	c.(691-693)AAA>GAA	p.K231E		NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	231	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		TCTCCTCCTTTGACCATGAAA	0.418													106	177					0	0	0.01441	0	0		C	100191913	C	C	100191913	3	2	134	1	0	0	0	0	1	0	0	0	15259	1821	63	3	396	3	ST8SIA4	5	100191913	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3829458	100191913	80723347	530	73188											
SLCO6A1	133482	broad.mit.edu	37	chr5	101834428	101834428	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttcccgggcttcgaggActtcggggttcccttggccc	2	14	12	13	3	0	0	0	0	0	0	4	2	2	1	3	5	0	2	3	5	0	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:101834428A>G	uc003knn.2	-	1	293	c.121T>C	c.(121-123)TCC>CCC	p.S41P	SLCO6A1_uc003kno.2_Missense_Mutation_p.S41P|SLCO6A1_uc003knp.2_Missense_Mutation_p.S41P|SLCO6A1_uc003knq.2_Missense_Mutation_p.S41P	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	41	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		GGCTTCGAGGACTTCGGGGTT	0.582													130	373					0	0	0.01441	0	0		G	101834428	G	G	101834428	3	3	134	1	0	0	0	0	1	0	0	0	14757	275	10	3	2090	3	SLCO6A1	5	101834428	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1642515	101834428	79080832	531	73189											
GIN1	54826	broad.mit.edu	37	chr5	102423850	102423850	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagtcatgatctgccactaCtgaaccttgcaagagataaa	14	10	8	9	0	2	3	1	2	1	1	2	4	2	3	2	0	4	2	2	0	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:102423850C>G	uc003koa.1	-	8	1403	c.1321G>C	c.(1321-1323)GTA>CTA	p.V441L	GIN1_uc003kob.1_Missense_Mutation_p.V294L|GIN1_uc003koc.1_Missense_Mutation_p.Q222H	NM_017676	NP_060146	Q9NXP7	GIN1_HUMAN	zinc finger, H2C2 domain containing	441					DNA integration		DNA binding			ovary(1)|skin(1)	2		all_cancers(142;3.23e-07)|all_epithelial(76;3.64e-10)|Prostate(80;0.00914)|Ovarian(225;0.0139)|Lung NSC(167;0.0212)|Colorectal(57;0.0249)|all_lung(232;0.0283)		Epithelial(69;3.57e-14)|COAD - Colon adenocarcinoma(37;0.00794)		TCTGCCACTACTGAACCTTGC	0.289													44	76					0	0	0.01441	0	0		G	102423850	G	G	102423850	3	3	134	1	0	0	0	0	1	0	0	0	6401	565	20	5	251	5	GIN1	5	102423850	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	589422	102423850	78491410	532	73190											
PPIP5K2	23262	broad.mit.edu	37	chr5	102519007	102519007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attataccagtggtgtgggtActgggcgtcgaagacgcaga	10	9	15	7	3	0	2	0	0	0	2	1	3	0	2	1	3	2	2	1	3	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:102519007A>G	uc003kod.3	+	25	3514	c.2995A>G	c.(2995-2997)ACT>GCT	p.T999A	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.T999A|PPIP5K2_uc003kof.2_Intron	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	999					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						TGGTGTGGGTACTGGGCGTCG	0.512													52	92					0	0	0.01441	0	0		G	102519007	G	G	102519007	3	3	134	1	0	0	0	0	1	0	0	0	12355	391	14	3	3089	3	PPIP5K2	5	102519007	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	95157	102519007	78396253	533	73191											
FER	2241	broad.mit.edu	37	chr5	108294945	108294945	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaacatgtatcgattcgaggGcactgggttttcaaacattc	11	12	10	8	2	1	0	1	0	0	0	4	3	1	0	0	2	2	3	0	2	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:108294945G>A	uc003kop.1	+	13	1937	c.1553G>A	c.(1552-1554)GGC>GAC	p.G518D	FER_uc011cvf.1_RNA|FER_uc011cvg.1_Missense_Mutation_p.G343D	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	518	SH2.				intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		CGATTCGAGGGCACTGGGTTT	0.348													33	101					0	0	0.003755	0	0		A	108294945	A	A	108294945	3	1	134	1	0	0	0	0	1	0	0	0	5827	1203	42	2	1595	2	FER	5	108294945	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5775938	108294945	72620315	534	73192											
APC	324	broad.mit.edu	37	chr5	112178834	112178834	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacctaatctcagtcccactAtagagtataatgatggaaga	15	10	7	9	0	1	3	1	1	1	2	3	4	2	4	2	1	0	1	2	1	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:112178834A>G	uc010jby.2	+	16	7923	c.7543A>G	c.(7543-7545)ATA>GTA	p.I2515V	APC_uc011cvt.1_Missense_Mutation_p.I2497V|APC_uc003kpz.3_Missense_Mutation_p.I2515V|APC_uc003kpy.3_Missense_Mutation_p.I2515V|APC_uc010jbz.2_Missense_Mutation_p.I2232V|APC_uc010jca.2_Missense_Mutation_p.I1815V	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	2515	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		CAGTCCCACTATAGAGTATAA	0.453		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			50	122					0	0	0.01441	0	0		G	112178834	G	G	112178834	3	3	134	1	0	0	0	0	1	0	0	0	763	449	16	3	7601	3	APC	5	112178834	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3883889	112178834	68736426	535	73193											
FEM1C	56929	broad.mit.edu	37	chr5	114861055	114861055	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgttcattgcctttttccaGtatttcaaagccccaagcag	10	14	6	11	0	2	0	2	0	0	0	3	0	3	0	4	0	3	3	4	0	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:114861055G>T	uc003krb.1	-	3	1366	c.804C>A	c.(802-804)TAC>TAA	p.Y268*		NM_020177	NP_064562	Q96JP0	FEM1C_HUMAN	feminization 1 homolog a	268	TPR 1.					cytoplasm				breast(2)|ovary(1)	3		all_cancers(142;0.000575)|all_epithelial(76;9.98e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;2.5e-07)|Epithelial(69;2.66e-07)|all cancers(49;1.39e-05)		CCTTTTTCCAGTATTTCAAAG	0.398													9	253					3.86212e-05	4.22314e-05	0.008291	1	0		T	114861055	T	T	114861055	4	4	134	1	0	0	0	0	0	1	0	0	5825	1024	36	5	1053	5	FEM1C	5	114861055	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2682221	114861055	66054205	536	73194											
FBN2	2201	broad.mit.edu	37	chr5	127670530	127670530	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaatttaggtcacattcaTtgacatctagaaaatttatt	14	17	5	5	0	3	3	2	2	1	1	3	3	3	3	0	1	0	0	0	1	6	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:127670530T>C	uc003kuu.2	-	31	4419	c.3980A>G	c.(3979-3981)AAT>AGT	p.N1327S	FBN2_uc003kuv.2_Missense_Mutation_p.N1294S	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1327	EGF-like 21; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GTCACATTCATTGACATCTAG	0.348													3	110					0	0	0.004672	0	0		C	127670530	C	C	127670530	3	2	134	1	0	0	0	0	1	0	0	0	5717	1493	52	3	4898	3	FBN2	5	127670530	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	12809475	127670530	53244730	537	73195											
ADAMTS19	171019	broad.mit.edu	37	chr5	128977572	128977572	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgttatttgcacaggattAtggtgcaaggtagaaggtga	12	12	13	4	0	0	2	0	1	0	1	0	3	0	3	0	4	2	4	0	4	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:128977572A>G	uc003kvb.1	+	11	1773	c.1773A>G	c.(1771-1773)TTA>TTG	p.L591L	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	591	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		GCACAGGATTATGGTGCAAGG	0.393													41	89					0	0	0.00874	0	0		G	128977572	G	G	128977572	2	3	134	1	0	0	0	0	0	0	0	1	264	446	16	3		3	ADAMTS19	5	128977572	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1307042	128977572	51937688	538	73196											
RAPGEF6	51735	broad.mit.edu	37	chr5	130897705	130897705	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctctaatacaagacaaTcacatcctctttttcctcca	13	12	3	13	0	3	1	1	0	2	1	6	1	6	1	3	1	1	1	3	1	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:130897705T>C	uc003kvn.1	-	5	523	c.317A>G	c.(316-318)GAT>GGT	p.D106G	RAPGEF6_uc003kvp.1_Missense_Mutation_p.D156G|RAPGEF6_uc003kvo.1_Missense_Mutation_p.D106G|RAPGEF6_uc010jdi.1_Missense_Mutation_p.D106G|RAPGEF6_uc010jdj.1_Missense_Mutation_p.D106G|RAPGEF6_uc003kvr.2_Missense_Mutation_p.D106G|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Missense_Mutation_p.D106G	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	106					Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		TACAAGACAATCACATCCTCT	0.279													59	93					0	0	0.01441	0	0		C	130897705	C	C	130897705	3	2	134	1	0	0	0	0	1	0	0	0	13073	1435	50	3	5070	3	RAPGEF6	5	130897705	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1920133	130897705	50017555	539	73197											
AFF4	27125	broad.mit.edu	37	chr5	132216839	132216839	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgatgcttgcattaaagAtgagagggcccattacttta	12	13	9	7	0	1	3	1	2	0	2	1	4	1	3	1	1	3	2	1	1	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:132216839A>C	uc003kyd.2	-	21	3812	c.3404T>G	c.(3403-3405)ATC>AGC	p.I1135S	AFF4_uc011cxk.1_Missense_Mutation_p.I813S	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	1135					transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TGCATTAAAGATGAGAGGGCC	0.383													29	49					0	0	0.007291	0	0		C	132216839	C	C	132216839	3	2	134	1	0	0	0	0	1	0	0	0	359	333	12	5	91	5	AFF4	5	132216839	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1319134	132216839	48698421	540	73198											
HSPA4	3308	broad.mit.edu	37	chr5	132424849	132424849	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctccagctgaagaagggTcaaggtatcatgtttattaa	13	13	9	6	0	3	2	2	1	1	1	4	2	3	2	1	2	1	3	1	2	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:132424849T>C	uc003kyj.2	+	10	1521	c.1240T>C	c.(1240-1242)TCA>CCA	p.S414P		NM_002154	NP_002145	P34932	HSP74_HUMAN	heat shock 70kDa protein 4	414					cellular chaperone-mediated protein complex assembly|protein import into mitochondrial outer membrane|response to unfolded protein	cytoplasm|nucleus	ATP binding			lung(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TGAAGAAGGGTCAAGGTATCA	0.328													5	109					0	0	0.000602	0	0		C	132424849	C	C	132424849	3	2	134	1	0	0	0	0	1	0	0	0	7428	1667	58	3	1278	3	HSPA4	5	132424849	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	208010	132424849	48490411	541	73199											
PHF15	23338	broad.mit.edu	37	chr5	133914438	133914438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggccgcacccgcctgcctGccaagaagaaaccaccacca	12	2	9	18	2	0	2	0	0	0	2	0	3	0	2	8	1	3	1	8	1	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:133914438G>A	uc003kzo.1	+	11	1983	c.1804G>A	c.(1804-1806)GCC>ACC	p.A602T	PHF15_uc011cxt.1_Missense_Mutation_p.A646T|PHF15_uc003kzk.2_Missense_Mutation_p.A662T|PHF15_uc003kzl.2_3'UTR|PHF15_uc003kzm.2_Missense_Mutation_p.A603T|PHF15_uc003kzn.2_3'UTR	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	602	Pro-rich.				histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CCGCCTGCCTGCCAAGAAGAA	0.657													30	32					0	0	0.003271	0	0		A	133914438	A	A	133914438	3	1	134	1	0	0	0	0	1	0	0	0	11845	1319	46	2	1842	2	PHF15	5	133914438	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1489589	133914438	47000822	542	73200											
DND1	373863	broad.mit.edu	37	chr5	140052333	140052333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctgtagcgggcataggCgaagccgcggttcaggccgc	7	5	17	12	6	1	0	1	0	0	0	1	2	1	0	2	4	3	4	2	4	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140052333C>T	uc003lgt.2	-	3	345	c.301G>A	c.(301-303)GCC>ACC	p.A101T		NM_194249	NP_919225	Q8IYX4	DND1_HUMAN	dead end homolog 1	101	RRM 1.				multicellular organismal development|negative regulation of gene silencing by miRNA	cytoplasm|nucleus	AU-rich element binding|nucleotide binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGGCATAGGCGAAGCCGCGG	0.692													7	10					0	0	0.004482	0	0		T	140052333	T	T	140052333	3	4	134	1	0	0	0	0	1	0	0	0	4672	768	27	1	768	1	DND1	5	140052333	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	6137895	140052333	40862927	543	73201											
PCDHA1	56147	broad.mit.edu	37	chr5	140167327	140167327	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcgcgggacgcggacgcGcaggagaacgcgctggtgtc	6	5	18	12	8	1	1	0	0	1	1	2	4	1	3	0	4	2	2	0	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140167327G>A	uc003lhb.2	+	1	1452	c.1452G>A	c.(1450-1452)GCG>GCA	p.A484A	PCDHA1_uc003lha.2_Silent_p.A484A|PCDHA1_uc003lgz.2_Silent_p.A484A	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	484	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGCGGACGCGCAGGAGAACG	0.662													58	118					0	0	0.01441	0	0		A	140167327	A	A	140167327	2	1	134	1	0	0	0	0	0	0	0	1	11538	1074	38	1		1	PCDHA1	5	140167327	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	114994	140167327	40747933	544	73202											
PCDHA1	56147	broad.mit.edu	37	chr5	140167916	140167916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgccaaaggcgtcttcgCgggcgtcggtgggtgtcgcg	4	7	19	11	8	1	0	0	0	1	0	4	0	1	0	1	5	0	0	1	5	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140167916C>T	uc003lhb.2	+	1	2041	c.2041C>T	c.(2041-2043)CGG>TGG	p.R681W	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.R681W	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	681	Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGTCTTCGCGGGCGTCGGT	0.657													43	83					0	0	0.01441	0	0		T	140167916	T	T	140167916	3	4	134	1	0	0	0	0	1	0	0	0	11538	759	27	1	2043	1	PCDHA1	5	140167916	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	589	140167916	40747344	545	73203											
PCDHA8	56140	broad.mit.edu	37	chr5	140222665	140222665	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgccgcggtctgtgggcGcgggccacgtggtagcgaag	4	7	20	10	6	1	0	0	0	1	0	1	1	1	0	2	5	2	1	2	5	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140222665G>A	uc003lhs.2	+	1	1759	c.1759G>A	c.(1759-1761)GCG>ACG	p.A587T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.A587T	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	587	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTCTGTGGGCGCGGGCCACGT	0.677													55	15					0	0	0.01441	0	0		A	140222665	A	A	140222665	3	1	134	1	0	0	0	0	1	0	0	0	11549	1087	38	1	1761	1	PCDHA8	5	140222665	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	54749	140222665	40692595	546	73204											
PCDHA8	56140	broad.mit.edu	37	chr5	140223022	140223022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgatcatcgccatctgcGcggtatccagcctgctggtg	6	10	11	14	3	2	1	1	1	1	0	4	1	3	1	4	2	3	2	4	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140223022G>A	uc003lhs.2	+	1	2116	c.2116G>A	c.(2116-2118)GCG>ACG	p.A706T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.A706T	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	706	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCCATCTGCGCGGTATCCAG	0.657													71	20					0	0	0.01441	0	0		A	140223022	A	A	140223022	3	1	134	1	0	0	0	0	1	0	0	0	11549	1087	38	1	2118	1	PCDHA8	5	140223022	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	357	140223022	40692238	547	73205											
PCDHA11	56138	broad.mit.edu	37	chr5	140249146	140249146	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatcggactcgcgttttcCactagagggagcttctgatg	8	11	12	10	3	1	2	0	1	1	1	4	4	2	4	1	2	1	3	1	2	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140249146C>A	uc003lia.2	+	1	1316	c.458C>A	c.(457-459)CCA>CAA	p.P153Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.P153Q	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	153	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGCGTTTTCCACTAGAGGGA	0.443													123	190					3.39902e-54	4.06589e-54	0.01441	1	0		A	140249146	A	A	140249146	3	1	134	1	0	0	0	0	1	0	0	0	11540	594	21	5	460	5	PCDHA11	5	140249146	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	26124	140249146	40666114	548	73206											
PCDHA12	56137	broad.mit.edu	37	chr5	140256640	140256640	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctagaccacgaggagcTggagctgctgcagttccagg	8	6	15	12	2	0	1	0	0	0	1	1	4	1	3	3	3	4	6	3	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140256640T>C	uc003lic.2	+	1	1710	c.1583T>C	c.(1582-1584)CTG>CCG	p.L528P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.L528P	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	528	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACGAGGAGCTGGAGCTGCTG	0.687													37	130					0	0	0.01441	0	0		C	140256640	C	C	140256640	3	2	134	1	0	0	0	0	1	0	0	0	11541	1580	55	3	1585	3	PCDHA12	5	140256640	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	7494	140256640	40658620	549	73207											
PCDHA12	56137	broad.mit.edu	37	chr5	140256803	140256803	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttagcgagttggtaccGcggtcggtgggtgcgggcca	5	8	19	9	5	0	0	0	0	0	0	1	1	0	0	2	5	3	4	2	5	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140256803G>A	uc003lic.2	+	1	1873	c.1746G>A	c.(1744-1746)CCG>CCA	p.P582P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.P582P	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	582	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTTGGTACCGCGGTCGGTGG	0.677													76	140					0	0	0.01441	0	0		A	140256803	A	A	140256803	2	1	134	1	0	0	0	0	0	0	0	1	11541	1074	38	1		1	PCDHA12	5	140256803	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	163	140256803	40658457	550	73208											
PCDHB6	56130	broad.mit.edu	37	chr5	140531520	140531520	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caactcgcccttcgtgttgtAcccgctgcagaacggctccg	6	9	10	16	5	0	1	0	0	0	1	3	1	1	1	3	1	4	5	3	1	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140531520A>G	uc003lir.2	+	1	1682	c.1682A>G	c.(1681-1683)TAC>TGC	p.Y561C	PCDHB6_uc011dah.1_Missense_Mutation_p.Y425C	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	561	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCGTGTTGTACCCGCTGCAG	0.726													5	81					0	0	0.00308	0	0		G	140531520	G	G	140531520	3	3	134	1	0	0	0	0	1	0	0	0	11565	391	14	3	1684	3	PCDHB6	5	140531520	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	274717	140531520	40383740	551	73209											
PCDHB7	56129	broad.mit.edu	37	chr5	140554460	140554460	+	Missense_Mutation	SNP	A	G	G																															aggcggccccggaccaggccAactcgctcaccgtctacctg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140554460A>G	uc003lit.2	+	1	2218	c.2044A>G	c.(2044-2046)AAC>GAC	p.N682D	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	682	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGACCAGGCCAACTCGCTCAC	0.706													55	242					0	0	0.01441	0	0		G	140554460	G	G	140554460	3	3	134	1	0	0	0	0	1	0	0	0	11566	130	5	3	2046	3	PCDHB7	5	140554460	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	22940	140554460	40360800	552	73210	136	2									
PCDHB7	56129	broad.mit.edu	37	chr5	140554465	140554465	+	Silent	SNP	G	T	T																															gccccggaccaggccaactcGctcaccgtctacctggtggt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140554465G>T	uc003lit.2	+	1	2223	c.2049G>T	c.(2047-2049)TCG>TCT	p.S683S	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	683	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGCCAACTCGCTCACCGTCT	0.706													60	268					1.43161e-34	1.69038e-34	0.01441	1	0		T	140554465	T	T	140554465	2	4	134	1	0	0	0	0	0	0	0	1	11566	1074	38	5		5	PCDHB7	5	140554465	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5	140554465	40360795	553	73211	136	2									
PCDHB7	56129	broad.mit.edu	37	chr5	140554522	140554522	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgctcttcctcctctcGgtgctcctgttcgtggcggt	0	16	10	15	4	3	0	0	0	3	0	9	0	6	0	3	3	1	3	3	3	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140554522G>A	uc003lit.2	+	1	2280	c.2106G>A	c.(2104-2106)TCG>TCA	p.S702S	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	702	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCTCCTCTCGGTGCTCCTGT	0.701													81	368					0	0	0.01441	0	0		A	140554522	A	A	140554522	2	1	134	1	0	0	0	0	0	0	0	1	11566	1103	39	1		1	PCDHB7	5	140554522	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	57	140554522	40360738	554	73212											
PCDHB8	56128	broad.mit.edu	37	chr5	140559519	140559519	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctgctgagcgagcgcgAcgcggccaagcagaggctgg	8	3	18	12	5	0	2	0	1	0	1	0	4	0	2	1	4	4	4	1	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140559519A>G	uc011dai.1	+	1	2090	c.1904A>G	c.(1903-1905)GAC>GGC	p.D635G	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	635	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCGAGCGCGACGCGGCCAAG	0.687													49	111					0	0	0.01441	0	0		G	140559519	G	G	140559519	3	3	134	1	0	0	0	0	1	0	0	0	11567	275	10	3	1906	3	PCDHB8	5	140559519	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4997	140559519	40355741	555	73213											
PCDHB11	56125	broad.mit.edu	37	chr5	140581561	140581561	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccagggcatctggtggaCgtgagcggcaccgggaccct	6	8	15	12	3	1	1	0	1	1	0	2	3	2	3	3	5	1	2	3	5	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140581561C>T	uc003liy.2	+	1	2214	c.2214C>T	c.(2212-2214)GAC>GAT	p.D738D	PCDHB11_uc011daj.1_Silent_p.D373D	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	738	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATCTGGTGGACGTGAGCGGCA	0.612													113	186					0	0	0.01441	0	0		T	140581561	T	T	140581561	2	4	134	1	0	0	0	0	0	0	0	1	11555	535	19	1		1	PCDHB11	5	140581561	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	22042	140581561	40333699	556	73214											
PCDHB14	56122	broad.mit.edu	37	chr5	140605248	140605248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggcggcctcggtgggtcGctgctcggtgcccgagggtc	2	7	19	13	5	0	0	0	0	0	0	4	1	0	0	2	6	2	2	2	6	0	0	rs142658705		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140605248G>A	uc003ljb.2	+	1	2171	c.2171G>A	c.(2170-2172)CGC>CAC	p.R724H	PCDHB14_uc011dal.1_Missense_Mutation_p.R571H	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	724	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGGTGGGTCGCTGCTCGGTG	0.662													137	201					0	0	0.01441	0	0		A	140605248	A	A	140605248	3	1	134	1	0	0	0	0	1	0	0	0	11558	1087	38	1	2173	1	PCDHB14	5	140605248	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	23687	140605248	40310012	557	73215											
PCDHGA6	56109	broad.mit.edu	37	chr5	140755541	140755541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaggtgcgcacggcgcgcGccctgctggacagagacgcg	6	3	18	14	8	0	1	0	0	0	1	0	4	0	2	1	3	2	2	1	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140755541G>A	uc003ljy.1	+	1	1891	c.1891G>A	c.(1891-1893)GCC>ACC	p.A631T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.A631T	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	631	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACGGCGCGCGCCCTGCTGGA	0.697													72	74					0	0	0.01441	0	0		A	140755541	A	A	140755541	3	1	134	1	0	0	0	0	1	0	0	0	11577	1087	38	1	1893	1	PCDHGA6	5	140755541	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	150293	140755541	40159719	558	73216											
PCDHGB6	56100	broad.mit.edu	37	chr5	140788117	140788117	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggaaaatcctttaaatatTtttcatgtcattgtggtgat	11	18	8	4	0	2	1	2	1	0	0	3	2	3	2	1	2	0	0	1	2	5	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140788117T>C	uc003lkj.1	+	1	348	c.348T>C	c.(346-348)ATT>ATC	p.I116I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Silent_p.I116I	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	116	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTTAAATATTTTTCATGTCA	0.373													85	159					0	0	0.01441	0	0		C	140788117	C	C	140788117	2	2	134	1	0	0	0	0	0	0	0	1	11586	1829	64	3		3	PCDHGB6	5	140788117	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	32576	140788117	40127143	559	73217											
PCDHGC3	5098	broad.mit.edu	37	chr5	140857618	140857618	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacccaggcagactctcacGgtcttgatcaaagacaatgg	12	8	9	12	1	4	3	3	1	2	2	5	3	4	3	1	3	0	1	1	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:140857618G>A	uc003lkv.1	+	1	2050	c.1935G>A	c.(1933-1935)ACG>ACA	p.T645T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Silent_p.T645T|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	645	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGACTCTCACGGTCTTGATCA	0.557											OREG0016865	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	68	111					0	0	0.01441	0	0		A	140857618	A	A	140857618	2	1	134	1	0	0	0	0	0	0	0	1	11588	1103	39	1		1	PCDHGC3	5	140857618	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	69501	140857618	40057642	560	73218											
PCDH12	51294	broad.mit.edu	37	chr5	141331071	141331071	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcttacctgctgcctcctgGcttggccaagtacttatttc	5	15	8	13	0	0	0	0	0	0	0	2	0	1	0	4	2	5	4	4	2	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:141331071G>T	uc003llx.2	-	2	4176	c.2965C>A	c.(2965-2967)CCA>ACA	p.P989T		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	989	Cytoplasmic (Potential).				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCCTCCTGGCTTGGCCAAG	0.567											OREG0016877	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	64					1.74807e-11	1.94962e-11	0.010818	1	0		T	141331071	T	T	141331071	3	4	134	1	0	0	0	0	1	0	0	0	11529	1203	42	5	601	5	PCDH12	5	141331071	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	473453	141331071	39584189	561	73219											
RNF14	9604	broad.mit.edu	37	chr5	141354463	141354463	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaactgccaccagattaTccatcctcttccccaccttc	8	13	3	17	0	1	2	0	1	1	1	5	2	4	2	7	0	2	0	7	0	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:141354463T>A	uc003lly.2	+	3	288	c.249T>A	c.(247-249)TAT>TAA	p.Y83*	RNF14_uc003llz.2_Nonsense_Mutation_p.Y83*|RNF14_uc003lma.2_Nonsense_Mutation_p.Y83*|RNF14_uc003lmb.2_Intron|RNF14_uc003lmc.2_Nonsense_Mutation_p.Y83*|RNF14_uc011dbg.1_Nonsense_Mutation_p.Y83*|RNF14_uc011dbh.1_Intron|RNF14_uc003lmd.2_Nonsense_Mutation_p.Y83*	NM_183399	NP_899646	Q9UBS8	RNF14_HUMAN	ring finger protein 14 isoform 1	83	RWD.				androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|protein ubiquitination|regulation of androgen receptor signaling pathway|regulation of transcription from RNA polymerase II promoter|response to estradiol stimulus|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|small conjugating protein ligase activity|transcription coactivator activity|zinc ion binding				0		all_hematologic(541;0.0536)|Ovarian(839;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.0407)		CACCAGATTATCCATCCTCTT	0.413													11	278					0	0	0.010729	0	0		A	141354463	A	A	141354463	4	1	134	1	0	0	0	0	0	1	0	0	13468	1442	50	5	255	5	RNF14	5	141354463	Nonsense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	23392	141354463	39560797	562	73220											
POU4F3	5459	broad.mit.edu	37	chr5	145719546	145719546	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtggagtcagacccgcgcGagctggaagccttcgccgag	8	5	15	13	6	1	1	1	0	0	1	2	5	1	3	3	2	2	1	3	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:145719546G>A	uc003loa.2	+	2	645	c.556G>A	c.(556-558)GAG>AAG	p.E186K		NM_002700	NP_002691	Q15319	PO4F3_HUMAN	POU class 4 homeobox 3	186	POU-specific.				sensory perception of sound|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGACCCGCGCGAGCTGGAAGC	0.682													42	65					0	0	0.011902	0	0		A	145719546	A	A	145719546	3	1	134	1	0	0	0	0	1	0	0	0	12299	1059	37	1	562	1	POU4F3	5	145719546	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4365083	145719546	35195714	563	73221											
STK32A	202374	broad.mit.edu	37	chr5	146750335	146750335	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgtcacttcttaaaaaggTaagaaggaagactgcatgtc	14	10	11	6	0	2	2	1	0	1	2	3	3	2	3	0	3	1	2	0	3	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:146750335T>C	uc010jgn.1	+	9	1057	c.777_splice	c.e9+2	p.K259_splice	STK32A_uc003lom.2_Splice_Site_p.K259_splice|STK32A_uc011dbw.1_Splice_Site_p.K259_splice	NM_001112724	NP_001106195	Q8WU08	ST32A_HUMAN	serine/threonine kinase 32A isoform 1								ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTAAAAAGGTAAGAAGGAAG	0.418													74	106					0	0	0.01441	0	0		C	146750335	C	C	146750335	5	2	134	1	0	0	0	0	0	0	1	0	15322	1652	57	3	842	3	STK32A	5	146750335	Splice_Site	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1030789	146750335	34164925	564	73222											
AFAP1L1	134265	broad.mit.edu	37	chr5	148687114	148687114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatatgtgccttcctgctgCggaaaaagcgtttcgggcag	8	10	14	9	3	0	0	0	0	0	0	2	2	1	2	2	3	4	3	2	3	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:148687114C>T	uc003lqh.2	+	7	816	c.685C>T	c.(685-687)CGG>TGG	p.R229W	AFAP1L1_uc003lqg.3_Missense_Mutation_p.R229W|AFAP1L1_uc010jgy.2_Missense_Mutation_p.R229W	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	229	PH 1.						protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTCCTGCTGCGGAAAAAGCG	0.632													31	55					0	0	0.009535	0	0		T	148687114	T	T	148687114	3	4	134	1	0	0	0	0	1	0	0	0	354	759	27	1	711	1	AFAP1L1	5	148687114	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1936779	148687114	32228146	565	73223											
NDST1	3340	broad.mit.edu	37	chr5	149907475	149907475	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccaagtccccgctgctctAcgtgacgcgacctagcgagg	7	6	11	17	5	1	1	0	1	1	0	2	3	2	1	5	1	3	2	5	1	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:149907475A>G	uc003lsk.3	+	3	1125	c.623A>G	c.(622-624)TAC>TGC	p.Y208C	NDST1_uc011dcj.1_Missense_Mutation_p.Y208C|NDST1_uc003lsl.2_Missense_Mutation_p.Y208C	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	208	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCGCTGCTCTACGTGACGCGA	0.607													31	38					0	0	0.009535	0	0		G	149907475	G	G	149907475	3	3	134	1	0	0	0	0	1	0	0	0	10274	391	14	3	629	3	NDST1	5	149907475	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1220361	149907475	31007785	566	73224											
SYNPO	11346	broad.mit.edu	37	chr5	150029196	150029196	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggtaccagagtgggcCtcctgcctcaagtcaccccg	7	7	13	14	1	2	1	2	0	0	1	3	2	3	1	6	3	2	1	6	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:150029196C>A	uc003lsn.2	+	3	2465	c.2091C>A	c.(2089-2091)GCC>GCA	p.A697A	SYNPO_uc003lso.3_Silent_p.A453A|SYNPO_uc003lsp.2_Silent_p.A453A	NM_001109974	NP_001103444	Q8N3V7	SYNPO_HUMAN	synaptopodin isoform B	697					positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CAGAGTGGGCCTCCTGCCTCA	0.687													7	27					0.000274275	0.000299263	0.004482	1	0		A	150029196	A	A	150029196	2	1	134	1	0	0	0	0	0	0	0	1	15481	668	24	5		5	SYNPO	5	150029196	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	121721	150029196	30886064	567	73225											
SLC36A2	153201	broad.mit.edu	37	chr5	150696535	150696535	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggggctcatgccctctgagTagaacgtggtgacctccagg	7	8	15	11	1	2	3	1	2	1	1	3	3	3	3	3	4	2	2	3	4	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:150696535T>C	uc003lty.2	-	10	1425	c.1295A>G	c.(1294-1296)TAC>TGC	p.Y432C	GM2A_uc011dcs.1_Intron|SLC36A2_uc003ltz.2_RNA|SLC36A2_uc003lua.2_Missense_Mutation_p.Y234C	NM_181776	NP_861441	Q495M3	S36A2_HUMAN	solute carrier family 36, member 2	432	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	cytoplasm|integral to membrane|plasma membrane	glycine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCCCTCTGAGTAGAACGTGGT	0.647													26	44					0	0	0.00632	0	0		C	150696535	C	C	150696535	3	2	134	1	0	0	0	0	1	0	0	0	14619	1638	57	3	160	3	SLC36A2	5	150696535	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	667339	150696535	30218725	568	73226											
FAT2	2196	broad.mit.edu	37	chr5	150948143	150948143	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgtggcttggatgatgAgggtgtagctgtctcgcacc	5	13	14	9	1	2	2	0	2	2	0	4	3	2	3	1	3	1	4	1	3	1	2	rs34180611		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:150948143A>C	uc003lue.3	-	1	363	c.350T>G	c.(349-351)CTC>CGC	p.L117R	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.L117R	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	117	Extracellular (Potential).|Cadherin 1.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTGGATGATGAGGGTGTAGCT	0.512													43	117					0	0	0.01441	0	0		C	150948143	C	C	150948143	3	2	134	1	0	0	0	0	1	0	0	0	5704	304	11	5	12791	5	FAT2	5	150948143	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	251608	150948143	29967117	569	73227											
GALNT10	55568	broad.mit.edu	37	chr5	153674402	153674403	+	Frame_Shift_Ins	INS	-	T	T																															acagtcgacaaaagaaaacgINStttttcttgggagatgggca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:153674402_153674403insT	uc003lvh.2	+	2	318_319	c.186_187insT	c.(184-189)ACGTTTfs	p.T62fs	GALNT10_uc003lvg.1_Frame_Shift_Ins_p.T62fs|GALNT10_uc010jic.2_RNA	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	62_63	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			AAAAGAAAACGTTTTTCTTGGG	0.495													59	92	---	---	---	---						.	T	153674403	T	T	153674402	7	5	134	1	0	1	1	0	0	0	0	0	6223	1132	40	0	192	0	GALNT10	5	153674402	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	2726259	153674402	27240858	570	73228											
GABRG2	2566	broad.mit.edu	37	chr5	161522524	161522524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agccaacgttaattcacacaGacatgtatgtgaatagcatt	15	11	7	8	1	1	2	1	1	0	1	1	2	1	2	1	0	3	3	1	0	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:161522524G>A	uc003lyz.3	+	3	641	c.283G>A	c.(283-285)GAC>AAC	p.D95N	GABRG2_uc010jjc.2_Missense_Mutation_p.D95N|GABRG2_uc003lyy.3_Missense_Mutation_p.D95N|GABRG2_uc011dej.1_5'UTR	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	95	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		AATTCACACAGACATGTATGT	0.328													17	44					0	0	0.006122	0	0		A	161522524	A	A	161522524	3	1	134	1	0	0	0	0	1	0	0	0	6186	942	33	4	293	4	GABRG2	5	161522524	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	7848122	161522524	19392736	571	73229											
CCDC99	54908	broad.mit.edu	37	chr5	169023668	169023669	+	Missense_Mutation	DNP	AT	GC	GC																															gaagaatggtgaaataaaacAtcttttaggtgaaattagaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:169023668_169023669AT>GC	uc003mae.3	+	8	1274_1275	c.995_996AT>GC	c.(994-996)CAT>CGC	p.H332R	CCDC99_uc010jjj.2_Missense_Mutation_p.H261R|CCDC99_uc011deq.1_Missense_Mutation_p.H149R|CCDC99_uc010jjk.2_Missense_Mutation_p.H58R	NM_017785	NP_060255	Q96EA4	SPDLY_HUMAN	coiled-coil domain containing 99	332	Potential.				cell division|establishment of mitotic spindle orientation|mitotic metaphase plate congression|mitotic prometaphase|protein localization to kinetochore	condensed chromosome outer kinetochore|cytosol|microtubule organizing center|nucleus|spindle pole	kinetochore binding|protein binding			ovary(1)|liver(1)	2	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAAATAAAACATCTTTTAGGTG	0.337													5	123					0	0	0.004672	0	0		GC	169023669	GC	GC	169023668	3	3	134	1	0	0	0	0	1	0	0	0	2879	217	8	3	1021	3	CCDC99	5	169023668	Missense_Mutation	DNP	AT	TCGA-CG-4442-01A-01D-1158-08	7501144	169023668	11891592	572	73230											
TLX3	30012	broad.mit.edu	37	chr5	170736470	170736470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaccaggacagcgcacccgCcccgcggggccccgacggcg	6	0	16	19	7	0	0	0	0	0	0	0	3	0	2	6	5	1	1	6	5	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:170736470C>T	uc003mbf.2	+	1	183	c.101C>T	c.(100-102)GCC>GTC	p.A34V	uc003mbe.1_5'Flank	NM_021025	NP_066305	O43711	TLX3_HUMAN	T-cell leukemia homeobox 3	34						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00576)|all_lung(126;0.00963)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AGCGCACCCGCCCCGCGGGGC	0.756			T	BCL11B	T-ALL								6	14					0	0	0.001168	0	0		T	170736470	T	T	170736470	3	4	134	1	0	0	0	0	1	0	0	0	15987	739	26	2	103	2	TLX3	5	170736470	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1712802	170736470	10178790	573	73231											
STC2	8614	broad.mit.edu	37	chr5	172750372	172750372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcacttccggcttatgcagCcgaacctgtgccgcagagcg	7	7	13	14	4	0	1	0	0	0	1	1	2	1	1	4	2	5	4	4	2	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:172750372C>T	uc003mco.1	-	3	1666	c.356G>A	c.(355-357)GGC>GAC	p.G119D	STC2_uc003mcn.1_Missense_Mutation_p.G34D	NM_003714	NP_003705	O76061	STC2_HUMAN	stanniocalcin 2 precursor	119					cell surface receptor linked signaling pathway|cell-cell signaling	extracellular region	hormone activity			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.223)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GCTTATGCAGCCGAACCTGTG	0.602													21	27					0	0	0.012319	0	0		T	172750372	T	T	172750372	3	4	134	1	0	0	0	0	1	0	0	0	15301	739	26	2	560	2	STC2	5	172750372	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2013902	172750372	8164888	574	73232											
FAF2	23197	broad.mit.edu	37	chr5	175923649	175923649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaccagacttacctggtgtCagaacgcctagaaaggtaca	14	8	9	10	1	1	3	1	0	0	3	1	3	1	3	3	2	4	1	3	2	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:175923649C>T	uc003mej.3	+	8	877	c.824C>T	c.(823-825)TCA>TTA	p.S275L		NM_014613	NP_055428	Q96CS3	FAF2_HUMAN	UBX domain containing 8	275	Potential.				response to unfolded protein	endoplasmic reticulum|lipid particle	protein binding			ovary(1)	1						TACCTGGTGTCAGAACGCCTA	0.488													51	106					0	0	0.01441	0	0		T	175923649	T	T	175923649	3	4	134	1	0	0	0	0	1	0	0	0	5381	838	29	4	854	4	FAF2	5	175923649	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3173277	175923649	4991611	575	73233											
NSD1	64324	broad.mit.edu	37	chr5	176638979	176638979	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagggtcttacttcctagTgaccctgtgcaggaggggcg	6	12	14	9	1	1	1	0	1	1	0	2	2	2	2	2	4	2	1	2	4	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:176638979T>C	uc003mfr.3	+	5	3717	c.3579T>C	c.(3577-3579)AGT>AGC	p.S1193S	NSD1_uc003mft.3_Silent_p.S924S|NSD1_uc003mfs.1_Silent_p.S1090S|NSD1_uc011dfx.1_Silent_p.S841S	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1193					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		TACTTCCTAGTGACCCTGTGC	0.478			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			28	78					0	0	0.009535	0	0		C	176638979	C	C	176638979	2	2	134	1	0	0	0	0	0	0	0	1	10688	1693	59	3		3	NSD1	5	176638979	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	715330	176638979	4276281	576	73234											
NSD1	64324	broad.mit.edu	37	chr5	176673750	176673750	+	Frame_Shift_Del	DEL	A	-	-																															ctgcagccaagatgcagtgtAaaaaagtgaaaaatgatgac																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:176673750delA	uc003mfr.3	+	10	4588	c.4450delA	c.(4450-4452)AAAfs	p.K1484fs	NSD1_uc003mft.3_Frame_Shift_Del_p.K1215fs|NSD1_uc003mfs.1_Frame_Shift_Del_p.K1381fs|NSD1_uc011dfx.1_Frame_Shift_Del_p.K1132fs	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1484					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		GATGCAGTGTAAAAAAGTGAA	0.418			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			43	92	---	---	---	---						.	-	176673750	-	-	176673750	7	5	134	1	0	1	0	1	0	0	0	0	10688	363	13	0	4484	0	NSD1	5	176673750	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	34771	176673750	4241510	577	73235											
DBN1	1627	broad.mit.edu	37	chr5	176885163	176885163	+	Frame_Shift_Del	DEL	G	-	-																															tgagggcagagttggggtctGgggggcagccagggactccc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:176885163delG	uc003mgy.2	-	12	1844	c.1672delC	c.(1672-1674)CAGfs	p.Q558fs	DBN1_uc011dga.1_Frame_Shift_Del_p.Q290fs|DBN1_uc003mgx.2_Frame_Shift_Del_p.Q560fs|DBN1_uc010jkn.1_Frame_Shift_Del_p.Q508fs|DBN1_uc003mgz.1_Frame_Shift_Del_p.Q541fs	NM_004395	NP_004386	Q16643	DREB_HUMAN	drebrin 1 isoform a	558					actin filament organization|regulation of dendrite development|regulation of neuronal synaptic plasticity	actomyosin|cytoplasm|dendrite	actin binding|profilin binding			breast(3)|ovary(1)|lung(1)|skin(1)	6	all_cancers(89;2.17e-05)|Renal(175;0.000269)|Lung NSC(126;0.0014)|all_lung(126;0.0025)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTTGGGGTCTGGGGGGCAGCC	0.637													50	108	---	---	---	---						.	-	176885163	-	-	176885163	7	5	134	1	0	1	0	1	0	0	0	0	4255	1357	47	0	289	0	DBN1	5	176885163	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	211413	176885163	4030097	578	73236											
PDLIM7	9260	broad.mit.edu	37	chr5	176919648	176919648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtcacccacggccactcCggcctgcgccgctttgcccc	4	6	9	22	4	1	0	1	0	0	0	2	0	2	0	8	2	2	1	8	2	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:176919648C>T	uc003mhc.1	-	3	212	c.127G>A	c.(127-129)GGA>AGA	p.G43R	PDLIM7_uc003mha.1_5'Flank|PDLIM7_uc003mhb.1_Missense_Mutation_p.G43R|PDLIM7_uc003mhd.1_5'UTR|PDLIM7_uc003mhe.1_RNA|PDLIM7_uc003mhf.2_Missense_Mutation_p.G43R|PDLIM7_uc003mhg.1_Missense_Mutation_p.G43R	NM_005451	NP_005442	Q9NR12	PDLI7_HUMAN	PDZ and LIM domain 7 isoform 1	43	PDZ.				cell differentiation|multicellular organismal development|ossification|receptor-mediated endocytosis	cytoplasm|focal adhesion	protein binding|zinc ion binding			breast(1)	1	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACGGCCACTCCGGCCTGCGCC	0.642													33	65					0	0	0.013114	0	0		T	176919648	T	T	176919648	3	4	134	1	0	0	0	0	1	0	0	0	11703	661	23	1	1412	1	PDLIM7	5	176919648	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	34485	176919648	3995612	579	73237											
ZNF354A	6940	broad.mit.edu	37	chr5	178152390	178152390	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttacctagagaggagacGccagaaccgtctttctccac	11	8	8	14	2	2	3	0	0	2	3	3	5	2	3	4	1	2	0	4	1	3	3	rs113512483	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:178152390G>A	uc003mjj.2	-	4	441	c.243C>T	c.(241-243)GGC>GGT	p.G81G		NM_005649	NP_005640	O60765	Z354A_HUMAN	zinc finger protein 354A	81	KRAB.				regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;0.000536)|Renal(175;0.000159)|all_epithelial(37;0.000221)|Lung NSC(126;0.00308)|all_lung(126;0.00536)	all_cancers(40;0.0452)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.185)		GAGAGGAGACGCCAGAACCGT	0.522													121	191					0	0	0.01441	0	0		A	178152390	A	A	178152390	2	1	134	1	0	0	0	0	0	0	0	1	17889	1074	38	1		1	ZNF354A	5	178152390	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1232742	178152390	2762870	580	73238											
TBC1D9B	23061	broad.mit.edu	37	chr5	179321503	179321503	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagtaattcaccagcttctCgccctcaggcatcccaaact	10	10	6	15	1	3	0	2	0	1	0	5	0	4	0	3	1	2	4	3	1	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:179321503C>T	uc003mlh.2	-	4	497	c.460G>A	c.(460-462)GAG>AAG	p.E154K	TBC1D9B_uc003mli.2_Missense_Mutation_p.E154K|TBC1D9B_uc003mlj.2_Missense_Mutation_p.E154K	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	154	GRAM 1.					integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACCAGCTTCTCGCCCTCAGGC	0.592													16	80					0	0	0.006122	0	0		T	179321503	T	T	179321503	3	4	134	1	0	0	0	0	1	0	0	0	15653	893	31	1	3368	1	TBC1D9B	5	179321503	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1169113	179321503	1593757	581	73239											
CNOT6	57472	broad.mit.edu	37	chr5	179994114	179994114	+	Frame_Shift_Del	DEL	T	-	-																															gaaacggaacagtattacagTttttttctggtagagctgaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:179994114delT	uc003mlx.2	+	8	1093	c.744delT	c.(742-744)AGTfs	p.S248fs	CNOT6_uc010jld.2_Frame_Shift_Del_p.S248fs|CNOT6_uc010jle.2_Frame_Shift_Del_p.S243fs	NM_015455	NP_056270	Q9ULM6	CNOT6_HUMAN	CCR4-NOT transcription complex, subunit 6	248					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	exonuclease activity|metal ion binding|protein binding|RNA binding				0	all_cancers(89;3.3e-05)|all_epithelial(37;7.38e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00543)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.023)		AGTATTACAGTTTTTTTCTGG	0.348													88	173	---	---	---	---						.	-	179994114	-	-	179994114	7	5	134	1	0	1	0	1	0	0	0	0	3625	1722	60	0	770	0	CNOT6	5	179994114	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	672611	179994114	921146	582	73240											
FLT4	2324	broad.mit.edu	37	chr5	180057235	180057235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccgtaccgagcgcagcGtgacattgaggccggggatg	7	5	19	10	5	0	2	0	2	0	0	0	4	0	3	3	5	3	2	3	5	1	2	rs148392893		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:180057235G>A	uc003mma.3	-	4	582	c.503C>T	c.(502-504)ACG>ATG	p.T168M	FLT4_uc003mlz.3_Missense_Mutation_p.T168M|FLT4_uc003mmb.1_5'Flank|FLT4_uc011dgy.1_Missense_Mutation_p.T168M|FLT4_uc011dgz.1_Missense_Mutation_p.T168M|FLT4_uc011dha.1_Missense_Mutation_p.R152C	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	168	Ig-like C2-type 2.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	CGAGCGCAGCGTGACATTGAG	0.642									Congenital_Hereditary_Lymphedema				26	52					0	0	0.00632	0	0		A	180057235	A	A	180057235	3	1	134	1	0	0	0	0	1	0	0	0	5958	1145	40	1	3704	1	FLT4	5	180057235	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	63121	180057235	858025	583	73241											
BTNL8	79908	broad.mit.edu	37	chr5	180338563	180338563	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggagcatatcctgttccAtgcggcatgctcatctgagc	7	10	11	13	2	2	1	1	1	1	0	4	2	4	2	3	2	4	4	3	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr5:180338563A>G	uc003mmp.2	+	3	856	c.622A>G	c.(622-624)ATG>GTG	p.M208V	BTNL8_uc003mmq.2_Missense_Mutation_p.M208V|BTNL8_uc011dhg.1_Missense_Mutation_p.M83V|BTNL8_uc010jll.2_Missense_Mutation_p.M208V|BTNL8_uc010jlm.2_Missense_Mutation_p.M92V|BTNL8_uc011dhh.1_Missense_Mutation_p.M24V	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	208	Ig-like V-type 2.|Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ATCCTGTTCCATGCGGCATGC	0.542													45	79					0	0	0.011902	0	0		G	180338563	G	G	180338563	3	3	134	1	0	0	0	0	1	0	0	0	1570	217	8	3	658	3	BTNL8	5	180338563	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	281328	180338563	576697	584	73242											
RREB1	6239	broad.mit.edu	37	chr6	7226755	7226755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggactgctgcgtcacaacGcgcttgtccacaaacaactt	11	8	9	13	3	1	0	1	0	0	0	2	2	2	1	1	1	5	2	1	1	3	2	rs138181401	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:7226755G>A	uc003mxc.2	+	9	1153	c.763G>A	c.(763-765)GCG>ACG	p.A255T	RREB1_uc003mxb.2_Missense_Mutation_p.A255T|RREB1_uc010jnx.2_Missense_Mutation_p.A255T	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	255	C2H2-type 5.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				GCGTCACAACGCGCTTGTCCA	0.493													17	122					0	0	0.004007	0	0		A	7226755	A	A	7226755	3	1	134	1	0	0	0	0	1	0	0	0	13704	1087	38	1	785	1	RREB1	6	7226755	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08		7226755	163888312	585	73243											
DSP	1832	broad.mit.edu	37	chr6	7558359	7558359	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctttcaggaattgaagtAtggagatggaatacaactga	14	13	10	4	0	2	3	1	2	1	1	2	6	2	5	0	3	2	1	0	3	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:7558359A>T	uc003mxp.1	+	3	563	c.284A>T	c.(283-285)TAT>TTT	p.Y95F	DSP_uc003mxq.1_Missense_Mutation_p.Y95F	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	95	Globular 1.|Interacts with plakophilin 1 and junction plakoglobin.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GAATTGAAGTATGGAGATGGA	0.428													7	183					0	0	0.00308	0	0		T	7558359	T	T	7558359	3	4	134	1	0	0	0	0	1	0	0	0	4787	449	16	5	294	5	DSP	6	7558359	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	331604	7558359	163556708	586	73244											
PHACTR1	221692	broad.mit.edu	37	chr6	13230285	13230285	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaggctccctggccatgaaGgtctgcaggaaggactcctt	9	8	12	12	0	1	1	0	1	1	0	3	3	3	3	3	5	1	2	3	5	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:13230285G>A	uc010jpc.2	+	10	1583	c.1251G>A	c.(1249-1251)AAG>AAA	p.K417K	PHACTR1_uc011dir.1_Silent_p.K486K|PHACTR1_uc003nag.1_Silent_p.K417K|PHACTR1_uc003nah.1_Silent_p.K417K	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	417						cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			TGGCCATGAAGGTCTGCAGGA	0.532													7	14					0	0	0.004482	0	0		A	13230285	A	A	13230285	2	1	134	1	0	0	0	0	0	0	0	1	11828	991	35	4		4	PHACTR1	6	13230285	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5671926	13230285	157884782	587	73245											
GFOD1	54438	broad.mit.edu	37	chr6	13365589	13365589	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacggccttttggccggtgaGgaaggtgagcaggtcgatga	8	8	18	7	3	0	3	0	3	0	0	1	6	0	4	2	6	1	1	2	6	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:13365589G>T	uc003nat.1	-	2	1224	c.559C>A	c.(559-561)CTC>ATC	p.L187I	GFOD1_uc003nas.1_Missense_Mutation_p.L84I	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	187						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			TGGCCGGTGAGGAAGGTGAGC	0.602													23	42					8.04996e-18	9.16611e-18	0.012319	1	0		T	13365589	T	T	13365589	3	4	134	1	0	0	0	0	1	0	0	0	6358	1000	35	5	617	5	GFOD1	6	13365589	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	135304	13365589	157749478	588	73246											
JARID2	3720	broad.mit.edu	37	chr6	15508639	15508639	+	Frame_Shift_Del	DEL	C	-	-																															gctggtctcgagaccaaaatCaccttccatacattgactac																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:15508639delC	uc003nbj.2	+	12	3044	c.2800delC	c.(2800-2802)CACfs	p.H934fs	JARID2_uc011div.1_Frame_Shift_Del_p.H762fs|JARID2_uc011diw.1_Frame_Shift_Del_p.H896fs	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	934	JmjC.				central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				AGACCAAAATCACCTTCCATA	0.458													39	81	---	---	---	---						.	-	15508639	-	-	15508639	7	5	134	1	0	1	0	1	0	0	0	0	7961	826	29	0	2846	0	JARID2	6	15508639	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	2143050	15508639	155606428	589	73247											
KIF13A	63971	broad.mit.edu	37	chr6	17764503	17764503	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagctctccagcagaagaAtctgtcaaaccatcaaaatc	17	7	6	11	0	4	2	2	0	2	2	6	3	4	2	2	0	3	2	2	0	6	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:17764503A>T	uc003ncg.3	-	39	5361	c.5256T>A	c.(5254-5256)GAT>GAA	p.D1752E	KIF13A_uc003ncf.2_Missense_Mutation_p.D1704E|KIF13A_uc003nch.3_Missense_Mutation_p.D1717E|KIF13A_uc003nci.3_Missense_Mutation_p.D1704E|KIF13A_uc003nce.1_Missense_Mutation_p.D303E	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	1752					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			CAGCAGAAGAATCTGTCAAAC	0.493													5	79					0	0	0.001168	0	0		T	17764503	T	T	17764503	3	4	134	1	0	0	0	0	1	0	0	0	8290	98	4	5	190	5	KIF13A	6	17764503	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2255864	17764503	153350564	590	73248											
KIF13A	63971	broad.mit.edu	37	chr6	17764689	17764689	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagtcctgcacagtgatttGgagtttttctcagggatgct	7	14	11	9	0	1	1	1	1	1	0	3	3	2	3	2	2	2	3	2	2	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:17764689G>A	uc003ncg.3	-	39	5175	c.5070C>T	c.(5068-5070)TCC>TCT	p.S1690S	KIF13A_uc003ncf.2_Silent_p.S1642S|KIF13A_uc003nch.3_Silent_p.S1655S|KIF13A_uc003nci.3_Silent_p.S1642S|KIF13A_uc003nce.1_Silent_p.S241S	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	1690					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			ACAGTGATTTGGAGTTTTTCT	0.522													35	75					0	0	0.003755	0	0		A	17764689	A	A	17764689	2	1	134	1	0	0	0	0	0	0	0	1	8290	1335	47	4		4	KIF13A	6	17764689	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	186	17764689	153350378	591	73249											
NHLRC1	378884	broad.mit.edu	37	chr6	18122645	18122645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagaatgggcactcgagggCcagagtgcgcgggtgcgcca	8	4	18	11	4	0	2	0	0	0	2	1	3	0	2	2	3	2	2	2	3	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:18122645C>T	uc003ncl.1	-	1	207	c.193G>A	c.(193-195)GCC>ACC	p.A65T		NM_198586	NP_940988	Q6VVB1	NHLC1_HUMAN	NHL repeat containing 1	65	RING-type.				proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	endoplasmic reticulum|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0	Ovarian(93;0.016)|Breast(50;0.0245)	all_hematologic(90;0.165)	all cancers(50;0.0451)|Epithelial(50;0.0493)			CACTCGAGGGCCAGAGTGCGC	0.716													17	12					0	0	0.008871	0	0		T	18122645	T	T	18122645	3	4	134	1	0	0	0	0	1	0	0	0	10424	739	26	2	998	2	NHLRC1	6	18122645	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	357956	18122645	152992422	592	73250											
KDM1B	221656	broad.mit.edu	37	chr6	18208394	18208394	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattattctggagatgaagTgcaggttaccactacagatg	12	12	11	6	0	1	4	0	2	1	2	1	5	1	4	1	2	3	2	1	2	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:18208394T>C	uc003nco.1	+	10	1289	c.1214T>C	c.(1213-1215)GTG>GCG	p.V405A	KDM1B_uc003ncn.1_Missense_Mutation_p.V376A	NM_153042	NP_694587	Q8NB78	KDM1B_HUMAN	amine oxidase (flavin containing) domain 1	608					multicellular organismal development|regulation of DNA methylation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-monomethyl-K4 specific)|oxidoreductase activity|zinc ion binding			skin(1)	1						GGAGATGAAGTGCAGGTTACC	0.468													4	149					0	0	0.000602	0	0		C	18208394	C	C	18208394	3	2	134	1	0	0	0	0	1	0	0	0	8139	1696	59	3	1169	3	KDM1B	6	18208394	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	85749	18208394	152906673	593	73251											
TDP2	51567	broad.mit.edu	37	chr6	24651211	24651211	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattagagttcatttgtgtAtcccatgtatactggcaatg	11	15	9	6	0	1	2	1	0	0	2	2	2	2	2	1	1	1	4	1	1	5	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:24651211A>G	uc003nej.2	-	7	919	c.894T>C	c.(892-894)GAT>GAC	p.D298D	TDP2_uc003nei.2_Silent_p.D186D	NM_016614	NP_057698	O95551	TYDP2_HUMAN	TRAF and TNF receptor-associated protein	298					cell surface receptor linked signaling pathway|double-strand break repair	PML body	5'-tyrosyl-DNA phosphodiesterase activity|magnesium ion binding|nuclease activity|protein binding|transcription corepressor activity			ovary(1)|lung(1)	2						TCATTTGTGTATCCCATGTAT	0.408								Direct_reversal_of_damage|Editing_and_processing_nucleases					8	122					0	0	0.00308	0	0		G	24651211	G	G	24651211	2	3	134	1	0	0	0	0	0	0	0	1	15754	446	16	3		3	TDP2	6	24651211	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	6442817	24651211	146463856	594	73252											
HIST1H4A	8359	broad.mit.edu	37	chr6	26022123	26022123	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatccgtgacgctgtcaccTatacggagcacgccaagcgc	9	7	11	14	5	1	2	1	2	0	0	2	3	2	3	3	1	3	2	3	1	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:26022123T>C	uc003nfq.2	+	1	217	c.217T>C	c.(217-219)TAT>CAT	p.Y73H		NM_003538	NP_003529	P62805	H4_HUMAN	histone cluster 1, H4a	73					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding				0						CGCTGTCACCTATACGGAGCA	0.587													57	68					0	0	0.01441	0	0		C	26022123	C	C	26022123	3	2	134	1	0	0	0	0	1	0	0	0	7181	1522	53	3	219	3	HIST1H4A	6	26022123	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1370912	26022123	145092944	595	73253											
HIST1H4G	8369	broad.mit.edu	37	chr6	26246947	26246947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtttgagcacgtagaccaCggccatggcggtgaccgtct	7	8	14	12	5	1	3	0	2	1	1	1	3	1	3	3	3	1	3	3	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:26246947C>T	uc003nhf.2	-	1	259	c.259G>A	c.(259-261)GTG>ATG	p.V87M		NM_003547	NP_003538	Q99525	H4G_HUMAN	histone cluster 1, H4g	87					nucleosome assembly	nucleosome|nucleus	DNA binding				0		all_hematologic(11;0.0945)|Acute lymphoblastic leukemia(11;0.167)				ACGTAGACCACGGCCATGGCG	0.572													26	37					0	0	0.013726	0	0		T	26246947	T	T	26246947	3	4	134	1	0	0	0	0	1	0	0	0	7187	536	19	1	41	1	HIST1H4G	6	26246947	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	224824	26246947	144868120	596	73254											
ABT1	29777	broad.mit.edu	37	chr6	26598259	26598259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaagcgcatagccaagcGcgtggcggccagtctacaca	11	5	12	13	4	1	1	0	1	1	0	1	1	1	1	2	2	4	1	2	2	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:26598259G>A	uc003nii.2	+	2	390	c.359G>A	c.(358-360)CGC>CAC	p.R120H		NM_013375	NP_037507	Q9ULW3	ABT1_HUMAN	activator of basal transcription 1	120	RRM.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleolus	DNA binding|nucleotide binding|protein binding|RNA binding|transcription coactivator activity			ovary(1)	1						ATAGCCAAGCGCGTGGCGGCC	0.567													31	40					0	0	0.004878	0	0		A	26598259	A	A	26598259	3	1	134	1	0	0	0	0	1	0	0	0	101	1087	38	1	365	1	ABT1	6	26598259	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	351312	26598259	144516808	597	73255											
HIST1H4I	8294	broad.mit.edu	37	chr6	27107159	27107159	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaccgcaaggtgctgcgCgacaacatccagggtatcac	10	5	11	15	4	1	0	1	0	0	0	2	1	2	0	3	2	3	3	3	2	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:27107159C>T	uc003niy.1	+	1	72	c.72C>T	c.(70-72)CGC>CGT	p.R24R	HIST1H2BK_uc003nix.1_Intron	NM_003495	NP_003486	P62805	H4_HUMAN	histone cluster 1, H4i	24					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			lung(1)	1						AGGTGCTGCGCGACAACATCC	0.617			T	BCL6	NHL								34	48					0	0	0.013726	0	0		T	27107159	T	T	27107159	2	4	134	1	0	0	0	0	0	0	0	1	7189	755	27	1		1	HIST1H4I	6	27107159	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	508900	27107159	144007908	598	73256											
HIST1H2BK	85236	broad.mit.edu	37	chr6	27114460	27114460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcaccttgtacacgtataCggagtagctctccttgcggc	8	10	10	13	3	1	0	0	0	1	0	2	1	1	1	2	2	5	5	2	2	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:27114460C>T	uc003nix.1	-	1	160	c.118G>A	c.(118-120)GTA>ATA	p.V40I	HIST1H2AH_uc003niz.2_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080593	NP_542160	O60814	H2B1K_HUMAN	histone cluster 1, H2bk	40					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						TACACGTATACGGAGTAGCTC	0.582													116	218					0	0	0.01441	0	0		T	27114460	T	T	27114460	3	4	134	1	0	0	0	0	1	0	0	0	7166	536	19	1	266	1	HIST1H2BK	6	27114460	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	7301	27114460	144000607	599	73257											
ZKSCAN3	80317	broad.mit.edu	37	chr6	28333883	28333883	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgttgaaactcccatgtctTataaatgtaatgagtgtgaa	14	14	8	5	0	1	3	0	3	1	0	2	3	2	3	1	0	1	2	1	0	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:28333883T>C	uc003nle.3	+	6	1654	c.1438T>C	c.(1438-1440)TAT>CAT	p.Y480H	ZKSCAN3_uc010jrc.2_Missense_Mutation_p.Y480H|ZKSCAN3_uc003nlf.3_Missense_Mutation_p.Y332H|uc010jrd.2_5'Flank	NM_024493	NP_077819	Q9BRR0	ZKSC3_HUMAN	zinc finger with KRAB and SCAN domains 3	480	C2H2-type 6.				positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	chromatin binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						TCCCATGTCTTATAAATGTAA	0.418													4	79					0	0	0.009096	0	0		C	28333883	C	C	28333883	3	2	134	1	0	0	0	0	1	0	0	0	17713	1754	61	3	1456	3	ZKSCAN3	6	28333883	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1219423	28333883	142781184	600	73258											
SCAND3	114821	broad.mit.edu	37	chr6	28540949	28540949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatgttagcaatatctctgCattcatcaagttgcaatgaa	13	14	6	8	0	4	1	3	1	1	0	5	1	4	1	0	0	3	5	0	0	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:28540949C>T	uc003nlo.2	-	4	3335	c.2717G>A	c.(2716-2718)TGC>TAC	p.C906Y		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	906					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						aatatctctgcattcatcaag	0													57	78					0	0	0.01441	0	0		T	28540949	T	T	28540949	3	4	134	1	0	0	0	0	1	0	0	0	13901	710	25	2	1264	2	SCAND3	6	28540949	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	207066	28540949	142574118	601	73259											
OR14J1	442191	broad.mit.edu	37	chr6	29274633	29274633	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaccgtcgtctccattcccCcatgtattactttttaaagc	8	14	6	13	2	1	0	0	0	1	0	4	1	2	1	4	1	2	1	4	1	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:29274633C>A	uc011dln.1	+	1	167	c.167C>A	c.(166-168)CCC>CAC	p.P56H		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTCCATTCCCCCATGTATTAC	0.468													131	234					2.67195e-58	3.20189e-58	0.01441	1	0		A	29274633	A	A	29274633	3	1	134	1	0	0	0	0	1	0	0	0	10967	623	22	5	169	5	OR14J1	6	29274633	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	733684	29274633	141840434	602	73260											
TRIM39	56658	broad.mit.edu	37	chr6	30297302	30297302	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttcccttgtcctgtctgtCgaaagacatcccgctaccgc	7	11	7	16	3	1	1	0	0	1	1	5	2	4	1	4	0	1	1	4	0	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:30297302C>T	uc010jrz.2	+	3	520	c.208C>T	c.(208-210)CGA>TGA	p.R70*	HCG18_uc003npx.2_5'Flank|HCG18_uc003npy.2_5'Flank|TRIM39_uc003npz.2_Nonsense_Mutation_p.R70*|TRIM39_uc003nqb.2_Nonsense_Mutation_p.R70*|TRIM39_uc003nqc.2_Nonsense_Mutation_p.R70*|TRIM39_uc010jsa.1_Nonsense_Mutation_p.R70*	NM_021253	NP_067076	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 1	70	RING-type.				apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						TCCTGTCTGTCGAAAGACATC	0.557													46	92					0	0	0.010771	0	0		T	30297302	T	T	30297302	4	4	134	1	0	0	0	0	0	1	0	0	16539	876	31	1	210	1	TRIM39	6	30297302	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1022669	30297302	140817765	603	73261											
HLA-E	3133	broad.mit.edu	37	chr6	30459108	30459108	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccagaagtgggcagctgtgGtggtgccttctggagaggag	7	9	18	7	0	1	2	0	0	1	2	2	4	2	3	2	5	2	2	2	5	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:30459108G>T	uc003nqg.2	+	4	843	c.805G>T	c.(805-807)GTG>TTG	p.V269L	HLA-E_uc011dmg.1_RNA|HLA-E_uc011dmh.1_Missense_Mutation_p.V310L	NM_005516	NP_005507	P13747	HLAE_HUMAN	major histocompatibility complex, class I, E	269	Ig-like C1-type.|Alpha-3.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			central_nervous_system(4)|ovary(1)	5						GGCAGCTGTGGTGGTGCCTTC	0.627													52	112					1.4374e-25	1.67364e-25	0.01441	1	0		T	30459108	T	T	30459108	3	4	134	1	0	0	0	0	1	0	0	0	7226	1261	44	5	819	5	HLA-E	6	30459108	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	161806	30459108	140655959	604	73262											
PSORS1C2	170680	broad.mit.edu	37	chr6	31105997	31105997	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccaagggtcaccggggactgGggggccctgaggcaatgttg	7	6	18	10	1	1	1	1	1	0	0	1	2	1	2	3	7	0	2	3	7	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:31105997G>T	uc003nso.3	-	2	466	c.142C>A	c.(142-144)CCA>ACA	p.P48T	PSORS1C1_uc003nsl.1_Intron|PSORS1C1_uc010jsj.1_Intron|PSORS1C1_uc003nsn.1_Intron	NM_014069	NP_054788	Q9UIG4	PS1C2_HUMAN	SPR1 protein precursor	48						extracellular region					0						CCGGGGACTGGGGGGCCCTGA	0.657													12	18					4.36969e-10	4.84665e-10	0.001855	1	0		T	31105997	T	T	31105997	3	4	134	1	0	0	0	0	1	0	0	0	12737	1232	43	5	272	5	PSORS1C2	6	31105997	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	646889	31105997	140009070	605	73263											
SLC44A4	80736	broad.mit.edu	37	chr6	31838664	31838664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagctgggagatggaggCgcccttgtcccgcagcactc	7	6	13	15	2	0	1	0	0	0	1	2	3	1	2	3	3	2	3	3	3	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:31838664C>T	uc010jti.2	-	10	928	c.862G>A	c.(862-864)GCC>ACC	p.A288T	SLC44A4_uc011dol.1_Missense_Mutation_p.A212T|SLC44A4_uc011dom.1_Missense_Mutation_p.A246T	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	288	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	GAGATGGAGGCGCCCTTGTCC	0.657													23	41					0	0	0.014323	0	0		T	31838664	T	T	31838664	3	4	134	1	0	0	0	0	1	0	0	0	14663	768	27	1	1318	1	SLC44A4	6	31838664	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	732667	31838664	139276403	606	73264											
SLC44A4	80736	broad.mit.edu	37	chr6	31838702	31838702	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcggtactcctcccagcagTagtagatgccgtatgccagc	8	9	10	14	2	0	1	0	0	0	1	3	1	2	1	4	1	5	5	4	1	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:31838702T>C	uc010jti.2	-	10	890	c.824A>G	c.(823-825)TAC>TGC	p.Y275C	SLC44A4_uc011dol.1_Missense_Mutation_p.Y199C|SLC44A4_uc011dom.1_Missense_Mutation_p.Y233C	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	275	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	CTCCCAGCAGTAGTAGATGCC	0.617													9	41					0	0	0.006214	0	0		C	31838702	C	C	31838702	3	2	134	1	0	0	0	0	1	0	0	0	14663	1638	57	3	1356	3	SLC44A4	6	31838702	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	38	31838702	139276365	607	73265											
CFB	629	broad.mit.edu	37	chr6	31916154	31916154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttctcctcacccacaggtgGcaagttatggtgtgaagcca	9	10	11	11	0	2	1	1	1	1	0	3	1	2	1	3	3	1	3	3	3	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:31916154G>A	uc003nyj.3	+	7	1179	c.901G>A	c.(901-903)GCA>ACA	p.A301T	CFB_uc011dor.1_Missense_Mutation_p.A803T|CFB_uc003nyi.2_Missense_Mutation_p.A301T	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	301	VWFA.				complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						CCCACAGGTGGCAAGTTATGG	0.473													47	75					0	0	0.01441	0	0		A	31916154	A	A	31916154	3	1	134	1	0	0	0	0	1	0	0	0	3281	1203	42	2	927	2	CFB	6	31916154	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	77452	31916154	139198913	608	73266											
TNXB	7148	broad.mit.edu	37	chr6	32015707	32015707	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaattcgccctcagggacCgtccacgagaggcccacgga	9	5	12	15	5	1	1	1	0	0	1	4	5	2	3	4	3	0	0	4	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:32015707C>A	uc003nzl.2	-	30	10324	c.10122G>T	c.(10120-10122)ACG>ACT	p.T3374T	TNXB_uc003nzg.1_5'Flank|TNXB_uc003nzh.1_5'Flank	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3421	Fibronectin type-III 26.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CCTCAGGGACCGTCCACGAGA	0.632													32	46					2.46105e-21	2.82951e-21	0.010818	1	0		A	32015707	A	A	32015707	2	1	134	1	0	0	0	0	0	0	0	1	16371	639	23	5		5	TNXB	6	32015707	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	99553	32015707	139099360	609	73267											
TAP2	6891	broad.mit.edu	37	chr6	32805788	32805788	+	Frame_Shift_Del	DEL	G	-	-																															ggctctcagggagacagtcaGgggggtggccagacagagcg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:32805788delG	uc003occ.2	-	1	254	c.223delC	c.(223-225)CTGfs	p.L75fs	TAP2_uc011dqf.1_Frame_Shift_Del_p.L75fs|TAP2_uc003ocb.1_Frame_Shift_Del_p.L75fs|TAP2_uc003ocd.2_Frame_Shift_Del_p.L75fs	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	75	Helical; Name=2; (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						GAGACAGTCAGGGGGGTGGCC	0.692													57	104	---	---	---	---						.	-	32805788	-	-	32805788	7	5	134	1	0	1	0	1	0	0	0	0	15576	991	35	0	1966	0	TAP2	6	32805788	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	790081	32805788	138309279	610	73268											
SLC39A7	7922	broad.mit.edu	37	chr6	33170162	33170162	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagtcatggacatggacacGctcacagtcatacacgtgga	13	7	10	11	2	3	0	3	0	0	0	3	3	3	3	0	3	1	1	0	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:33170162G>A	uc003odf.2	+	5	874	c.757G>A	c.(757-759)GCT>ACT	p.A253T	RXRB_uc003odb.2_5'Flank|RXRB_uc003odc.2_5'Flank|RXRB_uc003odd.2_5'Flank|RXRB_uc011dqr.1_5'Flank|RXRB_uc011dqs.1_5'Flank|RXRB_uc011dqt.1_5'Flank|RXRB_uc011dqu.1_5'Flank|SLC39A7_uc003odg.2_Missense_Mutation_p.A253T|SLC39A7_uc011dqv.1_Missense_Mutation_p.A128T|SLC39A7_uc003odh.2_5'UTR|HSD17B8_uc003odi.1_5'Flank	NM_001077516	NP_001070984	Q92504	S39A7_HUMAN	solute carrier family 39, member 7	253	His-rich.					endoplasmic reticulum membrane|integral to membrane|membrane fraction	protein binding|zinc ion transmembrane transporter activity			large_intestine(1)	1						ACATGGACACGCTCACAGTCA	0.493													59	129					0	0	0.01441	0	0		A	33170162	A	A	33170162	3	1	134	1	0	0	0	0	1	0	0	0	14648	1087	38	1	771	1	SLC39A7	6	33170162	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	364374	33170162	137944905	611	73269											
CPNE5	57699	broad.mit.edu	37	chr6	36710137	36710137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcgggtgggggacgcgggcGaatgccctgtgccttcatgt	4	9	18	10	4	1	0	1	0	0	0	1	2	1	1	2	4	3	0	2	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:36710137G>A	uc003omr.1	-	21	1757	c.1690C>T	c.(1690-1692)CGC>TGC	p.R564C	CPNE5_uc003omp.1_Missense_Mutation_p.R272C|CPNE5_uc010jwn.1_Missense_Mutation_p.R214C|CPNE5_uc003omq.1_Missense_Mutation_p.R214C	NM_020939	NP_065990	Q9HCH3	CPNE5_HUMAN	copine V	564										skin(1)	1						GGACGCGGGCGAATGCCCTGT	0.687													51	81					0	0	0.01441	0	0		A	36710137	A	A	36710137	3	1	134	1	0	0	0	0	1	0	0	0	3818	1058	37	1	95	1	CPNE5	6	36710137	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3539975	36710137	134404930	612	73270											
DNAH8	1769	broad.mit.edu	37	chr6	38885823	38885824	+	Frame_Shift_Ins	INS	-	A	A																															attatacttttgaaagtgccINSaaaaaagtctgtgggaatgt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:38885823_38885824insA	uc003ooe.1	+	68	10380_10381	c.9780_9781insA	c.(9778-9783)GCCAAAfs	p.A3260fs	uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTGAAAGTGCCAAAAAAGTCTG	0.396													67	125	---	---	---	---						.	A	38885824	A	A	38885823	7	5	134	1	0	1	1	0	0	0	0	0	4613	581	21	0	10042	0	DNAH8	6	38885823	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	2175686	38885823	132229244	613	73271											
KCNK5	8645	broad.mit.edu	37	chr6	39159204	39159204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccctgggcccgggcccGtctccccacccccgcttgtc	2	6	10	23	3	1	0	0	0	1	0	3	0	1	0	8	2	1	1	8	2	0	1	rs145388113		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:39159204G>A	uc003oon.2	-	5	1326	c.962C>T	c.(961-963)ACG>ATG	p.T321M		NM_003740	NP_003731	O95279	KCNK5_HUMAN	potassium channel, subfamily K, member 5	321	Cytoplasmic (Potential).				excretion	integral to plasma membrane	potassium channel activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						GCCCGGGCCCGTCTCCCCACC	0.622													72	140					0	0	0.01441	0	0		A	39159204	A	A	39159204	3	1	134	1	0	0	0	0	1	0	0	0	8085	1145	40	1	541	1	KCNK5	6	39159204	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	273381	39159204	131955863	614	73272											
TRERF1	55809	broad.mit.edu	37	chr6	42236421	42236421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggctgctgctgctgtggcGgcggctgtggctgtgatggg	1	10	21	9	3	0	1	0	1	0	0	0	1	0	1	0	6	3	6	0	6	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:42236421G>A	uc003osd.2	-	5	1471	c.908C>T	c.(907-909)CCG>CTG	p.P303L	TRERF1_uc011duq.1_Missense_Mutation_p.P303L|TRERF1_uc003osb.2_Missense_Mutation_p.P142L|TRERF1_uc003osc.2_Missense_Mutation_p.P142L|TRERF1_uc003ose.2_Missense_Mutation_p.P303L	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	303	Gln-rich.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			ctgctgTGGCGGCGGCTGTGG	0.438													11	30					0	0	0.00632	0	0		A	42236421	A	A	42236421	3	1	134	1	0	0	0	0	1	0	0	0	16501	1116	39	1	2750	1	TRERF1	6	42236421	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3077217	42236421	128878646	615	73273											
TRERF1	55809	broad.mit.edu	37	chr6	42237177	42237177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaagtggggggagattggcGaggcctgaggggcatccatt	8	7	20	6	1	0	2	0	1	0	1	1	5	1	3	2	8	0	1	2	8	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:42237177G>A	uc003osd.2	-	5	715	c.152C>T	c.(151-153)TCG>TTG	p.S51L	TRERF1_uc011duq.1_Missense_Mutation_p.S51L|TRERF1_uc003osb.2_Intron|TRERF1_uc003osc.2_Intron|TRERF1_uc003ose.2_Missense_Mutation_p.S51L	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	51					cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GGAGATTGGCGAGGCCTGAGG	0.577													51	95					0	0	0.01441	0	0		A	42237177	A	A	42237177	3	1	134	1	0	0	0	0	1	0	0	0	16501	1059	37	1	3506	1	TRERF1	6	42237177	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	756	42237177	128877890	616	73274											
KLC4	89953	broad.mit.edu	37	chr6	43034086	43034086	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcagctcagcagggtggatAtgagatcccagcaaggttgc	11	7	14	9	0	1	1	1	1	0	1	2	3	2	2	1	3	5	5	1	3	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:43034086A>G	uc003otv.1	+	5	691	c.614A>G	c.(613-615)TAT>TGT	p.Y205C	KLC4_uc003otr.1_RNA|KLC4_uc011dvd.1_Missense_Mutation_p.Y128C|KLC4_uc003otu.2_Missense_Mutation_p.Y205C|KLC4_uc003otw.1_Missense_Mutation_p.Y223C|KLC4_uc003otx.1_Missense_Mutation_p.Y205C|KLC4_uc003oty.1_Missense_Mutation_p.Y205C|KLC4_uc003otz.1_Missense_Mutation_p.Y205C	NM_201521	NP_958929	Q9NSK0	KLC4_HUMAN	kinesin-like 8 isoform a	205						cytoplasm|kinesin complex|microtubule	microtubule motor activity|protein binding			skin(3)|ovary(1)	4			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)			CAGGGTGGATATGAGATCCCA	0.547													21	223					0	0	0.00333	0	0		G	43034086	G	G	43034086	3	3	134	1	0	0	0	0	1	0	0	0	8352	449	16	3	686	3	KLC4	6	43034086	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	796909	43034086	128080981	617	73275											
ZNF318	24149	broad.mit.edu	37	chr6	43325431	43325431	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgagaggcccttcctcctgGgaaatatatcgctcaagacc	10	9	9	13	1	1	2	1	1	0	2	4	4	3	3	4	2	0	1	4	2	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:43325431G>A	uc003oux.2	-	3	699	c.621C>T	c.(619-621)TCC>TCT	p.S207S	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	207					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			CTTCCTCCTGGGAAATATATC	0.473													94	148					0	0	0.01441	0	0		A	43325431	A	A	43325431	2	1	134	1	0	0	0	0	0	0	0	1	17861	1219	43	4		4	ZNF318	6	43325431	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	291345	43325431	127789636	618	73276											
C6orf223	221416	broad.mit.edu	37	chr6	43969836	43969836	+	Frame_Shift_Del	DEL	C	-	-																															ttgagggaggagagaggacaCcccctccaccccagacatag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:43969836delC	uc003own.2	+	3	273	c.255delC	c.(253-255)CACfs	p.H85fs	uc003owm.1_Intron|C6orf223_uc003owo.2_Frame_Shift_Del_p.H65fs	NM_153246	NP_694978	Q8N319	CF223_HUMAN	hypothetical protein LOC221416	85											0	all_cancers(18;2.28e-07)|all_epithelial(2;1.62e-08)|Lung NSC(15;0.000172)|all_lung(25;0.000533)|Hepatocellular(11;0.00309)|Ovarian(13;0.0437)		all cancers(41;0.00141)|Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.217)			AGAGAGGACACCCCCTCCACC	0.438													3	4	---	---	---	---						.	-	43969836	-	-	43969836	7	5	134	1	0	1	0	1	0	0	0	0	2360	507	18	0	308	0	C6orf223	6	43969836	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	644405	43969836	127145231	619	73277											
GPR116	221395	broad.mit.edu	37	chr6	46826498	46826498	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgcaggtgtggcgcatatAagaagtccggttcttggtca	9	12	13	7	2	2	1	1	0	1	1	3	1	3	1	1	4	1	3	1	4	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:46826498A>G	uc003oyo.3	-	17	3431	c.3142T>C	c.(3142-3144)TAT>CAT	p.Y1048H	GPR116_uc011dwj.1_Missense_Mutation_p.Y603H|GPR116_uc011dwk.1_Missense_Mutation_p.Y477H|GPR116_uc003oyp.3_Missense_Mutation_p.Y906H|GPR116_uc003oyq.3_Missense_Mutation_p.Y1048H|GPR116_uc010jzi.1_Missense_Mutation_p.Y720H	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	1048	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			TGGCGCATATAAGAAGTCCGG	0.507													5	97					0	0	0.000602	0	0		G	46826498	G	G	46826498	3	3	134	1	0	0	0	0	1	0	0	0	6648	362	13	3	918	3	GPR116	6	46826498	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2856662	46826498	124288569	620	73278											
GPR115	221393	broad.mit.edu	37	chr6	47682692	47682692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcccggcgttcgtcattgtgGctgtaaatctgattgtggtt	5	16	12	8	3	2	1	1	1	1	0	4	1	3	1	1	3	0	4	1	3	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:47682692G>A	uc003oza.1	+	6	1969	c.1711G>A	c.(1711-1713)GCT>ACT	p.A571T	GPR115_uc003oyz.1_Missense_Mutation_p.A628T|GPR115_uc003ozb.1_Missense_Mutation_p.A569T	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	571	Helical; Name=5; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						CGTCATTGTGGCTGTAAATCT	0.478													82	129					0	0	0.01441	0	0		A	47682692	A	A	47682692	3	1	134	1	0	0	0	0	1	0	0	0	6647	1203	42	2	1729	2	GPR115	6	47682692	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	856194	47682692	123432375	621	73279											
C6orf138	442213	broad.mit.edu	37	chr6	47846151	47846151	+	Frame_Shift_Del	DEL	A	-	-																															ggtgctttttggaaggggggAaaaacgttaggaacacaggt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:47846151delA	uc011dwm.1	-	3	2463	c.2378delT	c.(2377-2379)TTCfs	p.F793fs	C6orf138_uc011dwn.1_Frame_Shift_Del_p.F557fs	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	810						integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						GGAAGGGGGGAAAAACGTTAG	0.453													63	129	---	---	---	---						.	-	47846151	-	-	47846151	7	5	134	1	0	1	0	1	0	0	0	0	2335	246	9	0	115	0	C6orf138	6	47846151	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	163459	47846151	123268916	622	73280											
TINAG	27283	broad.mit.edu	37	chr6	54214656	54214656	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtagaaaaatctaacaggAtctatcaatgttctcctcca	15	11	5	10	1	4	1	1	0	3	1	6	2	5	2	2	1	1	2	2	1	6	4	rs149134126		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:54214656A>G	uc003pcj.2	+	7	1188	c.1042A>G	c.(1042-1044)ATC>GTC	p.I348V	TINAG_uc010jzt.2_RNA	NM_014464	NP_055279	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	348					cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			ATCTAACAGGATCTATCAATG	0.433													4	136					0	0	0.000602	0	0		G	54214656	G	G	54214656	3	3	134	1	0	0	0	0	1	0	0	0	15946	333	12	3	1068	3	TINAG	6	54214656	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	6368505	54214656	116900411	623	73281											
BMP5	653	broad.mit.edu	37	chr6	55620351	55620351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagtggcagccacatgagcGtactaccatatttctatatt	11	14	7	9	1	1	1	0	1	1	0	1	1	1	1	2	1	4	2	2	1	6	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:55620351G>A	uc003pcq.2	-	7	2057	c.1345C>T	c.(1345-1347)CGC>TGC	p.R449C	BMP5_uc011dxf.1_Missense_Mutation_p.R412C	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	449					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			CCACATGAGCGTACTACCATA	0.328													28	43					0	0	0.010818	0	0		A	55620351	A	A	55620351	3	1	134	1	0	0	0	0	1	0	0	0	1464	1145	40	1	23	1	BMP5	6	55620351	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1405695	55620351	115494716	624	73282											
DST	667	broad.mit.edu	37	chr6	56358915	56358915	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcatcttgcaagcatctGctggcctttctgcatcagac	7	12	10	12	0	4	1	1	0	3	1	4	1	4	1	1	2	4	5	1	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:56358915G>A	uc003pdf.2	-	77	13958	c.13930C>T	c.(13930-13932)CAG>TAG	p.Q4644*	DST_uc003pcz.3_Nonsense_Mutation_p.Q4466*|DST_uc011dxj.1_Nonsense_Mutation_p.Q4495*|DST_uc011dxk.1_Nonsense_Mutation_p.Q4506*|DST_uc003pcy.3_Nonsense_Mutation_p.Q4140*|DST_uc003pda.3_5'Flank	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6552	Spectrin 16.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			GCAAGCATCTGCTGGCCTTTC	0.378													60	107					0	0	0.01441	0	0		A	56358915	A	A	56358915	4	1	134	1	0	0	0	0	0	1	0	0	4789	1328	46	2	3181	2	DST	6	56358915	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	738564	56358915	114756152	625	73283											
DST	667	broad.mit.edu	37	chr6	56362821	56362821	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaacggcttccactgtggActgatgggctaatacatcat	11	12	9	9	1	1	1	1	1	0	0	2	2	2	2	1	3	2	2	1	3	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:56362821A>T	uc003pdf.2	-	75	13598	c.13570T>A	c.(13570-13572)TCC>ACC	p.S4524T	DST_uc003pcz.3_Missense_Mutation_p.S4346T|DST_uc011dxj.1_Missense_Mutation_p.S4375T|DST_uc011dxk.1_Missense_Mutation_p.S4386T|DST_uc003pcy.3_Missense_Mutation_p.S4020T	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6432	Spectrin 15.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TCCACTGTGGACTGATGGGCT	0.353													59	126					0	0	0.01441	0	0		T	56362821	T	T	56362821	3	4	134	1	0	0	0	0	1	0	0	0	4789	275	10	5	3549	5	DST	6	56362821	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3906	56362821	114752246	626	73284											
ZNF451	26036	broad.mit.edu	37	chr6	57012429	57012429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcaggggtcattcgtttaCacatgagccggattcacgga	10	11	11	9	3	3	1	3	1	0	0	4	3	3	3	1	4	2	1	1	4	1	5	rs113698145		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:57012429C>T	uc003pdm.1	+	10	1770	c.1546C>T	c.(1546-1548)CAC>TAC	p.H516Y	ZNF451_uc003pdl.2_Missense_Mutation_p.H516Y|ZNF451_uc003pdn.1_Missense_Mutation_p.H516Y|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Missense_Mutation_p.H516Y	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	516	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			CATTCGTTTACACATGAGCCG	0.408													216	350					0	0	0.01441	0	0		T	57012429	T	T	57012429	3	4	134	1	0	0	0	0	1	0	0	0	17947	478	17	4	1584	4	ZNF451	6	57012429	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	649608	57012429	114102638	627	73285											
PRIM2	5558	broad.mit.edu	37	chr6	57190736	57190736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcagtgaagaacttagaCgctggttcattcaacaagaa	15	11	8	7	1	3	4	3	1	0	3	3	4	3	4	0	1	2	2	0	1	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:57190736C>T	uc003pdx.2	+	5	439	c.352C>T	c.(352-354)CGC>TGC	p.R118C	PRIM2_uc003pdv.1_Missense_Mutation_p.R118C|PRIM2_uc003pdw.2_Missense_Mutation_p.R118C	NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	118					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		AGAACTTAGACGCTGGTTCAT	0.289													10	18					0	0	0.006214	0	0		T	57190736	T	T	57190736	3	4	134	1	0	0	0	0	1	0	0	0	12513	536	19	1	366	1	PRIM2	6	57190736	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	178307	57190736	113924331	628	73286											
KHDRBS2	202559	broad.mit.edu	37	chr6	62604724	62604724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtggtgggggaggaggaatgGcacccccacggcccctaaga	9	4	17	11	1	0	1	0	0	0	1	0	4	0	4	4	7	0	1	4	7	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:62604724G>A	uc003peg.2	-	6	873	c.626C>T	c.(625-627)GCC>GTC	p.A209V		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	209					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		AGGAGGAATGGCACCCCCACG	0.542													23	61					0	0	0.003954	0	0		A	62604724	A	A	62604724	3	1	134	1	0	0	0	0	1	0	0	0	8163	1203	42	2	439	2	KHDRBS2	6	62604724	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5413988	62604724	108510343	629	73287											
FAM135A	57579	broad.mit.edu	37	chr6	71233735	71233735	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttctgcagttctcttccacCcttacctattgaatgtagtg	7	16	6	12	0	2	1	0	1	2	0	4	1	3	1	3	0	2	3	3	0	4	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:71233735C>A	uc003pfj.2	+	12	1302	c.1169C>A	c.(1168-1170)CCC>CAC	p.P390H	FAM135A_uc003pfi.2_Missense_Mutation_p.P390H|FAM135A_uc003pfh.2_Missense_Mutation_p.P373H|FAM135A_uc003pfk.2_Missense_Mutation_p.P416H|FAM135A_uc003pfl.2_Missense_Mutation_p.P253H|FAM135A_uc003pfn.2_Missense_Mutation_p.P16H|FAM135A_uc003pfo.1_5'Flank	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	390										central_nervous_system(1)	1						TCTCTTCCACCCTTACCTATT	0.343													32	89					1.45844e-13	1.64391e-13	0.013726	1	0		A	71233735	A	A	71233735	3	1	134	1	0	0	0	0	1	0	0	0	5459	623	22	5	1293	5	FAM135A	6	71233735	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	8629011	71233735	99881332	630	73288											
B3GAT2	135152	broad.mit.edu	37	chr6	71603902	71603902	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaactttgccgttttccAccagcggacgttcgtagcgc	8	10	9	14	5	0	0	0	0	0	0	2	1	1	1	3	1	5	3	3	1	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:71603902A>G	uc003pfv.2	-	2	1321	c.665T>C	c.(664-666)GTG>GCG	p.V222A	B3GAT2_uc011dxz.1_RNA|B3GAT2_uc003pfw.2_Missense_Mutation_p.V222A	NM_080742	NP_542780	Q9NPZ5	B3GA2_HUMAN	beta-1,3-glucuronyltransferase 2	222	Lumenal (Potential).				carbohydrate biosynthetic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GCCGTTTTCCACCAGCGGACG	0.557													6	129					0	0	0.006214	0	0		G	71603902	G	G	71603902	3	3	134	1	0	0	0	0	1	0	0	0	1255	159	6	3	318	3	B3GAT2	6	71603902	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	370167	71603902	99511165	631	73289											
OGFRL1	79627	broad.mit.edu	37	chr6	72003284	72003284	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttgagcaatcttcgttttTataagaataaaattccattc	14	16	4	7	1	1	2	0	1	1	1	4	2	2	2	1	0	1	2	1	0	6	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:72003284T>C	uc003pfx.1	+	3	533	c.370T>C	c.(370-372)TAT>CAT	p.Y124H		NM_024576	NP_078852	Q5TC84	OGRL1_HUMAN	opioid growth factor receptor-like 1	124						membrane	receptor activity				0						TCTTCGTTTTTATAAGAATAA	0.299													3	89					0	0	0.004672	0	0		C	72003284	C	C	72003284	3	2	134	1	0	0	0	0	1	0	0	0	10863	1754	61	3	380	3	OGFRL1	6	72003284	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	399382	72003284	99111783	632	73290											
C6orf221	154288	broad.mit.edu	37	chr6	74073542	74073542	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcaaggcagtgacccagCggtttcgcgaggatgcccgg	8	5	15	13	4	0	1	0	1	0	0	1	3	0	2	3	4	3	3	3	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:74073542C>A	uc003pgt.3	+	3	666	c.613C>A	c.(613-615)CGG>AGG	p.R205R		NM_001017361	NP_001017361	Q587J8	ECAT1_HUMAN	hypothetical protein LOC154288	205										skin(2)	2						AGTGACCCAGCGGTTTCGCGA	0.617													37	55					4.34086e-07	4.7778e-07	0.005524	1	0		A	74073542	A	A	74073542	2	1	134	1	0	0	0	0	0	0	0	1	2358	759	27	5		5	C6orf221	6	74073542	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2070258	74073542	97041525	633	73291											
COL12A1	1303	broad.mit.edu	37	chr6	75799923	75799923	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctgcgctaccaggaggTcccggtggacccggcgggcc	4	5	16	16	4	0	0	0	0	0	0	2	2	2	2	5	6	2	2	5	6	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:75799923T>C	uc003phs.2	-	63	9010	c.8844A>G	c.(8842-8844)GGA>GGG	p.G2948G	COL12A1_uc003pht.2_Silent_p.G1784G	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2948	Triple-helical region (COL1) with 2 imperfections.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TACCAGGAGGTCCCGGTGGAC	0.617													133	260					0	0	0.01441	0	0		C	75799923	C	C	75799923	2	2	134	1	0	0	0	0	0	0	0	1	3672	1654	58	3		3	COL12A1	6	75799923	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1726381	75799923	95315144	634	73292											
COL12A1	1303	broad.mit.edu	37	chr6	75833999	75833999	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcttagttttagcctgtaGgaggtggctgcccggtgagg	5	11	18	7	1	0	1	0	1	0	0	0	2	0	2	2	6	2	4	2	6	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:75833999G>T	uc003phs.2	-	41	6862	c.6696C>A	c.(6694-6696)TCC>TCA	p.S2232S	COL12A1_uc003pht.2_Silent_p.S1068S	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2232	Fibronectin type-III 18.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTAGCCTGTAGGAGGTGGCTG	0.368													50	98					5.12918e-33	6.04918e-33	0.01441	1	0		T	75833999	T	T	75833999	2	4	134	1	0	0	0	0	0	0	0	1	3672	987	35	5		5	COL12A1	6	75833999	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	34076	75833999	95281068	635	73293											
PHIP	55023	broad.mit.edu	37	chr6	79675723	79675723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaagaggttcctggctttCgattgttccaaaccaccagg	9	12	10	10	1	0	2	0	1	0	1	3	3	2	2	4	3	1	3	4	3	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:79675723C>T	uc003pir.2	-	28	3482	c.3256G>A	c.(3256-3258)GAA>AAA	p.E1086K	PHIP_uc003piq.2_Missense_Mutation_p.E110K|PHIP_uc011dyp.1_Missense_Mutation_p.E1085K|PHIP_uc003pio.3_5'UTR	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1086	Mediates interaction with IRS1 (By similarity).				insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		TCCTGGCTTTCGATTGTTCCA	0.418													119	200					0	0	0.01441	0	0		T	79675723	T	T	79675723	3	4	134	1	0	0	0	0	1	0	0	0	11861	893	31	1	2261	1	PHIP	6	79675723	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3841724	79675723	91439344	636	73294											
IBTK	25998	broad.mit.edu	37	chr6	82883120	82883120	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggtaaatctgaaatatggTtgccttctggtcctggggta	8	14	13	6	0	2	1	0	1	2	0	3	1	3	1	2	5	1	3	2	5	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:82883120T>C	uc003pjl.1	-	27	4288	c.3761A>G	c.(3760-3762)AAC>AGC	p.N1254S	IBTK_uc011dyu.1_Missense_Mutation_p.N205S|IBTK_uc011dyv.1_Missense_Mutation_p.N1239S|IBTK_uc011dyw.1_Missense_Mutation_p.N1053S|IBTK_uc010kbi.1_Missense_Mutation_p.N948S	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	1254					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		TGAAATATGGTTGCCTTCTGG	0.368													25	75					0	0	0.003755	0	0		C	82883120	C	C	82883120	3	2	134	1	0	0	0	0	1	0	0	0	7492	1725	60	3	312	3	IBTK	6	82883120	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3207397	82883120	88231947	637	73295											
DOPEY1	23033	broad.mit.edu	37	chr6	83847804	83847804	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttctgaaattgagagtgAcatgggttctccaggatctc	10	13	10	8	0	3	3	0	3	3	1	5	5	3	4	1	2	0	1	1	2	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:83847804A>G	uc003pjs.1	+	21	4303	c.4043A>G	c.(4042-4044)GAC>GGC	p.D1348G	DOPEY1_uc011dyy.1_Missense_Mutation_p.D1339G|DOPEY1_uc010kbl.1_Missense_Mutation_p.D1339G|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1348					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		ATTGAGAGTGACATGGGTTCT	0.408													94	163					0	0	0.01441	0	0		G	83847804	G	G	83847804	3	3	134	1	0	0	0	0	1	0	0	0	4713	275	10	3	4117	3	DOPEY1	6	83847804	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	964684	83847804	87267263	638	73296											
TBX18	9096	broad.mit.edu	37	chr6	85446535	85446535	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcaacatctgccgatcCgtcatggtcccactcggtga	7	8	13	13	3	2	1	1	1	1	0	5	2	4	1	3	4	2	1	3	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:85446535C>A	uc003pkl.1	-	8	1692	c.1692G>T	c.(1690-1692)ACG>ACT	p.T564T	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	564					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TCTGCCGATCCGTCATGGTCC	0.522													52	79					1.63038e-21	1.87554e-21	0.01441	1	0		A	85446535	A	A	85446535	2	1	134	1	0	0	0	0	0	0	0	1	15678	639	23	5		5	TBX18	6	85446535	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1598731	85446535	85668532	639	73297											
ZNF292	23036	broad.mit.edu	37	chr6	87964552	87964552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattgagcctacagtagatgCgtattatgctgtggaaatgt	11	14	11	5	1	0	2	0	1	0	1	0	3	0	3	1	1	4	3	1	1	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:87964552C>T	uc003plm.3	+	8	1246	c.1205C>T	c.(1204-1206)GCG>GTG	p.A402V		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	402					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		ACAGTAGATGCGTATTATGCT	0.368													30	59					0	0	0.008361	0	0		T	87964552	T	T	87964552	3	4	134	1	0	0	0	0	1	0	0	0	17851	768	27	1	1235	1	ZNF292	6	87964552	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2518017	87964552	83150515	640	73298											
ANKRD6	22881	broad.mit.edu	37	chr6	90312801	90312801	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggggaacacggagatcatCgcggcgctcatccacgaagg	10	5	15	11	5	2	1	2	0	0	1	4	4	3	2	1	5	1	1	1	5	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:90312801C>T	uc003pni.3	+	4	614	c.273C>T	c.(271-273)ATC>ATT	p.I91I	ANKRD6_uc003pne.3_Silent_p.I91I|ANKRD6_uc003pnf.3_Silent_p.I91I|ANKRD6_uc011dzy.1_Silent_p.I91I|ANKRD6_uc010kcd.2_Silent_p.I91I|LYRM2_uc010kce.1_Intron|LYRM2_uc003png.2_RNA|ANKRD6_uc003pnh.3_5'UTR	NM_014942	NP_055757	Q9Y2G4	ANKR6_HUMAN	ankyrin repeat domain 6	91	ANK 3.						protein binding			ovary(2)|pancreas(1)	3		all_cancers(76;1.22e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;1.83e-05)|Lung NSC(302;0.239)		BRCA - Breast invasive adenocarcinoma(108;0.0209)		CGGAGATCATCGCGGCGCTCA	0.612													10	10					0	0	0.001855	0	0		T	90312801	T	T	90312801	2	4	134	1	0	0	0	0	0	0	0	1	685	874	31	1		1	ANKRD6	6	90312801	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2348249	90312801	80802266	641	73299											
MDN1	23195	broad.mit.edu	37	chr6	90380703	90380703	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttgcagtactacggtgagTtgctaaagacatggtcagga	11	11	12	7	1	1	2	1	1	0	1	1	3	1	3	0	3	4	4	0	3	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:90380703T>C	uc003pnn.1	-	83	14007	c.13891A>G	c.(13891-13893)ACT>GCT	p.T4631A		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4631					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CTACGGTGAGTTGCTAAAGAC	0.537													28	66					0	0	0.005443	0	0		C	90380703	C	C	90380703	3	2	134	1	0	0	0	0	1	0	0	0	9433	1725	60	3	2979	3	MDN1	6	90380703	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	67902	90380703	80734364	642	73300											
MDN1	23195	broad.mit.edu	37	chr6	90394665	90394665	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccggtcaaagaattgcttgTaataatggtacaaattccat	14	12	7	8	1	1	1	1	0	0	1	2	1	2	1	2	2	2	3	2	2	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:90394665T>C	uc003pnn.1	-	71	11875	c.11759A>G	c.(11758-11760)TAC>TGC	p.Y3920C		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	3920					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GAATTGCTTGTAATAATGGTA	0.408													4	101					0	0	0.009096	0	0		C	90394665	C	C	90394665	3	2	134	1	0	0	0	0	1	0	0	0	9433	1638	57	3	5159	3	MDN1	6	90394665	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	13962	90394665	80720402	643	73301											
BACH2	60468	broad.mit.edu	37	chr6	90659999	90659999	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttccctacctcctggcccCtgtcctgcacaggacacgac	6	8	9	18	1	0	0	0	0	0	0	3	2	3	1	6	3	2	2	6	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:90659999C>A	uc011eab.1	-	7	2635	c.1826G>T	c.(1825-1827)AGG>ATG	p.R609M	BACH2_uc003pnw.2_Missense_Mutation_p.R609M|BACH2_uc010kch.2_Missense_Mutation_p.R609M	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	609						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		CTCCTGGCCCCTGTCCTGCAC	0.537													43	118					8.01111e-26	9.33315e-26	0.010771	1	0		A	90659999	A	A	90659999	3	1	134	1	0	0	0	0	1	0	0	0	1285	681	24	5	711	5	BACH2	6	90659999	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	265334	90659999	80455068	644	73302											
BACH2	60468	broad.mit.edu	37	chr6	90660239	90660239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccccgctcccgtcctccGcgtaggaataggaagagcag	9	5	12	15	4	0	1	0	0	0	1	3	3	3	3	5	2	2	3	5	2	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:90660239G>A	uc011eab.1	-	7	2395	c.1586C>T	c.(1585-1587)GCG>GTG	p.A529V	BACH2_uc003pnw.2_Missense_Mutation_p.A529V|BACH2_uc010kch.2_Missense_Mutation_p.A529V	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	529						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		CCCGTCCTCCGCGTAGGAATA	0.622													32	86					0	0	0.004289	0	0		A	90660239	A	A	90660239	3	1	134	1	0	0	0	0	1	0	0	0	1285	1087	38	1	951	1	BACH2	6	90660239	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	240	90660239	80454828	645	73303											
SFRS18	25957	broad.mit.edu	37	chr6	99849046	99849046	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgctatttctattagaTctccttctatctctaatctt	9	20	2	10	0	6	1	1	0	5	1	8	1	6	1	1	0	1	1	1	0	6	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:99849046T>A	uc003ppo.3	-	12	2016	c.1788A>T	c.(1786-1788)AGA>AGT	p.R596S	SFRS18_uc003ppl.2_Missense_Mutation_p.R142S|SFRS18_uc003ppp.3_Missense_Mutation_p.R596S|SFRS18_uc011eag.1_Missense_Mutation_p.R596S	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	596						nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		TTCTATTAGATCTCCTTCTAT	0.423													72	212					0	0	0.01441	0	0		A	99849046	A	A	99849046	3	1	134	1	0	0	0	0	1	0	0	0	14199	1432	50	5	633	5	SFRS18	6	99849046	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	9188807	99849046	71266021	646	73304											
BEND3	57673	broad.mit.edu	37	chr6	107391602	107391602	+	Frame_Shift_Del	DEL	C	-	-																															cagcaagcggcaggccaggtCcccccctgacaggctctggt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:107391602delC	uc003prs.2	-	5	1443	c.793delG	c.(793-795)GACfs	p.D265fs		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	265	BEN 1.									ovary(3)	3						CAGGCCAGGTCCCCCCCTGAC	0.652													19	40	---	---	---	---						.	-	107391602	-	-	107391602	7	5	134	1	0	1	0	1	0	0	0	0	1400	855	30	0	1697	0	BEND3	6	107391602	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	7542556	107391602	63723465	647	73305											
FOXO3	2309	broad.mit.edu	37	chr6	108984970	108984970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggacggacttccgttcaCgcaccaattctaacgccagc	9	8	9	15	5	2	0	1	0	1	0	3	2	3	2	3	2	2	2	3	2	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:108984970C>T	uc003psk.2	+	3	1250	c.934C>T	c.(934-936)CGC>TGC	p.R312C	FOXO3_uc003psn.2_Intron|FOXO3_uc003psm.2_Missense_Mutation_p.R312C|FOXO3_uc011ean.1_Missense_Mutation_p.R92C|FOXO3_uc010kdj.1_Missense_Mutation_p.R92C	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A	312				PGSPTSRSSDELDAWTDFRSRTNSNASTVSGRLSPIMAS -> AWQPHVNAAVMSWMRGRTSVHAPILTPAQSVAACRPSW QV (in Ref. 5; CAA04860).	antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)		CTTCCGTTCACGCACCAATTC	0.607													20	34					0	0	0.014323	0	0		T	108984970	T	T	108984970	3	4	134	1	0	0	0	0	1	0	0	0	6038	536	19	1	940	1	FOXO3	6	108984970	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1593368	108984970	62130097	648	73306											
MICAL1	64780	broad.mit.edu	37	chr6	109771647	109771647	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggcatcctgggcaaactcTagtttcccgagcttgccatg	7	11	11	12	1	1	0	0	0	1	0	3	1	3	0	3	2	3	4	3	2	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:109771647T>C	uc003ptj.2	-	7	1301	c.1047A>G	c.(1045-1047)CTA>CTG	p.L349L	MICAL1_uc003ptk.2_Silent_p.L349L|MICAL1_uc010kdr.2_Intron|MICAL1_uc011eaq.1_Silent_p.L368L	NM_022765	NP_073602	Q8TDZ2	MICA1_HUMAN	microtubule associated monoxygenase, calponin	349					cytoskeleton organization|signal transduction	cytoplasm|intermediate filament	SH3 domain binding|zinc ion binding			breast(2)|ovary(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		GGGCAAACTCTAGTTTCCCGA	0.592													5	76					0	0	0.000602	0	0		C	109771647	C	C	109771647	2	2	134	1	0	0	0	0	0	0	0	1	9587	1509	53	3		3	MICAL1	6	109771647	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	786677	109771647	61343420	649	73307											
GPR6	2830	broad.mit.edu	37	chr6	110300985	110300985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtggtgcgcccgctggcgCgcagccacgtggctctgctc	2	7	16	16	6	1	0	0	0	1	0	2	0	1	0	2	3	3	4	2	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:110300985C>T	uc011eaw.1	+	2	850	c.670C>T	c.(670-672)CGC>TGC	p.R224C	GPR6_uc011eav.1_Missense_Mutation_p.R239C|GPR6_uc003ptu.2_Missense_Mutation_p.R224C	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	224	Extracellular (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		CCCGCTGGCGCGCAGCCACGT	0.701													10	12					0	0	0.008291	0	0		T	110300985	T	T	110300985	3	4	134	1	0	0	0	0	1	0	0	0	6716	768	27	1	672	1	GPR6	6	110300985	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	529338	110300985	60814082	650	73308											
AMD1	262	broad.mit.edu	37	chr6	111210137	111210137	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcttgctgaaagcactggTtcccctgttgaagcttgcta	7	13	9	12	0	1	2	0	2	1	0	2	2	2	2	3	1	4	6	3	1	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:111210137T>C	uc003puk.1	+	3	597	c.275T>C	c.(274-276)GTT>GCT	p.V92A	AMD1_uc011eay.1_Missense_Mutation_p.V23A|AMD1_uc011eaz.1_Missense_Mutation_p.V63A|AMD1_uc011eba.1_Intron|AMD1_uc003pul.1_Intron	NM_001634	NP_001625	P17707	DCAM_HUMAN	adenosylmethionine decarboxylase 1 isoform 1	92					spermidine biosynthetic process|spermine biosynthetic process	cytosol	adenosylmethionine decarboxylase activity			upper_aerodigestive_tract(1)	1		all_cancers(87;3.83e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.0522)|Epithelial(106;0.111)|all cancers(137;0.143)	S-Adenosylmethionine(DB00118)	AAAGCACTGGTTCCCCTGTTG	0.393													42	95					0	0	0.009718	0	0		C	111210137	C	C	111210137	3	2	134	1	0	0	0	0	1	0	0	0	566	1725	60	3	285	3	AMD1	6	111210137	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	909152	111210137	59904930	651	73309											
ROS1	6098	broad.mit.edu	37	chr6	117710733	117710733	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggaaaatgaccttgccAtctgtgacaagaaagtcatt	13	12	9	7	0	2	3	1	2	1	1	2	4	2	4	2	1	1	1	2	1	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:117710733A>G	uc003pxp.1	-	12	1738	c.1539T>C	c.(1537-1539)GAT>GAC	p.D513D	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	513	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TGACCTTGCCATCTGTGACAA	0.423			T	GOPC|ROS1	glioblastoma|NSCLC								35	60					0	0	0.003755	0	0		G	117710733	G	G	117710733	2	3	134	1	0	0	0	0	0	0	0	1	13556	214	8	3		3	ROS1	6	117710733	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	6500596	117710733	53404334	652	73310											
GOPC	57120	broad.mit.edu	37	chr6	117923425	117923425	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggccccctccggctgcTgctgggcatggaccgcccgc	2	6	14	19	3	0	0	0	0	0	0	1	1	1	1	6	4	2	4	6	4	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:117923425T>C	uc003pxu.2	-	1	257	c.27A>G	c.(25-27)GCA>GCG	p.A9A	GOPC_uc003pxv.2_Silent_p.A9A	NM_020399	NP_065132	Q9HD26	GOPC_HUMAN	golgi associated PDZ and coiled-coil motif	9					apical protein localization|cytoplasmic sequestering of CFTR protein|ER to Golgi vesicle-mediated transport|Golgi to plasma membrane transport|protein homooligomerization|protein transport	cell junction|dendrite|Golgi membrane|postsynaptic density|postsynaptic membrane|trans-Golgi network transport vesicle	cystic fibrosis transmembrane conductance regulator binding			ovary(1)	1		all_cancers(87;0.00844)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0363)|OV - Ovarian serous cystadenocarcinoma(136;0.0821)|all cancers(137;0.0976)		CTCCGGCTGCTGCTGGGCATG	0.716			O	ROS1	glioblastoma						OREG0017633	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	14					0	0	0.008291	0	0		C	117923425	C	C	117923425	2	2	134	1	0	0	0	0	0	0	0	1	6588	1567	55	3		3	GOPC	6	117923425	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	212692	117923425	53191642	653	73311											
GJA1	2697	broad.mit.edu	37	chr6	121768887	121768887	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gacagaaacaattcttcttgCcgcaattacaacaagcaagc	16	8	6	11	1	2	1	0	0	2	1	2	2	2	1	1	0	6	2	1	0	7	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:121768887C>T	uc003pyr.2	+	2	1144	c.894C>T	c.(892-894)TGC>TGT	p.C298C	GJA1_uc011ebo.1_Silent_p.C199C|GJA1_uc011ebp.1_Silent_p.C86C	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	298	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	ATTCTTCTTGCCGCAATTACA	0.498													48	85					0	0	0.01441	0	0		T	121768887	T	T	121768887	2	4	134	1	0	0	0	0	0	0	0	1	6415	747	26	2		2	GJA1	6	121768887	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3845462	121768887	49346180	654	73312											
TPD52L1	7164	broad.mit.edu	37	chr6	125541281	125541281	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcagtagccagtgctgActtctctagcatgctctctg	8	12	10	11	0	2	2	0	1	2	1	4	2	2	2	1	0	5	5	1	0	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:125541281A>G	uc003pzu.1	+	2	296	c.77A>G	c.(76-78)GAC>GGC	p.D26G	TPD52L1_uc003pzv.1_Missense_Mutation_p.D26G|TPD52L1_uc003pzw.1_Missense_Mutation_p.D26G|TPD52L1_uc003pzx.1_5'UTR|TPD52L1_uc003pzy.1_5'UTR|TPD52L1_uc003pzz.1_5'UTR	NM_003287	NP_003278	Q16890	TPD53_HUMAN	tumor protein D52-like 1 isoform 1	26	Potential.				DNA fragmentation involved in apoptotic nuclear change|G2/M transition of mitotic cell cycle|induction of apoptosis|positive regulation of JNK cascade|positive regulation of MAP kinase activity	perinuclear region of cytoplasm	caspase activator activity|protein heterodimerization activity|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0265)		GCCAGTGCTGACTTCTCTAGC	0.393													26	60					0	0	0.00623	0	0		G	125541281	G	G	125541281	3	3	134	1	0	0	0	0	1	0	0	0	16424	275	10	3	83	3	TPD52L1	6	125541281	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3772394	125541281	45573786	655	73313											
LAMA2	3908	broad.mit.edu	37	chr6	129636721	129636721	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaacatccagagattgttgCccacatggacctgatgagag	12	9	10	10	0	1	3	1	2	0	2	2	6	2	4	3	1	2	1	3	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:129636721C>T	uc003qbn.2	+	25	3761	c.3656C>T	c.(3655-3657)GCC>GTC	p.A1219V	LAMA2_uc003qbo.2_Missense_Mutation_p.A1219V	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1219	Laminin IV type A 2.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GAGATTGTTGCCCACATGGAC	0.448													65	120					0	0	0.01441	0	0		T	129636721	T	T	129636721	3	4	134	1	0	0	0	0	1	0	0	0	8622	739	26	2	3754	2	LAMA2	6	129636721	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4095440	129636721	41478346	656	73314											
ARHGAP18	93663	broad.mit.edu	37	chr6	129959541	129959541	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaaaaaagaaaacctactgTttcttttgattctctctgtt	12	17	4	8	0	4	2	1	1	3	1	5	2	4	2	1	0	2	2	1	0	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:129959541T>C	uc003qbr.2	-	3	639	c.550A>G	c.(550-552)ACA>GCA	p.T184A	ARHGAP18_uc011ebw.1_Missense_Mutation_p.T184A	NM_033515	NP_277050	Q8N392	RHG18_HUMAN	Rho GTPase activating protein 18	184					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			ovary(2)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(136;0.0621)|GBM - Glioblastoma multiforme(226;0.0638)|all cancers(137;0.074)		AAACCTACTGTTTCTTTTGAT	0.318													6	297					0	0	0.00308	0	0		C	129959541	C	C	129959541	3	2	134	1	0	0	0	0	1	0	0	0	868	1725	60	3	1493	3	ARHGAP18	6	129959541	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	322820	129959541	41155526	657	73315											
EPB41L2	2037	broad.mit.edu	37	chr6	131179333	131179333	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaccaccactcttgtgacCgacatgtcagggtgctgctc	7	11	10	13	1	2	1	1	1	1	0	3	2	2	1	3	1	3	3	3	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:131179333C>T	uc003qch.2	-	19	3143	c.2961G>A	c.(2959-2961)TCG>TCA	p.S987S	EPB41L2_uc003qce.1_Silent_p.S365S|EPB41L2_uc003qcf.1_RNA|EPB41L2_uc003qcg.1_Silent_p.S729S|EPB41L2_uc011eby.1_Silent_p.S655S|EPB41L2_uc003qci.2_Silent_p.S834S|EPB41L2_uc010kfk.2_Silent_p.S655S|EPB41L2_uc003qcd.1_Silent_p.S148S	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	987	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		CTCTTGTGACCGACATGTCAG	0.552													15	361					0	0	0.007413	0	0		T	131179333	T	T	131179333	2	4	134	1	0	0	0	0	0	0	0	1	5161	639	23	1		1	EPB41L2	6	131179333	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1219792	131179333	39935734	658	73316											
MED23	9439	broad.mit.edu	37	chr6	131919553	131919553	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcatataccaggaaatcTgcaaatgtcctcacatgggc	14	9	7	11	0	3	0	2	0	1	0	4	1	4	1	2	2	3	1	2	2	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:131919553T>G	uc003qcs.1	-	20	2655	c.2481A>C	c.(2479-2481)GCA>GCC	p.A827A	MED23_uc003qcq.2_Silent_p.A833A|MED23_uc011eca.1_Silent_p.A468A|MED23_uc003qct.1_Silent_p.A833A	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	827					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		CCAGGAAATCTGCAAATGTCC	0.398													35	47					0	0	0.004878	0	0		G	131919553	G	G	131919553	2	3	134	1	0	0	0	0	0	0	0	1	9459	1567	55	5		5	MED23	6	131919553	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	740220	131919553	39195514	659	73317											
TCF21	6943	broad.mit.edu	37	chr6	134210668	134210668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgaggagagctccaactgcGagaatgggtctccccagaag	11	5	13	12	2	1	3	0	0	1	3	3	6	2	3	4	2	3	1	4	2	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:134210668G>A	uc003qei.3	+	1	409	c.133G>A	c.(133-135)GAG>AAG	p.E45K	uc003qeg.1_5'Flank|TCF21_uc003qej.2_Missense_Mutation_p.E45K	NM_003206	NP_003197	O43680	TCF21_HUMAN	transcription factor 21	45					branching involved in ureteric bud morphogenesis|mesoderm development|negative regulation of androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus	androgen receptor binding|E-box binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity				0	Colorectal(23;0.221)|Breast(56;0.247)			GBM - Glioblastoma multiforme(68;0.00518)|OV - Ovarian serous cystadenocarcinoma(155;0.00783)		CTCCAACTGCGAGAATGGGTC	0.592													27	55					0	0	0.003954	0	0		A	134210668	A	A	134210668	3	1	134	1	0	0	0	0	1	0	0	0	15716	1059	37	1	135	1	TCF21	6	134210668	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2291115	134210668	36904399	660	73318											
MYB	4602	broad.mit.edu	37	chr6	135520107	135520107	+	Frame_Shift_Del	DEL	C	-	-																															aatgccttctttaacttccaCccccctcattggtcacaaat																								rs66549477		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:135520107delC	uc003qfc.2	+	10	1464	c.1265delC	c.(1264-1266)ACCfs	p.T422fs	MYB_uc003qfh.2_Frame_Shift_Del_p.T543fs|MYB_uc003qfi.2_Frame_Shift_Del_p.T527fs|MYB_uc010kgi.2_Frame_Shift_Del_p.T422fs|MYB_uc003qfq.2_Frame_Shift_Del_p.T540fs|MYB_uc010kgj.2_Frame_Shift_Del_p.T387fs|MYB_uc003qfo.2_Frame_Shift_Del_p.T337fs|MYB_uc003qfu.2_Frame_Shift_Del_p.T419fs|MYB_uc003qfl.2_RNA|MYB_uc003qfv.2_RNA|MYB_uc003qfz.2_RNA|MYB_uc003qfx.2_RNA|MYB_uc003qga.2_RNA|MYB_uc003qgb.2_RNA|MYB_uc010kgk.2_RNA|MYB_uc003qfd.2_RNA|MYB_uc003qfe.2_RNA|MYB_uc003qfg.2_RNA|MYB_uc003qff.2_RNA|MYB_uc003qfj.2_RNA|MYB_uc003qfm.2_RNA|MYB_uc003qfp.2_RNA|MYB_uc003qfn.2_RNA|MYB_uc003qfk.2_RNA|MYB_uc003qfr.2_RNA|MYB_uc003qfs.2_Frame_Shift_Del_p.T48fs|MYB_uc003qft.2_RNA|MYB_uc003qfw.2_Frame_Shift_Del_p.T234fs|MYB_uc003qfy.2_RNA|MYB_uc003qgc.2_RNA|MYB_uc003qfb.1_Frame_Shift_Del_p.T422fs	NM_005375	NP_005366	P10242	MYB_HUMAN	v-myb myeloblastosis viral oncogene homolog	422	Negative regulatory domain (By similarity).				blood coagulation|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone H3-K4 methylation|positive regulation of histone H3-K9 methylation|positive regulation of T-helper cell differentiation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear matrix	DNA binding|protein binding			lung(1)	1	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)		TTAACTTCCACCCCCCTCATT	0.363			T	NFIB	adenoid cystic carcinoma								44	75	---	---	---	---						.	-	135520107	-	-	135520107	7	5	134	1	0	1	0	1	0	0	0	0	10025	507	18	0	1670	0	MYB	6	135520107	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	1309439	135520107	35594960	661	73319											
CITED2	10370	broad.mit.edu	37	chr6	139694831	139694831	+	Frame_Shift_Del	DEL	G	-	-																															ccgcgggggccagcgcgctcGgggggtgccctccgttcaca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:139694831delG	uc003qip.1	-	2	495	c.251delC	c.(250-252)CCGfs	p.P84fs		NM_006079	NP_006070	Q99967	CITE2_HUMAN	Cbp/p300-interacting transactivator, with	84					adrenal cortex formation|anti-apoptosis|cell proliferation|determination of left/right symmetry|heart development|liver development|negative regulation of cell migration|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell cycle|positive regulation of cell-cell adhesion|positive regulation of male gonad development|positive regulation of peroxisome proliferator activated receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of organ formation|response to estrogen stimulus|response to fluid shear stress|response to hypoxia|sex determination	cytoplasm|nuclear chromatin|nucleus	chromatin binding|LBD domain binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity				0	Breast(32;0.226)			GBM - Glioblastoma multiforme(68;0.000171)|OV - Ovarian serous cystadenocarcinoma(155;0.00134)		CAGCGCGCTCGGGGGGTGCCC	0.682													18	40	---	---	---	---						.	-	139694831	-	-	139694831	7	5	134	1	0	1	0	1	0	0	0	0	3443	1116	39	0	565	0	CITED2	6	139694831	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	4174724	139694831	31420236	662	73320											
SASH1	23328	broad.mit.edu	37	chr6	148865376	148865376	+	Frame_Shift_Del	DEL	C	-	-																															cctctggtcgcggcctgtcaCcccctcagtgtttgcccaga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:148865376delC	uc003qme.1	+	18	3245	c.2770delC	c.(2770-2772)CCCfs	p.P924fs	SASH1_uc011eeb.1_Frame_Shift_Del_p.P685fs|SASH1_uc003qmf.1_Frame_Shift_Del_p.P334fs	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	924							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CGGCCTGTCACCCCCTCAGTG	0.517													66	138	---	---	---	---						.	-	148865376	-	-	148865376	7	5	134	1	0	1	0	1	0	0	0	0	13873	507	18	0	2840	0	SASH1	6	148865376	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	9170545	148865376	22249691	663	73321											
KATNA1	11104	broad.mit.edu	37	chr6	149918302	149918302	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caactcacgtagacttattcGtaatagctcctccctgcctt	9	13	5	14	2	1	1	1	0	0	1	4	1	3	1	3	0	3	3	3	0	5	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:149918302G>A	uc003qmr.1	-	9	1219	c.1174C>T	c.(1174-1176)CGA>TGA	p.R392*	KATNA1_uc003qms.2_Nonsense_Mutation_p.R392*|KATNA1_uc003qmt.2_Intron	NM_007044	NP_008975	O75449	KTNA1_HUMAN	katanin p60 subunit A 1	392					cell division|interphase of mitotic cell cycle|mitosis	microtubule|microtubule organizing center|spindle pole	ATP binding|microtubule binding|microtubule-severing ATPase activity|protein heterodimerization activity			skin(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;2.95e-12)|GBM - Glioblastoma multiforme(68;0.173)		AGACTTATTCGTAATAGCTCC	0.388													55	97					0	0	0.01441	0	0		A	149918302	A	A	149918302	4	1	134	1	0	0	0	0	0	1	0	0	8000	1153	40	1	309	1	KATNA1	6	149918302	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1052926	149918302	21196765	664	73322											
PLEKHG1	57480	broad.mit.edu	37	chr6	151153335	151153335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaagcaaggagggcccGccattggtatgtgcaccctg	11	6	14	10	1	0	2	0	0	0	2	0	3	0	3	3	3	2	3	3	3	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:151153335G>A	uc003qny.1	+	16	3400	c.3088G>A	c.(3088-3090)GCC>ACC	p.A1030T	PLEKHG1_uc011eel.1_Missense_Mutation_p.A1070T|PLEKHG1_uc011eem.1_Missense_Mutation_p.A1089T|PLEKHG1_uc003qnz.2_Missense_Mutation_p.A1030T	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	1030					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		AGGAGGGCCCGCCATTGGTAT	0.527													60	50					0	0	0.01441	0	0		A	151153335	A	A	151153335	3	1	134	1	0	0	0	0	1	0	0	0	12087	1087	38	1	3142	1	PLEKHG1	6	151153335	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1235033	151153335	19961732	665	73323											
TIAM2	26230	broad.mit.edu	37	chr6	155498051	155498051	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttcaggacaatcacggAgttactgtagggatcaagcc	12	9	10	10	1	3	0	3	0	0	0	3	3	3	3	1	3	2	2	1	3	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:155498051A>G	uc003qqb.2	+	12	3736	c.2463A>G	c.(2461-2463)GGA>GGG	p.G821G	TIAM2_uc003qqe.2_Silent_p.G821G|TIAM2_uc010kjj.2_Silent_p.G354G|TIAM2_uc003qqf.2_Silent_p.G197G|TIAM2_uc011efl.1_Silent_p.G157G|TIAM2_uc003qqg.2_Silent_p.G133G	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	821	RBD.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		ACAATCACGGAGTTACTGTAG	0.413													7	193					0	0	0.004482	0	0		G	155498051	G	G	155498051	2	3	134	1	0	0	0	0	0	0	0	1	15916	291	11	3		3	TIAM2	6	155498051	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4344716	155498051	15617016	666	73324											
TIAM2	26230	broad.mit.edu	37	chr6	155498077	155498077	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagggatcaagccagagcAcagagtagaagatattttga	15	9	12	5	0	1	5	1	1	0	4	1	6	1	6	1	1	2	3	1	1	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:155498077A>G	uc003qqb.2	+	12	3762	c.2489A>G	c.(2488-2490)CAC>CGC	p.H830R	TIAM2_uc003qqe.2_Missense_Mutation_p.H830R|TIAM2_uc010kjj.2_Missense_Mutation_p.H363R|TIAM2_uc003qqf.2_Missense_Mutation_p.H206R|TIAM2_uc011efl.1_Missense_Mutation_p.H166R|TIAM2_uc003qqg.2_Missense_Mutation_p.H142R	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	830	RBD.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		AAGCCAGAGCACAGAGTAGAA	0.403													59	128					0	0	0.01441	0	0		G	155498077	G	G	155498077	3	3	134	1	0	0	0	0	1	0	0	0	15916	159	6	3	2515	3	TIAM2	6	155498077	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	26	155498077	15616990	667	73325											
RSPH3	83861	broad.mit.edu	37	chr6	159404767	159404767	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtggtgttggtggtctgTccaaaaatgcatctgtttgg	8	14	14	5	0	2	1	0	0	2	1	3	1	3	1	1	4	1	3	1	4	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:159404767T>C	uc003qrx.2	-	4	1035	c.845A>G	c.(844-846)GAC>GGC	p.D282G	RSPH3_uc010kju.2_Intron|RSPH3_uc003qry.1_Missense_Mutation_p.D282G	NM_031924	NP_114130	Q86UC2	RSPH3_HUMAN	radial spoke 3 homolog	282										ovary(1)|skin(1)	2		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.36e-16)|BRCA - Breast invasive adenocarcinoma(81;5.92e-06)		TGGTGGTCTGTCCAAAAATGC	0.398													50	114					0	0	0.01441	0	0		C	159404767	C	C	159404767	3	2	134	1	0	0	0	0	1	0	0	0	13730	1667	58	3	857	3	RSPH3	6	159404767	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3906690	159404767	11710300	668	73326											
IGF2R	3482	broad.mit.edu	37	chr6	160461669	160461669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacatgggacacggaatacGcctgtgttaaggagaaggaa	14	7	13	7	2	1	1	1	0	0	1	1	5	1	4	1	4	1	1	1	4	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:160461669G>A	uc003qta.2	+	11	1541	c.1393G>A	c.(1393-1395)GCC>ACC	p.A465T		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	465	Lumenal (Potential).|3.				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		CACGGAATACGCCTGTGTTAA	0.547													77	137					0	0	0.01441	0	0		A	160461669	A	A	160461669	3	1	134	1	0	0	0	0	1	0	0	0	7592	1087	38	1	1435	1	IGF2R	6	160461669	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1056902	160461669	10653398	669	73327											
T	6862	broad.mit.edu	37	chr6	166571837	166571837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcgacacaggtgtccatgagGctatgaggcggccttgggct	7	8	16	10	2	0	2	0	2	0	0	1	3	1	2	2	5	0	2	2	5	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:166571837G>A	uc003quu.1	-	9	1767	c.1274C>T	c.(1273-1275)GCC>GTC	p.A425V	T_uc003qut.1_Missense_Mutation_p.A426V|T_uc003quv.1_Missense_Mutation_p.A367V	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	425					anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		TGTCCATGAGGCTATGAGGCG	0.627									Chordoma_Familial_Clustering_of				50	134					0	0	0.01441	0	0		A	166571837	A	A	166571837	3	1	134	1	0	0	0	0	1	0	0	0	15513	1203	42	2	37	2	T	6	166571837	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6110168	166571837	4543230	670	73328											
MLLT4	4301	broad.mit.edu	37	chr6	168271129	168271129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaattggaacaaagatgatcGggaaggcagatttgttctta	14	11	12	4	1	1	3	0	1	1	2	2	6	1	5	0	3	1	2	0	3	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr6:168271129G>A	uc003qwd.2	+	3	507	c.365G>A	c.(364-366)CGG>CAG	p.R122Q	MLLT4_uc003qwb.1_Missense_Mutation_p.R122Q|MLLT4_uc003qwc.1_Missense_Mutation_p.R122Q	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	122	Ras-associating 1.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		AAAGATGATCGGGAAGGCAGA	0.393			T	MLL	AL								138	274					0	0	0.01441	0	0		A	168271129	A	A	168271129	3	1	134	1	0	0	0	0	1	0	0	0	9647	1116	39	1	375	1	MLLT4	6	168271129	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1699292	168271129	2843938	671	73329											
MAD1L1	8379	broad.mit.edu	37	chr7	2108876	2108876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcctccgggccagcgcctCgtgggtctcgcgcttcttcc	2	9	13	17	5	2	0	0	0	2	0	6	1	4	0	5	2	2	1	5	2	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:2108876C>T	uc003slh.1	-	12	1437	c.1171G>A	c.(1171-1173)GAG>AAG	p.E391K	MAD1L1_uc003sle.1_Missense_Mutation_p.E120K|MAD1L1_uc003slf.1_Missense_Mutation_p.E391K|MAD1L1_uc003slg.1_Missense_Mutation_p.E391K|MAD1L1_uc010ksh.1_Missense_Mutation_p.E391K|MAD1L1_uc003sli.1_Missense_Mutation_p.E299K|MAD1L1_uc010ksi.1_Missense_Mutation_p.E344K|MAD1L1_uc010ksj.2_Missense_Mutation_p.E391K	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	391	Necessary for interaction with NEK2.|Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		GCCAGCGCCTCGTGGGTCTCG	0.657													45	96					0	0	0.01441	0	0		T	2108876	T	T	2108876	3	4	134	1	0	0	0	0	1	0	0	0	9165	893	31	1	1017	1	MAD1L1	7	2108876	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08		2108876	157029787	672	73330											
FTSJ2	29960	broad.mit.edu	37	chr7	2279284	2279284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctgtccgattcttgcagcGactcccaacagtgtggaacc	8	9	10	14	2	1	0	0	0	1	0	3	3	3	1	4	1	4	1	4	1	2	2	rs138187457	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:2279284G>A	uc003slm.2	-	2	96	c.67C>T	c.(67-69)CGC>TGC	p.R23C	FTSJ2_uc003slk.2_5'UTR|FTSJ2_uc003sll.2_5'UTR|FTSJ2_uc003sln.2_RNA|FTSJ2_uc003slo.2_5'UTR|NUDT1_uc003slp.1_5'Flank|NUDT1_uc003slq.1_5'Flank|NUDT1_uc003slr.1_5'Flank|NUDT1_uc003sls.1_5'Flank|NUDT1_uc003slt.1_5'Flank	NM_013393	NP_037525	Q9UI43	RRMJ2_HUMAN	FtsJ homolog 2	23					cell proliferation	mitochondrion|nucleolus	nucleic acid binding|rRNA (uridine-2'-O-)-methyltransferase activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0822)|OV - Ovarian serous cystadenocarcinoma(56;2.7e-14)		TTCTTGCAGCGACTCCCAACA	0.552													94	152					0	0	0.01441	0	0		A	2279284	A	A	2279284	3	1	134	1	0	0	0	0	1	0	0	0	6102	1058	37	1	681	1	FTSJ2	7	2279284	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	170408	2279284	156859379	673	73331											
SNX8	29886	broad.mit.edu	37	chr7	2297420	2297420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcagcttctccaccacgtCgttctcttcctgcttaccct	4	15	5	17	2	3	0	1	0	2	0	7	0	4	0	4	0	3	4	4	0	1	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:2297420C>T	uc003slw.2	-	8	977	c.934G>A	c.(934-936)GAC>AAC	p.D312N		NM_013321	NP_037453	Q9Y5X2	SNX8_HUMAN	sorting nexin 8	312					cell communication|early endosome to Golgi transport|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0853)|OV - Ovarian serous cystadenocarcinoma(56;3.79e-14)		TCCACCACGTCGTTCTCTTCC	0.592													150	246					0	0	0.01441	0	0		T	2297420	T	T	2297420	3	4	134	1	0	0	0	0	1	0	0	0	14933	884	31	1	479	1	SNX8	7	2297420	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	18136	2297420	156841243	674	73332											
C7orf27	221927	broad.mit.edu	37	chr7	2583343	2583343	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcttccgtccaggggctctgGcagcgcccgaaggtcgtggt	4	8	16	13	4	1	0	0	0	1	0	4	1	3	0	3	5	1	3	3	5	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:2583343G>A	uc003smi.2	-	5	726	c.684C>T	c.(682-684)TGC>TGT	p.C228C	C7orf27_uc003smh.3_5'Flank|C7orf27_uc003smj.1_Silent_p.C228C	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	228					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)		AGGGGCTCTGGCAGCGCCCGA	0.662													26	55					0	0	0.00632	0	0		A	2583343	A	A	2583343	2	1	134	1	0	0	0	0	0	0	0	1	2385	1195	42	2		2	C7orf27	7	2583343	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	285923	2583343	156555320	675	73333											
CARD11	84433	broad.mit.edu	37	chr7	2974156	2974156	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtacttgctgtcttcaggTgactcctccgaggtggaaga	9	11	12	9	1	2	2	1	1	1	1	4	4	4	3	2	3	2	2	2	3	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:2974156T>C	uc003smv.2	-	10	1853	c.1449A>G	c.(1447-1449)TCA>TCG	p.S483S		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	483					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		TGTCTTCAGGTGACTCCTCCG	0.592			Mis		DLBCL								16	45					0	0	0.006122	0	0		C	2974156	C	C	2974156	2	2	134	1	0	0	0	0	0	0	0	1	2648	1683	59	3		3	CARD11	7	2974156	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	390813	2974156	156164507	676	73334											
CARD11	84433	broad.mit.edu	37	chr7	2984023	2984023	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggttagcagctccacgcgCgtcagcgtcatctgcttctt	7	11	10	13	4	4	0	2	0	2	0	5	0	5	0	1	1	4	4	1	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:2984023C>T	uc003smv.2	-	5	911	c.507G>A	c.(505-507)ACG>ACA	p.T169T		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	169	Potential.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GCTCCACGCGCGTCAGCGTCA	0.572			Mis		DLBCL								72	109					0	0	0.01441	0	0		T	2984023	T	T	2984023	2	4	134	1	0	0	0	0	0	0	0	1	2648	755	27	1		1	CARD11	7	2984023	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	9867	2984023	156154640	677	73335											
RNF216	54476	broad.mit.edu	37	chr7	5662491	5662491	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatggggattcggggccaTcagaagcgatgccgcggctg	8	7	16	10	4	2	1	2	0	0	1	3	3	2	2	2	5	2	1	2	5	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:5662491T>C	uc003soy.1	-	17	2791	c.2601A>G	c.(2599-2601)TGA>TGG	p.*867W	RNF216_uc010ksz.1_Nonstop_Mutation_p.*489W|RNF216_uc010kta.1_Nonstop_Mutation_p.*489W|RNF216_uc011jwj.1_Nonstop_Mutation_p.*489W|RNF216_uc003sox.1_Nonstop_Mutation_p.*924W	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	867					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		TTCGGGGCCATCAGAAGCGAT	0.597													82	174					0	0	0.01441	0	0		C	5662491	C	C	5662491	4	2	134	1	0	0	0	0	0	0	0	0	13505	1448	50	3	3	3	RNF216	7	5662491	Nonstop_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2678468	5662491	153476172	678	73336											
C7orf26	79034	broad.mit.edu	37	chr7	6634210	6634210	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcatcacctccgttaccGcgctctatgacctgtcatca	8	12	6	15	3	5	1	4	1	1	0	6	1	6	1	4	0	1	3	4	0	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:6634210G>A	uc003sqo.1	+	3	559	c.559G>A	c.(559-561)GCG>ACG	p.A187T	C7orf26_uc003sqp.1_Missense_Mutation_p.A168T|C7orf26_uc003sqq.1_Intron	NM_024067	NP_076972	Q96N11	CG026_HUMAN	hypothetical protein LOC79034	187										ovary(1)	1		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)		CTCCGTTACCGCGCTCTATGA	0.463													46	85					0	0	0.01441	0	0		A	6634210	A	A	6634210	3	1	134	1	0	0	0	0	1	0	0	0	2384	1087	38	1	569	1	C7orf26	7	6634210	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	971719	6634210	152504453	679	73337											
HDAC9	9734	broad.mit.edu	37	chr7	18767320	18767320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggactcactcttcccctGctgcctctgttttacctcac	5	13	5	18	0	4	0	2	0	2	0	5	1	5	1	5	1	3	2	5	1	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:18767320G>A	uc003suh.2	+	12	1881	c.1840G>A	c.(1840-1842)GCT>ACT	p.A614T	HDAC9_uc003sue.2_Missense_Mutation_p.A614T|HDAC9_uc011jyd.1_Missense_Mutation_p.A614T|HDAC9_uc003sui.2_Missense_Mutation_p.A617T|HDAC9_uc003suj.2_Missense_Mutation_p.A573T|HDAC9_uc003sua.1_Missense_Mutation_p.A592T|HDAC9_uc010kue.1_Missense_Mutation_p.A269T	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	614					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CTCTTCCCCTGCTGCCTCTGT	0.572													15	20					0	0	0.004007	0	0		A	18767320	A	A	18767320	3	1	134	1	0	0	0	0	1	0	0	0	7030	1319	46	2	1946	2	HDAC9	7	18767320	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	12133110	18767320	140371343	680	73338											
TMEM196	256130	broad.mit.edu	37	chr7	19765163	19765163	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccatttcatgagagtgatGcagggaatgctccctttctg	9	12	11	9	0	2	2	1	2	1	1	3	4	3	3	2	1	3	2	2	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:19765163G>C	uc011jyg.1	-	3	518	c.433C>G	c.(433-435)CAT>GAT	p.H145D	TMEM196_uc003sur.2_RNA	NM_152774	NP_689987	Q5HYL7	TM196_HUMAN	transmembrane protein 196	151						integral to membrane					0						TGAGAGTGATGCAGGGAATGC	0.488													39	61					0	0	0.007835	0	0		C	19765163	C	C	19765163	3	2	134	1	0	0	0	0	1	0	0	0	16143	1319	46	5	93	5	TMEM196	7	19765163	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	997843	19765163	139373500	681	73339											
ITGB8	3696	broad.mit.edu	37	chr7	20449395	20449395	+	Frame_Shift_Del	DEL	A	-	-																															gattacagagtgtcagcctcAaaaaaggtcagtgaattcta																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:20449395delA	uc003suu.2	+	13	2886	c.2181delA	c.(2179-2181)TCAfs	p.S727fs	ITGB8_uc011jyh.1_Frame_Shift_Del_p.S592fs	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	727	Cytoplasmic (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						TGTCAGCCTCAAAAAAGGTCA	0.318													51	110	---	---	---	---						.	-	20449395	-	-	20449395	7	5	134	1	0	1	0	1	0	0	0	0	7917	117	5	0	2231	0	ITGB8	7	20449395	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	684232	20449395	138689268	682	73340											
NFE2L3	9603	broad.mit.edu	37	chr7	26217597	26217597	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagaaaagcacgaagctgTggatcatagttcccagcatg	15	7	11	8	1	1	1	1	0	0	1	2	4	2	2	1	1	3	4	1	1	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:26217597T>C	uc003sxq.2	+	2	877	c.605T>C	c.(604-606)GTG>GCG	p.V202A		NM_004289	NP_004280	Q9Y4A8	NF2L3_HUMAN	nuclear factor erythroid 2-like 3	202					transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			skin(3)|ovary(1)	4						CACGAAGCTGTGGATCATAGT	0.388													8	177					0	0	0.006214	0	0		C	26217597	C	C	26217597	3	2	134	1	0	0	0	0	1	0	0	0	10388	1696	59	3	611	3	NFE2L3	7	26217597	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	5768202	26217597	132921066	683	73341											
HOXA2	3199	broad.mit.edu	37	chr7	27140390	27140390	+	Frame_Shift_Del	DEL	A	-	-																															attgtggtgagtgtgtctgtAaaaaagtctaagctgtcagc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:27140390delA	uc003syh.2	-	2	1361	c.1086delT	c.(1084-1086)TTTfs	p.F362fs		NM_006735	NP_006726	O43364	HXA2_HUMAN	homeobox A2	362						nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GTGTGTCTGTAAAAAAGTCTA	0.438													122	221	---	---	---	---						.	-	27140390	-	-	27140390	7	5	134	1	0	1	0	1	0	0	0	0	7308	359	13	0	48	0	HOXA2	7	27140390	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	922793	27140390	131998273	684	73342											
HOXA3	3200	broad.mit.edu	37	chr7	27150193	27150193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attggcattataagcgaaccCgttggctgcctggtaggggt	8	11	14	8	2	0	0	0	0	0	0	0	1	0	0	2	5	3	4	2	5	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:27150193C>T	uc011jzl.1	-	2	267	c.67G>A	c.(67-69)GGG>AGG	p.G23R	HOXA3_uc011jzk.1_Intron|HOXA3_uc003syk.2_Missense_Mutation_p.G23R	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	23					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						TAAGCGAACCCGTTGGCTGCC	0.612													18	21					0	0	0.00278	0	0		T	27150193	T	T	27150193	3	4	134	1	0	0	0	0	1	0	0	0	7309	652	23	1	1272	1	HOXA3	7	27150193	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	9803	27150193	131988470	685	73343											
DPY19L1	23333	broad.mit.edu	37	chr7	35009088	35009088	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaactgccaaggaagcatgAaaaatacattggaaatgcag	19	6	9	7	0	0	1	0	1	0	0	0	3	0	3	1	2	5	2	1	2	7	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:35009088A>G	uc003tem.3	-	9	897	c.752T>C	c.(751-753)TTC>TCC	p.F251S		NM_015283	NP_056098	Q2PZI1	D19L1_HUMAN	dpy-19-like 1	251	Helical; (Potential).					integral to membrane					0						AGGAAGCATGAAAAATACATT	0.343													19	32					0	0	0.008871	0	0		G	35009088	G	G	35009088	3	3	134	1	0	0	0	0	1	0	0	0	4746	246	9	3	1331	3	DPY19L1	7	35009088	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	7858895	35009088	124129575	686	73344											
POU6F2	11281	broad.mit.edu	37	chr7	39472696	39472696	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attatcgggaccattccactGatgcctaatccagggccatc	10	10	8	13	1	0	1	0	1	0	0	4	2	2	2	5	2	1	0	5	2	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:39472696G>A	uc003thb.1	+	7	1089	c.1047G>A	c.(1045-1047)CTG>CTA	p.L349L		NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1	349	Gln-rich.				central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						CCATTCCACTGATGCCTAATC	0.592													34	64					0	0	0.010818	0	0		A	39472696	A	A	39472696	2	1	134	1	0	0	0	0	0	0	0	1	12304	1277	45	4		4	POU6F2	7	39472696	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4463608	39472696	119665967	687	73345											
C7orf10	79783	broad.mit.edu	37	chr7	40900065	40900065	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctggagtggtggaccaacAtgaaactcactgacaaagga	14	6	12	9	1	1	2	1	2	0	0	1	5	1	5	1	4	2	1	1	4	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:40900065A>C	uc003thn.1	+	14	1349	c.1304A>C	c.(1303-1305)CAT>CCT	p.H435P	C7orf10_uc003thm.1_Missense_Mutation_p.H431P|C7orf10_uc003tho.1_Missense_Mutation_p.H387P|C7orf10_uc003thp.1_RNA	NM_024728	NP_079004	Q9HAC7	CG010_HUMAN	dermal papilla derived protein 13	442							transferase activity			ovary(2)	2						GTGGACCAACATGAAACTCAC	0.552													34	88					0	0	0.003755	0	0		C	40900065	C	C	40900065	3	2	134	1	0	0	0	0	1	0	0	0	2379	217	8	5	1350	5	C7orf10	7	40900065	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1427369	40900065	118238598	688	73346											
GLI3	2737	broad.mit.edu	37	chr7	42005281	42005281	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctggcagcccgggcgcGtcaaagtcaccgggcccgtg	5	6	15	15	5	3	0	2	0	1	0	3	0	3	0	3	3	1	1	3	3	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:42005281G>A	uc011kbh.1	-	15	3481	c.3390C>T	c.(3388-3390)GAC>GAT	p.D1130D	GLI3_uc011kbg.1_Silent_p.D1071D	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1130					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GCCCGGGCGCGTCAAAGTCAC	0.642									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				95	151					0	0	0.01441	0	0		A	42005281	A	A	42005281	2	1	134	1	0	0	0	0	0	0	0	1	6454	1136	40	1		1	GLI3	7	42005281	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1105216	42005281	117133382	689	73347											
NPC1L1	29881	broad.mit.edu	37	chr7	44579719	44579719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgataccagctgcttggCggagcagcaggcttgggtgt	7	9	16	9	1	0	1	0	1	0	0	0	2	0	2	1	4	5	5	1	4	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:44579719C>T	uc003tlb.2	-	2	333	c.277G>A	c.(277-279)GCC>ACC	p.A93T	NPC1L1_uc003tlc.2_Missense_Mutation_p.A93T|NPC1L1_uc011kbw.1_Missense_Mutation_p.A93T|NPC1L1_uc003tld.2_Missense_Mutation_p.A93T	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	93	Extracellular (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	AGCTGCTTGGCGGAGCAGCAG	0.597													21	49					0	0	0.003954	0	0		T	44579719	T	T	44579719	3	4	134	1	0	0	0	0	1	0	0	0	10590	768	27	1	3878	1	NPC1L1	7	44579719	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2574438	44579719	114558944	690	73348											
OGDH	4967	broad.mit.edu	37	chr7	44747227	44747228	+	Frame_Shift_Ins	INS	-	C	C																															ctgaaggaggtgcagaagtaINSccccaatgctgagctggcct																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:44747227_44747228insC	uc003tln.2	+	22	2952_2953	c.2843_2844insC	c.(2842-2844)TACfs	p.Y948fs	OGDH_uc011kbx.1_Frame_Shift_Ins_p.Y944fs|OGDH_uc011kby.1_Frame_Shift_Ins_p.Y798fs|OGDH_uc003tlp.2_Frame_Shift_Ins_p.Y959fs|OGDH_uc011kbz.1_Frame_Shift_Ins_p.Y743fs	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	948					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	GTGCAGAAGTACCCCAATGCTG	0.564													114	181	---	---	---	---						.	C	44747228	C	C	44747227	7	5	134	1	0	1	1	0	0	0	0	0	10858	391	14	0	3098	0	OGDH	7	44747227	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	167508	44747227	114391436	691	73349											
TBRG4	9238	broad.mit.edu	37	chr7	45148709	45148709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtgggaaatgggtgaggtgGctgaggaagtcagagtctta	10	9	19	3	0	2	3	1	2	1	1	2	5	2	5	0	6	0	1	0	6	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:45148709G>A	uc003tmv.2	-	2	254	c.128C>T	c.(127-129)GCC>GTC	p.A43V	TBRG4_uc003tmu.2_5'Flank|TBRG4_uc003tmw.2_Missense_Mutation_p.A43V|TBRG4_uc003tmx.2_Missense_Mutation_p.A43V|TBRG4_uc011kcd.1_Missense_Mutation_p.A54V	NM_004749	NP_004740	Q969Z0	TBRG4_HUMAN	cell cycle progression 2 protein isoform 1	43					apoptosis|cell cycle arrest|cellular respiration|G1 phase of mitotic cell cycle|positive regulation of cell proliferation	mitochondrion	ATP binding|protein binding|protein kinase activity				0						GGGTGAGGTGGCTGAGGAAGT	0.582													56	112					0	0	0.01441	0	0		A	45148709	A	A	45148709	3	1	134	1	0	0	0	0	1	0	0	0	15674	1203	42	2	1807	2	TBRG4	7	45148709	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	401482	45148709	113989954	692	73350											
PKD1L1	168507	broad.mit.edu	37	chr7	47851503	47851503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaggggacgagactccccGtagggaggatctccactctc	9	7	13	12	2	2	2	0	1	2	1	5	6	3	5	3	4	0	1	3	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:47851503G>A	uc003tny.1	-	50	7493	c.7493C>T	c.(7492-7494)ACG>ATG	p.T2498M	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron|PKD1L1_uc003tob.2_Missense_Mutation_p.T225M	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2498	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GAGACTCCCCGTAGGGAGGAT	0.582													8	15					0	0	0.006214	0	0		A	47851503	A	A	47851503	3	1	134	1	0	0	0	0	1	0	0	0	11983	1145	40	1	1088	1	PKD1L1	7	47851503	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2702794	47851503	111287160	693	73351											
PKD1L1	168507	broad.mit.edu	37	chr7	47942044	47942044	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgcacacgatgaaaagttGctgtcttagagtggaggcac	11	9	12	9	2	1	2	0	1	1	1	2	4	1	3	0	2	1	4	0	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:47942044G>A	uc003tny.1	-	13	1996	c.1996C>T	c.(1996-1998)CAA>TAA	p.Q666*		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	666	Extracellular (Potential).|PKD 2.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						ATGAAAAGTTGCTGTCTTAGA	0.522													16	40					0	0	0.007413	0	0		A	47942044	A	A	47942044	4	1	134	1	0	0	0	0	0	1	0	0	11983	1328	46	2	6733	2	PKD1L1	7	47942044	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	90541	47942044	111196619	694	73352											
ZNF107	51427	broad.mit.edu	37	chr7	64167799	64167799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accaatcttcaaaccttactGaacataagaaaattcatact	18	11	2	10	0	3	2	2	1	1	1	3	2	3	2	2	0	4	0	2	0	8	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:64167799G>A	uc003ttd.2	+	7	1903	c.1117G>A	c.(1117-1119)GAA>AAA	p.E373K	ZNF107_uc003tte.2_Missense_Mutation_p.E373K	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	373	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				AAACCTTACTGAACATAAGAA	0.323													29	67					0	0	0.00632	0	0		A	64167799	A	A	64167799	3	1	134	1	0	0	0	0	1	0	0	0	17740	1291	45	4	1123	4	ZNF107	7	64167799	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	16225755	64167799	94970864	695	73353											
ZNF107	51427	broad.mit.edu	37	chr7	64168521	64168521	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacaaatgtgaagaatgTggaaaagcttataaccgatt	16	9	8	8	1	0	2	0	1	0	1	0	4	0	3	3	1	2	1	3	1	7	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:64168521T>C	uc003ttd.2	+	7	2625	c.1839T>C	c.(1837-1839)TGT>TGC	p.C613C	ZNF107_uc003tte.2_Silent_p.C613C	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	613	C2H2-type 20.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				GTGAAGAATGTGGAAAAGCTT	0.343													39	72					0	0	0.006999	0	0		C	64168521	C	C	64168521	2	2	134	1	0	0	0	0	0	0	0	1	17740	1702	59	3		3	ZNF107	7	64168521	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	722	64168521	94970142	696	73354											
POM121	9883	broad.mit.edu	37	chr7	72397426	72397427	+	Frame_Shift_Ins	INS	-	C	C																															gagacagtactgagtgccctINScaaagagaaggagaagaaaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:72397426_72397427insC	uc003twk.2	+	3	947_948	c.947_948insC	c.(946-948)CTCfs	p.L316fs	POM121_uc003twj.2_Frame_Shift_Ins_p.L51fs|POM121_uc010lam.1_Frame_Shift_Ins_p.L51fs	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	316	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				CTGAGTGCCCTCAAAGAGAAGG	0.46													250	432	---	---	---	---						.	C	72397427	C	C	72397426	7	5	134	1	0	1	1	0	0	0	0	0	12258	1551	54	0	158	0	POM121	7	72397426	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	8228905	72397426	86741237	697	73355											
BAZ1B	9031	broad.mit.edu	37	chr7	72892140	72892140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctttttcagctcctcccGtttctttttcaaatattctt	5	22	2	12	1	5	0	2	0	3	0	7	0	7	0	2	0	1	2	2	0	2	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:72892140G>A	uc003tyc.2	-	7	1996	c.1651C>T	c.(1651-1653)CGG>TGG	p.R551W		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	551	Potential.|Lys-rich.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				AGCTCCTCCCGTTTCTTTTTC	0.388													122	328					0	0	0.01441	0	0		A	72892140	A	A	72892140	3	1	134	1	0	0	0	0	1	0	0	0	1331	1144	40	1	2852	1	BAZ1B	7	72892140	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	494714	72892140	86246523	698	73356											
MLXIPL	51085	broad.mit.edu	37	chr7	73038576	73038576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggcgtgtgagtgtggggtCgatactgcgcggcccgaagt	6	8	19	8	5	0	1	0	1	0	0	1	4	0	1	1	4	2	0	1	4	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:73038576C>T	uc003tyn.1	-	1	295	c.247G>A	c.(247-249)GAC>AAC	p.D83N	MLXIPL_uc003tyk.1_Missense_Mutation_p.D83N|MLXIPL_uc003tyl.1_Missense_Mutation_p.D83N|MLXIPL_uc003tym.1_Missense_Mutation_p.D83N|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_Missense_Mutation_p.D83N	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	83					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				AGTGTGGGGTCGATACTGCGC	0.706													6	11					0	0	0.001168	0	0		T	73038576	T	T	73038576	3	4	134	1	0	0	0	0	1	0	0	0	9655	884	31	1	2379	1	MLXIPL	7	73038576	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	146436	73038576	86100087	699	73357											
PCLO	27445	broad.mit.edu	37	chr7	82582694	82582694	+	Frame_Shift_Del	DEL	T	-	-																															ttggggtgtatatctgttggTttttgtgtagttgttggaag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:82582694delT	uc003uhx.2	-	5	7864	c.7575delA	c.(7573-7575)AAAfs	p.K2525fs	PCLO_uc003uhv.2_Frame_Shift_Del_p.K2525fs|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2456	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TATCTGTTGGTTTTTGTGTAG	0.433													53	99	---	---	---	---						.	-	82582694	-	-	82582694	7	5	134	1	0	1	0	1	0	0	0	0	11602	1722	60	0	7954	0	PCLO	7	82582694	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	9544118	82582694	76555969	700	73358											
PCLO	27445	broad.mit.edu	37	chr7	82585204	82585204	+	Frame_Shift_Del	DEL	T	-	-																															ttcgtcaaaatacaaacttgTttttttctgtgatgactctg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:82585204delT	uc003uhx.2	-	5	5354	c.5065delA	c.(5065-5067)ACAfs	p.T1689fs	PCLO_uc003uhv.2_Frame_Shift_Del_p.T1689fs	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1620					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TACAAACTTGTTTTTTTCTGT	0.428													38	66	---	---	---	---						.	-	82585204	-	-	82585204	7	5	134	1	0	1	0	1	0	0	0	0	11602	1725	60	0	10464	0	PCLO	7	82585204	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	2510	82585204	76553459	701	73359											
SEMA3E	9723	broad.mit.edu	37	chr7	83277761	83277761	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacctttatgtgacaggcgtAaccgggggtgggtagtatca	9	11	14	7	2	1	1	1	1	0	0	1	1	1	1	2	4	2	3	2	4	5	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:83277761A>G	uc003uhy.1	-	1	564	c.98T>C	c.(97-99)TTA>TCA	p.L33S		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	33	Sema.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				TGACAGGCGTAACCGGGGGTG	0.398													34	53					0	0	0.006999	0	0		G	83277761	G	G	83277761	3	3	134	1	0	0	0	0	1	0	0	0	14053	372	13	3	2297	3	SEMA3E	7	83277761	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	692557	83277761	75860902	702	73360											
ABCB1	5243	broad.mit.edu	37	chr7	87183250	87183250	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaaatttttgttgtaccTgagaaaaagaacaaaaatga	18	13	6	4	0	1	3	0	2	1	2	1	4	1	3	1	0	2	2	1	0	8	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:87183250T>C	uc003uiz.1	-	10	1246	c.828_splice	c.e10-1	p.R276_splice	ABCB1_uc011khc.1_Splice_Site_p.R212_splice	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1						G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	TTGTTGTACCTGAGAAAAAGA	0.259													6	107					0	0	0.001168	0	0		C	87183250	C	C	87183250	5	2	134	1	0	0	0	0	0	0	1	0	40	1594	55	3	3096	3	ABCB1	7	87183250	Splice_Site	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3905489	87183250	71955413	703	73361											
C7orf63	79846	broad.mit.edu	37	chr7	89936277	89936277	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaaattaagaccagtcacTacagataaaaaagctttgga	20	8	7	6	0	1	2	1	0	0	2	1	4	1	3	1	1	2	1	1	1	7	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:89936277T>C	uc010lep.2	+	20	2579	c.2328T>C	c.(2326-2328)ACT>ACC	p.T776T	C7orf63_uc011khj.1_Silent_p.T758T|C7orf63_uc011khk.1_Silent_p.T292T	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	776							binding			ovary(1)	1						GACCAGTCACTACAGATAAAA	0.294													14	29					0	0	0.00245	0	0		C	89936277	C	C	89936277	2	2	134	1	0	0	0	0	0	0	0	1	2412	1509	53	3		3	C7orf63	7	89936277	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2753027	89936277	69202386	704	73362											
CDK14	5218	broad.mit.edu	37	chr7	90747392	90747392	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtccacagtgtcttctatttTtactgtcccaaatgtgagat	9	16	7	9	0	2	1	0	1	2	1	4	2	4	1	2	0	1	0	2	0	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:90747392T>G	uc003uky.2	+	14	1529	c.1307T>G	c.(1306-1308)TTT>TGT	p.F436C	CDK14_uc003ukz.1_Missense_Mutation_p.F418C|CDK14_uc010les.1_Missense_Mutation_p.F390C|CDK14_uc011khl.1_Missense_Mutation_p.F307C	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	436					cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						TCTTCTATTTTTACTGTCCCA	0.318													59	121					0	0	0.01441	0	0		G	90747392	G	G	90747392	3	3	134	1	0	0	0	0	1	0	0	0	3133	1841	64	5	1303	5	CDK14	7	90747392	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	811115	90747392	68391271	705	73363											
AKAP9	10142	broad.mit.edu	37	chr7	91645473	91645473	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtccttggtgaatattatActcctgctttaaaatgtgaa	11	16	8	6	0	0	2	0	2	0	0	2	2	2	2	2	1	2	1	2	1	7	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:91645473A>G	uc003ulg.2	+	11	3868	c.3643A>G	c.(3643-3645)ACT>GCT	p.T1215A	AKAP9_uc003ule.2_Missense_Mutation_p.T1227A|AKAP9_uc003ulf.2_Missense_Mutation_p.T1215A|AKAP9_uc003uli.2_Missense_Mutation_p.T840A	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1227					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TGAATATTATACTCCTGCTTT	0.279			T	BRAF	papillary thyroid								17	34					0	0	0.006122	0	0		G	91645473	G	G	91645473	3	3	134	1	0	0	0	0	1	0	0	0	459	391	14	3	3685	3	AKAP9	7	91645473	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	898081	91645473	67493190	706	73364											
SAMD9	54809	broad.mit.edu	37	chr7	92734173	92734173	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttatttgttacaagaatgTactgttcatagtatgaatta	14	18	6	3	0	1	2	1	1	0	1	1	2	1	2	0	0	2	4	0	0	9	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:92734173T>C	uc003umf.2	-	3	1494	c.1238A>G	c.(1237-1239)TAC>TGC	p.Y413C	SAMD9_uc003umg.2_Missense_Mutation_p.Y413C	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	413						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			TACAAGAATGTACTGTTCATA	0.318													13	58					0	0	0.013537	0	0		C	92734173	C	C	92734173	3	2	134	1	0	0	0	0	1	0	0	0	13851	1638	57	3	3535	3	SAMD9	7	92734173	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1088700	92734173	66404490	707	73365											
SAMD9L	219285	broad.mit.edu	37	chr7	92761679	92761679	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggatagtgtaaagaccaacTtctatttcacccaagaaaca	16	10	6	9	0	2	2	1	0	1	2	2	3	2	3	2	1	2	1	2	1	7	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:92761679T>C	uc003umh.1	-	5	4822	c.3606A>G	c.(3604-3606)GAA>GAG	p.E1202E	SAMD9L_uc003umj.1_Silent_p.E1202E|SAMD9L_uc003umi.1_Silent_p.E1202E|SAMD9L_uc010lfb.1_Silent_p.E1202E|SAMD9L_uc003umk.1_Silent_p.E1202E|SAMD9L_uc010lfc.1_Silent_p.E1202E|SAMD9L_uc010lfd.1_Silent_p.E1202E|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1202										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			AAAGACCAACTTCTATTTCAC	0.363													5	362					0	0	0.000602	0	0		C	92761679	C	C	92761679	2	2	134	1	0	0	0	0	0	0	0	1	13852	1606	56	3		3	SAMD9L	7	92761679	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	27506	92761679	66376984	708	73366											
PPP1R9A	55607	broad.mit.edu	37	chr7	94750077	94750077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgttggagcagatgctGgacttgaaaagctgggaata	11	10	16	4	0	0	2	0	1	0	1	0	5	0	5	0	4	3	4	0	4	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:94750077G>A	uc003unp.2	+	4	1864	c.1582G>A	c.(1582-1584)GGA>AGA	p.G528R	PPP1R9A_uc010lfj.2_Missense_Mutation_p.G528R|PPP1R9A_uc011kif.1_Missense_Mutation_p.G528R|PPP1R9A_uc003unq.2_Missense_Mutation_p.G528R|PPP1R9A_uc011kig.1_Missense_Mutation_p.G528R	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	528	PDZ.					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			AGCAGATGCTGGACTTGAAAA	0.388										HNSCC(28;0.073)			121	204					0	0	0.01441	0	0		A	94750077	A	A	94750077	3	1	134	1	0	0	0	0	1	0	0	0	12400	1349	47	4	1592	4	PPP1R9A	7	94750077	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1988398	94750077	64388586	709	73367											
DYNC1I1	1780	broad.mit.edu	37	chr7	95726809	95726809	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagcttgcagttccccaCaatgatgaatggacccgatt	10	11	9	11	1	0	2	0	2	0	0	1	4	1	3	3	1	3	4	3	1	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:95726809C>T	uc003uoc.3	+	17	2119	c.1842C>T	c.(1840-1842)CAC>CAT	p.H614H	DYNC1I1_uc003uod.3_Silent_p.H597H|DYNC1I1_uc003uob.2_Silent_p.H577H|DYNC1I1_uc003uoe.3_Silent_p.H594H|DYNC1I1_uc010lfl.2_Silent_p.H603H	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	614	WD 7.				vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			CAGTTCCCCACAATGATGAAT	0.468													44	62					0	0	0.013114	0	0		T	95726809	T	T	95726809	2	4	134	1	0	0	0	0	0	0	0	1	4848	477	17	4		4	DYNC1I1	7	95726809	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	976732	95726809	63411854	710	73368											
ASNS	440	broad.mit.edu	37	chr7	97493592	97493592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttagcttctgaacatacagCcaaaaatccatcttctgtca	13	13	4	11	0	4	1	1	1	3	0	5	1	5	1	2	0	4	1	2	0	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:97493592C>T	uc003uot.3	-	4	972	c.466G>A	c.(466-468)GCT>ACT	p.A156T	ASNS_uc011kin.1_Missense_Mutation_p.A73T|ASNS_uc003uou.3_Missense_Mutation_p.A156T|ASNS_uc003uov.3_Missense_Mutation_p.A156T|ASNS_uc011kio.1_Missense_Mutation_p.A135T|ASNS_uc003uow.3_Missense_Mutation_p.A135T|ASNS_uc003uox.3_Missense_Mutation_p.A73T	NM_133436	NP_597680	P08243	ASNS_HUMAN	asparagine synthetase	156	Glutamine amidotransferase type-2.				cellular response to glucose starvation|glutamine metabolic process|negative regulation of apoptosis|positive regulation of mitotic cell cycle	cytosol|soluble fraction	asparagine synthase (glutamine-hydrolyzing) activity|ATP binding			ovary(1)	1	all_cancers(62;6.64e-09)|all_epithelial(64;1.58e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0342)|all_lung(186;0.0369)				Adenosine triphosphate(DB00171)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GAACATACAGCCAAAAATCCA	0.299													31	73					0	0	0.008361	0	0		T	97493592	T	T	97493592	3	4	134	1	0	0	0	0	1	0	0	0	1049	739	26	2	1259	2	ASNS	7	97493592	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1766783	97493592	61645071	711	73369											
BAIAP2L1	55971	broad.mit.edu	37	chr7	97944915	97944915	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgacgagaagtaacggTctccacatactaaaaaaaaa	19	7	6	9	2	2	2	0	1	2	1	3	3	2	2	1	1	2	1	1	1	8	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:97944915T>C	uc003upj.2	-	7	759	c.496A>G	c.(496-498)ACC>GCC	p.T166A		NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1	166	IMD.				filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			GAAGTAACGGTCTCCACATAC	0.378													3	118					0	0	0.004672	0	0		C	97944915	C	C	97944915	3	2	134	1	0	0	0	0	1	0	0	0	1303	1667	58	3	1071	3	BAIAP2L1	7	97944915	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	451323	97944915	61193748	712	73370											
TRRAP	8295	broad.mit.edu	37	chr7	98533290	98533290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcgtacctttacgaattgCggcattaagtaagttaatga	13	13	8	7	3	0	1	0	1	0	0	1	2	0	1	1	1	3	4	1	1	6	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:98533290C>T	uc003upp.2	+	28	4312	c.4103C>T	c.(4102-4104)GCG>GTG	p.A1368V	TRRAP_uc011kis.1_Missense_Mutation_p.A1368V|TRRAP_uc003upr.2_Missense_Mutation_p.A1060V	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1368					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TTACGAATTGCGGCATTAAGT	0.393													15	29					0	0	0.00245	0	0		T	98533290	T	T	98533290	3	4	134	1	0	0	0	0	1	0	0	0	16627	768	27	1	4209	1	TRRAP	7	98533290	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	588375	98533290	60605373	713	73371											
TRRAP	8295	broad.mit.edu	37	chr7	98608823	98608823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggctctgataggcttcgCggaattcgtcctgcatttaa	7	13	11	10	3	1	1	0	1	1	0	4	2	2	2	1	3	1	4	1	3	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:98608823C>T	uc003upp.2	+	70	11254	c.11045C>T	c.(11044-11046)GCG>GTG	p.A3682V	TRRAP_uc011kis.1_Missense_Mutation_p.A3653V|TRRAP_uc003upr.2_Missense_Mutation_p.A3388V|TRRAP_uc003ups.2_5'Flank	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3682	PI3K/PI4K.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			ATAGGCTTCGCGGAATTCGTC	0.537													83	145					0	0	0.01441	0	0		T	98608823	T	T	98608823	3	4	134	1	0	0	0	0	1	0	0	0	16627	768	27	1	11228	1	TRRAP	7	98608823	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	75533	98608823	60529840	714	73372											
ZNF655	79027	broad.mit.edu	37	chr7	99170016	99170016	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtataagtctgaggacagAttagaaagacttcaggaaat	16	10	11	4	0	2	4	1	1	1	3	2	6	2	6	0	2	0	1	0	2	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:99170016A>T	uc003urh.2	+	3	678	c.285A>T	c.(283-285)AGA>AGT	p.R95S	ZNF655_uc010lga.2_Missense_Mutation_p.R130S|ZNF655_uc010lgc.2_Missense_Mutation_p.R130S|ZNF655_uc003urj.2_Missense_Mutation_p.R95S|ZNF655_uc003urk.2_5'UTR|ZNF655_uc010lgd.2_5'UTR	NM_138494	NP_612503	Q8N720	ZN655_HUMAN	zinc finger protein 655 isoform a	95					G1 phase|regulation of mitotic cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_epithelial(64;3.19e-09)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					CTGAGGACAGATTAGAAAGAC	0.393													4	132					0	0	0.009096	0	0		T	99170016	T	T	99170016	3	4	134	1	0	0	0	0	1	0	0	0	18093	330	12	5	822	5	ZNF655	7	99170016	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	561193	99170016	59968647	715	73373											
AP4M1	9179	broad.mit.edu	37	chr7	99701731	99701731	+	Frame_Shift_Del	DEL	T	-	-																															tcagagccaaaagaatgaagTttttttggatgtggtcgaga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:99701731delT	uc003utb.3	+	7	768	c.560delT	c.(559-561)GTTfs	p.V187fs	MCM7_uc003usw.1_5'Flank|MCM7_uc003usx.1_5'Flank|AP4M1_uc011kjg.1_Frame_Shift_Del_p.V141fs|AP4M1_uc010lgl.1_Frame_Shift_Del_p.V187fs|AP4M1_uc003utc.3_Frame_Shift_Del_p.V194fs|AP4M1_uc010lgm.2_Frame_Shift_Del_p.V59fs|AP4M1_uc003utd.2_Frame_Shift_Del_p.V187fs|AP4M1_uc011kjh.1_Frame_Shift_Del_p.V139fs|AP4M1_uc003ute.3_5'UTR|AP4M1_uc003utf.3_Frame_Shift_Del_p.V59fs	NM_004722	NP_004713	O00189	AP4M1_HUMAN	adaptor-related protein complex 4, mu 1 subunit	187	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|coated pit|Golgi trans cisterna	transporter activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AAGAATGAAGTTTTTTTGGAT	0.438													50	76	---	---	---	---						.	-	99701731	-	-	99701731	7	5	134	1	0	1	0	1	0	0	0	0	753	1725	60	0	586	0	AP4M1	7	99701731	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	531715	99701731	59436932	716	73374											
MUC17	140453	broad.mit.edu	37	chr7	100681299	100681299	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctactgaagcccgttcatCtcctacaacttctgaaggta	10	13	6	12	1	4	2	1	2	3	0	5	2	4	2	2	1	4	2	2	1	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:100681299C>G	uc003uxp.1	+	3	6655	c.6602C>G	c.(6601-6603)TCT>TGT	p.S2201C	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2201	Extracellular (Potential).|35.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GCCCGTTCATCTCCTACAACT	0.507													297	472					0	0	0.01441	0	0		G	100681299	G	G	100681299	3	3	134	1	0	0	0	0	1	0	0	0	9992	913	32	5	6612	5	MUC17	7	100681299	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	979568	100681299	58457364	717	73375											
PMPCB	9512	broad.mit.edu	37	chr7	102940681	102940681	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagattgaaaatatgggtgcTcatctcaatgcctatacctc	12	12	8	9	0	2	2	2	1	1	1	4	3	2	2	2	1	3	1	2	1	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:102940681T>G	uc003vbl.2	+	4	418	c.384T>G	c.(382-384)GCT>GCG	p.A128A	PMPCB_uc010liu.1_Silent_p.A128A|PMPCB_uc003vbk.1_Silent_p.A128A|PMPCB_uc003vbm.2_Silent_p.A37A|PMPCB_uc010liv.2_Silent_p.A34A|PMPCB_uc010liw.2_Silent_p.A37A|PMPCB_uc011kll.1_Silent_p.A23A|PMPCB_uc011klm.1_Silent_p.A3A	NM_004279	NP_004270	O75439	MPPB_HUMAN	mitochondrial processing peptidase beta subunit	128					proteolysis	mitochondrial matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)	4						ATATGGGTGCTCATCTCAATG	0.378													80	149					0	0	0.01441	0	0		G	102940681	G	G	102940681	2	3	134	1	0	0	0	0	0	0	0	1	12160	1538	54	5		5	PMPCB	7	102940681	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2259382	102940681	56197982	718	73376											
SLC26A5	375611	broad.mit.edu	37	chr7	103030877	103030877	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtccacattacacacaccTggggcaatgattcaaagagg	15	7	9	10	0	1	2	1	1	0	1	2	2	2	2	2	3	1	1	2	3	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:103030877T>C	uc003vbz.2	-	12	1546	c.1310A>G	c.(1309-1311)CAG>CGG	p.Q437R	SLC26A5_uc003vbt.1_Missense_Mutation_p.Q437R|SLC26A5_uc003vbu.1_Missense_Mutation_p.Q437R|SLC26A5_uc003vbv.1_Intron|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Missense_Mutation_p.Q437R|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_Intron	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	437	Cytoplasmic (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						TACACACACCTGGGGCAATGA	0.373													43	72					0	0	0.013114	0	0		C	103030877	C	C	103030877	3	2	134	1	0	0	0	0	1	0	0	0	14545	1594	55	3	1001	3	SLC26A5	7	103030877	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	90196	103030877	56107786	719	73377											
SLC26A5	375611	broad.mit.edu	37	chr7	103050937	103050937	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctgcggtggtaaacccacgGaccagaggctctgtgagata	10	7	14	10	2	1	2	0	1	1	2	1	4	1	3	2	4	2	3	2	4	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:103050937G>A	uc003vbz.2	-	7	866	c.630C>T	c.(628-630)GTC>GTT	p.V210V	SLC26A5_uc003vbt.1_Silent_p.V210V|SLC26A5_uc003vbu.1_Silent_p.V210V|SLC26A5_uc003vbv.1_Silent_p.V210V|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Silent_p.V210V|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_RNA	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	210	Cytoplasmic (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						TAAACCCACGGACCAGAGGCT	0.413													32	71					0	0	0.009535	0	0		A	103050937	A	A	103050937	2	1	134	1	0	0	0	0	0	0	0	1	14545	1161	41	4		4	SLC26A5	7	103050937	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	20060	103050937	56087726	720	73378											
MLL5	55904	broad.mit.edu	37	chr7	104753406	104753406	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgggcatcataccacaTcagctcaagccttacaccac	11	9	5	16	0	4	0	3	0	1	0	4	0	4	0	3	1	4	2	3	1	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:104753406T>C	uc003vcm.2	+	27	5737	c.5203T>C	c.(5203-5205)TCA>CCA	p.S1735P	MLL5_uc010ljc.2_Missense_Mutation_p.S1735P|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Missense_Mutation_p.S469P	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1735	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						TCATACCACATCAGCTCAAGC	0.527													62	107					0	0	0.01441	0	0		C	104753406	C	C	104753406	3	2	134	1	0	0	0	0	1	0	0	0	9642	1435	50	3	5301	3	MLL5	7	104753406	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1702469	104753406	54385257	721	73379											
MLL5	55904	broad.mit.edu	37	chr7	104753622	104753622	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaacagtattccaacacctActgcttcagggttctgtcct	10	12	6	13	0	2	0	1	0	1	0	4	0	4	0	3	1	4	3	3	1	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:104753622A>G	uc003vcm.2	+	27	5953	c.5419A>G	c.(5419-5421)ACT>GCT	p.T1807A	MLL5_uc010ljc.2_Missense_Mutation_p.T1807A|MLL5_uc010ljf.1_RNA|MLL5_uc010ljg.2_Missense_Mutation_p.T541A	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1807	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						TCCAACACCTACTGCTTCAGG	0.562													6	136					0	0	0.001168	0	0		G	104753622	G	G	104753622	3	3	134	1	0	0	0	0	1	0	0	0	9642	391	14	3	5517	3	MLL5	7	104753622	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	216	104753622	54385041	722	73380											
PNPLA8	50640	broad.mit.edu	37	chr7	108155211	108155211	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcttaatttcccctctTctacctttttatcttcaagt	8	19	3	11	0	5	1	1	0	4	1	6	2	6	1	3	0	1	0	3	0	4	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:108155211T>C	uc003vff.1	-	4	1132	c.725A>G	c.(724-726)GAA>GGA	p.E242G	PNPLA8_uc003vfg.1_RNA|PNPLA8_uc003vfh.1_Missense_Mutation_p.E242G|PNPLA8_uc003vfi.1_Missense_Mutation_p.E142G|PNPLA8_uc003vfj.1_Missense_Mutation_p.E242G|PNPLA8_uc003vfk.1_Missense_Mutation_p.E142G	NM_015723	NP_056538	Q9NP80	PLPL8_HUMAN	patatin-like phospholipase domain containing 8	242					fatty acid metabolic process|lipid catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|membrane fraction|perinuclear region of cytoplasm|peroxisomal membrane	ATP binding|calcium-independent phospholipase A2 activity|lysophospholipase activity			breast(2)	2						TTTCCCCTCTTCTACCTTTTT	0.383													8	101					0	0	0.00308	0	0		C	108155211	C	C	108155211	3	2	134	1	0	0	0	0	1	0	0	0	12190	1783	62	3	1659	3	PNPLA8	7	108155211	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3401589	108155211	50983452	723	73381											
FOXP2	93986	broad.mit.edu	37	chr7	114268597	114268597	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctttctgtgcaaggtGcctgtgtcagtggccatgat	5	16	11	9	0	3	1	1	1	2	0	4	1	3	1	2	2	2	1	2	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:114268597G>A	uc003vhb.2	+	4	635	c.261G>A	c.(259-261)GTG>GTA	p.V87V	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Silent_p.V112V|FOXP2_uc003vha.2_5'UTR|FOXP2_uc011kmu.1_Silent_p.V87V|FOXP2_uc011kmv.1_Silent_p.V87V|FOXP2_uc010ljz.1_5'UTR|FOXP2_uc003vgt.1_RNA|FOXP2_uc003vgv.1_Silent_p.V87V|FOXP2_uc003vgw.2_Silent_p.V112V|FOXP2_uc003vgx.2_Silent_p.V87V|FOXP2_uc003vhd.2_Silent_p.V87V|FOXP2_uc003vhc.2_Silent_p.V112V	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	87	Gln-rich.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						TGTGCAAGGTGCCTGTGTCAG	0.423													10	240					0	0	0.001855	0	0		A	114268597	A	A	114268597	2	1	134	1	0	0	0	0	0	0	0	1	6041	1306	46	2		2	FOXP2	7	114268597	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6113386	114268597	44870066	724	73382											
SLC13A1	6561	broad.mit.edu	37	chr7	122809232	122809232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtccgtggttggttgatcCgttgaagtaagtcatctgag	8	14	13	6	2	2	3	1	3	1	0	4	3	4	3	2	2	0	4	2	2	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:122809232C>T	uc003vkm.2	-	4	548	c.523G>A	c.(523-525)GGA>AGA	p.G175R	SLC13A1_uc010lks.2_5'UTR	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	175						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	TTGGTTGATCCGTTGAAGTAA	0.473													25	62					0	0	0.009535	0	0		T	122809232	T	T	122809232	3	4	134	1	0	0	0	0	1	0	0	0	14416	661	23	1	1312	1	SLC13A1	7	122809232	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	8540635	122809232	36329431	725	73383											
PAX4	5078	broad.mit.edu	37	chr7	127255747	127255747	+	Translation_Start_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctgtcaacgcaagctgcTttctttgagagctggctcac	8	11	11	11	1	3	1	2	1	1	1	3	2	3	1	0	2	4	6	0	2	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:127255747T>A	uc010lld.1	-	1	34	c.-172A>T	c.(-174--170)AAAGC>AATGC		PAX4_uc003vmf.2_5'Flank|PAX4_uc003vmg.1_Intron|PAX4_uc003vmh.2_5'Flank	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4						cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CGCAAGCTGCTTTCTTTGAGA	0.602													8	4					0	0	0.00308	0	0		A	127255747	A	A	127255747	1	1	134	1	0	0	0	0	0	0	0	0	11500	1624	56	5		5	PAX4	7	127255747	Translation_Start_Site	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4446515	127255747	31882916	726	73384											
SND1	27044	broad.mit.edu	37	chr7	127447559	127447559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ataagaacaagaaactgcgtCccctgtatgacattccttac	14	10	6	11	1	0	3	0	1	0	2	2	3	2	3	3	0	4	1	3	0	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:127447559C>T	uc003vmi.2	+	11	1400	c.1174C>T	c.(1174-1176)CCC>TCC	p.P392S	SND1_uc010lle.2_Missense_Mutation_p.P45S	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	392	Nuclear localization signal (Potential).|TNase-like 3.				gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						GAAACTGCGTCCCCTGTATGA	0.353													68	128					0	0	0.01441	0	0		T	127447559	T	T	127447559	3	4	134	1	0	0	0	0	1	0	0	0	14869	855	30	4	1216	4	SND1	7	127447559	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	191812	127447559	31691104	727	73385											
CCDC136	64753	broad.mit.edu	37	chr7	128452101	128452101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccagcaatgagaactgtcGcaagacttatgataccactg	13	8	8	12	1	0	3	0	2	0	2	1	4	0	3	3	0	3	2	3	0	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:128452101G>A	uc003vnv.1	+	13	2643	c.2276G>A	c.(2275-2277)CGC>CAC	p.R759H	CCDC136_uc003vnu.1_Intron|CCDC136_uc003vnw.1_Intron|CCDC136_uc003vnx.1_Missense_Mutation_p.R575H|CCDC136_uc010llq.1_Missense_Mutation_p.R128H|CCDC136_uc003vny.1_Missense_Mutation_p.R369H	NM_022742	NP_073579	Q96JN2	CC136_HUMAN	coiled-coil domain containing 136	759						integral to membrane	protein binding			ovary(2)	2						GAGAACTGTCGCAAGACTTAT	0.478													41	87					0	0	0.007835	0	0		A	128452101	A	A	128452101	3	1	134	1	0	0	0	0	1	0	0	0	2773	1087	38	1	2326	1	CCDC136	7	128452101	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1004542	128452101	30686562	728	73386											
FLNC	2318	broad.mit.edu	37	chr7	128470849	128470849	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgagcacctcaagtgcgTgggcaagcgcctgaccgacc	10	5	12	14	3	1	2	1	2	0	0	1	3	1	2	4	1	3	2	4	1	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:128470849T>C	uc003vnz.3	+	1	367	c.158T>C	c.(157-159)GTG>GCG	p.V53A	FLNC_uc003voa.3_Missense_Mutation_p.V53A	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	53	CH 1.|Actin-binding.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CTCAAGTGCGTGGGCAAGCGC	0.642													15	32					0	0	0.003163	0	0		C	128470849	C	C	128470849	3	2	134	1	0	0	0	0	1	0	0	0	5949	1696	59	3	160	3	FLNC	7	128470849	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	18748	128470849	30667814	729	73387											
PLXNA4	91584	broad.mit.edu	37	chr7	131831339	131831339	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggtccccctccttctggTctccgtgctcgtggttcttc	0	14	9	18	3	3	0	0	0	3	0	8	0	5	0	5	3	1	2	5	3	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:131831339T>C	uc003vra.3	-	28	5214	c.4985A>G	c.(4984-4986)GAC>GGC	p.D1662G	PLXNA4_uc003vqz.3_5'Flank	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1662	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CTCCTTCTGGTCTCCGTGCTC	0.587													132	315					0	0	0.01441	0	0		C	131831339	C	C	131831339	3	2	134	1	0	0	0	0	1	0	0	0	12141	1667	58	3	719	3	PLXNA4	7	131831339	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3360490	131831339	27307324	730	73388											
NUP205	23165	broad.mit.edu	37	chr7	135287555	135287555	+	Frame_Shift_Del	DEL	A	-	-																															tttatttttggttgatagggAaaaaacacctggagaaagca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:135287555delA	uc003vsw.2	+	18	2546	c.2515delA	c.(2515-2517)AAAfs	p.K839fs		NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	839					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						GTTGATAGGGAAAAAACACCT	0.328													62	118	---	---	---	---						.	-	135287555	-	-	135287555	7	5	134	1	0	1	0	1	0	0	0	0	10778	247	9	0	2585	0	NUP205	7	135287555	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	3456216	135287555	23851108	731	73389											
NUP205	23165	broad.mit.edu	37	chr7	135292023	135292023	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgccctcggacatgcctTcacgccattctaaacatctt	8	12	7	14	2	3	0	1	0	2	0	4	1	3	1	3	2	3	1	3	2	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:135292023T>C	uc003vsw.2	+	22	3130	c.3099T>C	c.(3097-3099)CTT>CTC	p.L1033L		NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1033					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						GGACATGCCTTCACGCCATTC	0.458													36	127					0	0	0.009718	0	0		C	135292023	C	C	135292023	2	2	134	1	0	0	0	0	0	0	0	1	10778	1770	62	3		3	NUP205	7	135292023	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4468	135292023	23846640	732	73390											
CHRM2	1129	broad.mit.edu	37	chr7	136700105	136700105	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattctcttctggcagttcAttgtaggggtgagaactgtg	7	14	12	8	0	3	1	1	1	2	1	4	2	3	1	1	3	1	3	1	3	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:136700105A>T	uc003vtf.1	+	4	1116	c.493A>T	c.(493-495)ATT>TTT	p.I165F	CHRM2_uc003vtg.1_Missense_Mutation_p.I165F|CHRM2_uc003vtj.1_Missense_Mutation_p.I165F|CHRM2_uc003vtk.1_Missense_Mutation_p.I165F|CHRM2_uc003vtl.1_Missense_Mutation_p.I165F|CHRM2_uc003vtm.1_Missense_Mutation_p.I165F|CHRM2_uc003vti.1_Missense_Mutation_p.I165F|CHRM2_uc003vto.1_Missense_Mutation_p.I165F|CHRM2_uc003vtn.1_Missense_Mutation_p.I165F|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	165	Extracellular (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	CTGGCAGTTCATTGTAGGGGT	0.507													61	135					0	0	0.01441	0	0		T	136700105	T	T	136700105	3	4	134	1	0	0	0	0	1	0	0	0	3380	217	8	5	495	5	CHRM2	7	136700105	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1408082	136700105	22438558	733	73391											
SVOPL	136306	broad.mit.edu	37	chr7	138312947	138312947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgatcatggtccgatagtcaGagggtgcaaacatgtggcag	11	9	14	7	1	2	2	2	1	0	1	3	3	3	2	1	3	2	2	1	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:138312947G>A	uc011kqh.1	-	10	1025	c.1025C>T	c.(1024-1026)TCT>TTT	p.S342F	SVOPL_uc003vue.2_Missense_Mutation_p.S190F	NM_001139456	NP_001132928	Q8N434	SVOPL_HUMAN	SVOP-like isoform 1	342						integral to membrane	transmembrane transporter activity				0						CCGATAGTCAGAGGGTGCAAA	0.552													48	56					0	0	0.01441	0	0		A	138312947	A	A	138312947	3	1	134	1	0	0	0	0	1	0	0	0	15449	942	33	4	477	4	SVOPL	7	138312947	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1612842	138312947	20825716	734	73392											
JHDM1D	80853	broad.mit.edu	37	chr7	139826486	139826486	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgaagtcaatgtggaaaTctgtatagctgtcttgaact	12	12	9	8	1	3	1	1	1	2	0	3	3	3	2	1	1	2	2	1	1	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:139826486T>A	uc003vvm.2	-	6	843	c.839A>T	c.(838-840)GAT>GTT	p.D280V		NM_030647	NP_085150	Q6ZMT4	KDM7_HUMAN	jumonji C domain containing histone demethylase	280	JmjC.				midbrain development|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1	Melanoma(164;0.0142)					AATGTGGAAATCTGTATAGCT	0.403													5	237					0	0	0.001168	0	0		A	139826486	A	A	139826486	3	1	134	1	0	0	0	0	1	0	0	0	7964	1435	50	5	2046	5	JHDM1D	7	139826486	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1513539	139826486	19312177	735	73393											
KIAA1147	57189	broad.mit.edu	37	chr7	141365032	141365032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctctcgatgtcagccaCgttcacgtagaagaaaggtt	11	9	11	10	3	3	2	2	0	1	2	4	3	3	2	1	2	1	4	1	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:141365032C>T	uc003vwk.2	-	6	907	c.907G>A	c.(907-909)GTG>ATG	p.V303M		NM_001080392	NP_001073861	A4D1U4	LCHN_HUMAN	hypothetical protein LOC57189	303										ovary(1)	1	Melanoma(164;0.0171)					ATGTCAGCCACGTTCACGTAG	0.597													10	17					0	0	0.010729	0	0		T	141365032	T	T	141365032	3	4	134	1	0	0	0	0	1	0	0	0	8226	536	19	1	476	1	KIAA1147	7	141365032	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1538546	141365032	17773631	736	73394											
WEE2	494551	broad.mit.edu	37	chr7	141408668	141408668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaagaaagcagggaggcttCgagccaaaccccagagaagg	16	2	14	9	1	0	3	0	0	0	3	1	6	0	4	3	3	3	2	3	3	4	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:141408668C>T	uc003vwn.2	+	1	516	c.110C>T	c.(109-111)TCG>TTG	p.S37L	FLJ40852_uc011krh.1_Intron|FLJ40852_uc010lnm.2_Intron|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028	P0C1S8	WEE2_HUMAN	WEE1 homolog 2	37					egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)					AGGGAGGCTTCGAGCCAAACC	0.468													125	231					0	0	0.01441	0	0		T	141408668	T	T	141408668	3	4	134	1	0	0	0	0	1	0	0	0	17371	893	31	1	112	1	WEE2	7	141408668	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	43636	141408668	17729995	737	73395											
OR2F2	135948	broad.mit.edu	37	chr7	143632813	143632813	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttgtgcagactgctatcaCctttcagctgcccatgtgca	7	13	8	13	0	3	1	2	0	1	1	3	1	3	1	2	0	5	4	2	0	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:143632813C>G	uc011ktv.1	+	1	488	c.488C>G	c.(487-489)ACC>AGC	p.T163S		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	163	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					ACTGCTATCACCTTTCAGCTG	0.522													50	84					0	0	0.01441	0	0		G	143632813	G	G	143632813	3	3	134	1	0	0	0	0	1	0	0	0	11016	507	18	5	490	5	OR2F2	7	143632813	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2224145	143632813	15505850	738	73396											
CUL1	8454	broad.mit.edu	37	chr7	148464776	148464776	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggagaattgaaaaaactgTtggagacacacattcataat	18	10	8	5	0	1	3	1	1	0	2	1	5	1	3	0	2	1	1	0	2	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:148464776T>G	uc010lpg.2	+	9	1544	c.1018T>G	c.(1018-1020)TTG>GTG	p.L340V	CUL1_uc003wey.2_Missense_Mutation_p.L340V|CUL1_uc003wez.2_Missense_Mutation_p.L230V	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	340					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GAAAAAACTGTTGGAGACACA	0.393													66	135					0	0	0.01441	0	0		G	148464776	G	G	148464776	3	3	134	1	0	0	0	0	1	0	0	0	4057	1722	60	5	1048	5	CUL1	7	148464776	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4831963	148464776	10673887	739	73397											
ABP1	26	broad.mit.edu	37	chr7	150554663	150554663	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacacctgcaggcatgcagAccaagtacctcgatgtcggc	11	6	10	14	2	0	1	0	0	0	1	2	2	0	1	3	2	3	4	3	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:150554663A>G	uc003why.1	+	3	5323	c.1105A>G	c.(1105-1107)ACC>GCC	p.T369A	ABP1_uc003whz.1_Missense_Mutation_p.T369A|ABP1_uc003wia.1_Missense_Mutation_p.T369A	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	369					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	AGGCATGCAGACCAAGTACCT	0.622													52	81					0	0	0.01441	0	0		G	150554663	G	G	150554663	3	3	134	1	0	0	0	0	1	0	0	0	98	275	10	3	1107	3	ABP1	7	150554663	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2089887	150554663	8584000	740	73398											
ACCN3	9311	broad.mit.edu	37	chr7	150747861	150747861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctgagcttcctgccacCgccctggggcgattgcagtt	6	9	12	14	2	0	1	0	1	0	0	1	2	1	1	4	2	4	4	4	2	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:150747861C>T	uc003win.2	+	4	1198	c.830C>T	c.(829-831)CCG>CTG	p.P277L	ACCN3_uc003wio.2_Missense_Mutation_p.P277L|ACCN3_uc003wip.2_Missense_Mutation_p.P277L|ACCN3_uc003wiq.2_RNA	NM_004769	NP_004760	Q9UHC3	ACCN3_HUMAN	amiloride-sensitive cation channel 3 isoform a	277	Extracellular (Potential).				sensory perception|signal transduction	cytoplasm|integral to plasma membrane	ligand-gated sodium channel activity	p.P277S(1)		ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TTCCTGCCACCGCCCTGGGGC	0.557													24	51					0	0	0.008361	0	0		T	150747861	T	T	150747861	3	4	134	1	0	0	0	0	1	0	0	0	130	652	23	1	844	1	ACCN3	7	150747861	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	193198	150747861	8390802	741	73399											
MLL3	58508	broad.mit.edu	37	chr7	151891595	151891595	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcacttaatggtcgtgaActctgattgacatttggctg	8	16	9	8	1	3	3	1	3	2	0	4	3	3	3	0	2	1	1	0	2	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:151891595A>G	uc003wla.2	-	29	4656	c.4437T>C	c.(4435-4437)AGT>AGC	p.S1479S	MLL3_uc003wkz.2_Silent_p.S540S	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1479					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ATGGTCGTGAACTCTGATTGA	0.393			N		medulloblastoma								57	91					0	0	0.01441	0	0		G	151891595	G	G	151891595	2	3	134	1	0	0	0	0	0	0	0	1	9640	40	2	3		3	MLL3	7	151891595	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1143734	151891595	7247068	742	73400											
MLL3	58508	broad.mit.edu	37	chr7	151945528	151945530	+	In_Frame_Del	DEL	TGC	-	-																															ctaacaactgcagttgttctTgctgcacagtgatctggtgt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:151945528_151945530delTGC	uc003wla.2	-	14	2208_2210	c.1989_1991delGCA	c.(1987-1992)CAGCAA>CAA	p.663_664QQ>Q		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	663_664	Potential.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CAGTTGTTCTTGCTGCACAGTGA	0.404			N		medulloblastoma								53	105	---	---	---	---						.	-	151945530	-	-	151945528	7	5	134	1	0	1	0	1	0	0	0	0	9640	1812	63	0	12928	0	MLL3	7	151945528	In_Frame_Del	DEL	TGC	TCGA-CG-4442-01A-01D-1158-08	53933	151945528	7193135	743	73401											
HTR5A	3361	broad.mit.edu	37	chr7	154863162	154863162	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttggctggggagagacgTactctgagggcagcgaggag	8	9	18	6	2	1	2	0	1	1	1	1	6	1	4	0	5	2	3	0	5	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:154863162T>C	uc003wlu.1	+	1	617	c.553T>C	c.(553-555)TAC>CAC	p.Y185H	uc011kvt.1_5'UTR|uc003wlt.2_5'UTR	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	185	Extracellular (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		GGGAGAGACGTACTCTGAGGG	0.632													22	38					0	0	0.004656	0	0		C	154863162	C	C	154863162	3	2	134	1	0	0	0	0	1	0	0	0	7466	1638	57	3	555	3	HTR5A	7	154863162	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2917634	154863162	4275501	744	73402											
NOM1	64434	broad.mit.edu	37	chr7	156745292	156745292	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaaaggtctacttaacaGgtgaccttgtagtgttgtta	11	15	10	5	0	1	1	0	1	1	0	1	1	1	1	1	2	2	4	1	2	6	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:156745292G>T	uc003wmy.2	+	2	1127	c.1112G>T	c.(1111-1113)AGG>ATG	p.R371M		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	371	MIF4G.				RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		CTACTTAACAGGTGACCTTGT	0.413													36	86					1.36161e-19	1.55834e-19	0.004289	1	0		T	156745292	T	T	156745292	3	4	134	1	0	0	0	0	1	0	0	0	10549	1014	35	5	1118	5	NOM1	7	156745292	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1882130	156745292	2393371	745	73403											
WDR60	55112	broad.mit.edu	37	chr7	158711457	158711457	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgttttgctggaagaggaTcgcttggcagctgaacccag	8	9	14	10	2	0	2	0	1	0	1	1	4	0	4	2	3	3	5	2	3	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr7:158711457T>C	uc003woe.3	+	15	1976	c.1818T>C	c.(1816-1818)GAT>GAC	p.D606D	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Silent_p.D238D	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	606										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		TGGAAGAGGATCGCTTGGCAG	0.428													45	97					0	0	0.01441	0	0		C	158711457	C	C	158711457	2	2	134	1	0	0	0	0	0	0	0	1	17337	1432	50	3		3	WDR60	7	158711457	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1966165	158711457	427206	746	73404											
ZNF596	169270	broad.mit.edu	37	chr8	195403	195403	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgcccttagaccacacAgtgtgactcacactagagag	12	8	8	13	0	2	3	1	1	1	2	2	4	2	3	2	0	1	0	2	0	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:195403A>C	uc003wot.2	+	6	844	c.556A>C	c.(556-558)AGT>CGT	p.S186R	ZNF596_uc003wou.2_Missense_Mutation_p.S85R|ZNF596_uc003wov.2_Missense_Mutation_p.S186R|ZNF596_uc003wow.2_Missense_Mutation_p.S186R	NM_173539	NP_775810	Q8TC21	ZN596_HUMAN	zinc finger protein 596	186					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(2;4.81e-29)|all_epithelial(2;5.03e-19)|Lung NSC(2;8.68e-08)|all_lung(2;1.52e-07)|Ovarian(12;0.00965)|Colorectal(14;0.0367)|all_neural(12;0.0837)|Myeloproliferative disorder(644;0.116)|all_hematologic(2;0.138)|Acute lymphoblastic leukemia(644;0.242)		Epithelial(5;3.77e-18)|all cancers(2;5.2e-17)|OV - Ovarian serous cystadenocarcinoma(5;5.37e-09)|BRCA - Breast invasive adenocarcinoma(11;1.7e-06)|Colorectal(2;6.51e-05)|READ - Rectum adenocarcinoma(2;0.0276)|COAD - Colon adenocarcinoma(149;0.0702)		TAGACCACACAGTGTGACTCA	0.378													57	146					0	0	0.01441	0	0		C	195403	C	C	195403	3	2	134	1	0	0	0	0	1	0	0	0	18051	188	7	5	574	5	ZNF596	8	195403	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08		195403	146168619	747	73405											
DLGAP2	9228	broad.mit.edu	37	chr8	1649527	1649527	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aattccgcctccgagcgcgcGgacagcatcgagatctacat	10	7	10	14	6	1	1	0	0	1	1	4	4	3	2	3	1	3	1	3	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:1649527G>A	uc003wpl.2	+	12	2980	c.2883G>A	c.(2881-2883)GCG>GCA	p.A961A	DLGAP2_uc003wpm.2_Silent_p.A947A	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	1040					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		CCGAGCGCGCGGACAGCATCG	0.701													6	12					0	0	0.001984	0	0		A	1649527	A	A	1649527	2	1	134	1	0	0	0	0	0	0	0	1	4566	1103	39	1		1	DLGAP2	8	1649527	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1454124	1649527	144714495	748	73406											
MYOM2	9172	broad.mit.edu	37	chr8	2044108	2044108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgtcccgtcccatccttatgGgattacgctcctcaactgtg	6	12	8	15	3	1	0	1	0	0	0	5	1	5	1	4	1	2	1	4	1	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:2044108G>A	uc003wpx.3	+	18	2285	c.2147G>A	c.(2146-2148)GGG>GAG	p.G716E	MYOM2_uc011kwi.1_Missense_Mutation_p.G141E	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	716	Fibronectin type-III 4.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CATCCTTATGGGATTACGCTC	0.617													79	234					0	0	0.01441	0	0		A	2044108	A	A	2044108	3	1	134	1	0	0	0	0	1	0	0	0	10110	1232	43	4	2213	4	MYOM2	8	2044108	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	394581	2044108	144319914	749	73407											
MFHAS1	9258	broad.mit.edu	37	chr8	8749149	8749149	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagctaagtcatacacgaTgaaccgcaggccccgggagg	11	4	12	14	3	1	1	1	1	0	0	1	3	1	2	4	3	3	2	4	3	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:8749149T>C	uc003wsj.1	-	1	1983	c.1420A>G	c.(1420-1422)ATC>GTC	p.I474V		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	474	Roc.										0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		TCATACACGATGAACCGCAGG	0.602													46	135					0	0	0.01441	0	0		C	8749149	C	C	8749149	3	2	134	1	0	0	0	0	1	0	0	0	9539	1464	51	3	1750	3	MFHAS1	8	8749149	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	6705041	8749149	137614873	750	73408											
FAM86B2	653333	broad.mit.edu	37	chr8	12291578	12291578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccttctgcaaaatatcccGcagcagctcagaatctgatg	12	10	7	12	1	3	2	1	1	2	1	4	2	4	2	2	0	4	4	2	0	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:12291578G>A	uc003wvt.3	-	2	142	c.142C>T	c.(142-144)CGG>TGG	p.R48W	FAM66D_uc011kxp.1_Intron|uc003wvm.1_Intron|FAM86B2_uc003wvq.3_RNA|FAM86B2_uc003wvr.3_5'UTR|FAM86B2_uc003wvs.3_5'UTR|FAM86B2_uc010lsn.2_RNA|FAM86B2_uc003wvu.3_5'UTR|FAM86B2_uc010lso.2_RNA|FAM86B2_uc011kxt.1_Intron|FAM86B2_uc011kxu.1_RNA|FAM86B2_uc010lsl.2_RNA	NM_001137610	NP_001131082	P0C5J1	F86B2_HUMAN	hypothetical protein LOC653333	48											0						AAAATATCCCGCAGCAGCTCA	0.498													22	119					0	0	0.011902	0	0		A	12291578	A	A	12291578	3	1	134	1	0	0	0	0	1	0	0	0	5659	1086	38	1	878	1	FAM86B2	8	12291578	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3542429	12291578	134072444	751	73409											
PSD3	23362	broad.mit.edu	37	chr8	18729499	18729499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtttgacccggcctgggCgtcccatggagctgcttcga	5	10	13	13	3	0	1	0	1	0	0	2	3	1	2	3	3	2	3	3	3	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:18729499C>T	uc003wza.2	-	3	978	c.875G>A	c.(874-876)CGC>CAC	p.R292H		NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	292					regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		CCGGCCTGGGCGTCCCATGGA	0.527													56	176					0	0	0.01441	0	0		T	18729499	T	T	18729499	3	4	134	1	0	0	0	0	1	0	0	0	12670	768	27	1	2360	1	PSD3	8	18729499	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	6437921	18729499	127634523	752	73410											
LZTS1	11178	broad.mit.edu	37	chr8	20110461	20110461	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaggtgcaggacctgctgCgcgcgctggctcttctgcga	4	9	15	13	4	2	0	0	0	2	0	2	2	2	1	1	3	5	5	1	3	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:20110461C>T	uc003wzr.2	-	2	1092	c.981G>A	c.(979-981)GCG>GCA	p.A327A	LZTS1_uc010ltg.1_Silent_p.A327A	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	327	Potential.				cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		GGACCTGCTGCGCGCGCTGGC	0.677													18	65					0	0	0.014323	0	0		T	20110461	T	T	20110461	2	4	134	1	0	0	0	0	0	0	0	1	9156	755	27	1		1	LZTS1	8	20110461	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1380962	20110461	126253561	753	73411											
LZTS1	11178	broad.mit.edu	37	chr8	20110845	20110845	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacggcttgtgggtcccacGggtgtgaccagcgggtccag	7	7	16	11	3	0	1	0	1	0	0	2	1	2	1	3	4	2	1	3	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:20110845G>T	uc003wzr.2	-	2	708	c.597C>A	c.(595-597)CCC>CCA	p.P199P	LZTS1_uc010ltg.1_Silent_p.P199P	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	199					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		TGGGTCCCACGGGTGTGACCA	0.632													13	61					1.55469e-16	1.76129e-16	0.00333	1	0		T	20110845	T	T	20110845	2	4	134	1	0	0	0	0	0	0	0	1	9156	1103	39	5		5	LZTS1	8	20110845	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	384	20110845	126253177	754	73412											
XPO7	23039	broad.mit.edu	37	chr8	21835279	21835279	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgtctttttcttccccAgccttcttagattcttcaac	5	20	3	13	0	5	1	1	0	4	1	6	1	6	1	3	0	2	0	3	0	2	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:21835279A>G	uc003xaa.3	+	8	866	c.764_splice	c.e8-2	p.A255_splice	XPO7_uc010lti.2_Splice_Site_p.A264_splice|XPO7_uc010ltk.2_Splice_Site_p.A256_splice	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b						mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		TTTCTTCCCCAGCCTTCTTAG	0.428													19	67					0	0	0.008871	0	0		G	21835279	G	G	21835279	5	3	134	1	0	0	0	0	0	0	1	0	17475	202	7	3	844	3	XPO7	8	21835279	Splice_Site	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1724434	21835279	124528743	755	73413											
XPO7	23039	broad.mit.edu	37	chr8	21846547	21846547	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtactggggccgttgtgaAccaatcacctccaagacact	12	8	9	12	1	1	2	1	1	0	1	2	2	2	2	4	2	2	2	4	2	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:21846547A>G	uc003xaa.3	+	16	1923	c.1821A>G	c.(1819-1821)GAA>GAG	p.E607E	XPO7_uc010lti.2_Silent_p.E616E|XPO7_uc010ltk.2_Silent_p.E608E	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	607					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		GCCGTTGTGAACCAATCACCT	0.458													21	65					0	0	0.014323	0	0		G	21846547	G	G	21846547	2	3	134	1	0	0	0	0	0	0	0	1	17475	40	2	3		3	XPO7	8	21846547	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	11268	21846547	124517475	756	73414											
HR	55806	broad.mit.edu	37	chr8	21973915	21973915	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaggaagtgctgagtgacGctgactgtgctcaccaggcc	9	7	15	10	1	1	4	1	3	0	1	1	6	1	5	2	2	2	3	2	2	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:21973915G>A	uc003xas.2	-	18	4070	c.3405C>T	c.(3403-3405)AGC>AGT	p.S1135S	HR_uc003xat.2_Silent_p.S1080S	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	1135	JmjC.						DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		GCTGAGTGACGCTGACTGTGC	0.627													11	46					0	0	0.013537	0	0		A	21973915	A	A	21973915	2	1	134	1	0	0	0	0	0	0	0	1	7363	1078	38	1		1	HR	8	21973915	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	127368	21973915	124390107	757	73415											
TNFRSF10A	8797	broad.mit.edu	37	chr8	23058108	23058108	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcacccatatattatgtcCattgcctgagaaaagacagg	15	10	7	9	0	1	2	1	1	0	2	2	3	2	2	3	1	1	0	3	1	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:23058108C>A	uc003xda.2	-	6	774	c.709G>T	c.(709-711)GGA>TGA	p.G237*		NM_003844	NP_003835	O00220	TR10A_HUMAN	tumor necrosis factor receptor superfamily,	237	Extracellular (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors		caspase activator activity|death receptor activity|TRAIL binding|transcription factor binding			central_nervous_system(3)|ovary(2)|skin(1)	6		Prostate(55;0.0421)|Breast(100;0.14)		Colorectal(74;0.016)|COAD - Colon adenocarcinoma(73;0.0646)		ATATTATGTCCATTGCCTGAG	0.512													43	101					1.07121e-22	1.23724e-22	0.006999	1	0		A	23058108	A	A	23058108	4	1	134	1	0	0	0	0	0	1	0	0	16305	603	21	5	717	5	TNFRSF10A	8	23058108	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1084193	23058108	123305914	758	73416											
ADAM7	8756	broad.mit.edu	37	chr8	24323272	24323272	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcagctgccagtatcagtAcgtgtaatggtctaaggtaa	12	12	10	7	1	3	0	2	0	1	0	3	0	3	0	1	2	3	5	1	2	5	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:24323272A>G	uc003xeb.2	+	5	486	c.373A>G	c.(373-375)ACG>GCG	p.T125A	ADAM7_uc003xea.1_Missense_Mutation_p.T125A	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	125	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		CAGTATCAGTACGTGTAATGG	0.299													16	98					0	0	0.00278	0	0		G	24323272	G	G	24323272	3	3	134	1	0	0	0	0	1	0	0	0	251	391	14	3	391	3	ADAM7	8	24323272	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1265164	24323272	122040750	759	73417											
DOCK5	80005	broad.mit.edu	37	chr8	25154129	25154129	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggcccatgaggtggccTccaaaaggattgaggaaaag	14	6	13	8	0	1	2	1	2	0	0	2	4	2	4	3	5	0	0	3	5	5	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:25154129T>C	uc003xeg.2	+	7	708	c.571T>C	c.(571-573)TCC>CCC	p.S191P	DOCK5_uc010luf.1_RNA|DOCK5_uc003xeh.1_5'UTR|DOCK5_uc003xef.2_Missense_Mutation_p.S191P	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	191						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		TGAGGTGGCCTCCAAAAGGAT	0.468													5	32					0	0	0.001168	0	0		C	25154129	C	C	25154129	3	2	134	1	0	0	0	0	1	0	0	0	4696	1551	54	3	597	3	DOCK5	8	25154129	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	830857	25154129	121209893	760	73418											
GNRH1	2796	broad.mit.edu	37	chr8	25280721	25280721	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctcttggaaagaatcAatcaaattttcggcatctct	12	14	5	10	1	4	1	2	0	2	1	6	2	4	2	1	2	1	1	1	2	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:25280721A>G	uc003xem.3	-	2	967	c.126T>C	c.(124-126)ATT>ATC	p.I42I	PPP2R2A_uc003xek.2_Intron|GNRH1_uc003xen.3_Silent_p.I42I	NM_001083111	NP_001076580	P01148	GON1_HUMAN	gonadotropin-releasing hormone 1 precursor	42					cell-cell signaling|multicellular organismal development|negative regulation of cell proliferation|signal transduction	soluble fraction	gonadotropin hormone-releasing hormone activity			large_intestine(1)	1		all_cancers(63;0.0423)|Ovarian(32;0.000626)|all_epithelial(46;0.0186)|Hepatocellular(4;0.114)|Breast(100;0.14)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0201)|Epithelial(17;1.25e-12)|Colorectal(74;0.0113)|COAD - Colon adenocarcinoma(73;0.0385)		GGAAAGAATCAATCAAATTTT	0.423													58	202					0	0	0.01441	0	0		G	25280721	G	G	25280721	2	3	134	1	0	0	0	0	0	0	0	1	6562	126	5	3		3	GNRH1	8	25280721	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	126592	25280721	121083301	761	73419											
CDCA2	157313	broad.mit.edu	37	chr8	25364904	25364904	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacgaaggtcttgtatggAtttcacttccacttccttcc	10	14	6	11	1	2	0	1	0	1	0	5	2	5	1	3	2	1	1	3	2	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:25364904A>G	uc003xep.1	+	15	3201	c.2722A>G	c.(2722-2724)ATT>GTT	p.I908V	PPP2R2A_uc003xek.2_Intron|CDCA2_uc011lae.1_3'UTR|CDCA2_uc003xeq.1_Missense_Mutation_p.I893V|CDCA2_uc003xer.1_Missense_Mutation_p.I571V	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	908					cell division|mitosis	cytoplasm|nucleus					0		all_cancers(63;0.0378)|Ovarian(32;0.000878)|all_epithelial(46;0.0162)|Breast(100;0.0164)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.022)|Epithelial(17;1.37e-11)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0443)		TCTTGTATGGATTTCACTTCC	0.403													104	428					0	0	0.01441	0	0		G	25364904	G	G	25364904	3	3	134	1	0	0	0	0	1	0	0	0	3089	333	12	3	2776	3	CDCA2	8	25364904	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	84183	25364904	120999118	762	73420											
PTK2B	2185	broad.mit.edu	37	chr8	27287640	27287640	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatatgccccacaatgcActtgacaagaagtccaactt	15	8	7	11	0	0	2	0	1	0	1	1	3	1	3	3	1	3	1	3	1	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:27287640A>G	uc003xfn.1	+	11	1390	c.582A>G	c.(580-582)GCA>GCG	p.A194A	PTK2B_uc003xfo.1_Silent_p.A194A|PTK2B_uc003xfp.1_Silent_p.A194A|PTK2B_uc003xfq.1_Silent_p.A194A|PTK2B_uc010luq.1_5'Flank|PTK2B_uc003xfr.1_5'Flank	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	194	FERM.				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		CCCACAATGCACTTGACAAGA	0.537													216	552					0	0	0.01441	0	0		G	27287640	G	G	27287640	2	3	134	1	0	0	0	0	0	0	0	1	12786	146	6	3		3	PTK2B	8	27287640	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1922736	27287640	119076382	763	73421											
EXTL3	2137	broad.mit.edu	37	chr8	28575031	28575031	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgaggcggccctggtggtGccaaagcctcgtgttaccga	8	7	14	12	4	0	0	0	0	0	0	1	2	0	0	4	4	4	1	4	4	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:28575031G>A	uc003xgz.1	+	3	2048	c.1455G>A	c.(1453-1455)GTG>GTA	p.V485V		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	485	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		CCCTGGTGGTGCCAAAGCCTC	0.617													35	115					0	0	0.003755	0	0		A	28575031	A	A	28575031	2	1	134	1	0	0	0	0	0	0	0	1	5335	1306	46	2		2	EXTL3	8	28575031	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1287391	28575031	117788991	764	73422											
KIF13B	23303	broad.mit.edu	37	chr8	28929788	28929788	+	Frame_Shift_Del	DEL	C	-	-																															gcagatcttcaaggccggggCccccatcgtctgcaccagca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:28929788delC	uc003xhh.3	-	39	4626	c.4567delG	c.(4567-4569)GCCfs	p.A1523fs	KIF13B_uc011laz.1_Frame_Shift_Del_p.A42fs	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1523					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		AAGGCCGGGGCCCCCATCGTC	0.637													8	15	---	---	---	---						.	-	28929788	-	-	28929788	7	5	134	1	0	1	0	1	0	0	0	0	8291	739	26	0	921	0	KIF13B	8	28929788	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	354757	28929788	117434234	765	73423											
TEX15	56154	broad.mit.edu	37	chr8	30702068	30702068	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgattcttttgatttttgTactcagtattaacagttgat	9	21	6	5	0	3	3	1	3	2	0	3	3	3	3	0	0	2	3	0	0	3	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:30702068T>G	uc003xil.2	-	1	4466	c.4466A>C	c.(4465-4467)TAC>TCC	p.Y1489S		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1489										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TTGATTTTTGTACTCAGTATT	0.333													5	306					0	0	0.001984	0	0		G	30702068	G	G	30702068	3	3	134	1	0	0	0	0	1	0	0	0	15804	1638	57	5	3919	5	TEX15	8	30702068	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1772280	30702068	115661954	766	73424											
WHSC1L1	54904	broad.mit.edu	37	chr8	38205098	38205098	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgcttgttgcttttttTcctcttttcttttctgcttt	1	26	5	9	0	4	0	1	0	3	0	5	0	5	0	1	0	3	4	1	0	0	10			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:38205098T>C	uc003xli.2	-	2	1110	c.592A>G	c.(592-594)AAA>GAA	p.K198E	WHSC1L1_uc011lbm.1_Missense_Mutation_p.K198E|WHSC1L1_uc010lwe.2_Missense_Mutation_p.K198E|WHSC1L1_uc003xlj.2_Missense_Mutation_p.K198E	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	198					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			TTGCTTTTTTTCCTCTTTTCT	0.393			T	NUP98	AML								80	381					0	0	0.01441	0	0		C	38205098	C	C	38205098	3	2	134	1	0	0	0	0	1	0	0	0	17389	1792	62	3	3900	3	WHSC1L1	8	38205098	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	7503030	38205098	108158924	767	73425											
PRKDC	5591	broad.mit.edu	37	chr8	48740750	48740750	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatacaagagacaaagggTggaaagaaagagaaggtggt	19	5	15	2	0	0	4	0	1	0	3	0	7	0	5	0	4	1	0	0	4	7	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:48740750T>C	uc003xqi.2	-	63	8613	c.8556A>G	c.(8554-8556)CCA>CCG	p.P2852P	PRKDC_uc003xqj.2_Silent_p.P2852P|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2852	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AGACAAAGGGTGGAAAGAAAG	0.368								NHEJ					21	62					0	0	0.00278	0	0		C	48740750	C	C	48740750	2	2	134	1	0	0	0	0	0	0	0	1	12543	1683	59	3		3	PRKDC	8	48740750	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	10535652	48740750	97623272	768	73426											
PRKDC	5591	broad.mit.edu	37	chr8	48761849	48761849	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattttggcagcagaaagaaCacagcattcatgaacctggc	15	8	9	9	0	1	3	1	1	0	2	1	3	1	3	1	2	4	3	1	2	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:48761849C>T	uc003xqi.2	-	55	7203	c.7146G>A	c.(7144-7146)GTG>GTA	p.V2382V	PRKDC_uc003xqj.2_Silent_p.V2382V|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2382					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				GCAGAAAGAACACAGCATTCA	0.527								NHEJ					71	243					0	0	0.01441	0	0		T	48761849	T	T	48761849	2	4	134	1	0	0	0	0	0	0	0	1	12543	465	17	4		4	PRKDC	8	48761849	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	21099	48761849	97602173	769	73427											
MCM4	4173	broad.mit.edu	37	chr8	48888391	48888391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaactttttgaagatattCggggacaatctgacatagta	14	12	9	6	1	1	3	0	2	1	1	2	4	1	4	0	2	2	2	0	2	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:48888391C>T	uc003xqk.1	+	16	2577	c.2482C>T	c.(2482-2484)CGG>TGG	p.R828W	MCM4_uc003xql.1_Missense_Mutation_p.R828W|MCM4_uc011ldi.1_Missense_Mutation_p.R815W	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	828					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				TGAAGATATTCGGGGACAATC	0.308													19	87					0	0	0.010504	0	0		T	48888391	T	T	48888391	3	4	134	1	0	0	0	0	1	0	0	0	9407	875	31	1	2540	1	MCM4	8	48888391	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	126542	48888391	97475631	770	73428											
ST18	9705	broad.mit.edu	37	chr8	53126792	53126792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttagagcgagtacgcagcGttttatcttcagcctctgca	8	13	9	11	3	3	1	1	0	2	1	3	2	3	1	1	0	5	4	1	0	3	6	rs145495470		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:53126792G>A	uc003xqz.2	-	2	182	c.26C>T	c.(25-27)ACG>ATG	p.T9M	ST18_uc011ldq.1_Translation_Start_Site|ST18_uc011ldr.1_Translation_Start_Site|ST18_uc011lds.1_Translation_Start_Site|ST18_uc003xra.2_Missense_Mutation_p.T9M|ST18_uc003xrb.2_Missense_Mutation_p.T9M|ST18_uc010lyb.2_RNA	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	9						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				AGTACGCAGCGTTTTATCTTC	0.428													53	166					0	0	0.01441	0	0		A	53126792	A	A	53126792	3	1	134	1	0	0	0	0	1	0	0	0	15237	1145	40	1	3197	1	ST18	8	53126792	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4238401	53126792	93237230	771	73429											
RB1CC1	9821	broad.mit.edu	37	chr8	53569170	53569170	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttccagcaaaatttttatTtcatcagtttctgcttcctt	8	20	3	10	0	4	0	2	0	2	0	6	0	6	0	2	0	2	3	2	0	3	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:53569170T>C	uc003xre.3	-	15	3777	c.3219A>G	c.(3217-3219)GAA>GAG	p.E1073E	RB1CC1_uc003xrf.3_Silent_p.E1073E	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	1073	Potential.				autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				AAATTTTTATTTCATCAGTTT	0.368													29	135					0	0	0.00632	0	0		C	53569170	C	C	53569170	2	2	134	1	0	0	0	0	0	0	0	1	13124	1838	64	3		3	RB1CC1	8	53569170	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	442378	53569170	92794852	772	73430											
TGS1	96764	broad.mit.edu	37	chr8	56699432	56699432	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatggaattagtaacataaaActgaattcagaggaagtaac	19	9	9	4	0	1	2	1	1	0	1	1	5	1	4	0	2	3	2	0	2	8	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:56699432A>G	uc003xsj.3	+	4	1362	c.975A>G	c.(973-975)AAA>AAG	p.K325K	TGS1_uc010lyh.2_Silent_p.K229K	NM_024831	NP_079107	Q96RS0	TGS1_HUMAN	trimethylguanosine synthase homolog	325					cellular lipid metabolic process|ncRNA metabolic process|regulation of transcription, DNA-dependent|RNA capping|spliceosomal snRNP assembly|transcription, DNA-dependent	Cajal body|cytosol	RNA trimethylguanosine synthase activity			ovary(1)|lung(1)|breast(1)	3		all_lung(136;0.119)|all_epithelial(80;0.125)|Lung NSC(129;0.147)	Epithelial(17;0.00027)|all cancers(17;0.00251)			GTAACATAAAACTGAATTCAG	0.363													5	163					0	0	0.001168	0	0		G	56699432	G	G	56699432	2	3	134	1	0	0	0	0	0	0	0	1	15862	40	2	3		3	TGS1	8	56699432	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3130262	56699432	89664590	773	73431											
FAM110B	90362	broad.mit.edu	37	chr8	59059811	59059811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caatgaccgcgtgccgtatgGcatttctgccatcgaaagaa	11	9	10	11	4	1	2	0	1	1	1	2	3	1	2	3	1	2	2	3	1	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:59059811G>A	uc003xtj.1	+	5	1902	c.1022G>A	c.(1021-1023)GGC>GAC	p.G341D		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	341						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				GTGCCGTATGGCATTTCTGCC	0.468													17	57					0	0	0.006122	0	0		A	59059811	A	A	59059811	3	1	134	1	0	0	0	0	1	0	0	0	5408	1203	42	2	1024	2	FAM110B	8	59059811	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2360379	59059811	87304211	774	73432											
NSMAF	8439	broad.mit.edu	37	chr8	59502072	59502072	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgccaacagatcttactaAcagcatcatcatgtcccatt	13	11	4	13	0	3	1	2	0	1	1	4	1	4	1	2	0	5	1	2	0	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:59502072A>G	uc003xtt.2	-	26	2364	c.2150T>C	c.(2149-2151)GTT>GCT	p.V717A	NSMAF_uc011lee.1_Missense_Mutation_p.V748A	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	717	WD 3.				ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				GATCTTACTAACAGCATCATC	0.368													6	205					0	0	0.001984	0	0		G	59502072	G	G	59502072	3	3	134	1	0	0	0	0	1	0	0	0	10693	43	2	3	627	3	NSMAF	8	59502072	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	442261	59502072	86861950	775	73433											
NSMAF	8439	broad.mit.edu	37	chr8	59502620	59502620	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catctcctggtaaaagtaaaCaagacgataaagcctgaaat	18	8	7	8	1	1	2	0	1	1	1	2	3	1	2	2	1	2	2	2	1	8	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:59502620C>A	uc003xtt.2	-	25	2247	c.2033G>T	c.(2032-2034)TGT>TTT	p.C678F	NSMAF_uc011lee.1_Missense_Mutation_p.C709F	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	678	WD 2.				ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				TAAAAGTAAACAAGACGATAA	0.353													7	87					1.62849e-17	1.85114e-17	0.004007	1	0		A	59502620	A	A	59502620	3	1	134	1	0	0	0	0	1	0	0	0	10693	478	17	5	748	5	NSMAF	8	59502620	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	548	59502620	86861402	776	73434											
TOX	9760	broad.mit.edu	37	chr8	59739434	59739434	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttcaggtactccttctTcgcagcctcggttttctttt	3	19	7	12	2	3	0	1	0	2	0	6	0	4	0	2	2	3	4	2	2	1	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:59739434T>C	uc003xtw.1	-	6	1173	c.952A>G	c.(952-954)AAG>GAG	p.K318E		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	318	HMG box.					nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				TACTCCTTCTTCGCAGCCTCG	0.423													17	54					0	0	0.008871	0	0		C	59739434	C	C	59739434	3	2	134	1	0	0	0	0	1	0	0	0	16403	1792	62	3	644	3	TOX	8	59739434	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	236814	59739434	86624588	777	73435											
CHD7	55636	broad.mit.edu	37	chr8	61654743	61654743	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggcaccttccttgcgtcActcggtgcagcagttccatc	6	11	9	15	2	1	0	1	0	0	0	5	0	3	0	3	2	3	4	3	2	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:61654743A>G	uc003xue.2	+	2	1229	c.752A>G	c.(751-753)CAC>CGC	p.H251R		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	251					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			TCCTTGCGTCACTCGGTGCAG	0.587													8	339					0	0	0.010729	0	0		G	61654743	G	G	61654743	3	3	134	1	0	0	0	0	1	0	0	0	3333	159	6	3	754	3	CHD7	8	61654743	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1915309	61654743	84709279	778	73436											
CHD7	55636	broad.mit.edu	37	chr8	61778454	61778454	+	Frame_Shift_Del	DEL	G	-	-																															aagagctagactcacttgatGggggggatgaaatagaaaac																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:61778454delG	uc003xue.2	+	38	9433	c.8956delG	c.(8956-8958)GGGfs	p.G2986fs		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2986					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			CTCACTTGATGGGGGGGATGA	0.443													13	23	---	---	---	---						.	-	61778454	-	-	61778454	7	5	134	1	0	1	0	1	0	0	0	0	3333	1348	47	0	9102	0	CHD7	8	61778454	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	123711	61778454	84585568	779	73437											
BHLHE22	27319	broad.mit.edu	37	chr8	65494211	65494211	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagatcgccacgctgctgctCgccaagaactacatcctcat	11	8	7	15	3	1	2	1	0	0	2	4	2	2	2	3	0	4	3	3	0	4	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:65494211C>T	uc003xvi.2	+	1	1398	c.864C>T	c.(862-864)CTC>CTT	p.L288L	LOC401463_uc003xvh.2_Intron	NM_152414	NP_689627	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix domain containing, class	288	Helix-loop-helix motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						CGCTGCTGCTCGCCAAGAACT	0.667													13	45					0	0	0.00245	0	0		T	65494211	T	T	65494211	2	4	134	1	0	0	0	0	0	0	0	1	1422	871	31	1		1	BHLHE22	8	65494211	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3715757	65494211	80869811	780	73438											
RRS1	23212	broad.mit.edu	37	chr8	67341501	67341501	+	Frame_Shift_Del	DEL	C	-	-																															ctgctggcgtcggaccggaaCcccccgaccgggctgcggtg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:67341501delC	uc003xwa.2	+	1	239	c.135delC	c.(133-135)AACfs	p.N45fs		NM_015169	NP_055984	Q15050	RRS1_HUMAN	homolog of yeast ribosome biogenesis regulatory	45					mitotic metaphase plate congression|ribosome biogenesis	condensed nuclear chromosome|nucleolus					0		Lung NSC(129;0.197)	Epithelial(68;0.0391)|all cancers(69;0.0898)|BRCA - Breast invasive adenocarcinoma(89;0.111)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			CGGACCGGAACCCCCCGACCG	0.672											OREG0018806	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	17	---	---	---	---						.	-	67341501	-	-	67341501	7	5	134	1	0	1	0	1	0	0	0	0	13717	506	18	0	137	0	RRS1	8	67341501	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	1847290	67341501	79022521	781	73439											
C8orf46	254778	broad.mit.edu	37	chr8	67405952	67405952	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaccgtgattccttccaaGggtgagtgaaattgcccttg	9	11	10	11	1	0	3	0	3	0	0	2	3	2	3	5	1	1	0	5	1	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:67405952G>T	uc003xwg.2	+	1	462	c.69G>T	c.(67-69)AAG>AAT	p.K23N	C8orf46_uc003xwh.2_RNA|C8orf46_uc011let.1_Missense_Mutation_p.K23N	NM_152765	NP_689978	Q8TAG6	CH046_HUMAN	hypothetical protein LOC254778	23										skin(2)	2			Epithelial(68;0.0224)|BRCA - Breast invasive adenocarcinoma(89;0.0508)|all cancers(69;0.0558)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			TTCCTTCCAAGGGTGAGTGAA	0.498													17	77					1.50039e-11	1.67524e-11	0.012319	1	0		T	67405952	T	T	67405952	3	4	134	1	0	0	0	0	1	0	0	0	2434	1014	35	5	71	5	C8orf46	8	67405952	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	64451	67405952	78958070	782	73440											
C8orf45	157777	broad.mit.edu	37	chr8	67796162	67796162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctagtacagacaactgacCgtaacaaggaactggaagat	16	7	10	8	1	1	3	0	1	1	2	1	5	1	5	1	2	4	2	1	2	7	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:67796162C>T	uc003xwz.3	+	9	1177	c.1006C>T	c.(1006-1008)CGT>TGT	p.R336C	C8orf45_uc003xwv.2_Missense_Mutation_p.R336C|C8orf45_uc011lev.1_Missense_Mutation_p.R336C|C8orf45_uc011lew.1_Missense_Mutation_p.R267C|C8orf45_uc011lex.1_Missense_Mutation_p.R94C|C8orf45_uc003xwy.3_Missense_Mutation_p.R336C	NM_173518	NP_775789	Q4G0Z9	CH045_HUMAN	minichromosome maintenance complex	336					DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GACAACTGACCGTAACAAGGA	0.353													51	147					0	0	0.01441	0	0		T	67796162	T	T	67796162	3	4	134	1	0	0	0	0	1	0	0	0	2433	652	23	1	1036	1	C8orf45	8	67796162	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	390210	67796162	78567860	783	73441											
C8orf45	157777	broad.mit.edu	37	chr8	67803170	67803170	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctactgaaatttttcccActctatccaggaataagtat	12	15	4	10	0	2	1	0	1	2	0	5	2	4	2	2	1	1	1	2	1	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:67803170A>G	uc003xwz.3	+	10	1315	c.1144A>G	c.(1144-1146)ACT>GCT	p.T382A	C8orf45_uc011lev.1_Missense_Mutation_p.T382A|C8orf45_uc011lew.1_Missense_Mutation_p.T313A|C8orf45_uc011lex.1_Missense_Mutation_p.T140A|C8orf45_uc003xwy.3_Missense_Mutation_p.T382A	NM_173518	NP_775789	Q4G0Z9	CH045_HUMAN	minichromosome maintenance complex	382					DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)			AATTTTTCCCACTCTATCCAG	0.408													65	324					0	0	0.01441	0	0		G	67803170	G	G	67803170	3	3	134	1	0	0	0	0	1	0	0	0	2433	159	6	3	1178	3	C8orf45	8	67803170	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	7008	67803170	78560852	784	73442											
LRRC67	286187	broad.mit.edu	37	chr8	67922971	67922971	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacatgcagaagttggttGtcaacggctatgagctgatt	10	13	11	7	1	2	3	2	2	0	1	2	3	2	3	0	2	3	5	0	2	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:67922971G>A	uc003xxc.2	-	5	676	c.531C>T	c.(529-531)GAC>GAT	p.D177D		NM_001013626	NP_001013648	Q7Z4L9	LRC67_HUMAN	leucine rich repeat containing 67	177	LRR 7.										0						GAAGTTGGTTGTCAACGGCTA	0.279													25	70					0	0	0.005443	0	0		A	67922971	A	A	67922971	2	1	134	1	0	0	0	0	0	0	0	1	9037	1368	48	4		4	LRRC67	8	67922971	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	119801	67922971	78441051	785	73443											
SLCO5A1	81796	broad.mit.edu	37	chr8	70744467	70744467	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtaattacgctgctcaggtAcccagagaccattaacgcct	11	9	9	12	2	1	1	1	0	0	1	1	2	1	1	3	2	4	4	3	2	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:70744467A>G	uc003xyl.2	-	2	1149	c.442T>C	c.(442-444)TAC>CAC	p.Y148H	SLCO5A1_uc010lzb.2_Missense_Mutation_p.Y148H|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Missense_Mutation_p.Y148H|SLCO5A1_uc010lzc.2_Missense_Mutation_p.Y148H	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	148	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			CTGCTCAGGTACCCAGAGACC	0.552											OREG0018815	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	95					0	0	0.009096	0	0		G	70744467	G	G	70744467	3	3	134	1	0	0	0	0	1	0	0	0	14756	391	14	3	2140	3	SLCO5A1	8	70744467	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2821496	70744467	75619555	786	73444											
TRPA1	8989	broad.mit.edu	37	chr8	72967924	72967924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctagactgacccttacctgGctgcaaaatgcagaggtgat	11	9	11	10	0	0	4	0	2	0	2	0	4	0	4	2	2	3	4	2	2	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:72967924G>A	uc003xza.2	-	11	1536	c.1361C>T	c.(1360-1362)GCC>GTC	p.A454V		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	454	ANK 11.|Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	CCCTTACCTGGCTGCAAAATG	0.383													41	101					0	0	0.010771	0	0		A	72967924	A	A	72967924	3	1	134	1	0	0	0	0	1	0	0	0	16603	1203	42	2	2066	2	TRPA1	8	72967924	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2223457	72967924	73396098	787	73445											
TRPA1	8989	broad.mit.edu	37	chr8	72981394	72981394	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttttttctacagcacaaTgcagaggggtatttccataa	11	14	9	7	0	1	1	0	0	1	1	2	1	2	1	1	3	3	4	1	3	4	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:72981394T>C	uc003xza.2	-	3	483	c.308A>G	c.(307-309)CAT>CGT	p.H103R		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	103	Cytoplasmic (Potential).|ANK 2.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	TACAGCACAATGCAGAGGGGT	0.393													96	219					0	0	0.01441	0	0		C	72981394	C	C	72981394	3	2	134	1	0	0	0	0	1	0	0	0	16603	1464	51	3	3151	3	TRPA1	8	72981394	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	13470	72981394	73382628	788	73446											
KCNB2	9312	broad.mit.edu	37	chr8	73849583	73849583	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggacctgctgccagggatGgcacgctggagtatgcccca	9	6	14	12	1	0	0	0	0	0	0	0	3	0	3	4	4	3	4	4	4	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:73849583G>T	uc003xzb.2	+	3	2581	c.1993G>T	c.(1993-1995)GGC>TGC	p.G665C		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	665	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			TGCCAGGGATGGCACGCTGGA	0.562													35	128					3.11337e-16	3.52312e-16	0.013726	1	0		T	73849583	T	T	73849583	3	4	134	1	0	0	0	0	1	0	0	0	8029	1348	47	5	1999	5	KCNB2	8	73849583	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	868189	73849583	72514439	789	73447											
PI15	51050	broad.mit.edu	37	chr8	75737657	75737657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatatccccaaagccaggcGgaagcgctacatttcgcaga	12	6	11	12	3	0	1	0	0	0	1	2	3	1	3	3	3	3	2	3	3	4	3	rs141788887	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:75737657G>A	uc003yal.2	+	2	352	c.173G>A	c.(172-174)CGG>CAG	p.R58Q	uc003yak.1_Intron|PI15_uc003yam.2_Missense_Mutation_p.R58Q	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	58						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			AAAGCCAGGCGGAAGCGCTAC	0.448													54	169					0	0	0.01441	0	0		A	75737657	A	A	75737657	3	1	134	1	0	0	0	0	1	0	0	0	11887	1116	39	1	175	1	PI15	8	75737657	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1888074	75737657	70626365	790	73448											
ZFHX4	79776	broad.mit.edu	37	chr8	77768496	77768496	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccttctccccggaatgaaCggtccatcctccttgccggg	5	10	10	16	3	1	1	0	1	1	0	6	2	5	2	7	3	2	0	7	3	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:77768496C>T	uc003yav.2	+	10	9591	c.9204C>T	c.(9202-9204)AAC>AAT	p.N3068N	ZFHX4_uc003yau.1_Silent_p.N3113N|ZFHX4_uc003yaw.1_Silent_p.N3068N	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3068	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCGGAATGAACGGTCCATCCT	0.517										HNSCC(33;0.089)			25	90					0	0	0.00333	0	0		T	77768496	T	T	77768496	2	4	134	1	0	0	0	0	0	0	0	1	17660	535	19	1		1	ZFHX4	8	77768496	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2030839	77768496	68595526	791	73449											
PEX2	5828	broad.mit.edu	37	chr8	77896243	77896243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaaaacccataagcacgCtttcacctctggctcaaagc	14	7	6	14	1	3	1	2	0	1	1	3	1	3	1	2	1	3	3	2	1	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:77896243C>T	uc003yax.2	-	4	630	c.172G>A	c.(172-174)GCG>ACG	p.A58T	PEX2_uc003yay.2_Missense_Mutation_p.A58T|PEX2_uc003yaz.2_Missense_Mutation_p.A58T	NM_000318	NP_000309	P28328	PEX2_HUMAN	peroxin 2	58					peroxisome organization	integral to peroxisomal membrane	protein binding|zinc ion binding			ovary(1)	1						CATAAGCACGCTTTCACCTCT	0.438													45	89					0	0	0.013114	0	0		T	77896243	T	T	77896243	3	4	134	1	0	0	0	0	1	0	0	0	11764	797	28	2	749	2	PEX2	8	77896243	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	127747	77896243	68467779	792	73450											
WWP1	11059	broad.mit.edu	37	chr8	87393036	87393036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttgtagatggagaaattaCgaaaacagcaaaatccagta	19	8	9	5	1	0	2	0	0	0	2	1	4	1	2	1	1	3	4	1	1	8	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:87393036C>T	uc003ydt.2	+	4	432	c.152C>T	c.(151-153)ACG>ATG	p.T51M	WWP1_uc010mai.2_Translation_Start_Site	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	51	C2.				central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						GGAGAAATTACGAAAACAGCA	0.343													26	61					0	0	0.003954	0	0		T	87393036	T	T	87393036	3	4	134	1	0	0	0	0	1	0	0	0	17441	536	19	1	158	1	WWP1	8	87393036	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	9496793	87393036	58970986	793	73451											
CNGB3	54714	broad.mit.edu	37	chr8	87591466	87591466	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cagttcgacggtttcctcctCctgctgctagaaggctgtaa	7	12	10	12	2	0	1	0	0	0	1	4	2	3	1	3	2	2	6	3	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:87591466C>G	uc003ydx.2	-	16	1842	c.1796G>C	c.(1795-1797)GGA>GCA	p.G599A	CNGB3_uc010maj.2_Missense_Mutation_p.G456A	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	599	Cytoplasmic (Potential).|cGMP (By similarity).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						GTTTCCTCCTCCTGCTGCTAG	0.413													126	330					0	0	0.01441	0	0		G	87591466	G	G	87591466	3	3	134	1	0	0	0	0	1	0	0	0	3604	855	30	5	645	5	CNGB3	8	87591466	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	198430	87591466	58772556	794	73452											
RIPK2	8767	broad.mit.edu	37	chr8	90784971	90784971	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaatgaagaaagtttgccAtatgatatacctcaccgagc	15	11	7	8	1	1	3	1	2	0	1	1	4	1	3	3	0	3	1	3	0	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:90784971A>G	uc003yee.2	+	6	1082	c.768A>G	c.(766-768)CCA>CCG	p.P256P	RIPK2_uc003yef.2_Silent_p.P119P	NM_003821	NP_003812	O43353	RIPK2_HUMAN	receptor-interacting serine-threonine kinase 2	256	Protein kinase.				activation of MAPK activity|anti-apoptosis|apoptosis|inflammatory response|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|CARD domain binding|LIM domain binding|protein homodimerization activity|protein serine/threonine kinase activity|signal transducer activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.0474)			AAAGTTTGCCATATGATATAC	0.363													39	133					0	0	0.004878	0	0		G	90784971	G	G	90784971	2	3	134	1	0	0	0	0	0	0	0	1	13406	204	8	3		3	RIPK2	8	90784971	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3193505	90784971	55579051	795	73453											
CDH17	1015	broad.mit.edu	37	chr8	95142918	95142918	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acagtgggtatcccagtctgGtgacctgctggccggaaaca	9	8	13	11	1	1	1	0	1	1	0	2	2	2	2	3	4	2	2	3	4	2	1	rs141222335	by1000genomes	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:95142918G>T	uc003ygh.2	-	17	2459	c.2334C>A	c.(2332-2334)CAC>CAA	p.H778Q	CDH17_uc011lgo.1_Intron|CDH17_uc011lgp.1_Missense_Mutation_p.H778Q	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	778	Extracellular (Potential).					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			TCCCAGTCTGGTGACCTGCTG	0.448													14	42					6.31663e-08	6.9715e-08	0.003163	1	0		T	95142918	T	T	95142918	3	4	134	1	0	0	0	0	1	0	0	0	3105	1252	44	5	172	5	CDH17	8	95142918	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4357947	95142918	51221104	796	73454											
RAD54B	25788	broad.mit.edu	37	chr8	95384421	95384421	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgccagtagcttgagtggTtatattctgaaaaatgaatg	12	14	11	4	0	1	3	0	3	1	0	1	3	1	3	1	1	2	3	1	1	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:95384421T>C	uc003ygk.2	-	15	2808	c.2710A>G	c.(2710-2712)ACC>GCC	p.T904A		NM_012415	NP_036547	O95073	FSBP_HUMAN	RAD54 homolog B	Error:Variant_position_missing_in_O95073_after_alignment					double-strand break repair via homologous recombination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA translocase activity|protein binding			kidney(2)|lung(1)|skin(1)	4	Breast(36;4.5e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00217)			GCTTGAGTGGTTATATTCTGA	0.299								Direct_reversal_of_damage|Homologous_recombination					19	48					0	0	0.012319	0	0		C	95384421	C	C	95384421	3	2	134	1	0	0	0	0	1	0	0	0	13017	1725	60	3	26	3	RAD54B	8	95384421	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	241503	95384421	50979601	797	73455											
ESRP1	54845	broad.mit.edu	37	chr8	95680231	95680231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaaatcaagtcattgtccGcatgcgggggctccctttca	9	10	11	11	2	3	0	3	0	0	0	5	1	5	1	2	3	1	2	2	3	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:95680231G>A	uc003ygq.3	+	10	1169	c.986G>A	c.(985-987)CGC>CAC	p.R329H	ESRP1_uc003ygr.3_Missense_Mutation_p.R329H|ESRP1_uc003ygs.3_Missense_Mutation_p.R329H|ESRP1_uc003ygt.3_Missense_Mutation_p.R329H|ESRP1_uc003ygu.3_Missense_Mutation_p.R329H|ESRP1_uc003ygv.2_Missense_Mutation_p.R169H|ESRP1_uc003ygw.2_Missense_Mutation_p.R169H	NM_017697	NP_060167	Q6NXG1	ESRP1_HUMAN	RNA binding motif protein 35A isoform 1	329	RRM 2.				mRNA processing|regulation of RNA splicing|RNA splicing	nucleus|plasma membrane	mRNA binding|nucleotide binding		ESRP1/RAF1(4)	prostate(4)	4						GTCATTGTCCGCATGCGGGGG	0.488													31	98					0	0	0.003271	0	0		A	95680231	A	A	95680231	3	1	134	1	0	0	0	0	1	0	0	0	5266	1087	38	1	1024	1	ESRP1	8	95680231	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	295810	95680231	50683791	798	73456											
DPY19L4	286148	broad.mit.edu	37	chr8	95800209	95800209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attacctaattgtagaggatGctatctgcaatgaggtggga	12	12	12	5	0	1	2	0	1	1	1	1	4	1	4	1	3	3	3	1	3	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:95800209G>A	uc003ygx.2	+	18	2060	c.1936G>A	c.(1936-1938)GCT>ACT	p.A646T		NM_181787	NP_861452	Q7Z388	D19L4_HUMAN	dpy-19-like 4	646						integral to membrane				ovary(2)	2	Breast(36;3.85e-06)					TGTAGAGGATGCTATCTGCAA	0.348													37	108					0	0	0.011902	0	0		A	95800209	A	A	95800209	3	1	134	1	0	0	0	0	1	0	0	0	4749	1319	46	2	2006	2	DPY19L4	8	95800209	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	119978	95800209	50563813	799	73457											
POP1	10940	broad.mit.edu	37	chr8	99170251	99170251	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtggctgggcaggaagctCtgactctagggctgtggtca	6	9	16	10	1	3	1	1	1	2	0	3	2	3	2	1	5	1	4	1	5	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:99170251C>A	uc003yij.3	+	16	2927	c.2827C>A	c.(2827-2829)CTG>ATG	p.L943M	POP1_uc011lgv.1_Missense_Mutation_p.L943M|POP1_uc003yik.2_Missense_Mutation_p.L943M	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	943					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			GCAGGAAGCTCTGACTCTAGG	0.493													60	212					6.5469e-37	7.7348e-37	0.01441	1	0		A	99170251	A	A	99170251	3	1	134	1	0	0	0	0	1	0	0	0	12270	912	32	5	2885	5	POP1	8	99170251	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3370042	99170251	47193771	800	73458											
KCNS2	3788	broad.mit.edu	37	chr8	99440298	99440298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggcttcaagaggaggctgCgctcgcacacgctgctgcgc	6	6	15	14	5	1	1	1	0	0	1	2	2	1	2	0	3	3	6	0	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:99440298C>T	uc003yin.2	+	2	441	c.91C>T	c.(91-93)CGC>TGC	p.R31C		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	31	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			GAGGAGGCTGCGCTCGCACAC	0.647													12	27					0	0	0.00245	0	0		T	99440298	T	T	99440298	3	4	134	1	0	0	0	0	1	0	0	0	8105	768	27	1	93	1	KCNS2	8	99440298	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	270047	99440298	46923724	801	73459											
VPS13B	157680	broad.mit.edu	37	chr8	100108587	100108587	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaccaaccgtagtactgcTgagagcacaaaatcatcaat	15	9	6	11	1	3	1	2	1	1	1	3	2	3	1	2	0	5	4	2	0	7	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:100108587T>C	uc003yiv.2	+	4	450	c.339T>C	c.(337-339)GCT>GCC	p.A113A	VPS13B_uc003yiw.2_Silent_p.A113A|VPS13B_uc003yit.2_Silent_p.A113A|VPS13B_uc003yiu.1_Silent_p.A113A|VPS13B_uc003yis.2_Silent_p.A113A|VPS13B_uc011lgy.1_5'UTR	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	113					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			GTAGTACTGCTGAGAGCACAA	0.393													68	166					0	0	0.01441	0	0		C	100108587	C	C	100108587	2	2	134	1	0	0	0	0	0	0	0	1	17216	1567	55	3		3	VPS13B	8	100108587	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	668289	100108587	46255435	802	73460											
VPS13B	157680	broad.mit.edu	37	chr8	100133550	100133550	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaattgtgagttatgacgaTggcgaggaagactttgttgg	10	12	15	4	2	0	3	0	2	0	1	0	6	0	4	0	3	0	3	0	3	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:100133550T>C	uc003yiv.2	+	8	1194	c.1083T>C	c.(1081-1083)GAT>GAC	p.D361D	VPS13B_uc003yiw.2_Silent_p.D361D|VPS13B_uc003yit.2_Silent_p.D361D|VPS13B_uc003yiu.1_Silent_p.D361D|VPS13B_uc003yis.2_Silent_p.D361D|VPS13B_uc011lgy.1_Silent_p.D237D	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	361					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			GTTATGACGATGGCGAGGAAG	0.443													65	146					0	0	0.01441	0	0		C	100133550	C	C	100133550	2	2	134	1	0	0	0	0	0	0	0	1	17216	1461	51	3		3	VPS13B	8	100133550	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	24963	100133550	46230472	803	73461											
UBR5	51366	broad.mit.edu	37	chr8	103292631	103292631	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcactaactttgattggTgtcatcatcattttcatgtt	8	19	7	7	0	4	1	4	1	0	0	4	1	4	1	0	1	2	2	0	1	1	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:103292631T>C	uc003ykr.1	-	42	6025	c.5992A>G	c.(5992-5994)ACC>GCC	p.T1998A	UBR5_uc003yks.1_Missense_Mutation_p.T1998A	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1998					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			CTTTGATTGGTGTCATCATCA	0.358													32	88					0	0	0.013726	0	0		C	103292631	C	C	103292631	3	2	134	1	0	0	0	0	1	0	0	0	16931	1696	59	3	2479	3	UBR5	8	103292631	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3159081	103292631	43071391	804	73462											
SYBU	55638	broad.mit.edu	37	chr8	110656869	110656869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccgcgctccttaccttgCtctcgcggaggggccccatc	3	8	11	19	4	1	0	0	0	1	0	4	1	2	1	6	3	2	2	6	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:110656869C>T	uc003ynj.3	-	1	183	c.20G>A	c.(19-21)AGC>AAC	p.S7N	SYBU_uc003yni.3_5'Flank|SYBU_uc003ynk.3_5'UTR|SYBU_uc010mco.2_Missense_Mutation_p.S7N|SYBU_uc003ynl.3_Missense_Mutation_p.S7N|SYBU_uc010mcp.2_Missense_Mutation_p.S7N|SYBU_uc010mcq.2_Missense_Mutation_p.S7N|SYBU_uc003yno.3_Intron|SYBU_uc010mcr.2_Missense_Mutation_p.S7N|SYBU_uc003ynm.3_Missense_Mutation_p.S7N|SYBU_uc003ynn.3_Missense_Mutation_p.S7N|SYBU_uc010mcs.2_Intron|SYBU_uc010mct.2_Missense_Mutation_p.S7N|SYBU_uc010mcu.2_Missense_Mutation_p.S7N|SYBU_uc003ynp.3_Intron|SYBU_uc010mcv.2_Missense_Mutation_p.S7N|uc003ynq.1_Intron	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	7	Sufficient for interaction with KIF5B.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						CCTTACCTTGCTCTCGCGGAG	0.736													4	7					0	0	0.001168	0	0		T	110656869	T	T	110656869	3	4	134	1	0	0	0	0	1	0	0	0	15452	797	28	2	2014	2	SYBU	8	110656869	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	7364238	110656869	35707153	805	73463											
TRPS1	7227	broad.mit.edu	37	chr8	116430589	116430589	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggtagaggccacacgcgTtgcatacatatccgccattt	9	11	9	12	3	1	1	0	0	1	1	2	1	2	1	3	2	2	3	3	2	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:116430589T>C	uc003ynz.2	-	5	3212	c.2753A>G	c.(2752-2754)AAC>AGC	p.N918S	TRPS1_uc011lhy.1_Missense_Mutation_p.N922S|TRPS1_uc003yny.2_Missense_Mutation_p.N931S|TRPS1_uc010mcy.2_Missense_Mutation_p.N918S	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	918	GATA-type.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GCCACACGCGTTGCATACATA	0.483									Langer-Giedion_syndrome				7	339					0	0	0.006214	0	0		C	116430589	C	C	116430589	3	2	134	1	0	0	0	0	1	0	0	0	16619	1725	60	3	1100	3	TRPS1	8	116430589	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	5773720	116430589	29933433	806	73464											
TAF2	6873	broad.mit.edu	37	chr8	120795639	120795639	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctttgcaagacagaagcaAgctgacattcttactctgta	13	11	7	10	0	2	3	0	1	2	2	2	3	2	3	1	0	4	4	1	0	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:120795639A>G	uc003you.2	-	16	2364	c.2094T>C	c.(2092-2094)GCT>GCC	p.A698A		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	698					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GACAGAAGCAAGCTGACATTC	0.353													62	301					0	0	0.01441	0	0		G	120795639	G	G	120795639	2	3	134	1	0	0	0	0	0	0	0	1	15549	59	3	3		3	TAF2	8	120795639	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4365050	120795639	25568383	807	73465											
TAF2	6873	broad.mit.edu	37	chr8	120818521	120818521	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatatactcttggtgctttAccatcaacgtgtttccatag	10	15	6	10	1	2	0	1	0	1	0	3	0	3	0	2	1	4	2	2	1	6	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:120818521A>G	uc003you.2	-	4	688	c.418_splice	c.e4+1	p.E140_splice		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2						G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TTGGTGCTTTACCATCAACGT	0.368													121	336					0	0	0.01441	0	0		G	120818521	G	G	120818521	5	3	134	1	0	0	0	0	0	0	1	0	15549	405	14	3	3271	3	TAF2	8	120818521	Splice_Site	SNP	A	TCGA-CG-4442-01A-01D-1158-08	22882	120818521	25545501	808	73466											
SNTB1	6641	broad.mit.edu	37	chr8	121554212	121554212	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctcataatgtatggtcaaAcggcactcctggtttttgta	9	16	8	8	1	2	0	2	0	1	0	4	0	3	0	1	3	1	4	1	3	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:121554212A>G	uc010mdg.2	-	6	1588	c.1362T>C	c.(1360-1362)CGT>CGC	p.R454R		NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	454					muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			GTATGGTCAAACGGCACTCCT	0.418													47	201					0	0	0.01441	0	0		G	121554212	G	G	121554212	2	3	134	1	0	0	0	0	0	0	0	1	14897	30	2	3		3	SNTB1	8	121554212	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	735691	121554212	24809810	809	73467											
HAS2	3037	broad.mit.edu	37	chr8	122641434	122641434	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgatgccaaaaaggcaccAtacagtccaaaagagaaata	19	6	8	8	0	0	2	0	1	0	1	1	3	1	2	3	1	2	1	3	1	7	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:122641434A>G	uc003yph.2	-	2	685	c.147T>C	c.(145-147)TAT>TAC	p.Y49Y		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	49	Helical; Name=2; (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			AAAAGGCACCATACAGTCCAA	0.413													100	337					0	0	0.01441	0	0		G	122641434	G	G	122641434	2	3	134	1	0	0	0	0	0	0	0	1	6978	224	8	3		3	HAS2	8	122641434	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1087222	122641434	23722588	810	73468											
ZHX2	22882	broad.mit.edu	37	chr8	123964129	123964129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaagtacgactccctatccGaccacaactccaagttccat	14	8	4	15	2	0	0	0	0	0	0	4	2	4	0	5	0	2	2	5	0	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:123964129G>A	uc003ypk.1	+	3	946	c.379G>A	c.(379-381)GAC>AAC	p.D127N		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	127	C2H2-type 2.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			CTCCCTATCCGACCACAACTC	0.478													44	135					0	0	0.013114	0	0		A	123964129	A	A	123964129	3	1	134	1	0	0	0	0	1	0	0	0	17701	1058	37	1	381	1	ZHX2	8	123964129	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1322695	123964129	22399893	811	73469											
FAM83A	84985	broad.mit.edu	37	chr8	124204041	124204041	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcactctgccctggcccAggtcctggtcatcctgatgg	5	10	12	14	0	2	2	1	2	1	0	4	2	4	2	4	4	2	1	4	4	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:124204041A>G	uc003ypv.2	+	3	2495	c.481_splice	c.e3-2	p.V161_splice	FAM83A_uc003ypw.2_Splice_Site_p.V161_splice|FAM83A_uc003ypy.2_Intron|FAM83A_uc003ypx.2_Splice_Site_p.V161_splice|FAM83A_uc003ypz.2_Splice_Site_p.V161_splice	NM_032899	NP_116288	Q86UY5	FA83A_HUMAN	hypothetical protein LOC84985 isoform a											ovary(3)|skin(1)	4	Lung NSC(37;1.55e-09)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			GCCCTGGCCCAGGTCCTGGTC	0.562													80	319					0	0	0.01441	0	0		G	124204041	G	G	124204041	5	3	134	1	0	0	0	0	0	0	1	0	5647	202	7	3	485	3	FAM83A	8	124204041	Splice_Site	SNP	A	TCGA-CG-4442-01A-01D-1158-08	239912	124204041	22159981	812	73470											
ZHX1	11244	broad.mit.edu	37	chr8	124266020	124266020	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcgctctgatagtagtagtAccatttcaagtttccattct	9	15	8	9	1	3	1	1	1	2	0	4	1	4	1	2	1	1	5	2	1	5	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:124266020A>G	uc003yqe.2	-	3	2597	c.2167T>C	c.(2167-2169)TAC>CAC	p.Y723H	C8orf76_uc003yqd.2_Intron|ZHX1_uc003yqf.2_Missense_Mutation_p.Y723H|ZHX1_uc003yqg.2_Intron|ZHX1_uc010mdi.2_Missense_Mutation_p.Y723H	NM_007222	NP_009153	Q9UKY1	ZHX1_HUMAN	zinc fingers and homeoboxes 1	723					negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			TAGTAGTAGTACCATTTCAAG	0.468													69	196					0	0	0.01441	0	0		G	124266020	G	G	124266020	3	3	134	1	0	0	0	0	1	0	0	0	17700	391	14	3	458	3	ZHX1	8	124266020	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	61979	124266020	22098002	813	73471											
ATAD2	29028	broad.mit.edu	37	chr8	124340720	124340720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcaattttgtgatctatgGcattctggctatcatccttt	7	19	6	9	0	4	1	2	1	3	0	6	1	5	1	1	2	0	2	1	2	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:124340720G>A	uc003yqh.3	-	25	3686	c.3578C>T	c.(3577-3579)GCC>GTC	p.A1193V	ATAD2_uc011lii.1_Missense_Mutation_p.A984V|ATAD2_uc003yqi.3_RNA	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	1193					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			GTGATCTATGGCATTCTGGCT	0.408													66	218					0	0	0.01441	0	0		A	124340720	A	A	124340720	3	1	134	1	0	0	0	0	1	0	0	0	1072	1203	42	2	610	2	ATAD2	8	124340720	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	74700	124340720	22023302	814	73472											
FER1L6	654463	broad.mit.edu	37	chr8	125131154	125131154	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatcctgttggaaaagccCgaaaggagccagagcccctg	14	5	11	11	1	0	1	0	0	0	1	1	4	1	3	5	2	3	1	5	2	5	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:125131154C>T	uc003yqw.2	+	40	5565	c.5359C>T	c.(5359-5361)CGA>TGA	p.R1787*	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1787	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TGGAAAAGCCCGAAAGGAGCC	0.498													10	60					0	0	0.008291	0	0		T	125131154	T	T	125131154	4	4	134	1	0	0	0	0	0	1	0	0	5829	644	23	1	5513	1	FER1L6	8	125131154	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	790434	125131154	21232868	815	73473											
SQLE	6713	broad.mit.edu	37	chr8	126011817	126011817	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggtctcctcgggcgccagCagagcggctcccagttcgcc	4	6	15	16	4	1	1	0	0	1	1	5	1	2	1	4	4	2	3	4	4	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:126011817C>T	uc011liq.1	+	1	1098	c.172C>T	c.(172-174)CAG>TAG	p.Q58*		NM_003129	NP_003120	Q14534	ERG1_HUMAN	squalene epoxidase	58				Q -> R (in Ref. 1; BAA22372).	cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome	flavin adenine dinucleotide binding|squalene monooxygenase activity			ovary(1)|breast(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)		Butenafine(DB01091)|Naftifine(DB00735)|Terbinafine(DB00857)	CGGGCGCCAGCAGAGCGGCTC	0.602													19	62					0	0	0.014323	0	0		T	126011817	T	T	126011817	4	4	134	1	0	0	0	0	0	1	0	0	15153	711	25	2	174	2	SQLE	8	126011817	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	880663	126011817	20352205	816	73474											
SQLE	6713	broad.mit.edu	37	chr8	126021227	126021227	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttataggaactccatgctccActgactgttgttgcagatgg	9	13	10	9	0	0	2	0	1	0	1	2	3	2	3	2	2	3	4	2	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:126021227A>G	uc011liq.1	+	5	1763	c.837A>G	c.(835-837)CCA>CCG	p.P279P		NM_003129	NP_003120	Q14534	ERG1_HUMAN	squalene epoxidase	279					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome	flavin adenine dinucleotide binding|squalene monooxygenase activity			ovary(1)|breast(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)		Butenafine(DB01091)|Naftifine(DB00735)|Terbinafine(DB00857)	TCCATGCTCCACTGACTGTTG	0.383													4	32					0	0	0.000602	0	0		G	126021227	G	G	126021227	2	3	134	1	0	0	0	0	0	0	0	1	15153	146	6	3		3	SQLE	8	126021227	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	9410	126021227	20342795	817	73475											
FAM49B	51571	broad.mit.edu	37	chr8	130861526	130861526	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaaatgctcccactggaTgtacgtggtcatagagtatt	11	12	10	8	1	1	1	1	0	0	1	2	2	2	2	1	2	3	4	1	2	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:130861526T>C	uc003yss.2	-	13	1352	c.803A>G	c.(802-804)CAT>CGT	p.H268R	FAM49B_uc003yst.2_Missense_Mutation_p.H268R|FAM49B_uc003ysu.2_Missense_Mutation_p.H268R|FAM49B_uc003ysv.2_Missense_Mutation_p.H122R|FAM49B_uc003ysw.2_Missense_Mutation_p.H268R|FAM49B_uc003ysx.2_Missense_Mutation_p.H268R|FAM49B_uc003ysy.1_Missense_Mutation_p.H268R	NM_016623	NP_057707	Q9NUQ9	FA49B_HUMAN	hypothetical protein LOC51571	268											0	Ovarian(5;0.000567)|Esophageal squamous(12;0.00693)|Acute lymphoblastic leukemia(118;0.155)		LUAD - Lung adenocarcinoma(14;0.0989)			TCCCACTGGATGTACGTGGTC	0.358													32	106					0	0	0.013726	0	0		C	130861526	C	C	130861526	3	2	134	1	0	0	0	0	1	0	0	0	5590	1464	51	3	183	3	FAM49B	8	130861526	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4840299	130861526	15502496	818	73476											
ASAP1	50807	broad.mit.edu	37	chr8	131124450	131124450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggctccataggagagcCgctgtttgtcccttggagtg	7	11	14	9	1	0	2	0	1	0	1	2	4	2	3	3	3	1	3	3	3	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:131124450C>T	uc003yta.1	-	23	2319	c.2291G>A	c.(2290-2292)CGG>CAG	p.R764Q	ASAP1_uc003ysz.1_Missense_Mutation_p.R575Q|ASAP1_uc011liw.1_Missense_Mutation_p.R757Q	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	764					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						ATAGGAGAGCCGCTGTTTGTC	0.597													61	158					0	0	0.01441	0	0		T	131124450	T	T	131124450	3	4	134	1	0	0	0	0	1	0	0	0	1011	652	23	1	1126	1	ASAP1	8	131124450	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	262924	131124450	15239572	819	73477											
ASAP1	50807	broad.mit.edu	37	chr8	131172152	131172152	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accccttcttttcactgccaTattccttattgccctggagc	6	15	5	15	0	2	0	1	0	1	0	3	1	3	1	5	1	3	0	5	1	2	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:131172152T>C	uc003yta.1	-	11	996	c.968A>G	c.(967-969)TAT>TGT	p.Y323C	ASAP1_uc003ysz.1_Missense_Mutation_p.Y134C|ASAP1_uc011liw.1_Missense_Mutation_p.Y316C	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	323					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TTCACTGCCATATTCCTTATT	0.438													112	335					0	0	0.01441	0	0		C	131172152	C	C	131172152	3	2	134	1	0	0	0	0	1	0	0	0	1011	1406	49	3	2497	3	ASAP1	8	131172152	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	47702	131172152	15191870	820	73478											
ASAP1	50807	broad.mit.edu	37	chr8	131226861	131226861	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaacttgacaaacgcggTgccaaggtcggggttgtctc	11	8	13	9	3	1	2	0	1	1	1	3	2	1	2	1	4	3	1	1	4	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:131226861T>C	uc003yta.1	-	4	374	c.346A>G	c.(346-348)ACC>GCC	p.T116A	ASAP1_uc011liw.1_Missense_Mutation_p.T109A	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	116					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						ACAAACGCGGTGCCAAGGTCG	0.353													66	168					0	0	0.01441	0	0		C	131226861	C	C	131226861	3	2	134	1	0	0	0	0	1	0	0	0	1011	1696	59	3	3147	3	ASAP1	8	131226861	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	54709	131226861	15137161	821	73479											
KCNQ3	3786	broad.mit.edu	37	chr8	133142242	133142242	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttcttccccatgtcctgaAcctggaaaatcaaaggagct	11	10	8	12	0	2	1	1	1	1	0	4	3	4	3	4	2	2	2	4	2	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:133142242A>G	uc003ytj.2	-	15	2111	c.1886T>C	c.(1885-1887)GTT>GCT	p.V629A	KCNQ3_uc010mdt.2_Missense_Mutation_p.V617A	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	629					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			CATGTCCTGAACCTGGAAAAT	0.443													5	123					0	0	0.000602	0	0		G	133142242	G	G	133142242	3	3	134	1	0	0	0	0	1	0	0	0	8100	57	2	3	736	3	KCNQ3	8	133142242	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1915381	133142242	13221780	822	73480											
ST3GAL1	6482	broad.mit.edu	37	chr8	134477028	134477028	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagggactcactgggaaaTggtgcccgtggtgatggcgc	8	7	18	8	2	1	1	1	1	0	0	1	4	1	4	1	6	1	0	1	6	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:134477028T>C	uc003yuk.2	-	7	1505	c.676A>G	c.(676-678)ATT>GTT	p.I226V	ST3GAL1_uc003yum.2_Missense_Mutation_p.I226V	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	226	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			CACTGGGAAATGGTGCCCGTG	0.642													13	216					0	0	0.003163	0	0		C	134477028	C	C	134477028	3	2	134	1	0	0	0	0	1	0	0	0	15239	1464	51	3	362	3	ST3GAL1	8	134477028	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1334786	134477028	11886994	823	73481											
COL22A1	169044	broad.mit.edu	37	chr8	139890149	139890149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaaagatgcggatgccagCgcggtgggctgccgccgcgg	6	4	19	12	6	0	1	0	0	0	1	0	2	0	2	3	5	4	2	3	5	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:139890149C>T	uc003yvd.2	-	3	949	c.502G>A	c.(502-504)GCT>ACT	p.A168T		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	168	VWFA.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			CGGATGCCAGCGCGGTGGGCT	0.711										HNSCC(7;0.00092)			5	18					0	0	0.001168	0	0		T	139890149	T	T	139890149	3	4	134	1	0	0	0	0	1	0	0	0	3684	768	27	1	4630	1	COL22A1	8	139890149	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	5413121	139890149	6473873	824	73482											
PSCA	8000	broad.mit.edu	37	chr8	143763436	143763436	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaagaagaacatcacgtgCtgtgacaccgacttgtgcaa	13	7	11	10	2	1	3	1	1	0	2	1	4	1	3	1	1	3	3	1	1	4	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:143763436C>A	uc003ywu.2	+	3	313	c.258C>A	c.(256-258)TGC>TGA	p.C86*	uc003ywt.1_5'Flank	NM_005672	NP_005663	O43653	PSCA_HUMAN	prostate stem cell antigen preproprotein	77											0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					ACATCACGTGCTGTGACACCG	0.627													16	37					1.52009e-12	1.70671e-12	0.003163	1	0		A	143763436	A	A	143763436	4	1	134	1	0	0	0	0	0	1	0	0	12667	805	28	5	241	5	PSCA	8	143763436	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3873287	143763436	2600586	825	73483											
ZC3H3	23144	broad.mit.edu	37	chr8	144620193	144620193	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttgtgctgctgcgtctccgGatgatcttggtgcggctctt	2	15	13	11	3	3	1	0	1	3	0	4	2	3	2	1	3	4	3	1	3	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:144620193G>T	uc003yyd.2	-	2	1373	c.1344C>A	c.(1342-1344)ATC>ATA	p.I448I		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	448					mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			TGCGTCTCCGGATGATCTTGG	0.617													38	107					2.68985e-26	3.1392e-26	0.01441	1	0		T	144620193	T	T	144620193	2	4	134	1	0	0	0	0	0	0	0	1	17594	1164	41	5		5	ZC3H3	8	144620193	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	856757	144620193	1743829	826	73484											
FAM83H	286077	broad.mit.edu	37	chr8	144811260	144811260	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagtccgtacgcgcaggAactggggagggaggggagtc	9	4	18	10	3	0	0	0	0	0	0	2	4	1	4	2	6	2	2	2	6	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:144811260A>G	uc003yzk.2	-	4	683	c.614T>C	c.(613-615)TTC>TCC	p.F205S	FAM83H_uc010mfk.1_5'Flank	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	205					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			TACGCGCAGGAACTGGGGAGG	0.627													27	178					0	0	0.01441	0	0		G	144811260	G	G	144811260	3	3	134	1	0	0	0	0	1	0	0	0	5654	260	9	3	2933	3	FAM83H	8	144811260	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	191067	144811260	1552762	827	73485											
SCRIB	23513	broad.mit.edu	37	chr8	144891811	144891811	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctcagccgacgggccctcGggctcagcctcagagactgt	6	6	13	16	3	3	1	3	0	0	1	4	3	3	1	4	2	2	1	4	2	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:144891811G>A	uc003yzp.1	-	14	1615	c.1608C>T	c.(1606-1608)CCC>CCT	p.P536P	SCRIB_uc003yzo.1_Silent_p.P536P	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	536	Sufficient for targeting to adherens junction and to inhibit cell proliferation.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			ACGGGCCCTCGGGCTCAGCCT	0.662													42	100					0	0	0.01441	0	0		A	144891811	A	A	144891811	2	1	134	1	0	0	0	0	0	0	0	1	13962	1103	39	1		1	SCRIB	8	144891811	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	80551	144891811	1472211	828	73486											
PLEC	5339	broad.mit.edu	37	chr8	144993053	144993053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtcctcagccgtgaggcGgcggcgcacgtagtcgtagg	6	6	17	12	6	1	1	1	1	0	0	3	1	2	1	2	5	1	3	2	5	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:144993053G>A	uc003zaf.1	-	32	11517	c.11347C>T	c.(11347-11349)CGC>TGC	p.R3783C	PLEC_uc003zab.1_Missense_Mutation_p.R3646C|PLEC_uc003zac.1_Missense_Mutation_p.R3650C|PLEC_uc003zad.2_Missense_Mutation_p.R3646C|PLEC_uc003zae.1_Missense_Mutation_p.R3614C|PLEC_uc003zag.1_Missense_Mutation_p.R3624C|PLEC_uc003zah.2_Missense_Mutation_p.R3632C|PLEC_uc003zaj.2_Missense_Mutation_p.R3673C	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3783	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GCCGTGAGGCGGCGGCGCACG	0.602													28	110					0	0	0.01441	0	0		A	144993053	A	A	144993053	3	1	134	1	0	0	0	0	1	0	0	0	12071	1116	39	1	2711	1	PLEC	8	144993053	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	101242	144993053	1370969	829	73487											
PLEC	5339	broad.mit.edu	37	chr8	144994803	144994803	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgatgatgtgcccggtgccGgcctgggcttccaacagggc	5	8	15	13	3	0	1	0	1	0	0	2	2	1	1	4	4	3	1	4	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:144994803G>T	uc003zaf.1	-	32	9767	c.9597C>A	c.(9595-9597)GCC>GCA	p.A3199A	PLEC_uc003zab.1_Silent_p.A3062A|PLEC_uc003zac.1_Silent_p.A3066A|PLEC_uc003zad.2_Silent_p.A3062A|PLEC_uc003zae.1_Silent_p.A3030A|PLEC_uc003zag.1_Silent_p.A3040A|PLEC_uc003zah.2_Silent_p.A3048A|PLEC_uc003zaj.2_Silent_p.A3089A	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3199	Globular 2.|Plectin 8.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GCCCGGTGCCGGCCTGGGCTT	0.652													33	84					8.88839e-20	1.019e-19	0.010818	1	0		T	144994803	T	T	144994803	2	4	134	1	0	0	0	0	0	0	0	1	12071	1103	39	5		5	PLEC	8	144994803	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1750	144994803	1369219	830	73488											
PLEC	5339	broad.mit.edu	37	chr8	144999422	144999422	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctgtacctgccgcgctcGctccacctcggcctgccgca	4	7	9	21	5	0	0	0	0	0	0	3	0	1	0	7	1	3	4	7	1	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:144999422G>A	uc003zaf.1	-	31	5256	c.5086C>T	c.(5086-5088)CGA>TGA	p.R1696*	PLEC_uc003zab.1_Nonsense_Mutation_p.R1559*|PLEC_uc003zac.1_Nonsense_Mutation_p.R1563*|PLEC_uc003zad.2_Nonsense_Mutation_p.R1559*|PLEC_uc003zae.1_Nonsense_Mutation_p.R1527*|PLEC_uc003zag.1_Nonsense_Mutation_p.R1537*|PLEC_uc003zah.2_Nonsense_Mutation_p.R1545*|PLEC_uc003zaj.2_Nonsense_Mutation_p.R1586*	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	1696	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TGCCGCGCTCGCTCCACCTCG	0.741													10	14					0	0	0.010729	0	0		A	144999422	A	A	144999422	4	1	134	1	0	0	0	0	0	1	0	0	12071	1095	38	1	8976	1	PLEC	8	144999422	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4619	144999422	1364600	831	73489											
GRINA	2907	broad.mit.edu	37	chr8	145066963	145066963	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtacacagacatcatcaAcatcttcctgtacatcctca	12	11	3	15	0	4	1	3	0	1	1	6	1	6	1	3	0	3	2	3	0	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:145066963A>G	uc003zan.1	+	7	1236	c.1070A>G	c.(1069-1071)AAC>AGC	p.N357S	GRINA_uc003zao.1_Missense_Mutation_p.N357S|GRINA_uc003zap.1_Missense_Mutation_p.N357S	NM_001009184	NP_001009184	Q7Z429	GRINA_HUMAN	glutamate receptor, ionotropic, N-methyl	357	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GACATCATCAACATCTTCCTG	0.597													7	44					0	0	0.00308	0	0		G	145066963	G	G	145066963	3	3	134	1	0	0	0	0	1	0	0	0	6801	43	2	3	1092	3	GRINA	8	145066963	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	67541	145066963	1297059	832	73490											
OPLAH	26873	broad.mit.edu	37	chr8	145107485	145107485	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggggaatgaccacgcgcActggcgccaggcagccctgt	7	5	14	15	4	0	1	0	1	0	0	1	2	0	2	3	4	1	2	3	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:145107485A>G	uc003zar.3	-	23	3252	c.3170T>C	c.(3169-3171)GTG>GCG	p.V1057A		NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	1057							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	GACCACGCGCACTGGCGCCAG	0.731													4	17					0	0	0.001168	0	0		G	145107485	G	G	145107485	3	3	134	1	0	0	0	0	1	0	0	0	10895	159	6	3	718	3	OPLAH	8	145107485	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	40522	145107485	1256537	833	73491											
COMMD5	28991	broad.mit.edu	37	chr8	146076258	146076258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctacatccacccgccaccGaaagtcagcaacatgcggca	12	5	8	16	3	1	0	1	0	0	0	2	1	2	0	4	1	5	3	4	1	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr8:146076258G>A	uc003zem.2	-	2	597	c.466C>T	c.(466-468)CGG>TGG	p.R156W	COMMD5_uc003zel.1_RNA|COMMD5_uc003zen.2_Missense_Mutation_p.R156W|COMMD5_uc003zeo.3_Missense_Mutation_p.R156W|COMMD5_uc010mgf.2_Missense_Mutation_p.R156W	NM_001081004	NP_001074473	Q9GZQ3	COMD5_HUMAN	COMM domain containing 5	156	COMM.					nucleus	protein binding			ovary(1)	1	all_cancers(97;1.14e-11)|all_epithelial(106;7.74e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;8.75e-39)|OV - Ovarian serous cystadenocarcinoma(54;1.13e-38)|all cancers(56;8.48e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)			ACCCGCCACCGAAAGTCAGCA	0.637													6	16					0	0	0.004007	0	0		A	146076258	A	A	146076258	3	1	134	1	0	0	0	0	1	0	0	0	3722	1057	37	1	212	1	COMMD5	8	146076258	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	968773	146076258	287764	834	73492											
DOCK8	81704	broad.mit.edu	37	chr9	382611	382611	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcaggcccgggtgatgAgcagcagtaacccagacctc	9	6	13	13	1	0	3	0	2	0	1	1	3	0	3	3	2	5	5	3	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:382611A>G	uc003zgf.2	+	22	2816	c.2704A>G	c.(2704-2706)AGC>GGC	p.S902G	DOCK8_uc010mgu.2_Missense_Mutation_p.S204G|DOCK8_uc010mgv.2_Missense_Mutation_p.S834G|DOCK8_uc010mgw.1_Missense_Mutation_p.S204G|DOCK8_uc003zgk.2_Missense_Mutation_p.S360G	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	902					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		CCGGGTGATGAGCAGCAGTAA	0.577													4	134					0	0	0.009096	0	0		G	382611	G	G	382611	3	3	134	1	0	0	0	0	1	0	0	0	4699	304	11	3	2790	3	DOCK8	9	382611	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08		382611	140830820	835	73493											
KANK1	23189	broad.mit.edu	37	chr9	711872	711872	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggataaaggagttccggcAacttacagcagacatgcaag	15	6	12	8	1	0	1	0	0	0	1	1	4	1	3	1	3	4	4	1	3	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:711872A>G	uc003zgl.1	+	7	1755	c.1106A>G	c.(1105-1107)CAA>CGA	p.Q369R	KANK1_uc003zgm.2_Missense_Mutation_p.Q369R|KANK1_uc003zgn.1_Missense_Mutation_p.Q369R|KANK1_uc003zgo.1_Missense_Mutation_p.Q369R|KANK1_uc003zgp.1_Missense_Mutation_p.Q369R|KANK1_uc003zgq.2_Missense_Mutation_p.Q211R|KANK1_uc003zgr.1_Missense_Mutation_p.Q211R|KANK1_uc003zgs.1_Missense_Mutation_p.Q211R	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	369	Potential.				negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		GAGTTCCGGCAACTTACAGCA	0.552													17	68					0	0	0.006122	0	0		G	711872	G	G	711872	3	3	134	1	0	0	0	0	1	0	0	0	7992	130	5	3	1112	3	KANK1	9	711872	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	329261	711872	140501559	836	73494											
SMARCA2	6595	broad.mit.edu	37	chr9	2123850	2123850	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaggctcacctgtgaagaAgaggaggagaaaatatttgg	16	7	14	4	0	1	4	1	1	0	3	1	7	1	5	1	4	0	1	1	4	6	2	rs141291951		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:2123850A>G	uc003zhc.2	+	27	3993	c.3894A>G	c.(3892-3894)GAA>GAG	p.E1298E	SMARCA2_uc003zhd.2_Silent_p.E1298E|SMARCA2_uc010mha.2_Silent_p.E1231E	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1298	Poly-Glu.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		CCTGTGAAGAAGAGGAGGAGA	0.562													8	18					0	0	0.004482	0	0		G	2123850	G	G	2123850	2	3	134	1	0	0	0	0	0	0	0	1	14794	69	3	3		3	SMARCA2	9	2123850	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1411978	2123850	139089581	837	73495											
RANBP6	26953	broad.mit.edu	37	chr9	6014994	6014994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagcaagtacaaatgcagctGcagctctagcggataatgtc	13	9	10	9	1	1	0	0	0	1	0	2	1	1	1	0	1	7	6	0	1	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:6014994G>A	uc003zjr.2	-	1	625	c.614C>T	c.(613-615)GCA>GTA	p.A205V	RANBP6_uc011lmf.1_Intron|RANBP6_uc003zjs.2_Intron	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	205	Poly-Ala.				protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		AAATGCAGCTGCAGCTCTAGC	0.423													60	93					0	0	0.01441	0	0		A	6014994	A	A	6014994	3	1	134	1	0	0	0	0	1	0	0	0	13056	1319	46	2	2707	2	RANBP6	9	6014994	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3891144	6014994	135198437	838	73496											
GLDC	2731	broad.mit.edu	37	chr9	6645245	6645245	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgggtggaggtccttacCgccagccccaaggtctgcag	6	6	15	14	2	1	0	0	0	1	0	2	1	2	1	6	5	3	1	6	5	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:6645245C>T	uc003zkc.2	-	1	448	c.255G>A	c.(253-255)GCG>GCA	p.A85A		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	85					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	AGGTCCTTACCGCCAGCCCCA	0.706													7	15					0	0	0.00308	0	0		T	6645245	T	T	6645245	2	4	134	1	0	0	0	0	0	0	0	1	6448	666	23	1		1	GLDC	9	6645245	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	630251	6645245	134568186	839	73497											
MPDZ	8777	broad.mit.edu	37	chr9	13125277	13125277	+	Frame_Shift_Del	DEL	T	-	-																															tcagagactgggagctgttcTttttttctccactggctgca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:13125277delT	uc010mia.1	-	34	4802	c.4745delA	c.(4744-4746)AAGfs	p.K1582fs	MPDZ_uc003zky.3_Frame_Shift_Del_p.K144fs|MPDZ_uc010mib.2_Frame_Shift_Del_p.K287fs|MPDZ_uc010mhx.2_Frame_Shift_Del_p.K404fs|MPDZ_uc011lmm.1_Frame_Shift_Del_p.K441fs|MPDZ_uc003zkz.3_Frame_Shift_Del_p.K275fs|MPDZ_uc010mhy.2_Frame_Shift_Del_p.K1582fs|MPDZ_uc010mhz.2_Frame_Shift_Del_p.K1549fs|MPDZ_uc011lmn.1_Frame_Shift_Del_p.K1549fs|MPDZ_uc003zlb.3_Frame_Shift_Del_p.K1582fs	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1582					interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		GGAGCTGTTCTTTTTTTCTCC	0.517													56	108	---	---	---	---						.	-	13125277	-	-	13125277	7	5	134	1	0	1	0	1	0	0	0	0	9740	1609	56	0	1428	0	MPDZ	9	13125277	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	6480032	13125277	128088154	840	73498											
IFNA7	3444	broad.mit.edu	37	chr9	21201793	21201793	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttccaccccaacctcctgTatcacacatgcttccaggtc	8	11	4	18	0	2	0	1	0	1	0	6	0	5	0	6	1	2	2	6	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:21201793T>C	uc003zop.1	-	1	412	c.372A>G	c.(370-372)ATA>ATG	p.I124M	IFNA14_uc003zoo.1_Intron	NM_021057	NP_066401	P01567	IFNA7_HUMAN	interferon, alpha 7 precursor	124					blood coagulation|cell-cell signaling|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				GBM - Glioblastoma multiforme(5;4.75e-197)|Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		CAACCTCCTGTATCACACATG	0.458													5	399					0	0	0.001984	0	0		C	21201793	C	C	21201793	3	2	134	1	0	0	0	0	1	0	0	0	7558	1628	57	3	201	3	IFNA7	9	21201793	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	8076516	21201793	120011638	841	73499											
CDKN2A	1029	broad.mit.edu	37	chr9	21971106	21971106	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagccctcccgggcagcGtcgtgcacgggtcgggtgag	6	5	18	12	5	0	1	0	1	0	0	3	2	1	2	2	4	3	2	2	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:21971106G>A	uc003zpk.2	-	2	464	c.252C>T	c.(250-252)GAC>GAT	p.D84D	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.R140C	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	84	ANK 3.		D -> E (in a bladder tumor).|D -> N (in an esophagus, a head and neck and a lung tumor).|D -> H (in non-small cell lung carcinoma).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(13)|p.D84Y(9)|p.D84V(4)|p.D84N(3)|p.D84fs*63(2)|p.D84G(2)|p.D84H(2)|p.H83fs*2(2)|p.D84_F90del(1)|p.D84D(1)|p.V82_E88del(1)|p.V82_G89>G(1)|p.D84fs*0(1)|p.E61_L94del(1)|p.D84fs*36(1)|p.R137fs*48(1)|p.A68fs*3(1)|p.P81_A85del(1)|p.R80fs*34(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCCGGGCAGCGTCGTGCACGG	0.741		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			15	31					0	0	0.010504	0	0		A	21971106	A	A	21971106	2	1	134	1	0	0	0	0	0	0	0	1	3164	1145	40	1		1	CDKN2A	9	21971106	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	769313	21971106	119242325	842	73500											
DMRTA1	63951	broad.mit.edu	37	chr9	22447574	22447574	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcctggccccccggtggTcgggcatccgggggcggcgg	1	6	18	16	5	1	0	0	0	1	0	4	0	2	0	5	8	0	1	5	8	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:22447574T>C	uc003zpp.1	+	1	735	c.510T>C	c.(508-510)GGT>GGC	p.G170G		NM_022160	NP_071443	Q5VZB9	DMRTA_HUMAN	DMRT-like family A1	170					cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|skin(1)	2		all_cancers(5;4.09e-243)|Acute lymphoblastic leukemia(3;8.25e-150)|all_hematologic(3;4.25e-147)|Esophageal squamous(3;2.32e-09)|Renal(3;1.71e-07)|Breast(3;2.07e-06)|Hepatocellular(5;0.00563)		GBM - Glioblastoma multiforme(1;5.12e-278)|Lung(24;8.2e-52)|LUSC - Lung squamous cell carcinoma(38;1.46e-37)|OV - Ovarian serous cystadenocarcinoma(39;0.0517)		CCCCCGGTGGTCGGGCATCCG	0.751													4	12					0	0	0.000602	0	0		C	22447574	C	C	22447574	2	2	134	1	0	0	0	0	0	0	0	1	4594	1654	58	3		3	DMRTA1	9	22447574	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	476468	22447574	118765857	843	73501											
LRRC19	64922	broad.mit.edu	37	chr9	26995768	26995768	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgggcatttgatagcaatAaaaatgagaagtgaagtcgt	16	11	11	3	1	0	3	0	3	0	1	1	4	0	3	0	1	1	2	0	1	7	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:26995768A>G	uc003zqh.2	-	5	975	c.864T>C	c.(862-864)TTT>TTC	p.F288F	IFT74_uc010mja.2_Intron|IFT74_uc010mjb.2_Intron|IFT74_uc003zqf.3_Intron|IFT74_uc003zqg.3_Intron	NM_022901	NP_075052	Q9H756	LRC19_HUMAN	leucine rich repeat containing 19 precursor	288	Helical; (Potential).					integral to membrane					0		all_neural(11;1.81e-09)		Lung(218;1.06e-05)|LUSC - Lung squamous cell carcinoma(38;0.0001)		TGATAGCAATAAAAATGAGAA	0.373													61	96					0	0	0.01441	0	0		G	26995768	G	G	26995768	2	3	134	1	0	0	0	0	0	0	0	1	8993	359	13	3		3	LRRC19	9	26995768	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4548194	26995768	114217663	844	73502											
KIF24	347240	broad.mit.edu	37	chr9	34297077	34297077	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatacatcctgattggtgcaCgcctcaccaaagacttcatc	11	11	6	13	1	2	2	2	1	0	1	4	2	3	2	3	1	2	1	3	1	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:34297077C>T	uc003zua.3	-	4	969	c.849G>A	c.(847-849)GCG>GCA	p.A283A	KIF24_uc010mkb.2_Silent_p.A314A	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	283	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			GATTGGTGCACGCCTCACCAA	0.308													4	15					0	0	0.009096	0	0		T	34297077	T	T	34297077	2	4	134	1	0	0	0	0	0	0	0	1	8308	523	19	1		1	KIF24	9	34297077	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	7301309	34297077	106916354	845	73503											
KIAA1161	57462	broad.mit.edu	37	chr9	34371197	34371197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actgcatggccggcataaagGcggccacttccagccagcga	10	5	12	14	3	0	0	0	0	0	0	1	1	1	0	4	4	3	2	4	4	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:34371197G>A	uc003zue.3	-	3	1912	c.1745C>T	c.(1744-1746)GCC>GTC	p.A582V		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	582	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		CGGCATAAAGGCGGCCACTTC	0.677													7	16					0	0	0.001984	0	0		A	34371197	A	A	34371197	3	1	134	1	0	0	0	0	1	0	0	0	8227	1203	42	2	403	2	KIAA1161	9	34371197	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	74120	34371197	106842234	846	73504											
IL11RA	3590	broad.mit.edu	37	chr9	34658640	34658640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacttcctgctcaagttccGtttgcagtaccgtccggcgc	5	11	9	16	4	1	0	1	0	0	0	4	0	4	0	5	1	3	5	5	1	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:34658640G>A	uc003zvi.2	+	8	2126	c.770G>A	c.(769-771)CGT>CAT	p.R257H	IL11RA_uc011loq.1_Missense_Mutation_p.R257H|IL11RA_uc003zvj.2_Missense_Mutation_p.R257H|IL11RA_uc003zvk.2_Missense_Mutation_p.R257H|IL11RA_uc010mke.2_Missense_Mutation_p.R139H|IL11RA_uc003zvl.2_RNA	NM_004512	NP_004503	Q14626	I11RA_HUMAN	interleukin 11 receptor, alpha isoform 1	257	Extracellular (Potential).|Fibronectin type-III 2.					integral to plasma membrane	cytokine receptor activity			skin(1)	1	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.174)	Oprelvekin(DB00038)	CTCAAGTTCCGTTTGCAGTAC	0.642													71	95					0	0	0.01441	0	0		A	34658640	A	A	34658640	3	1	134	1	0	0	0	0	1	0	0	0	7639	1145	40	1	796	1	IL11RA	9	34658640	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	287443	34658640	106554791	847	73505											
UNC13B	10497	broad.mit.edu	37	chr9	35380612	35380612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggttcggaccctaagtggcGagatggacgtctggtacaac	10	8	14	9	3	1	1	0	0	1	1	2	4	1	3	1	5	2	2	1	5	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:35380612G>A	uc003zwq.2	+	17	2396	c.2104G>A	c.(2104-2106)GAG>AAG	p.E702K	UNC13B_uc003zwr.2_Missense_Mutation_p.E702K	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	702					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			CCTAAGTGGCGAGATGGACGT	0.488													63	123					0	0	0.01441	0	0		A	35380612	A	A	35380612	3	1	134	1	0	0	0	0	1	0	0	0	17011	1059	37	1	2170	1	UNC13B	9	35380612	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	721972	35380612	105832819	848	73506											
UNC13B	10497	broad.mit.edu	37	chr9	35381108	35381108	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcctagagaagaggacaGacaaatcagccgtctcaggg	13	6	11	11	1	2	3	2	0	1	3	4	5	3	4	3	2	1	0	3	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:35381108G>T	uc003zwq.2	+	18	2432	c.2140G>T	c.(2140-2142)GAC>TAC	p.D714Y	UNC13B_uc003zwr.2_Missense_Mutation_p.D714Y	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	714					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			GAAGAGGACAGACAAATCAGC	0.483													19	37					2.94398e-08	3.25277e-08	0.007413	1	0		T	35381108	T	T	35381108	3	4	134	1	0	0	0	0	1	0	0	0	17011	942	33	5	2210	5	UNC13B	9	35381108	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	496	35381108	105832323	849	73507											
CLTA	1211	broad.mit.edu	37	chr9	36199078	36199078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagagaagaacaaatggaaCgcttggaagcccttggtaag	15	6	14	6	1	0	2	0	0	0	2	0	6	0	5	1	4	3	2	1	4	6	3	rs138031703		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:36199078C>T	uc003zzc.2	+	3	520	c.358C>T	c.(358-360)CGC>TGC	p.R120C	CLTA_uc003zzd.2_Missense_Mutation_p.R120C|CLTA_uc003zze.2_Missense_Mutation_p.R120C|CLTA_uc011lpk.1_Missense_Mutation_p.R120C|CLTA_uc003zzf.1_RNA	NM_007096	NP_009027	P09496	CLCA_HUMAN	clathrin, light polypeptide A isoform b	120	Involved in binding clathrin heavy chain.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol	structural molecule activity			central_nervous_system(1)	1			STAD - Stomach adenocarcinoma(86;0.228)			ACAAATGGAACGCTTGGAAGC	0.423													95	171					0	0	0.01441	0	0		T	36199078	T	T	36199078	3	4	134	1	0	0	0	0	1	0	0	0	3567	536	19	1	368	1	CLTA	9	36199078	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	817970	36199078	105014353	850	73508											
GNE	10020	broad.mit.edu	37	chr9	36249330	36249330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caacacaaacccgcagctttCggttatttccattcttctcc	9	13	4	15	2	2	0	0	0	2	0	5	0	3	0	3	1	3	3	3	1	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:36249330C>T	uc010mlh.2	-	2	238	c.23G>A	c.(22-24)CGA>CAA	p.R8Q	CLTA_uc003zzf.1_Intron|GNE_uc010mlg.2_Missense_Mutation_p.R8Q|GNE_uc011lpl.1_Intron|GNE_uc010mli.2_Missense_Mutation_p.R39Q|GNE_uc010mlj.2_Intron	NM_005476	NP_005467	Q9Y223	GLCNE_HUMAN	UDP-N-acetylglucosamine-2-epimerase/N-	8	UDP-N-acetylglucosamine 2-epimerase.				cell adhesion|lipopolysaccharide biosynthetic process|N-acetylneuraminate metabolic process|UDP-N-acetylglucosamine metabolic process		ATP binding|N-acylmannosamine kinase activity|UDP-N-acetylglucosamine 2-epimerase activity				0			STAD - Stomach adenocarcinoma(86;0.228)			CCGCAGCTTTCGGTTATTTCC	0.363													76	133					0	0	0.01441	0	0		T	36249330	T	T	36249330	3	4	134	1	0	0	0	0	1	0	0	0	6537	884	31	1	2189	1	GNE	9	36249330	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	50252	36249330	104964101	851	73509											
MELK	9833	broad.mit.edu	37	chr9	36589562	36589562	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccggatcaaaacggagatTgaggccttgaagaacctgag	13	6	12	10	2	1	5	1	3	0	2	1	7	1	6	4	3	2	0	4	3	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:36589562T>C	uc003zzn.2	+	4	312	c.174T>C	c.(172-174)ATT>ATC	p.I58I	MELK_uc011lpm.1_5'UTR|MELK_uc011lpn.1_Silent_p.I58I|MELK_uc011lpo.1_5'UTR|MELK_uc010mll.2_Silent_p.I26I|MELK_uc011lpp.1_Silent_p.I58I|MELK_uc010mlm.2_Intron|MELK_uc011lpq.1_5'UTR|MELK_uc011lpr.1_Silent_p.I58I|MELK_uc011lps.1_Silent_p.I26I	NM_014791	NP_055606	Q14680	MELK_HUMAN	maternal embryonic leucine zipper kinase	58	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		Acute lymphoblastic leukemia(2;1.09e-08)|all_hematologic(2;8.15e-06)	STAD - Stomach adenocarcinoma(86;0.228)			AAACGGAGATTGAGGCCTTGA	0.408													110	147					0	0	0.01441	0	0		C	36589562	C	C	36589562	2	2	134	1	0	0	0	0	0	0	0	1	9488	1800	63	3		3	MELK	9	36589562	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	340232	36589562	104623869	852	73510											
ZBTB5	9925	broad.mit.edu	37	chr9	37441103	37441103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaggcccatcacctcctgCataggcctgacgaagtggga	9	6	13	13	1	1	1	1	1	0	0	2	3	2	2	4	4	1	2	4	4	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:37441103C>T	uc003zzx.2	-	2	1646	c.1446G>A	c.(1444-1446)ATG>ATA	p.M482I		NM_014872	NP_055687	O15062	ZBTB5_HUMAN	zinc finger and BTB domain containing 5	482					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(29;0.00733)|Lung(182;0.226)		TCACCTCCTGCATAGGCCTGA	0.592													19	31					0	0	0.007413	0	0		T	37441103	T	T	37441103	3	4	134	1	0	0	0	0	1	0	0	0	17576	710	25	2	591	2	ZBTB5	9	37441103	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	851541	37441103	103772328	853	73511											
ZBTB5	9925	broad.mit.edu	37	chr9	37441822	37441822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattccatcagctttaggatTatccacaattttcagagaat	13	14	5	9	0	2	1	2	0	0	1	4	3	4	2	2	1	1	1	2	1	4	6	rs139375543	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:37441822T>C	uc003zzx.2	-	2	927	c.727A>G	c.(727-729)AAT>GAT	p.N243D		NM_014872	NP_055687	O15062	ZBTB5_HUMAN	zinc finger and BTB domain containing 5	243					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(29;0.00733)|Lung(182;0.226)		GCTTTAGGATTATCCACAATT	0.463													78	110					0	0	0.01441	0	0		C	37441822	C	C	37441822	3	2	134	1	0	0	0	0	1	0	0	0	17576	1754	61	3	1310	3	ZBTB5	9	37441822	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	719	37441822	103771609	854	73512											
EXOSC3	51010	broad.mit.edu	37	chr9	37784757	37784757	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccagtaaacaccgccgccGctgccactgccgggctcctt	7	6	9	19	4	0	0	0	0	0	0	1	0	1	0	7	1	3	3	7	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:37784757G>A	uc004aal.2	-	1	311	c.285C>T	c.(283-285)AGC>AGT	p.S95S	EXOSC3_uc010mly.1_Silent_p.S95S|EXOSC3_uc004aam.2_Silent_p.S95S	NM_016042	NP_057126	Q9NQT5	EXOS3_HUMAN	exosome component 3 isoform 1	95				S -> G (in Ref. 7; AAD34097).	CUT catabolic process|DNA deamination|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|isotype switching|rRNA processing	cytoplasmic exosome (RNase complex)|cytosol|nuclear exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5'-exoribonuclease activity|protein binding|RNA binding			breast(2)	2				GBM - Glioblastoma multiforme(29;0.00771)|Lung(182;0.221)		CACCGCCGCCGCTGCCACTGC	0.677													5	11					0	0	0.001984	0	0		A	37784757	A	A	37784757	2	1	134	1	0	0	0	0	0	0	0	1	5324	1078	38	1		1	EXOSC3	9	37784757	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	342935	37784757	103428674	855	73513											
FAM122A	116224	broad.mit.edu	37	chr9	71395787	71395788	+	Frame_Shift_Del	DEL	GT	-	-																															tgcacagctgtcagatcctgGtgtgtgtgtatcttcggata																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:71395787_71395788delGT	uc004agw.1	+	1	824_825	c.707_708delGT	c.(706-708)GGTfs	p.G236fs	PIP5K1B_uc004agu.2_Intron|PIP5K1B_uc011lrq.1_Intron|PIP5K1B_uc004agv.2_Intron	NM_138333	NP_612206	Q96E09	F122A_HUMAN	hypothetical protein LOC116224	236											0						TCAGATCCTGGTGTGTGTGTAT	0.46													92	201	---	---	---	---						.	-	71395788	-	-	71395787	7	5	134	1	0	1	0	1	0	0	0	0	5430	1261	44	0	709	0	FAM122A	9	71395787	Frame_Shift_Del	DEL	GT	TCGA-CG-4442-01A-01D-1158-08	33611030	71395787	69817644	856	73514											
APBA1	320	broad.mit.edu	37	chr9	72056032	72056032	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggactgattctttaagccCttaaacatgaataaagtaca	15	11	7	8	1	1	2	0	2	1	0	1	3	1	3	1	1	3	1	1	1	7	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:72056032C>A	uc004ahh.2	-	11	2458	c.2182_splice	c.e11-1	p.G728_splice		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,						axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						TCTTTAAGCCCTTAAACATGA	0.473													44	72					1.23103e-26	1.43834e-26	0.013114	1	0		A	72056032	A	A	72056032	5	1	134	1	0	0	0	0	0	0	1	0	756	695	24	5	344	5	APBA1	9	72056032	Splice_Site	SNP	C	TCGA-CG-4442-01A-01D-1158-08	660245	72056032	69157399	857	73515											
PRUNE2	158471	broad.mit.edu	37	chr9	79318675	79318675	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaaagatgatctcgtatcGcttttagaagacattttctc	12	15	6	8	2	3	4	1	1	2	3	6	4	3	4	0	0	0	2	0	0	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:79318675G>A	uc010mpk.2	-	9	7978	c.7854C>T	c.(7852-7854)AGC>AGT	p.S2618S	PRUNE2_uc004akj.3_Silent_p.S71S|PRUNE2_uc010mpl.1_Silent_p.S71S	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	2618				S -> G (in Ref. 4; BAD93351 and 6; BAA20822).	apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						ATCTCGTATCGCTTTTAGAAG	0.483													33	56					0	0	0.009535	0	0		A	79318675	A	A	79318675	2	1	134	1	0	0	0	0	0	0	0	1	12663	1078	38	1		1	PRUNE2	9	79318675	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	7262643	79318675	61894756	858	73516											
VPS13A	23230	broad.mit.edu	37	chr9	79897181	79897181	+	Frame_Shift_Del	DEL	A	-	-																															aagacaaaggagatgtcattAaaaaattaggtatgtttttt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:79897181delA	uc004akr.2	+	29	3369	c.3109delA	c.(3109-3111)AAAfs	p.K1037fs	VPS13A_uc004akp.3_Frame_Shift_Del_p.K1037fs|VPS13A_uc004akq.3_Frame_Shift_Del_p.K1037fs|VPS13A_uc004aks.2_Frame_Shift_Del_p.K1037fs	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1037					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						AGATGTCATTAAAAAATTAGG	0.299													27	56	---	---	---	---						.	-	79897181	-	-	79897181	7	5	134	1	0	1	0	1	0	0	0	0	17215	363	13	0	3223	0	VPS13A	9	79897181	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	578506	79897181	61316250	859	73517											
GNA14	9630	broad.mit.edu	37	chr9	80046287	80046287	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactcaatgatgccggtggtGggcactcggacgcgaagcac	9	7	14	11	4	1	1	1	1	0	0	2	3	1	2	1	4	3	2	1	4	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:80046287G>T	uc004aku.2	-	4	1066	c.543C>A	c.(541-543)CCC>CCA	p.P181P		NM_004297	NP_004288	O95837	GNA14_HUMAN	G alpha 14	181	GTP (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(2)	2						TGCCGGTGGTGGGCACTCGGA	0.488													50	79					4.53422e-39	5.3727e-39	0.01441	1	0		T	80046287	T	T	80046287	2	4	134	1	0	0	0	0	0	0	0	1	6517	1335	47	5		5	GNA14	9	80046287	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	149106	80046287	61167144	860	73518											
SLC28A3	64078	broad.mit.edu	37	chr9	86924587	86924587	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcctccatgtgttctcTgtttcttggagaatcctgct	6	17	7	11	0	3	1	1	0	2	1	7	2	6	1	3	1	1	3	3	1	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:86924587T>G	uc010mpz.2	-	3	324	c.199A>C	c.(199-201)AGA>CGA	p.R67R	SLC28A3_uc011lsy.1_5'UTR|SLC28A3_uc004anu.1_Silent_p.R67R|SLC28A3_uc010mqb.2_5'UTR	NM_022127	NP_071410	Q9HAS3	S28A3_HUMAN	concentrative Na+-nucleoside cotransporter	67	Cytoplasmic (Potential).		R -> K.		nucleobase, nucleoside and nucleotide metabolic process	integral to membrane|plasma membrane	nucleoside binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|skin(1)	4						ATGTGTTCTCTGTTTCTTGGA	0.428													125	200					0	0	0.01441	0	0		G	86924587	G	G	86924587	2	3	134	1	0	0	0	0	0	0	0	1	14558	1588	55	5		5	SLC28A3	9	86924587	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	6878300	86924587	54288844	861	73519											
DAPK1	1612	broad.mit.edu	37	chr9	90283523	90283523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccaacaggacggaaagacGgcagaagatcttgctagatc	14	6	11	10	2	1	4	0	0	1	4	3	6	2	6	1	3	2	2	1	3	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:90283523G>A	uc004apc.2	+	19	2073	c.1935G>A	c.(1933-1935)ACG>ACA	p.T645T	DAPK1_uc004apd.2_Silent_p.T645T|DAPK1_uc011ltg.1_Silent_p.T645T|DAPK1_uc011lth.1_Silent_p.T382T|DAPK1_uc004apf.1_Silent_p.T199T	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	645					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						ACGGAAAGACGGCAGAAGATC	0.463									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				107	230					0	0	0.01441	0	0		A	90283523	A	A	90283523	2	1	134	1	0	0	0	0	0	0	0	1	4238	1103	39	1		1	DAPK1	9	90283523	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3358936	90283523	50929908	862	73520											
FAM75C1	441452	broad.mit.edu	37	chr9	90535683	90535683	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttggcggctcaaacagTcaagtttctgccctctcctg	6	11	10	14	1	4	0	2	0	2	0	5	0	4	0	3	3	2	2	3	3	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:90535683T>C	uc010mqi.2	+	4	890	c.861T>C	c.(859-861)AGT>AGC	p.S287S	FAM75C1_uc004apq.3_Silent_p.S270S	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						GCTCAAACAGTCAAGTTTCTG	0.557													56	128					0	0	0.01441	0	0		C	90535683	C	C	90535683	2	2	134	1	0	0	0	0	0	0	0	1	5637	1664	58	3		3	FAM75C1	9	90535683	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	252160	90535683	50677748	863	73521											
CDK20	23552	broad.mit.edu	37	chr9	90589317	90589317	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccttgaagacgatgccGtgggcgccctccccgatgcg	5	8	14	14	5	0	2	0	1	0	1	1	4	1	2	5	2	2	0	5	2	1	2	rs138136908		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:90589317G>A	uc004apr.2	-	1	351	c.45C>T	c.(43-45)CAC>CAT	p.H15H	CDK20_uc004aps.2_Silent_p.H15H|CDK20_uc004apt.2_Silent_p.H15H|CDK20_uc004apu.2_Silent_p.H15H	NM_001039803	NP_001034892	Q8IZL9	CDK20_HUMAN	cell cycle related kinase isoform 3	15	Protein kinase.|ATP (By similarity).				cell division|multicellular organismal development	cilium|mitochondrion|nucleus	ATP binding|cyclin-dependent protein kinase activity			skin(1)	1						AGACGATGCCGTGGGCGCCCT	0.682													19	47					0	0	0.014323	0	0		A	90589317	A	A	90589317	2	1	134	1	0	0	0	0	0	0	0	1	3140	1136	40	1		1	CDK20	9	90589317	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	53634	90589317	50624114	864	73522											
S1PR3	1903	broad.mit.edu	37	chr9	91617003	91617003	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aactccgccatgaacccggtCatctacacgctggccagcaa	11	6	8	16	3	2	1	1	1	1	0	3	1	3	1	4	2	4	2	4	2	4	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:91617003C>T	uc004aqe.2	+	2	1284	c.888C>T	c.(886-888)GTC>GTT	p.V296V		NM_005226	NP_005217	Q99500	S1PR3_HUMAN	sphingosine-1-phosphate receptor 3	296	Helical; Name=7; (By similarity).				anatomical structure morphogenesis|elevation of cytosolic calcium ion concentration|inflammatory response|positive regulation of cell proliferation	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)|central_nervous_system(1)|skin(1)	5						TGAACCCGGTCATCTACACGC	0.637													17	28					0	0	0.012319	0	0		T	91617003	T	T	91617003	2	4	134	1	0	0	0	0	0	0	0	1	13820	813	29	4		4	S1PR3	9	91617003	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1027686	91617003	49596428	865	73523											
SEMA4D	10507	broad.mit.edu	37	chr9	91994223	91994223	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcctactaccttctgtcTgaacaactgacaaggtgggg	11	10	9	11	0	2	2	0	2	2	0	3	2	3	2	2	3	4	0	2	3	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:91994223T>C	uc004aqo.1	-	18	2557	c.1985A>G	c.(1984-1986)CAG>CGG	p.Q662R	SEMA4D_uc011ltm.1_Intron|SEMA4D_uc011ltn.1_Intron|SEMA4D_uc011lto.1_Intron|SEMA4D_uc004aqp.1_Missense_Mutation_p.Q660R	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	662	Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						ACCTTCTGTCTGAACAACTGA	0.577													123	215					0	0	0.01441	0	0		C	91994223	C	C	91994223	3	2	134	1	0	0	0	0	1	0	0	0	14059	1580	55	3	1177	3	SEMA4D	9	91994223	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	377220	91994223	49219208	866	73524											
NOL8	55035	broad.mit.edu	37	chr9	95077286	95077286	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaagccacaatctccgcagGacgaatacactgtcggcctc	11	6	10	14	3	1	0	0	0	1	0	4	3	1	2	3	3	2	1	3	3	4	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:95077286G>T	uc004arv.2	-	7	1958	c.1621C>A	c.(1621-1623)CCT>ACT	p.P541T	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Intron|NOL8_uc011ltw.1_Missense_Mutation_p.P473T	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	541					DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						ATCTCCGCAGGACGAATACAC	0.502													30	62					1.36161e-19	1.55834e-19	0.004289	1	0		T	95077286	T	T	95077286	3	4	134	1	0	0	0	0	1	0	0	0	10546	1174	41	5	1926	5	NOL8	9	95077286	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3083063	95077286	46136145	867	73525											
BICD2	23299	broad.mit.edu	37	chr9	95482718	95482718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttgtccagtggcagcttgGccaggccgccgtgctcaaag	6	9	14	12	2	1	0	1	0	0	0	2	0	2	0	4	3	2	4	4	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:95482718G>A	uc004aso.1	-	4	983	c.926C>T	c.(925-927)GCC>GTC	p.A309V	BICD2_uc004asp.1_Missense_Mutation_p.A309V	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	309					microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						TGGCAGCTTGGCCAGGCCGCC	0.627													34	40					0	0	0.004878	0	0		A	95482718	A	A	95482718	3	1	134	1	0	0	0	0	1	0	0	0	1430	1203	42	2	1667	2	BICD2	9	95482718	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	405432	95482718	45730713	868	73526											
FGD3	89846	broad.mit.edu	37	chr9	95780428	95780428	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccttcaggtgcaggataTcgtcaagccaaacacagcac	12	6	9	14	1	2	0	2	0	0	0	3	1	2	1	3	2	4	2	3	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:95780428T>C	uc004asw.2	+	11	1914	c.1286T>C	c.(1285-1287)ATC>ACC	p.I429T	FGD3_uc004asx.2_Missense_Mutation_p.I429T|FGD3_uc004asz.2_Missense_Mutation_p.I429T|FGD3_uc004ata.2_Missense_Mutation_p.I232T|FGD3_uc011luc.1_Missense_Mutation_p.I32T	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	429	PH 1.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						GTGCAGGATATCGTCAAGCCA	0.463													7	109					0	0	0.00308	0	0		C	95780428	C	C	95780428	3	2	134	1	0	0	0	0	1	0	0	0	5848	1435	50	3	1320	3	FGD3	9	95780428	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	297710	95780428	45433003	869	73527											
ZNF367	195828	broad.mit.edu	37	chr9	99160512	99160512	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctattacagatgttacAacggattctgctggatgaat	12	12	8	9	1	1	2	0	1	1	1	1	4	1	4	1	2	4	2	1	2	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:99160512A>G	uc004awf.2	-	2	860	c.505T>C	c.(505-507)TGT>CGT	p.C169R	ZNF367_uc004awg.2_Missense_Mutation_p.C169R	NM_153695	NP_710162	Q7RTV3	ZN367_HUMAN	zinc finger protein 367	169	C2H2-type 1.				regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0167)				CAGATGTTACAACGGATTCTG	0.433													9	448					0	0	0.008291	0	0		G	99160512	G	G	99160512	3	3	134	1	0	0	0	0	1	0	0	0	17896	130	5	3	563	3	ZNF367	9	99160512	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3380084	99160512	42052919	870	73528											
KIAA1529	57653	broad.mit.edu	37	chr9	100077196	100077196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcctacctcatgcggcccGaagtgtacaggctgataaat	10	10	9	12	2	1	1	1	1	0	0	2	2	2	1	3	2	3	2	3	2	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:100077196G>A	uc011lut.1	+	20	2085	c.1312G>A	c.(1312-1314)GAA>AAA	p.E438K	KIAA1529_uc004axe.1_Missense_Mutation_p.E438K|KIAA1529_uc004axg.1_Missense_Mutation_p.E299K|KIAA1529_uc011lus.1_Missense_Mutation_p.E256K|KIAA1529_uc010msm.1_RNA|KIAA1529_uc004axf.2_Missense_Mutation_p.E299K|KIAA1529_uc011luv.1_Missense_Mutation_p.E296K	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				CATGCGGCCCGAAGTGTACAG	0.498													48	84					0	0	0.01441	0	0		A	100077196	A	A	100077196	3	1	134	1	0	0	0	0	1	0	0	0	8256	1059	37	1	1354	1	KIAA1529	9	100077196	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	916684	100077196	41136235	871	73529											
NANS	54187	broad.mit.edu	37	chr9	100840602	100840602	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcatacccgctccagccTgaggacgtcaacctgcgggt	8	6	12	15	4	1	1	1	1	0	0	2	2	2	2	4	2	5	2	4	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:100840602T>C	uc004ayb.2	+	5	1218	c.576T>C	c.(574-576)CCT>CCC	p.P192P	NANS_uc004ayc.2_Silent_p.P192P|TRIM14_uc004ayd.2_Intron|NANS_uc004aye.1_Silent_p.P40P	NM_018946	NP_061819	Q9NR45	SIAS_HUMAN	N-acetylneuraminic acid phosphate synthase	192					lipopolysaccharide biosynthetic process	cytoplasm	N-acetylneuraminate synthase activity|N-acylneuraminate cytidylyltransferase activity|N-acylneuraminate-9-phosphate synthase activity			skin(1)	1		Acute lymphoblastic leukemia(62;0.0559)				CGCTCCAGCCTGAGGACGTCA	0.527													5	192					0	0	0.000602	0	0		C	100840602	C	C	100840602	2	2	134	1	0	0	0	0	0	0	0	1	10173	1567	55	3		3	NANS	9	100840602	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	763406	100840602	40372829	872	73530											
COL15A1	1306	broad.mit.edu	37	chr9	101806909	101806909	+	Frame_Shift_Del	DEL	G	-	-																															attcctctggaaaggctgatGgggaaaaaggtaattatgtc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:101806909delG	uc004azb.1	+	25	2840	c.2634delG	c.(2632-2634)ATGfs	p.M878fs		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	878	Nonhelical region 5 (NC5).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				AAAGGCTGATGGGGAAAAAGG	0.493													23	52	---	---	---	---						.	-	101806909	-	-	101806909	7	5	134	1	0	1	0	1	0	0	0	0	3675	1348	47	0	2732	0	COL15A1	9	101806909	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	966307	101806909	39406522	873	73531											
SLC44A1	23446	broad.mit.edu	37	chr9	108097858	108097858	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaggtatgtattcttttTggatccatgcaacctggact	8	17	8	8	0	1	0	0	0	1	0	2	2	2	2	2	3	2	3	2	3	4	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:108097858T>A	uc004bcn.2	+	4	505	c.284T>A	c.(283-285)TTG>TAG	p.L95*	SLC44A1_uc010mtk.1_Nonsense_Mutation_p.L95*	NM_080546	NP_536856	Q8WWI5	CTL1_HUMAN	CDW92 antigen	95	Mitochondrial intermembrane (Potential).					integral to membrane|mitochondrial outer membrane|plasma membrane	choline transmembrane transporter activity			breast(3)|ovary(1)	4					Choline(DB00122)	GTATTCTTTTTGGATCCATGC	0.403													73	177					0	0	0.01441	0	0		A	108097858	A	A	108097858	4	1	134	1	0	0	0	0	0	1	0	0	14660	1821	63	5	298	5	SLC44A1	9	108097858	Nonsense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	6290949	108097858	33115573	874	73532											
ZNF462	58499	broad.mit.edu	37	chr9	109690181	109690181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccaacggtttgctcctgCattaccaacggaggcatcca	10	8	9	14	2	0	0	0	0	0	0	2	1	2	1	4	3	6	4	4	3	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:109690181C>T	uc004bcz.2	+	3	4277	c.3988C>T	c.(3988-3990)CAT>TAT	p.H1330Y	ZNF462_uc010mto.2_Missense_Mutation_p.H1178Y|ZNF462_uc004bda.2_Missense_Mutation_p.H1178Y	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1330					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						TTTGCTCCTGCATTACCAACG	0.532													75	97					0	0	0.01441	0	0		T	109690181	T	T	109690181	3	4	134	1	0	0	0	0	1	0	0	0	17951	710	25	2	3994	2	ZNF462	9	109690181	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1592323	109690181	31523250	875	73533											
C9orf5	23731	broad.mit.edu	37	chr9	111853258	111853258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcaaccagatctgcatgAcgacaatggcccaaactaga	14	7	9	11	1	2	3	1	1	1	2	2	4	2	3	2	2	3	2	2	2	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:111853258A>G	uc004bdt.3	-	5	1126	c.1094T>C	c.(1093-1095)GTC>GCC	p.V365A	C9orf5_uc004bds.3_RNA|C9orf5_uc004bdr.3_Missense_Mutation_p.V365A	NM_032012	NP_114401	Q9H330	CI005_HUMAN	hypothetical protein LOC23731	365	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1		Myeloproliferative disorder(63;0.204)		OV - Ovarian serous cystadenocarcinoma(323;3.08e-05)|STAD - Stomach adenocarcinoma(157;0.0823)		GATCTGCATGACGACAATGGC	0.453													3	96					0	0	0.004672	0	0		G	111853258	G	G	111853258	3	3	134	1	0	0	0	0	1	0	0	0	2489	275	10	3	1601	3	C9orf5	9	111853258	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2163077	111853258	29360173	876	73534											
EPB41L4B	54566	broad.mit.edu	37	chr9	111956600	111956600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcacggagacttgtgtggcgGccgttgtggtgtttgtggtt	3	14	18	6	3	0	1	0	0	0	1	0	2	0	1	1	5	0	4	1	5	0	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:111956600G>A	uc004bdz.1	-	21	2418	c.2123C>T	c.(2122-2124)GCC>GTC	p.A708V		NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	708						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						TTGTGTGGCGGCCGTTGTGGT	0.592													67	72					0	0	0.01441	0	0		A	111956600	A	A	111956600	3	1	134	1	0	0	0	0	1	0	0	0	5164	1203	42	2	603	2	EPB41L4B	9	111956600	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	103342	111956600	29256831	877	73535											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112705214	112705214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaagcttaggaggagggCacgtgtctgaaaggactgtg	12	8	15	6	1	2	1	1	1	1	0	2	4	2	4	0	4	1	2	0	4	4	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:112705214C>T	uc004bei.2	+	7	937	c.745C>T	c.(745-747)CAC>TAC	p.H249Y	PALM2_uc004bef.2_Missense_Mutation_p.H251Y|PALM2_uc004beg.2_Missense_Mutation_p.H217Y|PALM2_uc004beh.3_Missense_Mutation_p.H249Y|PALM2-AKAP2_uc004bek.3_Intron|PALM2-AKAP2_uc004bej.3_Intron|PALM2-AKAP2_uc004bel.1_Intron	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						AGGAGGAGGGCACGTGTCTGA	0.463													36	60					0	0	0.004878	0	0		T	112705214	T	T	112705214	3	4	134	1	0	0	0	0	1	0	0	0	11429	710	25	2		2	PALM2-AKAP2	9	112705214	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	748614	112705214	28508217	878	73536											
SUSD1	64420	broad.mit.edu	37	chr9	114840897	114840897	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacattgtagttggtaccCggacgtaggtccaagcacac	10	9	11	11	2	0	1	0	1	0	0	1	2	1	2	2	3	2	5	2	3	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:114840897C>T	uc004bfu.2	-	12	1715	c.1674G>A	c.(1672-1674)CCG>CCA	p.P558P	SUSD1_uc010mui.2_Silent_p.P558P|SUSD1_uc010muj.2_Silent_p.P558P	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	558	Extracellular (Potential).					integral to membrane	calcium ion binding				0						AGTTGGTACCCGGACGTAGGT	0.493													57	126					0	0	0.01441	0	0		T	114840897	T	T	114840897	2	4	134	1	0	0	0	0	0	0	0	1	15432	639	23	1		1	SUSD1	9	114840897	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2135683	114840897	26372534	879	73537											
KIAA1958	158405	broad.mit.edu	37	chr9	115337189	115337189	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatccccctctgtgatcTccagaccaattgtccagaag	9	10	7	15	0	2	3	0	1	2	2	5	3	4	3	5	0	1	1	5	0	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:115337189T>C	uc004bgf.1	+	2	1004	c.829T>C	c.(829-831)TCC>CCC	p.S277P	KIAA1958_uc011lwx.1_Missense_Mutation_p.S277P	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	277										skin(1)	1						CTCTGTGATCTCCAGACCAAT	0.537													37	485					0	0	0.00623	0	0		C	115337189	C	C	115337189	3	2	134	1	0	0	0	0	1	0	0	0	8280	1551	54	3	831	3	KIAA1958	9	115337189	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	496292	115337189	25876242	880	73538											
PRPF4	9128	broad.mit.edu	37	chr9	116053805	116053805	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacacagccaagatctggacGcacccaggctggtccccgct	10	5	10	16	2	1	1	0	0	1	1	2	2	2	2	4	3	2	3	4	3	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:116053805G>A	uc004bgx.2	+	14	1484	c.1434G>A	c.(1432-1434)ACG>ACA	p.T478T	PRPF4_uc004bgy.2_Silent_p.T477T	NM_004697	NP_004688	O43172	PRP4_HUMAN	PRP4 pre-mRNA processing factor 4 homolog	478	WD 6.					Cajal body|nuclear speck|spliceosomal complex|U4/U6 snRNP	protein binding			ovary(2)|pancreas(1)	3						AGATCTGGACGCACCCAGGCT	0.512													54	87					0	0	0.01441	0	0		A	116053805	A	A	116053805	2	1	134	1	0	0	0	0	0	0	0	1	12592	1074	38	1		1	PRPF4	9	116053805	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	716616	116053805	25159626	881	73539											
HDHD3	81932	broad.mit.edu	37	chr9	116136584	116136584	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtggcggagcctgagcagCgtgtccttcacatcccacgt	6	8	14	13	3	1	1	1	1	0	0	3	2	3	2	3	3	3	1	3	3	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:116136584C>T	uc004bhi.1	-	2	835	c.51G>A	c.(49-51)ACG>ACA	p.T17T	HDHD3_uc004bhj.2_Silent_p.T17T|HDHD3_uc004bhk.2_Silent_p.T17T	NM_031219	NP_112496	Q9BSH5	HDHD3_HUMAN	haloacid dehalogenase-like hydrolase domain	17							phosphoglycolate phosphatase activity|protein binding				0						GCCTGAGCAGCGTGTCCTTCA	0.662													10	23					0	0	0.013537	0	0		T	116136584	T	T	116136584	2	4	134	1	0	0	0	0	0	0	0	1	7040	755	27	1		1	HDHD3	9	116136584	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	82779	116136584	25076847	882	73540											
ZNF618	114991	broad.mit.edu	37	chr9	116812206	116812206	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctaggcaaaaatgaagtgtAcgattacctgcaggagcccc	13	7	11	10	1	0	1	0	1	0	0	0	3	0	2	3	2	4	4	3	2	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:116812206A>G	uc004bid.2	+	15	2723	c.2624A>G	c.(2623-2625)TAC>TGC	p.Y875C	ZNF618_uc004bic.2_Missense_Mutation_p.Y782C|ZNF618_uc011lxi.1_Missense_Mutation_p.Y842C|ZNF618_uc011lxj.1_Missense_Mutation_p.Y843C|ZNF618_uc010mvb.2_Missense_Mutation_p.Y465C	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	875					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AATGAAGTGTACGATTACCTG	0.582													5	145					0	0	0.000602	0	0		G	116812206	G	G	116812206	3	3	134	1	0	0	0	0	1	0	0	0	18067	391	14	3	2399	3	ZNF618	9	116812206	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	675622	116812206	24401225	883	73541											
TRIM32	22954	broad.mit.edu	37	chr9	119461434	119461434	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaggagccagctgagcaaAccatggggtatcacagcctt	12	6	11	12	0	1	1	1	1	0	0	1	2	1	2	3	3	5	3	3	3	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:119461434A>G	uc004bjx.2	+	2	1571	c.1413A>G	c.(1411-1413)AAA>AAG	p.K471K	ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjs.1_Intron|ASTN2_uc004bjt.1_Intron|TRIM32_uc004bjw.2_Silent_p.K471K	NM_001099679	NP_001093149	Q13049	TRI32_HUMAN	tripartite motif-containing 32	471	NHL 3.				fat cell differentiation|innate immune response|negative regulation of apoptosis|negative regulation of fibroblast proliferation|positive regulation of cell cycle|positive regulation of cell growth|positive regulation of cell migration|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein catabolic process|positive regulation of proteolysis|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to tumor necrosis factor|response to UV	nucleus	myosin binding|protein self-association|RNA binding|Tat protein binding|transcription coactivator activity|translation initiation factor binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(2)|kidney(1)	3						AGCTGAGCAAACCATGGGGTA	0.532									Bardet-Biedl_syndrome				4	137					0	0	0.001168	0	0		G	119461434	G	G	119461434	2	3	134	1	0	0	0	0	0	0	0	1	16532	40	2	3		3	TRIM32	9	119461434	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2649228	119461434	21751997	884	73542											
C5	727	broad.mit.edu	37	chr9	123737105	123737105	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtcattttataattatgTaaggcacctttatgcttgta	10	19	6	6	0	2	0	1	0	1	0	2	0	2	0	1	1	1	4	1	1	6	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:123737105T>C	uc004bkv.2	-	30	3999	c.3969A>G	c.(3967-3969)TTA>TTG	p.L1323L		NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	1323					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	TATAATTATGTAAGGCACCTT	0.388													6	278					0	0	0.001168	0	0		C	123737105	C	C	123737105	2	2	134	1	0	0	0	0	0	0	0	1	2283	1635	57	3		3	C5	9	123737105	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4275671	123737105	17476326	885	73543											
C5	727	broad.mit.edu	37	chr9	123776151	123776151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagaaaatgtcatacttacGtagccttcccaattgcatgt	13	13	6	9	1	1	1	1	0	0	1	2	1	2	1	2	0	4	2	2	0	7	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:123776151G>A	uc004bkv.2	-	17	2287	c.2257C>T	c.(2257-2259)CAC>TAC	p.H753Y	C5_uc010mvm.1_Missense_Mutation_p.H753Y	NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	753					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	TCATACTTACGTAGCCTTCCC	0.383													63	130					0	0	0.01441	0	0		A	123776151	A	A	123776151	3	1	134	1	0	0	0	0	1	0	0	0	2283	1159	40	1	2873	1	C5	9	123776151	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	39046	123776151	17437280	886	73544											
DAB2IP	153090	broad.mit.edu	37	chr9	124535261	124535261	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acctccgagggcgcgccaggCcggccccagctgttggcacc	5	4	14	18	4	0	0	0	0	0	0	1	1	1	0	7	4	1	3	7	4	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:124535261C>T	uc004bln.2	+	12	2439	c.2370C>T	c.(2368-2370)GGC>GGT	p.G790G	DAB2IP_uc004blo.2_Silent_p.G694G|DAB2IP_uc004blp.2_Silent_p.G223G	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	818					activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						GCGCGCCAGGCCGGCCCCAGC	0.721													40	44					0	0	0.009718	0	0		T	124535261	T	T	124535261	2	4	134	1	0	0	0	0	0	0	0	1	4222	726	26	2		2	DAB2IP	9	124535261	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	759110	124535261	16678170	887	73545											
LHX6	26468	broad.mit.edu	37	chr9	124979348	124979348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcggagcaggttgggtaccGttctcggcggccctcttgag	4	9	17	11	4	2	1	0	1	2	0	3	2	2	2	2	6	2	4	2	6	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:124979348G>A	uc010mvw.2	-	4	703	c.594C>T	c.(592-594)AAC>AAT	p.N198N	LHX6_uc004blx.3_Silent_p.N227N|LHX6_uc004bly.3_Silent_p.N227N	NM_014368	NP_055183	Q9UPM6	LHX6_HUMAN	LIM homeobox protein 6 isoform 1	198					cell maturation|cerebral cortex GABAergic interneuron migration|cerebral cortex radially oriented cell migration|cerebral cortex tangential migration	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GTTGGGTACCGTTCTCGGCGG	0.637													22	48					0	0	0.013726	0	0		A	124979348	A	A	124979348	2	1	134	1	0	0	0	0	0	0	0	1	8791	1159	40	1		1	LHX6	9	124979348	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	444087	124979348	16234083	888	73546											
ZBTB26	57684	broad.mit.edu	37	chr9	125681320	125681320	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgccgcagagtagacacatAaagagtttgtgcatttttaa	13	13	9	6	1	0	3	0	0	0	3	0	3	0	3	1	0	2	4	1	0	4	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:125681320A>G	uc004bnj.2	-	2	1106	c.894T>C	c.(892-894)TTT>TTC	p.F298F	ZBTB26_uc004bnk.2_Silent_p.F298F	NM_020924	NP_065975	Q9HCK0	ZBT26_HUMAN	zinc finger and BTB domain containing 26	298	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTAGACACATAAAGAGTTTGT	0.463													14	215					0	0	0.00245	0	0		G	125681320	G	G	125681320	2	3	134	1	0	0	0	0	0	0	0	1	17558	359	13	3		3	ZBTB26	9	125681320	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	701972	125681320	15532111	889	73547											
LHX2	9355	broad.mit.edu	37	chr9	126794732	126794732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcccgagccaagttcaggCgcaacctcttacggcaggaa	11	5	11	14	4	2	0	1	0	1	0	2	2	2	1	3	3	3	3	3	3	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:126794732C>T	uc004boe.1	+	5	1706	c.967C>T	c.(967-969)CGC>TGC	p.R323C	LHX2_uc010mwi.1_Missense_Mutation_p.R331C	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	323	Homeobox.|Nuclear localization signal (Potential).					nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CAAGTTCAGGCGCAACCTCTT	0.667													33	71					0	0	0.013114	0	0		T	126794732	T	T	126794732	3	4	134	1	0	0	0	0	1	0	0	0	8787	768	27	1	985	1	LHX2	9	126794732	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1113412	126794732	14418699	890	73548											
NAIF1	203245	broad.mit.edu	37	chr9	130825856	130825856	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggacgctcagggcagcctGtgtgccctccatggcctggg	5	7	16	13	1	1	0	1	0	0	0	2	2	2	1	4	4	2	2	4	4	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:130825856G>A	uc004bta.2	-	2	1054	c.835C>T	c.(835-837)CAG>TAG	p.Q279*	NAIF1_uc004bsz.2_RNA	NM_197956	NP_931045	Q69YI7	NAIF1_HUMAN	nuclear apoptosis inducing factor 1	279					apoptosis|induction of apoptosis	nucleus					0						AGGGCAGCCTGTGTGCCCTCC	0.642													37	62					0	0	0.007835	0	0		A	130825856	A	A	130825856	4	1	134	1	0	0	0	0	0	1	0	0	10164	1386	48	4	152	4	NAIF1	9	130825856	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4031124	130825856	10387575	891	73549											
PTGES2	80142	broad.mit.edu	37	chr9	130884681	130884681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggccccccatgaagggcCggtccttgcccacagcagcc	6	6	11	18	1	1	1	0	1	1	0	2	1	2	1	7	3	3	1	7	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:130884681C>T	uc004bti.2	-	6	1443	c.965G>A	c.(964-966)CGG>CAG	p.R322Q	PTGES2_uc004btj.2_RNA|PTGES2_uc004btk.2_Missense_Mutation_p.R131Q|PTGES2_uc004btl.2_Missense_Mutation_p.R131Q|PTGES2_uc004btm.2_RNA	NM_025072	NP_079348	Q9H7Z7	PGES2_HUMAN	prostaglandin E synthase 2	322	GST C-terminal.|Cytoplasmic (Potential).				cell redox homeostasis|prostaglandin biosynthetic process	Golgi membrane|integral to membrane|mitochondrion|perinuclear region of cytoplasm	electron carrier activity|prostaglandin-E synthase activity|protein binding|protein disulfide oxidoreductase activity				0						CATGAAGGGCCGGTCCTTGCC	0.647													63	88					0	0	0.01441	0	0		T	130884681	T	T	130884681	3	4	134	1	0	0	0	0	1	0	0	0	12770	652	23	1	176	1	PTGES2	9	130884681	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	58825	130884681	10328750	892	73550											
GOLGA2	2801	broad.mit.edu	37	chr9	131020067	131020067	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgccctggcctcccactcAccaatggtgtctgtctctcc	4	11	8	18	1	3	0	1	0	2	0	6	0	5	0	5	2	1	0	5	2	1	0	rs112572208		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:131020067A>G	uc011maw.1	-	23	2543	c.2530_splice	c.e23+1	p.G844_splice	GOLGA2_uc010mxw.2_Splice_Site_p.G167_splice|GOLGA2_uc004buh.2_Intron	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2							Golgi cisterna membrane	protein binding			ovary(1)	1						CCTCCCACTCACCAATGGTGT	0.587													206	410					0	0	0.01441	0	0		G	131020067	G	G	131020067	5	3	134	1	0	0	0	0	0	0	1	0	6567	173	6	3	492	3	GOLGA2	9	131020067	Splice_Site	SNP	A	TCGA-CG-4442-01A-01D-1158-08	135386	131020067	10193364	893	73551											
TOR1A	1861	broad.mit.edu	37	chr9	132580879	132580879	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccctctgctttccactcCtccagaaatccaaagccaca	10	10	3	18	0	1	1	0	0	1	1	6	1	6	1	6	0	2	1	6	0	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:132580879C>A	uc004byl.2	-	4	745	c.668G>T	c.(667-669)AGG>ATG	p.R223M	TOR1A_uc004bym.2_RNA	NM_000113	NP_000104	O14656	TOR1A_HUMAN	torsin A precursor	223					chaperone mediated protein folding requiring cofactor|response to unfolded protein	endoplasmic reticulum lumen|nuclear membrane	ATP binding|serine-type endopeptidase activity|unfolded protein binding			central_nervous_system(1)	1		Ovarian(14;0.00556)				CTTTCCACTCCTCCAGAAATC	0.493													82	161					9.40592e-55	1.12647e-54	0.01441	1	0		A	132580879	A	A	132580879	3	1	134	1	0	0	0	0	1	0	0	0	16397	681	24	5	338	5	TOR1A	9	132580879	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1560812	132580879	8632552	894	73552											
LAMC3	10319	broad.mit.edu	37	chr9	133911697	133911697	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgggcccggggcaccgcCgaggctgcccacgagtgtct	4	5	16	16	5	1	0	0	0	1	0	1	2	1	0	5	4	1	2	5	4	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:133911697C>A	uc004caa.1	+	4	1052	c.954C>A	c.(952-954)GCC>GCA	p.A318A		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	318	Laminin EGF-like 1.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		GGGGCACCGCCGAGGCTGCCC	0.672													28	35					1.57351e-24	1.82579e-24	0.003755	1	0		A	133911697	A	A	133911697	2	1	134	1	0	0	0	0	0	0	0	1	8632	639	23	5		5	LAMC3	9	133911697	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1330818	133911697	7301734	895	73553											
PPAPDC3	84814	broad.mit.edu	37	chr9	134165682	134165682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagcggctgggggtgtgcGctggccgggcggcgtcctgg	2	6	21	12	5	0	0	0	0	0	0	1	0	1	0	3	7	2	2	3	7	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:134165682G>A	uc004cal.2	+	1	602	c.298G>A	c.(298-300)GCT>ACT	p.A100T		NM_032728	NP_116117	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain	100	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	hydrolase activity			breast(1)	1	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		GGGGGTGTGCGCTGGCCGGGC	0.647													37	88					0	0	0.01441	0	0		A	134165682	A	A	134165682	3	1	134	1	0	0	0	0	1	0	0	0	12315	1087	38	1	300	1	PPAPDC3	9	134165682	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	253985	134165682	7047749	896	73554											
RAPGEF1	2889	broad.mit.edu	37	chr9	134471743	134471743	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccagatcctccgcggacGtccggcccgtcatcaccctg	5	7	9	20	5	2	1	2	0	0	1	6	2	6	2	7	2	0	0	7	2	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:134471743G>A	uc004cbc.2	-	14	2203	c.2073C>T	c.(2071-2073)GAC>GAT	p.D691D	RAPGEF1_uc004cbb.2_Silent_p.D709D|RAPGEF1_uc010mzm.2_RNA|RAPGEF1_uc010mzn.2_Silent_p.D866D|RAPGEF1_uc004cbd.2_Silent_p.D696D	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	691	N-terminal Ras-GEF.				activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		CTCCGCGGACGTCCGGCCCGT	0.537													16	27					0	0	0.00499	0	0		A	134471743	A	A	134471743	2	1	134	1	0	0	0	0	0	0	0	1	13068	1136	40	1		1	RAPGEF1	9	134471743	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	306061	134471743	6741688	897	73555											
SETX	23064	broad.mit.edu	37	chr9	135202213	135202213	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttagtggtaggtctcaaaGgtttagatgcaggaggaggc	10	11	15	5	0	2	1	1	0	2	1	3	3	2	3	0	6	1	3	0	6	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:135202213G>T	uc004cbk.2	-	10	4955	c.4772C>A	c.(4771-4773)CCT>CAT	p.P1591H	SETX_uc004cbj.2_Missense_Mutation_p.P1210H|SETX_uc010mzt.2_Missense_Mutation_p.P1210H	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1591					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		AGGTCTCAAAGGTTTAGATGC	0.413													51	156					2.5401e-28	2.97651e-28	0.01441	1	0		T	135202213	T	T	135202213	3	4	134	1	0	0	0	0	1	0	0	0	14166	1000	35	5	3329	5	SETX	9	135202213	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	730470	135202213	6011218	898	73556											
SETX	23064	broad.mit.edu	37	chr9	135203957	135203957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aataataataacctgtccacGggaggtatctccaacattat	15	11	6	9	1	1	0	0	0	1	0	3	1	2	1	3	2	2	1	3	2	7	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:135203957G>A	uc004cbk.2	-	10	3211	c.3028C>T	c.(3028-3030)CGT>TGT	p.R1010C	SETX_uc004cbj.2_Missense_Mutation_p.R629C|SETX_uc010mzt.2_Missense_Mutation_p.R629C	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1010					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		ACCTGTCCACGGGAGGTATCT	0.388													88	170					0	0	0.01441	0	0		A	135203957	A	A	135203957	3	1	134	1	0	0	0	0	1	0	0	0	14166	1116	39	1	5073	1	SETX	9	135203957	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1744	135203957	6009474	899	73557											
BARHL1	56751	broad.mit.edu	37	chr9	135462862	135462862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggcagaagtacctgagcGtgcaggaccgcatggagctc	10	5	15	11	3	0	2	0	1	0	1	1	4	0	4	2	3	5	5	2	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:135462862G>A	uc004cbp.1	+	2	805	c.613G>A	c.(613-615)GTG>ATG	p.V205M		NM_020064	NP_064448	Q9BZE3	BARH1_HUMAN	BarH-like homeobox 1	205	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;1.79e-06)|Epithelial(140;3.12e-05)		GTACCTGAGCGTGCAGGACCG	0.667													5	21					0	0	0.001984	0	0		A	135462862	A	A	135462862	3	1	134	1	0	0	0	0	1	0	0	0	1314	1145	40	1	619	1	BARHL1	9	135462862	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	258905	135462862	5750569	900	73558											
SARDH	1757	broad.mit.edu	37	chr9	136596526	136596526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagggtcccgtagaggtcGtccacattcatcagcgggta	9	9	12	11	3	2	1	2	0	0	1	5	1	4	1	2	3	2	2	2	3	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:136596526G>A	uc004cep.3	-	4	725	c.591C>T	c.(589-591)GAC>GAT	p.D197D	SARDH_uc004ceo.2_Silent_p.D197D|SARDH_uc011mdn.1_Silent_p.D197D|SARDH_uc011mdo.1_Silent_p.D29D	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	197					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		CGTAGAGGTCGTCCACATTCA	0.642													33	69					0	0	0.005524	0	0		A	136596526	A	A	136596526	2	1	134	1	0	0	0	0	0	0	0	1	13866	1136	40	1		1	SARDH	9	136596526	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1133664	136596526	4616905	901	73559											
COL5A1	1289	broad.mit.edu	37	chr9	137717721	137717721	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagccggggggtcgacaTgcgtcttccctgacaagaag	9	7	13	12	3	2	2	1	1	1	1	4	3	3	2	2	3	2	0	2	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:137717721T>A	uc004cfe.2	+	63	5420	c.5038T>A	c.(5038-5040)TGC>AGC	p.C1680S	uc004cff.2_Intron	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1680	Fibrillar collagen NC1.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GGGGTCGACATGCGTCTTCCC	0.582													26	46					0	0	0.008361	0	0		A	137717721	A	A	137717721	3	1	134	1	0	0	0	0	1	0	0	0	3699	1464	51	5	5288	5	COL5A1	9	137717721	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1121195	137717721	3495710	902	73560											
KIAA0649	9858	broad.mit.edu	37	chr9	138378961	138378961	+	Frame_Shift_Del	DEL	G	-	-																															gccccaccgctcttgggacaGggggcccagccaggccagag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:138378961delG	uc004cfr.1	+	4	3154	c.2605delG	c.(2605-2607)GGGfs	p.G869fs		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	869						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		TCTTGGGACAGGGGGCCCAGC	0.637													80	119	---	---	---	---						.	-	138378961	-	-	138378961	7	5	134	1	0	1	0	1	0	0	0	0	8203	1000	35	0	2607	0	KIAA0649	9	138378961	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	661240	138378961	2834470	903	73561											
C9orf116	138162	broad.mit.edu	37	chr9	138387441	138387441	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttgttgggaaaatttattCgaatttggataaaatacttt	14	17	8	2	1	0	0	0	0	0	0	1	3	0	2	0	2	1	2	0	2	7	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:138387441C>T	uc004cft.1	-	3	307	c.243G>A	c.(241-243)TCG>TCA	p.S81S	C9orf116_uc004cfs.1_Intron|C9orf116_uc004cfu.1_Intron	NM_001048265	NP_001041730	Q5BN46	CI116_HUMAN	hypothetical protein LOC138162 isoform 1	81											0				OV - Ovarian serous cystadenocarcinoma(145;7.39e-08)|Epithelial(140;5.19e-07)|all cancers(34;1.04e-05)		AAAATTTATTCGAATTTGGAT	0.363													33	60					0	0	0.003755	0	0		T	138387441	T	T	138387441	2	4	134	1	0	0	0	0	0	0	0	1	2453	871	31	1		1	C9orf116	9	138387441	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	8480	138387441	2825990	904	73562											
OBP2A	29991	broad.mit.edu	37	chr9	138440623	138440623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgcagcacaagggactctCggaggaggacattttcatgc	10	8	14	9	1	2	0	1	0	1	0	3	4	2	4	0	5	3	2	0	5	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:138440623C>T	uc004cgb.2	+	5	500	c.458C>T	c.(457-459)TCG>TTG	p.S153L	OBP2A_uc004cgc.2_Missense_Mutation_p.R175W|OBP2A_uc010nau.2_RNA|OBP2A_uc010nav.2_Missense_Mutation_p.S130L	NM_014582	NP_055397	Q9NY56	OBP2A_HUMAN	odorant binding protein 2A precursor	153					response to stimulus|sensory perception of smell	extracellular region	odorant binding|transporter activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.39e-07)|Epithelial(140;1.11e-06)|all cancers(34;2.04e-05)		AAGGGACTCTCGGAGGAGGAC	0.562													43	86					0	0	0.01441	0	0		T	138440623	T	T	138440623	3	4	134	1	0	0	0	0	1	0	0	0	10829	893	31	1	476	1	OBP2A	9	138440623	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	53182	138440623	2772808	905	73563											
SNAPC4	6621	broad.mit.edu	37	chr9	139288730	139288730	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgggctgaagcaatcgctgCaggcggtcactcaccactga	9	8	12	12	2	2	2	2	2	0	0	3	2	2	2	1	3	2	4	1	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:139288730C>T	uc004chh.2	-	6	612	c.603G>A	c.(601-603)CTG>CTA	p.L201L		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	201					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		GCAATCGCTGCAGGCGGTCAC	0.413													73	117					0	0	0.01441	0	0		T	139288730	T	T	139288730	2	4	134	1	0	0	0	0	0	0	0	1	14862	697	25	2		2	SNAPC4	9	139288730	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	848107	139288730	1924701	906	73564											
NOTCH1	4851	broad.mit.edu	37	chr9	139395128	139395128	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcatcagagcgtgagtagCgggcggccaggtgcaaggcg	8	4	19	10	5	1	2	1	1	0	1	1	2	1	2	1	5	3	3	1	5	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:139395128C>T	uc004chz.2	-	31	5810	c.5810G>A	c.(5809-5811)CGC>CAC	p.R1937H		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1937	Cytoplasmic (Potential).|ANK 1.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GCGTGAGTAGCGGGCGGCCAG	0.677			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			133	195					0	0	0.01441	0	0		T	139395128	T	T	139395128	3	4	134	1	0	0	0	0	1	0	0	0	10566	768	27	1	1873	1	NOTCH1	9	139395128	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	106398	139395128	1818303	907	73565											
NOTCH1	4851	broad.mit.edu	37	chr9	139412608	139412608	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcgagcactcatccacGtcctggctgcaggccgggcc	6	5	12	18	3	1	0	1	0	0	0	3	1	3	0	5	3	3	3	5	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:139412608G>A	uc004chz.2	-	7	1236	c.1236C>T	c.(1234-1236)GAC>GAT	p.D412D		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	412	Extracellular (Potential).|EGF-like 11; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		ACTCATCCACGTCCTGGCTGC	0.657			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			5	9					0	0	0.001168	0	0		A	139412608	A	A	139412608	2	1	134	1	0	0	0	0	0	0	0	1	10566	1136	40	1		1	NOTCH1	9	139412608	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	17480	139412608	1800823	908	73566											
MAMDC4	158056	broad.mit.edu	37	chr9	139749902	139749902	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtgtccaccctgcagccGctgcctcctgggccccgggc	3	6	14	18	2	0	0	0	0	0	0	2	1	2	0	7	3	3	2	7	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:139749902G>A	uc004cjs.2	+	12	1352	c.1302G>A	c.(1300-1302)CCG>CCA	p.P434P	MAMDC4_uc011mej.1_Intron	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	434	Extracellular (Potential).				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		CCCTGCAGCCGCTGCCTCCTG	0.706													9	7					0	0	0.00245	0	0		A	139749902	A	A	139749902	2	1	134	1	0	0	0	0	0	0	0	1	9222	1074	38	1		1	MAMDC4	9	139749902	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	337294	139749902	1463529	909	73567											
GRIN1	2902	broad.mit.edu	37	chr9	140036496	140036496	+	Frame_Shift_Del	DEL	C	-	-																															cctagttagccatccacctaCccccaacgaccacttcactc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:140036496delC	uc004clk.2	+	2	620	c.290delC	c.(289-291)ACCfs	p.T97fs	GRIN1_uc004cli.1_5'UTR|GRIN1_uc004clj.1_Frame_Shift_Del_p.T94fs|GRIN1_uc004cll.2_Frame_Shift_Del_p.T97fs|GRIN1_uc004clm.2_Frame_Shift_Del_p.T97fs|GRIN1_uc004cln.2_Frame_Shift_Del_p.T94fs|GRIN1_uc004clo.2_Frame_Shift_Del_p.T94fs	NM_007327	NP_015566	Q05586	NMDZ1_HUMAN	NMDA receptor 1 isoform NR1-3 precursor	97	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|regulation of excitatory postsynaptic membrane potential|response to ethanol|visual learning	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane|synaptic vesicle|synaptosome	calcium ion binding|calmodulin binding|extracellular-glutamate-gated ion channel activity|glutamate binding|glycine binding			skin(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;6.87e-05)|Epithelial(140;0.00095)	L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	CATCCACCTACCCCCAACGAC	0.592													122	246	---	---	---	---						.	-	140036496	-	-	140036496	7	5	134	1	0	1	0	1	0	0	0	0	6794	507	18	0	296	0	GRIN1	9	140036496	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	286594	140036496	1176935	910	73568											
RNF208	727800	broad.mit.edu	37	chr9	140115502	140115502	+	Frame_Shift_Del	DEL	G	-	-																															tgccagagttggggtgggccGgggagcaggcgggaagcagg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:140115502delG	uc004clz.1	-	1	274	c.163delC	c.(163-165)CGGfs	p.R55fs		NM_031297	NP_112587	Q9H0X6	RN208_HUMAN	ring finger protein 208	55							zinc ion binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GGGGTGGGCCGGGGAGCAGGC	0.627													16	11	---	---	---	---						.	-	140115502	-	-	140115502	7	5	134	1	0	1	0	1	0	0	0	0	13500	1115	39	0	626	0	RNF208	9	140115502	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	79006	140115502	1097929	911	73569											
NOXA1	10811	broad.mit.edu	37	chr9	140327669	140327670	+	Frame_Shift_Ins	INS	-	G	G																															cctacagggctgccggcaatINSgggggggcctggccccggcc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:140327669_140327670insG	uc004cmv.2	+	10	998_999	c.863_864insG	c.(862-864)ATGfs	p.M288fs	C9orf167_uc011mew.1_Intron|NOXA1_uc004cmu.2_Frame_Shift_Ins_p.M288fs|NOXA1_uc010nch.2_Frame_Shift_Ins_p.M232fs	NM_006647	NP_006638	Q86UR1	NOXA1_HUMAN	NADPH oxidase activator 1	288			Missing (in NOXA1truncated, a cDNA isolated from Caco-2 cells treated with butyrate).		regulation of hydrogen peroxide metabolic process|regulation of respiratory burst|superoxide metabolic process	cytoplasm|NADPH oxidase complex	Rac GTPase binding|superoxide-generating NADPH oxidase activator activity				0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000238)|Epithelial(140;0.000982)		CTGCCGGCAATGGGGGGGCCTG	0.668													8	12	---	---	---	---						.	G	140327670	G	G	140327669	7	5	134	1	0	1	1	0	0	0	0	0	10579	1464	51	0	901	0	NOXA1	9	140327669	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	212167	140327669	885762	912	73570											
ENTPD8	377841	broad.mit.edu	37	chr9	140331377	140331377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaaccaaaggcaccttcggCctgcccggccaggagctcgg	8	4	12	17	3	0	0	0	0	0	0	2	1	0	1	6	5	3	2	6	5	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:140331377C>T	uc004cmw.2	-	5	683	c.499G>A	c.(499-501)GCC>ACC	p.A167T	C9orf167_uc011mew.1_Intron|ENTPD8_uc004cmx.2_Missense_Mutation_p.A167T|ENTPD8_uc004cmy.2_3'UTR	NM_001033113	NP_001028285	Q5MY95	ENTP8_HUMAN	ectonucleoside triphosphate diphosphohydrolase 8	167	Extracellular (Potential).					integral to membrane|plasma membrane	ATP binding			skin(1)	1	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000224)|Epithelial(140;0.000898)		GCACCTTCGGCCTGCCCGGCC	0.652													51	121					0	0	0.01441	0	0		T	140331377	T	T	140331377	3	4	134	1	0	0	0	0	1	0	0	0	5153	739	26	2	1012	2	ENTPD8	9	140331377	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3708	140331377	882054	913	73571											
ENTPD8	377841	broad.mit.edu	37	chr9	140331675	140331675	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttccgatgctgggcctctgGgatcagcaccagcgcctcct	5	10	11	15	2	2	0	1	0	1	0	4	2	4	1	5	2	3	2	5	2	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:140331675G>T	uc004cmw.2	-	4	515	c.331C>A	c.(331-333)CCA>ACA	p.P111T	C9orf167_uc011mew.1_Intron|ENTPD8_uc004cmx.2_Missense_Mutation_p.P111T|ENTPD8_uc004cmy.2_Missense_Mutation_p.P111T	NM_001033113	NP_001028285	Q5MY95	ENTP8_HUMAN	ectonucleoside triphosphate diphosphohydrolase 8	111	Extracellular (Potential).					integral to membrane|plasma membrane	ATP binding			skin(1)	1	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000224)|Epithelial(140;0.000898)		TGGGCCTCTGGGATCAGCACC	0.637													24	66					4.54149e-19	5.1888e-19	0.014323	1	0		T	140331675	T	T	140331675	3	4	134	1	0	0	0	0	1	0	0	0	5153	1232	43	5	1184	5	ENTPD8	9	140331675	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	298	140331675	881756	914	73572											
ZMYND19	116225	broad.mit.edu	37	chr9	140481464	140481464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttgggccgccagccccacGgcaccagttgcaggttgtcc	5	7	12	17	2	0	0	0	0	0	0	1	0	1	0	7	3	2	4	7	3	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr9:140481464G>A	uc004cno.1	-	4	536	c.314C>T	c.(313-315)CCG>CTG	p.P105L		NM_138462	NP_612471	Q96E35	ZMY19_HUMAN	zinc finger, MYND domain containing 19	105						Golgi apparatus|plasma membrane	zinc ion binding			skin(1)	1	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000275)|Epithelial(140;0.00047)		CCAGCCCCACGGCACCAGTTG	0.672													34	45					0	0	0.004878	0	0		A	140481464	A	A	140481464	3	1	134	1	0	0	0	0	1	0	0	0	17735	1116	39	1	381	1	ZMYND19	9	140481464	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	149789	140481464	731967	915	73573											
ZMYND11	10771	broad.mit.edu	37	chr10	293373	293373	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccaagagcaaagaaaggAcgacgtaatcaaagtgtgga	19	4	12	6	2	1	2	1	0	0	2	1	6	1	4	1	2	2	2	1	2	6	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:293373A>G	uc010pzt.1	+	12	1622	c.1194A>G	c.(1192-1194)GGA>GGG	p.G398G	ZMYND11_uc001ifk.2_Silent_p.G397G|ZMYND11_uc010pzu.1_Silent_p.G398G|ZMYND11_uc010pzv.1_Silent_p.G343G|ZMYND11_uc010pzw.1_Silent_p.G313G|ZMYND11_uc001ifm.2_Silent_p.G344G|ZMYND11_uc010pzx.1_Silent_p.G398G|ZMYND11_uc001ifn.2_Silent_p.G344G|ZMYND11_uc009xhg.2_Silent_p.G381G|ZMYND11_uc009xhh.2_Silent_p.G272G|ZMYND11_uc010pzy.1_Silent_p.G250G	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	358	Nuclear localization signal (Potential).				cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CAAAGAAAGGACGACGTAATC	0.383													5	99					0	0	0.001168	0	0		G	293373	G	G	293373	2	3	134	1	0	0	0	0	0	0	0	1	17731	262	10	3		3	ZMYND11	10	293373	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08		293373	135241374	916	73574											
GDI2	2665	broad.mit.edu	37	chr10	5808594	5808594	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaaaggagatcatgcagacGtagatatctagaaacaaatg	18	7	10	6	1	2	4	1	0	1	4	2	5	2	4	0	1	2	3	0	1	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:5808594G>A	uc001iil.3	-	9	1290	c.999C>T	c.(997-999)TAC>TAT	p.Y333Y	GDI2_uc001iim.3_Silent_p.Y288Y|GDI2_uc009xid.2_Silent_p.Y337Y	NM_001494	NP_001485	P50395	GDIB_HUMAN	GDP dissociation inhibitor 2 isoform 1	333					protein transport|small GTPase mediated signal transduction	cell surface|cytosol|membrane	protein binding|Rab GDP-dissociation inhibitor activity				0						TCATGCAGACGTAGATATCTA	0.448													27	87					0	0	0.007291	0	0		A	5808594	A	A	5808594	2	1	134	1	0	0	0	0	0	0	0	1	6336	1140	40	1		1	GDI2	10	5808594	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5515221	5808594	129726153	917	73575											
SFMBT2	57713	broad.mit.edu	37	chr10	7239569	7239569	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaggtagctctgcaatccTtcctttgttcaggtaagggc	7	13	11	10	0	2	1	1	1	1	0	4	1	4	1	2	3	2	5	2	3	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:7239569T>G	uc009xio.1	-	15	1730	c.1639A>C	c.(1639-1641)AGG>CGG	p.R547R	SFMBT2_uc001ijn.1_Silent_p.R547R|SFMBT2_uc010qay.1_Intron	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	547					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						TCTGCAATCCTTCCTTTGTTC	0.507													41	107					0	0	0.007835	0	0		G	7239569	G	G	7239569	2	3	134	1	0	0	0	0	0	0	0	1	14183	1608	56	5		5	SFMBT2	10	7239569	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1430975	7239569	128295178	918	73576											
ITIH2	3698	broad.mit.edu	37	chr10	7773852	7773852	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacatcagtcacggacgtcActcaaaacaatttccataac	16	9	4	12	2	4	0	4	0	0	0	5	1	5	1	1	1	3	0	1	1	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:7773852A>G	uc001ijs.2	+	13	1702	c.1540A>G	c.(1540-1542)ACT>GCT	p.T514A		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	514					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						CACGGACGTCACTCAAAACAA	0.438													10	331					0	0	0.006214	0	0		G	7773852	G	G	7773852	3	3	134	1	0	0	0	0	1	0	0	0	7920	159	6	3	1590	3	ITIH2	10	7773852	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	534283	7773852	127760895	919	73577											
TAF3	83860	broad.mit.edu	37	chr10	8007477	8007477	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgcccttgttcagcccTgccacagcctccagggtccc	4	8	9	20	0	1	0	1	0	0	0	3	0	3	0	7	1	4	1	7	1	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:8007477T>C	uc010qbd.1	+	3	2004	c.2004T>C	c.(2002-2004)CCT>CCC	p.P668P		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	668	Lys-rich.				maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						TGTTCAGCCCTGCCACAGCCT	0.423													28	93					0	0	0.003755	0	0		C	8007477	C	C	8007477	2	2	134	1	0	0	0	0	0	0	0	1	15550	1567	55	3		3	TAF3	10	8007477	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	233625	8007477	127527270	920	73578											
UPF2	26019	broad.mit.edu	37	chr10	12009391	12009391	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacatcttaaacttagttagTtctcctataaaacgaacagt	16	13	4	8	1	2	0	0	0	2	0	3	1	2	0	1	0	4	2	1	0	9	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:12009391T>C	uc001ila.2	-	9	2490	c.2016A>G	c.(2014-2016)GAA>GAG	p.E672E	UPF2_uc001ilb.2_Silent_p.E672E|UPF2_uc001ilc.2_Silent_p.E672E|UPF2_uc009xiz.1_Silent_p.E672E	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	672	MIF4G 2.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				ACTTAGTTAGTTCTCCTATAA	0.279													3	111					0	0	0.004672	0	0		C	12009391	C	C	12009391	2	2	134	1	0	0	0	0	0	0	0	1	17030	1722	60	3		3	UPF2	10	12009391	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4001914	12009391	123525356	921	73579											
DCLRE1C	64421	broad.mit.edu	37	chr10	14950433	14950433	+	Frame_Shift_Del	DEL	T	-	-																															atctaagagtgagcattttcTttttttgactgctatactct																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:14950433delT	uc001inn.2	-	14	2138	c.2053delA	c.(2053-2055)AGAfs	p.R685fs	DCLRE1C_uc010qbx.1_Intron|DCLRE1C_uc001ink.2_Frame_Shift_Del_p.R338fs|DCLRE1C_uc001inl.2_Frame_Shift_Del_p.R565fs|DCLRE1C_uc009xji.2_Frame_Shift_Del_p.R570fs|DCLRE1C_uc001inm.2_Frame_Shift_Del_p.R565fs|DCLRE1C_uc001ino.2_Frame_Shift_Del_p.R570fs|DCLRE1C_uc009xjh.2_RNA|DCLRE1C_uc001inp.2_Frame_Shift_Del_p.R565fs|DCLRE1C_uc001inq.2_Frame_Shift_Del_p.R565fs|DCLRE1C_uc001inr.2_Frame_Shift_Del_p.R570fs	NM_001033855	NP_001029027	Q96SD1	DCR1C_HUMAN	artemis protein isoform a	685					DNA recombination	nucleus	5'-3' exonuclease activity|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)	1						GAGCATTTTCTTTTTTTGACT	0.269								Involved_in_tolerance_or_repair_of_DNA_crosslinks|NHEJ					49	113	---	---	---	---						.	-	14950433	-	-	14950433	7	5	134	1	0	1	0	1	0	0	0	0	4299	1617	56	0	29	0	DCLRE1C	10	14950433	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	2941042	14950433	120584314	922	73580											
FAM171A1	221061	broad.mit.edu	37	chr10	15256119	15256119	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgtgagagcacggtgtTgtaactacccctgtagtcat	9	11	12	9	1	1	1	1	1	0	1	1	2	1	1	2	2	3	5	2	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:15256119T>C	uc001iob.2	-	8	1475	c.1468A>G	c.(1468-1470)AAC>GAC	p.N490D		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	490	Cytoplasmic (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						AGCACGGTGTTGTAACTACCC	0.493													6	166					0	0	0.001168	0	0		C	15256119	C	C	15256119	3	2	134	1	0	0	0	0	1	0	0	0	5501	1812	63	3	1208	3	FAM171A1	10	15256119	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	305686	15256119	120278628	923	73581											
CUBN	8029	broad.mit.edu	37	chr10	17113596	17113596	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttctccagttaattcatcCccgcaagctgtaagcataaa	12	11	5	13	1	2	0	1	0	1	0	4	0	3	0	4	0	2	5	4	0	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:17113596C>A	uc001ioo.2	-	19	2506	c.2454G>T	c.(2452-2454)GGG>GGT	p.G818G		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	818	CUB 4.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTAATTCATCCCCGCAAGCTG	0.408													42	69					1.07121e-22	1.23724e-22	0.006999	1	0		A	17113596	A	A	17113596	2	1	134	1	0	0	0	0	0	0	0	1	4054	610	22	5		5	CUBN	10	17113596	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1857477	17113596	118421151	924	73582											
GPR158	57512	broad.mit.edu	37	chr10	25887406	25887406	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcactcaaattctgataacAcagagactaaagatcctgcc	16	9	5	11	0	3	3	2	1	1	2	4	4	4	3	2	0	2	0	2	0	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:25887406A>G	uc001isj.2	+	11	2911	c.2851A>G	c.(2851-2853)ACA>GCA	p.T951A	GPR158_uc001isk.2_Missense_Mutation_p.T326A	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	951	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						TTCTGATAACACAGAGACTAA	0.443													93	176					0	0	0.01441	0	0		G	25887406	G	G	25887406	3	3	134	1	0	0	0	0	1	0	0	0	6678	159	6	3	2893	3	GPR158	10	25887406	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	8773810	25887406	109647341	925	73583											
MYO3A	53904	broad.mit.edu	37	chr10	26457756	26457756	+	Frame_Shift_Del	DEL	A	-	-																															cttgtgttcaagaagataccAaaaaatacaggagaaaagga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:26457756delA	uc001isn.2	+	28	3587	c.3227delA	c.(3226-3228)CAAfs	p.Q1076fs	MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1076	IQ 1.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						AGAAGATACCAAAAAATACAG	0.323													53	113	---	---	---	---						.	-	26457756	-	-	26457756	7	5	134	1	0	1	0	1	0	0	0	0	10094	130	5	0	3329	0	MYO3A	10	26457756	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	570350	26457756	109076991	926	73584											
APBB1IP	54518	broad.mit.edu	37	chr10	26789948	26789948	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatgttgctgccactggtAtcagccaatatgaggatgac	12	10	10	9	0	1	2	1	2	0	0	1	3	1	3	2	2	3	3	2	2	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:26789948A>G	uc001iss.2	+	5	682	c.361A>G	c.(361-363)ATC>GTC	p.I121V	APBB1IP_uc001isr.2_Missense_Mutation_p.I121V|APBB1IP_uc009xks.1_Missense_Mutation_p.I121V	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	121					blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						TGCCACTGGTATCAGCCAATA	0.478													75	148					0	0	0.01441	0	0		G	26789948	G	G	26789948	3	3	134	1	0	0	0	0	1	0	0	0	760	449	16	3	371	3	APBB1IP	10	26789948	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	332192	26789948	108744799	927	73585											
KIF5B	3799	broad.mit.edu	37	chr10	32306209	32306209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgctgattccaaagcttTcactctctcagctgtagctc	8	13	7	13	0	3	1	2	1	1	0	6	1	4	1	1	0	4	5	1	0	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:32306209T>C	uc001iwe.3	-	24	3093	c.2623A>G	c.(2623-2625)AAA>GAA	p.K875E		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	875					stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				TCCAAAGCTTTCACTCTCTCA	0.433													80	173					0	0	0.01441	0	0		C	32306209	C	C	32306209	3	2	134	1	0	0	0	0	1	0	0	0	8322	1792	62	3	276	3	KIF5B	10	32306209	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	5516261	32306209	103228538	928	73586											
NRP1	8829	broad.mit.edu	37	chr10	33552726	33552726	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tataagtgcattcaaggctgTtgggatatttttcagggaat	11	15	11	4	0	2	0	2	0	0	0	2	2	2	2	0	3	1	3	0	3	5	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:33552726T>C	uc001iwx.3	-	4	1029	c.506A>G	c.(505-507)AAC>AGC	p.N169S	NRP1_uc001iwv.3_Missense_Mutation_p.N169S|NRP1_uc009xlz.2_Missense_Mutation_p.N169S|NRP1_uc001iww.3_5'UTR|NRP1_uc001iwy.3_Missense_Mutation_p.N169S|NRP1_uc001iwz.2_Missense_Mutation_p.N169S|NRP1_uc001ixa.2_Missense_Mutation_p.N169S|NRP1_uc001ixb.1_Missense_Mutation_p.N169S|NRP1_uc001ixc.1_Missense_Mutation_p.N169S	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	169	Extracellular (Potential).|CUB 2.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	TTCAAGGCTGTTGGGATATTT	0.438													131	267					0	0	0.01441	0	0		C	33552726	C	C	33552726	3	2	134	1	0	0	0	0	1	0	0	0	10679	1725	60	3	2332	3	NRP1	10	33552726	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1246517	33552726	101982021	929	73587											
GJD4	219770	broad.mit.edu	37	chr10	35896701	35896701	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggcgtgtgcgtcctccTcccctccgccgtcttcagcg	2	9	11	19	5	2	0	1	0	1	0	6	0	6	0	7	1	2	0	7	1	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:35896701T>C	uc001iyy.1	+	2	418	c.260T>C	c.(259-261)CTC>CCC	p.L87P		NM_153368	NP_699199	Q96KN9	CXD4_HUMAN	connexin40.1	87	Helical; (Potential).				cell communication	connexon complex|integral to membrane				large_intestine(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						TGCGTCCTCCTCCCCTCCGCC	0.706													12	236					0	0	0.006122	0	0		C	35896701	C	C	35896701	3	2	134	1	0	0	0	0	1	0	0	0	6434	1551	54	3	266	3	GJD4	10	35896701	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2343975	35896701	99638046	930	73588											
C10orf25	220979	broad.mit.edu	37	chr10	45496198	45496198	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgaccacacacaggggcggTtacagctcttgaggtcccgg	8	7	13	13	3	1	1	0	1	1	0	3	2	2	1	2	5	2	2	2	5	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:45496198T>C	uc001jbv.1	-	1	139	c.110A>G	c.(109-111)AAC>AGC	p.N37S	C10orf25_uc010qff.1_RNA|ZNF22_uc001jbw.2_5'Flank	NM_001039380	NP_001034469	Q5T742	CJ025_HUMAN	hypothetical protein LOC220979 precursor	37						extracellular region					0						ACAGGGGCGGTTACAGCTCTT	0.517													10	29					0	0	0.001855	0	0		C	45496198	C	C	45496198	3	2	134	1	0	0	0	0	1	0	0	0	1601	1725	60	3	266	3	C10orf25	10	45496198	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	9599497	45496198	90038549	931	73589											
ALOX5	240	broad.mit.edu	37	chr10	45938585	45938585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccgaggccatcaaggccCggggcatggagagcaaagaa	12	4	14	11	2	1	2	1	0	0	2	2	4	2	2	3	5	1	2	3	5	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:45938585C>T	uc001jce.2	+	10	1471	c.1372C>T	c.(1372-1374)CGG>TGG	p.R458W	ALOX5_uc009xmt.2_Missense_Mutation_p.R426W|ALOX5_uc010qfg.1_Missense_Mutation_p.R458W	NM_000698	NP_000689	P09917	LOX5_HUMAN	arachidonate 5-lipoxygenase	458	Lipoxygenase.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	cytosol|nuclear envelope lumen|nuclear matrix|nuclear membrane	arachidonate 5-lipoxygenase activity|iron ion binding|lipoxygenase activity|protein binding			ovary(1)|pancreas(1)	2		Lung SC(717;0.0257)			Diethylcarbamazine(DB00711)|Hydrocortisone(DB00741)|Leflunomide(DB01097)|Masoprocol(DB00179)|Meclofenamic acid(DB00939)|Minocycline(DB01017)|Montelukast(DB00471)|Quinacrine(DB01103)|Vitamin E(DB00163)|Zileuton(DB00744)	CATCAAGGCCCGGGGCATGGA	0.657													109	256					0	0	0.01441	0	0		T	45938585	T	T	45938585	3	4	134	1	0	0	0	0	1	0	0	0	540	643	23	1	1410	1	ALOX5	10	45938585	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	442387	45938585	89596162	932	73590											
SYT15	83849	broad.mit.edu	37	chr10	46969273	46969273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagttgggtcctagcatgcGgctggcagggcctgtcccgc	4	9	15	13	2	1	0	1	0	0	0	3	0	3	0	3	4	2	4	3	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:46969273G>A	uc001jea.2	-	2	341	c.188C>T	c.(187-189)CCG>CTG	p.P63L	SYT15_uc001jdz.2_Missense_Mutation_p.P63L|SYT15_uc001jeb.2_Intron|SYT15_uc010qfp.1_5'Flank	NM_031912	NP_114118	Q9BQS2	SYT15_HUMAN	synaptotagmin XV isoform a	63	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0						CCTAGCATGCGGCTGGCAGGG	0.612													8	29					0	0	0.00308	0	0		A	46969273	A	A	46969273	3	1	134	1	0	0	0	0	1	0	0	0	15496	1116	39	1	1159	1	SYT15	10	46969273	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1030688	46969273	88565474	933	73591											
ERCC6	2074	broad.mit.edu	37	chr10	50732687	50732687	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctgatgcttcattaagcatGatttttctgggctttttctc	6	19	7	9	0	3	2	1	2	2	0	4	2	3	2	1	1	2	3	1	1	1	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:50732687G>A	uc001jhs.3	-	5	943	c.789C>T	c.(787-789)ATC>ATT	p.I263I	PGBD3_uc001jht.2_5'Flank|PGBD3_uc009xoe.2_Silent_p.I263I|PGBD3_uc001jhu.2_Silent_p.I263I	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	263					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						CATTAAGCATGATTTTTCTGG	0.448								Direct_reversal_of_damage|NER					8	348					0	0	0.004482	0	0		A	50732687	A	A	50732687	2	1	134	1	0	0	0	0	0	0	0	1	5225	1280	45	4		4	ERCC6	10	50732687	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3763414	50732687	84802060	934	73592											
AGAP7	653268	broad.mit.edu	37	chr10	51465538	51465538	+	Frame_Shift_Del	DEL	T	-	-																															gatgtctgaaggtcaatctcTtttttatgaatatacttcat																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:51465538delT	uc001jio.2	-	7	1044	c.918delA	c.(916-918)AAAfs	p.K306fs	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron	NM_001077685	NP_001071153	Q5VUJ5	AGAP7_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	306	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						GGTCAATCTCTTTTTTATGAA	0.443													60	130	---	---	---	---						.	-	51465538	-	-	51465538	7	5	134	1	0	1	0	1	0	0	0	0	373	1606	56	0	1077	0	AGAP7	10	51465538	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	732851	51465538	84069209	935	73593											
CISD1	55847	broad.mit.edu	37	chr10	60036948	60036948	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctagcttacaaaagatttTatgttaaagatcatcgaaat	17	14	5	5	1	2	2	1	0	1	2	3	3	2	2	0	0	2	2	0	0	8	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:60036948T>C	uc001jkc.3	+	2	242	c.103T>C	c.(103-105)TAT>CAT	p.Y35H		NM_018464	NP_060934	Q9NZ45	CISD1_HUMAN	CDGSH iron sulfur domain 1	35	Cytoplasmic (Potential).					integral to membrane|mitochondrial outer membrane	2 iron, 2 sulfur cluster binding|metal ion binding				0						CAAAAGATTTTATGTTAAAGA	0.378													32	79					0	0	0.009535	0	0		C	60036948	C	C	60036948	3	2	134	1	0	0	0	0	1	0	0	0	3438	1754	61	3	109	3	CISD1	10	60036948	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	8571410	60036948	75497799	936	73594											
ANK3	288	broad.mit.edu	37	chr10	61827769	61827769	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacatggactctgtggaccTacgatttacaatttcttaat	11	15	6	9	1	3	0	1	0	2	0	3	3	3	2	1	2	2	0	1	2	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:61827769T>C	uc001jky.2	-	38	12437	c.12245_splice	c.e38-1	p.G4082_splice	ANK3_uc001jkw.2_Splice_Site_p.S603_splice|ANK3_uc009xpa.2_Splice_Site_p.S603_splice|ANK3_uc001jkx.2_Splice_Site_p.S647_splice|ANK3_uc010qih.1_Splice_Site_p.S1470_splice|ANK3_uc001jkz.3_Splice_Site_p.S1463_splice|ANK3_uc001jkv.2_Splice_Site_p.S2_splice|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1						establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TCTGTGGACCTACGATTTACA	0.393													50	118					0	0	0.01441	0	0		C	61827769	C	C	61827769	5	2	134	1	0	0	0	0	0	0	1	0	622	1536	53	3	1227	3	ANK3	10	61827769	Splice_Site	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1790821	61827769	73706978	937	73595											
EGR2	1959	broad.mit.edu	37	chr10	64573620	64573620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agagagtggagtgagtggagGgggcacccgcagggtgtcca	9	5	20	7	1	0	2	0	1	0	1	1	5	1	4	2	5	0	2	2	5	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:64573620G>A	uc010qim.1	-	3	932	c.778C>T	c.(778-780)CCT>TCT	p.P260S	EGR2_uc010qin.1_Missense_Mutation_p.P210S|EGR2_uc001jmi.2_Missense_Mutation_p.P260S|EGR2_uc010qio.1_Missense_Mutation_p.P273S|EGR2_uc009xph.2_Missense_Mutation_p.P260S	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	260					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GTGAGTGGAGGGGGCACCCGC	0.632													39	46					0	0	0.010771	0	0		A	64573620	A	A	64573620	3	1	134	1	0	0	0	0	1	0	0	0	4978	1232	43	4	656	4	EGR2	10	64573620	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2745851	64573620	70961127	938	73596											
CTNNA3	29119	broad.mit.edu	37	chr10	67829230	67829230	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctttttctgcctcaggCagttgagtcatcttagccta	6	18	7	10	0	5	1	2	1	3	0	5	1	5	1	2	1	2	2	2	1	2	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:67829230C>A	uc009xpn.1	-	15	2118	c.1995G>T	c.(1993-1995)CTG>CTT	p.L665L	CTNNA3_uc001jmw.2_Silent_p.L665L	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	665					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						CTGCCTCAGGCAGTTGAGTCA	0.348													67	145					2.17656e-39	2.58057e-39	0.01441	1	0		A	67829230	A	A	67829230	2	1	134	1	0	0	0	0	0	0	0	1	4017	697	25	5		5	CTNNA3	10	67829230	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3255610	67829230	67705517	939	73597											
MYPN	84665	broad.mit.edu	37	chr10	69926167	69926167	+	Frame_Shift_Del	DEL	C	-	-																															agcctccatctgtggaacaaCcccccaaacccaaactcgag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:69926167delC	uc001jnm.3	+	11	1902	c.1717delC	c.(1717-1719)CCCfs	p.P573fs	MYPN_uc001jnl.1_Frame_Shift_Del_p.P573fs|MYPN_uc001jnn.3_Frame_Shift_Del_p.P298fs|MYPN_uc001jno.3_Frame_Shift_Del_p.P573fs|MYPN_uc009xps.2_Frame_Shift_Del_p.P573fs|MYPN_uc009xpt.2_Frame_Shift_Del_p.P573fs|MYPN_uc010qit.1_Frame_Shift_Del_p.P279fs|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	573						nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						TGTGGAACAACCCCCCAAACC	0.577													33	72	---	---	---	---						.	-	69926167	-	-	69926167	7	5	134	1	0	1	0	1	0	0	0	0	10116	507	18	0	1751	0	MYPN	10	69926167	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	2096937	69926167	65608580	940	73598											
CCAR1	55749	broad.mit.edu	37	chr10	70509441	70509441	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaaagttttctttagatTggtaggttattccccaccca	9	17	6	9	0	2	1	1	0	1	1	3	1	3	1	3	2	0	3	3	2	4	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:70509441T>C	uc001joo.2	+	10	1236	c.1117T>C	c.(1117-1119)TGT>CGT	p.C373R	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Missense_Mutation_p.C178R|CCAR1_uc009xpx.1_Missense_Mutation_p.C347R|CCAR1_uc001jon.1_Missense_Mutation_p.C319R|CCAR1_uc010qiz.1_Missense_Mutation_p.C358R|CCAR1_uc010qja.1_Missense_Mutation_p.C358R|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	373					apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						TTCTTTAGATTGGTAGGTTAT	0.403													89	178					0	0	0.01441	0	0		C	70509441	C	C	70509441	3	2	134	1	0	0	0	0	1	0	0	0	2733	1826	63	3	1151	3	CCAR1	10	70509441	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	583274	70509441	65025306	941	73599											
KIAA1279	26128	broad.mit.edu	37	chr10	70768669	70768669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaactggaaagatctcaGccacagaagacagtaagttt	16	8	9	8	0	2	3	2	0	1	3	3	4	2	4	1	1	2	2	1	1	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:70768669G>A	uc001joy.2	+	5	958	c.862G>A	c.(862-864)GCC>ACC	p.A288T		NM_015634	NP_056449	Q96EK5	KBP_HUMAN	KIF1 binding protein	288					cell differentiation|mitochondrial transport|nervous system development	mitochondrion	kinesin binding			ovary(1)	1						AAAGATCTCAGCCACAGAAGA	0.284													95	171					0	0	0.01441	0	0		A	70768669	A	A	70768669	3	1	134	1	0	0	0	0	1	0	0	0	8237	971	34	2	880	2	KIAA1279	10	70768669	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	259228	70768669	64766078	942	73600											
HKDC1	80201	broad.mit.edu	37	chr10	71026488	71026488	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgctgtggccaagaggtTacagcaggcacagaaggaga	13	5	14	9	0	0	3	0	0	0	3	0	4	0	3	1	4	3	4	1	4	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:71026488T>C	uc001jpf.3	+	18	2862	c.2729T>C	c.(2728-2730)TTA>TCA	p.L910S	HKDC1_uc010qje.1_Missense_Mutation_p.L773S|HKDC1_uc009xqb.2_RNA	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	910					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						GCCAAGAGGTTACAGCAGGCA	0.512													68	129					0	0	0.01441	0	0		C	71026488	C	C	71026488	3	2	134	1	0	0	0	0	1	0	0	0	7209	1764	61	3	2799	3	HKDC1	10	71026488	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	257819	71026488	64508259	943	73601											
CDH23	64072	broad.mit.edu	37	chr10	73405660	73405660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatctccccgacctccGtccaggggaaggcggacatt	8	8	10	15	3	3	0	2	0	1	0	6	3	5	2	5	4	0	0	5	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:73405660G>A	uc001jrx.3	+	12	1590	c.1213G>A	c.(1213-1215)GTC>ATC	p.V405I	CDH23_uc001jrw.3_Missense_Mutation_p.V405I|CDH23_uc001jry.2_Missense_Mutation_p.V21I|CDH23_uc001jrz.2_Missense_Mutation_p.V21I	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	405	Cadherin 4.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CCCGACCTCCGTCCAGGGGAA	0.567													24	33					0	0	0.005443	0	0		A	73405660	A	A	73405660	3	1	134	1	0	0	0	0	1	0	0	0	3111	1145	40	1	1342	1	CDH23	10	73405660	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2379172	73405660	62129087	944	73602											
CDH23	64072	broad.mit.edu	37	chr10	73491866	73491866	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagaccaagaccagctacAtgatgaatgtgtcggccact	13	7	10	11	2	0	4	0	2	0	2	1	5	0	4	3	1	2	1	3	1	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:73491866A>G	uc001jrx.3	+	31	4215	c.3838A>G	c.(3838-3840)ATG>GTG	p.M1280V	CDH23_uc001jrz.2_Missense_Mutation_p.M896V|C10orf105_uc001jsb.1_Intron|CDH23_uc001jsc.1_Missense_Mutation_p.M88V	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1280	Cadherin 12.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GACCAGCTACATGATGAATGT	0.572													6	68					0	0	0.001168	0	0		G	73491866	G	G	73491866	3	3	134	1	0	0	0	0	1	0	0	0	3111	217	8	3	4267	3	CDH23	10	73491866	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	86206	73491866	62042881	945	73603											
CDH23	64072	broad.mit.edu	37	chr10	73571099	73571099	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagatgatcgatgagaacaaGgagcagctacggaatctttt	14	9	11	7	2	1	3	0	2	1	2	2	7	1	5	0	2	4	2	0	2	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:73571099G>A	uc001jrx.3	+	61	9482	c.9105G>A	c.(9103-9105)AAG>AAA	p.K3035K	CDH23_uc001jsg.3_Silent_p.K795K|CDH23_uc001jsh.3_Silent_p.K795K|CDH23_uc001jsi.3_Silent_p.K795K|CDH23_uc001jsj.3_5'Flank|CDH23_uc010qjr.1_5'Flank	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	3035	Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						ATGAGAACAAGGAGCAGCTAC	0.607													33	59					0	0	0.004878	0	0		A	73571099	A	A	73571099	2	1	134	1	0	0	0	0	0	0	0	1	3111	991	35	4		4	CDH23	10	73571099	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	79233	73571099	61963648	946	73604											
OIT3	170392	broad.mit.edu	37	chr10	74684031	74684031	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaacctcgtgacaggtctAcccaagcagaccccggggag	11	4	12	14	2	1	2	0	1	1	1	2	3	1	3	4	3	4	2	4	3	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:74684031A>G	uc001jte.1	+	7	1214	c.996A>G	c.(994-996)CTA>CTG	p.L332L	OIT3_uc009xqs.1_Intron	NM_152635	NP_689848	Q8WWZ8	OIT3_HUMAN	oncoprotein-induced transcript 3 precursor	332	ZP.					nuclear envelope	calcium ion binding			ovary(2)	2	Prostate(51;0.0198)					TGACAGGTCTACCCAAGCAGA	0.552													47	113					0	0	0.01441	0	0		G	74684031	G	G	74684031	2	3	134	1	0	0	0	0	0	0	0	1	10868	378	14	3		3	OIT3	10	74684031	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1112932	74684031	60850716	947	73605											
USP54	159195	broad.mit.edu	37	chr10	75279629	75279629	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacggctgctgtggtgattgCtgctgctgcatgcgatcctg	4	12	15	10	2	0	1	0	1	0	0	1	3	1	1	1	2	6	6	1	2	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:75279629C>T	uc001juo.2	-	17	2621	c.2604G>A	c.(2602-2604)CAG>CAA	p.Q868Q	USP54_uc010qkk.1_Silent_p.Q50Q|USP54_uc001juk.2_Intron|USP54_uc001jul.2_Intron|USP54_uc001jum.2_Intron|USP54_uc001jun.2_Intron|USP54_uc001jup.2_Silent_p.Q868Q	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	868	Poly-Gln.				ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					GTGGTGATTGCTGCTGCTGCA	0.557													28	42					0	0	0.007291	0	0		T	75279629	T	T	75279629	2	4	134	1	0	0	0	0	0	0	0	1	17111	796	28	2		2	USP54	10	75279629	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	595598	75279629	60255118	948	73606											
SYNPO2L	79933	broad.mit.edu	37	chr10	75407636	75407636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggcgcctctgggcgcgCagagggtcgcaaaggcgcag	7	3	19	12	5	1	1	0	0	1	1	2	1	1	1	1	5	0	4	1	5	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:75407636C>T	uc001jut.3	-	4	1926	c.1774G>A	c.(1774-1776)GCG>ACG	p.A592T	SYNPO2L_uc001jus.3_Missense_Mutation_p.A368T	NM_001114133	NP_001107605	Q9H987	SYP2L_HUMAN	synaptopodin 2-like isoform a	592	Pro-rich.					cytoplasm|cytoskeleton	actin binding			ovary(1)	1	Prostate(51;0.0112)					TCTGGGCGCGCAGAGGGTCGC	0.692													18	27					0	0	0.008871	0	0		T	75407636	T	T	75407636	3	4	134	1	0	0	0	0	1	0	0	0	15483	710	25	2	1163	2	SYNPO2L	10	75407636	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	128007	75407636	60127111	949	73607											
NDST2	8509	broad.mit.edu	37	chr10	75567574	75567575	+	Frame_Shift_Ins	INS	-	A	A																															ggagccccaagtttgagtgtINSaaaaaaaggggaaagccctt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:75567574_75567575insA	uc001jvk.2	-	3	1376_1377	c.572_573insT	c.(571-573)TTAfs	p.L191fs	NDST2_uc010qks.1_5'Flank|NDST2_uc010qkt.1_Frame_Shift_Ins_p.L68fs|NDST2_uc009xro.2_5'Flank|NDST2_uc010qku.1_Frame_Shift_Ins_p.L68fs	NM_003635	NP_003626	P52849	NDST2_HUMAN	heparan glucosaminyl	191	Lumenal (Potential).|Heparan sulfate N-deacetylase 2.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			ovary(1)	1	Prostate(51;0.0112)					AGTTTGAGTGTAAAAAAAGGGG	0.589													35	76	---	---	---	---						.	A	75567575	A	A	75567574	7	5	134	1	0	1	1	0	0	0	0	0	10275	1635	57	0	2130	0	NDST2	10	75567574	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	159938	75567574	59967173	950	73608											
POLR3A	11128	broad.mit.edu	37	chr10	79761979	79761979	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagccgcacagagccatggTgagggggctgttgctcttgt	6	9	17	9	1	1	2	0	1	1	1	1	3	1	3	2	4	3	4	2	4	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:79761979T>C	uc001jzn.2	-	17	2429	c.2335A>G	c.(2335-2337)ACC>GCC	p.T779A		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	779					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			AGAGCCATGGTGAGGGGGCTG	0.582													7	13					0	0	0.008291	0	0		C	79761979	C	C	79761979	3	2	134	1	0	0	0	0	1	0	0	0	12247	1696	59	3	1897	3	POLR3A	10	79761979	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4194405	79761979	55772768	951	73609											
GRID1	2894	broad.mit.edu	37	chr10	87484209	87484209	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgagccctcacagcctgTatcctgttcaacacaaatat	11	11	5	14	0	3	1	2	1	1	0	4	1	4	1	3	0	3	2	3	0	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:87484209T>C	uc001kdl.1	-	11	1859	c.1758A>G	c.(1756-1758)ATA>ATG	p.I586M	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.I157M	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	586	Cytoplasmic (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	TCACAGCCTGTATCCTGTTCA	0.552										Multiple Myeloma(13;0.14)			23	45					0	0	0.00333	0	0		C	87484209	C	C	87484209	3	2	134	1	0	0	0	0	1	0	0	0	6787	1628	57	3	1295	3	GRID1	10	87484209	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	7722230	87484209	48050538	952	73610											
GLUD1	2746	broad.mit.edu	37	chr10	88820800	88820800	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catagagtgtaggcccacatTaccaaatccctgtgaagaac	14	8	8	11	0	0	3	0	1	0	2	1	3	1	3	3	1	2	1	3	1	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:88820800T>C	uc001keh.2	-	7	1028	c.931A>G	c.(931-933)AAT>GAT	p.N311D	GLUD1_uc001keg.2_Missense_Mutation_p.N144D|GLUD1_uc010qmp.1_Missense_Mutation_p.N178D	NM_005271	NP_005262	P00367	DHE3_HUMAN	glutamate dehydrogenase 1 precursor	311					glutamate biosynthetic process|glutamate catabolic process|positive regulation of insulin secretion	mitochondrial matrix	ADP binding|ATP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|identical protein binding|leucine binding|NAD+ binding				0					L-Glutamic Acid(DB00142)|NADH(DB00157)	AGGCCCACATTACCAAATCCC	0.373													106	297					0	0	0.01441	0	0		C	88820800	C	C	88820800	3	2	134	1	0	0	0	0	1	0	0	0	6491	1754	61	3	773	3	GLUD1	10	88820800	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1336591	88820800	46713947	953	73611											
STAMBPL1	57559	broad.mit.edu	37	chr10	90665321	90665321	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacatcactccacgacgttActttaggtctggagtagaga	12	10	10	9	2	2	2	1	0	1	2	3	5	3	3	1	2	1	2	1	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:90665321A>G	uc001kfk.2	+	3	575	c.152A>G	c.(151-153)TAC>TGC	p.Y51C	STAMBPL1_uc010qmx.1_Missense_Mutation_p.Y51C|STAMBPL1_uc009xto.2_RNA|STAMBPL1_uc001kfl.2_Missense_Mutation_p.Y51C|STAMBPL1_uc001kfm.2_5'Flank	NM_020799	NP_065850	Q96FJ0	STALP_HUMAN	STAM binding protein-like 1	51							metal ion binding|metallopeptidase activity|protein binding			ovary(1)	1		Colorectal(252;0.0381)		Colorectal(12;6.38e-05)|COAD - Colon adenocarcinoma(12;7.75e-05)		CCACGACGTTACTTTAGGTCT	0.418													4	171					0	0	0.009096	0	0		G	90665321	G	G	90665321	3	3	134	1	0	0	0	0	1	0	0	0	15276	391	14	3	158	3	STAMBPL1	10	90665321	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1844521	90665321	44869426	954	73612											
NOC3L	64318	broad.mit.edu	37	chr10	96117944	96117944	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaggaagggcttcttcttcTtcctcttcttccctctcaat	7	16	5	13	0	6	0	1	0	6	0	9	1	8	1	2	2	0	1	2	2	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:96117944T>C	uc001kjq.1	-	3	334	c.246A>G	c.(244-246)GAA>GAG	p.E82E	NOC3L_uc009xuk.1_5'UTR	NM_022451	NP_071896	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog	82						nuclear speck|nucleolus	binding			ovary(1)	1		Colorectal(252;0.0897)				CTTCTTCTTCTTCCTCTTCTT	0.358													98	177					0	0	0.01441	0	0		C	96117944	C	C	96117944	2	2	134	1	0	0	0	0	0	0	0	1	10533	1606	56	3		3	NOC3L	10	96117944	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	5452623	96117944	39416803	955	73613											
CYP2C19	1557	broad.mit.edu	37	chr10	96541727	96541727	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaccctcgggactttatTgattgcttcctgatcaaaat	12	13	6	10	1	1	2	1	2	0	0	3	3	2	3	2	1	3	1	2	1	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:96541727T>C	uc010qnz.1	+	5	792	c.792T>C	c.(790-792)ATT>ATC	p.I264I	CYP2C19_uc009xus.1_Silent_p.I129I|CYP2C19_uc010qny.1_Silent_p.I242I	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	264					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	GGGACTTTATTGATTGCTTCC	0.338													71	108					0	0	0.01441	0	0		C	96541727	C	C	96541727	2	2	134	1	0	0	0	0	0	0	0	1	4169	1800	63	3		3	CYP2C19	10	96541727	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	423783	96541727	38993020	956	73614											
TM9SF3	56889	broad.mit.edu	37	chr10	98292872	98292872	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaagttgggctgacctgAcagatttcggccaagtattg	11	10	13	7	1	0	3	0	2	0	1	1	4	0	4	2	3	0	3	2	3	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:98292872A>G	uc001kmm.3	-	10	1478	c.1261T>C	c.(1261-1263)TCA>CCA	p.S421P	TM9SF3_uc010qot.1_Missense_Mutation_p.S421P	NM_020123	NP_064508	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3 precursor	421						integral to membrane	binding				0		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		GGCTGACCTGACAGATTTCGG	0.388													74	110					0	0	0.01441	0	0		G	98292872	G	G	98292872	3	3	134	1	0	0	0	0	1	0	0	0	16004	275	10	3	532	3	TM9SF3	10	98292872	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1751145	98292872	37241875	957	73615											
PYROXD2	84795	broad.mit.edu	37	chr10	100167414	100167414	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgggagaacttaaacccTgaaaccgaatccgatgaaga	15	5	11	10	4	0	4	0	2	0	2	1	7	1	4	3	1	3	0	3	1	6	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:100167414T>G	uc001kpc.2	-	4	328	c.242_splice	c.e4-1	p.G81_splice	PYROXD2_uc001kpb.2_Splice_Site|PYROXD2_uc001kpd.2_Splice_Site|PYROXD2_uc010qpe.1_Splice_Site_p.G81_splice	NM_032709	NP_116098	Q8N2H3	PYRD2_HUMAN	pyridine nucleotide-disulphide oxidoreductase								oxidoreductase activity			central_nervous_system(1)	1						ACTTAAACCCTGAAACCGAAT	0.622													20	27					0	0	0.008871	0	0		G	100167414	G	G	100167414	5	3	134	1	0	0	0	0	0	0	1	0	12892	1594	55	5	1557	5	PYROXD2	10	100167414	Splice_Site	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1874542	100167414	35367333	958	73616											
CPN1	1369	broad.mit.edu	37	chr10	101841235	101841235	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccacgctgcgcccaatgcTgtagacccgcgtgatgccgg	6	7	12	16	5	0	2	0	1	0	1	1	2	1	2	4	1	3	3	4	1	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:101841235T>G	uc001kql.2	-	1	408	c.148A>C	c.(148-150)AGC>CGC	p.S50R		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	50	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		CGCCCAATGCTGTAGACCCGC	0.592													32	50					0	0	0.009535	0	0		G	101841235	G	G	101841235	3	3	134	1	0	0	0	0	1	0	0	0	3812	1580	55	5	1264	5	CPN1	10	101841235	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1673821	101841235	33693512	959	73617											
TLX1	3195	broad.mit.edu	37	chr10	102893955	102893955	+	Frame_Shift_Del	DEL	C	-	-																															acccctatcagaaccggacgCcccccaagaagaagaagccg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:102893955delC	uc001ksw.2	+	2	830	c.592delC	c.(592-594)CCCfs	p.P198fs		NM_005521	NP_005512	P31314	TLX1_HUMAN	T-cell leukemia homeobox 1	198						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1				Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		GAACCGGACGCCCCCCAAGAA	0.627			T	TRB@|TRD@	T-ALL								8	14	---	---	---	---						.	-	102893955	-	-	102893955	7	5	134	1	0	1	0	1	0	0	0	0	15984	739	26	0	598	0	TLX1	10	102893955	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	1052720	102893955	32640792	960	73618											
GBF1	8729	broad.mit.edu	37	chr10	104117861	104117861	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaacagaagagatcccctcgGcccccacgccatatgaccaa	14	4	7	16	2	0	3	0	1	0	2	2	4	1	3	6	1	1	0	6	1	4	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:104117861G>A	uc001kux.1	+	9	945	c.705G>A	c.(703-705)CGG>CGA	p.R235R	GBF1_uc001kuw.2_Silent_p.R235R|GBF1_uc001kuy.1_Silent_p.R235R|GBF1_uc001kuz.1_Silent_p.R235R	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	235					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		GATCCCCTCGGCCCCCACGCC	0.498													130	224					0	0	0.01441	0	0		A	104117861	A	A	104117861	2	1	134	1	0	0	0	0	0	0	0	1	6286	1190	42	2		2	GBF1	10	104117861	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1223906	104117861	31416886	961	73619											
NT5C2	22978	broad.mit.edu	37	chr10	104860806	104860806	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatagtatatacatacctggTatatctgggacaattagtaa	15	14	7	5	0	1	0	0	0	1	0	1	1	1	1	1	2	2	3	1	2	11	10			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:104860806T>C	uc001kwo.2	-	8	721	c.535A>G	c.(535-537)ACC>GCC	p.T179A	NT5C2_uc010qqp.1_Missense_Mutation_p.T150A|NT5C2_uc001kwq.2_Missense_Mutation_p.T179A|NT5C2_uc001kwp.2_Translation_Start_Site	NM_012229	NP_036361	P49902	5NTC_HUMAN	5'-nucleotidase, cytosolic II	179					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|metal ion binding|nucleotide binding|protein binding				0		all_hematologic(284;0.176)|Colorectal(252;0.178)		Epithelial(162;1.33e-08)|all cancers(201;1.04e-07)|BRCA - Breast invasive adenocarcinoma(275;0.159)	Adenosine triphosphate(DB00171)|Ribavirin(DB00811)	ACATACCTGGTATATCTGGGA	0.303													16	50					0	0	0.00499	0	0		C	104860806	C	C	104860806	3	2	134	1	0	0	0	0	1	0	0	0	10706	1638	57	3	1198	3	NT5C2	10	104860806	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	742945	104860806	30673941	962	73620											
ADRA2A	150	broad.mit.edu	37	chr10	112839027	112839029	+	In_Frame_Del	DEL	TTC	-	-																															tgccacgcacgctcttcaaaTtcttcttctggttcggctac																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:112839027_112839029delTTC	uc001kzo.2	+	1	2238_2240	c.1273_1275delTTC	c.(1273-1275)TTCdel	p.F427del		NM_000681	NP_000672	P08913	ADA2A_HUMAN	alpha-2A-adrenergic receptor	412	Helical; Name=7; (By similarity).			F->N: 350-fold reduced affinity for alpha-2 antagonist yohimbine, 3000-fold increase for beta-antagonist alprenolol.	actin cytoskeleton organization|activation of MAPK activity by adrenergic receptor signaling pathway|activation of phospholipase C activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cellular component movement|cellular response to hormone stimulus|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|glucose homeostasis|inhibition of adenylate cyclase activity by adrenergic receptor signaling pathway|intestinal absorption|negative regulation of adrenergic receptor signaling pathway|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cAMP biosynthetic process|negative regulation of epinephrine secretion|negative regulation of insulin secretion involved in cellular response to glucose stimulus|negative regulation of lipid catabolic process|negative regulation of norepinephrine secretion|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cytokine production|positive regulation of membrane protein ectodomain proteolysis|positive regulation of potassium ion transport|positive regulation of wound healing|Rho protein signal transduction	basolateral plasma membrane|cytoplasm|integral to plasma membrane|receptor complex	alpha-1B adrenergic receptor binding|alpha-2C adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|heterotrimeric G-protein binding|norepinephrine binding|protein heterodimerization activity|protein homodimerization activity|protein kinase binding|thioesterase binding				0		Breast(234;0.0735)|Lung NSC(174;0.238)		Epithelial(162;0.000316)|all cancers(201;0.00501)|BRCA - Breast invasive adenocarcinoma(275;0.118)	Amitriptyline(DB00321)|Amphetamine(DB00182)|Apraclonidine(DB00964)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Brimonidine(DB00484)|Clonidine(DB00575)|Debrisoquin(DB04840)|Dexmedetomidine(DB00633)|Dipivefrin(DB00449)|Epinastine(DB00751)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanabenz(DB00629)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Lofexidine(DB04948)|Methyldopa(DB00968)|Mianserin(DB06148)|Mirtazapine(DB00370)|Norepinephrine(DB00368)|Oxymetazoline(DB00935)|Phentolamine(DB00692)|Phenylpropanolamine(DB00397)|Pseudoephedrine(DB00852)|Tizanidine(DB00697)|Trazodone(DB00656)|Yohimbine(DB01392)	GCTCTTCAAATTCTTCTTCTGGT	0.576													99	194	---	---	---	---						.	-	112839029	-	-	112839027	7	5	134	1	0	1	0	1	0	0	0	0	337	1493	52	0	1275	0	ADRA2A	10	112839027	In_Frame_Del	DEL	TTC	TCGA-CG-4442-01A-01D-1158-08	7978221	112839027	22695720	963	73621											
NHLRC2	374354	broad.mit.edu	37	chr10	115639427	115639427	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataatatcatatatgtggcAgacactgaaaaccaccttat	17	11	5	8	0	1	2	1	1	0	1	1	2	1	2	2	1	1	1	2	1	8	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:115639427A>T	uc001lax.1	+	4	1094	c.882A>T	c.(880-882)GCA>GCT	p.A294A		NM_198514	NP_940916	Q8NBF2	NHLC2_HUMAN	NHL repeat containing 2	294	NHL 2.				cell redox homeostasis					ovary(1)	1				Epithelial(162;0.017)|all cancers(201;0.0187)		TATATGTGGCAGACACTGAAA	0.289													11	34					0	0	0.003163	0	0		T	115639427	T	T	115639427	2	4	134	1	0	0	0	0	0	0	0	1	10425	175	7	5		5	NHLRC2	10	115639427	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2800400	115639427	19895320	964	73622											
ATRNL1	26033	broad.mit.edu	37	chr10	116881571	116881571	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgcacctttaatagctgtActtaggtgagtaattatatt	12	17	7	5	0	0	1	0	1	0	0	0	1	0	1	1	1	3	4	1	1	8	10			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:116881571A>G	uc001lcg.2	+	3	872	c.486A>G	c.(484-486)GTA>GTG	p.V162V	ATRNL1_uc001lce.2_RNA|ATRNL1_uc001lcf.2_Silent_p.V162V|ATRNL1_uc009xyq.2_Silent_p.V162V	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	162	CUB.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		TAATAGCTGTACTTAGGTGAG	0.284													26	70					0	0	0.003954	0	0		G	116881571	G	G	116881571	2	3	134	1	0	0	0	0	0	0	0	1	1208	378	14	3		3	ATRNL1	10	116881571	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1242144	116881571	18653176	965	73623											
KCNK18	338567	broad.mit.edu	37	chr10	118960795	118960795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcacggtgttcagcaccGtgggtaagtgcaaagccaca	10	7	13	11	2	1	0	1	0	0	0	1	0	1	0	2	2	4	6	2	2	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:118960795G>A	uc010qsr.1	+	2	349	c.349G>A	c.(349-351)GTG>ATG	p.V117M		NM_181840	NP_862823	Q7Z418	KCNKI_HUMAN	potassium channel, subfamily K, member 18	117						integral to membrane|plasma membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;0.19)		all cancers(201;0.0211)		GTTCAGCACCGTGGGTAAGTG	0.562													57	125					0	0	0.01441	0	0		A	118960795	A	A	118960795	3	1	134	1	0	0	0	0	1	0	0	0	8081	1145	40	1	355	1	KCNK18	10	118960795	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2079224	118960795	16573952	966	73624											
INPP5F	22876	broad.mit.edu	37	chr10	121587268	121587268	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaaagatgtttatacaatgCcagacacggataattcagat	18	10	7	6	1	1	3	1	0	0	3	1	4	1	4	1	1	2	1	1	1	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:121587268C>T	uc001leo.2	+	20	3541	c.3375C>T	c.(3373-3375)TGC>TGT	p.C1125C	INPP5F_uc001lep.2_Silent_p.C515C	NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	1125							phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		TTATACAATGCCAGACACGGA	0.328													36	159					0	0	0.004289	0	0		T	121587268	T	T	121587268	2	4	134	1	0	0	0	0	0	0	0	1	7774	747	26	2		2	INPP5F	10	121587268	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2626473	121587268	13947479	967	73625											
TACC2	10579	broad.mit.edu	37	chr10	123842738	123842738	+	Frame_Shift_Del	DEL	G	-	-																															ccccctgcagagtccaggcaGggggtggcttctgtgcaagt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:123842738delG	uc001lfv.2	+	4	1083	c.723delG	c.(721-723)CAGfs	p.Q241fs	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Frame_Shift_Del_p.Q241fs|TACC2_uc010qtv.1_Frame_Shift_Del_p.Q241fs	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	241						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				AGTCCAGGCAGGGGGTGGCTT	0.617													59	77	---	---	---	---						.	-	123842738	-	-	123842738	7	5	134	1	0	1	0	1	0	0	0	0	15527	991	35	0	733	0	TACC2	10	123842738	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	2255470	123842738	11692009	968	73626											
TACC2	10579	broad.mit.edu	37	chr10	123971212	123971212	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccaagaagaagaagacGcccctaaagacgtaagttca	16	4	9	12	3	1	5	1	0	0	5	1	5	1	5	4	0	0	2	4	0	7	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:123971212G>A	uc001lfv.2	+	9	7632	c.7272G>A	c.(7270-7272)ACG>ACA	p.T2424T	TACC2_uc001lfw.2_Silent_p.T570T|TACC2_uc009xzx.2_Silent_p.T2379T|TACC2_uc010qtv.1_Silent_p.T2428T|TACC2_uc001lfx.2_Silent_p.T128T|TACC2_uc001lfy.2_Silent_p.T128T|TACC2_uc001lfz.2_Silent_p.T502T|TACC2_uc001lga.2_Silent_p.T502T|TACC2_uc009xzy.2_Silent_p.T502T|TACC2_uc001lgb.2_Silent_p.T459T|TACC2_uc010qtw.1_Silent_p.T519T	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	2424						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				AGAAGAAGACGCCCCTAAAGA	0.557													37	44					0	0	0.006999	0	0		A	123971212	A	A	123971212	2	1	134	1	0	0	0	0	0	0	0	1	15527	1074	38	1		1	TACC2	10	123971212	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	128474	123971212	11563535	969	73627											
CTBP2	1488	broad.mit.edu	37	chr10	126683183	126683183	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcgatcccatcctgcaagTaggggtcataaaatatgacg	12	9	10	10	2	1	1	1	1	0	0	4	2	3	1	2	2	1	3	2	2	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:126683183T>C	uc009yak.2	-	7	922	c.635A>G	c.(634-636)TAC>TGC	p.Y212C	CTBP2_uc009yal.2_Missense_Mutation_p.Y212C|CTBP2_uc001lif.3_Missense_Mutation_p.Y212C|CTBP2_uc001lih.3_Missense_Mutation_p.Y212C|CTBP2_uc001lid.3_Missense_Mutation_p.Y280C|CTBP2_uc001lie.3_Missense_Mutation_p.Y752C	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1	212					negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)		ATCCTGCAAGTAGGGGTCATA	0.567													35	107					0	0	0.006999	0	0		C	126683183	C	C	126683183	3	2	134	1	0	0	0	0	1	0	0	0	4001	1638	57	3	722	3	CTBP2	10	126683183	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2711971	126683183	8851564	970	73628											
UROS	7390	broad.mit.edu	37	chr10	127504804	127504804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ataaaacagggatcaaagtgGcttcaagtccatataatcct	16	10	7	8	0	2	0	2	0	0	0	4	1	4	1	2	2	1	1	2	2	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:127504804G>A	uc001liw.3	-	2	222	c.89C>T	c.(88-90)GCC>GTC	p.A30V	UROS_uc001liv.3_5'Flank|UROS_uc010quh.1_RNA|UROS_uc001lix.3_Missense_Mutation_p.A30V|UROS_uc001liy.3_RNA|UROS_uc001liz.2_5'Flank	NM_000375	NP_000366	P10746	HEM4_HUMAN	uroporphyrinogen III synthase	30					heme biosynthetic process|uroporphyrinogen III biosynthetic process	cytosol|mitochondrion	uroporphyrinogen-III synthase activity				0		all_lung(145;0.00756)|Lung NSC(174;0.0116)|Colorectal(57;0.0855)|all_neural(114;0.0937)|Breast(234;0.203)				GATCAAAGTGGCTTCAAGTCC	0.368													28	60					0	0	0.00632	0	0		A	127504804	A	A	127504804	3	1	134	1	0	0	0	0	1	0	0	0	17056	1203	42	2	740	2	UROS	10	127504804	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	821621	127504804	8029943	971	73629											
DOCK1	1793	broad.mit.edu	37	chr10	129237392	129237392	+	Frame_Shift_Del	DEL	A	-	-																															gaagaaggacaagaagaaggAaaaaaggaacagcaaacatc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:129237392delA	uc001ljt.2	+	49	5163	c.5099delA	c.(5098-5100)GAAfs	p.E1700fs	DOCK1_uc010qun.1_Frame_Shift_Del_p.E1721fs|DOCK1_uc009yaq.2_Frame_Shift_Del_p.E695fs	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	1700					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		aagaagaaggaaaaaaggaaC	0.393													8	15	---	---	---	---						.	-	129237392	-	-	129237392	7	5	134	1	0	1	0	1	0	0	0	0	4690	246	9	0	5293	0	DOCK1	10	129237392	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	1732588	129237392	6297355	972	73630											
BNIP3	664	broad.mit.edu	37	chr10	133784230	133784230	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatatgccccctttcttcaTgacgctcgtgttcctcatgc	6	14	7	14	2	3	1	2	1	1	0	5	2	4	1	3	0	2	2	3	0	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:133784230T>C	uc001lkv.1	-	5	577	c.451A>G	c.(451-453)ATG>GTG	p.M151V	BNIP3_uc001lku.1_5'Flank|BNIP3_uc010qut.1_Missense_Mutation_p.M151V	NM_004052	NP_004043	Q12983	BNIP3_HUMAN	BCL2/adenovirus E1B 19kD-interacting protein 3	151					cellular response to cobalt ion|cellular response to hypoxia|cellular response to mechanical stimulus|chromatin remodeling|defense response to virus|DNA fragmentation involved in apoptotic nuclear change|induction of apoptosis|interspecies interaction between organisms|mitochondrial fragmentation involved in apoptosis|negative regulation of membrane potential|negative regulation of mitochondrial fusion|negative regulation of survival gene product expression|neuron apoptosis|positive regulation of mitochondrial fission|positive regulation of protein complex disassembly|positive regulation of release of cytochrome c from mitochondria|reactive oxygen species metabolic process|regulation of mitochondrial membrane permeability	dendrite|integral to mitochondrial outer membrane|nuclear envelope|nucleoplasm	GTPase binding|protein heterodimerization activity|protein homodimerization activity			lung(1)|skin(1)	2		all_cancers(35;4e-11)|all_epithelial(44;5.07e-08)|Ovarian(717;2.61e-05)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Breast(234;0.023)|all_neural(114;0.0299)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)		Epithelial(32;1.59e-12)|all cancers(32;3.75e-11)|OV - Ovarian serous cystadenocarcinoma(35;2.57e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		CCTTTCTTCATGACGCTCGTG	0.522													31	52					0	0	0.010818	0	0		C	133784230	C	C	133784230	3	2	134	1	0	0	0	0	1	0	0	0	1479	1464	51	3	141	3	BNIP3	10	133784230	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4546838	133784230	1750517	973	73631											
C10orf91	170393	broad.mit.edu	37	chr10	134261301	134261301	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcttcctgttcacagagaaAcctcagacaagaagcacgtc	14	7	8	12	1	2	3	2	0	0	3	4	4	3	3	2	0	3	3	2	0	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:134261301A>G	uc001llm.2	+	3	214	c.174A>G	c.(172-174)AAA>AAG	p.K58K		NM_173541	NP_775812	Q5T1B1	CJ091_HUMAN	hypothetical protein LOC170393	58										ovary(1)	1		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;6.95e-05)|Epithelial(32;0.000142)|all cancers(32;0.000162)		TCACAGAGAAACCTCAGACAA	0.567													5	337					0	0	0.000602	0	0		G	134261301	G	G	134261301	2	3	134	1	0	0	0	0	0	0	0	1	1627	40	2	3		3	C10orf91	10	134261301	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	477071	134261301	1273446	974	73632											
ADAM8	101	broad.mit.edu	37	chr10	135083930	135083930	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccatcctctgtggtgagCgcgtggcacacatccacgat	7	9	12	13	3	1	1	0	1	1	0	3	2	3	1	3	2	2	1	3	2	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:135083930C>T	uc010qva.1	-	15	1653	c.1602G>A	c.(1600-1602)GCG>GCA	p.A534A	ADAM8_uc010quz.1_Silent_p.A573A|ADAM8_uc009ybi.2_Silent_p.A573A			P78325	ADAM8_HUMAN	SubName: Full=cDNA FLJ50704, highly similar to ADAM 8 (EC 3.4.24.-) (A disintegrinand metalloproteinase domain 8);	534					integrin-mediated signaling pathway|proteolysis		metalloendopeptidase activity			large_intestine(2)|central_nervous_system(1)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;7.72e-06)|OV - Ovarian serous cystadenocarcinoma(35;8.23e-06)|Epithelial(32;1.02e-05)		CTGTGGTGAGCGCGTGGCACA	0.667													32	47					0	0	0.010818	0	0		T	135083930	T	T	135083930	2	4	134	1	0	0	0	0	0	0	0	1	252	755	27	1		1	ADAM8	10	135083930	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	822629	135083930	450817	975	73633											
TUBGCP2	10844	broad.mit.edu	37	chr10	135106172	135106172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtggaccccccaagacattCgcctttgtccaccgaggtgg	7	8	11	15	3	0	1	0	0	0	1	2	3	1	2	6	3	0	0	6	3	1	2	rs145003131		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr10:135106172C>T	uc001lmg.1	-	8	1402	c.1045G>A	c.(1045-1047)GAA>AAA	p.E349K	TUBGCP2_uc001lmf.1_5'Flank|TUBGCP2_uc010qvc.1_Missense_Mutation_p.E377K|TUBGCP2_uc009ybk.1_Missense_Mutation_p.E349K|TUBGCP2_uc010qvd.1_Missense_Mutation_p.E219K|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	349					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		CCAAGACATTCGCCTTTGTCC	0.627													14	22					0	0	0.004007	0	0		T	135106172	T	T	135106172	3	4	134	1	0	0	0	0	1	0	0	0	16792	893	31	1	1707	1	TUBGCP2	10	135106172	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	22242	135106172	428575	976	73634											
LRDD	55367	broad.mit.edu	37	chr11	802043	802043	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcctgaccaccacttcacgGcagcgccgggcctgcggtgg	5	6	14	16	4	1	1	1	1	0	0	2	1	2	1	5	4	2	1	5	4	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:802043G>A	uc001lro.1	-	7	1366	c.1224C>T	c.(1222-1224)TGC>TGT	p.C408C	LRDD_uc009yck.1_RNA|LRDD_uc001lrk.1_Silent_p.C408C|LRDD_uc001lrl.1_Silent_p.C262C|LRDD_uc001lrm.1_Silent_p.C95C|LRDD_uc001lrn.1_Silent_p.C262C|LRDD_uc001lrp.1_5'UTR	NM_145886	NP_665893	Q9HB75	PIDD_HUMAN	leucine rich repeat and death domain containing	408	ZU5 1.				apoptosis|signal transduction	cytoplasm|nucleus	death receptor binding				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCACTTCACGGCAGCGCCGGG	0.672													8	8					0	0	0.00308	0	0		A	802043	A	A	802043	2	1	134	1	0	0	0	0	0	0	0	1	8954	1195	42	2		2	LRDD	11	802043	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08		802043	134204473	977	73635											
AP2A2	161	broad.mit.edu	37	chr11	959505	959505	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatcagatcaaaatttaaaGgtaagtatgtttaacctttt	16	16	5	4	0	2	1	2	0	0	1	2	1	2	1	1	1	1	3	1	1	8	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:959505G>T	uc001lss.2	+	2	317	c.136G>T	c.(136-138)GGT>TGT	p.G46C	AP2A2_uc001lst.1_Missense_Mutation_p.G46C|AP2A2_uc009yco.1_RNA	NM_012305	NP_036437	O94973	AP2A2_HUMAN	adaptor-related protein complex 2, alpha 2	46	Lipid-binding.				axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	lipid binding|protein transporter activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.75e-24)|BRCA - Breast invasive adenocarcinoma(625;5.73e-05)|Lung(200;0.0696)|LUSC - Lung squamous cell carcinoma(625;0.082)		AAAATTTAAAGGTAAGTATGT	0.289													20	23					1.01871e-10	1.13366e-10	0.008871	1	0		T	959505	T	T	959505	3	4	134	1	0	0	0	0	1	0	0	0	740	1014	35	5	142	5	AP2A2	11	959505	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	157462	959505	134047011	978	73636											
KRTAP5-4	387267	broad.mit.edu	37	chr11	1643002	1643002	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggagccacagcccccctTggagcccccacaggagccac	10	2	10	19	0	0	0	0	0	0	0	0	3	0	3	7	3	4	0	7	3	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:1643002T>G	uc009ycy.1	-	3	547	c.460A>C	c.(460-462)AAG>CAG	p.K154Q		NM_001012709	NP_001012727	Q6L8H1	KRA54_HUMAN	keratin associated protein 5-4	168	9 X 4 AA repeats of C-C-X-P.					keratin filament					0		all_epithelial(84;0.00819)|Breast(177;0.00832)|Ovarian(85;0.0256)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		CAGCCCCCCTTGGAGCCCCCA	0.682													9	64					0	0	0.005443	0	0		G	1643002	G	G	1643002	3	3	134	1	0	0	0	0	1	0	0	0	8579	1821	63	5	368	5	KRTAP5-4	11	1643002	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	683497	1643002	133363514	979	73637											
SYT8	90019	broad.mit.edu	37	chr11	1858627	1858627	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctggccctgcagccccGccttcgcctgcgcctgccct	2	8	10	21	3	0	0	0	0	0	0	1	0	0	0	7	1	5	2	7	1	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:1858627G>A	uc001lue.1	+	9	1300	c.1172G>A	c.(1171-1173)CGC>CAC	p.R391H	SYT8_uc001lud.2_Missense_Mutation_p.R391H|SYT8_uc001luf.1_Missense_Mutation_p.R377H|TNNI2_uc010qxc.1_5'Flank|TNNI2_uc010qxd.1_5'Flank|TNNI2_uc010qxe.1_5'Flank	NM_138567	NP_612634	Q8NBV8	SYT8_HUMAN	synaptotagmin VIII	391	Cytoplasmic (Potential).					acrosomal vesicle|integral to membrane|plasma membrane|synaptic vesicle	transporter activity			ovary(1)	1		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		CTGCAGCCCCGCCTTCGCCTG	0.726													14	25					0	0	0.003163	0	0		A	1858627	A	A	1858627	3	1	134	1	0	0	0	0	1	0	0	0	15505	1087	38	1	1206	1	SYT8	11	1858627	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	215625	1858627	133147889	980	73638											
TH	7054	broad.mit.edu	37	chr11	2192945	2192945	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accatgatggcctctgcctgCttggcgtccagctcagacac	7	9	10	15	1	2	2	1	1	1	1	3	2	3	2	4	2	3	2	4	2	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:2192945C>T	uc001lvq.2	-	1	91	c.72G>A	c.(70-72)AAG>AAA	p.K24K	TH_uc001lvp.2_Silent_p.K24K|TH_uc001lvr.2_Silent_p.K24K|TH_uc010qxj.1_Silent_p.K24K|TH_uc001lvs.2_Silent_p.K24K|TH_uc001lvt.2_Silent_p.K24K	NM_199292	NP_954986	P07101	TY3H_HUMAN	tyrosine hydroxylase isoform a	24					dopamine biosynthetic process from tyrosine|embryonic camera-type eye morphogenesis|epinephrine biosynthetic process|eye photoreceptor cell development|heart morphogenesis|hormone biosynthetic process|learning|locomotory behavior|memory|neurotransmitter biosynthetic process|neurotransmitter secretion|norepinephrine biosynthetic process|pigmentation|regulation of heart contraction|response to ethanol|response to hypoxia|synaptic transmission, dopaminergic|visual perception	cytosol|internal side of plasma membrane|melanosome membrane|nucleus|perikaryon|smooth endoplasmic reticulum	protein binding|tyrosine 3-monooxygenase activity				0		all_epithelial(84;1.46e-23)|Lung NSC(207;4.44e-11)|all_lung(207;1.11e-09)|Ovarian(85;1.78e-06)|Breast(177;1.78e-05)|Medulloblastoma(188;0.0208)|all_neural(188;0.0416)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;8.45e-09)|Lung(200;0.000152)|LUSC - Lung squamous cell carcinoma(625;0.00154)	L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Metyrosine(DB00765)|Tetrahydrobiopterin(DB00360)	CCTCTGCCTGCTTGGCGTCCA	0.701													33	54					0	0	0.009718	0	0		T	2192945	T	T	2192945	2	4	134	1	0	0	0	0	0	0	0	1	15863	796	28	2		2	TH	11	2192945	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	334318	2192945	132813571	981	73639											
OSBPL5	114879	broad.mit.edu	37	chr11	3141754	3141754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcagtgcagcagcaccGtgcccacccactggcccacc	8	3	10	20	2	0	0	0	0	0	0	0	0	0	0	5	1	5	5	5	1	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:3141754G>A	uc001lxk.2	-	6	661	c.503C>T	c.(502-504)ACG>ATG	p.T168M	OSBPL5_uc010qxq.1_Intron|OSBPL5_uc009ydw.2_Intron|OSBPL5_uc001lxl.2_Intron|OSBPL5_uc009ydx.2_Missense_Mutation_p.T192M	NM_020896	NP_065947	Q9H0X9	OSBL5_HUMAN	oxysterol-binding protein-like protein 5 isoform	168	PH.				cholesterol metabolic process|cholesterol transport|Golgi to plasma membrane transport	cytosol	oxysterol binding|protein binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		CAGCAGCACCGTGCCCACCCA	0.647													36	98					0	0	0.006999	0	0		A	3141754	A	A	3141754	3	1	134	1	0	0	0	0	1	0	0	0	11299	1145	40	1	2204	1	OSBPL5	11	3141754	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	948809	3141754	131864762	982	73640											
ZNF195	7748	broad.mit.edu	37	chr11	3380779	3380779	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtttttcttcagaatgagTtctcttatggttagaaaggc	9	16	11	5	0	3	3	1	1	2	2	4	3	3	3	0	3	0	3	0	3	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:3380779T>C	uc001lxt.2	-	6	1637	c.1459A>G	c.(1459-1461)ACT>GCT	p.T487A	uc001lxr.2_5'Flank|ZNF195_uc001lxv.2_Missense_Mutation_p.T464A|ZNF195_uc001lxs.2_Missense_Mutation_p.T415A|ZNF195_uc010qxr.1_Missense_Mutation_p.T468A|ZNF195_uc009ydz.2_Missense_Mutation_p.T442A|ZNF195_uc001lxu.2_Missense_Mutation_p.T419A	NM_001130520	NP_001123992	O14628	ZN195_HUMAN	zinc finger protein 195 isoform 1	487	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Medulloblastoma(188;0.00106)|Breast(177;0.00328)|all_neural(188;0.00681)|Ovarian(85;0.00965)		BRCA - Breast invasive adenocarcinoma(625;0.0361)|LUSC - Lung squamous cell carcinoma(625;0.2)		TCAGAATGAGTTCTCTTATGG	0.428													14	314					0	0	0.00245	0	0		C	3380779	C	C	3380779	3	2	134	1	0	0	0	0	1	0	0	0	17783	1725	60	3	434	3	ZNF195	11	3380779	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	239025	3380779	131625737	983	73641											
OR51B2	79345	broad.mit.edu	37	chr11	5345074	5345074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattacaggcaggatggataCaaaaccccttagaaacactc	17	7	7	10	0	0	1	0	0	0	1	1	3	0	3	2	3	4	1	2	3	7	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:5345074C>T	uc001mao.1	-	1	509	c.454G>A	c.(454-456)GTA>ATA	p.V152I	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGGATGGATACAAAACCCCTT	0.403													61	125					0	0	0.01441	0	0		T	5345074	T	T	5345074	3	4	134	1	0	0	0	0	1	0	0	0	11108	478	17	4	488	4	OR51B2	11	5345074	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1964295	5345074	129661442	984	73642											
OR51I1	390063	broad.mit.edu	37	chr11	5462728	5462728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgctggctggaagggggtgCcattgagacccagcatggtg	7	9	17	8	0	0	1	0	1	0	1	0	3	0	2	2	5	3	3	2	5	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:5462728C>T	uc010qze.1	-	1	17	c.17G>A	c.(16-18)GGC>GAC	p.G6D	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005288	NP_001005288	Q9H343	O51I1_HUMAN	olfactory receptor, family 51, subfamily I,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAAGGGGGTGCCATTGAGACC	0.507													30	68					0	0	0.007291	0	0		T	5462728	T	T	5462728	3	4	134	1	0	0	0	0	1	0	0	0	11119	739	26	2	931	2	OR51I1	11	5462728	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	117654	5462728	129543788	985	73643											
APBB1	322	broad.mit.edu	37	chr11	6432080	6432080	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcctcctcctcctcttcAtcatcatcatcctcctcctc	6	14	1	20	0	5	0	4	0	1	0	13	0	12	0	7	0	0	0	7	0	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:6432080A>T	uc001mdb.1	-	2	598	c.498T>A	c.(496-498)GAT>GAA	p.D166E	APBB1_uc001mdc.1_Missense_Mutation_p.D166E|APBB1_uc010rah.1_Intron	NM_001164	NP_001155	O00213	APBB1_HUMAN	amyloid beta A4 precursor protein-binding,	166	Glu-rich.				apoptosis|axonogenesis|cell cycle arrest|histone H4 acetylation|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of thymidylate synthase biosynthetic process|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|signal transduction|transcription, DNA-dependent	cytoplasm|growth cone|lamellipodium|nucleus|plasma membrane|synapse	beta-amyloid binding|chromatin binding|histone binding|proline-rich region binding|transcription factor binding			breast(2)	2		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;6.49e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		cctcctcttcatcatcatcat	0.408													26	44					0	0	0.005443	0	0		T	6432080	T	T	6432080	3	4	134	1	0	0	0	0	1	0	0	0	759	214	8	5	1686	5	APBB1	11	6432080	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	969352	6432080	128574436	986	73644											
OR2AG2	338755	broad.mit.edu	37	chr11	6789258	6789258	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctagagcgtggaatgtgccaGcagtatgtattttcccagga	10	11	12	8	1	0	1	0	0	0	1	1	3	1	3	2	2	3	3	2	2	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:6789258G>A	uc001meq.1	-	1	931	c.931C>T	c.(931-933)CTG>TTG	p.L311L		NM_001004490	NP_001004490	A6NM03	O2AG2_HUMAN	olfactory receptor, family 2, subfamily AG,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GAATGTGCCAGCAGTATGTAT	0.483													38	66					0	0	0.006999	0	0		A	6789258	A	A	6789258	2	1	134	1	0	0	0	0	0	0	0	1	11004	962	34	2		2	OR2AG2	11	6789258	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	357178	6789258	128217258	987	73645											
OLFML1	283298	broad.mit.edu	37	chr11	7531212	7531212	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tatgtggtctacagtactggGggccagggccctcatcgcat	7	10	13	11	1	2	0	1	0	1	0	3	0	2	0	2	4	2	2	2	4	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:7531212G>T	uc001mfi.2	+	3	1354	c.1002G>T	c.(1000-1002)GGG>GGT	p.G334G	OLFML1_uc010raz.1_Silent_p.G198G|OLFML1_uc010rba.1_Silent_p.G334G	NM_198474	NP_940876	Q6UWY5	OLFL1_HUMAN	olfactomedin-like 1 precursor	334	Olfactomedin-like.					extracellular region				ovary(2)	2				Epithelial(150;6.96e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		ACAGTACTGGGGGCCAGGGCC	0.542													39	66					2.47872e-24	2.87446e-24	0.010771	1	0		T	7531212	T	T	7531212	2	4	134	1	0	0	0	0	0	0	0	1	10875	1219	43	5		5	OLFML1	11	7531212	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	741954	7531212	127475304	988	73646											
CYB5R2	51700	broad.mit.edu	37	chr11	7687700	7687700	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaatgggaggcctgtccaGggtgtaccacaggttgaact	10	8	13	10	0	0	1	0	1	0	0	1	2	1	2	4	4	2	2	4	4	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:7687700G>T	uc001mfm.2	-	8	878	c.640C>A	c.(640-642)CTG>ATG	p.L214M	CYB5R2_uc001mfn.2_RNA|CYB5R2_uc009yfk.2_Missense_Mutation_p.L214M	NM_016229	NP_057313	Q6BCY4	NB5R2_HUMAN	cytochrome b5 reductase b5R.2	214					sterol biosynthetic process	membrane|soluble fraction	cytochrome-b5 reductase activity				0				Epithelial(150;5.48e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGCCTGTCCAGGGTGTACCAC	0.498											OREG0020724	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	59					3.03874e-20	3.4877e-20	0.003271	1	0		T	7687700	T	T	7687700	3	4	134	1	0	0	0	0	1	0	0	0	4130	991	35	5	198	5	CYB5R2	11	7687700	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	156488	7687700	127318816	989	73647											
SCUBE2	57758	broad.mit.edu	37	chr11	9096091	9096091	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacccctccttgcagcagcActcatagctccccatgacgt	10	8	6	17	1	1	1	1	1	0	0	3	1	3	1	5	0	5	4	5	0	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:9096091A>G	uc001mhh.1	-	4	534	c.454T>C	c.(454-456)TGC>CGC	p.C152R	SCUBE2_uc001mhi.1_Missense_Mutation_p.C152R|SCUBE2_uc001mhj.1_Missense_Mutation_p.C152R	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	152	EGF-like 3; calcium-binding (Potential).					extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		TTGCAGCAGCACTCATAGCTC	0.567													16	244					0	0	0.004007	0	0		G	9096091	G	G	9096091	3	3	134	1	0	0	0	0	1	0	0	0	13970	159	6	3	2712	3	SCUBE2	11	9096091	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1408391	9096091	125910425	990	73648											
ZNF143	7702	broad.mit.edu	37	chr11	9530309	9530309	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacatacaagcagatctccAcgctggccatgcacaaacgg	14	5	9	13	2	1	2	0	0	1	2	2	2	1	2	2	2	4	3	2	2	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:9530309A>G	uc001mhr.2	+	12	1409	c.1291A>G	c.(1291-1293)ACG>GCG	p.T431A	ZNF143_uc009yfu.2_Missense_Mutation_p.T430A|ZNF143_uc010rby.1_Missense_Mutation_p.T400A	NM_003442	NP_003433	P52747	ZN143_HUMAN	zinc finger protein 143	431	C2H2-type 7.				regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding|zinc ion binding				0				all cancers(16;4.12e-09)|Epithelial(150;2.29e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0212)		GCAGATCTCCACGCTGGCCAT	0.493													11	21					0	0	0.013537	0	0		G	9530309	G	G	9530309	3	3	134	1	0	0	0	0	1	0	0	0	17757	159	6	3	1333	3	ZNF143	11	9530309	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	434218	9530309	125476207	991	73649											
FAR1	84188	broad.mit.edu	37	chr11	13732384	13732384	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggcaattgtaaggccatcGattgttggtgccagttggaa	9	12	14	6	1	0	0	0	0	0	0	1	2	0	1	2	4	1	4	2	4	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:13732384G>A	uc001mld.2	+	5	845	c.690G>A	c.(688-690)TCG>TCA	p.S230S	FAR1_uc009ygp.2_Silent_p.S230S	NM_032228	NP_115604	Q8WVX9	FACR1_HUMAN	fatty acyl CoA reductase 1	230					ether lipid biosynthetic process	integral to membrane|peroxisomal matrix|peroxisomal membrane	protein binding			ovary(1)|skin(1)	2						TAAGGCCATCGATTGTTGGTG	0.343													49	73					0	0	0.01441	0	0		A	13732384	A	A	13732384	2	1	134	1	0	0	0	0	0	0	0	1	5688	1045	37	1		1	FAR1	11	13732384	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4202075	13732384	121274132	992	73650											
MRGPRX3	117195	broad.mit.edu	37	chr11	18159005	18159005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acattatatgttcgccgttaCgcctcatcaatatccgccat	10	13	5	13	4	2	0	2	0	0	0	4	0	3	0	4	0	1	2	4	0	5	5	rs141255495		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:18159005C>T	uc001mnu.2	+	3	617	c.256C>T	c.(256-258)CGC>TGC	p.R86C		NM_054031	NP_473372	Q96LB0	MRGX3_HUMAN	MAS-related GPR, member X3	86	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						TTCGCCGTTACGCCTCATCAA	0.547													49	107					0	0	0.01441	0	0		T	18159005	T	T	18159005	3	4	134	1	0	0	0	0	1	0	0	0	9786	536	19	1	258	1	MRGPRX3	11	18159005	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4426621	18159005	116847511	993	73651											
SLC6A5	9152	broad.mit.edu	37	chr11	20622906	20622906	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcggccaggagtggggTcttgcaaactcagtagcccg	8	7	15	11	2	2	1	1	1	1	0	2	2	2	2	2	4	4	2	2	4	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:20622906T>C	uc001mqd.2	+	2	508	c.235T>C	c.(235-237)TCT>CCT	p.S79P	SLC6A5_uc009yic.2_5'UTR	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	79	Cytoplasmic (Potential).				synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	AGGAGTGGGGTCTTGCAAACT	0.726													5	1					0	0	0.001168	0	0		C	20622906	C	C	20622906	3	2	134	1	0	0	0	0	1	0	0	0	14712	1667	58	3	241	3	SLC6A5	11	20622906	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2463901	20622906	114383610	994	73652											
LUZP2	338645	broad.mit.edu	37	chr11	24518834	24518834	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgcctctcctgcctgcGctggtcctcagcaccaggtg	3	10	11	17	1	2	0	1	0	1	0	4	0	3	0	5	2	5	3	5	2	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:24518834G>A	uc001mqs.2	+	1	279	c.45G>A	c.(43-45)GCG>GCA	p.A15A	LUZP2_uc009yif.2_5'UTR|LUZP2_uc009yig.2_Silent_p.A15A	NM_001009909	NP_001009909	Q86TE4	LUZP2_HUMAN	leucine zipper protein 2 precursor	15						extracellular region				ovary(1)|skin(1)	2						TCCTGCCTGCGCTGGTCCTCA	0.662													9	26					0	0	0.010729	0	0		A	24518834	A	A	24518834	2	1	134	1	0	0	0	0	0	0	0	1	9105	1074	38	1		1	LUZP2	11	24518834	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3895928	24518834	110487682	995	73653											
BDNF	627	broad.mit.edu	37	chr11	27679694	27679694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactaatactgtcacacaCgctcagctcccctcggcggg	8	8	8	17	3	3	0	3	0	0	0	5	0	4	0	2	2	2	2	2	2	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:27679694C>T	uc010rdu.1	-	2	1269	c.418G>A	c.(418-420)GTG>ATG	p.V140M	BDNFOS_uc001mrm.2_Intron|BDNFOS_uc009yij.2_Intron|BDNFOS_uc009yik.2_Intron|BDNFOS_uc009yil.2_Intron|BDNFOS_uc001mrp.2_Intron|BDNFOS_uc009yim.2_Intron|BDNFOS_uc009yin.2_Intron|BDNFOS_uc009yio.2_Intron|BDNFOS_uc009yip.2_Intron|BDNFOS_uc001mrn.2_Intron|BDNFOS_uc009yiq.2_Intron|BDNFOS_uc001mro.2_Intron|BDNFOS_uc009yir.2_Intron|BDNFOS_uc009yis.2_Intron|BDNFOS_uc009yit.2_Intron|BDNFOS_uc009yiu.2_Intron|BDNFOS_uc009yiv.2_Intron|BDNFOS_uc009yiw.2_Intron|BDNFOS_uc009yix.2_Intron|BDNFOS_uc009yiy.2_Intron|BDNFOS_uc009yiz.2_Intron|BDNFOS_uc001mrq.3_Intron|BDNFOS_uc001mrr.3_Intron|BDNFOS_uc009yja.2_Intron|BDNFOS_uc009yjb.2_Intron|BDNF_uc010rdv.1_Missense_Mutation_p.V140M|BDNF_uc001mrt.2_Missense_Mutation_p.V155M|BDNF_uc010rdw.1_Missense_Mutation_p.V140M|BDNF_uc009yjd.2_Missense_Mutation_p.V140M|BDNF_uc001mru.2_Missense_Mutation_p.V140M|BDNF_uc010rdx.1_Missense_Mutation_p.V140M|BDNF_uc010rdy.1_Missense_Mutation_p.V140M|BDNF_uc009yjg.2_Missense_Mutation_p.V140M|BDNF_uc009yje.2_Missense_Mutation_p.V222M|BDNF_uc009yjf.2_Missense_Mutation_p.V169M|BDNF_uc001mrv.2_Missense_Mutation_p.V140M|BDNF_uc001mrw.3_Missense_Mutation_p.V140M|BDNF_uc001mrx.2_Missense_Mutation_p.V140M|BDNF_uc001mry.3_Missense_Mutation_p.V140M|BDNF_uc001mrz.3_Missense_Mutation_p.V140M|BDNF_uc001msa.2_Missense_Mutation_p.V148M	NM_001143816	NP_001137288	P23560	BDNF_HUMAN	brain-derived neurotrophic factor isoform a	140						extracellular region	growth factor activity				0						CTGTCACACACGCTCAGCTCC	0.542													55	140					0	0	0.01441	0	0		T	27679694	T	T	27679694	3	4	134	1	0	0	0	0	1	0	0	0	1395	536	19	1	329	1	BDNF	11	27679694	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3160860	27679694	107326822	996	73654											
PAX6	5080	broad.mit.edu	37	chr11	31812317	31812317	+	Frame_Shift_Del	DEL	G	-	-																															tcatgtgtgtctgcatatgtGggggggtgtaggtatcataa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:31812317delG	uc001mtd.3	-	11	2014	c.1124delC	c.(1123-1125)CCAfs	p.P375fs	PAX6_uc001mte.3_Frame_Shift_Del_p.P375fs|PAX6_uc001mtg.3_Frame_Shift_Del_p.P389fs|PAX6_uc001mtf.3_Frame_Shift_Del_p.P375fs|PAX6_uc001mth.3_Frame_Shift_Del_p.P375fs|PAX6_uc009yjr.2_Frame_Shift_Del_p.P375fs	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	375	Pro/Ser/Thr-rich.		P -> Q (in AN; reduced DNA binding ability).		blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					CTGCATATGTGGGGGGGTGTA	0.587									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				41	94	---	---	---	---						.	-	31812317	-	-	31812317	7	5	134	1	0	1	0	1	0	0	0	0	11502	1348	47	0	152	0	PAX6	11	31812317	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	4132623	31812317	103194199	997	73655											
CAT	847	broad.mit.edu	37	chr11	34470818	34470818	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tacagtagggccccgtgggcCccttcttgttcaggatgtgg	5	11	14	11	1	2	0	1	0	1	0	2	1	2	1	4	4	1	2	4	4	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:34470818C>A	uc001mvm.2	+	2	229	c.146C>A	c.(145-147)CCC>CAC	p.P49H	CAT_uc009ykc.1_RNA	NM_001752	NP_001743	P04040	CATA_HUMAN	catalase	49					hydrogen peroxide catabolic process|negative regulation of apoptosis|positive regulation of cell division|protein tetramerization|purine base metabolic process|purine nucleotide catabolic process|UV protection	peroxisomal matrix|peroxisomal membrane	catalase activity|heme binding|NADP binding|protein homodimerization activity			ovary(2)|pancreas(1)	3		Lung NSC(402;2.76e-08)|Acute lymphoblastic leukemia(5;0.00143)|all_hematologic(20;0.0116)|Melanoma(852;0.027)		BRCA - Breast invasive adenocarcinoma(625;0.000995)	Fomepizole(DB01213)	CCCCGTGGGCCCCTTCTTGTT	0.468													113	142					1.41717e-37	1.67628e-37	0.01441	1	0		A	34470818	A	A	34470818	3	1	134	1	0	0	0	0	1	0	0	0	2689	623	22	5	152	5	CAT	11	34470818	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2658501	34470818	100535698	998	73656											
RAG2	5897	broad.mit.edu	37	chr11	36615184	36615184	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccaggaaaacacagggcaGgcagtcagctacactattcc	14	5	9	13	0	1	0	1	0	0	0	2	1	2	1	2	3	3	3	2	3	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:36615184G>T	uc001mwv.3	-	2	723	c.535C>A	c.(535-537)CTG>ATG	p.L179M	C11orf74_uc010rfd.1_5'Flank|C11orf74_uc001mww.1_5'Flank|C11orf74_uc001mwx.1_5'Flank|C11orf74_uc001mwy.1_5'Flank|C11orf74_uc001mwz.1_5'Flank|C11orf74_uc010rfe.1_5'Flank	NM_000536	NP_000527	P55895	RAG2_HUMAN	recombination activating gene 2	179					chromatin modification|pre-B cell allelic exclusion|somatic diversification of immunoglobulins|T cell differentiation in thymus|V(D)J recombination	nucleus	chromatin binding|DNA binding|endonuclease activity|methylated histone residue binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|zinc ion binding			skin(3)|ovary(1)|pancreas(1)	5	all_lung(20;0.226)	all_hematologic(20;0.00756)				ACACAGGGCAGGCAGTCAGCT	0.453									Familial_Hemophagocytic_Lymphohistiocytosis				106	166					1.00528e-58	1.20538e-58	0.01441	1	0		T	36615184	T	T	36615184	3	4	134	1	0	0	0	0	1	0	0	0	13030	991	35	5	1052	5	RAG2	11	36615184	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2144366	36615184	98391332	999	73657											
CREB3L1	90993	broad.mit.edu	37	chr11	46338915	46338915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctctctttgctaccaggtgGcagccttgtgctttgttctg	3	17	10	11	0	3	0	0	0	3	0	4	0	3	0	2	2	4	4	2	2	1	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:46338915G>A	uc001ncf.2	+	10	1570	c.1135G>A	c.(1135-1137)GCA>ACA	p.A379T	CREB3L1_uc001ncg.2_Missense_Mutation_p.A13T	NM_052854	NP_443086	Q96BA8	CR3L1_HUMAN	cAMP responsive element binding protein 3-like	379	Helical; Signal-anchor for type II membrane protein; (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		FUS/CREB3L1(6)	soft_tissue(6)|ovary(2)	8				GBM - Glioblastoma multiforme(35;0.0285)		CTACCAGGTGGCAGCCTTGTG	0.617			T	FUS	myxofibrosarcoma								68	97					0	0	0.01441	0	0		A	46338915	A	A	46338915	3	1	134	1	0	0	0	0	1	0	0	0	3859	1203	42	2	1173	2	CREB3L1	11	46338915	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	9723731	46338915	88667601	1000	73658											
LRP4	4038	broad.mit.edu	37	chr11	46917831	46917831	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccgttgcacagcttcctctgCccaatgcagcgcccattcca	7	9	7	18	2	1	0	0	0	1	0	3	0	3	0	5	0	5	4	5	0	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:46917831C>A	uc001ndn.3	-	9	1124	c.978G>T	c.(976-978)GGG>GGT	p.G326G		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	326	Extracellular (Potential).|LDL-receptor class A 8.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		GCTTCCTCTGCCCAATGCAGC	0.607													8	180					3.09899e-07	3.41278e-07	0.004482	1	0		A	46917831	A	A	46917831	2	1	134	1	0	0	0	0	0	0	0	1	8977	726	26	5		5	LRP4	11	46917831	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	578916	46917831	88088685	1001	73659											
MYBPC3	4607	broad.mit.edu	37	chr11	47353733	47353733	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaatctccagagtcaacActccctgcttgctgaacatg	10	12	6	13	0	3	2	1	1	2	1	5	2	4	2	2	0	4	2	2	0	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:47353733A>G	uc001nfa.3	-	32	3759	c.3704T>C	c.(3703-3705)GTG>GCG	p.V1235A		NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	1234	Ig-like C2-type 7.				cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		CAGAGTCAACACTCCCTGCTT	0.557													49	85					0	0	0.01441	0	0		G	47353733	G	G	47353733	3	3	134	1	0	0	0	0	1	0	0	0	10031	159	6	3	128	3	MYBPC3	11	47353733	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	435902	47353733	87652783	1002	73660											
FOLH1	2346	broad.mit.edu	37	chr11	49208219	49208219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcctctgaaaactttccCatatctggcaattacaattt	12	16	3	10	0	2	1	0	1	2	0	4	1	4	1	2	1	2	1	2	1	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:49208219C>T	uc001ngy.2	-	5	877	c.616G>A	c.(616-618)GGG>AGG	p.G206R	FOLH1_uc001ngz.2_Missense_Mutation_p.G206R|FOLH1_uc009yly.2_Missense_Mutation_p.G191R|FOLH1_uc009ylz.2_Missense_Mutation_p.G191R|FOLH1_uc009yma.2_5'UTR	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	206	Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	AAAACTTTCCCATATCTGGCA	0.338													16	116					0	0	0.008871	0	0		T	49208219	T	T	49208219	3	4	134	1	0	0	0	0	1	0	0	0	5993	594	21	4	1696	4	FOLH1	11	49208219	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1854486	49208219	85798297	1003	73661											
OR4S2	219431	broad.mit.edu	37	chr11	55418630	55418630	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagatgattgttgacctgtTagcaaaggacaaaaccatct	15	10	8	8	0	1	3	0	2	1	1	1	4	1	4	2	1	2	3	2	1	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:55418630T>C	uc001nhs.1	+	1	251	c.251T>C	c.(250-252)TTA>TCA	p.L84S		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	84	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				GTTGACCTGTTAGCAAAGGAC	0.418													169	267					0	0	0.01441	0	0		C	55418630	C	C	55418630	3	2	134	1	0	0	0	0	1	0	0	0	11102	1764	61	3	253	3	OR4S2	11	55418630	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	6210411	55418630	79587886	1004	73662											
OR5M9	390162	broad.mit.edu	37	chr11	56230509	56230509	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaagcagagggttgcagccGgccatgtacctgtcaaaggc	11	7	13	10	1	1	1	1	0	0	1	1	1	1	1	3	3	4	4	3	3	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:56230509G>A	uc010rjj.1	-	1	369	c.369C>T	c.(367-369)GCC>GCT	p.A123A		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	123	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					GGTTGCAGCCGGCCATGTACC	0.483													48	89					0	0	0.01441	0	0		A	56230509	A	A	56230509	2	1	134	1	0	0	0	0	0	0	0	1	11196	1103	39	1		1	OR5M9	11	56230509	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	811879	56230509	78776007	1005	73663											
OR5M3	219482	broad.mit.edu	37	chr11	56237709	56237709	+	Frame_Shift_Del	DEL	T	-	-																															acaaccagcataagtaattgTttttttatctgataacaggt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:56237709delT	uc010rjk.1	-	1	265	c.265delA	c.(265-267)ACAfs	p.T89fs		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TAAGTAATTGTTTTTTTATCT	0.363													65	149	---	---	---	---						.	-	56237709	-	-	56237709	7	5	134	1	0	1	0	1	0	0	0	0	11194	1725	60	0	660	0	OR5M3	11	56237709	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	7200	56237709	78768807	1006	73664											
APLNR	187	broad.mit.edu	37	chr11	57003943	57003943	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagtccatgtagcactgcAccttagtggtgttctccaag	9	12	10	10	0	1	0	0	0	1	0	3	0	2	0	3	1	2	5	3	1	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:57003943A>G	uc001njo.2	-	1	985	c.536T>C	c.(535-537)GTG>GCG	p.V179A	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	179	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						GTAGCACTGCACCTTAGTGGT	0.637													3	70					0	0	0.004672	0	0		G	57003943	G	G	57003943	3	3	134	1	0	0	0	0	1	0	0	0	777	159	6	3	610	3	APLNR	11	57003943	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	766234	57003943	78002573	1007	73665											
SMTNL1	219537	broad.mit.edu	37	chr11	57310315	57310316	+	Frame_Shift_Ins	INS	-	G	G																															ggcatgtcagcagaactccaINSgggggaagcaaatggattag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:57310315_57310316insG	uc009ymh.1	+	2	254_255	c.254_255insG	c.(253-255)CAGfs	p.Q85fs		NM_001105565	NP_001099035	E9PPJ3	E9PPJ3_HUMAN	smoothelin-like 1	67										ovary(1)	1						GCAGAACTCCAGGGGGAAGCAA	0.535													13	26	---	---	---	---						.	G	57310316	G	G	57310315	7	5	134	1	0	1	1	0	0	0	0	0	14840	188	7	0	260	0	SMTNL1	11	57310315	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	306372	57310315	77696201	1008	73666											
OR10Q1	219960	broad.mit.edu	37	chr11	57995687	57995687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatgaacacgtaggagaCgcagatgagcaggaagggga	14	4	18	5	2	0	5	0	3	0	2	0	8	0	7	0	5	2	3	0	5	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:57995687C>T	uc010rkd.1	-	1	661	c.661G>A	c.(661-663)GTC>ATC	p.V221I		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	221	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				ACGTAGGAGACGCAGATGAGC	0.642													31	56					0	0	0.007291	0	0		T	57995687	T	T	57995687	3	4	134	1	0	0	0	0	1	0	0	0	10935	536	19	1	302	1	OR10Q1	11	57995687	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	685372	57995687	77010829	1009	73667											
OR5B3	441608	broad.mit.edu	37	chr11	58170465	58170466	+	Frame_Shift_Del	DEL	CA	-	-																															ggagcctatggccagacgagCacacacagttgttgtcatgg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:58170465_58170466delCA	uc010rkf.1	-	1	417_418	c.417_418delTG	c.(415-420)TGTGCTfs	p.C139fs		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	139_140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GCCAGACGAGCACACACAGTTG	0.495													51	107	---	---	---	---						.	-	58170466	-	-	58170465	7	5	134	1	0	1	0	1	0	0	0	0	11171	710	25	0	528	0	OR5B3	11	58170465	Frame_Shift_Del	DEL	CA	TCGA-CG-4442-01A-01D-1158-08	174778	58170465	76836051	1010	73668											
CNTF	1270	broad.mit.edu	37	chr11	58391580	58391580	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtggcaagcactgatcAgtggagtgagctgaccgagg	10	6	16	9	1	1	3	1	3	0	0	1	5	1	4	2	3	2	3	2	3	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:58391580A>G	uc001nna.3	+	2	268	c.188A>G	c.(187-189)CAG>CGG	p.Q63R	ZFP91-CNTF_uc010rkm.1_RNA	NM_000614	NP_000605	P26441	CNTF_HUMAN	ciliary neurotrophic factor	63					ciliary neurotrophic factor-mediated signaling pathway|growth|negative regulation of neuron apoptosis|positive regulation of tyrosine phosphorylation of Stat3 protein		ciliary neurotrophic factor receptor binding|growth factor activity|interleukin-6 receptor binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				AGCACTGATCAGTGGAGTGAG	0.537													35	60					0	0	0.003271	0	0		G	58391580	G	G	58391580	3	3	134	1	0	0	0	0	1	0	0	0	3640	188	7	3	194	3	CNTF	11	58391580	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	221115	58391580	76614936	1011	73669											
CD6	923	broad.mit.edu	37	chr11	60777101	60777101	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcgaggggcaggtggaggTacacttccgaggggtctgga	7	7	19	8	2	1	0	0	0	1	0	2	4	2	2	1	8	2	2	1	8	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:60777101T>A	uc001nqq.2	+	5	1062	c.839T>A	c.(838-840)GTA>GAA	p.V280E	CD6_uc009yni.2_Intron|CD6_uc009ynj.2_Intron|CD6_uc001nqp.2_Missense_Mutation_p.V280E|CD6_uc001nqr.2_Missense_Mutation_p.V280E|CD6_uc001nqs.2_RNA|CD6_uc001nqt.2_Missense_Mutation_p.V280E	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule precursor	280	SRCR 3.|Extracellular (Potential).				cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1						CAGGTGGAGGTACACTTCCGA	0.627													15	33					0	0	0.004007	0	0		A	60777101	A	A	60777101	3	1	134	1	0	0	0	0	1	0	0	0	3031	1638	57	5	857	5	CD6	11	60777101	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2385521	60777101	74229415	1012	73670											
CD5	921	broad.mit.edu	37	chr11	60885876	60885876	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagctcaatcatctgctaCggacaactgggctccttctc	9	10	8	14	1	4	1	2	0	2	1	6	2	5	2	1	2	4	3	1	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:60885876C>T	uc009ynk.2	+	3	427	c.324C>T	c.(322-324)TAC>TAT	p.Y108Y		NM_014207	NP_055022	P06127	CD5_HUMAN	CD5 molecule precursor	108	Extracellular (Potential).|SRCR 1.				cell proliferation|cell recognition	integral to plasma membrane	scavenger receptor activity			ovary(1)	1		all_lung(304;5.94e-05)|Lung NSC(402;7.26e-05)		BRCA - Breast invasive adenocarcinoma(625;0.000946)|Lung(977;0.0086)|LUSC - Lung squamous cell carcinoma(625;0.0528)		TCATCTGCTACGGACAACTGG	0.562													91	178					0	0	0.01441	0	0		T	60885876	T	T	60885876	2	4	134	1	0	0	0	0	0	0	0	1	3024	547	19	1		1	CD5	11	60885876	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	108775	60885876	74120640	1013	73671											
DAGLA	747	broad.mit.edu	37	chr11	61490373	61490373	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacgccatcgtgggcatcgTctggctcactcagtactaca	8	10	9	14	3	3	0	2	0	1	0	5	0	3	0	1	2	3	3	1	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:61490373T>C	uc001nsa.2	+	4	461	c.350T>C	c.(349-351)GTC>GCC	p.V117A		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	117	Helical; (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		GTGGGCATCGTCTGGCTCACT	0.612													85	132					0	0	0.01441	0	0		C	61490373	C	C	61490373	3	2	134	1	0	0	0	0	1	0	0	0	4229	1667	58	3	360	3	DAGLA	11	61490373	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	604497	61490373	73516143	1014	73672											
FADS2	9415	broad.mit.edu	37	chr11	61632650	61632650	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccaccatgccccggcacaActtacacaagatcgccccgc	10	4	6	21	3	0	1	0	0	0	1	1	1	0	1	7	1	3	1	7	1	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:61632650A>G	uc001nsl.1	+	11	1334	c.1184A>G	c.(1183-1185)AAC>AGC	p.N395S	FADS2_uc001nsj.2_Missense_Mutation_p.N373S|FADS2_uc010rlo.1_Missense_Mutation_p.N364S	NM_004265	NP_004256	O95864	FADS2_HUMAN	fatty acid desaturase 2	395	Cytoplasmic (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	heme binding			ovary(1)|pancreas(1)	2					Alpha-Linolenic Acid(DB00132)	CCCCGGCACAACTTACACAAG	0.602													5	104					0	0	0.000602	0	0		G	61632650	G	G	61632650	3	3	134	1	0	0	0	0	1	0	0	0	5377	43	2	3	1226	3	FADS2	11	61632650	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	142277	61632650	73373866	1015	73673											
INCENP	3619	broad.mit.edu	37	chr11	61908215	61908215	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccgtgagtgagctggaCgaggagcagcacctggagga	10	4	18	9	2	0	2	0	2	0	0	0	7	0	6	2	5	3	3	2	5	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:61908215C>T	uc001nsw.1	+	9	1585	c.1383C>T	c.(1381-1383)GAC>GAT	p.D461D	INCENP_uc009ynw.1_Silent_p.D461D|INCENP_uc001nsx.1_Silent_p.D461D	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	461					chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						GTGAGCTGGACGAGGAGCAGC	0.687													14	14					0	0	0.00245	0	0		T	61908215	T	T	61908215	2	4	134	1	0	0	0	0	0	0	0	1	7749	535	19	1		1	INCENP	11	61908215	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	275565	61908215	73098301	1016	73674											
AHNAK	79026	broad.mit.edu	37	chr11	62301479	62301479	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggtctccttccactccaTcttccgacttcagccgtggc	5	11	8	17	3	3	0	1	0	2	0	7	2	6	0	5	2	1	0	5	2	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:62301479T>C	uc001ntl.2	-	5	710	c.410A>G	c.(409-411)GAT>GGT	p.D137G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	137					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TTCCACTCCATCTTCCGACTT	0.602													38	85					0	0	0.013114	0	0		C	62301479	C	C	62301479	3	2	134	1	0	0	0	0	1	0	0	0	414	1435	50	3	17382	3	AHNAK	11	62301479	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	393264	62301479	72705037	1017	73675											
RARRES3	5920	broad.mit.edu	37	chr11	63312165	63312165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagaggtgaaacgggagcGcctggaagatgtggtgggag	10	6	20	5	2	0	3	0	1	0	2	0	6	0	6	1	5	3	1	1	5	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:63312165G>A	uc001nxf.3	+	3	259	c.191G>A	c.(190-192)CGC>CAC	p.R64H		NM_004585	NP_004576	Q9UL19	TIG3_HUMAN	retinoic acid receptor responder (tazarotene	64					lipid catabolic process|negative regulation of cell proliferation		hydrolase activity			ovary(1)	1						AAACGGGAGCGCCTGGAAGAT	0.582													86	133					0	0	0.01441	0	0		A	63312165	A	A	63312165	3	1	134	1	0	0	0	0	1	0	0	0	13082	1087	38	1	201	1	RARRES3	11	63312165	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1010686	63312165	71694351	1018	73676											
GPR137	56834	broad.mit.edu	37	chr11	64055217	64055217	+	Frame_Shift_Del	DEL	G	-	-																															gctgtccgaggggcctttgtGggggcctcgctgctctttct																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:64055217delG	uc001nzg.1	+	4	740	c.432delG	c.(430-432)GTGfs	p.V144fs	GPR137_uc009ypj.1_Frame_Shift_Del_p.V150fs|GPR137_uc010rni.1_Frame_Shift_Del_p.V202fs|GPR137_uc001nze.1_Frame_Shift_Del_p.V144fs|GPR137_uc001nzf.2_Frame_Shift_Del_p.V144fs|GPR137_uc001nzh.1_Frame_Shift_Del_p.V144fs|GPR137_uc001nzi.2_Frame_Shift_Del_p.V144fs|GPR137_uc010rnj.1_Frame_Shift_Del_p.V144fs	NM_020155	NP_064540	Q96N19	G137A_HUMAN	G protein-coupled receptor 137	144	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						GGGCCTTTGTGGGGGCCTCGC	0.677													42	73	---	---	---	---						.	-	64055217	-	-	64055217	7	5	134	1	0	1	0	1	0	0	0	0	6660	1335	47	0	624	0	GPR137	11	64055217	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	743052	64055217	70951299	1019	73677											
PYGM	5837	broad.mit.edu	37	chr11	64527327	64527327	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccggccaggccacgcacaCtgatttgctttcttttctct	5	13	8	15	3	2	1	0	1	2	0	3	1	2	1	3	2	1	2	3	2	0	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:64527327C>T	uc001oax.3	-	1	861	c.44G>A	c.(43-45)AGT>AAT	p.S15N	PYGM_uc001oay.3_Missense_Mutation_p.S15N	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	15					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	GCCACGCACACTGATTTGCTT	0.597													10	255					0	0	0.008291	0	0		T	64527327	T	T	64527327	3	4	134	1	0	0	0	0	1	0	0	0	12887	565	20	4	2564	4	PYGM	11	64527327	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	472110	64527327	70479189	1020	73678											
CAPN1	823	broad.mit.edu	37	chr11	64972271	64972271	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccttatgcagaagcaccGtcgccgcgagcgccgcttcg	6	6	12	17	8	0	1	0	0	0	1	2	2	0	1	4	0	3	3	4	0	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:64972271G>A	uc009yqd.1	+	11	1394	c.1283G>A	c.(1282-1284)CGT>CAT	p.R428H	CAPN1_uc001odf.1_Missense_Mutation_p.R428H|CAPN1_uc001odg.1_Missense_Mutation_p.R428H|CAPN1_uc010roa.1_Missense_Mutation_p.R169H	NM_005186	NP_005177	P07384	CAN1_HUMAN	calpain 1, large subunit	428	Domain III.				positive regulation of cell proliferation|proteolysis	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Lung NSC(402;0.094)|Melanoma(852;0.16)		Lung(977;0.00168)|LUSC - Lung squamous cell carcinoma(976;0.00813)		CAGAAGCACCGTCGCCGCGAG	0.637											OREG0021073	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	47					0	0	0.010818	0	0		A	64972271	A	A	64972271	3	1	134	1	0	0	0	0	1	0	0	0	2625	1145	40	1	1321	1	CAPN1	11	64972271	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	444944	64972271	70034245	1021	73679											
FRMD8	83786	broad.mit.edu	37	chr11	65172535	65172535	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaccatcgactacgtggaGgacggtgagcagcccttctg	8	8	12	13	3	1	1	0	1	1	0	3	4	2	3	3	3	3	1	3	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:65172535G>T	uc001odu.3	+	10	1464	c.1272G>T	c.(1270-1272)GAG>GAT	p.E424D	FRMD8_uc009yqj.2_Missense_Mutation_p.E368D|FRMD8_uc010rof.1_Missense_Mutation_p.E390D	NM_031904	NP_114110	Q9BZ67	FRMD8_HUMAN	FERM domain containing 8	424						cytoskeleton	binding			lung(1)|pancreas(1)	2						ACTACGTGGAGGACGGTGAGC	0.632													21	39					1.17739e-12	1.32268e-12	0.005443	1	0		T	65172535	T	T	65172535	3	4	134	1	0	0	0	0	1	0	0	0	6070	991	35	5	1306	5	FRMD8	11	65172535	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	200264	65172535	69833981	1022	73680											
SCYL1	57410	broad.mit.edu	37	chr11	65298114	65298114	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagatcaaagagccagcCgagaagcaaaaattcttcca	16	5	7	13	1	2	3	1	0	1	3	3	4	3	3	5	0	3	1	5	0	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:65298114C>T	uc001oea.1	+	7	941	c.864C>T	c.(862-864)GCC>GCT	p.A288A	SCYL1_uc009yqk.2_Silent_p.A288A|SCYL1_uc001oeb.1_Silent_p.A288A|SCYL1_uc001oec.1_Silent_p.A288A|SCYL1_uc001oed.1_Silent_p.A145A|SCYL1_uc001oee.1_5'UTR	NM_020680	NP_065731	Q96KG9	NTKL_HUMAN	SCY1-like 1 isoform A	288	Protein kinase.				regulation of transcription, DNA-dependent|retrograde vesicle-mediated transport, Golgi to ER|transcription, DNA-dependent	cis-Golgi network|COPI vesicle coat|ER-Golgi intermediate compartment|microtubule organizing center|nucleus	ATP binding|DNA binding|protein tyrosine kinase activity			skin(1)	1						AAGAGCCAGCCGAGAAGCAAA	0.582													31	46					0	0	0.009535	0	0		T	65298114	T	T	65298114	2	4	134	1	0	0	0	0	0	0	0	1	13972	639	23	1		1	SCYL1	11	65298114	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	125579	65298114	69708402	1023	73681											
SART1	9092	broad.mit.edu	37	chr11	65729303	65729303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggaggcggccgggacgacgGcggcggccggcaccgggggt	5	1	23	12	8	0	0	0	0	0	0	0	3	0	2	3	10	0	1	3	10	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:65729303G>A	uc001ogl.2	+	1	144	c.52G>A	c.(52-54)GCG>ACG	p.A18T	SART1_uc009yqy.1_Missense_Mutation_p.A18T|SART1_uc010rot.1_5'UTR	NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	18					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1						cgggacgacggcggcggccgg	0.264													4	14					0	0	0.001168	0	0		A	65729303	A	A	65729303	3	1	134	1	0	0	0	0	1	0	0	0	13871	1203	42	2	54	2	SART1	11	65729303	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	431189	65729303	69277213	1024	73682											
SART1	9092	broad.mit.edu	37	chr11	65746378	65746378	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcggcagcggcaagagcAtgaacgcgtgagtggctcga	10	5	16	10	5	1	3	1	2	0	1	2	4	1	3	0	3	4	4	0	3	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:65746378A>G	uc001ogl.2	+	19	2469	c.2377A>G	c.(2377-2379)ATG>GTG	p.M793V		NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	793					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1						CGGCAAGAGCATGAACGCGTG	0.542													5	185					0	0	0.001168	0	0		G	65746378	G	G	65746378	3	3	134	1	0	0	0	0	1	0	0	0	13871	217	8	3	2451	3	SART1	11	65746378	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	17075	65746378	69260138	1025	73683											
CATSPER1	117144	broad.mit.edu	37	chr11	65788382	65788382	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgttctggaagcgcttgggGtcagatttgcggaacagtgc	8	11	15	7	2	2	1	1	0	1	1	2	3	2	3	0	4	4	2	0	4	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:65788382G>A	uc001ogt.2	-	6	1965	c.1827C>T	c.(1825-1827)GAC>GAT	p.D609D		NM_053054	NP_444282	Q8NEC5	CTSR1_HUMAN	sperm-associated cation channel 1	609	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	protein binding			ovary(2)	2						AGCGCTTGGGGTCAGATTTGC	0.602													35	65					0	0	0.00623	0	0		A	65788382	A	A	65788382	2	1	134	1	0	0	0	0	0	0	0	1	2690	1252	44	4		4	CATSPER1	11	65788382	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	42004	65788382	69218134	1026	73684											
CD248	57124	broad.mit.edu	37	chr11	66084371	66084371	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccgccaggcctccaggaagGtgcggcgccgtgggaagaga	8	3	17	13	4	0	1	0	0	0	1	1	4	1	3	5	5	1	0	5	5	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:66084371G>T	uc001ohm.1	-	1	145	c.128C>A	c.(127-129)ACC>AAC	p.T43N		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	43	C-type lectin.|Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	CTCCAGGAAGGTGCGGCGCCG	0.766													4	5					1.23904e-05	1.35782e-05	0.000602	1	0		T	66084371	T	T	66084371	3	4	134	1	0	0	0	0	1	0	0	0	2992	1261	44	5	2149	5	CD248	11	66084371	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	295989	66084371	68922145	1027	73685											
SLC29A2	3177	broad.mit.edu	37	chr11	66136862	66136862	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtacaggaaggagttgaGgagggtgaagagcagcaggg	12	5	20	4	0	0	3	0	2	0	1	0	6	0	6	0	6	3	4	0	6	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:66136862G>T	uc001oht.2	-	3	482	c.253C>A	c.(253-255)CTC>ATC	p.L85I	SLC29A2_uc001ohs.2_5'UTR|SLC29A2_uc010rpb.1_RNA|SLC29A2_uc009yrf.2_5'UTR|SLC29A2_uc001ohu.2_Missense_Mutation_p.L85I|SLC29A2_uc001ohv.2_Missense_Mutation_p.L85I|uc001ohw.1_RNA	NM_001532	NP_001523	Q14542	S29A2_HUMAN	solute carrier family 29 (nucleoside	85	Helical; (Potential).				cell proliferation|nucleobase, nucleoside and nucleotide metabolic process	basolateral plasma membrane|integral to plasma membrane|nuclear membrane|nucleolus	nucleoside transmembrane transporter activity			ovary(1)	1						AAGGAGTTGAGGAGGGTGAAG	0.647													72	101					2.43199e-30	2.8615e-30	0.01441	1	0		T	66136862	T	T	66136862	3	4	134	1	0	0	0	0	1	0	0	0	14560	1000	35	5	1157	5	SLC29A2	11	66136862	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	52491	66136862	68869654	1028	73686											
SPTBN2	6712	broad.mit.edu	37	chr11	66472378	66472378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatctcctcctccagggccCgatgctgcctggctagagcc	6	8	11	16	1	1	1	0	0	1	1	4	3	3	1	6	2	3	2	6	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:66472378C>T	uc001ojd.2	-	14	2441	c.2369G>A	c.(2368-2370)CGG>CAG	p.R790Q		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	790	Spectrin 5.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CTCCAGGGCCCGATGCTGCCT	0.677													42	82					0	0	0.013114	0	0		T	66472378	T	T	66472378	3	4	134	1	0	0	0	0	1	0	0	0	15145	652	23	1	4899	1	SPTBN2	11	66472378	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	335516	66472378	68534138	1029	73687											
C11orf80	79703	broad.mit.edu	37	chr11	66581352	66581352	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacatatttctatatggacCtttgggtctgcctctgatat	9	16	7	9	0	3	1	0	1	3	0	3	2	3	2	2	2	1	0	2	2	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:66581352C>A	uc001ojf.2	+	10	1062	c.1055C>A	c.(1054-1056)CCT>CAT	p.P352H	C11orf80_uc001ojg.2_Missense_Mutation_p.P119H|C11orf80_uc001ojh.2_Missense_Mutation_p.P120H|C11orf80_uc001oji.2_Missense_Mutation_p.P120H|C11orf80_uc010rpl.1_5'UTR|C11orf80_uc001ojj.2_5'UTR	NM_024650	NP_078926	Q8N6T0	CK080_HUMAN	hypothetical protein LOC79703	197											0						CTATATGGACCTTTGGGTCTG	0.358													12	46					7.03913e-09	7.78172e-09	0.013537	1	0		A	66581352	A	A	66581352	3	1	134	1	0	0	0	0	1	0	0	0	1667	681	24	5	1093	5	C11orf80	11	66581352	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	108974	66581352	68425164	1030	73688											
RHOD	29984	broad.mit.edu	37	chr11	66833381	66833381	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcagagctacacccccacGgtgtttgagcggtacatggt	8	9	11	13	2	1	2	1	1	0	1	1	2	1	2	3	3	4	3	3	3	2	3	rs147100013		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:66833381G>A	uc001ojv.2	+	2	232	c.147G>A	c.(145-147)ACG>ACA	p.T49T		NM_014578	NP_055393	O00212	RHOD_HUMAN	ras homolog D precursor	49	Effector region (Potential).				regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0						ACACCCCCACGGTGTTTGAGC	0.627													21	38					0	0	0.00278	0	0		A	66833381	A	A	66833381	2	1	134	1	0	0	0	0	0	0	0	1	13362	1103	39	1		1	RHOD	11	66833381	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	252029	66833381	68173135	1031	73689											
ADRBK1	156	broad.mit.edu	37	chr11	67046979	67046979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acatcatgaaggagctgctgGcctgctcgcatgtgagtgtc	8	10	13	10	1	1	2	1	2	0	0	3	3	1	3	1	2	3	4	1	2	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:67046979G>A	uc009yrn.1	+	4	621	c.355G>A	c.(355-357)GCC>ACC	p.A119T	ADRBK1_uc009yrm.1_Missense_Mutation_p.A119T	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	119	RGS.|N-terminal.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	GGAGCTGCTGGCCTGCTCGCA	0.592													19	47					0	0	0.007413	0	0		A	67046979	A	A	67046979	3	1	134	1	0	0	0	0	1	0	0	0	343	1203	42	2	369	2	ADRBK1	11	67046979	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	213598	67046979	67959537	1032	73690											
TCIRG1	10312	broad.mit.edu	37	chr11	67816415	67816415	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaagatgtccgtcatcctgGgcgtcgtgcacatggccttt	6	12	12	11	3	1	2	1	1	0	1	4	2	3	2	3	2	1	1	3	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:67816415G>A	uc001one.2	+	14	1732	c.1624G>A	c.(1624-1626)GGC>AGC	p.G542S	TCIRG1_uc001ong.2_Missense_Mutation_p.G326S|TCIRG1_uc001onh.2_Missense_Mutation_p.G244S|TCIRG1_uc001oni.2_Missense_Mutation_p.G46S|TCIRG1_uc009ysd.2_5'Flank	NM_006019	NP_006010	Q13488	VPP3_HUMAN	T-cell, immune regulator 1 isoform a	542	Helical; (Potential).				ATP hydrolysis coupled proton transport|cellular defense response|cellular iron ion homeostasis|insulin receptor signaling pathway|positive regulation of cell proliferation|transferrin transport	apical plasma membrane|endosome membrane|integral to plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity			ovary(1)	1						CGTCATCCTGGGCGTCGTGCA	0.627													76	175					0	0	0.01441	0	0		A	67816415	A	A	67816415	3	1	134	1	0	0	0	0	1	0	0	0	15728	1232	43	4	1674	4	TCIRG1	11	67816415	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	769436	67816415	67190101	1033	73691											
CPT1A	1374	broad.mit.edu	37	chr11	68548161	68548161	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggagtgttcagcgttgaGgcccatcttcccgtttttga	6	13	11	11	2	2	2	1	2	1	0	3	3	3	3	3	2	1	3	3	2	0	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:68548161G>T	uc001oog.3	-	12	1575	c.1405C>A	c.(1405-1407)CTC>ATC	p.L469I	CPT1A_uc001oof.3_Missense_Mutation_p.L469I|CPT1A_uc009ysj.2_Intron	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	469	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	TCAGCGTTGAGGCCCATCTTC	0.463													33	74					1.66425e-11	1.85717e-11	0.004878	1	0		T	68548161	T	T	68548161	3	4	134	1	0	0	0	0	1	0	0	0	3834	1000	35	5	988	5	CPT1A	11	68548161	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	731746	68548161	66458355	1034	73692											
ANO1	55107	broad.mit.edu	37	chr11	69957855	69957855	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtgtgtacgcggctgcatAcccactgcacgatgtaagta	9	10	12	10	3	0	0	0	0	0	0	0	1	0	0	1	2	4	6	1	2	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:69957855A>G	uc001opj.2	+	7	1147	c.842A>G	c.(841-843)TAC>TGC	p.Y281C	ANO1_uc001opk.1_Missense_Mutation_p.Y253C|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.Y16C	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	281	Cytoplasmic (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						GCGGCTGCATACCCACTGCAC	0.562													5	216					0	0	0.001168	0	0		G	69957855	G	G	69957855	3	3	134	1	0	0	0	0	1	0	0	0	695	391	14	3	868	3	ANO1	11	69957855	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1409694	69957855	65048661	1035	73693											
ANO1	55107	broad.mit.edu	37	chr11	70028653	70028653	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttcatcccgcgcctggtgTacctctacatgtacagtaag	9	11	8	13	2	2	0	1	0	1	0	3	0	3	0	3	1	3	3	3	1	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:70028653T>C	uc001opj.2	+	24	2754	c.2449T>C	c.(2449-2451)TAC>CAC	p.Y817H	ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.Y526H|ANO1_uc010rql.1_5'UTR	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	817	Extracellular (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						GCGCCTGGTGTACCTCTACAT	0.612													19	36					0	0	0.008871	0	0		C	70028653	C	C	70028653	3	2	134	1	0	0	0	0	1	0	0	0	695	1638	57	3	2543	3	ANO1	11	70028653	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	70798	70028653	64977863	1036	73694											
NADSYN1	55191	broad.mit.edu	37	chr11	71192975	71192975	+	Frame_Shift_Del	DEL	T	-	-																															ttggtccattccaggcagggTttttgctgcccttgagtggc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:71192975delT	uc001oqn.2	+	13	1180	c.1054delT	c.(1054-1056)TTTfs	p.F352fs	NADSYN1_uc001oqo.2_Frame_Shift_Del_p.F92fs|NADSYN1_uc001oqp.2_5'UTR	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	352	Ligase (By similarity).				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CCAGGCAGGGTTTTTGCTGCC	0.612													15	18	---	---	---	---						.	-	71192975	-	-	71192975	7	5	134	1	0	1	0	1	0	0	0	0	10156	1725	60	0	1104	0	NADSYN1	11	71192975	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	1164322	71192975	63813541	1037	73695											
KRTAP5-8	57830	broad.mit.edu	37	chr11	71249264	71249264	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccagctgtggctcctgtgggGgctccaaggggggccgtggc	3	7	19	12	1	0	0	0	0	0	0	2	0	2	0	4	7	1	3	4	7	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:71249264G>T	uc001oqr.1	+	1	194	c.163G>T	c.(163-165)GGC>TGC	p.G55C		NM_021046	NP_066384	O75690	KRA58_HUMAN	keratin associated protein 5-8	55	9 X 4 AA repeats of C-C-X-P.					extracellular region|keratin filament	structural constituent of epidermis				0						CTCCTGTGGGGGCTCCAAGGG	0.667													154	257					3.3621e-94	4.04578e-94	0.01441	1	0		T	71249264	T	T	71249264	3	4	134	1	0	0	0	0	1	0	0	0	8583	1232	43	5	165	5	KRTAP5-8	11	71249264	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	56289	71249264	63757252	1038	73696											
FOLR2	2350	broad.mit.edu	37	chr11	71932561	71932561	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgccgcacctttgagtccTacttccccactccagctgcc	5	11	6	19	1	1	1	0	1	1	0	4	1	4	1	7	0	4	2	7	0	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:71932561T>G	uc009ytd.2	+	5	692	c.523T>G	c.(523-525)TAC>GAC	p.Y175D	FOLR2_uc009yte.2_Missense_Mutation_p.Y175D|FOLR2_uc001ose.3_Missense_Mutation_p.Y175D|FOLR2_uc009ytf.2_Missense_Mutation_p.Y175D	NM_001113534	NP_001107006	P14207	FOLR2_HUMAN	folate receptor 2 precursor	175					folic acid transport	anchored to membrane|extracellular region|membrane fraction|plasma membrane	folic acid binding|receptor activity			breast(2)|ovary(1)	3					Folic Acid(DB00158)	CTTTGAGTCCTACTTCCCCAC	0.592													103	202					0	0	0.01441	0	0		G	71932561	G	G	71932561	3	3	134	1	0	0	0	0	1	0	0	0	5996	1522	53	5	537	5	FOLR2	11	71932561	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	683297	71932561	63073955	1039	73697											
ARAP1	116985	broad.mit.edu	37	chr11	72424265	72424265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcccccggcccctcctctgGgacctcatcgtagtcagagt	5	8	11	17	2	3	1	2	0	1	1	5	2	4	2	6	3	0	1	6	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:72424265G>A	uc001osu.2	-	5	892	c.703C>T	c.(703-705)CCA>TCA	p.P235S	ARAP1_uc001osv.2_Missense_Mutation_p.P235S|ARAP1_uc001osr.2_5'UTR|ARAP1_uc001oss.2_5'UTR|ARAP1_uc009yth.2_5'UTR|ARAP1_uc010rre.1_5'UTR	NM_001040118	NP_001035207	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	235					actin filament reorganization involved in cell cycle|negative regulation of stress fiber assembly|positive regulation of Cdc42 GTPase activity|positive regulation of filopodium assembly|regulation of ARF GTPase activity|regulation of cell shape|regulation of cellular component movement|small GTPase mediated signal transduction	cytosol|Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|Rho GTPase activator activity|zinc ion binding			skin(1)	1						CCCTCCTCTGGGACCTCATCG	0.662													9	94					0	0	0.006214	0	0		A	72424265	A	A	72424265	3	1	134	1	0	0	0	0	1	0	0	0	838	1232	43	4	3773	4	ARAP1	11	72424265	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	491704	72424265	62582251	1040	73698											
C2CD3	26005	broad.mit.edu	37	chr11	73820094	73820094	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtacctttttctgtggagtTttctttacataaatttggaa	10	19	7	5	0	2	0	0	0	2	0	2	2	2	2	1	2	2	2	1	2	5	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:73820094T>C	uc001ouu.2	-	12	2174	c.1947A>G	c.(1945-1947)AAA>AAG	p.K649K		NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	649						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					TCTGTGGAGTTTTCTTTACAT	0.398													50	81					0	0	0.01441	0	0		C	73820094	C	C	73820094	2	2	134	1	0	0	0	0	0	0	0	1	2157	1838	64	3		3	C2CD3	11	73820094	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1395829	73820094	61186422	1041	73699											
C2CD3	26005	broad.mit.edu	37	chr11	73820180	73820180	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtactggaaacacaaatcGctgctggaacttcacctctg	11	10	8	12	1	2	0	1	0	1	0	3	2	2	2	1	2	4	3	1	2	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:73820180G>A	uc001ouu.2	-	12	2088	c.1861C>T	c.(1861-1863)CGA>TGA	p.R621*		NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	621						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					AACACAAATCGCTGCTGGAAC	0.443													44	61					0	0	0.01441	0	0		A	73820180	A	A	73820180	4	1	134	1	0	0	0	0	0	1	0	0	2157	1095	38	1	4110	1	C2CD3	11	73820180	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	86	73820180	61186336	1042	73700											
RSF1	51773	broad.mit.edu	37	chr11	77413116	77413116	+	Frame_Shift_Del	DEL	T	-	-																															tcactcagtttaatttctcgTttttttagtggtatcttggc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:77413116delT	uc001oyn.2	-	6	1278	c.1158delA	c.(1156-1158)AAAfs	p.K386fs	RSF1_uc001oym.2_Frame_Shift_Del_p.K134fs	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	386					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			TAATTTCTCGTTTTTTTAGTG	0.338													81	121	---	---	---	---						.	-	77413116	-	-	77413116	7	5	134	1	0	1	0	1	0	0	0	0	13724	1722	60	0	3211	0	RSF1	11	77413116	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	3592936	77413116	57593400	1043	73701											
INTS4	92105	broad.mit.edu	37	chr11	77667073	77667073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaacgcatcatcaactaagCgtatttcttcattagaagaa	16	11	5	9	2	4	2	3	0	1	2	4	2	4	2	0	0	3	2	0	0	7	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:77667073C>T	uc001oys.2	-	8	861	c.833G>A	c.(832-834)CGC>CAC	p.R278H	INTS4_uc001oyt.2_RNA|INTS4_uc001oyu.1_Missense_Mutation_p.R278H	NM_033547	NP_291025	Q96HW7	INT4_HUMAN	integrator complex subunit 4	278	HEAT 5.				snRNA processing	integrator complex	protein binding			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			ATCAACTAAGCGTATTTCTTC	0.373													23	35					0	0	0.003954	0	0		T	77667073	T	T	77667073	3	4	134	1	0	0	0	0	1	0	0	0	7796	768	27	1	2122	1	INTS4	11	77667073	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	253957	77667073	57339443	1044	73702											
ODZ4	26011	broad.mit.edu	37	chr11	78369281	78369281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggccttcctccccttccCgcagtctctgctgctcgcgg	2	10	10	19	3	1	0	0	0	1	0	6	0	4	0	5	2	2	4	5	2	0	2	rs148029717	by1000genomes	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:78369281C>T	uc001ozl.3	-	34	8595	c.8132G>A	c.(8131-8133)CGG>CAG	p.R2711Q	ODZ4_uc001ozk.3_Missense_Mutation_p.R936Q|ODZ4_uc009yvb.1_Intron	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2711	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CTCCCCTTCCCGCAGTCTCTG	0.667													46	62					0	0	0.01441	0	0		T	78369281	T	T	78369281	3	4	134	1	0	0	0	0	1	0	0	0	10856	652	23	1	181	1	ODZ4	11	78369281	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	702208	78369281	56637235	1045	73703											
GRM5	2915	broad.mit.edu	37	chr11	88241901	88241901	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgagtctctgaagggggaCggcggggtgagagccaccag	9	4	18	10	3	1	2	0	2	1	1	2	5	1	3	3	5	1	0	3	5	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:88241901C>T	uc001pcq.2	-	9	3698	c.3498G>A	c.(3496-3498)CCG>CCA	p.P1166P	GRM5_uc009yvm.2_Silent_p.P1134P	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	1166	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	TGAAGGGGGACGGCGGGGTGA	0.706													6	19					0	0	0.010729	0	0		T	88241901	T	T	88241901	2	4	134	1	0	0	0	0	0	0	0	1	6816	523	19	1		1	GRM5	11	88241901	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	9872620	88241901	46764615	1046	73704											
GRM5	2915	broad.mit.edu	37	chr11	88300530	88300530	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgtacattgtgaaggcgAtatacttggcctcgttgaag	9	13	12	7	3	0	2	0	2	0	0	2	3	0	2	1	2	2	2	1	2	5	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:88300530A>T	uc001pcq.2	-	7	2521	c.2321T>A	c.(2320-2322)ATC>AAC	p.I774N	GRM5_uc009yvm.2_Missense_Mutation_p.I774N	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	774	Helical; Name=6; (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	TGTGAAGGCGATATACTTGGC	0.438													121	183					0	0	0.01441	0	0		T	88300530	T	T	88300530	3	4	134	1	0	0	0	0	1	0	0	0	6816	333	12	5	1329	5	GRM5	11	88300530	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	58629	88300530	46705986	1047	73705											
FAT3	120114	broad.mit.edu	37	chr11	92534857	92534857	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacattcaccttctctgTggtggcctctgaccttggag	5	12	9	15	0	3	1	1	1	2	0	4	2	3	2	5	3	0	0	5	3	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:92534857T>C	uc001pdj.3	+	9	8695	c.8678T>C	c.(8677-8679)GTG>GCG	p.V2893A		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2893	Cadherin 26.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACCTTCTCTGTGGTGGCCTCT	0.498										TCGA Ovarian(4;0.039)			52	96					0	0	0.01441	0	0		C	92534857	C	C	92534857	3	2	134	1	0	0	0	0	1	0	0	0	5705	1696	59	3	8712	3	FAT3	11	92534857	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4234327	92534857	42471659	1048	73706											
MED17	9440	broad.mit.edu	37	chr11	93529642	93529642	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccaaaaatttgctactgAgaagcaatgtccggaggacc	14	8	9	10	1	0	1	0	1	0	1	2	4	2	3	3	2	3	2	3	2	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:93529642A>G	uc001pem.3	+	7	1354	c.1079A>G	c.(1078-1080)GAG>GGG	p.E360G		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	360					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TTTGCTACTGAGAAGCAATGT	0.358													8	324					0	0	0.00308	0	0		G	93529642	G	G	93529642	3	3	134	1	0	0	0	0	1	0	0	0	9453	304	11	3	1105	3	MED17	11	93529642	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	994785	93529642	41476874	1049	73707											
MRE11A	4361	broad.mit.edu	37	chr11	94224123	94224123	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaatattttaaatgtgtttTcatcatcactatattaagaa	15	18	3	5	0	3	1	3	0	0	1	3	1	3	1	0	0	0	1	0	0	8	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:94224123T>C	uc001peu.2	-	3	218	c.29A>G	c.(28-30)GAA>GGA	p.E10G	MRE11A_uc001pev.2_Missense_Mutation_p.E10G|MRE11A_uc009ywj.2_Missense_Mutation_p.E13G	NM_005591	NP_005582	P49959	MRE11_HUMAN	meiotic recombination 11 homolog A isoform 1	10					DNA duplex unwinding|double-strand break repair via homologous recombination|double-strand break repair via nonhomologous end joining|negative regulation of DNA endoreduplication|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|sister chromatid cohesion|telomere maintenance via telomerase	Mre11 complex|nucleoplasm	3'-5' exonuclease activity|double-stranded DNA binding|manganese ion binding|protein C-terminus binding|single-stranded DNA specific endodeoxyribonuclease activity			breast(4)|lung(1)	5		Acute lymphoblastic leukemia(157;2.37e-05)|all_hematologic(158;0.00824)				AAATGTGTTTTCATCATCACT	0.244								Homologous_recombination	Ataxia-Telangiectasia-Like_Disorder				13	29					0	0	0.013537	0	0		C	94224123	C	C	94224123	3	2	134	1	0	0	0	0	1	0	0	0	9777	1783	62	3	2169	3	MRE11A	11	94224123	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	694481	94224123	40782393	1050	73708											
SESN3	143686	broad.mit.edu	37	chr11	94910901	94910901	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgattccaaacatacagTgaacatagttaaataaagct	18	10	5	8	0	0	2	0	2	0	0	1	2	1	2	2	0	4	2	2	0	8	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:94910901T>C	uc001pfk.1	-	8	1451	c.1229A>G	c.(1228-1230)CAC>CGC	p.H410R	SESN3_uc010rug.1_Missense_Mutation_p.H271R	NM_144665	NP_653266	P58005	SESN3_HUMAN	sestrin 3	410					cell cycle arrest	nucleus					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.234)		AAACATACAGTGAACATAGTT	0.373													40	57					0	0	0.006999	0	0		C	94910901	C	C	94910901	3	2	134	1	0	0	0	0	1	0	0	0	14151	1696	59	3	261	3	SESN3	11	94910901	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	686778	94910901	40095615	1051	73709											
MMP8	4317	broad.mit.edu	37	chr11	102593239	102593239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgtcaggcactccacagcGaggctttttcatcatgtcca	9	11	8	13	1	3	0	3	0	0	0	5	1	5	0	2	2	1	2	2	2	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:102593239G>A	uc001phe.2	-	2	367	c.268C>T	c.(268-270)CGC>TGC	p.R90C	MMP8_uc010rut.1_Missense_Mutation_p.R25C|MMP8_uc010ruu.1_Missense_Mutation_p.R67C	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	90	Cysteine switch (By similarity).				collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		ACTCCACAGCGAGGCTTTTTC	0.453													92	142					0	0	0.01441	0	0		A	102593239	A	A	102593239	3	1	134	1	0	0	0	0	1	0	0	0	9686	1058	37	1	1171	1	MMP8	11	102593239	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	7682338	102593239	32413277	1052	73710											
KIAA1826	84437	broad.mit.edu	37	chr11	105881471	105881471	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcctctgttctccttctccTacagcattcacacactgtgc	6	14	5	16	0	4	0	1	0	3	0	7	0	5	0	3	0	3	2	3	0	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:105881471T>C	uc001piy.2	-	2	347	c.174A>G	c.(172-174)GTA>GTG	p.V58V	KIAA1826_uc001piz.2_Silent_p.V58V	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	58						nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		CTCCTTCTCCTACAGCATTCA	0.443													9	442					0	0	0.006214	0	0		C	105881471	C	C	105881471	2	2	134	1	0	0	0	0	0	0	0	1	8276	1509	53	3		3	KIAA1826	11	105881471	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3288232	105881471	29125045	1053	73711											
DDX10	1662	broad.mit.edu	37	chr11	108593810	108593810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaattggtaaggagccaagCcgataaagtaattgagccaa	17	7	11	6	1	0	2	0	1	0	1	0	4	0	3	3	2	3	2	3	2	7	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:108593810C>T	uc001pkm.2	+	13	1651	c.1586C>T	c.(1585-1587)GCC>GTC	p.A529V	DDX10_uc001pkl.1_Missense_Mutation_p.A529V	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	529							ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		AGGAGCCAAGCCGATAAAGTA	0.433			T	NUP98	AML*								20	29					0	0	0.00278	0	0		T	108593810	T	T	108593810	3	4	134	1	0	0	0	0	1	0	0	0	4345	739	26	2	1636	2	DDX10	11	108593810	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2712339	108593810	26412706	1054	73712											
C11orf52	91894	broad.mit.edu	37	chr11	111796699	111796699	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcagggccatgaaacaacaGgacatacgtatgaacgggtg	14	5	13	9	3	0	2	0	2	0	0	0	3	0	3	1	3	4	2	1	3	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:111796699G>T	uc001pmh.2	+	5	631	c.148G>T	c.(148-150)GGA>TGA	p.G50*	C11orf52_uc001pmi.2_Nonsense_Mutation_p.G50*	NM_080659	NP_542390	Q96A22	CK052_HUMAN	hypothetical protein LOC91894	50										ovary(1)	1		all_cancers(61;8.8e-15)|all_epithelial(67;6.27e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.63e-07)|BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|all cancers(92;6.7e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0512)		TGAAACAACAGGACATACGTA	0.502													21	30					4.4004e-07	4.83804e-07	0.00333	1	0		T	111796699	T	T	111796699	4	4	134	1	0	0	0	0	0	1	0	0	1650	1001	35	5	162	5	C11orf52	11	111796699	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3202889	111796699	23209817	1055	73713											
FAM55D	54827	broad.mit.edu	37	chr11	114453454	114453454	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccgccatattgcttcctgCgtcccaagtggtccctcacc	5	10	7	19	2	1	0	1	0	0	0	4	0	4	0	7	1	2	1	7	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:114453454C>A	uc001ppc.2	-	3	567	c.386G>T	c.(385-387)CGC>CTC	p.R129L	FAM55D_uc001ppd.2_Intron	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	129						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		TTGCTTCCTGCGTCCCAAGTG	0.587													45	101					8.86878e-18	1.00928e-17	0.01441	1	0		A	114453454	A	A	114453454	3	1	134	1	0	0	0	0	1	0	0	0	5601	768	27	5	1264	5	FAM55D	11	114453454	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2656755	114453454	20553062	1056	73714											
APOA5	116519	broad.mit.edu	37	chr11	116660973	116660973	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttgttgaaactctggggcGaaggcactgtggcctggtgg	6	11	17	7	1	1	1	0	1	1	0	1	2	1	1	1	6	1	3	1	6	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:116660973G>A	uc001ppr.2	-	3	980	c.972C>T	c.(970-972)TTC>TTT	p.F324F	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Silent_p.F324F|APOA5_uc009yzf.2_Silent_p.F324F|APOA5_uc009yzg.2_Silent_p.F350F	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	324					acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		ACTCTGGGGCGAAGGCACTGT	0.592													38	74					0	0	0.011902	0	0		A	116660973	A	A	116660973	2	1	134	1	0	0	0	0	0	0	0	1	784	1049	37	1		1	APOA5	11	116660973	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2207519	116660973	18345543	1057	73715											
SIK3	23387	broad.mit.edu	37	chr11	116767059	116767059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcaaatggcagggcacCgcacacaagcacgtagagga	14	4	11	12	2	1	1	1	0	0	1	2	2	2	2	2	3	1	5	2	3	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:116767059C>T	uc001ppy.2	-	6	637	c.601G>A	c.(601-603)GGT>AGT	p.G201S	SIK3_uc001ppz.2_Missense_Mutation_p.G100S|SIK3_uc001pqa.2_Missense_Mutation_p.G201S	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	201	Protein kinase.					cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						GGCAGGGCACCGCACACAAGC	0.498													37	87					0	0	0.004289	0	0		T	116767059	T	T	116767059	3	4	134	1	0	0	0	0	1	0	0	0	14344	652	23	1	3262	1	SIK3	11	116767059	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	106086	116767059	18239457	1058	73716											
DSCAML1	57453	broad.mit.edu	37	chr11	117303920	117303920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggatgtcaatgtgtagccGtgggccctggggtggccctt	4	10	18	9	1	1	0	1	0	0	0	1	1	1	1	3	6	1	1	3	6	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:117303920G>A	uc001prh.1	-	29	5142	c.5140C>T	c.(5140-5142)CGG>TGG	p.R1714W		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1654	Cytoplasmic (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		ATGTGTAGCCGTGGGCCCTGG	0.567													21	43					0	0	0.003954	0	0		A	117303920	A	A	117303920	3	1	134	1	0	0	0	0	1	0	0	0	4775	1144	40	1	1221	1	DSCAML1	11	117303920	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	536861	117303920	17702596	1059	73717											
UBE4A	9354	broad.mit.edu	37	chr11	118255401	118255401	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccgccgtcccatgtatcCtatcctaagatacatgtggg	9	12	8	12	2	0	1	0	0	0	1	3	1	3	1	5	1	2	1	5	1	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:118255401C>A	uc001psw.2	+	14	2378	c.2249C>A	c.(2248-2250)CCT>CAT	p.P750H	UBE4A_uc001psv.2_Missense_Mutation_p.P757H	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	750					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		CCCATGTATCCTATCCTAAGA	0.443													24	71					1.37878e-21	1.58793e-21	0.00333	1	0		A	118255401	A	A	118255401	3	1	134	1	0	0	0	0	1	0	0	0	16908	681	24	5	2320	5	UBE4A	11	118255401	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	951481	118255401	16751115	1060	73718											
MLL	4297	broad.mit.edu	37	chr11	118363823	118363823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggagagtataccttccCgcagctcccccgaaggacct	10	6	10	15	2	0	2	0	0	0	2	2	5	2	3	5	2	2	3	5	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:118363823C>T	uc001pta.2	+	16	5070	c.5047C>T	c.(5047-5049)CGC>TGC	p.R1683C	MLL_uc001ptb.2_Missense_Mutation_p.R1686C	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1683					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TATACCTTCCCGCAGCTCCCC	0.478			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								81	137					0	0	0.01441	0	0		T	118363823	T	T	118363823	3	4	134	1	0	0	0	0	1	0	0	0	9638	652	23	1	5109	1	MLL	11	118363823	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	108422	118363823	16642693	1061	73719											
ARCN1	372	broad.mit.edu	37	chr11	118463520	118463520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagtcaacagtgacgtagggGtgctaaagtggagactacaa	14	7	13	7	1	1	2	1	1	0	1	1	3	1	2	0	3	3	2	0	3	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:118463520G>A	uc001ptq.2	+	7	1242	c.1081G>A	c.(1081-1083)GTG>ATG	p.V361M	ARCN1_uc009zah.2_Intron|ARCN1_uc010ryg.1_Missense_Mutation_p.V273M|ARCN1_uc009zag.2_Missense_Mutation_p.V402M	NM_001655	NP_001646	P48444	COPD_HUMAN	archain isoform 1	361	MHD.				COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	clathrin adaptor complex|COPI vesicle coat|cytosol					0	all_hematologic(175;0.0349)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		TGACGTAGGGGTGCTAAAGTG	0.438													166	312					0	0	0.01441	0	0		A	118463520	A	A	118463520	3	1	134	1	0	0	0	0	1	0	0	0	842	1261	44	4	1107	4	ARCN1	11	118463520	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	99697	118463520	16542996	1062	73720											
DDX6	1656	broad.mit.edu	37	chr11	118629513	118629513	+	Frame_Shift_Del	DEL	T	-	-																															agtgtgttgaggcagtgtacTttttggcgctcagttacata																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:118629513delT	uc001pub.2	-	9	1324	c.963delA	c.(961-963)AAAfs	p.K321fs	DDX6_uc001pua.2_Frame_Shift_Del_p.K21fs|DDX6_uc001puc.2_Frame_Shift_Del_p.K321fs	NM_004397	NP_004388	P26196	DDX6_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	321	Helicase C-terminal.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|RNA-induced silencing complex|stress granule	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|RNA helicase activity			ovary(1)	1	all_hematologic(175;0.0839)	Renal(330;0.0183)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)|Hepatocellular(160;0.0893)|Breast(348;0.0979)|all_hematologic(192;0.103)		OV - Ovarian serous cystadenocarcinoma(223;3.39e-06)|BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Colorectal(284;0.0377)		GGCAGTGTACTTTTTGGCGCT	0.413			T	IGH@	B-NHL								39	66	---	---	---	---						.	-	118629513	-	-	118629513	7	5	134	1	0	1	0	1	0	0	0	0	4380	1606	56	0	508	0	DDX6	11	118629513	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	165993	118629513	16377003	1063	73721											
BCL9L	283149	broad.mit.edu	37	chr11	118770759	118770759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcatggcgtacttggaCatctgggtcatcatcagtga	8	11	13	9	1	4	1	3	1	1	0	4	2	4	2	0	4	1	2	0	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:118770759C>T	uc001pug.2	-	7	4238	c.3273G>A	c.(3271-3273)ATG>ATA	p.M1091I	BCL9L_uc009zal.2_Missense_Mutation_p.M1086I	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	1091	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		CGTACTTGGACATCTGGGTCA	0.627													49	146					0	0	0.01441	0	0		T	118770759	T	T	118770759	3	4	134	1	0	0	0	0	1	0	0	0	1383	478	17	4	1234	4	BCL9L	11	118770759	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	141246	118770759	16235757	1064	73722											
ABCG4	64137	broad.mit.edu	37	chr11	119025010	119025010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agatcctggttaatggaaggCcacgggagctgaggaccttc	10	8	14	9	1	0	2	0	1	0	1	2	5	1	5	3	5	1	2	3	5	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:119025010C>T	uc001pvs.2	+	4	733	c.397C>T	c.(397-399)CCA>TCA	p.P133S	ABCG4_uc009zar.2_Missense_Mutation_p.P133S	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	133	Cytoplasmic (Potential).|ABC transporter.				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		TAATGGAAGGCCACGGGAGCT	0.557													33	54					0	0	0.012213	0	0		T	119025010	T	T	119025010	3	4	134	1	0	0	0	0	1	0	0	0	70	739	26	2	407	2	ABCG4	11	119025010	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	254251	119025010	15981506	1065	73723											
TBCEL	219899	broad.mit.edu	37	chr11	120930796	120930797	+	Splice_Site	INS	-	A	A																															ggaagaagtgccattcaggtINSaaaaaattccccattggcca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:120930796_120930797insA	uc009zay.2	+	7	1034	c.956_splice	c.e7+2	p.R319_splice	TBCEL_uc001pxo.2_Splice_Site_p.R319_splice|TBCEL_uc001pxp.2_Splice_Site_p.R175_splice|TBCEL_uc001pxq.2_Splice_Site	NM_001130047	NP_001123519	Q5QJ74	TBCEL_HUMAN	tubulin folding cofactor E-like							cytoplasm|cytoskeleton				skin(1)	1		Breast(109;0.00526)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.89e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.121)		GCCATTCAGGTAAAAAATTCCC	0.391													62	121	---	---	---	---						.	A	120930797	A	A	120930796	8	5	134	1	0	1	1	0	0	0	1	0	15660	1652	57	0	980	0	TBCEL	11	120930796	Splice_Site	INS	-	TCGA-CG-4442-01A-01D-1158-08	1905786	120930796	14075720	1066	73724											
OR10G4	390264	broad.mit.edu	37	chr11	123886785	123886785	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttccatttgccctactgTggacccaaccagatccagca	10	10	6	15	0	0	1	0	0	0	1	2	2	2	2	5	1	4	1	5	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:123886785T>C	uc010sac.1	+	1	504	c.504T>C	c.(502-504)TGT>TGC	p.C168C		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		TGCCCTACTGTGGACCCAACC	0.567													97	191					0	0	0.01441	0	0		C	123886785	C	C	123886785	2	2	134	1	0	0	0	0	0	0	0	1	10920	1702	59	3		3	OR10G4	11	123886785	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2955989	123886785	11119731	1067	73725											
OR10G7	390265	broad.mit.edu	37	chr11	123909205	123909205	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggatctggttgggtccAcagtagggcaaatggaaagt	10	10	15	6	0	1	0	0	0	1	0	2	2	2	2	1	5	1	4	1	5	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:123909205A>G	uc001pzq.1	-	1	504	c.504T>C	c.(502-504)TGT>TGC	p.C168C		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		GGTTGGGTCCACAGTAGGGCA	0.562													10	439					0	0	0.01441	0	0		G	123909205	G	G	123909205	2	3	134	1	0	0	0	0	0	0	0	1	10921	157	6	3		3	OR10G7	11	123909205	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	22420	123909205	11097311	1068	73726											
PUS3	83480	broad.mit.edu	37	chr11	125765567	125765567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgtctggagggagtacccGattgagaatgtgggtataac	11	10	15	5	1	1	1	0	1	1	1	1	6	1	3	1	3	2	2	1	3	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:125765567G>A	uc001qcy.2	-	3	594	c.496C>T	c.(496-498)CGG>TGG	p.R166W	HYLS1_uc009zbv.2_Intron|HYLS1_uc001qcx.3_Intron	NM_031307	NP_112597	Q9BZE2	PUS3_HUMAN	pseudouridylate synthase 3	166						nucleus	RNA binding			ovary(1)	1	all_hematologic(175;0.177)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.131)|all_lung(97;0.139)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.043)		GGGAGTACCCGATTGAGAATG	0.502													60	116					0	0	0.01441	0	0		A	125765567	A	A	125765567	3	1	134	1	0	0	0	0	1	0	0	0	12857	1057	37	1	957	1	PUS3	11	125765567	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1856362	125765567	9240949	1069	73727											
RPUSD4	84881	broad.mit.edu	37	chr11	126081486	126081486	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agactcccgcaaccttggccGtttccccggatccaggggcc	6	7	11	17	3	0	1	0	0	0	1	3	2	3	2	7	4	1	2	7	4	1	2	rs141244684	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:126081486G>A	uc001qde.2	-	1	102	c.48C>T	c.(46-48)AAC>AAT	p.N16N	FAM118B_uc001qdf.2_5'Flank|FAM118B_uc009zca.2_5'Flank|FAM118B_uc001qdg.2_5'Flank|RPUSD4_uc009zbz.2_Silent_p.N16N|RPUSD4_uc009zby.2_RNA	NM_032795	NP_116184	Q96CM3	RUSD4_HUMAN	RNA pseudouridylate synthase domain containing 4	16					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			breast(1)	1	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0761)		AACCTTGGCCGTTTCCCCGGA	0.622													86	196					0	0	0.01441	0	0		A	126081486	A	A	126081486	2	1	134	1	0	0	0	0	0	0	0	1	13694	1136	40	1		1	RPUSD4	11	126081486	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	315919	126081486	8925030	1070	73728											
SRPR	6734	broad.mit.edu	37	chr11	126136516	126136516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttggagcatctgacttcGtggacttgctgcaacaggtt	7	13	11	10	1	1	1	0	1	1	0	2	3	1	3	1	3	4	4	1	3	1	4	rs148507841		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:126136516G>A	uc001qdh.2	-	6	746	c.695C>T	c.(694-696)ACG>ATG	p.T232M	SRPR_uc010sbm.1_Missense_Mutation_p.T204M|FOXRED1_uc001qdi.2_5'Flank|FOXRED1_uc010sbn.1_5'Flank|FOXRED1_uc010sbo.1_5'Flank|FOXRED1_uc010sbp.1_5'Flank|FOXRED1_uc010sbq.1_5'Flank|FOXRED1_uc001qdj.2_5'Flank|FOXRED1_uc010sbr.1_5'Flank	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	232					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		ATCTGACTTCGTGGACTTGCT	0.493													8	238					0	0	0.006214	0	0		A	126136516	A	A	126136516	3	1	134	1	0	0	0	0	1	0	0	0	15187	1145	40	1	1257	1	SRPR	11	126136516	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	55030	126136516	8870000	1071	73729											
FLI1	2313	broad.mit.edu	37	chr11	128564097	128564097	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgaaggggctgcgaggtcaGgctgtaaccgggtcaatgtg	8	7	17	9	3	2	0	2	0	0	0	2	2	2	0	2	5	2	3	2	5	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:128564097G>T	uc010sbu.1	+	1	285	c.-56G>T	c.(-58--54)CAGGC>CATGC		FLI1_uc010sbt.1_Intron|FLI1_uc010sbv.1_Translation_Start_Site|FLI1_uc009zci.2_Translation_Start_Site|uc001qel.2_Intron	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1						hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		TGCGAGGTCAGGCTGTAACCG	0.682			T	EWSR1	Ewing sarcoma								6	18					0.00307968	0.00334755	0.00308	1	0		T	128564097	T	T	128564097	1	4	134	1	0	0	0	0	0	0	0	0	5938	1015	35	5		5	FLI1	11	128564097	Translation_Start_Site	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2427581	128564097	6442419	1072	73730											
ARHGAP32	9743	broad.mit.edu	37	chr11	128844793	128844793	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcattgtcatgaggcagatTatcataggagttacagcggt	11	12	11	7	1	3	2	3	1	0	1	3	3	3	3	0	3	2	2	0	3	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:128844793T>C	uc009zcp.2	-	20	2257	c.2257A>G	c.(2257-2259)AAT>GAT	p.N753D	ARHGAP32_uc009zcq.1_Missense_Mutation_p.N713D|ARHGAP32_uc009zco.2_Translation_Start_Site|ARHGAP32_uc001qez.2_Missense_Mutation_p.N404D	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	753					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TGAGGCAGATTATCATAGGAG	0.498													4	145					0	0	0.009096	0	0		C	128844793	C	C	128844793	3	2	134	1	0	0	0	0	1	0	0	0	881	1754	61	3	4018	3	ARHGAP32	11	128844793	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	280696	128844793	6161723	1073	73731											
PRDM10	56980	broad.mit.edu	37	chr11	129775589	129775589	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttgccacaccactgtctgTaatcacaaactgacccggag	12	8	8	13	1	2	1	1	1	1	0	2	2	2	2	3	1	2	2	3	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr11:129775589T>C	uc001qfm.2	-	21	3455	c.3223A>G	c.(3223-3225)ACA>GCA	p.T1075A	PRDM10_uc001qfj.2_Missense_Mutation_p.T976A|PRDM10_uc001qfk.2_Missense_Mutation_p.T938A|PRDM10_uc001qfl.2_Missense_Mutation_p.T989A|PRDM10_uc010sbx.1_Missense_Mutation_p.T985A|PRDM10_uc001qfn.2_Missense_Mutation_p.T1071A	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	1062					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		CCACTGTCTGTAATCACAAAC	0.463													41	26					0	0	0.01441	0	0		C	129775589	C	C	129775589	3	2	134	1	0	0	0	0	1	0	0	0	12473	1638	57	3	267	3	PRDM10	11	129775589	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	930796	129775589	5230927	1074	73732											
SLC6A13	6540	broad.mit.edu	37	chr12	333237	333237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttccctccggttcttcttgCggaacacgtgagggtacatg	6	12	11	12	3	2	1	0	1	2	0	4	2	4	2	2	3	3	2	2	3	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:333237C>T	uc001qic.1	-	11	1285	c.1232G>A	c.(1231-1233)CGC>CAC	p.R411H	SLC6A13_uc009zdj.1_Missense_Mutation_p.R401H|SLC6A13_uc010sdl.1_Missense_Mutation_p.R319H	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	411					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			GTTCTTCTTGCGGAACACGTG	0.572													29	55					0	0	0.003271	0	0		T	333237	T	T	333237	3	4	134	1	0	0	0	0	1	0	0	0	14701	768	27	1	596	1	SLC6A13	12	333237	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08		333237	133518658	1075	73733											
KDM5A	5927	broad.mit.edu	37	chr12	442691	442691	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcacgttggggttcatgaTggtaactaactgatgcagaa	12	11	12	6	1	1	3	1	2	0	1	1	3	1	3	0	3	4	5	0	3	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:442691T>C	uc001qif.1	-	12	1978	c.1615A>G	c.(1615-1617)ATC>GTC	p.I539V	KDM5A_uc001qie.1_Missense_Mutation_p.I539V|KDM5A_uc010sdn.1_Missense_Mutation_p.I498V|KDM5A_uc010sdo.1_Missense_Mutation_p.I158V	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	539	JmjC.				chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						GGGTTCATGATGGTAACTAAC	0.418			T 	NUP98	AML								45	111					0	0	0.011902	0	0		C	442691	C	C	442691	3	2	134	1	0	0	0	0	1	0	0	0	8149	1464	51	3	3525	3	KDM5A	12	442691	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	109454	442691	133409204	1076	73734											
RAD52	5893	broad.mit.edu	37	chr12	1036391	1036391	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttggacttgaggccctcActaacaccataaccaacatc	12	8	6	15	0	1	1	1	1	0	0	2	2	1	2	4	2	3	0	4	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:1036391A>G	uc001qis.1	-	6	501	c.387T>C	c.(385-387)AGT>AGC	p.S129S	RAD52_uc001qit.1_RNA|RAD52_uc010sdt.1_Silent_p.S52S|RAD52_uc001qiu.1_Silent_p.S129S|RAD52_uc001qiv.1_RNA|RAD52_uc001qiw.1_Intron|RAD52_uc010sdu.1_Silent_p.S129S|RAD52_uc001qix.1_Silent_p.S129S	NM_134424	NP_602296	P43351	RAD52_HUMAN	RAD52 homolog	129					DNA recombinase assembly|mitotic recombination|reciprocal meiotic recombination	nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1	all_cancers(10;0.0119)|all_epithelial(11;0.0171)|all_lung(10;0.0521)|Ovarian(42;0.0816)|Lung NSC(10;0.0987)		OV - Ovarian serous cystadenocarcinoma(31;0.00123)|BRCA - Breast invasive adenocarcinoma(9;0.0323)			TGAGGCCCTCACTAACACCAT	0.557								Homologous_recombination					92	242					0	0	0.01441	0	0		G	1036391	G	G	1036391	2	3	134	1	0	0	0	0	0	0	0	1	13016	156	6	3		3	RAD52	12	1036391	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	593700	1036391	132815504	1077	73735											
CACNA1C	775	broad.mit.edu	37	chr12	2692102	2692102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatcctcttcatctgtGgaaactgtatcctttgctgc	7	16	6	12	0	5	0	3	0	2	0	7	1	7	1	2	1	3	2	2	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:2692102G>A	uc009zdu.1	+	15	2531	c.2218G>A	c.(2218-2220)GGA>AGA	p.G740R	CACNA1C_uc009zdv.1_Missense_Mutation_p.G737R|CACNA1C_uc001qkb.2_Missense_Mutation_p.G740R|CACNA1C_uc001qkc.2_Missense_Mutation_p.G740R|CACNA1C_uc001qke.2_Missense_Mutation_p.G740R|CACNA1C_uc001qkf.2_Missense_Mutation_p.G740R|CACNA1C_uc001qjz.2_Missense_Mutation_p.G740R|CACNA1C_uc001qkd.2_Missense_Mutation_p.G740R|CACNA1C_uc001qkg.2_Missense_Mutation_p.G740R|CACNA1C_uc009zdw.1_Missense_Mutation_p.G740R|CACNA1C_uc001qkh.2_Missense_Mutation_p.G740R|CACNA1C_uc001qkl.2_Missense_Mutation_p.G740R|CACNA1C_uc001qkn.2_Missense_Mutation_p.G740R|CACNA1C_uc001qko.2_Missense_Mutation_p.G740R|CACNA1C_uc001qkp.2_Missense_Mutation_p.G740R|CACNA1C_uc001qkr.2_Missense_Mutation_p.G740R|CACNA1C_uc001qku.2_Missense_Mutation_p.G740R|CACNA1C_uc001qkq.2_Missense_Mutation_p.G740R|CACNA1C_uc001qks.2_Missense_Mutation_p.G740R|CACNA1C_uc001qkt.2_Missense_Mutation_p.G740R|CACNA1C_uc001qka.1_Missense_Mutation_p.G275R|CACNA1C_uc001qki.1_Missense_Mutation_p.G476R|CACNA1C_uc001qkj.1_Missense_Mutation_p.G476R|CACNA1C_uc001qkk.1_Missense_Mutation_p.G476R|CACNA1C_uc001qkm.1_Missense_Mutation_p.G476R|CACNA1C_uc001qkw.2_Missense_Mutation_p.G29R	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	740	Helical; Name=S6 of repeat II; (Potential).|II.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CTTCATCTGTGGAAACTGTAT	0.587													8	8					0	0	0.00308	0	0		A	2692102	A	A	2692102	3	1	134	1	0	0	0	0	1	0	0	0	2543	1349	47	4	2384	4	CACNA1C	12	2692102	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1655711	2692102	131159793	1078	73736											
CACNA1C	775	broad.mit.edu	37	chr12	2764356	2764356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgataccacagagatcaaccGgaacaacaactttcagacct	16	7	6	12	1	2	3	2	1	0	2	2	5	2	4	3	1	5	0	3	1	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:2764356G>A	uc009zdu.1	+	36	4641	c.4328G>A	c.(4327-4329)CGG>CAG	p.R1443Q	CACNA1C_uc009zdv.1_Missense_Mutation_p.R1392Q|CACNA1C_uc001qkb.2_Missense_Mutation_p.R1395Q|CACNA1C_uc001qkc.2_Missense_Mutation_p.R1395Q|CACNA1C_uc001qke.2_Missense_Mutation_p.R1384Q|CACNA1C_uc001qkf.2_Missense_Mutation_p.R1384Q|CACNA1C_uc001qjz.2_Missense_Mutation_p.R1395Q|CACNA1C_uc001qkd.2_Missense_Mutation_p.R1395Q|CACNA1C_uc001qkg.2_Missense_Mutation_p.R1382Q|CACNA1C_uc009zdw.1_Missense_Mutation_p.R1417Q|CACNA1C_uc001qkh.2_Missense_Mutation_p.R1384Q|CACNA1C_uc001qkl.2_Missense_Mutation_p.R1443Q|CACNA1C_uc001qkn.2_Missense_Mutation_p.R1395Q|CACNA1C_uc001qko.2_Missense_Mutation_p.R1415Q|CACNA1C_uc001qkp.2_Missense_Mutation_p.R1395Q|CACNA1C_uc001qkr.2_Missense_Mutation_p.R1412Q|CACNA1C_uc001qku.2_Missense_Mutation_p.R1395Q|CACNA1C_uc001qkq.2_Missense_Mutation_p.R1423Q|CACNA1C_uc001qks.2_Missense_Mutation_p.R1395Q|CACNA1C_uc001qkt.2_Missense_Mutation_p.R1395Q|CACNA1C_uc001qki.1_Missense_Mutation_p.R1131Q|CACNA1C_uc001qkj.1_Missense_Mutation_p.R1131Q|CACNA1C_uc001qkk.1_Missense_Mutation_p.R1131Q|CACNA1C_uc001qkm.1_Missense_Mutation_p.R1120Q|CACNA1C_uc010sea.1_Missense_Mutation_p.R86Q	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1443	Extracellular (Potential).|IV.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GAGATCAACCGGAACAACAAC	0.502													20	50					0	0	0.010504	0	0		A	2764356	A	A	2764356	3	1	134	1	0	0	0	0	1	0	0	0	2543	1116	39	1	4644	1	CACNA1C	12	2764356	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	72254	2764356	131087539	1079	73737											
FKBP4	2288	broad.mit.edu	37	chr12	2907948	2907948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcgcagaatacagactcGcggtgaaggctatgctaagc	12	8	11	10	3	0	3	0	1	0	2	2	3	0	3	0	2	3	3	0	2	5	4	rs1062478		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:2907948G>A	uc001qkz.2	+	4	668	c.470G>A	c.(469-471)CGC>CAC	p.R157H		NM_002014	NP_002005	Q02790	FKBP4_HUMAN	FK506 binding protein 52	157					negative regulation of microtubule polymerization or depolymerization|negative regulation of neuron projection development|protein folding	axonal growth cone|cytosol|membrane|microtubule|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity|protein binding, bridging				0			OV - Ovarian serous cystadenocarcinoma(31;0.00105)		Dimethyl sulfoxide(DB01093)	ATACAGACTCGCGGTGAAGGC	0.363													60	108					0	0	0.01441	0	0		A	2907948	A	A	2907948	3	1	134	1	0	0	0	0	1	0	0	0	5924	1087	38	1	484	1	FKBP4	12	2907948	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	143592	2907948	130943947	1080	73738											
ITFG2	55846	broad.mit.edu	37	chr12	2929961	2929961	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtctcagccaggttgtgcGtatgcaattctactgtgtac	7	14	11	9	1	2	0	1	0	2	0	3	0	2	0	1	1	5	4	1	1	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:2929961G>A	uc001qlb.1	+	6	682	c.618G>A	c.(616-618)GCG>GCA	p.A206A	ITFG2_uc010seb.1_Silent_p.A29A|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	206											0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			CAGGTTGTGCGTATGCAATTC	0.562													41	73					0	0	0.00874	0	0		A	2929961	A	A	2929961	2	1	134	1	0	0	0	0	0	0	0	1	7886	1132	40	1		1	ITFG2	12	2929961	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	22013	2929961	130921934	1081	73739											
KCNA5	3741	broad.mit.edu	37	chr12	5153819	5153819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacttcttcgaccgcaaccGgcccagcttcgacggtatcc	7	9	9	16	5	1	0	0	0	1	0	4	2	2	0	4	2	3	4	4	2	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:5153819G>A	uc001qni.2	+	1	735	c.506G>A	c.(505-507)CGG>CAG	p.R169Q		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	169						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GACCGCAACCGGCCCAGCTTC	0.657													33	55					0	0	0.00623	0	0		A	5153819	A	A	5153819	3	1	134	1	0	0	0	0	1	0	0	0	8022	1116	39	1	508	1	KCNA5	12	5153819	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2223858	5153819	128698076	1082	73740											
CHD4	1108	broad.mit.edu	37	chr12	6692419	6692419	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttacggattctttttccTttgcccagatttcgggctag	5	18	9	9	2	1	1	0	0	1	1	3	2	2	2	2	2	2	2	2	2	2	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:6692419T>G	uc001qpo.2	-	26	4169	c.4005A>C	c.(4003-4005)AAA>AAC	p.K1335N	CHD4_uc001qpn.2_Missense_Mutation_p.K1328N|CHD4_uc001qpp.2_Missense_Mutation_p.K1332N|uc001qpq.1_3'UTR|SCARNA11_uc001qpr.1_5'Flank	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1335					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TTCTTTTTCCTTTGCCCAGAT	0.532													168	274					0	0	0.01441	0	0		G	6692419	G	G	6692419	3	3	134	1	0	0	0	0	1	0	0	0	3330	1606	56	5	1793	5	CHD4	12	6692419	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1538600	6692419	127159476	1083	73741											
CHD4	1108	broad.mit.edu	37	chr12	6707515	6707515	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcagcatctggaggccgaGgcactggtgtgggagatggt	8	8	18	7	1	2	1	1	0	1	1	2	5	2	2	1	6	1	2	1	6	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:6707515G>T	uc001qpo.2	-	11	1723	c.1559C>A	c.(1558-1560)CCT>CAT	p.P520H	CHD4_uc001qpn.2_Missense_Mutation_p.P513H|CHD4_uc001qpp.2_Missense_Mutation_p.P517H	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	520	Chromo 1.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TGGAGGCCGAGGCACTGGTGT	0.552													128	248					8.20597e-53	9.81011e-53	0.01441	1	0		T	6707515	T	T	6707515	3	4	134	1	0	0	0	0	1	0	0	0	3330	1000	35	5	4299	5	CHD4	12	6707515	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	15096	6707515	127144380	1084	73742											
ACRBP	84519	broad.mit.edu	37	chr12	6753468	6753468	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagggttagaagatagaGattcagagtgaaacttgggc	15	8	15	3	0	1	5	1	1	0	4	1	7	1	6	0	3	1	1	0	3	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:6753468G>T	uc001qpu.1	-	5	827	c.779C>A	c.(778-780)TCT>TAT	p.S260Y	ACRBP_uc010sfg.1_Missense_Mutation_p.S227Y	NM_032489	NP_115878	Q8NEB7	ACRBP_HUMAN	proacrosin binding protein sp32 precursor	260						acrosomal vesicle|extracellular region				central_nervous_system(1)	1						AGAAGATAGAGATTCAGAGTG	0.363													50	69					2.9001e-28	3.39639e-28	0.01441	1	0		T	6753468	T	T	6753468	3	4	134	1	0	0	0	0	1	0	0	0	170	942	33	5	876	5	ACRBP	12	6753468	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	45953	6753468	127098427	1085	73743											
ATN1	1822	broad.mit.edu	37	chr12	7044832	7044832	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccgaagcacgtcccccagTatctacagccctggaagtgt	11	7	9	14	2	1	0	0	0	1	0	2	2	2	1	4	1	4	2	4	1	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:7044832T>C	uc001qrw.1	+	5	639	c.402T>C	c.(400-402)AGT>AGC	p.S134S	ATN1_uc001qrx.1_Silent_p.S134S|ATN1_uc001qry.1_Silent_p.S133S	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	134					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						CGTCCCCCAGTATCTACAGCC	0.592													31	70					0	0	0.003271	0	0		C	7044832	C	C	7044832	2	2	134	1	0	0	0	0	0	0	0	1	1112	1635	57	3		3	ATN1	12	7044832	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	291364	7044832	126807063	1086	73744											
C1R	715	broad.mit.edu	37	chr12	7187997	7187997	+	Frame_Shift_Del	DEL	C	-	-																															tgcaaaaacgcccccactatCcccctggcaggcgtcctgct																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:7187997delC	uc010sfy.1	-	10	2016	c.1957delG	c.(1957-1959)GATfs	p.D653fs		NM_001733	NP_001724	P00736	C1R_HUMAN	complement component 1, r subcomponent	653	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity				0					Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCCCCACTATCCCCCTGGCAG	0.577													33	54	---	---	---	---						.	-	7187997	-	-	7187997	7	5	134	1	0	1	0	1	0	0	0	0	1975	855	30	0	164	0	C1R	12	7187997	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	143165	7187997	126663898	1087	73745											
C1R	715	broad.mit.edu	37	chr12	7242010	7242010	+	Frame_Shift_Del	DEL	G	-	-																															tgtagttgcagcgcaggtcaGgggggtaggaccgagggtac																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:7242010delG	uc010sfy.1	-	5	706	c.647delC	c.(646-648)CCTfs	p.P216fs	C1R_uc010sfz.1_Frame_Shift_Del_p.P230fs|C1R_uc010sga.1_Frame_Shift_Del_p.P182fs	NM_001733	NP_001724	P00736	C1R_HUMAN	complement component 1, r subcomponent	216	CUB 2.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity				0					Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GCGCAGGTCAGGGGGGTAGGA	0.597													11	17	---	---	---	---						.	-	7242010	-	-	7242010	7	5	134	1	0	1	0	1	0	0	0	0	1975	1000	35	0	1177	0	C1R	12	7242010	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	54013	7242010	126609885	1088	73746											
CLEC4A	50856	broad.mit.edu	37	chr12	8290795	8290795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgttgtgctaaattttcGtaaatcacccaaaagatggg	12	12	9	8	2	1	1	1	0	0	1	2	1	1	1	1	1	2	3	1	1	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:8290795G>A	uc001qtz.1	+	6	873	c.626G>A	c.(625-627)CGT>CAT	p.R209H	CLEC4A_uc009zga.1_Missense_Mutation_p.R170H|CLEC4A_uc001qub.1_Missense_Mutation_p.R176H|CLEC4A_uc001quc.1_Missense_Mutation_p.R137H|CLEC4A_uc009zgb.1_3'UTR	NM_016184	NP_057268	Q9UMR7	CLC4A_HUMAN	C-type lectin domain family 4, member A isoform	209	Extracellular (Potential).|C-type lectin.				cell adhesion|cell surface receptor linked signaling pathway|innate immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0				Kidney(36;0.0915)		CTAAATTTTCGTAAATCACCC	0.433													78	156					0	0	0.01441	0	0		A	8290795	A	A	8290795	3	1	134	1	0	0	0	0	1	0	0	0	3515	1145	40	1	648	1	CLEC4A	12	8290795	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1048785	8290795	125561100	1089	73747											
RIMKLB	57494	broad.mit.edu	37	chr12	8926340	8926340	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggggcctgttcaacatgaAccagctgctagccaatgaaa	13	7	11	10	0	1	2	1	2	0	0	1	2	1	2	3	2	5	3	3	2	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:8926340A>G	uc001quu.2	+	6	1372	c.1121A>G	c.(1120-1122)AAC>AGC	p.N374S	RIMKLB_uc009zgf.1_Intron|RIMKLB_uc001qux.2_Missense_Mutation_p.N374S|RIMKLB_uc010sgl.1_Missense_Mutation_p.N374S|RIMKLB_uc001quw.2_Intron	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	374					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						TTCAACATGAACCAGCTGCTA	0.463													25	86					0	0	0.004289	0	0		G	8926340	G	G	8926340	3	3	134	1	0	0	0	0	1	0	0	0	13391	43	2	3	1139	3	RIMKLB	12	8926340	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	635545	8926340	124925555	1090	73748											
M6PR	4074	broad.mit.edu	37	chr12	9095057	9095057	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaaggctaagtggggaaaCtgctccattcctttggctcc	9	10	11	11	0	0	1	0	0	0	1	3	2	3	2	3	4	2	3	3	4	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:9095057C>T	uc001qvf.2	-	6	836	c.666G>A	c.(664-666)CAG>CAA	p.Q222Q		NM_002355	NP_002346	P20645	MPRD_HUMAN	cation-dependent mannose-6-phosphate receptor	222	Cytoplasmic (Potential).				endosome to lysosome transport|receptor-mediated endocytosis	cell surface|endosome|integral to plasma membrane|lysosomal membrane	mannose binding|mannose transmembrane transporter activity|transmembrane receptor activity				0		Hepatocellular(102;0.137)		BRCA - Breast invasive adenocarcinoma(232;0.0146)		AGTGGGGAAACTGCTCCATTC	0.473													58	105					0	0	0.01441	0	0		T	9095057	T	T	9095057	2	4	134	1	0	0	0	0	0	0	0	1	9158	564	20	4		4	M6PR	12	9095057	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	168717	9095057	124756838	1091	73749											
BCL2L14	79370	broad.mit.edu	37	chr12	12247797	12247797	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccacccgatgaacagggTcctgggctttggcaccaagt	10	7	11	13	1	0	1	0	1	0	0	1	2	1	1	4	3	2	2	4	3	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:12247797T>C	uc001rac.2	+	5	1079	c.878T>C	c.(877-879)GTC>GCC	p.V293A	ETV6_uc001raa.1_Intron|BCL2L14_uc001raf.1_Intron|BCL2L14_uc001rad.2_Missense_Mutation_p.V293A|BCL2L14_uc001rae.2_3'UTR	NM_138723	NP_620049	Q9BZR8	B2L14_HUMAN	BCL2-like 14 isoform 1	293					apoptosis|regulation of apoptosis	cytosol|endomembrane system|intracellular organelle|membrane	protein binding			skin(1)	1		Prostate(47;0.0872)		BRCA - Breast invasive adenocarcinoma(232;0.154)		ATGAACAGGGTCCTGGGCTTT	0.498													62	76					0	0	0.01441	0	0		C	12247797	C	C	12247797	3	2	134	1	0	0	0	0	1	0	0	0	1373	1667	58	3	977	3	BCL2L14	12	12247797	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3152740	12247797	121604098	1092	73750											
LRP6	4040	broad.mit.edu	37	chr12	12339968	12339968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcaagccaaaatggagtGtgtgctccagtcagtccagt	10	10	12	9	0	1	0	1	0	0	0	3	1	3	1	3	1	3	3	3	1	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:12339968G>A	uc001rah.3	-	4	875	c.733C>T	c.(733-735)CAC>TAC	p.H245Y	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.H245Y	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	245	Extracellular (Potential).|Beta-propeller 1.|LDL-receptor class B 5.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				AAAATGGAGTGTGTGCTCCAG	0.448													8	245					0	0	0.004482	0	0		A	12339968	A	A	12339968	3	1	134	1	0	0	0	0	1	0	0	0	8980	1377	48	4	4188	4	LRP6	12	12339968	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	92171	12339968	121511927	1093	73751											
ATF7IP	55729	broad.mit.edu	37	chr12	14577801	14577802	+	Frame_Shift_Ins	INS	-	A	A																															taaagatgatgattttcttgINSaaaaaaatggagctgatgaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:14577801_14577802insA	uc001rbw.2	+	2	1110_1111	c.952_953insA	c.(952-954)GAAfs	p.E318fs	ATF7IP_uc010shs.1_Frame_Shift_Ins_p.E318fs|ATF7IP_uc001rbu.2_Frame_Shift_Ins_p.E318fs|ATF7IP_uc001rbv.1_Frame_Shift_Ins_p.E318fs|ATF7IP_uc001rbx.2_Frame_Shift_Ins_p.E318fs|ATF7IP_uc010sht.1_Frame_Shift_Ins_p.E318fs|ATF7IP_uc001rby.3_Frame_Shift_Ins_p.E318fs|ATF7IP_uc001rbz.1_Frame_Shift_Ins_p.E318fs|ATF7IP_uc001rca.2_Frame_Shift_Ins_p.E318fs|ATF7IP_uc001rcb.2_5'Flank	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	318					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						TGATTTTCTTGAAAAAAATGGA	0.317													45	85	---	---	---	---						.	A	14577802	A	A	14577801	7	5	134	1	0	1	1	0	0	0	0	0	1088	1291	45	0	954	0	ATF7IP	12	14577801	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	2237833	14577801	119274094	1094	73752											
ART4	420	broad.mit.edu	37	chr12	14993875	14993876	+	Frame_Shift_Del	DEL	GT	-	-																															taaaacaaaatagccacagcGtgtgtggtagtcatgttctg																								rs144350521	by1000genomes	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:14993875_14993876delGT	uc001rcl.1	-	2	722_723	c.356_357delAC	c.(355-357)CACfs	p.H119fs	ART4_uc009zid.1_Intron|ART4_uc009zie.1_Intron|ART4_uc001rcm.1_Frame_Shift_Del_p.H119fs	NM_021071	NP_066549	Q93070	NAR4_HUMAN	ADP-ribosyltransferase 4 precursor	119					arginine metabolic process|protein ADP-ribosylation	anchored to membrane|plasma membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity				0						TAGCCACAGCGTGTGTGGTAGT	0.436													112	212	---	---	---	---						.	-	14993876	-	-	14993875	7	5	134	1	0	1	0	1	0	0	0	0	1000	1136	40	0	595	0	ART4	12	14993875	Frame_Shift_Del	DEL	GT	TCGA-CG-4442-01A-01D-1158-08	416074	14993875	118858020	1095	73753											
LMO3	55885	broad.mit.edu	37	chr12	16713448	16713448	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgagcttactacaggcagcGcagtttcccgttacaccaaa	12	9	8	12	2	0	1	0	1	0	0	1	1	1	1	2	1	5	5	2	1	4	4	rs149014326		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:16713448G>A	uc001rdk.1	-	3	671	c.231C>T	c.(229-231)TGC>TGT	p.C77C	LMO3_uc001rdj.1_Silent_p.C88C|LMO3_uc010shy.1_Silent_p.C95C|LMO3_uc001rdl.1_Silent_p.C77C|LMO3_uc009zii.1_RNA|LMO3_uc010shz.1_Silent_p.C99C|LMO3_uc001rdm.1_Silent_p.C77C|LMO3_uc001rdo.1_RNA|LMO3_uc001rdp.1_RNA|LMO3_uc001rdn.1_Silent_p.C77C|LMO3_uc009zij.1_RNA|LMO3_uc009zik.1_RNA	NM_018640	NP_061110	Q8TAP4	LMO3_HUMAN	LIM domain only 3	77	LIM zinc-binding 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent		zinc ion binding				0		Hepatocellular(102;0.244)				TACAGGCAGCGCAGTTTCCCG	0.413													49	84					0	0	0.01441	0	0		A	16713448	A	A	16713448	2	1	134	1	0	0	0	0	0	0	0	1	8870	1079	38	1		1	LMO3	12	16713448	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1719573	16713448	117138447	1096	73754											
RECQL	5965	broad.mit.edu	37	chr12	21628712	21628712	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcccagattctgcaaactAaccgtaacttgttcagagtc	12	12	6	11	1	2	2	1	0	1	2	4	2	3	2	2	0	4	3	2	0	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:21628712A>G	uc001rex.2	-	10	1344	c.996T>C	c.(994-996)GTT>GTC	p.V332V	RECQL_uc001rey.2_Silent_p.V332V	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	332	Helicase C-terminal.				DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						TCTGCAAACTAACCGTAACTT	0.378								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					4	69					0	0	0.009096	0	0		G	21628712	G	G	21628712	2	3	134	1	0	0	0	0	0	0	0	1	13226	349	13	3		3	RECQL	12	21628712	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4915264	21628712	112223183	1097	73755											
ABCD2	225	broad.mit.edu	37	chr12	40013372	40013372	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttagcagcactcgatcTggtccatttcactcgatcag	8	12	7	14	2	4	0	2	0	2	0	7	2	5	0	2	1	2	2	2	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:40013372T>C	uc001rmb.2	-	1	472	c.46A>G	c.(46-48)AGA>GGA	p.R16G		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	16	Interaction with PEX19.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						GCACTCGATCTGGTCCATTTC	0.473													39	109					0	0	0.011902	0	0		C	40013372	C	C	40013372	3	2	134	1	0	0	0	0	1	0	0	0	61	1588	55	3	2216	3	ABCD2	12	40013372	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	18384660	40013372	93838523	1098	73756											
PRICKLE1	144165	broad.mit.edu	37	chr12	42859016	42859016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaagcaggcttccgtggCgtgccagtgctgcccgtcat	8	8	13	12	3	1	1	1	0	0	1	2	1	2	1	3	2	4	3	3	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:42859016C>T	uc010skv.1	-	7	1107	c.820G>A	c.(820-822)GCC>ACC	p.A274T	PRICKLE1_uc001rnl.2_Missense_Mutation_p.A274T|PRICKLE1_uc010skw.1_Missense_Mutation_p.A274T|PRICKLE1_uc001rnm.2_Missense_Mutation_p.A274T	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	274	LIM zinc-binding 3.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		GCTTCCGTGGCGTGCCAGTGC	0.473													45	72					0	0	0.01441	0	0		T	42859016	T	T	42859016	3	4	134	1	0	0	0	0	1	0	0	0	12508	768	27	1	1683	1	PRICKLE1	12	42859016	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2845644	42859016	90992879	1099	73757											
SLC38A4	55089	broad.mit.edu	37	chr12	47178327	47178327	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaaagtatatccccttacctCcaatgttctgcattgtaatg	12	14	5	10	0	1	0	0	0	1	0	3	0	3	0	4	0	2	4	4	0	7	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:47178327C>T	uc001rpi.2	-	7	890	c.491G>A	c.(490-492)GGA>GAA	p.G164E	SLC38A4_uc001rpj.2_Missense_Mutation_p.G164E|SLC38A4_uc009zkl.2_Missense_Mutation_p.G164E	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	164	Helical; (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Lung SC(27;0.192)|Renal(347;0.236)					CCCCTTACCTCCAATGTTCTG	0.348													65	104					0	0	0.01441	0	0		T	47178327	T	T	47178327	3	4	134	1	0	0	0	0	1	0	0	0	14631	855	30	4	1196	4	SLC38A4	12	47178327	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4319311	47178327	86673568	1100	73758											
ADCY6	112	broad.mit.edu	37	chr12	49167430	49167430	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcatgttcccgatgaagtActgcgggggtggcagaggca	9	7	16	9	2	0	2	0	1	0	1	1	3	1	2	1	4	3	5	1	4	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:49167430A>G	uc001rsh.3	-	15	3103	c.2443T>C	c.(2443-2445)TAC>CAC	p.Y815H	ADCY6_uc001rsj.3_Missense_Mutation_p.Y815H|ADCY6_uc001rsi.3_Missense_Mutation_p.Y762H|ADCY6_uc010slw.1_Missense_Mutation_p.Y46H	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	815	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						CCGATGAAGTACTGCGGGGGT	0.597													13	47					0	0	0.004007	0	0		G	49167430	G	G	49167430	3	3	134	1	0	0	0	0	1	0	0	0	298	405	14	3	1091	3	ADCY6	12	49167430	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1989103	49167430	84684465	1101	73759											
MLL2	8085	broad.mit.edu	37	chr12	49434800	49434800	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacagccaagttatccagCgaggggcagcggggtttgag	9	6	17	9	2	0	1	0	1	0	0	1	2	1	1	2	5	3	4	2	5	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:49434800C>T	uc001rta.3	-	31	6753	c.6753G>A	c.(6751-6753)TCG>TCA	p.S2251S		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2251	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGTTATCCAGCGAGGGGCAGC	0.667			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			20	62					0	0	0.00278	0	0		T	49434800	T	T	49434800	2	4	134	1	0	0	0	0	0	0	0	1	9639	755	27	1		1	MLL2	12	49434800	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	267370	49434800	84417095	1102	73760											
MLL2	8085	broad.mit.edu	37	chr12	49443667	49443667	+	Frame_Shift_Del	DEL	C	-	-																															actccatggacagggagccaCccccctccgggtctggagag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:49443667delC	uc001rta.3	-	11	3704	c.3704delG	c.(3703-3705)GGTfs	p.G1235fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1235					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CAGGGAGCCACCCCCCTCCGG	0.592			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			57	106	---	---	---	---						.	-	49443667	-	-	49443667	7	5	134	1	0	1	0	1	0	0	0	0	9639	507	18	0	13085	0	MLL2	12	49443667	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	8867	49443667	84408228	1103	73761											
MLL2	8085	broad.mit.edu	37	chr12	49448408	49448408	+	Frame_Shift_Del	DEL	C	-	-																															gcctcattgggccctgggctCcccccaggggacaccactgg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:49448408delC	uc001rta.3	-	3	303	c.303delG	c.(301-303)GGGfs	p.G101fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	101					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GCCCTGGGCTCCCCCCAGGGG	0.622			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			10	20	---	---	---	---						.	-	49448408	-	-	49448408	7	5	134	1	0	1	0	1	0	0	0	0	9639	842	30	0	16518	0	MLL2	12	49448408	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	4741	49448408	84403487	1104	73762											
DIP2B	57609	broad.mit.edu	37	chr12	51100412	51100412	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacattgttgctactggatTggctgtagaatcaataaaga	13	13	10	5	0	1	3	1	1	0	2	1	4	1	4	0	2	2	4	0	2	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:51100412T>C	uc001rwv.2	+	21	2654	c.2498T>C	c.(2497-2499)TTG>TCG	p.L833S	DIP2B_uc009zlt.2_Missense_Mutation_p.L263S	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	833						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						GCTACTGGATTGGCTGTAGAA	0.383													74	118					0	0	0.01441	0	0		C	51100412	C	C	51100412	3	2	134	1	0	0	0	0	1	0	0	0	4534	1821	63	3	2580	3	DIP2B	12	51100412	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1652004	51100412	82751483	1105	73763											
SLC4A8	9498	broad.mit.edu	37	chr12	51865099	51865099	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctttcatacctctccctgCgagcttgtattggactgtgg	5	15	9	12	1	3	0	1	0	2	0	4	2	3	1	2	2	3	2	2	2	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:51865099C>T	uc001rys.1	+	14	1865	c.1687C>T	c.(1687-1689)CGA>TGA	p.R563*	SLC4A8_uc010sni.1_Nonsense_Mutation_p.R510*|SLC4A8_uc001rym.2_Nonsense_Mutation_p.R510*|SLC4A8_uc001ryn.2_Nonsense_Mutation_p.R510*|SLC4A8_uc001ryo.2_Nonsense_Mutation_p.R510*|SLC4A8_uc010snj.1_Nonsense_Mutation_p.R590*|SLC4A8_uc001ryq.3_Nonsense_Mutation_p.R563*|SLC4A8_uc001ryr.2_Nonsense_Mutation_p.R563*|SLC4A8_uc010snk.1_Nonsense_Mutation_p.R510*	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	563	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		CCTCTCCCTGCGAGCTTGTAT	0.468													157	233					0	0	0.01441	0	0		T	51865099	T	T	51865099	4	4	134	1	0	0	0	0	0	1	0	0	14684	760	27	1	1741	1	SLC4A8	12	51865099	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	764687	51865099	81986796	1106	73764											
KRT84	3890	broad.mit.edu	37	chr12	52779139	52779139	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccacagccagcaccaaagcgGactccacagtggatgggccg	11	3	12	15	2	0	0	0	0	0	0	1	2	1	2	5	3	3	1	5	3	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:52779139G>A	uc001sah.1	-	1	279	c.231C>T	c.(229-231)GTC>GTT	p.V77V		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	77	Head.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		CACCAAAGCGGACTCCACAGT	0.597													6	182					0	0	0.001984	0	0		A	52779139	A	A	52779139	2	1	134	1	0	0	0	0	0	0	0	1	8514	1161	41	4		4	KRT84	12	52779139	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	914040	52779139	81072756	1107	73765											
KRT74	121391	broad.mit.edu	37	chr12	52960950	52960950	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagctgctactgctgatgaCagctgaggaggaggggccaa	10	7	16	8	0	0	3	0	3	0	0	0	5	0	5	1	4	5	5	1	4	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:52960950C>A	uc001sap.1	-	9	1441	c.1393G>T	c.(1393-1395)GTC>TTC	p.V465F		NM_175053	NP_778223	Q7RTS7	K2C74_HUMAN	keratin 6 irs4	465	Tail.					keratin filament	structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.191)		CTGCTGATGACAGCTGAGGAG	0.607													10	10					4.3838e-07	4.82242e-07	0.001855	1	0		A	52960950	A	A	52960950	3	1	134	1	0	0	0	0	1	0	0	0	8503	478	17	5	200	5	KRT74	12	52960950	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	181811	52960950	80890945	1108	73766											
KRT18	3875	broad.mit.edu	37	chr12	53343180	53343180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccgggggtctggcaggaatgGgaggcatccagaacgagaag	11	4	18	8	2	1	2	0	0	1	2	2	5	2	4	2	6	1	2	2	6	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:53343180G>A	uc001sbe.2	+	2	292	c.223G>A	c.(223-225)GGA>AGA	p.G75R	KRT18_uc009zmn.1_Missense_Mutation_p.G75R|KRT18_uc001sbf.1_5'UTR|KRT18_uc001sbg.2_Missense_Mutation_p.G75R|KRT18_uc009zmo.2_Missense_Mutation_p.G75R|KRT8_uc009zml.1_Intron|KRT8_uc009zmm.1_Intron	NM_199187	NP_954657	P05783	K1C18_HUMAN	keratin 18	75	Head.|Necessary for interaction with PNN.				anatomical structure morphogenesis|cell cycle|Golgi to plasma membrane CFTR protein transport|interspecies interaction between organisms|negative regulation of apoptosis	centriolar satellite|keratin filament|perinuclear region of cytoplasm	protein binding|structural molecule activity			skin(1)	1						GGCAGGAATGGGAGGCATCCA	0.657													35	78					0	0	0.004878	0	0		A	53343180	A	A	53343180	3	1	134	1	0	0	0	0	1	0	0	0	8471	1233	43	4	225	4	KRT18	12	53343180	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	382230	53343180	80508715	1109	73767											
AMHR2	269	broad.mit.edu	37	chr12	53818978	53818978	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggatggcactggtgctgCtggggctgttcctcctcctc	2	13	13	13	0	1	0	0	0	1	0	5	1	4	1	3	5	2	5	3	5	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:53818978C>T	uc001scx.1	+	4	532	c.454C>T	c.(454-456)CTG>TTG	p.L152L	AMHR2_uc009zmy.1_Silent_p.L152L	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	152	Helical; (Potential).				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	ACTGGTGCTGCTGGGGCTGTT	0.577									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				54	103					0	0	0.01441	0	0		T	53818978	T	T	53818978	2	4	134	1	0	0	0	0	0	0	0	1	573	796	28	2		2	AMHR2	12	53818978	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	475798	53818978	80032917	1110	73768											
ITGA5	3678	broad.mit.edu	37	chr12	54801974	54801974	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttgatcaggtactcggggTaataagattctgcaatctgc	10	12	12	7	1	3	2	1	1	2	1	4	2	3	2	0	4	3	4	0	4	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:54801974T>C	uc001sga.2	-	7	805	c.737A>G	c.(736-738)TAC>TGC	p.Y246C	ITGA5_uc010sow.1_RNA|ITGA5_uc009znp.1_RNA	NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	246	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						GTACTCGGGGTAATAAGATTC	0.547													21	54					0	0	0.003954	0	0		C	54801974	C	C	54801974	3	2	134	1	0	0	0	0	1	0	0	0	7895	1638	57	3	2508	3	ITGA5	12	54801974	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	982996	54801974	79049921	1111	73769											
LACRT	90070	broad.mit.edu	37	chr12	55025549	55025549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattgttttccacctggcaCgcctccgtgcattccttttc	5	15	7	14	2	0	0	0	0	0	0	4	1	3	0	5	1	1	3	5	1	1	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:55025549C>T	uc001sgi.1	-	4	366	c.328G>A	c.(328-330)GTG>ATG	p.V110M		NM_033277	NP_150593	Q9GZZ8	LACRT_HUMAN	lacritin precursor	110					calcineurin-NFAT signaling pathway|positive regulation of epithelial cell proliferation|positive regulation of NFAT protein import into nucleus|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of secretion|protein localization in Golgi apparatus|tear secretion	extracellular region|stored secretory granule	collagen binding|fibronectin binding|glycoprotein binding|growth factor activity|laminin-1 binding|protein N-terminus binding			central_nervous_system(1)	1						CCACCTGGCACGCCTCCGTGC	0.468													12	322					0	0	0.003163	0	0		T	55025549	T	T	55025549	3	4	134	1	0	0	0	0	1	0	0	0	8612	536	19	1	96	1	LACRT	12	55025549	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	223575	55025549	78826346	1112	73770											
DGKA	1606	broad.mit.edu	37	chr12	56333930	56333930	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtgaagtcagcacctaTgccaagtctcggaaggacat	11	9	10	11	1	2	1	1	1	1	0	3	3	2	3	3	2	2	1	3	2	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:56333930T>C	uc001sij.2	+	10	1038	c.774T>C	c.(772-774)TAT>TAC	p.Y258Y	DGKA_uc009zoc.1_Silent_p.Y258Y|DGKA_uc001sih.1_Silent_p.Y146Y|DGKA_uc001sii.1_Silent_p.Y116Y|DGKA_uc009zod.1_Silent_p.Y177Y|DGKA_uc009zoe.1_3'UTR|DGKA_uc001sik.2_Silent_p.Y258Y|DGKA_uc001sil.2_Silent_p.Y258Y|DGKA_uc001sim.2_Silent_p.Y258Y|DGKA_uc001sin.2_Silent_p.Y258Y|DGKA_uc009zof.2_Intron|DGKA_uc001sio.2_Missense_Mutation_p.M1T	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	258					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	TCAGCACCTATGCCAAGTCTC	0.557											OREG0021913	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	225					0	0	0.001168	0	0		C	56333930	C	C	56333930	2	2	134	1	0	0	0	0	0	0	0	1	4471	1471	51	3		3	DGKA	12	56333930	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1308381	56333930	77517965	1113	73771											
ERBB3	2065	broad.mit.edu	37	chr12	56489571	56489571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaataaaagggctatgaggcGatacttggaacggggtgagg	13	7	17	4	2	0	2	0	2	0	0	0	5	0	3	0	6	2	1	0	6	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:56489571G>A	uc001sjh.2	+	17	2229	c.2036G>A	c.(2035-2037)CGA>CAA	p.R679Q	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Missense_Mutation_p.R36Q|ERBB3_uc010sqc.1_Missense_Mutation_p.R620Q|ERBB3_uc009zok.2_Missense_Mutation_p.R121Q|ERBB3_uc001sjk.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	679	Cytoplasmic (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			GCTATGAGGCGATACTTGGAA	0.433													74	129					0	0	0.01441	0	0		A	56489571	A	A	56489571	3	1	134	1	0	0	0	0	1	0	0	0	5216	1058	37	1	2233	1	ERBB3	12	56489571	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	155641	56489571	77362324	1114	73772											
ANKRD52	283373	broad.mit.edu	37	chr12	56642611	56642611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgtagccctgcctgtcccGcagggaggggtctgcaccgt	4	9	15	13	2	1	0	0	0	1	0	2	1	2	1	4	3	3	3	4	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:56642611G>A	uc001skm.3	-	16	1726	c.1636C>T	c.(1636-1638)CGG>TGG	p.R546W		NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	546							protein binding			ovary(2)	2						TGCCTGTCCCGCAGGGAGGGG	0.637													4	8					0	0	0.001984	0	0		A	56642611	A	A	56642611	3	1	134	1	0	0	0	0	1	0	0	0	678	1086	38	1	1646	1	ANKRD52	12	56642611	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	153040	56642611	77209284	1115	73773											
PAN2	9924	broad.mit.edu	37	chr12	56717372	56717372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggcagatggcggatgttgCgggtctgaatctgagaggaa	9	9	17	6	2	2	3	0	2	2	2	2	6	2	5	0	5	1	2	0	5	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:56717372C>T	uc001skx.2	-	15	2568	c.2195G>A	c.(2194-2196)CGC>CAC	p.R732H	PAN2_uc001skw.2_5'UTR|PAN2_uc001skz.2_Missense_Mutation_p.R731H|PAN2_uc001sky.2_Missense_Mutation_p.R728H	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	732					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						GCGGATGTTGCGGGTCTGAAT	0.488													32	79					0	0	0.010818	0	0		T	56717372	T	T	56717372	3	4	134	1	0	0	0	0	1	0	0	0	11433	768	27	1	1461	1	PAN2	12	56717372	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	74761	56717372	77134523	1116	73774											
MYO1A	4640	broad.mit.edu	37	chr12	57435035	57435035	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacctgctgcagcttctcaTtgcagtagttgatcacaaat	11	12	7	11	0	2	1	2	1	1	0	3	1	2	1	1	0	4	6	1	0	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:57435035T>A	uc001smw.3	-	14	1445	c.1202A>T	c.(1201-1203)AAT>ATT	p.N401I	MYO1A_uc010sqz.1_Missense_Mutation_p.N239I|MYO1A_uc009zpd.2_Missense_Mutation_p.N401I	NM_005379	NP_005370	Q9UBC5	MYO1A_HUMAN	myosin IA	401	Myosin head-like.				sensory perception of sound|vesicle localization	brush border|cortical actin cytoskeleton|filamentous actin|lateral plasma membrane|microvillus|myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|urinary_tract(1)	7						CAGCTTCTCATTGCAGTAGTT	0.443													47	85					0	0	0.01441	0	0		A	57435035	A	A	57435035	3	1	134	1	0	0	0	0	1	0	0	0	10086	1493	52	5	1989	5	MYO1A	12	57435035	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	717663	57435035	76416860	1117	73775											
ARHGAP9	64333	broad.mit.edu	37	chr12	57871291	57871291	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggacttgcagccagtcAgtgaatttatgtagaagcag	12	10	11	8	0	1	2	1	1	0	1	2	3	2	3	2	1	3	3	2	1	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:57871291A>G	uc001sod.2	-	7	1113	c.920T>C	c.(919-921)CTG>CCG	p.L307P	ARHGAP9_uc001sny.2_5'Flank|ARHGAP9_uc001snz.2_Missense_Mutation_p.L52P|ARHGAP9_uc001soa.2_5'UTR|ARHGAP9_uc001sob.2_Missense_Mutation_p.L236P|ARHGAP9_uc001soc.2_Missense_Mutation_p.L236P|ARHGAP9_uc001soe.1_Missense_Mutation_p.L315P|ARHGAP9_uc010sro.1_Missense_Mutation_p.L236P	NM_032496	NP_115885	Q9BRR9	RHG09_HUMAN	Rho GTPase activating protein 9 isoform 1	236	WW.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			lung(1)	1			GBM - Glioblastoma multiforme(3;3.37e-34)			GCAGCCAGTCAGTGAATTTAT	0.632													31	75					0	0	0.004878	0	0		G	57871291	G	G	57871291	3	3	134	1	0	0	0	0	1	0	0	0	889	188	7	3	1548	3	ARHGAP9	12	57871291	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	436256	57871291	75980604	1118	73776											
DCTN2	10540	broad.mit.edu	37	chr12	57924555	57924555	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttttcacgcatggttgtctGcacctacaaagtggtagaga	10	12	11	8	1	2	1	1	0	1	1	2	2	2	1	1	2	2	5	1	2	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:57924555G>A	uc001som.1	-	14	1255	c.1123C>T	c.(1123-1125)CAG>TAG	p.Q375*	DCTN2_uc009zpu.1_Nonsense_Mutation_p.Q380*|DCTN2_uc009zpv.1_Nonsense_Mutation_p.Q288*|DCTN2_uc009zpw.1_Nonsense_Mutation_p.Q288*|DCTN2_uc001soo.1_RNA|DCTN2_uc001son.1_Nonsense_Mutation_p.Q288*|DCTN2_uc001sop.1_Nonsense_Mutation_p.Q288*|DCTN2_uc001soq.1_RNA|DCTN2_uc009zpx.1_Nonsense_Mutation_p.Q351*	NM_006400	NP_006391	Q13561	DCTN2_HUMAN	dynactin 2	375					cell proliferation|G2/M transition of mitotic cell cycle|mitosis	centrosome|cytosol|dynactin complex|dynein complex|kinetochore|membrane|microtubule|vesicle	motor activity|protein binding			ovary(1)	1						ATGGTTGTCTGCACCTACAAA	0.478													73	127					0	0	0.01441	0	0		A	57924555	A	A	57924555	4	1	134	1	0	0	0	0	0	1	0	0	4310	1328	46	2	86	2	DCTN2	12	57924555	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	53264	57924555	75927340	1119	73777											
MON2	23041	broad.mit.edu	37	chr12	62943509	62943509	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtgacagattttctaccaAcaatgccttgtacttgcctg	9	15	7	10	0	1	2	0	1	1	1	1	2	1	2	3	0	5	1	3	0	4	7	rs71465159		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:62943509A>G	uc001sre.2	+	23	3206	c.2815A>G	c.(2815-2817)ACA>GCA	p.T939A	MON2_uc009zqj.2_Missense_Mutation_p.T939A|MON2_uc010ssl.1_Missense_Mutation_p.T867A|MON2_uc010ssm.1_Missense_Mutation_p.T916A|MON2_uc010ssn.1_Missense_Mutation_p.T939A|MON2_uc001srf.2_Missense_Mutation_p.T702A	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	940					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		TTTTCTACCAACAATGCCTTG	0.358													5	231					0	0	0.001168	0	0		G	62943509	G	G	62943509	3	3	134	1	0	0	0	0	1	0	0	0	9718	43	2	3	2905	3	MON2	12	62943509	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	5018954	62943509	70908386	1120	73778											
MON2	23041	broad.mit.edu	37	chr12	62954787	62954787	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcacagtgctatttcagTcccaataagttcagatgcat	12	13	7	9	0	2	1	2	0	0	1	3	1	3	1	1	0	3	4	1	0	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:62954787T>C	uc001sre.2	+	26	4317	c.3926T>C	c.(3925-3927)GTC>GCC	p.V1309A	MON2_uc009zqj.2_Missense_Mutation_p.V1309A|MON2_uc010ssl.1_Missense_Mutation_p.V1237A|MON2_uc010ssm.1_Missense_Mutation_p.V1286A|MON2_uc010ssn.1_Missense_Mutation_p.V1309A|MON2_uc001srf.2_Missense_Mutation_p.V1072A|MON2_uc001srg.2_Missense_Mutation_p.V184A	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	1310					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		GCTATTTCAGTCCCAATAAGT	0.373													42	178					0	0	0.01441	0	0		C	62954787	C	C	62954787	3	2	134	1	0	0	0	0	1	0	0	0	9718	1667	58	3	4028	3	MON2	12	62954787	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	11278	62954787	70897108	1121	73779											
SRGAP1	57522	broad.mit.edu	37	chr12	64377821	64377821	+	Frame_Shift_Del	DEL	A	-	-																															gatctgcaagatttcttccgAaaaaaagctgaaattgagac																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:64377821delA	uc010ssp.1	+	2	218	c.162delA	c.(160-162)CGAfs	p.R54fs	SRGAP1_uc001srt.2_Frame_Shift_Del_p.R54fs|SRGAP1_uc001srv.2_Frame_Shift_Del_p.R14fs	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	54	FCH.				axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		ATTTCTTCCGAAAAAAAGCTG	0.418													87	162	---	---	---	---						.	-	64377821	-	-	64377821	7	5	134	1	0	1	0	1	0	0	0	0	15170	233	9	0	168	0	SRGAP1	12	64377821	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	1423034	64377821	69474074	1122	73780											
HMGA2	8091	broad.mit.edu	37	chr12	66221835	66221835	+	Frame_Shift_Del	DEL	A	-	-																															ggggaagacccaaaggcagcAaaaacaagagtccctctaaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:66221835delA	uc001ssx.2	+	2	977	c.166delA	c.(166-168)AAAfs	p.K56fs	RPSAP52_uc001sso.2_5'Flank|HMGA2_uc001ssw.1_Frame_Shift_Del_p.K56fs|HMGA2_uc001ssp.1_RNA|HMGA2_uc010ssv.1_RNA|HMGA2_uc001sss.1_RNA|HMGA2_uc001sst.1_Frame_Shift_Del_p.K56fs|HMGA2_uc001ssu.1_Frame_Shift_Del_p.K56fs|HMGA2_uc001ssv.2_Frame_Shift_Del_p.K56fs	NM_003483	NP_003474	P52926	HMGA2_HUMAN	high mobility group AT-hook 2 isoform a	56	Interaction with E4F1.				cell division|chromatin organization|mitosis|multicellular organismal development|regulation of growth|transcription, DNA-dependent	chromatin	AT DNA binding		HMGA2/LPP(161)|HMGA2/WIF1_ENST00000286574(14)|HMGA2/RAD51B(11)|HMGA2/NFIB_ENST00000397581(8)|HMGA2/FHIT_ENST00000476844(4)|HMGA2/CCNB1IP1(2)|HMGA2/ALDH2_ENST00000261733(2)|HMGA2/EBF1(2)|HMGA2/LHFP(2)|HMGA2/COX6C(2)	soft_tissue(159)|bone(27)|salivary_gland(22)	208	all_cancers(1;5.78e-46)		GBM - Glioblastoma multiforme(1;0.00179)|LUSC - Lung squamous cell carcinoma(43;0.156)	GBM - Glioblastoma multiforme(28;0.0386)		CAAAGGCAGCAAAAACAAGAG	0.463			T	LHFP|RAD51L1|LPP|HEI10|COX6C|CMKOR1|NFIB|ALDH2|CCNB1IP1|EBF1|WIF1|FHIT	lipoma|leiomyoma|pleiomorphic salivary gland adenoma								49	96	---	---	---	---						.	-	66221835	-	-	66221835	7	5	134	1	0	1	0	1	0	0	0	0	7240	131	5	0	172	0	HMGA2	12	66221835	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	1844014	66221835	67630060	1123	73781											
RAP1B	5908	broad.mit.edu	37	chr12	69050939	69050939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagtgcctgggaaggctcGcaaaaagtcatcatgtcagc	11	8	11	11	1	3	0	3	0	0	0	5	1	4	1	2	2	2	2	2	2	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:69050939G>A	uc001sub.2	+	7	690	c.527G>A	c.(526-528)CGC>CAC	p.R176H	RAP1B_uc010ste.1_Missense_Mutation_p.R110H|RAP1B_uc001suc.2_Missense_Mutation_p.R176H|RAP1B_uc010stf.1_Missense_Mutation_p.R157H|RAP1B_uc010stg.1_Missense_Mutation_p.R134H|RAP1B_uc010sth.1_Missense_Mutation_p.R134H|RAP1B_uc010sti.1_Missense_Mutation_p.R129H	NM_001089704	NP_001083173	P61224	RAP1B_HUMAN	SubName: Full=Ras-related protein Rap-1A; SubName: Full=cDNA FLJ75985, highly similar to Homo sapiens RAP1A, member of RAS oncogene family (RAP1A), transcript variant 2, mRNA; SubName: Full=RAP1A, member of RAS oncogene family;	176					blood coagulation|energy reserve metabolic process|regulation of establishment of cell polarity|regulation of insulin secretion	cell-cell junction|cytosol	GDP binding|GTP binding|GTPase activity|protein binding				0	Breast(13;1.24e-05)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)	GBM - Glioblastoma multiforme(7;0.000306)		GGGAAGGCTCGCAAAAAGTCA	0.378													98	198					0	0	0.01441	0	0		A	69050939	A	A	69050939	3	1	134	1	0	0	0	0	1	0	0	0	13061	1087	38	1	549	1	RAP1B	12	69050939	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2829104	69050939	64800956	1124	73782											
RAB3IP	117177	broad.mit.edu	37	chr12	70149312	70149312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaccaagtgtcatctacCggccacacccttcagcttta	9	10	5	17	1	4	0	3	0	1	0	4	0	4	0	5	1	2	1	5	1	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:70149312C>T	uc001svp.2	+	2	619	c.172C>T	c.(172-174)CGG>TGG	p.R58W	RAB3IP_uc001svl.1_Missense_Mutation_p.R42W|RAB3IP_uc001svm.2_Missense_Mutation_p.R42W|RAB3IP_uc001svn.2_Missense_Mutation_p.R42W|RAB3IP_uc001svo.2_RNA|RAB3IP_uc001svq.2_Missense_Mutation_p.R58W|RAB3IP_uc001svr.2_RNA|RAB3IP_uc001svs.2_RNA	NM_175623	NP_783322	Q96QF0	RAB3I_HUMAN	RAB3A interacting protein isoform alpha 2	58					cilium assembly|Golgi to plasma membrane transport|protein localization to organelle|protein transport	actin cortical patch|centrosome|cytosol|lamellipodium|microtubule basal body|nucleus	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Esophageal squamous(21;0.187)		Lung(24;0.000381)|OV - Ovarian serous cystadenocarcinoma(12;0.00168)|STAD - Stomach adenocarcinoma(21;0.00694)			TGTCATCTACCGGCCACACCC	0.468													64	118					0	0	0.01441	0	0		T	70149312	T	T	70149312	3	4	134	1	0	0	0	0	1	0	0	0	12963	643	23	1	178	1	RAB3IP	12	70149312	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1098373	70149312	63702583	1125	73783											
NAP1L1	4673	broad.mit.edu	37	chr12	76453978	76453978	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagatcgtgaacttcctcAtagaatttggcttctatctg	10	15	7	9	1	4	3	2	1	2	2	6	3	5	3	1	1	1	1	1	1	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:76453978A>G	uc001sxw.2	-	5	700	c.288T>C	c.(286-288)TAT>TAC	p.Y96Y	NAP1L1_uc001sxv.2_Silent_p.Y54Y|NAP1L1_uc001sxz.2_Silent_p.Y54Y|NAP1L1_uc001sxx.2_Silent_p.Y96Y|NAP1L1_uc001sxy.2_Silent_p.Y33Y|NAP1L1_uc010sty.1_Silent_p.Y54Y|NAP1L1_uc010stz.1_5'UTR|NAP1L1_uc010sua.1_Silent_p.Y96Y|NAP1L1_uc001syb.2_Silent_p.Y96Y|NAP1L1_uc001sya.2_Silent_p.Y54Y|NAP1L1_uc001syc.2_Silent_p.Y96Y	NM_139207	NP_631946	P55209	NP1L1_HUMAN	nucleosome assembly protein 1-like 1	96					DNA replication|nucleosome assembly|positive regulation of cell proliferation	chromatin assembly complex|melanosome	protein binding			ovary(1)|skin(1)	2		Colorectal(145;0.09)				GAACTTCCTCATAGAATTTGG	0.373													72	90					0	0	0.01441	0	0		G	76453978	G	G	76453978	2	3	134	1	0	0	0	0	0	0	0	1	10174	224	8	3		3	NAP1L1	12	76453978	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	6304666	76453978	57397917	1126	73784											
BBS10	79738	broad.mit.edu	37	chr12	76740960	76740960	+	Frame_Shift_Del	DEL	A	-	-																															aaactctgatccagaagtggAaaaaagaggctgaatggttt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:76740960delA	uc001syd.1	-	2	889	c.805delT	c.(805-807)TCCfs	p.S269fs		NM_024685	NP_078961	Q8TAM1	BBS10_HUMAN	Bardet-Biedl syndrome 10	269					cellular protein metabolic process|nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	cilium	ATP binding			ovary(1)|skin(1)	2						CCAGAAGTGGAAAAAAGAGGC	0.383									Bardet-Biedl_syndrome				26	46	---	---	---	---						.	-	76740960	-	-	76740960	7	5	134	1	0	1	0	1	0	0	0	0	1337	246	9	0	1370	0	BBS10	12	76740960	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	286982	76740960	57110935	1127	73785											
NAV3	89795	broad.mit.edu	37	chr12	78513556	78513556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgctcgagtcctgtcaccGtcaaccaaacagacaaggaa	13	5	10	13	3	2	1	2	0	0	1	4	3	3	2	3	2	2	1	3	2	4	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:78513556G>A	uc001syp.2	+	15	3753	c.3580G>A	c.(3580-3582)GTC>ATC	p.V1194I	NAV3_uc001syo.2_Missense_Mutation_p.V1194I|NAV3_uc010sub.1_Missense_Mutation_p.V694I|NAV3_uc009zsf.2_Missense_Mutation_p.V202I	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1194	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TCCTGTCACCGTCAACCAAAC	0.512										HNSCC(70;0.22)			51	87					0	0	0.01441	0	0		A	78513556	A	A	78513556	3	1	134	1	0	0	0	0	1	0	0	0	10203	1145	40	1	3638	1	NAV3	12	78513556	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1772596	78513556	55338339	1128	73786											
PPFIA2	8499	broad.mit.edu	37	chr12	81688718	81688718	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctgattccaatttctcTctggatctcagtgtcagata	9	16	7	9	0	4	2	2	1	3	1	7	3	5	3	1	1	1	1	1	1	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:81688718T>C	uc001szo.1	-	24	2982	c.2821A>G	c.(2821-2823)AGA>GGA	p.R941G	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	867										ovary(3)|lung(2)|pancreas(1)	6						CCAATTTCTCTCTGGATCTCA	0.498													14	35					0	0	0.00245	0	0		C	81688718	C	C	81688718	3	2	134	1	0	0	0	0	1	0	0	0	12329	1559	54	3	988	3	PPFIA2	12	81688718	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3175162	81688718	52163177	1129	73787											
PPFIA2	8499	broad.mit.edu	37	chr12	81839401	81839401	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgagaacttcaacttcactGgatactcctgagggagactg	11	11	10	9	0	2	3	2	2	0	2	3	6	3	4	1	2	3	0	1	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:81839401G>T	uc001szo.1	-	6	665	c.504C>A	c.(502-504)TCC>TCA	p.S168S	PPFIA2_uc010sue.1_Silent_p.S68S|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	94										ovary(3)|lung(2)|pancreas(1)	6						CAACTTCACTGGATACTCCTG	0.438													31	60					5.90632e-09	6.53659e-09	0.012213	1	0		T	81839401	T	T	81839401	2	4	134	1	0	0	0	0	0	0	0	1	12329	1335	47	5		5	PPFIA2	12	81839401	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	150683	81839401	52012494	1130	73788											
LRRIQ1	84125	broad.mit.edu	37	chr12	85449618	85449618	+	Frame_Shift_Del	DEL	A	-	-																															caaaggataaaagaagagagAaaaaagcaaaaggaagagga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:85449618delA	uc001tac.2	+	8	1158	c.1047delA	c.(1045-1047)AGAfs	p.R349fs	LRRIQ1_uc001tab.1_Frame_Shift_Del_p.R349fs|LRRIQ1_uc001taa.1_Frame_Shift_Del_p.R324fs	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	349	Glu-rich.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		aagaagagagaaaaaagcaaa	0.07													9	18	---	---	---	---						.	-	85449618	-	-	85449618	7	5	134	1	0	1	0	1	0	0	0	0	9047	243	9	0	1073	0	LRRIQ1	12	85449618	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	3610217	85449618	48402277	1131	73789											
CCDC41	51134	broad.mit.edu	37	chr12	94772812	94772812	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctttatcttcctccagtcTtgcaatctaataataatttt	10	20	2	9	0	4	0	0	0	4	0	6	0	6	0	2	0	1	1	2	0	5	10			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:94772812T>C	uc001tdd.2	-	7	1142	c.556A>G	c.(556-558)AGA>GGA	p.R186G	CCDC41_uc001tde.2_Missense_Mutation_p.R186G|CCDC41_uc009zsw.1_RNA|CCDC41_uc001tdf.2_Missense_Mutation_p.R186G	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen	178	Potential.										0						TCCTCCAGTCTTGCAATCTAA	0.318													48	88					0	0	0.01441	0	0		C	94772812	C	C	94772812	3	2	134	1	0	0	0	0	1	0	0	0	2816	1617	56	3	1593	3	CCDC41	12	94772812	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	9323194	94772812	39079083	1132	73790											
CCDC38	120935	broad.mit.edu	37	chr12	96288828	96288828	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcctgtgctctttttagTgcttgctggatttgccaatg	5	17	11	8	0	1	0	0	0	1	0	1	2	1	1	2	1	5	3	2	1	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:96288828T>C	uc001tek.1	-	8	945	c.711A>G	c.(709-711)GCA>GCG	p.A237A		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	237										skin(1)	1						CTCTTTTTAGTGCTTGCTGGA	0.338													9	380					0	0	0.006214	0	0		C	96288828	C	C	96288828	2	2	134	1	0	0	0	0	0	0	0	1	2813	1683	59	3		3	CCDC38	12	96288828	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1516016	96288828	37563067	1133	73791											
IKBIP	121457	broad.mit.edu	37	chr12	99007899	99007899	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatatctgtttttacacttgTaatcttgagaccaacatctt	11	18	4	8	0	3	1	0	1	3	1	3	2	3	1	1	0	2	2	1	0	5	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:99007899T>C	uc001tfv.2	-	3	627	c.517A>G	c.(517-519)ACA>GCA	p.T173A	IKBIP_uc001tfw.2_3'UTR	NM_201612	NP_963906	Q70UQ0	IKIP_HUMAN	IKK interacting protein isoform 2	173					induction of apoptosis|response to X-ray	endoplasmic reticulum membrane|integral to membrane	protein binding				0						TTTACACTTGTAATCTTGAGA	0.348													6	131					0	0	0.001168	0	0		C	99007899	C	C	99007899	3	2	134	1	0	0	0	0	1	0	0	0	7625	1638	57	3	539	3	IKBIP	12	99007899	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2719071	99007899	34843996	1134	73792											
GAS2L3	283431	broad.mit.edu	37	chr12	100994275	100994275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatagctgtgaggcatgaagCcactttgttgcccatgcaag	10	10	12	9	0	0	2	0	2	0	0	0	3	0	2	2	1	4	4	2	1	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:100994275C>T	uc001thu.2	+	4	360	c.134C>T	c.(133-135)GCC>GTC	p.A45V	GAS2L3_uc009zty.2_Missense_Mutation_p.A45V|GAS2L3_uc001thv.2_5'UTR	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	45					cell cycle arrest					skin(1)	1						AGGCATGAAGCCACTTTGTTG	0.428													6	266					0	0	0.001984	0	0		T	100994275	T	T	100994275	3	4	134	1	0	0	0	0	1	0	0	0	6263	739	26	2	140	2	GAS2L3	12	100994275	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1986376	100994275	32857620	1135	73793											
NT5DC3	51559	broad.mit.edu	37	chr12	104200659	104200659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacatcataatgaagtccacGaattgcaaaatttgggtcat	15	12	7	7	1	2	1	2	1	0	0	3	2	3	1	1	1	2	1	1	1	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:104200659G>A	uc010swe.1	-	3	483	c.442C>T	c.(442-444)CGT>TGT	p.R148C		NM_001031701	NP_001026871	Q86UY8	NT5D3_HUMAN	5'-nucleotidase domain containing 3	148							hydrolase activity|metal ion binding			ovary(2)|skin(1)	3						TGAAGTCCACGAATTGCAAAA	0.373													22	49					0	0	0.00278	0	0		A	104200659	A	A	104200659	3	1	134	1	0	0	0	0	1	0	0	0	10711	1058	37	1	1252	1	NT5DC3	12	104200659	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3206384	104200659	29651236	1136	73794											
ASCL4	121549	broad.mit.edu	37	chr12	108169229	108169229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccttcctccgcaagcgcaaCgagcgcgagcggcagcgggt	7	4	15	15	7	0	0	0	0	0	0	2	2	2	0	3	2	5	3	3	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:108169229C>T	uc001tmr.2	+	1	1068	c.237C>T	c.(235-237)AAC>AAT	p.N79N		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	78	Basic motif.				regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						GCAAGCGCAACGAGCGCGAGC	0.716													3	6					0	0	0.001168	0	0		T	108169229	T	T	108169229	2	4	134	1	0	0	0	0	0	0	0	1	1037	535	19	1		1	ASCL4	12	108169229	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3968570	108169229	25682666	1137	73795											
DAO	1610	broad.mit.edu	37	chr12	109278888	109278888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggacataaaggtctacGcggaccgcttcaccccactc	10	7	8	16	3	2	0	1	0	1	0	3	2	2	2	3	3	1	1	3	3	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:109278888G>A	uc001tnr.3	+	2	259	c.106G>A	c.(106-108)GCG>ACG	p.A36T	DAO_uc001tnq.3_Missense_Mutation_p.A36T|DAO_uc009zvb.2_RNA|DAO_uc001tns.3_RNA	NM_001917	NP_001908	P14920	OXDA_HUMAN	D-amino-acid oxidase	36					glyoxylate metabolic process	peroxisomal matrix	binding|D-amino-acid oxidase activity			ovary(1)|skin(1)	2						AAAGGTCTACGCGGACCGCTT	0.622													60	90					0	0	0.01441	0	0		A	109278888	A	A	109278888	3	1	134	1	0	0	0	0	1	0	0	0	4234	1087	38	1	108	1	DAO	12	109278888	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1109659	109278888	24573007	1138	73796											
ACACB	32	broad.mit.edu	37	chr12	109702084	109702084	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggacctggagggccggCtaaaggctcgcgaggacctg	10	4	17	10	3	0	0	0	0	0	0	1	5	0	3	3	6	0	2	3	6	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:109702084C>T	uc001tob.2	+	50	6954	c.6835C>T	c.(6835-6837)CTA>TTA	p.L2279L	ACACB_uc001toc.2_Silent_p.L2279L|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Silent_p.L945L	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	2279	Carboxyltransferase.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GGAGGGCCGGCTAAAGGCTCG	0.612											OREG0022102	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	92	183					0	0	0.01441	0	0		T	109702084	T	T	109702084	2	4	134	1	0	0	0	0	0	0	0	1	107	796	28	2		2	ACACB	12	109702084	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	423196	109702084	24149811	1139	73797											
MVK	4598	broad.mit.edu	37	chr12	110019240	110019240	+	Frame_Shift_Del	DEL	C	-	-																															tcgtagtgtggtcggagctgCcccccggggcgggcttgggc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:110019240delC	uc001toy.3	+	5	596	c.412delC	c.(412-414)CCCfs	p.P138fs	MVK_uc009zvk.2_Frame_Shift_Del_p.P138fs|MVK_uc010sxr.1_Intron|MVK_uc001toz.3_Intron|MVK_uc001tpc.3_RNA	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase	138	ATP (By similarity).				cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0						GTCGGAGCTGCCCCCCGGGGC	0.667													52	121	---	---	---	---						.	-	110019240	-	-	110019240	7	5	134	1	0	1	0	1	0	0	0	0	10013	739	26	0	426	0	MVK	12	110019240	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	317156	110019240	23832655	1140	73798											
TRPV4	59341	broad.mit.edu	37	chr12	110232159	110232159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctccagcggctggtagtagGcggtgagagtgaagatgacc	9	7	16	9	2	0	4	0	3	0	2	1	5	1	4	3	4	1	3	3	4	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:110232159G>A	uc001tpj.1	-	7	1561	c.1466C>T	c.(1465-1467)GCC>GTC	p.A489V	TRPV4_uc001tpg.1_Missense_Mutation_p.A455V|TRPV4_uc001tph.1_Missense_Mutation_p.A442V|TRPV4_uc001tpi.1_Missense_Mutation_p.A382V|TRPV4_uc001tpk.1_Missense_Mutation_p.A489V|TRPV4_uc001tpl.1_Missense_Mutation_p.A429V	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	489	Extracellular (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CTGGTAGTAGGCGGTGAGAGT	0.627													31	67					0	0	0.003755	0	0		A	110232159	A	A	110232159	3	1	134	1	0	0	0	0	1	0	0	0	16624	1203	42	2	1185	2	TRPV4	12	110232159	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	212919	110232159	23619736	1141	73799											
TRPV4	59341	broad.mit.edu	37	chr12	110240832	110240832	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acggaagggcgagttaatgaActccctcatgttgccggtgc	9	9	13	10	3	1	1	1	1	0	0	2	3	2	2	2	3	3	2	2	3	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:110240832A>G	uc001tpj.1	-	3	771	c.676T>C	c.(676-678)TTC>CTC	p.F226L	TRPV4_uc001tpg.1_Missense_Mutation_p.F192L|TRPV4_uc001tph.1_Missense_Mutation_p.F226L|TRPV4_uc001tpi.1_Missense_Mutation_p.F226L|TRPV4_uc001tpk.1_Missense_Mutation_p.F226L|TRPV4_uc001tpl.1_Missense_Mutation_p.F226L	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	226	Cytoplasmic (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						GAGTTAATGAACTCCCTCATG	0.627													23	43					0	0	0.014323	0	0		G	110240832	G	G	110240832	3	3	134	1	0	0	0	0	1	0	0	0	16624	43	2	3	1991	3	TRPV4	12	110240832	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	8673	110240832	23611063	1142	73800											
GLTP	51228	broad.mit.edu	37	chr12	110293442	110293442	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctggaagatcttctgcacGatccagccatggtacttctt	9	12	8	12	1	3	1	0	0	3	1	4	3	4	2	3	2	3	2	3	2	2	4	rs138733952		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:110293442G>A	uc001tpm.2	-	4	543	c.429C>T	c.(427-429)ATC>ATT	p.I143I	GLTP_uc010sxt.1_RNA	NM_016433	NP_057517	Q9NZD2	GLTP_HUMAN	glycolipid transfer protein	143						cytoplasm	glycolipid binding|glycolipid transporter activity				0		Lung NSC(355;2.38e-06)|Breast(359;0.00354)|Myeloproliferative disorder(1001;0.0122)		BRCA - Breast invasive adenocarcinoma(302;0.0025)		TCTTCTGCACGATCCAGCCAT	0.617													36	58					0	0	0.007835	0	0		A	110293442	A	A	110293442	2	1	134	1	0	0	0	0	0	0	0	1	6486	1048	37	1		1	GLTP	12	110293442	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	52610	110293442	23558453	1143	73801											
NOS1	4842	broad.mit.edu	37	chr12	117703230	117703230	+	Frame_Shift_Del	DEL	C	-	-																															acacccagtcggcagggcagCccccccggcagcggtactca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:117703230delC	uc001twm.1	-	12	2713	c.2027delG	c.(2026-2028)GGCfs	p.G676fs		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	676					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GGCAGGGCAGCCCCCCCGGCA	0.602													18	16	---	---	---	---						.	-	117703230	-	-	117703230	7	5	134	1	0	1	0	1	0	0	0	0	10560	739	26	0	2349	0	NOS1	12	117703230	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	7409788	117703230	16148665	1144	73802											
WSB2	55884	broad.mit.edu	37	chr12	118481123	118481123	+	Frame_Shift_Del	DEL	C	-	-																															gcgtcttctcttttgggctgCcccgccctttcgtctcattt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:118481123delC	uc001twr.2	-	3	340	c.242delG	c.(241-243)GGCfs	p.G81fs	WSB2_uc010sza.1_5'UTR|WSB2_uc010szb.1_Intron|WSB2_uc009zws.1_Frame_Shift_Del_p.G81fs	NM_018639	NP_061109	Q9NYS7	WSB2_HUMAN	WD SOCS-box protein 2	81					intracellular signal transduction					ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TTTTGGGCTGCCCCGCCCTTT	0.542													101	192	---	---	---	---						.	-	118481123	-	-	118481123	7	5	134	1	0	1	0	1	0	0	0	0	17431	739	26	0	1000	0	WSB2	12	118481123	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	777893	118481123	15370772	1145	73803											
SUDS3	64426	broad.mit.edu	37	chr12	118841306	118841306	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatagaagatggcaaactgTactatgacaaaagatggtat	17	9	11	4	0	0	4	0	1	0	3	0	5	0	5	0	3	2	3	0	3	8	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:118841306T>C	uc001twz.2	+	10	926	c.787T>C	c.(787-789)TAC>CAC	p.Y263H		NM_022491	NP_071936	Q9H7L9	SDS3_HUMAN	suppressor of defective silencing 3	263					chromatin modification|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	Sin3 complex	histone deacetylase binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGGCAAACTGTACTATGACAA	0.478													3	39					0	0	0.004672	0	0		C	118841306	C	C	118841306	3	2	134	1	0	0	0	0	1	0	0	0	15392	1638	57	3	825	3	SUDS3	12	118841306	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	360183	118841306	15010589	1146	73804											
GCN1L1	10985	broad.mit.edu	37	chr12	120567103	120567103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacacctcttcaccctgccGcatcttgaggaggttgacaa	11	9	8	13	1	3	2	1	2	2	0	3	3	3	3	3	2	2	2	3	2	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:120567103G>A	uc001txo.2	-	57	7880	c.7867C>T	c.(7867-7869)CGG>TGG	p.R2623W		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	2623	HEAT 24.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCACCCTGCCGCATCTTGAGG	0.522													96	163					0	0	0.01441	0	0		A	120567103	A	A	120567103	3	1	134	1	0	0	0	0	1	0	0	0	6314	1086	38	1	156	1	GCN1L1	12	120567103	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1725797	120567103	13284792	1147	73805											
PXN	5829	broad.mit.edu	37	chr12	120660799	120660799	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctgatttctgcttgttgggGaagctttgagaggcaaagga	9	12	15	5	0	1	2	0	2	1	1	1	5	1	4	0	4	2	5	0	4	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:120660799G>A	uc001txt.2	-	4	491	c.360C>T	c.(358-360)TTC>TTT	p.F120F	PXN_uc001txv.2_5'UTR|PXN_uc001txx.2_5'UTR|PXN_uc001txy.2_Silent_p.F120F|PXN_uc001txz.2_RNA|uc001tya.2_5'Flank	NM_001080855	NP_001074324	P49023	PAXI_HUMAN	paxillin isoform 1	120					cell junction assembly|cell-matrix adhesion|cellular response to reactive oxygen species|epidermal growth factor receptor signaling pathway|growth hormone receptor signaling pathway|muscle contraction|signal complex assembly	cytoplasm|focal adhesion|lamellipodium|microtubule associated complex	beta-catenin binding|vinculin binding|zinc ion binding			ovary(1)|breast(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GCTTGTTGGGGAAGCTTTGAG	0.532													33	88					0	0	0.003755	0	0		A	120660799	A	A	120660799	2	1	134	1	0	0	0	0	0	0	0	1	12877	1165	41	4		4	PXN	12	120660799	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	93696	120660799	13191096	1148	73806											
GATC	283459	broad.mit.edu	37	chr12	120894950	120894950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attactacaaaactcccatcGcgtcgtggaggagtactttg	11	11	9	10	3	0	0	0	0	0	0	3	2	1	2	1	2	4	1	1	2	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:120894950G>A	uc010szi.1	+	3	326	c.326G>A	c.(325-327)CGC>CAC	p.R109H		NM_176818	NP_789788	O43716	GATCL_HUMAN	glutamyl-tRNA(Gln) amidotransferase, subunit C	109					regulation of translational fidelity						0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AACTCCCATCGCGTCGTGGAG	0.478											OREG0022192	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	60					0	0	0.00278	0	0		A	120894950	A	A	120894950	3	1	134	1	0	0	0	0	1	0	0	0	6277	1087	38	1	336	1	GATC	12	120894950	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	234151	120894950	12956945	1149	73807											
RHOF	54509	broad.mit.edu	37	chr12	122219030	122219030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctggtgggattcatgacgtCatagcagatgagcacgaggt	10	9	15	7	2	2	3	2	2	0	1	2	5	2	4	0	3	2	3	0	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:122219030C>T	uc001ubb.2	-	3	350	c.295G>A	c.(295-297)GAC>AAC	p.D99N	TMEM120B_uc001ubc.3_3'UTR|TMEM120B_uc009zxh.2_3'UTR|TMEM120B_uc001uba.1_RNA|RHOF_uc001ubd.3_Missense_Mutation_p.D99N	NM_019034	NP_061907	Q9HBH0	RHOF_HUMAN	ras homolog gene family, member F precursor	99					actin filament organization|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity			ovary(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;4.38e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.223)		TTCATGACGTCATAGCAGATG	0.637													28	75					0	0	0.00632	0	0		T	122219030	T	T	122219030	3	4	134	1	0	0	0	0	1	0	0	0	13363	826	29	4	352	4	RHOF	12	122219030	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1324080	122219030	11632865	1150	73808											
WDR66	144406	broad.mit.edu	37	chr12	122395142	122395142	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcaaactatcctcctgaCtgcactttaaaaggtgacct	14	11	5	11	0	1	2	1	2	0	0	3	2	3	2	3	1	2	1	3	1	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:122395142C>G	uc009zxk.2	+	11	1840	c.1698C>G	c.(1696-1698)GAC>GAG	p.D566E		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	566							calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		ATCCTCCTGACTGCACTTTAA	0.378													59	155					0	0	0.01441	0	0		G	122395142	G	G	122395142	3	3	134	1	0	0	0	0	1	0	0	0	17343	564	20	5	1736	5	WDR66	12	122395142	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	176112	122395142	11456753	1151	73809											
KNTC1	9735	broad.mit.edu	37	chr12	123073263	123073263	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcttttctaaaagttatTtggagagactacattagtta	12	18	6	5	0	3	1	0	0	3	1	3	3	3	2	0	1	1	2	0	1	6	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:123073263T>C	uc001ucv.2	+	40	4062	c.3899T>C	c.(3898-3900)TTT>TCT	p.F1300S	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	1300					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		TAAAAGTTATTTGGAGAGACT	0.269													5	5					0	0	0.000602	0	0		C	123073263	C	C	123073263	3	2	134	1	0	0	0	0	1	0	0	0	8444	1841	64	3	4053	3	KNTC1	12	123073263	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	678121	123073263	10778632	1152	73810											
HIP1R	9026	broad.mit.edu	37	chr12	123333393	123333393	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacatccgggagattggagaCctgtgggtaggtccagccat	10	8	14	9	1	0	2	0	0	0	2	2	4	2	2	4	4	2	1	4	4	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:123333393C>T	uc001udj.1	+	4	410	c.351C>T	c.(349-351)GAC>GAT	p.D117D	HIP1R_uc001udg.1_Silent_p.D105D|HIP1R_uc001udi.1_Silent_p.D117D|HIP1R_uc001udh.2_Silent_p.D117D	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	117	ENTH.				receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		AGATTGGAGACCTGTGGGTAG	0.637													21	33					0	0	0.00333	0	0		T	123333393	T	T	123333393	2	4	134	1	0	0	0	0	0	0	0	1	7131	506	18	4		4	HIP1R	12	123333393	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	260130	123333393	10518502	1153	73811											
MPHOSPH9	10198	broad.mit.edu	37	chr12	123706165	123706165	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggtctttagatttgtacAgatttaattctgagatacaa	13	16	8	4	0	2	3	0	1	2	3	2	4	2	3	0	1	2	1	0	1	6	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:123706165A>G	uc001uel.2	-	1	277	c.170T>C	c.(169-171)CTG>CCG	p.L57P	MPHOSPH9_uc010tal.1_5'UTR|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_5'UTR	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	57					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		AGATTTGTACAGATTTAATTC	0.443													6	227					0	0	0.001984	0	0		G	123706165	G	G	123706165	3	3	134	1	0	0	0	0	1	0	0	0	9746	188	7	3	3005	3	MPHOSPH9	12	123706165	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	372772	123706165	10145730	1154	73812											
SNRNP35	11066	broad.mit.edu	37	chr12	123950369	123950369	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaggtttttcaaagggctaCgccttcatcgaatacaagga	13	10	9	9	2	2	0	2	0	0	0	3	2	2	1	1	3	2	2	1	3	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:123950369C>T	uc001ufb.1	+	2	398	c.282C>T	c.(280-282)TAC>TAT	p.Y94Y	SNRNP35_uc010tar.1_Silent_p.Y99Y|SNRNP35_uc009zxz.2_Silent_p.Y99Y|SNRNP35_uc001ufc.1_Intron	NM_022717	NP_073208	Q16560	U1SBP_HUMAN	small nuclear ribonucleoprotein 35kDa (U11/U12)	94	RRM.				mRNA processing	U12-type spliceosomal complex	nucleotide binding|RNA binding				0						CAAAGGGCTACGCCTTCATCG	0.507													45	85					0	0	0.01441	0	0		T	123950369	T	T	123950369	2	4	134	1	0	0	0	0	0	0	0	1	14880	547	19	1		1	SNRNP35	12	123950369	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	244204	123950369	9901526	1155	73813											
TCTN2	79867	broad.mit.edu	37	chr12	124191372	124191372	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagtttattaaaattccTgcacagttaccccaccccct	10	12	4	15	0	0	0	0	0	0	0	2	0	2	0	6	0	2	3	6	0	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:124191372T>C	uc001ufp.2	+	16	1997	c.1869T>C	c.(1867-1869)CCT>CCC	p.P623P	TCTN2_uc009zya.2_Silent_p.P622P	NM_024809	NP_079085	Q96GX1	TECT2_HUMAN	tectonic family member 2 isoform 1	623	Extracellular (Potential).				cilium assembly|smoothened signaling pathway	integral to membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000163)|Epithelial(86;0.000502)|all cancers(50;0.00451)		TTAAAATTCCTGCACAGTTAC	0.453													5	170					0	0	0.001984	0	0		C	124191372	C	C	124191372	2	2	134	1	0	0	0	0	0	0	0	1	15748	1567	55	3		3	TCTN2	12	124191372	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	241003	124191372	9660523	1156	73814											
PIWIL1	9271	broad.mit.edu	37	chr12	130846109	130846109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctgggcggaggtcaatcGcaggatttgttgccagcatc	8	9	14	10	2	1	0	1	0	0	0	3	2	1	2	1	4	3	4	1	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr12:130846109G>A	uc001uik.2	+	16	2023	c.1933G>A	c.(1933-1935)GCA>ACA	p.A645T	PIWIL1_uc001uij.1_Missense_Mutation_p.A645T	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	645	RNA-binding (By similarity).|Piwi.				gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		GAGGTCAATCGCAGGATTTGT	0.483													50	98					0	0	0.01441	0	0		A	130846109	A	A	130846109	3	1	134	1	0	0	0	0	1	0	0	0	11976	1087	38	1	1991	1	PIWIL1	12	130846109	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6654737	130846109	3005786	1157	73815											
EFHA1	221154	broad.mit.edu	37	chr13	22178154	22178154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggccgctcctgctcctGccagggccgcgccggccact	3	5	13	20	4	0	0	0	0	0	0	2	0	2	0	8	3	2	2	8	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:22178154G>A	uc001uof.2	-	1	156	c.134C>T	c.(133-135)GCA>GTA	p.A45V		NM_152726	NP_689939	Q8IYU8	EFHA1_HUMAN	EF-hand domain family, member A1	45	Ala-rich.						calcium ion binding				0		all_cancers(29;1.24e-15)|all_epithelial(30;5.4e-14)|all_lung(29;2.04e-13)|Lung SC(185;0.0367)		all cancers(112;0.000171)|Epithelial(112;0.000398)|OV - Ovarian serous cystadenocarcinoma(117;0.00641)|Lung(94;0.189)		TCCTGCTCCTGCCAGGGCCGC	0.692													9	10					0	0	0.013537	0	0		A	22178154	A	A	22178154	3	1	134	1	0	0	0	0	1	0	0	0	4949	1319	46	2	1218	2	EFHA1	13	22178154	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08		22178154	92991724	1158	73816											
PARP4	143	broad.mit.edu	37	chr13	25030500	25030500	+	Frame_Shift_Del	DEL	T	-	-																															tcgctttctttttctggatgTttttcaacccacattcttgg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:25030500delT	uc001upl.2	-	21	2647	c.2541delA	c.(2539-2541)AAAfs	p.K847fs	PARP4_uc010tdc.1_Frame_Shift_Del_p.K847fs	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	847					cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		TTTCTGGATGTTTTTCAACCC	0.398													50	100	---	---	---	---						.	-	25030500	-	-	25030500	7	5	134	1	0	1	0	1	0	0	0	0	11482	1722	60	0	2689	0	PARP4	13	25030500	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	2852346	25030500	90139378	1159	73817											
PABPC3	5042	broad.mit.edu	37	chr13	25670687	25670687	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataataaagcactgtatgaTacagtttctgcttttggtaa	14	15	7	5	0	1	1	0	1	1	0	1	1	1	1	0	1	3	5	0	1	7	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:25670687T>G	uc001upy.2	+	1	412	c.351T>G	c.(349-351)GAT>GAG	p.D117E		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	117	RRM 2.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		CACTGTATGATACAGTTTCTG	0.393													8	284					0	0	0.00308	0	0		G	25670687	G	G	25670687	3	3	134	1	0	0	0	0	1	0	0	0	11384	1403	49	5	353	5	PABPC3	13	25670687	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	640187	25670687	89499191	1160	73818											
NUPL1	9818	broad.mit.edu	37	chr13	25911075	25911075	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttttttttttataccaggGccacagccatctctgggagt	7	17	8	9	0	1	0	0	0	1	0	2	1	1	1	3	2	2	0	3	2	2	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:25911075G>A	uc001uqi.2	+	14	1683	c.1437G>A	c.(1435-1437)GGG>GGA	p.G479G	NUPL1_uc001uqj.2_Silent_p.G467G	NM_014089	NP_054808	Q9BVL2	NUPL1_HUMAN	nucleoporin like 1 isoform a	479	14 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore					0		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.0092)|Epithelial(112;0.0477)|OV - Ovarian serous cystadenocarcinoma(117;0.165)|GBM - Glioblastoma multiforme(144;0.244)		TTATACCAGGGCCACAGCCAT	0.373													29	40					0	0	0.009535	0	0		A	25911075	A	A	25911075	2	1	134	1	0	0	0	0	0	0	0	1	10793	1217	42	2		2	NUPL1	13	25911075	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	240388	25911075	89258803	1161	73819											
WASF3	10810	broad.mit.edu	37	chr13	27246073	27246074	+	Frame_Shift_Ins	INS	-	A	A																															tttctttgacctctggaaagINSaaaaaatgctacaggacaca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:27246073_27246074insA	uc001uqv.2	+	6	712_713	c.487_488insA	c.(487-489)GAAfs	p.E163fs	WASF3_uc001uqw.2_Frame_Shift_Ins_p.E163fs	NM_006646	NP_006637	Q9UPY6	WASF3_HUMAN	WAS protein family, member 3	163	Potential.				actin filament polymerization	cytoplasm|cytoskeleton	actin binding			pancreas(1)	1	Colorectal(5;0.000247)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0114)|Epithelial(112;0.046)|OV - Ovarian serous cystadenocarcinoma(117;0.0547)|Lung(94;0.105)|LUSC - Lung squamous cell carcinoma(192;0.155)		CCTCTGGAAAGAAAAAATGCTA	0.371													37	86	---	---	---	---						.	A	27246074	A	A	27246073	7	5	134	1	0	1	1	0	0	0	0	0	17280	943	33	0	501	0	WASF3	13	27246073	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	1334998	27246073	87923805	1162	73820											
FLT3	2322	broad.mit.edu	37	chr13	28601359	28601359	+	Frame_Shift_Del	DEL	A	-	-																															tcaccatagcaacagtattcAaaaatcaagtaaattggtcc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:28601359delA	uc001urw.2	-	17	2155	c.2073delT	c.(2071-2073)TTTfs	p.F691fs	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Frame_Shift_Del_p.F691fs	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	691	Protein kinase.|Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	AACAGTATTCAAAAATCAAGT	0.328			Mis|O		AML|ALL								46	98	---	---	---	---						.	-	28601359	-	-	28601359	7	5	134	1	0	1	0	1	0	0	0	0	5956	127	5	0	940	0	FLT3	13	28601359	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	1355286	28601359	86568519	1163	73821											
SLC46A3	283537	broad.mit.edu	37	chr13	29286869	29286869	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtcatagccattcctgtCatcgtggtaaaaatcccaat	11	11	8	11	2	2	0	2	0	0	0	5	0	4	0	3	2	1	1	3	2	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:29286869C>A	uc001usi.2	-	2	1978	c.1008G>T	c.(1006-1008)ATG>ATT	p.M336I	SLC46A3_uc001usg.2_Missense_Mutation_p.M261I|SLC46A3_uc001usj.2_Missense_Mutation_p.M336I|SLC46A3_uc001ush.2_Missense_Mutation_p.M336I|SLC46A3_uc001usk.2_Missense_Mutation_p.M261I	NM_181785	NP_861450	Q7Z3Q1	S46A3_HUMAN	solute carrier family 46, member 3 isoform a	336	Helical; (Potential).				transmembrane transport	integral to membrane				central_nervous_system(1)|skin(1)	2		Lung SC(185;0.0367)		all cancers(112;0.159)		CCATTCCTGTCATCGTGGTAA	0.373													68	114					1.43987e-31	1.69714e-31	0.01441	1	0		A	29286869	A	A	29286869	3	1	134	1	0	0	0	0	1	0	0	0	14671	826	29	5	407	5	SLC46A3	13	29286869	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	685510	29286869	85883009	1164	73822											
NBEA	26960	broad.mit.edu	37	chr13	35716483	35716483	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttgcatacaaacactgTgactgtcaccacatacaaca	15	9	6	11	0	1	1	1	1	0	0	1	2	1	1	1	0	5	2	1	0	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:35716483T>C	uc001uvb.2	+	19	2620	c.2414T>C	c.(2413-2415)GTG>GCG	p.V805A		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	805						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		ACAAACACTGTGACTGTCACC	0.299													76	137					0	0	0.01441	0	0		C	35716483	C	C	35716483	3	2	134	1	0	0	0	0	1	0	0	0	10205	1696	59	3	2484	3	NBEA	13	35716483	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	6429614	35716483	79453395	1165	73823											
MAB21L1	4081	broad.mit.edu	37	chr13	36049859	36049859	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtagctacatttgtctacCgcttgagccaccagcgtctg	7	11	10	13	3	2	1	0	1	2	0	2	1	2	1	3	1	5	3	3	1	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:36049859C>T	uc001uvc.2	-	1	974	c.417G>A	c.(415-417)GCG>GCA	p.A139A	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	139					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		ATTTGTCTACCGCTTGAGCCA	0.562													28	47					0	0	0.009535	0	0		T	36049859	T	T	36049859	2	4	134	1	0	0	0	0	0	0	0	1	9159	639	23	1		1	MAB21L1	13	36049859	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	333376	36049859	79120019	1166	73824											
DCLK1	9201	broad.mit.edu	37	chr13	36700166	36700166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtagaagctgcagtgggCgctgtgcgtcgggctcggca	5	7	19	10	5	0	1	0	0	0	1	2	1	0	1	0	4	3	6	0	4	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:36700166C>T	uc001uvf.2	-	2	342	c.109G>A	c.(109-111)GCC>ACC	p.A37T		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	37					cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		CTGCAGTGGGCGCTGTGCGTC	0.607													27	83					0	0	0.01441	0	0		T	36700166	T	T	36700166	3	4	134	1	0	0	0	0	1	0	0	0	4294	768	27	1	2148	1	DCLK1	13	36700166	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	650307	36700166	78469712	1167	73825											
C13orf36	400120	broad.mit.edu	37	chr13	37269461	37269461	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccagagtatccaagcgaCgctggaagttctttcaccaa	12	9	8	12	2	2	1	1	0	1	1	3	3	3	2	3	1	2	3	3	1	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:37269461C>T	uc001uvt.3	+	2	692	c.246C>T	c.(244-246)GAC>GAT	p.D82D		NM_203451	NP_982276	A2A2V5	CM036_HUMAN	hypothetical protein LOC400120	82						integral to membrane				skin(1)	1						ATCCAAGCGACGCTGGAAGTT	0.453													87	147					0	0	0.01441	0	0		T	37269461	T	T	37269461	2	4	134	1	0	0	0	0	0	0	0	1	1733	535	19	1		1	C13orf36	13	37269461	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	569295	37269461	77900417	1168	73826											
POSTN	10631	broad.mit.edu	37	chr13	38160400	38160400	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagggcctccaatatgtcCgatgtgatggcagctgcctg	8	9	12	12	1	0	1	0	1	0	0	2	2	2	1	5	2	2	2	5	2	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:38160400C>T	uc001uwo.3	-	7	889	c.771G>A	c.(769-771)TCG>TCA	p.S257S	POSTN_uc001uwp.3_Silent_p.S257S|POSTN_uc001uwr.2_Silent_p.S257S|POSTN_uc001uwq.2_Silent_p.S257S|POSTN_uc010teu.1_Silent_p.S257S|POSTN_uc010tev.1_Silent_p.S257S|POSTN_uc010tew.1_Silent_p.S257S|POSTN_uc010tex.1_Silent_p.S172S	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	257	FAS1 2.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		CCAATATGTCCGATGTGATGG	0.458													37	67					0	0	0.007835	0	0		T	38160400	T	T	38160400	2	4	134	1	0	0	0	0	0	0	0	1	12278	639	23	1		1	POSTN	13	38160400	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	890939	38160400	77009478	1169	73827											
KBTBD6	89890	broad.mit.edu	37	chr13	41706053	41706053	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggctgagttgcttgaagtTctgagctatataggactggg	8	13	15	5	0	1	3	0	3	1	0	1	4	1	4	0	3	2	5	0	3	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:41706053T>C	uc001uxu.1	-	1	884	c.595A>G	c.(595-597)AAC>GAC	p.N199D	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.N133D|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	199							protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		TGCTTGAAGTTCTGAGCTATA	0.562													4	119					0	0	0.009096	0	0		C	41706053	C	C	41706053	3	2	134	1	0	0	0	0	1	0	0	0	8013	1783	62	3	1433	3	KBTBD6	13	41706053	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3545653	41706053	73463825	1170	73828											
AKAP11	11215	broad.mit.edu	37	chr13	42876041	42876041	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcataacttgaatagtacAtcacttgaggccttgtcttt	12	14	7	8	0	2	2	1	2	1	0	2	2	2	2	1	1	3	2	1	1	5	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:42876041A>G	uc001uys.1	+	8	3334	c.3159A>G	c.(3157-3159)ACA>ACG	p.T1053T		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	1053					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		TGAATAGTACATCACTTGAGG	0.428													65	167					0	0	0.01441	0	0		G	42876041	G	G	42876041	2	3	134	1	0	0	0	0	0	0	0	1	447	204	8	3		3	AKAP11	13	42876041	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1169988	42876041	72293837	1171	73829											
ENOX1	55068	broad.mit.edu	37	chr13	43934001	43934001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagtaccagaaaggtaaatgGctttatcaaccatgaattcc	16	10	7	8	0	1	2	1	1	0	1	2	2	2	2	3	2	2	3	3	2	8	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:43934001G>A	uc001uza.3	-	7	875	c.575C>T	c.(574-576)GCC>GTC	p.A192V	ENOX1_uc001uzb.3_Missense_Mutation_p.A192V|ENOX1_uc001uzc.3_Missense_Mutation_p.A192V|ENOX1_uc010tfm.1_Missense_Mutation_p.A5V	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	192	RRM.				electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		AAGGTAAATGGCTTTATCAAC	0.368													54	126					0	0	0.01441	0	0		A	43934001	A	A	43934001	3	1	134	1	0	0	0	0	1	0	0	0	5134	1203	42	2	1400	2	ENOX1	13	43934001	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1057960	43934001	71235877	1172	73830											
SPERT	220082	broad.mit.edu	37	chr13	46287374	46287374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacagcacccctcgctgcGcgcagcaggccgccctgccc	5	5	11	20	4	0	0	0	0	0	0	1	0	0	0	5	1	5	5	5	1	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:46287374G>A	uc001van.1	+	3	294	c.214G>A	c.(214-216)GCG>ACG	p.A72T	SPERT_uc001vao.2_Missense_Mutation_p.A36T	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	72						cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		CCCTCGCTGCGCGCAGCAGGC	0.652													27	54					0	0	0.008361	0	0		A	46287374	A	A	46287374	3	1	134	1	0	0	0	0	1	0	0	0	15064	1087	38	1	224	1	SPERT	13	46287374	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2353373	46287374	68882504	1173	73831											
SPERT	220082	broad.mit.edu	37	chr13	46287395	46287395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcaggccgccctgcccCggctgagccgcaggatggcg	5	3	16	17	5	0	1	0	1	0	0	0	2	0	2	5	4	3	4	5	4	0	0	rs149478922		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:46287395C>T	uc001van.1	+	3	315	c.235C>T	c.(235-237)CGG>TGG	p.R79W	SPERT_uc001vao.2_Missense_Mutation_p.R43W	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	79						cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		CGCCCTGCCCCGGCTGAGCCG	0.667													28	53					0	0	0.010818	0	0		T	46287395	T	T	46287395	3	4	134	1	0	0	0	0	1	0	0	0	15064	643	23	1	245	1	SPERT	13	46287395	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	21	46287395	68882483	1174	73832											
ZC3H13	23091	broad.mit.edu	37	chr13	46577338	46577338	+	Frame_Shift_Del	DEL	T	-	-																															tctgtcctttccatctcttgTtttttcttctatcctgtctt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:46577338delT	uc010tfw.1	-	7	886	c.880delA	c.(880-882)ACAfs	p.T294fs	ZC3H13_uc001vas.1_Frame_Shift_Del_p.T294fs|ZC3H13_uc001vat.1_Frame_Shift_Del_p.T294fs	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	294							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		CCATCTCTTGTTTTTTCTTCT	0.368													168	272	---	---	---	---						.	-	46577338	-	-	46577338	7	5	134	1	0	1	0	1	0	0	0	0	17590	1725	60	0	3854	0	ZC3H13	13	46577338	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	289943	46577338	68592540	1175	73833											
RB1	5925	broad.mit.edu	37	chr13	48919305	48919305	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgttgaagaagtatgatgTattgtttgcactcttcagca	11	15	9	6	0	2	3	1	2	1	1	2	3	2	3	0	0	2	6	0	0	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:48919305T>C	uc001vcb.2	+	4	636	c.470T>C	c.(469-471)GTA>GCA	p.V157A	RB1_uc010acs.1_Intron	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	157					androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(5)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AAGTATGATGTATTGTTTGCA	0.303		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			3	66					0	0	0.009096	0	0		C	48919305	C	C	48919305	3	2	134	1	0	0	0	0	1	0	0	0	13123	1638	57	3	484	3	RB1	13	48919305	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2341967	48919305	66250573	1176	73834											
SETDB2	83852	broad.mit.edu	37	chr13	50062611	50062611	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagaaaccccaagagggaCgatctacagcatgtcaaaga	16	6	9	10	1	3	3	2	0	1	3	3	5	3	4	2	1	3	1	2	1	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:50062611C>T	uc001vcz.2	+	13	2704	c.1798C>T	c.(1798-1800)CGA>TGA	p.R600*	SETDB2_uc010adh.2_3'UTR|SETDB2_uc001vda.2_Nonsense_Mutation_p.R588*	NM_031915	NP_114121	Q96T68	SETB2_HUMAN	SET domain, bifurcated 2 isoform a	600	SET.				cell division|chromosome segregation|heart looping|left/right axis specification|mitosis|negative regulation of transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone methyltransferase activity (H3-K9 specific)|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;0.000408)|Breast(56;0.00131)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.1e-09)		CCAAGAGGGACGATCTACAGC	0.393													52	77					0	0	0.01441	0	0		T	50062611	T	T	50062611	4	4	134	1	0	0	0	0	0	1	0	0	14164	528	19	1	1844	1	SETDB2	13	50062611	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1143306	50062611	65107267	1177	73835											
FAM124A	220108	broad.mit.edu	37	chr13	51854685	51854685	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccgagcactgctgtaccaAgccatacacctggcagcagc	10	6	10	15	1	0	0	0	0	0	0	0	1	0	0	4	1	8	5	4	1	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:51854685A>G	uc001vfg.1	+	4	1065	c.934A>G	c.(934-936)AGC>GGC	p.S312G	FAM124A_uc001vff.1_Missense_Mutation_p.S348G	NM_145019	NP_659456	Q86V42	F124A_HUMAN	hypothetical protein LOC220108	312										central_nervous_system(1)	1		Acute lymphoblastic leukemia(7;0.000334)|Breast(56;0.00156)|Prostate(109;0.00538)|Lung NSC(96;0.0216)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;4.25e-07)		TGCTGTACCAAGCCATACACC	0.587													4	56					0	0	0.009096	0	0		G	51854685	G	G	51854685	3	3	134	1	0	0	0	0	1	0	0	0	5436	72	3	3	1060	3	FAM124A	13	51854685	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1792074	51854685	63315193	1178	73836											
UTP14C	9724	broad.mit.edu	37	chr13	52603377	52603377	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctccaaatgggaccctaTcatcctgaagaaccagcagg	12	7	8	14	0	2	2	1	1	1	1	4	3	3	3	5	2	2	1	5	2	4	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:52603377T>C	uc001vgb.2	+	2	972	c.437T>C	c.(436-438)ATC>ACC	p.I146T	UTP14C_uc001vga.2_3'UTR|UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	146					cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)		TGGGACCCTATCATCCTGAAG	0.498													46	111					0	0	0.01441	0	0		C	52603377	C	C	52603377	3	2	134	1	0	0	0	0	1	0	0	0	17122	1435	50	3	439	3	UTP14C	13	52603377	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	748692	52603377	62566501	1179	73837											
PCDH8	5100	broad.mit.edu	37	chr13	53418897	53418897	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttgggcagctgggcctggTagtaattgtccctgcgcaga	6	11	14	10	1	1	1	0	0	1	1	2	1	2	1	2	3	2	5	2	3	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:53418897T>C	uc001vhi.2	-	3	3214	c.3011A>G	c.(3010-3012)TAC>TGC	p.Y1004C	PCDH8_uc001vhj.2_Missense_Mutation_p.Y907C	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	1004	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		CTGGGCCTGGTAGTAATTGTC	0.587													8	142					0	0	0.004482	0	0		C	53418897	C	C	53418897	3	2	134	1	0	0	0	0	1	0	0	0	11536	1638	57	3	205	3	PCDH8	13	53418897	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	815520	53418897	61750981	1180	73838											
PCDH8	5100	broad.mit.edu	37	chr13	53420526	53420526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcgccctgaacacgcgaccGggtggctcctgcgagaggtc	7	5	15	14	5	0	2	0	1	0	1	2	4	1	2	3	3	3	1	3	3	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:53420526G>A	uc001vhi.2	-	1	2249	c.2046C>T	c.(2044-2046)CCC>CCT	p.P682P	PCDH8_uc001vhj.2_Silent_p.P682P	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	682	Extracellular (Potential).|Cadherin 6.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		ACACGCGACCGGGTGGCTCCT	0.701													12	13					0	0	0.001855	0	0		A	53420526	A	A	53420526	2	1	134	1	0	0	0	0	0	0	0	1	11536	1103	39	1		1	PCDH8	13	53420526	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1629	53420526	61749352	1181	73839											
PCDH20	64881	broad.mit.edu	37	chr13	61987878	61987878	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccgggaggccaggctgaaGgagagaggggggttccactc	8	4	18	11	1	0	2	0	1	0	1	2	5	1	4	4	7	0	2	4	7	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:61987878G>T	uc001vid.3	-	2	718	c.354C>A	c.(352-354)TCC>TCA	p.S118S	PCDH20_uc010thj.1_Silent_p.S118S	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	91	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		CCAGGCTGAAGGAGAGAGGGG	0.682													17	27					4.63292e-17	5.25448e-17	0.008871	1	0		T	61987878	T	T	61987878	2	4	134	1	0	0	0	0	0	0	0	1	11534	987	35	5		5	PCDH20	13	61987878	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	8567352	61987878	53182000	1182	73840											
MYCBP2	23077	broad.mit.edu	37	chr13	77672481	77672481	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttttaaagtacttgaggtGcagacttcgaccacctcact	10	13	8	10	1	1	2	1	1	0	1	2	3	1	2	2	1	2	3	2	1	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:77672481G>A	uc001vkf.2	-	57	8785	c.8694C>T	c.(8692-8694)TGC>TGT	p.C2898C	MYCBP2_uc010aev.2_Silent_p.C2302C|MYCBP2_uc001vkg.1_Silent_p.C421C|MYCBP2_uc010aew.2_Silent_p.C284C	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2898					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TACTTGAGGTGCAGACTTCGA	0.428													80	133					0	0	0.01441	0	0		A	77672481	A	A	77672481	2	1	134	1	0	0	0	0	0	0	0	1	10036	1311	46	2		2	MYCBP2	13	77672481	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	15684603	77672481	37497397	1183	73841											
MYCBP2	23077	broad.mit.edu	37	chr13	77718664	77718664	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcacaataagtcccatcatTattgacacggatcagcatat	14	11	6	10	1	2	1	2	1	0	0	3	2	3	2	1	1	2	2	1	1	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:77718664T>C	uc001vkf.2	-	50	7196	c.7105A>G	c.(7105-7107)AAT>GAT	p.N2369D	MYCBP2_uc010aev.2_Missense_Mutation_p.N1773D	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2369	Filamin.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GTCCCATCATTATTGACACGG	0.368													6	275					0	0	0.001984	0	0		C	77718664	C	C	77718664	3	2	134	1	0	0	0	0	1	0	0	0	10036	1754	61	3	6957	3	MYCBP2	13	77718664	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	46183	77718664	37451214	1184	73842											
MYCBP2	23077	broad.mit.edu	37	chr13	77765900	77765900	+	Frame_Shift_Del	DEL	C	-	-																															gcccatgccacataccaccaCccagcttgcaggagaacagg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:77765900delC	uc001vkf.2	-	29	3961	c.3870delG	c.(3868-3870)GGGfs	p.G1290fs	MYCBP2_uc010aev.2_Frame_Shift_Del_p.G694fs	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1290					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CATACCACCACCCAGCTTGCA	0.443													37	55	---	---	---	---						.	-	77765900	-	-	77765900	7	5	134	1	0	1	0	1	0	0	0	0	10036	494	18	0	10276	0	MYCBP2	13	77765900	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	47236	77765900	37403978	1185	73843											
MYCBP2	23077	broad.mit.edu	37	chr13	77900654	77900654	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcccccctggtccctgtcaTtgagcgcagcggtataaatc	7	9	10	15	3	1	1	1	1	0	0	3	1	2	1	4	2	2	2	4	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:77900654T>A	uc001vkf.2	-	2	234	c.143A>T	c.(142-144)AAT>ATT	p.N48I	MYCBP2_uc010aev.2_5'UTR	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	48					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GTCCCTGTCATTGAGCGCAGC	0.711													18	30					0	0	0.008871	0	0		A	77900654	A	A	77900654	3	1	134	1	0	0	0	0	1	0	0	0	10036	1493	52	5	14111	5	MYCBP2	13	77900654	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	134754	77900654	37269224	1186	73844											
SLITRK1	114798	broad.mit.edu	37	chr13	84453749	84453749	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcccaccacggtgaaggCggaggtgacaaacaccagca	13	3	12	13	2	0	2	0	2	0	0	0	3	0	3	3	4	3	1	3	4	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:84453749C>T	uc001vlk.2	-	1	2780	c.1894G>A	c.(1894-1896)GCC>ACC	p.A632T		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	632	Helical; (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		ACGGTGAAGGCGGAGGTGACA	0.587													14	36					0	0	0.003163	0	0		T	84453749	T	T	84453749	3	4	134	1	0	0	0	0	1	0	0	0	14767	768	27	1	200	1	SLITRK1	13	84453749	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	6553095	84453749	30716129	1187	73845											
SLITRK1	114798	broad.mit.edu	37	chr13	84455314	84455314	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgttgttgatgtgcagcCttttcaccagctgcagcccc	5	14	10	12	0	1	1	1	1	0	0	1	1	1	1	4	0	5	6	4	0	0	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:84455314C>A	uc001vlk.2	-	1	1215	c.329G>T	c.(328-330)AGG>ATG	p.R110M		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	110	Extracellular (Potential).|LRR 3.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GATGTGCAGCCTTTTCACCAG	0.438													89	97					1.02218e-41	1.21335e-41	0.01441	1	0		A	84455314	A	A	84455314	3	1	134	1	0	0	0	0	1	0	0	0	14767	681	24	5	1765	5	SLITRK1	13	84455314	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1565	84455314	30714564	1188	73846											
GPC6	10082	broad.mit.edu	37	chr13	95034795	95034795	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatgctggaacgggcacaGcaaagccaggtgagggtgac	12	4	17	8	1	0	2	0	2	0	0	0	4	0	4	1	5	4	3	1	5	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:95034795G>T	uc001vlt.2	+	7	1912	c.1280G>T	c.(1279-1281)AGC>ATC	p.S427I		NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	427						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				AACGGGCACAGCAAAGCCAGG	0.552													41	104					9.9191e-30	1.16504e-29	0.00874	1	0		T	95034795	T	T	95034795	3	4	134	1	0	0	0	0	1	0	0	0	6617	971	34	5	1306	5	GPC6	13	95034795	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	10579481	95034795	20135083	1189	73847											
LIG4	3981	broad.mit.edu	37	chr13	108862651	108862651	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaagaatacagatttgtatAtctgctttgaatgcattatg	13	16	7	5	0	2	3	1	1	1	2	2	3	2	3	0	0	3	3	0	0	7	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:108862651A>G	uc001vqn.2	-	2	1239	c.966T>C	c.(964-966)GAT>GAC	p.D322D	LIG4_uc001vqo.2_Silent_p.D322D|LIG4_uc010agg.1_Silent_p.D255D|LIG4_uc010agf.2_Silent_p.D322D|LIG4_uc001vqp.2_Silent_p.D322D	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	322					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					AGATTTGTATATCTGCTTTGA	0.348								NHEJ					62	111					0	0	0.01441	0	0		G	108862651	G	G	108862651	2	3	134	1	0	0	0	0	0	0	0	1	8799	446	16	3		3	LIG4	13	108862651	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	13827856	108862651	6307227	1190	73848											
ATP11A	23250	broad.mit.edu	37	chr13	113526106	113526106	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtgatggtgttcacagttAcactaaaggtaagtggtctc	10	12	11	8	1	2	1	1	1	1	0	3	1	2	1	1	3	1	3	1	3	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:113526106A>G	uc001vsi.3	+	26	3137	c.3049A>G	c.(3049-3051)ACA>GCA	p.T1017A	ATP11A_uc001vsj.3_Missense_Mutation_p.T1017A|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	1017	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				GTTCACAGTTACACTAAAGGT	0.478													4	249					0	0	0.000602	0	0		G	113526106	G	G	113526106	3	3	134	1	0	0	0	0	1	0	0	0	1120	391	14	3	3151	3	ATP11A	13	113526106	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4663455	113526106	1643772	1191	73849											
PCID2	55795	broad.mit.edu	37	chr13	113851504	113851504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggatattggactatcacgGtctggcacttgtatgcctct	9	13	10	9	1	3	0	1	0	2	0	3	2	3	2	1	4	1	2	1	4	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:113851504G>A	uc010tju.1	-	4	335	c.254C>T	c.(253-255)ACC>ATC	p.T85I	PCID2_uc010tjv.1_Missense_Mutation_p.T85I|PCID2_uc010tjw.1_Missense_Mutation_p.T85I|PCID2_uc001vte.2_5'UTR|PCID2_uc001vtd.2_5'UTR|PCID2_uc001vtf.2_5'UTR|PCID2_uc001vtg.1_RNA	NM_001127203	NP_001120675	Q5JVF3	PCID2_HUMAN	PCI domain containing 2	85					negative regulation of apoptosis|negative regulation of cysteine-type endopeptidase activity|positive regulation of mitotic cell cycle spindle assembly checkpoint|positive regulation of transcription, DNA-dependent|regulation of mRNA stability|spleen development		protein binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.216)|all_epithelial(44;0.234)	all cancers(43;0.104)			GACTATCACGGTCTGGCACTT	0.483													85	161					0	0	0.01441	0	0		A	113851504	A	A	113851504	3	1	134	1	0	0	0	0	1	0	0	0	11598	1261	44	4	989	4	PCID2	13	113851504	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	325398	113851504	1318374	1192	73850											
FAM70B	348013	broad.mit.edu	37	chr13	114507949	114507949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcctacgcaggcttccGcctgacgcccgagcccgtcc	4	6	11	20	5	0	1	0	1	0	0	2	2	2	1	7	2	2	2	7	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr13:114507949G>A	uc001vuh.2	+	8	788	c.761G>A	c.(760-762)CGC>CAC	p.R254H		NM_182614	NP_872420	Q8WV15	FA70B_HUMAN	family with sequence similarity 70, member B	254						integral to membrane					0	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.123)|all_epithelial(44;0.133)	all cancers(43;0.181)			GCAGGCTTCCGCCTGACGCCC	0.677													36	46					0	0	0.005524	0	0		A	114507949	A	A	114507949	3	1	134	1	0	0	0	0	1	0	0	0	5620	1087	38	1	791	1	FAM70B	13	114507949	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	656445	114507949	661929	1193	73851											
RNASE9	390443	broad.mit.edu	37	chr14	21025060	21025060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttggtaggtggtctggCgggccctgtactaaaaaatt	8	14	12	7	1	2	0	0	0	2	0	2	0	2	0	1	5	1	2	1	5	5	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:21025060C>T	uc010aho.2	-	4	328	c.169G>A	c.(169-171)GCC>ACC	p.A57T	RNASE9_uc001vxq.3_Missense_Mutation_p.A62T|RNASE9_uc010ahp.2_Missense_Mutation_p.A62T|RNASE9_uc010ahq.2_Missense_Mutation_p.A62T|RNASE9_uc010ahr.2_Missense_Mutation_p.A62T|RNASE9_uc010ahs.2_Missense_Mutation_p.A57T|RNASE9_uc010aht.2_Missense_Mutation_p.A57T|RNASE9_uc010ahu.2_Missense_Mutation_p.A57T	NM_001110357	NP_001103827	P60153	RNAS9_HUMAN	ribonuclease, RNase A family, 9 (non-active)	57						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			ovary(2)	2	all_cancers(95;0.00238)		Epithelial(56;3.32e-06)|all cancers(55;2.46e-05)	GBM - Glioblastoma multiforme(265;0.0141)		GGTGGTCTGGCGGGCCCTGTA	0.378													116	189					0	0	0.01441	0	0		T	21025060	T	T	21025060	3	4	134	1	0	0	0	0	1	0	0	0	13435	768	27	1	452	1	RNASE9	14	21025060	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08		21025060	86324480	1194	73852											
RNASE2	6036	broad.mit.edu	37	chr14	21423932	21423932	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttttcttacaggaaacaTggttccaaaactgttcactt	11	16	5	9	0	3	0	1	0	2	0	4	1	4	1	1	2	3	2	1	2	4	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:21423932T>C	uc010aif.2	+	2	71	c.2T>C	c.(1-3)ATG>ACG	p.M1T	RNASE2_uc001vyl.1_Missense_Mutation_p.M1T	NM_002934	NP_002925	P10153	RNAS2_HUMAN	ribonuclease, RNase A family, 2 (liver,	1					chemotaxis|RNA catabolic process	extracellular region|lysosome	nucleic acid binding|pancreatic ribonuclease activity			ovary(1)	1	all_cancers(95;0.00381)		OV - Ovarian serous cystadenocarcinoma(11;6.3e-09)|Epithelial(56;1.42e-07)|all cancers(55;5.48e-07)	GBM - Glioblastoma multiforme(265;0.0187)		ACAGGAAACATGGTTCCAAAA	0.498													77	182					0	0	0.01441	0	0		C	21423932	C	C	21423932	3	2	134	1	0	0	0	0	1	0	0	0	13429	1464	51	3	4	3	RNASE2	14	21423932	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	398872	21423932	85925608	1195	73853											
RNF31	55072	broad.mit.edu	37	chr14	24619849	24619849	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcccagagtcaagtctggTactgtattcactgtaccttc	8	13	8	12	0	3	1	2	0	1	1	4	1	3	1	2	1	3	3	2	1	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:24619849T>C	uc001wmn.1	+	8	1489	c.1240T>C	c.(1240-1242)TAC>CAC	p.Y414H	RNF31_uc001wml.1_Missense_Mutation_p.Y263H|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_Missense_Mutation_p.Y229H|RNF31_uc001wmo.1_5'Flank|RNF31_uc001wmp.2_5'Flank	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	414	Polyubiquitin-binding.|RanBP2-type 3.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		TCAAGTCTGGTACTGTATTCA	0.547													10	283					0	0	0.013537	0	0		C	24619849	C	C	24619849	3	2	134	1	0	0	0	0	1	0	0	0	13512	1638	57	3	1270	3	RNF31	14	24619849	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3195917	24619849	82729691	1196	73854											
NYNRIN	57523	broad.mit.edu	37	chr14	24877215	24877215	+	Frame_Shift_Del	DEL	C	-	-																															cttgcctacctggtgcctggCccccctggctccctgatggt																								rs10148781	by1000genomes	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:24877215delC	uc001wpf.3	+	3	657	c.339delC	c.(337-339)GGCfs	p.G113fs		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	113					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						TGGTGCCTGGCCCCCCTGGCT	0.657													56	91	---	---	---	---						.	-	24877215	-	-	24877215	7	5	134	1	0	1	0	1	0	0	0	0	10815	726	26	0	345	0	NYNRIN	14	24877215	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	257366	24877215	82472325	1197	73855											
ARHGAP5	394	broad.mit.edu	37	chr14	32562545	32562545	+	Frame_Shift_Del	DEL	T	-	-																															gttactgacagccaagcagaTttttttgaaaatgaggctat																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:32562545delT	uc001wrl.2	+	2	2909	c.2670delT	c.(2668-2670)GATfs	p.D890fs	ARHGAP5_uc001wrm.2_Frame_Shift_Del_p.D890fs|ARHGAP5_uc001wrn.2_Frame_Shift_Del_p.D890fs|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	890					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		GCCAAGCAGATTTTTTTGAAA	0.403													45	90	---	---	---	---						.	-	32562545	-	-	32562545	7	5	134	1	0	1	0	1	0	0	0	0	886	1490	52	0	2672	0	ARHGAP5	14	32562545	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	7685330	32562545	74786995	1198	73856			1	34		3	3	229	N	T_A	8.153116e-05
ARHGAP5	394	broad.mit.edu	37	chr14	32562675	32562675	+	Frame_Shift_Del	DEL	T	-	-																															aaactgaggtctttactctgTtttttagtgatgttctagag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:32562675delT	uc001wrl.2	+	2	3039	c.2800delT	c.(2800-2802)TTTfs	p.F934fs	ARHGAP5_uc001wrm.2_Frame_Shift_Del_p.F934fs|ARHGAP5_uc001wrn.2_Frame_Shift_Del_p.F934fs|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	934					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		CTTTACTCTGTTTTTTAGTGA	0.333													57	111	---	---	---	---						.	-	32562675	-	-	32562675	7	5	134	1	0	1	0	1	0	0	0	0	886	1725	60	0	2802	0	ARHGAP5	14	32562675	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	130	32562675	74786865	1199	73857			1	34		3	3	229	N	T_A	8.153116e-05
ARHGAP5	394	broad.mit.edu	37	chr14	32562773	32562773	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaagtgaagatgtttttctAccatctcccagagactgttt	11	14	7	9	0	2	3	0	1	2	2	3	4	2	3	2	0	1	2	2	0	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:32562773A>G	uc001wrl.2	+	2	3137	c.2898A>G	c.(2896-2898)CTA>CTG	p.L966L	ARHGAP5_uc001wrm.2_Silent_p.L966L|ARHGAP5_uc001wrn.2_Silent_p.L966L|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	966					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		ATGTTTTTCTACCATCTCCCA	0.353													4	139					0	0	0.009096	0	0		G	32562773	G	G	32562773	2	3	134	1	0	0	0	0	0	0	0	1	886	378	14	3		3	ARHGAP5	14	32562773	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	98	32562773	74786767	1200	73858			1	34		3	3	229	N	T_A	8.153116e-05
SNX6	58533	broad.mit.edu	37	chr14	35045035	35045035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcttcatcagcagacactCgtgcttctattttctgaaaa	10	14	7	10	1	5	2	2	1	3	1	6	2	5	2	0	1	2	2	0	1	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:35045035C>T	uc001wsf.1	-	11	892	c.884G>A	c.(883-885)CGA>CAA	p.R295Q	SNX6_uc001wse.1_Missense_Mutation_p.R167Q|SNX6_uc010tpm.1_Missense_Mutation_p.R171Q|SNX6_uc010amm.1_Missense_Mutation_p.R171Q	NM_152233	NP_689419	Q9UNH7	SNX6_HUMAN	sorting nexin 6 isoform b	283					cell communication|intracellular protein transport|negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent|negative regulation of transforming growth factor beta receptor signaling pathway|retrograde transport, endosome to Golgi	cytoplasmic vesicle membrane|early endosome membrane|nucleus	phosphatidylinositol binding|protein homodimerization activity				0	Breast(36;0.0473)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00199)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.0245)		AGCAGACACTCGTGCTTCTAT	0.284													15	45					0	0	0.00499	0	0		T	35045035	T	T	35045035	3	4	134	1	0	0	0	0	1	0	0	0	14931	884	31	1	388	1	SNX6	14	35045035	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2482262	35045035	72304505	1201	73859											
BAZ1A	11177	broad.mit.edu	37	chr14	35227976	35227976	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtaccaattctacaacaagTtgttcaaaagcagacaattc	16	10	5	10	1	2	1	1	0	1	1	3	1	2	1	1	0	4	4	1	0	8	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:35227976T>C	uc001wsk.2	-	25	4888	c.4320A>G	c.(4318-4320)CAA>CAG	p.Q1440Q	BAZ1A_uc001wsl.2_Silent_p.Q1408Q	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1440					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		CTACAACAAGTTGTTCAAAAG	0.393													6	146					0	0	0.001984	0	0		C	35227976	C	C	35227976	2	2	134	1	0	0	0	0	0	0	0	1	1330	1722	60	3		3	BAZ1A	14	35227976	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	182941	35227976	72121564	1202	73860											
MIPOL1	145282	broad.mit.edu	37	chr14	37754595	37754595	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctagactgcaattagccaTtgaggagagagatgaagcaa	15	8	12	6	0	1	5	0	2	1	3	1	7	1	5	1	1	3	2	1	1	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:37754595T>C	uc001wuc.2	+	8	1069	c.566T>C	c.(565-567)ATT>ACT	p.I189T	MIPOL1_uc010amr.2_Intron|MIPOL1_uc001wub.3_Missense_Mutation_p.I158T|MIPOL1_uc001wud.2_Missense_Mutation_p.I189T|MIPOL1_uc010ams.2_Missense_Mutation_p.I189T|MIPOL1_uc001wue.2_Missense_Mutation_p.I158T|MIPOL1_uc010amt.2_Missense_Mutation_p.I8T	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	189	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		CAATTAGCCATTGAGGAGAGA	0.378													7	288					0	0	0.00308	0	0		C	37754595	C	C	37754595	3	2	134	1	0	0	0	0	1	0	0	0	9611	1493	52	3	584	3	MIPOL1	14	37754595	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2526619	37754595	69594945	1203	73861											
FANCM	57697	broad.mit.edu	37	chr14	45665536	45665536	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttctggattagaagtaatTtcttccctaagagcaattca	13	14	6	8	0	3	2	1	0	2	2	4	3	4	3	1	1	1	2	1	1	5	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:45665536T>C	uc001wwd.3	+	21	5601	c.5502T>C	c.(5500-5502)ATT>ATC	p.I1834I	FANCM_uc010anf.2_Silent_p.I1808I|FANCM_uc001wwe.3_Silent_p.I1370I|FANCM_uc010ang.2_Silent_p.I1083I	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1834	Interaction with FAAP24 and EME1.				DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						TAGAAGTAATTTCTTCCCTAA	0.423								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				6	247					0	0	0.001168	0	0		C	45665536	C	C	45665536	2	2	134	1	0	0	0	0	0	0	0	1	5685	1829	64	3		3	FANCM	14	45665536	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	7910941	45665536	61684004	1204	73862											
POLE2	5427	broad.mit.edu	37	chr14	50131378	50131378	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcatgcctctgtgtataaAccactatggaactggtacac	13	10	8	10	0	1	0	0	0	1	0	1	1	1	1	2	2	5	3	2	2	7	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:50131378A>G	uc001wwu.2	-	9	662	c.648T>C	c.(646-648)GGT>GGC	p.G216G	SDCCAG1_uc010anj.1_Intron|POLE2_uc010ann.2_5'UTR|POLE2_uc001wwv.2_RNA|POLE2_uc010ano.2_5'UTR	NM_002692	NP_002683	P56282	DPOE2_HUMAN	DNA-directed DNA polymerase epsilon 2	216					DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	DNA binding|DNA-directed DNA polymerase activity			ovary(1)|skin(1)	2	all_epithelial(31;0.0021)|Breast(41;0.0124)					CTGTGTATAAACCACTATGGA	0.363													52	102					0	0	0.01441	0	0		G	50131378	G	G	50131378	2	3	134	1	0	0	0	0	0	0	0	1	12216	30	2	3		3	POLE2	14	50131378	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4465842	50131378	57218162	1205	73863											
DLGAP5	9787	broad.mit.edu	37	chr14	55650367	55650367	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccactttaaatattcctcGtttagctttctctctctgct	7	18	3	13	1	2	0	0	0	2	0	6	0	3	0	2	0	2	3	2	0	4	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:55650367G>A	uc001xbs.2	-	3	560	c.343C>T	c.(343-345)CGA>TGA	p.R115*	DLGAP5_uc001xbt.2_Nonsense_Mutation_p.R115*	NM_014750	NP_055565	Q15398	DLGP5_HUMAN	discs large homolog 7 isoform a	115	Potential.				cell proliferation|cell-cell signaling|mitotic chromosome movement towards spindle pole|positive regulation of mitotic metaphase/anaphase transition	nucleus|spindle pole centrosome	phosphoprotein phosphatase activity|protein binding			ovary(1)|skin(1)	2						AATATTCCTCGTTTAGCTTTC	0.338													26	52					0	0	0.003954	0	0		A	55650367	A	A	55650367	4	1	134	1	0	0	0	0	0	1	0	0	4569	1153	40	1	2360	1	DLGAP5	14	55650367	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5518989	55650367	51699173	1206	73864											
C14orf101	54916	broad.mit.edu	37	chr14	57052589	57052589	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcttctctgtggcttattTggagcagtagctgcatcatt	8	16	9	8	0	3	0	1	0	2	0	4	1	3	1	0	2	3	5	0	2	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:57052589T>C	uc001xcm.2	+	3	425	c.303T>C	c.(301-303)TTT>TTC	p.F101F	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xck.2_Silent_p.F101F|C14orf101_uc010aot.1_Silent_p.F101F|C14orf101_uc001xcl.1_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_5'UTR	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	101	Helical; (Potential).					integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		GTGGCTTATTTGGAGCAGTAG	0.393													115	186					0	0	0.01441	0	0		C	57052589	C	C	57052589	2	2	134	1	0	0	0	0	0	0	0	1	1737	1809	63	3		3	C14orf101	14	57052589	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1402222	57052589	50296951	1207	73865											
ACTR10	55860	broad.mit.edu	37	chr14	58669640	58669640	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgataaaaagagctgggatgCctaaggtatttaaaaaaaaa	20	9	9	3	0	0	2	0	1	0	1	0	3	0	3	1	2	2	2	1	2	10	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:58669640C>T	uc001xdf.2	+	2	248	c.145C>T	c.(145-147)CCT>TCT	p.P49S	C14orf37_uc010tro.1_Intron|ACTR10_uc001xdg.2_5'UTR|ACTR10_uc001xdh.2_5'UTR	NM_018477	NP_060947	Q9NZ32	ARP10_HUMAN	uncharacterized hypothalamus protein HARP11	49						cytoplasm				central_nervous_system(1)	1						AGCTGGGATGCCTAAGGTATT	0.279													65	149					0	0	0.01441	0	0		T	58669640	T	T	58669640	3	4	134	1	0	0	0	0	1	0	0	0	208	739	26	2	151	2	ACTR10	14	58669640	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1617051	58669640	48679900	1208	73866											
TRMT5	57570	broad.mit.edu	37	chr14	61446155	61446156	+	Missense_Mutation	DNP	GC	AT	AT																															gctctaaaacactgagttctGctttctcaaaggaatcatga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:61446155_61446156GC>AT	uc001xff.3	-	2	551_552	c.460_461GC>AT	c.(460-462)GCA>ATA	p.A154I	SLC38A6_uc001xfg.1_5'Flank|SLC38A6_uc001xfh.1_5'Flank|SLC38A6_uc001xfi.2_5'Flank|SLC38A6_uc001xfj.1_5'Flank|SLC38A6_uc001xfk.2_5'Flank|SLC38A6_uc010trz.1_5'Flank	NM_020810	NP_065861	Q32P41	TRMT5_HUMAN	tRNA methyltransferase 5	154						cytoplasm	tRNA (guanine-N1-)-methyltransferase activity			central_nervous_system(2)|large_intestine(1)	3				OV - Ovarian serous cystadenocarcinoma(108;0.0873)		ACTGAGTTCTGCTTTCTCAAAG	0.356													102	169					0	0	0.004672	0	0		AT	61446156	AT	AT	61446155	3	1	134	1	0	0	0	0	1	0	0	0	16593	1319	46	2	1084	2	TRMT5	14	61446155	Missense_Mutation	DNP	GC	TCGA-CG-4442-01A-01D-1158-08	2776515	61446155	45903385	1209	73867											
TRMT5	57570	broad.mit.edu	37	chr14	61446523	61446523	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggatgtccaagctactggAatcaacgattttgattcagt	12	12	10	7	1	2	1	2	1	0	0	3	4	3	3	1	2	3	1	1	2	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:61446523A>G	uc001xff.3	-	2	184	c.93T>C	c.(91-93)ATT>ATC	p.I31I	SLC38A6_uc001xfg.1_5'Flank|SLC38A6_uc001xfh.1_5'Flank|SLC38A6_uc001xfi.2_5'Flank|SLC38A6_uc001xfj.1_5'Flank|SLC38A6_uc001xfk.2_5'Flank|SLC38A6_uc010trz.1_5'Flank	NM_020810	NP_065861	Q32P41	TRMT5_HUMAN	tRNA methyltransferase 5	31						cytoplasm	tRNA (guanine-N1-)-methyltransferase activity			central_nervous_system(2)|large_intestine(1)	3				OV - Ovarian serous cystadenocarcinoma(108;0.0873)		AAGCTACTGGAATCAACGATT	0.368													10	270					0	0	0.006214	0	0		G	61446523	G	G	61446523	2	3	134	1	0	0	0	0	0	0	0	1	16593	242	9	3		3	TRMT5	14	61446523	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	368	61446523	45903017	1210	73868											
ZBTB1	22890	broad.mit.edu	37	chr14	64988914	64988914	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttagctgtgaaaaattatTagatgagcatgtgctaacct	13	14	8	6	0	0	3	0	2	0	1	0	3	0	3	1	0	4	3	1	0	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:64988914T>C	uc001xhh.3	+	4	1123	c.692T>C	c.(691-693)TTA>TCA	p.L231S	ZBTB1_uc010aqg.2_Missense_Mutation_p.L231S|ZBTB1_uc001xhi.2_Missense_Mutation_p.L231S	NM_001123329	NP_001116801	Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1 isoform	231	C2H2-type 1; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		all_lung(585;0.000567)|Myeloproliferative disorder(585;0.0255)|all_neural(303;0.0294)		UCEC - Uterine corpus endometrioid carcinoma (185;0.0182)|all cancers(60;3.78e-43)|OV - Ovarian serous cystadenocarcinoma(108;1.22e-20)|BRCA - Breast invasive adenocarcinoma(234;6.75e-06)|KIRC - Kidney renal clear cell carcinoma(182;0.00269)|STAD - Stomach adenocarcinoma(64;0.012)		GAAAAATTATTAGATGAGCAT	0.373													4	171					0	0	0.009096	0	0		C	64988914	C	C	64988914	3	2	134	1	0	0	0	0	1	0	0	0	17547	1764	61	3	694	3	ZBTB1	14	64988914	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3542391	64988914	42360626	1211	73869											
HSPA2	3306	broad.mit.edu	37	chr14	65008542	65008542	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtggagaaggcgctgcgCgacgccaagctggacaaggg	9	3	18	11	5	0	1	0	0	0	1	0	4	0	2	2	5	2	2	2	5	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:65008542C>T	uc001xhj.2	+	2	1051	c.975C>T	c.(973-975)CGC>CGT	p.R325R	HSPA2_uc001xhk.3_Silent_p.R325R	NM_021979	NP_068814	P54652	HSP72_HUMAN	heat shock 70kDa protein 2	325					response to unfolded protein|spermatid development	cell surface	ATP binding|unfolded protein binding			skin(1)	1				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)		AGGCGCTGCGCGACGCCAAGC	0.627													24	45					0	0	0.005443	0	0		T	65008542	T	T	65008542	2	4	134	1	0	0	0	0	0	0	0	1	7427	755	27	1		1	HSPA2	14	65008542	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	19628	65008542	42340998	1212	73870											
GPHN	10243	broad.mit.edu	37	chr14	66975274	66975274	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagggaatgatccttactaAccacgaccatcaaatccgtg	13	8	8	12	3	1	1	1	1	0	0	3	4	3	2	4	1	2	0	4	1	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:66975274A>G	uc001xiy.2	+	1	1150	c.29A>G	c.(28-30)AAC>AGC	p.N10S	GPHN_uc001xiw.2_Missense_Mutation_p.N10S|GPHN_uc001xix.2_Missense_Mutation_p.N10S|GPHN_uc010tss.1_Missense_Mutation_p.N10S|GPHN_uc010tst.1_Missense_Mutation_p.N10S|uc010tsr.1_5'Flank	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	10			N -> Y (in STHE; sporadic case).		Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		ATCCTTACTAACCACGACCAT	0.622			T	MLL	AL								8	185					0	0	0.010729	0	0		G	66975274	G	G	66975274	3	3	134	1	0	0	0	0	1	0	0	0	6625	43	2	3	31	3	GPHN	14	66975274	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1966732	66975274	40374266	1213	73871											
PNMA1	9240	broad.mit.edu	37	chr14	74179954	74179954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatctctgggcccggggtcGgagtagggttctgaaaccca	7	8	15	11	2	2	1	0	1	2	0	4	2	2	2	2	5	1	3	2	5	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:74179954G>A	uc001xor.1	-	1	1175	c.389C>T	c.(388-390)CCG>CTG	p.P130L		NM_006029	NP_006020	Q8ND90	PNMA1_HUMAN	paraneoplastic antigen MA1	130					apoptosis|central nervous system development|inflammatory response to antigenic stimulus|spermatogenesis	cytoplasm|focal adhesion|nucleolus	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00331)|KIRC - Kidney renal clear cell carcinoma(182;0.0797)		gcccggggtcggagtagggtt	0													80	173					0	0	0.01441	0	0		A	74179954	A	A	74179954	3	1	134	1	0	0	0	0	1	0	0	0	12172	1116	39	1	676	1	PNMA1	14	74179954	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	7204680	74179954	33169586	1214	73872											
DLST	1743	broad.mit.edu	37	chr14	75361033	75361033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagaaaatgaacaggatgCggcagcgcattgctcagcgt	13	6	14	8	3	1	2	1	1	0	1	1	4	1	3	0	3	5	3	0	3	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:75361033C>T	uc001xqv.2	+	10	754	c.691C>T	c.(691-693)CGG>TGG	p.R231W	DLST_uc001xqu.2_Missense_Mutation_p.R143W|DLST_uc001xqt.2_Missense_Mutation_p.R147W|DLST_uc010tuw.1_Missense_Mutation_p.R145W|DLST_uc001xqs.2_RNA|DLST_uc010tuv.1_Missense_Mutation_p.R231W	NM_001933	NP_001924	P36957	ODO2_HUMAN	dihydrolipoamide S-succinyltransferase (E2	231					lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	dihydrolipoyllysine-residue succinyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00698)		GAACAGGATGCGGCAGCGCAT	0.468													57	112					0	0	0.01441	0	0		T	75361033	T	T	75361033	3	4	134	1	0	0	0	0	1	0	0	0	4575	759	27	1	729	1	DLST	14	75361033	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1181079	75361033	31988507	1215	73873											
FAM164C	79696	broad.mit.edu	37	chr14	75537864	75537864	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtactgttcttgctgccacGcaggcggagaaggccgtggc	6	8	16	11	3	1	1	0	0	1	1	1	2	1	1	2	5	3	4	2	5	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:75537864G>A	uc001xri.2	+	2	761	c.588G>A	c.(586-588)ACG>ACA	p.T196T	FAM164C_uc001xrh.2_Silent_p.T196T	NM_001042430	NP_001035895	Q53FD0	F164C_HUMAN	chromosome 14 open reading frame 140 isoform b	196										ovary(1)	1						TTGCTGCCACGCAGGCGGAGA	0.542													109	209					0	0	0.01441	0	0		A	75537864	A	A	75537864	2	1	134	1	0	0	0	0	0	0	0	1	5490	1074	38	1		1	FAM164C	14	75537864	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	176831	75537864	31811676	1216	73874											
BATF	10538	broad.mit.edu	37	chr14	75991481	75991481	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagaaaaatcgtattgccGcccagaagagccgacagagg	14	4	14	9	3	0	4	0	0	0	4	1	6	0	4	3	2	2	1	3	2	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:75991481G>A	uc001xrr.2	+	2	360	c.118G>A	c.(118-120)GCC>ACC	p.A40T		NM_006399	NP_006390	Q16520	BATF_HUMAN	basic leucine zipper transcription factor,	40	Basic motif.					nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.028)		TCGTATTGCCGCCCAGAAGAG	0.527													20	28					0	0	0.008871	0	0		A	75991481	A	A	75991481	3	1	134	1	0	0	0	0	1	0	0	0	1326	1087	38	1	124	1	BATF	14	75991481	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	453617	75991481	31358059	1217	73875											
TTLL5	23093	broad.mit.edu	37	chr14	76368497	76368497	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcagagggtcctccgcGgaagggcagctgaatggact	8	9	15	9	2	1	2	1	1	0	1	3	4	3	4	2	4	1	3	2	4	2	1	rs142835737	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:76368497G>A	uc001xrx.2	+	31	3958	c.3753G>A	c.(3751-3753)GCG>GCA	p.A1251A	TTLL5_uc001xsa.2_Silent_p.A325A	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	1251					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		GGTCCTCCGCGGAAGGGCAGC	0.577													52	87					0	0	0.01441	0	0		A	76368497	A	A	76368497	2	1	134	1	0	0	0	0	0	0	0	1	16756	1103	39	1		1	TTLL5	14	76368497	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	377016	76368497	30981043	1218	73876											
C14orf179	112752	broad.mit.edu	37	chr14	76549611	76549611	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcaccaaagtgctcgcGccggagcacgaagtccggga	9	5	12	15	5	1	0	1	0	0	0	4	3	3	2	4	2	2	2	4	2	2	0	rs143729954		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:76549611G>A	uc010asm.1	+	8	520	c.486G>A	c.(484-486)GCG>GCA	p.A162A	C14orf179_uc001xsg.2_Silent_p.A167A|C14orf179_uc010tve.1_RNA	NM_001102564	NP_001096034	Q96FT9	IFT43_HUMAN	hypothetical protein LOC112752 isoform 2	162					cilium morphogenesis|intraflagellar retrograde transport						0				BRCA - Breast invasive adenocarcinoma(234;0.0199)		AAGTGCTCGCGCCGGAGCACG	0.582													19	43					0	0	0.010504	0	0		A	76549611	A	A	76549611	2	1	134	1	0	0	0	0	0	0	0	1	1765	1074	38	1		1	C14orf179	14	76549611	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	181114	76549611	30799929	1219	73877											
C14orf4	64207	broad.mit.edu	37	chr14	77493111	77493111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcttctccttcaactcgCgctcctggtctgtgctcgac	3	13	9	16	3	3	0	1	0	2	0	7	1	4	0	2	1	3	4	2	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:77493111C>T	uc001xsy.2	-	1	1924	c.1025G>A	c.(1024-1026)CGC>CAC	p.R342H		NM_024496	NP_078772	Q9H1B7	I2BPL_HUMAN	chromosome 14 open reading frame 4	342	Potential.					nucleus					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.00347)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)		CTTCAACTCGCGCTCCTGGTC	0.677													22	34					0	0	0.012319	0	0		T	77493111	T	T	77493111	3	4	134	1	0	0	0	0	1	0	0	0	1776	768	27	1	1369	1	C14orf4	14	77493111	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	943500	77493111	29856429	1220	73878											
NRXN3	9369	broad.mit.edu	37	chr14	79181267	79181267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caactatggctacgtgggctGcatccgcgacctattcattg	8	11	10	12	3	1	0	1	0	0	0	2	1	2	0	2	2	3	3	2	2	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:79181267G>A	uc001xun.2	+	5	1201	c.710G>A	c.(709-711)TGC>TAC	p.C237Y	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.C371Y	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	610	Extracellular (Potential).|Laminin G-like 3.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		TACGTGGGCTGCATCCGCGAC	0.572													25	51					0	0	0.005443	0	0		A	79181267	A	A	79181267	3	1	134	1	0	0	0	0	1	0	0	0	10686	1319	46	2	720	2	NRXN3	14	79181267	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1688156	79181267	28168273	1221	73879											
TSHR	7253	broad.mit.edu	37	chr14	81422185	81422185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccagcttaccgcccagtaCgcagactctgtgagtacccg	8	7	9	17	3	1	2	0	1	1	1	1	2	1	2	5	0	4	4	5	0	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:81422185C>T	uc001xvd.1	+	1	317	c.161C>T	c.(160-162)ACG>ATG	p.T54M	C14orf145_uc001xva.1_Intron|TSHR_uc001xvb.1_Missense_Mutation_p.T54M|TSHR_uc001xvc.2_Missense_Mutation_p.T54M|TSHR_uc010tvs.1_Missense_Mutation_p.T54M	NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	54	Extracellular (Potential).				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	CCGCCCAGTACGCAGACTCTG	0.567			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						8	175					0	0	0.006214	0	0		T	81422185	T	T	81422185	3	4	134	1	0	0	0	0	1	0	0	0	16648	536	19	1	163	1	TSHR	14	81422185	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2240918	81422185	25927355	1222	73880											
TSHR	7253	broad.mit.edu	37	chr14	81610680	81610680	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaaatctcagaagagtatAtgcaaacggttttgtaagtt	14	12	9	6	1	1	2	1	0	1	2	2	2	1	2	1	1	2	5	1	1	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:81610680A>G	uc001xvd.1	+	10	2434	c.2278A>G	c.(2278-2280)ATG>GTG	p.M760V		NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	760	Cytoplasmic (Potential).				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	AGAAGAGTATATGCAAACGGT	0.413			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						29	111					0	0	0.010818	0	0		G	81610680	G	G	81610680	3	3	134	1	0	0	0	0	1	0	0	0	16648	449	16	3	2453	3	TSHR	14	81610680	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	188495	81610680	25738860	1223	73881											
GTF2A1	2957	broad.mit.edu	37	chr14	81670341	81670341	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatggtgatggtggtgatgCtgctgctgctggggttgatg	4	14	19	4	0	0	4	0	4	0	0	0	4	0	4	0	5	4	5	0	5	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:81670341C>A	uc001xvf.1	-	3	672	c.240G>T	c.(238-240)CAG>CAT	p.Q80H	GTF2A1_uc010atb.1_Missense_Mutation_p.Q30H|GTF2A1_uc001xvg.1_Missense_Mutation_p.Q41H|GTF2A1_uc001xvh.1_Missense_Mutation_p.Q41H|SNORA79_uc001xvi.1_5'Flank	NM_015859	NP_056943	P52655	TF2AA_HUMAN	TFIIA alpha, p55 isoform 1	80	Poly-Gln.				regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|transcription factor TFIIA complex	DNA binding|protein binding|protein heterodimerization activity|TBP-class protein binding|transcription coactivator activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0287)		ggtggtgatgctgctgctgct	0.249													26	27					4.22769e-11	4.70992e-11	0.00632	1	0		A	81670341	A	A	81670341	3	1	134	1	0	0	0	0	1	0	0	0	6868	796	28	5	918	5	GTF2A1	14	81670341	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	59661	81670341	25679199	1224	73882											
STON2	85439	broad.mit.edu	37	chr14	81743536	81743536	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagccagttgacatcctcaGccagctctgcacctccacct	9	8	7	17	0	2	1	1	1	1	0	4	2	4	1	6	0	4	3	6	0	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:81743536G>A	uc010tvu.1	-	4	2320	c.2119C>T	c.(2119-2121)CTG>TTG	p.L707L	STON2_uc001xvk.1_Silent_p.L707L|STON2_uc010tvt.1_Silent_p.L504L	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	707	MHD.				endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		GACATCCTCAGCCAGCTCTGC	0.557													57	109					0	0	0.01441	0	0		A	81743536	A	A	81743536	2	1	134	1	0	0	0	0	0	0	0	1	15343	962	34	2		2	STON2	14	81743536	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	73195	81743536	25606004	1225	73883											
STON2	85439	broad.mit.edu	37	chr14	81837500	81837500	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggagtcaaaggaagggcAtgtccagcagggcatggtca	12	5	16	8	0	2	0	2	0	0	0	3	2	3	2	1	5	1	3	1	5	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:81837500A>G	uc010tvu.1	-	3	604	c.403T>C	c.(403-405)TGC>CGC	p.C135R	STON2_uc001xvk.1_Missense_Mutation_p.C135R	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	135					endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		AAGGAAGGGCATGTCCAGCAG	0.473													54	98					0	0	0.01441	0	0		G	81837500	G	G	81837500	3	3	134	1	0	0	0	0	1	0	0	0	15343	217	8	3	2324	3	STON2	14	81837500	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	93964	81837500	25512040	1226	73884											
CCDC88C	440193	broad.mit.edu	37	chr14	91770131	91770131	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggatgagggcctcgtactcGgccgattgccgctcgtgcag	5	8	15	13	6	0	1	0	1	0	0	3	3	0	2	3	3	3	3	3	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:91770131G>A	uc010aty.2	-	20	3648	c.3549C>T	c.(3547-3549)GCC>GCT	p.A1183A		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	1183	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				CCTCGTACTCGGCCGATTGCC	0.642													18	16					0	0	0.008871	0	0		A	91770131	A	A	91770131	2	1	134	1	0	0	0	0	0	0	0	1	2868	1103	39	1		1	CCDC88C	14	91770131	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	9932631	91770131	15579409	1227	73885											
CPSF2	53981	broad.mit.edu	37	chr14	92597333	92597333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggaccaaaaaaaatgaCgtctattatcaaattaacta	18	12	4	7	1	3	1	1	1	2	0	3	2	3	2	1	1	1	0	1	1	9	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:92597333C>T	uc001yah.1	+	3	242	c.5C>T	c.(4-6)ACG>ATG	p.T2M		NM_017437	NP_059133	Q9P2I0	CPSF2_HUMAN	cleavage and polyadenylation specific factor 2	2					histone mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	hydrolase activity|protein binding|RNA binding			ovary(2)	2		all_cancers(154;0.0766)		COAD - Colon adenocarcinoma(157;0.222)		AAAAAAATGACGTCTATTATC	0.343													64	129					0	0	0.01441	0	0		T	92597333	T	T	92597333	3	4	134	1	0	0	0	0	1	0	0	0	3828	536	19	1	7	1	CPSF2	14	92597333	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	827202	92597333	14752207	1228	73886											
C14orf109	26175	broad.mit.edu	37	chr14	93652935	93652935	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactgtatcatccctatatgCttggcagttatttgcaatcg	9	16	7	9	1	1	0	1	0	0	0	3	0	2	0	1	1	3	5	1	1	6	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:93652935C>T	uc010auo.2	+	2	787	c.429C>T	c.(427-429)TGC>TGT	p.C143C	MOAP1_uc001ybj.2_5'Flank|C14orf109_uc001ybk.3_Silent_p.C105C	NM_001098621	NP_001092091	Q8N6I4	CN109_HUMAN	hypothetical protein LOC26175 isoform 1	137						integral to membrane					0		all_cancers(154;0.11)|Acute lymphoblastic leukemia(33;0.0488)		Epithelial(152;0.176)|all cancers(159;0.197)|COAD - Colon adenocarcinoma(157;0.202)		TCCCTATATGCTTGGCAGTTA	0.403													8	359					0	0	0.004482	0	0		T	93652935	T	T	93652935	2	4	134	1	0	0	0	0	0	0	0	1	1742	805	28	2		2	C14orf109	14	93652935	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1055602	93652935	13696605	1229	73887											
GSC	145258	broad.mit.edu	37	chr14	95235311	95235311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctccactttctcctcgCggaggtgcactttccgggcc	4	11	9	17	3	1	0	0	0	1	0	5	1	3	1	5	3	2	1	5	3	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:95235311C>T	uc001ydu.2	-	2	746	c.599G>A	c.(598-600)CGC>CAC	p.R200H		NM_173849	NP_776248	P56915	GSC_HUMAN	goosecoid	200	Homeobox.				gastrulation|middle ear morphogenesis		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(154;0.0896)|all_epithelial(191;0.219)		COAD - Colon adenocarcinoma(157;0.202)|Epithelial(152;0.239)		TTTCTCCTCGCGGAGGTGCAC	0.682													5	2					0	0	0.000602	0	0		T	95235311	T	T	95235311	3	4	134	1	0	0	0	0	1	0	0	0	6830	768	27	1	182	1	GSC	14	95235311	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1582376	95235311	12114229	1230	73888											
DICER1	23405	broad.mit.edu	37	chr14	95590985	95590985	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcccagaactaccaatacGgcacgacagtctgatagtat	13	8	9	11	2	1	2	0	1	1	1	2	3	2	2	2	2	3	2	2	2	6	4	rs142397473	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:95590985G>A	uc001ydw.2	-	9	1106	c.924C>T	c.(922-924)GCC>GCT	p.A308A	DICER1_uc001ydv.2_Silent_p.A298A|DICER1_uc001ydx.2_Silent_p.A308A	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	308	Required for interaction with PRKRA and TARBP2.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		CTACCAATACGGCACGACAGT	0.383			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				7	136					0	0	0.004482	0	0		A	95590985	A	A	95590985	2	1	134	1	0	0	0	0	0	0	0	1	4527	1103	39	1		1	DICER1	14	95590985	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	355674	95590985	11758555	1231	73889											
ATG2B	55102	broad.mit.edu	37	chr14	96797967	96797967	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactgaaacagatctagaTgggagagctaaaatacaagt	17	8	9	7	0	1	4	0	1	1	3	2	5	2	4	1	1	3	1	1	1	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:96797967T>C	uc001yfi.2	-	11	1841	c.1476A>G	c.(1474-1476)CCA>CCG	p.P492P		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	492										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		CAGATCTAGATGGGAGAGCTA	0.279													27	58					0	0	0.007291	0	0		C	96797967	C	C	96797967	2	2	134	1	0	0	0	0	0	0	0	1	1095	1451	51	3		3	ATG2B	14	96797967	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1206982	96797967	10551573	1232	73890											
BEGAIN	57596	broad.mit.edu	37	chr14	101005631	101005631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccatgtgcaggctcacgcGctcctggaaatccgagggca	8	7	12	14	3	1	0	1	0	0	0	4	2	4	1	3	3	1	4	3	3	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:101005631G>A	uc010txa.1	-	6	603	c.457C>T	c.(457-459)CGC>TGC	p.R153C	BEGAIN_uc001yhp.2_Missense_Mutation_p.R89C|BEGAIN_uc001yhq.2_Missense_Mutation_p.R153C	NM_001159531	NP_001153003	Q9BUH8	BEGIN_HUMAN	brain-enriched guanylate kinase-associated	153						cytoplasm|membrane	protein binding				0		Melanoma(154;0.212)				AGGCTCACGCGCTCCTGGAAA	0.672													26	36					0	0	0.003954	0	0		A	101005631	A	A	101005631	3	1	134	1	0	0	0	0	1	0	0	0	1398	1087	38	1	1328	1	BEGAIN	14	101005631	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4207664	101005631	6343909	1233	73891											
RTL1	388015	broad.mit.edu	37	chr14	101347381	101347381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgtcttgcaggccgtcatGcaggccacactgacggtaac	8	8	13	12	2	2	1	1	1	1	0	2	1	2	1	2	4	3	3	2	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:101347381G>A	uc010txj.1	-	1	3804	c.3745C>T	c.(3745-3747)CAT>TAT	p.H1249Y	MIR431_hsa-mir-431|MI0001721_RNA|MIR433_hsa-mir-433|MI0001723_5'Flank|uc001yig.3_5'Flank|MIR127_hsa-mir-127|MI0000472_5'Flank	NM_001134888	NP_001128360	A6NKG5	RTL1_HUMAN	retrotransposon-like 1	1249										pancreas(1)	1						AGGCCGTCATGCAGGCCACAC	0.632													7	9					0	0	0.004482	0	0		A	101347381	A	A	101347381	3	1	134	1	0	0	0	0	1	0	0	0	13749	1319	46	2	335	2	RTL1	14	101347381	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	341750	101347381	6002159	1234	73892											
RTL1	388015	broad.mit.edu	37	chr14	101348236	101348236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaatgcccggggagaagtaCggtgagcctgtcattattca	10	9	12	10	2	2	2	2	1	0	1	2	3	2	2	3	3	3	1	3	3	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:101348236C>T	uc010txj.1	-	1	2949	c.2890G>A	c.(2890-2892)GTA>ATA	p.V964I	MIR433_hsa-mir-433|MI0001723_RNA|uc001yig.3_5'Flank|MIR127_hsa-mir-127|MI0000472_5'Flank|MIR432_hsa-mir-432|MI0003133_5'Flank|uc010txk.1_5'Flank|MIR136_hsa-mir-136|MI0000475_5'Flank	NM_001134888	NP_001128360	A6NKG5	RTL1_HUMAN	retrotransposon-like 1	964										pancreas(1)	1						GGGAGAAGTACGGTGAGCCTG	0.552													53	139					0	0	0.01441	0	0		T	101348236	T	T	101348236	3	4	134	1	0	0	0	0	1	0	0	0	13749	536	19	1	1190	1	RTL1	14	101348236	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	855	101348236	6001304	1235	73893											
MARK3	4140	broad.mit.edu	37	chr14	103941357	103941357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctattccttctgttgtggCgtatccgaaaaggagtcaga	10	12	11	8	2	2	1	1	0	1	1	4	3	4	2	2	2	1	3	2	2	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:103941357C>T	uc001ymz.3	+	13	1958	c.1292C>T	c.(1291-1293)GCG>GTG	p.A431V	MARK3_uc001ymx.3_Missense_Mutation_p.A431V|MARK3_uc001ymw.3_Missense_Mutation_p.A431V|MARK3_uc001yna.3_Missense_Mutation_p.A415V|MARK3_uc001ymy.3_Missense_Mutation_p.A352V|MARK3_uc010awp.2_Missense_Mutation_p.A454V|MARK3_uc010tyb.1_Missense_Mutation_p.A226V|MARK3_uc010awq.2_5'UTR	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	431							ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			TCTGTTGTGGCGTATCCGAAA	0.398													19	35					0	0	0.007413	0	0		T	103941357	T	T	103941357	3	4	134	1	0	0	0	0	1	0	0	0	9332	768	27	1	1342	1	MARK3	14	103941357	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2593121	103941357	3408183	1236	73894											
MARK3	4140	broad.mit.edu	37	chr14	103941521	103941521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataaggcggatattcctgaaCgcaagaaaagctccactgtc	14	8	9	10	2	0	2	0	1	0	1	3	3	2	3	2	2	2	2	2	2	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:103941521C>T	uc001ymz.3	+	13	2122	c.1456C>T	c.(1456-1458)CGC>TGC	p.R486C	MARK3_uc001ymx.3_Missense_Mutation_p.R486C|MARK3_uc001ymw.3_Missense_Mutation_p.R486C|MARK3_uc001yna.3_Missense_Mutation_p.R470C|MARK3_uc001ymy.3_Missense_Mutation_p.R407C|MARK3_uc010awp.2_Missense_Mutation_p.R509C|MARK3_uc010tyb.1_Missense_Mutation_p.R281C|MARK3_uc010awq.2_Missense_Mutation_p.R16C	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	486							ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			TATTCCTGAACGCAAGAAAAG	0.478													29	60					0	0	0.008361	0	0		T	103941521	T	T	103941521	3	4	134	1	0	0	0	0	1	0	0	0	9332	536	19	1	1506	1	MARK3	14	103941521	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	164	103941521	3408019	1237	73895											
KIF26A	26153	broad.mit.edu	37	chr14	104633326	104633326	+	Frame_Shift_Del	DEL	C	-	-																															agctgtggccgcccccggcgCccccctgcctgctcagggcc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:104633326delC	uc001yos.3	+	5	1054	c.1054delC	c.(1054-1056)CCCfs	p.P352fs		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	352					blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		GCCCCCGGCGCCCCCCTGCCT	0.731													9	1	---	---	---	---						.	-	104633326	-	-	104633326	7	5	134	1	0	1	0	1	0	0	0	0	8310	739	26	0	1072	0	KIF26A	14	104633326	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	691805	104633326	2716214	1238	73896											
KIF26A	26153	broad.mit.edu	37	chr14	104639382	104639382	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcgtgccctgcgccatcTcctggctcttcaggctcatc	4	11	9	17	2	4	0	2	0	2	0	7	0	4	0	3	2	2	3	3	2	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:104639382T>C	uc001yos.3	+	8	1489	c.1489T>C	c.(1489-1491)TCC>CCC	p.S497P		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	497	Kinesin-motor.				blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		CTGCGCCATCTCCTGGCTCTT	0.687													7	17					0	0	0.00308	0	0		C	104639382	C	C	104639382	3	2	134	1	0	0	0	0	1	0	0	0	8310	1551	54	3	1519	3	KIF26A	14	104639382	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	6056	104639382	2710158	1239	73897											
ADSSL1	122622	broad.mit.edu	37	chr14	105206963	105206963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaccaccaagaagggaatcGgaccaacctactcttccaaa	15	5	7	14	1	1	1	0	0	1	1	3	3	2	3	5	2	2	1	5	2	6	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:105206963G>A	uc001ypd.2	+	6	576	c.502G>A	c.(502-504)GGA>AGA	p.G168R	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Missense_Mutation_p.G211R|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	168					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	GAAGGGAATCGGACCAACCTA	0.567													68	115					0	0	0.01441	0	0		A	105206963	A	A	105206963	3	1	134	1	0	0	0	0	1	0	0	0	348	1117	39	1	849	1	ADSSL1	14	105206963	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	567581	105206963	2142577	1240	73898											
KIAA0284	283638	broad.mit.edu	37	chr14	105353032	105353032	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcttgcggctccaggggatgGggagggcctagggcagacag	7	5	20	9	1	0	1	0	0	0	1	1	3	1	3	2	7	1	3	2	7	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:105353032G>T	uc010axb.2	+	12	2680	c.2456G>T	c.(2455-2457)GGG>GTG	p.G819V	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Missense_Mutation_p.G749V|KIAA0284_uc001yps.2_Missense_Mutation_p.G725V|KIAA0284_uc001ypt.2_5'Flank	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	819						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		CCAGGGGATGGGGAGGGCCTA	0.642													8	42					6.40141e-05	6.996e-05	0.010729	1	0		T	105353032	T	T	105353032	3	4	134	1	0	0	0	0	1	0	0	0	8182	1232	43	5	2498	5	KIAA0284	14	105353032	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	146069	105353032	1996508	1241	73899											
AHNAK2	113146	broad.mit.edu	37	chr14	105419601	105419601	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctggacctccaggtcagcGgaaggggtctggacgctgag	7	7	16	11	2	2	1	1	1	1	0	4	4	4	4	3	6	1	1	3	6	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:105419601G>A	uc010axc.1	-	7	2307	c.2187C>T	c.(2185-2187)TCC>TCT	p.S729S	AHNAK2_uc001ypx.2_Silent_p.S629S	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	729						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCAGGTCAGCGGAAGGGGTCT	0.652													102	190					0	0	0.01441	0	0		A	105419601	A	A	105419601	2	1	134	1	0	0	0	0	0	0	0	1	415	1103	39	1		1	AHNAK2	14	105419601	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	66569	105419601	1929939	1242	73900											
MTA1	9112	broad.mit.edu	37	chr14	105930432	105930432	+	Frame_Shift_Del	DEL	G	-	-																															gccggtgtggtgaacggcacGggggcgccgggccagagccc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr14:105930432delG	uc001yqx.2	+	13	1327	c.1140delG	c.(1138-1140)ACGfs	p.T380fs	MTA1_uc001yqy.2_RNA|MTA1_uc001yrb.2_Frame_Shift_Del_p.T141fs	NM_004689	NP_004680	Q13330	MTA1_HUMAN	metastasis associated protein	380					signal transduction	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		TGAACGGCACGGGGGCGCCGG	0.642													88	167	---	---	---	---						.	-	105930432	-	-	105930432	7	5	134	1	0	1	0	1	0	0	0	0	9926	1103	39	0	1190	0	MTA1	14	105930432	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	510831	105930432	1419108	1243	73901											
MKRN3	7681	broad.mit.edu	37	chr15	23811911	23811911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccaaccccaatgaccgcCgctttggcattctttccaat	9	10	7	15	2	1	1	0	1	1	0	2	1	2	1	6	2	1	2	6	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:23811911C>T	uc001ywh.3	+	1	1458	c.982C>T	c.(982-984)CGC>TGC	p.R328C	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.R328C	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	328	RING-type.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		CAATGACCGCCGCTTTGGCAT	0.493													43	74					0	0	0.010771	0	0		T	23811911	T	T	23811911	3	4	134	1	0	0	0	0	1	0	0	0	9626	652	23	1	984	1	MKRN3	15	23811911	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08		23811911	78719481	1244	73902											
MAGEL2	54551	broad.mit.edu	37	chr15	23890382	23890382	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcatattgggctgtgggacCcatggaactgcaggcagggc	8	9	15	9	0	1	0	1	0	0	0	1	2	1	2	1	5	2	3	1	5	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:23890382C>A	uc001ywj.3	-	1	794	c.699G>T	c.(697-699)TGG>TGT	p.W233C		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		GCTGTGGGACCCATGGAACTG	0.587													48	70					2.13384e-23	2.47167e-23	0.01441	1	0		A	23890382	A	A	23890382	3	1	134	1	0	0	0	0	1	0	0	0	9207	624	22	5	1245	5	MAGEL2	15	23890382	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	78471	23890382	78641010	1245	73903											
UBE3A	7337	broad.mit.edu	37	chr15	25601091	25601091	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccattttcctttagatcaTacatcattgggttaccaaaa	13	14	4	10	0	2	1	2	0	0	1	3	1	3	1	3	1	2	1	3	1	5	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:25601091T>C	uc001zaq.2	-	7	2081	c.2081A>G	c.(2080-2082)TAT>TGT	p.Y694C	uc001zae.2_Intron|UBE3A_uc001zar.2_Missense_Mutation_p.Y671C|UBE3A_uc001zas.2_Missense_Mutation_p.Y691C|UBE3A_uc001zat.2_Missense_Mutation_p.Y671C	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	694					brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		CTTTAGATCATACATCATTGG	0.308													56	103					0	0	0.01441	0	0		C	25601091	C	C	25601091	3	2	134	1	0	0	0	0	1	0	0	0	16905	1406	49	3	566	3	UBE3A	15	25601091	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1710709	25601091	76930301	1246	73904											
ATP10A	57194	broad.mit.edu	37	chr15	25972394	25972394	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctttatacagcccggcctTtttcccgttgtcatgtatgc	5	17	7	12	2	2	0	1	0	1	0	3	0	3	0	3	1	3	2	3	1	3	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:25972394T>C	uc010ayu.2	-	4	866	c.760A>G	c.(760-762)AAG>GAG	p.K254E		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	254	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		AGCCCGGCCTTTTTCCCGTTG	0.562													4	112					0	0	0.001984	0	0		C	25972394	C	C	25972394	3	2	134	1	0	0	0	0	1	0	0	0	1117	1850	64	3	3811	3	ATP10A	15	25972394	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	371303	25972394	76558998	1247	73905											
HERC2	8924	broad.mit.edu	37	chr15	28447365	28447365	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacctgtatgtcggagtggTccagcagccacccgaccaag	9	7	12	13	2	0	1	0	1	0	0	2	3	1	2	5	2	2	2	5	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:28447365T>A	uc001zbj.2	-	47	7617	c.7511A>T	c.(7510-7512)GAC>GTC	p.D2504V	HERC2_uc001zbk.1_Missense_Mutation_p.D39V	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2504					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GTCGGAGTGGTCCAGCAGCCA	0.587													19	46					0	0	0.008871	0	0		A	28447365	A	A	28447365	3	1	134	1	0	0	0	0	1	0	0	0	7074	1667	58	5	7181	5	HERC2	15	28447365	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2474971	28447365	74084027	1248	73906											
HERC2	8924	broad.mit.edu	37	chr15	28465618	28465618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagagtcatcctctgtgtccGaatcctctgctgagggctgt	6	12	11	12	1	3	2	1	1	2	1	6	3	6	2	3	1	1	2	3	1	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:28465618G>A	uc001zbj.2	-	37	5931	c.5825C>T	c.(5824-5826)TCG>TTG	p.S1942L		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1942					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CTCTGTGTCCGAATCCTCTGC	0.577													87	176					0	0	0.01441	0	0		A	28465618	A	A	28465618	3	1	134	1	0	0	0	0	1	0	0	0	7074	1059	37	1	8907	1	HERC2	15	28465618	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	18253	28465618	74065774	1249	73907											
HERC2	8924	broad.mit.edu	37	chr15	28482215	28482215	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgtgtctatcagaggtgaAgagagactccccagatctgg	10	10	12	9	0	4	5	1	1	3	4	5	6	5	5	2	2	0	0	2	2	2	1	rs4035908		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:28482215A>G	uc001zbj.2	-	26	4003	c.3897T>C	c.(3895-3897)TCT>TCC	p.S1299S		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1299					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TCAGAGGTGAAGAGAGACTCC	0.428													3	135					0	0	0.006214	0	0		G	28482215	G	G	28482215	2	3	134	1	0	0	0	0	0	0	0	1	7074	59	3	3		3	HERC2	15	28482215	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	16597	28482215	74049177	1250	73908											
RYR3	6263	broad.mit.edu	37	chr15	34150026	34150026	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtggtggtttatctctatActgtggtggctttcaacttc	5	17	10	9	1	2	0	1	0	1	0	4	0	2	0	1	4	2	2	1	4	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:34150026A>G	uc001zhi.2	+	99	14123	c.14053A>G	c.(14053-14055)ACT>GCT	p.T4685A	RYR3_uc010bar.2_Missense_Mutation_p.T4680A	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4685	Helical; Name=M8; (Potential).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTATCTCTATACTGTGGTGGC	0.498													3	146					0	0	0.004672	0	0		G	34150026	G	G	34150026	3	3	134	1	0	0	0	0	1	0	0	0	13795	391	14	3	14447	3	RYR3	15	34150026	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	5667811	34150026	68381366	1251	73909											
ZNF770	54989	broad.mit.edu	37	chr15	35273809	35273809	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctctgaataactgcaaaaAggattgctttgctctgattc	11	14	8	8	0	2	2	0	2	2	0	3	3	2	3	0	1	5	4	0	1	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:35273809A>G	uc001ziw.2	-	3	2138	c.1827T>C	c.(1825-1827)CCT>CCC	p.P609P		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	609					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		AACTGCAAAAAGGATTGCTTT	0.423													6	244					0	0	0.001168	0	0		G	35273809	G	G	35273809	2	3	134	1	0	0	0	0	0	0	0	1	18168	59	3	3		3	ZNF770	15	35273809	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1123783	35273809	67257583	1252	73910											
EIF2AK4	440275	broad.mit.edu	37	chr15	40301865	40301865	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accatgttattgaaagcaatActcttacactgtgggatccc	12	12	7	10	0	1	1	0	1	1	0	2	2	2	2	2	1	3	2	2	1	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:40301865A>G	uc001zkm.1	+	26	3677	c.3627A>G	c.(3625-3627)ATA>ATG	p.I1209M	EIF2AK4_uc010bbj.1_Missense_Mutation_p.I910M|EIF2AK4_uc001zkn.1_Missense_Mutation_p.I309M|EIF2AK4_uc001zko.1_Missense_Mutation_p.I147M|EIF2AK4_uc010bbk.1_RNA	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	1209	Histidyl-tRNA synthetase-like.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		TGAAAGCAATACTCTTACACT	0.308													3	92					0	0	0.004672	0	0		G	40301865	G	G	40301865	3	3	134	1	0	0	0	0	1	0	0	0	5005	381	14	3	3729	3	EIF2AK4	15	40301865	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	5028056	40301865	62229527	1253	73911											
GANC	2595	broad.mit.edu	37	chr15	42632010	42632010	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctttggggaggaacacAcccgactcatccgagaagcc	10	6	12	13	2	2	1	1	0	1	1	3	5	3	3	3	4	2	1	3	4	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:42632010A>G	uc001zpi.2	+	17	2301	c.1987A>G	c.(1987-1989)ACC>GCC	p.T663A		NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	663					carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		GGAGGAACACACCCGACTCAT	0.572													4	88					0	0	0.009096	0	0		G	42632010	G	G	42632010	3	3	134	1	0	0	0	0	1	0	0	0	6249	159	6	3	2053	3	GANC	15	42632010	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2330145	42632010	59899382	1254	73912											
MFAP1	4236	broad.mit.edu	37	chr15	44106833	44106834	+	Frame_Shift_Ins	INS	-	T	T																															ccatgacttccatctcttcaINSttttttctctcctgtgctcg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:44106833_44106834insT	uc001zth.1	-	4	666_667	c.482_483insA	c.(481-483)AATfs	p.N161fs		NM_005926	NP_005917	P55081	MFAP1_HUMAN	microfibrillar-associated protein 1	161						microfibril				skin(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.33e-07)		CCATCTCTTCATTTTTTCTCTC	0.46													65	144	---	---	---	---						.	T	44106834	T	T	44106833	7	5	134	1	0	1	1	0	0	0	0	0	9531	214	8	0	860	0	MFAP1	15	44106833	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	1474823	44106833	58424559	1255	73913											
DUOXA1	90527	broad.mit.edu	37	chr15	45410170	45410170	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggccgggaagcagtgcccgCcaggcctgggccaggagagc	8	2	18	13	2	0	1	0	0	0	1	0	3	0	2	5	5	3	1	5	5	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:45410170C>T	uc001zup.2	-	10	1489	c.1089G>A	c.(1087-1089)TGG>TGA	p.W363*	DUOXA2_uc001zuo.2_3'UTR|DUOXA2_uc010beb.2_RNA|DUOXA1_uc010uem.1_Nonsense_Mutation_p.W318*|DUOXA1_uc010bec.2_Nonsense_Mutation_p.W363*	NM_144565	NP_653166	Q1HG43	DOXA1_HUMAN	Numb-interacting protein	Error:Variant_position_missing_in_Q1HG43_after_alignment					protein transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1		all_cancers(109;6.02e-08)|all_epithelial(112;1.83e-06)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.82e-18)|GBM - Glioblastoma multiforme(94;4.39e-07)|COAD - Colon adenocarcinoma(120;0.0676)|Colorectal(133;0.0686)		GCAGTGCCCGCCAGGCCTGGG	0.642											OREG0023102	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	49	70					0	0	0.01441	0	0		T	45410170	T	T	45410170	4	4	134	1	0	0	0	0	0	1	0	0	4808	740	26	2	370	2	DUOXA1	15	45410170	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1303337	45410170	57121222	1256	73914											
SECISBP2L	9728	broad.mit.edu	37	chr15	49293144	49293144	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttaacttcatatgtttGgtaacttctcttagacccat	9	19	5	8	0	2	1	1	0	1	1	3	1	2	1	1	1	2	3	1	1	4	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:49293144G>T	uc001zxe.1	-	15	2312	c.2178C>A	c.(2176-2178)ACC>ACA	p.T726T	SECISBP2L_uc001zxd.1_Silent_p.T681T|SECISBP2L_uc010bep.1_Silent_p.T488T	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	726										breast(1)|skin(1)	2						TCATATGTTTGGTAACTTCTC	0.378													55	90					3.28156e-27	3.83643e-27	0.01441	1	0		T	49293144	T	T	49293144	2	4	134	1	0	0	0	0	0	0	0	1	14032	1335	47	5		5	SECISBP2L	15	49293144	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	3882974	49293144	53238248	1257	73915											
GLDN	342035	broad.mit.edu	37	chr15	51693862	51693862	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgttcatccaccttccatActatttccatggctgtgggc	7	13	7	14	1	1	0	1	0	0	0	4	0	4	0	4	2	1	2	4	2	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:51693862A>G	uc002aba.2	+	9	1269	c.1100A>G	c.(1099-1101)TAC>TGC	p.Y367C	GLDN_uc002abb.2_Missense_Mutation_p.Y243C	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	367	Extracellular (Potential).|Olfactomedin-like.				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		CACCTTCCATACTATTTCCAT	0.493											OREG0023125	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	124					0	0	0.001984	0	0		G	51693862	G	G	51693862	3	3	134	1	0	0	0	0	1	0	0	0	6449	391	14	3	1134	3	GLDN	15	51693862	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2400718	51693862	50837530	1258	73916											
MYO5A	4644	broad.mit.edu	37	chr15	52689455	52689455	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagcagaatggagagccTgattgacattatctacaatc	14	10	9	8	0	1	5	0	3	1	2	2	6	1	5	1	1	3	1	1	1	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:52689455T>C	uc002aby.2	-	10	1506	c.1262A>G	c.(1261-1263)CAG>CGG	p.Q421R	MYO5A_uc002abx.3_Missense_Mutation_p.Q421R|MYO5A_uc010uge.1_Missense_Mutation_p.Q290R	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	421	Myosin head-like.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		ATGGAGAGCCTGATTGACATT	0.448													42	87					0	0	0.009718	0	0		C	52689455	C	C	52689455	3	2	134	1	0	0	0	0	1	0	0	0	10096	1580	55	3	4433	3	MYO5A	15	52689455	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	995593	52689455	49841937	1259	73917											
PIGB	9488	broad.mit.edu	37	chr15	55611484	55611484	+	Frame_Shift_Del	DEL	G	-	-																															agcaagtgcggaatggagccGgggggcggagatgccagcct																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:55611484delG	uc002act.2	+	1	352	c.36delG	c.(34-36)CCGfs	p.P12fs	uc002acs.2_5'Flank|PIGB_uc010ugg.1_5'UTR	NM_004855	NP_004846	Q92521	PIGB_HUMAN	phosphatidylinositol glycan, class B	12					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	integral to membrane|intrinsic to endoplasmic reticulum membrane	glycolipid mannosyltransferase activity				0				all cancers(107;0.0255)		GAATGGAGCCGGGGGGCGGAG	0.577													4	6	---	---	---	---						.	-	55611484	-	-	55611484	7	5	134	1	0	1	0	1	0	0	0	0	11904	1103	39	0	38	0	PIGB	15	55611484	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	2922029	55611484	46919908	1260	73918											
NEDD4	4734	broad.mit.edu	37	chr15	56132872	56132872	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacttgaagtaagagaggTgatcttcgttacacaatcca	15	11	8	7	1	1	3	0	2	1	1	3	4	2	3	1	1	2	2	1	1	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:56132872T>C	uc002adj.2	-	16	3449	c.3149A>G	c.(3148-3150)CAC>CGC	p.H1050R	NEDD4_uc002adl.2_Missense_Mutation_p.H631R|NEDD4_uc002adi.2_Missense_Mutation_p.H978R|NEDD4_uc010ugj.1_Missense_Mutation_p.H1034R|NEDD4_uc010bfm.2_Missense_Mutation_p.H1033R|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	1050	HECT.				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		GTAAGAGAGGTGATCTTCGTT	0.333													5	291					0	0	0.000602	0	0		C	56132872	C	C	56132872	3	2	134	1	0	0	0	0	1	0	0	0	10329	1696	59	3	850	3	NEDD4	15	56132872	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	521388	56132872	46398520	1261	73919											
ADAM10	102	broad.mit.edu	37	chr15	58925422	58925422	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagttatgtccaacttcGtgagcaaaagtaatgtgaga	15	10	9	7	1	0	2	0	2	0	1	2	3	1	2	2	0	2	3	2	0	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:58925422G>A	uc002afd.1	-	9	1593	c.1149C>T	c.(1147-1149)CAC>CAT	p.H383H	ADAM10_uc010bgc.1_RNA|ADAM10_uc010ugz.1_Silent_p.H82H|ADAM10_uc002afe.1_Intron	NM_001110	NP_001101	O14672	ADA10_HUMAN	ADAM metallopeptidase domain 10 precursor	383	Peptidase M12B.|Extracellular (Potential).	Zinc; catalytic.			cell-cell signaling|constitutive protein ectodomain proteolysis|epidermal growth factor receptor signaling pathway|in utero embryonic development|integrin-mediated signaling pathway|monocyte activation|negative regulation of cell adhesion|Notch receptor processing|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of T cell chemotaxis|protein phosphorylation|response to tumor necrosis factor	cell surface|endomembrane system|Golgi-associated vesicle|integral to membrane|nucleus|plasma membrane	integrin binding|metalloendopeptidase activity|protein homodimerization activity|protein kinase binding|SH3 domain binding|zinc ion binding			skin(2)	2				GBM - Glioblastoma multiforme(80;0.202)		GTCCAACTTCGTGAGCAAAAG	0.318													33	55					0	0	0.00623	0	0		A	58925422	A	A	58925422	2	1	134	1	0	0	0	0	0	0	0	1	234	1136	40	1		1	ADAM10	15	58925422	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2792550	58925422	43605970	1262	73920											
DIS3L	115752	broad.mit.edu	37	chr15	66615118	66615118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttgaggaaaagccatctcGtattcagcattgaccccaaa	14	9	7	11	1	2	2	1	2	1	0	3	3	2	3	3	1	2	2	3	1	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:66615118G>A	uc010ujm.1	+	10	1435	c.1420G>A	c.(1420-1422)GTA>ATA	p.V474I	DIS3L_uc010ujl.1_Missense_Mutation_p.V104I|DIS3L_uc002app.2_Missense_Mutation_p.V391I|DIS3L_uc002apq.2_Missense_Mutation_p.V474I|DIS3L_uc010bho.2_Missense_Mutation_p.V340I	NM_001143688	NP_001137160	Q8TF46	DI3L1_HUMAN	DIS3 mitotic control homolog (S.	474					rRNA catabolic process	cytoplasm|exosome (RNase complex)	exonuclease activity|protein binding|ribonuclease activity|RNA binding			ovary(2)	2						AAGCCATCTCGTATTCAGCAT	0.458													48	64					0	0	0.01441	0	0		A	66615118	A	A	66615118	3	1	134	1	0	0	0	0	1	0	0	0	4542	1145	40	1	1458	1	DIS3L	15	66615118	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	7689696	66615118	35916274	1263	73921											
CORO2B	10391	broad.mit.edu	37	chr15	69011084	69011084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcagcctgcgaggtgttcCgcttctacaagctggtgact	6	12	12	11	2	2	1	1	1	1	0	3	2	3	1	2	2	4	3	2	2	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:69011084C>T	uc002arj.3	+	9	1044	c.1015C>T	c.(1015-1017)CGC>TGC	p.R339C	CORO2B_uc010bic.2_Missense_Mutation_p.R334C|CORO2B_uc002ark.2_Missense_Mutation_p.R106C	NM_006091	NP_006082	Q9UQ03	COR2B_HUMAN	coronin, actin binding protein, 2B	339					actin cytoskeleton organization	actin cytoskeleton|cytoplasm|membrane	actin filament binding			ovary(3)|skin(2)|large_intestine(1)	6						CGAGGTGTTCCGCTTCTACAA	0.627													19	40					0	0	0.010504	0	0		T	69011084	T	T	69011084	3	4	134	1	0	0	0	0	1	0	0	0	3760	652	23	1	1049	1	CORO2B	15	69011084	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2395966	69011084	33520308	1264	73922											
MYO9A	4649	broad.mit.edu	37	chr15	72172765	72172765	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgccaatgcatagaatccaAagccacgttgctaatcttca	13	11	6	11	1	2	1	1	0	1	1	3	1	3	1	3	0	4	3	3	0	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:72172765A>T	uc002atl.3	-	29	6006	c.5533T>A	c.(5533-5535)TTG>ATG	p.L1845M	MYO9A_uc002atk.2_Missense_Mutation_p.L640M|MYO9A_uc002atm.1_Missense_Mutation_p.L641M	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	1845	Tail.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						ATAGAATCCAAAGCCACGTTG	0.428													7	262					0	0	0.001984	0	0		T	72172765	T	T	72172765	3	4	134	1	0	0	0	0	1	0	0	0	10102	11	1	5	2169	5	MYO9A	15	72172765	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3161681	72172765	30358627	1265	73923											
CELF6	60677	broad.mit.edu	37	chr15	72580753	72580753	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccgcatcaccaaactccTgaggcaggtgatagatgaag	12	8	11	10	1	1	4	1	3	0	1	3	4	3	4	3	2	1	3	3	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:72580753T>C	uc002auh.2	-	11	1524	c.1214A>G	c.(1213-1215)CAG>CGG	p.Q405R	uc002aug.2_Intron|CELF6_uc002auk.3_RNA|CELF6_uc010biv.1_RNA|CELF6_uc010biw.2_Missense_Mutation_p.Q292R|CELF6_uc010ukl.1_Missense_Mutation_p.Q268R|CELF6_uc010ukm.1_Missense_Mutation_p.Q378R|CELF6_uc002aui.2_Missense_Mutation_p.Q511R|CELF6_uc002auj.2_Missense_Mutation_p.Q292R	NM_052840	NP_443072	Q96J87	CELF6_HUMAN	bruno-like 6, RNA binding protein	405	RRM 3.				mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3						ACCAAACTCCTGAGGCAGGTG	0.547													89	131					0	0	0.01441	0	0		C	72580753	C	C	72580753	3	2	134	1	0	0	0	0	1	0	0	0	3223	1580	55	3	239	3	CELF6	15	72580753	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	407988	72580753	29950639	1266	73924											
C15orf59	388135	broad.mit.edu	37	chr15	74032759	74032759	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggccgagtcgactcgggAccatccacggagtccgaggg	7	5	15	14	5	0	0	0	0	0	0	4	5	2	2	5	4	0	0	5	4	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:74032759A>G	uc002avy.2	-	2	726	c.381T>C	c.(379-381)GGT>GGC	p.G127G		NM_001039614	NP_001034703	Q2T9L4	CO059_HUMAN	hypothetical protein LOC388135	127										pancreas(1)	1						TCGACTCGGGACCATCCACGG	0.632													74	111					0	0	0.01441	0	0		G	74032759	G	G	74032759	2	3	134	1	0	0	0	0	0	0	0	1	1810	262	10	3		3	C15orf59	15	74032759	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1452006	74032759	28498633	1267	73925											
LOXL1	4016	broad.mit.edu	37	chr15	74235283	74235285	+	In_Frame_Del	DEL	GGA	-	-																															tactccctgcgctgtgctgcGgaggagaagtgtctggccag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:74235283_74235285delGGA	uc002awc.1	+	2	1527_1529	c.1191_1193delGGA	c.(1189-1194)GCGGAG>GCG	p.E399del		NM_005576	NP_005567	Q08397	LOXL1_HUMAN	lysyl oxidase-like 1 preproprotein	399	Lysyl-oxidase like.				protein deamination	extracellular space	copper ion binding				0						GCTGTGCTGCGGAGGAGAAGTGT	0.596													87	159	---	---	---	---						.	-	74235285	-	-	74235283	7	5	134	1	0	1	0	1	0	0	0	0	8917	1103	39	0	1197	0	LOXL1	15	74235283	In_Frame_Del	DEL	GGA	TCGA-CG-4442-01A-01D-1158-08	202524	74235283	28296109	1268	73926											
CCDC33	80125	broad.mit.edu	37	chr15	74573063	74573063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcatctctgtgttgcCgctaaagagccgtttgtacc	6	12	11	12	2	1	1	0	0	1	1	2	1	1	1	4	1	3	5	4	1	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:74573063C>T	uc002axo.2	+	9	1338	c.944C>T	c.(943-945)CCG>CTG	p.P315L	CCDC33_uc002axp.2_Missense_Mutation_p.P137L	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	518							protein binding			ovary(3)|skin(2)	5						TCTGTGTTGCCGCTAAAGAGC	0.612													54	106					0	0	0.01441	0	0		T	74573063	T	T	74573063	3	4	134	1	0	0	0	0	1	0	0	0	2809	652	23	1	978	1	CCDC33	15	74573063	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	337780	74573063	27958329	1269	73927											
TMED3	23423	broad.mit.edu	37	chr15	79606185	79606185	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagaaacgaagaagcagtaCgacagcttcacgtaccgggc	15	4	12	10	4	1	2	1	0	0	2	1	5	1	2	1	1	5	4	1	1	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:79606185C>T	uc002beu.2	+	2	356	c.255C>T	c.(253-255)TAC>TAT	p.Y85Y	TMED3_uc010unj.1_Silent_p.Y85Y|TMED3_uc002bev.2_RNA	NM_007364	NP_031390	Q9Y3Q3	TMED3_HUMAN	transmembrane emp24 domain containing 3	85	Lumenal (Potential).|GOLD.				protein transport	ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane				ovary(1)|skin(1)	2						AGAAGCAGTACGACAGCTTCA	0.483													64	106					0	0	0.01441	0	0		T	79606185	T	T	79606185	2	4	134	1	0	0	0	0	0	0	0	1	16030	547	19	1		1	TMED3	15	79606185	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	5033122	79606185	22925207	1270	73928											
MEX3B	84206	broad.mit.edu	37	chr15	82336563	82336563	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcaatctcctctcgagcGcgatccacgttctctggcat	6	11	8	16	4	4	0	1	0	3	0	8	2	5	0	3	1	1	2	3	1	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:82336563G>A	uc002bgq.1	-	2	963	c.648C>T	c.(646-648)CGC>CGT	p.R216R		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	216	KH 2.				protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						CCTCTCGAGCGCGATCCACGT	0.612													85	171					0	0	0.01441	0	0		A	82336563	A	A	82336563	2	1	134	1	0	0	0	0	0	0	0	1	9528	1074	38	1		1	MEX3B	15	82336563	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2730378	82336563	20194829	1271	73929											
AP3B2	8120	broad.mit.edu	37	chr15	83349406	83349406	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgacatagggctttcgggaGggggcggccgcggcggccgt	5	6	20	10	6	0	1	0	1	0	0	1	2	0	2	2	7	0	1	2	7	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:83349406G>A	uc010uoh.1	-	8	1050	c.873C>T	c.(871-873)CCC>CCT	p.P291P	AP3B2_uc010uoi.1_Silent_p.P291P|AP3B2_uc010uoj.1_Silent_p.P259P|AP3B2_uc010uog.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	291					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			GCTTTCGGGAGGGGGCGGCCG	0.677													10	11					0	0	0.004007	0	0		A	83349406	A	A	83349406	2	1	134	1	0	0	0	0	0	0	0	1	745	987	35	4		4	AP3B2	15	83349406	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1012843	83349406	19181986	1272	73930											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84488696	84488696	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgtgcactcaagtgtcAtgcacaaggacaaaacttgg	12	8	10	11	1	2	0	2	0	0	0	2	1	2	1	1	2	3	2	1	2	4	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:84488696A>G	uc002bjz.3	+	6	721	c.497A>G	c.(496-498)CAT>CGT	p.H166R	ADAMTSL3_uc002bjy.1_Missense_Mutation_p.H166R|ADAMTSL3_uc010bmt.1_Missense_Mutation_p.H166R|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.H166R	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	166						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			CTCAAGTGTCATGCACAAGGA	0.502													26	59					0	0	0.003954	0	0		G	84488696	G	G	84488696	3	3	134	1	0	0	0	0	1	0	0	0	276	217	8	3	515	3	ADAMTSL3	15	84488696	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1139290	84488696	18042696	1273	73931											
AEN	64782	broad.mit.edu	37	chr15	89169602	89169602	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggagcaggggctgctgagCatgcctccagaaccagggtc	9	5	15	12	0	0	2	0	1	0	1	2	3	1	3	3	4	5	4	3	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:89169602C>T	uc002bmt.2	+	2	313	c.162C>T	c.(160-162)AGC>AGT	p.S54S	AEN_uc010bnl.2_Silent_p.S54S|AEN_uc010bnm.1_Silent_p.S54S	NM_022767	NP_073604	Q8WTP8	AEN_HUMAN	interferon stimulated exonuclease gene	54					apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|response to ionizing radiation	nucleolus|nucleoplasm	exonuclease activity|nucleic acid binding				0						GGCTGCTGAGCATGCCTCCAG	0.627													12	16					0	0	0.013537	0	0		T	89169602	T	T	89169602	2	4	134	1	0	0	0	0	0	0	0	1	351	709	25	2		2	AEN	15	89169602	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4680906	89169602	13361790	1274	73932											
ABHD2	11057	broad.mit.edu	37	chr15	89719194	89719194	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagagaaggtcctgtgctgCgtcagcgtgtgccaggggta	8	8	16	9	2	1	1	1	0	0	1	2	2	2	1	2	3	4	2	2	3	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:89719194C>T	uc002bnj.2	+	11	1607	c.690C>T	c.(688-690)TGC>TGT	p.C230C	ABHD2_uc002bnk.2_Silent_p.C230C	NM_007011	NP_008942	P08910	ABHD2_HUMAN	alpha/beta hydrolase domain containing protein	230						integral to membrane	carboxylesterase activity			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					TCCTGTGCTGCGTCAGCGTGT	0.567													52	98					0	0	0.01441	0	0		T	89719194	T	T	89719194	2	4	134	1	0	0	0	0	0	0	0	1	82	776	27	1		1	ABHD2	15	89719194	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	549592	89719194	12812198	1275	73933											
C15orf42	90381	broad.mit.edu	37	chr15	90170282	90170282	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagaacttatacacggAagaagctcatgggaacctgg	14	7	11	9	1	2	2	2	0	0	2	2	4	2	4	1	3	5	2	1	3	6	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:90170282A>G	uc002boe.2	+	22	5698	c.5698A>G	c.(5698-5700)AAG>GAG	p.K1900E	C15orf42_uc010upv.1_RNA	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1900					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			TTATACACGGAAGAAGCTCAT	0.498													7	257					0	0	0.001984	0	0		G	90170282	G	G	90170282	3	3	134	1	0	0	0	0	1	0	0	0	1799	247	9	3	5784	3	C15orf42	15	90170282	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	451088	90170282	12361110	1276	73934											
AP3S2	10239	broad.mit.edu	37	chr15	90446505	90446505	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctccgctgcagcccccttCgaacacttttgggccatgat	7	11	8	15	2	1	1	0	1	1	0	3	2	1	1	4	1	3	2	4	1	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:90446505C>T	uc002bos.3	-	5	770	c.615G>A	c.(613-615)TCG>TCA	p.S205S	C15orf38_uc002bot.1_RNA|C15orf38_uc002bou.2_Silent_p.S205S	NM_182616	NP_872422	P59780	AP3S2_HUMAN	hypothetical protein LOC348110	Error:Variant_position_missing_in_P59780_after_alignment					intracellular protein transport|vesicle-mediated transport	cytoplasmic vesicle membrane|Golgi apparatus|membrane coat	protein transporter activity				0	Lung NSC(78;0.0181)|all_lung(78;0.0384)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.223)			CAGCCCCCTTCGAACACTTTT	0.562													70	122					0	0	0.01441	0	0		T	90446505	T	T	90446505	2	4	134	1	0	0	0	0	0	0	0	1	750	871	31	1		1	AP3S2	15	90446505	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	276223	90446505	12084887	1277	73935											
TTLL13	440307	broad.mit.edu	37	chr15	90794020	90794020	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcattaaaaaatggggttcCctcacccattatggccacaa	13	9	8	11	0	1	0	1	0	0	0	2	0	2	0	3	4	0	2	3	4	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:90794020C>A	uc002bpd.1	+	2	446	c.158C>A	c.(157-159)CCC>CAC	p.P53H	TTLL13_uc002bpe.1_RNA	NM_001029964	NP_001025135	A6NNM8	TTL13_HUMAN	tubulin tyrosine ligase-like family, member 13	53					protein modification process		ATP binding|tubulin-tyrosine ligase activity				0	Melanoma(11;0.00551)|Lung NSC(78;0.0178)|all_lung(78;0.0378)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|BRCA - Breast invasive adenocarcinoma(143;0.0323)|Kidney(142;0.0514)			AATGGGGTTCCCTCACCCATT	0.473													76	140					3.76054e-38	4.45332e-38	0.01441	1	0		A	90794020	A	A	90794020	3	1	134	1	0	0	0	0	1	0	0	0	16752	623	22	5	160	5	TTLL13	15	90794020	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	347515	90794020	11737372	1278	73936											
ZNF774	342132	broad.mit.edu	37	chr15	90903582	90903582	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagacacctaagaacccaCactggcgagaggccctatac	15	5	8	13	1	0	3	0	0	0	3	0	4	0	3	3	2	2	0	3	2	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:90903582C>T	uc002bpk.3	+	4	705	c.519C>T	c.(517-519)CAC>CAT	p.H173H		NM_001004309	NP_001004309	Q6NX45	ZN774_HUMAN	zinc finger protein 774	173	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(11;0.00551)|Lung NSC(78;0.0158)|all_lung(78;0.0331)		BRCA - Breast invasive adenocarcinoma(143;0.0224)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			TAAGAACCCACACTGGCGAGA	0.498													59	98					0	0	0.01441	0	0		T	90903582	T	T	90903582	2	4	134	1	0	0	0	0	0	0	0	1	18172	477	17	4		4	ZNF774	15	90903582	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	109562	90903582	11627810	1279	73937											
ADAMTS17	170691	broad.mit.edu	37	chr15	100739577	100739577	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aattgagaccattgtcttcgGcaagcacacacttcctctta	11	12	6	12	1	2	1	0	1	2	1	4	2	3	1	2	1	1	2	2	1	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:100739577G>C	uc002bvv.1	-	8	1206	c.1127C>G	c.(1126-1128)GCC>GGC	p.A376G	ADAMTS17_uc002bvx.1_Missense_Mutation_p.A133G	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	376	Peptidase M12B.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		ATTGTCTTCGGCAAGCACACA	0.488													7	260					0	0	0.004482	0	0		C	100739577	C	C	100739577	3	2	134	1	0	0	0	0	1	0	0	0	262	1203	42	5	2220	5	ADAMTS17	15	100739577	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	9835995	100739577	1791815	1280	73938											
ADAMTS17	170691	broad.mit.edu	37	chr15	100801716	100801716	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcagcatccaccaggggCgggtcgtccttcccgccggg	5	5	15	16	5	0	0	0	0	0	0	4	0	3	0	5	5	1	2	5	5	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:100801716C>T	uc002bvv.1	-	6	1078	c.999G>A	c.(997-999)CCG>CCA	p.P333P	ADAMTS17_uc002bvx.1_Silent_p.P90P	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	333	Peptidase M12B.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		CCACCAGGGGCGGGTCGTCCT	0.562													22	53					0	0	0.00333	0	0		T	100801716	T	T	100801716	2	4	134	1	0	0	0	0	0	0	0	1	262	755	27	1		1	ADAMTS17	15	100801716	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	62139	100801716	1729676	1281	73939											
TARSL2	123283	broad.mit.edu	37	chr15	102241308	102241308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgtatgaaatctgtaagcGtattataaatgaaggctcct	13	13	8	7	2	1	2	0	2	1	0	3	2	2	2	1	1	1	4	1	1	8	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:102241308G>A	uc002bxm.2	-	10	1356	c.1301C>T	c.(1300-1302)ACG>ATG	p.T434M	TARSL2_uc002bxl.2_Translation_Start_Site|TARSL2_uc010usi.1_RNA	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2	434					threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			ATCTGTAAGCGTATTATAAAT	0.308													22	51					0	0	0.014323	0	0		A	102241308	A	A	102241308	3	1	134	1	0	0	0	0	1	0	0	0	15586	1145	40	1	1147	1	TARSL2	15	102241308	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1439592	102241308	290084	1282	73940											
TARSL2	123283	broad.mit.edu	37	chr15	102263369	102263369	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttgactaggaggaggcTgaaagataaattataaatga	16	10	12	3	0	0	4	0	3	0	1	0	6	0	6	0	4	0	2	0	4	7	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr15:102263369T>C	uc002bxm.2	-	2	353	c.298_splice	c.e2-1	p.P100_splice	TARSL2_uc010usi.1_Splice_Site	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2						threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			AGGAGGAGGCTGAAAGATAAA	0.418													4	98					0	0	0.009096	0	0		C	102263369	C	C	102263369	5	2	134	1	0	0	0	0	0	0	1	0	15586	1594	55	3	2184	3	TARSL2	15	102263369	Splice_Site	SNP	T	TCGA-CG-4442-01A-01D-1158-08	22061	102263369	268023	1283	73941											
LUC7L	55692	broad.mit.edu	37	chr16	277242	277242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccccaaaatgcacctaccGtcccagccaggatgtcatgg	10	7	8	16	1	1	0	1	0	0	0	3	1	3	1	6	2	3	1	6	2	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:277242G>A	uc002cgc.1	-	2	266	c.155C>T	c.(154-156)ACG>ATG	p.T52M	LUC7L_uc002cga.1_Missense_Mutation_p.T52M|LUC7L_uc002cgd.1_RNA|LUC7L_uc002cge.1_Missense_Mutation_p.T52M|LUC7L_uc010bqq.1_3'UTR	NM_201412	NP_958815	Q9NQ29	LUC7L_HUMAN	LUC7-like isoform b	52							metal ion binding			central_nervous_system(1)	1		all_cancers(16;1.1e-06)|all_epithelial(16;2.71e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.0138)|all_lung(18;0.0306)				TGCACCTACCGTCCCAGCCAG	0.478													5	11					0	0	0.001168	0	0		A	277242	A	A	277242	3	1	134	1	0	0	0	0	1	0	0	0	9100	1159	40	1	1000	1	LUC7L	16	277242	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08		277242	90077511	1284	73942											
RAB40C	57799	broad.mit.edu	37	chr16	676026	676026	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccttctttgaggtcagccCcctgtgcaacttcaacgtca	8	11	8	14	1	4	1	3	1	1	0	4	2	4	1	3	1	4	1	3	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:676026C>A	uc002chr.2	+	5	586	c.470C>A	c.(469-471)CCC>CAC	p.P157H	RAB40C_uc002chq.2_Missense_Mutation_p.P138H	NM_021168	NP_066991	Q96S21	RB40C_HUMAN	RAB40C, member RAS oncogene family	157					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0		Hepatocellular(780;0.0218)				GAGGTCAGCCCCCTGTGCAAC	0.617													42	84					3.43241e-23	3.97126e-23	0.009718	1	0		A	676026	A	A	676026	3	1	134	1	0	0	0	0	1	0	0	0	12967	623	22	5	488	5	RAB40C	16	676026	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	398784	676026	89678727	1285	73943											
UBE2I	7329	broad.mit.edu	37	chr16	1374749	1374749	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccaaaacagagtggagtaCgagaaaagggtccgagcaca	17	3	13	8	2	0	2	0	0	0	2	1	5	1	3	2	2	4	2	2	2	5	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:1374749C>T	uc002clc.1	+	7	536	c.432C>T	c.(430-432)TAC>TAT	p.Y144Y	UBE2I_uc002cld.1_Silent_p.Y144Y|UBE2I_uc002clf.1_Silent_p.Y144Y|UBE2I_uc002clg.1_Silent_p.Y144Y	NM_194261	NP_919237	P63279	UBC9_HUMAN	ubiquitin-conjugating enzyme E2I	144					cell division|chromosome segregation|interspecies interaction between organisms|mitosis|negative regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|protein sumoylation	cytoplasm|PML body|synaptonemal complex	ATP binding|enzyme binding|ubiquitin-protein ligase activity			breast(1)|skin(1)	2		Hepatocellular(780;0.00369)				GAGTGGAGTACGAGAAAAGGG	0.552													27	42					0	0	0.007291	0	0		T	1374749	T	T	1374749	2	4	134	1	0	0	0	0	0	0	0	1	16885	547	19	1		1	UBE2I	16	1374749	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	698723	1374749	88980004	1286	73944											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1797263	1797263	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcacccaggagatgcgCaacgtcagtataggtgggtg	10	7	15	9	2	2	1	2	0	0	1	2	2	2	1	1	4	2	2	1	4	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:1797263C>T	uc002cmk.2	+	6	1098	c.978C>T	c.(976-978)CGC>CGT	p.R326R	MAPK8IP3_uc002cmj.1_RNA|MAPK8IP3_uc002cml.2_Silent_p.R326R|MAPK8IP3_uc010uvl.1_Silent_p.R327R	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	326					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						AGGAGATGCGCAACGTCAGTA	0.627													10	39					0	0	0.003163	0	0		T	1797263	T	T	1797263	2	4	134	1	0	0	0	0	0	0	0	1	9304	697	25	2		2	MAPK8IP3	16	1797263	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	422514	1797263	88557490	1287	73945											
HS3ST6	64711	broad.mit.edu	37	chr16	1961936	1961936	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtggtccaggtgctgggcGtacaggccgatgcggacggc	6	6	18	11	4	0	0	0	0	0	0	1	2	1	1	2	6	3	2	2	6	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:1961936G>A	uc002cnf.2	-	2	591	c.591C>T	c.(589-591)TAC>TAT	p.Y197Y		NM_001009606	NP_001009606	C9JH64	C9JH64_HUMAN	heparan sulfate (glucosamine)	197											0						GGTGCTGGGCGTACAGGCCGA	0.721													21	42					0	0	0.007291	0	0		A	1961936	A	A	1961936	2	1	134	1	0	0	0	0	0	0	0	1	7385	1140	40	1		1	HS3ST6	16	1961936	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	164673	1961936	88392817	1288	73946											
TBL3	10607	broad.mit.edu	37	chr16	2026277	2026277	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgcgtggctcagggttcCggtcacacacacagtgtggg	7	9	15	10	2	2	0	2	0	0	0	3	0	3	0	1	4	1	2	1	4	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:2026277C>T	uc002cnu.1	+	13	1356	c.1254C>T	c.(1252-1254)TCC>TCT	p.S418S	TBL3_uc002cnv.1_Silent_p.S304S|TBL3_uc010bsb.1_Silent_p.S207S|TBL3_uc010bsc.1_Intron|TBL3_uc010uvt.1_5'UTR|TBL3_uc002cnw.1_5'Flank	NM_006453	NP_006444	Q12788	TBL3_HUMAN	transducin beta-like 3	418					G-protein signaling, coupled to cGMP nucleotide second messenger|rRNA processing	nucleolus|small-subunit processome	receptor signaling protein activity				0						CTCAGGGTTCCGGTCACACAC	0.637													17	39					0	0	0.007413	0	0		T	2026277	T	T	2026277	2	4	134	1	0	0	0	0	0	0	0	1	15668	639	23	1		1	TBL3	16	2026277	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	64341	2026277	88328476	1289	73947											
TSC2	7249	broad.mit.edu	37	chr16	2131669	2131669	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacatcaacaacatgcccctGcaggagctgtctaacgccct	11	7	8	15	1	2	0	1	0	1	0	2	2	2	1	3	1	6	2	3	1	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:2131669G>A	uc002con.2	+	31	3790	c.3684G>A	c.(3682-3684)CTG>CTA	p.L1228L	TSC2_uc010bsd.2_Silent_p.L1228L|TSC2_uc002coo.2_Silent_p.L1184L|TSC2_uc010uvv.1_Silent_p.L1148L|TSC2_uc010uvw.1_Silent_p.L1136L|TSC2_uc002cop.2_Silent_p.L984L|TSC2_uc002coq.2_5'Flank|TSC2_uc002cor.2_5'Flank	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	1228					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				ACATGCCCCTGCAGGAGCTGT	0.637			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				61	103					0	0	0.01441	0	0		A	2131669	A	A	2131669	2	1	134	1	0	0	0	0	0	0	0	1	16632	1306	46	2		2	TSC2	16	2131669	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	105392	2131669	88223084	1290	73948											
TSC2	7249	broad.mit.edu	37	chr16	2136307	2136307	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactgccagccggacaaggtGtacctgggaggcctggacgt	8	6	16	11	2	0	0	0	0	0	0	0	4	0	3	4	5	3	1	4	5	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:2136307G>A	uc002con.2	+	37	4882	c.4776G>A	c.(4774-4776)GTG>GTA	p.V1592V	TSC2_uc010bsd.2_Silent_p.V1569V|TSC2_uc002coo.2_Silent_p.V1525V|TSC2_uc010uvv.1_Silent_p.V1489V|TSC2_uc010uvw.1_Silent_p.V1477V|TSC2_uc002cop.2_Silent_p.V1348V|TSC2_uc002coq.2_Silent_p.V367V|TSC2_uc002cor.2_Silent_p.V293V	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	1592	Rap-GAP.				cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				CGGACAAGGTGTACCTGGGAG	0.627			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				23	34					0	0	0.00278	0	0		A	2136307	A	A	2136307	2	1	134	1	0	0	0	0	0	0	0	1	16632	1364	48	4		4	TSC2	16	2136307	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4638	2136307	88218446	1291	73949											
PDPK1	5170	broad.mit.edu	37	chr16	2636711	2636711	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccagtttggctgcatgcAggtgtcttcgtcctcctcct	4	13	11	13	1	1	0	0	0	1	0	5	1	4	0	4	2	3	4	4	2	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:2636711A>G	uc002cqs.2	+	11	1304	c.1160A>G	c.(1159-1161)CAG>CGG	p.Q387R	PDPK1_uc002cqt.2_Missense_Mutation_p.Q260R|PDPK1_uc010bsn.2_Missense_Mutation_p.Q387R|PDPK1_uc002cqu.2_Missense_Mutation_p.Q360R	NM_002613	NP_002604	O15530	PDPK1_HUMAN	3-phosphoinositide dependent protein kinase-1	387					actin cytoskeleton organization|activation of protein kinase B activity|insulin receptor signaling pathway|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|peptidyl-threonine phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|synaptic transmission|T cell costimulation|T cell receptor signaling pathway	cytosol|nucleoplasm|plasma membrane	3-phosphoinositide-dependent protein kinase activity|ATP binding			central_nervous_system(2)|ovary(1)	3		Ovarian(90;0.17)			Celecoxib(DB00482)	GGCTGCATGCAGGTGTCTTCG	0.557													8	194					0	0	0.00308	0	0		G	2636711	G	G	2636711	3	3	134	1	0	0	0	0	1	0	0	0	11706	188	7	3	1202	3	PDPK1	16	2636711	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	500404	2636711	87718042	1292	73950											
PRSS22	64063	broad.mit.edu	37	chr16	2906205	2906205	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgtcagtgctgtcctcGccgcccacaacccggttcag	5	9	10	17	4	2	0	2	0	0	0	5	0	3	0	4	1	2	3	4	1	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:2906205G>A	uc002cry.1	-	3	225	c.159C>T	c.(157-159)GGC>GGT	p.G53G	PRSS22_uc002crz.1_Silent_p.G53G	NM_022119	NP_071402	Q9GZN4	BSSP4_HUMAN	protease, serine, 22 precursor	53	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			central_nervous_system(1)	1						TGCTGTCCTCGCCGCCCACAA	0.572													32	61					0	0	0.004289	0	0		A	2906205	A	A	2906205	2	1	134	1	0	0	0	0	0	0	0	1	12641	1074	38	1		1	PRSS22	16	2906205	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	269494	2906205	87448548	1293	73951											
FLYWCH1	84256	broad.mit.edu	37	chr16	2987260	2987260	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcatgggctgccgcagccGcgccatcacccagggccggc	5	3	14	19	5	1	0	1	0	0	0	1	0	1	0	6	3	2	3	6	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:2987260G>T	uc002csd.2	+	7	2015	c.1652G>T	c.(1651-1653)CGC>CTC	p.R551L	FLYWCH1_uc002csb.2_Missense_Mutation_p.R550L|FLYWCH1_uc002csc.2_Missense_Mutation_p.R550L|FLYWCH1_uc010bsv.2_Missense_Mutation_p.R275L|FLYWCH1_uc002cse.2_Missense_Mutation_p.R6L	NM_032296	NP_115672	Q4VC44	FWCH1_HUMAN	FLYWCH-type zinc finger 1 isoform a	551	FLYWCH-type 4.					nucleus	DNA binding|metal ion binding				0						TGCCGCAGCCGCGCCATCACC	0.716													9	4					1.5739e-10	1.75051e-10	0.004007	1	0		T	2987260	T	T	2987260	3	4	134	1	0	0	0	0	1	0	0	0	5961	1087	38	5	1667	5	FLYWCH1	16	2987260	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	81055	2987260	87367493	1294	73952											
ZNF205	7755	broad.mit.edu	37	chr16	3169648	3169648	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtgacgcaccggcgcacGcacacgggcgagaagcccta	9	3	14	15	6	0	2	0	1	0	1	0	3	0	2	2	3	1	3	2	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:3169648G>A	uc002cub.2	+	7	1122	c.987G>A	c.(985-987)ACG>ACA	p.T329T	ZNF205_uc002cua.2_Silent_p.T329T	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	329	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						ACCGGCGCACGCACACGGGCG	0.677													50	88					0	0	0.01441	0	0		A	3169648	A	A	3169648	2	1	134	1	0	0	0	0	0	0	0	1	17789	1074	38	1		1	ZNF205	16	3169648	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	182388	3169648	87185105	1295	73953											
ZNF213	7760	broad.mit.edu	37	chr16	3191136	3191136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgcagcgcctacctggccGaccaccagcgcatacacacg	9	3	10	19	5	0	0	0	0	0	0	0	1	0	0	6	1	4	2	6	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:3191136G>A	uc010uws.1	+	6	1615	c.1168G>A	c.(1168-1170)GAC>AAC	p.D390N	ZNF213_uc002cud.2_RNA|ZNF213_uc010btf.2_3'UTR|ZNF213_uc010bth.2_Missense_Mutation_p.D390N|ZNF213_uc010uwt.1_3'UTR	NM_004220	NP_004211	O14771	ZN213_HUMAN	zinc finger protein 213	390	C2H2-type 3.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTACCTGGCCGACCACCAGCG	0.662													27	57					0	0	0.005524	0	0		A	3191136	A	A	3191136	3	1	134	1	0	0	0	0	1	0	0	0	17794	1058	37	1	1186	1	ZNF213	16	3191136	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	21488	3191136	87163617	1296	73954											
MEFV	4210	broad.mit.edu	37	chr16	3293377	3293377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagcaggcgggtcgggggaaCgctggacgcctggtactcat	7	7	17	10	4	1	0	1	0	0	0	2	2	1	2	1	6	3	3	1	6	3	2	rs104895096		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:3293377C>T	uc002cun.1	-	10	2150	c.2110G>A	c.(2110-2112)GTT>ATT	p.V704I		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	704	B30.2/SPRY.		V -> I (in arFMF).		inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	GTCGGGGGAACGCTGGACGCC	0.517													63	112					0	0	0.01441	0	0		T	3293377	T	T	3293377	3	4	134	1	0	0	0	0	1	0	0	0	9477	536	19	1	239	1	MEFV	16	3293377	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	102241	3293377	87061376	1297	73955											
MEFV	4210	broad.mit.edu	37	chr16	3304678	3304678	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccgtacggccgagggccGttcccctcgttcccctcggg	2	7	12	20	6	0	0	0	0	0	0	4	1	2	0	8	3	1	3	8	3	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:3304678G>A	uc002cun.1	-	2	430	c.390C>T	c.(388-390)AAC>AAT	p.N130N		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	130					inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	GCCGAGGGCCGTTCCCCTCGT	0.677													22	42					0	0	0.00333	0	0		A	3304678	A	A	3304678	2	1	134	1	0	0	0	0	0	0	0	1	9477	1136	40	1		1	MEFV	16	3304678	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	11301	3304678	87050075	1298	73956											
ZNF434	54925	broad.mit.edu	37	chr16	3434756	3434756	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgcggtaactcaactgtaGgcttttgaacttggtgcgac	8	14	11	8	2	1	1	1	1	0	0	1	2	1	1	0	3	5	3	0	3	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:3434756G>T	uc002cuz.2	-	5	1103	c.301C>A	c.(301-303)CTA>ATA	p.L101I	ZNF434_uc002cux.3_Missense_Mutation_p.L312I|ZNF434_uc010uwx.1_Missense_Mutation_p.L24I|ZNF434_uc002cuy.3_Missense_Mutation_p.L24I|ZNF434_uc010uwy.1_Missense_Mutation_p.L24I|ZNF434_uc010uwz.1_Missense_Mutation_p.L312I|ZNF434_uc010uxa.1_Missense_Mutation_p.L101I	NM_017810	NP_060280	Q9NX65	ZN434_HUMAN	zinc finger protein 434	101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTCAACTGTAGGCTTTTGAAC	0.542													152	295					1.15959e-54	1.38793e-54	0.01441	1	0		T	3434756	T	T	3434756	3	4	134	1	0	0	0	0	1	0	0	0	17933	991	35	5	1164	5	ZNF434	16	3434756	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	130078	3434756	86919997	1299	73957											
BTBD12	84464	broad.mit.edu	37	chr16	3641099	3641099	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttccatttctgcttcaTtcacgttttcttgatcttct	4	23	3	11	1	7	1	2	1	5	0	8	1	8	1	1	0	1	2	1	0	0	9			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:3641099T>C	uc002cvp.2	-	12	3167	c.2540A>G	c.(2539-2541)AAT>AGT	p.N847S		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	847	Potential.|Interaction with PLK1 and TERF2-TERF2IP.|Glu-rich.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TTCTGCTTCATTCACGTTTTC	0.483								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				7	236					0	0	0.001984	0	0		C	3641099	C	C	3641099	3	2	134	1	0	0	0	0	1	0	0	0	1543	1493	52	3	2980	3	BTBD12	16	3641099	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	206343	3641099	86713654	1300	73958											
CORO7	79585	broad.mit.edu	37	chr16	4409528	4409528	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgggtcgtagctgggcaGcagggttgagggagccacgt	6	8	19	8	2	1	1	0	1	1	0	2	2	1	2	1	4	3	5	1	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:4409528G>T	uc002cwh.3	-	22	2323	c.2203C>A	c.(2203-2205)CTG>ATG	p.L735M	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Missense_Mutation_p.L735M|CORO7_uc002cwg.3_Missense_Mutation_p.L515M|CORO7_uc010uxh.1_Missense_Mutation_p.L717M|CORO7_uc010uxi.1_Missense_Mutation_p.L650M|CORO7_uc002cwi.1_Missense_Mutation_p.L515M	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	735	WD 8.					cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						TAGCTGGGCAGCAGGGTTGAG	0.672											OREG0023580	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	40					2.79863e-10	3.10582e-10	0.004656	1	0		T	4409528	T	T	4409528	3	4	134	1	0	0	0	0	1	0	0	0	3762	962	34	5	602	5	CORO7	16	4409528	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	768429	4409528	85945225	1301	73959											
GLYR1	84656	broad.mit.edu	37	chr16	4861222	4861222	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggttgaccgcatcacccagCgcaatggctaagcggagatc	10	7	12	12	3	1	2	1	1	0	1	2	3	1	2	2	3	2	4	2	3	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:4861222C>T	uc002cxx.3	-	15	1573	c.1536G>A	c.(1534-1536)GCG>GCA	p.A512A	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Silent_p.A426A|GLYR1_uc002cya.2_Silent_p.A506A|GLYR1_uc010uxv.1_Silent_p.A431A	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	512					pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						CATCACCCAGCGCAATGGCTA	0.478													95	165					0	0	0.01441	0	0		T	4861222	T	T	4861222	2	4	134	1	0	0	0	0	0	0	0	1	6498	755	27	1		1	GLYR1	16	4861222	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	451694	4861222	85493531	1302	73960											
ALG1	56052	broad.mit.edu	37	chr16	5123189	5123189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagtacggagtcaaagttGtacttcaggctatgtacttg	10	13	10	8	1	2	0	2	0	0	0	3	1	3	1	1	2	3	5	1	2	5	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:5123189G>A	uc002cym.2	+	3	363	c.322G>A	c.(322-324)GTA>ATA	p.V108I	ALG1_uc002cyj.2_5'UTR|ALG1_uc002cyn.2_Missense_Mutation_p.V108I|ALG1_uc010bue.2_5'UTR|ALG1_uc010uxy.1_5'UTR	NM_019109	NP_061982	Q9BT22	ALG1_HUMAN	beta-1,4-mannosyltransferase	108	Lumenal (Potential).				dolichol-linked oligosaccharide biosynthetic process|lipopolysaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	chitobiosyldiphosphodolichol beta-mannosyltransferase activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(90;0.0164)				AGTCAAAGTTGTACTTCAGGC	0.507													36	92					0	0	0.004878	0	0		A	5123189	A	A	5123189	3	1	134	1	0	0	0	0	1	0	0	0	510	1377	48	4	332	4	ALG1	16	5123189	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	261967	5123189	85231564	1303	73961											
TXNDC11	51061	broad.mit.edu	37	chr16	11792005	11792005	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctattaaaggatgactttcGgccaggggattaaaaggtat	13	12	11	5	1	1	1	0	1	1	0	2	3	1	3	1	5	0	1	1	5	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:11792005G>A	uc010buu.1	-	8	1226	c.1164C>T	c.(1162-1164)GCC>GCT	p.A388A	TXNDC11_uc002dbg.1_Silent_p.A361A	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	388					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						GATGACTTTCGGCCAGGGGAT	0.507													63	124					0	0	0.01441	0	0		A	11792005	A	A	11792005	2	1	134	1	0	0	0	0	0	0	0	1	16818	1103	39	1		1	TXNDC11	16	11792005	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6668816	11792005	78562748	1304	73962											
ABCC1	4363	broad.mit.edu	37	chr16	16130382	16130382	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcagtgacctctggtcctTaaacaaggaggacacgtcgg	10	7	14	10	2	1	1	0	1	1	0	3	3	2	3	2	5	1	1	2	5	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:16130382T>C	uc010bvi.2	+	7	906	c.731T>C	c.(730-732)TTA>TCA	p.L244S	ABCC1_uc010bvj.2_Missense_Mutation_p.L244S|ABCC1_uc010bvk.2_Missense_Mutation_p.L244S|ABCC1_uc010bvl.2_Missense_Mutation_p.L244S|ABCC1_uc010bvm.2_Missense_Mutation_p.L244S|ABCC1_uc002del.3_Missense_Mutation_p.L128S|ABCC1_uc010bvn.2_Missense_Mutation_p.L107S	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	244	Cytoplasmic.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	CTCTGGTCCTTAAACAAGGAG	0.537													3	125					0	0	0.004672	0	0		C	16130382	C	C	16130382	3	2	134	1	0	0	0	0	1	0	0	0	49	1764	61	3	757	3	ABCC1	16	16130382	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4338377	16130382	74224371	1305	73963											
ABCC1	4363	broad.mit.edu	37	chr16	16165586	16165587	+	Splice_Site	INS	-	GT	GT																															gcgacggcctgtcaaagacgINSgtgtgtgtgtgttcagtcct																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:16165586_16165587insGT	uc010bvi.2	+	14	2087	c.1912_splice	c.e14+1	p.G638_splice	ABCC1_uc010bvj.2_Splice_Site_p.G638_splice|ABCC1_uc010bvk.2_Splice_Site_p.G638_splice|ABCC1_uc010bvl.2_Splice_Site_p.G638_splice|ABCC1_uc010bvm.2_Splice_Site_p.G638_splice|ABCC1_uc002del.3_Splice_Site_p.G522_splice	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1						hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TGTCAAAGACGGTGTGTGTGTG	0.569													16	28	---	---	---	---						.	GT	16165587	GT	GT	16165586	8	5	134	1	0	1	1	0	0	0	1	0	49	1130	39	0	1966	0	ABCC1	16	16165586	Splice_Site	INS	-	TCGA-CG-4442-01A-01D-1158-08	35204	16165586	74189167	1306	73964											
ACSM2A	123876	broad.mit.edu	37	chr16	20491904	20491904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtcaccaggacaatcccGacaagacagcagccaacatt	14	5	9	13	1	1	1	1	0	0	1	2	3	2	2	3	2	3	1	3	2	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:20491904G>A	uc010bwe.2	+	12	1530	c.1291G>A	c.(1291-1293)GAC>AAC	p.D431N	ACSM2A_uc010vax.1_Missense_Mutation_p.D352N|ACSM2A_uc002dhf.3_Missense_Mutation_p.D431N|ACSM2A_uc002dhg.3_Missense_Mutation_p.D431N|ACSM2A_uc010vay.1_Missense_Mutation_p.D352N|ACSM2A_uc002dhh.3_Missense_Mutation_p.D61N	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	431					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						GGACAATCCCGACAAGACAGC	0.493													89	121					0	0	0.01441	0	0		A	20491904	A	A	20491904	3	1	134	1	0	0	0	0	1	0	0	0	183	1058	37	1	1329	1	ACSM2A	16	20491904	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4326318	20491904	69862849	1307	73965											
DNAH3	55567	broad.mit.edu	37	chr16	21123071	21123071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaacatggctaaaggcaCggtgatgttcatggatgcaa	13	8	13	7	1	1	2	1	1	0	1	1	3	1	3	0	4	2	5	0	4	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:21123071C>T	uc010vbe.1	-	14	1975	c.1975G>A	c.(1975-1977)GTG>ATG	p.V659M	DNAH3_uc002die.2_Missense_Mutation_p.V599M	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	659	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GCTAAAGGCACGGTGATGTTC	0.438													40	82					0	0	0.007835	0	0		T	21123071	T	T	21123071	3	4	134	1	0	0	0	0	1	0	0	0	4609	536	19	1	10570	1	DNAH3	16	21123071	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	631167	21123071	69231682	1308	73966											
UQCRC2	7385	broad.mit.edu	37	chr16	21974140	21974140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caccagaatttcgtcgttggGaagtagctgaccttcagcct	9	11	10	11	2	1	2	1	1	0	1	3	3	1	3	3	1	2	3	3	1	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:21974140G>A	uc002djx.2	+	6	584	c.448G>A	c.(448-450)GAA>AAA	p.E150K	UQCRC2_uc002djy.2_Missense_Mutation_p.E150K|UQCRC2_uc010bxa.2_RNA|UQCRC2_uc002djz.1_Missense_Mutation_p.E17K	NM_003366	NP_003357	P22695	QCR2_HUMAN	ubiquinol-cytochrome c reductase core protein II	150					aerobic respiration|oxidative phosphorylation|proteolysis|respiratory electron transport chain|transport		metalloendopeptidase activity|zinc ion binding			large_intestine(2)	2				GBM - Glioblastoma multiforme(48;0.0264)		TCGTCGTTGGGAAGTAGCTGA	0.413													61	109					0	0	0.01441	0	0		A	21974140	A	A	21974140	3	1	134	1	0	0	0	0	1	0	0	0	17046	1175	41	4	470	4	UQCRC2	16	21974140	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	851069	21974140	68380613	1309	73967											
EEF2K	29904	broad.mit.edu	37	chr16	22291579	22291579	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctggagatgacggactgTgatgagggcggtgagtacga	9	7	18	7	3	0	5	0	4	0	1	0	8	0	6	1	4	1	1	1	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:22291579T>C	uc002dki.2	+	17	2435	c.1950T>C	c.(1948-1950)TGT>TGC	p.C650C	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	650					insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		TGACGGACTGTGATGAGGGCG	0.597													4	64					0	0	0.009096	0	0		C	22291579	C	C	22291579	2	2	134	1	0	0	0	0	0	0	0	1	4936	1702	59	3		3	EEF2K	16	22291579	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	317439	22291579	68063174	1310	73968											
PLK1	5347	broad.mit.edu	37	chr16	23701317	23701317	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggccagccggctccgctAcgcccgcactatggtggaca	6	6	13	16	4	0	0	0	0	0	0	1	1	1	1	4	4	2	4	4	4	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:23701317A>G	uc002dlz.1	+	10	1798	c.1745A>G	c.(1744-1746)TAC>TGC	p.Y582C		NM_005030	NP_005021	P53350	PLK1_HUMAN	polo-like kinase 1	582	POLO box 2.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G2/M transition DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic prophase|negative regulation of cyclin-dependent protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|protein localization to chromatin|protein ubiquitination|regulation of mitotic anaphase|regulation of protein binding	centrosome|condensed nuclear chromosome outer kinetochore|cytosol|nucleoplasm|spindle microtubule|spindle midzone|spindle pole	anaphase-promoting complex binding|ATP binding|polo kinase kinase activity|protein kinase binding			lung(1)|skin(1)	2				GBM - Glioblastoma multiforme(48;0.0156)		CGGCTCCGCTACGCCCGCACT	0.647													19	52					0	0	0.004878	0	0		G	23701317	G	G	23701317	3	3	134	1	0	0	0	0	1	0	0	0	12113	391	14	3	1783	3	PLK1	16	23701317	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1409738	23701317	66653436	1311	73969											
TNRC6A	27327	broad.mit.edu	37	chr16	24803029	24803029	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tacaaaaatgtgaacatgtgGaacaaaaacgtcccaaatgg	19	7	8	7	1	0	1	0	1	0	0	1	2	1	2	1	2	4	0	1	2	8	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:24803029G>T	uc002dmm.2	+	6	3180	c.3066G>T	c.(3064-3066)TGG>TGT	p.W1022C	TNRC6A_uc010bxs.2_Missense_Mutation_p.W769C|TNRC6A_uc010vcc.1_Missense_Mutation_p.W769C|TNRC6A_uc002dmn.2_Missense_Mutation_p.W769C|TNRC6A_uc002dmo.2_Missense_Mutation_p.W769C	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1022	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		TGAACATGTGGAACAAAAACG	0.458													38	59					6.70999e-13	7.54217e-13	0.004289	1	0		T	24803029	T	T	24803029	3	4	134	1	0	0	0	0	1	0	0	0	16365	1183	41	5	3088	5	TNRC6A	16	24803029	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1101712	24803029	65551724	1312	73970											
TNRC6A	27327	broad.mit.edu	37	chr16	24815588	24815588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggaaaggccctggttctcGgcctcagatttccaaagagt	9	9	12	11	2	2	2	1	0	1	2	4	3	3	3	3	4	0	1	3	4	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:24815588G>A	uc002dmm.2	+	12	3899	c.3785G>A	c.(3784-3786)CGG>CAG	p.R1262Q	TNRC6A_uc010bxs.2_Missense_Mutation_p.R1009Q|TNRC6A_uc002dmn.2_Missense_Mutation_p.R1009Q|TNRC6A_uc002dmo.2_Missense_Mutation_p.R950Q|TNRC6A_uc002dmp.2_5'UTR|TNRC6A_uc002dmq.2_5'Flank	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1262	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		CCTGGTTCTCGGCCTCAGATT	0.388													45	71					0	0	0.01441	0	0		A	24815588	A	A	24815588	3	1	134	1	0	0	0	0	1	0	0	0	16365	1116	39	1	3831	1	TNRC6A	16	24815588	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	12559	24815588	65539165	1313	73971											
TNRC6A	27327	broad.mit.edu	37	chr16	24817552	24817552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagcgcagcagcaaagggCgcagagtcagagaagcgtgc	12	4	16	9	3	1	2	1	0	0	2	1	3	1	2	0	1	5	5	0	1	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:24817552C>T	uc002dmm.2	+	16	4391	c.4277C>T	c.(4276-4278)GCG>GTG	p.A1426V	TNRC6A_uc010bxs.2_Missense_Mutation_p.A1173V|TNRC6A_uc002dmn.2_Missense_Mutation_p.A1124V|TNRC6A_uc002dmo.2_Missense_Mutation_p.A1065V|TNRC6A_uc002dmp.2_Missense_Mutation_p.A27V|TNRC6A_uc002dmq.2_Missense_Mutation_p.A93V	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1426					negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		CAGCAAAGGGCGCAGAGTCAG	0.507													30	75					0	0	0.009535	0	0		T	24817552	T	T	24817552	3	4	134	1	0	0	0	0	1	0	0	0	16365	768	27	1	4339	1	TNRC6A	16	24817552	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1964	24817552	65537201	1314	73972											
JMJD5	79831	broad.mit.edu	37	chr16	27232030	27232030	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctctggatttgagcttctcGgtcagcttctggtggtcgta	4	15	13	9	2	4	1	1	1	3	0	6	2	4	2	0	4	2	4	0	4	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:27232030G>T	uc002doh.2	+	8	1412	c.1230G>T	c.(1228-1230)TCG>TCT	p.S410S	JMJD5_uc010vcn.1_Silent_p.S448S|JMJD5_uc010bxw.2_Silent_p.S214S|JMJD5_uc010bxx.2_RNA	NM_024773	NP_079049	Q8N371	KDM8_HUMAN	jumonji domain containing 5 isoform 2	410	JmjC.				G2/M transition of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|histone demethylase activity (H3-K36 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(2)|upper_aerodigestive_tract(1)	3						TGAGCTTCTCGGTCAGCTTCT	0.527													79	148					4.41824e-40	5.24145e-40	0.01441	1	0		T	27232030	T	T	27232030	2	4	134	1	0	0	0	0	0	0	0	1	7968	1103	39	5		5	JMJD5	16	27232030	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2414478	27232030	63122723	1315	73973											
KIAA0556	23247	broad.mit.edu	37	chr16	27751366	27751366	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcttatggtttcaggatcTtgacattggtgccaagaacg	11	13	10	7	1	3	2	1	1	2	1	3	3	3	3	1	3	2	1	1	3	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:27751366T>C	uc002dow.2	+	15	1772	c.1748T>C	c.(1747-1749)CTT>CCT	p.L583P		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	583										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						TTTCAGGATCTTGACATTGGT	0.403													5	162					0	0	0.001168	0	0		C	27751366	C	C	27751366	3	2	134	1	0	0	0	0	1	0	0	0	8199	1609	56	3	1806	3	KIAA0556	16	27751366	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	519336	27751366	62603387	1316	73974											
APOB48R	55911	broad.mit.edu	37	chr16	28508985	28508985	+	Frame_Shift_Del	DEL	G	-	-																															tgggagccatggtggaggctGgggggcttctagaaaagtgg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:28508985delG	uc002dqb.1	+	3	2606	c.2596delG	c.(2596-2598)GGGfs	p.G866fs	uc010vct.1_Intron|APOB48R_uc010byg.1_Frame_Shift_Del_p.G404fs	NM_018690	NP_061160	Q0VD83	APOBR_HUMAN	apolipoprotein B48 receptor	866	Glu-rich.				cholesterol metabolic process|lipid transport	chylomicron|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle					0						GGTGGAGGCTGGGGGGCTTCT	0.627													9	18	---	---	---	---						.	-	28508985	-	-	28508985	7	5	134	1	0	1	0	1	0	0	0	0	786	1348	47	0	2606	0	APOB48R	16	28508985	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	757619	28508985	61845768	1317	73975											
ZNF48	197407	broad.mit.edu	37	chr16	30409310	30409310	+	Frame_Shift_Del	DEL	C	-	-																															ggacacaccggggggagcagCccccccgaccagtggtgccc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:30409310delC	uc002dya.1	+	2	798	c.739delC	c.(739-741)CCCfs	p.P247fs	ZNF48_uc002dxz.1_Frame_Shift_Del_p.P124fs	NM_152652	NP_689865	Q96MX3	ZNF48_HUMAN	zinc finger protein 48	247					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGGGGAGCAGCCCCCCCGACC	0.637													21	48	---	---	---	---						.	-	30409310	-	-	30409310	7	5	134	1	0	1	0	1	0	0	0	0	17959	739	26	0	745	0	ZNF48	16	30409310	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	1900325	30409310	59945443	1318	73976											
SRCAP	10847	broad.mit.edu	37	chr16	30750430	30750430	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcggcccagccagctcccCgtcttggaccgtgacagcac	6	6	10	19	3	1	1	0	1	1	0	3	2	2	2	6	2	3	2	6	2	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:30750430C>T	uc002dze.1	+	34	9454	c.9069C>T	c.(9067-9069)CCC>CCT	p.P3023P	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Silent_p.P2818P	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	3023	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			GCCAGCTCCCCGTCTTGGACC	0.607													46	88					0	0	0.01441	0	0		T	30750430	T	T	30750430	2	4	134	1	0	0	0	0	0	0	0	1	15160	639	23	1		1	SRCAP	16	30750430	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	341120	30750430	59604323	1319	73977											
PRSS36	146547	broad.mit.edu	37	chr16	31151942	31151942	+	Frame_Shift_Del	DEL	G	-	-																															gctcagctccaggagggccaGggggggcctgagtcccaggt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:31151942delG	uc002ebd.2	-	13	2097	c.2038delC	c.(2038-2040)CTGfs	p.L680fs	PRSS36_uc010vff.1_Frame_Shift_Del_p.L455fs|PRSS36_uc010vfg.1_Frame_Shift_Del_p.L675fs|PRSS36_uc010vfh.1_Intron	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	680	Peptidase S1 3.				proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						AGGAGGGCCAGGGGGGGCCTG	0.726													14	25	---	---	---	---						.	-	31151942	-	-	31151942	7	5	134	1	0	1	0	1	0	0	0	0	12647	991	35	0	541	0	PRSS36	16	31151942	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	401512	31151942	59202811	1320	73978											
SLC5A2	6524	broad.mit.edu	37	chr16	31499991	31499991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggccgcgctcatgtcctCgctggcctccatcttcaaca	5	10	9	17	3	3	0	2	0	1	0	6	0	5	0	4	2	1	3	4	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:31499991C>T	uc002ecf.3	+	10	1197	c.1178C>T	c.(1177-1179)TCG>TTG	p.S393L	SLC5A2_uc010car.2_Intron|C16orf58_uc002ecg.2_RNA	NM_003041	NP_003032	P31639	SC5A2_HUMAN	solute carrier family 5 (sodium/glucose	393	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	low-affinity glucose:sodium symporter activity			ovary(1)	1						CTCATGTCCTCGCTGGCCTCC	0.706													19	30					0	0	0.010504	0	0		T	31499991	T	T	31499991	3	4	134	1	0	0	0	0	1	0	0	0	14690	893	31	1	1216	1	SLC5A2	16	31499991	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	348049	31499991	58854762	1321	73979											
VPS35	55737	broad.mit.edu	37	chr16	46696158	46696158	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggaatgaccttacctcCtccccatttttgtccgtgtt	6	15	7	13	1	1	1	1	1	0	0	4	2	4	2	6	1	1	1	6	1	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:46696158C>A	uc002eef.3	-	15	2163	c.2064G>T	c.(2062-2064)GAG>GAT	p.E688D	VPS35_uc002eed.2_Missense_Mutation_p.E509D|VPS35_uc002eee.2_Missense_Mutation_p.E649D	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	688					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				ACCTTACCTCCTCCCCATTTT	0.493													43	85					4.06502e-11	4.5312e-11	0.013114	1	0		A	46696158	A	A	46696158	3	1	134	1	0	0	0	0	1	0	0	0	17229	680	24	5	338	5	VPS35	16	46696158	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	15196167	46696158	43658595	1322	73980											
NETO2	81831	broad.mit.edu	37	chr16	47165884	47165884	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatgtaagtactttaccttgGgttttttgggccacggcaat	9	15	10	7	1	0	0	0	0	0	0	0	0	0	0	2	3	2	4	2	3	5	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:47165884G>A	uc002eer.1	-	2	472	c.87C>T	c.(85-87)ACC>ACT	p.T29T	NETO2_uc002ees.1_Silent_p.T29T	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	29	Extracellular (Potential).					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				CTTTACCTTGGGTTTTTTGGG	0.363										HNSCC(25;0.065)			8	479					0	0	0.008291	0	0		A	47165884	A	A	47165884	2	1	134	1	0	0	0	0	0	0	0	1	10359	1219	43	4		4	NETO2	16	47165884	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	469726	47165884	43188869	1323	73981											
ZNF423	23090	broad.mit.edu	37	chr16	49670272	49670272	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgaacaaacgttgcactTgtgactgcccttgataaact	11	11	8	11	2	0	3	0	3	0	0	0	3	0	3	2	0	5	2	2	0	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:49670272T>C	uc002efs.2	-	5	3089	c.2791A>G	c.(2791-2793)AAG>GAG	p.K931E	ZNF423_uc010vgn.1_Missense_Mutation_p.K814E	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	931	C2H2-type 22.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				ACGTTGCACTTGTGACTGCCC	0.592													4	122					0	0	0.009096	0	0		C	49670272	C	C	49670272	3	2	134	1	0	0	0	0	1	0	0	0	17923	1821	63	3	1083	3	ZNF423	16	49670272	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2504388	49670272	40684481	1324	73982											
IRX3	79191	broad.mit.edu	37	chr16	54319087	54319087	+	Frame_Shift_Del	DEL	C	-	-																															gccccccgtgtcctcctcctCccccccgagctcctcctcct																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:54319087delC	uc002eht.1	-	2	1122	c.706delG	c.(706-708)GAGfs	p.E236fs		NM_024336	NP_077312	P78415	IRX3_HUMAN	iroquois homeobox 3	236	Asp/Glu-rich (acidic).				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						tcctcctcctcccccccgagc	0.284													7	14	---	---	---	---						.	-	54319087	-	-	54319087	7	5	134	1	0	1	0	1	0	0	0	0	7861	864	30	0	811	0	IRX3	16	54319087	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	4648815	54319087	36035666	1325	73983											
IRX6	79190	broad.mit.edu	37	chr16	55363169	55363169	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgctgaactgtgcgccgTgcccgcggaggagcgagcct	6	6	15	14	6	0	1	0	1	0	0	0	4	0	3	4	2	6	1	4	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:55363169T>C	uc002ehy.2	+	5	1812	c.1279T>C	c.(1279-1281)TGC>CGC	p.C427R	IRX6_uc002ehx.2_Missense_Mutation_p.C427R	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	427						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						CTGTGCGCCGTGCCCGCGGAG	0.617													25	61					0	0	0.008361	0	0		C	55363169	C	C	55363169	3	2	134	1	0	0	0	0	1	0	0	0	7864	1696	59	3	1297	3	IRX6	16	55363169	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1044082	55363169	34991584	1326	73984											
MT2A	4502	broad.mit.edu	37	chr16	56643249	56643249	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaggggcgtcggacaagTgcagctgctgcgcctgatgc	8	6	16	11	3	0	1	0	1	0	0	1	2	0	2	1	3	5	4	1	3	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:56643249T>C	uc002ejh.2	+	3	259	c.169T>C	c.(169-171)TGC>CGC	p.C57R	MT1A_uc002eji.2_Intron	NM_005953	NP_005944	P02795	MT2_HUMAN	metallothionein 2A	57	Alpha.	Divalent metal cation; cluster A.			cellular copper ion homeostasis|interferon-gamma-mediated signaling pathway		metal ion binding|protein binding				0						GTCGGACAAGTGCAGCTGCTG	0.617													6	105					0	0	0.001984	0	0		C	56643249	C	C	56643249	3	2	134	1	0	0	0	0	1	0	0	0	9923	1696	59	3	179	3	MT2A	16	56643249	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1280080	56643249	33711504	1327	73985											
NLRC5	84166	broad.mit.edu	37	chr16	57067548	57067548	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaaagtgacggccagaGgaaaggggctcagagcagaa	15	2	17	7	1	1	4	1	1	0	3	1	6	1	6	1	5	1	3	1	5	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:57067548G>T	uc002ekk.1	+	12	2735	c.2510G>T	c.(2509-2511)AGG>ATG	p.R837M	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.R586M|NLRC5_uc002ekl.2_Missense_Mutation_p.R642M|NLRC5_uc002ekm.2_Missense_Mutation_p.R642M|NLRC5_uc010ccr.1_RNA|NLRC5_uc010ccs.1_5'Flank	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	837					defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				GACGGCCAGAGGAAAGGGGCT	0.552													30	106					2.85442e-18	3.25387e-18	0.010818	1	0		T	57067548	T	T	57067548	3	4	134	1	0	0	0	0	1	0	0	0	10489	1000	35	5	2548	5	NLRC5	16	57067548	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	424299	57067548	33287205	1328	73986											
CX3CL1	6376	broad.mit.edu	37	chr16	57416105	57416105	+	Frame_Shift_Del	DEL	G	-	-																															ccaggaccacccctgccgccGggggaatggacgagtctgtg																								rs147669719		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:57416105delG	uc002eli.2	+	3	422	c.355delG	c.(355-357)GGGfs	p.G119fs		NM_002996	NP_002987	P78423	X3CL1_HUMAN	chemokine (C-X3-C motif) ligand 1 precursor	119	Mucin-like stalk.|Extracellular (Potential).				cell adhesion|cytokine-mediated signaling pathway|defense response|immune response|leukocyte adhesive activation|positive regulation of calcium-independent cell-cell adhesion|positive regulation of inflammatory response	cell surface|extracellular space|integral to membrane|plasma membrane	chemokine activity				0						CCCTGCCGCCGGGGGAATGGA	0.647													43	79	---	---	---	---						.	-	57416105	-	-	57416105	7	5	134	1	0	1	0	1	0	0	0	0	4077	1116	39	0	365	0	CX3CL1	16	57416105	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	348557	57416105	32938648	1329	73987											
CNOT1	23019	broad.mit.edu	37	chr16	58619303	58619303	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagagctctccatcatggTtttagctacccctccggaat	10	11	7	13	1	2	1	1	0	1	1	4	2	3	2	4	2	3	3	4	2	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:58619303T>C	uc002env.2	-	8	1038	c.745A>G	c.(745-747)ACC>GCC	p.T249A	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.T249A|CNOT1_uc002enx.2_Missense_Mutation_p.T249A|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	249					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TCCATCATGGTTTTAGCTACC	0.458													12	278					0	0	0.00245	0	0		C	58619303	C	C	58619303	3	2	134	1	0	0	0	0	1	0	0	0	3620	1725	60	3	6775	3	CNOT1	16	58619303	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1203198	58619303	31735450	1330	73988											
CDH11	1009	broad.mit.edu	37	chr16	64981761	64981761	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatcgacatccacgctgttGggcgctggccggagcccagg	6	7	14	14	4	1	0	1	0	0	0	3	2	2	1	3	4	1	3	3	4	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:64981761G>A	uc002eoi.2	-	13	2570	c.2136C>T	c.(2134-2136)CCC>CCT	p.P712P	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_3'UTR|CDH11_uc010vin.1_Silent_p.P586P	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	712	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		CCACGCTGTTGGGCGCTGGCC	0.512			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			50	139					0	0	0.01441	0	0		A	64981761	A	A	64981761	2	1	134	1	0	0	0	0	0	0	0	1	3100	1335	47	4		4	CDH11	16	64981761	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6362458	64981761	25372992	1331	73989											
CMTM3	123920	broad.mit.edu	37	chr16	66643409	66643409	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggccatcgccaagtactcGgatggggcttccaaagccgc	9	6	12	14	4	0	0	0	0	0	0	3	1	1	1	4	4	2	2	4	4	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:66643409G>A	uc002epu.2	+	4	634	c.375G>A	c.(373-375)TCG>TCA	p.S125S	CMTM3_uc002epv.2_Silent_p.S125S|CMTM3_uc002epw.2_Silent_p.S125S|CMTM3_uc002epx.2_Silent_p.S125S|CMTM3_uc002epy.2_RNA	NM_001048251	NP_001041716	Q96MX0	CKLF3_HUMAN	chemokine-like factor superfamily 3	125	MARVEL.				chemotaxis	extracellular space|integral to membrane	cytokine activity			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0671)|Epithelial(162;0.164)		CCAAGTACTCGGATGGGGCTT	0.632													4	7					0	0	0.009096	0	0		A	66643409	A	A	66643409	2	1	134	1	0	0	0	0	0	0	0	1	3587	1103	39	1		1	CMTM3	16	66643409	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1661648	66643409	23711344	1332	73990											
CA7	766	broad.mit.edu	37	chr16	66880978	66880978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccattgcccagggagatcGccaatcacccatcaatatca	12	8	6	15	1	3	1	3	0	0	1	5	2	4	1	4	1	1	0	4	1	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:66880978G>A	uc002eqi.2	+	2	195	c.86G>A	c.(85-87)CGC>CAC	p.R29H	uc002eqh.2_Intron|CA7_uc002eqj.2_5'UTR	NM_005182	NP_005173	P43166	CAH7_HUMAN	carbonic anhydrase VII isoform 1	29					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		CAGGGAGATCGCCAATCACCC	0.592													23	48					0	0	0.014323	0	0		A	66880978	A	A	66880978	3	1	134	1	0	0	0	0	1	0	0	0	2525	1087	38	1	92	1	CA7	16	66880978	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	237569	66880978	23473775	1333	73991											
CES8	283848	broad.mit.edu	37	chr16	67040713	67040713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatactgggccaactttgccCgcacagggtgagtctgcccc	8	8	11	14	1	1	1	0	1	1	0	1	1	1	1	4	2	4	1	4	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:67040713C>T	uc002eqv.2	+	11	1343	c.1300C>T	c.(1300-1302)CGC>TGC	p.R434C	CES8_uc010vix.1_Intron|CES8_uc002eqw.2_Intron|CES8_uc002eqy.2_Missense_Mutation_p.R406C|CES8_uc002eqx.2_Missense_Mutation_p.R310C|CES8_uc010viy.1_Intron|CES8_uc010viz.1_Missense_Mutation_p.R406C|CES8_uc002eqz.2_Intron	NM_173815	NP_776176	Q5XG92	EST4A_HUMAN	carboxylesterase 8 (putative)	504						extracellular region	carboxylesterase activity				0						CAACTTTGCCCGCACAGGGTG	0.567													45	74					0	0	0.010771	0	0		T	67040713	T	T	67040713	3	4	134	1	0	0	0	0	1	0	0	0	3276	652	23	1	1641	1	CES8	16	67040713	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	159735	67040713	23314040	1334	73992											
EXOC3L	283849	broad.mit.edu	37	chr16	67221443	67221443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcgctgacgccagtccCgggggacctggcccaggggg	6	3	18	14	3	0	1	0	1	0	0	1	3	1	2	4	5	1	1	4	5	0	0	rs141744902	by1000genomes	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:67221443C>T	uc002erx.1	-	5	966	c.725G>A	c.(724-726)CGG>CAG	p.R242Q	EXOC3L_uc002erv.1_RNA|EXOC3L_uc002erw.1_Intron|EXOC3L_uc002ery.1_Missense_Mutation_p.R186Q|EXOC3L_uc010vje.1_Missense_Mutation_p.R181Q	NM_178516	NP_848611	Q86VI1	EX3L1_HUMAN	exocyst complex component 3-like	242	Mediates interaction with EXOC2, EXOC4 and EXOC5 (By similarity).				exocytosis|peptide hormone secretion	exocyst|stored secretory granule|transport vesicle					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0021)|Epithelial(162;0.0073)|all cancers(182;0.0616)		ACGCCAGTCCCGGGGGACCTG	0.692													37	51					0	0	0.005524	0	0		T	67221443	T	T	67221443	3	4	134	1	0	0	0	0	1	0	0	0	5312	652	23	1	1555	1	EXOC3L	16	67221443	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	180730	67221443	23133310	1335	73993											
PLEKHG4	25894	broad.mit.edu	37	chr16	67314806	67314806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactcgggatgtccaaggccGggcagtgctgcttctgtgtg	5	10	16	10	2	1	0	0	0	1	0	3	2	2	1	2	3	2	3	2	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:67314806G>A	uc002eso.3	+	3	3152	c.617G>A	c.(616-618)CGG>CAG	p.R206Q	PLEKHG4_uc002esp.3_Missense_Mutation_p.R13Q|PLEKHG4_uc002esq.3_Missense_Mutation_p.R206Q|PLEKHG4_uc002esr.1_Missense_Mutation_p.R54Q|PLEKHG4_uc010cef.2_Missense_Mutation_p.R206Q|PLEKHG4_uc002ess.3_Missense_Mutation_p.R206Q|PLEKHG4_uc010ceg.2_Missense_Mutation_p.R125Q	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	206					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		GTCCAAGGCCGGGCAGTGCTG	0.647													29	63					0	0	0.007291	0	0		A	67314806	A	A	67314806	3	1	134	1	0	0	0	0	1	0	0	0	12090	1116	39	1	627	1	PLEKHG4	16	67314806	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	93363	67314806	23039947	1336	73994											
HSD11B2	3291	broad.mit.edu	37	chr16	67470195	67470195	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggcctatggaacctccaaAgcggccgtggcgctactcat	8	7	13	13	3	1	0	1	0	0	0	2	1	2	1	4	5	3	1	4	5	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:67470195A>C	uc002etd.2	+	4	824	c.708A>C	c.(706-708)AAA>AAC	p.K236N		NM_000196	NP_000187	P80365	DHI2_HUMAN	hydroxysteroid (11-beta) dehydrogenase 2	236					glucocorticoid biosynthetic process	endoplasmic reticulum|microsome					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0401)|Epithelial(162;0.0891)	NADH(DB00157)	GAACCTCCAAAGCGGCCGTGG	0.577													87	162					0	0	0.01441	0	0		C	67470195	C	C	67470195	3	2	134	1	0	0	0	0	1	0	0	0	7393	69	3	5	722	5	HSD11B2	16	67470195	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	155389	67470195	22884558	1337	73995											
ATP6V0D1	9114	broad.mit.edu	37	chr16	67477028	67477028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagggtgttgcggatgatctCgatgttcatctcgtcaaggt	7	13	14	7	3	4	1	2	1	2	0	6	4	4	2	0	3	1	2	0	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:67477028C>T	uc002ete.1	-	4	635	c.535G>A	c.(535-537)GAG>AAG	p.E179K	ATP6V0D1_uc010vjo.1_Missense_Mutation_p.E220K|ATP6V0D1_uc010vjn.1_Missense_Mutation_p.E102K	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit	179					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		CGGATGATCTCGATGTTCATC	0.572													75	145					0	0	0.01441	0	0		T	67477028	T	T	67477028	3	4	134	1	0	0	0	0	1	0	0	0	1174	893	31	1	540	1	ATP6V0D1	16	67477028	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	6833	67477028	22877725	1338	73996											
CTCF	10664	broad.mit.edu	37	chr16	67670738	67670738	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctggcagaaccaaccaGcccaaacagaaccagcgtaa	15	2	7	17	1	0	2	0	0	0	2	0	2	0	2	6	1	6	2	6	1	5	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:67670738G>A	uc002etl.2	+	11	2273	c.1983G>A	c.(1981-1983)CAG>CAA	p.Q661Q	CTCF_uc010cek.2_Silent_p.Q333Q|CTCF_uc002etm.1_Silent_p.Q150Q	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor	661					chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)		GAACCAACCAGCCCAAACAGA	0.597													16	543					0	0	0.007413	0	0		A	67670738	A	A	67670738	2	1	134	1	0	0	0	0	0	0	0	1	4003	962	34	2		2	CTCF	16	67670738	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	193710	67670738	22684015	1339	73997											
RANBP10	57610	broad.mit.edu	37	chr16	67763281	67763281	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggatggggaagaggacgaGgaggaggaggaggacgagga	14	1	24	2	2	0	1	0	0	0	1	0	13	0	10	0	10	0	0	0	10	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:67763281G>C	uc002eud.2	-	10	1370	c.1254C>G	c.(1252-1254)TCC>TCG	p.S418S	RANBP10_uc010ceo.2_Silent_p.S189S|RANBP10_uc010vju.1_Silent_p.S362S|RANBP10_uc010vjv.1_Silent_p.S301S|RANBP10_uc010vjw.1_Silent_p.S79S	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	418	Ser-rich.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		aagaggacgaggaggaggagg	0.408													22	53					0	0	0.010504	0	0		C	67763281	C	C	67763281	2	2	134	1	0	0	0	0	0	0	0	1	13051	987	35	5		5	RANBP10	16	67763281	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	92543	67763281	22591472	1340	73998											
PSKH1	5681	broad.mit.edu	37	chr16	67943103	67943103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgtgtgctgcgtcgggtgCgtcatgccaacatcatccag	6	10	13	12	4	2	0	2	0	0	0	4	0	3	0	2	1	6	1	2	1	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:67943103C>T	uc002euv.2	+	2	621	c.451C>T	c.(451-453)CGT>TGT	p.R151C	PSKH1_uc010cet.2_Missense_Mutation_p.R151C	NM_006742	NP_006733	P11801	KPSH1_HUMAN	protein serine kinase H1	151	Protein kinase.					endoplasmic reticulum membrane|Golgi apparatus|microtubule organizing center|nuclear speck|plasma membrane	ATP binding|protein serine/threonine kinase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0044)|Epithelial(162;0.0197)|all cancers(182;0.128)		GCGTCGGGTGCGTCATGCCAA	0.612													17	26					0	0	0.007413	0	0		T	67943103	T	T	67943103	3	4	134	1	0	0	0	0	1	0	0	0	12686	768	27	1	453	1	PSKH1	16	67943103	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	179822	67943103	22411650	1341	73999											
PLA2G15	23659	broad.mit.edu	37	chr16	68279440	68279440	+	Frame_Shift_Del	DEL	C	-	-																															gcgctcccggccggacgtcaCcccccagtggtgctgggtga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:68279440delC	uc002evr.2	+	1	194	c.111delC	c.(109-111)CACfs	p.H37fs	PLA2G15_uc010vld.1_Frame_Shift_Del_p.H37fs|PLA2G15_uc010vle.1_Frame_Shift_Del_p.H37fs|PLA2G15_uc010vlf.1_Frame_Shift_Del_p.H37fs	NM_012320	NP_036452	Q8NCC3	PAG15_HUMAN	lysophospholipase 3 (lysosomal phospholipase A2)	37					fatty acid catabolic process	extracellular region|lysosome	lysophospholipase activity|phosphatidylcholine-sterol O-acyltransferase activity|phospholipid binding			ovary(1)	1						CCGGACGTCACCCCCCAGTGG	0.711													9	12	---	---	---	---						.	-	68279440	-	-	68279440	7	5	134	1	0	1	0	1	0	0	0	0	12011	506	18	0	113	0	PLA2G15	16	68279440	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	336337	68279440	22075313	1342	74000											
SLC7A6	9057	broad.mit.edu	37	chr16	68308738	68308738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgccacctcaaaggtcctccGaaactatgcagctgaagaag	13	6	9	13	2	1	2	1	1	0	1	3	3	3	2	4	1	3	2	4	1	5	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:68308738G>A	uc002evt.1	+	4	418	c.109G>A	c.(109-111)GAA>AAA	p.E37K	SLC7A6_uc010cfb.1_RNA|SLC7A6_uc002evu.1_Missense_Mutation_p.E37K|SLC7A6_uc002evv.1_RNA|SLC7A6_uc010cfc.1_RNA	NM_001076785	NP_001070253	Q92536	YLAT2_HUMAN	solute carrier family 7 (cationic amino acid	37	Cytoplasmic (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|antiporter activity			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.0948)		AAGGTCCTCCGAAACTATGCA	0.577													44	90					0	0	0.011902	0	0		A	68308738	A	A	68308738	3	1	134	1	0	0	0	0	1	0	0	0	14726	1059	37	1	111	1	SLC7A6	16	68308738	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	29298	68308738	22046015	1343	74001											
SMPD3	55512	broad.mit.edu	37	chr16	68405541	68405541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccaggctgctgaagctagCggcgctgatggaggtattgg	8	8	16	9	2	0	2	0	2	0	0	0	3	0	3	1	5	3	5	1	5	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:68405541C>T	uc002ewa.2	-	3	966	c.544G>A	c.(544-546)GCT>ACT	p.A182T	SMPD3_uc010cfe.2_Missense_Mutation_p.A182T|SMPD3_uc010vlh.1_Missense_Mutation_p.A182T	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	182	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	CTGAAGCTAGCGGCGCTGATG	0.637													16	38					0	0	0.012319	0	0		T	68405541	T	T	68405541	3	4	134	1	0	0	0	0	1	0	0	0	14831	768	27	1	1451	1	SMPD3	16	68405541	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	96803	68405541	21949212	1344	74002											
HAS3	3038	broad.mit.edu	37	chr16	69143627	69143627	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcctgcgctcggcccagcGcatctccttccctgacctca	4	9	9	19	3	2	1	1	1	1	0	5	1	3	1	5	1	3	2	5	1	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:69143627G>A	uc010cfh.2	+	2	553	c.329G>A	c.(328-330)CGC>CAC	p.R110H	HAS3_uc002ewk.2_Missense_Mutation_p.R110H|HAS3_uc010vlk.1_Missense_Mutation_p.R110H|HAS3_uc002ewl.2_Missense_Mutation_p.R110H	NM_005329	NP_005320	O00219	HAS3_HUMAN	hyaluronan synthase 3 isoform a	110	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to plasma membrane	hyaluronan synthase activity				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.0694)		TCGGCCCAGCGCATCTCCTTC	0.657													31	46					0	0	0.007291	0	0		A	69143627	A	A	69143627	3	1	134	1	0	0	0	0	1	0	0	0	6979	1087	38	1	331	1	HAS3	16	69143627	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	738086	69143627	21211126	1345	74003											
SNTB2	6645	broad.mit.edu	37	chr16	69317980	69317980	+	Frame_Shift_Del	DEL	C	-	-																															ttctggctccggatgtcgatCcccctcccttggatctgacc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:69317980delC	uc002ewu.2	+	5	1198	c.1178delC	c.(1177-1179)TCCfs	p.S393fs		NM_006750	NP_006741	Q13425	SNTB2_HUMAN	basic beta 2 syntrophin	393	PH 2.					cell junction|dystrophin-associated glycoprotein complex|membrane fraction|microtubule|transport vesicle membrane	actin binding|calmodulin binding|protein binding				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.208)		GGATGTCGATCCCCCTCCCTT	0.483													110	228	---	---	---	---						.	-	69317980	-	-	69317980	7	5	134	1	0	1	0	1	0	0	0	0	14898	855	30	0	1196	0	SNTB2	16	69317980	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	174353	69317980	21036773	1346	74004											
TERF2	7014	broad.mit.edu	37	chr16	69404408	69404408	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggaggtagggctcggcgTcatccaggtggctctccagg	6	8	17	10	2	2	1	1	1	1	0	5	2	3	2	2	7	0	3	2	7	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:69404408T>C	uc002exd.2	-	5	817	c.692A>G	c.(691-693)GAC>GGC	p.D231G	TERF2_uc002exe.2_Missense_Mutation_p.D231G	NM_005652	NP_005643	Q15554	TERF2_HUMAN	telomeric repeat binding factor 2	231	TRFH dimerization.				age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)				GGGCTCGGCGTCATCCAGGTG	0.517													48	70					0	0	0.01441	0	0		C	69404408	C	C	69404408	3	2	134	1	0	0	0	0	1	0	0	0	15787	1667	58	3	834	3	TERF2	16	69404408	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	86428	69404408	20950345	1347	74005											
COG4	25839	broad.mit.edu	37	chr16	70517769	70517769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcttacctgcaagaggtctCggaatttgttggacacggcg	8	10	14	9	3	1	1	0	0	1	1	2	3	1	3	1	5	2	3	1	5	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:70517769C>T	uc002ezc.2	-	14	1825	c.1814G>A	c.(1813-1815)CGA>CAA	p.R605Q	COG4_uc002eza.2_5'UTR|COG4_uc002ezb.2_Missense_Mutation_p.R61Q|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Missense_Mutation_p.R584Q|COG4_uc002eze.2_Missense_Mutation_p.R299Q	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	601					Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)				CAAGAGGTCTCGGAATTTGTT	0.552													65	90					0	0	0.01441	0	0		T	70517769	T	T	70517769	3	4	134	1	0	0	0	0	1	0	0	0	3663	884	31	1	579	1	COG4	16	70517769	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1113361	70517769	19836984	1348	74006											
SF3B3	23450	broad.mit.edu	37	chr16	70590798	70590798	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccctctcaggactgtttgCaacctctaagcatgcaggct	8	11	8	14	0	2	0	1	0	2	0	4	1	3	1	2	2	4	5	2	2	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:70590798C>A	uc002ezf.2	+	15	2087	c.1876C>A	c.(1876-1878)CAA>AAA	p.Q626K		NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3	626					protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				GGACTGTTTGCAACCTCTAAG	0.448													7	115					0.00307968	0.00334755	0.00308	1	0		A	70590798	A	A	70590798	3	1	134	1	0	0	0	0	1	0	0	0	14177	711	25	5	1930	5	SF3B3	16	70590798	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	73029	70590798	19763955	1349	74007											
DHX38	9785	broad.mit.edu	37	chr16	72143405	72143405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaacaggcgggcaagtcacGgcaggtgaggattctgtgct	10	7	16	8	2	2	1	1	1	1	0	2	3	2	2	0	5	2	3	0	5	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:72143405G>A	uc002fcb.2	+	25	3828	c.3473G>A	c.(3472-3474)CGG>CAG	p.R1158Q	DHX38_uc010vmp.1_Missense_Mutation_p.R470Q	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	1158					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				GGCAAGTCACGGCAGGTGAGG	0.597													22	26					0	0	0.012319	0	0		A	72143405	A	A	72143405	3	1	134	1	0	0	0	0	1	0	0	0	4517	1116	39	1	3567	1	DHX38	16	72143405	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1552607	72143405	18211348	1350	74008											
ADAMTS18	170692	broad.mit.edu	37	chr16	77356327	77356327	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcaaaaaaaaattcaaagTtctcagccttgcagtacagt	16	11	6	8	0	2	0	2	0	1	0	3	0	2	0	1	0	4	4	1	0	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:77356327T>C	uc002ffc.3	-	14	2488	c.2069A>G	c.(2068-2070)AAC>AGC	p.N690S	ADAMTS18_uc010chc.1_Missense_Mutation_p.N278S|ADAMTS18_uc002ffe.1_Missense_Mutation_p.N386S	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	690	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						AAATTCAAAGTTCTCAGCCTT	0.388													66	117					0	0	0.01441	0	0		C	77356327	C	C	77356327	3	2	134	1	0	0	0	0	1	0	0	0	263	1725	60	3	1636	3	ADAMTS18	16	77356327	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	5212922	77356327	12998426	1351	74009											
SLC38A8	146167	broad.mit.edu	37	chr16	84067036	84067036	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtctgcgtaccacggctGcggggcgggcggggtgccag	3	6	20	12	5	1	0	0	0	1	0	1	0	1	0	2	7	4	2	2	7	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:84067036G>A	uc002fhg.1	-	3	427	c.427C>T	c.(427-429)CAG>TAG	p.Q143*		NM_001080442	NP_001073911	A6NNN8	S38A8_HUMAN	solute carrier family 38, member 8	143					amino acid transport|sodium ion transport	integral to membrane					0						TACCACGGCTGCGGGGCGGGC	0.657													45	97					0	0	0.013114	0	0		A	84067036	A	A	84067036	4	1	134	1	0	0	0	0	0	1	0	0	14635	1328	46	2	912	2	SLC38A8	16	84067036	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6710709	84067036	6287717	1352	74010											
MBTPS1	8720	broad.mit.edu	37	chr16	84126839	84126839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgaagttctgcatctggaGcaaatccttggcactccctc	8	12	9	12	0	2	1	0	1	2	0	5	2	4	2	2	2	2	4	2	2	2	2	rs149564178	by1000genomes	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:84126839G>A	uc002fhi.2	-	6	1302	c.800C>T	c.(799-801)GCT>GTT	p.A267V		NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	267	Serine protease.|Lumenal (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						TGCATCTGGAGCAAATCCTTG	0.438													24	82					0	0	0.00278	0	0		A	84126839	A	A	84126839	3	1	134	1	0	0	0	0	1	0	0	0	9379	971	34	2	2430	2	MBTPS1	16	84126839	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	59803	84126839	6227914	1353	74011											
ZDHHC7	55625	broad.mit.edu	37	chr16	85010039	85010039	+	Frame_Shift_Del	DEL	G	-	-																															ggattcatccagaggagtgaGgggggccccccaaagacgga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:85010039delG	uc002fiq.2	-	8	1190	c.837delC	c.(835-837)CCCfs	p.P279fs	ZDHHC7_uc010voi.1_Frame_Shift_Del_p.P316fs|ZDHHC7_uc002fir.1_RNA	NM_017740	NP_060210	Q9NXF8	ZDHC7_HUMAN	zinc finger, DHHC-type containing 7 isoform 2	279						integral to membrane	acyltransferase activity|protein binding|zinc ion binding			large_intestine(1)	1						AGAGGAGTGAGGGGGGCCCCC	0.587													34	75	---	---	---	---						.	-	85010039	-	-	85010039	7	5	134	1	0	1	0	1	0	0	0	0	17645	987	35	0	93	0	ZDHHC7	16	85010039	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	883200	85010039	5344714	1354	74012											
ANKRD11	29123	broad.mit.edu	37	chr16	89383423	89383423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctttagggcacccacccttgGgcatcgtcctgctcctcacc	5	10	8	18	1	1	0	1	0	0	0	4	0	3	0	5	2	1	3	5	2	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:89383423G>A	uc002fmx.1	-	3	466	c.5C>T	c.(4-6)CCC>CTC	p.P2L	ANKRD11_uc002fmy.1_Missense_Mutation_p.P2L|ANKRD11_uc002fnc.1_Missense_Mutation_p.P2L|ANKRD11_uc002fnd.2_5'UTR|ANKRD11_uc002fne.2_5'UTR|ANKRD11_uc002fng.1_Missense_Mutation_p.P2L|ANKRD11_uc002fnf.1_Missense_Mutation_p.P2L	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	2						nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CCCACCCTTGGGCATCGTCCT	0.542													8	12					0	0	0.006214	0	0		A	89383423	A	A	89383423	3	1	134	1	0	0	0	0	1	0	0	0	639	1232	43	4	8030	4	ANKRD11	16	89383423	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4373384	89383423	971330	1355	74013											
FANCA	2175	broad.mit.edu	37	chr16	89857811	89857811	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgattggcaggtcacttacCttgaaccagtctgcatatga	10	11	9	11	1	2	2	1	2	1	0	2	3	2	2	3	2	3	2	3	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:89857811C>A	uc002fou.1	-	14	1401	c.1359G>T	c.(1357-1359)AAG>AAT	p.K453N	FANCA_uc010vpn.1_Missense_Mutation_p.K453N	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	453					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		GGTCACTTACCTTGAACCAGT	0.572			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				14	18					0.000422831	0.000461104	0.004007	1	0		A	89857811	A	A	89857811	3	1	134	1	0	0	0	0	1	0	0	0	5676	695	24	5	3128	5	FANCA	16	89857811	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	474388	89857811	496942	1356	74014											
TUBB3	10381	broad.mit.edu	37	chr16	89999011	89999011	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcagtgatgagcatggcatCgaccccagcggcaactacgt	11	7	11	12	3	1	2	1	2	0	0	2	3	1	2	2	2	4	3	2	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:89999011C>T	uc002fph.1	+	2	155	c.90C>T	c.(88-90)ATC>ATT	p.I30I	TUBB3_uc002fpf.2_Silent_p.I377I|TUBB3_uc010ciz.1_5'UTR|TUBB3_uc010cja.1_RNA|TUBB3_uc002fpg.1_5'UTR|TUBB3_uc002fpi.1_5'UTR|TUBB3_uc002fpj.1_5'UTR|TUBB3_uc010cjb.1_5'UTR|TUBB3_uc002fpk.1_5'Flank	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	30					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		AGCATGGCATCGACCCCAGCG	0.622													20	77					0	0	0.012319	0	0		T	89999011	T	T	89999011	2	4	134	1	0	0	0	0	0	0	0	1	16783	874	31	1		1	TUBB3	16	89999011	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	141200	89999011	355742	1357	74015											
TUBB3	10381	broad.mit.edu	37	chr16	90001305	90001305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgggctccggcatgggcaCgttgctcatcagcaaggtgc	7	7	14	13	3	2	0	2	0	0	0	3	0	3	0	1	4	3	6	1	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr16:90001305C>T	uc002fph.1	+	4	511	c.446C>T	c.(445-447)ACG>ATG	p.T149M	TUBB3_uc002fpf.2_Missense_Mutation_p.T496M|TUBB3_uc010ciz.1_Missense_Mutation_p.T77M|TUBB3_uc002fpg.1_Missense_Mutation_p.T3M|TUBB3_uc002fpi.1_Missense_Mutation_p.T77M|TUBB3_uc002fpj.1_Missense_Mutation_p.T77M|TUBB3_uc010cjb.1_Missense_Mutation_p.T3M|TUBB3_uc002fpk.1_Missense_Mutation_p.T3M	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	149					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GGCATGGGCACGTTGCTCATC	0.637													47	78					0	0	0.01441	0	0		T	90001305	T	T	90001305	3	4	134	1	0	0	0	0	1	0	0	0	16783	536	19	1	460	1	TUBB3	16	90001305	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2294	90001305	353448	1358	74016											
GLOD4	51031	broad.mit.edu	37	chr17	685454	685454	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgccgtctggaagcggttTcccactttgaatacgaagtg	8	10	12	11	5	1	1	0	1	1	0	2	3	2	2	2	2	2	1	2	2	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:685454T>C	uc002frv.2	-	1	118	c.42A>G	c.(40-42)GGA>GGG	p.G14G	GLOD4_uc002fru.2_Silent_p.G14G|GLOD4_uc010vqc.1_5'UTR|RNMTL1_uc002frw.2_5'Flank	NM_016080	NP_057164	Q9HC38	GLOD4_HUMAN	glyoxalase domain containing 4	14						mitochondrion					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		GGAAGCGGTTTCCCACTTTGA	0.677													7	17					0	0	0.001984	0	0		C	685454	C	C	685454	2	2	134	1	0	0	0	0	0	0	0	1	6465	1770	62	3		3	GLOD4	17	685454	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08		685454	80509756	1359	74017											
NXN	64359	broad.mit.edu	37	chr17	729260	729260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acacaaccttcccagtggtgGcgtcgaggaatattagtgat	11	10	11	9	2	0	1	0	1	0	0	2	3	1	2	2	3	1	0	2	3	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:729260G>A	uc002fsa.2	-	2	511	c.419C>T	c.(418-420)GCC>GTC	p.A140V	NXN_uc002fsb.1_Missense_Mutation_p.A27V|NXN_uc002frz.2_5'UTR|NXN_uc010vqe.1_Missense_Mutation_p.A32V	NM_022463	NP_071908	Q6DKJ4	NXN_HUMAN	nucleoredoxin	140					cell differentiation|cell redox homeostasis|multicellular organismal development|Wnt receptor signaling pathway	cytosol|nucleus	protein-disulfide reductase activity			ovary(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (25;0.0237)		CCCAGTGGTGGCGTCGAGGAA	0.468													20	51					0	0	0.008871	0	0		A	729260	A	A	729260	3	1	134	1	0	0	0	0	1	0	0	0	10806	1203	42	2	916	2	NXN	17	729260	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	43806	729260	80465950	1360	74018											
SGSM2	9905	broad.mit.edu	37	chr17	2282378	2282378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgggaggtgatctgggcagCcaggcacatctcatcggagc	8	7	16	10	1	2	1	1	1	2	0	4	3	2	3	1	5	2	2	1	5	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:2282378C>T	uc002fun.3	+	22	2988	c.2813C>T	c.(2812-2814)GCC>GTC	p.A938V	SGSM2_uc002fum.3_Missense_Mutation_p.A983V|SGSM2_uc010vqw.1_Missense_Mutation_p.A938V|SGSM2_uc002fup.1_Missense_Mutation_p.A116V|SGSM2_uc002fuq.2_Missense_Mutation_p.A100V	NM_001098509	NP_001091979	O43147	SGSM2_HUMAN	RUN and TBC1 domain containing 1 isoform 2	938	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0				Colorectal(2;5.15e-05)|READ - Rectum adenocarcinoma(2;0.000115)		ATCTGGGCAGCCAGGCACATC	0.547													26	46					0	0	0.005443	0	0		T	2282378	T	T	2282378	3	4	134	1	0	0	0	0	1	0	0	0	14248	739	26	2	3038	2	SGSM2	17	2282378	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1553118	2282378	78912832	1361	74019											
METT10D	79066	broad.mit.edu	37	chr17	2323528	2323528	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgacaactttccaaaacCtccacccctcccttttcctc	8	12	1	20	0	0	1	0	1	0	0	5	1	4	1	8	0	2	0	8	0	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:2323528C>A	uc002fut.2	-	10	1573	c.1425G>T	c.(1423-1425)GAG>GAT	p.E475D	METT10D_uc002fuu.3_RNA|METT10D_uc010cka.2_RNA|METT10D_uc002fuv.2_Intron|METT10D_uc010vqx.1_RNA|METT10D_uc010vqy.1_Missense_Mutation_p.E257D	NM_024086	NP_076991	Q86W50	MET16_HUMAN	methyltransferase 10 domain containing	475							methyltransferase activity				0						TTTCCAAAACCTCCACCCCTC	0.612													21	330					1.50039e-11	1.67524e-11	0.012319	1	0		A	2323528	A	A	2323528	3	1	134	1	0	0	0	0	1	0	0	0	9508	680	24	5	267	5	METT10D	17	2323528	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	41150	2323528	78871682	1362	74020											
TRPV3	162514	broad.mit.edu	37	chr17	3417934	3417934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttaaggaaggagacgtgcGtcttccattcagtccacttc	9	11	10	11	3	2	1	1	0	1	1	5	3	4	2	2	2	1	1	2	2	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:3417934G>A	uc002fvt.1	-	17	2553	c.2231C>T	c.(2230-2232)ACG>ATG	p.T744M	SPATA22_uc010vrg.1_5'Flank|TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Missense_Mutation_p.T728M|TRPV3_uc010vri.1_Missense_Mutation_p.T699M|TRPV3_uc010vrj.1_Missense_Mutation_p.T728M|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Missense_Mutation_p.T728M|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Missense_Mutation_p.T744M|TRPV3_uc002fvu.2_Missense_Mutation_p.T744M	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	744	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	GGAGACGTGCGTCTTCCATTC	0.473													49	74					0	0	0.01441	0	0		A	3417934	A	A	3417934	3	1	134	1	0	0	0	0	1	0	0	0	16623	1145	40	1	149	1	TRPV3	17	3417934	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1094406	3417934	77777276	1363	74021											
CTNS	1497	broad.mit.edu	37	chr17	3560021	3560021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaccccgtgaacagcaacGacgtcttcttcagcctgcac	10	8	8	15	3	3	2	1	2	2	0	3	3	3	2	3	0	6	2	3	0	3	2	rs113994208		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:3560021G>A	uc002fwb.2	+	9	1206	c.613G>A	c.(613-615)GAC>AAC	p.D205N	CTNS_uc002fwa.2_Missense_Mutation_p.D205N|CTNS_uc010ckj.2_Missense_Mutation_p.D205N|CTNS_uc010vrv.1_Missense_Mutation_p.D58N|CTNS_uc010vrw.1_Missense_Mutation_p.D97N	NM_004937	NP_004928	O60931	CTNS_HUMAN	cystinosin isoform 2	205	Lumenal (Potential).		Missing (in CTNS).|D -> N (in CTNS).		ATP metabolic process|brain development|cognition|glutathione metabolic process	integral to membrane|late endosome|lysosomal membrane	L-cystine transmembrane transporter activity				0				COAD - Colon adenocarcinoma(5;0.0829)	L-Cystine(DB00138)	GAACAGCAACGACGTCTTCTT	0.617													62	97					0	0	0.01441	0	0		A	3560021	A	A	3560021	3	1	134	1	0	0	0	0	1	0	0	0	4024	1058	37	1	639	1	CTNS	17	3560021	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	142087	3560021	77635189	1364	74022											
CHRNE	1145	broad.mit.edu	37	chr17	4804184	4804184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggacgttgatggagaccGtgcatttctggccgccggct	6	9	15	11	4	1	2	0	1	1	1	1	4	1	3	3	4	1	4	3	4	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:4804184G>A	uc002fzk.1	-	8	832	c.821C>T	c.(820-822)ACG>ATG	p.T274M	C17orf107_uc002fzl.3_3'UTR	NM_000080	NP_000071	Q04844	ACHE_HUMAN	nicotinic acetylcholine receptor epsilon	274	Helical; (Potential).				muscle contraction|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						GATGGAGACCGTGCATTTCTG	0.647													16	47					0	0	0.00333	0	0		A	4804184	A	A	4804184	3	1	134	1	0	0	0	0	1	0	0	0	3398	1145	40	1	680	1	CHRNE	17	4804184	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1244163	4804184	76391026	1365	74023											
USP6	9098	broad.mit.edu	37	chr17	5049342	5049342	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taagttagatggtactacccCtgtacggtatggactaagac	12	11	10	8	1	0	2	0	0	0	2	0	3	0	3	2	3	3	4	2	3	7	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:5049342C>A	uc002gau.1	+	28	4422	c.2192C>A	c.(2191-2193)CCT>CAT	p.P731H	USP6_uc002gav.1_Missense_Mutation_p.P731H|USP6_uc010ckz.1_Missense_Mutation_p.P414H	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	731					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						GGTACTACCCCTGTACGGTAT	0.348			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								7	136					8.12818e-05	8.87834e-05	0.001984	1	0		A	5049342	A	A	5049342	3	1	134	1	0	0	0	0	1	0	0	0	17112	681	24	5	2266	5	USP6	17	5049342	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	245158	5049342	76145868	1366	74024											
ZNF594	84622	broad.mit.edu	37	chr17	5086206	5086206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagtatgaacacgatggtgtCtaataagatctgagctgccc	12	10	10	9	1	2	3	0	2	2	1	2	4	2	3	1	1	3	2	1	1	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:5086206C>T	uc010cla.1	-	2	1502	c.1346G>A	c.(1345-1347)AGA>AAA	p.R449K		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	449	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						ACGATGGTGTCTAATAAGATC	0.423													107	187					0	0	0.01441	0	0		T	5086206	T	T	5086206	3	4	134	1	0	0	0	0	1	0	0	0	18049	913	32	4	1081	4	ZNF594	17	5086206	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	36864	5086206	76109004	1367	74025											
NLRP1	22861	broad.mit.edu	37	chr17	5456824	5456824	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtttctggtgaccttgaGgacggagaagagaatctgcc	10	9	14	8	1	2	4	0	2	2	2	2	7	2	5	2	4	1	1	2	4	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:5456824G>T	uc002gci.2	-	5	2965	c.2410C>A	c.(2410-2412)CTC>ATC	p.L804I	NLRP1_uc002gcg.1_Missense_Mutation_p.L804I|NLRP1_uc002gck.2_Missense_Mutation_p.L804I|NLRP1_uc002gcj.2_Missense_Mutation_p.L804I|NLRP1_uc002gcl.2_Missense_Mutation_p.L804I|NLRP1_uc002gch.3_Missense_Mutation_p.L804I|NLRP1_uc010clh.2_Missense_Mutation_p.L804I	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	804					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				GTGACCTTGAGGACGGAGAAG	0.552													32	63					2.85442e-18	3.25387e-18	0.010818	1	0		T	5456824	T	T	5456824	3	4	134	1	0	0	0	0	1	0	0	0	10490	1000	35	5	2138	5	NLRP1	17	5456824	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	370618	5456824	75738386	1368	74026											
AIPL1	23746	broad.mit.edu	37	chr17	6337403	6337403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcacatttcatggtgcGgaaatgaaagatcacctagt	13	11	8	9	1	4	2	4	1	0	1	4	3	4	3	1	2	1	0	1	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:6337403G>A	uc002gcp.2	-	2	207	c.112C>T	c.(112-114)CGC>TGC	p.R38C	AIPL1_uc002gcq.2_Intron|AIPL1_uc002gcr.2_Missense_Mutation_p.R38C|AIPL1_uc010clk.2_Intron|AIPL1_uc010cll.2_Missense_Mutation_p.R38C|AIPL1_uc002gcs.2_Missense_Mutation_p.R38C	NM_014336	NP_055151	Q9NZN9	AIPL1_HUMAN	aryl hydrocarbon receptor interacting	38					protein farnesylation|protein folding|visual perception	cytoplasm|nucleus	farnesylated protein binding|unfolded protein binding				0				COAD - Colon adenocarcinoma(228;0.141)		TTCATGGTGCGGAAATGAAAG	0.567													23	24					0	0	0.00278	0	0		A	6337403	A	A	6337403	3	1	134	1	0	0	0	0	1	0	0	0	436	1116	39	1	1062	1	AIPL1	17	6337403	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	880579	6337403	74857807	1369	74027											
SLC16A11	162515	broad.mit.edu	37	chr17	6945418	6945418	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accagcccggggagtacaccGaaaaccagcggggcgtaact	12	3	13	13	4	0	0	0	0	0	0	0	2	0	1	4	4	5	2	4	4	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:6945418G>A	uc002gei.1	-	3	1421	c.1083C>T	c.(1081-1083)TTC>TTT	p.F361F		NM_153357	NP_699188	Q8NCK7	MOT11_HUMAN	solute carrier family 16, member 11	361	Extracellular (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(1)	1						GGAGTACACCGAAAACCAGCG	0.711													14	24					0	0	0.003163	0	0		A	6945418	A	A	6945418	2	1	134	1	0	0	0	0	0	0	0	1	14429	1049	37	1		1	SLC16A11	17	6945418	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	608015	6945418	74249792	1370	74028											
DNAH2	146754	broad.mit.edu	37	chr17	7681430	7681430	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcatccgccagaccaacacGcaatttcagtataattatga	14	10	6	11	2	2	2	2	1	0	1	3	2	3	2	3	0	1	2	3	0	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:7681430G>A	uc002giu.1	+	33	5297	c.5283G>A	c.(5281-5283)ACG>ACA	p.T1761T		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1761	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				AGACCAACACGCAATTTCAGT	0.532													55	67					0	0	0.01441	0	0		A	7681430	A	A	7681430	2	1	134	1	0	0	0	0	0	0	0	1	4608	1074	38	1		1	DNAH2	17	7681430	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	736012	7681430	73513780	1371	74029											
DNAH2	146754	broad.mit.edu	37	chr17	7701025	7701025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgaaggagcccaaggtgtAtgaagacctcacggatctga	12	7	12	10	1	2	4	1	3	1	1	2	6	2	6	3	3	1	1	3	3	4	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:7701025A>G	uc002giu.1	+	52	8122	c.8108A>G	c.(8107-8109)TAT>TGT	p.Y2703C		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2703					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CCCAAGGTGTATGAAGACCTC	0.542													75	133					0	0	0.01441	0	0		G	7701025	G	G	7701025	3	3	134	1	0	0	0	0	1	0	0	0	4608	449	16	3	8314	3	DNAH2	17	7701025	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	19595	7701025	73494185	1372	74030											
PER1	5187	broad.mit.edu	37	chr17	8050660	8050660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggggatgtcacggcgcCgactccacagagtcccgtgg	6	6	15	14	4	1	1	1	0	0	1	3	3	3	2	4	4	0	0	4	4	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:8050660C>T	uc002gkd.2	-	13	1775	c.1537G>A	c.(1537-1539)GGC>AGC	p.G513S	PER1_uc010vuq.1_RNA|PER1_uc010vur.1_Missense_Mutation_p.G497S	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	513					circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						GTCACGGCGCCGACTCCACAG	0.662			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					4	43					0	0	0.009096	0	0		T	8050660	T	T	8050660	3	4	134	1	0	0	0	0	1	0	0	0	11748	652	23	1	2379	1	PER1	17	8050660	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	349635	8050660	73144550	1373	74031											
PER1	5187	broad.mit.edu	37	chr17	8050889	8050889	+	Frame_Shift_Del	DEL	G	-	-																															agtgaacacgtcctcattcaGgggggccctgtagagtgaag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:8050889delG	uc002gkd.2	-	12	1634	c.1396delC	c.(1396-1398)CTGfs	p.L466fs	PER1_uc010vuq.1_RNA|PER1_uc010vur.1_Frame_Shift_Del_p.L450fs	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	466					circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						TCCTCATTCAGGGGGGCCCTG	0.657			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					20	42	---	---	---	---						.	-	8050889	-	-	8050889	7	5	134	1	0	1	0	1	0	0	0	0	11748	991	35	0	2524	0	PER1	17	8050889	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	229	8050889	73144321	1374	74032											
MYH10	4628	broad.mit.edu	37	chr17	8390804	8390804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgagctttgttcgcagcctCgatttgggcttcgaggtcct	4	13	12	12	4	0	0	0	0	0	0	4	3	1	0	3	2	2	4	3	2	0	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:8390804C>T	uc002gll.2	-	34	4996	c.4900G>A	c.(4900-4902)GAG>AAG	p.E1634K	MYH10_uc002glm.2_Missense_Mutation_p.E1665K|MYH10_uc010cnx.2_Missense_Mutation_p.E1643K	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1634	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TTCGCAGCCTCGATTTGGGCT	0.552													183	292					0	0	0.01441	0	0		T	8390804	T	T	8390804	3	4	134	1	0	0	0	0	1	0	0	0	10048	893	31	1	1062	1	MYH10	17	8390804	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	339915	8390804	72804406	1375	74033											
SPDYE4	388333	broad.mit.edu	37	chr17	8660792	8660792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagggattgaggctgggggCtgggatctatccaaggggct	8	8	18	7	0	1	1	0	1	1	0	2	3	2	3	1	7	0	3	1	7	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:8660792C>T	uc010cnz.1	-	2	305	c.128G>A	c.(127-129)AGC>AAC	p.S43N		NM_001128076	NP_001121548	A6NLX3	SPDE4_HUMAN	speedy homolog E4	43											0						AGGCTGGGGGCTGGGATCTAT	0.483													5	15					0	0	0.001168	0	0		T	8660792	T	T	8660792	3	4	134	1	0	0	0	0	1	0	0	0	15056	797	28	2	605	2	SPDYE4	17	8660792	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	269988	8660792	72534418	1376	74034											
MFSD6L	162387	broad.mit.edu	37	chr17	8700779	8700779	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatggacagcagcttcgAgtacttgattttccgctctc	7	13	8	13	2	1	1	0	1	1	0	5	3	3	2	2	1	3	4	2	1	1	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:8700779A>G	uc002glp.1	-	1	1808	c.1660T>C	c.(1660-1662)TCG>CCG	p.S554P		NM_152599	NP_689812	Q8IWD5	MFS6L_HUMAN	major facilitator superfamily domain containing	554						integral to membrane				central_nervous_system(1)	1						AGCAGCTTCGAGTACTTGATT	0.587													23	123					0	0	0.008361	0	0		G	8700779	G	G	8700779	3	3	134	1	0	0	0	0	1	0	0	0	9554	304	11	3	104	3	MFSD6L	17	8700779	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	39987	8700779	72494431	1377	74035											
WDR16	146845	broad.mit.edu	37	chr17	9515752	9515752	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatttcaaagagacgctcatAgcgacttgtcactttgatgc	11	12	9	9	2	3	2	3	1	0	1	3	5	3	2	0	0	2	1	0	0	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:9515752A>G	uc002gly.2	+	8	1050	c.981A>G	c.(979-981)ATA>ATG	p.I327M	WDR16_uc002glz.2_Missense_Mutation_p.I259M|WDR16_uc010coc.2_Missense_Mutation_p.I337M	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	327	WD 4.					cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						AGACGCTCATAGCGACTTGTC	0.418													50	114					0	0	0.01441	0	0		G	9515752	G	G	9515752	3	3	134	1	0	0	0	0	1	0	0	0	17302	410	15	3	1011	3	WDR16	17	9515752	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	814973	9515752	71679458	1378	74036											
USP43	124739	broad.mit.edu	37	chr17	9631968	9631968	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaggagaacaggaggaaTgagagggcagaggtctctcc	15	4	16	6	0	1	4	0	1	1	4	3	8	2	6	1	5	1	1	1	5	4	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:9631968T>C	uc010cod.2	+	15	3033	c.3033T>C	c.(3031-3033)AAT>AAC	p.N1011N	USP43_uc002gma.3_Silent_p.N700N|USP43_uc010vva.1_Silent_p.N1006N|USP43_uc010coe.2_Silent_p.N808N|USP43_uc002gmc.3_Silent_p.N523N	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	ubiquitin specific protease 43	1011					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						ACAGGAGGAATGAGAGGGCAG	0.642													19	31					0	0	0.012319	0	0		C	9631968	C	C	9631968	2	2	134	1	0	0	0	0	0	0	0	1	17100	1461	51	3		3	USP43	17	9631968	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	116216	9631968	71563242	1379	74037											
DHRS7C	201140	broad.mit.edu	37	chr17	9684848	9684848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatataggttctctagcCtctcccagttctttccacac	8	14	4	15	0	4	0	1	0	3	0	7	0	5	0	3	1	1	2	3	1	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:9684848C>T	uc010vvb.1	-	2	218	c.218G>A	c.(217-219)AGG>AAG	p.R73K	DHRS7C_uc010cof.2_Missense_Mutation_p.R73K	NM_001105571	NP_001099041	A6NNS2	DRS7C_HUMAN	dehydrogenase/reductase (SDR family) member 7C	73						extracellular region	binding|oxidoreductase activity				0						GTTCTCTAGCCTCTCCCAGTT	0.572													18	47					0	0	0.008871	0	0		T	9684848	T	T	9684848	3	4	134	1	0	0	0	0	1	0	0	0	4503	681	24	4	737	4	DHRS7C	17	9684848	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	52880	9684848	71510362	1380	74038											
MYH3	4621	broad.mit.edu	37	chr17	10532979	10532979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagattctgcgatatccgCacgttcctcggcctcctcca	6	12	8	15	4	1	1	0	1	1	1	6	3	5	1	5	1	1	2	5	1	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:10532979C>T	uc002gmq.1	-	39	5808	c.5731G>A	c.(5731-5733)GCG>ACG	p.A1911T		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1911	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						GCGATATCCGCACGTTCCTCG	0.562													44	93					0	0	0.01441	0	0		T	10532979	T	T	10532979	3	4	134	1	0	0	0	0	1	0	0	0	10054	710	25	2	99	2	MYH3	17	10532979	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	848131	10532979	70662231	1381	74039											
MYH3	4621	broad.mit.edu	37	chr17	10533718	10533718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccaggttcttcttcatccGctcaaggtgggcgctggtgt	4	14	12	11	2	4	0	2	0	2	0	6	0	6	0	2	4	0	3	2	4	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:10533718G>A	uc002gmq.1	-	36	5421	c.5344C>T	c.(5344-5346)CGG>TGG	p.R1782W		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1782	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TTCTTCATCCGCTCAAGGTGG	0.577													74	150					0	0	0.01441	0	0		A	10533718	A	A	10533718	3	1	134	1	0	0	0	0	1	0	0	0	10054	1086	38	1	498	1	MYH3	17	10533718	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	739	10533718	70661492	1382	74040											
MYH3	4621	broad.mit.edu	37	chr17	10535909	10535909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccatcttcttcttgagccGgatggcttcattcctgctcc	4	15	7	15	1	4	1	1	1	3	0	7	2	7	2	4	2	2	2	4	2	0	5	rs141020227		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:10535909G>A	uc002gmq.1	-	33	4917	c.4840C>T	c.(4840-4842)CGG>TGG	p.R1614W		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1614	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TTCTTGAGCCGGATGGCTTCA	0.582													232	464					0	0	0.01441	0	0		A	10535909	A	A	10535909	3	1	134	1	0	0	0	0	1	0	0	0	10054	1115	39	1	1014	1	MYH3	17	10535909	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2191	10535909	70659301	1383	74041											
MYH3	4621	broad.mit.edu	37	chr17	10542774	10542774	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctaacccagagagttcCtcagtaaggtttttaaccta	12	13	6	10	0	3	1	2	0	1	1	4	2	4	1	3	1	2	3	3	1	4	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:10542774C>A	uc002gmq.1	-	23	3020	c.2943G>T	c.(2941-2943)GAG>GAT	p.E981D		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	981	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CAGAGAGTTCCTCAGTAAGGT	0.413													38	60					1.836e-18	2.09531e-18	0.003755	1	0		A	10542774	A	A	10542774	3	1	134	1	0	0	0	0	1	0	0	0	10054	680	24	5	2951	5	MYH3	17	10542774	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	6865	10542774	70652436	1384	74042											
MYOCD	93649	broad.mit.edu	37	chr17	12655775	12655775	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaattcggggcttgcctgtGtcaggcaccaaaacggctct	8	9	12	12	3	2	0	1	0	1	0	3	1	2	0	2	4	2	3	2	4	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:12655775G>A	uc002gnn.2	+	10	1469	c.1170G>A	c.(1168-1170)GTG>GTA	p.V390V	MYOCD_uc002gno.2_Silent_p.V390V|MYOCD_uc002gnp.1_Silent_p.V294V|MYOCD_uc002gnq.2_Silent_p.V109V	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	390	SAP.				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		GCTTGCCTGTGTCAGGCACCA	0.468													36	60					0	0	0.010771	0	0		A	12655775	A	A	12655775	2	1	134	1	0	0	0	0	0	0	0	1	10105	1364	48	4		4	MYOCD	17	12655775	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2113001	12655775	68539435	1385	74043											
RICH2	9912	broad.mit.edu	37	chr17	12888089	12888089	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcactttgagcaaatcgcgGcccactcctaagccgcgaca	11	6	9	15	4	0	1	0	1	0	0	2	2	1	1	3	1	3	2	3	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:12888089G>A	uc002gnr.3	+	20	2508	c.2181G>A	c.(2179-2181)CGG>CGA	p.R727R	RICH2_uc010vvk.1_Silent_p.R727R|RICH2_uc010vvl.1_Silent_p.R721R|RICH2_uc002gns.3_Silent_p.R521R|RICH2_uc010vvm.1_Silent_p.R721R|RICH2_uc010vvn.1_RNA	NM_014859	NP_055674	Q17R89	RHG44_HUMAN	Rho GTPase-activating protein RICH2	727					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						GCAAATCGCGGCCCACTCCTA	0.627													19	47					0	0	0.012319	0	0		A	12888089	A	A	12888089	2	1	134	1	0	0	0	0	0	0	0	1	13382	1190	42	2		2	RICH2	17	12888089	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	232314	12888089	68307121	1386	74044											
TRIM16	10626	broad.mit.edu	37	chr17	15516026	15516026	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaacccaccttcgttctcaActtccacttcggatgtttca	8	13	6	14	2	2	0	2	0	1	0	6	2	3	2	3	2	2	2	3	2	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:15516026A>G	uc002gor.1	-	11	2378	c.2041T>C	c.(2041-2043)TTG>CTG	p.L681L	CDRT1_uc002gov.3_Silent_p.L371L			O95361	TRI16_HUMAN	SubName: Full=Putative uncharacterized protein; Flags: Fragment;	Error:Variant_position_missing_in_O95361_after_alignment					histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		TTCGTTCTCAACTTCCACTTC	0.473													7	462					0	0	0.00308	0	0		G	15516026	G	G	15516026	2	3	134	1	0	0	0	0	0	0	0	1	16517	40	2	3		3	TRIM16	17	15516026	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2627937	15516026	65679184	1387	74045											
ZNF624	57547	broad.mit.edu	37	chr17	16526349	16526349	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attttggtgaatgccctctcGcagtcagtacatttatatgg	9	15	9	8	1	2	1	1	1	1	0	3	1	2	1	1	2	2	2	1	2	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:16526349G>A	uc010cpi.1	-	6	1934	c.1851C>T	c.(1849-1851)TGC>TGT	p.C617C		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	617	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		ATGCCCTCTCGCAGTCAGTAC	0.383													181	333					0	0	0.01441	0	0		A	16526349	A	A	16526349	2	1	134	1	0	0	0	0	0	0	0	1	18073	1079	38	1		1	ZNF624	17	16526349	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1010323	16526349	64668861	1388	74046											
RAI1	10743	broad.mit.edu	37	chr17	17701059	17701059	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccttctcacccttcgtGcgggtggagaagcgagacgc	6	7	13	15	5	1	2	1	0	1	2	3	4	1	2	3	2	2	0	3	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:17701059G>A	uc002grm.2	+	3	5266	c.4797G>A	c.(4795-4797)GTG>GTA	p.V1599V	RAI1_uc002grn.1_Silent_p.V1599V	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1599						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CACCCTTCGTGCGGGTGGAGA	0.562													90	130					0	0	0.01441	0	0		A	17701059	A	A	17701059	2	1	134	1	0	0	0	0	0	0	0	1	13032	1306	46	2		2	RAI1	17	17701059	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1174710	17701059	63494151	1389	74047											
MYO15A	51168	broad.mit.edu	37	chr17	18053803	18053803	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggaggccagcccggtggaGgcagcagtagtggtactgaa	9	5	19	8	1	0	1	0	1	0	0	0	3	0	3	2	7	3	4	2	7	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:18053803G>T	uc010vxh.1	+	35	7611	c.7273G>T	c.(7273-7275)GGC>TGC	p.G2425C		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	2425	Tail.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GCCCGGTGGAGGCAGCAGTAG	0.622													29	70					4.3949e-29	5.156e-29	0.004289	1	0		T	18053803	T	T	18053803	3	4	134	1	0	0	0	0	1	0	0	0	10081	1000	35	5	7407	5	MYO15A	17	18053803	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	352744	18053803	63141407	1390	74048											
CCDC144B	284047	broad.mit.edu	37	chr17	18511227	18511227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacctgtggctgcttattttCgcatcctttaagtctttctt	5	19	6	11	1	2	0	0	0	2	0	4	0	3	0	2	1	1	3	2	1	2	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:18511227C>T	uc002gub.1	-	4	806	c.721G>A	c.(721-723)GAA>AAA	p.E241K	CCDC144B_uc002gua.3_RNA|CCDC144B_uc010vyc.1_RNA|CCDC144B_uc002guc.1_Missense_Mutation_p.E240K	NM_182568	NP_872374			coiled-coil domain containing 144B											ovary(1)|skin(1)	2						TGCTTATTTTCGCATCCTTTA	0.348													5	36					0	0	0.001855	0	0		T	18511227	T	T	18511227	3	4	134	1	0	0	0	0	1	0	0	0	2781	893	31	1	1483	1	CCDC144B	17	18511227	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	457424	18511227	62683983	1391	74049											
FBXW10	10517	broad.mit.edu	37	chr17	18653098	18653098	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	taggctgttttctggaaaagGagacataaccaagccagggt	13	9	12	7	0	1	1	0	0	1	1	1	3	1	2	2	4	2	2	2	4	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:18653098G>C	uc002guk.2	+	3	966	c.734G>C	c.(733-735)GGA>GCA	p.G245A	FBXW10_uc002guj.2_Missense_Mutation_p.G245A|FBXW10_uc002gul.2_Missense_Mutation_p.G245A|FBXW10_uc010cqh.1_Missense_Mutation_p.G245A	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	245										ovary(1)	1						TCTGGAAAAGGAGACATAACC	0.468													5	187					0	0	0.000602	0	0		C	18653098	C	C	18653098	3	2	134	1	0	0	0	0	1	0	0	0	5777	1174	41	5	744	5	FBXW10	17	18653098	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	141871	18653098	62542112	1392	74050											
CCDC144NL	339184	broad.mit.edu	37	chr17	20799228	20799228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgggtagtccaagtaccActggtcctcctggctcccaa	7	8	9	17	1	0	0	0	0	0	0	4	0	4	0	7	3	1	3	7	3	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:20799228A>G	uc002gyf.2	-	1	226	c.106T>C	c.(106-108)TGG>CGG	p.W36R	uc002gyg.1_Intron|uc002gyh.1_Intron	NM_001004306	NP_001004306	Q6NUI1	C144L_HUMAN	coiled-coil domain containing 144 family,	36											0						TCCAAGTACCACTGGTCCTCC	0.647													4	100					0	0	0.009096	0	0		G	20799228	G	G	20799228	3	3	134	1	0	0	0	0	1	0	0	0	2782	159	6	3	575	3	CCDC144NL	17	20799228	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	2146130	20799228	60395982	1393	74051											
KSR1	8844	broad.mit.edu	37	chr17	25935009	25935009	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctctggacatcaacaagacGaggcaaatcgctcaggagat	14	7	10	10	2	3	2	2	0	1	2	5	5	3	3	0	3	1	2	0	3	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:25935009G>A	uc010crg.2	+	16	2164	c.1719G>A	c.(1717-1719)ACG>ACA	p.T573T	KSR1_uc002gzm.2_Silent_p.T352T|KSR1_uc002gzn.2_5'Flank	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	708	Protein kinase.				Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		TCAACAAGACGAGGCAAATCG	0.612													8	11					0	0	0.006214	0	0		A	25935009	A	A	25935009	2	1	134	1	0	0	0	0	0	0	0	1	8597	1045	37	1		1	KSR1	17	25935009	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5135781	25935009	55260201	1394	74052											
KIAA0100	9703	broad.mit.edu	37	chr17	26961642	26961642	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagctcttgaacctgttctAccacatgctcaggaccatgg	10	10	8	13	0	3	1	1	1	2	0	3	2	3	2	3	2	4	3	3	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:26961642A>G	uc002hbu.2	-	16	3062	c.2963T>C	c.(2962-2964)GTA>GCA	p.V988A		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	988						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					AACCTGTTCTACCACATGCTC	0.537													8	215					0	0	0.004482	0	0		G	26961642	G	G	26961642	3	3	134	1	0	0	0	0	1	0	0	0	8170	391	14	3	3840	3	KIAA0100	17	26961642	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1026633	26961642	54233568	1395	74053											
TLCD1	116238	broad.mit.edu	37	chr17	27051645	27051645	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgtccagcatgagcaggatAcccagcaggaaggtgcccag	12	4	13	12	1	0	1	0	1	0	0	1	3	1	3	3	3	5	3	3	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:27051645A>G	uc002hco.2	-	4	742	c.627T>C	c.(625-627)GGT>GGC	p.G209G	TLCD1_uc010waw.1_Silent_p.G162G	NM_138463	NP_612472	Q96CP7	TLCD1_HUMAN	TLC domain containing 1 isoform 1	209	TLC.|Helical; (Potential).					integral to membrane					0	Lung NSC(42;0.00431)					TGAGCAGGATACCCAGCAGGA	0.537													4	153					0	0	0.000602	0	0		G	27051645	G	G	27051645	2	3	134	1	0	0	0	0	0	0	0	1	15962	378	14	3		3	TLCD1	17	27051645	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	90003	27051645	54143565	1396	74054											
SEZ6	124925	broad.mit.edu	37	chr17	27296914	27296914	+	Frame_Shift_Del	DEL	C	-	-																															gccaggggcagtgggtcaggCccccccaggccttccacagt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:27296914delC	uc002hdp.2	-	4	1109	c.915delG	c.(913-915)GGGfs	p.G305fs	SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Frame_Shift_Del_p.G305fs|SEZ6_uc002hdq.1_Frame_Shift_Del_p.G180fs|SEZ6_uc010crz.1_Frame_Shift_Del_p.G305fs	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	305	Extracellular (Potential).					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			GTGGGTCAGGCCCCCCCAGGC	0.612													19	35	---	---	---	---						.	-	27296914	-	-	27296914	7	5	134	1	0	1	0	1	0	0	0	0	14167	726	26	0	2138	0	SEZ6	17	27296914	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	245269	27296914	53898296	1397	74055											
SSH2	85464	broad.mit.edu	37	chr17	28030050	28030050	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggtagaaaaagggcagcAcctttgacagttagaaagct	14	8	12	7	1	0	3	0	1	0	2	0	3	0	3	1	2	2	5	1	2	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:28030050A>G	uc002heo.1	-	3	138	c.138T>C	c.(136-138)GGT>GGC	p.G46G	SSH2_uc010wbh.1_Silent_p.G73G|SSH2_uc002hep.1_Silent_p.G46G|SSH2_uc002heq.2_Silent_p.G53G|SSH2_uc002her.2_Silent_p.G46G|SSH2_uc010csc.1_Silent_p.G46G	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	46					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						AAAGGGCAGCACCTTTGACAG	0.418													67	143					0	0	0.01441	0	0		G	28030050	G	G	28030050	2	3	134	1	0	0	0	0	0	0	0	1	15210	146	6	3		3	SSH2	17	28030050	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	733136	28030050	53165160	1398	74056											
ATAD5	79915	broad.mit.edu	37	chr17	29161389	29161389	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgttgacagcaacaaagActgtacgacacctttggaaa	15	8	8	10	1	0	2	0	1	0	1	0	4	0	3	2	1	3	3	2	1	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:29161389A>G	uc002hfs.1	+	2	636	c.290A>G	c.(289-291)GAC>GGC	p.D97G	ATAD5_uc002hft.1_5'UTR	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	97					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				AGCAACAAAGACTGTACGACA	0.328													8	223					0	0	0.00308	0	0		G	29161389	G	G	29161389	3	3	134	1	0	0	0	0	1	0	0	0	1077	275	10	3	296	3	ATAD5	17	29161389	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1131339	29161389	52033821	1399	74057											
PSMD11	5717	broad.mit.edu	37	chr17	30771615	30771615	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaccgggaggcctccatcgAcatcctccactccatcggta	8	7	9	17	4	0	0	0	0	0	0	6	3	4	1	6	3	0	1	6	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:30771615A>T	uc010cta.1	+	1	114	c.74A>T	c.(73-75)GAC>GTC	p.D25V	PSMD11_uc010wbz.1_Missense_Mutation_p.D25V|PSMD11_uc002hhm.2_Missense_Mutation_p.D25V	NM_002815	NP_002806	O00231	PSD11_HUMAN	proteasome 26S non-ATPase subunit 11	25					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding			ovary(1)	1		Breast(31;0.159)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.109)			GCCTCCATCGACATCCTCCAC	0.383													14	18					0	0	0.004007	0	0		T	30771615	T	T	30771615	3	4	134	1	0	0	0	0	1	0	0	0	12716	275	10	5	76	5	PSMD11	17	30771615	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1610226	30771615	50423595	1400	74058											
TMEM132E	124842	broad.mit.edu	37	chr17	32953298	32953298	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtcgccaacagctctctgCagcgctccgagcccttcgtg	5	8	11	17	5	1	0	0	0	1	0	5	1	2	0	3	1	5	3	3	1	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:32953298C>T	uc002hif.2	+	2	548	c.220C>T	c.(220-222)CAG>TAG	p.Q74*		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	74	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		CAGCTCTCTGCAGCGCTCCGA	0.701													10	11					0	0	0.006214	0	0		T	32953298	T	T	32953298	4	4	134	1	0	0	0	0	0	1	0	0	16073	711	25	2	226	2	TMEM132E	17	32953298	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2181683	32953298	48241912	1401	74059											
LIG3	3980	broad.mit.edu	37	chr17	33319045	33319045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgaagatgaactcaggtgCaaaacatgtgtaagtagcag	15	9	11	6	0	2	3	1	2	1	1	2	3	2	3	0	1	4	4	0	1	6	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:33319045C>T	uc002hik.1	+	7	1385	c.1277C>T	c.(1276-1278)GCA>GTA	p.A426V	LIG3_uc002hij.2_Missense_Mutation_p.A426V|LIG3_uc010cth.1_Missense_Mutation_p.A435V	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	426					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	AACTCAGGTGCAAAACATGTG	0.388								Other_BER_factors					42	70					0	0	0.007835	0	0		T	33319045	T	T	33319045	3	4	134	1	0	0	0	0	1	0	0	0	8798	710	25	2	1299	2	LIG3	17	33319045	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	365747	33319045	47876165	1402	74060											
FNDC8	54752	broad.mit.edu	37	chr17	33454302	33454302	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaagtcccagatggccacaAggggcctgctggaccttgac	9	6	13	13	1	0	2	0	1	0	1	1	4	1	3	4	4	1	1	4	4	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:33454302A>G	uc002hix.2	+	2	533	c.451A>G	c.(451-453)AGG>GGG	p.R151G		NM_017559	NP_060029	Q8TC99	FNDC8_HUMAN	fibronectin type III domain containing 8	151										ovary(2)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.022)		GATGGCCACAAGGGGCCTGCT	0.577													11	305					0	0	0.001855	0	0		G	33454302	G	G	33454302	3	3	134	1	0	0	0	0	1	0	0	0	5988	63	3	3	457	3	FNDC8	17	33454302	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	135257	33454302	47740908	1403	74061											
SLFN11	91607	broad.mit.edu	37	chr17	33679860	33679860	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacttgcatttctttttgtaAgtacttggctattggatctg	7	20	8	6	0	2	0	0	0	2	0	2	1	2	1	0	2	3	4	0	2	4	10			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:33679860A>G	uc010ctp.2	-	7	2663	c.2221T>C	c.(2221-2223)TTA>CTA	p.L741L	SLFN11_uc010ctq.2_Silent_p.L741L|SLFN11_uc002hjh.3_Silent_p.L741L|SLFN11_uc002hjg.3_Silent_p.L741L|SLFN11_uc010ctr.2_Silent_p.L741L	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	741						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TCTTTTTGTAAGTACTTGGCT	0.463													4	281					0	0	0.009096	0	0		G	33679860	G	G	33679860	2	3	134	1	0	0	0	0	0	0	0	1	14758	69	3	3		3	SLFN11	17	33679860	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	225558	33679860	47515350	1404	74062											
GGNBP2	79893	broad.mit.edu	37	chr17	34941792	34941792	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcactgaagatggtaatacTtgtgtagaagtaattgttac	14	13	10	4	0	0	3	0	1	0	2	0	3	0	3	0	1	3	5	0	1	7	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:34941792T>C	uc002hnb.2	+	10	1527	c.1278T>C	c.(1276-1278)ACT>ACC	p.T426T	GGNBP2_uc002hna.2_Silent_p.T426T|GGNBP2_uc002hnc.1_Silent_p.T255T	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	426					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		ATGGTAATACTTGTGTAGAAG	0.373													81	118					0	0	0.01441	0	0		C	34941792	C	C	34941792	2	2	134	1	0	0	0	0	0	0	0	1	6374	1596	56	3		3	GGNBP2	17	34941792	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1261932	34941792	46253418	1405	74063											
ACACA	31	broad.mit.edu	37	chr17	35518796	35518796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggctgatacatagatgcGtggaataccttctgccctag	9	12	11	9	1	1	2	0	1	1	1	1	3	1	3	2	2	4	2	2	2	5	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:35518796G>A	uc002hnm.2	-	42	5328	c.5137C>T	c.(5137-5139)CGC>TGC	p.R1713C	ACACA_uc002hnk.2_Missense_Mutation_p.R1635C|ACACA_uc002hnl.2_Missense_Mutation_p.R1655C|ACACA_uc002hnn.2_Missense_Mutation_p.R1713C|ACACA_uc002hno.2_Missense_Mutation_p.R1750C|ACACA_uc010cuy.2_Missense_Mutation_p.R358C|ACACA_uc010wdc.1_Translation_Start_Site	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1713	Carboxyltransferase.				acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	ACATAGATGCGTGGAATACCT	0.463													69	135					0	0	0.01441	0	0		A	35518796	A	A	35518796	3	1	134	1	0	0	0	0	1	0	0	0	106	1145	40	1	1963	1	ACACA	17	35518796	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	577004	35518796	45676414	1406	74064											
SRCIN1	80725	broad.mit.edu	37	chr17	36707452	36707452	+	Frame_Shift_Del	DEL	G	-	-																															ttctggccgtggggggccttGgggggcttgtgatctggagt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:36707452delG	uc002hqd.2	-	15	3126	c.2901delC	c.(2899-2901)CCCfs	p.P967fs	SRCIN1_uc002hqf.1_Frame_Shift_Del_p.P839fs|SRCIN1_uc002hqe.2_Frame_Shift_Del_p.P821fs	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	839	Pro-rich.				exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						GGGGGGCCTTGGGGGGCTTGT	0.672													27	29	---	---	---	---						.	-	36707452	-	-	36707452	7	5	134	1	0	1	0	1	0	0	0	0	15161	1335	47	0	670	0	SRCIN1	17	36707452	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	1188656	36707452	44487758	1407	74065											
CDK12	51755	broad.mit.edu	37	chr17	37627441	37627441	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagttacccagaagtgtaaaAttggaaaaatctgccccaga	17	8	8	8	0	1	2	0	0	1	2	1	3	1	3	3	1	2	2	3	1	7	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:37627441A>G	uc010cvv.2	+	2	1942	c.1356A>G	c.(1354-1356)AAA>AAG	p.K452K	CDK12_uc010wef.1_Silent_p.K451K|CDK12_uc002hrw.3_Silent_p.K452K	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	452					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						GAAGTGTAAAATTGGAAAAAT	0.383										TCGA Ovarian(9;0.13)			9	203					0	0	0.006214	0	0		G	37627441	G	G	37627441	2	3	134	1	0	0	0	0	0	0	0	1	3131	98	4	3		3	CDK12	17	37627441	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	919989	37627441	43567769	1408	74066											
CDK12	51755	broad.mit.edu	37	chr17	37667883	37667883	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catagatgtttggagctgtgGgtaaggttctgttaactttt	8	17	12	4	0	1	1	0	0	1	1	1	2	1	2	0	3	2	5	0	3	3	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:37667883G>T	uc010cvv.2	+	8	3354	c.2768G>T	c.(2767-2769)GGA>GTA	p.G923V	CDK12_uc010wef.1_Missense_Mutation_p.G922V|CDK12_uc002hrw.3_Missense_Mutation_p.G923V	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	923	Protein kinase.				mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						TGGAGCTGTGGGTAAGGTTCT	0.408										TCGA Ovarian(9;0.13)			21	55					9.93527e-08	1.09593e-07	0.013726	1	0		T	37667883	T	T	37667883	3	4	134	1	0	0	0	0	1	0	0	0	3131	1246	43	5	2798	5	CDK12	17	37667883	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	40442	37667883	43527327	1409	74067											
WIPF2	147179	broad.mit.edu	37	chr17	38421184	38421184	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtctctggctcctcctccTccgccttaccgccagcctcc	3	10	6	22	2	1	0	0	0	1	0	7	0	6	0	9	1	2	1	9	1	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:38421184T>G	uc002hug.1	+	5	996	c.756T>G	c.(754-756)CCT>CCG	p.P252P	WIPF2_uc002huh.1_Silent_p.P102P|WIPF2_uc010cww.1_Silent_p.P102P|WIPF2_uc002hui.1_Silent_p.P252P|WIPF2_uc010cwx.1_Intron|WIPF2_uc010cwy.1_Silent_p.P252P	NM_133264	NP_573571	Q8TF74	WIPF2_HUMAN	WIRE protein	252	Poly-Pro.					cytoplasm|cytoskeleton	actin binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						CTCCTCCTCCTCCGCCTTACC	0.592										HNSCC(43;0.11)			100	203					0	0	0.01441	0	0		G	38421184	G	G	38421184	2	3	134	1	0	0	0	0	0	0	0	1	17394	1538	54	5		5	WIPF2	17	38421184	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	753301	38421184	42774026	1410	74068											
SMARCE1	6605	broad.mit.edu	37	chr17	38788517	38788517	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgttgtgacaactgaccgaAcgtctggcaccacactctca	10	9	8	14	2	2	2	1	2	2	0	3	3	2	2	2	1	2	2	2	1	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:38788517A>T	uc002hux.2	-	8	768	c.644T>A	c.(643-645)GTT>GAT	p.V215D	SMARCE1_uc010wff.1_Missense_Mutation_p.V180D|SMARCE1_uc010wfg.1_Missense_Mutation_p.V145D|SMARCE1_uc002huy.2_Missense_Mutation_p.V180D|SMARCE1_uc010wfh.1_Missense_Mutation_p.V145D|SMARCE1_uc010wfi.1_Missense_Mutation_p.V197D	NM_003079	NP_003070	Q969G3	SMCE1_HUMAN	SWI/SNF-related matrix-associated	215					chromatin modification|negative regulation of transcription, DNA-dependent|nervous system development|nucleosome disassembly|regulation of transcription from RNA polymerase II promoter	nBAF complex|npBAF complex|nuclear chromosome|SWI/SNF complex|transcriptional repressor complex	chromatin binding|DNA binding|N-acetyltransferase activity|protein binding|protein N-terminus binding|transcription coactivator activity				0		Breast(137;0.000812)				AACTGACCGAACGTCTGGCAC	0.453													39	122					0	0	0.006999	0	0		T	38788517	T	T	38788517	3	4	134	1	0	0	0	0	1	0	0	0	14805	43	2	5	607	5	SMARCE1	17	38788517	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	367333	38788517	42406693	1411	74069											
KRT33A	3883	broad.mit.edu	37	chr17	39502761	39502761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcacactccagccgcgcccGcacgtccagcagcacctgat	8	5	8	20	4	1	1	1	1	0	0	3	1	3	1	5	0	3	3	5	0	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:39502761G>A	uc002hwk.1	-	6	1073	c.1036C>T	c.(1036-1038)CGG>TGG	p.R346W		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	346	Coil 2.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				AGCCGCGCCCGCACGTCCAGC	0.602													65	114					0	0	0.01441	0	0		A	39502761	A	A	39502761	3	1	134	1	0	0	0	0	1	0	0	0	8485	1086	38	1	186	1	KRT33A	17	39502761	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	714244	39502761	41692449	1412	74070											
STAT3	6774	broad.mit.edu	37	chr17	40467787	40467787	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggggaggtagcgcactcCgaggtcaactccatgtcaaa	11	7	13	10	2	2	0	2	0	0	0	4	2	4	1	2	4	2	2	2	4	3	1	rs147202525		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:40467787C>T	uc002hzl.1	-	24	2529	c.2289G>A	c.(2287-2289)TCG>TCA	p.S763S	STAT3_uc002hzk.1_3'UTR|STAT3_uc002hzm.1_Silent_p.S762S|STAT3_uc010wgh.1_Silent_p.S665S|STAT3_uc002hzn.1_Silent_p.S763S|STAT3_uc010cyf.1_3'UTR	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	763					cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		TAGCGCACTCCGAGGTCAACT	0.582									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				35	81					0	0	0.004289	0	0		T	40467787	T	T	40467787	2	4	134	1	0	0	0	0	0	0	0	1	15291	639	23	1		1	STAT3	17	40467787	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	965026	40467787	40727423	1413	74071											
PTRF	284119	broad.mit.edu	37	chr17	40575031	40575031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggctcctccgctgcctgagCcccagcggaggaaggctccg	5	5	14	17	4	0	1	0	1	0	0	3	3	3	3	6	4	3	3	6	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:40575031C>T	uc002hzo.2	-	1	244	c.85G>A	c.(85-87)GCT>ACT	p.A29T	PTRF_uc010wgi.1_Missense_Mutation_p.A29T	NM_012232	NP_036364	Q6NZI2	PTRF_HUMAN	polymerase I and transcript release factor	29					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription initiation from RNA polymerase I promoter	caveola|cytosol|endoplasmic reticulum|microsome|mitochondrion|nucleoplasm	protein binding|rRNA primary transcript binding			breast(1)	1		all_cancers(22;0.00146)|Breast(137;0.00116)|all_epithelial(22;0.0134)		BRCA - Breast invasive adenocarcinoma(366;0.193)		GCTGCCTGAGCCCCAGCGGAG	0.672													7	20					0	0	0.001984	0	0		T	40575031	T	T	40575031	3	4	134	1	0	0	0	0	1	0	0	0	12840	739	26	2	1095	2	PTRF	17	40575031	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	107244	40575031	40620179	1414	74072											
PLEKHH3	79990	broad.mit.edu	37	chr17	40822025	40822025	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcggccatggcctcagctcGgcccatgccccgtagccgct	4	6	13	18	4	1	0	1	0	0	0	2	0	1	0	6	4	3	3	6	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:40822025G>A	uc002iau.2	-	11	2391	c.1924C>T	c.(1924-1926)CGA>TGA	p.R642*	PLEKHH3_uc010cyl.1_RNA|PLEKHH3_uc002iat.1_RNA|PLEKHH3_uc002iav.2_RNA|PLEKHH3_uc010cym.1_Nonsense_Mutation_p.R3*|PLEKHH3_uc002iaw.2_Nonsense_Mutation_p.R639*	NM_024927	NP_079203	Q7Z736	PKHH3_HUMAN	pleckstrin homology domain containing, family H	642	FERM.				signal transduction	cytoskeleton				large_intestine(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.14)		GCCTCAGCTCGGCCCATGCCC	0.692													8	9					0	0	0.010729	0	0		A	40822025	A	A	40822025	4	1	134	1	0	0	0	0	0	1	0	0	12097	1124	39	1	469	1	PLEKHH3	17	40822025	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	246994	40822025	40373185	1415	74073											
WNK4	65266	broad.mit.edu	37	chr17	40940391	40940391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccccagggaggaatctccGgcgcagaccccgatcccggc	8	3	12	18	4	1	1	0	0	1	1	3	4	2	3	6	4	0	1	6	4	1	0	rs146190504		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:40940391G>A	uc002ibj.2	+	10	2027	c.2006G>A	c.(2005-2007)CGG>CAG	p.R669Q	WNK4_uc010wgx.1_Missense_Mutation_p.R333Q|WNK4_uc002ibk.1_Missense_Mutation_p.R441Q|WNK4_uc010wgy.1_Missense_Mutation_p.R13Q	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	669					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		AGGAATCTCCGGCGCAGACCC	0.572													6	68					0	0	0.00308	0	0		A	40940391	A	A	40940391	3	1	134	1	0	0	0	0	1	0	0	0	17406	1116	39	1	2044	1	WNK4	17	40940391	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	118366	40940391	40254819	1416	74074											
BRCA1	672	broad.mit.edu	37	chr17	41234588	41234588	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttatgttgcatggtatccCtctgcttcaaaaacgataaa	12	13	8	8	1	2	0	1	0	1	0	3	1	3	0	1	2	3	5	1	2	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:41234588C>A	uc002icq.2	-	12	4422	c.4190G>T	c.(4189-4191)AGG>ATG	p.R1397M	BRCA1_uc010whp.1_Missense_Mutation_p.R247M|BRCA1_uc010whl.1_Missense_Mutation_p.R294M|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.R1326M|BRCA1_uc002icu.2_Missense_Mutation_p.R294M|BRCA1_uc010cyx.2_Missense_Mutation_p.R1350M|BRCA1_uc002ict.2_Missense_Mutation_p.R1397M|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Missense_Mutation_p.R126M|BRCA1_uc002idc.1_Missense_Mutation_p.R293M|BRCA1_uc010whr.1_Missense_Mutation_p.R247M	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	1397	Interaction with PALB2.				androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		CATGGTATCCCTCTGCTTCAA	0.383			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			36	94					2.66277e-13	2.99636e-13	0.006999	1	0		A	41234588	A	A	41234588	3	1	134	1	0	0	0	0	1	0	0	0	1501	681	24	5	1519	5	BRCA1	17	41234588	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	294197	41234588	39960622	1417	74075											
BRCA1	672	broad.mit.edu	37	chr17	41244577	41244577	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttttcttacatttagtttTaacaaatgacttgatgggaa	13	18	6	4	0	1	2	0	2	1	0	1	3	1	3	0	1	2	1	0	1	5	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:41244577T>G	uc002icq.2	-	10	3203	c.2971A>C	c.(2971-2973)AAA>CAA	p.K991Q	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.K920Q|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.K944Q|BRCA1_uc002ict.2_Missense_Mutation_p.K991Q|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.K991Q|BRCA1_uc002ide.1_Missense_Mutation_p.K822Q|BRCA1_uc010cyy.1_Missense_Mutation_p.K991Q|BRCA1_uc010whs.1_Missense_Mutation_p.K991Q|BRCA1_uc010cyz.2_Missense_Mutation_p.K944Q|BRCA1_uc010cza.2_Missense_Mutation_p.K965Q|BRCA1_uc010wht.1_Missense_Mutation_p.K695Q	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	991					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		CATTTAGTTTTAACAAATGAC	0.363			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			102	169					0	0	0.01441	0	0		G	41244577	G	G	41244577	3	3	134	1	0	0	0	0	1	0	0	0	1501	1763	61	5	2746	5	BRCA1	17	41244577	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	9989	41244577	39950633	1418	74076											
C17orf46	124783	broad.mit.edu	37	chr17	43334552	43334552	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctccactgaccctttgccGcagcatggaaatccatgggc	9	8	9	15	1	0	1	0	1	0	0	2	2	2	2	5	2	2	2	5	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:43334552G>A	uc002iis.1	-	2	132	c.36C>T	c.(34-36)TGC>TGT	p.C12C	LOC100133991_uc010dah.2_Intron|C17orf46_uc010wjk.1_5'UTR	NM_152343	NP_689556	Q96LK8	CQ046_HUMAN	hypothetical protein LOC124783	12										large_intestine(1)|ovary(1)	2						ACCCTTTGCCGCAGCATGGAA	0.632													8	19					0	0	0.006214	0	0		A	43334552	A	A	43334552	2	1	134	1	0	0	0	0	0	0	0	1	1860	1079	38	1		1	C17orf46	17	43334552	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2089975	43334552	37860658	1419	74077											
PLEKHM1	9842	broad.mit.edu	37	chr17	43545824	43545824	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggggctctgcaggtgcCtcacagtgcaggtatgtgct	7	9	16	9	0	2	0	1	0	1	0	2	1	2	1	1	5	4	5	1	5	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:43545824C>A	uc002ija.2	-	5	1229	c.1059G>T	c.(1057-1059)GAG>GAT	p.E353D	PLEKHM1_uc010wjm.1_Missense_Mutation_p.E325D|PLEKHM1_uc002ijb.2_Intron|PLEKHM1_uc010wjn.1_Missense_Mutation_p.E302D	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	353					intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					CTGCAGGTGCCTCACAGTGCA	0.632													32	47					4.3181e-19	4.93637e-19	0.013726	1	0		A	43545824	A	A	43545824	3	1	134	1	0	0	0	0	1	0	0	0	12099	680	24	5	2143	5	PLEKHM1	17	43545824	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	211272	43545824	37649386	1420	74078											
WNT9B	7484	broad.mit.edu	37	chr17	44952494	44952494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagacagctttcctgtacgCggtgtcctctgccgccctca	6	10	10	15	3	2	1	1	0	1	1	4	2	4	1	4	1	3	2	4	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:44952494C>T	uc002ikw.1	+	3	399	c.362C>T	c.(361-363)GCG>GTG	p.A121V	WNT9B_uc002ikx.1_Missense_Mutation_p.A121V	NM_003396	NP_003387	O14905	WNT9B_HUMAN	wingless-type MMTV integration site family,	121					anterior/posterior pattern formation|axis specification|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|collecting duct development|cornea development in camera-type eye|endoderm development|establishment of planar polarity involved in nephron morphogenesis|kidney rudiment formation|male genitalia development|mesonephric duct formation|metanephric tubule development|neuron differentiation|palate development|regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|uterus morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway|Wnt receptor signaling pathway, planar cell polarity pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			TTCCTGTACGCGGTGTCCTCT	0.542													153	261					0	0	0.01441	0	0		T	44952494	T	T	44952494	3	4	134	1	0	0	0	0	1	0	0	0	17425	768	27	1	372	1	WNT9B	17	44952494	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1406670	44952494	36242716	1421	74079											
WNT9B	7484	broad.mit.edu	37	chr17	44952641	44952641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgacaacctcaagtacagcaCcaagtttctgagcaacttcc	13	9	6	13	0	2	2	1	2	1	0	3	2	3	2	3	0	5	4	3	0	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:44952641C>T	uc002ikw.1	+	3	546	c.509C>T	c.(508-510)ACC>ATC	p.T170I	WNT9B_uc002ikx.1_Missense_Mutation_p.T170I	NM_003396	NP_003387	O14905	WNT9B_HUMAN	wingless-type MMTV integration site family,	170					anterior/posterior pattern formation|axis specification|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|collecting duct development|cornea development in camera-type eye|endoderm development|establishment of planar polarity involved in nephron morphogenesis|kidney rudiment formation|male genitalia development|mesonephric duct formation|metanephric tubule development|neuron differentiation|palate development|regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|uterus morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway|Wnt receptor signaling pathway, planar cell polarity pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			AAGTACAGCACCAAGTTTCTG	0.627													5	96					0	0	0.000602	0	0		T	44952641	T	T	44952641	3	4	134	1	0	0	0	0	1	0	0	0	17425	507	18	4	519	4	WNT9B	17	44952641	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	147	44952641	36242569	1422	74080											
SP6	80320	broad.mit.edu	37	chr17	45924731	45924731	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccggggggctccactgcGccgccggccttgccctctcc	1	6	12	22	4	1	0	0	0	1	0	3	0	2	0	8	4	2	1	8	4	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:45924731G>A	uc002img.1	-	2	1397	c.1065C>T	c.(1063-1065)GGC>GGT	p.G355G	SP6_uc002imh.1_Silent_p.G355G	NM_199262	NP_954871	Q3SY56	SP6_HUMAN	Sp6 transcription factor	355					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GCTCCACTGCGCCGCCGGCCT	0.711													7	15					0	0	0.001984	0	0		A	45924731	A	A	45924731	2	1	134	1	0	0	0	0	0	0	0	1	14993	1074	38	1		1	SP6	17	45924731	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	972090	45924731	35270479	1423	74081											
ITGA3	3675	broad.mit.edu	37	chr17	48148781	48148781	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgttcttgctgagccaGgaggcaggcggagacctgcg	6	7	18	10	3	1	2	0	1	1	1	1	4	1	3	2	5	3	3	2	5	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:48148781G>T	uc010dbl.2	+	6	1322	c.858G>T	c.(856-858)CAG>CAT	p.Q286H	ITGA3_uc010dbm.2_Missense_Mutation_p.Q286H	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	286	FG-GAP 4.|Extracellular (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						TGCTGAGCCAGGAGGCAGGCG	0.617													20	52					1.61788e-16	1.83184e-16	0.012213	1	0		T	48148781	T	T	48148781	3	4	134	1	0	0	0	0	1	0	0	0	7893	991	35	5	880	5	ITGA3	17	48148781	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2224050	48148781	33046429	1424	74082											
BZRAP1	9256	broad.mit.edu	37	chr17	56382987	56382987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agctttcaggtcagcagaggGgaccagcttaggggggcctg	8	7	17	9	0	2	1	2	0	0	1	2	2	2	2	2	6	3	3	2	6	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:56382987G>A	uc002ivx.3	-	28	6146	c.5275C>T	c.(5275-5277)CCC>TCC	p.P1759S	BZRAP1_uc002ivv.2_5'Flank|BZRAP1_uc002ivw.2_5'UTR|BZRAP1_uc010dcs.2_Missense_Mutation_p.P1699S|BZRAP1_uc010wnt.1_Missense_Mutation_p.P1750S	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	1759						mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TCAGCAGAGGGGACCAGCTTA	0.612													23	21					0	0	0.003954	0	0		A	56382987	A	A	56382987	3	1	134	1	0	0	0	0	1	0	0	0	1580	1232	43	4	314	4	BZRAP1	17	56382987	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	8234206	56382987	24812223	1425	74083											
CLTC	1213	broad.mit.edu	37	chr17	57752157	57752157	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgattcttgttgtaagaggTcaattctctactgatgagct	9	17	9	6	0	3	4	1	3	2	1	4	4	3	4	0	1	2	3	0	1	3	7	rs139004755		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:57752157T>C	uc002ixq.1	+	16	2957	c.2514T>C	c.(2512-2514)GGT>GGC	p.G838G	CLTC_uc002ixp.2_Silent_p.G838G|CLTC_uc002ixr.1_Silent_p.G842G	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	838	Heavy chain arm.|Proximal segment.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TTGTAAGAGGTCAATTCTCTA	0.368			T	ALK|TFE3	ALCL|renal 								58	118					0	0	0.01441	0	0		C	57752157	C	C	57752157	2	2	134	1	0	0	0	0	0	0	0	1	3569	1654	58	3		3	CLTC	17	57752157	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1369170	57752157	23443053	1426	74084											
CACNG5	27091	broad.mit.edu	37	chr17	64881122	64881122	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccggggtgatgtctgtgtAcctgtttatgaagcggtaca	7	13	14	7	2	1	2	0	2	1	0	1	2	1	2	2	3	4	3	2	3	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:64881122A>G	uc010wqi.1	+	6	830	c.593A>G	c.(592-594)TAC>TGC	p.Y198C	CACNG5_uc010wqj.1_Missense_Mutation_p.Y198C	NM_145811	NP_665810	Q9UF02	CCG5_HUMAN	voltage-dependent calcium channel gamma-5	198				SAGVMSVYLFMKRYTAEDMYRPHPGFYRPRLSNCSDYSGQF LHPDAWVRGRSPSDISSEASLQMNSNYPALLKCPDYDQMSS SPC -> VKPVTLSMDRLGLGTAPLSRGEWGWGRRDIPQPF WTPDHPLYFPSSSQNVSLSYLSGSPPARMSPGPCSCPHVHF PPHSSCVLCRPQPREMRQAPAASPSSAVFSL (in Ref. 1; AAF03089).	regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|postsynaptic density|postsynaptic membrane	voltage-gated calcium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(6;1.61e-08)			ATGTCTGTGTACCTGTTTATG	0.612													34	77					0	0	0.003755	0	0		G	64881122	G	G	64881122	3	3	134	1	0	0	0	0	1	0	0	0	2563	391	14	3	928	3	CACNG5	17	64881122	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	7128965	64881122	16314088	1427	74085											
HELZ	9931	broad.mit.edu	37	chr17	65103454	65103454	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacctggccccattaggtgaTtctgttgcaagttagcaaaa	12	11	9	9	0	1	1	0	1	1	0	1	1	1	1	3	2	3	4	3	2	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:65103454T>C	uc010wqk.1	-	31	5262	c.5075A>G	c.(5074-5076)AAT>AGT	p.N1692S	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.N1691S	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					CATTAGGTGATTCTGTTGCAA	0.483													63	156					0	0	0.01441	0	0		C	65103454	C	C	65103454	3	2	134	1	0	0	0	0	1	0	0	0	7065	1493	52	3	768	3	HELZ	17	65103454	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	222332	65103454	16091756	1428	74086											
BPTF	2186	broad.mit.edu	37	chr17	65905705	65905705	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggttctttttagccaaaaaTaatatggatgaaaatatgga	16	14	8	3	0	1	1	0	1	1	0	1	3	1	3	1	3	1	1	1	3	8	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:65905705T>C	uc002jgf.2	+	10	2881	c.2820T>C	c.(2818-2820)AAT>AAC	p.N940N	BPTF_uc002jge.2_Silent_p.N1066N	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1066					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TAGCCAAAAATAATATGGATG	0.279													10	22					0	0	0.008291	0	0		C	65905705	C	C	65905705	2	2	134	1	0	0	0	0	0	0	0	1	1498	1403	49	3		3	BPTF	17	65905705	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	802251	65905705	15289505	1429	74087											
ABCA8	10351	broad.mit.edu	37	chr17	66898920	66898920	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtccaggagcaaggaaatAcaaatgaggagaaagttccc	16	7	11	7	0	0	2	0	1	0	1	2	5	2	4	2	3	2	2	2	3	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:66898920A>G	uc002jhp.2	-	19	2757	c.2578T>C	c.(2578-2580)TAT>CAT	p.Y860H	ABCA8_uc002jhq.2_Missense_Mutation_p.Y900H|ABCA8_uc010wqq.1_Missense_Mutation_p.Y900H|ABCA8_uc010wqr.1_Missense_Mutation_p.Y839H|ABCA8_uc002jhr.2_Missense_Mutation_p.Y900H	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	860						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					GCAAGGAAATACAAATGAGGA	0.378													4	178					0	0	0.009096	0	0		G	66898920	G	G	66898920	3	3	134	1	0	0	0	0	1	0	0	0	38	391	14	3	2247	3	ABCA8	17	66898920	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	993215	66898920	14296290	1430	74088											
ABCA10	10349	broad.mit.edu	37	chr17	67186554	67186554	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatacttcattcagagaTgtcactgaaacagcataatt	17	11	6	7	0	3	3	3	1	0	2	3	4	3	3	0	0	3	1	0	0	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:67186554T>C	uc010dfa.1	-	19	2955	c.2076A>G	c.(2074-2076)ACA>ACG	p.T692T	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_Silent_p.T293T	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	692					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					CATTCAGAGATGTCACTGAAA	0.333													39	70					0	0	0.006999	0	0		C	67186554	C	C	67186554	2	2	134	1	0	0	0	0	0	0	0	1	29	1451	51	3		3	ABCA10	17	67186554	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	287634	67186554	14008656	1431	74089											
ABCA10	10349	broad.mit.edu	37	chr17	67189694	67189694	+	Frame_Shift_Del	DEL	T	-	-																															ctcttctgcccaccacttaaTtttttagcaataatgtcttg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:67189694delT	uc010dfa.1	-	15	2460	c.1581delA	c.(1579-1581)AAAfs	p.K527fs	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_Frame_Shift_Del_p.K128fs	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	527	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					CACCACTTAATTTTTTAGCAA	0.289													33	48	---	---	---	---						.	-	67189694	-	-	67189694	7	5	134	1	0	1	0	1	0	0	0	0	29	1490	52	0	3154	0	ABCA10	17	67189694	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	3140	67189694	14005516	1432	74090											
COG1	9382	broad.mit.edu	37	chr17	71197647	71197647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctgcctttgacagatacGcagatgcggggaccgtgcag	8	9	14	10	3	1	3	0	1	1	2	1	4	1	4	2	2	4	3	2	2	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:71197647G>A	uc002jjg.2	+	7	1717	c.1681G>A	c.(1681-1683)GCA>ACA	p.A561T	COG1_uc002jjh.2_Missense_Mutation_p.A561T|COG1_uc002jjf.1_Missense_Mutation_p.A561T	NM_018714	NP_061184	Q8WTW3	COG1_HUMAN	component of oligomeric golgi complex 1	561					Golgi organization|intra-Golgi vesicle-mediated transport|protein transport	Golgi membrane|Golgi transport complex	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			TGACAGATACGCAGATGCGGG	0.552													65	117					0	0	0.01441	0	0		A	71197647	A	A	71197647	3	1	134	1	0	0	0	0	1	0	0	0	3660	1087	38	1	1707	1	COG1	17	71197647	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4007953	71197647	9997563	1433	74091											
SDK2	54549	broad.mit.edu	37	chr17	71389790	71389790	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctggacttcatagagcacGtatttgcccaagccggtgag	10	9	11	11	2	1	2	1	1	0	1	1	3	1	3	3	2	3	2	3	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:71389790G>A	uc010dfm.2	-	27	3807	c.3807C>T	c.(3805-3807)TAC>TAT	p.Y1269Y	SDK2_uc002jjt.3_Silent_p.Y428Y|SDK2_uc010dfn.2_Silent_p.Y948Y	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1269	Fibronectin type-III 7.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						CATAGAGCACGTATTTGCCCA	0.617													21	48					0	0	0.014323	0	0		A	71389790	A	A	71389790	2	1	134	1	0	0	0	0	0	0	0	1	13994	1140	40	1		1	SDK2	17	71389790	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	192143	71389790	9805420	1434	74092											
TMEM104	54868	broad.mit.edu	37	chr17	72832458	72832458	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttccccatcattgccgtgAccctgcgcaacaactggaag	10	8	8	15	2	1	1	1	1	0	0	2	2	2	2	4	1	4	1	4	1	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:72832458A>G	uc002jls.3	+	10	1285	c.1123A>G	c.(1123-1125)ACC>GCC	p.T375A	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Missense_Mutation_p.T375A	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	375	Helical; (Potential).					integral to membrane					0	all_lung(278;0.23)					CATTGCCGTGACCCTGCGCAA	0.647													15	299					0	0	0.00499	0	0		G	72832458	G	G	72832458	3	3	134	1	0	0	0	0	1	0	0	0	16043	275	10	3	1157	3	TMEM104	17	72832458	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1442668	72832458	8362752	1435	74093											
RECQL5	9400	broad.mit.edu	37	chr17	73625328	73625328	+	Frame_Shift_Del	DEL	C	-	-																															gccttcttctcaggggagggCcccccatagtgagcgctgcc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:73625328delC	uc010dgl.2	-	16	2331	c.2175delG	c.(2173-2175)GGGfs	p.G725fs	RECQL5_uc010dgk.2_Frame_Shift_Del_p.G698fs|RECQL5_uc002jot.3_5'Flank	NM_004259	NP_004250	O94762	RECQ5_HUMAN	RecQ protein-like 5 isoform 1	725					DNA recombination|DNA repair	cytoplasm|nuclear membrane|nucleolus|nucleoplasm	ATP binding|ATP-dependent helicase activity|DNA helicase activity|nucleic acid binding			kidney(3)	3	all_cancers(13;2.73e-08)|Breast(9;6.04e-09)|all_epithelial(9;6.79e-09)		all cancers(21;1.15e-06)|Epithelial(20;2.19e-06)|Lung(188;0.101)|LUSC - Lung squamous cell carcinoma(166;0.112)			CAGGGGAGGGCCCCCCATAGT	0.672								Other_identified_genes_with_known_or_suspected_DNA_repair_function					33	45	---	---	---	---						.	-	73625328	-	-	73625328	7	5	134	1	0	1	0	1	0	0	0	0	13228	726	26	0	820	0	RECQL5	17	73625328	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	792870	73625328	7569882	1436	74094											
TRIM47	91107	broad.mit.edu	37	chr17	73870851	73870851	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccccaaccgtgggcgagaAggggtggggcaggggagcct	8	3	20	10	2	0	1	0	0	0	1	0	4	0	2	4	7	2	1	4	7	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:73870851A>G	uc002jpw.2	-	6	1657	c.1630T>C	c.(1630-1632)TTC>CTC	p.F544L	TRIM47_uc002jpv.2_Missense_Mutation_p.F306L	NM_033452	NP_258411	Q96LD4	TRI47_HUMAN	tripartite motif-containing 47	544	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|prostate(1)|lung(1)|breast(1)	5			Epithelial(20;4.23e-06)|all cancers(21;5.24e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			GTGGGCGAGAAGGGGTGGGGC	0.662													3	120					0	0	0.000602	0	0		G	73870851	G	G	73870851	3	3	134	1	0	0	0	0	1	0	0	0	16548	72	3	3	290	3	TRIM47	17	73870851	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	245523	73870851	7324359	1437	74095											
GALR2	8811	broad.mit.edu	37	chr17	74072970	74072970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttctcggcctgacctacGcgcgcaccttgcgctacctc	4	10	10	17	5	1	1	0	1	1	0	3	1	1	1	4	2	3	3	4	2	2	4	rs142971884		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:74072970G>A	uc002jqm.1	+	2	703	c.622G>A	c.(622-624)GCG>ACG	p.A208T	ZACN_uc002jqn.2_5'Flank|ZACN_uc002jqo.2_5'Flank|ZACN_uc010dgu.2_5'Flank	NM_003857	NP_003848	O43603	GALR2_HUMAN	galanin receptor 2	208	Helical; Name=5; (Potential).				digestion|elevation of cytosolic calcium ion concentration|feeding behavior|learning or memory|muscle contraction	integral to membrane|plasma membrane	galanin receptor activity				0						CCTGACCTACGCGCGCACCTT	0.697													21	31					0	0	0.014323	0	0		A	74072970	A	A	74072970	3	1	134	1	0	0	0	0	1	0	0	0	6243	1087	38	1	628	1	GALR2	17	74072970	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	202119	74072970	7122240	1438	74096											
SEC14L1	6397	broad.mit.edu	37	chr17	75196727	75196727	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtccttcaggattactaCgcgggaggctggcatcatca	9	9	12	11	2	3	0	3	0	0	0	4	2	4	2	1	5	2	2	1	5	2	3	rs143920033		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:75196727C>T	uc002jto.2	+	9	1248	c.981C>T	c.(979-981)TAC>TAT	p.Y327Y	SEC14L1_uc010dhc.2_Silent_p.Y327Y|SEC14L1_uc010wth.1_Silent_p.Y327Y|SEC14L1_uc002jtm.2_Silent_p.Y327Y|SEC14L1_uc010wti.1_Silent_p.Y293Y	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	327	CRAL-TRIO.				transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						AGGATTACTACGCGGGAGGCT	0.493													66	143					0	0	0.01441	0	0		T	75196727	T	T	75196727	2	4	134	1	0	0	0	0	0	0	0	1	14006	547	19	1		1	SEC14L1	17	75196727	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1123757	75196727	5998483	1439	74097											
TNRC6C	57690	broad.mit.edu	37	chr17	76073380	76073380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgggtgggattgcctccGggctgggcatgcaaaacttg	6	9	15	11	1	0	0	0	0	0	0	1	1	1	1	3	4	3	3	3	4	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:76073380G>A	uc002jud.2	+	10	3775	c.3175G>A	c.(3175-3177)GGG>AGG	p.G1059R	TNRC6C_uc002juf.2_Missense_Mutation_p.G1056R|TNRC6C_uc002jue.2_Missense_Mutation_p.G1056R	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	1059					gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			GATTGCCTCCGGGCTGGGCAT	0.527													5	8					0	0	0.001168	0	0		A	76073380	A	A	76073380	3	1	134	1	0	0	0	0	1	0	0	0	16367	1116	39	1	3201	1	TNRC6C	17	76073380	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	876653	76073380	5121830	1440	74098											
RNF213	57674	broad.mit.edu	37	chr17	78341838	78341838	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgcgaccacgtgcactGcctgcgctgcctcagggcct	4	7	12	18	3	1	0	1	0	0	0	1	1	1	0	5	1	5	2	5	1	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:78341838G>A	uc002jyh.1	+	19	6492	c.6269G>A	c.(6268-6270)TGC>TAC	p.C2090Y	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.C472Y	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			CACGTGCACTGCCTGCGCTGC	0.567													90	215					0	0	0.01441	0	0		A	78341838	A	A	78341838	3	1	134	1	0	0	0	0	1	0	0	0	13502	1319	46	2	12539	2	RNF213	17	78341838	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2268458	78341838	2853372	1441	74099											
AZI1	22994	broad.mit.edu	37	chr17	79171622	79171622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtcccatcctcaggaggttCggggaacgcactgagttttc	7	10	12	12	3	1	1	1	1	0	0	5	3	3	3	2	4	1	3	2	4	1	3	rs144147050		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:79171622C>T	uc002jzp.1	-	13	1746	c.1546G>A	c.(1546-1548)GAA>AAA	p.E516K	AZI1_uc002jzm.1_5'Flank|AZI1_uc002jzn.1_Missense_Mutation_p.E513K|AZI1_uc002jzo.1_Missense_Mutation_p.E513K|AZI1_uc010wum.1_Missense_Mutation_p.E516K	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	516					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			TCAGGAGGTTCGGGGAACGCA	0.567													32	47					0	0	0.012213	0	0		T	79171622	T	T	79171622	3	4	134	1	0	0	0	0	1	0	0	0	1241	893	31	1	1761	1	AZI1	17	79171622	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	829784	79171622	2023588	1442	74100											
RAB40B	10966	broad.mit.edu	37	chr17	80617530	80617530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtcatagaccaggatcaCaccctgggggagaggtcaca	13	6	12	10	0	3	2	3	0	0	2	3	4	3	3	2	4	0	0	2	4	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:80617530C>T	uc002kft.2	-	4	394	c.268G>A	c.(268-270)GTG>ATG	p.V90M	RAB40B_uc002kfs.2_RNA	NM_006822	NP_006813	Q12829	RB40B_HUMAN	RAB40B, member RAS oncogene family	90					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			central_nervous_system(1)	1	Breast(20;0.00132)|all_neural(118;0.0952)	all_cancers(8;0.072)|all_epithelial(8;0.139)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.061)			ACCAGGATCACACCCTGGGGG	0.502													16	59					0	0	0.006122	0	0		T	80617530	T	T	80617530	3	4	134	1	0	0	0	0	1	0	0	0	12966	478	17	4	580	4	RAB40B	17	80617530	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1445908	80617530	577680	1443	74101											
FN3KRP	79672	broad.mit.edu	37	chr17	80684826	80684826	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgatttttgacccagctTctttctacggccactcggaa	7	13	9	12	3	2	2	0	2	2	0	3	3	2	3	2	3	2	1	2	3	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:80684826T>C	uc002kfu.2	+	6	759	c.709T>C	c.(709-711)TCT>CCT	p.S237P	FN3KRP_uc010wvr.1_Missense_Mutation_p.S187P	NM_024619	NP_078895	Q9HA64	KT3K_HUMAN	fructosamine 3 kinase related protein	237							kinase activity				0	Breast(20;0.000523)|all_neural(118;0.0952)		BRCA - Breast invasive adenocarcinoma(99;0.0344)|OV - Ovarian serous cystadenocarcinoma(97;0.061)			TGACCCAGCTTCTTTCTACGG	0.557													4	155					0	0	0.009096	0	0		C	80684826	C	C	80684826	3	2	134	1	0	0	0	0	1	0	0	0	5978	1783	62	3	731	3	FN3KRP	17	80684826	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	67296	80684826	510384	1444	74102											
TBCD	6904	broad.mit.edu	37	chr17	80861316	80861316	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgcgagggcgctgcacaAcctggcccagcaggcacccg	7	3	15	16	3	0	0	0	0	0	0	0	1	0	0	3	4	4	5	3	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr17:80861316A>G	uc002kfz.2	+	19	1896	c.1766A>G	c.(1765-1767)AAC>AGC	p.N589S	TBCD_uc002kfx.1_Missense_Mutation_p.N572S|TBCD_uc002kfy.1_Missense_Mutation_p.N589S|TBCD_uc002kgb.1_5'UTR	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	589	HEAT 2.				'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			GCGCTGCACAACCTGGCCCAG	0.572													6	12					0	0	0.001984	0	0		G	80861316	G	G	80861316	3	3	134	1	0	0	0	0	1	0	0	0	15658	43	2	3	1840	3	TBCD	17	80861316	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	176490	80861316	333894	1445	74103											
MYL12A	10627	broad.mit.edu	37	chr18	3255845	3255845	+	Frame_Shift_Del	DEL	A	-	-																															acagagaagcacctattgatAaaaaggggaatttcaattac																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:3255845delA	uc002klr.2	+	4	840	c.445delA	c.(445-447)AAAfs	p.K149fs	MYL12A_uc002kls.2_Frame_Shift_Del_p.K155fs	NM_006471	NP_006462	P19105	ML12A_HUMAN	myosin, light chain 12A, regulatory,	149	EF-hand 3.					myosin complex	calcium ion binding|protein binding				0						ACCTATTGATAAAAAGGGGAA	0.433													26	41	---	---	---	---						.	-	3255845	-	-	3255845	7	5	134	1	0	1	0	1	0	0	0	0	10063	363	13	0	455	0	MYL12A	18	3255845	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08		3255845	74821403	1446	74104											
KIAA0802	23255	broad.mit.edu	37	chr18	8824732	8824732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatgtctgagttccagcGtctaatggacatctccccct	7	12	7	15	1	3	1	0	1	3	0	6	2	5	2	4	1	1	1	4	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:8824732G>A	uc002knr.2	+	15	3366	c.3224G>A	c.(3223-3225)CGT>CAT	p.R1075H	KIAA0802_uc002knq.2_Missense_Mutation_p.R1034H|KIAA0802_uc002kns.2_Missense_Mutation_p.R415H	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1385											0						GAGTTCCAGCGTCTAATGGAC	0.592													30	39					0	0	0.009535	0	0		A	8824732	A	A	8824732	3	1	134	1	0	0	0	0	1	0	0	0	8210	1145	40	1	3274	1	KIAA0802	18	8824732	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5568887	8824732	69252516	1447	74105											
PPP4R1	9989	broad.mit.edu	37	chr18	9559564	9559564	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacgagaagggtcagtcatAgataaatactgatctaacaa	17	8	9	7	1	3	3	2	1	1	2	3	4	3	3	0	1	2	1	0	1	7	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:9559564A>G	uc002koe.1	-	14	1999	c.1881T>C	c.(1879-1881)TCT>TCC	p.S627S	PPP4R1_uc002kof.2_Silent_p.S44S|PPP4R1_uc010wzo.1_Silent_p.S473S|PPP4R1_uc002kod.1_Silent_p.S610S|PPP4R1_uc010wzp.1_RNA	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	627					protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						GGTCAGTCATAGATAAATACT	0.458													5	160					0	0	0.001168	0	0		G	9559564	G	G	9559564	2	3	134	1	0	0	0	0	0	0	0	1	12425	407	15	3		3	PPP4R1	18	9559564	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	734832	9559564	68517684	1448	74106											
POTEC	388468	broad.mit.edu	37	chr18	14543032	14543032	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcccatgttgctcttgccGctccccttgcagcaggggaa	5	10	12	14	1	1	0	0	0	1	0	2	1	2	1	4	2	5	5	4	2	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:14543032G>A	uc010dln.2	-	1	568	c.114C>T	c.(112-114)AGC>AGT	p.S38S	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	38										skin(3)	3						TGCTCTTGCCGCTCCCCTTGC	0.557													9	318					0	0	0.006122	0	0		A	14543032	A	A	14543032	2	1	134	1	0	0	0	0	0	0	0	1	12281	1078	38	1		1	POTEC	18	14543032	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4983468	14543032	63534216	1449	74107											
ROCK1	6093	broad.mit.edu	37	chr18	18624112	18624112	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctaacttcaaatgtccaGatttatccagcagcatgtta	12	13	6	10	0	1	1	1	0	0	1	3	1	3	1	2	0	4	4	2	0	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:18624112G>T	uc002kte.2	-	6	1567	c.626C>A	c.(625-627)TCT>TAT	p.S209Y		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	209	Protein kinase.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					CAAATGTCCAGATTTATCCAG	0.313													5	141					5.9392e-07	6.52631e-07	0.001168	1	0		T	18624112	T	T	18624112	3	4	134	1	0	0	0	0	1	0	0	0	13542	942	33	5	3550	5	ROCK1	18	18624112	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	4081080	18624112	59453136	1450	74108											
OSBPL1A	114876	broad.mit.edu	37	chr18	21912999	21912999	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgcacaatgcaagggtgTatttcctaactgatccgaac	12	10	9	10	1	0	1	0	1	0	0	2	2	2	1	2	1	5	4	2	1	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:21912999T>C	uc002kve.2	-	7	706	c.532A>G	c.(532-534)ACA>GCA	p.T178A		NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	178	ANK 3.				cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					TGCAAGGGTGTATTTCCTAAC	0.393													68	125					0	0	0.01441	0	0		C	21912999	C	C	21912999	3	2	134	1	0	0	0	0	1	0	0	0	11296	1638	57	3	2408	3	OSBPL1A	18	21912999	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3288887	21912999	56164249	1451	74109											
ZNF521	25925	broad.mit.edu	37	chr18	22806757	22806757	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgactctttgggattggCggggcagcttccaccatggt	5	11	13	12	2	1	0	0	0	1	0	3	2	2	1	3	5	1	2	3	5	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:22806757C>T	uc002kvk.2	-	4	1372	c.1125G>A	c.(1123-1125)CCG>CCA	p.P375P	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.P375P|ZNF521_uc002kvl.2_Silent_p.P155P	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	375					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TTGGGATTGGCGGGGCAGCTT	0.547			T	PAX5	ALL								29	67					0	0	0.009535	0	0		T	22806757	T	T	22806757	2	4	134	1	0	0	0	0	0	0	0	1	17990	755	27	1		1	ZNF521	18	22806757	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	893758	22806757	55270491	1452	74110											
PSMA8	143471	broad.mit.edu	37	chr18	23758861	23758861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaagaattacacagaagatgCcatagcaagtgacagtgaag	19	6	10	6	0	0	5	0	2	0	3	0	5	0	5	1	0	3	1	1	0	7	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:23758861C>T	uc002kvq.2	+	5	677	c.563C>T	c.(562-564)GCC>GTC	p.A188V	PSMA8_uc002kvo.2_Missense_Mutation_p.A144V|PSMA8_uc002kvp.2_Missense_Mutation_p.A182V|PSMA8_uc002kvr.2_Missense_Mutation_p.A156V	NM_144662	NP_653263	Q8TAA3	PSA7L_HUMAN	proteasome alpha 8 subunit isoform 1	188					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	threonine-type endopeptidase activity			skin(1)	1	all_cancers(21;0.000585)|Lung NSC(5;0.00148)|all_lung(6;0.0038)|Ovarian(20;0.124)		OV - Ovarian serous cystadenocarcinoma(3;0.000324)|all cancers(3;0.000954)|LUSC - Lung squamous cell carcinoma(2;0.181)			ACAGAAGATGCCATAGCAAGT	0.308													29	34					0	0	0.00632	0	0		T	23758861	T	T	23758861	3	4	134	1	0	0	0	0	1	0	0	0	12695	739	26	2	581	2	PSMA8	18	23758861	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	952104	23758861	54318387	1453	74111											
TTR	7276	broad.mit.edu	37	chr18	29171922	29171922	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggactggtatttgtgtctgaGgctggccctacggtgagtgt	5	13	16	7	1	1	2	0	2	1	0	1	3	1	3	1	5	1	2	1	5	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:29171922G>T	uc002kwx.3	+	1	193	c.57G>T	c.(55-57)GAG>GAT	p.E19D		NM_000371	NP_000362	P02766	TTHY_HUMAN	transthyretin precursor	19					transport	cytoplasm	hormone activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(10;0.00523)		Diclofenac(DB00586)|Diethylstilbestrol(DB00255)|Diflunisal(DB00861)|Dimethyl sulfoxide(DB01093)|Levothyroxine(DB00451)|Liothyronine(DB00279)	TTGTGTCTGAGGCTGGCCCTA	0.507													6	177					0.00198382	0.00215987	0.001984	1	0		T	29171922	T	T	29171922	3	4	134	1	0	0	0	0	1	0	0	0	16764	991	35	5	59	5	TTR	18	29171922	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5413061	29171922	48905326	1454	74112											
B4GALT6	9331	broad.mit.edu	37	chr18	29264301	29264301	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggggccacatagatgaagTacagacaggacgaagagagg	15	4	15	7	1	0	4	0	1	0	3	0	7	0	5	1	4	1	1	1	4	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:29264301T>C	uc002kwz.3	-	1	386	c.89A>G	c.(88-90)TAC>TGC	p.Y30C	B4GALT6_uc010dma.2_Missense_Mutation_p.Y30C|B4GALT6_uc010dmb.2_Missense_Mutation_p.Y30C	NM_004775	NP_004766	Q9UBX8	B4GT6_HUMAN	beta-1,4-galactosyltransferase 6	30	Helical; Signal-anchor for type II membrane protein; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding				0			OV - Ovarian serous cystadenocarcinoma(10;0.00791)			ATAGATGAAGTACAGACAGGA	0.557													34	53					0	0	0.004878	0	0		C	29264301	C	C	29264301	3	2	134	1	0	0	0	0	1	0	0	0	1276	1638	57	3	1095	3	B4GALT6	18	29264301	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	92379	29264301	48812947	1455	74113											
KLHL14	57565	broad.mit.edu	37	chr18	30350456	30350456	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggccgtcagggtcacgtcGcaaaacagctgcttcctcca	8	8	11	14	3	2	0	2	0	0	0	5	0	4	0	3	2	3	3	3	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:30350456G>A	uc002kxm.1	-	2	487	c.99C>T	c.(97-99)TGC>TGT	p.C33C		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	33	BTB.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						GGGTCACGTCGCAAAACAGCT	0.642													32	63					0	0	0.010818	0	0		A	30350456	A	A	30350456	2	1	134	1	0	0	0	0	0	0	0	1	8386	1079	38	1		1	KLHL14	18	30350456	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1086155	30350456	47726792	1456	74114											
MOCOS	55034	broad.mit.edu	37	chr18	33795823	33795823	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccccacctgtgtgtgatgtCgccagaacccagccgactcc	7	7	10	17	2	0	2	0	1	0	1	2	3	1	2	7	0	2	0	7	0	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:33795823C>T	uc002kzq.3	+	8	1703	c.1680C>T	c.(1678-1680)GTC>GTT	p.V560V		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	560					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	TGTGTGATGTCGCCAGAACCC	0.552													40	70					0	0	0.007835	0	0		T	33795823	T	T	33795823	2	4	134	1	0	0	0	0	0	0	0	1	9707	871	31	1		1	MOCOS	18	33795823	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3445367	33795823	44281425	1457	74115											
MOCOS	55034	broad.mit.edu	37	chr18	33831236	33831236	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaggaatgcaaagaagaaAcatggaaaaggtattacatt	21	7	9	4	0	0	2	0	0	0	2	0	4	0	4	0	3	3	2	0	3	9	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:33831236A>G	uc002kzq.3	+	11	2177	c.2154A>G	c.(2152-2154)AAA>AAG	p.K718K		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	718	MOSC.				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	CAAAGAAGAAACATGGAAAAG	0.398													6	200					0	0	0.001168	0	0		G	33831236	G	G	33831236	2	3	134	1	0	0	0	0	0	0	0	1	9707	40	2	3		3	MOCOS	18	33831236	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	35413	33831236	44246012	1458	74116											
CELF4	56853	broad.mit.edu	37	chr18	34853109	34853109	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgactgatgccatcagggcCgcttgctgctgcatcagctg	6	9	13	13	2	2	1	2	1	0	0	2	2	2	1	2	1	5	5	2	1	0	1	rs145932686		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:34853109C>T	uc002lae.2	-	7	1215	c.819G>A	c.(817-819)GCG>GCA	p.A273A	CELF4_uc010dnd.1_Silent_p.A271A|CELF4_uc002lag.2_Silent_p.A263A|CELF4_uc002laf.2_Silent_p.A268A|CELF4_uc002lai.2_Silent_p.A258A|CELF4_uc002lah.1_5'UTR|CELF4_uc002laj.1_Missense_Mutation_p.G109S	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	273	Sufficient for RNA-binding and MSE- dependent splicing activity.|Ala-rich.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						CCATCAGGGCCGCTTGCTGCT	0.637													21	52					0	0	0.00333	0	0		T	34853109	T	T	34853109	2	4	134	1	0	0	0	0	0	0	0	1	3221	639	23	1		1	CELF4	18	34853109	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1021873	34853109	43224139	1459	74117											
CELF4	56853	broad.mit.edu	37	chr18	35145576	35145576	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcgttgtcagcctgtccgTttgctaacgtggccatcttt	4	16	10	11	3	2	0	1	0	1	0	3	0	3	0	3	1	4	3	3	1	1	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:35145576T>C	uc002lae.2	-	1	425	c.29A>G	c.(28-30)AAC>AGC	p.N10S	CELF4_uc010dnd.1_Missense_Mutation_p.N10S|CELF4_uc002lag.2_Missense_Mutation_p.N10S|CELF4_uc002laf.2_Missense_Mutation_p.N6S|CELF4_uc002lai.2_Missense_Mutation_p.N6S	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	10	Sufficient for RNA-binding and MSE- dependent splicing activity.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						AGCCTGTCCGTTTGCTAACGT	0.557													34	69					0	0	0.007835	0	0		C	35145576	C	C	35145576	3	2	134	1	0	0	0	0	1	0	0	0	3221	1725	60	3	1479	3	CELF4	18	35145576	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	292467	35145576	42931672	1460	74118											
TCEB3B	51224	broad.mit.edu	37	chr18	44560392	44560392	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacgagtgcccttggattcgTttgctttcctttgtttatct	4	19	8	10	2	1	0	0	0	1	0	3	2	2	1	2	1	2	3	2	1	1	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:44560392T>C	uc002lcr.1	-	1	1597	c.1244A>G	c.(1243-1245)AAC>AGC	p.N415S	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	415					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						CTTGGATTCGTTTGCTTTCCT	0.502													7	203					0	0	0.00308	0	0		C	44560392	C	C	44560392	3	2	134	1	0	0	0	0	1	0	0	0	15707	1725	60	3	1021	3	TCEB3B	18	44560392	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	9414816	44560392	33516856	1461	74119											
KIAA0427	9811	broad.mit.edu	37	chr18	46385824	46385824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcggagtccatgctgacccGgtcgctgctcctagaggtca	6	9	12	14	3	1	2	1	1	0	1	5	3	3	3	3	3	2	3	3	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:46385824G>A	uc002ldc.2	+	12	1976	c.1691G>A	c.(1690-1692)CGG>CAG	p.R564Q	KIAA0427_uc002ldd.2_Missense_Mutation_p.R566Q|KIAA0427_uc002lde.3_Missense_Mutation_p.R193Q	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	564	MIF4G.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding	p.R564Q(1)			0						ATGCTGACCCGGTCGCTGCTC	0.602													62	121					0	0	0.01441	0	0		A	46385824	A	A	46385824	3	1	134	1	0	0	0	0	1	0	0	0	8192	1116	39	1	1739	1	KIAA0427	18	46385824	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1825432	46385824	31691424	1462	74120											
LIPG	9388	broad.mit.edu	37	chr18	47110076	47110076	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcgcagctacctgtctcaAccccgcaaccccggacggga	8	7	9	17	4	1	0	1	0	1	0	3	2	1	2	5	2	4	3	5	2	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:47110076A>G	uc002ldv.2	+	8	1560	c.1308A>G	c.(1306-1308)CAA>CAG	p.Q436Q	LIPG_uc010xdh.1_Silent_p.Q362Q	NM_006033	NP_006024	Q9Y5X9	LIPE_HUMAN	endothelial lipase precursor	436	PLAT.				cholesterol homeostasis|high-density lipoprotein particle remodeling|phospholipid catabolic process|phospholipid homeostasis|positive regulation of cholesterol transport|positive regulation of high-density lipoprotein particle clearance|reverse cholesterol transport	extracellular space	heparin binding|lipoprotein lipase activity|phospholipase A1 activity|protein binding|triglyceride lipase activity			ovary(1)|skin(1)	2						ACCTGTCTCAACCCCGCAACC	0.587													9	40					0	0	0.010729	0	0		G	47110076	G	G	47110076	2	3	134	1	0	0	0	0	0	0	0	1	8840	40	2	3		3	LIPG	18	47110076	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	724252	47110076	30967172	1463	74121											
MBD1	4152	broad.mit.edu	37	chr18	47803030	47803030	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcctctggaggccactcAcctcgacagtctttgcacaa	9	9	7	16	1	3	0	1	0	2	0	5	2	4	1	4	2	1	1	4	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:47803030A>G	uc010dow.1	-	5	912	c.475_splice	c.e5+1	p.A159_splice	MBD1_uc002lef.2_Splice_Site|MBD1_uc002leg.2_Splice_Site_p.A159_splice|MBD1_uc010xdi.1_Splice_Site_p.A185_splice|MBD1_uc002leh.3_Splice_Site_p.A159_splice|MBD1_uc002len.2_Splice_Site_p.A159_splice|MBD1_uc002lei.3_Splice_Site_p.A159_splice|MBD1_uc002lej.3_Splice_Site_p.A159_splice|MBD1_uc002lek.3_Splice_Site_p.A159_splice|MBD1_uc002lel.3_Splice_Site_p.A159_splice|MBD1_uc002lem.3_Splice_Site_p.A159_splice|MBD1_uc010xdj.1_Splice_Site_p.A159_splice|MBD1_uc010xdk.1_Splice_Site_p.A159_splice|MBD1_uc010dox.1_Splice_Site_p.A159_splice|MBD1_uc002leo.2_Splice_Site_p.A159_splice	NM_015846	NP_056671	Q9UIS9	MBD1_HUMAN	methyl-CpG binding domain protein 1 isoform 1						negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|nuclear speck	methyl-CpG binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GAGGCCACTCACCTCGACAGT	0.567													28	43					0	0	0.013726	0	0		G	47803030	G	G	47803030	5	3	134	1	0	0	0	0	0	0	1	0	9360	173	6	3	1582	3	MBD1	18	47803030	Splice_Site	SNP	A	TCGA-CG-4442-01A-01D-1158-08	692954	47803030	30274218	1464	74122											
LMAN1	3998	broad.mit.edu	37	chr18	57020469	57020469	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaataggtaatctttgctcGgacaggatagggtttgttgc	9	14	13	5	1	1	0	0	0	1	0	2	2	1	2	0	4	2	5	0	4	4	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:57020469G>A	uc002lhz.2	-	5	636	c.604C>T	c.(604-606)CGA>TGA	p.R202*	LMAN1_uc010xek.1_Nonsense_Mutation_p.R202*	NM_005570	NP_005561	P49257	LMAN1_HUMAN	lectin, mannose-binding, 1 precursor	202	Lumenal (Potential).|L-type lectin-like.				blood coagulation|ER to Golgi vesicle-mediated transport|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	mannose binding|metal ion binding|unfolded protein binding			skin(1)	1		Colorectal(73;0.0946)			Antihemophilic Factor(DB00025)	ATCTTTGCTCGGACAGGATAG	0.408													65	134					0	0	0.01441	0	0		A	57020469	A	A	57020469	4	1	134	1	0	0	0	0	0	1	0	0	8853	1124	39	1	964	1	LMAN1	18	57020469	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	9217439	57020469	21056779	1465	74123											
TNFRSF11A	8792	broad.mit.edu	37	chr18	60035961	60035961	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtgacagttgtgtcagtAcacacacggcaaactttggt	11	10	11	9	1	1	1	1	1	0	0	1	1	1	1	0	3	2	3	0	3	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:60035961A>G	uc002lin.2	+	9	849	c.811A>G	c.(811-813)ACA>GCA	p.T271A	TNFRSF11A_uc010dpv.2_Intron	NM_003839	NP_003830	Q9Y6Q6	TNR11_HUMAN	tumor necrosis factor receptor superfamily,	271	Cytoplasmic (Potential).				adaptive immune response|cell-cell signaling|circadian temperature homeostasis|monocyte chemotaxis|osteoclast differentiation|positive regulation of cell proliferation|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|response to interleukin-1|response to lipopolysaccharide	external side of plasma membrane|integral to membrane	metal ion binding|tumor necrosis factor receptor activity			breast(2)|lung(1)	3		Colorectal(73;0.188)				TTGTGTCAGTACACACACGGC	0.453									Paget_Disease_of_Bone				29	65					0	0	0.010818	0	0		G	60035961	G	G	60035961	3	3	134	1	0	0	0	0	1	0	0	0	16309	391	14	3	845	3	TNFRSF11A	18	60035961	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3015492	60035961	18041287	1466	74124											
VPS4B	9525	broad.mit.edu	37	chr18	61067280	61067280	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaaaaaattagtaacactaCcttgcatttgcactaggaac	18	10	5	8	0	0	0	0	0	0	0	0	1	0	1	1	1	5	3	1	1	9	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:61067280C>T	uc002lix.2	-	7	1050	c.790_splice	c.e7+1	p.G264_splice	VPS4B_uc010dpx.2_Splice_Site_p.G264_splice|VPS4B_uc010dpy.2_Splice_Site_p.G146_splice|VPS4B_uc010dpz.1_Splice_Site_p.G146_splice	NM_004869	NP_004860	O75351	VPS4B_HUMAN	vacuolar protein sorting factor 4B						cell cycle|cell division|cellular membrane organization|endosome to lysosome transport via multivesicular body sorting pathway|intracellular cholesterol transport|protein transport|response to lipid	cytosol|early endosome|late endosome membrane|lysosome|nucleus|vacuolar membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding			ovary(1)	1						AGTAACACTACCTTGCATTTG	0.214													30	69					0	0	0.009535	0	0		T	61067280	T	T	61067280	5	4	134	1	0	0	0	0	0	0	1	0	17239	521	18	4	563	4	VPS4B	18	61067280	Splice_Site	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1031319	61067280	17009968	1467	74125											
CDH7	1005	broad.mit.edu	37	chr18	63529940	63529940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccaggagaaacggcttcCggagacaggaacaatcagtt	14	6	12	9	2	1	3	1	1	0	2	2	6	2	4	2	4	2	2	2	4	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:63529940C>T	uc002ljz.2	+	11	1976	c.1651C>T	c.(1651-1653)CGG>TGG	p.R551W	CDH7_uc002lka.2_Missense_Mutation_p.R551W|CDH7_uc002lkb.2_Missense_Mutation_p.R551W	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	551	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				AAACGGCTTCCGGAGACAGGA	0.458													46	96					0	0	0.01441	0	0		T	63529940	T	T	63529940	3	4	134	1	0	0	0	0	1	0	0	0	3118	643	23	1	1689	1	CDH7	18	63529940	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2462660	63529940	14547308	1468	74126											
CCDC102B	79839	broad.mit.edu	37	chr18	66678242	66678242	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaatattgcagaactgacTcatgcaaacaaccgagtgga	16	7	9	9	1	1	2	1	1	0	1	1	4	1	3	1	1	5	3	1	1	5	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:66678242T>A	uc002lkk.2	+	9	1558	c.1335T>A	c.(1333-1335)ACT>ACA	p.T445T	CCDC102B_uc002lki.2_Silent_p.T445T	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	445	Potential.									ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				CAGAACTGACTCATGCAAACA	0.353													7	104					0	0	0.00308	0	0		A	66678242	A	A	66678242	2	1	134	1	0	0	0	0	0	0	0	1	2740	1538	54	5		5	CCDC102B	18	66678242	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	3148302	66678242	11399006	1469	74127											
RTTN	25914	broad.mit.edu	37	chr18	67755348	67755348	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagcccgtttcaagggtggtCagtgctgatcctaatcccag	8	10	11	12	1	2	1	2	1	0	0	4	1	4	1	3	2	2	2	3	2	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:67755348C>T	uc002lkp.2	-	31	4247	c.4179G>A	c.(4177-4179)CTG>CTA	p.L1393L	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Silent_p.L481L	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1393							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				CAAGGGTGGTCAGTGCTGATC	0.438													46	99					0	0	0.013114	0	0		T	67755348	T	T	67755348	2	4	134	1	0	0	0	0	0	0	0	1	13762	813	29	4		4	RTTN	18	67755348	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1077106	67755348	10321900	1470	74128											
TSHZ1	10194	broad.mit.edu	37	chr18	72998443	72998443	+	Frame_Shift_Del	DEL	C	-	-																															gggcgcttcaggacctggcgCccccctgctcccctgagcca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:72998443delC	uc002lly.2	+	2	1509	c.946delC	c.(946-948)CCCfs	p.P316fs		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	361						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GGACCTGGCGCCCCCCTGCTC	0.597													50	94	---	---	---	---						.	-	72998443	-	-	72998443	7	5	134	1	0	1	0	1	0	0	0	0	16649	739	26	0	948	0	TSHZ1	18	72998443	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	5243095	72998443	5078805	1471	74129											
CTDP1	9150	broad.mit.edu	37	chr18	77470424	77470424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattgacccattttctaaaaCgggaaaccttaggtatgtac	13	13	7	8	1	1	1	0	1	1	0	1	2	1	2	2	2	3	2	2	2	7	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:77470424C>T	uc002lnh.1	+	6	998	c.851C>T	c.(850-852)ACG>ATG	p.T284M	CTDP1_uc002lni.1_Missense_Mutation_p.T284M|CTDP1_uc010drd.1_Missense_Mutation_p.T284M	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	284	FCP1 homology.				positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		TTTTCTAAAACGGGAAACCTT	0.398													116	205					0	0	0.01441	0	0		T	77470424	T	T	77470424	3	4	134	1	0	0	0	0	1	0	0	0	4005	536	19	1	873	1	CTDP1	18	77470424	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4471981	77470424	606824	1472	74130											
PARD6G	84552	broad.mit.edu	37	chr18	77917845	77917845	+	Frame_Shift_Del	DEL	G	-	-																															tgcgggcgcgcccggggtctGggggggacgtgcaggctcca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:77917845delG	uc002lny.2	-	3	1106	c.940delC	c.(940-942)CAGfs	p.Q314fs	LOC100130522_uc002lnx.2_Intron|LOC100130522_uc010xfn.1_Intron|LOC100130522_uc010xfo.1_Intron	NM_032510	NP_115899	Q9BYG4	PAR6G_HUMAN	PAR-6 gamma protein	314					cell cycle|cell division|tight junction assembly	cytosol|tight junction	protein binding				0		all_cancers(4;5.63e-22)|all_epithelial(4;5.86e-15)|all_lung(4;1.32e-05)|Ovarian(4;1.33e-05)|Lung NSC(4;2.77e-05)|Esophageal squamous(42;0.0157)|all_hematologic(56;0.13)|Melanoma(33;0.144)		Epithelial(2;1.48e-13)|all cancers(1;5.77e-13)|OV - Ovarian serous cystadenocarcinoma(15;2.74e-10)|BRCA - Breast invasive adenocarcinoma(31;0.00166)|STAD - Stomach adenocarcinoma(84;0.18)|Lung(128;0.23)		CCCGGGGTCTGGGGGGGACGT	0.746													5	5	---	---	---	---						.	-	77917845	-	-	77917845	7	5	134	1	0	1	0	1	0	0	0	0	11466	1357	47	0	194	0	PARD6G	18	77917845	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	447421	77917845	159403	1473	74131											
PARD6G	84552	broad.mit.edu	37	chr18	77918406	77918406	+	Frame_Shift_Del	DEL	G	-	-																															gtccaggtgtgcacgccgccGgggtccttcatcacgcagcg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr18:77918406delG	uc002lny.2	-	3	545	c.379delC	c.(379-381)CGGfs	p.R127fs	LOC100130522_uc002lnx.2_Intron|LOC100130522_uc010xfn.1_Intron|LOC100130522_uc010xfo.1_Intron	NM_032510	NP_115899	Q9BYG4	PAR6G_HUMAN	PAR-6 gamma protein	127	Interaction with PARD3 and CDC42 (By similarity).				cell cycle|cell division|tight junction assembly	cytosol|tight junction	protein binding				0		all_cancers(4;5.63e-22)|all_epithelial(4;5.86e-15)|all_lung(4;1.32e-05)|Ovarian(4;1.33e-05)|Lung NSC(4;2.77e-05)|Esophageal squamous(42;0.0157)|all_hematologic(56;0.13)|Melanoma(33;0.144)		Epithelial(2;1.48e-13)|all cancers(1;5.77e-13)|OV - Ovarian serous cystadenocarcinoma(15;2.74e-10)|BRCA - Breast invasive adenocarcinoma(31;0.00166)|STAD - Stomach adenocarcinoma(84;0.18)|Lung(128;0.23)		GCACGCCGCCGGGGTCCTTCA	0.726													5	8	---	---	---	---						.	-	77918406	-	-	77918406	7	5	134	1	0	1	0	1	0	0	0	0	11466	1115	39	0	755	0	PARD6G	18	77918406	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	561	77918406	158842	1474	74132											
C19orf21	126353	broad.mit.edu	37	chr19	757730	757730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagggaagagaacaaggtgCgtgctgtgcccacctgggcc	9	6	15	11	1	1	1	1	0	0	1	1	3	1	2	3	3	4	1	3	3	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:757730C>T	uc002lpo.2	+	2	867	c.784C>T	c.(784-786)CGT>TGT	p.R262C		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	262										upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAACAAGGTGCGTGCTGTGCC	0.657													34	39					0	0	0.012213	0	0		T	757730	T	T	757730	3	4	134	1	0	0	0	0	1	0	0	0	1916	768	27	1	786	1	C19orf21	19	757730	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08		757730	58371253	1475	74133											
ELANE	1991	broad.mit.edu	37	chr19	856072	856072	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttgccccggtggcacagTttgtaaactggatcgactct	7	12	10	12	2	1	0	0	0	1	0	2	2	1	1	3	3	2	3	3	3	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:856072T>C	uc002lqb.2	+	5	750	c.712T>C	c.(712-714)TTT>CTT	p.F238L		NM_001972	NP_001963	P08246	ELNE_HUMAN	neutrophil elastase preproprotein	238	Peptidase S1.				cellular calcium ion homeostasis|negative regulation of chemokine biosynthetic process|negative regulation of chemotaxis|negative regulation of inflammatory response|negative regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of MAP kinase activity|positive regulation of smooth muscle cell proliferation|protein catabolic process|proteolysis|response to UV	cell surface|extracellular region|stored secretory granule	bacterial cell surface binding|cytokine binding|heparin binding			pancreas(1)	1					Alpha-1-proteinase inhibitor(DB00058)|Filgrastim(DB00099)|Pegfilgrastim(DB00019)	GGTGGCACAGTTTGTAAACTG	0.642									Kostmann_syndrome				14	368					0	0	0.00245	0	0		C	856072	C	C	856072	3	2	134	1	0	0	0	0	1	0	0	0	5056	1725	60	3	730	3	ELANE	19	856072	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	98342	856072	58272911	1476	74134											
MED16	10025	broad.mit.edu	37	chr19	889762	889762	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtggtccgccatgctcCagcacttgatctgcccgtcg	5	9	11	16	3	1	1	0	1	1	0	4	1	3	1	5	2	3	2	5	2	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:889762C>T	uc002lqd.1	-	4	474	c.323G>A	c.(322-324)TGG>TAG	p.W108*	MED16_uc002lqe.2_Nonsense_Mutation_p.W97*|MED16_uc002lqf.2_Nonsense_Mutation_p.W97*|MED16_uc010xfv.1_Intron|MED16_uc010xfw.1_Nonsense_Mutation_p.W97*|MED16_uc010xfx.1_Nonsense_Mutation_p.W97*|MED16_uc010xfy.1_Nonsense_Mutation_p.W97*	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	108	WD 1.				androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCCATGCTCCAGCACTTGAT	0.622													11	33					0	0	0.013537	0	0		T	889762	T	T	889762	4	4	134	1	0	0	0	0	0	1	0	0	9452	595	21	4	2362	4	MED16	19	889762	Nonsense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	33690	889762	58239221	1477	74135											
C19orf26	255057	broad.mit.edu	37	chr19	1231206	1231206	+	Frame_Shift_Del	DEL	C	-	-																															gaagtcctcctggggggcatCcccctcctcctgctccgtgc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:1231206delC	uc002lrm.2	-	9	1305	c.1030delG	c.(1030-1032)GATfs	p.D344fs		NM_152769	NP_689982	Q8N350	DOS_HUMAN	downstream of Stk11	370						integral to membrane					0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGGGGGCATCCCCCTCCTCC	0.711										HNSCC(14;0.022)			55	99	---	---	---	---						.	-	1231206	-	-	1231206	7	5	134	1	0	1	0	1	0	0	0	0	1919	855	30	0	317	0	C19orf26	19	1231206	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	341444	1231206	57897777	1478	74136											
REXO1	57455	broad.mit.edu	37	chr19	1828587	1828587	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgccattctccctctgcgcGgggggcttgggcagctcagg	3	9	16	13	2	3	0	1	0	2	0	4	0	3	0	2	5	3	3	2	5	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:1828587G>A	uc002lua.3	-	2	296	c.201C>T	c.(199-201)CCC>CCT	p.P67P	REXO1_uc010dsr.1_Silent_p.P21P	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3	67						nucleus	exonuclease activity|nucleic acid binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCTCTGCGCGGGGGGCTTGG	0.677													23	31					0	0	0.005443	0	0		A	1828587	A	A	1828587	2	1	134	1	0	0	0	0	0	0	0	1	13266	1103	39	1		1	REXO1	19	1828587	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	597381	1828587	57300396	1479	74137											
KLF16	83855	broad.mit.edu	37	chr19	1854753	1854753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtcacaagcaaaagggCgttcccctggacggagagac	12	4	13	12	2	1	1	1	0	0	1	2	4	2	3	3	3	1	2	3	3	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:1854753C>T	uc002luc.2	-	2	532	c.464G>A	c.(463-465)CGC>CAC	p.R155H	KLF16_uc010xgt.1_RNA	NM_031918	NP_114124	Q9BXK1	KLF16_HUMAN	BTE-binding protein 4	155						nucleus	DNA binding|zinc ion binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCAAAAGGGCGTTCCCCTGG	0.657													11	25					0	0	0.008871	0	0		T	1854753	T	T	1854753	3	4	134	1	0	0	0	0	1	0	0	0	8360	768	27	1	298	1	KLF16	19	1854753	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	26166	1854753	57274230	1480	74138											
DOT1L	84444	broad.mit.edu	37	chr19	2210737	2210737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatggctggccgcaagcgcGggcgccccaagaagatgaac	11	3	15	12	4	0	4	0	1	0	3	0	4	0	4	3	3	2	2	3	3	4	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:2210737G>A	uc002lvb.3	+	14	1270	c.1234G>A	c.(1234-1236)GGG>AGG	p.G412R	DOT1L_uc002lvc.1_5'Flank	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	412	Required for interaction with nucleosomes and DNA.					nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGCAAGCGCGGGCGCCCCAA	0.607													76	122					0	0	0.01441	0	0		A	2210737	A	A	2210737	3	1	134	1	0	0	0	0	1	0	0	0	4715	1116	39	1	1288	1	DOT1L	19	2210737	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	355984	2210737	56918246	1481	74139											
AMH	268	broad.mit.edu	37	chr19	2249524	2249524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgggcggggacagcaatGgcagcagctcccccctgcgg	7	4	15	15	2	0	0	0	0	0	0	1	1	1	1	3	5	4	4	3	5	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:2249524G>A	uc002lvh.2	+	1	412	c.193G>A	c.(193-195)GGC>AGC	p.G65S	hsa-mir-4321|MI0015852_5'Flank	NM_000479	NP_000470	P03971	MIS_HUMAN	anti-Mullerian hormone precursor	65					cell differentiation|cell-cell signaling|gonadal mesoderm development|Mullerian duct regression|positive regulation of gene expression|sex determination	extracellular space	growth factor activity|hormone activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGACAGCAATGGCAGCAGCTC	0.692									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				10	14					0	0	0.013537	0	0		A	2249524	A	A	2249524	3	1	134	1	0	0	0	0	1	0	0	0	572	1348	47	4	195	4	AMH	19	2249524	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	38787	2249524	56879459	1482	74140											
TBXA2R	6915	broad.mit.edu	37	chr19	3600213	3600213	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgctgcgaggcgaccgccggGcgcgagaagggccgggtgat	6	3	20	12	8	0	2	0	1	0	1	0	5	0	2	3	4	1	1	3	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:3600213G>A	uc002lyg.1	-	2	634	c.420C>T	c.(418-420)CGC>CGT	p.R140R	TBXA2R_uc002lye.1_Intron	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	140	Cytoplasmic (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	CGACCGCCGGGCGCGAGAAGG	0.746													12	23					0	0	0.013537	0	0		A	3600213	A	A	3600213	2	1	134	1	0	0	0	0	0	0	0	1	15688	1190	42	2		2	TBXA2R	19	3600213	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1350689	3600213	55528770	1483	74141											
TBXA2R	6915	broad.mit.edu	37	chr19	3600354	3600354	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtccacggcgtgccactcGaagagcgcggcgtgctggga	6	5	18	12	6	0	1	0	0	0	1	2	3	1	2	2	4	3	1	2	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:3600354G>A	uc002lyg.1	-	2	493	c.279C>T	c.(277-279)TTC>TTT	p.F93F	TBXA2R_uc002lye.1_Silent_p.F93F	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	93	Extracellular (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	CGTGCCACTCGAAGAGCGCGG	0.672													29	51					0	0	0.008361	0	0		A	3600354	A	A	3600354	2	1	134	1	0	0	0	0	0	0	0	1	15688	1049	37	1		1	TBXA2R	19	3600354	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	141	3600354	55528629	1484	74142											
TBXA2R	6915	broad.mit.edu	37	chr19	3600562	3600562	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaccagggcgaggcgatcAgccgtctctcctccagggta	8	6	13	14	4	2	0	1	0	1	0	5	3	4	0	4	3	2	1	4	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:3600562A>G	uc002lyg.1	-	2	285	c.71T>C	c.(70-72)CTG>CCG	p.L24P	TBXA2R_uc002lye.1_Missense_Mutation_p.L24P	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	24	Extracellular (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	CGAGGCGATCAGCCGTCTCTC	0.692													20	39					0	0	0.00278	0	0		G	3600562	G	G	3600562	3	3	134	1	0	0	0	0	1	0	0	0	15688	188	7	3	1213	3	TBXA2R	19	3600562	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	208	3600562	55528421	1485	74143											
PIP5K1C	23396	broad.mit.edu	37	chr19	3633494	3633494	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctatagtggagcggggagtAcacccagctcctctcatcgg	8	8	13	12	2	1	0	1	0	1	0	4	2	2	2	2	4	3	3	2	4	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:3633494A>G	uc002lyj.1	-	17	2002	c.1945T>C	c.(1945-1947)TAC>CAC	p.Y649H	PIP5K1C_uc010xhq.1_Intron	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	649	Mediates interaction with TLN2.				axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		AGCGGGGAGTACACCCAGCTC	0.706													10	20					0	0	0.010729	0	0		G	3633494	G	G	3633494	3	3	134	1	0	0	0	0	1	0	0	0	11960	391	14	3	69	3	PIP5K1C	19	3633494	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	32932	3633494	55495489	1486	74144											
PIP5K1C	23396	broad.mit.edu	37	chr19	3638999	3638999	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcagcagaggcaccggcCggggaagcctccaccctggg	9	2	15	15	2	0	1	0	0	0	1	1	2	1	2	5	5	3	3	5	5	1	0	rs146725634		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:3638999C>T	uc002lyj.1	-	16	1860	c.1803G>A	c.(1801-1803)CCG>CCA	p.P601P	PIP5K1C_uc010xhq.1_Silent_p.P601P|PIP5K1C_uc010xhr.1_Silent_p.P601P	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	601					axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		AGGCACCGGCCGGGGAAGCCT	0.697													9	29					0	0	0.004007	0	0		T	3638999	T	T	3638999	2	4	134	1	0	0	0	0	0	0	0	1	11960	639	23	1		1	PIP5K1C	19	3638999	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	5505	3638999	55489984	1487	74145											
EEF2	1938	broad.mit.edu	37	chr19	3977575	3977575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgtcgtggacgtcgaagcGcacaccccgcatgttctcct	7	8	11	15	6	1	0	0	0	1	0	4	3	1	1	3	1	1	3	3	1	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:3977575G>A	uc002lze.2	-	13	2184	c.2101C>T	c.(2101-2103)CGC>TGC	p.R701C		NM_001961	NP_001952	P13639	EF2_HUMAN	eukaryotic translation elongation factor 2	701						cytosol|ribonucleoprotein complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|GBM - Glioblastoma multiforme(1328;0.0223)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGTCGAAGCGCACACCCCGC	0.682													7	10					0	0	0.001984	0	0		A	3977575	A	A	3977575	3	1	134	1	0	0	0	0	1	0	0	0	4935	1087	38	1	487	1	EEF2	19	3977575	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	338576	3977575	55151408	1488	74146											
FSD1	79187	broad.mit.edu	37	chr19	4318416	4318416	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctctccgtggagtgggaCgctatgggcgggaaggtgca	7	8	18	8	3	1	0	0	0	1	0	3	4	2	3	1	5	1	2	1	5	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:4318416C>T	uc002lzy.2	+	9	1026	c.873C>T	c.(871-873)GAC>GAT	p.D291D	FSD1_uc002lzz.2_Silent_p.D291D|FSD1_uc002maa.2_Silent_p.D104D	NM_024333	NP_077309	Q9BTV5	FSD1_HUMAN	fibronectin type III and SPRY domain containing	291	B30.2/SPRY.				cell division|mitosis	cleavage furrow|microtubule|microtubule organizing center|nucleus				skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.034)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGAGTGGGACGCTATGGGCG	0.572													26	52					0	0	0.010818	0	0		T	4318416	T	T	4318416	2	4	134	1	0	0	0	0	0	0	0	1	6084	535	19	1		1	FSD1	19	4318416	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	340841	4318416	54810567	1489	74147											
SH3GL1	6455	broad.mit.edu	37	chr19	4366969	4366969	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagcttggtcccctcggccCctccgaccttctcactgacc	4	9	7	21	2	1	1	1	1	1	0	5	2	3	1	8	2	1	1	8	2	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:4366969C>A	uc002maj.2	-	2	174	c.68G>T	c.(67-69)GGG>GTG	p.G23V	SH3GL1_uc002mak.2_Missense_Mutation_p.G23V|SH3GL1_uc010xig.1_Missense_Mutation_p.G23V	NM_003025	NP_003016	Q99961	SH3G1_HUMAN	SH3-domain GRB2-like 1	23	BAR.				central nervous system development|endocytosis|signal transduction	early endosome membrane	lipid binding|protein binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0152)|STAD - Stomach adenocarcinoma(1328;0.182)		CCCCTCGGCCCCTCCGACCTT	0.597			T	MLL	AL								156	308					5.71173e-70	6.86909e-70	0.01441	1	0		A	4366969	A	A	4366969	3	1	134	1	0	0	0	0	1	0	0	0	14275	623	22	5	1074	5	SH3GL1	19	4366969	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	48553	4366969	54762014	1490	74148											
PTPRS	5802	broad.mit.edu	37	chr19	5231328	5231328	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggtacttaccatcctcGtcggtgcggacgaccacggg	7	7	14	13	5	0	0	0	0	0	0	3	2	1	1	3	5	3	2	3	5	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:5231328G>A	uc002mbv.2	-	14	2382	c.2148C>T	c.(2146-2148)GAC>GAT	p.D716D	PTPRS_uc002mbu.1_Intron|PTPRS_uc010xin.1_Intron|PTPRS_uc002mbw.2_Silent_p.D703D|PTPRS_uc002mbx.2_Intron|PTPRS_uc002mby.2_Intron	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	716	Extracellular (Potential).				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		TACCATCCTCGTCGGTGCGGA	0.682													20	35					0	0	0.014323	0	0		A	5231328	A	A	5231328	2	1	134	1	0	0	0	0	0	0	0	1	12836	1136	40	1		1	PTPRS	19	5231328	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	864359	5231328	53897655	1491	74149											
PTPRS	5802	broad.mit.edu	37	chr19	5258116	5258116	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccctggtcggtttcctcActgctttcaatctgcagggc	4	14	10	13	1	3	0	2	0	1	0	5	0	4	0	2	3	3	3	2	3	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:5258116A>G	uc002mbv.2	-	8	852	c.618T>C	c.(616-618)AGT>AGC	p.S206S	PTPRS_uc002mbu.1_Silent_p.S197S|PTPRS_uc010xin.1_Silent_p.S197S|PTPRS_uc002mbw.2_Silent_p.S197S|PTPRS_uc002mbx.2_Silent_p.S197S|PTPRS_uc002mby.2_Silent_p.S197S	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	206	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		CGGTTTCCTCACTGCTTTCAA	0.592													61	89					0	0	0.01441	0	0		G	5258116	G	G	5258116	2	3	134	1	0	0	0	0	0	0	0	1	12836	156	6	3		3	PTPRS	19	5258116	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	26788	5258116	53870867	1492	74150											
SAFB	6294	broad.mit.edu	37	chr19	5667115	5667115	+	Frame_Shift_Del	DEL	G	-	-																															ccgggactcccgcgatggctGggggggctatggctctgaca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:5667115delG	uc002mcf.2	+	18	2446	c.2393delG	c.(2392-2394)TGGfs	p.W798fs	SAFB_uc002mcg.2_Frame_Shift_Del_p.W798fs|SAFB_uc002mce.3_Frame_Shift_Del_p.W797fs|SAFB_uc010xir.1_Frame_Shift_Del_p.W797fs|SAFB_uc010xis.1_Frame_Shift_Del_p.W729fs|SAFB_uc010xit.1_Frame_Shift_Del_p.W640fs|SAFB_uc010xiu.1_Frame_Shift_Del_p.W597fs	NM_002967	NP_002958	Q15424	SAFB1_HUMAN	scaffold attachment factor B	798	Interaction with SAFB2.|Arg-rich.|Gly-rich.				chromatin organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding			ovary(1)|liver(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;0.000222)		CGCGATGGCTGGGGGGGCTAT	0.642													70	114	---	---	---	---						.	-	5667115	-	-	5667115	7	5	134	1	0	1	0	1	0	0	0	0	13831	1357	47	0	2463	0	SAFB	19	5667115	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	408999	5667115	53461868	1493	74151											
TMEM146	257062	broad.mit.edu	37	chr19	5754227	5754227	+	Frame_Shift_Del	DEL	C	-	-																															aattgactgcttcgttgataCcccagccaggcacatccctg																								rs116784915	by1000genomes	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:5754227delC	uc002mda.2	+	13	1310	c.1249delC	c.(1249-1251)CCCfs	p.P417fs	TMEM146_uc010duj.1_Frame_Shift_Del_p.P75fs	NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	417	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						TTCGTTGATACCCCAGCCAGG	0.458													105	237	---	---	---	---						.	-	5754227	-	-	5754227	7	5	134	1	0	1	0	1	0	0	0	0	16085	507	18	0	1299	0	TMEM146	19	5754227	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	87112	5754227	53374756	1494	74152											
DUS3L	56931	broad.mit.edu	37	chr19	5785423	5785423	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atccagtcggctgccttctgGctggccatcagcgtctccag	5	10	11	15	2	3	0	1	0	2	0	6	0	4	0	4	3	2	2	4	3	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:5785423G>A	uc002mdc.2	-	12	1948	c.1851C>T	c.(1849-1851)AGC>AGT	p.S617S	PRR22_uc002mdb.1_5'Flank|PRR22_uc010xiv.1_5'Flank|DUS3L_uc002mdd.2_Silent_p.S375S|DUS3L_uc010duk.2_Silent_p.S282S	NM_020175	NP_064560	Q96G46	DUS3L_HUMAN	dihydrouridine synthase 3-like isoform 1	617					tRNA processing		flavin adenine dinucleotide binding|nucleic acid binding|tRNA dihydrouridine synthase activity|zinc ion binding				0						CTGCCTTCTGGCTGGCCATCA	0.687													4	10					0	0	0.00308	0	0		A	5785423	A	A	5785423	2	1	134	1	0	0	0	0	0	0	0	1	4813	1194	42	2		2	DUS3L	19	5785423	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	31196	5785423	53343560	1495	74153											
RANBP3	8498	broad.mit.edu	37	chr19	5918577	5918577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcgaatgctcttctcgctgGccttgtcgatctgcatctgg	4	14	11	12	3	4	0	0	0	4	0	6	2	4	0	1	2	3	3	1	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:5918577G>A	uc002mdw.2	-	15	1630	c.1403C>T	c.(1402-1404)GCC>GTC	p.A468V	RANBP3_uc002mdv.2_Missense_Mutation_p.A187V|RANBP3_uc002mdx.2_Missense_Mutation_p.A463V|RANBP3_uc002mdy.2_Missense_Mutation_p.A400V|RANBP3_uc002mdz.2_Missense_Mutation_p.A395V|RANBP3_uc010duq.2_Missense_Mutation_p.A373V|RANBP3_uc002mea.2_Missense_Mutation_p.A335V|RANBP3_uc010xix.1_Missense_Mutation_p.A340V	NM_007322	NP_015561	Q9H6Z4	RANB3_HUMAN	RAN binding protein 3 isoform RANBP3-d	468	RanBD1.				intracellular transport|protein transport	cytoplasm|nucleus	Ran GTPase binding			breast(1)	1						CTTCTCGCTGGCCTTGTCGAT	0.612													62	92					0	0	0.01441	0	0		A	5918577	A	A	5918577	3	1	134	1	0	0	0	0	1	0	0	0	13054	1203	42	2	312	2	RANBP3	19	5918577	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	133154	5918577	53210406	1496	74154											
RFX2	5990	broad.mit.edu	37	chr19	6002856	6002856	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgtagcgccgcagcgtcTgggcgaaggcactgacgacg	8	5	16	12	7	1	1	0	1	1	0	1	3	1	1	1	2	2	3	1	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:6002856T>C	uc002meb.2	-	14	1795	c.1526A>G	c.(1525-1527)CAG>CGG	p.Q509R	RFX2_uc002mec.2_Missense_Mutation_p.Q484R	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	509					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						CCGCAGCGTCTGGGCGAAGGC	0.667													3	15					0	0	0.009096	0	0		C	6002856	C	C	6002856	3	2	134	1	0	0	0	0	1	0	0	0	13288	1580	55	3	665	3	RFX2	19	6002856	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	84279	6002856	53126127	1497	74155											
VAV1	7409	broad.mit.edu	37	chr19	6833932	6833932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttccaggacaaactacatcGcagggctcaggacaaaaaga	16	5	9	11	1	1	1	1	0	0	1	3	3	2	3	1	3	2	2	1	3	4	2	rs140267055		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:6833932G>A	uc002mfu.1	+	19	1842	c.1745G>A	c.(1744-1746)CGC>CAC	p.R582H	VAV1_uc010xjh.1_Missense_Mutation_p.R550H|VAV1_uc010dva.1_Missense_Mutation_p.R582H|VAV1_uc002mfv.1_Missense_Mutation_p.R527H	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	582					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						AAACTACATCGCAGGGCTCAG	0.532													63	126					0	0	0.01441	0	0		A	6833932	A	A	6833932	3	1	134	1	0	0	0	0	1	0	0	0	17157	1087	38	1	1819	1	VAV1	19	6833932	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	831076	6833932	52295051	1498	74156											
ARHGEF18	23370	broad.mit.edu	37	chr19	7518514	7518514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaaactcaagaacgggCtcaccttccgcaaggaagac	14	4	9	14	2	2	2	2	0	0	2	3	3	3	3	3	2	3	3	3	2	5	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:7518514C>T	uc002mgi.2	+	7	1706	c.1453C>T	c.(1453-1455)CTC>TTC	p.L485F	ARHGEF18_uc010xjm.1_Missense_Mutation_p.L327F|ARHGEF18_uc002mgh.2_Missense_Mutation_p.L327F|ARHGEF18_uc002mgj.1_Missense_Mutation_p.L128F	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	485					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				CAAGAACGGGCTCACCTTCCG	0.577													31	73					0	0	0.00874	0	0		T	7518514	T	T	7518514	3	4	134	1	0	0	0	0	1	0	0	0	901	797	28	2	1479	2	ARHGEF18	19	7518514	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	684582	7518514	51610469	1499	74157											
KIAA1543	57662	broad.mit.edu	37	chr19	7670306	7670306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggcgcggaggggcacagtgCctgctttgcccgagcgcccg	4	6	17	14	5	0	0	0	0	0	0	0	2	0	1	3	4	4	2	3	4	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:7670306C>T	uc002mgv.3	+	2	444	c.343C>T	c.(343-345)CCT>TCT	p.P115S	KIAA1543_uc002mgu.3_Missense_Mutation_p.P115S	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	115					epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						GGGCACAGTGCCTGCTTTGCC	0.677													5	153					0	0	0.000602	0	0		T	7670306	T	T	7670306	3	4	134	1	0	0	0	0	1	0	0	0	8259	739	26	2	349	2	KIAA1543	19	7670306	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	151792	7670306	51458677	1500	74158											
KIAA1543	57662	broad.mit.edu	37	chr19	7675616	7675616	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgatgctggccgagttgTtcatgtgttttgaggtgctc	4	16	15	6	1	1	2	1	2	0	0	2	3	1	2	1	3	2	5	1	3	0	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:7675616T>C	uc002mgv.3	+	7	1032	c.931T>C	c.(931-933)TTC>CTC	p.F311L	KIAA1543_uc002mgu.3_Missense_Mutation_p.F338L	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	311	CH.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						GGCCGAGTTGTTCATGTGTTT	0.677													8	189					0	0	0.006214	0	0		C	7675616	C	C	7675616	3	2	134	1	0	0	0	0	1	0	0	0	8259	1725	60	3	1046	3	KIAA1543	19	7675616	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	5310	7675616	51453367	1501	74159											
EVI5L	115704	broad.mit.edu	37	chr19	7913812	7913812	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgctcccgtggccaggagctGatccgcaagggcatccccca	7	5	12	17	3	0	1	0	1	0	0	3	2	3	2	5	3	1	4	5	3	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:7913812G>A	uc002min.2	+	4	487	c.333G>A	c.(331-333)CTG>CTA	p.L111L	EVI5L_uc010xjz.1_Silent_p.L111L|EVI5L_uc002mio.1_5'Flank	NM_145245	NP_660288	Q96CN4	EVI5L_HUMAN	ecotropic viral integration site 5-like isoform	111						intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						GCCAGGAGCTGATCCGCAAGG	0.687													13	30					0	0	0.00245	0	0		A	7913812	A	A	7913812	2	1	134	1	0	0	0	0	0	0	0	1	5298	1277	45	4		4	EVI5L	19	7913812	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	238196	7913812	51215171	1502	74160											
MAP2K7	5609	broad.mit.edu	37	chr19	7975205	7975205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatgggcagcggcacctgcGgccaggtgtggaagatgcgc	8	5	18	10	3	0	2	0	0	0	2	0	3	0	3	2	5	3	2	2	5	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:7975205G>A	uc002mit.2	+	4	459	c.394G>A	c.(394-396)GGC>AGC	p.G132S	MAP2K7_uc002miv.2_Missense_Mutation_p.G132S|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.G132S|MAP2K7_uc010dvv.2_Missense_Mutation_p.G7S	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	132	Protein kinase.|ATP (By similarity).				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	CGGCACCTGCGGCCAGGTGTG	0.667													22	35					0	0	0.005443	0	0		A	7975205	A	A	7975205	3	1	134	1	0	0	0	0	1	0	0	0	9260	1116	39	1	408	1	MAP2K7	19	7975205	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	61393	7975205	51153778	1503	74161											
MAP2K7	5609	broad.mit.edu	37	chr19	7976447	7976447	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctcgggggacttccagTccttcgtcaaagactggtga	7	11	12	11	2	2	2	1	1	1	1	6	3	4	3	2	3	0	1	2	3	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:7976447T>C	uc002mit.2	+	9	1128	c.1063T>C	c.(1063-1065)TCC>CCC	p.S355P	MAP2K7_uc002miv.2_Missense_Mutation_p.S362P|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.S362P|MAP2K7_uc010dvv.2_Missense_Mutation_p.S230P	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	355	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	GGACTTCCAGTCCTTCGTCAA	0.602													13	16					0	0	0.001855	0	0		C	7976447	C	C	7976447	3	2	134	1	0	0	0	0	1	0	0	0	9260	1667	58	3	1097	3	MAP2K7	19	7976447	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1242	7976447	51152536	1504	74162											
FBN3	84467	broad.mit.edu	37	chr19	8201281	8201281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgcggctcaccaatgcactCgccgcgcacgtcctgggtgt	5	7	12	17	6	1	0	1	0	0	0	3	0	2	0	4	2	1	3	4	2	1	0	rs139750989		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:8201281C>T	uc002mjf.2	-	10	1357	c.1336G>A	c.(1336-1338)GAG>AAG	p.E446K		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	446	EGF-like 3.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CCAATGCACTCGCCGCGCACG	0.647													29	87					0	0	0.013726	0	0		T	8201281	T	T	8201281	3	4	134	1	0	0	0	0	1	0	0	0	5718	893	31	1	7309	1	FBN3	19	8201281	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	224834	8201281	50927702	1505	74163											
HNRNPM	4670	broad.mit.edu	37	chr19	8536286	8536286	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatcacctgaataaaggcatCggaatgggaaacataggtcc	16	7	10	8	1	1	1	1	1	0	0	3	3	2	3	2	4	1	1	2	4	7	2	rs17179758		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:8536286C>T	uc010dwe.2	+	10	1052	c.972C>T	c.(970-972)ATC>ATT	p.I324I	HNRNPM_uc010dwc.1_Silent_p.I324I|HNRNPM_uc010xke.1_Silent_p.I285I|HNRNPM_uc010dwd.2_Silent_p.I285I|HNRNPM_uc002mka.2_Silent_p.I204I	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	324					alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						ATAAAGGCATCGGAATGGGAA	0.468													18	34					0	0	0.006122	0	0		T	8536286	T	T	8536286	2	4	134	1	0	0	0	0	0	0	0	1	7287	874	31	1		1	HNRNPM	19	8536286	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	335005	8536286	50592697	1506	74164											
MUC16	94025	broad.mit.edu	37	chr19	9066715	9066715	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattggagctgtggccttggTtttttctgagtcagctagga	6	15	13	7	0	2	1	1	1	1	0	2	3	2	3	1	4	2	3	1	4	1	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:9066715T>C	uc002mkp.2	-	3	20935	c.20731A>G	c.(20731-20733)ACC>GCC	p.T6911A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6913	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGGCCTTGGTTTTTTCTGAG	0.473													9	475					0	0	0.004482	0	0		C	9066715	C	C	9066715	3	2	134	1	0	0	0	0	1	0	0	0	9991	1725	60	3	23120	3	MUC16	19	9066715	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	530429	9066715	50062268	1507	74165											
MUC16	94025	broad.mit.edu	37	chr19	9077648	9077648	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacttggttggtgatgtGgttcctgtgggcaggtgaga	5	13	19	4	0	0	3	0	3	0	1	1	4	1	3	1	6	0	3	1	6	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:9077648G>T	uc002mkp.2	-	3	10002	c.9798C>A	c.(9796-9798)ACC>ACA	p.T3266T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3267	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTGGTGATGTGGTTCCTGTGG	0.527													63	111					1.95512e-22	2.25686e-22	0.01441	1	0		T	9077648	T	T	9077648	2	4	134	1	0	0	0	0	0	0	0	1	9991	1335	47	5		5	MUC16	19	9077648	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	10933	9077648	50051335	1508	74166											
MUC16	94025	broad.mit.edu	37	chr19	9087145	9087145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gactcatcgttgcagaaaggGtgtcctgtgcttgtgttgag	7	13	14	7	1	1	2	1	1	0	1	3	3	2	2	1	1	2	4	1	1	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:9087145G>A	uc002mkp.2	-	1	4874	c.4670C>T	c.(4669-4671)ACC>ATC	p.T1557I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1557	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGCAGAAAGGGTGTCCTGTGC	0.488													8	332					0	0	0.00308	0	0		A	9087145	A	A	9087145	3	1	134	1	0	0	0	0	1	0	0	0	9991	1261	44	4	39189	4	MUC16	19	9087145	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	9497	9087145	50041838	1509	74167											
OR7G2	390882	broad.mit.edu	37	chr19	9213067	9213067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actatagataaaggggttcaCcatttgagggaacacagaat	16	9	10	6	0	1	3	1	1	0	2	1	4	1	4	1	3	1	1	1	3	6	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:9213067C>T	uc010xkk.1	-	1	916	c.916G>A	c.(916-918)GTG>ATG	p.V306M		NM_001005193	NP_001005193	Q8NG99	OR7G2_HUMAN	olfactory receptor, family 7, subfamily G,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AAGGGGTTCACCATTTGAGGG	0.458													37	79					0	0	0.00623	0	0		T	9213067	T	T	9213067	3	4	134	1	0	0	0	0	1	0	0	0	11242	507	18	4	123	4	OR7G2	19	9213067	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	125922	9213067	49915916	1510	74168											
OR7G2	390882	broad.mit.edu	37	chr19	9213598	9213599	+	Frame_Shift_Ins	INS	-	A	A																															agacaattttccaagccagcINSaaaaaacaagacaaagcaga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:9213598_9213599insA	uc010xkk.1	-	1	384_385	c.384_385insT	c.(382-387)TTTGCTfs	p.F128fs		NM_001005193	NP_001005193	Q8NG99	OR7G2_HUMAN	olfactory receptor, family 7, subfamily G,	107_108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TCCAAGCCAGCAAAAAACAAGA	0.51													52	98	---	---	---	---						.	A	9213599	A	A	9213598	7	5	134	1	0	1	1	0	0	0	0	0	11242	710	25	0	654	0	OR7G2	19	9213598	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	531	9213598	49915385	1511	74169											
OR7G2	390882	broad.mit.edu	37	chr19	9213738	9213738	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagagattggagaggaagAagtacatgggggtgtggagg	13	6	21	1	0	0	3	0	0	0	3	0	8	0	6	0	7	1	1	0	7	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:9213738A>G	uc010xkk.1	-	1	245	c.245T>C	c.(244-246)TTC>TCC	p.F82S		NM_001005193	NP_001005193	Q8NG99	OR7G2_HUMAN	olfactory receptor, family 7, subfamily G,	61	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GGAGAGGAAGAAGTACATGGG	0.498													39	120					0	0	0.006999	0	0		G	9213738	G	G	9213738	3	3	134	1	0	0	0	0	1	0	0	0	11242	246	9	3	794	3	OR7G2	19	9213738	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	140	9213738	49915245	1512	74170											
RDH8	50700	broad.mit.edu	37	chr19	10132068	10132068	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctctatctcccagcctccaGgaagctgttttgctccgtgg	5	12	9	15	1	2	0	0	0	2	0	5	1	4	1	5	2	3	3	5	2	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:10132068G>T	uc002mmr.2	+	5	923	c.674G>T	c.(673-675)AGG>ATG	p.R225M		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	225					estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	CCAGCCTCCAGGAAGCTGTTT	0.592													54	121					1.53582e-20	1.76374e-20	0.01441	1	0		T	10132068	T	T	10132068	3	4	134	1	0	0	0	0	1	0	0	0	13221	1000	35	5	692	5	RDH8	19	10132068	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	918330	10132068	48996915	1513	74171											
PDE4A	5141	broad.mit.edu	37	chr19	10568615	10568615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaacgagaaaaacagcaagCgccgcgaccaagaccctccc	15	1	10	15	4	0	2	0	0	0	2	1	5	1	3	4	1	4	1	4	1	5	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:10568615C>T	uc002moj.2	+	8	1046	c.938C>T	c.(937-939)GCG>GTG	p.A313V	PDE4A_uc002mok.2_Missense_Mutation_p.A287V|PDE4A_uc002mol.2_Missense_Mutation_p.A252V|PDE4A_uc002mom.2_Missense_Mutation_p.A74V|PDE4A_uc002mon.2_Intron|PDE4A_uc002moo.2_5'Flank	NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1	313					signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)	AAACAGCAAGCGCCGCGACCA	0.532													29	59					0	0	0.010818	0	0		T	10568615	T	T	10568615	3	4	134	1	0	0	0	0	1	0	0	0	11658	768	27	1	1425	1	PDE4A	19	10568615	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	436547	10568615	48560368	1514	74172											
SLC44A2	57153	broad.mit.edu	37	chr19	10746171	10746171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcccctgcccatttactGcgaaaacctgcaacccagag	12	6	7	16	1	0	1	0	0	0	1	0	2	0	1	5	0	7	1	5	0	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:10746171G>A	uc002mpf.2	+	14	1352	c.1213G>A	c.(1213-1215)GCG>ACG	p.A405T	SLC44A2_uc002mpe.3_Missense_Mutation_p.A403T|SLC44A2_uc002mpg.1_Missense_Mutation_p.A125T|SLC44A2_uc002mph.2_5'Flank	NM_020428	NP_065161	Q8IWA5	CTL2_HUMAN	solute carrier family 44, member 2 isoform 1	405	Extracellular (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane|plasma membrane	choline transmembrane transporter activity|signal transducer activity			ovary(1)	1			Epithelial(33;8.7e-06)|all cancers(31;2.77e-05)		Choline(DB00122)	CCCATTTACTGCGAAAACCTG	0.557													74	162					0	0	0.01441	0	0		A	10746171	A	A	10746171	3	1	134	1	0	0	0	0	1	0	0	0	14661	1319	46	2	1302	2	SLC44A2	19	10746171	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	177556	10746171	48382812	1515	74173											
TMED1	11018	broad.mit.edu	37	chr19	10943855	10943855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtgagcatctggatgctgCgctccagccgggtccgcatg	5	8	15	13	4	1	1	0	1	1	0	3	2	3	2	3	2	4	4	3	2	0	0	rs151223408	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:10943855C>T	uc002mpy.2	-	4	616	c.500G>A	c.(499-501)CGC>CAC	p.R167H	DNM2_uc002mpx.1_3'UTR	NM_006858	NP_006849	Q13445	TMED1_HUMAN	interleukin 1 receptor-like 1 ligand precursor	167	Extracellular (Potential).				cell-cell signaling|signal transduction|transport	integral to membrane|plasma membrane	receptor binding			ovary(2)|breast(1)|central_nervous_system(1)	4						CTGGATGCTGCGCTCCAGCCG	0.617													12	25					0	0	0.003163	0	0		T	10943855	T	T	10943855	3	4	134	1	0	0	0	0	1	0	0	0	16027	768	27	1	187	1	TMED1	19	10943855	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	197684	10943855	48185128	1516	74174											
C19orf52	90580	broad.mit.edu	37	chr19	11040108	11040108	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgtgggcttcgtgggtcgCtggtgggtgctgggggcctg	1	10	22	8	3	0	0	0	0	0	0	2	1	0	0	1	6	1	3	1	6	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:11040108C>T	uc002mqd.1	+	2	588	c.513C>T	c.(511-513)CGC>CGT	p.R171R	YIPF2_uc002mqb.2_5'Flank|YIPF2_uc002mqc.2_5'Flank	NM_138358	NP_612367	Q9BSF4	CS052_HUMAN	hypothetical protein LOC90580	171											0						TCGTGGGTCGCTGGTGGGTGC	0.706													16	22					0	0	0.00499	0	0		T	11040108	T	T	11040108	2	4	134	1	0	0	0	0	0	0	0	1	1937	784	28	2		2	C19orf52	19	11040108	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	96253	11040108	48088875	1517	74175											
RAB3D	9545	broad.mit.edu	37	chr19	11446376	11446376	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaaaggattcctgattggcGatgtcatacatgagcaggaa	13	9	12	7	1	1	2	1	2	0	0	2	5	2	4	1	3	2	2	1	3	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:11446376G>A	uc002mqy.2	-	3	550	c.312C>T	c.(310-312)ATC>ATT	p.I104I		NM_004283	NP_004274	O95716	RAB3D_HUMAN	RAB3D, member RAS oncogene family	104					exocytosis|protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(2)	2						CCTGATTGGCGATGTCATACA	0.607													87	150					0	0	0.01441	0	0		A	11446376	A	A	11446376	2	1	134	1	0	0	0	0	0	0	0	1	12959	1048	37	1		1	RAB3D	19	11446376	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	406268	11446376	47682607	1518	74176											
CCDC151	115948	broad.mit.edu	37	chr19	11537809	11537809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacctggtgccgcagggCgttctgctgcttcaccttct	4	11	10	16	2	3	0	1	0	2	0	3	0	3	0	4	2	3	4	4	2	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:11537809C>T	uc002mrs.2	-	4	639	c.496G>A	c.(496-498)GCC>ACC	p.A166T	CCDC151_uc002mrr.2_Missense_Mutation_p.A101T|CCDC151_uc010dxz.2_Missense_Mutation_p.A140T	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	166	Potential.									ovary(1)	1						TGCCGCAGGGCGTTCTGCTGC	0.657													10	14					0	0	0.004007	0	0		T	11537809	T	T	11537809	3	4	134	1	0	0	0	0	1	0	0	0	2789	768	27	1	1331	1	CCDC151	19	11537809	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	91433	11537809	47591174	1519	74177											
CNN1	1264	broad.mit.edu	37	chr19	11658614	11658614	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttccctgccccacctaggcGaagacgaaaggaaacaaggt	13	6	10	12	2	0	1	0	0	0	1	1	4	1	2	4	3	2	0	4	3	5	2	rs3826802	by1000genomes	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:11658614G>A	uc002msc.1	+	5	557	c.393G>A	c.(391-393)GCG>GCA	p.A131A	CNN1_uc010xmb.1_Silent_p.A81A|CNN1_uc010xmc.1_Silent_p.A81A	NM_001299	NP_001290	P51911	CNN1_HUMAN	calponin 1, basic, smooth muscle	131	CH.				actomyosin structure organization|regulation of smooth muscle contraction	cytoskeleton	actin binding|calmodulin binding				0						CCACCTAGGCGAAGACGAAAG	0.493													27	62					0	0	0.008361	0	0		A	11658614	A	A	11658614	2	1	134	1	0	0	0	0	0	0	0	1	3612	1045	37	1		1	CNN1	19	11658614	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	120805	11658614	47470369	1520	74178											
ZNF44	51710	broad.mit.edu	37	chr19	12383962	12383962	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagataacaatttcccacAttgcttacattcatagggtt	13	14	6	8	0	1	1	1	1	0	1	2	2	2	1	1	1	3	2	1	1	4	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:12383962A>G	uc010xmj.1	-	5	1457	c.1252T>C	c.(1252-1254)TGT>CGT	p.C418R	ZNF44_uc002mtl.2_Intron|ZNF44_uc010dyr.1_Intron|ZNF44_uc010xmi.1_RNA|ZNF44_uc002mtn.3_RNA|ZNF44_uc010dys.2_Missense_Mutation_p.C370R	NM_001164276	NP_001157748	P15621	ZNF44_HUMAN	zinc finger protein 44 isoform 1	418	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		Renal(1328;0.157)		GBM - Glioblastoma multiforme(1328;0.0164)|Lung(535;0.179)		AATTTCCCACATTGCTTACAT	0.418													65	111					0	0	0.01441	0	0		G	12383962	G	G	12383962	3	3	134	1	0	0	0	0	1	0	0	0	17937	217	8	3	743	3	ZNF44	19	12383962	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	725348	12383962	46745021	1521	74179											
ZNF799	90576	broad.mit.edu	37	chr19	12503015	12503015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacaaatctctctaacataCgacatctgtaaaaaatggga	18	9	5	9	1	3	0	0	0	3	0	4	2	3	1	0	1	3	1	0	1	7	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:12503015C>T	uc010dyt.2	-	4	347	c.197G>A	c.(196-198)CGT>CAT	p.R66H	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	66	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						CTCTAACATACGACATCTGTA	0.318													15	32					0	0	0.007413	0	0		T	12503015	T	T	12503015	3	4	134	1	0	0	0	0	1	0	0	0	18191	536	19	1	1738	1	ZNF799	19	12503015	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	119053	12503015	46625968	1522	74180											
NACC1	112939	broad.mit.edu	37	chr19	13249039	13249039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacatgtgcaccaacgcccGccgcgtcgtgcgcaagagct	8	5	12	16	7	0	1	0	0	0	1	1	2	0	1	3	0	4	3	3	0	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:13249039G>A	uc002mwm.2	+	6	1571	c.1403G>A	c.(1402-1404)CGC>CAC	p.R468H		NM_052876	NP_443108	Q96RE7	NACC1_HUMAN	transcriptional repressor NAC1	468	BEN.				negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|protein homooligomerization|transcription, DNA-dependent	cytoplasm|nuclear body					0						ACCAACGCCCGCCGCGTCGTG	0.617													122	175					0	0	0.01441	0	0		A	13249039	A	A	13249039	3	1	134	1	0	0	0	0	1	0	0	0	10153	1087	38	1	1421	1	NACC1	19	13249039	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	746024	13249039	45879944	1523	74181											
CACNA1A	773	broad.mit.edu	37	chr19	13346469	13346469	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagaagaatgcggatggTgtaaccctgacggagaagtt	13	7	14	7	2	0	4	0	1	0	3	0	7	0	5	2	3	2	2	2	3	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:13346469T>C	uc010dze.2	-	32	5265	c.5029A>G	c.(5029-5031)ACC>GCC	p.T1677A	CACNA1A_uc010xnd.1_Missense_Mutation_p.T382A|CACNA1A_uc002mwx.3_Missense_Mutation_p.T382A|CACNA1A_uc010dzc.2_Missense_Mutation_p.T1202A|CACNA1A_uc002mwy.3_Missense_Mutation_p.T1676A|CACNA1A_uc002mwv.3_Missense_Mutation_p.T193A	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1677	IV.|Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	ATGCGGATGGTGTAACCCTGA	0.562											OREG0025293	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	58					0	0	0.004878	0	0		C	13346469	C	C	13346469	3	2	134	1	0	0	0	0	1	0	0	0	2541	1696	59	3	2659	3	CACNA1A	19	13346469	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	97430	13346469	45782514	1524	74182											
CACNA1A	773	broad.mit.edu	37	chr19	13373629	13373629	+	Frame_Shift_Del	DEL	T	-	-																															gatttaatcgtgttgatgtcTtttcctttgctattgccact																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:13373629delT	uc010dze.2	-	25	4247	c.4011delA	c.(4009-4011)AAAfs	p.K1337fs	CACNA1A_uc010xnd.1_Frame_Shift_Del_p.K42fs|CACNA1A_uc002mwx.3_Frame_Shift_Del_p.K42fs|CACNA1A_uc010dzc.2_Frame_Shift_Del_p.K862fs|CACNA1A_uc002mwy.3_Frame_Shift_Del_p.K1336fs|CACNA1A_uc010xne.1_Frame_Shift_Del_p.K865fs	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1337	III.|Extracellular (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	TGTTGATGTCTTTTCCTTTGC	0.527											OREG0025294	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	28	---	---	---	---						.	-	13373629	-	-	13373629	7	5	134	1	0	1	0	1	0	0	0	0	2541	1606	56	0	3706	0	CACNA1A	19	13373629	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	27160	13373629	45755354	1525	74183											
CC2D1A	54862	broad.mit.edu	37	chr19	14029367	14029367	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggtgagcccgtggacctCtcctgcctgccccctccacc	3	7	11	20	2	1	1	0	1	1	0	3	2	2	2	8	3	3	0	8	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:14029367C>A	uc002mxo.2	+	8	1223	c.924C>A	c.(922-924)CTC>CTA	p.L308L	CC2D1A_uc002mxn.2_Silent_p.L207L|CC2D1A_uc002mxp.2_Silent_p.L308L|CC2D1A_uc010dzh.2_5'UTR|CC2D1A_uc002mxq.1_5'UTR	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	308	Pro-rich.				positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			CCGTGGACCTCTCCTGCCTGC	0.592													21	46					2.98393e-07	3.28788e-07	0.00278	1	0		A	14029367	A	A	14029367	2	1	134	1	0	0	0	0	0	0	0	1	2729	900	32	5		5	CC2D1A	19	14029367	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	655738	14029367	45099616	1526	74184											
CC2D1A	54862	broad.mit.edu	37	chr19	14034390	14034390	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaccactcaaaccaattcacCcagctgggcaacatcactga	15	6	5	15	0	3	1	3	1	0	0	3	1	3	1	3	1	4	2	3	1	4	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:14034390C>T	uc002mxo.2	+	16	2093	c.1794C>T	c.(1792-1794)ACC>ACT	p.T598T	CC2D1A_uc002mxp.2_Silent_p.T598T|CC2D1A_uc010dzh.2_Silent_p.T167T|CC2D1A_uc002mxq.1_Silent_p.T243T	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	598					positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			ACCAATTCACCCAGCTGGGCA	0.592													53	90					0	0	0.01441	0	0		T	14034390	T	T	14034390	2	4	134	1	0	0	0	0	0	0	0	1	2729	610	22	4		4	CC2D1A	19	14034390	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	5023	14034390	45094593	1527	74185											
PKN1	5585	broad.mit.edu	37	chr19	14582559	14582559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacagccgcggagcaggcagCcttcctggacttcgacttcg	7	7	12	15	4	0	0	0	0	0	0	3	3	1	2	3	3	3	2	3	3	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:14582559C>T	uc002myp.2	+	22	2960	c.2792C>T	c.(2791-2793)GCC>GTC	p.A931V	PKN1_uc002myq.2_Missense_Mutation_p.A937V|PKN1_uc002myr.2_Missense_Mutation_p.A271V	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	931	AGC-kinase C-terminal.				activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						GAGCAGGCAGCCTTCCTGGAC	0.542													5	8					0	0	0.001168	0	0		T	14582559	T	T	14582559	3	4	134	1	0	0	0	0	1	0	0	0	11998	739	26	2	2921	2	PKN1	19	14582559	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	548169	14582559	44546424	1528	74186											
GIPC1	10755	broad.mit.edu	37	chr19	14593766	14593766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagagggggcgcctttttcCgccgccccagtcccagcggc	4	7	13	17	4	0	1	0	0	0	1	2	1	2	1	6	3	1	0	6	3	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:14593766C>T	uc002myt.2	-	4	293	c.23G>A	c.(22-24)CGG>CAG	p.R8Q	GIPC1_uc002myu.2_Missense_Mutation_p.R8Q|GIPC1_uc002myv.2_Intron|GIPC1_uc002myw.2_Intron|GIPC1_uc002myx.2_Missense_Mutation_p.R8Q|GIPC1_uc002myy.2_Intron	NM_005716	NP_005707	O14908	GIPC1_HUMAN	regulator of G-protein signalling 19 interacting	8					endothelial cell migration|G-protein coupled receptor protein signaling pathway|glutamate secretion|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|protein targeting|regulation of protein stability|regulation of synaptic plasticity|synaptic transmission	cell cortex|dendritic shaft|dendritic spine|membrane fraction|soluble fraction|synaptic vesicle|vesicle membrane	actin binding|myosin binding|protein homodimerization activity|receptor binding				0						CGCCTTTTTCCGCCGCCCCAG	0.687													10	21					0	0	0.013537	0	0		T	14593766	T	T	14593766	3	4	134	1	0	0	0	0	1	0	0	0	6407	652	23	1	1002	1	GIPC1	19	14593766	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	11207	14593766	44535217	1529	74187											
EMR3	84658	broad.mit.edu	37	chr19	14772873	14772873	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaacttccttcgacattgTaacacacagcgttaaatcca	15	10	5	11	2	0	1	0	0	0	1	3	2	2	1	2	0	3	2	2	0	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:14772873T>C	uc002mzi.3	-	4	405	c.257A>G	c.(256-258)TAC>TGC	p.Y86C	EMR3_uc010dzp.2_Intron|EMR3_uc010xnv.1_Intron	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	86	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						TTCGACATTGTAACACACAGC	0.363													9	201					0	0	0.004482	0	0		C	14772873	C	C	14772873	3	2	134	1	0	0	0	0	1	0	0	0	5114	1638	57	3	1753	3	EMR3	19	14772873	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	179107	14772873	44356110	1530	74188											
NOTCH3	4854	broad.mit.edu	37	chr19	15281319	15281319	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagcgcccgccactagcAgtggcagcagcgggacgctg	9	3	15	14	4	0	1	0	0	0	1	0	2	0	2	2	2	4	4	2	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:15281319A>C	uc002nan.2	-	27	5013	c.4937T>G	c.(4936-4938)CTG>CGG	p.L1646R		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1646	Helical; (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CGCCACTAGCAGTGGCAGCAG	0.682													11	18					0	0	0.00278	0	0		C	15281319	C	C	15281319	3	2	134	1	0	0	0	0	1	0	0	0	10569	188	7	5	2056	5	NOTCH3	19	15281319	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	508446	15281319	43847664	1531	74189											
CYP4F22	126410	broad.mit.edu	37	chr19	15648443	15648443	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgaagccttacatgaaGatcttcaaccagagcgctga	13	9	8	11	1	2	5	1	3	1	2	3	5	3	5	3	0	4	1	3	0	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:15648443G>T	uc002nbh.3	+	6	686	c.519G>T	c.(517-519)AAG>AAT	p.K173N		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	173						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						CTTACATGAAGATCTTCAACC	0.557													70	142					1.4533e-46	1.73225e-46	0.01441	1	0		T	15648443	T	T	15648443	3	4	134	1	0	0	0	0	1	0	0	0	4192	933	33	5	533	5	CYP4F22	19	15648443	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	367124	15648443	43480540	1532	74190											
CYP4F2	8529	broad.mit.edu	37	chr19	16000362	16000362	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggcatctgtgaagtcgtgCaccaggcggcaggccctgcg	7	6	15	13	4	1	1	0	1	1	0	2	1	1	1	2	4	2	3	2	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:16000362C>T	uc002nbs.1	-	7	839	c.789G>A	c.(787-789)GTG>GTA	p.V263V	CYP4F2_uc010xot.1_Silent_p.V114V|CYP4F2_uc010xou.1_Silent_p.V114V	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	263					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						TGAAGTCGTGCACCAGGCGGC	0.557													80	148					0	0	0.01441	0	0		T	16000362	T	T	16000362	2	4	134	1	0	0	0	0	0	0	0	1	4191	697	25	2		2	CYP4F2	19	16000362	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	351919	16000362	43128621	1533	74191											
OR10H4	126541	broad.mit.edu	37	chr19	16060359	16060359	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccaccattttttctgtcAtgtgctttccctcttgaagt	6	18	6	11	0	3	1	1	1	2	0	5	2	5	1	3	0	1	1	3	0	1	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:16060359A>G	uc010xov.1	+	1	542	c.542A>G	c.(541-543)CAT>CGT	p.H181R		NM_001004465	NP_001004465	Q8NGA5	O10H4_HUMAN	olfactory receptor, family 10, subfamily H,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						TTTTTCTGTCATGTGCTTTCC	0.473													107	198					0	0	0.01441	0	0		G	16060359	G	G	16060359	3	3	134	1	0	0	0	0	1	0	0	0	10927	217	8	3	544	3	OR10H4	19	16060359	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	59997	16060359	43068624	1534	74192											
FAM129C	199786	broad.mit.edu	37	chr19	17648228	17648228	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactccctcttggaagtgccTgtgagcttcccgctgttcct	4	13	10	14	1	1	1	0	1	1	0	4	3	4	2	4	1	2	3	4	1	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:17648228T>C	uc010xpr.1	+	6	702	c.564T>C	c.(562-564)CCT>CCC	p.P188P	FAM129C_uc010xpq.1_Silent_p.P188P|FAM129C_uc010xps.1_Silent_p.P157P|FAM129C_uc010xpt.1_RNA|FAM129C_uc002ngy.3_5'Flank|FAM129C_uc010xpu.1_5'Flank|FAM129C_uc002ngz.3_5'Flank|FAM129C_uc010eaw.2_5'Flank|FAM129C_uc002nhb.2_5'Flank	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	188											0						TGGAAGTGCCTGTGAGCTTCC	0.557													7	266					0	0	0.00308	0	0		C	17648228	C	C	17648228	2	2	134	1	0	0	0	0	0	0	0	1	5449	1567	55	3		3	FAM129C	19	17648228	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	1587869	17648228	41480755	1535	74193											
KCNN1	3780	broad.mit.edu	37	chr19	18084793	18084793	+	Frame_Shift_Del	DEL	C	-	-																															ccggaccctgaggccggccaCcccccacaacccccgcacag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:18084793delC	uc002nht.2	+	3	406	c.96delC	c.(94-96)CACfs	p.H32fs	KCNN1_uc010xqa.1_Frame_Shift_Del_p.H32fs	NM_002248	NP_002239	Q92952	KCNN1_HUMAN	potassium intermediate/small conductance	32					synaptic transmission	voltage-gated potassium channel complex	calmodulin binding|small conductance calcium-activated potassium channel activity				0						AGGCCGGCCACCCCCCACAAC	0.746													8	11	---	---	---	---						.	-	18084793	-	-	18084793	7	5	134	1	0	1	0	1	0	0	0	0	8094	506	18	0	98	0	KCNN1	19	18084793	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	436565	18084793	41044190	1536	74194											
ELL	8178	broad.mit.edu	37	chr19	18561518	18561519	+	Frame_Shift_Del	DEL	CA	-	-																															ggcagccgcctctccgtgctCacagtctcggccgctgtggc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:18561518_18561519delCA	uc002njh.2	-	8	1305_1306	c.1233_1234delTG	c.(1231-1236)TGTGAGfs	p.C411fs	ELL_uc010ebq.2_Frame_Shift_Del_p.C354fs|ELL_uc002njg.2_Frame_Shift_Del_p.C278fs	NM_006532	NP_006523	P55199	ELL_HUMAN	elongation factor RNA polymerase II	411_412					positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	Cajal body|nuclear speck|transcription elongation factor complex	protein binding			lung(1)	1				GBM - Glioblastoma multiforme(1328;7.81e-07)		TCTCCGTGCTCACAGTCTCGGC	0.738			T	MLL	AL								4	7	---	---	---	---						.	-	18561519	-	-	18561518	7	5	134	1	0	1	0	1	0	0	0	0	5070	835	29	0	651	0	ELL	19	18561518	Frame_Shift_Del	DEL	CA	TCGA-CG-4442-01A-01D-1158-08	476725	18561518	40567465	1537	74195											
FKBP8	23770	broad.mit.edu	37	chr19	18649226	18649226	+	Frame_Shift_Del	DEL	G	-	-																															ccaggcacagggccgcgtgcGgggggatgtatgggctcctg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:18649226delG	uc002njk.1	-	5	682	c.569delC	c.(568-570)CCGfs	p.P190fs	FKBP8_uc002nji.1_Frame_Shift_Del_p.P28fs|FKBP8_uc010xqi.1_Frame_Shift_Del_p.P219fs|FKBP8_uc002njj.1_Frame_Shift_Del_p.P191fs|FKBP8_uc002njl.1_Frame_Shift_Del_p.P191fs|FKBP8_uc002njm.1_Frame_Shift_Del_p.P190fs|FKBP8_uc010ebr.1_Frame_Shift_Del_p.P29fs|FKBP8_uc002njn.2_RNA	NM_012181	NP_036313	Q14318	FKBP8_HUMAN	FK506-binding protein 8	190	PPIase FKBP-type.				apoptosis|interspecies interaction between organisms|intracellular signal transduction|protein folding	integral to endoplasmic reticulum membrane|mitochondrial membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|protein binding			ovary(1)	1						GGCCGCGTGCGGGGGGATGTA	0.682													20	39	---	---	---	---						.	-	18649226	-	-	18649226	7	5	134	1	0	1	0	1	0	0	0	0	5928	1116	39	0	689	0	FKBP8	19	18649226	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	87708	18649226	40479757	1538	74196											
TMEM161A	54929	broad.mit.edu	37	chr19	19232368	19232368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcctccgacatggtcagtgCgtcccggtgggtctgggcca	4	9	15	13	3	2	0	1	0	1	0	5	1	5	0	4	4	1	0	4	4	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:19232368C>T	uc002nlg.2	-	8	796	c.766G>A	c.(766-768)GCA>ACA	p.A256T	TMEM161A_uc010eca.2_RNA|TMEM161A_uc002nlh.2_Missense_Mutation_p.A231T|TMEM161A_uc002nli.2_Missense_Mutation_p.A153T|TMEM161A_uc002nlj.2_Missense_Mutation_p.A131T	NM_017814	NP_060284	Q9NX61	T161A_HUMAN	transmembrane protein 161A precursor	256	Extracellular (Potential).				cellular response to oxidative stress|cellular response to UV|negative regulation of apoptosis|positive regulation of DNA repair|response to retinoic acid	integral to membrane				breast(2)	2			OV - Ovarian serous cystadenocarcinoma(5;1.19e-05)|Epithelial(12;0.0011)			ATGGTCAGTGCGTCCCGGTGG	0.657													34	37					0	0	0.004878	0	0		T	19232368	T	T	19232368	3	4	134	1	0	0	0	0	1	0	0	0	16101	768	27	1	693	1	TMEM161A	19	19232368	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	583142	19232368	39896615	1539	74197											
ZNF682	91120	broad.mit.edu	37	chr19	20133814	20133814	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcattcatccaacctaccTgggggtttggctatggtctc	6	15	9	11	0	3	0	2	0	1	0	5	0	4	0	3	4	2	2	3	4	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:20133814T>C	uc002noq.2	-	3	348	c.225A>G	c.(223-225)CCA>CCG	p.P75P	ZNF682_uc002noo.2_Silent_p.P43P|ZNF682_uc002nop.2_Silent_p.P43P|ZNF682_uc010eck.2_Intron	NM_033196	NP_149973	O95780	ZN682_HUMAN	zinc finger protein 682 isoform 1	75	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						CCAACCTACCTGGGGGTTTGG	0.473													76	209					0	0	0.01441	0	0		C	20133814	C	C	20133814	2	2	134	1	0	0	0	0	0	0	0	1	18114	1594	55	3		3	ZNF682	19	20133814	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	901446	20133814	38995169	1540	74198											
ZNF90	7643	broad.mit.edu	37	chr19	20236400	20236400	+	RNA	DEL	T	-	-																															tttttatgaaggatttatccTtttttttcagtgtgctgttt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:20236400delT	uc002nos.1	+	5		c.1076delT			ZNF90_uc002not.1_RNA			Q03938	ZNF90_HUMAN	Synthetic construct DNA, clone: pF1KB9685, Homo sapiens ZNF90 gene for zinc finger protein 90, without stop codon, in Flexi system.							Golgi apparatus|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GGATTTATCCTTTTTTTTCAG	0.353													3	5	---	---	---	---						.	-	20236400	-	-	20236400	6	5	134	0	1	1	0	1	0	0	0	0	18224	1624	56	0		0	ZNF90	19	20236400	RNA	DEL	T	TCGA-CG-4442-01A-01D-1158-08	102586	20236400	38892583	1541	74199											
ZNF430	80264	broad.mit.edu	37	chr19	21240210	21240210	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccttactacacataagataAttcatgctggagagaaacct	15	10	6	10	0	1	2	1	0	0	2	1	4	1	3	2	1	4	1	2	1	5	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:21240210A>G	uc002npj.2	+	5	1206	c.1096A>G	c.(1096-1098)ATT>GTT	p.I366V	ZNF430_uc002npk.2_Missense_Mutation_p.I365V	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	366	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						ACATAAGATAATTCATGCTGG	0.348													56	134					0	0	0.01441	0	0		G	21240210	G	G	21240210	3	3	134	1	0	0	0	0	1	0	0	0	17929	101	4	3	1114	3	ZNF430	19	21240210	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1003810	21240210	37888773	1542	74200											
UQCRFS1	7386	broad.mit.edu	37	chr19	29698962	29698962	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacctttcctagcctcgctGctttctcttgaagacttcgt	7	15	6	13	2	1	2	0	1	1	1	5	2	2	2	3	0	3	2	3	0	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:29698962G>A	uc002nsd.2	-	2	429	c.318C>T	c.(316-318)AGC>AGT	p.S106S		NM_006003	NP_005994	P47985	UCRI_HUMAN	ubiquinol-cytochrome c reductase, Rieske	106					respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex III	2 iron, 2 sulfur cluster binding|metal ion binding|ubiquinol-cytochrome-c reductase activity				0	Breast(6;0.0545)|Esophageal squamous(110;0.239)		Lung(7;0.092)			TAGCCTCGCTGCTTTCTCTTG	0.473													44	85					0	0	0.01441	0	0		A	29698962	A	A	29698962	2	1	134	1	0	0	0	0	0	0	0	1	17047	1310	46	2		2	UQCRFS1	19	29698962	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	8458752	29698962	29430021	1543	74201											
ZNF536	9745	broad.mit.edu	37	chr19	30935815	30935815	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caaagccggcctgagcgagcCcagccagctctatggcaagg	10	4	13	14	2	1	1	0	1	1	0	1	2	1	1	4	3	5	2	4	3	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:30935815C>A	uc002nsu.1	+	2	1484	c.1346C>A	c.(1345-1347)CCC>CAC	p.P449H	ZNF536_uc010edd.1_Missense_Mutation_p.P449H	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	449					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CTGAGCGAGCCCAGCCAGCTC	0.657													29	50					7.26314e-15	8.20058e-15	0.007291	1	0		A	30935815	A	A	30935815	3	1	134	1	0	0	0	0	1	0	0	0	17999	623	22	5	1348	5	ZNF536	19	30935815	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1236853	30935815	28193168	1544	74202											
ZNF536	9745	broad.mit.edu	37	chr19	31039827	31039827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtgcatggaccggccacgtgGaccctgcattttgtaacttc	7	11	11	12	2	0	0	0	0	0	0	1	2	0	2	3	3	3	3	3	3	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:31039827G>A	uc002nsu.1	+	4	3439	c.3301G>A	c.(3301-3303)GAC>AAC	p.D1101N	ZNF536_uc010edd.1_Missense_Mutation_p.D1101N	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CGGCCACGTGGACCCTGCATT	0.542													5	123					0	0	0.000602	0	0		A	31039827	A	A	31039827	3	1	134	1	0	0	0	0	1	0	0	0	17999	1174	41	4	3311	4	ZNF536	19	31039827	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	104012	31039827	28089156	1545	74203											
RGS9BP	388531	broad.mit.edu	37	chr19	33167385	33167385	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctggccgccgacgagcgCgccgagttcgagcggctctg	4	5	17	15	8	1	0	0	0	1	0	2	4	1	0	4	3	2	2	4	3	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:33167385C>T	uc002ntp.1	+	1	1073	c.216C>T	c.(214-216)CGC>CGT	p.R72R	ANKRD27_uc002ntn.1_5'Flank|ANKRD27_uc002nto.1_5'Flank	NM_207391	NP_997274	Q6ZS82	R9BP_HUMAN	RGS9 anchor protein	72	Cytoplasmic (Potential).				negative regulation of signal transduction	integral to membrane				central_nervous_system(1)	1	Esophageal squamous(110;0.137)					CCGACGAGCGCGCCGAGTTCG	0.731													5	7					0	0	0.001984	0	0		T	33167385	T	T	33167385	2	4	134	1	0	0	0	0	0	0	0	1	13339	755	27	1		1	RGS9BP	19	33167385	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2127558	33167385	25961598	1546	74204											
WDR88	126248	broad.mit.edu	37	chr19	33638559	33638559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcttatttccagagtcattgCcgcatcctatgataagacag	11	13	7	10	1	2	3	1	1	1	2	4	3	4	3	3	0	1	1	3	0	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:33638559C>T	uc002nui.2	+	4	563	c.485C>T	c.(484-486)GCC>GTC	p.A162V		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	162	WD 2.									ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					AGAGTCATTGCCGCATCCTAT	0.398													22	64					0	0	0.003954	0	0		T	33638559	T	T	33638559	3	4	134	1	0	0	0	0	1	0	0	0	17361	739	26	2	499	2	WDR88	19	33638559	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	471174	33638559	25490424	1547	74205											
SCN1B	6324	broad.mit.edu	37	chr19	35523445	35523445	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccacagtgtcctcagcctgCgggggctgcgtggaggtgga	5	7	17	12	2	1	0	1	0	0	0	2	2	2	2	3	5	3	1	3	5	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:35523445C>T	uc002nxp.2	+	2	245	c.54C>T	c.(52-54)TGC>TGT	p.C18C	SCN1B_uc002nxo.1_Silent_p.C18C|SCN1B_uc010xsg.1_Silent_p.C18C	NM_001037	NP_001028	Q07699	SCN1B_HUMAN	sodium channel, voltage-gated, type I, beta	18					axon guidance|synaptic transmission	integral to membrane	voltage-gated sodium channel activity			ovary(1)|central_nervous_system(1)	2	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			CCTCAGCCTGCGGGGGCTGCG	0.612													70	117					0	0	0.01441	0	0		T	35523445	T	T	35523445	2	4	134	1	0	0	0	0	0	0	0	1	13940	776	27	1		1	SCN1B	19	35523445	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1884886	35523445	23605538	1548	74206											
FAM187B	148109	broad.mit.edu	37	chr19	35719446	35719446	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagtaccagtgcgcccccgaGgagttgcaatacaggagaat	12	7	12	10	2	0	1	0	0	0	1	0	4	0	2	3	2	4	3	3	2	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:35719446G>T	uc002nyk.1	-	1	183	c.138C>A	c.(136-138)TCC>TCA	p.S46S		NM_152481	NP_689694	Q17R55	F187B_HUMAN	family with sequence similarity 187, member B	46	Extracellular (Potential).					integral to membrane				ovary(2)	2						GCGCCCCCGAGGAGTTGCAAT	0.532													34	57					1.36161e-19	1.55834e-19	0.004289	1	0		T	35719446	T	T	35719446	2	4	134	1	0	0	0	0	0	0	0	1	5524	987	35	5		5	FAM187B	19	35719446	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	196001	35719446	23409537	1549	74207											
GAPDHS	26330	broad.mit.edu	37	chr19	36034357	36034357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccagcctccactggggctgCgaaagctgtgaccaaagtca	10	6	11	14	1	1	1	1	1	0	0	2	2	2	1	4	2	3	2	4	2	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:36034357C>T	uc002oaf.1	+	8	973	c.857C>T	c.(856-858)GCG>GTG	p.A286V	uc010eec.1_RNA|uc002oag.2_Intron|TMEM147_uc002oai.1_5'Flank|TMEM147_uc002oaj.1_5'Flank|TMEM147_uc002oak.1_5'Flank	NM_014364	NP_055179	O14556	G3PT_HUMAN	glyceraldehyde-3-phosphate dehydrogenase,	286					gluconeogenesis|glycolysis|positive regulation of glycolysis|sperm motility	cytosol	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity|NAD binding|protein binding				0	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		NADH(DB00157)	ACTGGGGCTGCGAAAGCTGTG	0.622													68	111					0	0	0.01441	0	0		T	36034357	T	T	36034357	3	4	134	1	0	0	0	0	1	0	0	0	6252	768	27	1	887	1	GAPDHS	19	36034357	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	314911	36034357	23094626	1550	74208											
MLL4	9757	broad.mit.edu	37	chr19	36223002	36223002	+	Frame_Shift_Del	DEL	G	-	-																															tcgccatcccggaggcccttGgggggtgtctcctttggccc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:36223002delG	uc010eei.2	+	28	5631	c.5631delG	c.(5629-5631)TTGfs	p.L1877fs		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1877					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGAGGCCCTTGGGGGGTGTCT	0.672													9	10	---	---	---	---						.	-	36223002	-	-	36223002	7	5	134	1	0	1	0	1	0	0	0	0	9641	1339	47	0	5737	0	MLL4	19	36223002	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	188645	36223002	22905981	1551	74209											
KIRREL2	84063	broad.mit.edu	37	chr19	36351855	36351855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagcccgtgtccgtggacGtgggggaagacgcttccttc	5	8	16	12	5	0	1	0	0	0	1	3	4	2	4	3	4	1	1	3	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:36351855G>A	uc002ocb.3	+	8	1185	c.973G>A	c.(973-975)GTG>ATG	p.V325M	KIRREL2_uc002obz.3_Missense_Mutation_p.V325M|KIRREL2_uc002oca.3_Missense_Mutation_p.V275M|KIRREL2_uc002occ.3_Missense_Mutation_p.V272M|KIRREL2_uc002ocd.3_Missense_Mutation_p.V322M	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	325	Extracellular (Potential).|Ig-like C2-type 4.				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GTCCGTGGACGTGGGGGAAGA	0.662													19	46					0	0	0.008871	0	0		A	36351855	A	A	36351855	3	1	134	1	0	0	0	0	1	0	0	0	8341	1145	40	1	1003	1	KIRREL2	19	36351855	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	128853	36351855	22777128	1552	74210											
ZNF382	84911	broad.mit.edu	37	chr19	37117125	37117125	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcatcaaccacaaaaaacTaattaaggagagaagtaata	22	8	5	6	0	2	1	2	0	0	1	2	3	2	2	1	1	2	1	1	1	9	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:37117125T>G	uc002oek.2	+	5	439	c.326T>G	c.(325-327)CTA>CGA	p.L109R	ZNF382_uc010efa.2_Missense_Mutation_p.L60R|ZNF382_uc010efb.2_Missense_Mutation_p.L108R|ZNF382_uc002oel.2_Missense_Mutation_p.L108R	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	109	Represses transcription (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			CACAAAAAACTAATTAAGGAG	0.323													21	40					0	0	0.010504	0	0		G	37117125	G	G	37117125	3	3	134	1	0	0	0	0	1	0	0	0	17898	1522	53	5	336	5	ZNF382	19	37117125	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	765270	37117125	22011858	1553	74211											
ZNF585B	92285	broad.mit.edu	37	chr19	37697974	37697974	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatgatcctctggagccaGggctgaggatttctggggtg	6	10	16	9	0	2	2	0	2	2	0	3	4	3	4	3	5	1	1	3	5	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:37697974G>T	uc002ofq.2	-	2	294	c.40C>A	c.(40-42)CTG>ATG	p.L14M	ZNF585B_uc002ofr.1_Translation_Start_Site	NM_152279	NP_689492	Q52M93	Z585B_HUMAN	zinc finger protein 585B	14					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCTGGAGCCAGGGCTGAGGAT	0.522													41	125					2.22609e-26	2.59947e-26	0.01441	1	0		T	37697974	T	T	37697974	3	4	134	1	0	0	0	0	1	0	0	0	18043	991	35	5	2285	5	ZNF585B	19	37697974	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	580849	37697974	21431009	1554	74212											
SIPA1L3	23094	broad.mit.edu	37	chr19	38610300	38610300	+	Frame_Shift_Del	DEL	G	-	-																															gtggcccaggactacgcccaGggggtggaaatcgactgcat																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:38610300delG	uc002ohk.2	+	9	3155	c.2646delG	c.(2644-2646)CAGfs	p.Q882fs		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	882					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			ACTACGCCCAGGGGGTGGAAA	0.572													60	115	---	---	---	---						.	-	38610300	-	-	38610300	7	5	134	1	0	1	0	1	0	0	0	0	14356	991	35	0	2672	0	SIPA1L3	19	38610300	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	912326	38610300	20518683	1555	74213											
SIPA1L3	23094	broad.mit.edu	37	chr19	38643562	38643562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcggcgactcctcttccGgcggcctgaccagccaggag	6	5	13	17	4	1	1	0	1	1	0	3	3	3	2	6	4	2	0	6	4	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:38643562G>A	uc002ohk.2	+	13	4125	c.3616G>A	c.(3616-3618)GGC>AGC	p.G1206S		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1206					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CTCCTCTTCCGGCGGCCTGAC	0.667													44	58					0	0	0.01441	0	0		A	38643562	A	A	38643562	3	1	134	1	0	0	0	0	1	0	0	0	14356	1116	39	1	3658	1	SIPA1L3	19	38643562	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	33262	38643562	20485421	1556	74214											
RYR1	6261	broad.mit.edu	37	chr19	38990588	38990588	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagaaaaccgggtgcacctgGgacacgccatcatgtccttc	11	7	10	13	2	1	1	1	0	0	1	3	2	2	2	4	2	2	1	4	2	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:38990588G>T	uc002oit.2	+	45	7385	c.7255G>T	c.(7255-7257)GGA>TGA	p.G2419*	RYR1_uc002oiu.2_Nonsense_Mutation_p.G2419*|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2419	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GGTGCACCTGGGACACGCCAT	0.637													36	69					6.2361e-21	7.16564e-21	0.007835	1	0		T	38990588	T	T	38990588	4	4	134	1	0	0	0	0	0	1	0	0	13793	1233	43	5	7433	5	RYR1	19	38990588	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	347026	38990588	20138395	1557	74215											
CAPN12	147968	broad.mit.edu	37	chr19	39228150	39228150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgccggagttgaagccaCgcacccagcggccttggaag	8	5	13	15	4	0	1	0	1	0	0	1	3	1	3	5	3	2	2	5	3	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:39228150C>T	uc002ojd.1	-	9	1403	c.1094G>A	c.(1093-1095)CGT>CAT	p.R365H	CAPN12_uc010egd.1_5'Flank|CAPN12_uc002ojc.1_5'Flank	NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	365	Domain III.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			GTTGAAGCCACGCACCCAGCG	0.706													30	41					0	0	0.004878	0	0		T	39228150	T	T	39228150	3	4	134	1	0	0	0	0	1	0	0	0	2628	536	19	1	1117	1	CAPN12	19	39228150	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	237562	39228150	19900833	1558	74216											
NCCRP1	342897	broad.mit.edu	37	chr19	39691292	39691292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccattatggtcccggtgtgCgctttatccacttcctgcac	5	13	9	14	2	0	0	0	0	0	0	3	0	3	0	4	2	2	2	4	2	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:39691292C>T	uc002okq.1	+	6	743	c.724C>T	c.(724-726)CGC>TGC	p.R242C		NM_001001414	NP_001001414	Q6ZVX7	NCRP1_HUMAN	non-specific cytotoxic cell receptor protein 1	242	FBA.				protein catabolic process					ovary(1)	1						TCCCGGTGTGCGCTTTATCCA	0.622													179	343					0	0	0.01441	0	0		T	39691292	T	T	39691292	3	4	134	1	0	0	0	0	1	0	0	0	10232	768	27	1	746	1	NCCRP1	19	39691292	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	463142	39691292	19437691	1559	74217											
IL28B	282617	broad.mit.edu	37	chr19	39734729	39734729	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagggctgggtcagtgtcAgcggtggcctccagaacctt	6	8	14	13	1	2	1	2	0	0	1	3	1	3	1	4	4	2	1	4	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:39734729A>G	uc010xut.1	-	3	331	c.327T>C	c.(325-327)GCT>GCC	p.A109A	IL28B_uc010xuu.1_Silent_p.A109A	NM_172139	NP_742151	Q8IZI9	IL28B_HUMAN	interleukin 28B	109					response to virus	extracellular space	cytokine activity				0	all_cancers(60;2.81e-07)|all_lung(34;7.81e-08)|Lung NSC(34;9.29e-08)|all_epithelial(25;3.9e-07)|Ovarian(47;0.0315)		Epithelial(26;1.55e-27)|all cancers(26;1.41e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			GGTCAGTGTCAGCGGTGGCCT	0.572													18	57					0	0	0.00278	0	0		G	39734729	G	G	39734729	2	3	134	1	0	0	0	0	0	0	0	1	7699	175	7	3		3	IL28B	19	39734729	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	43437	39734729	19394254	1560	74218											
FCGBP	8857	broad.mit.edu	37	chr19	40362848	40362848	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacaggtcgtatacgcattgGcggaagtactcagagggact	11	8	13	9	3	1	1	1	0	0	1	2	3	1	3	0	4	2	3	0	4	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:40362848G>C	uc002omp.3	-	32	15230	c.15222C>G	c.(15220-15222)CGC>CGG	p.R5074R		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	5074						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			ATACGCATTGGCGGAAGTACT	0.667													11	297					0	0	0.001855	0	0		C	40362848	C	C	40362848	2	2	134	1	0	0	0	0	0	0	0	1	5792	1190	42	5		5	FCGBP	19	40362848	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	628119	40362848	18766135	1561	74219											
FCGBP	8857	broad.mit.edu	37	chr19	40424239	40424239	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtgcaggcgggacagttgTtctggcagccatcctcacac	7	8	14	12	1	2	0	1	0	1	0	3	1	3	1	2	4	2	4	2	4	0	2	rs144589100		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:40424239T>G	uc002omp.3	-	4	1972	c.1964A>C	c.(1963-1965)AAC>ACC	p.N655T		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	655	VWFD 1.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GGGACAGTTGTTCTGGCAGCC	0.617													187	304					0	0	0.01441	0	0		G	40424239	G	G	40424239	3	3	134	1	0	0	0	0	1	0	0	0	5792	1725	60	5	14385	5	FCGBP	19	40424239	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	61391	40424239	18704744	1562	74220											
SPTBN4	57731	broad.mit.edu	37	chr19	41008168	41008168	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaactccttaagtggggTgcagcagcaactccaggctt	9	9	11	12	0	0	0	0	0	0	0	2	0	2	0	3	3	6	4	3	3	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:41008168T>C	uc002ony.2	+	9	1117	c.1031T>C	c.(1030-1032)GTG>GCG	p.V344A	SPTBN4_uc002onx.2_Missense_Mutation_p.V344A|SPTBN4_uc002onz.2_Missense_Mutation_p.V344A	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	344	Spectrin 1.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TTAAGTGGGGTGCAGCAGCAA	0.607													42	84					0	0	0.010771	0	0		C	41008168	C	C	41008168	3	2	134	1	0	0	0	0	1	0	0	0	15146	1696	59	3	1061	3	SPTBN4	19	41008168	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	583929	41008168	18120815	1563	74221											
HNRNPUL1	11100	broad.mit.edu	37	chr19	41807512	41807512	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccagcgcaaagctattgtAatttgtcccactgacgagga	11	11	9	10	2	0	1	0	1	0	0	2	3	2	2	2	1	2	3	2	1	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:41807512A>G	uc002oqb.3	+	11	1879	c.1590A>G	c.(1588-1590)GTA>GTG	p.V530V	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Silent_p.V430V|HNRNPUL1_uc002oqa.3_Silent_p.V430V|HNRNPUL1_uc010ehm.2_Silent_p.V530V|HNRNPUL1_uc002oqc.3_Silent_p.V416V|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Silent_p.V430V|HNRNPUL1_uc010ehn.2_Silent_p.V430V|HNRNPUL1_uc010eho.2_Silent_p.V430V|HNRNPUL1_uc010xvy.1_Silent_p.V430V|HNRNPUL1_uc010ehp.2_Silent_p.V386V|HNRNPUL1_uc002oqf.3_5'Flank	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	530	Necessary for interaction with TP53.|Necessary for interaction with BRD7 and transcriptional activation.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						AAGCTATTGTAATTTGTCCCA	0.453													5	244					0	0	0.001168	0	0		G	41807512	G	G	41807512	2	3	134	1	0	0	0	0	0	0	0	1	7290	349	13	3		3	HNRNPUL1	19	41807512	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	799344	41807512	17321471	1564	74222											
HNRNPUL1	11100	broad.mit.edu	37	chr19	41807560	41807560	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccgaacaataaagcgaacCgacgaggaagggaaggatgt	17	3	14	7	4	0	0	0	0	0	0	0	8	0	3	2	3	3	0	2	3	7	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:41807560C>T	uc002oqb.3	+	11	1927	c.1638C>T	c.(1636-1638)ACC>ACT	p.T546T	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Silent_p.T446T|HNRNPUL1_uc002oqa.3_Silent_p.T446T|HNRNPUL1_uc010ehm.2_Silent_p.T546T|HNRNPUL1_uc002oqc.3_Silent_p.T432T|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Silent_p.T446T|HNRNPUL1_uc010ehn.2_Silent_p.T446T|HNRNPUL1_uc010eho.2_Silent_p.T446T|HNRNPUL1_uc010xvy.1_Silent_p.T446T|HNRNPUL1_uc010ehp.2_Silent_p.T402T|HNRNPUL1_uc002oqf.3_5'Flank	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	546	Necessary for interaction with TP53.|Necessary for interaction with BRD7 and transcriptional activation.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						TAAAGCGAACCGACGAGGAAG	0.483													64	109					0	0	0.01441	0	0		T	41807560	T	T	41807560	2	4	134	1	0	0	0	0	0	0	0	1	7290	639	23	1		1	HNRNPUL1	19	41807560	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	48	41807560	17321423	1565	74223											
HNRNPUL1	11100	broad.mit.edu	37	chr19	41810111	41810111	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caataagaacagcaacatccCtggctcaagcgccaatacca	16	5	6	14	1	1	1	1	0	0	1	2	1	2	1	3	1	5	2	3	1	7	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:41810111C>A	uc002oqb.3	+	13	2496	c.2207C>A	c.(2206-2208)CCT>CAT	p.P736H	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Missense_Mutation_p.P636H|HNRNPUL1_uc002oqa.3_Missense_Mutation_p.P636H|HNRNPUL1_uc010ehm.2_Missense_Mutation_p.P736H|HNRNPUL1_uc002oqc.3_Missense_Mutation_p.P622H|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Missense_Mutation_p.P636H|HNRNPUL1_uc010ehn.2_Missense_Mutation_p.P636H|HNRNPUL1_uc010eho.2_Missense_Mutation_p.P636H|HNRNPUL1_uc010xvy.1_Missense_Mutation_p.P636H|HNRNPUL1_uc010ehp.2_Missense_Mutation_p.P592H|HNRNPUL1_uc002oqf.3_Missense_Mutation_p.P260H	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	736	Pro-rich.|Necessary for interaction with TP53.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						AGCAACATCCCTGGCTCAAGC	0.468													30	122					1.06647e-15	1.20615e-15	0.003755	1	0		A	41810111	A	A	41810111	3	1	134	1	0	0	0	0	1	0	0	0	7290	681	24	5	2257	5	HNRNPUL1	19	41810111	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2551	41810111	17318872	1566	74224											
ZNF526	116115	broad.mit.edu	37	chr19	42730321	42730321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgcgccatggcgggcttgcGactgcatcagcgggtccatg	5	7	15	14	5	1	0	1	0	0	0	2	1	2	0	3	3	3	2	3	3	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:42730321G>A	uc002osz.1	+	3	1922	c.1766G>A	c.(1765-1767)CGA>CAA	p.R589Q		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	589	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				GCGGGCTTGCGACTGCATCAG	0.642													21	31					0	0	0.003954	0	0		A	42730321	A	A	42730321	3	1	134	1	0	0	0	0	1	0	0	0	17992	1058	37	1	1768	1	ZNF526	19	42730321	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	920210	42730321	16398662	1567	74225											
LIPE	3991	broad.mit.edu	37	chr19	42910420	42910420	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgcagcattgtggccgggTaggctgccatgatgccatct	6	10	14	11	1	1	1	0	1	1	0	1	1	1	1	3	3	4	5	3	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:42910420T>C	uc002otr.2	-	7	2535	c.2258A>G	c.(2257-2259)TAC>TGC	p.Y753C	uc010eif.1_Intron	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	753					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				TGTGGCCGGGTAGGCTGCCAT	0.672													3	48					0	0	0.009096	0	0		C	42910420	C	C	42910420	3	2	134	1	0	0	0	0	1	0	0	0	8838	1638	57	3	988	3	LIPE	19	42910420	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	180099	42910420	16218563	1568	74226											
PSG11	5680	broad.mit.edu	37	chr19	43519329	43519329	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggctgagttacgagcagaGcaagcatagagcccattatg	12	8	13	8	1	0	3	0	1	0	2	0	4	0	3	1	1	5	5	1	1	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:43519329G>A	uc002ovm.1	-	4	1010	c.903C>T	c.(901-903)TGC>TGT	p.C301C	PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG11_uc002ovn.1_Silent_p.C307C|PSG11_uc002ovo.1_Silent_p.C179C|PSG11_uc002ovp.1_Silent_p.C179C	NM_002785	NP_002776	Q9UQ72	PSG11_HUMAN	pregnancy specific beta-1-glycoprotein 11	301	Ig-like C2-type 2.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				TACGAGCAGAGCAAGCATAGA	0.458													80	197					0	0	0.01441	0	0		A	43519329	A	A	43519329	2	1	134	1	0	0	0	0	0	0	0	1	12676	963	34	2		2	PSG11	19	43519329	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	608909	43519329	15609654	1569	74227											
ZNF226	7769	broad.mit.edu	37	chr19	44681086	44681086	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggcccacagtatagagaaAccttttaagtgtgaggagtg	14	9	12	6	0	0	2	0	1	0	1	0	4	0	3	2	2	1	1	2	2	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:44681086A>G	uc002oyp.2	+	6	1815	c.1671A>G	c.(1669-1671)AAA>AAG	p.K557K	ZNF226_uc002oyq.2_Silent_p.K440K|ZNF226_uc002oyr.2_Silent_p.K440K|ZNF226_uc010ejg.2_3'UTR|ZNF226_uc002oys.2_Silent_p.K557K|ZNF226_uc002oyt.2_Silent_p.K557K	NM_001032373	NP_001027545	Q9NYT6	ZN226_HUMAN	zinc finger protein 226 isoform a	557					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				GTATAGAGAAACCTTTTAAGT	0.448													5	278					0	0	0.001168	0	0		G	44681086	G	G	44681086	2	3	134	1	0	0	0	0	0	0	0	1	17805	40	2	3		3	ZNF226	19	44681086	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	1161757	44681086	14447897	1570	74228											
CEACAM20	125931	broad.mit.edu	37	chr19	45017279	45017279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcccagttctgaggccacaGcaatgacagccaggatcccg	11	5	11	14	1	1	2	0	2	1	0	2	3	2	3	4	2	3	2	4	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:45017279G>A	uc010ejn.1	-	7	1395	c.1379C>T	c.(1378-1380)GCT>GTT	p.A460V	CEACAM20_uc010ejo.1_Missense_Mutation_p.A460V|CEACAM20_uc010ejp.1_Missense_Mutation_p.A367V|CEACAM20_uc010ejq.1_Missense_Mutation_p.A367V	NM_001102597	NP_001096067	Q6UY09	CEA20_HUMAN	carcinoembryonic antigen-related cell adhesion	460	Helical; (Potential).					integral to membrane				large_intestine(2)	2		Prostate(69;0.0352)				TGAGGCCACAGCAATGACAGC	0.582											OREG0025538	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	45					0	0	0.00333	0	0		A	45017279	A	A	45017279	3	1	134	1	0	0	0	0	1	0	0	0	3194	971	34	2	436	2	CEACAM20	19	45017279	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	336193	45017279	14111704	1571	74229											
BCAM	4059	broad.mit.edu	37	chr19	45315630	45315630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcactgctgaggccactGcgcggctcaacgtgtttggt	6	9	14	12	3	1	1	1	1	0	0	1	1	1	1	1	4	3	4	1	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:45315630G>A	uc002ozu.2	+	3	459	c.415G>A	c.(415-417)GCG>ACG	p.A139T	BCAM_uc002ozt.1_Missense_Mutation_p.A139T	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	139	Extracellular (Potential).|Ig-like V-type 1.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				TGAGGCCACTGCGCGGCTCAA	0.687													12	16					0	0	0.001855	0	0		A	45315630	A	A	45315630	3	1	134	1	0	0	0	0	1	0	0	0	1345	1319	46	2	425	2	BCAM	19	45315630	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	298351	45315630	13813353	1572	74230											
RELB	5971	broad.mit.edu	37	chr19	45515357	45515357	+	Frame_Shift_Del	DEL	C	-	-																															acgccgccgccttggggctgCcccctgggccgactagtgtc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:45515357delC	uc002paj.1	+	5	453	c.327delC	c.(325-327)TGCfs	p.C109fs		NM_006509	NP_006500	Q01201	RELB_HUMAN	reticuloendotheliosis viral oncogene homolog B	109						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00986)		CTTGGGGCTGCCCCCTGGGCC	0.766													10	14	---	---	---	---						.	-	45515357	-	-	45515357	7	5	134	1	0	1	0	1	0	0	0	0	13242	747	26	0	333	0	RELB	19	45515357	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	199727	45515357	13613626	1573	74231											
MARK4	57787	broad.mit.edu	37	chr19	45805630	45805630	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgacatcttctcgcctcAgttgccatctaccttgggat	6	13	7	15	1	4	1	1	1	3	0	5	2	4	2	4	1	2	1	4	1	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:45805630A>G	uc002pbb.1	+	17	1928	c.1923_splice	c.e17-2	p.S641_splice	MARK4_uc002pba.1_Splice_Site_p.V668_splice			Q96L34	MARK4_HUMAN	RecName: Full=MAP/microtubule affinity-regulating kinase 4;          EC=2.7.11.1; AltName: Full=MAP/microtubule affinity-regulating kinase-like 1;						microtubule bundle formation|nervous system development|positive regulation of programmed cell death	centrosome|neuron projection	ATP binding|gamma-tubulin binding|microtubule binding|protein serine/threonine kinase activity|tau-protein kinase activity|ubiquitin binding			central_nervous_system(2)|large_intestine(1)	3		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		TTCTCGCCTCAGTTGCCATCT	0.562													242	404					0	0	0.01441	0	0		G	45805630	G	G	45805630	5	3	134	1	0	0	0	0	0	0	1	0	9333	202	7	3	2071	3	MARK4	19	45805630	Splice_Site	SNP	A	TCGA-CG-4442-01A-01D-1158-08	290273	45805630	13323353	1574	74232											
PPP1R13L	10848	broad.mit.edu	37	chr19	45901297	45901297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcctgcgggccaggaggcGcgggagagtctgaccacagc	7	3	18	13	4	1	2	0	1	1	1	1	4	1	3	3	5	2	0	3	5	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:45901297G>A	uc002pbn.2	-	3	241	c.164C>T	c.(163-165)GCG>GTG	p.A55V	PPP1R13L_uc002pbo.2_Missense_Mutation_p.A55V|PPP1R13L_uc002pbp.2_Missense_Mutation_p.A55V	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	55	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		GCCAGGAGGCGCGGGAGAGTC	0.622													19	51					0	0	0.012319	0	0		A	45901297	A	A	45901297	3	1	134	1	0	0	0	0	1	0	0	0	12380	1087	38	1	2366	1	PPP1R13L	19	45901297	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	95667	45901297	13227686	1575	74233											
CD3EAP	10849	broad.mit.edu	37	chr19	45911523	45911523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accctgctggccccctcaacGgaggcaggaggtggactcac	8	5	13	15	1	2	0	2	0	0	0	2	3	2	3	3	6	2	2	3	6	1	0	rs140241488		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:45911523G>A	uc002pbq.1	+	3	785	c.297G>A	c.(295-297)ACG>ACA	p.T99T	PPP1R13L_uc002pbo.2_5'Flank|PPP1R13L_uc002pbp.2_5'Flank|CD3EAP_uc002pbr.1_Silent_p.T101T	NM_012099	NP_036231	O15446	RPA34_HUMAN	CD3E antigen, epsilon polypeptide associated	99					rRNA transcription|transmembrane receptor protein tyrosine kinase signaling pathway	chromosome|RNA polymerase I transcription factor complex	DNA-directed RNA polymerase activity			large_intestine(2)|ovary(2)	4		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0251)		CCCCCTCAACGGAGGCAGGAG	0.647													50	139					0	0	0.01441	0	0		A	45911523	A	A	45911523	2	1	134	1	0	0	0	0	0	0	0	1	3015	1103	39	1		1	CD3EAP	19	45911523	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	10226	45911523	13217460	1576	74234											
FBXO46	23403	broad.mit.edu	37	chr19	46216274	46216274	+	Frame_Shift_Del	DEL	G	-	-																															acgtcctcaccggctgaggcGgggccctcctcagcagcagg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:46216274delG	uc002pcy.2	-	2	605	c.480delC	c.(478-480)CCCfs	p.P160fs	FBXO46_uc002pcz.2_Frame_Shift_Del_p.P160fs	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	160							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		CGGCTGAGGCGGGGCCCTCCT	0.706													7	11	---	---	---	---						.	-	46216274	-	-	46216274	7	5	134	1	0	1	0	1	0	0	0	0	5769	1103	39	0	1335	0	FBXO46	19	46216274	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	304751	46216274	12912709	1577	74235											
IRF2BP1	26145	broad.mit.edu	37	chr19	46388666	46388666	+	Frame_Shift_Del	DEL	G	-	-																															ctccagggcgggcgagggcaGggggaggcggcctgatgatg																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:46388666delG	uc002pds.1	-	1	711	c.367delC	c.(367-369)CTGfs	p.L123fs		NM_015649	NP_056464	Q8IU81	I2BP1_HUMAN	interferon regulatory factor 2 binding protein	123					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00442)|GBM - Glioblastoma multiforme(486;0.0402)|Epithelial(262;0.231)		GGCGAGGGCAGGGGGAGGCGG	0.751													10	22	---	---	---	---						.	-	46388666	-	-	46388666	7	5	134	1	0	1	0	1	0	0	0	0	7845	991	35	0	1391	0	IRF2BP1	19	46388666	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	172392	46388666	12740317	1578	74236											
NANOS2	339345	broad.mit.edu	37	chr19	46417728	46417728	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctggtgtgaggagtagAcgtggcgggactccccgttg	6	9	17	9	3	1	2	1	1	0	1	2	4	2	4	2	4	1	3	2	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:46417728A>G	uc002pdu.2	-	1	309	c.224T>C	c.(223-225)GTC>GCC	p.V75A		NM_001029861	NP_001025032	P60321	NANO2_HUMAN	nanos homolog 2	75	Nanos-type.|C2HC 1.				germ-line stem cell maintenance|mRNA catabolic process|multicellular organismal development|negative regulation of meiosis|regulation of translation|spermatogenesis	cytoplasmic mRNA processing body|perinuclear region of cytoplasm	RNA binding|zinc ion binding				0		Ovarian(192;0.0308)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00442)|GBM - Glioblastoma multiforme(486;0.0668)|Epithelial(262;0.231)		TGAGGAGTAGACGTGGCGGGA	0.687													21	57					0	0	0.012213	0	0		G	46417728	G	G	46417728	3	3	134	1	0	0	0	0	1	0	0	0	10170	275	10	3	196	3	NANOS2	19	46417728	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	29062	46417728	12711255	1579	74237											
DHX34	9704	broad.mit.edu	37	chr19	47884088	47884088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttagattccttacagcctcCggcggctcacagggctagaa	9	9	10	13	2	1	2	1	0	0	2	3	2	3	2	3	3	2	2	3	3	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:47884088C>T	uc010xyn.1	+	15	3339	c.2998C>T	c.(2998-3000)CGG>TGG	p.R1000W	DHX34_uc010xyo.1_Missense_Mutation_p.R129W	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	1000						intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		TTACAGCCTCCGGCGGCTCAC	0.353													17	64					0	0	0.007413	0	0		T	47884088	T	T	47884088	3	4	134	1	0	0	0	0	1	0	0	0	4513	643	23	1	3052	1	DHX34	19	47884088	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1466360	47884088	11244895	1580	74238											
CABP5	56344	broad.mit.edu	37	chr19	48537535	48537535	+	Frame_Shift_Del	DEL	G	-	-																															gacaacctcagagatctcccGgggggtgagccgctccccca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:48537535delG	uc002phu.1	-	5	558	c.433delC	c.(433-435)CGGfs	p.R145fs		NM_019855	NP_062829	Q9NP86	CABP5_HUMAN	calcium binding protein 5	145	EF-hand 4.				signal transduction	cytoplasm	calcium ion binding			skin(1)	1		all_cancers(25;1.86e-08)|all_lung(116;1.14e-06)|all_epithelial(76;1.16e-06)|Lung NSC(112;2.54e-06)|all_neural(266;0.0138)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;4.09e-05)|all cancers(93;0.000322)|Epithelial(262;0.01)|GBM - Glioblastoma multiforme(486;0.058)		GAGATCTCCCGGGGGGTGAGC	0.592													22	41	---	---	---	---						.	-	48537535	-	-	48537535	7	5	134	1	0	1	0	1	0	0	0	0	2537	1115	39	0	96	0	CABP5	19	48537535	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	653447	48537535	10591448	1581	74239											
FAM83E	54854	broad.mit.edu	37	chr19	49106851	49106851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgctgggggtccgggcgCgctgcacactccttagaatg	5	7	16	13	4	0	1	0	0	0	1	2	1	2	1	3	4	1	3	3	4	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:49106851C>T	uc002pjn.2	-	4	1141	c.1076G>A	c.(1075-1077)CGC>CAC	p.R359H		NM_017708	NP_060178	Q2M2I3	FA83E_HUMAN	hypothetical protein LOC54854	359										ovary(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		ggtccgggcgcgcTGCACACT	0.567													9	7					0	0	0.006214	0	0		T	49106851	T	T	49106851	3	4	134	1	0	0	0	0	1	0	0	0	5651	768	27	1	368	1	FAM83E	19	49106851	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	569316	49106851	10022132	1582	74240											
FAM83E	54854	broad.mit.edu	37	chr19	49116511	49116511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaacgcctccgcgcccttgCtcaacagagcctccagtgcc	7	6	10	18	3	1	1	1	0	0	1	3	2	3	2	6	1	5	1	6	1	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:49116511C>T	uc002pjn.2	-	1	184	c.119G>A	c.(118-120)AGC>AAC	p.S40N		NM_017708	NP_060178	Q2M2I3	FA83E_HUMAN	hypothetical protein LOC54854	40										ovary(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		CGCGCCCTTGCTCAACAGAGC	0.682													9	21					0	0	0.010729	0	0		T	49116511	T	T	49116511	3	4	134	1	0	0	0	0	1	0	0	0	5651	797	28	2	1337	2	FAM83E	19	49116511	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	9660	49116511	10012472	1583	74241											
SPHK2	56848	broad.mit.edu	37	chr19	49131529	49131530	+	Frame_Shift_Ins	INS	-	G	G																															ccggagcagtgaaccagcacINSggggggtaggttgaggatac																								rs142182513	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:49131529_49131530insG	uc002pjr.2	+	6	1233_1234	c.867_868insG	c.(865-870)CACGGGfs	p.H289fs	SPHK2_uc010xzt.1_Frame_Shift_Ins_p.H230fs|SPHK2_uc002pjs.2_Frame_Shift_Ins_p.H289fs|SPHK2_uc002pjt.2_Frame_Shift_Ins_p.H83fs|SPHK2_uc002pju.2_Frame_Shift_Ins_p.H253fs|SPHK2_uc002pjv.2_Frame_Shift_Ins_p.H253fs|SPHK2_uc002pjw.2_Frame_Shift_Ins_p.H351fs|SPHK2_uc010xzu.1_Frame_Shift_Ins_p.H253fs	NM_020126	NP_064511	Q9NRA0	SPHK2_HUMAN	sphingosine kinase 2	289_290	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|cell proliferation|sphinganine-1-phosphate biosynthetic process	cytosol|lysosomal membrane|membrane fraction	ATP binding|D-erythro-sphingosine kinase activity|diacylglycerol kinase activity|Ras GTPase binding|sphinganine kinase activity			lung(1)	1		all_lung(116;0.000125)|Lung NSC(112;0.000202)|all_epithelial(76;0.000283)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		TGAACCAGCACGGGGGGTAGGT	0.624													29	61	---	---	---	---						.	G	49131530	G	G	49131529	7	5	134	1	0	1	1	0	0	0	0	0	15072	535	19	0	885	0	SPHK2	19	49131529	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	15018	49131529	9997454	1584	74242											
NOSIP	51070	broad.mit.edu	37	chr19	50059938	50059938	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgtgaagtgcacgggcGtcaggtccgacatgcgcagg	7	6	18	10	5	1	1	1	1	0	0	2	2	2	1	1	4	2	2	1	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:50059938G>A	uc002pok.2	-	8	745	c.593C>T	c.(592-594)ACG>ATG	p.T198M	NOSIP_uc002pol.2_Missense_Mutation_p.T198M	NM_015953	NP_057037	Q9Y314	NOSIP_HUMAN	nitric oxide synthase interacting protein	198					negative regulation of nitric-oxide synthase activity|nitric oxide metabolic process	cytosol|nucleus	protein binding			skin(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00321)|GBM - Glioblastoma multiforme(134;0.0133)		GTGCACGGGCGTCAGGTCCGA	0.692													13	23					0	0	0.00245	0	0		A	50059938	A	A	50059938	3	1	134	1	0	0	0	0	1	0	0	0	10564	1145	40	1	324	1	NOSIP	19	50059938	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	928409	50059938	9069045	1585	74243											
CPT1C	126129	broad.mit.edu	37	chr19	50208489	50208489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agactttgctgatgggaatgCgccccttatgctctgcccag	7	11	11	12	1	1	2	0	1	1	1	1	3	1	3	3	1	4	2	3	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:50208489C>T	uc002ppj.2	+	9	1103	c.898C>T	c.(898-900)CGC>TGC	p.R300C	CPT1C_uc002ppl.3_Missense_Mutation_p.R266C|CPT1C_uc002ppi.2_Missense_Mutation_p.R217C|CPT1C_uc002ppk.2_Missense_Mutation_p.R289C|CPT1C_uc010eng.2_Missense_Mutation_p.R300C|CPT1C_uc010enh.2_Missense_Mutation_p.R300C|CPT1C_uc010ybc.1_Missense_Mutation_p.R171C|CPT1C_uc010eni.1_5'Flank	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	300	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		GATGGGAATGCGCCCCTTATG	0.582													81	135					0	0	0.01441	0	0		T	50208489	T	T	50208489	3	4	134	1	0	0	0	0	1	0	0	0	3836	768	27	1	928	1	CPT1C	19	50208489	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	148551	50208489	8920494	1586	74244											
PTOV1	53635	broad.mit.edu	37	chr19	50360333	50360333	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcatgggcctcatcccctaCgaccagagcggcttcgtcag	7	9	10	15	3	3	1	3	0	0	1	5	2	4	1	4	2	2	1	4	2	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:50360333C>T	uc002pqf.1	+	6	830	c.660C>T	c.(658-660)TAC>TAT	p.Y220Y	PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Silent_p.Y188Y|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	220	Interaction with FLOT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		TCATCCCCTACGACCAGAGCG	0.617													117	216					0	0	0.01441	0	0		T	50360333	T	T	50360333	2	4	134	1	0	0	0	0	0	0	0	1	12792	547	19	1		1	PTOV1	19	50360333	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	151844	50360333	8768650	1587	74245											
ZNF473	25888	broad.mit.edu	37	chr19	50549260	50549260	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatatgaatgtcaggagtgCggagaacgcttcatttgcgg	10	10	13	8	3	2	2	2	1	0	1	2	4	2	3	1	3	3	1	1	3	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:50549260C>T	uc002prn.2	+	5	1797	c.1560C>T	c.(1558-1560)TGC>TGT	p.C520C	ZNF473_uc002prm.2_Silent_p.C520C|ZNF473_uc010ybo.1_Silent_p.C508C	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	520	C2H2-type 10.|Interaction with SLBP/pre-mRNA complex.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		GTCAGGAGTGCGGAGAACGCT	0.468													51	79					0	0	0.01441	0	0		T	50549260	T	T	50549260	2	4	134	1	0	0	0	0	0	0	0	1	17956	776	27	1		1	ZNF473	19	50549260	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	188927	50549260	8579723	1588	74246											
SHANK1	50944	broad.mit.edu	37	chr19	51220008	51220008	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacattgagcggccctggaGgcctctaacagaggccaggc	9	5	15	12	1	1	2	0	1	1	1	1	4	1	4	3	6	2	0	3	6	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:51220008G>T	uc002psx.1	-	1	188	c.169C>A	c.(169-171)CTC>ATC	p.L57I		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	57					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		CGGCCCTGGAGGCCTCTAACA	0.672													34	46					3.29498e-33	3.88827e-33	0.003755	1	0		T	51220008	T	T	51220008	3	4	134	1	0	0	0	0	1	0	0	0	14289	1000	35	5	6408	5	SHANK1	19	51220008	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	670748	51220008	7908975	1589	74247											
CD33	945	broad.mit.edu	37	chr19	51728620	51728620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttcatggttactggttcCgggaaggagccattatatcc	9	12	11	9	1	1	0	1	0	0	0	3	2	3	2	3	4	2	3	3	4	4	5	rs138300409	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:51728620C>T	uc002pwa.2	+	2	224	c.184C>T	c.(184-186)CGG>TGG	p.R62W	CD33_uc010eos.1_Missense_Mutation_p.R62W|CD33_uc010eot.1_Intron|CD33_uc010eou.1_5'Flank	NM_001772	NP_001763	P20138	CD33_HUMAN	CD33 antigen isoform 1 precursor	62	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell-cell signaling|negative regulation of cell proliferation	external side of plasma membrane|integral to plasma membrane	receptor activity|sugar binding				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	TTACTGGTTCCGGGAAGGAGC	0.537													55	88					0	0	0.01441	0	0		T	51728620	T	T	51728620	3	4	134	1	0	0	0	0	1	0	0	0	3008	643	23	1	190	1	CD33	19	51728620	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	508612	51728620	7400363	1590	74248											
ZNF836	162962	broad.mit.edu	37	chr19	52660326	52660326	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctcaagttgggtgggtaAtgacagctgcaaaaactcat	12	12	10	7	0	2	1	2	1	1	0	3	1	2	1	0	2	3	4	0	2	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:52660326A>G	uc010ydi.1	-	5	984	c.610T>C	c.(610-612)TTA>CTA	p.L204L	ZNF836_uc010ydj.1_Silent_p.L204L	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	204					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGGGTGGGTAATGACAGCTGC	0.363													24	48					0	0	0.014323	0	0		G	52660326	G	G	52660326	2	3	134	1	0	0	0	0	0	0	0	1	18212	98	4	3		3	ZNF836	19	52660326	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	931706	52660326	6468657	1591	74249											
ZNF83	55769	broad.mit.edu	37	chr19	53117526	53117526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgatgaaaggccttgccacGctcactacatttgtagtgtt	9	14	9	9	1	1	2	1	2	0	0	1	2	1	2	2	1	2	3	2	1	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:53117526G>A	uc002pzu.3	-	2	1536	c.292C>T	c.(292-294)CGT>TGT	p.R98C	ZNF83_uc002pzv.3_Missense_Mutation_p.R98C|ZNF83_uc010eps.2_Missense_Mutation_p.R98C|ZNF83_uc010ept.2_Missense_Mutation_p.R98C|ZNF83_uc010epu.2_Missense_Mutation_p.R98C|ZNF83_uc010epv.2_Missense_Mutation_p.R98C|ZNF83_uc010epw.2_Missense_Mutation_p.R98C|ZNF83_uc010epx.2_Missense_Mutation_p.R98C|ZNF83_uc010epy.2_Missense_Mutation_p.R98C|ZNF83_uc010epz.2_Missense_Mutation_p.R98C|ZNF83_uc010eqb.1_Missense_Mutation_p.R98C	NM_018300	NP_060770	P51522	ZNF83_HUMAN	zinc finger protein 83 isoform a	98	C2H2-type 1; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00841)|GBM - Glioblastoma multiforme(134;0.0244)		GCCTTGCCACGCTCACTACAT	0.333													45	78					0	0	0.013114	0	0		A	53117526	A	A	53117526	3	1	134	1	0	0	0	0	1	0	0	0	18208	1087	38	1	1262	1	ZNF83	19	53117526	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	457200	53117526	6011457	1592	74250											
ZNF611	81856	broad.mit.edu	37	chr19	53208679	53208679	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacacgcaaaagccttgtcAcaaaccttacatttgtatgg	13	11	7	10	1	1	1	1	1	0	0	1	1	1	1	2	1	3	2	2	1	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:53208679A>G	uc002pzz.2	-	7	1946	c.1629T>C	c.(1627-1629)TGT>TGC	p.C543C	ZNF611_uc010eqc.2_Silent_p.C473C|ZNF611_uc010ydo.1_Silent_p.C473C|ZNF611_uc010ydr.1_Silent_p.C474C|ZNF611_uc010ydp.1_Silent_p.C543C|ZNF611_uc010ydq.1_Silent_p.C543C|ZNF611_uc002qaa.3_Silent_p.C473C	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	543	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		AAGCCTTGTCACAAACCTTAC	0.388													7	437					0	0	0.00308	0	0		G	53208679	G	G	53208679	2	3	134	1	0	0	0	0	0	0	0	1	18062	157	6	3		3	ZNF611	19	53208679	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	91153	53208679	5920304	1593	74251											
ZNF28	7576	broad.mit.edu	37	chr19	53304670	53304670	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggcagatgcgaatgaaagCttaatccaagctgatcttta	14	10	9	8	1	1	3	0	2	1	1	2	4	2	3	1	1	3	3	1	1	5	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:53304670C>G	uc002qad.2	-	4	548	c.428G>C	c.(427-429)AGC>ACC	p.S143T	ZNF28_uc002qac.2_Missense_Mutation_p.S90T|ZNF28_uc010eqe.2_Missense_Mutation_p.S89T	NM_006969	NP_008900	P17035	ZNF28_HUMAN	zinc finger protein 28	143					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)		CGAATGAAAGCTTAATCCAAG	0.413													6	474					0	0	0.001168	0	0		G	53304670	G	G	53304670	3	3	134	1	0	0	0	0	1	0	0	0	17838	797	28	5	1732	5	ZNF28	19	53304670	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	95991	53304670	5824313	1594	74252											
ZNF160	90338	broad.mit.edu	37	chr19	53589549	53589549	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctgactccttttctttcCtcttcctcttcttccagact	3	19	2	17	0	4	2	0	1	4	1	9	2	9	2	5	0	0	0	5	0	0	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:53589549C>A	uc010eqk.2	-	4	397	c.-19G>T	c.(-21--17)GAGGA>GATGA		ZNF160_uc002qaq.3_Translation_Start_Site|ZNF160_uc002qar.3_Translation_Start_Site|ZNF160_uc002qas.3_Translation_Start_Site	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160						hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		CTTTTCTTTCCTCTTCCTCTT	0.413													25	48					2.21704e-12	2.48783e-12	0.00278	1	0		A	53589549	A	A	53589549	1	1	134	1	0	0	0	0	0	0	0	0	17764	696	24	5		5	ZNF160	19	53589549	Translation_Start_Site	SNP	C	TCGA-CG-4442-01A-01D-1158-08	284879	53589549	5539434	1595	74253											
LILRA3	11026	broad.mit.edu	37	chr19	54802622	54802622	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctgggagagcccagcctgGggctgccggccagggcgctg	4	4	19	14	2	0	1	0	0	0	1	0	2	0	1	5	5	3	2	5	5	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:54802622G>T	uc002qfd.2	-	5	884	c.819C>A	c.(817-819)CCC>CCA	p.P273P	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Silent_p.P209P	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	273	Ig-like C2-type 3.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GCCCAGCCTGGGGCTGCCGGC	0.627													20	81					2.40579e-17	2.73318e-17	0.00623	1	0		T	54802622	T	T	54802622	2	4	134	1	0	0	0	0	0	0	0	1	8802	1219	43	5		5	LILRA3	19	54802622	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1213073	54802622	4326361	1596	74254											
LILRA3	11026	broad.mit.edu	37	chr19	54802639	54802639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggggctgccggccagggcGctggaggaagtcacgtcccc	5	5	17	14	3	1	0	1	0	0	0	2	2	2	2	4	6	1	2	4	6	1	0	rs143103718	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:54802639G>A	uc002qfd.2	-	5	867	c.802C>T	c.(802-804)CGC>TGC	p.R268C	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Missense_Mutation_p.R204C	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	268	Ig-like C2-type 3.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CGGCCAGGGCGCTGGAGGAAG	0.642													21	74					0	0	0.005443	0	0		A	54802639	A	A	54802639	3	1	134	1	0	0	0	0	1	0	0	0	8802	1087	38	1	529	1	LILRA3	19	54802639	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	17	54802639	4326344	1597	74255											
LENG9	94059	broad.mit.edu	37	chr19	54974255	54974255	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggtgggcccgcgtcccGccgccgagccagagccaaag	7	3	16	15	5	0	1	0	0	0	1	1	3	1	2	6	3	2	0	6	3	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:54974255G>A	uc010yez.1	-	1	640	c.521C>T	c.(520-522)GCG>GTG	p.A174V		NM_198988	NP_945339	Q96B70	LENG9_HUMAN	leukocyte receptor cluster (LRC) member 9	174					RNA metabolic process	intracellular	catalytic activity|nucleic acid binding|zinc ion binding				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.134)		CCCGCGTCCCGCCGCCGAGCC	0.726													6	14					0	0	0.001984	0	0		A	54974255	A	A	54974255	3	1	134	1	0	0	0	0	1	0	0	0	8741	1087	38	1	988	1	LENG9	19	54974255	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	171616	54974255	4154728	1598	74256											
TMEM86B	255043	broad.mit.edu	37	chr19	55738739	55738739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgccctgggccaggccgCgccacagcatggccatcagg	6	4	13	18	3	1	0	1	0	0	0	2	0	2	0	6	4	1	1	6	4	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:55738739C>T	uc002qju.2	-	3	1014	c.491G>A	c.(490-492)CGC>CAC	p.R164H	TMEM86B_uc002qjt.2_Missense_Mutation_p.R163H	NM_173804	NP_776165	Q8N661	TM86B_HUMAN	transmembrane protein 86B	164	Helical; (Potential).				ether lipid metabolic process	cytoplasmic part|integral to membrane	alkenylglycerophosphocholine hydrolase activity|alkenylglycerophosphoethanolamine hydrolase activity				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0443)		GGCCAGGCCGCGCCACAGCAT	0.701													3	6					0	0	0.009096	0	0		T	55738739	T	T	55738739	3	4	134	1	0	0	0	0	1	0	0	0	16234	768	27	1	193	1	TMEM86B	19	55738739	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	764484	55738739	3390244	1599	74257											
ZNF71	58491	broad.mit.edu	37	chr19	57132978	57132978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtccacccgtaaggcgtgGcaagaacttctccagcactt	9	9	9	14	2	1	1	0	0	1	1	3	1	2	1	3	2	2	3	3	2	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:57132978G>A	uc002qnm.3	+	3	561	c.323G>A	c.(322-324)GGC>GAC	p.G108D		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	108						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		GTAAGGCGTGGCAAGAACTTC	0.582													34	49					0	0	0.013726	0	0		A	57132978	A	A	57132978	3	1	134	1	0	0	0	0	1	0	0	0	18139	1203	42	2	325	2	ZNF71	19	57132978	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1394239	57132978	1996005	1600	74258											
ZIM3	114026	broad.mit.edu	37	chr19	57647283	57647283	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcgtgagaattattttgtAcatagtgttgcaaggaagat	13	14	10	4	1	0	2	0	1	0	2	1	4	0	3	0	1	2	3	0	1	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:57647283A>G	uc002qnz.1	-	5	808	c.422T>C	c.(421-423)GTA>GCA	p.V141A		NM_052882	NP_443114	Q96PE6	ZIM3_HUMAN	zinc finger, imprinted 3	141					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.243)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ATTATTTTGTACATAGTGTTG	0.363													7	470					0	0	0.001984	0	0		G	57647283	G	G	57647283	3	3	134	1	0	0	0	0	1	0	0	0	17710	391	14	3	1000	3	ZIM3	19	57647283	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	514305	57647283	1481700	1601	74259											
ZNF264	9422	broad.mit.edu	37	chr19	57724155	57724155	+	Frame_Shift_Del	DEL	A	-	-																															atcaaaggatgcatactgggAaaaatcccatcagtgtaaca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:57724155delA	uc002qob.2	+	4	2103	c.1690delA	c.(1690-1692)AAAfs	p.K564fs		NM_003417	NP_003408	O43296	ZN264_HUMAN	zinc finger protein 264	564					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0135)		GCATACTGGGAAAAATCCCAT	0.443													75	151	---	---	---	---						.	-	57724155	-	-	57724155	7	5	134	1	0	1	0	1	0	0	0	0	17829	247	9	0	1704	0	ZNF264	19	57724155	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	76872	57724155	1404828	1602	74260											
ZNF543	125919	broad.mit.edu	37	chr19	57840578	57840578	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttcagtcaacatccaggAacttttattagggaaagagt	14	11	9	7	0	2	1	2	0	0	1	3	4	3	3	1	2	2	0	1	2	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:57840578A>G	uc002qoi.1	+	4	2093	c.1748A>G	c.(1747-1749)GAA>GGA	p.E583G		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	583					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		AACATCCAGGAACTTTTATTA	0.403													4	176					0	0	0.009096	0	0		G	57840578	G	G	57840578	3	3	134	1	0	0	0	0	1	0	0	0	18001	246	9	3	1762	3	ZNF543	19	57840578	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	116423	57840578	1288405	1603	74261											
ZNF419	79744	broad.mit.edu	37	chr19	58005213	58005213	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaaagccttatgagtgcAgggaatgtgggaaatttttt	12	12	13	4	0	0	1	0	1	0	0	0	4	0	3	1	2	3	2	1	2	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:58005213A>G	uc002qov.2	+	5	1528	c.1288A>G	c.(1288-1290)AGG>GGG	p.R430G	ZNF547_uc002qpm.3_Intron|ZNF419_uc010ety.1_Missense_Mutation_p.R431G|ZNF419_uc010etz.1_Missense_Mutation_p.R418G|ZNF419_uc010eua.1_Missense_Mutation_p.R417G|ZNF419_uc002qow.2_Missense_Mutation_p.R398G|ZNF419_uc010eub.1_Missense_Mutation_p.R385G|ZNF419_uc010euc.1_Missense_Mutation_p.R384G	NM_024691	NP_078967	Q96HQ0	ZN419_HUMAN	zinc finger protein 419 isoform 2	430	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0252)|Lung(386;0.171)		TTATGAGTGCAGGGAATGTGG	0.413													11	296					0	0	0.008291	0	0		G	58005213	G	G	58005213	3	3	134	1	0	0	0	0	1	0	0	0	17921	179	7	3	1309	3	ZNF419	19	58005213	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	164635	58005213	1123770	1604	74262											
ZNF773	374928	broad.mit.edu	37	chr19	58018753	58018753	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcgccacagctccagtctTgttaaacatcgaaggattca	11	12	7	11	2	2	0	1	0	1	0	5	2	3	1	2	1	2	2	2	1	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:58018753T>C	uc002qox.2	+	4	1430	c.1290T>C	c.(1288-1290)CTT>CTC	p.L430L	ZNF547_uc002qpm.3_Intron|ZNF773_uc002qoy.2_Silent_p.L429L|ZNF773_uc002qoz.2_Intron	NM_198542	NP_940944	Q6PK81	ZN773_HUMAN	zinc finger protein 773	430	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)		GCTCCAGTCTTGTTAAACATC	0.423													54	112					0	0	0.01441	0	0		C	58018753	C	C	58018753	2	2	134	1	0	0	0	0	0	0	0	1	18171	1799	63	3		3	ZNF773	19	58018753	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	13540	58018753	1110230	1605	74263											
ZNF135	7694	broad.mit.edu	37	chr19	58573064	58573064	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggacaccttcaggcttctGgtctctgtgggtaaggccac	6	11	12	12	0	3	0	1	0	2	0	4	1	3	1	2	5	0	2	2	5	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:58573064G>T	uc010yhq.1	+	3	246	c.150G>T	c.(148-150)CTG>CTT	p.L50L	ZNF135_uc002qre.2_Silent_p.L50L|ZNF135_uc002qrd.1_Silent_p.L8L|ZNF135_uc002qrf.2_Silent_p.L8L|ZNF135_uc002qrg.2_Silent_p.L8L|ZNF135_uc010yhr.1_Intron	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	50					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		TCAGGCTTCTGGTCTCTGTGG	0.522													98	172					1.88817e-63	2.26941e-63	0.01441	1	0		T	58573064	T	T	58573064	2	4	134	1	0	0	0	0	0	0	0	1	17750	1335	47	5		5	ZNF135	19	58573064	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	554311	58573064	555919	1606	74264											
ZNF497	162968	broad.mit.edu	37	chr19	58867759	58867759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgccgcattctgcgcaggCgaagggtcgctctcccgtgt	4	10	13	14	5	2	0	0	0	2	0	4	1	2	0	2	2	2	3	2	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:58867759C>T	uc002qsh.1	-	3	1432	c.1243G>A	c.(1243-1245)GCC>ACC	p.A415T	A1BG_uc002qsd.3_5'Flank|A1BG_uc002qsf.1_Intron|ZNF497_uc002qsi.1_Missense_Mutation_p.A415T|uc002qsj.1_5'Flank|uc002qsk.1_5'Flank	NM_198458	NP_940860	Q6ZNH5	ZN497_HUMAN	zinc finger protein 497	415	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0278)		TCTGCGCAGGCGAAGGGTCGC	0.721													5	9					0	0	0.000602	0	0		T	58867759	T	T	58867759	3	4	134	1	0	0	0	0	1	0	0	0	17971	768	27	1	257	1	ZNF497	19	58867759	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	294695	58867759	261224	1607	74265											
ZNF446	55663	broad.mit.edu	37	chr19	58991071	58991071	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggatgcgatgctggagaAgtacggcacagtggtctccc	8	8	15	10	2	1	1	0	0	1	1	2	4	1	2	1	4	3	3	1	4	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr19:58991071A>C	uc002qsz.2	+	5	806	c.689A>C	c.(688-690)AAG>ACG	p.K230T	ZNF446_uc002qta.2_Intron|ZNF446_uc010eur.2_Missense_Mutation_p.K230T|SLC27A5_uc002qtb.2_RNA	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	230	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		ATGCTGGAGAAGTACGGCACA	0.667													9	22					0	0	0.006214	0	0		C	58991071	C	C	58991071	3	2	134	1	0	0	0	0	1	0	0	0	17944	72	3	5	703	5	ZNF446	19	58991071	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	123312	58991071	137912	1608	74266											
TGM3	7053	broad.mit.edu	37	chr20	2312896	2312896	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggaccatcatctacaacGgcacgcttgtacatgaagtg	11	9	9	12	2	2	1	1	1	1	0	2	2	2	2	2	2	3	3	2	2	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:2312896G>T	uc002wfx.3	+	10	1679	c.1582G>T	c.(1582-1584)GGC>TGC	p.G528C		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	528					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	CATCTACAACGGCACGCTTGT	0.522													13	35					1.61879e-10	1.79945e-10	0.013537	1	0		T	2312896	T	T	2312896	3	4	134	1	0	0	0	0	1	0	0	0	15856	1116	39	5	1620	5	TGM3	20	2312896	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08		2312896	60712624	1609	74267											
OXT	5020	broad.mit.edu	37	chr20	3052728	3052728	+	Frame_Shift_Del	DEL	C	-	-																															cgcccgtccccgcagtgcctCccctgcggccccgggggcaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:3052728delC	uc002wht.1	+	2	162	c.126delC	c.(124-126)CTCfs	p.L42fs		NM_000915	NP_000906	P01178	NEU1_HUMAN	oxytocin-neurophysin I preproprotein	42					signal transduction		neurohypophyseal hormone activity				0					Oxytocin(DB00107)	CGCAGTGCCTCCCCTGCGGCC	0.766													6	6	---	---	---	---						.	-	3052728	-	-	3052728	7	5	134	1	0	1	0	1	0	0	0	0	11356	842	30	0	132	0	OXT	20	3052728	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	739832	3052728	59972792	1610	74268											
SIGLEC1	6614	broad.mit.edu	37	chr20	3672650	3672650	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcacatcttgcacctgcagCcgtagggcgtttcgggccac	6	8	13	14	3	1	0	0	0	1	0	2	0	1	0	3	3	3	5	3	3	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:3672650C>T	uc002wja.2	-	16	4230	c.4230G>A	c.(4228-4230)CGG>CGA	p.R1410R	SIGLEC1_uc002wjb.1_Silent_p.R49R|SIGLEC1_uc002wiz.3_Silent_p.R1410R	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1410	Ig-like C2-type 14.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						GCACCTGCAGCCGTAGGGCGT	0.597													23	29					0	0	0.012319	0	0		T	3672650	T	T	3672650	2	4	134	1	0	0	0	0	0	0	0	1	14330	726	26	2		2	SIGLEC1	20	3672650	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	619922	3672650	59352870	1611	74269											
PLCB1	23236	broad.mit.edu	37	chr20	8703048	8703048	+	Frame_Shift_Del	DEL	A	-	-																															acgatgatgatgatgactgtAaaaaatcttcaatggatgag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:8703048delA	uc002wnb.2	+	15	1564	c.1561delA	c.(1561-1563)AAAfs	p.K521fs	PLCB1_uc010zrb.1_Frame_Shift_Del_p.K420fs|PLCB1_uc002wna.2_Frame_Shift_Del_p.K521fs|PLCB1_uc002wnc.1_Frame_Shift_Del_p.K420fs|PLCB1_uc002wnd.1_Frame_Shift_Del_p.K98fs	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	521					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TGATGACTGTAAAAAATCTTC	0.433													115	205	---	---	---	---						.	-	8703048	-	-	8703048	7	5	134	1	0	1	0	1	0	0	0	0	12046	363	13	0	1619	0	PLCB1	20	8703048	Frame_Shift_Del	DEL	A	TCGA-CG-4442-01A-01D-1158-08	5030398	8703048	54322472	1612	74270											
FLRT3	23767	broad.mit.edu	37	chr20	14306292	14306292	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgattgtttttgtacagatTcattccattaggaggaaata	12	16	9	4	0	1	2	1	1	0	1	2	4	2	4	1	2	1	2	1	2	4	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:14306292T>C	uc002wov.1	-	3	2328	c.1861A>G	c.(1861-1863)AAT>GAT	p.N621D	MACROD2_uc002wot.2_Intron|MACROD2_uc002wou.2_Intron|FLRT3_uc002wow.1_Missense_Mutation_p.N621D	NM_198391	NP_938205	Q9NZU0	FLRT3_HUMAN	fibronectin leucine rich transmembrane protein 3	621	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			kidney(1)	1		Colorectal(1;0.0464)	COAD - Colon adenocarcinoma(2;0.129)	Colorectal(1;0.0393)		TTGTACAGATTCATTCCATTA	0.408													6	289					0	0	0.001168	0	0		C	14306292	C	C	14306292	3	2	134	1	0	0	0	0	1	0	0	0	5954	1783	62	3	92	3	FLRT3	20	14306292	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	5603244	14306292	48719228	1613	74271											
KIF16B	55614	broad.mit.edu	37	chr20	16359766	16359766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgcagctggtttgcattggCctggtactgtgcaagctgtt	5	15	13	8	0	0	0	0	0	0	0	0	0	0	0	1	3	6	8	1	3	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:16359766C>T	uc002wpg.1	-	19	3039	c.2881G>A	c.(2881-2883)GCC>ACC	p.A961T	KIF16B_uc002wpe.1_Missense_Mutation_p.A343T|KIF16B_uc002wpf.1_Missense_Mutation_p.A343T|KIF16B_uc010gch.1_Missense_Mutation_p.A961T|KIF16B_uc010gci.1_Missense_Mutation_p.A961T|KIF16B_uc010gcj.1_Missense_Mutation_p.A972T	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	961	Glu-rich.|Potential.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						TTTGCATTGGCCTGGTACTGT	0.418													126	213					0	0	0.01441	0	0		T	16359766	T	T	16359766	3	4	134	1	0	0	0	0	1	0	0	0	8294	739	26	2	1104	2	KIF16B	20	16359766	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2053474	16359766	46665754	1614	74272											
CSRP2BP	57325	broad.mit.edu	37	chr20	18123412	18123412	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgaagtggagggagagacGctcctgatcgtcgaatccga	10	7	16	8	4	0	3	0	2	0	1	4	8	2	5	2	3	0	1	2	3	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:18123412G>A	uc002wqj.2	+	2	730	c.108G>A	c.(106-108)ACG>ACA	p.T36T	CSRP2BP_uc002wqk.2_5'Flank	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	36					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						AGGGAGAGACGCTCCTGATCG	0.542													42	54					0	0	0.009718	0	0		A	18123412	A	A	18123412	2	1	134	1	0	0	0	0	0	0	0	1	3971	1074	38	1		1	CSRP2BP	20	18123412	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1763646	18123412	44902108	1615	74273											
C20orf26	26074	broad.mit.edu	37	chr20	20180465	20180465	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccttcattacttggttccCgtgcgaccacgacgacagat	8	10	9	14	4	1	1	1	0	0	1	2	4	2	1	3	1	2	1	3	1	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:20180465C>A	uc002wru.2	+	17	1927	c.1851C>A	c.(1849-1851)CCC>CCA	p.P617P	C20orf26_uc010zse.1_Silent_p.P597P	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	617										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		ACTTGGTTCCCGTGCGACCAC	0.532													6	314					0.00448238	0.00486963	0.004482	1	0		A	20180465	A	A	20180465	2	1	134	1	0	0	0	0	0	0	0	1	2109	639	23	5		5	C20orf26	20	20180465	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2057053	20180465	42845055	1616	74274											
PAX1	5075	broad.mit.edu	37	chr20	21687475	21687475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaagatcggcagcctggCgcagcccggaccgtacgagg	10	3	14	14	5	0	1	0	0	0	1	1	3	0	2	3	4	4	3	3	4	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:21687475C>T	uc002wsj.2	+	2	740	c.686C>T	c.(685-687)GCG>GTG	p.A229V	PAX1_uc010zsl.1_Missense_Mutation_p.A229V|PAX1_uc010zsm.1_Missense_Mutation_p.A205V	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	229					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						GGCAGCCTGGCGCAGCCCGGA	0.647													23	28					0	0	0.004656	0	0		T	21687475	T	T	21687475	3	4	134	1	0	0	0	0	1	0	0	0	11497	768	27	1	692	1	PAX1	20	21687475	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1507010	21687475	41338045	1617	74275											
GZF1	64412	broad.mit.edu	37	chr20	23345195	23345195	+	Frame_Shift_Del	DEL	T	-	-																															tgctggctgccaccagcaagTtttttaaggaagtgttcctt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:23345195delT	uc010gdb.2	+	3	349	c.175delT	c.(175-177)TTTfs	p.F59fs	GZF1_uc002wsy.2_Frame_Shift_Del_p.F59fs|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Frame_Shift_Del_p.F59fs	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	59	BTB.				transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					CACCAGCAAGTTTTTTAAGGA	0.483													49	86	---	---	---	---						.	-	23345195	-	-	23345195	7	5	134	1	0	1	0	1	0	0	0	0	6930	1725	60	0	177	0	GZF1	20	23345195	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	1657720	23345195	39680325	1618	74276											
NINL	22981	broad.mit.edu	37	chr20	25456684	25456684	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtagaaggcaaacctgtcGttctctctcaaatctacatg	12	11	8	10	1	3	1	1	0	3	1	6	2	3	1	1	1	2	3	1	1	5	3	rs144098143	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:25456684G>A	uc002wux.1	-	17	3317	c.3243C>T	c.(3241-3243)AAC>AAT	p.N1081N	NINL_uc010gdn.1_Intron	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1081	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CAAACCTGTCGTTCTCTCTCA	0.443													40	64					0	0	0.00623	0	0		A	25456684	A	A	25456684	2	1	134	1	0	0	0	0	0	0	0	1	10439	1136	40	1		1	NINL	20	25456684	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2111489	25456684	37568836	1619	74277											
ASXL1	171023	broad.mit.edu	37	chr20	31017181	31017182	+	Frame_Shift_Del	DEL	GA	-	-																															gactggggtgatgctgcctcGagttgtcctgactcctctga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:31017181_31017182delGA	uc002wxs.2	+	6	938_939	c.512_513delGA	c.(511-513)CGAfs	p.R171fs	ASXL1_uc010geb.2_Frame_Shift_Del_p.R113fs	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	171					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						ATGCTGCCTCGAGTTGTCCTGA	0.495			F|N|Mis		MDS|CMML								36	78	---	---	---	---						.	-	31017182	-	-	31017181	7	5	134	1	0	1	0	1	0	0	0	0	1067	1058	37	0	544	0	ASXL1	20	31017181	Frame_Shift_Del	DEL	GA	TCGA-CG-4442-01A-01D-1158-08	5560497	31017181	32008339	1620	74278											
DNMT3B	1789	broad.mit.edu	37	chr20	31387087	31387087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgccattcccgcagcccGaaggcggcccattcgagtcc	6	6	10	19	4	0	0	0	0	0	0	3	2	2	0	6	2	2	1	6	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:31387087G>A	uc002wyc.2	+	16	2033	c.1712G>A	c.(1711-1713)CGA>CAA	p.R571Q	DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Missense_Mutation_p.R551Q|DNMT3B_uc002wye.2_Missense_Mutation_p.R551Q|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.R509Q|DNMT3B_uc010zua.1_Missense_Mutation_p.R475Q|DNMT3B_uc002wyf.2_Missense_Mutation_p.R563Q|DNMT3B_uc002wyg.2_Missense_Mutation_p.R270Q|DNMT3B_uc010geg.2_5'Flank|DNMT3B_uc010geh.2_5'Flank	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	571					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						CCCGCAGCCCGAAGGCGGCCC	0.587													9	17					0	0	0.013537	0	0		A	31387087	A	A	31387087	3	1	134	1	0	0	0	0	1	0	0	0	4683	1058	37	1	1810	1	DNMT3B	20	31387087	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	369906	31387087	31638433	1621	74279											
MAPRE1	22919	broad.mit.edu	37	chr20	31427577	31427577	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaacacagagaaccgctgCggctcctaaggctggccctg	9	6	11	15	2	1	1	1	0	0	1	2	2	2	1	3	3	3	3	3	3	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:31427577C>T	uc002wyh.2	+	5	651	c.512C>T	c.(511-513)GCG>GTG	p.A171V		NM_012325	NP_036457	Q15691	MARE1_HUMAN	microtubule-associated protein, RP/EB family,	171	Interaction with MTUS2/TIP150.				cell division|cell proliferation|G2/M transition of mitotic cell cycle|mitotic prometaphase|negative regulation of microtubule polymerization|protein localization to microtubule	centrosome|cortical microtubule cytoskeleton|cytosol	microtubule plus-end binding|protein C-terminus binding				0						AGAACCGCTGCGGCTCCTAAG	0.552													216	350					0	0	0.01441	0	0		T	31427577	T	T	31427577	3	4	134	1	0	0	0	0	1	0	0	0	9312	768	27	1	526	1	MAPRE1	20	31427577	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	40490	31427577	31597943	1622	74280											
AHCY	191	broad.mit.edu	37	chr20	32878616	32878616	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccgaaaccccgcagggcctgGgcacagcccttgcccacatc	8	4	10	19	2	0	0	0	0	0	0	1	1	0	0	6	2	3	2	6	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:32878616G>A	uc002xai.2	-	6	826	c.687C>T	c.(685-687)GCC>GCT	p.A229A	AHCY_uc002xaj.2_Silent_p.A201A	NM_000687	NP_000678	P23526	SAHH_HUMAN	adenosylhomocysteinase isoform 1	229					methylation|xenobiotic metabolic process	cytosol|melanosome	adenosylhomocysteinase activity|protein binding				0						GCAGGGCCTGGGCACAGCCCT	0.612													12	222					0	0	0.010729	0	0		A	32878616	A	A	32878616	2	1	134	1	0	0	0	0	0	0	0	1	409	1219	43	4		4	AHCY	20	32878616	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1451039	32878616	30146904	1623	74281											
GGT7	2686	broad.mit.edu	37	chr20	33451198	33451198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggccgtgacgatgaccGtgagcccatcctggcggcag	8	5	15	13	4	0	3	0	3	0	0	1	5	1	3	4	3	1	1	4	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:33451198G>A	uc002xay.2	-	2	366	c.323C>T	c.(322-324)ACG>ATG	p.T108M	GGT7_uc002xaz.1_Missense_Mutation_p.T125M|GGT7_uc002xba.1_Missense_Mutation_p.T108M	NM_178026	NP_821158	Q9UJ14	GGT7_HUMAN	gamma-glutamyltransferase 7	108	Helical; Signal-anchor for type II membrane protein; (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(1)	1						GACGATGACCGTGAGCCCATC	0.667													7	42					0	0	0.010729	0	0		A	33451198	A	A	33451198	3	1	134	1	0	0	0	0	1	0	0	0	6379	1145	40	1	1721	1	GGT7	20	33451198	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	572582	33451198	29574322	1624	74282											
GSS	2937	broad.mit.edu	37	chr20	33530761	33530761	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgccctcttttaggacttgCttgtggatgtcaaagagacg	9	13	11	8	1	2	1	1	0	1	1	2	4	2	3	1	2	2	1	1	2	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:33530761C>T	uc002xbg.2	-	4	404	c.324G>A	c.(322-324)AAG>AAA	p.K108K	GSS_uc010zun.1_5'UTR|GSS_uc010zuo.1_Intron|GSS_uc010zup.1_Silent_p.K39K|GSS_uc002xbh.2_RNA|GSS_uc010gez.1_5'UTR	NM_000178	NP_000169	P48637	GSHB_HUMAN	glutathione synthetase	108					nervous system development|response to oxidative stress|xenobiotic metabolic process	cytosol	ATP binding|glutathione binding|glutathione synthase activity|magnesium ion binding|protein homodimerization activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(18;0.035)		Glutathione(DB00143)|Glycine(DB00145)|L-Cysteine(DB00151)	TTAGGACTTGCTTGTGGATGT	0.453													8	21					0	0	0.006214	0	0		T	33530761	T	T	33530761	2	4	134	1	0	0	0	0	0	0	0	1	6845	796	28	2		2	GSS	20	33530761	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	79563	33530761	29494759	1625	74283											
KIAA0406	9675	broad.mit.edu	37	chr20	36627613	36627613	+	Frame_Shift_Del	DEL	G	-	-																															gaaggctctaagcactgccaGgggggcgtcccgtgtgagtc																								rs149568606		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:36627613delG	uc002xhl.2	-	6	2979	c.2770delC	c.(2770-2772)CTGfs	p.L924fs	KIAA0406_uc002xhm.2_Frame_Shift_Del_p.L924fs	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	924							binding				0		Myeloproliferative disorder(115;0.00874)				AGCACTGCCAGGGGGGCGTCC	0.577													53	114	---	---	---	---						.	-	36627613	-	-	36627613	7	5	134	1	0	1	0	1	0	0	0	0	8189	991	35	0	515	0	KIAA0406	20	36627613	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	3096852	36627613	26397907	1626	74284											
SLC32A1	140679	broad.mit.edu	37	chr20	37356949	37356949	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttccaggaaggcagccgCgcctttttcccggcctgcta	5	10	10	16	3	1	0	0	0	1	0	3	1	3	1	5	3	2	2	5	3	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:37356949C>T	uc002xjc.2	+	2	1508	c.1245C>T	c.(1243-1245)CGC>CGT	p.R415R		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	415	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	AAGGCAGCCGCGCCTTTTTCC	0.622													27	38					0	0	0.013726	0	0		T	37356949	T	T	37356949	2	4	134	1	0	0	0	0	0	0	0	1	14590	755	27	1		1	SLC32A1	20	37356949	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	729336	37356949	25668571	1627	74285											
DHX35	60625	broad.mit.edu	37	chr20	37652340	37652340	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattctttccagattcgagTgcaccgtaaatttgctgtgg	8	15	9	9	2	2	1	1	0	1	1	4	2	3	1	2	1	2	3	2	1	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:37652340T>C	uc002xjh.2	+	17	1612	c.1601T>C	c.(1600-1602)GTG>GCG	p.V534A	DHX35_uc010zwa.1_Missense_Mutation_p.V379A|DHX35_uc010zwb.1_Missense_Mutation_p.V379A|DHX35_uc010zwc.1_Missense_Mutation_p.V503A	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	534						catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CAGATTCGAGTGCACCGTAAA	0.313													4	122					0	0	0.000602	0	0		C	37652340	C	C	37652340	3	2	134	1	0	0	0	0	1	0	0	0	4514	1696	59	3	1667	3	DHX35	20	37652340	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	295391	37652340	25373180	1628	74286											
PTPRT	11122	broad.mit.edu	37	chr20	40911166	40911166	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagttgattttggtctcCtgtgaacaacaaaaatgaga	15	11	8	7	0	1	3	0	3	1	1	2	4	1	3	1	1	2	1	1	1	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:40911166C>T	uc002xkg.2	-	13	2324	c.2140_splice	c.e13-1	p.E714_splice	PTPRT_uc010ggj.2_Splice_Site_p.E714_splice	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TTTTGGTCTCCTGTGAACAAC	0.323													59	89					0	0	0.01441	0	0		T	40911166	T	T	40911166	5	4	134	1	0	0	0	0	0	0	1	0	12837	695	24	4	2323	4	PTPRT	20	40911166	Splice_Site	SNP	C	TCGA-CG-4442-01A-01D-1158-08	3258826	40911166	22114354	1629	74287											
IFT52	51098	broad.mit.edu	37	chr20	42252676	42252676	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggataccacctccttccacaGcgtcatcgagtcagtacctg	9	9	8	15	2	2	0	2	0	0	0	5	2	4	1	5	1	3	1	5	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:42252676G>T	uc002xkw.2	+	10	1036	c.914G>T	c.(913-915)AGC>ATC	p.S305I	IFT52_uc002xky.2_Missense_Mutation_p.S305I|IFT52_uc002xkx.2_RNA|IFT52_uc010ggn.2_Missense_Mutation_p.S281I|IFT52_uc002xkz.2_Missense_Mutation_p.S305I	NM_016004	NP_057088	Q9Y366	IFT52_HUMAN	intraflagellar transport 52 homolog	305						intraflagellar transport particle B|microtubule-based flagellum	protein C-terminus binding			ovary(2)	2		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TCCTTCCACAGCGTCATCGAG	0.532													103	242					3.33091e-50	3.97733e-50	0.01441	1	0		T	42252676	T	T	42252676	3	4	134	1	0	0	0	0	1	0	0	0	7577	971	34	5	948	5	IFT52	20	42252676	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1341510	42252676	20772844	1630	74288											
SERINC3	10955	broad.mit.edu	37	chr20	43141554	43141554	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatccgatacacagctttatAaccaaccagcacatcacaat	16	8	4	13	1	1	0	1	0	0	0	2	2	2	0	3	0	5	2	3	0	5	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:43141554A>G	uc002xme.2	-	3	417	c.283T>C	c.(283-285)TAT>CAT	p.Y95H	SERINC3_uc002xmf.1_Missense_Mutation_p.Y95H|SERINC3_uc010ggs.1_Missense_Mutation_p.Y88H|SERINC3_uc010zwp.1_Missense_Mutation_p.Y40H	NM_198941	NP_945179	Q13530	SERC3_HUMAN	tumor differentially expressed protein 1	95	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			skin(3)	3		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.000291)|COAD - Colon adenocarcinoma(18;0.00189)			ACAGCTTTATAACCAACCAGC	0.388													49	119					0	0	0.01441	0	0		G	43141554	G	G	43141554	3	3	134	1	0	0	0	0	1	0	0	0	14106	362	13	3	1170	3	SERINC3	20	43141554	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	888878	43141554	19883966	1631	74289											
KCNS1	3787	broad.mit.edu	37	chr20	43727239	43727239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctcagctgccgccgcacGccacccacgttcacgcgcag	6	4	11	20	7	2	0	2	0	0	0	2	0	2	0	4	0	2	5	4	0	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:43727239G>A	uc002xnc.2	-	4	571	c.174C>T	c.(172-174)GGC>GGT	p.G58G	KCNS1_uc002xnd.2_Silent_p.G58G	NM_002251	NP_002242	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel	58	Cytoplasmic (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity|protein binding				0		Myeloproliferative disorder(115;0.0122)				GCCGCCGCACGCCACCCACGT	0.761													9	4					0	0	0.006214	0	0		A	43727239	A	A	43727239	2	1	134	1	0	0	0	0	0	0	0	1	8104	1074	38	1		1	KCNS1	20	43727239	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	585685	43727239	19298281	1632	74290											
ZSWIM3	140831	broad.mit.edu	37	chr20	44505669	44505669	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctagataaggtacaagtgTcctcaaagccagagcaggaa	15	6	11	9	0	1	2	1	0	0	2	2	3	2	3	3	2	3	2	3	2	6	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:44505669T>C	uc002xqd.2	+	2	675	c.472T>C	c.(472-474)TCC>CCC	p.S158P	ZSWIM3_uc010zxg.1_Missense_Mutation_p.S152P	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	158							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				GGTACAAGTGTCCTCAAAGCC	0.498													27	71					0	0	0.00632	0	0		C	44505669	C	C	44505669	3	2	134	1	0	0	0	0	1	0	0	0	18267	1667	58	3	478	3	ZSWIM3	20	44505669	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	778430	44505669	18519851	1633	74291											
CD40	958	broad.mit.edu	37	chr20	44747031	44747031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctggggctgcttgctgaccGctgtgagttgtttttgcccc	2	15	13	11	1	1	2	0	2	1	0	1	2	1	2	3	2	3	6	3	2	0	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:44747031G>A	uc002xrg.1	+	1	126	c.49G>A	c.(49-51)GCT>ACT	p.A17T	CD40_uc002xrf.1_Missense_Mutation_p.A17T|CD40_uc002xrh.1_Missense_Mutation_p.A17T|CD40_uc002xri.1_Missense_Mutation_p.A17T|CD40_uc002xrj.1_RNA|CD40_uc002xrk.1_RNA	NM_001250	NP_001241	P25942	TNR5_HUMAN	CD40 antigen isoform 1 precursor	17					B cell proliferation|cellular response to mechanical stimulus|inflammatory response|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein complex assembly	CD40 receptor complex|extracellular region	enzyme binding|receptor activity			lung(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)			Simvastatin(DB00641)	CTTGCTGACCGCTGTGAGTTG	0.612									Immune_Deficiency_with_Hyper-IgM				21	39					0	0	0.005443	0	0		A	44747031	A	A	44747031	3	1	134	1	0	0	0	0	1	0	0	0	3018	1087	38	1	51	1	CD40	20	44747031	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	241362	44747031	18278489	1634	74292											
CDH22	64405	broad.mit.edu	37	chr20	44839105	44839105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcacgatcgcctggtcgCggaacgtgcccaggtcggcg	5	5	16	15	9	0	0	0	0	0	0	3	2	0	1	2	4	2	1	2	4	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:44839105C>T	uc002xrm.2	-	6	1528	c.1127G>A	c.(1126-1128)CGC>CAC	p.R376H	CDH22_uc010ghk.1_Missense_Mutation_p.R376H|CDH22_uc002xrn.1_Missense_Mutation_p.R127H	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	376	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				CGCCTGGTCGCGGAACGTGCC	0.711													15	19					0	0	0.00245	0	0		T	44839105	T	T	44839105	3	4	134	1	0	0	0	0	1	0	0	0	3110	768	27	1	1383	1	CDH22	20	44839105	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	92074	44839105	18186415	1635	74293											
ZNF334	55713	broad.mit.edu	37	chr20	45130215	45130215	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgagttcgctgatgttcaAcaaaggagaacttctgacag	12	11	11	7	1	2	4	1	3	1	1	3	5	2	4	0	1	2	3	0	1	3	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:45130215A>G	uc002xsc.2	-	5	1947	c.1763T>C	c.(1762-1764)GTT>GCT	p.V588A	ZNF334_uc002xsa.2_Missense_Mutation_p.V611A|ZNF334_uc002xsb.2_Missense_Mutation_p.V550A|ZNF334_uc002xsd.2_Missense_Mutation_p.V550A|ZNF334_uc010ghl.2_Missense_Mutation_p.V587A	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	588	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				CTGATGTTCAACAAAGGAGAA	0.443													65	251					0	0	0.01441	0	0		G	45130215	G	G	45130215	3	3	134	1	0	0	0	0	1	0	0	0	17876	43	2	3	283	3	ZNF334	20	45130215	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	291110	45130215	17895305	1636	74294											
NCOA3	8202	broad.mit.edu	37	chr20	46265284	46265284	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtataacttcttgtggggaCggaaatgttgtcaagcagga	12	11	13	5	1	2	0	1	0	1	0	2	3	2	3	0	4	2	3	0	4	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:46265284C>T	uc002xtk.2	+	12	2359	c.2154C>T	c.(2152-2154)GAC>GAT	p.D718D	NCOA3_uc010ght.1_Silent_p.D728D|NCOA3_uc002xtl.2_Silent_p.D718D|NCOA3_uc002xtm.2_Silent_p.D718D|NCOA3_uc002xtn.2_Silent_p.D718D|NCOA3_uc010zyc.1_Silent_p.D513D	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	718					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						CTTGTGGGGACGGAAATGTTG	0.473													48	67					0	0	0.01441	0	0		T	46265284	T	T	46265284	2	4	134	1	0	0	0	0	0	0	0	1	10249	535	19	1		1	NCOA3	20	46265284	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1135069	46265284	16760236	1637	74295											
SPATA2	9825	broad.mit.edu	37	chr20	48522877	48522877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggtcgtcccccacatccGttgccacaggctccttccga	6	9	9	17	3	0	1	0	1	0	0	5	2	4	1	6	2	1	2	6	2	0	2	rs140549434		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:48522877G>A	uc010gie.2	-	3	1192	c.842C>T	c.(841-843)ACG>ATG	p.T281M	SPATA2_uc002xuw.2_Missense_Mutation_p.T281M|SPATA2_uc010zyn.1_Missense_Mutation_p.T144M	NM_001135773	NP_001129245	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	281					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			CCCCACATCCGTTGCCACAGG	0.627													42	68					0	0	0.009718	0	0		A	48522877	A	A	48522877	3	1	134	1	0	0	0	0	1	0	0	0	15030	1145	40	1	724	1	SPATA2	20	48522877	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	2257593	48522877	14502643	1638	74296											
ADNP	23394	broad.mit.edu	37	chr20	49510674	49510674	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttgctatgtaaggtgctgCcacatgctgaaaatgttccc	9	13	9	10	0	0	1	0	1	0	0	1	1	1	1	2	1	4	5	2	1	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:49510674C>A	uc002xvt.1	-	5	922	c.577G>T	c.(577-579)GCA>TCA	p.A193S	ADNP_uc002xvu.1_Missense_Mutation_p.A193S	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	193						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						TAAGGTGCTGCCACATGCTGA	0.443													91	171					3.91996e-59	4.70302e-59	0.01441	1	0		A	49510674	A	A	49510674	3	1	134	1	0	0	0	0	1	0	0	0	323	739	26	5	2735	5	ADNP	20	49510674	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	987797	49510674	13514846	1639	74297											
ADNP	23394	broad.mit.edu	37	chr20	49510754	49510754	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaagtgcacttcttacagTaataaacagcttgctctaca	13	12	7	9	0	2	0	0	0	2	0	2	0	2	0	0	1	6	5	0	1	6	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:49510754T>C	uc002xvt.1	-	5	842	c.497A>G	c.(496-498)TAC>TGC	p.Y166C	ADNP_uc002xvu.1_Missense_Mutation_p.Y166C	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	166	C2H2-type 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						CTTCTTACAGTAATAAACAGC	0.423													122	343					0	0	0.01441	0	0		C	49510754	C	C	49510754	3	2	134	1	0	0	0	0	1	0	0	0	323	1638	57	3	2815	3	ADNP	20	49510754	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	80	49510754	13514766	1640	74298											
ZFP64	55734	broad.mit.edu	37	chr20	50705027	50705027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgctcatcagagtggatccGcaggtgcttcttgaggctac	7	10	12	12	2	3	2	2	1	1	1	4	3	4	3	2	3	2	4	2	3	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:50705027G>A	uc002xwk.2	-	8	1481	c.1132C>T	c.(1132-1134)CGG>TGG	p.R378W	ZFP64_uc002xwj.2_Missense_Mutation_p.R159W	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	335	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GAGTGGATCCGCAGGTGCTTC	0.602													65	82					0	0	0.01441	0	0		A	50705027	A	A	50705027	3	1	134	1	0	0	0	0	1	0	0	0	17677	1086	38	1	813	1	ZFP64	20	50705027	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1194273	50705027	12320493	1641	74299											
ZFP64	55734	broad.mit.edu	37	chr20	50769628	50769628	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgcacttgaaagggcggTcggtgcagtggatacgctcg	8	9	16	8	4	0	1	0	1	0	0	2	2	0	2	0	4	3	4	0	4	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:50769628T>C	uc002xwl.2	-	6	1452	c.1103A>G	c.(1102-1104)GAC>GGC	p.D368G	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.D366G|ZFP64_uc002xwn.2_Missense_Mutation_p.D314G	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	368					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GAAAGGGCGGTCGGTGCAGTG	0.577													8	165					0	0	0.004482	0	0		C	50769628	C	C	50769628	3	2	134	1	0	0	0	0	1	0	0	0	17677	1667	58	3	2137	3	ZFP64	20	50769628	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	64601	50769628	12255892	1642	74300											
TSHZ2	128553	broad.mit.edu	37	chr20	51872037	51872037	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgctctgagcaatgggtgCgccctcgccaaccacgcccc	6	7	10	18	3	2	1	0	1	2	0	3	1	2	1	5	1	4	2	5	1	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:51872037C>T	uc002xwo.2	+	2	2996	c.2040C>T	c.(2038-2040)TGC>TGT	p.C680C		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	680					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GCAATGGGTGCGCCCTCGCCA	0.632													28	47					0	0	0.008361	0	0		T	51872037	T	T	51872037	2	4	134	1	0	0	0	0	0	0	0	1	16650	776	27	1		1	TSHZ2	20	51872037	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1102409	51872037	11153483	1643	74301											
BCAS1	8537	broad.mit.edu	37	chr20	52645436	52645436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattctttccgttggcatccGcaacagcacttatctccgtt	7	14	7	13	3	2	0	0	0	2	0	5	1	4	0	3	1	2	5	3	1	2	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:52645436G>A	uc002xws.2	-	4	556	c.218C>T	c.(217-219)GCG>GTG	p.A73V	BCAS1_uc010zzb.1_5'UTR|BCAS1_uc010gim.2_5'UTR|BCAS1_uc002xwt.2_Missense_Mutation_p.A73V|BCAS1_uc010gil.1_Missense_Mutation_p.A73V|BCAS1_uc010zzc.1_5'UTR	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	73						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			GTTGGCATCCGCAACAGCACT	0.493													29	34					0	0	0.013726	0	0		A	52645436	A	A	52645436	3	1	134	1	0	0	0	0	1	0	0	0	1351	1087	38	1	1572	1	BCAS1	20	52645436	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	773399	52645436	10380084	1644	74302											
TUBB1	81027	broad.mit.edu	37	chr20	57597917	57597917	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttctgggagatgattggTgaggaacacgggatcgactt	10	10	15	6	2	1	3	0	2	1	1	2	7	1	5	0	4	1	1	0	4	1	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:57597917T>C	uc002yak.2	+	2	344	c.75T>C	c.(73-75)GGT>GGC	p.G25G		NM_030773	NP_110400	Q9H4B7	TBB1_HUMAN	beta tubulin 1, class VI	25					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity			ovary(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)		Colchicine(DB01394)|Docetaxel(DB01248)|Paclitaxel(DB01229)|Vindesine(DB00309)	AGATGATTGGTGAGGAACACG	0.552													38	50					0	0	0.01441	0	0		C	57597917	C	C	57597917	2	2	134	1	0	0	0	0	0	0	0	1	16779	1683	59	3		3	TUBB1	20	57597917	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4952481	57597917	5427603	1645	74303											
ZNF831	128611	broad.mit.edu	37	chr20	57769627	57769627	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgagccgcggctcacgTggtgttgcctgagccgcagt	5	8	16	12	4	1	2	1	2	0	0	1	2	1	2	3	3	3	4	3	3	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:57769627T>C	uc002yan.2	+	1	3553	c.3553T>C	c.(3553-3555)TGG>CGG	p.W1185R		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1185						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GCGGCTCACGTGGTGTTGCCT	0.637													41	71					0	0	0.010771	0	0		C	57769627	C	C	57769627	3	2	134	1	0	0	0	0	1	0	0	0	18210	1696	59	3	3555	3	ZNF831	20	57769627	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	171710	57769627	5255893	1646	74304											
SYCP2	10388	broad.mit.edu	37	chr20	58467740	58467741	+	Frame_Shift_Ins	INS	-	T	T																															ttatttccacagatgttgtcINStaaaacaccaggtaatctag																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:58467740_58467741insT	uc002yaz.2	-	22	1948_1949	c.1809_1810insA	c.(1807-1812)TTAGACfs	p.L603fs		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	603_604					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			CAGATGTTGTCTAAAACACCAG	0.332													42	57	---	---	---	---						.	T	58467741	T	T	58467740	7	5	134	1	0	1	1	0	0	0	0	0	15457	913	32	0	2874	0	SYCP2	20	58467740	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	698113	58467740	4557780	1647	74305											
PPP1R3D	5509	broad.mit.edu	37	chr20	58514148	58514148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatgtgcagcgcgtggttgCgacatgtgaggctgtagtct	6	11	16	8	3	1	1	0	1	1	0	1	2	1	1	0	2	3	5	0	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:58514148C>T	uc002ybb.2	-	1	1205	c.839G>A	c.(838-840)CGC>CAC	p.R280H	C20orf177_uc002yba.2_Intron|C20orf177_uc010zzx.1_5'Flank|C20orf177_uc002ybc.2_5'Flank	NM_006242	NP_006233	O95685	PPR3D_HUMAN	protein phosphatase 1, regulatory subunit 3D	280					glycogen metabolic process		protein binding|protein serine/threonine phosphatase activity				0	all_lung(29;0.00391)		BRCA - Breast invasive adenocarcinoma(7;5.12e-09)			CGCGTGGTTGCGACATGTGAG	0.652													27	48					0	0	0.013726	0	0		T	58514148	T	T	58514148	3	4	134	1	0	0	0	0	1	0	0	0	12396	768	27	1	64	1	PPP1R3D	20	58514148	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	46408	58514148	4511372	1648	74306											
CDH4	1002	broad.mit.edu	37	chr20	60498546	60498546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacagagctttcatgctgaCagtgatggtgtccaaccagg	11	9	11	10	0	1	3	1	2	0	1	2	3	2	3	2	2	4	2	2	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:60498546C>T	uc002ybn.1	+	10	1426	c.1412C>T	c.(1411-1413)ACA>ATA	p.T471I	CDH4_uc002ybp.1_Missense_Mutation_p.T397I	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	471	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			TTCATGCTGACAGTGATGGTG	0.602													51	57					0	0	0.01441	0	0		T	60498546	T	T	60498546	3	4	134	1	0	0	0	0	1	0	0	0	3115	478	17	4	1450	4	CDH4	20	60498546	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1984398	60498546	2526974	1649	74307											
CDH4	1002	broad.mit.edu	37	chr20	60509183	60509183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagcaaagcccctggcgtgCgtcgcgtggatgagcggccg	7	5	16	13	6	0	1	0	1	0	0	1	2	0	2	3	3	4	1	3	3	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:60509183C>T	uc002ybn.1	+	15	2463	c.2449C>T	c.(2449-2451)CGT>TGT	p.R817C	CDH4_uc002ybp.1_Missense_Mutation_p.R743C	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	817	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			CCCTGGCGTGCGTCGCGTGGA	0.682													25	37					0	0	0.007291	0	0		T	60509183	T	T	60509183	3	4	134	1	0	0	0	0	1	0	0	0	3115	768	27	1	2507	1	CDH4	20	60509183	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	10637	60509183	2516337	1650	74308											
LAMA5	3911	broad.mit.edu	37	chr20	60887787	60887787	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacaccgtggcccgctccAcacgcaccagcacacgcttg	8	6	9	18	4	0	0	0	0	0	0	1	0	1	0	4	1	2	5	4	1	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:60887787A>G	uc002ycq.2	-	67	9195	c.9128T>C	c.(9127-9129)GTG>GCG	p.V3043A		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3043	Laminin G-like 2.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGCCCGCTCCACACGCACCAG	0.701													3	4					0	0	0.000602	0	0		G	60887787	G	G	60887787	3	3	134	1	0	0	0	0	1	0	0	0	8625	159	6	3	2015	3	LAMA5	20	60887787	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	378604	60887787	2137733	1651	74309											
COL20A1	57642	broad.mit.edu	37	chr20	61943318	61943318	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagacgtgagccacgacGcggcacgagtgttctgggag	8	7	15	11	5	2	2	1	1	2	1	3	5	2	3	1	2	1	2	1	2	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:61943318G>T	uc011aau.1	+	14	1814	c.1714G>T	c.(1714-1716)GCG>TCG	p.A572S	COL20A1_uc011aav.1_Missense_Mutation_p.A393S	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	572	Fibronectin type-III 4.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					GAGCCACGACGCGGCACGAGT	0.677													4	9					0.00909568	0.0098655	0.009096	1	0		T	61943318	T	T	61943318	3	4	134	1	0	0	0	0	1	0	0	0	3682	1087	38	5	1764	5	COL20A1	20	61943318	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1055531	61943318	1082202	1652	74310											
PRIC285	85441	broad.mit.edu	37	chr20	62196027	62196027	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgcctccacgtccagcaccCcgtccctgggcacgaagctg	6	5	11	19	4	0	0	0	0	0	0	3	1	3	0	6	1	2	3	6	1	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:62196027C>A	uc002yfm.2	-	9	5040	c.4148G>T	c.(4147-4149)GGG>GTG	p.G1383V	PRIC285_uc002yfl.1_Missense_Mutation_p.G814V	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1383					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			GTCCAGCACCCCGTCCCTGGG	0.682													9	16					0.000274275	0.000299263	0.004482	1	0		A	62196027	A	A	62196027	3	1	134	1	0	0	0	0	1	0	0	0	12507	623	22	5	3849	5	PRIC285	20	62196027	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	252709	62196027	829493	1653	74311											
ZNF512B	57473	broad.mit.edu	37	chr20	62598853	62598853	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctggccgggcactgtctGtccaccacggaccaccggca	6	5	13	17	3	1	0	0	0	1	0	2	1	2	1	6	5	0	2	6	5	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:62598853G>A	uc002yhl.1	-	3	199	c.145C>T	c.(145-147)CAG>TAG	p.Q49*		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	49					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					GGCACTGTCTGTCCACCACGG	0.627													67	152					0	0	0.01441	0	0		A	62598853	A	A	62598853	4	1	134	1	0	0	0	0	0	1	0	0	17982	1386	48	4	2593	4	ZNF512B	20	62598853	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	402826	62598853	426667	1654	74312											
OPRL1	4987	broad.mit.edu	37	chr20	62729410	62729410	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgccctcgacgtccgcacGtccagcaaagcccaggctgt	7	6	11	17	5	0	0	0	0	0	0	3	1	2	0	4	1	3	3	4	1	1	0	rs141501506		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:62729410G>A	uc002yic.2	+	4	891	c.489G>A	c.(487-489)ACG>ACA	p.T163T	OPRL1_uc002yid.2_Silent_p.T163T|OPRL1_uc002yif.3_Silent_p.T158T	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	163	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					ACGTCCGCACGTCCAGCAAAG	0.587													51	79					0	0	0.01441	0	0		A	62729410	A	A	62729410	2	1	134	1	0	0	0	0	0	0	0	1	10905	1132	40	1		1	OPRL1	20	62729410	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	130557	62729410	296110	1655	74313											
NPBWR2	2832	broad.mit.edu	37	chr20	62738003	62738003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgacggccgtgttgccaGtcagccccacagcacagatc	9	6	12	14	2	1	2	1	1	0	1	2	3	1	3	4	2	3	2	4	2	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:62738003G>A	uc011abt.1	-	1	182	c.182C>T	c.(181-183)ACT>ATT	p.T61I		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	61	Helical; Name=1; (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					CGTGTTGCCAGTCAGCCCCAC	0.607													33	42					0	0	0.012213	0	0		A	62738003	A	A	62738003	3	1	134	1	0	0	0	0	1	0	0	0	10588	1029	36	4	822	4	NPBWR2	20	62738003	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	8593	62738003	287517	1656	74314											
MYT1	4661	broad.mit.edu	37	chr20	62839761	62839761	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgggctgcccgcctgccgaGcagagccagctgggcctggg	4	4	17	16	3	0	1	0	0	0	1	0	2	0	1	6	3	5	3	6	3	0	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:62839761G>A	uc002yii.2	+	7	1576	c.1212G>A	c.(1210-1212)GAG>GAA	p.E404E	MYT1_uc002yih.2_Intron|MYT1_uc002yij.2_Silent_p.E36E	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	404					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					CGCCTGCCGAGCAGAGCCAGC	0.652													9	25					0	0	0.001855	0	0		A	62839761	A	A	62839761	2	1	134	1	0	0	0	0	0	0	0	1	10124	962	34	2		2	MYT1	20	62839761	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	101758	62839761	185759	1657	74315											
MYT1	4661	broad.mit.edu	37	chr20	62871118	62871118	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctctggcacagatctcCtccatggagaagaacctgaa	11	9	8	13	0	3	4	0	1	3	3	6	5	4	4	3	2	1	1	3	2	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr20:62871118C>A	uc002yii.2	+	22	3463	c.3099C>A	c.(3097-3099)TCC>TCA	p.S1033S	MYT1_uc002yij.2_Silent_p.S692S|MYT1_uc002yik.2_5'UTR	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	1033					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					CACAGATCTCCTCCATGGAGA	0.587													59	74					7.50695e-29	8.80186e-29	0.01441	1	0		A	62871118	A	A	62871118	2	1	134	1	0	0	0	0	0	0	0	1	10124	668	24	5		5	MYT1	20	62871118	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	31357	62871118	154402	1658	74316											
TPTE	7179	broad.mit.edu	37	chr21	10969127	10969127	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttaaattcacttgtgtgtgGgctagaggatgataaaagaa	14	13	11	3	0	1	3	1	1	0	2	1	4	1	4	0	2	0	1	0	2	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:10969127G>T	uc002yip.1	-	7	489	c.121C>A	c.(121-123)CCA>ACA	p.P41T	TPTE_uc002yis.1_Intron|TPTE_uc002yiq.1_Intron|TPTE_uc002yir.1_Intron|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	41					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CTTGTGTGTGGGCTAGAGGAT	0.269													64	309					2.165e-29	2.54141e-29	0.01441	1	0		T	10969127	T	T	10969127	3	4	134	1	0	0	0	0	1	0	0	0	16456	1246	43	5	1606	5	TPTE	21	10969127	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08		10969127	37160768	1659	74317											
NCAM2	4685	broad.mit.edu	37	chr21	22664426	22664426	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgctttctttccagatCggttcgctatgttagcaaac	7	16	7	11	2	1	1	0	0	1	1	4	1	2	1	2	1	3	5	2	1	3	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:22664426C>A	uc002yld.1	+	5	733	c.484C>A	c.(484-486)CGG>AGG	p.R162R	NCAM2_uc011acb.1_Silent_p.R20R|NCAM2_uc011acc.1_Silent_p.R187R	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	162	Ig-like C2-type 2.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		CTTTCCAGATCGGTTCGCTAT	0.403													41	79					3.77016e-25	4.38725e-25	0.013114	1	0		A	22664426	A	A	22664426	2	1	134	1	0	0	0	0	0	0	0	1	10222	875	31	5		5	NCAM2	21	22664426	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	11695299	22664426	25465469	1660	74318											
APP	351	broad.mit.edu	37	chr21	27394347	27394347	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcctctgctacttctactActttgtcttcactgtgaagg	6	16	6	13	0	4	1	1	1	3	0	5	1	5	1	2	1	4	1	2	1	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:27394347A>G	uc002ylz.2	-	6	874	c.674T>C	c.(673-675)GTA>GCA	p.V225A	APP_uc010glk.2_Missense_Mutation_p.V220A|APP_uc002yma.2_Missense_Mutation_p.V225A|APP_uc011ach.1_Missense_Mutation_p.V169A|APP_uc002ymb.2_Missense_Mutation_p.V225A|APP_uc010glj.2_Missense_Mutation_p.V169A|APP_uc011aci.1_Missense_Mutation_p.V190A|APP_uc011acj.1_Missense_Mutation_p.V225A	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	225	Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				tacttctactactttgtcttc	0.154													4	222					0	0	0.009096	0	0		G	27394347	G	G	27394347	3	3	134	1	0	0	0	0	1	0	0	0	815	391	14	3	1690	3	APP	21	27394347	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	4729921	27394347	20735548	1661	74319											
CLDN17	26285	broad.mit.edu	37	chr21	31538742	31538742	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaacaaggagctatagaacTtgcattgcaaccggaccctg	13	7	9	12	1	0	1	0	0	0	1	0	3	0	3	3	2	6	3	3	2	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:31538742T>C	uc011acv.1	-	1	194	c.194A>G	c.(193-195)AAG>AGG	p.K65R		NM_012131	NP_036263	P56750	CLD17_HUMAN	claudin 17	65	Extracellular (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	Golgi apparatus|integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(2)	2						GCTATAGAACTTGCATTGCAA	0.542													3	146					0	0	0.009096	0	0		C	31538742	C	C	31538742	3	2	134	1	0	0	0	0	1	0	0	0	3481	1609	56	3	484	3	CLDN17	21	31538742	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4144395	31538742	16591153	1662	74320											
KRTAP13-2	337959	broad.mit.edu	37	chr21	31744414	31744414	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtgctgggagagcagaGgtcagtgctgtagaccagat	10	7	17	7	0	1	4	1	0	0	4	1	5	1	4	1	3	3	5	1	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:31744414G>T	uc002ynz.3	-	1	144	c.118C>A	c.(118-120)CTC>ATC	p.L40I		NM_181621	NP_853652	Q52LG2	KR132_HUMAN	keratin associated protein 13-2	40						intermediate filament					0						GGAGAGCAGAGGTCAGTGCTG	0.592													61	128					7.55815e-43	8.97698e-43	0.01441	1	0		T	31744414	T	T	31744414	3	4	134	1	0	0	0	0	1	0	0	0	8539	1000	35	5	413	5	KRTAP13-2	21	31744414	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	205672	31744414	16385481	1663	74321											
SYNJ1	8867	broad.mit.edu	37	chr21	34003306	34003306	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttttctattgcatggcgtTatctttctgtaaagtccagt	7	19	8	7	1	3	0	0	0	3	0	4	0	4	0	1	1	1	4	1	1	4	7			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:34003306T>C	uc002yqh.2	-	32	4838	c.4838A>G	c.(4837-4839)TAA>TGA	p.*1613*	SYNJ1_uc011ads.1_3'UTR|SYNJ1_uc002yqf.2_3'UTR|SYNJ1_uc002yqg.2_Silent_p.*1527*|SYNJ1_uc002yqi.2_3'UTR|SYNJ1_uc002yqe.3_Silent_p.*199*	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	1613							inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						TGCATGGCGTTATCTTTCTGT	0.478													3	70					0	0	0.004672	0	0		C	34003306	C	C	34003306	2	2	134	1	0	0	0	0	0	0	0	1	15477	1761	61	3		3	SYNJ1	21	34003306	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2258892	34003306	14126589	1664	74322											
SYNJ1	8867	broad.mit.edu	37	chr21	34045776	34045776	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggttccgacacatactcGaattttcttaggctttgaat	10	14	7	10	2	1	1	0	1	1	0	3	3	2	1	2	2	1	2	2	2	4	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:34045776G>A	uc002yqh.2	-	14	1717	c.1717C>T	c.(1717-1719)CGA>TGA	p.R573*	SYNJ1_uc011ads.1_Nonsense_Mutation_p.R529*|SYNJ1_uc002yqf.2_Nonsense_Mutation_p.R534*|SYNJ1_uc002yqg.2_Nonsense_Mutation_p.R529*|SYNJ1_uc002yqi.2_Nonsense_Mutation_p.R573*	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	534	Catalytic (Potential).						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						ACACATACTCGAATTTTCTTA	0.388													45	73					0	0	0.011902	0	0		A	34045776	A	A	34045776	4	1	134	1	0	0	0	0	0	1	0	0	15477	1066	37	1	3222	1	SYNJ1	21	34045776	Nonsense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	42470	34045776	14084119	1665	74323											
PRDM15	63977	broad.mit.edu	37	chr21	43248570	43248570	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgacgtccttgcggtagaAcatcttgctgcagacctcac	9	10	9	13	2	2	3	1	1	1	2	3	3	3	3	2	1	4	3	2	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:43248570A>G	uc002yzq.1	-	19	2695	c.2584T>C	c.(2584-2586)TTC>CTC	p.F862L	PRDM15_uc002yzo.2_Missense_Mutation_p.F533L|PRDM15_uc002yzp.2_Missense_Mutation_p.F553L|PRDM15_uc002yzr.1_Missense_Mutation_p.F553L	NM_022115	NP_071398	P57071	PRD15_HUMAN	PR domain containing 15 isoform 1	862	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTGCGGTAGAACATCTTGCTG	0.602													13	469					0	0	0.001855	0	0		G	43248570	G	G	43248570	3	3	134	1	0	0	0	0	1	0	0	0	12478	43	2	3	1991	3	PRDM15	21	43248570	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	9202794	43248570	4881325	1666	74324											
CBS	875	broad.mit.edu	37	chr21	44486452	44486452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctgatgcggtccttcaCgctcccgcccgcgttgaaga	6	8	12	15	5	1	3	1	2	0	1	3	3	3	3	3	2	1	3	3	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:44486452C>T	uc002zcu.2	-	5	597	c.352G>A	c.(352-354)GTG>ATG	p.V118M	CBS_uc002zcs.1_Missense_Mutation_p.V13M|CBS_uc002zct.2_Missense_Mutation_p.V118M|CBS_uc002zcw.3_Missense_Mutation_p.V118M|CBS_uc002zcv.2_Missense_Mutation_p.V118M	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	118					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	CGGTCCTTCACGCTCCCGCCC	0.627													42	76					0	0	0.01441	0	0		T	44486452	T	T	44486452	3	4	134	1	0	0	0	0	1	0	0	0	2714	536	19	1	1355	1	CBS	21	44486452	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1237882	44486452	3643443	1667	74325											
PDXK	8566	broad.mit.edu	37	chr21	45163612	45163612	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctccccctaaaggttatacGagggacaagtcgttcctggc	9	10	10	12	2	1	0	0	0	1	0	4	2	2	1	3	3	1	2	3	3	5	4	rs144786200		TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:45163612G>A	uc002zdm.3	+	4	453	c.255G>A	c.(253-255)ACG>ACA	p.T85T	PDXK_uc010gpj.2_Silent_p.T85T|PDXK_uc002zdn.3_Intron|PDXK_uc002zdq.3_Silent_p.T12T	NM_003681	NP_003672	O00764	PDXK_HUMAN	pyridoxal kinase	85					cell proliferation|pyridoxal 5'-phosphate salvage	cytosol	ATP binding|lithium ion binding|magnesium ion binding|potassium ion binding|protein homodimerization activity|pyridoxal kinase activity|pyridoxal phosphate binding|sodium ion binding|zinc ion binding				0				Colorectal(79;0.109)|READ - Rectum adenocarcinoma(84;0.161)|STAD - Stomach adenocarcinoma(101;0.18)	Pyridoxal(DB00147)|Pyridoxine(DB00165)	AAGGTTATACGAGGGACAAGT	0.572													15	31					0	0	0.006122	0	0		A	45163612	A	A	45163612	2	1	134	1	0	0	0	0	0	0	0	1	11716	1045	37	1		1	PDXK	21	45163612	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	677160	45163612	2966283	1668	74326											
AGPAT3	56894	broad.mit.edu	37	chr21	45401009	45401009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcttcagttttgtcttggGcgtctttgccagcggatcac	4	15	10	12	2	5	0	2	0	3	0	5	1	5	1	2	2	2	1	2	2	0	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:45401009G>A	uc002zdv.2	+	9	1205	c.983G>A	c.(982-984)GGC>GAC	p.G328D	AGPAT3_uc002zdw.2_Missense_Mutation_p.G328D|AGPAT3_uc002zdx.2_Missense_Mutation_p.G415D|AGPAT3_uc002zdy.2_Missense_Mutation_p.G266D	NM_020132	NP_064517	Q9NRZ7	PLCC_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 3	328	Helical; (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0				STAD - Stomach adenocarcinoma(101;0.18)|Colorectal(79;0.24)		TTTGTCTTGGGCGTCTTTGCC	0.582													7	108					0	0	0.001984	0	0		A	45401009	A	A	45401009	3	1	134	1	0	0	0	0	1	0	0	0	388	1203	42	2	1009	2	AGPAT3	21	45401009	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	237397	45401009	2728886	1669	74327											
DNMT3L	29947	broad.mit.edu	37	chr21	45666330	45666330	+	Frame_Shift_Del	DEL	G	-	-																															atacttgaaatattctcttaGggggagaaagcagttcttca																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:45666330delG	uc002zeg.1	-	12	1595	c.1111delC	c.(1111-1113)CTAfs	p.L371fs	DNMT3L_uc002zeh.1_Frame_Shift_Del_p.L372fs	NM_175867	NP_787063	Q9UJW3	DNM3L_HUMAN	cytosine-5-methyltransferase 3-like protein	371					DNA methylation|negative regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|spermatogenesis	cytosol	enzyme activator activity|enzyme binding|metal ion binding			skin(2)	2				Colorectal(79;0.0165)|READ - Rectum adenocarcinoma(84;0.0781)		TATTCTCTTAGGGGGAGAAAG	0.448													56	100	---	---	---	---						.	-	45666330	-	-	45666330	7	5	134	1	0	1	0	1	0	0	0	0	4684	991	35	0	53	0	DNMT3L	21	45666330	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	265321	45666330	2463565	1670	74328											
C21orf29	54084	broad.mit.edu	37	chr21	45941887	45941887	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagtagggccccacactgAagaactcccagtcgtaggcg	11	5	12	13	3	0	2	0	1	0	1	2	3	1	2	3	2	1	2	3	2	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:45941887A>G	uc002zfe.1	-	9	1511	c.1445T>C	c.(1444-1446)TTC>TCC	p.F482S	C21orf29_uc010gpv.1_Missense_Mutation_p.F414S	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	482	EAR 4.				cell adhesion	extracellular region	structural molecule activity				0						CCCCACACTGAAGAACTCCCA	0.607													83	237					0	0	0.01441	0	0		G	45941887	G	G	45941887	3	3	134	1	0	0	0	0	1	0	0	0	2127	246	9	3	580	3	C21orf29	21	45941887	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	275557	45941887	2188008	1671	74329											
KRTAP10-1	386677	broad.mit.edu	37	chr21	45959500	45959500	+	Frame_Shift_Del	DEL	G	-	-																															acgcagcaggcctgctggcaGggggaggaggtgcagcaagc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:45959500delG	uc002zfh.1	-	1	579	c.534delC	c.(532-534)CCCfs	p.P178fs	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198691	NP_941964	P60331	KR101_HUMAN	keratin associated protein 10-1	178	24 X 5 AA repeats of C-C-X(3).					keratin filament				skin(1)	1						CCTGCTGGCAGGGGGAGGAGG	0.617													115	248	---	---	---	---						.	-	45959500	-	-	45959500	7	5	134	1	0	1	0	1	0	0	0	0	8521	987	35	0	318	0	KRTAP10-1	21	45959500	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	17613	45959500	2170395	1672	74330											
MCM3AP	8888	broad.mit.edu	37	chr21	47695152	47695152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctggctacgggtctccCgcatgtacctctccttctca	5	12	8	16	2	4	0	2	0	3	0	7	0	4	0	3	2	3	4	3	2	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr21:47695152C>T	uc002zir.1	-	6	1982	c.1946G>A	c.(1945-1947)CGG>CAG	p.R649Q		NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	649					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					ACGGGTCTCCCGCATGTACCT	0.592													26	30					0	0	0.004656	0	0		T	47695152	T	T	47695152	3	4	134	1	0	0	0	0	1	0	0	0	9406	652	23	1	4088	1	MCM3AP	21	47695152	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1735652	47695152	434743	1673	74331											
CECR2	27443	broad.mit.edu	37	chr22	18022149	18022149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatcgagtacactctgccGtctggaatgggaaccatggt	10	10	12	9	2	2	1	0	1	2	0	3	4	2	3	2	3	3	1	2	3	4	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:18022149G>A	uc010gqw.1	+	15	2377	c.2251G>A	c.(2251-2253)GTC>ATC	p.V751I	CECR2_uc010gqv.1_Missense_Mutation_p.V610I|CECR2_uc002zml.2_Missense_Mutation_p.V610I	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	793					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		ACACTCTGCCGTCTGGAATGG	0.587													25	56					0	0	0.004656	0	0		A	18022149	A	A	18022149	3	1	134	1	0	0	0	0	1	0	0	0	3209	1145	40	1	2311	1	CECR2	22	18022149	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08		18022149	33282417	1674	74332											
MICAL3	57553	broad.mit.edu	37	chr22	18347700	18347700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggagctggccacggcgttgGcccgtccgtttgcatctgtg	3	11	15	12	4	1	0	0	0	1	0	2	1	2	1	3	4	2	4	3	4	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:18347700G>A	uc002zng.3	-	19	2923	c.2570C>T	c.(2569-2571)GCC>GTC	p.A857V	MICAL3_uc011agl.1_Missense_Mutation_p.A857V|MICAL3_uc002znh.2_Missense_Mutation_p.A857V|MICAL3_uc002znj.1_Missense_Mutation_p.A585V|MICAL3_uc002znk.1_Missense_Mutation_p.A857V|MICAL3_uc002znl.1_Missense_Mutation_p.A490V|MICAL3_uc002znm.2_Missense_Mutation_p.A358V|MICAL3_uc010grf.2_Missense_Mutation_p.A981V	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	857						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		CACGGCGTTGGCCCGTCCGTT	0.587													53	100					0	0	0.01441	0	0		A	18347700	A	A	18347700	3	1	134	1	0	0	0	0	1	0	0	0	9589	1203	42	2	3843	2	MICAL3	22	18347700	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	325551	18347700	32956866	1675	74333											
TUBA8	51807	broad.mit.edu	37	chr22	18604328	18604328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctcttctgcctggaacacgGcatccaggcagacggcactt	8	8	11	14	2	2	1	0	0	2	1	3	2	3	2	2	4	2	4	2	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:18604328G>A	uc002znv.1	+	2	159	c.86G>A	c.(85-87)GGC>GAC	p.G29D	TUBA8_uc002znr.2_5'UTR|TUBA8_uc002znw.1_Missense_Mutation_p.G53D|TUBA8_uc002znu.1_Missense_Mutation_p.G29D	NM_018943	NP_061816	Q9NY65	TBA8_HUMAN	tubulin, alpha 8	29					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0						CTGGAACACGGCATCCAGGCA	0.552													40	57					0	0	0.006999	0	0		A	18604328	A	A	18604328	3	1	134	1	0	0	0	0	1	0	0	0	16776	1203	42	2	92	2	TUBA8	22	18604328	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	256628	18604328	32700238	1676	74334											
CLTCL1	8218	broad.mit.edu	37	chr22	19197931	19197931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgctcgcgatgtccagtgCgtcatagttgtccaggcggc	6	10	14	11	4	1	0	1	0	0	0	4	2	3	0	2	2	2	2	2	2	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:19197931C>T	uc002zpb.2	-	20	3229	c.3154G>A	c.(3154-3156)GCA>ACA	p.A1052T	CLTCL1_uc011agv.1_Missense_Mutation_p.A1052T|CLTCL1_uc011agw.1_Missense_Mutation_p.A1052T|CLTCL1_uc011agt.1_5'Flank|CLTCL1_uc011agu.1_5'Flank|CLTCL1_uc010grm.1_5'Flank|CLTCL1_uc002zpe.2_Missense_Mutation_p.A12T|CLTCL1_uc002zpd.1_Missense_Mutation_p.A12T	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	1052	Proximal segment.|Heavy chain arm.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					ATGTCCAGTGCGTCATAGTTG	0.537			T	?	ALCL								39	66					0	0	0.009718	0	0		T	19197931	T	T	19197931	3	4	134	1	0	0	0	0	1	0	0	0	3570	768	27	1	1820	1	CLTCL1	22	19197931	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	593603	19197931	32106635	1677	74335											
PI4KA	5297	broad.mit.edu	37	chr22	21064220	21064220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcttgattgtctggccgCgaaaacagggcaggcccgtg	9	7	15	10	3	1	2	0	1	1	1	1	3	1	2	2	3	2	2	2	3	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:21064220C>T	uc002zsz.3	-	53	6206	c.5975G>A	c.(5974-5976)CGC>CAC	p.R1992H	PI4KA_uc010gsp.2_Missense_Mutation_p.R383H|PI4KA_uc002zsy.3_Missense_Mutation_p.R802H	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1992	PI3K/PI4K.				phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			TGTCTGGCCGCGAAAACAGGG	0.592													36	76					0	0	0.010771	0	0		T	21064220	T	T	21064220	3	4	134	1	0	0	0	0	1	0	0	0	11892	768	27	1	171	1	PI4KA	22	21064220	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1866289	21064220	30240346	1678	74336											
LZTR1	8216	broad.mit.edu	37	chr22	21342386	21342386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgcaactggccagtggaCggagtggaaaattgaaggac	12	8	15	6	1	0	1	0	1	0	0	0	5	0	5	1	5	2	2	1	5	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:21342386C>T	uc002zto.2	+	5	591	c.488C>T	c.(487-489)ACG>ATG	p.T163M	LZTR1_uc002ztn.2_Missense_Mutation_p.T122M|LZTR1_uc011ahy.1_Missense_Mutation_p.T144M|LZTR1_uc010gsr.1_Missense_Mutation_p.T34M	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	163	Kelch 2.				anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			GGCCAGTGGACGGAGTGGAAA	0.473													56	115					0	0	0.01441	0	0		T	21342386	T	T	21342386	3	4	134	1	0	0	0	0	1	0	0	0	9155	536	19	1	506	1	LZTR1	22	21342386	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	278166	21342386	29962180	1679	74337											
CCDC116	164592	broad.mit.edu	37	chr22	21989291	21989291	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccgcctcttccctgccctGcaaagcgtggtcagccaggc	6	7	10	18	2	2	0	1	0	1	0	3	0	3	0	5	2	4	1	5	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:21989291G>A	uc002zve.2	+	4	1032	c.939G>A	c.(937-939)CTG>CTA	p.L313L	CCDC116_uc011aih.1_Silent_p.L313L	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	313										ovary(1)|skin(1)	2	Colorectal(54;0.105)					TCCCTGCCCTGCAAAGCGTGG	0.662													45	78					0	0	0.01441	0	0		A	21989291	A	A	21989291	2	1	134	1	0	0	0	0	0	0	0	1	2756	1306	46	2		2	CCDC116	22	21989291	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	646905	21989291	29315275	1680	74338											
PPIL2	23759	broad.mit.edu	37	chr22	22025326	22025326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctacccagtctgcactcccGatggcatcgtctttgactta	7	13	7	14	2	3	1	0	1	3	0	5	2	4	1	2	1	2	2	2	1	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:22025326G>A	uc010gtj.1	+	4	285	c.169G>A	c.(169-171)GAT>AAT	p.D57N	PPIL2_uc002zvh.3_Missense_Mutation_p.D57N|PPIL2_uc002zvi.3_Missense_Mutation_p.D57N|PPIL2_uc002zvg.3_Missense_Mutation_p.D57N|PPIL2_uc011aij.1_Intron	NM_148175	NP_680480	Q13356	PPIL2_HUMAN	peptidylprolyl isomerase-like 2 isoform a	57	U-box.				blood coagulation|leukocyte migration|protein folding|protein polyubiquitination	Golgi lumen|nucleus|ubiquitin ligase complex	peptidyl-prolyl cis-trans isomerase activity|ubiquitin-ubiquitin ligase activity			ovary(2)	2	Colorectal(54;0.105)					CTGCACTCCCGATGGCATCGT	0.493													131	249					0	0	0.01441	0	0		A	22025326	A	A	22025326	3	1	134	1	0	0	0	0	1	0	0	0	12349	1058	37	1	183	1	PPIL2	22	22025326	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	36035	22025326	29279240	1681	74339											
SUSD2	56241	broad.mit.edu	37	chr22	24579170	24579170	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcaggatccatgatgggCggcaaggactttgtggtgcg	8	10	15	8	2	1	1	1	1	0	0	2	3	2	3	1	5	2	1	1	5	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:24579170C>T	uc002zzn.1	+	2	266	c.222C>T	c.(220-222)GGC>GGT	p.G74G		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	74	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CCATGATGGGCGGCAAGGACT	0.622													28	57					0	0	0.009535	0	0		T	24579170	T	T	24579170	2	4	134	1	0	0	0	0	0	0	0	1	15433	755	27	1		1	SUSD2	22	24579170	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2553844	24579170	26725396	1682	74340											
C22orf36	388886	broad.mit.edu	37	chr22	24981946	24981946	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtggccccggccgcactgcCctcaggctcaaggtccaggc	5	5	14	17	2	2	0	2	0	0	0	3	0	3	0	5	6	1	2	5	6	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:24981946C>A	uc003aaq.2	-	4	885	c.856G>T	c.(856-858)GGC>TGC	p.G286C	GGT1_uc003aan.1_Intron|C22orf36_uc003aao.2_RNA|C22orf36_uc003aap.2_RNA	NM_207644	NP_997527	Q2VPJ9	LRC6X_HUMAN	hypothetical protein LOC388886	286											0						GCCGCACTGCCCTCAGGCTCA	0.731													26	40					1.1804e-14	1.332e-14	0.003954	1	0		A	24981946	A	A	24981946	3	1	134	1	0	0	0	0	1	0	0	0	2149	623	22	5	95	5	C22orf36	22	24981946	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	402776	24981946	26322620	1683	74341											
PIWIL3	440822	broad.mit.edu	37	chr22	25150758	25150758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actttatacaaacccatgacGgtataactgaatggccttct	13	12	6	10	1	1	2	0	2	1	0	1	2	1	2	2	2	3	1	2	2	6	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:25150758G>A	uc003abd.1	-	7	1183	c.766C>T	c.(766-768)CGT>TGT	p.R256C	PIWIL3_uc011ajx.1_Missense_Mutation_p.R147C|PIWIL3_uc011ajy.1_Missense_Mutation_p.R147C|PIWIL3_uc010gut.1_Missense_Mutation_p.R256C	NM_001008496	NP_001008496	Q7Z3Z3	PIWL3_HUMAN	piwi-like 3	256					cell differentiation|gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatogenesis	cytoplasm	RNA binding			ovary(3)|central_nervous_system(1)	4						AACCCATGACGGTATAACTGA	0.338													7	196					0	0	0.00308	0	0		A	25150758	A	A	25150758	3	1	134	1	0	0	0	0	1	0	0	0	11978	1116	39	1	1942	1	PIWIL3	22	25150758	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	168812	25150758	26153808	1684	74342											
MYO18B	84700	broad.mit.edu	37	chr22	26423476	26423476	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgactcgtcctcatcctcCggctccatcgtgtccttcaa	5	13	6	17	3	3	1	2	1	1	0	10	1	8	1	5	1	0	1	5	1	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:26423476C>T	uc003abz.1	+	43	7786	c.7536C>T	c.(7534-7536)TCC>TCT	p.S2512S	MYO18B_uc003aca.1_Silent_p.S2393S|MYO18B_uc010guy.1_Silent_p.S2394S|MYO18B_uc010guz.1_Silent_p.S2392S|MYO18B_uc011aka.1_Silent_p.S1666S|MYO18B_uc011akb.1_Silent_p.S2025S|MYO18B_uc010gva.1_Silent_p.S495S|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2512	Poly-Ser.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CCTCATCCTCCGGCTCCATCG	0.582													28	44					0	0	0.005443	0	0		T	26423476	T	T	26423476	2	4	134	1	0	0	0	0	0	0	0	1	10084	639	23	1		1	MYO18B	22	26423476	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1272718	26423476	24881090	1685	74343											
KREMEN1	83999	broad.mit.edu	37	chr22	29490351	29490351	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagactttccagcatccatAcaacactctgaaatacccca	14	8	4	15	1	1	2	0	1	1	1	3	3	3	2	4	0	4	1	4	0	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:29490351A>G	uc011akm.1	+	2	216	c.203A>G	c.(202-204)TAC>TGC	p.Y68C	KREMEN1_uc003ael.2_Missense_Mutation_p.Y68C|KREMEN1_uc011akn.1_Translation_Start_Site	NM_032045	NP_114434	Q96MU8	KREM1_HUMAN	kringle-containing transmembrane protein 1	66	Extracellular (Potential).|Kringle.				cell communication|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane|membrane fraction	protein binding			ovary(3)|lung(2)	5						CAGCATCCATACAACACTCTG	0.483													19	81					0	0	0.010504	0	0		G	29490351	G	G	29490351	3	3	134	1	0	0	0	0	1	0	0	0	8458	391	14	3	209	3	KREMEN1	22	29490351	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	3066875	29490351	21814215	1686	74344											
THOC5	8563	broad.mit.edu	37	chr22	29913074	29913074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtgtccccagccagtcccGcatccacaatgtctttggtg	6	11	10	14	1	1	0	0	0	1	0	4	0	4	0	5	2	1	1	5	2	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:29913074G>A	uc003afr.2	-	18	1960	c.1625C>T	c.(1624-1626)GCG>GTG	p.A542V	THOC5_uc003afq.2_Missense_Mutation_p.A203V|THOC5_uc003afs.2_Missense_Mutation_p.A542V|THOC5_uc003aft.2_Missense_Mutation_p.A542V|THOC5_uc003afu.2_Missense_Mutation_p.A542V|THOC5_uc010gvo.2_Missense_Mutation_p.A286V	NM_001002878	NP_001002878	Q13769	THOC5_HUMAN	THO complex 5	542					intronless viral mRNA export from host nucleus|monocyte differentiation|mRNA processing|primitive hemopoiesis|RNA splicing	cytoplasm|intermediate filament cytoskeleton|THO complex part of transcription export complex	protein binding|RNA binding			breast(3)	3						AGCCAGTCCCGCATCCACAAT	0.537													49	75					0	0	0.01441	0	0		A	29913074	A	A	29913074	3	1	134	1	0	0	0	0	1	0	0	0	15893	1087	38	1	442	1	THOC5	22	29913074	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	422723	29913074	21391492	1687	74345											
MTMR3	8897	broad.mit.edu	37	chr22	30412615	30412615	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catactcaggaacggacatgTtccgtgtggtcacttcttcg	8	12	10	11	3	3	0	2	0	1	0	5	2	4	2	1	3	2	1	1	3	2	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:30412615T>C	uc003agv.3	+	15	1930	c.1602T>C	c.(1600-1602)TGT>TGC	p.C534C	MTMR3_uc003agu.3_Silent_p.C534C|MTMR3_uc003agw.3_Silent_p.C534C	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	534	Myotubularin phosphatase.				phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			AACGGACATGTTCCGTGTGGT	0.493													83	209					0	0	0.01441	0	0		C	30412615	C	C	30412615	2	2	134	1	0	0	0	0	0	0	0	1	9963	1731	60	3		3	MTMR3	22	30412615	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	499541	30412615	20891951	1688	74346											
LIF	3976	broad.mit.edu	37	chr22	30640888	30640888	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggggctccccgccccatgTttccagtgcagaaccaacag	9	6	11	15	1	0	1	0	0	0	1	2	1	2	1	6	2	3	3	6	2	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:30640888T>C	uc003agz.2	-	2	166	c.54A>G	c.(52-54)AAA>AAG	p.K18K	LIF_uc011aks.1_Intron|uc003aha.2_5'Flank	NM_002309	NP_002300	P15018	LIF_HUMAN	leukemia inhibitory factor (cholinergic	18					immune response|leukemia inhibitory factor signaling pathway|negative regulation of hormone secretion|positive regulation of cell proliferation|positive regulation of macrophage differentiation|positive regulation of MAPKKK cascade|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of peptidyl-serine phosphorylation of STAT protein|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of metanephric nephron tubule epithelial cell differentiation		cytokine activity|growth factor activity|leukemia inhibitory factor receptor binding				0			Epithelial(10;0.171)			CCGCCCCATGTTTCCAGTGCA	0.592													6	75					0	0	0.001984	0	0		C	30640888	C	C	30640888	2	2	134	1	0	0	0	0	0	0	0	1	8795	1722	60	3		3	LIF	22	30640888	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	228273	30640888	20663678	1689	74347											
DUSP18	150290	broad.mit.edu	37	chr22	31059826	31059826	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatacaaggtgttcactacCtccactgagacattgatgac	12	11	7	11	0	2	3	2	3	0	1	3	4	3	3	2	1	2	1	2	1	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:31059826C>A	uc003aiu.2	-	2	666	c.165G>T	c.(163-165)GAG>GAT	p.E55D	SLC35E4_uc003ait.2_Intron|DUSP18_uc010gwa.1_RNA|DUSP18_uc003aiw.1_Missense_Mutation_p.E55D	NM_152511	NP_689724	Q8NEJ0	DUS18_HUMAN	dual specificity phosphatase 18	55						cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0						TGTTCACTACCTCCACTGAGA	0.483													12	232					7.03913e-09	7.78172e-09	0.013537	1	0		A	31059826	A	A	31059826	3	1	134	1	0	0	0	0	1	0	0	0	4823	680	24	5	405	5	DUSP18	22	31059826	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	418938	31059826	20244740	1690	74348											
CARD10	29775	broad.mit.edu	37	chr22	37914037	37914037	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgagcagcgtgaagtgttcgGggtagtagaactccagggct	9	9	16	7	2	0	3	0	2	0	1	2	3	1	3	1	3	3	5	1	3	4	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:37914037G>T	uc003asx.1	-	2	317	c.314C>A	c.(313-315)CCC>CAC	p.P105H	CARD10_uc003ast.1_RNA|CARD10_uc003asy.1_Missense_Mutation_p.P105H	NM_014550	NP_055365	Q9BWT7	CAR10_HUMAN	caspase recruitment domain protein 10	105	CARD.				activation of NF-kappaB-inducing kinase activity|protein complex assembly|regulation of apoptosis	CBM complex	receptor signaling complex scaffold activity			upper_aerodigestive_tract(1)|lung(1)|breast(1)|ovary(1)|prostate(1)|kidney(1)	6	Melanoma(58;0.0574)					GAAGTGTTCGGGGTAGTAGAA	0.627													30	62					2.68265e-12	3.00696e-12	0.013726	1	0		T	37914037	T	T	37914037	3	4	134	1	0	0	0	0	1	0	0	0	2647	1232	43	5	2860	5	CARD10	22	37914037	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6854211	37914037	13390529	1691	74349											
SOX10	6663	broad.mit.edu	37	chr22	38369825	38369825	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccctggggccccgcggTctctgtcttcacctgggctt	1	10	14	16	2	3	0	1	0	2	0	4	0	3	0	5	5	0	1	5	5	0	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:38369825T>C	uc003aun.1	-	4	1356	c.1078A>G	c.(1078-1080)ACC>GCC	p.T360A	POLR2F_uc003aum.2_Intron|SOX10_uc003auo.1_Missense_Mutation_p.T360A	NM_006941	NP_008872	P56693	SOX10_HUMAN	SRY (sex determining region Y)-box 10	360						cytoplasm|nucleus	DNA binding|identical protein binding|transcription coactivator activity				0	Melanoma(58;0.045)					GGCCCCGCGGTCTCTGTCTTC	0.662													17	38					0	0	0.00632	0	0		C	38369825	C	C	38369825	3	2	134	1	0	0	0	0	1	0	0	0	14966	1667	58	3	326	3	SOX10	22	38369825	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	455788	38369825	12934741	1692	74350											
BAIAP2L2	80115	broad.mit.edu	37	chr22	38503898	38503899	+	Frame_Shift_Del	DEL	AG	-	-																															ttcaagtgccgctgggtgtcAgacatctgcaccaagatctc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:38503898_38503899delAG	uc003auw.2	-	4	380_381	c.236_237delCT	c.(235-237)TCTfs	p.S79fs		NM_025045	NP_079321	Q6UXY1	BI2L2_HUMAN	BAI1-associated protein 2-like 2	79	IMD.				filopodium assembly|signal transduction		cytoskeletal adaptor activity|SH3 domain binding			pancreas(1)	1	Melanoma(58;0.045)					GCTGGGTGTCAGACATCTGCAC	0.619													89	120	---	---	---	---						.	-	38503899	-	-	38503898	7	5	134	1	0	1	0	1	0	0	0	0	1304	175	7	0	1396	0	BAIAP2L2	22	38503898	Frame_Shift_Del	DEL	AG	TCGA-CG-4442-01A-01D-1158-08	134073	38503898	12800668	1693	74351											
TMEM184B	25829	broad.mit.edu	37	chr22	38621482	38621482	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccatgaagaacttgaggaCggggctgtaggggctgagca	11	6	17	7	1	0	4	0	3	0	1	0	6	0	5	1	5	2	4	1	5	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:38621482C>T	uc003avf.1	-	7	960	c.736G>A	c.(736-738)GTC>ATC	p.V246I	TMEM184B_uc003avg.1_Missense_Mutation_p.V246I|TMEM184B_uc003avh.1_Missense_Mutation_p.V180I|TMEM184B_uc010gxl.1_RNA	NM_012264	NP_036396	Q9Y519	T184B_HUMAN	transmembrane protein 184B	246						integral to membrane					0	Melanoma(58;0.045)					AACTTGAGGACGGGGCTGTAG	0.592													41	93					0	0	0.010771	0	0		T	38621482	T	T	38621482	3	4	134	1	0	0	0	0	1	0	0	0	16130	536	19	1	499	1	TMEM184B	22	38621482	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	117584	38621482	12683084	1694	74352											
CBX6	23466	broad.mit.edu	37	chr22	39262317	39262317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattccttgattgtgaccGtcaggaggttgctggtgaca	9	12	13	7	1	1	4	1	3	0	1	2	5	2	5	2	3	1	2	2	3	1	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:39262317G>A	uc003awl.2	-	5	1199	c.1136C>T	c.(1135-1137)ACG>ATG	p.T379M		NM_014292	NP_055107	O95503	CBX6_HUMAN	chromobox homolog 6	379					chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	PcG protein complex					0	Melanoma(58;0.04)					GATTGTGACCGTCAGGAGGTT	0.652													33	57					0	0	0.003755	0	0		A	39262317	A	A	39262317	3	1	134	1	0	0	0	0	1	0	0	0	2725	1145	40	1	106	1	CBX6	22	39262317	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	640835	39262317	12042249	1695	74353											
TAB1	10454	broad.mit.edu	37	chr22	39772162	39772162	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaagggacggacgcagcccGggccgccatcgccttctcct	6	5	13	17	6	1	0	0	0	1	0	3	3	1	2	5	3	1	1	5	3	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:39772162G>A	uc003axr.2	+	2	2003	c.221G>A	c.(220-222)CGG>CAG	p.R74Q	SYNGR1_uc003axo.3_Missense_Mutation_p.R148Q|SYNGR1_uc003axp.3_Silent_p.P114P|SYNGR1_uc003axq.3_Missense_Mutation_p.R148Q|SYNGR1_uc003axs.3_Missense_Mutation_p.R149Q	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	Error:Variant_position_missing_in_Q15750_after_alignment					activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1						GACGCAGCCCGGGCCGCCATC	0.622													82	143					0	0	0.01441	0	0		A	39772162	A	A	39772162	3	1	134	1	0	0	0	0	1	0	0	0	15520	1116	39	1		1	TAB1	22	39772162	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	509845	39772162	11532404	1696	74354											
CACNA1I	8911	broad.mit.edu	37	chr22	40064344	40064344	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaaggatggttgggtgaaCatcatgtacaatggactgga	12	10	13	6	0	1	1	1	1	0	0	2	4	2	4	1	5	2	2	1	5	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:40064344C>T	uc003ayc.2	+	24	4152	c.4152C>T	c.(4150-4152)AAC>AAT	p.N1384N	CACNA1I_uc003ayd.2_Silent_p.N1349N|CACNA1I_uc003aye.2_Silent_p.N1299N|CACNA1I_uc003ayf.2_Silent_p.N1264N	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1384	Extracellular (Potential).|III.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	GTTGGGTGAACATCATGTACA	0.572													14	39					0	0	0.004007	0	0		T	40064344	T	T	40064344	2	4	134	1	0	0	0	0	0	0	0	1	2549	477	17	4		4	CACNA1I	22	40064344	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	292182	40064344	11240222	1697	74355											
EP300	2033	broad.mit.edu	37	chr22	41545781	41545782	+	Frame_Shift_Ins	INS	-	T	T																															caggcacaaatgtctagttcINSttcctgcccggtgaactctc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:41545781_41545782insT	uc003azl.3	+	14	2791_2792	c.2396_2397insT	c.(2395-2397)TCTfs	p.S799fs		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	799	Poly-Ser.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						ATGTCTAGTTCTTCCTGCCCGG	0.416			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				38	61	---	---	---	---						.	T	41545782	T	T	41545781	7	5	134	1	0	1	1	0	0	0	0	0	5156	913	32	0	2450	0	EP300	22	41545781	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	1481437	41545781	9758785	1698	74356											
EP300	2033	broad.mit.edu	37	chr22	41574817	41574817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagggcattttgccagcccgGaccagaattcaatgctttct	10	11	9	11	1	2	1	1	0	1	1	2	2	2	2	3	2	3	2	3	2	3	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:41574817G>A	uc003azl.3	+	31	7497	c.7102G>A	c.(7102-7104)GAC>AAC	p.D2368N		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	2368					apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						TGCCAGCCCGGACCAGAATTC	0.567			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				41	70					0	0	0.00874	0	0		A	41574817	A	A	41574817	3	1	134	1	0	0	0	0	1	0	0	0	5156	1174	41	4	7224	4	EP300	22	41574817	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	29036	41574817	9729749	1699	74357											
PPARA	5465	broad.mit.edu	37	chr22	46611162	46611162	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagtggagcattgaacatcGaatgtagaatctgcggggac	12	8	13	8	2	1	2	0	1	1	1	2	5	1	4	1	3	3	2	1	3	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:46611162G>A	uc003bgw.1	+	5	567	c.301G>A	c.(301-303)GAA>AAA	p.E101K	PPARA_uc003bgx.1_Missense_Mutation_p.E101K|PPARA_uc010hab.1_Missense_Mutation_p.E101K|PPARA_uc003bha.2_Missense_Mutation_p.E101K|PPARA_uc003bhb.1_Missense_Mutation_p.E101K|PPARA_uc010hac.1_5'UTR	NM_005036	NP_005027	Q07869	PPARA_HUMAN	peroxisome proliferative activated receptor,	101	Nuclear receptor.				fatty acid metabolic process|fatty acid transport|negative regulation of appetite|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|negative regulation of receptor biosynthetic process|negative regulation of sequestering of triglyceride|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fatty acid beta-oxidation|regulation of cellular ketone metabolic process by positive regulation of transcription from an RNA polymerase II promoter|regulation of glycolysis by positive regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|ligand-regulated transcription factor activity|lipid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|ubiquitin conjugating enzyme binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00522)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Clofibrate(DB00636)|Fenofibrate(DB01039)|Gemfibrozil(DB01241)|Simvastatin(DB00641)	ATTGAACATCGAATGTAGAAT	0.597													19	47					0	0	0.007413	0	0		A	46611162	A	A	46611162	3	1	134	1	0	0	0	0	1	0	0	0	12316	1059	37	1	307	1	PPARA	22	46611162	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	5036345	46611162	4693404	1700	74358											
CELSR1	9620	broad.mit.edu	37	chr22	46780469	46780469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggtggtctgaagaagtcgGctgggaaggagacggaggac	11	5	19	6	2	1	3	0	1	1	2	2	7	1	6	0	7	0	1	0	7	3	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:46780469G>A	uc003bhw.1	-	20	6854	c.6854C>T	c.(6853-6855)GCC>GTC	p.A2285V	CELSR1_uc011arc.1_Missense_Mutation_p.A606V	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2285	Extracellular (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GAAGAAGTCGGCTGGGAAGGA	0.582													8	15					0	0	0.004482	0	0		A	46780469	A	A	46780469	3	1	134	1	0	0	0	0	1	0	0	0	3224	1203	42	2	2254	2	CELSR1	22	46780469	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	169307	46780469	4524097	1701	74359											
ZBED4	9889	broad.mit.edu	37	chr22	50280682	50280682	+	Frame_Shift_Del	DEL	C	-	-																															gccgtcagatttttgggctgCcccccaagcatcgtcccttc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:50280682delC	uc003bix.2	+	2	3842	c.3372delC	c.(3370-3372)TGCfs	p.C1124fs		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	1124						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		TTTTGGGCTGCCCCCCAAGCA	0.552													35	53	---	---	---	---						.	-	50280682	-	-	50280682	7	5	134	1	0	1	0	1	0	0	0	0	17545	747	26	0	3374	0	ZBED4	22	50280682	Frame_Shift_Del	DEL	C	TCGA-CG-4442-01A-01D-1158-08	3500213	50280682	1023884	1702	74360											
SELO	83642	broad.mit.edu	37	chr22	50647139	50647139	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagagaaatgctgccttcttCcgggaggtcagtgggccgca	8	8	14	11	2	2	1	1	0	1	1	3	3	3	2	3	3	2	2	3	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:50647139C>T	uc011arr.1	+	3	991	c.933C>T	c.(931-933)TTC>TTT	p.F311F	SELO_uc010hap.2_Silent_p.F122F|SELO_uc003bjy.2_5'UTR|SELO_uc003bjz.2_5'Flank	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O	311											0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		CTGCCTTCTTCCGGGAGGTCA	0.607													5	122					0	0	0.000602	0	0		T	50647139	T	T	50647139	2	4	134	1	0	0	0	0	0	0	0	1	14043	854	30	4		4	SELO	22	50647139	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	366457	50647139	657427	1703	74361											
TUBGCP6	85378	broad.mit.edu	37	chr22	50682331	50682331	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtgggcaggccagtgccTggagcagcctccataacctg	8	6	14	13	1	0	0	0	0	0	0	1	1	1	1	5	4	4	2	5	4	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:50682331T>C	uc003bkb.1	-	1	1070	c.558A>G	c.(556-558)CCA>CCG	p.P186P	TUBGCP6_uc010har.1_Silent_p.P186P|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hau.1_Silent_p.P186P	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	186					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GGCCAGTGCCTGGAGCAGCCT	0.557													10	40					0	0	0.003163	0	0		C	50682331	C	C	50682331	2	2	134	1	0	0	0	0	0	0	0	1	16796	1567	55	3		3	TUBGCP6	22	50682331	Silent	SNP	T	TCGA-CG-4442-01A-01D-1158-08	35192	50682331	622235	1704	74362											
PLXNB2	23654	broad.mit.edu	37	chr22	50720088	50720088	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagtacaggtcggtctcCgtcagcgtcttcatggtgca	7	11	11	12	3	5	0	3	0	2	0	7	0	5	0	1	3	3	2	1	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:50720088C>A	uc003bkv.3	-	21	3535	c.3429G>T	c.(3427-3429)ACG>ACT	p.T1143T	PLXNB2_uc003bkt.1_5'UTR|PLXNB2_uc003bku.1_Silent_p.T128T	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1143	Extracellular (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GGTCGGTCTCCGTCAGCGTCT	0.657													29	36					1.06801e-11	1.1938e-11	0.009535	1	0		A	50720088	A	A	50720088	2	1	134	1	0	0	0	0	0	0	0	1	12143	639	23	5		5	PLXNB2	22	50720088	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	37757	50720088	584478	1705	74363											
SAPS2	9701	broad.mit.edu	37	chr22	50869710	50869710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggagaggacagaagccagcGgatccgagagcagggtggag	13	2	19	7	2	0	3	0	0	0	3	1	8	1	6	2	5	3	1	2	5	1	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:50869710G>A	uc003blb.1	+	12	1656	c.1234G>A	c.(1234-1236)GGA>AGA	p.G412R	SAPS2_uc003bky.1_Missense_Mutation_p.G412R|SAPS2_uc003bkz.1_Missense_Mutation_p.G412R|SAPS2_uc003blc.2_Missense_Mutation_p.G412R|SAPS2_uc003bla.1_Missense_Mutation_p.G413R|SAPS2_uc003bld.1_5'UTR	NM_014678	NP_055493	O75170	PP6R2_HUMAN	SAPS domain family, member 2	412						cytoplasm|intracellular membrane-bounded organelle	protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.222)		AGAAGCCAGCGGATCCGAGAG	0.582													32	61					0	0	0.01441	0	0		A	50869710	A	A	50869710	3	1	134	1	0	0	0	0	1	0	0	0	13862	1117	39	1	1268	1	SAPS2	22	50869710	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	149622	50869710	434856	1706	74364											
KLHDC7B	113730	broad.mit.edu	37	chr22	50987578	50987578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcatgtgttcaacccccGggagaacacctggcggcccc	7	6	11	17	2	1	1	1	0	0	1	1	2	1	1	6	3	3	2	6	3	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:50987578G>A	uc003bmi.2	+	1	1117	c.983G>A	c.(982-984)CGG>CAG	p.R328Q		NM_138433	NP_612442	Q96G42	KLD7B_HUMAN	kelch domain containing 7B	328	Kelch 1.									central_nervous_system(1)	1		all_cancers(38;1.53e-10)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		OV - Ovarian serous cystadenocarcinoma(4;7.49e-69)|all cancers(3;9.79e-66)|Epithelial(4;1.3e-63)|GBM - Glioblastoma multiforme(4;0.000399)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TTCAACCCCCGGGAGAACACC	0.716													66	114					0	0	0.01441	0	0		A	50987578	A	A	50987578	3	1	134	1	0	0	0	0	1	0	0	0	8377	1116	39	1	985	1	KLHDC7B	22	50987578	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	117868	50987578	316988	1707	74365											
KLHDC7B	113730	broad.mit.edu	37	chr22	50987635	50987635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccccgcttcggggctGcggtctctgcaccatgcaca	5	7	14	15	3	1	0	0	0	1	0	3	1	1	1	3	5	3	4	3	5	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chr22:50987635G>A	uc003bmi.2	+	1	1174	c.1040G>A	c.(1039-1041)TGC>TAC	p.C347Y		NM_138433	NP_612442	Q96G42	KLD7B_HUMAN	kelch domain containing 7B	347	Kelch 1.									central_nervous_system(1)	1		all_cancers(38;1.53e-10)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		OV - Ovarian serous cystadenocarcinoma(4;7.49e-69)|all cancers(3;9.79e-66)|Epithelial(4;1.3e-63)|GBM - Glioblastoma multiforme(4;0.000399)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CTTCGGGGCTGCGGTCTCTGC	0.662													74	134					0	0	0.01441	0	0		A	50987635	A	A	50987635	3	1	134	1	0	0	0	0	1	0	0	0	8377	1319	46	2	1042	2	KLHDC7B	22	50987635	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	57	50987635	316931	1708	74366											
ASMTL	8623	broad.mit.edu	37	chrX	1546952	1546952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaccacgttcagaaagtccCcgtgtacggactccaccagc	10	6	8	17	3	1	1	1	0	0	1	3	2	3	2	6	1	2	2	6	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:1546952C>T	uc004cpx.1	-	7	683	c.572G>A	c.(571-573)GGG>GAG	p.G191E	ASMTL_uc011mhe.1_Missense_Mutation_p.G115E|ASMTL_uc004cpy.1_Missense_Mutation_p.G175E|ASMTL_uc011mhf.1_Missense_Mutation_p.G133E	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	191	MAF-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CAGAAAGTCCCCGTGTACGGA	0.637													3	47					0	0	0.004672	0	0		T	1546952	T	T	1546952	3	4	134	1	0	0	0	0	1	0	0	0	1047	623	22	4	1321	4	ASMTL	23	1546952	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08		1546952	153723608	1709	74367											
ASMTL	8623	broad.mit.edu	37	chrX	1561150	1561150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgtacccatacggagtagCgaaggaggctttgtccagct	9	8	14	10	3	0	0	0	0	0	0	1	3	1	2	2	4	4	4	2	4	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:1561150C>T	uc004cpx.1	-	2	265	c.154G>A	c.(154-156)GCT>ACT	p.A52T	ASMTL_uc011mhe.1_5'UTR|ASMTL_uc004cpy.1_Missense_Mutation_p.A52T|ASMTL_uc011mhf.1_5'UTR	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	52	MAF-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TACGGAGTAGCGAAGGAGGCT	0.572													55	47					0	0	0.01441	0	0		T	1561150	T	T	1561150	3	4	134	1	0	0	0	0	1	0	0	0	1047	768	27	1	1759	1	ASMTL	23	1561150	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	14198	1561150	153709410	1710	74368											
DHRSX	207063	broad.mit.edu	37	chrX	2343345	2343345	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcaggtcgtggggggaaaActgaaaaagaagaagagaaa	18	4	16	3	1	1	4	1	1	0	3	2	6	1	5	0	5	1	0	0	5	7	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:2343345A>G	uc004cqf.3	-	2	159	c.110T>C	c.(109-111)GTT>GCT	p.V37A		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	37							binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				TGGGGGGAAAACTGAAAAAGA	0.458													4	66					0	0	0.009096	0	0		G	2343345	G	G	2343345	3	3	134	1	0	0	0	0	1	0	0	0	4505	57	2	3	906	3	DHRSX	23	2343345	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	782195	2343345	152927215	1711	74369											
MXRA5	25878	broad.mit.edu	37	chrX	3248316	3248316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatggagtagcctcagagacGttaagccgttgaaagcttga	13	9	12	7	2	1	3	1	2	0	1	1	5	1	4	2	1	3	4	2	1	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:3248316G>A	uc004crg.3	-	4	609	c.452C>T	c.(451-453)ACG>ATG	p.T151M		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	151						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				CCTCAGAGACGTTAAGCCGTT	0.488													18	6					0	0	0.010504	0	0		A	3248316	A	A	3248316	3	1	134	1	0	0	0	0	1	0	0	0	10021	1145	40	1	8050	1	MXRA5	23	3248316	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	904971	3248316	152022244	1712	74370											
RAI2	10742	broad.mit.edu	37	chrX	17819461	17819461	+	Frame_Shift_Del	DEL	G	-	-																															gagggtggctggtgggaccaGgggggacaagggggagctaa																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:17819461delG	uc004cyf.2	-	3	1240	c.670delC	c.(670-672)CTGfs	p.L224fs	RAI2_uc004cyg.2_Frame_Shift_Del_p.L224fs|RAI2_uc010nfa.2_Frame_Shift_Del_p.L224fs|RAI2_uc004cyh.3_Frame_Shift_Del_p.L224fs|RAI2_uc011miy.1_Frame_Shift_Del_p.L174fs	NM_021785	NP_068557	Q9Y5P3	RAI2_HUMAN	retinoic acid induced 2	224	Pro-rich.				embryo development					ovary(1)|breast(1)	2	Hepatocellular(33;0.183)					GGTGGGACCAGGGGGGACAAG	0.627													42	20	---	---	---	---						.	-	17819461	-	-	17819461	7	5	134	1	0	1	0	1	0	0	0	0	13034	991	35	0	926	0	RAI2	23	17819461	Frame_Shift_Del	DEL	G	TCGA-CG-4442-01A-01D-1158-08	14571145	17819461	137451099	1713	74371											
DCAF8L1	139425	broad.mit.edu	37	chrX	27999203	27999203	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaaataaaccttcacccatGctttcaagttcgacgtcttc	11	12	4	14	2	3	0	2	0	1	0	5	1	3	0	3	0	2	2	3	0	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:27999203G>A	uc004dbx.1	-	1	364	c.249C>T	c.(247-249)AGC>AGT	p.S83S		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	83	Glu-rich.									ovary(3)|skin(1)	4						CTTCACCCATGCTTTCAAGTT	0.358													10	130					0	0	0.010729	0	0		A	27999203	A	A	27999203	2	1	134	1	0	0	0	0	0	0	0	1	4280	1310	46	2		2	DCAF8L1	23	27999203	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	10179742	27999203	127271357	1714	74372											
DMD	1756	broad.mit.edu	37	chrX	31222117	31222118	+	Frame_Shift_Ins	INS	-	C	C																															cacttggctcaatgttactgINScccccaaaggatgcaacttc																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:31222117_31222118insC	uc004dda.1	-	67	10011_10012	c.9767_9768insG	c.(9766-9768)GGCfs	p.G3256fs	DMD_uc004dcq.1_Frame_Shift_Ins_p.G527fs|DMD_uc004dcr.1_Frame_Shift_Ins_p.G796fs|DMD_uc004dcs.1_Frame_Shift_Ins_p.G796fs|DMD_uc004dct.1_Frame_Shift_Ins_p.G796fs|DMD_uc004dcu.1_Frame_Shift_Ins_p.G796fs|DMD_uc004dcv.1_Frame_Shift_Ins_p.G796fs|DMD_uc004dcw.2_Frame_Shift_Ins_p.G1912fs|DMD_uc004dcx.2_Frame_Shift_Ins_p.G1915fs|DMD_uc004dcz.2_Frame_Shift_Ins_p.G3133fs|DMD_uc004dcy.1_Frame_Shift_Ins_p.G3252fs|DMD_uc004ddb.1_Frame_Shift_Ins_p.G3248fs|DMD_uc004dcm.1_Frame_Shift_Ins_p.G188fs|DMD_uc004dcn.1_Frame_Shift_Ins_p.G188fs|DMD_uc004dco.1_Frame_Shift_Ins_p.G188fs|DMD_uc004dcp.1_Frame_Shift_Ins_p.G188fs|DMD_uc011mkb.1_Frame_Shift_Ins_p.G188fs|DMD_uc010ngm.2_Frame_Shift_Ins_p.G188fs	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3256	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CAATGTTACTGCCCCCAAAGGA	0.406													61	32	---	---	---	---						.	C	31222118	C	C	31222117	7	5	134	1	0	1	1	0	0	0	0	0	4586	1306	46	0	1431	0	DMD	23	31222117	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	3222914	31222117	124048443	1715	74373											
FAM47A	158724	broad.mit.edu	37	chrX	34150286	34150286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgggtgggaacctcaggCgcctgtgcttgcacttcgcg	5	9	14	13	3	1	0	1	0	0	0	2	1	1	1	3	3	3	2	3	3	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:34150286C>T	uc004ddg.2	-	1	143	c.110G>A	c.(109-111)CGC>CAC	p.R37H		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	37										ovary(4)|central_nervous_system(1)	5						GAACCTCAGGCGCCTGTGCTT	0.592													49	24					0	0	0.01441	0	0		T	34150286	T	T	34150286	3	4	134	1	0	0	0	0	1	0	0	0	5583	768	27	1	2269	1	FAM47A	23	34150286	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	2928169	34150286	121120274	1716	74374											
TMEM47	83604	broad.mit.edu	37	chrX	34657419	34657419	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacgccttcgagatcccacGcagatagaaatcaaacccac	16	5	6	14	3	1	3	1	0	0	3	3	4	2	3	3	0	2	1	3	0	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:34657419G>A	uc004ddh.2	-	2	571	c.312C>T	c.(310-312)TGC>TGT	p.C104C	TMEM47_uc010ngs.2_RNA	NM_031442	NP_113630	Q9BQJ4	TMM47_HUMAN	transmembrane protein 47	104						integral to membrane				lung(1)	1						GAGATCCCACGCAGATAGAAA	0.433													5	1					0	0	0.000602	0	0		A	34657419	A	A	34657419	2	1	134	1	0	0	0	0	0	0	0	1	16196	1079	38	1		1	TMEM47	23	34657419	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	507133	34657419	120613141	1717	74375											
BCOR	54880	broad.mit.edu	37	chrX	39931850	39931850	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtttgggatcctcttgggTtttaccaaaagttacagcag	9	14	11	7	0	1	0	0	0	1	0	2	1	2	1	2	3	3	4	2	3	4	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:39931850T>C	uc004den.3	-	4	3041	c.2749A>G	c.(2749-2751)ACC>GCC	p.T917A	BCOR_uc004dep.3_Missense_Mutation_p.T917A|BCOR_uc004deo.3_Missense_Mutation_p.T917A|BCOR_uc004dem.3_Missense_Mutation_p.T917A|BCOR_uc004deq.3_Missense_Mutation_p.T917A	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	917					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						TCCTCTTGGGTTTTACCAAAA	0.527													47	22					0	0	0.01441	0	0		C	39931850	C	C	39931850	3	2	134	1	0	0	0	0	1	0	0	0	1387	1725	60	3	2566	3	BCOR	23	39931850	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	5274431	39931850	115338710	1718	74376											
ARAF	369	broad.mit.edu	37	chrX	47430395	47430395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagttccagcgggaggagcGgcccctcttcccccaggtgg	6	6	14	15	2	1	0	0	0	1	0	3	2	3	2	5	5	2	1	5	5	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:47430395G>A	uc011mlq.1	+	15	1803	c.1670G>A	c.(1669-1671)CGG>CAG	p.R557Q		NM_001654	NP_001645	P10398	ARAF_HUMAN	v-raf murine sarcoma 3611 viral oncogene	557	Protein kinase.				intracellular signal transduction|negative regulation of apoptosis|positive regulation of peptidyl-serine phosphorylation		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity			large_intestine(3)|lung(2)|ovary(1)|skin(1)	7					Adenosine triphosphate(DB00171)	CGGGAGGAGCGGCCCCTCTTC	0.612													17	4					0	0	0.00499	0	0		A	47430395	A	A	47430395	3	1	134	1	0	0	0	0	1	0	0	0	837	1116	39	1	1724	1	ARAF	23	47430395	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	7498545	47430395	107840165	1719	74377											
SLC38A5	92745	broad.mit.edu	37	chrX	48319469	48319469	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcatcctgcgcttggaGggcctgaggtgtagaggtcg	5	9	17	10	2	0	2	0	1	0	1	2	3	1	3	3	4	2	3	3	4	1	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:48319469G>A	uc010nid.2	-	13	1033	c.855C>T	c.(853-855)CCC>CCT	p.P285P	SLC38A5_uc004djk.3_Silent_p.P234P	NM_033518	NP_277053	Q8WUX1	S38A5_HUMAN	solute carrier family 38, member 5	285	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane				ovary(3)	3						TGCGCTTGGAGGGCCTGAGGT	0.597													10	10					0	0	0.008291	0	0		A	48319469	A	A	48319469	2	1	134	1	0	0	0	0	0	0	0	1	14632	987	35	4		4	SLC38A5	23	48319469	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	889074	48319469	106951091	1720	74378											
TBC1D25	4943	broad.mit.edu	37	chrX	48417659	48417659	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcacacgtacctgaaccaCgagggccagctctcccgacc	9	7	8	17	3	2	1	1	1	1	0	3	3	2	1	5	1	3	2	5	1	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:48417659C>T	uc004dka.1	+	5	741	c.630C>T	c.(628-630)CAC>CAT	p.H210H	TBC1D25_uc011mly.1_Silent_p.H152H|TBC1D25_uc004dkb.1_Translation_Start_Site|TBC1D25_uc011mlz.1_Translation_Start_Site|TBC1D25_uc011mma.1_Translation_Start_Site|TBC1D25_uc004dkc.1_Translation_Start_Site|TBC1D25_uc011mmb.1_Silent_p.H214H|TBC1D25_uc011mmc.1_Translation_Start_Site|TBC1D25_uc011mmd.1_Translation_Start_Site	NM_002536	NP_002527	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	210						intracellular	Rab GTPase activator activity			ovary(1)	1						ACCTGAACCACGAGGGCCAGC	0.582													10	4					0	0	0.008291	0	0		T	48417659	T	T	48417659	2	4	134	1	0	0	0	0	0	0	0	1	15640	535	19	1		1	TBC1D25	23	48417659	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	98190	48417659	106852901	1721	74379											
KDM5C	8242	broad.mit.edu	37	chrX	53226001	53226001	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgaccaacagtcctcgcaTgacagccaaggtgccccttc	9	6	9	17	3	0	1	0	1	0	0	3	2	1	1	5	1	3	1	5	1	2	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:53226001T>C	uc004drz.2	-	19	3381	c.2848A>G	c.(2848-2850)ATG>GTG	p.M950V	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.M883V|KDM5C_uc004dsa.2_Missense_Mutation_p.M949V	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	950					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						AGTCCTCGCATGACAGCCAAG	0.642			N|F|S		clear cell renal carcinoma								16	8					0	0	0.003163	0	0		C	53226001	C	C	53226001	3	2	134	1	0	0	0	0	1	0	0	0	8151	1464	51	3	1964	3	KDM5C	23	53226001	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	4808342	53226001	102044559	1722	74380											
KDM5C	8242	broad.mit.edu	37	chrX	53230892	53230892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagtatctccggagccggCggtagtgctcaatgcactgg	7	8	14	12	4	2	0	1	0	1	0	3	1	2	1	2	4	3	5	2	4	3	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:53230892C>T	uc004drz.2	-	14	2434	c.1901G>A	c.(1900-1902)CGC>CAC	p.R634H	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.R567H|KDM5C_uc004dsa.2_Missense_Mutation_p.R633H	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	634	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						CCGGAGCCGGCGGTAGTGCTC	0.587			N|F|S		clear cell renal carcinoma								43	12					0	0	0.00874	0	0		T	53230892	T	T	53230892	3	4	134	1	0	0	0	0	1	0	0	0	8151	768	27	1	2931	1	KDM5C	23	53230892	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4891	53230892	102039668	1723	74381											
SMC1A	8243	broad.mit.edu	37	chrX	53440338	53440338	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgactaatctcttcaaatagAgctgtcctctctttggggtt	8	15	8	10	1	3	1	1	0	2	1	6	2	4	1	1	2	1	2	1	2	3	5			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:53440338A>G	uc004dsg.2	-	4	528	c.459T>C	c.(457-459)GCT>GCC	p.A153A	SMC1A_uc011moe.1_Silent_p.A131A|SMC1A_uc011mof.1_Intron|SMC1A_uc004dsi.1_Silent_p.A19A	NM_006306	NP_006297	Q14683	SMC1A_HUMAN	structural maintenance of chromosomes 1A	153					cell cycle checkpoint|cell division|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic sister chromatid cohesion|mitotic spindle organization|negative regulation of DNA endoreduplication|nuclear mRNA splicing, via spliceosome|response to radiation|signal transduction in response to DNA damage	cohesin core heterodimer|condensed chromosome kinetochore|condensed nuclear chromosome|cytoplasm|meiotic cohesin complex|nucleoplasm	ATP binding|chromatin binding|microtubule motor activity|protein heterodimerization activity			ovary(5)|central_nervous_system(1)	6						CTTCAAATAGAGCTGTCCTCT	0.483													48	26					0	0	0.013114	0	0		G	53440338	G	G	53440338	2	3	134	1	0	0	0	0	0	0	0	1	14806	291	11	3		3	SMC1A	23	53440338	Silent	SNP	A	TCGA-CG-4442-01A-01D-1158-08	209446	53440338	101830222	1724	74382											
WNK3	65267	broad.mit.edu	37	chrX	54359575	54359575	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agattatatacctacctgcaGctcacaccaagcaacctcaa	15	8	4	14	0	2	1	2	0	0	1	2	1	2	1	4	0	6	3	4	0	7	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:54359575G>C	uc004dtd.1	-	2	971	c.532C>G	c.(532-534)CTG>GTG	p.L178V	WNK3_uc004dtc.1_Missense_Mutation_p.L178V	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	178	Protein kinase.				intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						CCTACCTGCAGCTCACACCAA	0.373													137	50					0	0	0.01441	0	0		C	54359575	C	C	54359575	3	2	134	1	0	0	0	0	1	0	0	0	17405	962	34	5	4962	5	WNK3	23	54359575	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	919237	54359575	100910985	1725	74383											
FOXR2	139628	broad.mit.edu	37	chrX	55650330	55650330	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccccagaaatgcctcagaaGaggagacccagtcctgatgg	12	5	11	13	0	1	5	1	1	0	4	2	6	2	5	5	2	1	0	5	2	2	0			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:55650330G>A	uc004duo.2	+	1	498	c.186G>A	c.(184-186)AAG>AAA	p.K62K		NM_198451	NP_940853	Q6PJQ5	FOXR2_HUMAN	forkhead box R2	62					embryo development|organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			lung(2)|central_nervous_system(1)	3						TGCCTCAGAAGAGGAGACCCA	0.537													34	15					0	0	0.005524	0	0		A	55650330	A	A	55650330	2	1	134	1	0	0	0	0	0	0	0	1	6046	933	33	4		4	FOXR2	23	55650330	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1290755	55650330	99620230	1726	74384											
AWAT2	158835	broad.mit.edu	37	chrX	69261725	69261725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgctggtcaaacagtttaCgtagggcatcaatatagagt	13	12	10	6	1	2	1	2	0	0	1	2	1	2	1	0	2	3	4	0	2	7	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:69261725C>T	uc004dxt.1	-	7	941	c.935G>A	c.(934-936)CGT>CAT	p.R312H		NM_001002254	NP_001002254	Q6E213	AWAT2_HUMAN	wax synthase 2	312						endoplasmic reticulum membrane|integral to membrane	long-chain-alcohol O-fatty-acyltransferase activity				0						AAACAGTTTACGTAGGGCATC	0.498													46	20					0	0	0.01441	0	0		T	69261725	T	T	69261725	3	4	134	1	0	0	0	0	1	0	0	0	1236	536	19	1	70	1	AWAT2	23	69261725	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	13611395	69261725	86008835	1727	74385											
GLA	2717	broad.mit.edu	37	chrX	100653412	100653412	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgattgatggcaattacGtccttatcctgaaggagagc	10	12	10	9	1	0	4	0	3	0	1	3	5	3	4	3	2	2	1	3	2	4	3	rs151208856	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:100653412G>A	uc004ehl.1	-	6	1055	c.945C>T	c.(943-945)GAC>GAT	p.D315D		NM_000169	NP_000160	P06280	AGAL_HUMAN	alpha-galactosidase A precursor	315					glycoside catabolic process|glycosphingolipid catabolic process|glycosylceramide catabolic process|negative regulation of nitric oxide biosynthetic process|negative regulation of nitric-oxide synthase activity|oligosaccharide metabolic process	extracellular region|Golgi apparatus|lysosome	cation binding|protein homodimerization activity|raffinose alpha-galactosidase activity|receptor binding				0					Agalsidase beta(DB00103)	TGGCAATTACGTCCTTATCCT	0.458													111	95					0	0	0.01441	0	0		A	100653412	A	A	100653412	2	1	134	1	0	0	0	0	0	0	0	1	6441	1136	40	1		1	GLA	23	100653412	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	31391687	100653412	54617148	1728	74386											
TMSB15B	286527	broad.mit.edu	37	chrX	103220136	103220136	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagcaggagaaagagtgtgTtcaaacatcataaaatgggg	16	7	12	6	0	2	2	2	0	0	2	2	3	2	2	1	3	2	2	1	3	4	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:103220136T>C	uc010noz.2	+	3	239	c.125T>C	c.(124-126)GTT>GCT	p.V42A	TMSB15B_uc004elo.3_RNA|TMSB15B_uc004elq.3_RNA	NM_194324	NP_919305	P0CG34	TB15A_HUMAN	thymosin beta15b	42					actin cytoskeleton organization|sequestering of actin monomers	cytoplasm|cytoskeleton	actin binding			skin(1)	1						AAAGAGTGTGTTCAAACATCA	0.383													4	80					0	0	0.000602	0	0		C	103220136	C	C	103220136	3	2	134	1	0	0	0	0	1	0	0	0	16281	1725	60	3	131	3	TMSB15B	23	103220136	Missense_Mutation	SNP	T	TCGA-CG-4442-01A-01D-1158-08	2566724	103220136	52050424	1729	74387											
ESX1	80712	broad.mit.edu	37	chrX	103495304	103495304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcgtgagccgggtggcaCaggcgccatgggtggcatag	7	6	18	10	3	0	1	0	1	0	0	0	1	0	1	2	5	2	2	2	5	1	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:103495304C>T	uc004ely.2	-	4	884	c.826G>A	c.(826-828)GTG>ATG	p.V276M		NM_153448	NP_703149	Q8N693	ESX1_HUMAN	extraembryonic, spermatogenesis, homeobox	276	4.|15 X 9 AA tandem repeats of P-P-x-x-P-x- P-P-x.				negative regulation of transcription, DNA-dependent|regulation of cell cycle	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCGGGTGGCACAGGCGCcatg	0.468													5	59					0	0	0.001984	0	0		T	103495304	T	T	103495304	3	4	134	1	0	0	0	0	1	0	0	0	5271	478	17	4	398	4	ESX1	23	103495304	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	275168	103495304	51775256	1730	74388											
IL1RAPL2	26280	broad.mit.edu	37	chrX	104999178	104999178	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttatgtttaagacaacaaGgaatatgatgcctatctctc	13	14	6	8	0	1	2	0	1	1	1	3	3	1	3	1	1	2	1	1	1	7	6			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:104999178G>T	uc004elz.1	+	10	1956	c.1200G>T	c.(1198-1200)AAG>AAT	p.K400N		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	400	Cytoplasmic (Potential).|TIR.				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						AAGACAACAAGGAATATGATG	0.383													51	22					3.76997e-23	4.3593e-23	0.01441	1	0		T	104999178	T	T	104999178	3	4	134	1	0	0	0	0	1	0	0	0	7678	991	35	5	1234	5	IL1RAPL2	23	104999178	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1503874	104999178	50271382	1731	74389											
CXorf57	55086	broad.mit.edu	37	chrX	105905498	105905498	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaacttgatgattttaagagCgcccgaagccttggacattt	12	12	9	8	2	0	3	0	2	0	1	0	5	0	4	2	1	3	0	2	1	3	5	rs140805762	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:105905498C>T	uc004emi.3	+	12	2383	c.2232C>T	c.(2230-2232)AGC>AGT	p.S744S	CXorf57_uc004emj.3_Silent_p.S647S	NM_018015	NP_060485	Q6NSI4	CX057_HUMAN	hypothetical protein LOC55086	744										ovary(1)|lung(1)|breast(1)	3						ATTTTAAGAGCGCCCGAAGCC	0.358													70	28					0	0	0.01441	0	0		T	105905498	T	T	105905498	2	4	134	1	0	0	0	0	0	0	0	1	4116	767	27	1		1	CXorf57	23	105905498	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	906320	105905498	49365062	1732	74390											
CXorf57	55086	broad.mit.edu	37	chrX	105912413	105912413	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctgaaccatgagatagcaAtcgatgttgctttcctaccc	10	12	8	11	1	1	2	0	2	1	1	3	4	2	2	3	0	4	3	3	0	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:105912413A>G	uc004emi.3	+	13	2441	c.2290A>G	c.(2290-2292)ATC>GTC	p.I764V	CXorf57_uc004emj.3_Missense_Mutation_p.I667V	NM_018015	NP_060485	Q6NSI4	CX057_HUMAN	hypothetical protein LOC55086	764										ovary(1)|lung(1)|breast(1)	3						TGAGATAGCAATCGATGTTGC	0.284													7	285					0	0	0.004482	0	0		G	105912413	G	G	105912413	3	3	134	1	0	0	0	0	1	0	0	0	4116	101	4	3	2340	3	CXorf57	23	105912413	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	6915	105912413	49358147	1733	74391											
TSC22D3	1831	broad.mit.edu	37	chrX	106960004	106960004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgtgcagctggtagaccGccacctccatgggggtctga	8	9	13	11	1	1	2	0	1	1	1	2	2	2	2	4	3	2	3	4	3	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:106960004G>A	uc004eng.2	-	1	288	c.38C>T	c.(37-39)GCG>GTG	p.A13V	TSC22D3_uc004enf.2_5'Flank|TSC22D3_uc004enh.2_Intron|TSC22D3_uc004eni.2_Intron|TSC22D3_uc004enj.2_Intron	NM_004089	NP_004080	Q99576	T22D3_HUMAN	TSC22 domain family, member 3 isoform 2	13	AP1-binding (By similarity).						sequence-specific DNA binding transcription factor activity				0						CTGGTAGACCGCCACCTCCAT	0.483													49	19					0	0	0.01441	0	0		A	106960004	A	A	106960004	3	1	134	1	0	0	0	0	1	0	0	0	16635	1087	38	1	378	1	TSC22D3	23	106960004	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	1047591	106960004	48310556	1734	74392											
VSIG1	340547	broad.mit.edu	37	chrX	107319359	107319359	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attggtagcctggtaggtgcCgccatcatcatctctgttgt	6	14	11	10	1	3	0	2	0	1	0	4	0	3	0	3	3	2	3	3	3	2	4	rs150102865	byFrequency	TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:107319359C>T	uc004eno.2	+	6	902	c.741C>T	c.(739-741)GCC>GCT	p.A247A	VSIG1_uc011msk.1_Silent_p.A283A	NM_182607	NP_872413	Q86XK7	VSIG1_HUMAN	V-set and immunoglobulin domain containing 1	247	Helical; (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						TGGTAGGTGCCGCCATCATCA	0.428													119	51					0	0	0.01441	0	0		T	107319359	T	T	107319359	2	4	134	1	0	0	0	0	0	0	0	1	17248	639	23	1		1	VSIG1	23	107319359	Silent	SNP	C	TCGA-CG-4442-01A-01D-1158-08	359355	107319359	47951201	1735	74393											
HTR2C	3358	broad.mit.edu	37	chrX	114141262	114141262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgttcttattgggtccttcGtagctttcttcataccgctg	4	18	8	11	3	3	0	1	0	2	0	6	0	4	0	2	1	2	4	2	1	3	8			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:114141262G>A	uc004epu.1	+	6	1389	c.661G>A	c.(661-663)GTA>ATA	p.V221I	HTR2C_uc010nqc.1_Missense_Mutation_p.V221I|HTR2C_uc004epv.1_Missense_Mutation_p.R189H	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	221	Helical; Name=5; (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	TGGGTCCTTCGTAGCTTTCTT	0.493													273	108					0	0	0.01441	0	0		A	114141262	A	A	114141262	3	1	134	1	0	0	0	0	1	0	0	0	7459	1145	40	1	675	1	HTR2C	23	114141262	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	6821903	114141262	41129298	1736	74394											
IL13RA2	3598	broad.mit.edu	37	chrX	114249138	114249138	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agattcttagtaatgatggtCtgtttgacaaaaagatgaga	15	13	10	3	0	2	5	0	3	2	3	2	6	2	5	0	1	0	2	0	1	4	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:114249138C>T	uc004epx.2	-	4	372	c.247_splice	c.e4-1	p.T83_splice	IL13RA2_uc010nqd.1_Splice_Site_p.T83_splice	NM_000640	NP_000631	Q14627	I13R2_HUMAN	interleukin 13 receptor, alpha 2 precursor							extracellular space|integral to membrane|soluble fraction	cytokine receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3						TAATGATGGTCTGTTTGACAA	0.358													5	73					0	0	0.000602	0	0		T	114249138	T	T	114249138	5	4	134	1	0	0	0	0	0	0	1	0	7646	927	32	4	924	4	IL13RA2	23	114249138	Splice_Site	SNP	C	TCGA-CG-4442-01A-01D-1158-08	107876	114249138	41021422	1737	74395											
STAG2	10735	broad.mit.edu	37	chrX	123179073	123179073	+	Frame_Shift_Del	DEL	T	-	-																															tggaagaagttcaaatccagTttttgtgaattcattggcgt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:123179073delT	uc004etz.3	+	7	861	c.522delT	c.(520-522)AGTfs	p.S174fs	STAG2_uc004eua.2_Frame_Shift_Del_p.S174fs|STAG2_uc004eub.2_Frame_Shift_Del_p.S174fs|STAG2_uc004euc.2_Frame_Shift_Del_p.S174fs|STAG2_uc004eud.2_Frame_Shift_Del_p.S174fs|STAG2_uc004eue.2_Frame_Shift_Del_p.S174fs	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	174					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						TCAAATCCAGTTTTTGTGAAT	0.343													91	47	---	---	---	---						.	-	123179073	-	-	123179073	7	5	134	1	0	1	0	1	0	0	0	0	15268	1722	60	0	544	0	STAG2	23	123179073	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	8929935	123179073	32091487	1738	74396											
ZNF449	203523	broad.mit.edu	37	chrX	134494750	134494750	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacaggtgaaaaacctcatAgatgtcataattgtgggaaa	17	10	9	5	0	2	2	2	1	0	1	2	3	2	3	1	2	2	0	1	2	6	4			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:134494750A>G	uc004eys.2	+	5	1471	c.1306A>G	c.(1306-1308)AGA>GGA	p.R436G	ZNF449_uc004eyt.2_Missense_Mutation_p.R316G|ZNF449_uc004eyu.2_Missense_Mutation_p.R242G	NM_152695	NP_689908	Q6P9G9	ZN449_HUMAN	zinc finger protein 449	436	C2H2-type 5.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					AAAACCTCATAGATGTCATAA	0.353													6	127					0	0	0.001984	0	0		G	134494750	G	G	134494750	3	3	134	1	0	0	0	0	1	0	0	0	17945	412	15	3	1320	3	ZNF449	23	134494750	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	11315677	134494750	20775810	1739	74397											
MAP7D3	79649	broad.mit.edu	37	chrX	135314193	135314194	+	Frame_Shift_Ins	INS	-	G	G																															gaatacttccacattcacctINSgggggggtgcatccacactt																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:135314193_135314194insG	uc004ezt.2	-	8	1013_1014	c.922_923insC	c.(922-924)CAGfs	p.Q308fs	MAP7D3_uc004ezs.2_Frame_Shift_Ins_p.Q272fs|MAP7D3_uc011mwc.1_Frame_Shift_Ins_p.Q290fs|MAP7D3_uc010nsa.1_Frame_Shift_Ins_p.Q266fs	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	308						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					CACATTCACCTGGGGGGGTGCA	0.535													185	101	---	---	---	---						.	G	135314194	G	G	135314193	7	5	134	1	0	1	1	0	0	0	0	0	9287	1580	55	0	1751	0	MAP7D3	23	135314193	Frame_Shift_Ins	INS	-	TCGA-CG-4442-01A-01D-1158-08	819443	135314193	19956367	1740	74398											
ARHGEF6	9459	broad.mit.edu	37	chrX	135764121	135764121	+	Frame_Shift_Del	DEL	T	-	-																															caccgttcctgctattggtaTttttccctattagaaaaaga																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:135764121delT	uc004fab.2	-	14	1948	c.1486delA	c.(1486-1488)ATAfs	p.I496fs	ARHGEF6_uc011mwd.1_Frame_Shift_Del_p.I369fs|ARHGEF6_uc011mwe.1_Frame_Shift_Del_p.I342fs	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	496	PH.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					GCTATTGGTATTTTTCCCTAT	0.353													101	50	---	---	---	---						.	-	135764121	-	-	135764121	7	5	134	1	0	1	0	1	0	0	0	0	910	1493	52	0	880	0	ARHGEF6	23	135764121	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	449928	135764121	19506439	1741	74399											
SPANXC	64663	broad.mit.edu	37	chrX	140336551	140336551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgttggattcacaggggaCgctcctcttcaccccgccgg	5	9	11	16	4	3	0	2	0	1	0	5	2	4	2	4	4	0	2	4	4	0	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:140336551C>T	uc004fbk.2	-	1	96	c.40G>A	c.(40-42)GTC>ATC	p.V14I	SPANXC_uc004fbl.2_Intron	NM_022661	NP_073152	Q9NY87	SPNXC_HUMAN	sperm protein associated with the nucleus, X	14						cytoplasm|nucleus					0	Acute lymphoblastic leukemia(192;7.65e-05)					TCACAGGGGACGCTCCTCTTC	0.338													88	43					0	0	0.01441	0	0		T	140336551	T	T	140336551	3	4	134	1	0	0	0	0	1	0	0	0	15012	536	19	1	261	1	SPANXC	23	140336551	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	4572430	140336551	14934009	1742	74400											
MAGEA4	4103	broad.mit.edu	37	chrX	151092878	151092878	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagcccaggaaactgctcAcccaagattgggtgcaggaa	12	5	14	10	0	1	1	1	0	0	1	1	4	1	4	2	4	4	2	2	4	3	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:151092878A>G	uc004fez.2	+	3	898	c.742A>G	c.(742-744)ACC>GCC	p.T248A	MAGEA4_uc004ffa.2_Missense_Mutation_p.T248A|MAGEA4_uc004ffb.2_Missense_Mutation_p.T248A|MAGEA4_uc004ffc.2_Missense_Mutation_p.T248A|MAGEA4_uc004ffd.2_Missense_Mutation_p.T248A	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	248	MAGE.						protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GAAACTGCTCACCCAAGATTG	0.592													96	40					0	0	0.01441	0	0		G	151092878	G	G	151092878	3	3	134	1	0	0	0	0	1	0	0	0	9186	159	6	3	744	3	MAGEA4	23	151092878	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	10756327	151092878	4177682	1743	74401											
PNMA3	29944	broad.mit.edu	37	chrX	152226568	152226568	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccagggctaccggcgcCggaggggcagaggccaacac	8	3	15	15	3	0	1	0	0	0	1	1	2	1	2	4	6	2	2	4	6	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:152226568C>T	uc004fhc.2	+	2	1492	c.1156C>T	c.(1156-1158)CGG>TGG	p.R386W	PNMA5_uc004fha.3_5'Flank|PNMA3_uc004fhd.2_5'Flank	NM_013364	NP_037496	Q9UL41	PNMA3_HUMAN	paraneoplastic cancer-testis-brain antigen	386	Arg-rich.				apoptosis	nucleolus	nucleic acid binding|zinc ion binding			skin(2)|large_intestine(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CTACCGGCGCCGGAGGGGCAG	0.622													36	20					0	0	0.00874	0	0		T	152226568	T	T	152226568	3	4	134	1	0	0	0	0	1	0	0	0	12174	643	23	1	1158	1	PNMA3	23	152226568	Missense_Mutation	SNP	C	TCGA-CG-4442-01A-01D-1158-08	1133690	152226568	3043992	1744	74402											
ARHGAP4	393	broad.mit.edu	37	chrX	153175819	153175819	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgaagcacacggccaggttGtaggggtccatcatgttctc	8	9	12	12	2	2	0	1	0	1	0	4	1	3	0	3	4	1	4	3	4	2	3			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:153175819G>A	uc004fjk.1	-	17	2004	c.1962C>T	c.(1960-1962)TAC>TAT	p.Y654Y	ARHGAP4_uc004fjj.1_Silent_p.Y5Y|ARHGAP4_uc011mzf.1_Silent_p.Y631Y|ARHGAP4_uc004fjl.1_Silent_p.Y694Y|ARHGAP4_uc010nup.1_Intron	NM_001666	NP_001657	P98171	RHG04_HUMAN	Rho GTPase activating protein 4 isoform 2	654	Rho-GAP.				apoptosis|cytoskeleton organization|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|Rho protein signal transduction	cytosol|focal adhesion|nucleus	Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			central_nervous_system(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CGGCCAGGTTGTAGGGGTCCA	0.682													14	9					0	0	0.004007	0	0		A	153175819	A	A	153175819	2	1	134	1	0	0	0	0	0	0	0	1	885	1372	48	4		4	ARHGAP4	23	153175819	Silent	SNP	G	TCGA-CG-4442-01A-01D-1158-08	949251	153175819	2094741	1745	74403											
FLNA	2316	broad.mit.edu	37	chrX	153583313	153583313	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcctcattctccaccacGtccacatccacctctgagcc	7	9	4	21	2	3	1	1	1	2	0	7	1	6	1	8	0	1	0	8	0	0	1			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:153583313G>T	uc004fkk.2	-	31	5346	c.5097C>A	c.(5095-5097)GAC>GAA	p.D1699E	FLNA_uc004fki.2_5'Flank|FLNA_uc011mzn.1_5'UTR|FLNA_uc010nuu.1_Missense_Mutation_p.D1691E	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1699	Filamin 15.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TCTCCACCACGTCCACATCCA	0.597											OREG0003595	type=REGULATORY REGION|Gene=FLNA|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	31	19					3.99451e-17	4.53553e-17	0.009535	1	0		T	153583313	T	T	153583313	3	4	134	1	0	0	0	0	1	0	0	0	5947	1136	40	5	2918	5	FLNA	23	153583313	Missense_Mutation	SNP	G	TCGA-CG-4442-01A-01D-1158-08	407494	153583313	1687247	1746	74404											
MPP1	4354	broad.mit.edu	37	chrX	154020457	154020457	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaaactgtatgagtcgcActttccgcacctcctgtccc	7	12	6	16	2	1	1	1	1	1	0	6	1	4	1	4	0	1	3	4	0	2	2			TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:154020457A>G	uc004fmp.1	-	2	321	c.206T>C	c.(205-207)GTG>GCG	p.V69A	MPP1_uc010nvg.1_Missense_Mutation_p.V69A|MPP1_uc011mzv.1_Missense_Mutation_p.V39A|MPP1_uc004fmq.1_Missense_Mutation_p.V23A|MPP1_uc011mzw.1_Intron|MPP1_uc010nvh.1_Intron	NM_002436	NP_002427	Q00013	EM55_HUMAN	palmitoylated membrane protein 1	69					regulation of neutrophil chemotaxis|signal transduction	integral to plasma membrane|membrane fraction|stereocilium	guanylate kinase activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TATGAGTCGCACTTTCCGCAC	0.557													8	108					0	0	0.006214	0	0		G	154020457	G	G	154020457	3	3	134	1	0	0	0	0	1	0	0	0	9751	159	6	3	1238	3	MPP1	23	154020457	Missense_Mutation	SNP	A	TCGA-CG-4442-01A-01D-1158-08	437144	154020457	1250103	1747	74405											
F8	2157	broad.mit.edu	37	chrX	154091467	154091467	+	Frame_Shift_Del	DEL	T	-	-																															ggagggttaaaaatattgtgTtttatcccagatgaatccac																										TCGA-CG-4442-01A-01D-1158-08	TCGA-CG-4442-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c1bbf67-5d74-4404-a6bf-ba7f23de3c29	037b82de-70da-4122-a9b6-0180852a5545	g.chrX:154091467delT	uc004fmt.2	-	23	6636	c.6465delA	c.(6463-6465)AAAfs	p.K2155fs	F8_uc004fms.2_Frame_Shift_Del_p.K20fs	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	2155	F5/8 type C 1.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	AAATATTGTGTTTTATCCCAG	0.398													81	30	---	---	---	---						.	-	154091467	-	-	154091467	7	5	134	1	0	1	0	1	0	0	0	0	5358	1722	60	0	606	0	F8	23	154091467	Frame_Shift_Del	DEL	T	TCGA-CG-4442-01A-01D-1158-08	71010	154091467	1179093	1748	74406											
MUL1	79594	broad.mit.edu	37	chr1	20827854	20827854	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atccacgccatcctcgtgggGcaccaggtcaaagggcactg	9	6	12	14	2	1	0	1	0	0	0	4	0	3	0	4	4	0	2	4	4	1	0			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr1:20827854G>C	uc001bdi.3	-	4	545	c.388C>G	c.(388-390)CCC>GCC	p.P130A		NM_024544	NP_078820	Q969V5	MUL1_HUMAN	mitochondrial ubiquitin ligase activator of NFKB	130	Mitochondrial intermembrane (Potential).				activation of caspase activity|activation of JUN kinase activity|induction of apoptosis|mitochondrial fission|mitochondrion localization|negative regulation of cell growth|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to mitochondrial outer membrane|nucleus|peroxisome	identical protein binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00748)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000137)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)		TCCTCGTGGGGCACCAGGTCA	0.507													38	61					0	0	0.01441	0	0		C	20827854	C	C	20827854	3	2	135	1	0	0	0	0	1	0	0	0	10002	1203	42	5	674	5	MUL1	1	20827854	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08		20827854	228422767	1	74407											
ZCCHC11	23318	broad.mit.edu	37	chr1	52891085	52891085	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgcatgaagttttgatgCaaaccataaggccacgaagc	14	9	10	8	1	0	3	0	3	0	0	0	4	0	3	2	1	4	3	2	1	4	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr1:52891085C>T	uc001ctx.2	-	29	5037	c.4803G>A	c.(4801-4803)TTG>TTA	p.L1601L	ZCCHC11_uc001cty.2_Silent_p.L1602L|ZCCHC11_uc001ctz.2_Silent_p.L1597L	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	1601					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						AGTTTTGATGCAAACCATAAG	0.498													52	84					0	0	0.01441	0	0		T	52891085	T	T	52891085	2	4	135	1	0	0	0	0	0	0	0	1	17605	709	25	2		2	ZCCHC11	1	52891085	Silent	SNP	C	TCGA-CG-4443-01A-01D-1158-08	32063231	52891085	196359536	2	74408											
TCHH	7062	broad.mit.edu	37	chr1	152080902	152080902	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctgctgttcgtcctccatGaattttctctcttgttcctg	4	18	7	12	1	2	1	0	1	2	0	7	1	5	1	3	0	2	4	3	0	1	5			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr1:152080902G>A	uc001ezp.2	-	2	4791	c.4791C>T	c.(4789-4791)TTC>TTT	p.F1597F	TCHH_uc009wne.1_Silent_p.F1597F	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1597	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGTCCTCCATGAATTTTCTCT	0.572													47	93					0	0	0.01441	0	0		A	152080902	A	A	152080902	2	1	135	1	0	0	0	0	0	0	0	1	15725	1281	45	4		4	TCHH	1	152080902	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08	99189817	152080902	97169719	3	74409											
OR6K6	128371	broad.mit.edu	37	chr1	158725605	158725605	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctattggaaggcttttccacTatcagaagagggctggttgg	9	12	13	7	0	1	2	1	0	0	2	2	3	2	3	1	5	0	3	1	5	4	6			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr1:158725605T>A	uc001fsw.1	+	1	1000	c.1000T>A	c.(1000-1002)TAT>AAT	p.Y334N		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	334	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					GCTTTTCCACTATCAGAAGAG	0.408													60	85					0	0	0.01441	0	0		A	158725605	A	A	158725605	3	1	135	1	0	0	0	0	1	0	0	0	11223	1522	53	5	1002	5	OR6K6	1	158725605	Missense_Mutation	SNP	T	TCGA-CG-4443-01A-01D-1158-08	6644703	158725605	90525016	4	74410											
TOR1AIP1	26092	broad.mit.edu	37	chr1	179852066	179852066	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctccgctacagccgtcTcctgttatgaccaggagagg	8	8	11	14	2	1	2	0	1	1	1	3	3	2	2	5	2	3	2	5	2	2	2			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr1:179852066T>A	uc001gnq.2	+	1	647	c.429T>A	c.(427-429)TCT>TCA	p.S143S	TOR1AIP1_uc001gnp.1_Silent_p.S143S	NM_015602	NP_056417	Q5JTV8	TOIP1_HUMAN	lamina-associated polypeptide 1B	143	Nuclear (Potential).					integral to membrane|nuclear inner membrane				breast(1)|central_nervous_system(1)	2						TACAGCCGTCTCCTGTTATGA	0.592													10	9					0	0	0.008871	0	0		A	179852066	A	A	179852066	2	1	135	1	0	0	0	0	0	0	0	1	16398	1538	54	5		5	TOR1AIP1	1	179852066	Silent	SNP	T	TCGA-CG-4443-01A-01D-1158-08	21126461	179852066	69398555	5	74411											
DENND1B	163486	broad.mit.edu	37	chr1	197627492	197627492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtaatacacttcaaaccaggGaaggtaactgtaaaataatt	18	10	7	6	0	1	0	1	0	0	0	1	1	1	1	1	2	3	3	1	2	8	7			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr1:197627492G>A	uc001guf.3	-	6	642	c.304C>T	c.(304-306)CCC>TCC	p.P102S	DENND1B_uc010ppe.1_Missense_Mutation_p.P102S|DENND1B_uc010ppf.1_RNA|DENND1B_uc001gue.3_Missense_Mutation_p.P92S|DENND1B_uc001gug.3_5'UTR	NM_144977	NP_659414	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 2	102	DENN.					clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						TCAAACCAGGGAAGGTAACTG	0.244													5	113					0	0	0.014758	0	0		A	197627492	A	A	197627492	3	1	135	1	0	0	0	0	1	0	0	0	4433	1174	41	4	2136	4	DENND1B	1	197627492	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	17775426	197627492	51623129	6	74412											
PIK3C2B	5287	broad.mit.edu	37	chr1	204424993	204424993	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggctcacctggtagccCagatgatggggatgcggtgg	6	8	17	10	1	1	2	1	1	0	1	1	3	1	3	3	6	2	2	3	6	1	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr1:204424993C>G	uc001haw.2	-	12	2413	c.1934G>C	c.(1933-1935)TGG>TCG	p.W645S	PIK3C2B_uc010pqv.1_Missense_Mutation_p.W645S|PIK3C2B_uc001hax.1_Missense_Mutation_p.W645S|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	645					cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			CCTGGTAGCCCAGATGATGGG	0.597													10	14					0	0	0.010729	0	0		G	204424993	G	G	204424993	3	3	135	1	0	0	0	0	1	0	0	0	11929	595	21	5	3062	5	PIK3C2B	1	204424993	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	6797501	204424993	44825628	7	74413											
OBSCN	84033	broad.mit.edu	37	chr1	228529881	228529881	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctgggtgagacagtcaaGctggcctgccgcgtgacggg	7	6	18	10	3	1	2	1	2	0	1	1	4	1	2	2	3	3	2	2	3	1	0			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr1:228529881G>T	uc009xez.1	+	75	18140	c.18096G>T	c.(18094-18096)AAG>AAT	p.K6032N	OBSCN_uc001hsn.2_Missense_Mutation_p.K6032N|OBSCN_uc001hsr.1_Missense_Mutation_p.K661N	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	6032	Ig-like 52.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGACAGTCAAGCTGGCCTGCC	0.647													3	5					0.00198382	0.00227556	0.001984	1	0		T	228529881	T	T	228529881	3	4	135	1	0	0	0	0	1	0	0	0	10831	962	34	5	18390	5	OBSCN	1	228529881	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	24104888	228529881	20720740	8	74414											
NUP133	55746	broad.mit.edu	37	chr1	229601204	229601204	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggttctttttctagtgaTtcttctcttctatacaaaga	9	19	5	8	0	6	2	1	1	5	1	7	2	6	2	0	1	1	1	0	1	4	9			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr1:229601204T>C	uc001htn.2	-	17	2354	c.2262A>G	c.(2260-2262)GAA>GAG	p.E754E		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	754					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				TTTCTAGTGATTCTTCTCTTC	0.323													133	171					0	0	0.01441	0	0		C	229601204	C	C	229601204	2	2	135	1	0	0	0	0	0	0	0	1	10773	1490	52	3		3	NUP133	1	229601204	Silent	SNP	T	TCGA-CG-4443-01A-01D-1158-08	1071323	229601204	19649417	9	74415											
NID1	4811	broad.mit.edu	37	chr1	236208770	236208770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcatacttggccaaattttCaactgattccctgtcattag	11	14	6	10	0	2	1	2	1	0	0	3	1	3	1	2	1	3	1	2	1	4	6			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr1:236208770C>T	uc001hxo.2	-	3	841	c.739G>A	c.(739-741)GAA>AAA	p.E247K	NID1_uc009xgd.2_Missense_Mutation_p.E247K	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	247	NIDO.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	GCCAAATTTTCAACTGATTCC	0.358													20	90					0	0	0.012319	0	0		T	236208770	T	T	236208770	3	4	135	1	0	0	0	0	1	0	0	0	10433	835	29	4	3076	4	NID1	1	236208770	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	6607566	236208770	13041851	10	74416											
THNSL2	55258	broad.mit.edu	37	chr2	88474331	88474331	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcctggagaagagggagAagcacgtcactgtggttgta	11	9	14	7	1	1	3	1	0	0	3	2	5	2	3	1	3	1	3	1	3	3	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr2:88474331A>G	uc002ssz.3	+	3	550	c.397A>G	c.(397-399)AAG>GAG	p.K133E	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_Missense_Mutation_p.K133E|THNSL2_uc002ssx.3_Missense_Mutation_p.K101E|THNSL2_uc002sta.3_Intron|THNSL2_uc002ssy.3_Missense_Mutation_p.K133E|THNSL2_uc010fhe.2_5'UTR	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	133					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						GAAGAGGGAGAAGCACGTCAC	0.507													33	57					0	0	0.019004	0	0		G	88474331	G	G	88474331	3	3	135	1	0	0	0	0	1	0	0	0	15888	247	9	3	403	3	THNSL2	2	88474331	Missense_Mutation	SNP	A	TCGA-CG-4443-01A-01D-1158-08		88474331	154725042	11	74417											
RANBP2	5903	broad.mit.edu	37	chr2	109381382	109381382	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catttaaatttggccagggaGatcttcctaaacctattaac	13	13	6	9	0	1	1	0	0	1	1	2	2	2	1	3	2	2	0	3	2	6	7	rs138483682		TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr2:109381382G>A	uc002tem.3	+	20	4513	c.4387G>A	c.(4387-4389)GAT>AAT	p.D1463N		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1463					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TGGCCAGGGAGATCTTCCTAA	0.393													46	72					0	0	0.009718	0	0		A	109381382	A	A	109381382	3	1	135	1	0	0	0	0	1	0	0	0	13053	942	33	4	4465	4	RANBP2	2	109381382	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	20907051	109381382	133817991	12	74418											
EDAR	10913	broad.mit.edu	37	chr2	109522783	109522783	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttccacgactccacacacGttggcatacacatcgaggat	11	8	7	15	3	0	0	0	0	0	0	3	3	2	1	3	2	1	2	3	2	1	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr2:109522783G>A	uc002teq.3	-	11	1436	c.1005C>T	c.(1003-1005)AAC>AAT	p.N335N	EDAR_uc010fjn.2_Silent_p.N367N|EDAR_uc010yws.1_Silent_p.N367N	NM_022336	NP_071731	Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor precursor	335	Cytoplasmic (Potential).				apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1						CTCCACACACGTTGGCATACA	0.532													42	66					0	0	0.01441	0	0		A	109522783	A	A	109522783	2	1	135	1	0	0	0	0	0	0	0	1	4911	1136	40	1		1	EDAR	2	109522783	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08	141401	109522783	133676590	13	74419											
DIS3L2	129563	broad.mit.edu	37	chr2	233103275	233103275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagttcacattgctgacGtgagttactttgttccggag	7	14	13	7	2	1	2	1	2	0	0	2	4	2	4	1	2	2	4	1	2	1	5			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr2:233103275G>A	uc010fxz.2	+	11	1513	c.1237G>A	c.(1237-1239)GTG>ATG	p.V413M	DIS3L2_uc002vsm.3_RNA|DIS3L2_uc002vso.2_RNA	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.	413							exonuclease activity|ribonuclease activity|RNA binding			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(139;0.00809)|Renal(207;0.0113)|Acute lymphoblastic leukemia(138;0.0195)|all_lung(227;0.0465)|Lung NSC(271;0.136)		Epithelial(121;1.6e-13)|BRCA - Breast invasive adenocarcinoma(100;0.00104)|LUSC - Lung squamous cell carcinoma(224;0.0109)|Lung(119;0.0149)		CATTGCTGACGTGAGTTACTT	0.488													37	43					0	0	0.027894	0	0		A	233103275	A	A	233103275	3	1	135	1	0	0	0	0	1	0	0	0	4543	1145	40	1	1275	1	DIS3L2	2	233103275	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	123580492	233103275	10096098	14	74420											
ALPP	250	broad.mit.edu	37	chr2	233244575	233244575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggtactcggacgccgacGtgcctgcctccgcccgccag	5	6	12	18	6	0	0	0	0	0	0	2	2	1	1	6	2	3	1	6	2	1	1	rs148017705	byFrequency	TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr2:233244575G>A	uc002vsq.2	+	5	751	c.586G>A	c.(586-588)GTG>ATG	p.V196M	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	196						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		GGACGCCGACGTGCCTGCCTC	0.662													30	42					0	0	0.009535	0	0		A	233244575	A	A	233244575	3	1	135	1	0	0	0	0	1	0	0	0	548	1145	40	1	604	1	ALPP	2	233244575	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	141300	233244575	9954798	15	74421											
HDAC4	9759	broad.mit.edu	37	chr2	240033331	240033331	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggccgccgaaggacacGgggatgccggcggcctccat	6	5	16	14	5	0	0	0	0	0	0	1	3	1	2	5	6	1	0	5	6	1	0			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr2:240033331G>A	uc002vyk.3	-	14	2646	c.1854C>T	c.(1852-1854)CCC>CCT	p.P618P	HDAC4_uc010fyz.1_Silent_p.P613P|HDAC4_uc010zoa.1_Silent_p.P618P|HDAC4_uc010fza.2_Silent_p.P623P|HDAC4_uc010fyy.2_Silent_p.P575P|HDAC4_uc010znz.1_Silent_p.P501P	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	618					B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		CGAAGGACACGGGGATGCCGG	0.692													5	9					0	0	0.004482	0	0		A	240033331	A	A	240033331	2	1	135	1	0	0	0	0	0	0	0	1	7025	1103	39	1		1	HDAC4	2	240033331	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08	6788756	240033331	3166042	16	74422											
SLC6A11	6538	broad.mit.edu	37	chr3	10976881	10976881	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagacggaggggacactgcCcgaggtgagaccgccccagg	10	2	17	12	3	0	2	0	1	0	2	0	7	0	4	4	5	1	0	4	5	1	0			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr3:10976881C>T	uc003bvz.2	+	13	1776	c.1742C>T	c.(1741-1743)CCC>CTC	p.P581L		NM_014229	NP_055044	P48066	S6A11_HUMAN	solute carrier family 6 (neurotransmitter	581	Cytoplasmic (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.229)		GGGACACTGCCCGAGGTGAGA	0.652													48	95					0	0	0.01441	0	0		T	10976881	T	T	10976881	3	4	135	1	0	0	0	0	1	0	0	0	14699	623	22	4	1792	4	SLC6A11	3	10976881	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08		10976881	187045549	17	74423											
HHATL	57467	broad.mit.edu	37	chr3	42738538	42738538	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgatgcacttgggaggctggGgtgggtccaggtggtcgagg	5	9	21	6	1	0	1	0	1	0	0	2	3	1	2	1	8	1	2	1	8	0	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr3:42738538G>T	uc003clw.2	-	9	1112	c.965C>A	c.(964-966)CCC>CAC	p.P322H	HHATL_uc003clx.2_Missense_Mutation_p.P322H	NM_020707	NP_065758	Q9HCP6	HHATL_HUMAN	hedgehog acyltransferase-like	322					negative regulation of N-terminal protein palmitoylation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm				ovary(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.215)		GGGAGGCTGGGGTGGGTCCAG	0.612													15	25					4.75885e-15	5.93904e-15	0.00499	1	0		T	42738538	T	T	42738538	3	4	135	1	0	0	0	0	1	0	0	0	7106	1232	43	5	569	5	HHATL	3	42738538	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	31761657	42738538	155283892	18	74424											
SCAP	22937	broad.mit.edu	37	chr3	47462450	47462450	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaatgtcaatggacaggaCagtggtgaaaaacagcatct	15	7	12	7	1	2	1	1	1	1	0	2	4	2	3	0	3	2	1	0	3	4	0			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr3:47462450C>G	uc003crh.1	-	11	1570	c.1315G>C	c.(1315-1317)GTC>CTC	p.V439L	SCAP_uc011baz.1_Missense_Mutation_p.V184L|SCAP_uc003crg.2_Missense_Mutation_p.V47L	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	439	SSD.|Helical; Name=6; (Potential).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		ATGGACAGGACAGTGGTGAAA	0.587											OREG0015548	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	45					0	0	0.024245	0	0		G	47462450	G	G	47462450	3	3	135	1	0	0	0	0	1	0	0	0	13902	478	17	5	2576	5	SCAP	3	47462450	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	4723912	47462450	150559980	19	74425											
GOLGB1	2804	broad.mit.edu	37	chr3	121416746	121416746	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttatttcaagttccttcTgtgaaagagcctgggacagt	9	15	10	7	0	2	2	1	1	1	1	3	3	3	3	2	1	1	2	2	1	3	5			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr3:121416746T>G	uc003eei.3	-	13	2735	c.2609A>C	c.(2608-2610)CAG>CCG	p.Q870P	GOLGB1_uc010hrc.2_Missense_Mutation_p.Q875P|GOLGB1_uc003eej.3_Missense_Mutation_p.Q836P|GOLGB1_uc011bjm.1_Missense_Mutation_p.Q756P|GOLGB1_uc010hrd.1_Missense_Mutation_p.Q834P	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	870	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		AAGTTCCTTCTGTGAAAGAGC	0.433													185	188					0	0	0.01441	0	0		G	121416746	G	G	121416746	3	3	135	1	0	0	0	0	1	0	0	0	6580	1580	55	5	7210	5	GOLGB1	3	121416746	Missense_Mutation	SNP	T	TCGA-CG-4443-01A-01D-1158-08	73954296	121416746	76605684	20	74426											
PLOD2	5352	broad.mit.edu	37	chr3	145838987	145838987	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactttctggccccctccaaTactattaattccatcaccac	10	12	2	17	0	2	0	1	0	1	0	4	0	4	0	5	1	1	0	5	1	4	5			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr3:145838987T>A	uc003evs.1	-	3	756	c.250A>T	c.(250-252)ATT>TTT	p.I84F	PLOD2_uc011bnm.1_Missense_Mutation_p.I29F|PLOD2_uc003evr.1_Missense_Mutation_p.I84F	NM_000935	NP_000926	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	84					protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)	CCCCCTCCAATACTATTAATT	0.378													48	82					0	0	0.01441	0	0		A	145838987	A	A	145838987	3	1	135	1	0	0	0	0	1	0	0	0	12121	1406	49	5	2098	5	PLOD2	3	145838987	Missense_Mutation	SNP	T	TCGA-CG-4443-01A-01D-1158-08	24422241	145838987	52183443	21	74427											
C3orf55	152078	broad.mit.edu	37	chr3	157271104	157271104	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcaagcactgatacgtccGgagagcacttgacctgcctt	10	9	9	13	2	1	3	1	2	0	1	2	4	2	3	3	1	4	2	3	1	2	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr3:157271104G>T	uc003fbp.3	+	2	226	c.58G>T	c.(58-60)GGA>TGA	p.G20*	C3orf55_uc011bos.1_RNA|C3orf55_uc003fbo.2_Nonsense_Mutation_p.G20*|C3orf55_uc011bot.1_RNA|C3orf55_uc010hvv.2_Nonsense_Mutation_p.G20*	NM_001130002	NP_001123474	A1A4F0	CC055_HUMAN	hypothetical protein LOC152078 isoform 1	20											0			Lung(72;0.0215)|LUSC - Lung squamous cell carcinoma(72;0.037)			TGATACGTCCGGAGAGCACTT	0.289													5	15					0.000602214	0.000706357	0.014758	1	0		T	157271104	T	T	157271104	4	4	135	1	0	0	0	0	0	1	0	0	2237	1117	39	5	60	5	C3orf55	3	157271104	Nonsense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	11432117	157271104	40751326	22	74428											
HRG	3273	broad.mit.edu	37	chr3	186395370	186395370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caccaccccataaccaaggtCactgttgccatggccacggc	10	6	8	17	1	1	0	1	0	0	0	1	0	1	0	6	3	2	1	6	3	2	2			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr3:186395370C>T	uc003fqq.2	+	7	1299	c.1276C>T	c.(1276-1278)CAC>TAC	p.H426Y		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	426	His/Pro-rich (HRR).				fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		TAACCAAGGTCACTGTTGCCA	0.408													23	33					0	0	0.01892	0	0		T	186395370	T	T	186395370	3	4	135	1	0	0	0	0	1	0	0	0	7370	826	29	4	1302	4	HRG	3	186395370	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	29124266	186395370	11627060	23	74429											
TP63	8626	broad.mit.edu	37	chr3	189584511	189584511	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	catttgattcgagtagagggGaacagccatgcccagtatgt	11	10	12	8	1	0	2	0	1	0	1	1	4	0	3	2	2	3	2	2	2	3	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr3:189584511G>A	uc003fry.2	+	6	896	c.807G>A	c.(805-807)GGG>GGA	p.G269G	TP63_uc003frx.2_Silent_p.G269G|TP63_uc003frz.2_Silent_p.G269G|TP63_uc010hzc.1_Silent_p.G269G|TP63_uc003fsa.2_Silent_p.G175G|TP63_uc003fsb.2_Silent_p.G175G|TP63_uc003fsc.2_Silent_p.G175G|TP63_uc003fsd.2_Silent_p.G175G|TP63_uc010hzd.1_Silent_p.G90G|TP63_uc003fse.1_Silent_p.G150G	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	269					anti-apoptosis|cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	p.G269V(1)		skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		GAGTAGAGGGGAACAGCCATG	0.408									Hay-Wells_syndrome	HNSCC(45;0.13)			42	39					0	0	0.01441	0	0		A	189584511	A	A	189584511	2	1	135	1	0	0	0	0	0	0	0	1	16418	1161	41	4		4	TP63	3	189584511	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08	3189141	189584511	8437919	24	74430											
GPR78	27201	broad.mit.edu	37	chr4	8583111	8583111	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgtgcctggggacagtcGctggccttctcaggcgctgc	3	9	16	13	2	1	0	1	0	1	0	3	1	1	1	2	5	2	3	2	5	0	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr4:8583111G>A	uc003glk.2	+	1	821	c.402G>A	c.(400-402)TCG>TCA	p.S134S	CPZ_uc003gll.2_RNA	NM_080819	NP_543009	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	134	Helical; Name=4; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(4)|ovary(2)	6						GGGGACAGTCGCTGGCCTTCT	0.711													7	21					0	0	0.006214	0	0		A	8583111	A	A	8583111	2	1	135	1	0	0	0	0	0	0	0	1	6725	1074	38	1		1	GPR78	4	8583111	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08		8583111	182571165	25	74431											
ATP10D	57205	broad.mit.edu	37	chr4	47559779	47559779	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaagatcaagttctccatcGcttaacagtgggaaagagcc	13	8	10	10	2	2	2	1	0	1	2	4	4	2	3	2	1	2	2	2	1	4	2			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr4:47559779G>A	uc003gxk.1	+	12	2087	c.1923G>A	c.(1921-1923)TCG>TCA	p.S641S	ATP10D_uc003gxl.1_Intron	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	641	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						GTTCTCCATCGCTTAACAGTG	0.478													60	65					0	0	0.01441	0	0		A	47559779	A	A	47559779	2	1	135	1	0	0	0	0	0	0	0	1	1119	1074	38	1		1	ATP10D	4	47559779	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08	38976668	47559779	143594497	26	74432											
ADH1B	125	broad.mit.edu	37	chr4	100237113	100237113	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacagccaatgaggcagActttctccaggggcgaggct	10	7	12	12	1	1	2	0	1	1	1	3	3	2	2	3	4	1	2	3	4	1	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr4:100237113A>C	uc003hus.3	-	5	593	c.509T>G	c.(508-510)GTC>GGC	p.V170G	ADH1A_uc011ceg.1_Intron|ADH1B_uc003hut.3_Missense_Mutation_p.V130G|ADH1B_uc011ceh.1_Missense_Mutation_p.V15G|ADH1B_uc011cei.1_Missense_Mutation_p.V130G	NM_000668	NP_000659	P00325	ADH1B_HUMAN	class I alcohol dehydrogenase, beta subunit	170					ethanol oxidation|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|zinc ion binding			ovary(1)|breast(1)	2				OV - Ovarian serous cystadenocarcinoma(123;1.02e-07)	Fomepizole(DB01213)|NADH(DB00157)	AATGAGGCAGACTTTCTCCAG	0.512													6	139					0	0	0.004482	0	0		C	100237113	C	C	100237113	3	2	135	1	0	0	0	0	1	0	0	0	308	275	10	5	638	5	ADH1B	4	100237113	Missense_Mutation	SNP	A	TCGA-CG-4443-01A-01D-1158-08	52677334	100237113	90917163	27	74433											
NDUFS6	4726	broad.mit.edu	37	chr5	1815967	1815967	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttttgaattttttcaggaCaaagaaacaaaaaccggcac	16	10	6	9	1	1	2	1	1	0	1	1	3	1	3	2	2	2	1	2	2	5	5			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr5:1815967C>G	uc003jcy.2	+	4	335	c.312C>G	c.(310-312)GAC>GAG	p.D104E		NM_004553	NP_004544	O75380	NDUS6_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 6,	104					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I	electron carrier activity|NADH dehydrogenase (ubiquinone) activity			central_nervous_system(1)	1					NADH(DB00157)	TTTTTCAGGACAAAGAAACAA	0.433													32	54					0	0	0.010818	0	0		G	1815967	G	G	1815967	3	3	135	1	0	0	0	0	1	0	0	0	10315	477	17	5	326	5	NDUFS6	5	1815967	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08		1815967	179099293	28	74434											
IRX1	79192	broad.mit.edu	37	chr5	3600109	3600109	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcgcacgggccctccgccggGgcgccgctgcaacaccccgc	4	2	14	21	7	0	0	0	0	0	0	1	0	1	0	6	3	2	3	6	3	1	0			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr5:3600109G>A	uc003jde.2	+	2	1099	c.1047G>A	c.(1045-1047)GGG>GGA	p.G349G		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	349						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						cctccgccggggcgccgcTGC	0.498													3	4					0	0	0.004672	0	0		A	3600109	A	A	3600109	2	1	135	1	0	0	0	0	0	0	0	1	7859	1219	43	4		4	IRX1	5	3600109	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08	1784142	3600109	177315151	29	74435											
SEMA5A	9037	broad.mit.edu	37	chr5	9063157	9063157	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacgacgtccaggctgacCaagccccgttgaccgtgtgg	8	6	12	15	4	0	2	0	2	0	0	1	3	1	2	6	2	1	2	6	2	1	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr5:9063157C>G	uc003jek.2	-	18	3072	c.2360G>C	c.(2359-2361)TGG>TCG	p.W787S		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	787	TSP type-1 5.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						CCAGGCTGACCAAGCCCCGTT	0.572													3	42					0	0	0.004672	0	0		G	9063157	G	G	9063157	3	3	135	1	0	0	0	0	1	0	0	0	14062	595	21	5	888	5	SEMA5A	5	9063157	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	5463048	9063157	171852103	30	74436											
CDH12	1010	broad.mit.edu	37	chr5	21755822	21755822	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cagagtcacatctacagactCgaatagtcattgtgtttgtg	11	13	9	8	1	3	2	2	0	1	2	4	3	3	2	0	0	1	1	0	0	3	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr5:21755822C>G	uc010iuc.2	-	11	2221	c.1763G>C	c.(1762-1764)CGA>CCA	p.R588P	CDH12_uc011cno.1_Missense_Mutation_p.R548P|CDH12_uc003jgk.2_Missense_Mutation_p.R588P|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	588	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TCTACAGACTCGAATAGTCAT	0.458										HNSCC(59;0.17)			48	72					0	0	0.01441	0	0		G	21755822	G	G	21755822	3	3	135	1	0	0	0	0	1	0	0	0	3101	884	31	5	629	5	CDH12	5	21755822	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	12692665	21755822	159159438	31	74437											
HEATR7B2	133558	broad.mit.edu	37	chr5	41047834	41047834	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccttacctgaagcagcaTggtttcccatagaacggtac	11	9	9	12	1	0	2	0	1	0	1	1	2	1	2	3	2	6	4	3	2	5	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr5:41047834T>C	uc003jmj.3	-	17	2207	c.1717A>G	c.(1717-1719)ATG>GTG	p.M573V	HEATR7B2_uc003jmi.3_Missense_Mutation_p.M128V	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	573	HEAT 7.						binding			ovary(6)|central_nervous_system(2)	8						TGAAGCAGCATGGTTTCCCAT	0.373													3	4					0	0	0.004672	0	0		C	41047834	C	C	41047834	3	2	135	1	0	0	0	0	1	0	0	0	7051	1464	51	3	3144	3	HEATR7B2	5	41047834	Missense_Mutation	SNP	T	TCGA-CG-4443-01A-01D-1158-08	19292012	41047834	139867426	32	74438											
TRPC7	57113	broad.mit.edu	37	chr5	135610444	135610444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacagccaggaatttcacagCgatagactgttgacgtaagc	13	8	11	9	2	1	2	1	1	0	1	1	5	1	3	1	1	3	2	1	1	3	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr5:135610444C>T	uc003lbn.1	-	3	1045	c.1042G>A	c.(1042-1044)GCT>ACT	p.A348T	TRPC7_uc010jef.1_Intron|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.A279T|TRPC7_uc010jei.1_Intron|TRPC7_uc010jej.1_Intron	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	349	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AATTTCACAGCGATAGACTGT	0.443													10	4					0	0	0.008291	0	0		T	135610444	T	T	135610444	3	4	135	1	0	0	0	0	1	0	0	0	16610	768	27	1	1579	1	TRPC7	5	135610444	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	94562610	135610444	45304816	33	74439											
CDHR2	54825	broad.mit.edu	37	chr5	176022630	176022630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgcaagtggacagctggaggGgccatcctacaccaacgctg	10	5	13	13	2	0	0	0	0	0	0	1	2	1	2	3	4	3	3	3	4	3	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr5:176022630G>A	uc003mem.1	+	32	3956	c.3890G>A	c.(3889-3891)GGG>GAG	p.G1297E	CDHR2_uc003men.1_Missense_Mutation_p.G1297E	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	1297	Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						CAGCTGGAGGGGCCATCCTAC	0.642													85	87					0	0	0.01441	0	0		A	176022630	A	A	176022630	3	1	135	1	0	0	0	0	1	0	0	0	3122	1232	43	4	4012	4	CDHR2	5	176022630	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	40412186	176022630	4892630	34	74440											
FLT4	2324	broad.mit.edu	37	chr5	180057715	180057715	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccctcgcagtctcgcacCacccccgtgtcctcgctgtc	3	9	9	20	4	1	0	0	0	1	0	6	0	2	0	5	0	1	3	5	0	0	0			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr5:180057715C>A	uc003mma.3	-	3	319	c.240G>T	c.(238-240)GTG>GTT	p.V80V	FLT4_uc003mlz.3_Silent_p.V80V|FLT4_uc003mmb.1_5'Flank|FLT4_uc011dgy.1_Silent_p.V80V|FLT4_uc011dgz.1_Silent_p.V80V|FLT4_uc011dha.1_Silent_p.V80V	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	80	Ig-like C2-type 1.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	AGTCTCGCACCACCCCCGTGT	0.647									Congenital_Hereditary_Lymphedema				26	39					2.12542e-12	2.63147e-12	0.00632	1	0		A	180057715	A	A	180057715	2	1	135	1	0	0	0	0	0	0	0	1	5958	581	21	5		5	FLT4	5	180057715	Silent	SNP	C	TCGA-CG-4443-01A-01D-1158-08	4035085	180057715	857545	35	74441											
GPR116	221395	broad.mit.edu	37	chr6	46825952	46825953	+	Missense_Mutation	DNP	GG	TT	TT																															gagaccaaaaccccaagtgaGgcccaagagtggtgtgagga																										TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr6:46825952_46825953GG>TT	uc003oyo.3	-	17	3976_3977	c.3687_3688CC>AA	c.(3685-3690)GGCCTC>GGAATC	p.L1230I	GPR116_uc011dwj.1_Missense_Mutation_p.L785I|GPR116_uc011dwk.1_Missense_Mutation_p.L659I|GPR116_uc003oyp.3_Missense_Mutation_p.L1088I|GPR116_uc003oyq.3_Missense_Mutation_p.L1230I|GPR116_uc010jzi.1_Missense_Mutation_p.L902I	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	1230	Helical; Name=6; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			CCCCAAGTGAGGCCCAAGAGTG	0.505													67	106					0	0	0.004672	0	0		TT	46825953	TT	TT	46825952	3	4	135	1	0	0	0	0	1	0	0	0	6648	1000	35	5	372	5	GPR116	6	46825952	Missense_Mutation	DNP	GG	TCGA-CG-4443-01A-01D-1158-08		46825952	124289115	36	74442											
WASF1	8936	broad.mit.edu	37	chr6	110423254	110423254	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggaggtggaggtgggggAggtactggagggggaggagt	7	6	26	2	0	0	0	0	0	0	0	0	6	0	6	0	11	1	2	0	11	1	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr6:110423254A>G	uc003ptv.1	-	10	1896	c.1059T>C	c.(1057-1059)CCT>CCC	p.P353P	WASF1_uc003ptw.1_Silent_p.P353P|WASF1_uc003ptx.1_Silent_p.P353P|WASF1_uc003pty.1_Silent_p.P353P	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	353	Poly-Pro.				actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)		GAGGTGGGGGAGGTACTGGAG	0.577													5	33					0	0	0.016723	0	0		G	110423254	G	G	110423254	2	3	135	1	0	0	0	0	0	0	0	1	17278	291	11	3		3	WASF1	6	110423254	Silent	SNP	A	TCGA-CG-4443-01A-01D-1158-08	63597302	110423254	60691813	37	74443											
EPB41L2	2037	broad.mit.edu	37	chr6	131206403	131206410	+	Splice_Site	DEL	TCGGAGCT	-	-																															actttggtccatgacaccaaTcggagctagtaaagagtgac																								rs76682195	byFrequency	TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr6:131206403_131206410delTCGGAGCT	uc003qch.2	-	12	1843	c.1661_splice	c.e12-1	p.A554_splice	EPB41L2_uc003qce.1_5'Flank|EPB41L2_uc003qcf.1_5'Flank|EPB41L2_uc003qcg.1_Splice_Site_p.A554_splice|EPB41L2_uc011eby.1_Splice_Site_p.A554_splice|EPB41L2_uc003qci.2_Splice_Site_p.A554_splice|EPB41L2_uc010kfk.2_Splice_Site_p.A554_splice|EPB41L2_uc010kfl.1_Splice_Site_p.A554_splice	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2						cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		ATGACACCAATCGGAGCTAGTAAAGAGT	0.413											OREG0017660	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	26	---	---	---	---						.	-	131206410	-	-	131206403	8	5	135	1	0	1	0	1	0	0	1	0	5161	1435	50	0	1383	0	EPB41L2	6	131206403	Splice_Site	DEL	TCGGAGCT	TCGA-CG-4443-01A-01D-1158-08	20783149	131206403	39908664	38	74444											
LATS1	9113	broad.mit.edu	37	chr6	150004716	150004716	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctgtagctctggttttaaTacacgcatacttttcacagg	9	15	8	9	1	3	0	1	0	2	0	3	0	3	0	0	2	3	4	0	2	4	7			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr6:150004716T>C	uc003qmu.1	-	4	2057	c.1509A>G	c.(1507-1509)GTA>GTG	p.V503V	LATS1_uc010kif.1_Silent_p.V398V|LATS1_uc003qmv.1_Silent_p.V503V|LATS1_uc003qmw.2_Silent_p.V503V|LATS1_uc010kig.1_Silent_p.V398V	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	503					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		CTGGTTTTAATACACGCATAC	0.453													74	23					0	0	0.01441	0	0		C	150004716	C	C	150004716	2	2	135	1	0	0	0	0	0	0	0	1	8662	1393	49	3		3	LATS1	6	150004716	Silent	SNP	T	TCGA-CG-4443-01A-01D-1158-08	18798313	150004716	21110351	39	74445											
PKD1L1	168507	broad.mit.edu	37	chr7	47874786	47874786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccctggagaagccaggaggGtacacaggagacccaccctg	11	3	13	14	0	0	2	0	0	0	2	0	5	0	3	5	4	2	1	5	4	2	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr7:47874786G>A	uc003tny.1	-	38	5999	c.5999C>T	c.(5998-6000)ACC>ATC	p.T2000I		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2000	Helical; (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AGCCAGGAGGGTACACAGGAG	0.582													5	38					0	0	0.021553	0	0		A	47874786	A	A	47874786	3	1	135	1	0	0	0	0	1	0	0	0	11983	1261	44	4	2630	4	PKD1L1	7	47874786	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08		47874786	111263877	40	74446											
DMTF1	9988	broad.mit.edu	37	chr7	86824010	86824010	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttatttagggtttagagtCtcccactatagaagaacaag	13	13	9	6	0	1	3	0	0	1	3	2	3	1	3	1	1	1	2	1	1	8	7			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr7:86824010C>A	uc003uih.2	+	17	2365	c.2039C>A	c.(2038-2040)TCT>TAT	p.S680Y	DMTF1_uc003uii.2_Missense_Mutation_p.S414Y|DMTF1_uc003uij.2_Missense_Mutation_p.S414Y|DMTF1_uc011khb.1_Missense_Mutation_p.S592Y|DMTF1_uc003uik.2_RNA|DMTF1_uc003uil.2_Missense_Mutation_p.S680Y|DMTF1_uc003uin.2_Missense_Mutation_p.S414Y	NM_001142327	NP_001135799	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	680	Interaction with CCND1, CCND2 and CCND3 (By similarity).|Required for transcriptional activation (By similarity).				cell cycle	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(14;0.0058)					GGTTTAGAGTCTCCCACTATA	0.313													20	36					3.51602e-12	4.31889e-12	0.008871	1	0		A	86824010	A	A	86824010	3	1	135	1	0	0	0	0	1	0	0	0	4598	913	32	5	2097	5	DMTF1	7	86824010	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	38949224	86824010	72314653	41	74447											
GCC1	79571	broad.mit.edu	37	chr7	127222544	127222544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacccacaggacttctgcGtcctggcagcccagaggcca	9	5	10	17	1	1	1	0	0	1	1	2	2	2	2	5	3	2	1	5	3	0	1	rs34883586	byFrequency	TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr7:127222544G>A	uc003vma.2	-	2	2270	c.1852C>T	c.(1852-1854)CGC>TGC	p.R618C		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	618	Potential.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						GGACTTCTGCGTCCTGGCAGC	0.607													53	43					0	0	0.01441	0	0		A	127222544	A	A	127222544	3	1	135	1	0	0	0	0	1	0	0	0	6300	1145	40	1	479	1	GCC1	7	127222544	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	40398534	127222544	31916119	42	74448											
ASH2L	9070	broad.mit.edu	37	chr8	37964667	37964667	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatggttcacggctgacacAtttggcatagatacctcgtg	11	11	10	9	2	1	2	1	1	0	1	2	2	1	2	1	3	1	3	1	3	3	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr8:37964667A>T	uc003xkt.3	+	3	442	c.384A>T	c.(382-384)ACA>ACT	p.T128T	ASH2L_uc011lbk.1_Intron|ASH2L_uc003xku.3_Silent_p.T34T|ASH2L_uc010lwa.2_Silent_p.T34T	NM_004674	NP_004665	Q9UBL3	ASH2L_HUMAN	ash2-like isoform a	128	C4-type.				hemopoiesis|histone H3-K4 methylation|positive regulation of cell proliferation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription from RNA polymerase II promoter	Set1C/COMPASS complex	metal ion binding|protein binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2	Colorectal(12;0.000501)	Lung NSC(58;0.0295)|all_lung(54;0.0413)				CGGCTGACACATTTGGCATAG	0.438													79	85					0	0	0.01441	0	0		T	37964667	T	T	37964667	2	4	135	1	0	0	0	0	0	0	0	1	1043	204	8	5		5	ASH2L	8	37964667	Silent	SNP	A	TCGA-CG-4443-01A-01D-1158-08		37964667	108399355	43	74449											
PDE7A	5150	broad.mit.edu	37	chr8	66639406	66639415	+	Frame_Shift_Del	DEL	TTGTATAAAG	-	-																															atgataaaattgcactaaccTtgtataaagttgccaagtaa																										TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr8:66639406_66639415delTTGTATAAAG	uc003xvq.2	-	8	830_839	c.818_827delCTTTATACAA	c.(817-828)ACTTTATACAAGfs	p.T273fs	PDE7A_uc003xvr.2_Frame_Shift_Del_p.T273fs|PDE7A_uc003xvp.2_Frame_Shift_Del_p.T247fs	NM_002604	NP_002595	Q13946	PDE7A_HUMAN	phosphodiesterase 7A isoform b	273_276	Catalytic (By similarity).					cell fraction|cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding				0			Epithelial(68;0.0509)|BRCA - Breast invasive adenocarcinoma(89;0.111)|all cancers(69;0.168)|OV - Ovarian serous cystadenocarcinoma(28;0.238)		Dyphylline(DB00651)|Ketotifen(DB00920)	TGCACTAACCTTGTATAAAGTTGCCAAGTA	0.305													15	33	---	---	---	---						.	-	66639415	-	-	66639406	7	5	135	1	0	1	0	1	0	0	0	0	11670	1623	56	0	677	0	PDE7A	8	66639406	Frame_Shift_Del	DEL	TTGTATAAAG	TCGA-CG-4443-01A-01D-1158-08	28674739	66639406	79724616	44	74450											
MMP16	4325	broad.mit.edu	37	chr8	89339413	89339413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaatccaaccgtcttccaGtgctgaatgtgagtaagatc	12	10	9	10	2	1	3	0	2	1	1	4	4	3	3	3	0	2	2	3	0	4	2			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr8:89339413G>A	uc003yeb.3	-	1	305	c.23C>T	c.(22-24)ACT>ATT	p.T8I	MMP16_uc003yec.2_Missense_Mutation_p.T8I	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	8					collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						CCGTCTTCCAGTGCTGAATGT	0.393													62	170					0	0	0.01441	0	0		A	89339413	A	A	89339413	3	1	135	1	0	0	0	0	1	0	0	0	9673	1029	36	4	1996	4	MMP16	8	89339413	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	22700007	89339413	57024609	45	74451											
PLEC	5339	broad.mit.edu	37	chr8	145004159	145004159	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgcggcgaaggctctgccagGccagaaggctcttcatgtcc	7	7	13	14	3	3	1	1	0	2	1	4	2	4	1	3	4	1	2	3	4	2	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr8:145004159G>C	uc003zaf.1	-	22	3265	c.3095C>G	c.(3094-3096)GCC>GGC	p.A1032G	PLEC_uc003zab.1_Missense_Mutation_p.A895G|PLEC_uc003zac.1_Missense_Mutation_p.A899G|PLEC_uc003zad.2_Missense_Mutation_p.A895G|PLEC_uc003zae.1_Missense_Mutation_p.A863G|PLEC_uc003zag.1_Missense_Mutation_p.A873G|PLEC_uc003zah.2_Missense_Mutation_p.A881G|PLEC_uc003zaj.2_Missense_Mutation_p.A922G	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	1032	Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GCTCTGCCAGGCCAGAAGGCT	0.692													10	28					0	0	0.008291	0	0		C	145004159	C	C	145004159	3	2	135	1	0	0	0	0	1	0	0	0	12071	1203	42	5	11003	5	PLEC	8	145004159	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	55664746	145004159	1359863	46	74452											
SIT1	27240	broad.mit.edu	37	chr9	35650807	35650807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggctgcagatgtgagaGtccacaagcacactgctctg	10	9	11	11	0	2	2	1	1	1	2	3	3	3	2	1	1	3	4	1	1	1	0			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr9:35650807G>A	uc003zxe.1	-	1	141	c.44C>T	c.(43-45)ACT>ATT	p.T15I	SIT1_uc003zxf.1_RNA	NM_014450	NP_055265	Q9Y3P8	SIT1_HUMAN	SHP2-interacting transmembrane adaptor protein	15					regulation of T cell activation|signal transduction	integral to plasma membrane	kinase binding|SH2 domain binding				0			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			AGATGTGAGAGTCCACAAGCA	0.627													7	13					0	0	0.00308	0	0		A	35650807	A	A	35650807	3	1	135	1	0	0	0	0	1	0	0	0	14369	1029	36	4	566	4	SIT1	9	35650807	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08		35650807	105562624	47	74453											
RGP1	9827	broad.mit.edu	37	chr9	35751395	35751395	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgcctaatggctgccacatCctgccgcagcctccgtgaga	8	7	10	16	3	0	1	0	1	0	1	2	2	2	1	6	1	3	2	6	1	1	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr9:35751395C>A	uc011lpf.1	+	6	761	c.620C>A	c.(619-621)TCC>TAC	p.S207Y	GBA2_uc011lpb.1_5'Flank|GBA2_uc003zxw.2_5'Flank|GBA2_uc011lpc.1_5'Flank|GBA2_uc011lpd.1_5'Flank|RGP1_uc011lpe.1_Missense_Mutation_p.S247Y	NM_001080496	NP_001073965	Q92546	RGP1_HUMAN	RGP1 retrograde golgi transport homolog	207										ovary(1)	1	all_epithelial(49;0.167)		Lung(28;0.00416)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GCTGCCACATCCTGCCGCAGC	0.532													26	21					8.86878e-18	1.13404e-17	0.01441	1	0		A	35751395	A	A	35751395	3	1	135	1	0	0	0	0	1	0	0	0	13309	855	30	5	766	5	RGP1	9	35751395	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	100588	35751395	105462036	48	74454											
TMEM2	23670	broad.mit.edu	37	chr9	74340545	74340545	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taaaatatacccaatggagtGagttctggttttgccaagag	13	12	10	6	0	1	2	0	1	1	1	1	3	1	3	2	2	2	2	2	2	6	6			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr9:74340545G>C	uc011lsa.1	-	11	2670	c.2130C>G	c.(2128-2130)CTC>CTG	p.L710L	TMEM2_uc010mos.2_Silent_p.L647L|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	710						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		CCAATGGAGTGAGTTCTGGTT	0.378													4	169					0	0	0.009096	0	0		C	74340545	C	C	74340545	2	2	135	1	0	0	0	0	0	0	0	1	16146	1277	45	5		5	TMEM2	9	74340545	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08	38589150	74340545	66872886	49	74455											
GAPVD1	26130	broad.mit.edu	37	chr9	128094285	128094285	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtagcacatctgatgatacgGatgtcagggaggtcagttcc	10	10	13	8	1	3	2	2	2	1	0	4	4	4	4	1	3	2	3	1	3	2	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr9:128094285G>C	uc010mwx.2	+	14	2580	c.2254G>C	c.(2254-2256)GAT>CAT	p.D752H	GAPVD1_uc011lzs.1_Missense_Mutation_p.D752H|GAPVD1_uc004bpp.2_Missense_Mutation_p.D752H|GAPVD1_uc004bpq.2_Missense_Mutation_p.D752H|GAPVD1_uc004bpr.2_Missense_Mutation_p.D731H|GAPVD1_uc004bps.2_Missense_Mutation_p.D752H|GAPVD1_uc010mwy.1_Missense_Mutation_p.D611H	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	752					endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						TGATGATACGGATGTCAGGGA	0.517													23	32					0	0	0.021523	0	0		C	128094285	C	C	128094285	3	2	135	1	0	0	0	0	1	0	0	0	6254	1174	41	5	2296	5	GAPVD1	9	128094285	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	53753740	128094285	13119146	50	74456											
ZBTB43	23099	broad.mit.edu	37	chr9	129595849	129595849	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgagaatattgaaatggTaacagggattaaagaagaag	19	8	12	2	0	0	4	0	2	0	3	0	6	0	5	0	2	1	1	0	2	8	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr9:129595849T>A	uc004bql.2	+	3	1334	c.1061T>A	c.(1060-1062)GTA>GAA	p.V354E	ZBTB43_uc010mxf.2_Missense_Mutation_p.V354E	NM_014007	NP_054726	O43298	ZBT43_HUMAN	zinc finger and BTB domain containing 43	354					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATTGAAATGGTAACAGGGATT	0.468													43	68					0	0	0.007835	0	0		A	129595849	A	A	129595849	3	1	135	1	0	0	0	0	1	0	0	0	17569	1638	57	5	1063	5	ZBTB43	9	129595849	Missense_Mutation	SNP	T	TCGA-CG-4443-01A-01D-1158-08	1501564	129595849	11617582	51	74457											
SLC25A25	114789	broad.mit.edu	37	chr9	130860953	130860953	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgaagtccattttcaagctCagtgtcttcatcccctccca	8	13	5	15	0	4	1	3	1	1	0	7	1	7	1	4	0	1	1	4	0	2	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr9:130860953C>G	uc004bte.2	+	1	137	c.108C>G	c.(106-108)CTC>CTG	p.L36L	SLC25A25_uc004btb.2_Intron|SLC25A25_uc004btc.2_Intron|SLC25A25_uc004btd.2_Intron|SLC25A25_uc004btf.2_5'UTR	NM_052901	NP_443133	Q6KCM7	SCMC2_HUMAN	solute carrier family 25, member 25 isoform a	36	Mitochondrial intermembrane (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding				0						TTTTCAAGCTCAGTGTCTTCA	0.582													45	86					0	0	0.01441	0	0		G	130860953	G	G	130860953	2	3	135	1	0	0	0	0	0	0	0	1	14513	813	29	5		5	SLC25A25	9	130860953	Silent	SNP	C	TCGA-CG-4443-01A-01D-1158-08	1265104	130860953	10352478	52	74458											
ZER1	10444	broad.mit.edu	37	chr9	131515085	131515085	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacctcccgagtcagcttgaActtgtagtagctggagaggc	9	9	12	11	1	1	2	1	1	0	1	2	4	2	2	2	2	3	4	2	2	3	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr9:131515085A>G	uc004bwa.1	-	5	1223	c.790T>C	c.(790-792)TTC>CTC	p.F264L		NM_006336	NP_006327	Q7Z7L7	ZER1_HUMAN	zyg-11 homolog B (C. elegans)-like	264	LRR 2.				ATP hydrolysis coupled proton transport|regulation of ubiquitin-protein ligase activity	Cul2-RING ubiquitin ligase complex|vacuolar proton-transporting V-type ATPase, V1 domain	protein binding|proton-transporting ATPase activity, rotational mechanism|ubiquitin-protein ligase activity			ovary(1)	1						GTCAGCTTGAACTTGTAGTAG	0.567													20	33					0	0	0.015359	0	0		G	131515085	G	G	131515085	3	3	135	1	0	0	0	0	1	0	0	0	17650	43	2	3	1558	3	ZER1	9	131515085	Missense_Mutation	SNP	A	TCGA-CG-4443-01A-01D-1158-08	654132	131515085	9698346	53	74459											
EGFL7	51162	broad.mit.edu	37	chr9	139564459	139564459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcggggtgacacttgccagtCaggtgaggctggctctaccc	6	8	15	12	1	2	2	1	2	1	0	2	2	2	2	2	5	2	2	2	5	1	2			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr9:139564459C>T	uc004cid.2	+	6	1318	c.407C>T	c.(406-408)TCA>TTA	p.S136L	EGFL7_uc004cif.2_Missense_Mutation_p.S136L|EGFL7_uc004cig.2_RNA|EGFL7_uc010nbp.2_Missense_Mutation_p.S136L|EGFL7_uc004cie.2_Missense_Mutation_p.S136L|EGFL7_uc004cih.2_Missense_Mutation_p.S136L|MIR126_hsa-mir-126|MI0000471_5'Flank	NM_201446	NP_958854	Q9UHF1	EGFL7_HUMAN	EGF-like-domain, multiple 7	136					angiogenesis|vasculogenesis		calcium ion binding			ovary(1)	1	all_cancers(76;0.109)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.87e-06)|Epithelial(140;0.000123)		ACTTGCCAGTCAGGTGAGGCT	0.662													9	14					0	0	0.008291	0	0		T	139564459	T	T	139564459	3	4	135	1	0	0	0	0	1	0	0	0	4970	838	29	4	421	4	EGFL7	9	139564459	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	8049374	139564459	1648972	54	74460											
LIPN	643418	broad.mit.edu	37	chr10	90522041	90522041	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacagaattccttatgggCgaacacatgctaggagcaca	14	8	9	10	1	1	1	1	0	0	1	2	3	2	2	1	2	4	2	1	2	5	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr10:90522041C>T	uc010qmw.1	+	2	205	c.205C>T	c.(205-207)CGA>TGA	p.R69*		NM_001102469	NP_001095939	Q5VXI9	LIPN_HUMAN	lipase-like, ab-hydrolase domain containing 4	69					lipid catabolic process	extracellular region	hydrolase activity				0		Colorectal(252;0.0161)		Colorectal(12;4.83e-05)|COAD - Colon adenocarcinoma(12;6.5e-05)		TCCTTATGGGCGAACACATGC	0.443													8	13					0	0	0.004482	0	0		T	90522041	T	T	90522041	4	4	135	1	0	0	0	0	0	1	0	0	8845	760	27	1	211	1	LIPN	10	90522041	Nonsense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08		90522041	45012706	55	74461											
CNNM2	54805	broad.mit.edu	37	chr10	104816657	104816657	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatgatgagaagaacaagaAagcccccgaatactacctct	17	7	7	10	1	1	4	0	2	1	3	1	6	1	4	3	0	4	0	3	0	8	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr10:104816657A>C	uc001kwm.2	+	4	2133	c.2009A>C	c.(2008-2010)AAA>ACA	p.K670T	CNNM2_uc001kwn.2_Missense_Mutation_p.K670T	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	670					ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		AAGAACAAGAAAGCCCCCGAA	0.448													74	210					0	0	0.01441	0	0		C	104816657	C	C	104816657	3	2	135	1	0	0	0	0	1	0	0	0	3616	14	1	5	2065	5	CNNM2	10	104816657	Missense_Mutation	SNP	A	TCGA-CG-4443-01A-01D-1158-08	14294616	104816657	30718090	56	74462											
TCERG1L	256536	broad.mit.edu	37	chr10	132891575	132891575	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctctgcaaactccttaaaCgtggtcctgaaaaagaaaga	15	10	7	9	1	1	3	0	1	1	2	4	3	3	3	2	1	3	1	2	1	6	2			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr10:132891575C>T	uc001lkp.2	-	12	1697	c.1611G>A	c.(1609-1611)ACG>ACA	p.T537T		NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	537	FF 2.									large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		ACTCCTTAAACGTGGTCCTGA	0.488													43	64					0	0	0.01441	0	0		T	132891575	T	T	132891575	2	4	135	1	0	0	0	0	0	0	0	1	15711	523	19	1		1	TCERG1L	10	132891575	Silent	SNP	C	TCGA-CG-4443-01A-01D-1158-08	28074918	132891575	2643172	57	74463											
LRP4	4038	broad.mit.edu	37	chr11	46889557	46889557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacctcctccagagacgtgCgggtccgggtggttgaagaa	8	7	14	12	3	0	3	0	1	0	2	3	4	3	3	5	3	1	1	5	3	2	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr11:46889557C>T	uc001ndn.3	-	34	5206	c.5060G>A	c.(5059-5061)CGC>CAC	p.R1687H	uc001ndl.2_Intron	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1687	Extracellular (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		CAGAGACGTGCGGGTCCGGGT	0.527													4	98					0	0	0.014758	0	0		T	46889557	T	T	46889557	3	4	135	1	0	0	0	0	1	0	0	0	8977	768	27	1	677	1	LRP4	11	46889557	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08		46889557	88116959	58	74464											
OR4C16	219428	broad.mit.edu	37	chr11	55339896	55339896	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagcgagtgcatgatccAagtcttttcatcccatgtct	8	14	7	12	1	4	1	2	1	2	0	6	2	6	1	2	0	2	1	2	0	1	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr11:55339896A>G	uc010rih.1	+	1	293	c.293A>G	c.(292-294)CAA>CGA	p.Q98R		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				TGCATGATCCAAGTCTTTTCA	0.473													111	203					0	0	0.01441	0	0		G	55339896	G	G	55339896	3	3	135	1	0	0	0	0	1	0	0	0	11068	130	5	3	295	3	OR4C16	11	55339896	Missense_Mutation	SNP	A	TCGA-CG-4443-01A-01D-1158-08	8450339	55339896	79666620	59	74465											
SLC43A3	29015	broad.mit.edu	37	chr11	57182110	57182110	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtctttcttgcttccttctgGtacttctgtttaagccggtc	3	19	8	11	1	4	0	0	0	4	0	6	0	5	0	2	2	3	3	2	2	2	8			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr11:57182110G>C	uc001nkg.2	-	11	1448	c.1038C>G	c.(1036-1038)TAC>TAG	p.Y346*	PRG2_uc001nke.2_Nonsense_Mutation_p.Y245*|SLC43A3_uc001nkh.2_Nonsense_Mutation_p.Y346*|SLC43A3_uc010rjr.1_Nonsense_Mutation_p.Y359*|SLC43A3_uc009yme.2_Nonsense_Mutation_p.Y346*|SLC43A3_uc001nki.2_Nonsense_Mutation_p.Y346*|SLC43A3_uc009ymf.1_Nonsense_Mutation_p.Y346*	NM_014096	NP_054815	Q8NBI5	S43A3_HUMAN	solute carrier family 43, member 3	346					transmembrane transport	integral to membrane				central_nervous_system(1)	1						CTTCCTTCTGGTACTTCTGTT	0.552													35	275					0	0	0.021022	0	0		C	57182110	C	C	57182110	4	2	135	1	0	0	0	0	0	1	0	0	14659	1256	44	5	453	5	SLC43A3	11	57182110	Nonsense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	1842214	57182110	77824406	60	74466											
SLC22A9	114571	broad.mit.edu	37	chr11	63137725	63137725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctgacaatgacactggggCcctcagccaagatgcactct	10	8	9	14	0	3	3	1	2	2	1	3	3	3	3	2	2	2	1	2	2	2	0			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr11:63137725C>T	uc001nww.2	+	1	465	c.197C>T	c.(196-198)GCC>GTC	p.A66V	SLC22A9_uc001nwx.2_RNA	NM_080866	NP_543142	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion/cation	66	Extracellular (Potential).				transmembrane transport	integral to membrane				breast(2)|large_intestine(1)	3						GACACTGGGGCCCTCAGCCAA	0.512													85	106					0	0	0.01441	0	0		T	63137725	T	T	63137725	3	4	135	1	0	0	0	0	1	0	0	0	14486	739	26	2	199	2	SLC22A9	11	63137725	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	5955615	63137725	71868791	61	74467											
BATF2	116071	broad.mit.edu	37	chr11	64757201	64757201	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgctcatgcacgtgcagggtCcggctccaccacgccagctc	6	6	11	18	4	1	0	1	0	0	0	4	0	3	0	4	2	3	5	4	2	0	0			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr11:64757201C>T	uc001ocf.1	-	3	356	c.225G>A	c.(223-225)CGG>CGA	p.R75R	BATF2_uc001oce.1_5'UTR	NM_138456	NP_612465	Q8N1L9	BATF2_HUMAN	basic leucine zipper transcription factor,	75						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CGTGCAGGGTCCGGCTCCACC	0.657													12	42					0	0	0.016723	0	0		T	64757201	T	T	64757201	2	4	135	1	0	0	0	0	0	0	0	1	1327	842	30	4		4	BATF2	11	64757201	Silent	SNP	C	TCGA-CG-4443-01A-01D-1158-08	1619476	64757201	70249315	62	74468											
PDE2A	5138	broad.mit.edu	37	chr11	72288594	72288594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcacggttggaggccacgCgctcgtacagctctgccgct	5	8	13	15	5	2	0	1	0	1	0	3	1	2	1	2	3	3	6	2	3	1	2			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr11:72288594C>T	uc010rrc.1	-	31	2903	c.2660G>A	c.(2659-2661)CGC>CAC	p.R887H	PDE2A_uc001oso.2_Missense_Mutation_p.R866H|PDE2A_uc010rra.1_Missense_Mutation_p.R880H|PDE2A_uc001osn.2_Missense_Mutation_p.R631H|PDE2A_uc010rrb.1_Missense_Mutation_p.R878H|PDE2A_uc010rrd.1_Missense_Mutation_p.R772H	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	887	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	GGAGGCCACGCGCTCGTACAG	0.617													4	47					0	0	0.009096	0	0		T	72288594	T	T	72288594	3	4	135	1	0	0	0	0	1	0	0	0	11655	768	27	1	169	1	PDE2A	11	72288594	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	7531393	72288594	62717922	63	74469											
KDM5A	5927	broad.mit.edu	37	chr12	465688	465688	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttccgtgtttctactcaCatctccagattctgactaaa	10	14	5	12	1	4	2	1	1	3	1	6	2	5	2	2	0	1	2	2	0	3	5			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:465688C>G	uc001qif.1	-	6	1051	c.688G>C	c.(688-690)GTG>CTG	p.V230L	KDM5A_uc001qie.1_Missense_Mutation_p.V230L|KDM5A_uc010sdn.1_Missense_Mutation_p.V189L|KDM5A_uc010sdo.1_Intron	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	230					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						TTTCTACTCACATCTCCAGAT	0.373			T 	NUP98	AML								29	56					0	0	0.027356	0	0		G	465688	G	G	465688	3	3	135	1	0	0	0	0	1	0	0	0	8149	478	17	5	4476	5	KDM5A	12	465688	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08		465688	133386207	64	74470											
CACNA1C	775	broad.mit.edu	37	chr12	2760857	2760857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttcttccgcctgttccggGtcatgcgtctggtgaagctg	3	13	12	13	3	3	1	1	1	2	0	5	1	5	1	4	2	2	2	4	2	1	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:2760857G>A	uc009zdu.1	+	34	4454	c.4141G>A	c.(4141-4143)GTC>ATC	p.V1381I	CACNA1C_uc009zdv.1_Missense_Mutation_p.V1330I|CACNA1C_uc001qkb.2_Missense_Mutation_p.V1333I|CACNA1C_uc001qkc.2_Missense_Mutation_p.V1333I|CACNA1C_uc001qke.2_Missense_Mutation_p.V1322I|CACNA1C_uc001qkf.2_Missense_Mutation_p.V1322I|CACNA1C_uc001qjz.2_Missense_Mutation_p.V1333I|CACNA1C_uc001qkd.2_Missense_Mutation_p.V1333I|CACNA1C_uc001qkg.2_Missense_Mutation_p.V1320I|CACNA1C_uc009zdw.1_Missense_Mutation_p.V1355I|CACNA1C_uc001qkh.2_Missense_Mutation_p.V1322I|CACNA1C_uc001qkl.2_Missense_Mutation_p.V1381I|CACNA1C_uc001qkn.2_Missense_Mutation_p.V1333I|CACNA1C_uc001qko.2_Missense_Mutation_p.V1353I|CACNA1C_uc001qkp.2_Missense_Mutation_p.V1333I|CACNA1C_uc001qkr.2_Missense_Mutation_p.V1350I|CACNA1C_uc001qku.2_Missense_Mutation_p.V1333I|CACNA1C_uc001qkq.2_Missense_Mutation_p.V1361I|CACNA1C_uc001qks.2_Missense_Mutation_p.V1333I|CACNA1C_uc001qkt.2_Missense_Mutation_p.V1333I|CACNA1C_uc001qki.1_Missense_Mutation_p.V1069I|CACNA1C_uc001qkj.1_Missense_Mutation_p.V1069I|CACNA1C_uc001qkk.1_Missense_Mutation_p.V1069I|CACNA1C_uc001qkm.1_Missense_Mutation_p.V1058I|CACNA1C_uc010sea.1_Missense_Mutation_p.V24I	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1381	Helical; Name=S4 of repeat IV; (Potential).|IV.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CCTGTTCCGGGTCATGCGTCT	0.617													29	42					0	0	0.013726	0	0		A	2760857	A	A	2760857	3	1	135	1	0	0	0	0	1	0	0	0	2543	1261	44	4	4449	4	CACNA1C	12	2760857	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	2295169	2760857	131091038	65	74471											
VWF	7450	broad.mit.edu	37	chr12	6058252	6058252	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatggtacacaacagagcCattggtgcagtgcagggcca	11	7	12	11	0	1	1	1	0	0	1	1	1	1	1	2	3	5	3	2	3	2	2			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:6058252C>A	uc001qnn.1	-	52	8621	c.8371G>T	c.(8371-8373)GGC>TGC	p.G2791C	ANO2_uc001qnm.2_5'Flank|VWF_uc010set.1_3'UTR	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2791	CTCK.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	ACAACAGAGCCATTGGTGCAG	0.582													14	18					4.3838e-07	5.30134e-07	0.016723	1	0		A	6058252	A	A	6058252	3	1	135	1	0	0	0	0	1	0	0	0	17272	594	21	5	74	5	VWF	12	6058252	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	3297395	6058252	127793643	66	74472											
KIAA1467	57613	broad.mit.edu	37	chr12	13219655	13219655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtacaacatcgttggagttGggaatctgattggtcctcag	10	12	12	7	1	2	1	1	1	1	0	4	3	3	3	1	3	2	3	1	3	3	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:13219655G>A	uc001rbi.2	+	6	957	c.934G>A	c.(934-936)GGG>AGG	p.G312R	KIAA1467_uc009zhx.1_RNA	NM_020853	NP_065904	A2RU67	K1467_HUMAN	hypothetical protein LOC57613	312						integral to membrane				central_nervous_system(2)|skin(1)	3		Prostate(47;0.184)		BRCA - Breast invasive adenocarcinoma(232;0.157)		CGTTGGAGTTGGGAATCTGAT	0.507													49	67					0	0	0.01441	0	0		A	13219655	A	A	13219655	3	1	135	1	0	0	0	0	1	0	0	0	8251	1348	47	4	956	4	KIAA1467	12	13219655	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	7161403	13219655	120632240	67	74473											
SYT10	341359	broad.mit.edu	37	chr12	33579428	33579431	+	Splice_Site	DEL	TATC	-	-																															agctaacaggctgactgaaaTatctggaaaaattacaatgt																										TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:33579428_33579431delTATC	uc001rll.1	-	2	449	c.152_splice	c.e2-1	p.D51_splice	SYT10_uc009zju.1_Splice_Site	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X							cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					CTGACTGAAATATCTGGAAAAATT	0.338													14	17	---	---	---	---						.	-	33579431	-	-	33579428	8	5	135	1	0	1	0	1	0	0	1	0	15491	1406	49	0	1441	0	SYT10	12	33579428	Splice_Site	DEL	TATC	TCGA-CG-4443-01A-01D-1158-08	20359773	33579428	100272467	68	74474											
C12orf40	283461	broad.mit.edu	37	chr12	40041751	40041751	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcacctactcctcagaaacTtgcatatgaaaaaaagcaga	18	7	6	10	0	1	3	1	1	0	2	2	3	2	3	2	0	5	3	2	0	6	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:40041751T>C	uc001rmc.2	+	6	709	c.542T>C	c.(541-543)CTT>CCT	p.L181P	C12orf40_uc009zjv.1_RNA	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	181										ovary(6)	6						CCTCAGAAACTTGCATATGAA	0.303													44	47					0	0	0.01441	0	0		C	40041751	C	C	40041751	3	2	135	1	0	0	0	0	1	0	0	0	1689	1609	56	3	564	3	C12orf40	12	40041751	Missense_Mutation	SNP	T	TCGA-CG-4443-01A-01D-1158-08	6462323	40041751	93810144	69	74475											
MLL2	8085	broad.mit.edu	37	chr12	49438225	49438225	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcgttttttgctttcctCggtctcctctttgccaggct	1	19	8	13	2	2	0	0	0	2	0	5	0	3	0	3	2	3	3	3	2	0	6			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:49438225C>A	uc001rta.3	-	20	5044	c.5044G>T	c.(5044-5046)GAG>TAG	p.E1682*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1682					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TTGCTTTCCTCGGTCTCCTCT	0.582			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)	OREG0021780	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	77					3.11337e-16	3.91683e-16	0.013726	1	0		A	49438225	A	A	49438225	4	1	135	1	0	0	0	0	0	1	0	0	9639	893	31	5	11709	5	MLL2	12	49438225	Nonsense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	9396474	49438225	84413670	70	74476											
KRT82	3888	broad.mit.edu	37	chr12	52788868	52788868	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcaggggacatagagttcaCcagtgcccacgatgctgcag	10	6	13	12	2	1	1	1	0	0	1	1	3	1	2	2	2	3	4	2	2	1	2			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:52788868C>A	uc001sai.1	-	9	1548	c.1433G>T	c.(1432-1434)GGT>GTT	p.G478V		NM_033033	NP_149022	Q9NSB4	KRT82_HUMAN	keratin 82	478	Tail.					keratin filament	protein binding|structural constituent of epidermis			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.193)		ATAGAGTTCACCAGTGCCCAC	0.652													32	12					4.3181e-19	5.56714e-19	0.013726	1	0		A	52788868	A	A	52788868	3	1	135	1	0	0	0	0	1	0	0	0	8512	507	18	5	112	5	KRT82	12	52788868	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	3350643	52788868	81063027	71	74477											
NCKAP1L	3071	broad.mit.edu	37	chr12	54893155	54893155	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagacttgttcagaccccaAatctaagccacctttcttac	11	11	5	14	0	3	2	1	0	2	2	3	2	3	2	4	0	2	2	4	0	3	5			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:54893155A>T	uc001sgc.3	+	2	198	c.119A>T	c.(118-120)AAA>ATA	p.K40I	NCKAP1L_uc010sox.1_5'UTR|NCKAP1L_uc010soy.1_5'UTR	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	40					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						TCAGACCCCAAATCTAAGCCA	0.403													55	18					0	0	0.01441	0	0		T	54893155	T	T	54893155	3	4	135	1	0	0	0	0	1	0	0	0	10241	14	1	5	125	5	NCKAP1L	12	54893155	Missense_Mutation	SNP	A	TCGA-CG-4443-01A-01D-1158-08	2104287	54893155	78958740	72	74478											
SMARCC2	6601	broad.mit.edu	37	chr12	56574790	56574790	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagtgtcacctcttctacaTtggggactggtgagggctcg	7	11	14	9	1	3	1	1	1	2	0	4	3	3	2	1	4	1	1	1	4	2	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:56574790T>C	uc001skb.2	-	11	1158	c.1052A>G	c.(1051-1053)AAT>AGT	p.N351S	SMARCC2_uc001skd.2_Missense_Mutation_p.N351S|SMARCC2_uc001ska.2_Missense_Mutation_p.N351S|SMARCC2_uc001skc.2_Missense_Mutation_p.N351S|SMARCC2_uc010sqf.1_Missense_Mutation_p.N240S	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	351					chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			CTCTTCTACATTGGGGACTGG	0.557													162	39					0	0	0.01441	0	0		C	56574790	C	C	56574790	3	2	135	1	0	0	0	0	1	0	0	0	14801	1493	52	3	2761	3	SMARCC2	12	56574790	Missense_Mutation	SNP	T	TCGA-CG-4443-01A-01D-1158-08	1681635	56574790	77277105	73	74479											
BEST3	144453	broad.mit.edu	37	chr12	70049272	70049272	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaagtgcttgtctggctggtCtccctgatggtggacagctc	6	12	13	10	0	2	1	0	1	2	0	4	2	2	2	1	4	2	3	1	4	1	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:70049272C>G	uc001svg.2	-	10	1649	c.1422G>C	c.(1420-1422)GAG>GAC	p.E474D	BEST3_uc001svd.1_Intron|BEST3_uc001sve.1_Intron|BEST3_uc001svf.2_Missense_Mutation_p.E261D|BEST3_uc010stm.1_Missense_Mutation_p.E368D	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	474	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			TCTGGCTGGTCTCCCTGATGG	0.567													57	18					0	0	0.01441	0	0		G	70049272	G	G	70049272	3	3	135	1	0	0	0	0	1	0	0	0	1407	912	32	5	588	5	BEST3	12	70049272	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	13474482	70049272	63802623	74	74480											
BTBD11	121551	broad.mit.edu	37	chr12	108012102	108012102	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccctgagggaggccatgtAtcacagcgctgagcatggct	8	7	15	11	1	1	2	1	2	0	0	1	3	1	3	2	4	2	4	2	4	1	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:108012102A>T	uc001tmk.1	+	10	2920	c.2399A>T	c.(2398-2400)TAT>TTT	p.Y800F	BTBD11_uc009zut.1_Intron|BTBD11_uc001tmj.2_Missense_Mutation_p.Y800F|BTBD11_uc001tml.1_Missense_Mutation_p.Y337F	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	800						integral to membrane	DNA binding			skin(2)|ovary(1)	3						GAGGCCATGTATCACAGCGCT	0.627													25	10					0	0	0.00632	0	0		T	108012102	T	T	108012102	3	4	135	1	0	0	0	0	1	0	0	0	1542	449	16	5	2542	5	BTBD11	12	108012102	Missense_Mutation	SNP	A	TCGA-CG-4443-01A-01D-1158-08	37962830	108012102	25839793	75	74481											
WDR66	144406	broad.mit.edu	37	chr12	122441652	122441652	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaccatttcagaagattcCggccaggatggtcagtgaag	12	10	11	8	1	2	3	2	1	0	2	3	4	3	4	3	3	1	0	3	3	3	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr12:122441652C>T	uc009zxk.2	+	22	3574	c.3432C>T	c.(3430-3432)TCC>TCT	p.S1144S		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	1144							calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		CAGAAGATTCCGGCCAGGATG	0.438													25	10					0	0	0.021523	0	0		T	122441652	T	T	122441652	2	4	135	1	0	0	0	0	0	0	0	1	17343	639	23	1		1	WDR66	12	122441652	Silent	SNP	C	TCGA-CG-4443-01A-01D-1158-08	14429550	122441652	11410243	76	74482											
SETDB2	83852	broad.mit.edu	37	chr13	50057068	50057068	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactgagaaatgtccaccaaAgttcagtaataatcccaagg	17	8	7	9	0	1	1	1	1	0	1	3	2	3	1	3	1	1	2	3	1	6	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr13:50057068A>G	uc001vcz.2	+	10	2294	c.1388A>G	c.(1387-1389)AAG>AGG	p.K463R	SETDB2_uc001vcy.3_Missense_Mutation_p.K451R|SETDB2_uc010adh.2_Missense_Mutation_p.K451R|SETDB2_uc001vda.2_Missense_Mutation_p.K451R	NM_031915	NP_114121	Q96T68	SETB2_HUMAN	SET domain, bifurcated 2 isoform a	463	SET.				cell division|chromosome segregation|heart looping|left/right axis specification|mitosis|negative regulation of transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone methyltransferase activity (H3-K9 specific)|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;0.000408)|Breast(56;0.00131)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.1e-09)		TGTCCACCAAAGTTCAGTAAT	0.358													27	77					0	0	0.027356	0	0		G	50057068	G	G	50057068	3	3	135	1	0	0	0	0	1	0	0	0	14164	72	3	3	1422	3	SETDB2	13	50057068	Missense_Mutation	SNP	A	TCGA-CG-4443-01A-01D-1158-08		50057068	65112810	77	74483											
C13orf34	79866	broad.mit.edu	37	chr13	73320199	73320199	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caattgaatttcagataggaGagactccactctcaggtatg	13	11	9	8	0	2	3	2	1	1	2	4	5	3	4	1	2	0	1	1	2	4	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr13:73320199G>C	uc001viv.1	+	9	975	c.856G>C	c.(856-858)GAG>CAG	p.E286Q	C13orf34_uc010thq.1_Missense_Mutation_p.E61Q|C13orf34_uc010aen.1_Missense_Mutation_p.E361Q|C13orf34_uc010thr.1_Missense_Mutation_p.E216Q|C13orf34_uc001viw.1_Missense_Mutation_p.E235Q	NM_024808	NP_079084	Q6PGQ7	BORA_HUMAN	aurora borealis	286					cell division|mitosis|regulation of mitosis|regulation of mitotic spindle organization|regulation of protein localization		protein kinase binding				0		Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.000227)		TCAGATAGGAGAGACTCCACT	0.343													64	313					0	0	0.01441	0	0		C	73320199	C	C	73320199	3	2	135	1	0	0	0	0	1	0	0	0	1731	943	33	5	886	5	C13orf34	13	73320199	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	23263131	73320199	41849679	78	74484											
COL4A1	1282	broad.mit.edu	37	chr13	110830564	110830564	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggaaacccttctctccttTtattccaggagggcctgcag	7	11	11	12	0	1	0	0	0	1	0	4	2	3	2	4	4	2	1	4	4	2	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr13:110830564T>C	uc001vqw.3	-	32	2595	c.2473A>G	c.(2473-2475)AAA>GAA	p.K825E	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	825	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			TTCTCTCCTTTTATTCCAGGA	0.483													145	88					0	0	0.01441	0	0		C	110830564	C	C	110830564	3	2	135	1	0	0	0	0	1	0	0	0	3692	1850	64	3	2620	3	COL4A1	13	110830564	Missense_Mutation	SNP	T	TCGA-CG-4443-01A-01D-1158-08	37510365	110830564	4339314	79	74485											
MYH6	4624	broad.mit.edu	37	chr14	23872600	23872600	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagaatctggtagaagatGtggtagtttctctcagcttt	10	14	11	6	0	3	3	1	0	2	3	4	4	3	3	0	2	1	4	0	2	4	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr14:23872600G>A	uc001wjv.2	-	10	922	c.855C>T	c.(853-855)CAC>CAT	p.H285H	MYH6_uc010akp.1_Silent_p.H285H	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	285	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GGTAGAAGATGTGGTAGTTTC	0.577													142	182					0	0	0.01441	0	0		A	23872600	A	A	23872600	2	1	135	1	0	0	0	0	0	0	0	1	10056	1368	48	4		4	MYH6	14	23872600	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08		23872600	83476940	80	74486											
TXNDC16	57544	broad.mit.edu	37	chr14	52949605	52949605	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattaaatgtttcttctgttAgttccactgtaagttccaaa	11	17	5	8	0	2	0	0	0	2	0	4	0	4	0	2	0	0	5	2	0	5	7			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr14:52949605A>G	uc001wzs.2	-	13	1636	c.1187T>C	c.(1186-1188)CTA>CCA	p.L396P	TXNDC16_uc010tqu.1_Missense_Mutation_p.L391P|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	396	Thioredoxin.				cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					TTCTTCTGTTAGTTCCACTGT	0.363													28	46					0	0	0.007291	0	0		G	52949605	G	G	52949605	3	3	135	1	0	0	0	0	1	0	0	0	16821	420	15	3	1326	3	TXNDC16	14	52949605	Missense_Mutation	SNP	A	TCGA-CG-4443-01A-01D-1158-08	29077005	52949605	54399935	81	74487											
DAAM1	23002	broad.mit.edu	37	chr14	59797928	59797928	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctatttttatcttttcagaGggccgtctgtgcttcaatcc	6	17	7	11	1	4	1	2	0	2	1	5	1	5	1	3	1	1	1	3	1	3	7			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr14:59797928G>C	uc001xdz.1	+	14	1687	c.1562G>C	c.(1561-1563)AGG>ACG	p.R521T	DAAM1_uc001xea.1_Missense_Mutation_p.R521T	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of	521	Potential.				actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		TCTTTTCAGAGGGCCGTCTGT	0.463													46	71					0	0	0.01441	0	0		C	59797928	C	C	59797928	3	2	135	1	0	0	0	0	1	0	0	0	4218	1014	35	5	1612	5	DAAM1	14	59797928	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	6848323	59797928	47551612	82	74488											
RTN1	6252	broad.mit.edu	37	chr14	60072170	60072170	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtagaactgcaggcagtcCgtgtacttctgaatctgctc	9	11	10	11	2	2	2	0	1	2	1	4	2	3	2	1	1	4	5	1	1	4	3	rs148862799	by1000genomes	TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr14:60072170C>G	uc001xen.1	-	5	2237	c.2028G>C	c.(2026-2028)ACG>ACC	p.T676T	RTN1_uc001xem.1_Silent_p.T256T|RTN1_uc001xek.1_Silent_p.T108T|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Silent_p.T93T	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	676	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		GCAGGCAGTCCGTGTACTTCT	0.478													30	58					0	0	0.009535	0	0		G	60072170	G	G	60072170	2	3	135	1	0	0	0	0	0	0	0	1	13750	639	23	5		5	RTN1	14	60072170	Silent	SNP	C	TCGA-CG-4443-01A-01D-1158-08	274242	60072170	47277370	83	74489											
C14orf102	55051	broad.mit.edu	37	chr14	90770533	90770533	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcactggtataaaggagaTgggctcagatgagggaggtt	11	10	15	5	0	2	3	2	1	0	2	2	5	2	4	0	5	0	3	0	5	3	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr14:90770533T>C	uc001xyi.1	-	5	782	c.751A>G	c.(751-753)ATC>GTC	p.I251V	C14orf102_uc010atp.1_5'UTR|C14orf102_uc001xyj.1_Missense_Mutation_p.I20V	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	251	Potential.						protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		ATAAAGGAGATGGGCTCAGAT	0.448													5	244					0	0	0.021553	0	0		C	90770533	C	C	90770533	3	2	135	1	0	0	0	0	1	0	0	0	1738	1464	51	3	2783	3	C14orf102	14	90770533	Missense_Mutation	SNP	T	TCGA-CG-4443-01A-01D-1158-08	30698363	90770533	16579007	84	74490											
RYR3	6263	broad.mit.edu	37	chr15	33999125	33999125	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tactgtttctggcaggtggtGacctacttggcaggctgtgg	5	13	15	8	0	1	1	0	1	1	0	1	1	1	1	1	6	2	4	1	6	2	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr15:33999125G>A	uc001zhi.2	+	43	6559	c.6489G>A	c.(6487-6489)GTG>GTA	p.V2163V	RYR3_uc010bar.2_Silent_p.V2163V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2163	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGCAGGTGGTGACCTACTTGG	0.363													12	6					0	0	0.013537	0	0		A	33999125	A	A	33999125	2	1	135	1	0	0	0	0	0	0	0	1	13795	1277	45	4		4	RYR3	15	33999125	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08		33999125	68532267	85	74491											
TGM7	116179	broad.mit.edu	37	chr15	43577113	43577113	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgcgcggaacggaaattGgaaacaacacgggttggaac	13	7	14	7	4	0	0	0	0	0	0	0	4	0	4	0	5	5	1	0	5	5	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr15:43577113G>C	uc001zrf.1	-	7	908	c.903C>G	c.(901-903)TCC>TCG	p.S301S		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	301					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	AACGGAAATTGGAAACAACAC	0.418													51	82					0	0	0.01441	0	0		C	43577113	C	C	43577113	2	2	135	1	0	0	0	0	0	0	0	1	15860	1335	47	5		5	TGM7	15	43577113	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08	9577988	43577113	58954279	86	74492											
PDXDC1	23042	broad.mit.edu	37	chr16	15100425	15100425	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctagacctggcctgggccaAtacctttgtaatcaggtaat	10	11	10	10	0	1	1	1	0	0	1	1	1	1	1	4	3	1	3	4	3	5	5			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr16:15100425A>G	uc002dda.3	+	6	788	c.564A>G	c.(562-564)CAA>CAG	p.Q188Q	PDXDC1_uc010uzl.1_Silent_p.Q173Q|PDXDC1_uc010uzm.1_Silent_p.Q97Q|PDXDC1_uc010bvc.1_Silent_p.Q129Q|PDXDC1_uc002dcz.2_Silent_p.Q188Q|PDXDC1_uc002ddb.3_Silent_p.Q161Q|PDXDC1_uc010uzn.1_Silent_p.Q160Q|PDXDC1_uc002ddc.2_Silent_p.Q188Q	NM_015027	NP_055842	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain	188					carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GCCTGGGCCAATACCTTTGTA	0.378													29	103					0	0	0.007291	0	0		G	15100425	G	G	15100425	2	3	135	1	0	0	0	0	0	0	0	1	11715	98	4	3		3	PDXDC1	16	15100425	Silent	SNP	A	TCGA-CG-4443-01A-01D-1158-08		15100425	75254328	87	74493											
DNAH3	55567	broad.mit.edu	37	chr16	20976517	20976517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagccaccaccttggccaCgcgatcgtacacctccatgg	8	6	11	16	3	0	0	0	0	0	0	2	2	1	1	6	3	2	1	6	3	1	2			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr16:20976517C>T	uc010vbe.1	-	53	8689	c.8689G>A	c.(8689-8691)GTG>ATG	p.V2897M	DNAH3_uc010vbd.1_Missense_Mutation_p.V332M	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2897	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ACCTTGGCCACGCGATCGTAC	0.567													73	120					0	0	0.01441	0	0		T	20976517	T	T	20976517	3	4	135	1	0	0	0	0	1	0	0	0	4609	536	19	1	3700	1	DNAH3	16	20976517	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	5876092	20976517	69378236	88	74494											
KIFC3	3801	broad.mit.edu	37	chr16	57795042	57795042	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctgtgctcgttcaggttGgtgaactcggtcgtgcgatt	5	13	15	8	4	1	1	1	1	0	0	4	3	1	1	0	3	4	4	0	3	1	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr16:57795042G>C	uc002emp.2	-	15	2111	c.1914C>G	c.(1912-1914)ACC>ACG	p.T638T	KIFC3_uc010vhw.1_Silent_p.T536T|KIFC3_uc002emn.2_RNA|KIFC3_uc002emm.2_Silent_p.T499T|KIFC3_uc010vhx.1_Silent_p.T496T|KIFC3_uc010cdf.2_Silent_p.T499T|KIFC3_uc002emo.3_Silent_p.T499T|KIFC3_uc010vhy.1_Silent_p.T580T|KIFC3_uc002emq.2_Silent_p.T638T|KIFC3_uc010vhz.1_Silent_p.T660T	NM_005550	NP_005541	Q9BVG8	KIFC3_HUMAN	kinesin family member C3 isoform 1	638	Kinesin-motor.				epithelial cell-cell adhesion|microtubule-based movement|visual perception|zonula adherens maintenance	centrosome|cytoplasmic vesicle membrane|kinesin complex|microtubule|zonula adherens	ATP binding|microtubule motor activity			central_nervous_system(2)|ovary(1)	3		all_neural(199;0.224)				CGTTCAGGTTGGTGAACTCGG	0.627													24	55					0	0	0.021523	0	0		C	57795042	C	C	57795042	2	2	135	1	0	0	0	0	0	0	0	1	8330	1335	47	5		5	KIFC3	16	57795042	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08	36818525	57795042	32559711	89	74495											
ZNRF1	84937	broad.mit.edu	37	chr16	75033951	75033951	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagcctcgctggcggatgctCtacctctgcacatcgcaccc	6	8	10	17	3	2	0	0	0	2	0	4	2	2	1	3	2	4	4	3	2	1	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr16:75033951C>G	uc002fdk.2	+	1	1037	c.382C>G	c.(382-384)CTA>GTA	p.L128V	ZNRF1_uc010vmz.1_Missense_Mutation_p.L128V|ZNRF1_uc002fdl.1_Missense_Mutation_p.L128V|ZNRF1_uc010cgr.1_Missense_Mutation_p.L128V	NM_032268	NP_115644	Q8ND25	ZNRF1_HUMAN	zinc and ring finger protein 1	128						cell junction|endosome|lysosome|synaptic vesicle membrane	ligase activity|protein binding|zinc ion binding				0						GGCGGATGCTCTACCTCTGCA	0.672													7	8					0	0	0.006214	0	0		G	75033951	G	G	75033951	3	3	135	1	0	0	0	0	1	0	0	0	18236	912	32	5	384	5	ZNRF1	16	75033951	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	17238909	75033951	15320802	90	74496											
TMEM102	284114	broad.mit.edu	37	chr17	7340375	7340375	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcggcaccgagcggccgtgCgcctccgcctggcagctctg	3	5	16	17	6	1	0	0	0	1	0	2	1	2	0	5	4	3	3	5	4	0	0			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr17:7340375C>T	uc002ggx.1	+	3	1350	c.1077C>T	c.(1075-1077)TGC>TGT	p.C359C	FGF11_uc010vtw.1_Intron|TMEM102_uc002ggy.1_Silent_p.C359C|FGF11_uc010cmh.1_5'Flank|FGF11_uc010cmi.2_5'Flank|FGF11_uc002ggz.2_5'Flank	NM_178518	NP_848613	Q8N9M5	TM102_HUMAN	transmembrane protein 102	359	Cytoplasmic (Potential).				regulation of apoptosis|response to cytokine stimulus|signal transduction	cell surface|integral to membrane|intracellular	protein binding				0		Prostate(122;0.173)				AGCGGCCGTGCGCCTCCGCCT	0.741													6	3					0	0	0.021553	0	0		T	7340375	T	T	7340375	2	4	135	1	0	0	0	0	0	0	0	1	16042	776	27	1		1	TMEM102	17	7340375	Silent	SNP	C	TCGA-CG-4443-01A-01D-1158-08		7340375	73854835	91	74497											
SLC47A2	146802	broad.mit.edu	37	chr17	19611062	19611062	+	Frame_Shift_Del	DEL	C	-	-																															caggccaggcctcccacctgCccacgtctccaggtgcagct																										TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr17:19611062delC	uc002gwe.3	-	8	1007	c.832delG	c.(832-834)GCAfs	p.A278fs	SLC47A2_uc002gwg.3_Frame_Shift_Del_p.A242fs|SLC47A2_uc002gwf.3_Frame_Shift_Del_p.A242fs|SLC47A2_uc002gwh.3_RNA|SLC47A2_uc002gwi.2_RNA|SLC47A2_uc010cqs.1_RNA|SLC47A2_uc010cqt.1_RNA	NM_152908	NP_690872	Q86VL8	S47A2_HUMAN	solute carrier family 47, member 2 isoform 1	278	Cytoplasmic (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.3e-05)|all_epithelial(12;0.0024)|Breast(13;0.245)					CTCCCACCTGCCCACGTCTCC	0.627													5	6	---	---	---	---						.	-	19611062	-	-	19611062	7	5	135	1	0	1	0	1	0	0	0	0	14673	739	26	0	1016	0	SLC47A2	17	19611062	Frame_Shift_Del	DEL	C	TCGA-CG-4443-01A-01D-1158-08	12270687	19611062	61584148	92	74498											
LYZL6	57151	broad.mit.edu	37	chr17	34261839	34261839	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcagccagtagaagagtggCcggcctgaacagtgcaacct	11	6	13	11	1	1	3	1	1	0	2	1	3	1	3	4	2	4	2	4	2	4	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr17:34261839C>T	uc002hkj.1	-	4	558	c.408G>A	c.(406-408)CGG>CGA	p.R136R	LYZL6_uc002hkk.1_Silent_p.R136R	NM_020426	NP_065159	O75951	LYZL6_HUMAN	lysozyme-like 6 precursor	136					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		AGAAGAGTGGCCGGCCTGAAC	0.532													32	44					0	0	0.023175	0	0		T	34261839	T	T	34261839	2	4	135	1	0	0	0	0	0	0	0	1	9152	726	26	2		2	LYZL6	17	34261839	Silent	SNP	C	TCGA-CG-4443-01A-01D-1158-08	14650777	34261839	46933371	93	74499											
TOP2A	7153	broad.mit.edu	37	chr17	38546403	38546403	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttttggcaccggtagtggaGgtggaagactgacctgcaat	9	11	14	7	1	0	2	0	1	0	1	0	4	0	4	2	5	1	3	2	5	3	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr17:38546403G>C	uc002huq.2	-	34	4407	c.4281C>G	c.(4279-4281)ACC>ACG	p.T1427T		NM_001067	NP_001058	P11388	TOP2A_HUMAN	DNA topoisomerase II, alpha isozyme	1427					apoptotic chromosome condensation|DNA ligation|DNA repair|DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|phosphatidylinositol-mediated signaling|positive regulation of apoptosis|positive regulation of retroviral genome replication|resolution of meiotic recombination intermediates|sister chromatid segregation	cytoplasm|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|drug binding|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity|ubiquitin binding			ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00183)		Amsacrine(DB00276)|Ciprofloxacin(DB00537)|Dexrazoxane(DB00380)|Doxorubicin(DB00997)|Enoxacin(DB00467)|Epirubicin(DB00445)|Etoposide(DB00773)|Fleroxacin(DB04576)|Gatifloxacin(DB01044)|Idarubicin(DB01177)|Levofloxacin(DB01137)|Lomefloxacin(DB00978)|Lucanthone(DB04967)|Mitoxantrone(DB01204)|Moxifloxacin(DB00218)|Norfloxacin(DB01059)|Ofloxacin(DB01165)|Pefloxacin(DB00487)|Podofilox(DB01179)|Sparfloxacin(DB01208)|Teniposide(DB00444)|Trovafloxacin(DB00685)|Valrubicin(DB00385)	CGGTAGTGGAGGTGGAAGACT	0.353													24	19					0	0	0.027356	0	0		C	38546403	C	C	38546403	2	2	135	1	0	0	0	0	0	0	0	1	16391	987	35	5		5	TOP2A	17	38546403	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08	4284564	38546403	42648807	94	74500											
BRCA1	672	broad.mit.edu	37	chr17	41219625	41219625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaaggttcttggtatacCtgttttcataacaacatgag	12	15	8	6	0	2	1	1	1	1	0	2	1	2	1	1	2	3	4	1	2	6	8	rs80187739		TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr17:41219625C>T	uc002icq.2	-	16	5306	c.5074G>A	c.(5074-5076)GAT>AAT	p.D1692N	BRCA1_uc010whp.1_Missense_Mutation_p.D541N|BRCA1_uc010whl.1_Missense_Mutation_p.D588N|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.D1621N|BRCA1_uc002icu.2_Missense_Mutation_p.D588N|BRCA1_uc010cyx.2_Missense_Mutation_p.D1645N|BRCA1_uc002ict.2_Missense_Mutation_p.D1713N|BRCA1_uc010whn.1_Missense_Mutation_p.D183N|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Missense_Mutation_p.D421N|BRCA1_uc002idc.1_Missense_Mutation_p.D588N|BRCA1_uc010whr.1_Missense_Mutation_p.D542N	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	1692	BRCT 1.		D -> N (in ovarian cancer; could be a polymorphism).		androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		CTTGGTATACCTGTTTTCATA	0.274			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			33	58					0	0	0.015359	0	0		T	41219625	T	T	41219625	3	4	135	1	0	0	0	0	1	0	0	0	1501	695	24	4	549	4	BRCA1	17	41219625	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	2673222	41219625	39975585	95	74501											
ZNF571	51276	broad.mit.edu	37	chr19	38056612	38056612	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtatgaactctctgatgttCagtgagctgtgaaccacgaa	11	12	10	8	1	2	4	1	4	1	0	3	5	2	4	1	0	3	3	1	0	4	2			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr19:38056612C>G	uc002ogt.2	-	4	819	c.718G>C	c.(718-720)GAA>CAA	p.E240Q	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Missense_Mutation_p.E240Q	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	240	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTCTGATGTTCAGTGAGCTGT	0.348													30	38					0	0	0.010818	0	0		G	38056612	G	G	38056612	3	3	135	1	0	0	0	0	1	0	0	0	18028	835	29	5	1115	5	ZNF571	19	38056612	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08		38056612	21072371	96	74502											
TGM6	343641	broad.mit.edu	37	chr20	2413184	2413184	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcctcagtccagtttgacatCaccccctccaaaagtggccc	9	8	7	17	0	2	1	2	1	0	0	4	1	4	1	6	1	0	1	6	1	2	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr20:2413184C>T	uc002wfy.1	+	13	2077	c.2016C>T	c.(2014-2016)ATC>ATT	p.I672I	TGM6_uc010gal.1_3'UTR	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	672					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	AGTTTGACATCACCCCCTCCA	0.592													60	77					0	0	0.01441	0	0		T	2413184	T	T	2413184	2	4	135	1	0	0	0	0	0	0	0	1	15859	816	29	4		4	TGM6	20	2413184	Silent	SNP	C	TCGA-CG-4443-01A-01D-1158-08		2413184	60612336	97	74503											
DEFB121	245934	broad.mit.edu	37	chr20	29992750	29992750	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgattccaggcttgtatttGtgtctgttaattttggtttt	5	23	9	4	0	1	1	0	1	1	0	2	1	2	1	1	2	0	4	1	2	2	10			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr20:29992750G>T	uc002wvv.1	-	2	233	c.197C>A	c.(196-198)ACA>AAA	p.T66K		NM_001011878	NP_001011878	Q5J5C9	DB121_HUMAN	defensin, beta 121 precursor	66					defense response to bacterium	extracellular region					0	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			GCTTGTATTTGTGTCTGTTAA	0.388													8	206					2.17888e-05	2.59469e-05	0.006214	1	0		T	29992750	T	T	29992750	3	4	135	1	0	0	0	0	1	0	0	0	4413	1377	48	5	37	5	DEFB121	20	29992750	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	27579566	29992750	33032770	98	74504											
SAMHD1	25939	broad.mit.edu	37	chr20	35559253	35559253	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttcacccagtgcgtgaaCtagacatcctgctagatacc	10	12	7	12	1	1	3	1	1	0	2	2	3	2	3	3	0	4	1	3	0	4	5			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr20:35559253C>A	uc002xgh.1	-	5	665	c.535G>T	c.(535-537)GTT>TTT	p.V179F		NM_015474	NP_056289	Q9Y3Z3	SAMH1_HUMAN	SAM domain- and HD domain-containing protein 1	179	HD.				defense response to virus|innate immune response|regulation of innate immune response	nucleus	metal ion binding|phosphoric diester hydrolase activity				0		Myeloproliferative disorder(115;0.00878)				AGTGCGTGAACTAGACATCCT	0.448													60	68					9.16383e-17	1.16224e-16	0.01441	1	0		A	35559253	A	A	35559253	3	1	135	1	0	0	0	0	1	0	0	0	13853	565	20	5	1393	5	SAMHD1	20	35559253	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	5566503	35559253	27466267	99	74505											
TP53TG5	27296	broad.mit.edu	37	chr20	44005922	44005922	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttttggccagcttatgcaGttcttggatccggcggtttg	4	15	12	10	2	1	0	0	0	1	0	2	1	2	1	3	4	2	4	3	4	1	6			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr20:44005922G>T	uc002xny.2	-	3	265	c.184C>A	c.(184-186)CTG>ATG	p.L62M	SYS1-DBNDD2_uc002xnx.2_Intron	NM_014477	NP_055292	Q9Y2B4	T53G5_HUMAN	TP53-target gene 5 protein	62					intracellular signal transduction|negative regulation of cell growth	cytoplasm|nucleus				central_nervous_system(1)	1						AGCTTATGCAGTTCTTGGATC	0.502													84	693					9.54843e-35	1.25173e-34	0.01441	1	0		T	44005922	T	T	44005922	3	4	135	1	0	0	0	0	1	0	0	0	16417	1020	36	5	700	5	TP53TG5	20	44005922	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	8446669	44005922	19019598	100	74506											
ZNFX1	57169	broad.mit.edu	37	chr20	47864683	47864683	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccatacctcaggtttttgcgGatgggcacctggcagatagg	8	10	13	10	1	1	1	1	0	0	1	1	2	1	2	3	5	2	3	3	5	2	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr20:47864683G>A	uc002xui.2	-	14	5125	c.4878C>T	c.(4876-4878)ATC>ATT	p.I1626I		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	1626							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GGTTTTTGCGGATGGGCACCT	0.473													209	64					0	0	0.01441	0	0		A	47864683	A	A	47864683	2	1	135	1	0	0	0	0	0	0	0	1	18230	1164	41	4		4	ZNFX1	20	47864683	Silent	SNP	G	TCGA-CG-4443-01A-01D-1158-08	3858761	47864683	15160837	101	74507											
ATP9A	10079	broad.mit.edu	37	chr20	50307283	50307283	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaagctcacttactcgggTaaaagttcccacgaagttgt	12	10	10	9	2	1	0	1	0	0	0	3	2	2	1	1	2	2	4	1	2	5	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr20:50307283T>A	uc002xwg.1	-	8	718	c.718A>T	c.(718-720)ACC>TCC	p.T240S	ATP9A_uc010gih.1_Intron|ATP9A_uc002xwf.1_5'UTR	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	240	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						CTTACTCGGGTAAAAGTTCCC	0.463													62	423					0	0	0.01441	0	0		A	50307283	A	A	50307283	3	1	135	1	0	0	0	0	1	0	0	0	1199	1638	57	5	2509	5	ATP9A	20	50307283	Missense_Mutation	SNP	T	TCGA-CG-4443-01A-01D-1158-08	2442600	50307283	12718237	102	74508											
ZFP64	55734	broad.mit.edu	37	chr20	50769930	50769930	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtccgagctgattttgaaCttggcgctacagagccagca	11	9	11	10	2	0	3	0	2	0	1	1	4	1	3	2	1	5	3	2	1	3	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr20:50769930C>G	uc002xwl.2	-	6	1150	c.801G>C	c.(799-801)AAG>AAC	p.K267N	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.K265N|ZFP64_uc002xwn.2_Missense_Mutation_p.K213N	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	267	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						TGATTTTGAACTTGGCGCTAC	0.567													22	155					0	0	0.016522	0	0		G	50769930	G	G	50769930	3	3	135	1	0	0	0	0	1	0	0	0	17677	564	20	5	2439	5	ZFP64	20	50769930	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	462647	50769930	12255590	103	74509											
ZNF831	128611	broad.mit.edu	37	chr20	57767635	57767635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggacgtggctggagcccaggGagccccgggacccctggtcc	5	4	17	15	2	0	0	0	0	0	0	1	4	1	4	6	6	2	1	6	6	0	0			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr20:57767635G>A	uc002yan.2	+	1	1561	c.1561G>A	c.(1561-1563)GAG>AAG	p.E521K		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	521						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGAGCCCAGGGAGCCCCGGGA	0.701													9	50					0	0	0.006214	0	0		A	57767635	A	A	57767635	3	1	135	1	0	0	0	0	1	0	0	0	18210	1175	41	4	1563	4	ZNF831	20	57767635	Missense_Mutation	SNP	G	TCGA-CG-4443-01A-01D-1158-08	6997705	57767635	5257885	104	74510											
PTK6	5753	broad.mit.edu	37	chr20	62165631	62165631	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccggcccccggcacgccgCcagatcttgtagtgccgcac	6	5	12	18	5	1	1	0	0	1	1	1	1	1	1	6	2	2	3	6	2	1	2			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr20:62165631C>G	uc002yfg.2	-	3	430	c.390G>C	c.(388-390)TGG>TGC	p.W130C	PTK6_uc011aay.1_Missense_Mutation_p.W29C|PTK6_uc011aaz.1_5'Flank|PTK6_uc011aba.1_3'UTR	NM_005975	NP_005966	Q13882	PTK6_HUMAN	PTK6 protein tyrosine kinase 6	130	SH2.					cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|kidney(1)	2	all_cancers(38;2.51e-11)		Epithelial(9;1.5e-08)|all cancers(9;8.67e-08)|BRCA - Breast invasive adenocarcinoma(10;6.43e-06)			CGGCACGCCGCCAGATCTTGT	0.697													4	49					0	0	0.004482	0	0		G	62165631	G	G	62165631	3	3	135	1	0	0	0	0	1	0	0	0	12787	740	26	5	989	5	PTK6	20	62165631	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	4397996	62165631	859889	105	74511											
KRTAP19-4	337971	broad.mit.edu	37	chr21	31869360	31869360	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatccacagccatagccAtagcctaggccaccaaagcc	13	4	6	18	0	0	0	0	0	0	0	1	0	1	0	8	1	4	0	8	1	4	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr21:31869360A>G	uc011acz.1	-	1	69	c.69T>C	c.(67-69)TAT>TAC	p.Y23Y		NM_181610	NP_853641	Q3LI73	KR194_HUMAN	keratin associated protein 19-4	23						intermediate filament				ovary(2)	2						AGCCATAGCCATAGCCTAGGC	0.562													48	64					0	0	0.01441	0	0		G	31869360	G	G	31869360	2	3	135	1	0	0	0	0	0	0	0	1	8547	224	8	3		3	KRTAP19-4	21	31869360	Silent	SNP	A	TCGA-CG-4443-01A-01D-1158-08		31869360	16260535	106	74512											
SCUBE1	80274	broad.mit.edu	37	chr22	43625083	43625084	+	Missense_Mutation	DNP	CA	AG	AG																															gggcaggctgcagacctccgCagtgggttgtcccgtagagg																										TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr22:43625083_43625084CA>AG	uc003bdt.1	-	9	1166_1167	c.1078_1079TG>CT	c.(1078-1080)TGC>CTC	p.C360L		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	360	EGF-like 8; calcium-binding (Potential).				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				CAGACCTCCGCAGTGGGTTGTC	0.688											OREG0026614	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	14					0	0	0.004672	0	0		AG	43625084	AG	AG	43625083	3	1	135	1	0	0	0	0	1	0	0	0	13969	710	25	5	1943	5	SCUBE1	22	43625083	Missense_Mutation	DNP	CA	TCGA-CG-4443-01A-01D-1158-08		43625083	7679483	107	74513											
CERK	64781	broad.mit.edu	37	chr22	47116006	47116006	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctccagcatctcccgcAgggtctgcagccacaagtga	8	8	10	15	1	3	1	0	1	3	0	5	1	3	1	3	1	3	4	3	1	1	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chr22:47116006A>T	uc003bia.2	-	3	463	c.356T>A	c.(355-357)CTG>CAG	p.L119Q		NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	119	Required for binding to sulfatide and phosphoinositides.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CATCTCCCGCAGGGTCTGCAG	0.572													14	58					0	0	0.014323	0	0		T	47116006	T	T	47116006	3	4	135	1	0	0	0	0	1	0	0	0	3270	188	7	5	1301	5	CERK	22	47116006	Missense_Mutation	SNP	A	TCGA-CG-4443-01A-01D-1158-08	3490923	47116006	4188560	108	74514											
KDM5C	8242	broad.mit.edu	37	chrX	53222343	53222343	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccagtctcctcctccagctCttcctcctcctggacctcct	3	12	4	22	0	2	0	0	0	2	0	9	1	8	1	9	1	1	1	9	1	0	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chrX:53222343C>G	uc004drz.2	-	26	5022	c.4489G>C	c.(4489-4491)GAG>CAG	p.E1497Q	KDM5C_uc011moc.1_Intron|KDM5C_uc011mod.1_Intron|KDM5C_uc004dsa.2_Missense_Mutation_p.E1496Q|uc004dsb.1_Intron	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	1497					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						TCCTCCAGCTCTTCCTCCTCC	0.672			N|F|S		clear cell renal carcinoma								23	4					0	0	0.016522	0	0		G	53222343	G	G	53222343	3	3	135	1	0	0	0	0	1	0	0	0	8151	922	32	5	295	5	KDM5C	23	53222343	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08		53222343	102048217	109	74515											
BRWD3	254065	broad.mit.edu	37	chrX	79939565	79939565	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttgaatatttggcgaacatCcttataaaattccagaggac	14	12	8	7	1	0	2	0	1	0	1	2	4	2	3	2	2	1	1	2	2	6	6			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chrX:79939565C>A	uc004edt.2	-	37	4440	c.4177G>T	c.(4177-4179)GAT>TAT	p.D1393Y	BRWD3_uc010nmi.1_Intron|BRWD3_uc004edo.2_Missense_Mutation_p.D989Y|BRWD3_uc004edp.2_Missense_Mutation_p.D1222Y|BRWD3_uc004edq.2_Missense_Mutation_p.D989Y|BRWD3_uc010nmj.1_Missense_Mutation_p.D989Y|BRWD3_uc004edr.2_Missense_Mutation_p.D1063Y|BRWD3_uc004eds.2_Missense_Mutation_p.D989Y|BRWD3_uc004edu.2_Missense_Mutation_p.D1063Y|BRWD3_uc004edv.2_Missense_Mutation_p.D989Y|BRWD3_uc004edw.2_Missense_Mutation_p.D989Y|BRWD3_uc004edx.2_Missense_Mutation_p.D989Y|BRWD3_uc004edy.2_Missense_Mutation_p.D989Y|BRWD3_uc004edz.2_Missense_Mutation_p.D1063Y|BRWD3_uc004eea.2_Missense_Mutation_p.D1063Y|BRWD3_uc004eeb.2_Missense_Mutation_p.D989Y	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	1393	Bromo 2.									ovary(4)	4						TGGCGAACATCCTTATAAAAT	0.353													39	12					2.75727e-19	3.58445e-19	0.021022	1	0		A	79939565	A	A	79939565	3	1	135	1	0	0	0	0	1	0	0	0	1529	855	30	5	1251	5	BRWD3	23	79939565	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	26717222	79939565	75330995	110	74516											
SEPT6	23157	broad.mit.edu	37	chrX	118767452	118767452	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggcctcatatgtctcctgTaaactgcgaacatggtcagg	9	12	10	10	1	3	0	2	0	1	0	4	1	3	0	2	3	3	1	2	3	4	3			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chrX:118767452T>C	uc004erv.2	-	8	1225	c.960A>G	c.(958-960)TTA>TTG	p.L320L	SEPT6_uc010nqk.2_Intron|SEPT6_uc004ers.2_Silent_p.L320L|SEPT6_uc004ert.2_Silent_p.L320L|SEPT6_uc004eru.2_Silent_p.L320L|SEPT6_uc004erw.2_Silent_p.L262L|SEPT6_uc011mtv.1_Silent_p.L262L|SEPT6_uc011mtw.1_Silent_p.L350L	NM_015129	NP_055944	Q14141	SEPT6_HUMAN	septin 6 isoform B	320					cell cycle|cytokinesis|interspecies interaction between organisms	cleavage furrow|condensed chromosome kinetochore|midbody|septin complex|spindle	GTP binding|protein binding			lung(1)|ovary(1)|prostate(1)|kidney(1)	4						ATGTCTCCTGTAAACTGCGAA	0.453													204	26					0	0	0.01441	0	0		C	118767452	C	C	118767452	2	2	135	1	0	0	0	0	0	0	0	1	14093	1635	57	3		3	SEPT6	23	118767452	Silent	SNP	T	TCGA-CG-4443-01A-01D-1158-08	38827887	118767452	36503108	111	74517											
UTP14A	10813	broad.mit.edu	37	chrX	129042700	129042700	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaggtgtcagagttcaatgtCagttctgaaggtaagttgaa	13	12	12	4	0	4	3	3	2	1	1	4	3	4	3	0	2	0	4	0	2	5	4			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chrX:129042700C>G	uc004euz.2	+	4	256	c.228C>G	c.(226-228)GTC>GTG	p.V76V	UTP14A_uc011mup.1_Silent_p.V76V|UTP14A_uc011muq.1_Intron	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	76					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						AGTTCAATGTCAGTTCTGAAG	0.428													225	34					0	0	0.01441	0	0		G	129042700	G	G	129042700	2	3	135	1	0	0	0	0	0	0	0	1	17121	813	29	5		5	UTP14A	23	129042700	Silent	SNP	C	TCGA-CG-4443-01A-01D-1158-08	10275248	129042700	26227860	112	74518											
PDZD4	57595	broad.mit.edu	37	chrX	153070157	153070157	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtcccggctctgcagggCgtccccttgcaggccaaact	7	7	12	15	2	1	0	0	0	1	0	3	1	3	0	4	3	3	3	4	3	2	1			TCGA-CG-4443-01A-01D-1158-08	TCGA-CG-4443-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f34939d0-6d7c-4fdc-b176-ef85b22f627b	53c153a9-8651-406e-b23b-ec36814e596c	g.chrX:153070157C>A	uc004fiz.1	-	8	1211	c.961G>T	c.(961-963)GCC>TCC	p.A321S	PDZD4_uc004fiy.1_Missense_Mutation_p.A246S|PDZD4_uc004fix.2_Missense_Mutation_p.A225S|PDZD4_uc004fja.1_Missense_Mutation_p.A327S|PDZD4_uc011mze.1_Missense_Mutation_p.A212S	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	321						cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTCTGCAGGGCGTCCCCTTGC	0.677													12	33					0.00010058	0.000118867	0.013537	1	0		A	153070157	A	A	153070157	3	1	135	1	0	0	0	0	1	0	0	0	11722	768	27	5	1352	5	PDZD4	23	153070157	Missense_Mutation	SNP	C	TCGA-CG-4443-01A-01D-1158-08	24027457	153070157	2200403	113	74519											
C1orf127	148345	broad.mit.edu	37	chr1	11008159	11008159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgaactcagccaggcaCtggggtctggctgcctcaca	7	8	12	14	0	3	1	2	1	1	0	4	1	4	1	3	4	3	2	3	4	1	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:11008159C>T	uc010oao.1	-	8	1591	c.1586G>A	c.(1585-1587)AGT>AAT	p.S529N	C1orf127_uc001arr.1_Missense_Mutation_p.S511N|C1orf127_uc001ars.1_Missense_Mutation_p.S503N	NM_173507	NP_775778	B7ZLG7	B7ZLG7_HUMAN	hypothetical protein LOC148345	529										ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;0.000226)|all_lung(284;0.000302)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.71e-07)|COAD - Colon adenocarcinoma(227;7.79e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000305)|Kidney(185;0.000785)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|READ - Rectum adenocarcinoma(331;0.0509)		CAGCCAGGCACTGGGGTCTGG	0.622													21	93					0	0	0.010504	0	0		T	11008159	T	T	11008159	3	4	136	1	0	0	0	0	1	0	0	0	1997	565	20	4	442	4	C1orf127	1	11008159	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08		11008159	238242462	1	74520											
C1orf94	84970	broad.mit.edu	37	chr1	34684357	34684357	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagtgggaatggcataaacTtttagatctcctcttctccc	9	13	7	12	0	3	1	0	0	3	1	5	2	3	2	3	2	1	1	3	2	4	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:34684357T>G	uc001bxs.3	+	7	1621	c.1222T>G	c.(1222-1224)TTT>GTT	p.F408V	C1orf94_uc001bxt.2_Missense_Mutation_p.F598V	NM_032884	NP_116273	Q6P1W5	CA094_HUMAN	hypothetical protein LOC84970 isoform b	408							protein binding				0		Myeloproliferative disorder(586;0.0393)				TGGCATAAACTTTTAGATCTC	0.498													17	105					0	0	0.007413	0	0		G	34684357	G	G	34684357	3	3	136	1	0	0	0	0	1	0	0	0	2074	1609	56	5	1818	5	C1orf94	1	34684357	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	23676198	34684357	214566264	2	74521											
NEGR1	257194	broad.mit.edu	37	chr1	72076709	72076709	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataatcacaaagtcctcacTtcttctctcctttgtaccat	11	15	2	13	0	4	0	2	0	2	0	7	0	6	0	3	0	1	1	3	0	4	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:72076709T>G	uc001dfw.2	-	5	888	c.788A>C	c.(787-789)AAG>ACG	p.K263T	NEGR1_uc001dfv.2_Missense_Mutation_p.K135T|NEGR1_uc010oqs.1_Missense_Mutation_p.K219T	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	263	Ig-like C2-type 3.				cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		AAGTCCTCACTTCTTCTCTCC	0.453													28	101					0	0	0.027356	0	0		G	72076709	G	G	72076709	3	3	136	1	0	0	0	0	1	0	0	0	10336	1623	56	5	288	5	NEGR1	1	72076709	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	37392352	72076709	177173912	3	74522											
COL24A1	255631	broad.mit.edu	37	chr1	86307783	86307783	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtcctggcaatccagaggGtcctggttggccctgatggc	6	9	15	11	0	0	2	0	1	0	1	3	2	3	2	4	6	0	2	4	6	1	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:86307783G>T	uc001dlj.2	-	41	3580	c.3538C>A	c.(3538-3540)CCC>ACC	p.P1180T	COL24A1_uc001dli.2_Missense_Mutation_p.P316T|COL24A1_uc010osd.1_Missense_Mutation_p.P480T|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	1180	Collagen-like 12.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		AATCCAGAGGGTCCTGGTTGG	0.368													4	84					0.00909568	0.00976393	0.009096	1	0		T	86307783	T	T	86307783	3	4	136	1	0	0	0	0	1	0	0	0	3686	1261	44	5	1686	5	COL24A1	1	86307783	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	14231074	86307783	162942838	4	74523											
HFM1	164045	broad.mit.edu	37	chr1	91846476	91846476	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaaatacttacatcatcaAaggccttggactgtatatag	16	12	6	7	0	2	0	2	0	0	0	2	1	2	1	1	2	2	1	1	2	8	7			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:91846476A>C	uc001doa.3	-	7	966	c.866T>G	c.(865-867)TTT>TGT	p.F289C	HFM1_uc010osu.1_5'UTR|HFM1_uc010osv.1_Intron|HFM1_uc001doc.1_Missense_Mutation_p.F289C	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	289							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		TACATCATCAAAGGCCTTGGA	0.164													14	52					0	0	0.028581	0	0		C	91846476	C	C	91846476	3	2	136	1	0	0	0	0	1	0	0	0	7099	14	1	5	3573	5	HFM1	1	91846476	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	5538693	91846476	157404145	5	74524											
ALG14	199857	broad.mit.edu	37	chr1	95530569	95530569	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcaggatctcagtggtatgCccacctggaaaaaatatcag	13	9	9	10	0	3	0	3	0	1	0	4	2	3	2	2	3	1	1	2	3	5	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:95530569C>T	uc001dra.2	-	2	194	c.141G>A	c.(139-141)GGG>GGA	p.G47G		NM_144988	NP_659425	Q96F25	ALG14_HUMAN	asparagine-linked glycosylation 14 homolog	47	Cytoplasmic (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity				0		all_lung(203;0.0232)|Lung NSC(277;0.0739)		all cancers(265;0.0615)|Epithelial(280;0.139)		CAGTGGTATGCCCACCTGGAA	0.423													6	34					0	0	0.021553	0	0		T	95530569	T	T	95530569	2	4	136	1	0	0	0	0	0	0	0	1	516	726	26	2		2	ALG14	1	95530569	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	3684093	95530569	153720052	6	74525											
SPAG17	200162	broad.mit.edu	37	chr1	118640394	118640394	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcaggtttctcattatTcaggactggttccaagtact	8	17	8	8	0	3	0	3	0	1	0	5	1	4	1	1	3	1	4	1	3	3	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:118640394T>A	uc001ehk.2	-	7	978	c.910A>T	c.(910-912)AAT>TAT	p.N304Y		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	304						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TTCTCATTATTCAGGACTGGT	0.363													8	53					0	0	0.00308	0	0		A	118640394	A	A	118640394	3	1	136	1	0	0	0	0	1	0	0	0	15004	1783	62	5	5929	5	SPAG17	1	118640394	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	23109825	118640394	130610227	7	74526											
HRNR	388697	broad.mit.edu	37	chr1	152187749	152187749	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagacccatgctgactgtaaCtagaggactgccctgagcta	11	8	10	12	0	0	4	0	2	0	2	0	5	0	5	2	1	4	3	2	1	3	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:152187749C>A	uc001ezt.1	-	3	6432	c.6356G>T	c.(6355-6357)AGT>ATT	p.S2119I		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2119	23.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGACTGTAACTAGAGGACTG	0.577													7	485					0.000308642	0.000336817	0.024245	1	0		A	152187749	A	A	152187749	3	1	136	1	0	0	0	0	1	0	0	0	7375	565	20	5	2200	5	HRNR	1	152187749	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	33547355	152187749	97062872	8	74527											
INTS3	65123	broad.mit.edu	37	chr1	153727151	153727151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcagtcaagaacatcccGaaaattcctagcatgtcgtc	12	11	6	12	2	3	1	2	0	1	1	7	2	5	1	2	0	2	1	2	0	5	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:153727151G>A	uc009wom.2	+	10	1114	c.893G>A	c.(892-894)CGA>CAA	p.R298Q	INTS3_uc001fct.2_Missense_Mutation_p.R298Q|INTS3_uc001fcu.2_5'UTR|INTS3_uc001fcv.2_Missense_Mutation_p.R92Q|INTS3_uc010peb.1_Missense_Mutation_p.R92Q|INTS3_uc001fcw.2_5'UTR|INTS3_uc010pec.1_5'Flank	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	299					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			AGAACATCCCGAAAATTCCTA	0.458													20	473					0	0	0.012319	0	0		A	153727151	A	A	153727151	3	1	136	1	0	0	0	0	1	0	0	0	7795	1058	37	1	927	1	INTS3	1	153727151	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	1539402	153727151	95523470	9	74528											
HMCN1	83872	broad.mit.edu	37	chr1	185953387	185953387	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggatggtggtgaatatacTtgtgtggccagtaacgttgc	9	12	14	6	1	0	1	0	1	0	0	0	2	0	2	1	4	3	2	1	4	4	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:185953387T>C	uc001grq.1	+	19	3106	c.2877T>C	c.(2875-2877)ACT>ACC	p.T959T	HMCN1_uc001grr.1_Silent_p.T300T	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	959	Ig-like C2-type 6.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GTGAATATACTTGTGTGGCCA	0.428													8	139					0	0	0.006214	0	0		C	185953387	C	C	185953387	2	2	136	1	0	0	0	0	0	0	0	1	7236	1596	56	3		3	HMCN1	1	185953387	Silent	SNP	T	TCGA-CG-4444-01A-01D-1158-08	32226236	185953387	63297234	10	74529											
HMCN1	83872	broad.mit.edu	37	chr1	186026410	186026410	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggtcacctgaaaatattAgtgtggtagaaaagaactca	17	9	9	6	0	2	3	2	1	0	2	2	3	2	3	1	2	1	1	1	2	8	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:186026410A>C	uc001grq.1	+	46	7418	c.7189A>C	c.(7189-7191)AGT>CGT	p.S2397R		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2397	Ig-like C2-type 22.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TGAAAATATTAGTGTGGTAGA	0.413													5	96					0	0	0.014758	0	0		C	186026410	C	C	186026410	3	2	136	1	0	0	0	0	1	0	0	0	7236	420	15	5	7371	5	HMCN1	1	186026410	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	73023	186026410	63224211	11	74530											
RGS18	64407	broad.mit.edu	37	chr1	192127818	192127818	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaatatgtgtgaatcaaaAgaaaaaacttttttcaagtt	19	14	5	3	0	2	2	2	1	0	1	2	2	2	2	0	0	1	1	0	0	10	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:192127818A>C	uc001gsg.2	+	1	227	c.51A>C	c.(49-51)AAA>AAC	p.K17N		NM_130782	NP_570138	Q9NS28	RGS18_HUMAN	regulator of G-protein signalling 18	17					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)	3						GTGAATCAAAAGAAAAAACTT	0.289													10	25					0	0	0.006214	0	0		C	192127818	C	C	192127818	3	2	136	1	0	0	0	0	1	0	0	0	13325	69	3	5	53	5	RGS18	1	192127818	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	6101408	192127818	57122803	12	74531											
USH2A	7399	broad.mit.edu	37	chr1	216373111	216373111	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaaacagcccccgctagtAcacgcctgtacagaaaaatc	14	7	7	13	2	0	1	0	0	0	1	1	1	0	1	3	0	4	4	3	0	7	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:216373111A>G	uc001hku.1	-	17	4056	c.3669T>C	c.(3667-3669)TGT>TGC	p.C1223C	USH2A_uc001hkv.2_Silent_p.C1223C	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1223	Extracellular (Potential).|Fibronectin type-III 2.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CCCCGCTAGTACACGCCTGTA	0.498										HNSCC(13;0.011)			15	62					0	0	0.020292	0	0		G	216373111	G	G	216373111	2	3	136	1	0	0	0	0	0	0	0	1	17062	389	14	3		3	USH2A	1	216373111	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	24245293	216373111	32877510	13	74532											
SIPA1L2	57568	broad.mit.edu	37	chr1	232577524	232577524	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccttattacccgggtgcctGcttgcttccatggtgtcttc	3	16	9	13	1	1	0	0	0	1	0	4	0	3	0	4	2	4	2	4	2	2	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:232577524G>C	uc001hvg.2	-	11	3686	c.3528C>G	c.(3526-3528)AGC>AGG	p.S1176R	SIPA1L2_uc001hvf.2_Missense_Mutation_p.S250R	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1176					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				CCGGGTGCCTGCTTGCTTCCA	0.552													3	12					0	0	0.009096	0	0		C	232577524	C	C	232577524	3	2	136	1	0	0	0	0	1	0	0	0	14355	1310	46	5	1684	5	SIPA1L2	1	232577524	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	16204413	232577524	16673097	14	74533											
RYR2	6262	broad.mit.edu	37	chr1	237804268	237804268	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccttctattcagctttgaTtgacctcttgggacgctgtg	6	15	10	10	1	3	2	1	2	2	0	3	4	3	3	2	1	1	2	2	1	1	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:237804268T>G	uc001hyl.1	+	47	7307	c.7187T>G	c.(7186-7188)ATT>AGT	p.I2396S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2396	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TCAGCTTTGATTGACCTCTTG	0.448													4	26					0	0	0.009096	0	0		G	237804268	G	G	237804268	3	3	136	1	0	0	0	0	1	0	0	0	13794	1493	52	5	7373	5	RYR2	1	237804268	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	5226744	237804268	11446353	15	74534											
GREM2	64388	broad.mit.edu	37	chr1	240656338	240656338	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcaccttctggattttcttGagtcggaagggtgggtccag	6	14	13	8	1	3	1	1	1	2	0	5	3	4	3	2	4	0	0	2	4	1	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:240656338G>C	uc001hys.2	-	2	718	c.438C>G	c.(436-438)CTC>CTG	p.L146L		NM_022469	NP_071914	Q9H772	GREM2_HUMAN	gremlin 2 precursor	146	CTCK.				BMP signaling pathway	extracellular space	cytokine activity				0		all_cancers(173;0.0196)	OV - Ovarian serous cystadenocarcinoma(106;0.0123)			GGATTTTCTTGAGTCGGAAGG	0.617													5	74					0	0	0.021553	0	0		C	240656338	C	C	240656338	2	2	136	1	0	0	0	0	0	0	0	1	6778	1277	45	5		5	GREM2	1	240656338	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	2852070	240656338	8594283	16	74535											
OR2W5	441932	broad.mit.edu	37	chr1	247655335	247655335	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatgtgaaggggaccatgaAgaaacttctggggtgggaga	12	7	18	4	0	1	4	0	2	1	2	1	7	1	6	1	6	1	0	1	6	3	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:247655335A>C	uc001icz.1	+	1	906	c.906A>C	c.(904-906)GAA>GAC	p.E302D		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	302					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			GGGACCATGAAGAAACTTCTG	0.502													49	70					0	0	0.01441	0	0		C	247655335	C	C	247655335	3	2	136	1	0	0	0	0	1	0	0	0	11053	69	3	5	908	5	OR2W5	1	247655335	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	6998997	247655335	1595286	17	74536											
OR13G1	441933	broad.mit.edu	37	chr1	247835493	247835493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggaagctgtacaccatcGggtttaatgtgggagtcaca	10	11	12	8	1	2	0	1	0	1	0	3	2	2	2	1	3	2	3	1	3	3	3	rs151003275		TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:247835493G>A	uc001idi.1	-	1	851	c.851C>T	c.(850-852)CCG>CTG	p.P284L		NM_001005487	NP_001005487	Q8NGZ3	O13G1_HUMAN	olfactory receptor, family 13, subfamily G,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			GTACACCATCGGGTTTAATGT	0.443													15	78					0	0	0.00499	0	0		A	247835493	A	A	247835493	3	1	136	1	0	0	0	0	1	0	0	0	10961	1116	39	1	76	1	OR13G1	1	247835493	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	180158	247835493	1415128	18	74537											
OR2M5	127059	broad.mit.edu	37	chr1	248309088	248309088	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtttttcctgttgcaatCatcatcgcttcctatgctcg	6	18	6	11	2	2	0	2	0	0	0	6	0	4	0	2	0	2	5	2	0	2	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr1:248309088C>A	uc010pze.1	+	1	639	c.639C>A	c.(637-639)ATC>ATA	p.I213I		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	213	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			CTGTTGCAATCATCATCGCTT	0.423													49	358					8.04919e-23	9.49299e-23	0.01441	1	0		A	248309088	A	A	248309088	2	1	136	1	0	0	0	0	0	0	0	1	11032	816	29	5		5	OR2M5	1	248309088	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	473595	248309088	941533	19	74538											
APOB	338	broad.mit.edu	37	chr2	21230450	21230450	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagaaattttggttgtacTtatactgattgaacctagca	13	14	8	6	0	0	3	0	2	0	1	0	4	0	3	1	1	4	3	1	1	6	8			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:21230450T>G	uc002red.2	-	26	9418	c.9290A>C	c.(9289-9291)AAG>ACG	p.K3097T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3097					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTGGTTGTACTTATACTGATT	0.398													18	176					0	0	0.006122	0	0		G	21230450	G	G	21230450	3	3	136	1	0	0	0	0	1	0	0	0	785	1609	56	5	4417	5	APOB	2	21230450	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08		21230450	221968923	20	74539											
OTOF	9381	broad.mit.edu	37	chr2	26685000	26685000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccctgtgaagaagtcgtcgtCctccaagaccacctcatctg	9	9	8	15	2	2	3	1	1	1	2	6	3	4	3	5	0	0	0	5	0	3	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:26685000C>T	uc002rhk.2	-	42	5369	c.5242G>A	c.(5242-5244)GAC>AAC	p.D1748N	OTOF_uc010yla.1_Missense_Mutation_p.D478N|OTOF_uc002rhh.2_Missense_Mutation_p.D981N|OTOF_uc002rhi.2_Missense_Mutation_p.D1058N|OTOF_uc002rhj.2_Missense_Mutation_p.D981N	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1748	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAGTCGTCGTCCTCCAAGACC	0.607													64	202					0	0	0.01441	0	0		T	26685000	T	T	26685000	3	4	136	1	0	0	0	0	1	0	0	0	11322	855	30	4	956	4	OTOF	2	26685000	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	5454550	26685000	216514373	21	74540											
DPYSL5	56896	broad.mit.edu	37	chr2	27156127	27156127	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtttcttgtgtttagaCtcactgtccaatctacctgg	7	16	7	11	0	3	1	1	0	2	1	4	1	4	1	2	1	1	2	2	1	3	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:27156127C>A	uc002rhu.3	+	7	874	c.716C>A	c.(715-717)ACT>AAT	p.T239N	DPYSL5_uc002rhv.3_Missense_Mutation_p.T239N	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	239					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGTGTTTAGACTCACTGTCCA	0.517													22	69					4.26978e-12	4.90372e-12	0.01892	1	0		A	27156127	A	A	27156127	3	1	136	1	0	0	0	0	1	0	0	0	4756	579	20	5	738	5	DPYSL5	2	27156127	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	471127	27156127	216043246	22	74541											
THADA	63892	broad.mit.edu	37	chr2	43802126	43802126	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaattagtccaggatgctaAgattctagacagaaacattt	15	12	8	6	0	1	4	0	1	1	3	2	5	2	5	1	1	2	1	1	1	5	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:43802126A>G	uc002rsw.3	-	11	1430	c.1078T>C	c.(1078-1080)TTA>CTA	p.L360L	THADA_uc002rsx.3_Silent_p.L360L|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Silent_p.L70L|THADA_uc002rta.2_Silent_p.L70L|THADA_uc002rtb.1_Silent_p.L360L|THADA_uc002rtc.3_Silent_p.L360L|THADA_uc002rtd.2_Silent_p.L360L	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	360							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				CAGGATGCTAAGATTCTAGAC	0.388													52	92					0	0	0.01441	0	0		G	43802126	G	G	43802126	2	3	136	1	0	0	0	0	0	0	0	1	15865	69	3	3		3	THADA	2	43802126	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	16645999	43802126	199397247	23	74542											
FSHR	2492	broad.mit.edu	37	chr2	49216184	49216184	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtggatgtttatgttatcTtgaatgtcactagaagaaag	12	15	11	3	0	2	3	1	1	1	2	2	4	2	4	0	1	0	2	0	1	6	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:49216184T>C	uc002rww.2	-	6	530	c.456A>G	c.(454-456)CAA>CAG	p.Q152Q	FSHR_uc002rwx.2_Silent_p.Q152Q|FSHR_uc010fbn.2_Intron|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	152	LRR 5.|Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	TTATGTTATCTTGAATGTCAC	0.363									Gonadal_Dysgenesis_46_XX				17	26					0	0	0.006122	0	0		C	49216184	C	C	49216184	2	2	136	1	0	0	0	0	0	0	0	1	6087	1606	56	3		3	FSHR	2	49216184	Silent	SNP	T	TCGA-CG-4444-01A-01D-1158-08	5414058	49216184	193983189	24	74543											
AFF3	3899	broad.mit.edu	37	chr2	100623244	100623244	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactcatcaggggcctgatcTtggccgtccattggcctcac	6	10	11	14	1	4	1	3	1	1	0	5	2	5	1	4	4	0	0	4	4	0	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:100623244T>C	uc002tag.2	-	6	959	c.723A>G	c.(721-723)CAA>CAG	p.Q241Q	AFF3_uc002taf.2_Silent_p.Q266Q|AFF3_uc010fiq.1_Silent_p.Q241Q|AFF3_uc010yvr.1_Silent_p.Q395Q|AFF3_uc002tah.1_Silent_p.Q266Q|AFF3_uc010fir.1_Silent_p.Q318Q|AFF3_uc002tai.2_Silent_p.Q163Q	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	241					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						GGGCCTGATCTTGGCCGTCCA	0.577													13	64					0	0	0.013537	0	0		C	100623244	C	C	100623244	2	2	136	1	0	0	0	0	0	0	0	1	358	1606	56	3		3	AFF3	2	100623244	Silent	SNP	T	TCGA-CG-4444-01A-01D-1158-08	51407060	100623244	142576129	25	74544											
NCKAP5	344148	broad.mit.edu	37	chr2	133540288	133540288	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcctcaaaggcaacttacTtgggctcccatgctgactgc	9	10	9	13	0	1	1	1	1	0	0	3	2	3	1	2	2	4	3	2	2	3	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:133540288T>G	uc002ttp.2	-	14	4470	c.4096A>C	c.(4096-4098)AGT>CGT	p.S1366R	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1366							protein binding				0						GGCAACTTACTTGGGCTCCCA	0.632													11	50					0	0	0.010729	0	0		G	133540288	G	G	133540288	3	3	136	1	0	0	0	0	1	0	0	0	10242	1609	56	5	1661	5	NCKAP5	2	133540288	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	32917044	133540288	109659085	26	74545											
LRP1B	53353	broad.mit.edu	37	chr2	141625375	141625375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctatcatgtttgttccatCatagagggctgaataaatag	12	15	8	6	0	3	2	2	1	1	1	4	2	4	2	1	1	0	3	1	1	6	7			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:141625375C>T	uc002tvj.1	-	27	5335	c.4363G>A	c.(4363-4365)GAT>AAT	p.D1455N	LRP1B_uc010fnl.1_Missense_Mutation_p.D637N	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1455	Extracellular (Potential).|LDL-receptor class B 12.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTTGTTCCATCATAGAGGGCT	0.393										TSP Lung(27;0.18)			25	33					0	0	0.021523	0	0		T	141625375	T	T	141625375	3	4	136	1	0	0	0	0	1	0	0	0	8973	826	29	4	9696	4	LRP1B	2	141625375	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	8085087	141625375	101573998	27	74546											
ORC4L	5000	broad.mit.edu	37	chr2	148715948	148715948	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attttgtcattgatctgcagCagtcctaaaataaagtccat	13	14	6	8	0	2	1	1	1	1	0	4	1	4	1	2	0	2	2	2	0	4	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:148715948C>T	uc002twi.2	-	6	441	c.306G>A	c.(304-306)CTG>CTA	p.L102L	ORC4L_uc002twj.2_Silent_p.L102L|ORC4L_uc010zbo.1_Silent_p.L28L|ORC4L_uc010zbp.1_5'UTR|ORC4L_uc010fnr.2_Silent_p.L102L|ORC4L_uc010zbq.1_Silent_p.L18L|ORC4L_uc002twk.2_Silent_p.L102L|ORC4L_uc010zbr.1_Silent_p.L102L	NM_181741	NP_859525	O43929	ORC4_HUMAN	origin recognition complex subunit 4	102					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|nucleoside-triphosphatase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.0963)|COAD - Colon adenocarcinoma(177;0.203)		TGATCTGCAGCAGTCCTAAAA	0.308													7	52					0	0	0.001984	0	0		T	148715948	T	T	148715948	2	4	136	1	0	0	0	0	0	0	0	1	11283	697	25	2		2	ORC4L	2	148715948	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	7090573	148715948	94483425	28	74547											
FIGN	55137	broad.mit.edu	37	chr2	164466918	164466918	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtccttgggtgataatcTcattggttaccaggtcgatg	8	13	13	7	1	1	1	1	1	1	0	4	3	2	1	2	4	1	1	2	4	2	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:164466918T>G	uc002uck.1	-	3	1735	c.1424A>C	c.(1423-1425)GAG>GCG	p.E475A		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	475						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						GGTGATAATCTCATTGGTTAC	0.517													9	57					0	0	0.004482	0	0		G	164466918	G	G	164466918	3	3	136	1	0	0	0	0	1	0	0	0	5905	1551	54	5	859	5	FIGN	2	164466918	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	15750970	164466918	78732455	29	74548											
DHRS9	10170	broad.mit.edu	37	chr2	169940025	169940025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taatgtctccagtgttggagGtcgccttgcaatcgttggag	7	13	13	8	2	1	0	0	0	1	0	4	2	1	2	2	3	1	3	2	3	2	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:169940025G>A	uc002uep.2	+	6	2004	c.500G>A	c.(499-501)GGT>GAT	p.G167D	DHRS9_uc002ueq.2_Missense_Mutation_p.G167D|DHRS9_uc010zdc.1_Missense_Mutation_p.G227D|DHRS9_uc010zdd.1_Missense_Mutation_p.G167D|DHRS9_uc010zde.1_Missense_Mutation_p.G167D	NM_005771	NP_005762	Q9BPW9	DHRS9_HUMAN	NADP-dependent retinol dehydrogenase/reductase	167					9-cis-retinoic acid biosynthetic process|androgen metabolic process|epithelial cell differentiation|progesterone metabolic process|retinol metabolic process	integral to endoplasmic reticulum membrane|microsome	alcohol dehydrogenase (NAD) activity|binding|racemase and epimerase activity|retinol dehydrogenase activity|testosterone dehydrogenase (NAD+) activity				0						AGTGTTGGAGGTCGCCTTGCA	0.408													26	66					0	0	0.024334	0	0		A	169940025	A	A	169940025	3	1	136	1	0	0	0	0	1	0	0	0	4504	1261	44	4	506	4	DHRS9	2	169940025	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	5473107	169940025	73259348	30	74549											
GAD1	2571	broad.mit.edu	37	chr2	171702021	171702021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcttgctgacagggggcGccatatccaacatgtacagc	9	8	11	13	2	0	1	0	1	0	0	2	1	2	1	3	2	4	3	3	2	3	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:171702021G>A	uc002ugi.2	+	8	1179	c.757G>A	c.(757-759)GCC>ACC	p.A253T		NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	253					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GACAGGGGGCGCCATATCCAA	0.512													20	64					0	0	0.014323	0	0		A	171702021	A	A	171702021	3	1	136	1	0	0	0	0	1	0	0	0	6193	1087	38	1	824	1	GAD1	2	171702021	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	1761996	171702021	71497352	31	74550											
TTN	7273	broad.mit.edu	37	chr2	179419406	179419406	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaccatcatcagctggaggCcgccagagaagggtgatctt	10	7	12	12	1	3	2	2	1	1	1	3	4	3	3	4	3	1	1	4	3	1	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:179419406C>T	uc010zfg.1	-	281	81188	c.80964G>A	c.(80962-80964)CGG>CGA	p.R26988R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.R20683R|TTN_uc010zfi.1_Silent_p.R20616R|TTN_uc010zfj.1_Silent_p.R20491R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27915							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGCTGGAGGCCGCCAGAGAA	0.478													5	98					0	0	0.021553	0	0		T	179419406	T	T	179419406	2	4	136	1	0	0	0	0	0	0	0	1	16761	726	26	2		2	TTN	2	179419406	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	7717385	179419406	63779967	32	74551											
TTN	7273	broad.mit.edu	37	chr2	179466785	179466785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgattttggtgttgggcGtcccttgatgacagcaggaa	9	12	14	6	1	0	4	0	3	0	1	1	5	1	5	1	3	1	2	1	3	1	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:179466785G>A	uc010zfg.1	-	233	47733	c.47509C>T	c.(47509-47511)CGC>TGC	p.R15837C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R9532C|TTN_uc010zfi.1_Missense_Mutation_p.R9465C|TTN_uc010zfj.1_Missense_Mutation_p.R9340C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16764							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGTGTTGGGCGTCCCTTGATG	0.413													18	76					0	0	0.006122	0	0		A	179466785	A	A	179466785	3	1	136	1	0	0	0	0	1	0	0	0	16761	1145	40	1	52796	1	TTN	2	179466785	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	47379	179466785	63732588	33	74552											
TTN	7273	broad.mit.edu	37	chr2	179482583	179482583	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgattttgggctctcactCggaaactgtactcctgtcct	6	15	8	12	2	1	0	1	0	1	0	6	2	3	1	2	2	2	2	2	2	2	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:179482583C>A	uc010zfg.1	-	202	40015	c.39791G>T	c.(39790-39792)CGA>CTA	p.R13264L	TTN_uc010zfh.1_Missense_Mutation_p.R6959L|TTN_uc010zfi.1_Missense_Mutation_p.R6892L|TTN_uc010zfj.1_Missense_Mutation_p.R6767L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14191							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGCTCTCACTCGGAAACTGTA	0.468													14	82					1.52009e-12	1.75344e-12	0.024245	1	0		A	179482583	A	A	179482583	3	1	136	1	0	0	0	0	1	0	0	0	16761	884	31	5	60638	5	TTN	2	179482583	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	15798	179482583	63716790	34	74553											
TTN	7273	broad.mit.edu	37	chr2	179579038	179579038	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgagaacggatagcgtggcGaagcactcttgcatcccagc	10	6	12	13	4	1	1	0	0	1	1	2	4	2	2	2	2	5	2	2	2	3	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:179579038G>A	uc010zfg.1	-	88	22955	c.22731C>T	c.(22729-22731)TTC>TTT	p.F7577F	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.F4238F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8504							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATAGCGTGGCGAAGCACTCTT	0.408													16	108					0	0	0.028581	0	0		A	179579038	A	A	179579038	2	1	136	1	0	0	0	0	0	0	0	1	16761	1049	37	1		1	TTN	2	179579038	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	96455	179579038	63620335	35	74554											
TTN	7273	broad.mit.edu	37	chr2	179594123	179594123	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggttatatggaggttaaAcacagacactctgtcggtca	11	12	10	8	1	2	1	1	0	1	1	3	2	2	2	0	4	1	2	0	4	4	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:179594123A>C	uc010zfg.1	-	61	15252	c.15028T>G	c.(15028-15030)TTT>GTT	p.F5010V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.F1671V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5937							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGAGGTTAAACACAGACACT	0.458													10	91					0	0	0.010729	0	0		C	179594123	C	C	179594123	3	2	136	1	0	0	0	0	1	0	0	0	16761	43	2	5	85965	5	TTN	2	179594123	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	15085	179594123	63605250	36	74555											
MDH1B	130752	broad.mit.edu	37	chr2	207620121	207620121	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaggcttttgagatgttcTtccgcctgcttgttgtcaaa	8	15	9	9	1	2	1	1	1	1	1	3	2	3	1	2	1	1	4	2	1	2	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:207620121T>G	uc002vbs.2	-	5	577	c.522A>C	c.(520-522)GAA>GAC	p.E174D	MDH1B_uc010ziw.1_Intron|MDH1B_uc010fui.2_Missense_Mutation_p.E174D|MDH1B_uc010fuj.2_Missense_Mutation_p.E76D|MDH1B_uc002vbt.2_Intron	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)	174					carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		TGAGATGTTCTTCCGCCTGCT	0.522													8	55					0	0	0.008291	0	0		G	207620121	G	G	207620121	3	3	136	1	0	0	0	0	1	0	0	0	9427	1606	56	5	1066	5	MDH1B	2	207620121	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	28025998	207620121	35579252	37	74556											
CPS1	1373	broad.mit.edu	37	chr2	211507265	211507265	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatccgcacactgcgtcaacTtggcaagaagacggtggtgg	10	8	13	10	3	1	2	1	0	0	2	2	2	2	2	1	4	2	2	1	4	4	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:211507265T>G	uc002vee.3	+	25	3149	c.3017T>G	c.(3016-3018)CTT>CGT	p.L1006R	CPS1_uc010fur.2_Missense_Mutation_p.L1012R|CPS1_uc010fus.2_Missense_Mutation_p.L555R	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1006					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		CTGCGTCAACTTGGCAAGAAG	0.473													14	87					0	0	0.028581	0	0		G	211507265	G	G	211507265	3	3	136	1	0	0	0	0	1	0	0	0	3826	1609	56	5	3137	5	CPS1	2	211507265	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	3887144	211507265	31692108	38	74557											
XRCC5	7520	broad.mit.edu	37	chr2	217012887	217012887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatatgctgaatcctcccGctgaggtgacaacaaaaagt	14	8	10	9	1	0	3	0	3	0	0	2	4	2	4	2	2	2	2	2	2	6	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:217012887G>A	uc002vfy.2	+	14	1698	c.1558G>A	c.(1558-1560)GCT>ACT	p.A520T	XRCC5_uc002vfz.2_Missense_Mutation_p.A406T	NM_021141	NP_066964	P13010	XRCC5_HUMAN	ATP-dependent DNA helicase II	520					double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|provirus integration|telomere maintenance|transcription, DNA-dependent	Ku70:Ku80 complex|nonhomologous end joining complex|nuclear telomere cap complex|nucleoplasm	ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|telomeric DNA binding|transcription regulatory region DNA binding			lung(1)|kidney(1)	2		Renal(323;0.0328)		Epithelial(149;9.78e-06)|all cancers(144;0.000632)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.0117)		GAATCCTCCCGCTGAGGTGAC	0.443								Direct_reversal_of_damage|NHEJ					22	124					0	0	0.012319	0	0		A	217012887	A	A	217012887	3	1	136	1	0	0	0	0	1	0	0	0	17482	1087	38	1	1612	1	XRCC5	2	217012887	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	5505622	217012887	26186486	39	74558											
DNER	92737	broad.mit.edu	37	chr2	230253043	230253043	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttataaccattgggctggTccaggcagctcccaccatgg	9	9	11	12	0	0	0	0	0	0	0	2	0	2	0	4	4	2	4	4	4	2	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:230253043T>A	uc002vpv.2	-	11	1940	c.1793A>T	c.(1792-1794)GAC>GTC	p.D598V		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	598	Extracellular (Potential).|EGF-like 10; calcium-binding (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		ATTGGGCTGGTCCAGGCAGCT	0.488													6	137					0	0	0.006214	0	0		A	230253043	A	A	230253043	3	1	136	1	0	0	0	0	1	0	0	0	4673	1667	58	5	432	5	DNER	2	230253043	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	13240156	230253043	12946330	40	74559											
DNER	92737	broad.mit.edu	37	chr2	230282864	230282864	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	acacactcatagccattaacGaggtccctgcaggtggctgc	10	8	10	13	1	1	0	1	0	0	0	2	1	2	0	2	3	4	2	2	3	2	2	rs138648634		TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr2:230282864G>C	uc002vpv.2	-	9	1716	c.1569C>G	c.(1567-1569)CTC>CTG	p.L523L		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	523	EGF-like 8; calcium-binding (Potential).|Extracellular (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		AGCCATTAACGAGGTCCCTGC	0.522													9	79					0	0	0.016723	0	0		C	230282864	C	C	230282864	2	2	136	1	0	0	0	0	0	0	0	1	4673	1045	37	5		5	DNER	2	230282864	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	29821	230282864	12916509	41	74560											
KCNH8	131096	broad.mit.edu	37	chr3	19389349	19389349	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttgttggcaacgttttatGttgctgtgactgtaccttac	6	19	9	7	1	0	1	0	1	0	0	0	1	0	1	1	1	4	6	1	1	4	8			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr3:19389349G>C	uc003cbk.1	+	5	898	c.703G>C	c.(703-705)GTT>CTT	p.V235L	KCNH8_uc011awe.1_Missense_Mutation_p.V235L|KCNH8_uc010hex.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	235	Helical; Name=Segment S1; (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						AACGTTTTATGTTGCTGTGAC	0.408													10	123					0	0	0.008291	0	0		C	19389349	C	C	19389349	3	2	136	1	0	0	0	0	1	0	0	0	8054	1377	48	5	721	5	KCNH8	3	19389349	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08		19389349	178633081	42	74561											
DOCK3	1795	broad.mit.edu	37	chr3	51399300	51399300	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgctcacagccccatgaacTtgatgggcacaggccgccat	9	8	10	14	1	1	2	1	2	0	0	1	2	1	2	4	2	3	2	4	2	1	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr3:51399300T>G	uc011bds.1	+	48	5040	c.5017T>G	c.(5017-5019)TTG>GTG	p.L1673V		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1673						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		CCCCATGAACTTGATGGGCAC	0.562													3	12					0	0	0.014758	0	0		G	51399300	G	G	51399300	3	3	136	1	0	0	0	0	1	0	0	0	4694	1606	56	5	5207	5	DOCK3	3	51399300	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	32009951	51399300	146623130	43	74562											
ROBO1	6091	broad.mit.edu	37	chr3	78667120	78667120	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatatctgagaccaggggtCctgaaatgtagccataggta	12	9	11	9	0	1	2	0	2	1	1	2	3	2	2	4	3	1	2	4	3	5	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr3:78667120C>A	uc003dqe.2	-	27	4155	c.3947G>T	c.(3946-3948)GGA>GTA	p.G1316V	ROBO1_uc003dqb.2_Missense_Mutation_p.G1277V|ROBO1_uc003dqc.2_Missense_Mutation_p.G1216V|ROBO1_uc003dqd.2_Missense_Mutation_p.G1271V|ROBO1_uc010hoh.2_Missense_Mutation_p.G508V|ROBO1_uc011bgl.1_Missense_Mutation_p.G888V	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1316	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		GACCAGGGGTCCTGAAATGTA	0.522													4	44					0.000157383	0.000173187	0.00308	1	0		A	78667120	A	A	78667120	3	1	136	1	0	0	0	0	1	0	0	0	13538	855	30	5	1028	5	ROBO1	3	78667120	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	27267820	78667120	119355310	44	74563											
EPHA3	2042	broad.mit.edu	37	chr3	89480445	89480445	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacagtaacttggtgtgtaAggtttctgatttcggacttt	9	16	10	6	1	1	1	0	1	1	0	2	2	1	2	0	3	2	3	0	3	3	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr3:89480445A>T	uc003dqy.2	+	13	2507	c.2282A>T	c.(2281-2283)AAG>ATG	p.K761M	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	761	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding	p.K761N(1)		lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		TTGGTGTGTAAGGTTTCTGAT	0.453										TSP Lung(6;0.00050)			6	54					0	0	0.006214	0	0		T	89480445	T	T	89480445	3	4	136	1	0	0	0	0	1	0	0	0	5176	72	3	5	2358	5	EPHA3	3	89480445	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	10813325	89480445	108541985	45	74564											
MSL2	55167	broad.mit.edu	37	chr3	135871486	135871486	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttgcaccagctacaggaAggtttcatcatcattttctt	9	16	6	10	0	5	0	3	0	2	0	5	1	5	1	1	2	3	3	1	2	2	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr3:135871486A>C	uc003eqx.1	-	2	970	c.237T>G	c.(235-237)CCT>CCG	p.P79P	MSL2_uc011bmb.1_Silent_p.P5P	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	79	RING-type.				histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						AGCTACAGGAAGGTTTCATCA	0.408													47	177					0	0	0.01441	0	0		C	135871486	C	C	135871486	2	2	136	1	0	0	0	0	0	0	0	1	9896	59	3	5		5	MSL2	3	135871486	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	46391041	135871486	62150944	46	74565											
IGSF10	285313	broad.mit.edu	37	chr3	151165623	151165623	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgatagttgtgcctcttacTtgtgcttgaggtgtgttttc	4	18	11	8	1	1	1	0	1	1	0	2	2	1	1	2	1	3	3	2	1	2	7			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr3:151165623T>A	uc011bod.1	-	4	2146	c.2146A>T	c.(2146-2148)AGT>TGT	p.S716C		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	716					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TGCCTCTTACTTGTGCTTGAG	0.493													18	51					0	0	0.010504	0	0		A	151165623	A	A	151165623	3	1	136	1	0	0	0	0	1	0	0	0	7613	1609	56	5	5785	5	IGSF10	3	151165623	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	15294137	151165623	46856807	47	74566											
SLITRK3	22865	broad.mit.edu	37	chr3	164907653	164907653	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggacttgtattcgacagaAgaagcagtaaaatgaacaga	18	7	11	5	1	0	4	0	1	0	3	1	7	0	5	0	1	2	3	0	1	6	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr3:164907653A>C	uc003fej.3	-	2	1410	c.966T>G	c.(964-966)TCT>TCG	p.S322S	SLITRK3_uc003fek.2_Silent_p.S322S	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	322	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						ATTCGACAGAAGAAGCAGTAA	0.463										HNSCC(40;0.11)			54	210					0	0	0.01441	0	0		C	164907653	C	C	164907653	2	2	136	1	0	0	0	0	0	0	0	1	14769	59	3	5		5	SLITRK3	3	164907653	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	13742030	164907653	33114777	48	74567											
CCDC39	339829	broad.mit.edu	37	chr3	180379665	180379665	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacttctttatcacttttcTtttccagtattgaagccatc	9	19	3	10	0	3	1	1	1	2	0	5	1	4	1	2	0	2	1	2	0	4	10			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr3:180379665T>G	uc010hxe.2	-	3	456	c.341A>C	c.(340-342)AAG>ACG	p.K114T	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	114	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			ATCACTTTTCTTTTCCAGTAT	0.338													3	8					0	0	0.004672	0	0		G	180379665	G	G	180379665	3	3	136	1	0	0	0	0	1	0	0	0	2814	1609	56	5	2556	5	CCDC39	3	180379665	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	15472012	180379665	17642765	49	74568											
FGFR3	2261	broad.mit.edu	37	chr4	1807537	1807537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgggagtttctgcgggCgcggcggcccccgggcctgg	1	6	19	15	6	1	0	0	0	1	0	1	1	1	1	4	6	2	1	4	6	0	1	rs146672976		TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr4:1807537C>T	uc003gdr.3	+	13	1962	c.1706C>T	c.(1705-1707)GCG>GTG	p.A569V	FGFR3_uc003gdu.2_Missense_Mutation_p.A571V|FGFR3_uc003gds.3_Missense_Mutation_p.A457V|FGFR3_uc003gdq.3_Missense_Mutation_p.A570V	NM_000142	NP_000133	P22607	FGFR3_HUMAN	fibroblast growth factor receptor 3 isoform 1	569	Protein kinase.|Cytoplasmic (Potential).				bone maturation|cell growth|insulin receptor signaling pathway|JAK-STAT cascade|MAPKKK cascade|negative regulation of developmental growth|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|identical protein binding			urinary_tract(2177)|skin(314)|upper_aerodigestive_tract(57)|haematopoietic_and_lymphoid_tissue(24)|prostate(9)|cervix(6)|central_nervous_system(4)|large_intestine(3)|lung(3)|testis(2)|pancreas(1)	2600		Breast(71;0.212)|all_epithelial(65;0.241)	all cancers(2;0.000145)|OV - Ovarian serous cystadenocarcinoma(23;0.0019)|Epithelial(3;0.00221)|GBM - Glioblastoma multiforme(2;0.234)		Palifermin(DB00039)	TTTCTgcgggcgcggcggccc	0.582		1	Mis|T	IGH@|ETV6	bladder|MM|T-cell lymphoma		Hypochondroplasia|Thanatophoric dysplasia		Muenke_syndrome|Saethre-Chotzen_syndrome				9	43					0	0	0.00499	0	0		T	1807537	T	T	1807537	3	4	136	1	0	0	0	0	1	0	0	0	5881	768	27	1	1907	1	FGFR3	4	1807537	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08		1807537	189346739	50	74569											
NOP14	8602	broad.mit.edu	37	chr4	2948261	2948261	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggaaacatctggcaaaGatgatataagtgcctgttaa	15	11	9	6	0	2	2	1	1	1	1	2	3	2	3	1	2	2	2	1	2	5	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr4:2948261G>T	uc003ggj.1	-	11	1585	c.1513C>A	c.(1513-1515)CTT>ATT	p.L505I	C4orf10_uc003gge.1_Intron|C4orf10_uc003ggh.2_Intron|C4orf10_uc003ggi.1_Intron|NOP14_uc010icp.2_Missense_Mutation_p.L251I|NOP14_uc003ggk.3_Missense_Mutation_p.L505I|NOP14_uc003ggl.2_Missense_Mutation_p.L505I	NM_003703	NP_003694	P78316	NOP14_HUMAN	probable nucleolar complex protein 14	505					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	mitochondrion|Noc4p-Nop14p complex|small-subunit processome	snoRNA binding			pancreas(1)	1						ATCTGGCAAAGATGATATAAG	0.428													21	35					8.04996e-18	9.36787e-18	0.012319	1	0		T	2948261	T	T	2948261	3	4	136	1	0	0	0	0	1	0	0	0	10555	942	33	5	1092	5	NOP14	4	2948261	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	1140724	2948261	188206015	51	74570											
KIAA1211	57482	broad.mit.edu	37	chr4	57182325	57182325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgcagggccgcctgcagCggggagcgctcgtggagaga	7	4	20	10	4	0	1	0	0	0	1	1	5	0	4	2	5	4	3	2	5	0	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr4:57182325C>T	uc003hbk.2	+	8	3048	c.2657C>T	c.(2656-2658)GCG>GTG	p.A886V	KIAA1211_uc010iha.2_Missense_Mutation_p.A879V|KIAA1211_uc011bzz.1_Missense_Mutation_p.A796V|KIAA1211_uc003hbm.1_Missense_Mutation_p.A772V	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	886										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					CCGCCTGCAGCGGGGAGCGCT	0.617													8	17					0	0	0.006214	0	0		T	57182325	T	T	57182325	3	4	136	1	0	0	0	0	1	0	0	0	8231	768	27	1	2675	1	KIAA1211	4	57182325	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	54234064	57182325	133971951	52	74571											
EPHA5	2044	broad.mit.edu	37	chr4	66189893	66189893	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgaaggctgttcatgatcTtcttctggtgaccgacaaga	9	13	10	9	1	4	4	1	3	3	1	4	5	4	4	1	2	0	2	1	2	2	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr4:66189893T>A	uc003hcy.2	-	18	3246	c.3053A>T	c.(3052-3054)AAG>ATG	p.K1018M	EPHA5_uc003hcx.2_Missense_Mutation_p.K950M|EPHA5_uc003hcz.2_Missense_Mutation_p.K996M|EPHA5_uc011cah.1_Missense_Mutation_p.K1019M|EPHA5_uc011cai.1_Missense_Mutation_p.K997M	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	1018	Cytoplasmic (Potential).|SAM.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						GTTCATGATCTTCTTCTGGTG	0.428										TSP Lung(17;0.13)			8	48					0	0	0.00308	0	0		A	66189893	A	A	66189893	3	1	136	1	0	0	0	0	1	0	0	0	5178	1609	56	5	64	5	EPHA5	4	66189893	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	9007568	66189893	124964383	53	74572											
STAP1	26228	broad.mit.edu	37	chr4	68441207	68441207	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttgccgaaagaggaagtAcaactgaaggtgagcgagga	14	7	15	5	2	0	3	0	2	0	1	0	7	0	5	1	3	4	2	1	3	5	3	rs140242248		TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr4:68441207A>C	uc003hde.3	+	3	379	c.297A>C	c.(295-297)GTA>GTC	p.V99V	STAP1_uc003hdf.2_Silent_p.V99V	NM_012108	NP_036240	Q9ULZ2	STAP1_HUMAN	signal transducing adaptor family member 1	99	PH.				cellular membrane fusion|intracellular protein transport	cytoplasm					0						AAGAGGAAGTACAACTGAAGG	0.393													15	38					0	0	0.00499	0	0		C	68441207	C	C	68441207	2	2	136	1	0	0	0	0	0	0	0	1	15277	378	14	5		5	STAP1	4	68441207	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	2251314	68441207	122713069	54	74573											
TMPRSS11D	9407	broad.mit.edu	37	chr4	68688159	68688159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atctccccagcttactatccCcacaataaaccaaagccgcc	13	7	3	18	1	1	0	0	0	1	0	3	0	2	0	7	0	4	1	7	0	6	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr4:68688159C>T	uc003hdq.2	-	10	1218	c.1153G>A	c.(1153-1155)GGG>AGG	p.G385R	LOC550112_uc003hdl.3_Intron|TMPRSS11D_uc003hdp.2_Missense_Mutation_p.G166R|TMPRSS11D_uc011caj.1_Missense_Mutation_p.G268R	NM_004262	NP_004253	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	385	Peptidase S1.|Extracellular (Potential).				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						CTTACTATCCCCACAATAAAC	0.478													13	69					0	0	0.020292	0	0		T	68688159	T	T	68688159	3	4	136	1	0	0	0	0	1	0	0	0	16266	623	22	4	107	4	TMPRSS11D	4	68688159	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	246952	68688159	122466117	55	74574											
EXOSC9	5393	broad.mit.edu	37	chr4	122722600	122722600	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaggaaacgccactctcAaactgcgaacgccgcttcct	12	7	8	14	4	1	1	1	1	1	0	3	3	2	2	3	1	4	1	3	1	4	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr4:122722600A>C	uc003iea.2	+	1	129	c.21A>C	c.(19-21)TCA>TCC	p.S7S	EXOSC9_uc003idz.2_Silent_p.S7S|EXOSC9_uc003ieb.2_5'Flank	NM_005033	NP_005024	Q06265	EXOS9_HUMAN	exosome component 9 isoform 2	7	ARE binding.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|immune response|nuclear mRNA surveillance|nuclear polyadenylation-dependent rRNA catabolic process|positive regulation of cell growth|rRNA processing	cytosol|nuclear exosome (RNase complex)|nucleolus|nucleolus|nucleus	3'-5'-exoribonuclease activity|AU-rich element binding|protein binding				0						CGCCACTCTCAAACTGCGAAC	0.607													3	77					0	0	0.009096	0	0		C	122722600	C	C	122722600	2	2	136	1	0	0	0	0	0	0	0	1	5329	117	5	5		5	EXOSC9	4	122722600	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	54034441	122722600	68431676	56	74575											
FAT4	79633	broad.mit.edu	37	chr4	126242602	126242602	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaaaaaactgttggacGcctctttactattggacgac	13	11	9	8	2	1	2	0	1	1	1	1	5	1	4	1	2	2	1	1	2	6	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr4:126242602G>T	uc003ifj.3	+	1	5036	c.5036G>T	c.(5035-5037)CGC>CTC	p.R1679L		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1679	Cadherin 16.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACTGTTGGACGCCTCTTTACT	0.453													23	130					3.01185e-09	3.41429e-09	0.021523	1	0		T	126242602	T	T	126242602	3	4	136	1	0	0	0	0	1	0	0	0	5706	1087	38	5	5038	5	FAT4	4	126242602	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	3520002	126242602	64911674	57	74576											
GUCY1B3	2983	broad.mit.edu	37	chr4	156696213	156696213	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggttgctgctgcaagcaaAgtcctcagtaagttgaatgc	10	12	11	8	0	1	1	1	1	0	0	2	1	2	1	1	1	5	7	1	1	4	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr4:156696213A>C	uc003ipc.2	+	3	338	c.171A>C	c.(169-171)AAA>AAC	p.K57N	GUCY1B3_uc011cio.1_Missense_Mutation_p.K57N|GUCY1B3_uc011cip.1_Missense_Mutation_p.K37N|GUCY1B3_uc003ipd.2_5'UTR|GUCY1B3_uc010iqf.2_Missense_Mutation_p.K57N|GUCY1B3_uc010iqg.2_5'UTR|GUCY1B3_uc011ciq.1_5'UTR	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	57					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		CTGCAAGCAAAGTCCTCAGTA	0.403													10	70					0	0	0.006214	0	0		C	156696213	C	C	156696213	3	2	136	1	0	0	0	0	1	0	0	0	6911	69	3	5	181	5	GUCY1B3	4	156696213	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	30453611	156696213	34458063	58	74577											
TRIM60	166655	broad.mit.edu	37	chr4	165962283	165962283	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctggccgacattactgggaAgtagaagtgggaaacaaacc	14	7	12	8	1	1	1	0	0	1	1	1	4	1	3	2	3	3	1	2	3	6	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr4:165962283A>C	uc003iqy.1	+	3	1229	c.1059A>C	c.(1057-1059)GAA>GAC	p.E353D	TRIM60_uc010iqx.1_Missense_Mutation_p.E353D	NM_152620	NP_689833	Q495X7	TRI60_HUMAN	ring finger protein 129	353	B30.2/SPRY.					intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0844)		ATTACTGGGAAGTAGAAGTGG	0.448													36	59					0	0	0.017118	0	0		C	165962283	C	C	165962283	3	2	136	1	0	0	0	0	1	0	0	0	16561	69	3	5	1061	5	TRIM60	4	165962283	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	9266070	165962283	25191993	59	74578											
SLC9A3	6550	broad.mit.edu	37	chr5	484801	484801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgccccccaggctcaccaCgaagaaggacactgggtaga	11	4	12	14	2	1	2	1	0	0	2	1	4	1	3	4	3	1	2	4	3	3	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:484801C>T	uc003jbe.2	-	5	878	c.766G>A	c.(766-768)GTG>ATG	p.V256M	SLC9A3_uc011clx.1_Missense_Mutation_p.V256M	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	256	Helical; Name=H/M6; (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			AGGCTCACCACGAAGAAGGAC	0.677													27	82					0	0	0.012213	0	0		T	484801	T	T	484801	3	4	136	1	0	0	0	0	1	0	0	0	14738	536	19	1	1790	1	SLC9A3	5	484801	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08		484801	180430459	60	74579											
CTNND2	1501	broad.mit.edu	37	chr5	10973668	10973668	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacgtagttgccggtggacTtgagacccaggtgcatggtg	8	9	15	9	2	0	1	0	1	0	1	0	3	0	2	2	4	3	3	2	4	2	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:10973668T>G	uc003jfa.1	-	22	3720	c.3575A>C	c.(3574-3576)AAG>ACG	p.K1192T	CTNND2_uc010itt.2_Missense_Mutation_p.K1101T|CTNND2_uc011cmy.1_Missense_Mutation_p.K855T|CTNND2_uc011cmz.1_Missense_Mutation_p.K759T|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.K784T	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	1192					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GCCGGTGGACTTGAGACCCAG	0.562													19	106					0	0	0.010504	0	0		G	10973668	G	G	10973668	3	3	136	1	0	0	0	0	1	0	0	0	4023	1609	56	5	106	5	CTNND2	5	10973668	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	10488867	10973668	169941592	61	74580											
RXFP3	51289	broad.mit.edu	37	chr5	33936975	33936975	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgagtggtaacgcgtcgctgCagcttccggacttgtggtgg	5	10	16	10	5	0	0	0	0	0	0	2	2	1	1	1	4	3	4	1	4	1	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:33936975C>T	uc003jic.1	+	1	487	c.130C>T	c.(130-132)CAG>TAG	p.Q44*		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	44	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CGCGTCGCTGCAGCTTCCGGA	0.667													15	127					0	0	0.006122	0	0		T	33936975	T	T	33936975	4	4	136	1	0	0	0	0	0	1	0	0	13786	711	25	2	132	2	RXFP3	5	33936975	Nonsense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	22963307	33936975	146978285	62	74581											
AGXT2	64902	broad.mit.edu	37	chr5	35047947	35047947	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctcaaggatcctgggagcGgaagtgaccaggcacaaggg	12	5	15	9	1	1	1	1	1	1	0	3	4	2	4	2	5	1	1	2	5	3	0	rs144847973		TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:35047947G>A	uc003jjf.2	-	1	130	c.51C>T	c.(49-51)TCC>TCT	p.S17S	AGXT2_uc011com.1_Silent_p.S17S|AGXT2_uc011con.1_5'UTR	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	17					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	TCCTGGGAGCGGAAGTGACCA	0.552													45	24					0	0	0.01441	0	0		A	35047947	A	A	35047947	2	1	136	1	0	0	0	0	0	0	0	1	405	1103	39	1		1	AGXT2	5	35047947	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	1110972	35047947	145867313	63	74582											
SPEF2	79925	broad.mit.edu	37	chr5	35649490	35649490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgatgaaattaagaagttcGaagcattaataaaaaaggat	20	10	8	3	1	0	3	0	2	0	1	1	5	0	4	0	1	1	2	0	1	8	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:35649490G>A	uc003jjo.2	+	6	865	c.754G>A	c.(754-756)GAA>AAA	p.E252K	SPEF2_uc003jjn.1_Missense_Mutation_p.E252K|SPEF2_uc003jjq.3_Missense_Mutation_p.E252K	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	252	Potential.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TAAGAAGTTCGAAGCATTAAT	0.318													17	130					0	0	0.028581	0	0		A	35649490	A	A	35649490	3	1	136	1	0	0	0	0	1	0	0	0	15060	1059	37	1	776	1	SPEF2	5	35649490	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	601543	35649490	145265770	64	74583											
NNT	23530	broad.mit.edu	37	chr5	43700241	43700241	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttggaattcacccagttgCaggccgaatgcctggtcagc	8	10	12	11	1	2	0	2	0	0	0	2	2	2	1	3	3	3	3	3	3	2	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:43700241C>A	uc003joe.2	+	20	3152	c.2897C>A	c.(2896-2898)GCA>GAA	p.A966E	NNT_uc003jof.2_Missense_Mutation_p.A966E	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	966	Mitochondrial matrix.|NADP.				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	CACCCAGTTGCAGGCCGAATG	0.463													27	248					1.42536e-11	1.62986e-11	0.024334	1	0		A	43700241	A	A	43700241	3	1	136	1	0	0	0	0	1	0	0	0	10529	710	25	5	2971	5	NNT	5	43700241	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	8050751	43700241	137215019	65	74584											
C5orf36	285600	broad.mit.edu	37	chr5	93856182	93856182	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagtataacttaagcatTgtactttgatatccatgagc	13	14	7	7	0	0	3	0	3	0	0	1	3	1	3	1	0	4	3	1	0	5	7			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:93856182T>A	uc011cuk.1	-	5	998	c.741A>T	c.(739-741)ACA>ACT	p.T247T	C5orf36_uc003kkp.2_Silent_p.T247T	NM_001145678	NP_001139150	Q8IV33	K0825_HUMAN	hypothetical protein LOC285600 isoform 1	247											0		all_cancers(142;2.12e-08)|all_epithelial(76;5.95e-11)|all_lung(232;0.000996)|Lung NSC(167;0.0108)|Ovarian(174;0.0218)|Colorectal(57;0.0329)|Breast(839;0.214)|Lung SC(612;0.236)		all cancers(79;3.96e-19)		ACTTAAGCATTGTACTTTGAT	0.318													11	20					0	0	0.008291	0	0		A	93856182	A	A	93856182	2	1	136	1	0	0	0	0	0	0	0	1	2298	1799	63	5		5	C5orf36	5	93856182	Silent	SNP	T	TCGA-CG-4444-01A-01D-1158-08	50155941	93856182	87059078	66	74585											
FER	2241	broad.mit.edu	37	chr5	108295030	108295031	+	Silent	DNP	GC	TT	TT																															aagaaatcaggtgtagttctGctgaatcctattcctaaggt																										TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:108295030_108295031GC>TT	uc003kop.1	+	13	2022_2023	c.1638_1639GC>TT	c.(1636-1641)CTGCTG>CTTTTG	p.546_547LL>LL	FER_uc011cvf.1_RNA|FER_uc011cvg.1_Silent_p.371_372LL>LL	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	546_547	SH2.				intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		GTGTAGTTCTGCTGAATCCTAT	0.332													19	72					0	0	0.004672	0	0		TT	108295031	TT	TT	108295030	2	4	136	1	0	0	0	0	0	0	0	1	5827	1306	46	5		5	FER	5	108295030	Silent	DNP	GC	TCGA-CG-4444-01A-01D-1158-08	14438848	108295030	72620230	67	74586											
FBN2	2201	broad.mit.edu	37	chr5	127648460	127648460	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catctcctcgaggtccaaacTtcaggtagcagttgcccaca	10	9	8	14	1	2	0	1	0	1	0	5	1	3	0	3	2	3	3	3	2	2	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:127648460T>G	uc003kuu.2	-	37	5184	c.4745A>C	c.(4744-4746)AAG>ACG	p.K1582T		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1582	TB 6.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		AGGTCCAAACTTCAGGTAGCA	0.532													129	199					0	0	0.01441	0	0		G	127648460	G	G	127648460	3	3	136	1	0	0	0	0	1	0	0	0	5717	1609	56	5	4109	5	FBN2	5	127648460	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	19353430	127648460	53266800	68	74587											
PCDHA6	56142	broad.mit.edu	37	chr5	140209052	140209052	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggcgttcgcgcagcccgAgtacacagtgttcgtgaagg	7	8	14	12	6	0	1	0	1	0	0	3	2	1	1	2	2	2	4	2	2	2	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:140209052A>G	uc003lho.2	+	1	1403	c.1376A>G	c.(1375-1377)GAG>GGG	p.E459G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.E459G|PCDHA6_uc011dab.1_Missense_Mutation_p.E459G	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	459	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGCAGCCCGAGTACACAGTG	0.662													18	52					0	0	0.007413	0	0		G	140209052	G	G	140209052	3	3	136	1	0	0	0	0	1	0	0	0	11547	304	11	3	1378	3	PCDHA6	5	140209052	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	12560592	140209052	40706208	69	74588											
PCDHA9	9752	broad.mit.edu	37	chr5	140229433	140229433	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggccgacgtgaacgacaaCgcaccagcgttcgcgcagtc	9	5	13	14	7	0	1	0	1	0	0	2	3	0	1	2	1	3	3	2	1	2	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:140229433C>T	uc003lhu.2	+	1	2077	c.1353C>T	c.(1351-1353)AAC>AAT	p.N451N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Silent_p.N451N	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	451	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAACGACAACGCACCAGCGT	0.672													35	68					0	0	0.023175	0	0		T	140229433	T	T	140229433	2	4	136	1	0	0	0	0	0	0	0	1	11550	535	19	1		1	PCDHA9	5	140229433	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	20381	140229433	40685827	70	74589											
GPR151	134391	broad.mit.edu	37	chr5	145895420	145895420	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgcagaaaacagcaggaggGagagatcagccaggctgaga	15	3	16	7	0	1	3	1	1	0	3	1	7	1	5	1	3	4	3	1	3	2	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:145895420G>T	uc003lod.1	-	1	257	c.257C>A	c.(256-258)TCC>TAC	p.S86Y		NM_194251	NP_919227	Q8TDV0	GP151_HUMAN	G protein-coupled receptor 151	86	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CAGCAGGAGGGAGAGATCAGC	0.502													9	68					6.40141e-05	7.10368e-05	0.010729	1	0		T	145895420	T	T	145895420	3	4	136	1	0	0	0	0	1	0	0	0	6672	1174	41	5	1006	5	GPR151	5	145895420	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	5665987	145895420	35019840	71	74590											
DOCK2	1794	broad.mit.edu	37	chr5	169267776	169267776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaggccttcacctaccacCatatccaggagatcatggtc	11	9	7	14	0	2	1	2	0	0	1	4	2	3	1	5	3	2	0	5	3	3	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:169267776C>T	uc003maf.2	+	27	2799	c.2719C>T	c.(2719-2721)CAT>TAT	p.H907Y	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.H399Y	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	907					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CACCTACCACCATATCCAGGA	0.483													16	21					0	0	0.00499	0	0		T	169267776	T	T	169267776	3	4	136	1	0	0	0	0	1	0	0	0	4693	594	21	4	2825	4	DOCK2	5	169267776	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	23372356	169267776	11647484	72	74591											
ZFP2	80108	broad.mit.edu	37	chr5	178359587	178359587	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcattaagaattcatccCttacagtgcatcagagaact	13	12	5	11	0	3	2	3	0	0	2	4	3	4	2	2	0	3	1	2	0	4	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr5:178359587C>A	uc003mjn.1	+	5	1782	c.1273C>A	c.(1273-1275)CTT>ATT	p.L425I	ZFP2_uc010jky.2_Missense_Mutation_p.L425I|ZFP2_uc010jkx.1_Missense_Mutation_p.L425I	NM_030613	NP_085116	Q6ZN57	ZFP2_HUMAN	zinc finger protein 2 homolog	425	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.00655)|GBM - Glioblastoma multiforme(465;0.0302)|OV - Ovarian serous cystadenocarcinoma(192;0.0615)|Epithelial(171;0.111)		GAATTCATCCCTTACAGTGCA	0.418													4	86					0.00024832	0.000272117	0.009096	1	0		A	178359587	A	A	178359587	3	1	136	1	0	0	0	0	1	0	0	0	17666	681	24	5	1275	5	ZFP2	5	178359587	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	9091811	178359587	2555673	73	74592											
CLIC5	53405	broad.mit.edu	37	chr6	45870858	45870858	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcgtttggcgacatcagcGtaggccaactcgatctcact	9	9	11	12	4	2	0	2	0	1	0	4	2	2	0	1	3	2	2	1	3	2	2	rs150143344		TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr6:45870858G>A	uc003oxv.3	-	6	1306	c.1200C>T	c.(1198-1200)TAC>TAT	p.Y400Y	CLIC5_uc003oxu.3_Silent_p.Y241Y	NM_001114086	NP_001107558	Q9NZA1	CLIC5_HUMAN	chloride intracellular channel 5 isoform a	400	GST C-terminal.				female pregnancy	actin cytoskeleton|cell cortex|chloride channel complex|Golgi apparatus|Golgi apparatus|insoluble fraction|microtubule organizing center	protein binding|voltage-gated chloride channel activity			ovary(1)|skin(1)	2						CGACATCAGCGTAGGCCAACT	0.577													23	66					0	0	0.01892	0	0		A	45870858	A	A	45870858	2	1	136	1	0	0	0	0	0	0	0	1	3532	1140	40	1		1	CLIC5	6	45870858	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08		45870858	125244209	74	74593											
PKHD1	5314	broad.mit.edu	37	chr6	51524237	51524237	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccatcacagtgagggccaAgtgaatggaaacacctgagc	15	5	11	10	0	1	3	1	3	0	0	1	4	1	4	3	2	3	0	3	2	4	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr6:51524237A>C	uc003pah.1	-	61	10963	c.10687T>G	c.(10687-10689)TTG>GTG	p.L3563V		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3563	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GTGAGGGCCAAGTGAATGGAA	0.408													16	51					0	0	0.00499	0	0		C	51524237	C	C	51524237	3	2	136	1	0	0	0	0	1	0	0	0	11990	69	3	5	1565	5	PKHD1	6	51524237	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	5653379	51524237	119590830	75	74594											
PKHD1	5314	broad.mit.edu	37	chr6	51611659	51611659	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaggtcatcgctatagcaActcttcacaaaactagaaaa	16	9	5	11	1	3	1	2	0	1	1	5	1	4	1	1	1	3	2	1	1	8	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr6:51611659A>C	uc003pah.1	-	59	10134	c.9858T>G	c.(9856-9858)AGT>AGG	p.S3286R	PKHD1_uc010jzn.1_Missense_Mutation_p.S1269R|PKHD1_uc003pai.2_Missense_Mutation_p.S3286R	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3286	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CGCTATAGCAACTCTTCACAA	0.348													10	29					0	0	0.008291	0	0		C	51611659	C	C	51611659	3	2	136	1	0	0	0	0	1	0	0	0	11990	40	2	5	2441	5	PKHD1	6	51611659	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	87422	51611659	119503408	76	74595											
DST	667	broad.mit.edu	37	chr6	56391317	56391317	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagcactgctcacttcatTaagggagtccagtaaggctt	12	10	9	10	0	2	0	2	0	0	0	3	1	3	1	1	2	2	4	1	2	3	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr6:56391317T>G	uc003pdf.2	-	63	11642	c.11614A>C	c.(11614-11616)AAT>CAT	p.N3872H	DST_uc003pcz.3_Missense_Mutation_p.N3694H|DST_uc011dxj.1_Missense_Mutation_p.N3723H|DST_uc011dxk.1_Missense_Mutation_p.N3734H|DST_uc003pcy.3_Missense_Mutation_p.N3368H	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5780					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CTCACTTCATTAAGGGAGTCC	0.423													31	189					0	0	0.013726	0	0		G	56391317	G	G	56391317	3	3	136	1	0	0	0	0	1	0	0	0	4789	1754	61	5	5553	5	DST	6	56391317	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	4779658	56391317	114723750	77	74596											
RIMS1	22999	broad.mit.edu	37	chr6	72678732	72678732	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctgcctgcaaaacaccaAgaaatgctgaaaaccagccc	15	5	7	14	0	0	2	0	1	0	1	0	2	0	2	4	0	7	3	4	0	6	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr6:72678732A>G	uc003pga.2	+	2	288	c.211A>G	c.(211-213)AGA>GGA	p.R71G		NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	71	RabBD.				calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				CAAAACACCAAGAAATGCTGA	0.453													7	70					0	0	0.00308	0	0		G	72678732	G	G	72678732	3	3	136	1	0	0	0	0	1	0	0	0	13392	64	3	3	217	3	RIMS1	6	72678732	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	16287415	72678732	98436335	78	74597											
COL12A1	1303	broad.mit.edu	37	chr6	75797317	75797317	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atagccttgcccgttgtatgGgatgctggcacactgagaag	9	10	13	9	1	0	1	0	1	0	1	0	3	0	2	2	2	3	4	2	2	3	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr6:75797317G>C	uc003phs.2	-	65	9323	c.9157C>G	c.(9157-9159)CCA>GCA	p.P3053A	COL12A1_uc003pht.2_Missense_Mutation_p.P1889A	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	3053	Nonhelical region (NC1).				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CCGTTGTATGGGATGCTGGCA	0.532													7	120					0	0	0.006214	0	0		C	75797317	C	C	75797317	3	2	136	1	0	0	0	0	1	0	0	0	3672	1232	43	5	42	5	COL12A1	6	75797317	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	3118585	75797317	95317750	79	74598											
DDO	8528	broad.mit.edu	37	chr6	110734556	110734556	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtggtatctggagtaaacTtgtctgaaatgatggtaacg	11	13	13	4	1	2	2	0	2	2	0	2	3	2	3	0	4	2	3	0	4	5	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr6:110734556T>G	uc003puc.2	-	2	198	c.194A>C	c.(193-195)AAG>ACG	p.K65T	C6orf186_uc003pub.2_5'Flank|DDO_uc003pud.2_Missense_Mutation_p.K65T	NM_003649	NP_003640	Q99489	OXDD_HUMAN	D-aspartate oxidase isoform a	37	FAD (By similarity).				aspartate catabolic process	peroxisome	binding|D-amino-acid oxidase activity|D-aspartate oxidase activity			ovary(2)|breast(1)	3		all_cancers(87;3.47e-21)|all_epithelial(87;9.03e-20)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_lung(197;2.98e-05)|Lung NSC(302;3.25e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.00327)		all cancers(137;2.54e-48)|Epithelial(106;3.11e-44)|OV - Ovarian serous cystadenocarcinoma(136;2.08e-24)|BRCA - Breast invasive adenocarcinoma(108;0.000141)|GBM - Glioblastoma multiforme(226;0.00046)		TGGAGTAAACTTGTCTGAAAT	0.517													23	219					0	0	0.01892	0	0		G	110734556	G	G	110734556	3	3	136	1	0	0	0	0	1	0	0	0	4337	1609	56	5	931	5	DDO	6	110734556	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	34937239	110734556	60380511	80	74599											
DCBLD1	285761	broad.mit.edu	37	chr6	117853437	117853437	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcagacctctttattgtgCaaagctgccatccatgcagg	9	13	8	11	0	2	1	1	0	1	1	3	1	3	1	3	1	4	3	3	1	2	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr6:117853437C>G	uc003pxs.2	+	6	725	c.600C>G	c.(598-600)TGC>TGG	p.C200W	GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxr.1_Missense_Mutation_p.C200W	NM_173674	NP_775945	Q8N8Z6	DCBD1_HUMAN	discoidin, CUB and LCCL domain containing 1	200	LCCL.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(1)	1		all_cancers(87;0.171)		GBM - Glioblastoma multiforme(226;0.0447)|OV - Ovarian serous cystadenocarcinoma(136;0.0921)|all cancers(137;0.125)		CTTTATTGTGCAAAGCTGCCA	0.388													7	151					0	0	0.001984	0	0		G	117853437	G	G	117853437	3	3	136	1	0	0	0	0	1	0	0	0	4283	718	25	5	622	5	DCBLD1	6	117853437	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	7118881	117853437	53261630	81	74600											
AKAP7	9465	broad.mit.edu	37	chr6	131520709	131520709	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatcaccgtggctccgtaAgaatgtgagtgcatgttctt	11	12	10	8	2	2	2	1	1	1	1	3	2	3	2	2	1	1	4	2	1	4	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr6:131520709A>C	uc003qck.2	+	6	731	c.698A>C	c.(697-699)AAG>ACG	p.K233T	AKAP7_uc011ebz.1_Missense_Mutation_p.K211T|AKAP7_uc003qcl.1_Missense_Mutation_p.K114T	NM_016377	NP_057461	O43687	AKA7A_HUMAN	A-kinase anchor protein 7 isoform gamma	Error:Variant_position_missing_in_O43687_after_alignment					intracellular signal transduction|ion transport	apical plasma membrane|intracellular|lateral plasma membrane	protein kinase A binding			ovary(2)	2	Breast(56;0.152)			GBM - Glioblastoma multiforme(226;0.0184)|OV - Ovarian serous cystadenocarcinoma(155;0.0345)		TGGCTCCGTAAGAATGTGAGT	0.453											OREG0017662	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	54					0	0	0.028581	0	0		C	131520709	C	C	131520709	3	2	136	1	0	0	0	0	1	0	0	0	456	72	3	5	650	5	AKAP7	6	131520709	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	13667272	131520709	39594358	82	74601											
EYA4	2070	broad.mit.edu	37	chr6	133783490	133783490	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggccctatccacacattcTttctacaccagcagctcaaa	12	10	4	15	0	3	0	1	0	2	0	4	0	4	0	3	1	3	2	3	1	4	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr6:133783490T>G	uc003qec.3	+	8	913	c.455T>G	c.(454-456)CTT>CGT	p.L152R	EYA4_uc011ecq.1_Missense_Mutation_p.L98R|EYA4_uc011ecr.1_Missense_Mutation_p.L98R|EYA4_uc003qed.3_Missense_Mutation_p.L152R|EYA4_uc003qee.3_Missense_Mutation_p.L129R|EYA4_uc011ecs.1_Missense_Mutation_p.L152R|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	152			L -> R (in a colorectal cancer sample; somatic mutation).		anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity	p.L152R(1)		large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		CCACACATTCTTTCTACACCA	0.448													45	164					0	0	0.01441	0	0		G	133783490	G	G	133783490	3	3	136	1	0	0	0	0	1	0	0	0	5339	1609	56	5	481	5	EYA4	6	133783490	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	2262781	133783490	37331577	83	74602											
BCLAF1	9774	broad.mit.edu	37	chr6	136599308	136599308	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagcaagatgaactctgActaggtggtgtagcaatagg	13	9	13	6	0	2	4	1	2	1	2	2	4	2	4	0	3	3	3	0	3	6	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr6:136599308A>C	uc003qgx.1	-	4	964	c.711T>G	c.(709-711)AGT>AGG	p.S237R	BCLAF1_uc003qgw.1_Missense_Mutation_p.S237R|BCLAF1_uc003qgy.1_Missense_Mutation_p.S235R|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.S235R	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	237					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		ATGAACTCTGACTAGGTGGTG	0.448													30	405					0	0	0.012213	0	0		C	136599308	C	C	136599308	3	2	136	1	0	0	0	0	1	0	0	0	1384	272	10	5	2091	5	BCLAF1	6	136599308	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	2815818	136599308	34515759	84	74603											
VIP	7432	broad.mit.edu	37	chr6	153076475	153076475	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtcaactttctgccaaaaAgtaccttgagtctcttatgg	10	13	9	9	0	3	1	1	1	2	0	4	1	3	1	2	2	3	1	2	2	5	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr6:153076475A>G	uc003qpe.2	+	4	474	c.302A>G	c.(301-303)AAG>AGG	p.K101R	VIP_uc003qpf.2_Missense_Mutation_p.K101R|VIP_uc010kjd.2_Missense_Mutation_p.K101R	NM_003381	NP_003372	P01282	VIP_HUMAN	vasoactive intestinal peptide isoform 1	101					body fluid secretion|G-protein coupled receptor protein signaling pathway|positive regulation of cell proliferation	extracellular region	neuropeptide hormone activity				0		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;4.5e-11)|BRCA - Breast invasive adenocarcinoma(81;0.144)		TCTGCCAAAAAGTACCTTGAG	0.313													4	76					0	0	0.021553	0	0		G	153076475	G	G	153076475	3	3	136	1	0	0	0	0	1	0	0	0	17193	72	3	3	312	3	VIP	6	153076475	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	16477167	153076475	18038592	85	74604											
SLC29A4	222962	broad.mit.edu	37	chr7	5338715	5338715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctacatgcgctttgatGtgccgcggccaagggtccag	6	8	15	12	3	0	1	0	1	0	0	1	1	1	1	4	3	3	1	4	3	2	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr7:5338715G>A	uc003sod.2	+	8	1140	c.979G>A	c.(979-981)GTG>ATG	p.V327M	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Missense_Mutation_p.V327M|SLC29A4_uc003soe.2_Missense_Mutation_p.V313M|SLC29A4_uc010ksw.2_RNA	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	327	Cytoplasmic (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		GCGCTTTGATGTGCCGCGGCC	0.716													6	11					0	0	0.001984	0	0		A	5338715	A	A	5338715	3	1	136	1	0	0	0	0	1	0	0	0	14562	1377	48	4	1005	4	SLC29A4	7	5338715	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08		5338715	153799948	86	74605											
THSD7A	221981	broad.mit.edu	37	chr7	11485942	11485942	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttacatttttccttctttTtactttttcctgtggaagag	6	23	5	7	0	1	1	0	0	1	1	3	2	3	2	2	1	2	0	2	1	3	10			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr7:11485942T>A	uc003ssf.3	-	13	3062	c.2810A>T	c.(2809-2811)AAA>ATA	p.K937I		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	937	TSP type-1 9.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TTCCTTCTTTTTACTTTTTCC	0.343										HNSCC(18;0.044)			30	165					0	0	0.009535	0	0		A	11485942	A	A	11485942	3	1	136	1	0	0	0	0	1	0	0	0	15904	1841	64	5	2223	5	THSD7A	7	11485942	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	6147227	11485942	147652721	87	74606											
ADCYAP1R1	117	broad.mit.edu	37	chr7	31132307	31132307	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtcatccttgtgcagaaacTtcagtctccagacatgggag	10	10	10	11	1	3	2	2	0	1	2	5	3	4	3	2	1	2	1	2	1	1	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr7:31132307T>G	uc003tca.1	+	13	1227	c.1004T>G	c.(1003-1005)CTT>CGT	p.L335R	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.L314R|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.L335R|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.L335R|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.L335R|ADCYAP1R1_uc003tcf.1_Missense_Mutation_p.L37R	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	335	Cytoplasmic (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						GTGCAGAAACTTCAGTCTCCA	0.453													13	65					0	0	0.016723	0	0		G	31132307	G	G	31132307	3	3	136	1	0	0	0	0	1	0	0	0	303	1609	56	5	1050	5	ADCYAP1R1	7	31132307	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	19646365	31132307	128006356	88	74607											
PCLO	27445	broad.mit.edu	37	chr7	82582652	82582652	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatttaaggtcatacttgaAgttaaagataggcctgttgg	14	13	10	4	0	1	2	1	1	0	1	1	2	1	2	1	3	1	2	1	3	7	7			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr7:82582652A>C	uc003uhx.2	-	5	7906	c.7617T>G	c.(7615-7617)ACT>ACG	p.T2539T	PCLO_uc003uhv.2_Silent_p.T2539T|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2470					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TCATACTTGAAGTTAAAGATA	0.433													47	63					0	0	0.011902	0	0		C	82582652	C	C	82582652	2	2	136	1	0	0	0	0	0	0	0	1	11602	59	3	5		5	PCLO	7	82582652	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	51450345	82582652	76556011	89	74608											
KIAA1324L	222223	broad.mit.edu	37	chr7	86522399	86522399	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atgcaccatttaggttcattCcacacatacaaggtttcctt	11	14	5	11	0	1	0	1	0	0	0	3	0	3	0	3	2	2	3	3	2	3	7			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr7:86522399C>T	uc011kha.1	-	20	2888	c.2703G>A	c.(2701-2703)TGG>TGA	p.W901*	KIAA1324L_uc003uif.1_Nonsense_Mutation_p.W661*|KIAA1324L_uc011kgz.1_Nonsense_Mutation_p.W787*|KIAA1324L_uc003uie.2_Nonsense_Mutation_p.W734*	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	901	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					TAGGTTCATTCCACACATACA	0.378													11	144					0	0	0.008291	0	0		T	86522399	T	T	86522399	4	4	136	1	0	0	0	0	0	1	0	0	8240	856	30	4	398	4	KIAA1324L	7	86522399	Nonsense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	3939747	86522399	72616264	90	74609											
GRM8	2918	broad.mit.edu	37	chr7	126173313	126173313	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaccagacaaacactccaAggagctggacggagatgagg	16	3	12	10	1	0	3	0	1	0	2	1	6	1	5	2	4	3	1	2	4	3	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr7:126173313A>T	uc003vlr.2	-	8	2434	c.2123T>A	c.(2122-2124)CTT>CAT	p.L708H	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.L708H|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	708	Helical; Name=4; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	AAACACTCCAAGGAGCTGGAC	0.522										HNSCC(24;0.065)			23	31					0	0	0.016522	0	0		T	126173313	T	T	126173313	3	4	136	1	0	0	0	0	1	0	0	0	6819	72	3	5	665	5	GRM8	7	126173313	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	39650914	126173313	32965350	91	74610											
CNTNAP2	26047	broad.mit.edu	37	chr7	146825791	146825791	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttttctcaaagataaccTttggaggcatccctttctct	8	17	5	11	0	3	1	1	0	3	1	6	2	4	2	2	2	1	1	2	2	2	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr7:146825791T>G	uc003weu.1	+	7	1462	c.946T>G	c.(946-948)TTT>GTT	p.F316V		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	316	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			AAAGATAACCTTTGGAGGCAT	0.383										HNSCC(39;0.1)			16	96					0	0	0.006122	0	0		G	146825791	G	G	146825791	3	3	136	1	0	0	0	0	1	0	0	0	3650	1609	56	5	972	5	CNTNAP2	7	146825791	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	20652478	146825791	12312872	92	74611											
GIMAP1	170575	broad.mit.edu	37	chr7	150417426	150417426	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acctgctctcggcccccggaCcccacgcgctgctcctggtg	3	7	11	20	4	1	0	0	0	1	0	3	1	2	1	6	3	2	3	6	3	0	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr7:150417426C>A	uc003whq.2	+	3	421	c.334C>A	c.(334-336)CCC>ACC	p.P112T	GIMAP1_uc003whp.2_Missense_Mutation_p.P120T	NM_130759	NP_570115	Q8WWP7	GIMA1_HUMAN	GTPase, IMAP family member 1	112	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGCCCCCGGACCCCACGCGCT	0.627													29	33					9.04072e-19	1.06148e-18	0.015359	1	0		A	150417426	A	A	150417426	3	1	136	1	0	0	0	0	1	0	0	0	6394	507	18	5	340	5	GIMAP1	7	150417426	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	3591635	150417426	8721237	93	74612											
NOS3	4846	broad.mit.edu	37	chr7	150707215	150707215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atccccaggtggccctccccCcggctgggtgcgggaccccc	3	5	13	20	2	0	0	0	0	0	0	2	1	2	1	8	5	1	1	8	5	0	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr7:150707215C>T	uc003wif.2	+	21	2821	c.2525C>T	c.(2524-2526)CCC>CTC	p.P842L	NOS3_uc011kuy.1_Missense_Mutation_p.P636L	NM_000603	NP_000594	P29474	NOS3_HUMAN	nitric oxide synthase 3 isoform 1	842	FAD-binding FR-type.				anti-apoptosis|arginine catabolic process|blood vessel remodeling|endothelial cell migration|mitochondrion organization|negative regulation of muscle hyperplasia|negative regulation of platelet activation|nitric oxide biosynthetic process|platelet activation|positive regulation of angiogenesis|positive regulation of guanylate cyclase activity|positive regulation of vasodilation|regulation of blood vessel size|regulation of nitric-oxide synthase activity|regulation of systemic arterial blood pressure by endothelin|response to fluid shear stress|response to heat|smooth muscle hyperplasia	caveola|cytoskeleton|cytosol|Golgi membrane	actin monomer binding|arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			central_nervous_system(5)|large_intestine(2)|skin(1)	8	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	L-Arginine(DB00125)|L-Citrulline(DB00155)|Rosuvastatin(DB01098)|Tetrahydrobiopterin(DB00360)	GGCCCTCCCCCCGGCTGGGTG	0.657													6	47					0	0	0.008291	0	0		T	150707215	T	T	150707215	3	4	136	1	0	0	0	0	1	0	0	0	10563	623	22	4	2885	4	NOS3	7	150707215	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	289789	150707215	8431448	94	74613											
CLVS1	157807	broad.mit.edu	37	chr8	62212731	62212731	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaacttcaaggcagatgaTcccggcattaagagggctct	14	8	10	9	1	2	3	1	1	1	2	3	3	3	3	1	3	1	3	1	3	4	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr8:62212731T>C	uc003xuh.2	+	2	669	c.345T>C	c.(343-345)GAT>GAC	p.D115D	CLVS1_uc003xug.2_Silent_p.D115D|CLVS1_uc003xui.2_Intron|CLVS1_uc010lyp.2_Silent_p.D115D	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1	115					lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						AGGCAGATGATCCCGGCATTA	0.512													12	39					0	0	0.013537	0	0		C	62212731	C	C	62212731	2	2	136	1	0	0	0	0	0	0	0	1	3574	1432	50	3		3	CLVS1	8	62212731	Silent	SNP	T	TCGA-CG-4444-01A-01D-1158-08		62212731	84151291	95	74614											
PRDM14	63978	broad.mit.edu	37	chr8	70981820	70981820	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcttgctgtaccagggCagatcgtagagaggctccct	8	8	14	11	1	0	2	0	0	0	2	2	3	1	2	2	3	3	7	2	3	2	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr8:70981820C>A	uc003xym.2	-	2	478	c.276G>T	c.(274-276)CTG>CTT	p.L92L		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	92					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			TGTACCAGGGCAGATCGTAGA	0.677													56	11					4.1673e-28	4.93694e-28	0.01441	1	0		A	70981820	A	A	70981820	2	1	136	1	0	0	0	0	0	0	0	1	12477	697	25	5		5	PRDM14	8	70981820	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	8769089	70981820	75382202	96	74615											
PGCP	10404	broad.mit.edu	37	chr8	97797431	97797431	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaagatgggctggagaaAgttcacctggagccagtgag	12	6	15	8	0	1	3	1	1	0	2	1	5	1	4	2	3	2	3	2	3	2	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr8:97797431A>G	uc003yhw.2	+	2	472	c.306A>G	c.(304-306)AAA>AAG	p.K102K	PGCP_uc010mbe.2_Silent_p.K102K	NM_016134	NP_057218	Q9Y646	PGCP_HUMAN	plasma glutamate carboxypeptidase precursor	102					peptide metabolic process|proteolysis	cytoplasm|extracellular space	metal ion binding|metallocarboxypeptidase activity			upper_aerodigestive_tract(1)	1	Breast(36;1.86e-05)					GGCTGGAGAAAGTTCACCTGG	0.488													7	64					0	0	0.00308	0	0		G	97797431	G	G	97797431	2	3	136	1	0	0	0	0	0	0	0	1	11805	69	3	3		3	PGCP	8	97797431	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	26815611	97797431	48566591	97	74616											
VPS13B	157680	broad.mit.edu	37	chr8	100861067	100861067	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacatcagtgtggcacagtcTtcatcactgtggccccagaa	10	10	9	12	0	4	1	3	0	1	1	4	1	4	1	2	2	1	1	2	2	2	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr8:100861067T>G	uc003yiv.2	+	55	10192	c.10081T>G	c.(10081-10083)TTC>GTC	p.F3361V	VPS13B_uc003yiw.2_Missense_Mutation_p.F3336V	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3361					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TGGCACAGTCTTCATCACTGT	0.393													34	685					0	0	0.027894	0	0		G	100861067	G	G	100861067	3	3	136	1	0	0	0	0	1	0	0	0	17216	1609	56	5	10489	5	VPS13B	8	100861067	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	3063636	100861067	45502955	98	74617											
DNAI1	27019	broad.mit.edu	37	chr9	34506802	34506802	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtggccatttacaacctcaAgaagccccactcccagccct	10	7	6	18	1	1	1	1	0	0	1	2	1	2	1	6	1	4	0	6	1	4	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr9:34506802A>C	uc003zum.2	+	13	1434	c.1241A>C	c.(1240-1242)AAG>ACG	p.K414T		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	414	WD 1.				cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)		TACAACCTCAAGAAGCCCCAC	0.607									Kartagener_syndrome				6	268					0	0	0.004482	0	0		C	34506802	C	C	34506802	3	2	136	1	0	0	0	0	1	0	0	0	4615	72	3	5	1291	5	DNAI1	9	34506802	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08		34506802	106706629	99	74618											
IL11RA	3590	broad.mit.edu	37	chr9	34660279	34660279	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccttcctttagggaccataCcaaaggagataccagcatgg	12	8	10	11	0	0	1	0	0	0	1	1	3	1	2	5	3	3	1	5	3	4	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr9:34660279C>G	uc003zvi.2	+	10	2317	c.961C>G	c.(961-963)CCA>GCA	p.P321A	IL11RA_uc011loq.1_Missense_Mutation_p.P321A|IL11RA_uc003zvj.2_Missense_Mutation_p.P321A|IL11RA_uc003zvk.2_Missense_Mutation_p.P321A|IL11RA_uc010mke.2_Missense_Mutation_p.P203A|IL11RA_uc003zvl.2_RNA	NM_004512	NP_004503	Q14626	I11RA_HUMAN	interleukin 11 receptor, alpha isoform 1	321	Extracellular (Potential).					integral to plasma membrane	cytokine receptor activity			skin(1)	1	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.174)	Oprelvekin(DB00038)	AGGGACCATACCAAAGGAGAT	0.602													10	349					0	0	0.010729	0	0		G	34660279	G	G	34660279	3	3	136	1	0	0	0	0	1	0	0	0	7639	507	18	5	995	5	IL11RA	9	34660279	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	153477	34660279	106553152	100	74619											
NIPSNAP3A	25934	broad.mit.edu	37	chr9	107513407	107513407	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatactggagtgtagaattTggaggcagaatgaatacagt	14	10	14	3	0	0	3	0	1	0	2	0	6	0	6	0	4	2	2	0	4	6	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr9:107513407T>C	uc004bch.1	+	2	336	c.231T>C	c.(229-231)TTT>TTC	p.F77F	NIPSNAP3A_uc011lvt.1_Silent_p.F77F|NIPSNAP3A_uc011lvu.1_Silent_p.F77F	NM_015469	NP_056284	Q9UFN0	NPS3A_HUMAN	nipsnap homolog 3A	77						cytosol					0						GTGTAGAATTTGGAGGCAGAA	0.358													14	214					0	0	0.006122	0	0		C	107513407	C	C	107513407	2	2	136	1	0	0	0	0	0	0	0	1	10449	1809	63	3		3	NIPSNAP3A	9	107513407	Silent	SNP	T	TCGA-CG-4444-01A-01D-1158-08	72853128	107513407	33700024	101	74620											
PAPPA	5069	broad.mit.edu	37	chr9	119106909	119106909	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctccagcagcgaccgctaCcacggtgcccagtgtactgt	7	8	11	15	3	0	0	0	0	0	0	1	1	1	0	4	1	6	4	4	1	2	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr9:119106909C>A	uc004bjn.2	+	14	4080	c.3699C>A	c.(3697-3699)TAC>TAA	p.Y1233*	PAPPA_uc011lxq.1_Nonsense_Mutation_p.Y608*	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1233	Sushi 1.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GCGACCGCTACCACGGTGCCC	0.577													19	69					2.94398e-08	3.30884e-08	0.007413	1	0		A	119106909	A	A	119106909	4	1	136	1	0	0	0	0	0	1	0	0	11451	518	18	5	3753	5	PAPPA	9	119106909	Nonsense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	11593502	119106909	22106522	102	74621											
PHF19	26147	broad.mit.edu	37	chr9	123620323	123620323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctccccacaggccaaccGcccagctgcaccaaagtagt	10	6	7	18	1	1	0	0	0	1	0	2	0	1	0	6	1	3	3	6	1	3	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr9:123620323G>A	uc004bks.1	-	15	1895	c.1642C>T	c.(1642-1644)CGG>TGG	p.R548W	PHF19_uc011lyf.1_Missense_Mutation_p.R339W|PHF19_uc004bkr.2_RNA	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a	548					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						CAGGCCAACCGCCCAGCTGCA	0.557													24	81					0	0	0.00632	0	0		A	123620323	A	A	123620323	3	1	136	1	0	0	0	0	1	0	0	0	11848	1086	38	1	104	1	PHF19	9	123620323	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	4513414	123620323	17593108	103	74622											
NACC2	138151	broad.mit.edu	37	chr9	138903451	138903451	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgcccccgccctgctcaaAgggctgtggggggctctggc	3	6	16	16	2	2	0	1	0	1	0	2	0	2	0	4	5	1	3	4	5	1	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr9:138903451A>G	uc004cgw.2	-	6	1831	c.1675T>C	c.(1675-1677)TTT>CTT	p.F559L	NACC2_uc010nbh.2_Missense_Mutation_p.F198L|uc004cgv.3_5'Flank	NM_144653	NP_653254	Q96BF6	NACC2_HUMAN	BTB (POZ) domain containing 14A	559					negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|protein homooligomerization	nuclear body					0						cccTGCTCAAAGGGCTGTGGG	0.542													3	3					0	0	0.00308	0	0		G	138903451	G	G	138903451	3	3	136	1	0	0	0	0	1	0	0	0	10154	72	3	3	92	3	NACC2	9	138903451	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	15283128	138903451	2309980	104	74623											
SFMBT2	57713	broad.mit.edu	37	chr10	7214510	7214510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacctccgtttcttctgcaCgaaaatggatttccgtcgct	8	13	8	12	4	2	1	0	0	2	1	5	3	4	2	3	1	1	3	3	1	2	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr10:7214510C>T	uc009xio.1	-	18	2189	c.2098G>A	c.(2098-2100)GTG>ATG	p.V700M	SFMBT2_uc001ijn.1_Missense_Mutation_p.V700M|SFMBT2_uc010qay.1_Missense_Mutation_p.V535M	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	700					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						TTCTTCTGCACGAAAATGGAT	0.607													12	62					0	0	0.010729	0	0		T	7214510	T	T	7214510	3	4	136	1	0	0	0	0	1	0	0	0	14183	536	19	1	602	1	SFMBT2	10	7214510	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08		7214510	128320237	105	74624											
ITIH2	3698	broad.mit.edu	37	chr10	7773950	7773950	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaatagagagcgttatcacGgcgacttcggtacttccact	11	10	9	11	4	1	1	1	0	0	1	3	3	2	1	1	2	2	2	1	2	4	5	rs150260189		TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr10:7773950G>A	uc001ijs.2	+	13	1800	c.1638G>A	c.(1636-1638)ACG>ACA	p.T546T		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	546					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						GCGTTATCACGGCGACTTCGG	0.438													5	180					0	0	0.021553	0	0		A	7773950	A	A	7773950	2	1	136	1	0	0	0	0	0	0	0	1	7920	1103	39	1		1	ITIH2	10	7773950	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	559440	7773950	127760797	106	74625											
CCDC3	83643	broad.mit.edu	37	chr10	13040500	13040500	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtgaggcaagaggttataAttttcatccatcctaatgga	12	12	9	8	1	1	2	1	1	0	1	3	3	3	3	3	3	0	2	3	3	4	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr10:13040500A>C	uc001ilq.1	-	2	521	c.387T>G	c.(385-387)AAT>AAG	p.N129K	CCDC3_uc009xjb.1_Intron|CCDC3_uc001ilr.2_RNA|CCDC3_uc009xjc.1_Intron	NM_031455	NP_113643	Q9BQI4	CCDC3_HUMAN	coiled-coil domain containing 3 precursor	129						endoplasmic reticulum|extracellular region				ovary(1)	1		Ovarian(717;0.0822)	BRCA - Breast invasive adenocarcinoma(52;0.163)			AGAGGTTATAATTTTCATCCA	0.448													36	113					0	0	0.025465	0	0		C	13040500	C	C	13040500	3	2	136	1	0	0	0	0	1	0	0	0	2807	98	4	5	433	5	CCDC3	10	13040500	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	5266550	13040500	122494247	107	74626											
MPP7	143098	broad.mit.edu	37	chr10	28348658	28348658	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcactctcctggcttcttcTtgctctggtggtatctatga	5	17	8	11	0	6	1	1	1	5	0	7	1	6	1	1	3	1	3	1	3	2	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr10:28348658T>A	uc001iua.1	-	16	1623	c.1219A>T	c.(1219-1221)AGA>TGA	p.R407*	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Nonsense_Mutation_p.R407*|MPP7_uc009xla.2_Nonsense_Mutation_p.R407*|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	407	Guanylate kinase-like.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						TGGCTTCTTCTTGCTCTGGTG	0.338													21	122					0	0	0.012319	0	0		A	28348658	A	A	28348658	4	1	136	1	0	0	0	0	0	1	0	0	9757	1617	56	5	527	5	MPP7	10	28348658	Nonsense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	15308158	28348658	107186089	108	74627											
PLA2G12B	84647	broad.mit.edu	37	chr10	74714363	74714363	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtctgaataggactcctcCgtgtcagggctcgtgtcgct	6	11	12	12	3	2	1	1	1	1	0	6	2	4	2	2	2	0	2	2	2	2	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr10:74714363C>T	uc001jtf.1	-	1	148	c.81G>A	c.(79-81)ACG>ACA	p.T27T	PLA2G12B_uc009xqt.1_5'UTR|PLA2G12B_uc010qjz.1_Silent_p.T27T	NM_032562	NP_115951	Q9BX93	PG12B_HUMAN	phospholipase A2, group XIIB precursor	27					lipid catabolic process	extracellular region	calcium ion binding|phospholipase A2 activity			ovary(1)	1	Prostate(51;0.0198)					AGGACTCCTCCGTGTCAGGGC	0.577													26	326					0	0	0.027356	0	0		T	74714363	T	T	74714363	2	4	136	1	0	0	0	0	0	0	0	1	12010	639	23	1		1	PLA2G12B	10	74714363	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	46365705	74714363	60820384	109	74628											
LIPF	8513	broad.mit.edu	37	chr10	90427343	90427343	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagtcagatgattacttaTtggggatacccaaatgaaga	15	10	10	6	0	1	5	1	2	0	3	1	6	1	6	1	2	2	0	1	2	5	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr10:90427343T>C	uc001kfg.1	+	3	289	c.123T>C	c.(121-123)TAT>TAC	p.Y41Y	LIPF_uc009xtk.2_Silent_p.Y41Y|LIPF_uc001kfh.1_Silent_p.Y51Y|LIPF_uc010qmt.1_Silent_p.Y51Y|LIPF_uc010qmu.1_Silent_p.Y41Y	NM_004190	NP_004181	P07098	LIPG_HUMAN	lipase, gastric precursor	41					lipid catabolic process|triglyceride metabolic process	extracellular region	lipid binding|triglyceride lipase activity				0		Colorectal(252;0.0161)		Colorectal(12;3.91e-05)|COAD - Colon adenocarcinoma(12;5.43e-05)		TGATTACTTATTGGGGATACC	0.284													25	31					0	0	0.024334	0	0		C	90427343	C	C	90427343	2	2	136	1	0	0	0	0	0	0	0	1	8839	1500	52	3		3	LIPF	10	90427343	Silent	SNP	T	TCGA-CG-4444-01A-01D-1158-08	15712980	90427343	45107404	110	74629											
XPNPEP1	7511	broad.mit.edu	37	chr10	111667564	111667565	+	Missense_Mutation	DNP	AT	CA	CA																															ctgaagtcacctttggaggcAttctgccgtctgcaacaaca																										TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr10:111667564_111667565AT>CA	uc001kyp.1	-	3	141_142	c.1_2AT>TG	c.(1-3)ATG>TGG	p.M1W	XPNPEP1_uc009xxt.1_Missense_Mutation_p.M44W|XPNPEP1_uc001kyq.1_Translation_Start_Site|XPNPEP1_uc010qrb.1_Missense_Mutation_p.M44W	NM_020383	NP_065116	Q9NQW7	XPP1_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 1,	1					bradykinin catabolic process|proteolysis		manganese ion binding|metalloaminopeptidase activity|protein homodimerization activity			ovary(3)|pancreas(1)	4		Breast(234;0.174)		Epithelial(162;1.64e-05)|all cancers(201;0.000564)|BRCA - Breast invasive adenocarcinoma(275;0.0721)		CTTTGGAGGCATTCTGCCGTCT	0.53													15	113					0	0	0.004672	0	0		CA	111667565	CA	CA	111667564	3	2	136	1	0	0	0	0	1	0	0	0	17468	217	8	5	1945	5	XPNPEP1	10	111667564	Missense_Mutation	DNP	AT	TCGA-CG-4444-01A-01D-1158-08	21240221	111667564	23867183	111	74630											
NLRP10	338322	broad.mit.edu	37	chr11	7982304	7982304	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgatgagaagggagcaCgtggggagtgtatgtctcct	8	10	18	5	1	1	2	0	2	1	1	2	5	1	4	1	4	1	2	1	4	2	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:7982304C>T	uc001mfv.1	-	2	872	c.855G>A	c.(853-855)ACG>ACA	p.T285T		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	285	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GAAGGGAGCACGTGGGGAGTG	0.532													61	50					0	0	0.01441	0	0		T	7982304	T	T	7982304	2	4	136	1	0	0	0	0	0	0	0	1	10491	523	19	1		1	NLRP10	11	7982304	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08		7982304	127024212	112	74631											
SCUBE2	57758	broad.mit.edu	37	chr11	9087507	9087507	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggtgttgctctctgtcacctCcaggacagtgtcctctcgct	4	13	10	14	1	3	0	1	0	2	0	7	1	5	1	3	2	1	3	3	2	0	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:9087507C>G	uc001mhh.1	-	7	861	c.781G>C	c.(781-783)GAG>CAG	p.E261Q	SCUBE2_uc001mhi.1_Missense_Mutation_p.E261Q|SCUBE2_uc001mhj.1_Missense_Mutation_p.E261Q	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	261						extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		TCTGTCACCTCCAGGACAGTG	0.517													4	30					0	0	0.014758	0	0		G	9087507	G	G	9087507	3	3	136	1	0	0	0	0	1	0	0	0	13970	864	30	5	2373	5	SCUBE2	11	9087507	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	1105203	9087507	125919009	113	74632											
RPS13	6207	broad.mit.edu	37	chr11	17099222	17099222	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggcaacgaaaggagagcgaGagtggaaacgccgcaggaag	16	1	17	7	4	0	2	0	0	0	2	0	7	0	4	1	4	3	2	1	4	4	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:17099222G>C	uc001mmp.2	-	1	1	c.-31_splice	c.e1-1			NM_001017	NP_001008	P62277	RS13_HUMAN	ribosomal protein S13						endocrine pancreas development|negative regulation of RNA splicing|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	mRNA binding|protein binding|structural constituent of ribosome				0						AGGAGAGCGAGAGTGGAAACG	0.662													16	9					0	0	0.00499	0	0		C	17099222	C	C	17099222	5	2	136	1	0	0	0	0	0	0	1	0	13648	957	33	5		5	RPS13	11	17099222	Splice_Site	SNP	G	TCGA-CG-4444-01A-01D-1158-08	8011715	17099222	117907294	114	74633											
AGBL2	79841	broad.mit.edu	37	chr11	47712259	47712259	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagagtggcttcatccctaCagtataaagactcttgggtt	11	12	9	9	0	2	2	1	0	1	2	3	2	3	2	1	2	1	3	1	2	5	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:47712259C>G	uc001ngg.2	-	9	1100	c.1000G>C	c.(1000-1002)GTA>CTA	p.V334L	AGBL2_uc001ngf.2_RNA|AGBL2_uc010rhq.1_Missense_Mutation_p.V296L|AGBL2_uc001ngh.1_Missense_Mutation_p.V278L	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	334					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						TTCATCCCTACAGTATAAAGA	0.423													18	101					0	0	0.007413	0	0		G	47712259	G	G	47712259	3	3	136	1	0	0	0	0	1	0	0	0	376	478	17	5	1748	5	AGBL2	11	47712259	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	30613037	47712259	87294257	115	74634											
OR4C16	219428	broad.mit.edu	37	chr11	55340006	55340006	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcactacatgaccatcataAgccagtgggtctgtggtgtt	9	12	11	9	0	2	1	1	1	1	0	2	1	2	1	2	2	3	2	2	2	2	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:55340006A>C	uc010rih.1	+	1	403	c.403A>C	c.(403-405)AGC>CGC	p.S135R		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				GACCATCATAAGCCAGTGGGT	0.507													8	212					0	0	0.00308	0	0		C	55340006	C	C	55340006	3	2	136	1	0	0	0	0	1	0	0	0	11068	72	3	5	405	5	OR4C16	11	55340006	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	7627747	55340006	79666510	116	74635											
OR8H2	390151	broad.mit.edu	37	chr11	55872685	55872685	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccgcctggacctccagcTtcacactcccatgtattttt	8	13	5	15	1	1	0	1	0	0	0	4	1	4	1	5	1	1	2	5	1	2	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:55872685T>C	uc010riy.1	+	1	167	c.167T>C	c.(166-168)CTT>CCT	p.L56P		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					GACCTCCAGCTTCACACTCCC	0.428										HNSCC(53;0.14)			7	370					0	0	0.006214	0	0		C	55872685	C	C	55872685	3	2	136	1	0	0	0	0	1	0	0	0	11257	1609	56	3	169	3	OR8H2	11	55872685	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	532679	55872685	79133831	117	74636											
OR8H3	390152	broad.mit.edu	37	chr11	55890015	55890015	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccgcctggacctccagcTtcacactcccatgtattttt	8	13	5	15	1	1	0	1	0	0	0	4	1	4	1	5	1	1	2	5	1	2	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:55890015T>C	uc001nii.1	+	1	167	c.167T>C	c.(166-168)CTT>CCT	p.L56P		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					GACCTCCAGCTTCACACTCCC	0.438													8	548					0	0	0.004482	0	0		C	55890015	C	C	55890015	3	2	136	1	0	0	0	0	1	0	0	0	11258	1609	56	3	169	3	OR8H3	11	55890015	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	17330	55890015	79116501	118	74637											
OR5T1	390155	broad.mit.edu	37	chr11	56043388	56043389	+	Nonsense_Mutation	DNP	AA	TG	TG																															attctacagttgtcactccaAaaatgttggtcaatttcctg																										TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:56043388_56043389AA>TG	uc001nio.1	+	1	274_275	c.274_275AA>TG	c.(274-276)AAA>TGA	p.K92*		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TGTCACTCCAAAAATGTTGGTC	0.371													4	110					0	0	0.004672	0	0		TG	56043389	TG	TG	56043388	4	4	136	1	0	0	0	0	0	1	0	0	11200	15	1	5	276	5	OR5T1	11	56043388	Nonsense_Mutation	DNP	AA	TCGA-CG-4444-01A-01D-1158-08	153373	56043388	78963128	119	74638											
OR5T1	390155	broad.mit.edu	37	chr11	56043951	56043951	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaccaagttccagctacacTtcggacaatgacatgatagt	14	9	8	10	1	0	3	0	2	0	1	2	4	1	4	2	1	2	2	2	1	4	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:56043951T>G	uc001nio.1	+	1	837	c.837T>G	c.(835-837)ACT>ACG	p.T279T		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	279	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					CCAGCTACACTTCGGACAATG	0.413													35	198					0	0	0.021022	0	0		G	56043951	G	G	56043951	2	3	136	1	0	0	0	0	0	0	0	1	11200	1596	56	5		5	OR5T1	11	56043951	Silent	SNP	T	TCGA-CG-4444-01A-01D-1158-08	563	56043951	78962565	120	74639											
ATG16L2	89849	broad.mit.edu	37	chr11	72533143	72533143	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagaggcgcgggcgcagcaGgcccagcaggtggaggagtg	8	2	21	10	4	0	1	0	0	0	1	0	4	0	3	1	6	2	3	1	6	0	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:72533143G>A	uc001otd.2	+	5	487	c.447G>A	c.(445-447)CAG>CAA	p.Q149Q	ATG16L2_uc010rrf.1_Intron|ATG16L2_uc001ote.2_Silent_p.Q43Q|ATG16L2_uc009ytj.1_Intron|ATG16L2_uc001otf.2_5'Flank|ATG16L2_uc001otg.2_5'Flank|ATG16L2_uc009ytk.2_5'Flank	NM_033388	NP_203746	Q8NAA4	A16L2_HUMAN	ATG16 autophagy related 16-like 2	149	Potential.				autophagy|protein transport	cytoplasm	protein binding				0			BRCA - Breast invasive adenocarcinoma(5;2.73e-06)			GGGCGCAGCAGGCCCAGCAGG	0.746													3	5					0	0	0.021553	0	0		A	72533143	A	A	72533143	2	1	136	1	0	0	0	0	0	0	0	1	1093	991	35	4		4	ATG16L2	11	72533143	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	16489192	72533143	62473373	121	74640											
FAM168A	23201	broad.mit.edu	37	chr11	73120596	73120596	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaccgttggtcctcggggcGgcaacaggtgctgggtagat	7	8	16	10	3	0	1	0	0	0	1	2	1	1	1	2	6	2	4	2	6	2	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:73120596G>A	uc001otz.1	-	7	837	c.558C>T	c.(556-558)GCC>GCT	p.A186A	FAM168A_uc001oty.1_Silent_p.A177A|FAM168A_uc009ytp.1_Intron	NM_015159	NP_055974	Q92567	F168A_HUMAN	hypothetical protein LOC23201	186											0						TCCTCGGGGCGGCAACAGGTG	0.582													42	90					0	0	0.010771	0	0		A	73120596	A	A	73120596	2	1	136	1	0	0	0	0	0	0	0	1	5496	1103	39	1		1	FAM168A	11	73120596	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	587453	73120596	61885920	122	74641											
ODZ4	26011	broad.mit.edu	37	chr11	78412964	78412964	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgaggaaaggcttgttcTtccggataaaccgaattcgg	10	12	12	7	3	1	1	0	1	1	0	3	4	2	3	2	4	1	3	2	4	4	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:78412964T>G	uc001ozl.3	-	28	5157	c.4694A>C	c.(4693-4695)AAG>ACG	p.K1565T	ODZ4_uc009yvb.1_Missense_Mutation_p.K149T	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1565	NHL 5.|Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						AGGCTTGTTCTTCCGGATAAA	0.498													40	88					0	0	0.010771	0	0		G	78412964	G	G	78412964	3	3	136	1	0	0	0	0	1	0	0	0	10856	1609	56	5	3643	5	ODZ4	11	78412964	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	5292368	78412964	56593552	123	74642											
FAT3	120114	broad.mit.edu	37	chr11	92533457	92533457	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcagacagctctgatttTgaccggttggaatatagcat	11	12	11	7	1	1	3	0	2	1	1	1	5	1	4	1	2	3	4	1	2	3	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:92533457T>C	uc001pdj.3	+	9	7295	c.7278T>C	c.(7276-7278)TTT>TTC	p.F2426F		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2426	Cadherin 22.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GCTCTGATTTTGACCGGTTGG	0.453										TCGA Ovarian(4;0.039)			9	66					0	0	0.008291	0	0		C	92533457	C	C	92533457	2	2	136	1	0	0	0	0	0	0	0	1	5705	1809	63	3		3	FAT3	11	92533457	Silent	SNP	T	TCGA-CG-4444-01A-01D-1158-08	14120493	92533457	42473059	124	74643											
FAT3	120114	broad.mit.edu	37	chr11	92533693	92533693	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcacatacgtagctgaggTgagagagaacgtggctgcag	13	6	15	7	2	0	3	0	2	0	2	0	5	0	3	0	2	5	5	0	2	4	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr11:92533693T>G	uc001pdj.3	+	9	7531	c.7514T>G	c.(7513-7515)GTG>GGG	p.V2505G		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2505	Cadherin 23.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GTAGCTGAGGTGAGAGAGAAC	0.493										TCGA Ovarian(4;0.039)			10	28					0	0	0.006214	0	0		G	92533693	G	G	92533693	3	3	136	1	0	0	0	0	1	0	0	0	5705	1696	59	5	7548	5	FAT3	11	92533693	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	236	92533693	42472823	125	74644											
LRTM2	654429	broad.mit.edu	37	chr12	1943438	1943438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttctgcatgtagggggaCgcttggaccagcttgcctgc	5	11	13	12	1	2	0	0	0	2	0	2	2	2	2	2	3	4	4	2	3	1	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:1943438C>T	uc001qjt.2	+	5	1470	c.664C>T	c.(664-666)CGC>TGC	p.R222C	CACNA2D4_uc001qjp.2_Intron|CACNA2D4_uc009zds.1_Intron|CACNA2D4_uc009zdt.1_Intron|CACNA2D4_uc009zdr.1_Intron|LRTM2_uc001qju.2_Missense_Mutation_p.R222C|LRTM2_uc010sdx.1_Missense_Mutation_p.R222C|LRTM2_uc001qjv.2_Translation_Start_Site	NM_001039029	NP_001034118	Q8N967	LRTM2_HUMAN	leucine-rich repeats and transmembrane domains 2	222	LRRCT.|Extracellular (Potential).					integral to membrane				large_intestine(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000834)			TGTAGGGGGACGCTTGGACCA	0.592													15	62					0	0	0.00499	0	0		T	1943438	T	T	1943438	3	4	136	1	0	0	0	0	1	0	0	0	9063	536	19	1	674	1	LRTM2	12	1943438	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08		1943438	131908457	126	74645											
PARP11	57097	broad.mit.edu	37	chr12	3938171	3938171	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcgatatcttcactgctaActgaacactgactgttggta	10	15	7	9	1	2	2	1	2	1	0	3	3	2	2	0	1	3	3	0	1	4	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:3938171A>G	uc001qmk.1	-	2	207	c.152T>C	c.(151-153)GTT>GCT	p.V51A	PARP11_uc001qml.2_Missense_Mutation_p.V58A|PARP11_uc009zef.2_RNA|PARP11_uc001qmm.2_Intron|PARP11_uc001qmn.2_Intron	NM_020367	NP_065100	Q9NR21	PAR11_HUMAN	poly (ADP-ribose) polymerase family, member 11	51	WWE.						NAD+ ADP-ribosyltransferase activity			ovary(1)|central_nervous_system(1)	2			all cancers(3;1.58e-07)|OV - Ovarian serous cystadenocarcinoma(31;0.00287)|GBM - Glioblastoma multiforme(3;0.0141)|COAD - Colon adenocarcinoma(12;0.0264)			TTCACTGCTAACTGAACACTG	0.403													5	220					0	0	0.021553	0	0		G	3938171	G	G	3938171	3	3	136	1	0	0	0	0	1	0	0	0	11475	43	2	3	867	3	PARP11	12	3938171	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	1994733	3938171	129913724	127	74646											
CLSTN3	9746	broad.mit.edu	37	chr12	7301586	7301586	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgcttcagcgaagagtcCtgcgtctccatccctgaagt	8	10	11	12	2	2	2	1	1	1	1	5	3	4	2	3	1	3	1	3	1	2	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:7301586C>A	uc001qsr.2	+	13	2144	c.1866C>A	c.(1864-1866)TCC>TCA	p.S622S	CLSTN3_uc001qss.2_Silent_p.S634S	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	622	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						GCGAAGAGTCCTGCGTCTCCA	0.587													4	64					0.00909568	0.00976393	0.009096	1	0		A	7301586	A	A	7301586	2	1	136	1	0	0	0	0	0	0	0	1	3566	668	24	5		5	CLSTN3	12	7301586	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	3363415	7301586	126550309	128	74647											
NECAP1	25977	broad.mit.edu	37	chr12	8242551	8242551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggcctctgactggaaattaGaccagcctgattggactggt	9	10	13	9	0	1	3	0	2	1	1	1	5	1	5	3	4	1	0	3	4	2	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:8242551G>A	uc001qtx.2	+	2	193	c.115G>A	c.(115-117)GAC>AAC	p.D39N	NECAP1_uc001qty.2_5'UTR	NM_015509	NP_056324	Q8NC96	NECP1_HUMAN	NECAP endocytosis associated 1	39					endocytosis|protein transport	clathrin coated vesicle membrane|plasma membrane				ovary(1)	1				Kidney(36;0.0915)		CTGGAAATTAGACCAGCCTGA	0.463													14	174					0	0	0.024245	0	0		A	8242551	A	A	8242551	3	1	136	1	0	0	0	0	1	0	0	0	10326	942	33	4	121	4	NECAP1	12	8242551	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	940965	8242551	125609344	129	74648											
A2ML1	144568	broad.mit.edu	37	chr12	8975277	8975277	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctccttctaggaatgttGgccctatcaccagccattgc	8	11	8	14	0	2	0	1	0	1	0	3	1	3	1	4	2	3	2	4	2	3	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:8975277G>A	uc001quz.3	+	1	128	c.30G>A	c.(28-30)TTG>TTA	p.L10L		NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	Error:Variant_position_missing_in_B3KVV6_after_alignment						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TAGGAATGTTGGCCCTATCAC	0.478													9	128					0	0	0.004482	0	0		A	8975277	A	A	8975277	2	1	136	1	0	0	0	0	0	0	0	1	5	1339	47	4		4	A2ML1	12	8975277	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	732726	8975277	124876618	130	74649											
PRB1	5542	broad.mit.edu	37	chr12	11506467	11506467	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaggtgggggaccctgAggtttcttgcctccttgtgg	3	12	16	10	0	1	1	0	1	1	0	2	3	2	3	4	6	1	1	4	6	0	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:11506467A>T	uc001qzw.1	-	4	607	c.570T>A	c.(568-570)CCT>CCA	p.P190P	PRB1_uc001qzu.1_Intron|PRB1_uc001qzv.1_Intron	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	251	15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].|10.		Missing (in clone CP-4).|Missing (in clone CP-5).|Missing (in allele S).			extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGGGACCCTGAGGTTTCTTGC	0.607													7	189					0	0	0.006122	0	0		T	11506467	T	T	11506467	2	4	136	1	0	0	0	0	0	0	0	1	12464	291	11	5		5	PRB1	12	11506467	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	2531190	11506467	122345428	131	74650											
PIK3C2G	5288	broad.mit.edu	37	chr12	18435597	18435597	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccgaaagaagagaataaaagGagtggacatgtgaacattgt	18	7	12	4	1	0	3	0	1	0	2	0	7	0	5	1	2	1	0	1	2	6	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:18435597G>A	uc001rdt.2	+	2	698	c.582G>A	c.(580-582)AGG>AGA	p.R194R	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Silent_p.R194R|PIK3C2G_uc010sic.1_5'UTR	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	194					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				AGAATAAAAGGAGTGGACATG	0.378													8	217					0	0	0.00308	0	0		A	18435597	A	A	18435597	2	1	136	1	0	0	0	0	0	0	0	1	11930	1165	41	4		4	PIK3C2G	12	18435597	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	6929130	18435597	115416298	132	74651											
SLC38A4	55089	broad.mit.edu	37	chr12	47172533	47172533	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaaaacaggtagagggcaGggtatttggaatttcttgta	12	12	12	5	0	1	1	0	0	1	1	2	2	2	2	1	4	1	4	1	4	6	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:47172533G>T	uc001rpi.2	-	11	1143	c.744C>A	c.(742-744)CCC>CCA	p.P248P	SLC38A4_uc001rpj.2_Silent_p.P248P	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	248	Extracellular (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Lung SC(27;0.192)|Renal(347;0.236)					GTAGAGGGCAGGGTATTTGGA	0.358													28	104					4.02929e-09	4.54808e-09	0.010818	1	0		T	47172533	T	T	47172533	2	4	136	1	0	0	0	0	0	0	0	1	14631	987	35	5		5	SLC38A4	12	47172533	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	28736936	47172533	86679362	133	74652											
OR10AD1	121275	broad.mit.edu	37	chr12	48596871	48596871	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgaagcagacatccaggaGagacagatggccgaggaaga	16	3	15	7	1	0	5	0	1	0	4	1	10	1	7	2	3	1	1	2	3	2	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:48596871G>A	uc001rrl.1	-	1	205	c.205C>T	c.(205-207)CTC>TTC	p.L69F		NM_001004134	NP_001004134	Q8NGE0	O10AD_HUMAN	olfactory receptor, family 10, subfamily AD,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACATCCAGGAGAGACAGATGG	0.522													12	64					0	0	0.010729	0	0		A	48596871	A	A	48596871	3	1	136	1	0	0	0	0	1	0	0	0	10915	942	33	4	752	4	OR10AD1	12	48596871	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	1424338	48596871	85255024	134	74653											
KRT84	3890	broad.mit.edu	37	chr12	52775177	52775177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcctcagcatcagcccGgctgcgcctggccacctcct	5	6	10	20	2	2	0	2	0	0	0	3	0	3	0	7	3	3	2	7	3	0	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:52775177G>A	uc001sah.1	-	5	1093	c.1045C>T	c.(1045-1047)CGG>TGG	p.R349W		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	349	Rod.|Coil 2.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		GCATCAGCCCGGCTGCGCCTG	0.572													132	88					0	0	0.01441	0	0		A	52775177	A	A	52775177	3	1	136	1	0	0	0	0	1	0	0	0	8514	1115	39	1	777	1	KRT84	12	52775177	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	4178306	52775177	81076718	135	74654											
FAM19A2	338811	broad.mit.edu	37	chr12	62147441	62147441	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcccagaggaacagctccAtcctttccgatccggaagaa	12	8	8	13	2	0	2	0	0	0	2	5	5	5	4	5	2	2	1	5	2	3	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:62147441A>G	uc001sqw.2	-	4	1859	c.346T>C	c.(346-348)TGG>CGG	p.W116R	FAM19A2_uc001sqv.2_RNA|FAM19A2_uc001sqx.2_Missense_Mutation_p.W116R|FAM19A2_uc001sqy.2_RNA	NM_178539	NP_848634	Q8N3H0	F19A2_HUMAN	family with sequence similarity 19 (chemokine	116						cytoplasm				ovary(1)	1			GBM - Glioblastoma multiforme(1;0.00484)	GBM - Glioblastoma multiforme(3;0.02)		GAACAGCTCCATCCTTTCCGA	0.428													34	115					0	0	0.010818	0	0		G	62147441	G	G	62147441	3	3	136	1	0	0	0	0	1	0	0	0	5543	217	8	3	57	3	FAM19A2	12	62147441	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	9372264	62147441	71704454	136	74655											
TBC1D15	64786	broad.mit.edu	37	chr12	72233533	72233533	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagacacgtgaggttctgcTacgtcattaccaggcacgcg	10	8	12	11	4	2	2	1	1	1	1	2	3	2	2	1	2	3	3	1	2	2	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:72233533T>C	uc001swu.2	+	1	47	c.38T>C	c.(37-39)CTA>CCA	p.L13P	TBC1D15_uc009zrv.2_5'UTR|TBC1D15_uc010stt.1_5'UTR|TBC1D15_uc001swv.2_Missense_Mutation_p.L13P|TBC1D15_uc001sww.2_5'UTR	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	Error:Variant_position_missing_in_Q8TC07_after_alignment							protein binding|Rab GTPase activator activity				0						GAGGTTCTGCTACGTCATTAC	0.587													9	47					0	0	0.010729	0	0		C	72233533	C	C	72233533	3	2	136	1	0	0	0	0	1	0	0	0	15629	1522	53	3	40	3	TBC1D15	12	72233533	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	10086092	72233533	61618362	137	74656											
DDX54	79039	broad.mit.edu	37	chr12	113600965	113600965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcaaagtccttgggccGgtaggggatgtagaattcct	8	11	14	8	1	1	1	1	0	0	1	3	2	3	2	3	4	0	3	3	4	4	4	rs146871883	byFrequency	TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr12:113600965G>A	uc001tup.2	-	16	2081	c.2053C>T	c.(2053-2055)CGG>TGG	p.R685W	DDX54_uc001tuq.3_Missense_Mutation_p.R685W	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	685					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						TCCTTGGGCCGGTAGGGGATG	0.662													5	64					0	0	0.001984	0	0		A	113600965	A	A	113600965	3	1	136	1	0	0	0	0	1	0	0	0	4375	1115	39	1	615	1	DDX54	12	113600965	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	41367432	113600965	20250930	138	74657											
FGF9	2254	broad.mit.edu	37	chr13	22275428	22275428	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacgtggacactggaaggCgatactatgttgcattaaat	13	10	11	7	2	0	0	0	0	0	0	0	3	0	2	0	3	3	3	0	3	5	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr13:22275428C>T	uc001uog.2	+	3	1318	c.481C>T	c.(481-483)CGA>TGA	p.R161*		NM_002010	NP_002001	P31371	FGF9_HUMAN	fibroblast growth factor 9 precursor	161					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|male gonad development|positive regulation of cell division	extracellular space	growth factor activity|heparin binding				0		all_cancers(29;1.23e-20)|all_epithelial(30;9.83e-19)|all_lung(29;9.64e-17)|Lung SC(185;0.0262)|Breast(139;0.106)		all cancers(112;3.92e-05)|Epithelial(112;0.000166)|OV - Ovarian serous cystadenocarcinoma(117;0.00314)|Lung(94;0.163)		CACTGGAAGGCGATACTATGT	0.423													25	36					0	0	0.01892	0	0		T	22275428	T	T	22275428	4	4	136	1	0	0	0	0	0	1	0	0	5873	760	27	1	491	1	FGF9	13	22275428	Nonsense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08		22275428	92894450	139	74658											
FLT3	2322	broad.mit.edu	37	chr13	28608309	28608309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactcattatctgaggagcCggtcacctgtaccatctgta	9	12	9	11	1	4	1	2	1	2	0	4	2	4	2	3	2	3	3	3	2	4	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr13:28608309C>T	uc001urw.2	-	14	1829	c.1747G>A	c.(1747-1749)GGC>AGC	p.G583S	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Missense_Mutation_p.G583S	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	583	Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity	p.T582_G583ins14(1)		haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	TCTGAGGAGCCGGTCACCTGT	0.393			Mis|O		AML|ALL								8	50					0	0	0.004482	0	0		T	28608309	T	T	28608309	3	4	136	1	0	0	0	0	1	0	0	0	5956	652	23	1	1278	1	FLT3	13	28608309	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	6332881	28608309	86561569	140	74659											
ENOX1	55068	broad.mit.edu	37	chr13	43896619	43896619	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgcccatgagctgctcacTttgagcattccggagctcct	7	11	10	13	1	1	2	1	2	0	0	3	4	3	3	3	1	5	4	3	1	0	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr13:43896619T>A	uc001uza.3	-	11	1462	c.1162A>T	c.(1162-1164)AGT>TGT	p.S388C	ENOX1_uc001uzb.3_Missense_Mutation_p.S388C|ENOX1_uc001uzc.3_Missense_Mutation_p.S388C|ENOX1_uc001uyz.3_Translation_Start_Site|ENOX1_uc010tfm.1_Missense_Mutation_p.S201C	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	388					electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		AGCTGCTCACTTTGAGCATTC	0.468													49	43					0	0	0.01441	0	0		A	43896619	A	A	43896619	3	1	136	1	0	0	0	0	1	0	0	0	5134	1609	56	5	797	5	ENOX1	13	43896619	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	15288310	43896619	71273259	141	74660											
SLITRK1	114798	broad.mit.edu	37	chr13	84454671	84454671	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagctacccgtcgctatCgctgctgtgggtctgatttt	4	14	12	11	3	1	1	0	1	1	0	3	2	1	2	1	2	3	4	1	2	2	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr13:84454671C>A	uc001vlk.2	-	1	1858	c.972G>T	c.(970-972)GCG>GCT	p.A324A		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	324	Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CCGTCGCTATCGCTGCTGTGG	0.547													6	52					0.00198382	0.00215597	0.001984	1	0		A	84454671	A	A	84454671	2	1	136	1	0	0	0	0	0	0	0	1	14767	871	31	5		5	SLITRK1	13	84454671	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	40558052	84454671	30715207	142	74661											
GPC5	2262	broad.mit.edu	37	chr13	92051379	92051379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccgcccgcagcgagggcGtgcagacctgcgaagaagtt	8	5	16	12	5	0	2	0	0	0	2	1	4	1	2	3	2	3	3	3	2	2	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr13:92051379G>A	uc010tif.1	+	1	445	c.79G>A	c.(79-81)GTG>ATG	p.V27M		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	27						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				CAGCGAGGGCGTGCAGACCTG	0.667													4	24					0	0	0.009096	0	0		A	92051379	A	A	92051379	3	1	136	1	0	0	0	0	1	0	0	0	6616	1145	40	1	81	1	GPC5	13	92051379	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	7596708	92051379	23118499	143	74662											
OR4Q3	441669	broad.mit.edu	37	chr14	20216435	20216435	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgattacacctatgttGaaccccctcatctacacact	12	11	4	14	0	2	2	1	2	1	0	2	2	2	2	3	0	3	1	3	0	4	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr14:20216435G>T	uc010tkt.1	+	1	849	c.849G>T	c.(847-849)TTG>TTT	p.L283F		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CACCTATGTTGAACCCCCTCA	0.408													51	190					2.27781e-18	2.66251e-18	0.01441	1	0		T	20216435	T	T	20216435	3	4	136	1	0	0	0	0	1	0	0	0	11100	1281	45	5	851	5	OR4Q3	14	20216435	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08		20216435	87133105	144	74663											
OR11H4	390442	broad.mit.edu	37	chr14	20711092	20711092	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggtgatttatgtcttgAccttgctgggaaatggagcc	7	16	12	6	0	1	2	0	2	1	0	1	4	1	4	2	3	2	1	2	3	2	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr14:20711092A>C	uc010tld.1	+	1	142	c.142A>C	c.(142-144)ACC>CCC	p.T48P		NM_001004479	NP_001004479	Q8NGC9	O11H4_HUMAN	olfactory receptor, family 11, subfamily H,	48	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.000888)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0146)		TTATGTCTTGACCTTGCTGGG	0.443													28	100					0	0	0.027356	0	0		C	20711092	C	C	20711092	3	2	136	1	0	0	0	0	1	0	0	0	10947	275	10	5	144	5	OR11H4	14	20711092	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	494657	20711092	86638448	145	74664											
MUDENG	55745	broad.mit.edu	37	chr14	57741028	57741028	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttatgtgcctgttcctgaAgatggtccctttcttaaagc	8	15	9	9	0	1	2	0	1	1	1	3	2	3	2	3	1	2	2	3	1	4	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr14:57741028A>G	uc001xcv.2	+	2	568	c.141A>G	c.(139-141)GAA>GAG	p.E47E	MUDENG_uc001xcu.3_Silent_p.E47E|MUDENG_uc010tri.1_Intron|MUDENG_uc010trj.1_5'UTR	NM_018229	NP_060699	Q9H0R1	MUDEN_HUMAN	Mu-2 related death-inducing protein	47					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex				ovary(1)	1						CTGTTCCTGAAGATGGTCCCT	0.388													10	74					0	0	0.013537	0	0		G	57741028	G	G	57741028	2	3	136	1	0	0	0	0	0	0	0	1	10001	69	3	3		3	MUDENG	14	57741028	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	37029936	57741028	49608512	146	74665											
MNAT1	4331	broad.mit.edu	37	chr14	61346450	61346450	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggtcaacatatttcactgGcacctattcacaagcttgaa	13	11	7	10	0	3	1	3	1	0	0	3	1	3	1	1	2	2	2	1	2	5	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr14:61346450G>C	uc001xfd.2	+	7	817	c.706G>C	c.(706-708)GCA>CCA	p.A236P	MNAT1_uc001xfe.2_Missense_Mutation_p.A194P	NM_002431	NP_002422	P51948	MAT1_HUMAN	menage a trois 1 (CAK assembly factor)	236					cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein complex assembly|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	cytoplasm|holo TFIIH complex	protein N-terminus binding|zinc ion binding			ovary(1)|lung(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.0174)		TATTTCACTGGCACCTATTCA	0.348								Direct_reversal_of_damage|NER					8	53					0	0	0.008291	0	0		C	61346450	C	C	61346450	3	2	136	1	0	0	0	0	1	0	0	0	9692	1203	42	5	732	5	MNAT1	14	61346450	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	3605422	61346450	46003090	147	74666											
KCNH5	27133	broad.mit.edu	37	chr14	63174582	63174582	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttatccaaacgaaggtcacTttttgtaattccactgtcac	11	14	5	11	1	2	0	2	0	0	0	4	1	4	0	2	1	1	1	2	1	4	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr14:63174582T>G	uc001xfx.2	-	11	2662	c.2611A>C	c.(2611-2613)AGT>CGT	p.S871R	KCNH5_uc001xfy.2_3'UTR	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	871	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		CGAAGGTCACTTTTTGTAATT	0.507													31	107					0	0	0.008361	0	0		G	63174582	G	G	63174582	3	3	136	1	0	0	0	0	1	0	0	0	8051	1609	56	5	359	5	KCNH5	14	63174582	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	1828132	63174582	44174958	148	74667											
PROX2	283571	broad.mit.edu	37	chr14	75321889	75321889	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggatgtcactgtccagtttCgaaataattttataaatggg	12	14	10	5	1	1	0	1	0	0	0	3	2	2	1	1	2	0	1	1	2	5	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr14:75321889C>T	uc001xqr.1	-	4	1725	c.1725G>A	c.(1723-1725)TCG>TCA	p.S575S	uc001xqp.1_5'Flank|PROX2_uc001xqq.1_Silent_p.S274S	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2	575	Prospero-like.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		TGTCCAGTTTCGAAATAATTT	0.473													5	12					0	0	0.014758	0	0		T	75321889	T	T	75321889	2	4	136	1	0	0	0	0	0	0	0	1	12583	871	31	1		1	PROX2	14	75321889	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	12147307	75321889	32027651	149	74668											
POMT2	29954	broad.mit.edu	37	chr14	77745169	77745169	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtaatggagtgtccagccGagcaggacctggccgcctcc	9	6	13	13	2	0	0	0	0	0	0	2	3	2	2	6	3	2	2	6	3	2	1	rs141193672	byFrequency	TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr14:77745169G>A	uc001xti.2	-	19	2136	c.1935C>T	c.(1933-1935)CTC>CTT	p.L645L	POMT2_uc001xth.1_Silent_p.L343L	NM_013382	NP_037514	Q9UKY4	POMT2_HUMAN	protein-O-mannosyltransferase 2	645	Helical; (Potential).				protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)		GTGTCCAGCCGAGCAGGACCT	0.507													7	54					0	0	0.004482	0	0		A	77745169	A	A	77745169	2	1	136	1	0	0	0	0	0	0	0	1	12265	1045	37	1		1	POMT2	14	77745169	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	2423280	77745169	29604371	150	74669											
SEL1L	6400	broad.mit.edu	37	chr14	81943368	81943368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctggggtggagctggcCgtggccctggaggcctgggt	2	8	20	11	1	0	0	0	0	0	0	0	2	0	2	4	8	2	2	4	8	0	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr14:81943368C>T	uc010tvv.1	-	21	2450	c.2333G>A	c.(2332-2334)CGG>CAG	p.R778Q		NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	778	Pro-rich.|Mediates retention to the endoplasmic reticulum.|Cytoplasmic (Potential).				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		TGGAGCTGGCCGTGGCCCTGG	0.582													12	79					0	0	0.016723	0	0		T	81943368	T	T	81943368	3	4	136	1	0	0	0	0	1	0	0	0	14035	652	23	1	55	1	SEL1L	14	81943368	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	4198199	81943368	25406172	151	74670											
C15orf2	23742	broad.mit.edu	37	chr15	24921536	24921536	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatcgaaggggaggatgaCgagaaaaggaccccccttag	14	4	14	9	2	0	3	0	1	0	2	1	8	0	6	3	4	0	0	3	4	4	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr15:24921536C>T	uc001ywo.2	+	1	996	c.522C>T	c.(520-522)GAC>GAT	p.D174D		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	174					cell differentiation|multicellular organismal development|spermatogenesis			p.D174D(1)		ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GGGAGGATGACGAGAAAAGGA	0.622													12	39					0	0	0.016723	0	0		T	24921536	T	T	24921536	2	4	136	1	0	0	0	0	0	0	0	1	1787	535	19	1		1	C15orf2	15	24921536	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08		24921536	77609856	152	74671											
SEMA6D	80031	broad.mit.edu	37	chr15	48057176	48057176	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagctggcatggtacttaaAgttctggcaaagaccagtcc	12	9	11	9	0	1	1	0	0	1	1	2	2	2	1	2	3	2	5	2	3	5	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr15:48057176A>T	uc010bek.2	+	13	1710	c.1350A>T	c.(1348-1350)AAA>AAT	p.K450N	SEMA6D_uc001zvw.2_Missense_Mutation_p.K450N|SEMA6D_uc001zvx.1_Missense_Mutation_p.K450N|SEMA6D_uc001zvy.2_Missense_Mutation_p.K450N|SEMA6D_uc001zvz.2_Missense_Mutation_p.K450N|SEMA6D_uc001zwa.2_Missense_Mutation_p.K450N|SEMA6D_uc001zwb.2_Missense_Mutation_p.K450N|SEMA6D_uc001zwc.2_Missense_Mutation_p.K450N	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	450	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		TGGTACTTAAAGTTCTGGCAA	0.473													22	45					0	0	0.012319	0	0		T	48057176	T	T	48057176	3	4	136	1	0	0	0	0	1	0	0	0	14067	69	3	5	1396	5	SEMA6D	15	48057176	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	23135640	48057176	54474216	153	74672											
TRPM7	54822	broad.mit.edu	37	chr15	50901825	50901825	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcatgataaaaggcataaaActttcgcgtaattggaagct	15	11	9	6	2	0	1	0	1	0	0	1	2	0	2	0	2	3	4	0	2	6	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr15:50901825A>C	uc001zyt.3	-	19	2797	c.2533T>G	c.(2533-2535)TTT>GTT	p.F845V	TRPM7_uc010bew.1_Missense_Mutation_p.F845V|TRPM7_uc001zyu.2_Missense_Mutation_p.F403V	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	845	Extracellular (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		AAGGCATAAAACTTTCGCGTA	0.323													13	27					0	0	0.020292	0	0		C	50901825	C	C	50901825	3	2	136	1	0	0	0	0	1	0	0	0	16617	43	2	5	3148	5	TRPM7	15	50901825	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	2844649	50901825	51629567	154	74673											
DMXL2	23312	broad.mit.edu	37	chr15	51750813	51750813	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgaagccaaaacaatttcAttacaatttgcctataaagc	16	12	5	8	0	1	1	1	1	0	0	1	1	1	1	2	0	5	1	2	0	9	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr15:51750813A>G	uc002abf.2	-	35	8247	c.8022T>C	c.(8020-8022)AAT>AAC	p.N2674N	DMXL2_uc002abd.2_Silent_p.N766N|DMXL2_uc010ufy.1_Silent_p.N2675N|DMXL2_uc010bfa.2_Silent_p.N2038N	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	2674						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		AAACAATTTCATTACAATTTG	0.348													5	53					0	0	0.00308	0	0		G	51750813	G	G	51750813	2	3	136	1	0	0	0	0	0	0	0	1	4601	214	8	3		3	DMXL2	15	51750813	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	848988	51750813	50780579	155	74674											
RORA	6095	broad.mit.edu	37	chr15	60795067	60795067	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaccacctctagagaacCtaagcagaggcagaaatggt	17	5	9	10	0	1	3	0	0	1	3	1	4	1	3	3	2	3	2	3	2	5	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr15:60795067C>T	uc002agv.2	-	9	1331	c.1175_splice	c.e9-1	p.G392_splice	uc002ags.1_Intron|RORA_uc002agt.3_Splice_Site_p.G304_splice|RORA_uc002agw.2_Splice_Site_p.G384_splice|RORA_uc002agx.2_Splice_Site_p.G359_splice	NM_134260	NP_599022	P35398	RORA_HUMAN	RAR-related orphan receptor A isoform b						positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			large_intestine(1)|ovary(1)	2						TCTAGAGAACCTAAGCAGAGG	0.468													14	329					0	0	0.028581	0	0		T	60795067	T	T	60795067	5	4	136	1	0	0	0	0	0	0	1	0	13553	695	24	4	512	4	RORA	15	60795067	Splice_Site	SNP	C	TCGA-CG-4444-01A-01D-1158-08	9044254	60795067	41736325	156	74675											
CILP	8483	broad.mit.edu	37	chr15	65489069	65489069	+	Nonstop_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggtgaagtaccacaaaacTtagttgatcaggggctgttg	12	10	13	6	0	1	2	1	2	0	0	1	2	1	2	1	3	2	4	1	3	5	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr15:65489069T>G	uc002aon.2	-	9	3736	c.3555A>C	c.(3553-3555)TAA>TAC	p.*1185Y		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	1185					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						ACCACAAAACTTAGTTGATCA	0.517													13	23					0	0	0.020292	0	0		G	65489069	G	G	65489069	4	3	136	1	0	0	0	0	0	0	0	0	3432	1616	56	5	3	5	CILP	15	65489069	Nonstop_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	4694002	65489069	37042323	157	74676											
CILP	8483	broad.mit.edu	37	chr15	65494254	65494254	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacttcacagccccagcaTcactctgggccttgcaaaag	10	8	9	14	0	3	0	2	0	1	0	3	1	3	1	3	2	3	2	3	2	2	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr15:65494254T>G	uc002aon.2	-	8	1323	c.1142A>C	c.(1141-1143)GAT>GCT	p.D381A		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	381	Ig-like C2-type.				negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						AGCCCCAGCATCACTCTGGGC	0.577													5	26					0	0	0.014758	0	0		G	65494254	G	G	65494254	3	3	136	1	0	0	0	0	1	0	0	0	3432	1435	50	5	2420	5	CILP	15	65494254	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	5185	65494254	37037138	158	74677											
CHRNA5	1138	broad.mit.edu	37	chr15	78882650	78882650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaagagatcataccatcatCttcaaaagtcatacctctaa	16	11	4	10	0	6	2	4	1	2	1	6	3	6	2	2	0	2	0	2	0	6	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr15:78882650C>T	uc002bdy.2	+	5	1079	c.917C>T	c.(916-918)TCT>TTT	p.S306F	CHRNA5_uc002bdz.2_Intron	NM_000745	NP_000736	P30532	ACHA5_HUMAN	cholinergic receptor, nicotinic, alpha 5	306					behavioral response to nicotine	cell junction|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3						ATACCATCATCTTCAAAAGTC	0.363													31	44					0	0	0.009535	0	0		T	78882650	T	T	78882650	3	4	136	1	0	0	0	0	1	0	0	0	3389	913	32	4	935	4	CHRNA5	15	78882650	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	13388396	78882650	23648742	159	74678											
AGBL1	123624	broad.mit.edu	37	chr15	86790989	86790989	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacagccatgacacagccaAcgcctacgtgcagatccgac	12	4	9	16	3	0	2	0	1	0	1	1	3	1	2	4	0	5	2	4	0	2	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr15:86790989A>T	uc002blz.1	+	6	556	c.476A>T	c.(475-477)AAC>ATC	p.N159I		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	159					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						GACACAGCCAACGCCTACGTG	0.642													9	29					0	0	0.013537	0	0		T	86790989	T	T	86790989	3	4	136	1	0	0	0	0	1	0	0	0	375	43	2	5	494	5	AGBL1	15	86790989	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	7908339	86790989	15740403	160	74679											
ISG20	3669	broad.mit.edu	37	chr15	89198676	89198676	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttggacacagctcggtggaaGatgcgagggcaacgatggag	11	6	17	7	3	0	1	0	0	0	1	1	6	0	4	0	5	3	2	0	5	2	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr15:89198676G>C	uc002bmv.1	+	4	753	c.460G>C	c.(460-462)GAT>CAT	p.D154H	ISG20_uc002bmu.1_RNA|ISG20_uc002bmw.1_RNA|ISG20_uc010upn.1_RNA	NM_002201	NP_002192	Q96AZ6	ISG20_HUMAN	interferon stimulated exonuclease	154					cell proliferation|DNA catabolic process, exonucleolytic|response to virus|RNA catabolic process|type I interferon-mediated signaling pathway	PML body	3'-5'-exoribonuclease activity|exoribonuclease II activity|metal ion binding|RNA binding|single-stranded DNA specific 3'-5' exodeoxyribonuclease activity				0	Lung NSC(78;0.0554)|all_lung(78;0.103)		BRCA - Breast invasive adenocarcinoma(143;0.12)			CTCGGTGGAAGATGCGAGGGC	0.597													41	170					0	0	0.011902	0	0		C	89198676	C	C	89198676	3	2	136	1	0	0	0	0	1	0	0	0	7870	942	33	5	470	5	ISG20	15	89198676	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	2407687	89198676	13332716	161	74680											
SPATA8	145946	broad.mit.edu	37	chr15	97327407	97327407	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtcgcgacatttctcagaAgccatgacatgtccctgcgg	8	10	10	13	4	1	2	1	1	1	1	5	3	2	2	2	1	2	0	2	1	1	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr15:97327407A>G	uc002bue.2	+	2	324	c.114A>G	c.(112-114)GAA>GAG	p.E38E	uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8	38										ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			ATTTCTCAGAAGCCATGACAT	0.592													4	112					0	0	0.021553	0	0		G	97327407	G	G	97327407	2	3	136	1	0	0	0	0	0	0	0	1	15040	69	3	3		3	SPATA8	15	97327407	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	8128731	97327407	5203985	162	74681											
WDR90	197335	broad.mit.edu	37	chr16	716300	716300	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaaccttccgtgtgctgAgtgaccaccagggcgcccca	8	6	12	15	2	0	2	0	2	0	0	1	3	1	3	6	2	2	1	6	2	1	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr16:716300A>G	uc002cii.1	+	37	4744	c.4690A>G	c.(4690-4692)AGT>GGT	p.S1564G	WDR90_uc002cij.1_Intron|WDR90_uc002cil.1_RNA|WDR90_uc002cin.1_Missense_Mutation_p.S179G|WDR90_uc010uul.1_Missense_Mutation_p.S163G|WDR90_uc002cio.1_Missense_Mutation_p.S163G|WDR90_uc010bqx.1_Missense_Mutation_p.S163G|RHOT2_uc010uum.1_5'Flank|RHOT2_uc002cip.2_5'Flank|RHOT2_uc002ciq.2_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	1564										ovary(1)	1		Hepatocellular(780;0.0218)				CCGTGTGCTGAGTGACCACCA	0.632													10	80					0	0	0.008291	0	0		G	716300	G	G	716300	3	3	136	1	0	0	0	0	1	0	0	0	17363	304	11	3	4836	3	WDR90	16	716300	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08		716300	89638453	163	74682											
SRRM2	23524	broad.mit.edu	37	chr16	2814700	2814700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagttatccccagatgcaGtggaaaaggcagggatgtct	11	9	13	8	0	1	2	0	1	1	1	2	4	2	4	2	3	1	3	2	3	3	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr16:2814700G>A	uc002crk.2	+	11	4720	c.4171G>A	c.(4171-4173)GTG>ATG	p.V1391M	SRRM2_uc002crj.1_Missense_Mutation_p.V1295M|SRRM2_uc002crl.1_Missense_Mutation_p.V1391M|SRRM2_uc010bsu.1_Missense_Mutation_p.V1295M	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1391	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCCAGATGCAGTGGAAAAGGC	0.458													27	418					0	0	0.008361	0	0		A	2814700	A	A	2814700	3	1	136	1	0	0	0	0	1	0	0	0	15194	1029	36	4	4209	4	SRRM2	16	2814700	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	2098400	2814700	87540053	164	74683											
MMP25	64386	broad.mit.edu	37	chr16	3100341	3100341	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatggcctggggcatggAgtcaggcctcacatttcatg	7	10	13	11	0	3	1	3	1	0	0	3	2	3	2	3	5	0	1	3	5	0	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr16:3100341A>C	uc002cth.2	+	4	692	c.455A>C	c.(454-456)GAG>GCG	p.E152A	MMP25_uc002cti.1_Missense_Mutation_p.E88A	NM_022468	NP_071913	Q9NPA2	MMP25_HUMAN	matrix metalloproteinase 25 preproprotein	152					inflammatory response|proteolysis	anchored to membrane|cell surface|plasma membrane|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0						TGGGGCATGGAGTCAGGCCTC	0.637													25	61					0	0	0.024334	0	0		C	3100341	C	C	3100341	3	2	136	1	0	0	0	0	1	0	0	0	9680	304	11	5	469	5	MMP25	16	3100341	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	285641	3100341	87254412	165	74684											
C16orf78	123970	broad.mit.edu	37	chr16	49407930	49407930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagactgctgaagataggcGcatgtctgacctcacctgtg	10	9	12	10	1	2	4	1	2	1	2	2	5	2	4	2	1	1	2	2	1	3	1	rs144505396	byFrequency	TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr16:49407930G>A	uc002efr.2	+	1	123	c.80G>A	c.(79-81)CGC>CAC	p.R27H		NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970	27										central_nervous_system(1)	1						GAAGATAGGCGCATGTCTGAC	0.488													30	72					0	0	0.021022	0	0		A	49407930	A	A	49407930	3	1	136	1	0	0	0	0	1	0	0	0	1838	1087	38	1	82	1	C16orf78	16	49407930	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	46307589	49407930	40946823	166	74685											
WDR59	79726	broad.mit.edu	37	chr16	74943480	74943480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtaagccgtggtcacccGcgcaaacgtcggtaaggggg	8	5	15	13	6	1	0	1	0	0	0	2	0	1	0	3	4	2	3	3	4	3	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr16:74943480G>A	uc002fdh.1	-	16	1663	c.1561C>T	c.(1561-1563)CGG>TGG	p.R521W	WDR59_uc002fdi.2_Missense_Mutation_p.R521W|WDR59_uc002fdg.1_Missense_Mutation_p.R113W	NM_030581	NP_085058	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	521										ovary(1)|breast(1)	2						GTGGTCACCCGCGCAAACGTC	0.552													14	114					0	0	0.028581	0	0		A	74943480	A	A	74943480	3	1	136	1	0	0	0	0	1	0	0	0	17334	1086	38	1	1407	1	WDR59	16	74943480	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	25535550	74943480	15411273	167	74686											
KIAA0753	9851	broad.mit.edu	37	chr17	6483160	6483160	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagccacagcacccagagcTtcatctaccagctcttctga	10	8	7	16	0	4	2	1	1	3	1	4	2	4	2	3	0	5	4	3	0	1	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr17:6483160T>G	uc002gde.3	-	19	3170	c.2811A>C	c.(2809-2811)GAA>GAC	p.E937D	KIAA0753_uc010vtd.1_Missense_Mutation_p.E393D|KIAA0753_uc010clo.2_Missense_Mutation_p.E638D|KIAA0753_uc010vte.1_Missense_Mutation_p.E638D	NM_014804	NP_055619	Q2KHM9	K0753_HUMAN	hypothetical protein LOC9851	937						centrosome					0				COAD - Colon adenocarcinoma(228;0.157)		CACCCAGAGCTTCATCTACCA	0.353													18	66					0	0	0.010818	0	0		G	6483160	G	G	6483160	3	3	136	1	0	0	0	0	1	0	0	0	8207	1606	56	5	96	5	KIAA0753	17	6483160	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08		6483160	74712050	168	74687											
TP53	7157	broad.mit.edu	37	chr17	7578395	7578395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctatctgagcagcgctcatGgtgggggcagcgcctcacaa	8	7	14	12	2	3	1	2	1	1	0	3	1	3	1	1	3	3	4	1	3	2	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr17:7578395G>A	uc002gim.2	-	5	729	c.535C>T	c.(535-537)CAT>TAT	p.H179Y	TP53_uc002gig.1_Missense_Mutation_p.H179Y|TP53_uc002gih.2_Missense_Mutation_p.H179Y|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H47Y|TP53_uc010cng.1_Missense_Mutation_p.H47Y|TP53_uc002gii.1_Missense_Mutation_p.H47Y|TP53_uc010cnh.1_Missense_Mutation_p.H179Y|TP53_uc010cni.1_Missense_Mutation_p.H179Y|TP53_uc002gij.2_Missense_Mutation_p.H179Y|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.H86Y|TP53_uc002gio.2_Missense_Mutation_p.H47Y|TP53_uc010vug.1_Missense_Mutation_p.H140Y	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	179	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	H -> Q (in sporadic cancers; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|HH -> QS (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> D (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> Y (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H179R(99)|p.H179Y(74)|p.H179L(31)|p.H179Q(17)|p.H179N(13)|p.H179D(10)|p.P177_C182delPHHERC(8)|p.0?(7)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.H179P(3)|p.R175_E180delRCPHHE(3)|p.H179fs*68(2)|p.H179H(2)|p.P177fs*3(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.K164_P219del(1)|p.C176fs*65(1)|p.C176fs*68(1)|p.P177_H179delPHH(1)|p.V173fs*23(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.H179del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.H178fs*6(1)|p.P177_E180delPHHE(1)|p.R42fs*24(1)|p.R174fs*3(1)|p.H178_H179>QY(1)|p.E171fs*61(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CAGCGCTCATGGTGGGGGCAG	0.642		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			26	16					0	0	0.027356	0	0		A	7578395	A	A	7578395	3	1	136	1	0	0	0	0	1	0	0	0	16407	1348	47	4	763	4	TP53	17	7578395	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	1095235	7578395	73616815	169	74688											
MYH4	4622	broad.mit.edu	37	chr17	10367883	10367883	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacgcttcgtgttcacagtcTtccctgcaccagattctcca	7	12	6	16	2	3	1	1	0	2	1	6	1	4	1	3	0	1	3	3	0	0	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr17:10367883T>G	uc002gmn.2	-	7	665	c.554A>C	c.(553-555)AAG>ACG	p.K185T	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	185	Myosin head-like.|ATP (Potential).				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						GTTCACAGTCTTCCCTGCACC	0.428													21	59					0	0	0.014323	0	0		G	10367883	G	G	10367883	3	3	136	1	0	0	0	0	1	0	0	0	10055	1609	56	5	5401	5	MYH4	17	10367883	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	2789488	10367883	70827327	170	74689											
SSH2	85464	broad.mit.edu	37	chr17	27959445	27959445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcattctttgaattcttacGagtggacaatgaggtacatg	12	14	9	6	1	3	2	1	2	2	0	3	4	3	3	0	2	2	1	0	2	4	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr17:27959445G>A	uc002heo.1	-	15	2686	c.2686C>T	c.(2686-2688)CGT>TGT	p.R896C	SSH2_uc010wbh.1_Missense_Mutation_p.R923C	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	896					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						GAATTCTTACGAGTGGACAAT	0.512													52	270					0	0	0.01441	0	0		A	27959445	A	A	27959445	3	1	136	1	0	0	0	0	1	0	0	0	15210	1058	37	1	1589	1	SSH2	17	27959445	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	17591562	27959445	53235765	171	74690											
WIPF2	147179	broad.mit.edu	37	chr17	38421332	38421332	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacctcctccacccacctcgGcctccccatctttactgagt	6	10	4	21	1	1	1	0	1	1	0	5	1	4	1	8	1	1	0	8	1	1	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr17:38421332G>T	uc002hug.1	+	5	1144	c.904G>T	c.(904-906)GCC>TCC	p.A302S	WIPF2_uc002huh.1_Missense_Mutation_p.A152S|WIPF2_uc010cww.1_Missense_Mutation_p.A152S|WIPF2_uc002hui.1_Missense_Mutation_p.A302S|WIPF2_uc010cwx.1_Intron|WIPF2_uc010cwy.1_Missense_Mutation_p.A302S	NM_133264	NP_573571	Q8TF74	WIPF2_HUMAN	WIRE protein	302						cytoplasm|cytoskeleton	actin binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						ACCCACCTCGGCCTCCCCATC	0.572										HNSCC(43;0.11)			13	309					4.36969e-10	4.97502e-10	0.016723	1	0		T	38421332	T	T	38421332	3	4	136	1	0	0	0	0	1	0	0	0	17394	1203	42	5	918	5	WIPF2	17	38421332	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	10461887	38421332	42773878	172	74691											
NGFR	4804	broad.mit.edu	37	chr17	47590140	47590140	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaggaggtggagaagcttctCaacggctctgcgggggacac	9	6	17	9	2	2	1	1	0	2	1	3	5	2	3	0	6	3	2	0	6	2	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr17:47590140C>G	uc002ioz.3	+	6	1178	c.1053C>G	c.(1051-1053)CTC>CTG	p.L351L		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	351	Cytoplasmic (Potential).|Death.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					AGAAGCTTCTCAACGGCTCTG	0.662													60	52					0	0	0.01441	0	0		G	47590140	G	G	47590140	2	3	136	1	0	0	0	0	0	0	0	1	10415	813	29	5		5	NGFR	17	47590140	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	9168808	47590140	33605070	173	74692											
COL1A1	1277	broad.mit.edu	37	chr17	48271380	48271380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcctgggggtccggggCgaccatcttgaccggcggga	4	6	20	11	4	1	1	0	1	1	0	2	3	2	2	4	7	0	0	4	7	0	1	rs1800211		TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr17:48271380C>T	uc002iqm.2	-	25	1817	c.1691G>A	c.(1690-1692)CGC>CAC	p.R564H		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	564	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	GGGTCCGGGGCGACCATCTTG	0.622			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						24	75					0	0	0.027356	0	0		T	48271380	T	T	48271380	3	4	136	1	0	0	0	0	1	0	0	0	3680	768	27	1	2811	1	COL1A1	17	48271380	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	681240	48271380	32923830	174	74693											
TNRC6C	57690	broad.mit.edu	37	chr17	76087561	76087561	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtcaacagcatggacatGaccggtggcttgtcggtgaa	11	9	13	8	2	1	2	1	2	0	0	2	3	1	3	1	4	2	2	1	4	3	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr17:76087561G>T	uc002jud.2	+	15	4443	c.3843G>T	c.(3841-3843)ATG>ATT	p.M1281I	TNRC6C_uc002juf.2_Missense_Mutation_p.M1278I	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	1281					gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			GCATGGACATGACCGGTGGCT	0.542													14	22					1.00905e-13	1.16907e-13	0.008871	1	0		T	76087561	T	T	76087561	3	4	136	1	0	0	0	0	1	0	0	0	16367	1290	45	5	3889	5	TNRC6C	17	76087561	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	27816181	76087561	5107649	175	74694											
SMAD2	4087	broad.mit.edu	37	chr18	45374881	45374881	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatttctaccgtggcatttCggttaacattggagagtaaa	11	14	9	7	2	2	1	1	0	1	1	3	2	2	1	1	3	2	3	1	3	4	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr18:45374881C>T	uc002lcy.2	-	8	1210	c.962G>A	c.(961-963)CGA>CAA	p.R321Q	SMAD2_uc002lcz.2_Missense_Mutation_p.R321Q|SMAD2_uc010xdc.1_Missense_Mutation_p.R291Q|SMAD2_uc010xdd.1_Missense_Mutation_p.R291Q	NM_005901	NP_005892	Q15796	SMAD2_HUMAN	Sma- and Mad-related protein 2 isoform 1	321	MH2.				anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			large_intestine(3)|lung(1)|central_nervous_system(1)	5						CGTGGCATTTCGGTTAACATT	0.398													11	81					0	0	0.016723	0	0		T	45374881	T	T	45374881	3	4	136	1	0	0	0	0	1	0	0	0	14783	884	31	1	457	1	SMAD2	18	45374881	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08		45374881	32702367	176	74695											
ZNF407	55628	broad.mit.edu	37	chr18	72343302	72343302	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggggtattgcattagaTgaaacagggaaggagacctt	14	8	15	4	0	0	3	0	1	0	2	0	6	0	4	1	4	2	2	1	4	5	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr18:72343302T>G	uc002llw.2	+	1	384	c.327T>G	c.(325-327)GAT>GAG	p.D109E	ZNF407_uc010xfc.1_Missense_Mutation_p.D109E|ZNF407_uc010dqu.1_Missense_Mutation_p.D109E|ZNF407_uc002llu.2_Missense_Mutation_p.D108E	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	109					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		TTGCATTAGATGAAACAGGGA	0.448													13	86					0	0	0.013537	0	0		G	72343302	G	G	72343302	3	3	136	1	0	0	0	0	1	0	0	0	17912	1461	51	5	329	5	ZNF407	18	72343302	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	26968421	72343302	5733946	177	74696											
RFX2	5990	broad.mit.edu	37	chr19	6040129	6040129	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcccaccatgctgtgggaGgggaccgctggcggggacga	7	5	18	11	3	0	0	0	0	0	0	0	4	0	3	3	6	2	2	3	6	0	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:6040129G>A	uc002meb.2	-	5	653	c.384C>T	c.(382-384)CCC>CCT	p.P128P	RFX2_uc002mec.2_Silent_p.P128P|RFX2_uc010xiy.1_Silent_p.P83P	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	128					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						TGCTGTGGGAGGGGACCGCTG	0.682													12	44					0	0	0.006122	0	0		A	6040129	A	A	6040129	2	1	136	1	0	0	0	0	0	0	0	1	13288	987	35	4		4	RFX2	19	6040129	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08		6040129	53088854	178	74697											
MUC16	94025	broad.mit.edu	37	chr19	9046975	9046975	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtactggtgtctgtcccagaActagggaccagtgaggtcac	9	9	13	10	0	2	2	1	1	1	1	3	3	3	3	2	3	2	1	2	3	3	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:9046975A>C	uc002mkp.2	-	5	34860	c.34656T>G	c.(34654-34656)AGT>AGG	p.S11552R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11554	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGTCCCAGAACTAGGGACCA	0.517													22	62					0	0	0.016522	0	0		C	9046975	C	C	9046975	3	2	136	1	0	0	0	0	1	0	0	0	9991	40	2	5	9187	5	MUC16	19	9046975	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	3006846	9046975	50082008	179	74698											
MUC16	94025	broad.mit.edu	37	chr19	9088917	9088917	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggactagtctctggccaAgttgtgctttggggtgcagc	5	12	15	9	0	1	0	0	0	1	0	2	1	1	1	1	4	3	3	1	4	2	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:9088917A>T	uc002mkp.2	-	1	3102	c.2898T>A	c.(2896-2898)ACT>ACA	p.T966T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	966	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTCTGGCCAAGTTGTGCTTT	0.473													120	167					0	0	0.01441	0	0		T	9088917	T	T	9088917	2	4	136	1	0	0	0	0	0	0	0	1	9991	59	3	5		5	MUC16	19	9088917	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	41942	9088917	50040066	180	74699											
ZNF317	57693	broad.mit.edu	37	chr19	9271896	9271896	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcacatgcgaagccacacGggggagaaaccgtacgaatg	14	3	13	11	5	0	1	0	0	0	1	0	4	0	1	2	2	4	2	2	2	4	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:9271896G>T	uc002mku.2	+	7	1850	c.1575G>T	c.(1573-1575)ACG>ACT	p.T525T	ZNF317_uc002mkv.2_Silent_p.T384T|ZNF317_uc002mkw.2_Silent_p.T493T|ZNF317_uc002mkx.2_Silent_p.T440T|ZNF317_uc002mky.2_Silent_p.T408T	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	525					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAAGCCACACGGGGGAGAAAC	0.557													3	58					0.00909568	0.00976393	0.009096	1	0		T	9271896	T	T	9271896	2	4	136	1	0	0	0	0	0	0	0	1	17860	1103	39	5		5	ZNF317	19	9271896	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	182979	9271896	49857087	181	74700											
FAM129C	199786	broad.mit.edu	37	chr19	17657570	17657570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagggcatctatgaggacGtcatccgggggtgcttgctg	6	10	16	9	2	2	2	1	2	1	0	3	3	3	3	1	4	2	3	1	4	1	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:17657570G>A	uc010xpr.1	+	14	1861	c.1723G>A	c.(1723-1725)GTC>ATC	p.V575I	FAM129C_uc010xpq.1_Missense_Mutation_p.V575I|FAM129C_uc002ngy.3_Missense_Mutation_p.V301I|FAM129C_uc010xpu.1_Missense_Mutation_p.V301I|FAM129C_uc002ngz.3_RNA|FAM129C_uc010eaw.2_Missense_Mutation_p.V265I	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	575											0						CTATGAGGACGTCATCCGGGG	0.637													3	18					0	0	0.004672	0	0		A	17657570	A	A	17657570	3	1	136	1	0	0	0	0	1	0	0	0	5449	1145	40	1	1777	1	FAM129C	19	17657570	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	8385674	17657570	41471413	182	74701											
ZNF85	7639	broad.mit.edu	37	chr19	21132661	21132661	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttactgaacataagaaaatTcatactggagagaaacccta	18	9	6	8	0	1	3	1	1	0	2	1	5	1	4	1	1	4	0	1	1	8	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:21132661T>G	uc002npg.3	+	4	1468	c.1341T>G	c.(1339-1341)ATT>ATG	p.I447M	ZNF85_uc010ecn.2_Missense_Mutation_p.I382M|ZNF85_uc010eco.2_Missense_Mutation_p.I395M|ZNF85_uc002npi.2_Missense_Mutation_p.I388M	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	447	C2H2-type 11; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						ATAAGAAAATTCATACTGGAG	0.323													3	27					0	0	0.004672	0	0		G	21132661	G	G	21132661	3	3	136	1	0	0	0	0	1	0	0	0	18218	1771	62	5	1355	5	ZNF85	19	21132661	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	3475091	21132661	37996322	183	74702											
ZNF98	148198	broad.mit.edu	37	chr19	22574931	22574931	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctccagaatgaattctcTtatgtgtagtaaggtgggat	10	15	10	6	0	2	2	0	1	2	1	5	3	3	3	1	2	0	2	1	2	5	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:22574931T>G	uc002nqt.2	-	4	1228	c.1106A>C	c.(1105-1107)AAG>ACG	p.K369T		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	369	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				ATGAATTCTCTTATGTGTAGT	0.383													29	18					0	0	0.017118	0	0		G	22574931	G	G	22574931	3	3	136	1	0	0	0	0	1	0	0	0	18228	1609	56	5	616	5	ZNF98	19	22574931	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	1442270	22574931	36554052	184	74703											
C19orf40	91442	broad.mit.edu	37	chr19	33464169	33464169	+	Nonsense_Mutation	SNP	G	T	T																															tggggcatattgtggccaatGagaaatggcgcgggtcacag																										TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:33464169G>T	uc002nud.3	+	2	185	c.67G>T	c.(67-69)GAG>TAG	p.E23*	CCDC123_uc002nty.2_5'Flank|CCDC123_uc010edg.2_5'Flank|CCDC123_uc002ntz.1_5'Flank|CCDC123_uc002nua.2_5'Flank|CCDC123_uc002nuc.1_5'Flank	NM_152266	NP_689479	Q9BTP7	FAP24_HUMAN	Fanconi anemia-associated protein, 24 kDa	23					DNA repair	Fanconi anaemia nuclear complex	chromatin binding|DNA binding|protein binding				0	Esophageal squamous(110;0.137)					TGTGGCCAATGAGAAATGGCG	0.557								Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks					13	115					0.000151284	0.000167176	0.016723	1	0		T	33464169	T	T	33464169	4	4	136	1	0	0	0	0	0	1	0	0	1926	1291	45	5	69	5	C19orf40	19	33464169	Nonsense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	10889238	33464169	25664814	185	74704	137	2									
C19orf40	91442	broad.mit.edu	37	chr19	33464171	33464171	+	Silent	SNP	G	A	A																															gggcatattgtggccaatgaGaaatggcgcgggtcacagct																										TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:33464171G>A	uc002nud.3	+	2	187	c.69G>A	c.(67-69)GAG>GAA	p.E23E	CCDC123_uc002nty.2_5'Flank|CCDC123_uc010edg.2_5'Flank|CCDC123_uc002ntz.1_5'Flank|CCDC123_uc002nua.2_5'Flank|CCDC123_uc002nuc.1_5'Flank	NM_152266	NP_689479	Q9BTP7	FAP24_HUMAN	Fanconi anemia-associated protein, 24 kDa	23					DNA repair	Fanconi anaemia nuclear complex	chromatin binding|DNA binding|protein binding				0	Esophageal squamous(110;0.137)					TGGCCAATGAGAAATGGCGCG	0.557								Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks					12	113					0	0	0.013537	0	0		A	33464171	A	A	33464171	2	1	136	1	0	0	0	0	0	0	0	1	1926	933	33	4		4	C19orf40	19	33464171	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	2	33464171	25664812	186	74705	137	2									
ZFP82	284406	broad.mit.edu	37	chr19	36884051	36884051	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaaggctttccagcattcCttacattcgtaaggtttttc	9	16	6	10	1	0	0	0	0	0	0	4	0	2	0	2	2	2	4	2	2	4	8			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:36884051C>T	uc002ody.1	-	5	1426	c.1191G>A	c.(1189-1191)AAG>AAA	p.K397K		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	397	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						TCCAGCATTCCTTACATTCGT	0.403													7	158					0	0	0.001984	0	0		T	36884051	T	T	36884051	2	4	136	1	0	0	0	0	0	0	0	1	17678	680	24	4		4	ZFP82	19	36884051	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	3419880	36884051	22244932	187	74706											
GIPR	2696	broad.mit.edu	37	chr19	46174616	46174616	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaatgccactgcccgtgcGtcctgcccctggtacctgcc	4	8	9	20	2	0	0	0	0	0	0	1	0	1	0	8	1	6	1	8	1	2	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:46174616G>A	uc002pcu.1	+	4	345	c.246G>A	c.(244-246)GCG>GCA	p.A82A	GIPR_uc002pct.1_Silent_p.A82A|GIPR_uc010xxp.1_Intron|GIPR_uc010xxq.1_RNA	NM_000164	NP_000155	P48546	GIPR_HUMAN	gastric inhibitory polypeptide receptor	82	Extracellular (Potential).				generation of precursor metabolites and energy|response to nutrient	integral to membrane|plasma membrane				skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0056)|GBM - Glioblastoma multiforme(486;0.0832)|Epithelial(262;0.199)		CTGCCCGTGCGTCCTGCCCCT	0.657													32	109					0	0	0.025465	0	0		A	46174616	A	A	46174616	2	1	136	1	0	0	0	0	0	0	0	1	6410	1132	40	1		1	GIPR	19	46174616	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	9290565	46174616	12954367	188	74707											
MYBPC2	4606	broad.mit.edu	37	chr19	50958830	50958830	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacaccaccaccacactcaAgtggaggcctccgaacagga	14	3	9	15	1	1	1	1	0	0	1	2	4	2	3	5	3	1	0	5	3	2	0			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:50958830A>G	uc002psf.2	+	20	2318	c.2267A>G	c.(2266-2268)AAG>AGG	p.K756R		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	756	Fibronectin type-III 2.				cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		ACCACACTCAAGTGGAGGCCT	0.597													42	63					0	0	0.01441	0	0		G	50958830	G	G	50958830	3	3	136	1	0	0	0	0	1	0	0	0	10030	72	3	3	2345	3	MYBPC2	19	50958830	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	4784214	50958830	8170153	189	74708											
ZNF845	91664	broad.mit.edu	37	chr19	53855942	53855942	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaatgaatgtggcaagaccTttagtcggaagtcatacctt	12	12	10	7	1	1	2	1	1	0	1	2	3	1	3	2	2	1	2	2	2	6	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:53855942T>G	uc010ydv.1	+	4	2131	c.2014T>G	c.(2014-2016)TTT>GTT	p.F672V	ZNF845_uc010ydw.1_Missense_Mutation_p.F672V	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	672	C2H2-type 17.			Missing (in Ref. 1; BAG58121).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGGCAAGACCTTTAGTCGGAA	0.408													5	90					0	0	0.014758	0	0		G	53855942	G	G	53855942	3	3	136	1	0	0	0	0	1	0	0	0	18216	1609	56	5	2024	5	ZNF845	19	53855942	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	2897112	53855942	5273041	190	74709											
VSTM1	284415	broad.mit.edu	37	chr19	54544331	54544331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtcactccttgggggtctgCcgtctttggagaaaatagat	8	12	13	8	1	3	2	1	0	2	2	4	3	4	2	2	4	1	0	2	4	3	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:54544331C>T	uc002qcw.3	-	9	771	c.595G>A	c.(595-597)GCA>ACA	p.A199T	VSTM1_uc010erb.2_RNA|VSTM1_uc002qcx.3_Missense_Mutation_p.A168T	NM_198481	NP_940883	Q6UX27	VSTM1_HUMAN	V-set and transmembrane domain containing 1	199						integral to membrane					0	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.165)		TGGGGGTCTGCCGTCTTTGGA	0.358													7	18					0	0	0.001984	0	0		T	54544331	T	T	54544331	3	4	136	1	0	0	0	0	1	0	0	0	17254	739	26	2	119	2	VSTM1	19	54544331	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	688389	54544331	4584652	191	74710											
PEG3	5178	broad.mit.edu	37	chr19	57327776	57327776	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagcttctccttattgtaAgttttctgacgccttttaag	8	17	7	9	1	2	2	0	1	2	1	3	2	2	2	2	0	1	3	2	0	3	8			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr19:57327776A>C	uc002qnu.2	-	7	2385	c.2034T>G	c.(2032-2034)ACT>ACG	p.T678T	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.T649T|PEG3_uc002qnv.2_Silent_p.T678T|PEG3_uc002qnw.2_Silent_p.T554T|PEG3_uc002qnx.2_Silent_p.T552T|PEG3_uc010etr.2_Silent_p.T678T	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	678					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CCTTATTGTAAGTTTTCTGAC	0.428													27	107					0	0	0.00632	0	0		C	57327776	C	C	57327776	2	2	136	1	0	0	0	0	0	0	0	1	11739	59	3	5		5	PEG3	19	57327776	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	2783445	57327776	1801207	192	74711											
SEC23B	10483	broad.mit.edu	37	chr20	18531753	18531753	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagtactcttggatagcagCagcattctagctgacagaat	12	10	9	10	0	2	2	0	1	2	1	2	3	2	3	1	1	5	5	1	1	4	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr20:18531753C>T	uc002wqz.1	+	17	2369	c.1926C>T	c.(1924-1926)AGC>AGT	p.S642S	SEC23B_uc002wra.1_Silent_p.S642S|SEC23B_uc002wrb.1_Silent_p.S642S|SEC23B_uc010zsb.1_Silent_p.S624S|SEC23B_uc002wrc.1_Silent_p.S642S	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	642					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						TGGATAGCAGCAGCATTCTAG	0.403													16	105					0	0	0.00499	0	0		T	18531753	T	T	18531753	2	4	136	1	0	0	0	0	0	0	0	1	14017	709	25	2		2	SEC23B	20	18531753	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08		18531753	44493767	193	74712											
CST2	1470	broad.mit.edu	37	chr20	23804666	23804666	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcacagatccctaggcttcTtgacacctggaattcaccag	10	9	9	13	0	2	2	1	1	1	1	3	3	3	3	3	3	0	2	3	3	2	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr20:23804666T>C	uc002wtq.1	-	3	432	c.417A>G	c.(415-417)CAA>CAG	p.Q139Q		NM_001322	NP_001313	P09228	CYTT_HUMAN	cystatin SA precursor	139						extracellular region	cysteine-type endopeptidase inhibitor activity				0						CCTAGGCTTCTTGACACCTGG	0.567													20	99					0	0	0.012319	0	0		C	23804666	C	C	23804666	2	2	136	1	0	0	0	0	0	0	0	1	3975	1606	56	3		3	CST2	20	23804666	Silent	SNP	T	TCGA-CG-4444-01A-01D-1158-08	5272913	23804666	39220854	194	74713											
PTPRT	11122	broad.mit.edu	37	chr20	40944533	40944533	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtgtagagaatcgaggcTggaggcattccgatagctca	11	9	14	7	2	1	1	1	0	0	1	3	5	2	2	1	3	1	5	1	3	4	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr20:40944533T>C	uc002xkg.2	-	12	2153	c.1969A>G	c.(1969-1971)AGC>GGC	p.S657G	PTPRT_uc010ggj.2_Missense_Mutation_p.S657G	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	657	Extracellular (Potential).|Fibronectin type-III 4.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GAATCGAGGCTGGAGGCATTC	0.507													5	138					0	0	0.021553	0	0		C	40944533	C	C	40944533	3	2	136	1	0	0	0	0	1	0	0	0	12837	1580	55	3	2497	3	PTPRT	20	40944533	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	17139867	40944533	22080987	195	74714											
ZNF334	55713	broad.mit.edu	37	chr20	45130817	45130817	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcagtaagggctgactgacaGaagaaggttttcccacattc	12	9	11	9	0	0	4	0	2	0	2	2	4	1	4	1	2	0	4	1	2	3	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr20:45130817G>A	uc002xsc.2	-	5	1345	c.1161C>T	c.(1159-1161)TTC>TTT	p.F387F	ZNF334_uc002xsa.2_Silent_p.F410F|ZNF334_uc002xsb.2_Silent_p.F349F|ZNF334_uc002xsd.2_Silent_p.F349F|ZNF334_uc010ghl.2_Silent_p.F386F	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	387	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				CTGACTGACAGAAGAAGGTTT	0.423													18	273					0	0	0.00499	0	0		A	45130817	A	A	45130817	2	1	136	1	0	0	0	0	0	0	0	1	17876	933	33	4		4	ZNF334	20	45130817	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	4186284	45130817	17894703	196	74715											
PHACTR3	116154	broad.mit.edu	37	chr20	58411616	58411616	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagaaatatcttgaaacGtgagtagctggtgattcctc	13	11	11	6	1	1	5	0	3	1	2	3	6	2	5	1	1	2	2	1	1	5	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr20:58411616G>A	uc002yau.2	+	9	1851	c.1384_splice	c.e9+1	p.Q462_splice	PHACTR3_uc002yat.2_Splice_Site_p.Q459_splice|PHACTR3_uc010zzw.1_Splice_Site_p.Q421_splice|PHACTR3_uc002yav.2_Splice_Site_p.Q421_splice|PHACTR3_uc002yaw.2_Splice_Site_p.Q421_splice|PHACTR3_uc002yax.2_Splice_Site_p.Q351_splice|PHACTR3_uc002yay.2_Splice_Site_p.Q31_splice	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1							nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			ATCTTGAAACGTGAGTAGCTG	0.488													4	51					0	0	0.014758	0	0		A	58411616	A	A	58411616	5	1	136	1	0	0	0	0	0	0	1	0	11830	1159	40	1	1419	1	PHACTR3	20	58411616	Splice_Site	SNP	G	TCGA-CG-4444-01A-01D-1158-08	13280799	58411616	4613904	197	74716											
CDH4	1002	broad.mit.edu	37	chr20	60427821	60427821	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttccagctccgagcccaCgctgtggacatgaatggcaa	9	9	10	13	2	0	1	0	1	0	0	2	3	2	2	3	2	2	3	3	2	2	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr20:60427821C>T	uc002ybn.1	+	6	758	c.744C>T	c.(742-744)CAC>CAT	p.H248H	CDH4_uc002ybp.1_Silent_p.H174H	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	248	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			TCCGAGCCCACGCTGTGGACA	0.607													15	100					0	0	0.006122	0	0		T	60427821	T	T	60427821	2	4	136	1	0	0	0	0	0	0	0	1	3115	535	19	1		1	CDH4	20	60427821	Silent	SNP	C	TCGA-CG-4444-01A-01D-1158-08	2016205	60427821	2597699	198	74717											
KCNQ2	3785	broad.mit.edu	37	chr20	62039791	62039791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctccaccttcccgagccgtCccatcatgctggggtcctcg	4	10	9	18	3	2	0	1	0	1	0	7	1	5	0	6	2	2	1	6	2	0	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr20:62039791C>T	uc002yey.1	-	16	2039	c.1862G>A	c.(1861-1863)GGA>GAA	p.G621E	KCNQ2_uc002yez.1_Missense_Mutation_p.G590E|KCNQ2_uc002yfa.1_Missense_Mutation_p.G603E|KCNQ2_uc002yfb.1_Missense_Mutation_p.G593E	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	621	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	CCCGAGCCGTCCCATCATGCT	0.711													4	15					0	0	0.021553	0	0		T	62039791	T	T	62039791	3	4	136	1	0	0	0	0	1	0	0	0	8099	855	30	4	764	4	KCNQ2	20	62039791	Missense_Mutation	SNP	C	TCGA-CG-4444-01A-01D-1158-08	1611970	62039791	985729	199	74718											
MYT1	4661	broad.mit.edu	37	chr20	62853334	62853334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaggagcggaagtatccggGggaagtcaccctgaccaact	11	6	14	10	2	1	2	1	2	0	0	2	5	2	5	3	4	2	1	3	4	4	1			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr20:62853334G>A	uc002yii.2	+	14	2694	c.2330G>A	c.(2329-2331)GGG>GAG	p.G777E	MYT1_uc002yih.2_Missense_Mutation_p.G479E|MYT1_uc002yij.2_Missense_Mutation_p.G436E	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	777					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					AAGTATCCGGGGGAAGTCACC	0.502													12	83					0	0	0.010729	0	0		A	62853334	A	A	62853334	3	1	136	1	0	0	0	0	1	0	0	0	10124	1232	43	4	2376	4	MYT1	20	62853334	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08	813543	62853334	172186	200	74719											
CECR1	51816	broad.mit.edu	37	chr22	17662401	17662401	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagccacatctgctatgaacTtatcccatctcttcttccag	9	14	4	14	0	3	1	0	1	3	0	6	1	5	1	3	0	3	1	3	0	4	5			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr22:17662401T>G	uc002zmk.1	-	9	1720	c.1508A>C	c.(1507-1509)AAG>ACG	p.K503T	CECR1_uc010gqu.1_Missense_Mutation_p.K503T|CECR1_uc011agi.1_Missense_Mutation_p.K461T|CECR1_uc002zmj.1_Missense_Mutation_p.K262T	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	503					adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				TGCTATGAACTTATCCCATCT	0.488													72	271					0	0	0.01441	0	0		G	17662401	G	G	17662401	3	3	136	1	0	0	0	0	1	0	0	0	3208	1609	56	5	31	5	CECR1	22	17662401	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08		17662401	33642165	201	74720											
MICAL3	57553	broad.mit.edu	37	chr22	18324716	18324716	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcggtagttctccagctcGatccgctctggggtgcccct	4	10	13	14	3	2	0	0	0	2	0	5	1	3	0	4	4	2	4	4	4	1	2			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chr22:18324716G>A	uc002zng.3	-	20	3026	c.2673C>T	c.(2671-2673)ATC>ATT	p.I891I	MICAL3_uc011agl.1_Silent_p.I891I|MICAL3_uc002znh.2_Silent_p.I891I|MICAL3_uc002znj.1_Silent_p.I619I|MICAL3_uc002znk.1_Silent_p.I891I|MICAL3_uc002znl.1_Silent_p.I524I	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	891	Glu-rich.					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		TCTCCAGCTCGATCCGCTCTG	0.647													7	7					0	0	0.00308	0	0		A	18324716	A	A	18324716	2	1	136	1	0	0	0	0	0	0	0	1	9589	1048	37	1		1	MICAL3	22	18324716	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	662315	18324716	32979850	202	74721											
CNKSR2	22866	broad.mit.edu	37	chrX	21670583	21670583	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgagtatttcttctgaagtaGatgtaatcacttcctctcta	10	17	6	8	0	4	3	1	2	3	1	6	3	5	3	1	0	0	3	1	0	5	7			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chrX:21670583G>C	uc004czx.1	+	22	3085	c.3049G>C	c.(3049-3051)GAT>CAT	p.D1017H	CNKSR2_uc011mjo.1_Missense_Mutation_p.D987H	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	1017					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						TTCTGAAGTAGATGTAATCAC	0.398													44	16					0	0	0.01441	0	0		C	21670583	C	C	21670583	3	2	136	1	0	0	0	0	1	0	0	0	3610	942	33	5	3144	5	CNKSR2	23	21670583	Missense_Mutation	SNP	G	TCGA-CG-4444-01A-01D-1158-08		21670583	133599977	203	74722											
MAGEB6	158809	broad.mit.edu	37	chrX	26212089	26212089	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagtcccactcttcctcAtcctcttctcgcgcttgtct	5	14	6	16	2	5	1	1	0	4	1	9	2	8	1	3	0	0	1	3	0	1	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chrX:26212089A>C	uc004dbr.2	+	2	275	c.126A>C	c.(124-126)TCA>TCC	p.S42S	MAGEB6_uc010ngc.1_5'UTR	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	42	Ser-rich.									ovary(3)	3						ACTCTTCCTCATCCTCTTCTC	0.572													19	28					0	0	0.010504	0	0		C	26212089	C	C	26212089	2	2	136	1	0	0	0	0	0	0	0	1	9197	204	8	5		5	MAGEB6	23	26212089	Silent	SNP	A	TCGA-CG-4444-01A-01D-1158-08	4541506	26212089	129058471	204	74723											
DMD	1756	broad.mit.edu	37	chrX	32662249	32662249	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaacaaataaggacttacTtgctttgtttttccatgcta	14	15	5	7	0	0	0	0	0	0	0	1	1	1	1	1	1	4	3	1	1	6	7			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chrX:32662249T>G	uc004dda.1	-	11	1575	c.1331A>C	c.(1330-1332)AAT>ACT	p.N444T	DMD_uc004dcz.2_Missense_Mutation_p.N321T|DMD_uc004dcy.1_Missense_Mutation_p.N440T|DMD_uc004ddb.1_Missense_Mutation_p.N436T|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.N436T|DMD_uc010ngp.1_Intron|DMD_uc010ngq.1_Intron|MIR548F5_hsa-mir-548f-5|MI0006378_5'Flank	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	444	Spectrin 1.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AAGGACTTACTTGCTTTGTTT	0.338													18	31					0	0	0.010504	0	0		G	32662249	G	G	32662249	3	3	136	1	0	0	0	0	1	0	0	0	4586	1623	56	5	10245	5	DMD	23	32662249	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	6450160	32662249	122608311	205	74724											
FAM46D	169966	broad.mit.edu	37	chrX	79698243	79698243	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattgaatggttccgtagcaAgttacatacttgcaagccac	12	11	9	9	1	0	1	0	1	0	0	1	2	1	1	2	1	5	5	2	1	6	6			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chrX:79698243A>C	uc004edl.1	+	5	539	c.205A>C	c.(205-207)AGT>CGT	p.S69R	FAM46D_uc004edm.1_Missense_Mutation_p.S69R	NM_152630	NP_689843	Q8NEK8	FA46D_HUMAN	hypothetical protein LOC169966	69										lung(2)	2						TTCCGTAGCAAGTTACATACT	0.378													11	35					0	0	0.013537	0	0		C	79698243	C	C	79698243	3	2	136	1	0	0	0	0	1	0	0	0	5582	72	3	5	207	5	FAM46D	23	79698243	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	47035994	79698243	75572317	206	74725											
PCDH11X	27328	broad.mit.edu	37	chrX	91131988	91131988	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacaaccacccagtctttaAggagacagagattgaagtca	15	8	9	9	0	2	4	1	2	1	2	2	6	2	4	2	1	1	0	2	1	3	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chrX:91131988A>G	uc004efk.1	+	2	1594	c.749A>G	c.(748-750)AAG>AGG	p.K250R	PCDH11X_uc004efl.1_Missense_Mutation_p.K250R|PCDH11X_uc004efo.1_Missense_Mutation_p.K250R|PCDH11X_uc010nmv.1_Missense_Mutation_p.K250R|PCDH11X_uc004efm.1_Missense_Mutation_p.K250R|PCDH11X_uc004efn.1_Missense_Mutation_p.K250R|PCDH11X_uc004efh.1_Missense_Mutation_p.K250R|PCDH11X_uc004efj.1_Missense_Mutation_p.K250R	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	250	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CCAGTCTTTAAGGAGACAGAG	0.428													8	147					0	0	0.008291	0	0		G	91131988	G	G	91131988	3	3	136	1	0	0	0	0	1	0	0	0	11527	72	3	3	755	3	PCDH11X	23	91131988	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	11433745	91131988	64138572	207	74726											
NRK	203447	broad.mit.edu	37	chrX	105153078	105153078	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtgctcatgccactacAggcacaggttagggcaccta	10	7	12	12	0	1	0	1	0	0	0	1	0	1	0	2	4	3	4	2	4	3	3			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chrX:105153078A>G	uc004emd.2	+	13	1748	c.1445A>G	c.(1444-1446)CAG>CGG	p.Q482R	NRK_uc010npc.1_Missense_Mutation_p.Q150R	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	482	Gln-rich.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						ATGCCACTACAGGCACAGGTT	0.542										HNSCC(51;0.14)			8	10					0	0	0.006214	0	0		G	105153078	G	G	105153078	3	3	136	1	0	0	0	0	1	0	0	0	10674	188	7	3	1495	3	NRK	23	105153078	Missense_Mutation	SNP	A	TCGA-CG-4444-01A-01D-1158-08	14021090	105153078	50117482	208	74727											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299786	125299786	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgtcgccggccgcttctgcTtcttgggtagcagaggcccc	3	9	14	15	4	2	1	0	0	2	1	3	1	2	1	4	3	2	4	4	3	1	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chrX:125299786T>G	uc004euk.1	-	1	149	c.122A>C	c.(121-123)AAG>ACG	p.K41T		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	41										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						CCGCTTCTGCTTCTTGGGTAG	0.716													5	1					0	0	0.00499	0	0		G	125299786	G	G	125299786	3	3	136	1	0	0	0	0	1	0	0	0	4268	1609	56	5	1273	5	DCAF12L2	23	125299786	Missense_Mutation	SNP	T	TCGA-CG-4444-01A-01D-1158-08	20146708	125299786	29970774	209	74728											
IGSF1	3547	broad.mit.edu	37	chrX	130417042	130417042	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggtaatgtccagtatcttgGatcttcaaagactggaagaa	14	11	10	6	0	3	2	1	0	2	2	4	4	4	4	1	3	0	2	1	3	5	4			TCGA-CG-4444-01A-01D-1158-08	TCGA-CG-4444-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	3371f62e-5697-420b-9420-a5076ce77fc1	80c8f666-d087-4d69-87fa-a9072901d925	g.chrX:130417042G>A	uc004ewd.2	-	6	1102	c.864C>T	c.(862-864)ATC>ATT	p.I288I	IGSF1_uc004ewe.3_Silent_p.I277I|IGSF1_uc004ewf.2_Silent_p.I268I	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	288	Ig-like C2-type 3.|Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						CAGTATCTTGGATCTTCAAAG	0.403													21	129					0	0	0.008871	0	0		A	130417042	A	A	130417042	2	1	136	1	0	0	0	0	0	0	0	1	7612	1164	41	4		4	IGSF1	23	130417042	Silent	SNP	G	TCGA-CG-4444-01A-01D-1158-08	5117256	130417042	24853518	210	74729											
HIVEP3	59269	broad.mit.edu	37	chr1	41979398	41979398	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accctctcgtccttccgagtCctggaacaggtcgtcactgg	6	10	10	15	3	2	0	1	0	1	0	7	2	5	1	4	3	1	0	4	3	1	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:41979398C>A	uc001cgz.3	-	8	6707	c.5494G>T	c.(5494-5496)GAC>TAC	p.D1832Y	HIVEP3_uc001cha.3_Missense_Mutation_p.D1832Y|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1832	Acidic 3.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CCTTCCGAGTCCTGGAACAGG	0.562													17	53					6.49762e-13	7.26771e-13	0.175082	1	0		A	41979398	A	A	41979398	3	1	137	1	0	0	0	0	1	0	0	0	7204	855	30	5	1734	5	HIVEP3	1	41979398	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08		41979398	207271223	1	74730											
FGGY	55277	broad.mit.edu	37	chr1	60073530	60073530	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccttatttctcagccaTggtacctgggttctggctga	5	13	13	10	0	2	1	1	1	2	0	3	1	2	1	3	5	2	3	3	5	2	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:60073530T>A	uc001czi.3	+	9	1171	c.959T>A	c.(958-960)ATG>AAG	p.M320K	FGGY_uc001czg.2_Missense_Mutation_p.M208K|FGGY_uc001czh.2_RNA|FGGY_uc009wac.2_Missense_Mutation_p.M320K|FGGY_uc001czj.3_Missense_Mutation_p.M319K|FGGY_uc001czk.3_Missense_Mutation_p.M208K|FGGY_uc001czl.3_Missense_Mutation_p.M232K|FGGY_uc001czm.3_Missense_Mutation_p.M21K	NM_018291	NP_060761	Q96C11	FGGY_HUMAN	FGGY carbohydrate kinase domain containing	320					carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)					TTCTCAGCCATGGTACCTGGG	0.438													14	214					0	0	0.146539	0	0		A	60073530	A	A	60073530	3	1	137	1	0	0	0	0	1	0	0	0	5885	1464	51	5	989	5	FGGY	1	60073530	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	18094132	60073530	189177091	2	74731											
DOCK7	85440	broad.mit.edu	37	chr1	63119745	63119745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaaattcaatcaaatccCgtaaaggcccagaatccaca	17	6	7	11	1	2	1	2	0	0	1	4	3	4	2	3	2	0	1	3	2	6	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:63119745C>T	uc001daq.2	-	3	264	c.230G>A	c.(229-231)CGG>CAG	p.R77Q	DOCK7_uc001dan.2_5'Flank|DOCK7_uc001dao.2_5'Flank|DOCK7_uc001dap.2_Missense_Mutation_p.R77Q|DOCK7_uc009wah.1_Missense_Mutation_p.R77Q	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	77					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						AATCAAATCCCGTAAAGGCCC	0.433													56	60					0	0	0.139131	0	0		T	63119745	T	T	63119745	3	4	137	1	0	0	0	0	1	0	0	0	4698	652	23	1	6287	1	DOCK7	1	63119745	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	3046215	63119745	186130876	3	74732											
SERBP1	26135	broad.mit.edu	37	chr1	67895811	67895811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttggagttggtctgggccGcggcctgagctgcgctcttg	2	11	17	11	4	2	1	0	1	2	0	2	2	2	2	2	4	2	4	2	4	0	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:67895811G>A	uc001ddv.2	-	1	313	c.173C>T	c.(172-174)GCG>GTG	p.A58V	SERBP1_uc001ddx.2_Missense_Mutation_p.A58V|SERBP1_uc001ddy.2_Missense_Mutation_p.A58V|SERBP1_uc001ddw.2_Missense_Mutation_p.A58V	NM_001018067	NP_001018077	Q8NC51	PAIRB_HUMAN	SERPINE1 mRNA binding protein 1 isoform 1	58					regulation of mRNA stability	nucleus|perinuclear region of cytoplasm	mRNA 3'-UTR binding|protein binding			skin(1)	1						GGTCTGGGCCGCGGCCTGAGC	0.657													70	83					0	0	0.139131	0	0		A	67895811	A	A	67895811	3	1	137	1	0	0	0	0	1	0	0	0	14100	1087	38	1	1085	1	SERBP1	1	67895811	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	4776066	67895811	181354810	4	74733											
TMEM56	148534	broad.mit.edu	37	chr1	95609526	95609526	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacctttcagcttcttttCtactttgtaagttactggtt	6	21	5	9	0	4	0	2	0	2	0	4	0	4	0	1	1	3	4	1	1	3	10			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:95609526C>A	uc001drb.2	+	2	360	c.69C>A	c.(67-69)TTC>TTA	p.F23L	RWDD3_uc001drd.3_Missense_Mutation_p.F23L|TMEM56_uc001drc.2_Missense_Mutation_p.F23L	NM_152487	NP_689700	Q96MV1	TMM56_HUMAN	transmembrane protein 56	23	Helical; (Potential).					integral to membrane					0		all_lung(203;0.0232)|Lung NSC(277;0.0739)		all cancers(265;0.133)		AGCTTCTTTTCTACTTTGTAA	0.353													36	93					9.17885e-22	1.03433e-21	0.183431	1	0		A	95609526	A	A	95609526	3	1	137	1	0	0	0	0	1	0	0	0	16208	912	32	5	71	5	TMEM56	1	95609526	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	27713715	95609526	153641095	5	74734											
NTNG1	22854	broad.mit.edu	37	chr1	107691262	107691262	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgccctttgggttacggTgtcctcagtgatgcagccct	5	13	11	12	1	2	1	2	1	0	0	3	1	3	1	3	2	4	2	3	2	1	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:107691262T>A	uc001dvh.3	+	2	765	c.47T>A	c.(46-48)GTG>GAG	p.V16E	NTNG1_uc001dvf.3_Missense_Mutation_p.V16E|NTNG1_uc010out.1_Missense_Mutation_p.V16E|NTNG1_uc001dvc.3_Missense_Mutation_p.V16E|NTNG1_uc001dvd.1_Missense_Mutation_p.V16E	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	16					axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		TGGGTTACGGTGTCCTCAGTG	0.418													51	179					0	0	0.139131	0	0		A	107691262	A	A	107691262	3	1	137	1	0	0	0	0	1	0	0	0	10723	1696	59	5	49	5	NTNG1	1	107691262	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	12081736	107691262	141559359	6	74735											
STXBP3	6814	broad.mit.edu	37	chr1	109342845	109342845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actctttccttccttaggatGctattgataatagattagat	11	17	6	7	0	1	3	0	1	1	2	3	4	3	4	2	1	1	1	2	1	5	8			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:109342845G>A	uc001dvy.2	+	17	1528	c.1453G>A	c.(1453-1455)GCT>ACT	p.A485T	STXBP3_uc001dvz.2_RNA	NM_007269	NP_009200	O00186	STXB3_HUMAN	syntaxin binding protein 3	485					negative regulation of calcium ion-dependent exocytosis|neutrophil degranulation|platelet aggregation|protein transport|vesicle docking involved in exocytosis	cytosol|nucleus|platelet alpha granule|specific granule|tertiary granule	syntaxin-2 binding			ovary(3)|central_nervous_system(1)	4		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0386)|Lung(183;0.104)|COAD - Colon adenocarcinoma(174;0.137)|Epithelial(280;0.231)		TCCTTAGGATGCTATTGATAA	0.358													24	112					0	0	0.116897	0	0		A	109342845	A	A	109342845	3	1	137	1	0	0	0	0	1	0	0	0	15379	1319	46	2	1519	2	STXBP3	1	109342845	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	1651583	109342845	139907776	7	74736											
TCHH	7062	broad.mit.edu	37	chr1	152081126	152081126	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgttgctggcggtgcagctGctgttcctcctcgaggaatt	4	12	13	12	3	0	0	0	0	0	0	3	2	2	1	3	3	4	6	3	3	1	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:152081126G>T	uc001ezp.2	-	2	4567	c.4567C>A	c.(4567-4569)CAG>AAG	p.Q1523K	TCHH_uc009wne.1_Missense_Mutation_p.Q1523K	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1523	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGGTGCAGCTGCTGTTCCTCC	0.597													5	77					0.000602214	0.000649531	0.014758	1	0		T	152081126	T	T	152081126	3	4	137	1	0	0	0	0	1	0	0	0	15725	1328	46	5	1268	5	TCHH	1	152081126	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	42738281	152081126	97169495	8	74737											
FLG2	388698	broad.mit.edu	37	chr1	152328248	152328248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggattgtcctgagccagaaaCatgttgtccaaagccagagg	12	8	12	9	0	0	3	0	1	0	2	2	4	2	4	4	2	3	1	4	2	2	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:152328248C>T	uc001ezw.3	-	3	2087	c.2014G>A	c.(2014-2016)GTT>ATT	p.V672I	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	672	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GAGCCAGAAACATGTTGTCCA	0.483													128	334					0	0	0.139131	0	0		T	152328248	T	T	152328248	3	4	137	1	0	0	0	0	1	0	0	0	5937	478	17	4	5165	4	FLG2	1	152328248	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	247122	152328248	96922373	9	74738											
MTX1	4580	broad.mit.edu	37	chr1	155179076	155179076	+	Frame_Shift_Del	DEL	G	-	-																															tggagctgttctgctggtcaGggggctgggggctgccgtca																										TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:155179076delG	uc001fjb.2	+	1	587	c.481delG	c.(481-483)GGGfs	p.G161fs	RAG1AP1_uc010pey.1_Intron|THBS3_uc001fix.2_5'Flank|THBS3_uc009wqi.2_5'Flank|THBS3_uc001fiz.2_5'Flank|THBS3_uc001fiy.2_5'Flank|THBS3_uc010pfu.1_5'Flank|THBS3_uc010pfv.1_5'Flank|THBS3_uc001fja.2_5'Flank|THBS3_uc009wqj.1_5'Flank|MTX1_uc001fjc.2_Frame_Shift_Del_p.G161fs	NM_002455	NP_002446	Q13505	MTX1_HUMAN	metaxin 1 isoform 1	161					protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane	protein binding			skin(1)	1	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CTGCTGGTCAGGGGGCTGGGG	0.706													2	4	---	---	---	---						.	-	155179076	-	-	155179076	7	5	137	1	0	1	0	1	0	0	0	0	9985	1000	35	0	483	0	MTX1	1	155179076	Frame_Shift_Del	DEL	G	TCGA-CG-4449-01A-01D-1158-08	2850828	155179076	94071545	10	74739											
OR10Z1	128368	broad.mit.edu	37	chr1	158576420	158576420	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatgtacctcttcctttcCttcctatccttctctgagac	5	16	3	17	0	2	1	0	1	2	1	7	2	6	1	6	0	1	1	6	0	2	6			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:158576420C>A	uc010pio.1	+	1	192	c.192C>A	c.(190-192)TCC>TCA	p.S64S		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					TCTTCCTTTCCTTCCTATCCT	0.522													107	292					4.00015e-43	4.61086e-43	0.139131	1	0		A	158576420	A	A	158576420	2	1	137	1	0	0	0	0	0	0	0	1	10942	668	24	5		5	OR10Z1	1	158576420	Silent	SNP	C	TCGA-CG-4449-01A-01D-1158-08	3397344	158576420	90674201	11	74740											
ALDH9A1	223	broad.mit.edu	37	chr1	165664521	165664521	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcctccaaaaggattcGgcaacgctccatgccagatt	11	7	10	13	2	0	1	0	0	0	1	3	2	2	2	4	3	3	3	4	3	3	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:165664521G>T	uc001gdh.1	-	2	400	c.295C>A	c.(295-297)CGA>AGA	p.R99R	ALDH9A1_uc010pky.1_Silent_p.R5R|ALDH9A1_uc010pkz.1_Silent_p.R89R|ALDH9A1_uc010pla.1_Silent_p.R5R	NM_000696	NP_000687	P49189	AL9A1_HUMAN	aldehyde dehydrogenase 9A1	75					carnitine biosynthetic process|cellular aldehyde metabolic process|hormone metabolic process|neurotransmitter biosynthetic process	cytosol|plasma membrane	3-chloroallyl aldehyde dehydrogenase activity|4-trimethylammoniobutyraldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aminobutyraldehyde dehydrogenase activity				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				NADH(DB00157)	AAAAGGATTCGGCAACGCTCC	0.398													3	119					0.00909568	0.00974076	0.150653	1	0		T	165664521	T	T	165664521	2	4	137	1	0	0	0	0	0	0	0	1	506	1124	39	5		5	ALDH9A1	1	165664521	Silent	SNP	G	TCGA-CG-4449-01A-01D-1158-08	7088101	165664521	83586100	12	74741											
FAM5B	57795	broad.mit.edu	37	chr1	177250031	177250031	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgttggccttgtccttgcaGatctgtctcaccaagaacag	9	12	9	11	0	2	2	1	0	2	2	4	2	3	2	3	1	2	2	3	1	2	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:177250031G>C	uc001glf.2	+	8	2031	c.1719G>C	c.(1717-1719)CAG>CAC	p.Q573H	FAM5B_uc001glg.2_Missense_Mutation_p.Q468H	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	573						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TGTCCTTGCAGATCTGTCTCA	0.567													13	47					0	0	0.105934	0	0		C	177250031	C	C	177250031	3	2	137	1	0	0	0	0	1	0	0	0	5607	933	33	5	1745	5	FAM5B	1	177250031	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	11585510	177250031	72000590	13	74742											
PTPRC	5788	broad.mit.edu	37	chr1	198719669	198719669	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgctcagggaccactgaagGagaccattggtgacttttgg	9	10	13	9	0	1	3	1	2	0	1	1	5	1	4	2	4	1	1	2	4	1	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:198719669G>T	uc001gur.1	+	29	3295	c.3115G>T	c.(3115-3117)GAG>TAG	p.E1039*	PTPRC_uc001gus.1_Nonsense_Mutation_p.E991*|PTPRC_uc001gut.1_Nonsense_Mutation_p.E878*	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	1039	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						ACCACTGAAGGAGACCATTGG	0.418													35	142					6.02846e-25	6.84434e-25	0.183431	1	0		T	198719669	T	T	198719669	4	4	137	1	0	0	0	0	0	1	0	0	12822	1175	41	5	3236	5	PTPRC	1	198719669	Nonsense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	21469638	198719669	50530952	14	74743											
C1orf116	79098	broad.mit.edu	37	chr1	207198408	207198408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagtcgtagctgctatcaCtctgttgggtttggggttgg	5	14	16	6	1	2	0	1	0	1	0	3	1	2	1	0	5	2	6	0	5	3	5			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:207198408C>T	uc001hfd.2	-	3	366	c.107G>A	c.(106-108)AGT>AAT	p.S36N	C1orf116_uc009xcb.1_Translation_Start_Site	NM_023938	NP_076427	Q9BW04	SARG_HUMAN	specifically androgen-regulated protein isoform	36						cytoplasm|plasma membrane	receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Prostate(682;0.19)					GCTGCTATCACTCTGTTGGGT	0.368													7	44					0	0	0.038147	0	0		T	207198408	T	T	207198408	3	4	137	1	0	0	0	0	1	0	0	0	1992	579	20	4	1706	4	C1orf116	1	207198408	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	8478739	207198408	42052213	15	74744											
RYR2	6262	broad.mit.edu	37	chr1	237774171	237774171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcacacgtcctgtggagcaGaatgcccaaccagtttttga	10	10	10	11	1	1	2	1	1	0	1	2	3	2	3	3	1	3	2	3	1	2	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:237774171G>A	uc001hyl.1	+	36	4913	c.4793G>A	c.(4792-4794)AGA>AAA	p.R1598K		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1598	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CTGTGGAGCAGAATGCCCAAC	0.547													13	24					0	0	0.09319	0	0		A	237774171	A	A	237774171	3	1	137	1	0	0	0	0	1	0	0	0	13794	942	33	4	4935	4	RYR2	1	237774171	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	30575763	237774171	11476450	16	74745											
MAP1LC3C	440738	broad.mit.edu	37	chr1	242159615	242159615	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagatctctgccatggttgcGctcatgctgaccaggctctt	6	13	10	12	1	3	2	1	1	2	1	4	2	3	2	2	2	3	4	2	2	1	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:242159615G>A	uc001hzk.2	-	4	369	c.294C>T	c.(292-294)AGC>AGT	p.S98S		NM_001004343	NP_001004343	Q9BXW4	MLP3C_HUMAN	microtubule-associated protein 1 light chain 3	98					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule	protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CCATGGTTGCGCTCATGCTGA	0.567													50	167					0	0	0.139131	0	0		A	242159615	A	A	242159615	2	1	137	1	0	0	0	0	0	0	0	1	9251	1078	38	1		1	MAP1LC3C	1	242159615	Silent	SNP	G	TCGA-CG-4449-01A-01D-1158-08	4385444	242159615	7091006	17	74746											
CEP170	9859	broad.mit.edu	37	chr1	243328999	243328999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggtgtccactgagcctcctCcctttgttcttgttgttgaa	5	16	9	11	0	1	2	0	2	1	0	4	2	4	2	4	1	1	3	4	1	1	5			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr1:243328999C>T	uc001hzs.2	-	13	2671	c.2263G>A	c.(2263-2265)GAG>AAG	p.E755K	CEP170_uc001hzt.2_Missense_Mutation_p.E657K|CEP170_uc001hzu.2_Missense_Mutation_p.E657K|CEP170_uc001hzv.1_Missense_Mutation_p.E133K	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	755						centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			TGAGCCTCCTCCCTTTGTTCT	0.393													10	278					0	0	0.069234	0	0		T	243328999	T	T	243328999	3	4	137	1	0	0	0	0	1	0	0	0	3253	864	30	4	2553	4	CEP170	1	243328999	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	1169384	243328999	5921622	18	74747											
IAH1	285148	broad.mit.edu	37	chr2	9624561	9624561	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctatttcttctcttcaatagGttgcaaactaaatcgcctga	11	15	5	10	1	3	1	1	1	2	0	5	1	3	1	1	1	2	2	1	1	6	7			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr2:9624561G>T	uc002qzr.2	+	5	472	c.446G>T	c.(445-447)GGT>GTT	p.G149V	IAH1_uc002qzs.2_Missense_Mutation_p.G36V|IAH1_uc002qzt.2_Missense_Mutation_p.G36V|IAH1_uc010yiz.1_RNA	NM_001039613	NP_001034702	Q2TAA2	IAH1_HUMAN	isoamyl acetate-hydrolyzing esterase 1 homolog	149					lipid catabolic process		hydrolase activity, acting on ester bonds				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TCTTCAATAGGTTGCAAACTA	0.458													4	103					0.00024832	0.000269758	0.150653	1	0		T	9624561	T	T	9624561	3	4	137	1	0	0	0	0	1	0	0	0	7487	1275	44	5	464	5	IAH1	2	9624561	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08		9624561	233574812	19	74748											
TET3	200424	broad.mit.edu	37	chr2	74328640	74328640	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgcaggggccagccagctGgacagggcctggcagtcctt	6	5	16	14	1	0	0	0	0	0	0	1	1	1	1	5	5	2	3	5	5	0	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr2:74328640G>C	uc002skb.3	+	9	4320	c.4320G>C	c.(4318-4320)CTG>CTC	p.L1440L		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	1440							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CCAGCCAGCTGGACAGGGCCT	0.612													4	18					0	0	0.038147	0	0		C	74328640	C	C	74328640	2	2	137	1	0	0	0	0	0	0	0	1	15796	1335	47	5		5	TET3	2	74328640	Silent	SNP	G	TCGA-CG-4449-01A-01D-1158-08	64704079	74328640	168870733	20	74749											
XIRP2	129446	broad.mit.edu	37	chr2	168104460	168104460	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggactttcagaagcaaacTttgttaaagcaagaaacaaa	18	8	9	6	0	1	2	1	0	0	2	1	3	1	3	0	2	4	3	0	2	7	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr2:168104460T>G	uc002udx.2	+	8	6576	c.6558T>G	c.(6556-6558)ACT>ACG	p.T2186T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.T2011T|XIRP2_uc010fpq.2_Silent_p.T1964T|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2011					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGAAGCAAACTTTGTTAAAGC	0.408													25	75					0	0	0.0918	0	0		G	168104460	G	G	168104460	2	3	137	1	0	0	0	0	0	0	0	1	17456	1596	56	5		5	XIRP2	2	168104460	Silent	SNP	T	TCGA-CG-4449-01A-01D-1158-08	93775820	168104460	75094913	21	74750											
XIRP2	129446	broad.mit.edu	37	chr2	168107180	168107180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatcatgaagcaactgttcGtagtcacgtgaaaacccatc	13	10	7	11	2	3	2	3	2	0	0	5	2	3	2	1	0	3	3	1	0	5	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr2:168107180G>A	uc002udx.2	+	8	9296	c.9278G>A	c.(9277-9279)CGT>CAT	p.R3093H	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.R2918H|XIRP2_uc010fpq.2_Missense_Mutation_p.R2871H|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2918					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GCAACTGTTCGTAGTCACGTG	0.378													37	93					0	0	0.074837	0	0		A	168107180	A	A	168107180	3	1	137	1	0	0	0	0	1	0	0	0	17456	1145	40	1	9308	1	XIRP2	2	168107180	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	2720	168107180	75092193	22	74751											
PGAP1	80055	broad.mit.edu	37	chr2	197708744	197708744	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ataaacgaagatggtgtattGaggagtctttatgatgattg	13	14	12	2	1	1	4	0	3	1	1	1	6	1	5	0	2	1	1	0	2	5	6			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr2:197708744G>C	uc002utw.2	-	25	2507	c.2393C>G	c.(2392-2394)TCA>TGA	p.S798*	PGAP1_uc002utx.2_Nonsense_Mutation_p.S624*|PGAP1_uc010fsi.2_Nonsense_Mutation_p.S72*	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	798	Cytoplasmic (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						ATGGTGTATTGAGGAGTCTTT	0.348													20	48					0	0	0.049695	0	0		C	197708744	C	C	197708744	4	2	137	1	0	0	0	0	0	1	0	0	11796	1294	45	5	387	5	PGAP1	2	197708744	Nonsense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	29601564	197708744	45490629	23	74752											
NBEAL1	65065	broad.mit.edu	37	chr2	204000806	204000806	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtttagacctcagtggaaTtgactcatgtgaaatgagtg	12	12	12	5	0	2	4	2	3	0	1	2	6	2	5	1	1	0	1	1	1	3	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr2:204000806T>A	uc002uzt.3	+	27	4466	c.4133T>A	c.(4132-4134)ATT>AAT	p.I1378N	NBEAL1_uc002uzs.3_Missense_Mutation_p.I88N	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	1378							binding			ovary(1)|skin(1)	2						CTCAGTGGAATTGACTCATGT	0.433													23	74					0	0	0.076483	0	0		A	204000806	A	A	204000806	3	1	137	1	0	0	0	0	1	0	0	0	10206	1493	52	5	4235	5	NBEAL1	2	204000806	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	6292062	204000806	39198567	24	74753											
NEU4	129807	broad.mit.edu	37	chr2	242758315	242758315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcctggagaacgtgcccGccagccccaagccgcccaac	9	3	11	18	3	0	1	0	0	0	1	1	2	1	1	7	2	5	0	7	2	3	0	rs144038379	by1000genomes	TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr2:242758315G>A	uc010fzr.2	+	4	1482	c.1396G>A	c.(1396-1398)GCC>ACC	p.A466T	NEU4_uc002wcl.2_RNA|NEU4_uc002wcm.2_Missense_Mutation_p.A466T|NEU4_uc002wcn.1_Missense_Mutation_p.A478T|NEU4_uc002wco.1_Missense_Mutation_p.A466T|NEU4_uc002wcp.1_Missense_Mutation_p.A478T	NM_080741	NP_542779	Q8WWR8	NEUR4_HUMAN	sialidase 4	466						lysosomal lumen|organelle inner membrane	exo-alpha-sialidase activity|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;3.84e-33)|all cancers(36;8.08e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.41e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0825)		GAACGTGCCCGCCAGCCCCAA	0.642													6	9					0	0	0.02938	0	0		A	242758315	A	A	242758315	3	1	137	1	0	0	0	0	1	0	0	0	10363	1087	38	1	1449	1	NEU4	2	242758315	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	38757509	242758315	441058	25	74754											
EPM2AIP1	9852	broad.mit.edu	37	chr3	37033459	37033459	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cattgtttgtctgagaagtgGactgttgttgcccctactga	7	15	11	8	0	1	2	0	2	1	1	1	4	1	3	2	1	2	3	2	1	2	5			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr3:37033459G>C	uc003cgk.2	-	1	1337	c.1110C>G	c.(1108-1110)GTC>GTG	p.V370V	MLH1_uc011aye.1_5'Flank|MLH1_uc003cgl.2_5'Flank|MLH1_uc011ayb.1_5'Flank|MLH1_uc010hge.2_5'Flank|MLH1_uc003cgn.3_5'Flank|MLH1_uc011ayc.1_5'Flank|MLH1_uc011ayd.1_5'Flank|MLH1_uc003cgo.2_5'Flank	NM_014805	NP_055620	Q7L775	EPMIP_HUMAN	EPM2A interacting protein 1	370						endoplasmic reticulum					0						CTGAGAAGTGGACTGTTGTTG	0.398													4	438					0	0	0.150653	0	0		C	37033459	C	C	37033459	2	2	137	1	0	0	0	0	0	0	0	1	5192	1161	41	5		5	EPM2AIP1	3	37033459	Silent	SNP	G	TCGA-CG-4449-01A-01D-1158-08		37033459	160988971	26	74755											
CNTN3	5067	broad.mit.edu	37	chr3	74351856	74351856	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttacctcttactatgaggtCagcagcagatgaaacactgt	12	12	8	9	0	2	3	1	2	1	1	2	3	2	3	1	1	5	2	1	1	4	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr3:74351856C>G	uc003dpm.1	-	13	1851	c.1771G>C	c.(1771-1773)GAC>CAC	p.D591H		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	591	Ig-like C2-type 6.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		ACTATGAGGTCAGCAGCAGAT	0.403													10	33					0	0	0.09319	0	0		G	74351856	G	G	74351856	3	3	137	1	0	0	0	0	1	0	0	0	3645	826	29	5	1355	5	CNTN3	3	74351856	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	37318397	74351856	123670574	27	74756											
OR5H14	403273	broad.mit.edu	37	chr3	97869090	97869090	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atagttcctttattaaatccCatgatctacagcctgagaaa	14	13	5	9	0	1	2	0	2	1	1	3	3	3	2	3	0	2	1	3	0	6	6			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr3:97869090C>G	uc003dsg.1	+	1	861	c.861C>G	c.(859-861)CCC>CCG	p.P287P		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	287	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TATTAAATCCCATGATCTACA	0.363													20	47					0	0	0.083992	0	0		G	97869090	G	G	97869090	2	3	137	1	0	0	0	0	0	0	0	1	11179	581	21	5		5	OR5H14	3	97869090	Silent	SNP	C	TCGA-CG-4449-01A-01D-1158-08	23517234	97869090	100153340	28	74757											
ZBED2	79413	broad.mit.edu	37	chr3	111312961	111312961	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccaaccagttctcctgtctCactaatctcttcctcctcct	6	14	3	18	0	3	0	1	0	3	0	9	0	6	0	6	0	1	1	6	0	2	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr3:111312961C>G	uc003dxy.2	-	2	973	c.88G>C	c.(88-90)GAG>CAG	p.E30Q	CD96_uc003dxv.2_Intron|CD96_uc003dxw.2_Intron|CD96_uc003dxx.2_Intron|CD96_uc010hpy.1_Intron	NM_024508	NP_078784	Q9BTP6	ZBED2_HUMAN	zinc finger, BED domain containing 2	30							DNA binding|metal ion binding			skin(1)	1						TCTCCTGTCTCACTAATCTCT	0.512													7	113					0	0	0.02938	0	0		G	111312961	G	G	111312961	3	3	137	1	0	0	0	0	1	0	0	0	17544	835	29	5	572	5	ZBED2	3	111312961	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	13443871	111312961	86709469	29	74758											
PHLDB2	90102	broad.mit.edu	37	chr3	111659435	111659435	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacattgttcagcaggctcaGagagagcaagatcattttgt	12	11	10	8	0	3	3	3	0	0	3	3	4	3	3	0	1	2	4	0	1	1	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr3:111659435G>A	uc010hqa.2	+	8	2751	c.2340G>A	c.(2338-2340)CAG>CAA	p.Q780Q	PHLDB2_uc003dyc.2_Silent_p.Q764Q|PHLDB2_uc003dyd.2_Silent_p.Q737Q|PHLDB2_uc003dyg.2_Silent_p.Q780Q|PHLDB2_uc003dyh.2_Silent_p.Q737Q|PHLDB2_uc003dyi.2_Silent_p.Q366Q	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	780	Potential.					cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						AGCAGGCTCAGAGAGAGCAAG	0.348													13	40					0	0	0.09319	0	0		A	111659435	A	A	111659435	2	1	137	1	0	0	0	0	0	0	0	1	11871	933	33	4		4	PHLDB2	3	111659435	Silent	SNP	G	TCGA-CG-4449-01A-01D-1158-08	346474	111659435	86362995	30	74759											
WDR52	55779	broad.mit.edu	37	chr3	113120574	113120574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcagcagtgtctattgtctCaaaatcccatatcttgtaaa	13	14	5	9	0	4	0	2	0	3	0	6	0	5	0	1	0	1	2	1	0	6	5			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr3:113120574C>T	uc003eae.1	-	10	1229	c.1183G>A	c.(1183-1185)GAG>AAG	p.E395K		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	395	WD 4.									central_nervous_system(1)	1						TCTATTGTCTCAAAATCCCAT	0.313													18	78					0	0	0.069288	0	0		T	113120574	T	T	113120574	3	4	137	1	0	0	0	0	1	0	0	0	17330	835	29	4	4500	4	WDR52	3	113120574	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	1461139	113120574	84901856	31	74760											
GOLGB1	2804	broad.mit.edu	37	chr3	121445864	121445864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatcttttctatttccatctCttcctctgtagaactcttgt	6	21	3	11	0	5	1	0	0	5	1	8	1	7	1	2	0	1	1	2	0	4	8			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr3:121445864C>T	uc003eei.3	-	5	553	c.427G>A	c.(427-429)GAG>AAG	p.E143K	GOLGB1_uc010hrc.2_Missense_Mutation_p.E143K|GOLGB1_uc003eej.3_Missense_Mutation_p.E104K|GOLGB1_uc011bjm.1_Missense_Mutation_p.E104K|GOLGB1_uc010hrd.1_Missense_Mutation_p.E143K	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	143	Potential.|Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		ATTTCCATCTCTTCCTCTGTA	0.348													20	51					0	0	0.062417	0	0		T	121445864	T	T	121445864	3	4	137	1	0	0	0	0	1	0	0	0	6580	922	32	4	9424	4	GOLGB1	3	121445864	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	8325290	121445864	76576566	32	74761											
NDST3	9348	broad.mit.edu	37	chr4	119059215	119059215	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttggtcttaggagcacGgcattccaacggacatgggc	8	10	13	10	2	1	0	0	0	1	0	2	2	2	2	1	5	3	3	1	5	2	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr4:119059215G>A	uc003ibx.2	+	5	1634	c.1231G>A	c.(1231-1233)GGC>AGC	p.G411S	NDST3_uc011cgf.1_Missense_Mutation_p.G330S	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	411	Lumenal (Potential).|Heparan sulfate N-deacetylase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						TTAGGAGCACGGCATTCCAAC	0.418													28	40					0	0	0.144211	0	0		A	119059215	A	A	119059215	3	1	137	1	0	0	0	0	1	0	0	0	10276	1116	39	1	1245	1	NDST3	4	119059215	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08		119059215	72095061	33	74762											
ATP10B	23120	broad.mit.edu	37	chr5	160067471	160067472	+	Frame_Shift_Ins	INS	-	A	A																															ccagaacatcccatacctacINSagctccaataaggcacatga																										TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr5:160067471_160067472insA	uc003lym.1	-	10	1843_1844	c.996_997insT	c.(994-999)GCTGTAfs	p.A332fs	ATP10B_uc003lyp.2_Frame_Shift_Ins_p.A332fs|ATP10B_uc011deg.1_Frame_Shift_Ins_p.A376fs|ATP10B_uc003lyo.2_Frame_Shift_Ins_p.A304fs	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	332_333	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCCATACCTACAGCTCCAATAA	0.371													46	80	---	---	---	---						.	A	160067472	A	A	160067471	7	5	137	1	0	1	1	0	0	0	0	0	1118	478	17	0	3456	0	ATP10B	5	160067471	Frame_Shift_Ins	INS	-	TCGA-CG-4449-01A-01D-1158-08		160067471	20847789	34	74763											
SCAND3	114821	broad.mit.edu	37	chr6	28543037	28543037	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcatccaggagaaaatcCtctttcggatatcctcagtt	10	14	7	10	1	2	1	1	0	1	1	6	3	5	2	3	2	1	2	3	2	3	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr6:28543037C>G	uc003nlo.2	-	3	2063	c.1445G>C	c.(1444-1446)AGG>ACG	p.R482T		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	482	Integrase catalytic.				DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGAGAAAATCCTCTTTCGGAT	0.423													29	96					0	0	0.125774	0	0		G	28543037	G	G	28543037	3	3	137	1	0	0	0	0	1	0	0	0	13901	681	24	5	2540	5	SCAND3	6	28543037	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08		28543037	142572030	35	74764											
RGL2	5863	broad.mit.edu	37	chr6	33263368	33263368	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcacctccccaggtccctCtccagtggaagtagccccca	7	7	9	18	0	2	0	1	0	1	0	5	1	4	1	7	3	1	1	7	3	2	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr6:33263368C>A	uc003odv.2	-	7	1070	c.937G>T	c.(937-939)GAG>TAG	p.E313*	RGL2_uc003odu.2_5'UTR|RGL2_uc010jur.2_5'UTR|RGL2_uc003odw.2_Nonsense_Mutation_p.E231*|RGL2_uc011drb.1_Nonsense_Mutation_p.E231*	NM_004761	NP_004752	O15211	RGL2_HUMAN	ral guanine nucleotide dissociation	313	Ras-GEF.				Ras protein signal transduction|regulation of small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity			skin(3)|lung(1)|breast(1)|pancreas(1)	6						CCAGGTCCCTCTCCAGTGGAA	0.597													7	49					4.68919e-08	5.16838e-08	0.069234	1	0		A	33263368	A	A	33263368	4	1	137	1	0	0	0	0	0	1	0	0	13302	922	32	5	1444	5	RGL2	6	33263368	Nonsense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	4720331	33263368	137851699	36	74765											
ITPR3	3710	broad.mit.edu	37	chr6	33652629	33652629	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaccaagttggtatgcgAcctcatcaccagcaccaaga	12	6	9	14	1	2	1	2	0	0	1	2	2	2	1	5	2	2	3	5	2	3	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr6:33652629A>G	uc011drk.1	+	39	5435	c.5216A>G	c.(5215-5217)GAC>GGC	p.D1739G	ITPR3_uc003oey.2_5'Flank	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1739	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						TTGGTATGCGACCTCATCACC	0.627													12	152					0	0	0.11911	0	0		G	33652629	G	G	33652629	3	3	137	1	0	0	0	0	1	0	0	0	7938	275	10	3	5370	3	ITPR3	6	33652629	Missense_Mutation	SNP	A	TCGA-CG-4449-01A-01D-1158-08	389261	33652629	137462438	37	74766											
EYS	346007	broad.mit.edu	37	chr6	66063378	66063378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcccaattgccacacatattCaaattgagcaggacctttat	13	12	5	11	0	1	1	1	1	0	0	2	2	2	2	3	1	2	1	3	1	4	6			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr6:66063378C>T	uc011dxu.1	-	9	1970	c.1432G>A	c.(1432-1434)GAA>AAA	p.E478K	EYS_uc003peq.2_Missense_Mutation_p.E478K|EYS_uc003per.1_Missense_Mutation_p.E478K	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	478					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						CACACATATTCAAATTGAGCA	0.343													35	82					0	0	0.092188	0	0		T	66063378	T	T	66063378	3	4	137	1	0	0	0	0	1	0	0	0	5340	835	29	4	8104	4	EYS	6	66063378	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	32410749	66063378	105051689	38	74767											
KHDC1	80759	broad.mit.edu	37	chr6	73952192	73952192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggtgcatgaaagttttgagGcagggtccaccacggcttct	8	11	13	9	1	1	2	0	2	1	0	2	2	2	2	2	4	1	4	2	4	1	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr6:73952192G>A	uc003pgo.2	-	3	769	c.268C>T	c.(268-270)CCT>TCT	p.P90S	KHDC1_uc011dyl.1_RNA|KHDC1_uc003pgn.3_Missense_Mutation_p.P17S	NM_030568	NP_085045	Q4VXA5	KHDC1_HUMAN	KH homology domain containing 1	90						integral to membrane	RNA binding			skin(1)	1						AAGTTTTGAGGCAGGGTCCAC	0.542													29	79					0	0	0.144211	0	0		A	73952192	A	A	73952192	3	1	137	1	0	0	0	0	1	0	0	0	8160	1203	42	2	457	2	KHDC1	6	73952192	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	7888814	73952192	97162875	39	74768											
MRAP2	112609	broad.mit.edu	37	chr6	84798909	84798909	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtattttctcgccaaggcaaCgaggagtccaggtctctctt	8	12	10	11	2	3	0	0	0	3	0	6	2	4	1	2	3	1	2	2	3	3	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr6:84798909C>T	uc003pkg.3	+	4	517	c.327C>T	c.(325-327)AAC>AAT	p.N109N	MRAP2_uc010kbo.2_Silent_p.N23N	NM_138409	NP_612418	Q96G30	MRAP2_HUMAN	melanocortin 2 receptor accessory protein 2	109					positive regulation of cAMP biosynthetic process|protein localization at cell surface	endoplasmic reticulum|plasma membrane	corticotropin hormone receptor binding|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding|type 5 melanocortin receptor binding			skin(2)	2						GCCAAGGCAACGAGGAGTCCA	0.498													49	100					0	0	0.139131	0	0		T	84798909	T	T	84798909	2	4	137	1	0	0	0	0	0	0	0	1	9772	535	19	1		1	MRAP2	6	84798909	Silent	SNP	C	TCGA-CG-4449-01A-01D-1158-08	10846717	84798909	86316158	40	74769											
GRIK2	2898	broad.mit.edu	37	chr6	102247533	102247533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttttcagactgatgctgCtctaatgtatgatgctgtgc	7	16	10	8	0	2	3	1	2	1	1	2	3	2	3	0	0	5	5	0	0	2	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr6:102247533C>T	uc003pqp.3	+	7	1211	c.962C>T	c.(961-963)GCT>GTT	p.A321V	GRIK2_uc003pqn.2_Missense_Mutation_p.A321V|GRIK2_uc003pqo.3_Missense_Mutation_p.A321V|GRIK2_uc010kcw.2_Missense_Mutation_p.A321V	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	321	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	ACTGATGCTGCTCTAATGTAT	0.448													57	166					0	0	0.139131	0	0		T	102247533	T	T	102247533	3	4	137	1	0	0	0	0	1	0	0	0	6790	797	28	2	988	2	GRIK2	6	102247533	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	17448624	102247533	68867534	41	74770											
PERP	64065	broad.mit.edu	37	chr6	138428360	138428360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgaggacgtctggccgtggtCgctagactgcaaccagccgc	7	6	14	14	5	1	1	0	0	1	1	2	3	1	2	3	3	3	2	3	3	2	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr6:138428360C>T	uc003qht.2	-	1	301	c.118G>A	c.(118-120)GAC>AAC	p.D40N		NM_022121	NP_071404	Q96FX8	PERP_HUMAN	PERP, TP53 apoptosis effector	40					apoptosis|cell adhesion	desmosome|Golgi apparatus|integral to membrane|nucleus					0	Breast(32;0.0799)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000878)|OV - Ovarian serous cystadenocarcinoma(155;0.000997)		TGGCCGTGGTCGCTAGACTGC	0.677													12	88					0	0	0.132662	0	0		T	138428360	T	T	138428360	3	4	137	1	0	0	0	0	1	0	0	0	11751	884	31	1	475	1	PERP	6	138428360	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	36180827	138428360	32686707	42	74771											
C7orf70	84792	broad.mit.edu	37	chr7	6370486	6370486	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacaaacccacggctgtgctCggagtggctgctgaggctgg	8	7	15	11	2	0	1	0	1	0	0	1	2	0	2	1	5	4	5	1	5	2	0			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr7:6370486C>T	uc003spu.2	-	2	768	c.300G>A	c.(298-300)CCG>CCA	p.P100P		NM_001037163	NP_001032240	Q7Z4H9	SIPAR_HUMAN	hypothetical protein LOC84792	100						nucleus					0						CGGCTGTGCTCGGAGTGGCTG	0.597													17	73					0	0	0.055883	0	0		T	6370486	T	T	6370486	2	4	137	1	0	0	0	0	0	0	0	1	2418	871	31	1		1	C7orf70	7	6370486	Silent	SNP	C	TCGA-CG-4449-01A-01D-1158-08		6370486	152768177	43	74772											
OGDH	4967	broad.mit.edu	37	chr7	44687316	44687316	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggatgctgatctggacTcctccgtgcccgctgacatt	5	14	10	12	2	1	2	0	2	1	0	3	4	3	4	3	2	2	2	3	2	0	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr7:44687316T>C	uc003tln.2	+	4	584	c.475T>C	c.(475-477)TCC>CCC	p.S159P	OGDH_uc003tlm.2_Missense_Mutation_p.S159P|OGDH_uc011kbx.1_Intron|OGDH_uc011kby.1_Intron|OGDH_uc003tlp.2_Intron|OGDH_uc011kbz.1_Silent_p.T5T|OGDH_uc003tlo.1_5'UTR	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	159					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	TGATCTGGACTCCTCCGTGCC	0.557													3	118					0	0	0.115264	0	0		C	44687316	C	C	44687316	3	2	137	1	0	0	0	0	1	0	0	0	10858	1551	54	3	580	3	OGDH	7	44687316	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	38316830	44687316	114451347	44	74773											
SPDYE5	442590	broad.mit.edu	37	chr7	75130923	75130923	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaagaaccgctctcgcatAcccttgctccgtaagcgtcg	9	8	10	14	5	1	1	0	0	1	1	4	2	2	2	3	1	4	4	3	1	4	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr7:75130923A>G	uc011kfy.1	+	6	934	c.798A>G	c.(796-798)ATA>ATG	p.I266M		NM_001099435	NP_001092905	A6NIY4	SPDE5_HUMAN	speedy homolog E5	266	Arg-rich.										0						GCTCTCGCATACCCTTGCTCC	0.587													65	215					0	0	0.139131	0	0		G	75130923	G	G	75130923	3	3	137	1	0	0	0	0	1	0	0	0	15057	381	14	3	820	3	SPDYE5	7	75130923	Missense_Mutation	SNP	A	TCGA-CG-4449-01A-01D-1158-08	30443607	75130923	84007740	45	74774											
PTPRZ1	5803	broad.mit.edu	37	chr7	121653684	121653684	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgacattcagactggtagTgctctgcttcctctcagccc	8	12	8	13	0	3	2	2	1	2	1	5	2	4	2	2	1	3	3	2	1	2	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr7:121653684T>C	uc003vjy.2	+	12	4979	c.4584T>C	c.(4582-4584)AGT>AGC	p.S1528S	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1528	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						AGACTGGTAGTGCTCTGCTTC	0.448													10	49					0	0	0.069234	0	0		C	121653684	C	C	121653684	2	2	137	1	0	0	0	0	0	0	0	1	12839	1693	59	3		3	PTPRZ1	7	121653684	Silent	SNP	T	TCGA-CG-4449-01A-01D-1158-08	46522761	121653684	37484979	46	74775											
ERICH1	157697	broad.mit.edu	37	chr8	642594	642594	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtagagccgtcgggcagtcGgggtctcagagccagtgtct	6	9	16	10	3	2	2	1	0	2	2	5	2	2	2	2	3	2	2	2	3	1	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr8:642594G>A	uc003wph.2	-	3	253	c.188C>T	c.(187-189)CCG>CTG	p.P63L	ERICH1_uc011kwh.1_Missense_Mutation_p.P63L|ERICH1_uc003wpe.1_Intron	NM_207332	NP_997215	Q86X53	ERIC1_HUMAN	glutamate-rich 1	63										large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		TCGGGCAGTCGGGGTCTCAGA	0.567													16	31					0	0	0.146539	0	0		A	642594	A	A	642594	3	1	137	1	0	0	0	0	1	0	0	0	5238	1116	39	1	1159	1	ERICH1	8	642594	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08		642594	145721428	47	74776											
ZFHX4	79776	broad.mit.edu	37	chr8	77767078	77767078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcttgatcatattgcccgcGaagtcgggctgaaaaaaagg	12	9	12	8	3	1	2	1	2	0	0	2	3	1	2	1	2	2	2	1	2	5	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr8:77767078G>A	uc003yav.2	+	10	8173	c.7786G>A	c.(7786-7788)GAA>AAA	p.E2596K	ZFHX4_uc003yau.1_Missense_Mutation_p.E2641K|ZFHX4_uc003yaw.1_Missense_Mutation_p.E2596K	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2596	Homeobox 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TATTGCCCGCGAAGTCGGGCT	0.512										HNSCC(33;0.089)			23	54					0	0	0.069288	0	0		A	77767078	A	A	77767078	3	1	137	1	0	0	0	0	1	0	0	0	17660	1059	37	1	7955	1	ZFHX4	8	77767078	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	77124484	77767078	68596944	48	74777											
ZFAT	57623	broad.mit.edu	37	chr8	135614852	135614852	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcgcgtctcggatgtgcttGatgaggttcttgacgtcaga	6	13	14	8	4	3	4	1	3	2	1	4	5	3	5	0	2	2	2	0	2	0	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr8:135614852G>C	uc003yup.2	-	6	1285	c.1110C>G	c.(1108-1110)ATC>ATG	p.I370M	ZFAT_uc003yun.2_Missense_Mutation_p.I358M|ZFAT_uc003yuo.2_Missense_Mutation_p.I358M|ZFAT_uc010meh.2_Missense_Mutation_p.I358M|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.I358M|ZFAT_uc010mej.2_Missense_Mutation_p.I308M|ZFAT_uc003yur.2_Missense_Mutation_p.I358M	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	370	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			GGATGTGCTTGATGAGGTTCT	0.567													10	126					0	0	0.058154	0	0		C	135614852	C	C	135614852	3	2	137	1	0	0	0	0	1	0	0	0	17657	1280	45	5	2665	5	ZFAT	8	135614852	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	57847774	135614852	10749170	49	74778											
TRAPPC9	83696	broad.mit.edu	37	chr8	141415757	141415757	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttagcacgtccgatctcAgtactggtgtcagggttgat	7	14	11	9	2	3	1	2	1	2	0	5	2	4	1	1	2	2	3	1	2	2	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr8:141415757A>G	uc003yvj.2	-	6	1061	c.927T>C	c.(925-927)ACT>ACC	p.T309T	TRAPPC9_uc003yvh.2_Silent_p.T407T|TRAPPC9_uc003yvi.1_Silent_p.T300T	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	309					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						GTCCGATCTCAGTACTGGTGT	0.408													3	71					0	0	0.115264	0	0		G	141415757	G	G	141415757	2	3	137	1	0	0	0	0	0	0	0	1	16491	175	7	3		3	TRAPPC9	8	141415757	Silent	SNP	A	TCGA-CG-4449-01A-01D-1158-08	5800905	141415757	4948265	50	74779											
SLC45A4	57210	broad.mit.edu	37	chr8	142229090	142229090	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	caggaaggtctgggtccagtCcagcccacccagcacgtagc	9	5	12	15	1	1	0	0	0	1	0	3	1	3	1	4	3	3	2	4	3	2	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr8:142229090C>G	uc003ywd.1	-	4	804	c.496G>C	c.(496-498)GAC>CAC	p.D166H	SLC45A4_uc003ywc.1_Missense_Mutation_p.D166H|SLC45A4_uc010meq.1_Missense_Mutation_p.D164H	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	217					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			TGGGTCCAGTCCAGCCCACCC	0.667													26	78					0	0	0.134883	0	0		G	142229090	G	G	142229090	3	3	137	1	0	0	0	0	1	0	0	0	14668	855	30	5	1920	5	SLC45A4	8	142229090	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	813333	142229090	4134932	51	74780											
CPSF1	29894	broad.mit.edu	37	chr8	145621891	145621891	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccccctcctctgcgccGccaccttctgctttcttctt	2	13	5	21	2	4	0	0	0	4	0	5	0	5	0	7	0	3	1	7	0	0	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr8:145621891G>A	uc003zcj.2	-	25	2823	c.2748C>T	c.(2746-2748)GGC>GGT	p.G916G		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	916					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			CCTCTGCGCCGCCACCTTCTG	0.627													68	144					0	0	0.139131	0	0		A	145621891	A	A	145621891	2	1	137	1	0	0	0	0	0	0	0	1	3827	1074	38	1		1	CPSF1	8	145621891	Silent	SNP	G	TCGA-CG-4449-01A-01D-1158-08	3392801	145621891	742131	52	74781											
FLJ46321	389763	broad.mit.edu	37	chr9	84607898	84607898	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtacgtttgagcaagaaatTtgaggaaatcaatgagggtc	15	10	12	4	1	1	4	1	3	0	1	2	5	1	5	0	2	2	3	0	2	5	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr9:84607898T>G	uc004amn.2	+	4	2560	c.2513T>G	c.(2512-2514)TTT>TGT	p.F838C		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	838						integral to membrane					0						AGCAAGAAATTTGAGGAAATC	0.448													31	76					0	0	0.064281	0	0		G	84607898	G	G	84607898	3	3	137	1	0	0	0	0	1	0	0	0	5946	1841	64	5	2527	5	FLJ46321	9	84607898	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08		84607898	56605533	53	74782											
FAM120A	23196	broad.mit.edu	37	chr9	96214522	96214522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggcccggctgcacgagtggGtcaagcggcagggcaacgag	9	3	18	11	4	1	0	1	0	0	0	1	2	1	0	1	5	3	4	1	5	2	0			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr9:96214522G>A	uc004atw.2	+	1	350	c.325G>A	c.(325-327)GTC>ATC	p.V109I	FAM120AOS_uc004atm.2_5'Flank|FAM120AOS_uc004atn.3_5'Flank|FAM120AOS_uc004ato.3_5'Flank|FAM120AOS_uc004atp.3_5'Flank|FAM120AOS_uc004atq.3_5'Flank|FAM120AOS_uc004atr.3_5'Flank|FAM120AOS_uc004ats.3_Intron|FAM120AOS_uc004att.3_Intron|FAM120AOS_uc004atu.3_Missense_Mutation_p.T157I|FAM120A_uc004atv.2_Missense_Mutation_p.V109I	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	109						cytoplasm|plasma membrane	RNA binding				0						GCACGAGTGGGTCAAGCGGCA	0.667													5	4					0	0	0.069234	0	0		A	96214522	A	A	96214522	3	1	137	1	0	0	0	0	1	0	0	0	5426	1261	44	4	327	4	FAM120A	9	96214522	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	11606624	96214522	44998909	54	74783											
RGS3	5998	broad.mit.edu	37	chr9	116346512	116346512	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagaactcgctgcggcgccgGacgcacagcgagggcagcct	8	3	15	15	6	0	1	0	0	0	1	1	3	0	2	2	3	4	3	2	3	1	0			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr9:116346512G>A	uc004bhq.2	+	21	3029	c.2820G>A	c.(2818-2820)CGG>CGA	p.R940R	RGS3_uc004bhs.2_Silent_p.R830R|RGS3_uc004bht.2_Silent_p.R659R|RGS3_uc010muy.2_Intron|RGS3_uc004bhv.2_Silent_p.R261R|RGS3_uc010muz.1_Silent_p.R279R|RGS3_uc004bhw.2_Intron|RGS3_uc011lxh.1_Silent_p.R250R|RGS3_uc004bhx.2_Silent_p.R261R|RGS3_uc004bhy.1_Silent_p.R250R|RGS3_uc004bhz.2_Silent_p.R282R	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	940					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						TGCGGCGCCGGACGCACAGCG	0.697													31	72					0	0	0.153744	0	0		A	116346512	A	A	116346512	2	1	137	1	0	0	0	0	0	0	0	1	13331	1161	41	4		4	RGS3	9	116346512	Silent	SNP	G	TCGA-CG-4449-01A-01D-1158-08	20131990	116346512	24866919	55	74784											
DFNB31	25861	broad.mit.edu	37	chr9	117185721	117185721	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgcgccttcatggactcaAtctcacgcctcagcaccagg	8	7	9	17	3	4	0	4	0	1	0	5	1	4	1	4	2	1	1	4	2	1	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr9:117185721A>G	uc004biz.3	-	7	2148	c.1499T>C	c.(1498-1500)ATT>ACT	p.I500T	DFNB31_uc004bix.2_Missense_Mutation_p.I149T|DFNB31_uc004biy.3_Missense_Mutation_p.I117T|DFNB31_uc004bja.3_Missense_Mutation_p.I500T	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	500					inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CATGGACTCAATCTCACGCCT	0.622													24	118					0	0	0.183431	0	0		G	117185721	G	G	117185721	3	3	137	1	0	0	0	0	1	0	0	0	4461	101	4	3	1248	3	DFNB31	9	117185721	Missense_Mutation	SNP	A	TCGA-CG-4449-01A-01D-1158-08	839209	117185721	24027710	56	74785											
C10orf18	54906	broad.mit.edu	37	chr10	5789022	5789022	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggactcatcatcagcctctaCcaccttgggaaggcagtgtt	9	10	10	12	0	4	0	3	0	1	0	4	2	4	2	3	3	2	2	3	3	2	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr10:5789022C>G	uc001iij.2	+	15	4263	c.3638C>G	c.(3637-3639)ACC>AGC	p.T1213S	C10orf18_uc001iik.2_Missense_Mutation_p.T57S	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	1213										ovary(1)|central_nervous_system(1)	2						TCAGCCTCTACCACCTTGGGA	0.468													3	139					0	0	0.115264	0	0		G	5789022	G	G	5789022	3	3	137	1	0	0	0	0	1	0	0	0	1599	507	18	5	3684	5	C10orf18	10	5789022	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08		5789022	129745725	57	74786											
USP54	159195	broad.mit.edu	37	chr10	75289641	75289641	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtcgtaagaaggtggcttGcttggttcatctggtataaa	10	14	12	5	1	2	1	1	0	1	1	3	1	2	1	0	4	1	5	0	4	5	6			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr10:75289641G>C	uc001juo.2	-	13	1874	c.1857C>G	c.(1855-1857)AGC>AGG	p.S619R	USP54_uc001juk.2_5'UTR|USP54_uc001jul.2_5'UTR|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA|USP54_uc001jup.2_Missense_Mutation_p.S619R|USP54_uc010qkl.1_Missense_Mutation_p.S619R	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	619					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					AAGGTGGCTTGCTTGGTTCAT	0.468											OREG0020266	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	50	127					0	0	0.139131	0	0		C	75289641	C	C	75289641	3	2	137	1	0	0	0	0	1	0	0	0	17111	1310	46	5	3237	5	USP54	10	75289641	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	69500619	75289641	60245106	58	74787											
NDST2	8509	broad.mit.edu	37	chr10	75567759	75567759	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacatagcggccatgggtatTatcagtcaatgtgggcatgt	10	11	13	7	1	2	0	2	0	0	0	2	1	2	0	1	3	1	2	1	3	4	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr10:75567759T>C	uc001jvk.2	-	3	1192	c.388A>G	c.(388-390)AAT>GAT	p.N130D	NDST2_uc010qks.1_5'Flank|NDST2_uc010qkt.1_Missense_Mutation_p.N7D|NDST2_uc009xro.2_5'Flank|NDST2_uc010qku.1_Missense_Mutation_p.N7D	NM_003635	NP_003626	P52849	NDST2_HUMAN	heparan glucosaminyl	130	Lumenal (Potential).|Heparan sulfate N-deacetylase 2.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			ovary(1)	1	Prostate(51;0.0112)					CCATGGGTATTATCAGTCAAT	0.527													37	115					0	0	0.092188	0	0		C	75567759	C	C	75567759	3	2	137	1	0	0	0	0	1	0	0	0	10275	1754	61	3	2315	3	NDST2	10	75567759	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	278118	75567759	59966988	59	74788											
TDRD1	56165	broad.mit.edu	37	chr10	115970506	115970506	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcaacaactgcaaagtggCcgtaagtcagctttcttgat	11	12	9	9	1	3	1	2	1	1	0	3	1	3	1	1	1	4	3	1	1	4	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr10:115970506C>A	uc001lbg.1	+	12	1704	c.1551C>A	c.(1549-1551)GGC>GGA	p.G517G	TDRD1_uc001lbf.2_Silent_p.G508G|TDRD1_uc001lbh.1_Silent_p.G508G|TDRD1_uc001lbi.1_Silent_p.G508G|TDRD1_uc010qsc.1_Silent_p.G178G|TDRD1_uc001lbj.2_Silent_p.G226G	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	517					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		TGCAAAGTGGCCGTAAGTCAG	0.363													18	117					5.3912e-06	5.89907e-06	0.175082	1	0		A	115970506	A	A	115970506	2	1	137	1	0	0	0	0	0	0	0	1	15755	753	26	5		5	TDRD1	10	115970506	Silent	SNP	C	TCGA-CG-4449-01A-01D-1158-08	40402747	115970506	19564241	60	74789											
PDZD8	118987	broad.mit.edu	37	chr10	119043857	119043857	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgattctccttctttcAaatatttgaagtgaatagta	11	17	7	6	0	4	3	1	3	3	0	5	3	4	3	1	1	0	1	1	1	6	7			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr10:119043857A>C	uc001lde.1	-	5	2586	c.2387T>G	c.(2386-2388)TTG>TGG	p.L796W		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	796					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		TCCTTCTTTCAAATATTTGAA	0.373													23	75					0	0	0.062417	0	0		C	119043857	C	C	119043857	3	2	137	1	0	0	0	0	1	0	0	0	11724	131	5	5	1081	5	PDZD8	10	119043857	Missense_Mutation	SNP	A	TCGA-CG-4449-01A-01D-1158-08	3073351	119043857	16490890	61	74790											
PPP2R2D	55844	broad.mit.edu	37	chr10	133757520	133757520	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtagaagcgagtccacggCgaatttttgcaaatgctcac	11	10	11	9	3	1	1	1	0	0	1	2	3	2	1	1	2	3	3	1	2	4	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr10:133757520C>T	uc001lks.2	+	4	670	c.427C>T	c.(427-429)CGA>TGA	p.R143*	PPP2R2D_uc001lkr.2_Intron|PPP2R2D_uc001lkt.2_Intron|PPP2R2D_uc009yay.2_Nonsense_Mutation_p.R11*	NM_018461	NP_060931	Q66LE6	2ABD_HUMAN	protein phosphatase 2, regulatory subunit B,	176					cell division|exit from mitosis|mitosis|signal transduction	cytoplasm|protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			skin(1)	1		all_cancers(35;2.16e-12)|all_epithelial(44;2.77e-09)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Colorectal(31;0.0124)|Breast(234;0.023)|all_neural(114;0.0299)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.86e-05)|Epithelial(32;8.82e-05)|all cancers(32;0.000106)|BRCA - Breast invasive adenocarcinoma(275;0.21)		GAGTCCACGGCGAATTTTTGC	0.353													20	39					0	0	0.043863	0	0		T	133757520	T	T	133757520	4	4	137	1	0	0	0	0	0	1	0	0	12409	760	27	1	442	1	PPP2R2D	10	133757520	Nonsense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	14713663	133757520	1777227	62	74791											
APBB1	322	broad.mit.edu	37	chr11	6432549	6432549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctgttggcattaatggccGactggctcagtgatgatgga	8	11	15	7	1	1	2	1	2	0	0	1	4	1	3	1	5	0	4	1	5	1	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr11:6432549G>A	uc001mdb.1	-	2	129	c.29C>T	c.(28-30)TCG>TTG	p.S10L	APBB1_uc001mdc.1_Missense_Mutation_p.S10L|APBB1_uc010rah.1_Intron	NM_001164	NP_001155	O00213	APBB1_HUMAN	amyloid beta A4 precursor protein-binding,	10					apoptosis|axonogenesis|cell cycle arrest|histone H4 acetylation|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of thymidylate synthase biosynthetic process|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|signal transduction|transcription, DNA-dependent	cytoplasm|growth cone|lamellipodium|nucleus|plasma membrane|synapse	beta-amyloid binding|chromatin binding|histone binding|proline-rich region binding|transcription factor binding			breast(2)	2		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;6.49e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		ATTAATGGCCGACTGGCTCAG	0.617													41	60					0	0	0.11126	0	0		A	6432549	A	A	6432549	3	1	137	1	0	0	0	0	1	0	0	0	759	1059	37	1	2155	1	APBB1	11	6432549	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08		6432549	128573967	63	74792											
DAGLA	747	broad.mit.edu	37	chr11	61488300	61488300	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatctggctgagcatgcGcgggggcatcctctacacgg	7	8	13	13	3	3	1	1	1	2	0	4	1	4	1	1	4	3	3	1	4	1	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr11:61488300G>A	uc001nsa.2	+	3	356	c.245G>A	c.(244-246)CGC>CAC	p.R82H		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	82	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		CTGAGCATGCGCGGGGGCATC	0.657													32	77					0	0	0.086207	0	0		A	61488300	A	A	61488300	3	1	137	1	0	0	0	0	1	0	0	0	4229	1087	38	1	251	1	DAGLA	11	61488300	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	55055751	61488300	73518216	64	74793											
SLC3A2	6520	broad.mit.edu	37	chr11	62652974	62652974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgacttccttcttgccggCtcaacttctccgactctacc	5	13	5	18	2	4	1	1	1	3	0	6	2	5	1	5	1	3	1	5	1	2	5	rs1140538		TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr11:62652974C>T	uc001nwd.2	+	10	1564	c.1340C>T	c.(1339-1341)GCT>GTT	p.A447V	SLC3A2_uc001nwb.2_Missense_Mutation_p.A478V|SLC3A2_uc001nwc.2_Missense_Mutation_p.A448V|SLC3A2_uc001nwe.2_Missense_Mutation_p.A416V|SLC3A2_uc001nwf.2_Missense_Mutation_p.A385V|SLC3A2_uc001nwg.2_Missense_Mutation_p.A346V	NM_002394	NP_002385	P08195	4F2_HUMAN	solute carrier family 3, member 2 isoform c	447	Extracellular (Potential).				blood coagulation|carbohydrate metabolic process|cell growth|cellular nitrogen compound metabolic process|leucine import|leukocyte migration|tryptophan transport	apical plasma membrane|cell surface|integral to membrane|melanosome	calcium:sodium antiporter activity|catalytic activity|cation binding|neutral amino acid transmembrane transporter activity|protein binding				0						TTCTTGCCGGCTCAACTTCTC	0.577													33	373					0	0	0.173368	0	0		T	62652974	T	T	62652974	3	4	137	1	0	0	0	0	1	0	0	0	14652	797	28	2	1478	2	SLC3A2	11	62652974	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	1164674	62652974	72353542	65	74794											
ARAP1	116985	broad.mit.edu	37	chr11	72408180	72408180	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctgccgcaggctctccAgcagccgctgtgtcttcgat	5	10	10	16	3	2	0	0	0	2	0	5	1	3	0	4	1	3	4	4	1	0	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr11:72408180A>C	uc001osu.2	-	22	3203	c.3014T>G	c.(3013-3015)CTG>CGG	p.L1005R	ARAP1_uc001osv.2_Missense_Mutation_p.L1005R|ARAP1_uc001osr.2_Missense_Mutation_p.L765R|ARAP1_uc001oss.2_Missense_Mutation_p.L760R|ARAP1_uc009yth.2_Missense_Mutation_p.L699R|ARAP1_uc010rre.1_Missense_Mutation_p.L760R	NM_001040118	NP_001035207	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1005	Rho-GAP.				actin filament reorganization involved in cell cycle|negative regulation of stress fiber assembly|positive regulation of Cdc42 GTPase activity|positive regulation of filopodium assembly|regulation of ARF GTPase activity|regulation of cell shape|regulation of cellular component movement|small GTPase mediated signal transduction	cytosol|Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|Rho GTPase activator activity|zinc ion binding			skin(1)	1						CAGGCTCTCCAGCAGCCGCTG	0.662													4	40					0	0	0.038147	0	0		C	72408180	C	C	72408180	3	2	137	1	0	0	0	0	1	0	0	0	838	188	7	5	1394	5	ARAP1	11	72408180	Missense_Mutation	SNP	A	TCGA-CG-4449-01A-01D-1158-08	9755206	72408180	62598336	66	74795											
GRM5	2915	broad.mit.edu	37	chr11	88780628	88780628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctactatgggcttcttggagCggaaggaagaggaggagcca	11	7	16	7	1	1	1	0	0	1	1	1	6	1	6	1	6	3	1	1	6	4	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr11:88780628C>T	uc001pcq.2	-	1	613	c.413G>A	c.(412-414)CGC>CAC	p.R138H	GRM5_uc009yvm.2_Missense_Mutation_p.R138H|GRM5_uc009yvn.1_Missense_Mutation_p.R138H	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	138	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CTTCTTGGAGCGGAAGGAAGA	0.502													16	65					0	0	0.160694	0	0		T	88780628	T	T	88780628	3	4	137	1	0	0	0	0	1	0	0	0	6816	768	27	1	3261	1	GRM5	11	88780628	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	16372448	88780628	46225888	67	74796											
FAT3	120114	broad.mit.edu	37	chr11	92086577	92086577	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtctgattgttacagcacgGccactgaatactgttaagaa	12	11	10	8	1	1	3	0	2	1	1	1	3	1	3	1	2	3	3	1	2	5	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr11:92086577G>A	uc001pdj.3	+	1	1316	c.1299G>A	c.(1297-1299)CGG>CGA	p.R433R		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	433	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TTACAGCACGGCCACTGAATA	0.413										TCGA Ovarian(4;0.039)			7	20					0	0	0.02938	0	0		A	92086577	A	A	92086577	2	1	137	1	0	0	0	0	0	0	0	1	5705	1190	42	2		2	FAT3	11	92086577	Silent	SNP	G	TCGA-CG-4449-01A-01D-1158-08	3305949	92086577	42919939	68	74797											
CD4	920	broad.mit.edu	37	chr12	6923370	6923370	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgggaccaaggaaactttCccctgatcatcaagaatctt	12	12	7	10	0	3	2	2	1	1	1	4	4	4	4	3	2	1	0	3	2	4	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr12:6923370C>A	uc001qqv.1	+	4	522	c.277C>A	c.(277-279)CCC>ACC	p.P93T	CD4_uc009zez.1_Missense_Mutation_p.P38T|CD4_uc009zfa.1_RNA|CD4_uc009zfb.1_RNA|CD4_uc010sfj.1_5'UTR|CD4_uc009zfc.1_5'UTR|CD4_uc010sfk.1_5'UTR|CD4_uc010sfl.1_5'UTR|CD4_uc010sfm.1_5'UTR	NM_000616	NP_000607	P01730	CD4_HUMAN	CD4 antigen precursor	93	Extracellular (Potential).|Ig-like V-type.				cell adhesion|entry into host cell|immune response|induction by virus of host cell-cell fusion|initiation of viral infection|maintenance of protein location in cell|positive regulation of interleukin-2 biosynthetic process|positive regulation of protein kinase activity|protein palmitoleylation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|T cell selection|transmembrane receptor protein tyrosine kinase signaling pathway	early endosome|endoplasmic reticulum membrane|integral to membrane|T cell receptor complex	coreceptor activity|extracellular matrix structural constituent|glycoprotein binding|MHC class II protein binding|protein homodimerization activity|protein kinase binding|transmembrane receptor activity|zinc ion binding				0		Myeloproliferative disorder(1001;0.0122)				AGGAAACTTTCCCCTGATCAT	0.498													58	230					1.54043e-34	1.76216e-34	0.139131	1	0		A	6923370	A	A	6923370	3	1	137	1	0	0	0	0	1	0	0	0	3017	855	30	5	287	5	CD4	12	6923370	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08		6923370	126928525	69	74798											
FAM90A1	55138	broad.mit.edu	37	chr12	8375060	8375060	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gcctgggggctgacggcctgGagcaggccgtgggttttgga	4	8	20	9	2	0	1	0	1	0	0	0	3	0	3	3	7	1	3	3	7	0	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr12:8375060G>C	uc001qui.2	-	7	1312	c.753C>G	c.(751-753)CTC>CTG	p.L251L	FAM90A1_uc001quh.2_Silent_p.L251L	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	251							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		TGACGGCCTGGAGCAGGCCGT	0.662													9	104					0	0	0.069234	0	0		C	8375060	C	C	8375060	2	2	137	1	0	0	0	0	0	0	0	1	5664	1161	41	5		5	FAM90A1	12	8375060	Silent	SNP	G	TCGA-CG-4449-01A-01D-1158-08	1451690	8375060	125476835	70	74799											
A2ML1	144568	broad.mit.edu	37	chr12	8988261	8988261	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttcagtgtggaggaataTggtaggtggggaaatggaca	12	10	16	3	0	1	0	1	0	0	0	1	4	1	4	0	7	0	1	0	7	4	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr12:8988261T>C	uc001quz.3	+	6	740	c.642T>C	c.(640-642)TAT>TAC	p.Y214Y		NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	58						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TGGAGGAATATGGTAGGTGGG	0.418													23	41					0	0	0.083992	0	0		C	8988261	C	C	8988261	2	2	137	1	0	0	0	0	0	0	0	1	5	1478	51	3		3	A2ML1	12	8988261	Silent	SNP	T	TCGA-CG-4449-01A-01D-1158-08	613201	8988261	124863634	71	74800											
KRT72	140807	broad.mit.edu	37	chr12	52992799	52992799	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgatgtagccctcataaAtgggctccaggttcttcctg	7	13	10	11	0	2	1	1	1	1	0	4	1	4	1	3	2	2	4	3	2	3	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr12:52992799A>G	uc001sar.2	-	2	610	c.524T>C	c.(523-525)ATT>ACT	p.I175T	KRT72_uc001saq.2_Missense_Mutation_p.I175T|KRT72_uc010sns.1_Missense_Mutation_p.I175T|KRT72_uc010snt.1_5'UTR	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	175	Linker 1.|Rod.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		GCCCTCATAAATGGGCTCCAG	0.557													103	144					0	0	0.139131	0	0		G	52992799	G	G	52992799	3	3	137	1	0	0	0	0	1	0	0	0	8501	101	4	3	1043	3	KRT72	12	52992799	Missense_Mutation	SNP	A	TCGA-CG-4449-01A-01D-1158-08	44004538	52992799	80859096	72	74801											
ESPL1	9700	broad.mit.edu	37	chr12	53668761	53668761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttcgggtcaagatggatgCggccagggctggagacaagg	9	6	19	7	2	1	2	1	0	0	2	2	4	1	3	1	7	1	2	1	7	2	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr12:53668761C>T	uc001sck.2	+	7	1758	c.1667C>T	c.(1666-1668)GCG>GTG	p.A556V	ESPL1_uc001scj.2_Missense_Mutation_p.A231V	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	556					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						AAGATGGATGCGGCCAGGGCT	0.403													3	31					0	0	0.115264	0	0		T	53668761	T	T	53668761	3	4	137	1	0	0	0	0	1	0	0	0	5261	768	27	1	1689	1	ESPL1	12	53668761	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	675962	53668761	80183134	73	74802											
HOXC10	3226	broad.mit.edu	37	chr12	54383121	54383121	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattagcaagaccattaaccTtacagacagacaagtcaaaa	19	7	6	9	0	1	3	1	0	0	3	1	4	1	3	2	0	3	1	2	0	7	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr12:54383121T>G	uc001sen.2	+	2	1018	c.920T>G	c.(919-921)CTT>CGT	p.L307R	uc001seo.2_5'Flank|MIR196A2_hsa-mir-196a-2|MI0000279_5'Flank	NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	307	Homeobox.				positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						ACCATTAACCTTACAGACAGA	0.418											OREG0021882	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	76					0	0	0.069456	0	0		G	54383121	G	G	54383121	3	3	137	1	0	0	0	0	1	0	0	0	7325	1609	56	5	926	5	HOXC10	12	54383121	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	714360	54383121	79468774	74	74803											
SLC16A7	9194	broad.mit.edu	37	chr12	60173407	60173407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacattcggaagatgttaacGtcaaagtttcaaatgcacag	16	10	8	7	2	2	1	2	0	0	1	3	2	2	2	0	1	3	3	0	1	5	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr12:60173407G>A	uc001sqs.2	+	6	1683	c.1384G>A	c.(1384-1386)GTC>ATC	p.V462I	SLC16A7_uc001sqt.2_Missense_Mutation_p.V462I|SLC16A7_uc001squ.2_Missense_Mutation_p.V462I|SLC16A7_uc009zqi.2_Missense_Mutation_p.V363I|SLC16A7_uc010ssi.1_Missense_Mutation_p.V363I	NM_004731	NP_004722	O60669	MOT2_HUMAN	solute carrier family 16, member 7	462	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	pyruvate secondary active transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(3;0.0303)	Pyruvic acid(DB00119)	AGATGTTAACGTCAAAGTTTC	0.373													10	31					0	0	0.058154	0	0		A	60173407	A	A	60173407	3	1	137	1	0	0	0	0	1	0	0	0	14438	1145	40	1	1398	1	SLC16A7	12	60173407	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	5790286	60173407	73678488	75	74804											
MSRB3	253827	broad.mit.edu	37	chr12	65720710	65720710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcactcaggagaaagggaccGaaaggtaaggtgagctttaa	15	7	13	6	1	2	2	2	1	0	1	2	5	2	3	1	4	1	2	1	4	4	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr12:65720710G>A	uc001ssn.2	+	2	263	c.202G>A	c.(202-204)GAA>AAA	p.E68K	MSRB3_uc001ssm.2_Missense_Mutation_p.E61K|MSRB3_uc009zqp.2_Missense_Mutation_p.E61K	NM_198080	NP_932346	Q8IXL7	MSRB3_HUMAN	methionine sulfoxide reductase B3 isoform 1	68					protein repair	endoplasmic reticulum|mitochondrion	peptide-methionine-(S)-S-oxide reductase activity|protein-methionine-R-oxide reductase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.131)		GAAAGGGACCGAAAGGTAAGG	0.448													7	24					0	0	0.02938	0	0		A	65720710	A	A	65720710	3	1	137	1	0	0	0	0	1	0	0	0	9907	1059	37	1	288	1	MSRB3	12	65720710	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	5547303	65720710	68131185	76	74805											
OAS3	4940	broad.mit.edu	37	chr12	113379501	113379501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagatcctcagtgagatgCgggcatcgctggaatcctgg	9	8	14	10	2	1	2	1	1	0	2	4	5	3	3	2	3	1	2	2	3	1	0			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr12:113379501C>T	uc001tug.2	+	2	391	c.304C>T	c.(304-306)CGG>TGG	p.R102W	OAS3_uc001tue.2_Missense_Mutation_p.R102W|OAS3_uc001tuf.2_Missense_Mutation_p.R102W	NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	102	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						CAGTGAGATGCGGGCATCGCT	0.587													5	169					0	0	0.021553	0	0		T	113379501	T	T	113379501	3	4	137	1	0	0	0	0	1	0	0	0	10820	759	27	1	310	1	OAS3	12	113379501	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	47658791	113379501	20472394	77	74806											
SLC46A3	283537	broad.mit.edu	37	chr13	29287281	29287281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacagcaataattagaaacGaccactcaaaacctagctct	18	7	4	12	1	2	1	1	0	1	1	2	2	2	1	2	0	4	2	2	0	7	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr13:29287281G>A	uc001usi.2	-	2	1566	c.596C>T	c.(595-597)TCG>TTG	p.S199L	SLC46A3_uc001usg.2_Missense_Mutation_p.S124L|SLC46A3_uc001usj.2_Missense_Mutation_p.S199L|SLC46A3_uc001ush.2_Missense_Mutation_p.S199L|SLC46A3_uc001usk.2_Missense_Mutation_p.S124L	NM_181785	NP_861450	Q7Z3Q1	S46A3_HUMAN	solute carrier family 46, member 3 isoform a	199	Helical; (Potential).				transmembrane transport	integral to membrane				central_nervous_system(1)|skin(1)	2		Lung SC(185;0.0367)		all cancers(112;0.159)		AATTAGAAACGACCACTCAAA	0.353													31	62					0	0	0.153744	0	0		A	29287281	A	A	29287281	3	1	137	1	0	0	0	0	1	0	0	0	14671	1059	37	1	819	1	SLC46A3	13	29287281	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08		29287281	85882597	78	74807											
NAA16	79612	broad.mit.edu	37	chr13	41947902	41947902	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtaacgctacctctcttcAgcatctactttcaggtttgt	8	15	6	12	2	4	0	2	0	2	0	5	0	4	0	1	1	4	4	1	1	3	6			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr13:41947902A>T	uc001uyf.2	+	18	2609	c.2285A>T	c.(2284-2286)CAG>CTG	p.Q762L	NAA16_uc010tfg.1_RNA	NM_024561	NP_078837	Q6N069	NAA16_HUMAN	NMDA receptor regulated 1-like protein isoform	762					N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent	cytoplasm|transcription factor complex	binding			central_nervous_system(1)	1						ACCTCTCTTCAGCATCTACTT	0.363													50	166					0	0	0.139131	0	0		T	41947902	T	T	41947902	3	4	137	1	0	0	0	0	1	0	0	0	10137	188	7	5	2388	5	NAA16	13	41947902	Missense_Mutation	SNP	A	TCGA-CG-4449-01A-01D-1158-08	12660621	41947902	73221976	79	74808											
ERCC5	2073	broad.mit.edu	37	chr13	103468859	103468859	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgtcctcagcattctcCtcttgaagatattaaacagc	12	12	7	10	0	3	2	1	1	2	1	5	3	4	3	2	1	3	1	2	1	5	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr13:103468859C>G	uc001vpu.1	+	2	682	c.560C>G	c.(559-561)CCT>CGT	p.P187R	BIVM_uc001vps.2_Missense_Mutation_p.P187R|BIVM_uc010agc.2_5'UTR|BIVM_uc001vpt.2_Missense_Mutation_p.P187R	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	Error:Variant_position_missing_in_P28715_after_alignment					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					CAGCATTCTCCTCTTGAAGAT	0.323			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				51	113					0	0	0.139131	0	0		G	103468859	G	G	103468859	3	3	137	1	0	0	0	0	1	0	0	0	5224	681	24	5		5	ERCC5	13	103468859	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	61520957	103468859	11701019	80	74809											
ADCY4	196883	broad.mit.edu	37	chr14	24788315	24788315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctcacccactcgcaggCggaagttgttgaatgaatgc	9	10	11	11	2	2	2	1	2	1	0	4	3	2	3	1	2	1	3	1	2	3	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr14:24788315C>T	uc001wov.2	-	23	2951	c.2945G>A	c.(2944-2946)CGC>CAC	p.R982H	ADCY4_uc001wow.2_Missense_Mutation_p.R982H|ADCY4_uc010toh.1_Missense_Mutation_p.R668H|ADCY4_uc001wox.2_Missense_Mutation_p.R982H|ADCY4_uc001woy.2_Missense_Mutation_p.R982H	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	982	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		CACTCGCAGGCGGAAGTTGTT	0.567													38	105					0	0	0.104719	0	0		T	24788315	T	T	24788315	3	4	137	1	0	0	0	0	1	0	0	0	296	768	27	1	300	1	ADCY4	14	24788315	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08		24788315	82561225	81	74810											
PRKD1	5587	broad.mit.edu	37	chr14	30095727	30095727	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactgtccagaacccagtacTtcatcaggaaaaatctgata	16	9	6	10	0	3	2	2	1	1	1	4	3	4	3	2	1	3	1	2	1	6	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr14:30095727T>C	uc001wqh.2	-	12	1942	c.1761A>G	c.(1759-1761)GAA>GAG	p.E587E		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	587	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		AACCCAGTACTTCATCAGGAA	0.318													29	54					0	0	0.163468	0	0		C	30095727	C	C	30095727	2	2	137	1	0	0	0	0	0	0	0	1	12540	1606	56	3		3	PRKD1	14	30095727	Silent	SNP	T	TCGA-CG-4449-01A-01D-1158-08	5307412	30095727	77253813	82	74811											
NRXN3	9369	broad.mit.edu	37	chr14	80328211	80328211	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaactacatcagcaactcCgcccagagcaacggcacgct	12	4	9	16	4	1	1	1	0	0	1	2	2	2	2	2	2	6	4	2	2	4	1	rs150091542		TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr14:80328211C>T	uc001xun.2	+	17	3581	c.3090C>T	c.(3088-3090)TCC>TCT	p.S1030S	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Silent_p.S606S|NRXN3_uc010asw.2_Silent_p.S428S|NRXN3_uc001xur.3_Silent_p.S401S	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1612	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		TCAGCAACTCCGCCCAGAGCA	0.527													6	28					0	0	0.047766	0	0		T	80328211	T	T	80328211	2	4	137	1	0	0	0	0	0	0	0	1	10686	639	23	1		1	NRXN3	14	80328211	Silent	SNP	C	TCGA-CG-4449-01A-01D-1158-08	50232484	80328211	27021329	83	74812											
RIN3	79890	broad.mit.edu	37	chr14	93125521	93125521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcagaagcaattgtagagtCtgccttgtacaaatgtgtcc	11	12	10	8	0	1	2	0	0	1	2	2	2	2	2	2	0	4	4	2	0	5	4	rs138388973		TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr14:93125521C>T	uc001yap.2	+	7	2194	c.2042C>T	c.(2041-2043)TCT>TTT	p.S681F	RIN3_uc010auk.2_Missense_Mutation_p.S343F|RIN3_uc001yaq.2_Missense_Mutation_p.S606F|RIN3_uc001yar.1_Missense_Mutation_p.S343F|RIN3_uc001yas.1_Missense_Mutation_p.S343F	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	681	Interaction with RAB5B.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				ATTGTAGAGTCTGCCTTGTAC	0.532													11	676					0	0	0.080935	0	0		T	93125521	T	T	93125521	3	4	137	1	0	0	0	0	1	0	0	0	13398	913	32	4	2068	4	RIN3	14	93125521	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	12797310	93125521	14224019	84	74813											
AHNAK2	113146	broad.mit.edu	37	chr14	105410138	105410138	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaccttgggcaggtgtcCtttgaggccggcttcctcgg	3	11	14	13	2	0	1	0	1	0	0	3	1	2	1	4	5	1	3	4	5	0	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr14:105410138C>A	uc010axc.1	-	7	11770	c.11650G>T	c.(11650-11652)GGA>TGA	p.G3884*	AHNAK2_uc001ypx.2_Nonsense_Mutation_p.G3784*	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3884						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GGCAGGTGTCCTTTGAGGCCG	0.587													17	225					1.50039e-11	1.66587e-11	0.062417	1	0		A	105410138	A	A	105410138	4	1	137	1	0	0	0	0	0	1	0	0	415	690	24	5	5741	5	AHNAK2	14	105410138	Nonsense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	12284617	105410138	1939402	85	74814											
AHNAK2	113146	broad.mit.edu	37	chr14	105414701	105414701	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacgctgaggtcagtggTcttgaggtccccctgcatgg	6	10	14	11	1	2	3	1	3	1	0	3	3	3	3	2	4	2	2	2	4	1	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr14:105414701T>C	uc010axc.1	-	7	7207	c.7087A>G	c.(7087-7089)ACC>GCC	p.T2363A	AHNAK2_uc001ypx.2_Missense_Mutation_p.T2263A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2363						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			AGGTCAGTGGTCTTGAGGTCC	0.657													4	211					0	0	0.150653	0	0		C	105414701	C	C	105414701	3	2	137	1	0	0	0	0	1	0	0	0	415	1667	58	3	10304	3	AHNAK2	14	105414701	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	4563	105414701	1934839	86	74815											
C15orf2	23742	broad.mit.edu	37	chr15	24921084	24921084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagggccagggcgtggcGcccccgctcccctgtcccgg	2	5	15	19	4	0	0	0	0	0	0	2	0	2	0	7	4	1	1	7	4	0	0			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr15:24921084G>A	uc001ywo.2	+	1	544	c.70G>A	c.(70-72)GCC>ACC	p.A24T		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	24					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		AGGGCGTGGCGCCCCCGCTCC	0.692													6	11					0	0	0.02938	0	0		A	24921084	A	A	24921084	3	1	137	1	0	0	0	0	1	0	0	0	1787	1087	38	1	72	1	C15orf2	15	24921084	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08		24921084	77610308	87	74816											
WDR72	256764	broad.mit.edu	37	chr15	53815461	53815461	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catctgtcaggcatgtcctcCacgtcttggaagtttgccga	7	12	10	12	2	3	0	1	0	2	0	5	2	5	1	3	2	1	2	3	2	1	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr15:53815461C>T	uc002acj.2	-	19	3249	c.3207G>A	c.(3205-3207)GTG>GTA	p.V1069V	WDR72_uc010bfh.1_RNA	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	1069										lung(1)|skin(1)	2				all cancers(107;0.0511)		GCATGTCCTCCACGTCTTGGA	0.358													77	184					0	0	0.139131	0	0		T	53815461	T	T	53815461	2	4	137	1	0	0	0	0	0	0	0	1	17348	581	21	4		4	WDR72	15	53815461	Silent	SNP	C	TCGA-CG-4449-01A-01D-1158-08	28894377	53815461	48715931	88	74817											
TPPP3	51673	broad.mit.edu	37	chr16	67424253	67424254	+	Frame_Shift_Del	DEL	CT	-	-																															cagccggtctacagcaccccCtgtttttgctttctgtttgg																										TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr16:67424253_67424254delCT	uc002esz.2	-	3	1189_1190	c.354_355delAG	c.(352-357)ACAGGGfs	p.T118fs	TPPP3_uc002eta.2_Frame_Shift_Del_p.T118fs|TPPP3_uc002etb.2_Frame_Shift_Del_p.T118fs	NM_016140	NP_057224	Q9BW30	TPPP3_HUMAN	tubulin polymerization-promoting protein family	118_119					microtubule bundle formation	cytoplasm|microtubule	calcium ion binding|tubulin binding			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0336)|Epithelial(162;0.0781)		ACAGCACCCCCTGTTTTTGCTT	0.619													47	107	---	---	---	---						.	-	67424254	-	-	67424253	7	5	137	1	0	1	0	1	0	0	0	0	16441	681	24	0	179	0	TPPP3	16	67424253	Frame_Shift_Del	DEL	CT	TCGA-CG-4449-01A-01D-1158-08		67424253	22930500	89	74818											
TP53	7157	broad.mit.edu	37	chr17	7577532	7577532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgtgatgatggtgaggatgGgcctccggttcatgccgccc	5	10	16	10	2	1	3	1	3	0	0	2	4	2	4	4	4	1	1	4	4	0	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr17:7577532G>A	uc002gim.2	-	7	943	c.749C>T	c.(748-750)CCC>CTC	p.P250L	TP53_uc002gig.1_Missense_Mutation_p.P250L|TP53_uc002gih.2_Missense_Mutation_p.P250L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.P118L|TP53_uc010cng.1_Missense_Mutation_p.P118L|TP53_uc002gii.1_Missense_Mutation_p.P118L|TP53_uc010cnh.1_Missense_Mutation_p.P250L|TP53_uc010cni.1_Missense_Mutation_p.P250L|TP53_uc002gij.2_Missense_Mutation_p.P250L|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.P157L|TP53_uc002gio.2_Missense_Mutation_p.P118L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	250	|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> L (in sporadic cancers; somatic mutation).|RP -> SA (in a sporadic cancer; somatic mutation).|P -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|RP -> SS (in sporadic cancers; somatic mutation).|P -> T (in sporadic cancers; somatic mutation).|P -> Q (in sporadic cancers; somatic mutation).|P -> A (in sporadic cancers; somatic mutation).|P -> S (in sporadic cancers; somatic mutation).|P -> N (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|P -> H (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P250L(37)|p.P250S(12)|p.0?(7)|p.P250P(4)|p.P250F(3)|p.P250N(2)|p.P250A(2)|p.M246_P250delMNRRP(2)|p.P250Q(2)|p.P250_L252delPIL(2)|p.P250H(1)|p.P250_I251insXXXXXX(1)|p.N247_P250delNRRP(1)|p.P250T(1)|p.P250_T253delPILT(1)|p.R249_P250insR(1)|p.R249_I251delRPI(1)|p.R248_P250delRRP(1)|p.P250_I251insXXXXXXX(1)|p.R249_T256delRPILTIIT(1)|p.I251fs*94(1)|p.R249_P250>SS(1)|p.R249_P250delRP(1)|p.P250_I251insX(1)|p.P250fs*14(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGTGAGGATGGGCCTCCGGTT	0.577		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			46	37					0	0	0.139131	0	0		A	7577532	A	A	7577532	3	1	137	1	0	0	0	0	1	0	0	0	16407	1232	43	4	541	4	TP53	17	7577532	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08		7577532	73617678	90	74819											
HS3ST3A1	9955	broad.mit.edu	37	chr17	13400097	13400097	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaactgggcgtcttctccAtggtgatctgcccgtccagg	6	11	12	12	2	3	1	0	1	3	0	5	1	4	1	3	3	2	1	3	3	1	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr17:13400097A>G	uc002gob.1	-	2	1436	c.638T>C	c.(637-639)ATG>ACG	p.M213T		NM_006042	NP_006033	Q9Y663	HS3SA_HUMAN	heparan sulfate D-glucosaminyl	213	Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 3 activity			ovary(1)|central_nervous_system(1)	2		all_lung(20;0.114)		UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CGTCTTCTCCATGGTGATCTG	0.607													13	82					0	0	0.11911	0	0		G	13400097	G	G	13400097	3	3	137	1	0	0	0	0	1	0	0	0	7381	217	8	3	586	3	HS3ST3A1	17	13400097	Missense_Mutation	SNP	A	TCGA-CG-4449-01A-01D-1158-08	5822565	13400097	67795113	91	74820											
HS3ST3B1	9953	broad.mit.edu	37	chr17	14248383	14248383	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggacgggcagatcaccaTggagaagacgcccagttact	11	6	12	12	2	1	3	1	0	0	3	1	5	1	4	3	3	1	2	3	3	2	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr17:14248383T>C	uc002goh.1	+	2	923	c.593T>C	c.(592-594)ATG>ACG	p.M198T		NM_006041	NP_006032	Q9Y662	HS3SB_HUMAN	heparan sulfate D-glucosaminyl	198	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	Golgi membrane|integral to plasma membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|[heparan sulfate]-glucosamine 3-sulfotransferase 3 activity				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0887)		CAGATCACCATGGAGAAGACG	0.612													8	9					0	0	0.080935	0	0		C	14248383	C	C	14248383	3	2	137	1	0	0	0	0	1	0	0	0	7382	1464	51	3	599	3	HS3ST3B1	17	14248383	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	848286	14248383	66946827	92	74821											
ZNF624	57547	broad.mit.edu	37	chr17	16525840	16525840	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatagagtaatacaacccTttccacattccttacaggtg	12	12	7	10	0	0	2	0	1	0	1	2	2	2	2	3	1	3	1	3	1	5	6			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr17:16525840T>G	uc010cpi.1	-	6	2443	c.2360A>C	c.(2359-2361)AAG>ACG	p.K787T		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	787	C2H2-type 19.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		AATACAACCCTTTCCACATTC	0.438													4	72					0	0	0.150653	0	0		G	16525840	G	G	16525840	3	3	137	1	0	0	0	0	1	0	0	0	18073	1609	56	5	241	5	ZNF624	17	16525840	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	2277457	16525840	64669370	93	74822											
RHOT1	55288	broad.mit.edu	37	chr17	30521045	30521045	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actttttatccagagagggaGacacgaaactacttggactg	13	10	10	8	1	0	2	0	0	0	2	1	6	1	3	1	2	2	0	1	2	3	5			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr17:30521045G>C	uc002hgz.2	+	11	1027	c.788G>C	c.(787-789)AGA>ACA	p.R263T	RHOT1_uc002hgw.2_Missense_Mutation_p.R263T|RHOT1_uc002hgy.2_Missense_Mutation_p.R263T|RHOT1_uc002hha.2_Missense_Mutation_p.R136T|RHOT1_uc010csv.2_RNA|RHOT1_uc002hgx.2_Missense_Mutation_p.R136T|RHOT1_uc010wby.1_Missense_Mutation_p.R263T|RHOT1_uc002hhb.2_Missense_Mutation_p.R242T|RHOT1_uc002hgv.2_Missense_Mutation_p.R263T	NM_018307	NP_060777	Q8IXI2	MIRO1_HUMAN	ras homolog gene family, member T1 isoform 3	263	Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(56;0.0255)|Breast(31;0.116)|Ovarian(249;0.182)				CAGAGAGGGAGACACGAAACT	0.363													11	473					0	0	0.069234	0	0		C	30521045	C	C	30521045	3	2	137	1	0	0	0	0	1	0	0	0	13368	942	33	5	830	5	RHOT1	17	30521045	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	13995205	30521045	50674165	94	74823											
C17orf102	400591	broad.mit.edu	37	chr17	32906083	32906083	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgaactctgggggtgggggTagggtgccccctacccgcgc	4	6	18	13	3	1	0	0	0	1	0	1	1	1	0	3	5	3	1	3	5	3	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr17:32906083T>C	uc002hie.1	-	1	306	c.217A>G	c.(217-219)ACC>GCC	p.T73A	TMEM132E_uc002hif.2_5'Flank	NM_207454	NP_997337	A2RUQ5	CQ102_HUMAN	hypothetical protein LOC400591	73										ovary(1)	1						GGGGTGGGGGTAGGGTGCCCC	0.682													8	61					0	0	0.069234	0	0		C	32906083	C	C	32906083	3	2	137	1	0	0	0	0	1	0	0	0	1852	1638	57	3	294	3	C17orf102	17	32906083	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	2385038	32906083	48289127	95	74824											
AARSD1	80755	broad.mit.edu	37	chr17	41102638	41102638	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcactctgcgtgctgatgTagtcctggagaagcgcctgc	7	10	13	11	2	1	2	0	1	1	1	2	3	2	2	2	1	5	3	2	1	3	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr17:41102638T>C	uc002icc.2	-	12	1214	c.1211A>G	c.(1210-1212)TAC>TGC	p.Y404C	AARSD1_uc002icd.2_Missense_Mutation_p.Y517C|AARSD1_uc002ice.2_Missense_Mutation_p.Y487C|AARSD1_uc002icf.2_Missense_Mutation_p.Y578C|AARSD1_uc010whg.1_Missense_Mutation_p.Y578C	NM_025267	NP_079543	Q9BTE6	AASD1_HUMAN	alanyl-tRNA synthetase domain containing 1	404					alanyl-tRNA aminoacylation	cytoplasm	alanine-tRNA ligase activity|ATP binding|metal ion binding|nucleic acid binding				0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		CGTGCTGATGTAGTCCTGGAG	0.537													24	23					0	0	0.083992	0	0		C	41102638	C	C	41102638	3	2	137	1	0	0	0	0	1	0	0	0	21	1638	57	3	31	3	AARSD1	17	41102638	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	8196555	41102638	40092572	96	74825											
BRCA1	672	broad.mit.edu	37	chr17	41245963	41245963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccctgatttatcatttcagGagtcttttgaactgccaaat	10	16	6	9	0	3	2	2	2	1	0	4	3	4	3	2	1	2	0	2	1	3	5			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr17:41245963G>A	uc002icq.2	-	10	1817	c.1585C>T	c.(1585-1587)CCT>TCT	p.P529S	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.P458S|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.P482S|BRCA1_uc002ict.2_Missense_Mutation_p.P529S|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.P529S|BRCA1_uc002ide.1_Missense_Mutation_p.P360S|BRCA1_uc010cyy.1_Missense_Mutation_p.P529S|BRCA1_uc010whs.1_Missense_Mutation_p.P529S|BRCA1_uc010cyz.2_Missense_Mutation_p.P482S|BRCA1_uc010cza.2_Missense_Mutation_p.P503S|BRCA1_uc010wht.1_Missense_Mutation_p.P233S	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	529					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		ATCATTTCAGGAGTCTTTTGA	0.378			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			22	27					0	0	0.062417	0	0		A	41245963	A	A	41245963	3	1	137	1	0	0	0	0	1	0	0	0	1501	1174	41	4	4132	4	BRCA1	17	41245963	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	143325	41245963	39949247	97	74826											
USP32	84669	broad.mit.edu	37	chr17	58299833	58299833	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctctccacacaggttctggGaccatttcatagtctcttcc	7	13	7	14	0	4	0	1	0	3	0	7	1	5	1	3	2	0	2	3	2	1	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr17:58299833G>A	uc002iyo.1	-	15	1972	c.1686C>T	c.(1684-1686)GTC>GTT	p.V562V	USP32_uc002iyn.1_Silent_p.V232V	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	562	DUSP.				protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			CAGGTTCTGGGACCATTTCAT	0.413													115	371					0	0	0.139131	0	0		A	58299833	A	A	58299833	2	1	137	1	0	0	0	0	0	0	0	1	17089	1161	41	4		4	USP32	17	58299833	Silent	SNP	G	TCGA-CG-4449-01A-01D-1158-08	17053870	58299833	22895377	98	74827											
C17orf77	146723	broad.mit.edu	37	chr17	72588276	72588276	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagccgctgtcattccagTgccttaaagctccagccaca	9	8	8	16	1	1	0	1	0	0	0	3	0	3	0	6	0	4	2	6	0	2	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr17:72588276T>C	uc002jla.1	+	3	453	c.91T>C	c.(91-93)TGC>CGC	p.C31R	CD300LD_uc002jkz.2_Intron	NM_152460	NP_689673	Q96MU5	CQ077_HUMAN	hypothetical protein LOC146723	31						extracellular region					0						GTCATTCCAGTGCCTTAAAGC	0.547													15	41					0	0	0.099896	0	0		C	72588276	C	C	72588276	3	2	137	1	0	0	0	0	1	0	0	0	1885	1696	59	3	93	3	C17orf77	17	72588276	Missense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	14288443	72588276	8606934	99	74828											
OSBPL1A	114876	broad.mit.edu	37	chr18	21894248	21894248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggctattcttaggaacccGgaagccatgaatggtgtcat	12	10	11	8	1	2	1	1	1	1	0	2	3	2	3	2	4	2	1	2	4	6	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr18:21894248G>A	uc002kve.2	-	12	1108	c.934C>T	c.(934-936)CGG>TGG	p.R312W	OSBPL1A_uc010xbc.1_5'Flank|OSBPL1A_uc002kvf.3_Missense_Mutation_p.R92W	NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	312	PH.				cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					TTAGGAACCCGGAAGCCATGA	0.363													36	173					0	0	0.080422	0	0		A	21894248	A	A	21894248	3	1	137	1	0	0	0	0	1	0	0	0	11296	1115	39	1	1986	1	OSBPL1A	18	21894248	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08		21894248	56183000	100	74829											
ZBTB7C	201501	broad.mit.edu	37	chr18	45566902	45566902	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggccttctctgtgagatggtCtgtcttggaagggctttggt	4	15	15	7	0	3	1	0	1	3	1	4	3	3	2	1	5	0	1	1	5	1	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr18:45566902C>G	uc002lda.2	-	1	593	c.577G>C	c.(577-579)GAC>CAC	p.D193H	ZBTB7C_uc002ldb.2_Missense_Mutation_p.D193H|ZBTB7C_uc010dnu.2_Missense_Mutation_p.D202H|ZBTB7C_uc010dnv.2_Missense_Mutation_p.D215H|ZBTB7C_uc010dnw.2_Missense_Mutation_p.D193H|ZBTB7C_uc010dnx.1_Missense_Mutation_p.D193H|ZBTB7C_uc010dny.1_Missense_Mutation_p.D193H|ZBTB7C_uc010dnz.1_Missense_Mutation_p.D215H|ZBTB7C_uc010dob.1_Missense_Mutation_p.D193H|ZBTB7C_uc010doc.1_Missense_Mutation_p.D202H|ZBTB7C_uc010dod.1_Missense_Mutation_p.D215H|ZBTB7C_uc010doe.1_Missense_Mutation_p.D193H|ZBTB7C_uc010dof.1_Missense_Mutation_p.D193H|ZBTB7C_uc010dog.1_Missense_Mutation_p.D193H|ZBTB7C_uc010doh.1_Missense_Mutation_p.D202H|ZBTB7C_uc010doi.1_Missense_Mutation_p.D193H|ZBTB7C_uc010doj.1_Missense_Mutation_p.D202H|ZBTB7C_uc010dok.1_Missense_Mutation_p.D242H|ZBTB7C_uc010dol.1_Missense_Mutation_p.D202H|ZBTB7C_uc010doa.1_Missense_Mutation_p.D215H|ZBTB7C_uc010don.1_Missense_Mutation_p.D201H|ZBTB7C_uc010doo.1_Missense_Mutation_p.D193H|ZBTB7C_uc010dop.1_Missense_Mutation_p.D193H|ZBTB7C_uc010doq.1_Missense_Mutation_p.D202H|ZBTB7C_uc010dor.1_Missense_Mutation_p.D215H|ZBTB7C_uc010dos.1_Missense_Mutation_p.D193H|ZBTB7C_uc010dot.1_Missense_Mutation_p.D193H|ZBTB7C_uc010dou.1_Missense_Mutation_p.D202H|ZBTB7C_uc010dom.1_Missense_Mutation_p.D202H	NM_001039360	NP_001034449	A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	193						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GTGAGATGGTCTGTCTTGGAA	0.537													3	139					0	0	0.150653	0	0		G	45566902	G	G	45566902	3	3	137	1	0	0	0	0	1	0	0	0	17580	913	32	5	1290	5	ZBTB7C	18	45566902	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	23672654	45566902	32510346	101	74830											
ATP8B1	5205	broad.mit.edu	37	chr18	55362738	55362738	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actggtctgtgatttcaagtGacatcttaaattttaaattg	12	17	7	5	0	3	2	1	2	2	0	3	2	3	2	0	1	0	0	0	1	5	5			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr18:55362738G>C	uc002lgw.2	-	8	725	c.725C>G	c.(724-726)TCA>TGA	p.S242*	uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	242	Cytoplasmic (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				GATTTCAAGTGACATCTTAAA	0.308									Byler_disease				4	69					0	0	0.014758	0	0		C	55362738	C	C	55362738	4	2	137	1	0	0	0	0	0	1	0	0	1195	1294	45	5	3110	5	ATP8B1	18	55362738	Nonsense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	9795836	55362738	22714510	102	74831											
ZNF532	55205	broad.mit.edu	37	chr18	56646352	56646352	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcgtcccacagcctgtgccgGcacaaccggatcaagcacaa	11	5	9	16	3	1	0	1	0	0	0	3	1	2	1	4	2	4	2	4	2	3	0			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr18:56646352G>A	uc002lho.2	+	9	3763	c.3216G>A	c.(3214-3216)CGG>CGA	p.R1072R	ZNF532_uc002lhp.2_Silent_p.R1070R|ZNF532_uc010xeg.1_Silent_p.R1070R|ZNF532_uc002lhr.2_Silent_p.R1070R|ZNF532_uc002lhs.2_Silent_p.R1070R|ZNF532_uc010xeh.1_Silent_p.R164R	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	1072	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						GCCTGTGCCGGCACAACCGGA	0.532													4	184					0	0	0.014758	0	0		A	56646352	A	A	56646352	2	1	137	1	0	0	0	0	0	0	0	1	17997	1190	42	2		2	ZNF532	18	56646352	Silent	SNP	G	TCGA-CG-4449-01A-01D-1158-08	1283614	56646352	21430896	103	74832											
WDR18	57418	broad.mit.edu	37	chr19	992110	992110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcactctgcgcctgggcCtccaccagcaggtacggccc	5	6	11	19	2	2	0	1	0	1	0	3	0	3	0	6	3	3	2	6	3	1	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr19:992110C>T	uc002lqm.1	+	8	1113	c.1087C>T	c.(1087-1089)CTC>TTC	p.L363F	WDR18_uc002lqn.1_RNA|WDR18_uc010drx.1_Missense_Mutation_p.L326F|WDR18_uc010dry.1_Missense_Mutation_p.L363F	NM_024100	NP_077005	Q9BV38	WDR18_HUMAN	WD repeat domain 18	363										skin(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGCCTGGGCCTCCACCAGCA	0.726													3	2					0	0	0.150653	0	0		T	992110	T	T	992110	3	4	137	1	0	0	0	0	1	0	0	0	17304	681	24	4	1117	4	WDR18	19	992110	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08		992110	58136873	104	74833											
RDH8	50700	broad.mit.edu	37	chr19	10129585	10129585	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagtgtcatgggcctgcaGggtgagctgtggggacccaa	8	7	17	9	0	1	1	1	1	0	0	1	2	1	2	2	4	3	3	2	4	1	0			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr19:10129585G>A	uc002mmr.2	+	3	690	c.441G>A	c.(439-441)CAG>CAA	p.Q147Q		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	147	Helical; (Potential).				estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	TGGGCCTGCAGGGTGAGCTGT	0.552													27	33					0	0	0.153744	0	0		A	10129585	A	A	10129585	2	1	137	1	0	0	0	0	0	0	0	1	13221	1014	35	4		4	RDH8	19	10129585	Silent	SNP	G	TCGA-CG-4449-01A-01D-1158-08	9137475	10129585	48999398	105	74834											
DNMT1	1786	broad.mit.edu	37	chr19	10273405	10273405	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttcaggttctttttcttCgggcctccgtttggcagctc	2	19	9	11	2	3	0	1	0	2	0	6	0	4	0	2	3	1	4	2	3	0	7			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr19:10273405C>T	uc002mng.2	-	12	1078	c.898G>A	c.(898-900)GAA>AAA	p.E300K	DNMT1_uc010xlc.1_Missense_Mutation_p.E316K|DNMT1_uc002mnh.2_Missense_Mutation_p.E195K|DNMT1_uc010xld.1_Missense_Mutation_p.E300K|DNMT1_uc002mnk.2_RNA	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	300	Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	TCTTTTTCTTCGGGCCTCCGT	0.408													5	123					0	0	0.021553	0	0		T	10273405	T	T	10273405	3	4	137	1	0	0	0	0	1	0	0	0	4681	893	31	1	4068	1	DNMT1	19	10273405	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	143820	10273405	48855578	106	74835											
CACNA1A	773	broad.mit.edu	37	chr19	13411396	13411396	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttggccgcggacagaggActcacttctgccacctcctt	7	10	10	14	2	2	1	1	0	1	1	3	3	3	3	4	3	1	1	4	3	0	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr19:13411396A>G	uc010dze.2	-	18	2486	c.2250T>C	c.(2248-2250)AGT>AGC	p.S750S	CACNA1A_uc010dzc.2_Silent_p.S275S|CACNA1A_uc002mwy.3_Silent_p.S749S|CACNA1A_uc010xne.1_Silent_p.S278S	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	750	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	CGGACAGAGGACTCACTTCTG	0.527													63	302					0	0	0.139131	0	0		G	13411396	G	G	13411396	2	3	137	1	0	0	0	0	0	0	0	1	2541	272	10	3		3	CACNA1A	19	13411396	Silent	SNP	A	TCGA-CG-4449-01A-01D-1158-08	3137991	13411396	45717587	107	74836											
WIZ	58525	broad.mit.edu	37	chr19	15559049	15559049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatgttctcccttggcgccgGgccaggcagtctctctgggc	3	10	14	14	2	3	0	0	0	3	0	5	1	3	0	3	4	0	2	3	4	0	2			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr19:15559049G>A	uc002nbb.3	-	2	284	c.70C>T	c.(70-72)CCG>TCG	p.P24S	MIR1470_hsa-mir-1470|MI0007075_5'Flank	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	1105	Pro-rich.					nucleus	zinc ion binding				0						CTTGGCGCCGGGCCAGGCAGT	0.647													10	177					0	0	0.080935	0	0		A	15559049	A	A	15559049	3	1	137	1	0	0	0	0	1	0	0	0	17401	1232	43	4	2342	4	WIZ	19	15559049	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	2147653	15559049	43569934	108	74837											
ZNF599	148103	broad.mit.edu	37	chr19	35250430	35250430	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggccttcccacattcttTgcactcaaagggcttctctc	9	12	6	14	0	3	0	1	0	2	0	6	0	4	0	2	2	1	2	2	2	2	4			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr19:35250430T>A	uc010edn.1	-	4	1664	c.1276A>T	c.(1276-1278)AAA>TAA	p.K426*	ZNF599_uc010edm.1_Nonsense_Mutation_p.K389*	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	426	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			CCACATTCTTTGCACTCAAAG	0.473													21	309					0	0	0.062417	0	0		A	35250430	A	A	35250430	4	1	137	1	0	0	0	0	0	1	0	0	18054	1821	63	5	494	5	ZNF599	19	35250430	Nonsense_Mutation	SNP	T	TCGA-CG-4449-01A-01D-1158-08	19691381	35250430	23878553	109	74838											
HSPA12B	116835	broad.mit.edu	37	chr20	3726571	3726571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcctgtaccaggagctgaggGagcagagcccatcgctgcca	9	6	13	13	1	0	2	0	1	0	1	2	4	1	4	4	2	5	4	4	2	1	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr20:3726571G>A	uc002wjd.2	+	7	671	c.568G>A	c.(568-570)GAG>AAG	p.E190K	HSPA12B_uc010zqi.1_Missense_Mutation_p.E189K|HSPA12B_uc002wje.2_Missense_Mutation_p.E103K|HSPA12B_uc010zqj.1_Missense_Mutation_p.E24K	NM_052970	NP_443202	Q96MM6	HS12B_HUMAN	heat shock 70kD protein 12B	190							ATP binding				0						GGAGCTGAGGGAGCAGAGCCC	0.602													38	87					0	0	0.104719	0	0		A	3726571	A	A	3726571	3	1	137	1	0	0	0	0	1	0	0	0	7421	1175	41	4	590	4	HSPA12B	20	3726571	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08		3726571	59298949	110	74839											
BCL2L13	23786	broad.mit.edu	37	chr22	18209612	18209612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagcttacctgtgtcactgtCagctagccagagttggcaca	9	10	11	11	0	2	1	2	0	0	1	2	2	2	1	2	1	4	4	2	1	2	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr22:18209612C>T	uc002zmw.2	+	7	988	c.770C>T	c.(769-771)TCA>TTA	p.S257L	BCL2L13_uc002zmx.2_Missense_Mutation_p.S95L|BCL2L13_uc002zmy.2_3'UTR|BCL2L13_uc010gqy.2_Missense_Mutation_p.S95L|BCL2L13_uc011agk.1_Missense_Mutation_p.S133L|BCL2L13_uc010gqz.2_5'UTR|BCL2L13_uc002zmz.2_Missense_Mutation_p.S95L|BCL2L13_uc002zna.2_5'UTR	NM_015367	NP_056182	Q9BXK5	B2L13_HUMAN	BCL2-like 13 (apoptosis facilitator)	257					induction of apoptosis	integral to membrane|mitochondrial membrane|nucleus	caspase activator activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4		all_epithelial(15;0.123)		Lung(27;0.199)		GTGTCACTGTCAGCTAGCCAG	0.527													16	39					0	0	0.049695	0	0		T	18209612	T	T	18209612	3	4	137	1	0	0	0	0	1	0	0	0	1372	838	29	4	792	4	BCL2L13	22	18209612	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08		18209612	33094954	111	74840											
BCL2L13	23786	broad.mit.edu	37	chr22	18209747	18209747	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agagaagagtgagaacaactCctctaattctgacattgtgc	14	10	9	8	0	2	4	0	2	2	3	3	6	3	4	1	0	3	0	1	0	4	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr22:18209747C>G	uc002zmw.2	+	7	1123	c.905C>G	c.(904-906)TCC>TGC	p.S302C	BCL2L13_uc002zmx.2_Missense_Mutation_p.S140C|BCL2L13_uc002zmy.2_3'UTR|BCL2L13_uc010gqy.2_Missense_Mutation_p.S140C|BCL2L13_uc011agk.1_Missense_Mutation_p.S178C|BCL2L13_uc010gqz.2_Missense_Mutation_p.S22C|BCL2L13_uc002zmz.2_Missense_Mutation_p.S140C|BCL2L13_uc002zna.2_Missense_Mutation_p.S22C	NM_015367	NP_056182	Q9BXK5	B2L13_HUMAN	BCL2-like 13 (apoptosis facilitator)	302					induction of apoptosis	integral to membrane|mitochondrial membrane|nucleus	caspase activator activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4		all_epithelial(15;0.123)		Lung(27;0.199)		GAGAACAACTCCTCTAATTCT	0.537													7	66					0	0	0.038147	0	0		G	18209747	G	G	18209747	3	3	137	1	0	0	0	0	1	0	0	0	1372	855	30	5	927	5	BCL2L13	22	18209747	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08	135	18209747	33094819	112	74841											
SGSM1	129049	broad.mit.edu	37	chr22	25313668	25313668	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgatgcatcagaacggggActatactcacttctacttct	10	12	8	11	1	4	2	2	1	2	1	4	3	4	3	0	2	4	2	0	2	4	5			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr22:25313668A>G	uc003abg.2	+	24	3294	c.3137A>G	c.(3136-3138)GAC>GGC	p.D1046G	SGSM1_uc003abh.2_Missense_Mutation_p.D985G|SGSM1_uc010guu.1_Missense_Mutation_p.D991G|SGSM1_uc003abj.2_Missense_Mutation_p.D930G|SGSM1_uc003abi.1_Missense_Mutation_p.D966G	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	1046	Rab-GAP TBC.					Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						CAGAACGGGGACTATACTCAC	0.502													4	55					0	0	0.150653	0	0		G	25313668	G	G	25313668	3	3	137	1	0	0	0	0	1	0	0	0	14247	275	10	3	3231	3	SGSM1	22	25313668	Missense_Mutation	SNP	A	TCGA-CG-4449-01A-01D-1158-08	7103921	25313668	25990898	113	74842											
ZNRF3	84133	broad.mit.edu	37	chr22	29445281	29445281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggtgcattaccccggccGcgtgcacaggaccaacgcca	8	4	12	17	5	0	0	0	0	0	0	0	1	0	1	6	3	4	2	6	3	2	1			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chr22:29445281G>A	uc003aeg.2	+	8	977	c.812G>A	c.(811-813)CGC>CAC	p.R271H	ZNRF3_uc003aeh.1_Missense_Mutation_p.R271H	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	371	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						TACCCCGGCCGCGTGCACAGG	0.642													29	76					0	0	0.069456	0	0		A	29445281	A	A	29445281	3	1	137	1	0	0	0	0	1	0	0	0	18238	1087	38	1	838	1	ZNRF3	22	29445281	Missense_Mutation	SNP	G	TCGA-CG-4449-01A-01D-1158-08	4131613	29445281	21859285	114	74843											
HUWE1	10075	broad.mit.edu	37	chrX	53564520	53564520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgttcctgggcccttacaatCgattcttcatttcttcgggg	5	15	9	12	3	3	0	1	0	2	0	6	1	4	0	2	3	1	1	2	3	2	6			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chrX:53564520C>T	uc004dsp.2	-	78	12536	c.12134G>A	c.(12133-12135)CGA>CAA	p.R4045Q	HUWE1_uc004dsn.2_Missense_Mutation_p.R2853Q|HUWE1_uc004dsq.1_Missense_Mutation_p.R345Q	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	4045	HECT.				base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CCCTTACAATCGATTCTTCAT	0.537													8	4					0	0	0.058154	0	0		T	53564520	T	T	53564520	3	4	137	1	0	0	0	0	1	0	0	0	7477	884	31	1	1018	1	HUWE1	23	53564520	Missense_Mutation	SNP	C	TCGA-CG-4449-01A-01D-1158-08		53564520	101706040	115	74844											
NRK	203447	broad.mit.edu	37	chrX	105197150	105197150	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaagctgagattcctgtgCacccggggtgacaaggtata	12	8	13	8	1	0	3	0	2	0	2	1	4	1	3	2	3	2	3	2	3	5	3			TCGA-CG-4449-01A-01D-1158-08	TCGA-CG-4449-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	fa76e231-afc1-490d-8463-4438ee64a36f	1318498f-4165-4777-b997-e3ec9346d8ef	g.chrX:105197150C>T	uc004emd.2	+	28	4941	c.4638C>T	c.(4636-4638)TGC>TGT	p.C1546C	NRK_uc011msi.1_Silent_p.C127C	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1546	CNH.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						GATTCCTGTGCACCCGGGGTG	0.463										HNSCC(51;0.14)			4	7					0	0	0.150653	0	0		T	105197150	T	T	105197150	2	4	137	1	0	0	0	0	0	0	0	1	10674	718	25	2		2	NRK	23	105197150	Silent	SNP	C	TCGA-CG-4449-01A-01D-1158-08	51632630	105197150	50073410	116	74845											
TAS1R3	83756	broad.mit.edu	37	chr1	1267882	1267882	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgggcacggtgcttggctTcctccagaggggtgcccagc	5	8	16	12	1	0	1	0	0	0	1	2	2	2	1	3	5	3	3	3	5	0	2			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr1:1267882T>C	uc010nyk.1	+	3	971	c.971T>C	c.(970-972)TTC>TCC	p.F324S		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	324	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)	Aspartame(DB00168)	GTGCTTGGCTTCCTCCAGAGG	0.692													4	55					0	0	0.009096	0	0		C	1267882	C	C	1267882	3	2	138	1	0	0	0	0	1	0	0	0	15589	1783	62	3	981	3	TAS1R3	1	1267882	Missense_Mutation	SNP	T	TCGA-CG-4455-01A-01D-1158-08		1267882	247982739	1	74846											
UBR4	23352	broad.mit.edu	37	chr1	19446105	19446105	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcctagtaggtccacaaaCtgggcagccttacgaccata	12	9	8	12	1	0	0	0	0	0	0	2	1	2	0	4	2	3	2	4	2	6	5			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr1:19446105C>T	uc001bbi.2	-	70	10405	c.10401G>A	c.(10399-10401)CAG>CAA	p.Q3467Q	UBR4_uc001bbj.1_5'Flank	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3467					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GGTCCACAAACTGGGCAGCCT	0.468													16	119					0	0	0.004007	0	0		T	19446105	T	T	19446105	2	4	138	1	0	0	0	0	0	0	0	1	16930	564	20	4		4	UBR4	1	19446105	Silent	SNP	C	TCGA-CG-4455-01A-01D-1158-08	18178223	19446105	229804516	2	74847											
UBR4	23352	broad.mit.edu	37	chr1	19523680	19523680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactgtcacatcttgtagacGagaaggattgagaggttcca	12	10	12	7	1	2	3	1	1	1	3	3	7	3	4	1	2	0	2	1	2	2	4			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr1:19523680G>A	uc001bbi.2	-	8	977	c.973C>T	c.(973-975)CGT>TGT	p.R325C		NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	325					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TCTTGTAGACGAGAAGGATTG	0.408													21	155					0	0	0.003954	0	0		A	19523680	A	A	19523680	3	1	138	1	0	0	0	0	1	0	0	0	16930	1058	37	1	14974	1	UBR4	1	19523680	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08	77575	19523680	229726941	3	74848											
PEAR1	375033	broad.mit.edu	37	chr1	156883511	156883511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcctggaccgaagctacaGctatagctacagcaatggcc	11	6	10	14	2	0	0	0	0	0	0	0	2	0	1	4	2	6	4	4	2	6	4			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr1:156883511G>A	uc001fqj.1	+	21	2788	c.2672G>A	c.(2671-2673)AGC>AAC	p.S891N	PEAR1_uc001fqk.1_Missense_Mutation_p.S516N	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	891	Pro-rich.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CGAAGCTACAGCTATAGCTAC	0.597													11	33					0	0	0.010729	0	0		A	156883511	A	A	156883511	3	1	138	1	0	0	0	0	1	0	0	0	11731	971	34	2	2750	2	PEAR1	1	156883511	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08	137359831	156883511	92367110	4	74849											
ASTN1	460	broad.mit.edu	37	chr1	177001708	177001708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccctctgcagatggtggCgcagatcagtgatgtcatac	9	10	11	11	1	3	3	2	1	1	2	4	3	4	3	1	2	2	2	1	2	1	1			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr1:177001708C>T	uc001glc.2	-	3	961	c.749G>A	c.(748-750)CGC>CAC	p.R250H	ASTN1_uc001glb.1_Missense_Mutation_p.R250H|ASTN1_uc001gld.1_Missense_Mutation_p.R250H|ASTN1_uc009wwx.1_Missense_Mutation_p.R250H|ASTN1_uc001gle.3_RNA	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	250					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						CAGATGGTGGCGCAGATCAGT	0.617													5	139					0	0	0.001168	0	0		T	177001708	T	T	177001708	3	4	138	1	0	0	0	0	1	0	0	0	1065	768	27	1	3223	1	ASTN1	1	177001708	Missense_Mutation	SNP	C	TCGA-CG-4455-01A-01D-1158-08	20118197	177001708	72248913	5	74850											
OR2B11	127623	broad.mit.edu	37	chr1	247614356	247614356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacagagcctccagatcctgGccagaagtctcctcagagcc	10	6	9	16	0	2	4	1	0	1	4	5	4	4	4	6	1	2	0	6	1	1	0			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr1:247614356G>A	uc010pyx.1	-	1	929	c.929C>T	c.(928-930)GCC>GTC	p.A310V		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CCAGATCCTGGCCAGAAGTCT	0.448													48	555					0	0	0.01441	0	0		A	247614356	A	A	247614356	3	1	138	1	0	0	0	0	1	0	0	0	11007	1203	42	2	27	2	OR2B11	1	247614356	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08	70612648	247614356	1636265	6	74851											
DPP10	57628	broad.mit.edu	37	chr2	116572421	116572421	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ataagttccatattgactggGattccgtactcattgacatg	11	14	8	8	1	1	2	1	2	0	0	3	3	3	3	2	1	1	2	2	1	3	7			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr2:116572421G>T	uc002tla.1	+	20	2210	c.1753G>T	c.(1753-1755)GAT>TAT	p.D585Y	DPP10_uc002tlb.1_Missense_Mutation_p.D535Y|DPP10_uc002tlc.1_Missense_Mutation_p.D581Y|DPP10_uc002tle.2_Missense_Mutation_p.D589Y|DPP10_uc002tlf.1_Missense_Mutation_p.D578Y	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	585	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TATTGACTGGGATTCCGTACT	0.423													22	167					2.21704e-12	3.10385e-12	0.00278	1	0		T	116572421	T	T	116572421	3	4	138	1	0	0	0	0	1	0	0	0	4733	1174	41	5	2002	5	DPP10	2	116572421	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08		116572421	126626952	7	74852											
ZAK	51776	broad.mit.edu	37	chr2	174074513	174074513	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtccatgtcaaatgacacGagccttcctgacaagtgtaa	13	9	9	10	1	1	2	1	2	0	0	3	4	3	2	3	0	1	1	3	0	3	2	rs145549000		TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr2:174074513G>A	uc002uhz.2	+	10	1001	c.801G>A	c.(799-801)ACG>ACA	p.T267T	ZAK_uc002uhx.2_Silent_p.T267T|ZAK_uc002uhy.2_Silent_p.T267T|ZAK_uc010zei.1_Silent_p.T166T|ZAK_uc002uia.1_Silent_p.T267T|uc002uib.2_RNA	NM_016653	NP_057737	Q9NYL2	MLTK_HUMAN	MLK-related kinase isoform 1	267	Protein kinase.				activation of JUN kinase activity|activation of MAPKK activity|cell cycle arrest|cell death|cell differentiation|cell proliferation|DNA damage checkpoint|positive regulation of apoptosis|response to radiation	cytoplasm|nucleus	ATP binding|identical protein binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			lung(3)|stomach(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.176)			CAAATGACACGAGCCTTCCTG	0.468													42	87					0	0	0.01441	0	0		A	174074513	A	A	174074513	2	1	138	1	0	0	0	0	0	0	0	1	17538	1045	37	1		1	ZAK	2	174074513	Silent	SNP	G	TCGA-CG-4455-01A-01D-1158-08	57502092	174074513	69124860	8	74853											
BARD1	580	broad.mit.edu	37	chr2	215646142	215646142	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcacaacatatctgactttCttacttcgagggctaaacca	12	12	5	12	1	3	1	1	1	2	0	4	2	3	1	1	1	3	1	1	1	5	5			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr2:215646142C>T	uc002veu.2	-	4	591	c.456G>A	c.(454-456)AAG>AAA	p.K152K	BARD1_uc010zjm.1_Silent_p.K8K	NM_000465	NP_000456	Q99728	BARD1_HUMAN	BRCA1 associated RING domain 1	152					cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		ATCTGACTTTCTTACTTCGAG	0.358									Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				4	153					0	0	0.009096	0	0		T	215646142	T	T	215646142	2	4	138	1	0	0	0	0	0	0	0	1	1313	912	32	4		4	BARD1	2	215646142	Silent	SNP	C	TCGA-CG-4455-01A-01D-1158-08	41571629	215646142	27553231	9	74854											
TTLL4	9654	broad.mit.edu	37	chr2	219609922	219609922	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtctctttcccaacgttccCcctaccatctattttggcac	7	14	4	16	1	2	0	0	0	2	0	5	0	4	0	4	1	2	2	4	1	3	6			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr2:219609922C>T	uc002viy.2	+	6	2122	c.1752C>T	c.(1750-1752)CCC>CCT	p.P584P	TTLL4_uc010zkl.1_Silent_p.P419P|TTLL4_uc010fvx.2_Silent_p.P584P|TTLL4_uc010zkm.1_5'Flank	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	584					protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		CCAACGTTCCCCCTACCATCT	0.502													27	196					0	0	0.012213	0	0		T	219609922	T	T	219609922	2	4	138	1	0	0	0	0	0	0	0	1	16755	610	22	4		4	TTLL4	2	219609922	Silent	SNP	C	TCGA-CG-4455-01A-01D-1158-08	3963780	219609922	23589451	10	74855											
RBMS3	27303	broad.mit.edu	37	chr3	29781274	29781274	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccatttctatggatgagcagGagcttgagaatatgctgaaa	13	11	11	6	0	1	3	0	3	1	1	1	6	1	5	1	2	3	3	1	2	4	4			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr3:29781274G>C	uc003cel.2	+	5	693	c.463G>C	c.(463-465)GAG>CAG	p.E155Q	RBMS3_uc003cek.2_Missense_Mutation_p.E155Q|RBMS3_uc010hfq.2_Missense_Mutation_p.E155Q|RBMS3_uc003cem.2_Missense_Mutation_p.E154Q|RBMS3_uc010hfr.2_Missense_Mutation_p.E155Q	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	155	RRM 2.					cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				GGATGAGCAGGAGCTTGAGAA	0.418													5	231					0	0	0.001168	0	0		C	29781274	C	C	29781274	3	2	138	1	0	0	0	0	1	0	0	0	13175	1175	41	5	481	5	RBMS3	3	29781274	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08		29781274	168241156	11	74856											
ZBTB11	27107	broad.mit.edu	37	chr3	101384055	101384055	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatatcctcagctgatataTcatttcccataccactatcc	13	13	2	13	0	2	1	2	1	0	0	5	1	5	1	4	0	2	1	4	0	6	6			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr3:101384055T>A	uc003dve.3	-	4	1606	c.1376A>T	c.(1375-1377)GAT>GTT	p.D459V		NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	459					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						AGCTGATATATCATTTCCCAT	0.363													35	361					0	0	0.011902	0	0		A	101384055	A	A	101384055	3	1	138	1	0	0	0	0	1	0	0	0	17549	1435	50	5	1817	5	ZBTB11	3	101384055	Missense_Mutation	SNP	T	TCGA-CG-4455-01A-01D-1158-08	71602781	101384055	96638375	12	74857											
ATR	545	broad.mit.edu	37	chr3	142215233	142215233	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccactttgccctttccacGtacagttcagcgagtcgtga	8	11	9	13	3	1	1	1	1	0	0	3	2	2	1	3	0	4	2	3	0	1	4	rs112018640	byFrequency	TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr3:142215233G>A	uc003eux.3	-	34	5990	c.5868C>T	c.(5866-5868)TAC>TAT	p.Y1956Y		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1956	FAT.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity	p.Y1956Y(2)		lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						CCCTTTCCACGTACAGTTCAG	0.418								Other_conserved_DNA_damage_response_genes					13	92					0	0	0.007413	0	0		A	142215233	A	A	142215233	2	1	138	1	0	0	0	0	0	0	0	1	1205	1140	40	1		1	ATR	3	142215233	Silent	SNP	G	TCGA-CG-4455-01A-01D-1158-08	40831178	142215233	55807197	13	74858											
DEFB131	644414	broad.mit.edu	37	chr4	9452104	9452104	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccagaagcttcatttctaAtgatgaatgtccttcagaat	13	13	7	8	0	3	4	2	2	1	2	4	4	4	4	2	0	2	1	2	0	4	4			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr4:9452104A>G	uc011bwt.1	+	2	77	c.77A>G	c.(76-78)AAT>AGT	p.N26S		NM_001040448	NP_001035538	P59861	DB131_HUMAN	defensin, beta 131 precursor	26					defense response to bacterium	extracellular region					0						TTCATTTCTAATGATGAATGT	0.308													3	49					0	0	0.000602	0	0		G	9452104	G	G	9452104	3	3	138	1	0	0	0	0	1	0	0	0	4422	101	4	3	83	3	DEFB131	4	9452104	Missense_Mutation	SNP	A	TCGA-CG-4455-01A-01D-1158-08		9452104	181702172	14	74859											
JARID2	3720	broad.mit.edu	37	chr6	15512493	15512493	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgcacaggaccgtgcagCagagtggccagtttgtcgtc	8	8	15	10	2	0	1	0	0	0	1	2	2	0	2	2	3	3	4	2	3	0	1			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr6:15512493C>A	uc003nbj.2	+	14	3251	c.3007C>A	c.(3007-3009)CAG>AAG	p.Q1003K	JARID2_uc011div.1_Missense_Mutation_p.Q831K	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	1003	JmjC.				central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				GACCGTGCAGCAGAGTGGCCA	0.612													8	48					0.000673444	0.000875477	0.008291	1	0		A	15512493	A	A	15512493	3	1	138	1	0	0	0	0	1	0	0	0	7961	711	25	5	3061	5	JARID2	6	15512493	Missense_Mutation	SNP	C	TCGA-CG-4455-01A-01D-1158-08		15512493	155602574	15	74860											
VARS2	57176	broad.mit.edu	37	chr6	30890739	30890739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctgagattcacactctgctCccatggagttcagggtaagc	9	10	10	12	0	3	1	2	1	1	1	4	3	4	2	2	2	2	3	2	2	1	3			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr6:30890739C>T	uc003nsc.1	+	22	2803	c.2171C>T	c.(2170-2172)TCC>TTC	p.S724F	VARS2_uc011dmx.1_Missense_Mutation_p.S724F|VARS2_uc011dmy.1_Missense_Mutation_p.S584F|VARS2_uc011dmz.1_Missense_Mutation_p.S754F|VARS2_uc011dna.1_Missense_Mutation_p.S722F|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_Missense_Mutation_p.S162F|VARS2_uc010jsg.1_Missense_Mutation_p.S96F|VARS2_uc010jsh.1_5'Flank	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	724					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						ACACTCTGCTCCCATGGAGTT	0.612													17	123					0	0	0.00499	0	0		T	30890739	T	T	30890739	3	4	138	1	0	0	0	0	1	0	0	0	17150	855	30	4	2351	4	VARS2	6	30890739	Missense_Mutation	SNP	C	TCGA-CG-4455-01A-01D-1158-08	15378246	30890739	140224328	16	74861											
FYN	2534	broad.mit.edu	37	chr6	112029214	112029214	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggagcgggcttcccaccaAtctccttccctgtaaataaa	12	9	7	13	1	1	0	0	0	1	0	4	1	3	1	4	2	1	2	4	2	6	4			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr6:112029214A>G	uc003pvj.2	-	5	694	c.354T>C	c.(352-354)GAT>GAC	p.D118D	FYN_uc003pvi.2_Silent_p.D118D|FYN_uc003pvk.2_Silent_p.D118D|FYN_uc003pvh.2_Silent_p.D118D	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	118	SH3.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	CTTCCCACCAATCTCCTTCCC	0.428													5	49					0	0	0.001168	0	0		G	112029214	G	G	112029214	2	3	138	1	0	0	0	0	0	0	0	1	6140	98	4	3		3	FYN	6	112029214	Silent	SNP	A	TCGA-CG-4455-01A-01D-1158-08	81138475	112029214	59085853	17	74862											
DNAH11	8701	broad.mit.edu	37	chr7	21939016	21939016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacaagaccttacccttcCggctgtcgtgtggctctccg	6	10	10	15	3	1	1	0	0	1	1	4	2	2	1	4	2	1	2	4	2	2	2			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr7:21939016C>T	uc003svc.2	+	81	13164	c.13133C>T	c.(13132-13134)CCG>CTG	p.P4378L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4378					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTTACCCTTCCGGCTGTCGTG	0.537									Kartagener_syndrome				33	230					0	0	0.009718	0	0		T	21939016	T	T	21939016	3	4	138	1	0	0	0	0	1	0	0	0	4605	652	23	1	13452	1	DNAH11	7	21939016	Missense_Mutation	SNP	C	TCGA-CG-4455-01A-01D-1158-08		21939016	137199647	18	74863											
DDC	1644	broad.mit.edu	37	chr7	50607687	50607687	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgggtacgagctggcagtggGgaagtaggcgaagaagtagg	11	5	20	5	3	0	1	0	0	0	1	0	4	0	2	0	6	2	5	0	6	6	3			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr7:50607687G>A	uc003tpf.3	-	3	327	c.241C>T	c.(241-243)CCC>TCC	p.P81S	DDC_uc010kza.2_Missense_Mutation_p.P81S|DDC_uc003tpg.3_Missense_Mutation_p.P81S	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	81	1.|2 X approximate tandem repeats.				cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	CTGGCAGTGGGGAAGTAGGCG	0.637													7	39					0	0	0.00308	0	0		A	50607687	A	A	50607687	3	1	138	1	0	0	0	0	1	0	0	0	4328	1232	43	4	1249	4	DDC	7	50607687	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08	28668671	50607687	108530976	19	74864											
MAGI2	9863	broad.mit.edu	37	chr7	78256458	78256458	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcataagtcccactttctagGagagcaccacttttctccaa	11	12	5	13	0	3	1	1	0	2	1	5	2	4	1	3	1	1	1	3	1	3	5			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr7:78256458G>A	uc003ugx.2	-	3	770	c.516C>T	c.(514-516)CTC>CTT	p.L172L	MAGI2_uc003ugy.2_Silent_p.L172L|MAGI2_uc011kgr.1_5'UTR|MAGI2_uc011kgs.1_Silent_p.L9L	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	172	Guanylate kinase-like.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				CACTTTCTAGGAGAGCACCAC	0.443													6	91					0	0	0.001984	0	0		A	78256458	A	A	78256458	2	1	138	1	0	0	0	0	0	0	0	1	9209	1161	41	4		4	MAGI2	7	78256458	Silent	SNP	G	TCGA-CG-4455-01A-01D-1158-08	27648771	78256458	80882205	20	74865											
PCLO	27445	broad.mit.edu	37	chr7	82579972	82579972	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actggtagatctgccgaatcTtttgctcctccagctgctgg	6	13	10	12	1	2	1	0	0	2	1	4	2	4	1	3	2	4	4	3	2	2	3			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr7:82579972T>G	uc003uhx.2	-	6	10221	c.9932A>C	c.(9931-9933)AAG>ACG	p.K3311T	PCLO_uc003uhv.2_Missense_Mutation_p.K3311T|PCLO_uc010lec.2_Missense_Mutation_p.K276T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3242	Gln-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CTGCCGAATCTTTTGCTCCTC	0.488													47	86					0	0	0.01441	0	0		G	82579972	G	G	82579972	3	3	138	1	0	0	0	0	1	0	0	0	11602	1609	56	5	5593	5	PCLO	7	82579972	Missense_Mutation	SNP	T	TCGA-CG-4455-01A-01D-1158-08	4323514	82579972	76558691	21	74866											
SLC25A40	55972	broad.mit.edu	37	chr7	87477182	87477182	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	actcacatctggctacaattCcagcaacaattggtatgcag	13	10	7	11	0	2	0	1	0	1	0	3	0	3	0	1	2	4	4	1	2	5	4			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr7:87477182C>G	uc003uje.2	-	7	794	c.443G>C	c.(442-444)GGA>GCA	p.G148A		NM_018843	NP_061331	Q8TBP6	S2540_HUMAN	mitochondrial carrier family protein	148	Helical; Name=3; (Potential).|Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			haematopoietic_and_lymphoid_tissue(1)	1	Esophageal squamous(14;0.00202)					GGCTACAATTCCAGCAACAAT	0.318													6	61					0	0	0.001168	0	0		G	87477182	G	G	87477182	3	3	138	1	0	0	0	0	1	0	0	0	14530	855	30	5	597	5	SLC25A40	7	87477182	Missense_Mutation	SNP	C	TCGA-CG-4455-01A-01D-1158-08	4897210	87477182	71661481	22	74867											
C7orf63	79846	broad.mit.edu	37	chr7	89938590	89938590	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcagaaagcaaaaagccTtcaagaaaaagctatagaag	20	6	7	8	0	2	3	2	0	0	3	3	3	3	3	2	0	3	2	2	0	9	3			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr7:89938590T>A	uc010lep.2	+	22	2815	c.2564T>A	c.(2563-2565)CTT>CAT	p.L855H	C7orf63_uc011khj.1_Missense_Mutation_p.L837H|C7orf63_uc011khk.1_Missense_Mutation_p.L371H	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	855							binding			ovary(1)	1						GCAAAAAGCCTTCAAGAAAAA	0.299													10	75					0	0	0.006214	0	0		A	89938590	A	A	89938590	3	1	138	1	0	0	0	0	1	0	0	0	2412	1609	56	5	2650	5	C7orf63	7	89938590	Missense_Mutation	SNP	T	TCGA-CG-4455-01A-01D-1158-08	2461408	89938590	69200073	23	74868											
ZKSCAN5	23660	broad.mit.edu	37	chr7	99117466	99117466	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagcccttcctgttctccaAgttccttcccttcccctgaa	5	15	4	17	0	1	1	0	1	1	0	6	1	5	1	7	0	1	2	7	0	3	6			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr7:99117466A>G	uc003uqv.2	+	4	694	c.570A>G	c.(568-570)CAA>CAG	p.Q190Q	ZKSCAN5_uc010lfx.2_Silent_p.Q190Q|ZKSCAN5_uc003uqw.2_Silent_p.Q190Q|ZKSCAN5_uc003uqx.2_Intron|ZKSCAN5_uc003uqy.2_5'UTR	NM_145102	NP_659570	Q9Y2L8	ZKSC5_HUMAN	zinc finger with KRAB and SCAN domains 5	190					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					CTGTTCTCCAAGTTCCTTCCC	0.527													26	257					0	0	0.004656	0	0		G	99117466	G	G	99117466	2	3	138	1	0	0	0	0	0	0	0	1	17715	69	3	3		3	ZKSCAN5	7	99117466	Silent	SNP	A	TCGA-CG-4455-01A-01D-1158-08	9178876	99117466	60021197	24	74869											
SERPINE1	5054	broad.mit.edu	37	chr7	100773794	100773794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccacagacgcgatcttcGtccagcgggatctgaagctg	9	7	12	13	4	2	2	0	1	2	1	4	4	3	3	2	1	2	2	2	1	1	1			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr7:100773794G>A	uc003uxt.2	+	3	512	c.364G>A	c.(364-366)GTC>ATC	p.V122I	SERPINE1_uc011kkj.1_Missense_Mutation_p.V107I|SERPINE1_uc003uxu.1_5'Flank	NM_000602	NP_000593	P05121	PAI1_HUMAN	plasminogen activator inhibitor-1 isoform 1	122					angiogenesis|cellular response to chemical stimulus|cellular response to lipopolysaccharide|chronological cell aging|defense response to Gram-negative bacterium|fibrinolysis|negative regulation of apoptosis|negative regulation of cell adhesion mediated by integrin|negative regulation of fibrinolysis|negative regulation of plasminogen activation|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell-matrix adhesion|negative regulation of vascular wound healing|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of interleukin-8 production|positive regulation of leukotriene production involved in inflammatory response|positive regulation of monocyte chemotaxis|positive regulation of receptor-mediated endocytosis|regulation of receptor activity	extracellular matrix|extracellular space|plasma membrane|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Lung NSC(181;0.136)|all_lung(186;0.182)				Atorvastatin(DB01076)|Dimethyl sulfoxide(DB01093)|Drotrecogin alfa(DB00055)|Simvastatin(DB00641)|Tenecteplase(DB00031)|Troglitazone(DB00197)|Urokinase(DB00013)	CGCGATCTTCGTCCAGCGGGA	0.597													114	684					0	0	0.01441	0	0		A	100773794	A	A	100773794	3	1	138	1	0	0	0	0	1	0	0	0	14136	1145	40	1	370	1	SERPINE1	7	100773794	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08	1656328	100773794	58364869	25	74870											
MTSS1	9788	broad.mit.edu	37	chr8	125603445	125603445	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcctcatgcacatcctGgtgagagcagatccaatctc	9	10	9	13	0	2	2	1	1	1	2	5	3	4	2	3	1	3	2	3	1	1	0			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr8:125603445G>A	uc003yrk.2	-	4	774	c.240C>T	c.(238-240)ACC>ACT	p.T80T	MTSS1_uc003yrj.2_Silent_p.T80T|MTSS1_uc003yrl.2_Silent_p.T80T	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	80	IMD.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			TGCACATCCTGGTGAGAGCAG	0.517													10	55					0	0	0.006214	0	0		A	125603445	A	A	125603445	2	1	138	1	0	0	0	0	0	0	0	1	9980	1335	47	4		4	MTSS1	8	125603445	Silent	SNP	G	TCGA-CG-4455-01A-01D-1158-08		125603445	20760577	26	74871											
C9orf79	286234	broad.mit.edu	37	chr9	90500005	90500005	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagctcctctggcctccacCctgtcaccaggcccgatgac	6	7	8	20	1	2	1	1	1	1	0	4	2	4	1	7	2	1	1	7	2	0	0			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr9:90500005C>T	uc004app.3	+	4	638	c.603C>T	c.(601-603)ACC>ACT	p.T201T	C9orf79_uc004apo.1_Intron	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	201	Pro-rich.					integral to membrane				ovary(3)	3						TGGCCTCCACCCTGTCACCAG	0.622													18	143					0	0	0.014323	0	0		T	90500005	T	T	90500005	2	4	138	1	0	0	0	0	0	0	0	1	2500	610	22	4		4	C9orf79	9	90500005	Silent	SNP	C	TCGA-CG-4455-01A-01D-1158-08		90500005	50713426	27	74872											
SOHLH1	402381	broad.mit.edu	37	chr9	138588519	138588519	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagtgcctcacacttgtcCgtgcccagggacgtgcagct	8	8	11	14	2	1	0	1	0	0	0	2	1	2	1	3	1	5	2	3	1	1	1			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr9:138588519C>T	uc004cgl.2	-	5	661	c.600G>A	c.(598-600)ACG>ACA	p.T200T	SOHLH1_uc010nbe.2_Silent_p.T200T	NM_001012415	NP_001012415	Q5JUK2	SOLH1_HUMAN	spermatogenesis and oogenesis specific basic	200					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			breast(1)|central_nervous_system(1)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.66e-07)|Epithelial(140;1.11e-06)|all cancers(34;6.45e-05)		CACACTTGTCCGTGCCCAGGG	0.682													26	45					0	0	0.004656	0	0		T	138588519	T	T	138588519	2	4	138	1	0	0	0	0	0	0	0	1	14948	639	23	1		1	SOHLH1	9	138588519	Silent	SNP	C	TCGA-CG-4455-01A-01D-1158-08	48088514	138588519	2624912	28	74873											
ITGA8	8516	broad.mit.edu	37	chr10	15714730	15714730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaatgatatctgcaacaCtggcagtgatcacttgtcct	10	13	8	10	0	2	2	1	2	1	0	3	2	3	2	1	1	3	3	1	1	3	3			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr10:15714730C>T	uc001ioc.1	-	7	695	c.695G>A	c.(694-696)AGT>AAT	p.S232N	ITGA8_uc010qcb.1_Missense_Mutation_p.S232N	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	232	FG-GAP 3.|Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						ATCTGCAACACTGGCAGTGAT	0.443													18	95					0	0	0.007413	0	0		T	15714730	T	T	15714730	3	4	138	1	0	0	0	0	1	0	0	0	7898	565	20	4	2592	4	ITGA8	10	15714730	Missense_Mutation	SNP	C	TCGA-CG-4455-01A-01D-1158-08		15714730	119820017	29	74874											
PTER	9317	broad.mit.edu	37	chr10	16553208	16553208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcataactgagaatgtgcttGataagattctaatagagaac	16	11	9	5	0	1	4	0	2	1	3	1	6	1	4	0	0	3	2	0	0	6	6			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr10:16553208G>A	uc001iog.1	+	6	1210	c.1003G>A	c.(1003-1005)GAT>AAT	p.D335N	PTER_uc001ioh.1_Missense_Mutation_p.D335N|PTER_uc001ioi.1_Missense_Mutation_p.D335N|PTER_uc009xjp.1_Missense_Mutation_p.D288N	NM_030664	NP_109589	Q96BW5	PTER_HUMAN	phosphotriesterase related	335					catabolic process		hydrolase activity, acting on ester bonds|zinc ion binding			ovary(2)	2						GAATGTGCTTGATAAGATTCT	0.383													21	119					0	0	0.014323	0	0		A	16553208	A	A	16553208	3	1	138	1	0	0	0	0	1	0	0	0	12761	1290	45	4	1017	4	PTER	10	16553208	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08	838478	16553208	118981539	30	74875											
CUBN	8029	broad.mit.edu	37	chr10	16941012	16941012	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaccttcacgaagctattctGacattgtccatcaccgctgg	10	11	7	13	2	3	1	2	1	1	0	4	2	4	1	3	1	2	2	3	1	3	4			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr10:16941012G>A	uc001ioo.2	-	54	8633	c.8581C>T	c.(8581-8583)CAG>TAG	p.Q2861*	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Nonsense_Mutation_p.Q217*	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2861	CUB 21.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AAGCTATTCTGACATTGTCCA	0.408													21	117					0	0	0.00278	0	0		A	16941012	A	A	16941012	4	1	138	1	0	0	0	0	0	1	0	0	4054	1299	45	4	2346	4	CUBN	10	16941012	Nonsense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08	387804	16941012	118593735	31	74876											
MUC6	4588	broad.mit.edu	37	chr11	1016108	1016108	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatggggtgggagacacggtAacagtggatatggggagtag	11	7	20	3	1	0	1	0	0	0	1	0	5	0	3	0	7	1	2	0	7	3	3			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr11:1016108A>G	uc001lsw.2	-	31	6744	c.6693T>C	c.(6691-6693)GTT>GTC	p.V2231V		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2231	Ser-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GAGACACGGTAACAGTGGATA	0.592													23	66					0	0	0.014323	0	0		G	1016108	G	G	1016108	2	3	138	1	0	0	0	0	0	0	0	1	9998	349	13	3		3	MUC6	11	1016108	Silent	SNP	A	TCGA-CG-4455-01A-01D-1158-08		1016108	133990408	32	74877											
OR51B6	390058	broad.mit.edu	37	chr11	5373214	5373214	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccattatgccaatagttgtTcgcctacactggtttcccta	8	15	6	12	1	0	0	0	0	0	0	3	0	2	0	4	1	2	3	4	1	5	7			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr11:5373214T>A	uc010qzb.1	+	1	477	c.477T>A	c.(475-477)GTT>GTA	p.V159V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	159	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAATAGTTGTTCGCCTACACT	0.483													20	136					0	0	0.012319	0	0		A	5373214	A	A	5373214	2	1	138	1	0	0	0	0	0	0	0	1	11111	1770	62	5		5	OR51B6	11	5373214	Silent	SNP	T	TCGA-CG-4455-01A-01D-1158-08	4357106	5373214	129633302	33	74878											
RCE1	9986	broad.mit.edu	37	chr11	66611449	66611449	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcacatccctgctcacccTgatgggcttcaggctggagg	7	8	13	13	0	2	1	2	1	0	0	3	2	3	2	2	5	1	4	2	5	0	1			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr11:66611449T>C	uc001ojk.1	+	3	355	c.311T>C	c.(310-312)CTG>CCG	p.L104P	RCE1_uc001ojl.1_5'UTR	NM_005133	NP_005124	Q9Y256	FACE2_HUMAN	prenyl protein peptidase RCE1 isoform 1	104					proteolysis	endoplasmic reticulum membrane|integral to plasma membrane	metalloendopeptidase activity			ovary(1)|breast(1)	2						CTGCTCACCCTGATGGGCTTC	0.577													3	86					0	0	0.009096	0	0		C	66611449	C	C	66611449	3	2	138	1	0	0	0	0	1	0	0	0	13201	1580	55	3	321	3	RCE1	11	66611449	Missense_Mutation	SNP	T	TCGA-CG-4455-01A-01D-1158-08	61238235	66611449	68395067	34	74879											
PPFIA1	8500	broad.mit.edu	37	chr11	70172808	70172808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagagccaaatgaaagaaCgcctggcttccctttccagt	13	8	8	12	1	0	3	0	1	0	2	2	3	2	3	4	1	3	1	4	1	4	2			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr11:70172808C>T	uc001opo.2	+	7	1012	c.814C>T	c.(814-816)CGC>TGC	p.R272C	PPFIA1_uc001opn.1_Missense_Mutation_p.R272C|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	272	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			AATGAAAGAACGCCTGGCTTC	0.423													15	915					0	0	0.006214	0	0		T	70172808	T	T	70172808	3	4	138	1	0	0	0	0	1	0	0	0	12328	536	19	1	836	1	PPFIA1	11	70172808	Missense_Mutation	SNP	C	TCGA-CG-4455-01A-01D-1158-08	3561359	70172808	64833708	35	74880											
NPAT	4863	broad.mit.edu	37	chr11	108043212	108043212	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaacattagctgaaaaagcAatgccatcttcattctgagt	14	12	7	8	0	3	2	1	2	2	0	3	2	3	2	1	0	4	3	1	0	5	4			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr11:108043212A>C	uc001pjz.3	-	13	2601	c.2499T>G	c.(2497-2499)ATT>ATG	p.I833M	NPAT_uc010rvv.1_5'Flank|NPAT_uc001pka.2_Missense_Mutation_p.I628M	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	833	Required for acceleration of G1 phase.				positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		CTGAAAAAGCAATGCCATCTT	0.393													3	97					0	0	0.000602	0	0		C	108043212	C	C	108043212	3	2	138	1	0	0	0	0	1	0	0	0	10585	126	5	5	1808	5	NPAT	11	108043212	Missense_Mutation	SNP	A	TCGA-CG-4455-01A-01D-1158-08	37870404	108043212	26963304	36	74881											
PLBD1	79887	broad.mit.edu	37	chr12	14659923	14659923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcactttcccttggtcaCgccggaaaattttggctcgt	7	13	9	12	3	2	0	2	0	0	0	4	1	3	1	2	3	0	1	2	3	2	4			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr12:14659923C>T	uc001rcc.1	-	9	1477	c.1316G>A	c.(1315-1317)CGT>CAT	p.R439H		NM_024829	NP_079105	Q6P4A8	PLBL1_HUMAN	phospholipase B domain containing 1	439					lipid catabolic process	extracellular region	hydrolase activity				0						CCCTTGGTCACGCCGGAAAAT	0.408													14	124					0	0	0.007413	0	0		T	14659923	T	T	14659923	3	4	138	1	0	0	0	0	1	0	0	0	12044	536	19	1	357	1	PLBD1	12	14659923	Missense_Mutation	SNP	C	TCGA-CG-4455-01A-01D-1158-08		14659923	119191972	37	74882											
DDX11	1663	broad.mit.edu	37	chr12	31255198	31255198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattccaggaacctaagagcGcacaccaggtggagcaggtg	12	6	13	10	1	0	1	0	0	0	1	1	3	1	3	3	4	3	2	3	4	3	3			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr12:31255198G>A	uc001rjt.1	+	22	2475	c.2224G>A	c.(2224-2226)GCA>ACA	p.A742T	DDX11_uc001rjr.1_Missense_Mutation_p.A742T|DDX11_uc001rjs.1_Missense_Mutation_p.A692T|DDX11_uc001rju.1_Missense_Mutation_p.A414T|DDX11_uc001rjv.1_Missense_Mutation_p.A742T|DDX11_uc001rjw.1_Missense_Mutation_p.A716T|DDX11_uc009zjn.1_RNA|DDX11_uc009zjo.1_5'Flank	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	742					G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					ACCTAAGAGCGCACACCAGGT	0.577										Multiple Myeloma(12;0.14)			4	141					0	0	0.000602	0	0		A	31255198	A	A	31255198	3	1	138	1	0	0	0	0	1	0	0	0	4346	1087	38	1	2306	1	DDX11	12	31255198	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08	16595275	31255198	102596697	38	74883											
SLC11A2	4891	broad.mit.edu	37	chr12	51390641	51390641	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacatgttgtgtggcatgaTgacagctcccacgatgccca	9	10	11	11	1	0	2	0	2	0	0	1	3	1	2	2	1	3	4	2	1	1	2			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr12:51390641T>C	uc001rxe.3	-	9	887	c.790A>G	c.(790-792)ATC>GTC	p.I264V	SLC11A2_uc001rxd.3_Missense_Mutation_p.I113V|SLC11A2_uc001rxc.3_Missense_Mutation_p.I264V|SLC11A2_uc001rxf.2_RNA|SLC11A2_uc001rxg.1_5'Flank|SLC11A2_uc010smx.1_Missense_Mutation_p.I260V|SLC11A2_uc001rxh.1_Missense_Mutation_p.I264V|SLC11A2_uc001rxj.1_Missense_Mutation_p.I264V|SLC11A2_uc001rxi.2_Missense_Mutation_p.I264V|SLC11A2_uc001rxk.1_Missense_Mutation_p.I293V|SLC11A2_uc010smy.1_Missense_Mutation_p.I227V	NM_000617	NP_000608	P49281	NRAM2_HUMAN	solute carrier family 11 (proton-coupled	264	Helical; (Potential).				activation of caspase activity|cellular iron ion homeostasis|cellular response to oxidative stress|detection of oxygen|ferrous iron import|multicellular organismal iron ion homeostasis|response to hypoxia|response to iron ion	apical plasma membrane|basal part of cell|cell surface|cytoplasmic vesicle|early endosome|late endosome|late endosome membrane|lysosomal membrane|lysosome|nucleus|paraferritin complex|perinuclear region of cytoplasm|perinuclear region of cytoplasm|plasma membrane|recycling endosome|trans-Golgi network	cadmium ion transmembrane transporter activity|cadmium ion transmembrane transporter activity|cobalt ion transmembrane transporter activity|copper ion transmembrane transporter activity|ferrous iron transmembrane transporter activity|ferrous iron transmembrane transporter activity|lead ion transmembrane transporter activity|lead ion transmembrane transporter activity|manganese ion transmembrane transporter activity|manganese ion transmembrane transporter activity|nickel ion transmembrane transporter activity|protein binding|solute:hydrogen symporter activity|vanadium ion transmembrane transporter activity|zinc ion transmembrane transporter activity			large_intestine(1)	1						TGTGGCATGATGACAGCTCCC	0.522													23	76					0	0	0.00333	0	0		C	51390641	C	C	51390641	3	2	138	1	0	0	0	0	1	0	0	0	14406	1464	51	3	1009	3	SLC11A2	12	51390641	Missense_Mutation	SNP	T	TCGA-CG-4455-01A-01D-1158-08	20135443	51390641	82461254	39	74884											
CCNA1	8900	broad.mit.edu	37	chr13	37016312	37016312	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgtcttgattagccagAaacccttgctgcatttacag	9	15	7	10	0	1	2	0	1	1	1	1	2	1	2	2	0	5	2	2	0	3	7			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr13:37016312A>C	uc001uvr.3	+	8	1567	c.1217A>C	c.(1216-1218)GAA>GCA	p.E406A	CCNA1_uc010teo.1_Missense_Mutation_p.E362A|CCNA1_uc010abq.2_Missense_Mutation_p.E362A|CCNA1_uc010abp.2_Missense_Mutation_p.E362A|CCNA1_uc001uvs.3_Missense_Mutation_p.E405A|CCNA1_uc010abr.2_RNA	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	406					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		GATTAGCCAGAAACCCTTGCT	0.363													33	138					0	0	0.004289	0	0		C	37016312	C	C	37016312	3	2	138	1	0	0	0	0	1	0	0	0	2912	246	9	5	1247	5	CCNA1	13	37016312	Missense_Mutation	SNP	A	TCGA-CG-4455-01A-01D-1158-08		37016312	78153566	40	74885											
TRIM13	10206	broad.mit.edu	37	chr13	50586534	50586534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagctttgagacctggcGtcggggagatgctctttctc	6	11	13	11	2	2	3	0	1	2	3	4	5	2	3	2	3	2	2	2	3	0	2			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr13:50586534G>A	uc001vdq.1	+	3	771	c.458G>A	c.(457-459)CGT>CAT	p.R153H	DLEU2_uc001vdn.1_Intron|DLEU2_uc001vdo.1_Intron|KCNRG_uc001vdt.2_5'Flank|KCNRG_uc001vdu.2_5'Flank|TRIM13_uc001vdp.1_Missense_Mutation_p.R156H|TRIM13_uc001vdr.1_Missense_Mutation_p.R153H|TRIM13_uc001vds.1_Missense_Mutation_p.R153H	NM_052811	NP_434698	O60858	TRI13_HUMAN	ret finger protein 2 isoform 1	153					anatomical structure morphogenesis|ER-associated protein catabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination	cytoplasm|endoplasmic reticulum membrane|integral to membrane	protein binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(7;3.41e-06)|Lung NSC(96;3.08e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.53e-10)|COAD - Colon adenocarcinoma(199;0.205)		GAGACCTGGCGTCGGGGAGAT	0.453													12	81					0	0	0.013537	0	0		A	50586534	A	A	50586534	3	1	138	1	0	0	0	0	1	0	0	0	16514	1145	40	1	473	1	TRIM13	13	50586534	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08	13570222	50586534	64583344	41	74886											
EDNRB	1910	broad.mit.edu	37	chr13	78492255	78492255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgatagggatgtcaatgaCgatgtgcagcaggtctccca	11	10	12	8	1	2	2	1	2	1	0	3	4	2	3	1	2	2	2	1	2	2	2			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr13:78492255C>T	uc001vko.2	-	1	712	c.454G>A	c.(454-456)GTC>ATC	p.V152I	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.V152I|EDNRB_uc010aez.1_Missense_Mutation_p.V152I|EDNRB_uc001vkp.1_Missense_Mutation_p.V235I|EDNRB_uc010afa.1_Missense_Mutation_p.V152I	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	152	Helical; Name=2; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	ATGTCAATGACGATGTGCAGC	0.507													8	186					0	0	0.006214	0	0		T	78492255	T	T	78492255	3	4	138	1	0	0	0	0	1	0	0	0	4926	536	19	1	1023	1	EDNRB	13	78492255	Missense_Mutation	SNP	C	TCGA-CG-4455-01A-01D-1158-08	27905721	78492255	36677623	42	74887											
KIAA1409	57578	broad.mit.edu	37	chr14	94173133	94173133	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaaggacgctgccgggctcGggccagagcagtgctggcct	6	6	16	13	3	0	1	0	0	0	1	1	2	0	2	3	4	3	4	3	4	1	1			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr14:94173133G>A	uc001ybv.1	+	48	7409	c.7326G>A	c.(7324-7326)TCG>TCA	p.S2442S	KIAA1409_uc001ybs.1_Silent_p.S2420S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2597						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TGCCGGGCTCGGGCCAGAGCA	0.597													36	78					0	0	0.00874	0	0		A	94173133	A	A	94173133	2	1	138	1	0	0	0	0	0	0	0	1	8246	1103	39	1		1	KIAA1409	14	94173133	Silent	SNP	G	TCGA-CG-4455-01A-01D-1158-08		94173133	13176407	43	74888											
ASB2	51676	broad.mit.edu	37	chr14	94405616	94405616	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagcgacaggcacttcatGgcgaacatgatggtggcggg	10	6	16	9	3	1	1	1	1	0	0	1	3	1	1	0	5	3	2	0	5	1	1	rs140791740		TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr14:94405616G>A	uc001ycc.1	-	6	1800	c.1311C>T	c.(1309-1311)GCC>GCT	p.A437A	ASB2_uc001ycb.1_Silent_p.A131A|ASB2_uc001ycd.2_Silent_p.A485A|ASB2_uc001yce.1_Silent_p.A383A	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	437	ANK 12.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		GGCACTTCATGGCGAACATGA	0.667													13	72					0	0	0.003163	0	0		A	94405616	A	A	94405616	2	1	138	1	0	0	0	0	0	0	0	1	1024	1335	47	4		4	ASB2	14	94405616	Silent	SNP	G	TCGA-CG-4455-01A-01D-1158-08	232483	94405616	12943924	44	74889											
AQR	9716	broad.mit.edu	37	chr15	35196621	35196621	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccattttgtatagtattGgtcatatcttgttgatactg	8	19	8	6	0	2	1	1	1	1	0	3	1	3	1	1	1	1	4	1	1	5	10			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr15:35196621G>A	uc001ziv.2	-	19	2098	c.1917C>T	c.(1915-1917)ACC>ACT	p.T639T		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	639						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		GTATAGTATTGGTCATATCTT	0.353													16	84					0	0	0.006122	0	0		A	35196621	A	A	35196621	2	1	138	1	0	0	0	0	0	0	0	1	835	1335	47	4		4	AQR	15	35196621	Silent	SNP	G	TCGA-CG-4455-01A-01D-1158-08		35196621	67334771	45	74890											
UNC45B	146862	broad.mit.edu	37	chr17	33495164	33495164	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagggcccctttgacctGggcaaccagctgctgggact	6	8	13	14	0	0	1	0	1	0	0	0	2	0	2	4	3	4	4	4	3	1	1			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr17:33495164G>A	uc002hja.2	+	10	1333	c.1236G>A	c.(1234-1236)CTG>CTA	p.L412L	UNC45B_uc002hjb.2_Silent_p.L412L|UNC45B_uc002hjc.2_Silent_p.L412L|UNC45B_uc010cto.2_Silent_p.L412L	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	412					cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				CCTTTGACCTGGGCAACCAGC	0.572													7	49					0	0	0.006214	0	0		A	33495164	A	A	33495164	2	1	138	1	0	0	0	0	0	0	0	1	17015	1335	47	4		4	UNC45B	17	33495164	Silent	SNP	G	TCGA-CG-4455-01A-01D-1158-08		33495164	47700046	46	74891											
DNAI2	64446	broad.mit.edu	37	chr17	72295860	72295860	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctccttcctcaccagcctGctgggacacccgaaagggca	9	7	9	16	1	2	0	1	0	1	0	4	2	3	1	5	2	2	2	5	2	1	1			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr17:72295860G>T	uc002jkf.2	+	7	827	c.728G>T	c.(727-729)TGC>TTC	p.C243F	DNAI2_uc002jkg.2_RNA|DNAI2_uc010dfp.2_RNA	NM_023036	NP_075462	Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate polypeptide 2	243	WD 2.				cilium assembly	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	microtubule motor activity			ovary(2)|central_nervous_system(1)	3						TCACCAGCCTGCTGGGACACC	0.612									Kartagener_syndrome				11	74					1.5842e-08	2.15168e-08	0.001855	1	0		T	72295860	T	T	72295860	3	4	138	1	0	0	0	0	1	0	0	0	4616	1319	46	5	750	5	DNAI2	17	72295860	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08	38800696	72295860	8899350	47	74892											
DUS1L	64118	broad.mit.edu	37	chr17	80019108	80019108	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtgccacagcttgaagagGtgggcccggacgtaggacag	9	6	17	9	2	0	2	0	1	0	1	0	4	0	4	2	5	2	2	2	5	2	2			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr17:80019108G>A	uc002kdq.2	-	7	1238	c.819C>T	c.(817-819)CAC>CAT	p.H273H	DUS1L_uc002kdp.2_Silent_p.H142H|DUS1L_uc002kdr.2_Silent_p.H273H|DUS1L_uc002kds.2_RNA|DUS1L_uc002kdt.2_RNA|DUS1L_uc010wvi.1_Silent_p.H256H	NM_022156	NP_071439	Q6P1R4	DUS1L_HUMAN	PP3111 protein	273					tRNA processing		flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity			skin(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			GCTTGAAGAGGTGGGCCCGGA	0.667													18	51					0	0	0.014323	0	0		A	80019108	A	A	80019108	2	1	138	1	0	0	0	0	0	0	0	1	4811	1252	44	4		4	DUS1L	17	80019108	Silent	SNP	G	TCGA-CG-4455-01A-01D-1158-08	7723248	80019108	1176102	48	74893											
SYT4	6860	broad.mit.edu	37	chr18	40850588	40850588	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagattctctttttggcatgGtacaggttcactttgacata	9	16	9	7	0	2	2	1	1	1	1	3	3	2	2	0	3	1	3	0	3	2	7			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr18:40850588G>A	uc002law.2	-	4	1365	c.996C>T	c.(994-996)TAC>TAT	p.Y332Y	SYT4_uc010dng.2_RNA|SYT4_uc010xcm.1_Silent_p.Y314Y|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	332	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						TTTTGGCATGGTACAGGTTCA	0.433													8	125					0	0	0.006214	0	0		A	40850588	A	A	40850588	2	1	138	1	0	0	0	0	0	0	0	1	15501	1256	44	4		4	SYT4	18	40850588	Silent	SNP	G	TCGA-CG-4455-01A-01D-1158-08		40850588	37226660	49	74894											
ACTL9	284382	broad.mit.edu	37	chr19	8808873	8808873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagcaaaacctaccttacagGtgcctgtgcccatgtcaata	12	9	7	13	0	1	0	1	0	0	0	1	0	1	0	4	1	6	1	4	1	6	3			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr19:8808873G>A	uc002mkl.2	-	1	300	c.179C>T	c.(178-180)ACC>ATC	p.T60I		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	60						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						TACCTTACAGGTGCCTGTGCC	0.652													18	92					0	0	0.014323	0	0		A	8808873	A	A	8808873	3	1	138	1	0	0	0	0	1	0	0	0	203	1261	44	4	1075	4	ACTL9	19	8808873	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08		8808873	50320110	50	74895											
C19orf39	126074	broad.mit.edu	37	chr19	11485514	11485514	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctagaggcggcgggggAgggccaaggcccagtcctct	6	4	18	13	2	1	1	0	0	1	1	2	2	2	2	4	7	0	0	4	7	2	1			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr19:11485514A>G	uc002mrg.1	+	1	132	c.95A>G	c.(94-96)GAG>GGG	p.E32G		NM_175871	NP_787067	Q6NVH7	CS039_HUMAN	hypothetical protein LOC126074	32											0						GCGGCGGGGGAGGGCCAAGGC	0.627													6	63					0	0	0.00623	0	0		G	11485514	G	G	11485514	3	3	138	1	0	0	0	0	1	0	0	0	1925	304	11	3	97	3	C19orf39	19	11485514	Missense_Mutation	SNP	A	TCGA-CG-4455-01A-01D-1158-08	2676641	11485514	47643469	51	74896											
FCHO1	23149	broad.mit.edu	37	chr19	17883497	17883497	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgagaacgtcagcgtggAgatgctactcaggaagtttg	11	9	13	8	3	2	2	2	0	0	2	3	5	2	3	0	2	4	2	0	2	3	2			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr19:17883497A>G	uc010ebb.2	+	10	926	c.737A>G	c.(736-738)GAG>GGG	p.E246G	FCHO1_uc002nhg.3_Missense_Mutation_p.E246G|FCHO1_uc002nhh.2_Missense_Mutation_p.E246G|FCHO1_uc010xpw.1_Missense_Mutation_p.E196G|FCHO1_uc010ebc.1_Missense_Mutation_p.E253G	NM_001161358	NP_001154830	O14526	FCHO1_HUMAN	FCH domain only 1 isoform b	246										breast(1)	1						GTCAGCGTGGAGATGCTACTC	0.607													12	102					0	0	0.013537	0	0		G	17883497	G	G	17883497	3	3	138	1	0	0	0	0	1	0	0	0	5801	304	11	3	767	3	FCHO1	19	17883497	Missense_Mutation	SNP	A	TCGA-CG-4455-01A-01D-1158-08	6397983	17883497	41245486	52	74897											
POFUT1	23509	broad.mit.edu	37	chr20	30818669	30818669	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactgcaggctcgcacttCatggcctctccgcagtgtgt	5	10	13	13	2	2	0	1	0	1	0	4	1	2	1	2	3	1	4	2	3	0	1			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr20:30818669C>A	uc002wxp.2	+	6	832	c.783C>A	c.(781-783)TTC>TTA	p.F261L	POFUT1_uc010ztt.1_Missense_Mutation_p.F153L|POFUT1_uc010ztu.1_Missense_Mutation_p.F50L	NM_015352	NP_056167	Q9H488	OFUT1_HUMAN	protein O-fucosyltransferase 1 isoform 1	261					fucose metabolic process|Notch signaling pathway|O-glycan processing|regulation of transcription, DNA-dependent	endoplasmic reticulum|membrane	peptide-O-fucosyltransferase activity			breast(1)	1			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			GCTCGCACTTCATGGCCTCTC	0.612													27	99					4.62619e-21	6.68227e-21	0.004289	1	0		A	30818669	A	A	30818669	3	1	138	1	0	0	0	0	1	0	0	0	12202	825	29	5	852	5	POFUT1	20	30818669	Missense_Mutation	SNP	C	TCGA-CG-4455-01A-01D-1158-08		30818669	32206851	53	74898											
C20orf195	79025	broad.mit.edu	37	chr20	62187890	62187890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggccgagacctccacgctgGtgtacgagccctggagggac	7	5	16	13	3	0	1	0	0	0	1	1	5	1	3	4	4	2	2	4	4	1	1			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chr20:62187890G>A	uc002yfj.2	+	2	966	c.874G>A	c.(874-876)GTG>ATG	p.V292M	C20orf195_uc002yfk.2_Missense_Mutation_p.V292M	NM_024059	NP_076964	Q9BVV2	CT195_HUMAN	hypothetical protein LOC79025	292											0	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;9.69e-09)|all cancers(9;5.84e-08)|BRCA - Breast invasive adenocarcinoma(10;3.63e-06)			CTCCACGCTGGTGTACGAGCC	0.612													41	235					0	0	0.00874	0	0		A	62187890	A	A	62187890	3	1	138	1	0	0	0	0	1	0	0	0	2103	1261	44	4	876	4	C20orf195	20	62187890	Missense_Mutation	SNP	G	TCGA-CG-4455-01A-01D-1158-08	31369221	62187890	837630	54	74899											
BCOR	54880	broad.mit.edu	37	chrX	39932669	39932669	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggggacctgaatgcctCatttggagacagaaatatag	12	10	13	6	0	1	3	1	1	0	2	1	5	1	4	2	4	1	0	2	4	4	3			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chrX:39932669C>A	uc004den.3	-	4	2222	c.1930G>T	c.(1930-1932)GAG>TAG	p.E644*	BCOR_uc004dep.3_Nonsense_Mutation_p.E644*|BCOR_uc004deo.3_Nonsense_Mutation_p.E644*|BCOR_uc004dem.3_Nonsense_Mutation_p.E644*|BCOR_uc004deq.3_Nonsense_Mutation_p.E644*	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	644	Pro-rich.				heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						CTGAATGCCTCATTTGGAGAC	0.547													25	31					4.87955e-14	6.93812e-14	0.005443	1	0		A	39932669	A	A	39932669	4	1	138	1	0	0	0	0	0	1	0	0	1387	835	29	5	3385	5	BCOR	23	39932669	Nonsense_Mutation	SNP	C	TCGA-CG-4455-01A-01D-1158-08		39932669	115337891	55	74900											
PAK3	5063	broad.mit.edu	37	chrX	110391110	110391110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagaaatacatgagctttaCatcaggaggtaagaggaagt	16	8	11	6	0	1	3	1	1	0	2	1	5	1	5	1	3	3	2	1	3	5	4			TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chrX:110391110C>T	uc004epa.2	+	4	494	c.467C>T	c.(466-468)ACA>ATA	p.T156I	PAK3_uc010npt.1_Missense_Mutation_p.T141I|PAK3_uc010npu.1_Missense_Mutation_p.T141I|PAK3_uc004eoy.1_5'UTR|PAK3_uc004eoz.2_Missense_Mutation_p.T141I|PAK3_uc011mst.1_RNA|PAK3_uc010npv.1_Missense_Mutation_p.T177I|PAK3_uc010npw.1_Missense_Mutation_p.T162I	NM_001128173	NP_001121645	O75914	PAK3_HUMAN	p21-activated kinase 3 isoform d	156	Linker.				multicellular organismal development		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding			lung(6)|ovary(3)|large_intestine(1)	10						ATGAGCTTTACATCAGGAGGT	0.358										TSP Lung(19;0.15)			13	58					0	0	0.001855	0	0		T	110391110	T	T	110391110	3	4	138	1	0	0	0	0	1	0	0	0	11421	478	17	4	548	4	PAK3	23	110391110	Missense_Mutation	SNP	C	TCGA-CG-4455-01A-01D-1158-08	70458441	110391110	44879450	56	74901											
GPR112	139378	broad.mit.edu	37	chrX	135496392	135496392	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaatctttgagcacaaactGttgacgccatctctcaagtc	13	11	6	11	1	3	2	1	2	2	0	5	2	3	2	1	0	2	2	1	0	4	2	rs150960878	byFrequency	TCGA-CG-4455-01A-01D-1158-08	TCGA-CG-4455-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e2386c96-488e-4ddd-9d4c-fdea808aee19	9fc0cbc4-e8d8-4e74-ad52-327e4e1afe98	g.chrX:135496392G>T	uc004ezu.1	+	25	9402	c.9111G>T	c.(9109-9111)CTG>CTT	p.L3037L	GPR112_uc010nsb.1_Silent_p.L2832L	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	3037	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					AGCACAAACTGTTGACGCCAT	0.408													97	95					4.81362e-53	7.06515e-53	0.01441	1	0		T	135496392	T	T	135496392	2	4	138	1	0	0	0	0	0	0	0	1	6644	1364	48	5		5	GPR112	23	135496392	Silent	SNP	G	TCGA-CG-4455-01A-01D-1158-08	25105282	135496392	19774168	57	74902											
PLEKHG5	57449	broad.mit.edu	37	chr1	6530360	6530360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgccgcgtctcctccGgggaggcgccagggatgggc	4	5	18	14	4	1	0	0	0	1	0	3	2	2	2	4	5	2	2	4	5	0	0			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr1:6530360G>A	uc001ano.1	-	17	2005	c.1904C>T	c.(1903-1905)CCG>CTG	p.P635L	PLEKHG5_uc001ann.1_Missense_Mutation_p.P616L|PLEKHG5_uc001anq.1_Missense_Mutation_p.P656L|PLEKHG5_uc001anp.1_Missense_Mutation_p.P656L|PLEKHG5_uc001anj.1_Missense_Mutation_p.P140L|PLEKHG5_uc009vma.1_Missense_Mutation_p.P419L|PLEKHG5_uc010nzr.1_Missense_Mutation_p.P648L|PLEKHG5_uc001ank.1_Missense_Mutation_p.P579L|PLEKHG5_uc009vmb.1_Missense_Mutation_p.P579L|PLEKHG5_uc001anl.1_Missense_Mutation_p.P579L|PLEKHG5_uc001anm.1_Missense_Mutation_p.P579L|PLEKHG5_uc001anr.1_5'Flank	NM_001042663	NP_001036128	O94827	PKHG5_HUMAN	pleckstrin homology domain containing family G	635					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			liver(1)	1	Ovarian(185;0.02)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;5.51e-35)|GBM - Glioblastoma multiforme(13;3.57e-27)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00159)|READ - Rectum adenocarcinoma(331;0.0419)		CGTCTCCTCCGGGGAGGCGCC	0.657													9	56					0	0	0.006122	0	0		A	6530360	A	A	6530360	3	1	139	1	0	0	0	0	1	0	0	0	12092	1116	39	1	1308	1	PLEKHG5	1	6530360	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08		6530360	242720261	1	74903											
LDLRAD2	401944	broad.mit.edu	37	chr1	22141037	22141037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccccggcgaccggatcCgcttccagttccgcttcttc	4	9	9	19	5	1	0	0	0	1	0	5	2	4	1	6	2	1	3	6	2	0	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr1:22141037C>T	uc001bfg.1	+	2	419	c.232C>T	c.(232-234)CGC>TGC	p.R78C		NM_001013693	NP_001013715	Q5SZI1	LRAD2_HUMAN	low density lipoprotein receptor class A domain	78	Extracellular (Potential).					integral to membrane	receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.00166)|all_lung(284;0.00172)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;5.2e-26)|COAD - Colon adenocarcinoma(152;1.13e-05)|GBM - Glioblastoma multiforme(114;1.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00598)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)		CGACCGGATCCGCTTCCAGTT	0.741													5	70					0	0	0.000602	0	0		T	22141037	T	T	22141037	3	4	139	1	0	0	0	0	1	0	0	0	8722	652	23	1	238	1	LDLRAD2	1	22141037	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	15610677	22141037	227109584	2	74904											
TRIM62	55223	broad.mit.edu	37	chr1	33612785	33612785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttctgcctggactagatgCggacggtgttgatccgcagc	6	10	13	12	3	1	2	0	1	1	1	2	4	2	4	3	3	3	2	3	3	1	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr1:33612785C>T	uc001bxb.2	-	5	2059	c.1421G>A	c.(1420-1422)CGC>CAC	p.R474H		NM_018207	NP_060677	Q9BVG3	TRI62_HUMAN	tripartite motif-containing 62	474	B30.2/SPRY.			R -> L (in Ref. 1; BAA91792).		intracellular	zinc ion binding				0		Myeloproliferative disorder(586;0.0393)				GGACTAGATGCGGACGGTGTT	0.463													11	106					0	0	0.00245	0	0		T	33612785	T	T	33612785	3	4	139	1	0	0	0	0	1	0	0	0	16563	768	27	1	10	1	TRIM62	1	33612785	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	11471748	33612785	215637836	3	74905											
CSMD2	114784	broad.mit.edu	37	chr1	34312507	34312507	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtattgggcactgaatccGcgctgccggtggttgccatc	5	11	14	11	3	0	1	0	1	0	0	2	1	1	1	3	4	2	4	3	4	2	3	rs143306375		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr1:34312507G>A	uc001bxn.1	-	6	920	c.891C>T	c.(889-891)CGC>CGT	p.R297R	CSMD2_uc001bxm.1_Silent_p.R337R	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	297	CUB 2.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CACTGAATCCGCGCTGCCGGT	0.607													8	76					0	0	0.00308	0	0		A	34312507	A	A	34312507	2	1	139	1	0	0	0	0	0	0	0	1	3948	1074	38	1		1	CSMD2	1	34312507	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08	699722	34312507	214938114	4	74906											
KIF2C	11004	broad.mit.edu	37	chr1	45226090	45226090	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgagcgaggcgcggacacTtccagtgctgaccggcagac	10	5	14	12	4	0	3	0	2	0	1	1	5	1	4	2	3	2	2	2	3	1	1			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr1:45226090T>C	uc001cmg.3	+	15	1621	c.1506T>C	c.(1504-1506)ACT>ACC	p.T502T	KIF2C_uc010olb.1_Silent_p.T461T|KIF2C_uc010olc.1_Silent_p.T389T|KIF2C_uc001cmh.3_Silent_p.T448T	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	502	Kinesin-motor.				blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GCGCGGACACTTCCAGTGCTG	0.562													4	79					0	0	0.000602	0	0		C	45226090	C	C	45226090	2	2	139	1	0	0	0	0	0	0	0	1	8315	1596	56	3		3	KIF2C	1	45226090	Silent	SNP	T	TCGA-CG-4462-01A-01D-1158-08	10913583	45226090	204024531	5	74907											
LHX8	431707	broad.mit.edu	37	chr1	75614308	75614308	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgctcaggacaacaacccaGatgcacagacactccagaaa	16	5	7	13	0	1	3	1	0	0	3	2	4	2	4	2	1	4	2	2	1	3	1			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr1:75614308G>C	uc001dgo.2	+	8	1415	c.751G>C	c.(751-753)GAT>CAT	p.D251H	LHX8_uc001dgq.2_Missense_Mutation_p.D190H	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	251	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CAACAACCCAGATGCACAGAC	0.358													5	153					0	0	0.001168	0	0		C	75614308	C	C	75614308	3	2	139	1	0	0	0	0	1	0	0	0	8792	942	33	5	777	5	LHX8	1	75614308	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	30388218	75614308	173636313	6	74908											
ATXN7L2	127002	broad.mit.edu	37	chr1	110028719	110028719	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaaaaacacgaagaagttGgatgccatgaccctcattaa	17	7	8	9	1	1	2	1	1	0	1	1	4	1	3	2	1	3	2	2	1	5	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr1:110028719G>A	uc001dxr.2	+	2	183	c.168G>A	c.(166-168)TTG>TTA	p.L56L	ATXN7L2_uc001dxs.2_5'Flank	NM_153340	NP_699171	Q5T6C5	AT7L2_HUMAN	ataxin 7-like 2	56										ovary(2)	2		all_epithelial(167;0.00197)|all_lung(203;0.00291)|Lung NSC(277;0.00453)		Colorectal(144;0.0129)|Lung(183;0.0426)|Epithelial(280;0.0675)|READ - Rectum adenocarcinoma(129;0.0693)|all cancers(265;0.071)|LUSC - Lung squamous cell carcinoma(189;0.228)		CGAAGAAGTTGGATGCCATGA	0.537													13	98					0	0	0.003163	0	0		A	110028719	A	A	110028719	2	1	139	1	0	0	0	0	0	0	0	1	1218	1339	47	4		4	ATXN7L2	1	110028719	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08	34414411	110028719	139221902	7	74909											
SPTA1	6708	broad.mit.edu	37	chr1	158589036	158589036	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccaggatccattgaaggAaggtactggcattctgttca	10	13	10	8	0	2	1	1	1	1	0	4	3	4	3	2	4	1	3	2	4	3	5			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr1:158589036A>G	uc001fst.1	-	45	6705	c.6506T>C	c.(6505-6507)TTC>TCC	p.F2169S		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2169	Spectrin 21.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CCATTGAAGGAAGGTACTGGC	0.478													25	243					0	0	0.005443	0	0		G	158589036	G	G	158589036	3	3	139	1	0	0	0	0	1	0	0	0	15141	246	9	3	785	3	SPTA1	1	158589036	Missense_Mutation	SNP	A	TCGA-CG-4462-01A-01D-1158-08	48560317	158589036	90661585	8	74910											
FAM5C	339479	broad.mit.edu	37	chr1	190195436	190195436	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgaagatagtctgggagaAgtacttgaagcccttgaaga	13	9	12	7	0	1	6	0	3	1	3	1	7	1	6	2	1	2	1	2	1	6	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr1:190195436A>C	uc001gse.1	-	6	969	c.737T>G	c.(736-738)CTT>CGT	p.L246R	FAM5C_uc010pot.1_Missense_Mutation_p.L144R	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	246						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					GTCTGGGAGAAGTACTTGAAG	0.318													7	83					0	0	0.001984	0	0		C	190195436	C	C	190195436	3	2	139	1	0	0	0	0	1	0	0	0	5608	72	3	5	1575	5	FAM5C	1	190195436	Missense_Mutation	SNP	A	TCGA-CG-4462-01A-01D-1158-08	31606400	190195436	59055185	9	74911											
ACTN2	88	broad.mit.edu	37	chr1	236881196	236881196	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcccacctaaggaaagcCggcacccagattgagaacat	15	5	8	13	1	0	2	0	1	0	2	1	4	1	3	4	2	3	1	4	2	4	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr1:236881196C>T	uc001hyf.2	+	2	369	c.165C>T	c.(163-165)GCC>GCT	p.A55A	ACTN2_uc001hyg.2_5'UTR|ACTN2_uc009xgi.1_Silent_p.A55A	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	55	CH 1.|Actin-binding.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			TAAGGAAAGCCGGCACCCAGA	0.478													6	54					0	0	0.001168	0	0		T	236881196	T	T	236881196	2	4	139	1	0	0	0	0	0	0	0	1	205	639	23	1		1	ACTN2	1	236881196	Silent	SNP	C	TCGA-CG-4462-01A-01D-1158-08	46685760	236881196	12369425	10	74912											
ALK	238	broad.mit.edu	37	chr2	29416141	29416141	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttttcagaatggtatcctcGtaatgaccagctccaggggc	9	11	10	11	1	1	2	1	1	0	1	4	2	3	2	3	3	1	3	3	3	3	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr2:29416141G>A	uc002rmy.2	-	29	5719	c.4812C>T	c.(4810-4812)TAC>TAT	p.Y1604Y	ALK_uc010ymo.1_Silent_p.Y536Y	NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	1604	Cytoplasmic (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	TGGTATCCTCGTAATGACCAG	0.537			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				11	64					0	0	0.001855	0	0		A	29416141	A	A	29416141	2	1	139	1	0	0	0	0	0	0	0	1	525	1140	40	1		1	ALK	2	29416141	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08		29416141	213783232	11	74913											
ATP6V1E2	90423	broad.mit.edu	37	chr2	46739557	46739557	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcctgctgagtctcagcttCgcctcactgagcaaatctga	9	11	8	13	1	3	3	2	3	2	0	6	3	4	3	2	0	3	3	2	0	1	1	rs147271327		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr2:46739557C>T	uc002ruy.2	-	2	1408	c.294G>A	c.(292-294)GCG>GCA	p.A98A	ATP6V1E2_uc002ruz.2_Silent_p.A98A	NM_080653	NP_542384	Q96A05	VATE2_HUMAN	ATPase, H+ transporting, lysosomal 31kDa, V1	98					cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting two-sector ATPase complex, catalytic domain	proton-transporting ATPase activity, rotational mechanism			ovary(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.151)			GTCTCAGCTTCGCCTCACTGA	0.547													14	159					0	0	0.00245	0	0		T	46739557	T	T	46739557	2	4	139	1	0	0	0	0	0	0	0	1	1185	871	31	1		1	ATP6V1E2	2	46739557	Silent	SNP	C	TCGA-CG-4462-01A-01D-1158-08	17323416	46739557	196459816	12	74914											
CTNNA2	1496	broad.mit.edu	37	chr2	80874849	80874849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtcaactcacctgttgtgtCttggaagatgaaggctccag	9	12	11	9	0	3	2	2	1	1	1	4	3	4	3	2	2	1	2	2	2	3	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr2:80874849C>T	uc010ysh.1	+	18	2719	c.2714C>T	c.(2713-2715)TCT>TTT	p.S905F	CTNNA2_uc010yse.1_Missense_Mutation_p.S857F|CTNNA2_uc010ysf.1_Missense_Mutation_p.S857F|CTNNA2_uc010ysg.1_Missense_Mutation_p.S812F|CTNNA2_uc010ysi.1_Missense_Mutation_p.S489F|CTNNA2_uc010ysj.1_Missense_Mutation_p.S186F	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	905					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						CCTGTTGTGTCTTGGAAGATG	0.478													19	332					0	0	0.007413	0	0		T	80874849	T	T	80874849	3	4	139	1	0	0	0	0	1	0	0	0	4016	913	32	4	2428	4	CTNNA2	2	80874849	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	34135292	80874849	162324524	13	74915											
RETSAT	54884	broad.mit.edu	37	chr2	85581480	85581480	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttgagaaccttcttccTggcctccttgtcagttacca	6	16	7	12	0	2	1	1	1	1	1	4	2	4	1	5	1	2	2	5	1	2	6			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr2:85581480T>A	uc002spd.2	-	1	342	c.151A>T	c.(151-153)AGG>TGG	p.R51W	ELMOD3_uc010fgg.2_5'Flank|ELMOD3_uc002spf.3_5'Flank|ELMOD3_uc002spg.3_5'Flank|ELMOD3_uc002sph.3_5'Flank|ELMOD3_uc010ysn.1_5'Flank|ELMOD3_uc010yso.1_5'Flank|ELMOD3_uc010ysp.1_5'Flank|RETSAT_uc010ysm.1_Missense_Mutation_p.R51W|RETSAT_uc010fgf.2_Missense_Mutation_p.R51W	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	51					retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(2)	2					Vitamin A(DB00162)	ACCTTCTTCCTGGCCTCCTTG	0.557													43	408					0	0	0.009718	0	0		A	85581480	A	A	85581480	3	1	139	1	0	0	0	0	1	0	0	0	13263	1579	55	5	1725	5	RETSAT	2	85581480	Missense_Mutation	SNP	T	TCGA-CG-4462-01A-01D-1158-08	4706631	85581480	157617893	14	74916											
LIMS2	55679	broad.mit.edu	37	chr2	128399649	128399649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgccactgcttgcccagcGcgttgaccactcggccctcg	4	8	11	18	5	0	1	0	1	0	0	2	1	0	1	4	1	4	2	4	1	0	2	rs138275119	byFrequency	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr2:128399649G>A	uc002tpa.2	-	6	801	c.635C>T	c.(634-636)GCG>GTG	p.A212V	LIMS2_uc002tou.2_Missense_Mutation_p.A20V|LIMS2_uc002tov.2_Missense_Mutation_p.A60V|LIMS2_uc002tow.2_Missense_Mutation_p.A60V|LIMS2_uc002tox.2_Missense_Mutation_p.A236V|LIMS2_uc010fmb.2_Missense_Mutation_p.A122V|LIMS2_uc002toy.2_Missense_Mutation_p.A207V|LIMS2_uc010yzm.1_Missense_Mutation_p.A234V|LIMS2_uc002toz.2_Missense_Mutation_p.A207V|LIMS2_uc002tpb.2_Missense_Mutation_p.A207V	NM_001161403	NP_001154875	Q7Z4I7	LIMS2_HUMAN	LIM and senescent cell antigen-like domains 2	212	LIM zinc-binding 4.				cell junction assembly	cytosol|focal adhesion|nucleus	zinc ion binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0681)		CTTGCCCAGCGCGTTGACCAC	0.667													4	29					0	0	0.009096	0	0		A	128399649	A	A	128399649	3	1	139	1	0	0	0	0	1	0	0	0	8820	1087	38	1	410	1	LIMS2	2	128399649	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	42818169	128399649	114799724	15	74917											
GPR17	2840	broad.mit.edu	37	chr2	128409297	128409297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttcgaagggaaaaccaacGagagctcgctgagtgccaag	13	5	13	10	3	0	2	0	1	0	1	2	5	0	3	2	1	4	3	2	1	5	1			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr2:128409297G>A	uc010yzn.1	+	4	1683	c.1072G>A	c.(1072-1074)GAG>AAG	p.E358K	LIMS2_uc002tox.2_Intron|LIMS2_uc010fmb.2_Intron|LIMS2_uc002toy.2_Intron|LIMS2_uc010yzm.1_Intron|LIMS2_uc002tpa.2_Intron|LIMS2_uc002toz.2_Intron|LIMS2_uc002tpb.2_Intron|GPR17_uc002tpc.2_Missense_Mutation_p.E358K|GPR17_uc010yzo.1_Missense_Mutation_p.E330K|GPR17_uc002tpd.2_Missense_Mutation_p.E330K	NM_001161415	NP_001154887	Q13304	GPR17_HUMAN	G protein-coupled receptor 17 isoform a	358	Cytoplasmic (Potential).					integral to plasma membrane	chemokine receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	Colorectal(110;0.1)	Ovarian(717;0.15)		BRCA - Breast invasive adenocarcinoma(221;0.0677)		GAAAACCAACGAGAGCTCGCT	0.612													14	147					0	0	0.004007	0	0		A	128409297	A	A	128409297	3	1	139	1	0	0	0	0	1	0	0	0	6682	1059	37	1	1078	1	GPR17	2	128409297	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	9648	128409297	114790076	16	74918											
LRP1B	53353	broad.mit.edu	37	chr2	140990851	140990851	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtttcgacagttttgcccAtccatatataattttgcata	11	16	6	8	1	0	0	0	0	0	0	2	2	1	0	2	0	2	3	2	0	4	9			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr2:140990851A>G	uc002tvj.1	-	91	14676	c.13704T>C	c.(13702-13704)GAT>GAC	p.D4568D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4568	Cytoplasmic (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		AGTTTTGCCCATCCATATATA	0.333										TSP Lung(27;0.18)			7	97					0	0	0.00308	0	0		G	140990851	G	G	140990851	2	3	139	1	0	0	0	0	0	0	0	1	8973	214	8	3		3	LRP1B	2	140990851	Silent	SNP	A	TCGA-CG-4462-01A-01D-1158-08	12581554	140990851	102208522	17	74919											
TMEFF2	23671	broad.mit.edu	37	chr2	193059095	193059095	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaccagagcaattccagccGgtgggcgtttggcagtcact	8	10	12	11	2	1	1	1	0	0	1	2	1	2	1	3	3	3	3	3	3	2	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr2:193059095G>A	uc002utc.2	-	1	550	c.156C>T	c.(154-156)ACC>ACT	p.T52T	TMEFF2_uc002utd.1_Silent_p.T52T	NM_016192	NP_057276	Q9UIK5	TEFF2_HUMAN	transmembrane protein with EGF-like and two	52	Extracellular (Potential).					extracellular region|integral to membrane				lung(2)|pancreas(1)|breast(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.0835)			AATTCCAGCCGGTGGGCGTTT	0.602													24	181					0	0	0.010818	0	0		A	193059095	A	A	193059095	2	1	139	1	0	0	0	0	0	0	0	1	16039	1103	39	1		1	TMEFF2	2	193059095	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08	52068244	193059095	50140278	18	74920											
CHL1	10752	broad.mit.edu	37	chr3	382574	382574	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcccaaaggcctcccaccTttacacatttattggatgaa	11	11	5	14	0	0	1	0	1	0	0	2	2	2	2	5	2	1	0	5	2	4	5			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr3:382574T>G	uc003bou.2	+	6	754	c.483T>G	c.(481-483)CCT>CCG	p.P161P	CHL1_uc003bot.2_Silent_p.P161P|CHL1_uc003bow.1_Silent_p.P161P|CHL1_uc011asi.1_Silent_p.P161P	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	161	Ig-like C2-type 2.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		GCCTCCCACCTTTACACATTT	0.398													8	95					0	0	0.008291	0	0		G	382574	G	G	382574	2	3	139	1	0	0	0	0	0	0	0	1	3352	1596	56	5		5	CHL1	3	382574	Silent	SNP	T	TCGA-CG-4462-01A-01D-1158-08		382574	197639856	19	74921											
CAND2	23066	broad.mit.edu	37	chr3	12858905	12858905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcaagcacagccagtcGcctggtctgcgatgccaggt	7	6	15	13	3	1	0	0	0	1	0	2	1	1	0	3	4	4	2	3	4	1	0			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr3:12858905G>A	uc003bxk.2	+	10	2523	c.2474G>A	c.(2473-2475)CGC>CAC	p.R825H	CAND2_uc003bxj.2_Missense_Mutation_p.R732H	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	825					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						ACAGCCAGTCGCCTGGTCTGC	0.672													13	80					0	0	0.00499	0	0		A	12858905	A	A	12858905	3	1	139	1	0	0	0	0	1	0	0	0	2619	1087	38	1	2512	1	CAND2	3	12858905	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	12476331	12858905	185163525	20	74922											
FBXO40	51725	broad.mit.edu	37	chr3	121341997	121341997	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaaagccagaattctttaaCcagcctgcccctggagattt	13	10	7	11	0	1	2	0	0	1	2	1	3	1	2	5	1	4	0	5	1	4	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr3:121341997C>A	uc003eeg.2	+	3	1931	c.1721C>A	c.(1720-1722)ACC>AAC	p.T574N		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	574	F-box.				muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		AATTCTTTAACCAGCCTGCCC	0.512													18	153					0.000295444	0.00032206	0.014323	1	0		A	121341997	A	A	121341997	3	1	139	1	0	0	0	0	1	0	0	0	5763	507	18	5	1727	5	FBXO40	3	121341997	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	108483092	121341997	76680433	21	74923											
PPARGC1A	10891	broad.mit.edu	37	chr4	23815806	23815806	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctccaaagtctctctcaGgtagcactggtctgaatctg	8	12	9	12	0	4	1	1	1	4	0	7	1	5	1	2	2	2	2	2	2	3	1			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr4:23815806G>A	uc003gqs.2	-	8	1420	c.1300C>T	c.(1300-1302)CTG>TTG	p.L434L	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	434					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				GTCTCTCTCAGGTAGCACTGG	0.493													10	117					0	0	0.006214	0	0		A	23815806	A	A	23815806	2	1	139	1	0	0	0	0	0	0	0	1	12319	991	35	4		4	PPARGC1A	4	23815806	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08		23815806	167338470	22	74924											
KLB	152831	broad.mit.edu	37	chr4	39449979	39449979	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattcaaactggctgaagaGaaatctaaacccagatttgg	15	9	9	8	0	2	3	1	1	1	2	2	4	2	3	1	2	2	2	1	2	5	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr4:39449979G>T	uc003gua.2	+	5	2905	c.2808G>T	c.(2806-2808)GAG>GAT	p.E936D	KLB_uc011byj.1_Missense_Mutation_p.E927D	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	936	Extracellular (Potential).|Glycosyl hydrolase-1 2.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						TGGCTGAAGAGAAATCTAAAC	0.338													11	61					5.50884e-06	6.17194e-06	0.013537	1	0		T	39449979	T	T	39449979	3	4	139	1	0	0	0	0	1	0	0	0	8348	933	33	5	2826	5	KLB	4	39449979	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	15634173	39449979	151704297	23	74925											
PDS5A	23244	broad.mit.edu	37	chr4	39915231	39915231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattatatgttctcttacCgtccaagaaaacattgccaa	15	12	5	9	1	1	2	0	0	1	2	3	2	2	2	3	0	3	1	3	0	8	5			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr4:39915231C>T	uc003guv.3	-	9	1532	c.992G>A	c.(991-993)CGA>CAA	p.R331Q	PDS5A_uc010ifo.2_Missense_Mutation_p.R291Q|PDS5A_uc003guw.3_Missense_Mutation_p.R331Q	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	331					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						GTTCTCTTACCGTCCAAGAAA	0.348													17	119					0	0	0.00499	0	0		T	39915231	T	T	39915231	3	4	139	1	0	0	0	0	1	0	0	0	11710	666	23	1	3154	1	PDS5A	4	39915231	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	465252	39915231	151239045	24	74926											
TACR3	6870	broad.mit.edu	37	chr4	104640440	104640440	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaggcggccatggaggcGtcggagaaagccaggttcac	10	6	16	9	3	1	2	1	1	0	1	2	4	1	3	2	6	1	1	2	6	2	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr4:104640440G>A	uc003hxe.1	-	1	536	c.393C>T	c.(391-393)GAC>GAT	p.D131D		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	131	Helical; Name=2; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		CCATGGAGGCGTCGGAGAAAG	0.522													11	96					0	0	0.008291	0	0		A	104640440	A	A	104640440	2	1	139	1	0	0	0	0	0	0	0	1	15532	1136	40	1		1	TACR3	4	104640440	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08	64725209	104640440	86513836	25	74927											
C4orf31	79625	broad.mit.edu	37	chr4	121958208	121958208	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagtagtactgcgtgtcGggtttcagatcagagacggt	10	11	13	7	3	3	2	3	0	0	2	4	3	3	2	0	2	2	3	0	2	3	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr4:121958208G>A	uc003idq.1	-	4	1445	c.918C>T	c.(916-918)CCC>CCT	p.P306P		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	306	Fibronectin type-III 1.										0						ACTGCGTGTCGGGTTTCAGAT	0.463													4	115					0	0	0.009096	0	0		A	121958208	A	A	121958208	2	1	139	1	0	0	0	0	0	0	0	1	2264	1103	39	1		1	C4orf31	4	121958208	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08	17317768	121958208	69196068	26	74928											
NIPBL	25836	broad.mit.edu	37	chr5	37052624	37052624	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaaaccgccaacacagaCgagcctttcttatttcttta	11	12	7	11	2	2	1	0	0	2	1	2	3	2	2	3	1	3	0	3	1	4	5			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr5:37052624C>T	uc003jkl.3	+	42	7718	c.7219C>T	c.(7219-7221)CGA>TGA	p.R2407*	NIPBL_uc003jkk.3_Nonsense_Mutation_p.R2407*|NIPBL_uc003jkn.2_Nonsense_Mutation_p.R100*	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	2407					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			CCAACACAGACGAGCCTTTCT	0.393													18	125					0	0	0.014323	0	0		T	37052624	T	T	37052624	4	4	139	1	0	0	0	0	0	1	0	0	10447	528	19	1	7381	1	NIPBL	5	37052624	Nonsense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08		37052624	143862636	27	74929											
VCAN	1462	broad.mit.edu	37	chr5	82834437	82834437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagctggcactttgtctcCgcatgtggaaactacattct	9	13	9	10	1	2	0	0	0	2	0	3	1	2	1	1	2	3	4	1	2	3	4	rs150017263		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr5:82834437C>T	uc003kii.3	+	8	5971	c.5615C>T	c.(5614-5616)CCG>CTG	p.P1872L	VCAN_uc003kij.3_Missense_Mutation_p.P885L|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.P536L	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1872	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ACTTTGTCTCCGCATGTGGAA	0.443													41	358					0	0	0.010771	0	0		T	82834437	T	T	82834437	3	4	139	1	0	0	0	0	1	0	0	0	17164	652	23	1	5641	1	VCAN	5	82834437	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	45781813	82834437	98080823	28	74930											
GPR98	84059	broad.mit.edu	37	chr5	89948224	89948224	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggcagctctttcagaatGattctgctttgcagcctggg	6	14	11	10	0	3	2	1	1	2	1	3	2	3	2	1	2	4	4	1	2	1	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr5:89948224G>T	uc003kju.2	+	19	3574	c.3478G>T	c.(3478-3480)GAT>TAT	p.D1160Y	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1160	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CTTTCAGAATGATTCTGCTTT	0.383													23	207					3.28513e-13	3.85923e-13	0.003954	1	0		T	89948224	T	T	89948224	3	4	139	1	0	0	0	0	1	0	0	0	6737	1290	45	5	3552	5	GPR98	5	89948224	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	7113787	89948224	90967036	29	74931											
PCDHA3	56145	broad.mit.edu	37	chr5	140182680	140182680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacacgggagagatcagcaCgacccgtgccctggacgagg	10	4	15	12	4	1	1	1	0	0	1	1	6	1	3	2	3	3	2	2	3	1	1			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr5:140182680C>T	uc003lhf.2	+	1	1898	c.1898C>T	c.(1897-1899)ACG>ATG	p.T633M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.T633M	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	633	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGATCAGCACGACCCGTGCC	0.662													4	107					0	0	0.000602	0	0		T	140182680	T	T	140182680	3	4	139	1	0	0	0	0	1	0	0	0	11544	536	19	1	1900	1	PCDHA3	5	140182680	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	50234456	140182680	40732580	30	74932											
C1QTNF2	114898	broad.mit.edu	37	chr5	159776723	159776723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccacgggggccagcccGcccaatggccccggctttgc	4	4	16	17	3	0	0	0	0	0	0	0	0	0	0	6	6	2	1	6	6	1	1			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr5:159776723G>A	uc003lyd.2	-	3	449	c.445C>T	c.(445-447)CGG>TGG	p.R149W		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	104	Collagen-like.					collagen				skin(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGGCCAGCCCGCCCAATGGCC	0.672													10	130					0	0	0.008291	0	0		A	159776723	A	A	159776723	3	1	139	1	0	0	0	0	1	0	0	0	1966	1086	38	1	551	1	C1QTNF2	5	159776723	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	19594043	159776723	21138537	31	74933											
LCP2	3937	broad.mit.edu	37	chr5	169697919	169697919	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggactttcataatcgtcttcTtcctgcccacacagtgatag	9	13	7	12	1	3	1	1	1	2	0	5	2	4	2	2	1	1	0	2	1	2	5			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr5:169697919T>G	uc003man.1	-	7	534	c.327A>C	c.(325-327)GAA>GAC	p.E109D	LCP2_uc011det.1_5'UTR|LCP2_uc010jjo.1_5'Flank	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	109					immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		AATCGTCTTCTTCCTGCCCAC	0.507													4	42					0	0	0.009096	0	0		G	169697919	G	G	169697919	3	3	139	1	0	0	0	0	1	0	0	0	8708	1606	56	5	1334	5	LCP2	5	169697919	Missense_Mutation	SNP	T	TCGA-CG-4462-01A-01D-1158-08	9921196	169697919	11217341	32	74934											
OR2B2	81697	broad.mit.edu	37	chr6	27879292	27879292	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaaccatctttccccggTctttggagctgggtgaaggt	8	11	13	9	1	2	2	0	1	2	1	3	4	3	3	3	4	2	1	3	4	2	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr6:27879292T>C	uc011dkw.1	-	1	806	c.806A>G	c.(805-807)GAC>GGC	p.D269G		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTTCCCCGGTCTTTGGAGCT	0.443													18	180					0	0	0.00499	0	0		C	27879292	C	C	27879292	3	2	139	1	0	0	0	0	1	0	0	0	11008	1667	58	3	271	3	OR2B2	6	27879292	Missense_Mutation	SNP	T	TCGA-CG-4462-01A-01D-1158-08		27879292	143235775	33	74935											
C6orf15	29113	broad.mit.edu	37	chr6	31079710	31079710	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgcccggagcgagggcCgcagcactggagaggtaaga	10	3	16	12	3	0	2	0	0	0	2	0	5	0	3	3	4	3	3	3	4	1	1			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr6:31079710C>T	uc003nsk.1	-	2	426	c.426G>A	c.(424-426)GCG>GCA	p.A142A	PSORS1C1_uc003nsl.1_5'Flank|PSORS1C1_uc010jsj.1_5'Flank	NM_014070	NP_054789	Q6UXA7	CF015_HUMAN	STG protein precursor	142											0						GAGCGAGGGCCGCAGCACTGG	0.652													13	89					0	0	0.003163	0	0		T	31079710	T	T	31079710	2	4	139	1	0	0	0	0	0	0	0	1	2339	639	23	1		1	C6orf15	6	31079710	Silent	SNP	C	TCGA-CG-4462-01A-01D-1158-08	3200418	31079710	140035357	34	74936											
SENP6	26054	broad.mit.edu	37	chr6	76412460	76412460	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgctgtcatacagaaatgTtcaactgtagaggacagttg	14	11	10	6	0	2	2	2	0	0	2	2	3	2	3	0	1	3	4	0	1	5	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr6:76412460T>C	uc003pid.3	+	19	3007	c.2388T>C	c.(2386-2388)TGT>TGC	p.C796C	SENP6_uc003pie.3_Silent_p.C789C|SENP6_uc010kbf.2_Intron	NM_015571	NP_056386	Q9GZR1	SENP6_HUMAN	SUMO1/sentrin specific peptidase 6 isoform 1	796	Protease.				proteolysis	cytoplasm|nucleus	cysteine-type peptidase activity			breast(2)|urinary_tract(1)|ovary(1)|lung(1)|skin(1)	6		all_hematologic(105;0.189)				TACAGAAATGTTCAACTGTAG	0.393													18	80					0	0	0.006122	0	0		C	76412460	C	C	76412460	2	2	139	1	0	0	0	0	0	0	0	1	14075	1731	60	3		3	SENP6	6	76412460	Silent	SNP	T	TCGA-CG-4462-01A-01D-1158-08	45332750	76412460	94702607	35	74937											
GRIK2	2898	broad.mit.edu	37	chr6	102247636	102247636	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgacataaaccctggcgcttCgggacccgctttatgagtct	8	10	10	13	4	1	1	0	1	1	0	2	3	1	2	2	2	1	2	2	2	3	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr6:102247636C>T	uc003pqp.3	+	7	1314	c.1065C>T	c.(1063-1065)TTC>TTT	p.F355F	GRIK2_uc003pqn.2_Silent_p.F355F|GRIK2_uc003pqo.3_Silent_p.F355F|GRIK2_uc010kcw.2_Silent_p.F355F	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	355	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	CCTGGCGCTTCGGGACCCGCT	0.443													14	151					0	0	0.003163	0	0		T	102247636	T	T	102247636	2	4	139	1	0	0	0	0	0	0	0	1	6790	883	31	1		1	GRIK2	6	102247636	Silent	SNP	C	TCGA-CG-4462-01A-01D-1158-08	25835176	102247636	68867431	36	74938											
SLC2A12	154091	broad.mit.edu	37	chr6	134350402	134350402	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaaaacattggcaaatgcGtaatttgaaatataggcaga	17	10	10	4	1	0	2	0	1	0	1	0	3	0	3	0	3	2	3	0	3	7	5			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr6:134350402G>A	uc003qem.1	-	2	732	c.561C>T	c.(559-561)TAC>TAT	p.Y187Y		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	187	Helical; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		TGGCAAATGCGTAATTTGAAA	0.428													16	137					0	0	0.003163	0	0		A	134350402	A	A	134350402	2	1	139	1	0	0	0	0	0	0	0	1	14566	1140	40	1		1	SLC2A12	6	134350402	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08	32102766	134350402	36764665	37	74939											
TXNDC3	51314	broad.mit.edu	37	chr7	37889997	37889997	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagacagtcatcaataatcaAagcctgtgggatgagatgtt	14	10	10	7	0	3	2	3	1	0	2	3	4	3	3	1	1	1	1	1	1	3	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr7:37889997A>C	uc003tfn.2	+	4	423	c.51A>C	c.(49-51)CAA>CAC	p.Q17H		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	17	Thioredoxin.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						TCAATAATCAAAGCCTGTGGG	0.488									Kartagener_syndrome				34	365					0	0	0.004878	0	0		C	37889997	C	C	37889997	3	2	139	1	0	0	0	0	1	0	0	0	16824	11	1	5	57	5	TXNDC3	7	37889997	Missense_Mutation	SNP	A	TCGA-CG-4462-01A-01D-1158-08		37889997	121248666	38	74940											
INHBA	3624	broad.mit.edu	37	chr7	41729393	41729393	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaaaggggctatggcccCgcatgcggtagtggttgatg	7	9	17	8	2	0	1	0	1	0	0	0	1	0	1	2	6	1	5	2	6	3	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr7:41729393C>T	uc003thq.2	-	2	1371	c.1136G>A	c.(1135-1137)CGG>CAG	p.R379Q	INHBA_uc003thr.2_Missense_Mutation_p.R379Q	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	379				RMR -> AC (in Ref. 7; CAA51163).	cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						GCTATGGCCCCGCATGCGGTA	0.537										TSP Lung(11;0.080)			17	165					0	0	0.00278	0	0		T	41729393	T	T	41729393	3	4	139	1	0	0	0	0	1	0	0	0	7757	652	23	1	148	1	INHBA	7	41729393	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	3839396	41729393	117409270	39	74941											
GAL3ST4	79690	broad.mit.edu	37	chr7	99757813	99757813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgtttcgctagggcctctCggcgagcccggagctcggcc	5	8	14	14	5	1	0	0	0	1	0	4	2	1	1	3	4	2	3	3	4	2	2	rs145166071		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr7:99757813C>T	uc003utt.2	-	3	2216	c.1199G>A	c.(1198-1200)CGA>CAA	p.R400Q	C7orf43_uc010lgp.2_5'Flank|C7orf43_uc011kjj.1_5'Flank|C7orf43_uc003utr.2_5'Flank|C7orf43_uc003uts.2_5'Flank|GAL3ST4_uc003utu.2_Missense_Mutation_p.R400Q|GAL3ST4_uc010lgq.2_Missense_Mutation_p.R338Q	NM_024637	NP_078913	Q96RP7	G3ST4_HUMAN	galactose-3-O-sulfotransferase 4	400	Lumenal (Potential).				cell-cell signaling|oligosaccharide metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane|membrane fraction	3'-phosphoadenosine 5'-phosphosulfate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(3)	3	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TAGGGCCTCTCGGCGAGCCCG	0.602													23	181					0	0	0.005443	0	0		T	99757813	T	T	99757813	3	4	139	1	0	0	0	0	1	0	0	0	6215	884	31	1	265	1	GAL3ST4	7	99757813	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	58028420	99757813	59380850	40	74942											
PLXNA4	91584	broad.mit.edu	37	chr7	131831381	131831381	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctaggtgccacatcttgactCcactctccaggtcaggagtg	8	10	10	13	0	3	1	1	1	2	0	5	2	4	2	3	3	1	0	3	3	1	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr7:131831381C>G	uc003vra.3	-	28	5172	c.4943G>C	c.(4942-4944)GGA>GCA	p.G1648A	PLXNA4_uc003vqz.3_5'Flank	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1648	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CATCTTGACTCCACTCTCCAG	0.587													21	480					0	0	0.00333	0	0		G	131831381	G	G	131831381	3	3	139	1	0	0	0	0	1	0	0	0	12141	855	30	5	761	5	PLXNA4	7	131831381	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	32073568	131831381	27307282	41	74943											
LRGUK	136332	broad.mit.edu	37	chr7	133933822	133933822	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatttggaccatatcctgAaaagaggtgagttgaggtgt	11	12	12	6	0	0	4	0	3	0	1	2	5	2	5	3	3	0	1	3	3	3	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr7:133933822A>G	uc003vrm.1	+	18	2208	c.2192A>G	c.(2191-2193)GAA>GGA	p.E731G		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	731							ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						CCATATCCTGAAAAGAGGTGA	0.358													24	216					0	0	0.004656	0	0		G	133933822	G	G	133933822	3	3	139	1	0	0	0	0	1	0	0	0	8961	246	9	3	2262	3	LRGUK	7	133933822	Missense_Mutation	SNP	A	TCGA-CG-4462-01A-01D-1158-08	2102441	133933822	25204841	42	74944											
PARP12	64761	broad.mit.edu	37	chr7	139726076	139726076	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggcgtccacaaaaatggcGctggtgccgtggaacagctg	10	7	14	10	3	0	0	0	0	0	0	1	1	1	1	2	4	3	2	2	4	3	0	rs145495111		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr7:139726076G>A	uc003vvl.1	-	11	2575	c.1701C>T	c.(1699-1701)AGC>AGT	p.S567S	PARP12_uc003vvk.1_Silent_p.S353S|PARP12_uc010lnf.1_RNA	NM_022750	NP_073587	Q9H0J9	PAR12_HUMAN	poly ADP-ribose polymerase 12	567	PARP catalytic.					nucleus	NAD+ ADP-ribosyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)	3	Melanoma(164;0.0142)					CAAAAATGGCGCTGGTGCCGT	0.567													10	109					0	0	0.013537	0	0		A	139726076	A	A	139726076	2	1	139	1	0	0	0	0	0	0	0	1	11476	1078	38	1		1	PARP12	7	139726076	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08	5792254	139726076	19412587	43	74945											
CSMD1	64478	broad.mit.edu	37	chr8	2820779	2820779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcctttccacaccccgCgaccttcacaggagaggatg	8	9	8	16	2	2	1	1	0	1	1	5	4	4	2	5	2	0	0	5	2	0	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr8:2820779C>T	uc011kwk.1	-	60	9812	c.9422G>A	c.(9421-9423)CGC>CAC	p.R3141H	CSMD1_uc011kwj.1_Missense_Mutation_p.R2470H|CSMD1_uc010lrg.2_Missense_Mutation_p.R1032H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3141	Sushi 25.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CCACACCCCGCGACCTTCACA	0.567													17	216					0	0	0.014323	0	0		T	2820779	T	T	2820779	3	4	139	1	0	0	0	0	1	0	0	0	3947	768	27	1	1319	1	CSMD1	8	2820779	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08		2820779	143543243	44	74946											
RIMS2	9699	broad.mit.edu	37	chr8	104898339	104898339	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcataaatcaaagaaaggCggtaaaatgcgccagatttc	16	8	8	9	2	2	2	2	0	0	2	3	2	2	2	2	2	1	1	2	2	6	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr8:104898339C>T	uc003yls.2	+	2	1087	c.846C>T	c.(844-846)GGC>GGT	p.G282G	RIMS2_uc003ylp.2_Silent_p.G504G|RIMS2_uc003ylw.2_Silent_p.G312G|RIMS2_uc003ylq.2_Silent_p.G312G|RIMS2_uc003ylr.2_Silent_p.G312G	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	535					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CAAAGAAAGGCGGTAAAATGC	0.433										HNSCC(12;0.0054)			21	126					0	0	0.010504	0	0		T	104898339	T	T	104898339	2	4	139	1	0	0	0	0	0	0	0	1	13393	755	27	1		1	RIMS2	8	104898339	Silent	SNP	C	TCGA-CG-4462-01A-01D-1158-08	102077560	104898339	41465683	45	74947											
COL14A1	7373	broad.mit.edu	37	chr8	121322263	121322263	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggtggtccaggactcCgaggaccaaagggccagcaa	11	3	15	12	1	0	0	0	0	0	0	2	3	2	2	5	5	1	1	5	5	2	0			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr8:121322263C>T	uc003yox.2	+	37	4682	c.4417C>T	c.(4417-4419)CGA>TGA	p.R1473*	COL14A1_uc003yoz.2_Nonsense_Mutation_p.R438*	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	1473	Triple-helical region 1 (COL2).				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			TCCAGGACTCCGAGGACCAAA	0.338													20	142					0	0	0.014323	0	0		T	121322263	T	T	121322263	4	4	139	1	0	0	0	0	0	1	0	0	3674	644	23	1	4559	1	COL14A1	8	121322263	Nonsense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	16423924	121322263	25041759	46	74948											
OC90	729330	broad.mit.edu	37	chr8	133036823	133036823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctgtggagggtcctcctCgctgtcctcctcagagctgg	3	11	12	15	1	1	1	1	0	0	1	7	2	6	2	5	3	1	2	5	3	0	0			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr8:133036823C>T	uc003ytg.2	-	13	1339	c.1339G>A	c.(1339-1341)GAG>AAG	p.E447K	OC90_uc011lix.1_Missense_Mutation_p.E447K	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	463					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GGGTCCTCCTCGCTGTCCTCC	0.647													4	25					0	0	0.009096	0	0		T	133036823	T	T	133036823	3	4	139	1	0	0	0	0	1	0	0	0	10833	893	31	1	98	1	OC90	8	133036823	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	11714560	133036823	13327199	47	74949											
SLC45A4	57210	broad.mit.edu	37	chr8	142227211	142227211	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacaaatagcaccagtggcGgcataaatgaccaggcccca	15	4	10	12	1	0	1	0	1	0	0	0	2	0	1	4	3	2	2	4	3	5	2	rs144829418	byFrequency	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr8:142227211G>A	uc003ywd.1	-	5	1862	c.1554C>T	c.(1552-1554)GCC>GCT	p.A518A	SLC45A4_uc003ywc.1_Silent_p.A518A|SLC45A4_uc010meq.1_Silent_p.A516A	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	569	Helical; (Potential).				transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CACCAGTGGCGGCATAAATGA	0.577													13	104					0	0	0.00499	0	0		A	142227211	A	A	142227211	2	1	139	1	0	0	0	0	0	0	0	1	14668	1103	39	1		1	SLC45A4	8	142227211	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08	9190388	142227211	4136811	48	74950											
PGM5	5239	broad.mit.edu	37	chr9	71098810	71098810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggggttggatcccaagaCgacatattatatcatgaggg	12	10	13	6	1	1	3	1	2	0	1	2	5	2	4	1	4	0	1	1	4	4	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr9:71098810C>T	uc004agr.2	+	9	1554	c.1325C>T	c.(1324-1326)ACG>ATG	p.T442M		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	442					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						GATCCCAAGACGACATATTAT	0.512													8	123					0	0	0.00308	0	0		T	71098810	T	T	71098810	3	4	139	1	0	0	0	0	1	0	0	0	11820	536	19	1	1359	1	PGM5	9	71098810	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08		71098810	70114621	49	74951											
FLJ46321	389763	broad.mit.edu	37	chr9	84608947	84608947	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactgaaattttcccaccaAgaatatcagttcctcaagat	16	11	4	10	0	2	3	2	1	0	2	4	3	4	3	3	0	1	1	3	0	6	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr9:84608947A>C	uc004amn.2	+	4	3609	c.3562A>C	c.(3562-3564)AGA>CGA	p.R1188R		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1188						integral to membrane					0						TTTCCCACCAAGAATATCAGT	0.413													11	102					0	0	0.010729	0	0		C	84608947	C	C	84608947	2	2	139	1	0	0	0	0	0	0	0	1	5946	64	3	5		5	FLJ46321	9	84608947	Silent	SNP	A	TCGA-CG-4462-01A-01D-1158-08	13510137	84608947	56604484	50	74952											
ORM1	5004	broad.mit.edu	37	chr9	117087117	117087117	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgatcctcagggacaccAagacctacatgcttgctttt	9	12	8	12	0	1	2	1	1	0	1	2	3	2	3	3	1	4	3	3	1	2	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr9:117087117A>G	uc004bik.3	+	4	487	c.376A>G	c.(376-378)AAG>GAG	p.K126E	ORM1_uc011lxo.1_Missense_Mutation_p.K126E	NM_000607	NP_000598	P02763	A1AG1_HUMAN	orosomucoid 1 precursor	126					acute-phase response|regulation of immune system process|transport	extracellular space	protein binding				0		Myeloproliferative disorder(63;0.163)			Acenocoumarol(DB01418)|Alfentanil(DB00802)|Aprindine(DB01429)|Disopyramide(DB00280)|Penbutolol(DB01359)|Phenprocoumon(DB00946)|Quinidine(DB00908)|Tamsulosin(DB00706)	CAGGGACACCAAGACCTACAT	0.532													19	102					0	0	0.012319	0	0		G	117087117	G	G	117087117	3	3	139	1	0	0	0	0	1	0	0	0	11286	131	5	3	390	3	ORM1	9	117087117	Missense_Mutation	SNP	A	TCGA-CG-4462-01A-01D-1158-08	32478170	117087117	24126314	51	74953											
MYO3A	53904	broad.mit.edu	37	chr10	26457674	26457674	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attatcacgtggagcagttaAatctaatgcgaaaggaagct	15	10	10	6	2	2	0	1	0	1	0	2	3	2	2	0	2	3	3	0	2	6	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr10:26457674A>C	uc001isn.2	+	28	3505	c.3145A>C	c.(3145-3147)AAT>CAT	p.N1049H	MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1049					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GGAGCAGTTAAATCTAATGCG	0.353													17	90					0	0	0.006122	0	0		C	26457674	C	C	26457674	3	2	139	1	0	0	0	0	1	0	0	0	10094	14	1	5	3247	5	MYO3A	10	26457674	Missense_Mutation	SNP	A	TCGA-CG-4462-01A-01D-1158-08		26457674	109077073	52	74954											
C11orf41	25758	broad.mit.edu	37	chr11	33667477	33667477	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccagcacctgccctattcGgaggtggtgaccagcgctcc	6	7	12	16	2	0	1	0	1	0	0	2	2	1	2	5	3	3	2	5	3	1	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr11:33667477G>A	uc001mup.3	+	16	4906	c.4782G>A	c.(4780-4782)TCG>TCA	p.S1594S		NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	1588						integral to membrane				ovary(2)	2						TGCCCTATTCGGAGGTGGTGA	0.682													4	31					0	0	0.000602	0	0		A	33667477	A	A	33667477	2	1	139	1	0	0	0	0	0	0	0	1	1643	1103	39	1		1	C11orf41	11	33667477	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08		33667477	101339039	53	74955											
BEST1	7439	broad.mit.edu	37	chr11	61729952	61729952	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttaggggccaggaagacaaCaaggcctggaagcttaaggc	13	5	15	8	0	0	1	0	0	0	1	0	3	0	3	2	6	2	2	2	6	6	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr11:61729952C>G	uc001nss.2	+	10	1906	c.1326C>G	c.(1324-1326)AAC>AAG	p.N442K	BEST1_uc010rlq.1_3'UTR|BEST1_uc010rlr.1_3'UTR|BEST1_uc010rls.1_Missense_Mutation_p.N70K|BEST1_uc001nsr.2_Missense_Mutation_p.N382K|BEST1_uc009ynt.2_RNA|BEST1_uc010rlt.1_Missense_Mutation_p.N382K|BEST1_uc001nst.2_Missense_Mutation_p.N355K|BEST1_uc010rlu.1_3'UTR|BEST1_uc010rlv.1_Missense_Mutation_p.N336K	NM_004183	NP_004174	O76090	BEST1_HUMAN	bestrophin 1 isoform 1	442	Cytoplasmic (Potential).				response to stimulus|transepithelial chloride transport|visual perception	basolateral plasma membrane|chloride channel complex|cytosol|membrane fraction	chloride channel activity			central_nervous_system(1)	1						AGGAAGACAACAAGGCCTGGA	0.587													6	108					0	0	0.001168	0	0		G	61729952	G	G	61729952	3	3	139	1	0	0	0	0	1	0	0	0	1405	477	17	5	1360	5	BEST1	11	61729952	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	28062475	61729952	73276564	54	74956											
CCDC81	60494	broad.mit.edu	37	chr11	86123466	86123466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaacggccactcagtcctgCgcttaatgctcttaagcaag	11	9	8	13	2	2	0	1	0	1	0	3	0	3	0	2	1	4	3	2	1	4	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr11:86123466C>T	uc001pbx.1	+	11	1684	c.1256C>T	c.(1255-1257)GCG>GTG	p.A419V	CCDC81_uc001pbw.1_Missense_Mutation_p.A329V|CCDC81_uc010rtq.1_Missense_Mutation_p.A202V|CCDC81_uc001pby.1_Missense_Mutation_p.A154V	NM_001156474	NP_001149946	Q6ZN84	CCD81_HUMAN	coiled-coil domain containing 81 isoform 1	419										skin(1)	1		Acute lymphoblastic leukemia(157;5.51e-06)|all_hematologic(158;0.00535)				CTCAGTCCTGCGCTTAATGCT	0.378													26	212					0	0	0.005443	0	0		T	86123466	T	T	86123466	3	4	139	1	0	0	0	0	1	0	0	0	2858	768	27	1	1298	1	CCDC81	11	86123466	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	24393514	86123466	48883050	55	74957											
HINFP	25988	broad.mit.edu	37	chr11	119005167	119005167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggggcatcatggaaaagCttcaaggaatagctgaggag	14	6	15	6	0	2	1	2	1	0	0	2	4	2	4	0	5	2	3	0	5	5	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr11:119005167C>T	uc001pvp.2	+	11	1702	c.1513C>T	c.(1513-1515)CTT>TTT	p.L505F	HINFP_uc001pvq.2_Missense_Mutation_p.L505F|HINFP_uc001pvr.2_Missense_Mutation_p.L258F	NM_015517	NP_056332	Q9BQA5	HINFP_HUMAN	MBD2 (methyl-CpG-binding protein)-interacting	505	Interaction with NPAT.				DNA damage checkpoint|DNA repair|establishment of protein localization|in utero embryonic development|myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	enzyme binding|histone binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						CATGGAAAAGCTTCAAGGAAT	0.577											OREG0021397	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	63					0	0	0.001168	0	0		T	119005167	T	T	119005167	3	4	139	1	0	0	0	0	1	0	0	0	7126	797	28	2	1547	2	HINFP	11	119005167	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	32881701	119005167	16001349	56	74958											
RAD51AP1	10635	broad.mit.edu	37	chr12	4662198	4662198	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgagagtgaggataatgaCgaagacttctctatgagaaa	15	10	12	4	1	1	5	0	4	1	3	2	9	1	6	0	1	0	0	0	1	4	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr12:4662198C>T	uc001qmw.2	+	8	813	c.657C>T	c.(655-657)GAC>GAT	p.D219D	RAD51AP1_uc001qmu.2_Silent_p.D202D|RAD51AP1_uc001qmv.2_Silent_p.D165D|RAD51AP1_uc010sep.1_Silent_p.D84D|RAD51AP1_uc010seq.1_Silent_p.D84D|RAD51AP1_uc009zeg.2_RNA	NM_001130862	NP_001124334	Q96B01	R51A1_HUMAN	RAD51 associated protein 1 isoform a	219					double-strand break repair via homologous recombination		double-stranded DNA binding|protein binding|protein binding|RNA binding|single-stranded DNA binding				0			Colorectal(7;0.00306)|COAD - Colon adenocarcinoma(12;0.0389)			AGGATAATGACGAAGACTTCT	0.313													11	109					0	0	0.010729	0	0		T	4662198	T	T	4662198	2	4	139	1	0	0	0	0	0	0	0	1	13011	535	19	1		1	RAD51AP1	12	4662198	Silent	SNP	C	TCGA-CG-4462-01A-01D-1158-08		4662198	129189697	57	74959											
NCAPD2	9918	broad.mit.edu	37	chr12	6637448	6637448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactggggatctggccatcCgctttcccaatctggtggac	6	10	11	14	1	2	0	0	0	2	0	4	2	4	2	4	5	0	1	4	5	1	1			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr12:6637448C>T	uc001qoo.2	+	25	3299	c.3253C>T	c.(3253-3255)CGC>TGC	p.R1085C	NCAPD2_uc009zen.1_Missense_Mutation_p.R957C|NCAPD2_uc010sfd.1_Missense_Mutation_p.R1040C	NM_014865	NP_055680	Q15021	CND1_HUMAN	non-SMC condensin I complex, subunit D2	1085					cell division|mitotic chromosome condensation	condensin core heterodimer|cytoplasm	histone binding			ovary(2)|lung(1)|breast(1)|kidney(1)	5						TCTGGCCATCCGCTTTCCCAA	0.572													66	517					0	0	0.01441	0	0		T	6637448	T	T	6637448	3	4	139	1	0	0	0	0	1	0	0	0	10224	652	23	1	3347	1	NCAPD2	12	6637448	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	1975250	6637448	127214447	58	74960											
PZP	5858	broad.mit.edu	37	chr12	9344831	9344831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtgggttccagatctgaCgatgactcccttagccatga	9	11	11	10	1	1	4	0	3	1	1	3	5	3	4	3	1	1	1	3	1	1	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr12:9344831C>T	uc001qvl.2	-	13	1533	c.1504G>A	c.(1504-1506)GTC>ATC	p.V502I	PZP_uc009zgl.2_Missense_Mutation_p.V371I	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						CCAGATCTGACGATGACTCCC	0.478													10	80					0	0	0.006214	0	0		T	9344831	T	T	9344831	3	4	139	1	0	0	0	0	1	0	0	0	12894	536	19	1	3040	1	PZP	12	9344831	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	2707383	9344831	124507064	59	74961											
FAM186B	84070	broad.mit.edu	37	chr12	49993507	49993507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagccttcggatggatgtcCcagtgacaggaaaggaggca	11	7	14	9	1	1	1	1	1	0	0	3	5	2	5	2	5	1	1	2	5	1	1			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr12:49993507C>T	uc001ruo.2	-	4	2089	c.1916G>A	c.(1915-1917)GGG>GAG	p.G639E	FAM186B_uc010smk.1_Missense_Mutation_p.G549E	NM_032130	NP_115506	Q8IYM0	F186B_HUMAN	hypothetical protein LOC84070	639						protein complex				ovary(1)	1						GATGGATGTCCCAGTGACAGG	0.522													16	155					0	0	0.007413	0	0		T	49993507	T	T	49993507	3	4	139	1	0	0	0	0	1	0	0	0	5523	623	22	4	781	4	FAM186B	12	49993507	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	40648676	49993507	83858388	60	74962											
TBX5	6910	broad.mit.edu	37	chr12	114841689	114841689	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgccaggccaaagccctcGtctgcgtcggccatggtgcg	5	7	14	15	5	1	0	0	0	1	0	3	0	1	0	4	3	4	0	4	3	1	0			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr12:114841689G>A	uc001tvo.2	-	2	510	c.15C>T	c.(13-15)GAC>GAT	p.D5D	TBX5_uc001tvp.2_Silent_p.D5D|TBX5_uc001tvq.2_Intron|TBX5_uc010syv.1_Silent_p.D5D	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	5					cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		CAAAGCCCTCGTCTGCGTCGG	0.677													5	44					0	0	0.000602	0	0		A	114841689	A	A	114841689	2	1	139	1	0	0	0	0	0	0	0	1	15686	1136	40	1		1	TBX5	12	114841689	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08	64848182	114841689	19010206	61	74963											
COG3	83548	broad.mit.edu	37	chr13	46090314	46090314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttttcttaattaagcacCttttgatacttcgtgaacaa	13	16	4	8	1	1	2	0	2	1	0	2	2	1	2	1	0	4	1	1	0	6	8			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr13:46090314C>T	uc001vak.2	+	17	1947	c.1846C>T	c.(1846-1848)CTT>TTT	p.L616F	COG3_uc010tfv.1_Missense_Mutation_p.L453F|COG3_uc010aci.2_Missense_Mutation_p.L392F	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3	616					ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)		AATTAAGCACCTTTTGATACT	0.333													6	65					0	0	0.001168	0	0		T	46090314	T	T	46090314	3	4	139	1	0	0	0	0	1	0	0	0	3662	681	24	4	1912	4	COG3	13	46090314	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08		46090314	69079564	62	74964											
SLITRK5	26050	broad.mit.edu	37	chr13	88328449	88328449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtttgtgagacccccttccGcttacacggaagggacttgg	8	10	12	11	2	0	1	0	1	0	1	1	4	1	3	3	3	1	2	3	3	2	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr13:88328449G>A	uc001vln.2	+	2	1025	c.806G>A	c.(805-807)CGC>CAC	p.R269H	SLITRK5_uc010tic.1_Intron	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	269	LRRCT 1.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					ACCCCCTTCCGCTTACACGGA	0.517													21	236					0	0	0.014323	0	0		A	88328449	A	A	88328449	3	1	139	1	0	0	0	0	1	0	0	0	14771	1087	38	1	808	1	SLITRK5	13	88328449	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	42238135	88328449	26841429	63	74965											
TTLL5	23093	broad.mit.edu	37	chr14	76147917	76147917	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttgtcttataagattgtaCgaacggacagtcgcctagta	12	13	9	7	3	1	1	0	0	1	1	2	3	1	2	1	1	2	2	1	1	6	7			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr14:76147917C>T	uc001xrx.2	+	4	416	c.211C>T	c.(211-213)CGA>TGA	p.R71*	TTLL5_uc001xrw.1_Nonsense_Mutation_p.R71*|TTLL5_uc010ask.1_Nonsense_Mutation_p.R71*|TTLL5_uc001xrv.2_Nonsense_Mutation_p.R71*	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	71	TTL.				protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		TAAGATTGTACGAACGGACAG	0.343													13	252					0	0	0.004007	0	0		T	76147917	T	T	76147917	4	4	139	1	0	0	0	0	0	1	0	0	16756	528	19	1	221	1	TTLL5	14	76147917	Nonsense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08		76147917	31201623	64	74966											
C14orf145	145508	broad.mit.edu	37	chr14	81209494	81209494	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagacactgcaactcagAttccttgttttcagtcaaat	14	12	6	9	0	3	2	3	0	0	2	4	3	4	2	1	0	2	2	1	0	3	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr14:81209494A>G	uc001xux.2	-	18	2902	c.2731T>C	c.(2731-2733)TCT>CCT	p.S911P	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	911	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TGCAACTCAGATTCCTTGTTT	0.423													18	189					0	0	0.00278	0	0		G	81209494	G	G	81209494	3	3	139	1	0	0	0	0	1	0	0	0	1752	333	12	3	581	3	C14orf145	14	81209494	Missense_Mutation	SNP	A	TCGA-CG-4462-01A-01D-1158-08	5061577	81209494	26140046	65	74967											
EML1	2009	broad.mit.edu	37	chr14	100377910	100377910	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatcaaaaacttcgtaaaacGgaggtaagtcatcaaggcta	17	9	8	7	2	3	0	3	0	0	0	4	1	3	1	0	3	2	3	0	3	8	5			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr14:100377910G>T	uc001ygs.2	+	13	1560	c.1491G>T	c.(1489-1491)ACG>ACT	p.T497T	EML1_uc010tww.1_Silent_p.T485T|EML1_uc001ygq.2_Silent_p.T516T|EML1_uc001ygr.2_Silent_p.T516T	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	497	WD 5.					cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				TTCGTAAAACGGAGGTAAGTC	0.358													8	91					0.00448238	0.00479972	0.004482	1	0		T	100377910	T	T	100377910	2	4	139	1	0	0	0	0	0	0	0	1	5104	1103	39	5		5	EML1	14	100377910	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08	19168416	100377910	6971630	66	74968											
TECPR2	9895	broad.mit.edu	37	chr14	102906877	102906877	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaagccctgccccaggcaGtgtttgtggccctgagcgat	7	8	13	13	2	0	1	0	1	0	0	0	3	0	1	4	2	3	2	4	2	1	1			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr14:102906877G>C	uc001ylw.1	+	11	2831	c.2683G>C	c.(2683-2685)GTG>CTG	p.V895L	TECPR2_uc010awl.2_Missense_Mutation_p.V895L|TECPR2_uc010txx.1_Missense_Mutation_p.V58L	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	895							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						GCCCCAGGCAGTGTTTGTGGC	0.572													15	161					0	0	0.00245	0	0		C	102906877	C	C	102906877	3	2	139	1	0	0	0	0	1	0	0	0	15769	1029	36	5	2721	5	TECPR2	14	102906877	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	2528967	102906877	4442663	67	74969											
PPP1R13B	23368	broad.mit.edu	37	chr14	104212794	104212794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagcacaggaaagcttcCggcactgggaacctggatat	11	6	11	13	1	0	0	0	0	0	0	1	3	1	3	4	4	3	3	4	4	3	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr14:104212794C>T	uc001yof.1	-	9	1349	c.1066G>A	c.(1066-1068)GGA>AGA	p.G356R	PPP1R13B_uc010awv.1_RNA|PPP1R13B_uc001yog.1_Missense_Mutation_p.G223R	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	356					apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				GGAAAGCTTCCGGCACTGGGA	0.572													5	89					0	0	0.001168	0	0		T	104212794	T	T	104212794	3	4	139	1	0	0	0	0	1	0	0	0	12379	661	23	1	2242	1	PPP1R13B	14	104212794	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	1305917	104212794	3136746	68	74970											
LBXCOR1	390598	broad.mit.edu	37	chr15	68118709	68118709	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcccgagaacttcgccttCgatgtggtgcacgagtgcgc	6	9	13	13	5	0	1	0	0	0	1	2	4	0	1	2	1	4	1	2	1	1	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr15:68118709C>T	uc002aqy.1	+	2	516	c.516C>T	c.(514-516)TTC>TTT	p.F172F		NM_001031807	NP_001026977	P84550	SKOR1_HUMAN	transcriptional corepressor Corl1	181					negative regulation of BMP signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|dendrite|neuronal cell body|nucleus	nucleotide binding|SMAD binding|transcription repressor activity				0						ACTTCGCCTTCGATGTGGTGC	0.622													13	146					0	0	0.00245	0	0		T	68118709	T	T	68118709	2	4	139	1	0	0	0	0	0	0	0	1	8671	883	31	1		1	LBXCOR1	15	68118709	Silent	SNP	C	TCGA-CG-4462-01A-01D-1158-08		68118709	34412683	69	74971											
EFTUD1	79631	broad.mit.edu	37	chr15	82532780	82532780	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttctaaaatattcttgagGtgagaataggcctcttgtgg	10	15	11	5	0	3	2	0	2	3	1	3	3	3	2	1	3	0	1	1	3	5	7			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr15:82532780G>C	uc002bgt.1	-	6	664	c.495C>G	c.(493-495)CAC>CAG	p.H165Q	EFTUD1_uc002bgu.1_Missense_Mutation_p.H114Q	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	165					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						TATTCTTGAGGTGAGAATAGG	0.368													6	31					0	0	0.001168	0	0		C	82532780	C	C	82532780	3	2	139	1	0	0	0	0	1	0	0	0	4966	1252	44	5	2927	5	EFTUD1	15	82532780	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	14414071	82532780	19998612	70	74972											
FHOD1	29109	broad.mit.edu	37	chr16	67264254	67264254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggtcttgttgcgctcaCggtatgtggcctgcttctgc	2	13	13	13	3	3	0	1	0	2	0	3	0	3	0	2	3	3	4	2	3	1	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr16:67264254C>T	uc002esl.2	-	19	3126	c.3014G>A	c.(3013-3015)CGT>CAT	p.R1005H	FHOD1_uc002esk.2_Missense_Mutation_p.R64H|FHOD1_uc010ced.2_Missense_Mutation_p.R812H	NM_013241	NP_037373	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	1005	FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton|nucleus	actin binding			breast(2)|ovary(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		GTTGCGCTCACGGTATGTGGC	0.592													14	126					0	0	0.006122	0	0		T	67264254	T	T	67264254	3	4	139	1	0	0	0	0	1	0	0	0	5896	536	19	1	496	1	FHOD1	16	67264254	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08		67264254	23090499	71	74973											
PHLPP2	23035	broad.mit.edu	37	chr16	71715755	71715755	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaagagatgctcaggaacCtcctcgaggctgtaacacga	13	7	11	10	2	1	2	1	0	0	2	3	6	2	3	2	2	3	3	2	2	4	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr16:71715755C>G	uc002fax.2	-	5	795	c.789G>C	c.(787-789)GAG>GAC	p.E263D	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Missense_Mutation_p.E263D|PHLPP2_uc002fay.1_Missense_Mutation_p.E263D	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	263	LRR 1.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						GCTCAGGAACCTCCTCGAGGC	0.478													16	189					0	0	0.00499	0	0		G	71715755	G	G	71715755	3	3	139	1	0	0	0	0	1	0	0	0	11874	680	24	5	3238	5	PHLPP2	16	71715755	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	4451501	71715755	18638998	72	74974											
CNTNAP4	85445	broad.mit.edu	37	chr16	76389294	76389294	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagagaatggaggtcacCgctgtggccactcaaggggg	10	5	18	8	1	2	2	2	0	0	2	2	5	2	3	2	6	0	1	2	6	2	0	rs138220882		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr16:76389294C>A	uc002feu.1	+	5	661	c.276C>A	c.(274-276)ACC>ACA	p.T92T	CNTNAP4_uc002fev.1_Silent_p.T4T|CNTNAP4_uc010chb.1_Silent_p.T67T|CNTNAP4_uc002fex.1_Silent_p.T95T|CNTNAP4_uc002few.2_Silent_p.T67T	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	92	Extracellular (Potential).|F5/8 type C.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TGGAGGTCACCGCTGTGGCCA	0.483													11	39					1.5739e-10	1.83117e-10	0.004007	1	0		A	76389294	A	A	76389294	2	1	139	1	0	0	0	0	0	0	0	1	3652	639	23	5		5	CNTNAP4	16	76389294	Silent	SNP	C	TCGA-CG-4462-01A-01D-1158-08	4673539	76389294	13965459	73	74975											
L3MBTL4	91133	broad.mit.edu	37	chr18	6046733	6046733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatacaacttacccaaacCtctgggatgcagcacaagca	15	6	8	12	0	1	1	0	0	1	1	1	3	1	2	2	1	7	3	2	1	5	2	rs12958879		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr18:6046733C>T	uc002kmz.3	-	17	1625	c.1465G>A	c.(1465-1467)GGT>AGT	p.G489S	L3MBTL4_uc010dkt.2_Missense_Mutation_p.G489S|L3MBTL4_uc002kmy.3_Intron	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	489					chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				ttacccaaacctctgggatgc	0													6	82					0	0	0.001168	0	0		T	6046733	T	T	6046733	3	4	139	1	0	0	0	0	1	0	0	0	8610	681	24	4	422	4	L3MBTL4	18	6046733	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08		6046733	72030515	74	74976											
SMAD2	4087	broad.mit.edu	37	chr18	45368211	45368211	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgaagctttatgacatgcttGagcaacgcactgaaggggat	12	10	12	7	1	0	4	0	4	0	0	0	5	0	5	0	2	4	4	0	2	4	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr18:45368211G>C	uc002lcy.2	-	11	1639	c.1391C>G	c.(1390-1392)TCA>TGA	p.S464*	SMAD2_uc002lcz.2_Nonsense_Mutation_p.S464*|SMAD2_uc010xdc.1_Nonsense_Mutation_p.S434*	NM_005901	NP_005892	Q15796	SMAD2_HUMAN	Sma- and Mad-related protein 2 isoform 1	464	MH2.			S->A: Loss of phosphorylation by TGFBR1; when associated with A-465 and A-467.	anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding	p.R462fs*>4(1)		large_intestine(3)|lung(1)|central_nervous_system(1)	5						TGACATGCTTGAGCAACGCAC	0.423													11	79					0	0	0.008291	0	0		C	45368211	C	C	45368211	4	2	139	1	0	0	0	0	0	1	0	0	14783	1294	45	5	16	5	SMAD2	18	45368211	Nonsense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	39321478	45368211	32709037	75	74977											
SALL3	27164	broad.mit.edu	37	chr18	76755232	76755232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgggcgagggtcccccgctgCccgcgggcgtccaggtcccc	2	5	16	18	5	0	0	0	0	0	0	3	1	3	0	6	4	1	1	6	4	0	0			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr18:76755232C>T	uc002lmt.2	+	2	3241	c.3241C>T	c.(3241-3243)CCC>TCC	p.P1081S	SALL3_uc010dra.2_Missense_Mutation_p.P616S	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1081					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		TCCCCCGCTGCCCGCGGGCGT	0.706													6	41					0	0	0.001984	0	0		T	76755232	T	T	76755232	3	4	139	1	0	0	0	0	1	0	0	0	13837	739	26	2	3247	2	SALL3	18	76755232	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	31387021	76755232	1322016	76	74978											
ICAM5	7087	broad.mit.edu	37	chr19	10401793	10401793	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctgcagcctcgcgtggCgttcgtggagcgcgggggct	3	7	19	12	6	0	0	0	0	0	0	2	2	0	2	2	5	3	3	2	5	0	1			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr19:10401793C>T	uc002mnu.3	+	2	193	c.128C>T	c.(127-129)GCG>GTG	p.A43V	ICAM5_uc002mnv.3_5'Flank	NM_003259	NP_003250	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5 precursor	43	Extracellular (Potential).				cell-cell adhesion	integral to plasma membrane				breast(3)	3			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			CCTCGCGTGGCGTTCGTGGAG	0.701													5	43					0	0	0.000602	0	0		T	10401793	T	T	10401793	3	4	139	1	0	0	0	0	1	0	0	0	7499	768	27	1	134	1	ICAM5	19	10401793	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08		10401793	48727190	77	74979											
CILP2	148113	broad.mit.edu	37	chr19	19656264	19656264	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcacccgcggccagctctaCggacttcgggatgcccggag	6	5	14	16	6	1	0	0	0	1	0	2	3	1	3	3	4	3	2	3	4	1	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr19:19656264C>T	uc002nmv.3	+	8	2995	c.2910C>T	c.(2908-2910)TAC>TAT	p.Y970Y	CILP2_uc002nmw.3_Silent_p.Y976Y	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	970						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						GCCAGCTCTACGGACTTCGGG	0.677													4	48					0	0	0.001168	0	0		T	19656264	T	T	19656264	2	4	139	1	0	0	0	0	0	0	0	1	3433	547	19	1		1	CILP2	19	19656264	Silent	SNP	C	TCGA-CG-4462-01A-01D-1158-08	9254471	19656264	39472719	78	74980											
SIGLEC12	89858	broad.mit.edu	37	chr19	52001483	52001483	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtcgacagcacagacaagGtgcagggactggccctccag	10	5	13	13	1	0	1	0	0	0	1	2	3	1	2	2	3	2	2	2	3	1	0			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr19:52001483G>T	uc002pwx.1	-	5	1250	c.1194C>A	c.(1192-1194)CAC>CAA	p.H398Q	SIGLEC12_uc002pww.1_Missense_Mutation_p.H280Q|SIGLEC12_uc010eoy.1_Missense_Mutation_p.H125Q	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	398	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CACAGACAAGGTGCAGGGACT	0.512													6	58					2.7689e-08	3.16072e-08	0.001984	1	0		T	52001483	T	T	52001483	3	4	139	1	0	0	0	0	1	0	0	0	14333	1252	44	5	609	5	SIGLEC12	19	52001483	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	32345219	52001483	7127500	79	74981											
TMC2	117532	broad.mit.edu	37	chr20	2591146	2591146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggagaattaccacccaCgcactggactgaagtggcag	11	6	11	13	1	0	2	0	1	0	1	0	4	0	3	3	3	1	2	3	3	3	1			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr20:2591146C>T	uc002wgf.1	+	12	1510	c.1495C>T	c.(1495-1497)CGC>TGC	p.R499C	TMC2_uc002wgg.1_Missense_Mutation_p.R483C|TMC2_uc010zpw.1_Missense_Mutation_p.R331C|TMC2_uc010zpx.1_Missense_Mutation_p.R330C	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	499	Extracellular (Potential).					integral to membrane				ovary(3)	3						TTACCACCCACGCACTGGACT	0.532													16	207					0	0	0.004007	0	0		T	2591146	T	T	2591146	3	4	139	1	0	0	0	0	1	0	0	0	16010	536	19	1	1541	1	TMC2	20	2591146	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08		2591146	60434374	80	74982											
SETD4	54093	broad.mit.edu	37	chr21	37416162	37416162	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agccgttgattatcgtgaggGccgtaacagatgaatacctc	11	10	11	9	3	0	4	0	3	0	1	2	4	0	4	3	1	3	2	3	1	4	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr21:37416162G>A	uc002yuw.1	-	6	2192	c.819C>T	c.(817-819)GGC>GGT	p.G273G	SETD4_uc002yux.1_Silent_p.G249G|SETD4_uc002yuu.2_RNA|SETD4_uc002yuv.2_Silent_p.G273G|SETD4_uc002yuy.2_Silent_p.G273G|SETD4_uc002yuz.2_Silent_p.G249G|SETD4_uc002yva.2_Silent_p.G249G	NM_017438	NP_059134	Q9NVD3	SETD4_HUMAN	SET domain containing 4 isoform a	273	SET.									large_intestine(1)|ovary(1)	2						TATCGTGAGGGCCGTAACAGA	0.398													11	91					0	0	0.013537	0	0		A	37416162	A	A	37416162	2	1	139	1	0	0	0	0	0	0	0	1	14158	1190	42	2		2	SETD4	21	37416162	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08		37416162	10713733	81	74983											
GAL3ST1	9514	broad.mit.edu	37	chr22	30951395	30951395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgagcttgaagtagagcaCgtcctccagctcccagcaca	10	8	10	13	1	0	3	0	2	0	1	3	3	3	3	3	0	4	6	3	0	2	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chr22:30951395C>T	uc003aig.1	-	4	957	c.817G>A	c.(817-819)GTG>ATG	p.V273M	GAL3ST1_uc003aih.1_Missense_Mutation_p.V273M|GAL3ST1_uc003aii.1_Missense_Mutation_p.V273M|GAL3ST1_uc010gvz.1_Missense_Mutation_p.V273M	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	273	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						AAGTAGAGCACGTCCTCCAGC	0.657													15	120					0	0	0.00499	0	0		T	30951395	T	T	30951395	3	4	139	1	0	0	0	0	1	0	0	0	6212	536	19	1	458	1	GAL3ST1	22	30951395	Missense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08		30951395	20353171	82	74984											
MAGEB18	286514	broad.mit.edu	37	chrX	26157454	26157454	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtgtcgctggtgcatttcTtgcttcagaagtatgaaacg	9	14	11	7	2	2	2	1	1	1	1	3	2	2	2	0	1	3	4	0	1	4	5			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chrX:26157454T>G	uc004dbq.1	+	2	539	c.352T>G	c.(352-354)TTG>GTG	p.L118V		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	118	MAGE.						protein binding			central_nervous_system(1)	1						GGTGCATTTCTTGCTTCAGAA	0.418													3	37					0	0	0.004672	0	0		G	26157454	G	G	26157454	3	3	139	1	0	0	0	0	1	0	0	0	9193	1606	56	5	354	5	MAGEB18	23	26157454	Missense_Mutation	SNP	T	TCGA-CG-4462-01A-01D-1158-08		26157454	129113106	83	74985											
ATP6AP2	10159	broad.mit.edu	37	chrX	40464996	40464996	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatgacaaaccagaagattCgaatggattgaatgttacct	15	10	10	6	1	0	4	0	2	0	2	1	7	0	6	2	2	2	1	2	2	5	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chrX:40464996C>T	uc004det.2	+	9	1144	c.1042C>T	c.(1042-1044)CGA>TGA	p.R348*	ATP6AP2_uc010nhc.2_RNA|ATP6AP2_uc011mkl.1_Nonsense_Mutation_p.R272*|ATP6AP2_uc011mkm.1_Nonsense_Mutation_p.R316*|ATP6AP2_uc011mkn.1_Nonsense_Mutation_p.R270*|ATP6AP2_uc004deu.1_Nonsense_Mutation_p.R212*	NM_005765	NP_005756	O75787	RENR_HUMAN	ATPase, H+ transporting, lysosomal accessory	348	Cytoplasmic (Potential).				angiotensin maturation|positive regulation of transforming growth factor-beta1 production|regulation of MAPKKK cascade	external side of plasma membrane|integral to membrane	protein binding|receptor activity				0						CCAGAAGATTCGAATGGATTG	0.368													20	147					0	0	0.007413	0	0		T	40464996	T	T	40464996	4	4	139	1	0	0	0	0	0	1	0	0	1168	876	31	1	1076	1	ATP6AP2	23	40464996	Nonsense_Mutation	SNP	C	TCGA-CG-4462-01A-01D-1158-08	14307542	40464996	114805564	84	74986											
PHKA1	5255	broad.mit.edu	37	chrX	71895995	71895995	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctccacgttcccatatcccGaagtcctggcataaaataac	12	10	5	14	2	1	0	0	0	1	0	5	1	4	0	4	1	1	2	4	1	5	4			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chrX:71895995G>A	uc004eax.3	-	6	844	c.543C>T	c.(541-543)TTC>TTT	p.F181F	PHKA1_uc004eay.3_Silent_p.F181F|PHKA1_uc011mqi.1_Silent_p.F181F	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	181					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					CCCATATCCCGAAGTCCTGGC	0.398													16	180					0	0	0.006122	0	0		A	71895995	A	A	71895995	2	1	139	1	0	0	0	0	0	0	0	1	11862	1049	37	1		1	PHKA1	23	71895995	Silent	SNP	G	TCGA-CG-4462-01A-01D-1158-08	31430999	71895995	83374565	85	74987											
NOX1	27035	broad.mit.edu	37	chrX	100125713	100125713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccgtgatactcaccccaaGgatttttcttgtgtagtagt	10	14	8	9	1	2	1	1	1	1	0	2	2	2	2	3	1	2	2	3	1	5	6			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chrX:100125713G>A	uc004egj.2	-	2	342	c.136C>T	c.(136-138)CTT>TTT	p.L46F	uc010nnf.2_Intron|NOX1_uc004egl.3_Missense_Mutation_p.L46F|NOX1_uc010nne.2_Missense_Mutation_p.L46F	NM_007052	NP_008983	Q9Y5S8	NOX1_HUMAN	NADPH oxidase 1 isoform long	46	Helical; (Potential).				angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1						CTCACCCCAAGGATTTTTCTT	0.423													27	217					0	0	0.008361	0	0		A	100125713	A	A	100125713	3	1	139	1	0	0	0	0	1	0	0	0	10575	1000	35	4	1606	4	NOX1	23	100125713	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	28229718	100125713	55144847	86	74988											
SLC25A5	292	broad.mit.edu	37	chrX	118604441	118604441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatccatttgacactgttcGccgccgcatgatgatgcagt	8	12	9	12	3	0	3	0	3	0	0	2	3	1	3	3	0	1	3	3	0	1	3			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chrX:118604441G>A	uc004erh.3	+	3	820	c.704G>A	c.(703-705)CGC>CAC	p.R235H	LOC100303728_uc004ere.1_5'Flank|LOC100303728_uc004erg.1_5'Flank	NM_001152	NP_001143	P05141	ADT2_HUMAN	adenine nucleotide translocator 2	235	Helical; Name=5; (By similarity).|Substrate recognition (By similarity).|Solcar 3.				chromosome segregation|energy reserve metabolic process|interspecies interaction between organisms|regulation of insulin secretion|viral reproduction	integral to plasma membrane|mitochondrial inner membrane|mitochondrial nucleoid|MMXD complex	adenine transmembrane transporter activity|protein binding			ovary(1)	1					Clodronate(DB00720)	GACACTGTTCGCCGCCGCATG	0.517													21	77					0	0	0.00278	0	0		A	118604441	A	A	118604441	3	1	139	1	0	0	0	0	1	0	0	0	14537	1087	38	1	714	1	SLC25A5	23	118604441	Missense_Mutation	SNP	G	TCGA-CG-4462-01A-01D-1158-08	18478728	118604441	36666119	87	74989											
SPANXN2	494119	broad.mit.edu	37	chrX	142795339	142795339	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttcagatgagtccaggtcTtcgtcctcctgtgaagatcc	7	12	9	13	1	2	4	1	2	1	2	7	4	6	4	5	1	0	0	5	1	1	2			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	77e84522-a623-4c24-b486-1f3aaea36714	fbcc8c24-1ed2-469f-ad78-e1fa8555d067	g.chrX:142795339T>G	uc004fbz.2	-	2	1093	c.339A>C	c.(337-339)GAA>GAC	p.E113D		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	113										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					AGTCCAGGTCTTCGTCCTCCT	0.527													45	434					0	0	0.01441	0	0		G	142795339	G	G	142795339	3	3	139	1	0	0	0	0	1	0	0	0	15016	1606	56	5	207	5	SPANXN2	23	142795339	Missense_Mutation	SNP	T	TCGA-CG-4462-01A-01D-1158-08	24190898	142795339	12475221	88	74990											
NOC2L	26155	broad.mit.edu	37	chr1	887854	887854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcggatgtagaggaaggCgtgctggtaggccacacccg	8	6	17	10	3	0	1	0	0	0	1	0	3	0	3	2	6	1	3	2	6	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:887854C>T	uc001abz.3	-	10	1188	c.1129G>A	c.(1129-1131)GCC>ACC	p.A377T	NOC2L_uc001aby.3_Missense_Mutation_p.A174T|NOC2L_uc009vjq.2_Missense_Mutation_p.A377T	NM_015658	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog	377						nucleolus	protein binding			ovary(1)|skin(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.86e-38)|OV - Ovarian serous cystadenocarcinoma(86;6.08e-23)|Colorectal(212;0.000161)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(365;0.000475)|Kidney(185;0.00231)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		TAGAGGAAGGCGTGCTGGTAG	0.627													12	27					0	0	0.020292	0	0		T	887854	T	T	887854	3	4	140	1	0	0	0	0	1	0	0	0	10532	768	27	1	1160	1	NOC2L	1	887854	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08		887854	248362767	1	74991											
KLHL17	339451	broad.mit.edu	37	chr1	899343	899343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggaacgtggacgtccgtcGctgccatgagcacccggagg	7	5	15	14	6	0	1	0	1	0	0	2	4	1	4	4	4	3	2	4	4	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:899343G>A	uc001aca.1	+	9	1506	c.1399G>A	c.(1399-1401)GCT>ACT	p.A467T	KLHL17_uc001acc.1_RNA|PLEKHN1_uc001acd.2_5'Flank|PLEKHN1_uc001acf.2_5'Flank|PLEKHN1_uc001ace.2_5'Flank	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	467	Interaction with F-actin (By similarity).|Kelch 3.				actin cytoskeleton organization	actin cytoskeleton|cell junction|postsynaptic density|postsynaptic membrane	protein complex scaffold				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.52e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.59e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000469)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GACGTCCGTCGCTGCCATGAG	0.687													44	93					0	0	0.01441	0	0		A	899343	A	A	899343	3	1	140	1	0	0	0	0	1	0	0	0	8388	1087	38	1	1433	1	KLHL17	1	899343	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	11489	899343	248351278	2	74992											
AGRN	375790	broad.mit.edu	37	chr1	980540	980540	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgtaccctttcctgcaGgccccaccttcgccccgctg	3	9	8	21	3	0	0	0	0	0	0	3	0	2	0	8	1	2	3	8	1	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:980540G>T	uc001ack.1	+	13	2305	c.2255_splice	c.e13-1	p.G752_splice		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor						axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		CTTTCCTGCAGGCCCCACCTT	0.667													5	37					0.000602214	0.000619054	0.014758	1	0		T	980540	T	T	980540	5	4	140	1	0	0	0	0	0	0	1	0	397	1014	35	5	2304	5	AGRN	1	980540	Splice_Site	SNP	G	TCGA-CG-4465-01A-01D-1158-08	81197	980540	248270081	3	74993											
WDR8	49856	broad.mit.edu	37	chr1	3551767	3551767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaactgactgctggggCtccaggccacagacttgatg	9	7	13	12	0	0	3	0	2	0	1	1	4	1	4	3	4	2	2	3	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:3551767C>T	uc001ako.2	-	7	803	c.695G>A	c.(694-696)AGC>AAC	p.S232N	WDR8_uc001akn.3_Missense_Mutation_p.S232N|WDR8_uc010nzi.1_3'UTR	NM_017818	NP_060288	Q9P2S5	WRP73_HUMAN	WD repeat domain 8	232	WD 4.					centrosome	protein binding				0	all_cancers(77;0.0128)|all_epithelial(69;0.00526)|Ovarian(185;0.0634)|Lung NSC(156;0.162)|all_lung(157;0.172)	all_epithelial(116;7.37e-22)|all_lung(118;8.23e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;4.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;4.16e-22)|GBM - Glioblastoma multiforme(42;1.05e-14)|Colorectal(212;1.19e-05)|BRCA - Breast invasive adenocarcinoma(365;2.67e-05)|COAD - Colon adenocarcinoma(227;5.82e-05)|Kidney(185;0.000364)|KIRC - Kidney renal clear cell carcinoma(229;0.00223)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		ACTGCTGGGGCTCCAGGCCAC	0.602													8	52					0	0	0.004482	0	0		T	3551767	T	T	3551767	3	4	140	1	0	0	0	0	1	0	0	0	17355	797	28	2	711	2	WDR8	1	3551767	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2571227	3551767	245698854	4	74994											
RERE	473	broad.mit.edu	37	chr1	8418331	8418331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgatggtgcggagtcaCgttgaacatctgcagtcggg	7	10	16	8	3	2	2	1	2	1	0	3	3	2	3	0	4	3	2	0	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:8418331C>T	uc001ape.2	-	21	5074	c.4264G>A	c.(4264-4266)GTG>ATG	p.V1422M	RERE_uc001apf.2_Missense_Mutation_p.V1422M|RERE_uc001apd.2_Missense_Mutation_p.V868M	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1422					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		tgCGGAGTCACGTTGAACATC	0.438													19	25					0	0	0.016522	0	0		T	8418331	T	T	8418331	3	4	140	1	0	0	0	0	1	0	0	0	13256	536	19	1	452	1	RERE	1	8418331	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4866564	8418331	240832290	5	74995											
PIK3CD	5293	broad.mit.edu	37	chr1	9784908	9784908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaccatcctgcggcgccacGggcttctcttcctccacctc	5	9	7	20	3	1	0	0	0	1	0	6	0	4	0	6	2	1	1	6	2	0	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:9784908G>A	uc001aqb.3	+	23	3119	c.2911G>A	c.(2911-2913)GGG>AGG	p.G971R	PIK3CD_uc010oaf.1_Missense_Mutation_p.G970R|PIK3CD_uc001aqe.3_Missense_Mutation_p.G995R	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	971	PI3K/PI4K.				phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		GCGGCGCCACGGGCTTCTCTT	0.622											OREG0013083	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	59					0	0	0.019004	0	0		A	9784908	A	A	9784908	3	1	140	1	0	0	0	0	1	0	0	0	11934	1116	39	1	2993	1	PIK3CD	1	9784908	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1366577	9784908	239465713	6	74996											
KIF1B	23095	broad.mit.edu	37	chr1	10356694	10356694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacctacgtaaatggcaagaGggtgtcccagcctgttcagc	11	8	11	11	1	1	1	1	0	0	1	2	1	2	1	3	2	4	3	3	2	5	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:10356694G>A	uc001aqx.3	+	20	2034	c.1832G>A	c.(1831-1833)AGG>AAG	p.R611K	KIF1B_uc001aqv.3_Missense_Mutation_p.R565K|KIF1B_uc001aqw.3_Missense_Mutation_p.R565K|KIF1B_uc001aqy.2_Missense_Mutation_p.R585K|KIF1B_uc001aqz.2_Missense_Mutation_p.R611K|KIF1B_uc001ara.2_Missense_Mutation_p.R571K|KIF1B_uc001arb.2_Missense_Mutation_p.R597K	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	611	FHA.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		AATGGCAAGAGGGTGTCCCAG	0.463													6	45					0	0	0.00308	0	0		A	10356694	A	A	10356694	3	1	140	1	0	0	0	0	1	0	0	0	8300	1000	35	4	1760	4	KIF1B	1	10356694	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	571786	10356694	238893927	7	74997											
ARHGEF19	128272	broad.mit.edu	37	chr1	16534699	16534699	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccggggacctcttcacgcTggtacacccgcatcttgcgc	6	8	11	16	4	3	0	1	0	2	0	3	1	3	1	3	3	3	3	3	3	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:16534699T>C	uc001ayc.1	-	3	571	c.434A>G	c.(433-435)CAG>CGG	p.Q145R	ARHGEF19_uc009voo.1_5'Flank|ARHGEF19_uc001ayb.1_5'Flank	NM_153213	NP_694945	Q8IW93	ARHGJ_HUMAN	Rho guanine nucleotide exchange factor (GEF) 19	145					regulation of actin cytoskeleton organization	intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|Colorectal(212;3.48e-07)|COAD - Colon adenocarcinoma(227;2.19e-05)|BRCA - Breast invasive adenocarcinoma(304;9.46e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.0117)|READ - Rectum adenocarcinoma(331;0.0649)		CTCTTCACGCTGGTACACCCG	0.682													18	39					0	0	0.010504	0	0		C	16534699	C	C	16534699	3	2	140	1	0	0	0	0	1	0	0	0	902	1580	55	3	2030	3	ARHGEF19	1	16534699	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	6178005	16534699	232715922	8	74998											
ATP13A2	23400	broad.mit.edu	37	chr1	17313329	17313329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcggccggcggaagggcGcccccttggacacggctgca	7	3	17	14	5	0	1	0	0	0	1	0	3	0	3	3	6	2	2	3	6	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:17313329G>A	uc001baa.2	-	27	3396	c.3206C>T	c.(3205-3207)GCG>GTG	p.A1069V	ATP13A2_uc001azz.1_Missense_Mutation_p.A216V|ATP13A2_uc001bab.2_Missense_Mutation_p.A1064V|ATP13A2_uc001bac.2_Missense_Mutation_p.A1025V	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	1069	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		GCGGAAGGGCGCCCCCTTGGA	0.677													7	11					0	0	0.010729	0	0		A	17313329	A	A	17313329	3	1	140	1	0	0	0	0	1	0	0	0	1125	1087	38	1	584	1	ATP13A2	1	17313329	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	778630	17313329	231937292	9	74999											
ECE1	1889	broad.mit.edu	37	chr1	21551931	21551931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtccttgtcatactcccGtcctgtgggtcagagggagg	5	10	13	13	2	2	1	2	0	0	1	5	2	5	2	4	3	1	0	4	3	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:21551931G>A	uc001bek.2	-	17	1927	c.1852C>T	c.(1852-1854)CGG>TGG	p.R618W	ECE1_uc001bem.2_Missense_Mutation_p.R602W|ECE1_uc001bej.2_Missense_Mutation_p.R606W|ECE1_uc001bei.2_Missense_Mutation_p.R615W|ECE1_uc010odl.1_Missense_Mutation_p.R618W	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	618	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		Lung NSC(340;1.14e-05)|all_lung(284;1.23e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00147)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0183)|OV - Ovarian serous cystadenocarcinoma(117;4.83e-27)|COAD - Colon adenocarcinoma(152;1.36e-06)|GBM - Glioblastoma multiforme(114;1.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000162)|STAD - Stomach adenocarcinoma(196;0.00326)|KIRC - Kidney renal clear cell carcinoma(1967;0.00755)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.206)		TCATACTCCCGTCCTGTGGGT	0.607													10	30					0	0	0.008291	0	0		A	21551931	A	A	21551931	3	1	140	1	0	0	0	0	1	0	0	0	4895	1144	40	1	472	1	ECE1	1	21551931	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	4238602	21551931	227698690	10	75000											
RAP1GAP	5909	broad.mit.edu	37	chr1	21945544	21945544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcggcgggaaggagcagcGttgttcatccatcctgcttc	6	9	15	11	3	1	0	1	0	0	0	4	2	3	2	2	4	3	4	2	4	1	3	rs145342478		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:21945544G>A	uc001bex.2	-	5	298	c.40C>T	c.(40-42)CGC>TGC	p.R14C	RAP1GAP_uc001bev.2_Missense_Mutation_p.R14C|RAP1GAP_uc001bew.2_Missense_Mutation_p.R78C|RAP1GAP_uc001bey.2_Missense_Mutation_p.R14C|RAP1GAP_uc001bez.1_Missense_Mutation_p.R45C	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	14	GoLoco.				regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		AAGGAGCAGCGTTGTTCATCC	0.662													2	1					0	0	0.004672	0	0		A	21945544	A	A	21945544	3	1	140	1	0	0	0	0	1	0	0	0	13062	1145	40	1	2113	1	RAP1GAP	1	21945544	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	393613	21945544	227305077	11	75001											
HSPG2	3339	broad.mit.edu	37	chr1	22155944	22155944	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggacacgaagtcctccacaGgcccgctcttccccccgctg	6	6	10	19	3	1	0	0	0	1	0	4	2	4	1	6	2	0	2	6	2	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:22155944G>T	uc001bfj.2	-	87	11964	c.11924C>A	c.(11923-11925)CCT>CAT	p.P3975H	HSPG2_uc001bfi.2_Translation_Start_Site|HSPG2_uc009vqd.2_Missense_Mutation_p.P3976H	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3975	Laminin G-like 2.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GTCCTCCACAGGCCCGCTCTT	0.657													7	65					5.18039e-06	5.41172e-06	0.00308	1	0		T	22155944	T	T	22155944	3	4	140	1	0	0	0	0	1	0	0	0	7446	1000	35	5	1295	5	HSPG2	1	22155944	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	210400	22155944	227094677	12	75002											
HSPG2	3339	broad.mit.edu	37	chr1	22176578	22176578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgcgcttgtgccacgtgaCctgggcatgggcctgaccag	5	7	14	15	3	0	2	0	2	0	0	0	2	0	2	5	2	1	2	5	2	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:22176578C>T	uc001bfj.2	-	57	7442	c.7402G>A	c.(7402-7404)GTC>ATC	p.V2468I	HSPG2_uc009vqd.2_Missense_Mutation_p.V2469I	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2468	Ig-like C2-type 10.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TGCCACGTGACCTGGGCATGG	0.662													92	183					0	0	0.01441	0	0		T	22176578	T	T	22176578	3	4	140	1	0	0	0	0	1	0	0	0	7446	507	18	4	5937	4	HSPG2	1	22176578	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	20634	22176578	227074043	13	75003											
EPHA8	2046	broad.mit.edu	37	chr1	22903024	22903024	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagagcttcacaggtgccgaCcttggtgtgcggcgtctcaa	7	9	14	11	3	2	1	2	0	1	1	3	3	2	1	2	3	3	1	2	3	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:22903024C>T	uc001bfx.1	+	3	599	c.474C>T	c.(472-474)GAC>GAT	p.D158D	EPHA8_uc001bfw.2_Silent_p.D158D	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	158	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CAGGTGCCGACCTTGGTGTGC	0.622													28	55					0	0	0.007291	0	0		T	22903024	T	T	22903024	2	4	140	1	0	0	0	0	0	0	0	1	5181	506	18	4		4	EPHA8	1	22903024	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	726446	22903024	226347597	14	75004											
TMEM57	55219	broad.mit.edu	37	chr1	25818035	25818035	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaagctggacctgttctcCgcactgggcgatgcaaagcg	9	8	12	12	3	2	0	1	0	1	0	3	2	2	1	2	2	3	4	2	2	2	1	rs149775144	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:25818035C>T	uc001bkk.2	+	10	1954	c.1752C>T	c.(1750-1752)TCC>TCT	p.S584S	TMEM57_uc009vru.2_Silent_p.S357S|TMEM57_uc009vrv.2_Silent_p.S226S	NM_018202	NP_060672	Q8N5G2	MACOI_HUMAN	transmembrane protein 57	584						axon|integral to membrane|neuron projection terminus|nuclear membrane|synapse part					0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00715)|all_lung(284;0.00989)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.201)		UCEC - Uterine corpus endometrioid carcinoma (279;0.042)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-26)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|GBM - Glioblastoma multiforme(114;0.0191)|READ - Rectum adenocarcinoma(331;0.0649)		ACCTGTTCTCCGCACTGGGCG	0.552													19	43					0	0	0.010504	0	0		T	25818035	T	T	25818035	2	4	140	1	0	0	0	0	0	0	0	1	16209	639	23	1		1	TMEM57	1	25818035	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2915011	25818035	223432586	15	75005											
ARID1A	8289	broad.mit.edu	37	chr1	27088682	27088682	+	Frame_Shift_Del	DEL	C	-	-																															ccagatgccccagtacagttCcccccagcccggctcagcct																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:27088682delC	uc001bmv.1	+	7	2664	c.2291delC	c.(2290-2292)TCCfs	p.S764fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.S764fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.S764fs|ARID1A_uc001bmw.1_Frame_Shift_Del_p.S381fs	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	764					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.Q766fs*67(1)|p.Q766fs*51(1)		ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CAGTACAGTTCCCCCCAGCCC	0.522			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								54	103	---	---	---	---						.	-	27088682	-	-	27088682	7	5	140	1	0	1	0	1	0	0	0	0	913	855	30	0	2317	0	ARID1A	1	27088682	Frame_Shift_Del	DEL	C	TCGA-CG-4465-01A-01D-1158-08	1270647	27088682	222161939	16	75006											
PTPRU	10076	broad.mit.edu	37	chr1	29606106	29606106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacctacctgttctccgtgCgggcccgcacaggcaaaggc	7	6	11	17	3	1	0	0	0	1	0	2	0	1	0	5	3	2	3	5	3	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:29606106C>T	uc001bru.2	+	10	1812	c.1702C>T	c.(1702-1704)CGG>TGG	p.R568W	PTPRU_uc001brv.2_Missense_Mutation_p.R568W|PTPRU_uc001brw.2_Missense_Mutation_p.R568W|PTPRU_uc009vtq.2_Missense_Mutation_p.R568W|PTPRU_uc009vtr.2_Missense_Mutation_p.R568W	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	568	Extracellular (Potential).|Fibronectin type-III 3.				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GTTCTCCGTGCGGGCCCGCAC	0.622													5	222					0	0	0.001168	0	0		T	29606106	T	T	29606106	3	4	140	1	0	0	0	0	1	0	0	0	12838	759	27	1	1740	1	PTPRU	1	29606106	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2517424	29606106	219644515	17	75007											
GJB4	127534	broad.mit.edu	37	chr1	35227149	35227149	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgcacgtggcctaccgCgaggaacgcgagcgcaagca	10	4	14	13	6	1	0	1	0	0	0	1	3	1	1	2	2	5	3	2	2	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:35227149C>T	uc001bxv.1	+	2	664	c.294C>T	c.(292-294)CGC>CGT	p.R98R	GJB4_uc001bxw.3_Silent_p.R98R	NM_153212	NP_694944	Q9NTQ9	CXB4_HUMAN	gap junction protein, beta 4	98	Helical; (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity			ovary(2)|central_nervous_system(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				TGGCCTACCGCGAGGAACGCG	0.637													10	38					0	0	0.010729	0	0		T	35227149	T	T	35227149	2	4	140	1	0	0	0	0	0	0	0	1	6425	755	27	1		1	GJB4	1	35227149	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5621043	35227149	214023472	18	75008											
GRIK3	2899	broad.mit.edu	37	chr1	37270641	37270641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacaaactcgcccacggccaCcagcacagagaggaccagcc	13	1	9	18	2	0	1	0	0	0	1	1	3	0	2	5	2	3	1	5	2	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:37270641C>T	uc001caz.2	-	15	2647	c.2512G>A	c.(2512-2514)GTG>ATG	p.V838M	GRIK3_uc001cba.1_Missense_Mutation_p.V838M	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	838	Helical; (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	CCCACGGCCACCAGCACAGAG	0.577													21	50					0	0	0.014323	0	0		T	37270641	T	T	37270641	3	4	140	1	0	0	0	0	1	0	0	0	6791	507	18	4	255	4	GRIK3	1	37270641	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2043492	37270641	211979980	19	75009											
MYCL1	4610	broad.mit.edu	37	chr1	40366987	40366987	+	Frame_Shift_Del	DEL	G	-	-																															aagccccagggcggcgacgtGgggggcgatggcaccagctc																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:40366987delG	uc001cer.1	-	2	337	c.120delC	c.(118-120)CCCfs	p.P40fs	MYCL1_uc001ces.1_Frame_Shift_Del_p.P40fs|MYCL1_uc001cet.1_Frame_Shift_Del_p.P40fs	NM_001033082	NP_001028254	P12524	MYCL1_HUMAN	l-myc-1 proto-oncogene isoform 1	40						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|liver(1)	2	all_cancers(7;1.73e-14)|all_lung(5;2.77e-17)|all_epithelial(6;6.81e-17)|Lung SC(1;2.85e-13)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.51e-19)|Epithelial(16;3.36e-18)|all cancers(16;8.43e-17)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			GCGGCGACGTGGGGGGCGATG	0.687			A		small cell lung 								8	14	---	---	---	---						.	-	40366987	-	-	40366987	7	5	140	1	0	1	0	1	0	0	0	0	10038	1335	47	0	1107	0	MYCL1	1	40366987	Frame_Shift_Del	DEL	G	TCGA-CG-4465-01A-01D-1158-08	3096346	40366987	208883634	20	75010											
HIVEP3	59269	broad.mit.edu	37	chr1	41976128	41976128	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagttggagagaggctaagcGttggggggaaccctgtcctc	8	8	16	9	1	0	1	0	0	0	1	2	4	1	3	2	5	2	3	2	5	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:41976128G>A	uc001cgz.3	-	9	8428	c.7215C>T	c.(7213-7215)AAC>AAT	p.N2405N	HIVEP3_uc001cha.3_Silent_p.N2404N|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	2405					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				GAGGCTAAGCGTTGGGGGGAA	0.602													3	10					0	0	0.004672	0	0		A	41976128	A	A	41976128	2	1	140	1	0	0	0	0	0	0	0	1	7204	1136	40	1		1	HIVEP3	1	41976128	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1609141	41976128	207274493	21	75011											
ATP6V0B	533	broad.mit.edu	37	chr1	44442008	44442008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggctcctccatcattggtGgaggagtgaaggcccccagg	7	7	14	13	1	1	1	1	1	0	0	3	3	3	3	5	6	0	1	5	6	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:44442008G>A	uc001cld.2	+	4	346	c.235G>A	c.(235-237)GGA>AGA	p.G79R	ATP6V0B_uc001clc.2_Missense_Mutation_p.G79R|ATP6V0B_uc001cle.2_Missense_Mutation_p.G32R|ATP6V0B_uc001clf.2_Missense_Mutation_p.G32R|B4GALT2_uc001clg.2_5'Flank|B4GALT2_uc001clh.2_5'Flank	NM_004047	NP_004038	Q99437	VATO_HUMAN	ATPase, H+ transporting, lysosomal 21kDa, V0	79	Lumenal (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|proton-transporting V-type ATPase, V0 domain|vacuolar membrane	hydrogen ion transmembrane transporter activity			breast(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				CATCATTGGTGGAGGAGTGAA	0.537													22	43					0	0	0.021523	0	0		A	44442008	A	A	44442008	3	1	140	1	0	0	0	0	1	0	0	0	1172	1349	47	4	249	4	ATP6V0B	1	44442008	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2465880	44442008	204808613	22	75012											
POMGNT1	55624	broad.mit.edu	37	chr1	46660558	46660558	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtgtccctccagcccaGggcagggccagcctggctgc	5	6	13	17	0	0	0	0	0	0	0	2	0	2	0	6	3	3	2	6	3	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:46660558G>T	uc001cpe.2	-	7	774	c.610C>A	c.(610-612)CTG>ATG	p.L204M	POMGNT1_uc010olx.1_Missense_Mutation_p.L182M|POMGNT1_uc010oly.1_RNA|POMGNT1_uc010olz.1_Missense_Mutation_p.L61M|POMGNT1_uc001cpg.2_Missense_Mutation_p.L204M|POMGNT1_uc001cpf.2_Intron|POMGNT1_uc001cph.1_5'Flank|POMGNT1_uc001cpi.1_5'Flank	NM_017739	NP_060209	Q8WZA1	PMGT1_HUMAN	O-linked mannose	204	Lumenal (Potential).				protein N-linked glycosylation|protein O-linked glycosylation	Golgi membrane|integral to membrane|microsome	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CTCCAGCCCAGGGCAGGGCCA	0.627													74	188					2.20581e-54	2.59586e-54	0.01441	1	0		T	46660558	T	T	46660558	3	4	140	1	0	0	0	0	1	0	0	0	12262	991	35	5	1436	5	POMGNT1	1	46660558	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2218550	46660558	202590063	23	75013											
CYP4X1	260293	broad.mit.edu	37	chr1	47489571	47489571	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctggccctggggctgctgCaggccattaagctgtacctg	5	9	14	13	0	0	0	0	0	0	0	0	0	0	0	4	4	4	5	4	4	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:47489571C>T	uc001cqt.2	+	1	332	c.82C>T	c.(82-84)CAG>TAG	p.Q28*	CYP4X1_uc001cqr.2_Intron|CYP4X1_uc001cqs.2_Intron	NM_178033	NP_828847	Q8N118	CP4X1_HUMAN	cytochrome P450, family 4, subfamily X,	28						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2						GGGGCTGCTGCAGGCCATTAA	0.652													22	44					0	0	0.010818	0	0		T	47489571	T	T	47489571	4	4	140	1	0	0	0	0	0	1	0	0	4196	711	25	2	84	2	CYP4X1	1	47489571	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	829013	47489571	201761050	24	75014											
FAM159A	348378	broad.mit.edu	37	chr1	53122577	53122577	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgaacccgcagctggagagCaatgaggggcaggctgtgaa	11	6	16	8	1	0	4	0	3	0	1	0	5	0	4	1	4	3	5	1	4	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:53122577C>T	uc001cuf.2	+	3	538	c.438C>T	c.(436-438)AGC>AGT	p.S146S	FAM159A_uc001cug.1_Intron|FAM159A_uc001cuh.2_Intron	NM_001042693	NP_001036158	Q6UWV7	F159A_HUMAN	hypothetical protein LOC348378	146						integral to membrane					0						AGCTGGAGAGCAATGAGGGGC	0.577													65	120					0	0	0.01441	0	0		T	53122577	T	T	53122577	2	4	140	1	0	0	0	0	0	0	0	1	5479	709	25	2		2	FAM159A	1	53122577	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5633006	53122577	196128044	25	75015											
ECHDC2	55268	broad.mit.edu	37	chr1	53370323	53370323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagctgtcaccacacctgggGcaggatctcctgggccagtg	7	7	14	13	0	2	0	1	0	1	0	3	2	2	1	4	4	1	2	4	4	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:53370323G>A	uc001cup.3	-	7	943	c.697C>T	c.(697-699)CCC>TCC	p.P233S	ECHDC2_uc001cun.2_Missense_Mutation_p.P156S|ECHDC2_uc001cuo.3_Missense_Mutation_p.P202S|ECHDC2_uc010onk.1_Missense_Mutation_p.P187S	NM_018281	NP_060751	Q86YB7	ECHD2_HUMAN	enoyl Coenzyme A hydratase domain containing 2	233					fatty acid metabolic process	mitochondrion	lyase activity			central_nervous_system(1)	1						CACACCTGGGGCAGGATCTCC	0.667													6	23					0	0	0.00308	0	0		A	53370323	A	A	53370323	3	1	140	1	0	0	0	0	1	0	0	0	4900	1203	42	2	197	2	ECHDC2	1	53370323	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	247746	53370323	195880298	26	75016											
AK5	26289	broad.mit.edu	37	chr1	78001620	78001620	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagccggagcagcctgcCtgtggacgacaccaccaaga	12	3	13	13	2	0	1	0	0	0	1	0	5	0	4	5	3	4	1	5	3	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:78001620C>A	uc001dhn.2	+	13	1774	c.1517C>A	c.(1516-1518)CCT>CAT	p.P506H	AK5_uc001dho.2_Missense_Mutation_p.P480H	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	506					ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						AGCAGCCTGCCTGTGGACGAC	0.572													20	29					8.10497e-08	8.6304e-08	0.010504	1	0		A	78001620	A	A	78001620	3	1	140	1	0	0	0	0	1	0	0	0	443	681	24	5	1567	5	AK5	1	78001620	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	24631297	78001620	171249001	27	75017											
ZZZ3	26009	broad.mit.edu	37	chr1	78098938	78098938	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagagatttcttcaggatgCgcaatgctacgattccttaa	12	12	9	8	2	2	1	1	0	1	1	3	5	3	2	1	1	3	2	1	1	4	5	rs143272664	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:78098938C>T	uc001dhq.2	-	5	578	c.102G>A	c.(100-102)GCG>GCA	p.A34A	ZZZ3_uc001dhr.2_Intron|ZZZ3_uc009wbz.1_Silent_p.A34A|ZZZ3_uc001dhp.2_Silent_p.A34A	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	34					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						CTTCAGGATGCGCAATGCTAC	0.418													72	144					0	0	0.01441	0	0		T	78098938	T	T	78098938	2	4	140	1	0	0	0	0	0	0	0	1	18281	755	27	1		1	ZZZ3	1	78098938	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	97318	78098938	171151683	28	75018											
BRDT	676	broad.mit.edu	37	chr1	92445140	92445140	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacaggatgttttcgaaacGcatttttcaaagatcccgat	12	14	7	8	3	1	1	1	0	0	1	3	4	2	2	1	1	2	2	1	1	3	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:92445140G>A	uc001dok.3	+	8	1462	c.1113G>A	c.(1111-1113)ACG>ACA	p.T371T	BRDT_uc001dol.3_Silent_p.T371T|BRDT_uc010osz.1_Silent_p.T375T|BRDT_uc009wdf.2_Silent_p.T298T|BRDT_uc010ota.1_Silent_p.T325T|BRDT_uc010otb.1_Silent_p.T325T|BRDT_uc001dom.3_Silent_p.T371T	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	371					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		TTTTCGAAACGCATTTTTCAA	0.323													10	110					0	0	0.010729	0	0		A	92445140	A	A	92445140	2	1	140	1	0	0	0	0	0	0	0	1	1511	1074	38	1		1	BRDT	1	92445140	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	14346202	92445140	156805481	29	75019											
MTF2	22823	broad.mit.edu	37	chr1	93602291	93602291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctgcaataccacatttgCggagaagaagaggtcgtctt	11	10	11	9	2	1	3	0	0	1	3	2	4	1	3	1	2	4	2	1	2	4	3	rs1046801		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:93602291C>T	uc009wdj.2	+	15	1781	c.1489C>T	c.(1489-1491)CGG>TGG	p.R497W	MTF2_uc010oth.1_Missense_Mutation_p.R395W|MTF2_uc009wdk.2_Missense_Mutation_p.R440W|MTF2_uc001dpi.3_Missense_Mutation_p.R224W|MTF2_uc010oti.1_Missense_Mutation_p.R395W|MTF2_uc001dpj.3_Missense_Mutation_p.R395W|MTF2_uc001dpl.3_Missense_Mutation_p.R395W|MTF2_uc001dpm.3_Missense_Mutation_p.R166W	NM_007358	NP_031384	Q9Y483	MTF2_HUMAN	metal response element binding transcription	497						nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_lung(203;0.00196)|Lung NSC(277;0.00902)|Melanoma(281;0.099)|Ovarian(761;0.109)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00076)|GBM - Glioblastoma multiforme(16;0.00157)|Epithelial(280;0.0886)		ACCACATTTGCGGAGAAGAAG	0.423													47	110					0	0	0.01441	0	0		T	93602291	T	T	93602291	3	4	140	1	0	0	0	0	1	0	0	0	9941	759	27	1	1547	1	MTF2	1	93602291	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1157151	93602291	155648330	30	75020											
DNTTIP2	30836	broad.mit.edu	37	chr1	94342747	94342747	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctcagaaagagatcttgcTtgtaaatgggaagtttgtct	12	14	10	5	0	3	2	1	0	3	2	4	4	3	3	0	1	1	3	0	1	4	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:94342747T>C	uc001dqf.2	-	2	782	c.744A>G	c.(742-744)CAA>CAG	p.Q248Q	DNTTIP2_uc010otm.1_RNA|DNTTIP2_uc009wdo.1_Silent_p.Q43Q	NM_014597	NP_055412	Q5QJE6	TDIF2_HUMAN	deoxynucleotidyltransferase, terminal,	248					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_lung(203;0.0111)|Lung NSC(277;0.0347)		all cancers(265;0.00679)|GBM - Glioblastoma multiforme(16;0.0278)|Epithelial(280;0.128)		GAGATCTTGCTTGTAAATGGG	0.348													5	176					0	0	0.001168	0	0		C	94342747	C	C	94342747	2	2	140	1	0	0	0	0	0	0	0	1	4688	1606	56	3		3	DNTTIP2	1	94342747	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	740456	94342747	154907874	31	75021											
DBT	1629	broad.mit.edu	37	chr1	100696362	100696362	+	Frame_Shift_Del	DEL	T	-	-																															tcgtctagattataatagagTtttttaatgactccatcata																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:100696362delT	uc001dta.2	-	4	393	c.360delA	c.(358-360)AAAfs	p.K120fs	DBT_uc010oug.1_5'UTR	NM_001918	NP_001909	P11182	ODB2_HUMAN	dihydrolipoamide branched chain transacylase	120	Lipoyl-binding.				branched chain family amino acid catabolic process|fatty-acyl-CoA biosynthetic process	microtubule cytoskeleton|mitochondrial alpha-ketoglutarate dehydrogenase complex|mitochondrial nucleoid	acyltransferase activity|cofactor binding|dihydrolipoyllysine-residue (2-methylpropanoyl)transferase activity|protein binding			pancreas(1)	1		all_epithelial(167;5.4e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0739)|all cancers(265;0.123)|COAD - Colon adenocarcinoma(174;0.154)|Lung(183;0.199)		TATAATAGAGTTTTTTAATGA	0.343													34	61	---	---	---	---						.	-	100696362	-	-	100696362	7	5	140	1	0	1	0	1	0	0	0	0	4261	1722	60	0	1120	0	DBT	1	100696362	Frame_Shift_Del	DEL	T	TCGA-CG-4465-01A-01D-1158-08	6353615	100696362	148554259	32	75022											
CDC14A	8556	broad.mit.edu	37	chr1	100856294	100856294	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctctttctagtcatacAgtttgtcaagaaagaaaata	14	14	5	8	0	5	2	2	0	3	2	6	2	5	2	1	0	1	1	1	0	7	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:100856294A>G	uc001dtg.3	+	4	711	c.223A>G	c.(223-225)AGT>GGT	p.S75G	CDC14A_uc009web.2_RNA|CDC14A_uc010oui.1_Missense_Mutation_p.S17G|CDC14A_uc001dte.3_Missense_Mutation_p.S75G|CDC14A_uc001dtf.2_Missense_Mutation_p.S75G|CDC14A_uc009wed.1_5'UTR|CDC14A_uc009wee.2_Missense_Mutation_p.S75G|CDC14A_uc009wec.1_Missense_Mutation_p.S75G	NM_003672	NP_003663	Q9UNH5	CC14A_HUMAN	CDC14 homolog A isoform 1	75	A.				cell cycle|cell division|cell proliferation	centrosome|nucleus|spindle	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			large_intestine(1)	1		all_epithelial(167;3.71e-06)|all_lung(203;0.00097)|Lung NSC(277;0.001)		Epithelial(280;0.0676)|all cancers(265;0.127)|COAD - Colon adenocarcinoma(174;0.201)|Lung(183;0.227)|Colorectal(144;0.241)		CTAGTCATACAGTTTGTCAAG	0.368													24	40					0	0	0.021523	0	0		G	100856294	G	G	100856294	3	3	140	1	0	0	0	0	1	0	0	0	3059	188	7	3	237	3	CDC14A	1	100856294	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	159932	100856294	148394327	33	75023											
COL11A1	1301	broad.mit.edu	37	chr1	103379199	103379199	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcatttactcaccggttgAccaggatctccatcttcacc	8	12	7	14	1	4	1	2	1	2	0	5	2	4	2	4	2	2	2	4	2	1	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:103379199A>C	uc001dul.2	-	53	4344	c.4026T>G	c.(4024-4026)GGT>GGG	p.G1342G	COL11A1_uc001duk.2_Silent_p.G538G|COL11A1_uc001dum.2_Silent_p.G1354G|COL11A1_uc001dun.2_Silent_p.G1303G|COL11A1_uc009weh.2_Silent_p.G1226G	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1342	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TCACCGGTTGACCAGGATCTC	0.338													51	134					0	0	0.01441	0	0		C	103379199	C	C	103379199	2	2	140	1	0	0	0	0	0	0	0	1	3670	262	10	5		5	COL11A1	1	103379199	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	2522905	103379199	145871422	34	75024											
NTNG1	22854	broad.mit.edu	37	chr1	107937799	107937799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtgtaatctccatgccaCtgtatgtgtgtatgacaaca	12	12	8	9	0	1	1	0	1	1	0	2	1	1	1	2	0	2	3	2	0	5	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:107937799C>T	uc001dvh.3	+	4	1629	c.911C>T	c.(910-912)ACT>ATT	p.T304I	NTNG1_uc001dvf.3_Missense_Mutation_p.T304I|NTNG1_uc010out.1_Missense_Mutation_p.T304I|NTNG1_uc001dvc.3_Missense_Mutation_p.T304I|NTNG1_uc001dvi.2_5'UTR|NTNG1_uc001dve.2_RNA|NTNG1_uc009wek.2_RNA|NTNG1_uc001dvg.2_RNA|NTNG1_uc009wem.2_5'UTR|NTNG1_uc001dvd.1_Missense_Mutation_p.T304I	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	304	Laminin EGF-like 1.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		CTCCATGCCACTGTATGTGTG	0.468													66	157					0	0	0.01441	0	0		T	107937799	T	T	107937799	3	4	140	1	0	0	0	0	1	0	0	0	10723	565	20	4	921	4	NTNG1	1	107937799	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4558600	107937799	141312822	35	75025											
EPS8L3	79574	broad.mit.edu	37	chr1	110302334	110302334	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagctgcagccagccgTccctgacctgcaggatcaag	9	5	11	16	1	1	1	1	1	0	0	2	2	2	2	5	1	6	4	5	1	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:110302334T>G	uc001dyr.1	-	4	366	c.221A>C	c.(220-222)GAC>GCC	p.D74A	EPS8L3_uc001dys.1_Missense_Mutation_p.D74A|EPS8L3_uc001dyq.1_Missense_Mutation_p.D74A|EPS8L3_uc009wfm.1_Missense_Mutation_p.D40A|EPS8L3_uc009wfn.1_Missense_Mutation_p.D40A|EPS8L3_uc009wfo.1_Intron	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	74						cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		CAGCCAGCCGTCCCTGACCTG	0.602													6	59					0	0	0.001984	0	0		G	110302334	G	G	110302334	3	3	140	1	0	0	0	0	1	0	0	0	5205	1667	58	5	1627	5	EPS8L3	1	110302334	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	2364535	110302334	138948287	36	75026											
ALX3	257	broad.mit.edu	37	chr1	110603359	110603359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtccatgcaaccgatcacGtggtccagttcagaaggccg	10	7	12	12	3	2	1	2	0	0	1	4	2	4	1	4	3	2	2	4	3	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:110603359G>A	uc001dzb.2	-	4	1116	c.1028C>T	c.(1027-1029)ACG>ATG	p.T343M		NM_006492	NP_006483	O95076	ALX3_HUMAN	aristaless-like homeobox 3	343						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(81;2.35e-05)|all_epithelial(167;7.69e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.015)|all cancers(265;0.0706)|Epithelial(280;0.0758)|Colorectal(144;0.113)|LUSC - Lung squamous cell carcinoma(189;0.135)		AACCGATCACGTGGTCCAGTT	0.577													28	59					0	0	0.00632	0	0		A	110603359	A	A	110603359	3	1	140	1	0	0	0	0	1	0	0	0	557	1145	40	1	7	1	ALX3	1	110603359	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	301025	110603359	138647262	37	75027											
CEPT1	10390	broad.mit.edu	37	chr1	111726093	111726093	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttattcataggttgcacacAtgacgaaaagtgaaatgcat	15	12	8	6	1	1	2	1	2	0	0	1	3	1	2	0	1	2	3	0	1	5	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:111726093A>G	uc001eah.1	+	8	1223	c.1015A>G	c.(1015-1017)ATG>GTG	p.M339V	CEPT1_uc001eai.1_Missense_Mutation_p.M339V|CEPT1_uc001eaj.1_Missense_Mutation_p.M339V|CEPT1_uc009wfz.1_Missense_Mutation_p.M73V	NM_001007794	NP_001007795	Q9Y6K0	CEPT1_HUMAN	choline/ethanolaminephosphotransferase	339						endoplasmic reticulum membrane|integral to membrane|nuclear membrane	diacylglycerol cholinephosphotransferase activity|ethanolaminephosphotransferase activity|metal ion binding				0		all_cancers(81;2.27e-05)|all_epithelial(167;7.36e-06)|all_lung(203;0.00018)|Lung NSC(277;0.000359)		Lung(183;0.0173)|Colorectal(144;0.0375)|all cancers(265;0.0701)|LUSC - Lung squamous cell carcinoma(189;0.0888)|Epithelial(280;0.103)|COAD - Colon adenocarcinoma(174;0.141)	Choline(DB00122)	GGTTGCACACATGACGAAAAG	0.353													56	110					0	0	0.01441	0	0		G	111726093	G	G	111726093	3	3	140	1	0	0	0	0	1	0	0	0	3267	217	8	3	1041	3	CEPT1	1	111726093	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1122734	111726093	137524528	38	75028											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150531794	150531794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtggctctggcacacagcGtagagacatcatctgtgtat	10	11	11	9	1	3	1	1	0	2	1	3	2	3	1	0	2	1	4	0	2	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:150531794G>A	uc001eux.2	+	17	3031	c.2795G>A	c.(2794-2796)CGT>CAT	p.R932H	ADAMTSL4_uc009wlw.2_Missense_Mutation_p.R955H|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.R893H|ADAMTSL4_uc009wlx.2_Missense_Mutation_p.R95H	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	932	TSP type-1 5.				apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			GGCACACAGCGTAGAGACATC	0.602											OREG0013787	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	54					0	0	0.004656	0	0		A	150531794	A	A	150531794	3	1	140	1	0	0	0	0	1	0	0	0	277	1145	40	1	2928	1	ADAMTSL4	1	150531794	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	38805701	150531794	98718827	39	75029											
TCHH	7062	broad.mit.edu	37	chr1	152081704	152081704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtctgtctcttgacggCgtctcttctcttctctttcc	1	20	6	14	2	6	1	0	1	6	0	11	1	7	1	1	1	0	0	1	1	0	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:152081704C>T	uc001ezp.2	-	2	3989	c.3989G>A	c.(3988-3990)CGC>CAC	p.R1330H	TCHH_uc009wne.1_Missense_Mutation_p.R1330H	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1330	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTCTTGACGGCGTCTCTTCTC	0.547													101	243					0	0	0.01441	0	0		T	152081704	T	T	152081704	3	4	140	1	0	0	0	0	1	0	0	0	15725	768	27	1	1846	1	TCHH	1	152081704	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1549910	152081704	97168917	40	75030											
HRNR	388697	broad.mit.edu	37	chr1	152186045	152186045	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacagaagagtgacccaagCgagactcatatgggccacgg	14	4	13	10	2	1	5	1	1	0	4	1	6	1	5	2	2	1	0	2	2	3	1	rs143834557		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:152186045C>G	uc001ezt.1	-	3	8136	c.8060G>C	c.(8059-8061)CGC>CCC	p.R2687P		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2687	29.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTGACCCAAGCGAGACTCATA	0.582													70	43					0	0	0.01441	0	0		G	152186045	G	G	152186045	3	3	140	1	0	0	0	0	1	0	0	0	7375	768	27	5	496	5	HRNR	1	152186045	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	104341	152186045	97064576	41	75031											
SLC27A3	11000	broad.mit.edu	37	chr1	153751246	153751246	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagagctggcccaggggAagttgctaaaggatgtcttc	9	8	15	9	0	1	1	0	0	1	1	2	3	1	3	2	5	2	3	2	5	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:153751246A>G	uc001fcz.2	+	7	1737	c.1672A>G	c.(1672-1674)AAG>GAG	p.K558E	SLC27A3_uc009won.2_RNA	NM_024330	NP_077306	Q5K4L6	S27A3_HUMAN	solute carrier family 27 member 3	558					fatty acid metabolic process	integral to membrane|mitochondrial membrane	ligase activity|nucleotide binding			ovary(1)	1	all_lung(78;6.47e-32)|Lung NSC(65;2.52e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GGCCCAGGGGAAGTTGCTAAA	0.607													19	43					0	0	0.012319	0	0		G	153751246	G	G	153751246	3	3	140	1	0	0	0	0	1	0	0	0	14552	247	9	3	1698	3	SLC27A3	1	153751246	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1565201	153751246	95499375	42	75032											
ATP8B2	57198	broad.mit.edu	37	chr1	154313343	154313343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcagtgtggaggtcatcCgtctgggccacagctacttc	6	11	13	11	1	2	0	1	0	1	0	4	1	3	1	2	3	3	2	2	3	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:154313343C>T	uc001fex.2	+	13	1147	c.1147C>T	c.(1147-1149)CGT>TGT	p.R383C		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	369	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GGAGGTCATCCGTCTGGGCCA	0.602													51	116					0	0	0.01441	0	0		T	154313343	T	T	154313343	3	4	140	1	0	0	0	0	1	0	0	0	1196	652	23	1	1327	1	ATP8B2	1	154313343	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	562097	154313343	94937278	43	75033											
C1orf85	112770	broad.mit.edu	37	chr1	156264188	156264188	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccattggcaaaagtccTggtagggtcgttcatggggt	7	11	15	8	1	1	0	1	0	0	0	3	0	2	0	2	5	1	4	2	5	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:156264188T>C	uc001foh.2	-	3	560	c.547A>G	c.(547-549)AGG>GGG	p.R183G	C1orf85_uc001fof.3_5'Flank|C1orf85_uc001fog.1_Intron|C1orf85_uc001foi.2_Missense_Mutation_p.R183G|C1orf85_uc009wrx.2_Intron|C1orf85_uc001foj.2_Missense_Mutation_p.R97G	NM_144580	NP_653181	Q8WWB7	NCUG1_HUMAN	kidney predominant protein NCU-G1 precursor	183	Lumenal (Potential).				positive regulation of transcription from RNA polymerase II promoter	cytosol|integral to membrane|lysosomal membrane|nucleus	ligand-dependent nuclear receptor activity|protein binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2	Hepatocellular(266;0.158)					GCAAAAGTCCTGGTAGGGTCG	0.502													24	54					0	0	0.021523	0	0		C	156264188	C	C	156264188	3	2	140	1	0	0	0	0	1	0	0	0	2065	1579	55	3	689	3	C1orf85	1	156264188	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	1950845	156264188	92986433	44	75034											
ARHGEF11	9826	broad.mit.edu	37	chr1	156906671	156906671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagctaggggctccttagCgggaggtgagagggagccat	10	6	18	7	1	0	2	0	1	0	2	1	5	1	4	2	5	3	2	2	5	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:156906671C>T	uc001fqo.2	-	39	5487	c.4447G>A	c.(4447-4449)GCT>ACT	p.A1483T	ARHGEF11_uc010phu.1_Missense_Mutation_p.A899T|ARHGEF11_uc001fqn.2_Missense_Mutation_p.A1523T|MIR765_hsa-mir-765|MI0005116_5'Flank	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	1483					actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GGCTCCTTAGCGGGAGGTGAG	0.597													65	104					0	0	0.01441	0	0		T	156906671	T	T	156906671	3	4	140	1	0	0	0	0	1	0	0	0	896	768	27	1	129	1	ARHGEF11	1	156906671	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	642483	156906671	92343950	45	75035											
CD1D	912	broad.mit.edu	37	chr1	158152853	158152853	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgagacatggtatctccgaGcaaccctggatgtggtggct	9	9	13	10	2	1	1	0	0	1	1	2	4	1	2	2	4	2	3	2	4	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:158152853G>A	uc001frr.2	+	5	1292	c.793G>A	c.(793-795)GCA>ACA	p.A265T	CD1D_uc009wss.2_Intron	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	265	Ig-like.|Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					GTATCTCCGAGCAACCCTGGA	0.607													39	64					0	0	0.01441	0	0		A	158152853	A	A	158152853	3	1	140	1	0	0	0	0	1	0	0	0	2980	971	34	2	807	2	CD1D	1	158152853	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1246182	158152853	91097768	46	75036											
OR10R2	343406	broad.mit.edu	37	chr1	158449945	158449945	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaacatctgagaccttctAcacctttgtcattctaccca	10	13	3	15	0	5	1	2	1	3	1	5	2	5	1	3	0	3	0	3	0	3	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:158449945A>G	uc010pik.1	+	1	278	c.278A>G	c.(277-279)TAC>TGC	p.Y93C	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	93	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					GAGACCTTCTACACCTTTGTC	0.438													24	356					0	0	0.016522	0	0		G	158449945	G	G	158449945	3	3	140	1	0	0	0	0	1	0	0	0	10936	391	14	3	280	3	OR10R2	1	158449945	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	297092	158449945	90800676	47	75037											
PVRL4	81607	broad.mit.edu	37	chr1	161047443	161047443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaggtcacgctgggggctGggctgccctcagctgtgcag	4	7	16	14	1	2	0	2	0	0	0	2	0	2	0	2	4	3	5	2	4	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:161047443G>A	uc001fxo.2	-	3	829	c.530C>T	c.(529-531)CCA>CTA	p.P177L	PVRL4_uc010pjz.1_5'Flank	NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	177	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			GCTGGGGGCTGGGCTGCCCTC	0.637													18	46					0	0	0.012319	0	0		A	161047443	A	A	161047443	3	1	140	1	0	0	0	0	1	0	0	0	12867	1348	47	4	1030	4	PVRL4	1	161047443	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2597498	161047443	88203178	48	75038											
DDR2	4921	broad.mit.edu	37	chr1	162749971	162749971	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcagctgctggagaagaGatacgaagaaccgtccctca	12	7	11	11	2	2	3	2	0	0	3	3	6	3	3	2	1	5	3	2	1	4	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:162749971G>T	uc001gcf.2	+	19	2968	c.2503G>T	c.(2503-2505)GAT>TAT	p.D835Y	DDR2_uc001gcg.2_Missense_Mutation_p.D835Y|uc001gch.1_5'Flank	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	835	Cytoplasmic (Potential).|Protein kinase.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			CTGGAGAAGAGATACGAAGAA	0.483													92	187					3.29526e-42	3.86617e-42	0.01441	1	0		T	162749971	T	T	162749971	3	4	140	1	0	0	0	0	1	0	0	0	4340	942	33	5	2565	5	DDR2	1	162749971	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1702528	162749971	86500650	49	75039											
MAEL	84944	broad.mit.edu	37	chr1	166990949	166990949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctggccaaaacagcagcGttcggggaagaggaattacc	12	8	12	9	2	1	1	0	0	1	1	2	3	1	3	2	4	4	2	2	4	5	3	rs141476246	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:166990949G>A	uc001gdy.1	+	12	1233	c.1162G>A	c.(1162-1164)GTT>ATT	p.V388I	MAEL_uc001gdz.1_Missense_Mutation_p.V357I|MAEL_uc009wvf.1_RNA	NM_032858	NP_116247	Q96JY0	MAEL_HUMAN	maelstrom homolog	388					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|multicellular organismal development|piRNA metabolic process|spermatogenesis	piP-body	DNA binding			skin(1)	1						AAACAGCAGCGTTCGGGGAAG	0.378													4	108					0	0	0.001168	0	0		A	166990949	A	A	166990949	3	1	140	1	0	0	0	0	1	0	0	0	9172	1145	40	1	1208	1	MAEL	1	166990949	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	4240978	166990949	82259672	50	75040											
BAT2L2	23215	broad.mit.edu	37	chr1	171557571	171557571	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaatgaacagcattgtctAccagaagcagttccagtcag	15	8	8	10	0	2	2	1	1	1	1	3	2	3	2	2	0	4	3	2	0	5	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:171557571A>G	uc010pmg.1	+	33	8386	c.8120A>G	c.(8119-8121)TAC>TGC	p.Y2707C	BAT2L2_uc010pmh.1_Missense_Mutation_p.Y1619C|BAT2L2_uc010pmi.1_Missense_Mutation_p.Y544C|BAT2L2_uc010pmj.1_Missense_Mutation_p.Y239C	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	2707							protein C-terminus binding				0						AGCATTGTCTACCAGAAGCAG	0.443													19	40					0	0	0.016522	0	0		G	171557571	G	G	171557571	3	3	140	1	0	0	0	0	1	0	0	0	1322	391	14	3	8138	3	BAT2L2	1	171557571	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	4566622	171557571	77693050	51	75041											
CENPL	91687	broad.mit.edu	37	chr1	173776423	173776423	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggacaagaaatgcttcCgggtccctttgtgttccttt	7	14	9	11	1	0	1	0	0	0	1	3	2	3	2	4	2	1	2	4	2	2	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:173776423C>T	uc001gje.3	-	3	616	c.402G>A	c.(400-402)CCG>CCA	p.P134P	CENPL_uc009wwg.2_Silent_p.P8P|CENPL_uc001gjg.3_Silent_p.P134P|CENPL_uc001gjf.3_Silent_p.P134P	NM_033319	NP_201576	Q8N0S6	CENPL_HUMAN	centromere protein L isoform 2	134					mitotic prometaphase	chromosome, centromeric region|cytosol|nucleus					0						GAAATGCTTCCGGGTCCCTTT	0.363													26	48					0	0	0.004656	0	0		T	173776423	T	T	173776423	2	4	140	1	0	0	0	0	0	0	0	1	3239	639	23	1		1	CENPL	1	173776423	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2218852	173776423	75474198	52	75042											
TNN	63923	broad.mit.edu	37	chr1	175067522	175067522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacagagaatatggccaCggtctcctgggacccggtgc	8	7	15	11	2	1	2	0	1	1	1	2	4	1	3	3	5	1	0	3	5	2	1	rs144603425	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:175067522C>T	uc001gkl.1	+	9	2023	c.1910C>T	c.(1909-1911)ACG>ATG	p.T637M	TNN_uc010pmx.1_Missense_Mutation_p.T548M	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	637	Fibronectin type-III 5.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		AATATGGCCACGGTCTCCTGG	0.557													43	82					0	0	0.00874	0	0		T	175067522	T	T	175067522	3	4	140	1	0	0	0	0	1	0	0	0	16348	536	19	1	1940	1	TNN	1	175067522	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1291099	175067522	74183099	53	75043											
RASAL2	9462	broad.mit.edu	37	chr1	178421736	178421736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgatgaccgcacatctcGgactctaactcttattgcca	9	12	6	14	2	3	2	0	2	3	0	5	3	4	3	3	1	2	1	3	1	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:178421736G>A	uc001glr.2	+	9	1639	c.1514G>A	c.(1513-1515)CGG>CAG	p.R505Q	RASAL2_uc001glq.2_Missense_Mutation_p.R653Q|RASAL2_uc009wxc.2_Missense_Mutation_p.R19Q	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	505	Ras-GAP.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						CGCACATCTCGGACTCTAACT	0.418													56	126					0	0	0.01441	0	0		A	178421736	A	A	178421736	3	1	140	1	0	0	0	0	1	0	0	0	13089	1116	39	1	2017	1	RASAL2	1	178421736	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3354214	178421736	70828885	54	75044											
SOAT1	6646	broad.mit.edu	37	chr1	179304653	179304653	+	Frame_Shift_Del	DEL	T	-	-																															aattctaggaattgaagccaTtttttatgaaggaagttggc																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:179304653delT	uc001gml.2	+	4	253	c.190delT	c.(190-192)TTTfs	p.F64fs	SOAT1_uc010pni.1_5'UTR|SOAT1_uc001gmm.2_Frame_Shift_Del_p.F6fs|SOAT1_uc010pnj.1_5'UTR|SOAT1_uc010pnk.1_5'UTR	NM_003101	NP_003092	P35610	SOAT1_HUMAN	sterol O-acyltransferase 1	64					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|cholesterol storage|macrophage derived foam cell differentiation|positive regulation of amyloid precursor protein biosynthetic process|very-low-density lipoprotein particle assembly	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			central_nervous_system(1)|skin(1)	2					Ezetimibe(DB00973)|Hesperetin(DB01094)	ATTGAAGCCATTTTTTATGAA	0.373													23	41	---	---	---	---						.	-	179304653	-	-	179304653	7	5	140	1	0	1	0	1	0	0	0	0	14935	1493	52	0	200	0	SOAT1	1	179304653	Frame_Shift_Del	DEL	T	TCGA-CG-4465-01A-01D-1158-08	882917	179304653	69945968	55	75045											
SOAT1	6646	broad.mit.edu	37	chr1	179310198	179310198	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcctcctgtcttatgcttTtggcaaatttcctaccgttg	6	16	7	12	1	1	0	0	0	1	0	3	0	3	0	4	1	3	3	4	1	3	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:179310198T>A	uc001gml.2	+	7	596	c.533T>A	c.(532-534)TTT>TAT	p.F178Y	SOAT1_uc010pni.1_Missense_Mutation_p.F113Y|SOAT1_uc001gmm.2_Missense_Mutation_p.F120Y|SOAT1_uc010pnj.1_Translation_Start_Site|SOAT1_uc010pnk.1_Missense_Mutation_p.F113Y	NM_003101	NP_003092	P35610	SOAT1_HUMAN	sterol O-acyltransferase 1	178					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|cholesterol storage|macrophage derived foam cell differentiation|positive regulation of amyloid precursor protein biosynthetic process|very-low-density lipoprotein particle assembly	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			central_nervous_system(1)|skin(1)	2					Ezetimibe(DB00973)|Hesperetin(DB01094)	TCTTATGCTTTTGGCAAATTT	0.423													7	156					0	0	0.004482	0	0		A	179310198	A	A	179310198	3	1	140	1	0	0	0	0	1	0	0	0	14935	1841	64	5	555	5	SOAT1	1	179310198	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	5545	179310198	69940423	56	75046											
CEP350	9857	broad.mit.edu	37	chr1	180063485	180063486	+	Frame_Shift_Ins	INS	-	A	A																															aaagtcaaaacaacaactggINSaaaaaatcagcttactgaca																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:180063485_180063486insA	uc001gnt.2	+	34	8628_8629	c.8245_8246insA	c.(8245-8247)GAAfs	p.E2749fs	CEP350_uc009wxl.2_Frame_Shift_Ins_p.E2748fs|CEP350_uc001gnv.2_Frame_Shift_Ins_p.E884fs|CEP350_uc001gnw.1_Frame_Shift_Ins_p.E506fs|CEP350_uc001gnx.1_Frame_Shift_Ins_p.E506fs	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	2749	Potential.					centrosome|nucleus|spindle				ovary(4)	4						ACAACAACTGGAAAAAATCAGC	0.356													16	20	---	---	---	---						.	A	180063486	A	A	180063485	7	5	140	1	0	1	1	0	0	0	0	0	3257	1175	41	0	8375	0	CEP350	1	180063485	Frame_Shift_Ins	INS	-	TCGA-CG-4465-01A-01D-1158-08	753287	180063485	69187136	57	75047											
ZNF648	127665	broad.mit.edu	37	chr1	182026670	182026670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgggacatccaagactGcgtcctggtttgcccccgag	6	9	14	12	2	0	1	0	0	0	1	2	3	2	2	4	3	2	1	4	3	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:182026670G>A	uc001goz.2	-	2	684	c.476C>T	c.(475-477)GCA>GTA	p.A159V		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	159					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATCCAAGACTGCGTCCTGGTT	0.537													26	54					0	0	0.005443	0	0		A	182026670	A	A	182026670	3	1	140	1	0	0	0	0	1	0	0	0	18088	1319	46	2	1234	2	ZNF648	1	182026670	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1963185	182026670	67223951	58	75048											
CFHR2	3080	broad.mit.edu	37	chr1	196927034	196927034	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttagtttctgcagaaaaAtgtgggccccctccacctat	9	14	7	11	0	1	1	0	0	1	1	2	1	2	1	4	1	1	2	4	1	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:196927034A>C	uc001gtq.1	+	4	521	c.444A>C	c.(442-444)AAA>AAC	p.K148N	CFHR2_uc001gtr.1_Missense_Mutation_p.K24N	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	148	Sushi 3.					extracellular region				skin(2)|ovary(1)	3						CTGCAGAAAAATGTGGGCCCC	0.378													38	86					0	0	0.007835	0	0		C	196927034	C	C	196927034	3	2	140	1	0	0	0	0	1	0	0	0	3288	98	4	5	458	5	CFHR2	1	196927034	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	14900364	196927034	52323587	59	75049											
LAD1	3898	broad.mit.edu	37	chr1	201358401	201358401	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcgcgctcctgttcctcCtcatcctccagagtcctctg	3	12	7	19	3	2	1	1	0	1	1	9	1	8	1	6	0	0	3	6	0	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:201358401C>T	uc001gwm.2	-	2	304	c.69G>A	c.(67-69)GAG>GAA	p.E23E	LAD1_uc009wzu.1_Silent_p.E45E	NM_005558	NP_005549	O00515	LAD1_HUMAN	ladinin 1	23						basement membrane	structural molecule activity				0						CCTGTTCCTCCTCATCCTCCA	0.682													21	38					0	0	0.014323	0	0		T	201358401	T	T	201358401	2	4	140	1	0	0	0	0	0	0	0	1	8615	680	24	4		4	LAD1	1	201358401	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4431367	201358401	47892220	60	75050											
IPO9	55705	broad.mit.edu	37	chr1	201842072	201842072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatgagggcatccgcacccGctctaagtcagccaaaagtg	11	6	12	12	2	2	1	1	1	1	0	3	2	3	2	3	2	1	3	3	2	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:201842072G>A	uc001gwz.2	+	20	2743	c.2693G>A	c.(2692-2694)CGC>CAC	p.R898H		NM_018085	NP_060555	Q96P70	IPO9_HUMAN	importin 9	898					protein import into nucleus	cytoplasm|nucleus	histone binding|protein transporter activity			ovary(2)	2						ATCCGCACCCGCTCTAAGTCA	0.532													20	29					0	0	0.014323	0	0		A	201842072	A	A	201842072	3	1	140	1	0	0	0	0	1	0	0	0	7815	1087	38	1	2771	1	IPO9	1	201842072	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	483671	201842072	47408549	61	75051											
ADIPOR1	51094	broad.mit.edu	37	chr1	202910745	202910745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgccttctaggccgtaacGgaattcctgaaggttggaga	9	9	13	10	3	1	2	0	1	1	1	2	4	2	3	4	4	1	2	4	4	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:202910745G>A	uc001gyq.3	-	8	1351	c.1084C>T	c.(1084-1086)CGT>TGT	p.R362C	ADIPOR1_uc010pqd.1_Missense_Mutation_p.R286C|ADIPOR1_uc001gyr.3_Missense_Mutation_p.R161C|ADIPOR1_uc001gys.3_Missense_Mutation_p.R362C	NM_015999	NP_057083	Q96A54	ADR1_HUMAN	adiponectin receptor 1	362	Extracellular (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane|plasma membrane	hormone binding|protein kinase binding|receptor activity				0			BRCA - Breast invasive adenocarcinoma(75;0.141)			AGGCCGTAACGGAATTCCTGA	0.493													19	81					0	0	0.012319	0	0		A	202910745	A	A	202910745	3	1	140	1	0	0	0	0	1	0	0	0	318	1116	39	1	47	1	ADIPOR1	1	202910745	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1068673	202910745	46339876	62	75052											
TMCC2	9911	broad.mit.edu	37	chr1	205238475	205238475	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctgcgggacatgcagcAggggctgaaggacgtgggcg	7	5	20	9	4	0	1	0	1	0	0	0	3	0	3	0	5	4	4	0	5	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:205238475A>C	uc001hbz.1	+	4	1589	c.1145A>C	c.(1144-1146)CAG>CCG	p.Q382P	TMCC2_uc010prf.1_Missense_Mutation_p.Q304P|TMCC2_uc001hca.2_Missense_Mutation_p.Q157P|TMCC2_uc001hcb.1_Missense_Mutation_p.Q142P|TMCC2_uc001hcc.1_Missense_Mutation_p.Q3P|TMCC2_uc001hcd.2_Missense_Mutation_p.Q149P	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	382						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			GACATGCAGCAGGGGCTGAAG	0.682													13	28					0	0	0.013537	0	0		C	205238475	C	C	205238475	3	2	140	1	0	0	0	0	1	0	0	0	16018	188	7	5	1155	5	TMCC2	1	205238475	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	2327730	205238475	44012146	63	75053											
IKBKE	9641	broad.mit.edu	37	chr1	206667321	206667321	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaacaaccgcatcatcgAacggtaaggagctttcacct	13	7	9	12	3	2	0	2	0	0	0	3	3	2	2	2	3	4	3	2	3	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:206667321A>G	uc001hdz.1	+	21	2482	c.2114A>G	c.(2113-2115)GAA>GGA	p.E705G	IKBKE_uc009xbv.1_3'UTR|IKBKE_uc001hea.1_Missense_Mutation_p.E620G	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	705					DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding			ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)					CGCATCATCGAACGGTAAGGA	0.597													18	57					0	0	0.014323	0	0		G	206667321	G	G	206667321	3	3	140	1	0	0	0	0	1	0	0	0	7628	246	9	3	2188	3	IKBKE	1	206667321	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1428846	206667321	42583300	64	75054											
LAMB3	3914	broad.mit.edu	37	chr1	209799111	209799111	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctaggatccgggaggccaGgccacggtcctccagcccag	8	5	13	15	2	1	0	0	0	1	0	4	2	4	2	6	5	1	0	6	5	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:209799111G>T	uc001hhg.2	-	13	2248	c.1858C>A	c.(1858-1860)CTG>ATG	p.L620M	LAMB3_uc009xco.2_Missense_Mutation_p.L620M|LAMB3_uc001hhh.2_Missense_Mutation_p.L620M|LAMB3_uc010psl.1_Intron|hsa-mir-4260|MI0015859_5'Flank	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	620	Domain II.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		CGGGAGGCCAGGCCACGGTCC	0.637													27	70					3.90053e-15	4.35775e-15	0.012213	1	0		T	209799111	T	T	209799111	3	4	140	1	0	0	0	0	1	0	0	0	8628	991	35	5	1700	5	LAMB3	1	209799111	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3131790	209799111	39451510	65	75055											
LAMB3	3914	broad.mit.edu	37	chr1	209800867	209800867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggcagacaaaggcagcgcCcactctcctcgtcacacggc	9	5	11	16	3	2	1	1	0	1	1	4	1	2	1	2	3	1	2	2	3	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:209800867C>T	uc001hhg.2	-	11	1736	c.1346G>A	c.(1345-1347)GGG>GAG	p.G449E	LAMB3_uc009xco.2_Missense_Mutation_p.G449E|LAMB3_uc001hhh.2_Missense_Mutation_p.G449E|LAMB3_uc010psl.1_RNA	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	449	Laminin EGF-like 4.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		AAGGCAGCGCCCACTCTCCTC	0.627											OREG0014217	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	49					0	0	0.020292	0	0		T	209800867	T	T	209800867	3	4	140	1	0	0	0	0	1	0	0	0	8628	623	22	4	2220	4	LAMB3	1	209800867	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1756	209800867	39449754	66	75056											
CENPF	1063	broad.mit.edu	37	chr1	214830442	214830442	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagagatgttagagacacaAgtggcccatctgtgttcaca	14	9	10	8	0	2	2	1	0	1	2	2	4	2	2	1	1	0	2	1	1	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:214830442A>T	uc001hkm.2	+	18	8826	c.8652A>T	c.(8650-8652)CAA>CAT	p.Q2884H		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2980	Potential.|Sufficient for nuclear localization.|Sufficient for centromere localization.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TAGAGACACAAGTGGCCCATC	0.428													86	170					0	0	0.01441	0	0		T	214830442	T	T	214830442	3	4	140	1	0	0	0	0	1	0	0	0	3234	69	3	5	8718	5	CENPF	1	214830442	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	5029575	214830442	34420179	67	75057											
CAPN2	824	broad.mit.edu	37	chr1	223954100	223954100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtcagatggcttcagcatCgagacatgcaaaattatggt	14	10	10	7	1	2	2	2	0	0	2	3	3	2	2	0	2	2	3	0	2	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:223954100C>T	uc001hob.3	+	16	1946	c.1722C>T	c.(1720-1722)ATC>ATT	p.I574I	CAPN2_uc010puy.1_Silent_p.I496I|CAPN2_uc001hoc.2_Silent_p.I155I	NM_001748	NP_001739	P17655	CAN2_HUMAN	calpain 2 isoform 1	574	Domain IV.|EF-hand 1.				proteolysis	cytoplasm|plasma membrane				lung(3)|breast(1)|skin(1)	5				GBM - Glioblastoma multiforme(131;0.109)		GCTTCAGCATCGAGACATGCA	0.343													10	75					0	0	0.003163	0	0		T	223954100	T	T	223954100	2	4	140	1	0	0	0	0	0	0	0	1	2630	874	31	1		1	CAPN2	1	223954100	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	9123658	223954100	25296521	68	75058											
WNT9A	7483	broad.mit.edu	37	chr1	228109556	228109556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagcttcattggtggtgctgCccaccttgagtgccgtctca	5	12	11	13	1	2	1	2	1	1	0	3	1	2	1	3	2	4	2	3	2	0	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:228109556C>T	uc001hri.2	-	4	849	c.761G>A	c.(760-762)GGC>GAC	p.G254D		NM_003395	NP_003386	O14904	WNT9A_HUMAN	wingless-type MMTV integration site family,	254					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|cornea development in camera-type eye|embryonic arm morphogenesis|embryonic skeletal joint morphogenesis|endoderm development|iris morphogenesis|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|neuron differentiation|positive regulation of smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding|signal transducer activity			central_nervous_system(1)|pancreas(1)	2		Prostate(94;0.0405)				GGTGGTGCTGCCCACCTTGAG	0.667													15	96					0	0	0.006122	0	0		T	228109556	T	T	228109556	3	4	140	1	0	0	0	0	1	0	0	0	17424	739	26	2	340	2	WNT9A	1	228109556	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4155456	228109556	21141065	69	75059											
HEATR1	55127	broad.mit.edu	37	chr1	236749680	236749680	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatacaaccacctgattTgacaactgatcattttcact	15	12	3	11	0	2	3	2	3	0	0	2	3	2	3	2	0	4	0	2	0	4	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:236749680T>C	uc001hyd.1	-	15	1913	c.1788A>G	c.(1786-1788)TCA>TCG	p.S596S		NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	596					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CCACCTGATTTGACAACTGAT	0.348													50	92					0	0	0.01441	0	0		C	236749680	C	C	236749680	2	2	140	1	0	0	0	0	0	0	0	1	7043	1799	63	3		3	HEATR1	1	236749680	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	8640124	236749680	12500941	70	75060											
WDR64	128025	broad.mit.edu	37	chr1	241904846	241904846	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttatggacatgtatcctttGactaggatgatacaagatac	13	13	9	6	0	0	3	0	2	0	1	1	5	1	5	1	2	2	2	1	2	6	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:241904846G>A	uc001hze.1	+	11	1527	c.1320G>A	c.(1318-1320)TTG>TTA	p.L440L	WDR64_uc001hzf.1_Silent_p.L160L			B1ANS9	WDR64_HUMAN	RecName: Full=WD repeat-containing protein 64;	440	WD 5.									skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			TGTATCCTTTGACTAGGATGA	0.348													29	26					0	0	0.012213	0	0		A	241904846	A	A	241904846	2	1	140	1	0	0	0	0	0	0	0	1	17341	1281	45	4		4	WDR64	1	241904846	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	5155166	241904846	7345775	71	75061											
AKT3	10000	broad.mit.edu	37	chr1	243777027	243777027	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacggtcttttgtctggaaGgaatatttcaaggacttgaa	13	13	10	5	1	3	1	1	1	2	0	3	4	3	4	0	4	1	0	0	4	6	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:243777027G>T	uc001iab.1	-	7	723	c.642C>A	c.(640-642)TCC>TCA	p.S214S	AKT3_uc001hzz.1_Silent_p.S214S	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	214	Protein kinase.				signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)			TTGTCTGGAAGGAATATTTCA	0.289													28	48					1.13719e-10	1.24174e-10	0.008361	1	0		T	243777027	T	T	243777027	2	4	140	1	0	0	0	0	0	0	0	1	481	987	35	5		5	AKT3	1	243777027	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1872181	243777027	5473594	72	75062											
OR2G3	81469	broad.mit.edu	37	chr1	247769130	247769130	+	Silent	SNP	C	T	T																															actagccttgctcctcagacCttagttaacttgcaaagacc																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:247769130C>T	uc010pyz.1	+	1	243	c.243C>T	c.(241-243)ACC>ACT	p.T81T		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	81	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			CTCCTCAGACCTTAGTTAACT	0.458													53	364					0	0	0.01441	0	0		T	247769130	T	T	247769130	2	4	140	1	0	0	0	0	0	0	0	1	11018	668	24	4		4	OR2G3	1	247769130	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3992103	247769130	1481491	73	75063	138	2									
OR2G3	81469	broad.mit.edu	37	chr1	247769135	247769135	+	Missense_Mutation	SNP	T	G	G																															ccttgctcctcagaccttagTtaacttgcaaagaccaaaga																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:247769135T>G	uc010pyz.1	+	1	248	c.248T>G	c.(247-249)GTT>GGT	p.V83G		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	83	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			CAGACCTTAGTTAACTTGCAA	0.463													52	365					0	0	0.01441	0	0		G	247769135	G	G	247769135	3	3	140	1	0	0	0	0	1	0	0	0	11018	1725	60	5	250	5	OR2G3	1	247769135	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	5	247769135	1481486	74	75064	138	2									
OR2T6	254879	broad.mit.edu	37	chr1	248550954	248550954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accagaggctttaccctcatGgggctcttcactcacaataa	11	10	7	13	0	4	1	3	0	1	1	4	1	4	1	2	3	1	2	2	3	3	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr1:248550954G>A	uc001iei.1	+	1	45	c.45G>A	c.(43-45)ATG>ATA	p.M15I		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	15	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTACCCTCATGGGGCTCTTCA	0.428													44	62					0	0	0.01441	0	0		A	248550954	A	A	248550954	3	1	140	1	0	0	0	0	1	0	0	0	11048	1348	47	4	47	4	OR2T6	1	248550954	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	781819	248550954	699667	75	75065											
RAD51AP2	729475	broad.mit.edu	37	chr2	17697946	17697946	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagctatgttagttttcaaTagaatatctaaaggttctga	15	15	7	4	0	3	2	1	1	2	1	3	2	3	2	0	1	1	4	0	1	9	8			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:17697946T>C	uc002rcl.1	-	1	1761	c.1737A>G	c.(1735-1737)CTA>CTG	p.L579L	RAD51AP2_uc010exn.1_Silent_p.L570L	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	579										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TAGTTTTCAATAGAATATCTA	0.264													3	4					0	0	0.004672	0	0		C	17697946	C	C	17697946	2	2	140	1	0	0	0	0	0	0	0	1	13012	1393	49	3		3	RAD51AP2	2	17697946	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08		17697946	225501427	76	75066											
FKBP1B	2281	broad.mit.edu	37	chr2	24285969	24285969	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agggcgaagctgacctgcacCcctgatgtggcatatggagc	9	7	14	11	1	0	2	0	2	0	0	0	4	0	3	3	3	3	3	3	3	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:24285969C>A	uc002rer.2	+	4	370	c.234C>A	c.(232-234)ACC>ACA	p.T78T	FKBP1B_uc002res.2_3'UTR|FKBP1B_uc002ret.2_RNA|FKBP1B_uc002reu.2_RNA	NM_004116	NP_004107	P68106	FKB1B_HUMAN	FK506 binding protein 1B, 12.6 kDa isoform a	78	PPIase FKBP-type.				'de novo' protein folding|negative regulation of heart rate|negative regulation of protein phosphatase type 2B activity|protein maturation by protein folding|protein refolding|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|regulation of ryanodine-sensitive calcium-release channel activity|response to redox state	calcium channel complex|sarcoplasmic reticulum membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|receptor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGACCTGCACCCCTGATGTGG	0.567													14	47					1.3612e-06	1.42973e-06	0.003163	1	0		A	24285969	A	A	24285969	2	1	140	1	0	0	0	0	0	0	0	1	5921	610	22	5		5	FKBP1B	2	24285969	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	6588023	24285969	218913404	77	75067											
SLC5A6	8884	broad.mit.edu	37	chr2	27430423	27430423	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagagaaccagcagcaggacGaacaccacatagtccatgat	16	4	10	11	1	0	2	0	1	0	1	1	6	1	3	3	1	4	2	3	1	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:27430423G>A	uc002rjd.2	-	3	487	c.96C>T	c.(94-96)TTC>TTT	p.F32F	SLC5A6_uc010eyv.1_Silent_p.F32F|SLC5A6_uc002rje.1_Silent_p.F32F	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	32	Helical; (Potential).				biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	GCAGCAGGACGAACACCACAT	0.572													21	43					0	0	0.016522	0	0		A	27430423	A	A	27430423	2	1	140	1	0	0	0	0	0	0	0	1	14694	1049	37	1		1	SLC5A6	2	27430423	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3144454	27430423	215768950	78	75068											
SNX17	9784	broad.mit.edu	37	chr2	27598769	27598769	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggggccggggtgaggtgcgCctggaactggcttttgaata	6	9	18	8	3	0	2	0	2	0	0	0	3	0	3	2	7	2	1	2	7	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:27598769C>T	uc002rkg.1	+	11	1257	c.1035C>T	c.(1033-1035)CGC>CGT	p.R345R	SNX17_uc010ylj.1_Silent_p.R325R|SNX17_uc010ylk.1_Silent_p.R131R|SNX17_uc010eza.1_Silent_p.R131R|SNX17_uc002rki.1_RNA|SNX17_uc002rkh.1_Silent_p.R131R|SNX17_uc010yll.1_Silent_p.R131R|SNX17_uc010ylm.1_Silent_p.R131R|SNX17_uc010yln.1_Silent_p.R333R|SNX17_uc010ylo.1_Silent_p.R263R|SNX17_uc010ylp.1_Silent_p.R320R|SNX17_uc010ylq.1_Silent_p.R131R	NM_014748	NP_055563	Q15036	SNX17_HUMAN	sorting nexin 17	345					cell communication|endosome transport|intracellular protein transport|regulation of endocytosis|signal transduction	cytoplasmic vesicle membrane|cytosol|early endosome|Golgi apparatus	low-density lipoprotein particle receptor binding|phosphatidylinositol binding|protein C-terminus binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGAGGTGCGCCTGGAACTGG	0.607													25	47					0	0	0.009535	0	0		T	27598769	T	T	27598769	2	4	140	1	0	0	0	0	0	0	0	1	14913	726	26	2		2	SNX17	2	27598769	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	168346	27598769	215600604	79	75069											
C2orf16	84226	broad.mit.edu	37	chr2	27803556	27803556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttatagcttctgttgggCggaagcctgtggacgggaca	8	10	16	7	2	1	0	0	0	1	0	1	4	1	3	1	4	2	3	1	4	3	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:27803556C>T	uc002rkz.3	+	1	4168	c.4117C>T	c.(4117-4119)CGG>TGG	p.R1373W	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1373										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					TTCTGTTGGGCGGAAGCCTGT	0.458													42	63					0	0	0.011902	0	0		T	27803556	T	T	27803556	3	4	140	1	0	0	0	0	1	0	0	0	2160	759	27	1	4119	1	C2orf16	2	27803556	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	204787	27803556	215395817	80	75070											
ATL2	64225	broad.mit.edu	37	chr2	38570579	38570579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatggtcatcttcatgagcaAgaacaatctgtactggacat	13	12	8	8	0	4	2	2	1	2	1	4	3	4	3	0	2	3	2	0	2	5	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:38570579A>G	uc002rqq.2	-	2	224	c.194T>C	c.(193-195)CTT>CCT	p.L65P	ATL2_uc010ynm.1_Missense_Mutation_p.L47P|ATL2_uc010ynn.1_Missense_Mutation_p.L47P|ATL2_uc010yno.1_Intron|ATL2_uc002rqs.2_Missense_Mutation_p.L65P|ATL2_uc002rqr.2_Intron	NM_001135673	NP_001129145	Q8NHH9	ATLA2_HUMAN	atlastin GTPase 2 isoform 2	65	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			ovary(1)|kidney(1)|skin(1)	3						TTCATGAGCAAGAACAATCTG	0.358													4	134					0	0	0.009096	0	0		G	38570579	G	G	38570579	3	3	140	1	0	0	0	0	1	0	0	0	1108	72	3	3	1717	3	ATL2	2	38570579	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	10767023	38570579	204628794	81	75071											
PRKCE	5581	broad.mit.edu	37	chr2	46203609	46203609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtgttcagggaacgcatgCggccgaggaagcggcagggg	8	5	20	8	4	1	0	1	0	0	0	1	3	1	2	1	6	3	3	1	6	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:46203609C>T	uc002rut.2	+	3	651	c.454C>T	c.(454-456)CGG>TGG	p.R152W		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	152					activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			GGAACGCATGCGGCCGAGGAA	0.587													5	89					0	0	0.014758	0	0		T	46203609	T	T	46203609	3	4	140	1	0	0	0	0	1	0	0	0	12533	759	27	1	464	1	PRKCE	2	46203609	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	7633030	46203609	196995764	82	75072											
SPTBN1	6711	broad.mit.edu	37	chr2	54873365	54873365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatccaggggcaccagcctcGcattgacgacatctttgaga	11	8	10	12	2	1	2	0	2	1	1	3	4	2	2	3	2	1	2	3	2	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:54873365G>A	uc002rxu.2	+	23	4868	c.4619G>A	c.(4618-4620)CGC>CAC	p.R1540H	SPTBN1_uc002rxx.2_Missense_Mutation_p.R1527H	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1540	Spectrin 12.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			CACCAGCCTCGCATTGACGAC	0.552													29	199					0	0	0.013726	0	0		A	54873365	A	A	54873365	3	1	140	1	0	0	0	0	1	0	0	0	15144	1087	38	1	4818	1	SPTBN1	2	54873365	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	8669756	54873365	188326008	83	75073											
SPTBN1	6711	broad.mit.edu	37	chr2	54880747	54880747	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctacatggcttcacaggTgaggcagctgcaggaggatg	9	7	14	11	0	1	1	1	1	0	0	1	3	1	3	2	5	3	4	2	5	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:54880747T>G	uc002rxu.2	+	27	5828	c.5579T>G	c.(5578-5580)GTG>GGG	p.V1860G	SPTBN1_uc002rxx.2_Missense_Mutation_p.V1847G|SPTBN1_uc002rxy.2_Missense_Mutation_p.V5G	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1860	Interaction with ANK2.|Spectrin 15.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			GCTTCACAGGTGAGGCAGCTG	0.612													36	56					0	0	0.00623	0	0		G	54880747	G	G	54880747	3	3	140	1	0	0	0	0	1	0	0	0	15144	1710	59	5	5794	5	SPTBN1	2	54880747	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	7382	54880747	188318626	84	75074											
OTX1	5013	broad.mit.edu	37	chr2	63280040	63280040	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccagacgcatcagaccCtgaaggactgcgtggtggga	9	5	14	13	2	1	3	1	1	0	2	1	5	1	5	3	3	1	1	3	3	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:63280040C>A	uc002scd.2	+	3	163	c.-85C>A	c.(-87--83)CCCTG>CCATG		OTX1_uc010ypt.1_Translation_Start_Site	NM_014562	NP_055377	P32242	OTX1_HUMAN	orthodenticle homeobox 1							nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(2)	2	Lung NSC(7;0.121)|all_lung(7;0.211)					GCATCAGACCCTGAAGGACTG	0.642													3	15					2.56e-06	2.68157e-06	0.009096	1	0		A	63280040	A	A	63280040	1	1	140	1	0	0	0	0	0	0	0	0	11339	696	24	5		5	OTX1	2	63280040	Translation_Start_Site	SNP	C	TCGA-CG-4465-01A-01D-1158-08	8399293	63280040	179919333	85	75075											
SLC1A4	6509	broad.mit.edu	37	chr2	65243635	65243635	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtggaaatgaaagacatcAtcgtgctggtgaccagcctg	11	9	12	9	2	1	3	1	2	0	1	3	4	1	4	2	2	2	1	2	2	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:65243635A>G	uc010yqa.1	+	5	1184	c.862A>G	c.(862-864)ATC>GTC	p.I288V	SLC1A4_uc010ypy.1_Missense_Mutation_p.I68V|SLC1A4_uc010ypz.1_Intron|SLC1A4_uc010fcv.2_Missense_Mutation_p.I288V|SLC1A4_uc002sdh.2_Missense_Mutation_p.I68V	NM_003038	NP_003029	P43007	SATT_HUMAN	solute carrier family 1, member 4 isoform 1	288					cellular nitrogen compound metabolic process|cognition|synaptic transmission, glutamatergic	intermediate filament|melanosome	chloride channel activity|L-alanine transmembrane transporter activity|L-cystine transmembrane transporter activity|L-hydroxyproline transmembrane transporter activity|L-proline transmembrane transporter activity|L-serine transmembrane transporter activity|L-threonine transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(1)	1					L-Alanine(DB00160)	GAAAGACATCATCGTGCTGGT	0.453													64	148					0	0	0.01441	0	0		G	65243635	G	G	65243635	3	3	140	1	0	0	0	0	1	0	0	0	14459	217	8	3	880	3	SLC1A4	2	65243635	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1963595	65243635	177955738	86	75076											
SPRED2	200734	broad.mit.edu	37	chr2	65540704	65540704	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagtggtagcaggcccgaagGggcaggtaacagcacataca	13	4	14	10	1	0	0	0	0	0	0	0	1	0	0	1	5	4	5	1	5	4	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:65540704G>A	uc002sdr.3	-	6	1723	c.1188C>T	c.(1186-1188)CCC>CCT	p.P396P	SPRED2_uc010fcw.2_Silent_p.P393P	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	396	SPR.				inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						AGGCCCGAAGGGGCAGGTAAC	0.597													20	66					0	0	0.012319	0	0		A	65540704	A	A	65540704	2	1	140	1	0	0	0	0	0	0	0	1	15118	1219	43	4		4	SPRED2	2	65540704	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	297069	65540704	177658669	87	75077											
DYSF	8291	broad.mit.edu	37	chr2	71825835	71825835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacagttgctgagcaacCgcccagcattgtggtggagc	8	7	14	12	1	0	1	0	1	0	0	0	2	0	2	3	3	5	4	3	3	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:71825835C>T	uc002sie.2	+	33	4038	c.3662C>T	c.(3661-3663)CCG>CTG	p.P1221L	DYSF_uc010feg.2_Missense_Mutation_p.P1252L|DYSF_uc010feh.2_Missense_Mutation_p.P1207L|DYSF_uc002sig.3_Missense_Mutation_p.P1207L|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.P1221L|DYSF_uc010fef.2_Missense_Mutation_p.P1238L|DYSF_uc010fei.2_Missense_Mutation_p.P1238L|DYSF_uc010fek.2_Missense_Mutation_p.P1239L|DYSF_uc010fej.2_Missense_Mutation_p.P1208L|DYSF_uc010fel.2_Missense_Mutation_p.P1208L|DYSF_uc010feo.2_Missense_Mutation_p.P1253L|DYSF_uc010fem.2_Missense_Mutation_p.P1222L|DYSF_uc010fen.2_Missense_Mutation_p.P1239L|DYSF_uc002sif.2_Missense_Mutation_p.P1222L|DYSF_uc010yqy.1_Missense_Mutation_p.P102L	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1221	Cytoplasmic (Potential).|C2 4.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GCTGAGCAACCGCCCAGCATT	0.587													17	27					0	0	0.01892	0	0		T	71825835	T	T	71825835	3	4	140	1	0	0	0	0	1	0	0	0	4865	652	23	1	3984	1	DYSF	2	71825835	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	6285131	71825835	171373538	88	75078											
EXOC6B	23233	broad.mit.edu	37	chr2	72562106	72562106	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgatgaaggccaactgcagCgtgtcctcctggaacccagg	9	7	12	13	2	0	1	0	1	0	0	3	3	2	2	4	3	4	1	4	3	3	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:72562106C>T	uc010fep.2	-	20	2304	c.2166G>A	c.(2164-2166)ACG>ACA	p.T722T		NM_015189	NP_056004	Q9Y2D4	EXC6B_HUMAN	SEC15-like 2	722					protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2						CCAACTGCAGCGTGTCCTCCT	0.453													8	164					0	0	0.004482	0	0		T	72562106	T	T	72562106	2	4	140	1	0	0	0	0	0	0	0	1	5317	755	27	1		1	EXOC6B	2	72562106	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	736271	72562106	170637267	89	75079											
SLC4A5	57835	broad.mit.edu	37	chr2	74513013	74513013	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaggatgtcctggagctgCtcagcagctggggaccctgc	6	7	14	14	0	1	0	1	0	0	0	2	3	2	3	3	4	5	4	3	4	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:74513013C>T	uc002sko.1	-	3	290	c.288G>A	c.(286-288)GAG>GAA	p.E96E	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Silent_p.E96E|SLC4A5_uc010ffc.1_Silent_p.E96E|SLC4A5_uc002skp.1_Silent_p.E32E|SLC4A5_uc002sks.1_Silent_p.E96E	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	96	Cytoplasmic (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						CCTGGAGCTGCTCAGCAGCTG	0.582													11	7					0	0	0.016723	0	0		T	74513013	T	T	74513013	2	4	140	1	0	0	0	0	0	0	0	1	14682	796	28	2		2	SLC4A5	2	74513013	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1950907	74513013	168686360	90	75080											
TTC31	64427	broad.mit.edu	37	chr2	74718259	74718259	+	Frame_Shift_Del	DEL	A	-	-																															accattactattgcagcgtcAaaaggaacggaagcgacagg																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:74718259delA	uc002slt.2	+	6	574	c.551delA	c.(550-552)CAAfs	p.Q184fs	TTC31_uc002sls.2_Frame_Shift_Del_p.Q113fs|TTC31_uc010yrv.1_Frame_Shift_Del_p.Q40fs|TTC31_uc002slu.2_Frame_Shift_Del_p.Q40fs	NM_022492	NP_071937	Q49AM3	TTC31_HUMAN	tetratricopeptide repeat domain 31	184	Potential.						binding				0						TTGCAGCGTCAAAAGGAACGG	0.308													64	124	---	---	---	---						.	-	74718259	-	-	74718259	7	5	140	1	0	1	0	1	0	0	0	0	16726	130	5	0	573	0	TTC31	2	74718259	Frame_Shift_Del	DEL	A	TCGA-CG-4465-01A-01D-1158-08	205246	74718259	168481114	91	75081											
CTNNA2	1496	broad.mit.edu	37	chr2	80646695	80646695	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgaaagaatatgcccaagTtttccgtgagcatgccaaca	14	9	9	9	1	0	3	0	2	0	1	1	3	1	3	3	0	4	2	3	0	5	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:80646695T>C	uc010ysh.1	+	8	1264	c.1259T>C	c.(1258-1260)GTT>GCT	p.V420A	CTNNA2_uc010yse.1_Missense_Mutation_p.V420A|CTNNA2_uc010ysf.1_Missense_Mutation_p.V420A|CTNNA2_uc010ysg.1_Missense_Mutation_p.V420A|CTNNA2_uc010ysi.1_Missense_Mutation_p.V52A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	420					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TATGCCCAAGTTTTCCGTGAG	0.443													15	110					0	0	0.003163	0	0		C	80646695	C	C	80646695	3	2	140	1	0	0	0	0	1	0	0	0	4016	1725	60	3	1081	3	CTNNA2	2	80646695	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	5928436	80646695	162552678	92	75082											
CTNNA2	1496	broad.mit.edu	37	chr2	80835350	80835350	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatttattagcctacctTcaacgaattgccttgtattg	10	15	7	9	1	1	0	1	0	0	0	1	2	1	1	3	1	4	1	3	1	6	9			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:80835350T>G	uc010ysh.1	+	16	2342	c.2337T>G	c.(2335-2337)CTT>CTG	p.L779L	CTNNA2_uc010yse.1_Silent_p.L779L|CTNNA2_uc010ysf.1_Silent_p.L779L|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysi.1_Silent_p.L411L|CTNNA2_uc010ysj.1_Silent_p.L108L	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	779					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TAGCCTACCTTCAACGAATTG	0.403													47	84					0	0	0.01441	0	0		G	80835350	G	G	80835350	2	3	140	1	0	0	0	0	0	0	0	1	4016	1770	62	5		5	CTNNA2	2	80835350	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	188655	80835350	162364023	93	75083											
KRCC1	51315	broad.mit.edu	37	chr2	88327464	88327464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttctgtactgacatgtaCggtttctatttccacctctg	6	18	6	11	1	3	1	0	1	3	0	4	1	4	1	2	1	2	3	2	1	3	7	rs116606730	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:88327464C>T	uc002sso.1	-	4	1013	c.619G>A	c.(619-621)GTA>ATA	p.V207I	KRCC1_uc002ssp.1_Missense_Mutation_p.V207I	NM_016618	NP_057702	Q9NPI7	KRCC1_HUMAN	lysine-rich coiled-coil 1	207	Lys-rich.|Potential.									ovary(1)	1						CTGACATGTACGGTTTCTATT	0.383													69	183					0	0	0.01441	0	0		T	88327464	T	T	88327464	3	4	140	1	0	0	0	0	1	0	0	0	8457	536	19	1	164	1	KRCC1	2	88327464	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	7492114	88327464	154871909	94	75084											
SEMA4C	54910	broad.mit.edu	37	chr2	97526589	97526589	+	Frame_Shift_Del	DEL	G	-	-																															ggatgcctggaggtggcgaaGggggccccccaccgggctgg																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:97526589delG	uc002sxh.3	-	15	2436	c.2276delC	c.(2275-2277)CCTfs	p.P759fs	ANKRD39_uc002sxd.3_5'Flank|SEMA4C_uc002sxf.3_Frame_Shift_Del_p.P259fs|SEMA4C_uc002sxe.2_Frame_Shift_Del_p.P300fs|SEMA4C_uc002sxg.3_Frame_Shift_Del_p.P812fs	NM_017789	NP_060259	Q9C0C4	SEM4C_HUMAN	semaphorin 4C precursor	759	Pro-rich.|Cytoplasmic (Potential).				muscle cell differentiation|nervous system development|positive regulation of stress-activated MAPK cascade	cell junction|integral to membrane|postsynaptic density|postsynaptic membrane|synaptic vesicle membrane	receptor activity			skin(2)	2						AGGTGGCGAAGGGGGCCCCCC	0.597													41	81	---	---	---	---						.	-	97526589	-	-	97526589	7	5	140	1	0	1	0	1	0	0	0	0	14058	1000	35	0	229	0	SEMA4C	2	97526589	Frame_Shift_Del	DEL	G	TCGA-CG-4465-01A-01D-1158-08	9199125	97526589	145672784	95	75085											
SEMA4C	54910	broad.mit.edu	37	chr2	97526833	97526833	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcaccagcagcagcagcaCcaggcacacagcccccaggg	12	0	11	18	0	0	0	0	0	0	0	0	0	0	0	4	2	6	6	4	2	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:97526833C>G	uc002sxh.3	-	15	2192	c.2032G>C	c.(2032-2034)GTG>CTG	p.V678L	SEMA4C_uc002sxf.3_Missense_Mutation_p.V178L|SEMA4C_uc002sxe.2_Missense_Mutation_p.V219L|SEMA4C_uc002sxg.3_Missense_Mutation_p.V731L	NM_017789	NP_060259	Q9C0C4	SEM4C_HUMAN	semaphorin 4C precursor	678	Helical; (Potential).				muscle cell differentiation|nervous system development|positive regulation of stress-activated MAPK cascade	cell junction|integral to membrane|postsynaptic density|postsynaptic membrane|synaptic vesicle membrane	receptor activity			skin(2)	2						AGCAGCAGCACCAGGCACACA	0.687													11	30					0	0	0.004007	0	0		G	97526833	G	G	97526833	3	3	140	1	0	0	0	0	1	0	0	0	14058	507	18	5	473	5	SEMA4C	2	97526833	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	244	97526833	145672540	96	75086											
ZAP70	7535	broad.mit.edu	37	chr2	98351851	98351851	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcattggcgtctgccaggcCgaggccctcatgctggtcat	5	10	12	14	2	4	0	3	0	1	0	4	1	4	0	3	4	2	1	3	4	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:98351851C>T	uc002syd.1	+	10	1428	c.1221C>T	c.(1219-1221)GCC>GCT	p.A407A	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Silent_p.A297A|ZAP70_uc002syf.1_Silent_p.A100A	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	407	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						TCTGCCAGGCCGAGGCCCTCA	0.662													30	181					0	0	0.010818	0	0		T	98351851	T	T	98351851	2	4	140	1	0	0	0	0	0	0	0	1	17540	639	23	1		1	ZAP70	2	98351851	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	825018	98351851	144847522	97	75087											
TMEM131	23505	broad.mit.edu	37	chr2	98392382	98392382	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcatcatcagccaaagagTccttcagctcatcttcctgt	10	13	5	13	0	6	1	5	0	1	1	8	1	8	1	3	0	2	1	3	0	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:98392382T>C	uc002syh.3	-	32	4473	c.4244A>G	c.(4243-4245)GAC>GGC	p.D1415G		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1415	Lys-rich.					integral to membrane				ovary(4)|central_nervous_system(2)	6						AGCCAAAGAGTCCTTCAGCTC	0.512													17	33					0	0	0.008871	0	0		C	98392382	C	C	98392382	3	2	140	1	0	0	0	0	1	0	0	0	16069	1667	58	3	1447	3	TMEM131	2	98392382	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	40531	98392382	144806991	98	75088											
REV1	51455	broad.mit.edu	37	chr2	100022484	100022484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttgttagtatcaggactgGtcggcagatgtgcaggaaaa	11	10	13	7	1	1	1	1	0	0	1	2	3	1	3	1	4	1	4	1	4	4	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:100022484G>A	uc002tad.2	-	17	2911	c.2699C>T	c.(2698-2700)ACC>ATC	p.T900I	REV1_uc002tac.2_Missense_Mutation_p.T899I	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	900					DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						ATCAGGACTGGTCGGCAGATG	0.453								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					25	55					0	0	0.01892	0	0		A	100022484	A	A	100022484	3	1	140	1	0	0	0	0	1	0	0	0	13264	1261	44	4	1084	4	REV1	2	100022484	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1630102	100022484	143176889	99	75089											
TGFBRAP1	9392	broad.mit.edu	37	chr2	105883890	105883890	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtttgtgtgtctgctggCggcacagtgggtgtgcacaa	5	11	18	7	1	1	0	0	0	1	0	1	0	1	0	0	5	2	4	0	5	1	1	rs139792932	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:105883890C>T	uc002tcq.2	-	12	2617	c.2533G>A	c.(2533-2535)GCC>ACC	p.A845T	TGFBRAP1_uc010fjc.2_Missense_Mutation_p.A614T|TGFBRAP1_uc002tcr.3_Missense_Mutation_p.A845T|uc002tcp.2_5'Flank	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	845					regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						TGTCTGCTGGCGGCACAGTGG	0.517													48	80					0	0	0.01441	0	0		T	105883890	T	T	105883890	3	4	140	1	0	0	0	0	1	0	0	0	15849	768	27	1	53	1	TGFBRAP1	2	105883890	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5861406	105883890	137315483	100	75090											
CCDC138	165055	broad.mit.edu	37	chr2	109411120	109411120	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagacaagcggagtttactTccacatcagatcagtcagat	13	10	8	10	1	4	3	4	0	0	3	5	4	5	4	1	1	2	1	1	1	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:109411120T>C	uc002ten.1	+	5	579	c.519T>C	c.(517-519)CTT>CTC	p.L173L	CCDC138_uc002teo.1_Silent_p.L173L|CCDC138_uc002tep.1_5'UTR|CCDC138_uc010fjm.1_5'UTR	NM_144978	NP_659415	Q96M89	CC138_HUMAN	coiled-coil domain containing 138	173											0						GGAGTTTACTTCCACATCAGA	0.388													17	50					0	0	0.00499	0	0		C	109411120	C	C	109411120	2	2	140	1	0	0	0	0	0	0	0	1	2775	1770	62	3		3	CCDC138	2	109411120	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	3527230	109411120	133788253	101	75091											
BUB1	699	broad.mit.edu	37	chr2	111408256	111408256	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcaacgcccaactctgcCtcacaggtaagtaccccacc	10	6	6	19	1	3	0	2	0	1	0	3	0	3	0	6	1	4	2	6	1	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:111408256C>A	uc002tgc.2	-	18	2182	c.2070G>T	c.(2068-2070)GAG>GAT	p.E690D	BUB1_uc010yxh.1_Missense_Mutation_p.E670D|BUB1_uc010fkb.2_Missense_Mutation_p.E690D	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	690					apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		CCAACTCTGCCTCACAGGTAA	0.527													11	34					4.3838e-07	4.62968e-07	0.016723	1	0		A	111408256	A	A	111408256	3	1	140	1	0	0	0	0	1	0	0	0	1573	680	24	5	1219	5	BUB1	2	111408256	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1997136	111408256	131791117	102	75092											
IMP4	92856	broad.mit.edu	37	chr2	131102231	131102231	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattcccactgagttacgcCgagaggctctggccttacag	8	10	11	12	2	1	3	0	2	1	1	2	4	2	3	3	2	2	2	3	2	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:131102231C>T	uc002tra.1	+	3	159	c.142C>T	c.(142-144)CGA>TGA	p.R48*	CCDC115_uc002tqw.1_5'Flank|CCDC115_uc010zaf.1_5'Flank|CCDC115_uc002tqx.2_5'Flank|CCDC115_uc002tqy.1_5'Flank|CCDC115_uc002tqz.1_5'Flank	NM_033416	NP_219484	Q96G21	IMP4_HUMAN	IMP4, U3 small nucleolar ribonucleoprotein,	48	Arg-rich.				rRNA processing|translation	nucleolus|ribonucleoprotein complex	aminoacyl-tRNA ligase activity|ATP binding|protein binding			central_nervous_system(2)	2	Colorectal(110;0.1)					TGAGTTACGCCGAGAGGCTCT	0.552													52	94					0	0	0.01441	0	0		T	131102231	T	T	131102231	4	4	140	1	0	0	0	0	0	1	0	0	7736	644	23	1	152	1	IMP4	2	131102231	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	19693975	131102231	112097142	103	75093											
FAM123C	205147	broad.mit.edu	37	chr2	131521723	131521723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcaaacgaacagcccccggCcgcatggcctccaaggcaag	11	3	10	17	3	1	0	1	0	0	0	2	1	2	0	5	3	3	2	5	3	4	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:131521723C>T	uc002trw.2	+	2	2268	c.2078C>T	c.(2077-2079)GCC>GTC	p.A693V	FAM123C_uc010fmv.2_Missense_Mutation_p.A693V|FAM123C_uc010fms.1_Missense_Mutation_p.A693V|FAM123C_uc010fmt.1_Missense_Mutation_p.A693V|FAM123C_uc010fmu.1_Missense_Mutation_p.A693V	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	693										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		CAGCCCCCGGCCGCATGGCCT	0.652													12	15					0	0	0.010729	0	0		T	131521723	T	T	131521723	3	4	140	1	0	0	0	0	1	0	0	0	5435	739	26	2	2080	2	FAM123C	2	131521723	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	419492	131521723	111677650	104	75094											
THSD7B	80731	broad.mit.edu	37	chr2	138030222	138030222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgaagatgtttccttgtgtCctgtatatcggcaagtagtt	8	16	11	6	1	0	2	0	1	0	1	3	2	2	2	2	1	0	5	2	1	5	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:138030222C>T	uc002tva.1	+	10	2293	c.2293C>T	c.(2293-2295)CCT>TCT	p.P765S	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.P655S	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TTCCTTGTGTCCTGTATATCG	0.383													6	26					0	0	0.001168	0	0		T	138030222	T	T	138030222	3	4	140	1	0	0	0	0	1	0	0	0	15905	855	30	4	2331	4	THSD7B	2	138030222	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	6508499	138030222	105169151	105	75095											
KYNU	8942	broad.mit.edu	37	chr2	143742717	143742717	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaactctacttacatgactGgggagttgattttgcctgct	8	15	10	8	0	1	3	0	3	1	0	1	4	1	4	1	2	5	2	1	2	3	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:143742717G>A	uc002tvl.2	+	9	924	c.794G>A	c.(793-795)TGG>TAG	p.W265*	KYNU_uc002tvk.2_Nonsense_Mutation_p.W265*|KYNU_uc010fnm.2_Nonsense_Mutation_p.W265*	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	265					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	TTACATGACTGGGGAGTTGAT	0.378													58	131					0	0	0.01441	0	0		A	143742717	A	A	143742717	4	1	140	1	0	0	0	0	0	1	0	0	8603	1357	47	4	824	4	KYNU	2	143742717	Nonsense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	5712495	143742717	99456656	106	75096											
ACVR2A	92	broad.mit.edu	37	chr2	148684747	148684747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgaaagaattacccagatGcagagactaacaaatattat	18	9	8	6	0	0	4	0	1	0	3	0	5	0	4	1	1	3	1	1	1	7	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:148684747G>A	uc002twg.2	+	12	1715	c.1446G>A	c.(1444-1446)ATG>ATA	p.M482I	ACVR2A_uc010zbn.1_Missense_Mutation_p.M374I|ACVR2A_uc002twh.2_Missense_Mutation_p.M482I	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	482	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		TTACCCAGATGCAGAGACTAA	0.423													25	52					0	0	0.021523	0	0		A	148684747	A	A	148684747	3	1	140	1	0	0	0	0	1	0	0	0	223	1319	46	2	1488	2	ACVR2A	2	148684747	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	4942030	148684747	94514626	107	75097											
TNFAIP6	7130	broad.mit.edu	37	chr2	152235983	152235983	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccaaatccagtcaaggaaAaaatacaagtactacttcta	19	9	4	9	0	2	0	1	0	1	0	4	1	4	1	2	1	3	1	2	1	10	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:152235983A>C	uc002txk.2	+	6	846	c.770A>C	c.(769-771)AAA>ACA	p.K257T		NM_007115	NP_009046	P98066	TSG6_HUMAN	tumor necrosis factor, alpha-induced protein 6	257					cell adhesion|cell-cell signaling|inflammatory response|signal transduction		hyaluronic acid binding				0				BRCA - Breast invasive adenocarcinoma(221;0.131)		AGTCAAGGAAAAAATACAAGT	0.338													43	80					0	0	0.010771	0	0		C	152235983	C	C	152235983	3	2	140	1	0	0	0	0	1	0	0	0	16300	14	1	5	792	5	TNFAIP6	2	152235983	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	3551236	152235983	90963390	108	75098											
GALNT13	114805	broad.mit.edu	37	chr2	155099258	155099258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acgtgaaaaatttagaagtgCcagtaaaaattattaggatg	18	11	9	3	1	0	2	0	1	0	1	0	3	0	3	1	1	1	1	1	1	9	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:155099258C>T	uc002tyr.3	+	6	1093	c.526C>T	c.(526-528)CCA>TCA	p.P176S	GALNT13_uc002tyt.3_Missense_Mutation_p.P176S|GALNT13_uc010foc.1_5'UTR	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	176	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						TTTAGAAGTGCCAGTAAAAAT	0.343													9	60					0	0	0.006214	0	0		T	155099258	T	T	155099258	3	4	140	1	0	0	0	0	1	0	0	0	6226	739	26	2	540	2	GALNT13	2	155099258	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2863275	155099258	88100115	109	75099											
SCN2A	6326	broad.mit.edu	37	chr2	166166916	166166916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactgtgttctgtctaagcGtgtttgcgctaataggattg	7	16	12	6	2	2	1	0	1	2	0	2	2	2	2	0	1	2	3	0	1	3	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:166166916G>A	uc002udc.2	+	7	1071	c.781G>A	c.(781-783)GTG>ATG	p.V261M	SCN2A_uc002udd.2_Missense_Mutation_p.V261M|SCN2A_uc002ude.2_Missense_Mutation_p.V261M	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	261	I.|Helical; Name=S5 of repeat I; (Potential).		V -> M (in BFIC3).		myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	CTGTCTAAGCGTGTTTGCGCT	0.418													96	194					0	0	0.01441	0	0		A	166166916	A	A	166166916	3	1	140	1	0	0	0	0	1	0	0	0	13941	1145	40	1	899	1	SCN2A	2	166166916	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	11067658	166166916	77032457	110	75100											
XIRP2	129446	broad.mit.edu	37	chr2	167992440	167992440	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtggaaattgagcgaagtTtgtgctcgccagcttttaag	11	12	12	6	2	0	1	0	1	0	0	1	3	0	2	1	1	3	3	1	1	4	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:167992440T>G	uc002udx.2	+	2	448	c.430T>G	c.(430-432)TTG>GTG	p.L144V	XIRP2_uc010fpn.2_Missense_Mutation_p.L144V|XIRP2_uc010fpo.2_Missense_Mutation_p.L144V|XIRP2_uc010fpp.2_Missense_Mutation_p.L144V|XIRP2_uc002udy.2_5'UTR	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	Error:Variant_position_missing_in_A4UGR9_after_alignment					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TGAGCGAAGTTTGTGCTCGCC	0.428													28	58					0	0	0.009535	0	0		G	167992440	G	G	167992440	3	3	140	1	0	0	0	0	1	0	0	0	17456	1838	64	5	436	5	XIRP2	2	167992440	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	1825524	167992440	75206933	111	75101											
XIRP2	129446	broad.mit.edu	37	chr2	168102105	168102105	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccactggatcagatttctgaAgaatcacataatattatgcc	14	12	6	9	0	3	3	2	1	1	2	3	4	3	4	2	1	1	0	2	1	5	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:168102105A>C	uc002udx.2	+	8	4221	c.4203A>C	c.(4201-4203)GAA>GAC	p.E1401D	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E1226D|XIRP2_uc010fpq.2_Missense_Mutation_p.E1179D|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1226					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGATTTCTGAAGAATCACATA	0.338													19	75					0	0	0.010504	0	0		C	168102105	C	C	168102105	3	2	140	1	0	0	0	0	1	0	0	0	17456	69	3	5	4233	5	XIRP2	2	168102105	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	109665	168102105	75097268	112	75102											
SP5	389058	broad.mit.edu	37	chr2	171572954	171572954	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaccgccgacatgccggcGcactcgccaggcgcactgcc	6	4	13	18	6	0	0	0	0	0	0	1	2	0	1	5	3	2	2	5	3	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:171572954G>A	uc002uge.2	+	2	403	c.237G>A	c.(235-237)GCG>GCA	p.A79A	LOC440925_uc002ugd.2_5'Flank	NM_001003845	NP_001003845	Q6BEB4	SP5_HUMAN	Sp5 transcription factor	79					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACATGCCGGCGCACTCGCCAG	0.647													3	11					0	0	0.004672	0	0		A	171572954	A	A	171572954	2	1	140	1	0	0	0	0	0	0	0	1	14992	1074	38	1		1	SP5	2	171572954	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3470849	171572954	71626419	113	75103											
HOXD12	3238	broad.mit.edu	37	chr2	176965452	176965452	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgtatgaagaagaagcgCgtggtgcttcgggagcaggc	10	6	18	7	4	0	3	0	1	0	2	1	4	0	4	0	4	3	3	0	4	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:176965452C>T	uc010zev.1	+	2	777	c.777C>T	c.(775-777)CGC>CGT	p.R259R	HOXD12_uc010zew.1_3'UTR	NM_021193	NP_067016	P35452	HXD12_HUMAN	homeobox D12	259	Homeobox.					nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0521)|READ - Rectum adenocarcinoma(9;0.0678)		AGAAGAAGCGCGTGGTGCTTC	0.582													4	30					0	0	0.009096	0	0		T	176965452	T	T	176965452	2	4	140	1	0	0	0	0	0	0	0	1	7337	755	27	1		1	HOXD12	2	176965452	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5392498	176965452	66233921	114	75104											
TTN	7273	broad.mit.edu	37	chr2	179427391	179427391	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattttcaattctgaaagtaGttttagtgcaattatttgta	12	19	7	3	0	2	1	1	1	1	0	2	2	2	1	0	0	1	4	0	0	7	9			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:179427391G>T	uc010zfg.1	-	275	75988	c.75764C>A	c.(75763-75765)ACT>AAT	p.T25255N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T18950N|TTN_uc010zfi.1_Missense_Mutation_p.T18883N|TTN_uc010zfj.1_Missense_Mutation_p.T18758N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26182							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTGAAAGTAGTTTTAGTGCA	0.363													27	55					2.48779e-11	2.73197e-11	0.005443	1	0		T	179427391	T	T	179427391	3	4	140	1	0	0	0	0	1	0	0	0	16761	1029	36	5	24659	5	TTN	2	179427391	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2461939	179427391	63771982	115	75105											
TTN	7273	broad.mit.edu	37	chr2	179584282	179584282	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatctcattctactcaccAgaaacatggacggatacagt	16	9	6	10	1	3	1	2	0	2	1	4	3	3	3	1	2	3	0	1	2	5	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:179584282A>G	uc010zfg.1	-	79	20429	c.20205T>C	c.(20203-20205)TCT>TCC	p.S6735S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.S3396S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7662							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTACTCACCAGAAACATGGA	0.393													9	212					0	0	0.008291	0	0		G	179584282	G	G	179584282	2	3	140	1	0	0	0	0	0	0	0	1	16761	202	7	3		3	TTN	2	179584282	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	156891	179584282	63615091	116	75106											
NCKAP1	10787	broad.mit.edu	37	chr2	183792931	183792931	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggttgatggctttggccaAgcaatgtatgttgttgcaat	8	15	12	6	0	0	1	0	1	0	0	0	1	0	1	1	3	2	7	1	3	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:183792931A>G	uc002upc.2	-	29	3496	c.3094T>C	c.(3094-3096)TTG>CTG	p.L1032L	NCKAP1_uc002upb.2_Silent_p.L1038L	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	1032					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			GCTTTGGCCAAGCAATGTATG	0.378													37	74					0	0	0.010771	0	0		G	183792931	G	G	183792931	2	3	140	1	0	0	0	0	0	0	0	1	10240	69	3	3		3	NCKAP1	2	183792931	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	4208649	183792931	59406442	117	75107											
ZNF804A	91752	broad.mit.edu	37	chr2	185802457	185802457	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtagacaacattcacattcTtattcttcagatgaaagttt	13	15	5	8	1	4	3	2	1	2	2	4	3	4	3	0	0	1	2	0	0	4	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:185802457T>A	uc002uph.2	+	4	2928	c.2334T>A	c.(2332-2334)TCT>TCA	p.S778S		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	778						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						ATTCACATTCTTATTCTTCAG	0.358													24	31					0	0	0.021523	0	0		A	185802457	A	A	185802457	2	1	140	1	0	0	0	0	0	0	0	1	18195	1596	56	5		5	ZNF804A	2	185802457	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	2009526	185802457	57396916	118	75108											
C2orf60	129450	broad.mit.edu	37	chr2	200800752	200800752	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctgggttatctatattcAgtacttctgatttagtacct	9	18	7	7	0	4	1	1	1	3	0	4	1	4	1	1	1	2	3	1	1	6	9			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:200800752A>G	uc002uvi.3	-	7	859	c.593T>C	c.(592-594)CTG>CCG	p.L198P	C2orf60_uc002uvj.3_Missense_Mutation_p.L35P|C2orf60_uc002uvk.3_RNA|C2orf60_uc010fss.2_Missense_Mutation_p.L35P	NM_001039693	NP_001034782	A2RUC4	TYW5_HUMAN	hypothetical protein LOC129450	198	JmjC.				wybutosine biosynthetic process		iron ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein homodimerization activity|tRNA binding				0						ATCTATATTCAGTACTTCTGA	0.303													47	82					0	0	0.01441	0	0		G	200800752	G	G	200800752	3	3	140	1	0	0	0	0	1	0	0	0	2182	188	7	3	362	3	C2orf60	2	200800752	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	14998295	200800752	42398621	119	75109											
BZW1	9689	broad.mit.edu	37	chr2	201681935	201681935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgcatccattcttaataGcctttataatgaaaatttgg	14	16	5	6	0	1	1	0	1	1	0	2	1	2	1	2	1	2	1	2	1	7	8			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:201681935G>A	uc010zhg.1	+	6	657	c.605G>A	c.(604-606)AGC>AAC	p.S202N	BZW1_uc002uwc.2_Missense_Mutation_p.S170N|BZW1_uc010zhh.1_Missense_Mutation_p.S170N	NM_014670	NP_055485	Q7L1Q6	BZW1_HUMAN	basic leucine zipper and W2 domains 1	170					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	protein binding				0						ATTCTTAATAGCCTTTATAAT	0.398													32	66					0	0	0.017118	0	0		A	201681935	A	A	201681935	3	1	140	1	0	0	0	0	1	0	0	0	1581	971	34	2	527	2	BZW1	2	201681935	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	881183	201681935	41517438	120	75110											
ORC2L	4999	broad.mit.edu	37	chr2	201784950	201784950	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttttcatccttaccttgcAttaggggtaaggcttcgtaa	8	15	10	8	1	1	0	1	0	0	0	3	0	2	0	2	4	2	5	2	4	4	8			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:201784950A>G	uc002uwr.2	-	15	1718	c.1461T>C	c.(1459-1461)AAT>AAC	p.N487N	ORC2L_uc010zhj.1_Silent_p.N487N	NM_006190	NP_006181	Q13416	ORC2_HUMAN	origin recognition complex, subunit 2	487					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0						CTTACCTTGCATTAGGGGTAA	0.378													24	42					0	0	0.01892	0	0		G	201784950	G	G	201784950	2	3	140	1	0	0	0	0	0	0	0	1	11281	214	8	3		3	ORC2L	2	201784950	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	103015	201784950	41414423	121	75111											
CDK15	65061	broad.mit.edu	37	chr2	202712142	202712142	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgaaatgttccagggtcAacctttgtttcctggggttt	7	17	10	7	0	1	1	1	1	0	0	3	1	3	1	3	3	1	3	3	3	3	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:202712142A>G	uc002uyt.2	+	9	939	c.890A>G	c.(889-891)CAA>CGA	p.Q297R	CDK15_uc010ftm.2_Missense_Mutation_p.Q162R|CDK15_uc002uys.2_Missense_Mutation_p.Q246R|CDK15_uc010ftn.1_Missense_Mutation_p.Q246R|CDK15_uc010fto.1_Missense_Mutation_p.Q276R	NM_139158	NP_631897	Q96Q40	CDK15_HUMAN	PFTAIRE protein kinase 2	297	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|metal ion binding|protein binding			breast(2)|ovary(1)|lung(1)|kidney(1)	5					Adenosine triphosphate(DB00171)	TTCCAGGGTCAACCTTTGTTT	0.373													29	80					0	0	0.013726	0	0		G	202712142	G	G	202712142	3	3	140	1	0	0	0	0	1	0	0	0	3134	130	5	3	767	3	CDK15	2	202712142	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	927192	202712142	40487231	122	75112											
BMPR2	659	broad.mit.edu	37	chr2	203242245	203242245	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgggtgccctggctaccatgGaccatcctgctggtcagcac	6	8	12	15	1	1	0	1	0	0	0	2	1	2	1	4	4	4	3	4	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:203242245G>A	uc002uzf.3	+	1	1196	c.48G>A	c.(46-48)TGG>TGA	p.W16*	BMPR2_uc010ftr.2_Nonsense_Mutation_p.W16*|BMPR2_uc002uze.2_Nonsense_Mutation_p.W16*	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	16					anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						GGCTACCATGGACCATCCTGC	0.662													23	76					0	0	0.008361	0	0		A	203242245	A	A	203242245	4	1	140	1	0	0	0	0	0	1	0	0	1472	1183	41	4	50	4	BMPR2	2	203242245	Nonsense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	530103	203242245	39957128	123	75113											
BMPR2	659	broad.mit.edu	37	chr2	203407105	203407105	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcccacttttgaggatatgCaggttctcgtgtctagggaa	9	13	11	8	1	2	1	0	1	2	0	4	3	3	3	1	3	1	2	1	3	3	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:203407105C>T	uc002uzf.3	+	10	2496	c.1348C>T	c.(1348-1350)CAG>TAG	p.Q450*	BMPR2_uc010ftr.2_Nonsense_Mutation_p.Q450*	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	450	Protein kinase.|Cytoplasmic (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						TGAGGATATGCAGGTTCTCGT	0.423													29	71					0	0	0.010818	0	0		T	203407105	T	T	203407105	4	4	140	1	0	0	0	0	0	1	0	0	1472	711	25	2	1386	2	BMPR2	2	203407105	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	164860	203407105	39792268	124	75114											
INO80D	54891	broad.mit.edu	37	chr2	206869417	206869417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcgaagtggtgggtggcGtggatagggaagtggaaaga	11	8	20	2	2	0	1	0	0	0	1	1	5	0	4	0	6	0	1	0	6	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:206869417G>A	uc002vaz.3	-	11	3164	c.2759C>T	c.(2758-2760)ACG>ATG	p.T920M		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						GGTGGGTGGCGTGGATAGGGA	0.577													12	21					0	0	0.004007	0	0		A	206869417	A	A	206869417	3	1	140	1	0	0	0	0	1	0	0	0	7765	1145	40	1	328	1	INO80D	2	206869417	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3462312	206869417	36329956	125	75115											
CRYGC	1420	broad.mit.edu	37	chr2	208994242	208994242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcggggtactcccctcgccGcagcaagtattgttgacctt	6	11	11	13	3	0	1	0	1	0	0	3	1	1	1	4	2	2	5	4	2	3	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:208994242G>A	uc002vco.3	-	2	213	c.175C>T	c.(175-177)CGG>TGG	p.R59W		NM_020989	NP_066269	P07315	CRGC_HUMAN	crystallin, gamma C	59	Beta/gamma crystallin 'Greek key' 2.				visual perception	cytoplasm|nucleus	protein binding|structural constituent of eye lens				0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.0858)|Lung(261;0.133)		TCCCCTCGCCGCAGCAAGTAT	0.567													45	89					0	0	0.01441	0	0		A	208994242	A	A	208994242	3	1	140	1	0	0	0	0	1	0	0	0	3919	1086	38	1	357	1	CRYGC	2	208994242	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2124825	208994242	34205131	126	75116											
ZNF142	7701	broad.mit.edu	37	chr2	219507069	219507069	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttaccaggcccacccgctcCcgggcagcaaagtcacagag	10	5	10	16	2	1	1	1	0	0	1	2	1	2	1	4	2	2	3	4	2	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:219507069C>T	uc002vin.2	-	8	4606	c.4170G>A	c.(4168-4170)CGG>CGA	p.R1390R	ZNF142_uc002vil.2_Silent_p.R1351R|ZNF142_uc010fvt.2_Silent_p.R1227R|ZNF142_uc002vim.2_Silent_p.R1227R	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	1390	C2H2-type 23.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		CCACCCGCTCCCGGGCAGCAA	0.652													35	76					0	0	0.005524	0	0		T	219507069	T	T	219507069	2	4	140	1	0	0	0	0	0	0	0	1	17756	610	22	4		4	ZNF142	2	219507069	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	10512827	219507069	23692304	127	75117											
CCDC108	255101	broad.mit.edu	37	chr2	219892428	219892428	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaggcagttggggtgaggcgGctggaagtgcaggcgcatgg	8	6	21	6	2	0	1	0	1	0	0	0	2	0	2	0	8	1	5	0	8	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:219892428G>A	uc002vjl.1	-	13	2239	c.2155C>T	c.(2155-2157)CCG>TCG	p.P719S	CCDC108_uc010fwa.1_Missense_Mutation_p.P162S|CCDC108_uc010zkp.1_Missense_Mutation_p.P708S|CCDC108_uc010zkq.1_Missense_Mutation_p.P654S	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	719						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGGTGAGGCGGCTGGAAGTGC	0.612													47	104					0	0	0.01441	0	0		A	219892428	A	A	219892428	3	1	140	1	0	0	0	0	1	0	0	0	2746	1203	42	2	3714	2	CCDC108	2	219892428	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	385359	219892428	23306945	128	75118											
COL4A3	1285	broad.mit.edu	37	chr2	228118042	228118042	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaaagagtgataggacatAaaggagagcgggtaatttaa	17	8	14	2	1	0	4	0	2	0	2	0	6	0	5	0	3	1	1	0	3	6	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:228118042A>G	uc002vom.1	+	12	838	c.676A>G	c.(676-678)AAA>GAA	p.K226E	COL4A3_uc002von.1_Missense_Mutation_p.K226E|COL4A3_uc002voo.1_Missense_Mutation_p.K226E|COL4A3_uc002vop.1_Missense_Mutation_p.K226E|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	226	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		GATAGGACATAAAGGAGAGCG	0.353													71	156					0	0	0.01441	0	0		G	228118042	G	G	228118042	3	3	140	1	0	0	0	0	1	0	0	0	3694	363	13	3	722	3	COL4A3	2	228118042	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	8225614	228118042	15081331	129	75119											
COL4A3	1285	broad.mit.edu	37	chr2	228141189	228141189	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctggcccccaaggtccAcctggtaagtatcctctgcc	7	9	8	17	0	1	0	0	0	1	0	4	0	4	0	7	3	1	2	7	3	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:228141189A>G	uc002vom.1	+	27	2178	c.2016A>G	c.(2014-2016)CCA>CCG	p.P672P	COL4A3_uc002von.1_Silent_p.P672P|COL4A3_uc002voo.1_Silent_p.P672P|COL4A3_uc002vop.1_Silent_p.P672P|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	672	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		CCCAAGGTCCACCTGGTAAGT	0.517													12	29					0	0	0.020292	0	0		G	228141189	G	G	228141189	2	3	140	1	0	0	0	0	0	0	0	1	3694	146	6	3		3	COL4A3	2	228141189	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	23147	228141189	15058184	130	75120											
SP100	6672	broad.mit.edu	37	chr2	231328834	231328834	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgaaaaggagggccaagaAgccacttgctcacgacccca	14	4	11	12	1	1	2	1	1	0	1	1	5	1	3	4	2	2	1	4	2	4	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:231328834A>G	uc002vqt.2	+	11	1251	c.1110A>G	c.(1108-1110)GAA>GAG	p.E370E	SP100_uc002vqs.2_Silent_p.E370E|SP100_uc002vqu.1_Silent_p.E370E|SP100_uc002vqq.1_Silent_p.E370E|SP100_uc002vqr.1_Silent_p.E345E|SP100_uc010zmc.1_Silent_p.E345E|SP100_uc002vqv.1_Silent_p.E334E	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	370					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		AGGGCCAAGAAGCCACTTGCT	0.428													5	68					0	0	0.001168	0	0		G	231328834	G	G	231328834	2	3	140	1	0	0	0	0	0	0	0	1	14985	69	3	3		3	SP100	2	231328834	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	3187645	231328834	11870539	131	75121											
B3GNT7	93010	broad.mit.edu	37	chr2	232263248	232263248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtcctgcagcacgctcGgcccattcgcaggaaagaca	10	6	11	14	4	0	1	0	0	0	1	3	3	1	2	2	2	2	4	2	2	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:232263248G>A	uc002vrs.2	+	2	998	c.818G>A	c.(817-819)CGG>CAG	p.R273Q		NM_145236	NP_660279	Q8NFL0	B3GN7_HUMAN	UDP-GlcNAc:betaGal	273	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;3.22e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0139)		CAGCACGCTCGGCCCATTCGC	0.602													9	17					0	0	0.010729	0	0		A	232263248	A	A	232263248	3	1	140	1	0	0	0	0	1	0	0	0	1263	1116	39	1	824	1	B3GNT7	2	232263248	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	934414	232263248	10936125	132	75122											
DIS3L2	129563	broad.mit.edu	37	chr2	233201245	233201245	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagccctcaagtacagcGccatcctgaagcggccaggc	10	4	10	17	2	1	1	1	1	0	0	2	1	2	1	5	2	4	1	5	2	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:233201245G>T	uc010fxz.2	+	21	2839	c.2563G>T	c.(2563-2565)GCC>TCC	p.A855S	DIS3L2_uc002vsm.3_RNA|DIS3L2_uc002vso.2_RNA|DIS3L2_uc002vsp.1_RNA	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.	855							exonuclease activity|ribonuclease activity|RNA binding			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(139;0.00809)|Renal(207;0.0113)|Acute lymphoblastic leukemia(138;0.0195)|all_lung(227;0.0465)|Lung NSC(271;0.136)		Epithelial(121;1.6e-13)|BRCA - Breast invasive adenocarcinoma(100;0.00104)|LUSC - Lung squamous cell carcinoma(224;0.0109)|Lung(119;0.0149)		CAAGTACAGCGCCATCCTGAA	0.642													12	25					2.32078e-09	2.50931e-09	0.003163	1	0		T	233201245	T	T	233201245	3	4	140	1	0	0	0	0	1	0	0	0	4543	1087	38	5	2641	5	DIS3L2	2	233201245	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	937997	233201245	9998128	133	75123											
NEU2	4759	broad.mit.edu	37	chr2	233898990	233898990	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaccagggccaatgtgacGcggctgtgccaagtcaccag	10	5	13	13	2	1	2	1	1	0	1	1	2	1	2	4	2	1	1	4	2	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:233898990G>A	uc010zmn.1	+	2	366	c.366G>A	c.(364-366)ACG>ACA	p.T122T		NM_005383	NP_005374	Q9Y3R4	NEUR2_HUMAN	neuraminidase 2	122							exo-alpha-sialidase activity				0		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0271)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0839)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0488)		CCAATGTGACGCGGCTGTGCC	0.632													10	35					0	0	0.006214	0	0		A	233898990	A	A	233898990	2	1	140	1	0	0	0	0	0	0	0	1	10361	1074	38	1		1	NEU2	2	233898990	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	697745	233898990	9300383	134	75124											
IQCA1	79781	broad.mit.edu	37	chr2	237272542	237272542	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgcagatggcatggaccaGcattttcttccctaccccag	8	10	10	13	0	1	1	0	0	1	1	2	2	2	2	4	3	3	3	4	3	1	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr2:237272542G>A	uc002vvz.1	-	15	1932	c.1750C>T	c.(1750-1752)CTG>TTG	p.L584L	IQCA1_uc002vwb.2_Silent_p.L592L|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Silent_p.L543L	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	584							ATP binding			ovary(1)	1						GCATGGACCAGCATTTTCTTC	0.502													50	115					0	0	0.01441	0	0		A	237272542	A	A	237272542	2	1	140	1	0	0	0	0	0	0	0	1	7818	962	34	2		2	IQCA1	2	237272542	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3373552	237272542	5926831	135	75125											
FANCD2	2177	broad.mit.edu	37	chr3	10074520	10074520	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttctattttcagaaacCaggaagcaaccactttccaa	14	13	4	10	0	2	1	1	0	1	1	3	2	3	2	3	1	3	1	3	1	5	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:10074520C>T	uc003buw.2	+	3	147	c.69C>T	c.(67-69)ACC>ACT	p.T23T	FANCD2_uc003bux.1_Silent_p.T23T|FANCD2_uc003buy.1_Silent_p.T23T|FANCD2_uc003buv.2_Silent_p.T23T	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	23	Interaction with FANCE.				DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		TTTCAGAAACCAGGAAGCAAC	0.303			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				18	91					0	0	0.006122	0	0		T	10074520	T	T	10074520	2	4	140	1	0	0	0	0	0	0	0	1	5679	581	21	4		4	FANCD2	3	10074520	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08		10074520	187947910	136	75126											
TGFBR2	7048	broad.mit.edu	37	chr3	30713390	30713390	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaacatcaaccacaacAcagagctgctgcccattgag	15	5	6	15	0	1	2	1	1	0	1	1	2	1	2	3	0	7	2	3	0	4	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:30713390A>G	uc003ceo.2	+	4	1097	c.715A>G	c.(715-717)ACA>GCA	p.T239A	TGFBR2_uc003cen.2_Missense_Mutation_p.T264A	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	239	Cytoplasmic (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						CAACCACAACACAGAGCTGCT	0.542													31	54					0	0	0.009535	0	0		G	30713390	G	G	30713390	3	3	140	1	0	0	0	0	1	0	0	0	15847	159	6	3	808	3	TGFBR2	3	30713390	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	20638870	30713390	167309040	137	75127											
CMTM6	54918	broad.mit.edu	37	chr3	32529529	32529529	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaagtaatataaaaatcCtatgcatacatacaaaacac	21	8	2	10	0	0	0	0	0	0	0	1	0	1	0	2	0	4	2	2	0	11	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:32529529C>A	uc003cfa.1	-	3	482	c.316_splice	c.e3-1	p.D106_splice		NM_017801	NP_060271	Q9NX76	CKLF6_HUMAN	CKLF-like MARVEL transmembrane domain containing						chemotaxis	extracellular space|integral to membrane	cytokine activity				0						TATAAAAATCCTATGCATACA	0.333													11	31					5.50884e-06	5.7393e-06	0.013537	1	0		A	32529529	A	A	32529529	5	1	140	1	0	0	0	0	0	0	1	0	3590	695	24	5	244	5	CMTM6	3	32529529	Splice_Site	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1816139	32529529	165492901	138	75128											
VILL	50853	broad.mit.edu	37	chr3	38035802	38035802	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtccagcgacctgcactaCtgggtcgggaagcaggcggg	7	5	17	12	4	0	0	0	0	0	0	2	2	1	1	2	4	4	2	2	4	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:38035802C>T	uc003chj.2	+	4	472	c.186C>T	c.(184-186)TAC>TAT	p.Y62Y	VILL_uc003chk.1_Silent_p.Y62Y|VILL_uc003chl.2_Silent_p.Y62Y|VILL_uc010hgu.2_5'UTR	NM_015873	NP_056957	O15195	VILL_HUMAN	villin-like protein	62	Gelsolin-like 1.				actin filament capping|cytoskeleton organization	actin cytoskeleton	actin binding|structural constituent of cytoskeleton				0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		ACCTGCACTACTGGGTCGGGA	0.697													10	21					0	0	0.013537	0	0		T	38035802	T	T	38035802	2	4	140	1	0	0	0	0	0	0	0	1	17191	576	20	4		4	VILL	3	38035802	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5506273	38035802	159986628	139	75129											
TTC21A	199223	broad.mit.edu	37	chr3	39179046	39179046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagcagatccccaaggcgCgtatgcagttgaagcgcctg	10	7	13	11	3	0	3	0	2	0	1	1	3	1	3	3	1	3	4	3	1	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:39179046C>T	uc003cjc.2	+	26	3718	c.3541C>T	c.(3541-3543)CGT>TGT	p.R1181C	TTC21A_uc003cje.2_Missense_Mutation_p.R1182C|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Missense_Mutation_p.R1133C|TTC21A_uc003cjf.2_Missense_Mutation_p.R302C	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	1181							binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		CCCCAAGGCGCGTATGCAGTT	0.607													29	37					0	0	0.015359	0	0		T	39179046	T	T	39179046	3	4	140	1	0	0	0	0	1	0	0	0	16713	768	27	1	3646	1	TTC21A	3	39179046	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1143244	39179046	158843384	140	75130											
MYRIP	25924	broad.mit.edu	37	chr3	40085751	40085751	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcctgggtctgctgcgtctgCcagcaagcgaggtgagtggc	5	8	17	11	2	2	1	0	1	2	0	2	2	2	1	2	3	5	2	2	3	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:40085751C>T	uc003cka.2	+	3	456	c.321C>T	c.(319-321)TGC>TGT	p.C107C	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Silent_p.C107C|MYRIP_uc010hhw.2_Missense_Mutation_p.A64V|MYRIP_uc010hhx.1_Silent_p.C107C	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	107	RabBD.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		GCTGCGTCTGCCAGCAAGCGA	0.527													23	47					0	0	0.021523	0	0		T	40085751	T	T	40085751	2	4	140	1	0	0	0	0	0	0	0	1	10118	747	26	2		2	MYRIP	3	40085751	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	906705	40085751	157936679	141	75131											
RPL14	9045	broad.mit.edu	37	chr3	40500174	40500174	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaagtgaggagacaggcCatgcctttcaagtgcatgca	12	8	11	10	0	2	2	2	1	0	1	2	3	2	2	2	2	3	2	2	2	2	1	rs61748304	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:40500174C>A	uc003ckg.2	+	3	198	c.147C>A	c.(145-147)GCC>GCA	p.A49A	RPL14_uc003ckh.2_Silent_p.A49A|RPL14_uc003cki.2_5'UTR	NM_003973	NP_003964	P50914	RL14_HUMAN	ribosomal protein L14	49					endocrine pancreas development|ribosomal large subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		GGAGACAGGCCATGCCTTTCA	0.453													16	45					1.99824e-07	2.1161e-07	0.00499	1	0		A	40500174	A	A	40500174	2	1	140	1	0	0	0	0	0	0	0	1	13586	581	21	5		5	RPL14	3	40500174	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	414423	40500174	157522256	142	75132											
ULK4	54986	broad.mit.edu	37	chr3	41607536	41607536	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttcataaagtagttccAtattcgaatctttgcaggca	11	15	7	8	1	2	0	1	0	1	0	4	1	3	0	1	1	1	5	1	1	5	8			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:41607536A>G	uc003ckv.3	-	32	3407	c.3206T>C	c.(3205-3207)ATG>ACG	p.M1069T		NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	1069							ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		AAGTAGTTCCATATTCGAATC	0.313													48	35					0	0	0.01441	0	0		G	41607536	G	G	41607536	3	3	140	1	0	0	0	0	1	0	0	0	17004	217	8	3	645	3	ULK4	3	41607536	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1107362	41607536	156414894	143	75133											
ZBTB47	92999	broad.mit.edu	37	chr3	42705882	42705884	+	In_Frame_Del	DEL	AGG	-	-																															caacatgctcaaggcccacaAggagaagtgcttccgcgtca																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:42705882_42705884delAGG	uc003clu.1	+	5	1010_1012	c.908_910delAGG	c.(907-912)AAGGAG>AAG	p.E304del		NM_145166	NP_660149	Q9UFB7	ZBT47_HUMAN	zinc finger protein 651	304	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.216)		AAGGCCCACAAGGAGAAGTGCTT	0.468													5	8	---	---	---	---						.	-	42705884	-	-	42705882	7	5	140	1	0	1	0	1	0	0	0	0	17573	72	3	0	2054	0	ZBTB47	3	42705882	In_Frame_Del	DEL	AGG	TCGA-CG-4465-01A-01D-1158-08	1098346	42705882	155316548	144	75134											
CLEC3B	7123	broad.mit.edu	37	chr3	45077050	45077050	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaaggtgcacatgaaatgCtttctggccttcacccagac	11	9	8	13	0	2	2	1	1	1	1	2	2	2	2	3	2	2	2	3	2	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:45077050C>T	uc003cok.3	+	3	339	c.243C>T	c.(241-243)TGC>TGT	p.C81C	CLEC3B_uc003col.2_Silent_p.C39C	NM_003278	NP_003269	P05452	TETN_HUMAN	C-type lectin domain family 3, member B	81	C-type lectin.				skeletal system development	extracellular space	protein binding|sugar binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00863)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACATGAAATGCTTTCTGGCCT	0.632													8	53					0	0	0.006214	0	0		T	45077050	T	T	45077050	2	4	140	1	0	0	0	0	0	0	0	1	3514	805	28	2		2	CLEC3B	3	45077050	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2371168	45077050	152945380	145	75135											
PRKAR2A	5576	broad.mit.edu	37	chr3	48789703	48789703	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtactgccccttatggcaGcgggcaatctcgacctcctg	8	9	10	14	2	1	0	0	0	1	0	3	1	2	0	4	2	3	3	4	2	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:48789703G>A	uc010hki.1	-	10	1228	c.987C>T	c.(985-987)CGC>CGT	p.R329R	PRKAR2A_uc003cux.1_Silent_p.R329R|PRKAR2A_uc003cuy.1_Silent_p.R307R	NM_004157	NP_004148	P13861	KAP2_HUMAN	cAMP-dependent protein kinase, regulatory	329	cAMP 2.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|membrane fraction	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000176)|Kidney(197;0.00246)|KIRC - Kidney renal clear cell carcinoma(197;0.00261)		CCTTATGGCAGCGGGCAATCT	0.517													26	39					0	0	0.004656	0	0		A	48789703	A	A	48789703	2	1	140	1	0	0	0	0	0	0	0	1	12527	958	34	2		2	PRKAR2A	3	48789703	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3712653	48789703	149232727	146	75136											
RHOA	387	broad.mit.edu	37	chr3	49412898	49412898	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacctcgatatctgccacaTagttctcaaacactgtgggc	10	10	7	14	1	2	0	1	0	2	0	4	1	2	0	3	1	2	1	3	1	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:49412898T>C	uc003cwu.2	-	2	401	c.125A>G	c.(124-126)TAT>TGT	p.Y42C	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	42	Effector region (Potential).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	ATCTGCCACATAGTTCTCAAA	0.433													55	49					0	0	0.01441	0	0		C	49412898	C	C	49412898	3	2	140	1	0	0	0	0	1	0	0	0	13356	1406	49	3	472	3	RHOA	3	49412898	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	623195	49412898	148609532	147	75137											
SLC38A3	10991	broad.mit.edu	37	chr3	50253006	50253006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgagcagctgggctaccGtgcctttgggaccccaggaa	8	8	13	12	1	0	1	0	1	0	0	0	3	0	3	4	3	4	3	4	3	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:50253006G>A	uc003cyn.3	+	6	545	c.404G>A	c.(403-405)CGT>CAT	p.R135H	SLC38A3_uc011bdl.1_Missense_Mutation_p.R110H|SLC38A3_uc011bdm.1_Missense_Mutation_p.R66H	NM_006841	NP_006832	Q99624	S38A3_HUMAN	solute carrier family 38, member 3	135					cellular nitrogen compound metabolic process|sodium ion transport	integral to plasma membrane	antiporter activity|L-alanine transmembrane transporter activity|L-asparagine transmembrane transporter activity|L-glutamine transmembrane transporter activity|L-histidine transmembrane transporter activity|symporter activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000275)|KIRC - Kidney renal clear cell carcinoma(197;0.00548)|Kidney(197;0.00615)	L-Asparagine(DB00174)|L-Glutamine(DB00130)|L-Histidine(DB00117)	CTGGGCTACCGTGCCTTTGGG	0.627													25	38					0	0	0.008361	0	0		A	50253006	A	A	50253006	3	1	140	1	0	0	0	0	1	0	0	0	14630	1145	40	1	422	1	SLC38A3	3	50253006	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	840108	50253006	147769424	148	75138											
DOCK3	1795	broad.mit.edu	37	chr3	51263118	51263118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtacctaaccctggagaagGgggatttcgagagaggagga	12	7	16	6	1	0	2	0	0	0	2	1	8	0	5	2	5	2	1	2	5	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:51263118G>A	uc011bds.1	+	15	1314	c.1291G>A	c.(1291-1293)GGG>AGG	p.G431R		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	431	DHR-1.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		CCTGGAGAAGGGGGATTTCGA	0.463													58	113					0	0	0.01441	0	0		A	51263118	A	A	51263118	3	1	140	1	0	0	0	0	1	0	0	0	4694	1232	43	4	1349	4	DOCK3	3	51263118	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1010112	51263118	146759312	149	75139											
DOCK3	1795	broad.mit.edu	37	chr3	51392352	51392352	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggccatgactacgagaggCtggaggccttccagcagagg	9	6	16	10	1	0	3	0	1	0	2	1	5	1	4	3	5	2	2	3	5	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:51392352C>T	uc011bds.1	+	41	4170	c.4147C>T	c.(4147-4149)CTG>TTG	p.L1383L		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1383	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		CTACGAGAGGCTGGAGGCCTT	0.567													23	142					0	0	0.016522	0	0		T	51392352	T	T	51392352	2	4	140	1	0	0	0	0	0	0	0	1	4694	796	28	2		2	DOCK3	3	51392352	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	129234	51392352	146630078	150	75140											
RBM15B	29890	broad.mit.edu	37	chr3	51430610	51430610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagccctgggaagagaggCggaaacggagaagcctttcc	12	4	14	11	2	0	2	0	0	0	2	1	6	1	4	4	4	3	0	4	4	4	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:51430610C>T	uc003dbd.2	+	1	1880	c.1780C>T	c.(1780-1782)CGG>TGG	p.R594W		NM_013286	NP_037418	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	594	Nuclear localization signal (Potential).				interspecies interaction between organisms|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleoplasm	nucleotide binding|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GGAAGAGAGGCGGAAACGGAG	0.612													23	50					0	0	0.004656	0	0		T	51430610	T	T	51430610	3	4	140	1	0	0	0	0	1	0	0	0	13142	759	27	1	1782	1	RBM15B	3	51430610	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	38258	51430610	146591820	151	75141											
CACNA2D3	55799	broad.mit.edu	37	chr3	54157605	54157605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgctgctaagtactccggttCccagcttctgcaaaaggtaa	10	11	9	11	1	1	0	0	0	1	0	3	0	3	0	2	2	5	7	2	2	5	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:54157605C>T	uc003dhf.2	+	2	236	c.188C>T	c.(187-189)TCC>TTC	p.S63F	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_5'UTR|CACNA2D3_uc003dhh.1_RNA	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	63	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		TACTCCGGTTCCCAGCTTCTG	0.488													31	105					0	0	0.012213	0	0		T	54157605	T	T	54157605	3	4	140	1	0	0	0	0	1	0	0	0	2553	855	30	4	194	4	CACNA2D3	3	54157605	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2726995	54157605	143864825	152	75142											
C3orf63	23272	broad.mit.edu	37	chr3	56658620	56658620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatgaagtcttcagcagttGcaaccactattccattatct	11	13	6	11	0	3	1	1	1	2	0	4	1	4	1	2	0	3	4	2	0	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:56658620G>A	uc003did.3	-	22	4288	c.4187C>T	c.(4186-4188)GCA>GTA	p.A1396V	C3orf63_uc003dib.3_Missense_Mutation_p.A515V|C3orf63_uc003dic.3_Missense_Mutation_p.A1020V|C3orf63_uc003die.3_Missense_Mutation_p.A1457V	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	1457										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		TTCAGCAGTTGCAACCACTAT	0.333													30	78					0	0	0.009535	0	0		A	56658620	A	A	56658620	3	1	140	1	0	0	0	0	1	0	0	0	2242	1319	46	2	710	2	C3orf63	3	56658620	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2501015	56658620	141363810	153	75143											
FLNB	2317	broad.mit.edu	37	chr3	58139223	58139223	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgccccaggagatgggCgtgcacacggtcagcgtcaa	8	8	14	11	3	2	1	2	0	0	1	2	2	2	1	2	3	3	1	2	3	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:58139223C>T	uc003djj.2	+	39	6654	c.6489C>T	c.(6487-6489)GGC>GGT	p.G2163G	FLNB_uc010hne.2_Silent_p.G2194G|FLNB_uc003djk.2_Silent_p.G2152G|FLNB_uc010hnf.2_Silent_p.G2139G|FLNB_uc003djl.2_Silent_p.G1983G|FLNB_uc003djm.2_Silent_p.G1970G|FLNB_uc010hng.1_RNA	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	2163	Filamin 20.|Interaction with FLNA 1.|Interaction with INPPL1.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		AGGAGATGGGCGTGCACACGG	0.652													31	64					0	0	0.017118	0	0		T	58139223	T	T	58139223	2	4	140	1	0	0	0	0	0	0	0	1	5948	755	27	1		1	FLNB	3	58139223	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1480603	58139223	139883207	154	75144											
ATXN7	6314	broad.mit.edu	37	chr3	63981463	63981463	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcctcatccccttccacGccctctggcctttcctcggt	3	13	5	20	2	3	0	2	0	1	0	8	0	7	0	7	2	0	0	7	2	0	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:63981463G>A	uc003dlw.3	+	12	2518	c.1965G>A	c.(1963-1965)ACG>ACA	p.T655T	ATXN7_uc003dlv.2_Silent_p.T655T|ATXN7_uc010hnv.2_Silent_p.T655T|ATXN7_uc011bfn.1_Silent_p.T510T	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	655	Ser-rich.				cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		CCCCTTCCACGCCCTCTGGCC	0.522													8	176					0	0	0.008291	0	0		A	63981463	A	A	63981463	2	1	140	1	0	0	0	0	0	0	0	1	1216	1074	38	1		1	ATXN7	3	63981463	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	5842240	63981463	134040967	155	75145											
ADAMTS9	56999	broad.mit.edu	37	chr3	64582637	64582637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgacatacaacaacacgccGctgggatccgccagcacagg	12	4	10	15	3	0	1	0	1	0	0	1	2	1	2	3	2	4	2	3	2	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:64582637G>A	uc003dmg.2	-	27	4080	c.4048C>T	c.(4048-4050)CGG>TGG	p.R1350W	ADAMTS9_uc011bfo.1_Missense_Mutation_p.R1322W|ADAMTS9_uc003dmh.1_Missense_Mutation_p.R1179W|ADAMTS9_uc011bfp.1_Missense_Mutation_p.R261W	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1350	TSP type-1 9.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		ACAACACGCCGCTGGGATCCG	0.498													29	55					0	0	0.010818	0	0		A	64582637	A	A	64582637	3	1	140	1	0	0	0	0	1	0	0	0	273	1086	38	1	1811	1	ADAMTS9	3	64582637	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	601174	64582637	133439793	156	75146											
LRIG1	26018	broad.mit.edu	37	chr3	66431997	66431997	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacagagctttggctgcctGcaggcaacgctgtgagtgtc	7	9	14	11	1	0	2	0	1	0	1	1	2	0	2	1	2	4	6	1	2	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:66431997G>A	uc003dmx.2	-	17	2690	c.2676C>T	c.(2674-2676)TGC>TGT	p.C892C	SLC25A26_uc011bft.1_Intron|LRIG1_uc011bfu.1_Silent_p.C512C|LRIG1_uc003dmw.2_Silent_p.C558C|LRIG1_uc010hnz.2_Silent_p.C608C|LRIG1_uc010hoa.2_Silent_p.C869C	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	892	Cytoplasmic (Potential).					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		TTGGCTGCCTGCAGGCAACGC	0.537													47	84					0	0	0.01441	0	0		A	66431997	A	A	66431997	2	1	140	1	0	0	0	0	0	0	0	1	8962	1311	46	2		2	LRIG1	3	66431997	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1849360	66431997	131590433	157	75147											
MINA	84864	broad.mit.edu	37	chr3	97677947	97677947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttcctcggcctccacgCtgtactctcgtgccaggggc	3	11	10	17	3	1	0	0	0	1	0	6	0	4	0	5	3	2	2	5	3	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:97677947C>T	uc003drz.1	-	4	1135	c.629G>A	c.(628-630)AGC>AAC	p.S210N	MINA_uc003dsa.1_Missense_Mutation_p.S210N|MINA_uc003dsb.1_Missense_Mutation_p.S210N|MINA_uc003dsc.1_Missense_Mutation_p.S210N|MINA_uc010hpa.1_RNA|MINA_uc010hpb.1_RNA	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	210	JmjC.				ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1						GGCCTCCACGCTGTACTCTCG	0.567													22	37					0	0	0.005443	0	0		T	97677947	T	T	97677947	3	4	140	1	0	0	0	0	1	0	0	0	9604	797	28	2	796	2	MINA	3	97677947	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	31245950	97677947	100344483	158	75148											
CEP97	79598	broad.mit.edu	37	chr3	101477203	101477203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accctcaagccaaagatgtgCgttacgaaatccggctacgc	12	7	9	13	4	1	1	1	0	0	1	2	2	2	1	3	1	4	2	3	1	5	2	rs145086802		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:101477203C>T	uc003dvk.1	+	9	1780	c.1753C>T	c.(1753-1755)CGT>TGT	p.R585C	CEP97_uc010hpm.1_Missense_Mutation_p.R551C|CEP97_uc011bhf.1_Missense_Mutation_p.R526C|CEP97_uc003dvl.1_Missense_Mutation_p.R281C|CEP97_uc003dvm.1_Missense_Mutation_p.R423C	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	585	IQ.|CEP110 binding.					centrosome|nucleus	protein binding			ovary(2)	2						CAAAGATGTGCGTTACGAAAT	0.463													32	95					0	0	0.013726	0	0		T	101477203	T	T	101477203	3	4	140	1	0	0	0	0	1	0	0	0	3266	768	27	1	1787	1	CEP97	3	101477203	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3799256	101477203	96545227	159	75149											
PVRL3	25945	broad.mit.edu	37	chr3	110837775	110837775	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttggaaaaggacatccgaTactctttcatattagacata	14	12	6	9	1	2	1	1	0	1	1	3	4	3	3	2	2	1	0	2	2	6	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:110837775T>C	uc003dxt.1	+	3	775	c.775T>C	c.(775-777)TAC>CAC	p.Y259H	PVRL3_uc003dxu.1_Missense_Mutation_p.Y236H	NM_015480	NP_056295	Q9NQS3	PVRL3_HUMAN	poliovirus receptor-related 3 precursor	259	Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane	cell adhesion molecule binding|protein homodimerization activity			upper_aerodigestive_tract(2)	2						GGACATCCGATACTCTTTCAT	0.318													17	45					0	0	0.006122	0	0		C	110837775	C	C	110837775	3	2	140	1	0	0	0	0	1	0	0	0	12866	1406	49	3	785	3	PVRL3	3	110837775	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	9360572	110837775	87184655	160	75150											
ZBTB20	26137	broad.mit.edu	37	chr3	114057967	114057967	+	Frame_Shift_Del	DEL	G	-	-																															ccgtgcaggccaccacgcctGgggggccagcgcgggcacct																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:114057967delG	uc003ebi.2	-	5	2291	c.2111delC	c.(2110-2112)CCAfs	p.P704fs	ZBTB20_uc003ebj.2_Frame_Shift_Del_p.P631fs|ZBTB20_uc010hqp.2_Frame_Shift_Del_p.P631fs|ZBTB20_uc003ebk.2_Frame_Shift_Del_p.P631fs|ZBTB20_uc003ebl.2_Frame_Shift_Del_p.P631fs|ZBTB20_uc003ebm.2_Frame_Shift_Del_p.P631fs|ZBTB20_uc003ebn.2_Frame_Shift_Del_p.P631fs	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	704					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		CACCACGCCTGGGGGGCCAGC	0.637													33	71	---	---	---	---						.	-	114057967	-	-	114057967	7	5	140	1	0	1	0	1	0	0	0	0	17554	1348	47	0	118	0	ZBTB20	3	114057967	Frame_Shift_Del	DEL	G	TCGA-CG-4465-01A-01D-1158-08	3220192	114057967	83964463	161	75151											
ARHGAP31	57514	broad.mit.edu	37	chr3	119121096	119121096	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgccgctccgcgtgtcCgcagtcatcagcaccaacag	7	8	10	16	4	3	0	2	0	1	0	5	0	5	0	4	0	3	3	4	0	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:119121096C>T	uc003ecj.3	+	10	2029	c.1497C>T	c.(1495-1497)TCC>TCT	p.S499S		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	499					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						TCCGCGTGTCCGCAGTCATCA	0.597													35	96					0	0	0.021022	0	0		T	119121096	T	T	119121096	2	4	140	1	0	0	0	0	0	0	0	1	880	639	23	1		1	ARHGAP31	3	119121096	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5063129	119121096	78901334	162	75152											
PTPLB	201562	broad.mit.edu	37	chr3	123286614	123286614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatatccatacttacctataGcacaatgtaaaatctagagg	17	11	5	8	0	1	1	0	0	1	1	2	1	2	1	2	1	3	2	2	1	10	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:123286614G>A	uc003egj.2	-	3	337	c.287C>T	c.(286-288)GCT>GTT	p.A96V		NM_198402	NP_940684	Q6Y1H2	HACD2_HUMAN	protein tyrosine phosphatase-like (proline	96	Helical; (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein binding			kidney(1)	1				GBM - Glioblastoma multiforme(114;0.1)		CTTACCTATAGCACAATGTAA	0.284													16	42					0	0	0.004007	0	0		A	123286614	A	A	123286614	3	1	140	1	0	0	0	0	1	0	0	0	12800	971	34	2	497	2	PTPLB	3	123286614	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	4165518	123286614	74735816	163	75153											
PLXND1	23129	broad.mit.edu	37	chr3	129284343	129284343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggtgtagtactccagcttgCcgtgcagcgcgatggtcagc	6	10	14	11	3	1	0	1	0	0	0	2	1	2	0	2	2	6	4	2	2	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:129284343C>T	uc003emx.2	-	25	4461	c.4361G>A	c.(4360-4362)GGC>GAC	p.G1454D	PLXND1_uc011blb.1_Missense_Mutation_p.G122D	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1454	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						CTCCAGCTTGCCGTGCAGCGC	0.637													21	34					0	0	0.008871	0	0		T	129284343	T	T	129284343	3	4	140	1	0	0	0	0	1	0	0	0	12146	739	26	2	1464	2	PLXND1	3	129284343	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5997729	129284343	68738087	164	75154											
PIK3R4	30849	broad.mit.edu	37	chr3	130447425	130447425	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgtccaaagaatacacacagCcgtgttattccattttccat	12	12	5	12	2	0	1	0	0	0	1	3	1	3	1	4	0	2	1	4	0	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:130447425C>T	uc003enj.2	-	6	2270	c.1689G>A	c.(1687-1689)CGG>CGA	p.R563R		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	563					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						ATACACACAGCCGTGTTATTC	0.388													23	66					0	0	0.016522	0	0		T	130447425	T	T	130447425	2	4	140	1	0	0	0	0	0	0	0	1	11940	726	26	2		2	PIK3R4	3	130447425	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1163082	130447425	67575005	165	75155											
CPNE4	131034	broad.mit.edu	37	chr3	131624148	131624148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcatcttgaggatgacaCaggggtctggtttggaaagg	10	10	15	6	0	2	2	0	2	2	0	2	4	2	4	0	6	1	2	0	6	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:131624148C>T	uc003eok.2	-	2	575	c.140G>A	c.(139-141)TGT>TAT	p.C47Y	CPNE4_uc011blq.1_Missense_Mutation_p.C65Y|CPNE4_uc003eol.2_Missense_Mutation_p.C65Y|CPNE4_uc003eom.2_Missense_Mutation_p.C47Y	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	47	C2 1.									upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						GAGGATGACACAGGGGTCTGG	0.493													18	152					0	0	0.006122	0	0		T	131624148	T	T	131624148	3	4	140	1	0	0	0	0	1	0	0	0	3817	478	17	4	1593	4	CPNE4	3	131624148	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1176723	131624148	66398282	166	75156											
EPHB1	2047	broad.mit.edu	37	chr3	134851733	134851733	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgacaatgtggagtttgTgcccaggcagctgggcctga	8	9	15	9	1	0	2	0	2	0	0	0	4	0	3	2	3	2	3	2	3	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:134851733T>G	uc003eqt.2	+	5	1359	c.1139T>G	c.(1138-1140)GTG>GGG	p.V380G	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_3'UTR|EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	380	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GTGGAGTTTGTGCCCAGGCAG	0.612													6	47					0	0	0.001168	0	0		G	134851733	G	G	134851733	3	3	140	1	0	0	0	0	1	0	0	0	5182	1696	59	5	1157	5	EPHB1	3	134851733	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	3227585	134851733	63170697	167	75157											
SAMD7	344658	broad.mit.edu	37	chr3	169642908	169642908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaggaatgaaatgattcaaCggcatcatactgccaggtaa	16	8	10	7	1	2	2	2	2	0	0	2	4	2	3	1	3	3	2	1	3	6	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:169642908C>T	uc003fgd.2	+	5	541	c.274C>T	c.(274-276)CGG>TGG	p.R92W	SAMD7_uc003fge.2_Missense_Mutation_p.R92W|SAMD7_uc011bpo.1_Translation_Start_Site	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	92										skin(1)	1	all_cancers(22;1.55e-22)|all_epithelial(15;2.41e-27)|all_lung(20;3.52e-17)|Lung NSC(18;1.44e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0106)			AATGATTCAACGGCATCATAC	0.358													31	58					0	0	0.015359	0	0		T	169642908	T	T	169642908	3	4	140	1	0	0	0	0	1	0	0	0	13849	527	19	1	284	1	SAMD7	3	169642908	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	34791175	169642908	28379522	168	75158											
NAALADL2	254827	broad.mit.edu	37	chr3	175189442	175189442	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggatttcaagaaggttCttcagaaaaatgttgtggct	12	14	10	5	0	4	2	3	0	1	2	4	3	4	3	0	3	0	3	0	3	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:175189442C>A	uc003fit.2	+	9	1636	c.1549C>A	c.(1549-1551)CTT>ATT	p.L517I	NAALADL2_uc003fiu.1_Missense_Mutation_p.L510I|NAALADL2_uc010hwy.1_Missense_Mutation_p.L291I|NAALADL2_uc010hwz.1_Missense_Mutation_p.L111I	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	517	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		CAAGAAGGTTCTTCAGAAAAA	0.343													13	24					1.15088e-07	1.22044e-07	0.004007	1	0		A	175189442	A	A	175189442	3	1	140	1	0	0	0	0	1	0	0	0	10148	913	32	5	1583	5	NAALADL2	3	175189442	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5546534	175189442	22832988	169	75159											
CCDC39	339829	broad.mit.edu	37	chr3	180365973	180365973	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggctgtacataatttcttGctgcttcaaggtttcaaaat	10	16	7	8	0	3	0	2	0	1	0	3	0	3	0	0	2	3	5	0	2	5	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:180365973G>C	uc010hxe.2	-	10	1457	c.1342C>G	c.(1342-1344)CAA>GAA	p.Q448E	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	448	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			ATAATTTCTTGCTGCTTCAAG	0.338													7	21					0	0	0.001984	0	0		C	180365973	C	C	180365973	3	2	140	1	0	0	0	0	1	0	0	0	2814	1328	46	5	1527	5	CCDC39	3	180365973	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	5176531	180365973	17656457	170	75160											
DNAJB11	51726	broad.mit.edu	37	chr3	186301734	186301734	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtcactggttggctttgAgatggatattactcacttgg	8	15	12	6	0	2	2	2	2	0	1	2	4	2	3	0	4	1	2	0	4	2	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:186301734A>G	uc003fqi.2	+	8	1041	c.821A>G	c.(820-822)GAG>GGG	p.E274G		NM_016306	NP_057390	Q9UBS4	DJB11_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 11	274					protein folding	endoplasmic reticulum lumen	heat shock protein binding			ovary(1)|lung(1)	2	all_cancers(143;2.84e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.44e-20)	GBM - Glioblastoma multiforme(93;0.0476)		GTTGGCTTTGAGATGGATATT	0.373													3	115					0	0	0.004672	0	0		G	186301734	G	G	186301734	3	3	140	1	0	0	0	0	1	0	0	0	4622	304	11	3	851	3	DNAJB11	3	186301734	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	5935761	186301734	11720696	171	75161											
KNG1	3827	broad.mit.edu	37	chr3	186449380	186449380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atacatcgatattcagctacGaattgcttccttctcacaga	12	13	5	11	2	2	1	2	0	1	1	5	3	3	1	1	0	4	2	1	0	4	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:186449380G>A	uc011bsa.1	+	6	931	c.719G>A	c.(718-720)CGA>CAA	p.R240Q	KNG1_uc003fqr.2_Missense_Mutation_p.R240Q	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	240	Cystatin 2.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	ATTCAGCTACGAATTGCTTCC	0.388													17	28					0	0	0.006122	0	0		A	186449380	A	A	186449380	3	1	140	1	0	0	0	0	1	0	0	0	8443	1058	37	1	741	1	KNG1	3	186449380	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	147646	186449380	11573050	172	75162											
ATP13A5	344905	broad.mit.edu	37	chr3	193028483	193028483	+	Frame_Shift_Del	DEL	A	-	-																															tgcccaggagacattcttgcAaaaactgttccattcaccag																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:193028483delA	uc011bsq.1	-	21	2469	c.2469delT	c.(2467-2469)TTTfs	p.F823fs		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	823					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		ACATTCTTGCAAAAACTGTTC	0.338													30	60	---	---	---	---						.	-	193028483	-	-	193028483	7	5	140	1	0	1	0	1	0	0	0	0	1128	127	5	0	1225	0	ATP13A5	3	193028483	Frame_Shift_Del	DEL	A	TCGA-CG-4465-01A-01D-1158-08	6579103	193028483	4993947	173	75163											
RNF168	165918	broad.mit.edu	37	chr3	196199236	196199237	+	Frame_Shift_Ins	INS	-	T	T																															cttcaaaggaagattcttggINSttttttcttttggaaatctc																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:196199236_196199237insT	uc003fwq.2	-	6	1707_1708	c.1169_1170insA	c.(1168-1170)AACfs	p.N390fs	RNF168_uc010iah.2_Frame_Shift_Ins_p.N223fs|uc010iag.1_5'Flank	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	390					double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		AAGATTCTTGGTTTTTTCTTTT	0.421													74	150	---	---	---	---						.	T	196199237	T	T	196199236	7	5	140	1	0	1	1	0	0	0	0	0	13484	1252	44	0	549	0	RNF168	3	196199236	Frame_Shift_Ins	INS	-	TCGA-CG-4465-01A-01D-1158-08	3170753	196199236	1823194	174	75164											
IQCG	84223	broad.mit.edu	37	chr3	197670673	197670673	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagatgctctgtctcccttcGtactgaacgggcatgatgta	8	12	10	11	2	2	3	0	2	2	1	4	3	2	3	1	1	3	4	1	1	3	3	rs143691583	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr3:197670673G>A	uc003fyo.2	-	3	404	c.258C>T	c.(256-258)TAC>TAT	p.Y86Y	IQCG_uc003fyp.2_Silent_p.Y86Y|IQCG_uc003fyq.3_Silent_p.Y86Y	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	86											0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;7.19e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.149)		GTCTCCCTTCGTACTGAACGG	0.453													39	90					0	0	0.00874	0	0		A	197670673	A	A	197670673	2	1	140	1	0	0	0	0	0	0	0	1	7826	1140	40	1		1	IQCG	3	197670673	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1471437	197670673	351757	175	75165											
MFSD7	84179	broad.mit.edu	37	chr4	677115	677115	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacagcccgagcagcgagcaGgtggcagccagggcaagggt	11	2	17	11	2	0	0	0	0	0	0	0	2	0	0	2	4	6	4	2	4	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:677115G>T	uc003gay.2	-	8	1095	c.1038C>A	c.(1036-1038)ACC>ACA	p.T346T	MFSD7_uc003gaw.2_Silent_p.T88T|MFSD7_uc003gax.2_Silent_p.T345T|MFSD7_uc003gaz.2_Silent_p.T227T|MFSD7_uc003gba.2_Silent_p.T249T|MFSD7_uc003gbb.1_Silent_p.T281T	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	346	Helical; (Potential).				transmembrane transport	integral to membrane					0						GCAGCGAGCAGGTGGCAGCCA	0.682													10	74					1.15088e-07	1.22044e-07	0.004007	1	0		T	677115	T	T	677115	2	4	140	1	0	0	0	0	0	0	0	1	9555	987	35	5		5	MFSD7	4	677115	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08		677115	190477161	176	75166											
JAKMIP1	152789	broad.mit.edu	37	chr4	6086667	6086667	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttagttgaaatcgcctcAcatctcgctcgtccatatgt	8	16	6	11	3	2	1	1	1	1	0	6	1	3	1	2	0	0	2	2	0	3	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:6086667A>G	uc003giu.3	-	5	1136	c.860T>C	c.(859-861)GTG>GCG	p.V287A	JAKMIP1_uc010idb.1_Missense_Mutation_p.V287A|JAKMIP1_uc010idc.1_Missense_Mutation_p.V122A|JAKMIP1_uc010idd.1_Missense_Mutation_p.V287A|JAKMIP1_uc011bwc.1_Missense_Mutation_p.V122A|JAKMIP1_uc003giv.3_Missense_Mutation_p.V287A|JAKMIP1_uc010ide.2_Missense_Mutation_p.V287A	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	287	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						AAATCGCCTCACATCTCGCTC	0.363													71	200					0	0	0.01441	0	0		G	6086667	G	G	6086667	3	3	140	1	0	0	0	0	1	0	0	0	7956	159	6	3	1778	3	JAKMIP1	4	6086667	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	5409552	6086667	185067609	177	75167											
SHISA3	152573	broad.mit.edu	37	chr4	42403032	42403032	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtttttgccttttagagcCtgtctacgtcccctttctca	4	18	6	13	1	2	1	1	0	2	1	4	1	3	1	4	0	3	1	4	0	2	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:42403032C>A	uc003gwp.2	+	2	499	c.281C>A	c.(280-282)CCT>CAT	p.P94H		NM_001080505	NP_001073974	A0PJX4	SHSA3_HUMAN	shisa homolog 3 precursor	94	Extracellular (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|skin(1)	2						CTTTTAGAGCCTGTCTACGTC	0.493													20	187					2.37509e-13	2.62689e-13	0.010504	1	0		A	42403032	A	A	42403032	3	1	140	1	0	0	0	0	1	0	0	0	14306	681	24	5	287	5	SHISA3	4	42403032	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	36316365	42403032	148751244	178	75168											
GABRG1	2565	broad.mit.edu	37	chr4	46099285	46099285	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagaatttgtgtgatatcTccttcatgaatttttggggc	8	18	9	6	0	3	3	2	2	1	1	4	3	3	3	1	2	0	0	1	2	3	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:46099285T>G	uc003gxb.2	-	2	338	c.186A>C	c.(184-186)GGA>GGC	p.G62G		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	62	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		GTGTGATATCTCCTTCATGAA	0.368													15	205					0	0	0.004007	0	0		G	46099285	G	G	46099285	2	3	140	1	0	0	0	0	0	0	0	1	6185	1538	54	5		5	GABRG1	4	46099285	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	3696253	46099285	145054991	179	75169											
LRRC66	339977	broad.mit.edu	37	chr4	52861644	52861644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acattagttcacggttaccgGcatgtggatgtctctggaga	9	12	12	8	2	2	1	1	0	1	1	3	3	2	2	1	4	1	3	1	4	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:52861644G>A	uc003gzi.2	-	4	1557	c.1544C>T	c.(1543-1545)GCC>GTC	p.A515V		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	515						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						ACGGTTACCGGCATGTGGATG	0.537													5	160					0	0	0.014758	0	0		A	52861644	A	A	52861644	3	1	140	1	0	0	0	0	1	0	0	0	9036	1203	42	2	1102	2	LRRC66	4	52861644	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	6762359	52861644	138292632	180	75170											
RASL11B	65997	broad.mit.edu	37	chr4	53728803	53728803	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtggtgggcgccagcggCgtgggcaagaccggtgagtc	5	5	20	11	5	0	2	0	1	0	1	1	2	0	2	3	5	1	1	3	5	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:53728803C>T	uc003gzt.2	+	1	309	c.129C>T	c.(127-129)GGC>GGT	p.G43G		NM_023940	NP_076429	Q9BPW5	RSLBB_HUMAN	RAS-like family 11 member B	43	Small GTPase-like.|GTP (By similarity).				small GTPase mediated signal transduction	membrane	GTP binding|GTPase activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0302)			GCGCCAGCGGCGTGGGCAAGA	0.726													11	21					0	0	0.013537	0	0		T	53728803	T	T	53728803	2	4	140	1	0	0	0	0	0	0	0	1	13107	755	27	1		1	RASL11B	4	53728803	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	867159	53728803	137425473	181	75171											
SRP72	6731	broad.mit.edu	37	chr4	57366808	57366808	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaagaagggtaaaaagaaGgatcagattggaaaagggac	21	4	14	2	0	1	4	1	0	0	4	1	7	1	7	0	4	0	1	0	4	8	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:57366808G>T	uc003hbv.2	+	18	1825	c.1785G>T	c.(1783-1785)AAG>AAT	p.K595N	SRP72_uc010ihe.2_Missense_Mutation_p.K534N|SRP72_uc003hbx.2_RNA	NM_006947	NP_008878	O76094	SRP72_HUMAN	signal recognition particle 72kDa	595					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|nucleolus|plasma membrane|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding			ovary(1)	1	Glioma(25;0.08)|all_neural(26;0.101)					GTAAAAAGAAGGATCAGATTG	0.448													13	84					7.03913e-09	7.57909e-09	0.013537	1	0		T	57366808	T	T	57366808	3	4	140	1	0	0	0	0	1	0	0	0	15182	991	35	5	1855	5	SRP72	4	57366808	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3638005	57366808	133787468	182	75172											
UBA6	55236	broad.mit.edu	37	chr4	68547904	68547904	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccatcttctgcattgcTgtgtctccaagaacgtacct	7	14	8	12	1	3	1	0	0	3	1	4	1	3	1	3	1	4	3	3	1	3	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:68547904T>C	uc003hdg.3	-	3	214	c.162A>G	c.(160-162)ACA>ACG	p.T54T	UBA6_uc003hdi.2_Silent_p.T54T|UBA6_uc003hdj.2_Silent_p.T54T	NM_018227	NP_060697	A0AVT1	UBA6_HUMAN	ubiquitin-activating enzyme E1-like 2	54					protein ubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm	ATP binding|FAT10 activating enzyme activity|ligase activity|protein binding				0						TCTGCATTGCTGTGTCTCCAA	0.338													28	61					0	0	0.012213	0	0		C	68547904	C	C	68547904	2	2	140	1	0	0	0	0	0	0	0	1	16858	1567	55	3		3	UBA6	4	68547904	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	11181096	68547904	122606372	183	75173											
RUFY3	22902	broad.mit.edu	37	chr4	71660543	71660546	+	Frame_Shift_Del	DEL	AAAG	-	-																															agttagaactaaaacaggaaAaagaaagaagattacaaaac																								rs148897085		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:71660543_71660546delAAAG	uc003hfr.2	+	14	2084_2087	c.1489_1492delAAAG	c.(1489-1494)AAAGAAfs	p.K497fs	RUFY3_uc011cay.1_Frame_Shift_Del_p.K433fs	NM_001037442	NP_001032519	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 1	332_Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			AAAACAGGAAAAAGAAAGAAGATT	0.373													60	126	---	---	---	---						.	-	71660546	-	-	71660543	7	5	140	1	0	1	0	1	0	0	0	0	13765	15	1	0	1986	0	RUFY3	4	71660543	Frame_Shift_Del	DEL	AAAG	TCGA-CG-4465-01A-01D-1158-08	3112639	71660543	119493733	184	75174											
HNRPDL	9987	broad.mit.edu	37	chr4	83349475	83349475	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagcacaaatccaaatcCtcttgatctcccagtgactg	14	9	6	12	0	2	2	0	2	2	0	5	3	4	2	3	0	1	1	3	0	4	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:83349475C>A	uc003hmr.2	-	2	1103	c.568G>T	c.(568-570)GGA>TGA	p.G190*	ENOPH1_uc003hmv.2_5'Flank|ENOPH1_uc003hmw.2_5'Flank|ENOPH1_uc003hmx.2_5'Flank|HNRPDL_uc003hmq.2_RNA|HNRPDL_uc003hms.2_RNA|HNRPDL_uc003hmt.2_Nonsense_Mutation_p.G190*	NM_031372	NP_112740	O14979	HNRDL_HUMAN	heterogeneous nuclear ribonucleoprotein D-like	190	RRM 1.				regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|heterogeneous nuclear ribonucleoprotein complex	double-stranded DNA binding|nucleotide binding|poly(A) RNA binding|protein binding|single-stranded DNA binding			skin(1)	1		Hepatocellular(203;0.114)				AATCCAAATCCTCTTGATCTC	0.398													55	100					3.28156e-27	3.76988e-27	0.01441	1	0		A	83349475	A	A	83349475	4	1	140	1	0	0	0	0	0	1	0	0	7292	690	24	5	718	5	HNRPDL	4	83349475	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	11688932	83349475	107804801	185	75175											
BMPR1B	658	broad.mit.edu	37	chr4	96025645	96025646	+	Frame_Shift_Ins	INS	-	C	C																															tggtgagagtacagcccccaINSccccccgtccaaaggtcttg																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:96025645_96025646insC	uc003htm.3	+	4	344_345	c.70_71insC	c.(70-72)ACCfs	p.T24fs	BMPR1B_uc010ilb.2_Frame_Shift_Ins_p.T24fs|BMPR1B_uc003htn.3_Frame_Shift_Ins_p.T24fs	NM_001203	NP_001194	O00238	BMR1B_HUMAN	bone morphogenetic protein receptor, type IB	24	Extracellular (Potential).				BMP signaling pathway|cartilage condensation|eye development|limb morphogenesis|ovarian cumulus expansion|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	receptor complex	ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta receptor activity			lung(4)|skin(2)|stomach(1)|breast(1)	8		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.51e-07)		TACAGCCCCCACCCCCCGTCCA	0.431													36	80	---	---	---	---						.	C	96025646	C	C	96025645	7	5	140	1	0	1	1	0	0	0	0	0	1471	159	6	0	72	0	BMPR1B	4	96025645	Frame_Shift_Ins	INS	-	TCGA-CG-4465-01A-01D-1158-08	12676170	96025645	95128631	186	75176											
UNC5C	8633	broad.mit.edu	37	chr4	96163632	96163632	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattgcaagacgaggccgtcGcagtccttgcctccattctt	7	11	10	13	3	1	1	0	0	1	1	4	3	3	1	4	1	2	2	4	1	1	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:96163632G>A	uc003htp.1	-	7	1210	c.1056C>T	c.(1054-1056)TGC>TGT	p.C352C	UNC5C_uc010ilc.1_Silent_p.C352C|UNC5C_uc003htq.2_Silent_p.C352C	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	352	Extracellular (Potential).|TSP type-1 2.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		CGAGGCCGTCGCAGTCCTTGC	0.562													10	23					0	0	0.006214	0	0		A	96163632	A	A	96163632	2	1	140	1	0	0	0	0	0	0	0	1	17019	1079	38	1		1	UNC5C	4	96163632	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	137987	96163632	94990644	187	75177											
C4orf17	84103	broad.mit.edu	37	chr4	100451003	100451003	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaaaagaccaccatcacCtccaaaggcatgctctactc	13	6	6	16	0	2	1	1	0	1	1	4	1	3	1	5	2	2	2	5	2	4	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:100451003C>A	uc003huw.2	+	5	757	c.434C>A	c.(433-435)CCT>CAT	p.P145H	C4orf17_uc003hux.2_RNA	NM_032149	NP_115525	Q53FE4	CD017_HUMAN	hypothetical protein LOC84103	145											0				OV - Ovarian serous cystadenocarcinoma(123;2.08e-08)		CCACCATCACCTCCAAAGGCA	0.368													25	78					4.47668e-21	5.11242e-21	0.021523	1	0		A	100451003	A	A	100451003	3	1	140	1	0	0	0	0	1	0	0	0	2255	681	24	5	448	5	C4orf17	4	100451003	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4287371	100451003	90703273	188	75178											
PPP3CA	5530	broad.mit.edu	37	chr4	101947132	101947132	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagggcatggcatctctgcGaggcggcatcctctcattaa	9	9	12	11	2	2	1	1	0	2	1	5	2	3	1	1	4	1	3	1	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:101947132G>A	uc011cen.1	-	14	2131	c.1456C>T	c.(1456-1458)CGC>TGC	p.R486C	PPP3CA_uc003hvu.2_Missense_Mutation_p.R476C|PPP3CA_uc010ilj.2_Missense_Mutation_p.R434C|PPP3CA_uc003hvt.2_Missense_Mutation_p.R463C|PPP3CA_uc003hvs.2_Missense_Mutation_p.R419C|PPP3CA_uc010ilk.2_Missense_Mutation_p.R254C	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha	486	Inhibitory domain.				protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)		GCATCTCTGCGAGGCGGCATC	0.483													71	132					0	0	0.01441	0	0		A	101947132	A	A	101947132	3	1	140	1	0	0	0	0	1	0	0	0	12419	1058	37	1	113	1	PPP3CA	4	101947132	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1496129	101947132	89207144	189	75179											
SEC24B	10427	broad.mit.edu	37	chr4	110437688	110437688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttattcctttcagctgcGtcctcctcaacctgcagttt	5	18	5	13	1	2	0	2	0	0	0	5	0	5	0	4	0	4	3	4	0	2	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:110437688G>A	uc003hzk.2	+	11	2073	c.2018G>A	c.(2017-2019)CGT>CAT	p.R673H	SEC24B_uc003hzl.2_Missense_Mutation_p.R638H|SEC24B_uc011cfp.1_Missense_Mutation_p.R703H|SEC24B_uc011cfq.1_Missense_Mutation_p.R672H|SEC24B_uc011cfr.1_Missense_Mutation_p.R637H	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	673					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		TTTCAGCTGCGTCCTCCTCAA	0.318													4	49					0	0	0.001168	0	0		A	110437688	A	A	110437688	3	1	140	1	0	0	0	0	1	0	0	0	14020	1145	40	1	2060	1	SEC24B	4	110437688	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	8490556	110437688	80716588	190	75180											
ANKRD50	57182	broad.mit.edu	37	chr4	125591592	125591592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagatataaagtgtaggcCgaccatcagcatctttgcag	13	9	9	10	1	2	1	1	0	1	1	2	2	2	1	3	1	2	3	3	1	5	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:125591592C>T	uc003ifg.3	-	3	3106	c.2840G>A	c.(2839-2841)CGG>CAG	p.R947Q	ANKRD50_uc011cgo.1_Missense_Mutation_p.R768Q|ANKRD50_uc010inw.2_Missense_Mutation_p.R947Q	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	947	ANK 15.									central_nervous_system(1)	1						AAGTGTAGGCCGACCATCAGC	0.428													25	68					0	0	0.016522	0	0		T	125591592	T	T	125591592	3	4	140	1	0	0	0	0	1	0	0	0	677	652	23	1	1453	1	ANKRD50	4	125591592	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	15153904	125591592	65562684	191	75181											
FAT4	79633	broad.mit.edu	37	chr4	126328090	126328090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagctgatgatagttttcGcatcgacccagaatccggag	10	10	12	9	3	0	3	0	2	0	1	3	6	1	5	2	2	1	3	2	2	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:126328090G>A	uc003ifj.3	+	3	5363	c.5363G>A	c.(5362-5364)CGC>CAC	p.R1788H	FAT4_uc011cgp.1_Missense_Mutation_p.R86H	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1788	Cadherin 17.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GATAGTTTTCGCATCGACCCA	0.468													54	118					0	0	0.01441	0	0		A	126328090	A	A	126328090	3	1	140	1	0	0	0	0	1	0	0	0	5706	1087	38	1	5373	1	FAT4	4	126328090	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	736498	126328090	64826186	192	75182											
POU4F2	5458	broad.mit.edu	37	chr4	147561490	147561490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatgagcgacgtggacgccGacccgcgggacctggaggca	8	3	17	13	6	0	1	0	1	0	0	0	6	0	4	3	4	1	2	3	4	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:147561490G>A	uc003ikv.2	+	2	1008	c.760G>A	c.(760-762)GAC>AAC	p.D254N		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	254	POU-specific.				estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					CGTGGACGCCGACCCGCGGGA	0.677													12	19					0	0	0.010729	0	0		A	147561490	A	A	147561490	3	1	140	1	0	0	0	0	1	0	0	0	12298	1058	37	1	766	1	POU4F2	4	147561490	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	21233400	147561490	43592786	193	75183											
GLRB	2743	broad.mit.edu	37	chr4	158065036	158065036	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgggggtctacgccccaActctgctcattgttgttctc	5	14	10	12	1	4	1	1	1	3	0	5	1	4	1	2	2	3	3	2	2	2	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:158065036A>G	uc003ipj.2	+	8	1031	c.829A>G	c.(829-831)ACT>GCT	p.T277A		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	277	Helical; (Probable).				nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	CTACGCCCCAACTCTGCTCAT	0.522													12	67					0	0	0.010729	0	0		G	158065036	G	G	158065036	3	3	140	1	0	0	0	0	1	0	0	0	6473	43	2	3	855	3	GLRB	4	158065036	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	10503546	158065036	33089240	194	75184											
MFAP3L	9848	broad.mit.edu	37	chr4	170912625	170912625	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcggcagtaccttatctggTacctcaacaggtgttggctc	7	11	12	11	1	2	0	1	0	1	0	3	0	2	0	2	5	3	5	2	5	4	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:170912625T>C	uc003isp.3	-	3	1312	c.1134A>G	c.(1132-1134)GTA>GTG	p.V378V	MFAP3L_uc003isn.3_Silent_p.V275V	NM_021647	NP_067679	O75121	MFA3L_HUMAN	microfibrillar-associated protein 3-like isoform	378	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0201)|LUSC - Lung squamous cell carcinoma(193;0.116)		CCTTATCTGGTACCTCAACAG	0.502													47	100					0	0	0.01441	0	0		C	170912625	C	C	170912625	2	2	140	1	0	0	0	0	0	0	0	1	9534	1625	57	3		3	MFAP3L	4	170912625	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	12847589	170912625	20241651	195	75185											
VEGFC	7424	broad.mit.edu	37	chr4	177608669	177608669	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgtcatggaatccatctgTtgagtctagacaaatagtca	13	12	9	7	0	4	2	2	1	2	1	5	4	5	3	1	1	0	1	1	1	4	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:177608669T>G	uc003ius.1	-	6	1247	c.817A>C	c.(817-819)ACA>CCA	p.T273P		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	273					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		AATCCATCTGTTGAGTCTAGA	0.458													5	27					0	0	0.014758	0	0		G	177608669	G	G	177608669	3	3	140	1	0	0	0	0	1	0	0	0	17178	1725	60	5	453	5	VEGFC	4	177608669	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	6696044	177608669	13545607	196	75186											
ODZ3	55714	broad.mit.edu	37	chr4	183673077	183673077	+	Frame_Shift_Del	DEL	A	-	-																															cgggggcaaaagacttgactAaaaatgcagaagtcgtcgca																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:183673077delA	uc003ivd.1	+	19	3791	c.3754delA	c.(3754-3756)AAAfs	p.K1252fs	ODZ3_uc003ive.1_Frame_Shift_Del_p.K665fs	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1252	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		AGACTTGACTAAAAATGCAGA	0.537													45	48	---	---	---	---						.	-	183673077	-	-	183673077	7	5	140	1	0	1	0	1	0	0	0	0	10855	363	13	0	3828	0	ODZ3	4	183673077	Frame_Shift_Del	DEL	A	TCGA-CG-4465-01A-01D-1158-08	6064408	183673077	7481199	197	75187											
SORBS2	8470	broad.mit.edu	37	chr4	186545527	186545527	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaactaatggctcttggTgagtcccgagggacatccaa	11	10	11	9	1	1	2	0	2	1	0	3	4	3	3	2	3	1	1	2	3	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:186545527T>C	uc003iyl.2	-	13	1902	c.1044A>G	c.(1042-1044)TCA>TCG	p.S348S	SORBS2_uc003iyh.2_Intron|SORBS2_uc011ckw.1_Intron|SORBS2_uc003iyi.2_Intron|SORBS2_uc011ckx.1_Intron|SORBS2_uc003iyk.2_Intron|SORBS2_uc003iym.2_Silent_p.S448S|SORBS2_uc003iyn.1_Intron|SORBS2_uc011cku.1_Intron|SORBS2_uc011ckv.1_Silent_p.S252S|SORBS2_uc003iyd.2_Intron|SORBS2_uc003iye.2_Intron|SORBS2_uc003iya.2_Intron|SORBS2_uc003iyb.2_Intron|SORBS2_uc003iyc.2_Intron|SORBS2_uc003iyg.2_Silent_p.S462S|SORBS2_uc003iyf.2_Intron|SORBS2_uc003iyo.1_Intron	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	348						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		TGGCTCTTGGTGAGTCCCGAG	0.517													21	84					0	0	0.010504	0	0		C	186545527	C	C	186545527	2	2	140	1	0	0	0	0	0	0	0	1	14953	1683	59	3		3	SORBS2	4	186545527	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	2872450	186545527	4608749	198	75188											
TRIML1	339976	broad.mit.edu	37	chr4	189060625	189060625	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataggaacaggtcacccgcGtgttactcaaaactgtagga	13	8	10	10	2	2	0	2	0	0	0	2	2	2	2	1	3	3	2	1	3	6	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr4:189060625G>A	uc003izm.1	+	1	28	c.-87G>A	c.(-89--85)GCGTG>GCATG			NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1						multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		GGTCACCCGCGTGTTACTCAA	0.468													13	21					0	0	0.016723	0	0		A	189060625	A	A	189060625	1	1	140	1	0	0	0	0	0	0	0	0	16576	1160	40	1		1	TRIML1	4	189060625	Translation_Start_Site	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2515098	189060625	2093651	199	75189											
LPCAT1	79888	broad.mit.edu	37	chr5	1501591	1501591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttacttcctccacagggccGggggctgctcgggttccttc	3	11	12	15	2	0	0	0	0	0	0	5	0	3	0	4	4	2	3	4	4	1	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:1501591G>A	uc003jcm.2	-	2	380	c.263C>T	c.(262-264)CCG>CTG	p.P88L		NM_024830	NP_079106	Q8NF37	PCAT1_HUMAN	lysophosphatidylcholine acyltransferase 1	88	Lumenal (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(19;0.0274)|all cancers(22;0.0534)	GBM - Glioblastoma multiforme(108;0.156)		CCACAGGGCCGGGGGCTGCTC	0.672													9	26					0	0	0.013537	0	0		A	1501591	A	A	1501591	3	1	140	1	0	0	0	0	1	0	0	0	8928	1116	39	1	1393	1	LPCAT1	5	1501591	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08		1501591	179413669	200	75190											
KIAA0947	23379	broad.mit.edu	37	chr5	5436579	5436579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaccttgaaacaaaaaattAtcaatacagagtaagtatat	20	12	4	5	0	1	2	1	1	0	1	1	2	1	2	1	0	3	2	1	0	11	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:5436579A>G	uc003jdm.3	+	2	355	c.133A>G	c.(133-135)ATC>GTC	p.I45V		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	45	Potential.									ovary(1)|central_nervous_system(1)	2						ACAAAAAATTATCAATACAGA	0.348													7	3					0	0	0.004482	0	0		G	5436579	G	G	5436579	3	3	140	1	0	0	0	0	1	0	0	0	8218	449	16	3	139	3	KIAA0947	5	5436579	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	3934988	5436579	175478681	201	75191											
ROPN1L	83853	broad.mit.edu	37	chr5	10442330	10442330	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcagatccacattcccccGgagctgccggacatcctgaa	10	6	9	16	2	0	2	0	1	0	1	3	4	3	4	5	2	3	2	5	2	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:10442330G>A	uc003jex.3	+	1	322	c.51G>A	c.(49-51)CCG>CCA	p.P17P		NM_031916	NP_114122	Q96C74	ROP1L_HUMAN	ropporin 1-like	17	RIIa.				ciliary or flagellar motility|signal transduction	cytoplasm|motile cilium	cAMP-dependent protein kinase regulator activity|protein binding			ovary(1)	1						ACATTCCCCCGGAGCTGCCGG	0.677													5	82					0	0	0.001984	0	0		A	10442330	A	A	10442330	2	1	140	1	0	0	0	0	0	0	0	1	13550	1103	39	1		1	ROPN1L	5	10442330	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	5005751	10442330	170472930	202	75192											
MYO10	4651	broad.mit.edu	37	chr5	16694521	16694521	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcccttgagcttctcctcGctgtcgttttcaaagtacat	6	15	8	12	2	2	1	1	1	1	0	5	1	2	1	2	0	3	4	2	0	2	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:16694521G>A	uc003jft.3	-	27	4227	c.3759C>T	c.(3757-3759)AGC>AGT	p.S1253S	MYO10_uc011cnc.1_Silent_p.S132S|MYO10_uc011cnd.1_Silent_p.S610S|MYO10_uc011cne.1_Silent_p.S610S|MYO10_uc010itx.2_Silent_p.S876S	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1253	PH 1.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						GCTTCTCCTCGCTGTCGTTTT	0.547													84	135					0	0	0.01441	0	0		A	16694521	A	A	16694521	2	1	140	1	0	0	0	0	0	0	0	1	10080	1078	38	1		1	MYO10	5	16694521	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	6252191	16694521	164220739	203	75193											
RICTOR	253260	broad.mit.edu	37	chr5	38945599	38945599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acgtgatcacttacctgaatGactacatattgcactcagtt	12	13	6	10	1	2	3	2	3	0	0	2	3	2	3	1	0	3	2	1	0	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:38945599G>A	uc003jlp.2	-	34	4651	c.4627C>T	c.(4627-4629)CAT>TAT	p.H1543Y	RICTOR_uc003jlo.2_Missense_Mutation_p.H1567Y|RICTOR_uc010ivf.2_Missense_Mutation_p.H1220Y	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	1543					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					TTACCTGAATGACTACATATT	0.378													31	72					0	0	0.008361	0	0		A	38945599	A	A	38945599	3	1	140	1	0	0	0	0	1	0	0	0	13383	1290	45	4	519	4	RICTOR	5	38945599	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	22251078	38945599	141969661	204	75194											
MIER3	166968	broad.mit.edu	37	chr5	56233480	56233481	+	Frame_Shift_Del	DEL	GA	-	-																															cagatcatccgcagaagactGagtttcctcgtcatcacctg																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:56233480_56233481delGA	uc003jrd.1	-	5	385_386	c.360_361delTC	c.(358-363)ACTCAGfs	p.T120fs	MIER3_uc003jqz.1_Frame_Shift_Del_p.T57fs|MIER3_uc003jra.1_Frame_Shift_Del_p.T120fs|MIER3_uc003jrb.1_5'UTR|MIER3_uc003jrc.1_Frame_Shift_Del_p.T125fs	NM_152622	NP_689835	Q7Z3K6	MIER3_HUMAN	mesoderm induction early response 1, family	120_121					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Lung NSC(810;4.65e-05)|Prostate(74;0.0253)|Breast(144;0.0503)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;1.24e-37)		GCAGAAGACTGAGTTTCCTCGT	0.416													63	84	---	---	---	---						.	-	56233481	-	-	56233480	7	5	140	1	0	1	0	1	0	0	0	0	9600	1299	45	0	1324	0	MIER3	5	56233480	Frame_Shift_Del	DEL	GA	TCGA-CG-4465-01A-01D-1158-08	17287881	56233480	124681780	205	75195											
NLN	57486	broad.mit.edu	37	chr5	65081624	65081624	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaccataattttgcagcAgctactcccactgcgaacca	14	8	5	14	1	0	0	0	0	0	0	1	1	1	0	3	0	7	3	3	0	4	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:65081624A>G	uc003juf.2	+	7	961	c.845A>G	c.(844-846)CAG>CGG	p.Q282R	NLN_uc003jue.2_Missense_Mutation_p.Q282R|NLN_uc003jug.2_Missense_Mutation_p.Q111R|NLN_uc010iww.2_5'UTR	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	282					proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)		ATTTTGCAGCAGCTACTCCCA	0.403													14	67					0	0	0.00632	0	0		G	65081624	G	G	65081624	3	3	140	1	0	0	0	0	1	0	0	0	10486	188	7	3	871	3	NLN	5	65081624	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	8848144	65081624	115833636	206	75196											
MAST4	375449	broad.mit.edu	37	chr5	66084576	66084576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccaacctcgtgcgcatgcGcagccaggccctgggccagt	6	6	13	16	3	0	0	0	0	0	0	2	0	1	0	5	2	4	2	5	2	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:66084576G>A	uc003jur.3	+	3	904	c.596G>A	c.(595-597)CGC>CAC	p.R199H	MAST4_uc010iwz.2_Missense_Mutation_p.R199H	NM_198828	NP_942123	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	199						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		GTGCGCATGCGCAGCCAGGCC	0.672													7	41					0	0	0.00308	0	0		A	66084576	A	A	66084576	3	1	140	1	0	0	0	0	1	0	0	0	9345	1087	38	1	606	1	MAST4	5	66084576	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1002952	66084576	114830684	207	75197											
MAP1B	4131	broad.mit.edu	37	chr5	71411594	71411594	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaaactttttgtatctcGacactctgcaagattctctc	10	15	4	12	1	4	1	1	0	3	1	7	2	4	1	0	0	2	2	0	0	3	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:71411594G>T	uc003kbw.3	+	2	495	c.254G>T	c.(253-255)CGA>CTA	p.R85L	MAP1B_uc010iyw.1_Missense_Mutation_p.R85L|MAP1B_uc010iyx.1_5'UTR	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	85						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		TTTGTATCTCGACACTCTGCA	0.468													26	66					3.57733e-08	3.81978e-08	0.009535	1	0		T	71411594	T	T	71411594	3	4	140	1	0	0	0	0	1	0	0	0	9246	1058	37	5	260	5	MAP1B	5	71411594	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	5327018	71411594	109503666	208	75198											
TMEM174	134288	broad.mit.edu	37	chr5	72469122	72469122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctgtcaatgtgttctccGtcactccttacacacccagc	7	12	5	17	1	3	0	2	0	1	0	6	0	5	0	4	0	2	1	4	0	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:72469122G>A	uc010izc.2	+	1	100	c.52G>A	c.(52-54)GTC>ATC	p.V18I		NM_153217	NP_694949	Q8WUU8	TM174_HUMAN	transmembrane protein 174	18						integral to membrane				ovary(1)	1		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.46e-54)		TGTGTTCTCCGTCACTCCTTA	0.582													103	236					0	0	0.01441	0	0		A	72469122	A	A	72469122	3	1	140	1	0	0	0	0	1	0	0	0	16115	1145	40	1	54	1	TMEM174	5	72469122	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1057528	72469122	108446138	209	75199											
VCAN	1462	broad.mit.edu	37	chr5	82789716	82789716	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccgttctccccaggaaacTtacgatgtgtattgttatgt	8	16	8	9	2	1	0	0	0	1	0	3	2	2	1	3	1	2	3	3	1	4	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:82789716T>G	uc003kii.3	+	5	1070	c.714T>G	c.(712-714)ACT>ACG	p.T238T	VCAN_uc003kij.3_Silent_p.T238T|VCAN_uc010jau.2_Silent_p.T238T|VCAN_uc003kik.3_Silent_p.T238T|VCAN_uc003kih.3_Silent_p.T238T	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	238	Link 1.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CCCAGGAAACTTACGATGTGT	0.448													9	170					0	0	0.010729	0	0		G	82789716	G	G	82789716	2	3	140	1	0	0	0	0	0	0	0	1	17164	1596	56	5		5	VCAN	5	82789716	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	10320594	82789716	98125544	210	75200											
VCAN	1462	broad.mit.edu	37	chr5	82816658	82816658	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaggataaagacatcccaAgtttcactgaagatggagca	17	7	10	7	0	1	3	1	1	0	2	2	6	2	5	1	2	1	2	1	2	5	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:82816658A>C	uc003kii.3	+	7	2889	c.2533A>C	c.(2533-2535)AGT>CGT	p.S845R	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.S845R|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	845	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		AGACATCCCAAGTTTCACTGA	0.428													54	111					0	0	0.01441	0	0		C	82816658	C	C	82816658	3	2	140	1	0	0	0	0	1	0	0	0	17164	72	3	5	2555	5	VCAN	5	82816658	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	26942	82816658	98098602	211	75201											
EDIL3	10085	broad.mit.edu	37	chr5	83356138	83356138	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtaaccattgtgactggTcattgtggccagaggtccag	8	11	12	10	0	1	2	1	1	0	1	2	2	2	2	4	3	1	1	4	3	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:83356138T>C	uc003kio.1	-	9	1537	c.1118A>G	c.(1117-1119)GAC>GGC	p.D373G	EDIL3_uc003kip.1_Missense_Mutation_p.D363G|EDIL3_uc011ctt.1_Missense_Mutation_p.D150G	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like	373	F5/8 type C 2.				cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)		TTGTGACTGGTCATTGTGGCC	0.453													21	51					0	0	0.008361	0	0		C	83356138	C	C	83356138	3	2	140	1	0	0	0	0	1	0	0	0	4921	1667	58	3	336	3	EDIL3	5	83356138	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	539480	83356138	97559122	212	75202											
EDIL3	10085	broad.mit.edu	37	chr5	83360536	83360536	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacccgacagttcacagccaAgaagttccattcgcaaagtg	13	8	8	12	2	1	1	1	0	0	1	3	2	2	1	3	0	2	3	3	0	4	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:83360536A>G	uc003kio.1	-	8	1354	c.935T>C	c.(934-936)CTT>CCT	p.L312P	EDIL3_uc003kip.1_Missense_Mutation_p.L302P|EDIL3_uc011ctt.1_Missense_Mutation_p.L89P	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like	312	F5/8 type C 1.				cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)		TTCACAGCCAAGAAGTTCCAT	0.373													23	52					0	0	0.01892	0	0		G	83360536	G	G	83360536	3	3	140	1	0	0	0	0	1	0	0	0	4921	72	3	3	523	3	EDIL3	5	83360536	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	4398	83360536	97554724	213	75203											
GPR98	84059	broad.mit.edu	37	chr5	89938835	89938835	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatagtgatcaccttgctaGcaagattggatgggatacca	13	10	11	7	0	1	3	1	1	0	2	1	5	1	5	2	2	3	2	2	2	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:89938835G>T	uc003kju.2	+	13	2626	c.2530G>T	c.(2530-2532)GCA>TCA	p.A844S	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	844	Extracellular (Potential).|Calx-beta 6.				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CACCTTGCTAGCAAGATTGGA	0.353													18	172					2.27731e-05	2.36301e-05	0.012319	1	0		T	89938835	T	T	89938835	3	4	140	1	0	0	0	0	1	0	0	0	6737	971	34	5	2580	5	GPR98	5	89938835	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	6578299	89938835	90976425	214	75204											
FAM81B	153643	broad.mit.edu	37	chr5	94731879	94731879	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctagttgaatatgttgacaAgtaagtgtgtaaattacaac	15	14	8	4	0	1	2	0	2	1	0	1	2	1	2	0	0	2	4	0	0	9	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:94731879A>T	uc003kla.1	+	3	339	c.293A>T	c.(292-294)AAG>ATG	p.K98M	FAM81B_uc010jbe.1_Translation_Start_Site	NM_152548	NP_689761	Q96LP2	FA81B_HUMAN	hypothetical protein LOC153643	98										ovary(1)|skin(1)	2		all_cancers(142;1.1e-06)|all_epithelial(76;1.48e-09)|all_lung(232;0.000696)|Lung NSC(167;0.000947)|Ovarian(225;0.00473)		all cancers(79;1.04e-16)		TATGTTGACAAGTAAGTGTGT	0.299													19	34					0	0	0.008871	0	0		T	94731879	T	T	94731879	3	4	140	1	0	0	0	0	1	0	0	0	5643	86	3	5	303	5	FAM81B	5	94731879	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	4793044	94731879	86183381	215	75205											
APC	324	broad.mit.edu	37	chr5	112137021	112137021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggctcacatgatgctgagCggcagaatgaaggtcaagga	12	6	14	9	2	2	4	2	3	0	1	2	5	2	5	1	4	2	3	1	4	3	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:112137021C>T	uc010jby.2	+	8	1155	c.775C>T	c.(775-777)CGG>TGG	p.R259W	APC_uc011cvt.1_Missense_Mutation_p.R241W|APC_uc003kpz.3_Missense_Mutation_p.R259W|APC_uc003kpy.3_Missense_Mutation_p.R259W|APC_uc010jbz.2_5'UTR	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	259	Leu-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity			large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGATGCTGAGCGGCAGAATGA	0.363		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			7	40					0	0	0.001984	0	0		T	112137021	T	T	112137021	3	4	140	1	0	0	0	0	1	0	0	0	763	759	27	1	801	1	APC	5	112137021	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	17405142	112137021	68778239	216	75206											
PDLIM4	8572	broad.mit.edu	37	chr5	131607852	131607852	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgagagccacgccaaggCgcgcgtgaagccgcccgagg	8	3	16	14	6	0	2	0	2	0	1	0	4	0	2	4	2	2	0	4	2	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:131607852C>A	uc003kwn.2	+	7	1000	c.923C>A	c.(922-924)GCG>GAG	p.A308E	uc003kwm.3_Intron|PDLIM4_uc003kwp.2_3'UTR|PDLIM4_uc003kwo.2_Missense_Mutation_p.A416E	NM_003687	NP_003678	P50479	PDLI4_HUMAN	PDZ and LIM domain 4 isoform 1	308	LIM zinc-binding.						protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CACGCCAAGGCGCGCGTGAAG	0.622													25	39					5.8336e-16	6.53634e-16	0.015359	1	0		A	131607852	A	A	131607852	3	1	140	1	0	0	0	0	1	0	0	0	11701	768	27	5	949	5	PDLIM4	5	131607852	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	19470831	131607852	49307408	217	75207											
PHF15	23338	broad.mit.edu	37	chr5	133897939	133897939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagctggctgtgccggaCgtgtgccctgggtgtccagc	3	8	18	12	2	0	0	0	0	0	0	1	1	1	1	3	4	4	3	3	4	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:133897939C>T	uc003kzo.1	+	7	913	c.734C>T	c.(733-735)ACG>ATG	p.T245M	PHF15_uc011cxt.1_Missense_Mutation_p.T245M|PHF15_uc003kzk.2_Missense_Mutation_p.T261M|PHF15_uc003kzl.2_Missense_Mutation_p.T245M|PHF15_uc003kzm.2_Missense_Mutation_p.T245M|PHF15_uc003kzn.2_Missense_Mutation_p.T245M|PHF15_uc003kzp.2_5'Flank	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	245	PHD-type.				histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CTGTGCCGGACGTGTGCCCTG	0.617													33	89					0	0	0.012213	0	0		T	133897939	T	T	133897939	3	4	140	1	0	0	0	0	1	0	0	0	11845	536	19	1	756	1	PHF15	5	133897939	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2290087	133897939	47017321	218	75208											
PHF15	23338	broad.mit.edu	37	chr5	133914284	133914284	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacatggccatgagcgagtgGccactgaacaatgggcaccg	12	5	13	11	2	0	2	0	2	0	0	0	3	0	2	3	3	3	1	3	3	3	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:133914284G>A	uc003kzo.1	+	11	1829	c.1650G>A	c.(1648-1650)TGG>TGA	p.W550*	PHF15_uc011cxt.1_Nonsense_Mutation_p.W594*|PHF15_uc003kzk.2_Nonsense_Mutation_p.W610*|PHF15_uc003kzl.2_3'UTR|PHF15_uc003kzm.2_Nonsense_Mutation_p.W551*|PHF15_uc003kzn.2_3'UTR	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	550					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TGAGCGAGTGGCCACTGAACA	0.607													37	88					0	0	0.005524	0	0		A	133914284	A	A	133914284	4	1	140	1	0	0	0	0	0	1	0	0	11845	1212	42	2	1688	2	PHF15	5	133914284	Nonsense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	16345	133914284	47000976	219	75209											
SIL1	64374	broad.mit.edu	37	chr5	138282955	138282955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgagctgggggtcctgacGgtagcggtcccggcaggtgg	4	6	20	11	4	0	1	0	1	0	0	2	2	2	1	3	7	2	3	3	7	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:138282955G>A	uc003ldm.2	-	9	1254	c.1237C>T	c.(1237-1239)CGT>TGT	p.R413C	SIL1_uc003ldn.2_Missense_Mutation_p.R412C|SIL1_uc003ldo.2_Missense_Mutation_p.R413C|SIL1_uc003ldp.2_Missense_Mutation_p.R413C	NM_022464	NP_071909	Q9H173	SIL1_HUMAN	SIL1 protein precursor	413					intracellular protein transport|protein folding|transmembrane transport	endoplasmic reticulum lumen	unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GGGTCCTGACGGTAGCGGTCC	0.672									Marinesco-Sj_gren_syndrome				14	33					0	0	0.013726	0	0		A	138282955	A	A	138282955	3	1	140	1	0	0	0	0	1	0	0	0	14346	1116	39	1	152	1	SIL1	5	138282955	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	4368671	138282955	42632305	220	75210											
PCDHAC1	56135	broad.mit.edu	37	chr5	140308103	140308103	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgcaacagtgactataaaCttgtttgtggtagataggaa	14	12	11	4	0	0	2	0	1	0	1	0	3	0	3	0	2	3	3	0	2	7	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:140308103C>A	uc003lih.2	+	1	1802	c.1626C>A	c.(1624-1626)AAC>AAA	p.N542K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.N542K	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	542	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGACTATAAACTTGTTTGTGG	0.478													58	150					1.93748e-29	2.24248e-29	0.01441	1	0		A	140308103	A	A	140308103	3	1	140	1	0	0	0	0	1	0	0	0	11551	564	20	5	1628	5	PCDHAC1	5	140308103	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2025148	140308103	40607157	221	75211											
PCDHB7	56129	broad.mit.edu	37	chr5	140554245	140554245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaccagctgctcaaggccaCggagcccgggctattcggcg	7	6	14	14	4	1	0	1	0	0	0	2	1	1	1	3	4	4	4	3	4	3	3	rs142959046		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:140554245C>T	uc003lit.2	+	1	2003	c.1829C>T	c.(1828-1830)ACG>ATG	p.T610M		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	610	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTCAAGGCCACGGAGCCCGGG	0.711													17	183					0	0	0.021523	0	0		T	140554245	T	T	140554245	3	4	140	1	0	0	0	0	1	0	0	0	11566	536	19	1	1831	1	PCDHB7	5	140554245	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	246142	140554245	40361015	222	75212											
PCDHB7	56129	broad.mit.edu	37	chr5	140554319	140554319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgctgagcgagcgcgacGcagccaagcagaggctggtg	8	4	18	11	4	0	2	0	1	0	1	0	4	0	2	1	3	5	5	1	3	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:140554319G>A	uc003lit.2	+	1	2077	c.1903G>A	c.(1903-1905)GCA>ACA	p.A635T		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	635	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGAGCGCGACGCAGCCAAGCA	0.687													16	163					0	0	0.010818	0	0		A	140554319	A	A	140554319	3	1	140	1	0	0	0	0	1	0	0	0	11566	1087	38	1	1905	1	PCDHB7	5	140554319	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	74	140554319	40360941	223	75213											
PCDHB16	57717	broad.mit.edu	37	chr5	140562469	140562469	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttccaagtgttaatggaaaAccctttagaaatatttcagg	14	14	7	6	0	1	1	1	0	0	1	2	2	2	2	2	2	1	1	2	2	7	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:140562469A>C	uc003liv.2	+	1	1490	c.335A>C	c.(334-336)AAC>ACC	p.N112T	PCDHB16_uc010jfw.1_Intron	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	112	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTAATGGAAAACCCTTTAGAA	0.403													19	41					0	0	0.007413	0	0		C	140562469	C	C	140562469	3	2	140	1	0	0	0	0	1	0	0	0	11560	43	2	5	337	5	PCDHB16	5	140562469	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	8150	140562469	40352791	224	75214											
DPYSL3	1809	broad.mit.edu	37	chr5	146775259	146775259	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcccatcgtacatgcccCttgggacggcatgcaggtct	7	8	12	14	2	1	0	0	0	1	0	2	1	1	1	3	4	3	3	3	4	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:146775259C>A	uc003lon.1	-	13	1597	c.1487G>T	c.(1486-1488)AGG>ATG	p.R496M	DPYSL3_uc003loo.2_Missense_Mutation_p.R610M	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	496					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTACATGCCCCTTGGGACGGC	0.552													14	41					3.52763e-06	3.69015e-06	0.00499	1	0		A	146775259	A	A	146775259	3	1	140	1	0	0	0	0	1	0	0	0	4754	681	24	5	233	5	DPYSL3	5	146775259	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	6212790	146775259	34140001	225	75215											
PDGFRB	5159	broad.mit.edu	37	chr5	149501535	149501535	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgtccagcatgggcacaTagtccaccgactcgtccttg	8	10	9	14	2	1	0	1	0	0	0	5	1	4	0	4	1	1	2	4	1	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:149501535T>C	uc003lro.2	-	16	2721	c.2252A>G	c.(2251-2253)TAT>TGT	p.Y751C	PDGFRB_uc010jhd.2_Missense_Mutation_p.Y590C	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	751	Cytoplasmic (Potential).|Protein kinase.			Y->F: No effect on GRB10-binding.	aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CATGGGCACATAGTCCACCGA	0.557			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								5	74					0	0	0.014758	0	0		C	149501535	C	C	149501535	3	2	140	1	0	0	0	0	1	0	0	0	11681	1406	49	3	1100	3	PDGFRB	5	149501535	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	2726276	149501535	31413725	226	75216											
MED7	9443	broad.mit.edu	37	chr5	156566145	156566145	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttctcgttttatactcccagGgctccttattaaaatatcta	10	17	4	10	1	2	0	0	0	2	0	5	0	4	0	2	1	1	2	2	1	7	8			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:156566145G>T	uc010jik.2	-	2	690	c.298C>A	c.(298-300)CCT>ACT	p.P100T	MED7_uc003lwm.3_Missense_Mutation_p.P100T	NM_001100816	NP_001094286	O43513	MED7_HUMAN	mediator complex subunit 7	100					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	protein binding|transcription coactivator activity				0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ATACTCCCAGGGCTCCTTATT	0.358													30	82					4.74835e-14	5.27443e-14	0.010818	1	0		T	156566145	T	T	156566145	3	4	140	1	0	0	0	0	1	0	0	0	9470	1232	43	5	407	5	MED7	5	156566145	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	7064610	156566145	24349115	227	75217											
GABRA6	2559	broad.mit.edu	37	chr5	161113276	161113276	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactcgaagttgaaggcaacTtctactcagaaaacgtcagt	15	9	8	9	2	3	2	2	1	1	1	4	3	3	2	0	1	4	2	0	1	7	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:161113276T>C	uc003lyu.2	+	2	417	c.79T>C	c.(79-81)TTC>CTC	p.F27L		NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	27	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TGAAGGCAACTTCTACTCAGA	0.478										TCGA Ovarian(5;0.080)			28	59					0	0	0.00632	0	0		C	161113276	C	C	161113276	3	2	140	1	0	0	0	0	1	0	0	0	6179	1609	56	3	85	3	GABRA6	5	161113276	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	4547131	161113276	19801984	228	75218											
DOCK2	1794	broad.mit.edu	37	chr5	169482374	169482374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggttcaagaataagccagtgCctgaccagattataaagtaa	16	9	9	7	0	1	3	1	1	0	2	1	3	1	3	3	1	2	2	3	1	7	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:169482374C>T	uc003maf.2	+	42	4359	c.4279C>T	c.(4279-4281)CCT>TCT	p.P1427S	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.P919S|DOCK2_uc003mah.2_5'Flank	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1427	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TAAGCCAGTGCCTGACCAGAT	0.488													21	53					0	0	0.01892	0	0		T	169482374	T	T	169482374	3	4	140	1	0	0	0	0	1	0	0	0	4693	739	26	2	4445	2	DOCK2	5	169482374	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	8369098	169482374	11432886	229	75219											
FBXW11	23291	broad.mit.edu	37	chr5	171299942	171299942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actggagacaggcaatgcccCgcttgtgcccattgagagta	10	8	12	11	1	0	2	0	1	0	2	0	4	0	2	3	2	2	3	3	2	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:171299942C>T	uc003mbm.1	-	9	1582	c.1211G>A	c.(1210-1212)CGG>CAG	p.R404Q	FBXW11_uc011dey.1_Missense_Mutation_p.R372Q|FBXW11_uc003mbl.1_Missense_Mutation_p.R391Q|FBXW11_uc003mbn.1_Missense_Mutation_p.R370Q	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	404	WD 5.				cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GGCAATGCCCCGCTTGTGCCC	0.463													15	34					0	0	0.004007	0	0		T	171299942	T	T	171299942	3	4	140	1	0	0	0	0	1	0	0	0	5778	652	23	1	433	1	FBXW11	5	171299942	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1817568	171299942	9615318	230	75220											
ARL10	285598	broad.mit.edu	37	chr5	175795967	175795967	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccctgacctgcctgtcgtCgtggtggccaacaagcaggt	7	8	13	13	2	0	1	0	1	0	0	2	2	0	1	4	3	3	1	4	3	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:175795967C>T	uc003mec.1	+	3	608	c.543C>T	c.(541-543)GTC>GTT	p.V181V	ARL10_uc003meb.2_Silent_p.V181V	NM_173664	NP_775935	Q8N8L6	ARL10_HUMAN	ADP-ribosylation factor-like 10	181							GTP binding			ovary(1)	1	all_cancers(89;0.0064)|Renal(175;0.000269)|Lung NSC(126;0.0105)|all_lung(126;0.0168)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.0965)		TGCCTGTCGTCGTGGTGGCCA	0.652													9	15					0	0	0.00499	0	0		T	175795967	T	T	175795967	2	4	140	1	0	0	0	0	0	0	0	1	926	871	31	1		1	ARL10	5	175795967	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4496025	175795967	5119293	231	75221											
DDX41	51428	broad.mit.edu	37	chr5	176939616	176939616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcttgccctcccggaatGcctcgatggccttagtccgt	4	12	9	16	3	1	0	0	0	1	0	4	2	3	1	6	2	2	0	6	2	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:176939616G>A	uc003mho.2	-	14	1451	c.1430C>T	c.(1429-1431)GCA>GTA	p.A477V	DOK3_uc003mhi.3_5'Flank|DOK3_uc003mhj.3_5'Flank|DOK3_uc003mhk.2_5'Flank|DOK3_uc003mhl.2_5'Flank|DDX41_uc003mhm.2_Missense_Mutation_p.A257V|DDX41_uc003mhn.2_Missense_Mutation_p.A346V|DDX41_uc003mhp.2_Missense_Mutation_p.A346V	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	477	Helicase C-terminal.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			CTCCCGGAATGCCTCGATGGC	0.602													13	37					0	0	0.013537	0	0		A	176939616	A	A	176939616	3	1	140	1	0	0	0	0	1	0	0	0	4364	1319	46	2	454	2	DDX41	5	176939616	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1143649	176939616	3975644	232	75222											
ZNF354A	6940	broad.mit.edu	37	chr5	178152390	178152390	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttacctagagaggagacGccagaaccgtctttctccac	11	8	8	14	2	2	3	0	0	2	3	3	5	2	3	4	1	2	0	4	1	3	3	rs113512483	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr5:178152390G>A	uc003mjj.2	-	4	441	c.243C>T	c.(241-243)GGC>GGT	p.G81G		NM_005649	NP_005640	O60765	Z354A_HUMAN	zinc finger protein 354A	81	KRAB.				regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;0.000536)|Renal(175;0.000159)|all_epithelial(37;0.000221)|Lung NSC(126;0.00308)|all_lung(126;0.00536)	all_cancers(40;0.0452)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.185)		GAGAGGAGACGCCAGAACCGT	0.522													73	81					0	0	0.01441	0	0		A	178152390	A	A	178152390	2	1	140	1	0	0	0	0	0	0	0	1	17889	1074	38	1		1	ZNF354A	5	178152390	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1212774	178152390	2762870	233	75223											
BMP6	654	broad.mit.edu	37	chr6	7727739	7727739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccgcgcacccgctcaaccGcaagagccttctggcccccg	6	4	10	21	6	2	1	1	0	1	1	2	1	2	1	6	1	2	3	6	1	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:7727739G>A	uc003mxu.3	+	1	729	c.551G>A	c.(550-552)CGC>CAC	p.R184H		NM_001718	NP_001709	P22004	BMP6_HUMAN	bone morphogenetic protein 6 preproprotein	184					BMP signaling pathway|cartilage development|growth|immune response|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	BMP receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity			large_intestine(2)|ovary(1)	3	Ovarian(93;0.0721)					CCGCTCAACCGCAAGAGCCTT	0.736													8	7					0	0	0.008291	0	0		A	7727739	A	A	7727739	3	1	140	1	0	0	0	0	1	0	0	0	1465	1087	38	1	553	1	BMP6	6	7727739	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08		7727739	163387328	234	75224											
TMEM14B	81853	broad.mit.edu	37	chr6	10751370	10751370	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttgcttccttctaggcagCgtgccgtccctggctgcagg	3	12	13	13	2	1	0	0	0	1	0	3	0	3	0	3	3	4	5	3	3	1	4	rs146042312		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:10751370C>T	uc003mzk.3	+	4	269	c.105C>T	c.(103-105)AGC>AGT	p.S35S	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jor.2_Intron|TMEM14B_uc010jos.1_Intron	NM_030969	NP_112231	Q9NUH8	TM14B_HUMAN	transmembrane protein 14B isoform a	35	Helical; (Potential).					integral to membrane					0	Ovarian(93;0.107)|Breast(50;0.137)	all_hematologic(90;0.135)				TTCTAGGCAGCGTGCCGTCCC	0.542													36	59					0	0	0.00623	0	0		T	10751370	T	T	10751370	2	4	140	1	0	0	0	0	0	0	0	1	16089	767	27	1		1	TMEM14B	6	10751370	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3023631	10751370	160363697	235	75225											
NEDD9	4739	broad.mit.edu	37	chr6	11191046	11191046	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagagcctttagcatctggCgggttatgcagagggacatc	9	9	14	9	2	1	2	0	0	1	2	2	4	1	3	1	3	3	3	1	3	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:11191046C>T	uc003mzv.2	-	5	1223	c.1056G>A	c.(1054-1056)CCG>CCA	p.P352P	NEDD9_uc010joz.2_Silent_p.P352P|NEDD9_uc003mzw.3_Silent_p.P206P	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	352					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			TAGCATCTGGCGGGTTATGCA	0.537													54	93					0	0	0.01441	0	0		T	11191046	T	T	11191046	2	4	140	1	0	0	0	0	0	0	0	1	10332	755	27	1		1	NEDD9	6	11191046	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	439676	11191046	159924021	236	75226											
ATXN1	6310	broad.mit.edu	37	chr6	16328093	16328093	+	Frame_Shift_Del	DEL	G	-	-																															tggtgacggggttggcggttGgggggatcagctgtgatggg																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:16328093delG	uc003nbt.2	-	8	1420	c.449delC	c.(448-450)CCAfs	p.P150fs	ATXN1_uc010jpi.2_Frame_Shift_Del_p.P150fs|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	150					cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				GTTGGCGGTTGGGGGGATCAG	0.632													53	117	---	---	---	---						.	-	16328093	-	-	16328093	7	5	140	1	0	1	0	1	0	0	0	0	1210	1348	47	0	2006	0	ATXN1	6	16328093	Frame_Shift_Del	DEL	G	TCGA-CG-4465-01A-01D-1158-08	5137047	16328093	154786974	237	75227											
KIF13A	63971	broad.mit.edu	37	chr6	17788022	17788023	+	Frame_Shift_Ins	INS	-	T	T																															atacctgttttattgctgacINStttttttatctgttcatcca																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:17788022_17788023insT	uc003ncg.3	-	27	3450_3451	c.3345_3346insA	c.(3343-3348)AAAGTCfs	p.K1115fs	KIF13A_uc003ncf.2_Frame_Shift_Ins_p.K1102fs|KIF13A_uc003nch.3_Frame_Shift_Ins_p.K1115fs|KIF13A_uc003nci.3_Frame_Shift_Ins_p.K1102fs	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	1115_1116	Potential.				cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			TTATTGCTGACTTTTTTTATCT	0.416													74	119	---	---	---	---						.	T	17788023	T	T	17788022	7	5	140	1	0	1	1	0	0	0	0	0	8290	565	20	0	2148	0	KIF13A	6	17788022	Frame_Shift_Ins	INS	-	TCGA-CG-4465-01A-01D-1158-08	1459929	17788022	153327045	238	75228											
SLC17A3	10786	broad.mit.edu	37	chr6	25850316	25850316	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcacagtgatgagtctaaaCtttttggttagaaggaaatc	13	13	9	6	0	2	3	1	2	1	1	3	4	2	4	0	2	1	1	0	2	5	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:25850316C>A	uc003nfi.3	-	8	959	c.849G>T	c.(847-849)AAG>AAT	p.K283N	SLC17A3_uc003nfk.3_Missense_Mutation_p.K361N|SLC17A3_uc011djz.1_3'UTR	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	283					glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						TGAGTCTAAACTTTTTGGTTA	0.413													41	92					2.35958e-20	2.68277e-20	0.009718	1	0		A	25850316	A	A	25850316	3	1	140	1	0	0	0	0	1	0	0	0	14443	564	20	5	429	5	SLC17A3	6	25850316	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	8062294	25850316	145264751	239	75229											
SLC17A3	10786	broad.mit.edu	37	chr6	25855394	25855394	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagatatagaagacaaagggCcacccaagggtttcactaat	17	7	9	8	0	1	3	1	0	0	3	1	3	1	3	2	2	0	1	2	2	7	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:25855394C>T	uc003nfi.3	-	5	566	c.456G>A	c.(454-456)TGG>TGA	p.W152*	SLC17A3_uc003nfk.3_Nonsense_Mutation_p.W230*|SLC17A3_uc011djz.1_Nonsense_Mutation_p.W230*|SLC17A3_uc011dka.1_Nonsense_Mutation_p.W152*	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	152					glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						AGACAAAGGGCCACCCAAGGG	0.418													9	20					0	0	0.008291	0	0		T	25855394	T	T	25855394	4	4	140	1	0	0	0	0	0	1	0	0	14443	740	26	2	834	2	SLC17A3	6	25855394	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5078	25855394	145259673	240	75230											
SLC44A4	80736	broad.mit.edu	37	chr6	31833683	31833683	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggcagagattaaggggAaggtagggatgtcctggggc	11	7	19	4	0	0	2	0	1	0	1	1	5	1	4	1	7	0	2	1	7	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:31833683A>G	uc010jti.2	-	14	1520	c.1454T>C	c.(1453-1455)TTC>TCC	p.F485S	NEU1_uc003nxq.3_5'Flank|NEU1_uc010jtg.2_5'Flank|NEU1_uc003nxr.3_5'Flank|NEU1_uc010jth.2_5'Flank|NEU1_uc003nxs.3_5'Flank	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	485	Cytoplasmic (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	GATTAAGGGGAAGGTAGGGAT	0.622													19	98					0	0	0.010504	0	0		G	31833683	G	G	31833683	3	3	140	1	0	0	0	0	1	0	0	0	14663	246	9	3	710	3	SLC44A4	6	31833683	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	5978289	31833683	139281384	241	75231											
NOTCH4	4855	broad.mit.edu	37	chr6	32169918	32169918	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttcagagtcacactgtggGtggcactgcccgtcccggaa	7	9	12	13	2	3	1	2	0	1	1	4	2	4	2	2	3	1	1	2	3	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:32169918G>A	uc003obb.2	-	21	3829	c.3690C>T	c.(3688-3690)CAC>CAT	p.H1230H	NOTCH4_uc003oba.2_5'UTR|NOTCH4_uc011dpu.1_Intron|NOTCH4_uc011dpv.1_Intron	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1230	LNR 2.|Extracellular (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						CACACTGTGGGTGGCACTGCC	0.617													53	90					0	0	0.01441	0	0		A	32169918	A	A	32169918	2	1	140	1	0	0	0	0	0	0	0	1	10570	1252	44	4		4	NOTCH4	6	32169918	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	336235	32169918	138945149	242	75232											
TAP1	6890	broad.mit.edu	37	chr6	32821048	32821048	+	Frame_Shift_Del	DEL	G	-	-																															ctggtgctatccgcggacccGggggctccccatgagatcag																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:32821048delG	uc003ocg.2	-	1	701	c.546delC	c.(544-546)CCCfs	p.P182fs	TAP1_uc011dqi.1_5'Flank|PSMB9_uc011dqj.1_5'Flank|PSMB9_uc003sga.2_5'Flank	NM_000593	NP_000584	Q03518	TAP1_HUMAN	transporter 1, ATP-binding cassette, sub-family	182	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|cytosol to ER transport|intracellular transport of viral proteins in host cell|positive regulation of T cell mediated cytotoxicity	cytosol|plasma membrane|TAP complex	ADP binding|ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding			skin(1)	1						CCGCGGACCCGGGGGCTCCCC	0.647													4	7	---	---	---	---						.	-	32821048	-	-	32821048	7	5	140	1	0	1	0	1	0	0	0	0	15575	1103	39	0	1924	0	TAP1	6	32821048	Frame_Shift_Del	DEL	G	TCGA-CG-4465-01A-01D-1158-08	651130	32821048	138294019	243	75233											
HLA-DOA	3111	broad.mit.edu	37	chr6	32975851	32975851	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagatgggctttgattgcGgcgatgccggccagcccgcc	5	8	14	14	4	0	2	0	1	0	1	1	3	1	2	5	3	3	1	5	3	0	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:32975851G>A	uc003ocr.2	-	2	346	c.270C>T	c.(268-270)GCC>GCT	p.A90A	HLA-DOA_uc010juj.2_Silent_p.A60A|HLA-DOA_uc010jui.2_Silent_p.A90A	NM_002119	NP_002110	P06340	DOA_HUMAN	major histocompatibility complex, class II, DO	90	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endosome membrane|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0						CTTTGATTGCGGCGATGCCGG	0.637													15	37					0	0	0.004007	0	0		A	32975851	A	A	32975851	2	1	140	1	0	0	0	0	0	0	0	1	7216	1103	39	1		1	HLA-DOA	6	32975851	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	154803	32975851	138139216	244	75234											
COL11A2	1302	broad.mit.edu	37	chr6	33152008	33152008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccatagccataggtgtaatCgtagggcccttcaggggggt	8	9	14	10	1	1	0	1	0	0	0	2	0	1	0	3	5	1	2	3	5	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:33152008C>T	uc003ocx.1	-	8	1261	c.1033G>A	c.(1033-1035)GAT>AAT	p.D345N	COL11A2_uc003ocy.1_Intron|COL11A2_uc003ocz.1_Intron	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	345	Nonhelical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						TAGGTGTAATCGTAGGGCCCT	0.597													44	76					0	0	0.01441	0	0		T	33152008	T	T	33152008	3	4	140	1	0	0	0	0	1	0	0	0	3671	884	31	1	4413	1	COL11A2	6	33152008	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	176157	33152008	137963059	245	75235											
ITPR3	3710	broad.mit.edu	37	chr6	33632704	33632704	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtggattcagagcaccaaTgtgcccattgacatcgagga	12	8	11	10	2	1	2	1	1	0	1	2	5	1	4	2	2	2	1	2	2	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:33632704T>C	uc011drk.1	+	12	1425	c.1206T>C	c.(1204-1206)AAT>AAC	p.N402N		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	402	Cytoplasmic (Potential).|MIR 5.				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						AGAGCACCAATGTGCCCATTG	0.507													15	28					0	0	0.007413	0	0		C	33632704	C	C	33632704	2	2	140	1	0	0	0	0	0	0	0	1	7938	1461	51	3		3	ITPR3	6	33632704	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	480696	33632704	137482363	246	75236											
USP49	25862	broad.mit.edu	37	chr6	41766584	41766584	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagagaggagagcatgtccCtgcagcagtaaggttccatg	12	7	13	9	0	0	2	0	0	0	2	2	4	2	2	2	2	3	5	2	2	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:41766584C>A	uc003ori.2	-	7	1976	c.1754G>T	c.(1753-1755)AGG>ATG	p.R585M		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	585					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GAGCATGTCCCTGCAGCAGTA	0.498													44	107					1.57019e-19	1.78001e-19	0.007835	1	0		A	41766584	A	A	41766584	3	1	140	1	0	0	0	0	1	0	0	0	17106	681	24	5	172	5	USP49	6	41766584	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	8133880	41766584	129348483	247	75237											
PPP2R5D	5528	broad.mit.edu	37	chr6	42974334	42974334	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtactcaggggggccccagaTtgtcaagaaggagcgacggc	10	5	16	10	2	2	2	2	0	0	2	2	4	2	3	2	5	2	1	2	5	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:42974334T>C	uc003oth.2	+	3	325	c.239T>C	c.(238-240)ATT>ACT	p.I80T	MEA1_uc010jyc.1_Intron|PPP2R5D_uc003otg.2_Missense_Mutation_p.I80T|PPP2R5D_uc010jyd.2_Intron|PPP2R5D_uc011dva.1_5'UTR|PPP2R5D_uc003oti.2_5'UTR|PPP2R5D_uc003otj.2_5'UTR	NM_006245	NP_006236	Q14738	2A5D_HUMAN	delta isoform of regulatory subunit B56, protein	80					nervous system development|signal transduction	cytoplasm|nucleus|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			breast(1)|central_nervous_system(1)	2			Colorectal(64;0.00237)|all cancers(41;0.00411)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0664)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GGGCCCCAGATTGTCAAGAAG	0.527													33	89					0	0	0.021022	0	0		C	42974334	C	C	42974334	3	2	140	1	0	0	0	0	1	0	0	0	12417	1493	52	3	249	3	PPP2R5D	6	42974334	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	1207750	42974334	128140733	248	75238											
CUL9	23113	broad.mit.edu	37	chr6	43182994	43182994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgatgtatgccgctccagagCccatggggccctgccggggt	5	8	15	13	2	0	2	0	1	0	1	1	2	1	2	5	4	3	2	5	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:43182994C>T	uc003ouk.2	+	30	5941	c.5866C>T	c.(5866-5868)CCC>TCC	p.P1956S	CUL9_uc003oul.2_Missense_Mutation_p.P1928S|CUL9_uc010jyk.2_Missense_Mutation_p.P1108S|CUL9_uc003oun.2_5'UTR	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1956					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						CGCTCCAGAGCCCATGGGGCC	0.612													37	91					0	0	0.01441	0	0		T	43182994	T	T	43182994	3	4	140	1	0	0	0	0	1	0	0	0	4064	739	26	2	5980	2	CUL9	6	43182994	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	208660	43182994	127932073	249	75239											
TTBK1	84630	broad.mit.edu	37	chr6	43251219	43251219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gacagtgaccacaggggtcgGgggcgtggcagtcacctcct	7	6	16	12	2	1	1	1	1	0	0	3	2	2	1	3	5	0	1	3	5	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:43251219G>A	uc003ouq.1	+	14	3020	c.2741G>A	c.(2740-2742)GGG>GAG	p.G914E		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	914						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			ACAGGGGTCGGGGGCGTGGCA	0.627													25	33					0	0	0.004656	0	0		A	43251219	A	A	43251219	3	1	140	1	0	0	0	0	1	0	0	0	16702	1232	43	4	2791	4	TTBK1	6	43251219	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	68225	43251219	127863848	250	75240											
TJAP1	93643	broad.mit.edu	37	chr6	43473430	43473430	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcctgctgcccattaacaGgggcacagaggaggggccag	10	4	16	11	0	0	1	0	0	0	1	0	3	0	2	3	5	4	2	3	5	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:43473430G>T	uc003ovd.2	+	11	1887	c.1511G>T	c.(1510-1512)AGG>ATG	p.R504M	TJAP1_uc003ovf.2_Missense_Mutation_p.R494M|TJAP1_uc003ove.2_Missense_Mutation_p.R494M|TJAP1_uc003ovc.2_Missense_Mutation_p.R494M|TJAP1_uc010jyp.2_Missense_Mutation_p.R463M|TJAP1_uc011dvh.1_Missense_Mutation_p.R494M|TJAP1_uc003ovg.2_Missense_Mutation_p.R370M|TJAP1_uc011dvi.1_Missense_Mutation_p.R504M|TJAP1_uc011dvj.1_Missense_Mutation_p.R304M|TJAP1_uc003ovi.2_Missense_Mutation_p.R370M	NM_001146016	NP_001139488	Q5JTD0	TJAP1_HUMAN	tight junction associated protein 1 isoform a	504						Golgi apparatus|tight junction	protein binding				0	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0122)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CCCATTAACAGGGGCACAGAG	0.642													19	22					2.94398e-08	3.14786e-08	0.007413	1	0		T	43473430	T	T	43473430	3	4	140	1	0	0	0	0	1	0	0	0	15953	1000	35	5	1541	5	TJAP1	6	43473430	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	222211	43473430	127641637	251	75241											
TMEM63B	55362	broad.mit.edu	37	chr6	44102354	44102354	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggccacactgggcacCacagccctcaacaacagcaa	12	4	8	17	0	1	0	1	0	0	0	1	0	1	0	3	2	5	3	3	2	3	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:44102354C>A	uc003owr.2	+	2	97	c.33C>A	c.(31-33)ACC>ACA	p.T11T	TMEM63B_uc003owq.1_Silent_p.T11T|TMEM63B_uc010jyy.1_5'UTR|TMEM63B_uc003ows.2_5'Flank	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	11						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			CACTGGGCACCACAGCCCTCA	0.667													15	32					1.5739e-10	1.71617e-10	0.004007	1	0		A	44102354	A	A	44102354	2	1	140	1	0	0	0	0	0	0	0	1	16216	581	21	5		5	TMEM63B	6	44102354	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	628924	44102354	127012713	252	75242											
TFAP2B	7021	broad.mit.edu	37	chr6	50807989	50807989	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtgacctgcactcccgaaAgaatatgctgttggccacca	11	8	10	12	1	0	2	0	1	0	1	1	4	1	2	4	1	2	3	4	1	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:50807989A>C	uc003pag.2	+	6	1227	c.1061A>C	c.(1060-1062)AAG>ACG	p.K354T		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	354					nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					CACTCCCGAAAGAATATGCTG	0.547													46	83					0	0	0.01441	0	0		C	50807989	C	C	50807989	3	2	140	1	0	0	0	0	1	0	0	0	15813	72	3	5	1083	5	TFAP2B	6	50807989	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	6705635	50807989	120307078	253	75243											
BAI3	577	broad.mit.edu	37	chr6	69348994	69348994	+	Frame_Shift_Del	DEL	A	-	-																															ctaatttcccaggattacagAaaaaaggggaagaagatcag																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:69348994delA	uc003pev.3	+	3	875	c.427delA	c.(427-429)AAAfs	p.K143fs	BAI3_uc010kak.2_Frame_Shift_Del_p.K143fs	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	143	CUB.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AGGATTACAGAAAAAAGGGGA	0.353													44	87	---	---	---	---						.	-	69348994	-	-	69348994	7	5	140	1	0	1	0	1	0	0	0	0	1301	247	9	0	429	0	BAI3	6	69348994	Frame_Shift_Del	DEL	A	TCGA-CG-4465-01A-01D-1158-08	18541005	69348994	101766073	254	75244											
BAI3	577	broad.mit.edu	37	chr6	69653796	69653796	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgaggccaaagaacaagaAcaaggtcatgcacacctcct	15	5	9	12	1	1	2	1	0	0	2	3	3	2	2	3	2	3	1	3	2	5	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:69653796A>C	uc003pev.3	+	6	1553	c.1105A>C	c.(1105-1107)ACA>CCA	p.T369P	BAI3_uc010kak.2_Missense_Mutation_p.T369P	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	369	Extracellular (Potential).|TSP type-1 2.				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AAGAACAAGAACAAGGTCATG	0.453													5	182					0	0	0.001168	0	0		C	69653796	C	C	69653796	3	2	140	1	0	0	0	0	1	0	0	0	1301	43	2	5	1119	5	BAI3	6	69653796	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	304802	69653796	101461271	255	75245											
CD109	135228	broad.mit.edu	37	chr6	74528179	74528179	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attaagtggctttatggtgcCttcagaagcaatttctctga	10	15	9	7	0	2	2	1	1	1	1	3	2	2	2	1	2	2	2	1	2	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:74528179C>A	uc003php.2	+	31	4405	c.3980C>A	c.(3979-3981)CCT>CAT	p.P1327H	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Missense_Mutation_p.P1310H|CD109_uc010kba.2_Missense_Mutation_p.P1250H	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	1327						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						TTTATGGTGCCTTCAGAAGCA	0.408													21	46					4.96729e-08	5.29661e-08	0.008871	1	0		A	74528179	A	A	74528179	3	1	140	1	0	0	0	0	1	0	0	0	2966	681	24	5	4102	5	CD109	6	74528179	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4874383	74528179	96586888	256	75246											
TBX18	9096	broad.mit.edu	37	chr6	85446536	85446536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcaacatctgccgatccGtcatggtcccactcggtgag	7	8	13	13	3	2	1	1	1	1	0	5	2	4	1	3	4	2	1	3	4	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:85446536G>A	uc003pkl.1	-	8	1691	c.1691C>T	c.(1690-1692)ACG>ATG	p.T564M	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	564					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		CTGCCGATCCGTCATGGTCCC	0.527													42	81					0	0	0.01441	0	0		A	85446536	A	A	85446536	3	1	140	1	0	0	0	0	1	0	0	0	15678	1145	40	1	136	1	TBX18	6	85446536	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	10918357	85446536	85668531	257	75247											
RNGTT	8732	broad.mit.edu	37	chr6	89650829	89650829	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttgagagcatgctgggatgGaaccgattttcttcagcaac	10	12	11	8	1	2	1	1	1	1	1	2	5	2	3	1	2	5	3	1	2	2	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:89650829G>T	uc003pmr.2	-	2	355	c.135C>A	c.(133-135)TTC>TTA	p.F45L	RNGTT_uc003pms.2_Missense_Mutation_p.F45L|RNGTT_uc011dzu.1_Intron|RNGTT_uc003pmt.2_Missense_Mutation_p.F45L	NM_003800	NP_003791	O60942	MCE1_HUMAN	RNA guanylyltransferase and 5'-phosphatase	45	TPase.				interspecies interaction between organisms|mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	GTP binding|mRNA guanylyltransferase activity|polynucleotide 5'-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1		all_cancers(76;4.07e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;6.86e-05)		BRCA - Breast invasive adenocarcinoma(108;0.151)		TGCTGGGATGGAACCGATTTT	0.343													15	145					8.60227e-14	9.5416e-14	0.004007	1	0		T	89650829	T	T	89650829	3	4	140	1	0	0	0	0	1	0	0	0	13528	1165	41	5	1718	5	RNGTT	6	89650829	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	4204293	89650829	81464238	258	75248											
WASF1	8936	broad.mit.edu	37	chr6	110448716	110448716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatttgccaaggaaatattgGttacacattccagttcattc	12	15	6	8	0	1	0	1	0	0	0	3	1	2	1	2	2	2	2	2	2	5	8			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:110448716G>A	uc003ptv.1	-	4	926	c.89C>T	c.(88-90)ACC>ATC	p.T30I	WASF1_uc003ptw.1_Missense_Mutation_p.T30I|WASF1_uc003ptx.1_Missense_Mutation_p.T30I|WASF1_uc003pty.1_Missense_Mutation_p.T30I|WASF1_uc003ptz.1_Missense_Mutation_p.T30I	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	30					actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)		GGAAATATTGGTTACACATTC	0.363													14	28					0	0	0.020292	0	0		A	110448716	A	A	110448716	3	1	140	1	0	0	0	0	1	0	0	0	17278	1261	44	4	1622	4	WASF1	6	110448716	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	20797887	110448716	60666351	259	75249											
HS3ST5	222537	broad.mit.edu	37	chr6	114378702	114378702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgatgaggcgatctccatCgacgacatgaaattgctcaa	12	9	10	10	4	2	3	1	3	1	0	4	6	2	3	1	1	1	1	1	1	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:114378702C>T	uc003pwg.3	-	2	792	c.760G>A	c.(760-762)GAT>AAT	p.D254N	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.D254N	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	254	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		CGATCTCCATCGACGACATGA	0.418													51	90					0	0	0.01441	0	0		T	114378702	T	T	114378702	3	4	140	1	0	0	0	0	1	0	0	0	7384	884	31	1	284	1	HS3ST5	6	114378702	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3929986	114378702	56736365	260	75250											
TRMT11	60487	broad.mit.edu	37	chr6	126359854	126359854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attttccaaccaaacagaatCgggaccagtattcacatctg	14	10	6	11	1	2	1	1	0	1	1	4	2	3	2	3	1	2	1	3	1	4	4	rs142681128	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:126359854C>T	uc003qam.2	+	13	1385	c.1264C>T	c.(1264-1266)CGG>TGG	p.R422W	TRMT11_uc003qan.2_RNA|TRMT11_uc010kev.2_Missense_Mutation_p.R417W	NM_001031712	NP_001026882	Q7Z4G4	TRM11_HUMAN	tRNA methyltransferase 11	422					tRNA processing		methyltransferase activity|nucleic acid binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0356)		CAAACAGAATCGGGACCAGTA	0.299													68	128					0	0	0.01441	0	0		T	126359854	T	T	126359854	3	4	140	1	0	0	0	0	1	0	0	0	16588	875	31	1	1314	1	TRMT11	6	126359854	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	11981152	126359854	44755213	261	75251											
KIAA1244	57221	broad.mit.edu	37	chr6	138644821	138644821	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcagatacgtccttgtgAcagcgggccctgtgttcact	6	12	12	11	2	1	2	1	1	0	1	2	2	2	2	2	2	2	2	2	2	1	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:138644821A>T	uc003qhu.2	+	30	4780	c.4780A>T	c.(4780-4782)ACA>TCA	p.T1594S		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1594					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CGTCCTTGTGACAGCGGGCCC	0.368													27	59					0	0	0.010818	0	0		T	138644821	T	T	138644821	3	4	140	1	0	0	0	0	1	0	0	0	8233	275	10	5	4898	5	KIAA1244	6	138644821	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	12284967	138644821	32470246	262	75252											
ECT2L	345930	broad.mit.edu	37	chr6	139203986	139203986	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttcaacaattaccctgTcattctgaaaactattgaga	13	15	4	9	0	4	2	2	2	2	1	4	3	4	2	1	0	3	0	1	0	6	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:139203986T>C	uc003qif.1	+	14	2109	c.2006T>C	c.(2005-2007)GTC>GCC	p.V669A	ECT2L_uc011edq.1_Missense_Mutation_p.V600A	NM_001077706	NP_001071174	Q008S8	ECT2L_HUMAN	epithelial cell transforming sequence 2	669	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0						AATTACCCTGTCATTCTGAAA	0.423													22	50					0	0	0.005443	0	0		C	139203986	C	C	139203986	3	2	140	1	0	0	0	0	1	0	0	0	4908	1667	58	3	2060	3	ECT2L	6	139203986	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	559165	139203986	31911081	263	75253											
TXLNB	167838	broad.mit.edu	37	chr6	139564337	139564337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccttttcagatatttctgCgtctctgatttttttgtgga	6	21	7	7	1	3	2	1	1	2	1	5	3	4	3	1	1	1	0	1	1	1	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:139564337C>T	uc011eds.1	-	10	1546	c.1381G>A	c.(1381-1383)GCA>ACA	p.A461T		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	461	Potential.					cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		GATATTTCTGCGTCTCTGATT	0.433													32	83					0	0	0.015359	0	0		T	139564337	T	T	139564337	3	4	140	1	0	0	0	0	1	0	0	0	16814	768	27	1	677	1	TXLNB	6	139564337	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	360351	139564337	31550730	264	75254											
UST	10090	broad.mit.edu	37	chr6	149068723	149068723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggactacggcttctgcatgGccaccctgctggtcttctgc	4	11	12	14	1	3	0	0	0	3	0	3	1	3	1	2	4	4	3	2	4	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:149068723G>A	uc003qmg.2	+	1	453	c.157G>A	c.(157-159)GCC>ACC	p.A53T		NM_005715	NP_005706	Q9Y2C2	UST_HUMAN	uronyl-2-sulfotransferase	53	Helical; Signal-anchor for type II membrane protein; (Potential).				protein sulfation	Golgi membrane|integral to membrane	sulfotransferase activity			ovary(2)	2		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.78e-10)|GBM - Glioblastoma multiforme(68;0.138)		CTTCTGCATGGCCACCCTGCT	0.682													5	8					0	0	0.001168	0	0		A	149068723	A	A	149068723	3	1	140	1	0	0	0	0	1	0	0	0	17119	1203	42	2	159	2	UST	6	149068723	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	9504386	149068723	22046344	265	75255											
ARID1B	57492	broad.mit.edu	37	chr6	157511330	157511330	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcccaacaaggacccctttgGgggaatgagaaaaggtacgt	13	6	13	9	1	0	1	0	1	0	1	0	4	0	3	3	4	2	1	3	4	6	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:157511330G>T	uc003qqn.2	+	15	3946	c.3794G>T	c.(3793-3795)GGG>GTG	p.G1265V	ARID1B_uc003qqo.2_Missense_Mutation_p.G1225V|ARID1B_uc003qqp.2_Missense_Mutation_p.G1212V	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1270					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		GACCCCTTTGGGGGAATGAGA	0.562													10	79					7.48243e-07	7.8698e-07	0.006214	1	0		T	157511330	T	T	157511330	3	4	140	1	0	0	0	0	1	0	0	0	914	1232	43	5	3906	5	ARID1B	6	157511330	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	8442607	157511330	13603737	266	75256											
LPA	4018	broad.mit.edu	37	chr6	161010743	161010743	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggctttgctccgttggTgctgaaattcaaagaggaga	9	11	15	6	1	1	3	1	1	0	2	2	4	2	3	1	4	2	4	1	4	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr6:161010743T>G	uc003qtl.2	-	25	3909	c.3789A>C	c.(3787-3789)GCA>GCC	p.A1263A		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3771	Kringle 34.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	GCTCCGTTGGTGCTGAAATTC	0.433													3	99					0	0	0.004672	0	0		G	161010743	G	G	161010743	2	3	140	1	0	0	0	0	0	0	0	1	8921	1710	59	5		5	LPA	6	161010743	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	3499413	161010743	10104324	267	75257											
RNF216	54476	broad.mit.edu	37	chr7	5781027	5781027	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcctagatttgataacagCtctgtctctgagtcttcgga	8	15	8	10	1	4	3	0	2	4	1	7	4	4	4	1	1	2	1	1	1	2	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:5781027C>A	uc003soy.1	-	4	640	c.450G>T	c.(448-450)GAG>GAT	p.E150D	RNF216_uc010ksz.1_5'UTR|RNF216_uc010kta.1_Intron|RNF216_uc011jwj.1_Intron|RNF216_uc003sox.1_Missense_Mutation_p.E207D	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	150					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		TTGATAACAGCTCTGTCTCTG	0.458													103	210					3.28517e-43	3.8602e-43	0.01441	1	0		A	5781027	A	A	5781027	3	1	140	1	0	0	0	0	1	0	0	0	13505	796	28	5	2206	5	RNF216	7	5781027	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08		5781027	153357636	268	75258											
USP42	84132	broad.mit.edu	37	chr7	6180573	6180573	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaattgcaagggcgtttcAgatacttttgatccatatct	11	16	7	7	1	2	2	1	1	1	1	3	2	3	2	1	1	2	2	1	1	5	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:6180573A>G	uc011jwo.1	+	7	876	c.753A>G	c.(751-753)TCA>TCG	p.S251S	USP42_uc011jwn.1_Silent_p.S96S|USP42_uc010kth.1_Silent_p.S184S|USP42_uc011jwp.1_Silent_p.S251S|USP42_uc011jwq.1_Silent_p.S58S|USP42_uc011jwr.1_Silent_p.S96S	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	251					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		AGGGCGTTTCAGATACTTTTG	0.264													14	32					0	0	0.00499	0	0		G	6180573	G	G	6180573	2	3	140	1	0	0	0	0	0	0	0	1	17099	175	7	3		3	USP42	7	6180573	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	399546	6180573	152958090	269	75259											
MIOS	54468	broad.mit.edu	37	chr7	7613797	7613797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggatcattggtttatgcaGgaattaaatcaattgtaaag	16	13	9	3	0	2	0	2	0	0	0	2	2	2	2	0	3	1	3	0	3	8	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:7613797G>A	uc003srf.2	+	5	1671	c.1363G>A	c.(1363-1365)GGA>AGA	p.G455R		NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	455											0						GGTTTATGCAGGAATTAAATC	0.318													39	61					0	0	0.010771	0	0		A	7613797	A	A	7613797	3	1	140	1	0	0	0	0	1	0	0	0	9607	1001	35	4	1369	4	MIOS	7	7613797	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1433224	7613797	151524866	270	75260											
TAX1BP1	8887	broad.mit.edu	37	chr7	27868391	27868391	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgactatgaccagcaGgtgtttgaaaggcatgtgca	10	10	11	10	0	0	3	0	3	0	0	1	3	1	3	3	2	2	4	3	2	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:27868391G>A	uc003szl.2	+	17	2471	c.2313G>A	c.(2311-2313)CAG>CAA	p.Q771Q	TAX1BP1_uc011jzo.1_Silent_p.Q729Q|TAX1BP1_uc003szk.2_Silent_p.Q729Q|TAX1BP1_uc011jzp.1_Silent_p.Q572Q	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	771					anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)			ATGACCAGCAGGTGTTTGAAA	0.383													64	159					0	0	0.01441	0	0		A	27868391	A	A	27868391	2	1	140	1	0	0	0	0	0	0	0	1	15619	991	35	4		4	TAX1BP1	7	27868391	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	20254594	27868391	131270272	271	75261											
RP9	6100	broad.mit.edu	37	chr7	33136933	33136933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgataaagaaagggcattCtttgtcacccgttcggtgac	10	13	10	8	2	2	3	1	2	1	1	3	3	2	3	1	2	0	2	1	2	3	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:33136933C>T	uc003tdm.2	-	4	373	c.355G>A	c.(355-357)GAA>AAA	p.E119K		NM_203288	NP_976033	Q8TA86	RP9_HUMAN	retinitis pigmentosa 9	119	PIM1-binding (By similarity).|CCHC-type.				RNA splicing	nucleus	nucleic acid binding|protein binding|zinc ion binding				0			GBM - Glioblastoma multiforme(11;0.0403)			AAAGGGCATTCTTTGTCACCC	0.373													19	45					0	0	0.008871	0	0		T	33136933	T	T	33136933	3	4	140	1	0	0	0	0	1	0	0	0	13560	922	32	4	322	4	RP9	7	33136933	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5268542	33136933	126001730	272	75262											
IGFBP3	3486	broad.mit.edu	37	chr7	45957023	45957023	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgctgcggtcttcctccGactcactagcatttccttaa	6	12	8	15	4	2	0	1	0	1	0	5	1	5	0	3	2	2	2	3	2	2	4	rs139238956		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:45957023G>T	uc003tns.2	-	2	551	c.419C>A	c.(418-420)TCG>TAG	p.S140*	IGFBP3_uc003tnq.2_RNA|IGFBP3_uc003tnr.2_Nonsense_Mutation_p.S146*|IGFBP3_uc003tnt.2_Nonsense_Mutation_p.S43*	NM_000598	NP_000589	P17936	IBP3_HUMAN	insulin-like growth factor binding protein 3	140	Ser/Thr-rich.				negative regulation of protein phosphorylation|negative regulation of signal transduction|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|positive regulation of apoptosis|positive regulation of myoblast differentiation|protein phosphorylation|regulation of cell growth	nucleus	insulin-like growth factor I binding|metal ion binding|protein tyrosine phosphatase activator activity			large_intestine(2)|lung(1)	3					Mecasermin(DB01277)	GTCTTCCTCCGACTCACTAGC	0.502											OREG0018049	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	42					6.40141e-05	6.63341e-05	0.010729	1	0		T	45957023	T	T	45957023	4	4	140	1	0	0	0	0	0	1	0	0	7596	1059	37	5	468	5	IGFBP3	7	45957023	Nonsense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	12820090	45957023	113181640	273	75263											
POM121L12	285877	broad.mit.edu	37	chr7	53104076	53104076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaggccagggcctctgaagCcgagcctcggcccctggagc	6	4	14	17	2	1	1	0	1	1	0	2	3	1	2	7	4	3	0	7	4	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:53104076C>T	uc003tpz.2	+	1	728	c.712C>T	c.(712-714)CCG>TCG	p.P238S		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	238											0						GCCTCTGAAGCCGAGCCTCGG	0.657													13	41					0	0	0.016723	0	0		T	53104076	T	T	53104076	3	4	140	1	0	0	0	0	1	0	0	0	12260	739	26	2	714	2	POM121L12	7	53104076	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	7147053	53104076	106034587	274	75264											
ZNF679	168417	broad.mit.edu	37	chr7	63726383	63726383	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtggacatgacaatttacaAgtaaaaacatgtaaaagcat	20	9	7	5	0	0	1	0	1	0	0	0	2	0	2	0	1	3	3	0	1	8	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:63726383A>G	uc003tsx.2	+	5	641	c.372A>G	c.(370-372)CAA>CAG	p.Q124Q		NM_153363	NP_699194	Q8IYX0	ZN679_HUMAN	zinc finger protein 679	124					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						ACAATTTACAAGTAAAAACAT	0.368													3	38					0	0	0.004672	0	0		G	63726383	G	G	63726383	2	3	140	1	0	0	0	0	0	0	0	1	18111	69	3	3		3	ZNF679	7	63726383	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	10622307	63726383	95412280	275	75265											
TBL2	26608	broad.mit.edu	37	chr7	72992829	72992829	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcgccatcagggccagcagCccaagcaacaccgacagccc	11	2	10	18	2	1	0	1	0	0	0	2	1	1	0	5	1	5	2	5	1	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:72992829C>T	uc003tyh.2	-	1	185	c.51G>A	c.(49-51)GGG>GGA	p.G17G	TBL2_uc011kex.1_5'Flank|TBL2_uc010lbg.2_5'UTR|TBL2_uc003tyi.2_5'UTR|TBL2_uc011key.1_5'UTR|TBL2_uc010lbh.2_5'UTR	NM_012453	NP_036585	Q9Y4P3	TBL2_HUMAN	transducin (beta)-like 2	17											0		Lung NSC(55;0.0659)|all_lung(88;0.152)				GGGCCAGCAGCCCAAGCAACA	0.711													3	15					0	0	0.009096	0	0		T	72992829	T	T	72992829	2	4	140	1	0	0	0	0	0	0	0	1	15667	726	26	2		2	TBL2	7	72992829	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	9266446	72992829	86145834	276	75266											
SEMA3D	223117	broad.mit.edu	37	chr7	84649614	84649614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcctttgaaatgctgaCaactttgaggacagttccaa	11	14	7	9	0	0	3	0	3	0	0	2	4	2	4	2	1	2	2	2	1	3	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:84649614C>T	uc003uic.2	-	12	1478	c.1438G>A	c.(1438-1440)GTC>ATC	p.V480I	SEMA3D_uc010led.2_Missense_Mutation_p.V480I|SEMA3D_uc003uib.2_Missense_Mutation_p.V119I	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	480	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						GAAATGCTGACAACTTTGAGG	0.408													26	44					0	0	0.004656	0	0		T	84649614	T	T	84649614	3	4	140	1	0	0	0	0	1	0	0	0	14052	478	17	4	919	4	SEMA3D	7	84649614	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	11656785	84649614	74489049	277	75267											
C7orf63	79846	broad.mit.edu	37	chr7	89939466	89939466	+	Frame_Shift_Del	DEL	A	-	-																															ttgatacggatattgctcttAaaaaactgcccattcgagga																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:89939466delA	uc010lep.2	+	23	2991	c.2740delA	c.(2740-2742)AAAfs	p.K914fs	C7orf63_uc011khj.1_Frame_Shift_Del_p.K896fs|C7orf63_uc011khk.1_Frame_Shift_Del_p.K430fs	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	914							binding			ovary(1)	1						TATTGCTCTTAAAAAACTGCC	0.448													59	123	---	---	---	---						.	-	89939466	-	-	89939466	7	5	140	1	0	1	0	1	0	0	0	0	2412	363	13	0	2830	0	C7orf63	7	89939466	Frame_Shift_Del	DEL	A	TCGA-CG-4465-01A-01D-1158-08	5289852	89939466	69199197	278	75268											
DLX5	1749	broad.mit.edu	37	chr7	96651523	96651523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgtcaatcccagcgaggCggccagctcggcgcgttccg	5	8	14	14	6	1	0	1	0	0	0	4	1	3	0	3	3	2	2	3	3	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:96651523C>T	uc003uon.2	-	2	722	c.514G>A	c.(514-516)GCC>ACC	p.A172T	DLX5_uc011kim.1_Missense_Mutation_p.A172T	NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	172	Homeobox.				cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					CCCAGCGAGGCGGCCAGCTCG	0.562													23	142					0	0	0.01892	0	0		T	96651523	T	T	96651523	3	4	140	1	0	0	0	0	1	0	0	0	4580	768	27	1	363	1	DLX5	7	96651523	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	6712057	96651523	62487140	279	75269											
SMURF1	57154	broad.mit.edu	37	chr7	98655080	98655080	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgatggcattggagagcaGccgcacacagcccaggaagc	11	4	14	12	1	0	2	0	1	0	1	0	4	0	3	2	3	4	4	2	3	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:98655080G>A	uc003upu.1	-	4	618	c.298C>T	c.(298-300)CTG>TTG	p.L100L	SMURF1_uc003upv.1_Silent_p.L100L|SMURF1_uc003upt.2_Silent_p.L100L	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	100					BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			TTGGAGAGCAGCCGCACACAG	0.453													23	49					0	0	0.004656	0	0		A	98655080	A	A	98655080	2	1	140	1	0	0	0	0	0	0	0	1	14844	962	34	2		2	SMURF1	7	98655080	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2003557	98655080	60483583	280	75270											
SPDYE3	441272	broad.mit.edu	37	chr7	99917575	99917575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaggcttatgacccagagCactgggtgtgggcgcgagat	8	8	15	10	2	0	3	0	1	0	2	1	4	1	3	2	3	1	2	2	3	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:99917575C>T	uc003uug.1	+	5	721	c.481C>T	c.(481-483)CAC>TAC	p.H161Y	uc011kjm.1_5'Flank	NM_001004351	NP_001004351	A6NKU9	SPDE3_HUMAN	speedy homolog E3	538											0						TGACCCAGAGCACTGGGTGTG	0.607													47	43					0	0	0.01441	0	0		T	99917575	T	T	99917575	3	4	140	1	0	0	0	0	1	0	0	0	15055	710	25	2	1650	2	SPDYE3	7	99917575	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1262495	99917575	59221088	281	75271											
CUX1	1523	broad.mit.edu	37	chr7	101892233	101892233	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcgcgcgacaaccccctgCgcaagaagaaggccgcgaac	12	2	11	16	6	0	2	0	0	0	2	1	4	0	2	3	1	3	1	3	1	5	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:101892233C>A	uc003uyx.3	+	24	4467	c.4429C>A	c.(4429-4431)CGC>AGC	p.R1477S	CUX1_uc003uys.3_Missense_Mutation_p.R1488S|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	1477					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						CAACCCCCTGCGCAAGAAGAA	0.701													6	10					5.9392e-07	6.26375e-07	0.001168	1	0		A	101892233	A	A	101892233	3	1	140	1	0	0	0	0	1	0	0	0	4067	768	27	5	4590	5	CUX1	7	101892233	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1974658	101892233	57246430	282	75272											
PPP1R3A	5506	broad.mit.edu	37	chr7	113519938	113519938	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagtagtttcctctgaaggTtgatgtgtacagtcatctcc	9	14	10	8	0	3	2	1	2	2	0	5	3	4	2	2	1	1	4	2	1	4	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:113519938T>C	uc010ljy.1	-	4	1240	c.1209A>G	c.(1207-1209)CAA>CAG	p.Q403Q		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	403					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						CCTCTGAAGGTTGATGTGTAC	0.403													68	190					0	0	0.01441	0	0		C	113519938	C	C	113519938	2	2	140	1	0	0	0	0	0	0	0	1	12393	1722	60	3		3	PPP1R3A	7	113519938	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	11627705	113519938	45618725	283	75273											
AHCYL2	23382	broad.mit.edu	37	chr7	129029550	129029550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagccaaaatcgtgggttGcacacacatcactgctcaga	12	8	10	11	1	2	1	2	0	0	1	3	2	2	2	1	2	3	3	1	2	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:129029550G>A	uc011kov.1	+	4	749	c.695G>A	c.(694-696)TGC>TAC	p.C232Y	AHCYL2_uc003vot.2_Missense_Mutation_p.C231Y|AHCYL2_uc003vov.2_Missense_Mutation_p.C129Y|AHCYL2_uc011kow.1_Missense_Mutation_p.C130Y|AHCYL2_uc011kox.1_Missense_Mutation_p.C129Y	NM_015328	NP_056143	Q96HN2	SAHH3_HUMAN	S-adenosylhomocysteine hydrolase-like 2 isoform	232					one-carbon metabolic process		adenosylhomocysteinase activity			ovary(2)	2						ATCGTGGGTTGCACACACATC	0.348													14	38					0	0	0.006122	0	0		A	129029550	A	A	129029550	3	1	140	1	0	0	0	0	1	0	0	0	411	1319	46	2	831	2	AHCYL2	7	129029550	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	15509612	129029550	30109113	284	75274											
SLC13A4	26266	broad.mit.edu	37	chr7	135384207	135384207	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taggatatgctcagggagagGcacttgcagatcatctggtc	10	10	13	8	0	3	2	2	0	1	2	4	4	3	3	0	4	2	3	0	4	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:135384207G>A	uc003vta.2	-	8	1490	c.801C>T	c.(799-801)TGC>TGT	p.C267C	SLC13A4_uc003vtb.2_Silent_p.C268C	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	267						integral to plasma membrane	sodium:sulfate symporter activity				0						TCAGGGAGAGGCACTTGCAGA	0.542													35	58					0	0	0.009718	0	0		A	135384207	A	A	135384207	2	1	140	1	0	0	0	0	0	0	0	1	14419	1195	42	2		2	SLC13A4	7	135384207	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	6354657	135384207	23754456	285	75275											
ATP6V0A4	50617	broad.mit.edu	37	chr7	138394386	138394386	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccagtgcagtcgcagggcGtgcaggaaagcagagaggcc	11	4	16	10	2	0	1	0	0	0	1	1	3	0	2	2	3	4	4	2	3	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:138394386G>A	uc003vuf.2	-	20	2650	c.2412C>T	c.(2410-2412)CAC>CAT	p.H804H	ATP6V0A4_uc003vug.2_Silent_p.H804H|ATP6V0A4_uc003vuh.2_Silent_p.H804H	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	804	Cytoplasmic (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						GTCGCAGGGCGTGCAGGAAAG	0.383													46	362					0	0	0.01441	0	0		A	138394386	A	A	138394386	2	1	140	1	0	0	0	0	0	0	0	1	1171	1136	40	1		1	ATP6V0A4	7	138394386	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3010179	138394386	20744277	286	75276											
DENND2A	27147	broad.mit.edu	37	chr7	140273783	140273783	+	Frame_Shift_Del	DEL	A	-	-																															tcctctctgaattttgtcggAaaaaagcaggtttggacaat																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:140273783delA	uc010lnj.2	-	4	1416	c.1271delT	c.(1270-1272)TTCfs	p.F424fs	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Frame_Shift_Del_p.F424fs|DENND2A_uc003vvw.2_Frame_Shift_Del_p.F424fs|DENND2A_uc003vvx.2_Frame_Shift_Del_p.F424fs	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	424										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					ATTTTGTCGGAAAAAAGCAGG	0.493													100	204	---	---	---	---						.	-	140273783	-	-	140273783	7	5	140	1	0	1	0	1	0	0	0	0	4435	246	9	0	1818	0	DENND2A	7	140273783	Frame_Shift_Del	DEL	A	TCGA-CG-4465-01A-01D-1158-08	1879397	140273783	18864880	287	75277											
BRAF	673	broad.mit.edu	37	chr7	140500228	140500228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagtctctgctaaggacGcctcttcctgtggtattggg	5	12	14	10	1	2	0	0	0	2	0	4	1	3	1	2	4	1	3	2	4	2	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:140500228G>A	uc003vwc.3	-	7	975	c.914C>T	c.(913-915)GCG>GTG	p.A305V		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	305					activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TGCTAAGGACGCCTCTTCCTG	0.498		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				51	119					0	0	0.01441	0	0		A	140500228	A	A	140500228	3	1	140	1	0	0	0	0	1	0	0	0	1499	1087	38	1	1434	1	BRAF	7	140500228	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	226445	140500228	18638435	288	75278											
MLL3	58508	broad.mit.edu	37	chr7	151873581	151873581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccctgggtttacctgcacaCcctgagaaaaaacatggttt	11	10	9	11	0	0	1	0	1	0	1	0	2	0	1	3	2	3	3	3	2	4	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:151873581C>T	uc003wla.2	-	38	9176	c.8957G>A	c.(8956-8958)GGT>GAT	p.G2986D	MLL3_uc003wkz.2_Missense_Mutation_p.G2047D|MLL3_uc003wky.2_Missense_Mutation_p.G495D	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2986					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TACCTGCACACCCTGAGAAAA	0.473			N		medulloblastoma								24	43					0	0	0.01892	0	0		T	151873581	T	T	151873581	3	4	140	1	0	0	0	0	1	0	0	0	9640	507	18	4	5866	4	MLL3	7	151873581	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	11373353	151873581	7265082	289	75279											
NCAPG2	54892	broad.mit.edu	37	chr7	158444986	158444986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggggagttctgagtaccCgcaggccttcttccggctgc	4	10	13	14	2	2	1	0	1	2	0	3	2	3	2	4	4	2	4	4	4	1	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr7:158444986C>T	uc003wnv.1	-	23	3078	c.2933G>A	c.(2932-2934)CGG>CAG	p.R978Q	NCAPG2_uc010lqu.1_Missense_Mutation_p.R770Q|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.R978Q|NCAPG2_uc011kwe.1_Missense_Mutation_p.R978Q|NCAPG2_uc011kwc.1_Missense_Mutation_p.R479Q|NCAPG2_uc011kwd.1_Missense_Mutation_p.R421Q	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	978					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		TCTGAGTACCCGCAGGCCTTC	0.532													36	325					0	0	0.009718	0	0		T	158444986	T	T	158444986	3	4	140	1	0	0	0	0	1	0	0	0	10227	666	23	1	522	1	NCAPG2	7	158444986	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	6571405	158444986	693677	290	75280											
SPAG11A	653423	broad.mit.edu	37	chr8	7718335	7718335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaaaagagaaaccagagatgGatggcagatctgggatctaa	17	6	13	5	0	2	3	0	0	2	3	2	8	2	5	1	3	1	1	1	3	4	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:7718335G>A	uc003wrx.2	+	3	549	c.514G>A	c.(514-516)GAT>AAT	p.D172N	SPAG11A_uc003wry.2_3'UTR|SPAG11A_uc003wrz.2_Intron|SPAG11A_uc003wsa.2_Intron|SPAG11A_uc003wsb.2_Intron	NM_001081552	NP_001075021	Q6PDA7	SG11A_HUMAN	sperm associated antigen 11A	Error:Variant_position_missing_in_Q6PDA7_after_alignment						extracellular region					0				COAD - Colon adenocarcinoma(149;0.0162)|READ - Rectum adenocarcinoma(644;0.236)		ACCAGAGATGGATGGCAGATC	0.259													10	15					0	0	0.013537	0	0		A	7718335	A	A	7718335	3	1	140	1	0	0	0	0	1	0	0	0	15001	1189	41	4		4	SPAG11A	8	7718335	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08		7718335	138645687	291	75281											
SOX7	83595	broad.mit.edu	37	chr8	10584155	10584155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcctcttctgggacagcGtcagcgccttccacgacttt	6	10	10	15	4	3	0	1	0	2	0	4	2	4	1	3	2	2	0	3	2	0	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:10584155G>A	uc003wtf.2	-	2	339	c.260C>T	c.(259-261)ACG>ATG	p.T87M	SOX7_uc011kwz.1_Missense_Mutation_p.T139M|uc003wtg.1_5'Flank	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	87	HMG box.				endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		CTGGGACAGCGTCAGCGCCTT	0.552													11	26					0	0	0.021523	0	0		A	10584155	A	A	10584155	3	1	140	1	0	0	0	0	1	0	0	0	14981	1145	40	1	910	1	SOX7	8	10584155	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2865820	10584155	135779867	292	75282											
HR	55806	broad.mit.edu	37	chr8	21980053	21980053	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccgggcatcagcttggcAggggcagtgcccccggatat	7	7	14	13	2	1	0	1	0	0	0	1	1	1	1	3	5	3	4	3	5	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:21980053A>G	uc003xas.2	-	8	2739	c.2074T>C	c.(2074-2076)TGC>CGC	p.C692R	HR_uc003xat.2_Missense_Mutation_p.C692R	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	692							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		TCAGCTTGGCAGGGGCAGTGC	0.637													5	23					0	0	0.001168	0	0		G	21980053	G	G	21980053	3	3	140	1	0	0	0	0	1	0	0	0	7363	188	7	3	1543	3	HR	8	21980053	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	11395898	21980053	124383969	293	75283											
REEP4	80346	broad.mit.edu	37	chr8	21996021	21996021	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctgtccacgtctgagggCacagtctttttcctcgtccg	5	13	10	13	3	2	1	0	1	2	0	6	1	5	1	3	1	1	2	3	1	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:21996021C>T	uc003xau.1	-	8	1206	c.753G>A	c.(751-753)GTG>GTA	p.V251V	REEP4_uc010ltt.1_3'UTR	NM_025232	NP_079508	Q9H6H4	REEP4_HUMAN	receptor accessory protein 4	251						integral to membrane				skin(1)	1				Colorectal(74;0.00187)|COAD - Colon adenocarcinoma(73;0.061)|READ - Rectum adenocarcinoma(644;0.0993)		CGTCTGAGGGCACAGTCTTTT	0.632											OREG0018606	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	74					0	0	0.021022	0	0		T	21996021	T	T	21996021	2	4	140	1	0	0	0	0	0	0	0	1	13232	697	25	2		2	REEP4	8	21996021	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	15968	21996021	124368001	294	75284											
RBPMS	11030	broad.mit.edu	37	chr8	30402104	30402104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagcgcctgctctacctcCtcctgctttcacctatcccg	4	13	6	18	2	2	0	1	0	1	0	5	0	5	0	6	0	4	3	6	0	3	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:30402104C>T	uc003xic.1	+	6	1156	c.491C>T	c.(490-492)CCT>CTT	p.P164L	RBPMS_uc003xid.1_Missense_Mutation_p.P164L|RBPMS_uc003xie.1_Missense_Mutation_p.P164L|RBPMS_uc003xif.1_RNA|RBPMS_uc011lba.1_Missense_Mutation_p.P164L|RBPMS_uc003xib.2_Missense_Mutation_p.P164L|RBPMS_uc010lvh.1_Missense_Mutation_p.P60L	NM_006867	NP_006858	Q93062	RBPMS_HUMAN	RNA-binding protein with multiple splicing	164					positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|nucleus	nucleotide binding|poly(A) RNA binding|protein binding|transcription coactivator activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.144)|Kidney(114;0.172)		GCTCTACCTCCTCCTGCTTTC	0.557													86	153					0	0	0.01441	0	0		T	30402104	T	T	30402104	3	4	140	1	0	0	0	0	1	0	0	0	13188	681	24	4	513	4	RBPMS	8	30402104	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	8406083	30402104	115961918	295	75285											
PRKDC	5591	broad.mit.edu	37	chr8	48815306	48815306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggaattctcgaatacacCgaccacaaaaatctcttaaa	18	9	4	10	2	2	0	0	0	2	0	4	3	2	1	2	1	1	0	2	1	8	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:48815306C>T	uc003xqi.2	-	27	3149	c.3092G>A	c.(3091-3093)CGG>CAG	p.R1031Q	PRKDC_uc003xqj.2_Missense_Mutation_p.R1031Q|PRKDC_uc011ldh.1_Missense_Mutation_p.R1031Q	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1031	HEAT 2.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TCGAATACACCGACCACAAAA	0.383								NHEJ					11	29					0	0	0.013537	0	0		T	48815306	T	T	48815306	3	4	140	1	0	0	0	0	1	0	0	0	12543	652	23	1	9533	1	PRKDC	8	48815306	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	18413202	48815306	97548716	296	75286											
PRKDC	5591	broad.mit.edu	37	chr8	48845618	48845618	+	Frame_Shift_Del	DEL	C	-	-																															ctgtatttcaagtgtaagatCcaatttctcaacaatcttca																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:48845618delC	uc003xqi.2	-	16	1795	c.1738delG	c.(1738-1740)GATfs	p.D580fs	PRKDC_uc003xqj.2_Frame_Shift_Del_p.D580fs|PRKDC_uc011ldh.1_Frame_Shift_Del_p.D580fs	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	580					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AGTGTAAGATCCAATTTCTCA	0.308								NHEJ					11	14	---	---	---	---						.	-	48845618	-	-	48845618	7	5	140	1	0	1	0	1	0	0	0	0	12543	855	30	0	10931	0	PRKDC	8	48845618	Frame_Shift_Del	DEL	C	TCGA-CG-4465-01A-01D-1158-08	30312	48845618	97518404	297	75287											
MOS	4342	broad.mit.edu	37	chr8	57026480	57026480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggactgctgcagggccgcGcgtccaccgatggggaaaac	9	4	16	12	4	0	0	0	0	0	0	1	3	1	2	3	4	3	2	3	4	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:57026480G>A	uc011leb.1	-	1	62	c.62C>T	c.(61-63)GCG>GTG	p.A21V		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	21							ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			GCAGGGCCGCGCGTCCACCGA	0.706													9	35					0	0	0.004482	0	0		A	57026480	A	A	57026480	3	1	140	1	0	0	0	0	1	0	0	0	9730	1087	38	1	981	1	MOS	8	57026480	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	8180862	57026480	89337542	298	75288											
CYP7B1	9420	broad.mit.edu	37	chr8	65528338	65528338	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatccttgcatcttggctaActtttctgatgagaagcatt	9	15	7	10	0	2	2	0	2	2	1	3	3	3	2	2	1	3	3	2	1	2	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:65528338A>C	uc003xvj.2	-	3	964	c.760T>G	c.(760-762)TTA>GTA	p.L254V		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	254					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				ATCTTGGCTAACTTTTCTGAT	0.368													102	211					0	0	0.01441	0	0		C	65528338	C	C	65528338	3	2	140	1	0	0	0	0	1	0	0	0	4200	40	2	5	776	5	CYP7B1	8	65528338	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	8501858	65528338	80835684	299	75289											
MSC	9242	broad.mit.edu	37	chr8	72756294	72756294	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgacgagttgtcactgggCgaggcgtagctgcgctctac	6	8	15	12	5	2	0	1	0	1	0	2	3	2	0	1	2	3	4	1	2	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:72756294C>T	uc003xyx.1	-	1	438	c.120G>A	c.(118-120)TCG>TCA	p.S40S	uc011lff.1_Intron|uc003xyy.2_5'Flank	NM_005098	NP_005089	O60682	MUSC_HUMAN	musculin	40					transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Breast(64;0.176)		Epithelial(68;0.137)|BRCA - Breast invasive adenocarcinoma(89;0.203)			TGTCACTGGGCGAGGCGTAGC	0.711													8	16					0	0	0.006214	0	0		T	72756294	T	T	72756294	2	4	140	1	0	0	0	0	0	0	0	1	9886	755	27	1		1	MSC	8	72756294	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	7227956	72756294	73607728	300	75290											
ZFHX4	79776	broad.mit.edu	37	chr8	77775680	77775680	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtcgatcctattcagttgCaggcattacagaatgcaatt	12	13	8	8	1	1	1	1	0	0	1	3	2	2	1	1	1	3	4	1	1	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:77775680C>T	uc003yav.2	+	11	9982	c.9595C>T	c.(9595-9597)CAG>TAG	p.Q3199*		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3195						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TATTCAGTTGCAGGCATTACA	0.428										HNSCC(33;0.089)			73	124					0	0	0.01441	0	0		T	77775680	T	T	77775680	4	4	140	1	0	0	0	0	0	1	0	0	17660	711	25	2	9768	2	ZFHX4	8	77775680	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5019386	77775680	68588342	301	75291											
DCAF4L2	138009	broad.mit.edu	37	chr8	88885305	88885305	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacacatttagtggccctcaAgtcccacagcttgatagttc	10	12	7	12	0	1	1	1	1	0	0	3	1	2	1	2	1	2	2	2	1	4	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:88885305A>C	uc003ydz.2	-	1	992	c.895T>G	c.(895-897)TTG>GTG	p.L299V		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	299	WD 1.									ovary(1)	1						GTGGCCCTCAAGTCCCACAGC	0.502													6	75					0	0	0.001984	0	0		C	88885305	C	C	88885305	3	2	140	1	0	0	0	0	1	0	0	0	4275	69	3	5	296	5	DCAF4L2	8	88885305	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	11109625	88885305	57478717	302	75292											
TP53INP1	94241	broad.mit.edu	37	chr8	95952350	95952350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agccaagcactcaagagatgCcggtaaacaggaaaagactg	17	4	11	9	1	1	2	1	0	0	2	1	4	1	3	2	2	4	2	2	2	6	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:95952350C>T	uc003yhg.2	-	3	595	c.211G>A	c.(211-213)GCA>ACA	p.A71T	C8orf38_uc003yhe.1_Intron|C8orf38_uc003yhf.2_Intron|TP53INP1_uc003yhh.2_Missense_Mutation_p.A71T	NM_033285	NP_150601	Q96A56	T53I1_HUMAN	tumor protein p53 inducible nuclear protein 1	71					apoptosis	PML body					0	Breast(36;8.75e-07)					TCAAGAGATGCCGGTAAACAG	0.473													3	47					0	0	0.004672	0	0		T	95952350	T	T	95952350	3	4	140	1	0	0	0	0	1	0	0	0	16414	739	26	2	545	2	TP53INP1	8	95952350	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	7067045	95952350	50411672	303	75293											
GDF6	392255	broad.mit.edu	37	chr8	97172784	97172784	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcatcttgccttccttgCggcttcgcatgcccttggtg	2	14	11	14	2	1	0	0	0	1	0	3	0	2	0	3	2	4	4	3	2	0	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:97172784C>T	uc003yhp.2	-	1	237	c.137G>A	c.(136-138)CGC>CAC	p.R46H		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	46					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GCCTTCCTTGCGGCTTCGCAT	0.662													59	104					0	0	0.01441	0	0		T	97172784	T	T	97172784	3	4	140	1	0	0	0	0	1	0	0	0	6332	768	27	1	1238	1	GDF6	8	97172784	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1220434	97172784	49191238	304	75294											
MTDH	92140	broad.mit.edu	37	chr8	98703359	98703359	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagacactggagatgctaatAcaaatggaaaagactgggga	18	6	12	5	0	0	3	0	0	0	3	0	6	0	5	0	4	2	1	0	4	6	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:98703359A>G	uc003yhz.2	+	6	1319	c.991A>G	c.(991-993)ACA>GCA	p.T331A	MTDH_uc010mbf.2_RNA	NM_178812	NP_848927	Q86UE4	LYRIC_HUMAN	metadherin	331	Cytoplasmic (Potential).				lipopolysaccharide-mediated signaling pathway|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of angiogenesis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein kinase B signaling cascade	apical plasma membrane|endoplasmic reticulum membrane|integral to membrane|intercellular canaliculus|nuclear body|nuclear membrane|nucleolus|perinuclear region of cytoplasm|tight junction	NF-kappaB binding|RNA polymerase II transcription factor binding|transcription coactivator activity			liver(1)|central_nervous_system(1)	2	Breast(36;2.56e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.178)			AGATGCTAATACAAATGGAAA	0.413													38	96					0	0	0.01441	0	0		G	98703359	G	G	98703359	3	3	140	1	0	0	0	0	1	0	0	0	9935	391	14	3	1013	3	MTDH	8	98703359	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1530575	98703359	47660663	305	75295											
TAF2	6873	broad.mit.edu	37	chr8	120844733	120844733	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatacttataatttatatggCcttgggctttcaaagccctt	11	16	6	8	0	1	0	1	0	0	0	1	0	1	0	2	2	2	1	2	2	7	9			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:120844733C>T	uc003you.2	-	1	342	c.72G>A	c.(70-72)AGG>AGA	p.R24R		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	24					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			ATTTATATGGCCTTGGGCTTT	0.458													17	61					0	0	0.007413	0	0		T	120844733	T	T	120844733	2	4	140	1	0	0	0	0	0	0	0	1	15549	738	26	2		2	TAF2	8	120844733	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	22141374	120844733	25519289	306	75296											
GSDMC	56169	broad.mit.edu	37	chr8	130765066	130765066	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttcggaaatttcgtacTcttgggagagagggagagca	11	10	13	7	2	1	2	0	0	1	2	3	6	1	4	1	3	2	2	1	3	2	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:130765066T>C	uc003ysr.2	-	7	1604	c.722A>G	c.(721-723)GAG>GGG	p.E241G		NM_031415	NP_113603	Q9BYG8	GSDMC_HUMAN	melanoma-derived leucine zipper, extra-nuclear	241						mitochondrion				ovary(2)|skin(1)	3						aatttcgtactcttgggagag	0													37	49					0	0	0.006999	0	0		C	130765066	C	C	130765066	3	2	140	1	0	0	0	0	1	0	0	0	6834	1565	54	3	836	3	GSDMC	8	130765066	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	9920333	130765066	15598956	307	75297											
ADCY8	114	broad.mit.edu	37	chr8	132002705	132002705	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccgagtctccaggaaagcTtggcgctgggcccggtctga	6	8	14	13	3	2	1	0	1	2	0	4	3	3	2	3	4	1	2	3	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:132002705T>C	uc003ytd.3	-	2	1300	c.1044A>G	c.(1042-1044)CAA>CAG	p.Q348Q	ADCY8_uc010mds.2_Silent_p.Q348Q	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	348	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CCAGGAAAGCTTGGCGCTGGG	0.517										HNSCC(32;0.087)			49	148					0	0	0.01441	0	0		C	132002705	C	C	132002705	2	2	140	1	0	0	0	0	0	0	0	1	300	1606	56	3		3	ADCY8	8	132002705	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	1237639	132002705	14361317	308	75298											
TG	7038	broad.mit.edu	37	chr8	133894712	133894712	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcttgctgtctttgctcAggtttggagttgttactgga	6	17	12	6	0	3	0	1	0	2	0	3	2	3	2	0	3	3	5	0	3	2	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:133894712A>G	uc003ytw.2	+	7	787	c.746_splice	c.e7-2	p.G249_splice		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor						hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GTCTTTGCTCAGGTTTGGAGT	0.468													118	246					0	0	0.01441	0	0		G	133894712	G	G	133894712	5	3	140	1	0	0	0	0	0	0	1	0	15838	202	7	3	770	3	TG	8	133894712	Splice_Site	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1892007	133894712	12469310	309	75299											
KCNK9	51305	broad.mit.edu	37	chr8	140715170	140715170	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcgtcgaacacggcggcGcccaccagcaggtaggtgaa	10	3	16	12	5	0	1	0	1	0	0	1	2	0	1	2	5	2	2	2	5	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:140715170G>A	uc003yvf.1	-	1	130	c.66C>T	c.(64-66)GGC>GGT	p.G22G	KCNK9_uc003yvg.1_Silent_p.G22G	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	22	Helical; (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity	p.G22G(1)		ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			ACACGGCGGCGCCCACCAGCA	0.632													5	18					0	0	0.014758	0	0		A	140715170	A	A	140715170	2	1	140	1	0	0	0	0	0	0	0	1	8088	1074	38	1		1	KCNK9	8	140715170	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	6820458	140715170	5648852	310	75300											
EEF1D	1936	broad.mit.edu	37	chr8	144663432	144663432	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttctccacttccagacTggcaatccggacgacgagct	8	9	10	14	3	1	1	0	0	1	1	4	4	3	2	3	3	1	3	3	3	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:144663432T>C	uc011lki.1	-	4	525	c.256A>G	c.(256-258)AGT>GGT	p.S86G	NAPRT1_uc003yym.3_5'Flank|NAPRT1_uc003yyn.3_5'Flank|NAPRT1_uc011lkh.1_5'Flank|NAPRT1_uc003yyo.3_5'Flank|EEF1D_uc003yyp.1_Missense_Mutation_p.S428G|EEF1D_uc003yyq.1_Missense_Mutation_p.S502G|EEF1D_uc011lkj.1_Missense_Mutation_p.S451G|EEF1D_uc003yyr.2_Missense_Mutation_p.S452G|EEF1D_uc003yyt.2_Missense_Mutation_p.S452G|EEF1D_uc011lkk.1_Missense_Mutation_p.S86G|EEF1D_uc003yys.2_Missense_Mutation_p.S86G|EEF1D_uc003yyv.2_Missense_Mutation_p.S62G|EEF1D_uc003yyu.2_Missense_Mutation_p.S86G|EEF1D_uc011lkl.1_Intron	NM_001130057	NP_001123529	P29692	EF1D_HUMAN	eukaryotic translation elongation factor 1 delta	86					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|signal transducer activity|translation elongation factor activity			ovary(1)|kidney(1)|skin(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			ACTTCCAGACTGGCAATCCGG	0.697													15	28					0	0	0.00499	0	0		C	144663432	C	C	144663432	3	2	140	1	0	0	0	0	1	0	0	0	4932	1580	55	3	609	3	EEF1D	8	144663432	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	3948262	144663432	1700590	311	75301											
PLEC	5339	broad.mit.edu	37	chr8	144990831	144990831	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtactgcacctccaggaaGcgctggccggcctcgtagta	8	7	13	13	3	0	0	0	0	0	0	2	1	1	1	4	4	3	5	4	4	4	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:144990831G>C	uc003zaf.1	-	32	13739	c.13569C>G	c.(13567-13569)CGC>CGG	p.R4523R	PLEC_uc003zab.1_Silent_p.R4386R|PLEC_uc003zac.1_Silent_p.R4390R|PLEC_uc003zad.2_Silent_p.R4386R|PLEC_uc003zae.1_Silent_p.R4354R|PLEC_uc003zag.1_Silent_p.R4364R|PLEC_uc003zah.2_Silent_p.R4372R|PLEC_uc003zaj.2_Silent_p.R4413R	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4523	Plectin 32.|Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CCTCCAGGAAGCGCTGGCCGG	0.701													10	16					0	0	0.004007	0	0		C	144990831	C	C	144990831	2	2	140	1	0	0	0	0	0	0	0	1	12071	958	34	5		5	PLEC	8	144990831	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	327399	144990831	1373191	312	75302											
PLEC	5339	broad.mit.edu	37	chr8	145003686	145003686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaggcctccagctgcagccGgatgtctttgagctcggaga	8	8	13	12	2	1	2	0	1	1	1	3	4	2	3	3	3	4	3	3	3	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:145003686G>A	uc003zaf.1	-	24	3558	c.3388C>T	c.(3388-3390)CGG>TGG	p.R1130W	PLEC_uc003zab.1_Missense_Mutation_p.R993W|PLEC_uc003zac.1_Missense_Mutation_p.R997W|PLEC_uc003zad.2_Missense_Mutation_p.R993W|PLEC_uc003zae.1_Missense_Mutation_p.R961W|PLEC_uc003zag.1_Missense_Mutation_p.R971W|PLEC_uc003zah.2_Missense_Mutation_p.R979W|PLEC_uc003zaj.2_Missense_Mutation_p.R1020W	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	1130	Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						AGCTGCAGCCGGATGTCTTTG	0.677													7	19					0	0	0.008291	0	0		A	145003686	A	A	145003686	3	1	140	1	0	0	0	0	1	0	0	0	12071	1115	39	1	10702	1	PLEC	8	145003686	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	12855	145003686	1360336	313	75303											
LRRC14	9684	broad.mit.edu	37	chr8	145746833	145746833	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccacggacatctacgggCgactggctgcggactacttc	8	7	13	13	4	1	0	0	0	1	0	2	4	1	3	1	5	3	1	1	5	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr8:145746833C>T	uc003zdk.1	+	4	1599	c.1453C>T	c.(1453-1455)CGA>TGA	p.R485*	LRRC14_uc003zdl.1_Nonsense_Mutation_p.R485*|LRRC14_uc003zdo.2_5'Flank	NM_014665	NP_055480	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	485											0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CATCTACGGGCGACTGGCTGC	0.587													13	30					0	0	0.003163	0	0		T	145746833	T	T	145746833	4	4	140	1	0	0	0	0	0	1	0	0	8986	760	27	1	1463	1	LRRC14	8	145746833	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	743147	145746833	617189	314	75304											
MPDZ	8777	broad.mit.edu	37	chr9	13168535	13168535	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgaacgatcatccccaaGccatctttattagcactaac	12	11	4	14	2	2	0	1	0	1	0	4	2	3	0	3	0	4	1	3	0	5	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:13168535G>T	uc010mia.1	-	21	3141	c.3084C>A	c.(3082-3084)GGC>GGA	p.G1028G	MPDZ_uc003zkz.3_5'UTR|MPDZ_uc010mhy.2_Silent_p.G1028G|MPDZ_uc010mhz.2_Silent_p.G1028G|MPDZ_uc011lmn.1_Silent_p.G1028G|MPDZ_uc003zlb.3_Silent_p.G1028G	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1028	PDZ 6.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		TCATCCCCAAGCCATCTTTAT	0.328													74	182					7.427e-35	8.67419e-35	0.01441	1	0		T	13168535	T	T	13168535	2	4	140	1	0	0	0	0	0	0	0	1	9740	958	34	5		5	MPDZ	9	13168535	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08		13168535	128044896	315	75305											
CNTLN	54875	broad.mit.edu	37	chr9	17332676	17332676	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaagagctacagaagcTgagaaaagctgaaagaaaga	20	4	11	6	0	1	7	1	2	0	6	1	8	1	7	0	0	4	3	0	0	7	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:17332676T>C	uc003zmz.2	+	10	1618	c.1592T>C	c.(1591-1593)CTG>CCG	p.L531P	CNTLN_uc003zmy.2_Missense_Mutation_p.L531P|CNTLN_uc010mio.2_Missense_Mutation_p.L210P	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	531						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		CTACAGAAGCTGAGAAAAGCT	0.378													14	55					0	0	0.00632	0	0		C	17332676	C	C	17332676	3	2	140	1	0	0	0	0	1	0	0	0	3642	1580	55	3	1660	3	CNTLN	9	17332676	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	4164141	17332676	123880755	316	75306											
UNC13B	10497	broad.mit.edu	37	chr9	35295726	35295726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatagtgccgtcgatgaccGagatagtgactatcgcagtg	10	10	13	8	4	0	4	0	3	0	1	2	6	0	4	2	0	1	1	2	0	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:35295726G>A	uc003zwq.2	+	8	852	c.560G>A	c.(559-561)CGA>CAA	p.R187Q	UNC13B_uc010mkl.1_Missense_Mutation_p.R187Q|UNC13B_uc003zwr.2_Missense_Mutation_p.R187Q	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	187					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			GTCGATGACCGAGATAGTGAC	0.483													37	69					0	0	0.006999	0	0		A	35295726	A	A	35295726	3	1	140	1	0	0	0	0	1	0	0	0	17011	1058	37	1	590	1	UNC13B	9	35295726	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	17963050	35295726	105917705	317	75307											
TESK1	7016	broad.mit.edu	37	chr9	35609504	35609504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgggcggcagccctggagcGgacagaaccctcgccacccc	7	2	13	19	4	0	1	0	0	0	1	1	3	0	3	6	4	3	1	6	4	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:35609504G>A	uc003zxa.2	+	10	1982	c.1646G>A	c.(1645-1647)CGG>CAG	p.R549Q	TESK1_uc003zwz.1_RNA|TESK1_uc010mks.2_Missense_Mutation_p.R389Q	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	549					cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GCCCTGGAGCGGACAGAACCC	0.697													13	92					0	0	0.003163	0	0		A	35609504	A	A	35609504	3	1	140	1	0	0	0	0	1	0	0	0	15792	1116	39	1	1684	1	TESK1	9	35609504	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	313778	35609504	105603927	318	75308											
ALDH1B1	219	broad.mit.edu	37	chr9	38395794	38395794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagcctccagggcaggaccGcccgctactcctcggcagca	7	6	11	17	3	0	0	0	0	0	0	3	1	2	1	5	3	3	4	5	3	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:38395794G>A	uc004aay.2	+	2	161	c.49G>A	c.(49-51)GCC>ACC	p.A17T		NM_000692	NP_000683	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1B1 precursor	17					carbohydrate metabolic process	mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity			skin(1)	1				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)	NADH(DB00157)	GGGCAGGACCGCCCGCTACTC	0.587													26	64					0	0	0.021022	0	0		A	38395794	A	A	38395794	3	1	140	1	0	0	0	0	1	0	0	0	493	1087	38	1	51	1	ALDH1B1	9	38395794	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2786290	38395794	102817637	319	75309											
AGTPBP1	23287	broad.mit.edu	37	chr9	88247586	88247586	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgcaactcacctttgtacaCcataaggcctttctaaaata	14	12	4	11	0	2	0	1	0	1	0	2	0	2	0	3	1	3	2	3	1	6	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:88247586C>A	uc011ltd.1	-	13	2039	c.2006G>T	c.(2005-2007)GGT>GTT	p.G669V	AGTPBP1_uc004aod.3_Missense_Mutation_p.G295V|AGTPBP1_uc011ltc.1_Missense_Mutation_p.G567V|AGTPBP1_uc010mqc.2_Missense_Mutation_p.G629V|AGTPBP1_uc011lte.1_Missense_Mutation_p.G681V	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	669					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						CCTTTGTACACCATAAGGCCT	0.383													20	52					1.01871e-10	1.11395e-10	0.008871	1	0		A	88247586	A	A	88247586	3	1	140	1	0	0	0	0	1	0	0	0	400	507	18	5	1726	5	AGTPBP1	9	88247586	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	49851792	88247586	52965845	320	75310											
C9orf129	445577	broad.mit.edu	37	chr9	96097655	96097655	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgacccacgcaccactcaCtttgtcgcccctccgctgcc	6	7	7	21	4	1	0	1	0	0	0	3	1	2	0	6	0	2	2	6	0	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:96097655C>T	uc010mre.2	-	3	729	c.365_splice	c.e3+1	p.K122_splice		NM_001098808	NP_001092278	Q5T035	CI129_HUMAN	hypothetical protein LOC445577											ovary(1)	1						GCACCACTCACTTTGTCGCCC	0.617													11	17					0	0	0.016723	0	0		T	96097655	T	T	96097655	5	4	140	1	0	0	0	0	0	0	1	0	2459	579	20	4	236	4	C9orf129	9	96097655	Splice_Site	SNP	C	TCGA-CG-4465-01A-01D-1158-08	7850069	96097655	45115776	321	75311											
TSTD2	158427	broad.mit.edu	37	chr9	100367776	100367776	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggctcaccttggctttgaGgtaggctgaaccccgctcac	6	10	12	13	1	2	2	2	2	0	0	2	2	2	2	3	4	1	5	3	4	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:100367776G>T	uc004axn.2	-	8	1590	c.1102C>A	c.(1102-1104)CTC>ATC	p.L368I	TSTD2_uc004axo.2_Missense_Mutation_p.L142I|TSTD2_uc004axp.1_Missense_Mutation_p.L142I	NM_139246	NP_640339	Q5T7W7	TSTD2_HUMAN	thiosulfate sulfurtransferase (rhodanese)-like	368	Rhodanese.									ovary(2)	2						TTGGCTTTGAGGTAGGCTGAA	0.582													23	55					2.65835e-16	2.98725e-16	0.007291	1	0		T	100367776	T	T	100367776	3	4	140	1	0	0	0	0	1	0	0	0	16701	1000	35	5	460	5	TSTD2	9	100367776	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	4270121	100367776	40845655	322	75312											
CORO2A	7464	broad.mit.edu	37	chr9	100892136	100892136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagctcaggtgaggcttgtCggcgctcacctcgtagtagc	6	10	14	11	3	2	1	2	1	0	0	4	1	2	1	1	3	2	6	1	3	3	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:100892136C>T	uc004ayl.2	-	8	1173	c.907G>A	c.(907-909)GAC>AAC	p.D303N	CORO2A_uc004aym.2_Missense_Mutation_p.D303N|CORO2A_uc004ayk.2_5'Flank	NM_003389	NP_003380	Q92828	COR2A_HUMAN	coronin, actin binding protein, 2A	303	WD 5.				actin cytoskeleton organization|intracellular signal transduction	actin cytoskeleton|transcriptional repressor complex	actin filament binding			skin(2)|ovary(1)|pancreas(1)	4		Acute lymphoblastic leukemia(62;0.0559)				TGAGGCTTGTCGGCGCTCACC	0.398													34	90					0	0	0.015359	0	0		T	100892136	T	T	100892136	3	4	140	1	0	0	0	0	1	0	0	0	3759	884	31	1	690	1	CORO2A	9	100892136	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	524360	100892136	40321295	323	75313											
TBC1D2	55357	broad.mit.edu	37	chr9	101014129	101014129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaggggtggcaggaggtGccggcgggctgttgtggaat	6	8	20	7	2	1	0	1	0	0	0	1	2	1	2	1	8	1	3	1	8	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:101014129G>A	uc011lvb.1	-	2	629	c.449C>T	c.(448-450)GCA>GTA	p.A150V	TBC1D2_uc004ayq.2_Missense_Mutation_p.A150V|TBC1D2_uc004ayr.2_Intron|TBC1D2_uc004ayo.3_Missense_Mutation_p.A150V	NM_018421	NP_060891	Q9BYX2	TBD2A_HUMAN	TBC1 domain family, member 2	150	Interaction with CADH1.					cell junction|cytoplasmic membrane-bounded vesicle|nucleus	Rab GTPase activator activity			ovary(3)	3		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.55e-37)		GGCAGGAGGTGCCGGCGGGCT	0.637													27	53					0	0	0.019004	0	0		A	101014129	A	A	101014129	3	1	140	1	0	0	0	0	1	0	0	0	15633	1319	46	2	2352	2	TBC1D2	9	101014129	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	121993	101014129	40199302	324	75314											
ACTL7B	10880	broad.mit.edu	37	chr9	111617137	111617137	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggggcagaggaggctcagCtccctctggaagcgctcggg	6	5	17	13	3	2	1	1	0	1	1	4	3	3	3	2	6	2	4	2	6	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:111617137C>T	uc004bdi.2	-	1	1139	c.1074G>A	c.(1072-1074)GAG>GAA	p.E358E		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	358						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						GGAGGCTCAGCTCCCTCTGGA	0.672													28	42					0	0	0.015359	0	0		T	111617137	T	T	111617137	2	4	140	1	0	0	0	0	0	0	0	1	201	796	28	2		2	ACTL7B	9	111617137	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	10603008	111617137	29596294	325	75315											
DFNB31	25861	broad.mit.edu	37	chr9	117168749	117168749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggtctgggtggccagaggGtgatgggggcagaaggcagc	7	6	21	7	0	1	3	0	1	1	2	1	3	1	3	1	7	1	2	1	7	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:117168749G>A	uc004biz.3	-	9	2771	c.2122C>T	c.(2122-2124)CCC>TCC	p.P708S	DFNB31_uc004bix.2_Missense_Mutation_p.P357S|DFNB31_uc004biy.3_Missense_Mutation_p.P325S|DFNB31_uc004bja.3_Missense_Mutation_p.P708S	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	708	Pro-rich.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						TGGCCAGAGGGTGATGGGGGC	0.652													14	66					0	0	0.003163	0	0		A	117168749	A	A	117168749	3	1	140	1	0	0	0	0	1	0	0	0	4461	1261	44	4	617	4	DFNB31	9	117168749	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	5551612	117168749	24044682	326	75316											
PAPPA	5069	broad.mit.edu	37	chr9	118974189	118974189	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcttcttcaacactccttaCaacaacttcatgagctatgc	12	12	4	13	0	3	1	2	1	1	0	4	1	4	1	1	0	7	2	1	0	5	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:118974189C>G	uc004bjn.2	+	4	2277	c.1896C>G	c.(1894-1896)TAC>TAG	p.Y632*	PAPPA_uc011lxp.1_Intron|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	632					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						ACACTCCTTACAACAACTTCA	0.512													114	262					0	0	0.01441	0	0		G	118974189	G	G	118974189	4	3	140	1	0	0	0	0	0	1	0	0	11451	489	17	5	1910	5	PAPPA	9	118974189	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1805440	118974189	22239242	327	75317											
DBC1	1620	broad.mit.edu	37	chr9	121929790	121929790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtagccgagtccgactacGtaggtagatgtggaccgtct	9	9	14	9	4	1	1	0	0	1	1	2	4	2	2	3	3	2	3	3	3	4	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:121929790G>A	uc004bkc.2	-	8	2314	c.1858C>T	c.(1858-1860)CGT>TGT	p.R620C		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	620					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GTCCGACTACGTAGGTAGATG	0.537													45	96					0	0	0.01441	0	0		A	121929790	A	A	121929790	3	1	140	1	0	0	0	0	1	0	0	0	4250	1145	40	1	431	1	DBC1	9	121929790	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2955601	121929790	19283641	328	75318											
OR5C1	392391	broad.mit.edu	37	chr9	125552005	125552005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcattttcatgtacctgcGccccagctccagctatgccc	7	11	6	17	1	2	0	2	0	0	0	3	0	3	0	5	0	5	3	5	0	2	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:125552005G>A	uc011lzd.1	+	1	794	c.794G>A	c.(793-795)CGC>CAC	p.R265H		NM_001001923	NP_001001923	Q8NGR4	OR5C1_HUMAN	olfactory receptor, family 5, subfamily C,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1						ATGTACCTGCGCCCCAGCTCC	0.592													41	73					0	0	0.011902	0	0		A	125552005	A	A	125552005	3	1	140	1	0	0	0	0	1	0	0	0	11172	1087	38	1	796	1	OR5C1	9	125552005	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3622215	125552005	15661426	329	75319											
LMX1B	4010	broad.mit.edu	37	chr9	129377719	129377719	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagcggcccatctccgaccGcttcctgatgcgagtcaacg	7	7	10	17	5	2	1	1	1	1	0	4	3	3	1	5	1	3	1	5	1	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:129377719G>T	uc004bqj.2	+	2	178	c.128G>T	c.(127-129)CGC>CTC	p.R43L	LMX1B_uc004bqi.2_Missense_Mutation_p.R43L|LMX1B_uc011maa.1_Missense_Mutation_p.R43L	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	43	LIM zinc-binding 1.				dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ATCTCCGACCGCTTCCTGATG	0.692									Nail-Patella_Syndrome				11	23					0.000978159	0.00100284	0.010729	1	0		T	129377719	T	T	129377719	3	4	140	1	0	0	0	0	1	0	0	0	8879	1087	38	5	203	5	LMX1B	9	129377719	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3825714	129377719	11835712	330	75320											
LMX1B	4010	broad.mit.edu	37	chr9	129458217	129458217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaacagagcccctacggcaGcagcgaccccttccagcagg	10	3	12	16	2	0	1	0	0	0	1	1	3	1	2	5	3	6	3	5	3	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:129458217G>A	uc004bqj.2	+	7	967	c.917G>A	c.(916-918)AGC>AAC	p.S306N	LMX1B_uc004bqi.2_Missense_Mutation_p.S306N|LMX1B_uc011maa.1_Missense_Mutation_p.S317N	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	306					dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCCTACGGCAGCAGCGACCCC	0.672									Nail-Patella_Syndrome				22	29					0	0	0.021523	0	0		A	129458217	A	A	129458217	3	1	140	1	0	0	0	0	1	0	0	0	8879	971	34	2	1045	2	LMX1B	9	129458217	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	80498	129458217	11755214	331	75321											
TOR2A	27433	broad.mit.edu	37	chr9	130495689	130495689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgaagatggctttgcGgtaattggtcccgtatacca	11	11	12	7	2	0	3	0	1	0	2	1	4	1	3	2	3	2	3	2	3	5	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:130495689G>A	uc004brs.3	-	3	623	c.568C>T	c.(568-570)CGC>TGC	p.R190C	TOR2A_uc004brt.3_Missense_Mutation_p.R190C|TOR2A_uc004brw.3_Missense_Mutation_p.R190C|TOR2A_uc011maj.1_3'UTR|TOR2A_uc004bru.3_Missense_Mutation_p.R28C|TOR2A_uc004brv.3_RNA|TOR2A_uc004brx.1_Missense_Mutation_p.R28C	NM_001085347	NP_001078816	Q5JU69	TOR2A_HUMAN	torsin family 2, member A isoform a	190					chaperone mediated protein folding requiring cofactor	endoplasmic reticulum|extracellular region	ATP binding|nucleoside-triphosphatase activity				0						ATGGCTTTGCGGTAATTGGTC	0.587													14	27					0	0	0.020292	0	0		A	130495689	A	A	130495689	3	1	140	1	0	0	0	0	1	0	0	0	16401	1116	39	1	578	1	TOR2A	9	130495689	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1037472	130495689	10717742	332	75322											
SH3GLB2	56904	broad.mit.edu	37	chr9	131771011	131771011	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaccttgcccttcttgttGcctctctcgccaatgagcca	5	12	9	15	1	2	1	0	1	2	0	4	2	2	2	5	1	3	1	5	1	1	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:131771011G>A	uc004bwv.2	-	11	1286	c.1140C>T	c.(1138-1140)GGC>GGT	p.G380G	SH3GLB2_uc004bww.2_Silent_p.G389G|SH3GLB2_uc004bwx.1_Silent_p.G380G|SH3GLB2_uc011mbm.1_Silent_p.G389G	NM_020145	NP_064530	Q9NR46	SHLB2_HUMAN	SH3-domain GRB2-like endophilin B2	380	SH3.				filopodium assembly|signal transduction	cytoplasm|nucleus	cytoskeletal adaptor activity|SH3 domain binding				0						CCTTCTTGTTGCCTCTCTCGC	0.612											OREG0003926	type=REGULATORY REGION|Gene=SH3GLB2|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	19	36					0	0	0.010504	0	0		A	131771011	A	A	131771011	2	1	140	1	0	0	0	0	0	0	0	1	14279	1306	46	2		2	SH3GLB2	9	131771011	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1275322	131771011	9442420	333	75323											
C9orf78	51759	broad.mit.edu	37	chr9	132591762	132591762	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctttcttcttgttctgctGctctgccagcagacgggcct	3	15	10	13	1	5	1	0	0	5	1	5	1	5	1	2	1	4	4	2	1	0	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:132591762G>A	uc004byp.2	-	7	673	c.601C>T	c.(601-603)CAG>TAG	p.Q201*	C9orf78_uc004byo.2_Nonsense_Mutation_p.Q126*|C9orf78_uc004byq.1_Nonsense_Mutation_p.Q147*	NM_016520	NP_057604	Q9NZ63	CI078_HUMAN	chromosome 9 open reading frame 78	201											0		Ovarian(14;0.00556)				TTGTTCTGCTGCTCTGCCAGC	0.478													88	209					0	0	0.01441	0	0		A	132591762	A	A	132591762	4	1	140	1	0	0	0	0	0	1	0	0	2499	1328	46	2	280	2	C9orf78	9	132591762	Nonsense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	820751	132591762	8621669	334	75324											
COL5A1	1289	broad.mit.edu	37	chr9	137681048	137681048	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgccaatggagagaagggCggcagggtaaggatagcctg	11	4	19	7	2	0	1	0	0	0	1	0	4	0	3	2	6	1	2	2	6	4	2	rs139394549		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:137681048C>T	uc004cfe.2	+	32	3076	c.2694C>T	c.(2692-2694)GGC>GGT	p.G898G		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	898	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GAGAGAAGGGCGGCAGGGTAA	0.572													9	24					0	0	0.006214	0	0		T	137681048	T	T	137681048	2	4	140	1	0	0	0	0	0	0	0	1	3699	755	27	1		1	COL5A1	9	137681048	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5089286	137681048	3532383	335	75325											
FBXW5	54461	broad.mit.edu	37	chr9	139836005	139836005	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgttgtcgggcgacaGgcccatgccgatgatgtgtc	6	9	13	13	3	0	1	0	1	0	0	2	3	0	1	4	2	1	1	4	2	0	1	rs139795863	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:139836005G>T	uc004cjx.2	-	7	1379	c.1228C>A	c.(1228-1230)CTG>ATG	p.L410M	FBXW5_uc010nbx.2_RNA|FBXW5_uc004cjy.2_Missense_Mutation_p.L158M|FBXW5_uc004cjz.2_Missense_Mutation_p.L140M	NM_018998	NP_061871	Q969U6	FBXW5_HUMAN	F-box and WD repeat domain containing 5	410							catalytic activity|protein binding				0	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.19)	OV - Ovarian serous cystadenocarcinoma(145;7.8e-06)|Epithelial(140;0.000106)		TCGGGCGACAGGCCCATGCCG	0.682													13	16					2.32078e-09	2.50931e-09	0.003163	1	0		T	139836005	T	T	139836005	3	4	140	1	0	0	0	0	1	0	0	0	5782	991	35	5	484	5	FBXW5	9	139836005	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2154957	139836005	1377426	336	75326											
COBRA1	25920	broad.mit.edu	37	chr9	140161524	140161524	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatatccaaacacacttccCgaaagcttcactaagtacgg	14	9	5	13	2	2	0	2	0	0	0	4	1	4	0	2	1	3	2	2	1	5	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:140161524C>T	uc004cmm.3	+	9	1427	c.1224C>T	c.(1222-1224)CCC>CCT	p.P408P		NM_015456	NP_056271	Q8WX92	NELFB_HUMAN	cofactor of BRCA1	408					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleoplasm	protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.137)	OV - Ovarian serous cystadenocarcinoma(145;9.42e-05)|Epithelial(140;0.000766)		ACACACTTCCCGAAAGCTTCA	0.582													32	59					0	0	0.021022	0	0		T	140161524	T	T	140161524	2	4	140	1	0	0	0	0	0	0	0	1	3658	639	23	1		1	COBRA1	9	140161524	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	325519	140161524	1051907	337	75327											
C9orf167	54863	broad.mit.edu	37	chr9	140173182	140173182	+	Frame_Shift_Del	DEL	C	-	-																															cctggagcctgctgccgcggCcccccgagcctcgggccggt																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:140173182delC	uc004cmn.2	+	2	158	c.41delC	c.(40-42)GCCfs	p.A14fs	C9orf167_uc011mew.1_5'Flank	NM_017723	NP_060193	Q9NXH8	CI167_HUMAN	hypothetical protein LOC54863	14					chaperone mediated protein folding requiring cofactor	integral to membrane	ATP binding|nucleoside-triphosphatase activity			pancreas(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.137)	OV - Ovarian serous cystadenocarcinoma(145;9.07e-05)|Epithelial(140;0.000728)		GCTGCCGCGGCCCCCCGAGCC	0.751													3	3	---	---	---	---						.	-	140173182	-	-	140173182	7	5	140	1	0	1	0	1	0	0	0	0	2471	739	26	0	43	0	C9orf167	9	140173182	Frame_Shift_Del	DEL	C	TCGA-CG-4465-01A-01D-1158-08	11658	140173182	1040249	338	75328											
WDR85	92715	broad.mit.edu	37	chr9	140449886	140449886	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccactctggggtctggcatgGccctccccatcgttatcctc	4	11	9	17	1	2	0	0	0	2	0	6	0	4	0	5	4	0	2	5	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:140449886G>A	uc004cnk.1	-	9	1322	c.1164C>T	c.(1162-1164)GGC>GGT	p.G388G	WDR85_uc004cnj.1_Silent_p.G117G|WDR85_uc004cnl.1_Silent_p.G212G|WDR85_uc004cnm.1_Silent_p.G149G|WDR85_uc004cnn.1_Silent_p.G117G|WDR85_uc004cni.2_RNA	NM_138778	NP_620133	Q9BTV6	WDR85_HUMAN	WD repeat domain 85	388					peptidyl-diphthamide biosynthetic process from peptidyl-histidine						0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.00029)|Epithelial(140;0.000509)		GTCTGGCATGGCCCTCCCCAT	0.577													37	47					0	0	0.006999	0	0		A	140449886	A	A	140449886	2	1	140	1	0	0	0	0	0	0	0	1	17359	1190	42	2		2	WDR85	9	140449886	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	276704	140449886	763545	339	75329											
CACNA1B	774	broad.mit.edu	37	chr9	140772606	140772606	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcttcaccgtcaaccgctCgctcttcgtcttcagcgagg	5	11	9	16	5	5	0	3	0	2	0	7	1	5	0	2	1	3	3	2	1	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr9:140772606C>T	uc004cog.2	+	1	366	c.221C>T	c.(220-222)TCG>TTG	p.S74L	uc004cof.1_Intron	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	74	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	GTCAACCGCTCGCTCTTCGTC	0.517													4	18					0	0	0.014758	0	0		T	140772606	T	T	140772606	3	4	140	1	0	0	0	0	1	0	0	0	2542	893	31	1	223	1	CACNA1B	9	140772606	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	322720	140772606	440825	340	75330											
ANKRD16	54522	broad.mit.edu	37	chr10	5920141	5920141	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggacatctgctctcctTgggagctgctgagccagggt	7	10	14	10	0	2	2	0	2	2	0	3	4	2	4	2	3	4	3	2	3	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:5920141T>C	uc010qat.1	-	7	1581	c.1038A>G	c.(1036-1038)CCA>CCG	p.P346P	ANKRD16_uc009xie.2_Intron|ANKRD16_uc009xif.2_Silent_p.P346P|ANKRD16_uc001iiq.2_3'UTR	NM_019046	NP_061919	Q6P6B7	ANR16_HUMAN	ankyrin repeat domain 16 isoform a	346											0						CTGCTCTCCTTGGGAGCTGCT	0.532													112	220					0	0	0.01441	0	0		C	5920141	C	C	5920141	2	2	140	1	0	0	0	0	0	0	0	1	645	1799	63	3		3	ANKRD16	10	5920141	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08		5920141	129614606	341	75331											
OPTN	10133	broad.mit.edu	37	chr10	13169777	13169777	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagggcagtgctgaaggaActgagtgaaaaactggaact	15	6	14	6	0	0	3	0	3	0	0	0	6	0	5	0	3	4	2	0	3	5	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:13169777A>G	uc001ilu.1	+	13	1713	c.1275A>G	c.(1273-1275)GAA>GAG	p.E425E	OPTN_uc001ilv.1_Silent_p.E425E|OPTN_uc001ilw.1_Silent_p.E425E|OPTN_uc001ilx.1_Silent_p.E425E|OPTN_uc001ily.1_Silent_p.E419E|OPTN_uc010qbr.1_Silent_p.E368E|OPTN_uc001ilz.1_Silent_p.E419E	NM_001008213	NP_001008214	Q96CV9	OPTN_HUMAN	optineurin	425	Potential.|Interaction with MYO6.|Interaction with HD.				cell death|Golgi ribbon formation|Golgi to plasma membrane protein transport|protein targeting to Golgi|signal transduction	perinuclear region of cytoplasm|trans-Golgi network	protein C-terminus binding			ovary(2)	2						TGCTGAAGGAACTGAGTGAAA	0.403													14	101					0	0	0.004007	0	0		G	13169777	G	G	13169777	2	3	140	1	0	0	0	0	0	0	0	1	10908	40	2	3		3	OPTN	10	13169777	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	7249636	13169777	122364970	342	75332											
VIM	7431	broad.mit.edu	37	chr10	17271880	17271880	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggggacctctacgaggaggaGatgcgggagctgcgccggca	8	4	19	10	4	1	1	0	0	1	1	1	6	1	4	2	6	4	2	2	6	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:17271880G>A	uc001iou.2	+	2	872	c.459G>A	c.(457-459)GAG>GAA	p.E153E	uc001iot.1_RNA|VIM_uc001iov.1_Silent_p.E153E|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Silent_p.E153E|VIM_uc001ioy.1_Silent_p.E153E|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Silent_p.E153E|VIM_uc001ipc.1_Silent_p.E153E	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	153	Rod.|Linker 1.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						ACGAGGAGGAGATGCGGGAGC	0.657													5	5					0	0	0.00308	0	0		A	17271880	A	A	17271880	2	1	140	1	0	0	0	0	0	0	0	1	17192	933	33	4		4	VIM	10	17271880	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	4102103	17271880	118262867	343	75333											
MLLT10	8028	broad.mit.edu	37	chr10	22022455	22022455	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctactactgattccttgaaCagcagtaagagccctcatat	12	11	6	12	0	1	3	1	2	0	1	2	3	2	3	3	0	5	2	3	0	5	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:22022455C>T	uc001iqs.2	+	20	2826	c.2478C>T	c.(2476-2478)AAC>AAT	p.N826N	MLLT10_uc001iqt.2_Silent_p.N810N|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Silent_p.N810N|MLLT10_uc001ira.2_Silent_p.N267N|MLLT10_uc001irb.2_RNA	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	826					positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						ATTCCTTGAACAGCAGTAAGA	0.294			T	MLL|PICALM|CDK6	AL								5	10					0	0	0.001168	0	0		T	22022455	T	T	22022455	2	4	140	1	0	0	0	0	0	0	0	1	9644	477	17	4		4	MLLT10	10	22022455	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4750575	22022455	113512292	344	75334											
PTCHD3	374308	broad.mit.edu	37	chr10	27702585	27702585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggtgctcctcctggaggCggagaagcggtaggagtcgt	6	9	17	9	4	0	1	0	0	0	1	4	4	2	3	2	6	2	2	2	6	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:27702585C>T	uc001itu.2	-	1	713	c.595G>A	c.(595-597)GCC>ACC	p.A199T		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	199					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CTCCTGGAGGCGGAGAAGCGG	0.602													9	102					0	0	0.013537	0	0		T	27702585	T	T	27702585	3	4	140	1	0	0	0	0	1	0	0	0	12756	768	27	1	1724	1	PTCHD3	10	27702585	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5680130	27702585	107832162	345	75335											
SVIL	6840	broad.mit.edu	37	chr10	29777649	29777649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctttactggctaaacccGccagggtgacttctgagaag	9	12	10	10	1	2	2	0	2	2	1	2	3	2	2	2	2	2	1	2	2	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:29777649G>A	uc001iut.1	-	23	4982	c.4229C>T	c.(4228-4230)GCG>GTG	p.A1410V	SVIL_uc010qdw.1_Missense_Mutation_p.A324V|SVIL_uc001iuu.1_Missense_Mutation_p.A984V|SVIL_uc009xlc.2_Missense_Mutation_p.A202V	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1410					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				GGCTAAACCCGCCAGGGTGAC	0.502													5	12					0	0	0.001168	0	0		A	29777649	A	A	29777649	3	1	140	1	0	0	0	0	1	0	0	0	15446	1087	38	1	2479	1	SVIL	10	29777649	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2075064	29777649	105757098	346	75336											
SVIL	6840	broad.mit.edu	37	chr10	29821472	29821472	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctacagttcaggtctcctGcaggcgttggcagatgccag	8	9	12	12	1	2	1	1	0	1	1	3	1	2	1	3	3	3	4	3	3	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:29821472G>A	uc001iut.1	-	8	2577	c.1824C>T	c.(1822-1824)TGC>TGT	p.C608C	SVIL_uc001iuu.1_Intron|SVIL_uc009xld.1_Silent_p.C608C	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	608					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				CAGGTCTCCTGCAGGCGTTGG	0.567													8	32					0	0	0.00308	0	0		A	29821472	A	A	29821472	2	1	140	1	0	0	0	0	0	0	0	1	15446	1311	46	2		2	SVIL	10	29821472	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	43823	29821472	105713275	347	75337											
SVIL	6840	broad.mit.edu	37	chr10	29840037	29840037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttctgctttgtaccttgCaattctttcggctttggact	4	20	7	10	1	3	0	0	0	3	0	4	1	3	1	1	2	3	4	1	2	2	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:29840037C>T	uc001iut.1	-	6	1069	c.316G>A	c.(316-318)GCA>ACA	p.A106T	SVIL_uc001iuu.1_Missense_Mutation_p.A106T|SVIL_uc009xld.1_Missense_Mutation_p.A106T	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	106	Interaction with MYLK (By similarity).				cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TTGTACCTTGCAATTCTTTCG	0.527													63	138					0	0	0.01441	0	0		T	29840037	T	T	29840037	3	4	140	1	0	0	0	0	1	0	0	0	15446	710	25	2	6460	2	SVIL	10	29840037	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	18565	29840037	105694710	348	75338											
MTPAP	55149	broad.mit.edu	37	chr10	30630507	30630507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tattaaaacagtccgctgtgCctgttctcgtctttcatttt	7	18	6	10	2	3	0	1	0	2	0	5	0	4	0	2	0	2	2	2	0	3	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:30630507C>T	uc001iva.3	-	2	283	c.220G>A	c.(220-222)GCA>ACA	p.A74T	MTPAP_uc001ivb.3_Missense_Mutation_p.A204T|MTPAP_uc001ivc.2_Missense_Mutation_p.A74T	NM_018109	NP_060579	Q9NVV4	PAPD1_HUMAN	PAP associated domain containing 1 precursor	74					cell death|histone mRNA catabolic process|mRNA polyadenylation|transcription, DNA-dependent	mitochondrion	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|protein homodimerization activity|RNA binding|UTP binding			ovary(1)	1						GTCCGCTGTGCCTGTTCTCGT	0.368													23	72					0	0	0.01892	0	0		T	30630507	T	T	30630507	3	4	140	1	0	0	0	0	1	0	0	0	9974	739	26	2	1560	2	MTPAP	10	30630507	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	790470	30630507	104904240	349	75339											
ZEB1	6935	broad.mit.edu	37	chr10	31791274	31791274	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaagtatgcattttttttAgtaaaagatgatgaatgcga	16	15	8	2	1	0	3	0	2	0	1	0	4	0	3	0	0	2	3	0	0	7	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:31791274A>G	uc001ivs.3	+	4	383	c.320_splice	c.e4-2	p.V107_splice	ZEB1_uc001ivr.3_Splice_Site|ZEB1_uc010qee.1_Splice_Site|ZEB1_uc010qef.1_Splice_Site|ZEB1_uc009xlh.1_Splice_Site|ZEB1_uc009xli.1_Splice_Site|ZEB1_uc009xlj.1_Intron|ZEB1_uc010qeg.1_Intron|ZEB1_uc009xlk.1_Splice_Site|ZEB1_uc001ivt.3_Splice_Site|ZEB1_uc001ivu.3_Splice_Site_p.V108_splice|ZEB1_uc001ivv.3_Splice_Site_p.I87_splice|ZEB1_uc010qeh.1_Splice_Site_p.V40_splice|ZEB1_uc009xll.2_Splice_Site|ZEB1_uc009xlm.1_Splice_Site|ZEB1_uc009xln.1_Splice_Site|ZEB1_uc009xlo.1_Splice_Site_p.V90_splice|ZEB1_uc009xlp.2_Splice_Site_p.V91_splice	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b						cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				CATTTTTTTTAGTAAAAGATG	0.308													14	40					0	0	0.016723	0	0		G	31791274	G	G	31791274	5	3	140	1	0	0	0	0	0	0	1	0	17648	434	15	3	346	3	ZEB1	10	31791274	Splice_Site	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1160767	31791274	103743473	350	75340											
ITGB1	3688	broad.mit.edu	37	chr10	33214797	33214797	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gataggaaatgaatgcgcttActccacaaactgcaacttgc	14	9	8	10	1	0	1	0	1	0	0	1	3	1	2	1	1	6	2	1	1	6	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:33214797A>G	uc001iws.3	-	6	922	c.786_splice	c.e6+1	p.G262_splice	ITGB1_uc001iwp.3_Splice_Site_p.G262_splice|ITGB1_uc001iwq.3_Splice_Site_p.G262_splice|ITGB1_uc001iwr.3_Splice_Site_p.G262_splice|ITGB1_uc001iwt.3_Splice_Site_p.G262_splice|ITGB1_uc001iwu.1_Splice_Site_p.G262_splice	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor						axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				GAATGCGCTTACTCCACAAAC	0.343													60	103					0	0	0.01441	0	0		G	33214797	G	G	33214797	5	3	140	1	0	0	0	0	0	0	1	0	7906	405	14	3	1890	3	ITGB1	10	33214797	Splice_Site	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1423523	33214797	102319950	351	75341											
ANK3	288	broad.mit.edu	37	chr10	61868606	61868606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accctaaaaattgtgcccctGcaggacccatttctaccagc	11	9	6	15	0	1	0	0	0	1	0	1	1	1	1	5	1	4	1	5	1	4	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:61868606G>A	uc001jky.2	-	27	3347	c.3155C>T	c.(3154-3156)GCA>GTA	p.A1052V	ANK3_uc001jkw.2_Missense_Mutation_p.A186V|ANK3_uc009xpa.2_Missense_Mutation_p.A186V|ANK3_uc001jkx.2_Missense_Mutation_p.A230V|ANK3_uc010qih.1_Missense_Mutation_p.A1053V|ANK3_uc001jkz.3_Missense_Mutation_p.A1046V|ANK3_uc001jla.1_Missense_Mutation_p.A118V|ANK3_uc001jlb.1_Missense_Mutation_p.A570V	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1052	ZU5.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTGTGCCCCTGCAGGACCCAT	0.458													20	55					0	0	0.012319	0	0		A	61868606	A	A	61868606	3	1	140	1	0	0	0	0	1	0	0	0	622	1319	46	2	10359	2	ANK3	10	61868606	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	28653809	61868606	73666141	352	75342											
JMJD1C	221037	broad.mit.edu	37	chr10	64954095	64954095	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtttgtgatcatgaggCtgtcccttcacacacttcat	10	14	7	10	0	3	2	3	2	0	0	4	2	4	2	1	1	0	2	1	1	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:64954095C>T	uc001jmn.2	-	14	5985	c.5685G>A	c.(5683-5685)CAG>CAA	p.Q1895Q	JMJD1C_uc001jml.2_Silent_p.Q1676Q|JMJD1C_uc001jmm.2_Silent_p.Q1607Q|JMJD1C_uc010qiq.1_Silent_p.Q1713Q|JMJD1C_uc009xpi.2_Silent_p.Q1713Q|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Silent_p.Q793Q	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1895					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					GATCATGAGGCTGTCCCTTCA	0.333													5	166					0	0	0.001168	0	0		T	64954095	T	T	64954095	2	4	140	1	0	0	0	0	0	0	0	1	7966	796	28	2		2	JMJD1C	10	64954095	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3085489	64954095	70580652	353	75343											
NODAL	4838	broad.mit.edu	37	chr10	72195099	72195099	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaggattaggacactcGccctcacagcgataggcgtt	11	7	10	13	3	1	0	1	0	0	0	2	3	1	2	2	3	2	1	2	3	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:72195099G>A	uc001jrc.2	-	2	876	c.834C>T	c.(832-834)GGC>GGT	p.G278G		NM_018055	NP_060525	Q96S42	NODAL_HUMAN	nodal precursor	278					growth	extracellular space	cytokine activity|growth factor activity			large_intestine(1)|kidney(1)	2						TAGGACACTCGCCCTCACAGC	0.572													10	18					0	0	0.008291	0	0		A	72195099	A	A	72195099	2	1	140	1	0	0	0	0	0	0	0	1	10537	1074	38	1		1	NODAL	10	72195099	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	7241004	72195099	63339648	354	75344											
PRF1	5551	broad.mit.edu	37	chr10	72358611	72358611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtttggtggaaggaggccGtcatcttgtgcttcttcttc	5	15	13	8	1	4	0	1	0	3	0	5	2	4	2	1	5	1	2	1	5	1	5	rs150628656	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:72358611G>A	uc009xqg.2	-	3	1027	c.866C>T	c.(865-867)ACG>ATG	p.T289M	PRF1_uc001jrf.3_Missense_Mutation_p.T289M	NM_001083116	NP_001076585	P14222	PERF_HUMAN	perforin 1 precursor	289	MACPF.				apoptosis|cellular defense response|cytolysis|defense response to tumor cell|defense response to virus|immune response to tumor cell|protein homooligomerization	cytolytic granule|endosome lumen|extracellular region|integral to membrane|plasma membrane	calcium ion binding|protein binding|wide pore channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						GAAGGAGGCCGTCATCTTGTG	0.607			M			various leukaemia|lymphoma	Type 2 familial hemophagocytic lymphohistiocytosis		Familial_Hemophagocytic_Lymphohistiocytosis				36	88					0	0	0.021022	0	0		A	72358611	A	A	72358611	3	1	140	1	0	0	0	0	1	0	0	0	12500	1145	40	1	805	1	PRF1	10	72358611	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	163512	72358611	63176136	355	75345											
UNC5B	219699	broad.mit.edu	37	chr10	73046593	73046593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaagaacatcgtggccaaaCgccggagcaccactgccacc	12	3	9	17	3	0	1	0	0	0	1	1	2	0	2	6	2	4	1	6	2	3	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:73046593C>T	uc001jro.2	+	5	1145	c.700C>T	c.(700-702)CGC>TGC	p.R234C	UNC5B_uc001jrp.2_Missense_Mutation_p.R234C	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	234	Ig-like C2-type.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						CGTGGCCAAACGCCGGAGCAC	0.637													71	182					0	0	0.01441	0	0		T	73046593	T	T	73046593	3	4	140	1	0	0	0	0	1	0	0	0	17018	536	19	1	718	1	UNC5B	10	73046593	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	687982	73046593	62488154	356	75346											
SYNPO2L	79933	broad.mit.edu	37	chr10	75406786	75406786	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagttttgggggaccctgagGcgatagggccaggagtcggg	7	7	19	8	2	0	1	0	1	0	0	1	4	0	3	2	6	0	1	2	6	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:75406786G>T	uc001jut.3	-	4	2776	c.2624C>A	c.(2623-2625)GCC>GAC	p.A875D	SYNPO2L_uc001jus.3_Missense_Mutation_p.A651D	NM_001114133	NP_001107605	Q9H987	SYP2L_HUMAN	synaptopodin 2-like isoform a	875	Pro-rich.					cytoplasm|cytoskeleton	actin binding			ovary(1)	1	Prostate(51;0.0112)					GGACCCTGAGGCGATAGGGCC	0.577													21	231					9.57634e-11	1.04864e-10	0.01892	1	0		T	75406786	T	T	75406786	3	4	140	1	0	0	0	0	1	0	0	0	15483	1203	42	5	313	5	SYNPO2L	10	75406786	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2360193	75406786	60127961	357	75347											
DLG5	9231	broad.mit.edu	37	chr10	79554615	79554615	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagttacctacttgatgtgCttggcgctcttgtagtggat	6	15	11	9	1	1	1	0	1	1	0	1	2	1	2	2	2	3	4	2	2	3	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:79554615C>A	uc001jzk.2	-	30	5608	c.5538G>T	c.(5536-5538)AAG>AAT	p.K1846N	DLG5_uc001jzi.2_Missense_Mutation_p.K601N|DLG5_uc001jzj.2_Missense_Mutation_p.K1261N	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1846	Guanylate kinase-like.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			ACTTGATGTGCTTGGCGCTCT	0.607													9	52					2.17888e-05	2.26392e-05	0.006214	1	0		A	79554615	A	A	79554615	3	1	140	1	0	0	0	0	1	0	0	0	4564	796	28	5	233	5	DLG5	10	79554615	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4147829	79554615	55980132	358	75348											
LRIT2	340745	broad.mit.edu	37	chr10	85981859	85981859	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggacccacttgctgcagctGcaggggccctgggctgccca	6	6	14	15	0	0	0	0	0	0	0	0	1	0	1	3	4	5	5	3	4	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:85981859G>A	uc001kcy.2	-	3	1478	c.1470C>T	c.(1468-1470)TGC>TGT	p.C490C	LRIT2_uc010qmc.1_Silent_p.C500C	NM_001017924	NP_001017924	A6NDA9	LRIT2_HUMAN	leucine rich repeat containing 22 precursor	490						integral to membrane				ovary(2)	2						TGCTGCAGCTGCAGGGGCCCT	0.642													28	67					0	0	0.021022	0	0		A	85981859	A	A	85981859	2	1	140	1	0	0	0	0	0	0	0	1	8966	1311	46	2		2	LRIT2	10	85981859	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	6427244	85981859	49552888	359	75349											
GRID1	2894	broad.mit.edu	37	chr10	87482810	87482810	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaggcagcaaggttggcTgtgtaggaggagcacacaat	13	6	16	6	0	0	0	0	0	0	0	0	3	0	3	0	6	2	6	0	6	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:87482810T>C	uc001kdl.1	-	12	2048	c.1947A>G	c.(1945-1947)ACA>ACG	p.T649T	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Silent_p.T220T	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	649	Helical; (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CAAGGTTGGCTGTGTAGGAGG	0.562										Multiple Myeloma(13;0.14)			8	21					0	0	0.00308	0	0		C	87482810	C	C	87482810	2	2	140	1	0	0	0	0	0	0	0	1	6787	1567	55	3		3	GRID1	10	87482810	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	1500951	87482810	48051937	360	75350											
BTAF1	9044	broad.mit.edu	37	chr10	93784638	93784638	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgatatagtagagcatgaTctcctcaaacctcacttgcc	11	12	6	12	0	3	3	2	2	1	1	4	3	3	3	3	0	3	2	3	0	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:93784638T>C	uc001khr.2	+	35	5087	c.4989T>C	c.(4987-4989)GAT>GAC	p.D1663D		NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	1663	Helicase C-terminal.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				TAGAGCATGATCTCCTCAAAC	0.478													62	123					0	0	0.01441	0	0		C	93784638	C	C	93784638	2	2	140	1	0	0	0	0	0	0	0	1	1539	1432	50	3		3	BTAF1	10	93784638	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	6301828	93784638	41750109	361	75351											
MYOF	26509	broad.mit.edu	37	chr10	95095752	95095752	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacttgaacgtatctgagaAgtctgtcaggccctcaaatt	12	11	8	10	1	4	2	2	2	2	1	4	3	4	2	1	1	2	1	1	1	5	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:95095752A>G	uc001kin.2	-	41	4612	c.4489T>C	c.(4489-4491)TTC>CTC	p.F1497L	MYOF_uc001kio.2_Missense_Mutation_p.F1484L|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1497	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						GTATCTGAGAAGTCTGTCAGG	0.403													71	130					0	0	0.01441	0	0		G	95095752	G	G	95095752	3	3	140	1	0	0	0	0	1	0	0	0	10107	72	3	3	1752	3	MYOF	10	95095752	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1311114	95095752	40438995	362	75352											
MORN4	118812	broad.mit.edu	37	chr10	99377076	99377076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgaccaaaaccatgcctgCggcctgaacaaagagaagga	15	5	11	10	1	0	3	0	2	0	1	0	5	0	4	4	2	4	1	4	2	5	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:99377076C>T	uc001kob.3	-	3	342	c.71G>A	c.(70-72)CGC>CAC	p.R24H	PI4K2A_uc010qoy.1_Intron|MORN4_uc001koc.3_Missense_Mutation_p.R82H|MORN4_uc001kod.3_Silent_p.P114P|MORN4_uc001koe.2_Missense_Mutation_p.R24H|uc001kof.1_5'Flank	NM_178832	NP_849154	Q8NDC4	MORN4_HUMAN	MORN repeat containing 4	24	MORN 1.										0						ACCATGCCTGCGGCCTGAACA	0.502													45	68					0	0	0.010771	0	0		T	99377076	T	T	99377076	3	4	140	1	0	0	0	0	1	0	0	0	9728	768	27	1	381	1	MORN4	10	99377076	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4281324	99377076	36157671	363	75353											
CNNM1	26507	broad.mit.edu	37	chr10	101089442	101089442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcgggggagaatggcaccGgcgactgggctccgcggctc	6	5	17	13	5	0	1	0	0	0	1	3	3	1	1	2	6	0	3	2	6	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:101089442G>A	uc001kpp.3	+	1	587	c.298G>A	c.(298-300)GGC>AGC	p.G100S	CNNM1_uc009xwe.2_Missense_Mutation_p.G100S|CNNM1_uc010qpi.1_Missense_Mutation_p.G100S|CNNM1_uc009xwf.2_Missense_Mutation_p.G100S	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	100					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		GAATGGCACCGGCGACTGGGC	0.741													3	5					0	0	0.009096	0	0		A	101089442	A	A	101089442	3	1	140	1	0	0	0	0	1	0	0	0	3615	1116	39	1	300	1	CNNM1	10	101089442	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1712366	101089442	34445305	364	75354											
GSTO2	119391	broad.mit.edu	37	chr10	106059034	106059034	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaatgcctttgactttgggCtgtgctgagtctcactgtcc	5	15	10	11	0	1	2	1	2	1	0	3	2	2	2	2	1	2	2	2	1	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:106059034C>T	uc001kyb.2	+	7	1352	c.724C>T	c.(724-726)CTG>TTG	p.L242L	GSTO2_uc010qqx.1_Silent_p.L208L|GSTO2_uc001kyc.2_Silent_p.L214L|GSTO2_uc010qqy.1_3'UTR|uc001kyd.1_5'Flank	NM_183239	NP_899062	Q9H4Y5	GSTO2_HUMAN	glutathione S-transferase omega 2	242					water-soluble vitamin metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.178)		Epithelial(162;1.14e-09)|all cancers(201;3.89e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0155)	Glutathione(DB00143)	TGACTTTGGGCTGTGCTGAGT	0.502													16	142					0	0	0.007413	0	0		T	106059034	T	T	106059034	2	4	140	1	0	0	0	0	0	0	0	1	6859	796	28	2		2	GSTO2	10	106059034	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4969592	106059034	29475713	365	75355											
ATRNL1	26033	broad.mit.edu	37	chr10	117075095	117075095	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggatgtggctggtgcaaTgatcctagtaatacaggaag	11	10	13	7	0	0	1	0	1	0	0	1	3	1	3	2	4	2	3	2	4	5	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:117075095T>C	uc001lcg.2	+	18	3272	c.2886T>C	c.(2884-2886)AAT>AAC	p.N962N	ATRNL1_uc010qsm.1_Silent_p.N137N|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	962	PSI 5.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		GCTGGTGCAATGATCCTAGTA	0.448													22	53					0	0	0.016522	0	0		C	117075095	C	C	117075095	2	2	140	1	0	0	0	0	0	0	0	1	1208	1461	51	3		3	ATRNL1	10	117075095	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	11016061	117075095	18459652	366	75356											
FGFR2	2263	broad.mit.edu	37	chr10	123244911	123244911	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagacaacagcccttacagTtcgttggtgcagttggctgg	10	10	12	9	1	0	1	0	0	0	1	1	1	0	1	1	3	4	5	1	3	3	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:123244911T>C	uc010qtk.1	-	17	2840	c.2193A>G	c.(2191-2193)GAA>GAG	p.E731E	FGFR2_uc010qtg.1_Silent_p.E619E|FGFR2_uc010qth.1_Silent_p.E616E|FGFR2_uc010qti.1_Silent_p.E642E|FGFR2_uc010qtj.1_Silent_p.E732E|FGFR2_uc010qtl.1_Silent_p.E615E|FGFR2_uc010qtm.1_Silent_p.E614E|FGFR2_uc001lfl.3_Silent_p.E732E|FGFR2_uc001lfm.2_Silent_p.E643E|FGFR2_uc001lfg.3_Silent_p.E339E|FGFR2_uc001lfk.1_5'Flank	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	731	Cytoplasmic (Potential).|Protein kinase.				angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of mesenchymal cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding			endometrium(44)|skin(28)|lung(11)|ovary(4)|cervix(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|soft_tissue(1)|central_nervous_system(1)	96		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Palifermin(DB00039)	GCCCTTACAGTTCGTTGGTGC	0.532		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				104	207					0	0	0.01441	0	0		C	123244911	C	C	123244911	2	2	140	1	0	0	0	0	0	0	0	1	5880	1722	60	3		3	FGFR2	10	123244911	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	6169816	123244911	12289836	367	75357											
TACC2	10579	broad.mit.edu	37	chr10	123847368	123847368	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagggcctgagcgccccAttccagctggggatgggaag	8	5	16	12	1	0	1	0	1	0	0	1	3	1	3	5	4	3	1	5	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:123847368A>G	uc001lfv.2	+	4	5713	c.5353A>G	c.(5353-5355)ATT>GTT	p.I1785V	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.I1785V|TACC2_uc010qtv.1_Missense_Mutation_p.I1785V	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1785						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				TGAGCGCCCCATTCCAGCTGG	0.632													5	66					0	0	0.001168	0	0		G	123847368	G	G	123847368	3	3	140	1	0	0	0	0	1	0	0	0	15527	217	8	3	5363	3	TACC2	10	123847368	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	602457	123847368	11687379	368	75358											
DMBT1	1755	broad.mit.edu	37	chr10	124337331	124337331	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tatttttttctcacagctgcCcagcctcagtcaacactcag	9	13	5	14	0	4	0	4	0	1	0	5	0	4	0	2	0	4	1	2	0	2	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:124337331C>A	uc001lgk.1	+	8	718	c.612C>A	c.(610-612)GCC>GCA	p.A204A	DMBT1_uc001lgl.1_Silent_p.A204A|DMBT1_uc001lgm.1_Silent_p.A204A|DMBT1_uc009xzz.1_Silent_p.A204A|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yaa.1_Silent_p.A56A	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	204					epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TCACAGCTGCCCAGCCTCAGT	0.512													32	74					7.11191e-15	7.92264e-15	0.013726	1	0		A	124337331	A	A	124337331	2	1	140	1	0	0	0	0	0	0	0	1	4583	610	22	5		5	DMBT1	10	124337331	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	489963	124337331	11197416	369	75359											
CPXM2	119587	broad.mit.edu	37	chr10	125601941	125601941	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcatccacttcaatccactGctggaggtcatttcttcccg	8	12	7	14	1	3	0	2	0	1	0	6	1	6	1	3	2	2	2	3	2	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:125601941G>A	uc001lhk.1	-	4	902	c.577C>T	c.(577-579)CAG>TAG	p.Q193*	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	193	F5/8 type C.				cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		TCAATCCACTGCTGGAGGTCA	0.493													18	53					0	0	0.014323	0	0		A	125601941	A	A	125601941	4	1	140	1	0	0	0	0	0	1	0	0	3841	1328	46	2	1737	2	CPXM2	10	125601941	Nonsense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1264610	125601941	9932806	370	75360											
DOCK1	1793	broad.mit.edu	37	chr10	128926004	128926004	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaccgaaccgtcatttcCatgggacgagattctgaact	11	10	10	10	3	2	3	1	2	1	1	3	6	3	4	3	1	3	0	3	1	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:128926004C>A	uc001ljt.2	+	27	2824	c.2760C>A	c.(2758-2760)TCC>TCA	p.S920S	DOCK1_uc010qun.1_Silent_p.S941S	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	920					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		CCGTCATTTCCATGGGACGAG	0.483													20	26					1.55469e-16	1.75215e-16	0.01892	1	0		A	128926004	A	A	128926004	2	1	140	1	0	0	0	0	0	0	0	1	4690	581	21	5		5	DOCK1	10	128926004	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3324063	128926004	6608743	371	75361											
FAM196A	642938	broad.mit.edu	37	chr10	128974096	128974096	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctgtgcagttgaccccCaaaggctggtccactgtgtt	6	11	12	12	0	1	1	0	1	1	0	2	1	2	1	3	3	1	5	3	3	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:128974096C>A	uc001lju.1	-	1	605	c.564G>T	c.(562-564)TTG>TTT	p.L188F	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.L188F|FAM196A_uc001ljv.1_Missense_Mutation_p.L188F|FAM196A_uc009yap.1_Missense_Mutation_p.L188F	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	188										ovary(2)	2						AGTTGACCCCCAAAGGCTGGT	0.602													41	61					2.24893e-16	2.53087e-16	0.009718	1	0		A	128974096	A	A	128974096	3	1	140	1	0	0	0	0	1	0	0	0	5539	593	21	5	887	5	FAM196A	10	128974096	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	48092	128974096	6560651	372	75362											
PWWP2B	170394	broad.mit.edu	37	chr10	134218991	134218991	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggccggcgcggacctgccGccccctaagatccgcctgaa	6	4	12	19	6	0	2	0	1	0	1	1	3	1	3	8	3	1	0	8	3	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:134218991G>A	uc001lll.3	+	2	1016	c.987G>A	c.(985-987)CCG>CCA	p.P329P	PWWP2B_uc009ybe.2_Silent_p.P329P	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	329											0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		CGGACCTGCCGCCCCCTAAGA	0.716													11	18					0	0	0.004007	0	0		A	134218991	A	A	134218991	2	1	140	1	0	0	0	0	0	0	0	1	12871	1074	38	1		1	PWWP2B	10	134218991	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	5244895	134218991	1315756	373	75363											
KNDC1	85442	broad.mit.edu	37	chr10	135020777	135020777	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcttctacaacgtcaacaAgcacccgggcggccggcaga	11	5	10	15	4	3	1	1	0	2	1	3	1	3	1	2	3	4	2	2	3	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:135020777A>C	uc001llz.1	+	20	3717	c.3716A>C	c.(3715-3717)AAG>ACG	p.K1239T		NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1239					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		AACGTCAACAAGCACCCGGGC	0.652													28	42					0	0	0.010818	0	0		C	135020777	C	C	135020777	3	2	140	1	0	0	0	0	1	0	0	0	8442	72	3	5	3794	5	KNDC1	10	135020777	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	801786	135020777	513970	374	75364											
TUBGCP2	10844	broad.mit.edu	37	chr10	135102440	135102440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatctgctccacatacgccCgctcttttaacgtgtagatg	8	12	8	13	4	2	1	0	0	2	1	3	2	3	1	2	0	3	3	2	0	3	4	rs148597749	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr10:135102440C>T	uc001lmg.1	-	10	1802	c.1445G>A	c.(1444-1446)CGG>CAG	p.R482Q	TUBGCP2_uc001lmf.1_Missense_Mutation_p.R75Q|TUBGCP2_uc010qvc.1_Missense_Mutation_p.R510Q|TUBGCP2_uc009ybk.1_Missense_Mutation_p.R482Q|TUBGCP2_uc010qvd.1_Missense_Mutation_p.R352Q|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	482					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		CACATACGCCCGCTCTTTTAA	0.507													8	94					0	0	0.004482	0	0		T	135102440	T	T	135102440	3	4	140	1	0	0	0	0	1	0	0	0	16792	652	23	1	1299	1	TUBGCP2	10	135102440	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	81663	135102440	432307	375	75365											
MRGPRE	116534	broad.mit.edu	37	chr11	3249927	3249927	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagcagcccaccgaggcCgagcccctcggtgagggaca	8	2	13	18	3	0	1	0	1	0	0	1	4	0	2	7	3	3	1	7	3	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:3249927C>T	uc001lxq.3	-	2	410	c.100G>A	c.(100-102)GGC>AGC	p.G34S		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	34	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		Medulloblastoma(188;0.00106)|all_epithelial(84;0.00111)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00529)|LUSC - Lung squamous cell carcinoma(625;0.19)		CCACCGAGGCCGAGCCCCTCG	0.652													44	71					0	0	0.01441	0	0		T	3249927	T	T	3249927	3	4	140	1	0	0	0	0	1	0	0	0	9782	652	23	1	839	1	MRGPRE	11	3249927	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08		3249927	131756589	376	75366											
OR52B4	143496	broad.mit.edu	37	chr11	4389524	4389524	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtggtttacagtaggcAtagctggggagaactttcag	10	11	13	7	0	1	1	1	0	0	1	1	2	1	1	0	4	3	4	0	4	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:4389524A>G	uc010qye.1	-	1	2	c.2T>C	c.(1-3)ATG>ACG	p.M1T		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0249)|all_neural(188;0.0577)		Epithelial(150;1.57e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0826)|LUSC - Lung squamous cell carcinoma(625;0.19)		TACAGTAGGCATAGCTGGGGA	0.488													11	29					0	0	0.010729	0	0		G	4389524	G	G	4389524	3	3	140	1	0	0	0	0	1	0	0	0	11131	217	8	3	946	3	OR52B4	11	4389524	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1139597	4389524	130616992	377	75367											
HBB	3043	broad.mit.edu	37	chr11	5248013	5248013	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaagaacctctgggtccaagGgtagaccaccagcagcctaa	14	5	10	12	0	1	2	0	0	1	2	2	2	2	2	5	2	3	2	5	2	5	2	rs33948615		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:5248013G>C	uc001mae.1	-	2	159	c.109C>G	c.(109-111)CCT>GCT	p.P37A		NM_000518	NP_000509	P68871	HBB_HUMAN	beta globin	37			P -> T (in Linkoping/Finlandia; O(2) affinity up).|P -> R (in Sunnybrook).|P -> S (in North Chicago; O(2) affinity up).		blood coagulation|hydrogen peroxide catabolic process|nitric oxide transport|positive regulation of cell death|positive regulation of nitric oxide biosynthetic process|protein heterooligomerization|regulation of blood pressure|regulation of blood vessel size	haptoglobin-hemoglobin complex|hemoglobin complex	heme binding|hemoglobin binding|oxygen binding|oxygen transporter activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)	Iron Dextran(DB00893)	TGGGTCCAAGGGTAGACCACC	0.522									Sickle_Cell_Trait				32	55					0	0	0.013726	0	0		C	5248013	C	C	5248013	3	2	140	1	0	0	0	0	1	0	0	0	6994	1232	43	5	342	5	HBB	11	5248013	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	858489	5248013	129758503	378	75368											
ILK	3611	broad.mit.edu	37	chr11	6630183	6630183	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacattctggaaggggaccAcccgcactcggccccgtgag	9	5	12	15	3	1	1	0	1	1	0	2	3	1	3	4	4	0	1	4	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:6630183A>G	uc001mee.2	+	6	652	c.517A>G	c.(517-519)ACC>GCC	p.T173A	ILK_uc001mef.2_Missense_Mutation_p.T173A|ILK_uc010rap.1_Missense_Mutation_p.T39A|ILK_uc010raq.1_Silent_p.P140P|ILK_uc001meg.2_Missense_Mutation_p.T19A|ILK_uc001meh.2_Missense_Mutation_p.T173A|ILK_uc001mei.2_5'Flank	NM_001014794	NP_001014794	Q13418	ILK_HUMAN	integrin-linked kinase	173	ANK 5.				cell junction assembly|cell proliferation|cell-matrix adhesion|integrin-mediated signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent	cytosol|focal adhesion	ATP binding|protein serine/threonine kinase activity			central_nervous_system(1)	1		Breast(177;7.61e-05)|Medulloblastoma(188;0.00263)|all_neural(188;0.026)|all_lung(207;0.152)		Epithelial(150;5.49e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00012)|Lung(200;0.00942)|LUSC - Lung squamous cell carcinoma(625;0.0163)		GAAGGGGACCACCCGCACTCG	0.537													39	132					0	0	0.009718	0	0		G	6630183	G	G	6630183	3	3	140	1	0	0	0	0	1	0	0	0	7729	159	6	3	535	3	ILK	11	6630183	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1382170	6630183	128376333	379	75369											
OR10A4	283297	broad.mit.edu	37	chr11	6898607	6898607	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcattctccacctgttcCgcccacctcttggttgtctc	4	13	7	17	1	3	0	0	0	3	0	6	0	4	0	5	2	0	3	5	2	0	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:6898607C>T	uc010rat.1	+	1	729	c.729C>T	c.(727-729)TCC>TCT	p.S243S		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CCACCTGTTCCGCCCACCTCT	0.527													53	77					0	0	0.01441	0	0		T	6898607	T	T	6898607	2	4	140	1	0	0	0	0	0	0	0	1	10911	639	23	1		1	OR10A4	11	6898607	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	268424	6898607	128107909	380	75370											
DENND5A	23258	broad.mit.edu	37	chr11	9167317	9167317	+	Frame_Shift_Del	DEL	C	-	-																															ggttggcagtgaacatggagCcccccagcttcttgcttggt																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:9167317delC	uc001mhl.2	-	17	3158	c.2903delG	c.(2902-2904)GGCfs	p.G968fs	DENND5A_uc001mhk.2_Frame_Shift_Del_p.G311fs|DENND5A_uc010rbw.1_Frame_Shift_Del_p.G968fs|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	968	PLAT.									liver(1)	1						GAACATGGAGCCCCCCAGCTT	0.478													179	414	---	---	---	---						.	-	9167317	-	-	9167317	7	5	140	1	0	1	0	1	0	0	0	0	4442	739	26	0	988	0	DENND5A	11	9167317	Frame_Shift_Del	DEL	C	TCGA-CG-4465-01A-01D-1158-08	2268710	9167317	125839199	381	75371											
AMPD3	272	broad.mit.edu	37	chr11	10483178	10483178	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggacagcaaagatgccCtgtccctgttcactgtccca	11	8	9	13	0	1	2	1	0	0	2	3	3	3	3	3	1	2	2	3	1	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:10483178C>A	uc001mio.1	+	2	447	c.112C>A	c.(112-114)CTG>ATG	p.L38M	AMPD3_uc010rbz.1_Translation_Start_Site|AMPD3_uc001min.1_Missense_Mutation_p.L47M|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfx.1_Missense_Mutation_p.L38M|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.L45M|AMPD3_uc009yfy.2_Missense_Mutation_p.L38M	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	38					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		CAAAGATGCCCTGTCCCTGTT	0.562													33	51					9.04072e-19	1.02188e-18	0.015359	1	0		A	10483178	A	A	10483178	3	1	140	1	0	0	0	0	1	0	0	0	587	680	24	5	165	5	AMPD3	11	10483178	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1315861	10483178	124523338	382	75372											
LYVE1	10894	broad.mit.edu	37	chr11	10582327	10582327	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtgataatttctggaaTgcacgagttagtccaagtat	11	13	12	5	1	1	1	0	1	1	0	2	3	2	2	1	3	1	3	1	3	5	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:10582327T>C	uc001miv.2	-	4	704	c.418A>G	c.(418-420)ATT>GTT	p.I140V	uc001miu.2_Intron|LYVE1_uc010rca.1_Missense_Mutation_p.I36V	NM_006691	NP_006682	Q9Y5Y7	LYVE1_HUMAN	lymphatic vessel endothelial hyaluronan receptor	140	Extracellular (Potential).				anatomical structure morphogenesis|cell-matrix adhesion|cellular component movement|response to wounding|transport	integral to plasma membrane|membrane fraction				central_nervous_system(1)|skin(1)	2				all cancers(16;7.22e-08)|Epithelial(150;1.03e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0609)		ATTTCTGGAATGCACGAGTTA	0.303													101	248					0	0	0.01441	0	0		C	10582327	C	C	10582327	3	2	140	1	0	0	0	0	1	0	0	0	9147	1464	51	3	562	3	LYVE1	11	10582327	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	99149	10582327	124424189	383	75373											
ABCC8	6833	broad.mit.edu	37	chr11	17483306	17483306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgaagggctgcaggaagcGtacccccaggtcttgcaggt	9	6	14	12	2	1	0	0	0	1	0	1	2	1	1	2	4	4	4	2	4	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:17483306G>A	uc001mnc.2	-	5	772	c.646C>T	c.(646-648)CGC>TGC	p.R216C	ABCC8_uc010rcy.1_Missense_Mutation_p.R216C	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	216	Cytoplasmic (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	TGCAGGAAGCGTACCCCCAGG	0.577													42	83					0	0	0.01441	0	0		A	17483306	A	A	17483306	3	1	140	1	0	0	0	0	1	0	0	0	58	1145	40	1	4239	1	ABCC8	11	17483306	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	6900979	17483306	117523210	384	75374											
ELF5	2001	broad.mit.edu	37	chr11	34502322	34502322	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgctattaacttacctcAgggctctgctcaacttttca	9	16	5	11	0	4	0	3	0	1	0	4	0	4	0	1	1	5	3	1	1	5	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:34502322A>G	uc001mvo.1	-	6	928	c.698T>C	c.(697-699)CTG>CCG	p.L233P	ELF5_uc001mvp.1_Missense_Mutation_p.L223P|ELF5_uc009ykd.1_Missense_Mutation_p.L128P	NM_198381	NP_938195	Q9UKW6	ELF5_HUMAN	E74-like factor 5 ESE-2a	233	ETS.				cell proliferation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.0087)|all_hematologic(20;0.0384)				AACTTACCTCAGGGCTCTGCT	0.383													19	149					0	0	0.007413	0	0		G	34502322	G	G	34502322	3	3	140	1	0	0	0	0	1	0	0	0	5065	188	7	3	107	3	ELF5	11	34502322	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	17019016	34502322	100504194	385	75375											
TSPAN18	90139	broad.mit.edu	37	chr11	44931350	44931350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaatcctctgctcctcaCgggcgcctacatcctcctgg	5	10	8	18	2	2	0	1	0	1	0	6	0	6	0	6	2	3	1	6	2	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:44931350C>T	uc001mye.3	+	3	319	c.158C>T	c.(157-159)ACG>ATG	p.T53M	TP53I11_uc001myf.1_Intron|TSPAN18_uc001myg.2_Missense_Mutation_p.T53M	NM_130783	NP_570139	Q96SJ8	TSN18_HUMAN	tetraspanin 18 isoform 2	53	Helical; (Potential).					integral to membrane					0						CTGCTCCTCACGGGCGCCTAC	0.662													4	73					0	0	0.014758	0	0		T	44931350	T	T	44931350	3	4	140	1	0	0	0	0	1	0	0	0	16668	536	19	1	164	1	TSPAN18	11	44931350	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	10429028	44931350	90075166	386	75376											
OR4C46	119749	broad.mit.edu	37	chr11	51515361	51515361	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgcagaaaatcatatttgTtgtgttttttgtcatctata	11	19	7	4	0	3	1	2	0	1	1	3	2	3	1	0	0	1	3	0	0	5	8			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:51515361T>C	uc010ric.1	+	1	80	c.80T>C	c.(79-81)GTT>GCT	p.V27A		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	27	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ATCATATTTGTTGTGTTTTTT	0.413													69	169					0	0	0.01441	0	0		C	51515361	C	C	51515361	3	2	140	1	0	0	0	0	1	0	0	0	11070	1725	60	3	82	3	OR4C46	11	51515361	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	6584011	51515361	83491155	387	75377											
OR4P4	81300	broad.mit.edu	37	chr11	55405899	55405899	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccaaaataagaacattgaAgtcctctgctttgtattatt	13	15	5	8	0	1	2	0	1	1	1	3	2	3	2	2	0	2	2	2	0	7	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:55405899A>C	uc010rij.1	+	1	66	c.66A>C	c.(64-66)GAA>GAC	p.E22D		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						AGAACATTGAAGTCCTCTGCT	0.358													5	229					0	0	0.014758	0	0		C	55405899	C	C	55405899	3	2	140	1	0	0	0	0	1	0	0	0	11099	69	3	5	68	5	OR4P4	11	55405899	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	3890538	55405899	79600617	388	75378											
OR5W2	390148	broad.mit.edu	37	chr11	55681941	55681941	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcattccaagatttgctgAgaaattaatgatataaacag	17	13	6	5	0	1	3	1	2	0	2	2	4	2	3	1	0	2	1	1	0	7	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:55681941A>G	uc010rir.1	-	1	118	c.118T>C	c.(118-120)TCA>CCA	p.S40P		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AGATTTGCTGAGAAATTAATG	0.353													20	63					0	0	0.008871	0	0		G	55681941	G	G	55681941	3	3	140	1	0	0	0	0	1	0	0	0	11204	304	11	3	816	3	OR5W2	11	55681941	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	276042	55681941	79324575	389	75379											
OR5W2	390148	broad.mit.edu	37	chr11	55681953	55681953	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttgctgagaaattaatgaTataaacagccaagaatacag	19	10	7	5	0	0	3	0	2	0	2	0	4	0	3	1	0	4	1	1	0	8	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:55681953T>C	uc010rir.1	-	1	106	c.106A>G	c.(106-108)ATC>GTC	p.I36V		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AAATTAATGATATAAACAGCC	0.353													19	63					0	0	0.007413	0	0		C	55681953	C	C	55681953	3	2	140	1	0	0	0	0	1	0	0	0	11204	1406	49	3	828	3	OR5W2	11	55681953	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	12	55681953	79324563	390	75380											
OR9G9	504191	broad.mit.edu	37	chr11	56467894	56467894	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaatcatacagtgactgagTttatactgctgggcttcacc	10	12	9	10	0	2	2	2	2	0	0	2	2	2	2	1	1	3	4	1	1	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:56467894T>C	uc010rjn.1	+	1	31	c.31T>C	c.(31-33)TTT>CTT	p.F11L		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGTGACTGAGTTTATACTGCT	0.483													4	113					0	0	0.004482	0	0		C	56467894	C	C	56467894	3	2	140	1	0	0	0	0	1	0	0	0	11271	1725	60	3	33	3	OR9G9	11	56467894	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	785941	56467894	78538622	391	75381											
CTNND1	1500	broad.mit.edu	37	chr11	57575717	57575717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaagactcctgccatcctaGaagcctcagctggagctatc	10	8	9	14	0	1	2	1	0	0	2	4	3	3	3	4	1	4	3	4	1	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:57575717G>A	uc001nmc.3	+	13	2615	c.2044G>A	c.(2044-2046)GAA>AAA	p.E682K	CTNND1_uc001nlh.1_Missense_Mutation_p.E682K|CTNND1_uc001nlu.3_Missense_Mutation_p.E575K|CTNND1_uc001nlt.3_Missense_Mutation_p.E575K|CTNND1_uc001nls.3_Missense_Mutation_p.E575K|CTNND1_uc001nlw.3_Missense_Mutation_p.E575K|CTNND1_uc001nmf.3_Missense_Mutation_p.E682K|CTNND1_uc001nmd.3_Missense_Mutation_p.E628K|CTNND1_uc001nlk.3_Missense_Mutation_p.E628K|CTNND1_uc001nme.3_Missense_Mutation_p.E676K|CTNND1_uc001nll.3_Missense_Mutation_p.E622K|CTNND1_uc001nmg.3_Missense_Mutation_p.E622K|CTNND1_uc001nlj.3_Missense_Mutation_p.E622K|CTNND1_uc001nlr.3_Missense_Mutation_p.E622K|CTNND1_uc001nlp.3_Missense_Mutation_p.E622K|CTNND1_uc001nlx.3_Missense_Mutation_p.E359K|CTNND1_uc001nlz.3_Missense_Mutation_p.E359K|CTNND1_uc009ymn.2_Missense_Mutation_p.E353K|CTNND1_uc001nlm.3_Missense_Mutation_p.E676K|CTNND1_uc001nly.3_Missense_Mutation_p.E353K|CTNND1_uc001nmb.3_Missense_Mutation_p.E353K|CTNND1_uc001nma.3_Missense_Mutation_p.E353K|CTNND1_uc001nmi.3_Missense_Mutation_p.E581K|CTNND1_uc001nmh.3_Missense_Mutation_p.E676K|CTNND1_uc001nlq.3_Missense_Mutation_p.E581K|CTNND1_uc001nln.3_Missense_Mutation_p.E676K|CTNND1_uc001nli.3_Missense_Mutation_p.E676K|CTNND1_uc001nlo.3_Missense_Mutation_p.E575K|CTNND1_uc001nlv.3_Missense_Mutation_p.E575K	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	682	ARM 7.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				TGCCATCCTAGAAGCCTCAGC	0.458													20	55					0	0	0.007413	0	0		A	57575717	A	A	57575717	3	1	140	1	0	0	0	0	1	0	0	0	4022	943	33	4	2086	4	CTNND1	11	57575717	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1107823	57575717	77430799	392	75382											
ZFP91	80829	broad.mit.edu	37	chr11	58378437	58378437	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagtagtgaagaggaagAggaggaggaagaagagatgt	16	8	17	0	0	0	5	0	1	0	4	0	10	0	9	0	4	0	1	0	4	6	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:58378437A>T	uc001nmx.3	+	5	800	c.632A>T	c.(631-633)GAG>GTG	p.E211V	ZFP91_uc001nmy.3_Missense_Mutation_p.E210V|ZFP91-CNTF_uc010rkm.1_RNA	NM_053023	NP_444251	Q96JP5	ZFP91_HUMAN	zinc finger protein 91	211	Glu-rich.				activation of NF-kappaB-inducing kinase activity|protein K63-linked ubiquitination	nucleus	nucleic acid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				GAAGAGGAAGAGGAGGAGGAA	0.378													20	48					0	0	0.010504	0	0		T	58378437	T	T	58378437	3	4	140	1	0	0	0	0	1	0	0	0	17680	304	11	5	650	5	ZFP91	11	58378437	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	802720	58378437	76628079	393	75383											
PATL1	219988	broad.mit.edu	37	chr11	59416970	59416970	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttcccccttaagttgtcAtacatgctacaaattttgtg	11	16	5	9	0	1	0	1	0	0	0	2	0	2	0	2	0	3	2	2	0	5	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:59416970A>G	uc001noe.3	-	14	1841	c.1698T>C	c.(1696-1698)TAT>TAC	p.Y566Y	PATL1_uc009yms.1_Silent_p.Y536Y|PATL1_uc010rkw.1_Silent_p.Y271Y	NM_152716	NP_689929	Q86TB9	PATL1_HUMAN	protein associated with topoisomerase II homolog	566	Region C.				cytoplasmic mRNA processing body assembly|deadenylation-dependent decapping of nuclear-transcribed mRNA	cytoplasmic mRNA processing body	protein binding|RNA binding			ovary(1)	1						TTAAGTTGTCATACATGCTAC	0.433													25	26					0	0	0.004656	0	0		G	59416970	G	G	59416970	2	3	140	1	0	0	0	0	0	0	0	1	11494	224	8	3		3	PATL1	11	59416970	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1038533	59416970	75589546	394	75384											
STX3	6809	broad.mit.edu	37	chr11	59564791	59564791	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgtgctagtagttgtgttGctgggcattttagcattgat	7	18	12	4	0	0	1	0	1	0	0	0	1	0	1	0	1	3	7	0	1	3	8			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:59564791G>A	uc001nog.2	+	10	1012	c.822G>A	c.(820-822)TTG>TTA	p.L274L	STX3_uc010rkx.1_Intron|STX3_uc010rky.1_Intron|STX3_uc009ymt.1_Silent_p.L140L	NM_004177	NP_004168	Q13277	STX3_HUMAN	syntaxin 3	274	Helical; Anchor for type IV membrane protein; (Potential).				cellular response to oxidative stress|intracellular protein transport|neuron projection development|neurotransmitter transport	apical plasma membrane|azurophil granule|cell-cell junction|growth cone|integral to membrane|plasma membrane enriched fraction|SNARE complex|specific granule	arachidonic acid binding|SNAP receptor activity			ovary(2)	2						TAGTTGTGTTGCTGGGCATTT	0.363													47	125					0	0	0.01441	0	0		A	59564791	A	A	59564791	2	1	140	1	0	0	0	0	0	0	0	1	15371	1310	46	2		2	STX3	11	59564791	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	147821	59564791	75441725	395	75385											
INCENP	3619	broad.mit.edu	37	chr11	61917561	61917561	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctcatatcagatgactccGcaagggcacagggcccctcc	10	6	9	16	1	2	2	2	1	0	1	4	2	4	2	5	2	0	2	5	2	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:61917561G>A	uc001nsw.1	+	18	2626	c.2424G>A	c.(2422-2424)CCG>CCA	p.P808P	INCENP_uc001nsx.1_Silent_p.P804P|INCENP_uc001nsy.1_Silent_p.P222P	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	808					chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						AGATGACTCCGCAAGGGCACA	0.562													32	72					0	0	0.010818	0	0		A	61917561	A	A	61917561	2	1	140	1	0	0	0	0	0	0	0	1	7749	1074	38	1		1	INCENP	11	61917561	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2352770	61917561	73088955	396	75386											
PYGM	5837	broad.mit.edu	37	chr11	64525753	64525753	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttctggttaaaaatccCaaactcatagcgaatcccgt	13	11	6	11	2	3	0	1	0	2	0	5	2	5	0	2	1	2	1	2	1	6	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:64525753C>A	uc001oax.3	-	4	1310	c.493G>T	c.(493-495)GGG>TGG	p.G165W	PYGM_uc001oay.3_Intron	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	165					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	TTAAAAATCCCAAACTCATAG	0.572													62	114					3.94896e-32	4.58436e-32	0.01441	1	0		A	64525753	A	A	64525753	3	1	140	1	0	0	0	0	1	0	0	0	12887	594	21	5	2103	5	PYGM	11	64525753	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2608192	64525753	70480763	397	75387											
SYVN1	84447	broad.mit.edu	37	chr11	64897791	64897791	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgggacaggtggaaaggggCccatggggggccacagtggg	8	3	22	8	1	0	0	0	0	0	0	0	2	0	2	2	9	0	0	2	9	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:64897791C>G	uc001odb.2	-	12	1260	c.1166G>C	c.(1165-1167)GGC>GCC	p.G389A	SYVN1_uc001odc.2_Missense_Mutation_p.G389A|SYVN1_uc009yqc.2_Missense_Mutation_p.G338A	NM_172230	NP_757385	Q86TM6	SYVN1_HUMAN	synoviolin 1 isoform b	389	Pro-rich.|Cytoplasmic (Potential).				ER-associated protein catabolic process|response to stress	endoplasmic reticulum membrane|integral to membrane|nucleus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(1)	1						TGGAAAGGGGCCCATGGGGGG	0.637													5	8					0	0	0.014758	0	0		G	64897791	G	G	64897791	3	3	140	1	0	0	0	0	1	0	0	0	15512	739	26	5	707	5	SYVN1	11	64897791	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	372038	64897791	70108725	398	75388											
LTBP3	4054	broad.mit.edu	37	chr11	65321785	65321785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagcgcccagtgaagtccGggggacacaggcactggttt	10	6	15	10	2	0	2	0	1	0	1	1	3	1	3	2	4	1	2	2	4	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:65321785G>A	uc001oej.2	-	2	667	c.398C>T	c.(397-399)CCG>CTG	p.P133L	LTBP3_uc010roi.1_Missense_Mutation_p.P16L|LTBP3_uc001oei.2_Missense_Mutation_p.P133L|LTBP3_uc010roj.1_Intron|LTBP3_uc010rok.1_Missense_Mutation_p.P44L	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	133	EGF-like 1.|Gly-rich.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						AGTGAAGTCCGGGGGACACAG	0.697													11	17					0	0	0.008291	0	0		A	65321785	A	A	65321785	3	1	140	1	0	0	0	0	1	0	0	0	9093	1116	39	1	3621	1	LTBP3	11	65321785	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	423994	65321785	69684731	399	75389											
TCIRG1	10312	broad.mit.edu	37	chr11	67818098	67818098	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctggtgatggagggacTctcagccttcctgcacgccc	5	9	12	15	1	1	1	1	1	1	0	3	3	2	3	4	3	3	2	4	3	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:67818098T>G	uc001one.2	+	19	2489	c.2381T>G	c.(2380-2382)CTC>CGC	p.L794R	TCIRG1_uc001ong.2_Missense_Mutation_p.L578R|TCIRG1_uc001onh.2_Missense_Mutation_p.L496R|TCIRG1_uc001oni.2_Missense_Mutation_p.L298R|TCIRG1_uc009ysd.2_Intron	NM_006019	NP_006010	Q13488	VPP3_HUMAN	T-cell, immune regulator 1 isoform a	794	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular defense response|cellular iron ion homeostasis|insulin receptor signaling pathway|positive regulation of cell proliferation|transferrin transport	apical plasma membrane|endosome membrane|integral to plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity			ovary(1)	1						ATGGAGGGACTCTCAGCCTTC	0.667													15	97					0	0	0.010504	0	0		G	67818098	G	G	67818098	3	3	140	1	0	0	0	0	1	0	0	0	15728	1551	54	5	2451	5	TCIRG1	11	67818098	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	2496313	67818098	67188418	400	75390											
P2RY6	5031	broad.mit.edu	37	chr11	73007624	73007624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaccacctgtgtctacCgcgagaacttcaagcaactg	11	7	7	16	2	2	1	1	0	1	1	2	2	2	1	4	0	4	1	4	0	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:73007624C>T	uc001otm.2	+	4	466	c.61C>T	c.(61-63)CGC>TGC	p.R21C	P2RY6_uc001otn.2_Missense_Mutation_p.R21C|P2RY6_uc001oto.2_Missense_Mutation_p.R21C|P2RY6_uc001otp.2_Missense_Mutation_p.R21C|P2RY6_uc001otq.2_Missense_Mutation_p.R21C|P2RY6_uc001otr.2_Missense_Mutation_p.R21C|P2RY6_uc001ots.2_Missense_Mutation_p.R21C	NM_176796	NP_789766	Q15077	P2RY6_HUMAN	pyrimidinergic receptor P2Y6	21	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1						CTGTGTCTACCGCGAGAACTT	0.602													96	131					0	0	0.01441	0	0		T	73007624	T	T	73007624	3	4	140	1	0	0	0	0	1	0	0	0	11373	652	23	1	63	1	P2RY6	11	73007624	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5189526	73007624	61998892	401	75391											
C2CD3	26005	broad.mit.edu	37	chr11	73748596	73748596	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactggctcccagggtctagGctgctggcacctggcccaag	6	7	13	15	0	1	0	0	0	1	0	2	0	2	0	3	5	1	4	3	5	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:73748596G>A	uc001ouu.2	-	30	6035	c.5808C>T	c.(5806-5808)AGC>AGT	p.S1936S	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1936						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					CAGGGTCTAGGCTGCTGGCAC	0.542													57	133					0	0	0.01441	0	0		A	73748596	A	A	73748596	2	1	140	1	0	0	0	0	0	0	0	1	2157	1194	42	2		2	C2CD3	11	73748596	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	740972	73748596	61257920	402	75392											
FAM55B	120406	broad.mit.edu	37	chr11	114569334	114569334	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcactgaatgtggcctgAccctaaacacaaatgctgaa	13	10	7	11	0	2	3	1	3	1	0	2	3	2	3	2	1	2	1	2	1	5	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:114569334A>G	uc009yyy.2	+	3	798	c.700A>G	c.(700-702)ACC>GCC	p.T234A		NM_182495	NP_872301	Q96DL1	FA55B_HUMAN	hypothetical protein LOC120406	234						integral to membrane				ovary(1)	1						ATGTGGCCTGACCCTAAACAC	0.498													20	43					0	0	0.014323	0	0		G	114569334	G	G	114569334	3	3	140	1	0	0	0	0	1	0	0	0	5599	275	10	3	710	3	FAM55B	11	114569334	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	40820738	114569334	20437182	403	75393											
CEP164	22897	broad.mit.edu	37	chr11	117261607	117261607	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagtccagcacacaagcAgatgaggaccaaatcaggta	15	5	10	11	0	1	2	1	1	0	1	3	3	3	3	3	2	2	3	3	2	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:117261607A>T	uc001prc.2	+	16	2196	c.2049A>T	c.(2047-2049)GCA>GCT	p.A683A	CEP164_uc001prb.2_Silent_p.A686A|CEP164_uc010rxk.1_Silent_p.A657A|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Silent_p.A116A	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	683	Glu-rich.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		GCACACAAGCAGATGAGGACC	0.602													29	66					0	0	0.009535	0	0		T	117261607	T	T	117261607	2	4	140	1	0	0	0	0	0	0	0	1	3252	175	7	5		5	CEP164	11	117261607	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	2692273	117261607	17744909	404	75394											
AMICA1	120425	broad.mit.edu	37	chr11	118083204	118083204	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggaaaacacatcccatcAgagctgaatcacccacatgg	14	7	7	13	0	3	2	2	1	1	1	4	3	4	3	2	2	2	1	2	2	3	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:118083204A>G	uc001psk.2	-	3	290	c.116T>C	c.(115-117)CTG>CCG	p.L39P	AMICA1_uc001psh.2_5'UTR|AMICA1_uc009yzw.1_RNA|AMICA1_uc001psi.2_Missense_Mutation_p.L29P|AMICA1_uc001psj.2_Missense_Mutation_p.L39P|AMICA1_uc010rxw.1_5'UTR|AMICA1_uc010rxx.1_Missense_Mutation_p.L39P|AMICA1_uc001psl.1_Intron	NM_001098526	NP_001091996	Q86YT9	JAML1_HUMAN	adhesion molecule, interacts with CXADR antigen	39	Ig-like V-type 1.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	cell junction|integral to membrane				ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		ACATCCCATCAGAGCTGAATC	0.473													45	72					0	0	0.01441	0	0		G	118083204	G	G	118083204	3	3	140	1	0	0	0	0	1	0	0	0	574	188	7	3	1100	3	AMICA1	11	118083204	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	821597	118083204	16923312	405	75395											
MLL	4297	broad.mit.edu	37	chr11	118359351	118359351	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtattgccaagtctgttGtgagcccttccacaagtttt	7	16	9	9	0	1	1	0	1	1	0	2	1	2	1	3	0	2	3	3	0	3	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:118359351G>T	uc001pta.2	+	11	4378	c.4355G>T	c.(4354-4356)TGT>TTT	p.C1452F	MLL_uc001ptb.2_Missense_Mutation_p.C1452F|MLL_uc001pte.1_RNA	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1452	PHD-type 1.				apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		CAAGTCTGTTGTGAGCCCTTC	0.398			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								35	73					2.91434e-09	3.14227e-09	0.021022	1	0		T	118359351	T	T	118359351	3	4	140	1	0	0	0	0	1	0	0	0	9638	1377	48	5	4397	5	MLL	11	118359351	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	276147	118359351	16647165	406	75396											
TECTA	7007	broad.mit.edu	37	chr11	120989148	120989148	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacgaggtgtgcgaacccaaAggcaaattcttctactgcag	12	9	10	10	2	2	0	0	0	2	0	2	2	2	0	1	2	5	2	1	2	5	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:120989148A>C	uc010rzo.1	+	6	924	c.924A>C	c.(922-924)AAA>AAC	p.K308N		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	308	VWFC.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GCGAACCCAAAGGCAAATTCT	0.532													36	76					0	0	0.013726	0	0		C	120989148	C	C	120989148	3	2	140	1	0	0	0	0	1	0	0	0	15772	69	3	5	946	5	TECTA	11	120989148	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	2629797	120989148	14017368	407	75397											
TECTA	7007	broad.mit.edu	37	chr11	120996139	120996139	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttttgatggccagcactaCgcctccatttccgtcccagg	7	11	8	15	2	0	1	0	1	0	0	3	1	3	1	5	2	2	1	5	2	1	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:120996139C>T	uc010rzo.1	+	7	1332	c.1332C>T	c.(1330-1332)TAC>TAT	p.Y444Y		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	444	VWFD 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GCCAGCACTACGCCTCCATTT	0.488													187	441					0	0	0.01441	0	0		T	120996139	T	T	120996139	2	4	140	1	0	0	0	0	0	0	0	1	15772	547	19	1		1	TECTA	11	120996139	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	6991	120996139	14010377	408	75398											
ZNF202	7753	broad.mit.edu	37	chr11	123601252	123601252	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccagcgtcactgcctcCtcgccactttctggccgttg	4	11	8	18	3	2	0	1	0	1	0	5	0	4	0	6	1	2	1	6	1	0	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:123601252C>A	uc001pzd.1	-	4	745	c.345G>T	c.(343-345)GAG>GAT	p.E115D	ZNF202_uc001pzc.1_Translation_Start_Site|ZNF202_uc001pze.1_Missense_Mutation_p.E115D|ZNF202_uc001pzf.1_Missense_Mutation_p.E115D	NM_003455	NP_003446	O95125	ZN202_HUMAN	zinc finger protein 202	115	SCAN box.				lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.03)		TCACTGCCTCCTCGCCACTTT	0.587													42	107					1.51926e-22	1.74016e-22	0.01441	1	0		A	123601252	A	A	123601252	3	1	140	1	0	0	0	0	1	0	0	0	17788	680	24	5	1625	5	ZNF202	11	123601252	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2605113	123601252	11405264	409	75399											
ROBO4	54538	broad.mit.edu	37	chr11	124756593	124756593	+	Frame_Shift_Del	DEL	C	-	-																															gaggtgggcacagcaagactCcccccttgggccccacccct																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:124756593delC	uc001qbg.2	-	16	2701	c.2561delG	c.(2560-2562)GGAfs	p.G854fs	ROBO4_uc010sas.1_Frame_Shift_Del_p.G709fs|ROBO4_uc001qbh.2_3'UTR|ROBO4_uc001qbi.2_Frame_Shift_Del_p.G412fs	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	854					angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		CAGCAAGACTCCCCCCTTGGG	0.662													18	38	---	---	---	---						.	-	124756593	-	-	124756593	7	5	140	1	0	1	0	1	0	0	0	0	13541	855	30	0	474	0	ROBO4	11	124756593	Frame_Shift_Del	DEL	C	TCGA-CG-4465-01A-01D-1158-08	1155341	124756593	10249923	410	75400											
SRPR	6734	broad.mit.edu	37	chr11	126135974	126135974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacccagtgttcccttggtcGcactgcagggacaggagatt	8	9	12	12	1	0	1	0	0	0	1	2	3	1	2	2	3	1	3	2	3	0	3	rs138456100	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:126135974G>A	uc001qdh.2	-	8	986	c.935C>T	c.(934-936)GCG>GTG	p.A312V	SRPR_uc010sbm.1_Missense_Mutation_p.A284V	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	312					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		TCCCTTGGTCGCACTGCAGGG	0.478													90	168					0	0	0.01441	0	0		A	126135974	A	A	126135974	3	1	140	1	0	0	0	0	1	0	0	0	15187	1087	38	1	1009	1	SRPR	11	126135974	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1379381	126135974	8870542	411	75401											
GLB1L2	89944	broad.mit.edu	37	chr11	134241040	134241040	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgtgcatgatcgggggCaggtaggagcttctcttcta	7	10	14	10	2	2	1	0	1	2	0	4	2	2	2	1	4	2	4	1	4	2	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr11:134241040C>A	uc001qhp.2	+	13	1542	c.1354C>A	c.(1354-1356)CAG>AAG	p.Q452K	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	452					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		TGATCGGGGGCAGGTAGGAGC	0.542													49	121					2.01807e-28	2.3253e-28	0.01441	1	0		A	134241040	A	A	134241040	3	1	140	1	0	0	0	0	1	0	0	0	6444	711	25	5	1404	5	GLB1L2	11	134241040	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	8105066	134241040	765476	412	75402											
CD27	939	broad.mit.edu	37	chr12	6554270	6554270	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggcagggaccatggcacgGccacatccctggtggctgtg	6	7	16	12	1	0	0	0	0	0	0	1	1	1	1	3	6	0	3	3	6	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:6554270G>A	uc001qod.2	+	1	220	c.9G>A	c.(7-9)CGG>CGA	p.R3R	LOC678655_uc001qob.2_Intron|LOC678655_uc001qoc.2_Intron|LOC678655_uc009zel.1_Intron|CD27_uc001qoe.2_5'Flank	NM_001242	NP_001233	P26842	CD27_HUMAN	tumor necrosis factor receptor superfamily,	3					anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway|immunoglobulin mediated immune response|induction of apoptosis|positive regulation of B cell differentiation|positive regulation of JNK cascade|release of cytoplasmic sequestered NF-kappaB	extracellular region|integral to plasma membrane	caspase inhibitor activity|protein binding|transmembrane receptor activity				0						CCATGGCACGGCCACATCCCT	0.637													4	12					0	0	0.014758	0	0		A	6554270	A	A	6554270	2	1	140	1	0	0	0	0	0	0	0	1	2993	1190	42	2		2	CD27	12	6554270	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08		6554270	127297625	413	75403											
CHD4	1108	broad.mit.edu	37	chr12	6697051	6697051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgctcctccactgacgcaCgggtcacaaaccggtagatc	9	7	10	15	4	1	2	1	1	0	1	4	2	3	2	3	2	2	3	3	2	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:6697051C>T	uc001qpo.2	-	24	3694	c.3530G>A	c.(3529-3531)CGT>CAT	p.R1177H	CHD4_uc001qpn.2_Missense_Mutation_p.R1170H|CHD4_uc001qpp.2_Missense_Mutation_p.R1174H	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1177	Helicase C-terminal.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						CACTGACGCACGGGTCACAAA	0.502													37	72					0	0	0.017118	0	0		T	6697051	T	T	6697051	3	4	140	1	0	0	0	0	1	0	0	0	3330	536	19	1	2276	1	CHD4	12	6697051	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	142781	6697051	127154844	414	75404											
A2M	2	broad.mit.edu	37	chr12	9243902	9243902	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccacaaagaagggctggaaGgctcggagagaggcagtgga	13	4	17	7	1	0	2	0	0	0	2	2	6	1	5	1	6	0	3	1	6	3	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:9243902G>T	uc001qvk.1	-	19	2477	c.2364C>A	c.(2362-2364)GCC>GCA	p.A788A	A2M_uc009zgk.1_Silent_p.A638A	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	788					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	AGGGCTGGAAGGCTCGGAGAG	0.542													44	93					5.13769e-22	5.87599e-22	0.01441	1	0		T	9243902	T	T	9243902	2	4	140	1	0	0	0	0	0	0	0	1	4	987	35	5		5	A2M	12	9243902	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2546851	9243902	124607993	415	75405											
CD69	969	broad.mit.edu	37	chr12	9907700	9907700	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagcaagagtagcaccatgTtcagaacaagcattttgggc	14	8	10	9	0	1	2	1	0	0	2	1	2	1	2	1	1	4	5	1	1	4	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:9907700T>C	uc001qwk.2	-	3	426	c.345A>G	c.(343-345)GAA>GAG	p.E115E	CD69_uc010sgu.1_Silent_p.E115E|CD69_uc010sgv.1_Silent_p.E115E	NM_001781	NP_001772	Q07108	CD69_HUMAN	CD69 molecule	115	C-type lectin.|Extracellular (Potential).					integral to plasma membrane	sugar binding|transmembrane receptor activity				0						TAGCACCATGTTCAGAACAAG	0.378													48	97					0	0	0.01441	0	0		C	9907700	C	C	9907700	2	2	140	1	0	0	0	0	0	0	0	1	3034	1722	60	3		3	CD69	12	9907700	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	663798	9907700	123944195	416	75406											
MANSC1	54682	broad.mit.edu	37	chr12	12491412	12491412	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaatggacaggcttcctcGttgggacagaaaaataggta	13	10	11	7	1	1	1	1	0	0	1	3	3	2	3	1	4	0	3	1	4	5	5	rs147279934		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:12491412G>A	uc001rai.1	-	3	564	c.306C>T	c.(304-306)AAC>AAT	p.N102N	MANSC1_uc010shm.1_Silent_p.N36N|MANSC1_uc001raj.1_Silent_p.N68N|MANSC1_uc009zht.1_Silent_p.N21N	NM_018050	NP_060520	Q9H8J5	MANS1_HUMAN	MANSC domain containing 1 precursor	102	MANSC.|Extracellular (Potential).					integral to membrane					0		Prostate(47;0.0865)		BRCA - Breast invasive adenocarcinoma(232;0.185)		AGGCTTCCTCGTTGGGACAGA	0.383													75	133					0	0	0.01441	0	0		A	12491412	A	A	12491412	2	1	140	1	0	0	0	0	0	0	0	1	9242	1136	40	1		1	MANSC1	12	12491412	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2583712	12491412	121360483	417	75407											
SLCO1B3	28234	broad.mit.edu	37	chr12	21229503	21229503	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atataattccacatatttggGgtaagttgtcataaatatat	15	16	6	4	0	1	0	1	0	0	0	2	0	2	0	1	2	0	2	1	2	8	10			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:21229503G>T	uc010sil.1	+	15	2113	c.2048G>T	c.(2047-2049)GGA>GTA	p.G683V	LST-3TM12_uc010sim.1_Missense_Mutation_p.G622V|LST-3TM12_uc010sin.1_Missense_Mutation_p.G575V			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					ACATATTTGGGGTAAGTTGTC	0.299													59	115					3.53049e-34	4.11091e-34	0.01441	1	0		T	21229503	T	T	21229503	3	4	140	1	0	0	0	0	1	0	0	0	14749	1246	43	5		5	SLCO1B3	12	21229503	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	8738091	21229503	112622392	418	75408											
HDAC7	51564	broad.mit.edu	37	chr12	48183343	48183343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcatggtgtcctgggggccGcaccacagcgaaaccattct	8	8	12	13	2	1	0	0	0	1	0	2	1	2	0	4	3	3	2	4	3	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:48183343G>A	uc010slo.1	-	18	2305	c.2110C>T	c.(2110-2112)CGG>TGG	p.R704W	HDAC7_uc009zku.2_Intron|HDAC7_uc001rqe.2_Missense_Mutation_p.R138W|HDAC7_uc001rqj.3_Missense_Mutation_p.R667W|HDAC7_uc001rqk.3_Missense_Mutation_p.R687W|HDAC7_uc010slp.1_5'Flank	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	665	Histone deacetylase.			R -> W (in Ref. 5; BAA91474).	negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		CCTGGGGGCCGCACCACAGCG	0.532													5	47					0	0	0.001168	0	0		A	48183343	A	A	48183343	3	1	140	1	0	0	0	0	1	0	0	0	7028	1086	38	1	901	1	HDAC7	12	48183343	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	26953840	48183343	85668552	419	75409											
GPD1	2819	broad.mit.edu	37	chr12	50499353	50499353	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtcccagatgtggtccAggctgcagaggatgctgaca	8	8	15	10	0	0	3	0	1	0	2	2	4	2	4	2	4	2	4	2	4	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:50499353A>G	uc001rvz.2	+	3	275	c.242A>G	c.(241-243)CAG>CGG	p.Q81R	GPD1_uc010smp.1_Missense_Mutation_p.Q81R|GPD1_uc001rwa.2_Intron	NM_005276	NP_005267	P21695	GPDA_HUMAN	glycerol-3-phosphate dehydrogenase 1 (soluble)	81					glycerol-3-phosphate catabolic process|triglyceride biosynthetic process	cytosol|glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|protein homodimerization activity				0					NADH(DB00157)	GATGTGGTCCAGGCTGCAGAG	0.592													16	48					0	0	0.00499	0	0		G	50499353	G	G	50499353	3	3	140	1	0	0	0	0	1	0	0	0	6619	188	7	3	252	3	GPD1	12	50499353	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	2316010	50499353	83352542	420	75410											
LARP4	113251	broad.mit.edu	37	chr12	50848191	50848191	+	Frame_Shift_Del	DEL	A	-	-																															gaatatgggtcgaccattccAaaaaaatcggtaagataaaa																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:50848191delA	uc001rwp.1	+	10	1256	c.1112delA	c.(1111-1113)CAAfs	p.Q371fs	LARP4_uc001rwo.1_Frame_Shift_Del_p.Q377fs|LARP4_uc001rwq.1_Frame_Shift_Del_p.Q300fs|LARP4_uc001rwr.1_Frame_Shift_Del_p.Q371fs|LARP4_uc001rws.1_Frame_Shift_Del_p.Q370fs|LARP4_uc009zlr.1_Frame_Shift_Del_p.Q190fs|LARP4_uc001rwt.1_Frame_Shift_Del_p.Q33fs|LARP4_uc001rwm.2_Frame_Shift_Del_p.Q371fs|LARP4_uc001rwn.2_Frame_Shift_Del_p.Q301fs	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a	371							nucleotide binding|RNA binding			ovary(1)	1						CGACCATTCCAAAAAAATCGG	0.358													35	71	---	---	---	---						.	-	50848191	-	-	50848191	7	5	140	1	0	1	0	1	0	0	0	0	8646	130	5	0	1150	0	LARP4	12	50848191	Frame_Shift_Del	DEL	A	TCGA-CG-4465-01A-01D-1158-08	348838	50848191	83003704	421	75411											
KRT73	319101	broad.mit.edu	37	chr12	53004555	53004555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctcatccagcttggccctgGcatccttgagggcacagtcc	6	9	11	15	0	1	1	1	1	0	0	4	1	4	1	4	3	1	4	4	3	0	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:53004555G>A	uc001sas.2	-	7	1210	c.1175C>T	c.(1174-1176)GCC>GTC	p.A392V		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	392	Rod.|Coil 2.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CTTGGCCCTGGCATCCTTGAG	0.637													24	48					0	0	0.004656	0	0		A	53004555	A	A	53004555	3	1	140	1	0	0	0	0	1	0	0	0	8502	1203	42	2	459	2	KRT73	12	53004555	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2156364	53004555	80847340	422	75412											
KRT8	3856	broad.mit.edu	37	chr12	53298482	53298482	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgttgttgagggtcttgAtctgctccttctcctgggtg	3	17	12	9	0	3	2	0	2	3	0	5	2	4	2	2	2	1	3	2	2	0	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:53298482A>T	uc001sbd.2	-	1	387	c.284T>A	c.(283-285)ATC>AAC	p.I95N	KRT8_uc009zmj.2_Missense_Mutation_p.I95N|KRT8_uc009zmk.1_Missense_Mutation_p.I123N|KRT8_uc009zml.1_Missense_Mutation_p.I95N|KRT8_uc009zmm.1_Missense_Mutation_p.I95N	NM_002273	NP_002264	P05787	K2C8_HUMAN	keratin 8	95	Coil 1A.|Rod.				cytoskeleton organization|interspecies interaction between organisms	cytoplasm|keratin filament|nuclear matrix|nucleoplasm	protein binding|structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.108)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GAGGGTCTTGATCTGCTCCTT	0.617													53	101					0	0	0.01441	0	0		T	53298482	T	T	53298482	3	4	140	1	0	0	0	0	1	0	0	0	8509	333	12	5	1199	5	KRT8	12	53298482	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	293927	53298482	80553413	423	75413											
ITGA7	3679	broad.mit.edu	37	chr12	56078934	56078934	+	Frame_Shift_Del	DEL	G	-	-																															tgcatccgggccctcccgccGggggctgccccagttgttcc																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:56078934delG	uc001shh.2	-	25	3554	c.3334delC	c.(3334-3336)CGGfs	p.R1112fs	ITGA7_uc001shg.2_Frame_Shift_Del_p.R1108fs|ITGA7_uc010sps.1_Frame_Shift_Del_p.R1015fs|ITGA7_uc001shf.2_3'UTR|ITGA7_uc009znw.2_Frame_Shift_Del_p.R355fs|ITGA7_uc009znx.2_Frame_Shift_Del_p.R989fs	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	1152	Cytoplasmic (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						CCCTCCCGCCGGGGGCTGCCC	0.667													22	47	---	---	---	---						.	-	56078934	-	-	56078934	7	5	140	1	0	1	0	1	0	0	0	0	7897	1115	39	0	95	0	ITGA7	12	56078934	Frame_Shift_Del	DEL	G	TCGA-CG-4465-01A-01D-1158-08	2780452	56078934	77772961	424	75414											
ERBB3	2065	broad.mit.edu	37	chr12	56482560	56482560	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacaggctctgggagccgCttccagactgtggactcgag	8	7	15	11	2	1	1	0	0	1	1	3	5	2	4	2	4	2	2	2	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:56482560C>T	uc001sjh.2	+	9	1210	c.1017C>T	c.(1015-1017)CGC>CGT	p.R339R	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Silent_p.R280R|ERBB3_uc001sji.2_Silent_p.R30R	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	339	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CTGGGAGCCGCTTCCAGACTG	0.532													53	97					0	0	0.01441	0	0		T	56482560	T	T	56482560	2	4	140	1	0	0	0	0	0	0	0	1	5216	784	28	2		2	ERBB3	12	56482560	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	403626	56482560	77369335	425	75415											
ANKRD52	283373	broad.mit.edu	37	chr12	56642004	56642004	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcttcacagtgaccgttgTaggcctggcaaggtgcaggc	8	8	15	10	1	1	1	1	1	0	0	1	1	1	1	2	5	1	5	2	5	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:56642004T>C	uc001skm.3	-	18	1871	c.1781A>G	c.(1780-1782)TAC>TGC	p.Y594C		NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	594	ANK 17.						protein binding			ovary(2)	2						GTGACCGTTGTAGGCCTGGCA	0.622													7	91					0	0	0.008291	0	0		C	56642004	C	C	56642004	3	2	140	1	0	0	0	0	1	0	0	0	678	1638	57	3	1493	3	ANKRD52	12	56642004	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	159444	56642004	77209891	426	75416											
BAZ2A	11176	broad.mit.edu	37	chr12	56994529	56994529	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacccattgaagcactgctAggtctgtctcgtatgtcttc	7	14	8	12	1	3	1	0	1	3	0	5	1	3	1	1	1	3	3	1	1	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:56994529A>G	uc001slq.1	-	23	4738	c.4544T>C	c.(4543-4545)CTA>CCA	p.L1515P	BAZ2A_uc001slp.1_Missense_Mutation_p.L1513P|BAZ2A_uc001slo.1_Missense_Mutation_p.L321P|BAZ2A_uc009zov.1_Missense_Mutation_p.L481P|BAZ2A_uc009zow.1_Missense_Mutation_p.L1483P	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1515					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						AAGCACTGCTAGGTCTGTCTC	0.527													63	169					0	0	0.01441	0	0		G	56994529	G	G	56994529	3	3	140	1	0	0	0	0	1	0	0	0	1332	420	15	3	1201	3	BAZ2A	12	56994529	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	352525	56994529	76857366	427	75417											
GLI1	2735	broad.mit.edu	37	chr12	57858512	57858512	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccaagaagcgggcactgTccatctcacctctgtcggat	9	9	10	13	2	2	2	1	1	2	1	5	3	3	3	3	2	1	1	3	2	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:57858512T>C	uc001snx.2	+	4	328	c.250T>C	c.(250-252)TCC>CCC	p.S84P	GLI1_uc009zpp.2_RNA|GLI1_uc009zpq.2_5'UTR|GLI1_uc009zpr.1_RNA	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	84					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			GCGGGCACTGTCCATCTCACC	0.582													23	41					0	0	0.01892	0	0		C	57858512	C	C	57858512	3	2	140	1	0	0	0	0	1	0	0	0	6452	1667	58	3	260	3	GLI1	12	57858512	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	863983	57858512	75993383	428	75418											
AVIL	10677	broad.mit.edu	37	chr12	58209783	58209783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctccagacaatgatcccaGggtcgttgtccacagccctg	8	10	9	14	1	1	2	0	1	1	1	5	2	3	2	4	1	1	1	4	1	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:58209783G>A	uc001sqj.1	-	1	70	c.41C>T	c.(40-42)CCT>CTT	p.P14L	AVIL_uc009zqe.1_5'UTR|AVIL_uc001sql.3_5'Flank	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	14	Core (By similarity).				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					AATGATCCCAGGGTCGTTGTC	0.547													22	41					0	0	0.012319	0	0		A	58209783	A	A	58209783	3	1	140	1	0	0	0	0	1	0	0	0	1228	1000	35	4	2494	4	AVIL	12	58209783	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	351271	58209783	75642112	429	75419											
XPOT	11260	broad.mit.edu	37	chr12	64803776	64803776	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtgggatcagagggcaCgcctattacaaccagaaaac	13	8	10	10	1	2	2	1	0	1	2	2	3	2	3	2	2	3	1	2	2	5	3	rs147876387	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:64803776C>T	uc001ssb.2	+	2	387	c.-39C>T	c.(-41--37)CACGC>CATGC		XPOT_uc009zqm.1_Translation_Start_Site	NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin						intracellular protein transport|tRNA export from nucleus	cytoplasm|nucleoplasm	protein transporter activity|tRNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(28;0.0404)		TCAGAGGGCACGCCTATTACA	0.368													11	82					0	0	0.008291	0	0		T	64803776	T	T	64803776	1	4	140	1	0	0	0	0	0	0	0	0	17476	551	19	1		1	XPOT	12	64803776	Translation_Start_Site	SNP	C	TCGA-CG-4465-01A-01D-1158-08	6593993	64803776	69048119	430	75420											
NUP107	57122	broad.mit.edu	37	chr12	69109437	69109437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcccataagacagaaaatgCcccttgatgatctggataga	14	9	8	10	0	1	5	0	2	1	3	2	6	2	6	3	1	1	0	3	1	4	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:69109437C>T	uc001suf.2	+	12	1115	c.1000C>T	c.(1000-1002)CCC>TCC	p.P334S	NUP107_uc001sug.2_Missense_Mutation_p.P181S|NUP107_uc010stj.1_Missense_Mutation_p.P305S	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	334					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			ACAGAAAATGCCCCTTGATGA	0.373													49	131					0	0	0.01441	0	0		T	69109437	T	T	69109437	3	4	140	1	0	0	0	0	1	0	0	0	10772	739	26	2	1046	2	NUP107	12	69109437	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4305661	69109437	64742458	431	75421											
PTPRR	5801	broad.mit.edu	37	chr12	71094956	71094956	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtgaacttgccacgacGtccctcagctgagaccttgt	10	10	9	12	2	1	2	1	2	0	1	2	4	2	2	3	0	3	1	3	0	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:71094956G>A	uc001swi.1	-	7	1571	c.1155C>T	c.(1153-1155)GAC>GAT	p.D385D	PTPRR_uc001swh.1_Silent_p.D140D|PTPRR_uc009zrs.2_Silent_p.D234D|PTPRR_uc010stq.1_Silent_p.D273D|PTPRR_uc010str.1_Silent_p.D234D	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	385	Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		TTGCCACGACGTCCCTCAGCT	0.458													56	106					0	0	0.01441	0	0		A	71094956	A	A	71094956	2	1	140	1	0	0	0	0	0	0	0	1	12835	1136	40	1		1	PTPRR	12	71094956	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1985519	71094956	62756939	432	75422											
TRHDE	29953	broad.mit.edu	37	chr12	72666574	72666574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgatgggggaagacgacGccgcgcttcgggctggcagc	6	4	18	13	7	0	1	0	0	0	1	1	4	0	2	2	4	1	3	2	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:72666574G>A	uc001sxa.2	+	1	46	c.16G>A	c.(16-18)GCC>ACC	p.A6T	LOC283392_uc010stv.1_Missense_Mutation_p.R46C	NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	6	Cytoplasmic (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						GGAAGACGACGCCGCGCTTCG	0.537													4	10					0	0	0.014758	0	0		A	72666574	A	A	72666574	3	1	140	1	0	0	0	0	1	0	0	0	16505	1087	38	1	18	1	TRHDE	12	72666574	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1571618	72666574	61185321	433	75423											
PPFIA2	8499	broad.mit.edu	37	chr12	81657028	81657028	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accatctgttgtcatttttcTtgactgcccagaggttgtgg	6	16	10	9	0	3	2	1	1	2	1	3	2	3	2	2	2	1	2	2	2	0	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:81657028T>C	uc001szo.1	-	31	3858	c.3697A>G	c.(3697-3699)AGA>GGA	p.R1233G	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	1132										ovary(3)|lung(2)|pancreas(1)	6						GTCATTTTTCTTGACTGCCCA	0.423													3	15					0	0	0.004672	0	0		C	81657028	C	C	81657028	3	2	140	1	0	0	0	0	1	0	0	0	12329	1617	56	3	84	3	PPFIA2	12	81657028	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	8990454	81657028	52194867	434	75424											
APPL2	55198	broad.mit.edu	37	chr12	105589059	105589059	+	Frame_Shift_Del	DEL	T	-	-																															ctggggcatgagctttcttgTttttttccaaaacttgtaat																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:105589059delT	uc001tlf.1	-	14	1439	c.1221delA	c.(1219-1221)AAAfs	p.K407fs	APPL2_uc010swt.1_Frame_Shift_Del_p.K364fs|APPL2_uc001tlg.1_Frame_Shift_Del_p.K161fs|APPL2_uc010swu.1_Frame_Shift_Del_p.K413fs|APPL2_uc009zuq.2_Frame_Shift_Del_p.K364fs	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH	407	Required for RAB5A binding (By similarity).				cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1						AGCTTTCTTGTTTTTTTCCAA	0.408													20	46	---	---	---	---						.	-	105589059	-	-	105589059	7	5	140	1	0	1	0	1	0	0	0	0	818	1722	60	0	805	0	APPL2	12	105589059	Frame_Shift_Del	DEL	T	TCGA-CG-4465-01A-01D-1158-08	23932031	105589059	28262836	435	75425											
PRDM4	11108	broad.mit.edu	37	chr12	108147777	108147777	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggtgtagtttctttcaggTaacccacacatcacccctcg	9	11	8	13	1	3	0	2	0	1	0	4	0	3	0	3	2	1	3	3	2	2	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:108147777T>C	uc001tmp.2	-	4	692	c.255A>G	c.(253-255)TTA>TTG	p.L85L	PRDM4_uc001tmq.2_RNA	NM_012406	NP_036538	Q9UKN5	PRDM4_HUMAN	PR domain containing 4	85					cell proliferation|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						TTCTTTCAGGTAACCCACACA	0.488													48	73					0	0	0.01441	0	0		C	108147777	C	C	108147777	2	2	140	1	0	0	0	0	0	0	0	1	12481	1635	57	3		3	PRDM4	12	108147777	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	2558718	108147777	25704118	436	75426											
ACACB	32	broad.mit.edu	37	chr12	109690945	109690945	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtttataccatcctggagtgGctgtcctatatgccaaaggt	9	13	10	9	0	0	0	0	0	0	0	2	1	2	1	4	3	2	2	4	3	5	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:109690945G>A	uc001tob.2	+	43	6146	c.6027G>A	c.(6025-6027)TGG>TGA	p.W2009*	ACACB_uc001toc.2_Nonsense_Mutation_p.W2009*|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Nonsense_Mutation_p.W675*	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	2009	Carboxyltransferase.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	TCCTGGAGTGGCTGTCCTATA	0.512													8	289					0	0	0.004482	0	0		A	109690945	A	A	109690945	4	1	140	1	0	0	0	0	0	1	0	0	107	1212	42	2	6193	2	ACACB	12	109690945	Nonsense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1543168	109690945	24160950	437	75427											
PITPNM2	57605	broad.mit.edu	37	chr12	123490022	123490022	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctcccggatgttctcCatgctcagcccataccactc	7	10	6	18	1	2	0	1	0	1	0	6	1	4	1	5	1	4	3	5	1	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:123490022C>A	uc001uej.1	-	6	856	c.717G>T	c.(715-717)ATG>ATT	p.M239I	PITPNM2_uc001uek.1_Missense_Mutation_p.M239I|PITPNM2_uc009zxu.1_Missense_Mutation_p.M239I	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	239					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)		GGATGTTCTCCATGCTCAGCC	0.612													33	187					5.91797e-21	6.73845e-21	0.012213	1	0		A	123490022	A	A	123490022	3	1	140	1	0	0	0	0	1	0	0	0	11970	594	21	5	3412	5	PITPNM2	12	123490022	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	13799077	123490022	10361873	438	75428											
TCTN2	79867	broad.mit.edu	37	chr12	124155800	124155800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctaaggcatgggcttccagCctccggccgctcttcttttg	4	13	10	14	2	3	0	0	0	3	0	5	0	5	0	4	3	1	3	4	3	1	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:124155800C>T	uc001ufp.2	+	1	141	c.13C>T	c.(13-15)CCT>TCT	p.P5S	TCTN2_uc009zya.2_Missense_Mutation_p.P5S	NM_024809	NP_079085	Q96GX1	TECT2_HUMAN	tectonic family member 2 isoform 1	5					cilium assembly|smoothened signaling pathway	integral to membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000163)|Epithelial(86;0.000502)|all cancers(50;0.00451)		GGGCTTCCAGCCTCCGGCCGC	0.632													9	12					0	0	0.006214	0	0		T	124155800	T	T	124155800	3	4	140	1	0	0	0	0	1	0	0	0	15748	739	26	2	15	2	TCTN2	12	124155800	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	665778	124155800	9696095	439	75429											
DNAH10	196385	broad.mit.edu	37	chr12	124265777	124265777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcacagtattcaattaataCgggatgaatttttaatgaac	16	14	6	5	1	2	2	2	2	0	0	2	3	2	3	0	1	2	1	0	1	7	7	rs144283758	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:124265777C>T	uc001uft.3	+	6	614	c.589C>T	c.(589-591)CGG>TGG	p.R197W		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	197	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TCAATTAATACGGGATGAATT	0.403													122	250					0	0	0.01441	0	0		T	124265777	T	T	124265777	3	4	140	1	0	0	0	0	1	0	0	0	4604	527	19	1	611	1	DNAH10	12	124265777	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	109977	124265777	9586118	440	75430											
TMEM132D	121256	broad.mit.edu	37	chr12	129559011	129559011	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgcctgcataaggtcattCccatccatttccccattgct	8	13	6	14	0	1	0	1	0	0	0	4	1	4	0	5	1	3	2	5	1	1	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:129559011C>A	uc009zyl.1	-	9	3037	c.2709G>T	c.(2707-2709)GGG>GGT	p.G903G	TMEM132D_uc001uia.2_Silent_p.G441G	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	903	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TAAGGTCATTCCCATCCATTT	0.507													50	101					4.21674e-32	4.88787e-32	0.01441	1	0		A	129559011	A	A	129559011	2	1	140	1	0	0	0	0	0	0	0	1	16072	842	30	5		5	TMEM132D	12	129559011	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5293234	129559011	4292884	441	75431											
TMEM132D	121256	broad.mit.edu	37	chr12	129559436	129559436	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaccagggtgccttgtcCttctgtttccgcagcaatga	6	13	10	12	1	1	2	0	2	1	0	3	2	3	2	4	1	2	3	4	1	1	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:129559436C>A	uc009zyl.1	-	9	2612	c.2284G>T	c.(2284-2286)GGA>TGA	p.G762*	TMEM132D_uc001uia.2_Nonsense_Mutation_p.G300*	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	762	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GTGCCTTGTCCTTCTGTTTCC	0.473													30	96					2.08457e-15	2.3323e-15	0.010818	1	0		A	129559436	A	A	129559436	4	1	140	1	0	0	0	0	0	1	0	0	16072	690	24	5	1019	5	TMEM132D	12	129559436	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	425	129559436	4292459	442	75432											
RIMBP2	23504	broad.mit.edu	37	chr12	130884319	130884319	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcaggcacttcttccaagaAgtttgagggcacaaggcctt	11	10	10	10	0	2	2	1	1	1	1	3	2	3	2	2	3	0	3	2	3	3	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:130884319A>T	uc001uil.2	-	18	3201	c.3037T>A	c.(3037-3039)TTC>ATC	p.F1013I		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	1013	SH3 3.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		TCTTCCAAGAAGTTTGAGGGC	0.463													5	86					0	0	0.014758	0	0		T	130884319	T	T	130884319	3	4	140	1	0	0	0	0	1	0	0	0	13388	72	3	5	129	5	RIMBP2	12	130884319	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1324883	130884319	2967576	443	75433											
RIMBP2	23504	broad.mit.edu	37	chr12	130898840	130898840	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggagaaaggcggtctcGcccgtaatcgtctgcgagca	8	8	14	11	5	3	1	0	0	3	1	5	3	3	1	1	3	2	2	1	3	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:130898840G>A	uc001uil.2	-	14	2646	c.2482C>T	c.(2482-2484)CGA>TGA	p.R828*		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	828						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		AGGCGGTCTCGCCCGTAATCG	0.567													4	54					0	0	0.009096	0	0		A	130898840	A	A	130898840	4	1	140	1	0	0	0	0	0	1	0	0	13388	1095	38	1	700	1	RIMBP2	12	130898840	Nonsense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	14521	130898840	2953055	444	75434											
EP400	57634	broad.mit.edu	37	chr12	132464315	132464315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtttaagaggcagcaggCgatgccctccacaggtatgg	9	8	13	11	1	0	1	0	0	0	1	1	2	1	1	3	4	2	4	3	4	2	3	rs111485547		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:132464315C>T	uc001ujn.2	+	2	1447	c.1412C>T	c.(1411-1413)GCG>GTG	p.A471V	EP400_uc001ujl.2_Missense_Mutation_p.A470V|EP400_uc001ujm.2_Missense_Mutation_p.A471V|EP400_uc001ujj.1_Missense_Mutation_p.A470V|EP400_uc001ujk.2_Missense_Mutation_p.A507V	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	507					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		AGGCAGCAGGCGATGCCCTCC	0.592													9	21					0	0	0.004482	0	0		T	132464315	T	T	132464315	3	4	140	1	0	0	0	0	1	0	0	0	5157	768	27	1	1415	1	EP400	12	132464315	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1565475	132464315	1387580	445	75435											
EP400	57634	broad.mit.edu	37	chr12	132471349	132471349	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctgacagaacaaataacTctggtaagcatgcttaagaa	17	8	8	8	1	1	3	0	1	1	2	1	3	1	3	0	1	4	4	0	1	6	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:132471349T>G	uc001ujn.2	+	5	2255	c.2220T>G	c.(2218-2220)ACT>ACG	p.T740T	EP400_uc001ujl.2_Silent_p.T739T|EP400_uc001ujm.2_Silent_p.T740T|EP400_uc001ujj.1_Silent_p.T703T|EP400_uc001ujk.2_Silent_p.T776T	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	776					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		AACAAATAACTCTGGTAAGCA	0.463													9	186					0	0	0.004482	0	0		G	132471349	G	G	132471349	2	3	140	1	0	0	0	0	0	0	0	1	5157	1538	54	5		5	EP400	12	132471349	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	7034	132471349	1380546	446	75436											
EP400	57634	broad.mit.edu	37	chr12	132511986	132511986	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttatgcatttgtagttggCgttccgggccgcgtggcggt	3	14	15	9	5	0	0	0	0	0	0	1	0	1	0	2	4	1	4	2	4	2	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr12:132511986C>T	uc001ujn.2	+	25	5054	c.5019C>T	c.(5017-5019)GGC>GGT	p.G1673G	EP400_uc001ujl.2_Silent_p.G1672G|EP400_uc001ujm.2_Silent_p.G1592G	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1709					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		TTGTAGTTGGCGTTCCGGGCC	0.567													18	36					0	0	0.007413	0	0		T	132511986	T	T	132511986	2	4	140	1	0	0	0	0	0	0	0	1	5157	755	27	1		1	EP400	12	132511986	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	40637	132511986	1339909	447	75437											
TNFRSF19	55504	broad.mit.edu	37	chr13	24233283	24233283	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgcagcgctctggccacCgtcctgctggccctgctcat	4	10	10	17	2	3	0	1	0	2	0	4	0	4	0	4	2	4	4	4	2	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr13:24233283C>T	uc001uov.1	+	6	604	c.540C>T	c.(538-540)ACC>ACT	p.T180T	TNFRSF19_uc001uot.2_Silent_p.T180T|TNFRSF19_uc010tcu.1_Silent_p.T48T|TNFRSF19_uc001uow.2_Silent_p.T180T	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	180	Helical; (Potential).				apoptosis|induction of apoptosis|JNK cascade	integral to membrane|mitochondrion	tumor necrosis factor receptor activity			kidney(1)|skin(1)	2		all_cancers(29;3.4e-22)|all_epithelial(30;8.75e-19)|all_lung(29;5.09e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00193)|Epithelial(112;0.0137)|OV - Ovarian serous cystadenocarcinoma(117;0.0465)|GBM - Glioblastoma multiforme(144;0.184)|Lung(94;0.19)		CTCTGGCCACCGTCCTGCTGG	0.547													21	33					0	0	0.007291	0	0		T	24233283	T	T	24233283	2	4	140	1	0	0	0	0	0	0	0	1	16317	639	23	1		1	TNFRSF19	13	24233283	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08		24233283	90936595	448	75438											
SOHLH2	54937	broad.mit.edu	37	chr13	36748962	36748962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttctcccttttacatacGgcaagagagtacgcagctgc	9	12	8	12	2	2	1	0	0	2	1	3	2	2	1	1	1	5	4	1	1	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr13:36748962G>A	uc001uvj.2	-	7	775	c.686C>T	c.(685-687)CCG>CTG	p.P229L	SOHLH2_uc010tei.1_Missense_Mutation_p.P306L	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	229	Helix-loop-helix motif.				cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;4.63e-08)|Epithelial(112;2.67e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|BRCA - Breast invasive adenocarcinoma(63;0.00685)|GBM - Glioblastoma multiforme(144;0.0273)		TTTTACATACGGCAAGAGAGT	0.408													23	86					0	0	0.005443	0	0		A	36748962	A	A	36748962	3	1	140	1	0	0	0	0	1	0	0	0	14949	1116	39	1	611	1	SOHLH2	13	36748962	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	12515679	36748962	78420916	449	75439											
CCNA1	8900	broad.mit.edu	37	chr13	37012966	37012966	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtctgttctgagagggaaActgcagctcgtaggaacagc	11	9	13	8	1	2	1	0	1	2	1	3	4	2	3	0	2	5	4	0	2	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr13:37012966A>G	uc001uvr.3	+	5	1205	c.855A>G	c.(853-855)AAA>AAG	p.K285K	CCNA1_uc010teo.1_Silent_p.K241K|CCNA1_uc010abq.2_Silent_p.K241K|CCNA1_uc010abp.2_Silent_p.K241K|CCNA1_uc001uvs.3_Silent_p.K284K|CCNA1_uc010abr.2_Intron	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	285					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		TGAGAGGGAAACTGCAGCTCG	0.428													43	135					0	0	0.01441	0	0		G	37012966	G	G	37012966	2	3	140	1	0	0	0	0	0	0	0	1	2912	40	2	3		3	CCNA1	13	37012966	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	264004	37012966	78156912	450	75440											
DGKH	160851	broad.mit.edu	37	chr13	42701682	42701682	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttcaaacttcgaggccgCaccctttactatgcaaagga	12	10	7	12	2	1	0	1	0	0	0	2	2	1	1	2	2	4	2	2	2	5	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr13:42701682C>T	uc001uyl.1	+	2	297	c.276C>T	c.(274-276)CGC>CGT	p.R92R	DGKH_uc010tfh.1_Silent_p.R92R|DGKH_uc001uym.1_Silent_p.R92R	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	92	PH.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		TTCGAGGCCGCACCCTTTACT	0.413													22	34					0	0	0.012319	0	0		T	42701682	T	T	42701682	2	4	140	1	0	0	0	0	0	0	0	1	4476	697	25	2		2	DGKH	13	42701682	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	5688716	42701682	72468196	451	75441											
AKAP11	11215	broad.mit.edu	37	chr13	42874486	42874486	+	Frame_Shift_Del	DEL	A	-	-																															taagcatggaaaccttgatcAaaaaaataaatctaaaaata																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr13:42874486delA	uc001uys.1	+	8	1779	c.1604delA	c.(1603-1605)CAAfs	p.Q535fs		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	535					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		AACCTTGATCAAAAAAATAAA	0.289													21	36	---	---	---	---						.	-	42874486	-	-	42874486	7	5	140	1	0	1	0	1	0	0	0	0	447	130	5	0	1626	0	AKAP11	13	42874486	Frame_Shift_Del	DEL	A	TCGA-CG-4465-01A-01D-1158-08	172804	42874486	72295392	452	75442											
CCDC122	160857	broad.mit.edu	37	chr13	44434049	44434049	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatgtcaaatttaagctttAcattttctgaatgtaaggat	13	17	6	5	0	2	1	1	1	1	0	2	2	2	2	0	1	2	2	0	1	6	8			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr13:44434049A>G	uc010acf.2	-	5	573	c.314T>C	c.(313-315)GTA>GCA	p.V105A	CCDC122_uc010tfn.1_Missense_Mutation_p.V105A	NM_144974	NP_659411	Q5T0U0	CC122_HUMAN	coiled-coil domain containing 122	105	Potential.										0		Lung NSC(96;7.5e-06)|Breast(139;0.00765)|Hepatocellular(98;0.00826)|Prostate(109;0.0143)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000767)|BRCA - Breast invasive adenocarcinoma(63;0.128)		TTTAAGCTTTACATTTTCTGA	0.294													38	79					0	0	0.021022	0	0		G	44434049	G	G	44434049	3	3	140	1	0	0	0	0	1	0	0	0	2761	391	14	3	519	3	CCDC122	13	44434049	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1559563	44434049	70735829	453	75443											
PCDH9	5101	broad.mit.edu	37	chr13	67801050	67801050	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaggaggcattcggtccaAgctgataaacaatgtctgca	14	8	11	8	1	1	2	0	1	1	1	3	3	2	3	1	3	3	3	1	3	5	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr13:67801050A>G	uc001vik.2	-	2	2215	c.1523T>C	c.(1522-1524)CTT>CCT	p.L508P	PCDH9_uc001vil.2_Missense_Mutation_p.L508P|PCDH9_uc010thl.1_Missense_Mutation_p.L508P|PCDH9_uc001vin.3_Missense_Mutation_p.L508P	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	508	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		ATTCGGTCCAAGCTGATAAAC	0.413													69	141					0	0	0.01441	0	0		G	67801050	G	G	67801050	3	3	140	1	0	0	0	0	1	0	0	0	11537	72	3	3	2206	3	PCDH9	13	67801050	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	23367001	67801050	47368828	454	75444											
POU4F1	5457	broad.mit.edu	37	chr13	79175974	79175974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtcacgcccagcttgatgCgccgctgcttgaagcgctcc	5	8	12	16	5	1	2	1	2	0	0	2	2	2	2	3	0	4	4	3	0	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr13:79175974C>T	uc001vkv.2	-	2	1070	c.836G>A	c.(835-837)CGC>CAC	p.R279H	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	279	POU-specific.				axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		CAGCTTGATGCGCCGCTGCTT	0.677													7	11					0	0	0.006214	0	0		T	79175974	T	T	79175974	3	4	140	1	0	0	0	0	1	0	0	0	12297	768	27	1	427	1	POU4F1	13	79175974	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	11374924	79175974	35993904	455	75445											
SLITRK5	26050	broad.mit.edu	37	chr13	88328786	88328786	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccaccgcgtgctcttgcaaCctgcagatctctgatctggg	6	10	10	15	2	3	2	0	1	3	1	4	2	3	2	3	1	4	3	3	1	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr13:88328786C>A	uc001vln.2	+	2	1362	c.1143C>A	c.(1141-1143)AAC>AAA	p.N381K	SLITRK5_uc010tic.1_Missense_Mutation_p.N140K	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	381	Extracellular (Potential).|LRRNT.					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GCTCTTGCAACCTGCAGATCT	0.552													25	52					7.92952e-12	8.72022e-12	0.021523	1	0		A	88328786	A	A	88328786	3	1	140	1	0	0	0	0	1	0	0	0	14771	506	18	5	1145	5	SLITRK5	13	88328786	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	9152812	88328786	26841092	456	75446											
GPC5	2262	broad.mit.edu	37	chr13	92101092	92101092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggagagatatcagattgcgGctcgccaggatatgcagcag	12	7	14	8	2	1	2	1	0	0	2	2	5	1	4	1	3	3	3	1	3	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr13:92101092G>A	uc010tif.1	+	2	607	c.241G>A	c.(241-243)GCT>ACT	p.A81T		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	81						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				TCAGATTGCGGCTCGCCAGGA	0.433													12	122					0	0	0.016723	0	0		A	92101092	A	A	92101092	3	1	140	1	0	0	0	0	1	0	0	0	6616	1203	42	2	247	2	GPC5	13	92101092	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3772306	92101092	23068786	457	75447											
ABCC4	10257	broad.mit.edu	37	chr13	95840745	95840745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgaccacagctaacaattCgccaggtctgacagtaaagg	13	6	10	12	2	1	1	0	1	1	0	2	2	1	1	3	2	2	2	3	2	4	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr13:95840745C>T	uc001vmd.3	-	10	1434	c.1315G>A	c.(1315-1317)GAA>AAA	p.E439K	ABCC4_uc010afk.2_Missense_Mutation_p.E439K|ABCC4_uc001vme.2_Missense_Mutation_p.E439K|ABCC4_uc010tih.1_Missense_Mutation_p.E364K|ABCC4_uc001vmf.2_Missense_Mutation_p.E396K|ABCC4_uc010afl.1_Missense_Mutation_p.E396K|ABCC4_uc010afm.1_Missense_Mutation_p.E452K	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	439	ABC transporter 1.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	GCTAACAATTCGCCAGGTCTG	0.453													38	78					0	0	0.006999	0	0		T	95840745	T	T	95840745	3	4	140	1	0	0	0	0	1	0	0	0	55	893	31	1	2799	1	ABCC4	13	95840745	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3739653	95840745	19329133	458	75448											
FARP1	10160	broad.mit.edu	37	chr13	99037041	99037041	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacttagcaaaaaataaatAcatacctcagcaagacgcac	19	6	5	11	1	1	1	1	0	0	1	1	1	1	1	1	0	4	4	1	0	9	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr13:99037041A>G	uc001vnj.2	+	7	890	c.554A>G	c.(553-555)TAC>TGC	p.Y185C	FARP1_uc001vnh.2_Missense_Mutation_p.Y185C	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	185	FERM.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			AAAAATAAATACATACCTCAG	0.408													12	92					0	0	0.013537	0	0		G	99037041	G	G	99037041	3	3	140	1	0	0	0	0	1	0	0	0	5690	391	14	3	799	3	FARP1	13	99037041	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	3196296	99037041	16132837	459	75449											
PARP2	10038	broad.mit.edu	37	chr14	20818769	20818769	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacttcagtgtttggatgAgatggggccgaggtaatgat	10	11	16	4	1	1	2	1	2	0	1	1	6	1	4	1	5	1	2	1	5	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:20818769A>G	uc001vxc.2	+	5	476	c.448A>G	c.(448-450)AGA>GGA	p.R150G	PARP2_uc001vxd.2_Missense_Mutation_p.R137G|PARP2_uc001vxb.1_Missense_Mutation_p.R150G	NM_005484	NP_005475	Q9UGN5	PARP2_HUMAN	poly (ADP-ribose) polymerase family, member 2	150					protein ADP-ribosylation	nucleolus|nucleoplasm	DNA binding|NAD+ ADP-ribosyltransferase activity			ovary(1)|pancreas(1)	2	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;5.34e-07)|all cancers(55;3.7e-06)	GBM - Glioblastoma multiforme(265;0.00888)|READ - Rectum adenocarcinoma(17;0.0649)		TGTTTGGATGAGATGGGGCCG	0.403								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					45	71					0	0	0.010771	0	0		G	20818769	G	G	20818769	3	3	140	1	0	0	0	0	1	0	0	0	11480	296	11	3	466	3	PARP2	14	20818769	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08		20818769	86530771	460	75450											
TEP1	7011	broad.mit.edu	37	chr14	20841176	20841176	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacaccgactcacctgtgcTgtggccacagccttagcttc	7	10	9	15	1	1	0	1	0	0	0	2	1	1	0	4	1	4	3	4	1	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:20841176T>G	uc001vxe.2	-	48	6985	c.6945A>C	c.(6943-6945)ACA>ACC	p.T2315T	TEP1_uc010ahj.1_RNA|TEP1_uc010ahk.2_Silent_p.T1658T|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Silent_p.T2207T|TEP1_uc010tlh.1_Silent_p.T653T	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	2315	WD 16.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		TCACCTGTGCTGTGGCCACAG	0.532													3	68					0	0	0.004672	0	0		G	20841176	G	G	20841176	2	3	140	1	0	0	0	0	0	0	0	1	15784	1567	55	5		5	TEP1	14	20841176	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	22407	20841176	86508364	461	75451											
PNP	4860	broad.mit.edu	37	chr14	20942680	20942680	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttcctgaatggcagggcCtgtgtgatgatgcagggcag	7	9	18	7	0	0	3	0	3	0	0	1	3	1	3	2	4	1	4	2	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:20942680C>A	uc001vxo.3	+	3	373	c.231C>A	c.(229-231)GCC>GCA	p.A77A	PNP_uc010ahn.2_Silent_p.A77A|PNP_uc001vxn.3_Translation_Start_Site	NM_000270	NP_000261	P00491	PNPH_HUMAN	nucleoside phosphorylase	77					immune response|inosine catabolic process|interleukin-2 secretion|NAD biosynthesis via nicotinamide riboside salvage pathway|nicotinamide riboside catabolic process|positive regulation of alpha-beta T cell differentiation|positive regulation of T cell proliferation|purine base metabolic process|purine nucleotide catabolic process|purine-containing compound salvage|response to drug|urate biosynthetic process	cytoskeleton|cytosol	drug binding|nucleoside binding|phosphate binding|purine base binding|purine-nucleoside phosphorylase activity			ovary(2)	2					Aciclovir(DB00787)|Cladribine(DB00242)|Mercaptopurine(DB01033)	ATGGCAGGGCCTGTGTGATGA	0.473													20	60					2.89027e-11	3.16944e-11	0.014323	1	0		A	20942680	A	A	20942680	2	1	140	1	0	0	0	0	0	0	0	1	12182	668	24	5		5	PNP	14	20942680	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	101504	20942680	86406860	462	75452											
EFS	10278	broad.mit.edu	37	chr14	23829429	23829429	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtcaggagagggtgggCaaggtccagctggaggtcct	8	7	19	7	0	1	2	1	1	0	1	3	4	3	3	2	7	1	2	2	7	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:23829429C>A	uc001wjo.2	-	3	967	c.359G>T	c.(358-360)TGC>TTC	p.C120F	EFS_uc001wjp.2_Missense_Mutation_p.C27F|EFS_uc010tnm.1_Missense_Mutation_p.C27F	NM_005864	NP_005855	O43281	EFS_HUMAN	embryonal Fyn-associated substrate isoform 1	120	Pro-rich.				cell adhesion|intracellular signal transduction	cytoplasm	SH3 domain binding			large_intestine(1)	1	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00649)		AGAGGGTGGGCAAGGTCCAGC	0.612													42	96					3.77016e-25	4.32476e-25	0.013114	1	0		A	23829429	A	A	23829429	3	1	140	1	0	0	0	0	1	0	0	0	4965	710	25	5	1342	5	EFS	14	23829429	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2886749	23829429	83520111	463	75453											
NPAS3	64067	broad.mit.edu	37	chr14	34269602	34269602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttcccgtccccgcagggcGgcggcggtgggggtggcggt	2	6	20	13	6	0	0	0	0	0	0	2	0	2	0	3	8	0	1	3	8	0	1	rs141427321	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:34269602G>A	uc001wru.2	+	12	2153	c.2089G>A	c.(2089-2091)GGC>AGC	p.G697S	NPAS3_uc001wrs.2_Missense_Mutation_p.G684S|NPAS3_uc001wrt.2_Missense_Mutation_p.G665S|NPAS3_uc001wrv.2_Missense_Mutation_p.G667S	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	697	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		CCCGCAGGGCGGCGGCGGTGG	0.572													35	36					0	0	0.013726	0	0		A	34269602	A	A	34269602	3	1	140	1	0	0	0	0	1	0	0	0	10583	1116	39	1	2190	1	NPAS3	14	34269602	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	10440173	34269602	73079938	464	75454											
SSTR1	6751	broad.mit.edu	37	chr14	38679277	38679277	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcttcgtgttgtacacatTtctcatgggcttcctgctgc	4	15	11	11	1	1	0	1	0	1	0	4	0	2	0	1	2	3	5	1	2	1	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:38679277T>C	uc001wul.1	+	3	1300	c.683T>C	c.(682-684)TTT>TCT	p.F228S	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	228	Helical; Name=5; (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	TTGTACACATTTCTCATGGGC	0.617													15	43					0	0	0.00499	0	0		C	38679277	C	C	38679277	3	2	140	1	0	0	0	0	1	0	0	0	15222	1841	64	3	685	3	SSTR1	14	38679277	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	4409675	38679277	68670263	465	75455											
MGAT2	4247	broad.mit.edu	37	chr14	50088621	50088621	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgaaattggggtgcatcaAtgctgagtatcccgactcct	9	13	10	9	1	1	2	1	2	0	0	3	3	3	2	2	2	2	3	2	2	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:50088621A>G	uc001wwr.2	+	1	1133	c.635A>G	c.(634-636)AAT>AGT	p.N212S	SDCCAG1_uc010anj.1_Intron|RPL36AL_uc001wwq.1_5'Flank	NM_002408	NP_002399	Q10469	MGAT2_HUMAN	mannosyl (alpha-1,6-)-glycoprotein	212	Lumenal (Potential).				oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	alpha-1,6-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity				0	all_epithelial(31;0.0021)|Breast(41;0.0124)					GGGTGCATCAATGCTGAGTAT	0.493													61	114					0	0	0.01441	0	0		G	50088621	G	G	50088621	3	3	140	1	0	0	0	0	1	0	0	0	9561	101	4	3	637	3	MGAT2	14	50088621	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	11409344	50088621	57260919	466	75456											
GPR135	64582	broad.mit.edu	37	chr14	59930741	59930741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtccggtagccctcctcgcGgttgcgccctaggagcatcg	5	8	13	15	5	0	0	0	0	0	0	4	1	2	1	4	3	3	3	4	3	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:59930741G>A	uc010apj.2	-	1	1319	c.1204C>T	c.(1204-1206)CGC>TGC	p.R402C	GPR135_uc001xed.2_RNA	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	402	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		CCCTCCTCGCGGTTGCGCCCT	0.632													3	72					0	0	0.014758	0	0		A	59930741	A	A	59930741	3	1	140	1	0	0	0	0	1	0	0	0	6659	1116	39	1	284	1	GPR135	14	59930741	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	9842120	59930741	47418799	467	75457											
ZFYVE26	23503	broad.mit.edu	37	chr14	68238816	68238816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatactctcagtctcatccGgtacccactggtgcctggca	8	10	9	14	1	2	1	2	0	2	1	5	1	3	1	3	3	3	2	3	3	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:68238816G>A	uc001xka.2	-	28	5571	c.5432C>T	c.(5431-5433)CCG>CTG	p.P1811L	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.P1811L	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1811					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		AGTCTCATCCGGTACCCACTG	0.562													8	22					0	0	0.004482	0	0		A	68238816	A	A	68238816	3	1	140	1	0	0	0	0	1	0	0	0	17693	1116	39	1	2247	1	ZFYVE26	14	68238816	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	8308075	68238816	39110724	468	75458											
AHSA1	10598	broad.mit.edu	37	chr14	77935519	77935519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctgaggaagagcggaCgcgacagggctggcagcggt	8	5	18	10	4	0	2	0	1	0	1	1	5	1	4	1	5	3	3	1	5	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:77935519C>T	uc001xtw.2	+	9	1104	c.944C>T	c.(943-945)ACG>ATG	p.T315M		NM_012111	NP_036243	O95433	AHSA1_HUMAN	activator of heat shock 90kDa protein ATPase	315					protein folding|response to stress	cytosol|endoplasmic reticulum	ATPase activator activity|chaperone binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		GAAGAGCGGACGCGACAGGGC	0.577													65	177					0	0	0.01441	0	0		T	77935519	T	T	77935519	3	4	140	1	0	0	0	0	1	0	0	0	418	536	19	1	978	1	AHSA1	14	77935519	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	9696703	77935519	29414021	469	75459											
CATSPERB	79820	broad.mit.edu	37	chr14	92058236	92058236	+	Frame_Shift_Del	DEL	T	-	-																															gtaattagaaatgatcttacTttttccctgcaatccgagaa																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:92058236delT	uc001xzs.1	-	23	2960	c.2820delA	c.(2818-2820)AAAfs	p.K940fs	CATSPERB_uc010aub.1_Frame_Shift_Del_p.K462fs	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	940					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				ATGATCTTACTTTTTCCCTGC	0.348													61	133	---	---	---	---						.	-	92058236	-	-	92058236	7	5	140	1	0	1	0	1	0	0	0	0	2694	1623	56	0	550	0	CATSPERB	14	92058236	Frame_Shift_Del	DEL	T	TCGA-CG-4465-01A-01D-1158-08	14122717	92058236	15291304	470	75460											
KIAA1409	57578	broad.mit.edu	37	chr14	93954017	93954017	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggttgcagtgggctccTcaaggagagaaggtgtacct	8	12	14	7	0	1	1	1	0	0	1	2	3	2	2	2	4	2	4	2	4	3	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:93954017T>C	uc001ybv.1	+	2	180	c.97T>C	c.(97-99)TCA>CCA	p.S33P	KIAA1409_uc001ybs.1_Missense_Mutation_p.S33P|KIAA1409_uc001ybu.1_Missense_Mutation_p.S33P	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	210						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		AGTGGGCTCCTCAAGGAGAGA	0.408													41	82					0	0	0.010771	0	0		C	93954017	C	C	93954017	3	2	140	1	0	0	0	0	1	0	0	0	8246	1551	54	3	103	3	KIAA1409	14	93954017	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	1895781	93954017	13395523	471	75461											
C14orf177	283598	broad.mit.edu	37	chr14	99182697	99182697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagacataacaagcagcatGccctgacgctcaccaaggcc	14	5	8	14	1	1	2	1	1	0	1	1	2	1	2	3	1	4	3	3	1	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:99182697G>A	uc001yfz.1	+	3	588	c.169G>A	c.(169-171)GCC>ACC	p.A57T		NM_182560	NP_872366	Q52M58	CN177_HUMAN	hypothetical protein LOC283598	57											0		Melanoma(154;0.128)				CAAGCAGCATGCCCTGACGCT	0.478													8	25					0	0	0.006214	0	0		A	99182697	A	A	99182697	3	1	140	1	0	0	0	0	1	0	0	0	1763	1319	46	2	171	2	C14orf177	14	99182697	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	5228680	99182697	8166843	472	75462											
INF2	64423	broad.mit.edu	37	chr14	105174185	105174185	+	Frame_Shift_Del	DEL	C	-	-																															ctactgccctgcacctgcagCccccccgtggcgggaggcat																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr14:105174185delC	uc001ypb.2	+	8	1724	c.1581delC	c.(1579-1581)AGCfs	p.S527fs	INF2_uc010tyi.1_Frame_Shift_Del_p.S527fs|INF2_uc001ypc.2_Frame_Shift_Del_p.S527fs|INF2_uc010awz.1_RNA	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	527					actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)		GCACCTGCAGCCCCCCCGTGG	0.562													8	17	---	---	---	---						.	-	105174185	-	-	105174185	7	5	140	1	0	1	0	1	0	0	0	0	7750	738	26	0	1611	0	INF2	14	105174185	Frame_Shift_Del	DEL	C	TCGA-CG-4465-01A-01D-1158-08	5991488	105174185	2175355	473	75463											
HERC2	8924	broad.mit.edu	37	chr15	28473458	28473458	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctgcagggtgagcatgctGagcatcaccaggaggaagcg	10	6	16	9	1	1	2	1	2	0	0	1	4	1	4	1	3	6	5	1	3	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:28473458G>A	uc001zbj.2	-	35	5476	c.5370C>T	c.(5368-5370)CTC>CTT	p.L1790L		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1790					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TGAGCATGCTGAGCATCACCA	0.612													21	36					0	0	0.010504	0	0		A	28473458	A	A	28473458	2	1	140	1	0	0	0	0	0	0	0	1	7074	1277	45	4		4	HERC2	15	28473458	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08		28473458	74057934	474	75464											
CHRNA7	1139	broad.mit.edu	37	chr15	32460285	32460285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgtggcgccgccgcccGccagcaacgggaacctgctg	5	3	15	18	7	0	0	0	0	0	0	0	1	0	1	6	2	4	2	6	2	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:32460285G>A	uc001zft.2	+	10	1207	c.1135G>A	c.(1135-1137)GCC>ACC	p.A379T	uc001zfv.1_Intron|CHRNA7_uc010baf.2_Missense_Mutation_p.A198T|CHRNA7_uc010bak.2_Missense_Mutation_p.A294T	NM_000746	NP_000737	P36544	ACHA7_HUMAN	cholinergic receptor, nicotinic, alpha 7	379	Cytoplasmic (Potential).				activation of MAPK activity|calcium ion transport|cellular calcium ion homeostasis|memory|negative regulation of tumor necrosis factor production|positive regulation of angiogenesis|positive regulation of cell proliferation|response to hypoxia|response to nicotine	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|beta-amyloid binding|chloride channel regulator activity|nicotinic acetylcholine-activated cation-selective channel activity|protein homodimerization activity|toxin binding			ovary(1)	1		all_lung(180;6.35e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)	Nicotine(DB00184)|Varenicline(DB01273)	GCCGCCGCCCGCCAGCAACGG	0.716													15	28					0	0	0.021523	0	0		A	32460285	A	A	32460285	3	1	140	1	0	0	0	0	1	0	0	0	3391	1087	38	1	1173	1	CHRNA7	15	32460285	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3986827	32460285	70071107	475	75465											
FMN1	342184	broad.mit.edu	37	chr15	33359423	33359423	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctctgtctgaagaccaccGttgccagcttccagtttgct	6	12	9	14	2	2	2	0	1	2	1	3	2	3	2	4	0	3	5	4	0	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:33359423G>A	uc001zhf.3	-	1	663	c.663C>T	c.(661-663)AAC>AAT	p.N221N	FMN1_uc001zhg.2_Silent_p.N221N	NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	Error:Variant_position_missing_in_Q68DA7_after_alignment					actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		GAAGACCACCGTTGCCAGCTT	0.527													31	51					0	0	0.009535	0	0		A	33359423	A	A	33359423	2	1	140	1	0	0	0	0	0	0	0	1	5963	1136	40	1		1	FMN1	15	33359423	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	899138	33359423	69171969	476	75466											
FAM98B	283742	broad.mit.edu	37	chr15	38773701	38773701	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtggaaaatgaattgatgaTatcttacttaatgtttttac	14	17	7	3	0	1	3	0	3	1	0	1	4	1	4	0	1	2	1	0	1	7	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:38773701T>C	uc001zkb.1	+	7	973	c.938T>C	c.(937-939)ATA>ACA	p.I313T	FAM98B_uc001zkc.2_Intron	NM_001042429	NP_001035894	Q52LJ0	FA98B_HUMAN	family with sequence similarity 98, member B	313						tRNA-splicing ligase complex	protein binding			ovary(1)	1		all_cancers(109;3.11e-17)|all_epithelial(112;2.64e-15)|Lung NSC(122;2.11e-11)|all_lung(180;5.61e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;9e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0209)		GAATTGATGATATCTTACTTA	0.383													18	40					0	0	0.007413	0	0		C	38773701	C	C	38773701	3	2	140	1	0	0	0	0	1	0	0	0	5671	1406	49	3	964	3	FAM98B	15	38773701	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	5414278	38773701	63757691	477	75467											
MAPKBP1	23005	broad.mit.edu	37	chr15	42105829	42105829	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcccacagaccacagtggCccactgcatctctgtgagcc	8	7	9	17	0	1	2	0	1	1	1	2	2	1	2	4	1	3	1	4	1	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:42105829C>A	uc001zok.3	+	10	1134	c.848C>A	c.(847-849)GCC>GAC	p.A283D	MAPKBP1_uc001zoj.3_Missense_Mutation_p.A277D|MAPKBP1_uc010bcj.2_5'UTR|MAPKBP1_uc010bci.2_Missense_Mutation_p.A277D|MAPKBP1_uc010udb.1_Missense_Mutation_p.A165D|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_Intron	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	283	WD 4.									central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		ACCACAGTGGCCCACTGCATC	0.582													10	129					1.76689e-08	1.8945e-08	0.006214	1	0		A	42105829	A	A	42105829	3	1	140	1	0	0	0	0	1	0	0	0	9310	739	26	5	882	5	MAPKBP1	15	42105829	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3332128	42105829	60425563	478	75468											
PLA2G4D	283748	broad.mit.edu	37	chr15	42371822	42371822	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagcccgcagctccagctcCcggcggtagctcgccaggcg	5	5	13	18	5	1	0	1	0	0	0	4	0	3	0	4	3	4	5	4	3	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:42371822C>A	uc001zox.2	-	13	1325	c.1230G>T	c.(1228-1230)CGG>CGT	p.R410R		NM_178034	NP_828848	Q86XP0	PA24D_HUMAN	phospholipase A2, group IVD	410	PLA2c.				phospholipid catabolic process	cytoplasmic vesicle membrane|cytosol	metal ion binding|phospholipase A2 activity			large_intestine(1)|skin(1)	2		all_cancers(109;6.37e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.019)|Ovarian(310;0.143)|Colorectal(260;0.245)		OV - Ovarian serous cystadenocarcinoma(18;4.9e-17)|GBM - Glioblastoma multiforme(94;1.02e-06)		GCTCCAGCTCCCGGCGGTAGC	0.677													12	29					1.05317e-09	1.14353e-09	0.020292	1	0		A	42371822	A	A	42371822	2	1	140	1	0	0	0	0	0	0	0	1	12023	610	22	5		5	PLA2G4D	15	42371822	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	265993	42371822	60159570	479	75469											
LIPC	3990	broad.mit.edu	37	chr15	58838067	58838067	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggcctgagcgtgggcaTcaaacagcccataggacact	11	6	12	12	1	1	1	1	1	0	0	1	2	1	2	2	3	3	1	2	3	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:58838067T>C	uc010bga.1	+	7	1309	c.701T>C	c.(700-702)ATC>ACC	p.I234T	LIPC_uc010bfz.1_Missense_Mutation_p.I234T|LIPC_uc002afa.1_Missense_Mutation_p.I234T|LIPC_uc010bgb.1_Missense_Mutation_p.I132T|LIPC_uc010ugy.1_Missense_Mutation_p.I173T	NM_000236	NP_000227	P11150	LIPC_HUMAN	lipase C precursor	234					cholesterol homeostasis|chylomicron remnant clearance|fatty acid biosynthetic process|high-density lipoprotein particle remodeling|intermediate-density lipoprotein particle remodeling|low-density lipoprotein particle remodeling|phosphatidylcholine catabolic process|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein binding|heparin binding|low-density lipoprotein particle binding|phospholipase activity|triglyceride lipase activity			ovary(1)	1		Colorectal(260;0.215)		GBM - Glioblastoma multiforme(80;0.00213)|all cancers(107;0.00548)		AGCGTGGGCATCAAACAGCCC	0.552													11	136					0	0	0.016723	0	0		C	58838067	C	C	58838067	3	2	140	1	0	0	0	0	1	0	0	0	8837	1435	50	3	719	3	LIPC	15	58838067	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	16466245	58838067	43693325	480	75470											
RAB8B	51762	broad.mit.edu	37	chr15	63551864	63551864	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attaaattcttggagacaagCgcaaaatccagtgcaaatgt	16	10	8	7	1	1	1	0	0	1	1	2	2	2	1	1	1	2	2	1	1	6	3	rs138589907		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:63551864C>T	uc002alz.2	+	6	549	c.453C>T	c.(451-453)AGC>AGT	p.S151S	RAB8B_uc010uih.1_Silent_p.S151S	NM_016530	NP_057614	Q92930	RAB8B_HUMAN	RAB8B, member RAS oncogene family	151					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(1)|kidney(1)	2						TGGAGACAAGCGCAAAATCCA	0.388													16	52					0	0	0.007413	0	0		T	63551864	T	T	63551864	2	4	140	1	0	0	0	0	0	0	0	1	12982	767	27	1		1	RAB8B	15	63551864	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4713797	63551864	38979528	481	75471											
MAN2C1	4123	broad.mit.edu	37	chr15	75651071	75651071	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggtggtagtccatgacGtcccatgcatcccagtacaa	10	9	9	13	1	0	1	0	1	0	0	4	1	4	1	4	2	2	3	4	2	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:75651071G>A	uc002baf.2	-	19	2237	c.2220C>T	c.(2218-2220)GAC>GAT	p.D740D	MAN2C1_uc002bag.2_Silent_p.D740D|MAN2C1_uc002bah.2_Silent_p.D757D|MAN2C1_uc010bkk.2_Silent_p.D641D	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	740					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						AGTCCATGACGTCCCATGCAT	0.577													14	24					0	0	0.00499	0	0		A	75651071	A	A	75651071	2	1	140	1	0	0	0	0	0	0	0	1	9236	1136	40	1		1	MAN2C1	15	75651071	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	12099207	75651071	26880321	482	75472											
BNC1	646	broad.mit.edu	37	chr15	83935708	83935708	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtaggatttttaggcgaacGgggatggcctgggtcccata	9	10	15	7	2	0	0	0	0	0	0	1	3	1	2	2	6	1	1	2	6	4	5	rs140144251	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:83935708G>A	uc002bjt.1	-	3	403	c.315C>T	c.(313-315)CCC>CCT	p.P105P	BNC1_uc010uos.1_Silent_p.P93P	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	105					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						TTAGGCGAACGGGGATGGCCT	0.507													38	59					0	0	0.005524	0	0		A	83935708	A	A	83935708	2	1	140	1	0	0	0	0	0	0	0	1	1475	1103	39	1		1	BNC1	15	83935708	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	8284637	83935708	18595684	483	75473											
ZSCAN2	54993	broad.mit.edu	37	chr15	85165031	85165031	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctacaaatgcctcatgtgCggcaagagcttcagccgggg	9	7	12	13	2	2	1	2	0	0	1	2	1	2	1	3	3	5	2	3	3	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:85165031C>T	uc002bkr.2	+	3	1831	c.1605C>T	c.(1603-1605)TGC>TGT	p.C535C	ZSCAN2_uc010bmz.1_Silent_p.C533C|ZSCAN2_uc010bna.2_Silent_p.C385C|ZSCAN2_uc010uox.1_Intron|ZSCAN2_uc010uoy.1_Intron|ZSCAN2_uc010uoz.1_Intron	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	535	C2H2-type 12.				cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		GCCTCATGTGCGGCAAGAGCT	0.587													64	139					0	0	0.01441	0	0		T	85165031	T	T	85165031	2	4	140	1	0	0	0	0	0	0	0	1	18256	776	27	1		1	ZSCAN2	15	85165031	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1229323	85165031	17366361	484	75474											
MRPS11	64963	broad.mit.edu	37	chr15	89010975	89010975	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgagaaacgcggggtcGcggttcctgcggtcctggac	5	8	17	11	5	0	1	0	1	0	1	3	3	2	2	2	5	2	2	2	5	1	1	rs2289417	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:89010975G>A	uc002bml.2	+	1	292	c.27G>A	c.(25-27)TCG>TCA	p.S9S	MRPL46_uc002bmi.1_5'Flank|MRPL46_uc002bmj.2_5'Flank|MRPL46_uc002bmk.2_5'Flank|MRPS11_uc002bmm.2_Silent_p.S9S|MRPS11_uc002bmn.2_Silent_p.S9S|MRPS11_uc010bnj.2_RNA	NM_022839	NP_073750	P82912	RT11_HUMAN	mitochondrial ribosomal protein S11 isoform a	9					DNA damage response, detection of DNA damage|translation	mitochondrial small ribosomal subunit	structural constituent of ribosome				0	Lung NSC(78;0.203)		BRCA - Breast invasive adenocarcinoma(143;0.188)			ACGCGGGGTCGCGGTTCCTGC	0.627													5	60					0	0	0.014758	0	0		A	89010975	A	A	89010975	2	1	140	1	0	0	0	0	0	0	0	1	9840	1074	38	1		1	MRPS11	15	89010975	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3845944	89010975	13520417	485	75475											
FANCI	55215	broad.mit.edu	37	chr15	89811680	89811680	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgaacttcgtcatgtggaagGcaccattattctacacattg	11	13	8	9	1	2	1	1	1	1	0	3	2	2	2	1	2	2	1	1	2	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:89811680G>T	uc010bnp.1	+	10	896	c.806G>T	c.(805-807)GGC>GTC	p.G269V	FANCI_uc002bnm.1_Missense_Mutation_p.G269V|FANCI_uc002bnn.1_RNA|FANCI_uc002bnp.1_Missense_Mutation_p.G90V	NM_001113378	NP_001106849	Q9NVI1	FANCI_HUMAN	Fanconi anemia, complementation group I isoform	269					cell cycle|DNA repair	nucleoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					CATGTGGAAGGCACCATTATT	0.358								Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				11	241					0.000673444	0.000691355	0.008291	1	0		T	89811680	T	T	89811680	3	4	140	1	0	0	0	0	1	0	0	0	5683	1203	42	5	840	5	FANCI	15	89811680	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	800705	89811680	12719712	486	75476											
IQGAP1	8826	broad.mit.edu	37	chr15	91037956	91037956	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttacagagtctccaaaaAgcctagggaaatgaaaggaa	17	9	9	6	0	1	2	0	1	1	1	2	4	1	4	2	2	2	0	2	2	7	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:91037956A>G	uc002bpl.1	+	36	4741	c.4640A>G	c.(4639-4641)AAG>AGG	p.K1547R	IQGAP1_uc010uqg.1_Missense_Mutation_p.K168R	NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1547	C2.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			GTCTCCAAAAAGCCTAGGGAA	0.363													15	100					0	0	0.020292	0	0		G	91037956	G	G	91037956	3	3	140	1	0	0	0	0	1	0	0	0	7830	72	3	3	4782	3	IQGAP1	15	91037956	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1226276	91037956	11493436	487	75477											
RGMA	56963	broad.mit.edu	37	chr15	93588281	93588281	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacgagggcgcccaggagggGccggggggccaggggcagcc	6	0	23	12	3	0	0	0	0	0	0	0	3	0	1	4	9	1	1	4	9	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:93588281G>C	uc002bss.1	-	4	1572	c.1300C>G	c.(1300-1302)CCC>GCC	p.P434A	RGMA_uc002bsq.1_Missense_Mutation_p.P418A|RGMA_uc010boi.1_Missense_Mutation_p.P325A|RGMA_uc002bsr.1_Missense_Mutation_p.P325A|RGMA_uc010urc.1_Missense_Mutation_p.P442A	NM_020211	NP_064596	Q96B86	RGMA_HUMAN	RGM domain family, member A precursor	434					axon guidance	anchored to membrane|endoplasmic reticulum|plasma membrane					0	Lung NSC(78;0.0542)|all_lung(78;0.0786)		BRCA - Breast invasive adenocarcinoma(143;0.0312)|OV - Ovarian serous cystadenocarcinoma(32;0.108)			CCCAGGAGGGGCCGGGGGGCC	0.677													10	3					0	0	0.013537	0	0		C	93588281	C	C	93588281	3	2	140	1	0	0	0	0	1	0	0	0	13305	1203	42	5	56	5	RGMA	15	93588281	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2550325	93588281	8943111	488	75478											
SYNM	23336	broad.mit.edu	37	chr15	99672605	99672605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagcactgtgcacggagaggGctcagcagatgtgcaccagg	10	5	16	10	1	1	2	1	0	0	2	1	4	1	2	1	3	4	5	1	3	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:99672605G>A	uc002bup.2	+	6	4160	c.4040G>A	c.(4039-4041)GGC>GAC	p.G1347D	SYNM_uc002buo.2_Intron|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	1347	Tail.|Interaction with DMD and UTRN.|Interaction with TLN1 and VCL.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						CACGGAGAGGGCTCAGCAGAT	0.547													45	73					0	0	0.00874	0	0		A	99672605	A	A	99672605	3	1	140	1	0	0	0	0	1	0	0	0	15480	1203	42	2	4053	2	SYNM	15	99672605	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	6084324	99672605	2858787	489	75479											
ADAMTS17	170691	broad.mit.edu	37	chr15	100649263	100649263	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaccgtccaggaccctgtcGgccaccagcagtggggactc	7	6	13	15	2	0	0	0	0	0	0	3	2	1	2	5	4	2	2	5	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr15:100649263G>A	uc002bvv.1	-	14	2026	c.1947C>T	c.(1945-1947)GCC>GCT	p.A649A	ADAMTS17_uc002bvx.1_Silent_p.A406A	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	649	Cys-rich.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		GGACCCTGTCGGCCACCAGCA	0.612													11	33					0	0	0.003163	0	0		A	100649263	A	A	100649263	2	1	140	1	0	0	0	0	0	0	0	1	262	1103	39	1		1	ADAMTS17	15	100649263	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	976658	100649263	1882129	490	75480											
MPG	4350	broad.mit.edu	37	chr16	135493	135493	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccctccggaaaggcaccgCcagccgtgtcctcaaggacc	9	4	10	18	3	1	0	1	0	0	0	3	2	3	2	7	3	1	1	7	3	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:135493C>A	uc002cfn.2	+	5	932	c.614C>A	c.(613-615)GCC>GAC	p.A205D	MPG_uc002cfm.2_Missense_Mutation_p.A188D|MPG_uc002cfo.2_Missense_Mutation_p.A200D|NPRL3_uc010uua.1_Intron|NPRL3_uc002cfp.1_Intron	NM_002434	NP_002425	P29372	3MG_HUMAN	N-methylpurine-DNA glycosylase isoform a	205					depurination|DNA dealkylation involved in DNA repair	nucleoplasm	alkylbase DNA N-glycosylase activity|damaged DNA binding|identical protein binding			ovary(1)|skin(1)	2		all_cancers(16;9.01e-08)|all_epithelial(16;7.64e-07)|Hepatocellular(780;0.000325)|Lung NSC(18;0.0104)|all_lung(18;0.0239)				AAAGGCACCGCCAGCCGTGTC	0.657								BER_DNA_glycosylases					24	35					1.45844e-13	1.61537e-13	0.013726	1	0		A	135493	A	A	135493	3	1	140	1	0	0	0	0	1	0	0	0	9742	739	26	5	656	5	MPG	16	135493	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08		135493	90219260	491	75481											
MPG	4350	broad.mit.edu	37	chr16	135720	135720	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccctccgcttctatgtccggGgcagcccctgggtcagtgtg	3	10	13	15	2	2	0	1	0	1	0	4	0	4	0	5	3	1	2	5	3	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:135720G>T	uc002cfn.2	+	5	1159	c.841G>T	c.(841-843)GGC>TGC	p.G281C	MPG_uc002cfm.2_Missense_Mutation_p.G264C|MPG_uc002cfo.2_Missense_Mutation_p.G276C|NPRL3_uc010uua.1_Intron|NPRL3_uc002cfp.1_Intron	NM_002434	NP_002425	P29372	3MG_HUMAN	N-methylpurine-DNA glycosylase isoform a	281					depurination|DNA dealkylation involved in DNA repair	nucleoplasm	alkylbase DNA N-glycosylase activity|damaged DNA binding|identical protein binding			ovary(1)|skin(1)	2		all_cancers(16;9.01e-08)|all_epithelial(16;7.64e-07)|Hepatocellular(780;0.000325)|Lung NSC(18;0.0104)|all_lung(18;0.0239)				CTATGTCCGGGGCAGCCCCTG	0.622								BER_DNA_glycosylases					6	19					0.00621372	0.00632848	0.006214	1	0		T	135720	T	T	135720	3	4	140	1	0	0	0	0	1	0	0	0	9742	1232	43	5	883	5	MPG	16	135720	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	227	135720	90219033	492	75482											
PDIA2	64714	broad.mit.edu	37	chr16	335661	335661	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctgtcaccgcagcgtcCatcactgctttctgccatgc	5	10	9	17	2	3	0	2	0	1	0	4	0	4	0	4	1	4	2	4	1	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:335661C>A	uc002cgn.1	+	12	2185	c.1077C>A	c.(1075-1077)TCC>TCA	p.S359S	PDIA2_uc010bqt.1_Silent_p.S204S|PDIA2_uc002cgo.1_Silent_p.S359S	NM_006849	NP_006840	Q13087	PDIA2_HUMAN	protein disulfide isomerase A2 precursor	359					apoptosis|cell redox homeostasis|glycerol ether metabolic process|protein folding|protein retention in ER lumen|response to hypoxia	endoplasmic reticulum lumen	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity|steroid binding			central_nervous_system(1)|skin(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				CCGCAGCGTCCATCACTGCTT	0.582													18	46					1.22574e-08	1.31609e-08	0.014323	1	0		A	335661	A	A	335661	2	1	140	1	0	0	0	0	0	0	0	1	11687	581	21	5		5	PDIA2	16	335661	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	199941	335661	90019092	493	75483											
TMEM204	79652	broad.mit.edu	37	chr16	1584349	1584349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcatcctcaacaacgtggcgGccttcacctccaactgggtg	8	9	9	15	2	3	0	3	0	0	0	5	0	5	0	4	3	3	0	4	3	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:1584349G>A	uc002cmc.2	+	2	471	c.73G>A	c.(73-75)GCC>ACC	p.A25T	IFT140_uc002clz.2_Intron|IFT140_uc002cmb.2_Intron|TMEM204_uc002cmd.2_Missense_Mutation_p.A25T|TMEM204_uc010brr.1_Missense_Mutation_p.A25T	NM_024600	NP_078876	Q9BSN7	TM204_HUMAN	transmembrane protein 204	25	Helical; (Potential).				response to stress	adherens junction|integral to membrane					0		Hepatocellular(780;0.219)				CAACGTGGCGGCCTTCACCTC	0.692													23	70					0	0	0.004656	0	0		A	1584349	A	A	1584349	3	1	140	1	0	0	0	0	1	0	0	0	16154	1203	42	2	75	2	TMEM204	16	1584349	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1248688	1584349	88770404	494	75484											
IFT140	9742	broad.mit.edu	37	chr16	1652483	1652483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctgcttgttaaacaccGtcacttctccagtctcccag	7	13	6	15	1	3	0	1	0	2	0	6	0	4	0	4	0	2	2	4	0	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:1652483G>A	uc002cmb.2	-	4	619	c.257C>T	c.(256-258)ACG>ATG	p.T86M		NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	86	WD 2.									ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				GTTAAACACCGTCACTTCTCC	0.622													7	88					0	0	0.001984	0	0		A	1652483	A	A	1652483	3	1	140	1	0	0	0	0	1	0	0	0	7572	1145	40	1	4243	1	IFT140	16	1652483	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	68134	1652483	88702270	495	75485											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1817877	1817877	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgggcagccggctctgggtgGgcaccggcaacggagtggtc	5	5	19	12	4	1	0	0	0	1	0	2	1	1	1	2	7	2	4	2	7	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:1817877G>T	uc002cmk.2	+	28	3598	c.3478G>T	c.(3478-3480)GGC>TGC	p.G1160C	MAPK8IP3_uc002cml.2_Missense_Mutation_p.G1154C|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.G1161C	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	1160					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						GCTCTGGGTGGGCACCGGCAA	0.657													41	109					4.88482e-21	5.57029e-21	0.01441	1	0		T	1817877	T	T	1817877	3	4	140	1	0	0	0	0	1	0	0	0	9304	1232	43	5	3604	5	MAPK8IP3	16	1817877	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	165394	1817877	88536876	496	75486											
PKD1	5310	broad.mit.edu	37	chr16	2164260	2164260	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccgtcacccgcaggctgaGgttggcccggctggcgctgt	3	7	16	15	5	1	1	1	1	0	0	1	1	1	1	3	5	0	5	3	5	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:2164260G>T	uc002cos.1	-	11	2973	c.2764C>A	c.(2764-2766)CTC>ATC	p.L922I	PKD1_uc002cot.1_Missense_Mutation_p.L922I	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	922	Extracellular (Potential).|PKD 3.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CGCAGGCTGAGGTTGGCCCGG	0.667													10	15					6.81908e-15	7.60741e-15	0.020292	1	0		T	2164260	T	T	2164260	3	4	140	1	0	0	0	0	1	0	0	0	11982	1000	35	5	10291	5	PKD1	16	2164260	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	346383	2164260	88190493	497	75487											
TRAF7	84231	broad.mit.edu	37	chr16	2225603	2225603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagagctacctgtacagcGgctcctaccagacaatcaag	12	6	8	15	1	1	2	1	0	0	2	2	2	2	2	4	1	5	3	4	1	5	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:2225603G>A	uc002cow.2	+	17	1705	c.1606G>A	c.(1606-1608)GGC>AGC	p.G536S		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	536	WD 4.				activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						CCTGTACAGCGGCTCCTACCA	0.632													7	53					0	0	0.00308	0	0		A	2225603	A	A	2225603	3	1	140	1	0	0	0	0	1	0	0	0	16472	1116	39	1	1668	1	TRAF7	16	2225603	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	61343	2225603	88129150	498	75488											
CCNF	899	broad.mit.edu	37	chr16	2487152	2487152	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgtctgatgaggcccgCgcagaagtgaatggcctgaa	9	9	14	9	2	2	5	0	4	2	1	2	5	2	5	2	2	0	1	2	2	3	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:2487152C>T	uc002cqd.1	+	5	457	c.369C>T	c.(367-369)CGC>CGT	p.R123R	CCNF_uc002cqe.1_5'UTR	NM_001761	NP_001752	P41002	CCNF_HUMAN	cyclin F	123					cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)				ATGAGGCCCGCGCAGAAGTGA	0.587													8	248					0	0	0.006214	0	0		T	2487152	T	T	2487152	2	4	140	1	0	0	0	0	0	0	0	1	2925	755	27	1		1	CCNF	16	2487152	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	261549	2487152	87867601	499	75489											
PRSS22	64063	broad.mit.edu	37	chr16	2905627	2905627	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cagcagtgggtgtttggaggGaggtggatagaggcatcagg	9	8	20	4	0	1	1	1	0	0	1	1	4	1	4	0	7	1	3	0	7	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:2905627G>C	uc002cry.1	-	4	573	c.507C>G	c.(505-507)CTC>CTG	p.L169L	PRSS22_uc002crz.1_Intron	NM_022119	NP_071402	Q9GZN4	BSSP4_HUMAN	protease, serine, 22 precursor	169	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			central_nervous_system(1)	1						TGTTTGGAGGGAGGTGGATAG	0.602													25	92					0	0	0.021022	0	0		C	2905627	C	C	2905627	2	2	140	1	0	0	0	0	0	0	0	1	12641	1161	41	5		5	PRSS22	16	2905627	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	418475	2905627	87449126	500	75490											
ZNF205	7755	broad.mit.edu	37	chr16	3170173	3170173	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccgtggcgtgcggccctaCgcctgcccgttgtgcggcaa	4	7	14	16	6	0	0	0	0	0	0	0	0	0	0	4	3	4	2	4	3	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:3170173C>T	uc002cub.2	+	7	1647	c.1512C>T	c.(1510-1512)TAC>TAT	p.Y504Y	ZNF205_uc002cua.2_Silent_p.Y504Y	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	504	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						TGCGGCCCTACGCCTGCCCGT	0.687													8	55					0	0	0.008291	0	0		T	3170173	T	T	3170173	2	4	140	1	0	0	0	0	0	0	0	1	17789	547	19	1		1	ZNF205	16	3170173	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	264546	3170173	87184580	501	75491											
ANKS3	124401	broad.mit.edu	37	chr16	4751097	4751097	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcttcatgtaacttttagcTtgtttgcgagctgagctttt	6	19	9	7	1	2	1	1	1	1	0	2	2	2	1	0	0	5	5	0	0	2	8			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:4751097T>G	uc002cxj.1	-	11	1453	c.1158A>C	c.(1156-1158)CAA>CAC	p.Q386H	ANKS3_uc010uxr.1_5'Flank|ANKS3_uc002cxh.1_5'Flank|ANKS3_uc002cxi.1_Missense_Mutation_p.Q313H|ANKS3_uc002cxk.2_Missense_Mutation_p.Q257H|ANKS3_uc002cxl.2_Missense_Mutation_p.Q213H|ANKS3_uc010uxs.1_Missense_Mutation_p.Q313H|ANKS3_uc002cxm.2_Missense_Mutation_p.Q180H	NM_133450	NP_597707	Q6ZW76	ANKS3_HUMAN	ankyrin repeat and sterile alpha motif domain	386											0						AACTTTTAGCTTGTTTGCGAG	0.552													11	196					0	0	0.010729	0	0		G	4751097	G	G	4751097	3	3	140	1	0	0	0	0	1	0	0	0	690	1606	56	5	840	5	ANKS3	16	4751097	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	1580924	4751097	85603656	502	75492											
ANKS4B	257629	broad.mit.edu	37	chr16	21261872	21261872	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaacggcctcaaagatgatCtgccgtgggatgacgatgaa	14	7	12	8	3	2	4	1	3	1	1	2	6	2	5	2	2	2	0	2	2	4	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:21261872C>T	uc010bwp.1	+	2	1028	c.985C>T	c.(985-987)CTG>TTG	p.L329L	CRYM_uc010bwq.1_Intron	NM_145865	NP_665872	Q8N8V4	ANS4B_HUMAN	harmonin-interacting ankyrin-repeat containing	329										ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0565)		CAAAGATGATCTGCCGTGGGA	0.522													25	42					0	0	0.004656	0	0		T	21261872	T	T	21261872	2	4	140	1	0	0	0	0	0	0	0	1	691	912	32	4		4	ANKS4B	16	21261872	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	16510775	21261872	69092881	503	75493											
CACNG3	10368	broad.mit.edu	37	chr16	24372865	24372865	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatcagcagttacgagccaAatcccactcggagttcctga	12	8	8	13	2	1	1	1	1	0	0	4	3	3	2	3	1	3	3	3	1	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:24372865A>C	uc002dmf.2	+	4	1829	c.629A>C	c.(628-630)AAA>ACA	p.K210T		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	210					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0				GBM - Glioblastoma multiforme(48;0.0809)		TTACGAGCCAAATCCCACTCG	0.498													12	151					0	0	0.009535	0	0		C	24372865	C	C	24372865	3	2	140	1	0	0	0	0	1	0	0	0	2561	14	1	5	643	5	CACNG3	16	24372865	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	3110993	24372865	65981888	504	75494											
ZKSCAN2	342357	broad.mit.edu	37	chr16	25251408	25251408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccccagtgtgaactctcCggtgggcgctgaaatgagaa	9	9	12	11	2	2	3	0	3	2	1	4	4	2	3	3	2	1	1	3	2	3	0	rs61742943	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:25251408C>T	uc002dod.3	-	7	3040	c.2633G>A	c.(2632-2634)CGG>CAG	p.R878Q	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.R674Q	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	878	C2H2-type 4.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		GTGAACTCTCCGGTGGGCGCT	0.453													46	78					0	0	0.013114	0	0		T	25251408	T	T	25251408	3	4	140	1	0	0	0	0	1	0	0	0	17712	652	23	1	274	1	ZKSCAN2	16	25251408	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	878543	25251408	65103345	505	75495											
ATXN2L	11273	broad.mit.edu	37	chr16	28837682	28837682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcatgcttgttcacttccGaaatgttgacttcaactatg	9	16	7	9	1	3	1	3	1	0	0	4	2	4	1	1	0	2	3	1	0	3	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:28837682G>A	uc002drc.2	+	5	755	c.587G>A	c.(586-588)CGA>CAA	p.R196Q	uc010vct.1_Intron|ATXN2L_uc010byl.1_Missense_Mutation_p.R196Q|ATXN2L_uc002drb.2_Missense_Mutation_p.R196Q|ATXN2L_uc002dqy.2_Missense_Mutation_p.R196Q|ATXN2L_uc002dra.2_Missense_Mutation_p.R196Q|ATXN2L_uc002dqz.2_Missense_Mutation_p.R196Q|ATXN2L_uc010vdb.1_Missense_Mutation_p.R196Q|ATXN2L_uc002dre.2_Missense_Mutation_p.R196Q|ATXN2L_uc002drf.2_5'UTR	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	196						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						GTTCACTTCCGAAATGTTGAC	0.502													44	100					0	0	0.01441	0	0		A	28837682	A	A	28837682	3	1	140	1	0	0	0	0	1	0	0	0	1213	1058	37	1	605	1	ATXN2L	16	28837682	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3586274	28837682	61517071	506	75496											
NFATC2IP	84901	broad.mit.edu	37	chr16	28970422	28970422	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagtctcactgtctcgaGtgagtgggagagatggctct	8	11	15	7	1	3	2	1	1	3	1	5	6	3	4	0	3	0	1	0	3	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:28970422G>C	uc002dru.2	+	7	1116	c.1101_splice	c.e7+1	p.R367_splice	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Splice_Site_p.R88_splice|NFATC2IP_uc002drv.2_Splice_Site_p.R86_splice|NFATC2IP_uc010vdh.1_Splice_Site_p.R75_splice	NM_032815	NP_116204	Q8NCF5	NF2IP_HUMAN	nuclear factor of activated T-cells,							cytoplasm|nucleus				ovary(1)	1						ACTGTCTCGAGTGAGTGGGAG	0.542													10	45					0	0	0.013537	0	0		C	28970422	C	C	28970422	5	2	140	1	0	0	0	0	0	0	1	0	10382	1043	36	5	1128	5	NFATC2IP	16	28970422	Splice_Site	SNP	G	TCGA-CG-4465-01A-01D-1158-08	132740	28970422	61384331	507	75497											
ASPHD1	253982	broad.mit.edu	37	chr16	29913005	29913005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagggactacccctccgcCtcggggctggtccccacctc	4	7	10	20	2	1	0	1	0	0	0	5	1	3	1	7	4	1	1	7	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:29913005C>T	uc002dut.2	+	1	859	c.713C>T	c.(712-714)CCT>CTT	p.P238L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_5'Flank|SEZ6L2_uc002dur.3_5'Flank|SEZ6L2_uc002duq.3_5'Flank|SEZ6L2_uc002dus.3_5'Flank|SEZ6L2_uc010vec.1_5'Flank|SEZ6L2_uc010ved.1_5'Flank|ASPHD1_uc002duu.3_RNA|ASPHD1_uc010bzi.2_RNA	NM_181718	NP_859069	Q5U4P2	ASPH1_HUMAN	aspartate beta-hydroxylase domain containing 1	238	Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity				0						ACCCCTCCGCCTCGGGGCTGG	0.701													15	67					0	0	0.020292	0	0		T	29913005	T	T	29913005	3	4	140	1	0	0	0	0	1	0	0	0	1055	681	24	4	715	4	ASPHD1	16	29913005	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	942583	29913005	60441748	508	75498											
TBX6	6911	broad.mit.edu	37	chr16	30097645	30097645	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgcggggcaaagggtacCgccggtggagccgctgggta	8	5	19	9	4	0	0	0	0	0	0	0	1	0	1	3	6	3	4	3	6	4	2	rs140493598		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:30097645C>T	uc010veh.1	-	9	1272	c.1212G>A	c.(1210-1212)GCG>GCA	p.A404A	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron	NM_004608	NP_004599	O95947	TBX6_HUMAN	T-box 6	404					anatomical structure morphogenesis|mesoderm development|multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CAAAGGGTACCGCCGGTGGAG	0.667													9	17					0	0	0.010729	0	0		T	30097645	T	T	30097645	2	4	140	1	0	0	0	0	0	0	0	1	15687	639	23	1		1	TBX6	16	30097645	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	184640	30097645	60257108	509	75499											
ADCY7	113	broad.mit.edu	37	chr16	50339707	50339707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccctgctgctccaagtccGatgacttctacacctttggg	6	11	10	14	1	1	1	0	1	1	0	3	2	3	1	4	2	3	2	4	2	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:50339707G>A	uc002egd.1	+	13	1967	c.1699G>A	c.(1699-1701)GAT>AAT	p.D567N	ADCY7_uc002egc.1_Missense_Mutation_p.D567N	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	567	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	CTCCAAGTCCGATGACTTCTA	0.667													19	105					0	0	0.01892	0	0		A	50339707	A	A	50339707	3	1	140	1	0	0	0	0	1	0	0	0	299	1058	37	1	1749	1	ADCY7	16	50339707	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	20242062	50339707	40015046	510	75500											
CYLD	1540	broad.mit.edu	37	chr16	50826572	50826572	+	Frame_Shift_Del	DEL	T	-	-																															ctttaaactatttaaaaaaaTttttccttctctggaattaa																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:50826572delT	uc002egp.1	+	16	2721	c.2306delT	c.(2305-2307)ATTfs	p.I769fs	CYLD_uc010cbs.1_Frame_Shift_Del_p.I766fs|CYLD_uc002egq.1_Frame_Shift_Del_p.I766fs|CYLD_uc002egr.1_Frame_Shift_Del_p.I766fs	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	769					cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding	p.I769fs*7(1)		skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				TTTAAAAAAATTTTTCCTTCT	0.274			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				8	16	---	---	---	---						.	-	50826572	-	-	50826572	7	5	140	1	0	1	0	1	0	0	0	0	4146	1493	52	0	2360	0	CYLD	16	50826572	Frame_Shift_Del	DEL	T	TCGA-CG-4465-01A-01D-1158-08	486865	50826572	39528181	511	75501											
NLRC5	84166	broad.mit.edu	37	chr16	57060176	57060176	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatgactcagctctatatgCagatggtgctcgccctcagc	9	10	9	13	1	3	2	2	1	1	1	4	2	3	2	1	1	4	3	1	1	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:57060176C>T	uc002ekk.1	+	6	1546	c.1321C>T	c.(1321-1323)CAG>TAG	p.Q441*	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Nonsense_Mutation_p.Q246*|NLRC5_uc002ekl.2_Nonsense_Mutation_p.Q246*|NLRC5_uc002ekm.2_Nonsense_Mutation_p.Q246*|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	441	NACHT.				defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				GCTCTATATGCAGATGGTGCT	0.637													20	81					0	0	0.010504	0	0		T	57060176	T	T	57060176	4	4	140	1	0	0	0	0	0	1	0	0	10489	711	25	2	1335	2	NLRC5	16	57060176	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	6233604	57060176	33294577	512	75502											
NLRC5	84166	broad.mit.edu	37	chr16	57060249	57060249	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctgggggaggtggcccTgaggggcctggagacaggga	7	4	22	8	0	0	2	0	1	0	1	0	6	0	5	3	9	0	0	3	9	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:57060249T>C	uc002ekk.1	+	6	1619	c.1394T>C	c.(1393-1395)CTG>CCG	p.L465P	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.L270P|NLRC5_uc002ekl.2_Missense_Mutation_p.L270P|NLRC5_uc002ekm.2_Missense_Mutation_p.L270P|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	465	NACHT.				defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				GAGGTGGCCCTGAGGGGCCTG	0.582													33	46					0	0	0.012213	0	0		C	57060249	C	C	57060249	3	2	140	1	0	0	0	0	1	0	0	0	10489	1580	55	3	1408	3	NLRC5	16	57060249	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	73	57060249	33294504	513	75503											
CNOT1	23019	broad.mit.edu	37	chr16	58557362	58557362	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtagtgagtgtggctatttgGgtaccggagctgatttgcaa	8	13	15	5	1	0	2	0	2	0	0	0	3	0	3	1	3	3	5	1	3	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:58557362G>T	uc002env.2	-	47	7122	c.6829C>A	c.(6829-6831)CCA>ACA	p.P2277T	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.P2272T|CNOT1_uc002ent.2_Missense_Mutation_p.P215T|CNOT1_uc010vik.1_Missense_Mutation_p.P1234T	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	2277					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TGGCTATTTGGGTACCGGAGC	0.448													59	137					5.80444e-35	6.78943e-35	0.01441	1	0		T	58557362	T	T	58557362	3	4	140	1	0	0	0	0	1	0	0	0	3620	1232	43	5	313	5	CNOT1	16	58557362	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1497113	58557362	31797391	514	75504											
CES2	8824	broad.mit.edu	37	chr16	66976054	66976054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctgagggaggagtacattgGggacaatggggatccccaga	11	6	17	7	0	0	2	0	1	0	1	1	6	1	6	2	6	1	2	2	6	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:66976054G>A	uc002eqr.2	+	9	2376	c.1376G>A	c.(1375-1377)GGG>GAG	p.G459E	CES2_uc002eqq.2_Missense_Mutation_p.G459E|CES2_uc002eqs.2_Missense_Mutation_p.G302E	NM_003869	NP_003860	O00748	EST2_HUMAN	carboxylesterase 2 isoform 1	395					catabolic process	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0663)|Epithelial(162;0.166)		GAGTACATTGGGGACAATGGG	0.552													15	30					0	0	0.004007	0	0		A	66976054	A	A	66976054	3	1	140	1	0	0	0	0	1	0	0	0	3273	1232	43	4	1410	4	CES2	16	66976054	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	8418692	66976054	23378699	515	75505											
KIAA0895L	653319	broad.mit.edu	37	chr16	67214239	67214239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccagggtgccacgccccCgccggccagtactatttaca	7	7	10	17	3	0	0	0	0	0	0	1	0	1	0	6	2	3	1	6	2	3	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:67214239C>T	uc002ert.2	-	2	1050	c.275G>A	c.(274-276)CGG>CAG	p.R92Q	KIAA0895L_uc002err.2_5'Flank|KIAA0895L_uc002ers.2_5'Flank|KIAA0895L_uc002eru.2_Missense_Mutation_p.R92Q|EXOC3L_uc002erv.1_RNA	NM_001040715	NP_001035805	Q68EN5	K895L_HUMAN	hypothetical protein LOC653319	92											0						GCCACGCCCCCGCCGGCCAGT	0.667													12	22					0	0	0.007413	0	0		T	67214239	T	T	67214239	3	4	140	1	0	0	0	0	1	0	0	0	8214	652	23	1	1164	1	KIAA0895L	16	67214239	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	238185	67214239	23140514	516	75506											
SLC9A5	6553	broad.mit.edu	37	chr16	67292327	67292327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	actacaggcttaacatccggGatgccatcagctttgtggac	10	10	10	11	1	1	0	1	0	0	0	2	2	2	2	2	3	4	2	2	3	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:67292327G>A	uc002esm.2	+	10	1666	c.1603G>A	c.(1603-1605)GAT>AAT	p.D535N	SLC9A5_uc010cee.2_Missense_Mutation_p.D240N|SLC9A5_uc010vji.1_Missense_Mutation_p.D39N	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	535					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		TAACATCCGGGATGCCATCAG	0.577													12	85					0	0	0.013537	0	0		A	67292327	A	A	67292327	3	1	140	1	0	0	0	0	1	0	0	0	14742	1174	41	4	1641	4	SLC9A5	16	67292327	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	78088	67292327	23062426	517	75507											
ST3GAL2	6483	broad.mit.edu	37	chr16	70422378	70422378	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggttcttggcactctcaGggtacatgaaatggtgggtg	8	11	15	7	0	2	1	1	1	2	0	3	1	2	1	0	5	1	4	0	5	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:70422378G>T	uc002eyw.2	-	3	2713	c.605C>A	c.(604-606)CCT>CAT	p.P202H	ST3GAL2_uc002eyx.2_Missense_Mutation_p.P202H	NM_006927	NP_008858	Q16842	SIA4B_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	202	Lumenal (Potential).				amino sugar metabolic process	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity			ovary(1)	1		Ovarian(137;0.0694)				GGCACTCTCAGGGTACATGAA	0.592													59	106					5.10508e-28	5.87351e-28	0.01441	1	0		T	70422378	T	T	70422378	3	4	140	1	0	0	0	0	1	0	0	0	15240	1000	35	5	463	5	ST3GAL2	16	70422378	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3130051	70422378	19932375	518	75508											
KLHL36	79786	broad.mit.edu	37	chr16	84690684	84690684	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaggaggtggagctgatcGgcgcctcctacattgggctc	8	8	15	10	2	0	2	0	1	0	1	3	4	1	4	2	5	2	2	2	5	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:84690684G>A	uc002fig.2	+	3	412	c.271G>A	c.(271-273)GGC>AGC	p.G91S	KLHL36_uc010chl.2_Missense_Mutation_p.G90S	NM_024731	NP_079007	Q8N4N3	KLH36_HUMAN	kelch-like 36	91	BTB.									skin(2)	2						GGAGCTGATCGGCGCCTCCTA	0.612													21	50					0	0	0.012319	0	0		A	84690684	A	A	84690684	3	1	140	1	0	0	0	0	1	0	0	0	8405	1116	39	1	277	1	KLHL36	16	84690684	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	14268306	84690684	5664069	519	75509											
ZC3H18	124245	broad.mit.edu	37	chr16	88666204	88666204	+	Frame_Shift_Del	DEL	A	-	-																															ttcttacaatggtaggttttAaaaaaagcaactattcgaaa																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:88666204delA	uc002fky.2	+	6	1136	c.936delA	c.(934-936)TTAfs	p.L312fs	ZC3H18_uc010voy.1_Frame_Shift_Del_p.L195fs|ZC3H18_uc010voz.1_Frame_Shift_Del_p.L336fs	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	312						nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		GGTAGGTTTTAAAAAAAGCAA	0.448													89	205	---	---	---	---						.	-	88666204	-	-	88666204	7	5	140	1	0	1	0	1	0	0	0	0	17593	359	13	0	954	0	ZC3H18	16	88666204	Frame_Shift_Del	DEL	A	TCGA-CG-4465-01A-01D-1158-08	3975520	88666204	1688549	520	75510											
SNAI3	333929	broad.mit.edu	37	chr16	88748098	88748098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcaccaccagccccccaCaggcagagcaggcaccattg	10	2	12	17	0	0	1	0	0	0	1	0	1	0	1	6	4	2	4	6	4	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:88748098C>T	uc002flj.2	-	2	169	c.101G>A	c.(100-102)TGT>TAT	p.C34Y	MGC23284_uc002fli.3_Intron	NM_178310	NP_840101	Q3KNW1	SNAI3_HUMAN	snail homolog 3	34					oxidation-reduction process		copper ion binding|DNA binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.048)		CAGCCCCCCACAGGCAGAGCA	0.612													11	42					0	0	0.016723	0	0		T	88748098	T	T	88748098	3	4	140	1	0	0	0	0	1	0	0	0	14853	478	17	4	785	4	SNAI3	16	88748098	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	81894	88748098	1606655	521	75511											
ACSF3	197322	broad.mit.edu	37	chr16	89167698	89167698	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatgatcatctacaccagTgggaccacggggaggcccaa	11	5	12	13	1	2	1	1	1	1	0	2	3	2	3	4	4	1	0	4	4	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr16:89167698T>C	uc002fmp.2	+	3	949	c.609T>C	c.(607-609)AGT>AGC	p.S203S	ACSF3_uc010cig.1_Silent_p.S203S|ACSF3_uc010cih.1_Intron|ACSF3_uc002fmq.1_RNA|ACSF3_uc010cii.1_RNA|ACSF3_uc002fmr.1_5'Flank	NM_174917	NP_777577	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3 precursor	203	ATP (By similarity).				fatty acid metabolic process	mitochondrion	acid-thiol ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0281)		TCTACACCAGTGGGACCACGG	0.627													7	19					0	0	0.00308	0	0		C	89167698	C	C	89167698	2	2	140	1	0	0	0	0	0	0	0	1	176	1693	59	3		3	ACSF3	16	89167698	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	419600	89167698	1187055	522	75512											
ABR	29	broad.mit.edu	37	chr17	914045	914045	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccggaagtacagcttgagCgtcccggcgatggcgttgat	7	9	14	11	5	0	2	0	2	0	0	2	4	2	3	2	3	3	3	2	3	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:914045C>T	uc002fsd.2	-	20	2270	c.2160G>A	c.(2158-2160)ACG>ACA	p.T720T	ABR_uc002fse.2_Silent_p.T674T|ABR_uc010vqf.1_Silent_p.T171T|ABR_uc010vqg.1_Silent_p.T502T|ABR_uc002fsg.2_Silent_p.T683T|ABR_uc002fsh.1_Silent_p.T328T|ABR_uc002fsf.2_Silent_p.T257T	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	720	Rho-GAP.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		ACAGCTTGAGCGTCCCGGCGA	0.627													30	79					0	0	0.010818	0	0		T	914045	T	T	914045	2	4	140	1	0	0	0	0	0	0	0	1	99	755	27	1		1	ABR	17	914045	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08		914045	80281165	523	75513											
TRPV1	7442	broad.mit.edu	37	chr17	3494385	3494385	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttgagcatggctttcagCagacaggtcttccctgtctc	7	12	11	11	0	3	2	1	1	2	1	5	2	4	2	1	3	2	4	1	3	0	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:3494385C>T	uc010vrr.1	-	3	1004	c.477G>A	c.(475-477)CTG>CTA	p.L159L	TRPV1_uc010vro.1_Silent_p.L159L|TRPV1_uc010vrp.1_Silent_p.L159L|TRPV1_uc010vrq.1_Silent_p.L157L|TRPV1_uc010vrs.1_Silent_p.L159L|TRPV1_uc010vrt.1_Silent_p.L159L|TRPV1_uc010vru.1_Silent_p.L159L	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	159	Cytoplasmic (Potential).|ANK 2.				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	TGGCTTTCAGCAGACAGGTCT	0.632													3	18					0	0	0.004672	0	0		T	3494385	T	T	3494385	2	4	140	1	0	0	0	0	0	0	0	1	16621	697	25	2		2	TRPV1	17	3494385	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2580340	3494385	77700825	524	75514											
KIF1C	10749	broad.mit.edu	37	chr17	4905816	4905816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctcttgaaccccaagagtCggggttctctgcgggtccgg	6	9	13	13	3	2	2	0	1	2	1	5	2	3	2	4	4	2	1	4	4	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:4905816C>T	uc002gan.1	+	7	813	c.487C>T	c.(487-489)CGG>TGG	p.R163W		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	163	Kinesin-motor.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						CCCCAAGAGTCGGGGTTCTCT	0.537													136	233					0	0	0.01441	0	0		T	4905816	T	T	4905816	3	4	140	1	0	0	0	0	1	0	0	0	8301	875	31	1	505	1	KIF1C	17	4905816	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1411431	4905816	76289394	525	75515											
DHX33	56919	broad.mit.edu	37	chr17	5364373	5364373	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaggtagaggacgggggcGccattgaaatactgagagaa	13	7	15	6	2	1	4	0	2	1	2	1	6	1	5	1	4	1	1	1	4	5	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:5364373G>A	uc002gca.2	-	4	737	c.735C>T	c.(733-735)GGC>GGT	p.G245G	DHX33_uc002gbz.2_Silent_p.G16G|DHX33_uc002gcb.2_Silent_p.G72G|DHX33_uc010clf.2_Intron	NM_020162	NP_064547	Q9H6R0	DHX33_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 33	245	Helicase ATP-binding.					nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|pancreas(1)	2						GGACGGGGGCGCCATTGAAAT	0.517													14	166					0	0	0.016723	0	0		A	5364373	A	A	5364373	2	1	140	1	0	0	0	0	0	0	0	1	4512	1074	38	1		1	DHX33	17	5364373	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	458557	5364373	75830837	526	75516											
ACAP1	9744	broad.mit.edu	37	chr17	7246726	7246726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtttccgagaggctcgcCgggatttctggcggggggct	3	9	20	9	4	1	1	0	0	1	1	3	3	2	2	2	8	0	3	2	8	0	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:7246726C>T	uc002ggd.2	+	6	579	c.373C>T	c.(373-375)CGG>TGG	p.R125W		NM_014716	NP_055531	Q15027	ACAP1_HUMAN	centaurin beta1	125	BAR.|Required for formation of endosomal tubules when overexpressed with PIP5K1C.				intracellular signal transduction|lipid metabolic process|protein transport|regulation of ARF GTPase activity		ARF GTPase activator activity|phospholipase C activity|protein binding|zinc ion binding			breast(2)|large_intestine(1)	3						AGAGGCTCGCCGGGATTTCTG	0.637													46	83					0	0	0.01441	0	0		T	7246726	T	T	7246726	3	4	140	1	0	0	0	0	1	0	0	0	118	643	23	1	395	1	ACAP1	17	7246726	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1882353	7246726	73948484	527	75517											
DNAH9	1770	broad.mit.edu	37	chr17	11607574	11607574	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagtgggcatggcatttGccaggctggaggaaggctat	10	8	16	7	0	0	1	0	0	0	1	0	3	0	3	1	6	1	4	1	6	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:11607574G>T	uc002gne.2	+	25	5274	c.5206G>T	c.(5206-5208)GCC>TCC	p.A1736S	DNAH9_uc010coo.2_Missense_Mutation_p.A1030S	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1736	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CATGGCATTTGCCAGGCTGGA	0.507													42	100					3.61183e-13	3.98903e-13	0.01441	1	0		T	11607574	T	T	11607574	3	4	140	1	0	0	0	0	1	0	0	0	4614	1319	46	5	5304	5	DNAH9	17	11607574	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	4360848	11607574	69587636	528	75518											
DNAH9	1770	broad.mit.edu	37	chr17	11671900	11671900	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaattcgagccttggtccaAgctcgtcccccagttcgaat	9	10	9	13	3	0	0	0	0	0	0	5	3	2	0	4	1	2	2	4	1	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:11671900A>T	uc002gne.2	+	37	7369	c.7301A>T	c.(7300-7302)AAG>ATG	p.K2434M	DNAH9_uc010coo.2_Missense_Mutation_p.K1728M	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2434					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CCTTGGTCCAAGCTCGTCCCC	0.532													4	86					0	0	0.014758	0	0		T	11671900	T	T	11671900	3	4	140	1	0	0	0	0	1	0	0	0	4614	72	3	5	7447	5	DNAH9	17	11671900	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	64326	11671900	69523310	529	75519											
TTC19	54902	broad.mit.edu	37	chr17	15902817	15902817	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccatggcgcagccacacacGacctcggtcccgtacttcgc	7	6	9	19	5	0	0	0	0	0	0	3	1	1	0	4	2	2	2	4	2	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:15902817G>A	uc002gph.1	+	1	36	c.18G>A	c.(16-18)ACG>ACA	p.T6T	ZSWIM7_uc002gpe.2_Intron|ZSWIM7_uc002gpf.2_Intron|ZSWIM7_uc002gpg.2_Intron|TTC19_uc010cox.1_RNA	NM_017775	NP_060245	Q6DKK2	TTC19_HUMAN	tetratricopeptide repeat domain 19	Error:Variant_position_missing_in_Q6DKK2_after_alignment					cell cycle|cytokinesis|mitochondrial respiratory chain complex III assembly	centrosome|midbody|mitochondrial inner membrane	protein binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		AGCCACACACGACCTCGGTCC	0.731													7	13					0	0	0.00308	0	0		A	15902817	A	A	15902817	2	1	140	1	0	0	0	0	0	0	0	1	16712	1045	37	1		1	TTC19	17	15902817	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	4230917	15902817	65292393	530	75520											
FLII	2314	broad.mit.edu	37	chr17	18154278	18154278	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcgagtgtggcctccccGccaatccagtagtagatctc	7	11	10	13	2	1	1	0	0	1	1	5	2	3	1	5	1	0	2	5	1	3	3	rs144125005		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:18154278G>A	uc002gsr.1	-	14	1701	c.1650C>T	c.(1648-1650)GGC>GGT	p.G550G	FLII_uc002gsq.1_Silent_p.G421G|FLII_uc010cpy.1_Silent_p.G539G|FLII_uc010vxn.1_Silent_p.G519G|FLII_uc010vxo.1_Silent_p.G495G|FLII_uc002gss.1_Silent_p.G549G	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	550	Interaction with ACTL6A.|Gelsolin-like 1.				multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					TGGCCTCCCCGCCAATCCAGT	0.587													3	12					0	0	0.004672	0	0		A	18154278	A	A	18154278	2	1	140	1	0	0	0	0	0	0	0	1	5939	1074	38	1		1	FLII	17	18154278	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2251461	18154278	63040932	531	75521											
FLII	2314	broad.mit.edu	37	chr17	18154776	18154776	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccttcccgctgggggcccGggcatctgcgctctcctggg	2	8	14	17	3	2	0	0	0	2	0	4	0	3	0	4	4	1	3	4	4	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:18154776G>C	uc002gsr.1	-	13	1450	c.1399C>G	c.(1399-1401)CGG>GGG	p.R467G	FLII_uc002gsq.1_Missense_Mutation_p.R338G|FLII_uc010cpy.1_Missense_Mutation_p.R456G|FLII_uc010vxn.1_Missense_Mutation_p.R436G|FLII_uc010vxo.1_Missense_Mutation_p.R412G|FLII_uc002gss.1_Missense_Mutation_p.R466G	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	467					multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					CTGGGGGCCCGGGCATCTGCG	0.607													32	51					0	0	0.012213	0	0		C	18154776	C	C	18154776	3	2	140	1	0	0	0	0	1	0	0	0	5939	1115	39	5	2482	5	FLII	17	18154776	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	498	18154776	63040434	532	75522											
KCNJ12	3768	broad.mit.edu	37	chr17	21318850	21318850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatggacgagaagtcacagCgctacctggctgacatgttc	11	8	11	11	2	1	2	1	1	0	1	2	4	1	3	1	2	2	3	1	2	2	2	rs140486656		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:21318850C>T	uc002gyv.1	+	3	901	c.196C>T	c.(196-198)CGC>TGC	p.R66C		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	66	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GAAGTCACAGCGCTACCTGGC	0.592										Prostate(3;0.18)			6	65					0	0	0.00308	0	0		T	21318850	T	T	21318850	3	4	140	1	0	0	0	0	1	0	0	0	8062	768	27	1	198	1	KCNJ12	17	21318850	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3164074	21318850	59876360	533	75523											
C17orf75	64149	broad.mit.edu	37	chr17	30665238	30665238	+	Frame_Shift_Del	DEL	T	-	-																															aaaggatatagctcaagtccTttttcagaccctcctaaaaa																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:30665238delT	uc002hhg.2	-	4	511	c.480delA	c.(478-480)AAAfs	p.K160fs		NM_022344	NP_071739	Q9HAS0	NJMU_HUMAN	hypothetical protein LOC64149	160					spermatogenesis					ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			GCTCAAGTCCTTTTTCAGACC	0.393													78	167	---	---	---	---						.	-	30665238	-	-	30665238	7	5	140	1	0	1	0	1	0	0	0	0	1883	1606	56	0	738	0	C17orf75	17	30665238	Frame_Shift_Del	DEL	T	TCGA-CG-4465-01A-01D-1158-08	9346388	30665238	50529972	534	75524											
SOCS7	30837	broad.mit.edu	37	chr17	36522218	36522218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagctgaatccctgcacaGccaacccccacagcacctcc	11	4	6	20	0	0	1	0	1	0	0	2	1	2	1	6	0	6	4	6	0	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:36522218G>A	uc002hqa.2	+	5	1232	c.1109G>A	c.(1108-1110)AGC>AAC	p.S370N	SOCS7_uc010cvl.2_Missense_Mutation_p.S336N|SOCS7_uc002hqb.2_RNA	NM_014598	NP_055413	O14512	SOCS7_HUMAN	suppressor of cytokine signaling 7	370	Mediates interaction with SORBS3.				intracellular signal transduction|negative regulation of signal transduction|regulation of growth	cytoplasm|nucleus|plasma membrane	protein binding|SH3 domain binding			skin(1)	1	Breast(7;3.47e-17)					TCCCTGCACAGCCAACCCCCA	0.582													41	50					0	0	0.00874	0	0		A	36522218	A	A	36522218	3	1	140	1	0	0	0	0	1	0	0	0	14944	971	34	2	1127	2	SOCS7	17	36522218	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	5856980	36522218	44672992	535	75525											
FKBP10	60681	broad.mit.edu	37	chr17	39974510	39974510	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaatggcaccctgctggaCggcacctccttcgacaccag	9	7	9	16	2	0	0	0	0	0	0	2	2	1	1	4	3	2	3	4	3	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:39974510C>T	uc002hxv.2	+	3	886	c.561C>T	c.(559-561)GAC>GAT	p.D187D	FKBP10_uc002hxw.1_5'Flank	NM_021939	NP_068758	Q96AY3	FKB10_HUMAN	FK506 binding protein 10 precursor	187	PPIase FKBP-type 2.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Breast(137;0.00122)		BRCA - Breast invasive adenocarcinoma(366;0.148)		CCCTGCTGGACGGCACCTCCT	0.682													21	42					0	0	0.016522	0	0		T	39974510	T	T	39974510	2	4	140	1	0	0	0	0	0	0	0	1	5916	535	19	1		1	FKBP10	17	39974510	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3452292	39974510	41220700	536	75526											
STAT3	6774	broad.mit.edu	37	chr17	40474420	40474420	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccaggatattggtagcatCcatgatcttatagcccatga	12	11	8	10	0	1	2	0	2	1	0	2	3	2	3	3	2	2	2	3	2	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:40474420C>A	uc002hzl.1	-	21	2221	c.1981G>T	c.(1981-1983)GAT>TAT	p.D661Y	STAT3_uc002hzk.1_Missense_Mutation_p.D661Y|STAT3_uc002hzm.1_Missense_Mutation_p.D661Y|STAT3_uc010wgh.1_Missense_Mutation_p.D563Y|STAT3_uc002hzn.1_Missense_Mutation_p.D661Y	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	661	SH2.				cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		TTGGTAGCATCCATGATCTTA	0.483									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				70	138					7.46257e-40	8.74219e-40	0.01441	1	0		A	40474420	A	A	40474420	3	1	140	1	0	0	0	0	1	0	0	0	15291	855	30	5	347	5	STAT3	17	40474420	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	499910	40474420	40720790	537	75527											
MPP2	4355	broad.mit.edu	37	chr17	41955297	41955297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaggtcaaagtagtgccCgtagccccgctggatgcggc	8	6	15	12	3	1	1	1	0	0	1	1	2	1	2	3	3	3	4	3	3	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:41955297C>T	uc010wip.1	-	13	1729	c.1672G>A	c.(1672-1674)GGG>AGG	p.G558R	MPP2_uc002ien.1_Missense_Mutation_p.G530R|MPP2_uc010wim.1_Missense_Mutation_p.G502R|MPP2_uc002ieo.1_Missense_Mutation_p.G513R|MPP2_uc010win.1_Missense_Mutation_p.G374R|MPP2_uc010wio.1_Missense_Mutation_p.G502R	NM_005374	NP_005365	Q14168	MPP2_HUMAN	palmitoylated membrane protein 2	537	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane|membrane fraction	guanylate kinase activity				0		Breast(137;0.00314)		BRCA - Breast invasive adenocarcinoma(366;0.12)		AAGTAGTGCCCGTAGCCCCGC	0.627													19	57					0	0	0.01892	0	0		T	41955297	T	T	41955297	3	4	140	1	0	0	0	0	1	0	0	0	9752	652	23	1	125	1	MPP2	17	41955297	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1480877	41955297	39239913	538	75528											
FMNL1	752	broad.mit.edu	37	chr17	43322382	43322382	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgactgatcgcaagcagacgCtgctgcactacctggtgaag	10	7	12	12	3	0	3	0	2	0	1	1	4	0	3	1	1	4	5	1	1	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:43322382C>T	uc002iin.2	+	21	2835	c.2635C>T	c.(2635-2637)CTG>TTG	p.L879L	FMNL1_uc002iiq.2_Silent_p.L457L|FMNL1_uc010dag.2_RNA|LOC100133991_uc010dah.2_5'Flank	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	879	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						CAAGCAGACGCTGCTGCACTA	0.592													28	55					0	0	0.005443	0	0		T	43322382	T	T	43322382	2	4	140	1	0	0	0	0	0	0	0	1	5965	796	28	2		2	FMNL1	17	43322382	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1367085	43322382	37872828	539	75529											
GOSR2	9570	broad.mit.edu	37	chr17	45016026	45016026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgtccaacacagtgatgcGgctcatcgagaagcgggctt	9	9	12	11	3	1	2	1	1	0	1	3	3	2	2	1	2	3	2	1	2	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:45016026G>A	uc002ila.2	+	6	612	c.539G>A	c.(538-540)CGG>CAG	p.R180Q	GOSR2_uc010wkh.1_Missense_Mutation_p.R180Q|GOSR2_uc002ikz.2_Missense_Mutation_p.R180Q	NM_004287	NP_004278	O14653	GOSR2_HUMAN	golgi SNAP receptor complex member 2 isoform A	180	Cytoplasmic (Potential).				cellular membrane fusion|ER to Golgi vesicle-mediated transport|protein transport	Golgi membrane|integral to membrane	transporter activity			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(9;0.102)			ACAGTGATGCGGCTCATCGAG	0.493													129	308					0	0	0.01441	0	0		A	45016026	A	A	45016026	3	1	140	1	0	0	0	0	1	0	0	0	6593	1116	39	1	672	1	GOSR2	17	45016026	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1693644	45016026	36179184	540	75530											
KPNB1	3837	broad.mit.edu	37	chr17	45754442	45754442	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccgtgccctgcaatccaaCatcatacctttctgtgacga	9	11	7	14	2	2	1	1	1	1	0	3	2	3	1	4	0	5	1	4	0	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:45754442C>A	uc002ilt.1	+	17	2388	c.2052C>A	c.(2050-2052)AAC>AAA	p.N684K	KPNB1_uc010wkw.1_Missense_Mutation_p.N539K|KPNB1_uc010wkx.1_Missense_Mutation_p.N468K	NM_002265	NP_002256	Q14974	IMB1_HUMAN	karyopherin beta 1	684					DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|protein import into nucleus, translocation|ribosomal protein import into nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein domain specific binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TGCAATCCAACATCATACCTT	0.448													19	97					1.33834e-09	1.45112e-09	0.007413	1	0		A	45754442	A	A	45754442	3	1	140	1	0	0	0	0	1	0	0	0	8451	477	17	5	2118	5	KPNB1	17	45754442	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	738416	45754442	35440768	541	75531											
SNX11	29916	broad.mit.edu	37	chr17	46189428	46189428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcttttggtgtaggatgtCggagaaccaagaacaggagg	11	8	17	5	1	0	2	0	0	0	2	1	5	0	4	1	6	2	2	1	6	4	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:46189428C>T	uc002inf.1	+	3	377	c.23C>T	c.(22-24)TCG>TTG	p.S8L	SNX11_uc010wlg.1_5'UTR|SNX11_uc010wlh.1_5'UTR|SNX11_uc010wli.1_5'UTR|SNX11_uc010wlj.1_Intron|SNX11_uc002ing.1_Missense_Mutation_p.S8L|SNX11_uc002inh.1_Missense_Mutation_p.S8L	NM_152244	NP_689450	Q9Y5W9	SNX11_HUMAN	sorting nexin 11	8					cell communication|protein transport	membrane	phosphatidylinositol binding				0						TGTAGGATGTCGGAGAACCAA	0.448													7	114					0	0	0.001984	0	0		T	46189428	T	T	46189428	3	4	140	1	0	0	0	0	1	0	0	0	14907	893	31	1	25	1	SNX11	17	46189428	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	434986	46189428	35005782	542	75532											
HOXB3	3213	broad.mit.edu	37	chr17	46627925	46627925	+	Frame_Shift_Del	DEL	C	-	-																															gcagcggatccgcgtagccgCccccgcccacgtacaccgga																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:46627925delC	uc002inn.2	-	2	1467	c.1067delG	c.(1066-1068)GGCfs	p.G356fs	HOXB3_uc010wlm.1_Frame_Shift_Del_p.G283fs|HOXB3_uc010dbf.2_Frame_Shift_Del_p.G356fs|HOXB3_uc010dbg.2_Frame_Shift_Del_p.G356fs|HOXB3_uc002ino.2_Frame_Shift_Del_p.G356fs|HOXB3_uc010wlk.1_Frame_Shift_Del_p.G224fs|HOXB3_uc010wll.1_Frame_Shift_Del_p.G283fs	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	356					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CGCGTAGCCGCCCCCGCCCAC	0.716											OREG0024516	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	39	---	---	---	---						.	-	46627925	-	-	46627925	7	5	140	1	0	1	0	1	0	0	0	0	7318	739	26	0	232	0	HOXB3	17	46627925	Frame_Shift_Del	DEL	C	TCGA-CG-4465-01A-01D-1158-08	438497	46627925	34567285	543	75533											
HOXB3	3213	broad.mit.edu	37	chr17	46628177	46628177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgttcatgaagccggccGtggactgcatgggctgcggg	6	7	18	10	4	1	1	1	1	0	0	1	2	1	2	2	5	3	3	2	5	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:46628177G>A	uc002inn.2	-	2	1215	c.815C>T	c.(814-816)ACG>ATG	p.T272M	HOXB3_uc010wlm.1_Missense_Mutation_p.T199M|HOXB3_uc010dbf.2_Missense_Mutation_p.T272M|HOXB3_uc010dbg.2_Missense_Mutation_p.T272M|HOXB3_uc002ino.2_Missense_Mutation_p.T272M|HOXB3_uc010wlk.1_Missense_Mutation_p.T140M|HOXB3_uc010wll.1_Missense_Mutation_p.T199M	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	272					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GAAGCCGGCCGTGGACTGCAT	0.662											OREG0024516	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	121					0	0	0.01892	0	0		A	46628177	A	A	46628177	3	1	140	1	0	0	0	0	1	0	0	0	7318	1145	40	1	484	1	HOXB3	17	46628177	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	252	46628177	34567033	544	75534											
BCAS3	54828	broad.mit.edu	37	chr17	58980003	58980003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcgatgtcatcagtcccGtggtggagcctgtggagaca	8	10	14	9	2	2	1	2	0	0	1	4	5	3	2	2	3	1	0	2	3	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:58980003G>A	uc002iyv.3	+	11	870	c.761G>A	c.(760-762)CGT>CAT	p.R254H	BCAS3_uc010wow.1_Intron|BCAS3_uc002iyu.3_Missense_Mutation_p.R254H|BCAS3_uc002iyw.3_Missense_Mutation_p.R250H|BCAS3_uc002iyx.1_Missense_Mutation_p.R69H|BCAS3_uc002iyy.3_Missense_Mutation_p.R25H	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	254						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			CATCAGTCCCGTGGTGGAGCC	0.433													91	159					0	0	0.01441	0	0		A	58980003	A	A	58980003	3	1	140	1	0	0	0	0	1	0	0	0	1353	1145	40	1	799	1	BCAS3	17	58980003	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	12351826	58980003	22215207	545	75535											
MARCH10	162333	broad.mit.edu	37	chr17	60837269	60837269	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttatgtttctgcttgacTgatgtttggtcaattgctgg	5	20	10	6	0	2	2	1	2	1	0	2	2	2	2	0	2	2	4	0	2	2	6	rs146472679	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:60837269T>C	uc010ddr.2	-	4	547	c.309A>G	c.(307-309)TCA>TCG	p.S103S	MARCH10_uc002jag.3_Silent_p.S103S|MARCH10_uc010dds.2_Silent_p.S103S|MARCH10_uc002jah.2_Silent_p.S103S	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	103							ligase activity|zinc ion binding				0						TCTGCTTGACTGATGTTTGGT	0.433													65	109					0	0	0.01441	0	0		C	60837269	C	C	60837269	2	2	140	1	0	0	0	0	0	0	0	1	9317	1567	55	3		3	MARCH10	17	60837269	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	1857266	60837269	20357941	546	75536											
FTSJ3	117246	broad.mit.edu	37	chr17	61901290	61901290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcccgctgctttctctgctCacgcaacagcttctttttct	4	16	5	16	2	4	0	1	0	3	0	6	0	5	0	1	0	4	5	1	0	1	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:61901290C>T	uc002jbz.2	-	12	1255	c.1177G>A	c.(1177-1179)GAG>AAG	p.E393K	FTSJ3_uc002jca.2_Missense_Mutation_p.E393K	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	393					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						TTTCTCTGCTCACGCAACAGC	0.532													17	101					0	0	0.006122	0	0		T	61901290	T	T	61901290	3	4	140	1	0	0	0	0	1	0	0	0	6103	835	29	4	1402	4	FTSJ3	17	61901290	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1064021	61901290	19293920	547	75537											
ICAM2	3384	broad.mit.edu	37	chr17	62081214	62081214	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgccacggaacaggaagaGggtgaggctgtccaggggct	10	6	17	8	1	0	2	0	1	0	1	1	4	1	4	2	6	2	2	2	6	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:62081214G>T	uc002jdu.3	-	3	671	c.439C>A	c.(439-441)CTC>ATC	p.L147I	C17orf72_uc002jdt.3_3'UTR|C17orf72_uc010wpu.1_3'UTR|C17orf72_uc010wpv.1_3'UTR|C17orf72_uc010wpw.1_3'UTR|ICAM2_uc002jdw.3_Missense_Mutation_p.L147I|ICAM2_uc010ded.2_Missense_Mutation_p.L147I|ICAM2_uc002jdx.3_Missense_Mutation_p.L147I|ICAM2_uc002jdv.3_Missense_Mutation_p.L147I	NM_000873	NP_000864	P13598	ICAM2_HUMAN	intercellular adhesion molecule 2 precursor	147	Ig-like C2-type 2.|Extracellular (Potential).				cell-cell adhesion|regulation of immune response	integral to plasma membrane	integrin binding			ovary(1)	1						AACAGGAAGAGGGTGAGGCTG	0.607													13	58					4.93089e-13	5.43807e-13	0.020292	1	0		T	62081214	T	T	62081214	3	4	140	1	0	0	0	0	1	0	0	0	7496	1000	35	5	396	5	ICAM2	17	62081214	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	179924	62081214	19113996	548	75538											
ERN1	2081	broad.mit.edu	37	chr17	62137923	62137923	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccagcatcttggtagacGcagacagtggggtttcatgg	8	11	13	9	1	3	2	1	0	2	2	4	2	3	2	1	4	1	4	1	4	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:62137923G>A	uc002jdz.2	-	11	1225	c.1112C>T	c.(1111-1113)GCG>GTG	p.A371V		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	371	Lumenal (Potential).				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						CTTGGTAGACGCAGACAGTGG	0.448													50	86					0	0	0.01441	0	0		A	62137923	A	A	62137923	3	1	140	1	0	0	0	0	1	0	0	0	5245	1087	38	1	1869	1	ERN1	17	62137923	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	56709	62137923	19057287	549	75539											
AXIN2	8313	broad.mit.edu	37	chr17	63532568	63532568	+	Frame_Shift_Del	DEL	G	-	-																															gtgggcacggggggtggtgcGggggtgcccgctgttgcccc																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:63532568delG	uc002jfi.2	-	8	2300	c.2011delC	c.(2011-2013)CGCfs	p.R671fs	AXIN2_uc002jfh.2_Frame_Shift_Del_p.R606fs	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	671					cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						GGGGTGGTGCGGGGGTGCCCG	0.682									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				25	56	---	---	---	---						.	-	63532568	-	-	63532568	7	5	140	1	0	1	0	1	0	0	0	0	1238	1116	39	0	536	0	AXIN2	17	63532568	Frame_Shift_Del	DEL	G	TCGA-CG-4465-01A-01D-1158-08	1394645	63532568	17662642	550	75540											
CCDC46	201134	broad.mit.edu	37	chr17	64059082	64059082	+	Frame_Shift_Del	DEL	T	-	-																															agtattttatgtagcttaccTttttttcccagtcattattt																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:64059082delT	uc002jfl.2	-	11	1292	c.1073delA	c.(1072-1074)AAGfs	p.K358fs	CCDC46_uc010deo.2_Frame_Shift_Del_p.K100fs|CCDC46_uc002jfm.2_Frame_Shift_Del_p.K358fs|CCDC46_uc010dep.2_Frame_Shift_Del_p.K316fs	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	358	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			GTAGCTTACCTTTTTTTCCCA	0.294													25	49	---	---	---	---						.	-	64059082	-	-	64059082	7	5	140	1	0	1	0	1	0	0	0	0	2820	1623	56	0	2028	0	CCDC46	17	64059082	Frame_Shift_Del	DEL	T	TCGA-CG-4465-01A-01D-1158-08	526514	64059082	17136128	551	75541											
KPNA2	3838	broad.mit.edu	37	chr17	66040114	66040114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gacaatgtcaaacatcacagCcggccgccaggaccagatac	14	4	9	14	2	2	1	2	0	0	1	2	3	2	2	4	2	3	0	4	2	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:66040114C>T	uc002jgk.2	+	8	1223	c.1091C>T	c.(1090-1092)GCC>GTC	p.A364V	KPNA2_uc002jgl.2_Missense_Mutation_p.A364V	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	364	ARM 7.|NLS binding site (minor) (By similarity).				DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			AACATCACAGCCGGCCGCCAG	0.478													8	249					0	0	0.008291	0	0		T	66040114	T	T	66040114	3	4	140	1	0	0	0	0	1	0	0	0	8446	739	26	2	1117	2	KPNA2	17	66040114	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1981032	66040114	15155096	552	75542											
SOX9	6662	broad.mit.edu	37	chr17	70120258	70120258	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgccccaacagatcgcctaCagccccttcaacctcccaca	10	6	4	21	2	1	1	1	0	0	1	4	1	2	1	7	0	4	0	7	0	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:70120258C>T	uc002jiw.2	+	3	1632	c.1260C>T	c.(1258-1260)TAC>TAT	p.Y420Y		NM_000346	NP_000337	P48436	SOX9_HUMAN	transcription factor SOX9	420					cAMP-mediated signaling|negative regulation of transcription, DNA-dependent|positive regulation of branching involved in ureteric bud morphogenesis|protein complex assembly|renal vesicle induction	nucleus|protein complex	core promoter sequence-specific DNA binding|enhancer binding|protein kinase A catalytic subunit binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription				0		Colorectal(1115;0.245)	STAD - Stomach adenocarcinoma(260;0.119)			AGATCGCCTACAGCCCCTTCA	0.637													64	144					0	0	0.01441	0	0		T	70120258	T	T	70120258	2	4	140	1	0	0	0	0	0	0	0	1	14983	489	17	4		4	SOX9	17	70120258	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4080144	70120258	11074952	553	75543											
TNRC6C	57690	broad.mit.edu	37	chr17	76045711	76045711	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaaataacactaaccccAtgaactcttcacccaaccct	15	7	2	17	0	2	1	1	1	1	0	2	2	2	1	5	0	4	0	5	0	5	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:76045711A>G	uc002jud.2	+	4	1168	c.568A>G	c.(568-570)ATG>GTG	p.M190V	TNRC6C_uc002juf.2_Missense_Mutation_p.M190V|TNRC6C_uc002jue.2_Missense_Mutation_p.M190V	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	190	Sufficient for interaction with argonaute family proteins.				gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			CACTAACCCCATGAACTCTTC	0.502													116	238					0	0	0.01441	0	0		G	76045711	G	G	76045711	3	3	140	1	0	0	0	0	1	0	0	0	16367	217	8	3	570	3	TNRC6C	17	76045711	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	5925453	76045711	5149499	554	75544											
USP36	57602	broad.mit.edu	37	chr17	76832231	76832231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcatctccactcttgtggCgactagctccctctgttttg	4	15	9	13	1	4	0	1	0	3	0	6	1	5	0	2	2	1	2	2	2	1	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:76832231C>T	uc002jvz.1	-	3	540	c.215G>A	c.(214-216)CGC>CAC	p.R72H	USP36_uc002jwa.1_Missense_Mutation_p.R72H|USP36_uc002jwd.1_Missense_Mutation_p.R72H	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	72					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			ACTCTTGTGGCGACTAGCTCC	0.557													21	39					0	0	0.012319	0	0		T	76832231	T	T	76832231	3	4	140	1	0	0	0	0	1	0	0	0	17093	768	27	1	3228	1	USP36	17	76832231	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	786520	76832231	4362979	555	75545											
CCDC40	55036	broad.mit.edu	37	chr17	78069228	78069228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagcagcttgagctgcgccGgaaaatcagggacgttcgca	11	6	13	11	4	1	1	1	1	0	0	2	3	1	3	1	2	4	5	1	2	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:78069228G>A	uc010dht.2	+	18	3026	c.2999G>A	c.(2998-3000)CGG>CAG	p.R1000Q	CCDC40_uc002jxm.3_Missense_Mutation_p.R783Q|CCDC40_uc002jxn.3_Missense_Mutation_p.R396Q	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	1000					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GAGCTGCGCCGGAAAATCAGG	0.622													11	28					0	0	0.00499	0	0		A	78069228	A	A	78069228	3	1	140	1	0	0	0	0	1	0	0	0	2815	1116	39	1	3069	1	CCDC40	17	78069228	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1236997	78069228	3125982	556	75546											
CARD14	79092	broad.mit.edu	37	chr17	78157813	78157813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagaaggaggtgctgctgCggcggtgccagcagctgcag	7	5	19	10	2	0	1	0	0	0	1	0	2	0	2	1	5	7	6	1	5	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:78157813C>T	uc002jxw.1	+	4	646	c.451C>T	c.(451-453)CGG>TGG	p.R151W	CARD14_uc002jxt.1_RNA|CARD14_uc002jxv.2_Missense_Mutation_p.R151W|CARD14_uc010wud.1_RNA	NM_024110	NP_077015	Q9BXL6	CAR14_HUMAN	caspase recruitment domain protein 14 isoform 1	151	Potential.				activation of NF-kappaB-inducing kinase activity|positive regulation of protein phosphorylation|regulation of apoptosis	aggresome|cytoplasm|plasma membrane	CARD domain binding			ovary(4)|skin(1)	5	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			GGTGCTGCTGCGGCGGTGCCA	0.667													4	1					0	0	0.014758	0	0		T	78157813	T	T	78157813	3	4	140	1	0	0	0	0	1	0	0	0	2649	759	27	1	461	1	CARD14	17	78157813	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	88585	78157813	3037397	557	75547											
B3GNTL1	146712	broad.mit.edu	37	chr17	80919007	80919007	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtccacgcggatgacgccGccgcccttcctgaggtgctc	4	8	13	16	5	0	2	0	2	0	0	3	3	2	3	5	3	1	1	5	3	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr17:80919007G>A	uc002kgg.1	-	8	665	c.651C>T	c.(649-651)GGC>GGT	p.G217G	B3GNTL1_uc002kgf.1_Silent_p.G106G|B3GNTL1_uc002kge.1_RNA	NM_001009905	NP_001009905	Q67FW5	B3GNL_HUMAN	UDP-GlcNAc:betaGal	217							transferase activity, transferring glycosyl groups			ovary(1)|pancreas(1)	2	Breast(20;0.000443)|all_neural(118;0.0779)	all_cancers(8;0.0396)|all_epithelial(8;0.0556)	BRCA - Breast invasive adenocarcinoma(99;0.0517)|OV - Ovarian serous cystadenocarcinoma(97;0.0868)			GGATGACGCCGCCGCCCTTCC	0.697													4	11					0	0	0.009096	0	0		A	80919007	A	A	80919007	2	1	140	1	0	0	0	0	0	0	0	1	1266	1074	38	1		1	B3GNTL1	17	80919007	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2761194	80919007	276203	558	75548											
CEP192	55125	broad.mit.edu	37	chr18	13049878	13049878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctagtgaaatttctggaaCgagttcatcagggtaagtgt	11	13	11	6	1	3	1	2	1	1	0	4	3	4	2	1	2	1	2	1	2	4	4	rs142411472		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr18:13049878C>T	uc010xac.1	+	17	3085	c.3005C>T	c.(3004-3006)ACG>ATG	p.T1002M	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.T527M|CEP192_uc002kru.2_RNA|CEP192_uc002krs.1_Missense_Mutation_p.T743M	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1002										ovary(4)|pancreas(1)	5						ATTTCTGGAACGAGTTCATCA	0.403													28	87					0	0	0.008361	0	0		T	13049878	T	T	13049878	3	4	140	1	0	0	0	0	1	0	0	0	3254	536	19	1	3067	1	CEP192	18	13049878	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08		13049878	65027370	559	75549											
DSG1	1828	broad.mit.edu	37	chr18	28913591	28913591	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgtaagaggctctgacCgagatggcggggcagatggc	8	8	17	8	2	1	4	0	1	1	3	1	5	1	4	1	5	1	4	1	5	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr18:28913591C>T	uc002kwp.2	+	7	936	c.724C>T	c.(724-726)CGA>TGA	p.R242*		NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	242	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			AGGCTCTGACCGAGATGGCGG	0.428													31	75					0	0	0.017118	0	0		T	28913591	T	T	28913591	4	4	140	1	0	0	0	0	0	1	0	0	4782	644	23	1	750	1	DSG1	18	28913591	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	15863713	28913591	49163657	560	75550											
C18orf34	374864	broad.mit.edu	37	chr18	30873148	30873148	+	Frame_Shift_Del	DEL	T	-	-																															ttgatagagaatgtaattcaTtttttgatgactttgtttcc																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr18:30873148delT	uc002kxn.2	-	11	1293	c.1151delA	c.(1150-1152)AATfs	p.N384fs	C18orf34_uc010xbr.1_Frame_Shift_Del_p.N384fs|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Frame_Shift_Del_p.N384fs|C18orf34_uc002kxp.2_Frame_Shift_Del_p.N384fs	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	384	Potential.									ovary(1)	1						ATGTAATTCATTTTTTGATGA	0.259													21	47	---	---	---	---						.	-	30873148	-	-	30873148	7	5	140	1	0	1	0	1	0	0	0	0	1905	1493	52	0	1500	0	C18orf34	18	30873148	Frame_Shift_Del	DEL	T	TCGA-CG-4465-01A-01D-1158-08	1959557	30873148	47204100	561	75551											
SETBP1	26040	broad.mit.edu	37	chr18	42532846	42532846	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcaggcaaagccacaggcTtctccagccacatcctgagc	10	7	9	15	0	1	1	0	1	1	0	3	1	2	1	4	2	4	3	4	2	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr18:42532846T>G	uc010dni.2	+	4	3837	c.3541T>G	c.(3541-3543)TTC>GTC	p.F1181V		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1181						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		AGCCACAGGCTTCTCCAGCCA	0.522									Schinzel-Giedion_syndrome				20	63					0	0	0.012319	0	0		G	42532846	G	G	42532846	3	3	140	1	0	0	0	0	1	0	0	0	14154	1609	56	5	3744	5	SETBP1	18	42532846	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	11659698	42532846	35544402	562	75552											
TCEB3B	51224	broad.mit.edu	37	chr18	44560283	44560283	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatggctgggcaccgttttCggcccggcggaatcagcgcc	6	7	14	14	5	1	0	1	0	0	0	2	1	1	1	3	5	1	3	3	5	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr18:44560283C>T	uc002lcr.1	-	1	1706	c.1353G>A	c.(1351-1353)CCG>CCA	p.P451P	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	451					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GCACCGTTTTCGGCCCGGCGG	0.602													40	81					0	0	0.01441	0	0		T	44560283	T	T	44560283	2	4	140	1	0	0	0	0	0	0	0	1	15707	871	31	1		1	TCEB3B	18	44560283	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2027437	44560283	33516965	563	75553											
GRP	2922	broad.mit.edu	37	chr18	56892843	56892843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcaaggaatttgctgggtCtcatagaagcaaaggagaac	14	8	12	7	0	1	2	1	0	1	2	2	4	1	3	0	3	4	3	0	3	6	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr18:56892843C>T	uc002lhv.2	+	2	357	c.259C>T	c.(259-261)CTC>TTC	p.L87F	GRP_uc002lhu.2_Missense_Mutation_p.L87F|GRP_uc002lhw.2_Missense_Mutation_p.L87F	NM_002091	NP_002082	P07492	GRP_HUMAN	gastrin-releasing peptide isoform 1	87					neuropeptide signaling pathway	extracellular space	neuropeptide hormone activity				0		Colorectal(73;0.0946)				TTTGCTGGGTCTCATAGAAGC	0.527													43	97					0	0	0.006999	0	0		T	56892843	T	T	56892843	3	4	140	1	0	0	0	0	1	0	0	0	6821	913	32	4	265	4	GRP	18	56892843	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	12332560	56892843	21184405	564	75554											
CYB5A	1528	broad.mit.edu	37	chr18	71920841	71920841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctctgccatgtataggCgatacatcaaggcgacggcc	10	8	11	12	3	2	0	1	0	1	0	3	2	3	0	3	3	2	1	3	3	4	3	rs145656581	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr18:71920841C>T	uc002lli.2	-	5	494	c.383G>A	c.(382-384)CGC>CAC	p.R128H	CYB5A_uc002llh.2_3'UTR	NM_148923	NP_683725	P00167	CYB5_HUMAN	cytochrome b-5 isoform 1	128	Helical; (Potential).				electron transport chain|water-soluble vitamin metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane	aldo-keto reductase (NADP) activity|cytochrome-c oxidase activity|enzyme binding|heme binding				0		Esophageal squamous(42;0.0749)|Prostate(75;0.157)|Melanoma(33;0.211)			Methoxyflurane(DB01028)	CATGTATAGGCGATACATCAA	0.502													6	39					0	0	0.001168	0	0		T	71920841	T	T	71920841	3	4	140	1	0	0	0	0	1	0	0	0	4125	768	27	1	25	1	CYB5A	18	71920841	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	15027998	71920841	6156407	565	75555											
MBP	4155	broad.mit.edu	37	chr18	74817183	74817183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttaccgtactggccttctcgGcatttaattctcgtttgcct	5	17	7	12	3	2	0	0	0	2	0	4	0	2	0	3	2	3	3	3	2	3	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr18:74817183G>A	uc010xfd.1	-	2	299	c.35C>T	c.(34-36)GCC>GTC	p.A12V	MBP_uc002lmr.2_Missense_Mutation_p.A12V	NM_001025101	NP_001020272	P02686	MBP_HUMAN	Golli-mbp isoform 1	12					central nervous system development|immune response|synaptic transmission	plasma membrane	structural constituent of myelin sheath			haematopoietic_and_lymphoid_tissue(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.79e-06)|BRCA - Breast invasive adenocarcinoma(31;0.113)|READ - Rectum adenocarcinoma(1;0.188)		GGCCTTCTCGGCATTTAATTC	0.468													48	114					0	0	0.01441	0	0		A	74817183	A	A	74817183	3	1	140	1	0	0	0	0	1	0	0	0	9377	1203	42	2	1011	2	MBP	18	74817183	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	2896342	74817183	3260065	566	75556											
SALL3	27164	broad.mit.edu	37	chr18	76753543	76753543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggctggacagcaagcccGtgctgcccaccgtgcccacg	6	5	12	18	3	0	0	0	0	0	0	0	1	0	1	5	2	5	3	5	2	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr18:76753543G>A	uc002lmt.2	+	2	1552	c.1552G>A	c.(1552-1554)GTG>ATG	p.V518M	SALL3_uc010dra.2_Missense_Mutation_p.V125M	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	518					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CAGCAAGCCCGTGCTGCCCAC	0.721													8	15					0	0	0.004482	0	0		A	76753543	A	A	76753543	3	1	140	1	0	0	0	0	1	0	0	0	13837	1145	40	1	1558	1	SALL3	18	76753543	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1936360	76753543	1323705	567	75557											
CTDP1	9150	broad.mit.edu	37	chr18	77475181	77475181	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggtgagtccctggaccAgagcatggaggaggaggagg	9	5	20	7	1	0	2	0	1	0	1	1	7	1	7	2	7	2	1	2	7	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr18:77475181A>C	uc002lnh.1	+	8	1868	c.1721A>C	c.(1720-1722)CAG>CCG	p.Q574P	CTDP1_uc002lni.1_Missense_Mutation_p.Q574P|CTDP1_uc010drd.1_Missense_Mutation_p.Q574P	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	574					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		TCCCTGGACCAGAGCATggag	0.547													4	8					0	0	0.009096	0	0		C	77475181	C	C	77475181	3	2	140	1	0	0	0	0	1	0	0	0	4005	188	7	5	1751	5	CTDP1	18	77475181	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	721638	77475181	602067	568	75558											
C19orf22	91300	broad.mit.edu	37	chr19	902078	902078	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtttccgcctggaagccgAgagtctcttcacctgggagc	6	10	12	13	2	2	1	1	0	1	1	4	4	3	3	4	2	2	1	4	2	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:902078A>G	uc002lqg.2	-	2	192	c.124T>C	c.(124-126)TCG>CCG	p.S42P	C19orf22_uc002lqh.2_Intron|C19orf22_uc002lqi.2_Missense_Mutation_p.S42P|C19orf22_uc002lqj.2_5'UTR	NM_138774	NP_620129	Q96D70	CS022_HUMAN	hypothetical protein LOC91300	42						nucleus	nucleic acid binding			pancreas(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGGAAGCCGAGAGTCTCTTC	0.662													33	98					0	0	0.00623	0	0		G	902078	G	G	902078	3	3	140	1	0	0	0	0	1	0	0	0	1917	304	11	3	710	3	C19orf22	19	902078	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08		902078	58226905	569	75559											
C19orf6	91304	broad.mit.edu	37	chr19	1010864	1010864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcaggatggcaggcagctCgtagtggtggaagaagtaga	11	7	17	6	1	0	2	0	0	0	2	1	4	0	4	0	5	2	6	0	5	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:1010864C>T	uc002lqr.1	-	11	1494	c.1348G>A	c.(1348-1350)GAG>AAG	p.E450K	uc002lqp.1_5'Flank|C19orf6_uc002lqq.1_RNA|C19orf6_uc002lqs.1_3'UTR	NM_001033026	NP_001028198	Q4ZIN3	MBRL_HUMAN	membralin isoform 1	450						cytoplasm|integral to membrane				pancreas(2)|breast(1)	3		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.0252)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGGCAGCTCGTAGTGGTGG	0.677													10	16					0	0	0.010729	0	0		T	1010864	T	T	1010864	3	4	140	1	0	0	0	0	1	0	0	0	1944	893	31	1	518	1	C19orf6	19	1010864	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	108786	1010864	58118119	570	75560											
THOP1	7064	broad.mit.edu	37	chr19	2810725	2810725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaccccgccgaggagtatgCgcggctctgccaggagatcc	8	5	14	14	4	1	2	0	0	1	2	2	5	2	3	5	3	2	2	5	3	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:2810725C>T	uc002lwj.2	+	11	1885	c.1730C>T	c.(1729-1731)GCG>GTG	p.A577V	THOP1_uc010xgz.1_Missense_Mutation_p.A456V|THOP1_uc002lwk.2_Missense_Mutation_p.A88V	NM_003249	NP_003240	P52888	THOP1_HUMAN	thimet oligopeptidase 1	577					proteolysis	cytoplasm	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAGGAGTATGCGCGGCTCTGC	0.687													3	10					0	0	0.009096	0	0		T	2810725	T	T	2810725	3	4	140	1	0	0	0	0	1	0	0	0	15896	768	27	1	1772	1	THOP1	19	2810725	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1799861	2810725	56318258	571	75561											
ZNF555	148254	broad.mit.edu	37	chr19	2852714	2852714	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtacttcctccctcaatcgGcatgtaaggattcacactgc	9	11	7	14	2	2	0	2	0	0	0	5	1	4	1	2	2	2	3	2	2	3	4	rs139480369	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:2852714G>A	uc002lwo.2	+	4	740	c.651G>A	c.(649-651)CGG>CGA	p.R217R	ZNF555_uc002lwn.3_Silent_p.R216R	NM_152791	NP_690004	Q8NEP9	ZN555_HUMAN	zinc finger protein 555	217	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCTCAATCGGCATGTAAGGA	0.428													48	91					0	0	0.01441	0	0		A	2852714	A	A	2852714	2	1	140	1	0	0	0	0	0	0	0	1	18011	1190	42	2		2	ZNF555	19	2852714	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	41989	2852714	56276269	572	75562											
ZNF556	80032	broad.mit.edu	37	chr19	2877633	2877633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacatgtaaggactcacaCtggagagaaaccctacgaat	16	7	9	9	1	1	2	1	1	0	1	1	6	1	4	1	2	3	1	1	2	5	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:2877633C>T	uc002lwp.1	+	4	764	c.677C>T	c.(676-678)ACT>ATT	p.T226I	ZNF556_uc002lwq.2_Missense_Mutation_p.T225I	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	226					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGACTCACACTGGAGAGAAA	0.502													23	73					0	0	0.012319	0	0		T	2877633	T	T	2877633	3	4	140	1	0	0	0	0	1	0	0	0	18012	565	20	4	691	4	ZNF556	19	2877633	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	24919	2877633	56251350	573	75563											
GNA11	2767	broad.mit.edu	37	chr19	3113410	3113410	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcagtgccatcaagacccTgtgggaggacccgggcatcc	8	6	13	14	2	2	1	2	0	0	1	3	3	3	3	4	3	1	1	4	3	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:3113410T>C	uc002lxd.2	+	3	646	c.404T>C	c.(403-405)CTG>CCG	p.L135P		NM_002067	NP_002058	P29992	GNA11_HUMAN	guanine nucleotide binding protein (G protein),	135					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation|regulation of action potential	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			eye(70)|skin(16)	86		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.79e-05)|OV - Ovarian serous cystadenocarcinoma(105;2.68e-113)|Epithelial(107;1.22e-111)|all cancers(105;5.78e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00141)|STAD - Stomach adenocarcinoma(1328;0.181)		ATCAAGACCCTGTGGGAGGAC	0.652			Mis		uveal melanoma								4	63					0	0	0.009096	0	0		C	3113410	C	C	3113410	3	2	140	1	0	0	0	0	1	0	0	0	6514	1580	55	3	414	3	GNA11	19	3113410	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	235777	3113410	56015573	574	75564											
TICAM1	148022	broad.mit.edu	37	chr19	4818338	4818338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagagcttgtcctggcctgCtgcacctagaatgtcgaagg	9	9	12	11	1	0	2	0	0	0	2	2	3	1	2	3	2	3	3	3	2	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:4818338C>T	uc002mbi.2	-	2	303	c.52G>A	c.(52-54)GCA>ACA	p.A18T		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	18					apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		TCCTGGCCTGCTGCACCTAGA	0.607													30	43					0	0	0.010818	0	0		T	4818338	T	T	4818338	3	4	140	1	0	0	0	0	1	0	0	0	15917	797	28	2	2090	2	TICAM1	19	4818338	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1704928	4818338	54310645	575	75565											
PLIN3	10226	broad.mit.edu	37	chr19	4852210	4852210	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaccgcgggtcgcgtccAccgcctccgacaattgggtg	6	6	13	16	6	0	0	0	0	0	0	3	1	2	0	5	2	1	1	5	2	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:4852210A>G	uc002mbj.2	-	5	629	c.452T>C	c.(451-453)GTG>GCG	p.V151A	PLIN3_uc002mbk.2_Missense_Mutation_p.V139A|PLIN3_uc002mbl.3_Missense_Mutation_p.V151A	NM_005817	NP_005808	O60664	PLIN3_HUMAN	mannose 6 phosphate receptor binding protein 1	151					vesicle-mediated transport	endosome membrane|Golgi apparatus|lipid particle	protein binding				0					Galsulfase(DB01279)|Idursulfase(DB01271)	GGTCGCGTCCACCGCCTCCGA	0.647											OREG0025175	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	15					0	0	0.004007	0	0		G	4852210	G	G	4852210	3	3	140	1	0	0	0	0	1	0	0	0	12110	159	6	3	868	3	PLIN3	19	4852210	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	33872	4852210	54276773	576	75566											
PSPN	5623	broad.mit.edu	37	chr19	6375771	6375771	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaactctccatcggccacGggaaccccacgggcatcggg	9	4	13	15	4	1	1	0	0	1	1	4	3	1	2	4	4	2	1	4	4	2	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:6375771G>A	uc010xja.1	-	1	90	c.90C>T	c.(88-90)CCC>CCT	p.P30P		NM_004158	NP_004149	O60542	PSPN_HUMAN	persephin precursor	30					axon guidance|central nervous system development		growth factor activity			skin(1)	1						CATCGGCCACGGGAACCCCAC	0.642													22	38					0	0	0.010818	0	0		A	6375771	A	A	6375771	2	1	140	1	0	0	0	0	0	0	0	1	12740	1103	39	1		1	PSPN	19	6375771	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1523561	6375771	52753212	577	75567											
KIAA1543	57662	broad.mit.edu	37	chr19	7682705	7682705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgagctgccagttccgggCgctctacacgctgtcggggg	4	8	15	14	5	1	0	0	0	1	0	4	1	2	0	2	3	3	4	2	3	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:7682705C>T	uc002mgv.3	+	17	3613	c.3512C>T	c.(3511-3513)GCG>GTG	p.A1171V	KIAA1543_uc002mgu.3_Missense_Mutation_p.A1198V|KIAA1543_uc002mgw.2_Missense_Mutation_p.A301V	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	1171	CKK.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						CAGTTCCGGGCGCTCTACACG	0.617													17	18					0	0	0.004656	0	0		T	7682705	T	T	7682705	3	4	140	1	0	0	0	0	1	0	0	0	8259	768	27	1	3667	1	KIAA1543	19	7682705	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1306934	7682705	51446278	578	75568											
XAB2	56949	broad.mit.edu	37	chr19	7693109	7693109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggggcgccctgtttgaactCgatgtagcgaagccagcatt	8	9	13	11	4	0	1	0	1	0	0	1	3	0	1	2	2	4	3	2	2	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:7693109C>T	uc002mgx.2	-	2	153	c.127G>A	c.(127-129)GAG>AAG	p.E43K	uc010dvi.1_5'Flank	NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	43	HAT 1.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						TGTTTGAACTCGATGTAGCGA	0.592								Direct_reversal_of_damage|NER					27	55					0	0	0.010818	0	0		T	7693109	T	T	7693109	3	4	140	1	0	0	0	0	1	0	0	0	17444	893	31	1	2512	1	XAB2	19	7693109	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	10404	7693109	51435874	579	75569											
ZNF559	84527	broad.mit.edu	37	chr19	9452461	9452461	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttaagactcacaggagaActtactttagaaagaaaacc	17	8	7	9	0	1	4	1	0	0	4	1	5	1	4	2	1	3	0	2	1	7	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:9452461A>G	uc002mlg.2	+	7	981	c.334A>G	c.(334-336)ACT>GCT	p.T112A	ZNF559_uc002mlf.2_5'UTR|ZNF559_uc010dwl.1_5'UTR|ZNF559_uc010xkn.1_Missense_Mutation_p.T104A|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Missense_Mutation_p.T176A|ZNF559_uc010dwk.1_5'UTR|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	112	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCACAGGAGAACTTACTTTAG	0.383													8	123					0	0	0.004482	0	0		G	9452461	G	G	9452461	3	3	140	1	0	0	0	0	1	0	0	0	18015	43	2	3	348	3	ZNF559	19	9452461	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1759352	9452461	49676522	580	75570											
ZNF559	84527	broad.mit.edu	37	chr19	9452553	9452553	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttacacaagaaaactgatatCggagaggaacttcctaactg	16	9	8	8	1	0	3	0	1	0	2	2	5	1	4	1	2	4	0	1	2	7	4	rs147973414	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:9452553C>T	uc002mlg.2	+	7	1073	c.426C>T	c.(424-426)ATC>ATT	p.I142I	ZNF559_uc002mlf.2_5'UTR|ZNF559_uc010dwl.1_5'UTR|ZNF559_uc010xkn.1_Silent_p.I134I|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Silent_p.I206I|ZNF559_uc010dwk.1_5'UTR|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAACTGATATCGGAGAGGAAC	0.363													57	106					0	0	0.01441	0	0		T	9452553	T	T	9452553	2	4	140	1	0	0	0	0	0	0	0	1	18015	874	31	1		1	ZNF559	19	9452553	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	92	9452553	49676430	581	75571											
ZNF561	93134	broad.mit.edu	37	chr19	9721783	9721783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagaacttcaagatgtacaGcaagacctggagttagagta	15	9	11	6	0	1	4	1	1	0	4	1	6	1	5	1	1	3	4	1	1	6	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:9721783G>A	uc002mlu.2	-	6	759	c.554C>T	c.(553-555)GCT>GTT	p.A185V	ZNF561_uc010dwu.2_Missense_Mutation_p.A116V|ZNF561_uc010xkr.1_Missense_Mutation_p.A49V	NM_152289	NP_689502	Q8N587	ZN561_HUMAN	zinc finger protein 561	185	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAGATGTACAGCAAGACCTGG	0.403													26	56					0	0	0.004656	0	0		A	9721783	A	A	9721783	3	1	140	1	0	0	0	0	1	0	0	0	18017	971	34	2	910	2	ZNF561	19	9721783	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	269230	9721783	49407200	582	75572											
PPAN-P2RY11	692312	broad.mit.edu	37	chr19	10221628	10221628	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctctccccacagacctgttCcccgaggccaagcagaaacg	10	6	8	17	2	1	2	0	0	1	2	4	3	3	2	6	1	2	2	6	1	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:10221628C>T	uc002mna.2	+	12	1209	c.1209C>T	c.(1207-1209)TTC>TTT	p.F403F	PPAN-P2RY11_uc010xla.1_Silent_p.F403F|P2RY11_uc002mnc.2_5'Flank|PPAN_uc002mmz.1_Silent_p.F403F|PPAN_uc002mnb.1_Silent_p.F350F	NM_001040664	NP_001035754	Q9NQ55	SSF1_HUMAN	PPAN-P2RY11 protein	403					RNA splicing	nucleolus	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(20;2.19e-08)|Epithelial(33;1.76e-05)|all cancers(31;3.54e-05)			CAGACCTGTTCCCCGAGGCCA	0.627													22	64					0	0	0.021022	0	0		T	10221628	T	T	10221628	2	4	140	1	0	0	0	0	0	0	0	1	12308	854	30	4		4	PPAN-P2RY11	19	10221628	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	499845	10221628	48907355	583	75573											
DNMT1	1786	broad.mit.edu	37	chr19	10277310	10277310	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcctcgtcagcctgcacGcctgccctggcttctctgtc	2	12	9	18	3	2	0	1	0	1	0	7	0	3	0	4	1	3	2	4	1	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:10277310G>A	uc002mng.2	-	10	987	c.807C>T	c.(805-807)GGC>GGT	p.G269G	DNMT1_uc010xlc.1_Silent_p.G285G|DNMT1_uc002mnh.2_Silent_p.G164G|DNMT1_uc010xld.1_Silent_p.G269G|DNMT1_uc002mnk.2_RNA	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	269	Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	CAGCCTGCACGCCTGCCCTGG	0.567													6	148					0	0	0.00308	0	0		A	10277310	A	A	10277310	2	1	140	1	0	0	0	0	0	0	0	1	4681	1074	38	1		1	DNMT1	19	10277310	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	55682	10277310	48851673	584	75574											
ZNF564	163050	broad.mit.edu	37	chr19	12637603	12637604	+	Frame_Shift_Del	DEL	AT	-	-																															catctccagtgtgcagtatcAtatgttttctaatcctttta																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:12637603_12637604delAT	uc002mty.2	-	4	1528_1529	c.1318_1319delAT	c.(1318-1320)ATGfs	p.M440fs	ZNF709_uc002mtx.3_Intron	NM_144976	NP_659413	Q8TBZ8	ZN564_HUMAN	zinc finger protein 564	440	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GTGCAGTATCATATGTTTTCTA	0.391													149	309	---	---	---	---						.	-	12637604	-	-	12637603	7	5	140	1	0	1	0	1	0	0	0	0	18020	217	8	0	346	0	ZNF564	19	12637603	Frame_Shift_Del	DEL	AT	TCGA-CG-4465-01A-01D-1158-08	2360293	12637603	46491380	585	75575											
MAN2B1	4125	broad.mit.edu	37	chr19	12759146	12759146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcgccctcgcacccacGcccccgacccgttctccatt	4	7	9	21	5	1	0	0	0	1	0	3	1	1	0	6	2	0	2	6	2	0	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:12759146G>A	uc002mub.2	-	21	2583	c.2507C>T	c.(2506-2508)GCG>GTG	p.A836V	MAN2B1_uc010dyv.1_Missense_Mutation_p.A835V	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	836					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						TCGCACCCACGCCCCCGACCC	0.701													12	31					0	0	0.016723	0	0		A	12759146	A	A	12759146	3	1	140	1	0	0	0	0	1	0	0	0	9234	1087	38	1	544	1	MAN2B1	19	12759146	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	121543	12759146	46369837	586	75576											
RFX1	5989	broad.mit.edu	37	chr19	14074062	14074062	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagctggcggcgctgcgcaGggtcaggtcccggatcacca	7	5	16	13	4	2	0	2	0	0	0	3	2	3	1	2	5	2	3	2	5	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:14074062G>A	uc002mxv.2	-	19	2868	c.2596C>T	c.(2596-2598)CTG>TTG	p.L866L		NM_002918	NP_002909	P22670	RFX1_HUMAN	regulatory factor X1	866	Necessary for dimerization.				immune response	nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			lung(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			GCGCTGCGCAGGGTCAGGTCC	0.677													11	16					0	0	0.008291	0	0		A	14074062	A	A	14074062	2	1	140	1	0	0	0	0	0	0	0	1	13287	991	35	4		4	RFX1	19	14074062	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1314916	14074062	45054921	587	75577											
CYP4F8	11283	broad.mit.edu	37	chr19	15726481	15726481	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccggtggcagcatccccGtggctgctcctgctggtggt	3	9	16	13	2	0	0	0	0	0	0	2	0	2	0	4	6	3	5	4	6	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:15726481G>A	uc002nbi.2	+	2	118	c.54G>A	c.(52-54)CCG>CCA	p.P18P	CYP4F8_uc010xoi.1_Silent_p.P18P|CYP4F8_uc010xoj.1_Translation_Start_Site	NM_007253	NP_009184	P98187	CP4F8_HUMAN	cytochrome P450, family 4, subfamily F,	18	Helical; (Potential).				prostaglandin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	alkane 1-monooxygenase activity|aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			large_intestine(1)	1						CAGCATCCCCGTGGCTGCTCC	0.672													11	19					0	0	0.014323	0	0		A	15726481	A	A	15726481	2	1	140	1	0	0	0	0	0	0	0	1	4194	1132	40	1		1	CYP4F8	19	15726481	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1652419	15726481	43402502	588	75578											
ANKLE1	126549	broad.mit.edu	37	chr19	17394228	17394228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggattacagctcagacGcctctttcgtcacagcggtt	8	11	10	12	3	3	1	2	0	1	1	4	2	3	2	1	2	3	2	1	2	1	3	rs10415287	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:17394228G>A	uc002nga.2	+	5	931	c.655G>A	c.(655-657)GCC>ACC	p.A219T	ANKLE1_uc010xpm.1_RNA|ANKLE1_uc010eao.1_Missense_Mutation_p.A241T|ANKLE1_uc010xpn.1_Missense_Mutation_p.A273T|ANKLE1_uc002nfy.2_Missense_Mutation_p.A208T|ANKLE1_uc002nfz.2_5'UTR	NM_152363	NP_689576	Q8NAG6	ANKL1_HUMAN	ankyrin repeat domain 41	219						nuclear envelope					0						CAGCTCAGACGCCTCTTTCGT	0.637													33	83					0	0	0.012213	0	0		A	17394228	A	A	17394228	3	1	140	1	0	0	0	0	1	0	0	0	632	1087	38	1	673	1	ANKLE1	19	17394228	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1667747	17394228	41734755	589	75579											
KIAA1683	80726	broad.mit.edu	37	chr19	18376152	18376152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagacaggtggctagaggcGcttgggactggaccttcacg	8	8	15	10	2	2	2	2	0	0	2	2	4	2	4	1	5	0	2	1	5	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:18376152G>A	uc002nin.2	-	3	2414	c.2198C>T	c.(2197-2199)GCG>GTG	p.A733V	KIAA1683_uc010ebn.2_Missense_Mutation_p.A733V|KIAA1683_uc010xqe.1_Missense_Mutation_p.A687V	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	733						mitochondrion				ovary(2)	2						GGCTAGAGGCGCTTGGGACTG	0.612													36	76					0	0	0.021022	0	0		A	18376152	A	A	18376152	3	1	140	1	0	0	0	0	1	0	0	0	8267	1087	38	1	1913	1	KIAA1683	19	18376152	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	981924	18376152	40752831	590	75580											
C19orf60	55049	broad.mit.edu	37	chr19	18700331	18700331	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcggccctgactacgacttCgcgcgctaccggagcacagt	8	6	12	15	6	0	1	0	1	0	0	1	3	0	2	2	2	4	2	2	2	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:18700331C>T	uc002njv.3	+	3	408	c.291C>T	c.(289-291)TTC>TTT	p.F97F	C19orf60_uc010ebs.2_Silent_p.F75F|C19orf60_uc002njw.3_Silent_p.F109F|C19orf60_uc002nju.2_Silent_p.F109F	NM_001100418	NP_001093888	Q96EN9	CS060_HUMAN	hypothetical protein LOC55049 isoform 1	97							protein binding				0						ACTACGACTTCGCGCGCTACC	0.746													3	5					0	0	0.014758	0	0		T	18700331	T	T	18700331	2	4	140	1	0	0	0	0	0	0	0	1	1945	883	31	1		1	C19orf60	19	18700331	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	324179	18700331	40428652	591	75581											
SFRS14	10147	broad.mit.edu	37	chr19	19115185	19115185	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcccgcccctccaggagcGggggcctcctctcccccatc	3	7	10	21	2	1	0	0	0	1	0	5	1	3	1	8	3	2	0	8	3	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:19115185G>A	uc002nkx.2	-	7	2867	c.2721C>T	c.(2719-2721)CCC>CCT	p.P907P	SFRS14_uc002nkz.1_Silent_p.P921P|SFRS14_uc002nla.1_Silent_p.P907P|SFRS14_uc002nlb.2_Silent_p.P907P|SFRS14_uc010xqk.1_Silent_p.P676P	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	907					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			CTCCAGGAGCGGGGGcctcct	0.567													17	24					0	0	0.006122	0	0		A	19115185	A	A	19115185	2	1	140	1	0	0	0	0	0	0	0	1	14195	1103	39	1		1	SFRS14	19	19115185	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	414854	19115185	40013798	592	75582											
ARMC6	93436	broad.mit.edu	37	chr19	19166101	19166101	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagcaagtgctgagcaccCtgcgagccatcgcaggcaac	11	5	12	13	2	0	2	0	2	0	0	1	3	0	2	2	1	6	5	2	1	3	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:19166101C>A	uc002nld.2	+	7	1399	c.1051C>A	c.(1051-1053)CTG>ATG	p.L351M	ARMC6_uc002nlc.2_Missense_Mutation_p.L326M|ARMC6_uc010xql.1_Missense_Mutation_p.L258M|ARMC6_uc002nle.2_Missense_Mutation_p.L326M|ARMC6_uc010xqm.1_Missense_Mutation_p.L351M	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	351	ARM 3.						protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)			GCTGAGCACCCTGCGAGCCAT	0.617													13	84					1.61879e-10	1.76015e-10	0.013537	1	0		A	19166101	A	A	19166101	3	1	140	1	0	0	0	0	1	0	0	0	956	680	24	5	994	5	ARMC6	19	19166101	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	50916	19166101	39962882	593	75583											
RBM42	79171	broad.mit.edu	37	chr19	36124838	36124838	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcggcctcctgcccccgCtgcgcattcctgaactcctg	3	9	9	20	4	0	1	0	1	0	0	4	1	4	1	7	1	3	2	7	1	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:36124838C>T	uc002oan.2	+	7	1010	c.934C>T	c.(934-936)CTG>TTG	p.L312L	RBM42_uc010eef.2_Silent_p.L258L|RBM42_uc002oao.2_Silent_p.L290L|RBM42_uc002oap.2_Silent_p.L282L|RBM42_uc002oaq.2_Silent_p.L283L|RBM42_uc010eeg.2_Silent_p.L283L	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	312	Necessary for interaction with HNRNPK (By similarity).|Pro-rich.					cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CCTGCCCCCGCTGCGCATTCC	0.711													4	13					0	0	0.009096	0	0		T	36124838	T	T	36124838	2	4	140	1	0	0	0	0	0	0	0	1	13161	796	28	2		2	RBM42	19	36124838	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	16958737	36124838	23004145	594	75584											
ZNF345	25850	broad.mit.edu	37	chr19	37368416	37368416	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggattcatactggtgagaaAccttatgaatgcaaagcatg	14	10	10	7	1	1	2	1	2	0	1	1	4	1	3	1	2	4	2	1	2	5	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:37368416A>C	uc002oex.2	+	3	1062	c.684A>C	c.(682-684)AAA>AAC	p.K228N	ZNF345_uc002oey.3_Missense_Mutation_p.K228N|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	228					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTGGTGAGAAACCTTATGAAT	0.423													4	77					0	0	0.014758	0	0		C	37368416	C	C	37368416	3	2	140	1	0	0	0	0	1	0	0	0	17884	40	2	5	686	5	ZNF345	19	37368416	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1243578	37368416	21760567	595	75585											
ZNF345	25850	broad.mit.edu	37	chr19	37368636	37368636	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatagtggctcagatctcActcagcatcagagaattcac	13	11	7	10	0	5	2	5	0	1	2	6	3	5	2	0	1	1	2	0	1	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:37368636A>G	uc002oex.2	+	3	1282	c.904A>G	c.(904-906)ACT>GCT	p.T302A	ZNF345_uc002oey.3_Missense_Mutation_p.T302A|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	302	C2H2-type 9.				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTCAGATCTCACTCAGCATCA	0.398													40	74					0	0	0.006999	0	0		G	37368636	G	G	37368636	3	3	140	1	0	0	0	0	1	0	0	0	17884	159	6	3	906	3	ZNF345	19	37368636	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	220	37368636	21760347	596	75586											
SAMD4B	55095	broad.mit.edu	37	chr19	39871247	39871247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgggcattcggctccaactCgctccccatagctggctctg	5	10	10	16	2	1	0	0	0	1	0	5	0	3	0	3	3	2	5	3	3	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:39871247C>T	uc002olb.2	+	13	2705	c.1670C>T	c.(1669-1671)TCG>TTG	p.S557L	SAMD4B_uc002ola.2_Missense_Mutation_p.S557L	NM_018028	NP_060498	Q5PRF9	SMAG2_HUMAN	sterile alpha motif domain containing 4B	557							protein binding				0	all_cancers(60;2.5e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			GGCTCCAACTCGCTCCCCATA	0.627													35	80					0	0	0.006999	0	0		T	39871247	T	T	39871247	3	4	140	1	0	0	0	0	1	0	0	0	13847	893	31	1	1704	1	SAMD4B	19	39871247	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2502611	39871247	19257736	597	75587											
PAF1	54623	broad.mit.edu	37	chr19	39879317	39879317	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcatccatcatgcccCtggttgggggaaaaggagta	9	10	11	11	0	2	0	2	0	0	0	4	2	4	2	4	4	1	2	4	4	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:39879317C>T	uc002old.2	-	10	916	c.741_splice	c.e10-1	p.R247_splice	PAF1_uc002ole.1_Splice_Site_p.R237_splice|PAF1_uc010xuv.1_Splice_Site|MED29_uc010xuw.1_5'Flank|MED29_uc002olf.2_5'Flank|MED29_uc010xux.1_5'Flank	NM_019088	NP_061961	Q8N7H5	PAF1_HUMAN	Paf1, RNA polymerase II associated factor,						histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			pancreas(1)	1	all_cancers(60;9.14e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.88e-06)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			CATCATGCCCCTGGTTGGGGG	0.542													32	87					0	0	0.015359	0	0		T	39879317	T	T	39879317	5	4	140	1	0	0	0	0	0	0	1	0	11402	695	24	4	875	4	PAF1	19	39879317	Splice_Site	SNP	C	TCGA-CG-4465-01A-01D-1158-08	8070	39879317	19249666	598	75588											
LTBP4	8425	broad.mit.edu	37	chr19	41123127	41123127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgggatgggcgtcactgcGtgggtacgggacttcaggag	7	7	18	9	4	2	0	2	0	0	0	2	3	2	3	0	5	2	1	0	5	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:41123127G>A	uc002ooh.1	+	25	3268	c.3268G>A	c.(3268-3270)GTG>ATG	p.V1090M	LTBP4_uc002oog.1_Missense_Mutation_p.V1053M|LTBP4_uc002ooi.1_Missense_Mutation_p.V1023M|LTBP4_uc002ooj.1_Translation_Start_Site|LTBP4_uc002ook.1_Intron|LTBP4_uc002ool.1_Intron|LTBP4_uc002oom.1_RNA|LTBP4_uc010xvp.1_Intron	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1090	Cys-rich.|EGF-like 12; calcium-binding (Potential).				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GCGTCACTGCGTGGGTACGGG	0.627													8	18					0	0	0.008291	0	0		A	41123127	A	A	41123127	3	1	140	1	0	0	0	0	1	0	0	0	9094	1132	40	1	3654	1	LTBP4	19	41123127	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1243810	41123127	18005856	599	75589											
SNRPA	6626	broad.mit.edu	37	chr19	41268833	41268833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgatgactcaggcgcccCgcattatgcaccacatgccg	8	6	10	17	5	1	1	1	1	0	0	1	2	1	1	5	1	2	2	5	1	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:41268833C>T	uc002ooz.2	+	4	989	c.454C>T	c.(454-456)CGC>TGC	p.R152C	SNRPA_uc002opa.2_Missense_Mutation_p.R102C	NM_004596	NP_004587	P09012	SNRPA_HUMAN	small nuclear ribonucleoprotein polypeptide A	152	Pro-rich.					nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding			skin(2)|ovary(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			TCAGGCGCCCCGCATTATGCA	0.657													3	23					0	0	0.009096	0	0		T	41268833	T	T	41268833	3	4	140	1	0	0	0	0	1	0	0	0	14884	652	23	1	468	1	SNRPA	19	41268833	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	145706	41268833	17860150	600	75590											
ATP1A3	478	broad.mit.edu	37	chr19	42471440	42471440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgagtttgcggatttcgtCgtagacgaagatgaggaaac	12	10	14	5	4	0	4	0	2	0	2	2	8	0	6	0	2	2	2	0	2	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:42471440C>T	uc002osg.2	-	22	3128	c.2974G>A	c.(2974-2976)GAC>AAC	p.D992N	ATP1A3_uc010xwf.1_Missense_Mutation_p.D1003N|ATP1A3_uc010xwg.1_Missense_Mutation_p.D962N|ATP1A3_uc010xwh.1_Missense_Mutation_p.D1005N|ATP1A3_uc002osh.2_Missense_Mutation_p.D992N	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	992	Helical; (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						CGGATTTCGTCGTAGACGAAG	0.652													27	35					0	0	0.005443	0	0		T	42471440	T	T	42471440	3	4	140	1	0	0	0	0	1	0	0	0	1131	884	31	1	75	1	ATP1A3	19	42471440	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1202607	42471440	16657543	601	75591											
CIC	23152	broad.mit.edu	37	chr19	42795871	42795871	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcccttctcagtacctgtgCagaatggtgcccagcccccc	6	8	9	18	1	1	1	1	0	1	1	2	1	1	1	6	1	4	2	6	1	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:42795871C>T	uc002otf.1	+	11	2900	c.2860C>T	c.(2860-2862)CAG>TAG	p.Q954*		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	954	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				AGTACCTGTGCAGAATGGTGC	0.607			T	DUX4	soft tissue sarcoma								27	78					0	0	0.019004	0	0		T	42795871	T	T	42795871	4	4	140	1	0	0	0	0	0	1	0	0	3427	711	25	2	2902	2	CIC	19	42795871	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	324431	42795871	16333112	602	75592											
KCNN4	3783	broad.mit.edu	37	chr19	44278410	44278410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgaggccgagcagcaggCggccagggtgcgtgttcatg	6	6	19	10	4	1	1	1	1	0	0	1	2	1	1	2	4	3	3	2	4	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:44278410C>T	uc002oxl.2	-	3	1013	c.617G>A	c.(616-618)CGC>CAC	p.R206H	KCNN4_uc010eiz.2_Missense_Mutation_p.R119H|KCNN4_uc010eja.1_RNA	NM_002250	NP_002241	O15554	KCNN4_HUMAN	intermediate conductance calcium-activated	206					defense response	voltage-gated potassium channel complex	calcium-activated potassium channel activity|calmodulin binding			ovary(2)	2		Prostate(69;0.0352)			Clotrimazole(DB00257)|Halothane(DB01159)|Quinine(DB00468)	GAGCAGCAGGCGGCCAGGGTG	0.642											OREG0025535	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	9					0	0	0.003163	0	0		T	44278410	T	T	44278410	3	4	140	1	0	0	0	0	1	0	0	0	8097	768	27	1	690	1	KCNN4	19	44278410	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1482539	44278410	14850573	603	75593											
ZNF227	7770	broad.mit.edu	37	chr19	44738862	44738862	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttttttaataggcagcaaGcatcaaaataagatggaaac	17	11	7	6	0	2	1	1	0	1	1	2	2	2	2	0	2	3	3	0	2	7	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:44738862G>T	uc002oyu.2	+	6	484	c.279G>T	c.(277-279)AAG>AAT	p.K93N	ZNF227_uc010xwu.1_Missense_Mutation_p.K42N|ZNF227_uc002oyv.2_Missense_Mutation_p.K93N|ZNF227_uc010xwv.1_Missense_Mutation_p.K42N|ZNF227_uc010xww.1_Missense_Mutation_p.K14N|ZNF227_uc002oyw.2_Missense_Mutation_p.K65N|ZNF227_uc010ejh.2_Missense_Mutation_p.K86N|ZNF235_uc002oyx.1_Intron	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	93	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)				TAGGCAGCAAGCATCAAAATA	0.358													24	45					1.96895e-08	2.10822e-08	0.016522	1	0		T	44738862	T	T	44738862	3	4	140	1	0	0	0	0	1	0	0	0	17806	962	34	5	293	5	ZNF227	19	44738862	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	460452	44738862	14390121	604	75594											
PPP1R13L	10848	broad.mit.edu	37	chr19	45885875	45885875	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgtccctccgcagcacGgtgaccgactcgccctcgcg	4	5	12	20	7	0	1	0	1	0	0	4	2	2	1	5	2	1	2	5	2	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:45885875G>A	uc002pbn.2	-	12	2435	c.2358C>T	c.(2356-2358)ACC>ACT	p.T786T	PPP1R13L_uc002pbm.2_Silent_p.T365T|PPP1R13L_uc002pbo.2_Silent_p.T786T	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	786	SH3.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		TCCGCAGCACGGTGACCGACT	0.687													39	62					0	0	0.007835	0	0		A	45885875	A	A	45885875	2	1	140	1	0	0	0	0	0	0	0	1	12380	1103	39	1		1	PPP1R13L	19	45885875	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1147013	45885875	13243108	605	75595											
HIF3A	64344	broad.mit.edu	37	chr19	46815457	46815457	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagtcccgatgacctgatCggctgttccgcctacgagta	8	11	10	12	4	0	2	0	2	0	0	3	4	2	2	4	1	1	3	4	1	4	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:46815457C>A	uc002peh.2	+	7	839	c.810C>A	c.(808-810)ATC>ATA	p.I270I	HIF3A_uc002pef.1_Silent_p.I270I|HIF3A_uc002peg.3_Silent_p.I270I|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_Silent_p.I214I|HIF3A_uc002pej.1_Silent_p.I201I|HIF3A_uc002pek.2_Silent_p.I214I|HIF3A_uc010xxy.1_Silent_p.I201I|HIF3A_uc002pel.2_Silent_p.I268I|HIF3A_uc010xxz.1_Silent_p.I219I	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	270	PAS 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		ATGACCTGATCGGCTGTTCCG	0.597													57	101					7.50695e-29	8.66273e-29	0.01441	1	0		A	46815457	A	A	46815457	2	1	140	1	0	0	0	0	0	0	0	1	7121	874	31	5		5	HIF3A	19	46815457	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	929582	46815457	12313526	606	75596											
PRR12	57479	broad.mit.edu	37	chr19	50102838	50102838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agccccagccccctgccaccCctgctgtgccacatccccca	6	5	6	24	0	0	0	0	0	0	0	1	0	1	0	10	0	5	1	10	0	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:50102838C>T	uc002poo.3	+	5	3988	c.3988C>T	c.(3988-3990)CCT>TCT	p.P1330S		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	509	Pro-rich.						DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		CCCTGCCACCCCTGCTGTGCC	0.701													3	7					0	0	0.004672	0	0		T	50102838	T	T	50102838	3	4	140	1	0	0	0	0	1	0	0	0	12606	623	22	4	4006	4	PRR12	19	50102838	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3287381	50102838	9026145	607	75597											
MYH14	79784	broad.mit.edu	37	chr19	50785086	50785086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccctggagaagaagcagcGcaagtttgaccaggtggggc	11	5	15	10	1	0	3	0	1	0	2	0	4	0	3	2	4	2	3	2	4	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:50785086G>A	uc002prr.1	+	31	4450	c.4403G>A	c.(4402-4404)CGC>CAC	p.R1468H	MYH14_uc010enu.1_Missense_Mutation_p.R1509H|MYH14_uc002prq.1_Missense_Mutation_p.R1476H|MYH14_uc010ycb.1_Intron|MYH14_uc002prs.1_5'Flank	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1468	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		AAGAAGCAGCGCAAGTTTGAC	0.632													6	16					0	0	0.001168	0	0		A	50785086	A	A	50785086	3	1	140	1	0	0	0	0	1	0	0	0	10051	1087	38	1	4652	1	MYH14	19	50785086	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	682248	50785086	8343897	608	75598											
SHANK1	50944	broad.mit.edu	37	chr19	51219986	51219986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtgggcgtcgtctgggAcggacattgagcggccctgg	6	8	18	9	4	1	2	0	2	1	0	2	4	1	4	1	5	1	0	1	5	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:51219986A>G	uc002psx.1	-	1	210	c.191T>C	c.(190-192)GTC>GCC	p.V64A		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	64					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GTCGTCTGGGACGGACATTGA	0.682													11	91					0	0	0.010729	0	0		G	51219986	G	G	51219986	3	3	140	1	0	0	0	0	1	0	0	0	14289	275	10	3	6386	3	SHANK1	19	51219986	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	434900	51219986	7908997	609	75599											
KLK13	26085	broad.mit.edu	37	chr19	51563198	51563198	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgagctggaccggggacTgcagctccagaagcatgatg	9	7	15	10	1	0	3	0	2	0	1	1	5	1	5	2	3	4	4	2	3	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:51563198T>C	uc002pvn.2	-	3	435	c.392A>G	c.(391-393)CAG>CGG	p.Q131R	KLK13_uc002pvl.2_Intron|KLK13_uc002pvm.2_RNA|KLK13_uc002pvo.2_Intron|KLK13_uc002pvp.2_RNA|KLK13_uc010eon.2_Intron|KLK13_uc002pvq.2_Intron|KLK13_uc010eoo.2_Intron|KLK13_uc002pvr.2_Missense_Mutation_p.Q131R	NM_015596	NP_056411	Q9UKR3	KLK13_HUMAN	kallikrein 13 precursor	131	Peptidase S1.				proteolysis		protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00432)		GACCGGGGACTGCAGCTCCAG	0.612													8	97					0	0	0.008291	0	0		C	51563198	C	C	51563198	3	2	140	1	0	0	0	0	1	0	0	0	8417	1580	55	3	453	3	KLK13	19	51563198	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	343212	51563198	7565785	610	75600											
ZNF808	388558	broad.mit.edu	37	chr19	53057635	53057635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacaagtgtaatgagtgtcGcaagaccttcagccgcaggt	11	10	11	9	2	1	2	1	1	0	1	2	2	1	2	2	1	2	3	2	1	4	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:53057635G>A	uc010epq.1	+	5	1643	c.1466G>A	c.(1465-1467)CGC>CAC	p.R489H	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	489	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		AATGAGTGTCGCAAGACCTTC	0.433													42	82					0	0	0.00874	0	0		A	53057635	A	A	53057635	3	1	140	1	0	0	0	0	1	0	0	0	18198	1087	38	1	1476	1	ZNF808	19	53057635	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	1494437	53057635	6071348	611	75601											
ZNF611	81856	broad.mit.edu	37	chr19	53209310	53209310	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagtatcaattgccttaTcaattagaagggctgaattt	12	14	7	8	0	2	2	2	1	0	1	3	2	3	2	2	1	1	2	2	1	7	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:53209310T>C	uc002pzz.2	-	7	1315	c.998A>G	c.(997-999)GAT>GGT	p.D333G	ZNF611_uc010eqc.2_Missense_Mutation_p.D263G|ZNF611_uc010ydo.1_Missense_Mutation_p.D263G|ZNF611_uc010ydr.1_Missense_Mutation_p.D264G|ZNF611_uc010ydp.1_Missense_Mutation_p.D333G|ZNF611_uc010ydq.1_Missense_Mutation_p.D333G|ZNF611_uc002qaa.3_Missense_Mutation_p.D263G	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	333	C2H2-type 4; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		AATTGCCTTATCAATTAGAAG	0.363													52	116					0	0	0.01441	0	0		C	53209310	C	C	53209310	3	2	140	1	0	0	0	0	1	0	0	0	18062	1435	50	3	1123	3	ZNF611	19	53209310	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	151675	53209310	5919673	612	75602											
NDUFA3	4696	broad.mit.edu	37	chr19	54609301	54609301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcatgatcaacaaggccaCgccctacaactacccaggtg	12	6	8	15	2	2	1	2	1	0	0	2	1	2	1	3	2	4	0	3	2	5	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:54609301C>T	uc002qde.2	+	3	173	c.146C>T	c.(145-147)ACG>ATG	p.T49M	NDUFA3_uc002qdf.2_RNA	NM_004542	NP_004533	O95167	NDUA3_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	49					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			breast(1)	1	all_cancers(19;0.004)|all_epithelial(19;0.00195)|all_lung(19;0.0193)|Lung NSC(19;0.0358)|Breast(117;0.137)|Ovarian(34;0.19)				NADH(DB00157)	AACAAGGCCACGCCCTACAAC	0.607													40	96					0	0	0.010771	0	0		T	54609301	T	T	54609301	3	4	140	1	0	0	0	0	1	0	0	0	10284	536	19	1	156	1	NDUFA3	19	54609301	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1399991	54609301	4519682	613	75603											
ZNF784	147808	broad.mit.edu	37	chr19	56133713	56133713	+	Frame_Shift_Del	DEL	C	-	-																															cgcgcagcggtagggccgctCccccgtgtgcaagctgtagt																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:56133713delC	uc002qll.1	-	2	390	c.376delG	c.(376-378)GAGfs	p.E126fs	ZNF784_uc010etb.1_RNA	NM_203374	NP_976308	Q8NCA9	ZN784_HUMAN	zinc finger protein 784	126					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		TAGGGCCGCTCCCCCGTGTGC	0.776													6	10	---	---	---	---						.	-	56133713	-	-	56133713	7	5	140	1	0	1	0	1	0	0	0	0	18181	864	30	0	599	0	ZNF784	19	56133713	Frame_Shift_Del	DEL	C	TCGA-CG-4465-01A-01D-1158-08	1524412	56133713	2995270	614	75604											
ZNF814	730051	broad.mit.edu	37	chr19	58384908	58384908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgatggtgaacaaggctgCgcttatgactaaaagatttc	12	11	11	7	1	0	4	0	3	0	1	1	4	0	4	0	2	2	3	0	2	5	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:58384908C>T	uc002qqo.2	-	3	2122	c.1850G>A	c.(1849-1851)CGC>CAC	p.R617H	ZNF814_uc002qqk.2_Intron|ZNF814_uc010yhl.1_Intron	NM_001144989	NP_001138461	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	617	C2H2-type 15.				regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						AACAAGGCTGCGCTTATGACT	0.453													20	71					0	0	0.010504	0	0		T	58384908	T	T	58384908	3	4	140	1	0	0	0	0	1	0	0	0	18201	768	27	1	721	1	ZNF814	19	58384908	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	2251195	58384908	744075	615	75605											
ZNF324	25799	broad.mit.edu	37	chr19	58982366	58982366	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccccgcttaggcctccCgagggcgtccggcttagaga	6	7	12	16	4	0	1	0	0	0	1	3	3	3	1	6	3	0	2	6	3	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:58982366C>T	uc002qsw.1	+	4	601	c.507C>T	c.(505-507)CCC>CCT	p.P169P	ZNF324_uc002qsx.1_5'UTR	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	169					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		TTAGGCCTCCCGAGGGCGTCC	0.647													27	51					0	0	0.015359	0	0		T	58982366	T	T	58982366	2	4	140	1	0	0	0	0	0	0	0	1	17869	639	23	1		1	ZNF324	19	58982366	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	597458	58982366	146617	616	75606											
ZNF324	25799	broad.mit.edu	37	chr19	58983128	58983128	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtgcacacaggcgagaaGcccttcgcctgcccacagtg	8	5	12	16	4	0	1	0	0	0	1	1	2	0	1	3	1	3	1	3	1	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr19:58983128G>A	uc002qsw.1	+	4	1363	c.1269G>A	c.(1267-1269)AAG>AAA	p.K423K	ZNF324_uc002qsx.1_Silent_p.K200K	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	423					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		CAGGCGAGAAGCCCTTCGCCT	0.682													18	42					0	0	0.007413	0	0		A	58983128	A	A	58983128	2	1	140	1	0	0	0	0	0	0	0	1	17869	962	34	2		2	ZNF324	19	58983128	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	762	58983128	145855	617	75607											
TMC2	117532	broad.mit.edu	37	chr20	2621797	2621797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaccactcctccctctGccagccaaagccaggccatg	10	5	8	18	0	1	1	0	0	1	1	3	2	3	1	7	1	3	0	7	1	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr20:2621797G>A	uc002wgf.1	+	20	2536	c.2521G>A	c.(2521-2523)GCC>ACC	p.A841T	TMC2_uc002wgg.1_Missense_Mutation_p.A825T	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	841	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						TCCTCCCTCTGCCAGCCAAAG	0.567													57	123					0	0	0.01441	0	0		A	2621797	A	A	2621797	3	1	140	1	0	0	0	0	1	0	0	0	16010	1319	46	2	2599	2	TMC2	20	2621797	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08		2621797	60403723	618	75608											
SLC4A11	83959	broad.mit.edu	37	chr20	3210181	3210181	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccctcacctcttcttgaaTtggtagagggtgtagcccag	7	11	11	12	0	3	2	1	1	2	1	3	2	3	2	4	2	1	2	4	2	3	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr20:3210181T>C	uc002wig.2	-	13	1827	c.1779A>G	c.(1777-1779)CAA>CAG	p.Q593Q	SLC4A11_uc010zqe.1_Silent_p.Q620Q|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Silent_p.Q577Q	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	593	Membrane (bicarbonate transporter).|Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						TCTTCTTGAATTGGTAGAGGG	0.662													7	49					0	0	0.00308	0	0		C	3210181	C	C	3210181	2	2	140	1	0	0	0	0	0	0	0	1	14677	1490	52	3		3	SLC4A11	20	3210181	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	588384	3210181	59815339	619	75609											
TASP1	55617	broad.mit.edu	37	chr20	13539704	13539704	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcataaaatctgtgtccAccctttctgccagctctagt	8	14	7	12	0	3	0	0	0	3	0	4	0	4	0	3	0	3	3	3	0	3	4	rs112168352		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr20:13539704A>G	uc002woi.2	-	8	743	c.626T>C	c.(625-627)GTG>GCG	p.V209A	TASP1_uc010zri.1_Intron|TASP1_uc002woh.2_Missense_Mutation_p.V186A|TASP1_uc010zrj.1_RNA	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	209					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						ATCTGTGTCCACCCTTTCTGC	0.279													50	150					0	0	0.01441	0	0		G	13539704	G	G	13539704	3	3	140	1	0	0	0	0	1	0	0	0	15614	159	6	3	664	3	TASP1	20	13539704	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	10329523	13539704	49485816	620	75610											
CEP250	11190	broad.mit.edu	37	chr20	34057798	34057798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataaaggctctgagagagaCagtggagatcctggtacatg	13	8	14	6	0	1	3	0	1	1	3	2	7	2	3	1	3	1	2	1	3	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr20:34057798C>T	uc002xcm.2	+	11	1606	c.935C>T	c.(934-936)ACA>ATA	p.T312I	CEP250_uc010zve.1_5'UTR|CEP250_uc010zvd.1_RNA|CEP250_uc002xco.2_Missense_Mutation_p.T119I	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	312	Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			CTGAGAGAGACAGTGGAGATC	0.463													13	16					0	0	0.013537	0	0		T	34057798	T	T	34057798	3	4	140	1	0	0	0	0	1	0	0	0	3255	478	17	4	961	4	CEP250	20	34057798	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	20518094	34057798	28967722	621	75611											
SAMHD1	25939	broad.mit.edu	37	chr20	35539626	35539626	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttacttcttacctgtcAgcttagtataggcttccatg	7	16	7	11	0	2	0	1	0	1	0	3	0	3	0	3	1	3	4	3	1	5	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr20:35539626A>G	uc002xgh.1	-	11	1395	c.1265T>C	c.(1264-1266)CTG>CCG	p.L422P		NM_015474	NP_056289	Q9Y3Z3	SAMH1_HUMAN	SAM domain- and HD domain-containing protein 1	422					defense response to virus|innate immune response|regulation of innate immune response	nucleus	metal ion binding|phosphoric diester hydrolase activity				0		Myeloproliferative disorder(115;0.00878)				CTTACCTGTCAGCTTAGTATA	0.373													43	88					0	0	0.01441	0	0		G	35539626	G	G	35539626	3	3	140	1	0	0	0	0	1	0	0	0	13853	188	7	3	639	3	SAMHD1	20	35539626	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1481828	35539626	27485894	622	75612											
KCNS1	3787	broad.mit.edu	37	chr20	43726532	43726532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagttgcgcgtactgggcGccagcaggaggcgcgacgac	9	4	17	11	6	0	1	0	0	0	1	0	4	0	2	1	3	3	3	1	3	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr20:43726532G>A	uc002xnc.2	-	4	1278	c.881C>T	c.(880-882)GCG>GTG	p.A294V	KCNS1_uc002xnd.2_Missense_Mutation_p.A294V	NM_002251	NP_002242	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel	294	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity|protein binding				0		Myeloproliferative disorder(115;0.0122)				CGTACTGGGCGCCAGCAGGAG	0.647													10	7					0	0	0.008291	0	0		A	43726532	A	A	43726532	3	1	140	1	0	0	0	0	1	0	0	0	8104	1087	38	1	707	1	KCNS1	20	43726532	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	8186906	43726532	19298988	623	75613											
ATP9A	10079	broad.mit.edu	37	chr20	50221365	50221365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggggtcttaccgatgaactCgtgtaagaacaccagggagg	12	7	14	8	2	1	2	0	1	1	1	2	4	1	3	2	4	3	1	2	4	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr20:50221365C>T	uc002xwg.1	-	27	2998	c.2998G>A	c.(2998-3000)GAG>AAG	p.E1000K	ATP9A_uc010gih.1_Missense_Mutation_p.E864K|ATP9A_uc002xwf.1_Missense_Mutation_p.E172K	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	1000	Extracellular (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						CCGATGAACTCGTGTAAGAAC	0.597													6	21					0	0	0.001984	0	0		T	50221365	T	T	50221365	3	4	140	1	0	0	0	0	1	0	0	0	1199	893	31	1	153	1	ATP9A	20	50221365	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	6494833	50221365	12804155	624	75614											
ATP9A	10079	broad.mit.edu	37	chr20	50238695	50238695	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tagctgtctccagcttgtccCctgtcagcatccaaacctga	8	11	7	15	0	2	1	1	1	1	0	5	1	4	1	5	0	4	3	5	0	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr20:50238695C>A	uc002xwg.1	-	19	2033	c.2033G>T	c.(2032-2034)GGG>GTG	p.G678V	ATP9A_uc010gih.1_Missense_Mutation_p.G542V|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	678	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						CAGCTTGTCCCCTGTCAGCAT	0.498													51	106					8.99859e-20	1.0216e-19	0.01441	1	0		A	50238695	A	A	50238695	3	1	140	1	0	0	0	0	1	0	0	0	1199	623	22	5	1150	5	ATP9A	20	50238695	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	17330	50238695	12786825	625	75615											
ZFP64	55734	broad.mit.edu	37	chr20	50769044	50769044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacagccggctgggtcattgCgcccgcctcgctcggacacc	5	6	13	17	5	1	0	1	0	0	0	3	2	1	1	4	3	2	2	4	3	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr20:50769044C>T	uc002xwl.2	-	6	2036	c.1687G>A	c.(1687-1689)GCA>ACA	p.A563T	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.A561T|ZFP64_uc002xwn.2_Missense_Mutation_p.A509T	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	563					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						TGGGTCATTGCGCCCGCCTCG	0.682													4	42					0	0	0.001168	0	0		T	50769044	T	T	50769044	3	4	140	1	0	0	0	0	1	0	0	0	17677	768	27	1	1553	1	ZFP64	20	50769044	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	530349	50769044	12256476	626	75616											
GNAS	2778	broad.mit.edu	37	chr20	57428667	57428667	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttgggaggcttctggcCtacactggagcagcctggat	7	9	14	11	0	1	0	0	0	1	0	1	3	1	3	2	5	4	3	2	5	1	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr20:57428667C>A	uc002xzw.2	+	1	632	c.347C>A	c.(346-348)CCT>CAT	p.P116H	GNASAS_uc002xzs.1_5'Flank|GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			GGCTTCTGGCCTACACTGGAG	0.632			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			14	37					9.31168e-06	9.68816e-06	0.016723	1	0		A	57428667	A	A	57428667	3	1	140	1	0	0	0	0	1	0	0	0	6525	681	24	5	1091	5	GNAS	20	57428667	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	6659623	57428667	5596853	627	75617											
TPTE	7179	broad.mit.edu	37	chr21	10996110	10996110	+	RNA	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcccttgcccagttcgacTtctttgccgcaccataaatc	7	14	5	15	2	1	0	0	0	1	0	4	1	2	0	4	0	2	2	4	0	2	6			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr21:10996110T>G	uc002yis.1	-	12		c.2076A>C						P56180	TPTE_HUMAN	Homo sapiens putative tyrosine phosphatase mRNA, complete cds.						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CCAGTTCGACTTCTTTGCCGC	0.403													18	83					0	0	0.008871	0	0		G	10996110	G	G	10996110	1	3	140	0	1	0	0	0	0	0	0	0	16456	1624	56	5		5	TPTE	21	10996110	RNA	SNP	T	TCGA-CG-4465-01A-01D-1158-08		10996110	37133785	628	75618											
NCAM2	4685	broad.mit.edu	37	chr21	22910227	22910227	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccagaaactatagaaatTaaagtttctaacgacatcat	19	11	4	7	1	2	2	1	0	1	2	3	3	3	2	1	0	2	1	1	0	8	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr21:22910227T>C	uc002yld.1	+	18	2712	c.2463T>C	c.(2461-2463)ATT>ATC	p.I821I	NCAM2_uc011acb.1_Silent_p.I679I	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	821	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		CTATAGAAATTAAAGTTTCTA	0.328													4	50					0	0	0.014758	0	0		C	22910227	C	C	22910227	2	2	140	1	0	0	0	0	0	0	0	1	10222	1742	61	3		3	NCAM2	21	22910227	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	11914117	22910227	25219668	629	75619											
SUSD2	56241	broad.mit.edu	37	chr22	24583244	24583244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccggcctggaggtcagcGtgcagggcccgttcctgagt	4	7	18	12	3	1	1	1	1	0	0	2	2	2	2	4	5	2	2	4	5	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr22:24583244G>A	uc002zzn.1	+	11	1761	c.1717G>A	c.(1717-1719)GTG>ATG	p.V573M		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	573	VWFD.|Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GGAGGTCAGCGTGCAGGGCCC	0.647													4	41					0	0	0.014758	0	0		A	24583244	A	A	24583244	3	1	140	1	0	0	0	0	1	0	0	0	15433	1145	40	1	1759	1	SUSD2	22	24583244	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08		24583244	26721322	630	75620											
ZNRF3	84133	broad.mit.edu	37	chr22	29446744	29446744	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggctcctggggtgggacgCgaggcccggataccccacgg	5	5	17	14	5	0	0	0	0	0	0	2	3	1	2	4	7	1	1	4	7	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr22:29446744C>T	uc003aeg.2	+	8	2440	c.2275C>T	c.(2275-2277)CGA>TGA	p.R759*	ZNRF3_uc003aeh.1_Nonsense_Mutation_p.R759*	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	859	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						GGGTGGGACGCGAGGCCCGGA	0.697													7	11					0	0	0.006214	0	0		T	29446744	T	T	29446744	4	4	140	1	0	0	0	0	0	1	0	0	18238	760	27	1	2301	1	ZNRF3	22	29446744	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4863500	29446744	21857822	631	75621											
ASCC2	84164	broad.mit.edu	37	chr22	30221652	30221652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcaaggccaggagccagtCgaggtcattggctacgaagg	11	5	16	9	2	1	0	1	0	0	0	2	3	1	1	2	6	2	2	2	6	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr22:30221652C>T	uc003agr.2	-	3	304	c.199G>A	c.(199-201)GAC>AAC	p.D67N	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Missense_Mutation_p.D67N|ASCC2_uc011akr.1_Intron	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	67					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			AGGAGCCAGTCGAGGTCATTG	0.493													44	51					0	0	0.01441	0	0		T	30221652	T	T	30221652	3	4	140	1	0	0	0	0	1	0	0	0	1033	884	31	1	2146	1	ASCC2	22	30221652	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	774908	30221652	21082914	632	75622											
GALR3	8484	broad.mit.edu	37	chr22	38220959	38220959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccggctacctgctgcccGtggctgtggtgagcctggcc	2	9	15	15	2	0	1	0	1	0	0	0	1	0	1	5	4	5	3	5	4	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr22:38220959G>A	uc003aub.1	+	2	614	c.589G>A	c.(589-591)GTG>ATG	p.V197M		NM_003614	NP_003605	O60755	GALR3_HUMAN	galanin receptor 3	197	Helical; Name=5; (Potential).				feeding behavior|learning or memory|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity				0	Melanoma(58;0.045)					CCTGCTGCCCGTGGCTGTGGT	0.607													3	0					0	0	0.014758	0	0		A	38220959	A	A	38220959	3	1	140	1	0	0	0	0	1	0	0	0	6244	1145	40	1	595	1	GALR3	22	38220959	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	7999307	38220959	13083607	633	75623											
ZC3H7B	23264	broad.mit.edu	37	chr22	41735150	41735150	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctggatgacttctcagaCggggatgtctttggcccaga	8	10	13	10	1	2	3	1	1	2	2	3	5	2	5	2	4	1	0	2	4	0	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr22:41735150C>T	uc003azw.2	+	9	987	c.771C>T	c.(769-771)GAC>GAT	p.D257D	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	273					interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						ACTTCTCAGACGGGGATGTCT	0.662													41	74					0	0	0.01441	0	0		T	41735150	T	T	41735150	2	4	140	1	0	0	0	0	0	0	0	1	17598	535	19	1		1	ZC3H7B	22	41735150	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3514191	41735150	9569416	634	75624											
SMC1B	27127	broad.mit.edu	37	chr22	45809402	45809402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaatgacctggcggcccCgccacgacttgaaattttcc	8	8	10	15	3	0	2	0	2	0	0	1	3	1	2	6	3	0	0	6	3	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr22:45809402C>T	uc003bgc.2	-	1	99	c.47G>A	c.(46-48)CGG>CAG	p.R16Q	SMC1B_uc003bgd.2_Missense_Mutation_p.R16Q|RIBC2_uc011aqs.1_5'Flank	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	16					chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		CTGGCGGCCCCGCCACGACTT	0.667													5	12					0	0	0.014758	0	0		T	45809402	T	T	45809402	3	4	140	1	0	0	0	0	1	0	0	0	14807	652	23	1	3760	1	SMC1B	22	45809402	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4074252	45809402	5495164	635	75625											
GRAMD4	23151	broad.mit.edu	37	chr22	47057337	47057337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccaggccagcaatggagCaggtacaccctggtgggcgg	8	4	17	12	1	0	0	0	0	0	0	0	1	0	1	3	7	3	3	3	7	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr22:47057337C>T	uc003bhx.2	+	4	503	c.464C>T	c.(463-465)GCA>GTA	p.A155V	GRAMD4_uc010had.2_Missense_Mutation_p.A94V	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	155					apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		AGCAATGGAGCAGGTACACCC	0.453													6	60					0	0	0.00308	0	0		T	47057337	T	T	47057337	3	4	140	1	0	0	0	0	1	0	0	0	6768	710	25	2	478	2	GRAMD4	22	47057337	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1247935	47057337	4247229	636	75626											
TUBGCP6	85378	broad.mit.edu	37	chr22	50656526	50656526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgttcatgacgggcgccGccttctccgtgagcaggccc	5	8	13	15	5	2	3	1	3	1	0	3	3	2	3	4	2	1	2	4	2	0	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr22:50656526G>A	uc003bkb.1	-	24	5701	c.5189C>T	c.(5188-5190)GCG>GTG	p.A1730V	TUBGCP6_uc003bka.1_Missense_Mutation_p.A800V|TUBGCP6_uc010har.1_Missense_Mutation_p.A1722V|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	1730					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GACGGGCGCCGCCTTCTCCGT	0.697													32	54					0	0	0.013726	0	0		A	50656526	A	A	50656526	3	1	140	1	0	0	0	0	1	0	0	0	16796	1087	38	1	278	1	TUBGCP6	22	50656526	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3599189	50656526	648040	637	75627											
ADM2	79924	broad.mit.edu	37	chr22	50921041	50921041	+	Frame_Shift_Del	DEL	C	-	-																															agcagcctgcagcccaggcaCcccgcaccccgacctgtggt																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chr22:50921041delC	uc003blj.2	+	2	421	c.156delC	c.(154-156)CACfs	p.H52fs	ADM2_uc011ary.1_Frame_Shift_Del_p.H52fs	NM_024866	NP_079142	Q7Z4H4	ADM2_HUMAN	adrenomedullin 2 precursor	52					positive regulation of angiogenesis	extracellular region	hormone activity				0		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		AGCCCAGGCACCCCGCACCCC	0.662													5	6	---	---	---	---						.	-	50921041	-	-	50921041	7	5	140	1	0	1	0	1	0	0	0	0	322	506	18	0	162	0	ADM2	22	50921041	Frame_Shift_Del	DEL	C	TCGA-CG-4465-01A-01D-1158-08	264515	50921041	383525	638	75628											
PHKA2	5256	broad.mit.edu	37	chrX	18912406	18912406	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctggtcatctccgtgtcCgagagcagcgtcagcaccat	8	9	11	13	3	3	1	2	0	1	1	5	2	4	1	3	1	4	3	3	1	0	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:18912406C>T	uc004cyv.3	-	32	3883	c.3453G>A	c.(3451-3453)TCG>TCA	p.S1151S	uc004cyt.2_RNA|PHKA2_uc004cyu.3_Silent_p.S457S|PHKA2_uc010nfe.1_Silent_p.S183S|PHKA2_uc010nff.1_RNA	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	1151					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					TCTCCGTGTCCGAGAGCAGCG	0.617													12	44					0	0	0.003163	0	0		T	18912406	T	T	18912406	2	4	140	1	0	0	0	0	0	0	0	1	11863	639	23	1		1	PHKA2	23	18912406	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08		18912406	136358154	639	75629											
KLHL34	257240	broad.mit.edu	37	chrX	21674117	21674117	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccaacggtccaggtcgAggtcgtagcccactacgttg	7	8	11	15	4	0	0	0	0	0	0	4	1	2	0	4	3	3	2	4	3	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:21674117A>T	uc004czz.1	-	1	2332	c.1790T>A	c.(1789-1791)CTC>CAC	p.L597H		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	597	Kelch 6.									ovary(1)	1						GTCCAGGTCGAGGTCGTAGCC	0.701													8	13					0	0	0.006214	0	0		T	21674117	T	T	21674117	3	4	140	1	0	0	0	0	1	0	0	0	8403	304	11	5	148	5	KLHL34	23	21674117	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	2761711	21674117	133596443	640	75630											
POLA1	5422	broad.mit.edu	37	chrX	24745948	24745948	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagttgaggcaatggctttGaaaccagacctggtgaatgt	13	10	12	6	0	0	4	0	3	0	1	0	4	0	4	2	3	1	3	2	3	4	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:24745948G>A	uc004dbl.2	+	15	1586	c.1563G>A	c.(1561-1563)TTG>TTA	p.L521L	POLA1_uc004dbm.2_Silent_p.L527L|POLA1_uc004dbn.2_Silent_p.L385L	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	521					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	CAATGGCTTTGAAACCAGACC	0.403													45	73					0	0	0.01441	0	0		A	24745948	A	A	24745948	2	1	140	1	0	0	0	0	0	0	0	1	12206	1281	45	4		4	POLA1	23	24745948	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3071831	24745948	130524612	641	75631											
FAM47A	158724	broad.mit.edu	37	chrX	34148626	34148626	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagaaacgcactcttttgtGcttggtgtatcttcctgaag	8	15	9	9	1	3	2	1	1	2	1	4	2	4	2	1	1	2	3	1	1	3	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:34148626G>C	uc004ddg.2	-	1	1803	c.1770C>G	c.(1768-1770)AGC>AGG	p.S590R		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	590										ovary(4)|central_nervous_system(1)	5						ACTCTTTTGTGCTTGGTGTAT	0.473													24	57					0	0	0.01892	0	0		C	34148626	C	C	34148626	3	2	140	1	0	0	0	0	1	0	0	0	5583	1310	46	5	609	5	FAM47A	23	34148626	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	9402678	34148626	121121934	642	75632											
CXorf59	286464	broad.mit.edu	37	chrX	36122657	36122657	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgccatactgcagcaataaTatgccccccatatgtgtgca	11	10	8	12	0	0	0	0	0	0	0	0	0	0	0	4	0	6	3	4	0	5	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:36122657T>C	uc004ddk.1	+	8	1080	c.894T>C	c.(892-894)AAT>AAC	p.N298N		NM_173695	NP_775966	Q8N9S7	CX059_HUMAN	hypothetical protein LOC286464	298						integral to membrane				central_nervous_system(1)	1						GCAGCAATAATATGCCCCCCA	0.348													73	157					0	0	0.01441	0	0		C	36122657	C	C	36122657	2	2	140	1	0	0	0	0	0	0	0	1	4118	1403	49	3		3	CXorf59	23	36122657	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	1974031	36122657	119147903	643	75633											
ZNF630	57232	broad.mit.edu	37	chrX	47919908	47919908	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttaaagattacatctggTtttatacctgaacaccctgt	13	14	5	9	0	1	2	0	1	1	1	1	2	1	2	2	1	4	1	2	1	7	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:47919908T>G	uc004div.3	-	4	411	c.159A>C	c.(157-159)AAA>AAC	p.K53N	ZNF630_uc010nhz.1_RNA|ZNF630_uc004diw.2_5'UTR	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	53	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2						TTACATCTGGTTTTATACCTG	0.443													27	64					0	0	0.00632	0	0		G	47919908	G	G	47919908	3	3	140	1	0	0	0	0	1	0	0	0	18079	1722	60	5	1822	5	ZNF630	23	47919908	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	11797251	47919908	107350652	644	75634											
PQBP1	10084	broad.mit.edu	37	chrX	48759531	48759531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctgaagaaaagttggaccGgagccatgacaagtcggaca	14	6	13	8	2	0	3	0	2	0	1	1	6	0	6	2	3	2	2	2	3	4	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:48759531G>A	uc004dle.2	+	5	503	c.314G>A	c.(313-315)CGG>CAG	p.R105Q	PQBP1_uc004dlf.2_Missense_Mutation_p.R105Q|PQBP1_uc004dlg.2_Missense_Mutation_p.R105Q|PQBP1_uc004dld.2_RNA|PQBP1_uc004dlh.2_Missense_Mutation_p.R105Q|PQBP1_uc004dli.2_Missense_Mutation_p.R105Q|PQBP1_uc004dlj.1_Missense_Mutation_p.R105Q|PQBP1_uc004dln.2_Missense_Mutation_p.R105Q|PQBP1_uc010nih.2_RNA|PQBP1_uc010nii.2_Missense_Mutation_p.R63Q|PQBP1_uc004dlk.2_Intron|PQBP1_uc004dll.2_Intron|PQBP1_uc004dlm.2_Missense_Mutation_p.R63Q|PQBP1_uc010nij.2_Intron	NM_001032382	NP_001027554	O60828	PQBP1_HUMAN	polyglutamine binding protein 1	105	Potential.|5 X 7 AA approximate tandem repeats of D- R-[SG]-H-D-K-S.|1-1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|transcription coactivator activity			large_intestine(1)	1						AAGTTGGACCGGAGCCATGAC	0.582													13	35					0	0	0.013537	0	0		A	48759531	A	A	48759531	3	1	140	1	0	0	0	0	1	0	0	0	12439	1116	39	1	328	1	PQBP1	23	48759531	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	839623	48759531	106511029	645	75635											
DGKK	139189	broad.mit.edu	37	chrX	50130606	50130606	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttttatctgaccccaggcCtttacaatatcaaccacaaa	13	12	4	12	0	2	1	1	1	1	0	2	1	2	1	4	1	2	1	4	1	6	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:50130606C>A	uc010njr.1	-	14	2124	c.2064G>T	c.(2062-2064)AAG>AAT	p.K688N		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	688					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					GACCCCAGGCCTTTACAATAT	0.413													17	43					1.56452e-12	1.72299e-12	0.007413	1	0		A	50130606	A	A	50130606	3	1	140	1	0	0	0	0	1	0	0	0	4478	680	24	5	1810	5	DGKK	23	50130606	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1371075	50130606	105139954	646	75636											
RIBC1	158787	broad.mit.edu	37	chrX	53457857	53457857	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggacttctttcacaggcAggattacctgaattcagtaa	11	13	8	9	0	4	1	2	1	2	0	4	3	4	3	1	3	1	2	1	3	3	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:53457857A>G	uc004dsk.2	+	8	1214	c.1061A>G	c.(1060-1062)CAG>CGG	p.Q354R		NM_001031745	NP_001026915	Q8N443	RIBC1_HUMAN	RIB43A domain with coiled-coils 1 isoform 1	354											0						TTTCACAGGCAGGATTACCTG	0.493													26	70					0	0	0.010818	0	0		G	53457857	G	G	53457857	3	3	140	1	0	0	0	0	1	0	0	0	13377	188	7	3	1118	3	RIBC1	23	53457857	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	3327251	53457857	101812703	647	75637											
WNK3	65267	broad.mit.edu	37	chrX	54259313	54259313	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtttgcttttgaaagatCttggtcgacgtggtgatgca	9	14	13	5	2	1	3	0	2	1	1	2	5	1	3	0	2	2	3	0	2	2	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:54259313C>A	uc004dtd.1	-	21	5067	c.4628G>T	c.(4627-4629)AGA>ATA	p.R1543I	WNK3_uc004dtc.1_Missense_Mutation_p.R1590I	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1543					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						TTTGAAAGATCTTGGTCGACG	0.438													57	137					3.53049e-34	4.11091e-34	0.01441	1	0		A	54259313	A	A	54259313	3	1	140	1	0	0	0	0	1	0	0	0	17405	913	32	5	649	5	WNK3	23	54259313	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	801456	54259313	101011247	648	75638											
FGD1	2245	broad.mit.edu	37	chrX	54521707	54521707	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactggggatccagtgggccGccaagagccgaacctgagcc	10	4	14	13	2	0	2	0	1	0	1	1	4	1	3	6	3	4	0	6	3	3	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:54521707G>A	uc004dtg.2	-	1	893	c.159C>T	c.(157-159)GGC>GGT	p.G53G		NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	53	Pro-rich.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CCAGTGGGCCGCCAAGAGCCG	0.731													4	15					0	0	0.001168	0	0		A	54521707	A	A	54521707	2	1	140	1	0	0	0	0	0	0	0	1	5846	1074	38	1		1	FGD1	23	54521707	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	262394	54521707	100748853	649	75639											
ZXDB	158586	broad.mit.edu	37	chrX	57619559	57619559	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcacatgaagggccatgagCaggagaactcattcaaatgc	14	6	11	10	1	2	3	2	2	0	1	2	4	2	3	1	2	3	2	1	2	3	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:57619559C>T	uc004dvd.2	+	1	1291	c.1078C>T	c.(1078-1080)CAG>TAG	p.Q360*		NM_007157	NP_009088	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	360	Required for interaction with ZXDC (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						GGGCCATGAGCAGGAGAACTC	0.607													23	55					0	0	0.012319	0	0		T	57619559	T	T	57619559	4	4	140	1	0	0	0	0	0	1	0	0	18276	711	25	2	1080	2	ZXDB	23	57619559	Nonsense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	3097852	57619559	97651001	650	75640											
PHKA1	5255	broad.mit.edu	37	chrX	71915722	71915722	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgaaggattctactttaTccacctgaaaagaacaaaaa	18	11	5	7	0	1	3	0	2	1	1	2	4	2	4	2	1	2	0	2	1	8	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:71915722T>C	uc004eax.3	-	4	591	c.290A>G	c.(289-291)GAT>GGT	p.D97G	PHKA1_uc004eay.3_Missense_Mutation_p.D97G|PHKA1_uc011mqi.1_Missense_Mutation_p.D97G	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	97					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					TTCTACTTTATCCACCTGAAA	0.363													5	138					0	0	0.001984	0	0		C	71915722	C	C	71915722	3	2	140	1	0	0	0	0	1	0	0	0	11862	1435	50	3	3497	3	PHKA1	23	71915722	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	14296163	71915722	83354838	651	75641											
APOOL	139322	broad.mit.edu	37	chrX	84258931	84258931	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagacatggcggccatcAgggtaagcgaaaaccaactt	13	8	11	9	2	1	1	1	0	0	1	1	2	1	1	2	3	3	2	2	3	5	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:84258931A>G	uc004eem.2	+	1	27	c.13A>G	c.(13-15)AGG>GGG	p.R5G	APOOL_uc010nmp.2_RNA	NM_198450	NP_940852	Q6UXV4	APOOL_HUMAN	apolipoprotein O-like precursor	5						extracellular region					0						GGCGGCCATCAGGGTAAGCGA	0.507													53	149					0	0	0.01441	0	0		G	84258931	G	G	84258931	3	3	140	1	0	0	0	0	1	0	0	0	814	179	7	3	15	3	APOOL	23	84258931	Missense_Mutation	SNP	A	TCGA-CG-4465-01A-01D-1158-08	12343209	84258931	71011629	652	75642											
DACH2	117154	broad.mit.edu	37	chrX	85404009	85404009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtactgttgagcaggtcCggatcctccgcgggctgggg	4	10	17	10	3	0	1	0	1	0	0	3	2	3	2	3	5	2	4	3	5	1	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:85404009C>T	uc004eew.2	+	1	555	c.385C>T	c.(385-387)CGG>TGG	p.R129W	DACH2_uc004eex.2_Missense_Mutation_p.R129W|DACH2_uc010nmq.2_5'UTR	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	129	DACHbox-N.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						TGAGCAGGTCCGGATCCTCCG	0.547													34	70					0	0	0.021022	0	0		T	85404009	T	T	85404009	3	4	140	1	0	0	0	0	1	0	0	0	4224	643	23	1	387	1	DACH2	23	85404009	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1145078	85404009	69866551	653	75643											
KLHL4	56062	broad.mit.edu	37	chrX	86887421	86887421	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcctcccatgtcaacacaTcggcacggcttaggtaagag	11	8	10	12	2	1	1	1	0	0	1	3	1	2	1	2	3	2	3	2	3	3	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:86887421T>C	uc004efb.2	+	7	1718	c.1536T>C	c.(1534-1536)CAT>CAC	p.H512H	KLHL4_uc004efa.2_Silent_p.H512H	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	512	Kelch 2.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						TGTCAACACATCGGCACGGCT	0.368													24	46					0	0	0.00632	0	0		C	86887421	C	C	86887421	2	2	140	1	0	0	0	0	0	0	0	1	8407	1432	50	3		3	KLHL4	23	86887421	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	1483412	86887421	68383139	654	75644											
TCEAL6	158931	broad.mit.edu	37	chrX	101396280	101396281	+	Frame_Shift_Ins	INS	-	T	T																															cgttttccaggtttccttcaINStttttattgtagggtttttc																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:101396280_101396281insT	uc004eiq.2	-	3	184_185	c.23_24insA	c.(22-24)AATfs	p.N8fs		NM_001006938	NP_001006939	Q6IPX3	TCAL6_HUMAN	transcription elongation factor A (SII)-like 6	8					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						GGTTTCCTTCATTTTTATTGTA	0.257													27	58	---	---	---	---						.	T	101396281	T	T	101396280	7	5	140	1	0	1	1	0	0	0	0	0	15700	214	8	0	531	0	TCEAL6	23	101396280	Frame_Shift_Ins	INS	-	TCGA-CG-4465-01A-01D-1158-08	14508859	101396280	53874280	655	75645											
GPRASP2	114928	broad.mit.edu	37	chrX	101969939	101969939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggacccaggcaactactgggGcaaggcccaaaactgagacc	13	3	12	13	0	0	1	0	1	0	1	0	3	0	2	3	5	3	2	3	5	5	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:101969939G>A	uc004ejk.2	+	4	1476	c.142G>A	c.(142-144)GCA>ACA	p.A48T	GPRASP2_uc004ejl.2_Missense_Mutation_p.A48T|GPRASP2_uc004ejm.2_Missense_Mutation_p.A48T|GPRASP2_uc011mrp.1_5'Flank	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	48						cytoplasm	protein binding			ovary(1)	1						AACTACTGGGGCAAGGCCCAA	0.552													45	213					0	0	0.011902	0	0		A	101969939	A	A	101969939	3	1	140	1	0	0	0	0	1	0	0	0	6739	1203	42	2	144	2	GPRASP2	23	101969939	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	573659	101969939	53300621	656	75646											
NXF3	56000	broad.mit.edu	37	chrX	102335077	102335077	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggatcctctcttctcaccTtacaggttggtaacctcttg	6	15	7	13	0	3	0	1	0	3	0	6	1	4	1	3	3	2	2	3	3	2	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:102335077T>C	uc004eju.2	-	11	1066	c.995A>G	c.(994-996)AAG>AGG	p.K332R	NXF3_uc010noi.1_Missense_Mutation_p.K182R	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	332						cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3						TCTTCTCACCTTACAGGTTGG	0.527													148	294					0	0	0.01441	0	0		C	102335077	C	C	102335077	3	2	140	1	0	0	0	0	1	0	0	0	10804	1623	56	3	636	3	NXF3	23	102335077	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	365138	102335077	52935483	657	75647											
TSC22D3	1831	broad.mit.edu	37	chrX	107018613	107018613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttgcagcagtcgaggcCgacaggtgagcggcaatcga	10	5	16	10	4	0	1	0	1	0	0	2	4	0	1	1	3	3	5	1	3	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:107018613C>T	uc004enh.2	-	1	405	c.37G>A	c.(37-39)GGC>AGC	p.G13S	TSC22D3_uc004eni.2_Missense_Mutation_p.G13S|TSC22D3_uc004enj.2_Missense_Mutation_p.G13S	NM_198057	NP_932174	Q99576	T22D3_HUMAN	TSC22 domain family, member 3 isoform 1	Error:Variant_position_missing_in_Q99576_after_alignment							sequence-specific DNA binding transcription factor activity				0						CAGTCGAGGCCGACAGGTGAG	0.687													8	11					0	0	0.004482	0	0		T	107018613	T	T	107018613	3	4	140	1	0	0	0	0	1	0	0	0	16635	652	23	1	703	1	TSC22D3	23	107018613	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4683536	107018613	48251947	658	75648											
COL4A6	1288	broad.mit.edu	37	chrX	107417676	107417676	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcacacttacactttcTcctggcattcctgggaaacc	8	12	7	14	0	2	0	1	0	1	0	4	1	3	1	3	3	2	1	3	3	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:107417676T>C	uc004enw.3	-	31	3238	c.3135A>G	c.(3133-3135)GGA>GGG	p.G1045G	COL4A6_uc004env.3_Silent_p.G1044G|COL4A6_uc011msn.1_Silent_p.G1044G|COL4A6_uc010npk.2_Silent_p.G1044G	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1045	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						TTACACTTTCTCCTGGCATTC	0.517									Alport_syndrome_with_Diffuse_Leiomyomatosis				6	124					0	0	0.001984	0	0		C	107417676	C	C	107417676	2	2	140	1	0	0	0	0	0	0	0	1	3698	1538	54	3		3	COL4A6	23	107417676	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	399063	107417676	47852884	659	75649											
RGAG1	57529	broad.mit.edu	37	chrX	109694416	109694416	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatcctctgaggcaatgTccacaccattaatgctagcc	10	11	6	14	0	2	1	1	1	1	0	4	1	4	1	4	1	2	2	4	1	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:109694416T>C	uc004eor.1	+	3	817	c.571T>C	c.(571-573)TCC>CCC	p.S191P	RGAG1_uc011msr.1_Missense_Mutation_p.S191P	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	191										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TGAGGCAATGTCCACACCATT	0.483													5	250					0	0	0.001168	0	0		C	109694416	C	C	109694416	3	2	140	1	0	0	0	0	1	0	0	0	13299	1667	58	3	573	3	RGAG1	23	109694416	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	2276740	109694416	45576144	660	75650											
PLS3	5358	broad.mit.edu	37	chrX	114883835	114883835	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaaagcccaagatggtcaTgactgtgtttgcatgtttga	11	13	11	6	0	1	3	1	2	0	1	1	3	1	3	1	1	2	4	1	1	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:114883835T>C	uc004eqd.2	+	16	2237	c.1847T>C	c.(1846-1848)ATG>ACG	p.M616T	PLS3_uc011mtf.1_Missense_Mutation_p.M603T|PLS3_uc004eqe.2_Missense_Mutation_p.M616T|PLS3_uc011mtg.1_Missense_Mutation_p.M589T|PLS3_uc011mth.1_Missense_Mutation_p.M571T|PLS3_uc011mti.1_Missense_Mutation_p.M292T|PLS3_uc011mtj.1_Missense_Mutation_p.M210T|PLS3_uc011mtk.1_Missense_Mutation_p.M277T|PLS3_uc011mtl.1_RNA	NM_005032	NP_005023	P13797	PLST_HUMAN	plastin 3	616	CH 4.|Actin-binding 2.					cytoplasm	actin binding|calcium ion binding			lung(1)|breast(1)	2						AAGATGGTCATGACTGTGTTT	0.463													8	252					0	0	0.004482	0	0		C	114883835	C	C	114883835	3	2	140	1	0	0	0	0	1	0	0	0	12127	1464	51	3	1905	3	PLS3	23	114883835	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	5189419	114883835	40386725	661	75651											
CXorf56	63932	broad.mit.edu	37	chrX	118699280	118699280	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcctcccggtcccgagtGtcagagcagactactgaccg	8	9	10	14	3	1	3	1	1	0	2	4	4	4	3	4	1	2	1	4	1	2	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:118699280G>C	uc004erk.1	-	1	85	c.39C>G	c.(37-39)GAC>GAG	p.D13E	CXorf56_uc004erj.1_5'UTR|CXorf56_uc011mtu.1_Missense_Mutation_p.D13E	NM_022101	NP_071384	Q9H5V9	CX056_HUMAN	hypothetical protein LOC63932	13							protein binding				0						GGTCCCGAGTGTCAGAGCAGA	0.547													33	66					0	0	0.021022	0	0		C	118699280	C	C	118699280	3	2	140	1	0	0	0	0	1	0	0	0	4115	1368	48	5	657	5	CXorf56	23	118699280	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3815445	118699280	36571280	662	75652											
ATP1B4	23439	broad.mit.edu	37	chrX	119504684	119504684	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tataccaaccttcacggagcGggtaaagcctcctggtgagt	10	9	11	11	2	1	1	1	1	0	0	2	2	2	2	4	3	4	1	4	3	5	4			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:119504684G>T	uc004esr.2	+	3	527	c.443G>T	c.(442-444)CGG>CTG	p.R148L	ATP1B4_uc004esq.2_Missense_Mutation_p.R144L|ATP1B4_uc011mtx.1_Missense_Mutation_p.R113L|ATP1B4_uc011mty.1_Intron	NM_001142447	NP_001135919	Q9UN42	AT1B4_HUMAN	ATPase, (Na+)/K+ transporting, beta 4	148	Perinuclear space (Potential).				ATP biosynthetic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to plasma membrane|nuclear inner membrane	sodium:potassium-exchanging ATPase activity			ovary(1)|skin(1)	2						TTCACGGAGCGGGTAAAGCCT	0.478													149	405					3.27416e-85	3.85901e-85	0.01441	1	0		T	119504684	T	T	119504684	3	4	140	1	0	0	0	0	1	0	0	0	1136	1116	39	5	453	5	ATP1B4	23	119504684	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	805404	119504684	35765876	663	75653											
DCAF12L1	139170	broad.mit.edu	37	chrX	125686358	125686358	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgggcagcctctgtaccgcGtagccccgcagctcgccatc	5	7	11	18	5	1	0	0	0	1	0	4	0	1	0	5	1	4	5	5	1	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:125686358G>A	uc004eul.2	-	1	485	c.234C>T	c.(232-234)TAC>TAT	p.Y78Y		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	78										skin(3)|ovary(1)	4						TCTGTACCGCGTAGCCCCGCA	0.672													27	54					0	0	0.005524	0	0		A	125686358	A	A	125686358	2	1	140	1	0	0	0	0	0	0	0	1	4267	1140	40	1		1	DCAF12L1	23	125686358	Silent	SNP	G	TCGA-CG-4465-01A-01D-1158-08	6181674	125686358	29584202	664	75654											
ACTRT1	139741	broad.mit.edu	37	chrX	127185759	127185759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcagaggcatagagcgctgCcaccgcatgattagacaggt	11	6	14	10	2	0	4	0	1	0	3	0	4	0	4	2	3	2	4	2	3	2	2			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:127185759C>T	uc004eum.2	-	1	624	c.427G>A	c.(427-429)GCA>ACA	p.A143T		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	143						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						TAGAGCGCTGCCACCGCATGA	0.527													107	300					0	0	0.01441	0	0		T	127185759	T	T	127185759	3	4	140	1	0	0	0	0	1	0	0	0	218	739	26	2	707	2	ACTRT1	23	127185759	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	1499401	127185759	28084801	665	75655											
HS6ST2	90161	broad.mit.edu	37	chrX	132092270	132092270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagcgagtggcccagggCggccaggccccgagtgagca	7	4	16	14	3	1	1	1	1	0	0	1	3	1	1	4	4	2	1	4	4	0	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:132092270C>T	uc011mve.1	-	2	777	c.361G>A	c.(361-363)GCC>ACC	p.A121T	HS6ST2_uc011mvb.1_5'Flank|HS6ST2_uc011mvc.1_5'Flank|HS6ST2_uc011mvd.1_Missense_Mutation_p.A121T	NM_147175	NP_671704	Q96MM7	H6ST2_HUMAN	heparan sulfate 6-O-sulfotransferase 2 isoform	121	Lumenal (Potential).					integral to membrane	sulfotransferase activity				0	Acute lymphoblastic leukemia(192;0.000127)					TGGCCCAGGGCGGCCAGGCCC	0.701													5	5					0	0	0.001168	0	0		T	132092270	T	T	132092270	3	4	140	1	0	0	0	0	1	0	0	0	7387	768	27	1		1	HS6ST2	23	132092270	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	4906511	132092270	23178290	666	75656											
SLITRK2	84631	broad.mit.edu	37	chrX	144904206	144904206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgtcaattactccaacgCggtgactcttcacctaggta	10	13	7	11	2	3	1	2	1	1	0	4	1	4	1	2	2	2	1	2	2	5	5			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:144904206C>T	uc004fcd.2	+	5	1253	c.263C>T	c.(262-264)GCG>GTG	p.A88V	SLITRK2_uc010nsp.2_Missense_Mutation_p.A88V|SLITRK2_uc010nso.2_Missense_Mutation_p.A88V|SLITRK2_uc011mwq.1_Missense_Mutation_p.A88V|SLITRK2_uc011mwr.1_Missense_Mutation_p.A88V|SLITRK2_uc011mws.1_Missense_Mutation_p.A88V|SLITRK2_uc004fcg.2_Missense_Mutation_p.A88V|SLITRK2_uc011mwt.1_Missense_Mutation_p.A88V	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	88	Extracellular (Potential).|LRR 2.					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					TACTCCAACGCGGTGACTCTT	0.473													36	99					0	0	0.021022	0	0		T	144904206	T	T	144904206	3	4	140	1	0	0	0	0	1	0	0	0	14768	768	27	1	265	1	SLITRK2	23	144904206	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	12811936	144904206	10366354	667	75657											
FMR1	2332	broad.mit.edu	37	chrX	147010315	147010315	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctggatgtgccagaagacTtacggcaaatgtaagttgat	13	10	12	6	1	0	3	0	1	0	2	0	4	0	4	1	2	3	4	1	2	4	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:147010315T>C	uc010nst.2	+	5	598	c.409T>C	c.(409-411)TTA>CTA	p.L137L	FMR1_uc011mwz.1_Silent_p.L137L|FMR1_uc004fcj.2_Silent_p.L137L|FMR1_uc004fck.3_Silent_p.L137L|FMR1_uc004fcl.3_5'UTR|FMR1_uc011mxa.1_5'Flank	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	137					mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GCCAGAAGACTTACGGCAAAT	0.333									Fragile_X_syndrome				6	186					0	0	0.001984	0	0		C	147010315	C	C	147010315	2	2	140	1	0	0	0	0	0	0	0	1	5974	1606	56	3		3	FMR1	23	147010315	Silent	SNP	T	TCGA-CG-4465-01A-01D-1158-08	2106109	147010315	8260245	668	75658											
AFF2	2334	broad.mit.edu	37	chrX	148037360	148037360	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcagtctcattagggagaaAgcccgtccacggcccactca	10	7	9	15	2	3	1	3	0	1	1	5	2	4	1	3	2	1	0	3	2	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:148037360A>G	uc004fcp.2	+	11	2264	c.1785A>G	c.(1783-1785)AAA>AAG	p.K595K	AFF2_uc004fcq.2_Silent_p.K585K|AFF2_uc004fcr.2_Silent_p.K556K|AFF2_uc011mxb.1_Silent_p.K560K|AFF2_uc004fcs.2_Silent_p.K562K|AFF2_uc011mxc.1_Silent_p.K236K	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	595					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					TTAGGGAGAAAGCCCGTCCAC	0.468													75	193					0	0	0.01441	0	0		G	148037360	G	G	148037360	2	3	140	1	0	0	0	0	0	0	0	1	357	69	3	3		3	AFF2	23	148037360	Silent	SNP	A	TCGA-CG-4465-01A-01D-1158-08	1027045	148037360	7233200	669	75659											
MAGEA12	4111	broad.mit.edu	37	chrX	151900005	151900005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caggaactcgtagcatgcagGatcactgccggggacctgcc	9	6	13	13	2	1	0	1	0	0	0	2	3	1	3	3	4	5	3	3	4	2	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:151900005G>A	uc010ntp.2	-	3	1150	c.796C>T	c.(796-798)CCT>TCT	p.P266S	MAGEA12_uc004fgb.2_Intron|MAGEA12_uc004fgc.2_Missense_Mutation_p.P266S	NM_005367	NP_005358	P43365	MAGAC_HUMAN	melanoma antigen family A, 12	266	MAGE.									skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TAGCATGCAGGATCACTGCCG	0.552													11	257					0	0	0.010729	0	0		A	151900005	A	A	151900005	3	1	140	1	0	0	0	0	1	0	0	0	9184	1174	41	4	152	4	MAGEA12	23	151900005	Missense_Mutation	SNP	G	TCGA-CG-4465-01A-01D-1158-08	3862645	151900005	3370555	670	75660											
ATP2B3	492	broad.mit.edu	37	chrX	152818542	152818542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactccggggctttcggcctCgggaccgggacgacatggtg	6	7	16	12	5	0	0	0	0	0	0	3	3	1	2	3	6	1	1	3	6	1	1			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:152818542C>T	uc004fht.1	+	11	1999	c.1873C>T	c.(1873-1875)CGG>TGG	p.R625W	ATP2B3_uc004fhs.1_Missense_Mutation_p.R625W	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	625	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTTTCGGCCTCGGGACCGGGA	0.612													9	68					0	0	0.004482	0	0		T	152818542	T	T	152818542	3	4	140	1	0	0	0	0	1	0	0	0	1142	875	31	1	1915	1	ATP2B3	23	152818542	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	918537	152818542	2452018	671	75661											
PNCK	139728	broad.mit.edu	37	chrX	152938109	152938109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgagggccacgaggtgtgCggagccccgctcctgggcca	5	6	16	14	3	0	1	0	1	0	0	1	3	1	2	5	4	2	1	5	4	0	1	rs144452893		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:152938109C>T	uc011myu.1	-	3	547	c.361G>A	c.(361-363)GCA>ACA	p.A121T	PNCK_uc011myt.1_Missense_Mutation_p.A55T|PNCK_uc004fia.2_Missense_Mutation_p.A50T|PNCK_uc004fhz.3_5'UTR|PNCK_uc010nuh.2_Missense_Mutation_p.A121T|PNCK_uc011myv.1_Missense_Mutation_p.A65T|PNCK_uc011myw.1_Missense_Mutation_p.A65T	NM_001039582	NP_001034671	Q6P2M8	KCC1B_HUMAN	pregnancy upregulated non-ubiquitously expressed	38	Protein kinase.					cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACGAGGTGTGCGGAGCCCCGC	0.532													13	87					0	0	0.020292	0	0		T	152938109	T	T	152938109	3	4	140	1	0	0	0	0	1	0	0	0	12164	768	27	1	955	1	PNCK	23	152938109	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	119567	152938109	2332451	672	75662											
FLNA	2316	broad.mit.edu	37	chrX	153577261	153577261	+	Frame_Shift_Del	DEL	C	-	-																															gctgcctgggatgtgctcgtCcccccatttgaccaccagtg																										TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:153577261delC	uc004fkk.2	-	48	8149	c.7900delG	c.(7900-7902)GACfs	p.D2634fs	FLNA_uc004fki.2_Frame_Shift_Del_p.D674fs|FLNA_uc011mzn.1_Frame_Shift_Del_p.D767fs|FLNA_uc010nuu.1_Frame_Shift_Del_p.D2626fs	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2634	Self-association site, tail.|Filamin 24.			D -> H (in Ref. 2; CAA37495).	actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ATGTGCTCGTCCCCCCATTTG	0.667													50	96	---	---	---	---						.	-	153577261	-	-	153577261	7	5	140	1	0	1	0	1	0	0	0	0	5947	855	30	0	47	0	FLNA	23	153577261	Frame_Shift_Del	DEL	C	TCGA-CG-4465-01A-01D-1158-08	639152	153577261	1693299	673	75663											
PLXNA3	55558	broad.mit.edu	37	chrX	153698447	153698447	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgaccatgccgaccatcgCgagggggaccgtggcagcaa	10	3	14	14	5	0	0	0	0	0	0	1	4	0	1	4	3	2	2	4	3	1	0			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:153698447C>T	uc004flm.2	+	29	5096	c.4923C>T	c.(4921-4923)CGC>CGT	p.R1641R		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1641	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCGACCATCGCGAGGGGGACC	0.622													35	66					0	0	0.021022	0	0		T	153698447	T	T	153698447	2	4	140	1	0	0	0	0	0	0	0	1	12140	755	27	1		1	PLXNA3	23	153698447	Silent	SNP	C	TCGA-CG-4465-01A-01D-1158-08	121186	153698447	1572113	674	75664											
F8	2157	broad.mit.edu	37	chrX	154128211	154128211	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataatgaagtctggccagcTttggggcccactgtcctttg	8	12	11	10	0	1	1	0	1	1	0	2	1	2	1	3	3	1	1	3	3	3	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:154128211T>C	uc004fmt.2	-	21	6374	c.6203A>G	c.(6202-6204)AAG>AGG	p.K2068R	F8_uc010nvi.1_Intron	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	2068	F5/8 type C 1.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TCTGGCCAGCTTTGGGGCCCA	0.418													13	93					0	0	0.013537	0	0		C	154128211	C	C	154128211	3	2	140	1	0	0	0	0	1	0	0	0	5358	1609	56	3	904	3	F8	23	154128211	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	429764	154128211	1142349	675	75665											
F8	2157	broad.mit.edu	37	chrX	154194366	154194366	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaatcggacttttttgtacTtcctaccaatccgctgaggg	9	14	8	10	2	0	1	0	1	0	0	3	2	2	2	3	2	2	2	3	2	5	7			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:154194366T>A	uc004fmt.2	-	9	1493	c.1322A>T	c.(1321-1323)AAG>ATG	p.K441M		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	441	F5/8 type A 2.|Plastocyanin-like 3.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TTTTTTGTACTTCCTACCAAT	0.373													76	230					0	0	0.01441	0	0		A	154194366	A	A	154194366	3	1	140	1	0	0	0	0	1	0	0	0	5358	1609	56	5	5833	5	F8	23	154194366	Missense_Mutation	SNP	T	TCGA-CG-4465-01A-01D-1158-08	66155	154194366	1076194	676	75666											
FUNDC2	65991	broad.mit.edu	37	chrX	154261743	154261743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagaagcagccatggtggCgtaagctgttcgggcaggaa	11	7	15	8	2	0	1	0	0	0	1	1	2	0	2	1	4	3	5	1	4	4	3			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a4d2322-4237-4711-81fa-af35e6172e7a	13f23952-b672-4ba2-a98f-33a96de06f95	g.chrX:154261743C>T	uc004fmw.2	+	2	349	c.199C>T	c.(199-201)CGT>TGT	p.R67C		NM_023934	NP_076423	Q9BWH2	FUND2_HUMAN	FUN14 domain containing 2	67						mitochondrion					0	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GCCATGGTGGCGTAAGCTGTT	0.433													58	108					0	0	0.01441	0	0		T	154261743	T	T	154261743	3	4	140	1	0	0	0	0	1	0	0	0	6112	768	27	1	205	1	FUNDC2	23	154261743	Missense_Mutation	SNP	C	TCGA-CG-4465-01A-01D-1158-08	67377	154261743	1008817	677	75667											
UBXN11	91544	broad.mit.edu	37	chr1	26612350	26612350	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaagggctggaagggcccGtcgaacatcatgatgccatt	11	8	13	9	2	1	2	1	1	0	1	2	4	1	3	2	3	2	1	2	3	4	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:26612350G>A	uc001blw.2	-	10	1011	c.738C>T	c.(736-738)GAC>GAT	p.D246D	UBXN11_uc001blz.1_Silent_p.D213D|UBXN11_uc001blv.2_Silent_p.D208D|UBXN11_uc001bly.2_Silent_p.D126D|UBXN11_uc001blx.2_Silent_p.D4D|UBXN11_uc001bma.2_Silent_p.D213D|UBXN11_uc001bmb.1_Silent_p.D246D|UBXN11_uc010ofb.1_Silent_p.D171D|UBXN11_uc010ofc.1_Silent_p.D88D	NM_183008	NP_892120	Q5T124	UBX11_HUMAN	socius isoform 2	246	SEP.					cytoplasm|cytoskeleton				ovary(1)	1						GGAAGGGCCCGTCGAACATCA	0.637											OREG0013265	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	34					0	0	0.020292	0	0		A	26612350	A	A	26612350	2	1	141	1	0	0	0	0	0	0	0	1	16939	1136	40	1		1	UBXN11	1	26612350	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08		26612350	222638271	1	75668											
COL16A1	1307	broad.mit.edu	37	chr1	32138096	32138096	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccaggatctccctcactgTtgtcaccctggagaaggatg	9	9	11	12	0	3	1	2	0	1	1	4	4	3	3	3	3	1	1	3	3	1	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:32138096T>C	uc001btk.1	-	47	3391	c.3026A>G	c.(3025-3027)AAC>AGC	p.N1009S	COL16A1_uc001bti.1_5'Flank|COL16A1_uc001btj.1_Missense_Mutation_p.N822S	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	1009	Nonhelical region 3 (NC3).				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		TCCCTCACTGTTGTCACCCTG	0.607													37	114					0	0	0.086207	0	0		C	32138096	C	C	32138096	3	2	141	1	0	0	0	0	1	0	0	0	3676	1725	60	3	1888	3	COL16A1	1	32138096	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	5525746	32138096	217112525	2	75669											
ZMYM4	9202	broad.mit.edu	37	chr1	35824984	35824984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taacttatgaacgtgaaaaaCggttggataaaccccataaa	18	9	7	7	2	0	2	0	2	0	0	0	3	0	3	2	2	4	1	2	2	9	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:35824984C>T	uc001byt.2	+	3	624	c.544C>T	c.(544-546)CGG>TGG	p.R182W	ZMYM4_uc009vuu.2_Missense_Mutation_p.R150W|ZMYM4_uc001byu.2_Intron|ZMYM4_uc009vuv.2_Translation_Start_Site	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	182					multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				ACGTGAAAAACGGTTGGATAA	0.318													4	64					0	0	0.009096	0	0		T	35824984	T	T	35824984	3	4	141	1	0	0	0	0	1	0	0	0	17727	527	19	1	554	1	ZMYM4	1	35824984	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	3686888	35824984	213425637	3	75670											
MACF1	23499	broad.mit.edu	37	chr1	39800562	39800562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagatagttcagagttcagcGatcacagggctcagattgaa	13	10	11	7	1	4	4	4	1	0	3	4	5	4	4	0	1	1	3	0	1	3	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:39800562G>A	uc010oiu.1	+	1	3753	c.3622G>A	c.(3622-3624)GAT>AAT	p.D1208N	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2773					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AGAGTTCAGCGATCACAGGGC	0.378													32	103					0	0	0.059317	0	0		A	39800562	A	A	39800562	3	1	141	1	0	0	0	0	1	0	0	0	9162	1058	37	1	8393	1	MACF1	1	39800562	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	3975578	39800562	209450059	4	75671											
LEPR	3953	broad.mit.edu	37	chr1	66101927	66101927	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcatcagtgacatgtggTcctcttcttttggagcctga	8	13	10	10	0	3	2	1	2	2	0	4	3	4	3	2	2	2	1	2	2	0	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:66101927T>C	uc001dci.2	+	20	2929	c.2727T>C	c.(2725-2727)GGT>GGC	p.G909G	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	909	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		TGACATGTGGTCCTCTTCTTT	0.348													64	236					0	0	0.048971	0	0		C	66101927	C	C	66101927	2	2	141	1	0	0	0	0	0	0	0	1	8744	1654	58	3		3	LEPR	1	66101927	Silent	SNP	T	TCGA-CG-4466-01A-01D-1158-08	26301365	66101927	183148694	5	75672											
LRRC40	55631	broad.mit.edu	37	chr1	70618204	70618204	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actgagatcgacatcagaaaCcatttccttcagttctacca	13	11	5	12	1	3	2	2	1	1	2	5	4	4	2	3	0	2	1	3	0	2	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:70618204C>A	uc001der.1	-	12	1403	c.1351G>T	c.(1351-1353)GTT>TTT	p.V451F		NM_017768	NP_060238	Q9H9A6	LRC40_HUMAN	leucine rich repeat containing 40	451	LRR 15.									ovary(1)	1						ACATCAGAAACCATTTCCTTC	0.328													11	58					9.31168e-06	9.75027e-06	0.105934	1	0		A	70618204	A	A	70618204	3	1	141	1	0	0	0	0	1	0	0	0	9016	507	18	5	473	5	LRRC40	1	70618204	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	4516277	70618204	178632417	6	75673											
ZRANB2	9406	broad.mit.edu	37	chr1	71536585	71536585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaagatcgagactttgagCgacttcgtctattagatttc	10	14	10	7	3	1	5	0	2	1	3	4	7	1	5	0	0	1	0	0	0	3	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:71536585C>T	uc001dft.2	-	7	675	c.608G>A	c.(607-609)CGC>CAC	p.R203H	ZRANB2_uc001dfs.2_Missense_Mutation_p.R203H	NM_203350	NP_976225	O95218	ZRAB2_HUMAN	zinc finger protein 265 isoform 1	203	Arg/Ser-rich.|Required for nuclear targeting.				mRNA processing|RNA splicing	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						AGACTTTGAGCGACTTCGTCT	0.418													36	115					0	0	0.054565	0	0		T	71536585	T	T	71536585	3	4	141	1	0	0	0	0	1	0	0	0	18248	768	27	1	438	1	ZRANB2	1	71536585	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	918381	71536585	177714036	7	75674											
MSH4	4438	broad.mit.edu	37	chr1	76378529	76378529	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaagaagtacaaagaagAttttcccaggactgaacaag	19	6	9	7	0	0	5	0	1	0	4	1	6	1	6	1	1	2	1	1	1	8	3	rs138824189		TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:76378529A>T	uc001dhd.1	+	20	2809	c.2768A>T	c.(2767-2769)GAT>GTT	p.D923V		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	923					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						TACAAAGAAGATTTTCCCAGG	0.328								MMR					7	30					0	0	0.047766	0	0		T	76378529	T	T	76378529	3	4	141	1	0	0	0	0	1	0	0	0	9890	333	12	5	2846	5	MSH4	1	76378529	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	4841944	76378529	172872092	8	75675											
ST6GALNAC3	256435	broad.mit.edu	37	chr1	76779494	76779494	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttaatgttttgtagagaaAgtctgtgattgctgtgagct	9	18	11	3	0	1	3	0	2	1	1	1	4	1	3	0	0	2	4	0	0	3	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:76779494A>C	uc001dhh.2	+	2	186	c.23A>C	c.(22-24)AAG>ACG	p.K8T	ST6GALNAC3_uc001dhg.3_Missense_Mutation_p.K8T|ST6GALNAC3_uc010orh.1_Intron	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	8	Cytoplasmic (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						TTGTAGAGAAAGTCTGTGATT	0.378													34	107					0	0	0.050027	0	0		C	76779494	C	C	76779494	3	2	141	1	0	0	0	0	1	0	0	0	15250	72	3	5	29	5	ST6GALNAC3	1	76779494	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	400965	76779494	172471127	9	75676											
ZZZ3	26009	broad.mit.edu	37	chr1	78097749	78097749	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcattttgagaaatttcacCaggatttgtaggagattgac	12	15	9	5	0	2	3	2	2	0	2	2	6	2	4	1	2	0	1	1	2	2	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:78097749C>G	uc001dhq.2	-	5	1767	c.1291G>C	c.(1291-1293)GGT>CGT	p.G431R	ZZZ3_uc001dhr.2_Intron|ZZZ3_uc009wbz.1_Missense_Mutation_p.G431R|ZZZ3_uc001dhp.2_Missense_Mutation_p.G431R	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	431					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						GAAATTTCACCAGGATTTGTA	0.353													55	62					0	0	0.048971	0	0		G	78097749	G	G	78097749	3	3	141	1	0	0	0	0	1	0	0	0	18281	594	21	5	1464	5	ZZZ3	1	78097749	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	1318255	78097749	171152872	10	75677											
SYCP1	6847	broad.mit.edu	37	chr1	115527485	115527485	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagttcagaaactactgatcTtttggtaaaaattttacaaa	16	15	5	5	0	2	2	1	1	1	1	2	2	2	2	0	1	3	2	0	1	8	8			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:115527485T>G	uc001efr.2	+	30	2908	c.2699T>G	c.(2698-2700)CTT>CGT	p.L900R	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.L900R|SYCP1_uc009wgw.2_Missense_Mutation_p.L875R	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	900					cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACTACTGATCTTTTGGtaaaa	0.209													14	30					0	0	0.024245	0	0		G	115527485	G	G	115527485	3	3	141	1	0	0	0	0	1	0	0	0	15456	1609	56	5	2813	5	SYCP1	1	115527485	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	37429736	115527485	133723136	11	75678											
NGF	4803	broad.mit.edu	37	chr1	115829179	115829179	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggggtgaacggagtcgccGctttttaaacagcctggggt	8	9	15	9	4	0	1	0	1	0	0	1	2	0	2	2	5	3	1	2	5	3	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:115829179G>A	uc001efu.1	-	3	407	c.238C>T	c.(238-240)CGG>TGG	p.R80W		NM_002506	NP_002497	P01138	NGF_HUMAN	nerve growth factor, beta polypeptide precursor	80					activation of MAPKK activity|activation of phospholipase C activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of cell cycle|nerve growth factor processing|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|Golgi lumen	growth factor activity|nerve growth factor receptor binding			upper_aerodigestive_tract(2)	2	Lung SC(450;0.211)	all_cancers(81;1.07e-06)|all_epithelial(167;4.43e-06)|all_lung(203;2.86e-05)|Lung NSC(69;4.99e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|all cancers(265;0.159)|Epithelial(280;0.179)	Clenbuterol(DB01407)	CGGAGTCGCCGCTTTTTAAAC	0.647													6	36					0	0	0.021553	0	0		A	115829179	A	A	115829179	3	1	141	1	0	0	0	0	1	0	0	0	10414	1086	38	1	491	1	NGF	1	115829179	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	301694	115829179	133421442	12	75679											
PPIAL4G	644591	broad.mit.edu	37	chr1	143767743	143767743	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccagtgctcagagcacgaaAgttttctgctgtctttggaa	9	13	10	9	1	3	1	1	0	2	1	4	3	4	2	1	1	3	4	1	1	2	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:143767743A>C	uc001ejt.2	-	1	139	c.106T>G	c.(106-108)TTT>GTT	p.F36V		NM_001123068	NP_001116540	A2BFH1	PAL4G_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	36	PPIase cyclophilin-type.				protein folding	cytoplasm	peptidyl-prolyl cis-trans isomerase activity				0						AGAGCACGAAAGTTTTCTGCT	0.468													9	500					0	0	0.028581	0	0		C	143767743	C	C	143767743	3	2	141	1	0	0	0	0	1	0	0	0	12340	72	3	5	392	5	PPIAL4G	1	143767743	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	27938564	143767743	105482878	13	75680											
FLG	2312	broad.mit.edu	37	chr1	152279959	152279959	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctgccttcctccactgcttGaccccgggtgtccatgaatg	5	11	9	16	1	0	2	0	2	0	0	3	2	3	2	7	1	2	1	7	1	1	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:152279959G>C	uc001ezu.1	-	3	7439	c.7403C>G	c.(7402-7404)TCA>TGA	p.S2468*		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2468	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCACTGCTTGACCCCGGGTG	0.567									Ichthyosis				140	699					0	0	0.048971	0	0		C	152279959	C	C	152279959	4	2	141	1	0	0	0	0	0	1	0	0	5936	1294	45	5	4786	5	FLG	1	152279959	Nonsense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	8512216	152279959	96970662	14	75681											
PBXIP1	57326	broad.mit.edu	37	chr1	154926160	154926160	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctacctcggagccagcaAgcacccagctattatcagag	11	8	8	14	1	1	1	1	0	0	1	3	2	2	2	4	1	5	3	4	1	4	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:154926160A>C	uc001ffr.2	-	2	97	c.38T>G	c.(37-39)CTT>CGT	p.L13R	PBXIP1_uc001ffs.2_Intron|PBXIP1_uc010pep.1_Intron|PBXIP1_uc009woy.1_RNA	NM_020524	NP_065385	Q96AQ6	PBIP1_HUMAN	pre-B-cell leukemia homeobox interacting protein	13					cell differentiation|multicellular organismal development|negative regulation of transcription, DNA-dependent	cytosol|microtubule|nucleus	protein binding|transcription corepressor activity			large_intestine(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			GGAGCCAGCAAGCACCCAGCT	0.587													8	26					0	0	0.080935	0	0		C	154926160	C	C	154926160	3	2	141	1	0	0	0	0	1	0	0	0	11515	72	3	5	2197	5	PBXIP1	1	154926160	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	2646201	154926160	94324461	15	75682											
FCRL3	115352	broad.mit.edu	37	chr1	157668284	157668284	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgttttattttcaacaacTtctcatcgtgataccaatat	12	17	3	9	1	2	1	2	1	1	0	4	1	2	1	1	0	3	1	1	0	6	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:157668284T>G	uc001frb.2	-	4	480	c.188A>C	c.(187-189)AAG>ACG	p.K63T	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.K63T|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_5'Flank|FCRL3_uc001frc.1_Missense_Mutation_p.K63T	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	63	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					TTTCAACAACTTCTCATCGTG	0.453													50	114					0	0	0.048971	0	0		G	157668284	G	G	157668284	3	3	141	1	0	0	0	0	1	0	0	0	5810	1609	56	5	2064	5	FCRL3	1	157668284	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	2742124	157668284	91582337	16	75683											
CD1E	913	broad.mit.edu	37	chr1	158324300	158324300	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgggtgacctgcagacTcatggctgggacactgtctt	6	11	14	10	0	2	2	1	1	1	1	2	3	2	3	1	4	1	3	1	4	0	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:158324300T>C	uc001fse.2	+	2	431	c.192T>C	c.(190-192)ACT>ACC	p.T64T	CD1E_uc010pid.1_Silent_p.T62T|CD1E_uc010pie.1_Intron|CD1E_uc010pif.1_Intron|CD1E_uc001fsd.2_Silent_p.T64T|CD1E_uc001fsk.2_Silent_p.T64T|CD1E_uc001fsj.2_Silent_p.T64T|CD1E_uc001fsc.2_Intron|CD1E_uc010pig.1_Intron|CD1E_uc001fsa.2_Intron|CD1E_uc001fsf.2_Silent_p.T64T|CD1E_uc001fry.2_Silent_p.T64T|CD1E_uc001fsg.2_Intron|CD1E_uc001fsh.2_Intron|CD1E_uc001fsi.2_Silent_p.T64T|CD1E_uc009wsv.2_Intron|CD1E_uc001frz.2_Silent_p.T64T|CD1E_uc009wsw.2_5'Flank	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	64					antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					ACCTGCAGACTCATGGCTGGG	0.562													11	72					0	0	0.105934	0	0		C	158324300	C	C	158324300	2	2	141	1	0	0	0	0	0	0	0	1	2981	1538	54	3		3	CD1E	1	158324300	Silent	SNP	T	TCGA-CG-4466-01A-01D-1158-08	656016	158324300	90926321	17	75684											
SPTA1	6708	broad.mit.edu	37	chr1	158627318	158627318	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattatctacaataggttcCttctctctgatccatgtttc	8	18	5	10	0	3	1	0	1	3	0	7	1	5	1	2	1	1	3	2	1	5	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:158627318C>A	uc001fst.1	-	19	2953	c.2754G>T	c.(2752-2754)AAG>AAT	p.K918N		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	918	Spectrin 10.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CAATAGGTTCCTTCTCTCTGA	0.473													41	179					2.87052e-16	3.1543e-16	0.080422	1	0		A	158627318	A	A	158627318	3	1	141	1	0	0	0	0	1	0	0	0	15141	680	24	5	4641	5	SPTA1	1	158627318	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	303018	158627318	90623303	18	75685											
USP21	27005	broad.mit.edu	37	chr1	161133410	161133410	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaggacagcaagattgtggGtatggaatggggcaaagcaa	15	6	16	4	0	0	2	0	0	0	2	0	4	0	4	0	5	2	4	0	5	5	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:161133410G>C	uc010pke.1	+	8	1490	c.1113_splice	c.e8+2	p.V371_splice	USP21_uc010pkc.1_Splice_Site_p.D372_splice|USP21_uc010pkd.1_Splice_Site_p.D372_splice|USP21_uc010pkf.1_Splice_Site_p.V371_splice|PPOX_uc001fyj.2_5'Flank|PPOX_uc001fyn.2_5'Flank|PPOX_uc001fyg.2_5'Flank|PPOX_uc001fyl.2_5'Flank|PPOX_uc001fym.2_5'Flank|PPOX_uc001fyk.2_5'Flank|PPOX_uc001fyh.2_5'Flank|PPOX_uc010pkg.1_5'Flank|PPOX_uc009wuc.1_5'Flank|PPOX_uc010pkh.1_5'Flank|PPOX_uc001fyi.2_5'Flank	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21						histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			AAGATTGTGGGTATGGAATGG	0.502													15	35					0	0	0.024245	0	0		C	161133410	C	C	161133410	5	2	141	1	0	0	0	0	0	0	1	0	17079	1275	44	5	1137	5	USP21	1	161133410	Splice_Site	SNP	G	TCGA-CG-4466-01A-01D-1158-08	2506092	161133410	88117211	19	75686											
C1orf156	92342	broad.mit.edu	37	chr1	169762587	169762587	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctccaagttccttgaacTgctggctgcactgagtggac	7	11	12	11	0	0	2	0	2	0	0	2	3	2	3	2	3	3	5	2	3	2	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:169762587T>G	uc001ggn.2	-	2	528	c.250A>C	c.(250-252)AGT>CGT	p.S84R	C1orf112_uc001ggj.2_Intron|C1orf112_uc001ggo.2_5'Flank|uc010plt.1_5'Flank|C1orf112_uc001ggp.2_5'Flank|C1orf112_uc001ggq.2_5'Flank|C1orf112_uc009wvt.2_5'Flank	NM_033418	NP_219486	O95568	MET18_HUMAN	hypothetical protein MGC9084	84						cytoplasm	protein methyltransferase activity				0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TTCCTTGAACTGCTGGCTGCA	0.443													22	86					0	0	0.039052	0	0		G	169762587	G	G	169762587	3	3	141	1	0	0	0	0	1	0	0	0	2009	1580	55	5	872	5	C1orf156	1	169762587	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	8629177	169762587	79488034	20	75687											
FMO3	2328	broad.mit.edu	37	chr1	171076927	171076927	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtctttgatgctgtaatgGtttgttccggacatcatgtg	6	17	11	7	1	2	1	1	1	1	0	3	2	3	2	1	2	1	4	1	2	1	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:171076927G>C	uc001ghi.2	+	4	544	c.433G>C	c.(433-435)GTT>CTT	p.V145L	FMO3_uc001ghh.2_Missense_Mutation_p.V145L|FMO3_uc010pmb.1_Missense_Mutation_p.V125L|FMO3_uc010pmc.1_Missense_Mutation_p.V82L	NM_001002294	NP_001002294	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	145					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TGCTGTAATGGTTTGTTCCGG	0.408													72	112					0	0	0.048971	0	0		C	171076927	C	C	171076927	3	2	141	1	0	0	0	0	1	0	0	0	5970	1261	44	5	443	5	FMO3	1	171076927	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	1314340	171076927	78173694	21	75688											
GPR52	9293	broad.mit.edu	37	chr1	174418038	174418038	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagccctgaccgtcgctaCgccatggttttgtttaggat	7	12	10	12	3	0	1	0	1	0	0	1	2	0	2	3	2	2	3	3	2	2	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:174418038C>T	uc001gka.1	+	1	827	c.789C>T	c.(787-789)TAC>TAT	p.Y263Y	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron|uc010pmu.1_RNA	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	263	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						ACCGTCGCTACGCCATGGTTT	0.468													81	162					0	0	0.048971	0	0		T	174418038	T	T	174418038	2	4	141	1	0	0	0	0	0	0	0	1	6713	547	19	1		1	GPR52	1	174418038	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	3341111	174418038	74832583	22	75689											
GLT25D2	23127	broad.mit.edu	37	chr1	183908121	183908121	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtagatgagcaagggttctGcagagaaggctttcaggtcc	10	9	15	7	0	2	3	1	1	1	2	3	4	3	3	1	4	2	5	1	4	3	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:183908121G>T	uc001gqr.2	-	12	2027	c.1655C>A	c.(1654-1656)GCA>GAA	p.A552E	GLT25D2_uc010poj.1_Intron|GLT25D2_uc001gqp.2_Missense_Mutation_p.A160E|GLT25D2_uc001gqq.2_Missense_Mutation_p.A289E|GLT25D2_uc001gqs.2_Missense_Mutation_p.A432E	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	552					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						CAAGGGTTCTGCAGAGAAGGC	0.552													38	73					1.60099e-16	1.76597e-16	0.074837	1	0		T	183908121	T	T	183908121	3	4	141	1	0	0	0	0	1	0	0	0	6482	1319	46	5	229	5	GLT25D2	1	183908121	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	9490083	183908121	65342500	23	75690											
CFH	3075	broad.mit.edu	37	chr1	196642135	196642135	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaacttcctccaagaagaaAtacagaaattctgacaggtt	16	10	7	8	0	1	5	0	2	1	3	3	5	3	5	2	1	2	1	2	1	6	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:196642135A>C	uc001gtj.3	+	2	326	c.86A>C	c.(85-87)AAT>ACT	p.N29T	CFH_uc001gti.3_Missense_Mutation_p.N29T|CFH_uc009wyw.2_Missense_Mutation_p.N29T|CFH_uc009wyx.2_Missense_Mutation_p.N29T	NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	29	Sushi 1.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						CCAAGAAGAAATACAGAAATT	0.358													17	52					0	0	0.038395	0	0		C	196642135	C	C	196642135	3	2	141	1	0	0	0	0	1	0	0	0	3286	101	4	5	92	5	CFH	1	196642135	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	12734014	196642135	52608486	24	75691											
CFHR4	10877	broad.mit.edu	37	chr1	196884189	196884189	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaagagtcgagtaccaatgCcagtcctactatgaacttca	13	10	7	11	1	2	2	2	1	0	1	4	3	3	2	3	0	4	1	3	0	6	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:196884189C>G	uc001gto.2	+	5	789	c.720C>G	c.(718-720)TGC>TGG	p.C240W	CFHR4_uc009wyy.2_Missense_Mutation_p.C486W|CFHR4_uc001gtp.2_Missense_Mutation_p.C487W	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	240	Sushi 4.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						AGTACCAATGCCAGTCCTACT	0.423													56	198					0	0	0.048971	0	0		G	196884189	G	G	196884189	3	3	141	1	0	0	0	0	1	0	0	0	3290	747	26	5	738	5	CFHR4	1	196884189	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	242054	196884189	52366432	25	75692											
PTPRC	5788	broad.mit.edu	37	chr1	198678858	198678858	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaattaaattagaaaaccTtgaacccgaacatgagtata	20	9	6	6	1	0	4	0	2	0	2	0	5	0	4	2	0	3	1	2	0	10	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:198678858T>G	uc001gur.1	+	11	1250	c.1070T>G	c.(1069-1071)CTT>CGT	p.L357R	PTPRC_uc001gus.1_Missense_Mutation_p.L309R|PTPRC_uc001gut.1_Missense_Mutation_p.L196R|PTPRC_uc009wzf.1_Missense_Mutation_p.L245R|PTPRC_uc010ppg.1_Missense_Mutation_p.L293R	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	357	Extracellular (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TTAGAAAACCTTGAACCCGAA	0.279													32	50					0	0	0.041601	0	0		G	198678858	G	G	198678858	3	3	141	1	0	0	0	0	1	0	0	0	12822	1609	56	5	1119	5	PTPRC	1	198678858	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	1794669	198678858	50571763	26	75693											
CENPF	1063	broad.mit.edu	37	chr1	214819369	214819369	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcgggagaatgattcactTaaggataaagttgagaacct	15	9	12	5	1	1	3	1	2	0	2	1	7	1	4	1	2	2	1	1	2	5	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:214819369T>G	uc001hkm.2	+	13	6630	c.6456T>G	c.(6454-6456)CTT>CTG	p.L2152L		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2248	Potential.|2-1.|2 X 177 AA tandem repeats.|Interaction with NDE1 and NDEL1.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		ATGATTCACTTAAGGATAAAG	0.453													46	93					0	0	0.048971	0	0		G	214819369	G	G	214819369	2	3	141	1	0	0	0	0	0	0	0	1	3234	1741	61	5		5	CENPF	1	214819369	Silent	SNP	T	TCGA-CG-4466-01A-01D-1158-08	16140511	214819369	34431252	27	75694											
USH2A	7399	broad.mit.edu	37	chr1	216420386	216420386	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgacatctaacccataaaAgttttctctgcaggtgtcac	11	12	8	10	0	3	1	1	1	2	0	4	1	3	1	1	2	2	2	1	2	3	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:216420386A>C	uc001hku.1	-	13	2737	c.2350T>G	c.(2350-2352)TTT>GTT	p.F784V	USH2A_uc001hkv.2_Missense_Mutation_p.F784V	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	784	Laminin EGF-like 5.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AACCCATAAAAGTTTTCTCTG	0.488										HNSCC(13;0.011)			30	128					0	0	0.041601	0	0		C	216420386	C	C	216420386	3	2	141	1	0	0	0	0	1	0	0	0	17062	72	3	5	13512	5	USH2A	1	216420386	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	1601017	216420386	32830235	28	75695											
ACTA1	58	broad.mit.edu	37	chr1	229567787	229567787	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgggcagcggaagcgctcGttgccgatggtgatgacctg	6	8	16	11	5	0	2	0	2	0	0	2	4	1	3	3	3	3	3	3	3	1	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:229567787G>A	uc001htm.2	-	5	867	c.762C>T	c.(760-762)AAC>AAT	p.N254N		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	254					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	GGAAGCGCTCGTTGCCGATGG	0.542													11	25					0	0	0.020292	0	0		A	229567787	A	A	229567787	2	1	141	1	0	0	0	0	0	0	0	1	191	1136	40	1		1	ACTA1	1	229567787	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	13147401	229567787	19682834	29	75696											
TARBP1	6894	broad.mit.edu	37	chr1	234528274	234528274	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttttcttctgctgcagatAatcaattagctgaggtggtt	8	17	10	6	0	3	2	1	1	2	1	3	2	3	2	0	2	3	5	0	2	3	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:234528274A>G	uc001hwd.2	-	29	4585	c.4585T>C	c.(4585-4587)TAT>CAT	p.Y1529H		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	1529					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			TGCTGCAGATAATCAATTAGC	0.348													44	303					0	0	0.048971	0	0		G	234528274	G	G	234528274	3	3	141	1	0	0	0	0	1	0	0	0	15580	362	13	3	288	3	TARBP1	1	234528274	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	4960487	234528274	14722347	30	75697											
GREM2	64388	broad.mit.edu	37	chr1	240656630	240656630	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggccagcacctccttgAtctggtgctgccatctctcc	5	11	10	15	0	2	1	0	1	2	0	5	2	4	2	5	3	3	2	5	3	0	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr1:240656630A>T	uc001hys.2	-	2	426	c.146T>A	c.(145-147)ATC>AAC	p.I49N		NM_022469	NP_071914	Q9H772	GREM2_HUMAN	gremlin 2 precursor	49					BMP signaling pathway	extracellular space	cytokine activity				0		all_cancers(173;0.0196)	OV - Ovarian serous cystadenocarcinoma(106;0.0123)			CACCTCCTTGATCTGGTGCTG	0.657													12	44					0	0	0.09319	0	0		T	240656630	T	T	240656630	3	4	141	1	0	0	0	0	1	0	0	0	6778	333	12	5	364	5	GREM2	1	240656630	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	6128356	240656630	8593991	31	75698											
TPO	7173	broad.mit.edu	37	chr2	1499798	1499798	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgtcttcacggatgcaCagaggcgtgagctggagaag	10	6	15	10	3	2	3	1	1	1	2	2	5	2	4	1	3	2	2	1	3	1	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:1499798C>T	uc002qww.2	+	12	2135	c.2044C>T	c.(2044-2046)CAG>TAG	p.Q682*	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Nonsense_Mutation_p.Q625*|TPO_uc002qwr.2_Nonsense_Mutation_p.Q682*|TPO_uc002qwx.2_Nonsense_Mutation_p.Q625*|TPO_uc010yio.1_Nonsense_Mutation_p.Q509*|TPO_uc010yip.1_Nonsense_Mutation_p.Q682*|TPO_uc002qwy.1_Nonsense_Mutation_p.Q22*|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	682	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CACGGATGCACAGAGGCGTGA	0.577													8	24					0	0	0.047766	0	0		T	1499798	T	T	1499798	4	4	141	1	0	0	0	0	0	1	0	0	16436	479	17	4	2086	4	TPO	2	1499798	Nonsense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08		1499798	241699575	32	75699											
KCNS3	3790	broad.mit.edu	37	chr2	18112836	18112836	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcctgtccgctaagcttatCgctatctcctccttgagcgt	5	14	8	14	3	1	1	0	1	1	0	5	1	3	1	4	0	3	3	4	0	3	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:18112836C>T	uc002rcv.2	+	3	1012	c.561C>T	c.(559-561)ATC>ATT	p.I187I	KCNS3_uc002rcw.2_Silent_p.I187I	NM_002252	NP_002243	Q9BQ31	KCNS3_HUMAN	potassium voltage-gated channel	187	Helical; Name=Segment S1; (Potential).				energy reserve metabolic process|regulation of insulin secretion	Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CTAAGCTTATCGCTATCTCCT	0.522													22	37					0	0	0.055883	0	0		T	18112836	T	T	18112836	2	4	141	1	0	0	0	0	0	0	0	1	8106	874	31	1		1	KCNS3	2	18112836	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	16613038	18112836	225086537	33	75700											
LTBP1	4052	broad.mit.edu	37	chr2	33585711	33585711	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaagaaaagaaagaatgcTactataatctcaatgacgcc	20	7	7	7	1	1	5	1	1	1	4	2	5	1	5	1	0	2	1	1	0	10	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:33585711T>C	uc002ros.2	+	27	4051	c.4051T>C	c.(4051-4053)TAC>CAC	p.Y1351H	LTBP1_uc002rot.2_Missense_Mutation_p.Y1025H|LTBP1_uc002rou.2_Missense_Mutation_p.Y1024H|LTBP1_uc002rov.2_Missense_Mutation_p.Y971H|LTBP1_uc010ymz.1_Missense_Mutation_p.Y982H|LTBP1_uc010yna.1_Missense_Mutation_p.Y929H|LTBP1_uc010ynb.1_Missense_Mutation_p.Y248H	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1350	TB 3.				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				GAAAGAATGCTACTATAATCT	0.408													72	79					0	0	0.048971	0	0		C	33585711	C	C	33585711	3	2	141	1	0	0	0	0	1	0	0	0	9091	1522	53	3	4209	3	LTBP1	2	33585711	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	15472875	33585711	209613662	34	75701											
HK2	3099	broad.mit.edu	37	chr2	75061723	75061723	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaggatgattgcctcgcatCtgcttgcctacttcttcacg	6	13	9	13	2	3	1	1	1	2	0	4	2	3	2	2	1	4	3	2	1	1	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:75061723C>T	uc002snd.2	+	1	1942	c.16C>T	c.(16-18)CTG>TTG	p.L6L		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	6	Hydrophobic.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						TGCCTCGCATCTGCTTGCCTA	0.662													14	40					0	0	0.028581	0	0		T	75061723	T	T	75061723	2	4	141	1	0	0	0	0	0	0	0	1	7207	912	32	4		4	HK2	2	75061723	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	41476012	75061723	168137650	35	75702											
RNF103	7844	broad.mit.edu	37	chr2	86839315	86839315	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagttaaatgtgcctgtaCgtattccaaatcttgacacc	13	12	6	10	1	1	1	0	1	1	0	2	1	2	1	3	0	3	3	3	0	6	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:86839315C>A	uc002srn.2	-	3	1418	c.449G>T	c.(448-450)CGT>CTT	p.R150L	VPS24_uc010ytl.1_Intron|RNF103_uc002srm.2_Missense_Mutation_p.R11L|uc002sro.2_Intron	NM_005667	NP_005658	O00237	RN103_HUMAN	ring finger protein 103	150					central nervous system development|ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(1)	1						TGTGCCTGTACGTATTCCAAA	0.388													23	94					1.22574e-08	1.31199e-08	0.069288	1	0		A	86839315	A	A	86839315	3	1	141	1	0	0	0	0	1	0	0	0	13448	536	19	5	1616	5	RNF103	2	86839315	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	11777592	86839315	156360058	36	75703											
GYPC	2995	broad.mit.edu	37	chr2	127453545	127453545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattgctgctgtggccatcGtcctagtctccctcctcttc	3	15	8	15	1	2	1	0	1	2	0	7	1	4	1	4	1	2	2	4	1	1	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:127453545G>A	uc002tnq.2	+	4	370	c.214G>A	c.(214-216)GTC>ATC	p.V72I	GYPC_uc002tnr.2_Missense_Mutation_p.V53I|GYPC_uc010flv.2_RNA	NM_002101	NP_002092	P04921	GLPC_HUMAN	glycophorin C isoform 1	72	Helical; Signal-anchor for type III membrane protein.					cortical cytoskeleton|integral to plasma membrane	protein binding			central_nervous_system(1)	1	Colorectal(110;0.0533)			BRCA - Breast invasive adenocarcinoma(221;0.075)		TGTGGCCATCGTCCTAGTCTC	0.607													30	112					0	0	0.050027	0	0		A	127453545	A	A	127453545	3	1	141	1	0	0	0	0	1	0	0	0	6926	1145	40	1	228	1	GYPC	2	127453545	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	40614230	127453545	115745828	37	75704											
MGAT5	4249	broad.mit.edu	37	chr2	135199405	135199405	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgagcccgggcagtcctGcaagcaggtgtgccaggaga	8	6	16	11	1	0	2	0	1	0	1	1	3	1	2	3	3	5	4	3	3	1	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:135199405G>T	uc002ttv.1	+	15	2091	c.1946G>T	c.(1945-1947)TGC>TTC	p.C649F		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	649	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		GGGCAGTCCTGCAAGCAGGTG	0.582													24	68					1.64293e-13	1.77831e-13	0.083992	1	0		T	135199405	T	T	135199405	3	4	141	1	0	0	0	0	1	0	0	0	9566	1319	46	5	2004	5	MGAT5	2	135199405	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	7745860	135199405	107999968	38	75705											
YSK4	80122	broad.mit.edu	37	chr2	135745059	135745059	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttttatgtttgtctccatGctgctacaaccttctgggag	7	17	8	9	0	2	0	0	0	2	0	3	1	2	1	2	1	4	3	2	1	3	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:135745059G>A	uc002tue.1	-	7	1414	c.1383C>T	c.(1381-1383)AGC>AGT	p.S461S	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Silent_p.S348S|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Silent_p.S189S|YSK4_uc002tui.3_Silent_p.S478S	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	461							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TTGTCTCCATGCTGCTACAAC	0.408													58	161					0	0	0.048971	0	0		A	135745059	A	A	135745059	2	1	141	1	0	0	0	0	0	0	0	1	17521	1310	46	2		2	YSK4	2	135745059	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	545654	135745059	107454314	39	75706											
LRP1B	53353	broad.mit.edu	37	chr2	141122309	141122309	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaatgtagtttgcagagAgaattattgcaaaggaactc	16	10	10	5	0	0	3	0	0	0	3	1	5	0	4	0	1	3	4	0	1	6	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:141122309A>G	uc002tvj.1	-	72	12024	c.11052T>C	c.(11050-11052)TCT>TCC	p.S3684S		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3684	Extracellular (Potential).|LDL-receptor class A 30.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GTTTGCAGAGAGAATTATTGC	0.413										TSP Lung(27;0.18)			64	57					0	0	0.048971	0	0		G	141122309	G	G	141122309	2	3	141	1	0	0	0	0	0	0	0	1	8973	291	11	3		3	LRP1B	2	141122309	Silent	SNP	A	TCGA-CG-4466-01A-01D-1158-08	5377250	141122309	102077064	40	75707											
NEB	4703	broad.mit.edu	37	chr2	152499752	152499752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaattgatctgggtgctgaCggtaaacatggtcactcaaa	13	11	10	7	1	3	2	2	2	1	0	3	2	3	2	0	3	2	2	0	3	5	3	rs35555631	by1000genomes	TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:152499752C>T	uc010fnx.2	-	58	8263	c.8072G>A	c.(8071-8073)CGT>CAT	p.R2691H		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2691	Nebulin 72.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGGGTGCTGACGGTAAACATG	0.418													79	144					0	0	0.048971	0	0		T	152499752	T	T	152499752	3	4	141	1	0	0	0	0	1	0	0	0	10321	536	19	1	18114	1	NEB	2	152499752	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	11377443	152499752	90699621	41	75708											
PLA2R1	22925	broad.mit.edu	37	chr2	160901447	160901447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagcgccaccgtaaggaaaCgagggtggagtcacattcat	13	6	12	10	3	2	0	2	0	0	0	2	3	2	2	2	3	2	1	2	3	2	2	rs139879340		TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:160901447C>T	uc002ube.1	-	2	538	c.331G>A	c.(331-333)GTT>ATT	p.V111I	PLA2R1_uc010zcp.1_Missense_Mutation_p.V111I|PLA2R1_uc002ubf.2_Missense_Mutation_p.V111I	NM_007366	NP_031392	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1 isoform 1 precursor	111	Extracellular (Potential).|Ricin B-type lectin.				endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding			skin(2)|ovary(1)	3						CGTAAGGAAACGAGGGTGGAG	0.537													39	57					0	0	0.048971	0	0		T	160901447	T	T	160901447	3	4	141	1	0	0	0	0	1	0	0	0	12029	536	19	1	4184	1	PLA2R1	2	160901447	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	8401695	160901447	82297926	42	75709											
KCNH7	90134	broad.mit.edu	37	chr2	163253359	163253359	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaagtcttctcgctgaatcTtatgcaagtcacagtatgtg	11	13	8	9	1	4	1	1	1	3	0	5	1	4	1	0	0	1	3	0	0	5	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:163253359T>G	uc002uch.1	-	11	2716	c.2504A>C	c.(2503-2505)AAG>ACG	p.K835T		NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	835	Cytoplasmic (Potential).|cNMP.				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	TCGCTGAATCTTATGCAAGTC	0.373													50	68					0	0	0.048971	0	0		G	163253359	G	G	163253359	3	3	141	1	0	0	0	0	1	0	0	0	8053	1609	56	5	1110	5	KCNH7	2	163253359	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	2351912	163253359	79946014	43	75710											
XIRP2	129446	broad.mit.edu	37	chr2	167992437	167992437	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaagtggaaattgagcgaAgtttgtgctcgccagctttt	10	12	13	6	2	0	1	0	1	0	0	1	4	0	3	1	2	3	3	1	2	3	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:167992437A>C	uc002udx.2	+	2	445	c.427A>C	c.(427-429)AGT>CGT	p.S143R	XIRP2_uc010fpn.2_Missense_Mutation_p.S143R|XIRP2_uc010fpo.2_Missense_Mutation_p.S143R|XIRP2_uc010fpp.2_Missense_Mutation_p.S143R|XIRP2_uc002udy.2_5'UTR	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	Error:Variant_position_missing_in_A4UGR9_after_alignment					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AATTGAGCGAAGTTTGTGCTC	0.423													37	63					0	0	0.086207	0	0		C	167992437	C	C	167992437	3	2	141	1	0	0	0	0	1	0	0	0	17456	72	3	5	433	5	XIRP2	2	167992437	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	4739078	167992437	75206936	44	75711											
B3GALT1	8708	broad.mit.edu	37	chr2	168726351	168726351	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccttgaagacgtatatGtgggactgtgtcttcgaaag	10	13	11	7	2	2	2	1	1	1	1	3	4	2	3	1	1	0	1	1	1	4	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:168726351G>T	uc002udz.1	+	2	1153	c.802G>T	c.(802-804)GTG>TTG	p.V268L		NM_020981	NP_066191	Q9Y5Z6	B3GT1_HUMAN	UDP-Gal:betaGlcNAc beta	268	Lumenal (Potential).				lipid glycosylation|protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4						AGACGTATATGTGGGACTGTG	0.468													59	58					2.40265e-35	2.70181e-35	0.048971	1	0		T	168726351	T	T	168726351	3	4	141	1	0	0	0	0	1	0	0	0	1248	1377	48	5	804	5	B3GALT1	2	168726351	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	733914	168726351	74473022	45	75712											
CHN1	1123	broad.mit.edu	37	chr2	175779816	175779816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtaggtccctggctgcCgctggctctcccggatgagg	5	9	15	12	2	1	1	0	1	1	0	3	2	2	2	3	5	1	4	3	5	2	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:175779816C>T	uc002uji.2	-	5	760	c.230G>A	c.(229-231)CGG>CAG	p.R77Q	CHN1_uc010zeq.1_Missense_Mutation_p.R77Q|CHN1_uc002ujj.2_5'UTR	NM_001822	NP_001813	P15882	CHIN_HUMAN	chimerin (chimaerin) 1 isoform a	77	SH2.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.226)			CCCTGGCTGCCGCTGGCTCTC	0.463			T	TAF15	extraskeletal myxoid chondrosarcoma								3	12					0	0	0.004672	0	0		T	175779816	T	T	175779816	3	4	141	1	0	0	0	0	1	0	0	0	3365	652	23	1	1185	1	CHN1	2	175779816	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	7053465	175779816	67419557	46	75713											
TTN	7273	broad.mit.edu	37	chr2	179478896	179478896	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattaatttggtggccttgaAgtttgtatccttgacggtgg	7	16	13	5	1	0	2	0	2	0	0	1	3	1	2	2	4	0	2	2	4	3	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:179478896A>G	uc010zfg.1	-	211	41748	c.41524T>C	c.(41524-41526)TTC>CTC	p.F13842L	uc002ump.1_RNA|TTN_uc010zfh.1_Missense_Mutation_p.F7537L|TTN_uc010zfi.1_Missense_Mutation_p.F7470L|TTN_uc010zfj.1_Missense_Mutation_p.F7345L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14769							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTGGCCTTGAAGTTTGTATCC	0.443													9	44					0	0	0.047766	0	0		G	179478896	G	G	179478896	3	3	141	1	0	0	0	0	1	0	0	0	16761	72	3	3	58869	3	TTN	2	179478896	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	3699080	179478896	63720477	47	75714											
ERBB4	2066	broad.mit.edu	37	chr2	212251753	212251753	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattacagcaggagtcatcAaaaatctcagcagtagcacc	15	7	7	12	0	3	0	3	0	1	0	4	1	3	1	2	1	4	4	2	1	4	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:212251753A>G	uc002veg.1	-	27	3404	c.3306T>C	c.(3304-3306)TTT>TTC	p.F1102F	ERBB4_uc002veh.1_Silent_p.F1086F|ERBB4_uc010zji.1_Silent_p.F1092F|ERBB4_uc010zjj.1_Silent_p.F1076F	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1102	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		AGGAGTCATCAAAAATCTCAG	0.547										TSP Lung(8;0.080)			59	15					0	0	0.048971	0	0		G	212251753	G	G	212251753	2	3	141	1	0	0	0	0	0	0	0	1	5217	127	5	3		3	ERBB4	2	212251753	Silent	SNP	A	TCGA-CG-4466-01A-01D-1158-08	32772857	212251753	30947620	48	75715											
VWC2L	402117	broad.mit.edu	37	chr2	215301358	215301358	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatttgttcctagccctcTccatgtgaatggtgtcgctg	6	15	10	10	1	1	2	0	1	1	1	4	2	2	2	3	1	1	2	3	1	3	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:215301358T>C	uc002vet.2	+	3	526	c.396T>C	c.(394-396)TCT>TCC	p.S132S	VWC2L_uc010zjl.1_Intron	NM_001080500	NP_001073969	B2RUY7	VWC2L_HUMAN	von Willebrand factor C domain-containing	132	VWFC 2.					extracellular region					0						CCTAGCCCTCTCCATGTGAAT	0.433													19	12					0	0	0.043863	0	0		C	215301358	C	C	215301358	2	2	141	1	0	0	0	0	0	0	0	1	17270	1538	54	3		3	VWC2L	2	215301358	Silent	SNP	T	TCGA-CG-4466-01A-01D-1158-08	3049605	215301358	27898015	49	75716											
SP100	6672	broad.mit.edu	37	chr2	231313845	231313845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcctgacttggccaccttCgggttccccatctcatgctg	6	11	9	15	1	1	1	1	1	1	0	4	1	2	1	5	2	2	2	5	2	1	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr2:231313845C>T	uc002vqt.2	+	6	707	c.566C>T	c.(565-567)TCG>TTG	p.S189L	SP100_uc002vqs.2_Missense_Mutation_p.S189L|SP100_uc002vqu.1_Missense_Mutation_p.S189L|SP100_uc010zmb.1_Missense_Mutation_p.S189L|SP100_uc002vqq.1_Missense_Mutation_p.S189L|SP100_uc002vqr.1_Missense_Mutation_p.S164L|SP100_uc010zmc.1_Missense_Mutation_p.S164L|SP100_uc002vqv.1_Missense_Mutation_p.S153L	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	189					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		TGGCCACCTTCGGGTTCCCCA	0.458													72	73					0	0	0.048971	0	0		T	231313845	T	T	231313845	3	4	141	1	0	0	0	0	1	0	0	0	14985	893	31	1	588	1	SP100	2	231313845	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	16012487	231313845	11885528	50	75717											
NR1D2	9975	broad.mit.edu	37	chr3	23996233	23996233	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaatgatcgaatagattgTtctatgaaaacaagcaaatc	19	10	7	5	1	1	4	0	2	1	2	3	5	1	4	0	0	2	2	0	0	9	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr3:23996233T>C	uc003ccs.2	+	2	541	c.222T>C	c.(220-222)TGT>TGC	p.C74C	NR1D2_uc010hfd.2_RNA|NR1D2_uc011awk.1_5'UTR	NM_005126	NP_005117	Q14995	NR1D2_HUMAN	nuclear receptor subfamily 1, group D, member 2	74					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			urinary_tract(1)|kidney(1)|skin(1)	3						GAATAGATTGTTCTATGAAAA	0.373													43	85					0	0	0.039052	0	0		C	23996233	C	C	23996233	2	2	141	1	0	0	0	0	0	0	0	1	10635	1731	60	3		3	NR1D2	3	23996233	Silent	SNP	T	TCGA-CG-4466-01A-01D-1158-08		23996233	174026197	51	75718											
SLC25A38	54977	broad.mit.edu	37	chr3	39433036	39433036	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaaccgccctggagtcagtCatgctgggggtgggctctcg	5	8	15	13	2	3	0	2	0	1	0	4	1	3	1	3	4	2	2	3	4	1	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr3:39433036C>T	uc003cjo.2	+	4	782	c.381C>T	c.(379-381)GTC>GTT	p.V127V		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	127	Solcar 2.|Helical; Name=3; (Potential).				erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		TGGAGTCAGTCATGCTGGGGG	0.532													86	187					0	0	0.048971	0	0		T	39433036	T	T	39433036	2	4	141	1	0	0	0	0	0	0	0	1	14527	813	29	4		4	SLC25A38	3	39433036	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	15436803	39433036	158589394	52	75719											
IP6K1	9807	broad.mit.edu	37	chr3	49764884	49764884	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagatgacaagcagggaacTggagtagaagcggtaagagg	16	5	16	4	1	0	4	0	1	0	3	0	6	0	6	0	4	3	3	0	4	6	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr3:49764884T>C	uc003cxm.1	-	6	1312	c.997A>G	c.(997-999)AGT>GGT	p.S333G	IP6K1_uc003cxn.1_Missense_Mutation_p.S168G|IP6K1_uc011bcv.1_Missense_Mutation_p.S168G|IP6K1_uc003cxo.2_3'UTR	NM_153273	NP_695005	Q92551	IP6K1_HUMAN	inositol hexakisphosphate kinase 1 isoform 1	333					phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						AGCAGGGAACTGGAGTAGAAG	0.607													15	41					0	0	0.020292	0	0		C	49764884	C	C	49764884	3	2	141	1	0	0	0	0	1	0	0	0	7804	1580	55	3	332	3	IP6K1	3	49764884	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	10331848	49764884	148257546	53	75720											
GNAT1	2779	broad.mit.edu	37	chr3	50231619	50231619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcatcgcggcgctgagcGcctacgacatggtgctagtg	6	10	13	12	5	2	1	1	1	1	0	3	2	2	1	1	2	3	2	1	2	2	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr3:50231619G>A	uc003cym.2	+	6	789	c.673G>A	c.(673-675)GCC>ACC	p.A225T	GNAT1_uc003cyl.2_Missense_Mutation_p.A225T	NM_144499	NP_653082	P11488	GNAT1_HUMAN	rod-type transducin alpha subunit	225					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|negative regulation of cyclic-nucleotide phosphodiesterase activity|rhodopsin mediated phototransduction|sensory perception of umami taste	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	acyl binding|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GDP binding|GTP binding|GTPase activity|protein kinase binding|signal transducer activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		GGCGCTGAGCGCCTACGACAT	0.657													6	18					0	0	0.021553	0	0		A	50231619	A	A	50231619	3	1	141	1	0	0	0	0	1	0	0	0	6526	1087	38	1	695	1	GNAT1	3	50231619	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	466735	50231619	147790811	54	75721											
PARP3	10039	broad.mit.edu	37	chr3	51980232	51980232	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtaatcggaagctgctgtgGcatggcaccaacatggccgt	9	8	14	10	2	0	0	0	0	0	0	1	1	0	1	2	5	3	5	2	5	3	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr3:51980232G>A	uc003dby.2	+	9	1520	c.1149G>A	c.(1147-1149)TGG>TGA	p.W383*	PARP3_uc003dbz.2_Nonsense_Mutation_p.W390*	NM_005485	NP_005476	Q9Y6F1	PARP3_HUMAN	poly (ADP-ribose) polymerase family, member 3	383	PARP catalytic.				DNA repair|protein ADP-ribosylation	centriole|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		AGCTGCTGTGGCATGGCACCA	0.577													17	39					0	0	0.028581	0	0		A	51980232	A	A	51980232	4	1	141	1	0	0	0	0	0	1	0	0	11481	1212	42	2	1204	2	PARP3	3	51980232	Nonsense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	1748613	51980232	146042198	55	75722											
CACNA1D	776	broad.mit.edu	37	chr3	53777132	53777132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggttggggtgtctctggtgtCatttgggattcagtaagtat	6	16	15	4	0	3	0	2	0	1	0	4	1	3	1	0	5	0	3	0	5	2	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr3:53777132C>T	uc003dgv.3	+	22	3069	c.2906C>T	c.(2905-2907)TCA>TTA	p.S969L	CACNA1D_uc003dgu.3_Missense_Mutation_p.S989L|CACNA1D_uc003dgy.3_Missense_Mutation_p.S969L|CACNA1D_uc003dgw.3_Missense_Mutation_p.S636L|CACNA1D_uc003dgx.1_Missense_Mutation_p.S117L	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	969	Helical; Name=S3 of repeat III; (Potential).|III.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	TCTCTGGTGTCATTTGGGATT	0.443													73	76					0	0	0.048971	0	0		T	53777132	T	T	53777132	3	4	141	1	0	0	0	0	1	0	0	0	2544	838	29	4	3164	4	CACNA1D	3	53777132	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	1796900	53777132	144245298	56	75723											
ROBO2	6092	broad.mit.edu	37	chr3	77600056	77600056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacaatcaccaacattcaaCgttccgacgcgggttactac	12	9	6	14	4	3	0	3	0	0	0	4	1	4	0	2	1	4	2	2	1	5	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr3:77600056C>T	uc003dpy.3	+	8	1790	c.1147C>T	c.(1147-1149)CGT>TGT	p.R383C	ROBO2_uc003dpz.2_Missense_Mutation_p.R387C|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.R387C	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	383	Ig-like C2-type 4.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CAACATTCAACGTTCCGACGC	0.483													22	54					0	0	0.062417	0	0		T	77600056	T	T	77600056	3	4	141	1	0	0	0	0	1	0	0	0	13539	536	19	1	1179	1	ROBO2	3	77600056	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	23822924	77600056	120422374	57	75724											
GBE1	2632	broad.mit.edu	37	chr3	81640313	81640313	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaatcacctgagaaaccttGaccttagaaaaagaaaatca	19	8	6	8	0	2	4	2	2	0	3	2	5	2	4	3	0	1	1	3	0	7	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr3:81640313G>A	uc003dqg.2	-	10	1394	c.1111C>T	c.(1111-1113)CAA>TAA	p.Q371*	GBE1_uc011bgm.1_Nonsense_Mutation_p.Q330*	NM_000158	NP_000149	Q04446	GLGB_HUMAN	glucan (1,4-alpha-), branching enzyme 1	371					glucose metabolic process|glycogen biosynthetic process	cytosol	1,4-alpha-glucan branching enzyme activity|cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(3)	3		Lung NSC(201;0.0117)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0654)|Epithelial(33;0.00305)|LUSC - Lung squamous cell carcinoma(29;0.00646)|BRCA - Breast invasive adenocarcinoma(55;0.00813)|Lung(72;0.0129)|KIRC - Kidney renal clear cell carcinoma(39;0.212)|Kidney(39;0.247)		GAGAAACCTTGACCTTAGAAA	0.343									Glycogen_Storage_Disease_type_IV				6	9					0	0	0.02938	0	0		A	81640313	A	A	81640313	4	1	141	1	0	0	0	0	0	1	0	0	6285	1299	45	4	1029	4	GBE1	3	81640313	Nonsense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	4040257	81640313	116382117	58	75725											
STXBP5L	9515	broad.mit.edu	37	chr3	121126281	121126281	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggagatcatcagtatacaAtaatctgctcagaaaaacaa	19	9	6	7	0	4	2	3	0	1	2	4	3	4	2	0	1	3	2	0	1	8	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr3:121126281A>C	uc003eec.3	+	24	2991	c.2851A>C	c.(2851-2853)ATA>CTA	p.I951L	STXBP5L_uc011bji.1_Missense_Mutation_p.I927L	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	951	WD 12.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		TCAGTATACAATAATCTGCTC	0.373													32	78					0	0	0.037714	0	0		C	121126281	C	C	121126281	3	2	141	1	0	0	0	0	1	0	0	0	15382	101	4	5	2941	5	STXBP5L	3	121126281	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	39485968	121126281	76896149	59	75726											
EVC2	132884	broad.mit.edu	37	chr4	5699368	5699368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttgggccaaatcatacaggGcaagtcctaaaaaattcaag	16	9	8	8	0	2	0	2	0	0	0	3	0	3	0	2	2	1	1	2	2	7	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr4:5699368G>A	uc003gij.2	-	2	289	c.235C>T	c.(235-237)CCC>TCC	p.P79S	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_5'UTR	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	79						integral to membrane				large_intestine(3)|ovary(2)	5						ATCATACAGGGCAAGTCCTAA	0.378													4	58					0	0	0.014758	0	0		A	5699368	A	A	5699368	3	1	141	1	0	0	0	0	1	0	0	0	5294	1203	42	2	3775	2	EVC2	4	5699368	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08		5699368	185454908	60	75727											
UNC5C	8633	broad.mit.edu	37	chr4	96123915	96123915	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgtcatccagacagtaGactcggatgctgtactccag	9	10	12	10	1	1	2	1	0	0	2	4	3	3	3	2	2	2	3	2	2	2	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr4:96123915G>T	uc003htp.1	-	12	2257	c.2103C>A	c.(2101-2103)GTC>GTA	p.V701V	UNC5C_uc010ilc.1_Silent_p.V720V	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	701	Cytoplasmic (Potential).|Interaction with DCC (By similarity).				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		CCAGACAGTAGACTCGGATGC	0.602													12	29					2.32078e-09	2.49333e-09	0.024245	1	0		T	96123915	T	T	96123915	2	4	141	1	0	0	0	0	0	0	0	1	17019	929	33	5		5	UNC5C	4	96123915	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	90424547	96123915	95030361	61	75728											
AGXT2L1	64850	broad.mit.edu	37	chr4	109674150	109674150	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctctatattttcctctgtaAgtatctggagttggtgcctg	6	18	9	8	0	3	0	0	0	3	0	5	1	4	1	2	2	1	3	2	2	4	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr4:109674150A>C	uc003hzc.2	-	6	700	c.519T>G	c.(517-519)ACT>ACG	p.T173T	AGXT2L1_uc010imc.2_Silent_p.T167T|AGXT2L1_uc011cfm.1_Silent_p.T133T|AGXT2L1_uc011cfn.1_Silent_p.T100T|AGXT2L1_uc011cfo.1_Silent_p.T115T	NM_031279	NP_112569	Q8TBG4	AT2L1_HUMAN	alanine-glyoxylate aminotransferase 2-like 1	173					cellular amino acid metabolic process	mitochondrion	alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000281)		TTCCTCTGTAAGTATCTGGAG	0.393													32	82					0	0	0.041601	0	0		C	109674150	C	C	109674150	2	2	141	1	0	0	0	0	0	0	0	1	406	59	3	5		5	AGXT2L1	4	109674150	Silent	SNP	A	TCGA-CG-4466-01A-01D-1158-08	13550235	109674150	81480126	62	75729											
FGF2	2247	broad.mit.edu	37	chr4	123813510	123813510	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccaaaacaggacctgggCagaaagctatactttttctt	13	11	8	9	0	1	1	0	0	1	1	2	3	2	2	2	2	3	2	2	2	5	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr4:123813510C>A	uc003iev.1	+	3	894	c.826C>A	c.(826-828)CAG>AAG	p.Q276K		NM_002006	NP_001997	P09038	FGF2_HUMAN	fibroblast growth factor 2	276	Heparin-binding (By similarity).				activation of MAPK activity|branching involved in ureteric bud morphogenesis|cell migration involved in sprouting angiogenesis|chemotaxis|chondroblast differentiation|embryonic morphogenesis|fibroblast growth factor receptor signaling pathway|inositol phosphate biosynthetic process|insulin receptor signaling pathway|negative regulation of blood vessel endothelial cell migration|negative regulation of cell death|organ morphogenesis|phosphatidylinositol biosynthetic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of cardiac muscle cell proliferation|positive regulation of cell division|positive regulation of cell fate specification|positive regulation of ERK1 and ERK2 cascade|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phospholipase C activity|Ras protein signal transduction|release of sequestered calcium ion into cytosol|wound healing	extracellular space	fibroblast growth factor receptor binding|growth factor activity|heparin binding|ligand-dependent nuclear receptor transcription coactivator activity			ovary(1)|lung(1)|central_nervous_system(1)	3					Pentosan Polysulfate(DB00686)	AGGACCTGGGCAGAAAGCTAT	0.368													37	156					1.49673e-21	1.6701e-21	0.086207	1	0		A	123813510	A	A	123813510	3	1	141	1	0	0	0	0	1	0	0	0	5862	711	25	5	836	5	FGF2	4	123813510	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	14139360	123813510	67340766	63	75730											
FAT4	79633	broad.mit.edu	37	chr4	126370110	126370110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggccagagacggtggtttcCctcctttctcctcttacgag	6	12	10	13	2	2	1	0	0	2	1	5	3	4	1	4	3	1	1	4	3	1	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr4:126370110C>T	uc003ifj.3	+	9	7939	c.7939C>T	c.(7939-7941)CCT>TCT	p.P2647S	FAT4_uc011cgp.1_Missense_Mutation_p.P945S|FAT4_uc003ifi.1_Missense_Mutation_p.P125S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2647	Extracellular (Potential).|Cadherin 25.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						cggtggtttccctcctttctC	0.144													51	9					0	0	0.048971	0	0		T	126370110	T	T	126370110	3	4	141	1	0	0	0	0	1	0	0	0	5706	623	22	4	7973	4	FAT4	4	126370110	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	2556600	126370110	64784166	64	75731											
PCDH10	57575	broad.mit.edu	37	chr4	134072011	134072011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacggccctactcaccatccGagtgctggactccaatgaca	10	7	8	16	2	1	1	1	1	0	0	3	3	3	2	4	2	2	1	4	2	2	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr4:134072011G>A	uc003iha.2	+	1	1542	c.716G>A	c.(715-717)CGA>CAA	p.R239Q	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.R239Q	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	239	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CTCACCATCCGAGTGCTGGAC	0.463													22	47					0	0	0.099896	0	0		A	134072011	A	A	134072011	3	1	141	1	0	0	0	0	1	0	0	0	11526	1058	37	1	718	1	PCDH10	4	134072011	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	7701901	134072011	57082265	65	75732											
RNF175	285533	broad.mit.edu	37	chr4	154644505	154644505	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaattggagatacttacttGaaaaacagattgaatccaca	17	12	6	6	0	0	4	0	2	0	2	1	5	1	4	1	1	3	0	1	1	6	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr4:154644505G>T	uc003int.2	-	5	880	c.507C>A	c.(505-507)TTC>TTA	p.F169L	RNF175_uc003inu.1_Missense_Mutation_p.F41L	NM_173662	NP_775933	Q8N4F7	RN175_HUMAN	ring finger protein 175	169	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(1)|pancreas(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				ATACTTACTTGAAAAACAGAT	0.388													5	10					0.000602214	0.000626043	0.014758	1	0		T	154644505	T	T	154644505	3	4	141	1	0	0	0	0	1	0	0	0	13488	1281	45	5	499	5	RNF175	4	154644505	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	20572494	154644505	36509771	66	75733											
SFRP2	6423	broad.mit.edu	37	chr4	154702901	154702901	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatctccttcacttttattTtcagtgctatgagggagggc	7	17	9	8	0	3	1	2	1	1	0	4	2	3	2	1	2	1	1	1	2	3	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr4:154702901T>G	uc003inv.1	-	3	831	c.590A>C	c.(589-591)AAA>ACA	p.K197T		NM_003013	NP_003004	Q96HF1	SFRP2_HUMAN	secreted frizzled-related protein 2 precursor	197	NTR.				brain development|cardiac left ventricle morphogenesis|cell-cell signaling|dermatome development|hemopoietic stem cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|negative regulation of cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of transcription, DNA-dependent|outflow tract morphogenesis|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell adhesion mediated by integrin|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of fat cell differentiation|positive regulation of peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter|regulation of stem cell division|sclerotome development	cytoplasm|extracellular matrix|extracellular space|plasma membrane	fibronectin binding|integrin binding|PDZ domain binding|receptor agonist activity|Wnt receptor activity|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.093)	Renal(120;0.117)				CACTTTTATTTTCAGTGCTAT	0.463													67	163					0	0	0.048971	0	0		G	154702901	G	G	154702901	3	3	141	1	0	0	0	0	1	0	0	0	14187	1841	64	5	301	5	SFRP2	4	154702901	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	58396	154702901	36451375	67	75734											
GUCY1A3	2982	broad.mit.edu	37	chr4	156651353	156651353	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggaagatggcaatgccaaTtttttaggcaaagcatcagg	13	10	12	6	0	1	1	1	0	0	1	1	2	1	2	1	4	2	3	1	4	5	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr4:156651353T>G	uc003iov.2	+	11	2579	c.2043T>G	c.(2041-2043)AAT>AAG	p.N681K	GUCY1A3_uc003iow.2_Missense_Mutation_p.N681K|GUCY1A3_uc010iqd.2_Missense_Mutation_p.N680K|GUCY1A3_uc003iox.2_Missense_Mutation_p.N681K|GUCY1A3_uc003ioz.2_Missense_Mutation_p.N446K|GUCY1A3_uc003ioy.2_Missense_Mutation_p.N681K|GUCY1A3_uc010iqe.2_Missense_Mutation_p.N446K|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.N681K	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	681				GNANFLGKASGID -> ASQFFRQSIRNRLATYIPIYKSLG FDSLKMCRASESTLGIVDG (in Ref. 1; CAA47145).	blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		GCAATGCCAATTTTTTAGGCA	0.398													13	51					0	0	0.028581	0	0		G	156651353	G	G	156651353	3	3	141	1	0	0	0	0	1	0	0	0	6910	1490	52	5	2092	5	GUCY1A3	4	156651353	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	1948452	156651353	34502923	68	75735											
FASTKD3	79072	broad.mit.edu	37	chr5	7866882	7866882	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggaaaataattgaaatGagtgaatagcacgttttcca	15	11	11	4	1	0	3	0	3	0	0	1	4	1	4	1	2	1	2	1	2	6	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:7866882G>T	uc003jeb.2	-	2	1452	c.1315C>A	c.(1315-1317)CAT>AAT	p.H439N	FASTKD3_uc011cmp.1_Missense_Mutation_p.H141N|FASTKD3_uc003jec.2_Intron|MTRR_uc010itn.1_5'Flank|MTRR_uc003jee.3_5'Flank|MTRR_uc003jed.2_5'Flank|MTRR_uc003jef.3_5'Flank|MTRR_uc003jeg.3_5'Flank|MTRR_uc010ito.2_5'Flank	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	439					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						TAATTGAAATGAGTGAATAGC	0.358													20	139					4.96729e-08	5.25841e-08	0.049695	1	0		T	7866882	T	T	7866882	3	4	141	1	0	0	0	0	1	0	0	0	5701	1290	45	5	697	5	FASTKD3	5	7866882	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08		7866882	173048378	69	75736											
SEMA5A	9037	broad.mit.edu	37	chr5	9066715	9066715	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggtgtccagggcgtggtcTtcttcagctcaggacacggg	6	9	16	10	2	4	0	2	0	2	0	5	1	5	1	1	5	1	1	1	5	0	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:9066715T>G	uc003jek.2	-	17	2829	c.2117A>C	c.(2116-2118)AAG>ACG	p.K706T		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	706	Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						GGGCGTGGTCTTCTTCAGCTC	0.552													37	255					0	0	0.039052	0	0		G	9066715	G	G	9066715	3	3	141	1	0	0	0	0	1	0	0	0	14062	1609	56	5	1135	5	SEMA5A	5	9066715	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	1199833	9066715	171848545	70	75737											
CTNND2	1501	broad.mit.edu	37	chr5	11364954	11364954	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactgcagggcccgcaacTctgggcccaggtgcccatgc	6	5	15	15	1	1	0	0	0	1	0	1	1	1	1	3	4	4	2	3	4	1	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:11364954T>C	uc003jfa.1	-	8	1371	c.1226A>G	c.(1225-1227)GAG>GGG	p.E409G	CTNND2_uc010itt.2_Missense_Mutation_p.E318G|CTNND2_uc011cmy.1_Missense_Mutation_p.E72G|CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_5'UTR	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	409	ARM 1.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GGCCCGCAACTCTGGGCCCAG	0.567													14	119					0	0	0.028581	0	0		C	11364954	C	C	11364954	3	2	141	1	0	0	0	0	1	0	0	0	4023	1551	54	3	2511	3	CTNND2	5	11364954	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	2298239	11364954	169550306	71	75738											
MYO10	4651	broad.mit.edu	37	chr5	16676142	16676142	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggagctctggacttacagTtgagatttatgtccccatac	9	13	10	9	0	1	1	0	1	1	1	2	4	2	3	2	2	3	2	2	2	3	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:16676142T>C	uc003jft.3	-	34	5132	c.4664A>G	c.(4663-4665)AAC>AGC	p.N1555S	MYO10_uc011cnb.1_Missense_Mutation_p.N184S|MYO10_uc011cnc.1_Missense_Mutation_p.N434S|MYO10_uc011cnd.1_Missense_Mutation_p.N912S|MYO10_uc011cne.1_Missense_Mutation_p.N912S|MYO10_uc010itx.2_Missense_Mutation_p.N1177S	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1555	MyTH4.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						GGACTTACAGTTGAGATTTAT	0.498													36	239					0	0	0.092188	0	0		C	16676142	C	C	16676142	3	2	141	1	0	0	0	0	1	0	0	0	10080	1725	60	3	1544	3	MYO10	5	16676142	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	5311188	16676142	164239118	72	75739											
CDH18	1016	broad.mit.edu	37	chr5	19747287	19747287	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgataaatatagtcccagcaCcctctccagtaaggatgtac	13	10	7	11	0	1	1	0	1	1	0	3	2	2	2	3	1	2	3	3	1	6	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:19747287C>T	uc003jgc.2	-	3	664	c.287G>A	c.(286-288)GGT>GAT	p.G96D	CDH18_uc003jgd.2_Missense_Mutation_p.G96D|CDH18_uc011cnm.1_Missense_Mutation_p.G96D	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	96	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					AGTCCCAGCACCCTCTCCAGT	0.408													48	165					0	0	0.048971	0	0		T	19747287	T	T	19747287	3	4	141	1	0	0	0	0	1	0	0	0	3106	507	18	4	2125	4	CDH18	5	19747287	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	3071145	19747287	161167973	73	75740											
CDH12	1010	broad.mit.edu	37	chr5	21783540	21783540	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtaattcattagtggcgatGgttccttcatttccatctat	9	17	7	8	1	3	0	2	0	1	0	5	1	5	0	2	2	0	2	2	2	3	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:21783540G>A	uc010iuc.2	-	8	1778	c.1320C>T	c.(1318-1320)ACC>ACT	p.T440T	CDH12_uc011cno.1_Silent_p.T400T|CDH12_uc003jgk.2_Silent_p.T440T	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	440	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TAGTGGCGATGGTTCCTTCAT	0.378										HNSCC(59;0.17)			47	295					0	0	0.048971	0	0		A	21783540	A	A	21783540	2	1	141	1	0	0	0	0	0	0	0	1	3101	1335	47	4		4	CDH12	5	21783540	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	2036253	21783540	159131720	74	75741											
RXFP3	51289	broad.mit.edu	37	chr5	33937978	33937978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgtgagcgtgtgcctagCgcactccaacagctgcctca	7	8	10	16	2	1	1	1	1	0	0	2	1	2	1	4	0	6	2	4	0	2	1	rs143656786		TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:33937978C>T	uc003jic.1	+	1	1490	c.1133C>T	c.(1132-1134)GCG>GTG	p.A378V		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	378	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						GTGTGCCTAGCGCACTCCAAC	0.617													46	149					0	0	0.048971	0	0		T	33937978	T	T	33937978	3	4	141	1	0	0	0	0	1	0	0	0	13786	768	27	1	1135	1	RXFP3	5	33937978	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	12154438	33937978	146977282	75	75742											
NUP155	9631	broad.mit.edu	37	chr5	37364386	37364386	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcaggtgggagaggaacTcttcggatggaactgatctc	10	10	14	7	1	3	2	1	1	2	1	5	6	3	5	0	5	2	1	0	5	2	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:37364386T>C	uc003jku.1	-	2	376	c.258A>G	c.(256-258)AGA>AGG	p.R86R	NUP155_uc003jkt.1_Silent_p.R27R|NUP155_uc010iuz.1_Silent_p.R86R	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	86					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGAGAGGAACTCTTCGGATGG	0.383													20	176					0	0	0.055883	0	0		C	37364386	C	C	37364386	2	2	141	1	0	0	0	0	0	0	0	1	10775	1548	54	3		3	NUP155	5	37364386	Silent	SNP	T	TCGA-CG-4466-01A-01D-1158-08	3426408	37364386	143550874	76	75743											
HEATR7B2	133558	broad.mit.edu	37	chr5	41061700	41061700	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaggccaaaggggcccacTtctccattatataccagaac	12	8	9	12	0	1	2	0	1	1	1	2	2	1	2	4	3	2	0	4	3	5	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:41061700T>G	uc003jmj.3	-	6	1077	c.587A>C	c.(586-588)AAG>ACG	p.K196T		NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	196							binding			ovary(6)|central_nervous_system(2)	8						AGGGGCCCACTTCTCCATTAT	0.488													125	430					0	0	0.048971	0	0		G	41061700	G	G	41061700	3	3	141	1	0	0	0	0	1	0	0	0	7051	1609	56	5	4318	5	HEATR7B2	5	41061700	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	3697314	41061700	139853560	77	75744											
OXCT1	5019	broad.mit.edu	37	chr5	41803250	41803250	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tgctggccaggagagggattCctatgcccaaattagctgga	10	9	13	9	0	0	1	0	0	0	1	1	4	1	3	3	4	3	2	3	4	3	3	rs121909301		TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:41803250C>G	uc003jmn.2	-	10	1302	c.971G>C	c.(970-972)GGA>GCA	p.G324A		NM_000436	NP_000427	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1 precursor	324			G -> E (in SCOTD).		cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)	GAGAGGGATTCCTATGCCCAA	0.353													31	199					0	0	0.045705	0	0		G	41803250	G	G	41803250	3	3	141	1	0	0	0	0	1	0	0	0	11348	855	30	5	623	5	OXCT1	5	41803250	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	741550	41803250	139112010	78	75745											
MCTP1	79772	broad.mit.edu	37	chr5	94248669	94248669	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggtctgataggcgtaaacTttgggtctgaaacttttggc	9	14	12	6	1	2	2	0	2	2	0	2	2	2	2	0	4	2	1	0	4	5	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:94248669T>G	uc003kkx.2	-	9	1363	c.1363A>C	c.(1363-1365)AGT>CGT	p.S455R	MCTP1_uc003kkv.2_Missense_Mutation_p.S234R|MCTP1_uc003kkw.2_Missense_Mutation_p.S188R|MCTP1_uc003kkz.2_Missense_Mutation_p.S116R|MCTP1_uc003kku.2_5'UTR	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L	455					calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		AGGCGTAAACTTTGGGTCTGA	0.403													145	33					0	0	0.048971	0	0		G	94248669	G	G	94248669	3	3	141	1	0	0	0	0	1	0	0	0	9418	1609	56	5	1696	5	MCTP1	5	94248669	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	52445419	94248669	86666591	79	75746											
PPIP5K2	23262	broad.mit.edu	37	chr5	102465386	102465386	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaccatgcagatgaagaCgatgaggaggaagatgattc	14	8	12	7	1	0	6	0	3	0	3	2	9	1	8	2	2	1	1	2	2	2	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:102465386C>G	uc003kod.3	+	2	612	c.93C>G	c.(91-93)GAC>GAG	p.D31E	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.D31E|PPIP5K2_uc010jbo.1_Intron	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	31					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						CAGATGAAGACGATGAGGAGG	0.368													33	13					0	0	0.069456	0	0		G	102465386	G	G	102465386	3	3	141	1	0	0	0	0	1	0	0	0	12355	535	19	5	95	5	PPIP5K2	5	102465386	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	8216717	102465386	78449874	80	75747											
GRXCR2	643226	broad.mit.edu	37	chr5	145246082	145246082	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acctgtgtataccggttttgGggtaatgtgctttctgcctc	5	16	11	9	1	1	0	0	0	1	0	2	0	1	0	3	3	3	4	3	3	3	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr5:145246082G>A	uc003lns.1	-	2	546	c.546C>T	c.(544-546)CCC>CCT	p.P182P		NM_001080516	NP_001073985	A6NFK2	GRCR2_HUMAN	glutaredoxin, cysteine rich 2	182											0						ACCGGTTTTGGGGTAATGTGC	0.527													39	73					0	0	0.086207	0	0		A	145246082	A	A	145246082	2	1	141	1	0	0	0	0	0	0	0	1	6829	1219	43	4		4	GRXCR2	5	145246082	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	42780696	145246082	35669178	81	75748											
DSP	1832	broad.mit.edu	37	chr6	7585299	7585299	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatatccagcgtcaggaatTtaaccataaggagcagctct	13	9	8	11	1	2	0	1	0	1	0	3	2	3	2	3	2	4	2	3	2	4	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr6:7585299T>G	uc003mxp.1	+	24	8083	c.7804T>G	c.(7804-7806)TTA>GTA	p.L2602V	DSP_uc003mxq.1_Missense_Mutation_p.L2003V	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2602	Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		CGTCAGGAATTTAACCATAAG	0.468													33	115					0	0	0.064281	0	0		G	7585299	G	G	7585299	3	3	141	1	0	0	0	0	1	0	0	0	4787	1838	64	5	7898	5	DSP	6	7585299	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08		7585299	163529768	82	75749											
C6orf114	85411	broad.mit.edu	37	chr6	13470336	13470336	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgttgaattcgtttgaaaaAccgataaatactgcagttgg	14	13	9	5	2	0	2	0	2	0	0	1	3	0	2	1	1	3	4	1	1	6	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr6:13470336A>C	uc003nav.2	-	2	700	c.177T>G	c.(175-177)GGT>GGG	p.G59G	GFOD1_uc003nas.1_Intron|GFOD1_uc003nat.1_Intron|C6orf114_uc003nau.2_RNA	NM_033069	NP_149060			hypothetical protein LOC85411												0	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0504)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.147)			CGTTTGAAAAACCGATAAATA	0.343													36	34					0	0	0.092188	0	0		C	13470336	C	C	13470336	2	2	141	1	0	0	0	0	0	0	0	1	2324	30	2	5		5	C6orf114	6	13470336	Silent	SNP	A	TCGA-CG-4466-01A-01D-1158-08	5885037	13470336	157644731	83	75750											
RBM24	221662	broad.mit.edu	37	chr6	17292294	17292294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgctgcagcagctgctgccGctgcagcatttggccagtac	6	8	12	15	2	0	0	0	0	0	0	0	0	0	0	3	1	8	9	3	1	1	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr6:17292294G>A	uc003nbz.3	+	4	659	c.655G>A	c.(655-657)GCT>ACT	p.A219T	RBM24_uc003nby.3_3'UTR|RBM24_uc011dix.1_Missense_Mutation_p.A161T|RBM24_uc003nca.2_Missense_Mutation_p.A174T|RBM24_uc011diy.1_Silent_p.P132P|RBM24_uc011diz.1_Silent_p.P117P	NM_001143942	NP_001137414	Q9BX46	RBM24_HUMAN	RNA binding motif protein 24 isoform 1	219	Ala-rich.				cell differentiation|regulation of mRNA stability|regulation of myotube differentiation	cytoplasm|nucleus	mRNA 3'-UTR binding|nucleotide binding			ovary(1)|skin(1)	2	Breast(50;0.0615)|Ovarian(93;0.0733)	all_hematologic(90;0.062)	all cancers(50;0.131)|Epithelial(50;0.15)			agctgctgccgctgcagcATT	0.433													17	28					0	0	0.049695	0	0		A	17292294	A	A	17292294	3	1	141	1	0	0	0	0	1	0	0	0	13149	1087	38	1	702	1	RBM24	6	17292294	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	3821958	17292294	153822773	84	75751											
HCRTR2	3062	broad.mit.edu	37	chr6	55039587	55039587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acatcatcgtgttcgtcgtgGctctcattgggaacgtcctg	6	13	11	11	4	2	0	2	0	1	0	7	1	3	1	1	2	1	2	1	2	1	2	rs75924257		TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr6:55039587G>A	uc003pcl.2	+	1	517	c.202G>A	c.(202-204)GCT>ACT	p.A68T	HCRTR2_uc010jzv.2_RNA|HCRTR2_uc010jzu.1_RNA	NM_001526	NP_001517	O43614	OX2R_HUMAN	orexin receptor 2	68	Helical; Name=1; (Potential).				feeding behavior	integral to plasma membrane	neuropeptide receptor activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|breast(1)	6	Lung NSC(77;0.107)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			GTTCGTCGTGGCTCTCATTGG	0.602													21	91					0	0	0.055883	0	0		A	55039587	A	A	55039587	3	1	141	1	0	0	0	0	1	0	0	0	7018	1203	42	2	204	2	HCRTR2	6	55039587	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	37747293	55039587	116075480	85	75752											
PRDM13	59336	broad.mit.edu	37	chr6	100062499	100062499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagtctgctcgccaaagcggGcgacggcccgggtgccgagc	6	4	17	14	6	1	0	0	0	1	0	2	3	1	0	3	3	4	1	3	3	1	0	rs113976133		TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr6:100062499G>A	uc003pqg.1	+	4	2249	c.1988G>A	c.(1987-1989)GGC>GAC	p.G663D		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	663					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		GCCAAAGCGGGCGACGGCCCG	0.677													3	27					0	0	0.004672	0	0		A	100062499	A	A	100062499	3	1	141	1	0	0	0	0	1	0	0	0	12476	1203	42	2	2002	2	PRDM13	6	100062499	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	45022912	100062499	71052568	86	75753											
RFPL4B	442247	broad.mit.edu	37	chr6	112671628	112671628	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggtttcttctctttggagCttttgtgtccattcttctgt	3	22	8	8	0	4	0	0	0	4	0	6	1	5	1	1	2	1	2	1	2	0	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr6:112671628C>G	uc003pvx.1	+	3	1030	c.718C>G	c.(718-720)CTT>GTT	p.L240V		NM_001013734	NP_001013756	Q6ZWI9	RFPLB_HUMAN	ret finger protein-like 4B	240	B30.2/SPRY.						zinc ion binding				0		all_cancers(87;9.44e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00265)|Colorectal(196;0.0209)		all cancers(137;0.0202)|OV - Ovarian serous cystadenocarcinoma(136;0.0477)|Epithelial(106;0.0646)|GBM - Glioblastoma multiforme(226;0.0866)|BRCA - Breast invasive adenocarcinoma(108;0.244)		CTCTTTGGAGCTTTTGTGTCC	0.438													25	105					0	0	0.099896	0	0		G	112671628	G	G	112671628	3	3	141	1	0	0	0	0	1	0	0	0	13281	797	28	5	720	5	RFPL4B	6	112671628	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	12609129	112671628	58443439	87	75754											
NUP43	348995	broad.mit.edu	37	chr6	150048162	150048162	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcggttccacaaacaagAcaaggacctaaaacatccaa	18	5	6	12	1	0	1	0	0	0	1	3	2	2	2	3	2	2	2	3	2	6	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr6:150048162A>T	uc003qmz.2	-	8	1143	c.1086T>A	c.(1084-1086)TGT>TGA	p.C362*	NUP43_uc003qmx.3_RNA|NUP43_uc011eee.1_RNA|NUP43_uc011eef.1_Nonsense_Mutation_p.C266*	NM_198887	NP_942590	Q8NFH3	NUP43_HUMAN	nucleoporin 43kDa	362					carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			upper_aerodigestive_tract(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;4.71e-13)|GBM - Glioblastoma multiforme(68;0.101)		CACAAACAAGACAAGGACCTA	0.388													18	85					0	0	0.043863	0	0		T	150048162	T	T	150048162	4	4	141	1	0	0	0	0	0	1	0	0	10784	273	10	5	60	5	NUP43	6	150048162	Nonsense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	37376534	150048162	21066905	88	75755											
ULBP1	80329	broad.mit.edu	37	chr6	150290326	150290326	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaagttcctcctctttgActcaaacaacagaaagtgga	15	9	7	10	0	2	3	1	1	1	2	4	4	4	4	2	1	2	1	2	1	4	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr6:150290326A>G	uc003qnp.2	+	3	498	c.455A>G	c.(454-456)GAC>GGC	p.D152G		NM_025218	NP_079494	Q9BZM6	N2DL1_HUMAN	UL16 binding protein 1 precursor	152	MHC class I alpha-2 like.				antigen processing and presentation|immune response|natural killer cell activation|regulation of immune response	anchored to membrane|endoplasmic reticulum|MHC class I protein complex	MHC class I receptor activity			pancreas(1)	1		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.14e-11)		CTCCTCTTTGACTCAAACAAC	0.498													24	95					0	0	0.076483	0	0		G	150290326	G	G	150290326	3	3	141	1	0	0	0	0	1	0	0	0	16998	275	10	3	465	3	ULBP1	6	150290326	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	242164	150290326	20824741	89	75756											
SYNE1	23345	broad.mit.edu	37	chr6	152746668	152746668	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgaggcctgggatacaacTtcattttgcagtgcctgaaa	12	11	10	8	0	1	2	1	2	0	0	1	3	1	3	2	2	4	1	2	2	4	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr6:152746668T>G	uc010kiw.2	-	39	5717	c.5115A>C	c.(5113-5115)GAA>GAC	p.E1705D	SYNE1_uc003qot.3_Missense_Mutation_p.E1712D|SYNE1_uc003qou.3_Missense_Mutation_p.E1705D|SYNE1_uc010kjb.1_Missense_Mutation_p.E1688D	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1705	Spectrin 2.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GGGATACAACTTCATTTTGCA	0.413										HNSCC(10;0.0054)			32	85					0	0	0.054565	0	0		G	152746668	G	G	152746668	3	3	141	1	0	0	0	0	1	0	0	0	15470	1606	56	5	21783	5	SYNE1	6	152746668	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	2456342	152746668	18368399	90	75757											
C6orf118	168090	broad.mit.edu	37	chr6	165715428	165715428	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggttcaggtacctgaacAgcggggtgtcctgggcctca	6	8	17	10	1	2	1	2	1	0	0	3	1	3	1	3	6	3	2	3	6	2	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr6:165715428A>G	uc003qum.3	-	2	419	c.383T>C	c.(382-384)CTG>CCG	p.L128P	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	128											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		GTACCTGAACAGCGGGGTGTC	0.617													39	131					0	0	0.104719	0	0		G	165715428	G	G	165715428	3	3	141	1	0	0	0	0	1	0	0	0	2326	188	7	3	1058	3	C6orf118	6	165715428	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	12968760	165715428	5399639	91	75758											
ZNF713	349075	broad.mit.edu	37	chr7	56007364	56007364	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attcatcctttactcaacatCtgaggattcatactggagaa	13	13	6	9	0	4	2	3	1	1	1	5	4	5	3	1	2	3	0	1	2	4	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr7:56007364C>G	uc003trc.1	+	4	996	c.958C>G	c.(958-960)CTG>GTG	p.L320V	ZNF713_uc003tra.1_Missense_Mutation_p.L333V|MRPS17_uc003trb.2_Intron	NM_182633	NP_872439	Q8N859	ZN713_HUMAN	zinc finger protein 713	320	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TACTCAACATCTGAGGATTCA	0.403													29	261					0	0	0.034045	0	0		G	56007364	G	G	56007364	3	3	141	1	0	0	0	0	1	0	0	0	18142	912	32	5	972	5	ZNF713	7	56007364	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08		56007364	103131299	92	75759											
SUMF2	25870	broad.mit.edu	37	chr7	56132002	56132002	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcggcgcagcgcggcagtcCtgatggcccggcatgggtta	5	6	17	13	6	0	1	0	1	0	0	1	1	1	1	2	5	1	4	2	5	1	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr7:56132002C>T	uc003trv.2	+	1	86	c.55C>T	c.(55-57)CTG>TTG	p.L19L	PSPH_uc003trj.2_Intron|SUMF2_uc003tro.2_Silent_p.L19L|SUMF2_uc011kcv.1_RNA|SUMF2_uc011kcw.1_Silent_p.L19L|SUMF2_uc011kcx.1_Silent_p.L19L|SUMF2_uc003trt.2_5'UTR|SUMF2_uc011kcy.1_Silent_p.L19L|SUMF2_uc011kcz.1_Silent_p.L19L|SUMF2_uc003tru.2_RNA|SUMF2_uc011kda.1_5'UTR|SUMF2_uc003trx.2_RNA	NM_001130069	NP_001123541	Q8NBJ7	SUMF2_HUMAN	sulfatase modifying factor 2 isoform e	Error:Variant_position_missing_in_Q8NBJ7_after_alignment						endoplasmic reticulum lumen	metal ion binding			ovary(1)|skin(1)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CGCGGCAGTCCTGATGGCCCG	0.716													7	2					0	0	0.038147	0	0		T	56132002	T	T	56132002	2	4	141	1	0	0	0	0	0	0	0	1	15411	680	24	4		4	SUMF2	7	56132002	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	124638	56132002	103006661	93	75760											
ZNF735	730291	broad.mit.edu	37	chr7	63679791	63679791	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatggaaaatgtggacatgAgaatttacaattaaaaaaat	21	11	7	2	0	0	1	0	1	0	1	0	4	0	3	0	2	1	0	0	2	10	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr7:63679791A>G	uc011kdn.1	+	4	362	c.362A>G	c.(361-363)GAG>GGG	p.E121G		NM_001159524	NP_001152996	P0CB33	ZN735_HUMAN	zinc finger protein 735	121					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGTGGACATGAGAATTTACAA	0.348													34	93					0	0	0.050027	0	0		G	63679791	G	G	63679791	3	3	141	1	0	0	0	0	1	0	0	0	18149	304	11	3	376	3	ZNF735	7	63679791	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	7547789	63679791	95458872	94	75761											
ZNF273	10793	broad.mit.edu	37	chr7	64378004	64378004	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccatagaattctctctggagGagtggcaatgcctggacact	10	10	11	10	0	2	1	0	0	2	1	3	4	2	4	2	4	1	1	2	4	3	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr7:64378004G>T	uc003tto.2	+	2	224	c.148G>T	c.(148-150)GAG>TAG	p.E50*	ZNF273_uc003ttl.2_5'UTR|ZNF273_uc003ttm.1_RNA|ZNF273_uc003ttn.2_5'UTR|ZNF273_uc003ttp.1_RNA	NM_021148	NP_066971	Q14593	ZN273_HUMAN	zinc finger protein 273	50					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(55;0.0295)|all_lung(88;0.0691)				CTCTCTGGAGGAGTGGCAATG	0.408													42	260					1.15505e-17	1.27896e-17	0.11126	1	0		T	64378004	T	T	64378004	4	4	141	1	0	0	0	0	0	1	0	0	17833	1175	41	5	154	5	ZNF273	7	64378004	Nonsense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	698213	64378004	94760659	95	75762											
SRRM3	222183	broad.mit.edu	37	chr7	75889227	75889227	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccctgtcgccggcagtgtGgcggagaccccgcggctgac	4	6	16	15	5	0	2	0	1	0	1	2	3	1	2	4	4	0	2	4	4	0	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr7:75889227G>A	uc010ldi.2	+	4	548	c.339G>A	c.(337-339)GTG>GTA	p.V113V		NM_001110199	NP_001103669			serine/arginine repetitive matrix 3												0						CCGGCAGTGTGGCGGAGACCC	0.687													11	53					0	0	0.028581	0	0		A	75889227	A	A	75889227	2	1	141	1	0	0	0	0	0	0	0	1	15195	1335	47	4		4	SRRM3	7	75889227	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	11511223	75889227	83249436	96	75763											
PCLO	27445	broad.mit.edu	37	chr7	82585678	82585678	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgatgagccaacactagTtcttcgttttctttgtggaa	8	16	9	8	1	2	2	0	2	2	0	3	3	2	3	1	1	2	3	1	1	3	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr7:82585678T>G	uc003uhx.2	-	5	4880	c.4591A>C	c.(4591-4593)ACT>CCT	p.T1531P	PCLO_uc003uhv.2_Missense_Mutation_p.T1531P	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1462					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CCAACACTAGTTCTTCGTTTT	0.398													18	71					0	0	0.043863	0	0		G	82585678	G	G	82585678	3	3	141	1	0	0	0	0	1	0	0	0	11602	1725	60	5	10938	5	PCLO	7	82585678	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	6696451	82585678	76552985	97	75764											
PCLO	27445	broad.mit.edu	37	chr7	82595388	82595388	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcttcaggggttggctttTtttcttctaggagtggcttt	3	20	12	6	0	4	0	1	0	3	0	4	1	4	1	0	5	0	3	0	5	1	8			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr7:82595388T>G	uc003uhx.2	-	4	4005	c.3716A>C	c.(3715-3717)AAA>ACA	p.K1239T	PCLO_uc003uhv.2_Missense_Mutation_p.K1239T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1178					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GGTTGGCTTTTTTTCTTCTAG	0.383													106	323					0	0	0.048971	0	0		G	82595388	G	G	82595388	3	3	141	1	0	0	0	0	1	0	0	0	11602	1841	64	5	11817	5	PCLO	7	82595388	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	9710	82595388	76543275	98	75765											
SEMA3A	10371	broad.mit.edu	37	chr7	83591046	83591046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agtttgtatgaacccatgttCcaccgcatggcagaggtaat	11	11	10	9	1	0	2	0	1	0	1	1	2	1	2	3	2	1	6	3	2	3	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr7:83591046C>T	uc003uhz.2	-	17	2272	c.1957G>A	c.(1957-1959)GAA>AAA	p.E653K		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	653	Ig-like C2-type.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						AACCCATGTTCCACCGCATGG	0.438													31	104					0	0	0.037714	0	0		T	83591046	T	T	83591046	3	4	141	1	0	0	0	0	1	0	0	0	14049	864	30	4	362	4	SEMA3A	7	83591046	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	995658	83591046	75547617	99	75766											
C7orf58	79974	broad.mit.edu	37	chr7	120907303	120907303	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatcctagtgatcatcaaaActttgggaattggatttcat	13	15	7	6	0	3	1	3	1	0	0	4	3	4	3	1	2	1	0	1	2	5	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr7:120907303A>C	uc003vjq.3	+	21	3115	c.2668A>C	c.(2668-2670)ACT>CCT	p.T890P		NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	890						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					GATCATCAAAACTTTGGGAAT	0.194													8	16					0	0	0.038147	0	0		C	120907303	C	C	120907303	3	2	141	1	0	0	0	0	1	0	0	0	2408	43	2	5	2792	5	C7orf58	7	120907303	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	37316257	120907303	38231360	100	75767											
ASB15	142685	broad.mit.edu	37	chr7	123264689	123264689	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	taacactagcctagaccagcCctgtgtcaagcgatggtcag	11	8	10	12	1	2	1	2	0	0	1	2	2	2	1	3	1	4	0	3	1	4	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr7:123264689C>A	uc003vku.1	+	8	810	c.518C>A	c.(517-519)CCC>CAC	p.P173H	ASB15_uc003vkv.1_Missense_Mutation_p.P173H|ASB15_uc003vkw.1_Missense_Mutation_p.P173H	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	173	ANK 2.				intracellular signal transduction					skin(2)|lung(1)	3						CTAGACCAGCCCTGTGTCAAG	0.453											OREG0018282	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	128					7.11191e-15	7.78538e-15	0.054565	1	0		A	123264689	A	A	123264689	3	1	141	1	0	0	0	0	1	0	0	0	1020	623	22	5	536	5	ASB15	7	123264689	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	2357386	123264689	35873974	101	75768											
ATG9B	285973	broad.mit.edu	37	chr7	150718411	150718411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaccagcagcgggctggagCggatcctgtatggggttggg	6	7	20	8	2	0	0	0	0	0	0	1	3	1	3	2	7	3	4	2	7	1	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr7:150718411C>T	uc011kvc.1	-	5	903	c.827G>A	c.(826-828)CGC>CAC	p.R276H	ATG9B_uc003wig.3_RNA	NM_173681	NP_775952	Q674R7	ATG9B_HUMAN	ATG9 autophagy related 9 homolog B	276	Lumenal (By similarity).				autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane				ovary(1)	1	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGGGCTGGAGCGGATCCTGTA	0.612													12	19					0	0	0.105934	0	0		T	150718411	T	T	150718411	3	4	141	1	0	0	0	0	1	0	0	0	1104	768	27	1	1982	1	ATG9B	7	150718411	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	27453722	150718411	8420252	102	75769											
DLC1	10395	broad.mit.edu	37	chr8	13356670	13356670	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacctttggtggacttttgTtttgatgttgtgaaaaacca	9	17	10	5	0	0	3	0	3	0	0	0	4	0	4	2	2	1	2	2	2	2	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr8:13356670T>G	uc003wwm.2	-	2	1355	c.911A>C	c.(910-912)AAC>ACC	p.N304T	DLC1_uc003wwn.2_Missense_Mutation_p.N304T|DLC1_uc011kxy.1_Missense_Mutation_p.N304T	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	304					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TGGACTTTTGTTTTGATGTTG	0.468													43	168					0	0	0.048971	0	0		G	13356670	G	G	13356670	3	3	141	1	0	0	0	0	1	0	0	0	4556	1725	60	5	3828	5	DLC1	8	13356670	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08		13356670	133007352	103	75770											
WHSC1L1	54904	broad.mit.edu	37	chr8	38139039	38139039	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttctcgtgggctcgcttGattcgcaatctgcattcttc	4	16	9	12	3	3	1	0	1	3	0	7	1	3	1	0	1	1	5	0	1	1	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr8:38139039G>T	uc003xli.2	-	20	4082	c.3564C>A	c.(3562-3564)ATC>ATA	p.I1188I	WHSC1L1_uc011lbm.1_Silent_p.I1188I|WHSC1L1_uc010lwe.2_Silent_p.I1139I|WHSC1L1_uc003xlh.2_5'Flank	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1188	SET.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			GGGCTCGCTTGATTCGCAATC	0.318			T	NUP98	AML								13	32					2.27111e-07	2.38673e-07	0.09319	1	0		T	38139039	T	T	38139039	2	4	141	1	0	0	0	0	0	0	0	1	17389	1280	45	5		5	WHSC1L1	8	38139039	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	24782369	38139039	108224983	104	75771											
RP1	6101	broad.mit.edu	37	chr8	55540434	55540434	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagcttgcccaattgatgAgacctacgttcctgtcaatg	9	11	11	10	1	1	2	1	2	0	1	2	4	2	3	3	1	3	2	3	1	3	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr8:55540434A>T	uc003xsd.1	+	4	4140	c.3992A>T	c.(3991-3993)GAG>GTG	p.E1331V	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1331					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CCAATTGATGAGACCTACGTT	0.393													51	214					0	0	0.048971	0	0		T	55540434	T	T	55540434	3	4	141	1	0	0	0	0	1	0	0	0	13557	304	11	5	4002	5	RP1	8	55540434	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	17401395	55540434	90823588	105	75772											
TRPA1	8989	broad.mit.edu	37	chr8	72971670	72971670	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatggtgatcaaacaatgaAgctctgaaaaaacagaatta	19	9	7	6	0	3	4	2	3	1	1	3	4	3	4	0	1	3	1	0	1	8	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr8:72971670A>T	uc003xza.2	-	8	1123	c.948T>A	c.(946-948)GCT>GCA	p.A316A		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	316	ANK 8.|Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	CAAACAATGAAGCTCTGAAAA	0.234													6	19					0	0	0.021553	0	0		T	72971670	T	T	72971670	2	4	141	1	0	0	0	0	0	0	0	1	16603	59	3	5		5	TRPA1	8	72971670	Silent	SNP	A	TCGA-CG-4466-01A-01D-1158-08	17431236	72971670	73392352	106	75773											
NECAB1	64168	broad.mit.edu	37	chr8	91963378	91963378	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagcaagacattccaaagaAgtaatgtggatttcttggaa	16	11	9	5	0	1	2	0	0	1	2	2	4	2	4	1	2	1	2	1	2	6	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr8:91963378A>C	uc011lgg.1	+	12	1170	c.976A>C	c.(976-978)AGT>CGT	p.S326R	NECAB1_uc003yer.2_Missense_Mutation_p.S75R	NM_022351	NP_071746	Q8N987	NECA1_HUMAN	N-terminal EF-hand calcium binding protein 1	326					antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity			central_nervous_system(1)	1			BRCA - Breast invasive adenocarcinoma(11;0.0499)			ATTCCAAAGAAGTAATGTGGA	0.353													13	65					0	0	0.105934	0	0		C	91963378	C	C	91963378	3	2	141	1	0	0	0	0	1	0	0	0	10323	72	3	5	1022	5	NECAB1	8	91963378	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	18991708	91963378	54400644	107	75774											
RIMS2	9699	broad.mit.edu	37	chr8	105263313	105263313	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagccaaaaagaaaacaaaAgtggcaagaaaaacgctgga	23	3	9	6	1	0	2	0	0	0	2	0	3	0	3	1	2	3	2	1	2	10	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr8:105263313A>C	uc003yls.2	+	27	4048	c.3807A>C	c.(3805-3807)AAA>AAC	p.K1269N	RIMS2_uc003ylp.2_Missense_Mutation_p.K1251N|RIMS2_uc003ylw.2_Missense_Mutation_p.K1258N|RIMS2_uc003ylq.2_Missense_Mutation_p.K1065N|RIMS2_uc003ylr.2_Missense_Mutation_p.K1090N	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1313	C2 2.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGAAAACAAAAGTGGCAAGAA	0.378										HNSCC(12;0.0054)			16	55					0	0	0.024245	0	0		C	105263313	C	C	105263313	3	2	141	1	0	0	0	0	1	0	0	0	13393	69	3	5	4039	5	RIMS2	8	105263313	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	13299935	105263313	41100709	108	75775											
CSMD3	114788	broad.mit.edu	37	chr8	113256673	113256673	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttatcggatctacacactCtatgttctgttccacctgct	7	16	6	12	1	3	0	0	0	3	0	5	1	4	1	2	1	2	4	2	1	3	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr8:113256673C>A	uc003ynu.2	-	65	10511	c.10352G>T	c.(10351-10353)AGA>ATA	p.R3451I	CSMD3_uc003yns.2_Missense_Mutation_p.R2653I|CSMD3_uc003ynt.2_Missense_Mutation_p.R3411I|CSMD3_uc011lhx.1_Missense_Mutation_p.R3282I	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3451	Extracellular (Potential).|Sushi 28.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TCTACACACTCTATGTTCTGT	0.418										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			54	103					1.10885e-35	1.25179e-35	0.048971	1	0		A	113256673	A	A	113256673	3	1	141	1	0	0	0	0	1	0	0	0	3949	913	32	5	799	5	CSMD3	8	113256673	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	7993360	113256673	33107349	109	75776											
CSMD3	114788	broad.mit.edu	37	chr8	113256738	113256738	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatcagtgtatacccatgAgatggaaggtccatccctac	13	10	8	10	0	1	1	1	1	0	1	3	3	3	2	3	2	2	1	3	2	6	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr8:113256738A>G	uc003ynu.2	-	65	10446	c.10287T>C	c.(10285-10287)TCT>TCC	p.S3429S	CSMD3_uc003yns.2_Silent_p.S2631S|CSMD3_uc003ynt.2_Silent_p.S3389S|CSMD3_uc011lhx.1_Silent_p.S3260S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3429	Extracellular (Potential).|Sushi 28.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TATACCCATGAGATGGAAGGT	0.423										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			29	134					0	0	0.030593	0	0		G	113256738	G	G	113256738	2	3	141	1	0	0	0	0	0	0	0	1	3949	291	11	3		3	CSMD3	8	113256738	Silent	SNP	A	TCGA-CG-4466-01A-01D-1158-08	65	113256738	33107284	110	75777											
TRPS1	7227	broad.mit.edu	37	chr8	116631435	116631435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacaccagaaaacacagaaCggttgaccttctggaagtct	14	7	9	11	1	2	3	0	1	2	2	2	4	2	4	2	2	2	2	2	2	4	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr8:116631435C>T	uc003ynz.2	-	2	1310	c.851G>A	c.(850-852)CGT>CAT	p.R284H	TRPS1_uc011lhy.1_Missense_Mutation_p.R288H|TRPS1_uc003yny.2_Missense_Mutation_p.R297H|TRPS1_uc010mcy.2_Missense_Mutation_p.R284H	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	284					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.R284P(1)		ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			AAACACAGAACGGTTGACCTT	0.453									Langer-Giedion_syndrome				39	64					0	0	0.080422	0	0		T	116631435	T	T	116631435	3	4	141	1	0	0	0	0	1	0	0	0	16619	536	19	1	3014	1	TRPS1	8	116631435	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	3374697	116631435	29732587	111	75778											
TAF2	6873	broad.mit.edu	37	chr8	120814048	120814048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acttacctcatgcatgtatgGatctaccagtatttcaaatg	12	14	6	9	0	3	0	2	0	1	0	3	1	3	1	2	1	3	3	2	1	5	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr8:120814048G>A	uc003you.2	-	6	1048	c.778C>T	c.(778-780)CCA>TCA	p.P260S		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	260					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TGCATGTATGGATCTACCAGT	0.353													49	119					0	0	0.048971	0	0		A	120814048	A	A	120814048	3	1	141	1	0	0	0	0	1	0	0	0	15549	1174	41	4	2905	4	TAF2	8	120814048	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	4182613	120814048	25549974	112	75779											
BAI1	575	broad.mit.edu	37	chr8	143562905	143562905	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacctggccaaggctcagCgagggctgcctggggagggg	7	4	19	11	1	1	0	1	0	0	0	1	2	1	1	3	7	3	3	3	7	1	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr8:143562905C>T	uc003ywm.2	+	10	2146	c.1963C>T	c.(1963-1965)CGA>TGA	p.R655*		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	655	Extracellular (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CAAGGCTCAGCGAGGGCTGCC	0.642													6	9					0	0	0.02938	0	0		T	143562905	T	T	143562905	4	4	141	1	0	0	0	0	0	1	0	0	1299	760	27	1	2001	1	BAI1	8	143562905	Nonsense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	22748857	143562905	2801117	113	75780											
ARHGAP39	80728	broad.mit.edu	37	chr8	145806488	145806488	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaccgtgcgctgcgtgctgGcattgtagtagtagaagcgg	8	9	15	9	4	0	1	0	0	0	1	0	1	0	1	1	2	4	6	1	2	4	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr8:145806488G>C	uc003zdt.1	-	4	809	c.254C>G	c.(253-255)GCC>GGC	p.A85G	ARHGAP39_uc011llk.1_Missense_Mutation_p.A85G|ARHGAP39_uc003zds.1_Missense_Mutation_p.A85G	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	85	WW 2.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						CTGCGTGCTGGCATTGTAGTA	0.677													3	9					0	0	0.014758	0	0		C	145806488	C	C	145806488	3	2	141	1	0	0	0	0	1	0	0	0	884	1203	42	5	3130	5	ARHGAP39	8	145806488	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	2243583	145806488	557534	114	75781											
BNC2	54796	broad.mit.edu	37	chr9	16436586	16436586	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtaaaacccattgggggtcGgccagggcttgtgagtgcca	8	8	16	9	1	0	1	0	1	0	0	1	1	0	1	3	5	2	2	3	5	2	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr9:16436586G>A	uc003zml.2	-	6	1746	c.1606C>T	c.(1606-1608)CGA>TGA	p.R536*	BNC2_uc011lmw.1_Nonsense_Mutation_p.R441*|BNC2_uc003zmm.2_Nonsense_Mutation_p.R494*|BNC2_uc003zmq.1_Nonsense_Mutation_p.R550*|BNC2_uc003zmr.1_Nonsense_Mutation_p.R573*|BNC2_uc003zmp.1_Nonsense_Mutation_p.R564*|BNC2_uc010mij.1_Nonsense_Mutation_p.R458*|BNC2_uc011lmv.1_Nonsense_Mutation_p.R362*|BNC2_uc003zmo.1_Nonsense_Mutation_p.R458*|BNC2_uc003zmj.2_Nonsense_Mutation_p.R301*|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Nonsense_Mutation_p.R301*|BNC2_uc003zmn.1_Nonsense_Mutation_p.R301*	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	536	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		ATTGGGGGTCGGCCAGGGCTT	0.493													53	20					0	0	0.048971	0	0		A	16436586	A	A	16436586	4	1	141	1	0	0	0	0	0	1	0	0	1476	1124	39	1	1701	1	BNC2	9	16436586	Nonsense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08		16436586	124776845	115	75782											
CNTNAP3	79937	broad.mit.edu	37	chr9	39178353	39178353	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcaaaataaaccacctcAgattctaggaaagaagatat	19	8	5	9	0	3	3	2	0	1	3	3	4	3	4	3	1	1	0	3	1	8	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr9:39178353A>C	uc004abi.2	-	5	782	c.543T>G	c.(541-543)TCT>TCG	p.S181S	CNTNAP3_uc004abj.2_Silent_p.S181S|CNTNAP3_uc011lqr.1_RNA|CNTNAP3_uc004abk.1_Silent_p.S181S|CNTNAP3_uc011lqs.1_Silent_p.S181S|CNTNAP3_uc004abl.1_Silent_p.S93S	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor	181	Extracellular (Potential).				cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		AAACCACCTCAGATTCTAGGA	0.323													55	182					0	0	0.048971	0	0		C	39178353	C	C	39178353	2	2	141	1	0	0	0	0	0	0	0	1	3651	175	7	5		5	CNTNAP3	9	39178353	Silent	SNP	A	TCGA-CG-4466-01A-01D-1158-08	22741767	39178353	102035078	116	75783											
PRKACG	5568	broad.mit.edu	37	chr9	71628451	71628451	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcacgcgcttggcgaaaccGaagtccgtcacctgcaggta	9	8	11	13	5	2	0	2	0	0	0	3	2	3	0	3	2	2	3	3	2	3	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr9:71628451G>A	uc004agy.2	-	1	589	c.558C>T	c.(556-558)TTC>TTT	p.F186F		NM_002732	NP_002723	P22612	KAPCG_HUMAN	protein kinase, cAMP-dependent, catalytic,	186	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|gluconeogenesis|intracellular protein kinase cascade|male gonad development|nerve growth factor receptor signaling pathway|regulation of insulin secretion|spermatogenesis|transmembrane transport|triglyceride catabolic process|water transport	cytosol|nucleoplasm	ATP binding|cAMP-dependent protein kinase activity			ovary(1)|pancreas(1)|skin(1)	3						TGGCGAAACCGAAGTCCGTCA	0.622													13	13					0	0	0.105934	0	0		A	71628451	A	A	71628451	2	1	141	1	0	0	0	0	0	0	0	1	12521	1049	37	1		1	PRKACG	9	71628451	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	32450098	71628451	69584980	117	75784											
TLE4	7091	broad.mit.edu	37	chr9	82322115	82322115	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggggttacagagatggttTtgtcgcctgtggtttatggt	5	17	15	4	1	0	1	0	0	0	1	1	2	0	1	1	5	1	3	1	5	2	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr9:82322115T>G	uc004ald.2	+	12	1842	c.993T>G	c.(991-993)TTT>TTG	p.F331L	TLE4_uc004alc.2_Intron|TLE4_uc010mpr.2_Intron|TLE4_uc004ale.2_Intron|TLE4_uc011lsq.1_Intron|TLE4_uc010mps.2_Intron|TLE4_uc004alf.2_Intron	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						AGAGATGGTTTTGTCGCCTGT	0.378													6	190					0	0	0.02938	0	0		G	82322115	G	G	82322115	3	3	141	1	0	0	0	0	1	0	0	0	15966	1856	64	5		5	TLE4	9	82322115	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	10693664	82322115	58891316	118	75785											
OR13C4	138804	broad.mit.edu	37	chr9	107289029	107289029	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtttgcacagttgaattGattccaccagaaagccatga	13	11	9	8	0	0	4	0	3	0	1	1	5	1	4	3	0	2	3	3	0	2	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr9:107289029G>T	uc011lvn.1	-	1	462	c.462C>A	c.(460-462)ATC>ATA	p.I154I		NM_001001919	NP_001001919	Q8NGS5	O13C4_HUMAN	olfactory receptor, family 13, subfamily C,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CAGTTGAATTGATTCCACCAG	0.413													37	165					1.03484e-13	1.12856e-13	0.080422	1	0		T	107289029	T	T	107289029	2	4	141	1	0	0	0	0	0	0	0	1	10955	1280	45	5		5	OR13C4	9	107289029	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	24966914	107289029	33924402	119	75786											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112918660	112918660	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggccccagcttgcagccTgacttagcccctgaagaggc	9	6	12	14	0	0	3	0	2	0	1	0	4	0	3	5	2	4	2	5	2	3	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr9:112918660T>G	uc004bej.3	+	9	3237	c.3057T>G	c.(3055-3057)CCT>CCG	p.P1019P	PALM2-AKAP2_uc004bek.3_Silent_p.P1019P|AKAP2_uc011lwi.1_Silent_p.P877P|AKAP2_uc004bem.2_Silent_p.P877P|AKAP2_uc011lwj.1_Silent_p.P788P|PALM2-AKAP2_uc004ben.2_Intron	NM_007203	NP_009134	Q9Y2D5	AKAP2_HUMAN	PALM2-AKAP2 protein isoform 1	788							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						GCTTGCAGCCTGACTTAGCCC	0.512													5	84					0	0	0.021553	0	0		G	112918660	G	G	112918660	2	3	141	1	0	0	0	0	0	0	0	1	11429	1567	55	5		5	PALM2-AKAP2	9	112918660	Silent	SNP	T	TCGA-CG-4466-01A-01D-1158-08	5629631	112918660	28294771	120	75787											
ALAD	210	broad.mit.edu	37	chr9	116151291	116151291	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagtcatggcctccagtacGgcagccttgagatcaaatgc	10	8	11	12	1	2	1	2	1	0	1	3	2	3	1	3	2	3	3	3	2	2	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr9:116151291G>C	uc011lxf.1	-	11	1099	c.897C>G	c.(895-897)GCC>GCG	p.A299A	ALAD_uc011lxe.1_Silent_p.A282A|ALAD_uc004bhl.3_Silent_p.A328A	NM_000031	NP_000022	P13716	HEM2_HUMAN	delta-aminolevulinic acid dehydratase	299					heme biosynthetic process|protein homooligomerization	cytosol	identical protein binding|lead ion binding|porphobilinogen synthase activity|zinc ion binding				0					Aminolevulinic acid(DB00855)	CCTCCAGTACGGCAGCCTTGA	0.602													24	54					0	0	0.0918	0	0		C	116151291	C	C	116151291	2	2	141	1	0	0	0	0	0	0	0	1	483	1103	39	5		5	ALAD	9	116151291	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	3232631	116151291	25062140	121	75788											
PAPPA	5069	broad.mit.edu	37	chr9	118989747	118989747	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatctttgcctggaagggAgaatcctggtgcagtatgct	8	12	13	8	0	2	1	1	0	1	1	3	3	3	2	2	3	3	3	2	3	3	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr9:118989747A>G	uc004bjn.2	+	6	2530	c.2149A>G	c.(2149-2151)AGA>GGA	p.R717G	PAPPA_uc011lxp.1_Missense_Mutation_p.R412G|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	717					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CCTGGAAGGGAGAATCCTGGT	0.527													5	258					0	0	0.014758	0	0		G	118989747	G	G	118989747	3	3	141	1	0	0	0	0	1	0	0	0	11451	296	11	3	2171	3	PAPPA	9	118989747	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	2838456	118989747	22223684	122	75789											
TLR4	7099	broad.mit.edu	37	chr9	120475916	120475916	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgaccttcctggacctcTctcagtgtcaactggagcag	8	11	9	13	0	3	1	2	1	1	0	5	3	4	3	3	2	2	1	3	2	1	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr9:120475916T>C	uc004bjz.2	+	3	1801	c.1510T>C	c.(1510-1512)TCT>CCT	p.S504P	TLR4_uc004bka.2_Missense_Mutation_p.S464P|TLR4_uc004bkb.2_Missense_Mutation_p.S304P	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	504	LRR 16.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						CCTGGACCTCTCTCAGTGTCA	0.438													28	123					0	0	0.045705	0	0		C	120475916	C	C	120475916	3	2	141	1	0	0	0	0	1	0	0	0	15978	1551	54	3	1520	3	TLR4	9	120475916	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	1486169	120475916	20737515	123	75790											
SPTAN1	6709	broad.mit.edu	37	chr9	131367582	131367582	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttcttcccataggtaaactCccttggtgaaacagcagagc	11	11	8	11	0	1	2	0	1	1	1	3	2	3	2	2	2	4	2	2	2	4	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr9:131367582C>T	uc004bvl.3	+	31	3985	c.3872C>T	c.(3871-3873)TCC>TTC	p.S1291F	SPTAN1_uc004bvm.3_Missense_Mutation_p.S1291F|SPTAN1_uc004bvn.3_Missense_Mutation_p.S1271F	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1291	Spectrin 14.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						TAGGTAAACTCCCTTGGTGAA	0.522													13	147					0	0	0.105934	0	0		T	131367582	T	T	131367582	3	4	141	1	0	0	0	0	1	0	0	0	15142	855	30	4	3990	4	SPTAN1	9	131367582	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	10891666	131367582	9845849	124	75791											
RAPGEF1	2889	broad.mit.edu	37	chr9	134465308	134465308	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccgtaccagcacgaagaaCgtgttcttgctgacgcgctt	9	9	10	13	5	1	2	0	1	1	1	1	3	1	2	2	0	4	5	2	0	3	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr9:134465308C>T	uc004cbc.2	-	16	2404	c.2274G>A	c.(2272-2274)ACG>ACA	p.T758T	RAPGEF1_uc004cbb.2_Silent_p.T776T	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	758	N-terminal Ras-GEF.				activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		GCACGAAGAACGTGTTCTTGC	0.557													17	114					0	0	0.038395	0	0		T	134465308	T	T	134465308	2	4	141	1	0	0	0	0	0	0	0	1	13068	523	19	1		1	RAPGEF1	9	134465308	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	3097726	134465308	6748123	125	75792											
COL5A1	1289	broad.mit.edu	37	chr9	137666757	137666757	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaggtcctcgaggagtcaAggtgagagagactcacgcca	11	5	13	12	2	2	2	2	1	0	2	4	6	3	3	3	3	0	0	3	3	1	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr9:137666757A>G	uc004cfe.2	+	27	2766	c.2384A>G	c.(2383-2385)AAG>AGG	p.K795R		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	795	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		CGAGGAGTCAAGGTGAGAGAG	0.572													6	42					0	0	0.021553	0	0		G	137666757	G	G	137666757	3	3	141	1	0	0	0	0	1	0	0	0	3699	86	3	3	2490	3	COL5A1	9	137666757	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	3201449	137666757	3546674	126	75793											
NEBL	10529	broad.mit.edu	37	chr10	21104607	21104607	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccatttcaggagttacacTtaaagtggtagctcttccca	10	14	7	10	0	2	0	1	0	1	0	4	1	4	1	2	2	2	3	2	2	4	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr10:21104607T>G	uc001iqi.2	-	22	2585	c.2188A>C	c.(2188-2190)AGT>CGT	p.S730R	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_RNA	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	730	Nebulin 21.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						GGAGTTACACTTAAAGTGGTA	0.333													27	100					0	0	0.037714	0	0		G	21104607	G	G	21104607	3	3	141	1	0	0	0	0	1	0	0	0	10322	1609	56	5	884	5	NEBL	10	21104607	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08		21104607	114430140	127	75794											
FZD8	8325	broad.mit.edu	37	chr10	35928888	35928888	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgccgatgaagaggtagatGaccagcggcgccagcacgaa	12	4	15	10	4	0	4	0	2	0	2	0	6	0	4	3	2	3	2	3	2	3	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr10:35928888G>A	uc001iyz.1	-	1	1475	c.1470C>T	c.(1468-1470)GTC>GTT	p.V490V		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	490	Helical; Name=5; (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						AGAGGTAGATGACCAGCGGCG	0.662													7	26					0	0	0.038147	0	0		A	35928888	A	A	35928888	2	1	141	1	0	0	0	0	0	0	0	1	6150	1277	45	4		4	FZD8	10	35928888	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	14824281	35928888	99605859	128	75795											
ANKRD30A	91074	broad.mit.edu	37	chr10	37482012	37482012	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctcctgataatgatggtTttctgaaggtaataactttt	11	17	8	5	0	2	3	0	3	2	0	3	3	2	3	1	2	1	2	1	2	4	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr10:37482012T>G	uc001iza.1	+	26	2464	c.2365T>G	c.(2365-2367)TTT>GTT	p.F789V		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	845						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						TAATGATGGTTTTCTGAAGGT	0.284													34	139					0	0	0.069456	0	0		G	37482012	G	G	37482012	3	3	141	1	0	0	0	0	1	0	0	0	658	1841	64	5	2467	5	ANKRD30A	10	37482012	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	1553124	37482012	98052735	129	75796											
PCDH15	65217	broad.mit.edu	37	chr10	55626456	55626456	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtcgtcagttgcaataacTtgaaacttgaagtaggatct	13	13	9	6	1	2	2	1	2	1	0	3	3	2	3	0	1	3	3	0	1	6	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr10:55626456T>G	uc001jju.1	-	27	4058	c.3663A>C	c.(3661-3663)CAA>CAC	p.Q1221H	PCDH15_uc010qhq.1_Missense_Mutation_p.Q1226H|PCDH15_uc010qhr.1_Missense_Mutation_p.Q1221H|PCDH15_uc010qhs.1_Missense_Mutation_p.Q1233H|PCDH15_uc010qht.1_Missense_Mutation_p.Q1228H|PCDH15_uc010qhu.1_Missense_Mutation_p.Q1221H|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.Q1221H|PCDH15_uc010qhw.1_Missense_Mutation_p.Q1184H|PCDH15_uc010qhx.1_Missense_Mutation_p.Q1150H|PCDH15_uc010qhy.1_Missense_Mutation_p.Q1226H|PCDH15_uc010qhz.1_Missense_Mutation_p.Q1221H|PCDH15_uc010qia.1_Missense_Mutation_p.Q1199H|PCDH15_uc010qib.1_Missense_Mutation_p.Q1199H	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1221	Cadherin 11.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TTGCAATAACTTGAAACTTGA	0.408										HNSCC(58;0.16)			20	31					0	0	0.049695	0	0		G	55626456	G	G	55626456	3	3	141	1	0	0	0	0	1	0	0	0	11530	1606	56	5	3851	5	PCDH15	10	55626456	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	18144444	55626456	79908291	130	75797											
ARID5B	84159	broad.mit.edu	37	chr10	63852409	63852409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcacggtgggcattccGggggcggatcagaaggccac	8	4	17	12	4	1	1	1	0	0	1	2	2	2	2	2	6	1	2	2	6	1	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr10:63852409G>A	uc001jlt.1	+	10	3213	c.3187G>A	c.(3187-3189)GGG>AGG	p.G1063R		NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	1063					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					TGGGCATTCCGGGGGCGGATC	0.612													26	35					0	0	0.099896	0	0		A	63852409	A	A	63852409	3	1	141	1	0	0	0	0	1	0	0	0	922	1116	39	1	3225	1	ARID5B	10	63852409	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	8225953	63852409	71682338	131	75798											
SLC25A16	8034	broad.mit.edu	37	chr10	70248271	70248271	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaccaccacaaagtaagttTacatgagttttcaaaactaa	18	10	4	9	0	1	1	1	1	0	0	1	1	1	1	2	0	2	3	2	0	6	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr10:70248271T>G	uc001joi.2	-	7	1178	c.726A>C	c.(724-726)GTA>GTC	p.V242V	SLC25A16_uc010qix.1_Silent_p.V108V|SLC25A16_uc010qiy.1_Silent_p.V144V|SLC25A16_uc001joj.2_Silent_p.V144V	NM_152707	NP_689920	P16260	GDC_HUMAN	solute carrier family 25, member 16	242	Solcar 3.				coenzyme biosynthetic process|pantothenate metabolic process	integral to membrane|mitochondrial inner membrane	binding|solute:solute antiporter activity				0						AAAGTAAGTTTACATGAGTTT	0.393													14	15					0	0	0.020292	0	0		G	70248271	G	G	70248271	2	3	141	1	0	0	0	0	0	0	0	1	14503	1741	61	5		5	SLC25A16	10	70248271	Silent	SNP	T	TCGA-CG-4466-01A-01D-1158-08	6395862	70248271	65286476	132	75799											
ACTA2	59	broad.mit.edu	37	chr10	90708675	90708675	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caccaaggcagtgctgtcctCttcttcacacatagctggag	9	10	9	13	0	3	0	1	0	2	0	4	1	4	1	2	2	2	3	2	2	2	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr10:90708675C>G	uc001kfp.2	-	2	129	c.13G>C	c.(13-15)GAG>CAG	p.E5Q	STAMBPL1_uc010qmx.1_Intron|ACTA2_uc010qmy.1_Intron|ACTA2_uc001kfq.2_Missense_Mutation_p.E5Q|ACTA2_uc010qmz.1_Missense_Mutation_p.E5Q	NM_001613	NP_001604	P62736	ACTA_HUMAN	alpha 2 actin	5					response to virus	cytosol	ATP binding				0		Colorectal(252;0.0161)		Colorectal(12;0.000123)|COAD - Colon adenocarcinoma(12;0.00018)		GTGCTGTCCTCTTCTTCACAC	0.532													32	34					0	0	0.045705	0	0		G	90708675	G	G	90708675	3	3	141	1	0	0	0	0	1	0	0	0	192	922	32	5	1152	5	ACTA2	10	90708675	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	20460404	90708675	44826072	133	75800											
ACSL5	51703	broad.mit.edu	37	chr10	114171218	114171218	+	Frame_Shift_Del	DEL	C	-	-																															ctcttatttcctacaggtgaCcccaaaggagccatgataac																										TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr10:114171218delC	uc001kzs.2	+	10	942	c.801delC	c.(799-801)GACfs	p.D267fs	ACSL5_uc001kzt.2_Frame_Shift_Del_p.D267fs|ACSL5_uc001kzu.2_Frame_Shift_Del_p.D323fs|ACSL5_uc009xxz.2_Frame_Shift_Del_p.D267fs|ACSL5_uc010qrj.1_Frame_Shift_Del_p.D49fs	NM_203379	NP_976313	Q9ULC5	ACSL5_HUMAN	acyl-CoA synthetase long-chain family member 5	267	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(2)|skin(1)	3		Colorectal(252;0.117)|Breast(234;0.222)		Epithelial(162;0.0343)|all cancers(201;0.137)		CTACAGGTGACCCCAAAGGAG	0.403													22	38	---	---	---	---						.	-	114171218	-	-	114171218	7	5	141	1	0	1	0	1	0	0	0	0	180	506	18	0	1007	0	ACSL5	10	114171218	Frame_Shift_Del	DEL	C	TCGA-CG-4466-01A-01D-1158-08	23462543	114171218	21363529	134	75801											
EIF3A	8661	broad.mit.edu	37	chr10	120810145	120810145	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgttcttccaatcgattatgCctttcttctgctaatcgctc	6	17	5	13	3	3	0	0	0	3	0	7	1	4	0	2	0	2	3	2	0	3	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr10:120810145C>G	uc001ldu.2	-	16	2507	c.2361G>C	c.(2359-2361)AGG>AGC	p.R787S	EIF3A_uc010qsu.1_Missense_Mutation_p.R753S|EIF3A_uc009xzg.1_5'Flank	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	787	Interaction with EIF3B.|Glu-rich.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		ATCGATTATGCCTTTCTTCTG	0.428													74	149					0	0	0.048971	0	0		G	120810145	G	G	120810145	3	3	141	1	0	0	0	0	1	0	0	0	5018	738	26	5	1815	5	EIF3A	10	120810145	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	6638927	120810145	14724602	135	75802											
OR51A4	401666	broad.mit.edu	37	chr11	4967855	4967855	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaagtgaaagggaagggaAgaaccaggagcatgctctta	16	7	13	5	0	1	2	0	1	1	1	1	5	1	5	1	3	3	2	1	3	7	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:4967855A>C	uc010qys.1	-	1	476	c.476T>G	c.(475-477)CTT>CGT	p.L159R		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGGGAAGGGAAGAACCAGGAG	0.438													68	359					0	0	0.048971	0	0		C	4967855	C	C	4967855	3	2	141	1	0	0	0	0	1	0	0	0	11106	72	3	5	467	5	OR51A4	11	4967855	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08		4967855	130038661	136	75803											
OR52A5	390054	broad.mit.edu	37	chr11	5153446	5153446	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaagtccaatatgagttaAgaactgctgggaaaagatgg	15	8	11	7	0	0	3	0	1	0	2	1	4	1	4	2	2	2	2	2	2	7	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:5153446A>C	uc010qyx.1	-	1	427	c.427T>G	c.(427-429)TTA>GTA	p.L143V		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		ATATGAGTTAAGAACTGCTGG	0.478													39	38					0	0	0.069456	0	0		C	5153446	C	C	5153446	3	2	141	1	0	0	0	0	1	0	0	0	11129	69	3	5	526	5	OR52A5	11	5153446	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	185591	5153446	129853070	137	75804											
HBE1	3046	broad.mit.edu	37	chr11	5289717	5289717	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcagtggtacttatgggcCagggcaatggcgacagcaga	11	7	14	9	1	1	1	1	0	0	1	1	2	1	1	1	4	2	3	1	4	3	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:5289717C>G	uc001mal.1	-	3	679	c.426G>C	c.(424-426)CTG>CTC	p.L142L	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Silent_p.L142L	NM_005330	NP_005321	P02100	HBE_HUMAN	epsilon globin	142					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.34e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTTATGGGCCAGGGCAATGG	0.547													48	79					0	0	0.048971	0	0		G	5289717	G	G	5289717	2	3	141	1	0	0	0	0	0	0	0	1	6996	581	21	5		5	HBE1	11	5289717	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	136271	5289717	129716799	138	75805											
OR52E4	390081	broad.mit.edu	37	chr11	5905963	5905963	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaccatcagtatcctagcTtctgtggttgttggaagaaa	13	12	9	7	0	2	1	1	0	1	1	3	2	3	2	2	2	2	4	2	2	6	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:5905963T>G	uc010qzs.1	+	1	441	c.441T>G	c.(439-441)GCT>GCG	p.A147A	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	147	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTATCCTAGCTTCTGTGGTTG	0.448													67	74					0	0	0.048971	0	0		G	5905963	G	G	5905963	2	3	141	1	0	0	0	0	0	0	0	1	11135	1596	56	5		5	OR52E4	11	5905963	Silent	SNP	T	TCGA-CG-4466-01A-01D-1158-08	616246	5905963	129100553	139	75806											
OR2D3	120775	broad.mit.edu	37	chr11	6942315	6942315	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaacctttgtgtccaagtTtatcttcctgggtctttcac	7	16	6	12	0	3	0	1	0	2	0	5	0	5	0	4	1	1	1	4	1	3	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:6942315T>G	uc010rav.1	+	1	83	c.83T>G	c.(82-84)TTT>TGT	p.F28C		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	28	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GTGTCCAAGTTTATCTTCCTG	0.413													6	132					0	0	0.021553	0	0		G	6942315	G	G	6942315	3	3	141	1	0	0	0	0	1	0	0	0	11014	1841	64	5	85	5	OR2D3	11	6942315	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	1036352	6942315	128064201	140	75807											
OR2D3	120775	broad.mit.edu	37	chr11	6942465	6942465	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacactcccatgtatttttTtcttagaaatctctcctttg	8	19	3	11	0	3	1	1	0	2	1	6	1	5	1	2	0	0	1	2	0	3	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:6942465T>G	uc010rav.1	+	1	233	c.233T>G	c.(232-234)TTT>TGT	p.F78C		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	78	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		ATGTATTTTTTTCTTAGAAAT	0.398													28	181					0	0	0.030593	0	0		G	6942465	G	G	6942465	3	3	141	1	0	0	0	0	1	0	0	0	11014	1841	64	5	235	5	OR2D3	11	6942465	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	150	6942465	128064051	141	75808											
NELL1	4745	broad.mit.edu	37	chr11	20949921	20949921	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatgtccttccttcctcAgagtggtgccgtggaatgcc	5	13	10	13	1	1	1	1	0	0	1	5	2	5	2	6	2	2	0	6	2	1	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:20949921A>G	uc001mqe.2	+	9	1048	c.895_splice	c.e9-2	p.S299_splice	NELL1_uc001mqf.2_Splice_Site_p.S299_splice|NELL1_uc009yid.2_Splice_Site_p.S327_splice|NELL1_uc010rdo.1_Splice_Site_p.S242_splice|NELL1_uc010rdp.1_Splice_Site_p.S59_splice	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor						cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						TTCCTTCCTCAGAGTGGTGCC	0.512													39	51					0	0	0.092188	0	0		G	20949921	G	G	20949921	5	3	141	1	0	0	0	0	0	0	1	0	10352	202	7	3	927	3	NELL1	11	20949921	Splice_Site	SNP	A	TCGA-CG-4466-01A-01D-1158-08	14007456	20949921	114056595	142	75809											
OR4C3	256144	broad.mit.edu	37	chr11	48346846	48346846	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgaggggagaaccatctcTtatgagtgctgcatggctca	10	11	12	8	0	2	3	1	2	1	1	3	4	2	3	1	3	3	3	1	3	3	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:48346846T>G	uc010rhv.1	+	1	354	c.354T>G	c.(352-354)TCT>TCG	p.S118S		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GAACCATCTCTTATGAGTGCT	0.438													16	318					0	0	0.045705	0	0		G	48346846	G	G	48346846	2	3	141	1	0	0	0	0	0	0	0	1	11069	1596	56	5		5	OR4C3	11	48346846	Silent	SNP	T	TCGA-CG-4466-01A-01D-1158-08	27396925	48346846	86659670	143	75810											
SPRYD5	84767	broad.mit.edu	37	chr11	55658885	55658885	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagaggagggactctttcTtcttggatgtgttaaggagg	8	13	16	4	0	3	1	0	0	3	1	3	6	3	5	0	6	0	1	0	6	1	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:55658885T>G	uc010rip.1	+	7	1228	c.1136T>G	c.(1135-1137)CTT>CGT	p.L379R	SPRYD5_uc010riq.1_Missense_Mutation_p.L236R	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	379	B30.2/SPRY.					intracellular	zinc ion binding				0		all_epithelial(135;0.226)				GGACTCTTTCTTCTTGGATGT	0.448													18	70					0	0	0.030593	0	0		G	55658885	G	G	55658885	3	3	141	1	0	0	0	0	1	0	0	0	15136	1609	56	5	1158	5	SPRYD5	11	55658885	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	7312039	55658885	79347631	144	75811											
OR5I1	10798	broad.mit.edu	37	chr11	55703186	55703186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcccactgaaagagcGgatctttaagactgagagaa	13	9	9	10	1	1	5	0	2	1	3	3	7	3	6	2	1	1	0	2	1	3	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:55703186G>A	uc010ris.1	-	1	691	c.691C>T	c.(691-693)CGC>TGC	p.R231C		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTGAAAGAGCGGATCTTTAAG	0.453													11	17					0	0	0.09319	0	0		A	55703186	A	A	55703186	3	1	141	1	0	0	0	0	1	0	0	0	11183	1116	39	1	256	1	OR5I1	11	55703186	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	44301	55703186	79303330	145	75812											
OR8H2	390151	broad.mit.edu	37	chr11	55872685	55872685	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccgcctggacctccagcTtcacactcccatgtattttt	8	13	5	15	1	1	0	1	0	0	0	4	1	4	1	5	1	1	2	5	1	2	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:55872685T>C	uc010riy.1	+	1	167	c.167T>C	c.(166-168)CTT>CCT	p.L56P		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					GACCTCCAGCTTCACACTCCC	0.428										HNSCC(53;0.14)			9	423					0	0	0.069234	0	0		C	55872685	C	C	55872685	3	2	141	1	0	0	0	0	1	0	0	0	11257	1609	56	3	169	3	OR8H2	11	55872685	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	169499	55872685	79133831	146	75813											
TBX10	347853	broad.mit.edu	37	chr11	67399229	67399229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgggatccctaggtggctCggggctccagagtacaggct	6	9	15	11	1	0	1	0	0	0	1	3	2	2	2	2	6	1	4	2	6	2	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:67399229C>T	uc001omp.2	-	8	1093	c.1005G>A	c.(1003-1005)CCG>CCA	p.P335P	NUDT8_uc001omn.2_5'Flank|NUDT8_uc001omo.1_5'Flank	NM_005995	NP_005986	O75333	TBX10_HUMAN	T-box 10	335					anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						CTAGGTGGCTCGGGGCTCCAG	0.652													6	4					0	0	0.02938	0	0		T	67399229	T	T	67399229	2	4	141	1	0	0	0	0	0	0	0	1	15676	871	31	1		1	TBX10	11	67399229	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	11526544	67399229	67607287	147	75814											
FOLH1B	219595	broad.mit.edu	37	chr11	89402649	89402649	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctacaatgttggacctggcTttactggaaacttttctaca	10	14	7	10	0	1	0	0	0	1	0	1	2	1	2	2	3	4	2	2	3	5	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:89402649T>A	uc001pda.2	+	3	599	c.73T>A	c.(73-75)TTT>ATT	p.F25I		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	25					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TGGACCTGGCTTTACTGGAAA	0.373													28	52					0	0	0.041601	0	0		A	89402649	A	A	89402649	3	1	141	1	0	0	0	0	1	0	0	0	5994	1609	56	5	75	5	FOLH1B	11	89402649	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	22003420	89402649	45603867	148	75815											
FAT3	120114	broad.mit.edu	37	chr11	92533693	92533693	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcacatacgtagctgaggTgagagagaacgtggctgcag	13	6	15	7	2	0	3	0	2	0	2	0	5	0	3	0	2	5	5	0	2	4	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:92533693T>C	uc001pdj.3	+	9	7531	c.7514T>C	c.(7513-7515)GTG>GCG	p.V2505A		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2505	Cadherin 23.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GTAGCTGAGGTGAGAGAGAAC	0.493										TCGA Ovarian(4;0.039)			8	36					0	0	0.058154	0	0		C	92533693	C	C	92533693	3	2	141	1	0	0	0	0	1	0	0	0	5705	1696	59	3	7548	3	FAT3	11	92533693	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	3131044	92533693	42472823	149	75816											
AMOTL1	154810	broad.mit.edu	37	chr11	94532886	94532886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatggagaaacaggtccGgtccacgcagcctcagcaga	11	5	14	11	2	1	3	1	1	0	2	3	4	3	3	3	4	3	2	3	4	1	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:94532886G>A	uc001pfb.2	+	3	700	c.530G>A	c.(529-531)CGG>CAG	p.R177Q	AMOTL1_uc001pfc.2_Missense_Mutation_p.R127Q	NM_130847	NP_570899	Q8IY63	AMOL1_HUMAN	angiomotin like 1	177						cytoplasm|tight junction	identical protein binding			ovary(1)|breast(1)	2		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				AAACAGGTCCGGTCCACGCAG	0.498													5	29					0	0	0.014758	0	0		A	94532886	A	A	94532886	3	1	141	1	0	0	0	0	1	0	0	0	583	1116	39	1	540	1	AMOTL1	11	94532886	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	1999193	94532886	40473630	150	75817											
POU2F3	25833	broad.mit.edu	37	chr11	120180199	120180199	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtccatggagaaggaggtGgtgagggtctggttctgcaa	8	11	17	5	0	2	2	0	1	2	1	3	4	3	3	1	6	1	2	1	6	2	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:120180199G>A	uc001pxc.2	+	10	1074	c.972G>A	c.(970-972)GTG>GTA	p.V324V	POU2F3_uc010rzk.1_Silent_p.V278V|POU2F3_uc010rzl.1_Silent_p.V254V|POU2F3_uc001pxe.1_Silent_p.V109V	NM_014352	NP_055167	Q9UKI9	PO2F3_HUMAN	POU transcription factor	324	Homeobox.				negative regulation by host of viral transcription	cytoplasm	sequence-specific DNA binding			ovary(1)|skin(1)	2		Breast(109;0.0011)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;6.85e-06)		AGAAGGAGGTGGTGAGGGTCT	0.547													23	48					0	0	0.069288	0	0		A	120180199	A	A	120180199	2	1	141	1	0	0	0	0	0	0	0	1	12292	1335	47	4		4	POU2F3	11	120180199	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	25647313	120180199	14826317	151	75818											
OR6X1	390260	broad.mit.edu	37	chr11	123624580	123624580	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcggacagaatgtagataTaagaaatcatattaaagaga	19	10	9	3	1	1	4	1	0	0	4	1	6	1	5	0	1	1	1	0	1	8	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr11:123624580T>C	uc010rzy.1	-	1	647	c.647A>G	c.(646-648)TAT>TGT	p.Y216C		NM_001005188	NP_001005188	Q8NH79	OR6X1_HUMAN	olfactory receptor, family 6, subfamily X,	216	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		AATGTAGATATAAGAAATCAT	0.483													48	82					0	0	0.045515	0	0		C	123624580	C	C	123624580	3	2	141	1	0	0	0	0	1	0	0	0	11231	1406	49	3	293	3	OR6X1	11	123624580	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	3444381	123624580	11381936	152	75819											
PHC1	1911	broad.mit.edu	37	chr12	9070318	9070318	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaattccaccaatgggagTtctagctcagggggcagctc	9	9	11	12	0	2	0	1	0	1	0	5	1	4	1	3	3	2	4	3	3	3	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:9070318T>G	uc001qvd.2	+	2	201	c.45T>G	c.(43-45)AGT>AGG	p.S15R	PHC1_uc001qvc.1_Missense_Mutation_p.S15R|PHC1_uc010sgn.1_Missense_Mutation_p.S15R|PHC1_uc001qve.2_Missense_Mutation_p.S15R	NM_004426	NP_004417	P78364	PHC1_HUMAN	polyhomeotic 1-like	15					multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						CCAATGGGAGTTCTAGCTCAG	0.557													4	26					0	0	0.014758	0	0		G	9070318	G	G	9070318	3	3	141	1	0	0	0	0	1	0	0	0	11835	1722	60	5	47	5	PHC1	12	9070318	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08		9070318	124781577	153	75820											
CLEC2D	29121	broad.mit.edu	37	chr12	9847365	9847365	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttctcttgcaggtttcctatCctgggagcaggagagtgtgc	6	13	13	9	0	1	1	0	0	1	1	4	3	3	2	2	3	3	3	2	3	1	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:9847365C>T	uc001qwg.1	+	5	493	c.471C>T	c.(469-471)ATC>ATT	p.I157I	CLEC2D_uc001qwf.1_Missense_Mutation_p.P185S|CLEC2D_uc009zgs.1_RNA|CLEC2D_uc001qwh.1_RNA|CLEC2D_uc009zgt.1_RNA|CLEC2D_uc009zgu.1_Missense_Mutation_p.P81S	NM_013269	NP_037401	Q9UHP7	CLC2D_HUMAN	osteoclast inhibitory lectin isoform 1	157	Extracellular (Potential).|C-type lectin.				cell surface receptor linked signaling pathway	cell surface|endoplasmic reticulum|integral to plasma membrane|membrane fraction	sugar binding|transmembrane receptor activity				0						GGTTTCCTATCCTGGGAGCAG	0.423													21	31					0	0	0.069288	0	0		T	9847365	T	T	9847365	2	4	141	1	0	0	0	0	0	0	0	1	3511	855	30	4		4	CLEC2D	12	9847365	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	777047	9847365	124004530	154	75821											
CD69	969	broad.mit.edu	37	chr12	9907796	9907796	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccagtcctcagagcatgaAgaaacatggctgtctgatgg	12	8	11	10	0	2	4	1	2	1	2	3	4	3	4	2	2	2	2	2	2	2	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:9907796A>C	uc001qwk.2	-	3	330	c.249T>G	c.(247-249)TCT>TCG	p.S83S	CD69_uc010sgu.1_Silent_p.S83S|CD69_uc010sgv.1_Silent_p.S83S	NM_001781	NP_001772	Q07108	CD69_HUMAN	CD69 molecule	83	Extracellular (Potential).					integral to plasma membrane	sugar binding|transmembrane receptor activity				0						CAGAGCATGAAGAAACATGGC	0.423													22	95					0	0	0.076483	0	0		C	9907796	C	C	9907796	2	2	141	1	0	0	0	0	0	0	0	1	3034	59	3	5		5	CD69	12	9907796	Silent	SNP	A	TCGA-CG-4466-01A-01D-1158-08	60431	9907796	123944099	155	75822											
DDX47	51202	broad.mit.edu	37	chr12	12967144	12967144	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccagattgaagctattcCtttggccttacaaggtaggt	10	13	10	8	0	0	2	0	1	0	1	2	3	2	2	3	3	2	2	3	3	5	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:12967144C>A	uc001rav.2	+	5	765	c.167C>A	c.(166-168)CCT>CAT	p.P56H	DDX47_uc009zhw.1_Missense_Mutation_p.P56H|DDX47_uc001rax.2_Missense_Mutation_p.P56H|DDX47_uc001ray.2_Missense_Mutation_p.P56H|DDX47_uc010shn.1_Missense_Mutation_p.P56H	NM_016355	NP_057439	Q9H0S4	DDX47_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 47	56	Helicase ATP-binding.					nucleolus|nucleolus	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding				0		Prostate(47;0.0526)		BRCA - Breast invasive adenocarcinoma(232;0.0354)		GAAGCTATTCCTTTGGCCTTA	0.388													38	193					6.02501e-08	6.35485e-08	0.086207	1	0		A	12967144	A	A	12967144	3	1	141	1	0	0	0	0	1	0	0	0	4368	681	24	5	173	5	DDX47	12	12967144	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	3059348	12967144	120884751	156	75823											
PTPRO	5800	broad.mit.edu	37	chr12	15636953	15636953	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaagatgataataacatcGttgtctcattagaagcttca	14	13	6	8	1	2	3	2	1	1	2	5	3	3	3	1	0	2	2	1	0	5	5	rs141750255		TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:15636953G>C	uc001rcv.1	+	2	295	c.121G>C	c.(121-123)GTT>CTT	p.V41L	PTPRO_uc001rcw.1_Missense_Mutation_p.V41L|PTPRO_uc001rcu.1_Missense_Mutation_p.V41L	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	41	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)				TAATAACATCGTTGTCTCATT	0.348													3	93					0	0	0.004672	0	0		C	15636953	C	C	15636953	3	2	141	1	0	0	0	0	1	0	0	0	12834	1145	40	5	127	5	PTPRO	12	15636953	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	2669809	15636953	118214942	157	75824											
SLCO1B3	28234	broad.mit.edu	37	chr12	21033859	21033859	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagtgcaattgtgatgaaAgtcagtgggaaccagtctgt	12	10	13	6	0	2	3	1	2	1	1	2	4	2	4	1	1	2	1	1	1	3	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:21033859A>C	uc001rek.2	+	11	1528	c.1402A>C	c.(1402-1404)AGT>CGT	p.S468R	SLCO1B3_uc001rel.2_Missense_Mutation_p.S468R|SLCO1B3_uc010sil.1_Missense_Mutation_p.S468R|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Missense_Mutation_p.S293R	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	468	Extracellular (Potential).|Kazal-like.				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TTGTGATGAAAGTCAGTGGGA	0.368													17	154					0	0	0.043863	0	0		C	21033859	C	C	21033859	3	2	141	1	0	0	0	0	1	0	0	0	14749	72	3	5	1440	5	SLCO1B3	12	21033859	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	5396906	21033859	112818036	158	75825											
LST-3TM12	338821	broad.mit.edu	37	chr12	21205069	21205069	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgtagatgtaccactttcTtattgcaactcagagtgcaa	12	13	7	9	0	2	2	1	0	1	2	2	2	2	2	1	0	4	4	1	0	5	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:21205069T>G	uc010sin.1	+	9	1230	c.1230T>G	c.(1228-1230)TCT>TCG	p.S410S	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Silent_p.S457S	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	410						membrane	transporter activity				0						TACCACTTTCTTATTGCAACT	0.308													42	77					0	0	0.11126	0	0		G	21205069	G	G	21205069	2	3	141	1	0	0	0	0	0	0	0	1	9084	1596	56	5		5	LST-3TM12	12	21205069	Silent	SNP	T	TCGA-CG-4466-01A-01D-1158-08	171210	21205069	112646826	159	75826											
IAPP	3375	broad.mit.edu	37	chr12	21526276	21526276	+	Translation_Start_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattattctttgcagaaaatTtgagaagcaatgggcatcct	13	13	9	6	0	1	2	0	1	1	2	2	4	2	2	1	1	2	3	1	1	5	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:21526276T>G	uc001rev.2	+	2	143	c.-9T>G	c.(-11--7)ATTTG>ATGTG		SLCO1A2_uc001res.2_Intron|SLCO1A2_uc010siq.1_Intron	NM_000415	NP_000406	P10997	IAPP_HUMAN	islet amyloid polypeptide precursor						apoptosis|cell-cell signaling|endocrine pancreas development|signal transduction	extracellular region|soluble fraction	hormone activity				0					Perindopril(DB00790)	TGCAGAAAATTTGAGAAGCAA	0.343													17	88					0	0	0.038395	0	0		G	21526276	G	G	21526276	1	3	141	1	0	0	0	0	0	0	0	0	7488	1856	64	5		5	IAPP	12	21526276	Translation_Start_Site	SNP	T	TCGA-CG-4466-01A-01D-1158-08	321207	21526276	112325619	160	75827											
ESPL1	9700	broad.mit.edu	37	chr12	53686075	53686075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcagtatggggcctcgcCagtgctgagtcaaggggtgg	6	9	16	10	1	2	1	2	1	0	0	4	1	3	1	3	5	1	2	3	5	2	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:53686075C>T	uc001sck.2	+	28	5901	c.5810C>T	c.(5809-5811)CCA>CTA	p.P1937L	ESPL1_uc001scj.2_Missense_Mutation_p.P1612L	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1937					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						GGGGCCTCGCCAGTGCTGAGT	0.527													34	52					0	0	0.064281	0	0		T	53686075	T	T	53686075	3	4	141	1	0	0	0	0	1	0	0	0	5261	594	21	4	5916	4	ESPL1	12	53686075	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	32159799	53686075	80165820	161	75828											
OR6C3	254786	broad.mit.edu	37	chr12	55725817	55725817	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggtgactgaattttacatTttaactgccatgtcctatga	10	15	9	7	0	0	3	0	3	0	0	1	3	1	3	2	2	3	0	2	2	4	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:55725817T>C	uc010spj.1	+	1	333	c.333T>C	c.(331-333)ATT>ATC	p.I111I		NM_054104	NP_473445	Q9NZP0	OR6C3_HUMAN	olfactory receptor, family 6, subfamily C,	111	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AATTTTACATTTTAACTGCCA	0.428													122	159					0	0	0.048971	0	0		C	55725817	C	C	55725817	2	2	141	1	0	0	0	0	0	0	0	1	11211	1829	64	3		3	OR6C3	12	55725817	Silent	SNP	T	TCGA-CG-4466-01A-01D-1158-08	2039742	55725817	78126078	162	75829											
PTPRB	5787	broad.mit.edu	37	chr12	70918302	70918302	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gattggaaacaaggggttttCttgttcactccgtagctttc	8	15	10	8	1	2	0	1	0	1	0	4	2	3	1	1	3	2	4	1	3	3	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:70918302C>G	uc001swb.3	-	31	5950	c.5920G>C	c.(5920-5922)GAA>CAA	p.E1974Q	uc001svz.2_Intron|PTPRB_uc010sto.1_Missense_Mutation_p.E1884Q|PTPRB_uc010stp.1_Missense_Mutation_p.E1884Q|PTPRB_uc001swc.3_Missense_Mutation_p.E2192Q|PTPRB_uc001swa.3_Missense_Mutation_p.E2104Q	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1974	Cytoplasmic (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			AAGGGGTTTTCTTGTTCACTC	0.428													10	34					0	0	0.069234	0	0		G	70918302	G	G	70918302	3	3	141	1	0	0	0	0	1	0	0	0	12821	922	32	5	81	5	PTPRB	12	70918302	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	15192485	70918302	62933593	163	75830											
ATP2B1	490	broad.mit.edu	37	chr12	90017964	90017964	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actattttctacttactttgActgaataagccagtgagatc	12	15	6	8	0	1	3	0	3	1	1	2	4	1	3	1	0	3	0	1	0	5	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:90017964A>G	uc001tbh.2	-	8	1521	c.1340T>C	c.(1339-1341)GTC>GCC	p.V447A	ATP2B1_uc001tbg.2_Missense_Mutation_p.V447A|ATP2B1_uc001tbf.2_Missense_Mutation_p.V117A	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	447	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						ACTTACTTTGACTGAATAAGC	0.388													36	44					0	0	0.080422	0	0		G	90017964	G	G	90017964	3	3	141	1	0	0	0	0	1	0	0	0	1140	275	10	3	2532	3	ATP2B1	12	90017964	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	19099662	90017964	43833931	164	75831											
DAO	1610	broad.mit.edu	37	chr12	109294277	109294277	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggagaatcctggaagaaaAgaaattgtccagaatgccac	16	7	11	7	0	0	4	0	0	0	4	2	6	2	5	3	2	1	0	3	2	6	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:109294277A>C	uc001tnr.3	+	11	1163	c.1010A>C	c.(1009-1011)AAG>ACG	p.K337T	DAO_uc001tnq.3_Missense_Mutation_p.K271T|DAO_uc009zvb.2_RNA|DAO_uc001tns.3_RNA	NM_001917	NP_001908	P14920	OXDA_HUMAN	D-amino-acid oxidase	337					glyoxylate metabolic process	peroxisomal matrix	binding|D-amino-acid oxidase activity			ovary(1)|skin(1)	2						CTGGAAGAAAAGAAATTGTCC	0.542													41	56					0	0	0.104719	0	0		C	109294277	C	C	109294277	3	2	141	1	0	0	0	0	1	0	0	0	4234	72	3	5	1048	5	DAO	12	109294277	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	19276313	109294277	24557618	165	75832											
RBM19	9904	broad.mit.edu	37	chr12	114397059	114397059	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcctcactctcctgccCagaatcggagtcgaagttca	8	10	7	16	2	3	1	2	0	1	1	8	3	5	2	4	1	1	1	4	1	2	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:114397059C>G	uc009zwi.2	-	5	673	c.529G>C	c.(529-531)GGG>CGG	p.G177R	RBM19_uc001tvn.3_Missense_Mutation_p.G177R|RBM19_uc001tvm.2_Missense_Mutation_p.G177R	NM_001146699	NP_001140171	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	177					multicellular organismal development|positive regulation of embryonic development	chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|RNA binding			skin(3)|ovary(1)|liver(1)|central_nervous_system(1)	6	Medulloblastoma(191;0.163)|all_neural(191;0.178)					CTCTCCTGCCCAGAATCGGAG	0.627													15	102					0	0	0.038395	0	0		G	114397059	G	G	114397059	3	3	141	1	0	0	0	0	1	0	0	0	13146	594	21	5	2433	5	RBM19	12	114397059	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	5102782	114397059	19454836	166	75833											
RIMBP2	23504	broad.mit.edu	37	chr12	130884319	130884319	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcaggcacttcttccaagaAgtttgagggcacaaggcctt	11	10	10	10	0	2	2	1	1	1	1	3	2	3	2	2	3	0	3	2	3	3	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr12:130884319A>C	uc001uil.2	-	18	3201	c.3037T>G	c.(3037-3039)TTC>GTC	p.F1013V		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	1013	SH3 3.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		TCTTCCAAGAAGTTTGAGGGC	0.463													40	48					0	0	0.080422	0	0		C	130884319	C	C	130884319	3	2	141	1	0	0	0	0	1	0	0	0	13388	72	3	5	129	5	RIMBP2	12	130884319	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	16487260	130884319	2967576	167	75834											
B3GALTL	145173	broad.mit.edu	37	chr13	31803342	31803342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttaaaaggaattgtattcGtcatccagagtcaaagtaat	16	12	7	6	1	2	1	2	0	0	1	4	2	3	2	1	1	0	2	1	1	6	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr13:31803342G>A	uc010aaz.2	+	4	291	c.181G>A	c.(181-183)GTC>ATC	p.V61I		NM_194318	NP_919299	Q6Y288	B3GLT_HUMAN	beta 1,3-galactosyltransferase-like	61	Lumenal (Potential).				fucose metabolic process	endoplasmic reticulum membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2		Lung SC(185;0.0257)		all cancers(112;0.00436)|Epithelial(112;0.0285)|OV - Ovarian serous cystadenocarcinoma(117;0.0512)|GBM - Glioblastoma multiforme(144;0.184)		AATTGTATTCGTCATCCAGAG	0.303													13	33					0	0	0.09319	0	0		A	31803342	A	A	31803342	3	1	141	1	0	0	0	0	1	0	0	0	1253	1145	40	1	195	1	B3GALTL	13	31803342	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08		31803342	83366536	168	75835											
DCLK1	9201	broad.mit.edu	37	chr13	36686298	36686298	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagttggggttcacattcTtggtgtactccagtttcttg	6	16	10	9	0	3	0	1	0	2	0	4	0	4	0	2	3	1	4	2	3	1	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr13:36686298T>C	uc001uvf.2	-	3	664	c.431A>G	c.(430-432)AAG>AGG	p.K144R		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	144					cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		GTTCACATTCTTGGTGTACTC	0.463													18	70					0	0	0.055883	0	0		C	36686298	C	C	36686298	3	2	141	1	0	0	0	0	1	0	0	0	4294	1609	56	3	1822	3	DCLK1	13	36686298	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	4882956	36686298	78483580	169	75836											
OLFM4	10562	broad.mit.edu	37	chr13	53624669	53624669	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tataaaccatctgcttctaaCgccttcatggtatgtggggt	9	14	9	9	1	3	0	1	0	2	0	3	0	3	0	2	3	3	2	2	3	5	6			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr13:53624669C>T	uc001vhl.2	+	5	1296	c.1296C>T	c.(1294-1296)AAC>AAT	p.N432N	OLFM4_uc001vhk.1_3'UTR	NM_006418	NP_006409	Q6UX06	OLFM4_HUMAN	olfactomedin 4 precursor	432	Olfactomedin-like.				cell adhesion	extracellular space				skin(1)	1		Breast(56;0.000776)|Lung NSC(96;0.000814)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.13e-08)		CTGCTTCTAACGCCTTCATGG	0.428													37	85					0	0	0.059317	0	0		T	53624669	T	T	53624669	2	4	141	1	0	0	0	0	0	0	0	1	10874	535	19	1		1	OLFM4	13	53624669	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	16938371	53624669	61545209	170	75837											
EDNRB	1910	broad.mit.edu	37	chr13	78475270	78475270	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggtcattagtgtataaaAaaatgcagtgatggccaatg	16	10	10	5	0	1	1	1	1	0	0	1	1	1	1	1	2	1	2	1	2	7	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr13:78475270A>G	uc001vko.2	-	4	1132	c.874T>C	c.(874-876)TTT>CTT	p.F292L	EDNRB_uc001vkq.1_Missense_Mutation_p.F292L|uc001vkn.1_Intron|EDNRB_uc010aez.1_Missense_Mutation_p.F292L|EDNRB_uc001vkp.1_Missense_Mutation_p.F375L	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	292	Helical; Name=5; (Potential).		F -> L (in WS4A).		activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	AGTGTATAAAAAAATGCAGTG	0.338													25	61					0	0	0.083992	0	0		G	78475270	G	G	78475270	3	3	141	1	0	0	0	0	1	0	0	0	4926	14	1	3	591	3	EDNRB	13	78475270	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	24850601	78475270	36694608	171	75838											
EDNRB	1910	broad.mit.edu	37	chr13	78492440	78492440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctcgatgggtccttggCacgggggaggggagatggtg	6	9	20	6	2	1	2	0	1	1	1	3	5	2	3	1	7	0	1	1	7	0	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr13:78492440C>T	uc001vko.2	-	1	527	c.269G>A	c.(268-270)TGC>TAC	p.C90Y	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.C90Y|EDNRB_uc010aez.1_Missense_Mutation_p.C90Y|EDNRB_uc001vkp.1_Missense_Mutation_p.C173Y|EDNRB_uc010afa.1_Missense_Mutation_p.C90Y	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	90	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	GGGTCCTTGGCACGGGGGAGG	0.592													21	59					0	0	0.069288	0	0		T	78492440	T	T	78492440	3	4	141	1	0	0	0	0	1	0	0	0	4926	710	25	2	1208	2	EDNRB	13	78492440	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	17170	78492440	36677438	172	75839											
SLITRK6	84189	broad.mit.edu	37	chr13	86370123	86370123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagatgtttggaggaagaCtctcaatagcattgtcattt	12	13	11	5	0	2	2	2	0	1	2	3	5	2	5	0	3	1	2	0	3	4	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr13:86370123C>T	uc001vll.1	-	2	980	c.521G>A	c.(520-522)AGT>AAT	p.S174N	SLITRK6_uc010afe.1_5'Flank	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	174	LRR 4.|Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		TGGAGGAAGACTCTCAATAGC	0.363													53	119					0	0	0.048971	0	0		T	86370123	T	T	86370123	3	4	141	1	0	0	0	0	1	0	0	0	14772	565	20	4	2008	4	SLITRK6	13	86370123	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	7877683	86370123	28799755	173	75840											
PNN	5411	broad.mit.edu	37	chr14	39649857	39649857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagggtaaggtggctcagcGagaggaagagttggaggaga	13	5	20	3	1	1	4	1	0	0	4	1	8	1	6	0	6	1	3	0	6	2	2	rs144685853		TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr14:39649857G>A	uc001wuw.3	+	9	1041	c.944G>A	c.(943-945)CGA>CAA	p.R315Q		NM_002687	NP_002678	Q9H307	PININ_HUMAN	pinin, desmosome associated protein	315	Potential.|Glu-rich.				cell adhesion|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|desmosome|intermediate filament|nuclear speck	DNA binding|protein binding|structural molecule activity			ovary(1)	1	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0119)		GTGGCTCAGCGAGAGGAAGAG	0.343													12	15					0	0	0.09319	0	0		A	39649857	A	A	39649857	3	1	141	1	0	0	0	0	1	0	0	0	12179	1058	37	1	978	1	PNN	14	39649857	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08		39649857	67699683	174	75841											
MDGA2	161357	broad.mit.edu	37	chr14	47601018	47601018	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagcatagtcctgaggtcgaAgattctttagttttaagatc	11	15	9	6	1	1	3	0	1	1	2	4	4	2	3	1	1	1	2	1	1	5	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr14:47601018A>C	uc001wwj.3	-	5	813	c.617T>G	c.(616-618)CTT>CGT	p.L206R	MDGA2_uc001wwi.3_5'UTR|MDGA2_uc010ani.2_5'UTR	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	206	Ig-like 2.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CTGAGGTCGAAGATTCTTTAG	0.323													21	15					0	0	0.055883	0	0		C	47601018	C	C	47601018	3	2	141	1	0	0	0	0	1	0	0	0	9425	72	3	5	2305	5	MDGA2	14	47601018	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	7951161	47601018	59748522	175	75842											
ESR2	2100	broad.mit.edu	37	chr14	64699876	64699876	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cactgagactgtgggttctgGgagccctctttgcttttact	5	15	11	10	0	2	1	0	1	2	1	2	3	2	2	1	2	3	2	1	2	1	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr14:64699876G>A	uc001xha.1	-	9	2040	c.1572C>T	c.(1570-1572)TCC>TCT	p.S524S	ESR2_uc001xgu.2_Intron|ESR2_uc001xgv.2_Intron|ESR2_uc001xgw.2_Intron|ESR2_uc001xgx.2_Intron|ESR2_uc001xgy.1_Intron|ESR2_uc001xgz.1_3'UTR|ESR2_uc010aqb.1_RNA|ESR2_uc010aqc.1_Silent_p.S433S	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1	524	Steroid-binding.				cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	GTGGGTTCTGGGAGCCCTCTT	0.612													22	74					0	0	0.083992	0	0		A	64699876	A	A	64699876	2	1	141	1	0	0	0	0	0	0	0	1	5265	1219	43	4		4	ESR2	14	64699876	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	17098858	64699876	42649664	176	75843											
TRIP11	9321	broad.mit.edu	37	chr14	92471267	92471267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctttcactaatctttccGtttcagctttagataaatca	10	18	3	10	1	4	1	3	0	1	1	6	1	6	1	2	0	1	2	2	0	4	8	rs147257207		TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr14:92471267G>A	uc001xzy.2	-	11	3841	c.3053C>T	c.(3052-3054)ACG>ATG	p.T1018M	TRIP11_uc010auf.1_Missense_Mutation_p.T754M	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	1018	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		TAATCTTTCCGTTTCAGCTTT	0.299			T	PDGFRB	AML								17	64					0	0	0.028581	0	0		A	92471267	A	A	92471267	3	1	141	1	0	0	0	0	1	0	0	0	16581	1145	40	1	2930	1	TRIP11	14	92471267	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	27771391	92471267	14878273	177	75844											
SERPINA3	12	broad.mit.edu	37	chr14	95089967	95089967	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggtccataaggctgtgcTtgatgtatttgaggagggca	8	12	16	5	0	0	2	0	2	0	0	1	3	1	3	1	5	1	4	1	5	2	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr14:95089967T>G	uc001ydp.2	+	5	1167	c.1088T>G	c.(1087-1089)CTT>CGT	p.L363R	SERPINA3_uc001ydo.3_Missense_Mutation_p.L388R|SERPINA3_uc001ydr.2_RNA|SERPINA3_uc001ydq.2_Missense_Mutation_p.L363R|SERPINA3_uc001yds.2_Missense_Mutation_p.L363R|SERPINA3_uc010avg.2_Missense_Mutation_p.L363R	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3	363				AVL -> VVS (in Ref. 1; AAA51543).	acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		AAGGCTGTGCTTGATGTATTT	0.522													29	45					0	0	0.108266	0	0		G	95089967	G	G	95089967	3	3	141	1	0	0	0	0	1	0	0	0	14115	1609	56	5	1102	5	SERPINA3	14	95089967	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	2618700	95089967	12259573	178	75845											
BEGAIN	57596	broad.mit.edu	37	chr14	101005015	101005016	+	Frame_Shift_Ins	INS	-	C	C																															cacttcggcctccagcggggINSccgccaccgcggccgtggcc																										TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr14:101005015_101005016insC	uc010txa.1	-	6	1218_1219	c.1072_1073insG	c.(1072-1074)GCCfs	p.A358fs	BEGAIN_uc001yhp.2_Frame_Shift_Ins_p.A294fs|BEGAIN_uc001yhq.2_Frame_Shift_Ins_p.A358fs	NM_001159531	NP_001153003	Q9BUH8	BEGIN_HUMAN	brain-enriched guanylate kinase-associated	358						cytoplasm|membrane	protein binding				0		Melanoma(154;0.212)				CTCCAGCGGGGCCGCCACCGCG	0.718													2	4	---	---	---	---						.	C	101005016	C	C	101005015	7	5	141	1	0	1	1	0	0	0	0	0	1398	1203	42	0	712	0	BEGAIN	14	101005015	Frame_Shift_Ins	INS	-	TCGA-CG-4466-01A-01D-1158-08	5915048	101005015	6344525	179	75846											
PPP1R13B	23368	broad.mit.edu	37	chr14	104219502	104219502	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acttcctgcttcttttcctgGaacatggcactgaacctttc	7	15	6	13	0	1	1	0	1	1	0	4	2	3	2	3	2	3	2	3	2	2	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr14:104219502G>T	uc001yof.1	-	7	946	c.663C>A	c.(661-663)TTC>TTA	p.F221L	PPP1R13B_uc001yog.1_Missense_Mutation_p.F88L	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	221	Gln-rich.				apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				TCTTTTCCTGGAACATGGCAC	0.348													88	131					1.63549e-45	1.86821e-45	0.048971	1	0		T	104219502	T	T	104219502	3	4	141	1	0	0	0	0	1	0	0	0	12379	1165	41	5	2653	5	PPP1R13B	14	104219502	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	3214487	104219502	3130038	180	75847											
ATP10A	57194	broad.mit.edu	37	chr15	25928482	25928482	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgggttggtcagcagcacaTtggctggcacatccctgtcc	6	9	13	13	1	1	0	1	0	0	0	3	0	3	0	2	4	2	5	2	4	0	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr15:25928482T>A	uc010ayu.2	-	17	3549	c.3443A>T	c.(3442-3444)AAT>ATT	p.N1148I		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1148	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CAGCAGCACATTGGCTGGCAC	0.562													10	37					0	0	0.0333	0	0		A	25928482	A	A	25928482	3	1	141	1	0	0	0	0	1	0	0	0	1117	1493	52	5	1076	5	ATP10A	15	25928482	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08		25928482	76602910	181	75848											
TRPM1	4308	broad.mit.edu	37	chr15	31295126	31295126	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggatcaggtcagacctgtcGattcccgcaagattttcaag	10	11	10	10	2	3	2	3	0	0	2	5	4	4	3	2	2	0	1	2	2	2	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr15:31295126G>A	uc001zfm.2	-	27	3839	c.3711C>T	c.(3709-3711)ATC>ATT	p.I1237I	TRPM1_uc010azy.2_Silent_p.I1144I|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1237	Potential.|Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		CAGACCTGTCGATTCCCGCAA	0.478													67	35					0	0	0.048971	0	0		A	31295126	A	A	31295126	2	1	141	1	0	0	0	0	0	0	0	1	16611	1048	37	1		1	TRPM1	15	31295126	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	5366644	31295126	71236266	182	75849											
SPTBN5	51332	broad.mit.edu	37	chr15	42154357	42154357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgctcttctaacatacGccgggcttccacagggctgc	7	10	10	14	2	2	1	0	1	2	0	3	1	3	1	2	2	4	3	2	2	2	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr15:42154357G>A	uc001zos.2	-	44	7747	c.7414C>T	c.(7414-7416)CGT>TGT	p.R2472C		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	2507	Spectrin 22.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		TCTAACATACGCCGGGCTTCC	0.627													4	6					0	0	0.014758	0	0		A	42154357	A	A	42154357	3	1	141	1	0	0	0	0	1	0	0	0	15147	1087	38	1	3605	1	SPTBN5	15	42154357	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	10859231	42154357	60377035	183	75850											
CDAN1	146059	broad.mit.edu	37	chr15	43019870	43019870	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcatggtgctcacaggcGcgggagcagcccctccgctc	6	5	15	15	3	1	0	1	0	0	0	3	2	2	2	3	4	4	4	3	4	0	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr15:43019870G>A	uc001zql.2	-	23	3162	c.3045C>T	c.(3043-3045)CGC>CGT	p.R1015R	CDAN1_uc001zqj.2_RNA|CDAN1_uc001zqk.2_Silent_p.R341R	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	1015						integral to membrane	protein binding			ovary(2)	2		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		GCTCACAGGCGCGGGAGCAGC	0.647													22	3					0	0	0.069288	0	0		A	43019870	A	A	43019870	2	1	141	1	0	0	0	0	0	0	0	1	3057	1074	38	1		1	CDAN1	15	43019870	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	865513	43019870	59511522	184	75851											
MAP1A	4130	broad.mit.edu	37	chr15	43815290	43815290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactttgaggagatgaagcGtgaggagagggctttgctgg	9	9	19	4	1	0	5	0	3	0	2	0	8	0	6	0	5	2	2	0	5	1	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr15:43815290G>A	uc001zrt.2	+	4	2086	c.1619G>A	c.(1618-1620)CGT>CAT	p.R540H		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	540	9 X 3 AA repeats of K-K-[DE].|9.					cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	GAGATGAAGCGTGAGGAGAGG	0.557													58	59					0	0	0.048971	0	0		A	43815290	A	A	43815290	3	1	141	1	0	0	0	0	1	0	0	0	9245	1145	40	1	1621	1	MAP1A	15	43815290	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	795420	43815290	58716102	185	75852											
COPS2	9318	broad.mit.edu	37	chr15	49426269	49426269	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcagtgtgtgccttttcaAattcaccttccctcaagtgc	9	14	6	12	0	4	0	4	0	0	0	5	0	5	0	3	0	2	0	3	0	3	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr15:49426269A>C	uc001zxf.2	-	8	831	c.752T>G	c.(751-753)TTT>TGT	p.F251C	COPS2_uc001zxh.2_Missense_Mutation_p.F258C|COPS2_uc010ufa.1_Missense_Mutation_p.F187C	NM_004236	NP_004227	P61201	CSN2_HUMAN	COP9 constitutive photomorphogenic homolog	251	PCI.				cullin deneddylation|transcription from RNA polymerase II promoter	cytoplasm|signalosome	protein binding|signal transducer activity			lung(1)	1		all_lung(180;0.0428)		all cancers(107;1.34e-07)|GBM - Glioblastoma multiforme(94;3.02e-05)		TGCCTTTTCAAATTCACCTTC	0.358													88	15					0	0	0.048971	0	0		C	49426269	C	C	49426269	3	2	141	1	0	0	0	0	1	0	0	0	3736	14	1	5	603	5	COPS2	15	49426269	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	5610979	49426269	53105123	186	75853											
PARP6	56965	broad.mit.edu	37	chr15	72556894	72556894	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaaaagaccaaagttcttActttttcaactgaagaccca	16	10	5	10	0	2	4	1	1	1	3	2	4	2	4	2	0	2	1	2	0	6	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr15:72556894A>G	uc002auc.2	-	7	854	c.395_splice	c.e7+1	p.K132_splice	PARP6_uc002aua.2_Splice_Site|PARP6_uc002aub.2_Splice_Site|PARP6_uc002aud.3_Splice_Site|PARP6_uc002auf.1_Splice_Site_p.K132_splice	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6								NAD+ ADP-ribosyltransferase activity				0						CAAAGTTCTTACTTTTTCAAC	0.448													27	86					0	0	0.037714	0	0		G	72556894	G	G	72556894	5	3	141	1	0	0	0	0	0	0	1	0	11483	405	14	3	1563	3	PARP6	15	72556894	Splice_Site	SNP	A	TCGA-CG-4466-01A-01D-1158-08	23130625	72556894	29974498	187	75854											
ACAN	176	broad.mit.edu	37	chr15	89401172	89401172	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttggcataactgatctgAgtggagaaacatctggggtc	10	11	12	8	0	2	3	0	2	2	1	3	4	2	3	1	4	2	1	1	4	2	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr15:89401172A>C	uc010upo.1	+	12	5730	c.5356A>C	c.(5356-5358)AGT>CGT	p.S1786R	ACAN_uc010upp.1_Missense_Mutation_p.S1786R|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	1786					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			AACTGATCTGAGTGGAGAAAC	0.527													19	44					0	0	0.049695	0	0		C	89401172	C	C	89401172	3	2	141	1	0	0	0	0	1	0	0	0	117	304	11	5	5398	5	ACAN	15	89401172	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	16844278	89401172	13130220	188	75855											
ATF7IP2	80063	broad.mit.edu	37	chr16	10551372	10551372	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcatcagatcaaaataaGtctgtttctgaaaggtaggt	13	14	9	5	0	5	2	3	1	2	1	5	2	5	2	0	2	0	2	0	2	5	4	rs144631035	byFrequency	TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr16:10551372G>T	uc002czu.2	+	7	1565	c.1338G>T	c.(1336-1338)AAG>AAT	p.K446N	ATF7IP2_uc002czv.2_Missense_Mutation_p.K446N|ATF7IP2_uc010uyo.1_Intron|ATF7IP2_uc010uyp.1_Intron|ATF7IP2_uc002czw.2_Missense_Mutation_p.K446N|ATF7IP2_uc010uyq.1_Intron	NM_024997	NP_079273	Q5U623	MCAF2_HUMAN	activating transcription factor 7 interacting	446					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						ATCAAAATAAGTCTGTTTCTG	0.284													71	114					4.83677e-39	5.48168e-39	0.048971	1	0		T	10551372	T	T	10551372	3	4	141	1	0	0	0	0	1	0	0	0	1089	1020	36	5	1356	5	ATF7IP2	16	10551372	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08		10551372	79803381	189	75856											
KIAA0430	9665	broad.mit.edu	37	chr16	15705584	15705584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcagacgtttggagcccattCcaagaatctgcaaagcaaat	14	8	9	10	1	1	2	0	0	1	2	2	3	2	3	2	1	3	4	2	1	4	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr16:15705584C>T	uc002ddr.2	-	18	3675	c.3482G>A	c.(3481-3483)GGA>GAA	p.G1161E	KIAA0430_uc002ddq.2_Missense_Mutation_p.G995E|KIAA0430_uc010uzv.1_Missense_Mutation_p.G1157E|KIAA0430_uc010uzw.1_Missense_Mutation_p.G1160E	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	1160						peroxisome	nucleotide binding|RNA binding				0						GGAGCCCATTCCAAGAATCTG	0.488													14	69					0	0	0.024245	0	0		T	15705584	T	T	15705584	3	4	141	1	0	0	0	0	1	0	0	0	8193	855	30	4	1786	4	KIAA0430	16	15705584	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	5154212	15705584	74649169	190	75857											
TPPP3	51673	broad.mit.edu	37	chr16	67424889	67424889	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactttccgtcagccaccttGcagtccttgcacagcttggc	6	11	9	15	1	1	0	1	0	0	0	3	1	3	0	4	1	4	3	4	1	0	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr16:67424889G>A	uc002esz.2	-	1	961	c.126C>T	c.(124-126)TGC>TGT	p.C42C	TPPP3_uc002eta.2_Silent_p.C42C|TPPP3_uc002etb.2_Silent_p.C42C	NM_016140	NP_057224	Q9BW30	TPPP3_HUMAN	tubulin polymerization-promoting protein family	42					microtubule bundle formation	cytoplasm|microtubule	calcium ion binding|tubulin binding			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0336)|Epithelial(162;0.0781)		CAGCCACCTTGCAGTCCTTGC	0.572													4	58					0	0	0.009096	0	0		A	67424889	A	A	67424889	2	1	141	1	0	0	0	0	0	0	0	1	16441	1311	46	2		2	TPPP3	16	67424889	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	51719305	67424889	22929864	191	75858											
WWOX	51741	broad.mit.edu	37	chr16	78466499	78466499	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccaagctctgcaacatcctCttctccaacgagctgcaccg	9	9	6	17	2	3	0	0	0	3	0	6	1	5	0	4	0	6	4	4	0	3	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr16:78466499C>G	uc002ffk.2	+	8	1031	c.906C>G	c.(904-906)CTC>CTG	p.L302L	WWOX_uc010vnk.1_Silent_p.L189L|WWOX_uc002ffl.2_Intron|WWOX_uc010che.2_Intron	NM_016373	NP_057457	Q9NZC7	WWOX_HUMAN	WW domain-containing oxidoreductase isoform 1	302	Interaction with MAPT (By similarity).				apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)		GCAACATCCTCTTCTCCAACG	0.532													69	96					0	0	0.048971	0	0		G	78466499	G	G	78466499	2	3	141	1	0	0	0	0	0	0	0	1	17440	900	32	5		5	WWOX	16	78466499	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	11041610	78466499	11888254	192	75859											
TP53	7157	broad.mit.edu	37	chr17	7578475	7578475	+	Frame_Shift_Del	DEL	G	-	-																															cgcggacgcgggtgccgggcGggggtgtggaatcaacccac																										TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr17:7578475delG	uc002gim.2	-	5	649	c.455delC	c.(454-456)CCGfs	p.P152fs	TP53_uc002gig.1_Frame_Shift_Del_p.P152fs|TP53_uc002gih.2_Frame_Shift_Del_p.P152fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.P20fs|TP53_uc010cng.1_Frame_Shift_Del_p.P20fs|TP53_uc002gii.1_Frame_Shift_Del_p.P20fs|TP53_uc010cnh.1_Frame_Shift_Del_p.P152fs|TP53_uc010cni.1_Frame_Shift_Del_p.P152fs|TP53_uc002gij.2_Frame_Shift_Del_p.P152fs|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Frame_Shift_Del_p.P59fs|TP53_uc002gio.2_Frame_Shift_Del_p.P20fs|TP53_uc010vug.1_Frame_Shift_Del_p.P113fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	152	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> R (in sporadic cancers; somatic mutation).|P -> T (in sporadic cancers; somatic mutation).|P -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|P -> Q (in sporadic cancers; somatic mutation).|P -> S (in sporadic cancers; somatic mutation).|P -> A (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P152L(57)|p.P152S(21)|p.P152fs*18(17)|p.P152T(7)|p.0?(7)|p.P152fs*29(5)|p.P152P(5)|p.P152Q(4)|p.P153fs*28(4)|p.P152fs*14(4)|p.P152fs*28(3)|p.P152R(3)|p.T150fs*16(3)|p.P152A(2)|p.P153fs*16(1)|p.P151_V173del23(1)|p.P152_P153del(1)|p.D148_T155delDSTPPPGT(1)|p.T150_P153delTPPP(1)|p.D148fs*23(1)|p.P152del(1)|p.S149fs*72(1)|p.S149fs*17(1)|p.Q144_G154del11(1)|p.P152_P153insXXX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGTGCCGGGCGGGGGTGTGGA	0.612		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			81	24	---	---	---	---						.	-	7578475	-	-	7578475	7	5	141	1	0	1	0	1	0	0	0	0	16407	1116	39	0	843	0	TP53	17	7578475	Frame_Shift_Del	DEL	G	TCGA-CG-4466-01A-01D-1158-08		7578475	73616735	193	75860											
CORO6	84940	broad.mit.edu	37	chr17	27944531	27944531	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgttaccgggtcccacaggCccagctctcgctggctcatg	5	8	12	16	3	2	0	1	0	1	0	4	0	3	0	3	3	2	4	3	3	1	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr17:27944531C>A	uc002hel.2	-	5	742	c.740G>T	c.(739-741)GGC>GTC	p.G247V	CORO6_uc002hem.2_Intron|CORO6_uc002hen.2_5'UTR	NM_032854	NP_116243	Q6QEF8	CORO6_HUMAN	coronin 6	247	WD 4.				actin cytoskeleton organization	actin cytoskeleton	actin filament binding				0						GTCCCACAGGCCCAGCTCTCG	0.697													18	19					4.96729e-08	5.25841e-08	0.049695	1	0		A	27944531	A	A	27944531	3	1	141	1	0	0	0	0	1	0	0	0	3761	739	26	5	702	5	CORO6	17	27944531	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	20366056	27944531	53250679	194	75861											
ERBB2	2064	broad.mit.edu	37	chr17	37882863	37882863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagattccgggagttggtgtCtgaattctcccgcatggcca	8	11	12	10	2	2	2	0	1	2	1	4	3	3	3	3	3	0	2	3	3	2	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr17:37882863C>T	uc002hso.2	+	24	3159	c.2921C>T	c.(2920-2922)TCT>TTT	p.S974F	ERBB2_uc002hsm.2_Missense_Mutation_p.S944F|ERBB2_uc010cwa.2_Missense_Mutation_p.S959F|ERBB2_uc002hsp.2_Missense_Mutation_p.S777F|ERBB2_uc010cwb.2_Missense_Mutation_p.S974F|ERBB2_uc010wek.1_Missense_Mutation_p.S698F	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	974	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	GAGTTGGTGTCTGAATTCTCC	0.607		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			24	925					0	0	0.083992	0	0		T	37882863	T	T	37882863	3	4	141	1	0	0	0	0	1	0	0	0	5214	913	32	4	3015	4	ERBB2	17	37882863	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	9938332	37882863	43312347	195	75862											
KRT28	162605	broad.mit.edu	37	chr17	38950093	38950093	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacttactttccatctccaTctatcaggcggcagtaggtc	8	14	7	12	1	3	0	1	0	2	0	6	0	4	0	2	3	2	2	2	3	4	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr17:38950093T>C	uc002hvh.1	-	6	1250	c.1184A>G	c.(1183-1185)GAT>GGT	p.D395G		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	395	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				TCCATCTCCATCTATCAGGCG	0.458													906	51					0	0	0.048971	0	0		C	38950093	C	C	38950093	3	2	141	1	0	0	0	0	1	0	0	0	8481	1435	50	3	222	3	KRT28	17	38950093	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	1067230	38950093	42245117	196	75863											
FHOD3	80206	broad.mit.edu	37	chr18	34349283	34349283	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcccaatgtcacagatgaTgcagctgatgagatcatgga	12	9	11	9	1	2	4	2	3	0	2	3	6	2	5	1	1	2	2	1	1	1	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr18:34349283T>A	uc002kzt.1	+	23	4177	c.4080T>A	c.(4078-4080)GAT>GAA	p.D1360E	FHOD3_uc002kzs.1_Missense_Mutation_p.D1377E|FHOD3_uc010dmz.1_Missense_Mutation_p.D1092E|FHOD3_uc010dnb.1_Missense_Mutation_p.M298K	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	1360	DAD.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				TCACAGATGATGCAGCTGATG	0.522													21	62					0	0	0.076483	0	0		A	34349283	A	A	34349283	3	1	141	1	0	0	0	0	1	0	0	0	5897	1461	51	5	4225	5	FHOD3	18	34349283	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08		34349283	43727965	197	75864											
PIK3C3	5289	broad.mit.edu	37	chr18	39607420	39607420	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttttaaggtatgtgatagtgGaatgtgaagatcaagatact	14	14	11	2	0	1	4	1	2	0	2	1	5	1	5	0	2	1	1	0	2	7	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr18:39607420G>A	uc002lap.2	+	14	1556	c.1498G>A	c.(1498-1500)GAA>AAA	p.E500K	PIK3C3_uc010xcl.1_Missense_Mutation_p.E437K|PIK3C3_uc002laq.2_5'UTR	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	500					cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						TGTGATAGTGGAATGTGAAGA	0.353										TSP Lung(28;0.18)			24	59					0	0	0.083992	0	0		A	39607420	A	A	39607420	3	1	141	1	0	0	0	0	1	0	0	0	11931	1175	41	4	1552	4	PIK3C3	18	39607420	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	5258137	39607420	38469828	198	75865											
DCC	1630	broad.mit.edu	37	chr18	50832036	50832036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgacacagaaagacgacccGcaggggtgagatggaaacac	15	3	13	10	3	0	3	0	1	0	3	1	7	0	4	1	3	1	1	1	3	2	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr18:50832036G>A	uc002lfe.1	+	13	2587	c.2000G>A	c.(1999-2001)CGC>CAC	p.R667H	DCC_uc010xdr.1_Missense_Mutation_p.R515H|DCC_uc010dpf.1_Missense_Mutation_p.R322H	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	667	Extracellular (Potential).|Fibronectin type-III 3.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AAGACGACCCGCAGGGGTGAG	0.423													62	9					0	0	0.048971	0	0		A	50832036	A	A	50832036	3	1	141	1	0	0	0	0	1	0	0	0	4285	1087	38	1	2050	1	DCC	18	50832036	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	11224616	50832036	27245212	199	75866											
MUC16	94025	broad.mit.edu	37	chr19	9089223	9089223	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcgaagtttcctctgtttcTtctccactagtaaatagatg	9	17	6	9	1	3	1	0	0	3	1	6	2	4	1	2	0	0	3	2	0	5	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr19:9089223T>G	uc002mkp.2	-	1	2796	c.2592A>C	c.(2590-2592)GAA>GAC	p.E864D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	864	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCTCTGTTTCTTCTCCACTAG	0.478													35	25					0	0	0.069456	0	0		G	9089223	G	G	9089223	3	3	141	1	0	0	0	0	1	0	0	0	9991	1606	56	5	41267	5	MUC16	19	9089223	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08		9089223	50039760	200	75867											
ZNF559	84527	broad.mit.edu	37	chr19	9449168	9449168	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattttatttcttcttcttaAgatcatctttctcaagatgt	9	21	4	7	0	6	2	2	0	5	2	7	3	6	2	0	0	0	0	0	0	3	7			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr19:9449168A>G	uc002mlg.2	+	4	592	c.-55_splice	c.e4-2		ZNF559_uc002mlf.2_Splice_Site|ZNF559_uc010dwl.1_Splice_Site|ZNF559_uc010xkn.1_Intron|ZNF559_uc010dwm.1_Splice_Site|ZNF559_uc002mle.3_Splice_Site_p.D46_splice|ZNF559_uc010dwk.1_Splice_Site|ZNF559_uc002mld.2_Splice_Site_p.D46_splice|ZNF559_uc010dwo.1_Splice_Site_p.D10_splice|ZNF559_uc002mlh.1_Splice_Site|ZNF177_uc002mli.2_Splice_Site|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTTCTTCTTAAGATCATCTTT	0.408													17	28					0	0	0.038395	0	0		G	9449168	G	G	9449168	5	3	141	1	0	0	0	0	0	0	1	0	18015	86	3	3		3	ZNF559	19	9449168	Splice_Site	SNP	A	TCGA-CG-4466-01A-01D-1158-08	359945	9449168	49679815	201	75868											
ZNF791	163049	broad.mit.edu	37	chr19	12738763	12738763	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaggagtgtgagaaagcCtttagttatctcaaatcctt	12	14	9	6	0	1	1	1	1	1	1	3	3	2	2	2	1	1	2	2	1	5	5			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr19:12738763C>G	uc002mua.2	+	4	582	c.420C>G	c.(418-420)GCC>GCG	p.A140A	ZNF791_uc010xml.1_Silent_p.A108A|ZNF791_uc010dyu.1_Silent_p.A31A|ZNF791_uc010xmm.1_Silent_p.A31A	NM_153358	NP_699189	Q3KP31	ZN791_HUMAN	zinc finger protein 791	140	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GTGAGAAAGCCTTTAGTTATC	0.393													73	54					0	0	0.048971	0	0		G	12738763	G	G	12738763	2	3	141	1	0	0	0	0	0	0	0	1	18188	668	24	5		5	ZNF791	19	12738763	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	3289595	12738763	46390220	202	75869											
ZNF208	7757	broad.mit.edu	37	chr19	22156121	22156121	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctacagtatgaattttcTtatgataactaagggttgag	12	16	8	5	0	2	3	0	3	2	0	3	3	2	3	0	1	2	2	0	1	6	8			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr19:22156121T>G	uc002nqp.2	-	5	1564	c.1415A>C	c.(1414-1416)AAG>ACG	p.K472T	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				ATGAATTTTCTTATGATAACT	0.343													11	33					0	0	0.105934	0	0		G	22156121	G	G	22156121	3	3	141	1	0	0	0	0	1	0	0	0	17791	1609	56	5	2131	5	ZNF208	19	22156121	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	9417358	22156121	36972862	203	75870											
ZNF536	9745	broad.mit.edu	37	chr19	30934928	30934928	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacatgcgcacgcacacGggcgagaagcccttcaagtg	10	5	12	14	4	1	1	1	0	0	1	1	2	1	1	1	1	3	3	1	1	2	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr19:30934928G>A	uc002nsu.1	+	2	597	c.459G>A	c.(457-459)ACG>ACA	p.T153T	ZNF536_uc010edd.1_Silent_p.T153T	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	153					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCACGCACACGGGCGAGAAGC	0.642													19	45					0	0	0.062417	0	0		A	30934928	A	A	30934928	2	1	141	1	0	0	0	0	0	0	0	1	17999	1103	39	1		1	ZNF536	19	30934928	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	8778807	30934928	28194055	204	75871											
RYR1	6261	broad.mit.edu	37	chr19	39066574	39066574	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaggtctttccctagcaaCtactgggacaagtttgtcaa	10	12	9	10	0	2	0	1	0	1	0	3	1	3	1	1	2	4	3	1	2	5	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr19:39066574C>T	uc002oit.2	+	97	14275	c.14145C>T	c.(14143-14145)AAC>AAT	p.N4715N	RYR1_uc002oiu.2_Silent_p.N4710N	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4715					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TCCCTAGCAACTACTGGGACA	0.562													51	39					0	0	0.048971	0	0		T	39066574	T	T	39066574	2	4	141	1	0	0	0	0	0	0	0	1	13793	564	20	4		4	RYR1	19	39066574	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	8131646	39066574	20062409	205	75872											
FCGBP	8857	broad.mit.edu	37	chr19	40366458	40366458	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgcacgaagctgtccccAtcgaaagccagcgagagccc	11	3	12	15	4	0	1	0	0	0	1	2	4	1	1	4	1	4	2	4	1	2	0	rs148970533	byFrequency	TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr19:40366458A>G	uc002omp.3	-	30	13784	c.13776T>C	c.(13774-13776)GAT>GAC	p.D4592D		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4592	VWFD 11.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			AGCTGTCCCCATCGAAAGCCA	0.662													3	6					0	0	0.009096	0	0		G	40366458	G	G	40366458	2	3	141	1	0	0	0	0	0	0	0	1	5792	214	8	3		3	FCGBP	19	40366458	Silent	SNP	A	TCGA-CG-4466-01A-01D-1158-08	1299884	40366458	18762525	206	75873											
MEGF8	1954	broad.mit.edu	37	chr19	42880436	42880436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaccagcggcaggagcagCgccggcacttgcaggagatg	9	4	17	11	3	0	1	0	0	0	1	0	4	0	3	2	5	4	4	2	5	0	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr19:42880436C>T	uc002otl.3	+	41	8481	c.7846C>T	c.(7846-7848)CGC>TGC	p.R2616C	MEGF8_uc002otm.3_Missense_Mutation_p.R2224C|MEGF8_uc002otn.3_Missense_Mutation_p.R277C	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	2683	Cytoplasmic (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				GCAGGAGCAGCGCCGGCACTT	0.517													2	1					0	0	0.004672	0	0		T	42880436	T	T	42880436	3	4	141	1	0	0	0	0	1	0	0	0	9481	768	27	1	8008	1	MEGF8	19	42880436	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	2513978	42880436	16248547	207	75874											
TRAPPC6A	79090	broad.mit.edu	37	chr19	45668181	45668181	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggtctttgcacaagaacTtgaggacatccagctcctcc	11	9	8	13	0	1	2	0	1	1	1	4	3	4	3	3	2	3	2	3	2	2	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr19:45668181T>A	uc002paw.2	-	3	219	c.200A>T	c.(199-201)AAG>ATG	p.K67M	TRAPPC6A_uc002pav.2_Missense_Mutation_p.K81M			O75865	TPC6A_HUMAN	SubName: Full=TRAPPC6Adelta29-42; SubName: Full=Trafficking protein particle complex 6A, isoform CRA_a;	67					vesicle-mediated transport	endoplasmic reticulum|Golgi apparatus	guanylate cyclase activity|heme binding				0		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00872)|GBM - Glioblastoma multiforme(486;0.233)		GCACAAGAACTTGAGGACATC	0.657													5	130					0	0	0.021553	0	0		A	45668181	A	A	45668181	3	1	141	1	0	0	0	0	1	0	0	0	16489	1609	56	5	295	5	TRAPPC6A	19	45668181	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	2787745	45668181	13460802	208	75875											
NLRP2	55655	broad.mit.edu	37	chr19	55494614	55494614	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcactgccctgttctacacCctggagaaggaggaggaaga	11	7	12	11	0	2	2	1	0	1	2	2	6	2	5	2	4	2	1	2	4	3	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr19:55494614C>A	uc002qij.2	+	6	1634	c.1548C>A	c.(1546-1548)ACC>ACA	p.T516T	NLRP2_uc010yfp.1_Silent_p.T493T|NLRP2_uc010esn.2_Silent_p.T492T|NLRP2_uc010eso.2_Silent_p.T513T|NLRP2_uc010esp.2_Silent_p.T494T	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	516	NACHT.				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		TGTTCTACACCCTGGAGAAGG	0.572													74	18					8.2577e-42	9.39558e-42	0.048971	1	0		A	55494614	A	A	55494614	2	1	141	1	0	0	0	0	0	0	0	1	10496	610	22	5		5	NLRP2	19	55494614	Silent	SNP	C	TCGA-CG-4466-01A-01D-1158-08	9826433	55494614	3634369	209	75876											
SLC4A11	83959	broad.mit.edu	37	chr20	3214855	3214855	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catggtccgcagcacgttatCcagggaggtggccgtctcgt	6	9	14	12	4	1	0	0	0	1	0	4	1	3	1	3	4	1	3	3	4	1	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr20:3214855C>A	uc002wig.2	-	4	493	c.445G>T	c.(445-447)GAT>TAT	p.D149Y	SLC4A11_uc010zqe.1_Missense_Mutation_p.D176Y|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.D133Y	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	149	Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						AGCACGTTATCCAGGGAGGTG	0.592													59	110					7.82978e-24	8.77057e-24	0.048971	1	0		A	3214855	A	A	3214855	3	1	141	1	0	0	0	0	1	0	0	0	14677	855	30	5	2294	5	SLC4A11	20	3214855	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08		3214855	59810665	210	75877											
FITM2	128486	broad.mit.edu	37	chr20	42935377	42935377	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccgtaccagctcagcaaaCcaaacaaggtgccaaacacc	15	4	6	16	1	1	0	1	0	0	0	2	0	2	0	5	1	7	3	5	1	5	1			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr20:42935377C>A	uc002xlr.1	-	2	778	c.677G>T	c.(676-678)GGT>GTT	p.G226V		NM_001080472	NP_001073941	Q8N6M3	FITM2_HUMAN	fat storage-inducing transmembrane protein 2	226	Helical; (Potential).				cellular triglyceride homeostasis|lipid particle organization|positive regulation of sequestering of triglyceride|regulation of triglyceride biosynthetic process	integral to endoplasmic reticulum membrane				skin(2)	2						GCTCAGCAAACCAAACAAGGT	0.483													10	172					0.00621372	0.00643643	0.058154	1	0		A	42935377	A	A	42935377	3	1	141	1	0	0	0	0	1	0	0	0	5913	507	18	5	115	5	FITM2	20	42935377	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	39720522	42935377	20090143	211	75878											
KCNK15	60598	broad.mit.edu	37	chr20	43379120	43379120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgtggcactgcagagcggcGaggcgctgcagaggaagctc	8	5	17	11	4	0	2	0	0	0	2	2	4	0	3	0	4	4	5	0	4	1	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr20:43379120G>A	uc002xmr.2	+	2	698	c.634G>A	c.(634-636)GAG>AAG	p.E212K		NM_022358	NP_071753	Q9H427	KCNKF_HUMAN	potassium family, subfamily K, member 15	212						integral to membrane	potassium channel activity|voltage-gated ion channel activity				0		Myeloproliferative disorder(115;0.0122)				GCAGAGCGGCGAGGCGCTGCA	0.622													13	90					0	0	0.028581	0	0		A	43379120	A	A	43379120	3	1	141	1	0	0	0	0	1	0	0	0	8078	1059	37	1	640	1	KCNK15	20	43379120	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	443743	43379120	19646400	212	75879											
SLC12A5	57468	broad.mit.edu	37	chr20	44670087	44670087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggccttttctgctcctctcGcttcctcaacgccacctgtg	3	13	8	17	2	3	0	1	0	2	0	6	0	5	0	5	1	2	2	5	1	1	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr20:44670087G>A	uc010zxl.1	+	8	1119	c.1043G>A	c.(1042-1044)CGC>CAC	p.R348H	SLC12A5_uc010zxm.1_Intron|SLC12A5_uc002xrb.2_Missense_Mutation_p.R325H	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	348	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	TGCTCCTCTCGCTTCCTCAAC	0.567													81	144					0	0	0.048971	0	0		A	44670087	A	A	44670087	3	1	141	1	0	0	0	0	1	0	0	0	14411	1087	38	1	1129	1	SLC12A5	20	44670087	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	1290967	44670087	18355433	213	75880											
SALL4	57167	broad.mit.edu	37	chr20	50408026	50408026	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcctgaggaagcaaagcGctcgggaggcgggacatgac	10	3	19	9	3	0	2	0	2	0	0	1	5	0	5	1	6	2	2	1	6	2	0	rs137963401		TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr20:50408026G>A	uc002xwh.3	-	2	1097	c.996C>T	c.(994-996)AGC>AGT	p.S332S	SALL4_uc010gii.2_Silent_p.S332S|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	332					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GAAGCAAAGCGCTCGGGAGGC	0.642													92	47					0	0	0.048971	0	0		A	50408026	A	A	50408026	2	1	141	1	0	0	0	0	0	0	0	1	13838	1078	38	1		1	SALL4	20	50408026	Silent	SNP	G	TCGA-CG-4466-01A-01D-1158-08	5737939	50408026	12617494	214	75881											
GMEB2	26205	broad.mit.edu	37	chr20	62221495	62221495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctcaatggtggccgtgtGctcctcaggcccgggggcag	5	7	15	14	2	2	0	2	0	0	0	3	0	3	0	4	5	1	2	4	5	1	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr20:62221495G>A	uc002yfp.1	-	9	2019	c.1540C>T	c.(1540-1542)CAC>TAC	p.H514Y	GMEB2_uc002yfo.1_Missense_Mutation_p.H436Y|GMEB2_uc002yfq.1_Missense_Mutation_p.H514Y	NM_012384	NP_036516	Q9UKD1	GMEB2_HUMAN	glucocorticoid modulatory element binding	514					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|metal ion binding				0	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;4.79e-09)|all cancers(9;2.76e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.0114)			GTGGCCGTGTGCTCCTCAGGC	0.701													12	30					0	0	0.024245	0	0		A	62221495	A	A	62221495	3	1	141	1	0	0	0	0	1	0	0	0	6503	1319	46	2	56	2	GMEB2	20	62221495	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	11813469	62221495	804025	215	75882											
ADAMTS5	11096	broad.mit.edu	37	chr21	28306878	28306878	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccttccaccgcaggcagcttCttggtcagacagaccatctg	8	9	9	15	1	3	2	1	0	2	2	4	2	4	2	4	2	1	3	4	2	0	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr21:28306878C>G	uc002ymg.2	-	4	2325	c.1596G>C	c.(1594-1596)AAG>AAC	p.K532N		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	532	Disintegrin.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CAGGCAGCTTCTTGGTCAGAC	0.542													9	45					0	0	0.058154	0	0		G	28306878	G	G	28306878	3	3	141	1	0	0	0	0	1	0	0	0	269	912	32	5	1216	5	ADAMTS5	21	28306878	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08		28306878	19823017	216	75883											
POTEH	23784	broad.mit.edu	37	chr22	16266961	16266961	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattctcagtgtcaggaaaTtgctggctttcaggtgttct	7	16	10	8	0	5	0	4	0	2	0	6	1	5	1	0	3	1	3	0	3	1	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr22:16266961T>G	uc010gqp.2	-	9	1540	c.1488A>C	c.(1486-1488)CAA>CAC	p.Q496H	POTEH_uc002zlg.1_RNA|POTEH_uc002zlh.1_Missense_Mutation_p.Q215H|POTEH_uc002zlj.1_Missense_Mutation_p.Q331H	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	496										skin(1)	1						TGTCAGGAAATTGCTGGCTTT	0.413													8	140					0	0	0.055883	0	0		G	16266961	G	G	16266961	3	3	141	1	0	0	0	0	1	0	0	0	12286	1490	52	5	157	5	POTEH	22	16266961	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08		16266961	35037605	217	75884											
MYH9	4627	broad.mit.edu	37	chr22	36698672	36698672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtaggcagcgcagttcCgctggaggaccttcatggcg	7	8	15	11	3	2	0	2	0	0	0	3	2	3	2	2	5	1	5	2	5	1	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr22:36698672C>T	uc003apg.2	-	20	2672	c.2441G>A	c.(2440-2442)CGG>CAG	p.R814Q	MYH9_uc003aph.1_Missense_Mutation_p.R678Q	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	814					actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						AGCGCAGTTCCGCTGGAGGAC	0.532			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				12	39					0	0	0.020292	0	0		T	36698672	T	T	36698672	3	4	141	1	0	0	0	0	1	0	0	0	10060	652	23	1	3529	1	MYH9	22	36698672	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	20431711	36698672	14605894	218	75885											
SMCR7L	54471	broad.mit.edu	37	chr22	39909637	39909637	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggcttcttcctggtgcGtcgtgagaatccagagtact	6	12	11	12	2	1	2	0	1	1	2	4	3	3	2	3	2	2	2	3	2	2	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr22:39909637G>C	uc003axx.2	+	6	1199	c.701G>C	c.(700-702)CGT>CCT	p.R234P	SMCR7L_uc003axw.2_Missense_Mutation_p.R234P|SMCR7L_uc010gxz.1_Missense_Mutation_p.R56P|SMCR7L_uc003axy.2_Missense_Mutation_p.R56P	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	234						integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					TTCCTGGTGCGTCGTGAGAAT	0.522													18	54					0	0	0.043863	0	0		C	39909637	C	C	39909637	3	2	141	1	0	0	0	0	1	0	0	0	14816	1145	40	5	715	5	SMCR7L	22	39909637	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	3210965	39909637	11394929	219	75886											
CACNA1I	8911	broad.mit.edu	37	chr22	40055853	40055853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtggagggcttccaggCggaggtgactgtggtcttgg	4	10	19	8	1	1	1	0	1	1	0	2	3	2	3	2	8	0	1	2	8	0	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr22:40055853C>T	uc003ayc.2	+	14	2600	c.2600C>T	c.(2599-2601)GCG>GTG	p.A867V	CACNA1I_uc003ayd.2_Missense_Mutation_p.A832V|CACNA1I_uc003aye.2_Missense_Mutation_p.A782V|CACNA1I_uc003ayf.2_Missense_Mutation_p.A747V	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	867	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	GGCTTCCAGGCGGAGGTGACT	0.607													27	31					0	0	0.041601	0	0		T	40055853	T	T	40055853	3	4	141	1	0	0	0	0	1	0	0	0	2549	768	27	1	2654	1	CACNA1I	22	40055853	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	146216	40055853	11248713	220	75887											
EFCAB6	64800	broad.mit.edu	37	chr22	44168845	44168845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgattcttctcagttcaCtttttgacacagtcaagttc	9	17	6	9	0	4	3	3	3	2	0	6	3	4	3	0	0	0	2	0	0	1	6	rs139182657	byFrequency	TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr22:44168845C>T	uc003bdy.1	-	4	493	c.278G>A	c.(277-279)AGT>AAT	p.S93N	EFCAB6_uc003bdz.1_Intron|EFCAB6_uc010gzi.1_Intron|EFCAB6_uc011aqa.1_Intron|EFCAB6_uc003bea.1_Missense_Mutation_p.S90N|EFCAB6_uc003beb.3_Intron	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	93	EF-hand 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				TCTCAGTTCACTTTTTGACAC	0.423													26	81					0	0	0.034045	0	0		T	44168845	T	T	44168845	3	4	141	1	0	0	0	0	1	0	0	0	4945	565	20	4	4343	4	EFCAB6	22	44168845	Missense_Mutation	SNP	C	TCGA-CG-4466-01A-01D-1158-08	4112992	44168845	7135721	221	75888											
ZBED4	9889	broad.mit.edu	37	chr22	50278064	50278064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcggcagagaagaagccctgGtggggtcgtctccccacctc	7	6	14	14	2	1	2	0	0	1	2	4	3	1	2	4	4	1	1	4	4	2	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr22:50278064G>A	uc003bix.2	+	2	1224	c.754G>A	c.(754-756)GTG>ATG	p.V252M		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	252						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		AGAAGCCCTGGTGGGGTCGTC	0.537													26	84					0	0	0.030593	0	0		A	50278064	A	A	50278064	3	1	141	1	0	0	0	0	1	0	0	0	17545	1261	44	4	756	4	ZBED4	22	50278064	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	6109219	50278064	1026502	222	75889											
NCAPH2	29781	broad.mit.edu	37	chr22	50956614	50956614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttcaggatgaacacgtgcGttccccaccccagaggggcc	9	7	11	14	2	1	2	1	1	0	1	2	3	2	3	5	3	2	1	5	3	1	2	rs141520277		TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chr22:50956614G>A	uc003blr.3	+	7	675	c.553G>A	c.(553-555)GTT>ATT	p.V185I	NCAPH2_uc003blq.3_Missense_Mutation_p.V185I|NCAPH2_uc003blv.2_Missense_Mutation_p.V185I|NCAPH2_uc010hbb.2_Missense_Mutation_p.V36I|NCAPH2_uc003blu.3_RNA|NCAPH2_uc003bls.3_RNA|NCAPH2_uc003blt.3_RNA|NCAPH2_uc003blw.3_RNA|NCAPH2_uc003blx.3_Missense_Mutation_p.V185I|NCAPH2_uc003bly.3_RNA	NM_152299	NP_689512	Q6IBW4	CNDH2_HUMAN	kleisin beta isoform 2	185					chromosome condensation	chromosome|nucleus				ovary(1)|skin(1)	2		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.212)		GAACACGTGCGTTCCCCACCC	0.637													9	36					0	0	0.069234	0	0		A	50956614	A	A	50956614	3	1	141	1	0	0	0	0	1	0	0	0	10229	1145	40	1	579	1	NCAPH2	22	50956614	Missense_Mutation	SNP	G	TCGA-CG-4466-01A-01D-1158-08	678550	50956614	347952	223	75890											
MXRA5	25878	broad.mit.edu	37	chrX	3239959	3239959	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctggagaagggctgggcTtggatccggacgctcttgag	6	11	16	8	2	2	2	0	1	2	1	3	5	3	4	1	5	0	3	1	5	1	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chrX:3239959T>G	uc004crg.3	-	5	3924	c.3767A>C	c.(3766-3768)AAG>ACG	p.K1256T		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1256						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				AGGGCTGGGCTTGGATCCGGA	0.468													135	32					0	0	0.048971	0	0		G	3239959	G	G	3239959	3	3	141	1	0	0	0	0	1	0	0	0	10021	1609	56	5	4731	5	MXRA5	23	3239959	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08		3239959	152030601	224	75891											
DACH2	117154	broad.mit.edu	37	chrX	85950029	85950029	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaatatttttcaggtggaAgtgaatcctcctgggataaa	13	13	10	5	0	1	2	1	2	0	0	3	4	3	4	2	3	0	0	2	3	6	4			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chrX:85950029A>T	uc004eew.2	+	5	948	c.778A>T	c.(778-780)AGT>TGT	p.S260C	DACH2_uc004eex.2_Missense_Mutation_p.S247C|DACH2_uc010nmq.2_Missense_Mutation_p.S126C|DACH2_uc011mra.1_Missense_Mutation_p.S93C|DACH2_uc010nmr.2_Missense_Mutation_p.S41C	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	260					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						TTCAGGTGGAAGTGAATCCTC	0.413													16	24					0	0	0.024245	0	0		T	85950029	T	T	85950029	3	4	141	1	0	0	0	0	1	0	0	0	4224	72	3	5	796	5	DACH2	23	85950029	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	82710070	85950029	69320531	225	75892											
SERPINA7	6906	broad.mit.edu	37	chrX	105281009	105281009	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacagtggattgtagcatgaAgcccaagtaccaagagaacc	15	6	10	10	0	0	2	0	1	0	1	0	4	0	3	3	1	4	3	3	1	6	3			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chrX:105281009A>C	uc004eme.1	-	1	57	c.41T>G	c.(40-42)CTT>CGT	p.L14R	SERPINA7_uc010npd.2_Missense_Mutation_p.L14R|SERPINA7_uc010npe.1_Missense_Mutation_p.L14R	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	14					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	TGTAGCATGAAGCCCAAGTAC	0.438													39	68					0	0	0.074837	0	0		C	105281009	C	C	105281009	3	2	141	1	0	0	0	0	1	0	0	0	14119	72	3	5	1222	5	SERPINA7	23	105281009	Missense_Mutation	SNP	A	TCGA-CG-4466-01A-01D-1158-08	19330980	105281009	49989551	226	75893											
RGAG1	57529	broad.mit.edu	37	chrX	109694940	109694940	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcccacccaaacgatgccAgccccaggctctggggcgat	9	5	11	16	2	1	0	0	0	1	0	1	2	1	0	5	3	4	1	5	3	1	0			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chrX:109694940A>G	uc004eor.1	+	3	1341	c.1095A>G	c.(1093-1095)CCA>CCG	p.P365P	RGAG1_uc011msr.1_Silent_p.P365P	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	365										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						AAACGATGCCAGCCCCAGGCT	0.537													119	218					0	0	0.048971	0	0		G	109694940	G	G	109694940	2	3	141	1	0	0	0	0	0	0	0	1	13299	175	7	3		3	RGAG1	23	109694940	Silent	SNP	A	TCGA-CG-4466-01A-01D-1158-08	4413931	109694940	45575620	227	75894											
UBE2NL	389898	broad.mit.edu	37	chrX	142967261	142967261	+	Frame_Shift_Del	DEL	T	-	-																															gcgtttgctggcagagccagTtcctggcatcaaagcagaac																										TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chrX:142967261delT	uc004fca.2	+	1	89	c.59delT	c.(58-60)GTTfs	p.V20fs		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	20							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					GCAGAGCCAGTTCCTGGCATC	0.512													95	25	---	---	---	---						.	-	142967261	-	-	142967261	7	5	141	1	0	1	0	1	0	0	0	0	16893	1725	60	0	61	0	UBE2NL	23	142967261	Frame_Shift_Del	DEL	T	TCGA-CG-4466-01A-01D-1158-08	33272321	142967261	12303299	228	75895											
MAGEA11	4110	broad.mit.edu	37	chrX	148798201	148798201	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaagggagcacttcctctTtggggagcccaagaggctcc	8	8	14	11	0	1	1	0	0	1	1	3	4	3	4	3	5	2	2	3	5	2	2			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chrX:148798201T>C	uc004fdq.2	+	5	1157	c.1055T>C	c.(1054-1056)TTT>TCT	p.F352S	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Missense_Mutation_p.F323S	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	352	MAGE.					cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CACTTCCTCTTTGGGGAGCCC	0.542													10	228					0	0	0.080935	0	0		C	148798201	C	C	148798201	3	2	141	1	0	0	0	0	1	0	0	0	9183	1841	64	3	1082	3	MAGEA11	23	148798201	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	5830940	148798201	6472359	229	75896											
GPR50	9248	broad.mit.edu	37	chrX	150348896	150348896	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctttatcttgcagcctacTtcatagcctacttcaacagc	9	13	6	13	0	3	0	2	0	1	0	3	0	3	0	2	1	7	2	2	1	5	8			TCGA-CG-4466-01A-01D-1158-08	TCGA-CG-4466-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f816b5c3-5ada-4781-93c3-b75b2e6850f7	fb3fa35c-47fb-401e-b532-37d4b027f5da	g.chrX:150348896T>G	uc010ntg.1	+	2	976	c.841T>G	c.(841-843)TTC>GTC	p.F281V	uc004fes.1_5'Flank|GPR50_uc011myc.1_Intron	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	281	Helical; Name=7; (Potential).				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TGCAGCCTACTTCATAGCCTA	0.517													43	64					0	0	0.045515	0	0		G	150348896	G	G	150348896	3	3	141	1	0	0	0	0	1	0	0	0	6712	1609	56	5	847	5	GPR50	23	150348896	Missense_Mutation	SNP	T	TCGA-CG-4466-01A-01D-1158-08	1550695	150348896	4921664	230	75897											
C1orf174	339448	broad.mit.edu	37	chr1	3806547	3806547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catttctgcatcatcgtcgtCgtcatcatcatcatctttgg	7	16	6	12	3	7	0	5	0	2	0	10	0	7	0	0	1	1	1	0	1	0	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:3806547C>T	uc001alf.2	-	4	816	c.709G>A	c.(709-711)GAC>AAC	p.D237N	C1orf174_uc009vls.2_RNA	NM_207356	NP_997239	Q8IYL3	CA174_HUMAN	hypothetical protein LOC339448	237	Poly-Asp.										0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;5.09e-25)|all_epithelial(116;9.35e-17)|all_lung(118;1.09e-06)|Lung NSC(185;0.000139)|all_neural(13;0.00287)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0219)|all_hematologic(16;0.027)|Colorectal(325;0.0276)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;1.55e-39)|OV - Ovarian serous cystadenocarcinoma(86;5.99e-23)|GBM - Glioblastoma multiforme(42;2.22e-17)|Colorectal(212;1.08e-05)|COAD - Colon adenocarcinoma(227;5.49e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000365)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.19)		tcatcgtcgtcgtcatcatca	0.328													48	65					0	0	0.870114	0	0		T	3806547	T	T	3806547	3	4	142	1	0	0	0	0	1	0	0	0	2018	884	31	1	26	1	C1orf174	1	3806547	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08		3806547	245444074	1	75898											
VPS13D	55187	broad.mit.edu	37	chr1	12416555	12416555	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagtcctctcttattctgCtatgctgacaaagagcagcc	9	12	8	12	0	2	3	0	2	2	1	4	3	3	3	2	0	4	3	2	0	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:12416555C>T	uc001atv.2	+	49	10113	c.9972C>T	c.(9970-9972)TGC>TGT	p.C3324C	VPS13D_uc001atw.2_Silent_p.C3299C|VPS13D_uc001atx.2_Silent_p.C2511C	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3323					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TCTTATTCTGCTATGCTGACA	0.473													32	46					0	0	0.769981	0	0		T	12416555	T	T	12416555	2	4	142	1	0	0	0	0	0	0	0	1	17218	805	28	2		2	VPS13D	1	12416555	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	8610008	12416555	236834066	2	75899											
TCEB3	6924	broad.mit.edu	37	chr1	24082799	24082799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggcctttgtcaactctgtgGccaagccacctcgtgacgtc	6	11	10	14	2	2	1	1	1	1	0	4	1	2	1	4	2	2	0	4	2	2	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:24082799G>A	uc001bho.2	+	9	2146	c.2086G>A	c.(2086-2088)GCC>ACC	p.A696T		NM_003198	NP_003189	Q14241	ELOA1_HUMAN	elongin A	696	Activation domain (By similarity).				positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|viral reproduction	integral to membrane	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.42e-24)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;4.74e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|KIRC - Kidney renal clear cell carcinoma(1967;0.00334)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		CAACTCTGTGGCCAAGCCACC	0.483													7	9					0	0	0.307466	0	0		A	24082799	A	A	24082799	3	1	142	1	0	0	0	0	1	0	0	0	15706	1203	42	2	2120	2	TCEB3	1	24082799	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	11666244	24082799	225167822	3	75900											
ARID1A	8289	broad.mit.edu	37	chr1	27106412	27106412	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaaacacccagggctgcTgctcatcctgggcaagctga	9	7	11	14	0	1	1	1	1	0	0	3	1	3	1	3	2	4	5	3	2	2	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:27106412T>G	uc001bmv.1	+	20	6396	c.6023T>G	c.(6022-6024)CTG>CGG	p.L2008R	ARID1A_uc001bmu.1_Missense_Mutation_p.L1791R|ARID1A_uc001bmx.1_Missense_Mutation_p.L854R|ARID1A_uc009vsm.1_Missense_Mutation_p.L336R|ARID1A_uc009vsn.1_Missense_Mutation_p.L250R	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2008					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CCAGGGCTGCTGCTCATCCTG	0.537			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								69	21					0	0	0.870114	0	0		G	27106412	G	G	27106412	3	3	142	1	0	0	0	0	1	0	0	0	913	1580	55	5	6101	5	ARID1A	1	27106412	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	3023613	27106412	222144209	4	75901											
ATPIF1	93974	broad.mit.edu	37	chr1	28562926	28562926	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggaagccggtggggccttcGgaaagagagagcaggctgaa	11	4	19	7	2	0	3	0	1	0	2	1	6	0	5	2	6	2	2	2	6	3	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:28562926G>C	uc001bpq.2	+	2	226	c.142G>C	c.(142-144)GGA>CGA	p.G48R	ATPIF1_uc001bpp.2_Missense_Mutation_p.G48R|ATPIF1_uc001bpr.2_Missense_Mutation_p.G48R	NM_016311	NP_057395	Q9UII2	ATIF1_HUMAN	ATPase inhibitory factor 1 isoform 1 precursor	48					angiogenesis|generation of precursor metabolites and energy|negative regulation of endothelial cell proliferation|negative regulation of hydrolase activity|negative regulation of nucleotide metabolic process|protein homotetramerization	cell surface|mitochondrion	angiostatin binding|ATPase binding|ATPase inhibitor activity|calmodulin binding|protein homodimerization activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;4.76e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;2.36e-22)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|BRCA - Breast invasive adenocarcinoma(304;0.00574)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0649)		TGGGGCCTTCGGAAAGAGAGA	0.587													55	102					0	0	0.870114	0	0		C	28562926	C	C	28562926	3	2	142	1	0	0	0	0	1	0	0	0	1204	1117	39	5	148	5	ATPIF1	1	28562926	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	1456514	28562926	220687695	5	75902											
HEYL	26508	broad.mit.edu	37	chr1	40092691	40092691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgggcgaaggctccatctCggctgcgtagctgttgaggt	5	10	16	10	4	1	1	0	1	1	0	3	2	2	1	1	4	2	5	1	4	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:40092691C>T	uc001cdp.2	-	5	526	c.475G>A	c.(475-477)GAG>AAG	p.E159K	HEYL_uc010oiw.1_Missense_Mutation_p.E131K	NM_014571	NP_055386	Q9NQ87	HEYL_HUMAN	hairy/enhancer-of-split related with YRPW	159					multicellular organismal development|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.1e-18)|Epithelial(16;2.77e-17)|all cancers(16;5.64e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			GGCTCCATCTCGGCTGCGTAG	0.642													40	63					0	0	0.870114	0	0		T	40092691	T	T	40092691	3	4	142	1	0	0	0	0	1	0	0	0	7096	893	31	1	515	1	HEYL	1	40092691	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	11529765	40092691	209157930	6	75903											
ERMAP	114625	broad.mit.edu	37	chr1	43296699	43296699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactctgcagatccttgacGtgcgccttgaggaccaaggg	8	9	12	12	2	2	3	1	2	1	1	3	4	3	4	3	2	2	1	3	2	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:43296699G>A	uc001cic.1	+	4	616	c.346G>A	c.(346-348)GTG>ATG	p.V116M	ERMAP_uc010ojw.1_Missense_Mutation_p.V177M|ERMAP_uc001cid.1_Intron|ERMAP_uc001cie.1_Missense_Mutation_p.V116M|ERMAP_uc001cif.1_Missense_Mutation_p.V26M	NM_001017922	NP_001017922	Q96PL5	ERMAP_HUMAN	erythroblast membrane-associated protein	116	Ig-like V-type.|Extracellular (Potential).		Missing (in Sc-3 allele).			integral to membrane|plasma membrane				ovary(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GATCCTTGACGTGCGCCTTGA	0.517													35	60					0	0	0.812448	0	0		A	43296699	A	A	43296699	3	1	142	1	0	0	0	0	1	0	0	0	5242	1145	40	1	352	1	ERMAP	1	43296699	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	3204008	43296699	205953922	7	75904											
CYP4X1	260293	broad.mit.edu	37	chr1	47512210	47512210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgattgattcctgcagtccCgtccatttccagagatctca	8	12	7	14	2	1	2	1	1	1	1	6	4	5	2	5	0	1	1	5	0	0	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:47512210C>T	uc001cqt.2	+	9	1395	c.1145C>T	c.(1144-1146)CCG>CTG	p.P382L	CYP4X1_uc001cqr.2_Missense_Mutation_p.P381L|CYP4X1_uc001cqs.2_Missense_Mutation_p.P317L	NM_178033	NP_828847	Q8N118	CP4X1_HUMAN	cytochrome P450, family 4, subfamily X,	382						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2						CCTGCAGTCCCGTCCATTTCC	0.512													60	69					0	0	0.870114	0	0		T	47512210	T	T	47512210	3	4	142	1	0	0	0	0	1	0	0	0	4196	652	23	1	1179	1	CYP4X1	1	47512210	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	4215511	47512210	201738411	8	75905											
C8B	732	broad.mit.edu	37	chr1	57420479	57420479	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattgtccccattgcaaagaAgtctgcggtttacacacctt	10	12	7	12	1	1	1	0	0	1	1	2	1	2	1	3	1	3	2	3	1	3	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:57420479A>C	uc001cyp.2	-	4	480	c.413T>G	c.(412-414)CTT>CGT	p.L138R	C8B_uc010oon.1_Missense_Mutation_p.L76R|C8B_uc010ooo.1_Missense_Mutation_p.L86R	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	138	LDL-receptor class A.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						ATTGCAAAGAAGTCTGCGGTT	0.423													50	86					0	0	0.870114	0	0		C	57420479	C	C	57420479	3	2	142	1	0	0	0	0	1	0	0	0	2420	72	3	5	1398	5	C8B	1	57420479	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	9908269	57420479	191830142	9	75906											
PGM1	5236	broad.mit.edu	37	chr1	64114271	64114271	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccacccgcaagcagagtgtgGaggacattctcaaagatcat	13	7	10	11	1	2	2	2	0	1	2	3	4	2	4	2	2	1	2	2	2	2	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:64114271G>A	uc001dbh.2	+	8	1441	c.1228G>A	c.(1228-1230)GAG>AAG	p.E410K	PGM1_uc010ooy.1_Missense_Mutation_p.E213K|PGM1_uc010ooz.1_Missense_Mutation_p.E428K	NM_002633	NP_002624	P36871	PGM1_HUMAN	phosphoglucomutase 1	410					cellular calcium ion homeostasis|galactose catabolic process|glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity			ovary(2)|kidney(1)	3						GCAGAGTGTGGAGGACATTCT	0.562													36	64					0	0	0.788014	0	0		A	64114271	A	A	64114271	3	1	142	1	0	0	0	0	1	0	0	0	11816	1175	41	4	1562	4	PGM1	1	64114271	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	6693792	64114271	185136350	10	75907											
ELTD1	64123	broad.mit.edu	37	chr1	79383608	79383608	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagatataaaaattcttgTgcaaaaatcccttgttgtag	16	13	6	6	0	1	1	0	0	1	1	2	1	2	1	1	0	1	3	1	0	8	7			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:79383608T>A	uc001diq.3	-	11	1745	c.1589A>T	c.(1588-1590)CAC>CTC	p.H530L		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	530	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		AAAATTCTTGTGCAAAAATCC	0.398													91	164					0	0	0.870114	0	0		A	79383608	A	A	79383608	3	1	142	1	0	0	0	0	1	0	0	0	5092	1696	59	5	503	5	ELTD1	1	79383608	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	15269337	79383608	169867013	11	75908											
LPHN2	23266	broad.mit.edu	37	chr1	82456582	82456582	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatacaagcatgcccaatcTtagagactctccctatccgg	11	11	6	13	1	2	1	0	0	2	1	4	2	3	1	3	1	3	1	3	1	6	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:82456582T>G	uc001dit.3	+	21	4146	c.3965T>G	c.(3964-3966)CTT>CGT	p.L1322R	LPHN2_uc001dis.2_Missense_Mutation_p.L302R|LPHN2_uc001diu.2_Missense_Mutation_p.L1322R|LPHN2_uc001div.2_3'UTR|LPHN2_uc009wcd.2_3'UTR|LPHN2_uc001diw.2_Missense_Mutation_p.L949R	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	1378	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		ATGCCCAATCTTAGAGACTCT	0.468													45	86					0	0	0.864702	0	0		G	82456582	G	G	82456582	3	3	142	1	0	0	0	0	1	0	0	0	8934	1609	56	5	4039	5	LPHN2	1	82456582	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	3072974	82456582	166794039	12	75909											
CDC14A	8556	broad.mit.edu	37	chr1	100964602	100964602	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcttcacagccagcccgttTaccaacctcttgaatggcag	9	9	9	14	1	2	1	1	1	1	0	2	1	2	1	4	2	4	3	4	2	3	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:100964602T>G	uc001dtg.3	+	15	2027	c.1539T>G	c.(1537-1539)TTT>TTG	p.F513L	CDC14A_uc010oui.1_Missense_Mutation_p.F455L|CDC14A_uc001dtf.2_Missense_Mutation_p.F513L|CDC14A_uc009wed.1_Missense_Mutation_p.F220L|CDC14A_uc009wee.2_Missense_Mutation_p.F513L	NM_003672	NP_003663	Q9UNH5	CC14A_HUMAN	CDC14 homolog A isoform 1	513					cell cycle|cell division|cell proliferation	centrosome|nucleus|spindle	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			large_intestine(1)	1		all_epithelial(167;3.71e-06)|all_lung(203;0.00097)|Lung NSC(277;0.001)		Epithelial(280;0.0676)|all cancers(265;0.127)|COAD - Colon adenocarcinoma(174;0.201)|Lung(183;0.227)|Colorectal(144;0.241)		CCAGCCCGTTTACCAACCTCT	0.502													33	47					0	0	0.804634	0	0		G	100964602	G	G	100964602	3	3	142	1	0	0	0	0	1	0	0	0	3059	1751	61	5	1612	5	CDC14A	1	100964602	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	18508020	100964602	148286019	13	75910											
COL11A1	1301	broad.mit.edu	37	chr1	103449730	103449730	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggatatcctggtaatccTggaactccaagttttcccta	9	13	7	12	0	0	0	0	0	0	0	4	2	4	2	5	3	1	2	5	3	5	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:103449730T>C	uc001dul.2	-	31	2838	c.2520A>G	c.(2518-2520)CCA>CCG	p.P840P	COL11A1_uc001duk.2_Missense_Mutation_p.Q31R|COL11A1_uc001dum.2_Silent_p.P852P|COL11A1_uc001dun.2_Silent_p.P801P|COL11A1_uc009weh.2_Silent_p.P724P	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	840	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CTGGTAATCCTGGAACTCCAA	0.209													26	40					0	0	0.681144	0	0		C	103449730	C	C	103449730	2	2	142	1	0	0	0	0	0	0	0	1	3670	1567	55	3		3	COL11A1	1	103449730	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	2485128	103449730	145800891	14	75911											
LRIG2	9860	broad.mit.edu	37	chr1	113657272	113657272	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaatatacctgcattatGtctaacacccttgggacaga	13	10	9	9	0	1	1	0	0	1	1	1	3	1	3	2	2	3	1	2	2	5	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:113657272G>A	uc001edf.1	+	15	2502	c.2304G>A	c.(2302-2304)ATG>ATA	p.M768I	LRIG2_uc009wgn.1_Missense_Mutation_p.M665I	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	768	Ig-like C2-type 3.|Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		CCTGCATTATGTCTAACACCC	0.458													67	119					0	0	0.870114	0	0		A	113657272	A	A	113657272	3	1	142	1	0	0	0	0	1	0	0	0	8963	1377	48	4	2362	4	LRIG2	1	113657272	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	10207542	113657272	135593349	15	75912											
DENND2C	163259	broad.mit.edu	37	chr1	115151320	115151320	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctaccttgccagggaatTgttgtatgacctggggaata	9	12	12	8	0	0	1	0	1	0	0	0	3	0	3	4	3	3	2	4	3	5	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:115151320T>A	uc001efd.1	-	10	2246	c.1544A>T	c.(1543-1545)CAA>CTA	p.Q515L	DENND2C_uc001eez.2_RNA|DENND2C_uc001efc.1_Missense_Mutation_p.Q458L	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	515	UDENN.									skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCCAGGGAATTGTTGTATGAC	0.433													90	106					0	0	0.870114	0	0		A	115151320	A	A	115151320	3	1	142	1	0	0	0	0	1	0	0	0	4436	1812	63	5	1290	5	DENND2C	1	115151320	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	1494048	115151320	134099301	16	75913											
NGF	4803	broad.mit.edu	37	chr1	115829283	115829283	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctctgcgaagggcagtgTcaagggaatgctgaagttta	10	9	16	6	1	2	1	1	1	1	0	2	3	2	2	0	3	2	4	0	3	5	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:115829283T>G	uc001efu.1	-	3	303	c.134A>C	c.(133-135)GAC>GCC	p.D45A		NM_002506	NP_002497	P01138	NGF_HUMAN	nerve growth factor, beta polypeptide precursor	45					activation of MAPKK activity|activation of phospholipase C activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of cell cycle|nerve growth factor processing|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|Golgi lumen	growth factor activity|nerve growth factor receptor binding			upper_aerodigestive_tract(2)	2	Lung SC(450;0.211)	all_cancers(81;1.07e-06)|all_epithelial(167;4.43e-06)|all_lung(203;2.86e-05)|Lung NSC(69;4.99e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|all cancers(265;0.159)|Epithelial(280;0.179)	Clenbuterol(DB01407)	AAGGGCAGTGTCAAGGGAATG	0.602													43	70					0	0	0.870114	0	0		G	115829283	G	G	115829283	3	3	142	1	0	0	0	0	1	0	0	0	10414	1667	58	5	595	5	NGF	1	115829283	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	677963	115829283	133421338	17	75914											
SETDB1	9869	broad.mit.edu	37	chr1	150936730	150936730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctcttcagaagaatcCgggctgggacagaacttact	10	11	9	11	1	3	3	1	0	2	3	5	4	5	4	2	2	2	1	2	2	4	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:150936730C>T	uc001evu.2	+	22	3956	c.3766C>T	c.(3766-3768)CGG>TGG	p.R1256W	SETDB1_uc001evv.2_Missense_Mutation_p.R1255W	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	1256	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			CAGAAGAATCCGGGCTGGGAC	0.507													32	51					0	0	0.779181	0	0		T	150936730	T	T	150936730	3	4	142	1	0	0	0	0	1	0	0	0	14163	643	23	1	3848	1	SETDB1	1	150936730	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	35107447	150936730	98313891	18	75915											
C1orf77	26097	broad.mit.edu	37	chr1	153610785	153610785	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagctttactaatatgcTgaagaacaaacagccgacgc	15	9	8	9	2	0	3	0	2	0	1	0	4	0	3	1	0	6	2	1	0	7	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:153610785T>G	uc001fcm.1	+	3	392	c.80T>G	c.(79-81)CTG>CGG	p.L27R	C1orf77_uc001fcn.1_Missense_Mutation_p.L27R|C1orf77_uc001fco.1_Missense_Mutation_p.L2R|C1orf77_uc009woi.1_Missense_Mutation_p.L27R|C1orf77_uc009woj.1_Missense_Mutation_p.L27R	NM_015607	NP_056422	Q9Y3Y2	CHTOP_HUMAN	small protein rich in arginine and glycine	27					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	protein binding|RNA binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			ACTAATATGCTGAAGAACAAA	0.438													18	144					0	0	0.575678	0	0		G	153610785	G	G	153610785	3	3	142	1	0	0	0	0	1	0	0	0	2062	1580	55	5	86	5	C1orf77	1	153610785	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	2674055	153610785	95639836	19	75916											
SPTA1	6708	broad.mit.edu	37	chr1	158604450	158604450	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaagtattctagggattcTtccaacttaagtcctctata	11	15	6	9	0	3	0	0	0	3	0	5	1	5	1	2	1	2	2	2	1	7	8			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:158604450T>C	uc001fst.1	-	39	5647	c.5448A>G	c.(5446-5448)GAA>GAG	p.E1816E		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1816	Spectrin 17.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CTAGGGATTCTTCCAACTTAA	0.453													53	111					0	0	0.870114	0	0		C	158604450	C	C	158604450	2	2	142	1	0	0	0	0	0	0	0	1	15141	1606	56	3		3	SPTA1	1	158604450	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	4993665	158604450	90646171	20	75917											
SPTA1	6708	broad.mit.edu	37	chr1	158636127	158636127	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgagcagccacagccgaCtccaggaggccgtgtttcct	8	7	12	14	3	0	1	0	1	0	0	2	4	2	2	5	2	3	2	5	2	0	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:158636127C>G	uc001fst.1	-	16	2398	c.2199G>C	c.(2197-2199)GAG>GAC	p.E733D		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	733	Spectrin 8.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CCACAGCCGACTCCAGGAGGC	0.512													11	24					0	0	0.557998	0	0		G	158636127	G	G	158636127	3	3	142	1	0	0	0	0	1	0	0	0	15141	564	20	5	5208	5	SPTA1	1	158636127	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	31677	158636127	90614494	21	75918											
DUSP27	92235	broad.mit.edu	37	chr1	167095768	167095768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccacggcaggaggcgccGcgcagactcgatgtcctcgg	7	4	16	14	6	0	1	0	0	0	1	3	4	1	3	3	5	0	2	3	5	0	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:167095768G>A	uc001geb.1	+	5	1400	c.1400G>A	c.(1399-1401)CGC>CAC	p.R467H		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	467					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						AGGAGGCGCCGCGCAGACTCG	0.652													16	20					0	0	0.557998	0	0		A	167095768	A	A	167095768	3	1	142	1	0	0	0	0	1	0	0	0	4830	1087	38	1	1418	1	DUSP27	1	167095768	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	8459641	167095768	82154853	22	75919											
F5	2153	broad.mit.edu	37	chr1	169524509	169524509	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcttcatgtgccgcctCtgctcacgagttattttctt	5	16	6	14	2	5	0	2	0	3	0	5	1	5	0	3	0	2	2	3	0	1	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:169524509C>A	uc001ggg.1	-	7	1174	c.1029G>T	c.(1027-1029)CAG>CAT	p.Q343H	F5_uc010plr.1_RNA	NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	343					cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TGTGCCGCCTCTGCTCACGAG	0.438													104	110					2.85792e-54	3.13329e-54	0.870114	1	0		A	169524509	A	A	169524509	3	1	142	1	0	0	0	0	1	0	0	0	5356	912	32	5	5721	5	F5	1	169524509	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	2428741	169524509	79726112	23	75920											
C1orf125	126859	broad.mit.edu	37	chr1	179414226	179414226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggcttgggatatttaatcGgcataaaagtttggaggggg	10	12	16	3	1	0	0	0	0	0	0	1	2	0	2	0	6	0	3	0	6	4	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:179414226G>A	uc001gmo.2	+	16	1812	c.1685G>A	c.(1684-1686)CGG>CAG	p.R562Q	C1orf125_uc009wxg.2_Intron|C1orf125_uc001gmn.1_Missense_Mutation_p.R350Q|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.R562Q	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	562											0						ATATTTAATCGGCATAAAAGT	0.358													90	133					0	0	0.870114	0	0		A	179414226	A	A	179414226	3	1	142	1	0	0	0	0	1	0	0	0	1996	1116	39	1	1743	1	C1orf125	1	179414226	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	9889717	179414226	69836395	24	75921											
ZNF648	127665	broad.mit.edu	37	chr1	182026551	182026551	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgcgtgggaaggtcccAgttgctccccggcctgggga	4	9	15	13	2	1	0	0	0	1	0	3	2	3	2	4	5	2	2	4	5	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:182026551A>C	uc001goz.2	-	2	803	c.595T>G	c.(595-597)TGG>GGG	p.W199G		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	199					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGAAGGTCCCAGTTGCTCCCC	0.607													3	57					0	0	0.115264	0	0		C	182026551	C	C	182026551	3	2	142	1	0	0	0	0	1	0	0	0	18088	188	7	5	1115	5	ZNF648	1	182026551	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	2612325	182026551	67224070	25	75922											
HMCN1	83872	broad.mit.edu	37	chr1	185958651	185958651	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatttcaaccagcagtgctaAgttttcagcaggagctgatg	11	11	11	8	0	2	1	2	1	0	0	2	3	2	2	1	1	5	5	1	1	2	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:185958651A>C	uc001grq.1	+	21	3309	c.3080A>C	c.(3079-3081)AAG>ACG	p.K1027T	HMCN1_uc001grr.1_Missense_Mutation_p.K368T	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1027	Ig-like C2-type 7.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AGCAGTGCTAAGTTTTCAGCA	0.463													95	122					0	0	0.870114	0	0		C	185958651	C	C	185958651	3	2	142	1	0	0	0	0	1	0	0	0	7236	72	3	5	3162	5	HMCN1	1	185958651	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	3932100	185958651	63291970	26	75923											
PTPRC	5788	broad.mit.edu	37	chr1	198685942	198685942	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacgtaatggaagtgctgcaAtgtgtcatttcacaactaaa	15	11	8	7	1	2	0	2	0	0	0	2	1	2	1	0	1	4	3	0	1	7	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:198685942A>T	uc001gur.1	+	13	1597	c.1417A>T	c.(1417-1419)ATG>TTG	p.M473L	PTPRC_uc001gus.1_Missense_Mutation_p.M425L|PTPRC_uc001gut.1_Missense_Mutation_p.M312L|PTPRC_uc009wzf.1_Missense_Mutation_p.M361L|PTPRC_uc010ppg.1_Missense_Mutation_p.M409L	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	473	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						AAGTGCTGCAATGTGTCATTT	0.303													30	31					0	0	0.740014	0	0		T	198685942	T	T	198685942	3	4	142	1	0	0	0	0	1	0	0	0	12822	101	4	5	1474	5	PTPRC	1	198685942	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	12727291	198685942	50564679	27	75924											
USH2A	7399	broad.mit.edu	37	chr1	216258095	216258095	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgggacatccctcccagctGttatacacgttgatttgttc	7	13	9	12	2	0	1	0	1	0	0	3	2	2	2	2	1	2	4	2	1	2	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:216258095G>A	uc001hku.1	-	25	5499	c.5112C>T	c.(5110-5112)AAC>AAT	p.N1704N		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1704	Laminin G-like 1.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CCTCCCAGCTGTTATACACGT	0.413										HNSCC(13;0.011)			75	104					0	0	0.870114	0	0		A	216258095	A	A	216258095	2	1	142	1	0	0	0	0	0	0	0	1	17062	1368	48	4		4	USH2A	1	216258095	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	17572153	216258095	32992526	28	75925											
RYR2	6262	broad.mit.edu	37	chr1	237617755	237617755	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttgcctatagagtccgtaAgcctaagtctgcaggatctc	10	12	9	10	1	2	1	0	0	2	1	4	2	3	2	3	1	3	2	3	1	4	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:237617755A>C	uc001hyl.1	+	15	1477	c.1357A>C	c.(1357-1359)AGC>CGC	p.S453R		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	453	Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AGAGTCCGTAAGCCTAAGTCT	0.463													42	52					0	0	0.870114	0	0		C	237617755	C	C	237617755	3	2	142	1	0	0	0	0	1	0	0	0	13794	72	3	5	1415	5	RYR2	1	237617755	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	21359660	237617755	11632866	29	75926											
OR2G2	81470	broad.mit.edu	37	chr1	247752079	247752079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccattacactgtcttaatgCatatccatctctgcatggcc	9	14	5	13	0	2	0	0	0	2	0	5	0	4	0	3	1	3	2	3	1	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:247752079C>T	uc010pyy.1	+	1	418	c.418C>T	c.(418-420)CAT>TAT	p.H140Y		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	140	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TGTCTTAATGCATATCCATCT	0.577													155	229					0	0	0.870114	0	0		T	247752079	T	T	247752079	3	4	142	1	0	0	0	0	1	0	0	0	11017	710	25	2	420	2	OR2G2	1	247752079	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	10134324	247752079	1498542	30	75927											
OR2L2	26246	broad.mit.edu	37	chr1	248201578	248201578	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggaattccccatggaaaaTtacaatcaaacatcaactga	18	9	5	9	0	2	1	2	1	0	0	3	3	3	3	2	2	3	0	2	2	8	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr1:248201578T>G	uc001idw.2	+	1	105	c.9T>G	c.(7-9)AAT>AAG	p.N3K	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	3	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			CCATGGAAAATTACAATCAAA	0.299													95	120					0	0	0.870114	0	0		G	248201578	G	G	248201578	3	3	142	1	0	0	0	0	1	0	0	0	11026	1490	52	5	11	5	OR2L2	1	248201578	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	449499	248201578	1049043	31	75928											
SNTG2	54221	broad.mit.edu	37	chr2	1271161	1271161	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctcacagaggactgctggTtgcaagcaaacttgtatctg	10	10	12	9	0	2	1	1	0	1	1	2	2	2	2	0	3	4	6	0	3	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:1271161T>G	uc002qwq.2	+	14	1230	c.1102T>G	c.(1102-1104)TTG>GTG	p.L368V	SNTG2_uc010ewi.2_Missense_Mutation_p.L241V	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	368	PH.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		GGACTGCTGGTTGCAAGCAAA	0.527													4	13					0	0	0.150653	0	0		G	1271161	G	G	1271161	3	3	142	1	0	0	0	0	1	0	0	0	14900	1722	60	5	1156	5	SNTG2	2	1271161	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08		1271161	241928212	32	75929											
ADAM17	6868	broad.mit.edu	37	chr2	9676896	9676896	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcgtttttaccatccaccaCcacgaccttgaaattttgtg	9	15	5	12	2	0	1	0	1	0	0	2	2	1	1	5	0	1	1	5	0	2	7			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:9676896C>G	uc002qzu.2	-	3	475	c.292G>C	c.(292-294)GTG>CTG	p.V98L	ADAM17_uc010ewy.2_Missense_Mutation_p.V98L|ADAM17_uc010ewz.2_Intron|ADAM17_uc010exb.1_Missense_Mutation_p.V98L|ADAM17_uc002qzv.2_Missense_Mutation_p.V98L	NM_003183	NP_003174	P78536	ADA17_HUMAN	a disintegrin and metalloprotease domain 17	98	Poly-Val.				B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			lung(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)		CCATCCACCACCACGACCTTG	0.398													36	44					0	0	0.812448	0	0		G	9676896	G	G	9676896	3	3	142	1	0	0	0	0	1	0	0	0	238	507	18	5	2250	5	ADAM17	2	9676896	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	8405735	9676896	233522477	33	75930											
ALK	238	broad.mit.edu	37	chr2	29754946	29754946	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acggactcaggatggtgtgcTtggagtcagctgaggtgttg	7	11	17	6	1	2	1	2	1	0	0	2	4	2	4	0	5	2	3	0	5	0	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:29754946T>C	uc002rmy.2	-	4	1896	c.989A>G	c.(988-990)AAG>AGG	p.K330R		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	330	MAM 1.|Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	GATGGTGTGCTTGGAGTCAGC	0.557			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				31	58					0	0	0.750413	0	0		C	29754946	C	C	29754946	3	2	142	1	0	0	0	0	1	0	0	0	525	1609	56	3	3977	3	ALK	2	29754946	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	20078050	29754946	213444427	34	75931											
ZNF514	84874	broad.mit.edu	37	chr2	95815386	95815386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtagggtttctctccagtgtGaaatctatagtgcagaacaa	12	12	10	7	0	2	2	0	1	2	1	4	2	3	2	1	1	2	3	1	1	6	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:95815386G>A	uc002sue.1	-	5	1218	c.844C>T	c.(844-846)CAC>TAC	p.H282Y	ZNF514_uc002sud.1_Missense_Mutation_p.H355Y	NM_032788	NP_116177	Q96K75	ZN514_HUMAN	zinc finger protein 514	282	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTCCAGTGTGAAATCTATAG	0.433													51	91					0	0	0.870114	0	0		A	95815386	A	A	95815386	3	1	142	1	0	0	0	0	1	0	0	0	17984	1290	45	4	362	4	ZNF514	2	95815386	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	66060440	95815386	147383987	35	75932											
LONRF2	164832	broad.mit.edu	37	chr2	100917224	100917224	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcatgcacatttgctgtaGctgaaaacagcacttcacac	12	12	6	11	0	2	1	2	1	0	0	2	1	2	1	0	0	5	5	0	0	3	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:100917224G>C	uc002tal.3	-	4	1587	c.947C>G	c.(946-948)GCT>GGT	p.A316G	LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	316					proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						ATTTGCTGTAGCTGAAAACAG	0.343													28	56					0	0	0.706142	0	0		C	100917224	C	C	100917224	3	2	142	1	0	0	0	0	1	0	0	0	8913	971	34	5	1353	5	LONRF2	2	100917224	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	5101838	100917224	142282149	36	75933											
C2orf29	55571	broad.mit.edu	37	chr2	101885796	101885796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattgaattcagtaggatacGagaagctgctggtcttttcc	10	14	10	7	1	2	2	1	1	1	1	3	4	3	3	1	2	3	3	1	2	5	7			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:101885796G>A	uc002taw.3	+	7	1536	c.1454G>A	c.(1453-1455)CGA>CAA	p.R485Q		NM_017546	NP_060016	Q9UKZ1	CB029_HUMAN	hypothetical protein LOC55571	485					cell proliferation|nuclear-transcribed mRNA poly(A) tail shortening	cytosol				ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						AGTAGGATACGAGAAGCTGCT	0.393													55	99					0	0	0.870114	0	0		A	101885796	A	A	101885796	3	1	142	1	0	0	0	0	1	0	0	0	2164	1058	37	1	1480	1	C2orf29	2	101885796	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	968572	101885796	141313577	37	75934											
SLC9A4	389015	broad.mit.edu	37	chr2	103095555	103095555	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggccctgatcaacgccttgGgcattggcctctccctctac	5	10	10	16	1	3	1	1	1	2	0	4	1	3	1	4	3	2	1	4	3	2	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:103095555G>T	uc002tbz.3	+	2	971	c.514G>T	c.(514-516)GGC>TGC	p.G172C		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	172	Helical; Name=E/M5; (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						CAACGCCTTGGGCATTGGCCT	0.617													27	30					1.88708e-17	1.9568e-17	0.729181	1	0		T	103095555	T	T	103095555	3	4	142	1	0	0	0	0	1	0	0	0	14741	1232	43	5	520	5	SLC9A4	2	103095555	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	1209759	103095555	140103818	38	75935											
IMP4	92856	broad.mit.edu	37	chr2	131103621	131103621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccgatacctatttcccGtgcccaaagatgacagccac	10	9	6	16	2	0	2	0	1	0	1	3	3	3	2	6	0	3	0	6	0	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:131103621G>A	uc002tra.1	+	7	642	c.625G>A	c.(625-627)GTG>ATG	p.V209M		NM_033416	NP_219484	Q96G21	IMP4_HUMAN	IMP4, U3 small nucleolar ribonucleoprotein,	209	Brix.				rRNA processing|translation	nucleolus|ribonucleoprotein complex	aminoacyl-tRNA ligase activity|ATP binding|protein binding			central_nervous_system(2)	2	Colorectal(110;0.1)					CCTATTTCCCGTGCCCAAAGA	0.592													49	68					0	0	0.870114	0	0		A	131103621	A	A	131103621	3	1	142	1	0	0	0	0	1	0	0	0	7736	1145	40	1	651	1	IMP4	2	131103621	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	28008066	131103621	112095752	39	75936											
LRP1B	53353	broad.mit.edu	37	chr2	141625248	141625248	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacattctgccctgtccacTtattggctttggacaatgtg	7	15	9	10	0	1	1	0	1	1	0	2	2	2	2	2	2	1	1	2	2	2	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:141625248T>G	uc002tvj.1	-	27	5462	c.4490A>C	c.(4489-4491)AAG>ACG	p.K1497T	LRP1B_uc010fnl.1_Missense_Mutation_p.K679T	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1497	Extracellular (Potential).|LDL-receptor class B 13.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CCCTGTCCACTTATTGGCTTT	0.488										TSP Lung(27;0.18)			7	272					0	0	0.335167	0	0		G	141625248	G	G	141625248	3	3	142	1	0	0	0	0	1	0	0	0	8973	1609	56	5	9569	5	LRP1B	2	141625248	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	10521627	141625248	101574125	40	75937											
LRP1B	53353	broad.mit.edu	37	chr2	141641574	141641574	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccatgctccacaaccacTtcaatggcactgacacctac	12	7	6	16	0	1	1	1	1	0	0	2	1	2	1	4	2	3	2	4	2	3	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:141641574T>A	uc002tvj.1	-	25	4953	c.3981A>T	c.(3979-3981)GAA>GAT	p.E1327D	LRP1B_uc010fnl.1_Missense_Mutation_p.E509D	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1327	Extracellular (Potential).|LDL-receptor class B 9.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CCACAACCACTTCAATGGCAC	0.473										TSP Lung(27;0.18)			56	95					0	0	0.870114	0	0		A	141641574	A	A	141641574	3	1	142	1	0	0	0	0	1	0	0	0	8973	1606	56	5	10086	5	LRP1B	2	141641574	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	16326	141641574	101557799	41	75938											
ARHGAP15	55843	broad.mit.edu	37	chr2	144276860	144276860	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttggctctcatctgcaCaaagtgtgtgaacgtgaaaa	12	13	9	7	1	2	2	1	2	2	0	3	2	2	2	0	1	2	2	0	1	4	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:144276860C>G	uc002tvm.3	+	10	1003	c.852C>G	c.(850-852)CAC>CAG	p.H284Q	ARHGAP15_uc002tvn.2_Missense_Mutation_p.H50Q	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	284	Rho-GAP.				regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		CTCATCTGCACAAAGTGTGTG	0.393													67	121					0	0	0.870114	0	0		G	144276860	G	G	144276860	3	3	142	1	0	0	0	0	1	0	0	0	866	477	17	5	886	5	ARHGAP15	2	144276860	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	2635286	144276860	98922513	42	75939											
SCN9A	6335	broad.mit.edu	37	chr2	167060511	167060511	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatcaaaaatattccatccTacagtgaagtagtagtgtct	16	12	6	7	0	2	1	1	1	1	0	4	1	4	1	2	0	1	2	2	0	8	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:167060511T>C	uc010fpl.2	-	26	5036	c.4695A>G	c.(4693-4695)GTA>GTG	p.V1565V	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1576	Helical; Name=S3 of repeat IV; (Potential).|IV.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	TATTCCATCCTACAGTGAAGT	0.303													7	20					0	0	0.307466	0	0		C	167060511	C	C	167060511	2	2	142	1	0	0	0	0	0	0	0	1	13950	1509	53	3		3	SCN9A	2	167060511	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	22783651	167060511	76138862	43	75940											
XIRP2	129446	broad.mit.edu	37	chr2	168099123	168099123	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcaagccatcatcagttgtGagtacctcttccacttcttg	8	15	6	12	0	5	1	3	1	2	0	6	1	6	1	3	0	2	2	3	0	2	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:168099123G>A	uc002udx.2	+	8	1239	c.1221G>A	c.(1219-1221)GTG>GTA	p.V407V	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.V232V|XIRP2_uc010fpq.2_Silent_p.V185V|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	232					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CATCAGTTGTGAGTACCTCTT	0.423													73	141					0	0	0.870114	0	0		A	168099123	A	A	168099123	2	1	142	1	0	0	0	0	0	0	0	1	17456	1277	45	4		4	XIRP2	2	168099123	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	1038612	168099123	75100250	44	75941											
TTN	7273	broad.mit.edu	37	chr2	179489281	179489281	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtacagtcatgtataacaAgttttctgaccctgccatca	11	12	8	10	0	3	1	2	1	1	0	3	1	3	1	2	1	3	3	2	1	4	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:179489281A>G	uc010zfg.1	-	191	37246	c.37022T>C	c.(37021-37023)CTT>CCT	p.L12341P	TTN_uc010zfh.1_Missense_Mutation_p.L6036P|TTN_uc010zfi.1_Missense_Mutation_p.L5969P|TTN_uc010zfj.1_Missense_Mutation_p.L5844P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13268							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGTATAACAAGTTTTCTGAC	0.383													59	112					0	0	0.870114	0	0		G	179489281	G	G	179489281	3	3	142	1	0	0	0	0	1	0	0	0	16761	72	3	3	63451	3	TTN	2	179489281	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	11390158	179489281	63710092	45	75942											
TTN	7273	broad.mit.edu	37	chr2	179498346	179498346	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacacttcaaagtaatcTcatccttctccactgcagtt	10	14	3	14	0	4	0	3	0	2	0	7	0	5	0	2	0	1	3	2	0	2	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:179498346T>G	uc010zfg.1	-	181	35260	c.35036A>C	c.(35035-35037)GAG>GCG	p.E11679A	TTN_uc010zfh.1_Missense_Mutation_p.E5374A|TTN_uc010zfi.1_Missense_Mutation_p.E5307A|TTN_uc010zfj.1_Missense_Mutation_p.E5182A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12606							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAAAGTAATCTCATCCTTCTC	0.373													32	39					0	0	0.760397	0	0		G	179498346	G	G	179498346	3	3	142	1	0	0	0	0	1	0	0	0	16761	1551	54	5	65477	5	TTN	2	179498346	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	9065	179498346	63701027	46	75943											
TTN	7273	broad.mit.edu	37	chr2	179594182	179594182	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcgaatttccctgttattcTtcagccaagtgacttcaaac	10	15	5	11	1	3	1	2	1	1	0	5	2	4	1	2	0	2	1	2	0	4	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:179594182T>G	uc010zfg.1	-	61	15193	c.14969A>C	c.(14968-14970)AAG>ACG	p.K4990T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K1651T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5917							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCTGTTATTCTTCAGCCAAGT	0.448													74	106					0	0	0.870114	0	0		G	179594182	G	G	179594182	3	3	142	1	0	0	0	0	1	0	0	0	16761	1609	56	5	86024	5	TTN	2	179594182	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	95836	179594182	63605191	47	75944											
CCDC141	285025	broad.mit.edu	37	chr2	179720163	179720163	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagtcatccacatgtttttGcaaatccttcatgacttcca	12	14	4	11	0	2	1	2	1	0	0	5	1	5	1	3	0	1	2	3	0	2	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:179720163G>T	uc002unf.1	-	9	1303	c.1246C>A	c.(1246-1248)CAA>AAA	p.Q416K		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	416							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			ACATGTTTTTGCAAATCCTTC	0.338													45	87					3.05275e-18	3.17335e-18	0.864702	1	0		T	179720163	T	T	179720163	3	4	142	1	0	0	0	0	1	0	0	0	2778	1328	46	5	1401	5	CCDC141	2	179720163	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	125981	179720163	63479210	48	75945											
CCDC141	285025	broad.mit.edu	37	chr2	179736260	179736260	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcataagtgcttcctgaagaAgttttaagttgtgagaagtc	12	13	11	5	0	0	3	0	2	0	2	2	4	1	3	1	0	1	4	1	0	5	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:179736260A>C	uc002unf.1	-	4	431	c.374T>G	c.(373-375)CTT>CGT	p.L125R		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	125	Potential.						protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			TTCCTGAAGAAGTTTTAAGTT	0.408													102	180					0	0	0.870114	0	0		C	179736260	C	C	179736260	3	2	142	1	0	0	0	0	1	0	0	0	2778	72	3	5	2293	5	CCDC141	2	179736260	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	16097	179736260	63463113	49	75946											
MAP2	4133	broad.mit.edu	37	chr2	210557509	210557509	+	Missense_Mutation	SNP	A	C	C																															tctcagccagagacaactaaAacttaccctgataaaaagga																										TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:210557509A>C	uc002vde.1	+	7	863	c.615A>C	c.(613-615)AAA>AAC	p.K205N	MAP2_uc002vdc.1_Missense_Mutation_p.K205N|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.K201N	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	205					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	AGACAACTAAAACTTACCCTG	0.463													50	93					0	0	0.870114	0	0		C	210557509	C	C	210557509	3	2	142	1	0	0	0	0	1	0	0	0	9253	11	1	5	629	5	MAP2	2	210557509	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	30821249	210557509	32641864	50	75947	139	2									
MAP2	4133	broad.mit.edu	37	chr2	210557512	210557512	+	Silent	SNP	T	G	G																															cagccagagacaactaaaacTtaccctgataaaaaggacat																										TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:210557512T>G	uc002vde.1	+	7	866	c.618T>G	c.(616-618)ACT>ACG	p.T206T	MAP2_uc002vdc.1_Silent_p.T206T|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.T202T	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	206					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CAACTAAAACTTACCCTGATA	0.458													49	93					0	0	0.870114	0	0		G	210557512	G	G	210557512	2	3	142	1	0	0	0	0	0	0	0	1	9253	1596	56	5		5	MAP2	2	210557512	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	3	210557512	32641861	51	75948	139	2									
CPS1	1373	broad.mit.edu	37	chr2	211476868	211476869	+	Frame_Shift_Del	DEL	GA	-	-																															ctattggtcgtacctttgagGagagtttccagaaagcttta																										TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:211476868_211476869delGA	uc002vee.3	+	20	2551_2552	c.2419_2420delGA	c.(2419-2421)GAGfs	p.E807fs	CPS1_uc010fur.2_Frame_Shift_Del_p.E813fs|CPS1_uc010fus.2_Frame_Shift_Del_p.E356fs	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	807					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		TACCTTTGAGGAGAGTTTCCAG	0.396													146	299	---	---	---	---						.	-	211476869	-	-	211476868	7	5	142	1	0	1	0	1	0	0	0	0	3826	1175	41	0	2519	0	CPS1	2	211476868	Frame_Shift_Del	DEL	GA	TCGA-CG-4469-01A-01D-1158-08	919356	211476868	31722505	52	75949											
ERBB4	2066	broad.mit.edu	37	chr2	212589824	212589824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtctgtgtccttaggtcCtgagcagcctccagcacatt	7	11	10	13	0	1	1	0	1	1	0	4	1	4	1	4	1	3	3	4	1	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:212589824C>T	uc002veg.1	-	6	816	c.718G>A	c.(718-720)GGA>AGA	p.G240R	ERBB4_uc002veh.1_Missense_Mutation_p.G240R|ERBB4_uc010zji.1_Missense_Mutation_p.G240R|ERBB4_uc010zjj.1_Missense_Mutation_p.G240R|ERBB4_uc010fut.1_Missense_Mutation_p.G240R	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	240	Cys-rich.|Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TCCTTAGGTCCTGAGCAGCCT	0.478										TSP Lung(8;0.080)			27	86					0	0	0.740014	0	0		T	212589824	T	T	212589824	3	4	142	1	0	0	0	0	1	0	0	0	5217	690	24	4	3300	4	ERBB4	2	212589824	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1112956	212589824	30609549	53	75950											
OBSL1	23363	broad.mit.edu	37	chr2	220435229	220435229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagcggctccaccaccggCgcgggggcctcgtcggggtc	3	6	17	15	6	0	1	0	1	0	0	4	1	1	1	4	6	1	1	4	6	0	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr2:220435229C>T	uc010fwk.2	-	1	783	c.726G>A	c.(724-726)GCG>GCA	p.A242A	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Silent_p.A242A|OBSL1_uc002vmj.2_Intron|INHA_uc002vmk.1_5'Flank	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	242					cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		CCACCACCGGCGCGGGGGCCT	0.746													28	37					0	0	0.769981	0	0		T	220435229	T	T	220435229	2	4	142	1	0	0	0	0	0	0	0	1	10832	755	27	1		1	OBSL1	2	220435229	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	7845405	220435229	22764144	54	75951											
CHL1	10752	broad.mit.edu	37	chr3	447213	447213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctctcaaaggaagccttcGgtcccttaatagggatatgc	10	10	10	11	1	1	0	1	0	1	0	4	2	2	2	3	3	2	0	3	3	5	4	rs139892128		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:447213G>A	uc003bou.2	+	27	3717	c.3446G>A	c.(3445-3447)CGG>CAG	p.R1149Q	CHL1_uc003bot.2_Missense_Mutation_p.R1165Q|CHL1_uc011asi.1_Missense_Mutation_p.R1112Q	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	1149	Cytoplasmic (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		GGAAGCCTTCGGTCCCTTAAT	0.388													48	73					0	0	0.870114	0	0		A	447213	A	A	447213	3	1	142	1	0	0	0	0	1	0	0	0	3352	1116	39	1	3596	1	CHL1	3	447213	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08		447213	197575217	55	75952											
ZCWPW2	152098	broad.mit.edu	37	chr3	28562499	28562499	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagttgtctgtgagacggaAgttttactaaaagagctgga	12	13	12	4	1	1	2	0	1	1	2	1	5	1	4	0	2	2	3	0	2	5	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:28562499A>C	uc003ceh.2	+	9	969	c.801A>C	c.(799-801)GAA>GAC	p.E267D	ZCWPW2_uc003cei.2_Missense_Mutation_p.E267D|ZCWPW2_uc010hfo.2_Missense_Mutation_p.E72D	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	267							zinc ion binding			ovary(2)	2						GTGAGACGGAAGTTTTACTAA	0.378													27	45					0	0	0.667858	0	0		C	28562499	C	C	28562499	3	2	142	1	0	0	0	0	1	0	0	0	17623	69	3	5	827	5	ZCWPW2	3	28562499	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	28115286	28562499	169459931	56	75953											
TRANK1	9881	broad.mit.edu	37	chr3	36898370	36898370	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatcagccagtttgcagTgatctaagacgatgtcccaa	12	10	10	9	1	2	2	1	1	1	1	3	4	3	3	2	1	2	2	2	1	3	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:36898370T>A	uc003cgj.2	-	3	1363	c.1061A>T	c.(1060-1062)CAC>CTC	p.H354L		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	904					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						CAGTTTGCAGTGATCTAAGAC	0.502													46	70					0	0	0.864702	0	0		A	36898370	A	A	36898370	3	1	142	1	0	0	0	0	1	0	0	0	16480	1696	59	5	6114	5	TRANK1	3	36898370	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	8335871	36898370	161124060	57	75954											
CTNNB1	1499	broad.mit.edu	37	chr3	41275180	41275180	+	Frame_Shift_Del	DEL	G	-	-																															tggtatagaggctcttgtgcGtactgtccttcgggctggtg																										TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:41275180delG	uc010hia.1	+	10	1502	c.1346delG	c.(1345-1347)CGTfs	p.R449fs	CTNNB1_uc003ckp.2_Frame_Shift_Del_p.R449fs|CTNNB1_uc003ckq.2_Frame_Shift_Del_p.R449fs|CTNNB1_uc003ckr.2_Frame_Shift_Del_p.R449fs|CTNNB1_uc011azf.1_Frame_Shift_Del_p.R442fs|CTNNB1_uc011azg.1_Frame_Shift_Del_p.R377fs|CTNNB1_uc003cks.2_Frame_Shift_Del_p.R52fs|CTNNB1_uc003ckt.1_5'Flank	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	449	ARM 8.				adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	GCTCTTGTGCGTACTGTCCTT	0.512		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				113	168	---	---	---	---						.	-	41275180	-	-	41275180	7	5	142	1	0	1	0	1	0	0	0	0	4019	1145	40	0	1376	0	CTNNB1	3	41275180	Frame_Shift_Del	DEL	G	TCGA-CG-4469-01A-01D-1158-08	4376810	41275180	156747250	58	75955											
CCDC13	152206	broad.mit.edu	37	chr3	42793433	42793433	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagagaattcataccaatgCtctgtctcccatctgggccc	10	10	8	13	0	4	1	1	0	3	1	5	3	4	1	3	1	2	1	3	1	4	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:42793433C>A	uc003cly.3	-	5	682	c.598G>T	c.(598-600)GCA>TCA	p.A200S	CCDC13_uc003clz.2_Missense_Mutation_p.A200S|CCDC13_uc011azq.1_Missense_Mutation_p.A200S	NM_144719	NP_653320	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13	200	Potential.									ovary(1)	1						CATACCAATGCTCTGTCTCCC	0.607													46	62					2.27781e-18	2.37366e-18	0.870114	1	0		A	42793433	A	A	42793433	3	1	142	1	0	0	0	0	1	0	0	0	2768	797	28	5	1597	5	CCDC13	3	42793433	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1518253	42793433	155228997	59	75956											
LAMB2	3913	broad.mit.edu	37	chr3	49160671	49160671	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtcctccttctgagcaTccatcagtgcctctgtccga	7	12	8	14	1	3	2	1	2	2	0	7	3	7	2	5	0	2	1	5	0	1	1	rs112933248		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:49160671T>C	uc003cwe.2	-	26	4417	c.4118A>G	c.(4117-4119)GAT>GGT	p.D1373G	USP19_uc003cvz.3_5'Flank|USP19_uc011bcg.1_5'Flank|USP19_uc003cwb.2_5'Flank|USP19_uc003cwd.1_5'Flank|USP19_uc011bch.1_5'Flank|USP19_uc011bci.1_5'Flank	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1373	Domain II.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CTTCTGAGCATCCATCAGTGC	0.567													4	188					0	0	0.184627	0	0		C	49160671	C	C	49160671	3	2	142	1	0	0	0	0	1	0	0	0	8627	1435	50	3	1306	3	LAMB2	3	49160671	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	6367238	49160671	148861759	60	75957											
DNAH1	25981	broad.mit.edu	37	chr3	52404576	52404576	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttctccctgatctggagCgtgggtgccactggggacag	6	10	14	11	1	3	1	0	1	3	0	4	3	3	3	2	4	2	0	2	4	0	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:52404576C>T	uc011bef.1	+	40	6603	c.6342C>T	c.(6340-6342)AGC>AGT	p.S2114S		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2114					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TGATCTGGAGCGTGGGTGCCA	0.587													16	14					0	0	0.500413	0	0		T	52404576	T	T	52404576	2	4	142	1	0	0	0	0	0	0	0	1	4603	767	27	1		1	DNAH1	3	52404576	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	3243905	52404576	145617854	61	75958											
PTPRG	5793	broad.mit.edu	37	chr3	62216974	62216974	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcttctggggagagaggagaGaaggggagcaggtgaggggc	10	5	22	4	0	2	3	0	1	2	2	2	8	2	6	0	8	1	1	0	8	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:62216974G>C	uc003dlb.2	+	14	3083	c.2364G>C	c.(2362-2364)GAG>GAC	p.E788D	PTPRG_uc003dlc.2_Intron|PTPRG_uc011bfi.1_Intron	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	788	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		AGAGAGGAGAGAAGGGGAGCA	0.498													27	58					0	0	0.740014	0	0		C	62216974	C	C	62216974	3	2	142	1	0	0	0	0	1	0	0	0	12827	933	33	5	2418	5	PTPRG	3	62216974	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	9812398	62216974	135805456	62	75959											
CADPS	8618	broad.mit.edu	37	chr3	62535631	62535631	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttcctcccttggcgttgAgtttctggacttgggtcggg	3	15	13	10	2	1	1	0	1	1	0	4	2	3	2	2	4	0	2	2	4	0	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:62535631A>C	uc003dll.2	-	11	2273	c.1913T>G	c.(1912-1914)CTC>CGC	p.L638R	CADPS_uc003dlk.1_Missense_Mutation_p.L142R|CADPS_uc003dlm.2_Missense_Mutation_p.L638R|CADPS_uc003dln.2_Missense_Mutation_p.L638R	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	638					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		CTTGGCGTTGAGTTTCTGGAC	0.507													75	135					0	0	0.870114	0	0		C	62535631	C	C	62535631	3	2	142	1	0	0	0	0	1	0	0	0	2573	304	11	5	2301	5	CADPS	3	62535631	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	318657	62535631	135486799	63	75960											
OR5H14	403273	broad.mit.edu	37	chr3	97869148	97869148	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattcacaaaaatgttcaaaAgaaatgatgtttagatcatt	18	13	5	5	0	3	3	3	1	0	2	3	3	3	3	0	0	0	2	0	0	6	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:97869148A>T	uc003dsg.1	+	1	919	c.919A>T	c.(919-921)AGA>TGA	p.R307*		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	307	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AATGTTCAAAAGAAATGATGT	0.303													13	26					0	0	0.500413	0	0		T	97869148	T	T	97869148	4	4	142	1	0	0	0	0	0	1	0	0	11179	64	3	5	921	5	OR5H14	3	97869148	Nonsense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	35333517	97869148	100153282	64	75961											
POLQ	10721	broad.mit.edu	37	chr3	121258317	121258317	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttcctctatgaggcgattGatcagaccattggctctctc	7	15	8	11	1	3	3	1	2	2	1	6	4	4	3	2	2	0	1	2	2	1	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:121258317G>A	uc003eee.3	-	4	723	c.594C>T	c.(592-594)ATC>ATT	p.I198I		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	198	Helicase ATP-binding.				DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TGAGGCGATTGATCAGACCAT	0.378								DNA_polymerases_(catalytic_subunits)					60	98					0	0	0.870114	0	0		A	121258317	A	A	121258317	2	1	142	1	0	0	0	0	0	0	0	1	12227	1280	45	4		4	POLQ	3	121258317	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	23389169	121258317	76764113	65	75962											
GOLGB1	2804	broad.mit.edu	37	chr3	121415806	121415806	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgccttgcgggaggttaaGgcttcctgtagcttcttttg	5	16	12	8	1	1	0	0	0	1	0	2	1	2	1	2	3	3	4	2	3	2	8			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:121415806G>C	uc003eei.3	-	13	3675	c.3549C>G	c.(3547-3549)GCC>GCG	p.A1183A	GOLGB1_uc010hrc.2_Silent_p.A1188A|GOLGB1_uc003eej.3_Silent_p.A1149A|GOLGB1_uc011bjm.1_Silent_p.A1069A|GOLGB1_uc010hrd.1_Silent_p.A1147A	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1183	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		GGGAGGTTAAGGCTTCCTGTA	0.423													187	248					0	0	0.870114	0	0		C	121415806	C	C	121415806	2	2	142	1	0	0	0	0	0	0	0	1	6580	987	35	5		5	GOLGB1	3	121415806	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	157489	121415806	76606624	66	75963											
ZIC4	84107	broad.mit.edu	37	chr3	147114142	147114142	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggagccccagacgcaggAgtccattcaaaggacggctg	11	4	14	12	2	1	1	1	0	0	1	2	4	2	4	3	4	1	2	3	4	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:147114142A>G	uc003ewd.1	-	3	458	c.185T>C	c.(184-186)CTC>CCC	p.L62P	ZIC4_uc003ewc.1_5'UTR|ZIC4_uc011bno.1_Missense_Mutation_p.L112P	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	62						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						CAGACGCAGGAGTCCATTCAA	0.741													8	26					0	0	0.307466	0	0		G	147114142	G	G	147114142	3	3	142	1	0	0	0	0	1	0	0	0	17706	304	11	3	831	3	ZIC4	3	147114142	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	25698336	147114142	50908288	67	75964											
MED12L	116931	broad.mit.edu	37	chr3	151129179	151129179	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tataactccagagcctatccGgccgcacattccaaccccgt	10	8	6	17	3	0	1	0	0	0	1	3	1	3	1	7	1	3	1	7	1	4	4	rs143048351		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:151129179G>A	uc003eyp.2	+	39	5957	c.5919G>A	c.(5917-5919)CCG>CCA	p.P1973P	MED12L_uc011bnz.1_Intron	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1973	Gln-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GAGCCTATCCGGCCGCACATT	0.572													59	107					0	0	0.870114	0	0		A	151129179	A	A	151129179	2	1	142	1	0	0	0	0	0	0	0	1	9447	1103	39	1		1	MED12L	3	151129179	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	4015037	151129179	46893251	68	75965											
IGSF10	285313	broad.mit.edu	37	chr3	151161049	151161049	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaagtcccatttgaaaataAgaacaacttggaattggtaa	18	10	7	6	0	0	2	0	1	0	1	1	3	1	3	1	2	2	1	1	2	8	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:151161049A>C	uc011bod.1	-	5	5686	c.5686T>G	c.(5686-5688)TTA>GTA	p.L1896V	IGSF10_uc011bob.1_5'Flank|IGSF10_uc011boc.1_5'Flank	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1896	Ig-like C2-type 5.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TTTGAAAATAAGAACAACTTG	0.453													60	105					0	0	0.870114	0	0		C	151161049	C	C	151161049	3	2	142	1	0	0	0	0	1	0	0	0	7613	69	3	5	2241	5	IGSF10	3	151161049	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	31870	151161049	46861381	69	75966											
WDR49	151790	broad.mit.edu	37	chr3	167245795	167245795	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgttcttactggagttaAgacagtactcctgaatgaaa	12	15	8	6	0	1	3	0	2	1	1	2	4	2	4	1	1	2	3	1	1	5	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:167245795A>C	uc003fev.1	-	11	1667	c.1361T>G	c.(1360-1362)CTT>CGT	p.L454R	WDR49_uc003feu.1_Missense_Mutation_p.L279R|WDR49_uc011bpd.1_Intron|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	454	WD 7.									large_intestine(1)|ovary(1)|skin(1)	3						ACTGGAGTTAAGACAGTACTC	0.358													38	91					0	0	0.819951	0	0		C	167245795	C	C	167245795	3	2	142	1	0	0	0	0	1	0	0	0	17328	72	3	5	752	5	WDR49	3	167245795	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	16084746	167245795	30776635	70	75967											
NAALADL2	254827	broad.mit.edu	37	chr3	174814756	174814756	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtgctgagaatcagaacCtagggcattcagagactata	14	8	11	8	1	2	3	2	1	0	3	2	5	2	3	1	2	2	2	1	2	5	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:174814756C>G	uc003fit.2	+	2	307	c.220C>G	c.(220-222)CTA>GTA	p.L74V	NAALADL2_uc003fiu.1_Missense_Mutation_p.L67V	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	74	Cytoplasmic (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		GAATCAGAACCTAGGGCATTC	0.463													30	45					0	0	0.706142	0	0		G	174814756	G	G	174814756	3	3	142	1	0	0	0	0	1	0	0	0	10148	680	24	5	226	5	NAALADL2	3	174814756	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	7568961	174814756	23207674	71	75968											
USP13	8975	broad.mit.edu	37	chr3	179424791	179424791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcaggacccagacacgtggGaaaatgaattgccagtatct	14	7	11	9	1	1	2	0	1	1	1	1	4	1	4	2	2	2	2	2	2	4	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr3:179424791G>A	uc003fkh.2	+	5	628	c.547G>A	c.(547-549)GAA>AAA	p.E183K	USP13_uc003fkf.2_Missense_Mutation_p.E183K	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	183					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			AGACACGTGGGAAAATGAATT	0.423													45	50					0	0	0.859065	0	0		A	179424791	A	A	179424791	3	1	142	1	0	0	0	0	1	0	0	0	17070	1175	41	4	565	4	USP13	3	179424791	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	4610035	179424791	18597639	72	75969											
HGFAC	3083	broad.mit.edu	37	chr4	3446111	3446111	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcgtgcgccagggccaCgtggaacagtgcgagtgctt	6	6	16	13	5	0	0	0	0	0	0	0	2	0	1	3	2	4	1	3	2	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:3446111C>T	uc003ghc.2	+	6	675	c.672C>T	c.(670-672)CAC>CAT	p.H224H	HGFAC_uc010icw.2_Silent_p.H224H	NM_001528	NP_001519	Q04756	HGFA_HUMAN	HGF activator preproprotein	224	Fibronectin type-I.				proteolysis	extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(2)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		GCCAGGGCCACGTGGAACAGT	0.672													8	3					0	0	0.307466	0	0		T	3446111	T	T	3446111	2	4	142	1	0	0	0	0	0	0	0	1	7102	535	19	1		1	HGFAC	4	3446111	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08		3446111	187708165	73	75970											
C4orf50	389197	broad.mit.edu	37	chr4	5975440	5975440	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactcagccagtgccacgtcGttgagcatgttctgcgccag	7	10	11	13	3	2	1	1	1	1	0	3	1	2	1	3	0	5	3	3	0	1	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:5975440G>A	uc003git.1	-	4	444	c.354C>T	c.(352-354)AAC>AAT	p.N118N		NM_207405	NP_997288	Q6ZRC1	CD050_HUMAN	hypothetical protein LOC389197	118										pancreas(2)|breast(1)	3						GTGCCACGTCGTTGAGCATGT	0.632													120	72					0	0	0.870114	0	0		A	5975440	A	A	5975440	2	1	142	1	0	0	0	0	0	0	0	1	2279	1136	40	1		1	C4orf50	4	5975440	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	2529329	5975440	185178836	74	75971											
BEND4	389206	broad.mit.edu	37	chr4	42122308	42122308	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgttcaacagctgcttgcTtccctggaaaagcgaaatat	11	12	9	9	1	1	0	1	0	0	0	2	2	2	1	1	1	5	5	1	1	5	5	rs147406283	by1000genomes	TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:42122308T>G	uc003gwn.2	-	5	1730	c.1150A>C	c.(1150-1152)AGC>CGC	p.S384R	BEND4_uc003gwm.2_Missense_Mutation_p.S384R|BEND4_uc011byy.1_Missense_Mutation_p.S384R	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	384											0						AGCTGCTTGCTTCCCTGGAAA	0.438													56	31					0	0	0.870114	0	0		G	42122308	G	G	42122308	3	3	142	1	0	0	0	0	1	0	0	0	1401	1609	56	5	462	5	BEND4	4	42122308	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	36146868	42122308	149031968	75	75972											
GUF1	60558	broad.mit.edu	37	chr4	44682845	44682845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaagcagtaccttttaaatCtcattgatacaccggtaagt	14	12	7	8	1	1	1	1	1	1	0	2	2	1	1	2	1	3	3	2	1	6	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:44682845C>T	uc003gww.3	+	3	619	c.412C>T	c.(412-414)CTC>TTC	p.L138F	GUF1_uc010ifz.1_RNA	NM_021927	NP_068746	Q8N442	GUF1_HUMAN	GUF1 GTPase homolog	138					translation	mitochondrial inner membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)	1						CCTTTTAAATCTCATTGATAC	0.254													39	15					0	0	0.859065	0	0		T	44682845	T	T	44682845	3	4	142	1	0	0	0	0	1	0	0	0	6915	913	32	4	422	4	GUF1	4	44682845	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	2560537	44682845	146471431	76	75973											
TMPRSS11F	389208	broad.mit.edu	37	chr4	68939662	68939662	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaccaaatttacatacctTaatttgataacatgagattt	17	15	3	6	0	0	2	0	2	0	1	0	3	0	2	2	0	4	0	2	0	7	8			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:68939662T>G	uc003hdt.1	-	4	397	c.348A>C	c.(346-348)TTA>TTC	p.L116F	LOC550112_uc003hdl.3_Intron	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	116	SEA.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						TTACATACCTTAATTTGATAA	0.313													4	6					0	0	0.150653	0	0		G	68939662	G	G	68939662	3	3	142	1	0	0	0	0	1	0	0	0	16268	1751	61	5	996	5	TMPRSS11F	4	68939662	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	24256817	68939662	122214614	77	75974											
UGT2B10	7365	broad.mit.edu	37	chr4	69875659	69875659	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtcattctggggtatccaCctgtacagccgagtattgag	9	11	12	9	1	2	1	1	1	1	0	3	2	3	1	3	3	2	3	3	3	3	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:69875659C>T	uc011cao.1	-	7	1087	c.951G>A	c.(949-951)AAG>AAA	p.K317K	UGT2B10_uc011can.1_Silent_p.K233K			P36537	UDB10_HUMAN	RecName: Full=UDP-glucuronosyltransferase 2B28;          Short=UDPGT 2B28;          EC=2.4.1.17; Flags: Precursor;	354					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						GGGGTATCCACCTGTACAGCC	0.383													66	157					0	0	0.870114	0	0		T	69875659	T	T	69875659	2	4	142	1	0	0	0	0	0	0	0	1	16982	506	18	4		4	UGT2B10	4	69875659	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	935997	69875659	121278617	78	75975											
PROL1	58503	broad.mit.edu	37	chr4	71275771	71275771	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaaaagtttttggcaaaaActctttgccatttttggttg	10	19	7	5	0	1	0	0	0	1	0	1	0	1	0	1	2	2	3	1	2	4	8			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:71275771A>C	uc003hfi.2	+	3	900	c.726A>C	c.(724-726)AAA>AAC	p.K242N		NM_021225	NP_067048	Q99935	PROL1_HUMAN	proline rich, lacrimal 1	242					regulation of sensory perception of pain	extracellular region	endopeptidase inhibitor activity			large_intestine(1)	1		all_hematologic(202;0.196)				TTTGGCAAAAACTCTTTGCCA	0.378													36	39					0	0	0.788014	0	0		C	71275771	C	C	71275771	3	2	142	1	0	0	0	0	1	0	0	0	12576	40	2	5	732	5	PROL1	4	71275771	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	1400112	71275771	119878505	79	75976											
ADAMTS3	9508	broad.mit.edu	37	chr4	73154509	73154509	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctctgaccgactcaggcTtttcaccatcacagtggtcc	8	10	9	14	1	4	1	3	1	1	0	5	2	5	1	3	3	0	2	3	3	0	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:73154509T>G	uc003hgk.1	-	21	3045	c.3008A>C	c.(3007-3009)AAG>ACG	p.K1003T		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1003	TSP type-1 4.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CGACTCAGGCTTTTCACCATC	0.512													3	59					0	0	0.115264	0	0		G	73154509	G	G	73154509	3	3	142	1	0	0	0	0	1	0	0	0	267	1609	56	5	617	5	ADAMTS3	4	73154509	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	1878738	73154509	117999767	80	75977											
FRAS1	80144	broad.mit.edu	37	chr4	79186217	79186217	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccctggaaaatgttgcccGcagtgctctgcaagatcctg	8	10	11	12	1	1	1	0	0	1	1	3	2	3	2	3	1	3	4	3	1	3	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:79186217G>A	uc003hlb.2	+	7	1082	c.642G>A	c.(640-642)CCG>CCA	p.P214P	FRAS1_uc003hkw.2_Silent_p.P214P|FRAS1_uc003hky.1_5'UTR|FRAS1_uc003hkz.2_5'UTR	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	214	VWFC 3.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						AATGTTGCCCGCAGTGCTCTG	0.478													12	15					0	0	0.38729	0	0		A	79186217	A	A	79186217	2	1	142	1	0	0	0	0	0	0	0	1	6056	1074	38	1		1	FRAS1	4	79186217	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	6031708	79186217	111968059	81	75978											
UNC5C	8633	broad.mit.edu	37	chr4	96171665	96171665	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgacagtggcagttgtacTtttcctcttggcaacaatgt	9	15	9	8	0	1	1	0	1	1	0	2	1	2	1	1	2	2	4	1	2	4	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:96171665T>C	uc003htp.1	-	5	902	c.748A>G	c.(748-750)AGT>GGT	p.S250G	UNC5C_uc010ilc.1_Missense_Mutation_p.S250G|UNC5C_uc003htq.2_Missense_Mutation_p.S250G	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	250	Extracellular (Potential).|Ig-like C2-type.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		GCAGTTGTACTTTTCCTCTTG	0.423													33	74					0	0	0.827153	0	0		C	96171665	C	C	96171665	3	2	142	1	0	0	0	0	1	0	0	0	17019	1609	56	3	2095	3	UNC5C	4	96171665	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	16985448	96171665	94982611	82	75979											
FAT4	79633	broad.mit.edu	37	chr4	126237930	126237930	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacctaccccaccgaagtgCgagtgctggtgcgggacctc	7	6	12	16	3	0	0	0	0	0	0	1	3	0	1	6	2	4	1	6	2	2	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:126237930C>T	uc003ifj.3	+	1	364	c.364C>T	c.(364-366)CGA>TGA	p.R122*		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	122	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CACCGAAGTGCGAGTGCTGGT	0.617											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	32					0	0	0.457914	0	0		T	126237930	T	T	126237930	4	4	142	1	0	0	0	0	0	1	0	0	5706	760	27	1	366	1	FAT4	4	126237930	Nonsense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	30066265	126237930	64916346	83	75980											
FAT4	79633	broad.mit.edu	37	chr4	126336095	126336095	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgatagccttgggcagtttActgttgacaagaatggtgta	10	13	13	5	0	0	3	0	2	0	1	0	3	0	3	1	2	2	4	1	2	5	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:126336095A>C	uc003ifj.3	+	5	5977	c.5977A>C	c.(5977-5979)ACT>CCT	p.T1993P	FAT4_uc011cgp.1_Missense_Mutation_p.T291P	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1993	Cadherin 19.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGGGCAGTTTACTGTTGACAA	0.393													119	197					0	0	0.870114	0	0		C	126336095	C	C	126336095	3	2	142	1	0	0	0	0	1	0	0	0	5706	391	14	5	5995	5	FAT4	4	126336095	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	98165	126336095	64818181	84	75981											
FAT4	79633	broad.mit.edu	37	chr4	126372808	126372808	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatcaaggtccctttacttAttacttgctgagcacaggtc	11	13	7	10	0	1	1	1	1	0	0	3	1	2	1	1	2	4	2	1	2	5	5	rs79726583		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:126372808A>C	uc003ifj.3	+	9	10637	c.10637A>C	c.(10636-10638)TAT>TCT	p.Y3546S	FAT4_uc011cgp.1_Missense_Mutation_p.Y1844S|FAT4_uc003ifi.1_Missense_Mutation_p.Y1024S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3546	Cadherin 34.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CCCTTTACTTATTACTTGCTG	0.493													112	164					0	0	0.870114	0	0		C	126372808	C	C	126372808	3	2	142	1	0	0	0	0	1	0	0	0	5706	449	16	5	10671	5	FAT4	4	126372808	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	36713	126372808	64781468	85	75982											
FAT4	79633	broad.mit.edu	37	chr4	126411765	126411765	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttatctatgatgaaacTgatattcctcacaactcaga	14	13	4	10	0	3	4	2	3	1	1	4	4	4	4	2	0	3	0	2	0	6	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:126411765T>C	uc003ifj.3	+	17	13788	c.13788T>C	c.(13786-13788)ACT>ACC	p.T4596T	FAT4_uc011cgp.1_Silent_p.T2837T|FAT4_uc003ifi.1_Silent_p.T2073T	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4596	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ATGATGAAACTGATATTCCTC	0.498													38	97					0	0	0.812448	0	0		C	126411765	C	C	126411765	2	2	142	1	0	0	0	0	0	0	0	1	5706	1567	55	3		3	FAT4	4	126411765	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	38957	126411765	64742511	86	75983											
NR3C2	4306	broad.mit.edu	37	chr4	149035392	149035392	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttcaaatgcagcctggcTtttgaggccatcctttggaa	8	14	9	10	0	2	1	1	1	1	0	3	2	3	2	3	3	2	2	3	3	2	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:149035392T>C	uc003ilj.3	-	8	2996	c.2662A>G	c.(2662-2664)AGC>GGC	p.S888G	NR3C2_uc003ilk.3_Missense_Mutation_p.S771G|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	888	Steroid-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	GCAGCCTGGCTTTTGAGGCCA	0.413													20	28					0	0	0.557998	0	0		C	149035392	C	C	149035392	3	2	142	1	0	0	0	0	1	0	0	0	10650	1609	56	3	300	3	NR3C2	4	149035392	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	22623627	149035392	42118884	87	75984											
DCHS2	54798	broad.mit.edu	37	chr4	155252779	155252779	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttgagaacaaaggcttgaAgttcatcagaactgaatgca	16	9	9	7	0	2	4	2	3	0	2	2	5	2	4	0	1	3	3	0	1	5	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:155252779A>T	uc003inw.2	-	10	2321	c.2321T>A	c.(2320-2322)CTT>CAT	p.L774H	DCHS2_uc003inx.2_Intron	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	774	Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AAAGGCTTGAAGTTCATCAGA	0.303													10	27					0	0	0.361761	0	0		T	155252779	T	T	155252779	3	4	142	1	0	0	0	0	1	0	0	0	4291	72	3	5	6589	5	DCHS2	4	155252779	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	6217387	155252779	35901497	88	75985											
ADAM29	11086	broad.mit.edu	37	chr4	175898835	175898835	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctgcaaaagaagaggaaaAaattcagcgtcgacctcatg	17	7	9	8	2	3	2	2	0	1	2	4	4	3	3	1	1	2	1	1	1	6	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr4:175898835A>C	uc003iuc.2	+	5	2829	c.2159A>C	c.(2158-2160)AAA>ACA	p.K720T	ADAM29_uc003iud.2_Missense_Mutation_p.K720T|ADAM29_uc010irr.2_Missense_Mutation_p.K720T|ADAM29_uc011cki.1_Missense_Mutation_p.K720T	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	720	Cytoplasmic (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		GAAGAGGAAAAAATTCAGCGT	0.413													50	73					0	0	0.870114	0	0		C	175898835	C	C	175898835	3	2	142	1	0	0	0	0	1	0	0	0	247	14	1	5	2161	5	ADAM29	4	175898835	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	20646056	175898835	15255441	89	75986											
KIAA0947	23379	broad.mit.edu	37	chr5	5462906	5462906	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagaggtaggttatttgacGtcagctctgcaagattttaa	11	15	10	5	1	2	3	1	1	1	2	2	3	2	3	0	2	2	4	0	2	5	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:5462906G>A	uc003jdm.3	+	13	3681	c.3459G>A	c.(3457-3459)ACG>ACA	p.T1153T		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1153										ovary(1)|central_nervous_system(1)	2						GTTATTTGACGTCAGCTCTGC	0.438													15	26					0	0	0.520397	0	0		A	5462906	A	A	5462906	2	1	142	1	0	0	0	0	0	0	0	1	8218	1132	40	1		1	KIAA0947	5	5462906	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08		5462906	175452354	90	75987											
CTNND2	1501	broad.mit.edu	37	chr5	10973668	10973668	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacgtagttgccggtggacTtgagacccaggtgcatggtg	8	9	15	9	2	0	1	0	1	0	1	0	3	0	2	2	4	3	3	2	4	2	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:10973668T>G	uc003jfa.1	-	22	3720	c.3575A>C	c.(3574-3576)AAG>ACG	p.K1192T	CTNND2_uc010itt.2_Missense_Mutation_p.K1101T|CTNND2_uc011cmy.1_Missense_Mutation_p.K855T|CTNND2_uc011cmz.1_Missense_Mutation_p.K759T|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.K784T	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	1192					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GCCGGTGGACTTGAGACCCAG	0.562													67	89					0	0	0.870114	0	0		G	10973668	G	G	10973668	3	3	142	1	0	0	0	0	1	0	0	0	4023	1609	56	5	106	5	CTNND2	5	10973668	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	5510762	10973668	169941592	91	75988											
BDP1	55814	broad.mit.edu	37	chr5	70860616	70860616	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccttactgaaagaaggataTaaaagtgcccaaaagcgggc	16	6	10	9	1	0	2	0	1	0	1	0	3	0	3	2	2	3	0	2	2	8	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:70860616T>C	uc003kbp.1	+	39	8042	c.7779T>C	c.(7777-7779)TAT>TAC	p.Y2593Y	BDP1_uc003kbq.1_RNA|BDP1_uc003kbr.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	2593					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AAGAAGGATATAAAAGTGCCC	0.333													109	183					0	0	0.870114	0	0		C	70860616	C	C	70860616	2	2	142	1	0	0	0	0	0	0	0	1	1396	1413	49	3		3	BDP1	5	70860616	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	59886948	70860616	110054644	92	75989											
CMYA5	202333	broad.mit.edu	37	chr5	79030171	79030171	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacttatgagagagaatttGcctttggaacaatcaaaatc	15	12	7	7	0	2	2	2	1	0	2	3	5	2	3	1	1	2	0	1	1	6	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:79030171G>T	uc003kgc.2	+	2	5655	c.5583G>T	c.(5581-5583)TTG>TTT	p.L1861F		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1861						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GAGAGAATTTGCCTTTGGAAC	0.343													40	74					1.17962e-10	1.21423e-10	0.840704	1	0		T	79030171	T	T	79030171	3	4	142	1	0	0	0	0	1	0	0	0	3593	1310	46	5	5589	5	CMYA5	5	79030171	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	8169555	79030171	101885089	93	75990											
CMYA5	202333	broad.mit.edu	37	chr5	79034232	79034232	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagacagcttctgaaggtgAcagtgtgaattctgaggcat	11	10	14	6	0	2	5	0	4	2	1	2	6	2	5	0	3	1	2	0	3	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:79034232A>G	uc003kgc.2	+	2	9716	c.9644A>G	c.(9643-9645)GAC>GGC	p.D3215G		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3215						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TCTGAAGGTGACAGTGTGAAT	0.403													28	48					0	0	0.729181	0	0		G	79034232	G	G	79034232	3	3	142	1	0	0	0	0	1	0	0	0	3593	275	10	3	9650	3	CMYA5	5	79034232	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	4061	79034232	101881028	94	75991											
CMYA5	202333	broad.mit.edu	37	chr5	79095378	79095378	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgcctttgccctggagaAacctggaaaatgtactttgc	9	11	9	12	0	0	1	0	0	0	1	0	3	0	2	4	2	5	1	4	2	4	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:79095378A>G	uc003kgc.2	+	13	12221	c.12149A>G	c.(12148-12150)AAA>AGA	p.K4050R		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	4050	B30.2/SPRY.			K -> E (in Ref. 2; CAD38607).		perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GCCCTGGAGAAACCTGGAAAA	0.483													24	33					0	0	0.639603	0	0		G	79095378	G	G	79095378	3	3	142	1	0	0	0	0	1	0	0	0	3593	14	1	3	12199	3	CMYA5	5	79095378	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	61146	79095378	101819882	95	75992											
VCAN	1462	broad.mit.edu	37	chr5	82817020	82817020	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcacccaagagcctactacTtatgtagactcttcccatac	12	10	5	14	0	1	2	0	0	1	2	2	2	2	2	3	0	5	2	3	0	6	6	rs141161041		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:82817020T>G	uc003kii.3	+	7	3251	c.2895T>G	c.(2893-2895)ACT>ACG	p.T965T	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Silent_p.T965T|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	965	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		AGCCTACTACTTATGTAGACT	0.433													100	134					0	0	0.870114	0	0		G	82817020	G	G	82817020	2	3	142	1	0	0	0	0	0	0	0	1	17164	1596	56	5		5	VCAN	5	82817020	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	3721642	82817020	98098240	96	75993											
VCAN	1462	broad.mit.edu	37	chr5	82817101	82817101	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtaccttctgttccatcAgaagatgaagttctaggtga	11	14	9	7	0	3	4	1	2	2	2	4	4	4	4	2	1	1	3	2	1	5	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:82817101A>C	uc003kii.3	+	7	3332	c.2976A>C	c.(2974-2976)TCA>TCC	p.S992S	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Silent_p.S992S|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	992	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CTGTTCCATCAGAAGATGAAG	0.428													54	78					0	0	0.870114	0	0		C	82817101	C	C	82817101	2	2	142	1	0	0	0	0	0	0	0	1	17164	175	7	5		5	VCAN	5	82817101	Silent	SNP	A	TCGA-CG-4469-01A-01D-1158-08	81	82817101	98098159	97	75994											
SLCO6A1	133482	broad.mit.edu	37	chr5	101735362	101735362	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatagcactttgcatcacAtttcccgggtctggcatcaa	9	13	7	12	1	3	0	2	0	1	0	4	0	4	0	1	2	2	3	1	2	3	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:101735362A>G	uc003knn.2	-	10	1883	c.1711T>C	c.(1711-1713)TGT>CGT	p.C571R	SLCO6A1_uc003kno.2_Missense_Mutation_p.C318R|SLCO6A1_uc003knp.2_Missense_Mutation_p.C571R|SLCO6A1_uc003knq.2_Missense_Mutation_p.C509R	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	571	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		TTTGCATCACATTTCCCGGGT	0.363													50	66					0	0	0.870114	0	0		G	101735362	G	G	101735362	3	3	142	1	0	0	0	0	1	0	0	0	14757	217	8	3	464	3	SLCO6A1	5	101735362	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	18918261	101735362	79179898	98	75995											
APC	324	broad.mit.edu	37	chr5	112175553	112175553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggcattataagccccaGtgatcttccagatagccctg	11	10	9	11	0	1	2	0	1	1	1	2	2	2	2	4	1	2	1	4	1	4	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:112175553G>A	uc010jby.2	+	16	4642	c.4262G>A	c.(4261-4263)AGT>AAT	p.S1421N	APC_uc011cvt.1_Missense_Mutation_p.S1403N|APC_uc003kpz.3_Missense_Mutation_p.S1421N|APC_uc003kpy.3_Missense_Mutation_p.S1421N|APC_uc010jbz.2_Missense_Mutation_p.S1138N|APC_uc010jca.2_Missense_Mutation_p.S721N	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1421	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.S1421fs*52(7)|p.D1422fs*2(2)|p.Y1376fs*41(1)|p.S1421fs*53(1)|p.?(1)|p.S1421fs*1(1)|p.S1411fs*41(1)|p.K1192fs*3(1)|p.S1421S(1)|p.D1422fs*1(1)|p.S1421fs*2(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		ATAAGCCCCAGTGATCTTCCA	0.473		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			43	62					0	0	0.853193	0	0		A	112175553	A	A	112175553	3	1	142	1	0	0	0	0	1	0	0	0	763	1029	36	4	4320	4	APC	5	112175553	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	10440191	112175553	68739707	99	75996											
KCNN2	3781	broad.mit.edu	37	chr5	113698592	113698592	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcagccccccgcgtctgtCggaggaggtggcggcgcgtc	3	6	17	15	6	1	0	0	0	1	0	3	2	1	2	3	5	2	1	3	5	0	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:113698592C>T	uc003kqo.2	+	1	577	c.120C>T	c.(118-120)GTC>GTT	p.V40V		NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	40						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		CCGCGTCTGTCGGAGGAGGTG	0.716													7	5					0	0	0.411799	0	0		T	113698592	T	T	113698592	2	4	142	1	0	0	0	0	0	0	0	1	8095	871	31	1		1	KCNN2	5	113698592	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1523039	113698592	67216668	100	75997											
KDM3B	51780	broad.mit.edu	37	chr5	137713489	137713489	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgctttgatcagtgaccaAaagctacaagagatattcag	16	10	8	7	0	2	3	2	2	0	1	2	4	2	3	1	0	3	2	1	0	6	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:137713489A>G	uc003lcy.1	+	4	755	c.555A>G	c.(553-555)CAA>CAG	p.Q185Q	KDM3B_uc010jew.1_5'UTR	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	185					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						TCAGTGACCAAAAGCTACAAG	0.408													62	118					0	0	0.870114	0	0		G	137713489	G	G	137713489	2	3	142	1	0	0	0	0	0	0	0	1	8143	11	1	3		3	KDM3B	5	137713489	Silent	SNP	A	TCGA-CG-4469-01A-01D-1158-08	24014897	137713489	43201771	101	75998											
PCDHA11	56138	broad.mit.edu	37	chr5	140250915	140250915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgctggtgtgctcccgcGcggtggggagctggtcatac	4	8	16	13	4	1	0	1	0	0	0	2	1	2	1	2	5	3	3	2	5	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:140250915G>A	uc003lia.2	+	1	3085	c.2227G>A	c.(2227-2229)GCG>ACG	p.A743T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.A743T	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	743	Cytoplasmic (Potential).|6 X 4 AA repeats of P-X-X-P.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCTCCCGCGCGGTGGGGAG	0.682													29	38					0	0	0.769981	0	0		A	140250915	A	A	140250915	3	1	142	1	0	0	0	0	1	0	0	0	11540	1087	38	1	2229	1	PCDHA11	5	140250915	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	2537426	140250915	40664345	102	75999											
PCDHA13	56136	broad.mit.edu	37	chr5	140262769	140262769	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggagaaattaggacaaaaGgcaaactagatttcgaagaa	20	7	10	4	1	0	3	0	0	0	3	1	6	0	4	0	3	1	1	0	3	8	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:140262769G>C	uc003lif.2	+	1	916	c.916G>C	c.(916-918)GGC>CGC	p.G306R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.G306R|PCDHA13_uc003lid.2_Missense_Mutation_p.G306R	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	306	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGGACAAAAGGCAAACTAGA	0.378													65	90					0	0	0.870114	0	0		C	140262769	C	C	140262769	3	2	142	1	0	0	0	0	1	0	0	0	11542	1000	35	5	918	5	PCDHA13	5	140262769	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	11854	140262769	40652491	103	76000											
PCDHB2	56133	broad.mit.edu	37	chr5	140476258	140476258	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaatggcgaggtgcgcacCgccaggctgctgagggagcg	8	4	17	12	4	0	1	0	1	0	0	0	3	0	2	2	4	3	3	2	4	1	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:140476258C>T	uc003lil.2	+	1	2022	c.1884C>T	c.(1882-1884)ACC>ACT	p.T628T	PCDHB2_uc003lim.1_Silent_p.T289T	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	628	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGTGCGCACCGCCAGGCTGC	0.706													57	101					0	0	0.870114	0	0		T	140476258	T	T	140476258	2	4	142	1	0	0	0	0	0	0	0	1	11561	639	23	1		1	PCDHB2	5	140476258	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	213489	140476258	40439002	104	76001											
PCDHB11	56125	broad.mit.edu	37	chr5	140580728	140580728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctacaccctgttcgtcCgcgagaacaacagccccgcc	8	6	7	20	4	0	1	0	0	0	1	3	2	2	1	7	0	4	1	7	0	3	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:140580728C>T	uc003liy.2	+	1	1381	c.1381C>T	c.(1381-1383)CGC>TGC	p.R461C	PCDHB11_uc011daj.1_Missense_Mutation_p.R96C	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	461	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTGTTCGTCCGCGAGAACAA	0.587													129	180					0	0	0.870114	0	0		T	140580728	T	T	140580728	3	4	142	1	0	0	0	0	1	0	0	0	11555	652	23	1	1383	1	PCDHB11	5	140580728	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	104470	140580728	40334532	105	76002											
PCDHGA8	9708	broad.mit.edu	37	chr5	140773889	140773889	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggggcgcccctgtcctcGtatatctccatcaactctga	7	10	9	15	2	3	1	1	1	2	0	6	1	4	1	4	2	1	1	4	2	3	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:140773889G>A	uc003lkd.1	+	1	2407	c.1509G>A	c.(1507-1509)TCG>TCA	p.S503S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Silent_p.S503S	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	503	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTGTCCTCGTATATCTCCA	0.567													36	72					0	0	0.796494	0	0		A	140773889	A	A	140773889	2	1	142	1	0	0	0	0	0	0	0	1	11579	1132	40	1		1	PCDHGA8	5	140773889	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	193161	140773889	40141371	106	76003											
SLC26A2	1836	broad.mit.edu	37	chr5	149361167	149361167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccacacactgaaagaagttCgcagagattatgaagccatt	15	9	8	9	1	0	4	0	2	0	2	2	5	1	4	2	0	1	2	2	0	4	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:149361167C>T	uc003lrh.2	+	3	2279	c.2011C>T	c.(2011-2013)CGC>TGC	p.R671C		NM_000112	NP_000103	P50443	S26A2_HUMAN	solute carrier family 26 member 2	671	Cytoplasmic (Potential).|STAS.					integral to plasma membrane|membrane fraction	secondary active sulfate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			GAAAGAAGTTCGCAGAGATTA	0.448													50	72					0	0	0.870114	0	0		T	149361167	T	T	149361167	3	4	142	1	0	0	0	0	1	0	0	0	14542	884	31	1	2017	1	SLC26A2	5	149361167	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	8587278	149361167	31554093	107	76004											
ZNF300	91975	broad.mit.edu	37	chr5	150278009	150278009	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccattgagaccaggtggctGtagttctccagcatcacatc	9	10	9	13	0	2	1	1	1	1	1	4	2	2	1	3	2	1	4	3	2	1	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:150278009G>A	uc003lsy.1	-	4	390	c.123C>T	c.(121-123)TAC>TAT	p.Y41Y	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	41	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCAGGTGGCTGTAGTTCTCCA	0.483													80	131					0	0	0.870114	0	0		A	150278009	A	A	150278009	2	1	142	1	0	0	0	0	0	0	0	1	17856	1372	48	4		4	ZNF300	5	150278009	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	916842	150278009	30637251	108	76005											
NKX2-5	1482	broad.mit.edu	37	chr5	172659803	172659803	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggggtaggcgttataaccGtagggattgaggcccacgcc	8	7	16	10	4	0	1	0	1	0	0	0	2	0	2	3	5	1	3	3	5	4	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:172659803G>A	uc003mcm.1	-	2	920	c.744C>T	c.(742-744)TAC>TAT	p.Y248Y		NM_004387	NP_004378	P52952	NKX25_HUMAN	NK2 transcription factor related, locus 5	248	Ala/Pro-rich.		Y -> H (in ASD-AVCD; somatic mutation).		adult heart development|atrial cardiac muscle cell development|atrial septum morphogenesis|heart looping|hemopoiesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell apoptosis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|outflow tract septum morphogenesis|pharyngeal system development|positive regulation of calcium ion transport via voltage-gated calcium channel activity|positive regulation of cardioblast differentiation|positive regulation of cell proliferation|positive regulation of heart contraction|positive regulation of neuron differentiation|positive regulation of sodium ion transport|positive regulation of survival gene product expression|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of cardiac muscle contraction|right ventricular cardiac muscle tissue morphogenesis|septum secundum development|spleen development|thyroid gland development|vasculogenesis|ventricular septum morphogenesis		chromatin binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CGTTATAACCGTAGGGATTGA	0.706													11	10					0	0	0.479597	0	0		A	172659803	A	A	172659803	2	1	142	1	0	0	0	0	0	0	0	1	10472	1140	40	1		1	NKX2-5	5	172659803	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	22381794	172659803	8255457	109	76006											
PDLIM7	9260	broad.mit.edu	37	chr5	176919639	176919639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagcacccagtcacccaCggccactccggcctgcgccg	6	4	10	21	4	2	0	2	0	0	0	3	0	3	0	6	2	2	2	6	2	0	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:176919639C>T	uc003mhc.1	-	3	221	c.136G>A	c.(136-138)GTG>ATG	p.V46M	PDLIM7_uc003mha.1_5'Flank|PDLIM7_uc003mhb.1_Missense_Mutation_p.V46M|PDLIM7_uc003mhd.1_Translation_Start_Site|PDLIM7_uc003mhe.1_RNA|PDLIM7_uc003mhf.2_Missense_Mutation_p.V46M|PDLIM7_uc003mhg.1_Missense_Mutation_p.V46M	NM_005451	NP_005442	Q9NR12	PDLI7_HUMAN	PDZ and LIM domain 7 isoform 1	46	PDZ.				cell differentiation|multicellular organismal development|ossification|receptor-mediated endocytosis	cytoplasm|focal adhesion	protein binding|zinc ion binding			breast(1)	1	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAGTCACCCACGGCCACTCCG	0.647													35	54					0	0	0.870114	0	0		T	176919639	T	T	176919639	3	4	142	1	0	0	0	0	1	0	0	0	11703	536	19	1	1403	1	PDLIM7	5	176919639	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	4259836	176919639	3995621	110	76007											
ZNF454	285676	broad.mit.edu	37	chr5	178392727	178392727	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactggggaaaaaccttataCatgtaacatatgtgaaaaag	18	10	8	5	0	0	1	0	1	0	0	0	2	0	2	1	2	4	1	1	2	9	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr5:178392727C>G	uc003mjo.1	+	5	1593	c.1322C>G	c.(1321-1323)ACA>AGA	p.T441R	ZNF454_uc010jkz.1_Missense_Mutation_p.T441R	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	441	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(89;0.000904)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.225)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.234)		AAACCTTATACATGTAACATA	0.408													68	111					0	0	0.870114	0	0		G	178392727	G	G	178392727	3	3	142	1	0	0	0	0	1	0	0	0	17948	478	17	5	1336	5	ZNF454	5	178392727	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1473088	178392727	2522533	111	76008											
NEDD9	4739	broad.mit.edu	37	chr6	11190446	11190446	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtctgaagagggcctctgcGttggtgttgatggttgtggt	4	14	18	5	1	2	3	0	2	2	1	2	3	2	3	1	5	1	3	1	5	1	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:11190446G>A	uc003mzv.2	-	5	1823	c.1656C>T	c.(1654-1656)AAC>AAT	p.N552N	NEDD9_uc010joz.2_Silent_p.N552N|NEDD9_uc003mzw.3_Silent_p.N406N	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	552					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			GGGCCTCTGCGTTGGTGTTGA	0.587													94	140					0	0	0.870114	0	0		A	11190446	A	A	11190446	2	1	142	1	0	0	0	0	0	0	0	1	10332	1136	40	1		1	NEDD9	6	11190446	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08		11190446	159924621	112	76009											
GFOD1	54438	broad.mit.edu	37	chr6	13486905	13486905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatctgtctggtgaggggcGgcggcaggttaatgcacacc	7	8	16	10	3	2	1	0	1	2	0	2	2	2	1	1	6	1	3	1	6	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:13486905G>A	uc003nat.1	-	1	883	c.218C>T	c.(217-219)CCG>CTG	p.P73L	GFOD1_uc003nas.1_5'Flank|C6orf114_uc003nav.2_5'Flank	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	73						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			GGTGAGGGGCGGCGGCAGGTT	0.592													23	56					0	0	0.864702	0	0		A	13486905	A	A	13486905	3	1	142	1	0	0	0	0	1	0	0	0	6358	1116	39	1	962	1	GFOD1	6	13486905	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	2296459	13486905	157628162	113	76010											
ZNF192	7745	broad.mit.edu	37	chr6	28121369	28121369	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaccctatgaatgtaaTgagtgtgggaaagctttcag	13	10	13	5	0	1	3	1	2	0	1	1	6	1	4	1	1	1	2	1	1	4	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:28121369T>G	uc003nkn.1	+	6	1495	c.1311T>G	c.(1309-1311)AAT>AAG	p.N437K	ZNF192_uc010jqx.1_Missense_Mutation_p.N437K|ZNF192_uc010jqy.1_Missense_Mutation_p.N250K|ZNF192_uc011dkz.1_Missense_Mutation_p.N250K	NM_006298	NP_006289	Q15776	ZN192_HUMAN	zinc finger protein 192	437	C2H2-type 5.				viral reproduction	cytoplasm|nucleolus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ATGAATGTAATGAGTGTGGGA	0.488													61	86					0	0	0.870114	0	0		G	28121369	G	G	28121369	3	3	142	1	0	0	0	0	1	0	0	0	17781	1461	51	5	1329	5	ZNF192	6	28121369	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	14634464	28121369	142993698	114	76011											
GABBR1	2550	broad.mit.edu	37	chr6	29581206	29581206	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcctggaagcctcctgtCtcctcagggtgtcttttcag	4	13	10	14	0	4	0	2	0	2	0	7	1	6	1	5	2	1	0	5	2	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:29581206C>A	uc003nmt.3	-	12	1716	c.1380G>T	c.(1378-1380)GAG>GAT	p.E460D	GABBR1_uc003nmp.3_Missense_Mutation_p.E343D|GABBR1_uc003nms.3_Missense_Mutation_p.E343D|GABBR1_uc003nmu.3_Missense_Mutation_p.E398D|GABBR1_uc011dlr.1_Missense_Mutation_p.E283D|GABBR1_uc011dls.1_Missense_Mutation_p.E460D	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	460	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	AGCCTCCTGTCTCCTCAGGGT	0.537													81	142					2.93434e-44	3.2004e-44	0.870114	1	0		A	29581206	A	A	29581206	3	1	142	1	0	0	0	0	1	0	0	0	6169	912	32	5	1553	5	GABBR1	6	29581206	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1459837	29581206	141533861	115	76012											
KIFC1	3833	broad.mit.edu	37	chr6	33366122	33366122	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ccacatcccacccaagagttCcatccctcactacagtgcca	11	7	4	19	0	1	1	1	0	0	1	4	1	4	1	6	0	2	1	6	0	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:33366122C>G	uc003oef.3	+	3	658	c.208C>G	c.(208-210)CCA>GCA	p.P70A	KIFC1_uc011drf.1_Missense_Mutation_p.P70A|uc011drg.1_5'Flank	NM_002263	NP_002254	Q9BW19	KIFC1_HUMAN	kinesin family member C1	70					blood coagulation|cell division|microtubule-based movement|mitotic sister chromatid segregation	early endosome|microtubule|microtubule associated complex|microtubule organizing center|nucleus|spindle	ATP binding|microtubule motor activity				0						CCCAAGAGTTCCATCCCTCAC	0.517													37	55					0	0	0.834066	0	0		G	33366122	G	G	33366122	3	3	142	1	0	0	0	0	1	0	0	0	8328	855	30	5	218	5	KIFC1	6	33366122	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	3784916	33366122	137748945	116	76013											
MOCS1	4337	broad.mit.edu	37	chr6	39893473	39893473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggctctccacctgtgagccGgatcttgtcgatgccttcct	4	12	10	15	3	2	1	0	1	2	0	5	3	3	2	5	2	2	1	5	2	0	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:39893473G>A	uc003opb.2	-	2	505	c.367C>T	c.(367-369)CGG>TGG	p.R123W	MOCS1_uc003opa.2_Missense_Mutation_p.R123W|MOCS1_uc003opc.2_Missense_Mutation_p.R123W|MOCS1_uc003opd.2_Missense_Mutation_p.R123W|MOCS1_uc003ope.2_Missense_Mutation_p.R36W	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	123	Molybdenum cofactor biosynthesis protein A.	GTP (By similarity).	R -> W (in MOCOD type A).		Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding			ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CCTGTGAGCCGGATCTTGTCG	0.622													16	35					0	0	0.500413	0	0		A	39893473	A	A	39893473	3	1	142	1	0	0	0	0	1	0	0	0	9708	1115	39	1	822	1	MOCS1	6	39893473	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	6527351	39893473	131221594	117	76014											
TFAP2D	83741	broad.mit.edu	37	chr6	50682950	50682950	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactccaccaccggcaccgAgtttgcgtccccctacttct	6	11	6	18	3	1	0	0	0	1	0	3	1	3	0	6	1	3	2	6	1	2	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:50682950A>C	uc003paf.2	+	2	673	c.161A>C	c.(160-162)GAG>GCG	p.E54A	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	54							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					ACCGGCACCGAGTTTGCGTCC	0.572													99	158					0	0	0.870114	0	0		C	50682950	C	C	50682950	3	2	142	1	0	0	0	0	1	0	0	0	15815	304	11	5	167	5	TFAP2D	6	50682950	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	10789477	50682950	120432117	118	76015											
PKHD1	5314	broad.mit.edu	37	chr6	51612590	51612590	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataaaacatcctaccttgaAgtttcatgattcctgaaatt	15	14	4	8	0	1	3	1	3	0	0	3	3	3	3	3	0	2	1	3	0	6	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:51612590A>G	uc003pah.1	-	58	10100	c.9824T>C	c.(9823-9825)CTT>CCT	p.L3275P	PKHD1_uc010jzn.1_Missense_Mutation_p.L1258P|PKHD1_uc003pai.2_Missense_Mutation_p.L3275P	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3275	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CCTACCTTGAAGTTTCATGAT	0.373													26	120					0	0	0.681144	0	0		G	51612590	G	G	51612590	3	3	142	1	0	0	0	0	1	0	0	0	11990	72	3	3	2479	3	PKHD1	6	51612590	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	929640	51612590	119502477	119	76016											
BAI3	577	broad.mit.edu	37	chr6	69349123	69349123	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaatcagaaaatgggagaAcagaatcatgtgggatcatg	18	8	11	4	0	3	3	3	0	0	3	3	5	3	4	0	2	1	0	0	2	6	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:69349123A>G	uc003pev.3	+	3	1004	c.556A>G	c.(556-558)ACA>GCA	p.T186A	BAI3_uc010kak.2_Missense_Mutation_p.T186A	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	186	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AAATGGGAGAACAGAATCATG	0.433													64	108					0	0	0.870114	0	0		G	69349123	G	G	69349123	3	3	142	1	0	0	0	0	1	0	0	0	1301	43	2	3	558	3	BAI3	6	69349123	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	17736533	69349123	101765944	120	76017											
OGFRL1	79627	broad.mit.edu	37	chr6	72011425	72011426	+	Frame_Shift_Ins	INS	-	A	A																															acagtcaaacttctatgcacINSaaaaaagccaaggactccaa																										TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:72011425_72011426insA	uc003pfx.1	+	7	1192_1193	c.1029_1030insA	c.(1027-1032)CACAAAfs	p.H343fs		NM_024576	NP_078852	Q5TC84	OGRL1_HUMAN	opioid growth factor receptor-like 1	343_344						membrane	receptor activity				0						CTTCTATGCACAAAAAAGCCAA	0.455													58	119	---	---	---	---						.	A	72011426	A	A	72011425	7	5	142	1	0	1	1	0	0	0	0	0	10863	477	17	0	1055	0	OGFRL1	6	72011425	Frame_Shift_Ins	INS	-	TCGA-CG-4469-01A-01D-1158-08	2662302	72011425	99103642	121	76018											
RIMS1	22999	broad.mit.edu	37	chr6	72806819	72806819	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctcctattgtcgcactaAgttctgtgcgcgctgcggag	5	12	12	12	4	1	0	0	0	1	0	3	1	2	1	1	1	3	4	1	1	2	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:72806819A>C	uc003pga.2	+	3	490	c.413A>C	c.(412-414)AAG>ACG	p.K138T		NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	138	RabBD.|FYVE-type.				calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				TGTCGCACTAAGTTCTGTGCG	0.493													28	53					0	0	0.729181	0	0		C	72806819	C	C	72806819	3	2	142	1	0	0	0	0	1	0	0	0	13392	72	3	5	423	5	RIMS1	6	72806819	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	795394	72806819	98308248	122	76019											
SPACA1	81833	broad.mit.edu	37	chr6	88767403	88767404	+	Nonsense_Mutation	DNP	AG	CT	CT																															aagtgtgttgtacgggtagaAgaatgccgtggaccaacaga																										TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:88767403_88767404AG>CT	uc003pmn.2	+	3	456_457	c.339_340AG>CT	c.(337-342)GAAGAA>GACTAA	p.113_114EE>D*		NM_030960	NP_112222	Q9HBV2	SACA1_HUMAN	sperm acrosome associated 1 precursor	113_114	Extracellular (Potential).					integral to membrane					0		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.11)		TACGGGTAGAAGAATGCCGTGG	0.406													35	61					0	0	0.115264	0	0		CT	88767404	CT	CT	88767403	4	2	142	1	0	0	0	0	0	1	0	0	14997	69	3	5	349	5	SPACA1	6	88767403	Nonsense_Mutation	DNP	AG	TCGA-CG-4469-01A-01D-1158-08	15960584	88767403	82347664	123	76020											
FHL5	9457	broad.mit.edu	37	chr6	97058456	97058456	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctttggcaggtgataacTtcaggtgggataacattttg	9	14	13	5	0	2	1	1	1	1	0	2	2	2	2	0	5	2	1	0	5	2	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:97058456T>G	uc003pos.1	+	6	918	c.513T>G	c.(511-513)ACT>ACG	p.T171T	FHL5_uc003pot.1_Silent_p.T171T	NM_020482	NP_065228	Q5TD97	FHL5_HUMAN	activator of cAMP-responsive element modulator	171	LIM zinc-binding 3.					nucleus	zinc ion binding			ovary(2)	2		all_cancers(76;1.57e-07)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00266)|Colorectal(196;0.0341)|Lung NSC(302;0.204)		BRCA - Breast invasive adenocarcinoma(108;0.0948)		AGGTGATAACTTCAGGTGGGA	0.423													150	240					0	0	0.870114	0	0		G	97058456	G	G	97058456	2	3	142	1	0	0	0	0	0	0	0	1	5895	1596	56	5		5	FHL5	6	97058456	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	8291053	97058456	74056611	124	76021											
GPRC6A	222545	broad.mit.edu	37	chr6	117127831	117127831	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttgtgactgtcactgggaAgcaagtgcagattttgaaga	11	12	13	5	0	1	4	1	2	0	2	1	5	1	5	0	1	2	3	0	1	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:117127831A>C	uc003pxj.1	-	3	1059	c.1037T>G	c.(1036-1038)CTT>CGT	p.L346R	GPRC6A_uc003pxk.1_Intron|GPRC6A_uc003pxl.1_Missense_Mutation_p.L346R	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	346	Extracellular (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		GTCACTGGGAAGCAAGTGCAG	0.383													42	100					0	0	0.864702	0	0		C	117127831	C	C	117127831	3	2	142	1	0	0	0	0	1	0	0	0	6744	72	3	5	1759	5	GPRC6A	6	117127831	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	20069375	117127831	53987236	125	76022											
ROS1	6098	broad.mit.edu	37	chr6	117724426	117724426	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggcttgaccacataggaCggtctggacacagtctagat	11	8	13	9	1	2	2	0	1	2	1	2	4	2	4	1	5	0	1	1	5	2	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:117724426C>T	uc003pxp.1	-	6	652	c.453G>A	c.(451-453)CCG>CCA	p.P151P	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	151	Fibronectin type-III 1.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		CCACATAGGACGGTCTGGACA	0.473			T	GOPC|ROS1	glioblastoma|NSCLC								20	34					0	0	0.592651	0	0		T	117724426	T	T	117724426	2	4	142	1	0	0	0	0	0	0	0	1	13556	523	19	1		1	ROS1	6	117724426	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	596595	117724426	53390641	126	76023											
C6orf204	387119	broad.mit.edu	37	chr6	118813011	118813011	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaatggtgtctggagtgaAgtgttctcatattgtggctg	9	14	14	4	0	2	1	1	1	2	0	3	3	2	2	0	3	0	2	0	3	4	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:118813011A>C	uc003pxz.1	-	6	1863	c.1275T>G	c.(1273-1275)ACT>ACG	p.T425T	C6orf204_uc003pya.1_Silent_p.T428T|C6orf204_uc003pyb.2_Silent_p.T425T|C6orf204_uc011ebj.1_Silent_p.T323T|C6orf204_uc003pyc.2_Silent_p.T428T	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	425						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		TCTGGAGTGAAGTGTTCTCAT	0.333													53	74					0	0	0.870114	0	0		C	118813011	C	C	118813011	2	2	142	1	0	0	0	0	0	0	0	1	2356	59	3	5		5	C6orf204	6	118813011	Silent	SNP	A	TCGA-CG-4469-01A-01D-1158-08	1088585	118813011	52302056	127	76024											
NKAIN2	154215	broad.mit.edu	37	chr6	124979358	124979358	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccttatcctgacttttaaTatatcaatgcaccgatcttg	11	15	5	10	1	2	1	1	1	1	0	3	3	3	1	3	0	1	1	3	0	5	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:124979358T>A	uc003pzo.2	+	4	577	c.300T>A	c.(298-300)AAT>AAA	p.N100K	NKAIN2_uc003pzn.1_Missense_Mutation_p.N100K|NKAIN2_uc003pzp.2_Missense_Mutation_p.N99K|NKAIN2_uc010keq.2_Intron|NKAIN2_uc010ker.2_Missense_Mutation_p.N10K	NM_001040214	NP_001035304	Q5VXU1	NKAI2_HUMAN	T-cell lymphoma breakpoint-associated target 1	100						integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)		TGACTTTTAATATATCAATGC	0.453													51	91					0	0	0.870114	0	0		A	124979358	A	A	124979358	3	1	142	1	0	0	0	0	1	0	0	0	10455	1403	49	5	314	5	NKAIN2	6	124979358	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	6166347	124979358	46135709	128	76025											
MOXD1	26002	broad.mit.edu	37	chr6	132722354	132722354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgacgatgtcggcggacGccatggccccggtgggcgag	6	4	17	14	7	0	0	0	0	0	0	1	4	0	1	4	5	0	0	4	5	0	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:132722354G>A	uc003qdf.2	-	1	311	c.212C>T	c.(211-213)GCG>GTG	p.A71V		NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	71	Lumenal (Potential).|DOMON.				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		GTCGGCGGACGCCATGGCCCC	0.751													9	5					0	0	0.335167	0	0		A	132722354	A	A	132722354	3	1	142	1	0	0	0	0	1	0	0	0	9738	1087	38	1	1677	1	MOXD1	6	132722354	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	7742996	132722354	38392713	129	76026											
TAAR9	134860	broad.mit.edu	37	chr6	132859575	132859575	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgctggcagcgtttggAaacttactggtcatgattgc	7	13	13	8	1	1	1	1	1	0	0	1	2	1	2	0	3	5	4	0	3	2	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:132859575A>G	uc011eci.1	+	1	149	c.147A>G	c.(145-147)GGA>GGG	p.G49G		NM_175057	NP_778227	Q96RI9	TAAR9_HUMAN	trace amine associated receptor 9	49	Helical; Name=1; (Potential).					plasma membrane	G-protein coupled receptor activity				0	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.0042)|GBM - Glioblastoma multiforme(226;0.00816)		CAGCGTTTGGAAACTTACTGG	0.498													35	52					0	0	0.788014	0	0		G	132859575	G	G	132859575	2	3	142	1	0	0	0	0	0	0	0	1	15519	233	9	3		3	TAAR9	6	132859575	Silent	SNP	A	TCGA-CG-4469-01A-01D-1158-08	137221	132859575	38255492	130	76027											
MYCT1	80177	broad.mit.edu	37	chr6	153019200	153019200	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatggctaataacacaacaAgtttagggagtccatggcca	14	10	9	8	0	0	0	0	0	0	0	1	1	1	1	2	3	2	2	2	3	6	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:153019200A>C	uc003qpd.3	+	1	171	c.163A>C	c.(163-165)AGT>CGT	p.S55R	MYCT1_uc010kjc.1_Missense_Mutation_p.S55R|MYCT1_uc003qpc.3_Missense_Mutation_p.S55R	NM_025107	NP_079383	Q8N699	MYCT1_HUMAN	myc target 1	55						nucleus				ovary(1)	1		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;1.33e-10)|BRCA - Breast invasive adenocarcinoma(81;0.143)		TAACACAACAAGTTTAGGGAG	0.313													40	24					0	0	0.853193	0	0		C	153019200	C	C	153019200	3	2	142	1	0	0	0	0	1	0	0	0	10040	72	3	5	165	5	MYCT1	6	153019200	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	20159625	153019200	18095867	131	76028											
FRMD1	79981	broad.mit.edu	37	chr6	168465674	168465674	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggcttcctcccggtgagcGcactgtgacctcagcacgcg	6	8	12	15	4	1	2	1	2	0	0	3	2	3	2	3	2	2	3	3	2	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr6:168465674G>A	uc003qwo.3	-	5	590	c.525C>T	c.(523-525)TGC>TGT	p.C175C	FRMD1_uc003qwm.3_5'UTR|FRMD1_uc011egs.1_5'UTR|FRMD1_uc011egt.1_Silent_p.C87C|FRMD1_uc003qwn.3_Silent_p.C107C	NM_024919	NP_079195	Q8N878	FRMD1_HUMAN	FERM domain containing 1 isoform 1	175	FERM.					cytoskeleton	binding			ovary(1)	1		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		CCCGGTGAGCGCACTGTGACC	0.667													23	8					0	0	0.681144	0	0		A	168465674	A	A	168465674	2	1	142	1	0	0	0	0	0	0	0	1	6063	1079	38	1		1	FRMD1	6	168465674	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	15446474	168465674	2649393	132	76029											
ZDHHC4	55146	broad.mit.edu	37	chr7	6620230	6620230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcttgttctacctggcttCggtgctgatgggtcttgttc	2	18	11	10	1	3	1	0	1	3	0	5	1	3	1	1	3	2	4	1	3	1	7	rs145005587		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:6620230C>T	uc003sqi.2	+	4	396	c.38C>T	c.(37-39)TCG>TTG	p.S13L	ZDHHC4_uc003sqg.2_Missense_Mutation_p.S13L|ZDHHC4_uc003sql.2_Missense_Mutation_p.S13L|ZDHHC4_uc003sqh.2_Missense_Mutation_p.S13L|ZDHHC4_uc003sqj.2_Missense_Mutation_p.S13L|ZDHHC4_uc003sqk.2_Missense_Mutation_p.S13L|ZDHHC4_uc003sqm.2_Missense_Mutation_p.S13L	NM_001134388	NP_001127860	Q9NPG8	ZDHC4_HUMAN	zinc finger, DHHC-type containing 4	13	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			breast(1)|pancreas(1)	2		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.1)		TACCTGGCTTCGGTGCTGATG	0.502													146	374					0	0	0.870114	0	0		T	6620230	T	T	6620230	3	4	142	1	0	0	0	0	1	0	0	0	17642	893	31	1	40	1	ZDHHC4	7	6620230	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08		6620230	152518433	133	76030											
ZDHHC4	55146	broad.mit.edu	37	chr7	6621869	6621869	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttttcaccctgacttgTggaaccaatcctggtaagtt	8	17	7	9	0	1	1	1	1	0	0	2	2	2	2	3	2	1	2	3	2	3	7			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:6621869T>A	uc003sqi.2	+	6	715	c.357T>A	c.(355-357)TGT>TGA	p.C119*	ZDHHC4_uc003sqg.2_Nonsense_Mutation_p.C119*|ZDHHC4_uc003sql.2_Nonsense_Mutation_p.C119*|ZDHHC4_uc003sqh.2_Nonsense_Mutation_p.C119*|ZDHHC4_uc003sqj.2_Nonsense_Mutation_p.C119*|ZDHHC4_uc003sqk.2_Nonsense_Mutation_p.C119*|ZDHHC4_uc003sqm.2_Nonsense_Mutation_p.C119*	NM_001134388	NP_001127860	Q9NPG8	ZDHC4_HUMAN	zinc finger, DHHC-type containing 4	119	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			breast(1)|pancreas(1)	2		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.1)		CCCTGACTTGTGGAACCAATC	0.483													159	333					0	0	0.870114	0	0		A	6621869	A	A	6621869	4	1	142	1	0	0	0	0	0	1	0	0	17642	1702	59	5	367	5	ZDHHC4	7	6621869	Nonsense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	1639	6621869	152516794	134	76031											
DNAH11	8701	broad.mit.edu	37	chr7	21788356	21788356	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggctatggaatccaggaacTtcgggtgagtcaaggggaca	11	7	16	7	1	1	1	1	1	0	0	3	4	2	4	1	6	1	1	1	6	4	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:21788356T>G	uc003svc.2	+	53	8721	c.8690T>G	c.(8689-8691)CTT>CGT	p.L2897R		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2897	AAA 4 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						ATCCAGGAACTTCGGGTGAGT	0.577									Kartagener_syndrome				55	191					0	0	0.870114	0	0		G	21788356	G	G	21788356	3	3	142	1	0	0	0	0	1	0	0	0	4605	1609	56	5	8897	5	DNAH11	7	21788356	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	15166487	21788356	137350307	135	76032											
ELMO1	9844	broad.mit.edu	37	chr7	37252941	37252941	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccaatgagcactcaccTggtcctgggggtccattttg	6	12	11	12	0	1	1	1	1	0	0	4	1	4	1	4	3	1	1	4	3	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:37252941T>C	uc003tfk.1	-	12	1260	c.953A>G	c.(952-954)CAG>CGG	p.Q318R	ELMO1_uc011kbc.1_Missense_Mutation_p.Q222R|ELMO1_uc010kxg.1_Missense_Mutation_p.Q318R	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	318					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						AGCACTCACCTGGTCCTGGGG	0.473													66	191					0	0	0.870114	0	0		C	37252941	C	C	37252941	3	2	142	1	0	0	0	0	1	0	0	0	5073	1594	55	3	1274	3	ELMO1	7	37252941	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	15464585	37252941	121885722	136	76033											
ZNF735	730291	broad.mit.edu	37	chr7	63680612	63680612	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcttttaagtggcattcaAgtcttgctaaacataagata	15	13	7	6	0	2	1	1	0	1	1	2	1	2	1	0	1	3	3	0	1	7	7			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:63680612A>C	uc011kdn.1	+	4	1183	c.1183A>C	c.(1183-1185)AGT>CGT	p.S395R		NM_001159524	NP_001152996	P0CB33	ZN735_HUMAN	zinc finger protein 735	395	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTGGCATTCAAGTCTTGCTAA	0.353													36	29					0	0	0.796494	0	0		C	63680612	C	C	63680612	3	2	142	1	0	0	0	0	1	0	0	0	18149	72	3	5	1197	5	ZNF735	7	63680612	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	26427671	63680612	95458051	137	76034											
LIMK1	3984	broad.mit.edu	37	chr7	73530167	73530167	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggctgacttcgggctggcGcgtctcatggtggacgagaa	6	9	17	9	4	1	2	1	1	1	1	3	4	1	3	0	5	0	2	0	5	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:73530167G>A	uc003uaa.1	+	13	1611	c.1446G>A	c.(1444-1446)GCG>GCA	p.A482A	RFC2_uc011kfa.1_Intron|LIMK1_uc010lbl.1_RNA|LIMK1_uc003uab.2_Silent_p.A448A	NM_002314	NP_002305	P53667	LIMK1_HUMAN	LIM domain kinase 1	482	Protein kinase.				actin cytoskeleton organization|axon guidance|negative regulation of ubiquitin-protein ligase activity|positive regulation of actin filament bundle assembly|positive regulation of axon extension|Rho protein signal transduction	cytosol|growth cone|nucleus	ATP binding|heat shock protein binding|protein serine/threonine kinase activity|zinc ion binding			stomach(2)|ovary(1)	3		Lung NSC(55;0.137)				TCGGGCTGGCGCGTCTCATGG	0.627													32	62					0	0	0.769981	0	0		A	73530167	A	A	73530167	2	1	142	1	0	0	0	0	0	0	0	1	8817	1074	38	1		1	LIMK1	7	73530167	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	9849555	73530167	85608496	138	76035											
HGF	3082	broad.mit.edu	37	chr7	81388112	81388112	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttcttgctttatcaaaaAcaaaagccctgaaaaaaata	18	12	4	7	0	2	1	1	1	1	0	2	1	2	1	1	0	3	2	1	0	9	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:81388112A>C	uc003uhl.2	-	3	428	c.263T>G	c.(262-264)GTT>GGT	p.V88G	HGF_uc003uhm.2_Missense_Mutation_p.V88G|HGF_uc003uhn.1_Missense_Mutation_p.V88G|HGF_uc003uho.1_Missense_Mutation_p.V88G|HGF_uc003uhp.2_Missense_Mutation_p.V88G	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	88	PAN.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						TTTATCAAAAACAAAAGCCCT	0.338													4	205					0	0	0.150653	0	0		C	81388112	C	C	81388112	3	2	142	1	0	0	0	0	1	0	0	0	7101	43	2	5	2007	5	HGF	7	81388112	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	7857945	81388112	77750551	139	76036											
PCLO	27445	broad.mit.edu	37	chr7	82764520	82764520	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcagcttgtgactgtacTttggagcttggaatatcagg	8	15	11	7	0	3	1	2	1	1	0	3	3	3	3	0	3	3	3	0	3	3	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:82764520T>G	uc003uhx.2	-	3	2635	c.2346A>C	c.(2344-2346)AAA>AAC	p.K782N	PCLO_uc003uhv.2_Missense_Mutation_p.K782N	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	728	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GTGACTGTACTTTGGAGCTTG	0.443													185	139					0	0	0.870114	0	0		G	82764520	G	G	82764520	3	3	142	1	0	0	0	0	1	0	0	0	11602	1606	56	5	13191	5	PCLO	7	82764520	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	1376408	82764520	76374143	140	76037											
PCLO	27445	broad.mit.edu	37	chr7	82784942	82784942	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttgagccaatggctttgTtagccctgagggctgagctg	6	13	14	8	0	0	3	0	3	0	0	0	3	0	3	2	2	3	5	2	2	2	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:82784942T>G	uc003uhx.2	-	2	1304	c.1015A>C	c.(1015-1017)ACA>CCA	p.T339P	PCLO_uc003uhv.2_Missense_Mutation_p.T339P	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AATGGCTTTGTTAGCCCTGAG	0.567													18	55					0	0	0.539581	0	0		G	82784942	G	G	82784942	3	3	142	1	0	0	0	0	1	0	0	0	11602	1725	60	5	14526	5	PCLO	7	82784942	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	20422	82784942	76353721	141	76038											
ABCB4	5244	broad.mit.edu	37	chr7	87069058	87069058	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcctcatccagcagaaggatCttggggttgcgaaccagggc	9	7	14	11	1	2	1	1	0	1	1	3	3	3	2	3	4	3	2	3	4	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:87069058C>G	uc003uiv.1	-	14	1732	c.1656G>C	c.(1654-1656)AAG>AAC	p.K552N	ABCB4_uc003uiw.1_Missense_Mutation_p.K552N|ABCB4_uc003uix.1_Missense_Mutation_p.K552N	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	552	ABC transporter 1.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					GCAGAAGGATCTTGGGGTTGC	0.537													23	259					0	0	0.693898	0	0		G	87069058	G	G	87069058	3	3	142	1	0	0	0	0	1	0	0	0	43	912	32	5	2264	5	ABCB4	7	87069058	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	4284116	87069058	72069605	142	76039											
ZNF804B	219578	broad.mit.edu	37	chr7	88963642	88963642	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttctccacgttcaaagcaAggatggccacaccactcttc	10	11	6	14	1	3	0	1	0	2	0	5	1	3	1	3	2	1	2	3	2	2	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:88963642A>C	uc011khi.1	+	4	1884	c.1346A>C	c.(1345-1347)AAG>ACG	p.K449T		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	449						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GTTCAAAGCAAGGATGGCCAC	0.398										HNSCC(36;0.09)			49	156					0	0	0.870114	0	0		C	88963642	C	C	88963642	3	2	142	1	0	0	0	0	1	0	0	0	18196	72	3	5	1360	5	ZNF804B	7	88963642	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	1894584	88963642	70175021	143	76040											
SH2B2	10603	broad.mit.edu	37	chr7	101943868	101943868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctggccccgccgcagccGccccggtcccagtcccggtc	2	4	12	23	5	0	0	0	0	0	0	3	0	2	0	9	3	1	1	9	3	0	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:101943868G>A	uc011kko.1	+	2	208	c.163G>A	c.(163-165)GCC>ACC	p.A55T		NM_020979	NP_066189	O14492	SH2B2_HUMAN	SH2B adaptor protein 2	12					blood coagulation|insulin receptor signaling pathway|intracellular signal transduction	cytosol|plasma membrane	JAK pathway signal transduction adaptor activity|SH3/SH2 adaptor activity|signal transducer activity				0						cgccgcagccgccccggtccc	0.468													38	17					0	0	0.870114	0	0		A	101943868	A	A	101943868	3	1	142	1	0	0	0	0	1	0	0	0	14253	1087	38	1	169	1	SH2B2	7	101943868	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	12980226	101943868	57194795	144	76041											
NRCAM	4897	broad.mit.edu	37	chr7	107820828	107820828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctttttctcaatgtgaCgtctgtttcttttagatgaa	8	19	8	6	1	4	3	1	2	4	1	5	4	4	4	0	1	0	1	0	1	3	5	rs151029926	byFrequency	TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:107820828C>T	uc003vfb.2	-	25	3161	c.2690G>A	c.(2689-2691)CGT>CAT	p.R897H	NRCAM_uc003vfc.2_Missense_Mutation_p.R881H|NRCAM_uc011kmk.1_Missense_Mutation_p.R892H|NRCAM_uc003vfd.2_Missense_Mutation_p.R873H|NRCAM_uc003vfe.2_Missense_Mutation_p.R873H	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	897	Fibronectin type-III 3.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						CTCAATGTGACGTCTGTTTCT	0.448													26	72					0	0	0.729181	0	0		T	107820828	T	T	107820828	3	4	142	1	0	0	0	0	1	0	0	0	10663	536	19	1	1290	1	NRCAM	7	107820828	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	5876960	107820828	51317835	145	76042											
PTPRZ1	5803	broad.mit.edu	37	chr7	121679542	121679542	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactggcctgccgatgggaGtgaggagtacgggaactttc	8	9	16	8	2	0	1	0	1	0	0	1	5	0	4	2	4	4	2	2	4	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:121679542G>T	uc003vjy.2	+	20	5932	c.5537G>T	c.(5536-5538)AGT>ATT	p.S1846I	PTPRZ1_uc003vjz.2_Missense_Mutation_p.S979I|PTPRZ1_uc011knt.1_Missense_Mutation_p.S436I	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1846	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						GCCGATGGGAGTGAGGAGTAC	0.388													37	146					6.34439e-16	6.56263e-16	0.870114	1	0		T	121679542	T	T	121679542	3	4	142	1	0	0	0	0	1	0	0	0	12839	1029	36	5	5615	5	PTPRZ1	7	121679542	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	13858714	121679542	37459121	146	76043											
PRSS1	5644	broad.mit.edu	37	chr7	142458458	142458458	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgggggctacaactgtgaGgagaattctgtcccctacca	9	10	12	10	0	1	2	0	1	1	1	2	3	2	2	3	3	3	2	3	3	4	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:142458458G>T	uc003wak.2	+	2	110	c.93G>T	c.(91-93)GAG>GAT	p.E31D	uc011krr.1_Intron|uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|TRY6_uc011ksn.1_Intron|PRSS1_uc011ksm.1_Intron|PRSS1_uc003wam.2_5'Flank	NM_002769	NP_002760	P07477	TRY1_HUMAN	protease, serine, 1 preproprotein	31	Peptidase S1.				digestion|proteolysis	extracellular space	metal ion binding|protein binding|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)			ACAACTGTGAGGAGAATTCTG	0.532									Hereditary_Pancreatitis				77	338					1.05875e-55	1.16684e-55	0.870114	1	0		T	142458458	T	T	142458458	3	4	142	1	0	0	0	0	1	0	0	0	12636	991	35	5	99	5	PRSS1	7	142458458	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	20778916	142458458	16680205	147	76044											
OR2F2	135948	broad.mit.edu	37	chr7	143632690	143632690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtgatggcctatgaccGccatgtggctgtgtctgacc	6	10	14	11	1	1	3	0	3	1	0	1	3	1	3	4	3	0	2	4	3	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:143632690G>A	uc011ktv.1	+	1	365	c.365G>A	c.(364-366)CGC>CAC	p.R122H		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					GCCTATGACCGCCATGTGGCT	0.557													149	88					0	0	0.870114	0	0		A	143632690	A	A	143632690	3	1	142	1	0	0	0	0	1	0	0	0	11016	1087	38	1	367	1	OR2F2	7	143632690	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	1174232	143632690	15505973	148	76045											
ZNF398	57541	broad.mit.edu	37	chr7	148876789	148876789	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcagccacccaacccaccaGgtcccctcataactgggctt	9	7	7	18	0	2	0	2	0	0	0	3	0	3	0	6	2	3	1	6	2	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:148876789G>T	uc003wfl.2	+	6	2100	c.1825G>T	c.(1825-1827)GGT>TGT	p.G609C	ZNF398_uc011kul.1_Missense_Mutation_p.G438C|ZNF398_uc011kum.1_Missense_Mutation_p.G614C	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	609					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			CAACCCACCAGGTCCCCTCAT	0.562													30	86					9.80977e-26	1.0482e-25	0.796494	1	0		T	148876789	T	T	148876789	3	4	142	1	0	0	0	0	1	0	0	0	17910	1000	35	5	1847	5	ZNF398	7	148876789	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	5244099	148876789	10261874	149	76046											
KCNH2	3757	broad.mit.edu	37	chr7	150648916	150648916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccgcgcagtcttcagcagcCcgatcagctgggggacaggg	7	5	16	13	3	3	0	2	0	1	0	3	2	3	1	2	3	3	3	2	3	0	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:150648916C>T	uc003wic.2	-	7	1578	c.1565G>A	c.(1564-1566)GGG>GAG	p.G522E	KCNH2_uc003wib.2_Missense_Mutation_p.G182E|KCNH2_uc011kux.1_Missense_Mutation_p.G426E|KCNH2_uc003wid.2_Missense_Mutation_p.G182E|KCNH2_uc003wie.2_Missense_Mutation_p.G522E	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	522	Helical; Voltage-sensor; Name=Segment S4; (Potential).				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	CTTCAGCAGCCCGATCAGCTG	0.672													16	52					0	0	0.654019	0	0		T	150648916	T	T	150648916	3	4	142	1	0	0	0	0	1	0	0	0	8048	623	22	4	2219	4	KCNH2	7	150648916	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1772127	150648916	8489747	150	76047											
GALNT11	63917	broad.mit.edu	37	chr7	151810363	151810363	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggcggtaagctcttcatcatCccttgctctagagtaggaca	9	11	10	11	1	4	1	2	0	2	1	5	2	5	2	1	3	2	4	1	3	3	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr7:151810363C>T	uc010lqg.1	+	8	1343	c.1113C>T	c.(1111-1113)ATC>ATT	p.I371I	GALNT11_uc011kvm.1_Silent_p.I290I|GALNT11_uc003wku.2_Silent_p.I371I|GALNT11_uc003wkw.1_Silent_p.I119I	NM_022087	NP_071370	Q8NCW6	GLT11_HUMAN	N-acetylgalactosaminyltransferase 11	371	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.214)	OV - Ovarian serous cystadenocarcinoma(82;0.00168)	UCEC - Uterine corpus endometrioid carcinoma (81;0.177)|BRCA - Breast invasive adenocarcinoma(188;0.0932)		TCTTCATCATCCCTTGCTCTA	0.473													13	345					0	0	0.435327	0	0		T	151810363	T	T	151810363	2	4	142	1	0	0	0	0	0	0	0	1	6224	845	30	4		4	GALNT11	7	151810363	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1161447	151810363	7328300	151	76048											
ZNF596	169270	broad.mit.edu	37	chr8	192905	192905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggattccatgaccttcgagGatatcattgtagacttcact	11	13	8	9	1	2	2	2	1	0	1	4	5	3	4	2	2	0	1	2	2	2	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:192905G>A	uc003wot.2	+	3	319	c.31G>A	c.(31-33)GAT>AAT	p.D11N	ZNF596_uc003wou.2_5'UTR|ZNF596_uc003wov.2_Missense_Mutation_p.D11N|ZNF596_uc003wow.2_Missense_Mutation_p.D11N	NM_173539	NP_775810	Q8TC21	ZN596_HUMAN	zinc finger protein 596	11	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(2;4.81e-29)|all_epithelial(2;5.03e-19)|Lung NSC(2;8.68e-08)|all_lung(2;1.52e-07)|Ovarian(12;0.00965)|Colorectal(14;0.0367)|all_neural(12;0.0837)|Myeloproliferative disorder(644;0.116)|all_hematologic(2;0.138)|Acute lymphoblastic leukemia(644;0.242)		Epithelial(5;3.77e-18)|all cancers(2;5.2e-17)|OV - Ovarian serous cystadenocarcinoma(5;5.37e-09)|BRCA - Breast invasive adenocarcinoma(11;1.7e-06)|Colorectal(2;6.51e-05)|READ - Rectum adenocarcinoma(2;0.0276)|COAD - Colon adenocarcinoma(149;0.0702)		GACCTTCGAGGATATCATTGT	0.438													34	89					0	0	0.769981	0	0		A	192905	A	A	192905	3	1	142	1	0	0	0	0	1	0	0	0	18051	1174	41	4	37	4	ZNF596	8	192905	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08		192905	146171117	152	76049											
CSMD1	64478	broad.mit.edu	37	chr8	2796225	2796225	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcttgtccattgctgtttTcatgcccagcatagccattg	7	15	8	11	0	1	0	1	0	0	0	2	0	2	0	3	0	5	4	3	0	1	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:2796225T>A	uc011kwk.1	-	70	10970	c.10580A>T	c.(10579-10581)GAA>GTA	p.E3527V	CSMD1_uc011kwj.1_Missense_Mutation_p.E2841V|CSMD1_uc010lrg.2_Missense_Mutation_p.E1418V	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3527	Cytoplasmic (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ATTGCTGTTTTCATGCCCAGC	0.398													21	24					0	0	0.575678	0	0		A	2796225	A	A	2796225	3	1	142	1	0	0	0	0	1	0	0	0	3947	1783	62	5	121	5	CSMD1	8	2796225	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	2603320	2796225	143567797	153	76050											
CSMD1	64478	broad.mit.edu	37	chr8	2832075	2832075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaggagtagtgcacgaCggcgccataggtaaacagct	11	7	13	10	3	1	0	0	0	1	0	1	2	1	1	1	3	4	5	1	3	4	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:2832075C>T	uc011kwk.1	-	56	9031	c.8641G>A	c.(8641-8643)GTC>ATC	p.V2881I	CSMD1_uc011kwj.1_Missense_Mutation_p.V2210I|CSMD1_uc010lrg.2_Missense_Mutation_p.V891I	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2881	Sushi 21.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TAGTGCACGACGGCGCCATAG	0.562													38	24					0	0	0.804634	0	0		T	2832075	T	T	2832075	3	4	142	1	0	0	0	0	1	0	0	0	3947	536	19	1	2116	1	CSMD1	8	2832075	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	35850	2832075	143531947	154	76051											
CSMD1	64478	broad.mit.edu	37	chr8	2944709	2944709	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggccgaccattcggtatcCaggcttgcaaaaataatgca	12	9	10	10	2	0	0	0	0	0	0	2	1	1	0	3	3	2	4	3	3	4	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:2944709C>G	uc011kwk.1	-	49	7777	c.7387G>C	c.(7387-7389)GGA>CGA	p.G2463R	CSMD1_uc011kwj.1_Missense_Mutation_p.G1792R|CSMD1_uc010lrg.2_Missense_Mutation_p.G531R	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2463	Sushi 14.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ATTCGGTATCCAGGCTTGCAA	0.522													82	60					0	0	0.870114	0	0		G	2944709	G	G	2944709	3	3	142	1	0	0	0	0	1	0	0	0	3947	603	21	5	3398	5	CSMD1	8	2944709	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	112634	2944709	143419313	155	76052											
CSMD1	64478	broad.mit.edu	37	chr8	3038632	3038632	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagaaagagttgaccttacTtttgtattccaggtggaaac	13	12	9	7	0	0	3	0	1	0	2	1	4	1	4	2	2	2	2	2	2	4	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:3038632T>G	uc011kwk.1	-	37	6118	c.5728A>C	c.(5728-5730)ACT>CCT	p.T1910P	CSMD1_uc011kwj.1_Missense_Mutation_p.T1302P|CSMD1_uc003wqe.2_Missense_Mutation_p.T1066P|CSMD1_uc010lrg.2_5'UTR	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1910	Extracellular (Potential).|CUB 11.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TTGACCTTACTTTTGTATTCC	0.378													31	20					0	0	0.717897	0	0		G	3038632	G	G	3038632	3	3	142	1	0	0	0	0	1	0	0	0	3947	1623	56	5	5105	5	CSMD1	8	3038632	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	93923	3038632	143325390	156	76053											
CSMD1	64478	broad.mit.edu	37	chr8	3253782	3253782	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgaacagcaggtacatgaAgttcccggtgctgatgagga	11	8	15	7	1	0	4	0	4	0	0	1	5	1	5	1	4	4	4	1	4	3	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:3253782A>C	uc011kwk.1	-	17	2920	c.2530T>G	c.(2530-2532)TTC>GTC	p.F844V	CSMD1_uc011kwj.1_Missense_Mutation_p.F236V|CSMD1_uc003wqe.2_5'UTR	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	844	Extracellular (Potential).|CUB 5.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		AGGTACATGAAGTTCCCGGTG	0.597													11	3					0	0	0.38729	0	0		C	3253782	C	C	3253782	3	2	142	1	0	0	0	0	1	0	0	0	3947	72	3	5	8383	5	CSMD1	8	3253782	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	215150	3253782	143110240	157	76054											
CSMD1	64478	broad.mit.edu	37	chr8	3855488	3855488	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccttcttctagctgaaagTcagtgaagaccagcgcaatg	12	10	9	10	1	3	3	1	2	2	1	4	3	4	3	2	0	2	2	2	0	4	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:3855488T>G	uc011kwk.1	-	5	1145	c.755A>C	c.(754-756)GAC>GCC	p.D252A		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	252	Extracellular (Potential).|CUB 2.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TAGCTGAAAGTCAGTGAAGAC	0.527													22	16					0	0	0.608945	0	0		G	3855488	G	G	3855488	3	3	142	1	0	0	0	0	1	0	0	0	3947	1667	58	5	10016	5	CSMD1	8	3855488	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	601706	3855488	142508534	158	76055											
SLC25A37	51312	broad.mit.edu	37	chr8	23429191	23429192	+	Missense_Mutation	DNP	GG	AT	AT																															aacatcagcggccggctgtcGggtatggccaatgccttccg																										TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:23429191_23429192GG>AT	uc003xdo.2	+	4	993_994	c.840_841GG>AT	c.(838-843)TCGGGT>TCATGT	p.G281C	SLC25A37_uc003xdp.2_RNA|SLC25A37_uc010ltz.2_RNA|SLC25A37_uc003xdq.2_RNA|uc003xds.2_5'Flank	NM_016612	NP_057696	Q9NYZ2	MFRN1_HUMAN	solute carrier family 25, member 37	281	Solcar 3.				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Prostate(55;0.114)		Colorectal(74;0.0198)|COAD - Colon adenocarcinoma(73;0.0751)		GCCGGCTGTCGGGTATGGCCAA	0.649													10	16					0	0	0.115264	0	0		AT	23429192	AT	AT	23429191	3	1	142	1	0	0	0	0	1	0	0	0	14526	1103	39	1	854	1	SLC25A37	8	23429191	Missense_Mutation	DNP	GG	TCGA-CG-4469-01A-01D-1158-08	19573703	23429191	122934831	159	76056											
EFCAB1	79645	broad.mit.edu	37	chr8	49644049	49644049	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctttataagacagttcacTtcaaatttattaactgaaat	16	15	4	6	0	2	2	2	1	0	1	2	2	2	2	0	0	2	2	0	0	6	8			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:49644049T>G	uc003xqo.2	-	2	232	c.72A>C	c.(70-72)GAA>GAC	p.E24D	EFCAB1_uc003xqn.3_Intron|EFCAB1_uc011ldj.1_Intron|EFCAB1_uc010lxx.2_Intron|EFCAB1_uc011ldk.1_Intron	NM_024593	NP_078869	Q9HAE3	EFCB1_HUMAN	EF-hand calcium binding domain 1 isoform a	24							calcium ion binding				0		all_epithelial(80;0.0134)|Lung NSC(129;0.0207)|all_lung(136;0.0464)				GACAGTTCACTTCAAATTTAT	0.318													39	65					0	0	0.834066	0	0		G	49644049	G	G	49644049	3	3	142	1	0	0	0	0	1	0	0	0	4939	1606	56	5	583	5	EFCAB1	8	49644049	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	26214858	49644049	96719973	160	76057											
TRPA1	8989	broad.mit.edu	37	chr8	72938301	72938301	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttctctaagctggtatgaAgttccacctaaagtgcattt	10	15	7	9	0	2	1	0	1	2	0	4	1	3	1	2	1	2	4	2	1	5	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:72938301A>C	uc003xza.2	-	25	3120	c.2945T>G	c.(2944-2946)CTT>CGT	p.L982R	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	982	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GCTGGTATGAAGTTCCACCTA	0.383													16	37					0	0	0.479597	0	0		C	72938301	C	C	72938301	3	2	142	1	0	0	0	0	1	0	0	0	16603	72	3	5	426	5	TRPA1	8	72938301	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	23294252	72938301	73425721	161	76058											
KCNB2	9312	broad.mit.edu	37	chr8	73480233	73480233	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacgagaacgagtatttCtttgatcggcatccaggagc	11	10	11	9	3	1	3	0	2	1	1	3	6	2	4	1	2	3	2	1	2	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:73480233C>A	uc003xzb.2	+	2	852	c.264C>A	c.(262-264)TTC>TTA	p.F88L		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	88	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			ACGAGTATTTCTTTGATCGGC	0.507													107	101					1.472e-32	1.589e-32	0.870114	1	0		A	73480233	A	A	73480233	3	1	142	1	0	0	0	0	1	0	0	0	8029	912	32	5	266	5	KCNB2	8	73480233	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	541932	73480233	72883789	162	76059											
TERF1	7013	broad.mit.edu	37	chr8	73921176	73921176	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcggggctgtgcggatggtAgggatgccgaccctactgag	6	7	18	10	4	0	1	0	1	0	0	0	4	0	3	2	5	3	2	2	5	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:73921176A>G	uc003xzd.2	+	1	80	c.55A>G	c.(55-57)AGG>GGG	p.R19G	TERF1_uc003xzc.2_RNA|TERF1_uc003xze.2_Missense_Mutation_p.R19G	NM_017489	NP_059523	P54274	TERF1_HUMAN	telomeric repeat binding factor 1 isoform 1	19	Asp/Glu-rich (acidic).				age-dependent telomere shortening|cell division|G2/M transition of mitotic cell cycle|induction of apoptosis|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of telomere maintenance via semi-conservative replication|negative regulation of telomere maintenance via telomerase|positive regulation of microtubule polymerization|positive regulation of mitosis|positive regulation of mitotic cell cycle|protein homooligomerization|regulation of transcription, DNA-dependent|telomere maintenance via telomerase|telomere maintenance via telomerase|telomere maintenance via telomere shortening	chromosome, telomeric region|cytoplasm|nuclear telomere cap complex|nucleoplasm|nucleus|spindle	caspase activator activity|DNA bending activity|double-stranded telomeric DNA binding|identical protein binding|microtubule binding|protein heterodimerization activity|protein homodimerization activity|telomerase inhibitor activity|telomeric DNA binding			ovary(1)|lung(1)|skin(1)	3	Breast(64;0.218)		Epithelial(68;0.0984)			TGCGGATGGTAGGGATGCCGA	0.622													12	37					0	0	0.411799	0	0		G	73921176	G	G	73921176	3	3	142	1	0	0	0	0	1	0	0	0	15786	411	15	3	57	3	TERF1	8	73921176	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	440943	73921176	72442846	163	76060											
RIMS2	9699	broad.mit.edu	37	chr8	104898096	104898096	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggctcagggaccaagttcTtatgcacaaaggaccacaaa	15	6	10	10	0	2	0	1	0	1	0	2	3	2	2	2	3	1	3	2	3	4	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:104898096T>G	uc003yls.2	+	2	844	c.603T>G	c.(601-603)TCT>TCG	p.S201S	RIMS2_uc003ylp.2_Silent_p.S423S|RIMS2_uc003ylw.2_Silent_p.S231S|RIMS2_uc003ylq.2_Silent_p.S231S|RIMS2_uc003ylr.2_Silent_p.S231S	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	454					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding	p.S231S(1)		ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GACCAAGTTCTTATGCACAAA	0.478										HNSCC(12;0.0054)			11	128					0	0	0.361761	0	0		G	104898096	G	G	104898096	2	3	142	1	0	0	0	0	0	0	0	1	13393	1596	56	5		5	RIMS2	8	104898096	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	30976920	104898096	41465926	164	76061											
LRP12	29967	broad.mit.edu	37	chr8	105503141	105503141	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagtctgaagatccatcAgaaattggaattagcatttc	15	12	7	7	0	3	3	2	1	1	2	5	4	4	4	1	1	1	1	1	1	5	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:105503141A>G	uc003yma.2	-	7	2435	c.2340T>C	c.(2338-2340)TCT>TCC	p.S780S	LRP12_uc003ymb.2_Silent_p.S761S|LRP12_uc003ylz.2_Silent_p.S186S	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	780	Cytoplasmic (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			AAGATCCATCAGAAATTGGAA	0.408													251	44					0	0	0.870114	0	0		G	105503141	G	G	105503141	2	3	142	1	0	0	0	0	0	0	0	1	8972	175	7	3		3	LRP12	8	105503141	Silent	SNP	A	TCGA-CG-4469-01A-01D-1158-08	605045	105503141	40860881	165	76062											
CSMD3	114788	broad.mit.edu	37	chr8	113301723	113301723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagtatacttctcgccagAcaggactgcattaggaggaa	15	8	10	8	1	1	1	0	0	1	1	2	4	1	4	1	3	2	2	1	3	6	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:113301723A>G	uc003ynu.2	-	57	9178	c.9019T>C	c.(9019-9021)TCT>CCT	p.S3007P	CSMD3_uc003yns.2_Missense_Mutation_p.S2209P|CSMD3_uc003ynt.2_Missense_Mutation_p.S2967P|CSMD3_uc011lhx.1_Missense_Mutation_p.S2838P	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3007	Sushi 21.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TTCTCGCCAGACAGGACTGCA	0.408										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			85	15					0	0	0.870114	0	0		G	113301723	G	G	113301723	3	3	142	1	0	0	0	0	1	0	0	0	3949	275	10	3	2164	3	CSMD3	8	113301723	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	7798582	113301723	33062299	166	76063											
CSMD3	114788	broad.mit.edu	37	chr8	113678505	113678505	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taggaaaaatatttgtgagaCctttcaaatgtaattttgat	15	16	7	3	0	1	2	1	2	0	1	1	4	1	3	1	1	0	1	1	1	6	7			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:113678505C>A	uc003ynu.2	-	17	2975	c.2816_splice	c.e17+1	p.R939_splice	CSMD3_uc003yns.2_Splice_Site_p.R211_splice|CSMD3_uc003ynt.2_Splice_Site_p.R899_splice|CSMD3_uc011lhx.1_Splice_Site_p.R835_splice	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ATTTGTGAGACCTTTCAAATG	0.313										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			11	12					1.08611e-07	1.10447e-07	0.38729	1	0		A	113678505	A	A	113678505	5	1	142	1	0	0	0	0	0	0	1	0	3949	521	18	5	8526	5	CSMD3	8	113678505	Splice_Site	SNP	C	TCGA-CG-4469-01A-01D-1158-08	376782	113678505	32685517	167	76064											
CSMD3	114788	broad.mit.edu	37	chr8	113812478	113812478	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctactcatgctcactatcaAgtctggtacaaagcttccag	11	11	7	12	0	4	0	3	0	1	0	5	0	5	0	1	1	4	4	1	1	5	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:113812478A>C	uc003ynu.2	-	13	2044	c.1885T>G	c.(1885-1887)TTG>GTG	p.L629V	CSMD3_uc003ynt.2_Missense_Mutation_p.L589V|CSMD3_uc011lhx.1_Missense_Mutation_p.L525V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	629	Extracellular (Potential).|CUB 3.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CTCACTATCAAGTCTGGTACA	0.393										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			77	85					0	0	0.870114	0	0		C	113812478	C	C	113812478	3	2	142	1	0	0	0	0	1	0	0	0	3949	69	3	5	9474	5	CSMD3	8	113812478	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	133973	113812478	32551544	168	76065											
WISP1	8840	broad.mit.edu	37	chr8	134232985	134232985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctggtgcccccacccgCggcgcgtgagcatacctggc	4	7	13	17	4	1	1	0	1	1	0	2	1	1	1	4	3	3	1	4	3	1	1	rs140971140		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:134232985C>T	uc003yub.2	+	3	587	c.511C>T	c.(511-513)CGG>TGG	p.R171W	WISP1_uc003yuc.2_Intron|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	171	VWFC.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			CCCCCACCCGCGGCGCGTGAG	0.672													38	105					0	0	0.870114	0	0		T	134232985	T	T	134232985	3	4	142	1	0	0	0	0	1	0	0	0	17398	759	27	1	521	1	WISP1	8	134232985	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	20420507	134232985	12131037	169	76066											
KHDRBS3	10656	broad.mit.edu	37	chr8	136657345	136657345	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatggactcagtgaggagActtatgattcctacggtgag	11	10	13	7	1	1	4	1	3	0	1	2	7	2	5	1	3	1	0	1	3	2	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr8:136657345A>G	uc003yuv.2	+	8	1328	c.934A>G	c.(934-936)ACT>GCT	p.T312A	KHDRBS3_uc003yuw.2_3'UTR|KHDRBS3_uc010mek.2_RNA	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal	312	Tyr-rich.				regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			CAGTGAGGAGACTTATGATTC	0.433													19	197					0	0	0.575678	0	0		G	136657345	G	G	136657345	3	3	142	1	0	0	0	0	1	0	0	0	8164	275	10	3	964	3	KHDRBS3	8	136657345	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	2424360	136657345	9706677	170	76067											
SH3GL2	6456	broad.mit.edu	37	chr9	17789403	17789403	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgcagcatcatctaaagaAgttggagggtcgacgcctgg	10	10	13	8	2	2	1	1	0	1	1	3	3	2	2	1	3	2	3	1	3	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr9:17789403A>C	uc003zna.2	+	6	767	c.479A>C	c.(478-480)AAG>ACG	p.K160T	SH3GL2_uc011lmx.1_Missense_Mutation_p.K125T|SH3GL2_uc011lmy.1_Missense_Mutation_p.K113T	NM_003026	NP_003017	Q99962	SH3G2_HUMAN	SH3-domain GRB2-like 2	160	BAR.				axon guidance|central nervous system development|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	cytosol|Golgi membrane|plasma membrane	identical protein binding|lipid binding			skin(1)	1				GBM - Glioblastoma multiforme(50;2.71e-10)|Lung(42;0.203)		CATCTAAAGAAGTTGGAGGGT	0.428													45	80					0	0	0.870114	0	0		C	17789403	C	C	17789403	3	2	142	1	0	0	0	0	1	0	0	0	14276	72	3	5	501	5	SH3GL2	9	17789403	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08		17789403	123424028	171	76068											
UBAP2	55833	broad.mit.edu	37	chr9	33922786	33922786	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgcatagccaggggccgCtcccgaggccaggggcccag	6	3	18	14	2	0	0	0	0	0	0	1	1	1	0	5	6	2	2	5	6	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr9:33922786C>G	uc003ztq.1	-	28	3276	c.3163G>C	c.(3163-3165)GCG>CCG	p.A1055P	UBAP2_uc011loc.1_Missense_Mutation_p.A964P|UBAP2_uc011lod.1_Missense_Mutation_p.A788P|UBAP2_uc011loe.1_Missense_Mutation_p.A810P|UBAP2_uc003ztn.1_Missense_Mutation_p.A294P|UBAP2_uc003zto.1_Missense_Mutation_p.A294P|UBAP2_uc003ztp.1_Missense_Mutation_p.A294P	NM_018449	NP_060919	Q5T6F2	UBAP2_HUMAN	ubiquitin associated protein 2	1055										ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)		CCAGGGGCCGCTCCCGAGGCC	0.632													54	63					0	0	0.870114	0	0		G	33922786	G	G	33922786	3	3	142	1	0	0	0	0	1	0	0	0	16863	797	28	5	204	5	UBAP2	9	33922786	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	16133383	33922786	107290645	172	76069											
FBXO10	26267	broad.mit.edu	37	chr9	37541762	37541762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caaggggaggccaccagcctCcatggtcacctaggagacag	11	4	13	13	0	1	1	1	0	0	1	2	3	2	2	5	5	1	0	5	5	2	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr9:37541762C>T	uc004aab.2	-	2	53	c.4G>A	c.(4-6)GAG>AAG	p.E2K	FBXO10_uc004aac.2_Missense_Mutation_p.E18K|FBXO10_uc004aad.2_Intron	NM_012166	NP_036298	Q9UK96	FBX10_HUMAN	F-box protein 10	2	F-box.					ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(5)	5				GBM - Glioblastoma multiforme(29;0.0107)		CCACCAGCCTCCATGGTCACC	0.468													20	42					0	0	0.575678	0	0		T	37541762	T	T	37541762	3	4	142	1	0	0	0	0	1	0	0	0	5740	864	30	4	2906	4	FBXO10	9	37541762	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	3618976	37541762	103671669	173	76070											
FAM75A6	389730	broad.mit.edu	37	chr9	43627079	43627079	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggccattcagggtgctgAgtttcaggtagggagagagc	11	8	16	6	0	2	2	2	1	0	1	2	4	2	3	1	4	2	3	1	4	2	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr9:43627079A>G	uc011lrb.1	-	4	1637	c.1608T>C	c.(1606-1608)ACT>ACC	p.T536T		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	536						integral to membrane					0						CAGGGTGCTGAGTTTCAGGTA	0.483													214	72					0	0	0.870114	0	0		G	43627079	G	G	43627079	2	3	142	1	0	0	0	0	0	0	0	1	5636	291	11	3		3	FAM75A6	9	43627079	Silent	SNP	A	TCGA-CG-4469-01A-01D-1158-08	6085317	43627079	97586352	174	76071											
RORB	6096	broad.mit.edu	37	chr9	77282711	77282711	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttcctttataggttcTgatgacctagtgaatgaagc	9	16	8	8	0	3	4	0	4	3	0	4	4	4	4	2	1	1	1	2	1	5	7			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr9:77282711T>C	uc004aji.2	+	8	1087	c.1038T>C	c.(1036-1038)TCT>TCC	p.S346S	RORB_uc004ajh.2_Silent_p.S335S	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	346	Ligand-binding (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						TTATAGGTTCTGATGACCTAG	0.373													101	130					0	0	0.870114	0	0		C	77282711	C	C	77282711	2	2	142	1	0	0	0	0	0	0	0	1	13554	1567	55	3		3	RORB	9	77282711	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	33655632	77282711	63930720	175	76072											
ROR2	4920	broad.mit.edu	37	chr9	94493274	94493274	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccctccatctggcctccgggGttccggcagtaggcgtgccc	3	8	13	17	3	1	0	0	0	1	0	4	0	4	0	6	5	1	3	6	5	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr9:94493274G>T	uc004arj.1	-	7	1300	c.1101C>A	c.(1099-1101)AAC>AAA	p.N367K	ROR2_uc004ari.1_Missense_Mutation_p.N227K|ROR2_uc004ark.2_Missense_Mutation_p.N367K	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	367	Extracellular (Potential).|Kringle.				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						GGCCTCCGGGGTTCCGGCAGT	0.612													52	90					2.0833e-19	2.17635e-19	0.870114	1	0		T	94493274	T	T	94493274	3	4	142	1	0	0	0	0	1	0	0	0	13552	1252	44	5	1742	5	ROR2	9	94493274	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	17210563	94493274	46720157	176	76073											
KIAA1529	57653	broad.mit.edu	37	chr9	100085179	100085179	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagaagacatggcaggagtgCctgatgcatgtgcagaattg	12	8	15	6	0	0	4	0	1	0	3	0	6	0	5	1	2	3	3	1	2	2	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr9:100085179C>T	uc011lut.1	+	24	2546	c.1773C>T	c.(1771-1773)TGC>TGT	p.C591C	KIAA1529_uc004axe.1_Silent_p.C591C|KIAA1529_uc004axg.1_Silent_p.C452C|KIAA1529_uc011lus.1_Silent_p.C409C|KIAA1529_uc010msm.1_RNA|KIAA1529_uc004axf.2_Silent_p.C452C|KIAA1529_uc011luv.1_Silent_p.C449C	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				GGCAGGAGTGCCTGATGCATG	0.552													24	52					0	0	0.654019	0	0		T	100085179	T	T	100085179	2	4	142	1	0	0	0	0	0	0	0	1	8256	747	26	2		2	KIAA1529	9	100085179	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	5591905	100085179	41128252	177	76074											
XPA	7507	broad.mit.edu	37	chr9	100456040	100456040	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcttttacattagccatGcctacaaaagtaagtaaaag	15	11	7	8	0	0	0	0	0	0	0	0	0	0	0	2	0	5	4	2	0	8	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr9:100456040G>A	uc004axr.3	-	2	291	c.174C>T	c.(172-174)GGC>GGT	p.G58G	XPA_uc004axs.3_RNA	NM_000380	NP_000371	P23025	XPA_HUMAN	xeroderma pigmentosum, complementation group A	58	Interaction with CEP164 and required for UV resistance.				nucleotide-excision repair, DNA damage removal	nucleoplasm	damaged DNA binding|metal ion binding|nucleotide binding|protein domain specific binding|protein homodimerization activity			breast(1)	1		Acute lymphoblastic leukemia(62;0.158)				CATTAGCCATGCCTACAAAAG	0.343			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		NER	Xeroderma_Pigmentosum				65	95					0	0	0.870114	0	0		A	100456040	A	A	100456040	2	1	142	1	0	0	0	0	0	0	0	1	17466	1333	46	2		2	XPA	9	100456040	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	370861	100456040	40757391	178	76075											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112705446	112705446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcgaggatgaagaggagaCgaaaaaggtgctaggctatg	15	7	15	4	2	0	3	0	1	0	2	1	7	0	4	0	4	1	2	0	4	6	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr9:112705446C>T	uc004bei.2	+	7	1169	c.977C>T	c.(976-978)ACG>ATG	p.T326M	PALM2_uc004bef.2_Missense_Mutation_p.T328M|PALM2_uc004beg.2_Missense_Mutation_p.T294M|PALM2_uc004beh.3_Missense_Mutation_p.T326M|PALM2-AKAP2_uc004bek.3_Intron|PALM2-AKAP2_uc004bej.3_Intron|PALM2-AKAP2_uc004bel.1_Intron	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	Error:Variant_position_missing_in_Q9Y2D5_after_alignment							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						GAAGAGGAGACGAAAAAGGTG	0.507													78	111					0	0	0.870114	0	0		T	112705446	T	T	112705446	3	4	142	1	0	0	0	0	1	0	0	0	11429	536	19	1		1	PALM2-AKAP2	9	112705446	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	12249406	112705446	28507985	179	76076											
ASTN2	23245	broad.mit.edu	37	chr9	119203072	119203072	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagatcttgtcagctatttCtgagagggcagaagggcaga	11	10	14	6	0	3	4	1	1	2	4	3	5	3	4	0	2	1	4	0	2	3	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr9:119203072C>A	uc004bjs.1	-	22	3700	c.3599_splice	c.e22-1	p.E1200_splice	ASTN2_uc004bjr.1_Splice_Site_p.E1196_splice|ASTN2_uc004bjt.1_Splice_Site_p.E1149_splice|ASTN2_uc004bjp.1_Splice_Site_p.E293_splice|ASTN2_uc004bjq.1_Splice_Site_p.E252_splice|ASTN2_uc011lxr.1_Splice_Site_p.E252_splice|ASTN2_uc011lxs.1_Splice_Site_p.E252_splice|ASTN2_uc011lxt.1_Splice_Site_p.E252_splice|ASTN2_uc004bjo.1_Splice_Site	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c							integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TCAGCTATTTCTGAGAGGGCA	0.398													53	71					1.48341e-19	1.55352e-19	0.870114	1	0		A	119203072	A	A	119203072	5	1	142	1	0	0	0	0	0	0	1	0	1066	927	32	5	470	5	ASTN2	9	119203072	Splice_Site	SNP	C	TCGA-CG-4469-01A-01D-1158-08	6497626	119203072	22010359	180	76077											
TLR4	7099	broad.mit.edu	37	chr9	120475788	120475788	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcatactcacaccagagTtgctttcaatggcatcttca	10	14	5	12	0	5	1	4	0	2	1	6	1	5	1	1	1	2	3	1	1	2	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr9:120475788T>G	uc004bjz.2	+	3	1673	c.1382T>G	c.(1381-1383)GTT>GGT	p.V461G	TLR4_uc004bka.2_Missense_Mutation_p.V421G|TLR4_uc004bkb.2_Missense_Mutation_p.V261G	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	461	Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						CACACCAGAGTTGCTTTCAAT	0.398													70	109					0	0	0.870114	0	0		G	120475788	G	G	120475788	3	3	142	1	0	0	0	0	1	0	0	0	15978	1725	60	5	1392	5	TLR4	9	120475788	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	1272716	120475788	20737643	181	76078											
ANAPC2	29882	broad.mit.edu	37	chr9	140079432	140079432	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtagaagaacctttgcacGtggcagcgccagcggcgcag	9	5	15	12	5	0	2	0	0	0	2	0	2	0	2	2	3	4	4	2	3	3	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr9:140079432G>A	uc004clr.1	-	4	1054	c.981C>T	c.(979-981)CAC>CAT	p.H327H	ANAPC2_uc004clq.1_Silent_p.H186H	NM_013366	NP_037498	Q9UJX6	ANC2_HUMAN	anaphase-promoting complex subunit 2	327					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cyclin catabolic process|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of synapse maturation|positive regulation of synaptic plasticity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of cyclin-dependent protein kinase activity	anaphase-promoting complex|cytosol|nucleoplasm	ubiquitin protein ligase binding|ubiquitin-protein ligase activity			ovary(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.000858)		ACCTTTGCACGTGGCAGCGCC	0.701													10	22					0	0	0.38729	0	0		A	140079432	A	A	140079432	2	1	142	1	0	0	0	0	0	0	0	1	603	1136	40	1		1	ANAPC2	9	140079432	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	19603644	140079432	1133999	182	76079											
GATA3	2625	broad.mit.edu	37	chr10	8115807	8115807	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatgactcactggaggacTtccccaagaacagctcgttt	10	10	9	12	1	1	2	1	1	0	1	3	4	2	4	2	2	3	3	2	2	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:8115807T>G	uc001ika.2	+	6	1710	c.1153T>G	c.(1153-1155)TTC>GTC	p.F385V	GATA3_uc001ijz.2_Missense_Mutation_p.F386V	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	385					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						ACTGGAGGACTTCCCCAAGAA	0.527			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						61	115					0	0	0.870114	0	0		G	8115807	G	G	8115807	3	3	142	1	0	0	0	0	1	0	0	0	6270	1609	56	5	1174	5	GATA3	10	8115807	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08		8115807	127418940	183	76080											
ANKRD30A	91074	broad.mit.edu	37	chr10	37431029	37431029	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatgagtcccgcaaaagaaAcatctgagaaatttacgtgg	15	10	9	7	2	1	3	0	2	1	2	2	4	2	3	1	1	2	1	1	1	6	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:37431029A>G	uc001iza.1	+	7	1135	c.1036A>G	c.(1036-1038)ACA>GCA	p.T346A		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	402						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						CGCAAAAGAAACATCTGAGAA	0.438													85	155					0	0	0.870114	0	0		G	37431029	G	G	37431029	3	3	142	1	0	0	0	0	1	0	0	0	658	43	2	3	1062	3	ANKRD30A	10	37431029	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	29315222	37431029	98103718	184	76081											
ANKRD30A	91074	broad.mit.edu	37	chr10	37505290	37505290	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacagttagagaaccaaaaAgttaaatgggaacaagagct	19	7	9	6	0	1	2	1	0	0	2	1	4	1	3	1	1	3	3	1	1	8	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:37505290A>C	uc001iza.1	+	32	2982	c.2883A>C	c.(2881-2883)AAA>AAC	p.K961N		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1017	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AGAACCAAAAAGTTAAATGGG	0.308													22	34					0	0	0.639603	0	0		C	37505290	C	C	37505290	3	2	142	1	0	0	0	0	1	0	0	0	658	69	3	5	3009	5	ANKRD30A	10	37505290	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	74261	37505290	98029457	185	76082											
ZNF32	7580	broad.mit.edu	37	chr10	44140004	44140004	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttccacagtgggtgcactCaaaaggcttttgaccagtgt	9	13	10	9	0	1	1	1	1	0	0	2	1	2	1	2	2	1	2	2	2	2	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:44140004C>G	uc001jbb.2	-	3	505	c.316G>C	c.(316-318)GAG>CAG	p.E106Q	uc001jba.2_Intron|ZNF32_uc001jbc.2_Missense_Mutation_p.E106Q	NM_001005368	NP_001005368	P17041	ZNF32_HUMAN	zinc finger protein 32	106	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		all_neural(218;0.0182)|Ovarian(717;0.0443)|Renal(717;0.157)		Lung(62;0.179)		TGGGTGCACTCAAAAGGCTTT	0.478													29	121					0	0	0.706142	0	0		G	44140004	G	G	44140004	3	3	142	1	0	0	0	0	1	0	0	0	17863	835	29	5	509	5	ZNF32	10	44140004	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	6634714	44140004	91394743	186	76083											
MAPK8	5599	broad.mit.edu	37	chr10	49634068	49634068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atagctttgagaaactcttcCctgatgtccttttcccagct	8	15	6	12	0	1	2	0	2	1	1	4	3	4	2	3	0	3	2	3	0	2	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:49634068C>T	uc009xnz.2	+	8	1050	c.826C>T	c.(826-828)CCT>TCT	p.P276S	MAPK8_uc001jgl.2_Missense_Mutation_p.P276S|MAPK8_uc001jgm.2_Missense_Mutation_p.P276S|MAPK8_uc001jgo.2_Missense_Mutation_p.P276S|MAPK8_uc009xoa.2_Intron|MAPK8_uc001jgn.2_Missense_Mutation_p.P276S|MAPK8_uc010qgk.1_Missense_Mutation_p.P276S|MAPK8_uc001jgp.2_Missense_Mutation_p.P276S|MAPK8_uc001jgq.2_Missense_Mutation_p.P276S	NM_139047	NP_620635	P45983	MK08_HUMAN	mitogen-activated protein kinase 8 isoform JNK1	276	Protein kinase.				activation of pro-apoptotic gene products|cellular response to mechanical stimulus|induction of apoptosis by intracellular signals|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of apoptosis|negative regulation of protein binding|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of deacetylase activity|regulation of protein localization|regulation of sequence-specific DNA binding transcription factor activity|response to UV|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|histone deacetylase binding|histone deacetylase regulator activity|JUN kinase activity|protein binding			central_nervous_system(3)|lung(2)|stomach(1)|ovary(1)|kidney(1)	8		Ovarian(717;0.0221)|Lung SC(717;0.113)|all_neural(218;0.116)		Epithelial(53;3.46e-65)|Lung(62;0.125)		GAAACTCTTCCCTGATGTCCT	0.383													69	131					0	0	0.870114	0	0		T	49634068	T	T	49634068	3	4	142	1	0	0	0	0	1	0	0	0	9301	623	22	4	928	4	MAPK8	10	49634068	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	5494064	49634068	85900679	187	76084											
PRKG1	5592	broad.mit.edu	37	chr10	54048563	54048563	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacatgatagaatttccaaAgaagattgccaaaaatgctg	17	10	8	6	0	0	5	0	2	0	3	1	5	1	5	2	0	2	1	2	0	6	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:54048563A>G	uc001jjm.2	+	15	1936	c.1742A>G	c.(1741-1743)AAG>AGG	p.K581R	PRKG1_uc001jjo.2_Missense_Mutation_p.K596R|PRKG1_uc009xow.1_Missense_Mutation_p.K299R|uc001jjq.1_Intron	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	581	Protein kinase.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		GAATTTCCAAAGAAGATTGCC	0.338													53	104					0	0	0.870114	0	0		G	54048563	G	G	54048563	3	3	142	1	0	0	0	0	1	0	0	0	12544	72	3	3	2115	3	PRKG1	10	54048563	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	4414495	54048563	81486184	188	76085											
PCGF5	84333	broad.mit.edu	37	chr10	93011167	93011167	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctagattgtttacgaaaTaatgggcaatcaggggacaa	14	11	11	5	1	2	1	1	0	1	1	2	3	2	2	0	3	1	2	0	3	6	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:93011167T>A	uc001khh.2	+	6	691	c.444T>A	c.(442-444)AAT>AAA	p.N148K	PCGF5_uc010qnk.1_Missense_Mutation_p.N148K|PCGF5_uc001khi.2_Missense_Mutation_p.N148K	NM_032373	NP_115749	Q86SE9	PCGF5_HUMAN	polycomb group ring finger 5	148					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|PcG protein complex	zinc ion binding			lung(1)	1						GTTTACGAAATAATGGGCAAT	0.333													60	114					0	0	0.870114	0	0		A	93011167	A	A	93011167	3	1	142	1	0	0	0	0	1	0	0	0	11596	1403	49	5	462	5	PCGF5	10	93011167	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	38962604	93011167	42523580	189	76086											
C10orf28	27291	broad.mit.edu	37	chr10	99969326	99969326	+	Frame_Shift_Del	DEL	T	-	-																															gctggtagtaattataacacTtttttggactctgaactcag																										TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:99969326delT	uc001kow.3	+	4	1750	c.1455delT	c.(1453-1455)ACTfs	p.T485fs	C10orf28_uc001kox.3_Frame_Shift_Del_p.T485fs|C10orf28_uc001koy.3_Frame_Shift_Del_p.T485fs|C10orf28_uc009xvx.2_Frame_Shift_Del_p.T485fs|C10orf28_uc009xvy.2_Intron|C10orf28_uc001koz.3_Intron	NM_014472	NP_055287	Q4KMY3	Q4KMY3_HUMAN	growth inhibition and differentiation related	485							nucleotide binding			large_intestine(1)|skin(1)	2		Colorectal(252;0.234)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)		ATTATAACACTTTTTTGGACT	0.393													66	78	---	---	---	---						.	-	99969326	-	-	99969326	7	5	142	1	0	1	0	1	0	0	0	0	1604	1596	56	0	1457	0	C10orf28	10	99969326	Frame_Shift_Del	DEL	T	TCGA-CG-4469-01A-01D-1158-08	6958159	99969326	35565421	190	76087											
ABLIM1	3983	broad.mit.edu	37	chr10	116198978	116198978	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagacactcctcggtccattCtcattgcaggcatgtggcca	8	11	9	13	1	1	1	1	0	1	1	5	1	3	1	3	3	1	2	3	3	1	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:116198978C>A	uc010qsg.1	-	20	2198	c.2099G>T	c.(2098-2100)AGA>ATA	p.R700I	ABLIM1_uc010qsh.1_Missense_Mutation_p.R668I|ABLIM1_uc010qsi.1_Missense_Mutation_p.R640I|ABLIM1_uc010qsf.1_Missense_Mutation_p.R377I	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	700					axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		TCGGTCCATTCTCATTGCAGG	0.483													43	75					2.13384e-23	2.25149e-23	0.870114	1	0		A	116198978	A	A	116198978	3	1	142	1	0	0	0	0	1	0	0	0	94	913	32	5	249	5	ABLIM1	10	116198978	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	16229652	116198978	19335769	191	76088											
ATRNL1	26033	broad.mit.edu	37	chr10	117059546	117059546	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcctgttgtttacagaaAgtatcaccttgggtaggctt	8	17	9	7	0	1	1	1	0	0	1	2	1	2	1	2	2	1	5	2	2	4	9			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:117059546A>C	uc001lcg.2	+	16	2804	c.2418A>C	c.(2416-2418)AAA>AAC	p.K806N	ATRNL1_uc010qsm.1_5'UTR|ATRNL1_uc010qsn.1_5'Flank	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	806	C-type lectin.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		GTTTACAGAAAGTATCACCTT	0.368													33	78					0	0	0.750413	0	0		C	117059546	C	C	117059546	3	2	142	1	0	0	0	0	1	0	0	0	1208	69	3	5	2480	5	ATRNL1	10	117059546	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	860568	117059546	18475201	192	76089											
GFRA1	2674	broad.mit.edu	37	chr10	117853305	117853305	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcacaccatggggccacaCtgaggctactggagtctatg	10	8	12	11	0	2	1	1	1	1	0	2	2	2	2	2	4	1	1	2	4	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:117853305C>A	uc001lcj.2	-	8	1621	c.923G>T	c.(922-924)AGT>ATT	p.S308I	GFRA1_uc001lci.2_Missense_Mutation_p.S303I|GFRA1_uc009xyr.2_Missense_Mutation_p.S303I	NM_005264	NP_005255	P56159	GFRA1_HUMAN	GDNF family receptor alpha 1 isoform a	308	3.				axon guidance	anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity			ovary(1)|pancreas(1)	2		Lung NSC(174;0.21)		all cancers(201;0.0337)		TGGGGCCACACTGAGGCTACT	0.413													41	77					4.86159e-25	5.15549e-25	0.870114	1	0		A	117853305	A	A	117853305	3	1	142	1	0	0	0	0	1	0	0	0	6362	565	20	5	490	5	GFRA1	10	117853305	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	793759	117853305	17681442	193	76090											
GFRA1	2674	broad.mit.edu	37	chr10	117884933	117884933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagggccttgtggcacttgCggcggttgcagacatcgttg	5	10	17	9	3	0	1	0	0	0	1	1	2	0	2	1	5	2	4	1	5	0	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:117884933C>T	uc001lcj.2	-	6	1267	c.569G>A	c.(568-570)CGC>CAC	p.R190H	GFRA1_uc001lci.2_Missense_Mutation_p.R185H|GFRA1_uc009xyr.2_Missense_Mutation_p.R185H	NM_005264	NP_005255	P56159	GFRA1_HUMAN	GDNF family receptor alpha 1 isoform a	190	2.				axon guidance	anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity			ovary(1)|pancreas(1)	2		Lung NSC(174;0.21)		all cancers(201;0.0337)		GTGGCACTTGCGGCGGTTGCA	0.607													18	33					0	0	0.693898	0	0		T	117884933	T	T	117884933	3	4	142	1	0	0	0	0	1	0	0	0	6362	768	27	1	852	1	GFRA1	10	117884933	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	31628	117884933	17649814	194	76091											
MMP21	118856	broad.mit.edu	37	chr10	127461299	127461299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctcccatcgaaggcccGcggacagcccaggtgccggc	6	3	13	19	5	0	0	0	0	0	0	2	2	1	1	5	4	2	1	5	4	1	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr10:127461299G>A	uc001liu.2	-	3	718	c.718C>T	c.(718-720)CGG>TGG	p.R240W		NM_147191	NP_671724	Q8N119	MMP21_HUMAN	matrix metalloproteinase 21 preproprotein	240					proteolysis	extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TCGAAGGCCCGCGGACAGCCC	0.652													30	45					0	0	0.750413	0	0		A	127461299	A	A	127461299	3	1	142	1	0	0	0	0	1	0	0	0	9678	1086	38	1	1011	1	MMP21	10	127461299	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	9576366	127461299	8073448	195	76092											
TNNI2	7136	broad.mit.edu	37	chr11	1862752	1862752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtctggcatggagggcCggaagaagatgtttgagtcc	11	8	16	6	1	1	4	0	1	1	3	2	6	2	6	2	4	0	2	2	4	3	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:1862752C>T	uc010qxe.1	+	6	542	c.520C>T	c.(520-522)CGG>TGG	p.R174W	TNNI2_uc010qxc.1_Missense_Mutation_p.R172W|TNNI2_uc010qxd.1_Missense_Mutation_p.R172W	NM_001145841	NP_001139313	P48788	TNNI2_HUMAN	fast-twitch skeletal muscle troponin I isoform	174			R -> Q (in DA2B).		muscle filament sliding|positive regulation of transcription, DNA-dependent|skeletal muscle contraction	cytosol|nucleus|troponin complex	actin binding|troponin T binding				0		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		CATGGAGGGCCGGAAGAAGAT	0.627													28	53					0	0	0.717897	0	0		T	1862752	T	T	1862752	3	4	142	1	0	0	0	0	1	0	0	0	16352	643	23	1	561	1	TNNI2	11	1862752	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08		1862752	133143764	196	76093											
MRGPRE	116534	broad.mit.edu	37	chr11	3249330	3249330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggacagccagtagatgcCgaagggcaggccgcagaaga	12	2	16	11	3	0	3	0	0	0	3	0	5	0	4	4	3	2	3	4	3	3	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:3249330C>T	uc001lxq.3	-	2	1007	c.697G>A	c.(697-699)GGC>AGC	p.G233S		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	233	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		Medulloblastoma(188;0.00106)|all_epithelial(84;0.00111)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00529)|LUSC - Lung squamous cell carcinoma(625;0.19)		CAGTAGATGCCGAAGGGCAGG	0.677													3	10					0	0	0.184627	0	0		T	3249330	T	T	3249330	3	4	142	1	0	0	0	0	1	0	0	0	9782	652	23	1	242	1	MRGPRE	11	3249330	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1386578	3249330	131757186	197	76094											
HBE1	3046	broad.mit.edu	37	chr11	5290789	5290789	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaatagcatctccaaaggaAgtcagcaccttcttgccatg	12	11	7	11	0	3	0	1	0	2	0	4	1	3	1	3	1	3	2	3	1	4	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:5290789A>C	uc001mal.1	-	2	463	c.210T>G	c.(208-210)ACT>ACG	p.T70T	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Silent_p.T70T	NM_005330	NP_005321	P02100	HBE_HUMAN	epsilon globin	70					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.34e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTCCAAAGGAAGTCAGCACCT	0.517													60	87					0	0	0.870114	0	0		C	5290789	C	C	5290789	2	2	142	1	0	0	0	0	0	0	0	1	6996	59	3	5		5	HBE1	11	5290789	Silent	SNP	A	TCGA-CG-4469-01A-01D-1158-08	2041459	5290789	129715727	198	76095											
OR51B4	79339	broad.mit.edu	37	chr11	5323134	5323134	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactgcctctgagcccaagaAgccagtcagcaagaaggggc	13	4	12	12	0	2	3	1	1	1	2	2	3	2	3	3	2	5	1	3	2	5	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:5323134A>G	uc010qza.1	-	1	43	c.43T>C	c.(43-45)TTC>CTC	p.F15L	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033179	NP_149419	Q9Y5P0	O51B4_HUMAN	olfactory receptor, family 51, subfamily B,	15	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAGCCCAAGAAGCCAGTCAGC	0.468											OREG0003718	type=REGULATORY REGION|Gene=OR51B4|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	39	71					0	0	0.847076	0	0		G	5323134	G	G	5323134	3	3	142	1	0	0	0	0	1	0	0	0	11109	72	3	3	892	3	OR51B4	11	5323134	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	32345	5323134	129683382	199	76096											
OR52L1	338751	broad.mit.edu	37	chr11	6007684	6007684	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaccattccgatgcacccTatgacccctggatgcaggat	10	8	8	15	1	0	1	0	1	0	0	1	4	1	3	6	2	2	2	6	2	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:6007684T>C	uc001mcd.2	-	1	532	c.477A>G	c.(475-477)ATA>ATG	p.I159M		NM_001005173	NP_001005173	Q8NGH7	O52L1_HUMAN	olfactory receptor, family 52, subfamily L,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.98e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CGATGCACCCTATGACCCCTG	0.517													31	51					0	0	0.769981	0	0		C	6007684	C	C	6007684	3	2	142	1	0	0	0	0	1	0	0	0	11144	1512	53	3	516	3	OR52L1	11	6007684	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	684550	6007684	128998832	200	76097											
CRY2	1408	broad.mit.edu	37	chr11	45869154	45869154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcgactccacgacaaccCggcgttgctggcggccgtgc	5	6	14	16	6	0	0	0	0	0	0	1	2	1	0	3	3	4	3	3	3	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:45869154C>T	uc010rgn.1	+	1	198	c.176C>T	c.(175-177)CCG>CTG	p.P59L	CRY2_uc009ykw.2_Intron	NM_021117	NP_066940	Q49AN0	CRY2_HUMAN	cryptochrome 2 (photolyase-like) isoform 1	38	DNA photolyase.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	blue light photoreceptor activity|damaged DNA binding|DNA photolyase activity|nucleotide binding|protein binding|single-stranded DNA binding			central_nervous_system(1)	1						CACGACAACCCGGCGTTGCTG	0.567													4	10					0	0	0.184627	0	0		T	45869154	T	T	45869154	3	4	142	1	0	0	0	0	1	0	0	0	3907	652	23	1	214	1	CRY2	11	45869154	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	39861470	45869154	89137362	201	76098											
OR4C12	283093	broad.mit.edu	37	chr11	50003778	50003778	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattaaaggagatgattttcTtctcttgaaaggaatccaca	14	13	7	7	0	2	3	0	2	2	1	4	5	3	4	1	2	0	0	1	2	4	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:50003778T>G	uc010ria.1	-	1	260	c.260A>C	c.(259-261)AAG>ACG	p.K87T		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GATGATTTTCTTCTCTTGAAA	0.438													81	113					0	0	0.870114	0	0		G	50003778	G	G	50003778	3	3	142	1	0	0	0	0	1	0	0	0	11065	1609	56	5	673	5	OR4C12	11	50003778	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	4134624	50003778	85002738	202	76099											
OR4C16	219428	broad.mit.edu	37	chr11	55340243	55340243	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagttatgtcatgctaataTtctcctatgtcatcttcttg	8	19	6	8	0	5	1	2	1	3	0	6	1	5	1	1	0	1	2	1	0	4	7			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:55340243T>G	uc010rih.1	+	1	640	c.640T>G	c.(640-642)TTC>GTC	p.F214V		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				CATGCTAATATTCTCCTATGT	0.428													58	68					0	0	0.870114	0	0		G	55340243	G	G	55340243	3	3	142	1	0	0	0	0	1	0	0	0	11068	1493	52	5	642	5	OR4C16	11	55340243	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	5336465	55340243	79666273	203	76100											
OR5L2	26338	broad.mit.edu	37	chr11	55595359	55595359	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcctacctgctaattcTcaccactatcctgaagatac	11	11	3	16	0	1	2	1	1	1	1	4	2	3	2	5	0	3	1	5	0	5	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:55595359T>C	uc001nhy.1	+	1	665	c.665T>C	c.(664-666)CTC>CCC	p.L222P		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				CTGCTAATTCTCACCACTATC	0.498										HNSCC(27;0.073)			53	160					0	0	0.870114	0	0		C	55595359	C	C	55595359	3	2	142	1	0	0	0	0	1	0	0	0	11190	1551	54	3	667	3	OR5L2	11	55595359	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	255116	55595359	79411157	204	76101											
OR8H3	390152	broad.mit.edu	37	chr11	55890015	55890015	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccgcctggacctccagcTtcacactcccatgtattttt	8	13	5	15	1	1	0	1	0	0	0	4	1	4	1	5	1	1	2	5	1	2	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:55890015T>G	uc001nii.1	+	1	167	c.167T>G	c.(166-168)CTT>CGT	p.L56R		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					GACCTCCAGCTTCACACTCCC	0.438													240	486					0	0	0.870114	0	0		G	55890015	G	G	55890015	3	3	142	1	0	0	0	0	1	0	0	0	11258	1609	56	5	169	5	OR8H3	11	55890015	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	294656	55890015	79116501	205	76102											
OR5T2	219464	broad.mit.edu	37	chr11	55999981	55999981	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtgtgagtgtcagaataAgaaatagcaaggagaggagg	15	9	15	2	0	1	4	1	1	0	3	1	6	1	5	0	3	1	1	0	3	5	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:55999981A>C	uc010rjc.1	-	1	681	c.681T>G	c.(679-681)TCT>TCG	p.S227S		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	227	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TGTCAGAATAAGAAATAGCAA	0.423													116	165					0	0	0.870114	0	0		C	55999981	C	C	55999981	2	2	142	1	0	0	0	0	0	0	0	1	11201	59	3	5		5	OR5T2	11	55999981	Silent	SNP	A	TCGA-CG-4469-01A-01D-1158-08	109966	55999981	79006535	206	76103											
OR5T1	390155	broad.mit.edu	37	chr11	56043937	56043937	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcatgtatgtgagaccaAgttccagctacacttcggac	10	12	8	11	1	2	1	1	1	1	1	4	3	3	2	2	1	2	3	2	1	3	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:56043937A>C	uc001nio.1	+	1	823	c.823A>C	c.(823-825)AGT>CGT	p.S275R		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	275	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TGTGAGACCAAGTTCCAGCTA	0.423													269	87					0	0	0.870114	0	0		C	56043937	C	C	56043937	3	2	142	1	0	0	0	0	1	0	0	0	11200	72	3	5	825	5	OR5T1	11	56043937	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	43956	56043937	78962579	207	76104											
OR8K3	219473	broad.mit.edu	37	chr11	56086621	56086621	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccatattttacaccctggTtatccccatgttgaatccct	8	16	4	13	0	0	1	0	1	0	0	3	1	3	1	5	1	1	2	5	1	4	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:56086621T>G	uc010rjf.1	+	1	839	c.839T>G	c.(838-840)GTT>GGT	p.V280G		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	280	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					TACACCCTGGTTATCCCCATG	0.373													31	58					0	0	0.779181	0	0		G	56086621	G	G	56086621	3	3	142	1	0	0	0	0	1	0	0	0	11263	1725	60	5	841	5	OR8K3	11	56086621	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	42684	56086621	78919895	208	76105											
OR5M11	219487	broad.mit.edu	37	chr11	56310202	56310202	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgagcggcgggtcagcacAgtagaagtggttgatgacac	12	7	15	7	2	1	4	1	3	0	1	1	4	1	4	0	3	2	3	0	3	3	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:56310202A>G	uc010rjl.1	-	1	532	c.532T>C	c.(532-534)TGT>CGT	p.C178R		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	178	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGGTCAGCACAGTAGAAGTGG	0.493													20	27					0	0	0.575678	0	0		G	56310202	G	G	56310202	3	3	142	1	0	0	0	0	1	0	0	0	11193	188	7	3	388	3	OR5M11	11	56310202	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	223581	56310202	78696314	209	76106											
CNTF	1270	broad.mit.edu	37	chr11	58391663	58391663	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgttttgttggccaggctcTtagaagaccagcaggtgcat	9	12	12	8	0	1	2	0	0	1	2	1	2	1	2	2	3	2	5	2	3	2	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:58391663T>C	uc001nna.3	+	2	351	c.271T>C	c.(271-273)TTA>CTA	p.L91L	ZFP91-CNTF_uc010rkm.1_RNA	NM_000614	NP_000605	P26441	CNTF_HUMAN	ciliary neurotrophic factor	91					ciliary neurotrophic factor-mediated signaling pathway|growth|negative regulation of neuron apoptosis|positive regulation of tyrosine phosphorylation of Stat3 protein		ciliary neurotrophic factor receptor binding|growth factor activity|interleukin-6 receptor binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				GGCCAGGCTCTTAGAAGACCA	0.498													28	51					0	0	0.750413	0	0		C	58391663	C	C	58391663	2	2	142	1	0	0	0	0	0	0	0	1	3640	1606	56	3		3	CNTF	11	58391663	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	2081461	58391663	76614853	210	76107											
OR4D11	219986	broad.mit.edu	37	chr11	59271453	59271453	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccctgcactatgtgaccatCatgagtagagggcaatgcac	11	8	10	12	0	1	3	1	2	0	1	1	3	1	3	3	1	2	4	3	1	3	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:59271453C>T	uc001noa.1	+	1	405	c.405C>T	c.(403-405)ATC>ATT	p.I135I		NM_001004706	NP_001004706	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						ATGTGACCATCATGAGTAGAG	0.537													136	204					0	0	0.870114	0	0		T	59271453	T	T	59271453	2	4	142	1	0	0	0	0	0	0	0	1	11074	816	29	4		4	OR4D11	11	59271453	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	879790	59271453	75735063	211	76108											
GPR44	11251	broad.mit.edu	37	chr11	60620847	60620847	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagcaggaagccgctggCgaacatgttgagaaagaaga	14	5	15	7	2	0	4	0	2	0	3	0	7	0	5	1	2	3	4	1	2	4	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:60620847C>G	uc001nqc.2	-	2	461	c.349G>C	c.(349-351)GCC>CCC	p.A117P		NM_004778	NP_004769	Q9Y5Y4	GPR44_HUMAN	G protein-coupled receptor 44	117	Helical; Name=3; (Potential).				immune response	integral to plasma membrane	N-formyl peptide receptor activity			ovary(1)	1						AAGCCGCTGGCGAACATGTTG	0.647													4	11					0	0	0.184627	0	0		G	60620847	G	G	60620847	3	3	142	1	0	0	0	0	1	0	0	0	6710	768	27	5	842	5	GPR44	11	60620847	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1349394	60620847	74385669	212	76109											
NPAS4	266743	broad.mit.edu	37	chr11	66192584	66192584	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccaggaggggccccatcGccttgcaacaacctgtcccc	7	5	11	18	1	0	0	0	0	0	0	2	1	1	1	7	4	3	1	7	4	2	1	rs151135507		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:66192584G>A	uc001ohx.1	+	7	2399	c.2223G>A	c.(2221-2223)TCG>TCA	p.S741S	NPAS4_uc010rpc.1_Silent_p.S531S	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	741					transcription, DNA-dependent		DNA binding|signal transducer activity				0						GGGCCCCATCGCCTTGCAACA	0.587													59	95					0	0	0.870114	0	0		A	66192584	A	A	66192584	2	1	142	1	0	0	0	0	0	0	0	1	10584	1074	38	1		1	NPAS4	11	66192584	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	5571737	66192584	68813932	213	76110											
NOX4	50507	broad.mit.edu	37	chr11	89133448	89133448	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgacatctgagggatgacTcatgaccgaaatgatggtga	13	9	12	7	1	2	6	1	6	1	0	2	8	2	7	1	2	0	0	1	2	1	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:89133448T>G	uc001pct.2	-	10	1185	c.946A>C	c.(946-948)AGT>CGT	p.S316R	NOX4_uc009yvr.2_Missense_Mutation_p.S291R|NOX4_uc001pcu.2_Missense_Mutation_p.S242R|NOX4_uc001pcw.2_Intron|NOX4_uc001pcx.2_Intron|NOX4_uc001pcv.2_Missense_Mutation_p.S316R|NOX4_uc009yvo.2_Intron|NOX4_uc010rtu.1_Missense_Mutation_p.S150R|NOX4_uc009yvp.2_Intron|NOX4_uc010rtv.1_Missense_Mutation_p.S292R|NOX4_uc009yvq.2_Missense_Mutation_p.S292R	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	316	FAD-binding FR-type.|Extracellular (Potential).|Mediates interaction with TLR4.				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				GAGGGATGACTCATGACCGAA	0.438													70	122					0	0	0.870114	0	0		G	89133448	G	G	89133448	3	3	142	1	0	0	0	0	1	0	0	0	10577	1551	54	5	826	5	NOX4	11	89133448	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	22940864	89133448	45873068	214	76111											
CADM1	23705	broad.mit.edu	37	chr11	115102154	115102154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agtgcagttgacttcaatctCctcaccttccaccgcagtgt	8	12	7	14	1	3	1	2	1	1	0	5	1	4	1	4	0	1	3	4	0	1	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:115102154C>T	uc001ppi.3	-	4	610	c.481G>A	c.(481-483)GAG>AAG	p.E161K	CADM1_uc001ppf.3_Missense_Mutation_p.E161K|CADM1_uc001ppk.3_Missense_Mutation_p.E161K|CADM1_uc001ppj.3_Missense_Mutation_p.E161K|CADM1_uc001ppl.2_Missense_Mutation_p.E161K	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	161	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		ACTTCAATCTCCTCACCTTCC	0.448													50	110					0	0	0.870114	0	0		T	115102154	T	T	115102154	3	4	142	1	0	0	0	0	1	0	0	0	2569	864	30	4	875	4	CADM1	11	115102154	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	25968706	115102154	19904362	215	76112											
TMPRSS13	84000	broad.mit.edu	37	chr11	117787939	117787939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagcacgcacccgatgaGcggtagctgcttctggccct	7	7	14	13	3	1	1	0	1	1	0	1	4	1	2	2	3	4	5	2	3	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:117787939G>A	uc001prs.1	-	3	595	c.502C>T	c.(502-504)CTC>TTC	p.L168F	TMPRSS13_uc009yzr.1_Intron|TMPRSS13_uc001prt.1_5'UTR|TMPRSS13_uc001pru.1_Missense_Mutation_p.L168F	NM_001077263	NP_001070731	Q9BYE2	TMPSD_HUMAN	transmembrane protease, serine 13	163	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			pancreas(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.00106)		CACCCGATGAGCGGTAGCTGC	0.627													8	30					0	0	0.361761	0	0		A	117787939	A	A	117787939	3	1	142	1	0	0	0	0	1	0	0	0	16270	971	34	2	1245	2	TMPRSS13	11	117787939	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	2685785	117787939	17218577	216	76113											
OAF	220323	broad.mit.edu	37	chr11	120097661	120097661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgtgccgaggccgtggatgCcatctacacccgccaggagg	7	6	15	13	3	1	0	0	0	1	0	1	3	1	2	5	4	3	0	5	4	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:120097661C>T	uc001pxb.2	+	3	744	c.503C>T	c.(502-504)GCC>GTC	p.A168V		NM_178507	NP_848602	Q86UD1	OAF_HUMAN	OAF homolog precursor	168											0		Breast(109;0.00663)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)		GCCGTGGATGCCATCTACACC	0.657													18	44					0	0	0.592651	0	0		T	120097661	T	T	120097661	3	4	142	1	0	0	0	0	1	0	0	0	10817	739	26	2	513	2	OAF	11	120097661	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	2309722	120097661	14908855	217	76114											
GRIK4	2900	broad.mit.edu	37	chr11	120833306	120833306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctggaatccaccatgaacGagtactatcggcagcgaaac	13	7	9	12	3	0	1	0	1	0	0	3	4	2	2	3	2	4	2	3	2	5	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:120833306G>A	uc001pxn.2	+	18	2469	c.2182G>A	c.(2182-2184)GAG>AAG	p.E728K	GRIK4_uc009zav.1_Missense_Mutation_p.E728K|GRIK4_uc009zaw.1_Missense_Mutation_p.E728K|GRIK4_uc009zax.1_Missense_Mutation_p.E728K	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	728	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	CACCATGAACGAGTACTATCG	0.557													43	62					0	0	0.870114	0	0		A	120833306	A	A	120833306	3	1	142	1	0	0	0	0	1	0	0	0	6792	1059	37	1	2244	1	GRIK4	11	120833306	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	735645	120833306	14173210	218	76115											
ASAM	79827	broad.mit.edu	37	chr11	122953807	122953807	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gcttacactgtacagttactCgcaccacacagctttccttc	9	12	5	15	1	0	0	0	0	0	0	3	0	1	0	2	0	4	5	2	0	3	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:122953807C>G	uc001pyt.2	-	5	1024	c.665G>C	c.(664-666)CGA>CCA	p.R222P		NM_024769	NP_079045	Q9H6B4	CLMP_HUMAN	adipocyte-specific adhesion molecule precursor	222	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane|tight junction					0		Breast(109;0.0025)|Lung NSC(97;0.0179)|all_lung(97;0.0182)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.73e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)		TACAGTTACTCGCACCACACA	0.428													87	48					0	0	0.870114	0	0		G	122953807	G	G	122953807	3	3	142	1	0	0	0	0	1	0	0	0	1010	884	31	5	468	5	ASAM	11	122953807	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	2120501	122953807	12052709	219	76116											
OR8D1	283159	broad.mit.edu	37	chr11	124180410	124180410	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtattcttctttcctaggaAgttcaccagcattttgggag	8	16	9	8	0	3	0	1	0	2	0	4	2	4	2	2	2	1	3	2	2	3	8			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:124180410A>G	uc010sag.1	-	1	253	c.253T>C	c.(253-255)TTC>CTC	p.F85L		NM_001002917	NP_001002917	Q8WZ84	OR8D1_HUMAN	olfactory receptor, family 8, subfamily D,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		TTTCCTAGGAAGTTCACCAGC	0.468													24	27					0	0	0.624587	0	0		G	124180410	G	G	124180410	3	3	142	1	0	0	0	0	1	0	0	0	11250	72	3	3	676	3	OR8D1	11	124180410	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	1226603	124180410	10826106	220	76117											
OR8D2	283160	broad.mit.edu	37	chr11	124189189	124189189	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccttcccctagtcatcttcTtcagtgcatttttcacatcc	6	16	4	15	0	5	0	3	0	2	0	7	0	7	0	4	0	1	1	4	0	1	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr11:124189189T>G	uc010sah.1	-	1	905	c.905A>C	c.(904-906)AAG>ACG	p.K302T		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	302	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0525)		AGTCATCTTCTTCAGTGCATT	0.393													4	129					0	0	0.150653	0	0		G	124189189	G	G	124189189	3	3	142	1	0	0	0	0	1	0	0	0	11251	1609	56	5	33	5	OR8D2	11	124189189	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	8779	124189189	10817327	221	76118											
KCNA1	3736	broad.mit.edu	37	chr12	5021847	5021847	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccacgtcagttcccctaacTtagcctctgacagtgacctc	8	11	6	16	1	2	2	1	2	1	0	5	2	4	2	5	0	2	1	5	0	2	3	rs139518461		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:5021847T>G	uc001qnh.2	+	2	2408	c.1303T>G	c.(1303-1305)TTA>GTA	p.L435V		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	435					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TTCCCCTAACTTAGCCTCTGA	0.488													182	313					0	0	0.870114	0	0		G	5021847	G	G	5021847	3	3	142	1	0	0	0	0	1	0	0	0	8017	1606	56	5	1305	5	KCNA1	12	5021847	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08		5021847	128830048	222	76119											
GPR162	27239	broad.mit.edu	37	chr12	6933903	6933903	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcgccatcgtctttctctAtgactcactcacaggggtgc	7	11	9	14	2	4	1	2	1	2	0	6	1	4	1	1	2	2	0	1	2	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:6933903A>G	uc001qqw.1	+	2	1374	c.839A>G	c.(838-840)TAT>TGT	p.Y280C	LEPREL2_uc001qqz.1_5'Flank|GPR162_uc010sfn.1_Missense_Mutation_p.Y280C|GPR162_uc001qqx.1_Intron|GPR162_uc009zfd.1_Intron|GPR162_uc001qqy.1_Intron	NM_019858	NP_062832	Q16538	GP162_HUMAN	G protein-coupled receptor 162 isoform 2	280	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GTCTTTCTCTATGACTCACTC	0.597													29	61					0	0	0.750413	0	0		G	6933903	G	G	6933903	3	3	142	1	0	0	0	0	1	0	0	0	6681	449	16	3	860	3	GPR162	12	6933903	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	1912056	6933903	126917992	223	76120											
SLCO1C1	53919	broad.mit.edu	37	chr12	20874854	20874854	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctggtatttaccaaagAgtttaccaagatcccaaagt	13	13	6	9	0	1	2	0	0	1	2	2	2	2	2	3	1	2	2	3	1	6	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:20874854A>G	uc001rej.3	+	9	1247	c.892A>G	c.(892-894)AGT>GGT	p.S298G	SLCO1C1_uc010sii.1_Missense_Mutation_p.S298G|SLCO1C1_uc010sij.1_Missense_Mutation_p.S249G|SLCO1C1_uc009zip.2_Missense_Mutation_p.S132G|SLCO1C1_uc001rei.2_Missense_Mutation_p.S298G|SLCO1C1_uc010sik.1_Missense_Mutation_p.S180G	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	298	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					TTTACCAAAGAGTTTACCAAG	0.438													34	50					0	0	0.769981	0	0		G	20874854	G	G	20874854	3	3	142	1	0	0	0	0	1	0	0	0	14750	304	11	3	918	3	SLCO1C1	12	20874854	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	13940951	20874854	112977041	224	76121											
SLCO1C1	53919	broad.mit.edu	37	chr12	20905343	20905343	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attatgtttcaaaacacagaAgttttataaccaagagagaa	19	11	6	5	0	1	3	1	0	0	3	1	4	1	3	1	0	2	2	1	0	8	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:20905343A>C	uc001rej.3	+	16	2375	c.2020A>C	c.(2020-2022)AGT>CGT	p.S674R	SLCO1C1_uc010sii.1_Missense_Mutation_p.K708T|SLCO1C1_uc010sij.1_Missense_Mutation_p.S625R|SLCO1C1_uc009zip.2_Missense_Mutation_p.K542T|SLCO1C1_uc001rei.2_Missense_Mutation_p.S674R|SLCO1C1_uc010sik.1_Missense_Mutation_p.K590T	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	674	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					AAAACACAGAAGTTTTATAAC	0.358													37	51					0	0	0.779181	0	0		C	20905343	C	C	20905343	3	2	142	1	0	0	0	0	1	0	0	0	14750	72	3	5	2177	5	SLCO1C1	12	20905343	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	30489	20905343	112946552	225	76122											
SOX5	6660	broad.mit.edu	37	chr12	23908618	23908618	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccattgcaagaagcttgtcTttccagtcctttgagagtag	9	13	9	10	0	1	2	0	1	1	2	3	3	3	2	3	0	2	3	3	0	3	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:23908618T>C	uc001rfw.2	-	4	624	c.522A>G	c.(520-522)AAA>AAG	p.K174K	SOX5_uc001rfx.2_Silent_p.K161K|SOX5_uc001rfy.2_Silent_p.K161K|SOX5_uc010siv.1_Silent_p.K161K|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Silent_p.K126K	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	174					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						GAAGCTTGTCTTTCCAGTCCT	0.363													55	99					0	0	0.870114	0	0		C	23908618	C	C	23908618	2	2	142	1	0	0	0	0	0	0	0	1	14979	1606	56	3		3	SOX5	12	23908618	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	3003275	23908618	109943277	226	76123											
PRICKLE1	144165	broad.mit.edu	37	chr12	42858713	42858713	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagagactcagatcatccaAttttcgagaaagggtgtcat	13	10	11	7	1	3	3	3	0	0	3	5	6	4	4	1	2	0	0	1	2	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:42858713A>G	uc010skv.1	-	7	1410	c.1123T>C	c.(1123-1125)TTG>CTG	p.L375L	PRICKLE1_uc001rnl.2_Silent_p.L375L|PRICKLE1_uc010skw.1_Silent_p.L375L|PRICKLE1_uc001rnm.2_Silent_p.L375L	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	375					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		AGATCATCCAATTTTCGAGAA	0.468													43	86					0	0	0.834066	0	0		G	42858713	G	G	42858713	2	3	142	1	0	0	0	0	0	0	0	1	12508	98	4	3		3	PRICKLE1	12	42858713	Silent	SNP	A	TCGA-CG-4469-01A-01D-1158-08	18950095	42858713	90993182	227	76124											
DGKA	1606	broad.mit.edu	37	chr12	56335328	56335328	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccagtatatattaaaccctCgacaggtgttcaacctccta	12	12	5	12	1	1	0	1	0	0	0	4	1	3	0	4	1	2	2	4	1	7	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:56335328C>T	uc001sij.2	+	15	1474	c.1210C>T	c.(1210-1212)CGA>TGA	p.R404*	DGKA_uc001sih.1_Nonsense_Mutation_p.R292*|DGKA_uc001sii.1_Nonsense_Mutation_p.R262*|DGKA_uc009zod.1_Nonsense_Mutation_p.R323*|DGKA_uc001sik.2_Nonsense_Mutation_p.R404*|DGKA_uc001sil.2_Nonsense_Mutation_p.R404*|DGKA_uc001sim.2_Nonsense_Mutation_p.R404*|DGKA_uc001sin.2_Nonsense_Mutation_p.R404*|DGKA_uc009zof.2_Nonsense_Mutation_p.R50*|DGKA_uc001sio.2_Nonsense_Mutation_p.R146*	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	404	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	ATTAAACCCTCGACAGGTGTT	0.488													83	123					0	0	0.870114	0	0		T	56335328	T	T	56335328	4	4	142	1	0	0	0	0	0	1	0	0	4471	876	31	1	1264	1	DGKA	12	56335328	Nonsense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	13476615	56335328	77516567	228	76125											
TBC1D15	64786	broad.mit.edu	37	chr12	72291645	72291645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtgatgaatacttcagaatGaaactgcagtggaaatccat	16	10	9	6	0	1	4	1	3	0	1	2	5	2	5	1	1	3	1	1	1	5	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:72291645G>A	uc001swu.2	+	11	1233	c.1224G>A	c.(1222-1224)ATG>ATA	p.M408I	TBC1D15_uc009zrv.2_Missense_Mutation_p.M270I|TBC1D15_uc010stt.1_Missense_Mutation_p.M377I|TBC1D15_uc001swv.2_Missense_Mutation_p.M391I|TBC1D15_uc001sww.2_Missense_Mutation_p.M140I	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	386	Rab-GAP TBC.						protein binding|Rab GTPase activator activity				0						ACTTCAGAATGAAACTGCAGT	0.299													34	57					0	0	0.788014	0	0		A	72291645	A	A	72291645	3	1	142	1	0	0	0	0	1	0	0	0	15629	1290	45	4	1324	4	TBC1D15	12	72291645	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	15956317	72291645	61560250	229	76126											
TRHDE	29953	broad.mit.edu	37	chr12	73046203	73046203	+	Missense_Mutation	SNP	C	G	G																															gaaattccattccaccacagCagtttctgagaagaaaatat																										TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:73046203C>G	uc001sxa.2	+	16	2672	c.2642C>G	c.(2641-2643)GCA>GGA	p.A881G		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	881	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TCCACCACAGCAGTTTCTGAG	0.378													66	89					0	0	0.870114	0	0		G	73046203	G	G	73046203	3	3	142	1	0	0	0	0	1	0	0	0	16505	710	25	5	2704	5	TRHDE	12	73046203	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	754558	73046203	60805692	230	76127	140	2									
TRHDE	29953	broad.mit.edu	37	chr12	73046210	73046210	+	Silent	SNP	T	C	C																															cattccaccacagcagtttcTgagaagaaaatattattgga																										TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:73046210T>C	uc001sxa.2	+	16	2679	c.2649T>C	c.(2647-2649)TCT>TCC	p.S883S		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	883	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						CAGCAGTTTCTGAGAAGAAAA	0.373													62	96					0	0	0.870114	0	0		C	73046210	C	C	73046210	2	2	142	1	0	0	0	0	0	0	0	1	16505	1567	55	3		3	TRHDE	12	73046210	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	7	73046210	60805685	231	76128	140	2									
TMTC3	160418	broad.mit.edu	37	chr12	88542204	88542204	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atgatgtttcagcaatactgGataacaaagacttgcatcca	15	11	7	8	0	1	2	1	1	0	1	2	3	2	3	1	1	4	3	1	1	4	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:88542204G>C	uc001tau.2	+	2	332	c.112G>C	c.(112-114)GAT>CAT	p.D38H	TMTC3_uc009zsm.2_RNA	NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat	38						integral to membrane	binding			skin(1)	1						AGCAATACTGGATAACAAAGA	0.348													40	83					0	0	0.827153	0	0		C	88542204	C	C	88542204	3	2	142	1	0	0	0	0	1	0	0	0	16287	1174	41	5	114	5	TMTC3	12	88542204	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	15495994	88542204	45309691	232	76129											
NUAK1	9891	broad.mit.edu	37	chr12	106461101	106461101	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcattactgtccaacagctCcgaagactcactgcgctctg	10	10	7	14	2	3	1	2	0	1	1	5	2	5	1	2	0	4	2	2	0	3	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:106461101C>A	uc001tlj.1	-	7	2845	c.1465G>T	c.(1465-1467)GAG>TAG	p.E489*		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	489							ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						TCCAACAGCTCCGAAGACTCA	0.592													52	90					2.69953e-25	2.86996e-25	0.870114	1	0		A	106461101	A	A	106461101	4	1	142	1	0	0	0	0	0	1	0	0	10731	864	30	5	524	5	NUAK1	12	106461101	Nonsense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	17918897	106461101	27390794	233	76130											
ASCL4	121549	broad.mit.edu	37	chr12	108169333	108169333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcctcagcaaagtggagaCgctccgcgctgccatcgact	8	6	12	15	5	1	1	1	0	0	1	3	3	2	1	3	1	2	3	3	1	1	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:108169333C>T	uc001tmr.2	+	1	1172	c.341C>T	c.(340-342)ACG>ATG	p.T114M		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	113	Helix-loop-helix motif.				regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						AAAGTGGAGACGCTCCGCGCT	0.726													4	11					0	0	0.217242	0	0		T	108169333	T	T	108169333	3	4	142	1	0	0	0	0	1	0	0	0	1037	536	19	1	343	1	ASCL4	12	108169333	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1708232	108169333	25682562	234	76131											
ANAPC7	51434	broad.mit.edu	37	chr12	110841453	110841453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgctctgcaaagccgcggGcagcggcggcagcactgact	7	5	14	15	4	1	1	0	1	1	0	1	1	1	1	2	3	5	5	2	3	1	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:110841453G>A	uc001tqo.2	-	1	83	c.82C>T	c.(82-84)CCC>TCC	p.P28S	ANAPC7_uc001tqp.3_Missense_Mutation_p.P28S	NM_016238	NP_057322	Q9UJX3	APC7_HUMAN	anaphase-promoting complex subunit 7 isoform a	28					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding				0						AAAGCCGCGGGCAGCGGCGGC	0.642													9	7					0	0	0.411799	0	0		A	110841453	A	A	110841453	3	1	142	1	0	0	0	0	1	0	0	0	606	1203	42	2	1765	2	ANAPC7	12	110841453	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	2672120	110841453	23010442	235	76132											
CUX2	23316	broad.mit.edu	37	chr12	111779618	111779618	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctatggcctcatcagcacCggctcagacagtgagtcccc	8	7	10	16	2	3	2	3	1	0	1	4	2	4	2	4	2	1	3	4	2	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:111779618C>T	uc001tsa.1	+	21	3573	c.3420C>T	c.(3418-3420)ACC>ACT	p.T1140T		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	1140						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						TCATCAGCACCGGCTCAGACA	0.657													61	105					0	0	0.870114	0	0		T	111779618	T	T	111779618	2	4	142	1	0	0	0	0	0	0	0	1	4068	639	23	1		1	CUX2	12	111779618	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	938165	111779618	22072277	236	76133											
TBX3	6926	broad.mit.edu	37	chr12	115112506	115112506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcgaaaaggtgagccttgaCcgcggggctgcccttgtcac	8	7	14	12	3	1	2	1	2	0	0	1	3	1	2	3	3	3	1	3	3	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:115112506C>T	uc001tvt.1	-	7	2198	c.1234G>A	c.(1234-1236)GTC>ATC	p.V412I	TBX3_uc001tvu.1_Missense_Mutation_p.V392I	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	412					anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		TGAGCCTTGACCGCGGGGCTG	0.697													6	17					0	0	0.27861	0	0		T	115112506	T	T	115112506	3	4	142	1	0	0	0	0	1	0	0	0	15684	507	18	4	1005	4	TBX3	12	115112506	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	3332888	115112506	18739389	237	76134											
DHX37	57647	broad.mit.edu	37	chr12	125453092	125453092	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcacctgcgggcagcaTccggtggatcttgcagacct	6	8	13	14	2	2	1	1	0	1	1	3	2	3	2	4	4	3	3	4	4	0	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:125453092T>A	uc001ugy.2	-	10	1495	c.1396A>T	c.(1396-1398)ATG>TTG	p.M466L		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	466	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		GCGGGCAGCATCCGGTGGATC	0.602													125	166					0	0	0.870114	0	0		A	125453092	A	A	125453092	3	1	142	1	0	0	0	0	1	0	0	0	4516	1435	50	5	2149	5	DHX37	12	125453092	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	10340586	125453092	8398803	238	76135											
TMEM132D	121256	broad.mit.edu	37	chr12	129559097	129559097	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtctgcaagtggctgtTgtcatctaaaaggctttcct	8	14	11	8	0	3	0	1	0	2	0	4	1	4	0	1	3	1	4	1	3	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr12:129559097T>C	uc009zyl.1	-	9	2951	c.2623A>G	c.(2623-2625)AAC>GAC	p.N875D	TMEM132D_uc001uia.2_Missense_Mutation_p.N413D	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	875	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		AAGTGGCTGTTGTCATCTAAA	0.552													45	64					0	0	0.864702	0	0		C	129559097	C	C	129559097	3	2	142	1	0	0	0	0	1	0	0	0	16072	1812	63	3	680	3	TMEM132D	12	129559097	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	4106005	129559097	4292798	239	76136											
SACS	26278	broad.mit.edu	37	chr13	23914825	23914825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccttcttcattacaaaagaGatcctttagtacttctatat	12	17	3	9	0	3	1	1	0	2	1	5	2	5	1	2	0	2	1	2	0	7	9			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr13:23914825G>A	uc001uon.2	-	10	3779	c.3190C>T	c.(3190-3192)CTC>TTC	p.L1064F	SACS_uc001uoo.2_Missense_Mutation_p.L917F|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1064					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TTACAAAAGAGATCCTTTAGT	0.388													236	184					0	0	0.870114	0	0		A	23914825	A	A	23914825	3	1	142	1	0	0	0	0	1	0	0	0	13829	942	33	4	10553	4	SACS	13	23914825	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08		23914825	91255053	240	76137											
NBEA	26960	broad.mit.edu	37	chr13	35883675	35883675	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccttttaggaatggcaaaActctattcagaagaatgcag	14	11	8	8	0	2	2	1	0	1	2	3	3	3	3	1	2	2	2	1	2	7	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr13:35883675A>C	uc001uvb.2	+	36	6055	c.5849A>C	c.(5848-5850)AAC>ACC	p.N1950T	NBEA_uc010abi.2_Missense_Mutation_p.N606T	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1950						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GAATGGCAAAACTCTATTCAG	0.308													3	12					0	0	0.184627	0	0		C	35883675	C	C	35883675	3	2	142	1	0	0	0	0	1	0	0	0	10205	43	2	5	5991	5	NBEA	13	35883675	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	11968850	35883675	79286203	241	76138											
MAB21L1	4081	broad.mit.edu	37	chr13	36049356	36049356	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcactgcaggcaggagataAgttgcagcaaaatcccgttc	12	7	12	10	1	0	1	0	0	0	1	2	2	1	1	1	3	3	7	1	3	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr13:36049356A>C	uc001uvc.2	-	1	1477	c.920T>G	c.(919-921)CTT>CGT	p.L307R	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	307					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		GCAGGAGATAAGTTGCAGCAA	0.527													141	120					0	0	0.870114	0	0		C	36049356	C	C	36049356	3	2	142	1	0	0	0	0	1	0	0	0	9159	72	3	5	163	5	MAB21L1	13	36049356	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	165681	36049356	79120522	242	76139											
TRPC4	7223	broad.mit.edu	37	chr13	38357117	38357117	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctccactaggttttttGtggttcaataacagctcaac	9	17	6	9	0	3	0	2	0	1	0	4	0	3	0	1	2	3	3	1	2	4	8			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr13:38357117G>T	uc001uws.2	-	2	589	c.354C>A	c.(352-354)CAC>CAA	p.H118Q	TRPC4_uc010abv.2_5'UTR|TRPC4_uc001uwt.2_Missense_Mutation_p.H118Q|TRPC4_uc010tey.1_Missense_Mutation_p.H118Q|TRPC4_uc010abw.2_Missense_Mutation_p.H118Q|TRPC4_uc010abx.2_Missense_Mutation_p.H118Q|TRPC4_uc010aby.2_Missense_Mutation_p.H118Q	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	118	ANK 3.|Cytoplasmic (Potential).|Multimerization domain (By similarity).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		TAGGTTTTTTGTGGTTCAATA	0.299													106	93					1.30845e-55	1.43827e-55	0.870114	1	0		T	38357117	T	T	38357117	3	4	142	1	0	0	0	0	1	0	0	0	16606	1368	48	5	2634	5	TRPC4	13	38357117	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	2307761	38357117	76812761	243	76140											
KCNRG	283518	broad.mit.edu	37	chr13	50589942	50589942	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taaacccatacctgctacagCcaagacctgctcttgtggag	11	9	8	13	0	1	1	0	0	1	1	1	2	1	2	4	1	6	2	4	1	5	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr13:50589942C>A	uc001vdu.2	+	1	553	c.313C>A	c.(313-315)CCA>ACA	p.P105T	DLEU2_uc001vdn.1_Intron|DLEU2_uc001vdo.1_Intron|KCNRG_uc001vdt.2_Missense_Mutation_p.P105T|TRIM13_uc001vdp.1_3'UTR|TRIM13_uc001vdq.1_3'UTR|TRIM13_uc001vdr.1_3'UTR|TRIM13_uc001vds.1_3'UTR	NM_173605	NP_775876	Q8N5I3	KCNRG_HUMAN	potassium channel regulator isoform 1	105	BTB.					voltage-gated potassium channel complex	identical protein binding|voltage-gated potassium channel activity				0		Acute lymphoblastic leukemia(7;3.41e-06)|Lung NSC(96;3.08e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.48e-10)|COAD - Colon adenocarcinoma(199;0.204)		CCTGCTACAGCCAAGACCTGC	0.433													49	379					4.10826e-27	4.40096e-27	0.870114	1	0		A	50589942	A	A	50589942	3	1	142	1	0	0	0	0	1	0	0	0	8103	739	26	5	315	5	KCNRG	13	50589942	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	12232825	50589942	64579936	244	76141											
SLITRK1	114798	broad.mit.edu	37	chr13	84453564	84453564	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggggtcttagtctgagagCgagtgagagccacagtcata	10	10	14	7	1	3	2	1	2	2	2	3	5	3	2	1	2	2	0	1	2	2	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr13:84453564C>T	uc001vlk.2	-	1	2965	c.2079G>A	c.(2077-2079)TCG>TCA	p.S693S		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	693	Cytoplasmic (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		AGTCTGAGAGCGAGTGAGAGC	0.587													31	28					0	0	0.788014	0	0		T	84453564	T	T	84453564	2	4	142	1	0	0	0	0	0	0	0	1	14767	755	27	1		1	SLITRK1	13	84453564	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	33863622	84453564	30716314	245	76142											
SLITRK1	114798	broad.mit.edu	37	chr13	84454971	84454971	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaatgttttccagccattcTttcagggagagcagatcaca	11	11	10	9	0	3	2	2	0	1	2	4	4	4	3	2	2	2	2	2	2	1	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr13:84454971T>C	uc001vlk.2	-	1	1558	c.672A>G	c.(670-672)AAA>AAG	p.K224K		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	224	Extracellular (Potential).|LRRCT 1.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CCAGCCATTCTTTCAGGGAGA	0.547													33	73					0	0	0.840704	0	0		C	84454971	C	C	84454971	2	2	142	1	0	0	0	0	0	0	0	1	14767	1606	56	3		3	SLITRK1	13	84454971	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	1407	84454971	30714907	246	76143											
SLITRK5	26050	broad.mit.edu	37	chr13	88329633	88329633	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgtcgtcggtgcccttgTctgtgttaattctcagcctc	3	14	12	12	3	2	0	1	0	2	0	6	0	2	0	2	2	2	1	2	2	1	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr13:88329633T>C	uc001vln.2	+	2	2209	c.1990T>C	c.(1990-1992)TCT>CCT	p.S664P	SLITRK5_uc010tic.1_Missense_Mutation_p.S423P	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	664	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GGTGCCCTTGTCTGTGTTAAT	0.642													54	61					0	0	0.870114	0	0		C	88329633	C	C	88329633	3	2	142	1	0	0	0	0	1	0	0	0	14771	1667	58	3	1992	3	SLITRK5	13	88329633	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	3874662	88329633	26840245	247	76144											
CLDN10	9071	broad.mit.edu	37	chr13	96230169	96230169	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcagatacacatacaacggGgccacatctgtcatgtcttc	11	11	7	12	1	4	1	2	0	2	1	5	1	4	1	1	2	3	0	1	2	3	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr13:96230169G>A	uc001vmh.2	+	5	649	c.588G>A	c.(586-588)GGG>GGA	p.G196G	CLDN10_uc001vmg.2_Silent_p.G194G|CLDN10_uc010tii.1_Silent_p.G175G|DZIP1_uc010afn.2_Intron	NM_006984	NP_008915	P78369	CLD10_HUMAN	claudin 10 isoform b	196	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.18)			CATACAACGGGGCCACATCTG	0.373													32	94					0	0	0.788014	0	0		A	96230169	A	A	96230169	2	1	142	1	0	0	0	0	0	0	0	1	3475	1219	43	4		4	CLDN10	13	96230169	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	7900536	96230169	18939709	248	76145											
COL4A1	1282	broad.mit.edu	37	chr13	110862540	110862540	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatcccgggcacatggccaAgtatctcacctggatcaccc	9	7	9	16	1	2	0	2	0	1	0	4	1	3	1	4	3	0	3	4	3	2	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr13:110862540A>C	uc001vqw.3	-	9	610	c.488T>G	c.(487-489)CTT>CGT	p.L163R	COL4A1_uc010agl.2_Missense_Mutation_p.L163R	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	163					angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CACATGGCCAAGTATCTCACC	0.433													79	55					0	0	0.870114	0	0		C	110862540	C	C	110862540	3	2	142	1	0	0	0	0	1	0	0	0	3692	72	3	5	4697	5	COL4A1	13	110862540	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	14632371	110862540	4307338	249	76146											
RNASE2	6036	broad.mit.edu	37	chr14	21424360	21424360	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgtgacaacagagatcaaCgacgagaccctccacagtat	15	6	8	12	2	1	3	1	1	0	2	2	6	2	3	2	0	2	1	2	0	3	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr14:21424360C>T	uc010aif.2	+	2	499	c.430C>T	c.(430-432)CGA>TGA	p.R144*	RNASE2_uc001vyl.1_Nonsense_Mutation_p.R144*	NM_002934	NP_002925	P10153	RNAS2_HUMAN	ribonuclease, RNase A family, 2 (liver,	144					chemotaxis|RNA catabolic process	extracellular region|lysosome	nucleic acid binding|pancreatic ribonuclease activity			ovary(1)	1	all_cancers(95;0.00381)		OV - Ovarian serous cystadenocarcinoma(11;6.3e-09)|Epithelial(56;1.42e-07)|all cancers(55;5.48e-07)	GBM - Glioblastoma multiforme(265;0.0187)		CAGAGATCAACGACGAGACCC	0.463													106	160					0	0	0.870114	0	0		T	21424360	T	T	21424360	4	4	142	1	0	0	0	0	0	1	0	0	13429	528	19	1	432	1	RNASE2	14	21424360	Nonsense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08		21424360	85925180	250	76147											
SUPT16H	11198	broad.mit.edu	37	chr14	21840058	21840058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcgtattagcagtgtgatgGcaggggctccattagcattc	8	12	12	9	1	0	1	0	1	0	0	3	1	1	1	1	3	2	5	1	3	3	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr14:21840058G>A	uc001wao.2	-	3	644	c.305C>T	c.(304-306)GCC>GTC	p.A102V		NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	102					DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		CAGTGTGATGGCAGGGGCTCC	0.393													73	92					0	0	0.870114	0	0		A	21840058	A	A	21840058	3	1	142	1	0	0	0	0	1	0	0	0	15421	1203	42	2	2934	2	SUPT16H	14	21840058	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	415698	21840058	85509482	251	76148											
COCH	1690	broad.mit.edu	37	chr14	31353795	31353795	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaattttacttgaaaaacttTacatcagccaaagatgtttt	15	15	5	6	0	1	2	1	1	0	1	1	3	1	2	1	0	4	1	1	0	6	7			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr14:31353795T>C	uc001wqr.2	+	9	746	c.666T>C	c.(664-666)TTT>TTC	p.F222F	COCH_uc001wqp.2_Silent_p.F222F|COCH_uc001wqq.3_Silent_p.F222F|uc001wqs.2_RNA|COCH_uc001wqt.1_Silent_p.F29F	NM_004086	NP_004077	O43405	COCH_HUMAN	cochlin precursor	222	VWFA 1.				sensory perception of sound	proteinaceous extracellular matrix				pancreas(1)|central_nervous_system(1)|skin(1)	3	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.00645)		TGAAAAACTTTACATCAGCCA	0.333													52	70					0	0	0.870114	0	0		C	31353795	C	C	31353795	2	2	142	1	0	0	0	0	0	0	0	1	3659	1751	61	3		3	COCH	14	31353795	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	9513737	31353795	75995745	252	76149											
AKAP6	9472	broad.mit.edu	37	chr14	33292964	33292964	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcctctactcccactgagaAgtctttctcagaactggctt	8	13	7	13	0	3	2	1	1	3	2	5	3	4	2	2	1	3	1	2	1	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr14:33292964A>C	uc001wrq.2	+	13	6115	c.5945A>C	c.(5944-5946)AAG>ACG	p.K1982T		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1982					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CCCACTGAGAAGTCTTTCTCA	0.413													70	76					0	0	0.870114	0	0		C	33292964	C	C	33292964	3	2	142	1	0	0	0	0	1	0	0	0	455	72	3	5	5991	5	AKAP6	14	33292964	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	1939169	33292964	74056576	253	76150											
MDGA2	161357	broad.mit.edu	37	chr14	47600949	47600949	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagtctaaacgacaccatcTtatcaggaatattacataca	17	10	4	10	1	3	0	1	0	2	0	3	2	3	1	1	1	3	0	1	1	7	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr14:47600949T>G	uc001wwj.3	-	5	882	c.686A>C	c.(685-687)AAG>ACG	p.K229T	MDGA2_uc001wwi.3_5'UTR|MDGA2_uc010ani.2_5'UTR	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	229	Ig-like 2.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CGACACCATCTTATCAGGAAT	0.328													6	81					0	0	0.248553	0	0		G	47600949	G	G	47600949	3	3	142	1	0	0	0	0	1	0	0	0	9425	1609	56	5	2236	5	MDGA2	14	47600949	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	14307985	47600949	59748591	254	76151											
DAAM1	23002	broad.mit.edu	37	chr14	59806819	59806819	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgccattgatgacactCtgagttccaaacttaaagtt	13	12	7	9	0	1	4	0	3	1	1	2	4	2	4	2	0	2	2	2	0	3	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr14:59806819C>A	uc001xdz.1	+	17	2151	c.2026C>A	c.(2026-2028)CTG>ATG	p.L676M	DAAM1_uc001xea.1_Missense_Mutation_p.L666M	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of	676	FH2.				actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		TGATGACACTCTGAGTTCCAA	0.388													47	100					1.4374e-25	1.53201e-25	0.870114	1	0		A	59806819	A	A	59806819	3	1	142	1	0	0	0	0	1	0	0	0	4218	912	32	5	2088	5	DAAM1	14	59806819	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	12205870	59806819	47542721	255	76152											
ACTN1	87	broad.mit.edu	37	chr14	69347560	69347560	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggtgtgcttgttgtcgaaGatgagcgcctcctggatgag	6	13	15	7	2	0	3	0	2	0	1	2	5	1	4	2	2	2	2	2	2	1	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr14:69347560G>A	uc001xkl.2	-	17	2410	c.2100C>T	c.(2098-2100)ATC>ATT	p.I700I	ACTN1_uc001xkk.2_Silent_p.I296I|ACTN1_uc010ttb.1_Silent_p.I635I|ACTN1_uc001xkm.2_Silent_p.I700I|ACTN1_uc001xkn.2_Silent_p.I700I|ACTN1_uc010ttc.1_Silent_p.I285I	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	700	Spectrin 4.|Interaction with DDN.				focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		TGTTGTCGAAGATGAGCGCCT	0.587													70	111					0	0	0.870114	0	0		A	69347560	A	A	69347560	2	1	142	1	0	0	0	0	0	0	0	1	204	932	33	4		4	ACTN1	14	69347560	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	9540741	69347560	38001980	256	76153											
NRXN3	9369	broad.mit.edu	37	chr14	79117610	79117610	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctatgtaggaggaagcccaAgtaccgctgacttgcctggc	9	9	12	11	1	1	1	0	1	1	0	1	3	1	3	3	3	3	3	3	3	5	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr14:79117610A>T	uc001xun.2	+	3	534	c.43A>T	c.(43-45)AGT>TGT	p.S15C	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.S149C	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	388	Laminin G-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		AGGAAGCCCAAGTACCGCTGA	0.493													78	155					0	0	0.870114	0	0		T	79117610	T	T	79117610	3	4	142	1	0	0	0	0	1	0	0	0	10686	72	3	5	45	5	NRXN3	14	79117610	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	9770050	79117610	28231930	257	76154											
FLRT2	23768	broad.mit.edu	37	chr14	86089542	86089542	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtggtcttgctcagcgtcTtttgctggcatatgcacaaa	7	14	11	9	1	3	0	1	0	2	0	3	0	3	0	0	3	4	4	0	3	2	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr14:86089542T>G	uc001xvr.2	+	2	2451	c.1684T>G	c.(1684-1686)TTT>GTT	p.F562V	FLRT2_uc010atd.2_Missense_Mutation_p.F562V	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	562	Helical; (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GCTCAGCGTCTTTTGCTGGCA	0.577													83	120					0	0	0.870114	0	0		G	86089542	G	G	86089542	3	3	142	1	0	0	0	0	1	0	0	0	5953	1609	56	5	1686	5	FLRT2	14	86089542	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	6971932	86089542	21259998	258	76155											
SNRPN	6638	broad.mit.edu	37	chr15	25222131	25222131	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaattccccaggcccctgcTggattggcaggccctgtccg	5	8	11	17	1	0	0	0	0	0	0	2	1	2	1	7	4	1	2	7	4	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:25222131T>G	uc001ywp.1	+	10	1265	c.375T>G	c.(373-375)GCT>GCG	p.A125A	SNRPN_uc001ywq.1_Silent_p.A125A|SNRPN_uc001ywr.1_Silent_p.A125A|SNRPN_uc001yws.1_Silent_p.A125A|SNRPN_uc001ywt.1_Silent_p.A125A|SNRPN_uc001ywv.1_Silent_p.A128A|SNRPN_uc001yww.1_Silent_p.A125A|SNRPN_uc001ywx.1_Silent_p.A125A|SNRPN_uc001ywz.1_Intron|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	125					RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		AGGCCCCTGCTGGATTGGCAG	0.592									Prader-Willi_syndrome				48	75					0	0	0.870114	0	0		G	25222131	G	G	25222131	2	3	142	1	0	0	0	0	0	0	0	1	14895	1567	55	5		5	SNRPN	15	25222131	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08		25222131	77309261	259	76156											
LCMT2	9836	broad.mit.edu	37	chr15	43622516	43622516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacggcgcgtgcgcggaCgtagtagcctcggtgaatga	7	7	15	12	7	1	2	1	2	0	0	2	3	1	3	2	3	2	2	2	3	3	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:43622516C>T	uc001zrg.2	-	1	376	c.172G>A	c.(172-174)GTC>ATC	p.V58I	LCMT2_uc010udn.1_Intron|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	58					tRNA processing		methyltransferase activity|protein binding				0		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.1e-07)	L-Leucine(DB00149)	CGTGCGCGGACGTAGTAGCCT	0.716													51	80					0	0	0.870114	0	0		T	43622516	T	T	43622516	3	4	142	1	0	0	0	0	1	0	0	0	8695	536	19	1	1892	1	LCMT2	15	43622516	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	18400385	43622516	58908876	260	76157											
DUOX1	53905	broad.mit.edu	37	chr15	45456025	45456025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttccagaaggttctgaaccGgagtctattcacaggcctgc	9	10	10	12	1	3	2	1	1	2	1	4	3	4	3	3	3	2	1	3	3	3	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:45456025G>A	uc001zus.1	+	34	4788	c.4442G>A	c.(4441-4443)CGG>CAG	p.R1481Q	DUOX1_uc001zut.1_Missense_Mutation_p.R1481Q|DUOX1_uc010bee.1_Missense_Mutation_p.R861Q	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	1481	Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		GTTCTGAACCGGAGTCTATTC	0.567											OREG0023103	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	68	120					0	0	0.870114	0	0		A	45456025	A	A	45456025	3	1	142	1	0	0	0	0	1	0	0	0	4806	1116	39	1	4568	1	DUOX1	15	45456025	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	1833509	45456025	57075367	261	76158											
SEMA6D	80031	broad.mit.edu	37	chr15	48063668	48063668	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatcacaaaaattcctccCagaggcactctatatctgct	12	12	5	12	0	3	1	1	0	2	1	5	1	5	1	2	1	1	3	2	1	5	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:48063668C>A	uc010bek.2	+	19	3268	c.2908C>A	c.(2908-2910)CAG>AAG	p.Q970K	SEMA6D_uc001zvw.2_Missense_Mutation_p.Q908K|SEMA6D_uc001zvy.2_Missense_Mutation_p.Q970K|SEMA6D_uc001zvz.2_Missense_Mutation_p.Q914K|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Missense_Mutation_p.Q908K|SEMA6D_uc001zwc.2_Missense_Mutation_p.Q895K	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	970	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		AAATTCCTCCCAGAGGCACTC	0.463													90	134					1.42074e-37	1.54556e-37	0.870114	1	0		A	48063668	A	A	48063668	3	1	142	1	0	0	0	0	1	0	0	0	14067	595	21	5	3021	5	SEMA6D	15	48063668	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	2607643	48063668	54467724	262	76159											
SPPL2A	84888	broad.mit.edu	37	chr15	51017499	51017499	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgagaaatagatcagttttgGtactctgatgactactggca	12	13	10	6	0	2	4	1	3	1	2	2	5	2	4	0	2	2	3	0	2	4	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:51017499G>C	uc001zyv.2	-	12	1348	c.1168C>G	c.(1168-1170)CCA>GCA	p.P390A		NM_032802	NP_116191	Q8TCT8	PSL2_HUMAN	signal peptide peptidase-like 2A	390						integral to membrane	aspartic-type endopeptidase activity				0				all cancers(107;0.000712)|GBM - Glioblastoma multiforme(94;0.00314)		ATCAGTTTTGGTACTCTGATG	0.318													85	107					0	0	0.870114	0	0		C	51017499	C	C	51017499	3	2	142	1	0	0	0	0	1	0	0	0	15113	1261	44	5	410	5	SPPL2A	15	51017499	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	2953831	51017499	51513893	263	76160											
UNC13C	440279	broad.mit.edu	37	chr15	54308071	54308071	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagagttggaagagaagAtcttggctggaggtattcat	11	11	15	4	0	2	3	1	0	1	3	2	6	2	5	0	5	0	4	0	5	3	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:54308071A>C	uc002ack.2	+	1	2971	c.2971A>C	c.(2971-2973)ATC>CTC	p.I991L		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	991	Potential.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GGAAGAGAAGATCTTGGCTGG	0.408													2	12					0	0	0.115264	0	0		C	54308071	C	C	54308071	3	2	142	1	0	0	0	0	1	0	0	0	17012	333	12	5	2973	5	UNC13C	15	54308071	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	3290572	54308071	48223321	264	76161											
UNC13C	440279	broad.mit.edu	37	chr15	54919041	54919041	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacagcattctcggaaaggaAaatcgaccaggggcttatga	14	7	11	9	2	1	1	0	1	1	0	3	4	1	3	1	4	1	2	1	4	4	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:54919041A>G	uc002ack.2	+	31	6375	c.6375A>G	c.(6373-6375)GAA>GAG	p.E2125E	UNC13C_uc002acm.2_Silent_p.E46E	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	2125	C2 2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TCGGAAAGGAAAATCGACCAG	0.299													19	41					0	0	0.575678	0	0		G	54919041	G	G	54919041	2	3	142	1	0	0	0	0	0	0	0	1	17012	11	1	3		3	UNC13C	15	54919041	Silent	SNP	A	TCGA-CG-4469-01A-01D-1158-08	610970	54919041	47612351	265	76162											
UACA	55075	broad.mit.edu	37	chr15	70959121	70959121	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattcttctttgtaactctGtgattgttgttaaggactta	8	20	8	5	0	3	1	0	1	3	0	3	2	3	2	0	1	1	4	0	1	4	9			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:70959121G>T	uc002asr.2	-	16	4006	c.3902C>A	c.(3901-3903)ACA>AAA	p.T1301K	UACA_uc010uke.1_Missense_Mutation_p.T1192K|UACA_uc002asq.2_Missense_Mutation_p.T1288K|UACA_uc010bin.1_Missense_Mutation_p.T1276K	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	1301	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						TTGTAACTCTGTGATTGTTGT	0.363													74	105					2.17402e-21	2.28815e-21	0.870114	1	0		T	70959121	T	T	70959121	3	4	142	1	0	0	0	0	1	0	0	0	16850	1377	48	5	364	5	UACA	15	70959121	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	16040080	70959121	31572271	266	76163											
TM6SF1	53346	broad.mit.edu	37	chr15	83790730	83790730	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctattattatgagtgttgtTgtttttgtgccaggaaacat	9	19	9	4	0	1	1	0	1	1	0	1	2	1	2	1	1	2	3	1	1	4	7			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:83790730T>G	uc002bjp.2	+	5	565	c.456T>G	c.(454-456)GTT>GTG	p.V152V	TM6SF1_uc010bmq.2_Silent_p.V152V|TM6SF1_uc002bjq.2_Silent_p.V152V|TM6SF1_uc010bmr.2_Intron|TM6SF1_uc002bjr.2_Silent_p.V4V	NM_023003	NP_075379	Q9BZW5	TM6S1_HUMAN	transmembrane 6 superfamily member 1 isoform 1	152	Helical; (Potential).					integral to membrane				ovary(1)	1						TGAGTGTTGTTGTTTTTGTGC	0.323													91	120					0	0	0.870114	0	0		G	83790730	G	G	83790730	2	3	142	1	0	0	0	0	0	0	0	1	15997	1799	63	5		5	TM6SF1	15	83790730	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	12831609	83790730	18740662	267	76164											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84324519	84324519	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagactagaccccatggcTtcctggacgagcccctggtg	8	7	13	13	1	0	2	0	0	0	2	1	5	1	3	5	4	1	1	5	4	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:84324519T>G	uc002bjz.3	+	2	230	c.6T>G	c.(4-6)GCT>GCG	p.A2A	ADAMTSL3_uc002bjy.1_Silent_p.A2A|ADAMTSL3_uc010bmt.1_Silent_p.A2A|ADAMTSL3_uc010bmu.1_Silent_p.A2A	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	2						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			ACCCCATGGCTTCCTGGACGA	0.567													21	30					0	0	0.639603	0	0		G	84324519	G	G	84324519	2	3	142	1	0	0	0	0	0	0	0	1	276	1596	56	5		5	ADAMTSL3	15	84324519	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	533789	84324519	18206873	268	76165											
C15orf32	145858	broad.mit.edu	37	chr15	93015606	93015606	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttacagatcaaacaaccaAgtttatcagaaattaaagac	19	11	4	7	0	2	3	2	0	0	3	2	3	2	3	1	0	3	1	1	0	8	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:93015606A>G	uc002brc.1	+	1	700	c.228A>G	c.(226-228)CAA>CAG	p.Q76Q	C15orf32_uc010bod.1_RNA	NM_153040	NP_694585	Q32M92	CO032_HUMAN	hypothetical protein LOC145858	76										ovary(1)	1	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0493)|OV - Ovarian serous cystadenocarcinoma(32;0.125)			caaacaaccaagtttatcaga	0.318													54	89					0	0	0.870114	0	0		G	93015606	G	G	93015606	2	3	142	1	0	0	0	0	0	0	0	1	1793	69	3	3		3	C15orf32	15	93015606	Silent	SNP	A	TCGA-CG-4469-01A-01D-1158-08	8691087	93015606	9515786	269	76166											
FAM169B	283777	broad.mit.edu	37	chr15	99023856	99023856	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggttgtgtaaaacccaaCagccgctccacgtctccaca	10	9	7	15	2	1	0	0	0	1	0	3	0	2	0	4	1	3	3	4	1	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:99023856C>A	uc002buk.1	-	4	407	c.157G>T	c.(157-159)GTT>TTT	p.V53F		NM_182562	NP_872368	Q8N8A8	F169B_HUMAN	hypothetical protein LOC283777	53											0						TAAAACCCAACAGCCGCTCCA	0.502													57	101					5.10652e-33	5.5266e-33	0.870114	1	0		A	99023856	A	A	99023856	3	1	142	1	0	0	0	0	1	0	0	0	5499	478	17	5	437	5	FAM169B	15	99023856	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	6008250	99023856	3507536	270	76167											
IGF1R	3480	broad.mit.edu	37	chr15	99500432	99500432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgaggagaacaagctgcccGagccggaggagctggacctg	10	3	17	11	3	0	1	0	0	0	1	0	7	0	4	3	4	5	2	3	4	2	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr15:99500432G>A	uc002bul.2	+	21	3915	c.3865G>A	c.(3865-3867)GAG>AAG	p.E1289K	IGF1R_uc010bon.2_Missense_Mutation_p.E1288K	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	1289	Cytoplasmic (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	CAAGCTGCCCGAGCCGGAGGA	0.627													32	43					0	0	0.750413	0	0		A	99500432	A	A	99500432	3	1	142	1	0	0	0	0	1	0	0	0	7587	1059	37	1	3947	1	IGF1R	15	99500432	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	476576	99500432	3030960	271	76168											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1797222	1797222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcgtgcccgggagaagcgcGacagccgcaacatggaagta	12	3	15	11	5	0	1	0	0	0	1	0	4	0	2	2	2	5	2	2	2	4	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr16:1797222G>A	uc002cmk.2	+	6	1057	c.937G>A	c.(937-939)GAC>AAC	p.D313N	MAPK8IP3_uc002cmj.1_RNA|MAPK8IP3_uc002cml.2_Missense_Mutation_p.D313N|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.D314N	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	313					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						GGAGAAGCGCGACAGCCGCAA	0.667													18	24					0	0	0.681144	0	0		A	1797222	A	A	1797222	3	1	142	1	0	0	0	0	1	0	0	0	9304	1058	37	1	959	1	MAPK8IP3	16	1797222	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08		1797222	88557531	272	76169											
HS3ST4	9951	broad.mit.edu	37	chr16	26147518	26147518	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccttcaacttgatgttttaCcaaatgactggtcaagattt	11	15	6	9	0	2	3	2	2	0	1	2	3	2	3	2	1	2	1	2	1	4	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr16:26147518C>A	uc002dof.2	+	2	1712	c.1320C>A	c.(1318-1320)TAC>TAA	p.Y440*		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	440	Lumenal (Potential).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		TGATGTTTTACCAAATGACTG	0.468													8	25					7.48243e-07	7.59061e-07	0.335167	1	0		A	26147518	A	A	26147518	4	1	142	1	0	0	0	0	0	1	0	0	7383	518	18	5	1326	5	HS3ST4	16	26147518	Nonsense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	24350296	26147518	64207235	273	76170											
HS3ST4	9951	broad.mit.edu	37	chr16	26147533	26147533	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttaccaaatgactggtcaAgattttcagtgggaacagga	13	12	10	6	0	2	2	2	1	0	1	2	4	2	4	1	3	2	0	1	3	4	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr16:26147533A>C	uc002dof.2	+	2	1727	c.1335A>C	c.(1333-1335)CAA>CAC	p.Q445H		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	445	Lumenal (Potential).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		TGACTGGTCAAGATTTTCAGT	0.463													9	23					0	0	0.361761	0	0		C	26147533	C	C	26147533	3	2	142	1	0	0	0	0	1	0	0	0	7383	69	3	5	1341	5	HS3ST4	16	26147533	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	15	26147533	64207220	274	76171											
SRCAP	10847	broad.mit.edu	37	chr16	30750720	30750720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaccccaaaactgcgctcgaCccggctgcgtccagggtctc	8	6	10	17	4	1	0	0	0	1	0	4	1	2	0	4	2	4	2	4	2	3	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr16:30750720C>T	uc002dze.1	+	34	9744	c.9359C>T	c.(9358-9360)ACC>ATC	p.T3120I	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.T2915I	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	3120					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CTGCGCTCGACCCGGCTGCGT	0.597													28	65					0	0	0.740014	0	0		T	30750720	T	T	30750720	3	4	142	1	0	0	0	0	1	0	0	0	15160	507	18	4	9485	4	SRCAP	16	30750720	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	4603187	30750720	59604033	275	76172											
GNAO1	2775	broad.mit.edu	37	chr16	56362638	56362638	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatgatgcggctctggggCgactcaggaatccaagagtg	9	7	15	10	2	2	2	1	1	1	1	3	4	3	3	2	4	1	1	2	4	2	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr16:56362638C>T	uc002eit.3	+	4	1296	c.399C>T	c.(397-399)GGC>GGT	p.G133G	GNAO1_uc002eiu.3_Silent_p.G133G	NM_138736	NP_620073	P09471	GNAO_HUMAN	guanine nucleotide binding protein, alpha	133					dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|muscle contraction	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|metabotropic serotonin receptor binding|signal transducer activity			lung(1)|breast(1)	2		all_neural(199;0.159)				GGCTCTGGGGCGACTCAGGAA	0.597													37	55					0	0	0.779181	0	0		T	56362638	T	T	56362638	2	4	142	1	0	0	0	0	0	0	0	1	6523	755	27	1		1	GNAO1	16	56362638	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	25611918	56362638	33992115	276	76173											
CCDC135	84229	broad.mit.edu	37	chr16	57735855	57735855	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgtgaccagccctcgcAcctgtactcctcgaccactg	7	8	7	19	2	0	1	0	1	0	0	3	2	1	1	6	0	2	2	6	0	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr16:57735855A>G	uc002emi.2	+	5	601	c.512A>G	c.(511-513)CAC>CGC	p.H171R	CCDC135_uc002emj.2_Missense_Mutation_p.H171R|CCDC135_uc002emk.2_Intron	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	171						cytoplasm				central_nervous_system(1)	1						CAGCCCTCGCACCTGTACTCC	0.622													42	70					0	0	0.859065	0	0		G	57735855	G	G	57735855	3	3	142	1	0	0	0	0	1	0	0	0	2772	159	6	3	526	3	CCDC135	16	57735855	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	1373217	57735855	32618898	277	76174											
MTSS1L	92154	broad.mit.edu	37	chr16	70698105	70698105	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggacagggcgcggcgcacGgtgggcttggtggagggtgt	4	7	22	8	4	0	0	0	0	0	0	0	2	0	2	0	8	0	2	0	8	0	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr16:70698105G>A	uc002ezj.2	-	15	1979	c.1719C>T	c.(1717-1719)ACC>ACT	p.T573T		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	573					filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						CGCGGCGCACGGTGGGCTTGG	0.766													11	26					0	0	0.457914	0	0		A	70698105	A	A	70698105	2	1	142	1	0	0	0	0	0	0	0	1	9981	1103	39	1		1	MTSS1L	16	70698105	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	12962250	70698105	19656648	278	76175											
CNTNAP4	85445	broad.mit.edu	37	chr16	76513436	76513436	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctatattgcaatatgaccgGtgagttaatcagcttttatt	11	17	7	6	1	2	2	1	2	1	0	2	2	2	2	1	1	2	3	1	1	6	8			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr16:76513436G>A	uc002feu.1	+	14	2267	c.1882_splice	c.e14+1	p.E628_splice	CNTNAP4_uc002fev.1_Splice_Site_p.E492_splice|CNTNAP4_uc010chb.1_Splice_Site_p.E555_splice|CNTNAP4_uc002fex.1_Splice_Site_p.E631_splice|CNTNAP4_uc002few.2_Splice_Site_p.E603_splice	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1						cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						AATATGACCGGTGAGTTAATC	0.333													63	109					0	0	0.870114	0	0		A	76513436	A	A	76513436	5	1	142	1	0	0	0	0	0	0	1	0	3652	1275	44	4	1942	4	CNTNAP4	16	76513436	Splice_Site	SNP	G	TCGA-CG-4469-01A-01D-1158-08	5815331	76513436	13841317	279	76176											
CDYL2	124359	broad.mit.edu	37	chr16	80718652	80718652	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtcctgtaagacaccgtCttggtggccctgtcacctcc	6	11	10	14	1	2	1	1	0	1	1	4	1	4	1	5	2	0	2	5	2	2	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr16:80718652C>A	uc002ffs.2	-	2	504	c.399G>T	c.(397-399)AAG>AAT	p.K133N		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	133						nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						AAGACACCGTCTTGGTGGCCC	0.537													58	73					5.19286e-32	5.59129e-32	0.870114	1	0		A	80718652	A	A	80718652	3	1	142	1	0	0	0	0	1	0	0	0	3189	912	32	5	1145	5	CDYL2	16	80718652	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	4205216	80718652	9636101	280	76177											
ZZEF1	23140	broad.mit.edu	37	chr17	3974169	3974169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctgagcaggctctgactggGcaaaatcaagaagaaaatgg	15	7	12	7	0	3	4	1	2	2	2	3	4	3	4	0	3	1	3	0	3	6	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:3974169G>A	uc002fxe.2	-	26	3948	c.3884C>T	c.(3883-3885)GCC>GTC	p.A1295V	ZZEF1_uc002fxj.1_5'UTR	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	1295							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CTCTGACTGGGCAAAATCAAG	0.398													5	113					0	0	0.184627	0	0		A	3974169	A	A	3974169	3	1	142	1	0	0	0	0	1	0	0	0	18280	1203	42	2	5121	2	ZZEF1	17	3974169	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08		3974169	77221041	281	76178											
TP53	7157	broad.mit.edu	37	chr17	7578212	7578212	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcaccaccacactatgtcGaaaagtgtttctgtcatcca	11	10	8	12	1	2	0	1	0	1	0	4	1	3	0	3	1	0	2	3	1	3	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:7578212G>A	uc002gim.2	-	6	831	c.637C>T	c.(637-639)CGA>TGA	p.R213*	TP53_uc002gig.1_Nonsense_Mutation_p.R213*|TP53_uc002gih.2_Nonsense_Mutation_p.R213*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R81*|TP53_uc010cng.1_Nonsense_Mutation_p.R81*|TP53_uc002gii.1_Nonsense_Mutation_p.R81*|TP53_uc010cnh.1_Nonsense_Mutation_p.R213*|TP53_uc010cni.1_Nonsense_Mutation_p.R213*|TP53_uc002gij.2_Nonsense_Mutation_p.R213*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.R120*|TP53_uc002gio.2_Nonsense_Mutation_p.R81*|TP53_uc010vug.1_Nonsense_Mutation_p.R174*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	213	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(186)|p.R213L(25)|p.R213Q(22)|p.R213fs*34(10)|p.0?(7)|p.R213P(5)|p.R81*(2)|p.R120*(2)|p.R213G(2)|p.K164_P219del(1)|p.D208_V216delDRNTFRHSV(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R213*33(1)|p.D208fs*1(1)|p.R213>L(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ACACTATGTCGAAAAGTGTTT	0.532		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			22	18					0	0	0.639603	0	0		A	7578212	A	A	7578212	4	1	142	1	0	0	0	0	0	1	0	0	16407	1066	37	1	657	1	TP53	17	7578212	Nonsense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	3604043	7578212	73616998	282	76179											
DNAH9	1770	broad.mit.edu	37	chr17	11726122	11726122	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctttggttttagcccaCagtaaagcagtcgattagca	10	13	9	9	1	1	0	0	0	1	0	2	1	1	0	1	1	4	5	1	1	4	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:11726122C>T	uc002gne.2	+	48	9085	c.9017C>T	c.(9016-9018)ACA>ATA	p.T3006I	DNAH9_uc010coo.2_Missense_Mutation_p.T2300I	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3006	AAA 4 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TTTTAGCCCACAGTAAAGCAG	0.448													50	30					0	0	0.870114	0	0		T	11726122	T	T	11726122	3	4	142	1	0	0	0	0	1	0	0	0	4614	478	17	4	9207	4	DNAH9	17	11726122	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	4147910	11726122	69469088	283	76180											
KCNJ12	3768	broad.mit.edu	37	chr17	21319086	21319086	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcgagacgcagaccaccatCggctacgggctgcgctgtgt	8	7	13	13	5	0	2	0	0	0	2	2	3	0	2	2	2	2	4	2	2	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:21319086C>T	uc002gyv.1	+	3	1137	c.432C>T	c.(430-432)ATC>ATT	p.I144I		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	144	Selectivity filter (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	AGACCACCATCGGCTACGGGC	0.647										Prostate(3;0.18)			6	19					0	0	0.435327	0	0		T	21319086	T	T	21319086	2	4	142	1	0	0	0	0	0	0	0	1	8062	874	31	1		1	KCNJ12	17	21319086	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	9592964	21319086	59876124	284	76181											
SLFN5	162394	broad.mit.edu	37	chr17	33592742	33592742	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcgtcggatgttctaacCgatcacattgtgttggacag	9	12	12	8	3	2	0	1	0	1	0	3	4	2	2	1	2	2	2	1	2	1	4	rs148974561		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:33592742C>T	uc002hjf.3	+	5	2628	c.2511C>T	c.(2509-2511)ACC>ACT	p.T837T	SLFN5_uc010wcg.1_3'UTR	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	837					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		ATGTTCTAACCGATCACATTG	0.483													48	74					0	0	0.870114	0	0		T	33592742	T	T	33592742	2	4	142	1	0	0	0	0	0	0	0	1	14762	639	23	1		1	SLFN5	17	33592742	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	12273656	33592742	47602468	285	76182											
SRCIN1	80725	broad.mit.edu	37	chr17	36707421	36707421	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcccactgggctccgttcGgggggctgccttctggccgt	1	10	14	16	3	1	0	0	0	1	0	4	0	3	0	5	5	1	3	5	5	0	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:36707421G>A	uc002hqd.2	-	15	3157	c.2932C>T	c.(2932-2934)CGA>TGA	p.R978*	SRCIN1_uc002hqf.1_Nonsense_Mutation_p.R850*|SRCIN1_uc002hqe.2_Nonsense_Mutation_p.R832*	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	850	Pro-rich.			R -> K (in Ref. 6; AA sequence).	exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						GGCTCCGTTCGGGGGGCTGCC	0.687													19	15					0	0	0.608945	0	0		A	36707421	A	A	36707421	4	1	142	1	0	0	0	0	0	1	0	0	15161	1124	39	1	639	1	SRCIN1	17	36707421	Nonsense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	3114679	36707421	44487789	286	76183											
ERBB2	2064	broad.mit.edu	37	chr17	37879658	37879658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggatcctcatcaagcgacGgcagcagaagatccggaagt	12	6	13	10	3	2	2	2	0	0	2	4	5	4	4	2	3	2	2	2	3	3	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:37879658G>A	uc002hso.2	+	17	2271	c.2033G>A	c.(2032-2034)CGG>CAG	p.R678Q	ERBB2_uc002hsm.2_Missense_Mutation_p.R648Q|ERBB2_uc010cwa.2_Missense_Mutation_p.R663Q|ERBB2_uc002hsp.2_Missense_Mutation_p.R481Q|ERBB2_uc010cwb.2_Missense_Mutation_p.R678Q|ERBB2_uc010wek.1_Missense_Mutation_p.R402Q	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	678	Cytoplasmic (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	ATCAAGCGACGGCAGCAGAAG	0.637		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			58	95					0	0	0.870114	0	0		A	37879658	A	A	37879658	3	1	142	1	0	0	0	0	1	0	0	0	5214	1116	39	1	2099	1	ERBB2	17	37879658	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	1172237	37879658	43315552	287	76184											
KRTAP9-9	81870	broad.mit.edu	37	chr17	39388788	39388788	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccccttgctgtcagcctaCctgctgcaggaccacctgct	5	10	8	18	0	1	0	1	0	0	0	2	1	2	1	6	1	6	4	6	1	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:39388788C>A	uc010wfq.1	+	1	37	c.35C>A	c.(34-36)ACC>AAC	p.T12N		NM_030975	NP_112237	B5MDD6	B5MDD6_HUMAN	keratin associated protein 9-9	12						keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			TGTCAGCCTACCTGCTGCAGG	0.597													47	76					8.28887e-21	8.70228e-21	0.870114	1	0		A	39388788	A	A	39388788	3	1	142	1	0	0	0	0	1	0	0	0	8593	507	18	5		5	KRTAP9-9	17	39388788	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1509130	39388788	41806422	288	76185											
KRT33A	3883	broad.mit.edu	37	chr17	39502714	39502714	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actgacttgcagtcctcgctCtccagcaggctccggtacgt	6	10	10	15	3	1	1	0	1	1	0	5	1	3	1	3	2	3	5	3	2	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:39502714C>G	uc002hwk.1	-	6	1120	c.1083G>C	c.(1081-1083)GAG>GAC	p.E361D		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	361	Coil 2.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				AGTCCTCGCTCTCCAGCAGGC	0.537													56	93					0	0	0.870114	0	0		G	39502714	G	G	39502714	3	3	142	1	0	0	0	0	1	0	0	0	8485	912	32	5	139	5	KRT33A	17	39502714	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	113926	39502714	41692496	289	76186											
C17orf104	284071	broad.mit.edu	37	chr17	42744389	42744389	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcagacacctacacaaaGttatttcaggttaagccagc	15	8	8	10	0	1	1	1	0	0	1	1	2	1	1	2	1	4	3	2	1	5	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:42744389G>A	uc010czv.2	+	5	1110	c.1110G>A	c.(1108-1110)AAG>AAA	p.K370K	C17orf104_uc002igy.1_Silent_p.K204K|C17orf104_uc002igz.3_Silent_p.K204K|C17orf104_uc010wja.1_RNA|C17orf104_uc002iha.2_Silent_p.K204K	NM_001145080	NP_001138552	A2RUB1	CQ104_HUMAN	hypothetical protein LOC284071	370										central_nervous_system(1)	1						CCTACACAAAGTTATTTCAGG	0.383													22	23					0	0	0.639603	0	0		A	42744389	A	A	42744389	2	1	142	1	0	0	0	0	0	0	0	1	1854	1020	36	4		4	C17orf104	17	42744389	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	3241675	42744389	38450821	290	76187											
STXBP4	252983	broad.mit.edu	37	chr17	53237236	53237236	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctcagaggagaatgaagaGgattgctctagagaactccc	13	7	12	9	1	2	5	1	1	1	4	3	8	3	6	1	2	2	2	1	2	4	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:53237236G>T	uc002iuf.1	+	18	1833	c.1626G>T	c.(1624-1626)GAG>GAT	p.E542D	STXBP4_uc010dcd.1_Missense_Mutation_p.E520D	NM_178509	NP_848604	Q6ZWJ1	STXB4_HUMAN	syntaxin binding protein 4	542						cytoplasm	calcium ion binding			ovary(1)	1						AGAATGAAGAGGATTGCTCTA	0.443													40	57					2.42038e-35	2.62624e-35	0.834066	1	0		T	53237236	T	T	53237236	3	4	142	1	0	0	0	0	1	0	0	0	15380	991	35	5	1688	5	STXBP4	17	53237236	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	10492847	53237236	27957974	291	76188											
COIL	8161	broad.mit.edu	37	chr17	55016467	55016467	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgatgtgttacttggagAttcaataatcagtcttgggt	10	16	10	5	0	3	2	2	1	1	1	3	3	3	2	0	2	1	1	0	2	3	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:55016467A>T	uc002iuu.2	-	7	1727	c.1696T>A	c.(1696-1698)TCT>ACT	p.S566T		NM_004645	NP_004636	P38432	COIL_HUMAN	coilin	566						Cajal body|nucleolus	protein C-terminus binding			ovary(1)	1	Breast(9;6.15e-08)					TTACTTGGAGATTCAATAATC	0.373													36	83					0	0	0.819951	0	0		T	55016467	T	T	55016467	3	4	142	1	0	0	0	0	1	0	0	0	3668	333	12	5	38	5	COIL	17	55016467	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	1779231	55016467	26178743	292	76189											
RNF43	54894	broad.mit.edu	37	chr17	56438164	56438164	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcccctcagagaactcctCcagacagatggcacacacag	12	5	8	16	0	1	3	1	0	0	3	3	4	3	3	4	1	2	1	4	1	1	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:56438164C>A	uc002iwf.2	-	6	2785	c.829G>T	c.(829-831)GAG>TAG	p.E277*	RNF43_uc010wnv.1_Nonsense_Mutation_p.E236*|RNF43_uc002iwh.3_Nonsense_Mutation_p.E277*|RNF43_uc002iwg.3_Nonsense_Mutation_p.E277*|RNF43_uc010dcw.2_Nonsense_Mutation_p.E150*	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	277	RING-type; atypical.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GAGAACTCCTCCAGACAGATG	0.652													23	16					4.59853e-10	4.7219e-10	0.693898	1	0		A	56438164	A	A	56438164	4	1	142	1	0	0	0	0	0	1	0	0	13520	864	30	5	1538	5	RNF43	17	56438164	Nonsense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1421697	56438164	24757046	293	76190											
NOTUM	147111	broad.mit.edu	37	chr17	79914768	79914768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcggcacctgatgccaCggcggatggcctccgtgggc	4	6	16	15	5	0	1	0	1	0	0	1	2	1	2	4	5	2	2	4	5	0	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr17:79914768C>T	uc010wvg.1	-	7	1150	c.878G>A	c.(877-879)CGT>CAT	p.R293H		NM_178493	NP_848588	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog precursor	293						extracellular region	hydrolase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CCTGATGCCACGGCGGATGGC	0.692													11	19					0	0	0.435327	0	0		T	79914768	T	T	79914768	3	4	142	1	0	0	0	0	1	0	0	0	10571	536	19	1	632	1	NOTUM	17	79914768	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	23476604	79914768	1280442	294	76191											
LAMA1	284217	broad.mit.edu	37	chr18	6977733	6977733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccaaactcacagaagctGcttgtttgcgggcctggctg	7	9	12	13	1	1	1	1	0	0	1	1	1	1	1	3	2	4	4	3	2	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr18:6977733G>A	uc002knm.2	-	44	6432	c.6338C>T	c.(6337-6339)GCA>GTA	p.A2113V	LAMA1_uc010wzj.1_Missense_Mutation_p.A1589V	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2113	Domain II and I.|Potential.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CACAGAAGCTGCTTGTTTGCG	0.502													22	25					0	0	0.608945	0	0		A	6977733	A	A	6977733	3	1	142	1	0	0	0	0	1	0	0	0	8621	1319	46	2	2969	2	LAMA1	18	6977733	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08		6977733	71099515	295	76192											
PSMG2	56984	broad.mit.edu	37	chr18	12724536	12724536	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatggcagttctgctgaaatTtgtttcagaaggggacaaca	13	11	11	6	0	2	2	1	1	1	1	2	3	2	3	0	3	2	4	0	3	4	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr18:12724536T>G	uc002krk.2	+	6	663	c.620T>G	c.(619-621)TTT>TGT	p.F207C	PSMG2_uc002krg.2_Missense_Mutation_p.F176C|PSMG2_uc002krj.1_Missense_Mutation_p.F207C	NM_020232	NP_064617	Q969U7	PSMG2_HUMAN	proteasome (prosome, macropain) assembly	207					proteasome assembly	nucleus	protein binding				0						CTGCTGAAATTTGTTTCAGAA	0.363													26	42					0	0	0.667858	0	0		G	12724536	G	G	12724536	3	3	142	1	0	0	0	0	1	0	0	0	12734	1841	64	5	642	5	PSMG2	18	12724536	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	5746803	12724536	65352712	296	76193											
POTEC	388468	broad.mit.edu	37	chr18	14542997	14542997	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcttcataaaggagtcgTcgtggtctccagaagtgccc	9	10	11	11	2	3	1	1	0	2	1	6	2	3	2	2	2	1	1	2	2	3	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr18:14542997T>C	uc010dln.2	-	1	603	c.149A>G	c.(148-150)GAC>GGC	p.D50G	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	50										skin(3)	3						AAAGGAGTCGTCGTGGTCTCC	0.587													33	628					0	0	0.870114	0	0		C	14542997	C	C	14542997	3	2	142	1	0	0	0	0	1	0	0	0	12281	1667	58	3	1523	3	POTEC	18	14542997	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	1818461	14542997	63534251	297	76194											
C18orf8	29919	broad.mit.edu	37	chr18	21096377	21096377	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttccgaaagagacatcgcaAtggctaccatgtatgtccgt	11	11	9	10	3	0	1	0	0	0	1	3	3	2	1	3	1	1	3	3	1	4	3	rs148477145		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr18:21096377A>G	uc010xax.1	+	7	764	c.643A>G	c.(643-645)ATG>GTG	p.M215V	C18orf8_uc010xau.1_Missense_Mutation_p.M58V|C18orf8_uc010xav.1_Missense_Mutation_p.M167V|C18orf8_uc010xaw.1_Missense_Mutation_p.M58V|C18orf8_uc002kul.2_RNA	NM_013326	NP_037458	Q96DM3	MIC1_HUMAN	colon cancer-associated protein Mic1	215										ovary(1)	1	all_cancers(21;0.000122)|all_epithelial(16;8.08e-07)|Lung NSC(20;0.00206)|all_lung(20;0.00659)|Colorectal(14;0.0202)|Ovarian(20;0.127)					AGACATCGCAATGGCTACCAT	0.443											OREG0024894	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	18					0	0	0.827153	0	0		G	21096377	G	G	21096377	3	3	142	1	0	0	0	0	1	0	0	0	1910	101	4	3	669	3	C18orf8	18	21096377	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	6553380	21096377	56980871	298	76195											
ST8SIA5	29906	broad.mit.edu	37	chr18	44266172	44266172	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgctgttgatctccctcccGcagcggctgttcttcaagat	5	12	10	14	3	3	2	1	1	2	1	5	2	4	2	2	1	1	5	2	1	1	3	rs143784819		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr18:44266172G>A	uc002lcj.1	-	5	1102	c.534C>T	c.(532-534)TGC>TGT	p.C178C	ST8SIA5_uc002lci.1_Silent_p.C25C|ST8SIA5_uc010xcy.1_Silent_p.C214C|ST8SIA5_uc010xcz.1_Silent_p.C147C	NM_013305	NP_037437	O15466	SIA8E_HUMAN	ST8 alpha-N-acetyl-neuraminide	178	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						TCTCCCTCCCGCAGCGGCTGT	0.587													16	11					0	0	0.639603	0	0		A	44266172	A	A	44266172	2	1	142	1	0	0	0	0	0	0	0	1	15260	1079	38	1		1	ST8SIA5	18	44266172	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	23169795	44266172	33811076	299	76196											
SMAD4	4089	broad.mit.edu	37	chr18	48573594	48573594	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattggattctttaataacaGctataactacaaatggagct	16	13	6	6	0	1	0	0	0	1	0	1	2	1	2	0	2	5	2	0	2	7	8			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr18:48573594G>C	uc010xdp.1	+	2	716	c.178G>C	c.(178-180)GCT>CCT	p.A60P	SMAD4_uc010xdo.1_RNA	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	60	MH1.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(5)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TTTAATAACAGCTATAACTAC	0.358									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				76	57					0	0	0.870114	0	0		C	48573594	C	C	48573594	3	2	142	1	0	0	0	0	1	0	0	0	14785	971	34	5	180	5	SMAD4	18	48573594	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	4307422	48573594	29503654	300	76197											
MC4R	4160	broad.mit.edu	37	chr18	58039324	58039324	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caccagcatatcagccacagCcaagctgcagatgaaaaagt	16	5	8	12	0	1	2	1	1	0	1	1	2	1	2	3	0	5	3	3	0	4	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr18:58039324C>G	uc002lie.1	-	1	678	c.259G>C	c.(259-261)GCT>CCT	p.A87P		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	87	Helical; Name=2; (Potential).				feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)				TCAGCCACAGCCAAGCTGCAG	0.428													51	24					0	0	0.870114	0	0		G	58039324	G	G	58039324	3	3	142	1	0	0	0	0	1	0	0	0	9384	739	26	5	743	5	MC4R	18	58039324	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	9465730	58039324	20037924	301	76198											
CDH20	28316	broad.mit.edu	37	chr18	59221915	59221915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggcgtcggagggacccgCgccgctgtggtgacggaagc	5	4	20	12	7	0	1	0	1	0	0	1	4	0	4	2	6	1	1	2	6	1	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr18:59221915C>T	uc010dps.1	+	11	2405	c.2393C>T	c.(2392-2394)GCG>GTG	p.A798V	CDH20_uc002lif.2_Missense_Mutation_p.A792V	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	798	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				GAGGGACCCGCGCCGCTGTGG	0.677													7	1					0	0	0.307466	0	0		T	59221915	T	T	59221915	3	4	142	1	0	0	0	0	1	0	0	0	3109	768	27	1	2435	1	CDH20	18	59221915	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1182591	59221915	18855333	302	76199											
CDH7	1005	broad.mit.edu	37	chr18	63489412	63489412	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatggttggtcaaaatggaGgactgtcaggaactacatca	14	10	11	6	0	3	0	3	0	0	0	3	3	3	3	0	5	2	1	0	5	5	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr18:63489412G>T	uc002ljz.2	+	5	1046	c.721G>T	c.(721-723)GGA>TGA	p.G241*	CDH7_uc002lka.2_Nonsense_Mutation_p.G241*|CDH7_uc002lkb.2_Nonsense_Mutation_p.G241*	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	241	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				TCAAAATGGAGGACTGTCAGG	0.433													33	20					5.90632e-09	6.03534e-09	0.760397	1	0		T	63489412	T	T	63489412	4	4	142	1	0	0	0	0	0	1	0	0	3118	1001	35	5	735	5	CDH7	18	63489412	Nonsense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	4267497	63489412	14587836	303	76200											
POLRMT	5442	broad.mit.edu	37	chr19	629604	629604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcagcttccgcttctgcCgctggccgtggtggacgacc	4	9	14	14	4	1	1	0	1	1	0	2	3	2	2	4	3	3	4	4	3	0	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:629604C>T	uc002lpf.1	-	3	814	c.758G>A	c.(757-759)CGG>CAG	p.R253Q		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	253					transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGCTTCTGCCGCTGGCCGTG	0.672													78	56					0	0	0.870114	0	0		T	629604	T	T	629604	3	4	142	1	0	0	0	0	1	0	0	0	12257	652	23	1	3010	1	POLRMT	19	629604	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08		629604	58499379	304	76201											
GIPC3	126326	broad.mit.edu	37	chr19	3589487	3589487	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaaatgtccagtagaggcGaaagtgaccagcgggaggga	14	4	16	7	2	0	2	0	1	0	1	1	5	1	4	2	3	2	2	2	3	3	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:3589487G>A	uc002lyd.3	+	4	666	c.639G>A	c.(637-639)GCG>GCA	p.A213A		NM_133261	NP_573568	Q8TF64	GIPC3_HUMAN	GIPC PDZ domain containing family, member 3	213										breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0025)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGTAGAGGCGAAAGTGACCA	0.453													45	67					0	0	0.870114	0	0		A	3589487	A	A	3589487	2	1	142	1	0	0	0	0	0	0	0	1	6409	1045	37	1		1	GIPC3	19	3589487	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	2959883	3589487	55539496	305	76202											
FBN3	84467	broad.mit.edu	37	chr19	8162226	8162226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcctgcggggcactcgcagCggaaactcccgatctggttt	7	8	13	13	4	1	0	0	0	1	0	3	2	2	1	2	4	4	3	2	4	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:8162226C>T	uc002mjf.2	-	41	5255	c.5234G>A	c.(5233-5235)CGC>CAC	p.R1745H		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1745	EGF-like 26; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GCACTCGCAGCGGAAACTCCC	0.592													7	20					0	0	0.27861	0	0		T	8162226	T	T	8162226	3	4	142	1	0	0	0	0	1	0	0	0	5718	768	27	1	3287	1	FBN3	19	8162226	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	4572739	8162226	50966757	306	76203											
ANGPTL4	51129	broad.mit.edu	37	chr19	8430901	8430901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaggtggcccagcagcagCggcacctggagaagcagcac	12	2	14	13	1	0	1	0	0	0	1	0	2	0	1	2	4	5	5	2	4	2	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:8430901C>T	uc002mjq.1	+	2	577	c.382C>T	c.(382-384)CGG>TGG	p.R128W	ANGPTL4_uc002mjr.1_Missense_Mutation_p.R128W|ANGPTL4_uc010xkc.1_5'UTR	NM_139314	NP_647475	Q9BY76	ANGL4_HUMAN	angiopoietin-like 4 protein isoform a precursor	128	Potential.				angiogenesis|cell differentiation|cellular lipid metabolic process|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|positive regulation of angiogenesis|response to hypoxia|signal transduction|triglyceride homeostasis	extracellular space|proteinaceous extracellular matrix	enzyme inhibitor activity|receptor binding			ovary(1)	1						CCAGCAGCAGCGGCACCTGGA	0.562													25	50					0	0	0.750413	0	0		T	8430901	T	T	8430901	3	4	142	1	0	0	0	0	1	0	0	0	616	759	27	1	388	1	ANGPTL4	19	8430901	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	268675	8430901	50698082	307	76204											
ZNF93	81931	broad.mit.edu	37	chr19	20044880	20044880	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaaacattacaaatgtgaAgaatgtggcaaagccttcat	18	9	8	6	0	1	3	1	1	0	2	1	3	1	3	1	1	3	1	1	1	7	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:20044880A>C	uc002non.2	+	4	1227	c.1116A>C	c.(1114-1116)GAA>GAC	p.E372D		NM_031218	NP_112495	P35789	ZNF93_HUMAN	zinc finger protein 93	372	C2H2-type 9.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1						ACAAATGTGAAGAATGTGGCA	0.393													60	94					0	0	0.870114	0	0		C	20044880	C	C	20044880	3	2	142	1	0	0	0	0	1	0	0	0	18227	69	3	5	1130	5	ZNF93	19	20044880	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	11613979	20044880	39084103	308	76205											
ZNF208	7757	broad.mit.edu	37	chr19	22156673	22156673	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctccagtatgaattttcTtatgataactaagggttgag	11	16	8	6	0	2	3	0	3	2	0	4	3	3	3	1	1	1	2	1	1	5	7			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:22156673T>C	uc002nqp.2	-	4	1312	c.1163A>G	c.(1162-1164)AAG>AGG	p.K388R	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				ATGAATTTTCTTATGATAACT	0.373													50	99					0	0	0.870114	0	0		C	22156673	C	C	22156673	3	2	142	1	0	0	0	0	1	0	0	0	17791	1609	56	3	2683	3	ZNF208	19	22156673	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	2111793	22156673	36972310	309	76206											
ZNF208	7757	broad.mit.edu	37	chr19	22157209	22157209	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggttgaggaccagttaaaAgctttgccaccttcttcaca	11	11	9	10	0	2	1	1	1	1	0	2	2	2	2	3	2	2	3	3	2	2	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:22157209A>C	uc002nqp.2	-	4	776	c.627T>G	c.(625-627)GCT>GCG	p.A209A	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				ACCAGTTAAAAGCTTTGCCAC	0.363													51	99					0	0	0.870114	0	0		C	22157209	C	C	22157209	2	2	142	1	0	0	0	0	0	0	0	1	17791	59	3	5		5	ZNF208	19	22157209	Silent	SNP	A	TCGA-CG-4469-01A-01D-1158-08	536	22157209	36971774	310	76207											
ZNF492	57615	broad.mit.edu	37	chr19	22836737	22836737	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaggtattgctgcctctaAgccagacctgatcacctgtc	10	10	8	13	0	2	2	1	1	1	1	3	2	2	2	4	1	4	2	4	1	3	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:22836737A>C	uc002nqw.3	+	3	294	c.50A>C	c.(49-51)AAG>ACG	p.K17T		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	17	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				GCTGCCTCTAAGCCAGACCTG	0.403													73	135					0	0	0.870114	0	0		C	22836737	C	C	22836737	3	2	142	1	0	0	0	0	1	0	0	0	17968	72	3	5	56	5	ZNF492	19	22836737	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	679528	22836737	36292246	311	76208											
ZNF302	55900	broad.mit.edu	37	chr19	35174131	35174131	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccctggatgatggagaaaAaactgtcaaaaggtatgatt	16	9	11	5	0	1	3	1	2	0	1	1	5	1	4	1	3	2	1	1	3	6	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:35174131A>T	uc002nvr.1	+	5	597	c.334A>T	c.(334-336)AAA>TAA	p.K112*	ZNF302_uc010xrz.1_Nonsense_Mutation_p.K69*|ZNF302_uc002nvp.1_Nonsense_Mutation_p.K68*|ZNF302_uc002nvq.1_Nonsense_Mutation_p.K68*|ZNF302_uc002nvs.1_Nonsense_Mutation_p.K68*	NM_018443	NP_060913	Q9NR11	ZN302_HUMAN	zinc finger protein 302	Error:Variant_position_missing_in_Q9NR11_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;6.16e-07)|Lung NSC(56;9.71e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			GATGGAGAAAAAACTGTCAAA	0.368													53	88					0	0	0.870114	0	0		T	35174131	T	T	35174131	4	4	142	1	0	0	0	0	0	1	0	0	17857	15	1	5	212	5	ZNF302	19	35174131	Nonsense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	12337394	35174131	23954852	312	76209											
ZNF568	374900	broad.mit.edu	37	chr19	37413699	37413699	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcaatcttcagtgatcagCaatagctgtgtgacaatgga	12	12	9	8	0	4	2	3	2	2	0	5	3	4	3	0	1	2	2	0	1	4	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:37413699C>A	uc002ofc.2	+	3	542	c.27C>A	c.(25-27)AGC>AGA	p.S9R	ZNF568_uc010efg.2_5'UTR|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Intron|ZNF568_uc010efe.2_Intron|ZNF568_uc010eff.1_5'UTR	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	9					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CAGTGATCAGCAATAGCTGTG	0.502													45	51					3.21987e-24	3.40594e-24	0.870114	1	0		A	37413699	A	A	37413699	3	1	142	1	0	0	0	0	1	0	0	0	18024	709	25	5	29	5	ZNF568	19	37413699	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	2239568	37413699	21715284	313	76210											
RYR1	6261	broad.mit.edu	37	chr19	38980888	38980888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagactgcaagacgtacccGcgagttccgctccccacccc	9	5	9	18	4	0	2	0	0	0	2	2	4	2	2	6	0	2	4	6	0	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:38980888G>A	uc002oit.2	+	36	6117	c.5987G>A	c.(5986-5988)CGC>CAC	p.R1996H	RYR1_uc002oiu.2_Missense_Mutation_p.R1996H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1996	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AGACGTACCCGCGAGTTCCGC	0.577													18	28					0	0	0.592651	0	0		A	38980888	A	A	38980888	3	1	142	1	0	0	0	0	1	0	0	0	13793	1087	38	1	6129	1	RYR1	19	38980888	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	1567189	38980888	20148095	314	76211											
SYT3	84258	broad.mit.edu	37	chr19	51135608	51135608	+	Frame_Shift_Del	DEL	G	-	-																															ctgggcaagcccccaccactGgggggcagcaggagcaaccc																										TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:51135608delG	uc002pst.2	-	2	1243	c.609delC	c.(607-609)CCCfs	p.P203fs	SYT3_uc002psv.2_Frame_Shift_Del_p.P203fs|SYT3_uc010ycd.1_Frame_Shift_Del_p.P203fs	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	203	Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		CCCCACCACTGGGGGGCAGCA	0.647													39	89	---	---	---	---						.	-	51135608	-	-	51135608	7	5	142	1	0	1	0	1	0	0	0	0	15500	1335	47	0	1191	0	SYT3	19	51135608	Frame_Shift_Del	DEL	G	TCGA-CG-4469-01A-01D-1158-08	12154720	51135608	7993375	315	76212											
CD33	945	broad.mit.edu	37	chr19	51742916	51742916	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttccaaggacacctccacCgaatactcagaggtcaggac	12	6	8	15	1	2	1	2	0	0	1	4	4	4	3	5	3	1	0	5	3	3	2	rs61736476	byFrequency	TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:51742916C>T	uc002pwa.2	+	7	1108	c.1068C>T	c.(1066-1068)ACC>ACT	p.T356T	CD33_uc010eos.1_3'UTR|CD33_uc010eot.1_Silent_p.T229T|CD33_uc010eou.1_RNA	NM_001772	NP_001763	P20138	CD33_HUMAN	CD33 antigen isoform 1 precursor	356	ITIM motif 2.|Cytoplasmic (Potential).				cell adhesion|cell-cell signaling|negative regulation of cell proliferation	external side of plasma membrane|integral to plasma membrane	receptor activity|sugar binding				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	ACACCTCCACCGAATACTCAG	0.532													19	40					0	0	0.557998	0	0		T	51742916	T	T	51742916	2	4	142	1	0	0	0	0	0	0	0	1	3008	639	23	1		1	CD33	19	51742916	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	607308	51742916	7386067	316	76213											
ZNF83	55769	broad.mit.edu	37	chr19	53116874	53116874	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcattacatttgtaaggtTtctctccagtatgaattctc	10	17	5	9	0	3	1	1	1	2	0	6	1	4	1	1	1	1	3	1	1	4	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:53116874T>G	uc002pzu.3	-	2	2188	c.944A>C	c.(943-945)AAA>ACA	p.K315T	ZNF83_uc002pzv.3_Missense_Mutation_p.K315T|ZNF83_uc010eps.2_Missense_Mutation_p.K287T|ZNF83_uc010ept.2_Missense_Mutation_p.K315T|ZNF83_uc010epu.2_Missense_Mutation_p.K315T|ZNF83_uc010epv.2_Missense_Mutation_p.K315T|ZNF83_uc010epw.2_Missense_Mutation_p.K315T|ZNF83_uc010epx.2_Missense_Mutation_p.K287T|ZNF83_uc010epy.2_Missense_Mutation_p.K315T|ZNF83_uc010epz.2_Missense_Mutation_p.K287T	NM_018300	NP_060770	P51522	ZNF83_HUMAN	zinc finger protein 83 isoform a	315						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00841)|GBM - Glioblastoma multiforme(134;0.0244)		TTTGTAAGGTTTCTCTCCAGT	0.408													102	160					0	0	0.870114	0	0		G	53116874	G	G	53116874	3	3	142	1	0	0	0	0	1	0	0	0	18208	1841	64	5	610	5	ZNF83	19	53116874	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	1373958	53116874	6012109	317	76214											
LILRB3	11025	broad.mit.edu	37	chr19	54746095	54746095	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagttggtactcctgggcCtccaggctcccctgacacca	6	9	9	17	0	0	1	0	1	0	0	4	1	4	1	7	3	1	3	7	3	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:54746095C>T	uc010erh.1	-	3	286	c.162G>A	c.(160-162)GAG>GAA	p.E54E	LILRA6_uc002qew.1_Silent_p.E54E|LILRB3_uc002qeh.1_Silent_p.E54E|LILRB3_uc002qeg.1_RNA|LILRB3_uc002qei.1_Silent_p.E54E|LILRA6_uc002qek.1_Silent_p.E54E|LILRB3_uc002qej.1_RNA|LILRA6_uc002qel.1_Silent_p.E54E|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Silent_p.E54E|LILRB3_uc002qep.1_Silent_p.E54E|LILRB3_uc002qeq.1_Silent_p.E54E|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Silent_p.E54E|LILRA6_uc010yep.1_Silent_p.E54E|LILRA6_uc010yeq.1_Silent_p.E54E|LILRA6_uc002qet.3_RNA|LILRA6_uc002qeu.1_Silent_p.E54E|LILRA6_uc002qev.1_5'Flank	NM_006864	NP_006855	O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor,	54	Extracellular (Potential).|Ig-like C2-type 1.				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	transmembrane receptor activity			skin(2)|ovary(1)	3	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		ACTCCTGGGCCTCCAGGCTCC	0.592													103	296					0	0	0.870114	0	0		T	54746095	T	T	54746095	2	4	142	1	0	0	0	0	0	0	0	1	8808	680	24	4		4	LILRB3	19	54746095	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1629221	54746095	4382888	318	76215											
LILRB4	11006	broad.mit.edu	37	chr19	55175267	55175267	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggctctgtgatcagctggggGaactctgtgaccatctggtg	6	11	15	9	0	4	2	1	2	3	0	4	3	4	3	1	4	2	2	1	4	1	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:55175267G>A	uc002qgp.2	+	3	488	c.126G>A	c.(124-126)GGG>GGA	p.G42G	LILRB4_uc002qgo.1_Silent_p.G83G|LILRB4_uc002qgq.2_Silent_p.G42G|LILRB4_uc010ers.1_5'UTR|LILRB4_uc002qgr.2_Silent_p.G83G|LILRB4_uc010ert.2_Silent_p.G83G|LILRB4_uc010eru.2_Silent_p.G71G	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	42	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane|plasma membrane	antigen binding|receptor activity			ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)		TCAGCTGGGGGAACTCTGTGA	0.607													85	119					0	0	0.870114	0	0		A	55175267	A	A	55175267	2	1	142	1	0	0	0	0	0	0	0	1	8809	1161	41	4		4	LILRB4	19	55175267	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	429172	55175267	3953716	319	76216											
NLRP9	338321	broad.mit.edu	37	chr19	56244335	56244335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttatgagttttggatgccGcaacataaaatagtgttttt	11	17	8	5	1	0	1	0	1	0	0	0	2	0	2	1	1	2	3	1	1	5	8			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:56244335G>A	uc002qly.2	-	2	890	c.862C>T	c.(862-864)CGG>TGG	p.R288W		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	288	NACHT.					cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		TTTGGATGCCGCAACATAAAA	0.378													52	93					0	0	0.870114	0	0		A	56244335	A	A	56244335	3	1	142	1	0	0	0	0	1	0	0	0	10503	1086	38	1	2145	1	NLRP9	19	56244335	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	1069068	56244335	2884648	320	76217											
PEG3	5178	broad.mit.edu	37	chr19	57328918	57328918	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcccccgccggtgggttgAttttttggcttcaggcatag	6	13	12	10	2	1	1	1	1	0	0	2	1	2	1	3	4	0	3	3	4	2	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:57328918A>T	uc002qnu.2	-	7	1243	c.892T>A	c.(892-894)TCA>ACA	p.S298T	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.S269T|PEG3_uc002qnv.2_Missense_Mutation_p.S298T|PEG3_uc002qnw.2_Missense_Mutation_p.S174T|PEG3_uc002qnx.2_Missense_Mutation_p.S172T|PEG3_uc010etr.2_Missense_Mutation_p.S298T	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	298					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CGGTGGGTTGATTTTTTGGCT	0.468													45	78					0	0	0.870114	0	0		T	57328918	T	T	57328918	3	4	142	1	0	0	0	0	1	0	0	0	11739	333	12	5	3878	5	PEG3	19	57328918	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	1084583	57328918	1800065	321	76218											
PEG3	5178	broad.mit.edu	37	chr19	57335020	57335020	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccgggtcatgtcgtcgTcgctggtcacgtcactgttg	3	14	13	11	5	3	0	3	0	0	0	7	0	4	0	1	2	0	3	1	2	0	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:57335020T>G	uc002qnu.2	-	2	773	c.422A>C	c.(421-423)GAC>GCC	p.D141A	ZIM2_uc010ygq.1_5'UTR|ZIM2_uc010ygr.1_5'UTR|ZIM2_uc002qnr.2_Missense_Mutation_p.D15A|ZIM2_uc002qnq.2_Missense_Mutation_p.D15A|ZIM2_uc010etp.2_Missense_Mutation_p.D15A|ZIM2_uc010ygs.1_Missense_Mutation_p.D15A|PEG3_uc002qnt.2_Missense_Mutation_p.D141A|PEG3_uc002qnv.2_Missense_Mutation_p.D141A|PEG3_uc002qnw.2_Missense_Mutation_p.D15A|PEG3_uc002qnx.2_Missense_Mutation_p.D15A|PEG3_uc010etr.2_Missense_Mutation_p.D141A	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	141					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CATGTCGTCGTCGCTGGTCAC	0.557													56	70					0	0	0.870114	0	0		G	57335020	G	G	57335020	3	3	142	1	0	0	0	0	1	0	0	0	11739	1667	58	5	4374	5	PEG3	19	57335020	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	6102	57335020	1793963	322	76219											
ZNF551	90233	broad.mit.edu	37	chr19	58198842	58198842	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgagtgtgggaaatcctTtagacaaatcttcaatctca	12	13	8	8	0	3	2	2	1	2	1	5	3	4	3	1	1	0	0	1	1	4	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr19:58198842T>G	uc002qpw.3	+	3	1374	c.1151T>G	c.(1150-1152)TTT>TGT	p.F384C	ZNF551_uc002qpv.3_Missense_Mutation_p.F327C|ZNF776_uc002qpx.2_Intron	NM_138347	NP_612356	Q7Z340	ZN551_HUMAN	zinc finger protein 551	400	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GGGAAATCCTTTAGACAAATC	0.433													67	104					0	0	0.870114	0	0		G	58198842	G	G	58198842	3	3	142	1	0	0	0	0	1	0	0	0	18008	1841	64	5	1161	5	ZNF551	19	58198842	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	863822	58198842	930141	323	76220											
SSTR4	6754	broad.mit.edu	37	chr20	23016664	23016664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggtcactctccccatcGccatcttcgcagacaccaga	8	10	7	16	2	3	2	1	0	2	2	6	2	3	2	4	1	0	2	4	1	0	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr20:23016664G>A	uc002wsr.2	+	1	608	c.544G>A	c.(544-546)GCC>ACC	p.A182T		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	182	Helical; Name=4; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					TCTCCCCATCGCCATCTTCGC	0.692													54	118					0	0	0.870114	0	0		A	23016664	A	A	23016664	3	1	142	1	0	0	0	0	1	0	0	0	15225	1087	38	1	546	1	SSTR4	20	23016664	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08		23016664	40008856	324	76221											
SUN5	140732	broad.mit.edu	37	chr20	31577434	31577434	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggtcacctacctatagacTtcagggcaaagtctggcttt	9	11	11	10	0	3	1	2	0	1	1	3	1	3	1	2	4	1	2	2	4	4	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr20:31577434T>G	uc002wyi.2	-	9	698	c.605A>C	c.(604-606)AAG>ACG	p.K202T		NM_080675	NP_542406	Q8TC36	SUN5_HUMAN	sperm associated antigen 4-like	202					spermatogenesis					skin(1)	1						ACCTATAGACTTCAGGGCAAA	0.488													31	80					0	0	0.788014	0	0		G	31577434	G	G	31577434	3	3	142	1	0	0	0	0	1	0	0	0	15419	1609	56	5	554	5	SUN5	20	31577434	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	8560770	31577434	31448086	325	76222											
CEP250	11190	broad.mit.edu	37	chr20	34090802	34090802	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctagaacttgagaagaaagaCcaaatgattgagtcccagag	17	7	10	7	0	0	7	0	3	0	5	1	8	1	7	2	0	1	0	2	0	5	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr20:34090802C>A	uc002xcm.2	+	31	5276	c.4605C>A	c.(4603-4605)GAC>GAA	p.D1535E	CEP250_uc010zve.1_Missense_Mutation_p.D903E	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	1535	Gln/Glu-rich.|Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			AGAAGAAAGACCAAATGATTG	0.502													38	132					9.85521e-28	1.05843e-27	0.819951	1	0		A	34090802	A	A	34090802	3	1	142	1	0	0	0	0	1	0	0	0	3255	506	18	5	4711	5	CEP250	20	34090802	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	2513368	34090802	28934718	326	76223											
NCAM2	4685	broad.mit.edu	37	chr21	22782648	22782648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactcttgggaaggaaatcCtatcaatataagttgtgatg	13	14	9	5	0	2	1	1	1	1	0	3	3	3	3	1	2	1	1	1	2	7	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr21:22782648C>T	uc002yld.1	+	10	1499	c.1250C>T	c.(1249-1251)CCT>CTT	p.P417L	NCAM2_uc011acb.1_Missense_Mutation_p.P275L	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	417	Ig-like C2-type 5.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		GAAGGAAATCCTATCAATATA	0.308													5	38					0	0	0.184627	0	0		T	22782648	T	T	22782648	3	4	142	1	0	0	0	0	1	0	0	0	10222	681	24	4	1288	4	NCAM2	21	22782648	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08		22782648	25347247	327	76224											
APP	351	broad.mit.edu	37	chr21	27347535	27347535	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaagattccactttctcctGgaaatgctgccatcataaac	13	11	5	12	0	2	1	1	0	1	1	4	2	3	2	3	1	3	1	3	1	4	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr21:27347535G>A	uc002ylz.2	-	11	1506	c.1306C>T	c.(1306-1308)CAG>TAG	p.Q436*	APP_uc010glk.2_Nonsense_Mutation_p.Q412*|APP_uc002yma.2_Nonsense_Mutation_p.Q417*|APP_uc011ach.1_Nonsense_Mutation_p.Q380*|APP_uc002ymb.2_Nonsense_Mutation_p.Q361*|APP_uc010glj.2_Nonsense_Mutation_p.Q305*|APP_uc011aci.1_Nonsense_Mutation_p.Q326*	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	436	Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				ACTTTCTCCTGGAAATGCTGC	0.463													44	21					0	0	0.870114	0	0		A	27347535	A	A	27347535	4	1	142	1	0	0	0	0	0	1	0	0	815	1357	47	4	1038	4	APP	21	27347535	Nonsense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	4564887	27347535	20782360	328	76225											
TIAM1	7074	broad.mit.edu	37	chr21	32526634	32526634	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttatctgcatccgagagTtgtctcatggtcgccagctg	7	12	11	11	2	2	1	1	0	2	1	5	2	3	1	2	1	3	4	2	1	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr21:32526634T>G	uc002yow.1	-	18	3574	c.3102A>C	c.(3100-3102)CAA>CAC	p.Q1034H	TIAM1_uc011adk.1_Missense_Mutation_p.Q1034H|TIAM1_uc011adl.1_Missense_Mutation_p.Q974H	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1034					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CATCCGAGAGTTGTCTCATGG	0.582													4	150					0	0	0.150653	0	0		G	32526634	G	G	32526634	3	3	142	1	0	0	0	0	1	0	0	0	15915	1722	60	5	1721	5	TIAM1	21	32526634	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	5179099	32526634	15603261	329	76226											
CECR5	27440	broad.mit.edu	37	chr22	17622071	17622071	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgctgaggaggacatccatGatcagctgcaggctggtctc	8	10	13	10	0	2	2	1	2	1	0	4	4	3	4	1	4	3	4	1	4	0	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr22:17622071G>A	uc002zmf.2	-	6	652	c.624C>T	c.(622-624)ATC>ATT	p.I208I	CECR5_uc002zmd.2_Silent_p.I19I|CECR5_uc002zme.2_5'UTR|CECR5_uc002zmg.2_Silent_p.I71I|CECR5_uc002zmh.2_Silent_p.I178I	NM_033070	NP_149061	Q9BXW7	CECR5_HUMAN	cat eye syndrome chromosome region, candidate 5	208							hydrolase activity				0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)				GGACATCCATGATCAGCTGCA	0.647													8	76					0	0	0.361761	0	0		A	17622071	A	A	17622071	2	1	142	1	0	0	0	0	0	0	0	1	3210	1280	45	4		4	CECR5	22	17622071	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08		17622071	33682495	330	76227											
AIFM3	150209	broad.mit.edu	37	chr22	21327698	21327698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctaccagggcaatggcaCggcccgccacttccacacgg	8	4	12	17	3	0	0	0	0	0	0	1	0	1	0	5	5	1	2	5	5	2	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr22:21327698C>T	uc002ztj.2	+	3	352	c.134C>T	c.(133-135)ACG>ATG	p.T45M	AIFM3_uc002ztk.2_Missense_Mutation_p.T45M|AIFM3_uc002ztl.2_Missense_Mutation_p.T51M|AIFM3_uc011ahx.1_Missense_Mutation_p.R70W|AIFM3_uc002ztm.1_5'Flank	NM_144704	NP_653305	Q96NN9	AIFM3_HUMAN	apoptosis-inducing factor,	45					activation of caspase activity by cytochrome c|cell redox homeostasis|electron transport chain|induction of apoptosis|mitochondrial depolarization|transport	endoplasmic reticulum|mitochondrial inner membrane	2 iron, 2 sulfur cluster binding|caspase activator activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity|protein binding			ovary(2)|lung(2)	4	all_cancers(11;3.71e-26)|all_epithelial(7;1.59e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0367)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			GGCAATGGCACGGCCCGCCAC	0.672													11	9					0	0	0.411799	0	0		T	21327698	T	T	21327698	3	4	142	1	0	0	0	0	1	0	0	0	428	536	19	1	158	1	AIFM3	22	21327698	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	3705627	21327698	29976868	331	76228											
SUSD2	56241	broad.mit.edu	37	chr22	24581668	24581668	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcagtgctgctacacagcGgacgggacgcagctcctgac	9	5	13	14	3	0	1	0	1	0	0	1	3	1	3	1	2	6	5	1	2	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr22:24581668G>A	uc002zzn.1	+	8	1154	c.1110G>A	c.(1108-1110)GCG>GCA	p.A370A		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	370	AMOP.|Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GCTACACAGCGGACGGGACGC	0.701													5	11					0	0	0.27861	0	0		A	24581668	A	A	24581668	2	1	142	1	0	0	0	0	0	0	0	1	15433	1103	39	1		1	SUSD2	22	24581668	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	3253970	24581668	26722898	332	76229											
CRYBB2	1415	broad.mit.edu	37	chr22	25627692	25627692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtccgtgcgccgtatcCgcgacatgcagtggcaccaa	8	7	12	14	5	0	0	0	0	0	0	2	1	2	0	4	1	3	4	4	1	2	1	rs148209404		TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr22:25627692C>T	uc003abp.1	+	6	619	c.571C>T	c.(571-573)CGC>TGC	p.R191C		NM_000496	NP_000487	P43320	CRBB2_HUMAN	crystallin, beta B2	191	Beta/gamma crystallin 'Greek key' 4.				response to stimulus|visual perception		structural constituent of eye lens				0						GCGCCGTATCCGCGACATGCA	0.652													86	129					0	0	0.870114	0	0		T	25627692	T	T	25627692	3	4	142	1	0	0	0	0	1	0	0	0	3914	652	23	1	589	1	CRYBB2	22	25627692	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08	1046024	25627692	25676874	333	76230											
CACNA1I	8911	broad.mit.edu	37	chr22	40055011	40055011	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggctgctgcgcgtgctgaaActggtgcgcttcatgcctgc	4	10	14	13	4	1	1	1	1	0	0	1	1	1	1	1	2	7	4	1	2	1	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr22:40055011A>C	uc003ayc.2	+	12	2220	c.2220A>C	c.(2218-2220)AAA>AAC	p.K740N	CACNA1I_uc003ayd.2_Missense_Mutation_p.K705N|CACNA1I_uc003aye.2_Missense_Mutation_p.K655N|CACNA1I_uc003ayf.2_Missense_Mutation_p.K620N	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	740	Helical; Name=S4 of repeat II; (Potential).|II.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	GCGTGCTGAAACTGGTGCGCT	0.652													9	9					0	0	0.307466	0	0		C	40055011	C	C	40055011	3	2	142	1	0	0	0	0	1	0	0	0	2549	40	2	5	2266	5	CACNA1I	22	40055011	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	14427319	40055011	11249555	334	76231											
ALG12	79087	broad.mit.edu	37	chr22	50307428	50307428	+	Translation_Start_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccattccaggctttcagcTtcacgtaccttcacaggcca	9	10	7	15	1	3	0	3	0	0	0	4	0	4	0	4	2	3	3	4	2	1	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chr22:50307428T>A	uc003biy.2	-	2	260	c.-14A>T	c.(-16--12)GAAGC>GATGC			NM_024105	NP_077010	Q9BV10	ALG12_HUMAN	alpha-1,6-mannosyltransferase ALG12						dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	integral to membrane|intrinsic to endoplasmic reticulum membrane					0		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		BRCA - Breast invasive adenocarcinoma(115;0.199)|LUAD - Lung adenocarcinoma(64;0.247)		GGCTTTCAGCTTCACGTACCT	0.587													26	40					0	0	0.853193	0	0		A	50307428	A	A	50307428	1	1	142	1	0	0	0	0	0	0	0	0	514	1624	56	5		5	ALG12	22	50307428	Translation_Start_Site	SNP	T	TCGA-CG-4469-01A-01D-1158-08	10252417	50307428	997138	335	76232											
FAM48B1	100130302	broad.mit.edu	37	chrX	24382955	24382955	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cctccaggttccgcagggctCggcggttctgaccggcccgc	3	7	14	17	5	1	1	0	1	1	0	4	1	3	1	5	5	0	4	5	5	0	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:24382955C>G	uc011mjx.1	+	1	2078	c.2078C>G	c.(2077-2079)TCG>TGG	p.S693W		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						CCGCAGGGCTCGGCGGTTCTG	0.627													55	43					0	0	0.870114	0	0		G	24382955	G	G	24382955	3	3	142	1	0	0	0	0	1	0	0	0	5587	893	31	5	2080	5	FAM48B1	23	24382955	Missense_Mutation	SNP	C	TCGA-CG-4469-01A-01D-1158-08		24382955	130887605	336	76233											
MAGEB18	286514	broad.mit.edu	37	chrX	26157683	26157683	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccagtgatgaagaaaaaaTtcccaagactggcctcctga	16	7	8	10	0	0	5	0	3	0	2	2	5	2	5	4	1	1	0	4	1	6	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:26157683T>A	uc004dbq.1	+	2	768	c.581T>A	c.(580-582)ATT>AAT	p.I194N		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	194	MAGE.						protein binding			central_nervous_system(1)	1						GAAGAAAAAATTCCCAAGACT	0.448													15	18					0	0	0.500413	0	0		A	26157683	A	A	26157683	3	1	142	1	0	0	0	0	1	0	0	0	9193	1493	52	5	583	5	MAGEB18	23	26157683	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	1774728	26157683	129112877	337	76234											
FOXR2	139628	broad.mit.edu	37	chrX	55650731	55650731	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggcaaaggccccctctcaAttgtagccaccttattgccc	8	10	7	16	0	1	0	1	0	1	0	2	0	1	0	5	2	2	2	5	2	4	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:55650731A>C	uc004duo.2	+	1	899	c.587A>C	c.(586-588)AAT>ACT	p.N196T		NM_198451	NP_940853	Q6PJQ5	FOXR2_HUMAN	forkhead box R2	196	Fork-head.				embryo development|organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			lung(2)|central_nervous_system(1)	3						CCCCCTCTCAATTGTAGCCAC	0.488													58	21					0	0	0.870114	0	0		C	55650731	C	C	55650731	3	2	142	1	0	0	0	0	1	0	0	0	6046	101	4	5	589	5	FOXR2	23	55650731	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	29493048	55650731	99619829	338	76235											
FAAH2	158584	broad.mit.edu	37	chrX	57367776	57367776	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tgatattggtggtagcattcGaatgcctgctttcttcaatg	8	16	10	7	1	2	1	1	1	1	0	3	2	2	1	1	2	3	3	1	2	4	6			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:57367776G>C	uc004dvc.2	+	5	844	c.695G>C	c.(694-696)CGA>CCA	p.R232P		NM_174912	NP_777572	Q6GMR7	FAAH2_HUMAN	fatty acid amide hydrolase 2	232						integral to membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|hydrolase activity			ovary(3)	3						GGTAGCATTCGAATGCCTGCT	0.423										HNSCC(52;0.14)			126	273					0	0	0.870114	0	0		C	57367776	C	C	57367776	3	2	142	1	0	0	0	0	1	0	0	0	5365	1058	37	5	713	5	FAAH2	23	57367776	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	1717045	57367776	97902784	339	76236											
ZCCHC5	203430	broad.mit.edu	37	chrX	77913151	77913151	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatgtaactatacagctgaAccaggaactcaggaagcttc	14	9	8	10	0	2	1	2	1	0	0	3	3	2	3	1	2	6	3	1	2	6	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:77913151A>C	uc004edc.1	-	2	1063	c.767T>G	c.(766-768)GTT>GGT	p.V256G		NM_152694	NP_689907	Q8N8U3	ZCHC5_HUMAN	zinc finger, CCHC domain containing 5	256							nucleic acid binding|zinc ion binding			ovary(1)	1						ATACAGCTGAACCAGGAACTC	0.507													10	4					0	0	0.361761	0	0		C	77913151	C	C	77913151	3	2	142	1	0	0	0	0	1	0	0	0	17616	43	2	5	664	5	ZCCHC5	23	77913151	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	20545375	77913151	77357409	340	76237											
ZCCHC5	203430	broad.mit.edu	37	chrX	77913452	77913452	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggatcctggggttctgAattcttgggctcttgggcta	4	14	16	7	0	3	1	0	1	3	0	4	2	4	2	1	6	0	3	1	6	2	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:77913452A>C	uc004edc.1	-	2	762	c.466T>G	c.(466-468)TCA>GCA	p.S156A		NM_152694	NP_689907	Q8N8U3	ZCHC5_HUMAN	zinc finger, CCHC domain containing 5	156	Pro-rich.						nucleic acid binding|zinc ion binding			ovary(1)	1						TGGGGTTCTGAATTCTTGGGC	0.557													40	6					0	0	0.840704	0	0		C	77913452	C	C	77913452	3	2	142	1	0	0	0	0	1	0	0	0	17616	246	9	5	965	5	ZCCHC5	23	77913452	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	301	77913452	77357108	341	76238											
DACH2	117154	broad.mit.edu	37	chrX	86087115	86087115	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttttttttaaggaggtaActattactgtttagaaatgg	11	19	8	3	0	1	1	0	0	1	1	1	2	1	2	0	3	2	2	0	3	6	10			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:86087115A>C	uc004eew.2	+	12	1927	c.1757A>C	c.(1756-1758)AAC>ACC	p.N586T	DACH2_uc004eex.2_3'UTR|DACH2_uc010nmq.2_Missense_Mutation_p.N452T|DACH2_uc011mra.1_Missense_Mutation_p.N419T|DACH2_uc010nmr.2_Missense_Mutation_p.N367T	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	586					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						TAAGGAGGTAACTATTACTGT	0.338													33	13					0	0	0.769981	0	0		C	86087115	C	C	86087115	3	2	142	1	0	0	0	0	1	0	0	0	4224	43	2	5	1812	5	DACH2	23	86087115	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	8173663	86087115	69183445	342	76239											
CSTF2	1478	broad.mit.edu	37	chrX	100078953	100078953	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcttatgctttgctgcaaGcacaggtagtgatgagaatt	10	13	12	6	0	0	2	0	2	0	1	0	3	0	2	0	2	4	6	0	2	4	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:100078953G>C	uc004egh.2	+	5	581	c.523G>C	c.(523-525)GCA>CCA	p.A175P	CSTF2_uc010nnd.2_Missense_Mutation_p.A175P|CSTF2_uc004egi.2_Missense_Mutation_p.A175P	NM_001325	NP_001316	P33240	CSTF2_HUMAN	cleavage stimulation factor subunit 2	175	Interactions with CSTF3 and SYMPK.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cleavage body|mRNA cleavage and polyadenylation specificity factor complex	nucleotide binding|protein binding|protein binding|RNA binding			skin(1)	1						TTTGCTGCAAGCACAGGTAGT	0.473													99	33					0	0	0.870114	0	0		C	100078953	C	C	100078953	3	2	142	1	0	0	0	0	1	0	0	0	3987	971	34	5	541	5	CSTF2	23	100078953	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	13991838	100078953	55191607	343	76240											
IL1RAPL2	26280	broad.mit.edu	37	chrX	104512217	104512217	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacgaacaactgaattgaaAgttacaggtaggaatcagtt	17	9	10	5	1	1	3	1	2	0	1	1	5	1	4	0	2	3	3	0	2	7	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:104512217A>C	uc004elz.1	+	5	1446	c.690A>C	c.(688-690)AAA>AAC	p.K230N		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	230	Ig-like C2-type 2.|Extracellular (Potential).				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						CTGAATTGAAAGTTACAGGTA	0.338													54	13					0	0	0.870114	0	0		C	104512217	C	C	104512217	3	2	142	1	0	0	0	0	1	0	0	0	7678	69	3	5	704	5	IL1RAPL2	23	104512217	Missense_Mutation	SNP	A	TCGA-CG-4469-01A-01D-1158-08	4433264	104512217	50758343	344	76241											
NRK	203447	broad.mit.edu	37	chrX	105153087	105153087	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgccactacaggcacaggTtagggcacctaggcttctgc	9	8	11	13	0	1	0	0	0	1	0	1	0	1	0	2	4	3	4	2	4	3	4			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:105153087T>G	uc004emd.2	+	13	1757	c.1454T>G	c.(1453-1455)GTT>GGT	p.V485G	NRK_uc010npc.1_Missense_Mutation_p.V153G	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	485	Gln-rich.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						CAGGCACAGGTTAGGGCACCT	0.542										HNSCC(51;0.14)			31	13					0	0	0.788014	0	0		G	105153087	G	G	105153087	3	3	142	1	0	0	0	0	1	0	0	0	10674	1725	60	5	1504	5	NRK	23	105153087	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	640870	105153087	50117473	345	76242											
IGSF1	3547	broad.mit.edu	37	chrX	130412103	130412103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaatgacaggtttggggaGgatgtctggaaaacagaatg	15	8	15	3	0	1	3	0	1	1	2	1	6	1	6	0	5	1	1	0	5	4	1			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:130412103G>A	uc004ewd.2	-	13	2285	c.2047C>T	c.(2047-2049)CTC>TTC	p.L683F	IGSF1_uc004ewe.3_Missense_Mutation_p.L677F|IGSF1_uc004ewf.2_Missense_Mutation_p.L663F	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	683	Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GGTTTGGGGAGGATGTCTGGA	0.493													58	149					0	0	0.870114	0	0		A	130412103	A	A	130412103	3	1	142	1	0	0	0	0	1	0	0	0	7612	1000	35	4	1995	4	IGSF1	23	130412103	Missense_Mutation	SNP	G	TCGA-CG-4469-01A-01D-1158-08	25259016	130412103	24858457	346	76243											
GPR112	139378	broad.mit.edu	37	chrX	135427962	135427962	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagaatatttatccgcaacTaccaatatcaccccactgaa	16	9	3	13	1	1	2	1	1	0	1	2	2	2	2	4	0	2	1	4	0	8	5			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:135427962T>C	uc004ezu.1	+	6	2388	c.2097T>C	c.(2095-2097)ACT>ACC	p.T699T	GPR112_uc010nsb.1_Silent_p.T494T|GPR112_uc010nsc.1_Silent_p.T466T	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	699	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TATCCGCAACTACCAATATCA	0.388													246	15					0	0	0.870114	0	0		C	135427962	C	C	135427962	2	2	142	1	0	0	0	0	0	0	0	1	6644	1509	53	3		3	GPR112	23	135427962	Silent	SNP	T	TCGA-CG-4469-01A-01D-1158-08	5015859	135427962	19842598	347	76244											
SPANXN1	494118	broad.mit.edu	37	chrX	144337215	144337215	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagacaccaaacagggacTtagcccccgaaccgagtttg	13	5	11	12	2	0	1	0	0	0	1	0	5	0	2	4	2	3	1	4	2	3	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:144337215T>G	uc004fcb.2	+	2	100	c.100T>G	c.(100-102)TTA>GTA	p.L34V		NM_001009614	NP_001009614	Q5VSR9	SPXN1_HUMAN	SPANX-N1 protein	34											0	Acute lymphoblastic leukemia(192;6.56e-05)					AAACAGGGACTTAGCCCCCGA	0.418													169	14					0	0	0.870114	0	0		G	144337215	G	G	144337215	3	3	142	1	0	0	0	0	1	0	0	0	15015	1606	56	5	106	5	SPANXN1	23	144337215	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	8909253	144337215	10933345	348	76245											
SLITRK2	84631	broad.mit.edu	37	chrX	144905446	144905446	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccctaaccaggctgaatctGagaaacaaccatttttctca	13	10	6	12	0	2	2	1	2	2	1	3	3	2	2	3	1	3	1	3	1	4	3			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:144905446G>C	uc004fcd.2	+	5	2493	c.1503G>C	c.(1501-1503)CTG>CTC	p.L501L	SLITRK2_uc010nsp.2_Silent_p.L501L|SLITRK2_uc010nso.2_Silent_p.L501L|SLITRK2_uc011mwq.1_Silent_p.L501L|SLITRK2_uc011mwr.1_Silent_p.L501L|SLITRK2_uc011mws.1_Silent_p.L501L|SLITRK2_uc004fcg.2_Silent_p.L501L|SLITRK2_uc011mwt.1_Silent_p.L501L	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	501	Extracellular (Potential).|LRR 12.					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					GGCTGAATCTGAGAAACAACC	0.483													304	38					0	0	0.870114	0	0		C	144905446	C	C	144905446	2	2	142	1	0	0	0	0	0	0	0	1	14768	1277	45	5		5	SLITRK2	23	144905446	Silent	SNP	G	TCGA-CG-4469-01A-01D-1158-08	568231	144905446	10365114	349	76246											
AFF2	2334	broad.mit.edu	37	chrX	147967480	147967480	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accttgagcctgtgaagaccTtgaccactcagtgcactgcc	9	9	9	14	0	1	4	1	3	0	1	1	4	1	4	5	0	3	1	5	0	1	2			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:147967480T>G	uc004fcp.2	+	8	1803	c.1324T>G	c.(1324-1326)TTG>GTG	p.L442V	AFF2_uc004fco.2_Missense_Mutation_p.L403V|AFF2_uc004fcq.2_Missense_Mutation_p.L432V|AFF2_uc004fcr.2_Missense_Mutation_p.L403V|AFF2_uc011mxb.1_Missense_Mutation_p.L407V|AFF2_uc004fcs.2_Missense_Mutation_p.L409V|AFF2_uc011mxc.1_Missense_Mutation_p.L83V	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	442					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					TGTGAAGACCTTGACCACTCA	0.498													539	48					0	0	0.870114	0	0		G	147967480	G	G	147967480	3	3	142	1	0	0	0	0	1	0	0	0	357	1606	56	5	1409	5	AFF2	23	147967480	Missense_Mutation	SNP	T	TCGA-CG-4469-01A-01D-1158-08	3062034	147967480	7303080	350	76247											
ATP2B3	492	broad.mit.edu	37	chrX	152807854	152807854	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgagagctccctgacgggCgagtctgaccacgtgcgcaa	9	5	14	13	5	1	3	0	2	1	1	2	6	2	3	2	1	2	2	2	1	1	0			TCGA-CG-4469-01A-01D-1158-08	TCGA-CG-4469-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	11822391-a723-4451-8df4-3cd94460f359	536a7968-51fb-4f27-afc5-5710b7922bea	g.chrX:152807854C>T	uc004fht.1	+	4	864	c.738C>T	c.(736-738)GGC>GGT	p.G246G	ATP2B3_uc004fhs.1_Silent_p.G246G	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	246	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCCTGACGGGCGAGTCTGACC	0.647													106	14					0	0	0.870114	0	0		T	152807854	T	T	152807854	2	4	142	1	0	0	0	0	0	0	0	1	1142	755	27	1		1	ATP2B3	23	152807854	Silent	SNP	C	TCGA-CG-4469-01A-01D-1158-08	4840374	152807854	2462706	351	76248											
MTOR	2475	broad.mit.edu	37	chr1	11181417	11181417	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtcaagtggtcatagtcCggagccatctgcatcaggac	11	8	12	10	1	4	1	3	0	1	1	5	3	5	3	2	3	2	1	2	3	2	1	rs138151561	byFrequency	TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr1:11181417C>A	uc001asd.2	-	49	6940	c.6819G>T	c.(6817-6819)CCG>CCT	p.P2273P	MTOR_uc001asc.2_Silent_p.P478P	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	2273	PI3K/PI4K.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GGTCATAGTCCGGAGCCATCT	0.522													6	69					0.00198382	0.00217628	0.001984	1	0		A	11181417	A	A	11181417	2	1	143	1	0	0	0	0	0	0	0	1	9972	639	23	5		5	MTOR	1	11181417	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08		11181417	238069204	1	76249											
MUL1	79594	broad.mit.edu	37	chr1	20827537	20827537	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accttccagagcctgacgctCgactcctgcctctgcagcag	7	8	9	17	2	1	2	0	1	1	1	4	3	3	2	5	0	4	3	5	0	0	1	rs61753588		TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr1:20827537C>T	uc001bdi.3	-	4	862	c.705G>A	c.(703-705)TCG>TCA	p.S235S		NM_024544	NP_078820	Q969V5	MUL1_HUMAN	mitochondrial ubiquitin ligase activator of NFKB	235	Mitochondrial intermembrane (Potential).				activation of caspase activity|activation of JUN kinase activity|induction of apoptosis|mitochondrial fission|mitochondrion localization|negative regulation of cell growth|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to mitochondrial outer membrane|nucleus|peroxisome	identical protein binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00748)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000137)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)		GCCTGACGCTCGACTCCTGCC	0.582													14	43					0	0	0.006122	0	0		T	20827537	T	T	20827537	2	4	143	1	0	0	0	0	0	0	0	1	10002	871	31	1		1	MUL1	1	20827537	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08	9646120	20827537	228423084	2	76250											
DEM1	64789	broad.mit.edu	37	chr1	40981216	40981216	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgggccaccgagagccccagGgagttgacgtggaggaggct	8	5	18	10	2	0	2	0	1	0	1	0	6	0	5	4	5	1	2	4	5	0	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr1:40981216G>C	uc001cfp.2	+	3	1205	c.1000G>C	c.(1000-1002)GGA>CGA	p.G334R	DEM1_uc001cfq.2_Missense_Mutation_p.G334R|DEM1_uc001cfr.2_Missense_Mutation_p.G334R|DEM1_uc001cfs.2_Missense_Mutation_p.G334R	NM_022774	NP_073611	Q9H790	EXO5_HUMAN	defects in morphology 1 homolog	334							DNA binding|exonuclease activity				0						AGAGCCCCAGGGAGTTGACGT	0.562													4	62					0	0	0.009096	0	0		C	40981216	C	C	40981216	3	2	143	1	0	0	0	0	1	0	0	0	4431	1233	43	5	1002	5	DEM1	1	40981216	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	20153679	40981216	208269405	3	76251											
ZSWIM5	57643	broad.mit.edu	37	chr1	45501806	45501806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggagctgctcctcattaCggcataccttgtcctgtgcg	6	12	10	13	2	2	0	2	0	0	0	4	1	4	1	3	2	5	3	3	2	2	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr1:45501806C>T	uc001cnd.2	-	9	2288	c.2060G>A	c.(2059-2061)CGT>CAT	p.R687H		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	687							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					CTCCTCATTACGGCATACCTT	0.522													16	74					0	0	0.006122	0	0		T	45501806	T	T	45501806	3	4	143	1	0	0	0	0	1	0	0	0	18269	536	19	1	1521	1	ZSWIM5	1	45501806	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	4520590	45501806	203748815	4	76252											
C1orf190	541468	broad.mit.edu	37	chr1	46685674	46685674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacctggggctccacgttccGagatggactgggcaaaagtt	9	8	13	11	2	0	1	0	0	0	1	2	3	2	2	3	4	0	4	3	4	2	2	rs138211805	by1000genomes	TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr1:46685674G>A	uc010oma.1	+	2	595	c.502G>A	c.(502-504)GAG>AAG	p.E168K	POMGNT1_uc001cpg.2_5'UTR|POMGNT1_uc001cpf.2_5'UTR	NM_001013615	NP_001013633	Q96LR2	CA190_HUMAN	hypothetical protein LOC541468	168					positive regulation of cytokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm				ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(166;0.155)					TCCACGTTCCGAGATGGACTG	0.617													22	66					0	0	0.012319	0	0		A	46685674	A	A	46685674	3	1	143	1	0	0	0	0	1	0	0	0	2026	1059	37	1	508	1	C1orf190	1	46685674	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	1183868	46685674	202564947	5	76253											
BCL2L15	440603	broad.mit.edu	37	chr1	114429946	114429946	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctcaagaagtccatgagtaGagtgttcacaatgcattccg	12	10	10	9	1	2	3	2	1	0	2	4	3	4	3	2	0	1	4	2	0	4	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr1:114429946G>A	uc001edw.2	-	1	224	c.52C>T	c.(52-54)CTA>TTA	p.L18L	uc001edv.1_Intron|BCL2L15_uc001edx.2_Silent_p.L18L|BCL2L15_uc001edy.2_RNA|BCL2L15_uc001edz.1_RNA	NM_001010922	NP_001010922	Q5TBC7	B2L15_HUMAN	pro-apoptotic Bcl-2 protein	18					apoptosis					ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.95e-08)|all_epithelial(167;9.95e-08)|all_lung(203;1.31e-05)|Lung NSC(69;2.46e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCCATGAGTAGAGTGTTCACA	0.448													9	137					0	0	0.008291	0	0		A	114429946	A	A	114429946	2	1	143	1	0	0	0	0	0	0	0	1	1374	933	33	4		4	BCL2L15	1	114429946	Silent	SNP	G	TCGA-CG-4474-01A-02D-1158-08	67744272	114429946	134820675	6	76254											
FLG	2312	broad.mit.edu	37	chr1	152286817	152286817	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtcttgtttttctcttttTtacttgagttatgatggttt	5	24	7	5	0	2	2	0	2	2	0	3	2	2	2	0	1	1	3	0	1	2	9			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr1:152286817T>G	uc001ezu.1	-	3	581	c.545A>C	c.(544-546)AAA>ACA	p.K182T	uc001ezv.2_Intron	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	182					keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTTCTCTTTTTTACTTGAGTT	0.323									Ichthyosis				37	114					0	0	0.015359	0	0		G	152286817	G	G	152286817	3	3	143	1	0	0	0	0	1	0	0	0	5936	1841	64	5	11644	5	FLG	1	152286817	Missense_Mutation	SNP	T	TCGA-CG-4474-01A-02D-1158-08	37856871	152286817	96963804	7	76255											
PVRL4	81607	broad.mit.edu	37	chr1	161043088	161043088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagccctacactctcctccGgctgcagggcccagacacgg	7	6	10	18	2	2	1	1	0	1	1	4	1	3	1	4	3	3	2	4	3	1	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr1:161043088G>A	uc001fxo.2	-	8	1534	c.1235C>T	c.(1234-1236)CCG>CTG	p.P412L	PVRL4_uc010pjy.1_Intron|PVRL4_uc010pjz.1_Intron	NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	412	Cytoplasmic (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			ACTCTCCTCCGGCTGCAGGGC	0.647													7	26					0	0	0.00308	0	0		A	161043088	A	A	161043088	3	1	143	1	0	0	0	0	1	0	0	0	12867	1130	39	1	305	1	PVRL4	1	161043088	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	8756271	161043088	88207533	8	76256											
ACTN2	88	broad.mit.edu	37	chr1	236850010	236850010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcgtgcagtacaactacGtgtacgacgaggatgagtac	11	7	13	10	5	0	1	0	1	0	0	0	4	0	2	1	2	6	4	1	2	5	4			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr1:236850010G>A	uc001hyf.2	+	1	241	c.37G>A	c.(37-39)GTG>ATG	p.V13M	ACTN2_uc001hyg.2_Translation_Start_Site|ACTN2_uc009xgi.1_Missense_Mutation_p.V13M	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	13	Actin-binding.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GTACAACTACGTGTACGACGA	0.642													12	27					0	0	0.016723	0	0		A	236850010	A	A	236850010	3	1	143	1	0	0	0	0	1	0	0	0	205	1145	40	1	39	1	ACTN2	1	236850010	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	75806922	236850010	12400611	9	76257											
GALM	130589	broad.mit.edu	37	chr2	38908455	38908455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgggtgctgtcaaatggcGtccagttctcgcgcatcagt	6	11	12	12	4	3	0	2	0	1	0	6	0	4	0	1	2	1	3	1	2	1	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr2:38908455G>A	uc002rqy.2	+	3	631	c.379G>A	c.(379-381)GTC>ATC	p.V127I		NM_138801	NP_620156	Q96C23	GALM_HUMAN	galactose mutarotase	127					hexose metabolic process	cytoplasm	aldose 1-epimerase activity|carbohydrate binding				0		all_hematologic(82;0.248)				GTCAAATGGCGTCCAGTTCTC	0.488													54	181					0	0	0.01441	0	0		A	38908455	A	A	38908455	3	1	143	1	0	0	0	0	1	0	0	0	6220	1145	40	1	389	1	GALM	2	38908455	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08		38908455	204290918	10	76258											
C2orf55	343990	broad.mit.edu	37	chr2	99449454	99449454	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggctgcccagcgtgcccctCgactccctaggataaaagag	9	6	11	15	3	0	1	0	0	0	1	2	3	1	2	4	2	3	1	4	2	3	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr2:99449454C>T	uc002szf.1	-	4	540	c.246G>A	c.(244-246)TCG>TCA	p.S82S		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	82											0						GCGTGCCCCTCGACTCCCTAG	0.562													26	147					0	0	0.005443	0	0		T	99449454	T	T	99449454	2	4	143	1	0	0	0	0	0	0	0	1	2179	871	31	1		1	C2orf55	2	99449454	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08	60540999	99449454	143749919	11	76259											
CCDC138	165055	broad.mit.edu	37	chr2	109463198	109463198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacatatttttaacagcactCgactatgacatcaacattga	15	13	4	9	1	1	2	1	2	0	0	2	3	1	2	0	0	4	1	0	0	5	7			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr2:109463198C>T	uc002ten.1	+	12	1388	c.1328C>T	c.(1327-1329)TCG>TTG	p.S443L	CCDC138_uc002teo.1_Missense_Mutation_p.S443L|CCDC138_uc002tep.1_Missense_Mutation_p.S127L|CCDC138_uc010fjm.1_Missense_Mutation_p.S127L	NM_144978	NP_659415	Q96M89	CC138_HUMAN	coiled-coil domain containing 138	443											0						TAACAGCACTCGACTATGACA	0.259													22	94					0	0	0.021523	0	0		T	109463198	T	T	109463198	3	4	143	1	0	0	0	0	1	0	0	0	2775	893	31	1	1374	1	CCDC138	2	109463198	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	10013744	109463198	133736175	12	76260											
TTN	7273	broad.mit.edu	37	chr2	179604668	179604668	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctgggctcttgggtgatgTttacagcctcgacctccacc	5	12	11	13	1	2	1	0	1	2	0	4	2	3	1	4	2	2	2	4	2	1	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr2:179604668T>G	uc010zfh.1	-	46	13003	c.12779A>C	c.(12778-12780)AAC>ACC	p.N4260T	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.N4193T|TTN_uc010zfj.1_Missense_Mutation_p.N4068T|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGGGTGATGTTTACAGCCTC	0.473													34	121					0	0	0.012213	0	0		G	179604668	G	G	179604668	3	3	143	1	0	0	0	0	1	0	0	0	16761	1725	60	5	91497	5	TTN	2	179604668	Missense_Mutation	SNP	T	TCGA-CG-4474-01A-02D-1158-08	70141470	179604668	63594705	13	76261											
MPP4	58538	broad.mit.edu	37	chr2	202558645	202558645	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttcatgtccttcttgtcTggtggatctgctcctttgtc	3	18	9	11	0	4	0	1	0	3	0	7	1	6	1	2	2	2	2	2	2	0	4			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr2:202558645T>G	uc002uyk.3	-	2	241	c.33A>C	c.(31-33)CCA>CCC	p.P11P	MPP4_uc010ftj.2_Silent_p.P11P|MPP4_uc010zhq.1_Silent_p.P11P|MPP4_uc010zhr.1_Silent_p.P11P|MPP4_uc010zhs.1_Silent_p.P11P|MPP4_uc002uyj.3_Silent_p.P11P|MPP4_uc010zht.1_Silent_p.P11P|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Silent_p.P11P|MPP4_uc002uym.1_Silent_p.P24P|MPP4_uc002uyn.2_Silent_p.P11P	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	11						cytoplasm	protein binding				0						CCTTCTTGTCTGGTGGATCTG	0.483													32	414					0	0	0.012213	0	0		G	202558645	G	G	202558645	2	3	143	1	0	0	0	0	0	0	0	1	9754	1567	55	5		5	MPP4	2	202558645	Silent	SNP	T	TCGA-CG-4474-01A-02D-1158-08	22953977	202558645	40640728	14	76262											
ADAM23	8745	broad.mit.edu	37	chr2	207424813	207424813	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaataccggcagcgcattaaGcagcatgctgatgctgtgca	12	8	11	10	2	0	1	0	1	0	0	0	1	0	1	1	1	7	7	1	1	3	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr2:207424813G>T	uc002vbq.2	+	11	1363	c.1140G>T	c.(1138-1140)AAG>AAT	p.K380N	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	380	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		AGCGCATTAAGCAGCATGCTG	0.468													21	60					1.50039e-11	1.76446e-11	0.012319	1	0		T	207424813	T	T	207424813	3	4	143	1	0	0	0	0	1	0	0	0	245	962	34	5	1182	5	ADAM23	2	207424813	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	4866168	207424813	35774560	15	76263											
MSL3L2	151507	broad.mit.edu	37	chr2	234775774	234775774	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttcctccgattaatgtagTaacaatcatcctccagctgc	10	13	6	12	1	1	0	1	0	0	0	5	1	5	0	4	0	3	4	4	0	4	4			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr2:234775774T>C	uc010znf.1	-	2	306	c.68A>G	c.(67-69)TAC>TGC	p.Y23C		NR_024322				SubName: Full=cDNA FLJ52683, highly similar to Male-specific lethal 3-like 1; SubName: Full=cDNA, FLJ79271, highly similar to Male-specific lethal 3-like 1; SubName: Full=HCG1642047;												0						ATTAATGTAGTAACAATCATC	0.418													8	42					0	0	0.004482	0	0		C	234775774	C	C	234775774	3	2	143	1	0	0	0	0	1	0	0	0	9898	1638	57	3	1006	3	MSL3L2	2	234775774	Missense_Mutation	SNP	T	TCGA-CG-4474-01A-02D-1158-08	27350961	234775774	8423599	16	76264											
ANO7	50636	broad.mit.edu	37	chr2	242141701	242141701	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagggtgtcctcagtgcCgccttccccctgcatgacgt	5	9	12	15	2	1	2	1	1	0	1	3	2	3	2	5	1	2	2	5	1	0	1	rs151257402		TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr2:242141701C>T	uc002wax.2	+	8	970	c.867C>T	c.(865-867)GCC>GCT	p.A289A		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	289	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						TCCTCAGTGCCGCCTTCCCCC	0.647													12	47					0	0	0.013537	0	0		T	242141701	T	T	242141701	2	4	143	1	0	0	0	0	0	0	0	1	702	639	23	1		1	ANO7	2	242141701	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08	7365927	242141701	1057672	17	76265											
CPNE9	151835	broad.mit.edu	37	chr3	9757165	9757165	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcctccccttaggttcttaaCcctcggaagaaatgtaagaa	12	11	7	11	1	1	2	0	0	1	2	4	3	3	3	4	2	1	2	4	2	6	4			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr3:9757165C>A	uc003bsd.2	+	12	948	c.777C>A	c.(775-777)AAC>AAA	p.N259K		NM_153635	NP_705899	Q8IYJ1	CPNE9_HUMAN	copine-like protein	259										ovary(2)	2	Medulloblastoma(99;0.227)					AGGTTCTTAACCCTCGGAAGA	0.517													9	84					4.68919e-08	5.42764e-08	0.008291	1	0		A	9757165	A	A	9757165	3	1	143	1	0	0	0	0	1	0	0	0	3822	506	18	5	823	5	CPNE9	3	9757165	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08		9757165	188265265	18	76266											
SEC13	6396	broad.mit.edu	37	chr3	10354288	10354288	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcgtgtcccgcatgctcGtggctcttctcccaggtgcc	3	11	12	15	3	2	0	0	0	2	0	6	1	3	0	3	2	2	3	3	2	0	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr3:10354288G>A	uc003bvn.2	-	4	410	c.291C>T	c.(289-291)CAC>CAT	p.H97H	SEC13_uc003bvl.2_Silent_p.H29H|SEC13_uc003bvm.2_Silent_p.H83H|SEC13_uc003bvp.2_Silent_p.H100H|SEC13_uc003bvo.2_Silent_p.H143H|SEC13_uc003bvq.1_Silent_p.H83H|SEC13_uc003bvr.1_Silent_p.H83H|SEC13_uc011aul.1_Silent_p.H97H	NM_183352	NP_899195	P55735	SEC13_HUMAN	SEC13 protein isoform 1	97					COPII vesicle coating|intracellular protein transport|mitotic prometaphase|mRNA transport|post-translational protein modification|protein N-linked glycosylation via asparagine|transmembrane transport	cytosol|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Nup107-160 complex	protein binding			ovary(1)	1						CCGCATGCTCGTGGCTCTTCT	0.592													40	99					0	0	0.009718	0	0		A	10354288	A	A	10354288	2	1	143	1	0	0	0	0	0	0	0	1	14005	1136	40	1		1	SEC13	3	10354288	Silent	SNP	G	TCGA-CG-4474-01A-02D-1158-08	597123	10354288	187668142	19	76267											
GALNTL2	117248	broad.mit.edu	37	chr3	16217180	16217180	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctccagagggctctgccCgaggtgcggcacccactgta	6	6	12	17	2	1	1	0	0	1	1	2	2	2	1	5	3	2	3	5	3	1	1	rs142412711	by1000genomes	TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr3:16217180C>T	uc003car.3	+	1	997	c.522C>T	c.(520-522)CCC>CCT	p.P174P	GALNTL2_uc003caq.3_Intron	NM_054110	NP_473451	Q8N3T1	GLTL2_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	174	Lumenal (Potential).					Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1						GGGCTCTGCCCGAGGTGCGGC	0.607													8	33					0	0	0.00308	0	0		T	16217180	T	T	16217180	2	4	143	1	0	0	0	0	0	0	0	1	6237	639	23	1		1	GALNTL2	3	16217180	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08	5862892	16217180	181805250	20	76268											
OXSR1	9943	broad.mit.edu	37	chr3	38278355	38278355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagagtaccaggttccagtgGgcgtcttcataagacagagg	11	8	14	8	1	2	3	1	0	1	3	3	4	3	3	2	3	1	2	2	3	2	4			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr3:38278355G>A	uc003chy.2	+	11	1319	c.977G>A	c.(976-978)GGG>GAG	p.G326E	OXSR1_uc010hhb.2_Missense_Mutation_p.G260E	NM_005109	NP_005100	O95747	OXSR1_HUMAN	oxidative-stress responsive 1	326					intracellular protein kinase cascade|response to oxidative stress		ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		GGTTCCAGTGGGCGTCTTCAT	0.438													7	160					0	0	0.004482	0	0		A	38278355	A	A	38278355	3	1	143	1	0	0	0	0	1	0	0	0	11355	1232	43	4	1019	4	OXSR1	3	38278355	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	22061175	38278355	159744075	21	76269											
NLGN1	22871	broad.mit.edu	37	chr3	173525589	173525589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagttatggcaatgtgatcGtcatcacagtcaactatcga	13	11	8	9	2	3	1	3	1	0	0	5	2	3	1	0	1	1	2	0	1	5	2	rs142026432		TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr3:173525589G>A	uc003fio.1	+	4	1036	c.613G>A	c.(613-615)GTC>ATC	p.V205I	NLGN1_uc010hww.1_Missense_Mutation_p.V245I|NLGN1_uc003fip.1_Missense_Mutation_p.V205I	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	222	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity	p.V205L(1)		lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			CAATGTGATCGTCATCACAGT	0.378													28	63					0	0	0.00632	0	0		A	173525589	A	A	173525589	3	1	143	1	0	0	0	0	1	0	0	0	10480	1145	40	1	619	1	NLGN1	3	173525589	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	135247234	173525589	24496841	22	76270											
PIK3CA	5290	broad.mit.edu	37	chr3	178936082	178936082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctacacgagatcctctctctGaaatcactgagcaggagaaa	14	8	8	11	1	3	4	1	2	2	2	5	6	4	4	1	1	2	1	1	1	3	1	rs121913273		TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr3:178936082G>A	uc003fjk.2	+	10	1781	c.1624G>A	c.(1624-1626)GAA>AAA	p.E542K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	542	PI3K helical.		E -> V (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation).|E -> Q (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E542K(481)|p.E542V(8)|p.E542Q(6)|p.E542G(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCCTCTCTCTGAAATCACTGA	0.333	E542K(SW948_LARGE_INTESTINE)|E542K(T84_LARGE_INTESTINE)|E542K(CAL51_BREAST)|E542K(JHUEM1_ENDOMETRIUM)|E542K(NCIH1341_LUNG)|E542K(VMCUB1_URINARY_TRACT)|E542K(BT483_BREAST)|E542K(HGC27_STOMACH)|E542K(IM95_STOMACH)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			14	42					0	0	0.020292	0	0		A	178936082	A	A	178936082	3	1	143	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1658	4	PIK3CA	3	178936082	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	5410493	178936082	19086348	23	76271											
EVC2	132884	broad.mit.edu	37	chr4	5564606	5564606	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaggccctcatggcctttTtggcattcaaaaagttcttc	9	13	7	12	0	3	0	2	0	1	0	4	0	3	0	3	3	0	2	3	3	3	5			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr4:5564606T>A	uc003gij.2	-	22	3950	c.3896A>T	c.(3895-3897)AAA>ATA	p.K1299I	EVC2_uc011bwb.1_Missense_Mutation_p.K739I|EVC2_uc003gik.2_Missense_Mutation_p.K1219I	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1299						integral to membrane				large_intestine(3)|ovary(2)	5						CATGGCCTTTTTGGCATTCAA	0.488													40	154					0	0	0.009718	0	0		A	5564606	A	A	5564606	3	1	143	1	0	0	0	0	1	0	0	0	5294	1841	64	5	34	5	EVC2	4	5564606	Missense_Mutation	SNP	T	TCGA-CG-4474-01A-02D-1158-08		5564606	185589670	24	76272											
BOD1L	259282	broad.mit.edu	37	chr4	13602962	13602962	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcgcctgtgctagtcacAatgccttcatcatcacaagg	9	12	8	12	1	4	0	4	0	0	0	4	0	4	0	2	1	3	1	2	1	3	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr4:13602962A>G	uc003gmz.1	-	10	5679	c.5562T>C	c.(5560-5562)ATT>ATC	p.I1854I	BOD1L_uc010idr.1_Silent_p.I1191I	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1854							DNA binding			ovary(5)|breast(1)	6						TGCTAGTCACAATGCCTTCAT	0.468													6	127					0	0	0.00308	0	0		G	13602962	G	G	13602962	2	3	143	1	0	0	0	0	0	0	0	1	1484	126	5	3		3	BOD1L	4	13602962	Silent	SNP	A	TCGA-CG-4474-01A-02D-1158-08	8038356	13602962	177551314	25	76273											
SLIT2	9353	broad.mit.edu	37	chr4	20525430	20525430	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcgggtagatgcttttcAggatctccacaacttgaacc	9	12	8	12	1	2	2	1	1	1	1	4	3	2	3	3	2	3	2	3	2	3	5			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr4:20525430A>G	uc003gpr.1	+	13	1382	c.1178A>G	c.(1177-1179)CAG>CGG	p.Q393R	SLIT2_uc003gps.1_Missense_Mutation_p.Q393R	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	393	LRR 10.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GATGCTTTTCAGGATCTCCAC	0.398													3	145					0	0	0.004672	0	0		G	20525430	G	G	20525430	3	3	143	1	0	0	0	0	1	0	0	0	14765	188	7	3	1228	3	SLIT2	4	20525430	Missense_Mutation	SNP	A	TCGA-CG-4474-01A-02D-1158-08	6922468	20525430	170628846	26	76274											
ADAMTS3	9508	broad.mit.edu	37	chr4	73175207	73175207	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacttatcctcaaccttatTagaaccaatttctttatcac	13	15	1	12	0	3	1	2	0	1	1	4	1	4	1	3	0	2	0	3	0	7	6			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr4:73175207T>A	uc003hgk.1	-	15	2123	c.2086A>T	c.(2086-2088)AAT>TAT	p.N696Y	ADAMTS3_uc003hgl.2_Missense_Mutation_p.N37Y	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	696	Cys-rich.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCAACCTTATTAGAACCAATT	0.448													35	88					0	0	0.019004	0	0		A	73175207	A	A	73175207	3	1	143	1	0	0	0	0	1	0	0	0	267	1754	61	5	1563	5	ADAMTS3	4	73175207	Missense_Mutation	SNP	T	TCGA-CG-4474-01A-02D-1158-08	52649777	73175207	117979069	27	76275											
FGA	2243	broad.mit.edu	37	chr4	155507659	155507659	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagagctcccagggtttcGgtttccagtacttccaggtc	6	11	10	14	1	0	1	0	0	0	1	5	1	3	1	4	3	2	4	4	3	1	4			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr4:155507659G>A	uc003iod.1	-	5	980	c.922C>T	c.(922-924)CGA>TGA	p.R308*	FGA_uc003ioe.1_Nonsense_Mutation_p.R308*|FGA_uc003iof.1_Intron	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	308	By similarity.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	CCAGGGTTTCGGTTTCCAGTA	0.577													49	174					0	0	0.01441	0	0		A	155507659	A	A	155507659	4	1	143	1	0	0	0	0	0	1	0	0	5844	1124	39	1	1730	1	FGA	4	155507659	Nonsense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	82332452	155507659	35646617	28	76276											
MAST4	375449	broad.mit.edu	37	chr5	66430465	66430465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaatttctggttggatgcGtgccattctttggggatact	7	16	12	6	1	2	1	0	1	2	0	2	3	2	3	1	4	3	1	1	4	2	5			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr5:66430465G>A	uc003jut.1	+	17	1842	c.1774G>A	c.(1774-1776)GTG>ATG	p.V592M	MAST4_uc003juu.1_Missense_Mutation_p.V602M|MAST4_uc011cra.1_Missense_Mutation_p.V575M|MAST4_uc003juv.2_Missense_Mutation_p.V587M|MAST4_uc003juw.2_Missense_Mutation_p.V587M	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	784	Protein kinase.					cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		GGTTGGATGCGTGCCATTCTT	0.463													41	166					0	0	0.010771	0	0		A	66430465	A	A	66430465	3	1	143	1	0	0	0	0	1	0	0	0	9345	1145	40	1	2541	1	MAST4	5	66430465	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08		66430465	114484795	29	76277											
GPR98	84059	broad.mit.edu	37	chr5	89923174	89923174	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtatttatttggttccTgaggaagaccacatactcat	12	13	8	8	0	1	3	1	1	0	2	2	4	2	4	2	2	1	2	2	2	4	6			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr5:89923174T>C	uc003kju.2	+	7	915	c.819T>C	c.(817-819)CCT>CCC	p.P273P	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	273	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		ATTTGGTTCCTGAGGAAGACC	0.383													15	161					0	0	0.007413	0	0		C	89923174	C	C	89923174	2	2	143	1	0	0	0	0	0	0	0	1	6737	1567	55	3		3	GPR98	5	89923174	Silent	SNP	T	TCGA-CG-4474-01A-02D-1158-08	23492709	89923174	90992086	30	76278											
RIOK2	55781	broad.mit.edu	37	chr5	96503524	96503524	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcactttcattttctgacccGtaaacctctgctttttctgc	6	18	4	13	1	5	1	2	1	3	0	5	1	5	1	2	0	3	2	2	0	2	6			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr5:96503524G>A	uc003kmz.2	-	8	1154	c.1044C>T	c.(1042-1044)TAC>TAT	p.Y348Y	RIOK2_uc003kna.3_Silent_p.Y348Y	NM_018343	NP_060813	Q9BVS4	RIOK2_HUMAN	RIO kinase 2 isoform 1	348	Protein kinase.						ATP binding|protein serine/threonine kinase activity			kidney(1)	1		all_cancers(142;0.000125)|all_epithelial(76;8.48e-07)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0676)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0657)		TTTCTGACCCGTAAACCTCTG	0.393													67	375					0	0	0.01441	0	0		A	96503524	A	A	96503524	2	1	143	1	0	0	0	0	0	0	0	1	13403	1140	40	1		1	RIOK2	5	96503524	Silent	SNP	G	TCGA-CG-4474-01A-02D-1158-08	6580350	96503524	84411736	31	76279											
RAB24	53917	broad.mit.edu	37	chr5	176730061	176730061	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgacatcaccttggccacGaaggcggccccgatggtctg	8	6	12	15	4	2	0	1	0	1	0	2	3	2	0	5	4	0	0	5	4	1	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr5:176730061G>A	uc003mfv.2	-	3	504	c.135C>T	c.(133-135)TTC>TTT	p.F45F	RAB24_uc003mfu.2_Silent_p.F16F|RAB24_uc003mfw.2_Silent_p.F45F|PRELID1_uc003mfx.2_5'Flank|PRELID1_uc003mfy.2_5'Flank	NM_130781	NP_570137	Q969Q5	RAB24_HUMAN	RAB24 gene product	45	Effector region (By similarity).				autophagy|protein transport|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|protein binding				0	all_cancers(89;2.49e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCTTGGCCACGAAGGCGGCCC	0.627													6	47					0	0	0.021553	0	0		A	176730061	A	A	176730061	2	1	143	1	0	0	0	0	0	0	0	1	12936	1049	37	1		1	RAB24	5	176730061	Silent	SNP	G	TCGA-CG-4474-01A-02D-1158-08	80226537	176730061	4185199	32	76280											
FLT4	2324	broad.mit.edu	37	chr5	180038423	180038423	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggtggacacctgcgagaaGctgccctcttctgagctctg	7	10	12	12	1	3	2	0	1	3	1	3	4	3	3	2	2	4	2	2	2	1	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr5:180038423G>C	uc003mma.3	-	27	3673	c.3594C>G	c.(3592-3594)AGC>AGG	p.S1198R	FLT4_uc003mlz.3_Missense_Mutation_p.S1198R	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	1198	Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	CCTGCGAGAAGCTGCCCTCTT	0.667									Congenital_Hereditary_Lymphedema				38	97					0	0	0.00623	0	0		C	180038423	C	C	180038423	3	2	143	1	0	0	0	0	1	0	0	0	5958	962	34	5	521	5	FLT4	5	180038423	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	3308362	180038423	876837	33	76281											
HIVEP1	3096	broad.mit.edu	37	chr6	12123037	12123037	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagcacagccctgtgccCggcggtctgcagcctcagat	6	7	12	16	2	2	2	1	1	1	1	2	2	2	2	4	2	5	2	4	2	0	0			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr6:12123037C>T	uc003nac.2	+	4	3188	c.3009C>T	c.(3007-3009)CCC>CCT	p.P1003P	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1003					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				GCCCTGTGCCCGGCGGTCTGC	0.463													35	164					0	0	0.019004	0	0		T	12123037	T	T	12123037	2	4	143	1	0	0	0	0	0	0	0	1	7202	639	23	1		1	HIVEP1	6	12123037	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08		12123037	158992030	34	76282											
BAT2	7916	broad.mit.edu	37	chr6	31600597	31600597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagccaaggatttgagtaaaCggagcttctcaagtcagcgg	12	8	13	8	2	2	1	2	1	1	0	3	4	2	3	1	3	4	2	1	3	4	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr6:31600597C>T	uc003nvb.3	+	16	4396	c.4147C>T	c.(4147-4149)CGG>TGG	p.R1383W	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.R1383W	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1383	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						TTTGAGTAAACGGAGCTTCTC	0.637													35	175					0	0	0.007835	0	0		T	31600597	T	T	31600597	3	4	143	1	0	0	0	0	1	0	0	0	1320	527	19	1	4205	1	BAT2	6	31600597	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	19477560	31600597	139514470	35	76283											
RWDD2A	112611	broad.mit.edu	37	chr6	83905791	83905791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtaagcatgctgaaagcGtggagacagaaggaaatggt	14	7	14	6	1	0	3	0	1	0	2	0	5	0	4	1	3	3	3	1	3	4	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr6:83905791G>A	uc003pjx.3	+	3	950	c.679G>A	c.(679-681)GTG>ATG	p.V227M	PGM3_uc003pjv.2_5'Flank|PGM3_uc003pjw.2_5'Flank|PGM3_uc011dyz.1_5'Flank|RWDD2A_uc011dza.1_Missense_Mutation_p.V152M	NM_033411	NP_219479	Q9UIY3	RWD2A_HUMAN	RWD domain containing 2A	227											0		all_cancers(76;2.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00217)		BRCA - Breast invasive adenocarcinoma(397;0.045)		TGCTGAAAGCGTGGAGACAGA	0.448													30	109					0	0	0.009535	0	0		A	83905791	A	A	83905791	3	1	143	1	0	0	0	0	1	0	0	0	13780	1145	40	1	685	1	RWDD2A	6	83905791	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	52305194	83905791	87209276	36	76284											
TBX18	9096	broad.mit.edu	37	chr6	85446536	85446536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcaacatctgccgatccGtcatggtcccactcggtgag	7	8	13	13	3	2	1	1	1	1	0	5	2	4	1	3	4	2	1	3	4	1	0			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr6:85446536G>A	uc003pkl.1	-	8	1691	c.1691C>T	c.(1690-1692)ACG>ATG	p.T564M	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	564					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		CTGCCGATCCGTCATGGTCCC	0.527													17	72					0	0	0.007413	0	0		A	85446536	A	A	85446536	3	1	143	1	0	0	0	0	1	0	0	0	15678	1145	40	1	136	1	TBX18	6	85446536	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	1540745	85446536	85668531	37	76285											
CENPW	387103	broad.mit.edu	37	chr6	126661513	126661513	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttcaagcgaaagaagcctCaacttcgtctggagaaaagt	14	9	9	9	2	4	2	2	0	2	2	5	4	4	2	1	1	3	0	1	1	6	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr6:126661513C>T	uc003qao.2	+	1	261	c.94C>T	c.(94-96)CAA>TAA	p.Q32*	CENPW_uc003qap.3_RNA	NM_001012507	NP_001012525	Q5EE01	CENPW_HUMAN	hypothetical protein LOC387103	32						chromosome, centromeric region|nucleus	DNA binding				0						AAAGAAGCCTCAACTTCGTCT	0.527													16	60					0	0	0.00499	0	0		T	126661513	T	T	126661513	4	4	143	1	0	0	0	0	0	1	0	0	3247	827	29	4	96	4	CENPW	6	126661513	Nonsense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	41214977	126661513	44453554	38	76286											
ACTB	60	broad.mit.edu	37	chr7	5568970	5568970	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acttcagggtgaggatgcctCtcttgctctgggcctcgtcg	4	12	13	12	2	3	1	1	1	2	0	6	2	3	2	2	3	2	1	2	3	0	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr7:5568970C>G	uc003sos.3	-	2	221	c.185G>C	c.(184-186)AGA>ACA	p.R62T	ACTB_uc003sor.3_5'UTR|ACTB_uc003sot.3_Missense_Mutation_p.R62T|ACTB_uc003soq.3_5'UTR|ACTB_uc010ksy.2_Intron	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	62					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		GAGGATGCCTCTCTTGCTCTG	0.582													28	129					0	0	0.010818	0	0		G	5568970	G	G	5568970	3	3	143	1	0	0	0	0	1	0	0	0	193	913	32	5	958	5	ACTB	7	5568970	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08		5568970	153569693	39	76287											
SP4	6671	broad.mit.edu	37	chr7	21550866	21550866	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaactcccaatgtttcAaccaacatggaagaattctg	14	9	6	12	0	2	1	1	0	1	1	3	2	3	2	3	1	4	2	3	1	6	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr7:21550866A>G	uc003sva.2	+	6	2515	c.2334A>G	c.(2332-2334)TCA>TCG	p.S778S	SP4_uc003svb.2_Silent_p.S465S	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	778					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						CCAATGTTTCAACCAACATGG	0.428													3	87					0	0	0.004672	0	0		G	21550866	G	G	21550866	2	3	143	1	0	0	0	0	0	0	0	1	14991	117	5	3		3	SP4	7	21550866	Silent	SNP	A	TCGA-CG-4474-01A-02D-1158-08	15981896	21550866	137587797	40	76288											
HGF	3082	broad.mit.edu	37	chr7	81381520	81381520	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtcccccttcttcccctcGaggatttcgacagtagtttt	5	14	9	13	2	1	0	0	0	1	0	5	3	3	1	4	2	0	2	4	2	1	6			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr7:81381520G>A	uc003uhl.2	-	5	706	c.541C>T	c.(541-543)CGA>TGA	p.R181*	HGF_uc003uhm.2_Nonsense_Mutation_p.R176*|HGF_uc003uhn.1_Nonsense_Mutation_p.R181*|HGF_uc003uho.1_Nonsense_Mutation_p.R176*|HGF_uc003uhp.2_Nonsense_Mutation_p.R181*	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	181	Kringle 1.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						TCTTCCCCTCGAGGATTTCGA	0.428													14	95					0	0	0.003163	0	0		A	81381520	A	A	81381520	4	1	143	1	0	0	0	0	0	1	0	0	7101	1066	37	1	1721	1	HGF	7	81381520	Nonsense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	59830654	81381520	77757143	41	76289											
KIAA1324L	222223	broad.mit.edu	37	chr7	86526893	86526893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacagagggcaagcttcagCactctcccacaggaaataga	15	5	9	12	0	2	2	1	0	1	2	3	3	2	3	1	2	2	3	1	2	3	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr7:86526893C>T	uc011kha.1	-	19	2799	c.2614G>A	c.(2614-2616)GCT>ACT	p.A872T	KIAA1324L_uc003uif.1_Missense_Mutation_p.A632T|KIAA1324L_uc011kgz.1_Missense_Mutation_p.A758T|KIAA1324L_uc003uie.2_Missense_Mutation_p.A705T	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	872	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					CAAGCTTCAGCACTCTCCCAC	0.463													13	104					0	0	0.013537	0	0		T	86526893	T	T	86526893	3	4	143	1	0	0	0	0	1	0	0	0	8240	710	25	2	491	2	KIAA1324L	7	86526893	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	5145373	86526893	72611770	42	76290											
C7orf63	79846	broad.mit.edu	37	chr7	89939392	89939392	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctttttaggtgccctctgGtggagtagtaacagtggaaa	9	12	13	7	0	1	0	0	0	1	0	1	2	1	2	2	4	2	2	2	4	4	5			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr7:89939392G>T	uc010lep.2	+	23	2917	c.2666G>T	c.(2665-2667)GGT>GTT	p.G889V	C7orf63_uc011khj.1_Missense_Mutation_p.G871V|C7orf63_uc011khk.1_Missense_Mutation_p.G405V	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	889							binding			ovary(1)	1						GTGCCCTCTGGTGGAGTAGTA	0.413													8	163					0.000978159	0.00109763	0.010729	1	0		T	89939392	T	T	89939392	3	4	143	1	0	0	0	0	1	0	0	0	2412	1261	44	5	2756	5	C7orf63	7	89939392	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	3412499	89939392	69199271	43	76291											
OR9A4	130075	broad.mit.edu	37	chr7	141618798	141618798	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggtgacattaatgggaaaCacagtcatcatcatgattgt	13	13	9	6	0	3	2	3	2	0	0	3	3	3	3	0	2	1	0	0	2	2	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr7:141618798C>A	uc003vwu.1	+	1	123	c.123C>A	c.(121-123)AAC>AAA	p.N41K		NM_001001656	NP_001001656	Q8NGU2	OR9A4_HUMAN	olfactory receptor, family 9, subfamily A,	41	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.0171)					TAATGGGAAACACAGTCATCA	0.443													13	331					0.00136819	0.00151221	0.013537	1	0		A	141618798	A	A	141618798	3	1	143	1	0	0	0	0	1	0	0	0	11268	477	17	5	125	5	OR9A4	7	141618798	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	51679406	141618798	17519865	44	76292											
TRPV6	55503	broad.mit.edu	37	chr7	142573294	142573294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcctgggcttgagggggCggtagatgcagcacatggtg	6	9	19	7	1	0	2	0	1	0	1	1	2	1	2	1	6	2	4	1	6	1	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr7:142573294C>T	uc003wbx.1	-	8	1265	c.1049G>A	c.(1048-1050)CGC>CAC	p.R350H	TRPV6_uc003wbw.1_Missense_Mutation_p.R136H|TRPV6_uc010lou.1_Missense_Mutation_p.R221H	NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	350	Extracellular (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					CTTGAGGGGGCGGTAGATGCA	0.572													15	161					0	0	0.00499	0	0		T	142573294	T	T	142573294	3	4	143	1	0	0	0	0	1	0	0	0	16626	768	27	1	1160	1	TRPV6	7	142573294	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	954496	142573294	16565369	45	76293											
FASTK	10922	broad.mit.edu	37	chr7	150775728	150775728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggctcccgcaaccggtgcCgggccaggtgctgggccagg	4	4	19	14	3	0	0	0	0	0	0	1	0	1	0	5	7	3	3	5	7	1	0			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr7:150775728C>T	uc003wix.1	-	4	844	c.746G>A	c.(745-747)CGG>CAG	p.R249Q	uc011kvf.1_5'Flank|FASTK_uc003wiw.1_Missense_Mutation_p.R10Q|FASTK_uc003wiy.1_Missense_Mutation_p.R108Q|FASTK_uc003wiz.1_Missense_Mutation_p.R222Q|FASTK_uc003wja.1_Intron	NM_006712	NP_006703	Q14296	FASTK_HUMAN	Fas-activated serine/threonine kinase isoform 1	249					apoptosis|induction of apoptosis by extracellular signals|regulation of RNA splicing		ATP binding|Fas-activated serine/threonine kinase activity|protein binding			lung(2)|stomach(2)	4			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)|LUSC - Lung squamous cell carcinoma(290;0.0718)|Lung(243;0.138)		CAACCGGTGCCGGGCCAGGTG	0.652													3	43					0	0	0.014758	0	0		T	150775728	T	T	150775728	3	4	143	1	0	0	0	0	1	0	0	0	5698	652	23	1	931	1	FASTK	7	150775728	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	8202434	150775728	8362935	46	76294											
MCPH1	79648	broad.mit.edu	37	chr8	6500543	6500543	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acccagcacaaggtctgtgcCcctgaaaactacctattgtc	11	9	7	14	0	1	1	0	1	1	0	2	1	1	1	4	1	4	1	4	1	5	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr8:6500543C>T	uc003wqi.2	+	14	2549	c.2481C>T	c.(2479-2481)GCC>GCT	p.A827A	uc003wqm.2_Intron	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	827	BRCT 3.					microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		AGGTCTGTGCCCCTGAAAACT	0.448													3	44					0	0	0.009096	0	0		T	6500543	T	T	6500543	2	4	143	1	0	0	0	0	0	0	0	1	9416	610	22	4		4	MCPH1	8	6500543	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08		6500543	139863479	47	76295											
SOX7	83595	broad.mit.edu	37	chr8	10583557	10583557	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtgggtggtaggtggcCggggagtaataggcaggaga	9	7	22	3	1	0	1	0	0	0	1	0	4	0	3	1	9	0	3	1	9	3	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr8:10583557C>T	uc003wtf.2	-	2	937	c.858G>A	c.(856-858)CCG>CCA	p.P286P	SOX7_uc011kwz.1_Silent_p.P338P	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	286	Sox C-terminal.				endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		GGTAGGTGGCCGGGGAGTAAT	0.672													8	34					0	0	0.008291	0	0		T	10583557	T	T	10583557	2	4	143	1	0	0	0	0	0	0	0	1	14981	639	23	1		1	SOX7	8	10583557	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08	4083014	10583557	135780465	48	76296											
DLC1	10395	broad.mit.edu	37	chr8	13259102	13259102	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaccatggagtccagccgCgccctatctcgatcttctct	7	10	8	16	3	3	0	0	0	3	0	6	2	4	1	4	1	2	1	4	1	1	2	rs147228489	by1000genomes	TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr8:13259102C>T	uc003wwm.2	-	3	1494	c.1050G>A	c.(1048-1050)GCG>GCA	p.A350A	DLC1_uc003wwn.2_Silent_p.A350A|DLC1_uc011kxy.1_Silent_p.A350A	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	350					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						AGTCCAGCCGCGCCCTATCTC	0.448													16	99					0	0	0.007413	0	0		T	13259102	T	T	13259102	2	4	143	1	0	0	0	0	0	0	0	1	4556	755	27	1		1	DLC1	8	13259102	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08	2675545	13259102	133104920	49	76297											
TACC1	6867	broad.mit.edu	37	chr8	38693782	38693782	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaatcagacaagacagccGtgctcaccttaataagagaa	16	6	9	10	2	2	3	2	0	0	3	2	5	2	3	2	0	2	1	2	0	5	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr8:38693782G>A	uc010lwp.2	+	7	2195	c.1816G>A	c.(1816-1818)GTG>ATG	p.V606M	TACC1_uc011lby.1_Missense_Mutation_p.V411M|TACC1_uc003xma.2_Missense_Mutation_p.V44M|TACC1_uc003xlz.2_Missense_Mutation_p.V411M|TACC1_uc003xmc.3_Missense_Mutation_p.V410M|TACC1_uc011lbz.1_Missense_Mutation_p.V593M|TACC1_uc003xmb.3_Missense_Mutation_p.V532M|TACC1_uc010lwo.1_Missense_Mutation_p.V139M|TACC1_uc003xmf.3_Missense_Mutation_p.V196M|TACC1_uc011lca.1_Missense_Mutation_p.V589M|TACC1_uc011lcb.1_Missense_Mutation_p.V382M|TACC1_uc011lcd.1_RNA|TACC1_uc003xmh.3_Missense_Mutation_p.V423M|TACC1_uc010lwq.2_Missense_Mutation_p.V423M	NM_006283	NP_006274	O75410	TACC1_HUMAN	transforming, acidic coiled-coil containing	606					cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)			CAAGACAGCCGTGCTCACCTT	0.522													12	70					0	0	0.013537	0	0		A	38693782	A	A	38693782	3	1	143	1	0	0	0	0	1	0	0	0	15526	1145	40	1	1842	1	TACC1	8	38693782	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	25434680	38693782	107670240	50	76298											
CHRNB3	1142	broad.mit.edu	37	chr8	42586889	42586889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgtctggacccctcccGccagctacaaaagctcctgc	7	9	8	17	1	1	0	0	0	1	0	3	1	3	1	5	1	4	3	5	1	3	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr8:42586889G>A	uc003xpi.1	+	5	567	c.439G>A	c.(439-441)GCC>ACC	p.A147T		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	147	Extracellular (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GACCCCTCCCGCCAGCTACAA	0.527													14	32					0	0	0.003163	0	0		A	42586889	A	A	42586889	3	1	143	1	0	0	0	0	1	0	0	0	3395	1087	38	1	457	1	CHRNB3	8	42586889	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	3893107	42586889	103777133	51	76299											
MCM4	4173	broad.mit.edu	37	chr8	48874864	48874864	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcatgtttttctgtgtaGgcagcagcagaagatatagt	10	14	11	6	0	2	2	1	0	1	2	2	2	2	2	0	1	2	5	0	1	4	5			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr8:48874864G>T	uc003xqk.1	+	5	495	c.400_splice	c.e5-1	p.A134_splice	PRKDC_uc003xqi.2_5'Flank|PRKDC_uc003xqj.2_5'Flank|PRKDC_uc011ldh.1_5'Flank|MCM4_uc003xql.1_Splice_Site_p.A134_splice|MCM4_uc011ldi.1_Splice_Site_p.A121_splice|MCM4_uc010lxw.1_Splice_Site	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4						cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				TTTCTGTGTAGGCAGCAGCAG	0.453													6	55					0.00116845	0.00130122	0.021553	1	0		T	48874864	T	T	48874864	5	4	143	1	0	0	0	0	0	0	1	0	9407	1014	35	5	413	5	MCM4	8	48874864	Splice_Site	SNP	G	TCGA-CG-4474-01A-02D-1158-08	6287975	48874864	97489158	52	76300											
CLVS1	157807	broad.mit.edu	37	chr8	62370926	62370926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taatacaccctgaatttttgCcctctgaatttggaggaact	11	14	7	9	0	1	2	0	2	1	0	1	4	1	4	2	2	3	0	2	2	5	5			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr8:62370926C>T	uc003xuh.2	+	5	1126	c.802C>T	c.(802-804)CCC>TCC	p.P268S	CLVS1_uc003xui.2_RNA|CLVS1_uc010lyp.2_Intron	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1	268	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						TGAATTTTTGCCCTCTGAATT	0.413													4	119					0	0	0.014758	0	0		T	62370926	T	T	62370926	3	4	143	1	0	0	0	0	1	0	0	0	3574	739	26	2	816	2	CLVS1	8	62370926	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	13496062	62370926	83993096	53	76301											
HAS2	3037	broad.mit.edu	37	chr8	122626580	122626580	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgatactggaatgagtccTatgaaattaacaacaatggt	16	11	8	6	0	0	3	0	3	0	0	1	4	1	4	1	2	3	0	1	2	7	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr8:122626580T>C	uc003yph.2	-	4	1966	c.1428A>G	c.(1426-1428)ATA>ATG	p.I476M		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	476	Helical; Name=6; (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			GAATGAGTCCTATGAAATTAA	0.403													3	227					0	0	0.014758	0	0		C	122626580	C	C	122626580	3	2	143	1	0	0	0	0	1	0	0	0	6978	1512	53	3	234	3	HAS2	8	122626580	Missense_Mutation	SNP	T	TCGA-CG-4474-01A-02D-1158-08	60255654	122626580	23737442	54	76302											
NUP214	8021	broad.mit.edu	37	chr9	134049567	134049567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacgtcctgtaaagatgacGaggcagtggttcaggcccct	9	8	14	10	2	1	2	1	1	0	1	2	4	2	3	3	4	0	3	3	4	2	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr9:134049567G>A	uc004cag.2	+	22	3130	c.3019G>A	c.(3019-3021)GAG>AAG	p.E1007K	NUP214_uc004cah.2_Missense_Mutation_p.E997K|NUP214_uc004cai.2_Missense_Mutation_p.E437K|NUP214_uc004caf.1_Missense_Mutation_p.E996K|NUP214_uc010mzf.2_Missense_Mutation_p.E305K	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	1007	11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		TAAAGATGACGAGGCAGTGGT	0.542			T	DEK|SET|ABL1	AML|T-ALL								24	141					0	0	0.016522	0	0		A	134049567	A	A	134049567	3	1	143	1	0	0	0	0	1	0	0	0	10781	1059	37	1	3105	1	NUP214	9	134049567	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08		134049567	7163864	55	76303											
AKR1C4	1109	broad.mit.edu	37	chr10	5238879	5238879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taaatgatggtcacttcatgCccgtattgggatttggcacc	9	13	10	9	1	2	1	2	1	0	0	2	2	2	2	2	3	1	2	2	3	3	5			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr10:5238879C>T	uc001ihw.2	+	1	82	c.49C>T	c.(49-51)CCC>TCC	p.P17S		NM_001818	NP_001809	P17516	AK1C4_HUMAN	aldo-keto reductase family 1, member C4	17	NADP (By similarity).				androgen metabolic process|bile acid biosynthetic process	cytosol	aldo-keto reductase (NADP) activity|androsterone dehydrogenase (B-specific) activity|bile acid transmembrane transporter activity|chlordecone reductase activity|electron carrier activity			ovary(1)	1					NADH(DB00157)	TCACTTCATGCCCGTATTGGG	0.428													4	247					0	0	0.009096	0	0		T	5238879	T	T	5238879	3	4	143	1	0	0	0	0	1	0	0	0	472	739	26	2	51	2	AKR1C4	10	5238879	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08		5238879	130295868	56	76304											
UPF2	26019	broad.mit.edu	37	chr10	11971960	11971960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtttgctggagctgggCgctgtgcaagagactgcaac	7	10	16	8	1	0	1	0	0	0	1	0	3	0	2	0	3	5	6	0	3	2	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr10:11971960C>T	uc001ila.2	-	20	4187	c.3713G>A	c.(3712-3714)CGC>CAC	p.R1238H	UPF2_uc001ilb.2_Missense_Mutation_p.R1238H|UPF2_uc001ilc.2_Missense_Mutation_p.R1238H	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	1238	Sufficient for interaction with UPF1 C- terminus.|Sufficient for interaction with EIF4A1 and EIF1.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				TGGAGCTGGGCGCTGTGCAAG	0.458													24	106					0	0	0.005443	0	0		T	11971960	T	T	11971960	3	4	143	1	0	0	0	0	1	0	0	0	17030	768	27	1	113	1	UPF2	10	11971960	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	6733081	11971960	123562787	57	76305											
TIAL1	7073	broad.mit.edu	37	chr10	121339500	121339500	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggattttccagttgccaTgtctttaactacccgggcat	7	16	8	10	1	1	0	0	0	1	0	2	1	2	1	3	2	3	2	3	2	2	7			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr10:121339500T>C	uc001lei.1	-	6	958	c.394A>G	c.(394-396)ATG>GTG	p.M132V	TIAL1_uc001leh.1_Missense_Mutation_p.M110V|TIAL1_uc001lej.1_Missense_Mutation_p.M149V|TIAL1_uc001lek.1_Missense_Mutation_p.M9V|TIAL1_uc009xzi.1_Missense_Mutation_p.M1V|TIAL1_uc010qtb.1_Missense_Mutation_p.M9V	NM_003252	NP_003243	Q01085	TIAR_HUMAN	TIA-1 related protein isoform 1	132	RRM 2.				apoptosis|defense response|induction of apoptosis|regulation of transcription from RNA polymerase II promoter	lysosome|nucleus|stress granule	nucleotide binding|RNA binding			ovary(1)	1		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00239)|BRCA - Breast invasive adenocarcinoma(275;0.0932)		CCAGTTGCCATGTCTTTAACT	0.363													15	81					0	0	0.020292	0	0		C	121339500	C	C	121339500	3	2	143	1	0	0	0	0	1	0	0	0	15914	1464	51	3	761	3	TIAL1	10	121339500	Missense_Mutation	SNP	T	TCGA-CG-4474-01A-02D-1158-08	109367540	121339500	14195247	58	76306											
FGFR2	2263	broad.mit.edu	37	chr10	123274809	123274809	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggtagtctggggaagctGtaatctccttttctcttcca	7	14	9	11	0	3	0	0	0	3	0	6	1	4	1	3	3	1	3	3	3	3	5			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr10:123274809G>T	uc010qtk.1	-	9	1756	c.1109C>A	c.(1108-1110)ACA>AAA	p.T370K	FGFR2_uc010qtg.1_Missense_Mutation_p.T258K|FGFR2_uc010qth.1_Missense_Mutation_p.T255K|FGFR2_uc010qti.1_Missense_Mutation_p.T281K|FGFR2_uc010qtj.1_Missense_Mutation_p.T371K|FGFR2_uc010qtl.1_Intron|FGFR2_uc010qtm.1_Missense_Mutation_p.T255K|FGFR2_uc001lfl.3_Missense_Mutation_p.T371K|FGFR2_uc001lfm.2_Missense_Mutation_p.T282K|FGFR2_uc001lfn.3_RNA|FGFR2_uc001lfg.3_5'UTR	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	370	Extracellular (Potential).				angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of mesenchymal cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding	p.T370R(1)		endometrium(44)|skin(28)|lung(11)|ovary(4)|cervix(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|soft_tissue(1)|central_nervous_system(1)	96		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Palifermin(DB00039)	TGGGGAAGCTGTAATCTCCTT	0.488		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				23	109					2.12542e-12	2.51965e-12	0.00632	1	0		T	123274809	T	T	123274809	3	4	143	1	0	0	0	0	1	0	0	0	5880	1377	48	5	1500	5	FGFR2	10	123274809	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	1935309	123274809	12259938	59	76307											
UBQLNL	143630	broad.mit.edu	37	chr11	5537612	5537612	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagatatttttgtctgccagCagacctgatggacatccact	10	12	9	10	0	1	3	0	1	1	2	2	5	2	4	3	1	2	1	3	1	1	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr11:5537612C>A	uc001maz.3	-	1	345	c.60G>T	c.(58-60)CTG>CTT	p.L20L	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	20										large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		TGTCTGCCAGCAGACCTGATG	0.517													34	85					4.14481e-20	5.03543e-20	0.00623	1	0		A	5537612	A	A	5537612	2	1	143	1	0	0	0	0	0	0	0	1	16926	697	25	5		5	UBQLNL	11	5537612	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08		5537612	129468904	60	76308											
EIF3M	10480	broad.mit.edu	37	chr11	32610588	32610588	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttttccacgggatggataaGaatactcctgtaagatacac	13	11	8	9	1	0	2	0	0	0	2	2	4	2	4	2	2	2	1	2	2	5	6			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr11:32610588G>C	uc001mtu.2	+	4	388	c.345G>C	c.(343-345)AAG>AAC	p.K115N	EIF3M_uc010ref.1_Intron	NM_006360	NP_006351	Q7L2H7	EIF3M_HUMAN	eukaryotic translation initiation factor 3,	115						eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)|breast(1)|skin(1)	3	Breast(20;0.109)					GGATGGATAAGAATACTCCTG	0.393													12	50					0	0	0.016723	0	0		C	32610588	C	C	32610588	3	2	143	1	0	0	0	0	1	0	0	0	5031	933	33	5	359	5	EIF3M	11	32610588	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	27072976	32610588	102395928	61	76309											
C2CD3	26005	broad.mit.edu	37	chr11	73814404	73814404	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaaattatgggaggctggCgtagctacgaaggttgaagg	12	9	15	5	2	0	1	0	1	0	0	0	3	0	2	0	5	2	4	0	5	7	5	rs147082398		TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr11:73814404C>T	uc001ouu.2	-	14	2579	c.2352G>A	c.(2350-2352)ACG>ACA	p.T784T		NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	784						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					GGGAGGCTGGCGTAGCTACGA	0.458													4	119					0	0	0.009096	0	0		T	73814404	T	T	73814404	2	4	143	1	0	0	0	0	0	0	0	1	2157	755	27	1		1	C2CD3	11	73814404	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08	41203816	73814404	61192112	62	76310											
JRKL	8690	broad.mit.edu	37	chr11	96124155	96124155	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcttttatgctttgggAatggatggtgattttaaccc	7	19	9	6	0	2	1	0	1	2	0	2	3	2	3	1	3	2	1	1	3	3	7			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr11:96124155A>G	uc009ywu.2	+	2	594	c.342A>G	c.(340-342)GGA>GGG	p.G114G	CCDC82_uc001pfx.3_5'Flank|CCDC82_uc009ywr.2_5'Flank|CCDC82_uc009ywt.1_5'Flank|JRKL_uc001pfy.2_Silent_p.G114G	NM_003772	NP_003763	Q9Y4A0	JERKL_HUMAN	jerky homolog-like	114	HTH CENPB-type.|H-T-H motif (By similarity).				central nervous system development|regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)		BRCA - Breast invasive adenocarcinoma(274;0.148)		ATGCTTTGGGAATGGATGGTG	0.428													49	119					0	0	0.01441	0	0		G	96124155	G	G	96124155	2	3	143	1	0	0	0	0	0	0	0	1	7981	233	9	3		3	JRKL	11	96124155	Silent	SNP	A	TCGA-CG-4474-01A-02D-1158-08	22309751	96124155	38882361	63	76311											
ARHGAP32	9743	broad.mit.edu	37	chr11	128843252	128843252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acattcgggcaacatttttcGgaggcggtggtggtgggata	8	11	16	6	3	0	0	0	0	0	0	2	2	0	2	0	7	1	1	0	7	2	4			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr11:128843252G>A	uc009zcp.2	-	21	3107	c.3107C>T	c.(3106-3108)CCG>CTG	p.P1036L	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_5'UTR|ARHGAP32_uc001qez.2_Missense_Mutation_p.P687L	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1036	Poly-Pro.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						AACATTTTTCGGAGGCGGTGG	0.517													4	177					0	0	0.014758	0	0		A	128843252	A	A	128843252	3	1	143	1	0	0	0	0	1	0	0	0	881	1116	39	1	3164	1	ARHGAP32	11	128843252	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	32719097	128843252	6163264	64	76312											
KIF21A	55605	broad.mit.edu	37	chr12	39726737	39726737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtaaggcctggactctcGccacaggaattctcattttc	8	13	9	11	1	2	0	1	0	2	0	5	2	2	2	2	4	0	1	2	4	2	5	rs145318959		TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr12:39726737G>A	uc001rly.2	-	19	2806	c.2660C>T	c.(2659-2661)GCG>GTG	p.A887V	KIF21A_uc001rlv.2_5'Flank|KIF21A_uc001rlw.2_Missense_Mutation_p.A204V|KIF21A_uc001rlx.2_Missense_Mutation_p.A874V|KIF21A_uc001rlz.2_Missense_Mutation_p.A851V|KIF21A_uc010skl.1_Missense_Mutation_p.A874V	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	887					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				CTGGACTCTCGCCACAGGAAT	0.488													31	85					0	0	0.012213	0	0		A	39726737	A	A	39726737	3	1	143	1	0	0	0	0	1	0	0	0	8304	1087	38	1	2444	1	KIF21A	12	39726737	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08		39726737	94125158	65	76313											
ARID2	196528	broad.mit.edu	37	chr12	46245192	46245192	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgcaagagctcctagccctCaggtggtctatcaggtggcc	8	9	12	12	0	3	1	2	0	1	1	4	1	4	1	3	4	3	2	3	4	3	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr12:46245192C>T	uc001ros.1	+	15	3286	c.3286C>T	c.(3286-3288)CAG>TAG	p.Q1096*	ARID2_uc001ror.2_Nonsense_Mutation_p.Q1096*|ARID2_uc009zkg.1_Nonsense_Mutation_p.Q552*|ARID2_uc009zkh.1_Nonsense_Mutation_p.Q723*|ARID2_uc001rou.1_Nonsense_Mutation_p.Q430*	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1096	Gln-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TCCTAGCCCTCAGGTGGTCTA	0.527													25	83					0	0	0.021523	0	0		T	46245192	T	T	46245192	4	4	143	1	0	0	0	0	0	1	0	0	915	827	29	4	3344	4	ARID2	12	46245192	Nonsense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	6518455	46245192	87606703	66	76314											
ITGB7	3695	broad.mit.edu	37	chr12	53586645	53586645	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcattcgcatgctctgccCgtgcggttggcatgacagtg	5	11	13	12	3	1	1	0	1	1	0	2	1	1	1	1	2	4	5	1	2	0	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr12:53586645C>T	uc009zmv.2	-	12	1847	c.1776G>A	c.(1774-1776)ACG>ACA	p.T592T	ITGB7_uc001scc.2_Silent_p.T592T|ITGB7_uc010snz.1_Intron	NM_000889	NP_000880	P26010	ITB7_HUMAN	integrin, beta 7 precursor	592	Cysteine-rich tandem repeats.|Extracellular (Potential).|III.				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|regulation of immune response	integrin complex	identical protein binding|metal ion binding|receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|breast(1)	8						ATGCTCTGCCCGTGCGGTTGG	0.582													4	30					0	0	0.009096	0	0		T	53586645	T	T	53586645	2	4	143	1	0	0	0	0	0	0	0	1	7916	639	23	1		1	ITGB7	12	53586645	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08	7341453	53586645	80265250	67	76315											
MYF5	4617	broad.mit.edu	37	chr12	81111227	81111227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcctcaggaatgccatcCgctacatcgagagcctgcag	11	7	10	13	2	1	2	1	0	0	2	4	4	3	3	4	1	4	2	4	1	2	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr12:81111227C>T	uc001szg.2	+	1	520	c.385C>T	c.(385-387)CGC>TGC	p.R129C		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	129	Helix-loop-helix motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GAATGCCATCCGCTACATCGA	0.587													51	129					0	0	0.01441	0	0		T	81111227	T	T	81111227	3	4	143	1	0	0	0	0	1	0	0	0	10045	652	23	1	387	1	MYF5	12	81111227	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	27524582	81111227	52740668	68	76316											
TMEM119	338773	broad.mit.edu	37	chr12	108985349	108985349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgcaagcacaggggctttCggggggacccactggtccct	6	7	15	13	1	0	0	0	0	0	0	2	1	1	1	2	6	2	4	2	6	1	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr12:108985349C>T	uc001tng.2	-	2	974	c.811G>A	c.(811-813)GAA>AAA	p.E271K	TMEM119_uc001tnf.2_RNA	NM_181724	NP_859075	Q4V9L6	TM119_HUMAN	transmembrane protein 119 precursor	271	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						CAGGGGCTTTCGGGGGGACCC	0.667													27	147					0	0	0.009535	0	0		T	108985349	T	T	108985349	3	4	143	1	0	0	0	0	1	0	0	0	16057	893	31	1	44	1	TMEM119	12	108985349	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	27874122	108985349	24866546	69	76317											
GOLGA3	2802	broad.mit.edu	37	chr12	133398686	133398686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggatctgtcctcctggaggCcatcttgctcggccgacgcg	4	9	14	14	4	2	0	0	0	2	0	5	3	4	2	4	4	1	1	4	4	0	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr12:133398686C>T	uc001ukz.1	-	2	588	c.29G>A	c.(28-30)GGC>GAC	p.G10D	GOLGA3_uc001ula.1_Missense_Mutation_p.G10D|GOLGA3_uc001ulb.2_Missense_Mutation_p.G10D	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	10					intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CTCCTGGAGGCCATCTTGCTC	0.647													16	46					0	0	0.004007	0	0		T	133398686	T	T	133398686	3	4	143	1	0	0	0	0	1	0	0	0	6569	739	26	2	4697	2	GOLGA3	12	133398686	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	24413337	133398686	453209	70	76318											
UGGT2	55757	broad.mit.edu	37	chr13	96592282	96592282	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcatgaggaaatgtattttGgagaacactcttcacattgt	13	13	9	6	0	2	2	1	1	1	1	2	4	2	3	0	2	2	2	0	2	3	5			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr13:96592282G>A	uc001vmt.2	-	16	1911	c.1741C>T	c.(1741-1743)CAA>TAA	p.Q581*		NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	581					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						AATGTATTTTGGAGAACACTC	0.259													15	65					0	0	0.004007	0	0		A	96592282	A	A	96592282	4	1	143	1	0	0	0	0	0	1	0	0	16968	1357	47	4	2905	4	UGGT2	13	96592282	Nonsense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08		96592282	18577596	71	76319											
NPAS3	64067	broad.mit.edu	37	chr14	34270057	34270057	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaacctgctgcccaacgcGcacgctgttaacttcgtgga	9	8	10	14	4	0	0	0	0	0	0	1	1	0	1	2	1	6	5	2	1	3	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr14:34270057G>A	uc001wru.2	+	12	2608	c.2544G>A	c.(2542-2544)GCG>GCA	p.A848A	NPAS3_uc001wrs.2_Silent_p.A835A|NPAS3_uc001wrt.2_Silent_p.A816A|NPAS3_uc001wrv.2_Silent_p.A818A	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	848					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		TGCCCAACGCGCACGCTGTTA	0.652													4	5					0	0	0.009096	0	0		A	34270057	A	A	34270057	2	1	143	1	0	0	0	0	0	0	0	1	10583	1074	38	1		1	NPAS3	14	34270057	Silent	SNP	G	TCGA-CG-4474-01A-02D-1158-08		34270057	73079483	72	76320											
PAX9	5083	broad.mit.edu	37	chr14	37132608	37132608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctatcacggcggcggccGccaaggtgcccacgccaccc	6	3	12	20	5	1	0	1	0	0	0	1	0	1	0	6	4	1	0	6	4	2	1	rs143020311	byFrequency	TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr14:37132608G>A	uc001wty.3	+	3	1228	c.511G>A	c.(511-513)GCC>ACC	p.A171T	PAX9_uc010amq.2_5'Flank	NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	171	Interaction with KDM5B.				multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		GGCGGCGGCCGCCAAGGTGCC	0.682													4	19					0	0	0.004482	0	0		A	37132608	A	A	37132608	3	1	143	1	0	0	0	0	1	0	0	0	11505	1087	38	1	517	1	PAX9	14	37132608	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	2862551	37132608	70216932	73	76321											
ZFYVE1	53349	broad.mit.edu	37	chr14	73442273	73442273	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccataccagaatctgggagtTgggcctccagtaggcagggg	9	7	15	10	0	1	1	0	0	1	1	2	2	2	2	4	5	1	3	4	5	3	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr14:73442273T>G	uc001xnm.2	-	9	2432	c.1792A>C	c.(1792-1794)AAC>CAC	p.N598H	ZFYVE1_uc001xnl.2_Missense_Mutation_p.N183H|ZFYVE1_uc010arj.2_Missense_Mutation_p.N584H	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	598	FYVE-type 1.					endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		ATCTGGGAGTTGGGCCTCCAG	0.577													5	142					0	0	0.021553	0	0		G	73442273	G	G	73442273	3	3	143	1	0	0	0	0	1	0	0	0	17688	1812	63	5	557	5	ZFYVE1	14	73442273	Missense_Mutation	SNP	T	TCGA-CG-4474-01A-02D-1158-08	36309665	73442273	33907267	74	76322											
SERPINA1	5265	broad.mit.edu	37	chr14	94844974	94844974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagcacagccttatgcaCggcctggaggggagagaagc	10	5	16	10	1	1	1	1	0	0	1	1	4	1	3	2	5	4	2	2	5	2	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr14:94844974C>T	uc001ycx.3	-	5	1330	c.1069G>A	c.(1069-1071)GTG>ATG	p.V357M	SERPINA1_uc001ycw.3_RNA|SERPINA1_uc010auw.2_Missense_Mutation_p.V357M|SERPINA1_uc010aux.2_Missense_Mutation_p.V357M|SERPINA1_uc001ycy.3_Missense_Mutation_p.V357M|SERPINA1_uc010auy.2_Missense_Mutation_p.V357M|SERPINA1_uc001ycz.3_Missense_Mutation_p.V357M|SERPINA1_uc010auz.2_Missense_Mutation_p.V357M|SERPINA1_uc010ava.2_Missense_Mutation_p.V357M|SERPINA1_uc001ydb.3_Missense_Mutation_p.V357M|SERPINA1_uc010avb.2_Missense_Mutation_p.V357M|SERPINA1_uc001ydc.3_Missense_Mutation_p.V357M	NM_000295	NP_000286	P01009	A1AT_HUMAN	serine proteinase inhibitor, clade A, member 1	357					acute-phase response|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen|proteinaceous extracellular matrix	protease binding|serine-type endopeptidase inhibitor activity			skin(1)	1		all_cancers(154;0.0649)|all_epithelial(191;0.223)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)	Alpha-1-proteinase inhibitor(DB00058)	GCCTTATGCACGGCCTGGAGG	0.592									Alpha-1-Antitrypsin_Deficiency				5	25					0	0	0.014758	0	0		T	94844974	T	T	94844974	3	4	143	1	0	0	0	0	1	0	0	0	14111	536	19	1	191	1	SERPINA1	14	94844974	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	21402701	94844974	12504566	75	76323											
ODF3L1	161753	broad.mit.edu	37	chr15	76019658	76019658	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcaggaggccctggacCtaccacgtacgcccgacctg	7	6	13	15	3	0	0	0	0	0	0	0	3	0	2	5	4	2	2	5	4	2	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr15:76019658C>A	uc002bax.1	+	4	824	c.602C>A	c.(601-603)CCT>CAT	p.P201H		NM_175881	NP_787077	Q8IXM7	OD3L1_HUMAN	outer dense fiber of sperm tails 3-like 1	201	DUF1309 1.										0						GGCCCTGGACCTACCACGTAC	0.622													6	53					8.12818e-05	9.1911e-05	0.001984	1	0		A	76019658	A	A	76019658	3	1	143	1	0	0	0	0	1	0	0	0	10850	681	24	5	616	5	ODF3L1	15	76019658	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08		76019658	26511734	76	76324											
HAPLN3	145864	broad.mit.edu	37	chr15	89424648	89424648	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgtcaatgacctcacagcGgtaacgcccatagtcctcca	10	7	7	17	3	2	1	2	1	0	0	4	1	4	1	5	1	2	1	5	1	3	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr15:89424648G>T	uc002bnc.2	-	3	561	c.433C>A	c.(433-435)CGC>AGC	p.R145S	HAPLN3_uc002bne.2_RNA|HAPLN3_uc002bnd.2_Missense_Mutation_p.R207S	NM_178232	NP_839946	Q96S86	HPLN3_HUMAN	hyaluronan and proteoglycan link protein 3	145	Ig-like V-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	Lung NSC(78;0.0392)|all_lung(78;0.077)					ACCTCACAGCGGTAACGCCCA	0.617													29	86					1.99505e-19	2.40387e-19	0.012213	1	0		T	89424648	T	T	89424648	3	4	143	1	0	0	0	0	1	0	0	0	6972	1116	39	5	661	5	HAPLN3	15	89424648	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	13404990	89424648	13106744	77	76325											
A2BP1	54715	broad.mit.edu	37	chr16	7759122	7759122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccagcccccacctacggcGttggtgccatggtgagtaca	7	8	11	15	2	0	1	0	1	0	0	1	1	1	1	5	3	4	2	5	3	2	3	rs138704494		TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr16:7759122G>A	uc002cys.2	+	15	2048	c.1060G>A	c.(1060-1062)GTT>ATT	p.V354I	A2BP1_uc002cyt.2_Missense_Mutation_p.V327I|A2BP1_uc010uxz.1_Missense_Mutation_p.V397I|A2BP1_uc010uya.1_Silent_p.A328A|A2BP1_uc010uyb.1_Missense_Mutation_p.V354I|A2BP1_uc002cyw.2_Silent_p.A392A|A2BP1_uc002cyy.2_Missense_Mutation_p.V375I|A2BP1_uc002cyx.2_Missense_Mutation_p.V375I|A2BP1_uc010uyc.1_Missense_Mutation_p.V348I	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	354					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		CACCTACGGCGTTGGTGCCAT	0.547													29	89					0	0	0.00632	0	0		A	7759122	A	A	7759122	3	1	143	1	0	0	0	0	1	0	0	0	3	1145	40	1	1301	1	A2BP1	16	7759122	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08		7759122	82595631	78	76326											
SCNN1B	6338	broad.mit.edu	37	chr16	23382763	23382763	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgccatgtcggggacagagAcgtccatcggggtactcgtg	8	7	15	11	5	0	1	0	0	0	1	4	3	1	2	2	4	1	1	2	4	1	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr16:23382763A>G	uc002dln.2	+	6	1200	c.1024A>G	c.(1024-1026)ACG>GCG	p.T342A		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	342	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	GGGGACAGAGACGTCCATCGG	0.632													3	24					0	0	0.014758	0	0		G	23382763	G	G	23382763	3	3	143	1	0	0	0	0	1	0	0	0	13953	275	10	3	1042	3	SCNN1B	16	23382763	Missense_Mutation	SNP	A	TCGA-CG-4474-01A-02D-1158-08	15623641	23382763	66971990	79	76327											
CDH1	999	broad.mit.edu	37	chr16	68842627	68842627	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagacaaagaaggcaaggTtttctacagcatcactggcc	15	7	9	10	0	2	2	1	0	1	2	2	2	2	2	1	3	2	3	1	3	5	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr16:68842627T>A	uc002ewg.1	+	5	687	c.563T>A	c.(562-564)GTT>GAT	p.V188D	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.V188D	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	188	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding			breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		GAAGGCAAGGTTTTCTACAGC	0.423			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				17	33					0	0	0.006122	0	0		A	68842627	A	A	68842627	3	1	143	1	0	0	0	0	1	0	0	0	3098	1725	60	5	581	5	CDH1	16	68842627	Missense_Mutation	SNP	T	TCGA-CG-4474-01A-02D-1158-08	45459864	68842627	21512126	80	76328											
TNS4	84951	broad.mit.edu	37	chr17	38652436	38652436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggccttctcaccaggggacGgcaggaagcaggtggctttg	8	7	16	10	1	1	0	1	0	1	0	2	2	1	2	2	7	1	3	2	7	1	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr17:38652436G>A	uc010cxb.2	-	2	406	c.242C>T	c.(241-243)CCG>CTG	p.P81L		NM_032865	NP_116254	Q8IZW8	TENS4_HUMAN	tensin 4 precursor	81					apoptosis|protein localization	cytoplasm|cytoskeleton|focal adhesion	actin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(5;5.91e-05)			ACCAGGGGACGGCAGGAAGCA	0.647													33	108					0	0	0.012213	0	0		A	38652436	A	A	38652436	3	1	143	1	0	0	0	0	1	0	0	0	16370	1116	39	1	1953	1	TNS4	17	38652436	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08		38652436	42542774	81	76329											
ATP6V0A1	535	broad.mit.edu	37	chr17	40639324	40639324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactcagaaatgcttgattgCagaggtctggtgccctgtca	9	11	12	9	0	3	3	2	1	1	2	3	4	3	3	1	2	3	2	1	2	1	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr17:40639324C>T	uc002hzr.2	+	10	1129	c.962C>T	c.(961-963)GCA>GTA	p.A321V	ATP6V0A1_uc002hzq.2_Missense_Mutation_p.A321V|ATP6V0A1_uc002hzs.2_Missense_Mutation_p.A328V|ATP6V0A1_uc010wgj.1_Missense_Mutation_p.A278V|ATP6V0A1_uc010wgk.1_Missense_Mutation_p.A278V|ATP6V0A1_uc010cyg.2_Intron|ATP6V0A1_uc010wgl.1_Missense_Mutation_p.A180V	NM_001130021	NP_001123493	Q93050	VPP1_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a1	321	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytoplasmic vesicle membrane|endosome membrane|Golgi apparatus|integral to membrane|melanosome|nucleus|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1		all_cancers(22;1.18e-05)|Breast(137;0.000105)|all_epithelial(22;0.000254)		BRCA - Breast invasive adenocarcinoma(366;0.137)		TGCTTGATTGCAGAGGTCTGG	0.522													16	113					0	0	0.007413	0	0		T	40639324	T	T	40639324	3	4	143	1	0	0	0	0	1	0	0	0	1169	710	25	2	1017	2	ATP6V0A1	17	40639324	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	1986888	40639324	40555886	82	76330											
HOXB2	3212	broad.mit.edu	37	chr17	46621062	46621062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgttggtgtaagccgtgcGcagcctgcgcgccccgccgc	3	7	15	16	7	0	0	0	0	0	0	0	0	0	0	5	1	4	3	5	1	1	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr17:46621062G>A	uc002inm.2	-	2	559	c.439C>T	c.(439-441)CGC>TGC	p.R147C		NM_002145	NP_002136	P14652	HXB2_HUMAN	homeobox B2	147	Homeobox.				blood circulation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TAAGCCGTGCGCAGCCTGCGC	0.642													4	26					0	0	0.014758	0	0		A	46621062	A	A	46621062	3	1	143	1	0	0	0	0	1	0	0	0	7317	1087	38	1	635	1	HOXB2	17	46621062	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	5981738	46621062	34574148	83	76331											
KCNH6	81033	broad.mit.edu	37	chr17	61621612	61621612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccctttccctcctgcagatGcagcccctcccctgagcatc	5	10	6	20	0	0	2	0	1	0	1	5	2	4	2	7	0	4	3	7	0	0	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr17:61621612G>A	uc002jay.2	+	12	2424	c.2344G>A	c.(2344-2346)GCA>ACA	p.A782T	KCNH6_uc010wpl.1_Missense_Mutation_p.A623T|KCNH6_uc010wpm.1_Missense_Mutation_p.A746T|KCNH6_uc002jaz.1_Missense_Mutation_p.A693T	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	782	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	TCCTGCAGATGCAGCCCCTCC	0.627													11	41					0	0	0.020292	0	0		A	61621612	A	A	61621612	3	1	143	1	0	0	0	0	1	0	0	0	8052	1319	46	2	2390	2	KCNH6	17	61621612	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	15000550	61621612	19573598	84	76332											
RPTOR	57521	broad.mit.edu	37	chr17	78854264	78854264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggccacaagtacttcctgtCggtcctggcggacccctaca	7	8	10	16	3	0	0	0	0	0	0	3	1	2	1	5	4	2	1	5	4	3	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr17:78854264C>T	uc002jyt.1	+	14	2364	c.1559C>T	c.(1558-1560)TCG>TTG	p.S520L	RPTOR_uc010wug.1_Intron	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	520					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						TACTTCCTGTCGGTCCTGGCG	0.627													4	23					0	0	0.009096	0	0		T	78854264	T	T	78854264	3	4	143	1	0	0	0	0	1	0	0	0	13690	893	31	1	1613	1	RPTOR	17	78854264	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	17232652	78854264	2340946	85	76333											
PCSK4	54760	broad.mit.edu	37	chr19	1481952	1481952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagctctaagccgggggcGgctgtcgggggtggtgggtc	3	7	22	9	3	1	0	0	0	1	0	3	0	1	0	1	8	2	3	1	8	1	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr19:1481952G>A	uc002ltb.1	-	15	2136	c.2074C>T	c.(2074-2076)CGC>TGC	p.R692C	C19orf25_uc010xgn.1_5'Flank|C19orf25_uc002lsy.3_5'Flank|C19orf25_uc010dsk.2_5'Flank|C19orf25_uc010xgo.1_5'Flank|C19orf25_uc002lsx.1_5'Flank|PCSK4_uc002lsz.2_Missense_Mutation_p.R179C|PCSK4_uc002lta.2_3'UTR	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	692	FU.				proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCCGGGGGCGGCTGTCGGGG	0.736													4	3					0	0	0.014758	0	0		A	1481952	A	A	1481952	3	1	143	1	0	0	0	0	1	0	0	0	11621	1116	39	1	197	1	PCSK4	19	1481952	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08		1481952	57647031	86	76334											
HDGFRP2	84717	broad.mit.edu	37	chr19	4499495	4499495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttggtggccagattcgccGttacaaagcgaacaaggacg	11	8	12	10	4	1	1	0	0	1	1	2	3	1	2	2	3	3	1	2	3	4	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr19:4499495G>A	uc002mao.2	+	14	1676	c.1583G>A	c.(1582-1584)CGT>CAT	p.R528H	HDGFRP2_uc002map.2_Missense_Mutation_p.R528H|HDGFRP2_uc010dtz.1_RNA|HDGFRP2_uc010dua.2_5'UTR|HDGFRP2_uc002maq.1_5'UTR	NM_001001520	NP_001001520	Q7Z4V5	HDGR2_HUMAN	hepatoma-derived growth factor-related protein 2	528	Potential.				transcription, DNA-dependent	nucleus	DNA binding|protein binding				0						CAGATTCGCCGTTACAAAGCG	0.567													9	10					0	0	0.006214	0	0		A	4499495	A	A	4499495	3	1	143	1	0	0	0	0	1	0	0	0	7036	1145	40	1	1637	1	HDGFRP2	19	4499495	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	3017543	4499495	54629488	87	76335											
SMARCA4	6597	broad.mit.edu	37	chr19	11123694	11123694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcatcctggccgacgagatgGgcctggggaagaccatccag	9	5	15	12	2	0	2	0	0	0	2	2	5	2	3	5	4	0	1	5	4	1	0			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr19:11123694G>A	uc002mqf.3	+	16	2628	c.2344G>A	c.(2344-2346)GGC>AGC	p.G782S	SMARCA4_uc010dxp.2_Missense_Mutation_p.G782S|SMARCA4_uc010dxo.2_Missense_Mutation_p.G782S|SMARCA4_uc002mqg.1_Missense_Mutation_p.G782S|SMARCA4_uc010dxq.2_Missense_Mutation_p.G782S|SMARCA4_uc010dxr.2_Missense_Mutation_p.G782S|SMARCA4_uc002mqj.3_Missense_Mutation_p.G782S|SMARCA4_uc010dxs.2_Missense_Mutation_p.G782S|SMARCA4_uc010dxt.1_Missense_Mutation_p.G2S	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	782	Helicase ATP-binding.|ATP (Potential).				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				CGACGAGATGGGCCTGGGGAA	0.572			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				9	55					0	0	0.006214	0	0		A	11123694	A	A	11123694	3	1	143	1	0	0	0	0	1	0	0	0	14795	1232	43	4	2402	4	SMARCA4	19	11123694	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	6624199	11123694	48005289	88	76336											
MAST3	23031	broad.mit.edu	37	chr19	18218412	18218412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcagaaggagctgagcctgCcacgccgaggacgtgggtga	9	5	17	10	3	0	3	0	2	0	1	0	6	0	5	3	3	4	2	3	3	1	0			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr19:18218412C>T	uc002nhz.3	+	2	55	c.55C>T	c.(55-57)CCA>TCA	p.P19S		NM_015016	NP_055831	O60307	MAST3_HUMAN	microtubule associated serine/threonine kinase	19							ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			large_intestine(2)|ovary(2)|stomach(1)	5						GCTGAGCCTGCCACGCCGAGG	0.572													15	167					0	0	0.007413	0	0		T	18218412	T	T	18218412	3	4	143	1	0	0	0	0	1	0	0	0	9344	739	26	2	61	2	MAST3	19	18218412	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	7094718	18218412	40910571	89	76337											
MAST3	23031	broad.mit.edu	37	chr19	18255980	18255980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagtacggcttcagcctgCgggcgatccgcgtctacatg	8	8	13	12	5	2	1	1	0	1	1	3	2	3	1	2	2	4	2	2	2	3	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr19:18255980C>T	uc002nhz.3	+	23	2893	c.2893C>T	c.(2893-2895)CGG>TGG	p.R965W		NM_015016	NP_055831	O60307	MAST3_HUMAN	microtubule associated serine/threonine kinase	965	PDZ.						ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			large_intestine(2)|ovary(2)|stomach(1)	5						CTTCAGCCTGCGGGCGATCCG	0.637													23	130					0	0	0.010818	0	0		T	18255980	T	T	18255980	3	4	143	1	0	0	0	0	1	0	0	0	9344	759	27	1	2983	1	MAST3	19	18255980	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	37568	18255980	40873003	90	76338											
HOMER3	9454	broad.mit.edu	37	chr19	19049214	19049214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgtagactgtgttggcgCgactgtcggcccactgcccg	4	8	15	14	5	0	1	0	0	0	1	1	2	0	1	3	3	1	2	3	3	1	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr19:19049214C>T	uc002nku.2	-	3	904	c.251G>A	c.(250-252)CGC>CAC	p.R84H	HOMER3_uc010eby.2_Missense_Mutation_p.R84H|HOMER3_uc010ebz.2_Missense_Mutation_p.R84H|HOMER3_uc002nkw.2_Missense_Mutation_p.R84H|HOMER3_uc002nkv.2_Missense_Mutation_p.R84H	NM_004838	NP_004829	Q9NSC5	HOME3_HUMAN	Homer, neuronal immediate early gene, 3 isoform	84	WH1.				metabotropic glutamate receptor signaling pathway|protein targeting	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	protein binding				0			Epithelial(12;0.0107)			TGTGTTGGCGCGACTGTCGGC	0.398													47	99					0	0	0.01441	0	0		T	19049214	T	T	19049214	3	4	143	1	0	0	0	0	1	0	0	0	7296	768	27	1	862	1	HOMER3	19	19049214	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	793234	19049214	40079769	91	76339											
IL4I1	259307	broad.mit.edu	37	chr19	50398344	50398344	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtgagagctgggcatgcGcatggctcccagctccccaa	7	7	12	15	1	0	1	0	1	0	1	2	2	2	1	4	2	3	5	4	2	1	0			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr19:50398344G>A	uc002pqt.1	-	4	424	c.346C>T	c.(346-348)CGC>TGC	p.R116C	IL4I1_uc002pqv.1_Missense_Mutation_p.R125C|IL4I1_uc010eno.1_Missense_Mutation_p.R124C|IL4I1_uc002pqw.1_Missense_Mutation_p.R124C|IL4I1_uc002pqu.1_Missense_Mutation_p.R138C	NM_152899	NP_690863	Q96RQ9	OXLA_HUMAN	interleukin 4 induced 1 isoform 1 precursor	116	FAD (By similarity).	Substrate (By similarity).				lysosome	L-amino-acid oxidase activity			lung(1)|ovary(1)|prostate(1)	3		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00245)|OV - Ovarian serous cystadenocarcinoma(262;0.0169)		CTGGGCATGCGCATGGCTCCC	0.632													3	48					0	0	0.004672	0	0		A	50398344	A	A	50398344	3	1	143	1	0	0	0	0	1	0	0	0	7713	1087	38	1	1377	1	IL4I1	19	50398344	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	31349130	50398344	8730639	92	76340											
SLC4A11	83959	broad.mit.edu	37	chr20	3214843	3214843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcggcgaagcatggtccGcagcacgttatccagggagg	10	5	16	10	4	0	0	0	0	0	0	2	3	2	1	2	4	3	4	2	4	3	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr20:3214843G>A	uc002wig.2	-	4	505	c.457C>T	c.(457-459)CGG>TGG	p.R153W	SLC4A11_uc010zqe.1_Missense_Mutation_p.R180W|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.R137W	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	153	Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						AGCATGGTCCGCAGCACGTTA	0.627													25	107					0	0	0.004656	0	0		A	3214843	A	A	3214843	3	1	143	1	0	0	0	0	1	0	0	0	14677	1086	38	1	2282	1	SLC4A11	20	3214843	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08		3214843	59810677	93	76341											
ISM1	140862	broad.mit.edu	37	chr20	13251272	13251272	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttccccagaccgcgattccGacaagagacggggcaccctt	9	6	10	16	4	0	2	0	0	0	2	2	5	2	2	5	2	0	1	5	2	1	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr20:13251272G>A	uc010gce.1	+	2	266	c.260G>A	c.(259-261)CGA>CAA	p.R87Q	TASP1_uc010zri.1_Intron	NM_080826	NP_543016	B1AKI9	ISM1_HUMAN	isthmin 1 homolog precursor	87						extracellular region					0						CCGCGATTCCGACAAGAGACG	0.507													11	41					0	0	0.016723	0	0		A	13251272	A	A	13251272	3	1	143	1	0	0	0	0	1	0	0	0	7876	1058	37	1	266	1	ISM1	20	13251272	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	10036429	13251272	49774248	94	76342											
SLC24A3	57419	broad.mit.edu	37	chr20	19662610	19662610	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgacagcagcaactgcgaCgcaactgtggtgctacttaa	12	8	11	10	2	0	1	0	1	0	0	0	3	0	1	0	1	7	4	0	1	4	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr20:19662610C>T	uc002wrl.2	+	10	1073	c.876C>T	c.(874-876)GAC>GAT	p.D292D		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	292	Cytoplasmic (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						GCAACTGCGACGCAACTGTGG	0.333													7	39					0	0	0.001984	0	0		T	19662610	T	T	19662610	2	4	143	1	0	0	0	0	0	0	0	1	14492	535	19	1		1	SLC24A3	20	19662610	Silent	SNP	C	TCGA-CG-4474-01A-02D-1158-08	6411338	19662610	43362910	95	76343											
TM9SF4	9777	broad.mit.edu	37	chr20	30742950	30742950	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttttggcatctgcttcgtAttgaattgcttcatttgggg	5	19	11	6	1	2	1	1	1	1	0	3	1	2	1	0	3	2	5	0	3	2	8			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr20:30742950A>G	uc002wxj.2	+	13	1525	c.1290A>G	c.(1288-1290)GTA>GTG	p.V430V	TM9SF4_uc010zts.1_Silent_p.V337V|TM9SF4_uc002wxk.2_Silent_p.V413V|TM9SF4_uc010gdz.2_Intron	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	430	Helical; (Potential).					integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			TCTGCTTCGTATTGAATTGCT	0.582													10	106					0	0	0.016723	0	0		G	30742950	G	G	30742950	2	3	143	1	0	0	0	0	0	0	0	1	16005	436	16	3		3	TM9SF4	20	30742950	Silent	SNP	A	TCGA-CG-4474-01A-02D-1158-08	11080340	30742950	32282570	96	76344											
ACSS2	55902	broad.mit.edu	37	chr20	33508432	33508432	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcagaggatgtgttctggTgcacggcagacattggttgg	8	11	16	6	1	1	2	0	0	1	2	1	3	1	3	0	5	2	5	0	5	0	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr20:33508432T>A	uc002xbd.2	+	9	1184	c.1063T>A	c.(1063-1065)TGC>AGC	p.C355S	ACSS2_uc002xbc.2_Missense_Mutation_p.C260S|ACSS2_uc010zum.1_Intron|ACSS2_uc010gey.2_Missense_Mutation_p.C368S|ACSS2_uc002xbe.2_Missense_Mutation_p.C63S|ACSS2_uc002xbf.2_Intron	NM_018677	NP_061147	Q9NR19	ACSA_HUMAN	acyl-CoA synthetase short-chain family member 2	355					ethanol oxidation|lipid biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	acetate-CoA ligase activity|ATP binding|protein binding				0					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TGTGTTCTGGTGCACGGCAGA	0.532													6	95					0	0	0.00308	0	0		A	33508432	A	A	33508432	3	1	143	1	0	0	0	0	1	0	0	0	189	1696	59	5	1140	5	ACSS2	20	33508432	Missense_Mutation	SNP	T	TCGA-CG-4474-01A-02D-1158-08	2765482	33508432	29517088	97	76345											
ZBTB46	140685	broad.mit.edu	37	chr20	62421407	62421407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctccctccgtactgagacGgtgaaacctgctcttccttg	6	11	9	15	3	1	2	0	2	1	1	4	3	4	2	4	1	3	3	4	1	2	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr20:62421407G>A	uc002ygv.1	-	2	905	c.704C>T	c.(703-705)CCG>CTG	p.P235L	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	235					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					GTACTGAGACGGTGAAACCTG	0.602													14	43					0	0	0.020292	0	0		A	62421407	A	A	62421407	3	1	143	1	0	0	0	0	1	0	0	0	17572	1116	39	1	1081	1	ZBTB46	20	62421407	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	28912975	62421407	604113	98	76346											
SON	6651	broad.mit.edu	37	chr21	34918579	34918579	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccattgaaggaaaccaggcGggtgatgcagctgcctctgc	9	7	13	12	1	1	2	0	2	1	0	1	3	1	3	3	3	5	2	3	3	2	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr21:34918579G>A	uc002yse.1	+	2	187	c.138G>A	c.(136-138)GCG>GCA	p.A46A	SON_uc002ysb.1_Silent_p.A46A|SON_uc002ysc.2_Silent_p.A46A|SON_uc002ysd.2_5'UTR|SON_uc002ysf.1_Silent_p.A46A	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	46					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						GAAACCAGGCGGGTGATGCAG	0.408													23	63					0	0	0.004656	0	0		A	34918579	A	A	34918579	2	1	143	1	0	0	0	0	0	0	0	1	14951	1103	39	1		1	SON	21	34918579	Silent	SNP	G	TCGA-CG-4474-01A-02D-1158-08		34918579	13211316	99	76347											
SON	6651	broad.mit.edu	37	chr21	34924325	34924325	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagctcaggatccctataggTtgggccatgacccctataga	10	10	10	11	0	1	2	1	1	0	1	2	3	2	3	4	3	1	2	4	3	5	6			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr21:34924325T>C	uc002yse.1	+	3	2837	c.2788T>C	c.(2788-2790)TTG>CTG	p.L930L	SON_uc002ysb.1_Silent_p.L930L|SON_uc002ysc.2_Silent_p.L930L|SON_uc002ysd.2_Intron|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	930	11 X 7 AA tandem repeats of [DR]-P-Y-R- [LI][AG][QHP].				anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						TCCCTATAGGTTGGGCCATGA	0.458													3	53					0	0	0.004672	0	0		C	34924325	C	C	34924325	2	2	143	1	0	0	0	0	0	0	0	1	14951	1722	60	3		3	SON	21	34924325	Silent	SNP	T	TCGA-CG-4474-01A-02D-1158-08	5746	34924325	13205570	100	76348											
MX1	4599	broad.mit.edu	37	chr21	42824698	42824698	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaggagctggaagaagaaAagaagaagaaatcctgggat	20	4	14	3	0	0	6	0	0	0	6	1	9	1	9	1	3	1	1	1	3	8	0			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr21:42824698A>C	uc002yzh.2	+	18	2607	c.1660A>C	c.(1660-1662)AAG>CAG	p.K554Q	MX1_uc002yzi.2_Missense_Mutation_p.K554Q|MX1_uc010goq.2_Missense_Mutation_p.K554Q	NM_001144925	NP_001138397	P20591	MX1_HUMAN	myxovirus resistance protein 1	554					induction of apoptosis|response to virus|type I interferon-mediated signaling pathway	cytosol	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(19;3.18e-07)|all_epithelial(19;0.0277)				GGAAGAAGAAAAGAAGAAGAA	0.512													106	305					0	0	0.01441	0	0		C	42824698	C	C	42824698	3	2	143	1	0	0	0	0	1	0	0	0	10015	15	1	5	1706	5	MX1	21	42824698	Missense_Mutation	SNP	A	TCGA-CG-4474-01A-02D-1158-08	7900373	42824698	5305197	101	76349											
MYH9	4627	broad.mit.edu	37	chr22	36685273	36685273	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gagccttggtctccttctctCgggcctccgcctcagcccgg	2	10	11	18	3	3	0	1	0	2	0	7	1	4	0	6	3	2	0	6	3	0	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chr22:36685273C>G	uc003apg.2	-	32	4646	c.4415G>C	c.(4414-4416)CGA>CCA	p.R1472P		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1472	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CTCCTTCTCTCGGGCCTCCGC	0.652			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				6	25					0	0	0.021553	0	0		G	36685273	G	G	36685273	3	3	143	1	0	0	0	0	1	0	0	0	10060	884	31	5	1507	5	MYH9	22	36685273	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08		36685273	14619293	102	76350											
SMS	6611	broad.mit.edu	37	chrX	21995314	21995314	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatataaaaattctacactcGaagcagtttggaaatattct	17	13	5	6	1	2	0	0	0	2	0	3	2	2	1	0	1	2	2	0	1	9	7			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chrX:21995314G>A	uc004dag.2	+	5	566	c.465G>A	c.(463-465)TCG>TCA	p.S155S	SMS_uc011mjq.1_Silent_p.S59S|SMS_uc004daf.1_Silent_p.S102S|SMS_uc010nfs.2_5'Flank|SMS_uc010nft.2_5'Flank	NM_004595	NP_004586	P52788	SPSY_HUMAN	spermine synthase	155					methionine metabolic process|spermine biosynthetic process	cytosol	spermidine synthase activity|spermine synthase activity			ovary(1)	1					Spermine(DB00127)	TTCTACACTCGAAGCAGTTTG	0.433													25	117					0	0	0.01892	0	0		A	21995314	A	A	21995314	2	1	143	1	0	0	0	0	0	0	0	1	14838	1045	37	1		1	SMS	23	21995314	Silent	SNP	G	TCGA-CG-4474-01A-02D-1158-08		21995314	133275246	103	76351											
DMD	1756	broad.mit.edu	37	chrX	31854892	31854892	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgccctttagacaaaatCtcttccacatccggttgttt	8	15	6	12	1	1	1	0	0	1	1	4	1	3	1	3	1	2	3	3	1	3	5			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chrX:31854892C>A	uc004dda.1	-	49	7387	c.7143G>T	c.(7141-7143)GAG>GAT	p.E2381D	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Missense_Mutation_p.E1037D|DMD_uc004dcx.2_Missense_Mutation_p.E1040D|DMD_uc004dcz.2_Missense_Mutation_p.E2258D|DMD_uc004dcy.1_Missense_Mutation_p.E2377D|DMD_uc004ddb.1_Missense_Mutation_p.E2373D|DMD_uc004ddd.1_5'UTR	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2381					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TAGACAAAATCTCTTCCACAT	0.403													28	149					2.48779e-11	2.90243e-11	0.005443	1	0		A	31854892	A	A	31854892	3	1	143	1	0	0	0	0	1	0	0	0	4586	912	32	5	4186	5	DMD	23	31854892	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	9859578	31854892	123415668	104	76352											
CYSLTR1	10800	broad.mit.edu	37	chrX	77529189	77529189	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacttgattgcggaagtcatCaatagtgtcatggcatgtgg	10	12	12	7	1	3	1	3	1	0	0	3	2	3	2	0	3	1	1	0	3	3	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chrX:77529189C>G	uc004edb.2	-	3	455	c.55G>C	c.(55-57)GAT>CAT	p.D19H	CYSLTR1_uc010nma.2_Missense_Mutation_p.D19H|CYSLTR1_uc010nmb.2_Missense_Mutation_p.D19H	NM_006639	NP_006630	Q9Y271	CLTR1_HUMAN	cysteinyl leukotriene receptor 1	19	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|respiratory gaseous exchange	integral to plasma membrane|membrane fraction	leukotriene receptor activity			ovary(1)	1					Amlexanox(DB01025)|Cinalukast(DB00587)|Montelukast(DB00471)|Nedocromil(DB00716)|Pranlukast(DB01411)|Zafirlukast(DB00549)	CGGAAGTCATCAATAGTGTCA	0.383													24	100					0	0	0.005443	0	0		G	77529189	G	G	77529189	3	3	143	1	0	0	0	0	1	0	0	0	4204	826	29	5	962	5	CYSLTR1	23	77529189	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	45674297	77529189	77741371	105	76353											
XPNPEP2	7512	broad.mit.edu	37	chrX	128878049	128878049	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcacagatgctcacatggTaagagacagcttctctcccc	11	8	9	13	0	2	2	1	0	1	2	4	3	3	2	2	2	2	4	2	2	1	2			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chrX:128878049T>G	uc004eut.1	+	3	478	c.234_splice	c.e3+2	p.M78_splice	XPNPEP2_uc011mum.1_Splice_Site_p.M78_splice	NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound						cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						GCTCACATGGTAAGAGACAGC	0.517													36	140					0	0	0.013726	0	0		G	128878049	G	G	128878049	5	3	143	1	0	0	0	0	0	0	1	0	17469	1652	57	5	246	5	XPNPEP2	23	128878049	Splice_Site	SNP	T	TCGA-CG-4474-01A-02D-1158-08	51348860	128878049	26392511	106	76354											
GPC4	2239	broad.mit.edu	37	chrX	132439867	132439867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgatgtggtctgaagcgaGcactgaaggcactttcagag	10	9	15	7	1	2	4	1	3	1	1	2	5	2	4	0	3	2	2	0	3	2	1			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chrX:132439867G>A	uc004exc.1	-	6	1300	c.1088C>T	c.(1087-1089)GCT>GTT	p.A363V	GPC4_uc011mvg.1_Missense_Mutation_p.A293V	NM_001448	NP_001439	O75487	GPC4_HUMAN	glypican 4 precursor	363					anatomical structure morphogenesis|cell proliferation	anchored to membrane|external side of plasma membrane|extracellular space|insoluble fraction|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	Acute lymphoblastic leukemia(192;0.000127)					TCTGAAGCGAGCACTGAAGGC	0.552													7	505					0	0	0.00308	0	0		A	132439867	A	A	132439867	3	1	143	1	0	0	0	0	1	0	0	0	6615	971	34	2	598	2	GPC4	23	132439867	Missense_Mutation	SNP	G	TCGA-CG-4474-01A-02D-1158-08	3561818	132439867	22830693	107	76355											
SAGE1	55511	broad.mit.edu	37	chrX	134990775	134990775	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatgagttccagggatctGtgtatgtgtgttttttagtt	7	18	12	4	0	1	1	0	1	1	0	2	2	2	2	1	1	0	5	1	1	3	6			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chrX:134990775G>C	uc004ezh.2	+	12	1607	c.1440G>C	c.(1438-1440)CTG>CTC	p.L480L	SAGE1_uc010nry.1_Silent_p.L449L|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	480										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CCAGGGATCTGTGTATGTGTG	0.398													3	188					0	0	0.004672	0	0		C	134990775	C	C	134990775	2	2	143	1	0	0	0	0	0	0	0	1	13834	1391	48	5		5	SAGE1	23	134990775	Silent	SNP	G	TCGA-CG-4474-01A-02D-1158-08	2550908	134990775	20279785	108	76356											
G6PD	2539	broad.mit.edu	37	chrX	153763395	153763395	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccttacatctggctcatgCaggactcgtgaatgttcttg	8	13	10	10	1	3	1	1	1	2	0	4	2	3	2	1	2	3	3	1	2	2	3			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chrX:153763395C>A	uc004fly.1	-	5	586	c.473G>T	c.(472-474)TGC>TTC	p.C158F	G6PD_uc004flx.1_Missense_Mutation_p.C188F	NM_001042351	NP_001035810	P11413	G6PD_HUMAN	glucose-6-phosphate dehydrogenase isoform b	158					cellular response to oxidative stress|cholesterol biosynthetic process|cytokine production|erythrocyte maturation|glucose 6-phosphate metabolic process|glutathione metabolic process|negative regulation of protein glutathionylation|pentose-phosphate shunt, oxidative branch|ribose phosphate biosynthetic process	centrosome|cytosol|internal side of plasma membrane|intracellular membrane-bounded organelle	glucose binding|glucose-6-phosphate dehydrogenase activity|NADP binding|protein homodimerization activity			ovary(4)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTGGCTCATGCAGGACTCGTG	0.647													27	114					3.65163e-15	4.36414e-15	0.00632	1	0		A	153763395	A	A	153763395	3	1	143	1	0	0	0	0	1	0	0	0	6160	710	25	5	1110	5	G6PD	23	153763395	Missense_Mutation	SNP	C	TCGA-CG-4474-01A-02D-1158-08	18772620	153763395	1507165	109	76357											
TMLHE	55217	broad.mit.edu	37	chrX	154736649	154736649	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacattctccaacatcttcaAtatattcatgcttcaatggc	12	14	4	11	0	5	0	3	0	2	0	6	1	5	0	1	1	2	1	1	1	5	6			TCGA-CG-4474-01A-02D-1158-08	TCGA-CG-4474-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	76ca314e-8af8-4dd2-a136-9df8e9bd052d	4db705ef-e1e4-4403-8ba3-e8bed2fe3e22	g.chrX:154736649A>G	uc004fnn.2	-	6	1071	c.905T>C	c.(904-906)ATT>ACT	p.I302T	TMLHE_uc004fno.2_Missense_Mutation_p.I302T|TMLHE_uc004fnp.3_Missense_Mutation_p.I302T	NM_018196	NP_060666	Q9NVH6	TMLH_HUMAN	trimethyllysine hydroxylase, epsilon	302					carnitine biosynthetic process	mitochondrial matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|trimethyllysine dioxygenase activity			ovary(1)	1	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Succinic acid(DB00139)|Vitamin C(DB00126)	AACATCTTCAATATATTCATG	0.403													54	175					0	0	0.01441	0	0		G	154736649	G	G	154736649	3	3	143	1	0	0	0	0	1	0	0	0	16257	101	4	3	512	3	TMLHE	23	154736649	Missense_Mutation	SNP	A	TCGA-CG-4474-01A-02D-1158-08	973254	154736649	533911	110	76358											
SFRS11	9295	broad.mit.edu	37	chr1	70716454	70716454	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaaagtgaatggggatgAtcatcatgaagaagacatgg	16	8	12	5	0	2	5	2	3	0	2	3	6	3	6	1	3	0	0	1	3	4	0			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr1:70716454A>G	uc001des.2	+	13	1545	c.1421A>G	c.(1420-1422)GAT>GGT	p.D474G	SFRS11_uc001det.2_Missense_Mutation_p.D473G|SFRS11_uc001dev.2_Missense_Mutation_p.D284G|SFRS11_uc001dew.2_Missense_Mutation_p.D414G	NM_004768	NP_004759	Q05519	SRS11_HUMAN	splicing factor, arginine/serine-rich 11	474					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0						AATGGGGATGATCATCATGAA	0.403													45	104					0	0	0.870114	0	0		G	70716454	G	G	70716454	3	3	144	1	0	0	0	0	1	0	0	0	14191	333	12	3	1467	3	SFRS11	1	70716454	Missense_Mutation	SNP	A	TCGA-CG-4475-01A-01D-1158-08		70716454	178534167	1	76359											
FLG	2312	broad.mit.edu	37	chr1	152283872	152283872	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgggtgtgcacgaatggTgtcctgaccctcttgggacg	5	9	14	13	3	1	1	0	1	1	0	2	3	2	2	4	3	1	1	4	3	1	1			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr1:152283872T>G	uc001ezu.1	-	3	3526	c.3490A>C	c.(3490-3492)ACC>CCC	p.T1164P	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1164	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCACGAATGGTGTCCTGACCC	0.607									Ichthyosis				60	714					0	0	0.870114	0	0		G	152283872	G	G	152283872	3	3	144	1	0	0	0	0	1	0	0	0	5936	1696	59	5	8699	5	FLG	1	152283872	Missense_Mutation	SNP	T	TCGA-CG-4475-01A-01D-1158-08	81567418	152283872	96966749	2	76360											
ASH1L	55870	broad.mit.edu	37	chr1	155449351	155449351	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctgagagcaaataggtgatgGaagaatctcagaactactag	16	8	11	6	0	1	4	1	2	1	3	2	6	1	5	0	2	3	1	0	2	7	3			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr1:155449351G>C	uc009wqq.2	-	3	3790	c.3310C>G	c.(3310-3312)CCA>GCA	p.P1104A	ASH1L_uc001fkt.2_Missense_Mutation_p.P1104A|ASH1L_uc009wqr.1_Missense_Mutation_p.P1104A	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1104					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			ATAGGTGATGGAAGAATCTCA	0.473													139	92					0	0	0.870114	0	0		C	155449351	C	C	155449351	3	2	144	1	0	0	0	0	1	0	0	0	1042	1174	41	5	5688	5	ASH1L	1	155449351	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08	3165479	155449351	93801270	3	76361											
ASH1L	55870	broad.mit.edu	37	chr1	155450163	155450163	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccagttgaggcatctccttaGatttaggccttcctcttttg	6	16	8	11	0	2	2	0	1	2	1	4	2	3	2	4	2	0	2	4	2	2	7			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr1:155450163G>C	uc009wqq.2	-	3	2978	c.2498C>G	c.(2497-2499)TCT>TGT	p.S833C	ASH1L_uc001fkt.2_Missense_Mutation_p.S833C|ASH1L_uc009wqr.1_Missense_Mutation_p.S833C	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	833					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			CATCTCCTTAGATTTAGGCCT	0.403													259	299					0	0	0.870114	0	0		C	155450163	C	C	155450163	3	2	144	1	0	0	0	0	1	0	0	0	1042	942	33	5	6500	5	ASH1L	1	155450163	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08	812	155450163	93800458	4	76362											
SIPA1L2	57568	broad.mit.edu	37	chr1	232564213	232564213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagcatcaatttcagaaaatCttctttagacagaacatgtt	16	13	5	7	0	4	3	2	0	2	3	4	3	4	3	0	0	2	2	0	0	6	5			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr1:232564213C>T	uc001hvg.2	-	15	4512	c.4354G>A	c.(4354-4356)GAT>AAT	p.D1452N	SIPA1L2_uc001hvf.2_Missense_Mutation_p.D526N	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1452					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				TTCAGAAAATCTTCTTTAGAC	0.448													11	114					0	0	0.411799	0	0		T	232564213	T	T	232564213	3	4	144	1	0	0	0	0	1	0	0	0	14355	913	32	4	842	4	SIPA1L2	1	232564213	Missense_Mutation	SNP	C	TCGA-CG-4475-01A-01D-1158-08	77114050	232564213	16686408	5	76363											
HEATR1	55127	broad.mit.edu	37	chr1	236718881	236718881	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggggcctgaatgtgacctcGgaaagtttgacaaccatggc	11	8	13	9	1	0	3	0	3	0	0	1	4	0	4	3	4	1	1	3	4	3	1			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr1:236718881G>A	uc001hyd.1	-	40	5849	c.5724C>T	c.(5722-5724)TCC>TCT	p.S1908S	HEATR1_uc009xgh.1_Silent_p.S1070S	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1908					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			ATGTGACCTCGGAAAGTTTGA	0.413													17	84					0	0	0.592651	0	0		A	236718881	A	A	236718881	2	1	144	1	0	0	0	0	0	0	0	1	7043	1103	39	1		1	HEATR1	1	236718881	Silent	SNP	G	TCGA-CG-4475-01A-01D-1158-08	4154668	236718881	12531740	6	76364											
TFB2M	64216	broad.mit.edu	37	chr1	246727680	246727680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aataaaagttttgtcactttCgagcgcaaccactttggcac	12	12	7	10	2	1	0	1	0	0	0	2	1	1	0	1	1	2	3	1	1	4	5			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr1:246727680C>T	uc001ibn.2	-	2	495	c.370G>A	c.(370-372)GAA>AAA	p.E124K	CNST_uc001ibo.3_5'Flank|CNST_uc001ibp.2_5'Flank|TFB2M_uc010pys.1_RNA	NM_022366	NP_071761	Q9H5Q4	TFB2M_HUMAN	transcription factor B2, mitochondrial	124					positive regulation of transcription, DNA-dependent|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity|transcription cofactor activity			ovary(1)	1	all_cancers(71;4.25e-05)|all_epithelial(71;4.92e-06)|Ovarian(71;0.0254)|all_lung(81;0.0272)|Breast(184;0.0318)|Lung NSC(105;0.0376)		OV - Ovarian serous cystadenocarcinoma(106;0.00358)			TTGTCACTTTCGAGCGCAACC	0.378													26	123					0	0	0.717897	0	0		T	246727680	T	T	246727680	3	4	144	1	0	0	0	0	1	0	0	0	15819	893	31	1	848	1	TFB2M	1	246727680	Missense_Mutation	SNP	C	TCGA-CG-4475-01A-01D-1158-08	10008799	246727680	2522941	7	76365											
OR2M3	127062	broad.mit.edu	37	chr1	248366472	248366472	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttctggtcctggccatcTtttcagtggccttcatggga	4	16	10	11	0	5	0	2	0	3	0	6	1	6	1	3	4	0	0	3	4	0	4			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr1:248366472T>C	uc010pzg.1	+	1	103	c.103T>C	c.(103-105)TTT>CTT	p.F35L		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CCTGGCCATCTTTTCAGTGGC	0.542													67	293					0	0	0.870114	0	0		C	248366472	C	C	248366472	3	2	144	1	0	0	0	0	1	0	0	0	11030	1609	56	3	105	3	OR2M3	1	248366472	Missense_Mutation	SNP	T	TCGA-CG-4475-01A-01D-1158-08	1638792	248366472	884149	8	76366			1	35		2	2	27	N	TG_T	4.955179e-05
OR2M3	127062	broad.mit.edu	37	chr1	248366498	248366499	+	Missense_Mutation	DNP	TG	CA	CA																															gtggccttcatgggaaactcTgtcatggttctcctcatcta																								rs112063580		TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr1:248366498_248366499TG>CA	uc010pzg.1	+	1	129_130	c.129_130TG>CA	c.(127-132)TCTGTC>TCCATC	p.V44I		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	44	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TGGGAAACTCTGTCATGGTTCT	0.55													68	316					0	0	0.115264	0	0		CA	248366499	CA	CA	248366498	3	2	144	1	0	0	0	0	1	0	0	0	11030	1567	55	3	131	3	OR2M3	1	248366498	Missense_Mutation	DNP	TG	TCGA-CG-4475-01A-01D-1158-08	26	248366498	884123	9	76367			1	35		2	2	27	N	TG_T	4.955179e-05
OR2M7	391196	broad.mit.edu	37	chr1	248487715	248487715	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgggggtgtggagctgggtAtccaggtagatgaggagaac	10	8	19	4	0	0	3	0	1	0	2	1	5	1	4	1	6	2	3	1	6	3	2			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr1:248487715A>G	uc010pzk.1	-	1	156	c.156T>C	c.(154-156)GAT>GAC	p.D52D		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	52	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGAGCTGGGTATCCAGGTAGA	0.527													53	571					0	0	0.870114	0	0		G	248487715	G	G	248487715	2	3	144	1	0	0	0	0	0	0	0	1	11033	446	16	3		3	OR2M7	1	248487715	Silent	SNP	A	TCGA-CG-4475-01A-01D-1158-08	121217	248487715	762906	10	76368											
OR2M7	391196	broad.mit.edu	37	chr1	248487811	248487811	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaaggtgtgggtggggctAtgattgaagattcccaggag	10	9	18	4	0	0	3	0	2	0	1	1	5	1	5	1	6	0	1	1	6	3	3	rs142511770		TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr1:248487811A>G	uc010pzk.1	-	1	60	c.60T>C	c.(58-60)CAT>CAC	p.H20H		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGGTGGGGCTATGATTGAAGA	0.488													12	427					0	0	0.411799	0	0		G	248487811	G	G	248487811	2	3	144	1	0	0	0	0	0	0	0	1	11033	446	16	3		3	OR2M7	1	248487811	Silent	SNP	A	TCGA-CG-4475-01A-01D-1158-08	96	248487811	762810	11	76369											
WDR35	57539	broad.mit.edu	37	chr2	20135333	20135333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctaagcgttcctggttccGtccttgtacataatattgta	9	15	8	9	2	0	0	0	0	0	0	3	0	3	0	3	1	3	5	3	1	5	9			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr2:20135333G>A	uc002rdi.2	-	22	2587	c.2479C>T	c.(2479-2481)CGG>TGG	p.R827W	WDR35_uc002rdj.2_Missense_Mutation_p.R816W|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Missense_Mutation_p.R392W|WDR35_uc002rdk.3_Missense_Mutation_p.R392W	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	827										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCTGGTTCCGTCCTTGTACA	0.358													38	68					0	0	0.812448	0	0		A	20135333	A	A	20135333	3	1	144	1	0	0	0	0	1	0	0	0	17315	1144	40	1	1094	1	WDR35	2	20135333	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08		20135333	223064040	12	76370											
NRXN1	9378	broad.mit.edu	37	chr2	50724576	50724576	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaaaaagatgcatagaaGtgtaggcttgcaaggtagct	16	8	13	4	0	0	2	0	0	0	2	0	3	0	3	0	3	3	6	0	3	8	4			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr2:50724576G>T	uc010fbq.2	-	14	4371	c.2894C>A	c.(2893-2895)ACT>AAT	p.T965N	NRXN1_uc002rxb.3_Missense_Mutation_p.T597N|NRXN1_uc002rxe.3_Missense_Mutation_p.T925N|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			ATGCATAGAAGTGTAGGCTTG	0.398													23	100					3.08376e-08	3.19798e-08	0.654019	1	0		T	50724576	T	T	50724576	3	4	144	1	0	0	0	0	1	0	0	0	10684	1029	36	5	2052	5	NRXN1	2	50724576	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08	30589243	50724576	192474797	13	76371											
TTN	7273	broad.mit.edu	37	chr2	179543553	179543553	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggtttcttgggcacttcAggaacttcaaagatatcaaa	14	11	8	8	0	4	1	3	0	1	1	4	2	4	2	0	3	1	2	0	3	4	5			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr2:179543553A>G	uc010zfg.1	-	140	30239	c.30015T>C	c.(30013-30015)CCT>CCC	p.P10005P	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.P6666P|TTN_uc010fre.1_Silent_p.P662P|TTN_uc002una.1_RNA|TTN_uc010frf.1_RNA	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10932							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGGCACTTCAGGAACTTCAA	0.418													48	61					0	0	0.870114	0	0		G	179543553	G	G	179543553	2	3	144	1	0	0	0	0	0	0	0	1	16761	175	7	3		3	TTN	2	179543553	Silent	SNP	A	TCGA-CG-4475-01A-01D-1158-08	128818977	179543553	63655820	14	76372											
COL3A1	1281	broad.mit.edu	37	chr2	189859318	189859318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccggaccacgtggtgaaCgcgtaagttttactgcaaca	11	8	11	11	4	0	1	0	1	0	0	0	2	0	2	2	2	5	3	2	2	4	3			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr2:189859318C>T	uc002uqj.1	+	19	1462	c.1345C>T	c.(1345-1347)CGC>TGC	p.R449C		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	449	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding	p.R449C(1)		central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	ACGTGGTGAACGCGTAAGTTT	0.388													44	45					0	0	0.870114	0	0		T	189859318	T	T	189859318	3	4	144	1	0	0	0	0	1	0	0	0	3691	536	19	1	1419	1	COL3A1	2	189859318	Missense_Mutation	SNP	C	TCGA-CG-4475-01A-01D-1158-08	10315765	189859318	53340055	15	76373											
ATP2C1	27032	broad.mit.edu	37	chr3	130698260	130698260	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaggagactgcagttgcaAtcggtataactagactgctt	12	10	10	9	1	0	2	0	0	0	2	1	3	0	2	0	2	4	5	0	2	4	5			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr3:130698260A>G	uc003enl.2	+	19	1960	c.1738A>G	c.(1738-1740)ATC>GTC	p.I580V	ATP2C1_uc011blg.1_Missense_Mutation_p.I614V|ATP2C1_uc011blh.1_Missense_Mutation_p.I575V|ATP2C1_uc011bli.1_Missense_Mutation_p.I614V|ATP2C1_uc003enk.2_Missense_Mutation_p.I564V|ATP2C1_uc003enm.2_Missense_Mutation_p.I580V|ATP2C1_uc003enn.2_Missense_Mutation_p.I564V|ATP2C1_uc003eno.2_Missense_Mutation_p.I580V|ATP2C1_uc003enp.2_Missense_Mutation_p.I580V|ATP2C1_uc003enq.2_Missense_Mutation_p.I580V|ATP2C1_uc003enr.2_Missense_Mutation_p.I580V|ATP2C1_uc003ens.2_Missense_Mutation_p.I580V|ATP2C1_uc003ent.2_Missense_Mutation_p.I580V|ATP2C1_uc003enu.2_Missense_Mutation_p.I258V	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	580	Cytoplasmic (By similarity).		I -> V (in HDD; unable to undergo conformational change necessary for ion transport).		actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	TGCAGTTGCAATCGGTATAAC	0.343									Hailey-Hailey_disease				27	130					0	0	0.681144	0	0		G	130698260	G	G	130698260	3	3	144	1	0	0	0	0	1	0	0	0	1144	101	4	3	1808	3	ATP2C1	3	130698260	Missense_Mutation	SNP	A	TCGA-CG-4475-01A-01D-1158-08		130698260	67324170	16	76374											
GRID2	2895	broad.mit.edu	37	chr4	94436498	94436498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtattcccaaatgtggcGgatgatcaaccgaagcaatg	13	9	10	9	2	1	1	1	1	0	0	2	3	2	2	2	2	2	2	2	2	5	2			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr4:94436498G>A	uc011cdt.1	+	13	2387	c.2129G>A	c.(2128-2130)CGG>CAG	p.R710Q	GRID2_uc011cdu.1_Missense_Mutation_p.R615Q	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	710	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CAAATGTGGCGGATGATCAAC	0.473													24	70					0	0	0.740014	0	0		A	94436498	A	A	94436498	3	1	144	1	0	0	0	0	1	0	0	0	6788	1116	39	1	2179	1	GRID2	4	94436498	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08		94436498	96717778	17	76375											
MTRR	4552	broad.mit.edu	37	chr5	7869264	7869264	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatgggcgctgcgtcagtGcgcgctggcgcaaggttggt	5	8	18	10	5	1	0	1	0	0	0	1	0	1	0	0	4	3	5	0	4	1	1			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr5:7869264G>T	uc003jed.2	+	1	48	c.18G>T	c.(16-18)GTG>GTT	p.V6V	FASTKD3_uc011cmp.1_5'Flank|FASTKD3_uc003jeb.2_5'Flank|FASTKD3_uc003jec.2_5'Flank|MTRR_uc010itn.1_RNA|MTRR_uc003jee.3_5'UTR|MTRR_uc003jef.3_RNA|MTRR_uc003jeg.3_RNA|MTRR_uc010ito.2_RNA	NM_024010	NP_076915	Q9UBK8	MTRR_HUMAN	methionine synthase reductase isoform 2	6					methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	CTGCGTCAGTGCGCGCTGGCG	0.672													67	234					2.03652e-46	2.19318e-46	0.870114	1	0		T	7869264	T	T	7869264	2	4	144	1	0	0	0	0	0	0	0	1	9979	1306	46	5		5	MTRR	5	7869264	Silent	SNP	G	TCGA-CG-4475-01A-01D-1158-08		7869264	173045996	18	76376											
HMGCS1	3157	broad.mit.edu	37	chr5	43294196	43294196	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactttaagagagtacagaGtggcagccaaaccagaacca	16	6	10	9	0	0	4	0	1	0	3	0	5	0	4	3	1	4	2	3	1	4	3			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr5:43294196G>C	uc003jnr.3	-	8	1352	c.1145C>G	c.(1144-1146)ACT>AGT	p.T382S	HMGCS1_uc003jnp.3_Missense_Mutation_p.T63S|HMGCS1_uc003jnq.3_Missense_Mutation_p.T382S	NM_001098272	NP_001091742	Q01581	HMCS1_HUMAN	hydroxymethylglutaryl-CoA synthase 1	382					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|soluble fraction	hydroxymethylglutaryl-CoA synthase activity				0						AGAGTACAGAGTGGCAGCCAA	0.373													37	58					0	0	0.870114	0	0		C	43294196	C	C	43294196	3	2	144	1	0	0	0	0	1	0	0	0	7248	1029	36	5	433	5	HMGCS1	5	43294196	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08	35424932	43294196	137621064	19	76377											
PCDHGA10	56106	broad.mit.edu	37	chr5	140792994	140792994	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttctctctgaacccgcgCagcggcagcttgatcaccgc	6	10	9	16	4	3	2	1	2	2	0	4	2	3	2	2	1	3	3	2	1	1	3			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr5:140792994C>T	uc003lkl.1	+	1	252	c.252C>T	c.(250-252)CGC>CGT	p.R84R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Silent_p.R84R	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	84	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAACCCGCGCAGCGGCAGCT	0.627													19	168					0	0	0.796494	0	0		T	140792994	T	T	140792994	2	4	144	1	0	0	0	0	0	0	0	1	11570	697	25	2		2	PCDHGA10	5	140792994	Silent	SNP	C	TCGA-CG-4475-01A-01D-1158-08	97498798	140792994	40122266	20	76378											
SPRY4	81848	broad.mit.edu	37	chr5	141694444	141694444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtcacagcgggcgggcGtcggggccagctctggggcc	3	5	19	14	4	2	0	1	0	1	0	3	0	2	0	3	7	2	1	3	7	0	0			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr5:141694444G>A	uc003lml.2	-	2	489	c.230C>T	c.(229-231)ACG>ATG	p.T77M	SPRY4_uc010jgi.1_Missense_Mutation_p.T100M	NM_001127496	NP_001120968	Q9C004	SPY4_HUMAN	sprouty homolog 4 isoform 2	77					multicellular organismal development	cytoplasm|ruffle membrane	protein binding			ovary(1)|lung(1)	2		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGGGCGGGCGTCGGGGCCAG	0.657									Testicular_Cancer_Familial_Clustering_of				36	35					0	0	0.796494	0	0		A	141694444	A	A	141694444	3	1	144	1	0	0	0	0	1	0	0	0	15133	1145	40	1	673	1	SPRY4	5	141694444	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08	901450	141694444	39220816	21	76379											
FAT2	2196	broad.mit.edu	37	chr5	150934214	150934214	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggacttcagtgagggttcCccattgtccagcacagtcac	8	10	11	12	0	2	1	2	1	0	0	4	2	4	2	3	2	1	2	3	2	0	3			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr5:150934214C>A	uc003lue.3	-	4	3667	c.3654G>T	c.(3652-3654)GGG>GGT	p.G1218G	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1218	Extracellular (Potential).|Cadherin 10.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GTGAGGGTTCCCCATTGTCCA	0.488													61	115					3.95532e-38	4.20566e-38	0.870114	1	0		A	150934214	A	A	150934214	2	1	144	1	0	0	0	0	0	0	0	1	5704	610	22	5		5	FAT2	5	150934214	Silent	SNP	C	TCGA-CG-4475-01A-01D-1158-08	9239770	150934214	29981046	22	76380											
NOTCH4	4855	broad.mit.edu	37	chr6	32172008	32172008	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggctggtccagacactcGtccacgtctccctcacagcg	7	7	10	17	3	2	1	1	0	1	1	6	1	4	1	3	2	1	1	3	2	0	0			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr6:32172008G>A	uc003obb.2	-	19	3163	c.3024C>T	c.(3022-3024)GAC>GAT	p.D1008D	NOTCH4_uc003oba.2_5'Flank|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1008	Extracellular (Potential).|EGF-like 26.				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						CCAGACACTCGTCCACGTCTC	0.607													5	62					0	0	0.184627	0	0		A	32172008	A	A	32172008	2	1	144	1	0	0	0	0	0	0	0	1	10570	1136	40	1		1	NOTCH4	6	32172008	Silent	SNP	G	TCGA-CG-4475-01A-01D-1158-08		32172008	138943059	23	76381											
GJA10	84694	broad.mit.edu	37	chr6	90605698	90605698	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggatgctttctttttcCtttctttcttcctggggtgt	1	23	8	9	0	4	0	0	0	4	0	6	1	6	1	2	3	1	1	2	3	0	7			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr6:90605698C>G	uc011eaa.1	+	1	1511	c.1511C>G	c.(1510-1512)CCT>CGT	p.P504R		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	504	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		TTTCTTTTTCCTTTCTTTCTT	0.428													42	99					0	0	0.859065	0	0		G	90605698	G	G	90605698	3	3	144	1	0	0	0	0	1	0	0	0	6416	681	24	5	1513	5	GJA10	6	90605698	Missense_Mutation	SNP	C	TCGA-CG-4475-01A-01D-1158-08	58433690	90605698	80509369	24	76382											
PTPRK	5796	broad.mit.edu	37	chr6	128298175	128298175	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagggtattgtgtgacgaTgaaagcagctggttgcctgt	9	11	15	6	1	0	3	0	2	0	1	0	4	0	3	1	2	3	4	1	2	2	3			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr6:128298175T>A	uc003qbk.2	-	26	4100	c.3733A>T	c.(3733-3735)ATC>TTC	p.I1245F	PTPRK_uc003qbj.2_Missense_Mutation_p.I1246F|PTPRK_uc010kfc.2_Missense_Mutation_p.I1252F|PTPRK_uc011ebu.1_Missense_Mutation_p.I1268F	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	1245	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		TGTGTGACGATGAAAGCAGCT	0.383													75	134					0	0	0.870114	0	0		A	128298175	A	A	128298175	3	1	144	1	0	0	0	0	1	0	0	0	12830	1464	51	5	606	5	PTPRK	6	128298175	Missense_Mutation	SNP	T	TCGA-CG-4475-01A-01D-1158-08	37692477	128298175	42816892	25	76383											
MAP3K4	4216	broad.mit.edu	37	chr6	161470483	161470483	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggacagggtgcaggcactCtgtttgtggttaaacatcac	10	10	12	9	0	2	0	1	0	1	0	2	1	2	1	0	4	2	4	0	4	2	2			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr6:161470483C>T	uc003qtn.2	+	3	1321	c.1179C>T	c.(1177-1179)CTC>CTT	p.L393L	MAP3K4_uc010kkc.1_Silent_p.L393L|MAP3K4_uc003qto.2_Silent_p.L393L|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_5'UTR	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	393					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		TGCAGGCACTCTGTTTGTGGT	0.408													27	140					0	0	0.693898	0	0		T	161470483	T	T	161470483	2	4	144	1	0	0	0	0	0	0	0	1	9270	900	32	4		4	MAP3K4	6	161470483	Silent	SNP	C	TCGA-CG-4475-01A-01D-1158-08	33172308	161470483	9644584	26	76384											
PEG10	23089	broad.mit.edu	37	chr7	94293463	94293463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaggacctggattggaacGagcctgcgctgattgaccag	9	7	13	12	2	0	2	0	2	0	0	0	6	0	5	4	3	3	1	4	3	1	2			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr7:94293463G>A	uc011kie.1	+	2	1040	c.823G>A	c.(823-825)GAG>AAG	p.E275K		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	199	Necessary for interaction with ALK1.				apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			GGATTGGAACGAGCCTGCGCT	0.582													43	751					0	0	0.864702	0	0		A	94293463	A	A	94293463	3	1	144	1	0	0	0	0	1	0	0	0	11738	1059	37	1	829	1	PEG10	7	94293463	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08		94293463	64845200	27	76385											
TEX15	56154	broad.mit.edu	37	chr8	30695201	30695201	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgggtgggatctggggAatttttaagaaatttctgca	9	17	12	3	0	2	1	0	0	2	1	2	3	2	3	0	4	1	1	0	4	3	6			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr8:30695201A>T	uc003xil.2	-	3	7450	c.7450T>A	c.(7450-7452)TCC>ACC	p.S2484T		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2484										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		GGATCTGGGGAATTTTTAAGA	0.413													53	163					0	0	0.870114	0	0		T	30695201	T	T	30695201	3	4	144	1	0	0	0	0	1	0	0	0	15804	246	9	5	927	5	TEX15	8	30695201	Missense_Mutation	SNP	A	TCGA-CG-4475-01A-01D-1158-08		30695201	115668821	28	76386											
OSGIN2	734	broad.mit.edu	37	chr8	90937575	90937575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	catgtaagggtaatcctgtgGaaatagatacatatacctat	15	12	8	6	0	0	1	0	0	0	1	1	2	1	2	2	2	2	2	2	2	8	7			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr8:90937575G>A	uc003yeg.2	+	6	1679	c.1333G>A	c.(1333-1335)GAA>AAA	p.E445K	OSGIN2_uc003yeh.2_Missense_Mutation_p.E489K	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	445					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			TAATCCTGTGGAAATAGATAC	0.403													86	374					0	0	0.870114	0	0		A	90937575	A	A	90937575	3	1	144	1	0	0	0	0	1	0	0	0	11309	1175	41	4	1487	4	OSGIN2	8	90937575	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08	60242374	90937575	55426447	29	76387											
VPS13B	157680	broad.mit.edu	37	chr8	100673652	100673652	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagacagtgcctggagaaatAgacagcaaaagtggtattcc	15	7	11	8	0	0	3	0	0	0	3	1	4	1	3	2	2	2	2	2	2	5	3			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr8:100673652A>T	uc003yiv.2	+	35	6165	c.6054A>T	c.(6052-6054)ATA>ATT	p.I2018I	VPS13B_uc003yiw.2_Silent_p.I1993I	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2018					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CTGGAGAAATAGACAGCAAAA	0.373													20	194					0	0	0.592651	0	0		T	100673652	T	T	100673652	2	4	144	1	0	0	0	0	0	0	0	1	17216	410	15	5		5	VPS13B	8	100673652	Silent	SNP	A	TCGA-CG-4475-01A-01D-1158-08	9736077	100673652	45690370	30	76388											
ZFPM2	23414	broad.mit.edu	37	chr8	106815406	106815406	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgaagaaagattctctGccattgttgcccaaaaatcg	12	10	9	10	2	1	3	0	1	1	2	3	3	1	3	2	0	2	2	2	0	4	3			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr8:106815406G>A	uc003ymd.2	+	8	3119	c.3096G>A	c.(3094-3096)CTG>CTA	p.L1032L	ZFPM2_uc011lhs.1_Silent_p.L763L	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	1032					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AAGATTCTCTGCCATTGTTGC	0.458													31	41					0	0	0.729181	0	0		A	106815406	A	A	106815406	2	1	144	1	0	0	0	0	0	0	0	1	17683	1306	46	2		2	ZFPM2	8	106815406	Silent	SNP	G	TCGA-CG-4475-01A-01D-1158-08	6141754	106815406	39548616	31	76389											
CSMD3	114788	broad.mit.edu	37	chr8	114186043	114186043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccatcaaggatgtatccaGttacacagctgtagcggatc	11	9	11	10	1	1	0	1	0	0	0	3	2	2	2	2	3	3	4	2	3	4	3			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr8:114186043G>A	uc003ynu.2	-	4	776	c.617C>T	c.(616-618)ACT>ATT	p.T206I	CSMD3_uc003ynt.2_Missense_Mutation_p.T166I|CSMD3_uc011lhx.1_Missense_Mutation_p.T206I|CSMD3_uc010mcx.1_Missense_Mutation_p.T206I	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	206	Extracellular (Potential).|Sushi 1.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GATGTATCCAGTTACACAGCT	0.468										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			20	293					0	0	0.639603	0	0		A	114186043	A	A	114186043	3	1	144	1	0	0	0	0	1	0	0	0	3949	1029	36	4	10778	4	CSMD3	8	114186043	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08	7370637	114186043	32177979	32	76390											
PUF60	22827	broad.mit.edu	37	chr8	144902846	144902846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctattgaccgattgcaaaGgtgagagaggatctccaaag	13	10	11	7	1	2	3	0	2	2	1	3	6	2	4	2	2	1	1	2	2	3	4			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr8:144902846G>A	uc003yzs.2	-	5	402	c.338C>T	c.(337-339)CCT>CTT	p.P113L	PUF60_uc003yzr.2_Intron|PUF60_uc003yzt.2_Intron|PUF60_uc003yzq.2_Missense_Mutation_p.P70L|PUF60_uc003yzu.1_Missense_Mutation_p.P102L	NM_078480	NP_510965	Q9UHX1	PUF60_HUMAN	poly-U binding splicing factor 60KDa isoform a	113	Inhibits homodimerization.|Inhibits transcriptional repression, interaction with ERCC3 and apoptosis induction.				apoptosis|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleus|ribonucleoprotein complex	DNA binding|nucleotide binding|protein binding|RNA binding				0	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			CGATTGCAAAGGTGAGAGAGG	0.552													12	433					0	0	0.435327	0	0		A	144902846	A	A	144902846	3	1	144	1	0	0	0	0	1	0	0	0	12849	1000	35	4	1373	4	PUF60	8	144902846	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08	30716803	144902846	1461176	33	76391											
SHARPIN	81858	broad.mit.edu	37	chr8	145154720	145154720	+	Frame_Shift_Del	DEL	G	-	-																															tctcgtctccacctgcaataGcccgggccaggctccctgcc																										TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr8:145154720delG	uc003zba.2	-	4	1029	c.545delC	c.(544-546)GCTfs	p.A182fs	SHARPIN_uc003zbb.2_RNA	NM_030974	NP_112236	Q9H0F6	SHRPN_HUMAN	shank-interacting protein-like 1	182	Interaction with SHANK1 (By similarity).				negative regulation of inflammatory response|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein linear polyubiquitination|regulation of CD40 signaling pathway|regulation of tumor necrosis factor-mediated signaling pathway	cytosol|LUBAC complex	polyubiquitin binding|zinc ion binding			ovary(1)	1	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.1e-42)|Epithelial(56;1.58e-40)|all cancers(56;6.12e-36)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ACCTGCAATAGCCCGGGCCAG	0.642													75	143	---	---	---	---						.	-	145154720	-	-	145154720	7	5	144	1	0	1	0	1	0	0	0	0	14292	971	34	0	638	0	SHARPIN	8	145154720	Frame_Shift_Del	DEL	G	TCGA-CG-4475-01A-01D-1158-08	251874	145154720	1209302	34	76392											
GSN	2934	broad.mit.edu	37	chr9	124094717	124094717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgtgtgtctgcagctaagCggtacatcgagacggaccca	10	7	12	12	4	1	1	0	0	1	1	2	3	1	2	1	2	4	3	1	2	2	2			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr9:124094717C>T	uc004blf.1	+	17	2246	c.2185C>T	c.(2185-2187)CGG>TGG	p.R729W	GSN_uc004bld.1_Missense_Mutation_p.R678W|GSN_uc010mvq.1_Missense_Mutation_p.R689W|GSN_uc010mvr.1_Missense_Mutation_p.R689W|GSN_uc010mvu.1_Missense_Mutation_p.R678W|GSN_uc010mvt.1_Missense_Mutation_p.R678W|GSN_uc010mvs.1_Missense_Mutation_p.R678W|GSN_uc004ble.1_Missense_Mutation_p.R678W|GSN_uc010mvv.1_Missense_Mutation_p.R678W|GSN_uc011lyh.1_Missense_Mutation_p.R695W|GSN_uc011lyi.1_Missense_Mutation_p.R678W|GSN_uc011lyj.1_Missense_Mutation_p.R702W	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	729	Actin-binding, Ca-sensitive (Potential).				actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						TGCAGCTAAGCGGTACATCGA	0.572											OREG0019445	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	121					0	0	0.827153	0	0		T	124094717	T	T	124094717	3	4	144	1	0	0	0	0	1	0	0	0	6841	759	27	1	2279	1	GSN	9	124094717	Missense_Mutation	SNP	C	TCGA-CG-4475-01A-01D-1158-08		124094717	17118714	35	76393											
LAMC3	10319	broad.mit.edu	37	chr9	133948214	133948214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatgcagctgccattctcGcgtctctggtatcccagggg	5	11	12	13	2	2	0	0	0	2	0	5	0	3	0	2	3	4	4	2	3	1	2	rs149766298	byFrequency	TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr9:133948214G>A	uc004caa.1	+	19	3507	c.3409G>A	c.(3409-3411)GCG>ACG	p.A1137T		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	1137	Domain II and I.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		TGCCATTCTCGCGTCTCTGGT	0.443													7	16					0	0	0.307466	0	0		A	133948214	A	A	133948214	3	1	144	1	0	0	0	0	1	0	0	0	8632	1087	38	1	3483	1	LAMC3	9	133948214	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08	9853497	133948214	7265217	36	76394											
BAT2L1	84726	broad.mit.edu	37	chr9	134319661	134319661	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggcaggacaaggctggcaaaGaaaagggcgtcttagatctg	13	6	15	7	1	2	2	0	0	2	2	2	3	2	3	0	5	0	3	0	5	5	1			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr9:134319661G>C	uc004can.3	+	5	614	c.559G>C	c.(559-561)GAA>CAA	p.E187Q	BAT2L1_uc004cam.1_Missense_Mutation_p.E187Q	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	187							protein binding				0						GGCTGGCAAAGAAAAGGGCGT	0.547													5	45					0	0	0.217242	0	0		C	134319661	C	C	134319661	3	2	144	1	0	0	0	0	1	0	0	0	1321	943	33	5	577	5	BAT2L1	9	134319661	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08	371447	134319661	6893770	37	76395			2	36		2	2	16	G		2.858787e-05
BAT2L1	84726	broad.mit.edu	37	chr9	134319676	134319676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaaagaaaagggcgtcttaGatctgtcgtatgggccagga	12	8	14	7	2	2	2	0	0	2	2	3	3	2	3	1	3	0	2	1	3	5	2			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr9:134319676G>A	uc004can.3	+	5	629	c.574G>A	c.(574-576)GAT>AAT	p.D192N	BAT2L1_uc004cam.1_Missense_Mutation_p.D192N	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	192							protein binding				0						GGGCGTCTTAGATCTGTCGTA	0.557													5	32					0	0	0.217242	0	0		A	134319676	A	A	134319676	3	1	144	1	0	0	0	0	1	0	0	0	1321	942	33	4	592	4	BAT2L1	9	134319676	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08	15	134319676	6893755	38	76396			2	36		2	2	16	G		2.858787e-05
MYST4	23522	broad.mit.edu	37	chr10	76789623	76789623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagcacaactgagaactacGaaaacccaagcagctacgat	18	4	8	11	2	0	2	0	1	0	2	0	5	0	2	1	0	8	3	1	0	7	2			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr10:76789623G>A	uc001jwn.1	+	18	5534	c.5041G>A	c.(5041-5043)GAA>AAA	p.E1681K	MYST4_uc001jwo.1_Missense_Mutation_p.E1389K|MYST4_uc001jwp.1_Missense_Mutation_p.E1498K	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1681	Ser-rich.|Interaction with RUNX1 and RUNX2.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					TGAGAACTACGAAAACCCAAG	0.493			T	CREBBP	AML								45	82					0	0	0.870114	0	0		A	76789623	A	A	76789623	3	1	144	1	0	0	0	0	1	0	0	0	10123	1059	37	1	5103	1	MYST4	10	76789623	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08		76789623	58745124	39	76397											
MTNR1B	4544	broad.mit.edu	37	chr11	92702951	92702951	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggtgggcagtgcgcccGggctggtcgggggctggcag	2	5	24	10	4	0	0	0	0	0	0	1	0	0	0	1	8	1	4	1	8	0	0			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr11:92702951G>A	uc001pdk.1	+	1	163	c.60G>A	c.(58-60)CCG>CCA	p.P20P		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	20	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	CAGTGCGCCCGGGCTGGTCGG	0.741													6	18					0	0	0.248553	0	0		A	92702951	A	A	92702951	2	1	144	1	0	0	0	0	0	0	0	1	9970	1103	39	1		1	MTNR1B	11	92702951	Silent	SNP	G	TCGA-CG-4475-01A-01D-1158-08		92702951	42303565	40	76398											
C11orf87	399947	broad.mit.edu	37	chr11	109294681	109294681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgagcgggatcactgcagcGgcagccgcggtggcgggggg	6	4	21	10	5	1	1	1	1	0	0	1	2	1	2	1	7	4	2	1	7	0	0			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr11:109294681G>A	uc001pkn.2	+	2	696	c.322G>A	c.(322-324)GGC>AGC	p.G108S	C11orf87_uc010rwb.1_5'Flank	NM_207645	NP_997528	Q6NUJ2	CK087_HUMAN	hypothetical protein LOC399947 precursor	108	Cytoplasmic (Potential).					integral to membrane				ovary(2)	2						TCACTGCAGCGGCAGCCGCGG	0.647													23	111					0	0	0.729181	0	0		A	109294681	A	A	109294681	3	1	144	1	0	0	0	0	1	0	0	0	1672	1116	39	1	324	1	C11orf87	11	109294681	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08	16591730	109294681	25711835	41	76399											
PRPH	5630	broad.mit.edu	37	chr12	49690240	49690240	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgatgccactctgtcccGcctggaactagagcgcaaga	10	6	12	13	3	1	2	0	0	1	2	2	5	2	4	3	2	3	1	3	2	3	1			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr12:49690240G>T	uc001rtu.2	+	3	707	c.632G>T	c.(631-633)CGC>CTC	p.R211L		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	211	Coil 1B.|Rod.						structural molecule activity				0						ACTCTGTCCCGCCTGGAACTA	0.572													9	38					4.68919e-08	4.80356e-08	0.361761	1	0		T	49690240	T	T	49690240	3	4	144	1	0	0	0	0	1	0	0	0	12598	1087	38	5	642	5	PRPH	12	49690240	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08		49690240	84161655	42	76400											
ESPL1	9700	broad.mit.edu	37	chr12	53673625	53673625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catcacccagctcctcctgaCcctcggctgtcccagctatg	6	9	7	19	1	1	1	1	1	0	0	5	1	4	1	5	1	2	3	5	1	1	1			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr12:53673625C>T	uc001sck.2	+	12	2565	c.2474C>T	c.(2473-2475)ACC>ATC	p.T825I	ESPL1_uc001scj.2_Missense_Mutation_p.T500I|ESPL1_uc010soe.1_Missense_Mutation_p.T36I	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	825					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CTCCTCCTGACCCTCGGCTGT	0.622													28	122					0	0	0.819951	0	0		T	53673625	T	T	53673625	3	4	144	1	0	0	0	0	1	0	0	0	5261	507	18	4	2516	4	ESPL1	12	53673625	Missense_Mutation	SNP	C	TCGA-CG-4475-01A-01D-1158-08	3983385	53673625	80178270	43	76401											
ZFC3H1	196441	broad.mit.edu	37	chr12	72038074	72038074	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcttccatgcctttgttTgctgcttcctcaatgcttgt	3	20	7	11	0	2	0	1	0	1	0	4	0	4	0	3	0	4	5	3	0	1	6			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr12:72038074T>A	uc001swo.2	-	5	1663	c.1304A>T	c.(1303-1305)CAA>CTA	p.Q435L		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	435	Potential.				RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						TGCCTTTGTTTGCTGCTTCCT	0.179													10	38					0	0	0.411799	0	0		A	72038074	A	A	72038074	3	1	144	1	0	0	0	0	1	0	0	0	17658	1812	63	5	4789	5	ZFC3H1	12	72038074	Missense_Mutation	SNP	T	TCGA-CG-4475-01A-01D-1158-08	18364449	72038074	61813821	44	76402											
UTP20	27340	broad.mit.edu	37	chr12	101739354	101739354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcagcaggattataccaCaatactttcctgtttaattc	12	16	4	9	0	1	0	1	0	0	0	3	1	2	1	2	1	3	2	2	1	6	9			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr12:101739354C>T	uc001tia.1	+	37	4784	c.4628C>T	c.(4627-4629)ACA>ATA	p.T1543I		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1543					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						GATTATACCACAATACTTTCC	0.308													16	35					0	0	0.520397	0	0		T	101739354	T	T	101739354	3	4	144	1	0	0	0	0	1	0	0	0	17125	478	17	4	4774	4	UTP20	12	101739354	Missense_Mutation	SNP	C	TCGA-CG-4475-01A-01D-1158-08	29701280	101739354	32112541	45	76403											
POMP	51371	broad.mit.edu	37	chr13	29238647	29238647	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttttaatgtcctttcagtTtttcttgtgtgaaaaatgaa	10	21	6	4	0	2	2	1	2	1	0	3	2	3	2	1	0	0	1	1	0	4	7			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr13:29238647T>G	uc001usf.2	+	3	184	c.103T>G	c.(103-105)TTT>GTT	p.F35V		NM_015932	NP_057016	Q9Y244	POMP_HUMAN	proteasome maturation protein	35					proteasome assembly	cytosol|endoplasmic reticulum|membrane|microsome|nucleus|proteasome complex					0		Lung SC(185;0.0367)		all cancers(112;0.141)|OV - Ovarian serous cystadenocarcinoma(117;0.216)		TCCTTTCAGTTTTTCTTGTGT	0.234													17	20					0	0	0.575678	0	0		G	29238647	G	G	29238647	3	3	144	1	0	0	0	0	1	0	0	0	12263	1855	64	5	113	5	POMP	13	29238647	Missense_Mutation	SNP	T	TCGA-CG-4475-01A-01D-1158-08		29238647	85931231	46	76404											
ESD	2098	broad.mit.edu	37	chr13	47351721	47351721	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttagtatgtccagctgagatCctggataggatttcacaagg	11	12	11	7	0	1	1	1	1	0	1	3	4	3	3	2	3	1	2	2	3	4	4			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr13:47351721C>A	uc001vbn.2	-	9	821	c.638G>T	c.(637-639)GGA>GTA	p.G213V	ESD_uc001vbo.2_Missense_Mutation_p.G213V|ESD_uc001vbp.1_Missense_Mutation_p.G71V	NM_001984	NP_001975	P10768	ESTD_HUMAN	esterase D/formylglutathione hydrolase	213						cytoplasmic membrane-bounded vesicle	carboxylesterase activity|S-formylglutathione hydrolase activity			ovary(1)	1		all_lung(13;3.54e-08)|Lung NSC(96;9.1e-06)|Breast(56;0.000148)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)		GBM - Glioblastoma multiforme(144;2.66e-05)	Glutathione(DB00143)	CAGCTGAGATCCTGGATAGGA	0.368													61	86					1.33661e-31	1.40344e-31	0.870114	1	0		A	47351721	A	A	47351721	3	1	144	1	0	0	0	0	1	0	0	0	5258	855	30	5	218	5	ESD	13	47351721	Missense_Mutation	SNP	C	TCGA-CG-4475-01A-01D-1158-08	18113074	47351721	67818157	47	76405											
RTF1	23168	broad.mit.edu	37	chr15	41766890	41766890	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccagaacaaacaaagggCtgcaactacggtaggaggca	16	3	12	10	1	0	1	0	0	0	1	0	2	0	2	1	4	5	5	1	4	6	2			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr15:41766890C>G	uc001zny.2	+	9	1288	c.1276C>G	c.(1276-1278)CTG>GTG	p.L426V		NM_015138	NP_055953	Q92541	RTF1_HUMAN	Paf1/RNA polymerase II complex component	426	Plus3.				histone modification|regulation of transcription, DNA-dependent|transcription initiation, DNA-dependent	nucleoplasm	protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(109;1.79e-19)|all_epithelial(112;8.18e-17)|Lung NSC(122;3.16e-11)|all_lung(180;8.14e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;1.15e-16)|GBM - Glioblastoma multiforme(113;1.81e-06)|BRCA - Breast invasive adenocarcinoma(123;0.119)		AAACAAAGGGCTGCAACTACG	0.517													86	137					0	0	0.870114	0	0		G	41766890	G	G	41766890	3	3	144	1	0	0	0	0	1	0	0	0	13746	796	28	5	1310	5	RTF1	15	41766890	Missense_Mutation	SNP	C	TCGA-CG-4475-01A-01D-1158-08		41766890	60764502	48	76406											
ACSM2A	123876	broad.mit.edu	37	chr16	20497944	20497944	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtcacagggaaaattcaaCgagccaagcttcgagacaag	15	6	10	10	2	2	1	2	0	0	1	3	4	2	2	1	1	3	1	1	1	5	2	rs144468742	byFrequency	TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr16:20497944C>T	uc010bwe.2	+	15	1917	c.1678C>T	c.(1678-1680)CGA>TGA	p.R560*	ACSM2A_uc002dhf.3_Nonsense_Mutation_p.R560*|ACSM2A_uc002dhg.3_Nonsense_Mutation_p.R560*|ACSM2A_uc010vay.1_Nonsense_Mutation_p.R481*|ACSM2A_uc002dhh.3_Nonsense_Mutation_p.R190*|uc002dhi.1_5'Flank	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	560					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						GAAAATTCAACGAGCCAAGCT	0.473													164	257					0	0	0.870114	0	0		T	20497944	T	T	20497944	4	4	144	1	0	0	0	0	0	1	0	0	183	528	19	1	1728	1	ACSM2A	16	20497944	Nonsense_Mutation	SNP	C	TCGA-CG-4475-01A-01D-1158-08		20497944	69856809	49	76407											
MYH3	4621	broad.mit.edu	37	chr17	10546195	10546195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcccgaagtcaatgaacGtccactcgatgccttccttc	9	10	6	16	3	1	1	1	1	0	0	6	3	4	1	5	0	2	0	5	0	3	2			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr17:10546195G>A	uc002gmq.1	-	14	1606	c.1529C>T	c.(1528-1530)ACG>ATG	p.T510M		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	510	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						GTCAATGAACGTCCACTCGAT	0.507													38	197					0	0	0.847076	0	0		A	10546195	A	A	10546195	3	1	144	1	0	0	0	0	1	0	0	0	10054	1145	40	1	4401	1	MYH3	17	10546195	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08		10546195	70649015	50	76408											
CPAMD8	27151	broad.mit.edu	37	chr19	17025586	17025586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccacgaagataaagctgcGagcctgtgcgaaggacttca	12	7	12	10	3	1	1	1	0	0	1	2	5	2	2	2	1	4	1	2	1	4	2			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr19:17025586G>A	uc002nfb.2	-	28	3840	c.3808C>T	c.(3808-3810)CGC>TGC	p.R1270C		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1223						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						ATAAAGCTGCGAGCCTGTGCG	0.423													18	29					0	0	0.667858	0	0		A	17025586	A	A	17025586	3	1	144	1	0	0	0	0	1	0	0	0	3798	1058	37	1	2050	1	CPAMD8	19	17025586	Missense_Mutation	SNP	G	TCGA-CG-4475-01A-01D-1158-08		17025586	42103397	51	76409											
CAPN12	147968	broad.mit.edu	37	chr19	39228254	39228254	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atctgcacggtgtcgaaatgGaggaggaagtcccgcagctc	10	7	14	10	3	1	0	0	0	1	0	4	4	2	3	1	4	2	3	1	4	2	0			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr19:39228254G>C	uc002ojd.1	-	9	1299	c.990C>G	c.(988-990)CTC>CTG	p.L330L	CAPN12_uc010egd.1_5'Flank|CAPN12_uc002ojc.1_5'Flank	NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	330	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			TGTCGAAATGGAGGAGGAAGT	0.687													17	24					0	0	0.624587	0	0		C	39228254	C	C	39228254	2	2	144	1	0	0	0	0	0	0	0	1	2628	1161	41	5		5	CAPN12	19	39228254	Silent	SNP	G	TCGA-CG-4475-01A-01D-1158-08	22202668	39228254	19900729	52	76410											
ZNF283	284349	broad.mit.edu	37	chr19	44351768	44351768	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagccttgctaaacatgagAtaattcatacaggtgagaaa	17	9	8	7	0	1	2	1	2	0	2	1	4	1	2	1	1	4	1	1	1	6	5			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr19:44351768A>G	uc002oxr.3	+	7	1283	c.1015A>G	c.(1015-1017)ATA>GTA	p.I339V	ZNF283_uc002oxp.3_Missense_Mutation_p.I200V	NM_181845	NP_862828	Q8N7M2	ZN283_HUMAN	zinc finger protein 283	339	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				TAAACATGAGATAATTCATAC	0.393													24	110					0	0	0.654019	0	0		G	44351768	G	G	44351768	3	3	144	1	0	0	0	0	1	0	0	0	17845	333	12	3	1029	3	ZNF283	19	44351768	Missense_Mutation	SNP	A	TCGA-CG-4475-01A-01D-1158-08	5123514	44351768	14777215	53	76411											
ZNF530	348327	broad.mit.edu	37	chr19	58117777	58117777	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacactggagaaaggccttAtgactgcagtgaatgtggca	12	9	12	8	0	1	3	1	2	0	1	1	4	1	3	1	3	1	2	1	3	3	1			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr19:58117777A>C	uc002qpk.2	+	3	1104	c.884A>C	c.(883-885)TAT>TCT	p.Y295S	ZNF547_uc002qpm.3_Missense_Mutation_p.M278L|ZNF530_uc002qpl.2_RNA	NM_020880	NP_065931	Q6P9A1	ZN530_HUMAN	zinc finger protein 530	295	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0443)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GAAAGGCCTTATGACTGCAGT	0.438													29	218					0	0	0.706142	0	0		C	58117777	C	C	58117777	3	2	144	1	0	0	0	0	1	0	0	0	17996	449	16	5	894	5	ZNF530	19	58117777	Missense_Mutation	SNP	A	TCGA-CG-4475-01A-01D-1158-08	13766009	58117777	1011206	54	76412											
ZNF133	7692	broad.mit.edu	37	chr20	18297430	18297430	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaccctgagccgtgtgcaggGcaaccttcggattccttata	8	10	11	12	2	0	1	0	1	0	0	2	3	1	2	4	2	3	2	4	2	3	4			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr20:18297430G>A	uc010gcq.2	+	5	2240	c.1935G>A	c.(1933-1935)GGG>GGA	p.G645G	ZNF133_uc010zrv.1_Silent_p.G648G|ZNF133_uc010zrw.1_Silent_p.G582G|ZNF133_uc010gcr.2_Silent_p.G645G|ZNF133_uc010zrx.1_Silent_p.G550G|ZNF133_uc002wql.3_Silent_p.G644G|ZNF133_uc010gcs.2_Silent_p.G644G|ZNF133_uc010zry.1_Silent_p.G550G|ZNF133_uc002wqm.2_Silent_p.G645G	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	645						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2						CGTGTGCAGGGCAACCTTCGG	0.532													29	102					0	0	0.779181	0	0		A	18297430	A	A	18297430	2	1	144	1	0	0	0	0	0	0	0	1	17748	1190	42	2		2	ZNF133	20	18297430	Silent	SNP	G	TCGA-CG-4475-01A-01D-1158-08		18297430	44728090	55	76413											
KIAA0406	9675	broad.mit.edu	37	chr20	36624824	36624824	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgtttgacactgaggtaAatcaagcaggcatcagccac	12	8	11	10	0	2	2	2	2	0	0	2	2	2	2	1	3	2	5	1	3	3	2			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr20:36624824A>C	uc002xhl.2	-	8	3248	c.3039T>G	c.(3037-3039)ATT>ATG	p.I1013M	KIAA0406_uc002xhm.2_Missense_Mutation_p.I1013M	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	1013							binding				0		Myeloproliferative disorder(115;0.00874)				CACTGAGGTAAATCAAGCAGG	0.463													17	70					0	0	0.557998	0	0		C	36624824	C	C	36624824	3	2	144	1	0	0	0	0	1	0	0	0	8189	10	1	5	238	5	KIAA0406	20	36624824	Missense_Mutation	SNP	A	TCGA-CG-4475-01A-01D-1158-08	18327394	36624824	26400696	56	76414											
DPM1	8813	broad.mit.edu	37	chr20	49565188	49565188	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcccaactttttctctcgTggtcttagaagctgtaggaa	9	14	9	9	1	2	1	0	0	2	1	5	2	3	2	1	2	2	2	1	2	5	4			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr20:49565188T>C	uc002xvw.1	-	3	273	c.273A>G	c.(271-273)CCA>CCG	p.P91P	DPM1_uc002xvv.1_5'Flank|DPM1_uc002xvx.1_RNA	NM_003859	NP_003850	O60762	DPM1_HUMAN	dolichyl-phosphate mannosyltransferase 1	91					C-terminal protein lipidation|dolichol metabolic process|dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|protein N-linked glycosylation via asparagine|protein O-linked mannosylation	dolichol-phosphate-mannose synthase complex|endoplasmic reticulum membrane|membrane fraction	dolichyl-phosphate beta-D-mannosyltransferase activity|dolichyl-phosphate-mannose-protein mannosyltransferase activity|protein binding			ovary(1)	1						TTTTCTCTCGTGGTCTTAGAA	0.378													55	177					0	0	0.870114	0	0		C	49565188	C	C	49565188	2	2	144	1	0	0	0	0	0	0	0	1	4730	1683	59	3		3	DPM1	20	49565188	Silent	SNP	T	TCGA-CG-4475-01A-01D-1158-08	12940364	49565188	13460332	57	76415											
TSHZ2	128553	broad.mit.edu	37	chr20	51872838	51872838	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatcagtcacttagaatcTcacctgggtttccaaatgaa	13	12	6	10	0	3	2	3	1	1	1	5	2	4	2	2	1	1	1	2	1	5	3			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr20:51872838T>G	uc002xwo.2	+	2	3797	c.2841T>G	c.(2839-2841)TCT>TCG	p.S947S		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	947	C2H2-type 4.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			ACTTAGAATCTCACCTGGGTT	0.498													18	148					0	0	0.575678	0	0		G	51872838	G	G	51872838	2	3	144	1	0	0	0	0	0	0	0	1	16650	1538	54	5		5	TSHZ2	20	51872838	Silent	SNP	T	TCGA-CG-4475-01A-01D-1158-08	2307650	51872838	11152682	58	76416											
BACE2	25825	broad.mit.edu	37	chr21	42647386	42647386	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccccgctcagtctttgagCgagcccattttgtggattgt	5	14	11	11	2	2	1	1	1	1	0	3	3	3	2	3	1	2	1	3	1	0	4			TCGA-CG-4475-01A-01D-1158-08	TCGA-CG-4475-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	e11c7c6f-b094-4085-9982-f59dc50a8d5b	5977bd46-27a4-4c94-9ad2-7c6cc053d322	g.chr21:42647386C>T	uc002yyw.2	+	9	1855	c.1392C>T	c.(1390-1392)AGC>AGT	p.S464S	BACE2_uc002yyx.2_Silent_p.S414S|BACE2_uc002yyy.2_3'UTR|BACE2_uc010goo.2_RNA	NM_012105	NP_036237	Q9Y5Z0	BACE2_HUMAN	beta-site APP-cleaving enzyme 2 isoform A	464	Extracellular (Potential).				membrane protein ectodomain proteolysis|negative regulation of amyloid precursor protein biosynthetic process|peptide hormone processing	cell surface|endoplasmic reticulum|endosome|Golgi apparatus|integral to membrane	aspartic-type endopeptidase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0251)				AGTCTTTGAGCGAGCCCATTT	0.547													17	100					0	0	0.557998	0	0		T	42647386	T	T	42647386	2	4	144	1	0	0	0	0	0	0	0	1	1283	767	27	1		1	BACE2	21	42647386	Silent	SNP	C	TCGA-CG-4475-01A-01D-1158-08		42647386	5482509	59	76417											
LRRC47	57470	broad.mit.edu	37	chr1	3701670	3701670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgaggtcctgtgggggcCgggcgcagtacagcaggggc	5	6	19	11	2	0	1	0	1	0	0	1	1	1	1	3	6	2	3	3	6	1	2	rs139681433		TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:3701670C>T	uc001akx.1	-	3	1203	c.1175G>A	c.(1174-1176)CGG>CAG	p.R392Q		NM_020710	NP_065761	Q8N1G4	LRC47_HUMAN	leucine rich repeat containing 47	392					translation		phenylalanine-tRNA ligase activity|RNA binding			large_intestine(1)|ovary(1)	2	all_cancers(77;0.0375)|Ovarian(185;0.0634)|all_lung(157;0.208)|Lung NSC(156;0.21)	all_epithelial(116;1.34e-16)|all_lung(118;2.53e-06)|Lung NSC(185;0.00028)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;5.49e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.43e-22)|GBM - Glioblastoma multiforme(42;3.69e-16)|Colorectal(212;1.21e-05)|COAD - Colon adenocarcinoma(227;5.87e-05)|Kidney(185;0.000367)|BRCA - Breast invasive adenocarcinoma(365;0.000704)|KIRC - Kidney renal clear cell carcinoma(229;0.00567)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		CTGTGGGGGCCGGGCGCAGTA	0.622													18	82					0	0	0.010504	0	0		T	3701670	T	T	3701670	3	4	145	1	0	0	0	0	1	0	0	0	9022	652	23	1	596	1	LRRC47	1	3701670	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08		3701670	245548951	1	76418											
MFN2	9927	broad.mit.edu	37	chr1	12062117	12062117	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcagattgcagaggcggttCgactcatcatggactccctg	9	9	12	11	2	2	2	2	0	0	2	4	4	3	3	1	3	2	3	1	3	0	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:12062117C>T	uc001atn.3	+	11	1570	c.1117C>T	c.(1117-1119)CGA>TGA	p.R373*	MFN2_uc009vni.2_Nonsense_Mutation_p.R373*	NM_014874	NP_055689	O95140	MFN2_HUMAN	mitofusin 2	373	Cytoplasmic (Potential).				blood coagulation|mitochondrial fusion|mitochondrial membrane organization|mitochondrion localization|negative regulation of Ras protein signal transduction|negative regulation of smooth muscle cell proliferation|protein targeting to mitochondrion	cytosol|integral to membrane|intrinsic to mitochondrial outer membrane	GTP binding|GTPase activity|ubiquitin protein ligase binding			ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.25e-06)|COAD - Colon adenocarcinoma(227;0.000302)|BRCA - Breast invasive adenocarcinoma(304;0.000329)|Kidney(185;0.000896)|KIRC - Kidney renal clear cell carcinoma(229;0.00274)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		AGAGGCGGTTCGACTCATCAT	0.587													61	182					0	0	0.01441	0	0		T	12062117	T	T	12062117	4	4	145	1	0	0	0	0	0	1	0	0	9542	876	31	1	1151	1	MFN2	1	12062117	Nonsense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	8360447	12062117	237188504	2	76419											
DOCK7	85440	broad.mit.edu	37	chr1	63128728	63128729	+	Missense_Mutation	DNP	TA	AC	AC																															ggatatattgccaacaatatTaaggtttttgagcagttggg																										TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:63128728_63128729TA>AC	uc001daq.2	-	2	145_146	c.111_112TA>GT	c.(109-114)CTTAAT>CTGTAT	p.N38Y	DOCK7_uc001dap.2_Missense_Mutation_p.N38Y|DOCK7_uc009wah.1_Missense_Mutation_p.N38Y	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	38					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						CCAACAATATTAAGGTTTTTGA	0.401													8	273					0	0	0.004672	0	0		AC	63128729	AC	AC	63128728	3	1	145	1	0	0	0	0	1	0	0	0	4698	1754	61	5	6409	5	DOCK7	1	63128728	Missense_Mutation	DNP	TA	TCGA-CG-4476-01A-01D-1158-08	51066611	63128728	186121893	3	76420											
CTBS	1486	broad.mit.edu	37	chr1	85020805	85020805	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaatgccccgtaagcgataGttttgtatatatgttgcctt	9	15	8	9	2	0	0	0	0	0	0	0	1	0	0	4	0	3	4	4	0	6	9			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:85020805G>C	uc001dka.2	-	7	1100	c.1035C>G	c.(1033-1035)AAC>AAG	p.N345K	SPATA1_uc001djz.1_Intron|CTBS_uc001dkc.2_Missense_Mutation_p.N254K|CTBS_uc001dkd.2_Missense_Mutation_p.N139K|CTBS_uc001dkb.2_Missense_Mutation_p.N139K	NM_004388	NP_004379	Q01459	DIAC_HUMAN	chitobiase, di-N-acetyl- precursor	345						lysosome	cation binding				0				all cancers(265;0.00727)|Epithelial(280;0.0192)|OV - Ovarian serous cystadenocarcinoma(397;0.166)		GTAAGCGATAGTTTTGTATAT	0.383													12	117					0	0	0.010729	0	0		C	85020805	C	C	85020805	3	2	145	1	0	0	0	0	1	0	0	0	4002	1020	36	5	126	5	CTBS	1	85020805	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	21892077	85020805	164229816	4	76421											
DPYD	1806	broad.mit.edu	37	chr1	98058818	98058818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaagccttttctgaagaCgatgaacacacggcgagctc	14	7	9	11	3	1	3	0	2	1	1	2	5	1	3	1	1	4	1	1	1	4	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:98058818C>T	uc001drv.2	-	10	1221	c.1084G>A	c.(1084-1086)GTC>ATC	p.V362I		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	362					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	TTTCTGAAGACGATGAACACA	0.463													26	158					0	0	0.027356	0	0		T	98058818	T	T	98058818	3	4	145	1	0	0	0	0	1	0	0	0	4751	536	19	1	2049	1	DPYD	1	98058818	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	13038013	98058818	151191803	5	76422											
AMPD2	271	broad.mit.edu	37	chr1	110171967	110171967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggatggttttgacagcGtggatgatgagtccaagcct	9	11	15	6	1	0	3	0	3	0	0	1	5	1	5	2	4	2	1	2	4	1	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:110171967G>A	uc009wfh.1	+	15	2421	c.1879G>A	c.(1879-1881)GTG>ATG	p.V627M	AMPD2_uc009wfg.1_RNA|AMPD2_uc001dyb.1_Missense_Mutation_p.V546M|AMPD2_uc001dyc.1_Missense_Mutation_p.V627M|AMPD2_uc010ovr.1_Missense_Mutation_p.V552M|AMPD2_uc001dyd.1_Missense_Mutation_p.V508M|AMPD2_uc001dye.1_Translation_Start_Site	NM_004037	NP_004028	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2 (isoform L)	627					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|breast(1)	3		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		TTTTGACAGCGTGGATGATGA	0.587													34	291					0	0	0.013726	0	0		A	110171967	A	A	110171967	3	1	145	1	0	0	0	0	1	0	0	0	586	1145	40	1	1974	1	AMPD2	1	110171967	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	12113149	110171967	139078654	6	76423											
MTMR11	10903	broad.mit.edu	37	chr1	149903217	149903217	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagctgccacccactctcGctgtactagtgattggaagc	8	10	9	14	1	1	1	0	1	1	0	3	2	2	2	3	1	4	3	3	1	3	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:149903217G>A	uc001etl.3	-	13	1476	c.1225C>T	c.(1225-1227)CGA>TGA	p.R409*	SF3B4_uc001etk.1_5'Flank|MTMR11_uc001etm.1_Nonsense_Mutation_p.R337*|MTMR11_uc010pbm.1_Intron|MTMR11_uc010pbn.1_Missense_Mutation_p.A235V	NM_001145862	NP_001139334	A4FU01	MTMRB_HUMAN	myotubularin related protein 11 isoform a	409	Myotubularin phosphatase.						phosphatase activity			central_nervous_system(1)	1	Breast(34;0.0009)|Ovarian(49;0.0377)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			ACCCACTCTCGCTGTACTAGT	0.577													26	100					0	0	0.010818	0	0		A	149903217	A	A	149903217	4	1	145	1	0	0	0	0	0	1	0	0	9958	1095	38	1	963	1	MTMR11	1	149903217	Nonsense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	39731250	149903217	99347404	7	76424											
INSRR	3645	broad.mit.edu	37	chr1	156819226	156819226	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctagctgttgtaggttctggTtgtccagcacgtagagagtg	7	13	14	7	1	1	1	0	0	1	1	2	2	2	1	1	2	2	7	1	2	3	6			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:156819226T>C	uc010pht.1	-	6	1510	c.1256A>G	c.(1255-1257)AAC>AGC	p.N419S	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	419					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TAGGTTCTGGTTGTCCAGCAC	0.627													58	141					0	0	0.01441	0	0		C	156819226	C	C	156819226	3	2	145	1	0	0	0	0	1	0	0	0	7790	1725	60	3	2704	3	INSRR	1	156819226	Missense_Mutation	SNP	T	TCGA-CG-4476-01A-01D-1158-08	6916009	156819226	92431395	8	76425											
GORAB	92344	broad.mit.edu	37	chr1	170521254	170521254	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcactgaacacctttgtaCgatcatacagcaaaatgagc	15	9	6	11	1	2	2	2	2	0	0	2	3	2	2	1	0	5	2	1	0	5	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:170521254C>G	uc001gha.2	+	5	863	c.836C>G	c.(835-837)ACG>AGG	p.T279R	GORAB_uc009wvx.2_Missense_Mutation_p.T99R|GORAB_uc001ghb.2_Missense_Mutation_p.T99R|GORAB_uc001ghc.2_Missense_Mutation_p.T99R|GORAB_uc001ghd.2_Missense_Mutation_p.T72R	NM_152281	NP_689494	Q5T7V8	GORAB_HUMAN	golgin, RAB6-interacting isoform a	279	Necessary for interaction with RCHY1.|Potential.					Golgi apparatus|nucleus					0						CACCTTTGTACGATCATACAG	0.458													9	88					0	0	0.006214	0	0		G	170521254	G	G	170521254	3	3	145	1	0	0	0	0	1	0	0	0	6589	536	19	5	858	5	GORAB	1	170521254	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	13702028	170521254	78729367	9	76426											
TNR	7143	broad.mit.edu	37	chr1	175372750	175372750	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagggatatagtccagttGtcctggaatggtcaaggaga	11	10	15	5	0	1	2	1	1	0	1	3	5	3	4	2	4	0	1	2	4	4	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:175372750G>T	uc001gkp.1	-	2	583	c.502C>A	c.(502-504)CAA>AAA	p.Q168K	TNR_uc009wwu.1_Missense_Mutation_p.Q168K|TNR_uc010pmz.1_Missense_Mutation_p.Q168K	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	168	Cys-rich.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TAGTCCAGTTGTCCTGGAATG	0.532													27	133					1.42536e-11	1.72306e-11	0.024334	1	0		T	175372750	T	T	175372750	3	4	145	1	0	0	0	0	1	0	0	0	16363	1386	48	5	3654	5	TNR	1	175372750	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	4851496	175372750	73877871	10	76427											
FAM5C	339479	broad.mit.edu	37	chr1	190129876	190129876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgtgtacaattttctgcGcctttaggaaaagttgtttc	8	17	9	7	1	1	0	0	0	1	0	2	1	1	1	1	1	2	4	1	1	5	8			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:190129876G>A	uc001gse.1	-	7	1338	c.1106C>T	c.(1105-1107)GCG>GTG	p.A369V	FAM5C_uc010pot.1_Missense_Mutation_p.A267V	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	369						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					AATTTTCTGCGCCTTTAGGAA	0.398													5	240					0	0	0.014758	0	0		A	190129876	A	A	190129876	3	1	145	1	0	0	0	0	1	0	0	0	5608	1087	38	1	1202	1	FAM5C	1	190129876	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	14757126	190129876	59120745	11	76428											
CRB1	23418	broad.mit.edu	37	chr1	197396612	197396612	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcagatttggccaggaTgactccactggttatgtcat	9	11	12	9	0	1	2	1	1	0	1	2	3	2	3	2	4	0	3	2	4	1	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:197396612T>C	uc001gtz.2	+	7	2292	c.2157T>C	c.(2155-2157)GAT>GAC	p.D719D	CRB1_uc010poz.1_Silent_p.D650D|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Silent_p.D607D|CRB1_uc010ppb.1_Intron|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_Silent_p.D200D|CRB1_uc001gub.1_Silent_p.D368D	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	719	Extracellular (Potential).|Laminin G-like 2.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TTGGCCAGGATGACTCCACTG	0.443													8	82					0	0	0.00308	0	0		C	197396612	C	C	197396612	2	2	145	1	0	0	0	0	0	0	0	1	3851	1461	51	3		3	CRB1	1	197396612	Silent	SNP	T	TCGA-CG-4476-01A-01D-1158-08	7266736	197396612	51854009	12	76429											
KCTD3	51133	broad.mit.edu	37	chr1	215793886	215793886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actcacctggtactgcgtccCcatctcctacaaagactact	10	10	5	16	1	2	1	1	0	1	1	4	1	3	1	4	1	4	1	4	1	4	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr1:215793886C>T	uc001hks.2	+	18	2668	c.2374C>T	c.(2374-2376)CCA>TCA	p.P792S	KCTD3_uc001hkt.2_Missense_Mutation_p.P790S|KCTD3_uc010pub.1_Missense_Mutation_p.P690S|KCTD3_uc009xdn.2_Missense_Mutation_p.P516S	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	792						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		TACTGCGTCCCCATCTCCTAC	0.448													47	147					0	0	0.011902	0	0		T	215793886	T	T	215793886	3	4	145	1	0	0	0	0	1	0	0	0	8126	623	22	4	2444	4	KCTD3	1	215793886	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	18397274	215793886	33456735	13	76430											
HEATR5B	54497	broad.mit.edu	37	chr2	37229454	37229454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgatcaataccgtaccagcgGgtgaacaaagggatggtaaa	15	7	12	7	2	1	2	1	2	0	0	1	3	1	3	2	3	4	2	2	3	7	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:37229454G>A	uc002rpp.1	-	32	5408	c.5312C>T	c.(5311-5313)CCC>CTC	p.P1771L	HEATR5B_uc002rpo.1_Missense_Mutation_p.P84L|HEATR5B_uc010ezy.1_Intron	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1771							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				CGTACCAGCGGGTGAACAAAG	0.413													53	176					0	0	0.01441	0	0		A	37229454	A	A	37229454	3	1	145	1	0	0	0	0	1	0	0	0	7048	1232	43	4	923	4	HEATR5B	2	37229454	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08		37229454	205969919	14	76431											
NRXN1	9378	broad.mit.edu	37	chr2	51254932	51254932	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgccgcggcgcgcagttcCgggggcagccccccgacgaa	6	2	16	17	8	0	0	0	0	0	0	1	2	1	0	5	3	2	3	5	3	1	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:51254932C>T	uc010fbq.2	-	2	1957	c.480G>A	c.(478-480)CCG>CCA	p.P160P	NRXN1_uc002rxe.3_Silent_p.P160P|NRXN1_uc002rxd.1_Silent_p.P160P	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CGCGCAGTTCCGGGGGCAGCC	0.667													4	33					0	0	0.021553	0	0		T	51254932	T	T	51254932	2	4	145	1	0	0	0	0	0	0	0	1	10684	639	23	1		1	NRXN1	2	51254932	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08	14025478	51254932	191944441	15	76432											
DYSF	8291	broad.mit.edu	37	chr2	71886083	71886083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagttccaccagctggccGcccagggaccccaggagtgc	8	4	13	16	1	0	0	0	0	0	0	1	3	1	2	6	3	2	2	6	3	0	1	rs143163327		TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:71886083G>A	uc002sie.2	+	43	5090	c.4714G>A	c.(4714-4716)GCC>ACC	p.A1572T	DYSF_uc010feg.2_Missense_Mutation_p.A1603T|DYSF_uc010feh.2_Missense_Mutation_p.A1579T|DYSF_uc002sig.3_Missense_Mutation_p.A1558T|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.A1593T|DYSF_uc010fef.2_Missense_Mutation_p.A1610T|DYSF_uc010fei.2_Missense_Mutation_p.A1589T|DYSF_uc010fek.2_Missense_Mutation_p.A1590T|DYSF_uc010fej.2_Missense_Mutation_p.A1580T|DYSF_uc010fel.2_Missense_Mutation_p.A1559T|DYSF_uc010feo.2_Missense_Mutation_p.A1604T|DYSF_uc010fem.2_Missense_Mutation_p.A1594T|DYSF_uc010fen.2_Missense_Mutation_p.A1611T|DYSF_uc002sif.2_Missense_Mutation_p.A1573T|DYSF_uc010yqy.1_Missense_Mutation_p.A453T|DYSF_uc010yqz.1_Missense_Mutation_p.A333T	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1572	Cytoplasmic (Potential).|C2 5.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CCAGCTGGCCGCCCAGGGACC	0.547													21	243					0	0	0.027356	0	0		A	71886083	A	A	71886083	3	1	145	1	0	0	0	0	1	0	0	0	4865	1087	38	1	5143	1	DYSF	2	71886083	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	20631151	71886083	171313290	16	76433											
SPR	6697	broad.mit.edu	37	chr2	73115443	73115443	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctaagggttggtttttcagGctctcttggggatgtgtcca	5	15	13	8	0	2	0	1	0	1	0	4	1	3	1	2	5	0	3	2	5	1	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:73115443G>C	uc002sik.2	+	2	355	c.305G>C	c.(304-306)GGC>GCC	p.G102A		NM_003124	NP_003115	P35270	SPRE_HUMAN	sepiapterin reductase	102					nitric oxide biosynthetic process|tetrahydrobiopterin biosynthetic process	cytoplasm	aldo-keto reductase (NADP) activity|NADP binding|sepiapterin reductase activity			ovary(2)	2						GGTTTTTCAGGCTCTCTTGGG	0.532											OREG0014704	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	181					0	0	0.009718	0	0		C	73115443	C	C	73115443	3	2	145	1	0	0	0	0	1	0	0	0	15116	1217	42	5	311	5	SPR	2	73115443	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	1229360	73115443	170083930	17	76434											
SEMA4F	10505	broad.mit.edu	37	chr2	74889902	74889902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaaagacttgagagtggccGggggaaatgtccttttgagc	10	10	15	6	1	0	4	0	3	0	2	1	6	1	5	2	3	1	0	2	3	2	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:74889902G>A	uc002sna.1	+	5	611	c.500G>A	c.(499-501)CGG>CAG	p.R167Q	SEMA4F_uc010ysb.1_Intron|SEMA4F_uc010ffq.1_Missense_Mutation_p.R134Q|SEMA4F_uc010ffr.1_Intron|SEMA4F_uc002snb.1_Intron|SEMA4F_uc002snc.1_Intron	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	167	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GAGAGTGGCCGGGGGAAATGT	0.517													92	273					0	0	0.01441	0	0		A	74889902	A	A	74889902	3	1	145	1	0	0	0	0	1	0	0	0	14060	1116	39	1	518	1	SEMA4F	2	74889902	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	1774459	74889902	168309471	18	76435											
NCAPH	23397	broad.mit.edu	37	chr2	97020058	97020058	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgccaacgatgaacctgaCcacaccgcagttggggatca	12	6	11	12	2	1	2	1	2	0	0	1	5	1	3	4	2	3	2	4	2	2	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:97020058C>A	uc002svz.1	+	9	1224	c.1140C>A	c.(1138-1140)GAC>GAA	p.D380E	NCAPH_uc010fhu.1_Missense_Mutation_p.D356E|NCAPH_uc010fhv.1_Missense_Mutation_p.D369E|NCAPH_uc010yum.1_Missense_Mutation_p.D356E|NCAPH_uc010fhw.1_Missense_Mutation_p.D369E|NCAPH_uc010yun.1_Missense_Mutation_p.D244E|NCAPH_uc002swa.1_5'UTR	NM_015341	NP_056156	Q15003	CND2_HUMAN	non-SMC condensin I complex, subunit H	380					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|microtubule cytoskeleton|nucleus				urinary_tract(1)|skin(1)	2		Ovarian(717;0.0221)				ATGAACCTGACCACACCGCAG	0.527													25	272					2.85442e-18	3.5868e-18	0.010818	1	0		A	97020058	A	A	97020058	3	1	145	1	0	0	0	0	1	0	0	0	10228	506	18	5	1174	5	NCAPH	2	97020058	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	22130156	97020058	146179315	19	76436											
PSD4	23550	broad.mit.edu	37	chr2	113940797	113940797	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctcttcctggcgagtcCttgctcagagaacagtgctt	6	11	9	15	1	2	1	1	0	1	1	4	3	4	1	4	1	3	2	4	1	1	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:113940797C>A	uc002tjc.2	+	2	947	c.764C>A	c.(763-765)CCT>CAT	p.P255H	PSD4_uc002tjd.2_5'UTR|PSD4_uc002tje.2_Missense_Mutation_p.P254H|PSD4_uc002tjf.2_5'Flank	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	255					regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						CTGGCGAGTCCTTGCTCAGAG	0.602													10	132					5.50884e-06	6.22596e-06	0.013537	1	0		A	113940797	A	A	113940797	3	1	145	1	0	0	0	0	1	0	0	0	12671	681	24	5	766	5	PSD4	2	113940797	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	16920739	113940797	129258576	20	76437											
C2orf76	130355	broad.mit.edu	37	chr2	120078733	120078733	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataaaaaaatggttaccatAtttataatttctgaatggtg	17	15	6	3	0	1	1	0	1	1	0	1	1	1	1	1	2	1	1	1	2	10	7			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:120078733A>G	uc002tls.2	-	4	722	c.181T>C	c.(181-183)TAT>CAT	p.Y61H	C2orf76_uc010flf.1_Missense_Mutation_p.Y61H|C2orf76_uc010yyg.1_RNA|C2orf76_uc002tlt.2_Missense_Mutation_p.Y61H|C2orf76_uc002tlu.2_Missense_Mutation_p.Y61H	NM_001017927	NP_001017927	Q3KRA6	CB076_HUMAN	hypothetical protein LOC130355	61											0						tGGTTACCATATTTATAATTT	0.244													4	47					0	0	0.014758	0	0		G	120078733	G	G	120078733	3	3	145	1	0	0	0	0	1	0	0	0	2196	449	16	3	215	3	C2orf76	2	120078733	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	6137936	120078733	123120640	21	76438											
THSD7B	80731	broad.mit.edu	37	chr2	138373815	138373815	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcactgaactcaaggacttGtgctgaagactcacaggtgc	12	9	10	10	0	3	3	3	2	0	1	3	4	3	4	0	2	3	1	0	2	3	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:138373815G>A	uc002tva.1	+	17	3407	c.3407G>A	c.(3406-3408)TGT>TAT	p.C1136Y	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TCAAGGACTTGTGCTGAAGAC	0.438													35	155					0	0	0.019004	0	0		A	138373815	A	A	138373815	3	1	145	1	0	0	0	0	1	0	0	0	15905	1377	48	4	3472	4	THSD7B	2	138373815	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	18295082	138373815	104825558	22	76439											
LRP1B	53353	broad.mit.edu	37	chr2	141660534	141660534	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacatccagcttccaaccttCataacatgagcacttgactg	12	11	5	13	0	1	2	1	2	0	0	3	2	3	2	3	0	5	2	3	0	3	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:141660534C>G	uc002tvj.1	-	23	4693	c.3721G>C	c.(3721-3723)GAA>CAA	p.E1241Q	LRP1B_uc010fnl.1_Missense_Mutation_p.E423Q	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1241	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTCCAACCTTCATAACATGAG	0.368										TSP Lung(27;0.18)			13	102					0	0	0.028581	0	0		G	141660534	G	G	141660534	3	3	145	1	0	0	0	0	1	0	0	0	8973	835	29	5	10354	5	LRP1B	2	141660534	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	3286719	141660534	101538839	23	76440											
TTC21B	79809	broad.mit.edu	37	chr2	166755241	166755241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaatgaaacactgcttgttCatagtcttgttttctgaaca	12	16	6	7	0	3	2	1	2	2	0	3	2	3	2	0	0	3	3	0	0	5	7			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:166755241C>T	uc002udk.2	-	22	3038	c.2905G>A	c.(2905-2907)GAA>AAA	p.E969K		NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	969	TPR 15.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						ACTGCTTGTTCATAGTCTTGT	0.313													10	56					0	0	0.010729	0	0		T	166755241	T	T	166755241	3	4	145	1	0	0	0	0	1	0	0	0	16714	835	29	4	1077	4	TTC21B	2	166755241	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	25094707	166755241	76444132	24	76441											
SCN9A	6335	broad.mit.edu	37	chr2	167060651	167060651	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttttctaccatcatggttaCcatgttgagacagataagaa	13	13	7	8	0	2	3	1	1	1	3	2	4	2	3	2	1	2	2	2	1	4	6			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:167060651C>T	uc010fpl.2	-	26	4896	c.4555G>A	c.(4555-4557)GTA>ATA	p.V1519I	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1530	IV.|Helical; Name=S1 of repeat IV; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	ATCATGGTTACCATGTTGAGA	0.333													6	31					0	0	0.021553	0	0		T	167060651	T	T	167060651	3	4	145	1	0	0	0	0	1	0	0	0	13950	507	18	4	1386	4	SCN9A	2	167060651	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	305410	167060651	76138722	25	76442											
MAP1D	254042	broad.mit.edu	37	chr2	172930411	172930411	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcctatccctcacctctagGctatggaggttttccaaaat	9	13	7	12	0	2	0	1	0	1	0	4	1	4	1	4	3	1	2	4	3	5	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:172930411G>C	uc002uhk.2	+	4	501	c.428G>C	c.(427-429)GGC>GCC	p.G143A	MAP1D_uc010zdw.1_Missense_Mutation_p.G25A	NM_199227	NP_954697	Q6UB28	AMP1D_HUMAN	methionine aminopeptidase 1D precursor	143					N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis	mitochondrion	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)			TCACCTCTAGGCTATGGAGGT	0.373													18	95					0	0	0.00499	0	0		C	172930411	C	C	172930411	3	2	145	1	0	0	0	0	1	0	0	0	9247	1203	42	5	442	5	MAP1D	2	172930411	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	5869760	172930411	70268962	26	76443											
TTN	7273	broad.mit.edu	37	chr2	179395550	179395550	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttttgtctctgtgggtgaTacggctttcgggtgagaagg	5	14	17	5	2	1	2	0	2	1	1	3	3	1	2	0	5	1	2	0	5	2	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:179395550T>C	uc010zfg.1	-	307	98312	c.98088A>G	c.(98086-98088)GTA>GTG	p.V32696V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.V26391V|TTN_uc010zfi.1_Silent_p.V26324V|TTN_uc010zfj.1_Silent_p.V26199V|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33623							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGTGGGTGATACGGCTTTCG	0.493													4	56					0	0	0.021553	0	0		C	179395550	C	C	179395550	2	2	145	1	0	0	0	0	0	0	0	1	16761	1393	49	3		3	TTN	2	179395550	Silent	SNP	T	TCGA-CG-4476-01A-01D-1158-08	6465139	179395550	63803823	27	76444											
NUP35	129401	broad.mit.edu	37	chr2	184023068	184023068	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctaaactgcaggctcggAaagccttaagcaaagatggg	15	7	11	8	1	1	1	0	0	1	1	2	2	1	2	1	3	4	3	1	3	6	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:184023068A>T	uc002upf.2	+	7	770	c.667A>T	c.(667-669)AAA>TAA	p.K223*	NUP35_uc010zfs.1_Nonsense_Mutation_p.K205*|NUP35_uc010zft.1_Nonsense_Mutation_p.K105*|NUP35_uc002upg.2_RNA	NM_138285	NP_612142	Q8NFH5	NUP53_HUMAN	nucleoporin 35kDa	223	RRM Nup35-type.				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	intermediate filament cytoskeleton|nuclear membrane|nuclear pore|plasma membrane					0						GCAGGCTCGGAAAGCCTTAAG	0.338													10	47					0	0	0.006214	0	0		T	184023068	T	T	184023068	4	4	145	1	0	0	0	0	0	1	0	0	10782	247	9	5	693	5	NUP35	2	184023068	Nonsense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	4627518	184023068	59176305	28	76445											
GLB1L	79411	broad.mit.edu	37	chr2	220102629	220102629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttggaccccagtttcccCgtcaaaaatagtttgtctct	9	14	7	11	1	2	0	1	0	1	0	4	1	3	1	4	1	0	3	4	1	3	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr2:220102629C>T	uc002vkm.2	-	15	1631	c.1392G>A	c.(1390-1392)ACG>ACA	p.T464T	GLB1L_uc002vkk.2_Silent_p.T221T|GLB1L_uc010zkx.1_Silent_p.T374T|GLB1L_uc002vkn.2_Silent_p.T464T	NM_024506	NP_078782	Q6UWU2	GLB1L_HUMAN	galactosidase, beta 1-like precursor	464					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds				0		all_lung(227;1.19e-05)|Lung NSC(271;2.76e-05)|Medulloblastoma(418;0.0208)|Esophageal squamous(248;0.0559)		Epithelial(149;1.3e-11)|all cancers(144;2.07e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCAGTTTCCCCGTCAAAAATA	0.493													5	117					0	0	0.014758	0	0		T	220102629	T	T	220102629	2	4	145	1	0	0	0	0	0	0	0	1	6443	639	23	1		1	GLB1L	2	220102629	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08	36079561	220102629	23096744	29	76446											
IMPDH2	3615	broad.mit.edu	37	chr3	49065727	49065727	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaattcaggtgtacagttgTggtggatgaagccaataccg	11	10	14	6	1	1	1	1	1	0	0	1	3	1	3	2	4	3	2	2	4	5	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr3:49065727T>C	uc003cvt.2	-	4	370	c.278A>G	c.(277-279)CAC>CGC	p.H93R		NM_000884	NP_000875	P12268	IMDH2_HUMAN	inosine monophosphate dehydrogenase 2	93					GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	IMP dehydrogenase activity|metal ion binding|nucleotide binding|protein binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)	TGTACAGTTGTGGTGGATGAA	0.488													9	39					0	0	0.008291	0	0		C	49065727	C	C	49065727	3	2	145	1	0	0	0	0	1	0	0	0	7743	1696	59	3	1310	3	IMPDH2	3	49065727	Missense_Mutation	SNP	T	TCGA-CG-4476-01A-01D-1158-08		49065727	148956703	30	76447											
FEZF2	55079	broad.mit.edu	37	chr3	62357828	62357828	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacctgctccagcggcgccGgcaagcgctccttatgggga	6	7	14	14	4	0	0	0	0	0	0	2	1	2	1	4	4	4	4	4	4	3	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr3:62357828G>C	uc003dlh.2	-	1	923	c.716C>G	c.(715-717)CCG>CGG	p.P239R	FEZF2_uc003dli.2_Missense_Mutation_p.P239R	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	239					transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		CAGCGGCGCCGGCAAGCGCTC	0.667													6	11					0	0	0.021553	0	0		C	62357828	C	C	62357828	3	2	145	1	0	0	0	0	1	0	0	0	5840	1116	39	5	679	5	FEZF2	3	62357828	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	13292101	62357828	135664602	31	76448											
OR5K3	403277	broad.mit.edu	37	chr3	98110101	98110101	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acccttatatcaatgaattgGtgttatttatcttggcagga	11	16	8	6	0	2	1	1	1	1	0	2	2	2	2	1	3	0	2	1	3	6	7			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr3:98110101G>C	uc011bgw.1	+	1	592	c.592G>C	c.(592-594)GTG>CTG	p.V198L		NM_001005516	NP_001005516	A6NET4	OR5K3_HUMAN	olfactory receptor, family 5, subfamily K,	198	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CAATGAATTGGTGTTATTTAT	0.308													13	114					0	0	0.016723	0	0		C	98110101	C	C	98110101	3	2	145	1	0	0	0	0	1	0	0	0	11187	1261	44	5	594	5	OR5K3	3	98110101	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	35752273	98110101	99912329	32	76449											
C3orf15	89876	broad.mit.edu	37	chr3	119469891	119469891	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagagcaagatgaggccTcaaatgctgccatgttactt	12	9	12	8	0	1	3	1	1	0	2	1	4	1	3	2	2	4	3	2	2	3	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr3:119469891T>C	uc003ede.3	+	17	2328	c.2251T>C	c.(2251-2253)TCA>CCA	p.S751P	C3orf15_uc010hqz.2_Missense_Mutation_p.S689P|C3orf15_uc011bjd.1_Missense_Mutation_p.S625P|C3orf15_uc011bje.1_Missense_Mutation_p.S731P|C3orf15_uc003edg.3_RNA|C3orf15_uc003edh.3_RNA	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	587						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		AGATGAGGCCTCAAATGCTGC	0.418													3	122					0	0	0.009096	0	0		C	119469891	C	C	119469891	3	2	145	1	0	0	0	0	1	0	0	0	2212	1551	54	3	2317	3	C3orf15	3	119469891	Missense_Mutation	SNP	T	TCGA-CG-4476-01A-01D-1158-08	21359790	119469891	78552539	33	76450											
PLXND1	23129	broad.mit.edu	37	chr3	129286351	129286351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaccttggggaagaaggtgCgggtcacgaagtgcttatac	10	9	15	7	2	1	2	1	1	0	1	1	4	1	3	1	4	3	1	1	4	5	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr3:129286351C>T	uc003emx.2	-	22	4170	c.4070G>A	c.(4069-4071)CGC>CAC	p.R1357H	PLXND1_uc011blb.1_Missense_Mutation_p.R25H	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1357	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						GAAGAAGGTGCGGGTCACGAA	0.607													4	11					0	0	0.014758	0	0		T	129286351	T	T	129286351	3	4	145	1	0	0	0	0	1	0	0	0	12146	768	27	1	1767	1	PLXND1	3	129286351	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	9816460	129286351	68736079	34	76451											
IGSF10	285313	broad.mit.edu	37	chr3	151155443	151155443	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaatctgaaagcctcacAttcctaatttccaaggttcc	11	12	6	12	0	2	2	1	2	1	0	5	2	5	2	4	1	1	2	4	1	4	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr3:151155443A>T	uc011bod.1	-	6	6906	c.6906T>A	c.(6904-6906)AAT>AAA	p.N2302K	IGSF10_uc011bob.1_Missense_Mutation_p.N329K|IGSF10_uc011boc.1_Missense_Mutation_p.N281K	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	2302	Ig-like C2-type 9.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AAAGCCTCACATTCCTAATTT	0.438													61	156					0	0	0.01441	0	0		T	151155443	T	T	151155443	3	4	145	1	0	0	0	0	1	0	0	0	7613	214	8	5	969	5	IGSF10	3	151155443	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	21869092	151155443	46866987	35	76452											
KLHL6	89857	broad.mit.edu	37	chr3	183211985	183211985	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaccatcttatgcctccagCggcctatgtttaaatactca	10	12	5	14	1	2	0	1	0	1	0	3	0	3	0	5	1	3	1	5	1	5	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr3:183211985C>A	uc003flr.2	-	5	1290	c.1232G>T	c.(1231-1233)CGC>CTC	p.R411L	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_3'UTR|KLHL6_uc010hxk.1_RNA	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	411	Kelch 2.									haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			ATGCCTCCAGCGGCCTATGTT	0.438													15	252					2.48551e-13	3.06278e-13	0.00499	1	0		A	183211985	A	A	183211985	3	1	145	1	0	0	0	0	1	0	0	0	8409	768	27	5	645	5	KLHL6	3	183211985	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	32056542	183211985	14810445	36	76453											
WFS1	7466	broad.mit.edu	37	chr4	6302687	6302687	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcgcttcgagcccaacctgGatgtggagcaggccgaggtc	7	7	15	12	3	0	0	0	0	0	0	2	4	0	2	3	4	4	2	3	4	1	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr4:6302687G>A	uc003giy.2	+	8	1331	c.1165G>A	c.(1165-1167)GAT>AAT	p.D389N	WFS1_uc003gix.2_Missense_Mutation_p.D389N|WFS1_uc003giz.2_Missense_Mutation_p.D207N	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	389					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		GCCCAACCTGGATGTGGAGCA	0.597													30	170					0	0	0.013726	0	0		A	6302687	A	A	6302687	3	1	145	1	0	0	0	0	1	0	0	0	17386	1174	41	4	1191	4	WFS1	4	6302687	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08		6302687	184851589	37	76454											
AASDH	132949	broad.mit.edu	37	chr4	57204862	57204862	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttcatgttacaacagtaGataaagcaatcatgggaacc	15	10	7	9	0	2	1	2	0	0	1	2	2	2	2	2	1	4	3	2	1	7	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr4:57204862G>T	uc003hbn.2	-	15	3156	c.3003C>A	c.(3001-3003)ATC>ATA	p.I1001I	AASDH_uc010ihb.2_Silent_p.I516I|AASDH_uc011caa.1_3'UTR|AASDH_uc003hbo.2_Silent_p.I901I|AASDH_uc011cab.1_Silent_p.I516I|AASDH_uc010ihc.2_3'UTR	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	1001					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				TACAACAGTAGATAAAGCAAT	0.408													12	82					9.31168e-06	1.04619e-05	0.016723	1	0		T	57204862	T	T	57204862	2	4	145	1	0	0	0	0	0	0	0	1	22	932	33	5		5	AASDH	4	57204862	Silent	SNP	G	TCGA-CG-4476-01A-01D-1158-08	50902175	57204862	133949414	38	76455											
BANK1	55024	broad.mit.edu	37	chr4	102751290	102751290	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattactaaatatctctcaAagcagatgggagatctcaac	16	10	7	8	0	3	2	2	0	2	2	5	4	3	2	0	1	3	1	0	1	7	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr4:102751290A>G	uc003hvy.3	+	2	670	c.396A>G	c.(394-396)CAA>CAG	p.Q132Q	BANK1_uc003hvx.3_Silent_p.Q117Q|BANK1_uc010ill.2_Intron|BANK1_uc003hvz.3_Silent_p.Q102Q	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	132	Interaction with ITPR2.				B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		ATATCTCTCAAAGCAGATGGG	0.368													5	102					0	0	0.021553	0	0		G	102751290	G	G	102751290	2	3	145	1	0	0	0	0	0	0	0	1	1310	11	1	3		3	BANK1	4	102751290	Silent	SNP	A	TCGA-CG-4476-01A-01D-1158-08	45546428	102751290	88402986	39	76456											
BANK1	55024	broad.mit.edu	37	chr4	102984241	102984241	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccacattaaggagaaattaCgacaactacgagactgcatt	16	9	7	9	2	0	2	0	0	0	2	1	5	1	2	1	1	4	1	1	1	5	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr4:102984241C>T	uc003hvy.3	+	13	2432	c.2158C>T	c.(2158-2160)CGA>TGA	p.R720*	BANK1_uc003hvx.3_Nonsense_Mutation_p.R705*|BANK1_uc010ill.2_Nonsense_Mutation_p.R587*|BANK1_uc003hvz.3_Nonsense_Mutation_p.R690*	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	720					B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		GGAGAAATTACGACAACTACG	0.308													4	52					0	0	0.021553	0	0		T	102984241	T	T	102984241	4	4	145	1	0	0	0	0	0	1	0	0	1310	528	19	1	2208	1	BANK1	4	102984241	Nonsense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	232951	102984241	88170035	40	76457											
AIMP1	9255	broad.mit.edu	37	chr4	107252898	107252898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagccaatagatgtttcccGtctggatcttcgaattggtt	9	15	9	8	2	2	1	0	0	2	1	4	3	3	2	2	2	1	2	2	2	4	6			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr4:107252898G>A	uc011cfg.1	+	5	513	c.461G>A	c.(460-462)CGT>CAT	p.R154H	AIMP1_uc003hyg.2_Missense_Mutation_p.R154H|AIMP1_uc003hyh.2_Missense_Mutation_p.R178H	NM_001142415	NP_001135887	Q12904	AIMP1_HUMAN	small inducible cytokine subfamily E, member 1	154	tRNA-binding.|Interaction with HSP90B1 (By similarity).|Required for endothelial cell migration.				angiogenesis|apoptosis|cell adhesion|cell-cell signaling|chemotaxis|glucose metabolic process|inflammatory response|leukocyte migration|negative regulation of endothelial cell proliferation|signal transduction|tRNA aminoacylation for protein translation	aminoacyl-tRNA synthetase multienzyme complex|cytosol|endoplasmic reticulum|extracellular space|Golgi apparatus|nucleus|transport vesicle	cell surface binding|cytokine activity|protein homodimerization activity|tRNA binding				0						GATGTTTCCCGTCTGGATCTT	0.408													29	207					0	0	0.008361	0	0		A	107252898	A	A	107252898	3	1	145	1	0	0	0	0	1	0	0	0	433	1145	40	1	551	1	AIMP1	4	107252898	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	4268657	107252898	83901378	41	76458											
FAT4	79633	broad.mit.edu	37	chr4	126336957	126336957	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacactacccagaacaattcTtcaggtcagtatatttaaat	15	12	5	9	0	3	1	2	0	1	1	3	2	3	1	1	1	2	1	1	1	7	7			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr4:126336957T>G	uc003ifj.3	+	5	6839	c.6839T>G	c.(6838-6840)CTT>CGT	p.L2280R	FAT4_uc011cgp.1_Missense_Mutation_p.L578R	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2280	Extracellular (Potential).|Cadherin 22.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AGAACAATTCTTCAGGTCAGT	0.358													4	32					0	0	0.009096	0	0		G	126336957	G	G	126336957	3	3	145	1	0	0	0	0	1	0	0	0	5706	1609	56	5	6857	5	FAT4	4	126336957	Missense_Mutation	SNP	T	TCGA-CG-4476-01A-01D-1158-08	19084059	126336957	64817319	42	76459											
ACCN5	51802	broad.mit.edu	37	chr4	156775288	156775288	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaagtgctattgttgagatAaaaacctttgttcctgataa	14	14	7	6	0	0	2	0	2	0	1	1	3	1	2	2	0	2	3	2	0	6	7			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr4:156775288A>G	uc003ipe.1	-	3	573	c.526T>C	c.(526-528)TAT>CAT	p.Y176H		NM_017419	NP_059115	Q9NY37	ACCN5_HUMAN	amiloride-sensitive cation channel 5,	176	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0464)|Kidney(143;0.058)|COAD - Colon adenocarcinoma(41;0.141)		TTGTTGAGATAAAAACCTTTG	0.363													9	85					0	0	0.004482	0	0		G	156775288	G	G	156775288	3	3	145	1	0	0	0	0	1	0	0	0	132	362	13	3	1023	3	ACCN5	4	156775288	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	30438331	156775288	34378988	43	76460											
FGF10	2255	broad.mit.edu	37	chr5	44388473	44388473	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacttactgtacgggcagttCtccttcttggtcccgctgac	5	14	9	13	2	2	1	0	1	2	0	4	1	3	1	2	2	3	4	2	2	3	6			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr5:44388473C>T	uc003jog.1	-	1	312	c.312G>A	c.(310-312)GAG>GAA	p.E104E		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	104					actin cytoskeleton reorganization|activation of MAPK activity|bud outgrowth involved in lung branching|ERK1 and ERK2 cascade|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|insulin receptor signaling pathway|lacrimal gland development|lung saccule development|mesonephros development|negative regulation of cell cycle arrest|positive regulation of ATPase activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of DNA repair|positive regulation of DNA replication|positive regulation of epithelial cell migration|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of ERK1 and ERK2 cascade|positive regulation of hair follicle cell proliferation|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of lymphocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of urothelial cell proliferation|protein localization at cell surface|radial glial cell differentiation|regulation of saliva secretion|response to protein stimulus|secretion by lung epithelial cell involved in lung growth|tear secretion|thymus development|urothelial cell proliferation	cell surface|extracellular space|nucleus|plasma membrane	chemoattractant activity|growth factor activity|heparin binding|type 2 fibroblast growth factor receptor binding			lung(3)	3	Lung NSC(6;1.12e-06)					ACGGGCAGTTCTCCTTCTTGG	0.507													27	98					0	0	0.008361	0	0		T	44388473	T	T	44388473	2	4	145	1	0	0	0	0	0	0	0	1	5853	912	32	4		4	FGF10	5	44388473	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08		44388473	136526787	44	76461											
HCN1	348980	broad.mit.edu	37	chr5	45353212	45353212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaatcttacctctctcagaGgatcattgagttcattgaga	12	14	7	8	0	5	3	3	2	2	2	6	5	5	4	1	1	1	1	1	1	3	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr5:45353212G>A	uc003jok.2	-	5	1392	c.1367C>T	c.(1366-1368)CCT>CTT	p.P456L		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	456	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CTCTCTCAGAGGATCATTGAG	0.343													5	46					0	0	0.021553	0	0		A	45353212	A	A	45353212	3	1	145	1	0	0	0	0	1	0	0	0	7012	1000	35	4	1321	4	HCN1	5	45353212	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	964739	45353212	135562048	45	76462											
MAP1B	4131	broad.mit.edu	37	chr5	71495024	71495024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattattgagaagaccacaCggacccctgaagagggtggg	14	6	13	8	1	0	4	0	2	0	3	0	6	0	5	3	3	0	0	3	3	4	2	rs151255965		TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr5:71495024C>T	uc003kbw.3	+	5	6083	c.5842C>T	c.(5842-5844)CGG>TGG	p.R1948W	MAP1B_uc010iyw.1_Missense_Mutation_p.R1965W|MAP1B_uc010iyx.1_Missense_Mutation_p.R1822W|MAP1B_uc010iyy.1_Missense_Mutation_p.R1822W	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1948	MAP1B 5.					microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		GAAGACCACACGGACCCCTGA	0.473													15	116					0	0	0.006122	0	0		T	71495024	T	T	71495024	3	4	145	1	0	0	0	0	1	0	0	0	9246	527	19	1	5860	1	MAP1B	5	71495024	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	26141812	71495024	109420236	46	76463											
THBS4	7060	broad.mit.edu	37	chr5	79378239	79378239	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtccgcagggtacgatttTatgaaggctctgagttggtg	7	14	14	6	2	1	2	0	2	1	0	2	3	2	2	1	3	1	4	1	3	3	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr5:79378239T>C	uc003kgh.2	+	22	3018	c.2695T>C	c.(2695-2697)TAT>CAT	p.Y899H	uc003kgi.3_RNA	NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	899	TSP C-terminal.				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		GGTACGATTTTATGAAGGCTC	0.557													20	133					0	0	0.008871	0	0		C	79378239	C	C	79378239	3	2	145	1	0	0	0	0	1	0	0	0	15881	1754	61	3	2777	3	THBS4	5	79378239	Missense_Mutation	SNP	T	TCGA-CG-4476-01A-01D-1158-08	7883215	79378239	101537021	47	76464											
APC	324	broad.mit.edu	37	chr5	112174682	112174682	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgtaagccagtctttgtgtCaagaagatgactatgaagat	14	12	10	5	0	2	5	1	2	1	3	2	5	2	5	1	0	1	1	1	0	5	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr5:112174682C>T	uc010jby.2	+	16	3771	c.3391C>T	c.(3391-3393)CAA>TAA	p.Q1131*	APC_uc011cvt.1_Nonsense_Mutation_p.Q1113*|APC_uc003kpz.3_Nonsense_Mutation_p.Q1131*|APC_uc003kpy.3_Nonsense_Mutation_p.Q1131*|APC_uc010jbz.2_Nonsense_Mutation_p.Q848*|APC_uc010jca.2_Nonsense_Mutation_p.Q431*	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1131	Ser-rich.|Responsible for down-regulation through a process mediated by direct ubiquitination.|Asp/Glu-rich (acidic).				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.Q1131*(2)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		GTCTTTGTGTCAAGAAGATGA	0.383		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			45	53					0	0	0.013114	0	0		T	112174682	T	T	112174682	4	4	145	1	0	0	0	0	0	1	0	0	763	827	29	4	3449	4	APC	5	112174682	Nonsense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	32796443	112174682	68740578	48	76465											
APC	324	broad.mit.edu	37	chr5	112175639	112175639	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaaacagctcaaaccaagCgagaagtacctaaaaataaa	21	5	5	10	1	2	1	2	0	0	1	2	2	2	1	2	0	5	2	2	0	10	3	rs121913332		TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr5:112175639C>T	uc010jby.2	+	16	4728	c.4348C>T	c.(4348-4350)CGA>TGA	p.R1450*	APC_uc011cvt.1_Nonsense_Mutation_p.R1432*|APC_uc003kpz.3_Nonsense_Mutation_p.R1450*|APC_uc003kpy.3_Nonsense_Mutation_p.R1450*|APC_uc010jbz.2_Nonsense_Mutation_p.R1167*|APC_uc010jca.2_Nonsense_Mutation_p.R750*	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1450	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.R1450*(115)|p.?(1)|p.P1424fs*19(1)|p.K1192fs*3(1)|p.R1450fs*22(1)|p.S1436fs*22(1)|p.R1450fs*5(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TCAAACCAAGCGAGAAGTACC	0.478	R1450*(SW837_LARGE_INTESTINE)|R1450*(LS123_LARGE_INTESTINE)|R1450*(SW1417_LARGE_INTESTINE)|R1450*(MKN74_STOMACH)	12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			7	74					0	0	0.001984	0	0		T	112175639	T	T	112175639	4	4	145	1	0	0	0	0	0	1	0	0	763	760	27	1	4406	1	APC	5	112175639	Nonsense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	957	112175639	68739621	49	76466											
PCDHB2	56133	broad.mit.edu	37	chr5	140476413	140476413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctcccggaggcggcacCggcccaggcccaggccgact	5	3	15	18	4	0	0	0	0	0	0	1	2	1	1	5	6	1	3	5	6	0	0			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr5:140476413C>T	uc003lil.2	+	1	2177	c.2039C>T	c.(2038-2040)CCG>CTG	p.P680L	PCDHB2_uc003lim.1_Missense_Mutation_p.P341L	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	680	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGGCGGCACCGGCCCAGGCC	0.687													11	109					0	0	0.028581	0	0		T	140476413	T	T	140476413	3	4	145	1	0	0	0	0	1	0	0	0	11561	652	23	1	2041	1	PCDHB2	5	140476413	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	28300774	140476413	40438847	50	76467											
PCDHB3	56132	broad.mit.edu	37	chr5	140482266	140482266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctcccggaggcggcacCggcccaggcccaggccgact	5	3	14	19	4	1	0	0	0	1	0	2	2	1	1	6	6	0	1	6	6	0	0			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr5:140482266C>T	uc003lio.2	+	1	2033	c.2033C>T	c.(2032-2034)CCG>CTG	p.P678L	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	678	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGGCGGCACCGGCCCAGGCC	0.672													5	204					0	0	0.00308	0	0		T	140482266	T	T	140482266	3	4	145	1	0	0	0	0	1	0	0	0	11562	652	23	1	2035	1	PCDHB3	5	140482266	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	5853	140482266	40432994	51	76468											
PCDHB11	56125	broad.mit.edu	37	chr5	140580481	140580481	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatatagactctggggacaaCggaagaattgtttgttccat	12	12	11	6	1	1	2	0	0	1	2	2	5	2	4	1	3	1	2	1	3	5	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr5:140580481C>T	uc003liy.2	+	1	1134	c.1134C>T	c.(1132-1134)AAC>AAT	p.N378N	PCDHB11_uc011daj.1_Silent_p.N13N	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	378	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGGGGACAACGGAAGAATTG	0.433													14	215					0	0	0.00499	0	0		T	140580481	T	T	140580481	2	4	145	1	0	0	0	0	0	0	0	1	11555	535	19	1		1	PCDHB11	5	140580481	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08	98215	140580481	40334779	52	76469											
HDAC3	8841	broad.mit.edu	37	chr5	141016342	141016342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcggggtcgtagaaataggCcacggtcttggccatggtgc	7	9	16	9	3	1	1	0	0	1	1	3	1	1	1	2	6	1	1	2	6	3	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr5:141016342C>T	uc003llf.2	-	1	82	c.16G>A	c.(16-18)GCC>ACC	p.A6T	HDAC3_uc003lle.1_5'Flank|HDAC3_uc010jgd.1_Missense_Mutation_p.A6T|HDAC3_uc010jge.1_RNA|RELL2_uc003lli.2_5'Flank|RELL2_uc003llh.2_5'Flank|RELL2_uc003llg.2_5'Flank|RELL2_uc010jgf.2_5'Flank	NM_003883	NP_003874	O15379	HDAC3_HUMAN	histone deacetylase 3	6	Histone deacetylase.				anti-apoptosis|cellular lipid metabolic process|negative regulation of cell cycle|negative regulation of JNK cascade|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|spindle assembly|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|spindle microtubule|transcriptional repressor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription corepressor activity|transcription factor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Vorinostat(DB02546)	TAGAAATAGGCCACGGTCTTG	0.483													14	139					0	0	0.028581	0	0		T	141016342	T	T	141016342	3	4	145	1	0	0	0	0	1	0	0	0	7024	739	26	2	1330	2	HDAC3	5	141016342	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	435861	141016342	39898918	53	76470											
NR3C1	2908	broad.mit.edu	37	chr5	142661488	142661488	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	acagaagttttttgatatttCcatttgaatattttggtatc	11	20	6	4	0	0	3	0	2	0	1	2	3	1	3	1	1	0	2	1	1	5	10			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr5:142661488C>G	uc003lmz.2	-	9	2792	c.2300G>C	c.(2299-2301)GGA>GCA	p.G767A	NR3C1_uc003lmy.2_Missense_Mutation_p.G768A|NR3C1_uc003lna.2_Intron|NR3C1_uc003lnb.2_Missense_Mutation_p.G767A|NR3C1_uc011dbk.1_Missense_Mutation_p.G370A|NR3C1_uc003lnc.2_Missense_Mutation_p.G767A|NR3C1_uc003lnd.2_Missense_Mutation_p.G767A|NR3C1_uc003lne.2_Missense_Mutation_p.G767A|NR3C1_uc003lnf.2_Missense_Mutation_p.G768A	NM_000176	NP_000167	P04150	GCR_HUMAN	glucocorticoid receptor isoform alpha	767	Steroid-binding.				chromatin modification|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus|transcription from RNA polymerase II promoter	mitochondrial matrix|nucleoplasm	glucocorticoid receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(2;3.2e-05)|all_hematologic(2;0.000361)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)		Amcinonide(DB00288)|Betamethasone(DB00443)|Budesonide(DB01222)|Dexamethasone(DB01234)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluticasone Propionate(DB00588)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol Etabonate(DB00873)|Methylprednisolone(DB00959)|Mifepristone(DB00834)|Mometasone(DB00764)|Prednisone(DB00635)	TTTGATATTTCCATTTGAATA	0.308													12	113					0	0	0.010729	0	0		G	142661488	G	G	142661488	3	3	145	1	0	0	0	0	1	0	0	0	10649	855	30	5	89	5	NR3C1	5	142661488	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	1645146	142661488	38253772	54	76471											
SLC22A23	63027	broad.mit.edu	37	chr6	3324180	3324180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactggcccgccatggccaCgaagctcgccaccatcgtaa	10	5	10	16	4	0	0	0	0	0	0	2	2	0	0	5	2	2	2	5	2	3	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr6:3324180C>T	uc003mvm.3	-	4	970	c.970G>A	c.(970-972)GTG>ATG	p.V324M	SLC22A23_uc003mvn.3_Missense_Mutation_p.V43M|SLC22A23_uc003mvo.3_Missense_Mutation_p.V43M|SLC22A23_uc003mvp.1_RNA|SLC22A23_uc010jnn.2_Missense_Mutation_p.V324M|SLC22A23_uc010jno.2_Missense_Mutation_p.V324M	NM_015482	NP_056297	A1A5C7	S22AN_HUMAN	solute carrier family 22, member 23 isoform a	324	Helical; (Potential).				ion transport	integral to membrane	transmembrane transporter activity			ovary(1)	1	Ovarian(93;0.0493)	all_hematologic(90;0.0905)				GCCATGGCCACGAAGCTCGCC	0.592													13	24					0	0	0.020292	0	0		T	3324180	T	T	3324180	3	4	145	1	0	0	0	0	1	0	0	0	14477	536	19	1	1118	1	SLC22A23	6	3324180	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08		3324180	167790887	55	76472											
HIST1H2AJ	8331	broad.mit.edu	37	chr6	27782460	27782460	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaactgaagcccggcccgaGaagagcgggtcttggccttg	9	6	15	11	3	1	3	0	1	1	2	1	5	1	3	3	3	3	0	3	3	3	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr6:27782460G>T	uc003njn.1	-	1	59	c.59C>A	c.(58-60)TCT>TAT	p.S20Y	HIST1H2BM_uc003njo.2_5'Flank	NM_021066	NP_066544	Q99878	H2A1J_HUMAN	histone cluster 1, H2aj	20					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CCCGGCCCGAGAAGAGCGGGT	0.602													17	71					7.41877e-09	8.74682e-09	0.012319	1	0		T	27782460	T	T	27782460	3	4	145	1	0	0	0	0	1	0	0	0	7152	942	33	5	331	5	HIST1H2AJ	6	27782460	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	24458280	27782460	143332607	56	76473											
TCF19	6941	broad.mit.edu	37	chr6	31130473	31130473	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gacttccgatgcccagggtgCcgggctggcattcagaccta	7	8	13	13	2	1	1	1	0	0	1	2	3	2	1	4	3	2	2	4	3	1	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr6:31130473C>T	uc003nss.2	+	4	1541	c.1017C>T	c.(1015-1017)TGC>TGT	p.C339C	TCF19_uc003nst.2_Silent_p.C339C	NM_001077511	NP_001070979	Q9Y242	TCF19_HUMAN	transcription factor 19	339	PHD-type.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCCCAGGGTGCCGGGCTGGCA	0.592													3	53					0	0	0.004672	0	0		T	31130473	T	T	31130473	2	4	145	1	0	0	0	0	0	0	0	1	15714	747	26	2		2	TCF19	6	31130473	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08	3348013	31130473	139984594	57	76474											
PI16	221476	broad.mit.edu	37	chr6	36929321	36929321	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacatcgaattactggtgtGcaactatgagcctccgtgag	11	10	10	10	2	0	2	0	2	0	0	2	3	1	2	2	1	5	1	2	1	5	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr6:36929321G>T	uc003ona.2	+	3	816	c.488G>T	c.(487-489)TGC>TTC	p.C163F	PI16_uc003omz.1_Missense_Mutation_p.C163F|PI16_uc003onb.2_Missense_Mutation_p.C163F|PI16_uc011dts.1_5'UTR	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	163	Extracellular (Potential).					extracellular region|integral to membrane	peptidase inhibitor activity				0						TTACTGGTGTGCAACTATGAG	0.597													42	111					4.0492e-12	4.95767e-12	0.027894	1	0		T	36929321	T	T	36929321	3	4	145	1	0	0	0	0	1	0	0	0	11888	1319	46	5	498	5	PI16	6	36929321	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	5798848	36929321	134185746	58	76475											
EYS	346007	broad.mit.edu	37	chr6	66204978	66204978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacacagccaacgaaagatGtttcagaaacattcatcaaa	18	7	6	10	1	3	2	3	0	0	2	3	3	3	2	1	0	3	2	1	0	4	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr6:66204978G>A	uc011dxu.1	-	4	864	c.326C>T	c.(325-327)ACA>ATA	p.T109I	EYS_uc003peq.2_Missense_Mutation_p.T109I|EYS_uc003per.1_Missense_Mutation_p.T109I|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	109					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						AACGAAAGATGTTTCAGAAAC	0.363													8	97					0	0	0.004482	0	0		A	66204978	A	A	66204978	3	1	145	1	0	0	0	0	1	0	0	0	5340	1377	48	4	9230	4	EYS	6	66204978	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	29275657	66204978	104910089	59	76476											
COL12A1	1303	broad.mit.edu	37	chr6	75861908	75861908	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgcaacaagctcttcttGtctctgtgtgcatttaactg	7	16	8	10	0	3	0	0	0	3	0	4	0	3	0	0	0	5	4	0	0	3	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr6:75861908G>C	uc003phs.2	-	19	3940	c.3774C>G	c.(3772-3774)GAC>GAG	p.D1258E	COL12A1_uc003pht.2_Missense_Mutation_p.D94E	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1258	VWFA 3.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						AGCTCTTCTTGTCTCTGTGTG	0.463													10	55					0	0	0.006214	0	0		C	75861908	C	C	75861908	3	2	145	1	0	0	0	0	1	0	0	0	3672	1368	48	5	5609	5	COL12A1	6	75861908	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	9656930	75861908	95253159	60	76477											
IBTK	25998	broad.mit.edu	37	chr6	82925890	82925890	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaggtaagtttctcaagtcGaattctttcatacacactat	14	14	5	8	1	3	0	2	0	2	0	5	1	3	0	0	1	1	2	0	1	6	6			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr6:82925890G>A	uc003pjl.1	-	11	2031	c.1504C>T	c.(1504-1506)CGA>TGA	p.R502*	IBTK_uc011dyv.1_Nonsense_Mutation_p.R502*|IBTK_uc011dyw.1_Nonsense_Mutation_p.R502*|IBTK_uc010kbi.1_Nonsense_Mutation_p.R196*|IBTK_uc003pjm.2_Nonsense_Mutation_p.R502*	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	502					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		TTCTCAAGTCGAATTCTTTCA	0.358													12	53					0	0	0.013537	0	0		A	82925890	A	A	82925890	4	1	145	1	0	0	0	0	0	1	0	0	7492	1066	37	1	2633	1	IBTK	6	82925890	Nonsense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	7063982	82925890	88189177	61	76478											
TBX18	9096	broad.mit.edu	37	chr6	85446858	85446858	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgctgctcacgcccacatAggagggagtcctgggcgggg	6	6	17	12	2	1	0	1	0	0	0	2	2	2	2	2	5	2	3	2	5	1	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr6:85446858A>T	uc003pkl.1	-	8	1369	c.1369T>A	c.(1369-1371)TAT>AAT	p.Y457N	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	457					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		ACGCCCACATAGGAGGGAGTC	0.582													16	104					0	0	0.028581	0	0		T	85446858	T	T	85446858	3	4	145	1	0	0	0	0	1	0	0	0	15678	420	15	5	458	5	TBX18	6	85446858	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	2520968	85446858	85668209	62	76479											
SDK1	221935	broad.mit.edu	37	chr7	4056825	4056825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgcctggctggccttcccGgagagtaccagcagcggaac	8	5	13	15	3	0	1	0	0	0	1	1	3	1	2	5	4	4	3	5	4	2	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr7:4056825G>A	uc003smx.2	+	17	2582	c.2443G>A	c.(2443-2445)GGA>AGA	p.G815R	SDK1_uc010kso.2_Missense_Mutation_p.G91R	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	815	Fibronectin type-III 2.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TGGCCTTCCCGGAGAGTACCA	0.572													7	65					0	0	0.00308	0	0		A	4056825	A	A	4056825	3	1	145	1	0	0	0	0	1	0	0	0	13993	1117	39	1	2509	1	SDK1	7	4056825	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08		4056825	155081838	63	76480											
FAM126A	84668	broad.mit.edu	37	chr7	23000007	23000007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agatttcatgggaccatgagGcaatgaagcctttattgcat	12	12	10	7	0	1	3	1	2	0	1	1	4	1	4	2	2	2	2	2	2	3	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr7:23000007G>A	uc003svm.3	-	10	1114	c.859C>T	c.(859-861)CCT>TCT	p.P287S	FAM126A_uc003svn.3_Missense_Mutation_p.P143S	NM_032581	NP_115970	Q9BYI3	HYCCI_HUMAN	family with sequence similarity 126, member A	287						cytoplasm|membrane	signal transducer activity			central_nervous_system(1)	1						GGACCATGAGGCAATGAAGCC	0.358													17	285					0	0	0.00499	0	0		A	23000007	A	A	23000007	3	1	145	1	0	0	0	0	1	0	0	0	5440	1203	42	2	714	2	FAM126A	7	23000007	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	18943182	23000007	136138656	64	76481											
BMPER	168667	broad.mit.edu	37	chr7	33946429	33946429	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttttcccccctgaatttcaGgttctgttgcaaaatgtgaa	9	16	7	9	0	2	2	1	2	1	0	3	2	3	2	3	1	1	3	3	1	4	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr7:33946429G>A	uc011kap.1	+	2	248	c.134_splice	c.e2-1	p.G45_splice		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor						blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						CTGAATTTCAGGTTCTGTTGC	0.363													8	110					0	0	0.004482	0	0		A	33946429	A	A	33946429	5	1	145	1	0	0	0	0	0	0	1	0	1469	1014	35	4	139	4	BMPER	7	33946429	Splice_Site	SNP	G	TCGA-CG-4476-01A-01D-1158-08	10946422	33946429	125192234	65	76482											
PSPH	5723	broad.mit.edu	37	chr7	56087384	56087384	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagggctaagcgctctgtgaGagcagctttgaaaggcactg	10	8	15	8	1	1	2	0	2	1	1	1	4	1	2	0	2	3	5	0	2	2	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr7:56087384G>C	uc003trg.2	-	4	547	c.184C>G	c.(184-186)CTC>GTC	p.L62V	PSPH_uc003trh.2_Missense_Mutation_p.L62V|PSPH_uc003tri.2_Missense_Mutation_p.L62V|PSPH_uc003trj.2_Missense_Mutation_p.L91V	NM_004577	NP_004568	P78330	SERB_HUMAN	phosphoserine phosphatase	62					L-serine biosynthetic process	cytoplasm	calcium ion binding|magnesium ion binding|phosphoserine phosphatase activity|protein homodimerization activity			ovary(1)|skin(1)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CGCTCTGTGAGAGCAGCTTTG	0.602													14	55					0	0	0.028581	0	0		C	56087384	C	C	56087384	3	2	145	1	0	0	0	0	1	0	0	0	12739	942	33	5	509	5	PSPH	7	56087384	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	22140955	56087384	103051279	66	76483											
MAGI2	9863	broad.mit.edu	37	chr7	77755084	77755084	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaatccattttgtattccCttcctccacgaatgctgaat	11	14	4	12	1	0	1	0	1	0	0	4	2	4	1	4	0	1	2	4	0	4	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr7:77755084C>G	uc003ugx.2	-	20	3748	c.3494G>C	c.(3493-3495)AGG>ACG	p.R1165T	MAGI2_uc003ugy.2_Missense_Mutation_p.R1151T|MAGI2_uc010ldx.1_Missense_Mutation_p.R758T	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	1165	PDZ 6.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TTTGTATTCCCTTCCTCCACG	0.403													23	142					0	0	0.016522	0	0		G	77755084	G	G	77755084	3	3	145	1	0	0	0	0	1	0	0	0	9209	681	24	5	885	5	MAGI2	7	77755084	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	21667700	77755084	81383579	67	76484											
SEMA3D	223117	broad.mit.edu	37	chr7	84671599	84671599	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgttgtcctcctacatcAttctgacatgaaaaaaaaaa	15	11	5	10	1	2	2	1	2	1	0	4	2	4	2	2	0	2	1	2	0	6	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr7:84671599A>T	uc003uic.2	-	8	904	c.864T>A	c.(862-864)AAT>AAA	p.N288K	SEMA3D_uc010led.2_Missense_Mutation_p.N288K|SEMA3D_uc003uib.2_5'Flank	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	288	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						CTCCTACATCATTCTGACATG	0.373													7	262					0	0	0.006214	0	0		T	84671599	T	T	84671599	3	4	145	1	0	0	0	0	1	0	0	0	14052	214	8	5	1509	5	SEMA3D	7	84671599	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	6916515	84671599	74467064	68	76485											
FSCN3	29999	broad.mit.edu	37	chr7	127238559	127238559	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcttccgaatgcactggaActgtggcaggatcatcctgc	8	11	11	11	1	2	0	1	0	1	0	4	3	4	2	2	3	3	3	2	3	2	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr7:127238559A>T	uc003vmd.1	+	4	1250	c.1031A>T	c.(1030-1032)AAC>ATC	p.N344I	FSCN3_uc011koh.1_Missense_Mutation_p.N210I|FSCN3_uc010llc.1_Missense_Mutation_p.N344I	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	344						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						ATGCACTGGAACTGTGGCAGG	0.577													31	159					0	0	0.013114	0	0		T	127238559	T	T	127238559	3	4	145	1	0	0	0	0	1	0	0	0	6083	43	2	5	1045	5	FSCN3	7	127238559	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	42566960	127238559	31900104	69	76486											
PARP12	64761	broad.mit.edu	37	chr7	139737608	139737608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtacagtaggccaggtaggCcttctccacgtcgctactgc	7	10	11	13	2	1	0	0	0	1	0	3	0	1	0	3	3	3	4	3	3	4	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr7:139737608C>T	uc003vvl.1	-	7	2105	c.1231G>A	c.(1231-1233)GCC>ACC	p.A411T	PARP12_uc003vvk.1_Missense_Mutation_p.A197T|PARP12_uc010lnf.1_Intron	NM_022750	NP_073587	Q9H0J9	PAR12_HUMAN	poly ADP-ribose polymerase 12	411	WWE 2.					nucleus	NAD+ ADP-ribosyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)	3	Melanoma(164;0.0142)					GCCAGGTAGGCCTTCTCCACG	0.552													18	68					0	0	0.007413	0	0		T	139737608	T	T	139737608	3	4	145	1	0	0	0	0	1	0	0	0	11476	739	26	2	898	2	PARP12	7	139737608	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	12499049	139737608	19401055	70	76487											
ZNF777	27153	broad.mit.edu	37	chr7	149148160	149148160	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatggtgggccgctccccGcgctccatctgtgacatgag	5	9	13	14	3	1	2	0	2	1	0	3	2	3	2	4	2	1	3	4	2	0	0			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr7:149148160G>A	uc003wfv.2	-	4	1180	c.1017C>T	c.(1015-1017)CGC>CGT	p.R339R		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	339	Glu-rich.|KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GCCGCTCCCCGCGCTCCATCT	0.542													32	110					0	0	0.015359	0	0		A	149148160	A	A	149148160	2	1	145	1	0	0	0	0	0	0	0	1	18175	1074	38	1		1	ZNF777	7	149148160	Silent	SNP	G	TCGA-CG-4476-01A-01D-1158-08	9410552	149148160	9990503	71	76488											
KCNU1	157855	broad.mit.edu	37	chr8	36675180	36675180	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcctaggtttattgtggtCtgtggaaacatcactgtgga	8	14	12	7	0	2	0	1	0	1	0	2	2	2	2	1	4	2	1	1	4	3	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr8:36675180C>T	uc010lvw.2	+	10	1095	c.1008C>T	c.(1006-1008)GTC>GTT	p.V336V	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	336	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		TTATTGTGGTCTGTGGAAACA	0.453													13	133					0	0	0.028581	0	0		T	36675180	T	T	36675180	2	4	145	1	0	0	0	0	0	0	0	1	8109	900	32	4		4	KCNU1	8	36675180	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08		36675180	109688842	72	76489											
PRKDC	5591	broad.mit.edu	37	chr8	48824975	48824975	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attcaaagcccttacctgatCaacatcacacgcaagtcgaa	15	8	5	13	2	3	1	3	1	0	0	4	2	3	1	2	0	3	1	2	0	5	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr8:48824975C>T	uc003xqi.2	-	25	2986	c.2929G>A	c.(2929-2931)GAT>AAT	p.D977N	PRKDC_uc003xqj.2_Missense_Mutation_p.D977N|PRKDC_uc011ldh.1_Missense_Mutation_p.D977N	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	977					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CTTACCTGATCAACATCACAC	0.423								NHEJ					27	178					0	0	0.007291	0	0		T	48824975	T	T	48824975	3	4	145	1	0	0	0	0	1	0	0	0	12543	826	29	4	9704	4	PRKDC	8	48824975	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	12149795	48824975	97539047	73	76490											
EYA1	2138	broad.mit.edu	37	chr8	72123457	72123457	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacaccacttttcttccaaaCctttgaattattctctcaaa	12	16	1	12	0	3	1	1	1	2	0	5	1	4	1	3	0	2	0	3	0	5	7			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr8:72123457C>A	uc003xys.3	-	16	1919	c.1632G>T	c.(1630-1632)AGG>AGT	p.R544S	EYA1_uc003xyr.3_Missense_Mutation_p.R509S|EYA1_uc003xyt.3_Missense_Mutation_p.R511S|EYA1_uc010lzf.2_Missense_Mutation_p.R471S|EYA1_uc003xyu.2_Missense_Mutation_p.R544S|EYA1_uc011lfe.1_Missense_Mutation_p.R538S|EYA1_uc003xyv.2_Missense_Mutation_p.R422S	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	544					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			TTCTTCCAAACCTTTGAATTA	0.358													9	111					2.17888e-05	2.41957e-05	0.006214	1	0		A	72123457	A	A	72123457	3	1	145	1	0	0	0	0	1	0	0	0	5336	506	18	5	154	5	EYA1	8	72123457	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	23298482	72123457	74240565	74	76491											
ZFHX4	79776	broad.mit.edu	37	chr8	77616929	77616929	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	catatcgcttcatccctcggGaaaccatttacagccgatca	11	10	6	14	3	2	0	2	0	0	0	5	2	3	1	3	1	3	1	3	1	3	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr8:77616929G>C	uc003yav.2	+	2	993	c.606G>C	c.(604-606)GGG>GGC	p.G202G	ZFHX4_uc003yat.1_Silent_p.G202G|ZFHX4_uc003yau.1_Silent_p.G202G|ZFHX4_uc003yaw.1_Silent_p.G202G	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	202						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CATCCCTCGGGAAACCATTTA	0.488										HNSCC(33;0.089)			3	41					0	0	0.009096	0	0		C	77616929	C	C	77616929	2	2	145	1	0	0	0	0	0	0	0	1	17660	1161	41	5		5	ZFHX4	8	77616929	Silent	SNP	G	TCGA-CG-4476-01A-01D-1158-08	5493472	77616929	68747093	75	76492											
INTS8	55656	broad.mit.edu	37	chr8	95862222	95862222	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttcattacattgttgaaAgatgaagaacgaaagctact	15	13	7	6	1	1	4	1	2	0	2	1	5	1	4	0	0	4	2	0	0	6	6			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr8:95862222A>T	uc003yhb.2	+	12	1536	c.1410A>T	c.(1408-1410)AAA>AAT	p.K470N	INTS8_uc003yha.1_Missense_Mutation_p.K470N|INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Missense_Mutation_p.K297N	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	470					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					CATTGTTGAAAGATGAAGAAC	0.363													9	113					0	0	0.004482	0	0		T	95862222	T	T	95862222	3	4	145	1	0	0	0	0	1	0	0	0	7800	69	3	5	1456	5	INTS8	8	95862222	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	18245293	95862222	50501800	76	76493											
EBAG9	9166	broad.mit.edu	37	chr8	110576743	110576743	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atggaaaaggaagcacaacgGctaatgaagaaggaacaaaa	22	3	11	5	1	0	2	0	1	0	1	0	5	0	5	0	4	3	2	0	4	10	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr8:110576743G>T	uc003ynf.2	+	7	832	c.597G>T	c.(595-597)CGG>CGT	p.R199R	EBAG9_uc003yng.2_Silent_p.R199R	NM_198120	NP_936056	O00559	RCAS1_HUMAN	estrogen receptor binding site associated	199	Cytoplasmic (Potential).|Potential.				apoptosis|regulation of cell growth	focal adhesion|Golgi membrane|integral to membrane|soluble fraction	apoptotic protease activator activity				0			OV - Ovarian serous cystadenocarcinoma(57;1.39e-14)			AAGCACAACGGCTAATGAAGA	0.378													14	111					0.000151284	0.000166065	0.016723	1	0		T	110576743	T	T	110576743	2	4	145	1	0	0	0	0	0	0	0	1	4885	1190	42	5		5	EBAG9	8	110576743	Silent	SNP	G	TCGA-CG-4476-01A-01D-1158-08	14714521	110576743	35787279	77	76494											
TLN1	7094	broad.mit.edu	37	chr9	35711653	35711653	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgaagtcctgtccaaatCggcctgaggctcgagccagg	8	8	13	12	2	0	2	0	2	0	0	4	3	2	2	4	3	2	2	4	3	2	0			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr9:35711653C>T	uc003zxt.2	-	29	4172	c.3818G>A	c.(3817-3819)CGA>CAA	p.R1273Q		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1273					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CTGTCCAAATCGGCCTGAGGC	0.602													69	156					0	0	0.01441	0	0		T	35711653	T	T	35711653	3	4	145	1	0	0	0	0	1	0	0	0	15972	884	31	1	3923	1	TLN1	9	35711653	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08		35711653	105501778	78	76495											
SVIL	6840	broad.mit.edu	37	chr10	29769635	29769635	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgtccttccaccaggccAtagccacggccgacgttcac	7	8	9	17	4	1	0	1	0	0	0	4	1	3	0	6	2	1	1	6	2	1	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr10:29769635A>T	uc001iut.1	-	29	5961	c.5208T>A	c.(5206-5208)TAT>TAA	p.Y1736*	LOC387647_uc001iup.2_Intron|LOC387647_uc001iuq.1_Intron|SVIL_uc010qdw.1_Nonsense_Mutation_p.Y650*|SVIL_uc001iuu.1_Nonsense_Mutation_p.Y1310*|SVIL_uc009xlc.2_Nonsense_Mutation_p.Y528*	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1736					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				CCACCAGGCCATAGCCACGGC	0.577													23	236					0	0	0.024334	0	0		T	29769635	T	T	29769635	4	4	145	1	0	0	0	0	0	1	0	0	15446	224	8	5	1476	5	SVIL	10	29769635	Nonsense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08		29769635	105765112	79	76496											
GDF2	2658	broad.mit.edu	37	chr10	48414362	48414362	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatcataaatgaccacgCttcctttcaggtcatgagag	13	10	8	10	1	3	2	3	2	0	1	4	4	4	2	2	1	1	1	2	1	3	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr10:48414362C>A	uc001jfa.1	-	2	669	c.506G>T	c.(505-507)AGC>ATC	p.S169I		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	169					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						AATGACCACGCTTCCTTTCAG	0.512													22	48					3.5997e-14	4.46456e-14	0.014323	1	0		A	48414362	A	A	48414362	3	1	145	1	0	0	0	0	1	0	0	0	6329	797	28	5	787	5	GDF2	10	48414362	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	18644727	48414362	87120385	80	76497											
USP54	159195	broad.mit.edu	37	chr10	75289589	75289589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggccgtgctgggccccagcGcttgtactgggggcttggtc	2	10	17	12	2	0	0	0	0	0	0	1	0	0	0	3	5	3	4	3	5	1	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr10:75289589G>A	uc001juo.2	-	13	1926	c.1909C>T	c.(1909-1911)CGC>TGC	p.R637C	USP54_uc001juk.2_5'UTR|USP54_uc001jul.2_5'UTR|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA|USP54_uc001jup.2_Missense_Mutation_p.R637C|USP54_uc010qkl.1_Missense_Mutation_p.R637C	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	637					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					GGGCCCCAGCGCTTGTACTGG	0.502											OREG0020266	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	223					0	0	0.014323	0	0		A	75289589	A	A	75289589	3	1	145	1	0	0	0	0	1	0	0	0	17111	1087	38	1	3185	1	USP54	10	75289589	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	26875227	75289589	60245158	81	76498											
CNNM1	26507	broad.mit.edu	37	chr10	101124268	101124268	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccatcatgaccactgcttGctcaggtattctagtttcca	9	13	7	12	0	3	1	2	1	1	0	4	1	4	1	3	1	3	4	3	1	2	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr10:101124268G>T	uc001kpp.3	+	5	2412	c.2123G>T	c.(2122-2124)TGC>TTC	p.C708F	CNNM1_uc009xwe.2_Missense_Mutation_p.C708F|CNNM1_uc010qpi.1_Missense_Mutation_p.C708F|CNNM1_uc009xwf.2_Missense_Mutation_p.C708F|CNNM1_uc009xwg.2_Missense_Mutation_p.C108F	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	708					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		ACCACTGCTTGCTCAGGTATT	0.368													7	23					0.00198382	0.0021652	0.001984	1	0		T	101124268	T	T	101124268	3	4	145	1	0	0	0	0	1	0	0	0	3615	1319	46	5	2141	5	CNNM1	10	101124268	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	25834679	101124268	34410479	82	76499											
NUP160	23279	broad.mit.edu	37	chr11	47814468	47814468	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgaacttctctgccaagcCgcattccatactcaaacatc	11	11	4	15	2	2	0	1	0	1	0	6	1	3	0	3	0	5	1	3	0	4	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr11:47814468C>A	uc001ngm.2	-	28	3405	c.3320G>T	c.(3319-3321)CGG>CTG	p.R1107L	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	1107					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						TCTGCCAAGCCGCATTCCATA	0.363													26	141					2.46105e-21	3.11299e-21	0.010818	1	0		A	47814468	A	A	47814468	3	1	145	1	0	0	0	0	1	0	0	0	10776	652	23	5	1026	5	NUP160	11	47814468	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08		47814468	87192048	83	76500											
MS4A14	84689	broad.mit.edu	37	chr11	60184013	60184013	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagatcagcaaagcaaaggCtggcaatctccaaagcagaa	17	6	9	9	0	2	2	1	0	1	2	3	2	2	2	1	2	3	5	1	2	6	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr11:60184013C>T	uc001npj.2	+	5	2137	c.1572C>T	c.(1570-1572)GGC>GGT	p.G524G	MS4A14_uc001npi.2_Silent_p.G412G|MS4A14_uc001npn.2_Silent_p.G262G|MS4A14_uc001npk.2_Silent_p.G507G|MS4A14_uc001npl.2_Silent_p.G262G|MS4A14_uc001npm.2_Silent_p.G262G	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	524	Gln-rich.					integral to membrane	receptor activity			breast(1)	1						AAAGCAAAGGCTGGCAATCTC	0.433													15	118					0	0	0.020292	0	0		T	60184013	T	T	60184013	2	4	145	1	0	0	0	0	0	0	0	1	9876	784	28	2		2	MS4A14	11	60184013	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08	12369545	60184013	74822503	84	76501											
SART1	9092	broad.mit.edu	37	chr11	65743976	65743976	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgtccgagttctgccgCaccttgggggagatccccac	6	7	12	16	3	1	1	0	0	1	1	3	3	3	1	6	2	1	2	6	2	0	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr11:65743976C>T	uc001ogl.2	+	13	1775	c.1683C>T	c.(1681-1683)CGC>CGT	p.R561R		NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	561					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1						AGTTCTGCCGCACCTTGGGGG	0.672													14	50					0	0	0.00499	0	0		T	65743976	T	T	65743976	2	4	145	1	0	0	0	0	0	0	0	1	13871	697	25	2		2	SART1	11	65743976	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08	5559963	65743976	69262540	85	76502											
PAK1	5058	broad.mit.edu	37	chr11	77066712	77066712	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaagctacaaattccttaCgtaatttctccaagatctcc	14	12	4	11	1	2	2	0	0	2	2	5	2	3	2	3	0	3	2	3	0	6	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr11:77066712C>T	uc001oyh.3	-	7	1305	c.772_splice	c.e7+1	p.R258_splice	PAK1_uc010rso.1_Splice_Site_p.R160_splice|PAK1_uc001oyg.3_Splice_Site_p.R258_splice|PAK1_uc001oyi.1_Splice_Site_p.R258_splice|PAK1_uc010rsn.1_Intron	NM_002576	NP_002567	Q13153	PAK1_HUMAN	p21-activated kinase 1 isoform 2						apoptosis|axon guidance|cytoskeleton organization|ER-nucleus signaling pathway|positive regulation of JUN kinase activity|positive regulation of peptidyl-serine phosphorylation|protein autophosphorylation|T cell costimulation|T cell receptor signaling pathway	cytosol|focal adhesion|Golgi apparatus	ATP binding|collagen binding|protein binding|protein serine/threonine kinase activity			skin(2)|stomach(1)|lung(1)	4	all_cancers(14;1.75e-18)					AAATTCCTTACGTAATTTCTC	0.448													28	221					0	0	0.007291	0	0		T	77066712	T	T	77066712	5	4	145	1	0	0	0	0	0	0	1	0	11418	550	19	1	953	1	PAK1	11	77066712	Splice_Site	SNP	C	TCGA-CG-4476-01A-01D-1158-08	11322736	77066712	57939804	86	76503											
FZD4	8322	broad.mit.edu	37	chr11	86663042	86663042	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagaaatatgatggggcgCtcagggtaggaaaacctaga	14	7	14	6	1	1	3	1	2	0	2	1	5	1	4	1	4	1	2	1	4	6	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr11:86663042C>T	uc001pce.2	-	2	1062	c.756G>A	c.(754-756)GAG>GAA	p.E252E	PRSS23_uc001pcc.1_RNA	NM_012193	NP_036325	Q9ULV1	FZD4_HUMAN	frizzled 4 precursor	252	Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|negative regulation of cell-substrate adhesion|neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|progesterone secretion|regulation of vascular endothelial growth factor receptor signaling pathway|substrate adhesion-dependent cell spreading|vasculogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cell projection|cell surface|cytoplasm	cytokine binding|G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			large_intestine(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TGATGGGGCGCTCAGGGTAGG	0.453													9	37					0	0	0.004482	0	0		T	86663042	T	T	86663042	2	4	145	1	0	0	0	0	0	0	0	1	6146	796	28	2		2	FZD4	11	86663042	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08	9596330	86663042	48343474	87	76504											
MED17	9440	broad.mit.edu	37	chr11	93543040	93543040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagtggtgactatgctatttCaggtactttctgctgctttg	7	17	10	7	0	2	1	1	1	1	0	2	1	2	1	0	2	4	4	0	2	4	6			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr11:93543040C>T	uc001pem.3	+	11	2017	c.1742C>T	c.(1741-1743)TCA>TTA	p.S581L		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	581					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TATGCTATTTCAGGTACTTTC	0.413													20	186					0	0	0.016522	0	0		T	93543040	T	T	93543040	3	4	145	1	0	0	0	0	1	0	0	0	9453	838	29	4	1784	4	MED17	11	93543040	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	6879998	93543040	41463476	88	76505											
OPCML	4978	broad.mit.edu	37	chr11	132527089	132527089	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattttggatcatgatgctgTactgggttggtgtattgacc	7	16	12	6	0	1	2	1	2	0	0	1	3	1	3	1	3	2	4	1	3	2	6			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr11:132527089T>C	uc001qgs.2	-	2	343	c.293A>G	c.(292-294)TAC>TGC	p.Y98C	OPCML_uc001qgu.2_Missense_Mutation_p.Y91C|OPCML_uc010sck.1_Missense_Mutation_p.Y98C|OPCML_uc001qgt.2_Missense_Mutation_p.Y98C|OPCML_uc010scl.1_Missense_Mutation_p.Y57C	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	98	Ig-like C2-type 1.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		CATGATGCTGTACTGGGTTGG	0.517													14	105					0	0	0.024245	0	0		C	132527089	C	C	132527089	3	2	145	1	0	0	0	0	1	0	0	0	10893	1638	57	3	768	3	OPCML	11	132527089	Missense_Mutation	SNP	T	TCGA-CG-4476-01A-01D-1158-08	38984049	132527089	2479427	89	76506											
PHC1	1911	broad.mit.edu	37	chr12	9074320	9074320	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctccccacccctcaacCagtctcaggcccagatgtat	9	7	5	20	0	2	1	2	0	1	1	4	1	3	1	8	1	1	1	8	1	2	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr12:9074320C>T	uc001qvd.2	+	5	586	c.430C>T	c.(430-432)CAG>TAG	p.Q144*	PHC1_uc001qvc.1_Nonsense_Mutation_p.Q107*|PHC1_uc010sgn.1_Nonsense_Mutation_p.Q144*|PHC1_uc001qve.2_Nonsense_Mutation_p.Q144*	NM_004426	NP_004417	P78364	PHC1_HUMAN	polyhomeotic 1-like	144					multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						ACCCCTCAACCAGTCTCAGGC	0.567													5	102					0	0	0.00308	0	0		T	9074320	T	T	9074320	4	4	145	1	0	0	0	0	0	1	0	0	11835	595	21	4	444	4	PHC1	12	9074320	Nonsense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08		9074320	124777575	90	76507											
ABCC9	10060	broad.mit.edu	37	chr12	21995340	21995340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaggagtagcataagaaatCatcccaatggcagacaggca	17	5	10	9	0	1	2	1	0	0	2	2	3	2	3	1	3	1	4	1	3	4	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr12:21995340C>T	uc001rfi.1	-	27	3401	c.3381G>A	c.(3379-3381)ATG>ATA	p.M1127I	ABCC9_uc001rfh.2_Missense_Mutation_p.M1127I|ABCC9_uc001rfj.1_Missense_Mutation_p.M1091I	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1127	ABC transmembrane type-1 2.|Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CATAAGAAATCATCCCAATGG	0.433													6	118					0	0	0.001984	0	0		T	21995340	T	T	21995340	3	4	145	1	0	0	0	0	1	0	0	0	59	826	29	4	1458	4	ABCC9	12	21995340	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	12921020	21995340	111856555	91	76508											
PDZRN4	29951	broad.mit.edu	37	chr12	41900359	41900359	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgttaaggcgaacaccTcttagtagaccagcctatgg	11	9	11	10	1	1	1	0	0	1	1	1	2	1	1	3	3	2	2	3	3	5	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr12:41900359T>A	uc010skn.1	+	4	416	c.348T>A	c.(346-348)CCT>CCA	p.P116P	PDZRN4_uc001rmq.3_Silent_p.P57P|PDZRN4_uc009zjz.2_Silent_p.P55P|PDZRN4_uc001rmr.2_5'Flank	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	315							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				GGCGAACACCTCTTAGTAGAC	0.512													11	67					0	0	0.013537	0	0		A	41900359	A	A	41900359	2	1	145	1	0	0	0	0	0	0	0	1	11729	1538	54	5		5	PDZRN4	12	41900359	Silent	SNP	T	TCGA-CG-4476-01A-01D-1158-08	19905019	41900359	91951536	92	76509											
PRICKLE1	144165	broad.mit.edu	37	chr12	42858256	42858256	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacactttgctctggtttcAggtctgacagacactccagg	9	11	10	11	0	3	2	1	1	2	1	4	3	4	2	1	3	2	2	1	3	1	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr12:42858256A>C	uc010skv.1	-	7	1867	c.1580T>G	c.(1579-1581)CTG>CGG	p.L527R	PRICKLE1_uc001rnl.2_Missense_Mutation_p.L527R|PRICKLE1_uc010skw.1_Missense_Mutation_p.L527R|PRICKLE1_uc001rnm.2_Missense_Mutation_p.L527R	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	527					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		CTCTGGTTTCAGGTCTGACAG	0.443													29	222					0	0	0.007291	0	0		C	42858256	C	C	42858256	3	2	145	1	0	0	0	0	1	0	0	0	12508	188	7	5	923	5	PRICKLE1	12	42858256	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	957897	42858256	90993639	93	76510											
KRT78	196374	broad.mit.edu	37	chr12	53242671	53242671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgagcagaacaggctgagCgagcgctgaagcccctctgg	10	4	15	12	3	1	3	0	2	1	1	1	5	1	3	2	2	6	3	2	2	2	0			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr12:53242671C>T	uc001sbc.1	-	1	108	c.44G>A	c.(43-45)CGC>CAC	p.R15H		NM_173352	NP_775487	Q8N1N4	K2C78_HUMAN	keratin 5b	15	Head.|Gly-rich.					keratin filament	protein binding|structural molecule activity			ovary(2)	2						ACAGGCTGAGCGAGCGCTGAA	0.632													11	25					0	0	0.008291	0	0		T	53242671	T	T	53242671	3	4	145	1	0	0	0	0	1	0	0	0	8507	768	27	1	1554	1	KRT78	12	53242671	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	10384415	53242671	80609224	94	76511											
LRRIQ1	84125	broad.mit.edu	37	chr12	85449766	85449766	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacagctaataataagtagtGcattaaagaagagcggatat	19	9	9	4	1	0	2	0	0	0	2	0	3	0	3	0	1	4	3	0	1	9	6			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr12:85449766G>C	uc001tac.2	+	8	1306	c.1195G>C	c.(1195-1197)GCA>CCA	p.A399P	LRRIQ1_uc001tab.1_Missense_Mutation_p.A399P|LRRIQ1_uc001taa.1_Missense_Mutation_p.A374P	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	399										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		AATAAGTAGTGCATTAAAGAA	0.279													3	112					0	0	0.004672	0	0		C	85449766	C	C	85449766	3	2	145	1	0	0	0	0	1	0	0	0	9047	1319	46	5	1221	5	LRRIQ1	12	85449766	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	32207095	85449766	48402129	95	76512											
KERA	11081	broad.mit.edu	37	chr12	91445274	91445274	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcatggatgggctgggaCatattacagagacattcaca	13	8	12	8	0	1	1	1	0	0	1	1	4	1	3	0	3	2	3	0	3	2	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr12:91445274C>A	uc001tbl.2	-	3	1527	c.908G>T	c.(907-909)TGT>TTT	p.C303F		NM_007035	NP_008966	O60938	KERA_HUMAN	keratocan precursor	303	LRR 10.				response to stimulus|visual perception	proteinaceous extracellular matrix				skin(1)	1						TGGGCTGGGACATATTACAGA	0.428													8	34					0.00448238	0.0048644	0.004482	1	0		A	91445274	A	A	91445274	3	1	145	1	0	0	0	0	1	0	0	0	8159	478	17	5	154	5	KERA	12	91445274	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	5995508	91445274	42406621	96	76513											
C12orf63	374467	broad.mit.edu	37	chr12	97073407	97073407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccaaagcgcttgtctgcGtgcccgtggacgtgacagac	8	7	14	12	4	1	2	0	1	1	1	1	4	1	3	2	1	4	1	2	1	1	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr12:97073407G>A	uc001tet.1	+	7	946	c.868G>A	c.(868-870)GTG>ATG	p.V290M		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	290										skin(6)|ovary(1)	7						GCTTGTCTGCGTGCCCGTGGA	0.468													35	167					0	0	0.009718	0	0		A	97073407	A	A	97073407	3	1	145	1	0	0	0	0	1	0	0	0	1709	1145	40	1	890	1	C12orf63	12	97073407	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	5628133	97073407	36778488	97	76514											
STAB2	55576	broad.mit.edu	37	chr12	104118856	104118856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagatggatttacctgccGcggcagcatttatcaggtaa	10	11	12	8	2	1	1	1	0	0	1	1	3	1	2	2	4	3	3	2	4	3	5	rs140998727		TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr12:104118856G>A	uc001tjw.2	+	45	4973	c.4787G>A	c.(4786-4788)CGC>CAC	p.R1596H	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1596	Extracellular (Potential).|FAS1 5.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity	p.R1596R(1)		ovary(9)|skin(5)	14						TTTACCTGCCGCGGCAGCATT	0.448													44	129					0	0	0.01441	0	0		A	104118856	A	A	104118856	3	1	145	1	0	0	0	0	1	0	0	0	15263	1087	38	1	4965	1	STAB2	12	104118856	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	7045449	104118856	29733039	98	76515											
C12orf51	283450	broad.mit.edu	37	chr12	112600915	112600915	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggcagtgtcgggacccccatCtttgcaggggcaggtgaacg	7	7	16	11	2	1	1	0	1	1	0	2	2	1	2	2	5	2	3	2	5	1	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr12:112600915C>G	uc009zwc.2	-	68	11803	c.11785G>C	c.(11785-11787)GAT>CAT	p.D3929H		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						GGACCCCCATCTTTGCAGGGG	0.627													45	170					0	0	0.01441	0	0		G	112600915	G	G	112600915	3	3	145	1	0	0	0	0	1	0	0	0	1699	913	32	5	213	5	C12orf51	12	112600915	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	8482059	112600915	21250980	99	76516											
DNAH10	196385	broad.mit.edu	37	chr12	124315205	124315205	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacacacagatgttctcaatGagattgtcacagcagcaatc	15	9	7	10	0	2	2	2	1	1	2	4	3	2	2	0	0	3	3	0	0	3	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr12:124315205G>C	uc001uft.3	+	25	4175	c.4150G>C	c.(4150-4152)GAG>CAG	p.E1384Q		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1384	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TGTTCTCAATGAGATTGTCAC	0.368													6	38					0	0	0.021553	0	0		C	124315205	C	C	124315205	3	2	145	1	0	0	0	0	1	0	0	0	4604	1291	45	5	4248	5	DNAH10	12	124315205	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	11714290	124315205	9536690	100	76517											
TUBA3C	7278	broad.mit.edu	37	chr13	19751671	19751671	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agagccgctccatgagcagaGatgcgaacccagagccagtg	12	4	13	12	2	0	4	0	1	0	3	1	6	1	4	4	0	5	2	4	0	1	0			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr13:19751671G>C	uc009zzj.2	-	4	501	c.452C>G	c.(451-453)TCT>TGT	p.S151C		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	151					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		CATGAGCAGAGATGCGAACCC	0.582													38	156					0	0	0.025465	0	0		C	19751671	C	C	19751671	3	2	145	1	0	0	0	0	1	0	0	0	16772	942	33	5	908	5	TUBA3C	13	19751671	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08		19751671	95418207	101	76518											
DCLK1	9201	broad.mit.edu	37	chr13	36379850	36379850	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttacattaacccagggatGctcaagtacttgaacagcag	14	9	8	10	0	1	1	1	1	0	0	1	2	1	2	1	1	6	3	1	1	5	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr13:36379850G>T	uc001uvf.2	-	15	2163	c.1930C>A	c.(1930-1932)CAT>AAT	p.H644N	DCLK1_uc001uve.3_Missense_Mutation_p.H337N|DCLK1_uc010teh.1_Missense_Mutation_p.H337N|DCLK1_uc010abk.2_Missense_Mutation_p.H164N	NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	644	Protein kinase.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		ACCCAGGGATGCTCAAGTACT	0.408													19	241					1.50039e-11	1.80236e-11	0.012319	1	0		T	36379850	T	T	36379850	3	4	145	1	0	0	0	0	1	0	0	0	4294	1319	46	5	275	5	DCLK1	13	36379850	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	16628179	36379850	78790028	102	76519											
SMAD9	4093	broad.mit.edu	37	chr13	37446989	37446989	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagggaggcgctgcggaacTtggccaggaggctgagctgg	7	5	20	9	2	0	1	0	1	0	0	0	4	0	4	1	7	3	4	1	7	1	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr13:37446989T>C	uc001uvw.2	-	3	819	c.476A>G	c.(475-477)AAG>AGG	p.K159R	SMAD9_uc001uvx.2_Missense_Mutation_p.K159R|SMAD9_uc010tep.1_5'UTR	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	159					BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		GCTGCGGAACTTGGCCAGGAG	0.562													20	64					0	0	0.014323	0	0		C	37446989	C	C	37446989	3	2	145	1	0	0	0	0	1	0	0	0	14789	1609	56	3	947	3	SMAD9	13	37446989	Missense_Mutation	SNP	T	TCGA-CG-4476-01A-01D-1158-08	1067139	37446989	77722889	103	76520											
LRCH1	23143	broad.mit.edu	37	chr13	47263329	47263329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataagcgattatctgccaccGaggtaaagttagtgatcaga	14	10	10	7	2	2	2	1	1	1	1	2	4	2	2	2	1	2	2	2	1	5	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr13:47263329G>A	uc001vbj.2	+	7	1248	c.1012G>A	c.(1012-1014)GAG>AAG	p.E338K	LRCH1_uc010acp.2_Missense_Mutation_p.E338K|LRCH1_uc001vbk.2_Missense_Mutation_p.E338K|LRCH1_uc001vbl.3_Missense_Mutation_p.E338K	NM_015116	NP_055931	Q9Y2L9	LRCH1_HUMAN	leucine-rich repeats and calponin homology (CH)	338										ovary(1)|central_nervous_system(1)	2		all_lung(13;5.61e-07)|Lung NSC(96;0.000117)|Breast(56;0.000141)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000123)		ATCTGCCACCGAGGTAAAGTT	0.368													5	254					0	0	0.014758	0	0		A	47263329	A	A	47263329	3	1	145	1	0	0	0	0	1	0	0	0	8950	1059	37	1	1038	1	LRCH1	13	47263329	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	9816340	47263329	67906549	104	76521											
CAB39L	81617	broad.mit.edu	37	chr13	49924993	49924993	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttggcaagtggttcatgtcGaatacattctctcagcataa	11	14	8	8	1	3	0	2	0	1	0	5	1	3	0	0	2	2	3	0	2	4	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr13:49924993G>A	uc001vcw.2	-	5	949	c.451C>T	c.(451-453)CGA>TGA	p.R151*	CAB39L_uc001vcx.2_Nonsense_Mutation_p.R151*|CAB39L_uc010adf.2_Nonsense_Mutation_p.R148*	NM_030925	NP_112187	Q9H9S4	CB39L_HUMAN	calcium binding protein 39-like	151					cell cycle arrest|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol	protein binding				0		Lung NSC(96;2.11e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.66e-09)|COAD - Colon adenocarcinoma(199;0.226)		GGTTCATGTCGAATACATTCT	0.373													12	195					0	0	0.013537	0	0		A	49924993	A	A	49924993	4	1	145	1	0	0	0	0	0	1	0	0	2529	1066	37	1	582	1	CAB39L	13	49924993	Nonsense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	2661664	49924993	65244885	105	76522											
SLITRK1	114798	broad.mit.edu	37	chr13	84454621	84454621	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagctgcagcccccagggCagggtaaactgttagctaag	10	6	13	12	1	0	0	0	0	0	0	0	0	0	0	2	2	5	7	2	2	4	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr13:84454621C>G	uc001vlk.2	-	1	1908	c.1022G>C	c.(1021-1023)TGC>TCC	p.C341S		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	341	Extracellular (Potential).|LRRNT 2.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GCCCCCAGGGCAGGGTAAACT	0.542													33	153					0	0	0.023175	0	0		G	84454621	G	G	84454621	3	3	145	1	0	0	0	0	1	0	0	0	14767	710	25	5	1072	5	SLITRK1	13	84454621	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	34529628	84454621	30715257	106	76523											
SLITRK5	26050	broad.mit.edu	37	chr13	88329122	88329122	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcctccagtacaatctcatCcgcgagattcagtctggaac	10	11	7	13	2	3	1	2	0	2	1	7	3	6	2	3	1	2	1	3	1	3	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr13:88329122C>T	uc001vln.2	+	2	1698	c.1479C>T	c.(1477-1479)ATC>ATT	p.I493I	SLITRK5_uc010tic.1_Silent_p.I252I	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	493	Extracellular (Potential).|LRR 10.					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					ACAATCTCATCCGCGAGATTC	0.542													12	130					0	0	0.010729	0	0		T	88329122	T	T	88329122	2	4	145	1	0	0	0	0	0	0	0	1	14771	845	30	4		4	SLITRK5	13	88329122	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08	3874501	88329122	26840756	107	76524											
SLITRK5	26050	broad.mit.edu	37	chr13	88330443	88330443	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaaccggaacgaatatctgGagttaaaagcaaaactaaac	19	6	7	9	2	1	0	0	0	1	0	1	3	1	2	2	2	5	2	2	2	10	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr13:88330443G>T	uc001vln.2	+	2	3019	c.2800G>T	c.(2800-2802)GAG>TAG	p.E934*	SLITRK5_uc010tic.1_Nonsense_Mutation_p.E693*	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	934	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CGAATATCTGGAGTTAAAAGC	0.517													54	246					1.03172e-35	1.32255e-35	0.01441	1	0		T	88330443	T	T	88330443	4	4	145	1	0	0	0	0	0	1	0	0	14771	1175	41	5	2802	5	SLITRK5	13	88330443	Nonsense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	1321	88330443	26839435	108	76525											
MIPOL1	145282	broad.mit.edu	37	chr14	37739664	37739664	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaagataaagaacagagaAaactaaagtttaagctggaa	23	6	9	3	0	0	4	0	0	0	4	0	6	0	5	0	1	3	2	0	1	11	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr14:37739664A>C	uc001wuc.2	+	7	930	c.427A>C	c.(427-429)AAA>CAA	p.K143Q	MIPOL1_uc010amr.2_RNA|MIPOL1_uc001wub.3_Missense_Mutation_p.K112Q|MIPOL1_uc001wud.2_Missense_Mutation_p.K143Q|MIPOL1_uc010ams.2_Missense_Mutation_p.K143Q|MIPOL1_uc001wue.2_Missense_Mutation_p.K112Q|MIPOL1_uc010amt.2_Intron	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	143	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		AGAACAGAGAAAACTAAAGTT	0.328													6	31					0	0	0.001984	0	0		C	37739664	C	C	37739664	3	2	145	1	0	0	0	0	1	0	0	0	9611	15	1	5	441	5	MIPOL1	14	37739664	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08		37739664	69609876	109	76526											
PTPN21	11099	broad.mit.edu	37	chr14	88945666	88945666	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggattagcatggtggcGtccgacagggacttcttatg	7	12	14	8	2	1	0	0	0	1	0	2	3	2	2	1	4	1	1	1	4	2	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr14:88945666G>A	uc001xwv.3	-	13	2440	c.2109C>T	c.(2107-2109)GAC>GAT	p.D703D	PTPN21_uc010twc.1_Silent_p.D499D	NM_007039	NP_008970	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type	703						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			ovary(3)|skin(1)	4						GCATGGTGGCGTCCGACAGGG	0.682													12	103					0	0	0.028581	0	0		A	88945666	A	A	88945666	2	1	145	1	0	0	0	0	0	0	0	1	12811	1136	40	1		1	PTPN21	14	88945666	Silent	SNP	G	TCGA-CG-4476-01A-01D-1158-08	51206002	88945666	18403874	110	76527											
KIAA1409	57578	broad.mit.edu	37	chr14	94120100	94120100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactccagcatgatggttccCggcaatgcggcgggggtggc	7	7	16	11	3	0	1	0	1	0	0	2	1	2	1	2	6	3	3	2	6	2	1	rs139115792		TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr14:94120100C>T	uc001ybv.1	+	35	5831	c.5748C>T	c.(5746-5748)CCC>CCT	p.P1916P	KIAA1409_uc001ybs.1_Silent_p.P1894P	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2071						integral to membrane		p.P1894P(1)		ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TGATGGTTCCCGGCAATGCGG	0.537													66	522					0	0	0.01441	0	0		T	94120100	T	T	94120100	2	4	145	1	0	0	0	0	0	0	0	1	8246	639	23	1		1	KIAA1409	14	94120100	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08	5174434	94120100	13229440	111	76528											
ATG2B	55102	broad.mit.edu	37	chr14	96789038	96789038	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaattctctccaaaatggAatgcatggctggtggattta	11	13	10	7	0	1	0	0	0	1	0	3	2	2	2	1	4	2	3	1	4	5	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr14:96789038A>T	uc001yfi.2	-	17	2940	c.2575T>A	c.(2575-2577)TCC>ACC	p.S859T		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	859										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		TCCAAAATGGAATGCATGGCT	0.378													27	86					0	0	0.008361	0	0		T	96789038	T	T	96789038	3	4	145	1	0	0	0	0	1	0	0	0	1095	246	9	5	3765	5	ATG2B	14	96789038	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	2668938	96789038	10560502	112	76529											
RTF1	23168	broad.mit.edu	37	chr15	41763442	41763442	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatcgggttcgattatcacgGcataagctagaacgctggtg	11	10	12	8	4	1	1	1	0	0	1	3	2	1	1	0	3	2	4	0	3	5	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr15:41763442G>A	uc001zny.2	+	8	1110	c.1098G>A	c.(1096-1098)CGG>CGA	p.R366R		NM_015138	NP_055953	Q92541	RTF1_HUMAN	Paf1/RNA polymerase II complex component	366	Plus3.				histone modification|regulation of transcription, DNA-dependent|transcription initiation, DNA-dependent	nucleoplasm	protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(109;1.79e-19)|all_epithelial(112;8.18e-17)|Lung NSC(122;3.16e-11)|all_lung(180;8.14e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;1.15e-16)|GBM - Glioblastoma multiforme(113;1.81e-06)|BRCA - Breast invasive adenocarcinoma(123;0.119)		GATTATCACGGCATAAGCTAG	0.458													4	239					0	0	0.009096	0	0		A	41763442	A	A	41763442	2	1	145	1	0	0	0	0	0	0	0	1	13746	1190	42	2		2	RTF1	15	41763442	Silent	SNP	G	TCGA-CG-4476-01A-01D-1158-08		41763442	60767950	113	76530											
ANKDD1A	348094	broad.mit.edu	37	chr15	65226358	65226358	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacctaagctgccttcactAtgcagccctcagtggctcgg	9	9	9	14	1	2	0	2	0	0	0	3	0	2	0	3	2	5	3	3	2	3	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr15:65226358A>G	uc002aoa.2	+	9	820	c.791A>G	c.(790-792)TAT>TGT	p.Y264C	ANKDD1A_uc002aoc.2_RNA|ANKDD1A_uc010bha.2_Missense_Mutation_p.Y173C	NM_182703	NP_874362	Q495B1	AKD1A_HUMAN	ankyrin repeat and death domain containing 1A	264	ANK 8.				signal transduction					ovary(1)	1						TGCCTTCACTATGCAGCCCTC	0.458													10	103					0	0	0.016723	0	0		G	65226358	G	G	65226358	3	3	145	1	0	0	0	0	1	0	0	0	624	449	16	3	825	3	ANKDD1A	15	65226358	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	23462916	65226358	37305034	114	76531											
IL16	3603	broad.mit.edu	37	chr15	81584977	81584977	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agaactcagcacccccgcatCgcagggctcagaaggtcatg	11	5	11	14	2	3	2	3	0	0	2	4	2	3	2	2	2	2	4	2	2	2	0			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr15:81584977C>G	uc002bgh.3	+	12	1877	c.1501C>G	c.(1501-1503)CGC>GGC	p.R501G	IL16_uc002bgc.2_RNA|IL16_uc010blq.1_Missense_Mutation_p.R501G|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Missense_Mutation_p.R543G|IL16_uc002bgg.2_Missense_Mutation_p.R501G|IL16_uc002bgi.1_Translation_Start_Site|IL16_uc002bgj.2_Translation_Start_Site|IL16_uc002bgk.2_5'Flank	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	501					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						ACCCCCGCATCGCAGGGCTCA	0.602													10	95					0	0	0.006214	0	0		G	81584977	G	G	81584977	3	3	145	1	0	0	0	0	1	0	0	0	7649	884	31	5	1543	5	IL16	15	81584977	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	16358619	81584977	20946415	115	76532											
FBXL16	146330	broad.mit.edu	37	chr16	747115	747115	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattgaggatcttctcgtcCgtggccagcggcggccgctc	4	9	13	15	5	2	1	0	1	2	0	5	2	3	2	4	4	1	1	4	4	0	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr16:747115C>T	uc002cjc.2	-	3	494	c.291G>A	c.(289-291)ACG>ACA	p.T97T	FBXL16_uc002cja.2_5'Flank|FBXL16_uc002cjb.2_5'Flank	NM_153350	NP_699181	Q8N461	FXL16_HUMAN	F-box and leucine-rich repeat protein 16	97	F-box.										0		Hepatocellular(780;0.0218)				TCTTCTCGTCCGTGGCCAGCG	0.697													6	40					0	0	0.004482	0	0		T	747115	T	T	747115	2	4	145	1	0	0	0	0	0	0	0	1	5726	639	23	1		1	FBXL16	16	747115	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08		747115	89607638	116	76533											
BTBD12	84464	broad.mit.edu	37	chr16	3647972	3647972	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgctggtgggtcctctccGtttcagacctctactgtgat	4	15	10	12	1	3	2	1	1	2	1	5	2	4	2	3	2	2	2	3	2	1	3	rs138799572		TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr16:3647972G>A	uc002cvp.2	-	6	1819	c.1192C>T	c.(1192-1194)CGG>TGG	p.R398W		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	398	Interaction with C20orf94, ERCC4 and MSH2.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						GGTCCTCTCCGTTTCAGACCT	0.577								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				6	101					0	0	0.001984	0	0		A	3647972	A	A	3647972	3	1	145	1	0	0	0	0	1	0	0	0	1543	1144	40	1	4352	1	BTBD12	16	3647972	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	2900857	3647972	86706781	117	76534											
ERCC4	2072	broad.mit.edu	37	chr16	14041537	14041537	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgtgaatttcgaagtgagcTtccatctctgatccatcgtc	8	13	9	11	3	1	3	0	3	1	0	7	4	3	3	2	0	1	1	2	0	2	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr16:14041537T>C	uc002dce.2	+	11	2093	c.2084T>C	c.(2083-2085)CTT>CCT	p.L695P	ERCC4_uc010uyz.1_Missense_Mutation_p.L245P	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	695	ERCC4.|Interaction with EME1 and ERCC1.				double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						CGAAGTGAGCTTCCATCTCTG	0.468			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				4	251					0	0	0.014758	0	0		C	14041537	C	C	14041537	3	2	145	1	0	0	0	0	1	0	0	0	5223	1609	56	3	2126	3	ERCC4	16	14041537	Missense_Mutation	SNP	T	TCGA-CG-4476-01A-01D-1158-08	10393565	14041537	76313216	118	76535											
NOMO1	23420	broad.mit.edu	37	chr16	14947462	14947462	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caagtgggggctacactgtgGtgagtaaagcagatttccgt	10	10	14	7	1	0	2	0	1	0	1	1	2	1	2	1	3	2	3	1	3	4	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr16:14947462G>T	uc002dcv.2	+	8	939	c.873_splice	c.e8+1	p.V291_splice		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor							integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						CTACACTGTGGTGAGTAAAGC	0.478													39	447					2.24893e-16	2.80749e-16	0.009718	1	0		T	14947462	T	T	14947462	5	4	145	1	0	0	0	0	0	0	1	0	10550	1275	44	5	904	5	NOMO1	16	14947462	Splice_Site	SNP	G	TCGA-CG-4476-01A-01D-1158-08	905925	14947462	75407291	119	76536											
DNAH3	55567	broad.mit.edu	37	chr16	21033315	21033315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcagagaagagtacagtctCatcattgagaaggcaaggtg	15	7	13	6	0	2	3	2	1	1	3	3	5	2	3	0	2	2	3	0	2	4	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr16:21033315C>T	uc010vbe.1	-	40	5754	c.5754G>A	c.(5752-5754)ATG>ATA	p.M1918I		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1918					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		AGTACAGTCTCATCATTGAGA	0.428													7	28					0	0	0.006214	0	0		T	21033315	T	T	21033315	3	4	145	1	0	0	0	0	1	0	0	0	4609	826	29	4	6687	4	DNAH3	16	21033315	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	6085853	21033315	69321438	120	76537											
SLC5A11	115584	broad.mit.edu	37	chr16	24918379	24918379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatggctgtgatggtggCggctctcatgtcctccctca	5	12	13	11	1	2	2	2	2	1	0	5	3	4	2	2	4	0	2	2	4	0	0			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr16:24918379C>T	uc002dmu.2	+	12	1380	c.1148C>T	c.(1147-1149)GCG>GTG	p.A383V	SLC5A11_uc002dms.2_Missense_Mutation_p.A319V|SLC5A11_uc010vcd.1_Missense_Mutation_p.A348V|SLC5A11_uc002dmt.2_Intron|SLC5A11_uc010vce.1_Missense_Mutation_p.A313V|SLC5A11_uc010bxt.2_Missense_Mutation_p.A319V|SLC5A11_uc002dmv.2_Missense_Mutation_p.A6V	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	383	Helical; (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		GTGATGGTGGCGGCTCTCATG	0.612													20	62					0	0	0.008871	0	0		T	24918379	T	T	24918379	3	4	145	1	0	0	0	0	1	0	0	0	14688	768	27	1	1190	1	SLC5A11	16	24918379	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	3885064	24918379	65436374	121	76538											
ZFHX3	463	broad.mit.edu	37	chr16	72828655	72828655	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatggttgttctcaaacgCttgtctctctgaggctcttc	5	16	10	10	1	4	2	1	2	4	0	7	2	4	2	0	2	1	4	0	2	1	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr16:72828655C>A	uc002fck.2	-	9	8599	c.7926G>T	c.(7924-7926)AAG>AAT	p.K2642N	ZFHX3_uc002fcl.2_Missense_Mutation_p.K1728N	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2642	Homeobox 3.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TTCTCAAACGCTTGTCTCTCT	0.488													8	635					2.17888e-05	2.41957e-05	0.006214	1	0		A	72828655	A	A	72828655	3	1	145	1	0	0	0	0	1	0	0	0	17659	796	28	5	3193	5	ZFHX3	16	72828655	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	47910276	72828655	17526098	122	76539											
SLC13A5	284111	broad.mit.edu	37	chr17	6607272	6607272	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgcttgtggcttccatctGctgcaatatggcctccacga	6	12	10	13	2	1	0	0	0	1	0	3	1	3	0	3	2	3	4	3	2	2	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr17:6607272G>T	uc002gdj.2	-	4	560	c.472C>A	c.(472-474)CAG>AAG	p.Q158K	SLC13A5_uc010vtf.1_Missense_Mutation_p.Q158K|SLC13A5_uc010clq.2_Missense_Mutation_p.Q115K|SLC13A5_uc002gdk.2_Missense_Mutation_p.Q141K|SLC13A5_uc002gdl.1_Missense_Mutation_p.Q140K	NM_177550	NP_808218	Q86YT5	S13A5_HUMAN	solute carrier family 13, member 5 isoform a	158						integral to membrane	citrate transmembrane transporter activity				0						GCTTCCATCTGCTGCAATATG	0.642													8	26					2.80697e-09	3.33001e-09	0.010729	1	0		T	6607272	T	T	6607272	3	4	145	1	0	0	0	0	1	0	0	0	14420	1328	46	5	1270	5	SLC13A5	17	6607272	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08		6607272	74587938	123	76540											
MYH13	8735	broad.mit.edu	37	chr17	10224947	10224947	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cagtgtttgctgatgggcctCctgtagagatttcttttctt	5	18	10	8	0	2	2	0	1	2	1	3	3	3	2	2	1	1	3	2	1	1	6			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr17:10224947C>G	uc002gmk.1	-	24	3103	c.3013G>C	c.(3013-3015)GAG>CAG	p.E1005Q	MYH13_uc010vve.1_Missense_Mutation_p.E103Q	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1005	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TGATGGGCCTCCTGTAGAGAT	0.378													21	44					0	0	0.012319	0	0		G	10224947	G	G	10224947	3	3	145	1	0	0	0	0	1	0	0	0	10050	864	30	5	2875	5	MYH13	17	10224947	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	3617675	10224947	70970263	124	76541											
KCNJ12	3768	broad.mit.edu	37	chr17	21319751	21319751	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggatctggtagagaacaAgttcctgctgcccagcgcca	11	7	12	11	1	1	1	0	0	1	1	2	4	2	2	3	2	4	3	3	2	4	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr17:21319751A>C	uc002gyv.1	+	3	1802	c.1097A>C	c.(1096-1098)AAG>ACG	p.K366T		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	366	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GTAGAGAACAAGTTCCTGCTG	0.587										Prostate(3;0.18)			5	101					0	0	0.021553	0	0		C	21319751	C	C	21319751	3	2	145	1	0	0	0	0	1	0	0	0	8062	72	3	5	1099	5	KCNJ12	17	21319751	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	11094804	21319751	59875459	125	76542											
MPP2	4355	broad.mit.edu	37	chr17	41959871	41959871	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgccgccctccacgcggaaCgttacaccctggaggtcaga	8	6	11	16	5	1	1	1	0	0	1	3	3	2	3	4	3	2	1	4	3	2	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr17:41959871C>T	uc010wip.1	-	6	654	c.597G>A	c.(595-597)ACG>ACA	p.T199T	MPP2_uc002ien.1_Silent_p.T171T|MPP2_uc010wim.1_Silent_p.T143T|MPP2_uc002ieo.1_Silent_p.T154T|MPP2_uc010win.1_Silent_p.T15T|MPP2_uc010wio.1_Silent_p.T143T|MPP2_uc010czm.1_Silent_p.T137T	NM_005374	NP_005365	Q14168	MPP2_HUMAN	palmitoylated membrane protein 2	178					signal transduction	cell surface|integral to plasma membrane|membrane fraction	guanylate kinase activity				0		Breast(137;0.00314)		BRCA - Breast invasive adenocarcinoma(366;0.12)		CCACGCGGAACGTTACACCCT	0.562													12	45					0	0	0.016723	0	0		T	41959871	T	T	41959871	2	4	145	1	0	0	0	0	0	0	0	1	9752	523	19	1		1	MPP2	17	41959871	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08	20640120	41959871	39235339	126	76543											
SCPEP1	59342	broad.mit.edu	37	chr17	55058576	55058576	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacttctcagaactgcccctGgtcatgtggcttcaggtaaa	10	11	9	11	0	3	1	3	0	1	1	4	1	3	1	2	3	3	2	2	3	4	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr17:55058576G>T	uc002iuv.3	+	2	263	c.210G>T	c.(208-210)CTG>CTT	p.L70L	SCPEP1_uc010dcl.2_RNA|SCPEP1_uc010wnk.1_Silent_p.L20L	NM_021626	NP_067639	Q9HB40	RISC_HUMAN	serine carboxypeptidase 1 precursor	70					proteolysis	extracellular region	serine-type carboxypeptidase activity			skin(1)	1	Breast(9;2.86e-08)					AACTGCCCCTGGTCATGTGGC	0.512													10	48					7.48243e-07	8.55775e-07	0.006214	1	0		T	55058576	T	T	55058576	2	4	145	1	0	0	0	0	0	0	0	1	13960	1335	47	5		5	SCPEP1	17	55058576	Silent	SNP	G	TCGA-CG-4476-01A-01D-1158-08	13098705	55058576	26136634	127	76544											
METTL4	64863	broad.mit.edu	37	chr18	2539062	2539062	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aatttgagaacttcattgccCcaactagtccaacctggctg	11	11	7	12	0	1	1	1	1	0	1	2	2	2	1	4	1	4	1	4	1	5	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr18:2539062C>T	uc002klh.3	-	9	2136	c.1356G>A	c.(1354-1356)TGG>TGA	p.W452*	METTL4_uc010dkj.2_3'UTR	NM_022840	NP_073751	Q8N3J2	METL4_HUMAN	methyltransferase like 4	452					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		methyltransferase activity|nucleic acid binding			kidney(1)|skin(1)	2						CTTCATTGCCCCAACTAGTCC	0.368													42	139					0	0	0.013114	0	0		T	2539062	T	T	2539062	4	4	145	1	0	0	0	0	0	1	0	0	9520	624	22	4	66	4	METTL4	18	2539062	Nonsense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08		2539062	75538186	128	76545											
LAMA1	284217	broad.mit.edu	37	chr18	6983112	6983112	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctaccaggctcgtctcagTcacagtcctgtgagcatctc	7	11	8	15	1	3	1	2	1	2	0	8	1	5	1	3	1	2	2	3	1	1	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr18:6983112T>A	uc002knm.2	-	40	5876	c.5782A>T	c.(5782-5784)ACT>TCT	p.T1928S	LAMA1_uc010wzj.1_Missense_Mutation_p.T1404S	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1928	Domain II and I.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTCGTCTCAGTCACAGTCCTG	0.512													4	105					0	0	0.009096	0	0		A	6983112	A	A	6983112	3	1	145	1	0	0	0	0	1	0	0	0	8621	1667	58	5	3541	5	LAMA1	18	6983112	Missense_Mutation	SNP	T	TCGA-CG-4476-01A-01D-1158-08	4444050	6983112	71094136	129	76546											
ADAMTS10	81794	broad.mit.edu	37	chr19	8670006	8670006	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccaggccaggccctccCgtgtccagtactccacggag	6	7	11	17	2	1	0	0	0	1	0	4	1	4	1	6	3	2	1	6	3	1	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr19:8670006C>A	uc002mkj.1	-	4	600	c.326G>T	c.(325-327)CGG>CTG	p.R109L	ADAMTS10_uc002mkk.1_5'UTR	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	109					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						CAGGCCCTCCCGTGTCCAGTA	0.672													3	34					0.004672	0.00504154	0.004672	1	0		A	8670006	A	A	8670006	3	1	145	1	0	0	0	0	1	0	0	0	256	652	23	5	3077	5	ADAMTS10	19	8670006	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08		8670006	50458977	130	76547											
MUC16	94025	broad.mit.edu	37	chr19	8994159	8994159	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctgagcaaggtcagcctGcagccagagtacagagggcc	11	4	13	13	0	1	3	1	1	0	2	1	3	1	3	4	2	5	3	4	2	2	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr19:8994159G>T	uc002mkp.2	-	65	41730	c.41526C>A	c.(41524-41526)TGC>TGA	p.C13842*	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Nonsense_Mutation_p.C659*|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13845	Extracellular (Potential).|SEA 12.			Missing (in Ref. 3; AAK74120).	cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGGTCAGCCTGCAGCCAGAGT	0.532													5	54					3.59834e-05	3.97273e-05	0.021553	1	0		T	8994159	T	T	8994159	4	4	145	1	0	0	0	0	0	1	0	0	9991	1311	46	5	2077	5	MUC16	19	8994159	Nonsense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	324153	8994159	50134824	131	76548											
DOCK6	57572	broad.mit.edu	37	chr19	11313353	11313353	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcaccgaagtgggcgccgtaGaagcccacgcggaaatacgt	11	5	13	12	6	1	1	1	0	0	1	1	3	1	2	3	2	2	1	3	2	5	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr19:11313353G>C	uc002mqs.3	-	42	5309	c.5268C>G	c.(5266-5268)TTC>TTG	p.F1756L	DOCK6_uc002mqr.3_Missense_Mutation_p.F156L|DOCK6_uc010xlq.1_Missense_Mutation_p.F1095L	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1756	DHR-2.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						GGGCGCCGTAGAAGCCCACGC	0.617													73	140					0	0	0.01441	0	0		C	11313353	C	C	11313353	3	2	145	1	0	0	0	0	1	0	0	0	4697	933	33	5	903	5	DOCK6	19	11313353	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	2319194	11313353	47815630	132	76549											
BEST2	54831	broad.mit.edu	37	chr19	12866462	12866462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactgtacagctacttcctgGcttgcctcattggtcgccag	6	12	9	14	1	1	0	1	0	0	0	3	0	2	0	3	2	4	3	3	2	2	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr19:12866462G>A	uc002mux.2	+	6	748	c.748G>A	c.(748-750)GCT>ACT	p.A250T		NM_017682	NP_060152	Q8NFU1	BEST2_HUMAN	vitelliform macular dystrophy 2-like 1	250	Extracellular (Potential).				membrane depolarization|sensory perception of smell	chloride channel complex|cilium|plasma membrane	chloride channel activity			ovary(1)|pancreas(1)	2						CTACTTCCTGGCTTGCCTCAT	0.577													39	52					0	0	0.027894	0	0		A	12866462	A	A	12866462	3	1	145	1	0	0	0	0	1	0	0	0	1406	1203	42	2	770	2	BEST2	19	12866462	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	1553109	12866462	46262521	133	76550											
RAD23A	5886	broad.mit.edu	37	chr19	13060148	13060148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agttccagaacatgcggcagGtgattcagcagaaccctgcg	11	7	12	11	2	1	3	1	1	0	2	2	3	2	3	2	2	5	3	2	2	2	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr19:13060148G>A	uc002mvw.1	+	7	848	c.739G>A	c.(739-741)GTG>ATG	p.V247M	RAD23A_uc002mvx.1_Missense_Mutation_p.V246M|RAD23A_uc002mvz.1_Missense_Mutation_p.V246M|RAD23A_uc002mwa.1_Missense_Mutation_p.V247M|RAD23A_uc002mvy.1_Missense_Mutation_p.V81M|RAD23A_uc010xmw.1_Missense_Mutation_p.V82M	NM_005053	NP_005044	P54725	RD23A_HUMAN	UV excision repair protein RAD23 homolog A	247					interspecies interaction between organisms|nucleotide-excision repair|positive regulation of viral genome replication|proteasomal ubiquitin-dependent protein catabolic process|regulation of proteasomal ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	damaged DNA binding|polyubiquitin binding|single-stranded DNA binding			central_nervous_system(1)	1						CATGCGGCAGGTGATTCAGCA	0.637								NER					53	60					0	0	0.01441	0	0		A	13060148	A	A	13060148	3	1	145	1	0	0	0	0	1	0	0	0	13007	1261	44	4	765	4	RAD23A	19	13060148	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	193686	13060148	46068835	134	76551											
DLL3	10683	broad.mit.edu	37	chr19	39995993	39995993	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtgtgtcgggggtgcagAccctgactctgcctacatct	5	12	12	12	1	2	2	0	1	2	1	3	2	2	2	2	2	3	1	2	2	1	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr19:39995993A>C	uc002olx.2	+	6	1053	c.995A>C	c.(994-996)GAC>GCC	p.D332A	DLL3_uc010egq.2_Missense_Mutation_p.D332A|DLL3_uc002olw.2_Missense_Mutation_p.D332A	NM_016941	NP_058637	Q9NYJ7	DLL3_HUMAN	delta-like 3 protein isoform 1 precursor	332	EGF-like 3.|Extracellular (Potential).				Notch signaling pathway|skeletal system development	integral to membrane	Notch binding			central_nervous_system(2)|breast(1)	3	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GGGGGTGCAGACCCTGACTCT	0.637													9	66					0	0	0.007291	0	0		C	39995993	C	C	39995993	3	2	145	1	0	0	0	0	1	0	0	0	4573	275	10	5	1017	5	DLL3	19	39995993	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	26935845	39995993	19132990	135	76552											
SLC13A3	64849	broad.mit.edu	37	chr20	45239108	45239108	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctcttcactctcctggCtggggtcctttcgaacctcc	3	15	8	15	1	3	0	1	0	2	0	8	1	5	0	4	3	1	2	4	3	1	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr20:45239108C>A	uc002xsf.1	-	3	556	c.518G>T	c.(517-519)AGC>ATC	p.S173I	SLC13A3_uc010ghn.1_Missense_Mutation_p.S142I|SLC13A3_uc010zxw.1_Missense_Mutation_p.S173I|SLC13A3_uc002xsg.1_Missense_Mutation_p.S126I|SLC13A3_uc010gho.1_Missense_Mutation_p.S126I|SLC13A3_uc010zxx.1_Missense_Mutation_p.S75I|SLC13A3_uc002xsi.3_Missense_Mutation_p.S126I	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	173	Cytoplasmic (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	ACTCTCCTGGCTGGGGTCCTT	0.532													144	410					5.18383e-78	6.68994e-78	0.01441	1	0		A	45239108	A	A	45239108	3	1	145	1	0	0	0	0	1	0	0	0	14418	797	28	5	1334	5	SLC13A3	20	45239108	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08		45239108	17786412	136	76553											
TIAM1	7074	broad.mit.edu	37	chr21	32492849	32492849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatccagggttttccggcctCtttcccgctgactgatggag	5	13	11	12	2	1	2	0	2	1	0	4	3	4	3	4	3	0	2	4	3	1	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr21:32492849C>T	uc002yow.1	-	29	5085	c.4613G>A	c.(4612-4614)AGA>AAA	p.R1538K	TIAM1_uc011adk.1_3'UTR|TIAM1_uc011adl.1_Missense_Mutation_p.R1478K	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1538					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TTTCCGGCCTCTTTCCCGCTG	0.602													17	44					0	0	0.007413	0	0		T	32492849	T	T	32492849	3	4	145	1	0	0	0	0	1	0	0	0	15915	913	32	4	166	4	TIAM1	21	32492849	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08		32492849	15637046	137	76554											
MX2	4600	broad.mit.edu	37	chr21	42770928	42770928	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagccaggaggccgacaaGatgttctttctaattgaggt	10	10	11	10	1	2	2	0	1	2	1	2	4	2	3	3	3	1	1	3	3	2	4			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr21:42770928G>T	uc002yzf.1	+	9	1358	c.1254G>T	c.(1252-1254)AAG>AAT	p.K418N	MX2_uc011aer.1_RNA|MX2_uc002yzg.1_Missense_Mutation_p.K141N|MX2_uc010gop.1_5'UTR	NM_002463	NP_002454	P20592	MX2_HUMAN	myxovirus resistance protein 2	418					response to virus|type I interferon-mediated signaling pathway	cytoplasm|nucleus	GTP binding|GTPase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0222)				AGGCCGACAAGATGTTCTTTC	0.592													19	74					1.28384e-07	1.48614e-07	0.012319	1	0		T	42770928	T	T	42770928	3	4	145	1	0	0	0	0	1	0	0	0	10016	933	33	5	1284	5	MX2	21	42770928	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	10278079	42770928	5358967	138	76555											
MCM3AP	8888	broad.mit.edu	37	chr21	47703695	47703695	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagggagacaagcccccaAgactgtctgtgctctcgctt	9	8	11	13	1	2	3	0	0	2	3	3	4	2	3	2	1	2	2	2	1	2	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr21:47703695A>G	uc002zir.1	-	2	1313	c.1277T>C	c.(1276-1278)CTT>CCT	p.L426P	C21orf57_uc002zit.1_5'Flank|C21orf57_uc002ziu.1_5'Flank|C21orf57_uc002ziv.2_5'Flank|C21orf57_uc002ziw.2_5'Flank|C21orf57_uc002zix.2_5'Flank|C21orf57_uc010gqh.2_5'Flank|C21orf57_uc002ziy.2_5'Flank	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	426					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					CAAGCCCCCAAGACTGTCTGT	0.493													31	83					0	0	0.023175	0	0		G	47703695	G	G	47703695	3	3	145	1	0	0	0	0	1	0	0	0	9406	72	3	3	4773	3	MCM3AP	21	47703695	Missense_Mutation	SNP	A	TCGA-CG-4476-01A-01D-1158-08	4932767	47703695	426200	139	76556											
CECR1	51816	broad.mit.edu	37	chr22	17670888	17670888	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggagccccatggccattcGgatggattctgcgatgacag	8	9	13	11	3	1	1	0	1	1	0	3	5	1	4	3	4	2	0	3	4	0	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr22:17670888G>A	uc002zmk.1	-	5	1128	c.916C>T	c.(916-918)CGA>TGA	p.R306*	CECR1_uc010gqu.1_Nonsense_Mutation_p.R306*|CECR1_uc011agi.1_Nonsense_Mutation_p.R264*|CECR1_uc011agj.1_3'UTR|CECR1_uc002zmj.1_Nonsense_Mutation_p.R65*	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	306					adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				ATGGCCATTCGGATGGATTCT	0.567													28	63					0	0	0.010818	0	0		A	17670888	A	A	17670888	4	1	145	1	0	0	0	0	0	1	0	0	3208	1124	39	1	639	1	CECR1	22	17670888	Nonsense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08		17670888	33633678	140	76557											
PPM1F	9647	broad.mit.edu	37	chr22	22287943	22287943	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagcaaagtaggcgcggttCacagggtcctggtggggatg	9	7	17	8	2	1	0	1	0	0	0	2	1	2	1	1	6	1	3	1	6	2	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr22:22287943C>T	uc002zvp.1	-	5	681	c.567G>A	c.(565-567)GTG>GTA	p.V189V	PPM1F_uc011aik.1_Silent_p.V85V|PPM1F_uc002zvq.2_Silent_p.V189V	NM_014634	NP_055449	P49593	PPM1F_HUMAN	protein phosphatase 1F	189					apoptosis|protein dephosphorylation	protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(2)|large_intestine(1)|breast(1)|kidney(1)	5	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.155)		AGGCGCGGTTCACAGGGTCCT	0.667													7	82					0	0	0.001984	0	0		T	22287943	T	T	22287943	2	4	145	1	0	0	0	0	0	0	0	1	12361	813	29	4		4	PPM1F	22	22287943	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08	4617055	22287943	29016623	141	76558											
HPS4	89781	broad.mit.edu	37	chr22	26853885	26853885	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgctatgcatcaggctgacgGcctggaggaagcggcgatcc	8	6	15	12	4	1	1	1	1	0	0	2	4	2	3	2	5	2	3	2	5	2	1			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr22:26853885G>T	uc003acl.2	-	13	2554	c.1895C>A	c.(1894-1896)GCC>GAC	p.A632D	HPS4_uc003aci.2_Missense_Mutation_p.A627D|HPS4_uc003acj.2_Missense_Mutation_p.A496D|HPS4_uc003ack.2_Missense_Mutation_p.A423D|HPS4_uc003acn.2_Missense_Mutation_p.A478D|HPS4_uc003ach.2_Missense_Mutation_p.A367D	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	632					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						CAGGCTGACGGCCTGGAGGAA	0.592									Hermansky-Pudlak_syndrome				6	42					5.18039e-06	5.88961e-06	0.00308	1	0		T	26853885	T	T	26853885	3	4	145	1	0	0	0	0	1	0	0	0	7357	1203	42	5	239	5	HPS4	22	26853885	Missense_Mutation	SNP	G	TCGA-CG-4476-01A-01D-1158-08	4565942	26853885	24450681	142	76559											
SMCR7L	54471	broad.mit.edu	37	chr22	39909957	39909957	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacctgtggcggctgagcCtgcgtcccgcggagacggca	7	5	15	14	5	0	2	0	1	0	1	1	3	1	2	3	4	3	2	3	4	1	0			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chr22:39909957C>A	uc003axx.2	+	6	1519	c.1021C>A	c.(1021-1023)CTG>ATG	p.L341M	SMCR7L_uc003axw.2_Missense_Mutation_p.L341M|SMCR7L_uc010gxz.1_Missense_Mutation_p.L163M|SMCR7L_uc003axy.2_Missense_Mutation_p.L163M	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	341						integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					GCGGCTGAGCCTGCGTCCCGC	0.612											OREG0026577	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	49					6.31663e-08	7.35656e-08	0.024245	1	0		A	39909957	A	A	39909957	3	1	145	1	0	0	0	0	1	0	0	0	14816	680	24	5	1035	5	SMCR7L	22	39909957	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	13056072	39909957	11394609	143	76560											
SLC25A6	293	broad.mit.edu	37	chrX	1508415	1508415	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacctccagaactgcgtgTgcttgtccacgccccccagg	7	8	10	16	2	0	1	0	0	0	1	2	1	2	1	6	1	4	2	6	1	2	2			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chrX:1508415T>C	uc004cpt.2	-	2	413	c.317A>G	c.(316-318)CAC>CGC	p.H106R	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	106				KHTQ -> RHA (in Ref. 5; AAA36750).	active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	GAACTGCGTGTGCTTGTCCAC	0.607													29	193					0	0	0.008361	0	0		C	1508415	C	C	1508415	3	2	145	1	0	0	0	0	1	0	0	0	14538	1696	59	3	591	3	SLC25A6	23	1508415	Missense_Mutation	SNP	T	TCGA-CG-4476-01A-01D-1158-08		1508415	153762145	144	76561											
GPR173	54328	broad.mit.edu	37	chrX	53106025	53106025	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatggcatacgctctgccgtCtgcttcccctttgtgctggc	3	13	11	14	2	2	0	0	0	2	0	3	1	3	0	3	2	4	4	3	2	1	3			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chrX:53106025C>T	uc004dru.2	+	2	480	c.222C>T	c.(220-222)GTC>GTT	p.V74V		NM_018969	NP_061842	Q9NS66	GP173_HUMAN	G protein-coupled receptor 173	74	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						GCTCTGCCGTCTGCTTCCCCT	0.582													25	60					0	0	0.009535	0	0		T	53106025	T	T	53106025	2	4	145	1	0	0	0	0	0	0	0	1	6686	900	32	4		4	GPR173	23	53106025	Silent	SNP	C	TCGA-CG-4476-01A-01D-1158-08	51597610	53106025	102164535	145	76562											
PCDH11X	27328	broad.mit.edu	37	chrX	91133209	91133209	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtatcacgttcttcaagtgCcaaagtaaccataaatgtgg	14	11	8	8	1	3	0	2	0	1	0	3	0	3	0	2	1	2	3	2	1	6	5			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chrX:91133209C>A	uc004efk.1	+	2	2815	c.1970C>A	c.(1969-1971)GCC>GAC	p.A657D	PCDH11X_uc004efl.1_Missense_Mutation_p.A657D|PCDH11X_uc004efo.1_Missense_Mutation_p.A657D|PCDH11X_uc010nmv.1_Missense_Mutation_p.A657D|PCDH11X_uc004efm.1_Missense_Mutation_p.A657D|PCDH11X_uc004efn.1_Missense_Mutation_p.A657D|PCDH11X_uc004efh.1_Missense_Mutation_p.A657D|PCDH11X_uc004efj.1_Missense_Mutation_p.A657D	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	657	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TCTTCAAGTGCCAAAGTAACC	0.378													33	52					7.05121e-23	8.97854e-23	0.010771	1	0		A	91133209	A	A	91133209	3	1	145	1	0	0	0	0	1	0	0	0	11527	739	26	5	1976	5	PCDH11X	23	91133209	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	38027184	91133209	64137351	146	76563											
CAPN6	827	broad.mit.edu	37	chrX	110496246	110496246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctccttactttgcataagCtttttccagcagagcattcc	9	14	5	13	0	0	1	0	0	0	1	3	1	3	1	4	0	5	4	4	0	2	6			TCGA-CG-4476-01A-01D-1158-08	TCGA-CG-4476-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	38c30e53-4e81-49ce-b794-5f762ed76f1e	e6d94f34-0c27-4a7b-adbd-d0fab08eb80d	g.chrX:110496246C>T	uc004epc.1	-	4	664	c.496G>A	c.(496-498)GCT>ACT	p.A166T	CAPN6_uc011msu.1_5'UTR	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	166	Calpain catalytic.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						TTTGCATAAGCTTTTTCCAGC	0.443													19	39					0	0	0.008871	0	0		T	110496246	T	T	110496246	3	4	145	1	0	0	0	0	1	0	0	0	2633	797	28	2	1469	2	CAPN6	23	110496246	Missense_Mutation	SNP	C	TCGA-CG-4476-01A-01D-1158-08	19363037	110496246	44774314	147	76564											
KCNA10	3744	broad.mit.edu	37	chr1	111061291	111061291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggagctgcccccaggcCggccttttgggctggttgag	6	8	16	11	1	0	2	0	1	0	1	0	3	0	3	4	5	2	3	4	5	1	3	rs139383016		TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr1:111061291C>T	uc001dzt.1	-	1	507	c.119G>A	c.(118-120)CGG>CAG	p.R40Q		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	40						voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		GCCCCCAGGCCGGCCTTTTGG	0.532													19	91					0	0	0.008871	0	0		T	111061291	T	T	111061291	3	4	146	1	0	0	0	0	1	0	0	0	8018	652	23	1	1420	1	KCNA10	1	111061291	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08		111061291	138189330	1	76565											
SYT6	148281	broad.mit.edu	37	chr1	114682265	114682265	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgctggctctgtagtttGccgctgcagccgggtgtgac	4	11	15	11	3	1	2	0	2	1	0	1	2	1	2	2	2	3	6	2	2	1	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr1:114682265G>A	uc001eev.2	-	2	479	c.229C>T	c.(229-231)CAA>TAA	p.Q77*		NM_205848	NP_995320	Q5T7P8	SYT6_HUMAN	synaptotagmin VI	162	Cytoplasmic (Potential).				acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCTGTAGTTTGCCGCTGCAGC	0.592													20	54					0	0	0.014323	0	0		A	114682265	A	A	114682265	4	1	146	1	0	0	0	0	0	1	0	0	15503	1328	46	2	1072	2	SYT6	1	114682265	Nonsense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08	3620974	114682265	134568356	2	76566											
UBAP2L	9898	broad.mit.edu	37	chr1	154223741	154223741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accagtcctctagccctcagCcggctcagcagaaactgaaa	12	6	8	15	1	3	2	2	1	1	1	4	2	4	2	4	1	4	2	4	1	3	1			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr1:154223741C>T	uc001fep.3	+	13	1605	c.1438C>T	c.(1438-1440)CCG>TCG	p.P480S	UBAP2L_uc009wot.2_Missense_Mutation_p.P480S|UBAP2L_uc010pek.1_Missense_Mutation_p.P472S|UBAP2L_uc010pel.1_Missense_Mutation_p.P490S|UBAP2L_uc010pen.1_Missense_Mutation_p.P394S	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	480					binding of sperm to zona pellucida		protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TAGCCCTCAGCCGGCTCAGCA	0.502													4	171					0	0	0.009096	0	0		T	154223741	T	T	154223741	3	4	146	1	0	0	0	0	1	0	0	0	16864	739	26	2	1484	2	UBAP2L	1	154223741	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	39541476	154223741	95026880	3	76567											
RGS7	6000	broad.mit.edu	37	chr1	240966205	240966205	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcacaaaaaaccagtaccTttttctttgcctgtagaagc	13	12	5	11	0	2	1	1	0	1	1	2	1	2	1	3	0	4	2	3	0	6	5			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr1:240966205T>G	uc001hyv.2	-	16	1688	c.1358A>C	c.(1357-1359)AAG>ACG	p.K453T	RGS7_uc010pyh.1_Missense_Mutation_p.K427T|RGS7_uc010pyj.1_Missense_Mutation_p.K369T|RGS7_uc001hyu.2_Missense_Mutation_p.K453T|RGS7_uc009xgn.1_Missense_Mutation_p.K400T|RGS7_uc001hyw.2_Missense_Mutation_p.K453T|RGS7_uc001hyt.2_Missense_Mutation_p.K285T	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	453					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			AACCAGTACCTTTTTCTTTGC	0.363													9	216					0	0	0.010729	0	0		G	240966205	G	G	240966205	3	3	146	1	0	0	0	0	1	0	0	0	13335	1623	56	5	117	5	RGS7	1	240966205	Missense_Mutation	SNP	T	TCGA-CG-4477-01A-01D-1158-08	86742464	240966205	8284416	4	76568											
PDIA6	10130	broad.mit.edu	37	chr2	10930895	10930895	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtagcatccacagctgccaGtttcacttttcctttcgtct	6	16	6	13	1	2	0	1	0	1	0	5	0	4	0	3	0	3	4	3	0	1	5			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr2:10930895G>C	uc002rau.2	-	7	787	c.649C>G	c.(649-651)CTG>GTG	p.L217V	PDIA6_uc010yjg.1_Missense_Mutation_p.L214V|PDIA6_uc002rav.2_Missense_Mutation_p.L269V|PDIA6_uc010yjh.1_Missense_Mutation_p.L222V|PDIA6_uc002raw.2_Missense_Mutation_p.L265V	NM_005742	NP_005733	Q15084	PDIA6_HUMAN	protein disulfide isomerase A6 precursor	217	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|protein folding	endoplasmic reticulum lumen|ER-Golgi intermediate compartment|melanosome|plasma membrane	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.149)|OV - Ovarian serous cystadenocarcinoma(76;0.15)		ACAGCTGCCAGTTTCACTTTT	0.413													28	124					0	0	0.00874	0	0		C	10930895	C	C	10930895	3	2	146	1	0	0	0	0	1	0	0	0	11691	1020	36	5	701	5	PDIA6	2	10930895	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08		10930895	232268478	5	76569											
APOB	338	broad.mit.edu	37	chr2	21233527	21233527	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcaaggtctcaaaaaatggGaggttaatggagtgaacatc	15	9	12	5	0	1	1	1	1	1	0	3	3	1	3	0	4	2	2	0	4	6	1			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr2:21233527G>A	uc002red.2	-	26	6341	c.6213C>T	c.(6211-6213)CTC>CTT	p.L2071L		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2071	Heparin-binding.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CAAAAAATGGGAGGTTAATGG	0.363													48	144					0	0	0.013114	0	0		A	21233527	A	A	21233527	2	1	146	1	0	0	0	0	0	0	0	1	785	1161	41	4		4	APOB	2	21233527	Silent	SNP	G	TCGA-CG-4477-01A-01D-1158-08	10302632	21233527	221965846	6	76570											
APOB	338	broad.mit.edu	37	chr2	21241934	21241934	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctggagctcataggttgcGctgacagaatactgctcaat	10	11	10	10	1	3	2	2	1	1	1	3	3	3	3	0	2	4	4	0	2	4	3			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr2:21241934G>A	uc002red.2	-	20	3179	c.3051C>T	c.(3049-3051)AGC>AGT	p.S1017S		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1017					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CATAGGTTGCGCTGACAGAAT	0.448													52	186					0	0	0.01441	0	0		A	21241934	A	A	21241934	2	1	146	1	0	0	0	0	0	0	0	1	785	1078	38	1		1	APOB	2	21241934	Silent	SNP	G	TCGA-CG-4477-01A-01D-1158-08	8407	21241934	221957439	7	76571											
LRPPRC	10128	broad.mit.edu	37	chr2	44139618	44139618	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaataatcttctgacatcagTaatttaatgagattgctgta	15	15	6	5	0	3	2	1	2	2	1	3	3	3	2	0	0	1	3	0	0	5	7			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr2:44139618T>G	uc002rtr.2	-	30	3286	c.3228A>C	c.(3226-3228)TTA>TTC	p.L1076F	LRPPRC_uc010yob.1_Missense_Mutation_p.L976F	NM_133259	NP_573566	P42704	LPPRC_HUMAN	leucine-rich PPR motif-containing protein	1076	PPR 16.				mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CTGACATCAGTAATTTAATGA	0.323													31	92					0	0	0.008361	0	0		G	44139618	G	G	44139618	3	3	146	1	0	0	0	0	1	0	0	0	8983	1635	57	5	992	5	LRPPRC	2	44139618	Missense_Mutation	SNP	T	TCGA-CG-4477-01A-01D-1158-08	22897684	44139618	199059755	8	76572											
NRXN1	9378	broad.mit.edu	37	chr2	50765393	50765393	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggggttttagaatcctacctCtctcacaggacctgccaaga	10	10	9	12	0	2	2	1	0	1	2	4	3	3	3	4	3	2	1	4	3	4	3			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr2:50765393C>G	uc010fbq.2	-	10	3738	c.2261G>C	c.(2260-2262)AGA>ACA	p.R754T	NRXN1_uc002rxb.3_Missense_Mutation_p.R386T|NRXN1_uc002rxe.3_Missense_Mutation_p.R714T|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			AATCCTACCTCTCTCACAGGA	0.448													44	155					0	0	0.00874	0	0		G	50765393	G	G	50765393	3	3	146	1	0	0	0	0	1	0	0	0	10684	913	32	5	2701	5	NRXN1	2	50765393	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	6625775	50765393	192433980	9	76573											
MAP1D	254042	broad.mit.edu	37	chr2	172926348	172926348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttcacacagtatagttttgCcggctgcagtttcttcagct	7	16	8	10	1	3	0	2	0	1	0	3	0	3	0	1	1	3	6	1	1	2	7			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr2:172926348C>T	uc002uhk.2	+	2	236	c.163C>T	c.(163-165)CCG>TCG	p.P55S	MAP1D_uc010zdw.1_5'UTR	NM_199227	NP_954697	Q6UB28	AMP1D_HUMAN	methionine aminopeptidase 1D precursor	55					N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis	mitochondrion	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)			TATAGTTTTGCCGGCTGCAGT	0.398													6	578					0	0	0.001984	0	0		T	172926348	T	T	172926348	3	4	146	1	0	0	0	0	1	0	0	0	9247	739	26	2	169	2	MAP1D	2	172926348	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	122160955	172926348	70273025	10	76574											
CHRNA1	1134	broad.mit.edu	37	chr2	175622707	175622707	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaaacaaaggaactccCaaagtcacgcagctggggcg	15	4	12	10	2	1	1	1	1	0	1	2	3	2	2	1	3	3	2	1	3	5	0			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr2:175622707C>A	uc002ujd.2	-	4	354	c.276G>T	c.(274-276)TTG>TTT	p.L92F	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Intron|CHRNA1_uc002ujf.3_Intron	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	92	Extracellular.				muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						aaggaactcccaaagtcacgc	0.174													3	56					0.004672	0.00482773	0.004672	1	0		A	175622707	A	A	175622707	3	1	146	1	0	0	0	0	1	0	0	0	3384	593	21	5	1200	5	CHRNA1	2	175622707	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	2696359	175622707	67576666	11	76575											
TTN	7273	broad.mit.edu	37	chr2	179422480	179422480	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttctcctgtggtcagttTcatgactttcatcatggttc	5	19	7	10	0	6	1	4	1	2	0	8	1	6	1	1	2	0	2	1	2	0	5			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr2:179422480T>G	uc010zfg.1	-	277	80121	c.79897A>C	c.(79897-79899)AAA>CAA	p.K26633Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K20328Q|TTN_uc010zfi.1_Missense_Mutation_p.K20261Q|TTN_uc010zfj.1_Missense_Mutation_p.K20136Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27560							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTGGTCAGTTTCATGACTTTC	0.418													63	608					0	0	0.01441	0	0		G	179422480	G	G	179422480	3	3	146	1	0	0	0	0	1	0	0	0	16761	1792	62	5	20518	5	TTN	2	179422480	Missense_Mutation	SNP	T	TCGA-CG-4477-01A-01D-1158-08	3799773	179422480	63776893	12	76576											
SH3BP4	23677	broad.mit.edu	37	chr2	235951699	235951699	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccgtgaggaccctgctCatggagaacatcagcagctg	9	7	12	13	1	2	2	2	1	0	1	3	4	3	3	3	2	4	3	3	2	1	0			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr2:235951699C>A	uc002vvp.2	+	4	2679	c.2286C>A	c.(2284-2286)CTC>CTA	p.L762L	SH3BP4_uc010fym.2_Silent_p.L762L|SH3BP4_uc002vvq.2_Silent_p.L762L	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	762					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		GGACCCTGCTCATGGAGAACA	0.627													13	55					4.3838e-07	4.79639e-07	0.001855	1	0		A	235951699	A	A	235951699	2	1	146	1	0	0	0	0	0	0	0	1	14271	813	29	5		5	SH3BP4	2	235951699	Silent	SNP	C	TCGA-CG-4477-01A-01D-1158-08	56529219	235951699	7247674	13	76577											
SLC25A20	788	broad.mit.edu	37	chr3	48896993	48896993	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgttttcctcacctcttTccctccggagtgaagatatt	7	17	6	11	1	2	2	1	1	1	1	5	3	5	3	4	1	0	1	4	1	3	6			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr3:48896993T>A	uc003cva.3	-	6	778	c.603A>T	c.(601-603)GGA>GGT	p.G201G	SLC25A20_uc011bbw.1_Silent_p.G151G|SLC25A20_uc010hkj.2_Silent_p.G128G	NM_000387	NP_000378	O43772	MCAT_HUMAN	carnitine/acylcarnitine translocase	201	Cytoplasmic (Potential).				carnitine shuttle|cellular lipid metabolic process|regulation of fatty acid oxidation	integral to membrane|mitochondrial inner membrane	acyl carnitine transporter activity				0				BRCA - Breast invasive adenocarcinoma(193;0.000168)|Kidney(197;0.00231)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	L-Carnitine(DB00583)	CTCACCTCTTTCCCTCCGGAG	0.433													12	180					0	0	0.013537	0	0		A	48896993	A	A	48896993	2	1	146	1	0	0	0	0	0	0	0	1	14508	1770	62	5		5	SLC25A20	3	48896993	Silent	SNP	T	TCGA-CG-4477-01A-01D-1158-08		48896993	149125437	14	76578											
RAB6B	51560	broad.mit.edu	37	chr3	133553468	133553468	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccattccgggtagagccgaCgccacacgtcgaaaaagctg	11	6	11	13	5	0	1	0	0	0	1	3	3	2	1	4	1	2	2	4	1	3	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr3:133553468C>A	uc003epy.2	-	7	894	c.513G>T	c.(511-513)GCG>GCT	p.A171A	RAB6B_uc011blu.1_Silent_p.A158A	NM_016577	NP_057661	Q9NRW1	RAB6B_HUMAN	RAB6B, member RAS oncogene family	171					protein transport|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|Golgi membrane	GTP binding|GTPase activity|protein binding			pancreas(1)	1						GTAGAGCCGACGCCACACGTC	0.502													36	157					9.62906e-15	1.09208e-14	0.00623	1	0		A	133553468	A	A	133553468	2	1	146	1	0	0	0	0	0	0	0	1	12977	523	19	5		5	RAB6B	3	133553468	Silent	SNP	C	TCGA-CG-4477-01A-01D-1158-08	84656475	133553468	64468962	15	76579											
C5orf42	65250	broad.mit.edu	37	chr5	37173906	37173906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatctgcctaacggactccGaacaatctggtaactgagcc	11	8	9	13	2	2	1	0	1	2	0	3	3	3	2	3	2	5	2	3	2	4	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr5:37173906G>A	uc011cpa.1	-	32	6353	c.6122C>T	c.(6121-6123)TCG>TTG	p.S2041L	C5orf42_uc011coy.1_Missense_Mutation_p.S541L|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.S1116L|C5orf42_uc003jkr.1_Missense_Mutation_p.S74L	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2041										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			AACGGACTCCGAACAATCTGG	0.403													33	217					0	0	0.015359	0	0		A	37173906	A	A	37173906	3	1	146	1	0	0	0	0	1	0	0	0	2304	1059	37	1	3555	1	C5orf42	5	37173906	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08		37173906	143741354	16	76580											
SFRS12	140890	broad.mit.edu	37	chr5	65465970	65465970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctaaatcaagggagagaCggaagtcaaggagtcgttcg	13	7	14	7	3	3	1	2	0	1	1	5	5	3	4	0	3	0	2	0	3	5	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr5:65465970C>T	uc003juo.2	+	9	1405	c.745C>T	c.(745-747)CGG>TGG	p.R249W	SFRS12_uc003jun.2_Missense_Mutation_p.R365W|SFRS12_uc010iwy.2_Missense_Mutation_p.R249W	NM_139168	NP_631907	Q8WXA9	SREK1_HUMAN	splicing factor, arginine/serine-rich 12 isoform	249	Arg/Glu/Lys/Ser-rich.				mRNA processing|RNA splicing	spliceosomal complex	nucleic acid binding|nucleotide binding|protein binding				0		Lung NSC(167;9.34e-06)|Prostate(74;0.00187)|Ovarian(174;0.0545)|Breast(144;0.0928)|Colorectal(97;0.234)		Lung(70;0.00449)		AAGGGAGAGACGGAAGTCAAG	0.368													16	44					0	0	0.008871	0	0		T	65465970	T	T	65465970	3	4	146	1	0	0	0	0	1	0	0	0	14192	527	19	1	1123	1	SFRS12	5	65465970	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	28292064	65465970	115449290	17	76581											
TRPC7	57113	broad.mit.edu	37	chr5	135692752	135692752	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggccagcagcagcgcGtcccccacccgtgccaggtt	6	6	12	17	3	0	1	0	1	0	0	1	1	1	1	5	2	4	3	5	2	0	1			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr5:135692752G>A	uc003lbn.1	-	1	324	c.321C>T	c.(319-321)GAC>GAT	p.D107D	TRPC7_uc010jef.1_Silent_p.D99D|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Silent_p.D99D|TRPC7_uc010jei.1_Silent_p.D99D|TRPC7_uc010jej.1_Translation_Start_Site	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	108	Cytoplasmic (Potential).|ANK 3.				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GCAGCAGCGCGTCCCCCACCC	0.667													41	88					0	0	0.00874	0	0		A	135692752	A	A	135692752	2	1	146	1	0	0	0	0	0	0	0	1	16610	1136	40	1		1	TRPC7	5	135692752	Silent	SNP	G	TCGA-CG-4477-01A-01D-1158-08	70226782	135692752	45222508	18	76582											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139838894	139838894	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacacctctgatggaggcAtctcaggagggacacctgga	10	7	12	12	0	2	1	1	1	2	0	4	5	3	5	3	5	0	1	3	5	0	0			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr5:139838894A>G	uc003lfs.1	+	9	1750	c.1626A>G	c.(1624-1626)GCA>GCG	p.A542A	ANKHD1_uc003lfq.1_Silent_p.A542A|ANKHD1_uc003lfr.2_Silent_p.A542A|ANKHD1_uc003lft.1_Silent_p.A3A|ANKHD1_uc003lfu.1_Silent_p.A3A|ANKHD1_uc003lfp.2_Silent_p.A531A|ANKHD1_uc003lfo.2_Silent_p.A542A|ANKHD1_uc010jfk.2_Silent_p.A542A	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	542						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGATGGAGGCATCTCAGGAGG	0.383													20	134					0	0	0.012319	0	0		G	139838894	G	G	139838894	2	3	146	1	0	0	0	0	0	0	0	1	629	204	8	3		3	ANKHD1-EIF4EBP3	5	139838894	Silent	SNP	A	TCGA-CG-4477-01A-01D-1158-08	4146142	139838894	41076366	19	76583											
NOTCH4	4855	broad.mit.edu	37	chr6	32163246	32163246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctctcctccttggtttatggGcatttcttggagggctgggg	3	15	14	9	0	2	0	0	0	2	0	4	1	3	1	2	6	0	3	2	6	1	5			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr6:32163246G>A	uc003obb.2	-	30	6119	c.5980C>T	c.(5980-5982)CCC>TCC	p.P1994S	GPSM3_uc003oax.3_5'Flank|GPSM3_uc003oay.3_5'Flank|GPSM3_uc003oaz.2_5'UTR|NOTCH4_uc011dpt.1_3'UTR|NOTCH4_uc003oba.2_Missense_Mutation_p.P654S|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1994	Cytoplasmic (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						TGGTTTATGGGCATTTCTTGG	0.512													4	219					0	0	0.009096	0	0		A	32163246	A	A	32163246	3	1	146	1	0	0	0	0	1	0	0	0	10570	1203	42	2	35	2	NOTCH4	6	32163246	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08		32163246	138951821	20	76584											
TEAD3	7005	broad.mit.edu	37	chr6	35443212	35443212	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatgtactcgcacatgggCgagcggtggatacggtacac	10	8	13	10	4	1	0	1	0	0	0	2	2	1	1	0	4	4	3	0	4	3	3			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr6:35443212C>T	uc003oku.3	-	12	1331	c.1095G>A	c.(1093-1095)TCG>TCA	p.S365S	TEAD3_uc003okt.2_Silent_p.S254S|TEAD3_uc010jvx.2_Silent_p.S305S	NM_003214	NP_003205	Q99594	TEAD3_HUMAN	TEA domain family member 3	365	Transcriptional activation (Potential).				female pregnancy|hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CGCACATGGGCGAGCGGTGGA	0.562													18	81					0	0	0.012319	0	0		T	35443212	T	T	35443212	2	4	146	1	0	0	0	0	0	0	0	1	15765	755	27	1		1	TEAD3	6	35443212	Silent	SNP	C	TCGA-CG-4477-01A-01D-1158-08	3279966	35443212	135671855	21	76585											
MUT	4594	broad.mit.edu	37	chr6	49399498	49399498	+	Silent	SNP	G	T	T																															atatcatcaagcacctgaacGgcagcctttggaattcgagt																										TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr6:49399498G>T	uc003ozg.3	-	13	2451	c.2196C>A	c.(2194-2196)GCC>GCA	p.A732A		NM_000255	NP_000246	P22033	MUTA_HUMAN	methylmalonyl Coenzyme A mutase precursor	732	B12-binding.				fatty acid beta-oxidation	mitochondrial matrix	cobalamin binding|metal ion binding|methylmalonyl-CoA mutase activity				0	Lung NSC(77;0.0376)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GCACCTGAACGGCAGCCTTTG	0.333													11	398					0.00010058	0.0001051	0.013537	1	0		T	49399498	T	T	49399498	2	4	146	1	0	0	0	0	0	0	0	1	10009	1103	39	5		5	MUT	6	49399498	Silent	SNP	G	TCGA-CG-4477-01A-01D-1158-08	13956286	49399498	121715569	22	76586	141	2									
MUT	4594	broad.mit.edu	37	chr6	49399501	49399501	+	Silent	SNP	A	C	C																															tcatcaagcacctgaacggcAgcctttggaattcgagtccc																										TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr6:49399501A>C	uc003ozg.3	-	13	2448	c.2193T>G	c.(2191-2193)GCT>GCG	p.A731A		NM_000255	NP_000246	P22033	MUTA_HUMAN	methylmalonyl Coenzyme A mutase precursor	731	B12-binding.				fatty acid beta-oxidation	mitochondrial matrix	cobalamin binding|metal ion binding|methylmalonyl-CoA mutase activity				0	Lung NSC(77;0.0376)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CCTGAACGGCAGCCTTTGGAA	0.338													12	398					0	0	0.013537	0	0		C	49399501	C	C	49399501	2	2	146	1	0	0	0	0	0	0	0	1	10009	175	7	5		5	MUT	6	49399501	Silent	SNP	A	TCGA-CG-4477-01A-01D-1158-08	3	49399501	121715566	23	76587	141	2									
BMP5	653	broad.mit.edu	37	chr6	55638953	55638953	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatcgaagaagtacctcactCgccttgaagaaggccaccat	13	7	9	12	2	1	3	1	1	0	2	3	5	1	3	4	1	1	1	4	1	5	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr6:55638953C>T	uc003pcq.2	-	4	1633	c.921G>A	c.(919-921)GCG>GCA	p.A307A	BMP5_uc011dxf.1_Silent_p.A307A	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	307					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			GTACCTCACTCGCCTTGAAGA	0.468													20	204					0	0	0.008871	0	0		T	55638953	T	T	55638953	2	4	146	1	0	0	0	0	0	0	0	1	1464	871	31	1		1	BMP5	6	55638953	Silent	SNP	C	TCGA-CG-4477-01A-01D-1158-08	6239452	55638953	115476114	24	76588											
ABCA13	154664	broad.mit.edu	37	chr7	48313582	48313582	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatattaaaaattgtaacttGggtgttaaatataaaaaaac	20	14	5	2	0	0	0	0	0	0	0	0	0	0	0	0	1	2	2	0	1	13	9			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr7:48313582G>A	uc003toq.2	+	17	4344	c.4319G>A	c.(4318-4320)TGG>TAG	p.W1440*	ABCA13_uc010kyr.2_Nonsense_Mutation_p.W943*	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1440					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ATTGTAACTTGGGTGTTAAAT	0.269													6	38					0	0	0.001168	0	0		A	48313582	A	A	48313582	4	1	146	1	0	0	0	0	0	1	0	0	31	1357	47	4	4214	4	ABCA13	7	48313582	Nonsense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08		48313582	110825081	25	76589											
FAM115C	285966	broad.mit.edu	37	chr7	143417214	143417214	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagtttgtggctgagggTggggggctgctgattggggg	4	10	23	4	0	0	2	0	2	0	0	0	3	0	3	0	8	1	4	0	8	0	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr7:143417214T>G	uc003wdf.2	+	3	1145	c.1062T>G	c.(1060-1062)GGT>GGG	p.G354G	FAM115C_uc003wdg.2_Silent_p.G73G|FAM115C_uc011ktk.1_Silent_p.G354G|FAM115C_uc003wdh.2_Silent_p.G354G|FAM115C_uc011ktm.1_Silent_p.G354G|uc011ktn.1_Intron|uc011kto.1_Intron|uc011ktp.1_Intron|LOC154761_uc011ktq.1_Intron|LOC154761_uc011ktr.1_Intron|LOC154761_uc011kts.1_Intron|FAM115C_uc011ktt.1_Silent_p.G190G|FAM115C_uc003wdi.1_Silent_p.G73G	NM_001130025	NP_001123497	A6NFQ2	F115C_HUMAN	hypothetical protein LOC285966 isoform A	354											0						TGGCTGAGGGTGGGGGGCTGC	0.617													6	81					0	0	0.013537	0	0		G	143417214	G	G	143417214	2	3	146	1	0	0	0	0	0	0	0	1	5417	1683	59	5		5	FAM115C	7	143417214	Silent	SNP	T	TCGA-CG-4477-01A-01D-1158-08	95103632	143417214	15721449	26	76590											
CSMD1	64478	broad.mit.edu	37	chr8	3165968	3165968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtaaagtggccttcatcaCggatcctatagccgtagtta	10	11	10	10	3	2	0	2	0	0	0	3	1	3	1	3	3	1	3	3	3	6	6			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr8:3165968C>T	uc011kwk.1	-	24	4082	c.3692G>A	c.(3691-3693)CGT>CAT	p.R1231H	CSMD1_uc011kwj.1_Missense_Mutation_p.R623H|CSMD1_uc003wqe.2_Missense_Mutation_p.R387H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1231	Extracellular (Potential).|Sushi 7.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GCCTTCATCACGGATCCTATA	0.512													18	42					0	0	0.007413	0	0		T	3165968	T	T	3165968	3	4	146	1	0	0	0	0	1	0	0	0	3947	536	19	1	7193	1	CSMD1	8	3165968	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08		3165968	143198054	27	76591											
KCNU1	157855	broad.mit.edu	37	chr8	36768479	36768479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttattctggagacctccatgCggccaacatagagcaatgct	11	10	9	11	1	1	2	0	0	1	2	2	3	2	2	3	2	4	2	3	2	4	3			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr8:36768479C>T	uc010lvw.2	+	22	2450	c.2363C>T	c.(2362-2364)GCG>GTG	p.A788V	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	788	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		GACCTCCATGCGGCCAACATA	0.522													58	165					0	0	0.01441	0	0		T	36768479	T	T	36768479	3	4	146	1	0	0	0	0	1	0	0	0	8109	768	27	1	2449	1	KCNU1	8	36768479	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	33602511	36768479	109595543	28	76592											
EFR3A	23167	broad.mit.edu	37	chr8	132980566	132980566	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtattctcaccatgtgatcCaggagattctaggacacctt	11	12	8	10	0	2	2	1	1	2	1	4	4	3	3	3	2	0	1	3	2	2	5			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr8:132980566C>G	uc003yte.2	+	9	1081	c.880C>G	c.(880-882)CAG>GAG	p.Q294E		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	294						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			CCATGTGATCCAGGAGATTCT	0.413													13	41					0	0	0.013537	0	0		G	132980566	G	G	132980566	3	3	146	1	0	0	0	0	1	0	0	0	4964	595	21	5	914	5	EFR3A	8	132980566	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	96212087	132980566	13383456	29	76593											
SLC45A4	57210	broad.mit.edu	37	chr8	142228731	142228731	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcggggtaggaggcgtcGtggaagatggagggctcgat	7	7	22	5	4	0	1	0	0	0	1	2	5	0	4	0	8	0	2	0	8	2	1			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr8:142228731G>A	uc003ywd.1	-	4	1163	c.855C>T	c.(853-855)CAC>CAT	p.H285H	SLC45A4_uc003ywc.1_Silent_p.H285H|SLC45A4_uc010meq.1_Silent_p.H283H	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	336					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			AGGAGGCGTCGTGGAAGATGG	0.677													50	94					0	0	0.01441	0	0		A	142228731	A	A	142228731	2	1	146	1	0	0	0	0	0	0	0	1	14668	1136	40	1		1	SLC45A4	8	142228731	Silent	SNP	G	TCGA-CG-4477-01A-01D-1158-08	9248165	142228731	4135291	30	76594											
ZNF484	83744	broad.mit.edu	37	chr9	95608610	95608610	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcagatttctgaggcataCtgagttgtggcttccagttt	7	16	11	7	0	2	3	1	2	1	1	3	3	3	3	1	2	1	4	1	2	1	5			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr9:95608610C>G	uc004asu.1	-	5	2608	c.2459G>C	c.(2458-2460)AGT>ACT	p.S820T	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Missense_Mutation_p.S822T|ZNF484_uc010mrb.1_Missense_Mutation_p.S784T|ZNF484_uc004asv.1_Missense_Mutation_p.S784T	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	820					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTGAGGCATACTGAGTTGTGG	0.423													27	457					0	0	0.00874	0	0		G	95608610	G	G	95608610	3	3	146	1	0	0	0	0	1	0	0	0	17962	565	20	5	103	5	ZNF484	9	95608610	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08		95608610	45604821	31	76595											
LMX1B	4010	broad.mit.edu	37	chr9	129455583	129455583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaggcctccttcgaggtctCgtcgaagccttgccgaaagg	8	8	12	13	4	1	0	0	0	1	0	5	3	2	0	4	3	2	0	4	3	3	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr9:129455583C>T	uc004bqj.2	+	4	703	c.653C>T	c.(652-654)TCG>TTG	p.S218L	LMX1B_uc004bqi.2_Missense_Mutation_p.S218L|LMX1B_uc011maa.1_Missense_Mutation_p.S218L	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	218	Homeobox.		S -> P (in NPS).		dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTCGAGGTCTCGTCGAAGCCT	0.587									Nail-Patella_Syndrome				7	29					0	0	0.00308	0	0		T	129455583	T	T	129455583	3	4	146	1	0	0	0	0	1	0	0	0	8879	893	31	1	736	1	LMX1B	9	129455583	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	33846973	129455583	11757848	32	76596											
SPAG6	9576	broad.mit.edu	37	chr10	22657513	22657513	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatagtcgattgtggagcActggatacgctggtcatatg	10	11	13	7	2	1	0	1	0	0	0	2	3	1	2	0	3	2	3	0	3	4	4			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr10:22657513A>C	uc001iri.2	+	4	520	c.378A>C	c.(376-378)GCA>GCC	p.A126A	SPAG6_uc001irj.2_Silent_p.A126A|SPAG6_uc010qct.1_Silent_p.A96A|SPAG6_uc009xkh.2_Silent_p.A104A	NM_012443	NP_036575	O75602	SPAG6_HUMAN	sperm associated antigen 6 isoform 1	126	ARM 3.				cell projection organization|spermatid development	axoneme|cilium|cytoplasm|flagellum|microtubule	binding			breast(1)	1						ATTGTGGAGCACTGGATACGC	0.478													38	129					0	0	0.005524	0	0		C	22657513	C	C	22657513	2	2	146	1	0	0	0	0	0	0	0	1	15007	146	6	5		5	SPAG6	10	22657513	Silent	SNP	A	TCGA-CG-4477-01A-01D-1158-08		22657513	112877234	33	76597											
COX15	1355	broad.mit.edu	37	chr10	101483725	101483725	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	actcttaccttgtgcggaggGagtagcagtgacagtgaggt	9	10	15	7	1	1	2	0	2	1	0	1	4	1	4	1	3	3	2	1	3	2	3			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr10:101483725G>A	uc001kqb.3	-	5	1355	c.738C>T	c.(736-738)CTC>CTT	p.L246L	COX15_uc001kqc.3_Silent_p.L246L|COX15_uc010qpj.1_Silent_p.L67L	NM_078470	NP_510870	Q7KZN9	COX15_HUMAN	COX15 homolog isoform 1	246	Helical; (Potential).				heme a biosynthetic process|respiratory chain complex IV assembly|respiratory gaseous exchange	integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;3.08e-10)|all cancers(201;2.43e-08)		TGTGCGGAGGGAGTAGCAGTG	0.338													46	150					0	0	0.01441	0	0		A	101483725	A	A	101483725	2	1	146	1	0	0	0	0	0	0	0	1	3767	1161	41	4		4	COX15	10	101483725	Silent	SNP	G	TCGA-CG-4477-01A-01D-1158-08	78826212	101483725	34051022	34	76598											
HSPA12A	259217	broad.mit.edu	37	chr10	118434813	118434813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgggggatgatgatccGgcactggtccccaaaagcag	9	7	14	11	1	0	2	0	2	0	0	3	3	3	3	4	4	1	2	4	4	2	0			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr10:118434813G>A	uc001lct.2	-	12	1612	c.1507C>T	c.(1507-1509)CGG>TGG	p.R503W	HSPA12A_uc001lcu.2_Missense_Mutation_p.R420W	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	503							ATP binding			ovary(1)	1				all cancers(201;0.0158)		ATGATGATCCGGCACTGGTCC	0.672													15	45					0	0	0.008871	0	0		A	118434813	A	A	118434813	3	1	146	1	0	0	0	0	1	0	0	0	7420	1115	39	1	524	1	HSPA12A	10	118434813	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08	16951088	118434813	17099934	35	76599											
TUBGCP2	10844	broad.mit.edu	37	chr10	135096623	135096623	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgcacacagacatgagctTggagaagaccttcagcagct	13	6	11	11	1	1	4	1	1	0	3	1	6	1	4	1	1	3	4	1	1	1	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr10:135096623T>C	uc001lmg.1	-	15	2605	c.2248A>G	c.(2248-2250)AAG>GAG	p.K750E	TUBGCP2_uc001lmf.1_Missense_Mutation_p.K343E|TUBGCP2_uc010qvc.1_Missense_Mutation_p.K778E|TUBGCP2_uc009ybk.1_Missense_Mutation_p.K773E|TUBGCP2_uc010qvd.1_Missense_Mutation_p.K620E|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	750					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		GACATGAGCTTGGAGAAGACC	0.607													3	159					0	0	0.004672	0	0		C	135096623	C	C	135096623	3	2	146	1	0	0	0	0	1	0	0	0	16792	1821	63	3	476	3	TUBGCP2	10	135096623	Missense_Mutation	SNP	T	TCGA-CG-4477-01A-01D-1158-08	16661810	135096623	438124	36	76600											
OR4C16	219428	broad.mit.edu	37	chr11	55339628	55339628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aactgaataataatgtgactGagttcattctgcttggattg	12	15	9	5	0	2	3	1	3	1	0	2	4	2	4	0	1	2	2	0	1	4	6			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr11:55339628G>A	uc010rih.1	+	1	25	c.25G>A	c.(25-27)GAG>AAG	p.E9K		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	9	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				TAATGTGACTGAGTTCATTCT	0.373													45	150					0	0	0.01441	0	0		A	55339628	A	A	55339628	3	1	146	1	0	0	0	0	1	0	0	0	11068	1291	45	4	27	4	OR4C16	11	55339628	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08		55339628	79666888	37	76601											
RASGRP2	10235	broad.mit.edu	37	chr11	64510268	64510268	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcccgagccactcaccgAaggcttcgatgcacccgcgg	7	5	10	19	5	1	0	1	0	0	0	3	3	2	0	5	2	2	2	5	2	1	1			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr11:64510268A>G	uc009ypu.2	-	2	298	c.71T>C	c.(70-72)TTC>TCC	p.F24S	RASGRP2_uc001oat.2_5'Flank|RASGRP2_uc001oau.2_5'Flank|RASGRP2_uc009ypv.2_Missense_Mutation_p.F24S|RASGRP2_uc009ypw.2_Missense_Mutation_p.F24S|RASGRP2_uc001oaw.1_Missense_Mutation_p.S327P	NM_001098671	NP_001092141	Q7LDG7	GRP2_HUMAN	RAS guanyl releasing protein 2	24	N-terminal Ras-GEF.				platelet activation|Ras protein signal transduction|regulation of cell growth|regulation of small GTPase mediated signal transduction	cell junction|cytosol|ruffle membrane|synapse|synaptosome	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity				0						CCACTCACCGAAGGCTTCGAT	0.726													3	14					0	0	0.001984	0	0		G	64510268	G	G	64510268	3	3	146	1	0	0	0	0	1	0	0	0	13100	246	9	3	1818	3	RASGRP2	11	64510268	Missense_Mutation	SNP	A	TCGA-CG-4477-01A-01D-1158-08	9170640	64510268	70496248	38	76602											
PAK1	5058	broad.mit.edu	37	chr11	77070042	77070042	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actggtggcactgcaggagtCtcagacacagccttcacatt	10	9	10	12	0	2	1	2	0	1	1	3	2	2	2	1	3	2	2	1	3	0	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr11:77070042C>G	uc001oyh.3	-	6	1031	c.498G>C	c.(496-498)GAG>GAC	p.E166D	PAK1_uc010rso.1_Missense_Mutation_p.E68D|PAK1_uc001oyg.3_Missense_Mutation_p.E166D|PAK1_uc001oyi.1_Missense_Mutation_p.E166D|PAK1_uc010rsn.1_5'UTR	NM_002576	NP_002567	Q13153	PAK1_HUMAN	p21-activated kinase 1 isoform 2	166	Interaction with CRIPAK.				apoptosis|axon guidance|cytoskeleton organization|ER-nucleus signaling pathway|positive regulation of JUN kinase activity|positive regulation of peptidyl-serine phosphorylation|protein autophosphorylation|T cell costimulation|T cell receptor signaling pathway	cytosol|focal adhesion|Golgi apparatus	ATP binding|collagen binding|protein binding|protein serine/threonine kinase activity			skin(2)|stomach(1)|lung(1)	4	all_cancers(14;1.75e-18)					CTGCAGGAGTCTCAGACACAG	0.443													27	89					0	0	0.004656	0	0		G	77070042	G	G	77070042	3	3	146	1	0	0	0	0	1	0	0	0	11418	912	32	5	1232	5	PAK1	11	77070042	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	12559774	77070042	57936474	39	76603											
FOLH1B	219595	broad.mit.edu	37	chr11	89403629	89403629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtgataggtactctcagagGagcagtggaaccaggtaaag	13	8	14	6	0	1	2	1	1	1	1	2	4	1	4	1	4	3	3	1	4	5	3			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr11:89403629G>A	uc001pda.2	+	4	693	c.167G>A	c.(166-168)GGA>GAA	p.G56E		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	56					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						ACTCTCAGAGGAGCAGTGGAA	0.239													14	177					0	0	0.004007	0	0		A	89403629	A	A	89403629	3	1	146	1	0	0	0	0	1	0	0	0	5994	1174	41	4	173	4	FOLH1B	11	89403629	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08	12333587	89403629	45602887	40	76604											
ACVR1B	91	broad.mit.edu	37	chr12	52377884	52377884	+	Frame_Shift_Del	DEL	A	-	-																															cagtgacaattgaggggatgAttaagctggccttgtctgct																										TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr12:52377884delA	uc001rzn.2	+	5	955	c.913delA	c.(913-915)ATTfs	p.I305fs	ACVR1B_uc001rzl.2_Frame_Shift_Del_p.I305fs|ACVR1B_uc001rzm.2_Frame_Shift_Del_p.I305fs|ACVR1B_uc010snn.1_Frame_Shift_Del_p.I346fs	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	305	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	TGAGGGGATGATTAAGCTGGC	0.547													23	53	---	---	---	---						.	-	52377884	-	-	52377884	7	5	146	1	0	1	0	1	0	0	0	0	221	333	12	0	1058	0	ACVR1B	12	52377884	Frame_Shift_Del	DEL	A	TCGA-CG-4477-01A-01D-1158-08		52377884	81474011	41	76605											
TMCC3	57458	broad.mit.edu	37	chr12	94976263	94976263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggttggtgtctgacccccCtcggcgtatgttcaggggca	5	10	15	11	2	2	1	1	1	1	0	3	2	2	1	3	5	0	4	3	5	1	3	rs151064246		TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr12:94976263C>T	uc001tdj.2	-	2	248	c.130G>A	c.(130-132)GGG>AGG	p.G44R	TMCC3_uc001tdi.2_Missense_Mutation_p.G13R	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	44						integral to membrane				ovary(1)|skin(1)	2						TCTGACCCCCCTCGGCGTATG	0.453													56	195					0	0	0.01441	0	0		T	94976263	T	T	94976263	3	4	146	1	0	0	0	0	1	0	0	0	16019	681	24	4	1315	4	TMCC3	12	94976263	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	42598379	94976263	38875632	42	76606											
GPR133	283383	broad.mit.edu	37	chr12	131569149	131569149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaaacctcacctactccGtctgccgctgcactcacctc	8	8	7	18	2	3	0	2	0	1	0	5	2	4	1	5	1	4	2	5	1	2	1			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr12:131569149G>A	uc001uit.3	+	15	2171	c.1612G>A	c.(1612-1614)GTC>ATC	p.V538I	GPR133_uc010tbm.1_Missense_Mutation_p.V570I|GPR133_uc009zyo.2_5'UTR|GPR133_uc001uiv.1_Missense_Mutation_p.V57I	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	538	GPS.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		CACCTACTCCGTCTGCCGCTG	0.622													32	35					0	0	0.006999	0	0		A	131569149	A	A	131569149	3	1	146	1	0	0	0	0	1	0	0	0	6658	1145	40	1	1670	1	GPR133	12	131569149	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08	36592886	131569149	2282746	43	76607											
EP400	57634	broad.mit.edu	37	chr12	132551418	132551418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagcctccggtggtgtccGtcccggcagctgtggtctcc	3	9	14	15	4	1	0	0	0	1	0	5	1	4	0	5	4	2	2	5	4	1	0			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr12:132551418G>A	uc001ujn.2	+	48	8688	c.8653G>A	c.(8653-8655)GTC>ATC	p.V2885I	EP400_uc001ujl.2_Missense_Mutation_p.V2884I|EP400_uc001ujm.2_Missense_Mutation_p.V2804I|EP400_uc001ujp.2_Missense_Mutation_p.V95I	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2921					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity	p.P2885P(1)		central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		GGTGGTGTCCGTCCCGGCAGC	0.682													4	96					0	0	0.009096	0	0		A	132551418	A	A	132551418	3	1	146	1	0	0	0	0	1	0	0	0	5157	1145	40	1	8840	1	EP400	12	132551418	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08	982269	132551418	1300477	44	76608											
FAM124A	220108	broad.mit.edu	37	chr13	51854758	51854758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccatccggacaggcctgcCtcctgggcaccagcaggaat	8	5	12	16	1	0	0	0	0	0	0	2	2	2	2	6	4	2	2	6	4	1	0			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr13:51854758C>T	uc001vfg.1	+	4	1138	c.1007C>T	c.(1006-1008)CCT>CTT	p.P336L	FAM124A_uc001vff.1_Missense_Mutation_p.P372L	NM_145019	NP_659456	Q86V42	F124A_HUMAN	hypothetical protein LOC220108	336										central_nervous_system(1)	1		Acute lymphoblastic leukemia(7;0.000334)|Breast(56;0.00156)|Prostate(109;0.00538)|Lung NSC(96;0.0216)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;4.25e-07)		ACAGGCCTGCCTCCTGGGCAC	0.617													3	67					0	0	0.004672	0	0		T	51854758	T	T	51854758	3	4	146	1	0	0	0	0	1	0	0	0	5436	681	24	4	1133	4	FAM124A	13	51854758	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08		51854758	63315120	45	76609											
CCNK	8812	broad.mit.edu	37	chr14	99976540	99976540	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaggtgaggctgagccgccGggccctgtggatgccactga	6	8	16	11	2	0	3	0	3	0	0	0	4	0	4	4	4	2	1	4	4	1	1			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr14:99976540G>C	uc001ygi.3	+	11	1294	c.1164G>C	c.(1162-1164)CCG>CCC	p.P388P	CCNK_uc001ygg.3_Intron	NM_001099402	NP_001092872	O75909	CCNK_HUMAN	cyclin K isoform 1	388					cell division|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein kinase binding				0		all_cancers(154;0.224)|all_epithelial(191;0.0643)|Melanoma(154;0.0866)				CTGAGCCGCCGGGCCCTGTGG	0.692													2	6					0	0	0.004672	0	0		C	99976540	C	C	99976540	2	2	146	1	0	0	0	0	0	0	0	1	2933	1103	39	5		5	CCNK	14	99976540	Silent	SNP	G	TCGA-CG-4477-01A-01D-1158-08		99976540	7373000	46	76610											
OR4N4	283694	broad.mit.edu	37	chr15	22383082	22383082	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctaatggtcttcaacagtGgcctgatgacactcctgtgc	8	13	9	11	0	3	2	1	2	2	0	4	2	4	2	2	2	2	0	2	2	2	3			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr15:22383082G>C	uc001yuc.1	+	7	1591	c.610G>C	c.(610-612)GGC>CGC	p.G204R	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.G204R	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CTTCAACAGTGGCCTGATGAC	0.522													41	441					0	0	0.01441	0	0		C	22383082	C	C	22383082	3	2	146	1	0	0	0	0	1	0	0	0	11097	1348	47	5	612	5	OR4N4	15	22383082	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08		22383082	80148310	47	76611											
DUOXA1	90527	broad.mit.edu	37	chr15	45409999	45409999	+	Frame_Shift_Del	DEL	C	-	-																															cgcacccttctggaccaaagCgccaaggactgcagccagga																										TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr15:45409999delC	uc001zup.2	-	11	1566	c.1166delG	c.(1165-1167)CGCfs	p.R389fs	DUOXA2_uc001zuo.2_Frame_Shift_Del_p.S285fs|DUOXA2_uc010beb.2_RNA|DUOXA1_uc010uem.1_Frame_Shift_Del_p.R344fs|DUOXA1_uc010bec.2_Frame_Shift_Del_p.R389fs	NM_144565	NP_653166	Q1HG43	DOXA1_HUMAN	Numb-interacting protein	Error:Variant_position_missing_in_Q1HG43_after_alignment					protein transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1		all_cancers(109;6.02e-08)|all_epithelial(112;1.83e-06)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.82e-18)|GBM - Glioblastoma multiforme(94;4.39e-07)|COAD - Colon adenocarcinoma(120;0.0676)|Colorectal(133;0.0686)		TGGACCAAAGCGCCAAGGACT	0.617											OREG0023102	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	69	132	---	---	---	---						.	-	45409999	-	-	45409999	7	5	146	1	0	1	0	1	0	0	0	0	4808	768	27	0	289	0	DUOXA1	15	45409999	Frame_Shift_Del	DEL	C	TCGA-CG-4477-01A-01D-1158-08	23026917	45409999	57121393	48	76612											
AP3B2	8120	broad.mit.edu	37	chr15	83349607	83349607	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acgttctgggtggggctcagGaactgcgtgcgggcgtagcg	5	8	19	9	5	2	0	1	0	1	0	2	1	2	1	0	5	4	3	0	5	2	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr15:83349607G>A	uc010uoh.1	-	7	930	c.753C>T	c.(751-753)TTC>TTT	p.F251F	AP3B2_uc010uoi.1_Silent_p.F251F|AP3B2_uc010uoj.1_Silent_p.F219F|AP3B2_uc010uog.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	251					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			TGGGGCTCAGGAACTGCGTGC	0.647													12	37					0	0	0.013537	0	0		A	83349607	A	A	83349607	2	1	146	1	0	0	0	0	0	0	0	1	745	1165	41	4		4	AP3B2	15	83349607	Silent	SNP	G	TCGA-CG-4477-01A-01D-1158-08	37939608	83349607	19181785	49	76613											
AKAP13	11214	broad.mit.edu	37	chr15	86077059	86077059	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttggtgctggcattcaggcaCctgaagctgcccacggagtg	7	9	14	11	1	1	1	1	1	0	0	1	2	1	2	2	4	3	4	2	4	1	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr15:86077059C>G	uc002blv.1	+	4	596	c.426C>G	c.(424-426)CAC>CAG	p.H142Q	AKAP13_uc002bls.2_Missense_Mutation_p.H142Q|AKAP13_uc002blt.1_Missense_Mutation_p.H142Q|AKAP13_uc002blu.1_Missense_Mutation_p.H142Q	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	142					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CATTCAGGCACCTGAAGCTGC	0.448													22	115					0	0	0.012319	0	0		G	86077059	G	G	86077059	3	3	146	1	0	0	0	0	1	0	0	0	449	506	18	5	436	5	AKAP13	15	86077059	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	2727452	86077059	16454333	50	76614											
SPSB3	90864	broad.mit.edu	37	chr16	1831391	1831391	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtagccccagttagtggAgcctgctagagccacggccc	7	7	13	14	2	0	1	0	0	0	1	1	2	0	2	5	2	4	3	5	2	3	3			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr16:1831391A>G	uc002cmr.2	-	1	127	c.94T>C	c.(94-96)TCC>CCC	p.S32P	NUBP2_uc002cmw.3_5'Flank|NUBP2_uc002cmx.3_5'Flank|NUBP2_uc010brx.2_5'Flank|SPSB3_uc002cms.2_5'UTR|SPSB3_uc002cmt.2_5'UTR|SPSB3_uc002cmu.2_Missense_Mutation_p.S32P|SPSB3_uc002cmv.2_5'UTR|SPSB3_uc010uvm.1_Missense_Mutation_p.S32P	NM_080861	NP_543137	Q6PJ21	SPSB3_HUMAN	splA/ryanodine receptor domain and SOCS box	32					intracellular signal transduction						0						CAGTTAGTGGAGCCTGCTAGA	0.672													25	76					0	0	0.00632	0	0		G	1831391	G	G	1831391	3	3	146	1	0	0	0	0	1	0	0	0	15139	304	11	3	997	3	SPSB3	16	1831391	Missense_Mutation	SNP	A	TCGA-CG-4477-01A-01D-1158-08		1831391	88523362	51	76615											
KIAA0100	9703	broad.mit.edu	37	chr17	26965392	26965392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggtccacagttaggaCgccccgctgatggatgcttt	7	10	14	10	2	0	1	0	1	0	0	1	4	1	3	3	4	1	3	3	4	1	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr17:26965392C>T	uc002hbu.2	-	13	1489	c.1390G>A	c.(1390-1392)GTC>ATC	p.V464I		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	464						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					ACAGTTAGGACGCCCCGCTGA	0.567													8	114					0	0	0.00308	0	0		T	26965392	T	T	26965392	3	4	146	1	0	0	0	0	1	0	0	0	8170	536	19	1	5425	1	KIAA0100	17	26965392	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08		26965392	54229818	52	76616											
TOP2A	7153	broad.mit.edu	37	chr17	38560458	38560458	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccagctaattgggcaacCtttacttctcgcttgtcatt	8	15	7	11	1	2	0	1	0	1	0	4	1	3	0	2	1	3	3	2	1	3	7			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr17:38560458C>A	uc002huq.2	-	19	2355	c.2229G>T	c.(2227-2229)AAG>AAT	p.K743N		NM_001067	NP_001058	P11388	TOP2A_HUMAN	DNA topoisomerase II, alpha isozyme	743					apoptotic chromosome condensation|DNA ligation|DNA repair|DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|phosphatidylinositol-mediated signaling|positive regulation of apoptosis|positive regulation of retroviral genome replication|resolution of meiotic recombination intermediates|sister chromatid segregation	cytoplasm|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|drug binding|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity|ubiquitin binding			ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00183)		Amsacrine(DB00276)|Ciprofloxacin(DB00537)|Dexrazoxane(DB00380)|Doxorubicin(DB00997)|Enoxacin(DB00467)|Epirubicin(DB00445)|Etoposide(DB00773)|Fleroxacin(DB04576)|Gatifloxacin(DB01044)|Idarubicin(DB01177)|Levofloxacin(DB01137)|Lomefloxacin(DB00978)|Lucanthone(DB04967)|Mitoxantrone(DB01204)|Moxifloxacin(DB00218)|Norfloxacin(DB01059)|Ofloxacin(DB01165)|Pefloxacin(DB00487)|Podofilox(DB01179)|Sparfloxacin(DB01208)|Teniposide(DB00444)|Trovafloxacin(DB00685)|Valrubicin(DB00385)	ATTGGGCAACCTTTACTTCTC	0.378													108	285					1.22908e-42	1.44689e-42	0.01441	1	0		A	38560458	A	A	38560458	3	1	146	1	0	0	0	0	1	0	0	0	16391	680	24	5	2434	5	TOP2A	17	38560458	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	11595066	38560458	42634752	53	76617											
CDH2	1000	broad.mit.edu	37	chr18	25585844	25585844	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctcaggaactgtcccattCcaaacctggtgtaagaactc	11	9	7	14	0	1	1	1	0	0	1	4	2	3	2	4	2	3	1	4	2	4	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr18:25585844C>A	uc002kwg.2	-	6	1275	c.816G>T	c.(814-816)TGG>TGT	p.W272C	CDH2_uc010xbn.1_Missense_Mutation_p.W241C	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	272	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding	p.W272R(1)		ovary(3)|lung(1)	4						CTGTCCCATTCCAAACCTGGT	0.388													62	201					3.13743e-37	3.64726e-37	0.01441	1	0		A	25585844	A	A	25585844	3	1	146	1	0	0	0	0	1	0	0	0	3108	856	30	5	1948	5	CDH2	18	25585844	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08		25585844	52491404	54	76618											
ZNF554	115196	broad.mit.edu	37	chr19	2834817	2834817	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcattgactgtgggaaagcGttctaccagaacagacatct	13	10	9	9	1	3	3	1	1	2	2	3	4	3	4	1	1	3	1	1	1	3	3			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr19:2834817G>A	uc002lwm.2	+	5	1782	c.1584G>A	c.(1582-1584)GCG>GCA	p.A528A	ZNF554_uc002lwl.2_Silent_p.A477A	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	528					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTGGGAAAGCGTTCTACCAGA	0.428													48	140					0	0	0.01441	0	0		A	2834817	A	A	2834817	2	1	146	1	0	0	0	0	0	0	0	1	18010	1132	40	1		1	ZNF554	19	2834817	Silent	SNP	G	TCGA-CG-4477-01A-01D-1158-08		2834817	56294166	55	76619											
RANBP3	8498	broad.mit.edu	37	chr19	5917945	5917945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgcgcagggccaggatgCggtggtgcagggctgcatac	6	6	19	10	2	0	0	0	0	0	0	0	1	0	1	1	6	5	5	1	6	1	1			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr19:5917945C>T	uc002mdw.2	-	16	1747	c.1520G>A	c.(1519-1521)CGC>CAC	p.R507H	RANBP3_uc002mdv.2_Missense_Mutation_p.R226H|RANBP3_uc002mdx.2_Missense_Mutation_p.R502H|RANBP3_uc002mdy.2_Missense_Mutation_p.R439H|RANBP3_uc002mdz.2_Missense_Mutation_p.R434H|RANBP3_uc010duq.2_Missense_Mutation_p.R412H|RANBP3_uc002mea.2_Missense_Mutation_p.R374H|RANBP3_uc010xix.1_Missense_Mutation_p.R379H	NM_007322	NP_015561	Q9H6Z4	RANB3_HUMAN	RAN binding protein 3 isoform RANBP3-d	507	RanBD1.				intracellular transport|protein transport	cytoplasm|nucleus	Ran GTPase binding			breast(1)	1						GGCCAGGATGCGGTGGTGCAG	0.682													5	165					0	0	0.014758	0	0		T	5917945	T	T	5917945	3	4	146	1	0	0	0	0	1	0	0	0	13054	768	27	1	191	1	RANBP3	19	5917945	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	3083128	5917945	53211038	56	76620											
MAST1	22983	broad.mit.edu	37	chr19	12969492	12969492	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgagaacccgtttgtggtCggcatgttctgctcctttga	5	13	12	11	3	1	2	0	1	1	1	3	3	2	2	3	2	2	4	3	2	1	3			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr19:12969492C>T	uc002mvm.2	+	12	1433	c.1305C>T	c.(1303-1305)GTC>GTT	p.V435V	MAST1_uc002mvk.2_Silent_p.V431V	NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	435	Protein kinase.				cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						CGTTTGTGGTCGGCATGTTCT	0.567													5	78					0	0	0.001168	0	0		T	12969492	T	T	12969492	2	4	146	1	0	0	0	0	0	0	0	1	9342	871	31	1		1	MAST1	19	12969492	Silent	SNP	C	TCGA-CG-4477-01A-01D-1158-08	7051547	12969492	46159491	57	76621											
STX10	8677	broad.mit.edu	37	chr19	13259888	13259889	+	Frame_Shift_Ins	INS	-	ATAT	ATAT																															ctacggctgttgggctgaccINSatatggtccttcatttcctg																										TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr19:13259888_13259889insATAT	uc010xnb.1	-	4	317_318	c.317_318insATAT	c.(316-318)ATGfs	p.M106fs	STX10_uc002mwn.2_Frame_Shift_Ins_p.M5fs|STX10_uc002mwo.2_Frame_Shift_Ins_p.M5fs|STX10_uc010xna.1_Intron|STX10_uc010xnc.1_Intron|IER2_uc002mwr.2_5'Flank	NM_003765	NP_003756	O60499	STX10_HUMAN	syntaxin 10	106	Cytoplasmic (Potential).				Golgi vesicle transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane	SNAP receptor activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.41e-21)			TTGGGCTGACCATATGGTCCTT	0.416													11	20	---	---	---	---						.	ATAT	13259889	ATAT	ATAT	13259888	7	5	146	1	0	1	1	0	0	0	0	0	15361	594	21	0	450	0	STX10	19	13259888	Frame_Shift_Ins	INS	-	TCGA-CG-4477-01A-01D-1158-08	290396	13259888	45869095	58	76622											
ZNF626	199777	broad.mit.edu	37	chr19	20807373	20807373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tatgtgtagtaaggattgagGactggttgaaggctttgcca	10	13	14	4	0	0	2	0	2	0	0	0	4	0	4	1	4	1	4	1	4	4	6			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr19:20807373G>A	uc002npb.1	-	4	1460	c.1310C>T	c.(1309-1311)TCC>TTC	p.S437F	ZNF626_uc002npc.1_Missense_Mutation_p.S361F	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	437	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						AAGGATTGAGGACTGGTTGAA	0.378													11	230					0	0	0.008291	0	0		A	20807373	A	A	20807373	3	1	146	1	0	0	0	0	1	0	0	0	18075	1174	41	4	280	4	ZNF626	19	20807373	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08	7547485	20807373	38321610	59	76623											
SLC1A5	6510	broad.mit.edu	37	chr19	47281994	47281994	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccccacaggaagcggtagggGtttttgcgggtgaagaggaa	10	7	17	7	2	0	2	0	1	0	1	0	4	0	4	2	6	2	2	2	6	4	3			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr19:47281994G>T	uc002pfs.2	-	5	1616	c.996C>A	c.(994-996)AAC>AAA	p.N332K	SLC1A5_uc010xyh.1_Missense_Mutation_p.N130K|SLC1A5_uc002pfq.2_Missense_Mutation_p.N156K|SLC1A5_uc002pfr.2_Missense_Mutation_p.N104K	NM_005628	NP_005619	Q15758	AAAT_HUMAN	solute carrier family 1 member 5 isoform 1	332					cellular nitrogen compound metabolic process	integral to plasma membrane|melanosome|membrane fraction	neutral amino acid transmembrane transporter activity|protein binding|receptor activity|sodium:dicarboxylate symporter activity				0		all_epithelial(76;0.00314)|Ovarian(192;0.0798)|all_neural(266;0.107)		OV - Ovarian serous cystadenocarcinoma(262;0.000338)|all cancers(93;0.000882)|Epithelial(262;0.0211)|GBM - Glioblastoma multiforme(486;0.0341)	L-Asparagine(DB00174)|L-Glutamine(DB00130)	AGCGGTAGGGGTTTTTGCGGG	0.602													32	65					3.76114e-14	4.16411e-14	0.004289	1	0		T	47281994	T	T	47281994	3	4	146	1	0	0	0	0	1	0	0	0	14460	1252	44	5	645	5	SLC1A5	19	47281994	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08	26474621	47281994	11846989	60	76624											
IRF3	3661	broad.mit.edu	37	chr19	50163007	50163007	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgggtggctgttggaaatGtgcaggtccacagtattctc	8	12	14	7	0	1	0	0	0	1	0	3	1	2	1	1	4	1	4	1	4	2	3			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr19:50163007G>A	uc010end.1	-	8	1564	c.1182C>T	c.(1180-1182)CAC>CAT	p.H394H	IRF3_uc002pos.1_RNA|IRF3_uc002pot.1_Silent_p.H267H|IRF3_uc002pox.1_Missense_Mutation_p.H356Y|IRF3_uc002poy.1_Silent_p.H394H|IRF3_uc002pou.2_Silent_p.H394H|IRF3_uc002pov.2_Silent_p.H248H|IRF3_uc002pow.2_Missense_Mutation_p.H400Y	NM_001571	NP_001562	Q14653	IRF3_HUMAN	interferon regulatory factor 3	394					interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|endosome membrane|nucleoplasm|plasma membrane	DNA binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(2)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.02)		TGTTGGAAATGTGCAGGTCCA	0.622													33	98					0	0	0.005524	0	0		A	50163007	A	A	50163007	2	1	146	1	0	0	0	0	0	0	0	1	7847	1368	48	4		4	IRF3	19	50163007	Silent	SNP	G	TCGA-CG-4477-01A-01D-1158-08	2881013	50163007	8965976	61	76625											
CNOT3	4849	broad.mit.edu	37	chr19	54646728	54646728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggaagatggcggacaagcGcaaactccaaggtactagac	15	4	13	9	2	0	2	0	0	0	2	1	4	1	4	1	4	3	2	1	4	6	2			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr19:54646728G>A	uc002qdj.1	+	2	325	c.14G>A	c.(13-15)CGC>CAC	p.R5H	CNOT3_uc010yel.1_Missense_Mutation_p.R5H|CNOT3_uc002qdi.2_5'UTR|CNOT3_uc002qdk.1_Missense_Mutation_p.R5H|CNOT3_uc010ere.1_5'Flank	NM_014516	NP_055331	O75175	CNOT3_HUMAN	CCR4-NOT transcription complex, subunit 3	5					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GCGGACAAGCGCAAACTCCAA	0.527													4	208					0	0	0.009096	0	0		A	54646728	A	A	54646728	3	1	146	1	0	0	0	0	1	0	0	0	3623	1087	38	1	16	1	CNOT3	19	54646728	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08	4483721	54646728	4482255	62	76626											
BTBD3	22903	broad.mit.edu	37	chr20	11899738	11899738	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctctgtttatagaaatGcgatgatgttcaataatgat	12	16	8	5	1	2	3	1	2	1	1	2	4	2	3	1	0	2	2	1	0	5	6			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr20:11899738G>T	uc002wnz.2	+	2	690	c.331G>T	c.(331-333)GCG>TCG	p.A111S	BTBD3_uc002wny.2_Missense_Mutation_p.A50S|BTBD3_uc002woa.2_Missense_Mutation_p.A50S|BTBD3_uc010zrf.1_Intron|BTBD3_uc010zrg.1_5'Flank|BTBD3_uc010zrh.1_5'Flank	NM_014962	NP_055777	Q9Y2F9	BTBD3_HUMAN	BTB/POZ domain containing protein 3 isoform a	111										ovary(2)|central_nervous_system(1)	3						TTATAGAAATGCGATGATGTT	0.438													11	27					6.40141e-05	6.76513e-05	0.010729	1	0		T	11899738	T	T	11899738	3	4	146	1	0	0	0	0	1	0	0	0	1547	1319	46	5	337	5	BTBD3	20	11899738	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08		11899738	51125782	63	76627											
BTBD3	22903	broad.mit.edu	37	chr20	11900476	11900476	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacctgctgcttttctcgcTatgctgaagtaagcatcatt	9	14	8	10	1	2	1	1	1	1	0	3	2	2	1	1	0	5	6	1	0	4	5			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr20:11900476T>A	uc002wnz.2	+	3	887	c.528T>A	c.(526-528)GCT>GCA	p.A176A	BTBD3_uc002wny.2_Silent_p.A115A|BTBD3_uc002woa.2_Silent_p.A115A|BTBD3_uc010zrf.1_Silent_p.A25A|BTBD3_uc010zrg.1_Silent_p.A25A|BTBD3_uc010zrh.1_Silent_p.A25A	NM_014962	NP_055777	Q9Y2F9	BTBD3_HUMAN	BTB/POZ domain containing protein 3 isoform a	176	BTB.									ovary(2)|central_nervous_system(1)	3						CTTTTCTCGCTATGCTGAAGT	0.418													36	149					0	0	0.006999	0	0		A	11900476	A	A	11900476	2	1	146	1	0	0	0	0	0	0	0	1	1547	1509	53	5		5	BTBD3	20	11900476	Silent	SNP	T	TCGA-CG-4477-01A-01D-1158-08	738	11900476	51125044	64	76628											
THBD	7056	broad.mit.edu	37	chr20	23029226	23029229	+	Frame_Shift_Del	DEL	AGGA	-	-																															ggtctcgcacatgcacgagtAggagcccggctggtcggggt																										TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr20:23029226_23029229delAGGA	uc002wss.2	-	1	1073_1076	c.913_916delTCCT	c.(913-918)TCCTACfs	p.S305fs	THBD_uc002wst.1_5'Flank|THBD_uc002wsu.1_Frame_Shift_Del_p.S246fs	NM_000361	NP_000352	P07204	TRBM_HUMAN	thrombomodulin precursor	305_306	EGF-like 2.|Extracellular (Potential).				blood coagulation|leukocyte migration|negative regulation of fibrinolysis|negative regulation of platelet activation	cell surface|integral to plasma membrane	calcium ion binding|protein binding|transmembrane receptor activity				0	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)				Drotrecogin alfa(DB00055)	ATGCACGAGTAGGAGCCCGGCTGG	0.686													18	38	---	---	---	---						.	-	23029229	-	-	23029226	7	5	146	1	0	1	0	1	0	0	0	0	15877	420	15	0	815	0	THBD	20	23029226	Frame_Shift_Del	DEL	AGGA	TCGA-CG-4477-01A-01D-1158-08	11128750	23029226	39996294	65	76629											
BPIL1	80341	broad.mit.edu	37	chr20	31609144	31609144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaagcccctgctggaccatCtcaatggtaagccctgccct	9	8	9	15	0	1	1	1	0	1	1	2	2	1	2	5	2	4	2	5	2	3	1			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr20:31609144C>T	uc002wyj.2	+	14	1446	c.1252C>T	c.(1252-1254)CTC>TTC	p.L418F		NM_025227	NP_079503	Q8N4F0	BPIL1_HUMAN	bactericidal/permeability-increasing	418						extracellular region	lipid binding			skin(2)|large_intestine(1)|ovary(1)	4						GCTGGACCATCTCAATGGTAA	0.652													7	42					0	0	0.00308	0	0		T	31609144	T	T	31609144	3	4	146	1	0	0	0	0	1	0	0	0	1494	913	32	4	1302	4	BPIL1	20	31609144	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	8579918	31609144	31416376	66	76630											
C20orf117	140710	broad.mit.edu	37	chr20	35422968	35422968	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggggaacagtcgagcaaacTttcaaactcagacatggaag	16	6	11	8	1	2	1	2	0	0	1	3	4	2	3	0	3	4	1	0	3	4	1			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr20:35422968T>C	uc002xgd.1	-	14	3130	c.2803A>G	c.(2803-2805)AGT>GGT	p.S935G	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	935											0		Myeloproliferative disorder(115;0.00874)				TCGAGCAAACTTTCAAACTCA	0.507													70	183					0	0	0.01441	0	0		C	35422968	C	C	35422968	3	2	146	1	0	0	0	0	1	0	0	0	2086	1609	56	3	1538	3	C20orf117	20	35422968	Missense_Mutation	SNP	T	TCGA-CG-4477-01A-01D-1158-08	3813824	35422968	27602552	67	76631											
SAMHD1	25939	broad.mit.edu	37	chr20	35555588	35555588	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgtatgaatacataccgtCcatttcacctccgggcgagc	10	10	8	13	3	1	1	1	1	0	0	3	2	3	1	4	1	3	1	4	1	4	4			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chr20:35555588C>A	uc002xgh.1	-	6	823	c.693G>T	c.(691-693)TGG>TGT	p.W231C		NM_015474	NP_056289	Q9Y3Z3	SAMH1_HUMAN	SAM domain- and HD domain-containing protein 1	231	HD.				defense response to virus|innate immune response|regulation of innate immune response	nucleus	metal ion binding|phosphoric diester hydrolase activity				0		Myeloproliferative disorder(115;0.00878)				TACATACCGTCCATTTCACCT	0.353													50	149					2.01807e-28	2.31704e-28	0.01441	1	0		A	35555588	A	A	35555588	3	1	146	1	0	0	0	0	1	0	0	0	13853	856	30	5	1231	5	SAMHD1	20	35555588	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	132620	35555588	27469932	68	76632											
SH3KBP1	30011	broad.mit.edu	37	chrX	19560206	19560206	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtccagctgttcccaaagAggatgacaggggggagggcg	9	6	18	8	1	0	2	0	1	0	1	2	4	2	4	2	5	1	2	2	5	1	1			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chrX:19560206A>G	uc004czm.2	-	16	2045	c.1729T>C	c.(1729-1731)TCT>CCT	p.S577P	SH3KBP1_uc011mje.1_Missense_Mutation_p.S316P|SH3KBP1_uc011mjf.1_Missense_Mutation_p.S339P|SH3KBP1_uc004czl.2_Missense_Mutation_p.S540P|SH3KBP1_uc010nfm.2_Missense_Mutation_p.S22P	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	577					apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						GTTCCCAAAGAGGATGACAGG	0.657													31	164					0	0	0.003755	0	0		G	19560206	G	G	19560206	3	3	146	1	0	0	0	0	1	0	0	0	14280	304	11	3	280	3	SH3KBP1	23	19560206	Missense_Mutation	SNP	A	TCGA-CG-4477-01A-01D-1158-08		19560206	135710354	69	76633											
KLHL15	80311	broad.mit.edu	37	chrX	24024572	24024572	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaggacatggctgaaaccgGtagctgttagaccttttaaa	12	10	11	8	1	0	2	0	1	0	1	0	3	0	3	2	3	2	5	2	3	5	4			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chrX:24024572G>C	uc004dba.3	-	3	495	c.239C>G	c.(238-240)ACC>AGC	p.T80S		NM_030624	NP_085127	Q96M94	KLH15_HUMAN	kelch-like 15	80	BTB.									ovary(1)|breast(1)	2						GCTGAAACCGGTAGCTGTTAG	0.413													32	211					0	0	0.009535	0	0		C	24024572	C	C	24024572	3	2	146	1	0	0	0	0	1	0	0	0	8387	1261	44	5	1583	5	KLHL15	23	24024572	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08	4464366	24024572	131245988	70	76634											
DMD	1756	broad.mit.edu	37	chrX	31152236	31152236	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tacctcttgaactagggaagGagttgttgagttgctccatc	9	13	11	8	0	1	2	0	2	1	0	3	4	2	4	2	2	3	4	2	2	4	6			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chrX:31152236G>C	uc004dda.1	-	77	11241	c.10997C>G	c.(10996-10998)TCC>TGC	p.S3666C	DMD_uc004dcq.1_Missense_Mutation_p.S937C|DMD_uc004dcr.1_Missense_Mutation_p.S1086C|DMD_uc004dcs.1_Missense_Mutation_p.S1096C|DMD_uc004dct.1_Missense_Mutation_p.S1206C|DMD_uc004dcu.1_Missense_Mutation_p.S1206C|DMD_uc004dcv.1_Missense_Mutation_p.S1193C|DMD_uc004dcw.2_Missense_Mutation_p.S2322C|DMD_uc004dcx.2_Missense_Mutation_p.S2325C|DMD_uc004dcz.2_Missense_Mutation_p.S3543C|DMD_uc004dcy.1_Missense_Mutation_p.S3662C|DMD_uc004ddb.1_Missense_Mutation_p.S3658C|DMD_uc004dcm.1_Missense_Mutation_p.S598C|DMD_uc004dcn.1_Missense_Mutation_p.S585C|DMD_uc004dco.1_Missense_Mutation_p.S598C|DMD_uc004dcp.1_Missense_Mutation_p.S585C|DMD_uc011mkb.1_Missense_Mutation_p.S488C	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3666					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				ACTAGGGAAGGAGTTGTTGAG	0.468													14	58					0	0	0.006122	0	0		C	31152236	C	C	31152236	3	2	146	1	0	0	0	0	1	0	0	0	4586	1174	41	5	158	5	DMD	23	31152236	Missense_Mutation	SNP	G	TCGA-CG-4477-01A-01D-1158-08	7127664	31152236	124118324	71	76635											
CCNB3	85417	broad.mit.edu	37	chrX	50052274	50052274	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttaaggagtcgttagccTttaagaagaagcctagcact	12	12	10	7	1	0	2	0	0	0	2	1	3	0	3	2	1	3	3	2	1	6	6			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chrX:50052274T>A	uc004dox.3	+	6	1403	c.1105T>A	c.(1105-1107)TTT>ATT	p.F369I	CCNB3_uc004doy.2_Missense_Mutation_p.F369I|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	369					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					GTCGTTAGCCTTTAAGAAGAA	0.458													17	126					0	0	0.014323	0	0		A	50052274	A	A	50052274	3	1	146	1	0	0	0	0	1	0	0	0	2917	1609	56	5	1119	5	CCNB3	23	50052274	Missense_Mutation	SNP	T	TCGA-CG-4477-01A-01D-1158-08	18900038	50052274	105218286	72	76636											
ATP7A	538	broad.mit.edu	37	chrX	77245137	77245137	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaatagaggctgtatcacCggggctatatagagttagta	13	10	12	6	1	1	2	1	0	0	2	1	2	1	2	1	3	1	6	1	3	8	7			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chrX:77245137C>T	uc004ecx.3	+	4	1179	c.1019C>T	c.(1018-1020)CCG>CTG	p.P340L	ATP7A_uc004ecw.2_Missense_Mutation_p.P340L	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	340	HMA 3.|Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						GCTGTATCACCGGGGCTATAT	0.423													27	349					0	0	0.003954	0	0		T	77245137	T	T	77245137	3	4	146	1	0	0	0	0	1	0	0	0	1191	652	23	1	1029	1	ATP7A	23	77245137	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	27192863	77245137	78025423	73	76637											
RPS6KA6	27330	broad.mit.edu	37	chrX	83351320	83351320	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattagcaaatggagtgtagCtattaataaaatagatttta	17	14	7	3	0	0	1	0	0	0	1	0	2	0	2	0	1	2	3	0	1	9	8			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chrX:83351320C>T	uc004eej.1	-	20	1931	c.1854_splice	c.e20-1	p.G618_splice	RPS6KA6_uc011mqt.1_Splice_Site_p.G618_splice|RPS6KA6_uc011mqu.1_Splice_Site_p.G515_splice	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6						axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TGGAGTGTAGCTATTAATAAA	0.348													15	51					0	0	0.004007	0	0		T	83351320	T	T	83351320	5	4	146	1	0	0	0	0	0	0	1	0	13680	811	28	2	396	2	RPS6KA6	23	83351320	Splice_Site	SNP	C	TCGA-CG-4477-01A-01D-1158-08	6106183	83351320	71919240	74	76638											
GABRA3	2556	broad.mit.edu	37	chrX	151424320	151424320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggcgtggtcatgttatgagCcactgatttcttgccattgt	6	15	12	8	1	2	2	1	2	1	0	2	2	2	2	2	2	2	1	2	2	1	4			TCGA-CG-4477-01A-01D-1158-08	TCGA-CG-4477-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	b90e44b2-1ae5-47dd-b979-81612daaf3db	02d6b265-8620-4a55-b3c5-84d930b65532	g.chrX:151424320C>T	uc010ntk.1	-	5	721	c.481G>A	c.(481-483)GCT>ACT	p.A161T		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	161	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ATGTTATGAGCCACTGATTTC	0.493													72	245					0	0	0.01441	0	0		T	151424320	T	T	151424320	3	4	146	1	0	0	0	0	1	0	0	0	6176	739	26	2	1021	2	GABRA3	23	151424320	Missense_Mutation	SNP	C	TCGA-CG-4477-01A-01D-1158-08	68073000	151424320	3846240	75	76639											
PGD	5226	broad.mit.edu	37	chr1	10460553	10460553	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gtccctgaaagagatggtctCcaagctgaagaagccccggc	11	6	12	12	1	1	4	0	2	1	2	3	5	2	4	4	2	2	1	4	2	4	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:10460553C>G	uc001arc.2	+	3	278	c.188C>G	c.(187-189)TCC>TGC	p.S63C	PGD_uc001ard.2_5'UTR|PGD_uc010oak.1_Missense_Mutation_p.S63C|PGD_uc010oal.1_Missense_Mutation_p.S50C	NM_002631	NP_002622	P52209	6PGD_HUMAN	phosphogluconate dehydrogenase	63					pentose-phosphate shunt, oxidative branch	cytosol	NADP binding|phosphogluconate dehydrogenase (decarboxylating) activity|protein binding			ovary(1)	1	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.14e-07)|COAD - Colon adenocarcinoma(227;7.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.00832)|READ - Rectum adenocarcinoma(331;0.0487)		GAGATGGTCTCCAAGCTGAAG	0.517													3	88					0	0	0.000602	0	0		G	10460553	G	G	10460553	3	3	147	1	0	0	0	0	1	0	0	0	11806	855	30	5	198	5	PGD	1	10460553	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08		10460553	238790068	1	76640											
RBBP4	5928	broad.mit.edu	37	chr1	33138051	33138051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcttcattcctatgtgtagGttcagtggtcacctcacaat	8	16	7	10	0	5	0	4	0	1	0	6	0	6	0	2	2	0	2	2	2	3	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:33138051G>A	uc001bvr.2	+	9	1126	c.967G>A	c.(967-969)GTT>ATT	p.V323I	RBBP4_uc001bvs.2_Missense_Mutation_p.V322I|RBBP4_uc010ohj.1_Missense_Mutation_p.V71I|RBBP4_uc010ohk.1_Missense_Mutation_p.V288I	NM_005610	NP_005601	Q09028	RBBP4_HUMAN	retinoblastoma binding protein 4 isoform a	323	WD 5.				cell cycle|CenH3-containing nucleosome assembly at centromere|DNA replication|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|ESC/E(Z) complex|NuRD complex|NURF complex|Sin3 complex	histone binding|histone deacetylase binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				CTATGTGTAGGTTCAGTGGTC	0.313													4	150					0	0	0.009096	0	0		A	33138051	A	A	33138051	3	1	147	1	0	0	0	0	1	0	0	0	13126	1275	44	4	1001	4	RBBP4	1	33138051	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	22677498	33138051	216112570	2	76641											
FAF1	11124	broad.mit.edu	37	chr1	51171554	51171554	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttttgatttaatgactcCtgcagggcactgaaagggtt	11	13	11	6	0	0	3	0	3	0	0	1	3	1	3	1	2	1	4	1	2	3	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:51171554C>G	uc009vyx.1	-	8	624	c.561G>C	c.(559-561)CAG>CAC	p.Q187H	FAF1_uc009vyw.1_RNA|FAF1_uc001cse.1_Missense_Mutation_p.Q187H	NM_007051	NP_008982	Q9UNN5	FAF1_HUMAN	FAS-associated factor 1	187					apoptosis|cytoplasmic sequestering of NF-kappaB|positive regulation of apoptosis|positive regulation of protein complex assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of protein catabolic process	CD95 death-inducing signaling complex|cytosol|perinuclear region of cytoplasm	heat shock protein binding|NF-kappaB binding|protein kinase binding|protein kinase regulator activity	p.0?(1)		ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)		TTAATGACTCCTGCAGGGCAC	0.453													3	95					0	0	0.004672	0	0		G	51171554	G	G	51171554	3	3	147	1	0	0	0	0	1	0	0	0	5380	680	24	5	1443	5	FAF1	1	51171554	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	18033503	51171554	198079067	3	76642											
HOOK1	51361	broad.mit.edu	37	chr1	60331609	60331609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagatatgaaagcaatggagGaaagatataaaatgtacttg	20	9	10	2	0	0	3	0	1	0	2	0	5	0	5	0	2	2	2	0	2	9	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:60331609G>A	uc009wad.2	+	20	1912	c.1810G>A	c.(1810-1812)GAA>AAA	p.E604K	HOOK1_uc001czo.2_Missense_Mutation_p.E604K|HOOK1_uc001czp.2_RNA|HOOK1_uc010oor.1_Missense_Mutation_p.E562K	NM_015888	NP_056972	Q9UJC3	HOOK1_HUMAN	hook homolog 1	604	Potential.				early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|multicellular organismal development|protein transport	FHF complex|microtubule	identical protein binding			ovary(1)|breast(1)	2	all_cancers(7;0.000129)					AGCAATGGAGGAAAGATATAA	0.348													6	94					0	0	0.001168	0	0		A	60331609	A	A	60331609	3	1	147	1	0	0	0	0	1	0	0	0	7298	1175	41	4	1884	4	HOOK1	1	60331609	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	9160055	60331609	188919012	4	76643											
PDE4B	5142	broad.mit.edu	37	chr1	66833513	66833513	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcagcgtcagacactcAggaagatggttattgacatg	14	8	12	7	1	2	4	2	1	0	3	2	5	2	5	0	2	2	2	0	2	3	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:66833513A>G	uc001dcn.2	+	14	1710	c.1519A>G	c.(1519-1521)AGG>GGG	p.R507G	PDE4B_uc009war.2_Missense_Mutation_p.R415G|PDE4B_uc001dco.2_Missense_Mutation_p.R507G|PDE4B_uc001dcp.2_Missense_Mutation_p.R492G|PDE4B_uc001dcq.2_Missense_Mutation_p.R335G|PDE4B_uc009was.2_Missense_Mutation_p.R274G	NM_001037341	NP_001032418	Q07343	PDE4B_HUMAN	phosphodiesterase 4B isoform 1	507					signal transduction	cytosol|insoluble fraction|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Adenosine monophosphate(DB00131)|Amrinone(DB01427)|Caffeine(DB00201)|Cilostazol(DB01166)|Dyphylline(DB00651)|Enprofylline(DB00824)|Papaverine(DB01113)|Pentoxifylline(DB00806)|Theophylline(DB00277)	TCAGACACTCAGGAAGATGGT	0.403													6	243					0	0	0.00308	0	0		G	66833513	G	G	66833513	3	3	147	1	0	0	0	0	1	0	0	0	11659	179	7	3	1927	3	PDE4B	1	66833513	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	6501904	66833513	182417108	5	76644											
CLCA4	22802	broad.mit.edu	37	chr1	87029424	87029424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagatcagcctttctaccgtGctaagtcaaaaaaaatcgaa	17	9	6	9	2	3	1	2	0	1	1	4	2	3	1	2	0	3	1	2	0	8	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:87029424G>A	uc009wcs.2	+	4	573	c.529G>A	c.(529-531)GCT>ACT	p.A177T	CLCA4_uc009wct.2_Intron|CLCA4_uc009wcu.2_Intron	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	177						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		TTTCTACCGTGCTAAGTCAAA	0.398													6	96					0	0	0.001168	0	0		A	87029424	A	A	87029424	3	1	147	1	0	0	0	0	1	0	0	0	3462	1319	46	2	543	2	CLCA4	1	87029424	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	20195911	87029424	162221197	6	76645											
GBP6	163351	broad.mit.edu	37	chr1	89843764	89843764	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaccaccaggccctggagCagctgcagtatccttccagg	9	7	10	15	0	1	0	1	0	0	0	3	1	3	1	5	3	4	4	5	3	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:89843764C>A	uc001dnf.2	+	4	695	c.421C>A	c.(421-423)CAG>AAG	p.Q141K	GBP6_uc010ost.1_Missense_Mutation_p.Q11K	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	141							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		GGCCCTGGAGCAGCTGCAGTA	0.483													10	198					1.58986e-06	1.75031e-06	0.008291	1	0		A	89843764	A	A	89843764	3	1	147	1	0	0	0	0	1	0	0	0	6293	711	25	5	431	5	GBP6	1	89843764	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	2814340	89843764	159406857	7	76646											
SORT1	6272	broad.mit.edu	37	chr1	109870198	109870198	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagtttctgggagatgctgTaggaagcatgaatatgaagg	12	11	14	4	0	2	3	1	2	1	1	2	5	2	4	0	3	2	4	0	3	5	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:109870198T>C	uc001dxm.1	-	12	1446	c.1397A>G	c.(1396-1398)TAC>TGC	p.Y466C	SORT1_uc010ovi.1_Missense_Mutation_p.Y329C	NM_002959	NP_002950	Q99523	SORT_HUMAN	sortilin 1 preproprotein	466	Extracellular (Potential).				endocytosis|endosome to lysosome transport|endosome transport via multivesicular body sorting pathway|glucose import|Golgi to endosome transport|induction of apoptosis by extracellular signals|myotube differentiation|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|neuropeptide signaling pathway|ossification|plasma membrane to endosome transport|regulation of gene expression|response to insulin stimulus|vesicle organization	cell surface|coated pit|early endosome|endoplasmic reticulum membrane|endosome membrane|Golgi cisterna membrane|integral to membrane|lysosomal membrane|microsome|nuclear membrane|perinuclear region of cytoplasm|plasma membrane	enzyme binding|nerve growth factor binding|nerve growth factor receptor activity|neurotensin receptor activity, non-G-protein coupled			ovary(1)	1		all_epithelial(167;4.69e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0529)|Colorectal(144;0.142)|Epithelial(280;0.145)|Kidney(133;0.169)|all cancers(265;0.184)		GGAGATGCTGTAGGAAGCATG	0.428													7	138					0	0	0.004482	0	0		C	109870198	C	C	109870198	3	2	147	1	0	0	0	0	1	0	0	0	14960	1638	57	3	1134	3	SORT1	1	109870198	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	20026434	109870198	139380423	8	76647											
PTPN22	26191	broad.mit.edu	37	chr1	114357554	114357555	+	Missense_Mutation	DNP	CC	AA	AA																															ttccaagttggtggtggattCcttggtcctttgggttttga																										TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:114357554_114357555CC>AA	uc001eds.2	-	21	2526_2527	c.2396_2397GG>TT	c.(2395-2397)AGG>ATT	p.R799I	RSBN1_uc001edq.2_5'Flank|RSBN1_uc001edr.2_5'Flank|PTPN22_uc009wgq.2_Missense_Mutation_p.R744I|PTPN22_uc010owo.1_Missense_Mutation_p.R555I|PTPN22_uc001edt.2_3'UTR	NM_015967	NP_057051	Q9Y2R2	PTN22_HUMAN	protein tyrosine phosphatase, non-receptor type	799					negative regulation of T cell activation|negative regulation of T cell receptor signaling pathway|phosphoanandamide dephosphorylation|regulation of B cell receptor signaling pathway|regulation of natural killer cell proliferation|T cell differentiation	internal side of plasma membrane|nucleus|perinuclear region of cytoplasm	kinase binding|protein tyrosine phosphatase activity|SH3 domain binding			kidney(2)|lung(1)|skin(1)	4	Lung SC(450;0.184)	all_cancers(81;1.93e-08)|all_epithelial(167;4.37e-08)|all_lung(203;5.22e-06)|Lung NSC(69;8.94e-06)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTGGTGGATTCCTTGGTCCTTT	0.322													4	90					0	0	0.004672	0	0		AA	114357555	AA	AA	114357554	3	1	147	1	0	0	0	0	1	0	0	0	12812	854	30	5	30	5	PTPN22	1	114357554	Missense_Mutation	DNP	CC	TCGA-CG-5717-01A-11D-1600-08	4487356	114357554	134893067	9	76648											
HORMAD1	84072	broad.mit.edu	37	chr1	150680760	150680760	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagtaaaaaagtttcatggtCaaacaaacatcattaggtaa	19	11	6	5	0	3	0	3	0	0	0	3	0	3	0	0	2	2	3	0	2	8	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:150680760C>T	uc001evk.1	-	9	625	c.519G>A	c.(517-519)TTG>TTA	p.L173L	HORMAD1_uc001evl.1_Silent_p.L166L|HORMAD1_uc001evm.1_Silent_p.L93L	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	173	HORMA.				blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			GTTTCATGGTCAAACAAACAT	0.343													6	147					0	0	0.001984	0	0		T	150680760	T	T	150680760	2	4	147	1	0	0	0	0	0	0	0	1	7302	825	29	4		4	HORMAD1	1	150680760	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	36323206	150680760	98569861	10	76649											
BNIPL	149428	broad.mit.edu	37	chr1	151010070	151010070	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagattgcagaagcaccagaActaggagcagccctgagaca	15	4	12	10	0	0	4	0	1	0	4	0	7	0	5	2	1	5	3	2	1	3	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:151010070A>G	uc001ewl.2	+	2	242	c.69A>G	c.(67-69)GAA>GAG	p.E23E	BNIPL_uc009wmi.2_5'UTR|BNIPL_uc009wmj.2_5'Flank	NM_138278	NP_612122	Q7Z465	BNIPL_HUMAN	BCL2/adenovirus E1B 19kD interacting protein	23					apoptosis|induction of apoptosis|negative regulation of cell proliferation|regulation of growth rate	cytosol|nucleus	identical protein binding				0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			AAGCACCAGAACTAGGAGCAG	0.498													3	18					0	0	0.004672	0	0		G	151010070	G	G	151010070	2	3	147	1	0	0	0	0	0	0	0	1	1481	40	2	3		3	BNIPL	1	151010070	Silent	SNP	A	TCGA-CG-5717-01A-11D-1600-08	329310	151010070	98240551	11	76650											
CELF3	11189	broad.mit.edu	37	chr1	151680269	151680269	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catcaggggcagtgctcacgGcctgggtgtaggcgctgtag	6	8	17	10	2	2	0	2	0	0	0	2	0	2	0	1	5	1	5	1	5	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:151680269G>T	uc001eys.1	-	6	1423	c.629C>A	c.(628-630)GCC>GAC	p.A210D	CELF3_uc010pdh.1_Missense_Mutation_p.A18D|CELF3_uc001eyr.2_Missense_Mutation_p.A209D|CELF3_uc009wmy.2_Missense_Mutation_p.A210D|CELF3_uc009wmx.1_Missense_Mutation_p.A210D|CELF3_uc001eyt.2_Missense_Mutation_p.A133D|C1orf230_uc001eyu.2_5'Flank	NM_007185	NP_009116	Q5SZQ8	CELF3_HUMAN	trinucleotide repeat containing 4	210					nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	mRNA binding|nucleotide binding			ovary(1)|central_nervous_system(1)	2						AGTGCTCACGGCCTGGGTGTA	0.687													7	33					3.09899e-07	3.4755e-07	0.004482	1	0		T	151680269	T	T	151680269	3	4	147	1	0	0	0	0	1	0	0	0	3220	1217	42	5	796	5	CELF3	1	151680269	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	670199	151680269	97570352	12	76651											
TDRD10	126668	broad.mit.edu	37	chr1	154493818	154493818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctttgcatttgtagatctgGgctccatgcagaaagtgaca	10	12	11	8	0	1	3	0	1	1	2	2	3	2	3	1	1	2	5	1	1	2	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:154493818G>A	uc009wow.2	+	6	1070	c.232G>A	c.(232-234)GGC>AGC	p.G78S	TDRD10_uc001ffd.2_Missense_Mutation_p.G78S|TDRD10_uc001ffe.2_5'UTR	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	78	RRM.						nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			TGTAGATCTGGGCTCCATGCA	0.512													28	250					0	0	0.00632	0	0		A	154493818	A	A	154493818	3	1	147	1	0	0	0	0	1	0	0	0	15756	1232	43	4	250	4	TDRD10	1	154493818	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	2813549	154493818	94756803	13	76652											
ASH1L	55870	broad.mit.edu	37	chr1	155450973	155450973	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctggttaaaggattaacaGatacagtaggtgatggggaa	14	11	13	3	0	1	2	0	1	1	1	1	4	1	4	0	5	2	2	0	5	6	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:155450973G>C	uc009wqq.2	-	3	2168	c.1688C>G	c.(1687-1689)TCT>TGT	p.S563C	ASH1L_uc001fkt.2_Missense_Mutation_p.S563C|ASH1L_uc009wqr.1_Missense_Mutation_p.S563C	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	563					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			AGGATTAACAGATACAGTAGG	0.418													9	132					0	0	0.013537	0	0		C	155450973	C	C	155450973	3	2	147	1	0	0	0	0	1	0	0	0	1042	942	33	5	7310	5	ASH1L	1	155450973	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	957155	155450973	93799648	14	76653											
IQGAP3	128239	broad.mit.edu	37	chr1	156517991	156517991	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagccgacgttggctttccaGagctgttggcggtcataggc	7	10	14	10	3	1	1	1	0	0	1	2	2	2	1	2	4	2	4	2	4	2	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:156517991G>C	uc001fpf.2	-	19	2253	c.2178C>G	c.(2176-2178)CTC>CTG	p.L726L		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	726					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGGCTTTCCAGAGCTGTTGGC	0.572													3	28					0	0	0.009096	0	0		C	156517991	C	C	156517991	2	2	147	1	0	0	0	0	0	0	0	1	7832	929	33	5		5	IQGAP3	1	156517991	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	1067018	156517991	92732630	15	76654											
BCAN	63827	broad.mit.edu	37	chr1	156618415	156618415	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acattggaggaagcacgggcGtactgccaggagcggggtgc	9	5	18	9	3	0	0	0	0	0	0	0	3	0	3	1	6	5	2	1	6	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:156618415G>A	uc001fpp.2	+	6	1161	c.825G>A	c.(823-825)GCG>GCA	p.A275A	BCAN_uc001fpo.2_Silent_p.A275A	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	275	Link 2.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AAGCACGGGCGTACTGCCAGG	0.498													4	172					0	0	0.009096	0	0		A	156618415	A	A	156618415	2	1	147	1	0	0	0	0	0	0	0	1	1346	1132	40	1		1	BCAN	1	156618415	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	100424	156618415	92632206	16	76655											
OR6K2	81448	broad.mit.edu	37	chr1	158670388	158670388	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagacttaacccaggaatAagggaaagcggagaagataa	20	4	11	6	1	0	3	0	0	0	3	0	6	0	5	1	3	3	0	1	3	7	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:158670388A>G	uc001fsu.1	-	1	55	c.55T>C	c.(55-57)TAT>CAT	p.Y19H		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	19	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					ACCCAGGAATAAGGGAAAGCG	0.448													3	145					0	0	0.004672	0	0		G	158670388	G	G	158670388	3	3	147	1	0	0	0	0	1	0	0	0	11221	362	13	3	923	3	OR6K2	1	158670388	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	2051973	158670388	90580233	17	76656											
SLAMF6	114836	broad.mit.edu	37	chr1	160461007	160461007	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgttcactggaaatcctgGggtcccaggagacagtgagg	9	8	14	10	0	1	2	1	1	0	1	3	4	3	3	3	5	0	1	3	5	1	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:160461007G>T	uc001fwe.1	-	3	614	c.554C>A	c.(553-555)CCC>CAC	p.P185H	SLAMF6_uc001fwd.1_Missense_Mutation_p.P185H|SLAMF6_uc010pjh.1_Missense_Mutation_p.P136H|SLAMF6_uc010pji.1_Missense_Mutation_p.P74H|SLAMF6_uc010pjj.1_Missense_Mutation_p.P74H|SLAMF6_uc009wtm.1_Missense_Mutation_p.P136H	NM_052931	NP_443163	Q96DU3	SLAF6_HUMAN	activating NK receptor precursor	185	Extracellular (Potential).|Ig-like.					integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	all_cancers(52;1.05e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0923)			GGAAATCCTGGGGTCCCAGGA	0.493													8	154					1.06961e-07	1.2052e-07	0.00308	1	0		T	160461007	T	T	160461007	3	4	147	1	0	0	0	0	1	0	0	0	14393	1232	43	5	468	5	SLAMF6	1	160461007	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	1790619	160461007	88789614	18	76657											
GPA33	10223	broad.mit.edu	37	chr1	167042757	167042757	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcggagtttccacagagatGgcatcgacggtcaccctgac	9	8	12	12	3	1	2	1	1	0	1	3	5	2	3	2	3	1	2	2	3	0	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:167042757G>A	uc001gea.1	-	2	407	c.63C>T	c.(61-63)GCC>GCT	p.A21A		NM_005814	NP_005805	Q99795	GPA33_HUMAN	transmembrane glycoprotein A33 precursor	21						integral to plasma membrane	receptor activity				0						CCACAGAGATGGCATCGACGG	0.572													11	58					0	0	0.008291	0	0		A	167042757	A	A	167042757	2	1	147	1	0	0	0	0	0	0	0	1	6601	1335	47	4		4	GPA33	1	167042757	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	6581750	167042757	82207864	19	76658											
F5	2153	broad.mit.edu	37	chr1	169511446	169511446	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgtgtcttcatcagtaTcttggattatttcatagcta	9	17	7	8	0	5	0	3	0	2	0	5	1	5	1	0	1	2	3	0	1	4	7			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:169511446T>G	uc001ggg.1	-	13	3027	c.2882A>C	c.(2881-2883)GAT>GCT	p.D961A		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	961	B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TTCATCAGTATCTTGGATTAT	0.443													8	264					0	0	0.006214	0	0		G	169511446	G	G	169511446	3	3	147	1	0	0	0	0	1	0	0	0	5356	1435	50	5	3844	5	F5	1	169511446	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	2468689	169511446	79739175	20	76659											
RC3H1	149041	broad.mit.edu	37	chr1	173939714	173939714	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcctcctctctgcttcatAtctcgacacatgtatgtttt	7	17	4	13	1	3	0	1	0	2	0	7	1	5	0	2	0	1	3	2	0	2	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:173939714A>G	uc001gju.3	-	8	1350	c.1263T>C	c.(1261-1263)GAT>GAC	p.D421D	RC3H1_uc010pms.1_Silent_p.D421D|RC3H1_uc001gjv.2_Silent_p.D421D|RC3H1_uc010pmt.1_Silent_p.D421D	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	421	C3H1-type.				cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TCTGCTTCATATCTCGACACA	0.413													12	319					0	0	0.013537	0	0		G	173939714	G	G	173939714	2	3	147	1	0	0	0	0	0	0	0	1	13191	446	16	3		3	RC3H1	1	173939714	Silent	SNP	A	TCGA-CG-5717-01A-11D-1600-08	4428268	173939714	75310907	21	76660											
IKBKE	9641	broad.mit.edu	37	chr1	206665007	206665007	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagtcatttagccaaaaGactcctgcaggtgttccagg	10	12	9	10	0	2	1	2	0	0	1	4	1	4	1	3	2	2	2	3	2	3	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:206665007G>T	uc001hdz.1	+	18	2128	c.1760G>T	c.(1759-1761)AGA>ATA	p.R587I	IKBKE_uc009xbv.1_Missense_Mutation_p.R587I|IKBKE_uc001hea.1_Missense_Mutation_p.R502I	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	587					DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding			ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)					TTAGCCAAAAGACTCCTGCAG	0.532													5	131					0.000602214	0.000625677	0.000602	1	0		T	206665007	T	T	206665007	3	4	147	1	0	0	0	0	1	0	0	0	7628	942	33	5	1822	5	IKBKE	1	206665007	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	32725293	206665007	42585614	22	76661											
OBSCN	84033	broad.mit.edu	37	chr1	228404967	228404967	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtgggcgaggactctgtGgacttccggctccgcgtctc	3	9	15	14	6	2	0	0	0	2	0	5	3	4	2	2	4	0	1	2	4	0	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:228404967G>A	uc009xez.1	+	8	2675	c.2631G>A	c.(2629-2631)GTG>GTA	p.V877V	OBSCN_uc001hsn.2_Silent_p.V877V	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	877	Ig-like 8.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGGACTCTGTGGACTTCCGGC	0.667													6	47					0	0	0.001168	0	0		A	228404967	A	A	228404967	2	1	147	1	0	0	0	0	0	0	0	1	10831	1335	47	4		4	OBSCN	1	228404967	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	21739960	228404967	20845654	23	76662											
MTR	4548	broad.mit.edu	37	chr1	237060413	237060413	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctgtggggaagatttccaagGatcaggtaagctagctgttg	10	11	14	6	0	1	1	1	0	0	1	2	3	2	3	1	4	2	4	1	4	4	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr1:237060413G>C	uc001hyi.3	+	32	4129	c.3706G>C	c.(3706-3708)GAT>CAT	p.D1236H	MTR_uc010pxw.1_Missense_Mutation_p.D829H|MTR_uc010pxx.1_Missense_Mutation_p.D1185H|MTR_uc010pxy.1_Missense_Mutation_p.D1090H	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	1236	AdoMet activation.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	GATTTCCAAGGATCAGGTAAG	0.403													12	239					0	0	0.013537	0	0		C	237060413	C	C	237060413	3	2	147	1	0	0	0	0	1	0	0	0	9976	1174	41	5	3832	5	MTR	1	237060413	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	8655446	237060413	12190208	24	76663											
ALLC	55821	broad.mit.edu	37	chr2	3730541	3730541	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tttattgctagctaaaatccGacgactggagttacttggtt	10	15	9	7	2	0	0	0	0	0	0	1	3	1	1	1	2	3	4	1	2	5	8			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:3730541G>C	uc010ewt.2	+	7	549	c.388G>C	c.(388-390)GAC>CAC	p.D130H		NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	149							allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)		GCTAAAATCCGACGACTGGAG	0.428										HNSCC(21;0.051)			11	200					0	0	0.008291	0	0		C	3730541	C	C	3730541	3	2	147	1	0	0	0	0	1	0	0	0	534	1058	37	5	410	5	ALLC	2	3730541	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08		3730541	239468832	25	76664											
SLC5A6	8884	broad.mit.edu	37	chr2	27424276	27424276	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggtggagttgtgagcactGtaccataagtaagacaagga	13	9	14	5	0	0	2	0	1	0	1	0	4	0	4	1	3	2	4	1	3	4	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:27424276G>T	uc002rjd.2	-	15	1981	c.1590C>A	c.(1588-1590)TAC>TAA	p.Y530*	SLC5A6_uc010eyv.1_Nonsense_Mutation_p.Y530*	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	530	Helical; (Potential).				biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	TGTGAGCACTGTACCATAAGT	0.532													7	79					1.12685e-05	1.21822e-05	0.004482	1	0		T	27424276	T	T	27424276	4	4	147	1	0	0	0	0	0	1	0	0	14694	1372	48	5	329	5	SLC5A6	2	27424276	Nonsense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	23693735	27424276	215775097	26	76665											
SLC4A1AP	22950	broad.mit.edu	37	chr2	27888079	27888079	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctaggagaagactcagAtgaagaagaggaaatggata	18	6	14	3	0	1	6	1	1	0	5	1	10	1	8	0	3	1	1	0	3	6	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:27888079A>T	uc002rlk.3	+	2	1220	c.938A>T	c.(937-939)GAT>GTT	p.D313V	SUPT7L_uc002rlh.1_5'Flank|SUPT7L_uc002rli.1_5'Flank|SUPT7L_uc010ymf.1_5'Flank|SUPT7L_uc002rlj.1_5'Flank|SUPT7L_uc010ezh.1_5'Flank	NM_018158	NP_060628	Q9BWU0	NADAP_HUMAN	solute carrier family 4 (anion exchanger),	313						cytoplasm|nucleus	double-stranded RNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)					GAAGACTCAGATGAAGAAGAG	0.433													11	168					0	0	0.010729	0	0		T	27888079	T	T	27888079	3	4	147	1	0	0	0	0	1	0	0	0	14678	333	12	5	944	5	SLC4A1AP	2	27888079	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	463803	27888079	215311294	27	76666											
SOS1	6654	broad.mit.edu	37	chr2	39224431	39224431	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgtaaacagtaaggctgaTtttggtactgctggatctct	9	14	10	8	1	1	1	0	1	1	0	3	2	1	2	0	3	3	5	0	3	4	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:39224431T>C	uc002rrk.3	-	18	2968	c.2927A>G	c.(2926-2928)AAT>AGT	p.N976S	SOS1_uc002rrj.3_Missense_Mutation_p.N590S	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	976	Ras-GEF.				apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				GTAAGGCTGATTTTGGTACTG	0.343									Noonan_syndrome				4	322					0	0	0.000602	0	0		C	39224431	C	C	39224431	3	2	147	1	0	0	0	0	1	0	0	0	14961	1493	52	3	1098	3	SOS1	2	39224431	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	11336352	39224431	203974942	28	76667											
ANKRD53	79998	broad.mit.edu	37	chr2	71206308	71206308	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgccgccctgcctcgctcacCccgccccgcgctgaccccag	3	4	9	25	6	1	1	1	1	0	0	2	1	1	1	9	0	1	2	9	0	0	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:71206308C>T	uc002shl.3	+	2	453	c.252C>T	c.(250-252)ACC>ACT	p.T84T	ANKRD53_uc002shk.3_Silent_p.T84T|ANKRD53_uc002shm.3_Intron	NM_001115116	NP_001108588	Q8N9V6	ANR53_HUMAN	ankyrin repeat domain 53 isoform a	84											0						CCTCGCTCACCCCGCCCCGCG	0.731													5	59					0	0	0.000602	0	0		T	71206308	T	T	71206308	2	4	147	1	0	0	0	0	0	0	0	1	679	610	22	4		4	ANKRD53	2	71206308	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	31981877	71206308	171993065	29	76668											
DGUOK	1716	broad.mit.edu	37	chr2	74154045	74154045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcgtgggtgggatggccgCgggccgcctctttctaagtc	5	10	15	11	4	2	0	0	0	2	0	4	1	2	1	3	4	0	0	3	4	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:74154045C>T	uc002sjx.2	+	1	93	c.8C>T	c.(7-9)GCG>GTG	p.A3V	DGUOK_uc002sjy.2_Missense_Mutation_p.A3V|DGUOK_uc002sjz.2_RNA	NM_080916	NP_550438	Q16854	DGUOK_HUMAN	deoxyguanosine kinase isoform a precursor	3					guanosine metabolic process|purine base metabolic process|purine deoxyribonucleoside metabolic process|purine-containing compound salvage	mitochondrial matrix	ATP binding|deoxyguanosine kinase activity|phosphotransferase activity, alcohol group as acceptor				0						GGGATGGCCGCGGGCCGCCTC	0.642													5	55					0	0	0.000602	0	0		T	74154045	T	T	74154045	3	4	147	1	0	0	0	0	1	0	0	0	4481	768	27	1	10	1	DGUOK	2	74154045	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	2947737	74154045	169045328	30	76669											
REG1B	5968	broad.mit.edu	37	chr2	79313512	79313512	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttttttgggtcatggaggCcaatccagacattgctgtca	8	13	10	10	0	2	1	2	0	0	1	3	2	3	2	3	3	1	1	3	3	1	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:79313512C>A	uc002sny.2	-	4	414	c.302G>T	c.(301-303)GGC>GTC	p.G101V	REG1B_uc010ffv.1_Missense_Mutation_p.G101V|REG1B_uc010ffw.2_3'UTR	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	101	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						GTCATGGAGGCCAATCCAGAC	0.507													4	85					2.56e-06	2.79273e-06	0.009096	1	0		A	79313512	A	A	79313512	3	1	147	1	0	0	0	0	1	0	0	0	13236	739	26	5	210	5	REG1B	2	79313512	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	5159467	79313512	163885861	31	76670											
LRP1B	53353	broad.mit.edu	37	chr2	141609267	141609267	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttcatcaagtgggggcaCgcacaggcagcactcctatt	10	8	11	12	1	2	0	2	0	0	0	3	0	3	0	1	3	2	5	1	3	2	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:141609267C>T	uc002tvj.1	-	28	5637	c.4665G>A	c.(4663-4665)GCG>GCA	p.A1555A	LRP1B_uc010fnl.1_Silent_p.A737A	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1555	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		AGTGGGGGCACGCACAGGCAG	0.413										TSP Lung(27;0.18)			6	181					0	0	0.001984	0	0		T	141609267	T	T	141609267	2	4	147	1	0	0	0	0	0	0	0	1	8973	523	19	1		1	LRP1B	2	141609267	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	62295755	141609267	101590106	32	76671											
ACVR1	90	broad.mit.edu	37	chr2	158634764	158634764	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggagagcaactcccagcAggcaggctaaaagacatact	14	6	10	11	1	0	2	0	0	0	2	2	3	1	2	1	3	4	4	1	3	4	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:158634764A>T	uc002tzm.3	-	6	761	c.422T>A	c.(421-423)CTG>CAG	p.L141Q	ACVR1_uc002tzn.3_Missense_Mutation_p.L141Q|ACVR1_uc010fog.2_Missense_Mutation_p.L141Q	NM_001111067	NP_001104537	Q04771	ACVR1_HUMAN	activin A receptor, type I precursor	141	Helical; (Potential).				BMP signaling pathway|G1/S transition of mitotic cell cycle|negative regulation of activin receptor signaling pathway|negative regulation of apoptosis|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	activin receptor complex	activin binding|ATP binding|follistatin binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta binding			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.104)	Adenosine triphosphate(DB00171)	AACTCCCAGCAGGCAGGCTAA	0.493													5	80					0	0	0.000602	0	0		T	158634764	T	T	158634764	3	4	147	1	0	0	0	0	1	0	0	0	220	188	7	5	1135	5	ACVR1	2	158634764	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	17025497	158634764	84564609	33	76672											
TTN	7273	broad.mit.edu	37	chr2	179597039	179597039	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcccttctttaacagctGtgatggctctaacttttcaa	9	16	5	11	0	4	1	1	1	3	0	5	1	4	1	1	1	3	2	1	1	3	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:179597039G>A	uc010zfg.1	-	54	13149	c.12925C>T	c.(12925-12927)CAG>TAG	p.Q4309*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.Q970*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5236							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTAACAGCTGTGATGGCTCT	0.388													15	169					0	0	0.003163	0	0		A	179597039	A	A	179597039	4	1	147	1	0	0	0	0	0	1	0	0	16761	1386	48	4	88096	4	TTN	2	179597039	Nonsense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	20962275	179597039	63602334	34	76673											
AOX1	316	broad.mit.edu	37	chr2	201485506	201485506	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccaggaacttttcttgaCttttgtgactagttcaagag	10	14	10	7	0	2	3	1	2	1	1	2	5	2	5	1	2	1	1	1	2	3	7			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:201485506C>A	uc002uvx.2	+	17	1939	c.1838C>A	c.(1837-1839)ACT>AAT	p.T613N	AOX1_uc010zhf.1_Missense_Mutation_p.T169N|AOX1_uc010fsu.2_Intron	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	613					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	CTTTTCTTGACTTTTGTGACT	0.443													6	116					0.00198382	0.00204342	0.001984	1	0		A	201485506	A	A	201485506	3	1	147	1	0	0	0	0	1	0	0	0	729	565	20	5	1904	5	AOX1	2	201485506	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	21888467	201485506	41713867	35	76674											
NBEAL1	65065	broad.mit.edu	37	chr2	204003442	204003442	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaattcagatccagttgcttCtaggattcattggaaggggt	11	13	11	6	0	3	1	2	0	1	1	4	3	4	3	1	4	1	2	1	4	3	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:204003442C>G	uc002uzt.3	+	30	5065	c.4732C>G	c.(4732-4734)CTA>GTA	p.L1578V	NBEAL1_uc002uzs.3_Missense_Mutation_p.L288V	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	1578							binding			ovary(1)|skin(1)	2						CCAGTTGCTTCTAGGATTCAT	0.383													11	371					0	0	0.008291	0	0		G	204003442	G	G	204003442	3	3	147	1	0	0	0	0	1	0	0	0	10206	912	32	5	4846	5	NBEAL1	2	204003442	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	2517936	204003442	39195931	36	76675											
FN1	2335	broad.mit.edu	37	chr2	216259400	216259400	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccaaagaatttccctgcTggccgtttgtaggggttgtg	6	14	12	9	1	0	1	0	0	0	1	2	1	2	1	3	3	1	4	3	3	3	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:216259400T>C	uc002vfa.2	-	24	3913	c.3647A>G	c.(3646-3648)CAG>CGG	p.Q1216R	FN1_uc002vfb.2_Missense_Mutation_p.Q1216R|FN1_uc002vfc.2_Missense_Mutation_p.Q1216R|FN1_uc002vfd.2_Missense_Mutation_p.Q1216R|FN1_uc002vfe.2_Missense_Mutation_p.Q1216R|FN1_uc002vff.2_Missense_Mutation_p.Q1216R|FN1_uc002vfg.2_Missense_Mutation_p.Q1216R|FN1_uc002vfh.2_Missense_Mutation_p.Q1216R|FN1_uc002vfi.2_Missense_Mutation_p.Q1216R|FN1_uc002vfj.2_Missense_Mutation_p.Q1216R|FN1_uc002vez.2_5'Flank|FN1_uc010zjp.1_5'Flank	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1216	Fibronectin type-III 7.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATTTCCCTGCTGGCCGTTTGT	0.448													6	252					0	0	0.001168	0	0		C	216259400	C	C	216259400	3	2	147	1	0	0	0	0	1	0	0	0	5976	1580	55	3	3878	3	FN1	2	216259400	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	12255958	216259400	26939973	37	76676											
FN1	2335	broad.mit.edu	37	chr2	216272916	216272916	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtgtcaggaggggcatcAggcgctaagaaagaaagaaa	15	5	15	6	2	2	3	2	0	0	3	3	4	2	4	0	4	0	2	0	4	4	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:216272916A>G	uc002vfa.2	-	17	2699	c.2433T>C	c.(2431-2433)CCT>CCC	p.P811P	FN1_uc002vfb.2_Silent_p.P811P|FN1_uc002vfc.2_Silent_p.P811P|FN1_uc002vfd.2_Silent_p.P811P|FN1_uc002vfe.2_Silent_p.P811P|FN1_uc002vff.2_Silent_p.P811P|FN1_uc002vfg.2_Silent_p.P811P|FN1_uc002vfh.2_Silent_p.P811P|FN1_uc002vfi.2_Silent_p.P811P|FN1_uc002vfj.2_Silent_p.P811P	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	811	Fibronectin type-III 3.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GAGGGGCATCAGGCGCTAAGA	0.488													3	133					0	0	0.004672	0	0		G	216272916	G	G	216272916	2	3	147	1	0	0	0	0	0	0	0	1	5976	175	7	3		3	FN1	2	216272916	Silent	SNP	A	TCGA-CG-5717-01A-11D-1600-08	13516	216272916	26926457	38	76677											
STK36	27148	broad.mit.edu	37	chr2	219563446	219563446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacagtgtctgcctcccctaGaaccatcgtctcgtttctct	6	13	6	16	2	3	1	0	0	3	1	7	1	4	1	4	0	2	1	4	0	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:219563446G>A	uc002viu.2	+	26	3445	c.3179G>A	c.(3178-3180)AGA>AAA	p.R1060K	STK36_uc002viv.2_Missense_Mutation_p.R1039K|STK36_uc002viw.2_Missense_Mutation_p.R238K|STK36_uc002vix.2_Missense_Mutation_p.R105K	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	1060					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		GCCTCCCCTAGAACCATCGTC	0.567													6	296					0	0	0.001984	0	0		A	219563446	A	A	219563446	3	1	147	1	0	0	0	0	1	0	0	0	15327	942	33	4	3277	4	STK36	2	219563446	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	3290530	219563446	23635927	39	76678											
PER2	8864	broad.mit.edu	37	chr2	239181794	239181794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctgctccacaggggtgacCctcgctggacatcagcagct	7	8	12	14	1	2	1	1	1	1	0	4	2	3	2	2	3	3	4	2	3	0	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr2:239181794C>T	uc002vyc.2	-	5	724	c.487G>A	c.(487-489)GGT>AGT	p.G163S	PER2_uc010znv.1_Missense_Mutation_p.G163S|PER2_uc010znw.1_Missense_Mutation_p.G163S|PER2_uc010fyx.1_Missense_Mutation_p.G163S	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	163					circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		CAGGGGTGACCCTCGCTGGAC	0.567													7	66					0	0	0.001984	0	0		T	239181794	T	T	239181794	3	4	147	1	0	0	0	0	1	0	0	0	11749	623	22	4	3356	4	PER2	2	239181794	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	19618348	239181794	4017579	40	76679											
SEMA5B	54437	broad.mit.edu	37	chr3	122631107	122631107	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagggtgcggggctggtgcaGgaacgggtgcgttgatagtg	6	8	22	5	3	0	1	0	1	0	0	0	3	0	2	0	6	4	3	0	6	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr3:122631107G>A	uc003efz.1	-	19	3112	c.2808C>T	c.(2806-2808)TCC>TCT	p.S936S	SEMA5B_uc011bju.1_Intron|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Silent_p.S936S|SEMA5B_uc003efy.1_5'UTR	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	936	Extracellular (Potential).|TSP type-1 4.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		GGCTGGTGCAGGAACGGGTGC	0.637													3	23					0	0	0.004672	0	0		A	122631107	A	A	122631107	2	1	147	1	0	0	0	0	0	0	0	1	14063	987	35	4		4	SEMA5B	3	122631107	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08		122631107	75391323	41	76680											
TOPBP1	11073	broad.mit.edu	37	chr3	133374275	133374275	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacacagattatgcaaccaaGaaaaataggacacttgaaat	20	7	6	8	0	0	3	0	1	0	2	0	4	0	4	1	1	2	1	1	1	7	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr3:133374275G>C	uc003eps.2	-	6	733	c.601C>G	c.(601-603)CTT>GTT	p.L201V		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	201	BRCT 2.				DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						ATGCAACCAAGAAAAATAGGA	0.343								Other_conserved_DNA_damage_response_genes					9	104					0	0	0.004482	0	0		C	133374275	C	C	133374275	3	2	147	1	0	0	0	0	1	0	0	0	16395	942	33	5	4059	5	TOPBP1	3	133374275	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	10743168	133374275	64648155	42	76681											
GPR149	344758	broad.mit.edu	37	chr3	154146753	154146753	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcggcggctcctccgaacAcagcaatcggtgagtgagtg	8	8	13	12	4	1	2	0	2	1	0	5	3	3	2	2	3	2	2	2	3	2	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr3:154146753A>G	uc003faa.2	-	1	752	c.652T>C	c.(652-654)TGT>CGT	p.C218R		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	218	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TCCTCCGAACACAGCAATCGG	0.577													8	75					0	0	0.004482	0	0		G	154146753	G	G	154146753	3	3	147	1	0	0	0	0	1	0	0	0	6669	159	6	3	1559	3	GPR149	3	154146753	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	20772478	154146753	43875677	43	76682											
PLCH1	23007	broad.mit.edu	37	chr3	155203145	155203145	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaacttaaagcatcttacCtagagagttttcttttcctt	12	16	5	8	0	2	2	0	0	2	2	3	3	3	2	2	0	3	2	2	0	5	8			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr3:155203145C>G	uc011bok.1	-	22	3275	c.2998G>C	c.(2998-3000)GCA>CCA	p.A1000P	PLCH1_uc011boj.1_Missense_Mutation_p.V1000L|PLCH1_uc011bol.1_Missense_Mutation_p.A962P	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1000					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			AGCATCTTACCTAGAGAGTTT	0.423													7	122					0	0	0.001984	0	0		G	155203145	G	G	155203145	3	3	147	1	0	0	0	0	1	0	0	0	12056	695	24	5	2106	5	PLCH1	3	155203145	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	1056392	155203145	42819285	44	76683											
SI	6476	broad.mit.edu	37	chr3	164733853	164733853	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctttccatgtagtcaatgtCtgtgtactgaacatcctgaa	10	14	7	10	0	2	2	1	2	1	0	4	2	4	2	3	0	2	2	3	0	5	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr3:164733853C>G	uc003fei.2	-	32	3837	c.3775G>C	c.(3775-3777)GAC>CAC	p.D1259H		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1259	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TAGTCAATGTCTGTGTACTGA	0.328										HNSCC(35;0.089)			26	283					0	0	0.005443	0	0		G	164733853	G	G	164733853	3	3	147	1	0	0	0	0	1	0	0	0	14322	913	32	5	1776	5	SI	3	164733853	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	9530708	164733853	33288577	45	76684											
HS3ST1	9957	broad.mit.edu	37	chr4	11401042	11401042	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagttctgcatgtgcacgtgGtagaggctgcggttgagggc	6	10	17	8	2	1	2	0	1	1	1	1	2	1	2	0	4	3	6	0	4	1	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr4:11401042G>C	uc003gmq.2	-	2	911	c.588C>G	c.(586-588)TAC>TAG	p.Y196*		NM_005114	NP_005105	O14792	HS3S1_HUMAN	heparan sulfate D-glucosaminyl	196						Golgi lumen|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			skin(1)	1						TGTGCACGTGGTAGAGGCTGC	0.597													3	60					0	0	0.004672	0	0		C	11401042	C	C	11401042	4	2	147	1	0	0	0	0	0	1	0	0	7379	1256	44	5	339	5	HS3ST1	4	11401042	Nonsense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08		11401042	179753234	46	76685											
PACRGL	133015	broad.mit.edu	37	chr4	20709483	20709483	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatttactctaaaggaggtAttccttgcaggtaaaatcaa	14	13	7	7	0	2	0	1	0	1	0	3	1	3	1	1	3	2	3	1	3	8	8			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr4:20709483A>G	uc010iek.2	+	4	656	c.265A>G	c.(265-267)ATT>GTT	p.I89V	PACRGL_uc003gpu.2_RNA|PACRGL_uc010iei.1_Missense_Mutation_p.I137V|PACRGL_uc003gpz.2_Missense_Mutation_p.I89V|PACRGL_uc011bxm.1_Intron|PACRGL_uc003gqa.2_Intron|PACRGL_uc003gpx.3_RNA|PACRGL_uc003gpv.2_Missense_Mutation_p.I89V|PACRGL_uc003gpw.2_RNA|PACRGL_uc010iej.1_Intron|PACRGL_uc011bxn.1_Intron|PACRGL_uc003gpy.2_Intron	NM_145048	NP_659485	Q8N7B6	PACRL_HUMAN	PARK2 co-regulated-like isoform 1	89							binding				0						TAAAGGAGGTATTCCTTGCAG	0.279													3	139					0	0	0.004672	0	0		G	20709483	G	G	20709483	3	3	147	1	0	0	0	0	1	0	0	0	11390	449	16	3	275	3	PACRGL	4	20709483	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	9308441	20709483	170444793	47	76686											
ATP8A1	10396	broad.mit.edu	37	chr4	42416720	42416720	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagacgttcttgagcagttgCgccctctcggtcaggctgca	7	10	12	12	3	3	2	1	1	2	1	4	2	3	2	1	2	3	5	1	2	1	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr4:42416720C>T	uc003gwr.2	-	36	3553	c.3321G>A	c.(3319-3321)GCG>GCA	p.A1107A	ATP8A1_uc003gwq.2_Silent_p.A333A|ATP8A1_uc003gws.2_Silent_p.A1092A	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	1107	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	TGAGCAGTTGCGCCCTCTCGG	0.473													9	113					0	0	0.004482	0	0		T	42416720	T	T	42416720	2	4	147	1	0	0	0	0	0	0	0	1	1193	755	27	1		1	ATP8A1	4	42416720	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	21707237	42416720	148737556	48	76687											
FRYL	285527	broad.mit.edu	37	chr4	48524956	48524956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatctggcttgctgtaagtgCcgcttcttcttccgaggact	5	15	10	11	2	3	0	0	0	3	0	4	2	4	1	2	2	2	4	2	2	2	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr4:48524956C>T	uc003gyh.1	-	54	8088	c.7483G>A	c.(7483-7485)GCA>ACA	p.A2495T	FRYL_uc003gyf.1_5'Flank|FRYL_uc003gyg.1_Missense_Mutation_p.A1191T|FRYL_uc003gyi.1_Missense_Mutation_p.A1383T|FRYL_uc003gyj.1_Missense_Mutation_p.A790T	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	2495					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						GCTGTAAGTGCCGCTTCTTCT	0.483													9	252					0	0	0.010729	0	0		T	48524956	T	T	48524956	3	4	147	1	0	0	0	0	1	0	0	0	6078	739	26	2	1602	2	FRYL	4	48524956	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	6108236	48524956	142629320	49	76688											
FAT1	2195	broad.mit.edu	37	chr4	187540371	187540371	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagactgtaaaatggcttcaGggcgtgccggtgcaggtttg	9	10	15	7	2	1	1	1	0	0	1	1	1	1	1	1	4	2	4	1	4	3	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr4:187540371G>T	uc003izf.2	-	10	7557	c.7369C>A	c.(7369-7371)CTG>ATG	p.L2457M		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2457	Extracellular (Potential).|Cadherin 22.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AATGGCTTCAGGGCGTGCCGG	0.443										HNSCC(5;0.00058)			13	301					2.32078e-09	2.6273e-09	0.003163	1	0		T	187540371	T	T	187540371	3	4	147	1	0	0	0	0	1	0	0	0	5703	991	35	5	6469	5	FAT1	4	187540371	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	139015415	187540371	3613905	50	76689											
SEMA5A	9037	broad.mit.edu	37	chr5	9197366	9197366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccagagaaggcctgcgCgatggcgctcaggttgaaga	9	5	17	10	3	1	3	1	1	0	2	1	5	1	3	2	4	1	2	2	4	2	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr5:9197366C>T	uc003jek.2	-	10	1694	c.982G>A	c.(982-984)GCG>ACG	p.A328T		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	328	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						AAGGCCTGCGCGATGGCGCTC	0.607													13	162					0	0	0.013537	0	0		T	9197366	T	T	9197366	3	4	147	1	0	0	0	0	1	0	0	0	14062	768	27	1	2298	1	SEMA5A	5	9197366	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08		9197366	171717894	51	76690											
CDH9	1007	broad.mit.edu	37	chr5	26915754	26915754	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccgactccagacatttcAggaacactggcagtgtataa	13	9	8	11	1	1	1	1	0	0	1	2	3	2	2	2	2	2	2	2	2	4	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr5:26915754A>G	uc003jgs.1	-	3	676	c.507T>C	c.(505-507)CCT>CCC	p.P169P	CDH9_uc010iug.2_Silent_p.P169P	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	169	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						CAGACATTTCAGGAACACTGG	0.348													13	192					0	0	0.00245	0	0		G	26915754	G	G	26915754	2	3	147	1	0	0	0	0	0	0	0	1	3120	175	7	3		3	CDH9	5	26915754	Silent	SNP	A	TCGA-CG-5717-01A-11D-1600-08	17718388	26915754	153999506	52	76691											
PDZD2	23037	broad.mit.edu	37	chr5	32089228	32089228	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaagaggctcagcctcaagGgcaaggccaaagtcaactct	13	6	11	11	0	4	2	3	1	1	1	4	2	4	2	2	3	2	2	2	3	5	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr5:32089228G>C	uc003jhl.2	+	20	6062	c.5674G>C	c.(5674-5676)GGC>CGC	p.G1892R	PDZD2_uc003jhm.2_Missense_Mutation_p.G1892R	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1892					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CAGCCTCAAGGGCAAGGCCAA	0.547													6	132					0	0	0.001168	0	0		C	32089228	C	C	32089228	3	2	147	1	0	0	0	0	1	0	0	0	11720	1232	43	5	5748	5	PDZD2	5	32089228	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	5173474	32089228	148826032	53	76692											
ITGA1	3672	broad.mit.edu	37	chr5	52206033	52206033	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcctggaacctattaagcaGacgtgctgttcatctcggca	10	10	10	11	2	2	1	1	0	1	1	3	2	2	2	2	2	4	4	2	2	3	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr5:52206033G>C	uc003jou.2	+	14	1693	c.1641G>C	c.(1639-1641)CAG>CAC	p.Q547H	ITGA1_uc003jov.2_RNA|ITGA1_uc003jow.2_Missense_Mutation_p.Q78H	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	547	Extracellular (Potential).				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				CTATTAAGCAGACGTGCTGTT	0.408													7	140					0	0	0.00308	0	0		C	52206033	C	C	52206033	3	2	147	1	0	0	0	0	1	0	0	0	7888	933	33	5	1695	5	ITGA1	5	52206033	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	20116805	52206033	128709227	54	76693											
CCDC125	202243	broad.mit.edu	37	chr5	68595886	68595886	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttttatcacagcacatgtTttcctgagccatcttctgct	8	16	5	12	0	3	1	1	1	2	0	4	1	4	1	2	0	3	3	2	0	1	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr5:68595886T>A	uc003jvv.1	-	7	812	c.769A>T	c.(769-771)AAC>TAC	p.N257Y	CCDC125_uc003jvx.1_Missense_Mutation_p.N256Y|CCDC125_uc003jvy.1_RNA|CCDC125_uc003jvw.2_Missense_Mutation_p.N132Y	NM_176816	NP_789786	Q86Z20	CC125_HUMAN	coiled-coil domain containing 125	257						cytoplasm					0		Lung NSC(167;7.26e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.2e-56)|Epithelial(20;2.31e-52)|all cancers(19;5.85e-48)|Lung(70;0.0183)		CAGCACATGTTTTCCTGAGCC	0.438													25	320					0	0	0.004656	0	0		A	68595886	A	A	68595886	3	1	147	1	0	0	0	0	1	0	0	0	2764	1841	64	5	786	5	CCDC125	5	68595886	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	16389853	68595886	112319374	55	76694											
TSLP	85480	broad.mit.edu	37	chr5	110411751	110411751	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggcgtcgcttcaatcgAcctttactgaaacaacagta	11	12	8	10	3	1	1	1	1	0	0	3	2	1	1	1	1	3	2	1	1	5	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr5:110411751A>T	uc003kpb.2	+	4	658	c.459A>T	c.(457-459)CGA>CGT	p.R153R	TSLP_uc003kpa.2_RNA|TSLP_uc010jbt.1_Silent_p.R57R	NM_033035	NP_149024	Q969D9	TSLP_HUMAN	thymic stromal lymphopoietin isoform 1	153						extracellular space	cytokine activity				0		all_cancers(142;2.72e-05)|all_epithelial(76;4.39e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0417)|Ovarian(225;0.0443)|Colorectal(57;0.0464)|all_lung(232;0.0507)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.24e-08)|Epithelial(69;1.54e-07)|all cancers(49;1.73e-05)|COAD - Colon adenocarcinoma(37;0.109)		GCTTCAATCGACCTTTACTGA	0.353													7	157					0	0	0.001984	0	0		T	110411751	T	T	110411751	2	4	147	1	0	0	0	0	0	0	0	1	16654	262	10	5		5	TSLP	5	110411751	Silent	SNP	A	TCGA-CG-5717-01A-11D-1600-08	41815865	110411751	70503509	56	76695											
SNCAIP	9627	broad.mit.edu	37	chr5	121786900	121786900	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccagccctgacagtacTgctgcccagaaagttgccac	10	6	9	16	0	0	2	0	1	0	1	0	2	0	2	4	0	6	3	4	0	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr5:121786900T>C	uc003ksw.1	+	10	2564	c.2358T>C	c.(2356-2358)ACT>ACC	p.T786T	SNCAIP_uc011cwl.1_Silent_p.T344T|SNCAIP_uc003ksx.1_Silent_p.T833T|SNCAIP_uc003ksy.1_Silent_p.T420T|SNCAIP_uc003ksz.1_Silent_p.T420T|SNCAIP_uc010jcu.2_Silent_p.T382T|SNCAIP_uc011cwm.1_Silent_p.T420T|SNCAIP_uc003kta.1_Silent_p.T418T|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Silent_p.T480T|SNCAIP_uc010jcx.1_Silent_p.T726T|uc003ktb.1_Intron|SNCAIP_uc003ktc.1_Silent_p.T302T	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	786					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		CTGACAGTACTGCTGCCCAGA	0.527													4	61					0	0	0.000602	0	0		C	121786900	C	C	121786900	2	2	147	1	0	0	0	0	0	0	0	1	14866	1567	55	3		3	SNCAIP	5	121786900	Silent	SNP	T	TCGA-CG-5717-01A-11D-1600-08	11375149	121786900	59128360	57	76696											
EIF4E1B	253314	broad.mit.edu	37	chr5	176070195	176070196	+	Missense_Mutation	DNP	TG	GC	GC																															aaactctcccaggactttgcTgtctctgagagggaaggccc																										TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr5:176070195_176070196TG>GC	uc010jkf.1	+	4	712_713	c.128_129TG>GC	c.(127-129)CTG>CGC	p.L43R		NM_001099408	NP_001092878	A6NMX2	I4E1B_HUMAN	eukaryotic translation initiation factor 4E	43					regulation of translation	cytoplasm|mRNA cap binding complex	translation initiation factor activity				0	all_cancers(89;0.00185)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGGACTTTGCTGTCTCTGAGAG	0.411													7	70					0	0	0.004672	0	0		GC	176070196	GC	GC	176070195	3	3	147	1	0	0	0	0	1	0	0	0	5037	1580	55	5	134	5	EIF4E1B	5	176070195	Missense_Mutation	DNP	TG	TCGA-CG-5717-01A-11D-1600-08	54283295	176070195	4845065	58	76697											
UIMC1	51720	broad.mit.edu	37	chr5	176370441	176370441	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatacctggttactggatgAgaaggtagaaatagctactt	13	11	12	5	0	0	2	0	1	0	2	0	5	0	4	1	4	4	3	1	4	7	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr5:176370441A>T	uc011dfp.1	-	10	1659	c.1492T>A	c.(1492-1494)TCA>ACA	p.S498T	UIMC1_uc003mfc.1_Missense_Mutation_p.S375T|UIMC1_uc003mfd.1_Missense_Mutation_p.S128T|UIMC1_uc003mfg.1_Missense_Mutation_p.S217T|UIMC1_uc003mfe.1_RNA|UIMC1_uc003mff.1_Missense_Mutation_p.S128T	NM_016290	NP_057374	Q96RL1	UIMC1_HUMAN	ubiquitin interaction motif containing 1	498	Necessary for interaction with NR6A1 C- terminus.				double-strand break repair|G2/M transition DNA damage checkpoint|histone H2A K63-linked deubiquitination|negative regulation of transcription, DNA-dependent|positive regulation of DNA repair|response to ionizing radiation|transcription, DNA-dependent	BRCA1-A complex	histone binding|K63-linked polyubiquitin binding			ovary(3)|skin(1)	4	all_cancers(89;7.96e-05)|Renal(175;0.000269)|Lung NSC(126;0.00476)|all_lung(126;0.00806)	Medulloblastoma(196;0.0145)|all_neural(177;0.0325)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TTACTGGATGAGAAGGTAGAA	0.438													6	316					0	0	0.001984	0	0		T	176370441	T	T	176370441	3	4	147	1	0	0	0	0	1	0	0	0	16997	304	11	5	691	5	UIMC1	5	176370441	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	300246	176370441	4544819	59	76698											
BMP6	654	broad.mit.edu	37	chr6	7845400	7845400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacaaggagttctcccctcGtcagcgacaccacaaagagt	12	6	9	14	3	2	1	1	0	1	1	4	4	2	2	3	1	1	1	3	1	2	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:7845400G>A	uc003mxu.3	+	2	870	c.692G>A	c.(691-693)CGT>CAT	p.R231H		NM_001718	NP_001709	P22004	BMP6_HUMAN	bone morphogenetic protein 6 preproprotein	231					BMP signaling pathway|cartilage development|growth|immune response|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	BMP receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity			large_intestine(2)|ovary(1)	3	Ovarian(93;0.0721)					TTCTCCCCTCGTCAGCGACAC	0.468													10	172					0	0	0.010729	0	0		A	7845400	A	A	7845400	3	1	147	1	0	0	0	0	1	0	0	0	1465	1145	40	1	698	1	BMP6	6	7845400	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08		7845400	163269667	60	76699											
HIVEP1	3096	broad.mit.edu	37	chr6	12123821	12123821	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagttcagttggccccagCgtagtgaaaccttgtcaaaa	13	9	10	9	1	2	2	2	1	0	1	2	2	2	2	3	1	2	3	3	1	5	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:12123821C>G	uc003nac.2	+	4	3972	c.3793C>G	c.(3793-3795)CGT>GGT	p.R1265G	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1265					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				TTGGCCCCAGCGTAGTGAAAC	0.458													4	145					0	0	0.000602	0	0		G	12123821	G	G	12123821	3	3	147	1	0	0	0	0	1	0	0	0	7202	768	27	5	3803	5	HIVEP1	6	12123821	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	4278421	12123821	158991246	61	76700											
HIST1H3F	8968	broad.mit.edu	37	chr6	26250489	26250489	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcatgatagtcactcgcttGgcgtggatagcacacaggtt	9	10	13	9	2	1	1	1	1	0	0	2	2	1	2	0	4	1	4	0	4	2	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:26250489G>C	uc003nhg.1	-	1	347	c.345C>G	c.(343-345)GCC>GCG	p.A115A	HIST1H2BH_uc003nhh.2_5'Flank	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	115					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0						TCACTCGCTTGGCGTGGATAG	0.587											OREG0017241	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	132					0	0	0.001168	0	0		C	26250489	C	C	26250489	2	2	147	1	0	0	0	0	0	0	0	1	7176	1335	47	5		5	HIST1H3F	6	26250489	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	14126668	26250489	144864578	62	76701											
HIST1H2AH	85235	broad.mit.edu	37	chr6	27115020	27115020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaccgcctgctccgcaaggGtaattatgccgagcgggttg	7	8	14	12	4	0	0	0	0	0	0	1	1	1	0	4	2	3	5	4	2	3	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:27115020G>A	uc003niz.2	+	1	113	c.113G>A	c.(112-114)GGT>GAT	p.G38D	HIST1H2BK_uc003nix.1_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080596	NP_542163	Q96KK5	H2A1H_HUMAN	histone cluster 1, H2ah	38					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CTCCGCAAGGGTAATTATGCC	0.667													4	62					0	0	0.009096	0	0		A	27115020	A	A	27115020	3	1	147	1	0	0	0	0	1	0	0	0	7150	1261	44	4	115	4	HIST1H2AH	6	27115020	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	864531	27115020	144000047	63	76702											
ZNF311	282890	broad.mit.edu	37	chr6	28963343	28963343	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcttacagttatgacgaaagGctttcccacactcctcacac	11	10	6	14	1	1	1	1	1	0	0	3	2	3	1	2	1	1	3	2	1	3	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:28963343G>T	uc003nlu.2	-	7	1949	c.1436C>A	c.(1435-1437)GCC>GAC	p.A479D	ZNF311_uc011dlk.1_Missense_Mutation_p.A387D|ZNF311_uc003nlv.2_Missense_Mutation_p.A387D	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	479	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						ATGACGAAAGGCTTTCCCACA	0.493													14	166					4.3838e-07	4.89355e-07	0.001855	1	0		T	28963343	T	T	28963343	3	4	147	1	0	0	0	0	1	0	0	0	17859	1203	42	5	568	5	ZNF311	6	28963343	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	1848323	28963343	142151724	64	76703											
VARS2	57176	broad.mit.edu	37	chr6	30889025	30889025	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggactggtgtgtctcccgGcagctgtggtggggccatca	5	9	17	10	1	2	0	1	0	1	0	3	1	2	1	2	6	1	2	2	6	0	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:30889025G>C	uc003nsc.1	+	16	2207	c.1575G>C	c.(1573-1575)CGG>CGC	p.R525R	VARS2_uc011dmx.1_Silent_p.R525R|VARS2_uc011dmy.1_Silent_p.R385R|VARS2_uc011dmz.1_Silent_p.R555R|VARS2_uc011dna.1_Silent_p.R523R|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_5'UTR|VARS2_uc010jsg.1_5'UTR|VARS2_uc010jsh.1_5'Flank	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	525					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						GTGTCTCCCGGCAGCTGTGGT	0.602													5	91					0	0	0.001168	0	0		C	30889025	C	C	30889025	2	2	147	1	0	0	0	0	0	0	0	1	17150	1190	42	5		5	VARS2	6	30889025	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	1925682	30889025	140226042	65	76704											
UHRF1BP1	54887	broad.mit.edu	37	chr6	34802057	34802057	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attgtcaattctatcaccatCaagattcactccaaggcctt	12	13	4	12	0	5	1	4	0	1	1	6	1	6	1	3	1	0	0	3	1	4	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:34802057C>G	uc003oju.3	+	5	636	c.402C>G	c.(400-402)ATC>ATG	p.I134M	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	134										ovary(3)	3						CTATCACCATCAAGATTCACT	0.463													5	84					0	0	0.001984	0	0		G	34802057	G	G	34802057	3	3	147	1	0	0	0	0	1	0	0	0	16994	816	29	5	420	5	UHRF1BP1	6	34802057	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	3913032	34802057	136313010	66	76705											
MEP1A	4224	broad.mit.edu	37	chr6	46787351	46787351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataaggccatcatagaacacGagatcctgcatgctttggga	13	9	10	9	1	1	2	1	0	0	2	2	4	2	3	2	2	3	2	2	2	3	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:46787351G>A	uc010jzh.1	+	7	508	c.466G>A	c.(466-468)GAG>AAG	p.E156K	MEP1A_uc011dwg.1_5'UTR|MEP1A_uc011dwh.1_Missense_Mutation_p.E184K|MEP1A_uc011dwi.1_Missense_Mutation_p.E56K	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	156	Extracellular (Potential).|Metalloprotease.	By similarity.			digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			CATAGAACACGAGATCCTGCA	0.478													10	211					0	0	0.008291	0	0		A	46787351	A	A	46787351	3	1	147	1	0	0	0	0	1	0	0	0	9493	1059	37	1	492	1	MEP1A	6	46787351	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	11985294	46787351	124327716	67	76706											
GPR110	266977	broad.mit.edu	37	chr6	46996775	46996775	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggtgaagaaagaaatgAgccacagcactccaactttc	16	7	9	9	0	0	5	0	3	0	2	2	5	1	5	2	1	3	1	2	1	5	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:46996775A>G	uc003oyt.2	-	2	222	c.23T>C	c.(22-24)CTC>CCC	p.L8P	GPR110_uc011dwl.1_5'UTR|GPR110_uc003oyu.1_Missense_Mutation_p.L8P	NM_153840	NP_722582	Q5T601	GP110_HUMAN	G-protein coupled receptor 110 isoform 1	8					neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|pancreas(1)	3						GAAAGAAATGAGCCACAGCAC	0.507													5	82					0	0	0.000602	0	0		G	46996775	G	G	46996775	3	3	147	1	0	0	0	0	1	0	0	0	6642	304	11	3	2815	3	GPR110	6	46996775	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	209424	46996775	124118292	68	76707											
PHF3	23469	broad.mit.edu	37	chr6	64410247	64410247	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatccttccagatattatTtaaaaaagtactgaaaggag	19	11	6	5	0	0	2	0	1	0	1	2	3	2	3	2	1	1	1	2	1	9	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:64410247T>A	uc003pep.1	+	8	3016	c.2990T>A	c.(2989-2991)TTT>TAT	p.F997Y	PHF3_uc010kah.1_Missense_Mutation_p.F811Y|PHF3_uc003pen.2_Missense_Mutation_p.F909Y|PHF3_uc011dxs.1_Missense_Mutation_p.F266Y	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	997	TFIIS central.				multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			CAGATATTATTTAAAAAAGTA	0.328													10	93					0	0	0.006214	0	0		A	64410247	A	A	64410247	3	1	147	1	0	0	0	0	1	0	0	0	11855	1841	64	5	3020	5	PHF3	6	64410247	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	17413472	64410247	106704820	69	76708											
FRK	2444	broad.mit.edu	37	chr6	116289790	116289790	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggccgtcacttgtcttggtGtagtggctcacaaattcgtt	7	14	11	9	2	3	0	2	0	1	0	4	0	3	0	1	3	0	3	1	3	2	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:116289790G>A	uc003pwi.1	-	3	1026	c.579C>T	c.(577-579)TAC>TAT	p.Y193Y		NM_002031	NP_002022	P42685	FRK_HUMAN	fyn-related kinase	193	SH2.				negative regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding	p.Y193*(1)		ovary(3)|lung(3)	6		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)		TTGTCTTGGTGTAGTGGCTCA	0.393													15	321					0	0	0.00245	0	0		A	116289790	A	A	116289790	2	1	147	1	0	0	0	0	0	0	0	1	6062	1372	48	4		4	FRK	6	116289790	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	51879543	116289790	54825277	70	76709											
GJA1	2697	broad.mit.edu	37	chr6	121768767	121768767	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgcgctgagccctgccaaAgactgtgggtctcaaaaata	11	8	12	10	1	1	2	1	1	1	1	2	2	1	2	2	2	3	1	2	2	4	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:121768767A>G	uc003pyr.2	+	2	1024	c.774A>G	c.(772-774)AAA>AAG	p.K258K	GJA1_uc011ebo.1_Silent_p.K159K|GJA1_uc011ebp.1_Silent_p.K46K	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	258	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	GCCCTGCCAAAGACTGTGGGT	0.517													12	121					0	0	0.00245	0	0		G	121768767	G	G	121768767	2	3	147	1	0	0	0	0	0	0	0	1	6415	69	3	3		3	GJA1	6	121768767	Silent	SNP	A	TCGA-CG-5717-01A-11D-1600-08	5478977	121768767	49346300	71	76710											
C6orf118	168090	broad.mit.edu	37	chr6	165693550	165693550	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcagccacttgagcgttatCttctgtttcctctgatttta	6	19	6	10	1	4	2	1	2	3	0	5	2	5	2	2	0	2	2	2	0	2	7			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr6:165693550C>G	uc003qum.3	-	9	1442	c.1406G>C	c.(1405-1407)AGA>ACA	p.R469T		NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	469											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		TGAGCGTTATCTTCTGTTTCC	0.323													3	116					0	0	0.009096	0	0		G	165693550	G	G	165693550	3	3	147	1	0	0	0	0	1	0	0	0	2326	913	32	5	7	5	C6orf118	6	165693550	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	43924783	165693550	5421517	72	76711											
SDK1	221935	broad.mit.edu	37	chr7	3991461	3991461	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccatcagcaacccgacGtccgcggacaccgggccata	10	4	9	18	5	2	0	2	0	0	0	3	2	3	1	5	2	2	1	5	2	2	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:3991461G>A	uc003smx.2	+	7	1198	c.1059G>A	c.(1057-1059)ACG>ACA	p.T353T		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	353	Ig-like C2-type 3.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GCAACCCGACGTCCGCGGACA	0.617													11	74					0	0	0.013537	0	0		A	3991461	A	A	3991461	2	1	147	1	0	0	0	0	0	0	0	1	13993	1132	40	1		1	SDK1	7	3991461	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08		3991461	155147202	73	76712											
SP4	6671	broad.mit.edu	37	chr7	21470408	21470408	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtgagcgttgccaacctggGtgctgcaggtgttcaagtgc	7	10	15	9	1	1	1	1	1	0	0	1	1	1	1	2	2	6	4	2	2	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:21470408G>T	uc003sva.2	+	3	1806	c.1625G>T	c.(1624-1626)GGT>GTT	p.G542V	SP4_uc003svb.2_Missense_Mutation_p.G229V	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	542					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						GCCAACCTGGGTGCTGCAGGT	0.458													6	191					0.00198382	0.00204342	0.001984	1	0		T	21470408	T	T	21470408	3	4	147	1	0	0	0	0	1	0	0	0	14991	1261	44	5	1635	5	SP4	7	21470408	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	17478947	21470408	137668255	74	76713											
DNAH11	8701	broad.mit.edu	37	chr7	21628890	21628890	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgaaatgaccactttgcttGatcaatttgaaagtcgtatc	12	15	7	7	1	1	4	1	4	0	0	3	4	1	4	1	0	1	2	1	0	4	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:21628890G>C	uc003svc.2	+	12	2069	c.2038G>C	c.(2038-2040)GAT>CAT	p.D680H		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	680	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CACTTTGCTTGATCAATTTGA	0.323									Kartagener_syndrome				4	107					0	0	0.009096	0	0		C	21628890	C	C	21628890	3	2	147	1	0	0	0	0	1	0	0	0	4605	1290	45	5	2084	5	DNAH11	7	21628890	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	158482	21628890	137509773	75	76714											
AVL9	23080	broad.mit.edu	37	chr7	32599065	32599065	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatggcatgcccctggccAtcttcacaaaggtaaagtgt	11	10	10	10	0	2	0	1	0	1	0	2	0	2	0	3	3	1	3	3	3	4	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:32599065A>G	uc003tcv.1	+	10	1350	c.1204A>G	c.(1204-1206)ATC>GTC	p.I402V	AVL9_uc011kai.1_Missense_Mutation_p.I402V|AVL9_uc010kwj.1_Missense_Mutation_p.I243V	NM_015060	NP_055875	Q8NBF6	AVL9_HUMAN	AVL9 homolog (S. cerevisiase)	402						integral to membrane					0						GCCCCTGGCCATCTTCACAAA	0.388													6	121					0	0	0.001984	0	0		G	32599065	G	G	32599065	3	3	147	1	0	0	0	0	1	0	0	0	1229	217	8	3	1242	3	AVL9	7	32599065	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	10970175	32599065	126539598	76	76715											
DMTF1	9988	broad.mit.edu	37	chr7	86795810	86795810	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccattagaagcggatgaaAtagactcagaagatagtatt	16	11	9	5	1	1	5	1	1	0	4	2	6	2	6	1	1	1	1	1	1	7	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:86795810A>G	uc003uih.2	+	4	447	c.121A>G	c.(121-123)ATA>GTA	p.I41V	DMTF1_uc003uii.2_5'UTR|DMTF1_uc003uij.2_5'UTR|DMTF1_uc011khb.1_5'UTR|DMTF1_uc003uik.2_Intron|DMTF1_uc003uil.2_Missense_Mutation_p.I41V|DMTF1_uc003uim.1_Missense_Mutation_p.I41V|DMTF1_uc003uin.2_5'UTR	NM_001142327	NP_001135799	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	41	Interaction with CCND2 (By similarity).				cell cycle	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(14;0.0058)					AGCGGATGAAATAGACTCAGA	0.333													4	205					0	0	0.009096	0	0		G	86795810	G	G	86795810	3	3	147	1	0	0	0	0	1	0	0	0	4598	101	4	3	127	3	DMTF1	7	86795810	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	54196745	86795810	72342853	77	76716											
SAMD9	54809	broad.mit.edu	37	chr7	92733244	92733244	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acttgttggtttagaagaatCtgcacagttttgaatcattg	11	16	9	5	0	2	3	1	1	1	2	2	3	2	3	0	1	1	4	0	1	4	7			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:92733244C>G	uc003umf.2	-	3	2423	c.2167G>C	c.(2167-2169)GAT>CAT	p.D723H	SAMD9_uc003umg.2_Missense_Mutation_p.D723H	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	723						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			TTAGAAGAATCTGCACAGTTT	0.383													20	427					0	0	0.007413	0	0		G	92733244	G	G	92733244	3	3	147	1	0	0	0	0	1	0	0	0	13851	913	32	5	2606	5	SAMD9	7	92733244	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	5937434	92733244	66405419	78	76717											
TRRAP	8295	broad.mit.edu	37	chr7	98546232	98546232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgatcaagttcctgactcGacatccctcgcagacagtgg	9	9	9	14	2	1	3	1	2	0	1	5	4	3	3	3	1	0	2	3	1	1	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:98546232G>A	uc003upp.2	+	34	4900	c.4691G>A	c.(4690-4692)CGA>CAA	p.R1564Q	TRRAP_uc011kis.1_Missense_Mutation_p.R1546Q|TRRAP_uc003upr.2_Missense_Mutation_p.R1263Q	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1564					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TTCCTGACTCGACATCCCTCG	0.532													9	172					0	0	0.008291	0	0		A	98546232	A	A	98546232	3	1	147	1	0	0	0	0	1	0	0	0	16627	1058	37	1	4763	1	TRRAP	7	98546232	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	5812988	98546232	60592431	79	76718											
CYP3A43	64816	broad.mit.edu	37	chr7	99453307	99453307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaaaaaattccattgaaaGgatgaaagaaagtcgcctca	18	10	7	6	1	1	3	1	2	0	1	3	4	2	4	2	1	0	0	2	1	6	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:99453307G>A	uc003urx.1	+	8	867	c.764G>A	c.(763-765)AGG>AAG	p.R255K	CYP3A43_uc003ury.1_Missense_Mutation_p.R255K|CYP3A43_uc003urz.1_Missense_Mutation_p.R255K|CYP3A43_uc003usa.1_RNA|CYP3A43_uc010lgi.1_Missense_Mutation_p.R145K|CYP3A43_uc003usb.1_Intron	NM_057095	NP_476436	Q9HB55	CP343_HUMAN	cytochrome P450, family 3, subfamily A,	255			Missing (in allele CYP3A43*2).		xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)				Cetirizine(DB00341)|Doxycycline(DB00254)	TCCATTGAAAGGATGAAAGAA	0.234													4	62					0	0	0.009096	0	0		A	99453307	A	A	99453307	3	1	147	1	0	0	0	0	1	0	0	0	4182	1000	35	4	794	4	CYP3A43	7	99453307	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	907075	99453307	59685356	80	76719											
FBXO24	26261	broad.mit.edu	37	chr7	100187902	100187902	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaggcgtgtggagacgcAtctgtcgcagactcagtccg	8	7	16	10	4	2	2	1	0	1	2	4	4	3	3	1	3	0	2	1	3	1	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:100187902A>G	uc003uvm.1	+	3	537	c.244A>G	c.(244-246)ATC>GTC	p.I82V	FBXO24_uc010lha.1_RNA|FBXO24_uc003uvl.1_Missense_Mutation_p.I82V|FBXO24_uc003uvn.1_Intron|uc011kjy.1_RNA|FBXO24_uc011kjz.1_Missense_Mutation_p.I120V|FBXO24_uc011kka.1_Missense_Mutation_p.I70V	NM_033506	NP_277041	O75426	FBX24_HUMAN	F-box only protein 24 isoform 1	82	F-box.					ubiquitin ligase complex	ubiquitin-protein ligase activity			ovary(3)|skin(1)	4	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					GTGGAGACGCATCTGTCGCAG	0.587													6	60					0	0	0.001168	0	0		G	100187902	G	G	100187902	3	3	147	1	0	0	0	0	1	0	0	0	5749	217	8	3	411	3	FBXO24	7	100187902	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	734595	100187902	58950761	81	76720											
MUC17	140453	broad.mit.edu	37	chr7	100677750	100677750	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactcctttgaccacttctaCtgaagccagttcacctcctc	8	12	4	17	0	2	2	1	2	1	0	5	2	4	2	5	0	2	1	5	0	2	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:100677750C>G	uc003uxp.1	+	3	3106	c.3053C>G	c.(3052-3054)ACT>AGT	p.T1018S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1018	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|15.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ACCACTTCTACTGAAGCCAGT	0.517													26	497					0	0	0.005443	0	0		G	100677750	G	G	100677750	3	3	147	1	0	0	0	0	1	0	0	0	9992	565	20	5	3063	5	MUC17	7	100677750	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	489848	100677750	58460913	82	76721											
PSMC2	5701	broad.mit.edu	37	chr7	103004686	103004686	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactctgtgcgcgggcagttGctaatcggactgatgcgtgc	6	10	14	11	4	1	1	0	1	1	0	2	2	1	2	0	2	4	3	0	2	1	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:103004686G>C	uc003vbs.2	+	8	758	c.688G>C	c.(688-690)GCT>CCT	p.A230P	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011klo.1_Missense_Mutation_p.A93P	NM_002803	NP_002794	P35998	PRS7_HUMAN	proteasome 26S ATPase subunit 2	230					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0						GCGGGCAGTTGCTAATCGGAC	0.488													7	143					0	0	0.006214	0	0		C	103004686	C	C	103004686	3	2	147	1	0	0	0	0	1	0	0	0	12708	1319	46	5	718	5	PSMC2	7	103004686	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	2326936	103004686	56133977	83	76722											
RNF133	168433	broad.mit.edu	37	chr7	122338599	122338599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttatagatgatcactccaCtggctcccttctcagttgcc	7	13	7	14	1	2	2	2	1	1	1	5	2	4	2	3	1	1	3	3	1	2	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:122338599C>T	uc003vkj.1	-	1	610	c.374G>A	c.(373-375)AGT>AAT	p.S125N	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron	NM_139175	NP_631914	Q8WVZ7	RN133_HUMAN	ring finger protein 133	125	PA.					endoplasmic reticulum membrane|integral to membrane	ligase activity|zinc ion binding			skin(1)	1						GATCACTCCACTGGCTCCCTT	0.453													17	267					0	0	0.004007	0	0		T	122338599	T	T	122338599	3	4	147	1	0	0	0	0	1	0	0	0	13464	565	20	4	760	4	RNF133	7	122338599	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	19333913	122338599	36800064	84	76723											
OR2A2	442361	broad.mit.edu	37	chr7	143806809	143806809	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggggaatggggtcatctTtgggattatctgcctggact	6	13	15	7	0	3	0	1	0	2	0	3	3	3	3	1	6	1	1	1	6	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr7:143806809T>G	uc011ktz.1	+	1	134	c.134T>G	c.(133-135)TTT>TGT	p.F45C		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					GGGGTCATCTTTGGGATTATC	0.512													8	302					0	0	0.00308	0	0		G	143806809	G	G	143806809	3	3	147	1	0	0	0	0	1	0	0	0	10996	1841	64	5	136	5	OR2A2	7	143806809	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	21468210	143806809	15331854	85	76724											
EFHA2	286097	broad.mit.edu	37	chr8	16935310	16935310	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaattaaatcaaatgctcGcagaaacaccaccagtttgg	16	8	8	9	1	1	1	1	0	0	1	2	2	1	2	2	2	2	3	2	2	5	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr8:16935310G>C	uc003wxd.2	+	4	628	c.586G>C	c.(586-588)GCA>CCA	p.A196P		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	196						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		TCAAATGCTCGCAGAAACACC	0.308													5	132					0	0	0.000602	0	0		C	16935310	C	C	16935310	3	2	147	1	0	0	0	0	1	0	0	0	4950	1087	38	5	600	5	EFHA2	8	16935310	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08		16935310	129428712	86	76725											
XPO7	23039	broad.mit.edu	37	chr8	21856712	21856712	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctgctctcagtgggagtTacgtcaatttcggagtcttt	7	14	12	8	2	3	0	2	0	2	0	5	2	3	2	0	3	2	3	0	3	2	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr8:21856712T>A	uc003xaa.3	+	23	2641	c.2539T>A	c.(2539-2541)TAC>AAC	p.Y847N	XPO7_uc010lti.2_Missense_Mutation_p.Y856N|XPO7_uc010ltk.2_Missense_Mutation_p.Y848N	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	847					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		CAGTGGGAGTTACGTCAATTT	0.512													28	484					0	0	0.009535	0	0		A	21856712	A	A	21856712	3	1	147	1	0	0	0	0	1	0	0	0	17475	1754	61	5	2681	5	XPO7	8	21856712	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	4921402	21856712	124507310	87	76726											
XPO7	23039	broad.mit.edu	37	chr8	21856729	21856729	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agttacgtcaatttcggagtCtttcgtctctatggagacga	9	14	10	8	4	3	1	1	0	2	1	6	4	3	2	0	2	1	1	0	2	3	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr8:21856729C>G	uc003xaa.3	+	23	2658	c.2556C>G	c.(2554-2556)GTC>GTG	p.V852V	XPO7_uc010lti.2_Silent_p.V861V|XPO7_uc010ltk.2_Silent_p.V853V	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	852					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		ATTTCGGAGTCTTTCGTCTCT	0.507													32	504					0	0	0.004289	0	0		G	21856729	G	G	21856729	2	3	147	1	0	0	0	0	0	0	0	1	17475	900	32	5		5	XPO7	8	21856729	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	17	21856729	124507293	88	76727											
CHRNA6	8973	broad.mit.edu	37	chr8	42611877	42611877	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atatccatagggcaggaactCttaaaaatagctggtggagt	14	10	11	6	0	1	0	0	0	1	0	2	2	2	2	1	4	2	2	1	4	7	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr8:42611877C>G	uc003xpj.2	-	5	511	c.465G>C	c.(463-465)AAG>AAC	p.K155N	CHRNA6_uc011lcw.1_Missense_Mutation_p.K140N	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	155	Extracellular.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GGCAGGAACTCTTAAAAATAG	0.398													9	284					0	0	0.008291	0	0		G	42611877	G	G	42611877	3	3	147	1	0	0	0	0	1	0	0	0	3390	912	32	5	1027	5	CHRNA6	8	42611877	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	20755148	42611877	103752145	89	76728											
POTEA	340441	broad.mit.edu	37	chr8	43173685	43173685	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgctggcaatggtgaTggtggattagttccacaaag	9	11	14	7	0	0	1	0	1	0	0	1	2	1	2	1	4	2	5	1	4	3	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr8:43173685T>C	uc003xpz.1	+	9	1150	c.1107T>C	c.(1105-1107)GAT>GAC	p.D369D	POTEA_uc003xqa.1_Silent_p.D323D	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	369										ovary(1)	1						GCAATGGTGATGGTGGATTAG	0.408													11	147					0	0	0.013537	0	0		C	43173685	C	C	43173685	2	2	147	1	0	0	0	0	0	0	0	1	12280	1461	51	3		3	POTEA	8	43173685	Silent	SNP	T	TCGA-CG-5717-01A-11D-1600-08	561808	43173685	103190337	90	76729											
CA8	767	broad.mit.edu	37	chr8	61192289	61192289	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgaatggtatgtccatcaTtggtgacttcacagtctcgg	8	13	10	10	1	3	2	2	2	1	0	5	2	4	2	2	3	0	1	2	3	2	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr8:61192289T>C	uc003xtz.1	-	2	499	c.251A>G	c.(250-252)AAT>AGT	p.N84S	CA8_uc003xua.1_Missense_Mutation_p.N84S|CA8_uc003xub.2_Missense_Mutation_p.N84S	NM_004056	NP_004047	P35219	CAH8_HUMAN	carbonic anhydrase VIII	84					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0		all_cancers(86;0.172)|all_epithelial(80;0.0383)|all_lung(136;0.0413)|Lung NSC(129;0.0474)				ATGTCCATCATTGGTGACTTC	0.423													27	142					0	0	0.008361	0	0		C	61192289	C	C	61192289	3	2	147	1	0	0	0	0	1	0	0	0	2526	1493	52	3	649	3	CA8	8	61192289	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	18018604	61192289	85171733	91	76730											
CRISPLD1	83690	broad.mit.edu	37	chr8	75898238	75898238	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattatgaagtgtaccgcgCgggagtggctcagagtaacc	10	9	13	9	3	2	2	2	1	0	1	2	3	2	3	2	2	2	3	2	2	4	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr8:75898238C>T	uc003yan.2	+	2	391	c.16C>T	c.(16-18)CGG>TGG	p.R6W		NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	6						extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			GTGTACCGCGCGGGAGTGGCT	0.458													39	253					0	0	0.00874	0	0		T	75898238	T	T	75898238	3	4	147	1	0	0	0	0	1	0	0	0	3885	759	27	1	18	1	CRISPLD1	8	75898238	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	14705949	75898238	70465784	92	76731											
ZFHX4	79776	broad.mit.edu	37	chr8	77690516	77690516	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgtgtgtgattacaccAccaaggtcaagttgaatctg	10	11	11	9	1	2	2	1	2	1	0	2	2	2	2	3	1	2	1	3	1	4	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr8:77690516A>G	uc003yav.2	+	4	3475	c.3088A>G	c.(3088-3090)ACC>GCC	p.T1030A	ZFHX4_uc003yau.1_Missense_Mutation_p.T1056A|ZFHX4_uc003yaw.1_Missense_Mutation_p.T1030A	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1030	C2H2-type 7.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TGATTACACCACCAAGGTCAA	0.527										HNSCC(33;0.089)			14	325					0	0	0.00245	0	0		G	77690516	G	G	77690516	3	3	147	1	0	0	0	0	1	0	0	0	17660	159	6	3	3176	3	ZFHX4	8	77690516	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	1792278	77690516	68673506	93	76732											
KLF10	7071	broad.mit.edu	37	chr8	103663556	103663556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtctggtgccattcgggCtcaccaccggaggctttgaa	8	9	13	11	2	2	2	1	1	1	1	3	3	2	3	3	4	1	2	3	4	1	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr8:103663556C>T	uc011lhk.1	-	3	1158	c.1004G>A	c.(1003-1005)AGC>AAC	p.S335N	KLF10_uc011lhj.1_Missense_Mutation_p.S324N	NM_005655	NP_005646	Q13118	KLF10_HUMAN	Kruppel-like factor 10 isoform a	335					cell proliferation|cell-cell signaling|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|skeletal system development|transforming growth factor beta receptor signaling pathway	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_epithelial(15;5.63e-07)|Lung NSC(17;8.18e-05)|all_lung(17;0.000169)		OV - Ovarian serous cystadenocarcinoma(57;0.000112)|STAD - Stomach adenocarcinoma(118;0.0826)			GCCATTCGGGCTCACCACCGG	0.552													11	128					0	0	0.010729	0	0		T	103663556	T	T	103663556	3	4	147	1	0	0	0	0	1	0	0	0	8354	797	28	2	446	2	KLF10	8	103663556	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	25973040	103663556	42700466	94	76733											
TMC1	117531	broad.mit.edu	37	chr9	75404223	75404223	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacacccttgggtggtgggAaaaaaatgaagttcgtctct	11	11	12	7	1	1	2	0	2	1	0	3	3	1	3	1	3	0	1	1	3	4	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr9:75404223A>G	uc004aiz.1	+	15	1754	c.1214A>G	c.(1213-1215)GAA>GGA	p.E405G	TMC1_uc010moz.1_Missense_Mutation_p.E363G|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Missense_Mutation_p.E259G|TMC1_uc010mpa.1_Missense_Mutation_p.E259G	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	405	Extracellular (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						GGGTGGTGGGAAAAAAATGAA	0.428													6	150					0	0	0.001168	0	0		G	75404223	G	G	75404223	3	3	147	1	0	0	0	0	1	0	0	0	16009	246	9	3	1256	3	TMC1	9	75404223	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08		75404223	65809208	95	76734											
ROR2	4920	broad.mit.edu	37	chr9	94488878	94488878	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggctgggcgaggccatcAgctgtcgccgctgcggtgtg	3	9	17	12	4	1	0	1	0	0	0	2	1	1	0	2	4	2	3	2	4	0	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr9:94488878A>G	uc004arj.1	-	8	1530	c.1331T>C	c.(1330-1332)CTG>CCG	p.L444P	ROR2_uc004ari.1_Missense_Mutation_p.L304P|ROR2_uc004ark.2_Nonstop_Mutation_p.*433R	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	444	Cytoplasmic (Potential).				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						CGAGGCCATCAGCTGTCGCCG	0.537													5	104					0	0	0.001168	0	0		G	94488878	G	G	94488878	3	3	147	1	0	0	0	0	1	0	0	0	13552	188	7	3	1508	3	ROR2	9	94488878	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	19084655	94488878	46724553	96	76735											
OR13C8	138802	broad.mit.edu	37	chr9	107332054	107332054	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgattagtatgacagggtcGaatctgattgttctggttat	9	16	12	4	1	2	3	0	3	2	0	3	4	2	3	0	2	0	3	0	2	4	5	rs146773946		TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr9:107332054G>A	uc011lvo.1	+	1	606	c.606G>A	c.(604-606)TCG>TCA	p.S202S		NM_001004483	NP_001004483	Q8NGS7	O13C8_HUMAN	olfactory receptor, family 13, subfamily C,	202	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGACAGGGTCGAATCTGATTG	0.348													5	279					0	0	0.000602	0	0		A	107332054	A	A	107332054	2	1	147	1	0	0	0	0	0	0	0	1	10957	1045	37	1		1	OR13C8	9	107332054	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	12843176	107332054	33881377	97	76736											
C9orf84	158401	broad.mit.edu	37	chr9	114462308	114462308	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgctaggtgatgaagtgTcttttctgtaagcagatacc	10	13	11	7	0	2	3	0	2	2	1	2	3	2	3	1	1	3	3	1	1	4	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr9:114462308T>C	uc004bfr.2	-	22	3052	c.2917A>G	c.(2917-2919)ACA>GCA	p.T973A	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Missense_Mutation_p.T934A|C9orf84_uc010mug.2_Missense_Mutation_p.T884A	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	973										ovary(2)	2						TGATGAAGTGTCTTTTCTGTA	0.294													7	148					0	0	0.00308	0	0		C	114462308	C	C	114462308	3	2	147	1	0	0	0	0	1	0	0	0	2503	1667	58	3	1437	3	C9orf84	9	114462308	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	7130254	114462308	26751123	98	76737											
PAPPA	5069	broad.mit.edu	37	chr9	119065080	119065080	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgatggtgatggggtatgtGaggagtttgaacaaaaaacc	14	10	14	3	0	0	4	0	4	0	0	0	5	0	5	1	4	2	2	1	4	5	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr9:119065080G>C	uc004bjn.2	+	10	3379	c.2998G>C	c.(2998-3000)GAG>CAG	p.E1000Q	PAPPA_uc011lxp.1_Missense_Mutation_p.E695Q|PAPPA_uc011lxq.1_Missense_Mutation_p.E375Q	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1000					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						TGGGGTATGTGAGGAGTTTGA	0.438													3	118					0	0	0.004672	0	0		C	119065080	C	C	119065080	3	2	147	1	0	0	0	0	1	0	0	0	11451	1291	45	5	3036	5	PAPPA	9	119065080	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	4602772	119065080	22148351	99	76738											
CERCAM	51148	broad.mit.edu	37	chr9	131185501	131185501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggagctgaagcaggaaGccctcacctttgccaggaac	11	7	12	11	0	1	2	1	2	0	0	1	5	1	5	3	3	5	2	3	3	3	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr9:131185501G>A	uc004buz.3	+	3	783	c.385G>A	c.(385-387)GCC>ACC	p.A129T	CERCAM_uc004buy.1_Missense_Mutation_p.A51T|CERCAM_uc010mxz.2_Missense_Mutation_p.A51T|CERCAM_uc010mya.1_5'Flank	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	129					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						GAAGCAGGAAGCCCTCACCTT	0.537													6	201					0	0	0.00308	0	0		A	131185501	A	A	131185501	3	1	147	1	0	0	0	0	1	0	0	0	3269	971	34	2	395	2	CERCAM	9	131185501	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	12120421	131185501	10027930	100	76739											
POMT1	10585	broad.mit.edu	37	chr9	134386796	134386796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggtcactctgaggaacGtctttgggaaacctgtgccc	8	9	11	13	1	3	1	1	1	2	0	3	3	3	3	3	3	3	0	3	3	2	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr9:134386796G>A	uc004cav.2	+	10	1196	c.994G>A	c.(994-996)GTC>ATC	p.V332I	POMT1_uc004cax.2_Missense_Mutation_p.V310I|POMT1_uc011mcj.1_Missense_Mutation_p.V88I|POMT1_uc004cau.2_Missense_Mutation_p.V310I|POMT1_uc004caw.2_Missense_Mutation_p.V256I|POMT1_uc011mck.1_Missense_Mutation_p.V193I|POMT1_uc011mcl.1_Missense_Mutation_p.V158I|POMT1_uc011mcm.1_Missense_Mutation_p.V280I|POMT1_uc011mcn.1_Missense_Mutation_p.V35I	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	332	MIR 1.				multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		TCTGAGGAACGTCTTTGGGAA	0.502													4	153					0	0	0.009096	0	0		A	134386796	A	A	134386796	3	1	147	1	0	0	0	0	1	0	0	0	12264	1145	40	1	1028	1	POMT1	9	134386796	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	3201295	134386796	6826635	101	76740											
GDI2	2665	broad.mit.edu	37	chr10	5827827	5827827	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacttactcatcagttctgTaaagtgcaagagcatgacca	14	11	7	9	0	3	2	2	1	1	1	3	2	3	2	1	0	4	4	1	0	5	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr10:5827827T>C	uc001iil.3	-	5	866	c.575A>G	c.(574-576)TAC>TGC	p.Y192C	GDI2_uc001iim.3_Missense_Mutation_p.Y147C|GDI2_uc009xid.2_Missense_Mutation_p.Y196C	NM_001494	NP_001485	P50395	GDIB_HUMAN	GDP dissociation inhibitor 2 isoform 1	192					protein transport|small GTPase mediated signal transduction	cell surface|cytosol|membrane	protein binding|Rab GDP-dissociation inhibitor activity				0						ATCAGTTCTGTAAAGTGCAAG	0.333													5	224					0	0	0.000602	0	0		C	5827827	C	C	5827827	3	2	147	1	0	0	0	0	1	0	0	0	6336	1638	57	3	790	3	GDI2	10	5827827	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08		5827827	129706920	102	76741											
STAM	8027	broad.mit.edu	37	chr10	17730117	17730117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagcttagtctaatatcagCaatgattaagaaccttaagg	16	11	7	7	0	2	2	1	1	1	1	2	2	2	2	1	1	3	2	1	1	7	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr10:17730117C>T	uc001ipj.1	+	5	605	c.389C>T	c.(388-390)GCA>GTA	p.A130V	STAM_uc010qcf.1_Missense_Mutation_p.A19V	NM_003473	NP_003464	Q92783	STAM1_HUMAN	signal transducing adaptor molecule 1	130	VHS.				cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	SH3/SH2 adaptor activity			large_intestine(1)|ovary(1)	2						CTAATATCAGCAATGATTAAG	0.368													15	296					0	0	0.004007	0	0		T	17730117	T	T	17730117	3	4	147	1	0	0	0	0	1	0	0	0	15273	710	25	2	407	2	STAM	10	17730117	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	11902290	17730117	117804630	103	76742											
CHAT	1103	broad.mit.edu	37	chr10	50857654	50857654	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccggaaattcaaggccacTtagcctcctcggcagaaaaa	13	6	8	14	2	1	1	1	0	0	1	3	2	2	2	5	3	1	1	5	3	5	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr10:50857654T>C	uc001jhz.2	+	10	1636	c.1483T>C	c.(1483-1485)TTA>CTA	p.L495L	CHAT_uc001jhv.1_Silent_p.L377L|CHAT_uc001jhx.1_Silent_p.L377L|CHAT_uc001jhy.1_Silent_p.L377L|CHAT_uc001jia.2_Silent_p.L377L|CHAT_uc010qgs.1_Silent_p.L377L	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	495					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	TCAAGGCCACTTAGCCTCCTC	0.612													11	117					0	0	0.008291	0	0		C	50857654	C	C	50857654	2	2	147	1	0	0	0	0	0	0	0	1	3316	1606	56	3		3	CHAT	10	50857654	Silent	SNP	T	TCGA-CG-5717-01A-11D-1600-08	33127537	50857654	84677093	104	76743											
UNC5B	219699	broad.mit.edu	37	chr10	73050856	73050856	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccccgtcaactttaagacGgcaaggcccagtaagaaccc	13	5	8	15	2	1	2	1	0	0	2	1	2	1	2	4	2	2	2	4	2	5	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr10:73050856G>C	uc001jro.2	+	9	1729	c.1284G>C	c.(1282-1284)ACG>ACC	p.T428T	UNC5B_uc001jrp.2_Silent_p.T417T	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	428	Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						ACTTTAAGACGGCAAGGCCCA	0.597													23	309					0	0	0.012319	0	0		C	73050856	C	C	73050856	2	2	147	1	0	0	0	0	0	0	0	1	17018	1103	39	5		5	UNC5B	10	73050856	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	22193202	73050856	62483891	105	76744											
LDB3	11155	broad.mit.edu	37	chr10	88478537	88478537	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accacctgcttcgtctgtgcGgcctgcaagaagccttttgg	6	11	11	13	2	1	1	0	0	1	1	2	1	1	1	4	2	4	2	4	2	2	3	rs150710377	byFrequency	TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr10:88478537G>A	uc001kdv.2	+	11	1934	c.1911G>A	c.(1909-1911)GCG>GCA	p.A637A	LDB3_uc010qmm.1_Silent_p.A642A|LDB3_uc001kdu.2_Silent_p.A527A|LDB3_uc009xsz.2_Silent_p.A266A|LDB3_uc009xta.1_Silent_p.A16A	NM_007078	NP_009009	O75112	LDB3_HUMAN	LIM domain binding 3 isoform 1	637	LIM zinc-binding 2.					cytoskeleton|perinuclear region of cytoplasm|pseudopodium	zinc ion binding			ovary(1)	1						TCGTCTGTGCGGCCTGCAAGA	0.572													3	90					0	0	0.004672	0	0		A	88478537	A	A	88478537	2	1	147	1	0	0	0	0	0	0	0	1	8713	1103	39	1		1	LDB3	10	88478537	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	15427681	88478537	47056210	106	76745											
BTAF1	9044	broad.mit.edu	37	chr10	93784681	93784681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgtcacttatttgagattaGatggcagcatacctcctggt	9	14	9	9	0	1	2	1	1	0	2	2	3	2	2	2	2	2	2	2	2	3	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr10:93784681G>A	uc001khr.2	+	35	5130	c.5032G>A	c.(5032-5034)GAT>AAT	p.D1678N		NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	1678	Helicase C-terminal.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				TTTGAGATTAGATGGCAGCAT	0.393													20	233					0	0	0.008871	0	0		A	93784681	A	A	93784681	3	1	147	1	0	0	0	0	1	0	0	0	1539	942	33	4	5170	4	BTAF1	10	93784681	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	5306144	93784681	41750066	107	76746											
SORCS3	22986	broad.mit.edu	37	chr10	107005353	107005353	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acattccttgcagaaggaacCgacaccatcacagtccaggt	13	7	8	13	1	1	1	1	0	0	1	3	3	3	2	4	2	2	1	4	2	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr10:107005353C>T	uc001kyi.1	+	21	3149	c.2922C>T	c.(2920-2922)ACC>ACT	p.T974T	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	974	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		CAGAAGGAACCGACACCATCA	0.463													26	186					0	0	0.00632	0	0		T	107005353	T	T	107005353	2	4	147	1	0	0	0	0	0	0	0	1	14957	639	23	1		1	SORCS3	10	107005353	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	13220672	107005353	28529394	108	76747											
OR51Q1	390061	broad.mit.edu	37	chr11	5443584	5443584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaccatcctcactgtcattCgcacagagccatctgtccac	9	9	5	18	1	3	1	2	0	1	1	6	1	5	1	5	0	1	1	5	0	0	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr11:5443584C>T	uc010qzd.1	+	1	154	c.154C>T	c.(154-156)CGC>TGC	p.R52C	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	52	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CACTGTCATTCGCACAGAGCC	0.562													5	354					0	0	0.000602	0	0		T	5443584	T	T	5443584	3	4	147	1	0	0	0	0	1	0	0	0	11123	884	31	1	156	1	OR51Q1	11	5443584	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08		5443584	129562932	109	76748											
EHF	26298	broad.mit.edu	37	chr11	34668128	34668128	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctttccaagagttcgacatCaacggcgagcacctctgcag	10	8	9	14	3	2	1	1	0	1	1	4	3	3	1	3	1	3	3	3	1	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr11:34668128C>G	uc001mvr.1	+	3	351	c.240C>G	c.(238-240)ATC>ATG	p.I80M	EHF_uc009yke.1_Missense_Mutation_p.I80M|EHF_uc009ykf.1_Missense_Mutation_p.I83M	NM_012153	NP_036285	Q9NZC4	EHF_HUMAN	ets homologous factor	80	PNT.				cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)			AGTTCGACATCAACGGCGAGC	0.582													12	290					0	0	0.010729	0	0		G	34668128	G	G	34668128	3	3	147	1	0	0	0	0	1	0	0	0	4987	816	29	5	246	5	EHF	11	34668128	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	29224544	34668128	100338388	110	76749											
ACCS	84680	broad.mit.edu	37	chr11	44105268	44105268	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagagggtccagcaggtgCttgcaggcaaatcccaagtg	10	7	14	10	0	0	1	0	0	0	1	2	1	2	1	2	3	4	5	2	3	2	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr11:44105268C>A	uc009yks.1	+	15	1576	c.1432C>A	c.(1432-1434)CTT>ATT	p.L478I	EXT2_uc010rfo.1_Intron|ACCS_uc001mxx.2_Missense_Mutation_p.L478I	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	478							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						CCAGCAGGTGCTTGCAGGCAA	0.617													5	71					3.59834e-05	3.85536e-05	0.001168	1	0		A	44105268	A	A	44105268	3	1	147	1	0	0	0	0	1	0	0	0	133	797	28	5	1486	5	ACCS	11	44105268	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	9437140	44105268	90901248	111	76750											
OR4S2	219431	broad.mit.edu	37	chr11	55419242	55419242	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctgatttatacactgaGaaatgcagaagtaaagaatg	16	11	8	6	0	1	4	0	2	1	3	2	5	2	4	1	0	2	2	1	0	7	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr11:55419242G>T	uc001nhs.1	+	1	863	c.863G>T	c.(862-864)AGA>ATA	p.R288I		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	288	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				TATACACTGAGAAATGCAGAA	0.378													33	381					4.3181e-19	4.91158e-19	0.013726	1	0		T	55419242	T	T	55419242	3	4	147	1	0	0	0	0	1	0	0	0	11102	942	33	5	865	5	OR4S2	11	55419242	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	11313974	55419242	79587274	112	76751											
PRKRIR	5612	broad.mit.edu	37	chr11	76062596	76062596	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttcctcaaaccaaaatTcatgataaacttcaatattt	15	14	3	9	0	3	1	3	1	0	0	4	1	4	1	2	1	2	1	2	1	7	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr11:76062596T>G	uc001oxh.1	-	5	1598	c.1598A>C	c.(1597-1599)GAA>GCA	p.E533A	PRKRIR_uc010rrz.1_Missense_Mutation_p.E358A	NM_004705	NP_004696	O43422	P52K_HUMAN	protein-kinase, interferon-inducible double	533					negative regulation of cell proliferation|response to stress|signal transduction		DNA binding|metal ion binding|protein dimerization activity			ovary(2)|pancreas(1)	3						AAACCAAAATTCATGATAAAC	0.438													5	96					0	0	0.001984	0	0		G	76062596	G	G	76062596	3	3	147	1	0	0	0	0	1	0	0	0	12548	1783	62	5	691	5	PRKRIR	11	76062596	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	20643354	76062596	58943920	113	76752											
SCN3B	55800	broad.mit.edu	37	chr11	123508896	123508896	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcatctctggacttacgcGttttcttgggctgcctcttc	3	16	10	12	2	3	0	0	0	3	0	5	1	3	1	1	3	2	3	1	3	1	5	rs34964168	byFrequency	TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr11:123508896G>A	uc001pza.1	-	5	989	c.582C>T	c.(580-582)AAC>AAT	p.N194N	SCN3B_uc001pzb.1_Silent_p.N194N	NM_001040151	NP_001035241	Q9NY72	SCN3B_HUMAN	voltage-gated sodium channel beta-3 subunit	194	Cytoplasmic (Potential).				axon guidance	integral to membrane|plasma membrane	voltage-gated sodium channel activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0227)		GGACTTACGCGTTTTCTTGGG	0.294													3	69					0	0	0.004672	0	0		A	123508896	A	A	123508896	2	1	147	1	0	0	0	0	0	0	0	1	13944	1136	40	1		1	SCN3B	11	123508896	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	47446300	123508896	11497620	114	76753											
OPCML	4978	broad.mit.edu	37	chr11	132527132	132527132	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatcacacgagggtctaTggaccacttgtcattcccag	10	10	10	11	1	3	1	2	1	1	0	4	4	4	2	2	2	0	0	2	2	1	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr11:132527132T>C	uc001qgs.2	-	2	300	c.250A>G	c.(250-252)ATA>GTA	p.I84V	OPCML_uc001qgu.2_Missense_Mutation_p.I77V|OPCML_uc010sck.1_Missense_Mutation_p.I84V|OPCML_uc001qgt.2_Missense_Mutation_p.I84V|OPCML_uc010scl.1_Missense_Mutation_p.I43V	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	84	Ig-like C2-type 1.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		CGAGGGTCTATGGACCACTTG	0.537													12	190					0	0	0.001855	0	0		C	132527132	C	C	132527132	3	2	147	1	0	0	0	0	1	0	0	0	10893	1464	51	3	811	3	OPCML	11	132527132	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	9018236	132527132	2479384	115	76754											
AKAP3	10566	broad.mit.edu	37	chr12	4737235	4737235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccttcactaacagaagccGtaaagtcatcaggcctttcc	11	10	6	14	1	3	1	3	0	0	1	5	1	5	1	4	1	2	1	4	1	4	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:4737235G>A	uc001qnb.3	-	4	1062	c.833C>T	c.(832-834)ACG>ATG	p.T278M		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	278					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						AACAGAAGCCGTAAAGTCATC	0.458													7	105					0	0	0.004482	0	0		A	4737235	A	A	4737235	3	1	147	1	0	0	0	0	1	0	0	0	452	1145	40	1	1736	1	AKAP3	12	4737235	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08		4737235	129114660	116	76755											
SLCO1C1	53919	broad.mit.edu	37	chr12	20903616	20903616	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtttttctcacagcaggaatCccagctccagtgtattttgg	8	14	9	10	0	1	0	1	0	1	0	4	1	3	1	2	2	2	4	2	2	2	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:20903616C>A	uc001rej.3	+	15	2161	c.1806C>A	c.(1804-1806)ATC>ATA	p.I602I	SLCO1C1_uc010sii.1_Silent_p.I602I|SLCO1C1_uc010sij.1_Silent_p.I553I|SLCO1C1_uc009zip.2_Silent_p.I436I|SLCO1C1_uc001rei.2_Silent_p.I602I|SLCO1C1_uc010sik.1_Silent_p.I484I	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	602	Helical; Name=11; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					CAGCAGGAATCCCAGCTCCAG	0.294													10	182					1.58986e-06	1.75031e-06	0.008291	1	0		A	20903616	A	A	20903616	2	1	147	1	0	0	0	0	0	0	0	1	14750	845	30	5		5	SLCO1C1	12	20903616	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	16166381	20903616	112948279	117	76756											
IFLTD1	160492	broad.mit.edu	37	chr12	25656696	25656696	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggttgagttgactgcttAttgcttttgtgactcagatg	9	16	11	5	0	1	4	1	3	0	1	1	4	1	4	0	1	2	4	0	1	2	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:25656696A>G	uc001rgs.2	-	8	1315	c.1165T>C	c.(1165-1167)TAA>CAA	p.*389Q	IFLTD1_uc001rgt.1_Nonstop_Mutation_p.*292Q|IFLTD1_uc010sji.1_Nonstop_Mutation_p.*410Q|IFLTD1_uc010sjj.1_Nonstop_Mutation_p.*326Q|IFLTD1_uc009zjc.2_Nonstop_Mutation_p.*370Q	NM_152590	NP_689803	Q8N9Z9	ILFT1_HUMAN	intermediate filament tail domain containing 1	389						intermediate filament	structural molecule activity			ovary(2)|central_nervous_system(1)	3	all_lung(3;2.75e-22)|Lung NSC(3;1.77e-21)|all_hematologic(7;0.00656)|Colorectal(261;0.0847)					TTGACTGCTTATTGCTTTTGT	0.338													8	88					0	0	0.006214	0	0		G	25656696	G	G	25656696	4	3	147	1	0	0	0	0	0	0	0	0	7546	462	16	3	5	3	IFLTD1	12	25656696	Nonstop_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	4753080	25656696	108195199	118	76757											
SFRS2IP	9169	broad.mit.edu	37	chr12	46321761	46321761	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcattaaccactgactctaCattctcagataagtcactta	13	14	3	11	0	4	2	3	1	2	1	5	2	4	2	1	0	2	0	1	0	4	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:46321761C>G	uc001rox.2	-	11	2010	c.1723G>C	c.(1723-1725)GTA>CTA	p.V575L	SFRS2IP_uc001row.2_Missense_Mutation_p.V260L|SFRS2IP_uc001roy.1_Missense_Mutation_p.V649L	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	575					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		ACTGACTCTACATTCTCAGAT	0.343													5	277					0	0	0.000602	0	0		G	46321761	G	G	46321761	3	3	147	1	0	0	0	0	1	0	0	0	14202	478	17	5	2688	5	SFRS2IP	12	46321761	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	20665065	46321761	87530134	119	76758											
ENDOU	8909	broad.mit.edu	37	chr12	48110804	48110804	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctcagagatgctctgaatCtcctcttttgttatggcatc	7	17	7	10	0	4	2	1	1	4	1	7	3	4	2	1	1	1	3	1	1	2	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:48110804C>G	uc001rpu.1	-	5	574	c.420G>C	c.(418-420)GAG>GAC	p.E140D	ENDOU_uc010sll.1_5'UTR|ENDOU_uc001rpt.1_Missense_Mutation_p.E99D|ENDOU_uc010slm.1_Missense_Mutation_p.E77D|uc001rpv.2_5'Flank	NM_006025	NP_006016	P21128	ENDOU_HUMAN	placental protein 11 precursor	140					female pregnancy|immune response|proteolysis	cytoplasm|extracellular space|plasma membrane	endoribonuclease activity|growth factor activity|manganese ion binding|polysaccharide binding|RNA binding|scavenger receptor activity|serine-type peptidase activity			ovary(2)|pancreas(1)	3						TGCTCTGAATCTCCTCTTTTG	0.527											OREG0021752	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	384					0	0	0.004482	0	0		G	48110804	G	G	48110804	3	3	147	1	0	0	0	0	1	0	0	0	5124	912	32	5	836	5	ENDOU	12	48110804	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	1789043	48110804	85741091	120	76759											
SCN8A	6334	broad.mit.edu	37	chr12	52156331	52156331	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaatgttcctgaagctcatAgccatggatccctactatta	12	12	7	10	0	1	1	1	1	0	0	3	3	3	2	3	1	3	2	3	1	6	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:52156331A>T	uc001ryw.2	+	15	2593	c.2415A>T	c.(2413-2415)ATA>ATT	p.I805I	SCN8A_uc010snl.1_Silent_p.I670I|SCN8A_uc001ryy.2_Silent_p.I670I	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	805	Helical; Name=S2 of repeat II; (Potential).|II.				axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	TGAAGCTCATAGCCATGGATC	0.408													20	339					0	0	0.012319	0	0		T	52156331	T	T	52156331	2	4	147	1	0	0	0	0	0	0	0	1	13949	410	15	5		5	SCN8A	12	52156331	Silent	SNP	A	TCGA-CG-5717-01A-11D-1600-08	4045527	52156331	81695564	121	76760											
ESPL1	9700	broad.mit.edu	37	chr12	53666524	53666524	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttcttacaccagtaatttGgcctacagcttctatagtca	10	14	6	11	0	3	0	1	0	2	0	3	0	3	0	2	1	3	3	2	1	5	8			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:53666524G>T	uc001sck.2	+	6	1480	c.1389G>T	c.(1387-1389)TTG>TTT	p.L463F	ESPL1_uc001scj.2_Missense_Mutation_p.L138F	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	463					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CCAGTAATTTGGCCTACAGCT	0.547													39	650					1.22674e-20	1.40199e-20	0.00874	1	0		T	53666524	T	T	53666524	3	4	147	1	0	0	0	0	1	0	0	0	5261	1339	47	5	1407	5	ESPL1	12	53666524	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	1510193	53666524	80185371	122	76761											
DCD	117159	broad.mit.edu	37	chr12	55039490	55039490	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgctgatgcttcatggcaAgctgcaagggtaagggagtg	9	9	16	7	0	1	1	1	1	0	0	1	2	1	2	0	3	4	7	0	3	3	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:55039490A>G	uc001sgj.2	-	3	161	c.99T>C	c.(97-99)CCT>CCC	p.P33P	DCD_uc009znt.2_Silent_p.P33P|DCD_uc009znu.2_RNA	NM_053283	NP_444513	P81605	DCD_HUMAN	dermcidin preproprotein	33					defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular region	protein binding			ovary(1)	1		Myeloproliferative disorder(1001;0.0255)				CTTCATGGCAAGCTGCAAGGG	0.527													4	83					0	0	0.009096	0	0		G	55039490	G	G	55039490	2	3	147	1	0	0	0	0	0	0	0	1	4286	86	3	3		3	DCD	12	55039490	Silent	SNP	A	TCGA-CG-5717-01A-11D-1600-08	1372966	55039490	78812405	123	76762											
OR6C1	390321	broad.mit.edu	37	chr12	55715240	55715240	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcccccatgatgaacccctTtatttacagcctaagaaatc	13	10	5	13	0	0	3	0	2	0	1	1	3	0	3	5	0	4	0	5	0	5	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:55715240T>A	uc010spi.1	+	1	857	c.857T>A	c.(856-858)TTT>TAT	p.F286Y		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						ATGAACCCCTTTATTTACAGC	0.403													8	272					0	0	0.004482	0	0		A	55715240	A	A	55715240	3	1	147	1	0	0	0	0	1	0	0	0	11209	1841	64	5	859	5	OR6C1	12	55715240	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	675750	55715240	78136655	124	76763											
KCNMB4	27345	broad.mit.edu	37	chr12	70794037	70794037	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatcagaagaatttggaaAgtgtcatgaattggcaacag	18	9	10	4	0	2	3	2	1	0	2	2	4	2	4	0	2	1	1	0	2	7	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:70794037A>G	uc001svx.2	+	2	838	c.385A>G	c.(385-387)AGT>GGT	p.S129G		NM_014505	NP_055320	Q86W47	KCMB4_HUMAN	calcium-activated potassium channel beta 4	129	Extracellular (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of neurotransmitter secretion|regulation of vasoconstriction|synaptic transmission	voltage-gated potassium channel complex	calcium-activated potassium channel activity|protein binding				0	Renal(347;0.236)		Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			GAATTTGGAAAGTGTCATGAA	0.343													4	293					0	0	0.009096	0	0		G	70794037	G	G	70794037	3	3	147	1	0	0	0	0	1	0	0	0	8093	72	3	3	391	3	KCNMB4	12	70794037	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	15078797	70794037	63057858	125	76764											
GLIPR1L2	144321	broad.mit.edu	37	chr12	75785032	75785032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtttgaacgccagatttttgCcagacgaggaggacgtagac	11	9	13	8	3	0	4	0	1	0	3	0	7	0	6	2	2	2	2	2	2	2	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:75785032C>T	uc001sxr.1	+	1	144	c.136C>T	c.(136-138)CCA>TCA	p.P46S	CAPS2_uc001sxm.3_5'Flank|CAPS2_uc009zsa.2_5'Flank|GLIPR1L2_uc001sxp.1_Missense_Mutation_p.P46S|GLIPR1L2_uc001sxq.1_5'UTR	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	46						integral to membrane				ovary(1)	1						CAGATTTTTGCCAGACGAGGA	0.562											OREG0021999	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	132					0	0	0.000602	0	0		T	75785032	T	T	75785032	3	4	147	1	0	0	0	0	1	0	0	0	6458	739	26	2	138	2	GLIPR1L2	12	75785032	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	4990995	75785032	58066863	126	76765											
LRRIQ1	84125	broad.mit.edu	37	chr12	85438514	85438514	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctgtagttatggagcagTttctaataatcatatgcatt	12	15	9	5	0	2	0	1	0	1	0	2	1	2	1	0	2	2	6	0	2	5	7			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:85438514T>A	uc001tac.2	+	4	374	c.263T>A	c.(262-264)GTT>GAT	p.V88D	LRRIQ1_uc001tab.1_Missense_Mutation_p.V88D|LRRIQ1_uc001taa.1_Missense_Mutation_p.V88D|LRRIQ1_uc001tad.2_5'UTR	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	88										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		TATGGAGCAGTTTCTAATAAT	0.264													5	114					0	0	0.001984	0	0		A	85438514	A	A	85438514	3	1	147	1	0	0	0	0	1	0	0	0	9047	1725	60	5	273	5	LRRIQ1	12	85438514	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	9653482	85438514	48413381	127	76766											
C12orf50	160419	broad.mit.edu	37	chr12	88388519	88388519	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggaactgtaagactatcTcctagaaataagaagaaaaa	19	8	8	6	1	1	4	0	0	1	4	3	5	1	5	1	1	1	1	1	1	9	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:88388519T>C	uc001tam.1	-	7	651	c.483A>G	c.(481-483)GGA>GGG	p.G161G	C12orf50_uc001tan.2_Silent_p.G215G	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	161										skin(2)|ovary(1)	3						TAAGACTATCTCCTAGAAATA	0.318													4	139					0	0	0.009096	0	0		C	88388519	C	C	88388519	2	2	147	1	0	0	0	0	0	0	0	1	1698	1565	54	3		3	C12orf50	12	88388519	Silent	SNP	T	TCGA-CG-5717-01A-11D-1600-08	2950005	88388519	45463376	128	76767											
PLXNC1	10154	broad.mit.edu	37	chr12	94673350	94673350	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacaccattggccaagccAaagaaaagattttccaagca	16	7	8	10	0	0	3	0	1	0	2	1	3	1	3	4	1	2	1	4	1	5	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:94673350A>G	uc001tdc.2	+	22	3949	c.3700A>G	c.(3700-3702)AAA>GAA	p.K1234E	PLXNC1_uc010sut.1_Missense_Mutation_p.K281E|PLXNC1_uc009zsv.2_5'UTR	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1234	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						TGGCCAAGCCAAAGAAAAGAT	0.428													7	132					0	0	0.001984	0	0		G	94673350	G	G	94673350	3	3	147	1	0	0	0	0	1	0	0	0	12145	131	5	3	3786	3	PLXNC1	12	94673350	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	6284831	94673350	39178545	129	76768											
ANKS1B	56899	broad.mit.edu	37	chr12	99640323	99640323	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccattccgagatccactcctGgttgatcttgtgccaacaat	9	12	7	13	1	1	2	0	1	1	1	4	3	4	2	5	1	2	1	5	1	2	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:99640323G>C	uc001tge.1	-	13	2493	c.2076C>G	c.(2074-2076)ACC>ACG	p.T692T	ANKS1B_uc001tgf.1_Silent_p.T272T|ANKS1B_uc001tgk.2_5'UTR|ANKS1B_uc009ztt.1_Silent_p.T658T	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	692						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		ATCCACTCCTGGTTGATCTTG	0.443													5	61					0	0	0.001168	0	0		C	99640323	C	C	99640323	2	2	147	1	0	0	0	0	0	0	0	1	689	1335	47	5		5	ANKS1B	12	99640323	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	4966973	99640323	34211572	130	76769											
C12orf48	55010	broad.mit.edu	37	chr12	102569440	102569440	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccactgacatcagtcctgCtcgggtaatgagctttttat	9	13	8	11	1	1	2	1	2	0	0	3	2	2	2	2	1	2	3	2	1	2	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:102569440C>G	uc001tjf.2	+	7	1113	c.1001C>G	c.(1000-1002)GCT>GGT	p.A334G	C12orf48_uc001tjg.2_Missense_Mutation_p.A253G|C12orf48_uc010swa.1_Missense_Mutation_p.A411G|C12orf48_uc001tjh.2_Missense_Mutation_p.A253G|C12orf48_uc010swb.1_Intron|C12orf48_uc009zuc.2_Intron|C12orf48_uc001tjj.2_Missense_Mutation_p.A49G|C12orf48_uc001tjk.2_Intron|C12orf48_uc009zud.2_Intron	NM_017915	NP_060385	Q9NWS1	PR1BP_HUMAN	hypothetical protein LOC55010	334					response to DNA damage stimulus	cytoplasm|nucleus	DNA binding				0						ATCAGTCCTGCTCGGGTAATG	0.328													4	95					0	0	0.009096	0	0		G	102569440	G	G	102569440	3	3	147	1	0	0	0	0	1	0	0	0	1695	797	28	5	776	5	C12orf48	12	102569440	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	2929117	102569440	31282455	131	76770											
UNG	7374	broad.mit.edu	37	chr12	109547651	109547651	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaagcggcaccatgtactAcagacggctcatccctcccc	10	6	8	17	2	1	2	1	0	0	2	3	2	3	2	4	2	3	3	4	2	3	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:109547651A>G	uc001tnz.1	+	7	889	c.819A>G	c.(817-819)CTA>CTG	p.L273L	UNG_uc001toa.1_Silent_p.L264L	NM_080911	NP_550433	P13051	UNG_HUMAN	uracil-DNA glycosylase isoform UNG2	273					base-excision repair|interspecies interaction between organisms	mitochondrion|nucleus	protein binding|uracil DNA N-glycosylase activity			lung(1)|central_nervous_system(1)	2						ACCATGTACTACAGACGGCTC	0.363								BER_DNA_glycosylases	Immune_Deficiency_with_Hyper-IgM				7	281					0	0	0.001984	0	0		G	109547651	G	G	109547651	2	3	147	1	0	0	0	0	0	0	0	1	17025	378	14	3		3	UNG	12	109547651	Silent	SNP	A	TCGA-CG-5717-01A-11D-1600-08	6978211	109547651	24304244	132	76771											
SLC15A4	121260	broad.mit.edu	37	chr12	129294519	129294519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccagtaaggtatcaaaGccaagaaaacagggacaatc	17	6	9	9	0	1	1	1	0	0	1	3	2	2	2	2	2	2	2	2	2	7	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr12:129294519G>A	uc001uhu.2	-	3	1033	c.980C>T	c.(979-981)GCT>GTT	p.A327V	SLC15A4_uc001uhv.2_Intron	NM_145648	NP_663623	Q8N697	S15A4_HUMAN	solute carrier family 15, member 4	327	Helical; (Potential).				oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.69e-06)|Epithelial(86;1.17e-05)|all cancers(50;5.07e-05)		AGGTATCAAAGCCAAGAAAAC	0.403													5	198					0	0	0.000602	0	0		A	129294519	A	A	129294519	3	1	147	1	0	0	0	0	1	0	0	0	14426	971	34	2	777	2	SLC15A4	12	129294519	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	19746868	129294519	4557376	133	76772											
DNAJC15	29103	broad.mit.edu	37	chr13	43643111	43643111	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctctagaacaagttatcaCagaaactgcaaagaagattt	18	9	6	8	0	2	4	1	0	1	4	2	4	2	4	1	0	3	2	1	0	7	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr13:43643111C>G	uc001uyy.2	+	3	607	c.206C>G	c.(205-207)ACA>AGA	p.T69R		NM_013238	NP_037370	Q9Y5T4	DJC15_HUMAN	DNAJ domain-containing	69						integral to membrane	heat shock protein binding				0		Lung NSC(96;4.3e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0737)		CAAGTTATCACAGAAACTGCA	0.308													4	90					0	0	0.000602	0	0		G	43643111	G	G	43643111	3	3	147	1	0	0	0	0	1	0	0	0	4640	478	17	5	216	5	DNAJC15	13	43643111	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08		43643111	71526767	134	76773											
ATP11A	23250	broad.mit.edu	37	chr13	113510249	113510249	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagcagatatgcaggactaCggtttaattatcgacggagc	12	10	11	8	3	1	1	1	0	0	1	2	4	1	3	0	3	4	3	0	3	4	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr13:113510249C>T	uc001vsi.3	+	20	2356	c.2268C>T	c.(2266-2268)TAC>TAT	p.Y756Y	ATP11A_uc001vsj.3_Silent_p.Y756Y|ATP11A_uc001vsm.1_Silent_p.Y632Y|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	756	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				TGCAGGACTACGGTTTAATTA	0.438													8	182					0	0	0.00308	0	0		T	113510249	T	T	113510249	2	4	147	1	0	0	0	0	0	0	0	1	1120	547	19	1		1	ATP11A	13	113510249	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	69867138	113510249	1659629	135	76774											
KLHL28	54813	broad.mit.edu	37	chr14	45414529	45414529	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttgatccaagactctaaTgcataaaaaacagtctcttc	15	12	4	10	0	2	2	0	1	2	1	5	2	3	2	1	0	3	1	1	0	6	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr14:45414529T>C	uc001wvq.2	-	2	849	c.603A>G	c.(601-603)GCA>GCG	p.A201A	KLHL28_uc001wvr.2_Silent_p.A201A|KLHL28_uc001wvt.3_Silent_p.A201A	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	201										ovary(1)	1						AAGACTCTAATGCATAAAAAA	0.373													7	191					0	0	0.00308	0	0		C	45414529	C	C	45414529	2	2	147	1	0	0	0	0	0	0	0	1	8398	1451	51	3		3	KLHL28	14	45414529	Silent	SNP	T	TCGA-CG-5717-01A-11D-1600-08		45414529	61935011	136	76775											
CGRRF1	10668	broad.mit.edu	37	chr14	55004881	55004881	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttggaaaaggtgggactctCtgaaagtgaagttgagccat	12	10	14	5	0	1	3	0	3	1	0	2	5	1	5	1	3	1	2	1	3	4	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr14:55004881C>G	uc001xay.2	+	6	870	c.779C>G	c.(778-780)TCT>TGT	p.S260C	CGRRF1_uc001xaz.2_RNA	NM_006568	NP_006559	Q99675	CGRF1_HUMAN	cell growth regulator with ring finger domain 1	260					cell cycle arrest|negative regulation of cell proliferation|response to stress		zinc ion binding			ovary(1)	1						GTGGGACTCTCTGAAAGTGAA	0.428													7	109					0	0	0.00308	0	0		G	55004881	G	G	55004881	3	3	147	1	0	0	0	0	1	0	0	0	3309	913	32	5	801	5	CGRRF1	14	55004881	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	9590352	55004881	52344659	137	76776											
WDHD1	11169	broad.mit.edu	37	chr14	55451447	55451447	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaatttatcttgccttcagCtgaaaacccaatccatgcaa	14	11	4	12	0	2	1	1	1	1	0	3	1	3	1	3	0	4	2	3	0	6	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr14:55451447C>G	uc001xbm.1	-	15	1978	c.1900G>C	c.(1900-1902)GCT>CCT	p.A634P	WDHD1_uc010aom.1_Missense_Mutation_p.A151P|WDHD1_uc001xbn.1_Missense_Mutation_p.A511P	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	634						cytoplasm|nucleoplasm	DNA binding			skin(1)	1						TTGCCTTCAGCTGAAAACCCA	0.308													5	92					0	0	0.000602	0	0		G	55451447	G	G	55451447	3	3	147	1	0	0	0	0	1	0	0	0	17297	797	28	5	1537	5	WDHD1	14	55451447	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	446566	55451447	51898093	138	76777											
FBXO34	55030	broad.mit.edu	37	chr14	55817527	55817527	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atctatgaaaataaaaagttCctgggatattgatgggagag	16	11	11	3	0	1	3	0	2	1	1	2	5	2	4	1	2	0	1	1	2	7	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr14:55817527C>G	uc001xbu.2	+	2	664	c.419C>G	c.(418-420)TCC>TGC	p.S140C	FBXO34_uc001xbv.2_RNA|FBXO34_uc010aoo.2_Missense_Mutation_p.S140C	NM_017943	NP_060413	Q9NWN3	FBX34_HUMAN	F-box only protein 34	140										ovary(2)|lung(2)|skin(1)	5						ATAAAAAGTTCCTGGGATATT	0.413													8	76					0	0	0.00308	0	0		G	55817527	G	G	55817527	3	3	147	1	0	0	0	0	1	0	0	0	5758	855	30	5	421	5	FBXO34	14	55817527	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	366080	55817527	51532013	139	76778											
SFRS5	6430	broad.mit.edu	37	chr14	70235352	70235352	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaagggatgcagatgatgCtgtgtatgagcttgatggaa	11	11	14	5	0	0	4	0	3	0	1	1	6	1	6	1	2	3	4	1	2	3	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr14:70235352C>G	uc001xll.2	+	4	1609	c.158C>G	c.(157-159)GCT>GGT	p.A53G	SFRS5_uc001xlm.2_RNA|SFRS5_uc001xln.1_Missense_Mutation_p.A53G|SFRS5_uc001xlo.2_Missense_Mutation_p.A53G|SFRS5_uc001xlp.2_Missense_Mutation_p.A53G|SFRS5_uc001xlq.2_Missense_Mutation_p.A50G	NM_006925	NP_008856	Q13243	SRSF5_HUMAN	splicing factor, arginine/serine-rich 5	53	RRM 1.				mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|protein binding|RNA binding				0				all cancers(60;0.00144)|BRCA - Breast invasive adenocarcinoma(234;0.0132)|OV - Ovarian serous cystadenocarcinoma(108;0.0154)		GCAGATGATGCTGTGTATGAG	0.413													9	286					0	0	0.008291	0	0		G	70235352	G	G	70235352	3	3	147	1	0	0	0	0	1	0	0	0	14205	797	28	5	164	5	SFRS5	14	70235352	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	14417825	70235352	37114188	140	76779											
ADAM20	8748	broad.mit.edu	37	chr14	70990979	70990979	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcataggtggaaactgtgTatcatcactgtctatcttat	10	16	7	8	0	5	0	3	0	3	0	6	1	5	1	0	2	1	1	0	2	5	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr14:70990979T>A	uc001xme.2	-	2	891	c.646A>T	c.(646-648)ACA>TCA	p.T216S		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	166					proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		GGAAACTGTGTATCATCACTG	0.358													8	205					0	0	0.004482	0	0		A	70990979	A	A	70990979	3	1	147	1	0	0	0	0	1	0	0	0	242	1638	57	5	1688	5	ADAM20	14	70990979	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	755627	70990979	36358561	141	76780											
ESRRB	2103	broad.mit.edu	37	chr14	76928915	76928915	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagtacagctgcccggccaCcaacgagtgcgagatcacca	11	5	11	14	3	1	2	1	1	0	1	1	4	1	2	4	1	5	2	4	1	2	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr14:76928915C>G	uc001xsq.1	+	3	492	c.425C>G	c.(424-426)ACC>AGC	p.T142S	ESRRB_uc001xsr.2_Missense_Mutation_p.T142S|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	142						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		TGCCCGGCCACCAACGAGTGC	0.632													5	75					0	0	0.000602	0	0		G	76928915	G	G	76928915	3	3	147	1	0	0	0	0	1	0	0	0	5269	507	18	5	431	5	ESRRB	14	76928915	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	5937936	76928915	30420625	142	76781											
ISM2	145501	broad.mit.edu	37	chr14	77948847	77948847	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccttttcctcccccttcTcccctggggccctgtctttt	0	16	5	20	0	2	0	0	0	2	0	6	0	5	0	8	2	0	0	8	2	0	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr14:77948847T>C	uc001xtz.2	-	4	865	c.791A>G	c.(790-792)GAG>GGG	p.E264G	ISM2_uc001xua.2_Intron|ISM2_uc001xty.2_Missense_Mutation_p.E176G|ISM2_uc010tvl.1_Missense_Mutation_p.E183G	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	264						extracellular region				skin(1)	1						ctcccccttctccccTGGGGC	0.313													9	111					0	0	0.006214	0	0		C	77948847	C	C	77948847	3	2	147	1	0	0	0	0	1	0	0	0	7877	1551	54	3	940	3	ISM2	14	77948847	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	1019932	77948847	29400693	143	76782											
GABRA5	2558	broad.mit.edu	37	chr15	27193231	27193231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctctgaagagaagacttctGaaagcaaaaagacttacaac	18	7	7	9	0	2	5	0	2	2	3	2	6	2	5	1	0	3	1	1	0	7	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr15:27193231G>A	uc001zbd.1	+	12	1579	c.1240G>A	c.(1240-1242)GAA>AAA	p.E414K	GABRA5_uc001zbe.1_RNA	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	414	Cytoplasmic (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GAAGACTTCTGAAAGCAAAAA	0.448													3	39					0	0	0.004672	0	0		A	27193231	A	A	27193231	3	1	147	1	0	0	0	0	1	0	0	0	6178	1291	45	4	1274	4	GABRA5	15	27193231	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08		27193231	75338161	144	76783											
HERC2	8924	broad.mit.edu	37	chr15	28421839	28421839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccagccactcaccttcatCggtcagagccagggtctgcg	7	8	11	15	2	4	1	3	0	1	1	5	1	4	1	4	2	4	0	4	2	0	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr15:28421839C>T	uc001zbj.2	-	62	9614	c.9508G>A	c.(9508-9510)GAT>AAT	p.D3170N		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3170					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TCACCTTCATCGGTCAGAGCC	0.468													6	280					0	0	0.00308	0	0		T	28421839	T	T	28421839	3	4	147	1	0	0	0	0	1	0	0	0	7074	884	31	1	5124	1	HERC2	15	28421839	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	1228608	28421839	74109553	145	76784											
OTUD7A	161725	broad.mit.edu	37	chr15	31795994	31795994	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaactcttccaggctctcGtacacggggtcctcagagtt	7	11	11	12	2	3	1	1	0	2	1	6	2	5	2	2	4	2	3	2	4	2	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr15:31795994G>A	uc001zfq.2	-	7	993	c.900C>T	c.(898-900)TAC>TAT	p.Y300Y	OTUD7A_uc001zfr.2_Silent_p.Y307Y	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	300	OTU.|Catalytic (By similarity).|TRAF-binding (By similarity).					cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		CCAGGCTCTCGTACACGGGGT	0.493													12	194					0	0	0.013537	0	0		A	31795994	A	A	31795994	2	1	147	1	0	0	0	0	0	0	0	1	11337	1140	40	1		1	OTUD7A	15	31795994	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	3374155	31795994	70735398	146	76785											
ACTC1	70	broad.mit.edu	37	chr15	35083462	35083462	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacacttcatgatgctattGtaagttgtttcatggatgcc	9	16	8	8	0	3	1	3	1	0	0	3	2	3	2	1	1	2	4	1	1	2	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr15:35083462G>A	uc001ziu.1	-	6	1086	c.843C>T	c.(841-843)TAC>TAT	p.Y281Y	uc001zit.1_Intron	NM_005159	NP_005150	P68032	ACTC_HUMAN	cardiac muscle alpha actin 1 proprotein	281					apoptosis|cardiac muscle tissue morphogenesis|cardiac myofibril assembly|muscle filament sliding|skeletal muscle thin filament assembly	actomyosin, actin part|cytosol|I band	ATP binding|ATPase activity|myosin binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(180;2.3e-08)		all cancers(64;5.83e-19)|GBM - Glioblastoma multiforme(113;1.98e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		TGATGCTATTGTAAGTTGTTT	0.338													5	295					0	0	0.000602	0	0		A	35083462	A	A	35083462	2	1	147	1	0	0	0	0	0	0	0	1	195	1372	48	4		4	ACTC1	15	35083462	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	3287468	35083462	67447930	147	76786											
PLCB2	5330	broad.mit.edu	37	chr15	40595516	40595516	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttggcaaacttcccaaaGcgagtatcccggatgctggt	10	10	10	11	2	1	0	0	0	1	0	3	2	3	1	2	3	3	3	2	3	3	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr15:40595516G>A	uc001zld.2	-	3	505	c.204C>T	c.(202-204)CGC>CGT	p.R68R	PLCB2_uc010bbo.2_Silent_p.R68R|PLCB2_uc010ucm.1_Silent_p.R68R|PLCB2_uc001zle.3_Silent_p.R68R	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	68					activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		ACTTCCCAAAGCGAGTATCCC	0.577													8	90					0	0	0.004482	0	0		A	40595516	A	A	40595516	2	1	147	1	0	0	0	0	0	0	0	1	12047	958	34	2		2	PLCB2	15	40595516	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	5512054	40595516	61935876	148	76787											
ZSCAN2	54993	broad.mit.edu	37	chr15	85164527	85164527	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctacgaatgtaaagaatgCggcgaaagctttagttacaa	15	9	9	8	3	0	1	0	0	0	1	0	3	0	1	1	1	4	3	1	1	9	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr15:85164527C>T	uc002bkr.2	+	3	1327	c.1101C>T	c.(1099-1101)TGC>TGT	p.C367C	ZSCAN2_uc010bmz.1_Silent_p.C365C|ZSCAN2_uc010bna.2_Silent_p.C217C|ZSCAN2_uc010uox.1_Intron|ZSCAN2_uc010uoy.1_Intron|ZSCAN2_uc010uoz.1_Intron	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	367	C2H2-type 6.				cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		GTAAAGAATGCGGCGAAAGCT	0.502													5	230					0	0	0.001168	0	0		T	85164527	T	T	85164527	2	4	147	1	0	0	0	0	0	0	0	1	18256	776	27	1		1	ZSCAN2	15	85164527	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	44569011	85164527	17366865	149	76788											
GPR139	124274	broad.mit.edu	37	chr16	20043247	20043247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctgccatggtgcggaacCgcttgctgatgaagcagtag	8	8	15	10	3	0	2	0	2	0	0	0	3	0	3	2	3	5	5	2	3	3	2	rs144836581		TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr16:20043247C>T	uc002dgu.1	-	2	1034	c.872G>A	c.(871-873)CGG>CAG	p.R291Q	GPR139_uc010vaw.1_Missense_Mutation_p.R198Q	NM_001002911	NP_001002911	Q6DWJ6	GP139_HUMAN	G protein-coupled receptor 139	291	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)	2						GGTGCGGAACCGCTTGCTGAT	0.502													14	153					0	0	0.007413	0	0		T	20043247	T	T	20043247	3	4	147	1	0	0	0	0	1	0	0	0	6663	652	23	1	193	1	GPR139	16	20043247	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08		20043247	70311506	150	76789											
SCNN1B	6338	broad.mit.edu	37	chr16	23388519	23388519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatctacagatgagcgtggCgcagagagagacctgcattg	12	7	14	8	2	1	5	0	1	1	4	1	7	1	5	1	1	3	2	1	1	1	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr16:23388519C>T	uc002dln.2	+	9	1480	c.1304C>T	c.(1303-1305)GCG>GTG	p.A435V		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	435	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	ATGAGCGTGGCGCAGAGAGAG	0.607													5	42					0	0	0.000602	0	0		T	23388519	T	T	23388519	3	4	147	1	0	0	0	0	1	0	0	0	13953	768	27	1	1334	1	SCNN1B	16	23388519	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	3345272	23388519	66966234	151	76790											
CORO1A	11151	broad.mit.edu	37	chr16	30199292	30199292	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaatccggtactttgagatCacttccgaggcccctttcct	7	13	7	14	2	2	1	2	1	0	1	5	3	5	1	5	2	1	1	5	2	2	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr16:30199292C>T	uc002dww.2	+	8	1013	c.891C>T	c.(889-891)ATC>ATT	p.I297I	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|CORO1A_uc010bzq.2_Silent_p.I297I|CORO1A_uc010bzr.2_Silent_p.I297I|CORO1A_uc002dwx.2_Silent_p.I191I|CORO1A_uc002dwy.1_3'UTR|LOC606724_uc002dwz.1_5'Flank	NM_007074	NP_009005	P31146	COR1A_HUMAN	coronin, actin binding protein, 1A	297					cell-substrate adhesion|innate immune response|leukocyte chemotaxis|negative regulation of actin nucleation|phagolysosome assembly|positive chemotaxis|regulation of cell shape|uropod organization	actin filament|cortical actin cytoskeleton|lamellipodium|phagocytic cup|phagocytic vesicle membrane	actin filament binding|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein homodimerization activity				0						ACTTTGAGATCACTTCCGAGG	0.597													5	136					0	0	0.001984	0	0		T	30199292	T	T	30199292	2	4	147	1	0	0	0	0	0	0	0	1	3756	816	29	4		4	CORO1A	16	30199292	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	6810773	30199292	60155461	152	76791											
SEPHS2	22928	broad.mit.edu	37	chr16	30456419	30456419	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	accaccgtttgcccaccggtCactgccgtccctccttcctc	4	10	6	21	3	1	0	1	0	0	0	5	0	4	0	8	1	2	1	8	1	0	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr16:30456419C>G	uc010ves.1	-	2	806	c.630G>C	c.(628-630)GTG>GTC	p.V210V	SEPHS2_uc002dyh.1_Silent_p.V153V|SEPHS2_uc010vet.1_Silent_p.V92V	NM_012248	NP_036380	Q99611	SPS2_HUMAN	selenophosphate synthetase 2	210					selenocysteine biosynthetic process		ATP binding|selenide, water dikinase activity			breast(2)	2						GCCCACCGGTCACTGCCGTCC	0.552													15	139					0	0	0.00499	0	0		G	30456419	G	G	30456419	2	3	147	1	0	0	0	0	0	0	0	1	14080	813	29	5		5	SEPHS2	16	30456419	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	257127	30456419	59898334	153	76792											
RPGRIP1L	23322	broad.mit.edu	37	chr16	53698873	53698873	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagcaatctgcactttcagCtgttgctcctttaacttcca	8	15	6	12	0	2	1	1	1	1	0	4	1	4	1	2	0	5	5	2	0	2	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr16:53698873C>G	uc002ehp.2	-	10	1216	c.1152G>C	c.(1150-1152)CAG>CAC	p.Q384H	RPGRIP1L_uc002eho.3_Missense_Mutation_p.Q384H|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.Q384H|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.Q384H|RPGRIP1L_uc010vgz.1_Missense_Mutation_p.Q384H	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	384	Potential.				negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				GCACTTTCAGCTGTTGCTCCT	0.438													11	103					0	0	0.008291	0	0		G	53698873	G	G	53698873	3	3	147	1	0	0	0	0	1	0	0	0	13575	796	28	5	2867	5	RPGRIP1L	16	53698873	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	23242454	53698873	36655880	154	76793											
GLG1	2734	broad.mit.edu	37	chr16	74527016	74527016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcaatcagcttttggCgggttgtaagtgcttctcga	6	13	13	9	2	2	0	1	0	1	0	3	1	2	0	1	3	2	5	1	3	2	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr16:74527016C>T	uc002fcy.3	-	7	1123	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H	GLG1_uc002fcx.2_Missense_Mutation_p.R358H|GLG1_uc002fcw.3_Missense_Mutation_p.R347H|GLG1_uc002fcz.3_Intron	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	358	Cys-rich GLG1 5.|Extracellular (Potential).					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						CAGCTTTTGGCGGGTTGTAAG	0.443													4	181					0	0	0.009096	0	0		T	74527016	T	T	74527016	3	4	147	1	0	0	0	0	1	0	0	0	6451	768	27	1	2626	1	GLG1	16	74527016	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	20828143	74527016	15827737	155	76794											
OR1A1	8383	broad.mit.edu	37	chr17	3119403	3119403	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccccacactctgctcacAgctagtctgtccttctgtgg	5	12	7	17	0	4	0	1	0	3	0	6	0	6	0	3	1	2	2	3	1	1	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr17:3119403A>G	uc010vrc.1	+	1	489	c.489A>G	c.(487-489)ACA>ACG	p.T163T		NM_014565	NP_055380	Q9P1Q5	OR1A1_HUMAN	olfactory receptor, family 1, subfamily A,	163	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CTCTGCTCACAGCTAGTCTGT	0.483													6	159					0	0	0.001984	0	0		G	3119403	G	G	3119403	2	3	147	1	0	0	0	0	0	0	0	1	10968	175	7	3		3	OR1A1	17	3119403	Silent	SNP	A	TCGA-CG-5717-01A-11D-1600-08		3119403	78075807	156	76795											
TP53	7157	broad.mit.edu	37	chr17	7578403	7578403	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcgctcatggtgggggCagcgcctcacaacctccgtc	7	6	13	15	3	2	0	2	0	0	0	4	0	3	0	3	3	4	3	3	3	1	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr17:7578403C>A	uc002gim.2	-	5	721	c.527G>T	c.(526-528)TGC>TTC	p.C176F	TP53_uc002gig.1_Missense_Mutation_p.C176F|TP53_uc002gih.2_Missense_Mutation_p.C176F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C44F|TP53_uc010cng.1_Missense_Mutation_p.C44F|TP53_uc002gii.1_Missense_Mutation_p.C44F|TP53_uc010cnh.1_Missense_Mutation_p.C176F|TP53_uc010cni.1_Missense_Mutation_p.C176F|TP53_uc002gij.2_Missense_Mutation_p.C176F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C83F|TP53_uc002gio.2_Missense_Mutation_p.C44F|TP53_uc010vug.1_Missense_Mutation_p.C137F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	176	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	CP -> FS (in a sporadic cancer; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in sporadic cancers; somatic mutation).|C -> F (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C176F(102)|p.C176Y(56)|p.C176S(19)|p.C176W(11)|p.C176R(8)|p.C176fs*71(7)|p.0?(7)|p.C176*(6)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.C176G(3)|p.C176fs*5(3)|p.R175_E180delRCPHHE(3)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.C176fs*65(1)|p.C176_P177delCP(1)|p.V173fs*69(1)|p.C176fs*68(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R174_H178>S(1)|p.C44Y(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R42fs*24(1)|p.C83Y(1)|p.C176fs*72(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R174fs*70(1)|p.C176del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.C176fs*6(1)|p.R174fs*3(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ATGGTGGGGGCAGCGCCTCAC	0.652		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			7	64					2.0095e-06	2.20219e-06	0.001984	1	0		A	7578403	A	A	7578403	3	1	147	1	0	0	0	0	1	0	0	0	16407	710	25	5	771	5	TP53	17	7578403	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	4459000	7578403	73616807	157	76796											
CORO6	84940	broad.mit.edu	37	chr17	27944627	27944627	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctcatcccctcgtgggccGcaaacctctcctggggggag	5	7	13	16	2	2	0	1	0	1	0	5	1	3	1	6	4	1	1	6	4	1	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr17:27944627G>A	uc002hel.2	-	5	646	c.644C>T	c.(643-645)GCG>GTG	p.A215V	CORO6_uc002hem.2_Intron|CORO6_uc002hen.2_5'UTR	NM_032854	NP_116243	Q6QEF8	CORO6_HUMAN	coronin 6	215					actin cytoskeleton organization	actin cytoskeleton	actin filament binding				0						CTCGTGGGCCGCAAACCTCTC	0.662													3	13					0	0	0.004672	0	0		A	27944627	A	A	27944627	3	1	147	1	0	0	0	0	1	0	0	0	3761	1087	38	1	798	1	CORO6	17	27944627	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	20366224	27944627	53250583	158	76797											
AMAC1	146861	broad.mit.edu	37	chr17	33520885	33520885	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccctggctctcaaggcAgagagtgaggacggcggagc	10	4	17	10	2	1	3	1	1	1	2	2	7	1	5	1	5	1	2	1	5	1	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr17:33520885A>G	uc002hjd.2	-	1	528	c.442T>C	c.(442-444)TGC>CGC	p.C148R		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	148	DUF6 1.					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		CTCTCAAGGCAGAGAGTGAGG	0.577													14	189					0	0	0.007413	0	0		G	33520885	G	G	33520885	3	3	147	1	0	0	0	0	1	0	0	0	559	188	7	3	578	3	AMAC1	17	33520885	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	5576258	33520885	47674325	159	76798											
GAS2L2	246176	broad.mit.edu	37	chr17	34073002	34073002	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgagcagggggcagccggAtggggatcttggttaggcct	6	7	20	8	2	1	0	0	0	1	0	1	3	1	2	2	8	2	3	2	8	1	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr17:34073002A>T	uc002hjv.1	-	6	1542	c.1514T>A	c.(1513-1515)ATC>AAC	p.I505N		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	505					cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GGGCAGCCGGATGGGGATCTT	0.607													6	142					0	0	0.001984	0	0		T	34073002	T	T	34073002	3	4	147	1	0	0	0	0	1	0	0	0	6262	333	12	5	1132	5	GAS2L2	17	34073002	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	552117	34073002	47122208	160	76799											
SC65	10609	broad.mit.edu	37	chr17	39967493	39967493	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcttcgggttcctctggAggaaggtgtaggccgccgcc	4	9	16	12	4	1	0	0	0	1	0	3	2	2	2	4	5	1	3	4	5	2	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr17:39967493A>C	uc002hxt.2	-	2	790	c.506T>G	c.(505-507)CTC>CGC	p.L169R	FKBP10_uc002hxv.2_5'Flank|SC65_uc002hxu.2_Missense_Mutation_p.L260R	NM_006455	NP_006446	Q92791	SC65_HUMAN	synaptonemal complex protein SC65	169					synaptonemal complex assembly	nucleolus|synaptonemal complex	binding				0		Breast(137;0.000162)		BRCA - Breast invasive adenocarcinoma(366;0.149)		GTTCCTCTGGAGGAAGGTGTA	0.672													11	150					0	0	0.001855	0	0		C	39967493	C	C	39967493	3	2	147	1	0	0	0	0	1	0	0	0	13892	304	11	5	835	5	SC65	17	39967493	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	5894491	39967493	41227717	161	76800											
RNF157	114804	broad.mit.edu	37	chr17	74157975	74157975	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagcgcagcgtgtctgcacAggtgttacagaggcagaggt	9	8	16	8	2	1	2	0	0	1	2	1	2	1	2	0	3	4	5	0	3	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr17:74157975A>G	uc002jqz.2	-	10	970	c.901T>C	c.(901-903)TGT>CGT	p.C301R	RNF157_uc002jra.2_Missense_Mutation_p.C301R	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	301	RING-type.						zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			GTGTCTGCACAGGTGTTACAG	0.607													8	166					0	0	0.00308	0	0		G	74157975	G	G	74157975	3	3	147	1	0	0	0	0	1	0	0	0	13479	188	7	3	1178	3	RNF157	17	74157975	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	34190482	74157975	7037235	162	76801											
APCDD1	147495	broad.mit.edu	37	chr18	10471557	10471557	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcaggcccagagttcatCacaaggtcctacagattcta	12	9	9	11	0	4	2	3	0	1	2	5	2	5	2	2	3	1	1	2	3	3	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr18:10471557C>A	uc002kom.3	+	3	627	c.273C>A	c.(271-273)ATC>ATA	p.I91I		NM_153000	NP_694545	Q8J025	APCD1_HUMAN	adenomatosis polyposis coli down-regulated 1	91	Extracellular (Potential).				hair follicle development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to plasma membrane	Wnt-protein binding				0				READ - Rectum adenocarcinoma(15;0.08)		CAGAGTTCATCACAAGGTCCT	0.438													8	82					5.18039e-06	5.62576e-06	0.00308	1	0		A	10471557	A	A	10471557	2	1	147	1	0	0	0	0	0	0	0	1	765	816	29	5		5	APCDD1	18	10471557	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08		10471557	67605691	163	76802											
SERPINB11	89778	broad.mit.edu	37	chr18	61378588	61378588	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgcttcattttagtcataCtgtagactcattaaaaccag	12	14	7	8	0	3	1	3	0	0	1	3	1	3	1	1	1	3	2	1	1	5	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr18:61378588C>A	uc002ljk.3	+	3	250	c.188C>A	c.(187-189)ACT>AAT	p.T63N	SERPINB11_uc010xes.1_Translation_Start_Site|SERPINB11_uc010dqd.2_Translation_Start_Site|SERPINB11_uc002ljj.3_Translation_Start_Site|SERPINB11_uc010dqe.2_Translation_Start_Site|SERPINB11_uc010dqf.2_Intron	NM_080475	NP_536723	Q96P15	SPB11_HUMAN	serpin peptidase inhibitor, clade B, member 11	63					regulation of proteolysis	cytoplasm	serine-type endopeptidase inhibitor activity			breast(1)	1		Esophageal squamous(42;0.129)				TTTAGTCATACTGTAGACTCA	0.333													10	221					3.86212e-05	4.11959e-05	0.008291	1	0		A	61378588	A	A	61378588	3	1	147	1	0	0	0	0	1	0	0	0	14123	565	20	5	194	5	SERPINB11	18	61378588	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	50907031	61378588	16698660	164	76803											
EBI3	10148	broad.mit.edu	37	chr19	4236942	4236942	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctctcaggtggggcccAttgaagccacgtccttcatc	6	12	9	14	1	4	1	2	1	2	0	7	1	5	1	3	3	1	0	3	3	1	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:4236942A>T	uc002lzu.2	+	5	555	c.547A>T	c.(547-549)ATT>TTT	p.I183F		NM_005755	NP_005746	Q14213	IL27B_HUMAN	Epstein-Barr virus induced 3 precursor	183	Fibronectin type-III 2.				humoral immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of interferon-gamma biosynthetic process|T-helper 1 type immune response	extracellular space|plasma membrane	cytokine activity|cytokine receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0336)|STAD - Stomach adenocarcinoma(1328;0.18)		GGTGGGGCCCATTGAAGCCAC	0.602													4	68					0	0	0.00308	0	0		T	4236942	T	T	4236942	3	4	147	1	0	0	0	0	1	0	0	0	4889	217	8	5	565	5	EBI3	19	4236942	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08		4236942	54892041	165	76804											
PEX11G	92960	broad.mit.edu	37	chr19	7542209	7542209	+	Frame_Shift_Del	DEL	C	-	-																															agcggccggcccacagcacgCcccggggcagccagtgcacg																										TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:7542209delC	uc002mgk.1	-	5	614	c.605delG	c.(604-606)GGCfs	p.G202fs	PEX11G_uc002mgl.1_Frame_Shift_Del_p.G132fs	NM_080662	NP_542393	Q96HA9	PX11C_HUMAN	peroxisomal biogenesis factor 11 gamma	202	Lumenal (Potential).					integral to membrane|peroxisomal membrane					0						CCACAGCACGCCCCGGGGCAG	0.711													2	4	---	---	---	---						.	-	7542209	-	-	7542209	7	5	147	1	0	1	0	1	0	0	0	0	11758	739	26	0	124	0	PEX11G	19	7542209	Frame_Shift_Del	DEL	C	TCGA-CG-5717-01A-11D-1600-08	3305267	7542209	51586774	166	76805											
MUC16	94025	broad.mit.edu	37	chr19	9015743	9015743	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcaccaggagagggccagCagctgtagtgggaattgaaa	12	5	16	8	1	0	2	0	1	0	1	0	4	0	3	2	4	2	4	2	4	3	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:9015743C>A	uc002mkp.2	-	29	38284	c.38080G>T	c.(38080-38082)GCT>TCT	p.A12694S	MUC16_uc010xki.1_5'Flank	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12696	Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGAGGGCCAGCAGCTGTAGTG	0.428													6	150					3.59834e-05	3.85536e-05	0.001168	1	0		A	9015743	A	A	9015743	3	1	147	1	0	0	0	0	1	0	0	0	9991	710	25	5	5667	5	MUC16	19	9015743	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	1473534	9015743	50113240	167	76806											
OR7D4	125958	broad.mit.edu	37	chr19	9325461	9325461	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctgcagttcaggatcatctGagagtcccaggaggagaaat	12	8	13	8	0	3	2	2	1	1	2	4	6	4	4	1	3	1	3	1	3	1	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:9325461G>C	uc002mla.1	-	1	53	c.53C>G	c.(52-54)TCA>TGA	p.S18*		NM_001005191	NP_001005191	Q8NG98	OR7D4_HUMAN	olfactory receptor, family 7, subfamily D,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						AGGATCATCTGAGAGTCCCAG	0.498													10	149					0	0	0.006214	0	0		C	9325461	C	C	9325461	4	2	147	1	0	0	0	0	0	1	0	0	11239	1294	45	5	889	5	OR7D4	19	9325461	Nonsense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	309718	9325461	49803522	168	76807											
SLC1A6	6511	broad.mit.edu	37	chr19	15073090	15073090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggcatggaggcacccGgctcagacccgttctctgtc	7	7	14	13	2	2	1	1	0	1	1	4	4	2	3	2	5	0	4	2	5	0	1	rs141656938	byFrequency	TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:15073090G>A	uc002naa.1	-	5	667	c.659C>T	c.(658-660)CCG>CTG	p.P220L	SLC1A6_uc010dzu.1_Missense_Mutation_p.P220L|SLC1A6_uc010xod.1_Missense_Mutation_p.P156L|SLC1A6_uc002nab.2_Missense_Mutation_p.P220L|SLC1A6_uc002nac.2_Missense_Mutation_p.P220L	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	220	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	GGAGGCACCCGGCTCAGACCC	0.542													11	173					0	0	0.001855	0	0		A	15073090	A	A	15073090	3	1	147	1	0	0	0	0	1	0	0	0	14461	1116	39	1	1055	1	SLC1A6	19	15073090	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	5747629	15073090	44055893	169	76808											
GPATCH1	55094	broad.mit.edu	37	chr19	33579069	33579069	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaagaaaccaatccctcttCaggatcagactgtcagagat	15	8	7	11	0	4	3	3	0	1	3	5	5	5	4	2	1	1	0	2	1	3	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:33579069C>T	uc002nug.1	+	2	417	c.103C>T	c.(103-105)CAG>TAG	p.Q35*		NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	35						catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					AATCCCTCTTCAGGATCAGAC	0.363													5	56					0	0	0.000602	0	0		T	33579069	T	T	33579069	4	4	147	1	0	0	0	0	0	1	0	0	6605	827	29	4	109	4	GPATCH1	19	33579069	Nonsense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	18505979	33579069	25549914	170	76809											
LSM14A	26065	broad.mit.edu	37	chr19	34710403	34710403	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgaaatttgagaaagactttGactttgaaagtgcaaatgca	16	12	9	4	0	0	5	0	4	0	2	0	6	0	5	0	0	2	2	0	0	4	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:34710403G>C	uc002nvb.3	+	7	1085	c.889G>C	c.(889-891)GAC>CAC	p.D297H	LSM14A_uc002nva.3_Missense_Mutation_p.D297H|LSM14A_uc010xru.1_Missense_Mutation_p.D256H|LSM14A_uc002nvc.3_Missense_Mutation_p.D103H	NM_001114093	NP_001107565	Q8ND56	LS14A_HUMAN	LSM14 homolog A isoform a	297	DFDF.				cytoplasmic mRNA processing body assembly|multicellular organismal development|regulation of translation	cytoplasmic mRNA processing body|intracellular membrane-bounded organelle|stress granule				skin(1)	1	Esophageal squamous(110;0.162)					GAAAGACTTTGACTTTGAAAG	0.418													6	160					0	0	0.001168	0	0		C	34710403	C	C	34710403	3	2	147	1	0	0	0	0	1	0	0	0	9072	1290	45	5	915	5	LSM14A	19	34710403	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	1131334	34710403	24418580	171	76810											
UBA2	10054	broad.mit.edu	37	chr19	34949798	34949798	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgtgcggctgaatgtccAtaaagtgactgttctcacct	9	12	10	10	1	1	2	1	2	1	0	3	3	2	2	2	1	1	2	2	1	3	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:34949798A>C	uc002nvk.2	+	13	1440	c.1370A>C	c.(1369-1371)CAT>CCT	p.H457P	UBA2_uc010xrx.1_Missense_Mutation_p.H330P|UBA2_uc002nvl.2_Missense_Mutation_p.H361P	NM_005499	NP_005490	Q9UBT2	SAE2_HUMAN	SUMO-1 activating enzyme subunit 2	457					protein sumoylation	nucleus	ATP binding|enzyme activator activity|ligase activity|metal ion binding|protein heterodimerization activity|SUMO activating enzyme activity			ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			CTGAATGTCCATAAAGTGACT	0.458													8	135					0	0	0.00308	0	0		C	34949798	C	C	34949798	3	2	147	1	0	0	0	0	1	0	0	0	16854	217	8	5	1420	5	UBA2	19	34949798	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	239395	34949798	24179185	172	76811											
ZNF345	25850	broad.mit.edu	37	chr19	37369066	37369066	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagccttactcagcatcAgagaattcatacaggtgaga	14	9	8	10	0	4	2	4	1	0	2	4	4	4	2	1	1	4	1	1	1	4	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:37369066A>C	uc002oex.2	+	3	1712	c.1334A>C	c.(1333-1335)CAG>CCG	p.Q445P	ZNF345_uc002oey.3_Missense_Mutation_p.Q445P|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	445	C2H2-type 14.				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ACTCAGCATCAGAGAATTCAT	0.418													8	164					0	0	0.00308	0	0		C	37369066	C	C	37369066	3	2	147	1	0	0	0	0	1	0	0	0	17884	188	7	5	1336	5	ZNF345	19	37369066	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	2419268	37369066	21759917	173	76812											
ZNF284	342909	broad.mit.edu	37	chr19	44585178	44585178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttgttgtaggaggcagtgaCcttcaaggatgtggctgtgg	7	12	17	5	0	1	1	1	1	0	0	1	3	1	3	1	5	0	5	1	5	2	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:44585178C>T	uc002oyg.1	+	3	242	c.26C>T	c.(25-27)ACC>ATC	p.T9I	ZNF284_uc010ejd.2_RNA	NM_001037813	NP_001032902	Q2VY69	ZN284_HUMAN	zinc finger protein 284	9	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				GAGGCAGTGACCTTCAAGGAT	0.527													7	130					0	0	0.010729	0	0		T	44585178	T	T	44585178	3	4	147	1	0	0	0	0	1	0	0	0	17846	507	18	4	32	4	ZNF284	19	44585178	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	7216112	44585178	14543805	174	76813											
CRX	1406	broad.mit.edu	37	chr19	48342695	48342695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caagaggaaggcgggcacgtCcccaagaccctccacagatg	12	3	12	14	2	0	3	0	0	0	3	2	4	2	4	4	3	0	1	4	3	3	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:48342695C>T	uc002phq.3	+	4	575	c.371C>T	c.(370-372)TCC>TTC	p.S124F		NM_000554	NP_000545	O43186	CRX_HUMAN	cone-rod homeobox protein	124					organ morphogenesis|response to stimulus|visual perception		leucine zipper domain binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2		all_cancers(25;2.76e-09)|all_epithelial(76;7.01e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000266)|all cancers(93;0.000788)|Epithelial(262;0.0226)|GBM - Glioblastoma multiforme(486;0.0521)		GCGGGCACGTCCCCAAGACCC	0.552													11	91					0	0	0.010729	0	0		T	48342695	T	T	48342695	3	4	147	1	0	0	0	0	1	0	0	0	3905	855	30	4	381	4	CRX	19	48342695	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	3757517	48342695	10786288	175	76814											
IZUMO1	284359	broad.mit.edu	37	chr19	49244646	49244646	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cattttctcgggctgcagagGctggaggcttatggacgact	7	11	14	9	2	1	1	0	0	1	1	2	4	1	3	0	5	1	4	0	5	1	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:49244646G>T	uc002pkj.2	-	9	1392	c.844C>A	c.(844-846)CCT>ACT	p.P282T	RASIP1_uc002pki.2_5'Flank|IZUMO1_uc010eme.2_RNA|IZUMO1_uc010emf.2_RNA	NM_182575	NP_872381	Q8IYV9	IZUM1_HUMAN	izumo sperm-egg fusion 1 precursor	282	Extracellular (Potential).				fusion of sperm to egg plasma membrane	integral to membrane				ovary(1)	1		all_lung(116;0.000156)|Lung NSC(112;0.000251)|all_epithelial(76;0.000761)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000348)|Epithelial(262;0.019)|GBM - Glioblastoma multiforme(486;0.022)		GGCTGCAGAGGCTGGAGGCTT	0.552													4	26					8.12818e-05	8.59368e-05	0.001984	1	0		T	49244646	T	T	49244646	3	4	147	1	0	0	0	0	1	0	0	0	7949	1203	42	5	216	5	IZUMO1	19	49244646	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	901951	49244646	9884337	176	76815											
TULP2	7288	broad.mit.edu	37	chr19	49391498	49391498	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtagactcagaggcctctctCttcttttccaagtcttcttc	6	16	6	13	0	6	2	1	0	5	2	9	2	7	2	2	1	0	1	2	1	2	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:49391498C>T	uc002pkz.2	-	8	808	c.657G>A	c.(655-657)AAG>AAA	p.K219K		NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	219					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		AGGCCTCTCTCTTCTTTTCCA	0.547													6	86					0	0	0.001984	0	0		T	49391498	T	T	49391498	2	4	147	1	0	0	0	0	0	0	0	1	16800	912	32	4		4	TULP2	19	49391498	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	146852	49391498	9737485	177	76816											
CPT1C	126129	broad.mit.edu	37	chr19	50210790	50210790	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagctggtttgacaaatcCttcaccctaatcgtcttctc	9	13	6	13	1	3	1	1	1	2	0	6	2	4	1	2	1	1	2	2	1	2	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:50210790C>T	uc002ppj.2	+	12	1564	c.1359C>T	c.(1357-1359)TCC>TCT	p.S453S	CPT1C_uc002ppl.3_Silent_p.S419S|CPT1C_uc002ppi.2_Silent_p.S370S|CPT1C_uc002ppk.2_Silent_p.S442S|CPT1C_uc010eng.2_Silent_p.S453S|CPT1C_uc010enh.2_Silent_p.S453S|CPT1C_uc010ybc.1_Silent_p.S324S|CPT1C_uc010eni.1_Silent_p.S110S	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	453	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		TTGACAAATCCTTCACCCTAA	0.592													4	79					0	0	0.009096	0	0		T	50210790	T	T	50210790	2	4	147	1	0	0	0	0	0	0	0	1	3836	668	24	4		4	CPT1C	19	50210790	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	819292	50210790	8918193	178	76817											
ZNF611	81856	broad.mit.edu	37	chr19	53209471	53209471	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttctcaacagtgtgacaTctatcatggcatgcaaggta	11	12	10	8	0	3	1	2	1	2	0	4	1	3	1	0	3	2	4	0	3	4	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:53209471T>C	uc002pzz.2	-	7	1154	c.837A>G	c.(835-837)AGA>AGG	p.R279R	ZNF611_uc010eqc.2_Silent_p.R209R|ZNF611_uc010ydo.1_Silent_p.R209R|ZNF611_uc010ydr.1_Silent_p.R210R|ZNF611_uc010ydp.1_Silent_p.R279R|ZNF611_uc010ydq.1_Silent_p.R279R|ZNF611_uc002qaa.3_Silent_p.R209R	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	279	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		CAGTGTGACATCTATCATGGC	0.418													5	368					0	0	0.000602	0	0		C	53209471	C	C	53209471	2	2	147	1	0	0	0	0	0	0	0	1	18062	1432	50	3		3	ZNF611	19	53209471	Silent	SNP	T	TCGA-CG-5717-01A-11D-1600-08	2998681	53209471	5919512	179	76818											
ZNF347	84671	broad.mit.edu	37	chr19	53644386	53644386	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacatttgtaaggtttttcTccagtatggatgacctgatg	9	17	9	6	0	1	2	0	2	1	0	2	3	1	3	2	2	1	3	2	2	3	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:53644386T>A	uc002qbb.1	-	5	1764	c.1695A>T	c.(1693-1695)GGA>GGT	p.G565G	ZNF347_uc010eql.1_Silent_p.G566G|ZNF347_uc002qbc.1_Silent_p.G566G	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	565					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		AAGGTTTTTCTCCAGTATGGA	0.408													7	340					0	0	0.00308	0	0		A	53644386	A	A	53644386	2	1	147	1	0	0	0	0	0	0	0	1	17886	1538	54	5		5	ZNF347	19	53644386	Silent	SNP	T	TCGA-CG-5717-01A-11D-1600-08	434915	53644386	5484597	180	76819											
NLRP5	126206	broad.mit.edu	37	chr19	56538777	56538777	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgttcaccctcatacgcaGtctgctgaggaaggtcctgc	7	10	10	14	2	3	1	2	1	1	0	5	2	5	2	3	2	3	3	3	2	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:56538777G>C	uc002qmj.2	+	7	1178	c.1178G>C	c.(1177-1179)AGT>ACT	p.S393T	NLRP5_uc002qmi.2_Missense_Mutation_p.S374T	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	393	NACHT.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		CTCATACGCAGTCTGCTGAGG	0.552													6	50					0	0	0.001168	0	0		C	56538777	C	C	56538777	3	2	147	1	0	0	0	0	1	0	0	0	10499	1029	36	5	1204	5	NLRP5	19	56538777	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	2894391	56538777	2590206	181	76820											
ZNF667	63934	broad.mit.edu	37	chr19	56953014	56953014	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgattggcggccgaaaacTttactacatttattgcattt	12	15	7	7	2	0	1	0	1	0	0	0	2	0	1	1	2	4	1	1	2	6	8			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:56953014T>G	uc002qnd.2	-	5	1512	c.1350A>C	c.(1348-1350)AAA>AAC	p.K450N	ZNF667_uc010etl.2_Missense_Mutation_p.K232N|ZNF667_uc002qne.2_Missense_Mutation_p.K450N|ZNF667_uc010etm.2_Missense_Mutation_p.K393N	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	450	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		GGCCGAAAACTTTACTACATT	0.373													8	106					0	0	0.00308	0	0		G	56953014	G	G	56953014	3	3	147	1	0	0	0	0	1	0	0	0	18099	1606	56	5	486	5	ZNF667	19	56953014	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	414237	56953014	2175969	182	76821											
ZNF667	63934	broad.mit.edu	37	chr19	56953179	56953179	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataagggatgaatgccgattGcagaccttctcacatttatt	12	13	8	8	1	1	2	1	1	1	1	2	4	1	3	2	1	2	1	2	1	3	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:56953179G>A	uc002qnd.2	-	5	1347	c.1185C>T	c.(1183-1185)TGC>TGT	p.C395C	ZNF667_uc010etl.2_Silent_p.C177C|ZNF667_uc002qne.2_Silent_p.C395C|ZNF667_uc010etm.2_Silent_p.C338C	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	395	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		AATGCCGATTGCAGACCTTCT	0.363													5	126					0	0	0.000602	0	0		A	56953179	A	A	56953179	2	1	147	1	0	0	0	0	0	0	0	1	18099	1311	46	2		2	ZNF667	19	56953179	Silent	SNP	G	TCGA-CG-5717-01A-11D-1600-08	165	56953179	2175804	183	76822											
ZNF418	147686	broad.mit.edu	37	chr19	58439142	58439142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctcaacactgcttctatagGgtttctctccaaggtactga	9	13	7	12	0	3	1	1	1	2	0	5	1	4	1	2	2	3	3	2	2	5	5			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr19:58439142G>A	uc002qqs.1	-	4	699	c.407C>T	c.(406-408)CCC>CTC	p.P136L	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Missense_Mutation_p.P51L	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	136					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0158)		GCTTCTATAGGGTTTCTCTCC	0.438													7	302					0	0	0.001984	0	0		A	58439142	A	A	58439142	3	1	147	1	0	0	0	0	1	0	0	0	17920	1232	43	4	1627	4	ZNF418	19	58439142	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	1485963	58439142	689841	184	76823											
SIRPA	140885	broad.mit.edu	37	chr20	1902143	1902143	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcttctcacccagagacaTcaccctgaaatggttcaaaa	13	8	7	13	1	3	2	3	1	1	1	4	3	3	2	2	2	0	2	2	2	3	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr20:1902143T>G	uc002wfq.2	+	4	899	c.539T>G	c.(538-540)ATC>AGC	p.I180S	SIRPA_uc010zps.1_Missense_Mutation_p.I160S|SIRPA_uc002wfr.2_Missense_Mutation_p.I180S|SIRPA_uc002wfs.2_Missense_Mutation_p.I180S|SIRPA_uc002wft.2_Missense_Mutation_p.I180S	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	180	Ig-like C1-type 1.|Extracellular (Potential).				blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		CCCAGAGACATCACCCTGAAA	0.592													3	92					0	0	0.004482	0	0		G	1902143	G	G	1902143	3	3	147	1	0	0	0	0	1	0	0	0	14357	1435	50	5	549	5	SIRPA	20	1902143	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08		1902143	61123377	185	76824											
SIGLEC1	6614	broad.mit.edu	37	chr20	3686499	3686499	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catggccatgtggagggtctCcaggtggccgacgccggtgg	5	7	18	11	3	1	0	0	0	1	0	2	2	1	1	4	7	0	0	4	7	0	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr20:3686499C>A	uc002wja.2	-	3	598	c.598G>T	c.(598-600)GAG>TAG	p.E200*	SIGLEC1_uc002wiz.3_Nonsense_Mutation_p.E200*|SIGLEC1_uc002wjc.2_Nonsense_Mutation_p.E111*	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	200	Ig-like C2-type 1.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						TGGAGGGTCTCCAGGTGGCCG	0.642													8	191					0.000274275	0.00028745	0.004482	1	0		A	3686499	A	A	3686499	4	1	147	1	0	0	0	0	0	1	0	0	14330	864	30	5	4607	5	SIGLEC1	20	3686499	Nonsense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	1784356	3686499	59339021	186	76825											
MAVS	57506	broad.mit.edu	37	chr20	3842020	3842020	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccactggagccaccgtcaCttcctgctgagaggccaggg	8	6	12	15	1	1	1	1	1	0	1	2	3	2	2	5	3	2	1	5	3	0	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr20:3842020C>G	uc002wjw.3	+	4	503	c.334C>G	c.(334-336)CTT>GTT	p.L112V	MAVS_uc010zqn.1_Intron|MAVS_uc002wjx.3_5'UTR|MAVS_uc002wjy.3_Intron	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	112	Pro-rich.|Cytoplasmic (Probable).				activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0						GCCACCGTCACTTCCTGCTGA	0.537													52	139					0	0	0.01441	0	0		G	3842020	G	G	3842020	3	3	147	1	0	0	0	0	1	0	0	0	9356	565	20	5	344	5	MAVS	20	3842020	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	155521	3842020	59183500	187	76826											
PRNP	5621	broad.mit.edu	37	chr20	4680317	4680317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actatgaggaccgttactatCgtgaaaacatgcaccgttac	13	10	8	10	3	0	2	0	2	0	0	1	3	0	3	2	1	4	3	2	1	6	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr20:4680317C>T	uc002wku.2	+	2	814	c.451C>T	c.(451-453)CGT>TGT	p.R151C	PRNP_uc002wkv.2_Missense_Mutation_p.R151C|PRNP_uc002wkw.2_Missense_Mutation_p.R151C|PRNP_uc002wkx.2_Missense_Mutation_p.R151C|PRNP_uc002wkt.1_Missense_Mutation_p.R121C|PRNP_uc002wky.2_Missense_Mutation_p.R151C|PRNP_uc010gbe.1_Missense_Mutation_p.R151C	NM_001080122	NP_001073591	P04156	PRIO_HUMAN	prion protein preproprotein	151	Interaction with GRB2, ERI3 and SYN1 (By similarity).				axon guidance|cell cycle arrest|cellular copper ion homeostasis|metabolic process|negative regulation of activated T cell proliferation|negative regulation of calcineurin-NFAT signaling pathway|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-2 production|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell receptor signaling pathway|protein homooligomerization|response to oxidative stress	anchored to membrane|endoplasmic reticulum|extrinsic to membrane|Golgi apparatus|membrane raft|nucleus|plasma membrane	copper ion binding|identical protein binding|microtubule binding			central_nervous_system(1)	1					Tetracycline(DB00759)	CCGTTACTATCGTGAAAACAT	0.527													50	95					0	0	0.01441	0	0		T	4680317	T	T	4680317	3	4	147	1	0	0	0	0	1	0	0	0	12566	884	31	1	453	1	PRNP	20	4680317	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	838297	4680317	58345203	188	76827											
PHF20	51230	broad.mit.edu	37	chr20	34430649	34430649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaggaaagagggcttgcatGaagaggatggatcttctgtg	11	10	16	4	0	2	4	0	2	2	2	2	7	2	7	0	4	1	2	0	4	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr20:34430649G>A	uc002xek.1	+	3	349	c.238G>A	c.(238-240)GAA>AAA	p.E80K	PHF20_uc002xei.1_Missense_Mutation_p.E80K|PHF20_uc010gfo.1_Missense_Mutation_p.E80K|PHF20_uc002xej.1_5'UTR|PHF20_uc002xel.1_5'UTR	NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	80					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					GGGCTTGCATGAAGAGGATGG	0.433													8	101					0	0	0.00308	0	0		A	34430649	A	A	34430649	3	1	147	1	0	0	0	0	1	0	0	0	11850	1291	45	4	244	4	PHF20	20	34430649	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	29750332	34430649	28594871	189	76828											
CHD6	84181	broad.mit.edu	37	chr20	40050063	40050063	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcccatctttgcttattgAgatggtaataacatcttttc	9	18	6	8	0	2	1	0	1	2	1	4	2	3	1	1	1	2	3	1	1	3	8			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr20:40050063A>G	uc002xka.1	-	31	5390	c.5212T>C	c.(5212-5214)TCA>CCA	p.S1738P		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1738					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TTGCTTATTGAGATGGTAATA	0.458													5	223					0	0	0.000602	0	0		G	40050063	G	G	40050063	3	3	147	1	0	0	0	0	1	0	0	0	3332	304	11	3	2963	3	CHD6	20	40050063	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	5619414	40050063	22975457	190	76829											
ADAMTS1	9510	broad.mit.edu	37	chr21	28210789	28210789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactgatcctgatattttttTacaagtagatccatttcccc	11	16	4	10	0	0	3	0	2	0	1	3	3	3	3	4	0	2	1	4	0	5	7			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr21:28210789T>C	uc002ymf.2	-	8	2628	c.2173A>G	c.(2173-2175)AAA>GAA	p.K725E		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	725	Spacer.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		GATATTTTTTTACAAGTAGAT	0.368													5	160					0	0	0.000602	0	0		C	28210789	C	C	28210789	3	2	147	1	0	0	0	0	1	0	0	0	255	1763	61	3	738	3	ADAMTS1	21	28210789	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08		28210789	19919106	191	76830											
ABCG1	9619	broad.mit.edu	37	chr21	43645878	43645878	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggaggccactgagacggAcctgctgaatggacatctga	11	7	13	10	1	1	3	0	3	1	1	1	7	1	6	2	4	1	1	2	4	1	0			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr21:43645878A>C	uc002zaq.2	+	2	246	c.140A>C	c.(139-141)GAC>GCC	p.D47A	ABCG1_uc002zan.2_Missense_Mutation_p.D49A|ABCG1_uc002zam.2_Missense_Mutation_p.D25A|ABCG1_uc002zao.2_Missense_Mutation_p.D44A|ABCG1_uc002zap.2_Missense_Mutation_p.D47A|ABCG1_uc002zar.2_Missense_Mutation_p.D58A|ABCG1_uc011aev.1_Missense_Mutation_p.D58A	NM_004915	NP_004906	P45844	ABCG1_HUMAN	ATP-binding cassette sub-family G member 1	47	Cytoplasmic (Potential).				amyloid precursor protein catabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|detection of hormone stimulus|high-density lipoprotein particle remodeling|intracellular cholesterol transport|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|positive regulation of cholesterol biosynthetic process|regulation of cholesterol esterification|regulation of transcription, DNA-dependent|response to lipid|reverse cholesterol transport	endoplasmic reticulum membrane|external side of plasma membrane|Golgi membrane|recycling endosome	ADP binding|ATP binding|cholesterol transporter activity|glycoprotein transporter activity|phospholipid transporter activity|protein heterodimerization activity|protein homodimerization activity|sterol-transporting ATPase activity|toxin transporter activity			ovary(2)|central_nervous_system(1)	3					Adenosine triphosphate(DB00171)	ACTGAGACGGACCTGCTGAAT	0.532													6	150					0	0	0.001168	0	0		C	43645878	C	C	43645878	3	2	147	1	0	0	0	0	1	0	0	0	68	275	10	5	314	5	ABCG1	21	43645878	Missense_Mutation	SNP	A	TCGA-CG-5717-01A-11D-1600-08	15435089	43645878	4484017	192	76831											
RANBP1	5902	broad.mit.edu	37	chr22	20112860	20112860	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatggagctgaagcccaacGcaggtagcgaccgtgcctgg	9	6	15	11	3	0	2	0	2	0	0	0	4	0	3	3	3	5	3	3	3	3	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr22:20112860G>C	uc002zro.1	+	4	489	c.340G>C	c.(340-342)GCA>CCA	p.A114P	RANBP1_uc011ahl.1_Missense_Mutation_p.A114P|RANBP1_uc002zrp.2_Missense_Mutation_p.A114P	NM_002882	NP_002873	P43487	RANG_HUMAN	RAN binding protein 1	114	RanBD1.				intracellular transport|signal transduction|viral reproduction	nuclear envelope	GDP-dissociation inhibitor activity|GTPase activator activity|Ran GTPase binding			breast(1)	1	Colorectal(54;0.0993)					GAAGCCCAACGCAGGTAGCGA	0.617													3	53					0	0	0.004672	0	0		C	20112860	C	C	20112860	3	2	147	1	0	0	0	0	1	0	0	0	13050	1087	38	5	354	5	RANBP1	22	20112860	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08		20112860	31191706	193	76832											
HMGXB4	10042	broad.mit.edu	37	chr22	35660640	35660640	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acttctcttgattatttctaGatatttcgtctttggaatcg	8	20	6	7	2	3	2	0	1	3	1	6	3	3	3	0	1	0	0	0	1	4	8			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr22:35660640G>C	uc003anl.2	+	5	434	c.260_splice	c.e5-1	p.D87_splice	HMGXB4_uc011amh.1_Splice_Site|HMGXB4_uc003ank.2_Splice_Site	NM_001003681	NP_001003681	Q9UGU5	HMGX4_HUMAN	high-mobility group protein 2-like 1						endosome to lysosome transport|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	NURF complex	DNA binding			breast(1)|skin(1)	2						ATTATTTCTAGATATTTCGTC	0.398													7	299					0	0	0.001984	0	0		C	35660640	C	C	35660640	5	2	147	1	0	0	0	0	0	0	1	0	7255	956	33	5	273	5	HMGXB4	22	35660640	Splice_Site	SNP	G	TCGA-CG-5717-01A-11D-1600-08	15547780	35660640	15643926	194	76833											
MFNG	4242	broad.mit.edu	37	chr22	37872993	37872993	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcagaagccagcacccccAgtggcaaaccagaactgtac	14	4	9	14	0	0	2	0	0	0	2	0	2	0	2	4	1	6	4	4	1	4	1			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr22:37872993A>T	uc003ass.1	-	5	758	c.588T>A	c.(586-588)ACT>ACA	p.T196T	MFNG_uc011ani.1_Silent_p.T74T|MFNG_uc011anj.1_Silent_p.T182T	NM_002405	NP_002396	O00587	MFNG_HUMAN	O-fucosylpeptide	196	Lumenal (Potential).				pattern specification process	extracellular space|integral to Golgi membrane	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity			lung(1)	1	Melanoma(58;0.0574)					CAGCACCCCCAGTGGCAAACC	0.622													4	22					0	0	0.000602	0	0		T	37872993	T	T	37872993	2	4	147	1	0	0	0	0	0	0	0	1	9543	175	7	5		5	MFNG	22	37872993	Silent	SNP	A	TCGA-CG-5717-01A-11D-1600-08	2212353	37872993	13431573	195	76834											
MGAT3	4248	broad.mit.edu	37	chr22	39884750	39884750	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaccgggggctggttcgaCggcacgcagcaggagtaccc	7	4	16	14	5	0	0	0	0	0	0	1	2	0	1	2	5	2	7	2	5	1	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chr22:39884750C>T	uc003axv.3	+	2	1637	c.1398C>T	c.(1396-1398)GAC>GAT	p.D466D	MGAT3_uc010gxy.2_Silent_p.D466D	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	466	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					GCTGGTTCGACGGCACGCAGC	0.632													4	20					0	0	0.009096	0	0		T	39884750	T	T	39884750	2	4	147	1	0	0	0	0	0	0	0	1	9562	535	19	1		1	MGAT3	22	39884750	Silent	SNP	C	TCGA-CG-5717-01A-11D-1600-08	2011757	39884750	11419816	196	76835											
MID1	4281	broad.mit.edu	37	chrX	10535579	10535579	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcagttctgactccagTgtttccatcttcaggcaaag	9	12	9	11	0	4	1	2	1	2	0	6	1	6	1	2	2	0	3	2	2	1	3			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chrX:10535579T>C	uc004cte.3	-	2	200	c.9A>G	c.(7-9)ACA>ACG	p.T3T	MID1_uc004ctd.3_5'Flank|MID1_uc004ctg.3_Silent_p.T3T|MID1_uc004cth.3_Silent_p.T3T|MID1_uc004ctk.3_Silent_p.T3T|MID1_uc004cti.3_Silent_p.T3T|MID1_uc004ctj.3_Silent_p.T3T|MID1_uc011mie.1_RNA|MID1_uc004ctm.1_Silent_p.T3T|MID1_uc004ctn.1_Silent_p.T3T|MID1_uc004cto.1_Silent_p.T3T|MID1_uc010ndw.1_5'Flank|MID1_uc004cts.1_5'Flank|MID1_uc004ctt.2_Silent_p.T3T|MID1_uc004ctu.2_Silent_p.T3T|MID1_uc004ctv.2_Silent_p.T3T|MID1_uc004ctw.2_Silent_p.T3T|MID1_uc010ndy.1_Silent_p.T3T|uc010ndz.1_5'Flank|MID1_uc004cty.2_Silent_p.T3T|MID1_uc004ctz.1_5'Flank|MID1_uc004cua.1_RNA|MID1_uc004cub.1_Silent_p.T3T|MID1_uc010nea.1_5'Flank|MID1_uc004cuc.1_Silent_p.T3T|MID1_uc004cud.1_Silent_p.T3T|MID1_uc004cue.1_Silent_p.T3T|MID1_uc004cuf.1_Silent_p.T3T|MID1_uc004cug.1_Silent_p.T3T	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1	3					microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3						CTGACTCCAGTGTTTCCATCT	0.502													13	70					0	0	0.013537	0	0		C	10535579	C	C	10535579	2	2	147	1	0	0	0	0	0	0	0	1	9594	1683	59	3		3	MID1	23	10535579	Silent	SNP	T	TCGA-CG-5717-01A-11D-1600-08		10535579	144734981	197	76836											
WNK3	65267	broad.mit.edu	37	chrX	54324757	54324757	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atttgagcaatcatcttcttCtgctaactccaccctcagtc	9	14	4	14	0	5	1	2	1	3	0	7	1	6	1	2	0	3	2	2	0	2	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chrX:54324757C>G	uc004dtd.1	-	7	1688	c.1249G>C	c.(1249-1251)GAA>CAA	p.E417Q	WNK3_uc004dtc.1_Missense_Mutation_p.E417Q	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	417					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						TCATCTTCTTCTGCTAACTCC	0.363													12	61					0	0	0.00245	0	0		G	54324757	G	G	54324757	3	3	147	1	0	0	0	0	1	0	0	0	17405	922	32	5	4225	5	WNK3	23	54324757	Missense_Mutation	SNP	C	TCGA-CG-5717-01A-11D-1600-08	43789178	54324757	100945803	198	76837											
ZBTB33	10009	broad.mit.edu	37	chrX	119387473	119387473	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgttgctgggcaagttgTtgaactgagctttataagag	9	14	12	6	0	1	3	0	2	1	1	1	3	1	3	0	1	3	6	0	1	4	6			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chrX:119387473T>C	uc004esn.1	+	2	431	c.203T>C	c.(202-204)GTT>GCT	p.V68A	ZBTB33_uc010nqm.1_Missense_Mutation_p.V68A	NM_006777	NP_006768	Q86T24	KAISO_HUMAN	kaiso	68	BTB.|Self-association (By similarity).|Interaction with NCOR1.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleolus|plasma membrane	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						GGGCAAGTTGTTGAACTGAGC	0.378													28	215					0	0	0.005443	0	0		C	119387473	C	C	119387473	3	2	147	1	0	0	0	0	1	0	0	0	17561	1725	60	3	205	3	ZBTB33	23	119387473	Missense_Mutation	SNP	T	TCGA-CG-5717-01A-11D-1600-08	65062716	119387473	35883087	199	76838											
MBNL3	55796	broad.mit.edu	37	chrX	131540373	131540373	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctccagctgcgtttttaaGtgtggaggagggtgaaggta	9	12	15	5	1	1	1	0	1	1	0	2	3	1	3	1	4	2	3	1	4	3	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chrX:131540373G>T	uc004ewv.3	-	2	304	c.225C>A	c.(223-225)CAC>CAA	p.H75Q	uc004ewr.1_Intron|MBNL3_uc004eww.2_5'UTR|MBNL3_uc010nrl.1_RNA|MBNL3_uc004ews.2_5'UTR|MBNL3_uc004ewt.2_Missense_Mutation_p.H25Q|MBNL3_uc011muz.1_5'UTR|MBNL3_uc004ewu.3_Missense_Mutation_p.H75Q|MBNL3_uc004ewx.1_Missense_Mutation_p.H25Q	NM_018388	NP_060858	Q9NUK0	MBNL3_HUMAN	muscleblind-like 3 isoform G	75					mRNA processing|multicellular organismal development|regulation of RNA splicing|RNA splicing	Golgi apparatus|nucleus	nucleic acid binding|zinc ion binding				0	Acute lymphoblastic leukemia(192;0.000127)					GCGTTTTTAAGTGTGGAGGAG	0.443													5	73					0.000602214	0.000625677	0.000602	1	0		T	131540373	T	T	131540373	3	4	147	1	0	0	0	0	1	0	0	0	9373	1020	36	5	928	5	MBNL3	23	131540373	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	12152900	131540373	23730187	200	76839											
MAGEA4	4103	broad.mit.edu	37	chrX	151092840	151092840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgggggtgtatgatgggaGggagcacactgtctatgggg	8	9	20	4	0	1	1	0	1	1	0	1	4	1	3	0	6	1	2	0	6	2	2			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chrX:151092840G>A	uc004fez.2	+	3	860	c.704G>A	c.(703-705)AGG>AAG	p.R235K	MAGEA4_uc004ffa.2_Missense_Mutation_p.R235K|MAGEA4_uc004ffb.2_Missense_Mutation_p.R235K|MAGEA4_uc004ffc.2_Missense_Mutation_p.R235K|MAGEA4_uc004ffd.2_Missense_Mutation_p.R235K	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	235	MAGE.						protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TATGATGGGAGGGAGCACACT	0.572													27	126					0	0	0.00632	0	0		A	151092840	A	A	151092840	3	1	147	1	0	0	0	0	1	0	0	0	9186	1000	35	4	706	4	MAGEA4	23	151092840	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08	19552467	151092840	4177720	201	76840											
PCDH11Y	83259	broad.mit.edu	37	chrY	4925229	4925229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcttcactaccggcgctcGcattgatcgtgagaaattat	10	12	9	10	4	2	2	1	2	1	1	4	4	2	2	1	1	1	2	1	1	3	4			TCGA-CG-5717-01A-11D-1600-08	TCGA-CG-5717-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	e0deb62f-0473-47f1-8ee2-03c8fbc96c90	456e4a1c-0b69-4e93-900d-345ef80765c5	g.chrY:4925229G>A	uc004fqo.2	+	1	1099	c.365G>A	c.(364-366)CGC>CAC	p.R122H	PCDH11Y_uc010nwg.1_Missense_Mutation_p.R111H|PCDH11Y_uc004fql.1_Missense_Mutation_p.R111H|PCDH11Y_uc004fqm.1_Missense_Mutation_p.R111H|PCDH11Y_uc004fqn.1_Missense_Mutation_p.R122H	NM_032973	NP_116755	Q9BZA8	PC11Y_HUMAN	protocadherin 11 Y-linked isoform c	122	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						ACCGGCGCTCGCATTGATCGT	0.443													4	179					0	0	0.000602	0	0		A	4925229	A	A	4925229	3	1	147	1	0	0	0	0	1	0	0	0	11528	1087	38	1	403	1	PCDH11Y	24	4925229	Missense_Mutation	SNP	G	TCGA-CG-5717-01A-11D-1600-08		4925229	54448337	202	76841											
ACTRT2	140625	broad.mit.edu	37	chr1	2938675	2938675	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctacctgtcggaccaggCggtgctggctctctacgcct	4	12	11	14	3	2	0	0	0	2	0	4	1	2	1	3	4	3	2	3	4	2	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr1:2938675C>A	uc001ajz.2	+	1	630	c.425C>A	c.(424-426)GCG>GAG	p.A142E		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	142						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		TCGGACCAGGCGGTGCTGGCT	0.622													22	47					2.70639e-06	2.81823e-06	0.624587	1	0		A	2938675	A	A	2938675	3	1	148	1	0	0	0	0	1	0	0	0	219	768	27	5	427	5	ACTRT2	1	2938675	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08		2938675	246311946	1	76842											
CHD5	26038	broad.mit.edu	37	chr1	6189111	6189111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcttgttctggccgatgcGgtgggcgcggctgaaggcct	3	11	16	11	4	2	1	0	1	2	0	2	2	2	1	2	5	1	2	2	5	1	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr1:6189111G>A	uc001amb.1	-	23	3506	c.3406C>T	c.(3406-3408)CGC>TGC	p.R1136C	CHD5_uc001alz.1_5'UTR|CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA|CHD5_uc009vlx.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1136	Helicase C-terminal.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		TGGCCGATGCGGTGGGCGCGG	0.632													8	27					0	0	0.361761	0	0		A	6189111	A	A	6189111	3	1	148	1	0	0	0	0	1	0	0	0	3331	1116	39	1	2534	1	CHD5	1	6189111	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	3250436	6189111	243061510	2	76843											
DHRS3	9249	broad.mit.edu	37	chr1	12638806	12638806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcagcactgtggtggcgCtgactcccggacagtccagc	7	6	15	13	2	0	1	0	1	0	0	2	2	2	2	2	4	2	3	2	4	0	0			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr1:12638806C>T	uc001auc.2	-	4	1105	c.638G>A	c.(637-639)AGC>AAC	p.S213N	DHRS3_uc001aub.2_Missense_Mutation_p.S128N	NM_004753	NP_004744	O75911	DHRS3_HUMAN	dehydrogenase/reductase (SDR family) member 3	213	Helical; (Potential).				retinol metabolic process|visual perception	integral to membrane	electron carrier activity|NADP-retinol dehydrogenase activity|nucleotide binding			skin(1)	1	Ovarian(185;0.249)	Lung NSC(185;4.11e-05)|all_lung(284;4.58e-05)|Renal(390;0.000147)|Colorectal(325;0.000585)|Breast(348;0.000596)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|Colorectal(212;9.25e-07)|COAD - Colon adenocarcinoma(227;0.000326)|BRCA - Breast invasive adenocarcinoma(304;0.000344)|Kidney(185;0.00235)|KIRC - Kidney renal clear cell carcinoma(229;0.00656)|STAD - Stomach adenocarcinoma(313;0.00798)|READ - Rectum adenocarcinoma(331;0.0419)	Vitamin A(DB00162)	TGTGGTGGCGCTGACTCCCGG	0.617													18	43					0	0	0.520397	0	0		T	12638806	T	T	12638806	3	4	148	1	0	0	0	0	1	0	0	0	4497	797	28	2	282	2	DHRS3	1	12638806	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	6449695	12638806	236611815	3	76844											
EPHA8	2046	broad.mit.edu	37	chr1	22922618	22922618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcactgtggctacagcaagGccttccaggactcggacgag	9	6	14	12	2	0	0	0	0	0	0	2	3	1	2	2	5	2	3	2	5	2	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr1:22922618G>A	uc001bfx.1	+	9	1842	c.1717G>A	c.(1717-1719)GCC>ACC	p.A573T		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	573	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CTACAGCAAGGCCTTCCAGGA	0.662													20	56					0	0	0.654019	0	0		A	22922618	A	A	22922618	3	1	148	1	0	0	0	0	1	0	0	0	5181	1203	42	2	1924	2	EPHA8	1	22922618	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	10283812	22922618	226328003	4	76845											
BAI2	576	broad.mit.edu	37	chr1	32207043	32207043	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcccccagtacgccacGccttgggcactgaggagaca	9	4	13	15	2	0	2	0	1	0	1	0	3	0	2	4	3	2	3	4	3	1	2	rs149204497		TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr1:32207043G>A	uc001btn.2	-	11	2079	c.1725C>T	c.(1723-1725)GGC>GGT	p.G575G	BAI2_uc010ogo.1_Silent_p.G217G|BAI2_uc010ogp.1_Silent_p.G508G|BAI2_uc010ogq.1_Silent_p.G575G|BAI2_uc001bto.2_Silent_p.G575G|BAI2_uc001btq.1_Silent_p.G508G|BAI2_uc010ogr.1_Intron	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	575	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity	p.G575G(1)		lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		AGTACGCCACGCCTTGGGCAC	0.647													4	7					0	0	0.150653	0	0		A	32207043	A	A	32207043	2	1	148	1	0	0	0	0	0	0	0	1	1300	1074	38	1		1	BAI2	1	32207043	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08	9284425	32207043	217043578	5	76846											
NBPF10	100132406	broad.mit.edu	37	chr1	145301732	145301732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctcagaatatgaagagtGcaaagacctcataaaattta	17	12	6	6	0	2	4	2	1	1	3	3	4	2	4	1	0	1	1	1	0	7	5			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr1:145301732G>A	uc001end.3	+	7	1036	c.1001G>A	c.(1000-1002)TGC>TAC	p.C334Y	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_Missense_Mutation_p.C334Y|NBPF10_uc010oyi.1_5'Flank|NBPF10_uc001emq.1_Missense_Mutation_p.C63Y	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	334											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		TATGAAGAGTGCAAAGACCTC	0.517													52	632					0	0	0.870114	0	0		A	145301732	A	A	145301732	3	1	148	1	0	0	0	0	1	0	0	0	10211	1319	46	2	1027	2	NBPF10	1	145301732	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	113094689	145301732	103948889	6	76847											
TIPRL	261726	broad.mit.edu	37	chr1	168153206	168153206	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggagacaacgttttaagaatCcagcatgggtctggctttgg	10	11	13	7	1	1	2	0	0	1	2	2	3	2	2	1	4	2	3	1	4	3	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr1:168153206C>G	uc001gfg.2	+	2	316	c.171C>G	c.(169-171)ATC>ATG	p.I57M	TIPRL_uc001gfh.2_Missense_Mutation_p.I57M|TIPRL_uc001gff.2_Missense_Mutation_p.I57M	NM_152902	NP_690866	O75663	TIPRL_HUMAN	TIP41, TOR signalling pathway regulator-like	57					DNA damage checkpoint|negative regulation of protein phosphatase type 2A activity	cytoplasm	protein binding			ovary(1)	1	all_hematologic(923;0.215)					TTTTAAGAATCCAGCATGGGT	0.403													6	201					0	0	0.217242	0	0		G	168153206	G	G	168153206	3	3	148	1	0	0	0	0	1	0	0	0	15951	845	30	5	177	5	TIPRL	1	168153206	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	22851474	168153206	81097415	7	76848											
KCNT2	343450	broad.mit.edu	37	chr1	196398783	196398783	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaccatgtttcaggagtgAcatccccgaagcccacagta	12	7	10	12	1	1	1	1	1	0	0	2	4	2	3	4	2	1	2	4	2	2	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr1:196398783A>G	uc001gtd.1	-	9	803	c.743T>C	c.(742-744)GTC>GCC	p.V248A	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.V248A|KCNT2_uc001gtf.1_Missense_Mutation_p.V248A|KCNT2_uc001gtg.1_Intron|KCNT2_uc009wyu.2_Missense_Mutation_p.V248A|KCNT2_uc009wyv.1_Missense_Mutation_p.V223A	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	248						voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TTCAGGAGTGACATCCCCGAA	0.423													25	84					0	0	0.693898	0	0		G	196398783	G	G	196398783	3	3	148	1	0	0	0	0	1	0	0	0	8108	275	10	3	2744	3	KCNT2	1	196398783	Missense_Mutation	SNP	A	TCGA-CG-5718-01A-11D-1600-08	28245577	196398783	52851838	8	76849											
CFHR4	10877	broad.mit.edu	37	chr1	196887428	196887428	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaatattatgcaaaaacaggGgataccattgaatttatgtg	17	12	8	4	0	0	1	0	1	0	0	0	2	0	2	1	2	3	1	1	2	8	6			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr1:196887428G>A	uc001gto.2	+	6	957	c.888G>A	c.(886-888)GGG>GGA	p.G296G	CFHR4_uc009wyy.2_Silent_p.G542G|CFHR4_uc001gtp.2_Silent_p.G543G	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	296	Sushi 5.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						CAAAAACAGGGGATACCATTG	0.318													96	131					0	0	0.870114	0	0		A	196887428	A	A	196887428	2	1	148	1	0	0	0	0	0	0	0	1	3290	1219	43	4		4	CFHR4	1	196887428	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08	488645	196887428	52363193	9	76850											
PTPRC	5788	broad.mit.edu	37	chr1	198703498	198703498	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatttctggaggatgattTgggaacagaaagccacagtt	13	11	12	5	0	1	3	0	2	1	1	1	6	1	6	1	3	2	1	1	3	2	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr1:198703498T>C	uc001gur.1	+	22	2395	c.2215T>C	c.(2215-2217)TGG>CGG	p.W739R	PTPRC_uc001gus.1_Missense_Mutation_p.W691R|PTPRC_uc001gut.1_Missense_Mutation_p.W578R|PTPRC_uc010ppg.1_Missense_Mutation_p.W675R	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	739	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						GAGGATGATTTGGGAACAGAA	0.383													146	658					0	0	0.870114	0	0		C	198703498	C	C	198703498	3	2	148	1	0	0	0	0	1	0	0	0	12822	1812	63	3	2308	3	PTPRC	1	198703498	Missense_Mutation	SNP	T	TCGA-CG-5718-01A-11D-1600-08	1816070	198703498	50547123	10	76851											
TPO	7173	broad.mit.edu	37	chr2	1437238	1437238	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaaaagaggaatcctttctCcagctcagcttctgtctttt	10	14	7	10	0	4	2	1	0	3	2	6	3	5	3	2	1	2	2	2	1	3	4	rs17855780	byFrequency	TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr2:1437238C>A	uc002qww.2	+	4	299	c.208C>A	c.(208-210)CCA>ACA	p.P70T	TPO_uc010ewj.2_Intron|TPO_uc010yin.1_Missense_Mutation_p.P70T|TPO_uc002qwu.2_Missense_Mutation_p.P70T|TPO_uc002qwr.2_Missense_Mutation_p.P70T|TPO_uc002qwx.2_Missense_Mutation_p.P70T|TPO_uc010yio.1_Missense_Mutation_p.P70T|TPO_uc010yip.1_Missense_Mutation_p.P70T	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	70	Extracellular (Potential).			P -> G (in Ref. 5; AAA61217).	cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	AATCCTTTCTCCAGCTCAGCT	0.368													76	75					6.11987e-43	7.13985e-43	0.870114	1	0		A	1437238	A	A	1437238	3	1	148	1	0	0	0	0	1	0	0	0	16436	855	30	5	218	5	TPO	2	1437238	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08		1437238	241762135	11	76852											
OTOF	9381	broad.mit.edu	37	chr2	26703837	26703837	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtagttacgtgtggagccGtacatgttcacccaggctgg	7	11	14	9	2	1	0	1	0	0	0	1	1	1	1	2	3	3	5	2	3	3	4	rs149357083		TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr2:26703837G>A	uc002rhk.2	-	15	1747	c.1620C>T	c.(1618-1620)TAC>TAT	p.Y540Y	OTOF_uc002rhh.2_5'Flank|OTOF_uc002rhi.2_5'Flank|OTOF_uc002rhj.2_5'Flank	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	540	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGTGGAGCCGTACATGTTCA	0.632													3	47					0	0	0.150653	0	0		A	26703837	A	A	26703837	2	1	148	1	0	0	0	0	0	0	0	1	11322	1140	40	1		1	OTOF	2	26703837	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08	25266599	26703837	216495536	12	76853											
BIRC6	57448	broad.mit.edu	37	chr2	32715111	32715111	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctcttttctgcatagcatCaataactagctttctcacag	10	16	4	11	0	4	0	2	0	3	0	6	0	4	0	0	0	4	3	0	0	4	7			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr2:32715111C>G	uc010ezu.2	+	43	8233	c.8099C>G	c.(8098-8100)TCA>TGA	p.S2700*		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	2700					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					TGCATAGCATCAATAACTAGC	0.348													83	244					0	0	0.870114	0	0		G	32715111	G	G	32715111	4	3	148	1	0	0	0	0	0	1	0	0	1439	838	29	5	8269	5	BIRC6	2	32715111	Nonsense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	6011274	32715111	210484262	13	76854											
CCDC75	253635	broad.mit.edu	37	chr2	37321291	37321291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggagactgaagaagatgaaGaagaaaaagaacaggatgaa	23	3	13	2	0	0	9	0	3	0	6	0	11	0	10	0	2	1	0	0	2	8	0			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr2:37321291G>A	uc010ezz.2	+	7	740	c.595G>A	c.(595-597)GAA>AAA	p.E199K	CCDC75_uc002rpr.3_Missense_Mutation_p.E96K	NM_174931	NP_777591	Q8N954	CCD75_HUMAN	coiled-coil domain containing 75	199						intracellular	nucleic acid binding				0		all_hematologic(82;0.21)				agaagatgaagaagaaaaaga	0.234													5	9					0	0	0.184627	0	0		A	37321291	A	A	37321291	3	1	148	1	0	0	0	0	1	0	0	0	2852	943	33	4	617	4	CCDC75	2	37321291	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	4606180	37321291	205878082	14	76855											
SIX3	6496	broad.mit.edu	37	chr2	45170028	45170028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccggcggcagcgcgaccGcgccgcggcggccaagaaca	9	0	16	16	9	0	1	0	0	0	1	0	3	0	1	4	4	3	1	4	4	3	0			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr2:45170028G>A	uc002run.1	+	1	992	c.785G>A	c.(784-786)CGC>CAC	p.R262H		NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3	262	Homeobox.				visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CAGCGCGACCGCGCCGCGGCG	0.677													11	8					0	0	0.411799	0	0		A	45170028	A	A	45170028	3	1	148	1	0	0	0	0	1	0	0	0	14373	1087	38	1	787	1	SIX3	2	45170028	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	7848737	45170028	198029345	15	76856											
MEIS1	4211	broad.mit.edu	37	chr2	66739342	66739342	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgatgatgaccctgataaGgacaaaaagcgtcacaaaaa	19	5	9	8	2	1	3	1	3	0	0	1	6	1	4	1	1	1	0	1	1	5	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr2:66739342G>A	uc002sdu.2	+	8	1261	c.804G>A	c.(802-804)AAG>AAA	p.K268K	MEIS1_uc002sdt.2_Silent_p.K268K|MEIS1_uc002sdv.2_Silent_p.K266K|MEIS1_uc010yqh.1_Intron|MEIS1_uc010yqi.1_Silent_p.K203K|MEIS1_uc002sdw.1_Silent_p.K124K	NM_002398	NP_002389	O00470	MEIS1_HUMAN	Meis homeobox 1	268	Asp/Glu-rich (acidic).|Poly-Asp.						sequence-specific DNA binding transcription factor activity				0						ACCCTGATAAGGACAAAAAGC	0.458													14	22					0	0	0.435327	0	0		A	66739342	A	A	66739342	2	1	148	1	0	0	0	0	0	0	0	1	9485	991	35	4		4	MEIS1	2	66739342	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08	21569314	66739342	176460031	16	76857											
SUCLG1	8802	broad.mit.edu	37	chr2	84670454	84670454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agcccagatgtgtctggcctCctttccctggagtggttcct	4	13	11	13	0	1	1	0	0	1	1	4	2	4	2	5	3	1	1	5	3	0	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr2:84670454C>T	uc002son.2	-	3	465	c.272G>A	c.(271-273)GGA>GAA	p.G91E	SUCLG1_uc010ysk.1_Missense_Mutation_p.G78E	NM_003849	NP_003840	P53597	SUCA_HUMAN	succinate-CoA ligase, GDP-forming alpha subunit	91					tricarboxylic acid cycle		ATP citrate synthase activity|GTP binding|succinate-CoA ligase (GDP-forming) activity				0					Succinic acid(DB00139)	TGTCTGGCCTCCTTTCCCTGG	0.498													35	118					0	0	0.788014	0	0		T	84670454	T	T	84670454	3	4	148	1	0	0	0	0	1	0	0	0	15389	855	30	4	796	4	SUCLG1	2	84670454	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	17931112	84670454	158528919	17	76858											
ELMOD3	84173	broad.mit.edu	37	chr2	85598245	85598245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctattcgaaggactgggctcGccgccctccgacactacctc	7	8	9	17	4	0	0	0	0	0	0	4	3	1	1	4	2	1	1	4	2	3	3	rs145555897	byFrequency	TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr2:85598245G>A	uc002spf.3	+	10	1062	c.397G>A	c.(397-399)GCC>ACC	p.A133T	ELMOD3_uc010fgg.2_RNA|ELMOD3_uc002spg.3_Missense_Mutation_p.A133T|ELMOD3_uc002sph.3_Missense_Mutation_p.A133T|ELMOD3_uc010ysn.1_Missense_Mutation_p.A133T|ELMOD3_uc010yso.1_RNA|ELMOD3_uc010ysp.1_RNA	NM_001135021	NP_001128493	Q96FG2	ELMD3_HUMAN	ELMO/CED-12 domain containing 3 isoform b	133					phagocytosis	cytoskeleton				ovary(2)	2						GACTGGGCTCGCCGCCCTCCG	0.542													87	84					0	0	0.870114	0	0		A	85598245	A	A	85598245	3	1	148	1	0	0	0	0	1	0	0	0	5078	1087	38	1	419	1	ELMOD3	2	85598245	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	927791	85598245	157601128	18	76859											
CNGA3	1261	broad.mit.edu	37	chr2	99008435	99008435	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtacgagctcggacaggTgagtgtgccccaggcctggg	6	8	16	11	2	0	1	0	1	0	0	1	3	0	2	3	4	3	2	3	4	1	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr2:99008435T>A	uc002syt.2	+	7	1090	c.673_splice	c.e7+2	p.G225_splice	CNGA3_uc002syu.2_Splice_Site_p.G207_splice|CNGA3_uc010fij.2_Splice_Site_p.G229_splice	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform						signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						CTCGGACAGGTGAGTGTGCCC	0.597													24	43					0	0	0.639603	0	0		A	99008435	A	A	99008435	5	1	148	1	0	0	0	0	0	0	1	0	3601	1710	59	5	697	5	CNGA3	2	99008435	Splice_Site	SNP	T	TCGA-CG-5718-01A-11D-1600-08	13410190	99008435	144190938	19	76860											
GPR55	9290	broad.mit.edu	37	chr2	231775023	231775023	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgcaggctttctgctgcaCccagtcctgggtgtggtctc	4	12	13	12	0	2	0	0	0	2	0	4	1	3	0	2	3	3	4	2	3	0	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr2:231775023C>A	uc002vrg.2	-	2	848	c.655G>T	c.(655-657)GTG>TTG	p.V219L	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Missense_Mutation_p.V219L	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	219	Cytoplasmic (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		TTCTGCTGCACCCAGTCCTGG	0.612													55	63					1.31726e-23	1.49527e-23	0.870114	1	0		A	231775023	A	A	231775023	3	1	148	1	0	0	0	0	1	0	0	0	6714	507	18	5	308	5	GPR55	2	231775023	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	132766588	231775023	11424350	20	76861											
CNTN4	152330	broad.mit.edu	37	chr3	3078938	3078938	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgggttgaatatgaattccGcacagttgcagccaacgtga	11	11	11	8	2	0	3	0	3	0	0	1	3	1	3	2	1	3	4	2	1	4	5			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr3:3078938G>A	uc003bpc.2	+	17	2239	c.2018G>A	c.(2017-2019)CGC>CAC	p.R673H	CNTN4_uc003bpb.1_Missense_Mutation_p.R344H|CNTN4_uc003bpd.1_Missense_Mutation_p.R673H|CNTN4_uc003bpe.2_Missense_Mutation_p.R345H|CNTN4_uc003bpf.2_Missense_Mutation_p.R344H|CNTN4_uc003bpg.2_5'Flank	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	673	Fibronectin type-III 1.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		TATGAATTCCGCACAGTTGCA	0.527													89	198					0	0	0.870114	0	0		A	3078938	A	A	3078938	3	1	148	1	0	0	0	0	1	0	0	0	3646	1087	38	1	2076	1	CNTN4	3	3078938	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08		3078938	194943492	21	76862											
ITPR1	3708	broad.mit.edu	37	chr3	4744539	4744539	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcctgtctttgtgcaacTgctgcaaggcgtgttcaggg	6	11	13	11	1	2	0	1	0	1	0	2	0	2	0	2	2	5	4	2	2	2	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr3:4744539T>C	uc003bqa.2	+	36	4883	c.4535T>C	c.(4534-4536)CTG>CCG	p.L1512P	ITPR1_uc010hca.1_Missense_Mutation_p.L1497P|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.L443P	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1521	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		TTTGTGCAACTGCTGCAAGGC	0.478													6	36					0	0	0.361761	0	0		C	4744539	C	C	4744539	3	2	148	1	0	0	0	0	1	0	0	0	7936	1580	55	3	4696	3	ITPR1	3	4744539	Missense_Mutation	SNP	T	TCGA-CG-5718-01A-11D-1600-08	1665601	4744539	193277891	22	76863											
PTH1R	5745	broad.mit.edu	37	chr3	46937225	46937225	+	Missense_Mutation	SNP	C	G	G																															taccaccctggtttctccagCcagcataatggaatcagaca																										TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr3:46937225C>G	uc003cqm.2	+	5	382	c.179C>G	c.(178-180)GCC>GGC	p.A60G	PTH1R_uc003cqn.2_Missense_Mutation_p.A60G	NM_000316	NP_000307	Q03431	PTH1R_HUMAN	parathyroid hormone receptor 1 precursor	60	Extracellular (Potential).					cytoplasm|integral to plasma membrane|nucleus	parathyroid hormone receptor activity|peptide hormone binding|protein self-association			breast(1)	1						GTTTCTCCAGCCAGCATAATG	0.428									Ollier_disease_/_Maffuci_syndrome		OREG0015543	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	79					0	0	0.557998	0	0		G	46937225	G	G	46937225	3	3	148	1	0	0	0	0	1	0	0	0	12781	753	26	5	189	5	PTH1R	3	46937225	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	42192686	46937225	151085205	23	76864	142	2									
PTH1R	5745	broad.mit.edu	37	chr3	46937234	46937234	+	Missense_Mutation	SNP	T	G	G																															ggtttctccagccagcataaTggaatcagacaagggatgga																										TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr3:46937234T>G	uc003cqm.2	+	5	391	c.188T>G	c.(187-189)ATG>AGG	p.M63R	PTH1R_uc003cqn.2_Missense_Mutation_p.M63R	NM_000316	NP_000307	Q03431	PTH1R_HUMAN	parathyroid hormone receptor 1 precursor	63	Extracellular (Potential).					cytoplasm|integral to plasma membrane|nucleus	parathyroid hormone receptor activity|peptide hormone binding|protein self-association			breast(1)	1						GCCAGCATAATGGAATCAGAC	0.453									Ollier_disease_/_Maffuci_syndrome		OREG0015543	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	75					0	0	0.520397	0	0		G	46937234	G	G	46937234	3	3	148	1	0	0	0	0	1	0	0	0	12781	1464	51	5	198	5	PTH1R	3	46937234	Missense_Mutation	SNP	T	TCGA-CG-5718-01A-11D-1600-08	9	46937234	151085196	24	76865	142	2									
ALCAM	214	broad.mit.edu	37	chr3	105266363	105266363	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcagtggaagcgtcataaAccaagcaagtatttgtcttc	12	11	10	8	1	2	0	1	0	1	0	3	1	2	1	1	2	3	3	1	2	6	4			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr3:105266363A>G	uc003dvx.2	+	11	1910	c.1370A>G	c.(1369-1371)AAC>AGC	p.N457S	ALCAM_uc003dvw.1_Missense_Mutation_p.N457S|ALCAM_uc003dvy.2_Missense_Mutation_p.N457S|ALCAM_uc010hpp.2_Missense_Mutation_p.N179S|ALCAM_uc003dvz.2_Missense_Mutation_p.N91S	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	457	Extracellular (Potential).|Ig-like C2-type 3.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						AGCGTCATAAACCAAGCAAGT	0.408													53	188					0	0	0.870114	0	0		G	105266363	G	G	105266363	3	3	148	1	0	0	0	0	1	0	0	0	487	43	2	3	1412	3	ALCAM	3	105266363	Missense_Mutation	SNP	A	TCGA-CG-5718-01A-11D-1600-08	58329129	105266363	92756067	25	76866											
ARHGAP31	57514	broad.mit.edu	37	chr3	119118073	119118073	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctactatccgaccagctaAaagcatggactcactatgtt	12	10	8	11	1	1	0	1	0	0	0	2	2	2	1	2	2	3	4	2	2	5	5			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr3:119118073A>T	uc003ecj.3	+	9	1566	c.1034A>T	c.(1033-1035)AAA>ATA	p.K345I		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	345					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						CGACCAGCTAAAAGCATGGAC	0.393													29	76					0	0	0.750413	0	0		T	119118073	T	T	119118073	3	4	148	1	0	0	0	0	1	0	0	0	880	14	1	5	1068	5	ARHGAP31	3	119118073	Missense_Mutation	SNP	A	TCGA-CG-5718-01A-11D-1600-08	13851710	119118073	78904357	26	76867											
DZIP1L	199221	broad.mit.edu	37	chr3	137822729	137822729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagtccatgctatcatggcGaggctgaaacttgaaggtgg	10	9	13	9	1	1	2	1	2	0	0	2	3	2	2	2	4	2	2	2	4	3	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr3:137822729G>A	uc003erq.2	-	2	448	c.85C>T	c.(85-87)CGC>TGC	p.R29C	DZIP1L_uc003err.1_Missense_Mutation_p.R29C	NM_173543	NP_775814	Q8IYY4	DZI1L_HUMAN	DAZ interacting protein 1-like	29						intracellular	zinc ion binding			ovary(1)|pancreas(1)	2						CTATCATGGCGAGGCTGAAAC	0.602													45	99					0	0	0.870114	0	0		A	137822729	A	A	137822729	3	1	148	1	0	0	0	0	1	0	0	0	4870	1058	37	1	2287	1	DZIP1L	3	137822729	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	18704656	137822729	60199701	27	76868											
ZNF595	152687	broad.mit.edu	37	chr4	87098	87098	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccctacaaatgcaaagaAtgtggcaaagcctataactt	18	8	6	9	0	0	1	0	0	0	1	0	1	0	1	2	1	5	2	2	1	8	4			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr4:87098A>G	uc003fzv.1	+	6	1860	c.1704A>G	c.(1702-1704)GAA>GAG	p.E568E	ZNF595_uc003fzu.1_Intron|ZNF718_uc003fzt.3_Intron|ZNF595_uc011bus.1_Silent_p.E336E|ZNF595_uc011but.1_Silent_p.E336E	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	568					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		AATGCAAAGAATGTGGCAAAG	0.393													20	71					0	0	0.557998	0	0		G	87098	G	G	87098	2	3	148	1	0	0	0	0	0	0	0	1	18050	101	4	3		3	ZNF595	4	87098	Silent	SNP	A	TCGA-CG-5718-01A-11D-1600-08		87098	191067178	28	76869											
SLIT2	9353	broad.mit.edu	37	chr4	20530620	20530620	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagactgctttgcggatcTggcttgccctgaaaagtgtc	7	12	13	9	1	1	2	0	1	1	1	2	4	1	3	1	3	3	2	1	3	2	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr4:20530620T>A	uc003gpr.1	+	16	1715	c.1511T>A	c.(1510-1512)CTG>CAG	p.L504Q	SLIT2_uc003gps.1_Missense_Mutation_p.L496Q	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	504	LRRNT 3.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TTTGCGGATCTGGCTTGCCCT	0.408													14	164					0	0	0.457914	0	0		A	20530620	A	A	20530620	3	1	148	1	0	0	0	0	1	0	0	0	14765	1580	55	5	1573	5	SLIT2	4	20530620	Missense_Mutation	SNP	T	TCGA-CG-5718-01A-11D-1600-08	20443522	20530620	170623656	29	76870											
YTHDC1	91746	broad.mit.edu	37	chr4	69179894	69179894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttctctttctctatcacGtcctctatctcgctctctgt	3	20	3	15	2	7	0	1	0	6	0	12	0	8	0	1	0	0	1	1	0	2	4			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr4:69179894G>A	uc003hdx.2	-	17	2460	c.2107C>T	c.(2107-2109)CGT>TGT	p.R703C	YTHDC1_uc003hdy.2_Missense_Mutation_p.R685C	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	703	Arg-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						tctctatcacgtcctctatct	0.199													10	42					0	0	0.335167	0	0		A	69179894	A	A	69179894	3	1	148	1	0	0	0	0	1	0	0	0	17522	1145	40	1	80	1	YTHDC1	4	69179894	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	48649274	69179894	121974382	30	76871											
ACSL1	2180	broad.mit.edu	37	chr4	185689562	185689562	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgagcagcctgatatctcCttggaaaaatccgattttag	12	12	8	9	1	1	2	0	2	1	0	3	4	2	3	3	1	2	1	3	1	4	4			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr4:185689562C>G	uc003iww.2	-	12	1330	c.1036G>C	c.(1036-1038)GGA>CGA	p.G346R	ACSL1_uc011ckm.1_Missense_Mutation_p.G175R|ACSL1_uc003iwt.1_Missense_Mutation_p.G346R|ACSL1_uc003iwu.1_Missense_Mutation_p.G346R|ACSL1_uc011ckn.1_Missense_Mutation_p.G312R|ACSL1_uc003iwv.1_Missense_Mutation_p.G346R|ACSL1_uc003iws.1_5'Flank|ACSL1_uc010ise.1_RNA	NM_001995	NP_001986	P33121	ACSL1_HUMAN	acyl-CoA synthetase long-chain family member 1	346	Cytoplasmic (Potential).				digestion|fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|regulation of fatty acid oxidation|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			ovary(2)	2		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Colorectal(36;0.00172)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0315)|all_neural(102;0.107)|Medulloblastoma(177;0.146)		all cancers(43;1.33e-28)|Epithelial(43;5.3e-25)|OV - Ovarian serous cystadenocarcinoma(60;4.88e-11)|Colorectal(24;3.59e-06)|STAD - Stomach adenocarcinoma(60;2.72e-05)|GBM - Glioblastoma multiforme(59;2.83e-05)|BRCA - Breast invasive adenocarcinoma(30;7.66e-05)|COAD - Colon adenocarcinoma(29;0.000538)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.0419)	Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CTGATATCTCCTTGGAAAAAT	0.453													62	197					0	0	0.870114	0	0		G	185689562	G	G	185689562	3	3	148	1	0	0	0	0	1	0	0	0	177	690	24	5	1100	5	ACSL1	4	185689562	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	116509668	185689562	5464714	31	76872											
ADCY2	108	broad.mit.edu	37	chr5	7521010	7521010	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaggagcacctggtctggCaggtgggtgcacctccacat	8	7	14	12	0	1	0	0	0	1	0	2	1	2	1	3	5	2	4	3	5	1	0			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr5:7521010C>A	uc003jdz.1	+	3	635	c.568C>A	c.(568-570)CAG>AAG	p.Q190K		NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	190	Helical; (Potential).			VWQILANVIIFICGNLAGAY -> GLADPGQCDHFHLWEPG XTN (in Ref. 1; AAP97285).	activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CCTGGTCTGGCAGGTGGGTGC	0.602													22	170					2.27731e-05	2.33285e-05	0.608945	1	0		A	7521010	A	A	7521010	3	1	148	1	0	0	0	0	1	0	0	0	294	711	25	5	578	5	ADCY2	5	7521010	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08		7521010	173394250	32	76873											
ACOT12	134526	broad.mit.edu	37	chr5	80641711	80641711	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctcactttaccaggtctGaaatgtattgttgacaatgg	10	13	11	7	0	2	2	1	2	1	0	2	2	2	2	1	3	1	3	1	3	4	5			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr5:80641711G>T	uc003khl.3	-	7	821	c.766C>A	c.(766-768)CAG>AAG	p.Q256K	RNU5E_uc011cto.1_Intron	NM_130767	NP_570123	Q8WYK0	ACO12_HUMAN	acyl-CoA thioesterase 12	256	Acyl coenzyme A hydrolase 2.				acyl-CoA metabolic process|fatty acid metabolic process	cytosol	acetyl-CoA hydrolase activity|carboxylesterase activity			ovary(1)|kidney(1)	2		Lung NSC(167;0.0176)|all_lung(232;0.0205)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;1.37e-45)|Epithelial(54;1.25e-39)|all cancers(79;5.01e-34)		TACCAGGTCTGAAATGTATTG	0.413													29	39					6.50621e-10	6.94731e-10	0.769981	1	0		T	80641711	T	T	80641711	3	4	148	1	0	0	0	0	1	0	0	0	150	1299	45	5	937	5	ACOT12	5	80641711	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	73120701	80641711	100273549	33	76874											
APC	324	broad.mit.edu	37	chr5	112170788	112170788	+	Frame_Shift_Del	DEL	T	-	-																															taccggagccagacaaacacTttagccattattgaaagtgg																										TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr5:112170788delT	uc010jby.2	+	15	2264	c.1884delT	c.(1882-1884)ACTfs	p.T628fs	APC_uc011cvt.1_Frame_Shift_Del_p.T610fs|APC_uc003kpz.3_Frame_Shift_Del_p.T628fs|APC_uc003kpy.3_Frame_Shift_Del_p.T628fs|APC_uc010jbz.2_Frame_Shift_Del_p.T345fs|APC_uc010jca.2_5'UTR	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	628	Leu-rich.|ARM 4.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		AGACAAACACTTTAGCCATTA	0.398		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			36	51	---	---	---	---						.	-	112170788	-	-	112170788	7	5	148	1	0	1	0	1	0	0	0	0	763	1596	56	0	1938	0	APC	5	112170788	Frame_Shift_Del	DEL	T	TCGA-CG-5718-01A-11D-1600-08	31529077	112170788	68744472	34	76875											
PCDHGA6	56109	broad.mit.edu	37	chr5	140755889	140755889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtgggcgtggaaggggttCgggctttcctgcagacctat	5	12	16	8	2	0	1	0	0	0	1	2	2	1	2	2	5	1	3	2	5	2	4			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr5:140755889C>T	uc003ljy.1	+	1	2239	c.2239C>T	c.(2239-2241)CGG>TGG	p.R747W	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.R747W	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	747	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAAGGGGTTCGGGCTTTCCT	0.597													23	41					0	0	0.608945	0	0		T	140755889	T	T	140755889	3	4	148	1	0	0	0	0	1	0	0	0	11577	875	31	1	2241	1	PCDHGA6	5	140755889	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	28585101	140755889	40159371	35	76876											
ZNF300	91975	broad.mit.edu	37	chr5	150275535	150275535	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttttatgtataatgaggtgGgacttctcacagaaggcttt	10	15	10	6	0	1	2	1	1	1	1	2	3	1	3	0	3	0	2	0	3	4	6			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr5:150275535G>A	uc003lsy.1	-	6	1533	c.1266C>T	c.(1264-1266)TCC>TCT	p.S422S	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	422	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TAATGAGGTGGGACTTCTCAC	0.448													38	75					0	0	0.804634	0	0		A	150275535	A	A	150275535	2	1	148	1	0	0	0	0	0	0	0	1	17856	1219	43	4		4	ZNF300	5	150275535	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08	9519646	150275535	30639725	36	76877											
ZNF323	64288	broad.mit.edu	37	chr6	28294157	28294157	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgatgctgaacaaggcatGagctgaggaggaaagccttc	12	8	13	8	0	1	4	0	4	1	0	2	6	1	6	1	3	4	3	1	3	3	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr6:28294157G>A	uc003nla.2	-	4	1407	c.1007C>T	c.(1006-1008)TCA>TTA	p.S336L	ZNF323_uc003nld.2_Missense_Mutation_p.S336L|ZNF323_uc010jra.2_Missense_Mutation_p.S336L|ZNF323_uc003nlb.2_Missense_Mutation_p.S177L|ZNF323_uc010jrb.2_Missense_Mutation_p.S177L|ZNF323_uc003nlc.2_Missense_Mutation_p.S336L	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	336	C2H2-type 4.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						AACAAGGCATGAGCTGAGGAG	0.502													95	264					0	0	0.870114	0	0		A	28294157	A	A	28294157	3	1	148	1	0	0	0	0	1	0	0	0	17868	1294	45	4	217	4	ZNF323	6	28294157	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08		28294157	142820910	37	76878											
OR11A1	26531	broad.mit.edu	37	chr6	29394891	29394891	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ataaagtcacagtaaaactgGtcaatgtggttggggccaca	14	9	11	7	0	2	0	2	0	0	0	2	0	2	0	1	4	1	2	1	4	5	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr6:29394891G>T	uc003nmg.2	-	1	619	c.528C>A	c.(526-528)GAC>GAA	p.D176E		NM_013937	NP_039225	Q9GZK7	O11A1_HUMAN	olfactory receptor, family 11, subfamily A,	176	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AGTAAAACTGGTCAATGTGGT	0.547													19	36					1.01871e-10	1.09707e-10	0.575678	1	0		T	29394891	T	T	29394891	3	4	148	1	0	0	0	0	1	0	0	0	10943	1252	44	5	423	5	OR11A1	6	29394891	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	1100734	29394891	141720176	38	76879											
HLA-F	3134	broad.mit.edu	37	chr6	29692871	29692871	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaggccaccctgaggtgctGggccctgggcttctaccctg	4	9	14	14	0	1	2	0	2	1	0	1	2	1	2	4	4	2	2	4	4	1	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr6:29692871G>T	uc010jrl.2	+	4	798	c.674G>T	c.(673-675)TGG>TTG	p.W225L	HLA-F_uc003nnm.3_Intron|HLA-F_uc003nno.3_Missense_Mutation_p.W225L|HLA-F_uc011dlx.1_Missense_Mutation_p.W225L|HLA-F_uc011dly.1_RNA	NM_018950	NP_061823	P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	225	Alpha-3.|Extracellular (Potential).|Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity				0						CTGAGGTGCTGGGCCCTGGGC	0.607													24	41					1.36565e-18	1.52276e-18	0.639603	1	0		T	29692871	T	T	29692871	3	4	148	1	0	0	0	0	1	0	0	0	7227	1357	47	5	688	5	HLA-F	6	29692871	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	297980	29692871	141422196	39	76880											
HLA-A	3105	broad.mit.edu	37	chr6	29911302	29911302	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gatacctggagaacgggaagGagacgctgcagcgcacgggt	11	4	17	9	4	0	2	0	0	0	2	0	6	0	3	1	4	4	3	1	4	3	1	rs41546018		TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr6:29911302G>A	uc003nol.2	+	3	601	c.601G>A	c.(601-603)GAG>AAG	p.E201K	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_5'Flank|HLA-A_uc010jrq.2_Missense_Mutation_p.E80K|HLA-A_uc003nok.2_Missense_Mutation_p.E80K|HLA-A_uc003non.2_Missense_Mutation_p.E201K|HLA-A_uc003noo.2_Missense_Mutation_p.E201K|HLA-A_uc010jrr.2_Missense_Mutation_p.E201K|HLA-A_uc003nom.2_Missense_Mutation_p.E80K|HLA-A_uc010klp.2_Missense_Mutation_p.E173K|HLA-A_uc011dmc.1_Missense_Mutation_p.E80K|HLA-A_uc011dmd.1_Missense_Mutation_p.E80K	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A	201	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2						GAACGGGAAGGAGACGCTGCA	0.662									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of|Osteosarcoma_Familial_Clustering_of|Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of	Multiple Myeloma(9;0.094)			5	21					0	0	0.184627	0	0		A	29911302	A	A	29911302	3	1	148	1	0	0	0	0	1	0	0	0	7211	1175	41	4	611	4	HLA-A	6	29911302	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	218431	29911302	141203765	40	76881											
PKHD1	5314	broad.mit.edu	37	chr6	51907736	51907736	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggtcttctccagtggcactGatggcaagaccagagggtct	9	9	13	10	0	3	3	0	1	3	2	4	3	3	3	2	4	0	2	2	4	1	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr6:51907736G>A	uc003pah.1	-	27	3294	c.3018C>T	c.(3016-3018)ATC>ATT	p.I1006I	PKHD1_uc003pai.2_Silent_p.I1006I	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1006	IPT/TIG 4.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CAGTGGCACTGATGGCAAGAC	0.478													95	126					0	0	0.870114	0	0		A	51907736	A	A	51907736	2	1	148	1	0	0	0	0	0	0	0	1	11990	1280	45	4		4	PKHD1	6	51907736	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08	21996434	51907736	119207331	41	76882											
NMBR	4829	broad.mit.edu	37	chr6	142409812	142409812	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgatctcctttccagcaGagtccgctggagttttcacg	7	12	10	12	2	2	2	1	1	1	1	5	3	4	3	3	1	1	4	3	1	0	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr6:142409812G>T	uc003qiu.2	-	1	125	c.-16C>A	c.(-18--14)CTCTG>CTATG			NM_002511	NP_002502	P28336	NMBR_HUMAN	neuromedin B receptor						activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			central_nervous_system(3)|breast(1)	4	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		CTTTCCAGCAGAGTCCGCTGG	0.577													10	24					1.58986e-06	1.66936e-06	0.361761	1	0		T	142409812	T	T	142409812	1	4	148	1	0	0	0	0	0	0	0	0	10506	957	33	5		5	NMBR	6	142409812	Translation_Start_Site	SNP	G	TCGA-CG-5718-01A-11D-1600-08	90502076	142409812	28705255	42	76883											
GRM1	2911	broad.mit.edu	37	chr6	146678789	146678789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaacaagagtggagtggtgCggtctgtgtgcagtgagcct	8	10	17	6	1	1	3	0	2	1	1	1	4	1	4	1	3	4	1	1	3	2	0			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr6:146678789C>T	uc010khw.1	+	6	2031	c.1561C>T	c.(1561-1563)CGG>TGG	p.R521W	GRM1_uc010khv.1_Missense_Mutation_p.R521W|GRM1_uc003qll.2_Missense_Mutation_p.R521W|GRM1_uc011edz.1_Missense_Mutation_p.R521W|GRM1_uc011eea.1_Missense_Mutation_p.R521W	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	521	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	TGGAGTGGTGCGGTCTGTGTG	0.468													30	76					0	0	0.729181	0	0		T	146678789	T	T	146678789	3	4	148	1	0	0	0	0	1	0	0	0	6812	759	27	1	1579	1	GRM1	6	146678789	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	4268977	146678789	24436278	43	76884											
SYNE1	23345	broad.mit.edu	37	chr6	152652266	152652266	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacttccttcattagttcGcgaccctgggcccaaagtcc	7	11	9	14	2	1	1	1	1	0	0	4	2	3	1	4	1	0	1	4	1	2	4	rs115535983	by1000genomes	TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr6:152652266G>A	uc010kiw.2	-	78	14156	c.13554C>T	c.(13552-13554)CGC>CGT	p.R4518R	SYNE1_uc003qot.3_Silent_p.R4447R|SYNE1_uc003qou.3_Silent_p.R4518R|SYNE1_uc010kiz.2_Silent_p.R273R	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4518	Cytoplasmic (Potential).|Spectrin 13.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCATTAGTTCGCGACCCTGGG	0.458										HNSCC(10;0.0054)			74	218					0	0	0.870114	0	0		A	152652266	A	A	152652266	2	1	148	1	0	0	0	0	0	0	0	1	15470	1074	38	1		1	SYNE1	6	152652266	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08	5973477	152652266	18462801	44	76885											
MACC1	346389	broad.mit.edu	37	chr7	20198397	20198397	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttggtgataaaggagcAgacttgatttcctccttctt	9	17	8	7	0	1	3	0	2	1	1	3	4	3	4	2	2	1	1	2	2	2	7			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr7:20198397A>T	uc003sus.3	-	5	1896	c.1587T>A	c.(1585-1587)TCT>TCA	p.S529S	MACC1_uc010kug.2_Silent_p.S529S	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	529					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						ATAAAGGAGCAGACTTGATTT	0.403													71	269					0	0	0.870114	0	0		T	20198397	T	T	20198397	2	4	148	1	0	0	0	0	0	0	0	1	9161	175	7	5		5	MACC1	7	20198397	Silent	SNP	A	TCGA-CG-5718-01A-11D-1600-08		20198397	138940266	45	76886											
IGFBP1	3484	broad.mit.edu	37	chr7	45931540	45931540	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattctcttaggagccctgcCgaatagaactctacagagtc	11	11	8	11	1	2	2	0	0	2	2	4	4	2	3	2	1	4	0	2	1	6	5			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr7:45931540C>T	uc003tnp.2	+	3	822	c.529C>T	c.(529-531)CGA>TGA	p.R177*	IGFBP1_uc003tno.3_Nonsense_Mutation_p.R177*|IGFBP1_uc010kyn.2_Intron	NM_000596	NP_000587	P08833	IBP1_HUMAN	insulin-like growth factor binding protein 1	177	Thyroglobulin type-1.					extracellular space	insulin-like growth factor binding			lung(1)	1						GGAGCCCTGCCGAATAGAACT	0.413											OREG0018048	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	73					0	0	0.411799	0	0		T	45931540	T	T	45931540	4	4	148	1	0	0	0	0	0	1	0	0	7594	644	23	1	539	1	IGFBP1	7	45931540	Nonsense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	25733143	45931540	113207123	46	76887											
RHBDD2	57414	broad.mit.edu	37	chr7	75517437	75517437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggccctcctgcacccccGggcacatgcccaccttgcct	4	7	8	22	1	0	0	0	0	0	0	1	0	1	0	8	2	3	2	8	2	0	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr7:75517437G>A	uc003udw.1	+	4	949	c.865G>A	c.(865-867)GGG>AGG	p.G289R	RHBDD2_uc003udv.1_Missense_Mutation_p.G148R	NM_001040456	NP_001035546	Q6NTF9	RHBD2_HUMAN	rhomboid domain containing 2 isoform a	289						integral to membrane	serine-type endopeptidase activity				0						CTGCACCCCCGGGCACATGCC	0.652													51	181					0	0	0.870114	0	0		A	75517437	A	A	75517437	3	1	148	1	0	0	0	0	1	0	0	0	13342	1116	39	1	879	1	RHBDD2	7	75517437	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	29585897	75517437	83621226	47	76888											
PCLO	27445	broad.mit.edu	37	chr7	82584541	82584541	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctcagcactttttaacgCcttttggctaccttctttct	5	18	4	14	1	3	0	1	0	2	0	4	0	4	0	3	1	3	2	3	1	2	8			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr7:82584541C>A	uc003uhx.2	-	5	6017	c.5728G>T	c.(5728-5730)GCG>TCG	p.A1910S	PCLO_uc003uhv.2_Missense_Mutation_p.A1910S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1841					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CTTTTTAACGCCTTTTGGCTA	0.343													17	72					3.52763e-06	3.64329e-06	0.520397	1	0		A	82584541	A	A	82584541	3	1	148	1	0	0	0	0	1	0	0	0	11602	739	26	5	9801	5	PCLO	7	82584541	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	7067104	82584541	76554122	48	76889											
PCLO	27445	broad.mit.edu	37	chr7	82784814	82784814	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcccaggctgctccgatgaAggcttctctgacccagtctg	6	9	12	14	1	2	2	0	2	2	0	4	3	3	2	3	3	1	3	3	3	1	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr7:82784814A>C	uc003uhx.2	-	2	1432	c.1143T>G	c.(1141-1143)CCT>CCG	p.P381P	PCLO_uc003uhv.2_Silent_p.P381P	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	341	Gln-rich.|Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GCTCCGATGAAGGCTTCTCTG	0.597													25	95					0	0	0.654019	0	0		C	82784814	C	C	82784814	2	2	148	1	0	0	0	0	0	0	0	1	11602	59	3	5		5	PCLO	7	82784814	Silent	SNP	A	TCGA-CG-5718-01A-11D-1600-08	200273	82784814	76353849	49	76890											
LMTK2	22853	broad.mit.edu	37	chr7	97800978	97800978	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gccatgcacaagctgcacttCctgcacaggtgggtacctgc	8	8	11	14	0	0	0	0	0	0	0	1	0	1	0	3	2	6	5	3	2	2	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr7:97800978C>T	uc003upd.1	+	7	1076	c.783C>T	c.(781-783)TTC>TTT	p.F261F		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	261	Protein kinase.				early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					AGCTGCACTTCCTGCACAGGT	0.657													7	30					0	0	0.27861	0	0		T	97800978	T	T	97800978	2	4	148	1	0	0	0	0	0	0	0	1	8876	854	30	4		4	LMTK2	7	97800978	Silent	SNP	C	TCGA-CG-5718-01A-11D-1600-08	15016164	97800978	61337685	50	76891											
RELN	5649	broad.mit.edu	37	chr7	103141292	103141292	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccctgcagttgtccaagCatccagggcccaggtagaaa	10	6	12	13	0	0	1	0	0	0	1	2	1	2	1	5	3	2	4	5	3	3	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr7:103141292C>A	uc003vca.2	-	53	8727	c.8567G>T	c.(8566-8568)TGC>TTC	p.C2856F	RELN_uc010liz.2_Missense_Mutation_p.C2856F	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2856	EGF-like 7.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		GTTGTCCAAGCATCCAGGGCC	0.488													65	248					2.04494e-18	2.2602e-18	0.870114	1	0		A	103141292	A	A	103141292	3	1	148	1	0	0	0	0	1	0	0	0	13245	710	25	5	1867	5	RELN	7	103141292	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	5340314	103141292	55997371	51	76892											
RHOBTB2	23221	broad.mit.edu	37	chr8	22874894	22874894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcaagcggcagcccaaacGgcgttggctcttctggaaca	9	7	11	14	3	3	0	1	0	2	0	3	1	3	1	2	4	4	3	2	4	3	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr8:22874894G>A	uc003xcq.2	+	10	2633	c.2096G>A	c.(2095-2097)CGG>CAG	p.R699Q	RHOBTB2_uc003xcp.2_Missense_Mutation_p.R721Q|RHOBTB2_uc011kzp.1_Missense_Mutation_p.R706Q|uc003xcr.2_Intron	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	699					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		CAGCCCAAACGGCGTTGGCTC	0.448													20	17					0	0	0.575678	0	0		A	22874894	A	A	22874894	3	1	148	1	0	0	0	0	1	0	0	0	13359	1116	39	1	2215	1	RHOBTB2	8	22874894	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08		22874894	123489128	52	76893											
DMRT1	1761	broad.mit.edu	37	chr9	894128	894128	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcccctcgggggatcccCtgtgaagaacagccttcggg	9	7	12	13	2	0	2	0	1	0	1	4	3	2	3	5	3	2	0	5	3	3	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr9:894128C>T	uc003zgv.2	+	3	904	c.755C>T	c.(754-756)CCT>CTT	p.P252L	DMRT1_uc003zgu.1_Missense_Mutation_p.P252L	NM_021951	NP_068770	Q9Y5R6	DMRT1_HUMAN	doublesex and mab-3 related transcription factor	252					cell differentiation|male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(10;2.66e-10)|Lung NSC(10;2.82e-10)|Breast(48;0.232)		Lung(218;0.037)		GGGGGATCCCCTGTGAAGAAC	0.527											OREG0019071	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	48	68					0	0	0.864702	0	0		T	894128	T	T	894128	3	4	148	1	0	0	0	0	1	0	0	0	4591	681	24	4	765	4	DMRT1	9	894128	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08		894128	140319303	53	76894											
FAM75A6	389730	broad.mit.edu	37	chr9	43626810	43626810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggcctgacttgtccctggtGattcgtcccgaagctgcatc	5	12	11	13	2	0	2	0	2	0	0	4	3	2	2	3	2	2	2	3	2	1	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr9:43626810G>A	uc011lrb.1	-	4	1906	c.1877C>T	c.(1876-1878)TCA>TTA	p.S626L		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	626						integral to membrane					0						TGTCCCTGGTGATTCGTCCCG	0.537													32	61					0	0	0.827153	0	0		A	43626810	A	A	43626810	3	1	148	1	0	0	0	0	1	0	0	0	5636	1294	45	4	2158	4	FAM75A6	9	43626810	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	42732682	43626810	97586621	54	76895											
WDR5	11091	broad.mit.edu	37	chr9	137007762	137007762	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttttgtgttcagtttgAcgaaagcgtgaggatatggg	8	15	13	5	2	2	2	1	2	1	0	3	4	2	3	0	2	1	2	0	2	2	5			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr9:137007762A>G	uc004cey.2	+	7	620	c.449A>G	c.(448-450)GAC>GGC	p.D150G	WDR5_uc004cez.2_Missense_Mutation_p.D150G	NM_017588	NP_060058	P61964	WDR5_HUMAN	WD repeat domain 5	150	WD 3.				histone H3 acetylation|histone H3-K4 methylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ada2/Gcn5/Ada3 transcription activator complex|MLL1 complex|Set1C/COMPASS complex	protein binding				0		Myeloproliferative disorder(178;0.0255)|Medulloblastoma(224;0.123)		Epithelial(140;6.61e-13)|all cancers(34;5.66e-12)|OV - Ovarian serous cystadenocarcinoma(145;3.93e-08)|GBM - Glioblastoma multiforme(294;0.00326)|READ - Rectum adenocarcinoma(205;0.154)		GTTCAGTTTGACGAAAGCGTG	0.507													23	88					0	0	0.681144	0	0		G	137007762	G	G	137007762	3	3	148	1	0	0	0	0	1	0	0	0	17329	275	10	3	471	3	WDR5	9	137007762	Missense_Mutation	SNP	A	TCGA-CG-5718-01A-11D-1600-08	93380952	137007762	4205669	55	76896											
ARHGAP21	57584	broad.mit.edu	37	chr10	24874724	24874724	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgagggttcttcagaaggCgtgctctcttttcctagtga	6	14	13	8	1	3	3	1	2	2	1	5	3	4	3	1	3	1	2	1	3	2	5			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr10:24874724C>T	uc001isb.2	-	26	4981	c.4494G>A	c.(4492-4494)ACG>ACA	p.T1498T	ARHGAP21_uc010qdb.1_RNA	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	1497					signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						CTTCAGAAGGCGTGCTCTCTT	0.468													119	315					0	0	0.870114	0	0		T	24874724	T	T	24874724	2	4	148	1	0	0	0	0	0	0	0	1	871	755	27	1		1	ARHGAP21	10	24874724	Silent	SNP	C	TCGA-CG-5718-01A-11D-1600-08		24874724	110660023	56	76897											
CNNM2	54805	broad.mit.edu	37	chr10	104809484	104809484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaatctcacctggctatcGtgcagcgggtaaacaatgag	12	9	11	9	2	1	1	1	1	1	0	3	1	1	1	1	2	3	4	1	2	6	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr10:104809484G>A	uc001kwm.2	+	2	1766	c.1642G>A	c.(1642-1644)GTG>ATG	p.V548M	CNNM2_uc001kwn.2_Missense_Mutation_p.V548M	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	548	CBS 2.				ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CCTGGCTATCGTGCAGCGGGT	0.373													57	129					0	0	0.870114	0	0		A	104809484	A	A	104809484	3	1	148	1	0	0	0	0	1	0	0	0	3616	1145	40	1	1690	1	CNNM2	10	104809484	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	79934760	104809484	30725263	57	76898											
ADD3	120	broad.mit.edu	37	chr10	111860438	111860438	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcagatgccagccaaggcgtGattaccactcctcctcctcc	8	9	7	17	1	1	2	1	1	0	1	5	2	5	2	7	1	3	0	7	1	2	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr10:111860438G>A	uc001kyt.3	+	3	341	c.27G>A	c.(25-27)GTG>GTA	p.V9V	ADD3_uc001kys.3_Silent_p.V9V|ADD3_uc001kyu.2_Silent_p.V9V|ADD3_uc001kyv.2_Silent_p.V9V|ADD3_uc001kyw.2_Silent_p.V9V	NM_016824	NP_058432	Q9UEY8	ADDG_HUMAN	adducin 3 (gamma) isoform a	9						cytoskeleton	actin binding|calmodulin binding|metal ion binding|structural constituent of cytoskeleton			ovary(2)|skin(2)|large_intestine(1)	5		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;4.15e-05)|all cancers(201;0.000587)|BRCA - Breast invasive adenocarcinoma(275;0.0742)		GCCAAGGCGTGATTACCACTC	0.413													12	56					0	0	0.435327	0	0		A	111860438	A	A	111860438	2	1	148	1	0	0	0	0	0	0	0	1	306	1277	45	4		4	ADD3	10	111860438	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08	7050954	111860438	23674309	58	76899											
OR51D1	390038	broad.mit.edu	37	chr11	4661733	4661733	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcctcatcctgtgggctgTtttggagctgtcctctcgga	4	15	11	11	1	2	0	1	0	1	0	6	2	5	2	3	3	1	3	3	3	1	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr11:4661733T>C	uc010qyk.1	+	1	713	c.713T>C	c.(712-714)GTT>GCT	p.V238A		NM_001004751	NP_001004751	Q8NGF3	O51D1_HUMAN	olfactory receptor, family 51, subfamily D,	238	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;2.74e-13)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|GBM - Glioblastoma multiforme(2;0.0841)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTGTGGGCTGTTTTGGAGCTG	0.512													39	129					0	0	0.804634	0	0		C	4661733	C	C	4661733	3	2	148	1	0	0	0	0	1	0	0	0	11112	1725	60	3	715	3	OR51D1	11	4661733	Missense_Mutation	SNP	T	TCGA-CG-5718-01A-11D-1600-08		4661733	130344783	59	76900											
GALNTL4	374378	broad.mit.edu	37	chr11	11400736	11400736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttcctgcttgctgtgaCgcacgactttgatgaagcct	6	12	11	12	2	0	3	0	3	0	0	1	4	1	3	3	1	3	3	3	1	1	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr11:11400736C>T	uc001mjo.2	-	4	1092	c.671G>A	c.(670-672)CGT>CAT	p.R224H		NM_198516	NP_940918	Q6P9A2	GLTL4_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	224	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)		CTTGCTGTGACGCACGACTTT	0.562													22	49					0	0	0.654019	0	0		T	11400736	T	T	11400736	3	4	148	1	0	0	0	0	1	0	0	0	6238	536	19	1	1184	1	GALNTL4	11	11400736	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	6739003	11400736	123605780	60	76901											
MUC15	143662	broad.mit.edu	37	chr11	26586967	26586967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaagaccaagtgaagttttCtgaagacagagcaggtgtag	15	8	12	6	0	1	5	0	2	1	3	1	5	1	5	1	1	1	3	1	1	5	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr11:26586967C>T	uc001mqx.2	-	2	705	c.439G>A	c.(439-441)GAA>AAA	p.E147K	ANO3_uc010rdr.1_Intron|ANO3_uc001mqt.3_Intron|ANO3_uc010rds.1_Intron|ANO3_uc010rdt.1_Intron|MUC15_uc001mqw.2_Missense_Mutation_p.E174K|MUC15_uc001mqy.2_Missense_Mutation_p.E174K	NM_145650	NP_663625	Q8N387	MUC15_HUMAN	mucin 15 isoform b	147	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						GTGAAGTTTTCTGAAGACAGA	0.433													51	152					0	0	0.870114	0	0		T	26586967	T	T	26586967	3	4	148	1	0	0	0	0	1	0	0	0	9990	922	32	4	577	4	MUC15	11	26586967	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	15186231	26586967	108419549	61	76902											
KCNA4	3739	broad.mit.edu	37	chr11	30033281	30033281	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatggagattaagatgacCaggacggacacaatggctat	16	7	11	7	1	0	3	0	1	0	2	0	6	0	5	1	4	0	1	1	4	4	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr11:30033281C>T	uc001msk.2	-	2	2097	c.945G>A	c.(943-945)CTG>CTA	p.L315L		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	315	Helical; Name=Segment S1; (Potential).					voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TTAAGATGACCAGGACGGACA	0.517													33	106					0	0	0.779181	0	0		T	30033281	T	T	30033281	2	4	148	1	0	0	0	0	0	0	0	1	8021	581	21	4		4	KCNA4	11	30033281	Silent	SNP	C	TCGA-CG-5718-01A-11D-1600-08	3446314	30033281	104973235	62	76903											
GDPD4	220032	broad.mit.edu	37	chr11	76956374	76956374	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atcacgcttactacttggcgGacaaatgtgtgtctgagagg	10	11	12	8	2	2	1	1	1	1	1	2	3	2	2	0	3	2	1	0	3	3	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr11:76956374G>A	uc001oyf.2	-	11	1289	c.1038C>T	c.(1036-1038)GTC>GTT	p.V346V		NM_182833	NP_878253	Q6W3E5	GDPD4_HUMAN	glycerophosphodiester phosphodiesterase domain	346	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding			skin(1)	1						CTACTTGGCGGACAAATGTGT	0.428													55	141					0	0	0.870114	0	0		A	76956374	A	A	76956374	2	1	148	1	0	0	0	0	0	0	0	1	6341	1161	41	4		4	GDPD4	11	76956374	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08	46923093	76956374	58050142	63	76904											
A2M	2	broad.mit.edu	37	chr12	9222365	9222365	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaaggtaaatcaagacatgGttgctgctgacttctgtccg	10	12	10	9	1	3	2	2	1	1	1	4	2	4	2	1	2	2	4	1	2	4	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr12:9222365G>T	uc001qvk.1	-	33	4352	c.4239C>A	c.(4237-4239)AAC>AAA	p.N1413K	A2M_uc001qvj.1_Missense_Mutation_p.N455K|A2M_uc009zgk.1_Missense_Mutation_p.N1263K	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1413					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	TCAAGACATGGTTGCTGCTGA	0.383													60	191					1.64573e-32	1.90241e-32	0.870114	1	0		T	9222365	T	T	9222365	3	4	148	1	0	0	0	0	1	0	0	0	4	1252	44	5	201	5	A2M	12	9222365	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08		9222365	124629530	64	76905											
TMTC2	160335	broad.mit.edu	37	chr12	83526052	83526052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggcagactccagaaggccGaggccaactacctgcgggcc	10	4	13	14	2	0	2	0	0	0	2	1	3	1	2	5	4	3	1	5	4	3	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr12:83526052G>A	uc001szt.2	+	12	2827	c.2395G>A	c.(2395-2397)GAG>AAG	p.E799K	TMTC2_uc010suk.1_Missense_Mutation_p.E554K	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	799	TPR 10.					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						CCAGAAGGCCGAGGCCAACTA	0.512													9	26					0	0	0.361761	0	0		A	83526052	A	A	83526052	3	1	148	1	0	0	0	0	1	0	0	0	16286	1059	37	1	2441	1	TMTC2	12	83526052	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	74303687	83526052	50325843	65	76906											
RNASE4	6038	broad.mit.edu	37	chr14	21167713	21167713	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgatgatgcaaagacggaaGatgactttgtatcactgcaa	14	11	10	6	1	1	5	1	3	0	2	1	6	1	6	0	1	2	3	0	1	4	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr14:21167713G>A	uc001vxy.3	+	2	746	c.183G>A	c.(181-183)AAG>AAA	p.K61K	RNASE4_uc001vxx.3_RNA|RNASE4_uc001vya.2_Silent_p.K61K	NM_002937	NP_002928	P34096	RNAS4_HUMAN	ribonuclease, RNase A family, 4 precursor	61					mRNA cleavage	extracellular region	nucleic acid binding|pancreatic ribonuclease activity			central_nervous_system(1)	1	all_cancers(95;0.00304)		Epithelial(56;5.13e-07)|all cancers(55;4.73e-06)	GBM - Glioblastoma multiforme(265;0.0133)		AAAGACGGAAGATGACTTTGT	0.498													56	290					0	0	0.870114	0	0		A	21167713	A	A	21167713	2	1	148	1	0	0	0	0	0	0	0	1	13431	933	33	4		4	RNASE4	14	21167713	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08		21167713	86181827	66	76907											
HECTD1	25831	broad.mit.edu	37	chr14	31598579	31598579	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcgtaccctggtgcaagcTtgaggtcaaattttccttct	7	14	10	10	1	2	1	1	1	1	0	4	1	3	1	2	3	3	3	2	3	3	5			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr14:31598579T>C	uc001wrc.1	-	25	4487	c.3998A>G	c.(3997-3999)AAG>AGG	p.K1333R	HECTD1_uc001wrb.1_5'Flank|HECTD1_uc001wrd.1_Intron	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1333	MIB/HERC2.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		TGGTGCAAGCTTGAGGTCAAA	0.507													93	57					0	0	0.870114	0	0		C	31598579	C	C	31598579	3	2	148	1	0	0	0	0	1	0	0	0	7055	1609	56	3	3910	3	HECTD1	14	31598579	Missense_Mutation	SNP	T	TCGA-CG-5718-01A-11D-1600-08	10430866	31598579	75750961	67	76908											
FSCB	84075	broad.mit.edu	37	chr14	44975349	44975349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcagcaggtctgggctccGctttagcagtggcctcttca	5	12	11	13	1	4	0	2	0	2	0	5	0	5	0	2	3	2	4	2	3	1	4	rs139581441	byFrequency	TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr14:44975349G>A	uc001wvn.2	-	1	1151	c.842C>T	c.(841-843)GCG>GTG	p.A281V		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	281						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		TCTGGGCTCCGCTTTAGCAGT	0.483													59	43					0	0	0.870114	0	0		A	44975349	A	A	44975349	3	1	148	1	0	0	0	0	1	0	0	0	6080	1087	38	1	1639	1	FSCB	14	44975349	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	13376770	44975349	62374191	68	76909											
SIPA1L1	26037	broad.mit.edu	37	chr14	72152300	72152300	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctcctccagaaagagccgCcaacatccctcgaagcatct	11	6	7	17	2	1	2	0	0	1	2	5	3	4	2	6	0	3	1	6	0	3	0	rs144712845		TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr14:72152300C>A	uc001xms.2	+	10	3674	c.3326C>A	c.(3325-3327)GCC>GAC	p.A1109D	SIPA1L1_uc001xmt.2_Missense_Mutation_p.A1109D|SIPA1L1_uc001xmu.2_Missense_Mutation_p.A1109D|SIPA1L1_uc001xmv.2_Missense_Mutation_p.A1109D|SIPA1L1_uc010ttm.1_Missense_Mutation_p.A584D	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1109					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		GAAAGAGCCGCCAACATCCCT	0.557													37	33					1.76056e-25	2.01664e-25	0.859065	1	0		A	72152300	A	A	72152300	3	1	148	1	0	0	0	0	1	0	0	0	14354	739	26	5	3360	5	SIPA1L1	14	72152300	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	27176951	72152300	35197240	69	76910											
CDC42BPB	9578	broad.mit.edu	37	chr14	103434850	103434850	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacttatcttttaacatcaaGatttctttctgcagggccag	11	15	6	9	0	4	1	1	0	3	1	4	1	4	1	1	1	3	1	1	1	4	5			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr14:103434850G>A	uc001ymi.1	-	15	2431	c.2199C>T	c.(2197-2199)ATC>ATT	p.I733I		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	733	Potential.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TTAACATCAAGATTTCTTTCT	0.438													45	134					0	0	0.853193	0	0		A	103434850	A	A	103434850	2	1	148	1	0	0	0	0	0	0	0	1	3076	932	33	4		4	CDC42BPB	14	103434850	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08	31282550	103434850	3914690	70	76911											
ATP10A	57194	broad.mit.edu	37	chr15	25963546	25963546	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtacctggccagacgctgcGctgcggggagagggcgcagg	6	4	20	11	4	0	2	0	0	0	2	0	3	0	2	2	6	3	4	2	6	1	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr15:25963546G>A	uc010ayu.2	-	8	1470	c.1364C>T	c.(1363-1365)GCG>GTG	p.A455V		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	455	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CAGACGCTGCGCTGCGGGGAG	0.662													3	11					0	0	0.115264	0	0		A	25963546	A	A	25963546	3	1	148	1	0	0	0	0	1	0	0	0	1117	1101	38	1	3191	1	ATP10A	15	25963546	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08		25963546	76567846	71	76912											
SGK269	79834	broad.mit.edu	37	chr15	77473569	77473569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacatcctcttcactctcctCgccactggaaaactctgggt	8	12	6	15	1	4	0	1	0	3	0	7	1	5	1	3	2	2	0	3	2	3	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr15:77473569C>T	uc002bcm.2	-	3	1008	c.700G>A	c.(700-702)GAG>AAG	p.E234K	SGK269_uc002bcn.2_Missense_Mutation_p.E234K	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	234					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		TCACTCTCCTCGCCACTGGAA	0.488													78	190					0	0	0.870114	0	0		T	77473569	T	T	77473569	3	4	148	1	0	0	0	0	1	0	0	0	14236	893	31	1	4556	1	SGK269	15	77473569	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	51510023	77473569	25057823	72	76913											
SSTR5	6755	broad.mit.edu	37	chr16	1129842	1129842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgtgcctccgcaagggctCtggtgccaaggacgctgacg	6	8	14	13	3	2	1	0	1	2	0	3	2	3	2	3	3	2	3	3	3	2	0			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr16:1129842C>T	uc002ckq.2	+	1	1062	c.974C>T	c.(973-975)TCT>TTT	p.S325F	LOC146336_uc002cko.2_5'Flank|LOC146336_uc002ckp.1_5'Flank	NM_001053	NP_001044	P35346	SSR5_HUMAN	somatostatin receptor 5	325	Cytoplasmic (Potential).				negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			lung(1)	1		Hepatocellular(780;0.00369)			Octreotide(DB00104)	CGCAAGGGCTCTGGTGCCAAG	0.667													7	18					0	0	0.248553	0	0		T	1129842	T	T	1129842	3	4	148	1	0	0	0	0	1	0	0	0	15226	913	32	4	976	4	SSTR5	16	1129842	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08		1129842	89224911	73	76914											
MKL2	57496	broad.mit.edu	37	chr16	14345840	14345840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaatccagaaatgctcCgcttccatccctgcaaaatg	11	11	5	14	1	2	1	1	0	1	1	6	1	6	1	4	0	2	3	4	0	4	2	rs147357478		TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr16:14345840C>T	uc010uza.1	+	14	2680	c.2525C>T	c.(2524-2526)CCG>CTG	p.P842L	MKL2_uc002dcg.2_Missense_Mutation_p.P792L|MKL2_uc002dcj.2_Missense_Mutation_p.P87L	NM_014048	NP_054767	Q9ULH7	MKL2_HUMAN	megakaryoblastic leukemia 2 protein	831					cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5						AGAAATGCTCCGCTTCCATCC	0.488													48	156					0	0	0.864702	0	0		T	14345840	T	T	14345840	3	4	148	1	0	0	0	0	1	0	0	0	9620	652	23	1	2421	1	MKL2	16	14345840	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	13215998	14345840	76008913	74	76915											
SMG1	23049	broad.mit.edu	37	chr16	18828719	18828719	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagttcaaataacgccgcaTccaggtttaaggcttctgca	11	12	8	10	2	2	0	1	0	1	0	3	0	3	0	2	2	2	5	2	2	4	6			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr16:18828719T>C	uc002dfm.2	-	57	10331	c.9968A>G	c.(9967-9969)GAT>GGT	p.D3323G	SMG1_uc010bwb.2_Missense_Mutation_p.D3183G|SMG1_uc010bwa.2_Missense_Mutation_p.D2054G	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	3323					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TAACGCCGCATCCAGGTTTAA	0.398													8	12					0	0	0.27861	0	0		C	18828719	C	C	18828719	3	2	148	1	0	0	0	0	1	0	0	0	14820	1435	50	3	1045	3	SMG1	16	18828719	Missense_Mutation	SNP	T	TCGA-CG-5718-01A-11D-1600-08	4482879	18828719	71526034	75	76916											
TP53	7157	broad.mit.edu	37	chr17	7578556	7578556	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgagggcaggggagtacTgtaggaagaggaaggagaca	13	6	19	3	0	0	3	0	1	0	2	0	7	0	6	0	6	1	4	0	6	4	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr17:7578556T>C	uc002gim.2	-	5	570	c.376_splice	c.e5-1	p.Y126_splice	TP53_uc002gig.1_Splice_Site_p.Y126_splice|TP53_uc002gih.2_Splice_Site_p.Y126_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'UTR|TP53_uc010cng.1_5'UTR|TP53_uc002gii.1_5'UTR|TP53_uc010cnh.1_Splice_Site_p.Y126_splice|TP53_uc010cni.1_Splice_Site_p.Y126_splice|TP53_uc002gij.2_Splice_Site_p.Y126_splice|TP53_uc010cnj.1_Splice_Site|TP53_uc002gin.2_Splice_Site_p.Y33_splice|TP53_uc002gio.2_Splice_Site|TP53_uc010vug.1_Splice_Site_p.Y87_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.?(14)|p.0?(7)|p.V73fs*9(1)|p.Y126fs*11(1)|p.P13fs*18(1)|p.T125_Y126insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		AGGGGAGTACTGTAGGAAGAG	0.552		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			20	19					0	0	0.557998	0	0		C	7578556	C	C	7578556	5	2	148	1	0	0	0	0	0	0	1	0	16407	1594	55	3	924	3	TP53	17	7578556	Splice_Site	SNP	T	TCGA-CG-5718-01A-11D-1600-08		7578556	73616654	76	76917											
CHD3	1107	broad.mit.edu	37	chr17	7797156	7797156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggcggagtaagagcccccGagtgcctgatggacgcaaga	11	4	16	10	3	0	3	0	1	0	2	0	7	0	5	3	3	2	2	3	3	2	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr17:7797156G>A	uc002gje.2	+	6	977	c.827G>A	c.(826-828)CGA>CAA	p.R276Q	CHD3_uc002gjd.2_Missense_Mutation_p.R335Q|CHD3_uc002gjf.2_Missense_Mutation_p.R276Q|CHD3_uc002gjg.1_Missense_Mutation_p.R108Q	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	276					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				AAGAGCCCCCGAGTGCCTGAT	0.527													73	247					0	0	0.870114	0	0		A	7797156	A	A	7797156	3	1	148	1	0	0	0	0	1	0	0	0	3329	1058	37	1	1130	1	CHD3	17	7797156	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	218600	7797156	73398054	77	76918											
SSH2	85464	broad.mit.edu	37	chr17	27958032	27958032	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaaggcctccttcagaacTagtcaattcaagtcctgccc	10	9	9	13	0	3	1	3	0	0	1	5	2	5	2	4	2	2	0	4	2	5	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr17:27958032T>G	uc002heo.1	-	15	4099	c.4099A>C	c.(4099-4101)AGT>CGT	p.S1367R	SSH2_uc010wbh.1_Missense_Mutation_p.S1394R	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1367					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						CCTTCAGAACTAGTCAATTCA	0.577													10	144					0	0	0.361761	0	0		G	27958032	G	G	27958032	3	3	148	1	0	0	0	0	1	0	0	0	15210	1522	53	5	176	5	SSH2	17	27958032	Missense_Mutation	SNP	T	TCGA-CG-5718-01A-11D-1600-08	20160876	27958032	53237178	78	76919											
KCNJ2	3759	broad.mit.edu	37	chr17	68171975	68171975	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatcgtatatttctggtgtcCccaatcactatagtccatga	10	14	7	10	1	2	1	1	1	1	0	5	2	4	1	3	1	0	1	3	1	5	5			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr17:68171975C>T	uc010dfg.2	+	2	1196	c.795C>T	c.(793-795)TCC>TCT	p.S265S	KCNJ2_uc002jir.2_Silent_p.S265S	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	265	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					TTCTGGTGTCCCCAATCACTA	0.393													33	121					0	0	0.779181	0	0		T	68171975	T	T	68171975	2	4	148	1	0	0	0	0	0	0	0	1	8067	610	22	4		4	KCNJ2	17	68171975	Silent	SNP	C	TCGA-CG-5718-01A-11D-1600-08	40213943	68171975	13023235	79	76920											
CASKIN2	57513	broad.mit.edu	37	chr17	73499201	73499201	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agctgggccttctccgttctCcagtccctcgatggccatca	5	11	9	16	2	3	0	1	0	2	0	7	1	4	0	5	2	1	2	5	2	0	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr17:73499201C>G	uc002joc.2	-	18	2504	c.1954G>C	c.(1954-1956)GAG>CAG	p.E652Q	CASKIN2_uc010wsc.1_Missense_Mutation_p.E570Q	NM_020753	NP_065804	Q8WXE0	CSKI2_HUMAN	cask-interacting protein 2 isoform a	652						cytoplasm				pancreas(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			TCTCCGTTCTCCAGTCCCTCG	0.711													4	4					0	0	0.184627	0	0		G	73499201	G	G	73499201	3	3	148	1	0	0	0	0	1	0	0	0	2670	864	30	5	1666	5	CASKIN2	17	73499201	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	5327226	73499201	7696009	80	76921											
FAM38B	63895	broad.mit.edu	37	chr18	10681657	10681657	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctactatagggatttacttaCggtgtccctagaaaaagctt	12	13	8	8	1	0	1	0	0	0	1	1	2	1	2	1	2	4	1	1	2	8	8			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr18:10681657C>T	uc002kor.3	-	9	1451	c.1311_splice	c.e9+1	p.T437_splice	FAM38B_uc002koq.2_Splice_Site_p.T272_splice	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B							integral to membrane	ion channel activity			ovary(1)	1						GATTTACTTACGGTGTCCCTA	0.418													58	157					0	0	0.870114	0	0		T	10681657	T	T	10681657	5	4	148	1	0	0	0	0	0	0	1	0	5569	550	19	1	841	1	FAM38B	18	10681657	Splice_Site	SNP	C	TCGA-CG-5718-01A-11D-1600-08		10681657	67395591	81	76922											
MC5R	4161	broad.mit.edu	37	chr18	13825858	13825858	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgtcaaaaacaagtcttcaCcatgtgaagacatgggcatt	15	10	8	8	0	3	2	2	1	1	1	3	2	3	2	1	1	1	1	1	1	4	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr18:13825858C>A	uc010xaf.1	+	1	94	c.94C>A	c.(94-96)CCA>ACA	p.P32T		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	32	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6						CAAGTCTTCACCATGTGAAGA	0.468													39	92					1.30998e-17	1.42291e-17	0.812448	1	0		A	13825858	A	A	13825858	3	1	148	1	0	0	0	0	1	0	0	0	9385	507	18	5	96	5	MC5R	18	13825858	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	3144201	13825858	64251390	82	76923											
KIAA1632	57724	broad.mit.edu	37	chr18	43510778	43510778	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaaagacacttctcaaagTtggtaaaatgttctgggtct	14	12	9	6	0	3	2	1	0	3	2	4	2	3	2	0	2	0	3	0	2	5	4			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr18:43510778T>A	uc002lbm.2	-	12	2376	c.2276A>T	c.(2275-2277)AAC>ATC	p.N759I	KIAA1632_uc002lbo.1_Missense_Mutation_p.N759I	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	759					autophagy						0						CTTCTCAAAGTTGGTAAAATG	0.368													46	31					0	0	0.870114	0	0		A	43510778	A	A	43510778	3	1	148	1	0	0	0	0	1	0	0	0	8265	1725	60	5	5595	5	KIAA1632	18	43510778	Missense_Mutation	SNP	T	TCGA-CG-5718-01A-11D-1600-08	29684920	43510778	34566470	83	76924											
MAP2K7	5609	broad.mit.edu	37	chr19	7977035	7977035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccttctcttgctctagcCttactaaagatcacaggaag	10	13	6	12	0	3	1	1	0	2	1	5	2	4	2	2	1	3	1	2	1	5	6			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr19:7977035C>T	uc002mit.2	+	10	1146	c.1081C>T	c.(1081-1083)CTT>TTT	p.L361F	MAP2K7_uc002miv.2_Missense_Mutation_p.L368F|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.L368F|MAP2K7_uc010dvv.2_Missense_Mutation_p.L236F	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	361	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	TTGCTCTAGCCTTACTAAAGA	0.607													6	83					0	0	0.248553	0	0		T	7977035	T	T	7977035	3	4	148	1	0	0	0	0	1	0	0	0	9260	695	24	4	1119	4	MAP2K7	19	7977035	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08		7977035	51151948	84	76925											
CD22	933	broad.mit.edu	37	chr19	35836516	35836516	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctcccaggttagaagggcCcccctctctgaaggccccca	7	6	9	19	0	1	2	0	1	1	1	3	2	2	2	7	3	0	1	7	3	3	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr19:35836516C>T	uc010edt.2	+	12	2297	c.2220C>T	c.(2218-2220)GCC>GCT	p.A740A	CD22_uc010xst.1_Silent_p.A568A|CD22_uc010edu.2_Silent_p.A652A|CD22_uc010edv.2_Intron|CD22_uc002nzb.3_Silent_p.A563A|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	740	Cytoplasmic (Potential).				cell adhesion		protein binding|sugar binding			ovary(5)|lung(3)|breast(1)	9	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.83e-19)|OV - Ovarian serous cystadenocarcinoma(14;3.19e-18)|all cancers(14;3.41e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)		OspA lipoprotein(DB00045)	TTAGAAGGGCCCCCCTCTCTG	0.582													17	48					0	0	0.539581	0	0		T	35836516	T	T	35836516	2	4	148	1	0	0	0	0	0	0	0	1	2988	610	22	4		4	CD22	19	35836516	Silent	SNP	C	TCGA-CG-5718-01A-11D-1600-08	27859481	35836516	23292467	85	76926											
RYR1	6261	broad.mit.edu	37	chr19	38976765	38976765	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcggtgcgcgacggtgggCagcacgctcgcgaccccgtc	5	4	17	15	8	0	0	0	0	0	0	2	2	0	0	2	4	2	3	2	4	0	0			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr19:38976765C>A	uc002oit.2	+	34	5600	c.5470C>A	c.(5470-5472)CAG>AAG	p.Q1824K	RYR1_uc002oiu.2_Missense_Mutation_p.Q1824K	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1824	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CGACGGTGGGCAGCACGCTCG	0.697													32	79					9.93527e-08	1.05197e-07	0.769981	1	0		A	38976765	A	A	38976765	3	1	148	1	0	0	0	0	1	0	0	0	13793	711	25	5	5604	5	RYR1	19	38976765	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	3140249	38976765	20152218	86	76927											
LILRA5	353514	broad.mit.edu	37	chr19	54818815	54818815	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggatgagattctctactgcGtaatcctgaaggtgtgaggc	9	11	13	8	2	1	3	0	3	1	1	3	5	2	4	1	3	2	1	1	3	3	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr19:54818815G>A	uc002qfe.2	-	7	903	c.783C>T	c.(781-783)TAC>TAT	p.Y261Y	LILRA5_uc002qff.2_Silent_p.Y249Y	NM_021250	NP_067073	A6NI73	LIRA5_HUMAN	leukocyte immunoglobulin-like receptor subfamily	261	Extracellular (Potential).				innate immune response	extracellular region|integral to membrane	receptor activity			upper_aerodigestive_tract(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TCTCTACTGCGTAATCCTGAA	0.567													19	90					0	0	0.539581	0	0		A	54818815	A	A	54818815	2	1	148	1	0	0	0	0	0	0	0	1	8804	1140	40	1		1	LILRA5	19	54818815	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08	15842050	54818815	4310168	87	76928											
ZNF264	9422	broad.mit.edu	37	chr19	57724120	57724120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaggccttcagtcgcagctCgtccctcactcagcatcaaa	11	8	7	15	2	4	0	4	0	0	0	7	0	5	0	2	1	2	3	2	1	2	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr19:57724120C>T	uc002qob.2	+	4	2068	c.1655C>T	c.(1654-1656)TCG>TTG	p.S552L		NM_003417	NP_003408	O43296	ZN264_HUMAN	zinc finger protein 264	552	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0135)		AGTCGCAGCTCGTCCCTCACT	0.463													36	105					0	0	0.788014	0	0		T	57724120	T	T	57724120	3	4	148	1	0	0	0	0	1	0	0	0	17829	893	31	1	1669	1	ZNF264	19	57724120	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	2905305	57724120	1404863	88	76929											
MKKS	8195	broad.mit.edu	37	chr20	10389282	10389282	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttcattacctaccttcagCtcatcccaggcagtgtcatt	9	13	6	13	0	4	0	4	0	0	0	5	0	5	0	3	1	3	3	3	1	2	5			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr20:10389282C>T	uc002wnt.1	-	4	2042	c.1155G>A	c.(1153-1155)GAG>GAA	p.E385E	MKKS_uc002wnu.1_Silent_p.E385E|MKKS_uc010zrd.1_RNA	NM_018848	NP_061336	Q9NPJ1	MKKS_HUMAN	McKusick-Kaufman syndrome protein	385					brain morphogenesis|cerebral cortex development|convergent extension involved in gastrulation|detection of mechanical stimulus involved in sensory perception of sound|fat cell differentiation|flagellum assembly|gonad development|heart looping|hippocampus development|intracellular transport|melanosome transport|photoreceptor cell maintenance|pigment granule aggregation in cell center|protein folding|regulation of cilium beat frequency involved in ciliary motility|sensory perception of smell|social behavior|spermatid development|striatum development	cytosol|microtubule organizing center|motile cilium	ATP binding|unfolded protein binding				0						CTACCTTCAGCTCATCCCAGG	0.393									Bardet-Biedl_syndrome				30	107					0	0	0.769981	0	0		T	10389282	T	T	10389282	2	4	148	1	0	0	0	0	0	0	0	1	9618	796	28	2		2	MKKS	20	10389282	Silent	SNP	C	TCGA-CG-5718-01A-11D-1600-08		10389282	52636238	89	76930											
PCSK2	5126	broad.mit.edu	37	chr20	17446060	17446060	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaggtccatcagtggcggcGcaatggggtcggcctggaat	7	7	17	10	4	1	0	1	0	0	0	3	2	2	1	2	7	0	1	2	7	2	0			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr20:17446060G>A	uc002wpm.2	+	11	1612	c.1292G>A	c.(1291-1293)CGC>CAC	p.R431H	PCSK2_uc002wpl.2_Missense_Mutation_p.R412H|PCSK2_uc010zrm.1_Missense_Mutation_p.R396H|PCSK2_uc002wpn.2_Missense_Mutation_p.R85H	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	431					enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CAGTGGCGGCGCAATGGGGTC	0.567													11	36					0	0	0.411799	0	0		A	17446060	A	A	17446060	3	1	148	1	0	0	0	0	1	0	0	0	11620	1087	38	1	1334	1	PCSK2	20	17446060	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	7056778	17446060	45579460	90	76931											
ZSWIM3	140831	broad.mit.edu	37	chr20	44506535	44506535	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaattaaagagagctcggccGgcaagcatgccactgaagtc	14	6	11	10	2	0	2	0	1	0	1	2	3	0	2	2	2	3	3	2	2	5	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr20:44506535G>A	uc002xqd.2	+	2	1541	c.1338G>A	c.(1336-1338)CCG>CCA	p.P446P	ZSWIM3_uc010zxg.1_Silent_p.P440P	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	446							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				GAGCTCGGCCGGCAAGCATGC	0.507													19	71					0	0	0.539581	0	0		A	44506535	A	A	44506535	2	1	148	1	0	0	0	0	0	0	0	1	18267	1103	39	1		1	ZSWIM3	20	44506535	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08	27060475	44506535	18518985	91	76932											
SYNJ1	8867	broad.mit.edu	37	chr21	34042633	34042633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccagcattcaattctacCatttcttcaaaaccaattgc	12	15	2	12	0	4	0	2	0	2	0	5	0	5	0	3	0	4	1	3	0	5	7			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr21:34042633C>T	uc002yqh.2	-	15	1893	c.1893G>A	c.(1891-1893)ATG>ATA	p.M631I	SYNJ1_uc011ads.1_Missense_Mutation_p.M587I|SYNJ1_uc002yqf.2_Missense_Mutation_p.M592I|SYNJ1_uc002yqg.2_Missense_Mutation_p.M587I|SYNJ1_uc002yqi.2_Missense_Mutation_p.M631I	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	592	Catalytic (Potential).						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						TCAATTCTACCATTTCTTCAA	0.343													17	52					0	0	0.539581	0	0		T	34042633	T	T	34042633	3	4	148	1	0	0	0	0	1	0	0	0	15477	594	21	4	3042	4	SYNJ1	21	34042633	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08		34042633	14087262	92	76933											
TTC3	7267	broad.mit.edu	37	chr21	38494156	38494156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgctctttctatgctggggGaatatgactgggccctgcaa	8	12	12	9	0	2	1	0	1	2	0	2	2	2	2	1	3	3	3	1	3	4	3			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr21:38494156G>A	uc002yvz.2	+	12	1045	c.940G>A	c.(940-942)GAA>AAA	p.E314K	TTC3_uc011aee.1_Missense_Mutation_p.E4K|TTC3_uc002ywa.2_Missense_Mutation_p.E314K|TTC3_uc002ywb.2_Missense_Mutation_p.E314K|TTC3_uc010gnf.2_Missense_Mutation_p.E79K|TTC3_uc002ywc.2_Missense_Mutation_p.E4K|TTC3_uc011aed.1_Missense_Mutation_p.E4K|TTC3_uc010gne.1_Missense_Mutation_p.E314K	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	314					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				TATGCTGGGGGAATATGACTG	0.353													26	68					0	0	0.667858	0	0		A	38494156	A	A	38494156	3	1	148	1	0	0	0	0	1	0	0	0	16723	1175	41	4	982	4	TTC3	21	38494156	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	4451523	38494156	9635739	93	76934											
RFPL2	10739	broad.mit.edu	37	chr22	32587233	32587233	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggacacgtcaaatctctcGgcaaggtcttgccgattctg	9	10	10	12	4	4	0	1	0	3	0	6	2	4	1	1	3	1	1	1	3	2	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr22:32587233G>A	uc003amg.3	-	5	1599	c.663C>T	c.(661-663)GCC>GCT	p.A221A	RFPL2_uc003ame.3_Silent_p.A160A|RFPL2_uc003amf.3_Silent_p.A131A|RFPL2_uc003amh.3_Silent_p.A131A	NM_001098527	NP_001091997	O75678	RFPL2_HUMAN	ret finger protein-like 2 isoform 2	221	B30.2/SPRY.						zinc ion binding			skin(1)	1						CAAATCTCTCGGCAAGGTCTT	0.577													25	125					0	0	0.667858	0	0		A	32587233	A	A	32587233	2	1	148	1	0	0	0	0	0	0	0	1	13279	1103	39	1		1	RFPL2	22	32587233	Silent	SNP	G	TCGA-CG-5718-01A-11D-1600-08		32587233	18717333	94	76935											
TNRC6B	23112	broad.mit.edu	37	chr22	40711358	40711358	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccactcatctctccaacAagatgtggaaaaaccatatt	15	9	4	13	0	2	1	1	0	1	1	4	2	3	2	4	1	2	0	4	1	5	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr22:40711358A>G	uc011aor.1	+	20	4961	c.4750A>G	c.(4750-4752)AAG>GAG	p.K1584E	TNRC6B_uc003aym.2_Missense_Mutation_p.K780E|TNRC6B_uc003ayn.3_Missense_Mutation_p.K1474E|TNRC6B_uc003ayo.2_Missense_Mutation_p.K1331E	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1584					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						TCTCTCCAACAAGATGTGGAA	0.493													22	51					0	0	0.654019	0	0		G	40711358	G	G	40711358	3	3	148	1	0	0	0	0	1	0	0	0	16366	131	5	3	4949	3	TNRC6B	22	40711358	Missense_Mutation	SNP	A	TCGA-CG-5718-01A-11D-1600-08	8124125	40711358	10593208	95	76936											
ATXN10	25814	broad.mit.edu	37	chr22	46125373	46125373	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaccaaggatgacatccCtgtgtttttgcggcatgctg	8	12	10	11	1	1	1	1	1	0	0	2	2	2	2	2	2	2	3	2	2	1	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chr22:46125373C>G	uc003bgm.1	+	7	1054	c.797C>G	c.(796-798)CCT>CGT	p.P266R	ATXN10_uc011aqt.1_Missense_Mutation_p.P202R|ATXN10_uc003bgn.1_Missense_Mutation_p.P77R	NM_013236	NP_037368	Q9UBB4	ATX10_HUMAN	ataxin 10	266					cell death|neuron projection development	dendrite|neuronal cell body|perinuclear region of cytoplasm				ovary(1)|kidney(1)	2		Ovarian(80;0.00973)|all_neural(38;0.0417)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0223)		GATGACATCCCTGTGTTTTTG	0.458													40	149					0	0	0.819951	0	0		G	46125373	G	G	46125373	3	3	148	1	0	0	0	0	1	0	0	0	1211	681	24	5	823	5	ATXN10	22	46125373	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	5414015	46125373	5179193	96	76937											
CNKSR2	22866	broad.mit.edu	37	chrX	21581449	21581449	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaggacacagggaagaagtCaaaaaagaagggtgataaga	22	3	13	3	0	1	4	1	1	0	3	1	6	1	6	0	3	0	0	0	3	8	1			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chrX:21581449C>G	uc004czx.1	+	13	1523	c.1487C>G	c.(1486-1488)TCA>TGA	p.S496*	CNKSR2_uc004czw.2_Nonsense_Mutation_p.S496*|CNKSR2_uc011mjn.1_Nonsense_Mutation_p.S447*|CNKSR2_uc011mjo.1_Nonsense_Mutation_p.S466*|CNKSR2_uc004czy.2_Nonsense_Mutation_p.S88*	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	496	DUF1170.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						GGGAAGAAGTCAAAAAAGAAG	0.383													13	77					0	0	0.435327	0	0		G	21581449	G	G	21581449	4	3	148	1	0	0	0	0	0	1	0	0	3610	838	29	5	1537	5	CNKSR2	23	21581449	Nonsense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08		21581449	133689111	97	76938											
CCDC120	90060	broad.mit.edu	37	chrX	48920041	48920041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaggtgaagtcagagcGtctgcgggggctgcttgacc	6	7	15	13	2	2	3	1	2	1	1	2	3	2	3	3	3	3	2	3	3	1	1	rs147084360		TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chrX:48920041G>A	uc010nik.2	+	4	599	c.92G>A	c.(91-93)CGT>CAT	p.R31H	CCDC120_uc011mmq.1_Missense_Mutation_p.R19H|CCDC120_uc004dmf.2_Missense_Mutation_p.R31H|CCDC120_uc010nil.2_Missense_Mutation_p.R31H|CCDC120_uc011mmr.1_Missense_Mutation_p.R31H|CCDC120_uc011mms.1_Missense_Mutation_p.R19H|CCDC120_uc004dmg.1_Silent_p.A109A	NM_033626	NP_296375	Q96HB5	CC120_HUMAN	coiled-coil domain containing 120 isoform 3	31							protein binding			pancreas(1)	1						AAGTCAGAGCGTCTGCGGGGG	0.647													14	48					0	0	0.457914	0	0		A	48920041	A	A	48920041	3	1	148	1	0	0	0	0	1	0	0	0	2759	1145	40	1	98	1	CCDC120	23	48920041	Missense_Mutation	SNP	G	TCGA-CG-5718-01A-11D-1600-08	27338592	48920041	106350519	98	76939											
RHOXF1	158800	broad.mit.edu	37	chrX	119243203	119243203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagcacgtagttcattggCgagcattaattctctctgat	9	14	9	9	2	4	1	2	1	2	0	5	2	4	1	0	1	2	4	0	1	2	5			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chrX:119243203C>T	uc004esk.1	-	3	577	c.502G>A	c.(502-504)GCC>ACC	p.A168T	uc004esi.1_Intron	NM_139282	NP_644811	Q8NHV9	RHXF1_HUMAN	Rhox homeobox family, member 1	168					gamete generation|multicellular organismal development|steroid hormone receptor signaling pathway	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGTTCATTGGCGAGCATTAAT	0.448													26	113					0	0	0.760397	0	0		T	119243203	T	T	119243203	3	4	148	1	0	0	0	0	1	0	0	0	13372	768	27	1	56	1	RHOXF1	23	119243203	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	70323162	119243203	36027357	99	76940											
DCAF12L1	139170	broad.mit.edu	37	chrX	125685718	125685718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctggatagtgcgctccCggctttccacaggtggaagt	7	9	13	12	2	0	0	0	0	0	0	2	2	2	2	3	4	2	2	3	4	2	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chrX:125685718C>T	uc004eul.2	-	1	1125	c.874G>A	c.(874-876)GGG>AGG	p.G292R		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	292	WD 3.									skin(3)|ovary(1)	4						AGTGCGCTCCCGGCTTTCCAC	0.612													24	72					0	0	0.681144	0	0		T	125685718	T	T	125685718	3	4	148	1	0	0	0	0	1	0	0	0	4267	652	23	1	521	1	DCAF12L1	23	125685718	Missense_Mutation	SNP	C	TCGA-CG-5718-01A-11D-1600-08	6442515	125685718	29584842	100	76941											
PLXNB3	5365	broad.mit.edu	37	chrX	153044076	153044076	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacacttctgctccccacTgtctggaggctctgcaagaa	9	10	8	14	0	3	1	0	0	3	1	4	2	4	2	2	2	3	3	2	2	3	2			TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chrX:153044076T>G	uc004fii.2	+	35	5746	c.5572T>G	c.(5572-5574)TGT>GGT	p.C1858G	PLXNB3_uc010nuk.2_Missense_Mutation_p.C1881G|PLXNB3_uc011mzd.1_Missense_Mutation_p.C1497G|SRPK3_uc004fik.2_5'UTR|SRPK3_uc010nul.2_5'Flank|SRPK3_uc004fin.2_5'Flank|SRPK3_uc004fil.2_5'Flank|SRPK3_uc004fim.2_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1858	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					TGCTCCCCACTGTCTGGAGGC	0.627													4	9					0	0	0.150653	0	0		G	153044076	G	G	153044076	3	3	148	1	0	0	0	0	1	0	0	0	12144	1580	55	5	5824	5	PLXNB3	23	153044076	Missense_Mutation	SNP	T	TCGA-CG-5718-01A-11D-1600-08	27358358	153044076	2226484	101	76942											
ATP6AP1	537	broad.mit.edu	37	chrX	153661991	153661991	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccctcagatgaggtcatCgggcaggtcctgagcacact	9	8	12	12	1	2	4	2	3	0	1	4	4	3	4	2	3	1	2	2	3	0	0	rs146695597		TCGA-CG-5718-01A-11D-1600-08	TCGA-CG-5718-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6984870c-6068-43b9-963e-19c487be25fa	29dcdb6f-c7c7-4b02-9dbb-f1abf297a26a	g.chrX:153661991C>A	uc004flf.1	+	6	670	c.609C>A	c.(607-609)ATC>ATA	p.I203I	ATP6AP1_uc004flg.1_RNA|ATP6AP1_uc004flh.1_Silent_p.I163I	NM_001183	NP_001174	Q15904	VAS1_HUMAN	ATPase, H+ transporting, lysosomal accessory	203					ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain|vacuolar membrane	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(3)|breast(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ATGAGGTCATCGGGCAGGTCC	0.572													30	97					2.85442e-18	3.12745e-18	0.750413	1	0		A	153661991	A	A	153661991	2	1	148	1	0	0	0	0	0	0	0	1	1166	874	31	5		5	ATP6AP1	23	153661991	Silent	SNP	C	TCGA-CG-5718-01A-11D-1600-08	617915	153661991	1608569	102	76943											
GPR153	387509	broad.mit.edu	37	chr1	6314708	6314708	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggtgtagaaggtggacacGaagaccttgcagagaccctc	12	6	14	9	1	0	3	0	0	0	3	1	6	0	4	2	3	1	2	2	3	3	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:6314708G>A	uc001amp.1	-	2	518	c.258C>T	c.(256-258)TTC>TTT	p.F86F		NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	86	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		AGGTGGACACGAAGACCTTGC	0.607													5	187					0	0	0.014758	0	0		A	6314708	A	A	6314708	2	1	149	1	0	0	0	0	0	0	0	1	6674	1049	37	1		1	GPR153	1	6314708	Silent	SNP	G	TCGA-CG-5719-01A-11D-1600-08		6314708	242935913	1	76944											
MYOM3	127294	broad.mit.edu	37	chr1	24424487	24424487	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagtgtaagttgctgagTcctcaatggcgcatctgaaa	11	10	11	9	1	2	2	1	2	1	0	3	2	3	2	1	1	1	5	1	1	3	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:24424487T>C	uc001bin.3	-	7	834	c.671A>G	c.(670-672)GAC>GGC	p.D224G	MYOM3_uc001bim.3_5'Flank|MYOM3_uc001bio.2_Missense_Mutation_p.D224G|MYOM3_uc001bip.1_5'UTR	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	224	Ig-like C2-type 1.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		AGTTGCTGAGTCCTCAATGGC	0.582													6	233					0	0	0.001168	0	0		C	24424487	C	C	24424487	3	2	149	1	0	0	0	0	1	0	0	0	10111	1667	58	3	3766	3	MYOM3	1	24424487	Missense_Mutation	SNP	T	TCGA-CG-5719-01A-11D-1600-08	18109779	24424487	224826134	2	76945											
MFSD2A	84879	broad.mit.edu	37	chr1	40424370	40424370	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttgcttctcctcattcCaggtgggccctttctctgcc	2	17	7	15	0	4	0	1	0	3	0	7	0	5	0	4	2	2	1	4	2	0	5			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:40424370C>T	uc001cev.2	+	3	446	c.265C>T	c.(265-267)CAG>TAG	p.Q89*	MFSD2A_uc010ojb.1_Intron|MFSD2A_uc001ceu.2_Intron|MFSD2A_uc010ojc.1_Intron|MFSD2A_uc009vvy.2_Intron	NM_001136493	NP_001129965	Q8NA29	MFS2A_HUMAN	major facilitator superfamily domain containing	89	Helical; (Potential).				transmembrane transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)|pancreas(1)	2						CTCCTCATTCCAGGTGGGCCC	0.572													5	267					0	0	0.001168	0	0		T	40424370	T	T	40424370	4	4	149	1	0	0	0	0	0	1	0	0	9548	595	21	4	275	4	MFSD2A	1	40424370	Nonsense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	15999883	40424370	208826251	3	76946											
TIE1	7075	broad.mit.edu	37	chr1	43772633	43772633	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctggaagccagccccCtgggcagcgccttctttcgg	5	9	11	16	2	1	0	0	0	1	0	2	1	1	1	5	3	4	1	5	3	2	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:43772633C>T	uc001ciu.2	+	4	686	c.607C>T	c.(607-609)CTG>TTG	p.L203L	TIE1_uc010okd.1_Silent_p.L203L|TIE1_uc010oke.1_Silent_p.L158L|TIE1_uc009vwq.2_Silent_p.L203L|TIE1_uc010okf.1_5'UTR|TIE1_uc010okg.1_5'Flank|TIE1_uc010okb.1_Silent_p.L203L|TIE1_uc010okc.1_Silent_p.L203L	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	203	Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AGCCAGCCCCCTGGGCAGCGC	0.632													3	102					0	0	0.004672	0	0		T	43772633	T	T	43772633	2	4	149	1	0	0	0	0	0	0	0	1	15918	680	24	4		4	TIE1	1	43772633	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08	3348263	43772633	205477988	4	76947											
C8A	731	broad.mit.edu	37	chr1	57349320	57349320	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccactcacaagacacttCattcttgaacgaattaaaca	16	10	3	12	1	3	2	2	1	1	1	4	3	4	2	1	0	2	0	1	0	5	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:57349320C>A	uc001cyo.2	+	6	953	c.821C>A	c.(820-822)TCA>TAA	p.S274*		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	274	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						CAAGACACTTCATTCTTGAAC	0.403													10	68					7.48243e-07	8.08585e-07	0.006214	1	0		A	57349320	A	A	57349320	4	1	149	1	0	0	0	0	0	1	0	0	2419	838	29	5	843	5	C8A	1	57349320	Nonsense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	13576687	57349320	191901301	5	76948											
NCSTN	23385	broad.mit.edu	37	chr1	160327004	160327004	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagagccgctggaaagatatCcgtgcccggatatttctcat	10	10	11	10	3	1	2	1	0	1	2	3	5	2	4	3	2	2	1	3	2	3	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:160327004C>T	uc001fvx.2	+	16	2092	c.1968C>T	c.(1966-1968)ATC>ATT	p.I656I	NCSTN_uc001fvy.2_Silent_p.I636I|NCSTN_uc010pjf.1_Silent_p.I518I|NCSTN_uc001fvz.2_Silent_p.I436I|NCSTN_uc010pjg.1_Silent_p.I398I	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	656	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GGAAAGATATCCGTGCCCGGA	0.517													22	56					0	0	0.014323	0	0		T	160327004	T	T	160327004	2	4	149	1	0	0	0	0	0	0	0	1	10260	845	30	4		4	NCSTN	1	160327004	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08	102977684	160327004	88923617	6	76949											
PBX1	5087	broad.mit.edu	37	chr1	164761842	164761842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctgagaagggcggagggtCggcggcagcggcggcagcgg	6	2	23	10	6	0	1	0	1	0	1	1	3	0	2	1	8	2	2	1	8	1	0			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:164761842C>T	uc001gct.2	+	3	635	c.377C>T	c.(376-378)TCG>TTG	p.S126L	PBX1_uc010pku.1_Missense_Mutation_p.S126L|PBX1_uc010pkv.1_Missense_Mutation_p.S43L|PBX1_uc001gcs.2_Missense_Mutation_p.S126L|PBX1_uc010pkw.1_Missense_Mutation_p.S16L	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	126					negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						GGCGGAGGGTcggcggcagcg	0.507			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								5	24					0	0	0.014758	0	0		T	164761842	T	T	164761842	3	4	149	1	0	0	0	0	1	0	0	0	11511	893	31	1	387	1	PBX1	1	164761842	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	4434838	164761842	84488779	7	76950											
SLC9A11	284525	broad.mit.edu	37	chr1	173552664	173552664	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctctaaaaatagaaaagtgGattctgttgccccgaaaatt	15	11	7	8	1	2	1	0	0	2	1	2	3	2	2	3	1	1	1	3	1	8	5			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:173552664G>A	uc001giz.2	-	6	1044	c.621C>T	c.(619-621)ATC>ATT	p.I207I	SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	207					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						TAGAAAAGTGGATTCTGTTGC	0.289													19	135					0	0	0.010504	0	0		A	173552664	A	A	173552664	2	1	149	1	0	0	0	0	0	0	0	1	14736	1164	41	4		4	SLC9A11	1	173552664	Silent	SNP	G	TCGA-CG-5719-01A-11D-1600-08	8790822	173552664	75697957	8	76951											
KCNT2	343450	broad.mit.edu	37	chr1	196274444	196274444	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgttggcggggtgagttaGctctgtgataatactgagac	9	12	14	6	1	1	3	0	3	1	1	1	4	1	3	0	3	2	3	0	3	3	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:196274444G>A	uc001gtd.1	-	22	2575	c.2515C>T	c.(2515-2517)CTA>TTA	p.L839L	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Silent_p.L765L|KCNT2_uc001gtf.1_Silent_p.L815L|KCNT2_uc001gtg.1_Intron|KCNT2_uc009wyu.2_Silent_p.L815L|KCNT2_uc001gth.1_Silent_p.L336L	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	839	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						GGGTGAGTTAGCTCTGTGATA	0.353													21	62					0	0	0.012319	0	0		A	196274444	A	A	196274444	2	1	149	1	0	0	0	0	0	0	0	1	8108	962	34	2		2	KCNT2	1	196274444	Silent	SNP	G	TCGA-CG-5719-01A-11D-1600-08	22721780	196274444	52976177	9	76952											
ESRRG	2104	broad.mit.edu	37	chr1	216741435	216741435	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacgtactctgtcaagacGcacccctgtgagcaaagaca	12	7	8	14	2	2	3	1	1	1	2	3	3	3	3	3	0	2	3	3	0	3	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:216741435G>T	uc001hkw.1	-	4	761	c.595C>A	c.(595-597)CGT>AGT	p.R199S	ESRRG_uc001hky.1_Missense_Mutation_p.R176S|ESRRG_uc009xdp.1_Missense_Mutation_p.R176S|ESRRG_uc001hkz.1_Missense_Mutation_p.R137S|ESRRG_uc010puc.1_Missense_Mutation_p.R176S|ESRRG_uc001hla.1_Missense_Mutation_p.R176S|ESRRG_uc001hlb.1_Missense_Mutation_p.R176S|ESRRG_uc010pud.1_Missense_Mutation_p.R7S|ESRRG_uc001hlc.1_Missense_Mutation_p.R176S|ESRRG_uc001hld.1_Missense_Mutation_p.R176S|ESRRG_uc001hkx.1_Missense_Mutation_p.R204S|ESRRG_uc009xdo.1_Missense_Mutation_p.R176S|ESRRG_uc001hle.1_Missense_Mutation_p.R176S	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	199	Nuclear receptor.				positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	CTGTCAAGACGCACCCCTGTG	0.507													14	113					6.81908e-15	7.42891e-15	0.020292	1	0		T	216741435	T	T	216741435	3	4	149	1	0	0	0	0	1	0	0	0	5270	1087	38	5	797	5	ESRRG	1	216741435	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	20466991	216741435	32509186	10	76953											
RYR2	6262	broad.mit.edu	37	chr1	237796936	237796936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttctctgttacttctgtcGtataagtaggcagaatcaaa	11	16	7	7	1	3	1	1	0	2	1	5	1	3	1	0	1	1	4	0	1	6	7			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:237796936G>A	uc001hyl.1	+	43	6734	c.6614G>A	c.(6613-6615)CGT>CAT	p.R2205H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2205	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TACTTCTGTCGTATAAGTAGG	0.388													65	232					0	0	0.01441	0	0		A	237796936	A	A	237796936	3	1	149	1	0	0	0	0	1	0	0	0	13794	1145	40	1	6784	1	RYR2	1	237796936	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	21055501	237796936	11453685	11	76954											
FMN2	56776	broad.mit.edu	37	chr1	240256750	240256750	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaggatcaagaggcggccGgaaccctccctgagccgagg	9	3	14	15	3	1	2	1	1	0	1	2	5	2	4	5	5	2	0	5	5	2	0			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:240256750G>A	uc010pyd.1	+	1	1566	c.1341G>A	c.(1339-1341)CCG>CCA	p.P447P	FMN2_uc010pye.1_Silent_p.P447P	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	447					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AGAGGCGGCCGGAACCCTCCC	0.692													6	45					0	0	0.001984	0	0		A	240256750	A	A	240256750	2	1	149	1	0	0	0	0	0	0	0	1	5964	1103	39	1		1	FMN2	1	240256750	Silent	SNP	G	TCGA-CG-5719-01A-11D-1600-08	2459814	240256750	8993871	12	76955											
SMYD3	64754	broad.mit.edu	37	chr1	246021942	246021942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaattgctgcttatgattGcctggcacatggccagaacc	10	10	10	11	0	0	3	0	1	0	2	0	3	0	3	3	2	4	3	3	2	3	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr1:246021942G>A	uc001ibl.2	-	10	1027	c.932C>T	c.(931-933)GCA>GTA	p.A311V	SMYD3_uc001ibk.2_Missense_Mutation_p.A252V|SMYD3_uc001ibi.2_Missense_Mutation_p.A122V|SMYD3_uc001ibj.2_Missense_Mutation_p.A122V	NM_022743	NP_073580	Q9H7B4	SMYD3_HUMAN	SET and MYND domain containing 3	311						cytoplasm|nucleus	histone-lysine N-methyltransferase activity|protein binding|zinc ion binding				0	all_cancers(71;0.000291)|all_epithelial(71;0.000174)|Ovarian(71;0.0377)|all_lung(81;0.0568)|Lung NSC(105;0.0804)|Breast(184;0.173)|Melanoma(84;0.242)	all_cancers(173;0.0496)|Acute lymphoblastic leukemia(190;0.164)	OV - Ovarian serous cystadenocarcinoma(106;0.0129)	all cancers(4;0.028)|GBM - Glioblastoma multiforme(49;0.0537)		GCTTATGATTGCCTGGCACAT	0.448													5	155					0	0	0.014758	0	0		A	246021942	A	A	246021942	3	1	149	1	0	0	0	0	1	0	0	0	14848	1319	46	2	366	2	SMYD3	1	246021942	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	5765192	246021942	3228679	13	76956											
HECW2	57520	broad.mit.edu	37	chr2	197184379	197184379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcattgagtgaatcctgaCgtcctctgggaggtgaggtc	9	11	13	8	1	2	4	1	4	1	0	5	5	4	5	2	3	0	0	2	3	2	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr2:197184379C>T	uc002utm.1	-	9	1418	c.1235G>A	c.(1234-1236)CGT>CAT	p.R412H	HECW2_uc002utl.1_Missense_Mutation_p.R56H	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	412					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						TGAATCCTGACGTCCTCTGGG	0.527													4	144					0	0	0.009096	0	0		T	197184379	T	T	197184379	3	4	149	1	0	0	0	0	1	0	0	0	7059	536	19	1	3567	1	HECW2	2	197184379	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08		197184379	46014994	14	76957											
NIF3L1	60491	broad.mit.edu	37	chr2	201756971	201756971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatcttccgacccatgaagcGcataacctggaacacatgga	13	8	8	12	2	1	1	0	1	1	0	2	4	2	3	3	2	3	1	3	2	4	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr2:201756971G>A	uc002uwm.2	+	2	396	c.305G>A	c.(304-306)CGC>CAC	p.R102H	PPIL3_uc002uwk.2_5'Flank|NIF3L1_uc002uwl.2_Missense_Mutation_p.R75H|NIF3L1_uc002uwn.2_Missense_Mutation_p.R75H|NIF3L1_uc002uwo.2_Missense_Mutation_p.R102H|NIF3L1_uc002uwp.2_Missense_Mutation_p.R102H|NIF3L1_uc002uwq.2_Missense_Mutation_p.R102H	NM_001136039	NP_001129511	Q9GZT8	NIF3L_HUMAN	NIF3 NGG1 interacting factor 3-like 1 isoform 1	102					positive regulation of transcription, DNA-dependent		transcription factor binding			skin(1)	1						CCCATGAAGCGCATAACCTGG	0.547													5	206					0	0	0.014758	0	0		A	201756971	A	A	201756971	3	1	149	1	0	0	0	0	1	0	0	0	10435	1087	38	1	307	1	NIF3L1	2	201756971	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	4572592	201756971	41442402	15	76958											
GRM7	2917	broad.mit.edu	37	chr3	7494338	7494338	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaactatgagcaggagggtAaagtccagttcgtgattgac	12	9	12	8	1	0	3	0	3	0	0	2	4	1	4	2	2	2	3	2	2	4	4	rs144288627		TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr3:7494338A>T	uc003bqm.2	+	6	1493	c.1219A>T	c.(1219-1221)AAA>TAA	p.K407*	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Nonsense_Mutation_p.K407*|GRM7_uc003bql.2_Nonsense_Mutation_p.K407*|GRM7_uc003bqn.1_5'UTR|GRM7_uc010hch.1_5'UTR	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	407	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	GCAGGAGGGTAAAGTCCAGTT	0.408													24	75					0	0	0.004656	0	0		T	7494338	T	T	7494338	4	4	149	1	0	0	0	0	0	1	0	0	6818	363	13	5	1241	5	GRM7	3	7494338	Nonsense_Mutation	SNP	A	TCGA-CG-5719-01A-11D-1600-08		7494338	190528092	16	76959											
DNAH1	25981	broad.mit.edu	37	chr3	52403955	52403955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggggctcatgcccttcatcGagtgctggctgaggaagctg	6	10	15	10	1	2	1	2	1	0	0	3	3	2	2	1	4	3	4	1	4	1	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr3:52403955G>A	uc011bef.1	+	38	6319	c.6058G>A	c.(6058-6060)GAG>AAG	p.E2020K		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2020	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GCCCTTCATCGAGTGCTGGCT	0.597													26	83					0	0	0.007291	0	0		A	52403955	A	A	52403955	3	1	149	1	0	0	0	0	1	0	0	0	4603	1059	37	1	6204	1	DNAH1	3	52403955	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	44909617	52403955	145618475	17	76960											
EPHA6	285220	broad.mit.edu	37	chr3	96706450	96706450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaaccagtatacaaagatcGacacaattgctgctgatgag	16	8	8	9	1	0	3	0	2	0	1	1	4	0	3	1	0	4	3	1	0	5	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr3:96706450G>A	uc010how.1	+	3	770	c.727G>A	c.(727-729)GAC>AAC	p.D243N	EPHA6_uc003drp.1_Missense_Mutation_p.D243N	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	148	Ephrin-binding.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						TACAAAGATCGACACAATTGC	0.413													68	347					0	0	0.01441	0	0		A	96706450	A	A	96706450	3	1	149	1	0	0	0	0	1	0	0	0	5179	1058	37	1	737	1	EPHA6	3	96706450	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	44302495	96706450	101315980	18	76961											
CEP63	80254	broad.mit.edu	37	chr3	134256003	134256003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgcctcctcaggaattcCgtcagaaatcgctggactgg	10	10	10	11	2	2	1	2	0	0	1	5	3	4	3	3	3	1	1	3	3	3	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr3:134256003C>T	uc003eqo.1	+	7	897	c.448C>T	c.(448-450)CGT>TGT	p.R150C	CEP63_uc003eql.1_Missense_Mutation_p.R150C|CEP63_uc003eqm.2_Missense_Mutation_p.R150C|CEP63_uc003eqn.1_Missense_Mutation_p.R150C	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	150	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						TCAGGAATTCCGTCAGAAATC	0.458													32	129					0	0	0.009535	0	0		T	134256003	T	T	134256003	3	4	149	1	0	0	0	0	1	0	0	0	3260	652	23	1	466	1	CEP63	3	134256003	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	37549553	134256003	63766427	19	76962											
IGSF10	285313	broad.mit.edu	37	chr3	151171512	151171512	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaagctcctgaggccataAaaagtatctttctgaagttt	12	13	8	8	0	3	2	1	2	2	0	4	2	4	2	2	1	1	3	2	1	6	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr3:151171512A>T	uc011bod.1	-	3	375	c.375T>A	c.(373-375)TTT>TTA	p.F125L		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	125	LRR 3.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TGAGGCCATAAAAAGTATCTT	0.353													64	306					0	0	0.01441	0	0		T	151171512	T	T	151171512	3	4	149	1	0	0	0	0	1	0	0	0	7613	11	1	5	7560	5	IGSF10	3	151171512	Missense_Mutation	SNP	A	TCGA-CG-5719-01A-11D-1600-08	16915509	151171512	46850918	20	76963											
P2RY1	5028	broad.mit.edu	37	chr3	152554282	152554282	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgctgattctgggctgttaCggattaattgtgagagcttt	7	16	13	5	1	1	2	0	2	1	1	1	4	1	3	0	2	3	4	0	2	2	5			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr3:152554282C>T	uc003ezq.2	+	1	1547	c.711C>T	c.(709-711)TAC>TAT	p.Y237Y		NM_002563	NP_002554	P47900	P2RY1_HUMAN	purinergic receptor P2Y1	237	Helical; Name=5; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			TGGGCTGTTACGGATTAATTG	0.453													24	135					0	0	0.014323	0	0		T	152554282	T	T	152554282	2	4	149	1	0	0	0	0	0	0	0	1	11365	547	19	1		1	P2RY1	3	152554282	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08	1382770	152554282	45468148	21	76964											
SLIT2	9353	broad.mit.edu	37	chr4	20543118	20543118	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactgtaactgctacctggcTtggttgggagagtggctgag	8	11	15	7	0	0	2	0	1	0	1	0	3	0	2	1	4	4	5	1	4	3	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr4:20543118T>C	uc003gpr.1	+	20	2223	c.2019T>C	c.(2017-2019)GCT>GCC	p.A673A	SLIT2_uc003gps.1_Silent_p.A665A	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	673	LRRCT 3.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GCTACCTGGCTTGGTTGGGAG	0.458													3	83					0	0	0.004672	0	0		C	20543118	C	C	20543118	2	2	149	1	0	0	0	0	0	0	0	1	14765	1596	56	3		3	SLIT2	4	20543118	Silent	SNP	T	TCGA-CG-5719-01A-11D-1600-08		20543118	170611158	22	76965											
SLIT2	9353	broad.mit.edu	37	chr4	20568884	20568884	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatttttgaattaattttcaGgtcctgtggatgtcaatatt	10	20	7	4	0	2	1	2	1	0	0	3	2	3	2	1	2	0	0	1	2	5	8			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr4:20568884G>A	uc003gpr.1	+	27	2930	c.2726_splice	c.e27-1	p.G909_splice	SLIT2_uc003gps.1_Splice_Site_p.G901_splice	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor						apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TTAATTTTCAGGTCCTGTGGA	0.323													6	316					0	0	0.001984	0	0		A	20568884	A	A	20568884	5	1	149	1	0	0	0	0	0	0	1	0	14765	1014	35	4	2831	4	SLIT2	4	20568884	Splice_Site	SNP	G	TCGA-CG-5719-01A-11D-1600-08	25766	20568884	170585392	23	76966											
RBM47	54502	broad.mit.edu	37	chr4	40438457	40438457	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcaatctgcttcatactgaCctgtaccaggtttaatggca	10	13	7	11	0	3	1	2	1	1	0	3	1	3	1	2	2	3	4	2	2	4	5			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr4:40438457C>T	uc003gvc.2	-	5	2040	c.1330_splice	c.e5+1	p.V444_splice	RBM47_uc003gvd.2_Intron|RBM47_uc003gve.2_Splice_Site|RBM47_uc011bys.1_Splice_Site_p.V406_splice	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a							nucleus	nucleotide binding|RNA binding			breast(3)	3						TTCATACTGACCTGTACCAGG	0.453													33	196					0	0	0.015359	0	0		T	40438457	T	T	40438457	5	4	149	1	0	0	0	0	0	0	1	0	13166	521	18	4	462	4	RBM47	4	40438457	Splice_Site	SNP	C	TCGA-CG-5719-01A-11D-1600-08	19869573	40438457	150715819	24	76967											
RASSF6	166824	broad.mit.edu	37	chr4	74447534	74447534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgatcaagctttcttacCtcctgttgcaaaaataatgt	11	15	7	8	0	2	1	1	1	1	0	3	1	3	1	2	0	3	3	2	0	5	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr4:74447534C>T	uc003hhd.1	-	8	940	c.817G>A	c.(817-819)GAA>AAA	p.E273K	RASSF6_uc003hhc.1_Missense_Mutation_p.E241K|RASSF6_uc010iik.1_Missense_Mutation_p.E207K|RASSF6_uc010iil.1_Missense_Mutation_p.E229K	NM_201431	NP_958834	Q6ZTQ3	RASF6_HUMAN	Ras association (RalGDS/AF-6) domain family 6	273	Ras-associating.				apoptosis|signal transduction		protein binding			pancreas(2)	2	Breast(15;0.00102)		all cancers(17;0.00104)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)			GCTTTCTTACCTCCTGTTGCA	0.383													13	83					0	0	0.006122	0	0		T	74447534	T	T	74447534	3	4	149	1	0	0	0	0	1	0	0	0	13115	695	24	4	308	4	RASSF6	4	74447534	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	34009077	74447534	116706742	25	76968											
SHROOM3	57619	broad.mit.edu	37	chr4	77677626	77677626	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaactttctaaagtgacAattgcaagggaaaggcacat	18	8	8	7	0	1	1	0	1	1	0	1	2	1	2	0	2	3	2	0	2	7	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr4:77677626A>T	uc011cbx.1	+	8	5687	c.4734A>T	c.(4732-4734)ACA>ACT	p.T1578T	SHROOM3_uc003hkg.2_Silent_p.T1356T	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	1578					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			CTAAAGTGACAATTGCAAGGG	0.333													7	43					0	0	0.006214	0	0		T	77677626	T	T	77677626	2	4	149	1	0	0	0	0	0	0	0	1	14320	117	5	5		5	SHROOM3	4	77677626	Silent	SNP	A	TCGA-CG-5719-01A-11D-1600-08	3230092	77677626	113476650	26	76969											
GRID2	2895	broad.mit.edu	37	chr4	94436497	94436497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtattcccaaatgtggCggatgatcaaccgaagcaat	13	9	10	9	2	1	1	1	1	0	0	2	3	2	2	2	2	2	3	2	2	5	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr4:94436497C>T	uc011cdt.1	+	13	2386	c.2128C>T	c.(2128-2130)CGG>TGG	p.R710W	GRID2_uc011cdu.1_Missense_Mutation_p.R615W	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	710	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CCAAATGTGGCGGATGATCAA	0.473													17	112					0	0	0.00499	0	0		T	94436497	T	T	94436497	3	4	149	1	0	0	0	0	1	0	0	0	6788	759	27	1	2178	1	GRID2	4	94436497	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	16758871	94436497	96717779	27	76970											
FSTL5	56884	broad.mit.edu	37	chr4	162459360	162459360	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacaaaaagagaagagatgtCttcatccactcctgcttcat	14	10	6	11	0	3	2	2	0	1	2	5	4	5	2	2	0	1	1	2	0	3	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr4:162459360C>G	uc003iqh.2	-	10	1706	c.1270G>C	c.(1270-1272)GAC>CAC	p.D424H	FSTL5_uc003iqi.2_Missense_Mutation_p.D423H|FSTL5_uc010iqv.2_Missense_Mutation_p.D423H	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	424	Ig-like 2.					extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		GAAGAGATGTCTTCATCCACT	0.418													32	508					0	0	0.015359	0	0		G	162459360	G	G	162459360	3	3	149	1	0	0	0	0	1	0	0	0	6094	913	32	5	1301	5	FSTL5	4	162459360	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	68022863	162459360	28694916	28	76971											
ERBB2IP	55914	broad.mit.edu	37	chr5	65288672	65288672	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagttccgaaagagattttTacttttgaaaaaaccttgga	15	13	7	6	1	0	2	0	1	0	1	1	5	1	3	2	1	2	1	2	1	6	7			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr5:65288672T>C	uc003juk.1	+	3	434	c.126T>C	c.(124-126)TTT>TTC	p.F42F	ERBB2IP_uc003juh.1_Silent_p.F42F|ERBB2IP_uc003jui.1_Silent_p.F42F|ERBB2IP_uc003juj.1_Silent_p.F42F|ERBB2IP_uc011cqx.1_Silent_p.F42F|ERBB2IP_uc011cqy.1_Silent_p.F42F|ERBB2IP_uc011cqz.1_Silent_p.F42F|ERBB2IP_uc010iwx.1_Silent_p.F42F|ERBB2IP_uc003jul.1_Silent_p.F42F	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	42	LRR 1.				basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		AAGAGATTTTTACTTTTGAAA	0.383													33	112					0	0	0.012213	0	0		C	65288672	C	C	65288672	2	2	149	1	0	0	0	0	0	0	0	1	5215	1751	61	3		3	ERBB2IP	5	65288672	Silent	SNP	T	TCGA-CG-5719-01A-11D-1600-08		65288672	115626588	29	76972											
ERBB2IP	55914	broad.mit.edu	37	chr5	65342364	65342364	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttaaccatgatgatgtttttGaggtatgattttatgattat	11	20	8	2	0	0	5	0	5	0	0	0	5	0	5	1	1	1	2	1	1	4	7			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr5:65342364G>C	uc003juk.1	+	18	2094	c.1786G>C	c.(1786-1788)GAG>CAG	p.E596Q	ERBB2IP_uc003juh.1_Missense_Mutation_p.E592Q|ERBB2IP_uc003jui.1_Missense_Mutation_p.E596Q|ERBB2IP_uc003juj.1_Missense_Mutation_p.E596Q|ERBB2IP_uc011cqx.1_Missense_Mutation_p.E596Q|ERBB2IP_uc011cqy.1_Missense_Mutation_p.E596Q|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Missense_Mutation_p.E592Q|ERBB2IP_uc003jul.1_Missense_Mutation_p.E592Q	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	596					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		TGATGTTTTTGAGGTATGATT	0.323													13	303					0	0	0.013537	0	0		C	65342364	C	C	65342364	3	2	149	1	0	0	0	0	1	0	0	0	5215	1291	45	5	1848	5	ERBB2IP	5	65342364	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	53692	65342364	115572896	30	76973											
ZNF366	167465	broad.mit.edu	37	chr5	71757272	71757272	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggagggggtcttcttcacagCcaagtcgaaatgcacatcct	10	9	11	11	1	3	0	1	0	2	0	5	2	4	1	2	3	2	1	2	3	2	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr5:71757272C>G	uc003kce.1	-	2	238	c.52G>C	c.(52-54)GCT>CCT	p.A18P		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	18					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		TTCTTCACAGCCAAGTCGAAA	0.512													5	163					0	0	0.001168	0	0		G	71757272	G	G	71757272	3	3	149	1	0	0	0	0	1	0	0	0	17895	739	26	5	2198	5	ZNF366	5	71757272	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	6414908	71757272	109157988	31	76974											
CMYA5	202333	broad.mit.edu	37	chr5	79026269	79026269	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggagcacaaagaagaaGagcttattctaccattattg	16	10	9	6	0	1	3	0	0	1	3	1	4	1	4	1	1	3	2	1	1	7	5			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr5:79026269G>T	uc003kgc.2	+	2	1753	c.1681G>T	c.(1681-1683)GAG>TAG	p.E561*		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	561	Glu-rich.					perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CAAAGAAGAAGAGCTTATTCT	0.438													8	428					2.17888e-05	2.26333e-05	0.006214	1	0		T	79026269	T	T	79026269	4	4	149	1	0	0	0	0	0	1	0	0	3593	943	33	5	1687	5	CMYA5	5	79026269	Nonsense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	7268997	79026269	101888991	32	76975											
DOCK2	1794	broad.mit.edu	37	chr5	169129410	169129410	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcatgtgtgtgtgcgcGgaggatggcaaaacgctgcc	8	9	15	9	3	2	0	2	0	0	0	2	2	2	2	1	3	3	2	1	3	2	0			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr5:169129410G>A	uc003maf.2	+	14	1442	c.1362G>A	c.(1360-1362)GCG>GCA	p.A454A	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_5'Flank|DOCK2_uc010jjl.1_Silent_p.A5A	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	454	DHR-1.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GTGTGTGCGCGGAGGATGGCA	0.512											OREG0017017	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	123					0	0	0.009096	0	0		A	169129410	A	A	169129410	2	1	149	1	0	0	0	0	0	0	0	1	4693	1103	39	1		1	DOCK2	5	169129410	Silent	SNP	G	TCGA-CG-5719-01A-11D-1600-08	90103141	169129410	11785850	33	76976											
SLC22A23	63027	broad.mit.edu	37	chr6	3287186	3287186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaggaatcggaccaccaCgcacatggccaggcaggaca	12	2	12	15	3	0	0	0	0	0	0	1	4	0	3	4	5	0	2	4	5	1	0			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr6:3287186C>T	uc003mvm.3	-	7	1453	c.1453G>A	c.(1453-1455)GTG>ATG	p.V485M	uc003mvi.1_RNA|SLC22A23_uc003mvn.3_Missense_Mutation_p.V204M|SLC22A23_uc003mvo.3_Missense_Mutation_p.V204M|SLC22A23_uc003mvp.1_RNA|SLC22A23_uc010jnn.2_Missense_Mutation_p.V485M|SLC22A23_uc003mvq.1_RNA	NM_015482	NP_056297	A1A5C7	S22AN_HUMAN	solute carrier family 22, member 23 isoform a	485	Helical; (Potential).				ion transport	integral to membrane	transmembrane transporter activity			ovary(1)	1	Ovarian(93;0.0493)	all_hematologic(90;0.0905)				CGGACCACCACGCACATGGCC	0.632													6	23					0	0	0.00308	0	0		T	3287186	T	T	3287186	3	4	149	1	0	0	0	0	1	0	0	0	14477	536	19	1	623	1	SLC22A23	6	3287186	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08		3287186	167827881	34	76977											
KIAA0319	9856	broad.mit.edu	37	chr6	24596282	24596282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggtcctgctgcgtctccGctggcaccgcaggactgtct	4	9	13	15	3	2	0	0	0	2	0	4	1	3	1	3	3	2	4	3	3	0	0	rs141114963		TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr6:24596282G>A	uc011djo.1	-	3	857	c.620C>T	c.(619-621)GCG>GTG	p.A207V	KIAA0319_uc011djp.1_Missense_Mutation_p.A162V|KIAA0319_uc003neh.1_Missense_Mutation_p.A207V|KIAA0319_uc011djq.1_Missense_Mutation_p.A198V|KIAA0319_uc011djr.1_Missense_Mutation_p.A207V	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	207	Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						CTGCGTCTCCGCTGGCACCGC	0.622													8	63					0	0	0.00308	0	0		A	24596282	A	A	24596282	3	1	149	1	0	0	0	0	1	0	0	0	8184	1087	38	1	2674	1	KIAA0319	6	24596282	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	21309096	24596282	146518785	35	76978											
SCUBE3	222663	broad.mit.edu	37	chr6	35205712	35205712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacaacgggggctgtgacaGtaagtgccatgatgcagcga	12	6	14	9	2	0	2	0	2	0	0	0	3	0	2	1	2	5	3	1	2	3	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr6:35205712G>A	uc003okf.1	+	7	752	c.746G>A	c.(745-747)AGT>AAT	p.S249N	SCUBE3_uc003okg.1_Missense_Mutation_p.S248N|SCUBE3_uc003okh.1_Missense_Mutation_p.S136N	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	249	EGF-like 6.				protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						GGCTGTGACAGTAAGTGCCAT	0.557													5	196					0	0	0.014758	0	0		A	35205712	A	A	35205712	3	1	149	1	0	0	0	0	1	0	0	0	13971	1029	36	4	772	4	SCUBE3	6	35205712	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	10609430	35205712	135909355	36	76979											
TREML4	285852	broad.mit.edu	37	chr6	41196676	41196676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcttcttcaacatcaccatGattcagctgacacagaatga	13	10	7	11	0	4	4	3	3	1	1	4	4	4	4	1	1	2	2	1	1	2	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr6:41196676G>A	uc003oqc.2	+	2	392	c.288G>A	c.(286-288)ATG>ATA	p.M96I	TREML4_uc003oqd.2_RNA	NM_198153	NP_937796	Q6UXN2	TRML4_HUMAN	triggering receptor expressed on myeloid	96	Ig-like V-type.					extracellular region				breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					ACATCACCATGATTCAGCTGA	0.468													15	120					0	0	0.00499	0	0		A	41196676	A	A	41196676	3	1	149	1	0	0	0	0	1	0	0	0	16500	1290	45	4	294	4	TREML4	6	41196676	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	5990964	41196676	129918391	37	76980											
LMBRD1	55788	broad.mit.edu	37	chr6	70459254	70459254	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactaaaagaagcagtgcaCaaatcacaacaaatcccaaa	22	4	4	11	0	1	1	1	0	0	1	2	1	2	1	1	0	4	2	1	0	8	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr6:70459254C>A	uc003pfa.2	-	5	567	c.452G>T	c.(451-453)TGT>TTT	p.C151F	LMBRD1_uc003pez.2_Missense_Mutation_p.C78F|LMBRD1_uc010kal.2_Missense_Mutation_p.C78F|LMBRD1_uc003pfb.2_Intron	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	151	Helical; Name=4; (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						AAGCAGTGCACAAATCACAAC	0.284													12	48					1.49906e-05	1.56933e-05	0.020292	1	0		A	70459254	A	A	70459254	3	1	149	1	0	0	0	0	1	0	0	0	8859	478	17	5	1218	5	LMBRD1	6	70459254	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	29262578	70459254	100655813	38	76981											
UTRN	7402	broad.mit.edu	37	chr6	145161925	145161925	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacaccagcacggatctcacGgaggtcatggagcagattca	12	6	12	11	2	3	1	3	0	1	1	4	5	3	4	1	4	2	2	1	4	0	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr6:145161925G>A	uc003qkt.2	+	72	10319	c.10227G>A	c.(10225-10227)ACG>ACA	p.T3409T		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	3409					muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		CGGATCTCACGGAGGTCATGG	0.507													4	156					0	0	0.009096	0	0		A	145161925	A	A	145161925	2	1	149	1	0	0	0	0	0	0	0	1	17129	1103	39	1		1	UTRN	6	145161925	Silent	SNP	G	TCGA-CG-5719-01A-11D-1600-08	74702671	145161925	25953142	39	76982											
ITGB8	3696	broad.mit.edu	37	chr7	20421359	20421359	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatttttaagagtcatatcGgatggcgaaaagaggctaaa	15	12	10	4	2	1	2	1	0	0	2	2	4	1	3	0	3	0	1	0	3	7	6			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr7:20421359G>C	uc003suu.2	+	6	1516	c.811G>C	c.(811-813)GGA>CGA	p.G271R	ITGB8_uc011jyh.1_Missense_Mutation_p.G136R|ITGB8_uc003sut.2_Missense_Mutation_p.G271R	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	271	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						GAGTCATATCGGATGGCGAAA	0.398													14	62					0	0	0.004007	0	0		C	20421359	C	C	20421359	3	2	149	1	0	0	0	0	1	0	0	0	7917	1117	39	5	833	5	ITGB8	7	20421359	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08		20421359	138717304	40	76983											
GRM3	2913	broad.mit.edu	37	chr7	86416011	86416011	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacctgggtggccagcgaCggctggggcgcgcaggagag	6	5	19	11	4	1	1	1	0	0	1	1	3	1	1	2	6	1	2	2	6	0	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr7:86416011C>T	uc003uid.2	+	3	2002	c.903C>T	c.(901-903)GAC>GAT	p.D301D	GRM3_uc010lef.2_Silent_p.D299D|GRM3_uc010leg.2_Silent_p.D173D|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	301	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TGGCCAGCGACGGCTGGGGCG	0.692													10	37					0	0	0.013537	0	0		T	86416011	T	T	86416011	2	4	149	1	0	0	0	0	0	0	0	1	6814	535	19	1		1	GRM3	7	86416011	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08	65994652	86416011	72722652	41	76984											
LRRC4	64101	broad.mit.edu	37	chr7	127670603	127670603	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcagcgatggctgcacacaGaatccacacttgcgccgtga	11	6	11	13	3	0	2	0	1	0	1	1	3	1	2	2	1	4	3	2	1	1	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr7:127670603G>C	uc003vmk.2	-	2	228	c.91C>G	c.(91-93)CTG>GTG	p.L31V	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	31						cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		GCTGCACACAGAATCCACACT	0.622													22	89					0	0	0.021523	0	0		C	127670603	C	C	127670603	3	2	149	1	0	0	0	0	1	0	0	0	9015	933	33	5	1874	5	LRRC4	7	127670603	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	41254592	127670603	31468060	42	76985											
HR	55806	broad.mit.edu	37	chr8	21976480	21976480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccatctggagaaagcggcGgatgcgctgggcgtcctgtg	7	7	16	11	4	1	1	0	0	1	1	2	3	2	2	2	4	2	1	2	4	1	0	rs148092652		TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr8:21976480G>A	uc003xas.2	-	16	3861	c.3196C>T	c.(3196-3198)CGC>TGC	p.R1066C	HR_uc003xat.2_Missense_Mutation_p.R1066C	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	1066	JmjC.						DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		AGAAAGCGGCGGATGCGCTGG	0.682													3	40					0	0	0.009096	0	0		A	21976480	A	A	21976480	3	1	149	1	0	0	0	0	1	0	0	0	7363	1116	39	1	389	1	HR	8	21976480	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08		21976480	124387542	43	76986											
TG	7038	broad.mit.edu	37	chr8	133906030	133906030	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccaacagttctcggttccctCtgggggagagtttcctggtg	5	12	13	11	1	2	1	0	0	2	1	5	2	4	1	3	4	1	3	3	4	1	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr8:133906030C>G	uc003ytw.2	+	11	2898	c.2857C>G	c.(2857-2859)CTG>GTG	p.L953V		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	953	Thyroglobulin type-1 8.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCGGTTCCCTCTGGGGGAGAG	0.582													4	186					0	0	0.009096	0	0		G	133906030	G	G	133906030	3	3	149	1	0	0	0	0	1	0	0	0	15838	912	32	5	2899	5	TG	8	133906030	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	111929550	133906030	12457992	44	76987											
VPS13A	23230	broad.mit.edu	37	chr9	79853016	79853016	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgatgcaatgtcactttTccaaattacatttgagataa	14	14	7	6	0	1	2	1	2	0	1	2	4	2	3	1	1	2	1	1	1	4	5			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr9:79853016T>G	uc004akr.2	+	18	1954	c.1694T>G	c.(1693-1695)TTC>TGC	p.F565C	VPS13A_uc004akp.3_Missense_Mutation_p.F565C|VPS13A_uc004akq.3_Missense_Mutation_p.F565C|VPS13A_uc004aks.2_Missense_Mutation_p.F565C	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	565	TPR 3.		F -> L.		Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ATGTCACTTTTCCAAATTACA	0.333													5	211					0	0	0.001984	0	0		G	79853016	G	G	79853016	3	3	149	1	0	0	0	0	1	0	0	0	17215	1783	62	5	1764	5	VPS13A	9	79853016	Missense_Mutation	SNP	T	TCGA-CG-5719-01A-11D-1600-08		79853016	61360415	45	76988											
NR5A1	2516	broad.mit.edu	37	chr9	127265456	127265456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagctctggctctcggtgCacgtgtagtgcttgttgttc	3	15	13	10	2	2	0	0	0	2	0	4	0	2	0	0	2	4	8	0	2	1	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr9:127265456C>T	uc004boo.1	-	3	333	c.146G>A	c.(145-147)TGC>TAC	p.C49Y		NM_004959	NP_004950	Q13285	STF1_HUMAN	nuclear receptor subfamily 5, group A, member 1	49	NR C4-type.|Nuclear receptor.				cell-cell signaling|male gonad development|positive regulation of transcription from RNA polymerase II promoter|primary sex determination|regulation of steroid biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|phospholipid binding|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						GCTCTCGGTGCACGTGTAGTG	0.647													3	7					0	0	0.004672	0	0		T	127265456	T	T	127265456	3	4	149	1	0	0	0	0	1	0	0	0	10654	710	25	2	1259	2	NR5A1	9	127265456	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	47412440	127265456	13947975	46	76989											
ITIH5	80760	broad.mit.edu	37	chr10	7618701	7618701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttggtgtccccctctccatCgcctccaggcctggggcttc	2	11	11	17	1	1	0	0	0	1	0	6	0	3	0	6	4	0	2	6	4	0	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr10:7618701C>T	uc001ijq.2	-	10	1772	c.1693G>A	c.(1693-1695)GAT>AAT	p.D565N	ITIH5_uc001ijp.2_Missense_Mutation_p.D351N|ITIH5_uc001ijr.1_Missense_Mutation_p.D565N	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	565					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CCCTCTCCATCGCCTCCAGGC	0.567													4	75					0	0	0.009096	0	0		T	7618701	T	T	7618701	3	4	149	1	0	0	0	0	1	0	0	0	7923	884	31	1	1278	1	ITIH5	10	7618701	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08		7618701	127916046	47	76990											
PCDH15	65217	broad.mit.edu	37	chr10	55755492	55755492	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccatccctttgtatattcGtttactaaagacaggaggat	12	13	7	9	1	0	1	0	0	0	1	2	3	1	3	2	2	1	2	2	2	5	7			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr10:55755492G>A	uc001jju.1	-	21	3180	c.2785C>T	c.(2785-2787)CGA>TGA	p.R929*	PCDH15_uc010qhq.1_Nonsense_Mutation_p.R934*|PCDH15_uc010qhr.1_Nonsense_Mutation_p.R929*|PCDH15_uc010qhs.1_Nonsense_Mutation_p.R941*|PCDH15_uc010qht.1_Nonsense_Mutation_p.R936*|PCDH15_uc010qhu.1_Nonsense_Mutation_p.R929*|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Nonsense_Mutation_p.R929*|PCDH15_uc010qhw.1_Nonsense_Mutation_p.R892*|PCDH15_uc010qhx.1_Nonsense_Mutation_p.R858*|PCDH15_uc010qhy.1_Nonsense_Mutation_p.R934*|PCDH15_uc010qhz.1_Nonsense_Mutation_p.R929*|PCDH15_uc010qia.1_Nonsense_Mutation_p.R907*|PCDH15_uc010qib.1_Nonsense_Mutation_p.R907*|PCDH15_uc001jjw.2_Nonsense_Mutation_p.R929*	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	929	Extracellular (Potential).|Cadherin 9.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TTGTATATTCGTTTACTAAAG	0.408										HNSCC(58;0.16)			38	108					0	0	0.021022	0	0		A	55755492	A	A	55755492	4	1	149	1	0	0	0	0	0	1	0	0	11530	1153	40	1	4753	1	PCDH15	10	55755492	Nonsense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	48136791	55755492	79779255	48	76991											
KIAA1274	27143	broad.mit.edu	37	chr10	72285718	72285718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggcagactatgggtacaaCggccagcacagcccagcaga	12	4	12	13	1	0	2	0	0	0	2	0	2	0	2	2	3	5	4	2	3	3	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr10:72285718C>T	uc001jrd.3	+	2	292	c.11C>T	c.(10-12)ACG>ATG	p.T4M		NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	4										ovary(2)|central_nervous_system(1)	3						ATGGGTACAACGGCCAGCACA	0.612													5	16					0	0	0.004482	0	0		T	72285718	T	T	72285718	3	4	149	1	0	0	0	0	1	0	0	0	8236	536	19	1	13	1	KIAA1274	10	72285718	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	16530226	72285718	63249029	49	76992											
GBF1	8729	broad.mit.edu	37	chr10	104135332	104135332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacagccagggcagatgcaCctgatgccggtaagcccttt	9	7	11	14	1	0	2	0	1	0	1	0	2	0	2	5	2	4	3	5	2	1	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr10:104135332C>T	uc001kux.1	+	30	4114	c.3874C>T	c.(3874-3876)CCT>TCT	p.P1292S	GBF1_uc001kuy.1_Missense_Mutation_p.P1292S|GBF1_uc001kuz.1_Missense_Mutation_p.P1293S	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1292					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		GGCAGATGCACCTGATGCCGG	0.562													12	32					0	0	0.003163	0	0		T	104135332	T	T	104135332	3	4	149	1	0	0	0	0	1	0	0	0	6286	507	18	4	3988	4	GBF1	10	104135332	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	31849614	104135332	31399415	50	76993											
SORCS3	22986	broad.mit.edu	37	chr10	106927067	106927067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagactggggtggtgccctcGtggccatgaaacacacacct	9	8	12	12	1	0	2	0	1	0	1	1	2	0	2	3	4	2	0	3	4	2	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr10:106927067G>A	uc001kyi.1	+	13	2088	c.1861G>A	c.(1861-1863)GTG>ATG	p.V621M		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	621	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		TGGTGCCCTCGTGGCCATGAA	0.378													18	69					0	0	0.00499	0	0		A	106927067	A	A	106927067	3	1	149	1	0	0	0	0	1	0	0	0	14957	1145	40	1	1911	1	SORCS3	10	106927067	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	2791735	106927067	28607680	51	76994											
C10orf90	118611	broad.mit.edu	37	chr10	128193340	128193340	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggcccacgcgtctggcCgtgatggtgatggatgcaaa	7	7	18	9	3	1	2	0	2	1	0	1	3	1	3	2	6	1	1	2	6	1	0			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr10:128193340C>T	uc001ljq.2	-	3	550	c.429G>A	c.(427-429)ACG>ACA	p.T143T	C10orf90_uc001ljp.2_Silent_p.T96T|C10orf90_uc010qum.1_Silent_p.T240T|C10orf90_uc009yao.2_Silent_p.T240T|C10orf90_uc001ljs.1_Silent_p.T96T	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	143										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		CGCGTCTGGCCGTGATGGTGA	0.687											OREG0020616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	95					0	0	0.016723	0	0		T	128193340	T	T	128193340	2	4	149	1	0	0	0	0	0	0	0	1	1626	639	23	1		1	C10orf90	10	128193340	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08	21266273	128193340	7341407	52	76995											
MUC5B	727897	broad.mit.edu	37	chr11	1267092	1267092	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacgacctggatcctcacAgagcagaccacagcagccac	12	3	11	15	1	1	2	1	0	0	2	2	5	2	4	4	2	3	2	4	2	0	0			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr11:1267092A>G	uc009ycr.1	+	49	10857	c.10731A>G	c.(10729-10731)ACA>ACG	p.T3577T	MUC5B_uc001ltb.2_Silent_p.T2997T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2994	7 X Cys-rich subdomain repeats.|Thr-rich.|17 X approximate tandem repeats, Ser/Thr- rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GGATCCTCACAGAGCAGACCA	0.657													4	96					0	0	0.009096	0	0		G	1267092	G	G	1267092	2	3	149	1	0	0	0	0	0	0	0	1	9997	175	7	3		3	MUC5B	11	1267092	Silent	SNP	A	TCGA-CG-5719-01A-11D-1600-08		1267092	133739424	53	76996											
MUC5B	727897	broad.mit.edu	37	chr11	1275540	1275540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacaagtccatggatatcGtcctcactgtcaccatggtg	10	11	8	12	1	2	0	2	0	0	0	5	1	4	1	3	2	1	0	3	2	3	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr11:1275540G>A	uc009ycr.1	+	56	16573	c.16447G>A	c.(16447-16449)GTC>ATC	p.V5483I	MUC5B_uc001ltb.2_Missense_Mutation_p.V5149I	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5146	VWFD 4.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CATGGATATCGTCCTCACTGT	0.657													5	30					0	0	0.001984	0	0		A	1275540	A	A	1275540	3	1	149	1	0	0	0	0	1	0	0	0	9997	1145	40	1	15579	1	MUC5B	11	1275540	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	8448	1275540	133730976	54	76997											
BDNF	627	broad.mit.edu	37	chr11	27679474	27679474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtaagggcccgcacgtacGactgggtagttcggcactgg	7	8	16	10	4	0	0	0	0	0	0	1	1	0	0	1	5	1	6	1	5	3	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr11:27679474G>A	uc010rdu.1	-	2	1489	c.638C>T	c.(637-639)TCG>TTG	p.S213L	BDNFOS_uc001mrm.2_Intron|BDNFOS_uc009yij.2_Intron|BDNFOS_uc009yik.2_Intron|BDNFOS_uc009yil.2_Intron|BDNFOS_uc001mrp.2_Intron|BDNFOS_uc009yim.2_Intron|BDNFOS_uc009yin.2_Intron|BDNFOS_uc009yio.2_Intron|BDNFOS_uc009yip.2_Intron|BDNFOS_uc001mrn.2_Intron|BDNFOS_uc009yiq.2_Intron|BDNFOS_uc001mro.2_Intron|BDNFOS_uc009yir.2_Intron|BDNFOS_uc009yis.2_Intron|BDNFOS_uc009yit.2_Intron|BDNFOS_uc009yiu.2_Intron|BDNFOS_uc009yiv.2_Intron|BDNFOS_uc009yiw.2_Intron|BDNFOS_uc009yix.2_Intron|BDNFOS_uc009yiy.2_Intron|BDNFOS_uc009yiz.2_Intron|BDNFOS_uc001mrq.3_Intron|BDNFOS_uc001mrr.3_Intron|BDNFOS_uc009yja.2_Intron|BDNFOS_uc009yjb.2_Intron|BDNF_uc010rdv.1_Missense_Mutation_p.S213L|BDNF_uc001mrt.2_Missense_Mutation_p.S228L|BDNF_uc010rdw.1_Missense_Mutation_p.S213L|BDNF_uc009yjd.2_Missense_Mutation_p.S213L|BDNF_uc001mru.2_Missense_Mutation_p.S213L|BDNF_uc010rdx.1_Missense_Mutation_p.S213L|BDNF_uc010rdy.1_Missense_Mutation_p.S213L|BDNF_uc009yjg.2_Missense_Mutation_p.S213L|BDNF_uc009yje.2_Missense_Mutation_p.S295L|BDNF_uc009yjf.2_Missense_Mutation_p.S242L|BDNF_uc001mrv.2_Missense_Mutation_p.S213L|BDNF_uc001mrw.3_Missense_Mutation_p.S213L|BDNF_uc001mrx.2_Missense_Mutation_p.S213L|BDNF_uc001mry.3_Missense_Mutation_p.S213L|BDNF_uc001mrz.3_Missense_Mutation_p.S213L|BDNF_uc001msa.2_Missense_Mutation_p.S221L	NM_001143816	NP_001137288	P23560	BDNF_HUMAN	brain-derived neurotrophic factor isoform a	213						extracellular region	growth factor activity				0						CCGCACGTACGACTGGGTAGT	0.473													6	310					0	0	0.001984	0	0		A	27679474	A	A	27679474	3	1	149	1	0	0	0	0	1	0	0	0	1395	1059	37	1	109	1	BDNF	11	27679474	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	26403934	27679474	107327042	55	76998											
ATG2A	23130	broad.mit.edu	37	chr11	64673986	64673986	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtccaggtgactgggcagCgggtagtcatccacggccgc	7	6	16	12	3	1	1	1	1	0	0	3	1	3	1	3	5	1	2	3	5	1	1	rs75814919	by1000genomes	TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr11:64673986C>T	uc001obx.2	-	21	3118	c.3003G>A	c.(3001-3003)CCG>CCA	p.P1001P		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1001							protein binding			ovary(1)|central_nervous_system(1)	2						GACTGGGCAGCGGGTAGTCAT	0.677													4	34					0	0	0.014758	0	0		T	64673986	T	T	64673986	2	4	149	1	0	0	0	0	0	0	0	1	1094	755	27	1		1	ATG2A	11	64673986	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08	36994512	64673986	70332530	56	76999											
GAL3ST3	89792	broad.mit.edu	37	chr11	65810465	65810465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcgcgagctggcggcgCgcgcgttgagcttggcgtag	4	6	19	12	8	0	1	0	1	0	0	0	2	0	1	1	4	2	4	1	4	1	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr11:65810465C>T	uc001ogv.2	-	2	969	c.809G>A	c.(808-810)CGC>CAC	p.R270H	GAL3ST3_uc001ogw.2_Missense_Mutation_p.R270H	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	270	Lumenal (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						GCTGGCGGCGCGCGCGTTGAG	0.582													3	10					0	0	0.004672	0	0		T	65810465	T	T	65810465	3	4	149	1	0	0	0	0	1	0	0	0	6214	768	27	1	490	1	GAL3ST3	11	65810465	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	1136479	65810465	69196051	57	77000											
RPS6KB2	6199	broad.mit.edu	37	chr11	67201943	67201943	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccctcagcgagagtgccaaCcaggccttcctggtgagtgc	7	7	13	14	1	1	2	1	1	0	1	2	3	2	2	5	2	4	0	5	2	1	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr11:67201943C>T	uc001old.2	+	13	1225	c.1143C>T	c.(1141-1143)AAC>AAT	p.N381N	RPS6KB2_uc001olf.2_Silent_p.N181N|RPS6KB2_uc001olg.2_Silent_p.N381N|RPS6KB2_uc009yrq.2_Silent_p.N181N|RPS6KB2_uc001ole.2_RNA|RPS6KB2_uc001olh.2_RNA|RPS6KB2_uc009yrr.2_Silent_p.N212N	NM_003952	NP_003943	Q9UBS0	KS6B2_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	381	AGC-kinase C-terminal.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of translational initiation|translation	nucleoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|stomach(1)|lung(1)|salivary_gland(1)	7			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			AGAGTGCCAACCAGGCCTTCC	0.637													12	39					0	0	0.016723	0	0		T	67201943	T	T	67201943	2	4	149	1	0	0	0	0	0	0	0	1	13682	506	18	4		4	RPS6KB2	11	67201943	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08	1391478	67201943	67804573	58	77001											
CABP4	57010	broad.mit.edu	37	chr11	67223662	67223662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactctccccctgcaggacCgcgaactgggccccgaggag	7	4	14	16	3	1	0	0	0	1	0	2	5	1	3	5	4	2	1	5	4	1	0	rs121917828	byFrequency	TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr11:67223662C>T	uc001olo.2	+	2	447	c.370C>T	c.(370-372)CGC>TGC	p.R124C	CABP4_uc001oln.2_Missense_Mutation_p.R19C	NM_145200	NP_660201	P57796	CABP4_HUMAN	calcium binding protein 4	124			R -> C (in CSNB2B).		visual perception	cytoplasm|extracellular region|terminal button	calcium ion binding				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			CCTGCAGGACCGCGAACTGGG	0.677													13	82					0	0	0.004007	0	0		T	67223662	T	T	67223662	3	4	149	1	0	0	0	0	1	0	0	0	2536	652	23	1	376	1	CABP4	11	67223662	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	21719	67223662	67782854	59	77002											
GAL	51083	broad.mit.edu	37	chr11	68456365	68456365	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatatcatgcgcacaatcaTtgagtttctgtctttcttgc	9	16	6	10	1	5	1	2	1	3	0	5	1	5	1	0	0	2	2	0	0	3	5			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr11:68456365T>C	uc001oob.2	+	5	490	c.272T>C	c.(271-273)ATT>ACT	p.I91T		NM_015973	NP_057057	P22466	GALA_HUMAN	galanin preproprotein	91					growth hormone secretion|insulin secretion|neuropeptide signaling pathway|smooth muscle contraction	extracellular region	neuropeptide hormone activity				0	Esophageal squamous(3;7.33e-10)	Melanoma(852;0.0749)	LUAD - Lung adenocarcinoma(13;0.0514)	Kidney(183;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.000152)|LUSC - Lung squamous cell carcinoma(976;0.00154)		CGCACAATCATTGAGTTTCTG	0.398													14	96					0	0	0.006122	0	0		C	68456365	C	C	68456365	3	2	149	1	0	0	0	0	1	0	0	0	6211	1493	52	3	286	3	GAL	11	68456365	Missense_Mutation	SNP	T	TCGA-CG-5719-01A-11D-1600-08	1232703	68456365	66550151	60	77003											
C2CD2L	9854	broad.mit.edu	37	chr11	118986773	118986773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtgagtttcctgcgcagcgGcactaagctcatcttccgcc	7	10	10	14	3	2	1	1	1	1	0	4	1	4	1	3	1	3	4	3	1	1	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr11:118986773G>A	uc001pvo.2	+	14	2287	c.1928G>A	c.(1927-1929)GGC>GAC	p.G643D	C2CD2L_uc001pvn.2_Missense_Mutation_p.G644D	NM_014807	NP_055622	O14523	C2C2L_HUMAN	transmembrane protein 24	643						integral to membrane					0						CTGCGCAGCGGCACTAAGCTC	0.632													3	49					0	0	0.009096	0	0		A	118986773	A	A	118986773	3	1	149	1	0	0	0	0	1	0	0	0	2156	1203	42	2	1985	2	C2CD2L	11	118986773	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	50530408	118986773	16019743	61	77004											
KDM5A	5927	broad.mit.edu	37	chr12	498207	498207	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcaaagacggggcactcTggcggtggcacgaactccgc	8	5	15	13	4	2	1	1	0	1	1	3	2	3	1	1	6	1	3	1	6	2	0			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr12:498207T>C	uc001qif.1	-	1	414	c.51A>G	c.(49-51)CCA>CCG	p.P17P	KDM5A_uc001qie.1_Silent_p.P17P|CCDC77_uc009zdk.2_5'Flank|CCDC77_uc010sdp.1_5'Flank|KDM5A_uc010sdn.1_Silent_p.P17P|KDM5A_uc010sdo.1_Silent_p.P17P	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	17					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						CGGGGCACTCTGGCGGTGGCA	0.677			T 	NUP98	AML								11	36					0	0	0.008291	0	0		C	498207	C	C	498207	2	2	149	1	0	0	0	0	0	0	0	1	8149	1567	55	3		3	KDM5A	12	498207	Silent	SNP	T	TCGA-CG-5719-01A-11D-1600-08		498207	133353688	62	77005											
CD163L1	283316	broad.mit.edu	37	chr12	7551181	7551181	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taggtccagatctgccttatCtgcaagcaagacaaaaccac	14	8	7	12	0	2	2	0	0	2	2	3	2	3	2	3	1	4	2	3	1	6	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr12:7551181C>G	uc001qsy.2	-	7	1435	c.1409_splice	c.e7-1	p.D470_splice	CD163L1_uc010sge.1_Splice_Site_p.D480_splice	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1							extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						TCTGCCTTATCTGCAAGCAAG	0.448													6	42					0	0	0.010729	0	0		G	7551181	G	G	7551181	5	3	149	1	0	0	0	0	0	0	1	0	2971	927	32	5	3005	5	CD163L1	12	7551181	Splice_Site	SNP	C	TCGA-CG-5719-01A-11D-1600-08	7052974	7551181	126300714	63	77006											
KRAS	3845	broad.mit.edu	37	chr12	25380275	25380275	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcattgcactgtactcctcTtgacctgctgtgtcgagaat	7	14	8	12	1	2	2	1	1	1	1	4	3	3	2	2	0	3	3	2	0	2	3	rs17851045		TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr12:25380275T>G	uc001rgp.1	-	3	364	c.183A>C	c.(181-183)CAA>CAC	p.Q61H	KRAS_uc001rgq.1_Missense_Mutation_p.Q61H	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	61	GTP.		Q -> R (in a colorectal cancer sample; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.Q61H(140)|p.Q61L(51)|p.Q61R(44)|p.Q61K(24)|p.Q61P(11)|p.Q61E(10)|p.Q61D(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			TGTACTCCTCTTGACCTGCTG	0.423	Q61H(T3M4_PANCREAS)|Q61H(HS766T_PANCREAS)|Q61H(NCIH460_LUNG)|Q61H(NCIH1155_LUNG)|Q61H(CL11_LARGE_INTESTINE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			5	136					0	0	0.014758	0	0		G	25380275	G	G	25380275	3	3	149	1	0	0	0	0	1	0	0	0	8454	1606	56	5	519	5	KRAS	12	25380275	Missense_Mutation	SNP	T	TCGA-CG-5719-01A-11D-1600-08	17829094	25380275	108471620	64	77007											
OS9	10956	broad.mit.edu	37	chr12	58087953	58087953	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggaacgaaagatggcggcGgaaacgctgctgtccagttt	10	7	16	8	4	0	1	0	0	0	1	1	4	1	3	1	5	3	3	1	5	3	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr12:58087953G>C	uc001spj.2	+	1	68	c.9G>C	c.(7-9)GCG>GCC	p.A3A	OS9_uc010srx.1_Silent_p.A3A|OS9_uc001spk.2_Silent_p.A3A|OS9_uc001spl.2_Silent_p.A3A|OS9_uc001spm.2_Silent_p.A3A|OS9_uc001spn.2_Silent_p.A3A|OS9_uc010sry.1_Silent_p.A3A|OS9_uc010srz.1_Silent_p.A3A	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	3					ER-associated protein catabolic process|protein retention in ER lumen|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to endoplasmic reticulum stress	endoplasmic reticulum lumen|Hrd1p ubiquitin ligase complex	glycoprotein binding|protein binding|sugar binding			ovary(1)	1	all_neural(12;0.00548)|Glioma(12;0.0126)|Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			AGATGGCGGCGGAAACGCTGC	0.577													10	174					0	0	0.010729	0	0		C	58087953	C	C	58087953	2	2	149	1	0	0	0	0	0	0	0	1	11291	1103	39	5		5	OS9	12	58087953	Silent	SNP	G	TCGA-CG-5719-01A-11D-1600-08	32707678	58087953	75763942	65	77008											
LRRIQ1	84125	broad.mit.edu	37	chr12	85623340	85623340	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agataccactgcaaatgaaaAattagaacggaatagagaat	21	7	8	5	1	0	4	0	1	0	3	0	6	0	5	1	1	3	1	1	1	9	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr12:85623340A>C	uc001tac.2	+	25	4979	c.4868A>C	c.(4867-4869)AAA>ACA	p.K1623T		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1623										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		GCAAATGAAAAATTAGAACGG	0.373													4	234					0	0	0.009096	0	0		C	85623340	C	C	85623340	3	2	149	1	0	0	0	0	1	0	0	0	9047	14	1	5	4966	5	LRRIQ1	12	85623340	Missense_Mutation	SNP	A	TCGA-CG-5719-01A-11D-1600-08	27535387	85623340	48228555	66	77009											
VEZT	55591	broad.mit.edu	37	chr12	95660360	95660360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactaacctcgtgagaaaagCtttacgtctcattcaagaaa	15	11	6	9	2	2	2	2	1	1	2	4	3	2	2	1	0	4	1	1	0	7	5			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr12:95660360C>T	uc001tdz.2	+	5	767	c.662C>T	c.(661-663)GCT>GTT	p.A221V	VEZT_uc009zsy.1_Missense_Mutation_p.A63V|VEZT_uc001tdr.2_Missense_Mutation_p.A63V|VEZT_uc001tds.2_Missense_Mutation_p.A173V|VEZT_uc001tdt.2_Missense_Mutation_p.A173V|VEZT_uc009zsz.1_Missense_Mutation_p.A221V|VEZT_uc001tdv.2_Missense_Mutation_p.A190V|VEZT_uc001tdw.1_Missense_Mutation_p.A173V|VEZT_uc009zta.1_Missense_Mutation_p.A173V	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	221						acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						GTGAGAAAAGCTTTACGTCTC	0.353													39	127					0	0	0.00874	0	0		T	95660360	T	T	95660360	3	4	149	1	0	0	0	0	1	0	0	0	17182	797	28	2	680	2	VEZT	12	95660360	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	10037020	95660360	38191535	67	77010											
HCFC2	29915	broad.mit.edu	37	chr12	104492124	104492124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttttctctgaaattagaaaGagactccttcaaatccagtg	13	14	6	8	0	2	3	1	1	1	2	5	4	4	3	2	0	0	0	2	0	4	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr12:104492124G>A	uc001tkj.3	+	13	1847	c.1744G>A	c.(1744-1746)GAG>AAG	p.E582K	HCFC2_uc009zul.2_RNA	NM_013320	NP_037452	Q9Y5Z7	HCFC2_HUMAN	host cell factor C2	582	Fibronectin type-III 2.				regulation of transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus	transcription coactivator activity			ovary(2)|central_nervous_system(1)	3						AAATTAGAAAGAGACTCCTTC	0.338													5	82					0	0	0.001168	0	0		A	104492124	A	A	104492124	3	1	149	1	0	0	0	0	1	0	0	0	7009	943	33	4	1794	4	HCFC2	12	104492124	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	8831764	104492124	29359771	68	77011											
CRY1	1407	broad.mit.edu	37	chr12	107386583	107386583	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctaattagtgctctgtctCtggactttaggaccaatact	10	14	7	10	0	2	0	0	0	2	0	3	2	2	2	2	2	2	1	2	2	5	5			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr12:107386583C>T	uc001tmi.3	-	12	2602	c.1743G>A	c.(1741-1743)CAG>CAA	p.Q581Q		NM_004075	NP_004066	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	581					DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			ovary(3)	3						TGCTCTGTCTCTGGACTTTAG	0.368													8	255					0	0	0.00308	0	0		T	107386583	T	T	107386583	2	4	149	1	0	0	0	0	0	0	0	1	3906	912	32	4		4	CRY1	12	107386583	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08	2894459	107386583	26465312	69	77012											
OAS3	4940	broad.mit.edu	37	chr12	113379501	113379501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagatcctcagtgagatgCgggcatcgctggaatcctgg	9	8	14	10	2	1	2	1	1	0	2	4	5	3	3	2	3	1	2	2	3	1	0			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr12:113379501C>T	uc001tug.2	+	2	391	c.304C>T	c.(304-306)CGG>TGG	p.R102W	OAS3_uc001tue.2_Missense_Mutation_p.R102W|OAS3_uc001tuf.2_Missense_Mutation_p.R102W	NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	102	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						CAGTGAGATGCGGGCATCGCT	0.587													4	116					0	0	0.009096	0	0		T	113379501	T	T	113379501	3	4	149	1	0	0	0	0	1	0	0	0	10820	759	27	1	310	1	OAS3	12	113379501	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	5992918	113379501	20472394	70	77013											
SACS	26278	broad.mit.edu	37	chr13	23928673	23928673	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctaccttggatattctgctGaggtaatataaatgacatct	12	14	7	8	0	2	2	0	2	2	0	2	3	2	3	2	2	2	2	2	2	6	7			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr13:23928673G>A	uc001uon.2	-	8	2667	c.2078C>T	c.(2077-2079)TCA>TTA	p.S693L	SACS_uc001uoo.2_Missense_Mutation_p.S546L|SACS_uc001uop.1_Missense_Mutation_p.S480L|SACS_uc001uoq.1_Missense_Mutation_p.S546L	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	693					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		ATATTCTGCTGAGGTAATATA	0.468													7	90					0	0	0.001984	0	0		A	23928673	A	A	23928673	3	1	149	1	0	0	0	0	1	0	0	0	13829	1294	45	4	11673	4	SACS	13	23928673	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08		23928673	91241205	71	77014											
TSC22D1	8848	broad.mit.edu	37	chr13	45147517	45147517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctgagctaatgattgtgcGgagaactgggtagaacttag	11	10	14	6	1	0	4	0	2	0	2	0	5	0	4	1	2	4	2	1	2	5	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr13:45147517G>A	uc001uzn.3	-	1	3185	c.2694C>T	c.(2692-2694)TCC>TCT	p.S898S	TSC22D1_uc001uzo.1_Intron	NM_183422	NP_904358	Q15714	T22D1_HUMAN	TSC22 domain family, member 1 isoform 1	898					transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(4;8.74e-08)|Acute lymphoblastic leukemia(4;1.78e-07)|Lung NSC(96;2.21e-05)|Breast(139;0.000625)|Prostate(109;0.000947)|Hepatocellular(98;0.0202)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000522)|BRCA - Breast invasive adenocarcinoma(63;0.118)		ATGATTGTGCGGAGAACTGGG	0.453													36	253					0	0	0.021022	0	0		A	45147517	A	A	45147517	2	1	149	1	0	0	0	0	0	0	0	1	16633	1103	39	1		1	TSC22D1	13	45147517	Silent	SNP	G	TCGA-CG-5719-01A-11D-1600-08	21218844	45147517	70022361	72	77015											
ITGBL1	9358	broad.mit.edu	37	chr13	102231736	102231736	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccccctgggaaagcaagCgaagatgcacgtctccagat	12	6	10	13	2	2	2	1	0	1	2	3	4	2	3	3	1	3	2	3	1	3	0			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr13:102231736C>T	uc001vpb.2	+	5	904	c.685C>T	c.(685-687)CGA>TGA	p.R229*	ITGBL1_uc010agb.2_Nonsense_Mutation_p.R180*|ITGBL1_uc001vpc.3_Nonsense_Mutation_p.R88*	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	229	Cysteine-rich tandem repeats.|IV.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GGAAAGCAAGCGAAGATGCAC	0.453													4	129					0	0	0.009096	0	0		T	102231736	T	T	102231736	4	4	149	1	0	0	0	0	0	1	0	0	7918	760	27	1	703	1	ITGBL1	13	102231736	Nonsense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	57084219	102231736	12938142	73	77016											
SLC22A17	51310	broad.mit.edu	37	chr14	23817454	23817454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatcctcagcacagactgagCctcctcaatctgccgcttca	9	9	7	16	1	4	2	3	1	1	1	6	3	6	2	4	0	3	2	4	0	1	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr14:23817454C>T	uc001wjl.2	-	5	810	c.754G>A	c.(754-756)GCT>ACT	p.A252T	SLC22A17_uc010akk.2_Missense_Mutation_p.A34T|SLC22A17_uc001wjn.2_RNA|SLC22A17_uc001wjm.2_Missense_Mutation_p.A252T	NM_020372	NP_065105	Q8WUG5	S22AH_HUMAN	solute carrier family 22, member 17 isoform a	252					siderophore transport	integral to organelle membrane|integral to plasma membrane|vacuolar membrane	transmembrane receptor activity|transmembrane transporter activity				0	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00643)		ACAGACTGAGCCTCCTCAATC	0.642													35	124					0	0	0.013726	0	0		T	23817454	T	T	23817454	3	4	149	1	0	0	0	0	1	0	0	0	14473	739	26	2	882	2	SLC22A17	14	23817454	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08		23817454	83532086	74	77017											
THTPA	79178	broad.mit.edu	37	chr14	24026387	24026387	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgatgaagaggagccaCagctcagggtggacttggat	11	7	16	7	0	1	3	1	2	0	1	1	7	1	6	1	4	3	2	1	4	1	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr14:24026387C>G	uc001wkh.3	+	2	791	c.421C>G	c.(421-423)CAG>GAG	p.Q141E	THTPA_uc001wkb.3_Intron|THTPA_uc001wkg.3_Missense_Mutation_p.Q141E|THTPA_uc010akr.2_Intron|THTPA_uc001wki.3_Intron	NM_001126339	NP_001119811	Q9BU02	THTPA_HUMAN	thiamine triphosphatase	141					dephosphorylation|generation of precursor metabolites and energy|thiamine metabolic process	cytosol|nucleolus|soluble fraction	thiamin-triphosphatase activity				0	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00643)	Thiamine(DB00152)	AGAGGAGCCACAGCTCAGGGT	0.577													3	42					0	0	0.009096	0	0		G	24026387	G	G	24026387	3	3	149	1	0	0	0	0	1	0	0	0	15906	479	17	5	423	5	THTPA	14	24026387	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	208933	24026387	83323153	75	77018											
REC8	9985	broad.mit.edu	37	chr14	24648871	24648871	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaactccctgaggtgcccAtggagatgcctttggtgctg	6	11	13	11	0	0	3	0	2	0	1	1	4	1	3	3	3	4	1	3	3	1	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr14:24648871A>T	uc001wmr.2	+	19	1817	c.1390A>T	c.(1390-1392)ATG>TTG	p.M464L	REC8_uc001wms.2_Missense_Mutation_p.M464L	NM_005132	NP_005123	O95072	REC8_HUMAN	REC8 homolog	464	Glu-rich.				mitotic metaphase/anaphase transition|mitotic prometaphase|reciprocal meiotic recombination|sister chromatid cohesion	nucleoplasm					0				GBM - Glioblastoma multiforme(265;0.00839)		TGAGGTGCCCATGGAGATGCC	0.637													5	112					0	0	0.014758	0	0		T	24648871	T	T	24648871	3	4	149	1	0	0	0	0	1	0	0	0	13224	217	8	5	1453	5	REC8	14	24648871	Missense_Mutation	SNP	A	TCGA-CG-5719-01A-11D-1600-08	622484	24648871	82700669	76	77019											
PRKD1	5587	broad.mit.edu	37	chr14	30105555	30105555	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttgcatctcgccactgtcGttctggcactctgccattgc	4	14	8	15	2	4	0	0	0	4	0	6	0	4	0	2	1	3	3	2	1	0	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr14:30105555G>A	uc001wqh.2	-	7	1312	c.1131C>T	c.(1129-1131)AAC>AAT	p.N377N		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	377					cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		CGCCACTGTCGTTCTGGCACT	0.542													10	290					0	0	0.006214	0	0		A	30105555	A	A	30105555	2	1	149	1	0	0	0	0	0	0	0	1	12540	1136	40	1		1	PRKD1	14	30105555	Silent	SNP	G	TCGA-CG-5719-01A-11D-1600-08	5456684	30105555	77243985	77	77020											
LRFN5	145581	broad.mit.edu	37	chr14	42360992	42360992	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcacttctgtgtcccaaaAgcagaaaagaaagactggca	17	6	9	9	0	1	3	0	0	1	3	2	3	2	3	1	1	2	3	1	1	6	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr14:42360992A>G	uc001wvm.2	+	4	3123	c.1925A>G	c.(1924-1926)AAG>AGG	p.K642R	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	642	Cytoplasmic (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		GTGTCCCAAAAGCAGAAAAGA	0.448										HNSCC(30;0.082)			4	64					0	0	0.009096	0	0		G	42360992	G	G	42360992	3	3	149	1	0	0	0	0	1	0	0	0	8959	72	3	3	1931	3	LRFN5	14	42360992	Missense_Mutation	SNP	A	TCGA-CG-5719-01A-11D-1600-08	12255437	42360992	64988548	78	77021											
ZFYVE26	23503	broad.mit.edu	37	chr14	68220880	68220880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcccagcactttcgcaccGatgcaagaacctggtcactt	9	9	9	14	2	1	1	1	0	0	1	3	2	2	1	3	2	3	3	3	2	2	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr14:68220880G>A	uc001xka.2	-	38	7175	c.7036C>T	c.(7036-7038)CGG>TGG	p.R2346W	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkb.2_Missense_Mutation_p.R192W	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	2346					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		CTTTCGCACCGATGCAAGAAC	0.517													13	344					0	0	0.016723	0	0		A	68220880	A	A	68220880	3	1	149	1	0	0	0	0	1	0	0	0	17693	1057	37	1	603	1	ZFYVE26	14	68220880	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	25859888	68220880	39128660	79	77022											
GOLGA5	9950	broad.mit.edu	37	chr14	93273162	93273162	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcaaatgctgcctgccCtgaccacaccccaacaccta	11	7	5	18	0	2	1	2	1	0	0	2	1	2	1	6	0	4	1	6	0	3	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr14:93273162C>G	uc001yaz.1	+	3	808	c.626C>G	c.(625-627)CCT>CGT	p.P209R		NM_005113	NP_005104	Q8TBA6	GOGA5_HUMAN	Golgi autoantigen, golgin subfamily a, 5	209	Cytoplasmic (Potential).				Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		GCTGCCTGCCCTGACCACACC	0.423			T	RET	papillary thyroid								20	73					0	0	0.007413	0	0		G	93273162	G	G	93273162	3	3	149	1	0	0	0	0	1	0	0	0	6571	681	24	5	632	5	GOLGA5	14	93273162	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	25052282	93273162	14076378	80	77023											
IGDCC4	57722	broad.mit.edu	37	chr15	65687476	65687476	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggggtggaggtgcggctgGctcccagctgggagtaggcc	4	7	20	10	1	0	0	0	0	0	0	1	2	1	2	2	8	2	4	2	8	1	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr15:65687476G>C	uc002aou.1	-	8	1742	c.1532C>G	c.(1531-1533)GCC>GGC	p.A511G	IGDCC4_uc002aot.1_Missense_Mutation_p.A99G	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	511	Extracellular (Potential).|Fibronectin type-III 1.					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						GGTGCGGCTGGCTCCCAGCTG	0.572													6	68					0	0	0.016723	0	0		C	65687476	C	C	65687476	3	2	149	1	0	0	0	0	1	0	0	0	7585	1203	42	5	2272	5	IGDCC4	15	65687476	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08		65687476	36843916	81	77024											
UACA	55075	broad.mit.edu	37	chr15	70980090	70980090	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaacataaactaacttactAcatctttggcattcacagag	16	12	4	9	0	2	1	1	0	1	1	2	1	2	1	0	1	5	1	0	1	7	7			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr15:70980090A>G	uc002asr.2	-	6	598	c.494T>C	c.(493-495)GTA>GCA	p.V165A	UACA_uc010uke.1_Missense_Mutation_p.V165A|UACA_uc002asq.2_Missense_Mutation_p.V152A|UACA_uc010bin.1_Missense_Mutation_p.V151A	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	165						cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						CTAACTTACTACATCTTTGGC	0.363													27	93					0	0	0.00632	0	0		G	70980090	G	G	70980090	3	3	149	1	0	0	0	0	1	0	0	0	16850	405	14	3	3812	3	UACA	15	70980090	Missense_Mutation	SNP	A	TCGA-CG-5719-01A-11D-1600-08	5292614	70980090	31551302	82	77025											
CHRNB4	1143	broad.mit.edu	37	chr15	78917483	78917483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagggggccctcagtcacGctgggcagcgtagggcccct	5	5	15	16	2	2	0	2	0	0	0	2	0	2	0	4	4	1	3	4	4	1	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr15:78917483G>A	uc002bed.1	-	6	1601	c.1489C>T	c.(1489-1491)CGT>TGT	p.R497C	CHRNB4_uc002bee.1_Silent_p.S170S|uc002bef.1_5'Flank	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	497	Extracellular (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						CCTCAGTCACGCTGGGCAGCG	0.617													69	99					0	0	0.01441	0	0		A	78917483	A	A	78917483	3	1	149	1	0	0	0	0	1	0	0	0	3396	1087	38	1	11	1	CHRNB4	15	78917483	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	7937393	78917483	23613909	83	77026											
GPRC5B	51704	broad.mit.edu	37	chr16	19883643	19883643	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accagccactccacagcgatGatgacttgcaccagcatcag	12	6	8	15	1	1	2	1	2	0	0	2	3	2	2	4	0	4	2	4	0	0	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr16:19883643G>A	uc002dgt.2	-	2	633	c.525C>T	c.(523-525)ATC>ATT	p.I175I	GPRC5B_uc010vav.1_Silent_p.I201I	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	175	Helical; Name=4; (Potential).									lung(1)|breast(1)|skin(1)	3						CCACAGCGATGATGACTTGCA	0.672													6	68					0	0	0.010729	0	0		A	19883643	A	A	19883643	2	1	149	1	0	0	0	0	0	0	0	1	6741	1280	45	4		4	GPRC5B	16	19883643	Silent	SNP	G	TCGA-CG-5719-01A-11D-1600-08		19883643	70471110	84	77027											
PARD6A	50855	broad.mit.edu	37	chr16	67695846	67695846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaactctctgcagcggCgcaagaaagggctcttgctg	8	8	11	14	2	2	1	0	0	2	1	4	1	3	1	2	2	4	4	2	2	3	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr16:67695846C>T	uc002ett.2	+	3	428	c.337C>T	c.(337-339)CGC>TGC	p.R113C	ACD_uc002etp.3_5'Flank|ACD_uc002etq.3_5'Flank|ACD_uc002etr.3_5'Flank|ACD_uc010vjt.1_5'Flank|PARD6A_uc002ets.2_Missense_Mutation_p.R112C|PARD6A_uc002etu.2_5'UTR	NM_016948	NP_058644	Q9NPB6	PAR6A_HUMAN	par-6 partitioning defective 6 homolog alpha	113	Interaction with PRKCI and PRKCZ.				cell cycle|cell division|cell-cell junction maintenance|tight junction assembly|viral reproduction	cytosol|nucleus|ruffle|tight junction	GTP-dependent protein binding|Rho GTPase binding|transcription factor binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		TCTGCAGCGGCGCAAGAAAGG	0.617													4	124					0	0	0.014758	0	0		T	67695846	T	T	67695846	3	4	149	1	0	0	0	0	1	0	0	0	11464	768	27	1	347	1	PARD6A	16	67695846	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	47812203	67695846	22658907	85	77028											
PMFBP1	83449	broad.mit.edu	37	chr16	72158753	72158753	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcctctttggctgccagcatCttgaggtcattctggtgttg	4	16	11	10	0	4	1	1	1	3	0	5	1	5	1	2	3	2	3	2	3	0	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr16:72158753C>G	uc002fcc.3	-	17	2689	c.2517G>C	c.(2515-2517)AAG>AAC	p.K839N	PMFBP1_uc002fcd.2_Missense_Mutation_p.K834N|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.K689N|PMFBP1_uc010cgo.1_Missense_Mutation_p.K130N	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	839	Potential.									ovary(2)	2		Ovarian(137;0.179)				CTGCCAGCATCTTGAGGTCAT	0.547											OREG0023927	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	334					0	0	0.012213	0	0		G	72158753	G	G	72158753	3	3	149	1	0	0	0	0	1	0	0	0	12153	912	32	5	601	5	PMFBP1	16	72158753	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	4462907	72158753	18196000	86	77029											
WDR16	146845	broad.mit.edu	37	chr17	9503472	9503472	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactaaactgctgacagatgTtgggcctgcgaaggacaaat	13	8	12	8	1	0	2	0	1	0	1	0	5	0	3	1	2	3	2	1	2	4	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr17:9503472T>A	uc002gly.2	+	6	794	c.725T>A	c.(724-726)GTT>GAT	p.V242D	WDR16_uc002glz.2_Missense_Mutation_p.V174D|WDR16_uc010coc.2_Missense_Mutation_p.V252D	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	242						cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						CTGACAGATGTTGGGCCTGCG	0.443													5	199					0	0	0.014758	0	0		A	9503472	A	A	9503472	3	1	149	1	0	0	0	0	1	0	0	0	17302	1725	60	5	747	5	WDR16	17	9503472	Missense_Mutation	SNP	T	TCGA-CG-5719-01A-11D-1600-08		9503472	71691738	87	77030											
MYH8	4626	broad.mit.edu	37	chr17	10301947	10301947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actgcagggcgtgtgccaggGcgttcttggcctgcagaagt	6	9	16	10	2	1	1	0	0	1	1	1	1	1	1	2	3	3	3	2	3	1	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr17:10301947G>A	uc002gmm.2	-	30	4087	c.3992C>T	c.(3991-3993)GCC>GTC	p.A1331V	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1331	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GTGTGCCAGGGCGTTCTTGGC	0.527									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				34	105					0	0	0.017118	0	0		A	10301947	A	A	10301947	3	1	149	1	0	0	0	0	1	0	0	0	10059	1203	42	2	1865	2	MYH8	17	10301947	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	798475	10301947	70893263	88	77031											
DDX52	11056	broad.mit.edu	37	chr17	35993388	35993388	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgaacttttttgtcttcaAtctttgcttctacagatgac	8	19	5	9	0	5	3	1	2	4	1	5	3	5	3	0	0	3	1	0	0	3	7			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr17:35993388A>G	uc002hoi.1	-	3	385	c.347T>C	c.(346-348)ATT>ACT	p.I116T	DDX52_uc002hoh.1_Missense_Mutation_p.I8T|DDX52_uc002hoj.1_Missense_Mutation_p.I24T	NM_007010	NP_008941	Q9Y2R4	DDX52_HUMAN	ATP-dependent RNA helicase ROK1 isoform a	116						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|skin(1)	2		Breast(25;0.00637)|Ovarian(249;0.15)				TTTGTCTTCAATCTTTGCTTC	0.299													4	266					0	0	0.009096	0	0		G	35993388	G	G	35993388	3	3	149	1	0	0	0	0	1	0	0	0	4373	101	4	3	1504	3	DDX52	17	35993388	Missense_Mutation	SNP	A	TCGA-CG-5719-01A-11D-1600-08	25691441	35993388	45201822	89	77032											
ANKFN1	162282	broad.mit.edu	37	chr17	54428147	54428147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattgtcgtgtgaaaatgaCgcaacaaatgcaaaatttac	17	10	8	6	2	0	2	0	2	0	0	1	3	0	2	0	0	3	2	0	0	8	3	rs141896298	byFrequency	TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr17:54428147C>T	uc002iun.1	+	4	253	c.218C>T	c.(217-219)ACG>ATG	p.T73M		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	73										large_intestine(1)|ovary(1)	2						GTGAAAATGACGCAACAAATG	0.388													28	161					0	0	0.008361	0	0		T	54428147	T	T	54428147	3	4	149	1	0	0	0	0	1	0	0	0	625	536	19	1	232	1	ANKFN1	17	54428147	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	18434759	54428147	26767063	90	77033											
PTPRM	5797	broad.mit.edu	37	chr18	8113650	8113650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acagcctccaagctgcgcagCcttttacaattggtgataat	11	11	8	11	1	0	1	0	1	0	0	1	1	1	1	3	1	5	2	3	1	4	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr18:8113650C>T	uc002knn.3	+	12	2526	c.2023C>T	c.(2023-2025)CCT>TCT	p.P675S	PTPRM_uc010dkv.2_Missense_Mutation_p.P675S|PTPRM_uc010wzl.1_Missense_Mutation_p.P462S	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	675	Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				AGCTGCGCAGCCTTTTACAAT	0.443													49	174					0	0	0.01441	0	0		T	8113650	T	T	8113650	3	4	149	1	0	0	0	0	1	0	0	0	12831	739	26	2	2069	2	PTPRM	18	8113650	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08		8113650	69963598	91	77034											
SMAD4	4089	broad.mit.edu	37	chr18	48591919	48591919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacccttctggaggagatcGcttttgtttgggtcaactct	6	14	12	9	1	3	1	1	0	2	1	4	4	3	3	1	4	1	2	1	4	1	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr18:48591919G>A	uc010xdp.1	+	9	1620	c.1082G>A	c.(1081-1083)CGC>CAC	p.R361H	SMAD4_uc002lfb.3_Missense_Mutation_p.R206H	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	361	MH2.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in JPS).		BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.R361C(6)|p.R361H(3)|p.?(2)|p.R361S(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		GGAGGAGATCGCTTTTGTTTG	0.413									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				15	99					0	0	0.020292	0	0		A	48591919	A	A	48591919	3	1	149	1	0	0	0	0	1	0	0	0	14785	1087	38	1	1112	1	SMAD4	18	48591919	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	40478269	48591919	29485329	92	77035											
ZNF358	140467	broad.mit.edu	37	chr19	7584405	7584405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accccatgtcttcgagtttcGacctcgatccagatgtgatt	8	13	8	12	3	1	2	0	1	1	1	5	5	2	2	4	0	0	1	4	0	0	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr19:7584405G>A	uc002mgn.2	+	2	447	c.277G>A	c.(277-279)GAC>AAC	p.D93N		NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	93					embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						TTCGAGTTTCGACCTCGATCC	0.607													40	133					0	0	0.011902	0	0		A	7584405	A	A	7584405	3	1	149	1	0	0	0	0	1	0	0	0	17892	1058	37	1	279	1	ZNF358	19	7584405	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08		7584405	51544578	93	77036											
MUC16	94025	broad.mit.edu	37	chr19	8959694	8959694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctccttccttcttccgccGgcgggtggtcacctatgagg	3	13	11	14	3	3	1	1	1	2	0	6	1	5	1	5	4	0	0	5	4	1	5			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr19:8959694G>A	uc002mkp.2	-	84	43642	c.43438C>T	c.(43438-43440)CGG>TGG	p.R14480W	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.R1280W|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	22125	Cytoplasmic (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTCTTCCGCCGGCGGGTGGTC	0.582													9	25					0	0	0.006214	0	0		A	8959694	A	A	8959694	3	1	149	1	0	0	0	0	1	0	0	0	9991	1115	39	1	89	1	MUC16	19	8959694	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	1375289	8959694	50169289	94	77037											
MUC16	94025	broad.mit.edu	37	chr19	9089844	9089844	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggacttgagccagcagccgtCttgctcactgctggagacac	8	8	12	13	1	2	2	1	1	1	1	2	4	2	3	2	2	5	3	2	2	0	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr19:9089844C>T	uc002mkp.2	-	1	2175	c.1971G>A	c.(1969-1971)AAG>AAA	p.K657K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	657	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGCAGCCGTCTTGCTCACTG	0.532													15	196					0	0	0.014323	0	0		T	9089844	T	T	9089844	2	4	149	1	0	0	0	0	0	0	0	1	9991	912	32	4		4	MUC16	19	9089844	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08	130150	9089844	50039139	95	77038											
RAB3A	5864	broad.mit.edu	37	chr19	18311172	18311172	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgaaggattcctcgttggtGatgtcatacatgaggatgaa	11	13	12	5	1	1	4	1	4	0	0	3	6	2	6	1	3	1	1	1	3	3	4			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr19:18311172G>A	uc002nie.2	-	3	481	c.312C>T	c.(310-312)ATC>ATT	p.I104I		NM_002866	NP_002857	P20336	RAB3A_HUMAN	RAB3A, member RAS oncogene family	104					glutamate secretion|protein transport|small GTPase mediated signal transduction	clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|plasma membrane|synaptic vesicle	GTP binding|GTPase activity				0						CCTCGTTGGTGATGTCATACA	0.433													9	162					0	0	0.004482	0	0		A	18311172	A	A	18311172	2	1	149	1	0	0	0	0	0	0	0	1	12956	1280	45	4		4	RAB3A	19	18311172	Silent	SNP	G	TCGA-CG-5719-01A-11D-1600-08	9221328	18311172	40817811	96	77039											
HAPLN4	404037	broad.mit.edu	37	chr19	19369476	19369476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgcagggctcccggggccGgttcacggggtattgcactg	4	7	17	13	4	1	0	1	0	0	0	2	0	2	0	3	6	1	5	3	6	1	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr19:19369476G>A	uc002nmb.2	-	4	728	c.673C>T	c.(673-675)CGG>TGG	p.R225W	HAPLN4_uc002nmc.2_Missense_Mutation_p.R225W	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	225	Link 1.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			TCCCGGGGCCGGTTCACGGGG	0.721													5	10					0	0	0.001984	0	0		A	19369476	A	A	19369476	3	1	149	1	0	0	0	0	1	0	0	0	6973	1115	39	1	543	1	HAPLN4	19	19369476	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	1058304	19369476	39759507	97	77040											
CILP2	148113	broad.mit.edu	37	chr19	19656451	19656451	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcgggattacctgaccCggcaccccccaccggtgccc	5	7	9	20	3	0	1	0	1	0	0	2	2	1	2	8	3	2	1	8	3	1	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr19:19656451C>T	uc002nmv.3	+	8	3182	c.3097C>T	c.(3097-3099)CGG>TGG	p.R1033W	CILP2_uc002nmw.3_Missense_Mutation_p.R1039W	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	1033						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						TTACCTGACCCGGCACCCCCC	0.667													6	12					0	0	0.001168	0	0		T	19656451	T	T	19656451	3	4	149	1	0	0	0	0	1	0	0	0	3433	643	23	1	3127	1	CILP2	19	19656451	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	286975	19656451	39472532	98	77041											
WDR62	284403	broad.mit.edu	37	chr19	36558857	36558857	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttctgtgtgtcctactcggGcctcctctgccagttcaatg	4	14	9	14	1	3	0	1	0	2	0	6	0	5	0	4	1	2	1	4	1	2	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr19:36558857G>C	uc002odc.2	+	7	918	c.827G>C	c.(826-828)GGC>GCC	p.G276A	WDR62_uc002odd.2_Missense_Mutation_p.G276A|WDR62_uc002odb.2_Missense_Mutation_p.G276A	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	276					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TCCTACTCGGGCCTCCTCTGC	0.597													11	47					0	0	0.010729	0	0		C	36558857	C	C	36558857	3	2	149	1	0	0	0	0	1	0	0	0	17339	1203	42	5	853	5	WDR62	19	36558857	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	16902406	36558857	22570126	99	77042											
CYP2A13	1553	broad.mit.edu	37	chr19	41600209	41600209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accggcagcccaagtttgagGaccgggccaagatgccctac	10	5	12	14	2	0	2	0	1	0	1	0	3	0	3	5	3	3	2	5	3	3	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr19:41600209G>A	uc002opt.2	+	7	1042	c.1033G>A	c.(1033-1035)GAC>AAC	p.D345N		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	345					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	CAAGTTTGAGGACCGGGCCAA	0.557													35	100					0	0	0.015359	0	0		A	41600209	A	A	41600209	3	1	149	1	0	0	0	0	1	0	0	0	4164	1174	41	4	1059	4	CYP2A13	19	41600209	Missense_Mutation	SNP	G	TCGA-CG-5719-01A-11D-1600-08	5041352	41600209	17528774	100	77043											
SIGLEC14	100049587	broad.mit.edu	37	chr19	52149117	52149117	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggtgaggttggtgccatgGtcctcgggcctgggggtgag	4	9	20	8	1	0	2	0	2	0	0	2	2	1	2	3	7	1	1	3	7	0	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr19:52149117G>A	uc002pxf.3	-	3	738	c.618C>T	c.(616-618)GAC>GAT	p.D206D		NM_001098612	NP_001092082	Q08ET2	SIG14_HUMAN	sialic acid binding Ig-like lectin 14 precursor	206	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane	protein binding|sugar binding			ovary(1)	1		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000965)|OV - Ovarian serous cystadenocarcinoma(262;0.0195)		TGGTGCCATGGTCCTCGGGCC	0.637													4	77					0	0	0.009096	0	0		A	52149117	A	A	52149117	2	1	149	1	0	0	0	0	0	0	0	1	14334	1252	44	4		4	SIGLEC14	19	52149117	Silent	SNP	G	TCGA-CG-5719-01A-11D-1600-08	10548908	52149117	6979866	101	77044											
NLRP4	147945	broad.mit.edu	37	chr19	56369621	56369621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgtgcccgaaggagctcCgggatcaggtgacgatctca	8	7	14	12	4	2	1	2	1	1	0	4	5	3	3	3	3	2	1	3	3	1	0			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr19:56369621C>T	uc002qmd.3	+	3	1284	c.862C>T	c.(862-864)CGG>TGG	p.R288W	NLRP4_uc002qmf.2_Missense_Mutation_p.R213W|NLRP4_uc010etf.2_Missense_Mutation_p.R119W	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	288	NACHT.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		GAAGGAGCTCCGGGATCAGGT	0.547													28	153					0	0	0.007291	0	0		T	56369621	T	T	56369621	3	4	149	1	0	0	0	0	1	0	0	0	10498	643	23	1	868	1	NLRP4	19	56369621	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08	4220504	56369621	2759362	102	77045											
TMC2	117532	broad.mit.edu	37	chr20	2597930	2597930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaccatcatgtccctccCaccctcctttgactgcgggc	6	10	6	19	1	1	1	1	1	0	0	4	1	4	1	5	1	2	0	5	1	1	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr20:2597930C>T	uc002wgf.1	+	16	2168	c.2153C>T	c.(2152-2154)CCA>CTA	p.P718L	TMC2_uc002wgg.1_Missense_Mutation_p.P702L	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	718	Extracellular (Potential).					integral to membrane				ovary(3)	3						ATGTCCCTCCCACCCTCCTTT	0.622													5	82					0	0	0.014758	0	0		T	2597930	T	T	2597930	3	4	149	1	0	0	0	0	1	0	0	0	16010	594	21	4	2215	4	TMC2	20	2597930	Missense_Mutation	SNP	C	TCGA-CG-5719-01A-11D-1600-08		2597930	60427590	103	77046											
C20orf29	55317	broad.mit.edu	37	chr20	3804851	3804851	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaccgcattgagggcatcctCacccgcttcctgccacatgg	7	8	10	16	2	1	1	1	1	0	0	3	2	3	1	5	2	1	3	5	2	0	2			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr20:3804851C>T	uc002wjs.1	+	3	688	c.510C>T	c.(508-510)CTC>CTT	p.L170L	C20orf29_uc002wjt.2_Silent_p.L94L|C20orf29_uc002wju.1_Silent_p.L170L	NM_018347	NP_060817	Q9NUS5	CT029_HUMAN	hypothetical protein LOC55317	170					double-strand break repair via homologous recombination		protein binding			skin(1)	1						AGGGCATCCTCACCCGCTTCC	0.637													11	40					0	0	0.010729	0	0		T	3804851	T	T	3804851	2	4	149	1	0	0	0	0	0	0	0	1	2111	813	29	4		4	C20orf29	20	3804851	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08	1206921	3804851	59220669	104	77047											
TPTE	7179	broad.mit.edu	37	chr21	10951401	10951401	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggatgagagtgacatccAgtaagaccaggaaaactcca	17	5	10	9	0	0	3	0	2	0	2	2	6	2	5	3	2	1	1	3	2	4	1			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr21:10951401A>T	uc002yip.1	-	10	679	c.311T>A	c.(310-312)CTG>CAG	p.L104Q	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.L86Q|TPTE_uc002yir.1_Missense_Mutation_p.L66Q|TPTE_uc010gkv.1_5'UTR	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	104	Helical; (Potential).				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		AGTGACATCCAGTAAGACCAG	0.318													12	171					0	0	0.013537	0	0		T	10951401	T	T	10951401	3	4	149	1	0	0	0	0	1	0	0	0	16456	188	7	5	1404	5	TPTE	21	10951401	Missense_Mutation	SNP	A	TCGA-CG-5719-01A-11D-1600-08		10951401	37178494	105	77048											
PCNT	5116	broad.mit.edu	37	chr21	47786730	47786730	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggctgcacgtgtggcCgaactgcagacaaaacacgc	10	6	12	13	3	0	1	0	0	0	1	0	2	0	1	1	2	5	4	1	2	3	0			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chr21:47786730C>T	uc002zji.3	+	15	2948	c.2841C>T	c.(2839-2841)GCC>GCT	p.A947A	PCNT_uc002zjj.2_Silent_p.A829A	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	947					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					CACGTGTGGCCGAACTGCAGA	0.597													21	82					0	0	0.021523	0	0		T	47786730	T	T	47786730	2	4	149	1	0	0	0	0	0	0	0	1	11609	639	23	1		1	PCNT	21	47786730	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08	36835329	47786730	343165	106	77049											
TNMD	64102	broad.mit.edu	37	chrX	99854068	99854068	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcttcactttcctgccaaCgaaaaaaaagggattgaaca	16	9	7	9	1	2	1	1	1	1	0	3	4	3	2	2	1	3	0	2	1	6	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chrX:99854068C>T	uc004efy.3	+	6	859	c.633C>T	c.(631-633)AAC>AAT	p.N211N	TNMD_uc004efz.2_3'UTR	NM_022144	NP_071427	Q9H2S6	TNMD_HUMAN	tenomodulin	211	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						TTCCTGCCAACGAAAAAAAAG	0.423													9	39					0	0	0.004482	0	0		T	99854068	T	T	99854068	2	4	149	1	0	0	0	0	0	0	0	1	16347	535	19	1		1	TNMD	23	99854068	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08		99854068	55416492	107	77050											
ZIC3	7547	broad.mit.edu	37	chrX	136651179	136651179	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctatatctgcaaagtgtgCgacaagtcctacacgcaccc	11	8	7	15	2	1	0	0	0	1	0	2	1	2	0	3	0	3	2	3	0	5	3			TCGA-CG-5719-01A-11D-1600-08	TCGA-CG-5719-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	06d82ba1-5010-48c8-a0e8-36fc009f9b70	1e859428-ed63-4752-a140-7587e742a171	g.chrX:136651179C>T	uc004fak.2	+	2	1684	c.1179C>T	c.(1177-1179)TGC>TGT	p.C393C		NM_003413	NP_003404	O60481	ZIC3_HUMAN	zinc finger protein of the cerebellum 3	393	C2H2-type 5.				cell differentiation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GCAAAGTGTGCGACAAGTCCT	0.532													38	248					0	0	0.019004	0	0		T	136651179	T	T	136651179	2	4	149	1	0	0	0	0	0	0	0	1	17705	776	27	1		1	ZIC3	23	136651179	Silent	SNP	C	TCGA-CG-5719-01A-11D-1600-08	36797111	136651179	18619381	108	77051											
SPEN	23013	broad.mit.edu	37	chr1	16260606	16260606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aattacctctgttattagccGgatgcctgtcagcattgacc	9	13	8	11	1	2	1	1	1	1	0	2	2	2	2	4	1	4	2	4	1	4	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:16260606G>A	uc001axk.1	+	11	8075	c.7871G>A	c.(7870-7872)CGG>CAG	p.R2624Q	SPEN_uc010obp.1_Missense_Mutation_p.R2583Q	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2624	RID.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GTTATTAGCCGGATGCCTGTC	0.502													79	173					0	0	0.01441	0	0		A	16260606	A	A	16260606	3	1	150	1	0	0	0	0	1	0	0	0	15063	1116	39	1	7913	1	SPEN	1	16260606	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08		16260606	232990015	1	77052											
USP48	84196	broad.mit.edu	37	chr1	22073598	22073598	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctccatatccaaaatttctGagaagccaatgtaggtattc	13	12	7	9	0	1	1	0	1	1	1	4	2	3	1	3	1	1	3	3	1	7	5			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:22073598G>C	uc001bfb.2	-	8	1191	c.953C>G	c.(952-954)TCA>TGA	p.S318*	USP48_uc010odq.1_Nonsense_Mutation_p.S318*|USP48_uc009vqc.2_Nonsense_Mutation_p.S318*|USP48_uc001bfc.2_Nonsense_Mutation_p.S318*|USP48_uc001bfe.1_Nonsense_Mutation_p.S318*|USP48_uc001bff.2_Nonsense_Mutation_p.S318*	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	318					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		CAAAATTTCTGAGAAGCCAAT	0.323													20	61					0	0	0.008871	0	0		C	22073598	C	C	22073598	4	2	150	1	0	0	0	0	0	1	0	0	17105	1294	45	5	2242	5	USP48	1	22073598	Nonsense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	5812992	22073598	227177023	2	77053											
ZMPSTE24	10269	broad.mit.edu	37	chr1	40758340	40758340	+	Nonstop_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaaactatgaagcaacactGagatgtccaggatctgtgac	15	8	10	8	0	1	3	0	3	1	1	2	6	2	4	1	1	3	1	1	1	5	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:40758340G>C	uc001cfg.2	+	10	1638	c.1427G>C	c.(1426-1428)TGA>TCA	p.*476S		NM_005857	NP_005848	O75844	FACE1_HUMAN	zinc metallopeptidase STE24	476						endoplasmic reticulum membrane|Golgi membrane|integral to membrane	metal ion binding|metalloexopeptidase activity				0	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;6.3e-18)			AAGCAACACTGAGATGTCCAG	0.388													4	153					0	0	0.009096	0	0		C	40758340	C	C	40758340	4	2	150	1	0	0	0	0	0	0	0	0	17723	1285	45	5	1465	5	ZMPSTE24	1	40758340	Nonstop_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	18684742	40758340	208492281	3	77054											
WDR65	149465	broad.mit.edu	37	chr1	43663300	43663300	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtctagctacctgcatccGcaaaccccttatagccacct	9	9	6	17	2	1	0	0	0	1	0	2	0	2	0	6	1	5	3	6	1	5	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:43663300G>A	uc001cip.1	+	7	1320	c.1199G>A	c.(1198-1200)CGC>CAC	p.R400H	EBNA1BP2_uc001cio.2_Intron|WDR65_uc010ojz.1_Missense_Mutation_p.R389H|WDR65_uc001ciq.1_Missense_Mutation_p.R400H	NM_152498	NP_689711	Q96MR6	WDR65_HUMAN	WD repeat domain 65	400	WD 5.									skin(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				ACCTGCATCCGCAAACCCCTT	0.458													5	217					0	0	0.014758	0	0		A	43663300	A	A	43663300	3	1	150	1	0	0	0	0	1	0	0	0	17342	1087	38	1	1221	1	WDR65	1	43663300	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	2904960	43663300	205587321	4	77055											
NASP	4678	broad.mit.edu	37	chr1	46082046	46082046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggtttcactcctggtggagGaggctcttcagtctccatgg	6	12	13	10	0	4	0	2	0	2	0	6	2	5	2	2	6	0	2	2	6	0	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:46082046G>A	uc001coi.1	+	12	2162	c.2060G>A	c.(2059-2061)GGA>GAA	p.G687E	NASP_uc001coh.1_Missense_Mutation_p.G689E|NASP_uc001coj.1_Missense_Mutation_p.G348E|NASP_uc010olr.1_Missense_Mutation_p.G623E|NASP_uc001col.1_Missense_Mutation_p.G195E	NM_002482	NP_002473	P49321	NASP_HUMAN	nuclear autoantigenic sperm protein isoform 2	687					blastocyst development|cell cycle|cell proliferation|DNA replication|histone exchange|protein transport	cytoplasm|nucleus	Hsp90 protein binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.211)					CCTGGTGGAGGAGGCTCTTCA	0.388													6	409					0	0	0.001984	0	0		A	46082046	A	A	46082046	3	1	150	1	0	0	0	0	1	0	0	0	10190	1174	41	4	2183	4	NASP	1	46082046	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	2418746	46082046	203168575	5	77056											
C8B	732	broad.mit.edu	37	chr1	57415241	57415241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacttacagtatgagagaatCgtttggttctcctaatatag	12	15	8	6	1	1	2	0	1	1	1	3	3	1	2	1	1	2	3	1	1	7	8			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:57415241C>T	uc001cyp.2	-	6	918	c.851G>A	c.(850-852)CGA>CAA	p.R284Q	C8B_uc010oon.1_Missense_Mutation_p.R222Q|C8B_uc010ooo.1_Missense_Mutation_p.R232Q	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	284	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						ATGAGAGAATCGTTTGGTTCT	0.254													31	67					0	0	0.015359	0	0		T	57415241	T	T	57415241	3	4	150	1	0	0	0	0	1	0	0	0	2420	884	31	1	952	1	C8B	1	57415241	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	11333195	57415241	191835380	6	77057											
GSTM3	2947	broad.mit.edu	37	chr1	110279764	110279764	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgcagaactgatcagactGtaagtaggcagcgattttct	11	12	10	8	1	2	3	1	1	1	2	2	4	2	3	0	1	3	4	0	1	3	5			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:110279764G>T	uc001dyo.2	-	9	917	c.607C>A	c.(607-609)CAG>AAG	p.Q203K	GSTM3_uc001dyp.2_Missense_Mutation_p.Q200K	NM_000849	NP_000840	P21266	GSTM3_HUMAN	glutathione S-transferase mu 3	203	GST C-terminal.				establishment of blood-nerve barrier|glutathione metabolic process|response to estrogen stimulus	cytoplasm	glutathione transferase activity|identical protein binding				0		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Colorectal(144;0.0339)|Lung(183;0.0426)|all cancers(265;0.113)|Epithelial(280;0.125)|COAD - Colon adenocarcinoma(174;0.134)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	TGATCAGACTGTAAGTAGGCA	0.473													36	90					1.36161e-19	1.57195e-19	0.019004	1	0		T	110279764	T	T	110279764	3	4	150	1	0	0	0	0	1	0	0	0	6855	1386	48	5	74	5	GSTM3	1	110279764	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	52864523	110279764	138970857	7	77058											
SV2A	9900	broad.mit.edu	37	chr1	149885391	149885391	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctcggaagccctcttccAtgatggggcttggggcactt	5	11	14	11	1	2	1	0	1	2	0	4	2	3	2	2	6	1	2	2	6	1	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:149885391A>G	uc001etg.2	-	2	493	c.2T>C	c.(1-3)ATG>ACG	p.M1T	SV2A_uc001eth.2_Missense_Mutation_p.M1T	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	1	Cytoplasmic (Potential).|Interaction with SYT1 (By similarity).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	GCCCTCTTCCATGATGGGGCT	0.537													49	74					0	0	0.01441	0	0		G	149885391	G	G	149885391	3	3	150	1	0	0	0	0	1	0	0	0	15442	217	8	3	2274	3	SV2A	1	149885391	Missense_Mutation	SNP	A	TCGA-CG-5720-01A-11D-1600-08	39605627	149885391	99365230	8	77059											
CD1C	911	broad.mit.edu	37	chr1	158262407	158262407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaggccagaagcctggctgtCcagtcgccccagccttgggt	6	7	14	14	1	0	1	0	0	0	1	2	2	1	1	6	3	2	1	6	3	1	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:158262407C>T	uc001fru.2	+	4	924	c.632C>T	c.(631-633)TCC>TTC	p.S211F	CD1C_uc001frv.2_Missense_Mutation_p.S14F	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	211	Extracellular (Potential).|Ig-like.				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					GCCTGGCTGTCCAGTCGCCCC	0.507													23	72					0	0	0.021523	0	0		T	158262407	T	T	158262407	3	4	150	1	0	0	0	0	1	0	0	0	2979	855	30	4	646	4	CD1C	1	158262407	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	8377016	158262407	90988214	9	77060											
CRB1	23418	broad.mit.edu	37	chr1	197403842	197403842	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttctctcattaggtattgCaaatgctgtttttaatggac	9	17	7	8	0	2	0	1	0	1	0	3	1	2	1	1	2	2	4	1	2	4	7			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:197403842C>A	uc001gtz.2	+	9	2984	c.2849C>A	c.(2848-2850)GCA>GAA	p.A950E	CRB1_uc010poz.1_Missense_Mutation_p.A926E|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.A838E|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.A431E|CRB1_uc001gub.1_Missense_Mutation_p.A599E	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	950	Extracellular (Potential).|EGF-like 14.|Laminin G-like 3.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TTAGGTATTGCAAATGCTGTT	0.294													43	100					5.44703e-19	6.18782e-19	0.009718	1	0		A	197403842	A	A	197403842	3	1	150	1	0	0	0	0	1	0	0	0	3851	710	25	5	2883	5	CRB1	1	197403842	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	39141435	197403842	51846779	10	77061											
PTPRC	5788	broad.mit.edu	37	chr1	198725065	198725065	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcctatatgacgtcattGccagcacctaccctgctcag	10	11	6	14	1	2	1	2	1	0	0	3	1	3	1	4	0	4	2	4	0	4	5			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:198725065G>T	uc001gur.1	+	33	3850	c.3670G>T	c.(3670-3672)GCC>TCC	p.A1224S	PTPRC_uc001gus.1_Missense_Mutation_p.A1176S|PTPRC_uc001gut.1_Missense_Mutation_p.A1063S	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	1224	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TGACGTCATTGCCAGCACCTA	0.348													4	138					1.23904e-05	1.32288e-05	0.014758	1	0		T	198725065	T	T	198725065	3	4	150	1	0	0	0	0	1	0	0	0	12822	1319	46	5	3807	5	PTPRC	1	198725065	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	1321223	198725065	50525556	11	77062											
MIA3	375056	broad.mit.edu	37	chr1	222802939	222802939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggatagcgaaaaaacaagtGagactgctgccaaaggggtc	15	6	13	7	1	0	1	0	1	0	1	1	4	0	2	1	3	4	1	1	3	6	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:222802939G>A	uc001hnl.2	+	4	2386	c.2377G>A	c.(2377-2379)GAG>AAG	p.E793K	MIA3_uc009xea.1_Missense_Mutation_p.E629K	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	793	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		AAAAACAAGTGAGACTGCTGC	0.443													4	91					0	0	0.009096	0	0		A	222802939	A	A	222802939	3	1	150	1	0	0	0	0	1	0	0	0	9583	1291	45	4	2391	4	MIA3	1	222802939	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	24077874	222802939	26447682	12	77063											
ACTN2	88	broad.mit.edu	37	chr1	236906280	236906280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgagattcggagactggagCgcttggaacacctggctgag	10	8	15	8	2	0	3	0	2	0	2	1	7	0	5	1	4	2	2	1	4	1	2	rs148189507		TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:236906280C>T	uc001hyf.2	+	11	1396	c.1192C>T	c.(1192-1194)CGC>TGC	p.R398C	ACTN2_uc001hyg.2_Missense_Mutation_p.R190C|ACTN2_uc009xgi.1_Missense_Mutation_p.R398C|ACTN2_uc010pxu.1_Missense_Mutation_p.R87C|ACTN2_uc001hyh.2_Missense_Mutation_p.R86C	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	398					focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GAGACTGGAGCGCTTGGAACA	0.522													32	63					0	0	0.008361	0	0		T	236906280	T	T	236906280	3	4	150	1	0	0	0	0	1	0	0	0	205	768	27	1	1234	1	ACTN2	1	236906280	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	14103341	236906280	12344341	13	77064											
OR1C1	26188	broad.mit.edu	37	chr1	247921586	247921586	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcgcaatgatgagcatgttCcccaaggtggtggctaaata	11	10	12	8	1	0	2	0	2	0	0	2	2	1	2	2	3	1	4	2	3	5	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr1:247921586C>A	uc010pza.1	-	1	123	c.123G>T	c.(121-123)GGG>GGT	p.G41G		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	41	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TGAGCATGTTCCCCAAGGTGG	0.483													12	33					0.00136819	0.00142856	0.013537	1	0		A	247921586	A	A	247921586	2	1	150	1	0	0	0	0	0	0	0	1	10971	842	30	5		5	OR1C1	1	247921586	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	11015306	247921586	1329035	14	77065											
MYT1L	23040	broad.mit.edu	37	chr2	1805549	1805549	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atttcttcatctaactgtttGatttcttcatcattttctat	8	23	2	8	0	7	1	3	1	4	0	7	1	7	1	0	0	1	1	0	0	2	9			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr2:1805549G>C	uc002qxe.2	-	23	4022	c.3195C>G	c.(3193-3195)ATC>ATG	p.I1065M	MYT1L_uc002qxd.2_Missense_Mutation_p.I1063M|MYT1L_uc010ewk.2_Missense_Mutation_p.I61M	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	1065	Potential.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CTAACTGTTTGATTTCTTCAT	0.308													8	197					0	0	0.004482	0	0		C	1805549	C	C	1805549	3	2	150	1	0	0	0	0	1	0	0	0	10125	1280	45	5	377	5	MYT1L	2	1805549	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08		1805549	241393824	15	77066											
AGBL5	60509	broad.mit.edu	37	chr2	27279566	27279566	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccagggctgcaatttctcaGagaagaatatgtatgcccga	12	10	10	9	1	1	2	1	0	1	2	3	4	2	2	2	1	2	3	2	1	5	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr2:27279566G>C	uc002rie.2	+	8	1658	c.1441G>C	c.(1441-1443)GAG>CAG	p.E481Q	AGBL5_uc002rid.2_Missense_Mutation_p.E481Q|AGBL5_uc002rif.2_RNA	NM_021831	NP_068603	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5 isoform 1	481					protein branching point deglutamylation|proteolysis	cytosol|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAATTTCTCAGAGAAGAATAT	0.483													8	251					0	0	0.010729	0	0		C	27279566	C	C	27279566	3	2	150	1	0	0	0	0	1	0	0	0	378	943	33	5	1467	5	AGBL5	2	27279566	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	25474017	27279566	215919807	16	77067											
C2orf71	388939	broad.mit.edu	37	chr2	29295778	29295778	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacatggggtgcttgtcccCagcttcaaaggtggggaggt	7	10	15	9	0	2	0	2	0	0	0	3	1	3	1	2	6	2	2	2	6	1	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr2:29295778C>A	uc002rmt.1	-	1	1350	c.1350G>T	c.(1348-1350)CTG>CTT	p.L450L		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	450					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						TGCTTGTCCCCAGCTTCAAAG	0.537													8	131					0.000157383	0.000166779	0.00308	1	0		A	29295778	A	A	29295778	2	1	150	1	0	0	0	0	0	0	0	1	2194	581	21	5		5	C2orf71	2	29295778	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	2016212	29295778	213903595	17	77068											
ARHGAP25	9938	broad.mit.edu	37	chr2	69053233	69053233	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctccgcaacatggagcgCtcccgggaggatgttgagaa	10	6	14	11	3	0	1	0	1	0	1	2	5	2	4	3	3	3	3	3	3	2	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr2:69053233C>T	uc002seu.2	+	11	2209	c.1845C>T	c.(1843-1845)CGC>CGT	p.R615R	ARHGAP25_uc010fdg.2_Silent_p.R616R|ARHGAP25_uc010yql.1_Silent_p.R576R|ARHGAP25_uc002sew.2_Silent_p.R608R|ARHGAP25_uc002sex.2_Silent_p.R609R|ARHGAP25_uc002sey.2_Silent_p.R342R	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	615	Potential.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity	p.E615D(1)		ovary(2)|breast(2)	4						ACATGGAGCGCTCCCGGGAGG	0.498													37	92					0	0	0.015359	0	0		T	69053233	T	T	69053233	2	4	150	1	0	0	0	0	0	0	0	1	874	784	28	2		2	ARHGAP25	2	69053233	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	39757455	69053233	174146140	18	77069											
THSD7B	80731	broad.mit.edu	37	chr2	137814278	137814278	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggactgcagcaccggatggTgcgctgcattcagaagctga	9	8	14	10	2	1	2	1	1	0	1	1	4	1	4	1	3	5	5	1	3	1	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr2:137814278T>G	uc002tva.1	+	2	335	c.335T>G	c.(334-336)GTG>GGG	p.V112G	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Missense_Mutation_p.V2G	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CACCGGATGGTGCGCTGCATT	0.542													9	109					0	0	0.00632	0	0		G	137814278	G	G	137814278	3	3	150	1	0	0	0	0	1	0	0	0	15905	1696	59	5	341	5	THSD7B	2	137814278	Missense_Mutation	SNP	T	TCGA-CG-5720-01A-11D-1600-08	68761045	137814278	105385095	19	77070											
ACVR2A	92	broad.mit.edu	37	chr2	148680566	148680566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtacccggaggtacatggctCcagaggtattagagggtgct	9	9	15	8	1	0	2	0	0	0	2	1	3	1	3	2	5	3	5	2	5	4	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr2:148680566C>T	uc002twg.2	+	10	1371	c.1102C>T	c.(1102-1104)CCA>TCA	p.P368S	ACVR2A_uc010zbn.1_Missense_Mutation_p.P260S|ACVR2A_uc002twh.2_Missense_Mutation_p.P368S	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	368	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		GTACATGGCTCCAGAGGTATT	0.393													13	190					0	0	0.016723	0	0		T	148680566	T	T	148680566	3	4	150	1	0	0	0	0	1	0	0	0	223	855	30	4	1136	4	ACVR2A	2	148680566	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	10866288	148680566	94518807	20	77071											
TTN	7273	broad.mit.edu	37	chr2	179642243	179642243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgggtgtggcagggacaaTaattagtgattgagtaccat	12	11	13	5	0	0	2	0	2	0	0	0	3	0	3	1	3	1	2	1	3	4	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr2:179642243T>C	uc010zfg.1	-	26	4773	c.4549A>G	c.(4549-4551)ATT>GTT	p.I1517V	TTN_uc010zfh.1_Missense_Mutation_p.I1471V|TTN_uc010zfi.1_Missense_Mutation_p.I1471V|TTN_uc010zfj.1_Missense_Mutation_p.I1471V|TTN_uc002unb.2_Missense_Mutation_p.I1517V|uc002unc.1_RNA	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1517							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCAGGGACAATAATTAGTGAT	0.388													3	23					0	0	0.004672	0	0		C	179642243	C	C	179642243	3	2	150	1	0	0	0	0	1	0	0	0	16761	1406	49	3	106787	3	TTN	2	179642243	Missense_Mutation	SNP	T	TCGA-CG-5720-01A-11D-1600-08	30961677	179642243	63557130	21	77072											
NCL	4691	broad.mit.edu	37	chr2	232326384	232326384	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcctcatcctcgtcctcGtcatcctcctcatcctcctc	4	14	2	21	2	4	0	4	0	0	0	14	0	11	0	7	0	0	0	7	0	0	0			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr2:232326384G>A	uc002vru.2	-	3	621	c.480C>T	c.(478-480)GAC>GAT	p.D160D	SNORD82_uc010fxw.1_5'Flank	NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	160	Asp/Glu-rich (acidic).				angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		cctcgtcctcgtcatcctcct	0.289													18	61					0	0	0.006122	0	0		A	232326384	A	A	232326384	2	1	150	1	0	0	0	0	0	0	0	1	10245	1136	40	1		1	NCL	2	232326384	Silent	SNP	G	TCGA-CG-5720-01A-11D-1600-08	52684141	232326384	10872989	22	77073											
RNPEPL1	57140	broad.mit.edu	37	chr2	241516317	241516317	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccctgctggactcgatgaaCgctgagatccgcatccgctg	7	9	11	14	4	0	2	0	2	0	1	4	5	3	3	3	1	2	4	3	1	1	0			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr2:241516317C>G	uc002vzi.2	+	10	1694	c.1101C>G	c.(1099-1101)AAC>AAG	p.N367K	RNPEPL1_uc010fzf.2_Missense_Mutation_p.N273K|RNPEPL1_uc002vzj.2_Missense_Mutation_p.N15K	NM_018226	NP_060696	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like	367					leukotriene biosynthetic process|proteolysis		aminopeptidase activity|metallopeptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)		ACTCGATGAACGCTGAGATCC	0.642													24	64					0	0	0.01892	0	0		G	241516317	G	G	241516317	3	3	150	1	0	0	0	0	1	0	0	0	13535	535	19	5	1131	5	RNPEPL1	2	241516317	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	9189933	241516317	1683056	23	77074											
SCN5A	6331	broad.mit.edu	37	chr3	38607902	38607902	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcgggtgcccacactcacgtCtacgatgaggaagtcgagcc	9	7	12	13	4	2	1	1	1	1	0	4	4	2	2	2	2	3	0	2	2	2	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr3:38607902C>G	uc003cio.2	-	21	4032	c.3838G>C	c.(3838-3840)GAC>CAC	p.D1280H	SCN5A_uc003cin.2_Missense_Mutation_p.D1279H|SCN5A_uc003cil.3_Missense_Mutation_p.D1280H|SCN5A_uc010hhi.2_Missense_Mutation_p.D1280H|SCN5A_uc010hhk.2_Missense_Mutation_p.D1279H|SCN5A_uc011ayr.1_Missense_Mutation_p.D1226H|SCN5A_uc010hhj.1_Missense_Mutation_p.D890H	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1280	Helical; Name=S3 of repeat III; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	ACACTCACGTCTACGATGAGG	0.587													3	78					0	0	0.004672	0	0		G	38607902	G	G	38607902	3	3	150	1	0	0	0	0	1	0	0	0	13947	913	32	5	2244	5	SCN5A	3	38607902	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08		38607902	159414528	24	77075											
SCN5A	6331	broad.mit.edu	37	chr3	38628904	38628904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtaccaggcggaaggagCgcagcaccgacaagttgctc	11	4	14	12	3	0	0	0	0	0	0	1	3	0	2	2	4	4	5	2	4	3	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr3:38628904C>T	uc003cio.2	-	15	2617	c.2423G>A	c.(2422-2424)CGC>CAC	p.R808H	SCN5A_uc003cin.2_Missense_Mutation_p.R808H|SCN5A_uc003cil.3_Missense_Mutation_p.R808H|SCN5A_uc010hhi.2_Missense_Mutation_p.R808H|SCN5A_uc010hhk.2_Missense_Mutation_p.R808H|SCN5A_uc011ayr.1_Missense_Mutation_p.R808H|SCN5A_uc010hhj.1_Missense_Mutation_p.R419H	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	808	Helical; Voltage-sensor; Name=S4 of repeat II; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	GCGGAAGGAGCGCAGCACCGA	0.587													12	20					0	0	0.010729	0	0		T	38628904	T	T	38628904	3	4	150	1	0	0	0	0	1	0	0	0	13947	768	27	1	3683	1	SCN5A	3	38628904	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	21002	38628904	159393526	25	77076											
WDR6	11180	broad.mit.edu	37	chr3	49051460	49051460	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagccgcctcgcctgccaTgtcatgcacctttcgtccca	6	9	7	19	3	1	0	1	0	0	0	4	0	2	0	7	0	3	1	7	0	1	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr3:49051460T>A	uc003cvj.2	+	2	2721	c.2583T>A	c.(2581-2583)CAT>CAA	p.H861Q	WDR6_uc011bbx.1_3'UTR|WDR6_uc011bby.1_Missense_Mutation_p.H309Q|WDR6_uc010hkn.2_Missense_Mutation_p.H805Q|WDR6_uc011bbz.1_Missense_Mutation_p.H780Q	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	831					cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		TCGCCTGCCATGTCATGCACC	0.592											OREG0015565	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	60					0	0	0.00874	0	0		A	49051460	A	A	49051460	3	1	150	1	0	0	0	0	1	0	0	0	17336	1461	51	5	2589	5	WDR6	3	49051460	Missense_Mutation	SNP	T	TCGA-CG-5720-01A-11D-1600-08	10422556	49051460	148970970	26	77077											
RHOA	387	broad.mit.edu	37	chr3	49412898	49412898	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacctcgatatctgccacaTagttctcaaacactgtgggc	10	10	7	14	1	2	0	1	0	2	0	4	1	2	0	3	1	2	1	3	1	3	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr3:49412898T>G	uc003cwu.2	-	2	401	c.125A>C	c.(124-126)TAT>TCT	p.Y42S	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	42	Effector region (Potential).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	ATCTGCCACATAGTTCTCAAA	0.433													69	179					0	0	0.01441	0	0		G	49412898	G	G	49412898	3	3	150	1	0	0	0	0	1	0	0	0	13356	1406	49	5	472	5	RHOA	3	49412898	Missense_Mutation	SNP	T	TCGA-CG-5720-01A-11D-1600-08	361438	49412898	148609532	27	77078											
ROBO1	6091	broad.mit.edu	37	chr3	78683085	78683085	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttggttcatcttacttacCagatgtactactgccccggt	7	15	7	12	1	2	1	1	0	1	1	2	1	2	1	3	2	5	2	3	2	4	6			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr3:78683085C>A	uc003dqe.2	-	24	3689	c.3481G>T	c.(3481-3483)GGG>TGG	p.G1161W	ROBO1_uc003dqb.2_Missense_Mutation_p.G1122W|ROBO1_uc003dqc.2_Missense_Mutation_p.G1061W|ROBO1_uc003dqd.2_Missense_Mutation_p.G1116W|ROBO1_uc010hoh.2_Missense_Mutation_p.G353W|ROBO1_uc011bgl.1_Missense_Mutation_p.G733W	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1161	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TCTTACTTACCAGATGTACTA	0.428													26	79					3.28513e-13	3.67313e-13	0.021523	1	0		A	78683085	A	A	78683085	3	1	150	1	0	0	0	0	1	0	0	0	13538	608	21	5	1506	5	ROBO1	3	78683085	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	29270187	78683085	119339345	28	77079											
CRYBG3	131544	broad.mit.edu	37	chr3	97652558	97652558	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttgaagaaccctccatCagcctttttgctctggagca	8	14	8	11	0	2	2	1	1	1	1	3	3	3	3	3	1	4	3	3	1	2	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr3:97652558C>A	uc003drx.2	+	15	2482	c.2418C>A	c.(2416-2418)ATC>ATA	p.I806I	CRYBG3_uc010hoz.1_RNA	NM_153605	NP_705833			beta-gamma crystallin domain containing 3												0						AACCCTCCATCAGCCTTTTTG	0.468													6	222					0.00116845	0.00122903	0.001168	1	0		A	97652558	A	A	97652558	2	1	150	1	0	0	0	0	0	0	0	1	3916	816	29	5		5	CRYBG3	3	97652558	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	18969473	97652558	100369872	29	77080											
CCDC14	64770	broad.mit.edu	37	chr3	123667796	123667796	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaattccattagggatgttcTttgaagtcaagtcattcatc	11	15	8	7	0	4	1	3	1	1	0	6	3	5	2	1	1	0	1	1	1	4	5			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr3:123667796T>C	uc011bjx.1	-	6	771	c.680A>G	c.(679-681)AAG>AGG	p.K227R	CCDC14_uc003egv.3_Missense_Mutation_p.K27R|CCDC14_uc003egx.3_Missense_Mutation_p.K27R|CCDC14_uc010hrt.2_Missense_Mutation_p.K186R|CCDC14_uc003egy.3_Missense_Mutation_p.K27R|CCDC14_uc003egz.2_Missense_Mutation_p.K27R	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	227						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		AGGGATGTTCTTTGAAGTCAA	0.403													21	39					0	0	0.012319	0	0		C	123667796	C	C	123667796	3	2	150	1	0	0	0	0	1	0	0	0	2776	1609	56	3	2213	3	CCDC14	3	123667796	Missense_Mutation	SNP	T	TCGA-CG-5720-01A-11D-1600-08	26015238	123667796	74354634	30	77081											
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003		TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			4	80					0	0	0.009096	0	0		A	178936091	A	A	178936091	3	1	150	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1667	4	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	55268295	178936091	19086339	31	77082											
C4orf50	389197	broad.mit.edu	37	chr4	5975538	5975538	+	Frame_Shift_Del	DEL	G	-	-																															gatcaggcggttcctctcccGgcacttccggacgagggaag																								rs16837960	byFrequency	TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr4:5975538delG	uc003git.1	-	4	346	c.256delC	c.(256-258)CGGfs	p.R86fs		NM_207405	NP_997288	Q6ZRC1	CD050_HUMAN	hypothetical protein LOC389197	86										pancreas(2)|breast(1)	3						TTCCTCTCCCGGCACTTCCGG	0.642													24	51	---	---	---	---						.	-	5975538	-	-	5975538	7	5	150	1	0	1	0	1	0	0	0	0	2279	1115	39	0	590	0	C4orf50	4	5975538	Frame_Shift_Del	DEL	G	TCGA-CG-5720-01A-11D-1600-08		5975538	185178738	32	77083											
SEC31A	22872	broad.mit.edu	37	chr4	83778855	83778855	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacttacccccactgacagaGatattaaatgttcctccaga	13	11	5	12	0	0	3	0	1	0	2	2	4	2	3	4	0	2	1	4	0	5	5			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr4:83778855G>A	uc003hnf.2	-	15	1853	c.1689C>T	c.(1687-1689)ATC>ATT	p.I563I	SEC31A_uc003hne.2_Silent_p.I296I|SEC31A_uc011ccl.1_Silent_p.I524I|SEC31A_uc003hnl.2_Silent_p.I524I|SEC31A_uc003hng.2_Silent_p.I563I|SEC31A_uc003hnh.2_Silent_p.I563I|SEC31A_uc003hni.2_Silent_p.I563I|SEC31A_uc003hnj.2_Silent_p.I524I|SEC31A_uc011ccm.1_Silent_p.I558I|SEC31A_uc011ccn.1_Silent_p.I563I|SEC31A_uc003hnk.2_Silent_p.I524I|SEC31A_uc003hnm.2_Silent_p.I563I|SEC31A_uc003hnn.1_Silent_p.I563I	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	563					COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				CACTGACAGAGATATTAAATG	0.308													5	140					0	0	0.014758	0	0		A	83778855	A	A	83778855	2	1	150	1	0	0	0	0	0	0	0	1	14023	932	33	4		4	SEC31A	4	83778855	Silent	SNP	G	TCGA-CG-5720-01A-11D-1600-08	77803317	83778855	107375421	33	77084											
MTTP	4547	broad.mit.edu	37	chr4	100522851	100522851	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcagaaagttgtgtcagAatgaaggctgcaaactcaaa	15	10	10	6	0	3	3	3	1	0	2	3	3	3	3	0	1	2	3	0	1	5	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr4:100522851A>C	uc003hvc.3	+	11	1580	c.1324A>C	c.(1324-1326)AAT>CAT	p.N442H	MTTP_uc011cej.1_Missense_Mutation_p.N469H	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	442	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	GTTGTGTCAGAATGAAGGCTG	0.388													54	141					0	0	0.01441	0	0		C	100522851	C	C	100522851	3	2	150	1	0	0	0	0	1	0	0	0	9982	246	9	5	1362	5	MTTP	4	100522851	Missense_Mutation	SNP	A	TCGA-CG-5720-01A-11D-1600-08	16743996	100522851	90631425	34	77085											
ANK2	287	broad.mit.edu	37	chr4	114277913	114277913	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagtacaattccagcctgtCgtttccaaacaatatacttt	13	13	5	10	1	0	0	0	0	0	0	3	1	2	0	3	0	4	2	3	0	7	6			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr4:114277913C>T	uc003ibe.3	+	38	8239	c.8139C>T	c.(8137-8139)GTC>GTT	p.V2713V	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Silent_p.V15V|ANK2_uc011cgb.1_Silent_p.V2728V	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2680					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TCCAGCCTGTCGTTTCCAAAC	0.423													56	114					0	0	0.01441	0	0		T	114277913	T	T	114277913	2	4	150	1	0	0	0	0	0	0	0	1	621	871	31	1		1	ANK2	4	114277913	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	13755062	114277913	76876363	35	77086											
C4orf31	79625	broad.mit.edu	37	chr4	121957645	121957645	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attggttttgctctcttttcTtctggtcttcattgtagtta	4	23	7	7	0	5	0	1	0	4	0	6	0	5	0	0	2	1	4	0	2	2	10			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr4:121957645T>A	uc003idq.1	-	4	2008	c.1481A>T	c.(1480-1482)AAG>ATG	p.K494M		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	494	Fibronectin type-III 2.										0						CTCTCTTTTCTTCTGGTCTTC	0.423													5	204					0	0	0.014758	0	0		A	121957645	A	A	121957645	3	1	150	1	0	0	0	0	1	0	0	0	2264	1609	56	5	229	5	C4orf31	4	121957645	Missense_Mutation	SNP	T	TCGA-CG-5720-01A-11D-1600-08	7679732	121957645	69196631	36	77087											
FAT4	79633	broad.mit.edu	37	chr4	126373396	126373396	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgccagctcacagctgaCaggcttagggactgctgtgc	8	9	12	12	0	1	1	1	1	0	0	1	2	1	2	1	2	5	4	1	2	1	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr4:126373396C>A	uc003ifj.3	+	9	11225	c.11225C>A	c.(11224-11226)ACA>AAA	p.T3742K	FAT4_uc011cgp.1_Missense_Mutation_p.T2040K|FAT4_uc003ifi.1_Missense_Mutation_p.T1220K	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3742	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TCACAGCTGACAGGCTTAGGG	0.433													87	201					2.78983e-34	3.24718e-34	0.01441	1	0		A	126373396	A	A	126373396	3	1	150	1	0	0	0	0	1	0	0	0	5706	478	17	5	11259	5	FAT4	4	126373396	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	4415751	126373396	64780880	37	77088											
ODZ3	55714	broad.mit.edu	37	chr4	183675803	183675803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatgagaagaaaattaaccGgataaggcaggtcacaacag	18	6	11	6	1	1	3	1	2	0	2	1	5	1	4	1	3	2	1	1	3	6	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr4:183675803G>A	uc003ivd.1	+	21	4320	c.4283G>A	c.(4282-4284)CGG>CAG	p.R1428Q	ODZ3_uc003ive.1_Missense_Mutation_p.R841Q	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1428	Extracellular (Potential).|NHL 4.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		AAAATTAACCGGATAAGGCAG	0.473													16	40					0	0	0.006122	0	0		A	183675803	A	A	183675803	3	1	150	1	0	0	0	0	1	0	0	0	10855	1116	39	1	4365	1	ODZ3	4	183675803	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	57302407	183675803	7478473	38	77089											
DNAH5	1767	broad.mit.edu	37	chr5	13919406	13919406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttccagtgctccagctccGctcgtggcccaacgtcatcc	5	11	8	17	3	1	0	1	0	0	0	6	0	5	0	5	1	3	3	5	1	1	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr5:13919406G>A	uc003jfd.2	-	7	896	c.854C>T	c.(853-855)GCG>GTG	p.A285V	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	285	Potential.|Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CTCCAGCTCCGCTCGTGGCCC	0.532									Kartagener_syndrome				98	234					0	0	0.01441	0	0		A	13919406	A	A	13919406	3	1	150	1	0	0	0	0	1	0	0	0	4610	1087	38	1	13312	1	DNAH5	5	13919406	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08		13919406	166995854	39	77090											
BHMT	635	broad.mit.edu	37	chr5	78417142	78417142	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attggcccagaaggagatttGcatggcgtgccccccggcga	8	7	14	12	3	0	2	0	0	0	2	0	4	0	2	4	4	2	1	4	4	1	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr5:78417142G>T	uc003kfu.3	+	5	684	c.579G>T	c.(577-579)TTG>TTT	p.L193F	BHMT_uc011cti.1_Intron	NM_001713	NP_001704	Q93088	BHMT1_HUMAN	betaine-homocysteine methyltransferase	193	Hcy-binding.				protein methylation|regulation of homocysteine metabolic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)	AAGGAGATTTGCATGGCGTGC	0.478													34	67					1.62565e-12	1.78947e-12	0.012213	1	0		T	78417142	T	T	78417142	3	4	150	1	0	0	0	0	1	0	0	0	1426	1310	46	5	597	5	BHMT	5	78417142	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	64497736	78417142	102498118	40	77091											
GPR98	84059	broad.mit.edu	37	chr5	89989834	89989834	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caattcaaggggtgcctgacCcactttggagaacttggatg	10	10	12	9	0	1	2	1	1	0	1	1	4	1	3	2	4	2	0	2	4	3	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr5:89989834C>A	uc003kju.2	+	33	7357	c.7261C>A	c.(7261-7263)CCA>ACA	p.P2421T	GPR98_uc003kjt.2_Missense_Mutation_p.P127T|GPR98_uc003kjv.2_Missense_Mutation_p.P21T	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2421	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GGTGCCTGACCCACTTTGGAG	0.483													23	32					2.21704e-12	2.42168e-12	0.016522	1	0		A	89989834	A	A	89989834	3	1	150	1	0	0	0	0	1	0	0	0	6737	623	22	5	7391	5	GPR98	5	89989834	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	11572692	89989834	90925426	41	77092											
FBN2	2201	broad.mit.edu	37	chr5	127673797	127673797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctacaaaggagagggttacGttcacattcgtcaatgtctg	11	11	10	9	2	3	1	2	0	1	1	4	2	3	1	1	2	2	2	1	2	4	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr5:127673797G>A	uc003kuu.2	-	27	3929	c.3490C>T	c.(3490-3492)CGT>TGT	p.R1164C	FBN2_uc003kuv.2_Missense_Mutation_p.R1131C	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1164	EGF-like 17; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		AGAGGGTTACGTTCACATTCG	0.473													19	40					0	0	0.007413	0	0		A	127673797	A	A	127673797	3	1	150	1	0	0	0	0	1	0	0	0	5717	1145	40	1	5404	1	FBN2	5	127673797	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	37683963	127673797	53241463	42	77093											
CTNNA1	1495	broad.mit.edu	37	chr5	138268343	138268343	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactgccaccagctgaacaTctgcagcaaggtcaaggccg	11	6	10	14	1	2	1	1	1	1	0	2	1	2	1	3	2	6	3	3	2	4	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr5:138268343T>A	uc003ldh.2	+	17	2470	c.2375T>A	c.(2374-2376)ATC>AAC	p.I792N	CTNNA1_uc011cyx.1_Missense_Mutation_p.I689N|CTNNA1_uc011cyy.1_Missense_Mutation_p.I669N|CTNNA1_uc003ldi.2_Missense_Mutation_p.I490N|CTNNA1_uc003ldj.2_Missense_Mutation_p.I792N|CTNNA1_uc003ldl.2_Missense_Mutation_p.I422N	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	792					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CAGCTGAACATCTGCAGCAAG	0.582													22	13					0	0	0.021523	0	0		A	138268343	A	A	138268343	3	1	150	1	0	0	0	0	1	0	0	0	4015	1435	50	5	2437	5	CTNNA1	5	138268343	Missense_Mutation	SNP	T	TCGA-CG-5720-01A-11D-1600-08	10594546	138268343	42646917	43	77094											
PCDHB5	26167	broad.mit.edu	37	chr5	140517125	140517125	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcgctcttcctcttttcGgtgctcctgttcgtggcagt	1	17	10	13	4	2	0	0	0	2	0	8	0	4	0	2	2	1	4	2	2	0	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr5:140517125G>A	uc003liq.2	+	1	2326	c.2109G>A	c.(2107-2109)TCG>TCA	p.S703S		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	703	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCTCTTTTCGGTGCTCCTGT	0.701													52	106					0	0	0.01441	0	0		A	140517125	A	A	140517125	2	1	150	1	0	0	0	0	0	0	0	1	11564	1103	39	1		1	PCDHB5	5	140517125	Silent	SNP	G	TCGA-CG-5720-01A-11D-1600-08	2248782	140517125	40398135	44	77095											
CDKAL1	54901	broad.mit.edu	37	chr6	20781484	20781484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccactgatagaaatcatttCcatcaataccgggtaagcat	14	11	6	10	1	2	2	2	1	0	1	4	2	4	2	3	1	2	2	3	1	5	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr6:20781484C>T	uc003ndc.1	+	8	800	c.626C>T	c.(625-627)TCC>TTC	p.S209F	CDKAL1_uc003ndd.1_Missense_Mutation_p.S209F|CDKAL1_uc003nde.1_Missense_Mutation_p.S139F	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	209					RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			GAAATCATTTCCATCAATACC	0.383													33	93					0	0	0.017118	0	0		T	20781484	T	T	20781484	3	4	150	1	0	0	0	0	1	0	0	0	3155	855	30	4	648	4	CDKAL1	6	20781484	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08		20781484	150333583	45	77096											
PGBD1	84547	broad.mit.edu	37	chr6	28254891	28254891	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatcagctcatctccaggaAaaaaaccccagagacaaggc	16	4	9	12	0	3	1	2	0	1	1	4	4	3	3	3	3	2	1	3	3	4	0			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr6:28254891A>C	uc003nky.2	+	4	958	c.588A>C	c.(586-588)GAA>GAC	p.E196D	PGBD1_uc003nkz.2_Missense_Mutation_p.E196D	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	196					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						ATCTCCAGGAAAAAAACCCCA	0.502													28	73					0	0	0.008361	0	0		C	28254891	C	C	28254891	3	2	150	1	0	0	0	0	1	0	0	0	11799	11	1	5	598	5	PGBD1	6	28254891	Missense_Mutation	SNP	A	TCGA-CG-5720-01A-11D-1600-08	7473407	28254891	142860176	46	77097											
BAT1	7919	broad.mit.edu	37	chr6	31504336	31504336	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgtttaatgtgtttgaggTtgaggctcttatttcgagcc	7	17	12	5	1	1	2	0	2	1	0	2	3	1	2	1	2	1	4	1	2	2	6			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr6:31504336T>C	uc003ntt.2	-	5	1188	c.557A>G	c.(556-558)AAC>AGC	p.N186S	BAT1_uc003ntr.2_5'Flank|BAT1_uc003nts.2_Missense_Mutation_p.N186S|BAT1_uc011dnn.1_Missense_Mutation_p.N108S|BAT1_uc003ntu.2_Missense_Mutation_p.N186S|BAT1_uc003ntv.2_Missense_Mutation_p.N186S|BAT1_uc003ntw.2_Missense_Mutation_p.N186S|BAT1_uc003ntx.2_Missense_Mutation_p.N186S|BAT1_uc011dno.1_Missense_Mutation_p.N139S|BAT1_uc011dnp.1_Missense_Mutation_p.N108S|SNORD117_uc003nty.1_5'Flank|BAT1_uc011dnq.1_RNA	NM_004640	NP_004631	Q13838	DX39B_HUMAN	HLA-B associated transcript 1	186	Helicase ATP-binding.				intronless viral mRNA export from host nucleus|RNA secondary structure unwinding|spliceosome assembly	nuclear speck|spliceosomal complex|transcription export complex	ATP binding|ATP-dependent protein binding|ATP-dependent RNA helicase activity|identical protein binding|U4 snRNA binding|U6 snRNA binding				0						GTGTTTGAGGTTGAGGCTCTT	0.493													4	143					0	0	0.014758	0	0		C	31504336	C	C	31504336	3	2	150	1	0	0	0	0	1	0	0	0	1319	1725	60	3	757	3	BAT1	6	31504336	Missense_Mutation	SNP	T	TCGA-CG-5720-01A-11D-1600-08	3249445	31504336	139610731	47	77098											
ELOVL5	60481	broad.mit.edu	37	chr6	53140993	53140993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtaccttcatatctgattctCctgcggtgcgtgtgccctga	5	14	10	12	2	3	2	1	2	2	0	4	2	3	2	3	1	4	1	3	1	2	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr6:53140993C>T	uc003pbq.1	-	4	756	c.308G>A	c.(307-309)GGA>GAA	p.G103E	ELOVL5_uc003pbr.1_Missense_Mutation_p.G103E|ELOVL5_uc011dwx.1_Missense_Mutation_p.G130E|ELOVL5_uc003pbs.1_Missense_Mutation_p.G103E	NM_021814	NP_068586	Q9NYP7	ELOV5_HUMAN	elongation of very long chain fatty acids-like	103					fatty acid elongation, monounsaturated fatty acid|fatty acid elongation, polyunsaturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding				0	Lung NSC(77;0.116)					ATCTGATTCTCCTGCGGTGCG	0.353													22	56					0	0	0.016522	0	0		T	53140993	T	T	53140993	3	4	150	1	0	0	0	0	1	0	0	0	5085	855	30	4	611	4	ELOVL5	6	53140993	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	21636657	53140993	117974074	48	77099											
PHF3	23469	broad.mit.edu	37	chr6	64395157	64395157	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccgaagaaaattgttgcaGcaaagtatgaagtaatacat	17	10	8	6	1	0	2	0	1	0	1	1	3	1	2	1	0	3	5	1	0	8	5			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr6:64395157G>A	uc003pep.1	+	3	1560	c.1534G>A	c.(1534-1536)GCA>ACA	p.A512T	PHF3_uc010kaf.1_Missense_Mutation_p.A512T|PHF3_uc003pem.2_Missense_Mutation_p.A465T|PHF3_uc010kag.1_Missense_Mutation_p.A424T|PHF3_uc010kah.1_Missense_Mutation_p.A326T|PHF3_uc003pen.2_Missense_Mutation_p.A424T|PHF3_uc011dxs.1_Intron|PHF3_uc003peo.2_Missense_Mutation_p.A512T	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	512					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			AATTGTTGCAGCAAAGTATGA	0.328													3	108					0	0	0.004672	0	0		A	64395157	A	A	64395157	3	1	150	1	0	0	0	0	1	0	0	0	11855	971	34	2	1544	2	PHF3	6	64395157	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	11254164	64395157	106719910	49	77100											
RIMS1	22999	broad.mit.edu	37	chr6	73100419	73100419	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactgatggcagcatcaacAgttacagctctgagggcaag	12	8	11	10	0	2	2	1	2	1	0	2	2	2	2	0	2	5	5	0	2	4	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr6:73100419A>G	uc003pga.2	+	30	4563	c.4486A>G	c.(4486-4488)AGT>GGT	p.S1496G	RIMS1_uc011dyb.1_Missense_Mutation_p.S893G|RIMS1_uc003pgc.2_Missense_Mutation_p.S945G|RIMS1_uc010kaq.2_Missense_Mutation_p.S816G|RIMS1_uc011dyc.1_Missense_Mutation_p.S621G|RIMS1_uc010kar.2_Missense_Mutation_p.S564G|RIMS1_uc011dyd.1_Missense_Mutation_p.S630G|RIMS1_uc003pgf.2_Missense_Mutation_p.S496G|RIMS1_uc003pgg.2_Missense_Mutation_p.S392G|RIMS1_uc003pgi.2_Missense_Mutation_p.S312G|RIMS1_uc003pgh.2_Missense_Mutation_p.S363G|RIMS1_uc003pgd.2_Missense_Mutation_p.S562G|RIMS1_uc003pge.2_Missense_Mutation_p.S536G|RIMS1_uc011dye.1_Missense_Mutation_p.S302G|RIMS1_uc011dyf.1_Missense_Mutation_p.S120G|RIMS1_uc011dyg.1_Missense_Mutation_p.S23G	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1496					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				CAGCATCAACAGTTACAGCTC	0.478													16	41					0	0	0.00499	0	0		G	73100419	G	G	73100419	3	3	150	1	0	0	0	0	1	0	0	0	13392	188	7	3	4767	3	RIMS1	6	73100419	Missense_Mutation	SNP	A	TCGA-CG-5720-01A-11D-1600-08	8705262	73100419	98014648	50	77101											
OOEP	441161	broad.mit.edu	37	chr6	74079495	74079495	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgccccgctgggactcagcGgcaccagcatcatcgaccat	8	7	10	16	3	2	0	2	0	0	0	3	2	2	1	4	2	3	3	4	2	0	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr6:74079495G>A	uc003pgu.3	-	1	21	c.21C>T	c.(19-21)GCC>GCT	p.A7A	OOEP_uc003pgv.3_Intron	NM_001080507	NP_001073976	A6NGQ2	OOEP_HUMAN	oocyte expressed protein homolog	7						cytoplasm					0						GGGACTCAGCGGCACCAGCAT	0.667													21	59					0	0	0.01892	0	0		A	74079495	A	A	74079495	2	1	150	1	0	0	0	0	0	0	0	1	10889	1103	39	1		1	OOEP	6	74079495	Silent	SNP	G	TCGA-CG-5720-01A-11D-1600-08	979076	74079495	97035572	51	77102											
EPB41L2	2037	broad.mit.edu	37	chr6	131225628	131225628	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatatcttcagtcaattgAgaaggatcaggaggataaaa	16	10	11	4	0	4	2	3	2	1	1	4	6	4	5	0	3	0	0	0	3	5	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr6:131225628A>C	uc003qch.2	-	6	1088	c.906T>G	c.(904-906)TCT>TCG	p.S302S	EPB41L2_uc003qcg.1_Silent_p.S302S|EPB41L2_uc011eby.1_Silent_p.S302S|EPB41L2_uc003qci.2_Silent_p.S302S|EPB41L2_uc010kfk.2_Silent_p.S302S|EPB41L2_uc010kfl.1_Silent_p.S302S	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	302	FERM.				cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		CAGTCAATTGAGAAGGATCAG	0.353													31	75					0	0	0.015359	0	0		C	131225628	C	C	131225628	2	2	150	1	0	0	0	0	0	0	0	1	5161	291	11	5		5	EPB41L2	6	131225628	Silent	SNP	A	TCGA-CG-5720-01A-11D-1600-08	57146133	131225628	39889439	52	77103											
C6orf118	168090	broad.mit.edu	37	chr6	165711567	165711567	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaccggcctctgccccagCgccttgagttgagccagaag	7	8	11	15	2	2	3	1	2	1	1	2	3	2	3	6	1	3	1	6	1	1	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr6:165711567C>T	uc003qum.3	-	5	996	c.960G>A	c.(958-960)GCG>GCA	p.A320A	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	320											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		TCTGCCCCAGCGCCTTGAGTT	0.567													14	39					0	0	0.020292	0	0		T	165711567	T	T	165711567	2	4	150	1	0	0	0	0	0	0	0	1	2326	755	27	1		1	C6orf118	6	165711567	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	34485939	165711567	5403500	53	77104											
PUS7	54517	broad.mit.edu	37	chr7	105108843	105108843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catagtcttctatcctcttgCttaccatgttattccacaca	9	16	3	13	0	3	0	0	0	3	0	5	0	5	0	3	0	2	2	3	0	4	7			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr7:105108843C>T	uc003vcx.2	-	12	1685	c.1466G>A	c.(1465-1467)AGC>AAC	p.S489N	PUS7_uc010lji.2_Missense_Mutation_p.S495N|PUS7_uc003vcy.2_Missense_Mutation_p.S489N|PUS7_uc003vcz.1_Missense_Mutation_p.S489N	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog	489	TRUD.				pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						TATCCTCTTGCTTACCATGTT	0.403													6	296					0	0	0.001984	0	0		T	105108843	T	T	105108843	3	4	150	1	0	0	0	0	1	0	0	0	12858	797	28	2	539	2	PUS7	7	105108843	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08		105108843	54029820	54	77105											
CTTNBP2	83992	broad.mit.edu	37	chr7	117417656	117417656	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggaacaacaggcttggatAtgccttcaggactctcttct	10	11	9	11	0	3	0	1	0	2	0	4	3	3	3	1	4	3	1	1	4	3	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr7:117417656A>G	uc003vjf.2	-	8	2779	c.2687T>C	c.(2686-2688)ATA>ACA	p.I896T		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	896										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		AGGCTTGGATATGCCTTCAGG	0.478													4	111					0	0	0.014758	0	0		G	117417656	G	G	117417656	3	3	150	1	0	0	0	0	1	0	0	0	4048	449	16	3	2368	3	CTTNBP2	7	117417656	Missense_Mutation	SNP	A	TCGA-CG-5720-01A-11D-1600-08	12308813	117417656	41721007	55	77106											
MSR1	4481	broad.mit.edu	37	chr8	16021714	16021714	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcttctttcatagccataAtttctgctgatacattgtaa	10	18	5	8	0	4	1	1	1	3	0	4	1	4	1	1	0	3	3	1	0	4	9			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr8:16021714A>G	uc003wwz.2	-	5	875	c.677T>C	c.(676-678)ATT>ACT	p.I226T	MSR1_uc010lsu.2_Missense_Mutation_p.I244T|MSR1_uc003wxa.2_Missense_Mutation_p.I226T|MSR1_uc003wxb.2_Missense_Mutation_p.I226T|MSR1_uc011kxz.1_5'UTR	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	226	Potential.|Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		CATAGCCATAATTTCTGCTGA	0.333													30	78					0	0	0.012213	0	0		G	16021714	G	G	16021714	3	3	150	1	0	0	0	0	1	0	0	0	9904	101	4	3	750	3	MSR1	8	16021714	Missense_Mutation	SNP	A	TCGA-CG-5720-01A-11D-1600-08		16021714	130342308	56	77107											
TLE4	7091	broad.mit.edu	37	chr9	82267638	82267638	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcttctggccctctccaGtgctctaggaggtcagtccc	4	10	12	15	1	4	0	1	0	3	0	6	1	5	1	3	4	1	2	3	4	1	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr9:82267638G>C	uc004ald.2	+	7	1349	c.500G>C	c.(499-501)AGT>ACT	p.S167T	TLE4_uc004alc.2_Missense_Mutation_p.S174T|TLE4_uc010mpr.2_Missense_Mutation_p.S53T|TLE4_uc004ale.2_5'UTR|TLE4_uc011lsq.1_Missense_Mutation_p.S142T|TLE4_uc010mps.2_Missense_Mutation_p.S167T|TLE4_uc004alf.2_Missense_Mutation_p.S113T	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						GCCCTCTCCAGTGCTCTAGGA	0.547													60	122					0	0	0.01441	0	0		C	82267638	C	C	82267638	3	2	150	1	0	0	0	0	1	0	0	0	15966	1029	36	5	547	5	TLE4	9	82267638	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08		82267638	58945793	57	77108											
TGFBR1	7046	broad.mit.edu	37	chr9	101891280	101891280	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaattgacttaattcctcgaGataggccgtttgtatgtgca	11	14	9	7	2	0	2	0	1	0	1	2	3	1	2	2	1	1	3	2	1	4	6			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr9:101891280G>C	uc004azc.2	+	2	317	c.241G>C	c.(241-243)GAT>CAT	p.D81H	TGFBR1_uc004azd.2_Missense_Mutation_p.D81H|TGFBR1_uc011lvc.1_Missense_Mutation_p.D12H|TGFBR1_uc004aze.2_Missense_Mutation_p.D12H	NM_004612	NP_004603	P36897	TGFR1_HUMAN	transforming growth factor, beta receptor I	81	Extracellular (Potential).				activation of MAPKK activity|anterior/posterior pattern formation|artery morphogenesis|collagen fibril organization|embryonic cranial skeleton morphogenesis|germ cell migration|heart development|kidney development|neuron fate commitment|palate development|parathyroid gland development|pathway-restricted SMAD protein phosphorylation|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|pharyngeal system development|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of cellular component movement|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of SMAD protein import into nucleus|positive regulation of survival gene product expression|positive regulation of transcription, DNA-dependent|response to cholesterol|thymus development|transforming growth factor beta receptor signaling pathway		ATP binding|I-SMAD binding|metal ion binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type I|type II transforming growth factor beta receptor binding			lung(2)|ovary(1)	3		Acute lymphoblastic leukemia(62;0.0559)				AATTCCTCGAGATAGGCCGTT	0.418													4	112					0	0	0.009096	0	0		C	101891280	C	C	101891280	3	2	150	1	0	0	0	0	1	0	0	0	15846	942	33	5	247	5	TGFBR1	9	101891280	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	19623642	101891280	39322151	58	77109											
PFKFB3	5209	broad.mit.edu	37	chr10	6265969	6265969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaccgtcctgaaactgaCgcctgtcgcttatggtgagt	8	11	10	12	3	1	3	1	3	0	0	3	3	2	3	3	1	1	1	3	1	2	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr10:6265969C>T	uc001ije.2	+	12	1646	c.1262C>T	c.(1261-1263)ACG>ATG	p.T421M	PFKFB3_uc001ijd.2_Missense_Mutation_p.T401M|PFKFB3_uc009xii.2_RNA|PFKFB3_uc010qaw.1_Missense_Mutation_p.T435M|PFKFB3_uc001ijf.2_Missense_Mutation_p.T421M|PFKFB3_uc001ijg.2_5'Flank|PFKFB3_uc009xij.2_5'Flank|PFKFB3_uc009xik.2_5'Flank|PFKFB3_uc009xil.2_5'Flank	NM_004566	NP_004557	Q16875	F263_HUMAN	6-phosphofructo-2-kinase/fructose-2,	421	Fructose-2,6-bisphosphatase.				fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(2)|central_nervous_system(1)	3						CTGAAACTGACGCCTGTCGCT	0.512													66	126					0	0	0.01441	0	0		T	6265969	T	T	6265969	3	4	150	1	0	0	0	0	1	0	0	0	11781	536	19	1	1328	1	PFKFB3	10	6265969	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08		6265969	129268778	59	77110											
PCDH15	65217	broad.mit.edu	37	chr10	55582826	55582826	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actcttggcttgtattttggGtgaaaatgggtctacaaaat	11	15	10	5	0	2	1	0	1	2	0	2	1	2	1	0	3	1	2	0	3	6	6			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr10:55582826G>T	uc001jju.1	-	33	5055	c.4660C>A	c.(4660-4662)CCC>ACC	p.P1554T	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.P1551T|PCDH15_uc010qhw.1_Missense_Mutation_p.P1514T|PCDH15_uc010qhx.1_Missense_Mutation_p.P1485T|PCDH15_uc010qhy.1_Missense_Mutation_p.P1561T|PCDH15_uc010qhz.1_Missense_Mutation_p.P1556T|PCDH15_uc010qia.1_Missense_Mutation_p.P1534T|PCDH15_uc010qib.1_Missense_Mutation_p.P1531T	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1554	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TGTATTTTGGGTGAAAATGGG	0.423										HNSCC(58;0.16)			77	207					2.49587e-40	2.92904e-40	0.01441	1	0		T	55582826	T	T	55582826	3	4	150	1	0	0	0	0	1	0	0	0	11530	1261	44	5	2817	5	PCDH15	10	55582826	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	49316857	55582826	79951921	60	77111											
BICC1	80114	broad.mit.edu	37	chr10	60566791	60566791	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaaccagtggtgacggAggtcagaacgcccacaaata	17	4	11	9	2	1	3	1	1	0	2	1	4	1	4	2	3	2	0	2	3	5	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr10:60566791A>C	uc001jki.1	+	17	2249	c.2249A>C	c.(2248-2250)GAG>GCG	p.E750A	BICC1_uc001jkj.1_Missense_Mutation_p.E391A	NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	750					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						GTGGTGACGGAGGTCAGAACG	0.398													33	97					0	0	0.019004	0	0		C	60566791	C	C	60566791	3	2	150	1	0	0	0	0	1	0	0	0	1428	304	11	5	2315	5	BICC1	10	60566791	Missense_Mutation	SNP	A	TCGA-CG-5720-01A-11D-1600-08	4983965	60566791	74967956	61	77112											
COL17A1	1308	broad.mit.edu	37	chr10	105830281	105830281	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtggggctcacacttgcCgatcgactccccttgagcaa	7	8	12	14	3	1	1	1	1	0	0	3	3	2	1	3	3	2	2	3	3	1	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr10:105830281C>T	uc001kxr.2	-	9	679	c.510G>A	c.(508-510)TCG>TCA	p.S170S	COL17A1_uc010qqv.1_Silent_p.S154S|COL17A1_uc009xxp.1_Silent_p.S170S	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	170	Cytoplasmic (Potential).|Nonhelical region (NC16).|Necessary for interaction with DST and for the recruitment of DST to hemidesmosome.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TCACACTTGCCGATCGACTCC	0.517													43	102					0	0	0.009718	0	0		T	105830281	T	T	105830281	2	4	150	1	0	0	0	0	0	0	0	1	3677	639	23	1		1	COL17A1	10	105830281	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	45263490	105830281	29704466	62	77113											
DUSP5	1847	broad.mit.edu	37	chr10	112269931	112269931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagaggaggagcatggtctCgcccaactttggcttcatgg	8	9	14	10	1	2	1	1	0	1	1	3	3	2	3	1	5	2	3	1	5	1	2	rs142065029		TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr10:112269931C>T	uc001kzd.2	+	4	1157	c.902C>T	c.(901-903)TCG>TTG	p.S301L		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	301	Tyrosine-protein phosphatase.				endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		AGCATGGTCTCGCCCAACTTT	0.587													3	87					0	0	0.004672	0	0		T	112269931	T	T	112269931	3	4	150	1	0	0	0	0	1	0	0	0	4834	893	31	1	916	1	DUSP5	10	112269931	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	6439650	112269931	23264816	63	77114											
DSCAML1	57453	broad.mit.edu	37	chr11	117301568	117301568	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcatggatgtcatgctgtcGgcgttctcgttggtgcctgt	3	15	13	10	3	3	0	2	0	1	0	5	1	3	1	1	3	2	3	1	3	0	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr11:117301568G>A	uc001prh.1	-	32	5738	c.5736C>T	c.(5734-5736)GCC>GCT	p.A1912A		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1852	Cytoplasmic (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TCATGCTGTCGGCGTTCTCGT	0.592													89	228					0	0	0.01441	0	0		A	117301568	A	A	117301568	2	1	150	1	0	0	0	0	0	0	0	1	4775	1103	39	1		1	DSCAML1	11	117301568	Silent	SNP	G	TCGA-CG-5720-01A-11D-1600-08		117301568	17704948	64	77115											
PUS3	83480	broad.mit.edu	37	chr11	125765476	125765476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcacgagggaaaaaatagCggtaagtccgctcaaggcag	15	4	13	9	3	1	0	1	0	0	0	2	2	2	1	1	3	2	4	1	3	6	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr11:125765476C>T	uc001qcy.2	-	3	685	c.587G>A	c.(586-588)CGC>CAC	p.R196H	HYLS1_uc009zbv.2_Intron|HYLS1_uc001qcx.3_Intron	NM_031307	NP_112597	Q9BZE2	PUS3_HUMAN	pseudouridylate synthase 3	196						nucleus	RNA binding			ovary(1)	1	all_hematologic(175;0.177)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.131)|all_lung(97;0.139)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.043)		GAAAAAATAGCGGTAAGTCCG	0.463													4	102					0	0	0.009096	0	0		T	125765476	T	T	125765476	3	4	150	1	0	0	0	0	1	0	0	0	12857	768	27	1	866	1	PUS3	11	125765476	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	8463908	125765476	9241040	65	77116											
CACNA2D4	93589	broad.mit.edu	37	chr12	2024076	2024076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgttatacaggtccccgcCgaaggtgtcagcccatagct	9	9	11	12	2	1	0	1	0	0	0	2	1	2	0	4	2	3	2	4	2	4	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr12:2024076C>T	uc001qjp.2	-	2	484	c.253G>A	c.(253-255)GGC>AGC	p.G85S	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Missense_Mutation_p.G85S	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	85	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		AGGTCCCCGCCGAAGGTGTCA	0.413													21	63					0	0	0.012319	0	0		T	2024076	T	T	2024076	3	4	150	1	0	0	0	0	1	0	0	0	2554	652	23	1	3308	1	CACNA2D4	12	2024076	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08		2024076	131827819	66	77117											
CHD4	1108	broad.mit.edu	37	chr12	6700638	6700638	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttctctctcaccattgaAgcggtcaatggcctcttgcc	6	13	7	15	1	4	1	2	1	3	0	7	1	5	1	4	2	2	0	4	2	2	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr12:6700638A>G	uc001qpo.2	-	22	3498	c.3334T>C	c.(3334-3336)TTC>CTC	p.F1112L	CHD4_uc001qpn.2_Missense_Mutation_p.F1105L|CHD4_uc001qpp.2_Missense_Mutation_p.F1109L	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1112	Helicase C-terminal.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TCACCATTGAAGCGGTCAATG	0.433													59	117					0	0	0.01441	0	0		G	6700638	G	G	6700638	3	3	150	1	0	0	0	0	1	0	0	0	3330	72	3	3	2480	3	CHD4	12	6700638	Missense_Mutation	SNP	A	TCGA-CG-5720-01A-11D-1600-08	4676562	6700638	127151257	67	77118											
C1S	716	broad.mit.edu	37	chr12	7177629	7177629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaagagagatcgtgctgttCgcctcaaggcggcaaggtta	11	8	14	8	3	1	3	1	0	0	3	3	4	1	3	1	3	1	4	1	3	4	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr12:7177629C>T	uc001qsj.2	+	15	2460	c.1741C>T	c.(1741-1743)CGC>TGC	p.R581C	C1S_uc001qsk.2_Missense_Mutation_p.R581C|C1S_uc001qsl.2_Missense_Mutation_p.R581C|C1S_uc009zfr.2_Missense_Mutation_p.R414C|C1S_uc009zfs.2_RNA	NM_201442	NP_958850	P09871	C1S_HUMAN	complement component 1, s subcomponent	581	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity			skin(1)	1					Abciximab(DB00054)|Adalimumab(DB00051)|Basiliximab(DB00074)|Cetuximab(DB00002)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Rituximab(DB00073)|Trastuzumab(DB00072)	TCGTGCTGTTCGCCTCAAGGC	0.527													25	67					0	0	0.021523	0	0		T	7177629	T	T	7177629	3	4	150	1	0	0	0	0	1	0	0	0	1977	884	31	1	1783	1	C1S	12	7177629	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	476991	7177629	126674266	68	77119											
SLC4A8	9498	broad.mit.edu	37	chr12	51853873	51853873	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcttctctcaggcctaacaGaagtgccaatcccaacaagg	12	9	7	13	0	3	1	1	0	2	1	5	1	4	1	3	2	3	0	3	2	5	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr12:51853873G>C	uc001rys.1	+	8	1172	c.994G>C	c.(994-996)GAA>CAA	p.E332Q	SLC4A8_uc010sni.1_Missense_Mutation_p.E279Q|SLC4A8_uc001rym.2_Missense_Mutation_p.E279Q|SLC4A8_uc001ryn.2_Missense_Mutation_p.E279Q|SLC4A8_uc001ryo.2_Missense_Mutation_p.E279Q|SLC4A8_uc001ryp.1_Missense_Mutation_p.E279Q|SLC4A8_uc010snj.1_Missense_Mutation_p.E359Q|SLC4A8_uc001ryq.3_Missense_Mutation_p.E332Q|SLC4A8_uc001ryr.2_Missense_Mutation_p.E332Q|SLC4A8_uc010snk.1_Missense_Mutation_p.E279Q	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	332	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		AGGCCTAACAGAAGTGCCAAT	0.443													5	294					0	0	0.014758	0	0		C	51853873	C	C	51853873	3	2	150	1	0	0	0	0	1	0	0	0	14684	943	33	5	1024	5	SLC4A8	12	51853873	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	44676244	51853873	81998022	69	77120											
IGF1	3479	broad.mit.edu	37	chr12	102811758	102811758	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctctgagacttcgtgttCttgttggtagatgggggctg	4	16	14	7	1	2	2	0	1	2	2	4	3	2	2	0	3	0	4	0	3	1	6			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr12:102811758C>A	uc001tjp.3	-	4	645	c.426G>T	c.(424-426)AAG>AAT	p.K142N	IGF1_uc001tjn.2_Intron|IGF1_uc001tjm.2_Missense_Mutation_p.K142N|IGF1_uc001tjo.2_Intron	NM_001111285	NP_001104755	P05019	IGF1_HUMAN	insulin-like growth factor 1 isoform 3	142					anti-apoptosis|bone mineralization involved in bone maturation|cellular component movement|DNA replication|glycolate metabolic process|muscle hypertrophy|myoblast differentiation|myoblast proliferation|myotube cell development|negative regulation of smooth muscle cell apoptosis|phosphatidylinositol-mediated signaling|platelet activation|platelet degranulation|positive regulation of activated T cell proliferation|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis|positive regulation of osteoblast differentiation|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of Ras protein signal transduction|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tyrosine phosphorylation of Stat5 protein|Ras protein signal transduction|regulation of multicellular organism growth|satellite cell maintenance involved in skeletal muscle regeneration	platelet alpha granule lumen	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|integrin binding			central_nervous_system(1)|pancreas(1)	2						ACTTCGTGTTCTTGTTGGTAG	0.468													7	329					2.0095e-06	2.16173e-06	0.001984	1	0		A	102811758	A	A	102811758	3	1	150	1	0	0	0	0	1	0	0	0	7586	912	32	5	229	5	IGF1	12	102811758	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	50957885	102811758	31040137	70	77121											
C12orf42	374470	broad.mit.edu	37	chr12	103696020	103696020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaaatgggtggaagcacCggccagcagaggaaggggcg	11	2	21	7	2	0	1	0	0	0	1	0	4	0	4	2	8	2	2	2	8	3	0			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr12:103696020C>T	uc001tjt.2	-	6	1037	c.949G>A	c.(949-951)GGT>AGT	p.G317S	C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Missense_Mutation_p.G317S|C12orf42_uc001tju.2_Missense_Mutation_p.G222S	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	317										ovary(1)|central_nervous_system(1)	2						GTGGAAGCACCGGCCAGCAGA	0.622													21	43					0	0	0.014323	0	0		T	103696020	T	T	103696020	3	4	150	1	0	0	0	0	1	0	0	0	1691	652	23	1	137	1	C12orf42	12	103696020	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	884262	103696020	30155875	71	77122											
MYO1H	283446	broad.mit.edu	37	chr12	109826643	109826643	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagcgtttcagcgagaacctCatatacgtaacgtgacccac	13	8	8	12	4	2	2	2	1	0	1	2	3	2	2	2	0	5	2	2	0	5	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr12:109826643C>G	uc010sxn.1	+	1	120	c.120C>G	c.(118-120)CTC>CTG	p.L40L		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						myosin complex	motor activity				0						GCGAGAACCTCATATACGTAA	0.493													8	430					0	0	0.006214	0	0		G	109826643	G	G	109826643	2	3	150	1	0	0	0	0	0	0	0	1	10093	813	29	5		5	MYO1H	12	109826643	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	6130623	109826643	24025252	72	77123											
BRCA2	675	broad.mit.edu	37	chr13	32912230	32912230	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtttagtgatattgagaaTattagtgaggaaacttctgc	12	15	10	4	0	1	3	0	3	1	1	1	5	1	4	0	1	2	1	0	1	6	7			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr13:32912230T>C	uc001uub.1	+	11	3965	c.3738T>C	c.(3736-3738)AAT>AAC	p.N1246N		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1246	BRCA2 2.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		ATATTGAGAATATTAGTGAGG	0.343			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			30	57					0	0	0.009535	0	0		C	32912230	C	C	32912230	2	2	150	1	0	0	0	0	0	0	0	1	1502	1403	49	3		3	BRCA2	13	32912230	Silent	SNP	T	TCGA-CG-5720-01A-11D-1600-08		32912230	82257648	73	77124											
FOXO1	2308	broad.mit.edu	37	chr13	41134410	41134410	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtgtttggtggcgcaaaCgagtagcacggcgtctgctg	6	10	16	9	4	1	0	0	0	1	0	1	1	1	0	0	4	3	5	0	4	2	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr13:41134410C>T	uc001uxl.3	-	2	1603	c.1218G>A	c.(1216-1218)TCG>TCA	p.S406S	FOXO1_uc010acc.1_Silent_p.S221S	NM_002015	NP_002006	Q12778	FOXO1_HUMAN	forkhead box O1	406					anti-apoptosis|blood vessel development|embryo development|endocrine pancreas development|insulin receptor signaling pathway|negative regulation of stress-activated MAPK cascade|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|response to DNA damage stimulus|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding		PAX3/FOXO1(749)|PAX7/FOXO1(197)	soft_tissue(946)|lung(1)|central_nervous_system(1)	948		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)		GTGGCGCAAACGAGTAGCACG	0.478													68	149					0	0	0.01441	0	0		T	41134410	T	T	41134410	2	4	150	1	0	0	0	0	0	0	0	1	6037	523	19	1		1	FOXO1	13	41134410	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	8222180	41134410	74035468	74	77125											
NFATC4	4776	broad.mit.edu	37	chr14	24841805	24841805	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggcggtcaccccgtagTcaaggtaaaggacagacagc	11	5	12	13	2	2	1	2	0	0	1	2	2	2	2	3	4	1	2	3	4	4	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr14:24841805T>C	uc001wpc.2	+	3	1676	c.1355T>C	c.(1354-1356)GTC>GCC	p.V452A	NFATC4_uc010tok.1_Missense_Mutation_p.V515A|NFATC4_uc010tol.1_Missense_Mutation_p.V515A|NFATC4_uc010alr.2_Missense_Mutation_p.V515A|NFATC4_uc010als.2_Missense_Mutation_p.V465A|NFATC4_uc010tom.1_Missense_Mutation_p.V465A|NFATC4_uc010ton.1_Missense_Mutation_p.V465A|NFATC4_uc010too.1_Missense_Mutation_p.V465A|NFATC4_uc010alt.2_Missense_Mutation_p.V484A|NFATC4_uc010top.1_Missense_Mutation_p.V484A|NFATC4_uc010toq.1_Missense_Mutation_p.V484A|NFATC4_uc010alu.2_Missense_Mutation_p.V144A|NFATC4_uc010tor.1_Missense_Mutation_p.V452A|NFATC4_uc010tos.1_Missense_Mutation_p.V382A|NFATC4_uc010tot.1_Missense_Mutation_p.V440A|NFATC4_uc010tou.1_Missense_Mutation_p.V382A|NFATC4_uc010tov.1_Missense_Mutation_p.V440A|NFATC4_uc010tow.1_Missense_Mutation_p.V382A|NFATC4_uc010alv.2_Missense_Mutation_p.V440A|NFATC4_uc010tox.1_Missense_Mutation_p.V382A|NFATC4_uc001wpd.2_5'Flank|NFATC4_uc010toy.1_5'Flank|NFATC4_uc010toz.1_5'Flank|NFATC4_uc010tpa.1_5'Flank|NFATC4_uc010tpb.1_5'Flank	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	452	RHD.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		CACCCCGTAGTCAAGGTAAAG	0.587													8	37					0	0	0.020292	0	0		C	24841805	C	C	24841805	3	2	150	1	0	0	0	0	1	0	0	0	10384	1667	58	3	1558	3	NFATC4	14	24841805	Missense_Mutation	SNP	T	TCGA-CG-5720-01A-11D-1600-08		24841805	82507735	75	77126											
FBXO34	55030	broad.mit.edu	37	chr14	55818091	55818091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggctgatgaaggcaaaaCaaagaaaggcgtcttggagg	15	6	14	6	1	2	3	1	2	1	1	2	4	2	4	0	5	1	2	0	5	5	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr14:55818091C>T	uc001xbu.2	+	2	1228	c.983C>T	c.(982-984)ACA>ATA	p.T328I	FBXO34_uc001xbv.2_RNA|FBXO34_uc010aoo.2_Missense_Mutation_p.T328I	NM_017943	NP_060413	Q9NWN3	FBX34_HUMAN	F-box only protein 34	328										ovary(2)|lung(2)|skin(1)	5						GAAGGCAAAACAAAGAAAGGC	0.517													60	100					0	0	0.01441	0	0		T	55818091	T	T	55818091	3	4	150	1	0	0	0	0	1	0	0	0	5758	478	17	4	985	4	FBXO34	14	55818091	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	30976286	55818091	51531449	76	77127											
ADAM21	8747	broad.mit.edu	37	chr14	70924424	70924424	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtctgcggtttgggggcCagaaacacgttgttcatatg	9	12	13	7	2	2	1	1	0	1	1	2	1	2	1	1	3	2	3	1	3	3	5			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr14:70924424C>G	uc001xmd.2	+	1	208	c.208C>G	c.(208-210)CAG>GAG	p.Q70E		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	70					proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		GTTTGGGGGCCAGAAACACGT	0.527													62	240					0	0	0.01441	0	0		G	70924424	G	G	70924424	3	3	150	1	0	0	0	0	1	0	0	0	243	595	21	5	210	5	ADAM21	14	70924424	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	15106333	70924424	36425116	77	77128											
APBA2	321	broad.mit.edu	37	chr15	29398846	29398846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagggcgagatcctgggcGtggtggtggtggagtcgggc	6	7	21	7	3	0	1	0	0	0	1	2	3	1	2	1	7	0	0	1	7	1	0			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr15:29398846G>A	uc001zck.2	+	11	1948	c.1741G>A	c.(1741-1743)GTG>ATG	p.V581M	APBA2_uc010azj.2_Missense_Mutation_p.V569M|APBA2_uc010uat.1_Missense_Mutation_p.V569M|APBA2_uc001zcl.2_Missense_Mutation_p.V569M	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	581	PDZ 1.				nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		GATCCTGGGCGTGGTGGTGGT	0.662													15	32					0	0	0.00499	0	0		A	29398846	A	A	29398846	3	1	150	1	0	0	0	0	1	0	0	0	757	1145	40	1	1775	1	APBA2	15	29398846	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08		29398846	73132546	78	77129											
RYR3	6263	broad.mit.edu	37	chr15	33855070	33855070	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattagactccagtcacaaGcgagacatagaaggcatggg	16	6	11	8	1	1	3	1	0	0	3	2	4	2	3	1	2	1	1	1	2	5	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr15:33855070G>T	uc001zhi.2	+	11	1075	c.1005G>T	c.(1003-1005)AAG>AAT	p.K335N	RYR3_uc010bar.2_Missense_Mutation_p.K335N	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	335	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CCAGTCACAAGCGAGACATAG	0.403													9	61					0.00621372	0.00644049	0.006214	1	0		T	33855070	T	T	33855070	3	4	150	1	0	0	0	0	1	0	0	0	13795	962	34	5	1047	5	RYR3	15	33855070	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	4456224	33855070	68676322	79	77130											
PRTG	283659	broad.mit.edu	37	chr15	56032705	56032705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctcactgatgtataaagagCcgttagaaagaacctcgatc	14	9	8	10	2	1	4	1	1	0	3	3	5	1	4	3	0	2	2	3	0	6	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr15:56032705C>T	uc002adg.2	-	2	320	c.272G>A	c.(271-273)GGC>GAC	p.G91D		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	91	Ig-like 1.				multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		GTATAAAGAGCCGTTAGAAAG	0.428													15	383					0	0	0.020292	0	0		T	56032705	T	T	56032705	3	4	150	1	0	0	0	0	1	0	0	0	12660	739	26	2	3256	2	PRTG	15	56032705	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	22177635	56032705	46498687	80	77131											
IGDCC4	57722	broad.mit.edu	37	chr15	65693267	65693267	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaccacgtcctgcccccTggtggacgccagggaccctg	7	6	12	16	2	0	1	0	1	0	0	1	3	1	3	6	3	1	0	6	3	1	0			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr15:65693267T>A	uc002aou.1	-	5	928	c.718A>T	c.(718-720)AGG>TGG	p.R240W		NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	240	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						TCCTGCCCCCTGGTGGACGCC	0.463											OREG0023196	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	73					0	0	0.021022	0	0		A	65693267	A	A	65693267	3	1	150	1	0	0	0	0	1	0	0	0	7585	1579	55	5	3098	5	IGDCC4	15	65693267	Missense_Mutation	SNP	T	TCGA-CG-5720-01A-11D-1600-08	9660562	65693267	36838125	81	77132											
SPESP1	246777	broad.mit.edu	37	chr15	69238039	69238039	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggagccaggtcgtgagAaaaaatctaactctccaaaa	15	7	10	9	1	2	1	0	1	2	1	4	3	2	2	2	3	2	0	2	3	6	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr15:69238039A>G	uc002arn.1	+	2	294	c.166A>G	c.(166-168)AAA>GAA	p.K56E	NOX5_uc002arp.1_Intron|NOX5_uc002arq.1_Intron|NOX5_uc010bid.1_Intron|NOX5_uc002aro.2_Intron	NM_145658	NP_663633	Q6UW49	SPESP_HUMAN	sperm equatorial segment protein 1 precursor	56					multicellular organismal development	acrosomal vesicle					0						AGGTCGTGAGAAAAAATCTAA	0.383													34	145					0	0	0.005524	0	0		G	69238039	G	G	69238039	3	3	150	1	0	0	0	0	1	0	0	0	15065	247	9	3	172	3	SPESP1	15	69238039	Missense_Mutation	SNP	A	TCGA-CG-5720-01A-11D-1600-08	3544772	69238039	33293353	82	77133											
EFTUD1	79631	broad.mit.edu	37	chr15	82523297	82523297	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attttttgactgtagattctGgcgaagtgctcaattctgaa	10	16	9	6	1	3	3	1	2	2	1	3	4	3	3	0	1	1	2	0	1	4	6			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr15:82523297G>A	uc002bgt.1	-	8	916	c.747C>T	c.(745-747)GCC>GCT	p.A249A	EFTUD1_uc002bgu.1_Silent_p.A198A	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	249					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						TGTAGATTCTGGCGAAGTGCT	0.244													50	134					0	0	0.01441	0	0		A	82523297	A	A	82523297	2	1	150	1	0	0	0	0	0	0	0	1	4966	1335	47	4		4	EFTUD1	15	82523297	Silent	SNP	G	TCGA-CG-5720-01A-11D-1600-08	13285258	82523297	20008095	83	77134											
FES	2242	broad.mit.edu	37	chr15	91432780	91432780	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccaccctgtgtcacgttCgatgagtcactgcttgagga	7	11	11	12	2	2	2	2	2	0	0	4	4	3	3	2	1	1	2	2	1	0	2	rs111243334		TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr15:91432780C>A	uc002bpv.2	+	7	936	c.840C>A	c.(838-840)TTC>TTA	p.F280L	FES_uc010uqj.1_Missense_Mutation_p.F222L|FES_uc010uqk.1_Missense_Mutation_p.F262L|FES_uc002bpw.2_RNA|FES_uc010bny.2_Missense_Mutation_p.F222L|FES_uc002bpx.2_Missense_Mutation_p.F280L|FES_uc002bpy.2_Missense_Mutation_p.F222L	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	280	Important for interaction with membranes containing phosphoinositides.				axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			GTGTCACGTTCGATGAGTCAC	0.662													52	170					2.41709e-19	2.76796e-19	0.01441	1	0		A	91432780	A	A	91432780	3	1	150	1	0	0	0	0	1	0	0	0	5834	883	31	5	862	5	FES	15	91432780	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	8909483	91432780	11098612	84	77135											
LONP2	83752	broad.mit.edu	37	chr16	48286217	48286217	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggagtttcccaacaccTgtaaaatgagggaggagcta	13	9	12	7	0	0	2	0	2	0	0	1	5	1	5	2	3	2	3	2	3	4	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr16:48286217T>A	uc002efi.1	+	2	498	c.409T>A	c.(409-411)TGT>AGT	p.C137S	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Missense_Mutation_p.C137S	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	137	Lon.				misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						TCCCAACACCTGTAAAATGAG	0.408													3	50					0	0	0.004672	0	0		A	48286217	A	A	48286217	3	1	150	1	0	0	0	0	1	0	0	0	8911	1580	55	5	415	5	LONP2	16	48286217	Missense_Mutation	SNP	T	TCGA-CG-5720-01A-11D-1600-08		48286217	42068536	85	77136											
SALL1	6299	broad.mit.edu	37	chr16	51173663	51173663	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccatgttttcatcagagaAgttgtctaggtcatcaaaat	12	15	7	7	0	5	1	4	0	1	1	6	2	6	1	1	1	0	2	1	1	4	5			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr16:51173663A>C	uc010vgs.1	-	2	2501	c.2470T>G	c.(2470-2472)TTC>GTC	p.F824V	SALL1_uc010vgr.1_Missense_Mutation_p.F727V|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	824					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TCATCAGAGAAGTTGTCTAGG	0.507													89	226					0	0	0.01441	0	0		C	51173663	C	C	51173663	3	2	150	1	0	0	0	0	1	0	0	0	13835	72	3	5	1512	5	SALL1	16	51173663	Missense_Mutation	SNP	A	TCGA-CG-5720-01A-11D-1600-08	2887446	51173663	39181090	86	77137											
RLTPR	146206	broad.mit.edu	37	chr16	67688711	67688711	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagcggggagaaacagaaCtggctccatcctttgaacag	12	7	13	9	1	0	3	0	1	0	2	2	5	2	4	2	4	4	1	2	4	3	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr16:67688711C>T	uc002etn.2	+	32	3733	c.3613C>T	c.(3613-3615)CTG>TTG	p.L1205L	RLTPR_uc010vjr.1_Silent_p.L1169L	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	1205										breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		AGAAACAGAACTGGCTCCATC	0.627													30	74					0	0	0.013726	0	0		T	67688711	T	T	67688711	2	4	150	1	0	0	0	0	0	0	0	1	13419	564	20	4		4	RLTPR	16	67688711	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	16515048	67688711	22666042	87	77138											
ZFHX3	463	broad.mit.edu	37	chr16	72822363	72822363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcagcggggctgagatcGtggctgcagttgccgtgggg	4	8	21	8	3	0	1	0	1	0	1	1	2	0	1	1	6	3	5	1	6	0	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr16:72822363G>A	uc002fck.2	-	10	10485	c.9812C>T	c.(9811-9813)ACG>ATG	p.T3271M	ZFHX3_uc002fcl.2_Missense_Mutation_p.T2357M	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3271					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GGCTGAGATCGTGGCTGCAGT	0.602													7	120					0	0	0.004482	0	0		A	72822363	A	A	72822363	3	1	150	1	0	0	0	0	1	0	0	0	17659	1145	40	1	1303	1	ZFHX3	16	72822363	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	5133652	72822363	17532390	88	77139											
MAP2K4	6416	broad.mit.edu	37	chr17	12043181	12043181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgaaggatgaatccaaaaggCcaaagtataaagagcttctg	17	7	10	7	1	1	2	0	1	1	1	2	4	2	3	2	2	1	2	2	2	8	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr17:12043181C>T	uc002gnj.2	+	10	1135	c.1066C>T	c.(1066-1068)CCA>TCA	p.P356S	MAP2K4_uc002gnk.2_Missense_Mutation_p.P367S|MAP2K4_uc010vvi.1_Missense_Mutation_p.P238S|MAP2K4_uc010vvj.1_Missense_Mutation_p.P228S	NM_003010	NP_003001	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4	356	Protein kinase.			P -> L (in Ref. 10; AAH60764).	cellular response to mechanical stimulus|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|JUN kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.?(2)		large_intestine(14)|breast(12)|lung(8)|ovary(8)|pancreas(8)|stomach(2)|central_nervous_system(1)|biliary_tract(1)|testis(1)|endometrium(1)|urinary_tract(1)|skin(1)	58		all_cancers(5;0.0413)|Breast(5;0.000625)|all_epithelial(5;0.00978)|all_lung(20;0.0449)|Lung NSC(33;0.163)		Epithelial(2;4.12e-09)|all cancers(2;6.86e-07)|BRCA - Breast invasive adenocarcinoma(2;8.74e-07)|Colorectal(4;5.32e-05)|COAD - Colon adenocarcinoma(4;0.0039)|READ - Rectum adenocarcinoma(10;0.0681)		ATCCAAAAGGCCAAAGTATAA	0.368			D|Mis|N		pancreatic|breast|colorectal								62	179					0	0	0.01441	0	0		T	12043181	T	T	12043181	3	4	150	1	0	0	0	0	1	0	0	0	9257	739	26	2	1104	2	MAP2K4	17	12043181	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08		12043181	69152029	89	77140											
RNF43	54894	broad.mit.edu	37	chr17	56435766	56435766	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggctggcccatctgccagGtacccactgcgttctgtgca	5	10	11	15	1	2	0	0	0	2	0	2	0	2	0	3	3	4	4	3	3	1	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr17:56435766G>T	uc002iwf.2	-	8	3327	c.1371C>A	c.(1369-1371)TAC>TAA	p.Y457*	RNF43_uc010wnv.1_Nonsense_Mutation_p.Y416*|RNF43_uc002iwh.3_Nonsense_Mutation_p.Y457*|RNF43_uc002iwg.3_Nonsense_Mutation_p.Y457*|RNF43_uc010dcw.2_Nonsense_Mutation_p.Y330*	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	457	Cytoplasmic (Potential).|Ser-rich.					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CATCTGCCAGGTACCCACTGC	0.627													26	47					1.17739e-12	1.30617e-12	0.005443	1	0		T	56435766	T	T	56435766	4	4	150	1	0	0	0	0	0	1	0	0	13520	1256	44	5	988	5	RNF43	17	56435766	Nonsense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	44392585	56435766	24759444	90	77141											
MTMR4	9110	broad.mit.edu	37	chr17	56569162	56569162	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgatcaggaatgggcagcttCaggtggcagcatccagcaca	11	7	13	10	0	2	1	2	1	0	0	3	2	3	2	1	4	3	5	1	4	1	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr17:56569162C>T	uc002iwj.2	-	19	3560	c.3450G>A	c.(3448-3450)CTG>CTA	p.L1150L		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	1150	FYVE-type.					cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGGGCAGCTTCAGGTGGCAGC	0.428													27	56					0	0	0.004656	0	0		T	56569162	T	T	56569162	2	4	150	1	0	0	0	0	0	0	0	1	9964	813	29	4		4	MTMR4	17	56569162	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	133396	56569162	24626048	91	77142											
BPTF	2186	broad.mit.edu	37	chr17	65899995	65899995	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaagaaacgatgcagcaAgcgacatgggtaaaatacac	19	4	11	7	2	0	2	0	0	0	2	0	5	0	2	0	1	5	3	0	1	7	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr17:65899995A>G	uc002jgf.2	+	8	2695	c.2634A>G	c.(2632-2634)CAA>CAG	p.Q878Q	BPTF_uc002jge.2_Silent_p.Q1004Q|BPTF_uc010wqm.1_Silent_p.Q941Q	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1004	Potential.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			cgaTGCAGCAAGCGACATGGG	0.249													31	56					0	0	0.009535	0	0		G	65899995	G	G	65899995	2	3	150	1	0	0	0	0	0	0	0	1	1498	69	3	3		3	BPTF	17	65899995	Silent	SNP	A	TCGA-CG-5720-01A-11D-1600-08	9330833	65899995	15295215	92	77143											
METTL4	64863	broad.mit.edu	37	chr18	2544689	2544689	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttcttgaaccctccccaGtataagaccttcgtagggct	8	14	7	12	1	1	2	0	1	1	1	3	2	2	2	4	1	1	3	4	1	4	7			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr18:2544689G>A	uc002klh.3	-	7	1924	c.1144C>T	c.(1144-1146)CTG>TTG	p.L382L	METTL4_uc010dkj.2_Intron	NM_022840	NP_073751	Q8N3J2	METL4_HUMAN	methyltransferase like 4	382					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		methyltransferase activity|nucleic acid binding			kidney(1)|skin(1)	2						ACCCTCCCCAGTATAAGACCT	0.358													62	110					0	0	0.01441	0	0		A	2544689	A	A	2544689	2	1	150	1	0	0	0	0	0	0	0	1	9520	1020	36	4		4	METTL4	18	2544689	Silent	SNP	G	TCGA-CG-5720-01A-11D-1600-08		2544689	75532559	93	77144											
ASXL3	80816	broad.mit.edu	37	chr18	31263444	31263444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttgtcaacactaacttgaGggcattaataaataaacata	17	12	5	7	0	2	1	1	1	1	0	2	1	2	1	0	1	3	1	0	1	8	7			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr18:31263444G>A	uc010dmg.1	+	8	846	c.791G>A	c.(790-792)AGG>AAG	p.R264K	ASXL3_uc002kxq.2_5'UTR	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	264					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						ACTAACTTGAGGGCATTAATA	0.423													16	42					0	0	0.004007	0	0		A	31263444	A	A	31263444	3	1	150	1	0	0	0	0	1	0	0	0	1069	1000	35	4	821	4	ASXL3	18	31263444	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	28718755	31263444	46813804	94	77145											
TCEB3C	162699	broad.mit.edu	37	chr18	44555152	44555152	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtaggggaccccttccacGtcgccgagggcgtccggatt	6	7	15	13	5	0	0	0	0	0	0	3	4	2	2	5	4	0	1	5	4	1	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr18:44555152G>A	uc010xdb.1	-	1	1298	c.1062C>T	c.(1060-1062)GAC>GAT	p.D354D	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	354	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						CCCCTTCCACGTCGCCGAGGG	0.657													11	571					0	0	0.003163	0	0		A	44555152	A	A	44555152	2	1	150	1	0	0	0	0	0	0	0	1	15708	1136	40	1		1	TCEB3C	18	44555152	Silent	SNP	G	TCGA-CG-5720-01A-11D-1600-08	13291708	44555152	33522096	95	77146											
CCDC94	55702	broad.mit.edu	37	chr19	4249236	4249236	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctgcagaaatactacccGccggactttgacccatcaaa	12	7	6	16	2	1	2	1	1	0	1	1	3	1	3	5	1	3	1	5	1	4	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr19:4249236G>A	uc002lzv.3	+	2	69	c.36G>A	c.(34-36)CCG>CCA	p.P12P		NM_018074	NP_060544	Q9BW85	CCD94_HUMAN	coiled-coil domain containing 94	12											0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0348)|STAD - Stomach adenocarcinoma(1328;0.183)		AATACTACCCGCCGGACTTTG	0.567													16	26					0	0	0.00499	0	0		A	4249236	A	A	4249236	2	1	150	1	0	0	0	0	0	0	0	1	2876	1074	38	1		1	CCDC94	19	4249236	Silent	SNP	G	TCGA-CG-5720-01A-11D-1600-08		4249236	54879747	96	77147											
MAN2B1	4125	broad.mit.edu	37	chr19	12767489	12767489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgccccaggggattataaaCgatgacctggaactggggag	11	6	14	10	2	0	1	0	1	0	0	0	5	0	4	4	5	2	0	4	5	4	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr19:12767489C>T	uc002mub.2	-	13	1616	c.1540G>A	c.(1540-1542)GTT>ATT	p.V514I	MAN2B1_uc010dyv.1_Missense_Mutation_p.V513I	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	514					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						GGATTATAAACGATGACCTGG	0.597													41	92					0	0	0.010771	0	0		T	12767489	T	T	12767489	3	4	150	1	0	0	0	0	1	0	0	0	9234	536	19	1	1543	1	MAN2B1	19	12767489	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	8518253	12767489	46361494	97	77148											
MAST1	22983	broad.mit.edu	37	chr19	12969456	12969456	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggcctttgtggagcgCgatatcctcaccttcgccga	7	9	11	14	4	1	0	1	0	0	0	3	3	2	1	4	2	2	1	4	2	1	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr19:12969456C>T	uc002mvm.2	+	12	1397	c.1269C>T	c.(1267-1269)CGC>CGT	p.R423R	MAST1_uc002mvk.2_Silent_p.R419R	NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	423	Protein kinase.				cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						TTGTGGAGCGCGATATCCTCA	0.567													18	48					0	0	0.006122	0	0		T	12969456	T	T	12969456	2	4	150	1	0	0	0	0	0	0	0	1	9342	755	27	1		1	MAST1	19	12969456	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	201967	12969456	46159527	98	77149											
TMEM59L	25789	broad.mit.edu	37	chr19	18727858	18727858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaggggggccgtctgcagCgcgtggaggtgacctggcga	5	6	19	11	4	1	1	0	1	1	0	2	3	2	2	3	6	2	1	3	6	0	0	rs150479603	byFrequency	TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr19:18727858C>T	uc002njy.3	+	5	697	c.610C>T	c.(610-612)CGC>TGC	p.R204C	TMEM59L_uc010ebu.1_Missense_Mutation_p.R204C	NM_012109	NP_036241	Q9UK28	TM59L_HUMAN	brain-specific membrane-anchored protein	204						Golgi membrane|integral to membrane|membrane fraction				ovary(2)|skin(2)	4						CCGTCTGCAGCGCGTGGAGGT	0.637													43	58					0	0	0.007835	0	0		T	18727858	T	T	18727858	3	4	150	1	0	0	0	0	1	0	0	0	16211	768	27	1	628	1	TMEM59L	19	18727858	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	5758402	18727858	40401125	99	77150											
MLL4	9757	broad.mit.edu	37	chr19	36215974	36215974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatggtgtgcaccgcgtcCgtgtggattttaaggtatgg	6	12	15	8	4	0	0	0	0	0	0	1	2	1	1	3	4	1	2	3	4	2	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr19:36215974C>T	uc010eei.2	+	11	3514	c.3514C>T	c.(3514-3516)CGT>TGT	p.R1172C		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1172					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GCACCGCGTCCGTGTGGATTT	0.567													19	48					0	0	0.012319	0	0		T	36215974	T	T	36215974	3	4	150	1	0	0	0	0	1	0	0	0	9641	652	23	1	3552	1	MLL4	19	36215974	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	17488116	36215974	22913009	100	77151											
MLL4	9757	broad.mit.edu	37	chr19	36216527	36216527	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaaaggtcgtggatccaagGtttgggcccaagggctggcc	8	7	16	10	1	0	0	0	0	0	0	2	1	1	1	3	6	0	3	3	6	3	1			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr19:36216527G>A	uc010eei.2	+	13	3789	c.3789_splice	c.e13+1	p.K1263_splice		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4						chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGGATCCAAGGTTTGGGCCCA	0.642													44	63					0	0	0.007835	0	0		A	36216527	A	A	36216527	5	1	150	1	0	0	0	0	0	0	1	0	9641	1275	44	4	3836	4	MLL4	19	36216527	Splice_Site	SNP	G	TCGA-CG-5720-01A-11D-1600-08	553	36216527	22912456	101	77152											
ZNF345	25850	broad.mit.edu	37	chr19	37369088	37369088	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaattcatacaggtgagaaActttatgaatgtaagaactg	17	11	9	4	0	1	4	1	2	0	3	1	5	1	4	0	1	3	1	0	1	7	5			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr19:37369088A>C	uc002oex.2	+	3	1734	c.1356A>C	c.(1354-1356)AAA>AAC	p.K452N	ZNF345_uc002oey.3_Missense_Mutation_p.K452N|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	452					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CAGGTGAGAAACTTTATGAAT	0.403													5	197					0	0	0.014758	0	0		C	37369088	C	C	37369088	3	2	150	1	0	0	0	0	1	0	0	0	17884	40	2	5	1358	5	ZNF345	19	37369088	Missense_Mutation	SNP	A	TCGA-CG-5720-01A-11D-1600-08	1152561	37369088	21759895	102	77153											
SUPT5H	6829	broad.mit.edu	37	chr19	39965244	39965244	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccacacacgccaggctcAggcatcgagcagaactccag	13	3	9	16	2	1	1	1	0	0	1	3	2	2	1	3	2	3	3	3	2	2	0			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr19:39965244A>G	uc002olo.3	+	28	3089	c.2910A>G	c.(2908-2910)TCA>TCG	p.S970S	SUPT5H_uc002olp.3_Silent_p.S970S|SUPT5H_uc002olq.3_Silent_p.S966S|SUPT5H_uc002oln.3_Silent_p.S970S|SUPT5H_uc002olr.3_Silent_p.S970S|SUPT5H_uc002ols.1_Silent_p.S593S	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	970					cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			CGCCAGGCTCAGGCATCGAGC	0.612											OREG0025462	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	56					0	0	0.004672	0	0		G	39965244	G	G	39965244	2	3	150	1	0	0	0	0	0	0	0	1	15424	175	7	3		3	SUPT5H	19	39965244	Silent	SNP	A	TCGA-CG-5720-01A-11D-1600-08	2596156	39965244	19163739	103	77154											
CEACAM4	1089	broad.mit.edu	37	chr19	42128059	42128059	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agaagcagaaaacacaccagGgcggccaccagagccacccc	15	0	10	16	1	0	3	0	0	0	3	0	3	0	3	6	2	3	1	6	2	3	0			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr19:42128059G>A	uc002orh.1	-	3	618	c.507C>T	c.(505-507)GCC>GCT	p.A169A	CEACAM4_uc010xwd.1_Silent_p.A169A	NM_001817	NP_001808	O75871	CEAM4_HUMAN	carcinoembryonic antigen-related cell adhesion	169	Helical; (Potential).					integral to plasma membrane|membrane fraction					0						AACACACCAGGGCGGCCACCA	0.637													12	36					0	0	0.013537	0	0		A	42128059	A	A	42128059	2	1	150	1	0	0	0	0	0	0	0	1	3197	1219	43	4		4	CEACAM4	19	42128059	Silent	SNP	G	TCGA-CG-5720-01A-11D-1600-08	2162815	42128059	17000924	104	77155											
VRK3	51231	broad.mit.edu	37	chr19	50519372	50519372	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccacagtaggggcagaatttGaatgccgcttggatactttt	10	12	11	8	1	0	2	0	1	0	1	0	3	0	3	2	3	2	3	2	3	4	6			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr19:50519372G>C	uc002prg.2	-	3	146	c.48C>G	c.(46-48)TTC>TTG	p.F16L	VRK3_uc002prh.1_Missense_Mutation_p.F16L|VRK3_uc002pri.1_Missense_Mutation_p.F16L|VRK3_uc010ens.2_Missense_Mutation_p.F16L|VRK3_uc010ybl.1_Missense_Mutation_p.F16L|VRK3_uc010ybm.1_5'UTR|VRK3_uc002prj.1_Missense_Mutation_p.F16L|VRK3_uc002prk.1_Missense_Mutation_p.F16L|VRK3_uc010ent.1_5'UTR|VRK3_uc002prl.2_Missense_Mutation_p.F16L|VRK3_uc010ybn.1_Missense_Mutation_p.F16L	NM_016440	NP_057524	Q8IV63	VRK3_HUMAN	vaccinia related kinase 3 isoform 1	16						nucleus	ATP binding|protein kinase activity			stomach(1)|skin(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00166)|OV - Ovarian serous cystadenocarcinoma(262;0.00652)		GGCAGAATTTGAATGCCGCTT	0.468													9	177					0	0	0.004482	0	0		C	50519372	C	C	50519372	3	2	150	1	0	0	0	0	1	0	0	0	17247	1281	45	5	1424	5	VRK3	19	50519372	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	8391313	50519372	8609611	105	77156											
KLK8	11202	broad.mit.edu	37	chr19	51503769	51503769	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccctggaacaaggccgcCtgccaaggctgcgaatgggg	8	5	16	12	2	0	0	0	0	0	0	0	2	0	1	4	6	3	1	4	6	4	0			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr19:51503769C>T	uc002pur.1	-	3	320	c.141G>A	c.(139-141)CAG>CAA	p.Q47Q	KLK9_uc002puw.1_RNA|KLK8_uc002puq.1_Silent_p.Q92Q|KLK8_uc002pus.1_Intron|KLK8_uc002put.1_Intron|KLK8_uc002puu.1_Silent_p.Q47Q|KLK9_uc002puv.1_Intron	NM_007196	NP_009127	O60259	KLK8_HUMAN	kallikrein 8 isoform 1 preproprotein	47	Peptidase S1.				cell death|keratinocyte proliferation|memory|negative regulation of axon regeneration|negative regulation of myelination|neuron projection morphogenesis|proteolysis|regulation of synapse organization|response to wounding	cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(1)	1		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.0033)|GBM - Glioblastoma multiforme(134;0.00888)		ACAAGGCCGCCTGCCAAGGCT	0.607													34	58					0	0	0.005524	0	0		T	51503769	T	T	51503769	2	4	150	1	0	0	0	0	0	0	0	1	8426	680	24	4		4	KLK8	19	51503769	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08	984397	51503769	7625214	106	77157											
ZNF584	201514	broad.mit.edu	37	chr19	58928997	58928997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccagatcctaccgcaatcGgcaccagcagttccacactg	11	7	7	16	2	0	1	0	0	0	1	3	1	2	1	5	1	3	4	5	1	3	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr19:58928997G>A	uc002qsp.2	+	4	1564	c.1112G>A	c.(1111-1113)CGG>CAG	p.R371Q	ZNF584_uc010yia.1_RNA|ZNF584_uc002qsr.2_Missense_Mutation_p.R326Q|ZNF584_uc010yib.1_3'UTR	NM_173548	NP_775819	Q8IVC4	ZN584_HUMAN	zinc finger protein 584	371	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;5.3e-17)|all_epithelial(17;3.71e-12)|Lung NSC(17;8.3e-05)|Colorectal(82;0.000147)|all_lung(17;0.000386)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0271)		TACCGCAATCGGCACCAGCAG	0.507													8	78					0	0	0.00308	0	0		A	58928997	A	A	58928997	3	1	150	1	0	0	0	0	1	0	0	0	18041	1116	39	1	1126	1	ZNF584	19	58928997	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08	7425228	58928997	199986	107	77158											
ASXL1	171023	broad.mit.edu	37	chr20	31022999	31022999	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acattagagaaaggaactggCcaagctcttgacagtcatcc	14	8	9	10	0	2	2	1	1	1	1	3	4	3	3	2	2	2	1	2	2	4	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr20:31022999C>T	uc002wxs.2	+	12	2910	c.2484C>T	c.(2482-2484)GGC>GGT	p.G828G	ASXL1_uc010geb.2_Silent_p.G719G	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	828					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						AAGGAACTGGCCAAGCTCTTG	0.502			F|N|Mis		MDS|CMML								80	200					0	0	0.01441	0	0		T	31022999	T	T	31022999	2	4	150	1	0	0	0	0	0	0	0	1	1067	726	26	2		2	ASXL1	20	31022999	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08		31022999	32002521	108	77159											
RBL1	5933	broad.mit.edu	37	chr20	35672579	35672579	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctaaactctccaaaatctgTtcttcaatgctgtttaggtg	10	15	7	9	0	4	0	1	0	3	0	5	0	4	0	1	1	2	4	1	1	6	5			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr20:35672579T>C	uc002xgi.2	-	13	1759	c.1680A>G	c.(1678-1680)GAA>GAG	p.E560E	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Silent_p.E560E	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	560	Domain A.|Pocket; binds T and E1A.				cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				CCAAAATCTGTTCTTCAATGC	0.483													6	114					0	0	0.001168	0	0		C	35672579	C	C	35672579	2	2	150	1	0	0	0	0	0	0	0	1	13134	1722	60	3		3	RBL1	20	35672579	Silent	SNP	T	TCGA-CG-5720-01A-11D-1600-08	4649580	35672579	27352941	109	77160											
UMODL1	89766	broad.mit.edu	37	chr21	43539418	43539418	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggaggtgatcagaggCgacaccttcatacagggtac	10	8	13	10	1	2	2	2	1	0	1	2	4	2	3	1	4	3	2	1	4	2	3			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chr21:43539418C>T	uc002zaf.1	+	15	2673	c.2673C>T	c.(2671-2673)GGC>GGT	p.G891G	UMODL1_uc002zad.1_Silent_p.G819G|UMODL1_uc002zae.1_Silent_p.G947G|UMODL1_uc002zag.1_Silent_p.G1019G|UMODL1_uc002zal.1_5'Flank	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	891	Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						TGATCAGAGGCGACACCTTCA	0.567													13	280					0	0	0.016723	0	0		T	43539418	T	T	43539418	2	4	150	1	0	0	0	0	0	0	0	1	17006	755	27	1		1	UMODL1	21	43539418	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08		43539418	4590477	110	77161											
RBBP7	5931	broad.mit.edu	37	chrX	16876898	16876898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggcatgtaacgagcacGgtttacttctccttcgtgat	7	13	10	11	4	1	1	0	1	1	0	3	2	1	1	1	2	4	4	1	2	2	5			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chrX:16876898G>A	uc004cxt.2	-	4	740	c.382C>T	c.(382-384)CGT>TGT	p.R128C	RBBP7_uc004cxs.1_Missense_Mutation_p.R172C|RBBP7_uc004cxu.2_Missense_Mutation_p.R119C|RBBP7_uc010nez.2_5'UTR	NM_002893	NP_002884	Q16576	RBBP7_HUMAN	retinoblastoma binding protein 7	128	WD 2.				cell proliferation|cellular heat acclimation|CenH3-containing nucleosome assembly at centromere|DNA replication|multicellular organismal development|negative regulation of cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex|NuRD complex	protein binding			upper_aerodigestive_tract(1)|ovary(1)	2	Hepatocellular(33;0.0997)					TAACGAGCACGGTTTACTTCT	0.388													77	56					0	0	0.01441	0	0		A	16876898	A	A	16876898	3	1	150	1	0	0	0	0	1	0	0	0	13129	1116	39	1	931	1	RBBP7	23	16876898	Missense_Mutation	SNP	G	TCGA-CG-5720-01A-11D-1600-08		16876898	138393662	111	77162											
HUWE1	10075	broad.mit.edu	37	chrX	53563191	53563191	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	accttggtagaagtggtaatCttcactctccatatctgtat	10	15	7	9	0	4	1	1	0	3	1	5	1	4	1	2	2	0	3	2	2	5	6			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chrX:53563191C>G	uc004dsp.2	-	80	12850	c.12448G>C	c.(12448-12450)GAT>CAT	p.D4150H	HUWE1_uc004dsn.2_Missense_Mutation_p.D2958H	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	4150	HECT.				base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						AAGTGGTAATCTTCACTCTCC	0.448													3	67					0	0	0.009096	0	0		G	53563191	G	G	53563191	3	3	150	1	0	0	0	0	1	0	0	0	7477	913	32	5	696	5	HUWE1	23	53563191	Missense_Mutation	SNP	C	TCGA-CG-5720-01A-11D-1600-08	36686293	53563191	101707369	112	77163											
C1GALT1C1	29071	broad.mit.edu	37	chrX	119760593	119760593	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcaaacgtagtggggcgTgcaaggaagaaccagttgta	14	7	14	6	2	0	1	0	0	0	1	0	2	0	2	1	3	4	5	1	3	7	4			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chrX:119760593T>C	uc004esy.2	-	3	776	c.429A>G	c.(427-429)GCA>GCG	p.A143A	C1GALT1C1_uc004esz.2_Silent_p.A143A	NM_152692	NP_689905	Q96EU7	C1GLC_HUMAN	C1GALT1-specific chaperone 1	143	Lumenal (Potential).					integral to membrane					0						TAGTGGGGCGTGCAAGGAAGA	0.363													92	41					0	0	0.01441	0	0		C	119760593	C	C	119760593	2	2	150	1	0	0	0	0	0	0	0	1	1956	1683	59	3		3	C1GALT1C1	23	119760593	Silent	SNP	T	TCGA-CG-5720-01A-11D-1600-08	66197402	119760593	35509967	113	77164											
PCDH11Y	83259	broad.mit.edu	37	chrY	4925026	4925026	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtggtgttccactctggCgcccaggagaaaaactacac	10	8	11	12	2	1	1	0	0	1	1	2	2	2	1	2	3	3	1	2	3	3	2			TCGA-CG-5720-01A-11D-1600-08	TCGA-CG-5720-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	860f8b7e-9705-4078-8cbb-bd27012cb95f	29503ca2-3a73-47a6-ab23-d8e6c82751bd	g.chrY:4925026C>T	uc004fqo.2	+	1	896	c.162C>T	c.(160-162)GGC>GGT	p.G54G	PCDH11Y_uc010nwg.1_Silent_p.G43G|PCDH11Y_uc004fql.1_Silent_p.G43G|PCDH11Y_uc004fqm.1_Silent_p.G43G|PCDH11Y_uc004fqn.1_Silent_p.G54G	NM_032973	NP_116755	Q9BZA8	PC11Y_HUMAN	protocadherin 11 Y-linked isoform c	54	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						TCCACTCTGGCGCCCAGGAGA	0.463													47	28					0	0	0.01441	0	0		T	4925026	T	T	4925026	2	4	150	1	0	0	0	0	0	0	0	1	11528	755	27	1		1	PCDH11Y	24	4925026	Silent	SNP	C	TCGA-CG-5720-01A-11D-1600-08		4925026	54448540	114	77165											
AGRN	375790	broad.mit.edu	37	chr1	979559	979559	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagctgtgccggcagcgCggtggcatctgggacgagga	7	5	19	10	4	1	0	0	0	1	0	1	4	1	3	1	6	3	3	1	6	0	0	rs146441147		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:979559C>T	uc001ack.1	+	11	2120	c.2070C>T	c.(2068-2070)CGC>CGT	p.R690R		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	690					axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		GCCGGCAGCGCGGTGGCATCT	0.682													11	73					0	0	1	0	0		T	979559	T	T	979559	2	4	151	1	0	0	0	0	0	0	0	1	397	755	27	1		1	AGRN	1	979559	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08		979559	248271062	1	77166											
GLTPD1	80772	broad.mit.edu	37	chr1	1262961	1262961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctaccacccctgggtcgtgCgccgcgccgtcaccgtggcc	3	6	12	20	6	1	0	1	0	0	0	2	0	1	0	8	2	2	0	8	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:1262961C>T	uc001aeo.2	+	3	878	c.463C>T	c.(463-465)CGC>TGC	p.R155C	CPSF3L_uc001aee.1_5'Flank|CPSF3L_uc001aef.1_5'Flank|CPSF3L_uc009vjz.1_5'Flank|CPSF3L_uc010nyj.1_5'Flank|CPSF3L_uc001aeg.1_5'Flank|CPSF3L_uc001aeh.1_5'Flank|CPSF3L_uc001aei.1_5'Flank|CPSF3L_uc001aej.1_5'Flank|CPSF3L_uc001aek.1_5'Flank|CPSF3L_uc001aem.1_5'Flank|CPSF3L_uc001ael.1_5'Flank|CPSF3L_uc001aen.1_5'Flank	NM_001029885	NP_001025056	Q5TA50	GLTD1_HUMAN	glycolipid transfer protein domain containing 1	155						cytoplasm	glycolipid binding|glycolipid transporter activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;4.95e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CTGGGTCGTGCGCCGCGCCGT	0.721													8	15					0	0	1	0	0		T	1262961	T	T	1262961	3	4	151	1	0	0	0	0	1	0	0	0	6487	768	27	1	469	1	GLTPD1	1	1262961	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	283402	1262961	247987660	2	77167											
TAS1R3	83756	broad.mit.edu	37	chr1	1269515	1269515	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccacgctggcctttctcTgcttcctgggcactttcctg	3	14	9	15	1	1	0	0	0	1	0	4	0	3	0	4	2	2	3	4	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:1269515T>G	uc010nyk.1	+	6	2230	c.2230T>G	c.(2230-2232)TGC>GGC	p.C744G		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	744	Helical; Name=5; (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)	Aspartame(DB00168)	GGCCTTTCTCTGCTTCCTGGG	0.657													3	5					0	0	1	0	0		G	1269515	G	G	1269515	3	3	151	1	0	0	0	0	1	0	0	0	15589	1580	55	5	2252	5	TAS1R3	1	1269515	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6554	1269515	247981106	3	77168											
DVL1	1855	broad.mit.edu	37	chr1	1275137	1275137	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtctgggaaacgatctccCgcagcacccgcacggcatcg	8	5	11	17	6	2	0	0	0	2	0	4	2	2	1	3	2	2	4	3	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:1275137C>T	uc001aer.3	-	9	1012	c.965G>A	c.(964-966)CGG>CAG	p.R322Q	DVL1_uc002quu.2_Missense_Mutation_p.R39Q|DVL1_uc009vka.2_5'UTR|DVL1_uc001aeu.1_Missense_Mutation_p.G9R	NM_004421	NP_004412	O14640	DVL1_HUMAN	dishevelled 1	322	PDZ.				canonical Wnt receptor signaling pathway|dendrite morphogenesis|intracellular signal transduction|negative regulation of protein binding|negative regulation of protein kinase activity|neural tube development|neuromuscular junction development|neurotransmitter secretion|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein localization to nucleus|receptor clustering|transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, planar cell polarity pathway	cytoplasmic membrane-bounded vesicle|cytosol|plasma membrane|synapse|synaptosome	frizzled binding|identical protein binding|protein kinase binding|signal transducer activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		AACGATCTCCCGCAGCACCCG	0.642													8	28					0	0	1	0	0		T	1275137	T	T	1275137	3	4	151	1	0	0	0	0	1	0	0	0	4841	652	23	1	1075	1	DVL1	1	1275137	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5622	1275137	247975484	4	77169											
MXRA8	54587	broad.mit.edu	37	chr1	1289409	1289409	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtgtcccagcactgcctcaCctagctggatgtcctcactc	6	10	8	17	1	2	0	2	0	0	0	5	1	4	1	4	1	3	2	4	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:1289409C>T	uc001aew.2	-	8	1253	c.1222_splice	c.e8+1	p.D408_splice	MXRA8_uc001aex.3_Splice_Site_p.A408_splice|MXRA8_uc001aey.3_Splice_Site_p.D408_splice|MXRA8_uc010nyl.1_Splice_Site_p.D408_splice|MXRA8_uc001aez.2_Splice_Site_p.D307_splice|MXRA8_uc001afa.2_Splice_Site_p.D399_splice	NM_032348	NP_115724	Q9BRK3	MXRA8_HUMAN	matrix-remodelling associated 8 precursor							integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		CACTGCCTCACCTAGCTGGAT	0.642													3	46					0	0	1	0	0		T	1289409	T	T	1289409	5	4	151	1	0	0	0	0	0	0	1	0	10023	521	18	4	117	4	MXRA8	1	1289409	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	14272	1289409	247961212	5	77170											
ATAD3C	219293	broad.mit.edu	37	chr1	1389866	1389866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacggtgcttgaggcgctgCggcaccccatccaggtagcg	6	7	14	14	4	1	1	1	1	0	0	2	1	2	1	3	4	3	4	3	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:1389866C>T	uc001aft.2	+	4	1359	c.364C>T	c.(364-366)CGG>TGG	p.R122W		NM_001039211	NP_001034300	Q5T2N8	ATD3C_HUMAN	ATPase family, AAA domain containing 3C	122							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		TGAGGCGCTGCGGCACCCCAT	0.662													9	3					0	0	1	0	0		T	1389866	T	T	1389866	3	4	151	1	0	0	0	0	1	0	0	0	1076	759	27	1	378	1	ATAD3C	1	1389866	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	100457	1389866	247860755	6	77171											
CDK11B	984	broad.mit.edu	37	chr1	1575796	1575796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actctccccggaatctcggtCgaaccgtgactctggaactg	8	9	10	14	4	3	1	0	1	3	0	6	4	3	3	3	3	2	0	3	3	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:1575796C>T	uc001agv.1	-	15	1204	c.1093G>A	c.(1093-1095)GAC>AAC	p.D365N	CDK11B_uc009vkj.2_Missense_Mutation_p.D22N|CDK11B_uc001ags.1_Missense_Mutation_p.D223N|CDK11B_uc001agt.1_Missense_Mutation_p.D148N|CDK11B_uc001aha.1_Missense_Mutation_p.D331N|CDK11B_uc001agw.1_Missense_Mutation_p.D320N|CDK11B_uc001agy.1_Missense_Mutation_p.D363N|CDK11B_uc001agx.1_Missense_Mutation_p.D354N|CDK11B_uc001agz.1_Missense_Mutation_p.D109N	NM_033486	NP_277021	P21127	CD11B_HUMAN	cell division cycle 2-like 1 (PITSLRE proteins)	378	Glu-rich.				apoptosis|cell proliferation|mitosis|regulation of cell growth|regulation of mRNA processing|regulation of transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity|protein binding			skin(1)	1						GAATCTCGGTCGAACCGTGAC	0.582													5	40					0	0	1	0	0		T	1575796	T	T	1575796	3	4	151	1	0	0	0	0	1	0	0	0	3130	884	31	1	1295	1	CDK11B	1	1575796	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	185930	1575796	247674825	7	77172											
C1orf86	199990	broad.mit.edu	37	chr1	2125140	2125140	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcggcaccctccacagaCggctgctgctccaccctggg	5	5	12	19	3	0	1	0	0	0	1	2	1	2	1	5	3	2	4	5	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:2125140C>T	uc001aiy.2	-	3	434	c.408G>A	c.(406-408)CCG>CCA	p.P136P	C1orf86_uc001aiv.1_RNA|C1orf86_uc001aiw.1_RNA|C1orf86_uc001aix.1_Missense_Mutation_p.R132H	NM_182533	NP_872339	Q6NZ36	CA086_HUMAN	hypothetical protein LOC199990 isoform 2	136											0	all_cancers(77;0.000134)|all_epithelial(69;4.45e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;1.14e-19)|all_lung(118;1.22e-08)|Lung NSC(185;1.24e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;1.09e-37)|OV - Ovarian serous cystadenocarcinoma(86;1.5e-23)|GBM - Glioblastoma multiforme(42;1.61e-08)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00437)|STAD - Stomach adenocarcinoma(132;0.0134)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.199)		CCTCCACAGACGGCTGCTGCT	0.721													7	20					0	0	1	0	0		T	2125140	T	T	2125140	2	4	151	1	0	0	0	0	0	0	0	1	2066	536	19	1		1	C1orf86	1	2125140	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	549344	2125140	247125481	8	77173											
PEX10	5192	broad.mit.edu	37	chr1	2337210	2337210	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacccgggcgccggctcagcGgtagtgccgaaggtagatga	8	5	16	12	5	1	2	1	1	0	1	1	3	1	2	3	4	2	3	3	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:2337210G>A	uc001ajh.2	-	6	1045	c.976C>T	c.(976-978)CGC>TGC	p.R326C	PEX10_uc001ajg.2_Missense_Mutation_p.R346C	NM_002617	NP_002608	O60683	PEX10_HUMAN	peroxisome biogenesis factor 10 isoform 2	326					protein import into peroxisome matrix|protein import into peroxisome matrix	integral to peroxisomal membrane|peroxisomal membrane	protein binding|protein C-terminus binding|zinc ion binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(77;0.000247)|all_epithelial(69;9.96e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;5.35e-20)|all_lung(118;2.78e-08)|Lung NSC(185;2.69e-06)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;1.1e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.02e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00102)|BRCA - Breast invasive adenocarcinoma(365;0.00435)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0169)|Lung(427;0.199)		CCGGCTCAGCGGTAGTGCCGA	0.602													4	9					0	0	1	0	0		A	2337210	A	A	2337210	3	1	151	1	0	0	0	0	1	0	0	0	11755	1116	39	1	8	1	PEX10	1	2337210	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	212070	2337210	246913411	9	77174											
PRDM16	63976	broad.mit.edu	37	chr1	3342703	3342703	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaccacgcacttttagaCgagaaagaagactcttattt	15	10	7	9	2	1	4	0	0	1	4	1	6	1	4	1	0	1	1	1	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:3342703C>T	uc001akf.2	+	14	3278	c.3198C>T	c.(3196-3198)GAC>GAT	p.D1066D	PRDM16_uc001akc.2_Silent_p.D1065D|PRDM16_uc001akd.2_Silent_p.D1065D|PRDM16_uc001ake.2_Silent_p.D1066D|PRDM16_uc009vlh.2_Silent_p.D766D	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	1066	Mediates interaction with SKI and regulation of TGF-beta signaling.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		CACTTTTAGACGAGAAAGAAG	0.522			T	EVI1	MDS|AML								20	66					0	0	1	0	0		T	3342703	T	T	3342703	2	4	151	1	0	0	0	0	0	0	0	1	12479	535	19	1		1	PRDM16	1	3342703	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1005493	3342703	245907918	10	77175											
MEGF6	1953	broad.mit.edu	37	chr1	3417557	3417557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctaaagccggtccaccCgggggcacagctgcagtgtc	8	5	14	14	2	0	0	0	0	0	0	2	0	1	0	3	3	4	5	3	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:3417557C>T	uc001akl.2	-	20	2775	c.2548G>A	c.(2548-2550)GGG>AGG	p.G850R	MEGF6_uc001akk.2_Missense_Mutation_p.G745R	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	850	EGF-like 14.					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		CCGGTCCACCCGGGGGCACAG	0.647													12	39					0	0	1	0	0		T	3417557	T	T	3417557	3	4	151	1	0	0	0	0	1	0	0	0	9480	652	23	1	2149	1	MEGF6	1	3417557	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	74854	3417557	245833064	11	77176											
MEGF6	1953	broad.mit.edu	37	chr1	3425206	3425206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtccctccgttcctgcagtCatcacaggtcaagctgcagt	7	10	10	14	1	3	0	3	0	0	0	6	0	6	0	3	2	3	4	3	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:3425206C>T	uc001akl.2	-	13	1803	c.1576G>A	c.(1576-1578)GAC>AAC	p.D526N	MEGF6_uc001akk.2_Missense_Mutation_p.D421N	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	526	EGF-like 9.					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		TTCCTGCAGTCATCACAGGTC	0.627													16	55					0	0	1	0	0		T	3425206	T	T	3425206	3	4	151	1	0	0	0	0	1	0	0	0	9480	826	29	4	3149	4	MEGF6	1	3425206	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	7649	3425206	245825415	12	77177											
TPRG1L	127262	broad.mit.edu	37	chr1	3544202	3544202	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcgcagatgagaagacAgcatctctgtgtcaggtaag	11	8	14	8	1	2	3	1	1	1	3	3	4	2	3	0	2	1	4	0	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:3544202A>G	uc001akm.2	+	4	690	c.609A>G	c.(607-609)ACA>ACG	p.T203T	TPRG1L_uc009vlj.2_Silent_p.T144T	NM_182752	NP_877429	Q5T0D9	TPRGL_HUMAN	tumor protein p63 regulated 1-like	203						cell junction|synaptic vesicle					0	all_cancers(77;0.0119)|all_epithelial(69;0.00481)|Ovarian(185;0.0634)|Lung NSC(156;0.162)|all_lung(157;0.172)	all_epithelial(116;7.37e-22)|all_lung(118;8.23e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.41e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.83e-22)|GBM - Glioblastoma multiforme(42;4.77e-14)|Colorectal(212;1.12e-05)|COAD - Colon adenocarcinoma(227;5.61e-05)|Kidney(185;0.000351)|BRCA - Breast invasive adenocarcinoma(365;0.000688)|KIRC - Kidney renal clear cell carcinoma(229;0.00553)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.201)		ATGAGAAGACAGCATCTCTGT	0.542													15	133					0	0	1	0	0		G	3544202	G	G	3544202	2	3	151	1	0	0	0	0	0	0	0	1	16445	175	7	3		3	TPRG1L	1	3544202	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	118996	3544202	245706419	13	77178											
CCDC27	148870	broad.mit.edu	37	chr1	3679950	3679950	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtcgtttgaggaggagctGctggcccagctggaggagta	8	8	18	7	1	0	1	0	1	0	0	1	6	0	5	1	5	3	5	1	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:3679950G>A	uc001akv.2	+	7	1314	c.1233G>A	c.(1231-1233)CTG>CTA	p.L411L		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	411	Glu-rich.									skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		AGGAGGAGCTGCTGGCCCAGC	0.468													12	42					0	0	1	0	0		A	3679950	A	A	3679950	2	1	151	1	0	0	0	0	0	0	0	1	2804	1306	46	2		2	CCDC27	1	3679950	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	135748	3679950	245570671	14	77179											
C1orf174	339448	broad.mit.edu	37	chr1	3809519	3809519	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctggctgccgaacaactTcgtgctttcaagcgcgctga	9	9	10	13	4	1	1	1	1	0	0	2	2	1	1	2	1	6	3	2	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:3809519T>C	uc001alf.2	-	2	164	c.57A>G	c.(55-57)CGA>CGG	p.R19R	C1orf174_uc009vls.2_RNA	NM_207356	NP_997239	Q8IYL3	CA174_HUMAN	hypothetical protein LOC339448	19											0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;5.09e-25)|all_epithelial(116;9.35e-17)|all_lung(118;1.09e-06)|Lung NSC(185;0.000139)|all_neural(13;0.00287)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0219)|all_hematologic(16;0.027)|Colorectal(325;0.0276)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;1.55e-39)|OV - Ovarian serous cystadenocarcinoma(86;5.99e-23)|GBM - Glioblastoma multiforme(42;2.22e-17)|Colorectal(212;1.08e-05)|COAD - Colon adenocarcinoma(227;5.49e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000365)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.19)		CCGAACAACTTCGTGCTTTCA	0.562													9	23					0	0	1	0	0		C	3809519	C	C	3809519	2	2	151	1	0	0	0	0	0	0	0	1	2018	1770	62	3		3	C1orf174	1	3809519	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	129569	3809519	245441102	15	77180											
AJAP1	55966	broad.mit.edu	37	chr1	4834505	4834505	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaccctcctcttctgatcgGcatcttattcctgtggcctt	5	15	7	14	1	3	2	0	1	3	1	6	2	5	2	4	2	0	1	4	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:4834505G>A	uc001alm.1	+	5	1563	c.1182G>A	c.(1180-1182)CGG>CGA	p.R394R	AJAP1_uc001aln.2_Silent_p.R394R	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	394	Targeting signals.|Cytoplasmic (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		CTTCTGATCGGCATCTTATTC	0.547													24	95					0	0	1	0	0		A	4834505	A	A	4834505	2	1	151	1	0	0	0	0	0	0	0	1	438	1190	42	2		2	AJAP1	1	4834505	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1024986	4834505	244416116	16	77181											
CHD5	26038	broad.mit.edu	37	chr1	6204099	6204099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccacctgtggccccagtagGcctgcttgaggttgtcgtag	5	10	13	13	1	0	1	0	1	0	0	1	1	0	1	5	3	1	4	5	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:6204099G>A	uc001amb.1	-	12	2019	c.1919C>T	c.(1918-1920)GCC>GTC	p.A640V	CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	640	Chromo 2.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		GCCCCAGTAGGCCTGCTTGAG	0.612													18	131					0	0	1	0	0		A	6204099	A	A	6204099	3	1	151	1	0	0	0	0	1	0	0	0	3331	1203	42	2	4065	2	CHD5	1	6204099	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1369594	6204099	243046522	17	77182											
CHD5	26038	broad.mit.edu	37	chr1	6212526	6212526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgaagcggaacttgagcccGgccgtctttttccctttgcc	5	11	10	15	4	1	1	0	1	1	0	2	3	2	2	5	2	4	0	5	2	2	4	rs140463225	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:6212526G>A	uc001amb.1	-	6	916	c.816C>T	c.(814-816)GCC>GCT	p.A272A		NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	272	Lys-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		ACTTGAGCCCGGCCGTCTTTT	0.403													15	51					0	0	1	0	0		A	6212526	A	A	6212526	2	1	151	1	0	0	0	0	0	0	0	1	3331	1103	39	1		1	CHD5	1	6212526	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	8427	6212526	243038095	18	77183											
GPR153	387509	broad.mit.edu	37	chr1	6313900	6313900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcgccgcttgccctgcgCgtcctccaccacgatggtgg	4	7	14	16	5	0	0	0	0	0	0	2	2	2	1	5	3	3	1	5	3	0	1	rs141201270	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:6313900C>T	uc001amp.1	-	3	924	c.664G>A	c.(664-666)GCG>ACG	p.A222T		NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	222	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		TTGCCCTGCGCGTCCTCCACC	0.672													5	19					0	0	1	0	0		T	6313900	T	T	6313900	3	4	151	1	0	0	0	0	1	0	0	0	6674	768	27	1	1181	1	GPR153	1	6313900	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	101374	6313900	242936721	19	77184											
ACOT7	11332	broad.mit.edu	37	chr1	6399491	6399491	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acactgtcgctcccagaagtAcctgtgaggatgttttcgga	9	11	11	10	2	0	2	0	1	0	1	3	4	1	4	2	2	1	3	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:6399491A>G	uc001ams.2	-	3	605	c.448_splice	c.e3+1	p.G150_splice	ACOT7_uc010nzq.1_Splice_Site_p.G35_splice|ACOT7_uc001amt.2_Splice_Site_p.G140_splice|ACOT7_uc001amu.2_Splice_Site|ACOT7_uc001amv.2_Splice_Site|ACOT7_uc001amq.2_Splice_Site_p.G99_splice|ACOT7_uc001amr.2_Splice_Site_p.G120_splice	NM_181864	NP_863654	O00154	BACH_HUMAN	acyl-CoA thioesterase 7 isoform hBACHb							mitochondrion|nucleus	carboxylesterase activity|fatty-acyl-CoA binding|palmitoyl-CoA hydrolase activity				0	Ovarian(185;0.0634)|all_lung(157;0.175)	all_cancers(23;1.42e-38)|all_epithelial(116;3.96e-23)|all_lung(118;3.69e-08)|Lung NSC(185;8.52e-07)|all_hematologic(16;6.92e-06)|Colorectal(325;4.53e-05)|Acute lymphoblastic leukemia(12;5e-05)|all_neural(13;0.000164)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0393)|Medulloblastoma(700;0.211)		Epithelial(90;9.16e-37)|GBM - Glioblastoma multiforme(13;5.89e-29)|OV - Ovarian serous cystadenocarcinoma(86;7.63e-19)|Colorectal(212;1.27e-07)|COAD - Colon adenocarcinoma(227;2.06e-05)|Kidney(185;7.74e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00129)|BRCA - Breast invasive adenocarcinoma(365;0.00132)|STAD - Stomach adenocarcinoma(132;0.00195)|READ - Rectum adenocarcinoma(331;0.0481)		TCCCAGAAGTACCTGTGAGGA	0.597													14	71					0	0	1	0	0		G	6399491	G	G	6399491	5	3	151	1	0	0	0	0	0	0	1	0	155	405	14	3	720	3	ACOT7	1	6399491	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	85591	6399491	242851130	20	77185											
TNFRSF25	8718	broad.mit.edu	37	chr1	6524767	6524767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgaacagttctccagcGccacctgggaggctggtggg	6	8	15	12	1	1	1	0	1	1	0	2	2	1	2	3	4	3	3	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:6524767G>A	uc001ane.2	-	4	396	c.308C>T	c.(307-309)GCG>GTG	p.A103V	TNFRSF25_uc001ana.2_Intron|TNFRSF25_uc001anb.2_RNA|TNFRSF25_uc001anc.2_RNA|TNFRSF25_uc001and.2_5'UTR|TNFRSF25_uc009vlz.2_RNA|TNFRSF25_uc001anf.2_Missense_Mutation_p.A103V|TNFRSF25_uc001ang.2_Missense_Mutation_p.A58V|TNFRSF25_uc001anh.2_Missense_Mutation_p.A103V|TNFRSF25_uc001ani.1_Missense_Mutation_p.A103V	NM_003790	NP_003781	Q93038	TNR25_HUMAN	tumor necrosis factor receptor superfamily,	103	TNFR-Cys 2.|Extracellular (Potential).				apoptosis|induction of apoptosis by extracellular signals	cytosol|extracellular region|integral to plasma membrane	tumor necrosis factor receptor activity	p.A103A(1)		central_nervous_system(2)|breast(1)	3	Ovarian(185;0.0386)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Acute lymphoblastic leukemia(12;0.00157)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;4.58e-35)|GBM - Glioblastoma multiforme(13;3.06e-27)|Colorectal(212;6.01e-08)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|BRCA - Breast invasive adenocarcinoma(365;0.00105)|STAD - Stomach adenocarcinoma(132;0.00158)|READ - Rectum adenocarcinoma(331;0.0419)		GTTCTCCAGCGCCACCTGGGA	0.592													7	24					0	0	1	0	0		A	6524767	A	A	6524767	3	1	151	1	0	0	0	0	1	0	0	0	16321	1087	38	1	1004	1	TNFRSF25	1	6524767	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	125276	6524767	242725854	21	77186											
TAS1R1	80835	broad.mit.edu	37	chr1	6631009	6631009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atggctaccacctcttccagGctatgcggcttggggttgag	6	11	13	11	1	1	1	0	1	1	0	2	1	2	1	3	5	2	4	3	5	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:6631009G>A	uc001ant.2	+	2	232	c.232G>A	c.(232-234)GCT>ACT	p.A78T	TAS1R1_uc001anu.2_Missense_Mutation_p.A78T|TAS1R1_uc001anv.2_Missense_Mutation_p.A78T|TAS1R1_uc001anw.2_Missense_Mutation_p.A78T	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	78	Extracellular (Potential).				sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;8.73e-34)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		CCTCTTCCAGGCTATGCGGCT	0.542													41	102					0	0	1	0	0		A	6631009	A	A	6631009	3	1	151	1	0	0	0	0	1	0	0	0	15587	1203	42	2	238	2	TAS1R1	1	6631009	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	106242	6631009	242619612	22	77187											
KLHL21	9903	broad.mit.edu	37	chr1	6659354	6659354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagtggtgtggtcatagcGctcggtgctgtcggcggcca	4	10	17	10	4	2	0	2	0	0	0	4	0	2	0	1	5	2	2	1	5	1	1	rs141248147		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:6659354G>A	uc001aoa.2	-	2	1232	c.1180C>T	c.(1180-1182)CGC>TGC	p.R394C	KLHL21_uc001anz.1_Missense_Mutation_p.R394C|KLHL21_uc009vme.2_Missense_Mutation_p.R27C	NM_014851	NP_055666	Q9UJP4	KLH21_HUMAN	kelch-like 21	394	Kelch 3.				anaphase|cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|polar microtubule				central_nervous_system(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.36e-07)|COAD - Colon adenocarcinoma(227;1.4e-05)|Kidney(185;4.95e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000528)|KIRC - Kidney renal clear cell carcinoma(229;0.000927)|STAD - Stomach adenocarcinoma(132;0.0172)|READ - Rectum adenocarcinoma(331;0.0644)		TGGTCATAGCGCTCGGTGCTG	0.657													8	32					0	0	1	0	0		A	6659354	A	A	6659354	3	1	151	1	0	0	0	0	1	0	0	0	8392	1087	38	1	625	1	KLHL21	1	6659354	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	28345	6659354	242591267	23	77188											
PHF13	148479	broad.mit.edu	37	chr1	6679933	6679933	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgacagcgacggctgggAcgcgggtttctcagacatcg	8	8	14	11	5	1	2	1	1	1	1	3	4	1	3	0	3	1	2	0	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:6679933A>G	uc001aob.3	+	3	583	c.212A>G	c.(211-213)GAC>GGC	p.D71G		NM_153812	NP_722519	Q86YI8	PHF13_HUMAN	PHD finger protein 13	71					cell division|chromatin modification|mitotic chromosome condensation	nucleoplasm	chromatin binding|methylated histone residue binding|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;1.46e-33)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.19e-07)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000501)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|STAD - Stomach adenocarcinoma(132;0.0165)|READ - Rectum adenocarcinoma(331;0.0642)		GACGGCTGGGACGCGGGTTTC	0.572													12	67					0	0	1	0	0		G	6679933	G	G	6679933	3	3	151	1	0	0	0	0	1	0	0	0	11843	275	10	3	222	3	PHF13	1	6679933	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	20579	6679933	242570688	24	77189											
PER3	8863	broad.mit.edu	37	chr1	7890044	7890044	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagaatccatcccatcctActgccagcgctctgtccaca	10	9	6	16	1	1	2	0	1	1	1	5	2	5	2	5	0	3	1	5	0	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:7890044A>G	uc001aoo.2	+	18	3185	c.3010A>G	c.(3010-3012)ACT>GCT	p.T1004A	PER3_uc009vmg.1_Missense_Mutation_p.T1012A|PER3_uc009vmh.1_Missense_Mutation_p.T1005A|PER3_uc001aop.2_Missense_Mutation_p.T1013A|PER3_uc010nzw.1_Missense_Mutation_p.T693A	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	1004	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		ATCCCATCCTACTGCCAGCGC	0.587													16	128					0	0	1	0	0		G	7890044	G	G	7890044	3	3	151	1	0	0	0	0	1	0	0	0	11750	391	14	3	3080	3	PER3	1	7890044	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1210111	7890044	241360577	25	77190											
ERRFI1	54206	broad.mit.edu	37	chr1	8073280	8073280	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accccaaggtctaaggagaaAccacataggataaatgttta	17	8	8	8	0	1	1	0	0	1	1	1	3	1	2	3	3	1	1	3	3	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:8073280A>G	uc001aoz.2	-	4	1628	c.1379T>C	c.(1378-1380)GTT>GCT	p.V460A		NM_018948	NP_061821	Q9UJM3	ERRFI_HUMAN	mitogen-inducible gene 6 protein	460					lung alveolus development|lung epithelium development|lung vasculature development|negative regulation of epidermal growth factor receptor activity|negative regulation of protein autophosphorylation|regulation of keratinocyte differentiation|response to stress|skin morphogenesis	cytoplasm|extrinsic to internal side of plasma membrane|nucleus	protein kinase binding|Rho GTPase activator activity			ovary(1)	1	Ovarian(185;0.06)|all_lung(157;0.151)	all_epithelial(116;1.76e-16)|all_lung(118;3.66e-05)|Lung NSC(185;0.000163)|Renal(390;0.000469)|Colorectal(325;0.0033)|Breast(348;0.0044)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.33e-70)|GBM - Glioblastoma multiforme(8;8.05e-37)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;6.9e-06)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.000985)|READ - Rectum adenocarcinoma(331;0.0642)		CTAAGGAGAAACCACATAGGA	0.438													19	71					0	0	1	0	0		G	8073280	G	G	8073280	3	3	151	1	0	0	0	0	1	0	0	0	5252	43	2	3	13	3	ERRFI1	1	8073280	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	183236	8073280	241177341	26	77191											
SLC45A1	50651	broad.mit.edu	37	chr1	8397983	8397983	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcagaggcgtatcagaagTacaacagcggcgtgaccatg	13	6	12	10	3	2	3	2	1	0	2	2	3	2	3	1	2	3	2	1	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:8397983T>C	uc001apb.2	+	6	1705	c.1705T>C	c.(1705-1707)TAC>CAC	p.Y569H	SLC45A1_uc001apc.2_Missense_Mutation_p.Y267H	NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	569					carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		GTATCAGAAGTACAACAGCGG	0.597													39	131					0	0	1	0	0		C	8397983	C	C	8397983	3	2	151	1	0	0	0	0	1	0	0	0	14665	1638	57	3	1727	3	SLC45A1	1	8397983	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	324703	8397983	240852638	27	77192											
CA6	765	broad.mit.edu	37	chr1	9005977	9005977	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcttctgctgtccctgtTcctgctgggtggccaggccc	1	12	14	14	0	1	0	0	0	1	0	3	0	3	0	4	4	3	4	4	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:9005977T>C	uc001apm.2	+	1	56	c.32T>C	c.(31-33)TTC>TCC	p.F11S	CA6_uc009vmn.2_Missense_Mutation_p.F11S	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	11					one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)		CTGTCCCTGTTCCTGCTGGGT	0.542													17	92					0	0	1	0	0		C	9005977	C	C	9005977	3	2	151	1	0	0	0	0	1	0	0	0	2524	1783	62	3	34	3	CA6	1	9005977	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	607994	9005977	240244644	28	77193											
H6PD	9563	broad.mit.edu	37	chr1	9305622	9305622	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattacttaggcaagcaggTgagcatcagcatggagcctg	11	8	12	10	0	1	1	1	1	0	0	1	2	1	2	2	3	5	4	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:9305622T>C	uc001apt.2	+	2	900	c.627_splice	c.e2+2	p.Q209_splice		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor							endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	GGCAAGCAGGTGAGCATCAGC	0.602													10	44					0	0	1	0	0		C	9305622	C	C	9305622	5	2	151	1	0	0	0	0	0	0	1	0	6952	1710	59	3	631	3	H6PD	1	9305622	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	299645	9305622	239944999	29	77194											
TMEM201	199953	broad.mit.edu	37	chr1	9661349	9661349	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacctgacaatggcaccAcccctggggccgagggctgg	8	4	13	16	1	0	1	0	1	0	0	0	2	0	1	6	5	0	2	6	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:9661349A>G	uc001apz.2	+	5	805	c.793A>G	c.(793-795)ACC>GCC	p.T265A	TMEM201_uc001apy.2_Missense_Mutation_p.T265A	NM_001130924	NP_001124396	Q5SNT2	TM201_HUMAN	transmembrane protein 201 isoform 1	265						integral to membrane|nuclear inner membrane					0	all_lung(157;0.222)	all_epithelial(116;2.09e-14)|Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|STAD - Stomach adenocarcinoma(132;0.00345)|READ - Rectum adenocarcinoma(331;0.0419)		CAATGGCACCACCCCTGGGGC	0.687													12	31					0	0	1	0	0		G	9661349	G	G	9661349	3	3	151	1	0	0	0	0	1	0	0	0	16151	159	6	3	811	3	TMEM201	1	9661349	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	355727	9661349	239589272	30	77195											
RBP7	116362	broad.mit.edu	37	chr1	10067724	10067724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccatccacacgaacagcaGcctaaggaactactttgtga	14	8	7	12	1	0	1	0	1	0	0	1	3	1	2	3	1	6	1	3	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:10067724G>A	uc001aqq.2	+	2	232	c.170G>A	c.(169-171)AGC>AAC	p.S57N	RBP7_uc009vms.2_RNA	NM_052960	NP_443192	Q96R05	RET7_HUMAN	retinol binding protein 7, cellular	57						cytoplasm	retinal binding|retinol binding|transporter activity				0		all_lung(284;0.000407)|Renal(390;0.000469)|Lung NSC(185;0.000577)|Colorectal(325;0.0062)|Breast(348;0.00686)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|BRCA - Breast invasive adenocarcinoma(304;0.000302)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00856)|READ - Rectum adenocarcinoma(331;0.0419)	Vitamin A(DB00162)	ACGAACAGCAGCCTAAGGAAC	0.383													15	51					0	0	1	0	0		A	10067724	A	A	10067724	3	1	151	1	0	0	0	0	1	0	0	0	13185	971	34	2	176	2	RBP7	1	10067724	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	406375	10067724	239182897	31	77196											
KIF1B	23095	broad.mit.edu	37	chr1	10381867	10381867	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttactctggggcaatgcCgtgtacctaaaggaggccaa	11	8	12	10	1	1	0	0	0	1	0	1	2	1	1	3	4	3	2	3	4	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:10381867C>T	uc001aqx.3	+	24	2512	c.2310C>T	c.(2308-2310)GCC>GCT	p.A770A	KIF1B_uc001aqw.3_Silent_p.A724A|KIF1B_uc001aqy.2_Silent_p.A744A|KIF1B_uc001aqz.2_Silent_p.A770A|KIF1B_uc001ara.2_Silent_p.A730A|KIF1B_uc001arb.2_Silent_p.A756A	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	770					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		GGGGCAATGCCGTGTACCTAA	0.512													27	103					0	0	1	0	0		T	10381867	T	T	10381867	2	4	151	1	0	0	0	0	0	0	0	1	8300	639	23	1		1	KIF1B	1	10381867	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	314143	10381867	238868754	32	77197											
KIF1B	23095	broad.mit.edu	37	chr1	10384880	10384880	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatggcctccagtgcccaaGacgaaagcgaaaccactgtg	13	5	11	12	2	0	2	0	0	0	2	1	4	1	2	4	1	3	0	4	1	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:10384880G>T	uc001aqx.3	+	26	2804	c.2602G>T	c.(2602-2604)GAC>TAC	p.D868Y	KIF1B_uc001aqw.3_Missense_Mutation_p.D822Y|KIF1B_uc001aqy.2_Missense_Mutation_p.D842Y|KIF1B_uc001aqz.2_Missense_Mutation_p.D868Y|KIF1B_uc001ara.2_Missense_Mutation_p.D828Y|KIF1B_uc001arb.2_Missense_Mutation_p.D854Y	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	868	Potential.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		CAGTGCCCAAGACGAAAGCGA	0.468													34	129					3.62531e-18	3.77833e-18	1	1	0		T	10384880	T	T	10384880	3	4	151	1	0	0	0	0	1	0	0	0	8300	942	33	5	4043	5	KIF1B	1	10384880	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3013	10384880	238865741	33	77198											
PGD	5226	broad.mit.edu	37	chr1	10460487	10460487	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgtctccaaagttgatgAtttcttggccaatgaggcaa	11	12	10	8	0	2	3	0	3	2	0	3	4	2	3	2	2	0	2	2	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:10460487A>C	uc001arc.2	+	3	212	c.122A>C	c.(121-123)GAT>GCT	p.D41A	PGD_uc001ard.2_5'UTR|PGD_uc010oak.1_Missense_Mutation_p.D41A|PGD_uc010oal.1_Missense_Mutation_p.D28A	NM_002631	NP_002622	P52209	6PGD_HUMAN	phosphogluconate dehydrogenase	41					pentose-phosphate shunt, oxidative branch	cytosol	NADP binding|phosphogluconate dehydrogenase (decarboxylating) activity|protein binding			ovary(1)	1	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.14e-07)|COAD - Colon adenocarcinoma(227;7.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.00832)|READ - Rectum adenocarcinoma(331;0.0487)		AAAGTTGATGATTTCTTGGCC	0.502													35	134					0	0	1	0	0		C	10460487	C	C	10460487	3	2	151	1	0	0	0	0	1	0	0	0	11806	333	12	5	132	5	PGD	1	10460487	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	75607	10460487	238790134	34	77199											
TARDBP	23435	broad.mit.edu	37	chr1	11078874	11078874	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacacaagtgaaagtaatgTcacagcgacatatgatagat	19	8	8	6	1	1	3	1	2	0	1	1	4	1	3	0	0	2	1	0	0	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:11078874T>C	uc001art.2	+	4	621	c.487T>C	c.(487-489)TCA>CCA	p.S163P	TARDBP_uc010oap.1_Missense_Mutation_p.S47P	NM_007375	NP_031401	Q13148	TADBP_HUMAN	TAR DNA binding protein	163	RRM 1.			Missing: Completely abolishes RNA binding.	3'-UTR-mediated mRNA stabilization|cell death|mRNA processing|negative regulation by host of viral transcription|RNA splicing|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0578)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.37e-07)|COAD - Colon adenocarcinoma(227;7.38e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000299)|Kidney(185;0.000754)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)		GAAAGTAATGTCACAGCGACA	0.398													64	204					0	0	1	0	0		C	11078874	C	C	11078874	3	2	151	1	0	0	0	0	1	0	0	0	15582	1667	58	3	497	3	TARDBP	1	11078874	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	618387	11078874	238171747	35	77200											
EXOSC10	5394	broad.mit.edu	37	chr1	11131025	11131025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcctcctttgcctgttcccGggcagctgcaagggagagaa	7	8	13	13	2	0	1	0	0	0	1	2	3	2	2	4	2	3	4	4	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:11131025G>A	uc001asa.2	-	21	2298	c.2248C>T	c.(2248-2250)CGG>TGG	p.R750W	EXOSC10_uc001asb.2_Missense_Mutation_p.R725W	NM_001001998	NP_001001998	Q01780	EXOSX_HUMAN	exosome component 10 isoform 1	750					CUT catabolic process|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear polyadenylation-dependent rRNA catabolic process|nuclear retention of unspliced pre-mRNA at the site of transcription|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasm|nuclear exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5' exonuclease activity|exoribonuclease activity|identical protein binding|nucleotide binding|protein serine/threonine kinase activity|RNA binding			upper_aerodigestive_tract(1)	1	Ovarian(185;0.249)	Lung NSC(185;1.74e-05)|all_lung(284;2.05e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.18e-07)|COAD - Colon adenocarcinoma(227;8.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000315)|Kidney(185;0.000832)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|READ - Rectum adenocarcinoma(331;0.0526)|STAD - Stomach adenocarcinoma(313;0.202)		GCCTGTTCCCGGGCAGCTGCA	0.582													36	124					0	0	1	0	0		A	11131025	A	A	11131025	3	1	151	1	0	0	0	0	1	0	0	0	5322	1115	39	1	429	1	EXOSC10	1	11131025	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	52151	11131025	238119596	36	77201											
EXOSC10	5394	broad.mit.edu	37	chr1	11142796	11142796	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttgagtccacgttgcagTagagtttcaggagatgatcg	9	13	13	6	2	1	4	1	2	0	2	3	5	2	4	1	1	1	5	1	1	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:11142796T>C	uc001asa.2	-	10	1279	c.1229A>G	c.(1228-1230)TAC>TGC	p.Y410C	EXOSC10_uc001asb.2_Missense_Mutation_p.Y410C|EXOSC10_uc009vmy.1_Missense_Mutation_p.Y410C	NM_001001998	NP_001001998	Q01780	EXOSX_HUMAN	exosome component 10 isoform 1	410					CUT catabolic process|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear polyadenylation-dependent rRNA catabolic process|nuclear retention of unspliced pre-mRNA at the site of transcription|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasm|nuclear exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5' exonuclease activity|exoribonuclease activity|identical protein binding|nucleotide binding|protein serine/threonine kinase activity|RNA binding			upper_aerodigestive_tract(1)	1	Ovarian(185;0.249)	Lung NSC(185;1.74e-05)|all_lung(284;2.05e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.18e-07)|COAD - Colon adenocarcinoma(227;8.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000315)|Kidney(185;0.000832)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|READ - Rectum adenocarcinoma(331;0.0526)|STAD - Stomach adenocarcinoma(313;0.202)		CACGTTGCAGTAGAGTTTCAG	0.448													49	203					0	0	1	0	0		C	11142796	C	C	11142796	3	2	151	1	0	0	0	0	1	0	0	0	5322	1638	57	3	1492	3	EXOSC10	1	11142796	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	11771	11142796	238107825	37	77202											
MTOR	2475	broad.mit.edu	37	chr1	11288788	11288788	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtgggcatgacctggggcagGaactgcacacatttgagtcc	9	8	14	10	0	0	2	0	2	0	0	1	3	1	3	2	4	2	3	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:11288788G>A	uc001asd.2	-	19	3088	c.2967C>T	c.(2965-2967)TTC>TTT	p.F989F		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	989	HEAT 4.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						CCTGGGGCAGGAACTGCACAC	0.527													14	73					0	0	1	0	0		A	11288788	A	A	11288788	2	1	151	1	0	0	0	0	0	0	0	1	9972	1165	41	4		4	MTOR	1	11288788	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	145992	11288788	237961833	38	77203											
UBIAD1	29914	broad.mit.edu	37	chr1	11333988	11333988	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccgcaggatgtcgtccggTtcggagtcttcctctacacg	6	10	12	13	5	2	0	0	0	2	0	6	2	4	2	3	3	2	2	3	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:11333988T>C	uc001asg.2	+	1	734	c.400T>C	c.(400-402)TTC>CTC	p.F134L		NM_013319	NP_037451	Q9Y5Z9	UBIA1_HUMAN	UbiA prenyltransferase domain containing 1	134	Helical; (Potential).				menaquinone biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrion|nucleus	prenyltransferase activity				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000818)|all_lung(284;0.00105)|Colorectal(325;0.0062)|Breast(348;0.012)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.52e-06)|COAD - Colon adenocarcinoma(227;0.000254)|BRCA - Breast invasive adenocarcinoma(304;0.000299)|Kidney(185;0.000754)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0487)		TGTCGTCCGGTTCGGAGTCTT	0.522													19	86					0	0	1	0	0		C	11333988	C	C	11333988	3	2	151	1	0	0	0	0	1	0	0	0	16911	1725	60	3	402	3	UBIAD1	1	11333988	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	45200	11333988	237916633	39	77204											
PTCHD2	57540	broad.mit.edu	37	chr1	11580770	11580770	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtctccatcctcatcttgTccctggtgttcgccagccgg	3	13	9	16	3	3	0	1	0	2	0	8	0	5	0	5	2	1	1	5	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:11580770T>C	uc001ash.3	+	10	2365	c.2227T>C	c.(2227-2229)TCC>CCC	p.S743P	PTCHD2_uc001asi.1_Missense_Mutation_p.S743P	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	743	Helical; (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CCTCATCTTGTCCCTGGTGTT	0.652													10	26					0	0	1	0	0		C	11580770	C	C	11580770	3	2	151	1	0	0	0	0	1	0	0	0	12755	1667	58	3	2261	3	PTCHD2	1	11580770	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	246782	11580770	237669851	40	77205											
PTCHD2	57540	broad.mit.edu	37	chr1	11586864	11586864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgacttcagcttctacGtggccaccaaggagcagcag	10	9	11	11	1	2	1	1	1	1	0	2	2	2	2	2	2	4	4	2	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:11586864G>A	uc001ash.3	+	13	2908	c.2770G>A	c.(2770-2772)GTG>ATG	p.V924M	PTCHD2_uc001asi.1_Missense_Mutation_p.V924M	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	924	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CAGCTTCTACGTGGCCACCAA	0.607													10	44					0	0	1	0	0		A	11586864	A	A	11586864	3	1	151	1	0	0	0	0	1	0	0	0	12755	1145	40	1	2816	1	PTCHD2	1	11586864	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	6094	11586864	237663757	41	77206											
PLOD1	5351	broad.mit.edu	37	chr1	12034725	12034725	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagggcgggggctgtcggTtcctgcgctacaactgttcc	4	9	14	14	3	0	0	0	0	0	0	3	0	2	0	3	4	3	4	3	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:12034725T>C	uc001atm.2	+	19	2135	c.2044T>C	c.(2044-2046)TTC>CTC	p.F682L	PLOD1_uc010obb.1_Missense_Mutation_p.F729L	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	682	Fe2OG dioxygenase.				epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	GGGCTGTCGGTTCCTGCGCTA	0.632													4	34					0	0	1	0	0		C	12034725	C	C	12034725	3	2	151	1	0	0	0	0	1	0	0	0	12120	1725	60	3	2118	3	PLOD1	1	12034725	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	447861	12034725	237215896	42	77207											
MFN2	9927	broad.mit.edu	37	chr1	12057394	12057394	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctccaccaggacaagcAgctccatgccggcagcctag	9	5	10	17	1	0	0	0	0	0	0	2	1	2	1	6	2	5	3	6	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:12057394A>G	uc001atn.3	+	6	968	c.515A>G	c.(514-516)CAG>CGG	p.Q172R	MFN2_uc009vni.2_Missense_Mutation_p.Q172R	NM_014874	NP_055689	O95140	MFN2_HUMAN	mitofusin 2	172	Cytoplasmic (Potential).				blood coagulation|mitochondrial fusion|mitochondrial membrane organization|mitochondrion localization|negative regulation of Ras protein signal transduction|negative regulation of smooth muscle cell proliferation|protein targeting to mitochondrion	cytosol|integral to membrane|intrinsic to mitochondrial outer membrane	GTP binding|GTPase activity|ubiquitin protein ligase binding			ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.25e-06)|COAD - Colon adenocarcinoma(227;0.000302)|BRCA - Breast invasive adenocarcinoma(304;0.000329)|Kidney(185;0.000896)|KIRC - Kidney renal clear cell carcinoma(229;0.00274)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		CAGGACAAGCAGCTCCATGCC	0.567													7	60					0	0	1	0	0		G	12057394	G	G	12057394	3	3	151	1	0	0	0	0	1	0	0	0	9542	188	7	3	529	3	MFN2	1	12057394	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	22669	12057394	237193227	43	77208											
MFN2	9927	broad.mit.edu	37	chr1	12065963	12065963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggccccaagaacagccgtcGggccttgatgggctacaatg	9	6	14	12	2	0	2	0	1	0	1	1	2	0	2	4	3	3	1	4	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:12065963G>A	uc001atn.3	+	15	2144	c.1691G>A	c.(1690-1692)CGG>CAG	p.R564Q	MFN2_uc009vni.2_Missense_Mutation_p.R564Q	NM_014874	NP_055689	O95140	MFN2_HUMAN	mitofusin 2	564	Cytoplasmic (Potential).				blood coagulation|mitochondrial fusion|mitochondrial membrane organization|mitochondrion localization|negative regulation of Ras protein signal transduction|negative regulation of smooth muscle cell proliferation|protein targeting to mitochondrion	cytosol|integral to membrane|intrinsic to mitochondrial outer membrane	GTP binding|GTPase activity|ubiquitin protein ligase binding	p.R564W(1)		ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.25e-06)|COAD - Colon adenocarcinoma(227;0.000302)|BRCA - Breast invasive adenocarcinoma(304;0.000329)|Kidney(185;0.000896)|KIRC - Kidney renal clear cell carcinoma(229;0.00274)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		AACAGCCGTCGGGCCTTGATG	0.552													39	114					0	0	1	0	0		A	12065963	A	A	12065963	3	1	151	1	0	0	0	0	1	0	0	0	9542	1116	39	1	1741	1	MFN2	1	12065963	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	8569	12065963	237184658	44	77209											
TNFRSF1B	7133	broad.mit.edu	37	chr1	12248947	12248947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgtgctgcagcaaatgctCgccgggtgagggcagccacg	8	6	16	11	3	0	1	0	1	0	0	1	2	0	1	2	2	5	5	2	2	1	0	rs139221787		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:12248947C>T	uc001att.2	+	2	262	c.173C>T	c.(172-174)TCG>TTG	p.S58L	TNFRSF1B_uc001atu.2_Intron|TNFRSF1B_uc009vnk.2_RNA	NM_001066	NP_001057	P20333	TNR1B_HUMAN	tumor necrosis factor receptor 2 precursor	58	Extracellular (Potential).|TNFR-Cys 1.				apoptosis	extracellular region|integral to membrane|membrane raft|plasma membrane	tumor necrosis factor receptor activity			liver(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.72e-05)|all_lung(284;9.92e-05)|Renal(390;0.000147)|Colorectal(325;0.000584)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;5.52e-07)|COAD - Colon adenocarcinoma(227;0.000345)|BRCA - Breast invasive adenocarcinoma(304;0.000353)|Kidney(185;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00302)|STAD - Stomach adenocarcinoma(313;0.00815)|READ - Rectum adenocarcinoma(331;0.0284)	Etanercept(DB00005)|Infliximab(DB00065)	AGCAAATGCTCGCCGGGTGAG	0.617													8	26					0	0	1	0	0		T	12248947	T	T	12248947	3	4	151	1	0	0	0	0	1	0	0	0	16319	893	31	1	179	1	TNFRSF1B	1	12248947	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	182984	12248947	237001674	45	77210											
VPS13D	55187	broad.mit.edu	37	chr1	12336565	12336565	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgttgagagcaatggccggTacatttctgtgctcaaggtg	8	12	14	7	1	2	1	1	1	1	1	2	2	2	1	1	3	3	4	1	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:12336565T>C	uc001atv.2	+	19	3061	c.2920T>C	c.(2920-2922)TAC>CAC	p.Y974H	VPS13D_uc001atw.2_Missense_Mutation_p.Y974H|VPS13D_uc001atx.2_Missense_Mutation_p.Y162H	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	974					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		CAATGGCCGGTACATTTCTGT	0.507											OREG0013110	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	38	167					0	0	1	0	0		C	12336565	C	C	12336565	3	2	151	1	0	0	0	0	1	0	0	0	17218	1638	57	3	2990	3	VPS13D	1	12336565	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	87618	12336565	236914056	46	77211											
PRAMEF1	65121	broad.mit.edu	37	chr1	12856081	12856081	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caagaggatcttcattggccCcaccccctgcccttcctgtg	6	10	8	17	0	2	1	1	0	1	1	3	2	3	2	6	2	1	0	6	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:12856081C>A	uc001auj.1	+	4	1464	c.1361C>A	c.(1360-1362)CCC>CAC	p.P454H		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	454											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TTCATTGGCCCCACCCCCTGC	0.562													25	246					1.42033e-22	1.48484e-22	1	1	0		A	12856081	A	A	12856081	3	1	151	1	0	0	0	0	1	0	0	0	12447	623	22	5	1371	5	PRAMEF1	1	12856081	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	519516	12856081	236394540	47	77212											
PRAMEF8	391002	broad.mit.edu	37	chr1	12980059	12980059	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcctgcccctctggagagTtatgacacccagggtgctct	7	11	10	13	0	2	2	0	1	2	1	3	3	3	2	4	2	2	2	4	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:12980059T>C	uc001aup.2	+	4	1334	c.1251T>C	c.(1249-1251)AGT>AGC	p.S417S		NM_001012276	NP_001012276	Q5VWM4	PRAM8_HUMAN	PRAME family member 8	417											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CTCTGGAGAGTTATGACACCC	0.577													17	78					0	0	1	0	0		C	12980059	C	C	12980059	2	2	151	1	0	0	0	0	0	0	0	1	12462	1722	60	3		3	PRAMEF8	1	12980059	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	123978	12980059	236270562	48	77213											
PRAMEF16	654348	broad.mit.edu	37	chr1	13497743	13497743	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagctctgctagagaaagTtgctgctactctcgagatcc	9	11	11	10	1	2	2	0	0	2	2	4	5	3	3	1	1	5	5	1	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:13497743T>C	uc001aux.2	+	3	1070	c.1040T>C	c.(1039-1041)GTT>GCT	p.V347A		NM_001045480	NP_001038945	Q5VWM1	PRA16_HUMAN	PRAME family member 16	347											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CTAGAGAAAGTTGCTGCTACT	0.542													30	194					0	0	1	0	0		C	13497743	C	C	13497743	3	2	151	1	0	0	0	0	1	0	0	0	12453	1725	60	3	1050	3	PRAMEF16	1	13497743	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	517684	13497743	235752878	49	77214											
CELA2B	51032	broad.mit.edu	37	chr1	15817807	15817807	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtgattgcaaataactaAccaaaagaagtccctgggac	16	7	9	9	0	0	2	0	1	0	1	1	3	1	3	2	2	3	1	2	2	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:15817807A>G	uc001awl.2	+	8	835	c.810A>G	c.(808-810)TAA>TAG	p.*270*	CASP9_uc001awm.1_3'UTR	NM_015849	NP_056933	P08218	CEL2B_HUMAN	elastase 2B preproprotein	270					proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1						CAAATAACTAACCAAAAGAAG	0.428													26	130					0	0	1	0	0		G	15817807	G	G	15817807	2	3	151	1	0	0	0	0	0	0	0	1	3215	50	2	3		3	CELA2B	1	15817807	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2320064	15817807	233432814	50	77215											
TMEM82	388595	broad.mit.edu	37	chr1	16069351	16069351	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatcggggcccttggagTcttggtcctgaacagcctcc	5	10	12	14	1	1	2	0	2	1	0	4	3	3	3	5	4	2	0	5	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:16069351T>A	uc001axc.2	+	2	248	c.110T>A	c.(109-111)GTC>GAC	p.V37D		NM_001013641	NP_001013663	A0PJX8	TMM82_HUMAN	transmembrane protein 82	37	Leu-rich.|Helical; (Potential).					integral to membrane				breast(1)|central_nervous_system(1)	2		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GCCCTTGGAGTCTTGGTCCTG	0.642													14	33					0	0	1	0	0		A	16069351	A	A	16069351	3	1	151	1	0	0	0	0	1	0	0	0	16231	1667	58	5	116	5	TMEM82	1	16069351	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	251544	16069351	233181270	51	77216											
SPEN	23013	broad.mit.edu	37	chr1	16257562	16257562	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacccaaagaggttgagaaAcaggaagatacagagaatca	21	4	10	6	0	1	4	1	1	0	4	1	7	1	5	1	2	3	1	1	2	6	2	rs139671958	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:16257562A>G	uc001axk.1	+	11	5031	c.4827A>G	c.(4825-4827)AAA>AAG	p.K1609K	SPEN_uc010obp.1_Silent_p.K1568K	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1609	Potential.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AGGTTGAGAAACAGGAAGATA	0.433													50	101					0	0	1	0	0		G	16257562	G	G	16257562	2	3	151	1	0	0	0	0	0	0	0	1	15063	40	2	3		3	SPEN	1	16257562	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	188211	16257562	232993059	52	77217											
ZBTB17	7709	broad.mit.edu	37	chr1	16271569	16271569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctcattctcgttctcctCgggggcctctccgttctcca	2	14	7	18	3	5	0	1	0	4	0	11	0	6	0	5	2	0	2	5	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:16271569C>T	uc001axl.3	-	7	1029	c.790G>A	c.(790-792)GAG>AAG	p.E264K	ZBTB17_uc010obq.1_Missense_Mutation_p.E181K|ZBTB17_uc010obr.1_Missense_Mutation_p.E264K|ZBTB17_uc010obs.1_Missense_Mutation_p.E188K|ZBTB17_uc010obt.1_Missense_Mutation_p.E201K|ZBTB17_uc010obu.1_Missense_Mutation_p.E188K|ZBTB17_uc009vom.1_Missense_Mutation_p.E207K	NM_003443	NP_003434	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17	264					negative regulation of cell cycle	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		TCGTTCTCCTCGGGGGCCTCT	0.557													6	8					0	0	1	0	0		T	16271569	T	T	16271569	3	4	151	1	0	0	0	0	1	0	0	0	17552	893	31	1	1661	1	ZBTB17	1	16271569	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	14007	16271569	232979052	53	77218											
FBXO42	54455	broad.mit.edu	37	chr1	16577504	16577504	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtccatctccttgggcaggCcctgggcgagggatgggcac	5	8	16	12	1	1	0	0	0	1	0	3	2	2	1	3	5	0	2	3	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:16577504C>T	uc001ayg.2	-	10	2031	c.1815G>A	c.(1813-1815)GGG>GGA	p.G605G	FBXO42_uc001aye.3_Silent_p.G323G|FBXO42_uc001ayf.2_Silent_p.G512G	NM_018994	NP_061867	Q6P3S6	FBX42_HUMAN	F-box protein 42	605										upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00475)|all_lung(284;0.00671)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0193)|Colorectal(212;3.16e-07)|COAD - Colon adenocarcinoma(227;1.46e-05)|BRCA - Breast invasive adenocarcinoma(304;4.37e-05)|Kidney(64;0.000246)|KIRC - Kidney renal clear cell carcinoma(64;0.00336)|STAD - Stomach adenocarcinoma(313;0.0139)|READ - Rectum adenocarcinoma(331;0.0693)		CTTGGGCAGGCCCTGGGCGAG	0.592													38	135					0	0	1	0	0		T	16577504	T	T	16577504	2	4	151	1	0	0	0	0	0	0	0	1	5765	726	26	2		2	FBXO42	1	16577504	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	305935	16577504	232673117	54	77219											
NBPF1	55672	broad.mit.edu	37	chr1	16895594	16895594	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaacagccatgcagactTgctgttcctctaatgagtga	10	12	9	10	0	2	3	1	2	1	1	3	3	3	3	2	0	4	3	2	0	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:16895594T>C	uc009vos.1	-	23	3476	c.2588A>G	c.(2587-2589)CAA>CGA	p.Q863R	NBPF1_uc009vot.1_Missense_Mutation_p.Q321R|NBPF1_uc001ayz.1_Missense_Mutation_p.Q321R|NBPF1_uc010oce.1_Missense_Mutation_p.Q592R	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	863	NBPF 4.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		CATGCAGACTTGCTGTTCCTC	0.483													54	640					0	0	1	0	0		C	16895594	C	C	16895594	3	2	151	1	0	0	0	0	1	0	0	0	10210	1812	63	3	864	3	NBPF1	1	16895594	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	318090	16895594	232355027	55	77220											
RCC2	55920	broad.mit.edu	37	chr1	17749323	17749323	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtcccagctgccccttcTcatttcgacctgcagatcac	7	11	6	17	1	2	1	2	0	1	1	5	2	3	1	4	0	3	2	4	0	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:17749323T>C	uc001bal.2	-	4	580	c.533A>G	c.(532-534)GAG>GGG	p.E178G	RCC2_uc001bam.2_Missense_Mutation_p.E178G	NM_001136204	NP_001129676	Q9P258	RCC2_HUMAN	regulator of chromosome condensation 2	178	RCC1 2.				cell division|mitotic prometaphase	chromosome, centromeric region|cytosol|microtubule|nucleolus|spindle					0		Colorectal(325;0.000147)|Breast(348;0.00122)|Renal(390;0.00145)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;7.69e-06)|COAD - Colon adenocarcinoma(227;1.19e-05)|Kidney(64;0.000189)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.0135)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)		CTGCCCCTTCTCATTTCGACC	0.532													18	66					0	0	1	0	0		C	17749323	C	C	17749323	3	2	151	1	0	0	0	0	1	0	0	0	13199	1551	54	3	1071	3	RCC2	1	17749323	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	853729	17749323	231501298	56	77221											
ACTL8	81569	broad.mit.edu	37	chr1	18149614	18149614	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatcgtgaactacctaccGtgcaaggagaaccctggccc	12	6	9	14	2	0	2	0	1	0	1	1	3	0	2	4	2	6	1	4	2	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:18149614G>A	uc001bat.2	+	2	327	c.111G>A	c.(109-111)CCG>CCA	p.P37P		NM_030812	NP_110439	Q9H568	ACTL8_HUMAN	actin-like 8	37						cytoplasm|cytoskeleton				ovary(4)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00186)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;6.43e-06)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.00652)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)		ACTACCTACCGTGCAAGGAGA	0.587													23	82					0	0	1	0	0		A	18149614	A	A	18149614	2	1	151	1	0	0	0	0	0	0	0	1	202	1132	40	1		1	ACTL8	1	18149614	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	400291	18149614	231101007	57	77222											
PAX7	5081	broad.mit.edu	37	chr1	19018395	19018395	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacccactacccagacatatAcacccgcgaggagctggcgc	11	4	10	16	3	0	1	0	0	0	1	0	4	0	2	3	2	3	1	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:19018395A>G	uc001bay.2	+	5	1332	c.734A>G	c.(733-735)TAC>TGC	p.Y245C	PAX7_uc001baz.2_Missense_Mutation_p.Y243C|PAX7_uc010oct.1_Missense_Mutation_p.Y245C	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	245	Homeobox.				anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		CCAGACATATACACCCGCGAG	0.612			T	FOXO1A	alveolar rhabdomyosarcoma								6	29					0	0	1	0	0		G	19018395	G	G	19018395	3	3	151	1	0	0	0	0	1	0	0	0	11503	391	14	3	752	3	PAX7	1	19018395	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	868781	19018395	230232226	58	77223											
PAX7	5081	broad.mit.edu	37	chr1	19029776	19029776	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatgaacccggtcagcaacGgcctgtctcctcaggtaggt	9	8	11	13	2	3	1	2	1	1	0	4	1	3	1	3	4	3	2	3	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:19029776G>T	uc001bay.2	+	7	1739	c.1141G>T	c.(1141-1143)GGC>TGC	p.G381C	PAX7_uc001baz.2_Missense_Mutation_p.G379C|PAX7_uc010oct.1_Missense_Mutation_p.G381C	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	381					anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		GGTCAGCAACGGCCTGTCTCC	0.622			T	FOXO1A	alveolar rhabdomyosarcoma								8	32					7.48243e-07	7.62705e-07	1	1	0		T	19029776	T	T	19029776	3	4	151	1	0	0	0	0	1	0	0	0	11503	1116	39	5	1167	5	PAX7	1	19029776	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	11381	19029776	230220845	59	77224											
ALDH4A1	8659	broad.mit.edu	37	chr1	19201970	19201970	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgtcatccgggtagacgtAcacagacagtacaggcccga	11	7	11	12	3	1	2	1	0	0	2	2	3	2	2	2	2	2	3	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:19201970A>G	uc001bbb.2	-	13	1642	c.1366T>C	c.(1366-1368)TAC>CAC	p.Y456H	ALDH4A1_uc010ocu.1_Missense_Mutation_p.Y396H|ALDH4A1_uc001bbc.2_Missense_Mutation_p.Y456H	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	456					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	GGGTAGACGTACACAGACAGT	0.622											OREG0013164	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	79					0	0	1	0	0		G	19201970	G	G	19201970	3	3	151	1	0	0	0	0	1	0	0	0	501	391	14	3	337	3	ALDH4A1	1	19201970	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	172194	19201970	230048651	60	77225											
UBR4	23352	broad.mit.edu	37	chr1	19449347	19449347	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggctgatgagtgtgtcatAttgcaaggcggagcctgagc	9	9	15	8	1	1	3	1	3	0	0	1	4	1	4	1	3	3	2	1	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:19449347A>T	uc001bbi.2	-	66	9800	c.9796T>A	c.(9796-9798)TAT>AAT	p.Y3266N	UBR4_uc001bbk.1_Missense_Mutation_p.Y913N	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3266					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		AGTGTGTCATATTGCAAGGCG	0.567													19	115					0	0	1	0	0		T	19449347	T	T	19449347	3	4	151	1	0	0	0	0	1	0	0	0	16930	449	16	5	5919	5	UBR4	1	19449347	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	247377	19449347	229801274	61	77226											
KIF17	57576	broad.mit.edu	37	chr1	21009336	21009336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttcaggtccttgttcttgGcctgctctccacccacaacc	5	12	6	18	0	3	0	1	0	2	0	5	0	4	0	6	2	2	2	6	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:21009336G>A	uc001bdr.3	-	11	2391	c.2273C>T	c.(2272-2274)GCC>GTC	p.A758V	KIF17_uc001bdp.3_Missense_Mutation_p.A36V|KIF17_uc001bdq.3_Missense_Mutation_p.A36V|KIF17_uc009vpx.2_Missense_Mutation_p.A128V|KIF17_uc001bds.3_Missense_Mutation_p.A758V	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	758	Potential.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		CTTGTTCTTGGCCTGCTCTCC	0.602													16	75					0	0	1	0	0		A	21009336	A	A	21009336	3	1	151	1	0	0	0	0	1	0	0	0	8295	1203	42	2	836	2	KIF17	1	21009336	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1559989	21009336	228241285	62	77227											
HP1BP3	50809	broad.mit.edu	37	chr1	21083671	21083671	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctaacctggaatgtcccCgaagcacctttgccagttat	9	12	7	13	1	1	0	0	0	1	0	3	2	2	1	5	1	3	2	5	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:21083671C>A	uc001bdw.1	-	9	1109	c.969G>T	c.(967-969)TCG>TCT	p.S323S	HP1BP3_uc001bdv.1_Silent_p.S285S|HP1BP3_uc010odh.1_Silent_p.S285S|HP1BP3_uc001bdy.1_Silent_p.S323S|HP1BP3_uc001bdz.2_RNA|HP1BP3_uc001bea.2_Silent_p.S322S|HP1BP3_uc010odf.1_5'UTR|HP1BP3_uc010odg.1_Silent_p.S171S	NM_016287	NP_057371	Q5SSJ5	HP1B3_HUMAN	HP1-BP74	323	H15 2.				nucleosome assembly	nucleosome|nucleus	DNA binding			central_nervous_system(1)|skin(1)	2		all_lung(284;6.55e-06)|Lung NSC(340;6.59e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.26e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00015)|GBM - Glioblastoma multiforme(114;0.000521)|Kidney(64;0.000529)|STAD - Stomach adenocarcinoma(196;0.00311)|KIRC - Kidney renal clear cell carcinoma(64;0.00687)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.201)		GGAATGTCCCCGAAGCACCTT	0.343													19	100					2.39556e-15	2.48999e-15	1	1	0		A	21083671	A	A	21083671	2	1	151	1	0	0	0	0	0	0	0	1	7344	639	23	5		5	HP1BP3	1	21083671	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	74335	21083671	228166950	63	77228											
EIF4G3	8672	broad.mit.edu	37	chr1	21205843	21205843	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacatcgacacatgtttgcGtaagccacagagaaactggg	14	7	11	9	2	0	2	0	0	0	2	1	4	0	2	1	1	3	2	1	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:21205843G>A	uc001bec.2	-	15	2683	c.2427C>T	c.(2425-2427)TAC>TAT	p.Y809Y	EIF4G3_uc010odi.1_Silent_p.Y413Y|EIF4G3_uc010odj.1_Silent_p.Y808Y|EIF4G3_uc009vpz.2_Silent_p.Y529Y|EIF4G3_uc001bed.2_Silent_p.Y809Y|EIF4G3_uc001bef.2_Silent_p.Y845Y|EIF4G3_uc001bee.2_Silent_p.Y815Y	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	809	eIF3/EIF4A-binding (By similarity).|MIF4G.|HEAT 2.				interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		ACATGTTTGCGTAAGCCACAG	0.443													46	241					0	0	1	0	0		A	21205843	A	A	21205843	2	1	151	1	0	0	0	0	0	0	0	1	5046	1140	40	1		1	EIF4G3	1	21205843	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	122172	21205843	228044778	64	77229											
RAP1GAP	5909	broad.mit.edu	37	chr1	21938061	21938061	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccgtgggtcacgtccaGgcctcctcggaacctgcccc	4	7	11	19	3	1	0	1	0	0	0	4	1	3	1	7	3	3	0	7	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:21938061G>T	uc001bex.2	-	13	985	c.727C>A	c.(727-729)CTG>ATG	p.L243M	RAP1GAP_uc001bev.2_Missense_Mutation_p.L243M|RAP1GAP_uc001bew.2_Missense_Mutation_p.L307M|RAP1GAP_uc001bey.2_Missense_Mutation_p.L243M	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	243	Rap-GAP.				regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		GTCACGTCCAGGCCTCCTCGG	0.662													13	41					1.3612e-06	1.38595e-06	1	1	0		T	21938061	T	T	21938061	3	4	151	1	0	0	0	0	1	0	0	0	13062	991	35	5	1394	5	RAP1GAP	1	21938061	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	732218	21938061	227312560	65	77230											
HSPG2	3339	broad.mit.edu	37	chr1	22169859	22169859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagggtgcctgagcttcCggtcacttggcacgagtact	6	10	12	13	2	1	1	1	1	0	0	3	2	3	1	3	3	3	3	3	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:22169859C>T	uc001bfj.2	-	66	8729	c.8689G>A	c.(8689-8691)GGA>AGA	p.G2897R	HSPG2_uc009vqd.2_Missense_Mutation_p.G2898R	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2897	Ig-like C2-type 14.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CCTGAGCTTCCGGTCACTTGG	0.642													8	31					0	0	1	0	0		T	22169859	T	T	22169859	3	4	151	1	0	0	0	0	1	0	0	0	7446	661	23	1	4614	1	HSPG2	1	22169859	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	231798	22169859	227080762	66	77231											
HSPG2	3339	broad.mit.edu	37	chr1	22179505	22179505	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagttcagatccagggtctgCccttccgccacgtgtgagga	7	9	12	13	2	2	2	1	1	1	1	4	3	4	3	4	2	1	1	4	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:22179505C>T	uc001bfj.2	-	51	6538	c.6498G>A	c.(6496-6498)GGG>GGA	p.G2166G	HSPG2_uc009vqd.2_Silent_p.G2167G	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2166	Ig-like C2-type 7.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CCAGGGTCTGCCCTTCCGCCA	0.697													13	47					0	0	1	0	0		T	22179505	T	T	22179505	2	4	151	1	0	0	0	0	0	0	0	1	7446	726	26	2		2	HSPG2	1	22179505	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	9646	22179505	227071116	67	77232											
EPHA8	2046	broad.mit.edu	37	chr1	22902826	22902826	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagctgggtcccccgagaCggcgcccggcgcgtctatgc	5	5	15	16	7	1	1	0	0	1	1	2	3	2	1	3	3	2	1	3	3	1	1	rs145476843	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:22902826C>T	uc001bfx.1	+	3	401	c.276C>T	c.(274-276)GAC>GAT	p.D92D	EPHA8_uc001bfw.2_Silent_p.D92D	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	92	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TCCCCCGAGACGGCGCCCGGC	0.607													20	75					0	0	1	0	0		T	22902826	T	T	22902826	2	4	151	1	0	0	0	0	0	0	0	1	5181	535	19	1		1	EPHA8	1	22902826	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	723321	22902826	226347795	68	77233											
EPHA8	2046	broad.mit.edu	37	chr1	22927263	22927263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcatgtgggaggtgctggCctatggggagcggccctact	5	9	18	9	1	1	0	1	0	0	0	1	2	1	2	2	7	3	1	2	7	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:22927263C>T	uc001bfx.1	+	14	2623	c.2498C>T	c.(2497-2499)GCC>GTC	p.A833V		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	833	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GAGGTGCTGGCCTATGGGGAG	0.682													10	69					0	0	1	0	0		T	22927263	T	T	22927263	3	4	151	1	0	0	0	0	1	0	0	0	5181	739	26	2	2725	2	EPHA8	1	22927263	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	24437	22927263	226323358	69	77234											
HTR1D	3352	broad.mit.edu	37	chr1	23520184	23520184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgggccttggcctgccGccagaagagcggggggatgg	5	6	18	12	2	0	2	0	0	0	2	1	3	1	3	5	6	2	0	5	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:23520184G>A	uc001bgn.2	-	1	1039	c.529C>T	c.(529-531)CGG>TGG	p.R177W		NM_000864	NP_000855	P28221	5HT1D_HUMAN	5-hydroxytryptamine (serotonin) receptor 1D	177	Extracellular (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|intestine smooth muscle contraction|synaptic transmission	integral to plasma membrane	serotonin receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000779)|all_lung(284;0.00135)|Breast(348;0.0385)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0561)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;4.69e-27)|Colorectal(126;4.86e-08)|COAD - Colon adenocarcinoma(152;2.86e-06)|GBM - Glioblastoma multiforme(114;0.00012)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(1967;0.00122)|STAD - Stomach adenocarcinoma(196;0.0123)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.083)|LUSC - Lung squamous cell carcinoma(448;0.185)	Almotriptan(DB00918)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Tegaserod(DB01079)|Ziprasidone(DB00246)|Zolmitriptan(DB00315)	TTGGCCTGCCGCCAGAAGAGC	0.597													19	31					0	0	1	0	0		A	23520184	A	A	23520184	3	1	151	1	0	0	0	0	1	0	0	0	7454	1086	38	1	608	1	HTR1D	1	23520184	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	592921	23520184	225730437	70	77235											
HNRNPR	10236	broad.mit.edu	37	chr1	23637458	23637458	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaatcttcatagccgtagTaatctggagggtagccatat	12	12	10	7	1	3	0	1	0	2	0	3	1	3	1	2	2	2	4	2	2	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:23637458T>C	uc001bgr.3	-	11	1550	c.1391A>G	c.(1390-1392)TAC>TGC	p.Y464C	HNRNPR_uc001bgo.2_Missense_Mutation_p.Y74C|HNRNPR_uc001bgp.3_Missense_Mutation_p.Y467C|HNRNPR_uc009vqk.2_Missense_Mutation_p.Y366C|HNRNPR_uc001bgs.3_Missense_Mutation_p.Y363C|HNRNPR_uc010odw.1_Missense_Mutation_p.Y426C|HNRNPR_uc010odx.1_Missense_Mutation_p.Y304C|HNRNPR_uc009vql.2_Missense_Mutation_p.Y325C	NM_005826	NP_005817	O43390	HNRPR_HUMAN	heterogeneous nuclear ribonucleoprotein R	464	3 X 11 AA approximate repeats of D-D-Y-Y- G-Y-D-Y-H-D-Y.|RNA-binding RGG-box.|1; approximate.					catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00394)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;6.83e-27)|Colorectal(126;6.01e-08)|COAD - Colon adenocarcinoma(152;3.32e-06)|GBM - Glioblastoma multiforme(114;6.69e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00357)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0875)|LUSC - Lung squamous cell carcinoma(448;0.19)		ATAGCCGTAGTAATCTGGAGG	0.468													30	116					0	0	1	0	0		C	23637458	C	C	23637458	3	2	151	1	0	0	0	0	1	0	0	0	7288	1638	57	3	514	3	HNRNPR	1	23637458	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	117274	23637458	225613163	71	77236											
TCEB3	6924	broad.mit.edu	37	chr1	24077589	24077589	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacagaatgtcaccaacttActcttcagaccctgagtctt	11	12	5	13	0	5	3	3	1	2	2	5	3	5	3	2	0	2	0	2	0	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:24077589A>G	uc001bho.2	+	4	632	c.572A>G	c.(571-573)TAC>TGC	p.Y191C		NM_003198	NP_003189	Q14241	ELOA1_HUMAN	elongin A	191					positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|viral reproduction	integral to membrane	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.42e-24)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;4.74e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|KIRC - Kidney renal clear cell carcinoma(1967;0.00334)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		TCACCAACTTACTCTTCAGAC	0.483											OREG0013232	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	49	147					0	0	1	0	0		G	24077589	G	G	24077589	3	3	151	1	0	0	0	0	1	0	0	0	15706	391	14	3	586	3	TCEB3	1	24077589	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	440131	24077589	225173032	72	77237											
NIPAL3	57185	broad.mit.edu	37	chr1	24776017	24776017	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcggtttggctgtcgtgggTacctacctgctggtgacatt	4	14	14	9	2	0	1	0	1	0	0	1	1	0	1	2	4	4	4	2	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:24776017T>C	uc001bjh.2	+	6	848	c.441T>C	c.(439-441)GGT>GGC	p.G147G	NIPAL3_uc010oek.1_Silent_p.G147G|NIPAL3_uc001bjg.2_Silent_p.G147G|NIPAL3_uc009vrc.2_Silent_p.G65G	NM_020448	NP_065181	Q6P499	NPAL3_HUMAN	NIPA-like domain containing 3	147	Helical; (Potential).					integral to membrane					0						CTGTCGTGGGTACCTACCTGC	0.557													17	66					0	0	1	0	0		C	24776017	C	C	24776017	2	2	151	1	0	0	0	0	0	0	0	1	10445	1625	57	3		3	NIPAL3	1	24776017	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	698428	24776017	224474604	73	77238											
TMEM50A	23585	broad.mit.edu	37	chr1	25678158	25678158	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaagtccgaggtgatagttAcagtgaaggttgtctgggtc	10	11	14	6	1	1	2	0	2	1	0	3	3	2	2	1	3	1	2	1	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:25678158A>G	uc001bke.2	+	4	398	c.248A>G	c.(247-249)TAC>TGC	p.Y83C	TMEM50A_uc010oeq.1_Missense_Mutation_p.Y83C|TMEM50A_uc009vrr.2_RNA|TMEM50A_uc009vrs.2_RNA	NM_014313	NP_055128	O95807	TM50A_HUMAN	small membrane protein 1	83						endoplasmic reticulum|integral to membrane					0		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;3.47e-27)|Colorectal(126;1.1e-08)|COAD - Colon adenocarcinoma(152;7.48e-07)|STAD - Stomach adenocarcinoma(196;0.00035)|BRCA - Breast invasive adenocarcinoma(304;0.00047)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|GBM - Glioblastoma multiforme(114;0.00106)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.204)		GGTGATAGTTACAGTGAAGGT	0.368													20	95					0	0	1	0	0		G	25678158	G	G	25678158	3	3	151	1	0	0	0	0	1	0	0	0	16200	391	14	3	258	3	TMEM50A	1	25678158	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	902141	25678158	223572463	74	77239											
RHCE	6006	broad.mit.edu	37	chr1	25715467	25715467	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagttgtctagtttcttacCggcaggcacttggctccccc	5	14	9	13	1	2	0	0	0	2	0	3	0	3	0	3	3	1	5	3	3	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:25715467C>T	uc001bkf.2	-	6	1025	c.939G>A	c.(937-939)CCG>CCA	p.P313P	RHCE_uc001bkg.2_Silent_p.P313P|RHCE_uc001bkh.2_Silent_p.P208P|RHCE_uc001bki.2_Intron|RHCE_uc001bkj.2_Silent_p.P297P	NM_020485	NP_065231	P18577	RHCE_HUMAN	Rhesus blood group, CcEe antigens isoform 1	313						integral to plasma membrane					0		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0426)|OV - Ovarian serous cystadenocarcinoma(117;2.12e-27)|Colorectal(126;3.16e-08)|COAD - Colon adenocarcinoma(152;1.72e-06)|STAD - Stomach adenocarcinoma(196;0.00035)|KIRC - Kidney renal clear cell carcinoma(1967;0.000769)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|GBM - Glioblastoma multiforme(114;0.00458)|READ - Rectum adenocarcinoma(331;0.0649)		AGTTTCTTACCGGCAGGCACT	0.592													13	34					0	0	1	0	0		T	25715467	T	T	25715467	2	4	151	1	0	0	0	0	0	0	0	1	13350	666	23	1		1	RHCE	1	25715467	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	37309	25715467	223535154	75	77240											
TMEM57	55219	broad.mit.edu	37	chr1	25775373	25775373	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgttcatccccatacagtgGcttttttttgctgctagcac	6	16	7	12	0	1	0	1	0	0	0	2	0	2	0	2	1	4	5	2	1	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:25775373G>A	uc001bkk.2	+	3	499	c.297G>A	c.(295-297)TGG>TGA	p.W99*	TMEM57_uc009vru.2_Nonsense_Mutation_p.W99*|TMEM57_uc009vrv.2_Intron|TMEM57_uc009vrt.2_RNA	NM_018202	NP_060672	Q8N5G2	MACOI_HUMAN	transmembrane protein 57	99						axon|integral to membrane|neuron projection terminus|nuclear membrane|synapse part					0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00715)|all_lung(284;0.00989)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.201)		UCEC - Uterine corpus endometrioid carcinoma (279;0.042)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-26)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|GBM - Glioblastoma multiforme(114;0.0191)|READ - Rectum adenocarcinoma(331;0.0649)		CCATACAGTGGCTTTTTTTTG	0.343													34	103					0	0	1	0	0		A	25775373	A	A	25775373	4	1	151	1	0	0	0	0	0	1	0	0	16209	1212	42	2	307	2	TMEM57	1	25775373	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	59906	25775373	223475248	76	77241											
TMEM57	55219	broad.mit.edu	37	chr1	25812245	25812245	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaggaagaagttagaagaAgccactgctgcccgggctgt	13	6	14	8	1	0	4	0	0	0	4	0	5	0	5	2	2	3	3	2	2	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:25812245A>G	uc001bkk.2	+	8	1657	c.1455A>G	c.(1453-1455)GAA>GAG	p.E485E	TMEM57_uc009vru.2_Silent_p.E258E|TMEM57_uc009vrv.2_Silent_p.E127E	NM_018202	NP_060672	Q8N5G2	MACOI_HUMAN	transmembrane protein 57	485						axon|integral to membrane|neuron projection terminus|nuclear membrane|synapse part					0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00715)|all_lung(284;0.00989)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.201)		UCEC - Uterine corpus endometrioid carcinoma (279;0.042)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-26)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|GBM - Glioblastoma multiforme(114;0.0191)|READ - Rectum adenocarcinoma(331;0.0649)		AGTTAGAAGAAGCCACTGCTG	0.448													29	86					0	0	1	0	0		G	25812245	G	G	25812245	2	3	151	1	0	0	0	0	0	0	0	1	16209	69	3	3		3	TMEM57	1	25812245	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	36872	25812245	223438376	77	77242											
SEPN1	57190	broad.mit.edu	37	chr1	26135246	26135246	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactggctacctgtccaacaAccgcttctatccaccgccgc	8	8	6	19	3	1	0	0	0	1	0	3	0	3	0	6	1	3	2	6	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:26135246A>G	uc010oer.1	+	7	768	c.713A>G	c.(712-714)AAC>AGC	p.N238S	SEPN1_uc010oes.1_Missense_Mutation_p.N204S	NM_020451	NP_065184	Q9NZV5	SELN_HUMAN	selenoprotein N, 1 isoform 1 precursor	238						endoplasmic reticulum membrane|extracellular region	protein binding			ovary(2)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0421)|OV - Ovarian serous cystadenocarcinoma(117;1.26e-25)|Colorectal(126;3.01e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0143)|READ - Rectum adenocarcinoma(331;0.0649)		CTGTCCAACAACCGCTTCTAT	0.667													9	39					0	0	1	0	0		G	26135246	G	G	26135246	3	3	151	1	0	0	0	0	1	0	0	0	14081	43	2	3	731	3	SEPN1	1	26135246	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	323001	26135246	223115375	78	77243											
SEPN1	57190	broad.mit.edu	37	chr1	26138020	26138020	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggtggacatcggctacatAccccaggtgagcgcacagga	11	5	14	11	2	0	1	0	1	0	0	1	4	0	3	2	5	3	2	2	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:26138020A>G	uc010oer.1	+	10	1141	c.1086A>G	c.(1084-1086)ATA>ATG	p.I362M	SEPN1_uc010oes.1_Missense_Mutation_p.I328M	NM_020451	NP_065184	Q9NZV5	SELN_HUMAN	selenoprotein N, 1 isoform 1 precursor	362						endoplasmic reticulum membrane|extracellular region	protein binding			ovary(2)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0421)|OV - Ovarian serous cystadenocarcinoma(117;1.26e-25)|Colorectal(126;3.01e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0143)|READ - Rectum adenocarcinoma(331;0.0649)		TCGGCTACATACCCCAGGTGA	0.612											OREG0013258	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	168					0	0	1	0	0		G	26138020	G	G	26138020	3	3	151	1	0	0	0	0	1	0	0	0	14081	381	14	3	1116	3	SEPN1	1	26138020	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2774	26138020	223112601	79	77244											
FAM54B	56181	broad.mit.edu	37	chr1	26156176	26156176	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccctgctttgttctgccAgccctgaatgttgcaaacca	7	12	7	15	0	1	1	0	1	1	0	2	1	2	1	5	0	5	4	5	0	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:26156176A>G	uc001bkq.3	+	6	838	c.628A>G	c.(628-630)AGC>GGC	p.S210G	FAM54B_uc001bkr.3_Silent_p.P173P|FAM54B_uc010oet.1_Missense_Mutation_p.S243G|FAM54B_uc009vrz.2_Missense_Mutation_p.S195G|FAM54B_uc001bks.3_Missense_Mutation_p.S210G|FAM54B_uc001bkt.3_Missense_Mutation_p.S210G|FAM54B_uc001bku.3_Silent_p.P170P|FAM54B_uc001bkv.3_Missense_Mutation_p.S113G	NM_001099625	NP_001093095	Q9H019	FA54B_HUMAN	hypothetical protein LOC56181 isoform a	210										pancreas(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;1.96e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.00095)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0649)		TTGTTCTGCCAGCCCTGAATG	0.512													45	161					0	0	1	0	0		G	26156176	G	G	26156176	3	3	151	1	0	0	0	0	1	0	0	0	5597	188	7	3	646	3	FAM54B	1	26156176	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	18156	26156176	223094445	80	77245											
C1orf135	79000	broad.mit.edu	37	chr1	26162053	26162053	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaggaaaaagccagtggggTatgactatctccagcacagt	14	7	12	8	0	1	1	0	1	1	0	2	3	1	2	2	3	2	2	2	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:26162053T>C	uc001bkw.1	-	3	505	c.505A>G	c.(505-507)ACC>GCC	p.T169A		NM_024037	NP_076942	Q9H7T9	CA135_HUMAN	aurora A-binding protein	169											0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00521)|all_lung(284;0.00764)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.117)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0429)|OV - Ovarian serous cystadenocarcinoma(117;3.28e-25)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;1.75e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000787)|BRCA - Breast invasive adenocarcinoma(304;0.00102)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.015)|READ - Rectum adenocarcinoma(331;0.0649)		GCCAGTGGGGTATGACTATCT	0.483													66	286					0	0	1	0	0		C	26162053	C	C	26162053	3	2	151	1	0	0	0	0	1	0	0	0	2002	1638	57	3	572	3	C1orf135	1	26162053	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5877	26162053	223088568	81	77246											
STMN1	3925	broad.mit.edu	37	chr1	26228173	26228173	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagacctcagcttcatgggActggaaaaaaaagtttaata	17	9	8	7	0	2	1	2	0	0	1	2	3	2	3	1	2	1	2	1	2	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:26228173A>G	uc001bkz.2	-	4	551	c.187T>C	c.(187-189)TCC>CCC	p.S63P	STMN1_uc010oev.1_Missense_Mutation_p.S63P|STMN1_uc001bla.2_Missense_Mutation_p.S63P|STMN1_uc001blb.2_Missense_Mutation_p.S63P|STMN1_uc001blc.2_Missense_Mutation_p.S63P	NM_203401	NP_981946	P16949	STMN1_HUMAN	stathmin 1 isoform a	63	Potential.				cell differentiation|intracellular signal transduction|microtubule depolymerization|mitotic spindle organization|nervous system development|response to virus	cytoplasm|microtubule	signal transducer activity|tubulin binding				0		Colorectal(325;3.46e-05)|Lung NSC(340;0.000163)|all_lung(284;0.000234)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000946)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.013)|READ - Rectum adenocarcinoma(331;0.0649)		GCTTCATGGGACTGGAAAAAA	0.294													26	175					0	0	1	0	0		G	26228173	G	G	26228173	3	3	151	1	0	0	0	0	1	0	0	0	15333	289	10	3	421	3	STMN1	1	26228173	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	66120	26228173	223022448	82	77247											
CATSPER4	378807	broad.mit.edu	37	chr1	26517331	26517331	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggaaatcacgaacaaagcGgtaaggatagctctcgcccc	14	5	10	12	3	2	0	1	0	1	0	3	3	2	2	2	3	3	2	2	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:26517331G>A	uc010oez.1	+	1	213	c.213G>A	c.(211-213)GCG>GCA	p.A71A	CATSPER4_uc010oey.1_5'UTR|CATSPER4_uc009vsf.2_RNA	NM_198137	NP_937770	Q7RTX7	CTSR4_HUMAN	cation channel, sperm associated 4	71	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_cancers(24;2.05e-18)|Colorectal(325;0.000147)|Renal(390;0.00211)|all_lung(284;0.00218)|Lung NSC(340;0.00239)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-26)|Colorectal(126;1.34e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|BRCA - Breast invasive adenocarcinoma(304;0.000995)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00878)|READ - Rectum adenocarcinoma(331;0.0649)		CGAACAAAGCGGTAAGGATAG	0.612													4	13					0	0	1	0	0		A	26517331	A	A	26517331	2	1	151	1	0	0	0	0	0	0	0	1	2693	1130	39	1		1	CATSPER4	1	26517331	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	289158	26517331	222733290	83	77248											
CCDC21	64793	broad.mit.edu	37	chr1	26582109	26582109	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcacaagtaaggagttgtAcagagtgttgcctgaggcca	12	8	13	8	0	0	2	0	1	0	1	0	3	0	3	2	2	3	5	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:26582109A>G	uc001bls.1	+	4	787	c.656A>G	c.(655-657)TAC>TGC	p.Y219C	CCDC21_uc001blr.2_Missense_Mutation_p.Y219C|CCDC21_uc010ofa.1_Missense_Mutation_p.Y168C	NM_022778	NP_073615	Q6P2H3	CEP85_HUMAN	coiled-coil domain containing 21	219						centrosome|nucleolus|spindle pole					0		all_cancers(24;7e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.6e-26)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;9.48e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00155)|GBM - Glioblastoma multiforme(114;0.00917)|READ - Rectum adenocarcinoma(331;0.0649)		AAGGAGTTGTACAGAGTGTTG	0.537													36	125					0	0	1	0	0		G	26582109	G	G	26582109	3	3	151	1	0	0	0	0	1	0	0	0	2799	391	14	3	666	3	CCDC21	1	26582109	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	64778	26582109	222668512	84	77249											
LIN28A	79727	broad.mit.edu	37	chr1	26751895	26751895	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaatccatccgtgtcacCggacctggtggagtattctg	7	11	12	11	2	2	0	1	0	1	0	4	3	4	3	4	4	0	1	4	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:26751895C>T	uc001bmj.2	+	3	444	c.330C>T	c.(328-330)ACC>ACT	p.T110T	LIN28A_uc001bmi.1_RNA	NM_024674	NP_078950	Q9H9Z2	LN28A_HUMAN	lin-28 homolog	110	CSD.				miRNA catabolic process|pre-miRNA processing|regulation of transcription, DNA-dependent|RNA 3'-end processing|stem cell maintenance	cytoplasmic mRNA processing body|nucleolus|stress granule	DNA binding|zinc ion binding			central_nervous_system(1)	1						TCCGTGTCACCGGACCTGGTG	0.527													33	138					0	0	1	0	0		T	26751895	T	T	26751895	2	4	151	1	0	0	0	0	0	0	0	1	8822	639	23	1		1	LIN28A	1	26751895	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	169786	26751895	222498726	85	77250											
C1orf172	126695	broad.mit.edu	37	chr1	27278358	27278358	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtggccctcgggtagggatAcacagggatgcctttgagct	7	9	16	9	1	0	1	0	1	0	0	1	3	0	3	2	5	3	2	2	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:27278358A>G	uc001bni.1	-	2	603	c.514T>C	c.(514-516)TAT>CAT	p.Y172H		NM_152365	NP_689578	Q8NAX2	CA172_HUMAN	hypothetical protein LOC126695	172										large_intestine(1)|ovary(1)	2		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.37e-51)|OV - Ovarian serous cystadenocarcinoma(117;2.22e-29)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000272)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)		GGGTAGGGATACACAGGGATG	0.652													7	42					0	0	1	0	0		G	27278358	G	G	27278358	3	3	151	1	0	0	0	0	1	0	0	0	2016	391	14	3	694	3	C1orf172	1	27278358	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	526463	27278358	221972263	86	77251											
WDTC1	23038	broad.mit.edu	37	chr1	27609836	27609836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actctgctttcagcttgctgGcctctggttccgatgaccag	5	13	10	13	1	3	1	1	1	2	0	4	2	4	1	3	2	3	4	3	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:27609836G>A	uc009vst.2	+	5	722	c.187G>A	c.(187-189)GCC>ACC	p.A63T	WDTC1_uc001bno.2_Missense_Mutation_p.A63T|WDTC1_uc001bnp.1_RNA	NM_015023	NP_055838	Q8N5D0	WDTC1_HUMAN	WD and tetratricopeptide repeats 1	63	WD 1.						protein binding			ovary(1)|central_nervous_system(1)	2		all_cancers(24;3.12e-19)|all_epithelial(13;4.18e-18)|Colorectal(325;0.000147)|all_lung(284;0.000366)|Lung NSC(340;0.000548)|Renal(390;0.00211)|Breast(348;0.00257)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0443)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;1.02e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00201)|STAD - Stomach adenocarcinoma(196;0.00321)|READ - Rectum adenocarcinoma(331;0.0476)		CAGCTTGCTGGCCTCTGGTTC	0.517													21	63					0	0	1	0	0		A	27609836	A	A	27609836	3	1	151	1	0	0	0	0	1	0	0	0	17368	1203	42	2	201	2	WDTC1	1	27609836	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	331478	27609836	221640785	87	77252											
WASF2	10163	broad.mit.edu	37	chr1	27744873	27744873	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcaaaaagcttctggtcttGaatggtggaacttctgaagg	11	12	12	6	0	4	2	1	2	3	0	4	3	4	3	0	4	2	1	0	4	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:27744873G>A	uc001bof.1	-	4	532	c.316C>T	c.(316-318)CAA>TAA	p.Q106*	WASF2_uc010ofl.1_Nonsense_Mutation_p.Q106*	NM_006990	NP_008921	Q9Y6W5	WASF2_HUMAN	WAS protein family, member 2	106					actin cytoskeleton organization|G-protein signaling, coupled to cAMP nucleotide second messenger	actin cytoskeleton|lamellipodium	actin binding			skin(2)|ovary(1)	3		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0446)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.7e-08)|COAD - Colon adenocarcinoma(152;2e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00139)|KIRC - Kidney renal clear cell carcinoma(1967;0.00204)|STAD - Stomach adenocarcinoma(196;0.00325)|READ - Rectum adenocarcinoma(331;0.0481)		TTCTGGTCTTGAATGGTGGAA	0.453													20	94					0	0	1	0	0		A	27744873	A	A	27744873	4	1	151	1	0	0	0	0	0	1	0	0	17279	1299	45	4	1204	4	WASF2	1	27744873	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	135037	27744873	221505748	88	77253											
AHDC1	27245	broad.mit.edu	37	chr1	27875206	27875206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggagatgtccaggatcaCgttgggctcgctgacgtggc	6	10	16	9	3	1	2	1	1	0	1	3	4	2	3	1	4	0	4	1	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:27875206C>T	uc009vsy.2	-	6	4390	c.3421G>A	c.(3421-3423)GTG>ATG	p.V1141M	AHDC1_uc009vsz.1_Missense_Mutation_p.V1141M	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	1141							DNA binding			central_nervous_system(1)	1		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		TCCAGGATCACGTTGGGCTCG	0.577													32	124					0	0	1	0	0		T	27875206	T	T	27875206	3	4	151	1	0	0	0	0	1	0	0	0	412	536	19	1	1394	1	AHDC1	1	27875206	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	130333	27875206	221375415	89	77254											
C1orf38	9473	broad.mit.edu	37	chr1	28209163	28209163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccggcgctacagcctggCagatctgactgcccagtttt	7	9	11	14	2	1	2	0	1	1	1	1	2	1	2	3	2	4	3	3	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:28209163C>T	uc001bpc.3	+	4	1356	c.1328C>T	c.(1327-1329)GCA>GTA	p.A443V	C1orf38_uc001boz.2_Intron|C1orf38_uc001bpa.2_Intron|C1orf38_uc010ofn.1_Missense_Mutation_p.A247V|C1orf38_uc010ofo.1_Missense_Mutation_p.A314V	NM_001105556	NP_001099026	Q5TEJ8	THMS2_HUMAN	basement membrane-induced gene isoform 3	443	CABIT 2.				cell adhesion|inflammatory response					ovary(1)	1		Colorectal(325;3.46e-05)|all_lung(284;0.000129)|Lung NSC(340;0.000259)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;2.52e-24)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00244)|KIRC - Kidney renal clear cell carcinoma(1967;0.0027)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0649)		TACAGCCTGGCAGATCTGACT	0.622													17	38					0	0	1	0	0		T	28209163	T	T	28209163	3	4	151	1	0	0	0	0	1	0	0	0	2042	710	25	2	1342	2	C1orf38	1	28209163	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	333957	28209163	221041458	90	77255											
RCC1	1104	broad.mit.edu	37	chr1	28862498	28862498	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgccatctcccatgagggCcacgtgtacggcttcggcct	5	11	11	14	3	1	1	0	1	1	0	3	1	1	1	4	3	2	2	4	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:28862498C>T	uc001bqg.1	+	7	862	c.777C>T	c.(775-777)GGC>GGT	p.G259G	SNHG3-RCC1_uc001bqa.1_Silent_p.G259G|SNHG3-RCC1_uc001bqb.1_Silent_p.G259G|SNHG3-RCC1_uc001bqc.1_Silent_p.G259G|RCC1_uc001bqe.1_Silent_p.G276G|RCC1_uc001bqf.1_Silent_p.G290G	NM_001269	NP_001260	P18754	RCC1_HUMAN	regulator of chromosome condensation 1 isoform	259	RCC1 5.				cell division|chromosome segregation|G1/S transition of mitotic cell cycle|mitosis|mitotic spindle organization|regulation of mitosis|regulation of S phase of mitotic cell cycle|spindle assembly|viral reproduction	condensed nuclear chromosome|cytoplasm|nuclear chromatin|nuclear membrane|nucleoplasm	histone binding|nucleosomal DNA binding|Ran guanyl-nucleotide exchange factor activity			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000318)|all_lung(284;0.000434)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.00989)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)|Medulloblastoma(700;0.123)		Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|KIRC - Kidney renal clear cell carcinoma(1967;0.0101)|BRCA - Breast invasive adenocarcinoma(304;0.022)|READ - Rectum adenocarcinoma(331;0.0649)		CCCATGAGGGCCACGTGTACG	0.507													17	93					0	0	1	0	0		T	28862498	T	T	28862498	2	4	151	1	0	0	0	0	0	0	0	1	13198	726	26	2		2	RCC1	1	28862498	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	653335	28862498	220388123	91	77256											
YTHDF2	51441	broad.mit.edu	37	chr1	29070470	29070470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcacactatgagaaacGccaagaggaagaagaaagtg	17	6	10	8	1	1	4	1	1	1	4	2	6	1	5	1	1	1	0	1	1	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:29070470G>A	uc001brc.2	+	4	2185	c.1688G>A	c.(1687-1689)CGC>CAC	p.R563H	YTHDF2_uc001brd.2_Missense_Mutation_p.R560H|YTHDF2_uc010ofx.1_Missense_Mutation_p.R513H|YTHDF2_uc001bre.2_Missense_Mutation_p.R513H	NM_016258	NP_057342	Q9Y5A9	YTHD2_HUMAN	high glucose-regulated protein 8	563					humoral immune response					ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000601)|all_lung(284;0.000771)|Breast(348;0.00502)|Renal(390;0.00758)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;5.46e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0221)|KIRC - Kidney renal clear cell carcinoma(1967;0.0296)|READ - Rectum adenocarcinoma(331;0.0649)		TATGAGAAACGCCAAGAGGAA	0.398													15	37					0	0	1	0	0		A	29070470	A	A	29070470	3	1	151	1	0	0	0	0	1	0	0	0	17525	1087	38	1	1702	1	YTHDF2	1	29070470	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	207972	29070470	220180151	92	77257											
PTPRU	10076	broad.mit.edu	37	chr1	29642617	29642617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctacaaggagatgatccGcattgatcctcagagtaatt	13	10	8	10	1	1	4	1	2	0	2	3	5	3	4	3	1	1	2	3	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:29642617G>A	uc001bru.2	+	25	3607	c.3497G>A	c.(3496-3498)CGC>CAC	p.R1166H	PTPRU_uc001brv.2_Missense_Mutation_p.R1162H|PTPRU_uc001brw.2_Missense_Mutation_p.R1156H|PTPRU_uc009vtq.2_Missense_Mutation_p.R1162H|PTPRU_uc009vtr.2_Missense_Mutation_p.R1153H	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	1166	Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GAGATGATCCGCATTGATCCT	0.423													22	73					0	0	1	0	0		A	29642617	A	A	29642617	3	1	151	1	0	0	0	0	1	0	0	0	12838	1087	38	1	3617	1	PTPRU	1	29642617	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	572147	29642617	219608004	93	77258											
SDC3	9672	broad.mit.edu	37	chr1	31351566	31351566	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccacgggtctctcgaagtTctcactgcgccagcgctggg	5	9	13	14	4	2	0	1	0	2	0	6	1	3	0	2	2	2	2	2	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:31351566T>G	uc001bse.2	-	2	207	c.160A>C	c.(160-162)AAC>CAC	p.N54H	SDC3_uc001bsd.2_5'UTR	NM_014654	NP_055469	O75056	SDC3_HUMAN	syndecan 3	54	Extracellular (Potential).					integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)|Colorectal(325;0.0466)|all_neural(195;0.0966)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)		STAD - Stomach adenocarcinoma(196;0.0197)|READ - Rectum adenocarcinoma(331;0.0649)		CTCTCGAAGTTCTCACTGCGC	0.637													4	128					0	0	1	0	0		G	31351566	G	G	31351566	3	3	151	1	0	0	0	0	1	0	0	0	13978	1783	62	5	1184	5	SDC3	1	31351566	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1708949	31351566	217899055	94	77259											
PUM1	9698	broad.mit.edu	37	chr1	31532150	31532150	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccccaagctgctcaccatgCtgcctctgaaagaagtagtc	10	8	8	15	0	2	2	1	1	1	1	3	2	2	2	4	0	4	4	4	0	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:31532150C>T	uc001bsi.1	-	2	377	c.264G>A	c.(262-264)CAG>CAA	p.Q88Q	PUM1_uc001bsh.1_Silent_p.Q88Q|PUM1_uc001bsj.1_Silent_p.Q88Q|PUM1_uc010oga.1_Silent_p.Q88Q|PUM1_uc001bsk.1_Silent_p.Q124Q|PUM1_uc010ogb.1_Silent_p.Q124Q	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	88					cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		GCTCACCATGCTGCCTCTGAA	0.542													35	102					0	0	1	0	0		T	31532150	T	T	31532150	2	4	151	1	0	0	0	0	0	0	0	1	12850	796	28	2		2	PUM1	1	31532150	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	180584	31532150	217718471	95	77260											
SERINC2	347735	broad.mit.edu	37	chr1	31899570	31899570	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcgctgatgttcatgtactAcactgagcccagcggctgcc	7	9	12	13	2	1	2	1	2	0	0	1	2	1	2	2	2	5	4	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:31899570A>G	uc010ogh.1	+	6	893	c.692A>G	c.(691-693)TAC>TGC	p.Y231C	SERINC2_uc010ogg.1_Missense_Mutation_p.Y228C|SERINC2_uc001bst.2_Missense_Mutation_p.Y227C|SERINC2_uc001bsu.2_Missense_Mutation_p.Y172C|SERINC2_uc001bsv.2_Missense_Mutation_p.Y172C	NM_178865	NP_849196	Q96SA4	SERC2_HUMAN	tumor differentially expressed 2-like	227						integral to membrane					0		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0629)|Breast(348;0.0707)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0541)|READ - Rectum adenocarcinoma(331;0.151)		TTCATGTACTACACTGAGCCC	0.592													23	143					0	0	1	0	0		G	31899570	G	G	31899570	3	3	151	1	0	0	0	0	1	0	0	0	14105	391	14	3	702	3	SERINC2	1	31899570	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	367420	31899570	217351051	96	77261											
BAI2	576	broad.mit.edu	37	chr1	32221679	32221679	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtggggctgggcccccGggcaccagggcattggacag	6	4	19	12	1	0	0	0	0	0	0	0	1	0	1	3	7	0	4	3	7	0	1	rs139265180		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:32221679G>A	uc001btn.2	-	4	1113	c.759C>T	c.(757-759)CCC>CCT	p.P253P	BAI2_uc010ogp.1_Silent_p.P241P|BAI2_uc010ogq.1_Silent_p.P253P|BAI2_uc001bto.2_Silent_p.P253P|BAI2_uc001btq.1_Silent_p.P241P|BAI2_uc010ogr.1_Silent_p.P241P	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	253	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		CTGGGCCCCCGGGCACCAGGG	0.662													22	74					0	0	1	0	0		A	32221679	A	A	32221679	2	1	151	1	0	0	0	0	0	0	0	1	1300	1103	39	1		1	BAI2	1	32221679	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	322109	32221679	217028942	97	77262											
CCDC28B	79140	broad.mit.edu	37	chr1	32667684	32667684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctgccatcccccaagcagCgggccaagttcaagaggtgg	10	6	12	13	1	2	1	1	0	1	1	3	1	3	1	4	3	3	2	4	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:32667684C>T	uc001bul.1	+	2	280	c.148C>T	c.(148-150)CGG>TGG	p.R50W	CCDC28B_uc001buk.2_Missense_Mutation_p.R50W	NM_024296	NP_077272	Q9BUN5	CC28B_HUMAN	coiled-coil domain containing 28B	50											0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				CCCCAAGCAGCGGGCCAAGTT	0.637													11	46					0	0	1	0	0		T	32667684	T	T	32667684	3	4	151	1	0	0	0	0	1	0	0	0	2806	759	27	1	150	1	CCDC28B	1	32667684	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	446005	32667684	216582937	98	77263											
IQCC	55721	broad.mit.edu	37	chr1	32673020	32673020	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctagaacaggaggatgaCtcctgtcacagggtcaaatc	13	7	12	9	0	2	2	2	1	0	1	4	5	3	4	1	3	2	1	1	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:32673020C>T	uc001bum.2	+	5	785	c.738C>T	c.(736-738)GAC>GAT	p.D246D	IQCC_uc009vua.2_Silent_p.D326D|IQCC_uc010ogz.1_Silent_p.D146D|DCDC2B_uc001bun.2_5'Flank	NM_018134	NP_060604	Q4KMZ1	IQCC_HUMAN	IQ motif containing C isoform 2	246										ovary(4)	4		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				AGGAGGATGACTCCTGTCACA	0.542													19	41					0	0	1	0	0		T	32673020	T	T	32673020	2	4	151	1	0	0	0	0	0	0	0	1	7820	564	20	4		4	IQCC	1	32673020	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5336	32673020	216577601	99	77264											
EIF3I	8668	broad.mit.edu	37	chr1	32694367	32694367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaacatcagaagactttcCggacagaacgtcctgtcaac	13	9	8	11	2	2	4	2	1	0	3	4	5	4	5	2	1	3	0	2	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:32694367C>T	uc001bur.3	+	9	1212	c.679C>T	c.(679-681)CGG>TGG	p.R227W	EIF3I_uc009vuc.2_Missense_Mutation_p.R227W|EIF3I_uc001bus.2_Missense_Mutation_p.R179W	NM_003757	NP_003748	Q13347	EIF3I_HUMAN	eukaryotic translation initiation factor 3,	227						cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)				GAAGACTTTCCGGACAGAACG	0.537													137	404					0	0	1	0	0		T	32694367	T	T	32694367	3	4	151	1	0	0	0	0	1	0	0	0	5027	643	23	1	709	1	EIF3I	1	32694367	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	21347	32694367	216556254	100	77265											
HDAC1	3065	broad.mit.edu	37	chr1	32796452	32796452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggttacaccattcgtaacGttgcccggtgctggacatat	8	12	11	10	3	0	0	0	0	0	0	1	1	0	1	2	3	4	4	2	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:32796452G>A	uc001bvb.1	+	9	985	c.922G>A	c.(922-924)GTT>ATT	p.V308I	HDAC1_uc010ohf.1_Missense_Mutation_p.V279I|HDAC1_uc001bvc.1_Missense_Mutation_p.V64I	NM_004964	NP_004955	Q13547	HDAC1_HUMAN	histone deacetylase 1	308	Histone deacetylase.				anti-apoptosis|blood coagulation|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|histone H3 deacetylation|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of androgen receptor signaling pathway|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytosol|NuRD complex|Sin3 complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|identical protein binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|RNA polymerase II transcription corepressor activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|breast(1)	3		Breast(348;0.000523)|Lung NSC(340;0.000992)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Lung SC(1967;0.113)		KIRC - Kidney renal clear cell carcinoma(1967;0.138)	Vorinostat(DB02546)	CATTCGTAACGTTGCCCGGTG	0.562													18	70					0	0	1	0	0		A	32796452	A	A	32796452	3	1	151	1	0	0	0	0	1	0	0	0	7020	1145	40	1	956	1	HDAC1	1	32796452	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	102085	32796452	216454169	101	77266											
BSDC1	55108	broad.mit.edu	37	chr1	32842196	32842196	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactgctctctgatggagTcacctctgctgggggctcaa	6	11	11	13	0	5	1	3	1	2	0	6	2	5	2	1	3	2	3	1	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:32842196T>C	uc001bvh.3	-	9	870	c.823A>G	c.(823-825)ACT>GCT	p.T275A	BSDC1_uc010ohg.1_Missense_Mutation_p.T292A|BSDC1_uc010ohh.1_Missense_Mutation_p.T219A|BSDC1_uc010ohi.1_Missense_Mutation_p.T180A|BSDC1_uc001bvg.3_RNA|BSDC1_uc001bvj.2_Missense_Mutation_p.T171A|BSDC1_uc001bvi.2_Missense_Mutation_p.T292A	NM_018045	NP_060515	Q9NW68	BSDC1_HUMAN	BSD domain containing 1 isoform b	275							protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				TCTGATGGAGTCACCTCTGCT	0.567													44	168					0	0	1	0	0		C	32842196	C	C	32842196	3	2	151	1	0	0	0	0	1	0	0	0	1531	1667	58	3	481	3	BSDC1	1	32842196	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	45744	32842196	216408425	102	77267											
RBBP4	5928	broad.mit.edu	37	chr1	33117607	33117607	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttatgatttggtgatgAcccatgctctggagtggccc	6	15	11	9	0	2	3	0	3	2	0	2	4	2	4	2	3	1	1	2	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:33117607A>G	uc001bvr.2	+	2	268	c.109A>G	c.(109-111)ACC>GCC	p.T37A	ZBTB8OS_uc001bvo.1_5'Flank|ZBTB8OS_uc001bvp.2_5'Flank|ZBTB8OS_uc001bvq.2_5'Flank|RBBP4_uc001bvs.2_Missense_Mutation_p.T36A|RBBP4_uc010ohj.1_5'UTR|RBBP4_uc010ohk.1_Missense_Mutation_p.T2A	NM_005610	NP_005601	Q09028	RBBP4_HUMAN	retinoblastoma binding protein 4 isoform a	37					cell cycle|CenH3-containing nucleosome assembly at centromere|DNA replication|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|ESC/E(Z) complex|NuRD complex|NURF complex|Sin3 complex	histone binding|histone deacetylase binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				TTTGGTGATGACCCATGCTCT	0.448													32	111					0	0	1	0	0		G	33117607	G	G	33117607	3	3	151	1	0	0	0	0	1	0	0	0	13126	275	10	3	115	3	RBBP4	1	33117607	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	275411	33117607	216133014	103	77268											
RNF19B	127544	broad.mit.edu	37	chr1	33415365	33415365	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggcacagccataggcaaTaacagcataactaggtaagg	15	6	11	9	0	0	0	0	0	0	0	0	0	0	0	1	4	4	5	1	4	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:33415365T>C	uc010oho.1	-	2	646	c.646A>G	c.(646-648)ATT>GTT	p.I216V	RNF19B_uc001bwm.3_Missense_Mutation_p.I216V|RNF19B_uc010ohp.1_Missense_Mutation_p.I216V	NM_153341	NP_699172	Q6ZMZ0	RN19B_HUMAN	ring finger protein 19B isoform a	216	IBR-type.					integral to membrane	ligase activity|protein binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CCATAGGCAATAACAGCATAA	0.433													9	38					0	0	1	0	0		C	33415365	C	C	33415365	3	2	151	1	0	0	0	0	1	0	0	0	13496	1406	49	3	1610	3	RNF19B	1	33415365	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	297758	33415365	215835256	104	77269											
ZSCAN20	7579	broad.mit.edu	37	chr1	33956657	33956657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaaaccaagtaatacctccGagaaagagcaaggaccagag	19	3	9	10	1	0	3	0	0	0	3	1	5	1	4	4	1	3	2	4	1	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:33956657G>A	uc001bxj.3	+	6	966	c.799G>A	c.(799-801)GAG>AAG	p.E267K	ZSCAN20_uc001bxk.2_Missense_Mutation_p.E213K|ZSCAN20_uc009vui.2_Missense_Mutation_p.E267K	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	267					viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				TAATACCTCCGAGAAAGAGCA	0.438													21	76					0	0	1	0	0		A	33956657	A	A	33956657	3	1	151	1	0	0	0	0	1	0	0	0	18257	1059	37	1	817	1	ZSCAN20	1	33956657	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	541292	33956657	215293964	105	77270											
ZSCAN20	7579	broad.mit.edu	37	chr1	33956724	33956724	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaaaaggagcactgcagAttacagcctggataatgagc	14	7	13	7	0	0	2	0	1	0	1	0	5	0	5	1	3	5	2	1	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:33956724A>T	uc001bxj.3	+	6	1033	c.866A>T	c.(865-867)GAT>GTT	p.D289V	ZSCAN20_uc001bxk.2_Missense_Mutation_p.D235V|ZSCAN20_uc009vui.2_Missense_Mutation_p.D289V	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	289					viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AGCACTGCAGATTACAGCCTG	0.478													12	104					0	0	1	0	0		T	33956724	T	T	33956724	3	4	151	1	0	0	0	0	1	0	0	0	18257	333	12	5	884	5	ZSCAN20	1	33956724	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	67	33956724	215293897	106	77271											
ZSCAN20	7579	broad.mit.edu	37	chr1	33960491	33960491	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctacagaagagacagcTcctgaacaacctcaaagtat	17	8	6	10	0	2	3	1	1	1	2	3	4	3	3	2	0	4	2	2	0	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:33960491T>C	uc001bxj.3	+	8	2714	c.2547T>C	c.(2545-2547)GCT>GCC	p.A849A	ZSCAN20_uc009vui.2_Silent_p.A848A	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	849					viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AAGAGACAGCTCCTGAACAAC	0.463													90	299					0	0	1	0	0		C	33960491	C	C	33960491	2	2	151	1	0	0	0	0	0	0	0	1	18257	1538	54	3		3	ZSCAN20	1	33960491	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3767	33960491	215290130	107	77272											
CSMD2	114784	broad.mit.edu	37	chr1	34383804	34383804	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagctcagccaggatggTccatgtgcagtcggcattgt	7	9	12	13	1	1	0	1	0	0	0	3	1	2	1	4	3	3	3	4	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:34383804T>C	uc001bxn.1	-	5	720	c.691A>G	c.(691-693)ACC>GCC	p.T231A	CSMD2_uc001bxm.1_Missense_Mutation_p.T271A	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	231	CUB 2.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GCCAGGATGGTCCATGTGCAG	0.582													10	65					0	0	1	0	0		C	34383804	C	C	34383804	3	2	151	1	0	0	0	0	1	0	0	0	3948	1667	58	3	10032	3	CSMD2	1	34383804	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	423313	34383804	214866817	108	77273											
CSMD2	114784	broad.mit.edu	37	chr1	34383824	34383824	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatgtgcagtcggcattgTtatggtactccgaggggaag	8	11	14	8	2	0	0	0	0	0	0	3	2	2	1	2	4	2	4	2	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:34383824T>C	uc001bxn.1	-	5	700	c.671A>G	c.(670-672)AAC>AGC	p.N224S	CSMD2_uc001bxm.1_Missense_Mutation_p.N264S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	224	CUB 2.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GTCGGCATTGTTATGGTACTC	0.582													10	69					0	0	1	0	0		C	34383824	C	C	34383824	3	2	151	1	0	0	0	0	1	0	0	0	3948	1725	60	3	10052	3	CSMD2	1	34383824	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	20	34383824	214866797	109	77274											
GJB4	127534	broad.mit.edu	37	chr1	35226975	35226975	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgtacgtggtggcagcGgaggaggtgtgggacgatga	7	8	21	5	3	0	1	0	1	0	0	0	5	0	4	0	7	2	2	0	7	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:35226975G>T	uc001bxv.1	+	2	490	c.120G>T	c.(118-120)GCG>GCT	p.A40A	GJB4_uc001bxw.3_Silent_p.A40A	NM_153212	NP_694944	Q9NTQ9	CXB4_HUMAN	gap junction protein, beta 4	40	Helical; (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity			ovary(2)|central_nervous_system(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				TGGTGGCAGCGGAGGAGGTGT	0.592													7	30					0.00198382	0.00199816	1	1	0		T	35226975	T	T	35226975	2	4	151	1	0	0	0	0	0	0	0	1	6425	1103	39	5		5	GJB4	1	35226975	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	843151	35226975	214023646	110	77275											
GJB3	2707	broad.mit.edu	37	chr1	35250706	35250706	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacggggaccagtgcgccAagctgtacgacaacgcaggc	12	3	13	13	4	0	0	0	0	0	0	0	2	0	1	2	3	5	3	2	3	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:35250706A>G	uc001bxx.2	+	2	958	c.343A>G	c.(343-345)AAG>GAG	p.K115E	GJB3_uc001bxy.2_Missense_Mutation_p.K115E|GJB3_uc001bxz.3_Missense_Mutation_p.K115E|uc010ohs.1_RNA	NM_024009	NP_076872	O75712	CXB3_HUMAN	connexin 31	115	Cytoplasmic (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				CCAGTGCGCCAAGCTGTACGA	0.602													10	105					0	0	1	0	0		G	35250706	G	G	35250706	3	3	151	1	0	0	0	0	1	0	0	0	6424	131	5	3	345	3	GJB3	1	35250706	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	23731	35250706	213999915	111	77276											
GJA4	2701	broad.mit.edu	37	chr1	35260075	35260075	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttcctcttcgtcagcacAcccaccctggtctacctggg	6	10	8	17	1	3	0	1	0	2	0	5	0	4	0	4	2	2	2	4	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:35260075A>G	uc001bya.2	+	2	349	c.261A>G	c.(259-261)ACA>ACG	p.T87T	GJA4_uc009vul.2_Silent_p.T163T|GJA4_uc009vum.1_Silent_p.T87T	NM_002060	NP_002051	P35212	CXA4_HUMAN	connexin 37	87	Helical; (Potential).				cell-cell junction assembly	integral to plasma membrane				central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				TCGTCAGCACACCCACCCTGG	0.637													15	56					0	0	1	0	0		G	35260075	G	G	35260075	2	3	151	1	0	0	0	0	0	0	0	1	6418	146	6	3		3	GJA4	1	35260075	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	9369	35260075	213990546	112	77277											
ZMYM4	9202	broad.mit.edu	37	chr1	35864507	35864507	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatcttgaatcagaggcagTatctactccacatagctggg	11	11	10	9	0	3	3	1	2	2	1	4	3	4	3	1	2	2	3	1	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:35864507T>C	uc001byt.2	+	22	3376	c.3296T>C	c.(3295-3297)GTA>GCA	p.V1099A	ZMYM4_uc009vuu.2_Missense_Mutation_p.V1067A|ZMYM4_uc001byu.2_Missense_Mutation_p.V775A|ZMYM4_uc009vuv.2_Missense_Mutation_p.V838A	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	1099					multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TCAGAGGCAGTATCTACTCCA	0.403													37	138					0	0	1	0	0		C	35864507	C	C	35864507	3	2	151	1	0	0	0	0	1	0	0	0	17727	1638	57	3	3382	3	ZMYM4	1	35864507	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	604432	35864507	213386114	113	77278											
CLSPN	63967	broad.mit.edu	37	chr1	36202565	36202565	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccttgacaggagaaagtgTatgaaagacaaagtttcttg	15	10	11	5	0	1	4	0	2	1	2	1	5	1	4	1	1	1	2	1	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:36202565T>C	uc001bzi.2	-	24	3939	c.3859A>G	c.(3859-3861)ACA>GCA	p.T1287A	CLSPN_uc009vux.2_Missense_Mutation_p.T1223A	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	1287					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GGAGAAAGTGTATGAAAGACA	0.448													33	129					0	0	1	0	0		C	36202565	C	C	36202565	3	2	151	1	0	0	0	0	1	0	0	0	3563	1638	57	3	168	3	CLSPN	1	36202565	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	338058	36202565	213048056	114	77279											
EIF2C1	26523	broad.mit.edu	37	chr1	36358271	36358271	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacagcactgcccattggcaAcgaacgggtaaggttgggag	11	6	14	10	2	0	0	0	0	0	0	0	2	0	1	1	4	4	4	1	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:36358271A>G	uc001bzl.2	+	3	536	c.323A>G	c.(322-324)AAC>AGC	p.N108S	EIF2C1_uc001bzk.2_Missense_Mutation_p.N33S|EIF2C1_uc009vuy.2_5'Flank	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	108					negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CCCATTGGCAACGAACGGGTA	0.493													19	71					0	0	1	0	0		G	36358271	G	G	36358271	3	3	151	1	0	0	0	0	1	0	0	0	5011	43	2	3	333	3	EIF2C1	1	36358271	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	155706	36358271	212892350	115	77280											
EIF2C1	26523	broad.mit.edu	37	chr1	36367936	36367936	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagtgtcgagaagaggtgctCaagtaaggagggttcgctgt	10	9	16	6	2	1	2	1	0	0	2	3	4	1	3	0	3	1	4	0	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:36367936C>T	uc001bzl.2	+	11	1608	c.1395C>T	c.(1393-1395)CTC>CTT	p.L465L	EIF2C1_uc001bzk.2_Silent_p.L390L|EIF2C1_uc009vuy.2_Intron	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	465					negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				AAGAGGTGCTCAAGTAAGGAG	0.542													14	47					0	0	1	0	0		T	36367936	T	T	36367936	2	4	151	1	0	0	0	0	0	0	0	1	5011	813	29	4		4	EIF2C1	1	36367936	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	9665	36367936	212882685	116	77281											
ADPRHL2	54936	broad.mit.edu	37	chr1	36557305	36557305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctcctgaaccccaaatGtcgcgatgtctttgagcctg	9	10	10	12	2	1	2	0	2	1	0	3	4	2	2	4	0	3	1	4	0	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:36557305G>A	uc001bzt.2	+	3	448	c.395G>A	c.(394-396)TGT>TAT	p.C132Y	ADPRHL2_uc001bzu.2_5'UTR	NM_017825	NP_060295	Q9NX46	ARHL2_HUMAN	ADP-ribosylhydrolase like 2	132						cytoplasm|nucleus	metal ion binding|poly(ADP-ribose) glycohydrolase activity			pancreas(1)	1		Myeloproliferative disorder(586;0.0393)				AACCCCAAATGTCGCGATGTC	0.552													10	100					0	0	1	0	0		A	36557305	A	A	36557305	3	1	151	1	0	0	0	0	1	0	0	0	333	1377	48	4	405	4	ADPRHL2	1	36557305	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	189369	36557305	212693316	117	77282											
TRAPPC3	27095	broad.mit.edu	37	chr1	36602838	36602838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaagattgtcctcaatcCgcctgatgaatctcatccgg	9	11	9	12	2	2	3	2	2	1	1	6	4	5	4	4	2	0	0	4	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:36602838C>T	uc001bzx.2	-	5	597	c.509G>A	c.(508-510)CGG>CAG	p.R170Q	TRAPPC3_uc001bzy.2_Missense_Mutation_p.R124Q	NM_014408	NP_055223	O43617	TPPC3_HUMAN	trafficking protein particle complex 3	170						endoplasmic reticulum	guanylate cyclase activity|heme binding			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0393)				GTCCTCAATCCGCCTGATGAA	0.547													36	106					0	0	1	0	0		T	36602838	T	T	36602838	3	4	151	1	0	0	0	0	1	0	0	0	16486	652	23	1	37	1	TRAPPC3	1	36602838	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	45533	36602838	212647783	118	77283											
MAP7D1	55700	broad.mit.edu	37	chr1	36645665	36645665	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgcagtccccgcaggtcAcaggtagatctcctgattcc	7	10	11	13	1	2	2	1	1	1	1	5	2	4	2	4	3	1	3	4	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:36645665A>G	uc001bzz.2	+	16	2728	c.2512A>G	c.(2512-2514)ACA>GCA	p.T838A	MAP7D1_uc001caa.2_Missense_Mutation_p.T805A|MAP7D1_uc001cab.2_Missense_Mutation_p.T800A|MAP7D1_uc001cac.2_Missense_Mutation_p.T537A|MAP7D1_uc001cad.2_Missense_Mutation_p.T374A	NM_018067	NP_060537	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	838						cytoplasm|spindle				ovary(3)|breast(2)	5		Myeloproliferative disorder(586;0.0393)				CCCGCAGGTCACAGGTAGATC	0.592													9	50					0	0	1	0	0		G	36645665	G	G	36645665	3	3	151	1	0	0	0	0	1	0	0	0	9285	159	6	3	2574	3	MAP7D1	1	36645665	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	42827	36645665	212604956	119	77284											
CSF3R	1441	broad.mit.edu	37	chr1	36940985	36940985	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaggacttacagcctgcGcgcagctcaacctggtccag	9	7	12	13	2	1	0	1	0	0	0	2	2	2	2	3	3	5	2	3	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:36940985G>A	uc001caw.1	-	4	532	c.354C>T	c.(352-354)CGC>CGT	p.R118R	CSF3R_uc001cau.1_5'Flank|CSF3R_uc001cav.1_Silent_p.R118R|CSF3R_uc001cax.1_Silent_p.R118R|CSF3R_uc001cay.1_Silent_p.R118R	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	118	Extracellular (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	TACAGCCTGCGCGCAGCTCAA	0.488													23	65					0	0	1	0	0		A	36940985	A	A	36940985	2	1	151	1	0	0	0	0	0	0	0	1	3940	1074	38	1		1	CSF3R	1	36940985	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	295320	36940985	212309636	120	77285											
GRIK3	2899	broad.mit.edu	37	chr1	37319265	37319265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtccagatcaaaatccGtccgcaagccactagttttg	11	11	8	11	2	1	2	1	1	0	1	4	2	4	2	4	0	1	2	4	0	4	3	rs142974275	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:37319265G>A	uc001caz.2	-	8	1298	c.1163C>T	c.(1162-1164)ACG>ATG	p.T388M	GRIK3_uc001cba.1_Missense_Mutation_p.T388M	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	388	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	ATCAAAATCCGTCCGCAAGCC	0.547													16	40					0	0	1	0	0		A	37319265	A	A	37319265	3	1	151	1	0	0	0	0	1	0	0	0	6791	1145	40	1	1632	1	GRIK3	1	37319265	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	378280	37319265	211931356	121	77286											
SNIP1	79753	broad.mit.edu	37	chr1	38005863	38005863	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgcactctgtcgatgtatgTacatgactggaagcacctca	11	10	9	11	2	2	1	1	1	1	0	3	3	2	2	1	1	2	4	1	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:38005863T>C	uc001cbi.2	-	3	894	c.821A>G	c.(820-822)TAC>TGC	p.Y274C	SNIP1_uc010oid.1_RNA	NM_024700	NP_078976	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein	274					production of miRNAs involved in gene silencing by miRNA	nucleus	protein binding			upper_aerodigestive_tract(1)|lung(1)	2		Myeloproliferative disorder(586;0.0393)				TCGATGTATGTACATGACTGG	0.478													37	120					0	0	1	0	0		C	38005863	C	C	38005863	3	2	151	1	0	0	0	0	1	0	0	0	14873	1638	57	3	377	3	SNIP1	1	38005863	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	686598	38005863	211244758	122	77287											
GNL2	29889	broad.mit.edu	37	chr1	38056365	38056365	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttgctttgcttcatgacaActttgtatggatccttcata	9	17	6	9	0	2	1	2	1	0	0	3	2	3	2	1	1	3	3	1	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:38056365A>G	uc001cbk.2	-	4	489	c.326T>C	c.(325-327)GTT>GCT	p.V109A	GNL2_uc010oif.1_5'UTR|GNL2_uc009vve.2_Missense_Mutation_p.V109A	NM_013285	NP_037417	Q13823	NOG2_HUMAN	guanine nucleotide binding protein-like 2	109					ribosome biogenesis	nucleolus	GTP binding|GTPase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)				CTTCATGACAACTTTGTATGG	0.383													25	89					0	0	1	0	0		G	38056365	G	G	38056365	3	3	151	1	0	0	0	0	1	0	0	0	6551	43	2	3	1921	3	GNL2	1	38056365	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	50502	38056365	211194256	123	77288											
POU3F1	5453	broad.mit.edu	37	chr1	38511620	38511620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaaagcccagcttgatgcGccgctgcttgaactgcttgg	7	10	12	12	3	0	2	0	2	0	0	0	2	0	2	2	1	6	5	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:38511620G>A	uc001ccp.1	-	1	831	c.796C>T	c.(796-798)CGC>TGC	p.R266C		NM_002699	NP_002690	Q03052	PO3F1_HUMAN	POU domain, class 3, transcription factor 1	266	POU-specific.				positive regulation of transcription, DNA-dependent		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				AGCTTGATGCGCCGCTGCTTG	0.592													8	44					0	0	1	0	0		A	38511620	A	A	38511620	3	1	151	1	0	0	0	0	1	0	0	0	12293	1087	38	1	563	1	POU3F1	1	38511620	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	455255	38511620	210739001	124	77289											
MACF1	23499	broad.mit.edu	37	chr1	39765930	39765930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagttccgttgccagtctcGttgggagatcaaaaaccatc	11	10	10	10	2	2	2	1	0	1	2	5	3	3	2	3	1	2	3	3	1	2	3	rs140369443	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:39765930G>A	uc010ois.1	+	23	2750	c.2545G>A	c.(2545-2547)GTT>ATT	p.V849I	MACF1_uc001cda.1_Missense_Mutation_p.V757I|MACF1_uc001cdc.1_5'UTR|MACF1_uc009vvq.1_5'UTR|MACF1_uc001cdb.1_5'UTR	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	849					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TGCCAGTCTCGTTGGGAGATC	0.428													43	174					0	0	1	0	0		A	39765930	A	A	39765930	3	1	151	1	0	0	0	0	1	0	0	0	9162	1145	40	1	2627	1	MACF1	1	39765930	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1254310	39765930	209484691	125	77290											
MACF1	23499	broad.mit.edu	37	chr1	39920622	39920622	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccagcagcgtcttgaaacGgccttgtcagaactggtggc	9	8	12	12	2	2	2	1	1	1	1	2	2	2	2	2	3	4	1	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:39920622G>A	uc010oiu.1	+	54	16388	c.16257G>A	c.(16255-16257)ACG>ACA	p.T5419T	MACF1_uc010ois.1_Silent_p.T4917T	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	6875					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GTCTTGAAACGGCCTTGTCAG	0.532													14	77					0	0	1	0	0		A	39920622	A	A	39920622	2	1	151	1	0	0	0	0	0	0	0	1	9162	1103	39	1		1	MACF1	1	39920622	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	154692	39920622	209329999	126	77291											
MACF1	23499	broad.mit.edu	37	chr1	39950380	39950380	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcttccccggcctccacAggtgccaaaactaatcgggc	9	8	9	15	2	1	0	0	0	1	0	4	0	3	0	5	3	2	1	5	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:39950380A>G	uc010oiu.1	+	63	17669	c.17538A>G	c.(17536-17538)ACA>ACG	p.T5846T	MACF1_uc010ois.1_Silent_p.T5338T|MACF1_uc001cde.1_Silent_p.T252T|MACF1_uc001cdf.1_Silent_p.T221T|MACF1_uc001cdg.2_Silent_p.T166T|MACF1_uc001cdh.2_Silent_p.T129T	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7296	Ser-rich.|C-terminal tail (By similarity).				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CGGCCTCCACAGGTGCCAAAA	0.498													30	144					0	0	1	0	0		G	39950380	G	G	39950380	2	3	151	1	0	0	0	0	0	0	0	1	9162	175	7	3		3	MACF1	1	39950380	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	29758	39950380	209300241	127	77292											
PABPC4	8761	broad.mit.edu	37	chr1	40029377	40029377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagcagcagcaacagcaGcgcgtggcgctaagttctgc	10	5	14	12	3	1	0	0	0	1	0	1	1	1	0	0	1	8	7	0	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:40029377G>A	uc010oiv.1	-	12	2427	c.1529C>T	c.(1528-1530)GCT>GTT	p.A510V	PABPC4_uc001cdl.2_Missense_Mutation_p.A526V|PABPC4_uc001cdm.2_Missense_Mutation_p.A497V	NM_003819	NP_003810	Q13310	PABP4_HUMAN	poly A binding protein, cytoplasmic 4 isoform 2	510	Poly-Ala.				blood coagulation|RNA catabolic process|RNA processing|translation	cytoplasm|ribonucleoprotein complex	nucleotide binding|poly(A) RNA binding|poly(U) RNA binding|protein binding				0	Lung NSC(20;1.55e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.89e-18)|Epithelial(16;6.17e-17)|all cancers(16;1.18e-15)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			AGCAACAGCAGCGCGTGGCGC	0.567													9	64					0	0	1	0	0		A	40029377	A	A	40029377	3	1	151	1	0	0	0	0	1	0	0	0	11385	971	34	2	421	2	PABPC4	1	40029377	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	78997	40029377	209221244	128	77293											
PABPC4	8761	broad.mit.edu	37	chr1	40038101	40038101	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttccaaaagcagaaaaagtAtcataaagtgccttgttatc	16	12	6	7	0	1	1	1	0	0	1	3	1	2	1	2	0	2	3	2	0	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:40038101A>G	uc010oiv.1	-	2	1249	c.351T>C	c.(349-351)GAT>GAC	p.D117D	PABPC4_uc001cdl.2_Silent_p.D117D|PABPC4_uc001cdm.2_Silent_p.D117D	NM_003819	NP_003810	Q13310	PABP4_HUMAN	poly A binding protein, cytoplasmic 4 isoform 2	117	RRM 2.				blood coagulation|RNA catabolic process|RNA processing|translation	cytoplasm|ribonucleoprotein complex	nucleotide binding|poly(A) RNA binding|poly(U) RNA binding|protein binding				0	Lung NSC(20;1.55e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.89e-18)|Epithelial(16;6.17e-17)|all cancers(16;1.18e-15)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CAGAAAAAGTATCATAAAGTG	0.348													24	130					0	0	1	0	0		G	40038101	G	G	40038101	2	3	151	1	0	0	0	0	0	0	0	1	11385	446	16	3		3	PABPC4	1	40038101	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	8724	40038101	209212520	129	77294											
RLF	6018	broad.mit.edu	37	chr1	40661362	40661362	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctacaaatattggttcatgTtaccaaggaaggggtgtgga	12	11	12	6	0	1	0	1	0	0	0	1	2	1	2	2	5	2	2	2	5	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:40661362T>C	uc001cfc.3	+	4	564	c.533T>C	c.(532-534)GTT>GCT	p.V178A		NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	178					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			TTGGTTCATGTTACCAAGGAA	0.368													14	64					0	0	1	0	0		C	40661362	C	C	40661362	3	2	151	1	0	0	0	0	1	0	0	0	13414	1725	60	3	547	3	RLF	1	40661362	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	623261	40661362	208589259	130	77295											
ZNF684	127396	broad.mit.edu	37	chr1	41012267	41012267	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttgttgatgaaccagggaAgcatcgggaaagcaaagaca	16	6	12	7	1	0	3	0	2	0	1	1	5	0	5	1	2	3	3	1	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:41012267A>C	uc001cft.1	+	5	523	c.272A>C	c.(271-273)AAG>ACG	p.K91T		NM_152373	NP_689586	Q5T5D7	ZN684_HUMAN	zinc finger protein 684	91					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;5.42e-18)			GAACCAGGGAAGCATCGGGAA	0.358													17	103					0	0	1	0	0		C	41012267	C	C	41012267	3	2	151	1	0	0	0	0	1	0	0	0	18116	72	3	5	286	5	ZNF684	1	41012267	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	350905	41012267	208238354	131	77296											
SLFNL1	200172	broad.mit.edu	37	chr1	41486096	41486096	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacttcaatgtgctcccgCgccaccggcatctccagccg	7	7	8	19	4	2	0	1	0	1	0	4	0	3	0	6	1	2	2	6	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:41486096C>T	uc001cgm.1	-	2	457	c.237G>A	c.(235-237)GCG>GCA	p.A79A	SLFNL1_uc009vwf.1_Silent_p.A79A|SLFNL1_uc001cgn.1_Silent_p.A79A|SLFNL1_uc009vwg.1_Silent_p.A79A	NM_144990	NP_659427	Q499Z3	SLNL1_HUMAN	schlafen-like 1	79							ATP binding			skin(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0393)				TGTGCTCCCGCGCCACCGGCA	0.667													13	52					0	0	1	0	0		T	41486096	T	T	41486096	2	4	151	1	0	0	0	0	0	0	0	1	14763	755	27	1		1	SLFNL1	1	41486096	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	473829	41486096	207764525	132	77297											
C1orf210	149466	broad.mit.edu	37	chr1	43748598	43748598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgtctcaggcagtgggCggtgccggtagctggcatgg	4	10	17	10	2	1	0	1	0	1	0	3	0	2	0	2	6	2	4	2	6	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:43748598C>T	uc001cit.3	-	3	434	c.200G>A	c.(199-201)CGC>CAC	p.R67H		NM_182517	NP_872323	Q8IVY1	CA210_HUMAN	hypothetical protein LOC149466	67	Cytoplasmic (Potential).					integral to membrane					0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				AGGCAGTGGGCGGTGCCGGTA	0.597													12	54					0	0	1	0	0		T	43748598	T	T	43748598	3	4	151	1	0	0	0	0	1	0	0	0	2032	768	27	1	145	1	C1orf210	1	43748598	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2262502	43748598	205502023	133	77298											
TIE1	7075	broad.mit.edu	37	chr1	43773195	43773195	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttctgcctcccagaccccTatggctgctcttgtggatct	4	13	8	16	0	3	1	0	0	3	1	4	2	4	2	5	2	2	2	5	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:43773195T>C	uc001ciu.2	+	6	944	c.865T>C	c.(865-867)TAT>CAT	p.Y289H	TIE1_uc010okd.1_Missense_Mutation_p.Y289H|TIE1_uc010oke.1_Missense_Mutation_p.Y244H|TIE1_uc009vwq.2_Missense_Mutation_p.Y245H|TIE1_uc010okf.1_5'UTR|TIE1_uc010okg.1_5'UTR|TIE1_uc010okc.1_Missense_Mutation_p.Y289H	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	289	Extracellular (Potential).|EGF-like 2.				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCCAGACCCCTATGGCTGCTC	0.607													7	29					0	0	1	0	0		C	43773195	C	C	43773195	3	2	151	1	0	0	0	0	1	0	0	0	15918	1522	53	3	887	3	TIE1	1	43773195	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	24597	43773195	205477426	134	77299											
TIE1	7075	broad.mit.edu	37	chr1	43785145	43785145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctaggggcgtctccctgtgCgctggatggccattgagtcc	4	10	14	13	2	1	1	0	1	1	0	3	2	2	2	4	4	1	1	4	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:43785145C>T	uc001ciu.2	+	19	3131	c.3052C>T	c.(3052-3054)CGC>TGC	p.R1018C	TIE1_uc010oke.1_Missense_Mutation_p.R973C|TIE1_uc009vwq.2_Missense_Mutation_p.R974C|TIE1_uc010okg.1_Missense_Mutation_p.R663C	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	1018	Cytoplasmic (Potential).|Protein kinase.				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TCTCCCTGTGCGCTGGATGGC	0.587													43	192					0	0	1	0	0		T	43785145	T	T	43785145	3	4	151	1	0	0	0	0	1	0	0	0	15918	768	27	1	3126	1	TIE1	1	43785145	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	11950	43785145	205465476	135	77300											
KIAA0467	23334	broad.mit.edu	37	chr1	43893400	43893400	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggcgccccgagacctcatCttccggtgagtgccttcagt	6	9	11	15	3	3	2	2	1	1	1	4	3	4	2	5	2	1	0	5	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:43893400C>T	uc001cjk.1	+	11	1563	c.1101C>T	c.(1099-1101)ATC>ATT	p.I367I		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1266						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GAGACCTCATCTTCCGGTGAG	0.577													3	34					0	0	1	0	0		T	43893400	T	T	43893400	2	4	151	1	0	0	0	0	0	0	0	1	8194	903	32	4		4	KIAA0467	1	43893400	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	108255	43893400	205357221	136	77301											
IPO13	9670	broad.mit.edu	37	chr1	44432664	44432664	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtggtacaggaagacggTcgtatgctgctcatagcagt	11	9	14	7	2	1	1	1	0	0	1	2	2	1	2	0	4	4	5	0	4	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:44432664T>C	uc001ckx.2	+	18	3381	c.2586T>C	c.(2584-2586)GGT>GGC	p.G862G	IPO13_uc001cky.2_Silent_p.G80G	NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	862					protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				AGGAAGACGGTCGTATGCTGC	0.612													12	61					0	0	1	0	0		C	44432664	C	C	44432664	2	2	151	1	0	0	0	0	0	0	0	1	7810	1654	58	3		3	IPO13	1	44432664	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	539264	44432664	204817957	137	77302											
ERI3	79033	broad.mit.edu	37	chr1	44804743	44804743	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaatctgtggcttgtcgcAcgtggcctcaaagtccagca	9	10	11	11	2	2	1	1	1	1	0	4	1	3	1	2	2	1	3	2	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:44804743A>G	uc001clt.2	-	3	704	c.463T>C	c.(463-465)TGC>CGC	p.C155R	ERI3_uc010okv.1_Intron|ERI3_uc009vxg.2_Missense_Mutation_p.C155R|ERI3_uc010okw.1_Missense_Mutation_p.C77R|ERI3_uc001clu.2_Missense_Mutation_p.C77R	NM_024066	NP_076971	O43414	ERI3_HUMAN	prion protein interacting protein	155	Exonuclease.					intracellular	exonuclease activity|metal ion binding|nucleic acid binding			ovary(2)|large_intestine(1)	3						GGCTTGTCGCACGTGGCCTCA	0.547													33	192					0	0	1	0	0		G	44804743	G	G	44804743	3	3	151	1	0	0	0	0	1	0	0	0	5237	159	6	3	578	3	ERI3	1	44804743	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	372079	44804743	204445878	138	77303											
ERI3	79033	broad.mit.edu	37	chr1	44804978	44804978	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggtgctagcattgaacaTccagaagcatctaaaactta	17	9	7	8	0	1	2	0	1	1	1	2	2	2	2	1	1	5	3	1	1	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:44804978T>C	uc001clt.2	-	3	469	c.228A>G	c.(226-228)GGA>GGG	p.G76G	ERI3_uc010okv.1_Intron|ERI3_uc009vxg.2_Silent_p.G76G|ERI3_uc010okw.1_5'UTR|ERI3_uc001clu.2_5'UTR	NM_024066	NP_076971	O43414	ERI3_HUMAN	prion protein interacting protein	76						intracellular	exonuclease activity|metal ion binding|nucleic acid binding			ovary(2)|large_intestine(1)	3						GCATTGAACATCCAGAAGCAT	0.348													27	109					0	0	1	0	0		C	44804978	C	C	44804978	2	2	151	1	0	0	0	0	0	0	0	1	5237	1422	50	3		3	ERI3	1	44804978	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	235	44804978	204445643	139	77304											
BEST4	266675	broad.mit.edu	37	chr1	45250930	45250930	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctggctccacaaactggcgGccaaccagggagagggcaaa	12	4	13	12	1	1	1	0	0	1	1	2	2	2	1	3	5	2	2	3	5	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:45250930G>A	uc001cmm.2	-	6	811	c.762C>T	c.(760-762)GGC>GGT	p.G254G		NM_153274	NP_695006	Q8NFU0	BEST4_HUMAN	bestrophin 4	254	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CAAACTGGCGGCCAACCAGGG	0.607													7	22					0	0	1	0	0		A	45250930	A	A	45250930	2	1	151	1	0	0	0	0	0	0	0	1	1408	1190	42	2		2	BEST4	1	45250930	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	445952	45250930	203999691	140	77305											
PTCH2	8643	broad.mit.edu	37	chr1	45293332	45293332	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccgtcttgcaccaaggTggctccgtagaggctcaggc	7	7	14	13	2	2	1	1	0	1	1	3	1	3	1	3	5	1	4	3	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:45293332T>C	uc010olf.1	-	15	2125	c.2113A>G	c.(2113-2115)ACC>GCC	p.T705A	PTCH2_uc010olg.1_Missense_Mutation_p.T403A	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	705	Helical; (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					TGCACCAAGGTGGCTCCGTAG	0.637									Basal_Cell_Nevus_syndrome				25	75					0	0	1	0	0		C	45293332	C	C	45293332	3	2	151	1	0	0	0	0	1	0	0	0	12753	1696	59	3	1550	3	PTCH2	1	45293332	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	42402	45293332	203957289	141	77306											
MAST2	23139	broad.mit.edu	37	chr1	46496683	46496683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccttgtgtctcatagattaCggaagcggctgtcggtgtct	6	13	13	9	3	2	1	1	0	2	1	4	2	2	2	1	3	2	1	1	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:46496683C>T	uc001cov.2	+	23	2996	c.2713C>T	c.(2713-2715)CGG>TGG	p.R905W	MAST2_uc001cow.2_Missense_Mutation_p.R905W|MAST2_uc001coy.1_Missense_Mutation_p.R579W|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	905					regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					TCATAGATTACGGAAGCGGCT	0.587													5	19					0	0	1	0	0		T	46496683	T	T	46496683	3	4	151	1	0	0	0	0	1	0	0	0	9343	527	19	1	2803	1	MAST2	1	46496683	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1203351	46496683	202753938	142	77307											
TAL1	6886	broad.mit.edu	37	chr1	47691500	47691500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatgctggcctcggccgCgtcccgtccctctagctggg	2	8	14	17	4	1	0	0	0	1	0	4	0	3	0	5	4	2	2	5	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:47691500C>T	uc001cqx.2	-	2	638	c.61G>A	c.(61-63)GCG>ACG	p.A21T	TAL1_uc009vyq.2_5'Flank|TAL1_uc001cqy.2_Missense_Mutation_p.A21T|TAL1_uc001cra.1_Intron|TAL1_uc001cqz.1_Intron	NM_003189	NP_003180	P17542	TAL1_HUMAN	T-cell acute lymphocytic leukemia 1	21					basophil differentiation|cell fate commitment|cell proliferation|embryonic hemopoiesis|erythrocyte differentiation|megakaryocyte differentiation|positive regulation of cell division|positive regulation of chromatin assembly or disassembly|positive regulation of erythrocyte differentiation|positive regulation of mitotic cell cycle|positive regulation of protein complex assembly|positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	E-box binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity			lung(1)	1						GCCTCGGCCGCGTCCCGTCCC	0.716			T	TRD@|SIL	lymphoblastic leukemia/biphasic								4	25					0	0	1	0	0		T	47691500	T	T	47691500	3	4	151	1	0	0	0	0	1	0	0	0	15566	768	27	1	946	1	TAL1	1	47691500	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1194817	47691500	201559121	143	77308											
BEND5	79656	broad.mit.edu	37	chr1	49201945	49201945	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgtgaggcgagaggggTggtttagggactgcatcttt	7	13	17	4	1	1	2	0	1	1	1	1	4	1	3	0	5	1	3	0	5	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:49201945T>C	uc001crx.3	-	5	1118	c.1074A>G	c.(1072-1074)CCA>CCG	p.P358P	AGBL4_uc001cru.2_Intron|AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crw.3_Silent_p.P189P	NM_024603	NP_078879	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	358	BEN.									skin(1)	1						GCGAGAGGGGTGGTTTAGGGA	0.458													16	152					0	0	1	0	0		C	49201945	C	C	49201945	2	2	151	1	0	0	0	0	0	0	0	1	1402	1683	59	3		3	BEND5	1	49201945	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1510445	49201945	200048676	144	77309											
FAF1	11124	broad.mit.edu	37	chr1	51049325	51049325	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttaatgtcctaaccctaccTtgaagaaaactctgctgtaa	13	12	6	10	0	1	2	0	1	1	1	2	2	2	2	3	0	4	3	3	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:51049325T>C	uc009vyx.1	-	12	1093	c.1030A>G	c.(1030-1032)AGA>GGA	p.R344G	FAF1_uc009vyw.1_RNA|FAF1_uc001cse.1_Missense_Mutation_p.R344G|FAF1_uc010onc.1_Missense_Mutation_p.R102G	NM_007051	NP_008982	Q9UNN5	FAF1_HUMAN	FAS-associated factor 1	344					apoptosis|cytoplasmic sequestering of NF-kappaB|positive regulation of apoptosis|positive regulation of protein complex assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of protein catabolic process	CD95 death-inducing signaling complex|cytosol|perinuclear region of cytoplasm	heat shock protein binding|NF-kappaB binding|protein kinase binding|protein kinase regulator activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)		TAACCCTACCTTGAAGAAAAC	0.269													4	111					0	0	1	0	0		C	51049325	C	C	51049325	3	2	151	1	0	0	0	0	1	0	0	0	5380	1623	56	3	958	3	FAF1	1	51049325	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1847380	51049325	198201296	145	77310											
TTC39A	22996	broad.mit.edu	37	chr1	51767291	51767291	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcggcgtagaagtaggAcatcttccactggcccttgt	8	10	12	11	2	1	1	0	0	1	1	3	2	2	2	2	4	0	2	2	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:51767291A>G	uc001csl.2	-	12	1219	c.1114T>C	c.(1114-1116)TCC>CCC	p.S372P	TTC39A_uc001csk.2_Missense_Mutation_p.S337P|TTC39A_uc010ond.1_Missense_Mutation_p.S309P|TTC39A_uc010one.1_Missense_Mutation_p.S336P|TTC39A_uc010onf.1_Missense_Mutation_p.S340P|TTC39A_uc001csn.2_Missense_Mutation_p.S371P|TTC39A_uc001cso.1_3'UTR|TTC39A_uc009vyy.1_Missense_Mutation_p.S309P	NM_001080494	NP_001073963	Q5SRH9	TT39A_HUMAN	tetratricopeptide repeat domain 39A isoform 2	372							binding			skin(1)	1						TAGAAGTAGGACATCTTCCAC	0.587													4	23					0	0	1	0	0		G	51767291	G	G	51767291	3	3	151	1	0	0	0	0	1	0	0	0	16733	275	10	3	755	3	TTC39A	1	51767291	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	717966	51767291	197483330	146	77311											
OSBPL9	114883	broad.mit.edu	37	chr1	52252277	52252277	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttggaagatcagaacgagtAtgaatcccgcaggtaagccg	13	7	13	8	3	1	3	1	1	0	2	2	5	2	4	2	2	2	4	2	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:52252277A>G	uc001cst.2	+	22	2007	c.1988A>G	c.(1987-1989)TAT>TGT	p.Y663C	OSBPL9_uc001css.2_Missense_Mutation_p.Y668C|OSBPL9_uc001csx.2_RNA|OSBPL9_uc009vza.2_Missense_Mutation_p.Y664C|OSBPL9_uc001csu.2_Missense_Mutation_p.Y673C|OSBPL9_uc001csv.2_Missense_Mutation_p.Y498C|OSBPL9_uc001csw.2_Missense_Mutation_p.Y650C|OSBPL9_uc001csy.2_Missense_Mutation_p.Y485C|OSBPL9_uc001csz.2_Missense_Mutation_p.Y485C|OSBPL9_uc001cta.2_Missense_Mutation_p.Y553C|OSBPL9_uc001ctb.2_Missense_Mutation_p.Y448C	NM_024586	NP_078862	Q96SU4	OSBL9_HUMAN	oxysterol binding protein-like 9 isoform e	663					lipid transport		lipid binding			central_nervous_system(1)	1						CAGAACGAGTATGAATCCCGC	0.418													9	39					0	0	1	0	0		G	52252277	G	G	52252277	3	3	151	1	0	0	0	0	1	0	0	0	11303	449	16	3	2178	3	OSBPL9	1	52252277	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	484986	52252277	196998344	147	77312											
NRD1	4898	broad.mit.edu	37	chr1	52277683	52277683	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacttctggcttgtattcaaAaagaagctgatctccagtga	12	13	8	8	0	3	3	1	2	2	1	4	3	3	3	1	1	2	3	1	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:52277683A>G	uc001ctc.3	-	17	2288	c.1966T>C	c.(1966-1968)TTT>CTT	p.F656L	NRD1_uc009vzb.2_Missense_Mutation_p.F351L|NRD1_uc001ctd.3_Missense_Mutation_p.F588L|NRD1_uc001cte.2_Missense_Mutation_p.F524L|NRD1_uc001ctf.2_Missense_Mutation_p.F588L|NRD1_uc010ong.1_RNA	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	587					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						TTGTATTCAAAAAGAAGCTGA	0.413													4	150					0	0	1	0	0		G	52277683	G	G	52277683	3	3	151	1	0	0	0	0	1	0	0	0	10664	14	1	3	1761	3	NRD1	1	52277683	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	25406	52277683	196972938	148	77313											
ZCCHC11	23318	broad.mit.edu	37	chr1	52961105	52961105	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaattacttaccttgggAggaaattttatatctatatt	12	19	5	5	0	2	0	0	0	2	0	2	2	2	2	1	2	2	0	1	2	8	11			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:52961105A>G	uc001ctx.2	-	6	1494	c.1260T>C	c.(1258-1260)CCT>CCC	p.P420P	ZCCHC11_uc001cty.2_Silent_p.P420P|ZCCHC11_uc001ctz.2_Silent_p.P420P|ZCCHC11_uc009vze.1_Silent_p.P420P|ZCCHC11_uc009vzf.1_Silent_p.P179P|ZCCHC11_uc001cub.2_Silent_p.P420P|ZCCHC11_uc001cuc.2_RNA	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	420					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						TTACCTTGGGAGGAAATTTTA	0.308													26	89					0	0	1	0	0		G	52961105	G	G	52961105	2	3	151	1	0	0	0	0	0	0	0	1	17605	291	11	3		3	ZCCHC11	1	52961105	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	683422	52961105	196289516	149	77314											
C1orf163	65260	broad.mit.edu	37	chr1	53153604	53153604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catgtccttgggaaagcctgGggcaccctgcaggaacatgg	9	7	14	11	0	0	0	0	0	0	0	1	2	1	2	3	5	3	2	3	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:53153604G>A	uc001cui.1	-	3	524	c.484C>T	c.(484-486)CCA>TCA	p.P162S		NM_023077	NP_075565	Q96BR5	SELR1_HUMAN	hypothetical protein LOC65260	162	Sel1-like 4.						binding				0						GGAAAGCCTGGGGCACCCTGC	0.542													18	102					0	0	1	0	0		A	53153604	A	A	53153604	3	1	151	1	0	0	0	0	1	0	0	0	2014	1232	43	4	215	4	C1orf163	1	53153604	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	192499	53153604	196097017	150	77315											
SCP2	6342	broad.mit.edu	37	chr1	53513586	53513586	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacttcctggctttaatgActggtaaaatgaatcctcag	12	12	8	9	0	1	3	1	2	0	1	3	3	3	3	2	2	0	2	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:53513586A>G	uc001cur.1	+	15	1646	c.1525A>G	c.(1525-1527)ACT>GCT	p.T509A	SCP2_uc001cus.1_RNA|SCP2_uc010ono.1_Missense_Mutation_p.T428A|SCP2_uc010onp.1_Missense_Mutation_p.T485A|SCP2_uc009vzi.1_Missense_Mutation_p.T465A|SCP2_uc010onq.1_Missense_Mutation_p.T105A|SCP2_uc001cut.1_Missense_Mutation_p.T102A|SCP2_uc001cuu.1_3'UTR	NM_002979	NP_002970	P22307	NLTP_HUMAN	sterol carrier protein 2 isoform 1 proprotein	509	SCP2.				bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|lipid transport	mitochondrion|nucleus|peroxisomal matrix	propanoyl-CoA C-acyltransferase activity|propionyl-CoA C2-trimethyltridecanoyltransferase activity|protein binding|sterol binding			breast(1)	1						GGCTTTAATGACTGGTAAAAT	0.443													17	135					0	0	1	0	0		G	53513586	G	G	53513586	3	3	151	1	0	0	0	0	1	0	0	0	13959	275	10	3	1607	3	SCP2	1	53513586	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	359982	53513586	195737035	151	77316											
SLC1A7	6512	broad.mit.edu	37	chr1	53554604	53554604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatatgggccatgatccccGctgccagcgcatcacccagc	9	7	9	16	2	1	1	1	1	0	0	2	1	2	1	5	1	3	2	5	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:53554604G>A	uc001cuy.2	-	10	1577	c.1409C>T	c.(1408-1410)GCG>GTG	p.A470V	SLC1A7_uc001cux.2_Missense_Mutation_p.A123V	NM_006671	NP_006662	O00341	EAA5_HUMAN	solute carrier family 1 (glutamate transporter),	470	Helical; (Potential).					integral to membrane|plasma membrane	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|large_intestine(1)	3				Colorectal(1306;0.234)	L-Glutamic Acid(DB00142)	CATGATCCCCGCTGCCAGCGC	0.612													22	61					0	0	1	0	0		A	53554604	A	A	53554604	3	1	151	1	0	0	0	0	1	0	0	0	14462	1087	38	1	281	1	SLC1A7	1	53554604	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	41018	53554604	195696017	152	77317											
CPT2	1376	broad.mit.edu	37	chr1	53675834	53675834	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttctgccatccggtttcTgaagacactccgggctggcc	5	12	11	13	2	2	2	0	1	2	1	4	2	4	2	4	3	1	3	4	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:53675834T>C	uc001cvb.3	+	4	1003	c.488T>C	c.(487-489)CTG>CCG	p.L163P		NM_000098	NP_000089	P23786	CPT2_HUMAN	carnitine O-palmitoyltransferase precursor	163	Mitochondrial matrix (By similarity).				carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	mitochondrial inner membrane	carnitine O-palmitoyltransferase activity				0					L-Carnitine(DB00583)|Perhexiline(DB01074)	ATCCGGTTTCTGAAGACACTC	0.473													29	122					0	0	1	0	0		C	53675834	C	C	53675834	3	2	151	1	0	0	0	0	1	0	0	0	3837	1580	55	3	502	3	CPT2	1	53675834	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	121230	53675834	195574787	153	77318											
DMRTB1	63948	broad.mit.edu	37	chr1	53930411	53930411	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccaccgcagccccagttcctCccgccaggctacctctctgc	5	7	7	22	2	1	0	0	0	1	0	4	0	3	0	8	1	3	3	8	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:53930411C>T	uc001cvq.1	+	3	907	c.852C>T	c.(850-852)CTC>CTT	p.L284L		NM_033067	NP_149056	Q96MA1	DMRTB_HUMAN	DMRT-like family B with proline-rich C-terminal,	284	Pro-rich.				sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						CCCAGTTCCTCCCGCCAGGCT	0.522													4	58					0	0	1	0	0		T	53930411	T	T	53930411	2	4	151	1	0	0	0	0	0	0	0	1	4596	842	30	4		4	DMRTB1	1	53930411	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	254577	53930411	195320210	154	77319											
GLIS1	148979	broad.mit.edu	37	chr1	53974836	53974836	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggctgtggtagccattgggCcgcagggggttgaaaccgtg	7	8	18	8	2	0	1	0	1	0	0	0	1	0	1	3	5	2	4	3	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:53974836C>T	uc001cvr.1	-	9	2229	c.1662G>A	c.(1660-1662)CGG>CGA	p.R554R		NM_147193	NP_671726	Q8NBF1	GLIS1_HUMAN	GLIS family zinc finger 1	554					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			skin(1)	1						AGCCATTGGGCCGCAGGGGGT	0.532													2	2					0	0	1	0	0		T	53974836	T	T	53974836	2	4	151	1	0	0	0	0	0	0	0	1	6460	726	26	2		2	GLIS1	1	53974836	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	44425	53974836	195275785	155	77320											
DIO1	1733	broad.mit.edu	37	chr1	54370370	54370370	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtgctgaattttggaagTtgtacctgaccttcatttat	8	17	9	7	0	1	2	1	2	0	0	1	3	1	3	2	2	2	3	2	2	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:54370370T>C	uc010onx.1	+	2	392	c.369T>C	c.(367-369)AGT>AGC	p.S123S	DIO1_uc010onw.1_Silent_p.S59S|DIO1_uc009vzl.2_Intron|DIO1_uc001cwb.2_Intron|DIO1_uc010ony.1_Silent_p.S123S|DIO1_uc001cwd.2_RNA|DIO1_uc001cwe.2_Intron|DIO1_uc001cwf.2_RNA|DIO1_uc001cwg.2_RNA	NM_000792	NP_000783	P49895	IOD1_HUMAN	deiodinase, iodothyronine, type I isoform a	123					hormone biosynthetic process|thyroid hormone generation	endoplasmic reticulum membrane|integral to membrane|plasma membrane	selenium binding|thyroxine 5'-deiodinase activity				0						ATTTTGGAAGTTGTACCTGAC	0.383													68	307					0	0	1	0	0		C	54370370	C	C	54370370	2	2	151	1	0	0	0	0	0	0	0	1	4530	1722	60	3		3	DIO1	1	54370370	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	395534	54370370	194880251	156	77321											
ACOT11	26027	broad.mit.edu	37	chr1	55065067	55065067	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggtgctcaaagccatcgTgaacaatgccttcaaacata	13	10	7	11	1	3	1	2	1	1	0	4	1	3	1	2	1	5	1	2	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:55065067T>C	uc001cxm.1	+	8	945	c.863T>C	c.(862-864)GTG>GCG	p.V288A	ACOT11_uc001cxj.1_Missense_Mutation_p.V166A|ACOT11_uc001cxl.1_Missense_Mutation_p.V288A	NM_015547	NP_056362	Q8WXI4	ACO11_HUMAN	thioesterase, adipose associated isoform BFIT1	288	Acyl coenzyme A hydrolase 2.				fatty acid metabolic process|intracellular signal transduction|response to cold		acyl-CoA thioesterase activity|carboxylesterase activity			central_nervous_system(1)	1						AAAGCCATCGTGAACAATGCC	0.592													52	194					0	0	1	0	0		C	55065067	C	C	55065067	3	2	151	1	0	0	0	0	1	0	0	0	149	1696	59	3	893	3	ACOT11	1	55065067	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	694697	55065067	194185554	157	77322											
ACOT11	26027	broad.mit.edu	37	chr1	55069590	55069590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagaggtgcccctctccgtcCcctgggaccctagcaaccag	7	6	10	18	1	1	1	0	0	1	1	3	2	2	2	7	2	3	1	7	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:55069590C>T	uc001cxm.1	+	11	1214	c.1132C>T	c.(1132-1134)CCC>TCC	p.P378S	ACOT11_uc001cxj.1_Missense_Mutation_p.P256S|ACOT11_uc001cxl.1_Missense_Mutation_p.P378S	NM_015547	NP_056362	Q8WXI4	ACO11_HUMAN	thioesterase, adipose associated isoform BFIT1	378	START.				fatty acid metabolic process|intracellular signal transduction|response to cold		acyl-CoA thioesterase activity|carboxylesterase activity			central_nervous_system(1)	1						CCTCTCCGTCCCCTGGGACCC	0.572													20	125					0	0	1	0	0		T	55069590	T	T	55069590	3	4	151	1	0	0	0	0	1	0	0	0	149	623	22	4	1174	4	ACOT11	1	55069590	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4523	55069590	194181031	158	77323											
C1orf175	374977	broad.mit.edu	37	chr1	55175638	55175638	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctggataacttgagacaTgacccagaagcatcagtgtg	12	9	11	9	0	2	3	1	2	1	2	2	5	2	4	1	1	2	2	1	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:55175638T>C	uc010ooe.1	+	24	4074	c.3750T>C	c.(3748-3750)CAT>CAC	p.H1250H	C1orf175_uc001cxq.2_Intron|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Silent_p.H768H|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA|C1orf175_uc009vzr.1_Silent_p.H451H	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	1250						integral to membrane	binding				0						ACTTGAGACATGACCCAGAAG	0.532													19	77					0	0	1	0	0		C	55175638	C	C	55175638	2	2	151	1	0	0	0	0	0	0	0	1	2019	1461	51	3		3	C1orf175	1	55175638	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	106048	55175638	194074983	159	77324											
USP24	23358	broad.mit.edu	37	chr1	55624619	55624619	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgcaatagaatatctagtcGaaggtcatccacaattgtca	14	10	8	9	2	3	1	2	0	1	1	5	2	4	1	1	1	0	1	1	1	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:55624619G>A	uc001cyg.3	-	9	823	c.823C>T	c.(823-825)CGA>TGA	p.R275*		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	387					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						ATATCTAGTCGAAGGTCATCC	0.393													6	23					0	0	1	0	0		A	55624619	A	A	55624619	4	1	151	1	0	0	0	0	0	1	0	0	17081	1066	37	1	6939	1	USP24	1	55624619	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	448981	55624619	193626002	160	77325											
C8B	732	broad.mit.edu	37	chr1	57415420	57415420	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatatgaattcgtatttgccTtgggtctaaagaagaaaaaa	17	12	8	4	1	1	3	0	1	1	2	2	3	1	3	1	1	1	1	1	1	10	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:57415420T>G	uc001cyp.2	-	6	739	c.672A>C	c.(670-672)CAA>CAC	p.Q224H	C8B_uc010oon.1_Missense_Mutation_p.Q162H|C8B_uc010ooo.1_Missense_Mutation_p.Q172H	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	224	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						CGTATTTGCCTTGGGTCTAAA	0.279													15	59					0	0	1	0	0		G	57415420	G	G	57415420	3	3	151	1	0	0	0	0	1	0	0	0	2420	1606	56	5	1131	5	C8B	1	57415420	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1790801	57415420	191835201	161	77326											
C8B	732	broad.mit.edu	37	chr1	57425755	57425755	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actagacagctcacaatcaaTgggcatcagggtaacatcca	15	7	8	11	0	3	1	3	0	0	1	4	1	4	1	1	2	2	3	1	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:57425755T>C	uc001cyp.2	-	2	254	c.187A>G	c.(187-189)ATT>GTT	p.I63V	C8B_uc010oon.1_5'UTR|C8B_uc010ooo.1_Missense_Mutation_p.I11V	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	63					complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						TCACAATCAATGGGCATCAGG	0.498													28	112					0	0	1	0	0		C	57425755	C	C	57425755	3	2	151	1	0	0	0	0	1	0	0	0	2420	1464	51	3	1632	3	C8B	1	57425755	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10335	57425755	191824866	162	77327											
L1TD1	54596	broad.mit.edu	37	chr1	62676144	62676144	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcactagagatgagtcaTgatgagcataaaaagcattc	17	9	9	6	0	2	4	2	3	0	1	3	5	2	4	0	0	2	2	0	0	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:62676144T>C	uc001dae.3	+	4	2000	c.1698T>C	c.(1696-1698)CAT>CAC	p.H566H		NM_019079	NP_061952	Q5T7N2	LITD1_HUMAN	LINE-1 type transposase domain containing 1	566										ovary(1)|skin(1)	2						AGATGAGTCATGATGAGCATA	0.428													11	88					0	0	1	0	0		C	62676144	C	C	62676144	2	2	151	1	0	0	0	0	0	0	0	1	8605	1461	51	3		3	L1TD1	1	62676144	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5250389	62676144	186574477	163	77328											
DOCK7	85440	broad.mit.edu	37	chr1	62970361	62970361	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggcactggcgtgtgaccgTattgtaccgatgctactgct	7	11	13	10	3	0	1	0	1	0	0	0	3	0	1	2	2	4	5	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:62970361T>C	uc001daq.2	-	37	4711	c.4677A>G	c.(4675-4677)ATA>ATG	p.I1559M	DOCK7_uc001dan.2_Missense_Mutation_p.I1420M|DOCK7_uc001dao.2_Missense_Mutation_p.I1420M|DOCK7_uc001dap.2_Missense_Mutation_p.I1537M|DOCK7_uc001dam.2_Missense_Mutation_p.I739M|DOCK7_uc010oov.1_Missense_Mutation_p.I298M	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1568					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						CGTGTGACCGTATTGTACCGA	0.403													14	79					0	0	1	0	0		C	62970361	C	C	62970361	3	2	151	1	0	0	0	0	1	0	0	0	4698	1628	57	3	1774	3	DOCK7	1	62970361	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	294217	62970361	186280260	164	77329											
CACHD1	57685	broad.mit.edu	37	chr1	65147750	65147750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacagtccagaaagaaggCgccgctactggggtcgatca	12	5	12	12	3	1	2	1	0	0	2	3	3	2	2	2	3	1	1	2	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:65147750C>T	uc001dbo.1	+	26	3499	c.3394C>T	c.(3394-3396)CGC>TGC	p.R1132C	CACHD1_uc001dbp.1_Missense_Mutation_p.R887C|CACHD1_uc001dbq.1_Missense_Mutation_p.R887C|CACHD1_uc010opa.1_Missense_Mutation_p.R376C	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	1183	Cytoplasmic (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						AGAAAGAAGGCGCCGCTACTG	0.493													21	67					0	0	1	0	0		T	65147750	T	T	65147750	3	4	151	1	0	0	0	0	1	0	0	0	2540	768	27	1	3496	1	CACHD1	1	65147750	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2177389	65147750	184102871	165	77330											
RAVER2	55225	broad.mit.edu	37	chr1	65243402	65243402	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacttaatagtccagcttcAgccaacagatgctttgttgt	11	13	8	9	0	1	2	1	0	0	2	2	2	2	2	2	0	4	3	2	0	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:65243402A>G	uc001dbs.1	+	3	491	c.413A>G	c.(412-414)CAG>CGG	p.Q138R	RAVER2_uc001dbt.1_Missense_Mutation_p.Q17R|RAVER2_uc010opb.1_Missense_Mutation_p.Q17R	NM_018211	NP_060681	Q9HCJ3	RAVR2_HUMAN	ribonucleoprotein, PTB-binding 2	138	RRM 1.					cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)	1						GTCCAGCTTCAGCCAACAGAT	0.378													66	244					0	0	1	0	0		G	65243402	G	G	65243402	3	3	151	1	0	0	0	0	1	0	0	0	13120	188	7	3	423	3	RAVER2	1	65243402	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	95652	65243402	184007219	166	77331											
DNAJC6	9829	broad.mit.edu	37	chr1	65830470	65830470	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatacaatctgtgaccaggTacgcacattcttcccagtta	11	12	7	11	1	2	2	0	2	2	0	3	2	3	2	2	1	2	3	2	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:65830470T>C	uc001dcd.1	+	2	337	c.173_splice	c.e2+2	p.S58_splice	DNAJC6_uc001dcc.1_Splice_Site_p.S89_splice|DNAJC6_uc010opc.1_Splice_Site_p.S45_splice|DNAJC6_uc001dce.1_Splice_Site_p.S115_splice	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6						cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						TGTGACCAGGTACGCACATTC	0.453													50	236					0	0	1	0	0		C	65830470	C	C	65830470	5	2	151	1	0	0	0	0	0	0	1	0	4659	1652	57	3	181	3	DNAJC6	1	65830470	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	587068	65830470	183420151	167	77332											
LEPR	3953	broad.mit.edu	37	chr1	66067119	66067119	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctgacaagtgttgggtctAatgtttcttttcactgcatc	7	18	8	8	0	4	1	1	1	3	0	5	1	4	1	0	1	1	3	0	1	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:66067119A>G	uc001dci.2	+	9	1241	c.1039A>G	c.(1039-1041)AAT>GAT	p.N347D	LEPR_uc001dcg.2_Missense_Mutation_p.N347D|LEPR_uc001dch.2_Missense_Mutation_p.N347D|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Missense_Mutation_p.N347D|LEPR_uc001dck.2_Missense_Mutation_p.N347D	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	347	Extracellular (Potential).|Ig-like.				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		TGTTGGGTCTAATGTTTCTTT	0.343													8	164					0	0	1	0	0		G	66067119	G	G	66067119	3	3	151	1	0	0	0	0	1	0	0	0	8744	362	13	3	1065	3	LEPR	1	66067119	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	236649	66067119	183183502	168	77333											
SGIP1	84251	broad.mit.edu	37	chr1	67105497	67105497	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaatggattttatgcggAaattgattgggaaagatatg	15	12	11	3	1	0	2	0	1	0	1	0	5	0	5	1	3	1	0	1	3	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:67105497A>T	uc001dcr.2	+	5	426	c.209A>T	c.(208-210)GAA>GTA	p.E70V		NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	70					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						TTTTATGCGGAAATTGATTGG	0.294													25	92					0	0	1	0	0		T	67105497	T	T	67105497	3	4	151	1	0	0	0	0	1	0	0	0	14231	246	9	5	227	5	SGIP1	1	67105497	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1038378	67105497	182145124	169	77334											
SGIP1	84251	broad.mit.edu	37	chr1	67185012	67185012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagccccctaaccatgggaGctcaggacactctccctgtt	8	8	8	17	0	2	0	1	0	1	0	3	2	2	2	5	2	3	2	5	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:67185012G>A	uc001dcr.2	+	19	1883	c.1666G>A	c.(1666-1668)GCT>ACT	p.A556T	SGIP1_uc010opd.1_Missense_Mutation_p.A156T|SGIP1_uc001dcs.2_Missense_Mutation_p.A156T|SGIP1_uc001dct.2_Missense_Mutation_p.A158T|SGIP1_uc009wat.2_Missense_Mutation_p.A350T|SGIP1_uc001dcu.2_Missense_Mutation_p.A61T	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	556					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						AACCATGGGAGCTCAGGACAC	0.423													7	61					0	0	1	0	0		A	67185012	A	A	67185012	3	1	151	1	0	0	0	0	1	0	0	0	14231	971	34	2	1740	2	SGIP1	1	67185012	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	79515	67185012	182065609	170	77335											
WDR78	79819	broad.mit.edu	37	chr1	67337080	67337080	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccattatgattttatcacAttgaacatctttattctttg	10	21	3	7	0	3	2	1	2	2	0	4	2	4	2	1	0	1	0	1	0	4	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:67337080A>T	uc001dcx.2	-	6	969	c.913T>A	c.(913-915)TGT>AGT	p.C305S	WDR78_uc001dcy.2_Missense_Mutation_p.C305S|WDR78_uc001dcz.2_Missense_Mutation_p.C305S|WDR78_uc009waw.2_Missense_Mutation_p.C51S|WDR78_uc009wax.2_RNA	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	305										ovary(2)	2						ATTTTATCACATTGAACATCT	0.308													33	148					0	0	1	0	0		T	67337080	T	T	67337080	3	4	151	1	0	0	0	0	1	0	0	0	17354	217	8	5	1738	5	WDR78	1	67337080	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	152068	67337080	181913541	171	77336											
GNG12	55970	broad.mit.edu	37	chr1	68171216	68171216	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagggtcactcctggcaTgttcctcacagtaggacatg	10	9	11	11	0	2	0	2	0	0	0	4	1	4	1	2	3	0	4	2	3	2	2	rs139638442	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:68171216T>C	uc001dea.1	-	4	329	c.137A>G	c.(136-138)CAT>CGT	p.H46R		NM_018841	NP_061329	Q9UBI6	GBG12_HUMAN	G-protein gamma-12 subunit precursor	46					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	signal transducer activity				0						ACTCCTGGCATGTTCCTCACA	0.393													21	107					0	0	1	0	0		C	68171216	C	C	68171216	3	2	151	1	0	0	0	0	1	0	0	0	6540	1464	51	3	85	3	GNG12	1	68171216	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	834136	68171216	181079405	172	77337											
GNG12	55970	broad.mit.edu	37	chr1	68171242	68171242	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagtaggacatgaggtcCgctgatgccttcgaaacctg	10	9	11	11	2	1	2	1	2	0	0	3	4	2	3	3	2	2	2	3	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:68171242C>T	uc001dea.1	-	4	303	c.111G>A	c.(109-111)GCG>GCA	p.A37A		NM_018841	NP_061329	Q9UBI6	GBG12_HUMAN	G-protein gamma-12 subunit precursor	37					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	signal transducer activity				0						ACATGAGGTCCGCTGATGCCT	0.368													27	96					0	0	1	0	0		T	68171242	T	T	68171242	2	4	151	1	0	0	0	0	0	0	0	1	6540	639	23	1		1	GNG12	1	68171242	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	26	68171242	181079379	173	77338											
WLS	79971	broad.mit.edu	37	chr1	68564378	68564378	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcgctgaacaattcttgAtaaagttccgaaacaaacaa	18	8	7	8	2	1	2	0	2	1	0	2	4	2	2	1	0	4	2	1	0	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:68564378A>T	uc001dee.2	-	12	1840	c.1569T>A	c.(1567-1569)TAT>TAA	p.Y523*	uc001deb.1_RNA|uc001dec.1_RNA	NM_001002292	NP_001002292	Q5T9L3	WLS_HUMAN	G protein-coupled receptor 177 isoform 2	Error:Variant_position_missing_in_Q5T9L3_after_alignment					multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0						acaattcttgataaagttccg	0													26	132					0	0	1	0	0		T	68564378	T	T	68564378	4	4	151	1	0	0	0	0	0	1	0	0	17402	340	12	5	66	5	WLS	1	68564378	Nonsense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	393136	68564378	180686243	174	77339											
DEPDC1	55635	broad.mit.edu	37	chr1	68949753	68949753	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacataagttggattatTcatatcattgcttcttggcc	10	16	6	9	0	3	0	2	0	1	0	4	1	4	1	2	2	2	2	2	2	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:68949753T>C	uc001dem.3	-	7	907	c.790A>G	c.(790-792)AAT>GAT	p.N264D	DEPDC1_uc001dej.3_5'Flank|DEPDC1_uc001dek.3_RNA|DEPDC1_uc001del.3_Missense_Mutation_p.N264D	NM_001114120	NP_001107592	Q5TB30	DEP1A_HUMAN	DEP domain containing 1 isoform a	264					intracellular signal transduction|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	GTPase activator activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(397;7.21e-36)		GTTGGATTATTCATATCATTG	0.274													4	100					0	0	1	0	0		C	68949753	C	C	68949753	3	2	151	1	0	0	0	0	1	0	0	0	4445	1783	62	3	1669	3	DEPDC1	1	68949753	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	385375	68949753	180300868	175	77340											
TNNI3K	51086	broad.mit.edu	37	chr1	74957869	74957869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaccggggaggacctggccGgagtcatgtggcagcattaa	10	6	16	9	2	1	0	1	0	0	0	1	4	1	3	3	6	2	2	3	6	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:74957869G>A	uc001dgf.1	+	23	2321	c.2270G>A	c.(2269-2271)CGG>CAG	p.R757Q	TNNI3K_uc001dge.1_Missense_Mutation_p.R858Q	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	757						cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						GGACCTGGCCGGAGTCATGTG	0.488													62	247					0	0	1	0	0		A	74957869	A	A	74957869	3	1	151	1	0	0	0	0	1	0	0	0	16354	1116	39	1	2715	1	TNNI3K	1	74957869	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	6008116	74957869	174292752	176	77341											
C1orf173	127254	broad.mit.edu	37	chr1	75108709	75108709	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagagttatataactccttAccttaaacctctggattcgc	12	13	6	10	1	1	1	0	0	1	1	3	3	2	2	3	1	3	1	3	1	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:75108709A>G	uc001dgg.2	-	4	534	c.315_splice	c.e4+1	p.K105_splice		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254											ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						ATAACTCCTTACCTTAAACCT	0.338													27	100					0	0	1	0	0		G	75108709	G	G	75108709	5	3	151	1	0	0	0	0	0	0	1	0	2017	405	14	3	4319	3	C1orf173	1	75108709	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	150840	75108709	174141912	177	77342											
CRYZ	1429	broad.mit.edu	37	chr1	75188918	75188918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcgaatgtatgtctccaCggggttgacaccacatgcat	11	9	11	10	2	1	2	0	1	1	1	2	3	1	2	2	2	2	3	2	2	2	2	rs138254201	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:75188918C>T	uc001dgk.2	-	4	653	c.148G>A	c.(148-150)GTG>ATG	p.V50M	CRYZ_uc001dgj.2_Missense_Mutation_p.V50M|CRYZ_uc001dgl.2_Missense_Mutation_p.V50M|CRYZ_uc001dgm.2_Translation_Start_Site	NM_001130042	NP_001123514	Q08257	QOR_HUMAN	crystallin, zeta isoform a	50					protein homotetramerization|visual perception|xenobiotic catabolic process	cytosol|Golgi apparatus	mRNA 3'-UTR binding|NADPH binding|NADPH:quinone reductase activity|zinc ion binding				0					Dicumarol(DB00266)	TATGTCTCCACGGGGTTGACA	0.393													33	161					0	0	1	0	0		T	75188918	T	T	75188918	3	4	151	1	0	0	0	0	1	0	0	0	3925	536	19	1	869	1	CRYZ	1	75188918	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	80209	75188918	174061703	178	77343											
LHX8	431707	broad.mit.edu	37	chr1	75606712	75606712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccggtgtctctcctgcagtGtttgcagaacctccctagga	6	12	10	13	1	1	1	0	0	1	1	5	2	4	2	4	2	3	3	4	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:75606712G>A	uc001dgo.2	+	5	974	c.310G>A	c.(310-312)GTT>ATT	p.V104I	LHX8_uc001dgq.2_Missense_Mutation_p.V43I	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	104	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CTCCTGCAGTGTTTGCAGAAC	0.398													42	181					0	0	1	0	0		A	75606712	A	A	75606712	3	1	151	1	0	0	0	0	1	0	0	0	8792	1377	48	4	324	4	LHX8	1	75606712	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	417794	75606712	173643909	179	77344											
RABGGTB	5876	broad.mit.edu	37	chr1	76256992	76256992	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaattgacacaagattctcTttttgtgcggtggcaacttt	10	15	9	7	1	1	2	0	1	1	1	2	3	1	2	0	2	2	1	0	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:76256992T>C	uc001dgy.1	+	5	509	c.438T>C	c.(436-438)TCT>TCC	p.S146S	RABGGTB_uc009wbt.1_RNA|RABGGTB_uc001dha.1_Silent_p.S100S|RABGGTB_uc001dhc.1_5'Flank	NM_004582	NP_004573	P53611	PGTB2_HUMAN	RAB geranylgeranyltransferase, beta subunit	146	PFTB 3.				protein modification process|visual perception		metal ion binding|protein binding|Rab geranylgeranyltransferase activity			ovary(1)	1						CAAGATTCTCTTTTTGTGCGG	0.318													27	154					0	0	1	0	0		C	76256992	C	C	76256992	2	2	151	1	0	0	0	0	0	0	0	1	12993	1596	56	3		3	RABGGTB	1	76256992	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	650280	76256992	172993629	180	77345											
PIGK	10026	broad.mit.edu	37	chr1	77620132	77620132	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataatggtttaagatgaatAcctgctttccatgatttctg	12	16	7	6	0	1	3	0	2	1	1	2	3	2	3	2	1	2	2	2	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:77620132A>G	uc001dhk.2	-	9	1031	c.986_splice	c.e9+1	p.S329_splice	PIGK_uc010orj.1_Splice_Site_p.S253_splice|PIGK_uc009wbx.2_Splice_Site_p.S235_splice|PIGK_uc001dhl.1_Missense_Mutation_p.Y330H	NM_005482	NP_005473	Q92643	GPI8_HUMAN	phosphatidylinositol glycan anchor biosynthesis,						attachment of GPI anchor to protein|C-terminal protein lipidation|protein thiol-disulfide exchange|proteolysis	GPI-anchor transamidase complex	cysteine-type endopeptidase activity|GPI-anchor transamidase activity|protein binding			ovary(2)|pancreas(1)	3						TAAGATGAATACCTGCTTTCC	0.303													13	75					0	0	1	0	0		G	77620132	G	G	77620132	5	3	151	1	0	0	0	0	0	0	1	0	11909	405	14	3	211	3	PIGK	1	77620132	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1363140	77620132	171630489	181	77346											
PIGK	10026	broad.mit.edu	37	chr1	77629529	77629529	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagaagtaatttgctaattAccgtcttttctgccacattt	12	16	5	8	1	2	1	0	0	2	1	2	1	2	1	2	0	3	2	2	0	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:77629529A>G	uc001dhk.2	-	6	629	c.584_splice	c.e6+1	p.R195_splice	PIGK_uc010orj.1_Splice_Site_p.R119_splice|PIGK_uc009wbx.2_Splice_Site_p.R101_splice|PIGK_uc001dhl.1_Splice_Site_p.R195_splice	NM_005482	NP_005473	Q92643	GPI8_HUMAN	phosphatidylinositol glycan anchor biosynthesis,						attachment of GPI anchor to protein|C-terminal protein lipidation|protein thiol-disulfide exchange|proteolysis	GPI-anchor transamidase complex	cysteine-type endopeptidase activity|GPI-anchor transamidase activity|protein binding			ovary(2)|pancreas(1)	3						TTTGCTAATTACCGTCTTTTC	0.294													17	88					0	0	1	0	0		G	77629529	G	G	77629529	5	3	151	1	0	0	0	0	0	0	1	0	11909	405	14	3	625	3	PIGK	1	77629529	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	9397	77629529	171621092	182	77347											
AK5	26289	broad.mit.edu	37	chr1	77752673	77752673	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcccgaagatccagtagaAtacttggaaagttgtttaca	15	10	9	7	1	0	2	0	0	0	2	1	4	1	3	2	1	3	3	2	1	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:77752673A>G	uc001dhn.2	+	2	365	c.108A>G	c.(106-108)GAA>GAG	p.E36E	AK5_uc001dho.2_Silent_p.E10E|AK5_uc001dhm.1_Silent_p.E36E	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	36					ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						ATCCAGTAGAATACTTGGAAA	0.368													4	134					0	0	1	0	0		G	77752673	G	G	77752673	2	3	151	1	0	0	0	0	0	0	0	1	443	98	4	3		3	AK5	1	77752673	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	123144	77752673	171497948	183	77348											
FAM73A	374986	broad.mit.edu	37	chr1	78326981	78326981	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaccgatcactggggtagtActgaaatggaacttgctgct	11	10	12	8	1	1	2	1	1	0	1	1	4	1	3	1	3	4	4	1	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:78326981A>G	uc001dhx.2	+	12	1380	c.1348A>G	c.(1348-1350)ACT>GCT	p.T450A	FAM73A_uc010ork.1_Missense_Mutation_p.T450A|FAM73A_uc010orl.1_Missense_Mutation_p.T412A|FAM73A_uc001dhy.1_3'UTR	NM_198549	NP_940951	Q8NAN2	FA73A_HUMAN	hypothetical protein LOC374986	450						integral to membrane				ovary(1)	1				Colorectal(170;0.226)		CTGGGGTAGTACTGAAATGGA	0.313													20	93					0	0	1	0	0		G	78326981	G	G	78326981	3	3	151	1	0	0	0	0	1	0	0	0	5631	391	14	3	1394	3	FAM73A	1	78326981	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	574308	78326981	170923640	184	77349											
FAM73A	374986	broad.mit.edu	37	chr1	78329681	78329681	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatacagaatgtagtaaatAatcgatggctaaactcatcc	16	10	6	9	1	1	1	1	0	0	1	3	2	2	1	2	1	2	3	2	1	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:78329681A>G	uc001dhx.2	+	13	1509	c.1477A>G	c.(1477-1479)AAT>GAT	p.N493D	FAM73A_uc010ork.1_Missense_Mutation_p.N493D|FAM73A_uc010orl.1_Missense_Mutation_p.N455D	NM_198549	NP_940951	Q8NAN2	FA73A_HUMAN	hypothetical protein LOC374986	493						integral to membrane				ovary(1)	1				Colorectal(170;0.226)		TGTAGTAAATAATCGATGGCT	0.294													20	85					0	0	1	0	0		G	78329681	G	G	78329681	3	3	151	1	0	0	0	0	1	0	0	0	5631	362	13	3	1527	3	FAM73A	1	78329681	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2700	78329681	170920940	185	77350											
LPHN2	23266	broad.mit.edu	37	chr1	82372891	82372891	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagactgctacctccccgAtgccttcaaaattatgactc	11	11	5	14	1	1	2	1	1	0	1	3	3	2	2	4	0	4	1	4	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:82372891A>T	uc001dit.3	+	4	444	c.263A>T	c.(262-264)GAT>GTT	p.D88V	LPHN2_uc001dis.2_Missense_Mutation_p.D88V|LPHN2_uc001diu.2_Missense_Mutation_p.D88V|LPHN2_uc001div.2_Missense_Mutation_p.D88V|LPHN2_uc009wcd.2_Missense_Mutation_p.D88V	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	88	Extracellular (Potential).|SUEL-type lectin.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		TACCTCCCCGATGCCTTCAAA	0.383													33	118					0	0	1	0	0		T	82372891	T	T	82372891	3	4	151	1	0	0	0	0	1	0	0	0	8934	333	12	5	269	5	LPHN2	1	82372891	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4043210	82372891	166877730	186	77351											
DNASE2B	58511	broad.mit.edu	37	chr1	84864332	84864332	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggggtgctgggggcagcaAcaatttcatgcagaaatgaa	12	9	14	6	0	1	2	1	1	0	1	1	2	1	2	0	4	4	4	0	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:84864332A>G	uc001djt.1	+	1	118	c.85A>G	c.(85-87)ACA>GCA	p.T29A	UOX_uc009wcg.2_5'Flank	NM_021233	NP_067056	Q8WZ79	DNS2B_HUMAN	deoxyribonuclease II beta isoform 1 precursor	29					DNA metabolic process	lysosome	deoxyribonuclease II activity				0				all cancers(265;0.00303)|Epithelial(280;0.0112)|OV - Ovarian serous cystadenocarcinoma(397;0.0808)		GGGGGCAGCAACAATTTCATG	0.468								Direct_reversal_of_damage					5	241					0	0	1	0	0		G	84864332	G	G	84864332	3	3	151	1	0	0	0	0	1	0	0	0	4671	43	2	3	87	3	DNASE2B	1	84864332	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2491441	84864332	164386289	187	77352											
SSX2IP	117178	broad.mit.edu	37	chr1	85130189	85130189	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttctcttcatatcatgaTtatactgagtagctcgactt	9	18	5	9	1	3	2	2	2	1	0	5	3	3	2	0	0	2	2	0	0	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:85130189T>C	uc001dkh.2	-	7	859	c.584A>G	c.(583-585)AAT>AGT	p.N195S	SSX2IP_uc001dkf.2_Missense_Mutation_p.N168S|SSX2IP_uc001dkg.2_RNA|SSX2IP_uc010orz.1_Missense_Mutation_p.N168S|SSX2IP_uc001dki.2_Missense_Mutation_p.N195S|SSX2IP_uc010osa.1_Missense_Mutation_p.N168S|SSX2IP_uc001dkj.2_Missense_Mutation_p.N195S|SSX2IP_uc009wci.2_Intron|SSX2IP_uc001dkk.1_Missense_Mutation_p.N191S	NM_014021	NP_054740	Q9Y2D8	ADIP_HUMAN	synovial sarcoma, X breakpoint 2 interacting	195	Potential.				cell adhesion	nucleus|protein complex				ovary(2)	2				all cancers(265;0.0053)|Epithelial(280;0.0214)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		CATATCATGATTATACTGAGT	0.323													29	167					0	0	1	0	0		C	85130189	C	C	85130189	3	2	151	1	0	0	0	0	1	0	0	0	15229	1493	52	3	1296	3	SSX2IP	1	85130189	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	265857	85130189	164120432	188	77353											
MCOLN2	255231	broad.mit.edu	37	chr1	85424273	85424273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtatatacactgcagctgTagtcatcttcatctgtacca	11	13	7	10	0	4	0	2	0	2	0	4	1	4	0	1	0	4	5	1	0	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:85424273T>C	uc001dkm.2	-	3	591	c.350A>G	c.(349-351)TAC>TGC	p.Y117C	MCOLN2_uc001dkn.2_RNA	NM_153259	NP_694991	Q8IZK6	MCLN2_HUMAN	mucolipin 2	117						integral to membrane	ion channel activity			ovary(3)|upper_aerodigestive_tract(1)	4				all cancers(265;0.0111)|Epithelial(280;0.0263)|OV - Ovarian serous cystadenocarcinoma(397;0.217)		ACTGCAGCTGTAGTCATCTTC	0.368													19	118					0	0	1	0	0		C	85424273	C	C	85424273	3	2	151	1	0	0	0	0	1	0	0	0	9414	1638	57	3	1398	3	MCOLN2	1	85424273	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	294084	85424273	163826348	189	77354											
MCOLN2	255231	broad.mit.edu	37	chr1	85431242	85431242	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataggttacctgtgtggtgAccatgactatcttcaaaatc	11	13	9	8	0	2	2	1	2	1	0	3	3	2	2	2	2	1	1	2	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:85431242A>G	uc001dkm.2	-	2	468	c.227T>C	c.(226-228)GTC>GCC	p.V76A	MCOLN2_uc001dkn.2_RNA	NM_153259	NP_694991	Q8IZK6	MCLN2_HUMAN	mucolipin 2	76						integral to membrane	ion channel activity			ovary(3)|upper_aerodigestive_tract(1)	4				all cancers(265;0.0111)|Epithelial(280;0.0263)|OV - Ovarian serous cystadenocarcinoma(397;0.217)		CTGTGTGGTGACCATGACTAT	0.393													21	80					0	0	1	0	0		G	85431242	G	G	85431242	3	3	151	1	0	0	0	0	1	0	0	0	9414	275	10	3	1525	3	MCOLN2	1	85431242	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6969	85431242	163819379	190	77355											
WDR63	126820	broad.mit.edu	37	chr1	85598648	85598648	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaccttggcctaatcaaagtCacagagaaggggtcatacat	15	8	9	9	0	3	1	3	0	0	1	3	2	3	1	2	3	2	0	2	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:85598648C>G	uc001dkt.2	+	23	2834	c.2643C>G	c.(2641-2643)GTC>GTG	p.V881V	WDR63_uc009wcl.2_Silent_p.V842V	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	881										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		TAATCAAAGTCACAGAGAAGG	0.398													47	191					0	0	1	0	0		G	85598648	G	G	85598648	2	3	151	1	0	0	0	0	0	0	0	1	17340	813	29	5		5	WDR63	1	85598648	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	167406	85598648	163651973	191	77356											
COL24A1	255631	broad.mit.edu	37	chr1	86591117	86591117	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgttcttgtcttttatacAcggtttcagaatcatttttt	7	21	7	6	1	4	1	2	0	2	1	4	1	4	1	0	2	1	2	0	2	3	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:86591117A>G	uc001dlj.2	-	3	944	c.902T>C	c.(901-903)GTG>GCG	p.V301A	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.V301A	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	301					cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		TCTTTTATACACGGTTTCAGA	0.398													40	174					0	0	1	0	0		G	86591117	G	G	86591117	3	3	151	1	0	0	0	0	1	0	0	0	3686	159	6	3	4474	3	COL24A1	1	86591117	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	992469	86591117	162659504	192	77357											
COL24A1	255631	broad.mit.edu	37	chr1	86591185	86591185	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaaatgtatcctctgacagTactttttcagcaaatagttt	12	16	6	7	0	2	1	1	1	1	0	3	1	3	1	1	0	2	5	1	0	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:86591185T>C	uc001dlj.2	-	3	876	c.834A>G	c.(832-834)GTA>GTG	p.V278V	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Silent_p.V278V	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	278					cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		CCTCTGACAGTACTTTTTCAG	0.378													33	199					0	0	1	0	0		C	86591185	C	C	86591185	2	2	151	1	0	0	0	0	0	0	0	1	3686	1625	57	3		3	COL24A1	1	86591185	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	68	86591185	162659436	193	77358											
CLCA2	9635	broad.mit.edu	37	chr1	86921029	86921029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatctaacattgcccaggCgcctctgtttattcccccca	7	13	6	15	1	2	0	0	0	2	0	3	0	3	0	5	1	2	2	5	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:86921029C>T	uc001dlr.3	+	14	2813	c.2651C>T	c.(2650-2652)GCG>GTG	p.A884V		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor	884	Extracellular (Potential).				cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		ATTGCCCAGGCGCCTCTGTTT	0.418													115	324					0	0	1	0	0		T	86921029	T	T	86921029	3	4	151	1	0	0	0	0	1	0	0	0	3461	768	27	1	2705	1	CLCA2	1	86921029	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	329844	86921029	162329592	194	77359											
CCBL2	56267	broad.mit.edu	37	chr1	89408756	89408756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagttacagaatgctgaaaCggggatggctgatagtttct	11	12	13	5	1	1	4	0	3	1	1	1	5	1	5	0	3	3	4	0	3	4	3	rs145574653	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:89408756C>T	uc001dmp.2	-	13	1611	c.1234G>A	c.(1234-1236)GTT>ATT	p.V412I	CCBL2_uc001dmq.2_Missense_Mutation_p.V378I|CCBL2_uc001dmr.2_Missense_Mutation_p.V248I	NM_001008661	NP_001008661	Q6YP21	KAT3_HUMAN	kynurenine aminotransferase III isoform 1	412					biosynthetic process|kynurenine metabolic process|tryptophan catabolic process		cysteine-S-conjugate beta-lyase activity|kynurenine-glyoxylate transaminase activity|kynurenine-oxoglutarate transaminase activity|pyridoxal phosphate binding			ovary(1)	1		Lung NSC(277;0.123)		all cancers(265;0.0117)|Epithelial(280;0.0341)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AATGCTGAAACGGGGATGGCT	0.318													61	216					0	0	1	0	0		T	89408756	T	T	89408756	3	4	151	1	0	0	0	0	1	0	0	0	2736	536	19	1	138	1	CCBL2	1	89408756	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2487727	89408756	159841865	195	77360											
GBP3	2635	broad.mit.edu	37	chr1	89479832	89479832	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggttgtccatctgcttccaAgtccagggagaaatctctca	9	11	10	11	0	3	1	1	0	2	1	7	2	6	1	3	2	1	2	3	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:89479832A>G	uc001dmt.2	-	5	764	c.559T>C	c.(559-561)TTG>CTG	p.L187L	GBP3_uc010oss.1_Silent_p.L108L|GBP3_uc001dmu.2_Silent_p.L53L|GBP3_uc001dmv.2_RNA	NM_018284	NP_060754	Q9H0R5	GBP3_HUMAN	guanylate binding protein 3	187						integral to membrane	GTP binding|GTPase activity			ovary(1)|pancreas(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0103)|Epithelial(280;0.0293)		TCTGCTTCCAAGTCCAGGGAG	0.458													38	160					0	0	1	0	0		G	89479832	G	G	89479832	2	3	151	1	0	0	0	0	0	0	0	1	6290	69	3	3		3	GBP3	1	89479832	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	71076	89479832	159770789	196	77361											
GBP6	163351	broad.mit.edu	37	chr1	89848299	89848299	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatactgccaggctaaacTcaatgagctctcaaagggac	14	8	8	11	0	3	1	3	1	1	0	4	2	3	2	1	2	4	2	1	2	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:89848299T>G	uc001dnf.2	+	8	1503	c.1229T>G	c.(1228-1230)CTC>CGC	p.L410R	GBP6_uc010ost.1_Missense_Mutation_p.L280R	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	410							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		CAGGCTAAACTCAATGAGCTC	0.433													30	142					0	0	1	0	0		G	89848299	G	G	89848299	3	3	151	1	0	0	0	0	1	0	0	0	6293	1551	54	5	1255	5	GBP6	1	89848299	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	368467	89848299	159402322	197	77362											
LRRC8B	23507	broad.mit.edu	37	chr1	90058418	90058418	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgatgaatttgtcccctcAtgtgggtgagctgtcaaacc	8	13	10	10	0	2	3	2	3	0	0	3	3	3	3	3	1	2	1	3	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:90058418A>G	uc001dni.2	+	8	2735	c.2228A>G	c.(2227-2229)CAT>CGT	p.H743R	LRRC8B_uc001dnh.2_Missense_Mutation_p.H743R|LRRC8B_uc001dnj.2_Missense_Mutation_p.H743R	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	743	LRR 12.					integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		TTGTCCCCTCATGTGGGTGAG	0.443													50	196					0	0	1	0	0		G	90058418	G	G	90058418	3	3	151	1	0	0	0	0	1	0	0	0	9040	217	8	3	2234	3	LRRC8B	1	90058418	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	210119	90058418	159192203	198	77363											
ZNF326	284695	broad.mit.edu	37	chr1	90493124	90493124	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgagggaaatatacagggagTaggggaaggaggggaagtag	15	4	20	2	1	0	0	0	0	0	0	0	6	0	5	0	7	1	2	0	7	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:90493124T>C	uc001dnq.2	+	12	1752	c.1613T>C	c.(1612-1614)GTA>GCA	p.V538A	ZNF326_uc009wda.1_Missense_Mutation_p.V449A|ZNF326_uc001dnr.2_Missense_Mutation_p.V332A	NM_182976	NP_892021	Q5BKZ1	ZN326_HUMAN	zinc finger protein 326 isoform 1	538	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	DNA binding			ovary(1)	1		all_lung(203;0.0116)|Lung NSC(277;0.0417)		all cancers(265;0.00728)|Epithelial(280;0.0265)		atacagggagtaggggaagga	0.04													7	17					0	0	1	0	0		C	90493124	C	C	90493124	3	2	151	1	0	0	0	0	1	0	0	0	17871	1638	57	3	1663	3	ZNF326	1	90493124	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	434706	90493124	158757497	199	77364											
ZNF644	84146	broad.mit.edu	37	chr1	91405701	91405701	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagaatgatggctcttcggTactgaaagtagcaggtgact	11	11	13	6	1	1	4	0	3	1	1	2	4	1	4	0	3	2	5	0	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:91405701T>C	uc001dnw.2	-	3	1352	c.1210A>G	c.(1210-1212)ACC>GCC	p.T404A	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.T404A	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	404					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		GGCTCTTCGGTACTGAAAGTA	0.398													15	268					0	0	1	0	0		C	91405701	C	C	91405701	3	2	151	1	0	0	0	0	1	0	0	0	18085	1638	57	3	2789	3	ZNF644	1	91405701	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	912577	91405701	157844920	200	77365											
ZNF644	84146	broad.mit.edu	37	chr1	91406703	91406703	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaggcagagtcaacgtatTatttttctgaaatgatgttt	11	17	8	5	1	3	3	2	2	1	1	3	3	3	3	0	1	1	3	0	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:91406703T>C	uc001dnw.2	-	3	350	c.208A>G	c.(208-210)AAT>GAT	p.N70D	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.N70D	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	70					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		GTCAACGTATTATTTTTCTGA	0.393													45	214					0	0	1	0	0		C	91406703	C	C	91406703	3	2	151	1	0	0	0	0	1	0	0	0	18085	1754	61	3	3791	3	ZNF644	1	91406703	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1002	91406703	157843918	201	77366											
CDC7	8317	broad.mit.edu	37	chr1	91977451	91977451	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccgtgatgttaagcccagCaattttttatataataggcg	12	13	8	8	2	0	1	0	1	0	0	0	1	0	1	2	1	2	2	2	1	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:91977451C>T	uc001doe.2	+	6	708	c.543C>T	c.(541-543)AGC>AGT	p.S181S	CDC7_uc001dof.2_Silent_p.S181S|CDC7_uc010osw.1_Silent_p.S153S|CDC7_uc009wdc.2_Silent_p.S181S|CDC7_uc009wdd.2_5'Flank	NM_003503	NP_003494	O00311	CDC7_HUMAN	cell division cycle 7	181	Protein kinase.				cell cycle checkpoint|cell division|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|positive regulation of cell proliferation|regulation of S phase	cytoplasm|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	5		all_lung(203;0.0165)|Lung NSC(277;0.0562)		all cancers(265;0.00108)|Epithelial(280;0.0184)|KIRC - Kidney renal clear cell carcinoma(1967;0.124)		TTAAGCCCAGCAATTTTTTAT	0.289													11	85					0	0	1	0	0		T	91977451	T	T	91977451	2	4	151	1	0	0	0	0	0	0	0	1	3087	709	25	2		2	CDC7	1	91977451	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	570748	91977451	157273170	202	77367											
GLMN	11146	broad.mit.edu	37	chr1	92728468	92728468	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaaatacctcaataaattTaatgaagccataatcctgtt	17	12	3	9	0	1	1	1	1	0	0	2	1	2	1	4	0	2	1	4	0	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:92728468T>C	uc001dor.2	-	16	1540	c.1425A>G	c.(1423-1425)TTA>TTG	p.L475L	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Silent_p.L461L	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	475					muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		TCAATAAATTTAATGAAGCCA	0.264									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				10	31					0	0	1	0	0		C	92728468	C	C	92728468	2	2	151	1	0	0	0	0	0	0	0	1	6463	1751	61	3		3	GLMN	1	92728468	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	751017	92728468	156522153	203	77368											
CCDC18	343099	broad.mit.edu	37	chr1	93705385	93705385	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaggaattgagagatgtActacagaaggctcaattatc	14	10	9	8	0	1	3	1	1	0	2	3	5	2	4	1	2	2	2	1	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:93705385A>G	uc001dpq.2	+	21	3435	c.3267A>G	c.(3265-3267)GTA>GTG	p.V1089V	CCDC18_uc009wdl.1_Silent_p.V606V	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	970	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		TGAGAGATGTACTACAGAAGG	0.343													21	100					0	0	1	0	0		G	93705385	G	G	93705385	2	3	151	1	0	0	0	0	0	0	0	1	2797	378	14	3		3	CCDC18	1	93705385	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	976917	93705385	155545236	204	77369											
ABCA4	24	broad.mit.edu	37	chr1	94544999	94544999	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgactccaggctctggatcAatgcattacaaaaggatgct	12	11	9	9	0	2	1	1	1	1	0	3	3	3	3	1	3	3	3	1	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:94544999A>G	uc001dqh.2	-	9	1222	c.1118T>C	c.(1117-1119)TTG>TCG	p.L373S	ABCA4_uc010otn.1_Missense_Mutation_p.L373S	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	373	Extracellular.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		GCTCTGGATCAATGCATTACA	0.443													25	115					0	0	1	0	0		G	94544999	G	G	94544999	3	3	151	1	0	0	0	0	1	0	0	0	34	131	5	3	5871	3	ABCA4	1	94544999	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	839614	94544999	154705622	205	77370											
ABCD3	5825	broad.mit.edu	37	chr1	94941258	94941258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagatgtagaaaaattttgtAacagtgtagtcgatctgtat	15	14	9	3	1	1	2	0	0	1	2	2	3	1	2	0	0	1	4	0	0	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:94941258A>G	uc001dqn.3	+	7	694	c.592A>G	c.(592-594)AAC>GAC	p.N198D	ABCD3_uc001dqm.3_Missense_Mutation_p.N198D|ABCD3_uc010oto.1_Missense_Mutation_p.N222D|ABCD3_uc010otp.1_Missense_Mutation_p.N125D|ABCD3_uc009wdr.2_Missense_Mutation_p.N198D	NM_002858	NP_002849	P28288	ABCD3_HUMAN	ATP-binding cassette, sub-family D, member 3	198	ABC transmembrane type-1.|Interaction with PEX19.				peroxisomal long-chain fatty acid import|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(1)	1		all_lung(203;0.000434)|Lung NSC(277;0.0019)		all cancers(265;0.0261)|Epithelial(280;0.165)		AAAATTTTGTAACAGTGTAGT	0.294													4	100					0	0	1	0	0		G	94941258	G	G	94941258	3	3	151	1	0	0	0	0	1	0	0	0	62	362	13	3	618	3	ABCD3	1	94941258	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	396259	94941258	154309363	206	77371											
ABCD3	5825	broad.mit.edu	37	chr1	94980753	94980753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaaatctctttggaaacatCatgaggtttgtatttctttc	10	17	8	6	0	3	1	1	1	2	0	5	3	3	3	0	3	1	2	0	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:94980753C>T	uc001dqn.3	+	22	1999	c.1897C>T	c.(1897-1899)CAT>TAT	p.H633Y	ABCD3_uc010oto.1_Missense_Mutation_p.H657Y|ABCD3_uc010otp.1_Missense_Mutation_p.H560Y|ABCD3_uc009wdr.2_Missense_Mutation_p.H523Y|ABCD3_uc001dqo.3_Missense_Mutation_p.H321Y	NM_002858	NP_002849	P28288	ABCD3_HUMAN	ATP-binding cassette, sub-family D, member 3	633	ABC transporter.			VGITLFTVSHRKSLWKHHE -> GWHHSLHLCLIGNLFGNI MR (in Ref. 3; CAA58470).	peroxisomal long-chain fatty acid import|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(1)	1		all_lung(203;0.000434)|Lung NSC(277;0.0019)		all cancers(265;0.0261)|Epithelial(280;0.165)		TTGGAAACATCATGAGGTTTG	0.289													38	140					0	0	1	0	0		T	94980753	T	T	94980753	3	4	151	1	0	0	0	0	1	0	0	0	62	826	29	4	2014	4	ABCD3	1	94980753	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	39495	94980753	154269868	207	77372											
RWDD3	25950	broad.mit.edu	37	chr1	95709937	95709937	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtgtgactgtgaaagagAatttacttgagcaagcagag	14	10	13	4	0	0	5	0	3	0	2	0	6	0	5	0	0	3	2	0	0	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:95709937A>G	uc009wdu.2	+	2	332	c.256A>G	c.(256-258)AAT>GAT	p.N86D	RWDD3_uc001drd.3_3'UTR|RWDD3_uc010oty.1_Missense_Mutation_p.N71D|RWDD3_uc009wdt.2_Missense_Mutation_p.N86D|RWDD3_uc001drf.3_Missense_Mutation_p.N86D|RWDD3_uc001drh.3_Missense_Mutation_p.N71D|RWDD3_uc009wdv.2_Intron|RWDD3_uc001drg.3_RNA|RWDD3_uc001dri.3_Missense_Mutation_p.N86D	NM_015485	NP_056300	Q9Y3V2	RWDD3_HUMAN	RWD domain containing 3 isoform a	86	RWD.					cytoplasm|nucleus	protein binding			ovary(1)	1		all_epithelial(167;5.99e-05)|all_lung(203;0.00168)|Lung NSC(277;0.00769)		all cancers(265;0.112)|Epithelial(280;0.229)		TGTGAAAGAGAATTTACTTGA	0.463													40	143					0	0	1	0	0		G	95709937	G	G	95709937	3	3	151	1	0	0	0	0	1	0	0	0	13782	246	9	3	262	3	RWDD3	1	95709937	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	729184	95709937	153540684	208	77373											
RWDD3	25950	broad.mit.edu	37	chr1	95710148	95710148	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagcaaagactaaatatgTcaaaattgtggagaagtggg	17	8	13	3	0	1	3	1	0	0	3	1	5	1	3	0	2	1	1	0	2	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:95710148T>C	uc009wdu.2	+	2	543	c.467T>C	c.(466-468)GTC>GCC	p.V156A	RWDD3_uc001drd.3_3'UTR|RWDD3_uc010oty.1_Missense_Mutation_p.V141A|RWDD3_uc009wdt.2_Missense_Mutation_p.V156A|RWDD3_uc001drf.3_Missense_Mutation_p.V156A|RWDD3_uc001drh.3_Missense_Mutation_p.V141A|RWDD3_uc009wdv.2_RNA|RWDD3_uc001drg.3_RNA|RWDD3_uc001dri.3_Missense_Mutation_p.V156A	NM_015485	NP_056300	Q9Y3V2	RWDD3_HUMAN	RWD domain containing 3 isoform a	156						cytoplasm|nucleus	protein binding			ovary(1)	1		all_epithelial(167;5.99e-05)|all_lung(203;0.00168)|Lung NSC(277;0.00769)		all cancers(265;0.112)|Epithelial(280;0.229)		ACTAAATATGTCAAAATTGTG	0.383													6	186					0	0	1	0	0		C	95710148	C	C	95710148	3	2	151	1	0	0	0	0	1	0	0	0	13782	1667	58	3	473	3	RWDD3	1	95710148	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	211	95710148	153540473	209	77374											
FRRS1	391059	broad.mit.edu	37	chr1	100212942	100212942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcagatcctcagcattacGcgcttctaggagaaagcctt	11	11	8	11	2	3	2	2	0	1	2	4	3	4	2	2	1	3	2	2	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:100212942G>A	uc001dsh.1	-	4	843	c.241C>T	c.(241-243)CGT>TGT	p.R81C		NM_001013660	NP_001013682	Q6ZNA5	FRRS1_HUMAN	stromal cell derived factor receptor 2 homolog	81	Reelin.				electron transport chain|transport	integral to membrane	ferric-chelate reductase activity|metal ion binding			skin(1)	1		all_epithelial(167;2.09e-06)|all_lung(203;0.000435)|Lung NSC(277;0.00201)		Epithelial(280;0.0718)|all cancers(265;0.126)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.206)		TCAGCATTACGCGCTTCTAGG	0.388													39	174					0	0	1	0	0		A	100212942	A	A	100212942	3	1	151	1	0	0	0	0	1	0	0	0	6074	1087	38	1	1695	1	FRRS1	1	100212942	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4502794	100212942	149037679	210	77375											
CDC14A	8556	broad.mit.edu	37	chr1	100964808	100964808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagcgagattcctgagccGttctatccctgtaagtgcgc	7	12	10	12	3	2	2	1	1	1	1	4	3	4	2	3	0	3	2	3	0	2	5	rs148639495	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:100964808G>A	uc001dtg.3	+	15	2233	c.1745G>A	c.(1744-1746)CGT>CAT	p.R582H	CDC14A_uc010oui.1_Missense_Mutation_p.R524H|CDC14A_uc001dtf.2_Missense_Mutation_p.R582H|CDC14A_uc009wed.1_Missense_Mutation_p.R289H|CDC14A_uc009wee.2_Missense_Mutation_p.R582H	NM_003672	NP_003663	Q9UNH5	CC14A_HUMAN	CDC14 homolog A isoform 1	582					cell cycle|cell division|cell proliferation	centrosome|nucleus|spindle	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			large_intestine(1)	1		all_epithelial(167;3.71e-06)|all_lung(203;0.00097)|Lung NSC(277;0.001)		Epithelial(280;0.0676)|all cancers(265;0.127)|COAD - Colon adenocarcinoma(174;0.201)|Lung(183;0.227)|Colorectal(144;0.241)		TTCCTGAGCCGTTCTATCCCT	0.592													32	104					0	0	1	0	0		A	100964808	A	A	100964808	3	1	151	1	0	0	0	0	1	0	0	0	3059	1145	40	1	1818	1	CDC14A	1	100964808	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	751866	100964808	148285813	211	77376											
VCAM1	7412	broad.mit.edu	37	chr1	101194879	101194879	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaacgaacactcttatcTgtgcacagtgacttgtggac	11	11	10	9	1	2	2	0	2	2	1	2	5	2	3	0	1	3	1	0	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:101194879T>A	uc001dti.2	+	5	1265	c.1145T>A	c.(1144-1146)CTG>CAG	p.L382Q	VCAM1_uc001dtj.2_Intron|VCAM1_uc010ouj.1_Missense_Mutation_p.L320Q	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	382	Ig-like C2-type 4.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	CACTCTTATCTGTGCACAGTG	0.468													56	214					0	0	1	0	0		A	101194879	A	A	101194879	3	1	151	1	0	0	0	0	1	0	0	0	17163	1580	55	5	1163	5	VCAM1	1	101194879	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	230071	101194879	148055742	212	77377											
SLC30A7	148867	broad.mit.edu	37	chr1	101387377	101387377	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctatctgttcaattcttatAgccattcttatagttgtaag	10	18	5	8	0	4	0	1	0	3	0	4	0	4	0	2	0	1	3	2	0	7	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:101387377A>G	uc001dtn.2	+	8	1009	c.822A>G	c.(820-822)ATA>ATG	p.I274M	SLC30A7_uc001dto.2_Missense_Mutation_p.I274M	NM_001144884	NP_001138356	Q8NEW0	ZNT7_HUMAN	zinc transporter like 2	274	Helical; (Potential).				zinc ion transport	Golgi apparatus|integral to membrane	cation transmembrane transporter activity|protein binding				0		all_epithelial(167;0.000445)|all_lung(203;0.00645)|Lung NSC(277;0.0119)		Epithelial(280;0.0437)|all cancers(265;0.0498)|COAD - Colon adenocarcinoma(174;0.162)|Colorectal(144;0.19)|Lung(183;0.201)		CAATTCTTATAGCCATTCTTA	0.323													43	155					0	0	1	0	0		G	101387377	G	G	101387377	3	3	151	1	0	0	0	0	1	0	0	0	14585	410	15	3	852	3	SLC30A7	1	101387377	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	192498	101387377	147863244	213	77378											
SLC30A7	148867	broad.mit.edu	37	chr1	101431471	101431471	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacacataatatttttacTcaggtatgtcttttttacta	13	18	3	7	0	2	0	1	0	1	0	2	0	2	0	0	1	3	1	0	1	7	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:101431471T>C	uc001dtn.2	+	10	1267	c.1080T>C	c.(1078-1080)ACT>ACC	p.T360T	SLC30A7_uc001dto.2_Silent_p.T360T	NM_001144884	NP_001138356	Q8NEW0	ZNT7_HUMAN	zinc transporter like 2	360	Cytoplasmic (Potential).				zinc ion transport	Golgi apparatus|integral to membrane	cation transmembrane transporter activity|protein binding				0		all_epithelial(167;0.000445)|all_lung(203;0.00645)|Lung NSC(277;0.0119)		Epithelial(280;0.0437)|all cancers(265;0.0498)|COAD - Colon adenocarcinoma(174;0.162)|Colorectal(144;0.19)|Lung(183;0.201)		ATATTTTTACTCAGGTATGTC	0.269													28	176					0	0	1	0	0		C	101431471	C	C	101431471	2	2	151	1	0	0	0	0	0	0	0	1	14585	1538	54	3		3	SLC30A7	1	101431471	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	44094	101431471	147819150	214	77379											
AMY2A	279	broad.mit.edu	37	chr1	104160673	104160673	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	taaattatgcacaagatctgGaaatgaagatgaatttagaa	19	11	8	3	0	1	5	0	2	1	3	1	6	1	6	0	1	1	1	0	1	9	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:104160673G>C	uc001dut.2	+	2	330	c.266G>C	c.(265-267)GGA>GCA	p.G89A	AMY2A_uc010ouq.1_Missense_Mutation_p.G89A	NM_000699	NP_000690	P04746	AMYP_HUMAN	pancreatic amylase alpha 2A precursor	89					carbohydrate catabolic process|polysaccharide digestion	extracellular space	alpha-amylase activity|calcium ion binding|chloride ion binding			ovary(1)|skin(1)	2		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0654)|all cancers(265;0.0808)|Epithelial(280;0.0921)|Lung(183;0.111)	Acarbose(DB00284)|Bentiromide(DB00522)|Icodextrin(DB00702)|Miglitol(DB00491)|Pancrelipase(DB00085)	ACAAGATCTGGAAATGAAGAT	0.353													62	225					0	0	1	0	0		C	104160673	C	C	104160673	3	2	151	1	0	0	0	0	1	0	0	0	594	1174	41	5	272	5	AMY2A	1	104160673	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2729202	104160673	145089948	215	77380											
NTNG1	22854	broad.mit.edu	37	chr1	107867505	107867505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgagctacacttggcacGctacttttacgcgatctcag	10	11	9	11	3	1	2	1	1	1	1	2	3	1	2	0	1	4	3	0	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:107867505G>A	uc001dvh.3	+	3	1566	c.848G>A	c.(847-849)CGC>CAC	p.R283H	NTNG1_uc001dvf.3_Missense_Mutation_p.R283H|NTNG1_uc010out.1_Missense_Mutation_p.R283H|NTNG1_uc001dvc.3_Missense_Mutation_p.R283H|NTNG1_uc001dvd.1_Missense_Mutation_p.R283H	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	283	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		CACTTGGCACGCTACTTTTAC	0.453													17	78					0	0	1	0	0		A	107867505	A	A	107867505	3	1	151	1	0	0	0	0	1	0	0	0	10723	1087	38	1	854	1	NTNG1	1	107867505	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3706832	107867505	141383116	216	77381											
VAV3	10451	broad.mit.edu	37	chr1	108507366	108507366	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttaagcagctggcagagCaggactccatcgcggagggt	9	8	15	9	2	0	1	0	0	0	1	2	3	1	3	1	4	3	5	1	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:108507366C>T	uc001dvk.1	-	1	180	c.126G>A	c.(124-126)CTG>CTA	p.L42L	VAV3_uc010ouw.1_Silent_p.L42L|VAV3_uc001dvl.1_5'Flank|VAV3_uc010oux.1_Silent_p.L42L	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	42	CH.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		GCTGGCAGAGCAGGACTCCAT	0.637													12	22					0	0	1	0	0		T	108507366	T	T	108507366	2	4	151	1	0	0	0	0	0	0	0	1	17159	697	25	2		2	VAV3	1	108507366	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	639861	108507366	140743255	217	77382											
TAF13	6884	broad.mit.edu	37	chr1	109607261	109607261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctttcgaatcaagaagaCgatatcttcaacttgtactc	12	13	6	10	2	3	2	2	0	1	2	6	4	4	2	1	0	2	1	1	0	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:109607261C>T	uc001dwm.1	-	4	314	c.259G>A	c.(259-261)GTC>ATC	p.V87I		NM_005645	NP_005636	Q15543	TAF13_HUMAN	TBP-associated factor 13	87					transcription elongation from RNA polymerase II promoter|viral reproduction	transcription factor TFIID complex	protein C-terminus binding|sequence-specific DNA binding transcription factor activity				0		all_epithelial(167;0.000102)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0138)|Lung(183;0.0425)|COAD - Colon adenocarcinoma(174;0.113)|Epithelial(280;0.166)|all cancers(265;0.191)|LUSC - Lung squamous cell carcinoma(189;0.228)		ATCAAGAAGACGATATCTTCA	0.343													70	310					0	0	1	0	0		T	109607261	T	T	109607261	3	4	151	1	0	0	0	0	1	0	0	0	15542	536	19	1	119	1	TAF13	1	109607261	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1099895	109607261	139643360	218	77383											
KIAA1324	57535	broad.mit.edu	37	chr1	109742806	109742806	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcatctctgcaggcacctgTactgccatcctgctcaccgt	6	10	9	16	1	2	0	1	0	1	0	4	0	3	0	4	2	4	5	4	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:109742806T>C	uc001dwq.2	+	21	2890	c.2754T>C	c.(2752-2754)TGT>TGC	p.C918C	KIAA1324_uc009wex.1_Silent_p.C868C|KIAA1324_uc009wey.2_Silent_p.C831C|KIAA1324_uc010ovg.1_Silent_p.C816C|KIAA1324_uc001dwr.2_Silent_p.C568C|KIAA1324_uc001dws.1_RNA|KIAA1324_uc009wez.1_RNA	NM_020775	NP_065826	Q6UXG2	K1324_HUMAN	hypothetical protein LOC57535 precursor	918	Helical; (Potential).				macroautophagy|positive regulation of vacuole organization|regulation of apoptosis	integral to plasma membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	5		all_epithelial(167;0.000102)|all_lung(203;0.000323)|Lung NSC(277;0.00063)		Colorectal(144;0.0188)|Lung(183;0.0527)|COAD - Colon adenocarcinoma(174;0.14)|Epithelial(280;0.21)|all cancers(265;0.249)		CAGGCACCTGTACTGCCATCC	0.488													50	170					0	0	1	0	0		C	109742806	C	C	109742806	2	2	151	1	0	0	0	0	0	0	0	1	8239	1644	57	3		3	KIAA1324	1	109742806	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	135545	109742806	139507815	219	77384											
CELSR2	1952	broad.mit.edu	37	chr1	109793883	109793883	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtggaggatgacaatgaTaatgccccccagtttagtga	11	11	11	8	0	1	3	0	3	1	0	1	5	1	5	3	2	1	1	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:109793883T>A	uc001dxa.3	+	1	1243	c.1182T>A	c.(1180-1182)GAT>GAA	p.D394E		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	394	Cadherin 2.|Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		ATGACAATGATAATGCCCCCC	0.577													24	105					0	0	1	0	0		A	109793883	A	A	109793883	3	1	151	1	0	0	0	0	1	0	0	0	3225	1403	49	5	1184	5	CELSR2	1	109793883	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	51077	109793883	139456738	220	77385											
GNAT2	2780	broad.mit.edu	37	chr1	110151277	110151277	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcggagtcattaagctggTattctgcagctctctcgaag	9	12	11	9	2	3	0	1	0	2	0	5	2	3	1	0	2	4	4	0	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:110151277T>C	uc001dya.2	-	4	650	c.437A>G	c.(436-438)TAC>TGC	p.Y146C		NM_005272	NP_005263	P19087	GNAT2_HUMAN	guanine nucleotide binding protein, alpha	146					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	G-protein beta/gamma-subunit complex binding|G-protein coupled photoreceptor activity|G-protein-coupled receptor binding|GTP binding|GTPase activity				0		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0422)|Colorectal(144;0.108)|Epithelial(280;0.125)|all cancers(265;0.129)|LUSC - Lung squamous cell carcinoma(189;0.227)		ATTAAGCTGGTATTCTGCAGC	0.517													36	140					0	0	1	0	0		C	110151277	C	C	110151277	3	2	151	1	0	0	0	0	1	0	0	0	6527	1638	57	3	647	3	GNAT2	1	110151277	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	357394	110151277	139099344	221	77386											
EPS8L3	79574	broad.mit.edu	37	chr1	110301149	110301149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatgccccaaacttactgtGctctagggtcctctggtggg	6	11	11	13	0	2	0	0	0	2	0	3	0	3	0	4	3	4	1	4	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:110301149G>A	uc001dyr.1	-	7	743	c.598C>T	c.(598-600)CAC>TAC	p.H200Y	EPS8L3_uc001dys.1_Missense_Mutation_p.H200Y|EPS8L3_uc001dyq.1_Missense_Mutation_p.H201Y|EPS8L3_uc009wfm.1_Missense_Mutation_p.H167Y|EPS8L3_uc009wfn.1_Missense_Mutation_p.H167Y|EPS8L3_uc009wfo.1_Missense_Mutation_p.H147Y	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	200	Pro-rich.					cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		AACTTACTGTGCTCTAGGGTC	0.577													26	94					0	0	1	0	0		A	110301149	A	A	110301149	3	1	151	1	0	0	0	0	1	0	0	0	5205	1319	46	2	1235	2	EPS8L3	1	110301149	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	149872	110301149	138949472	222	77387											
SLC6A17	388662	broad.mit.edu	37	chr1	110734660	110734660	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcttctttgccttgggcCtgggctttggtggtgtcatt	2	17	14	8	0	3	0	1	0	2	0	3	0	3	0	2	5	1	1	2	5	0	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:110734660C>A	uc009wfq.2	+	7	1392	c.931C>A	c.(931-933)CTG>ATG	p.L311M	SLC6A17_uc001dze.1_5'Flank	NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	311	Helical; Name=6; (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		TGCCTTGGGCCTGGGCTTTGG	0.557													11	87					1.08611e-07	1.11002e-07	1	1	0		A	110734660	A	A	110734660	3	1	151	1	0	0	0	0	1	0	0	0	14705	680	24	5	953	5	SLC6A17	1	110734660	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	433511	110734660	138515961	223	77388											
C1orf103	55791	broad.mit.edu	37	chr1	111490689	111490689	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaatggtttcttctaactcCggtggtgtcactgggaaaat	9	13	11	8	2	3	0	1	0	2	0	4	2	4	1	1	4	1	1	1	4	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:111490689C>T	uc001eaa.2	-	4	2458	c.2202G>A	c.(2200-2202)CCG>CCA	p.P734P	C1orf103_uc001dzz.2_Silent_p.P198P|C1orf103_uc001eab.2_Silent_p.P198P|C1orf103_uc001eac.1_Silent_p.P197P	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	734					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		CTTCTAACTCCGGTGGTGTCA	0.378													70	314					0	0	1	0	0		T	111490689	T	T	111490689	2	4	151	1	0	0	0	0	0	0	0	1	1980	639	23	1		1	C1orf103	1	111490689	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	756029	111490689	137759932	224	77389											
CHIA	27159	broad.mit.edu	37	chr1	111857963	111857963	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcatcaaattcctgcgccAgtatgagtttgacgggctgg	9	11	12	9	2	2	2	2	2	0	0	3	2	3	2	2	2	1	3	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:111857963A>C	uc001eas.2	+	6	489	c.386A>C	c.(385-387)CAG>CCG	p.Q129P	CHIA_uc001ear.2_Missense_Mutation_p.Q21P|CHIA_uc001eaq.2_Missense_Mutation_p.Q21P|CHIA_uc009wgc.2_Missense_Mutation_p.Q21P|CHIA_uc001eat.2_Intron|CHIA_uc001eav.2_5'UTR|CHIA_uc001eau.2_Intron|CHIA_uc009wgd.2_Intron	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	129					apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		TTCCTGCGCCAGTATGAGTTT	0.552													30	188					0	0	1	0	0		C	111857963	C	C	111857963	3	2	151	1	0	0	0	0	1	0	0	0	3345	188	7	5	404	5	CHIA	1	111857963	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	367274	111857963	137392658	225	77390											
ADORA3	140	broad.mit.edu	37	chr1	112031596	112031596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtagttgcagatggcagaagCcgtgtccagcacaaagcttc	11	8	12	10	1	0	2	0	0	0	2	2	2	1	2	2	1	4	6	2	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:112031596C>T	uc001ebf.2	-	3	1275	c.508G>A	c.(508-510)GCT>ACT	p.A170T	ADORA3_uc001ebg.3_Missense_Mutation_p.A89T	NM_020683	NP_065734	P33765	AA3R_HUMAN	adenosine A3 receptor isoform 1	Error:Variant_position_missing_in_P33765_after_alignment					activation of adenylate cyclase activity|inflammatory response|regulation of heart contraction	integral to plasma membrane	adenosine receptor activity, G-protein coupled			ovary(2)|large_intestine(1)|skin(1)	4		all_cancers(81;1.63e-06)|all_epithelial(167;5.01e-06)|all_lung(203;8.02e-05)|Lung NSC(277;0.000156)		all cancers(265;0.0185)|Colorectal(144;0.0186)|Lung(183;0.0238)|COAD - Colon adenocarcinoma(174;0.0644)|Epithelial(280;0.0872)|LUSC - Lung squamous cell carcinoma(189;0.134)	Adenosine(DB00640)|Aminophylline(DB01223)	ATGGCAGAAGCCGTGTCCAGC	0.403													25	95					0	0	1	0	0		T	112031596	T	T	112031596	3	4	151	1	0	0	0	0	1	0	0	0	329	739	26	2	551	2	ADORA3	1	112031596	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	173633	112031596	137219025	226	77391											
KCND3	3752	broad.mit.edu	37	chr1	112525069	112525069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcggtagaagttgagcaCgcagcggaacacctcggggt	9	6	16	10	5	0	2	0	1	0	1	1	3	0	3	1	4	4	4	1	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:112525069C>T	uc001ebu.1	-	2	760	c.280G>A	c.(280-282)GTG>ATG	p.V94M	KCND3_uc001ebv.1_Missense_Mutation_p.V94M	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	94	Cytoplasmic (Potential).		V -> M (in a colorectal cancer sample; somatic mutation).			sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding	p.V94M(1)		ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		AAGTTGAGCACGCAGCGGAAC	0.612													17	75					0	0	1	0	0		T	112525069	T	T	112525069	3	4	151	1	0	0	0	0	1	0	0	0	8036	536	19	1	1715	1	KCND3	1	112525069	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	493473	112525069	136725552	227	77392											
PPM1J	333926	broad.mit.edu	37	chr1	113252813	113252813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aactgcctggccctcccaggGggatgacgaagacagagatg	11	5	14	11	1	0	3	0	1	0	2	1	6	1	4	3	3	2	0	3	3	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:113252813G>A	uc001ect.1	-	10	1517	c.1490C>T	c.(1489-1491)CCC>CTC	p.P497L	RHOC_uc001ecq.1_5'Flank|RHOC_uc001ecr.1_5'Flank|RHOC_uc009wgk.1_5'Flank|PPM1J_uc009wgl.1_Intron|PPM1J_uc001ecs.1_Missense_Mutation_p.P291L	NM_005167	NP_005158	Q5JR12	PPM1J_HUMAN	protein phosphatase 1J (PP2C domain containing)	497	PP2C-like.									breast(2)|central_nervous_system(1)	3	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCCTCCCAGGGGGATGACGAA	0.612													25	103					0	0	1	0	0		A	113252813	A	A	113252813	3	1	151	1	0	0	0	0	1	0	0	0	12364	1232	43	4	31	4	PPM1J	1	113252813	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	727744	113252813	135997808	228	77393											
LRIG2	9860	broad.mit.edu	37	chr1	113638869	113638869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctataaccagctgaccCgcctggatgaatctgccttt	8	12	8	13	1	1	2	0	2	1	0	2	3	2	3	5	1	3	1	5	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:113638869C>T	uc001edf.1	+	8	1171	c.973C>T	c.(973-975)CGC>TGC	p.R325C	LRIG2_uc009wgn.1_Missense_Mutation_p.R222C	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	325	LRR 11.|Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		CCAGCTGACCCGCCTGGATGA	0.373													65	197					0	0	1	0	0		T	113638869	T	T	113638869	3	4	151	1	0	0	0	0	1	0	0	0	8963	652	23	1	1003	1	LRIG2	1	113638869	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	386056	113638869	135611752	229	77394											
DCLRE1B	64858	broad.mit.edu	37	chr1	114450657	114450657	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgatacacaccatccatgCtaaaggagccagccctgaca	13	7	7	14	1	0	1	0	1	0	0	2	3	1	2	4	1	4	1	4	1	3	3	rs34762757		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:114450657C>G	uc001eeg.2	+	3	553	c.382C>G	c.(382-384)CTA>GTA	p.L128V	AP4B1_uc001eed.2_5'Flank|AP4B1_uc010owp.1_5'Flank|DCLRE1B_uc001eeh.2_Missense_Mutation_p.L2V|DCLRE1B_uc001eei.2_Missense_Mutation_p.L2V	NM_022836	NP_073747	Q9H816	DCR1B_HUMAN	DNA cross-link repair 1B (PSO2 homolog, S.	128					cell cycle checkpoint|DNA repair|protection from non-homologous end joining at telomere|telomeric 3' overhang formation|telomeric loop formation	centrosome|chromosome, telomeric region|nucleus	5'-3' exonuclease activity|protein binding				0	Lung SC(450;0.184)	all_cancers(81;1.46e-05)|all_epithelial(167;2.42e-05)|all_lung(203;0.000353)|Lung NSC(69;0.000518)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACCATCCATGCTAAAGGAGCC	0.478								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					27	90					0	0	1	0	0		G	114450657	G	G	114450657	3	3	151	1	0	0	0	0	1	0	0	0	4298	796	28	5	392	5	DCLRE1B	1	114450657	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	811788	114450657	134799964	230	77395											
DCLRE1B	64858	broad.mit.edu	37	chr1	114454019	114454019	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctcccaccctgatatcCacgtcatcccttactctgac	9	10	4	18	1	2	2	1	2	1	0	5	2	5	2	4	0	2	1	4	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:114454019C>A	uc001eeg.2	+	4	976	c.805C>A	c.(805-807)CAC>AAC	p.H269N	DCLRE1B_uc001eeh.2_Missense_Mutation_p.H143N|DCLRE1B_uc001eei.2_Missense_Mutation_p.H143N	NM_022836	NP_073747	Q9H816	DCR1B_HUMAN	DNA cross-link repair 1B (PSO2 homolog, S.	269					cell cycle checkpoint|DNA repair|protection from non-homologous end joining at telomere|telomeric 3' overhang formation|telomeric loop formation	centrosome|chromosome, telomeric region|nucleus	5'-3' exonuclease activity|protein binding				0	Lung SC(450;0.184)	all_cancers(81;1.46e-05)|all_epithelial(167;2.42e-05)|all_lung(203;0.000353)|Lung NSC(69;0.000518)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCCTGATATCCACGTCATCCC	0.552								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					25	137					4.72057e-08	4.83085e-08	1	1	0		A	114454019	A	A	114454019	3	1	151	1	0	0	0	0	1	0	0	0	4298	594	21	5	819	5	DCLRE1B	1	114454019	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3362	114454019	134796602	231	77396											
DENND2C	163259	broad.mit.edu	37	chr1	115168676	115168676	+	Translation_Start_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagtaaatgtgaaatattgTattctttatcctgtcagaat	14	16	6	5	0	2	2	1	1	1	1	3	2	3	2	1	0	0	2	1	0	8	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:115168676T>C	uc001efd.1	-	4	632	c.-70A>G	c.(-72--68)ATACA>ATGCA		DENND2C_uc001eez.2_RNA|DENND2C_uc001efc.1_Translation_Start_Site	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C											skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGAAATATTGTATTCTTTATC	0.328													10	42					0	0	1	0	0		C	115168676	C	C	115168676	1	2	151	1	0	0	0	0	0	0	0	0	4436	1653	57	3		3	DENND2C	1	115168676	Translation_Start_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	714657	115168676	134081945	232	77397											
IGSF3	3321	broad.mit.edu	37	chr1	117122169	117122169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgagccggtagagcaccGgggagagcctctggaagcga	9	5	17	10	3	1	3	0	1	1	2	1	6	1	4	3	4	4	2	3	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:117122169G>A	uc001egr.1	-	10	3884	c.3179C>T	c.(3178-3180)CCG>CTG	p.P1060L	IGSF3_uc001egq.1_Missense_Mutation_p.P1080L	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	1060	Ig-like C2-type 8.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		GTAGAGCACCGGGGAGAGCCT	0.637													5	59					0	0	1	0	0		A	117122169	A	A	117122169	3	1	151	1	0	0	0	0	1	0	0	0	7617	1116	39	1	413	1	IGSF3	1	117122169	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1953493	117122169	132128452	233	77398											
IGSF3	3321	broad.mit.edu	37	chr1	117156447	117156447	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggtcatagcataccacgAcccatccggatcctggatcc	9	8	9	15	3	1	0	1	0	0	0	5	3	4	2	5	3	2	1	5	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:117156447A>G	uc001egr.1	-	4	1477	c.772T>C	c.(772-774)TCG>CCG	p.S258P	IGSF3_uc001egq.1_Missense_Mutation_p.S258P	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	258	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		GCATACCACGACCCATCCGGA	0.602													12	42					0	0	1	0	0		G	117156447	G	G	117156447	3	3	151	1	0	0	0	0	1	0	0	0	7617	275	10	3	2908	3	IGSF3	1	117156447	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	34278	117156447	132094174	234	77399											
CD2	914	broad.mit.edu	37	chr1	117297441	117297441	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcaaggaaaaagatacaTataagctatttaaaaatgga	20	11	6	4	0	1	1	1	0	0	1	1	3	1	3	0	2	2	1	0	2	10	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:117297441T>C	uc001egu.3	+	2	279	c.250T>C	c.(250-252)TAT>CAT	p.Y84H	CD2_uc010owz.1_Missense_Mutation_p.Y84H|CD2_uc010oxa.1_Missense_Mutation_p.Y84H	NM_001767	NP_001758	P06729	CD2_HUMAN	CD2 molecule precursor	84	Extracellular (Potential).|Ig-like V-type.				blood coagulation|cell surface receptor linked signaling pathway|cell-cell adhesion|induction of apoptosis|leukocyte migration|membrane raft polarization|natural killer cell activation|positive regulation of myeloid dendritic cell activation|regulation of T cell differentiation|T cell activation	integral to plasma membrane	receptor activity			breast(1)	1	Lung SC(450;0.225)	all_cancers(81;3.15e-06)|Acute lymphoblastic leukemia(138;1.7e-08)|all_epithelial(167;8.38e-07)|all_lung(203;3.37e-06)|Lung NSC(69;2.31e-05)		Epithelial(280;6.71e-26)|OV - Ovarian serous cystadenocarcinoma(397;4.74e-24)|all cancers(265;1.93e-22)|Lung(183;0.0543)|Kidney(133;0.0813)|Colorectal(144;0.174)|KIRC - Kidney renal clear cell carcinoma(1967;0.176)|LUSC - Lung squamous cell carcinoma(189;0.189)|BRCA - Breast invasive adenocarcinoma(282;0.201)	Alefacept(DB00092)	AAAAGATACATATAAGCTATT	0.299													18	72					0	0	1	0	0		C	117297441	C	C	117297441	3	2	151	1	0	0	0	0	1	0	0	0	2982	1406	49	3	256	3	CD2	1	117297441	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	140994	117297441	131953180	235	77400											
CD101	9398	broad.mit.edu	37	chr1	117564494	117564494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaatgtggaagacagcgatCggggcaaatatcactgtgct	12	9	13	7	2	1	2	1	1	0	1	2	4	1	3	0	3	2	2	0	3	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:117564494C>T	uc010oxb.1	+	7	2375	c.2317C>T	c.(2317-2319)CGG>TGG	p.R773W	CD101_uc009whd.2_Missense_Mutation_p.R773W|CD101_uc010oxc.1_Missense_Mutation_p.R773W|CD101_uc010oxd.1_Missense_Mutation_p.R711W	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	773	Ig-like C2-type 6.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						AGACAGCGATCGGGGCAAATA	0.438													28	115					0	0	1	0	0		T	117564494	T	T	117564494	3	4	151	1	0	0	0	0	1	0	0	0	2965	875	31	1	2343	1	CD101	1	117564494	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	267053	117564494	131686127	236	77401											
TTF2	8458	broad.mit.edu	37	chr1	117619362	117619362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccccaaccccttcctcGtcgtggtacccaacctgtgg	5	9	8	19	2	0	0	0	0	0	0	4	0	2	0	8	2	3	1	8	2	3	2	rs139705346	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:117619362G>A	uc001egy.2	+	7	1510	c.1490G>A	c.(1489-1491)CGT>CAT	p.R497H	TTF2_uc001egx.1_Missense_Mutation_p.R497H	NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	497					mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		CCCCTTCCTCGTCGTGGTACC	0.547													6	73					0	0	1	0	0		A	117619362	A	A	117619362	3	1	151	1	0	0	0	0	1	0	0	0	16745	1145	40	1	1516	1	TTF2	1	117619362	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	54868	117619362	131631259	237	77402											
TRIM45	80263	broad.mit.edu	37	chr1	117658232	117658232	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgatgcagacccacacagTatagacgccaggttccttgg	10	10	10	11	1	0	3	0	1	0	2	1	3	1	3	3	2	1	3	3	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:117658232T>C	uc001egz.2	-	4	2020	c.1432A>G	c.(1432-1434)ACT>GCT	p.T478A	TRIM45_uc009whe.2_Missense_Mutation_p.T460A|TRIM45_uc001eha.2_Missense_Mutation_p.T374A	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	478	Filamin.					cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		ACCCACACAGTATAGACGCCA	0.488													35	158					0	0	1	0	0		C	117658232	C	C	117658232	3	2	151	1	0	0	0	0	1	0	0	0	16546	1638	57	3	322	3	TRIM45	1	117658232	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	38870	117658232	131592389	238	77403											
SPAG17	200162	broad.mit.edu	37	chr1	118530776	118530776	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatgtgtctggtgggcatTttggaggcgtagccaaagac	10	10	14	7	1	1	1	0	0	1	1	1	2	1	2	1	4	1	2	1	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:118530776T>C	uc001ehk.2	-	39	5641	c.5573A>G	c.(5572-5574)AAA>AGA	p.K1858R		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1858						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TGGTGGGCATTTTGGAGGCGT	0.363													13	37					0	0	1	0	0		C	118530776	C	C	118530776	3	2	151	1	0	0	0	0	1	0	0	0	15004	1841	64	3	1138	3	SPAG17	1	118530776	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	872544	118530776	130719845	239	77404											
WARS2	10352	broad.mit.edu	37	chr1	119575743	119575743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcatgcccgcgctgcggcGcaccacttcctccacggaga	6	7	11	17	5	1	1	1	0	0	1	3	2	3	1	4	2	2	3	4	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:119575743G>A	uc001ehn.2	-	6	902	c.874C>T	c.(874-876)CGC>TGC	p.R292C	WARS2_uc010oxf.1_Missense_Mutation_p.R198C|WARS2_uc001ehm.2_3'UTR|WARS2_uc010oxg.1_Missense_Mutation_p.R235C|WARS2_uc010oxh.1_3'UTR	NM_015836	NP_056651	Q9UGM6	SYWM_HUMAN	mitochondrial tryptophanyl tRNA synthetase 2	292					tryptophanyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|tryptophan-tRNA ligase activity				0	all_neural(166;0.187)	all_lung(203;2.48e-06)|Lung NSC(69;1.74e-05)|all_epithelial(167;0.000564)		Lung(183;0.0629)	L-Tryptophan(DB00150)	GCGCTGCGGCGCACCACTTCC	0.602													20	102					0	0	1	0	0		A	119575743	A	A	119575743	3	1	151	1	0	0	0	0	1	0	0	0	17276	1087	38	1	212	1	WARS2	1	119575743	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1044967	119575743	129674878	240	77405											
REG4	83998	broad.mit.edu	37	chr1	120341118	120341118	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggtggtgcattataacttActgttattggagctcatctc	8	15	11	7	0	2	0	1	0	1	0	3	1	2	1	0	4	4	3	0	4	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:120341118A>G	uc001eig.2	-	6	849	c.409_splice	c.e6+1	p.N137_splice	REG4_uc001eif.2_Splice_Site_p.N137_splice	NM_001159352	NP_001152824	Q9BYZ8	REG4_HUMAN	regenerating islet-derived family, member 4							extracellular region	sugar binding			ovary(1)	1	all_cancers(5;4.81e-10)|all_epithelial(5;7.98e-11)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;8.1e-07)|Lung NSC(69;5.89e-06)|all_epithelial(167;0.000959)		Lung(183;0.011)|LUSC - Lung squamous cell carcinoma(189;0.0588)		ATTATAACTTACTGTTATTGG	0.507													35	260					0	0	1	0	0		G	120341118	G	G	120341118	5	3	151	1	0	0	0	0	0	0	1	0	13239	405	14	3	73	3	REG4	1	120341118	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	765375	120341118	128909503	241	77406											
NOTCH2	4853	broad.mit.edu	37	chr1	120458677	120458677	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggtggtgggatagcaacTggctcactgagggaagcaca	10	8	16	7	0	1	1	1	1	0	0	1	3	1	3	0	5	3	3	0	5	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:120458677T>C	uc001eik.2	-	34	6924	c.6668A>G	c.(6667-6669)CAG>CGG	p.Q2223R		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	2223	Cytoplasmic (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGATAGCAACTGGCTCACTGA	0.557			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				19	70					0	0	1	0	0		C	120458677	C	C	120458677	3	2	151	1	0	0	0	0	1	0	0	0	10567	1580	55	3	751	3	NOTCH2	1	120458677	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	117559	120458677	128791944	242	77407											
HFE2	148738	broad.mit.edu	37	chr1	145415465	145415465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcactcggcgcaccgcccGcacctgccgcggggacctcg	4	4	13	20	7	0	0	0	0	0	0	2	1	0	1	5	3	2	3	5	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:145415465G>A	uc001eni.2	+	3	609	c.284G>A	c.(283-285)CGC>CAC	p.R95H	NBPF10_uc001emp.3_Intron|HFE2_uc001enj.2_Intron|HFE2_uc001enk.2_5'UTR|HFE2_uc001enl.2_Intron	NM_213653	NP_998818	Q6ZVN8	RGMC_HUMAN	hemojuvelin isoform a precursor	95					axon guidance	anchored to membrane				ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CGCACCGCCCGCACCTGCCGC	0.682													9	32					0	0	1	0	0		A	145415465	A	A	145415465	3	1	151	1	0	0	0	0	1	0	0	0	7098	1087	38	1	290	1	HFE2	1	145415465	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	24956788	145415465	103835156	243	77408											
ITGA10	8515	broad.mit.edu	37	chr1	145534184	145534184	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgatctgaaccaagatggTtttgctgatgtggctgtggg	7	13	14	7	0	1	4	0	3	1	1	1	4	1	4	2	3	2	3	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:145534184T>C	uc001eoa.2	+	14	1765	c.1689T>C	c.(1687-1689)GGT>GGC	p.G563G	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Silent_p.G432G|ITGA10_uc009wiw.2_Silent_p.G420G|ITGA10_uc010oyw.1_Silent_p.G508G	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	563	Potential.|Extracellular (Potential).|FG-GAP 6.				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					ACCAAGATGGTTTTGCTGATG	0.587													46	159					0	0	1	0	0		C	145534184	C	C	145534184	2	2	151	1	0	0	0	0	0	0	0	1	7889	1712	60	3		3	ITGA10	1	145534184	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	118719	145534184	103716437	244	77409											
BCL9	607	broad.mit.edu	37	chr1	147096052	147096052	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagttcagcagatgcagcActttgcaagcctggaggccc	11	7	11	12	0	1	1	1	0	0	1	1	2	1	2	2	2	5	5	2	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:147096052A>G	uc001epq.2	+	10	4313	c.3573A>G	c.(3571-3573)GCA>GCG	p.A1191A	BCL9_uc010ozr.1_Silent_p.A1105A	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	1191	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					CAGATGCAGCACTTTGCAAGC	0.632			T	IGH@|IGL@	B-ALL								6	82					0	0	1	0	0		G	147096052	G	G	147096052	2	3	151	1	0	0	0	0	0	0	0	1	1382	146	6	3		3	BCL9	1	147096052	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1561868	147096052	102154569	245	77410											
ACP6	51205	broad.mit.edu	37	chr1	147120182	147120182	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattaagagcggtatgaaggTcacatcatgagccgcataga	14	8	11	8	2	2	4	2	2	0	2	2	4	2	4	1	2	2	2	1	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:147120182T>C	uc001epr.2	-	9	1473	c.1009A>G	c.(1009-1011)ACC>GCC	p.T337A		NM_016361	NP_057445	Q9NPH0	PPA6_HUMAN	acid phosphatase 6, lysophosphatidic precursor	337					lipid metabolic process	extracellular region|mitochondrion	acid phosphatase activity|protein binding			ovary(4)	4	all_hematologic(923;0.0276)					GGTATGAAGGTCACATCATGA	0.498													25	127					0	0	1	0	0		C	147120182	C	C	147120182	3	2	151	1	0	0	0	0	1	0	0	0	165	1667	58	3	285	3	ACP6	1	147120182	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	24130	147120182	102130439	246	77411											
HIST2H2AC	8338	broad.mit.edu	37	chr1	149858893	149858893	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttaccaaagaaaaccgaaagCcacaaagccaaaagcaaata	23	3	5	10	1	0	1	0	0	0	1	0	2	0	1	4	0	5	1	4	0	10	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:149858893C>T	uc001etd.2	+	1	369	c.369C>T	c.(367-369)AGC>AGT	p.S123S	HIST2H2BE_uc001etc.2_5'Flank	NM_003517	NP_003508	Q16777	H2A2C_HUMAN	histone cluster 2, H2ac	123					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			AAACCGAAAGCCACAAAGCCA	0.463													16	87					0	0	1	0	0		T	149858893	T	T	149858893	2	4	151	1	0	0	0	0	0	0	0	1	7194	738	26	2		2	HIST2H2AC	1	149858893	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2738711	149858893	99391728	247	77412											
HIST2H2AB	317772	broad.mit.edu	37	chr1	149859204	149859204	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctcttcgtcattcctcAcggctagttgcagatggcga	7	12	11	11	3	3	2	2	1	1	1	5	3	4	2	1	2	2	4	1	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:149859204A>G	uc001ete.2	-	1	263	c.263T>C	c.(262-264)GTG>GCG	p.V88A	HIST2H2BE_uc001etc.2_5'Flank	NM_175065	NP_778235	Q8IUE6	H2A2B_HUMAN	histone cluster 2, H2ab	88					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|breast(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			GTCATTCCTCACGGCTAGTTG	0.587													20	78					0	0	1	0	0		G	149859204	G	G	149859204	3	3	151	1	0	0	0	0	1	0	0	0	7193	159	6	3	133	3	HIST2H2AB	1	149859204	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	311	149859204	99391417	248	77413											
CA14	23632	broad.mit.edu	37	chr1	150235560	150235560	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaccagagtgtgctctggAcagttttttatagaaggtcc	9	13	11	8	0	1	2	0	0	1	2	2	3	2	3	2	2	2	3	2	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:150235560A>G	uc001etx.2	+	7	991	c.682A>G	c.(682-684)ACA>GCA	p.T228A		NM_012113	NP_036245	Q9ULX7	CAH14_HUMAN	carbonic anhydrase XIV precursor	228	Extracellular (Potential).					integral to membrane	carbonate dehydratase activity|metal ion binding			ovary(1)	1	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGTGCTCTGGACAGTTTTTTA	0.512													24	126					0	0	1	0	0		G	150235560	G	G	150235560	3	3	151	1	0	0	0	0	1	0	0	0	2518	275	10	3	708	3	CA14	1	150235560	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	376356	150235560	99015061	249	77414											
RPRD2	23248	broad.mit.edu	37	chr1	150445370	150445370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccaccactggcagagcacGgagtggcaggggctgtggca	8	4	16	13	1	0	1	0	0	0	1	0	2	0	2	3	6	1	5	3	6	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:150445370G>A	uc009wlr.2	+	11	4147	c.3946G>A	c.(3946-3948)GGA>AGA	p.G1316R	RPRD2_uc010pcc.1_3'UTR|RPRD2_uc001eup.3_Missense_Mutation_p.G1290R	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	1316	Pro-rich.						protein binding			ovary(1)	1						GGCAGAGCACGGAGTGGCAGG	0.607													4	18					0	0	1	0	0		A	150445370	A	A	150445370	3	1	151	1	0	0	0	0	1	0	0	0	13642	1117	39	1	3988	1	RPRD2	1	150445370	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	209810	150445370	98805251	250	77415											
ECM1	1893	broad.mit.edu	37	chr1	150484269	150484269	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggagttccagcgctgcTgccgccaggggaacaatcac	10	5	14	12	2	1	1	1	0	0	1	2	3	2	3	3	3	4	3	3	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:150484269T>C	uc001eus.2	+	7	1244	c.1045T>C	c.(1045-1047)TGC>CGC	p.C349R	ECM1_uc001eut.2_Intron|ECM1_uc001euu.2_Missense_Mutation_p.C378R|ECM1_uc001euv.2_Missense_Mutation_p.C376R|ECM1_uc009wlu.2_Missense_Mutation_p.C109R	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	349	2 X approximate repeats.|2.				angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CCAGCGCTGCTGCCGCCAGGG	0.627													5	38					0	0	1	0	0		C	150484269	C	C	150484269	3	2	151	1	0	0	0	0	1	0	0	0	4903	1580	55	3	1071	3	ECM1	1	150484269	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	38899	150484269	98766352	251	77416											
SETDB1	9869	broad.mit.edu	37	chr1	150931668	150931668	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccagggtatatgagtgtaAcaaacgctgcaaatgtgacc	13	9	10	9	1	0	2	0	2	0	0	1	2	1	2	2	1	3	4	2	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:150931668A>G	uc001evu.2	+	15	2535	c.2345A>G	c.(2344-2346)AAC>AGC	p.N782S	SETDB1_uc001evv.2_Missense_Mutation_p.N782S|SETDB1_uc009wmg.1_Missense_Mutation_p.N782S	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	782	Pre-SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			TATGAGTGTAACAAACGCTGC	0.403													6	89					0	0	1	0	0		G	150931668	G	G	150931668	3	3	151	1	0	0	0	0	1	0	0	0	14163	43	2	3	2399	3	SETDB1	1	150931668	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	447399	150931668	98318953	252	77417											
SETDB1	9869	broad.mit.edu	37	chr1	150933482	150933482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agacacccaagaacaaggtgGcctcatggttgagctgcaat	13	7	11	10	0	1	3	1	1	0	2	1	3	1	3	2	3	3	3	2	3	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:150933482G>A	uc001evu.2	+	16	3134	c.2944G>A	c.(2944-2946)GCC>ACC	p.A982T	SETDB1_uc001evv.2_Missense_Mutation_p.A982T|SETDB1_uc009wmg.1_Missense_Mutation_p.A982T	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	982	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			GAACAAGGTGGCCTCATGGTT	0.542													34	149					0	0	1	0	0		A	150933482	A	A	150933482	3	1	151	1	0	0	0	0	1	0	0	0	14163	1203	42	2	3002	2	SETDB1	1	150933482	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1814	150933482	98317139	253	77418											
BNIPL	149428	broad.mit.edu	37	chr1	151011305	151011305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagcactttagccctgtgtgGccagcgccccatgcgcaagc	7	7	11	16	2	0	0	0	0	0	0	0	0	0	0	4	1	5	2	4	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:151011305G>A	uc001ewl.2	+	4	409	c.236G>A	c.(235-237)GGC>GAC	p.G79D	BNIPL_uc009wmi.2_5'UTR|BNIPL_uc009wmj.2_RNA	NM_138278	NP_612122	Q7Z465	BNIPL_HUMAN	BCL2/adenovirus E1B 19kD interacting protein	79					apoptosis|induction of apoptosis|negative regulation of cell proliferation|regulation of growth rate	cytosol|nucleus	identical protein binding				0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GCCCTGTGTGGCCAGCGCCCC	0.577													12	64					0	0	1	0	0		A	151011305	A	A	151011305	3	1	151	1	0	0	0	0	1	0	0	0	1481	1203	42	2	250	2	BNIPL	1	151011305	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	77823	151011305	98239316	254	77419											
SEMA6C	10500	broad.mit.edu	37	chr1	151109535	151109535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtttacatactcgggctaCgcgggagaactgcacctagg	10	8	12	11	4	0	1	0	0	0	1	1	2	0	1	1	3	5	3	1	3	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:151109535C>T	uc001ewu.2	-	11	1072	c.772G>A	c.(772-774)GTA>ATA	p.V258I	SEMA6C_uc001ewv.2_Missense_Mutation_p.V258I|SEMA6C_uc001eww.2_Missense_Mutation_p.V218I|SEMA6C_uc010pcq.1_Missense_Mutation_p.V258I|SEMA6C_uc009wml.1_RNA	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	258	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			ACTCGGGCTACGCGGGAGAAC	0.592													24	92					0	0	1	0	0		T	151109535	T	T	151109535	3	4	151	1	0	0	0	0	1	0	0	0	14066	536	19	1	2156	1	SEMA6C	1	151109535	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	98230	151109535	98141086	255	77420											
ZNF687	57592	broad.mit.edu	37	chr1	151259923	151259923	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttctgagggtccaaaggtgGtgagcgtacagttgggtgat	8	11	16	6	1	1	3	0	3	1	0	2	3	2	3	1	4	2	2	1	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:151259923G>C	uc001exq.2	+	2	1254	c.1156G>C	c.(1156-1158)GTG>CTG	p.V386L	ZNF687_uc001exp.1_Missense_Mutation_p.V395L|ZNF687_uc009wmo.2_Missense_Mutation_p.V386L|ZNF687_uc009wmp.2_Missense_Mutation_p.V386L	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	386					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TCCAAAGGTGGTGAGCGTACA	0.587													15	83					0	0	1	0	0		C	151259923	C	C	151259923	3	2	151	1	0	0	0	0	1	0	0	0	18117	1261	44	5	1158	5	ZNF687	1	151259923	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	150388	151259923	97990698	256	77421											
PSMB4	5692	broad.mit.edu	37	chr1	151372168	151372168	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattccttcatggatccggcGtctgcactttacagaggtcc	7	12	10	12	2	2	1	1	0	1	1	5	3	5	2	3	3	2	1	3	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:151372168G>A	uc001eyc.1	+	1	128	c.105G>A	c.(103-105)GCG>GCA	p.A35A	PSMB4_uc010pda.1_Silent_p.A35A|PSMB4_uc001eyb.1_Silent_p.A35A	NM_002796	NP_002787	P28070	PSB4_HUMAN	proteasome beta 4 subunit	35					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity			ovary(2)	2	Lung SC(34;0.00471)|Ovarian(49;0.00871)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TGGATCCGGCGTCTGCACTTT	0.627													36	98					0	0	1	0	0		A	151372168	A	A	151372168	2	1	151	1	0	0	0	0	0	0	0	1	12701	1132	40	1		1	PSMB4	1	151372168	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	112245	151372168	97878453	257	77422											
LINGO4	339398	broad.mit.edu	37	chr1	151774479	151774479	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagatggccagaggtggatCtccagctccttgagctgccc	8	8	13	12	0	1	3	0	1	1	2	3	5	2	4	4	3	3	2	4	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:151774479C>T	uc001ezf.1	-	2	892	c.702G>A	c.(700-702)GAG>GAA	p.E234E		NM_001004432	NP_001004432	Q6UY18	LIGO4_HUMAN	leucine rich repeat and Ig domain containing 4	234	Extracellular (Potential).					integral to membrane				large_intestine(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			AGAGGTGGATCTCCAGCTCCT	0.642													21	87					0	0	1	0	0		T	151774479	T	T	151774479	2	4	151	1	0	0	0	0	0	0	0	1	8834	912	32	4		4	LINGO4	1	151774479	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	402311	151774479	97476142	258	77423											
RPTN	126638	broad.mit.edu	37	chr1	152129190	152129190	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtggtgggagttctgccTttcttcctcgtgcctctgtc	2	16	11	12	1	3	0	0	0	3	0	6	1	4	1	3	2	2	1	3	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:152129190T>C	uc001ezs.1	-	3	450	c.385A>G	c.(385-387)AGG>GGG	p.R129G		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	129	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						GAGTTCTGCCTTTCTTCCTCG	0.542													88	375					0	0	1	0	0		C	152129190	C	C	152129190	3	2	151	1	0	0	0	0	1	0	0	0	13689	1608	56	3	1973	3	RPTN	1	152129190	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	354711	152129190	97121431	259	77424											
FLG	2312	broad.mit.edu	37	chr1	152278828	152278828	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagccgtctcctgattgtTcctcattacgtgttgttctg	4	17	10	10	2	3	1	1	1	2	0	5	2	4	2	3	1	2	3	3	1	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:152278828T>C	uc001ezu.1	-	3	8570	c.8534A>G	c.(8533-8535)GAA>GGA	p.E2845G		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2845	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCTGATTGTTCCTCATTACG	0.562									Ichthyosis				70	723					0	0	1	0	0		C	152278828	C	C	152278828	3	2	151	1	0	0	0	0	1	0	0	0	5936	1783	62	3	3655	3	FLG	1	152278828	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	149638	152278828	96971793	260	77425											
FLG	2312	broad.mit.edu	37	chr1	152282840	152282840	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtccagacctatctactgAttgctcgtggtaggatccct	7	13	10	11	1	1	2	0	1	1	1	4	3	3	3	3	2	2	2	3	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:152282840A>T	uc001ezu.1	-	3	4558	c.4522T>A	c.(4522-4524)TCA>ACA	p.S1508T		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1508	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTATCTACTGATTGCTCGTGG	0.577									Ichthyosis				121	459					0	0	1	0	0		T	152282840	T	T	152282840	3	4	151	1	0	0	0	0	1	0	0	0	5936	333	12	5	7667	5	FLG	1	152282840	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4012	152282840	96967781	261	77426											
FLG2	388698	broad.mit.edu	37	chr1	152326301	152326301	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaatggccatgtctagtggTatctcctctctgtccatgag	8	13	10	10	0	3	2	0	1	3	1	6	2	4	2	3	2	0	1	3	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:152326301T>C	uc001ezw.3	-	3	4034	c.3961A>G	c.(3961-3963)ACC>GCC	p.T1321A	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1321							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTCTAGTGGTATCTCCTCTC	0.473													65	380					0	0	1	0	0		C	152326301	C	C	152326301	3	2	151	1	0	0	0	0	1	0	0	0	5937	1638	57	3	3218	3	FLG2	1	152326301	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	43461	152326301	96924320	262	77427											
FLG2	388698	broad.mit.edu	37	chr1	152326625	152326625	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaagccagttgattgacCtgagcctgaaccatattggc	10	9	10	12	0	0	4	0	4	0	0	0	4	0	4	5	1	3	1	5	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:152326625C>A	uc001ezw.3	-	3	3710	c.3637G>T	c.(3637-3639)GGT>TGT	p.G1213C	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1213	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTTGATTGACCTGAGCCTGAA	0.463													43	214					4.49093e-37	4.71578e-37	1	1	0		A	152326625	A	A	152326625	3	1	151	1	0	0	0	0	1	0	0	0	5937	681	24	5	3542	5	FLG2	1	152326625	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	324	152326625	96923996	263	77428											
LCE2C	353140	broad.mit.edu	37	chr1	152648551	152648551	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaagtgtcctcccaagtgTaccccaaaatgtccacctaa	12	8	5	16	0	0	0	0	0	0	0	3	0	3	0	7	0	1	1	7	0	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:152648551T>C	uc001fah.2	+	2	115	c.60T>C	c.(58-60)TGT>TGC	p.C20C		NM_178429	NP_848516	Q5TA81	LCE2C_HUMAN	late cornified envelope 2C	20	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			ctcccaagtgtaccccaaaat	0.383													40	155					0	0	1	0	0		C	152648551	C	C	152648551	2	2	151	1	0	0	0	0	0	0	0	1	8683	1644	57	3		3	LCE2C	1	152648551	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	321926	152648551	96602070	264	77429											
NPR1	4881	broad.mit.edu	37	chr1	153659753	153659753	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgcgtggtagatgggcgCtttgtgctcaagatcaccga	9	10	13	9	3	2	2	2	0	0	2	2	3	2	2	1	2	3	3	1	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:153659753C>A	uc001fcs.3	+	13	2434	c.2013C>A	c.(2011-2013)CGC>CGA	p.R671R	NPR1_uc010pdz.1_Silent_p.R417R|NPR1_uc010pea.1_Silent_p.R149R	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	671	Cytoplasmic (Potential).|Protein kinase.				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	TAGATGGGCGCTTTGTGCTCA	0.542													18	52					1.33834e-09	1.37582e-09	1	1	0		A	153659753	A	A	153659753	2	1	151	1	0	0	0	0	0	0	0	1	10613	784	28	5		5	NPR1	1	153659753	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1011202	153659753	95590868	265	77430											
DENND4B	9909	broad.mit.edu	37	chr1	153908639	153908639	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcccatagtgtgagcagAgctgcatcagtacccggtaa	10	8	12	11	1	1	2	1	1	0	1	1	2	1	2	2	1	5	6	2	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:153908639A>G	uc001fdd.1	-	17	2866	c.2465T>C	c.(2464-2466)CTC>CCC	p.L822P		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	822	PPR 2.									ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GTGTGAGCAGAGCTGCATCAG	0.552													5	9					0	0	1	0	0		G	153908639	G	G	153908639	3	3	151	1	0	0	0	0	1	0	0	0	4440	304	11	3	2073	3	DENND4B	1	153908639	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	248886	153908639	95341982	266	77431											
RAB13	5872	broad.mit.edu	37	chr1	153955025	153955025	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcacctcatccacattcaTactggatttagcactagttt	10	15	4	12	0	3	0	3	0	1	0	5	1	4	1	2	1	2	2	2	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:153955025T>C	uc001fdt.1	-	6	560	c.466A>G	c.(466-468)ATG>GTG	p.M156V	RAB13_uc001fdu.1_3'UTR	NM_002870	NP_002861	P51153	RAB13_HUMAN	RAB13, member RAS oncogene family	156					cell adhesion|protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	cytoplasmic vesicle membrane|tight junction	GTP binding|GTPase activity				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TCCACATTCATACTGGATTTA	0.473													20	94					0	0	1	0	0		C	153955025	C	C	153955025	3	2	151	1	0	0	0	0	1	0	0	0	12924	1406	49	3	157	3	RAB13	1	153955025	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	46386	153955025	95295596	267	77432											
C1orf43	25912	broad.mit.edu	37	chr1	154185068	154185068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attcttgcccattaaggaacGgggatgccggccttcagaat	10	10	11	10	2	2	1	1	0	1	1	2	3	2	3	3	4	3	0	3	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:154185068G>A	uc001fei.2	-	5	763	c.373C>T	c.(373-375)CGT>TGT	p.R125C	C1orf43_uc001fef.1_Missense_Mutation_p.R22C|C1orf43_uc001feg.2_Missense_Mutation_p.R91C|C1orf43_uc001feh.2_Missense_Mutation_p.R73C|C1orf43_uc001fej.2_Missense_Mutation_p.R107C|C1orf43_uc009wos.1_Missense_Mutation_p.R107C|C1orf43_uc001fek.2_Missense_Mutation_p.R125C|C1orf43_uc001fel.2_Missense_Mutation_p.R91C	NM_001098616	NP_001092086	Q9BWL3	CA043_HUMAN	hypothetical protein LOC25912 isoform 3	125						integral to membrane	coenzyme binding|oxidoreductase activity				0	all_lung(78;1.98e-30)|Lung NSC(65;2.87e-28)|Hepatocellular(266;0.0877)					ATTAAGGAACGGGGATGCCGG	0.408													23	61					0	0	1	0	0		A	154185068	A	A	154185068	3	1	151	1	0	0	0	0	1	0	0	0	2043	1116	39	1	400	1	C1orf43	1	154185068	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	230043	154185068	95065553	268	77433											
UBAP2L	9898	broad.mit.edu	37	chr1	154199796	154199796	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacttgcacagatgatttcGgaccataatgatgctgactt	12	12	9	8	1	0	5	0	3	0	2	1	6	0	6	1	1	2	2	1	1	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:154199796G>A	uc001fep.3	+	3	296	c.129G>A	c.(127-129)TCG>TCA	p.S43S	UBAP2L_uc009wot.2_Silent_p.S43S|UBAP2L_uc010pek.1_Silent_p.S42S|UBAP2L_uc010pel.1_Silent_p.S42S|UBAP2L_uc001fen.1_Silent_p.S42S|UBAP2L_uc010pem.1_Silent_p.S42S|UBAP2L_uc010pen.1_5'Flank	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	43					binding of sperm to zona pellucida		protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGATGATTTCGGACCATAATG	0.383													7	203					0	0	1	0	0		A	154199796	A	A	154199796	2	1	151	1	0	0	0	0	0	0	0	1	16864	1103	39	1		1	UBAP2L	1	154199796	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	14728	154199796	95050825	269	77434											
HAX1	10456	broad.mit.edu	37	chr1	154246038	154246038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttcaatagcatcttcagcGatatgggggcctggaccttg	9	12	11	9	1	3	0	2	0	1	0	3	2	3	1	2	3	2	1	2	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:154246038G>A	uc001fes.2	+	2	441	c.280G>A	c.(280-282)GAT>AAT	p.D94N	HAX1_uc001fet.2_Missense_Mutation_p.D46N|HAX1_uc010peo.1_Missense_Mutation_p.D94N|HAX1_uc009wou.2_5'UTR|HAX1_uc009wov.2_Missense_Mutation_p.D68N	NM_006118	NP_006109	O00165	HAX1_HUMAN	HCLS1 associated protein X-1 isoform a	94						actin cytoskeleton|cytoplasmic membrane-bounded vesicle|lamellipodium|mitochondrion|nuclear membrane|sarcoplasmic reticulum|soluble fraction	interleukin-1 binding|protein N-terminus binding				0	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CATCTTCAGCGATATGGGGGC	0.522									Kostmann_syndrome				21	88					0	0	1	0	0		A	154246038	A	A	154246038	3	1	151	1	0	0	0	0	1	0	0	0	6991	1058	37	1	286	1	HAX1	1	154246038	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	46242	154246038	95004583	270	77435											
HAX1	10456	broad.mit.edu	37	chr1	154246292	154246292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacacctggtgagagactacGggagggacagacacttcggg	11	5	16	9	2	0	3	0	1	0	2	1	7	0	5	1	4	1	0	1	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:154246292G>A	uc001fes.2	+	3	520	c.359G>A	c.(358-360)CGG>CAG	p.R120Q	HAX1_uc001fet.2_Missense_Mutation_p.R72Q|HAX1_uc010peo.1_Missense_Mutation_p.R128Q|HAX1_uc009wou.2_Missense_Mutation_p.R45Q|HAX1_uc009wov.2_Missense_Mutation_p.R94Q	NM_006118	NP_006109	O00165	HAX1_HUMAN	HCLS1 associated protein X-1 isoform a	120	Involved in HCLS1 binding.					actin cytoskeleton|cytoplasmic membrane-bounded vesicle|lamellipodium|mitochondrion|nuclear membrane|sarcoplasmic reticulum|soluble fraction	interleukin-1 binding|protein N-terminus binding				0	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GAGAGACTACGGGAGGGACAG	0.517									Kostmann_syndrome				45	137					0	0	1	0	0		A	154246292	A	A	154246292	3	1	151	1	0	0	0	0	1	0	0	0	6991	1116	39	1	369	1	HAX1	1	154246292	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	254	154246292	95004329	271	77436											
SHE	126669	broad.mit.edu	37	chr1	154458516	154458516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgactctcagcctcagcacGgctgatggcaccatgatacc	9	8	9	15	2	2	2	2	2	1	0	4	3	2	2	3	2	3	3	3	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:154458516G>A	uc001ffb.2	-	5	1291	c.1204C>T	c.(1204-1206)CGT>TGT	p.R402C	SHE_uc001ffc.2_RNA	NM_001010846	NP_001010846	Q5VZ18	SHE_HUMAN	Src homology 2 domain containing E	402	SH2.									breast(3)|ovary(2)|central_nervous_system(1)	6	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			GCCTCAGCACGGCTGATGGCA	0.498													23	93					0	0	1	0	0		A	154458516	A	A	154458516	3	1	151	1	0	0	0	0	1	0	0	0	14301	1116	39	1	291	1	SHE	1	154458516	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	212224	154458516	94792105	272	77437											
UBE2Q1	55585	broad.mit.edu	37	chr1	154524643	154524643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggagatcgttgtgcaaagCgctgtcctggtcaactctaa	9	11	11	10	2	2	1	1	0	1	1	4	2	3	1	1	2	3	3	1	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:154524643C>T	uc001fff.1	-	8	983	c.892G>A	c.(892-894)GCT>ACT	p.A298T		NM_017582	NP_060052	Q7Z7E8	UB2Q1_HUMAN	ubiquitin-conjugating enzyme E2Q	298							ATP binding|protein binding|ubiquitin-protein ligase activity				0	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			TTGTGCAAAGCGCTGTCCTGG	0.493													28	115					0	0	1	0	0		T	154524643	T	T	154524643	3	4	151	1	0	0	0	0	1	0	0	0	16895	768	27	1	400	1	UBE2Q1	1	154524643	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	66127	154524643	94725978	273	77438											
UBE2Q1	55585	broad.mit.edu	37	chr1	154525264	154525264	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgagctccttcatcagccgGtcagtggcctgcaccgagcc	6	8	11	16	2	3	1	3	1	0	0	4	2	4	1	5	2	4	2	5	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:154525264G>A	uc001fff.1	-	6	853	c.762C>T	c.(760-762)GAC>GAT	p.D254D		NM_017582	NP_060052	Q7Z7E8	UB2Q1_HUMAN	ubiquitin-conjugating enzyme E2Q	254							ATP binding|protein binding|ubiquitin-protein ligase activity				0	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			TCATCAGCCGGTCAGTGGCCT	0.532													11	56					0	0	1	0	0		A	154525264	A	A	154525264	2	1	151	1	0	0	0	0	0	0	0	1	16895	1252	44	4		4	UBE2Q1	1	154525264	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	621	154525264	94725357	274	77439											
ADAR	103	broad.mit.edu	37	chr1	154569432	154569432	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccttgttgggcatcatggAttccaagttatcaagtgact	10	13	10	8	0	2	1	2	1	0	0	3	3	3	2	2	2	0	3	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:154569432A>T	uc001ffh.2	-	6	2319	c.2119T>A	c.(2119-2121)TCC>ACC	p.S707T	ADAR_uc001ffj.2_Intron|ADAR_uc001ffi.2_Missense_Mutation_p.S707T|ADAR_uc001ffk.2_Missense_Mutation_p.S412T	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	707					adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		GGCATCATGGATTCCAAGTTA	0.493													15	110					0	0	1	0	0		T	154569432	T	T	154569432	3	4	151	1	0	0	0	0	1	0	0	0	281	333	12	5	1601	5	ADAR	1	154569432	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	44168	154569432	94681189	275	77440											
PYGO2	90780	broad.mit.edu	37	chr1	154931981	154931981	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagaggctggttgaagggTtggctgggaaagttcatgtt	8	11	16	6	0	1	2	1	1	0	1	1	3	1	3	1	5	0	6	1	5	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:154931981T>C	uc001fft.2	-	3	701	c.495A>G	c.(493-495)CAA>CAG	p.Q165Q		NM_138300	NP_612157	Q9BRQ0	PYGO2_HUMAN	pygopus homolog 2	165	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding|zinc ion binding			skin(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			GGTTGAAGGGTTGGCTGGGAA	0.607													16	59					0	0	1	0	0		C	154931981	C	C	154931981	2	2	151	1	0	0	0	0	0	0	0	1	12889	1722	60	3		3	PYGO2	1	154931981	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	362549	154931981	94318640	276	77441											
FLAD1	80308	broad.mit.edu	37	chr1	154960959	154960959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggtctccgtccgaaacGtctacctcttcccaggcatt	6	12	7	16	3	4	0	0	0	4	0	7	1	6	0	4	2	2	1	4	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:154960959G>A	uc001fgf.1	+	2	1105	c.751G>A	c.(751-753)GTC>ATC	p.V251I	FLAD1_uc001fgc.2_Missense_Mutation_p.V152I|FLAD1_uc001fgd.1_Missense_Mutation_p.V251I|FLAD1_uc001fge.1_Missense_Mutation_p.V154I|FLAD1_uc001fgg.1_Missense_Mutation_p.V154I|FLAD1_uc001fgh.1_5'UTR	NM_025207	NP_079483	Q8NFF5	FAD1_HUMAN	flavin adenine dinucleotide synthetase isoform	251					FAD biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|FMN adenylyltransferase activity			ovary(2)|skin(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CGTCCGAAACGTCTACCTCTT	0.557													8	58					0	0	1	0	0		A	154960959	A	A	154960959	3	1	151	1	0	0	0	0	1	0	0	0	5934	1145	40	1	832	1	FLAD1	1	154960959	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	28978	154960959	94289662	277	77442											
THBS3	7059	broad.mit.edu	37	chr1	155170773	155170773	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcatcttcctgcccagagTtgggtgtcaaaaggcagttg	9	10	12	10	0	2	1	1	0	1	1	3	1	3	1	2	2	2	4	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:155170773T>C	uc001fix.2	-	13	1486	c.1463A>G	c.(1462-1464)AAC>AGC	p.N488S	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Missense_Mutation_p.N479S|THBS3_uc001fiz.2_Missense_Mutation_p.N451S|THBS3_uc001fiy.2_Missense_Mutation_p.N17S|THBS3_uc010pfu.1_Missense_Mutation_p.N368S|THBS3_uc010pfv.1_RNA|THBS3_uc001fja.2_RNA	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	488	TSP type-3 1.				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CTGCCCAGAGTTGGGTGTCAA	0.552													59	264					0	0	1	0	0		C	155170773	C	C	155170773	3	2	151	1	0	0	0	0	1	0	0	0	15880	1725	60	3	1451	3	THBS3	1	155170773	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	209814	155170773	94079848	278	77443											
HCN3	57657	broad.mit.edu	37	chr1	155255658	155255658	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtggtgcgtgagggctcCgtggggaggaagatgtactt	6	10	18	7	3	0	2	0	1	0	1	2	4	1	4	1	5	2	2	1	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:155255658C>T	uc001fjz.1	+	6	1388	c.1380C>T	c.(1378-1380)TCC>TCT	p.S460S	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_Silent_p.S155S	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	460	Cytoplasmic (Potential).|cAMP.					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GTGAGGGCTCCGTGGGGAGGA	0.637													43	118					0	0	1	0	0		T	155255658	T	T	155255658	2	4	151	1	0	0	0	0	0	0	0	1	7014	639	23	1		1	HCN3	1	155255658	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	84885	155255658	93994963	279	77444											
RUSC1	23623	broad.mit.edu	37	chr1	155292385	155292385	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgaacctgaaaaattcgActctggttggaaaaccaaca	17	8	8	8	1	1	2	0	2	1	0	2	4	1	3	2	2	3	1	2	2	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:155292385A>G	uc001fkj.2	+	2	1050	c.821A>G	c.(820-822)GAC>GGC	p.D274G	RAG1AP1_uc010pey.1_Intron|C1orf104_uc001fkh.1_5'Flank|C1orf104_uc001fki.2_Intron|RUSC1_uc001fkk.2_Missense_Mutation_p.D274G|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_5'Flank|RUSC1_uc001fkl.2_5'Flank|RUSC1_uc001fkp.2_5'Flank|RUSC1_uc001fkq.2_5'Flank|RUSC1_uc010pgb.1_5'Flank|RUSC1_uc009wqp.1_5'Flank|RUSC1_uc001fkn.2_5'Flank|RUSC1_uc001fko.2_5'Flank|RUSC1_uc001fkr.2_5'Flank|RUSC1_uc001fks.2_5'Flank	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	274						cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			GAAAAATTCGACTCTGGTTGG	0.418													47	190					0	0	1	0	0		G	155292385	G	G	155292385	3	3	151	1	0	0	0	0	1	0	0	0	13775	275	10	3	823	3	RUSC1	1	155292385	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	36727	155292385	93958236	280	77445											
ASH1L	55870	broad.mit.edu	37	chr1	155491319	155491319	+	Translation_Start_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctagggtccatcacaagcgTatgttattgccaaggaatct	11	12	9	9	1	3	0	1	0	2	0	4	1	4	1	2	2	2	2	2	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:155491319T>C	uc009wqq.2	-	2	472	c.-8A>G	c.(-10--6)ATACG>ATGCG		ASH1L_uc001fkt.2_Translation_Start_Site|ASH1L_uc009wqr.1_Translation_Start_Site	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like						cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			ATCACAAGCGTATGTTATTGC	0.393													52	226					0	0	1	0	0		C	155491319	C	C	155491319	1	2	151	1	0	0	0	0	0	0	0	0	1042	1653	57	3		3	ASH1L	1	155491319	Translation_Start_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	198934	155491319	93759302	281	77446											
MEX3A	92312	broad.mit.edu	37	chr1	156046593	156046594	+	Frame_Shift_Ins	INS	-	G	G																															agccctggagcggctctcccINSggggggcgcctcgggagtcc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:156046593_156046594insG	uc001fnd.3	-	2	1334_1335	c.1334_1335insC	c.(1333-1335)CCGfs	p.P445fs		NM_001093725	NP_001087194	A1L020	MEX3A_HUMAN	MEX3A protein	445						cytoplasmic mRNA processing body|nucleus	RNA binding|zinc ion binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					GCGGCTCTCCCGGGGGGCGCCT	0.698													2	4	---	---	---	---						.	G	156046594	G	G	156046593	7	5	151	1	0	1	1	0	0	0	0	0	9527	639	23	0	231	0	MEX3A	1	156046593	Frame_Shift_Ins	INS	-	TCGA-CG-5721-01A-11D-1600-08	555274	156046593	93204028	282	77447											
LMNA	4000	broad.mit.edu	37	chr1	156108471	156108471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcagctaccgcagtgtggggGgcagtgggggtggcagcttc	5	7	20	9	1	0	0	0	0	0	0	1	0	0	0	1	6	3	6	1	6	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:156108471G>A	uc001fni.2	+	11	2140	c.1891G>A	c.(1891-1893)GGC>AGC	p.G631S	LMNA_uc001fnf.1_3'UTR|LMNA_uc001fnh.2_Missense_Mutation_p.G601S|LMNA_uc009wro.1_Intron|LMNA_uc001fnj.2_3'UTR|LMNA_uc001fnk.2_Missense_Mutation_p.G532S|LMNA_uc010pha.1_3'UTR|LMNA_uc010phb.1_RNA	NM_170707	NP_733821	P02545	LMNA_HUMAN	lamin A/C isoform 1 precursor	631	Tail.				cellular component disassembly involved in apoptosis|cellular response to hypoxia|establishment or maintenance of microtubule cytoskeleton polarity|muscle organ development|positive regulation of cell aging|regulation of apoptosis|regulation of cell migration	cytoplasm|lamin filament|nuclear envelope|nuclear envelope|perinuclear region of cytoplasm	protein binding|structural molecule activity|structural molecule activity			ovary(2)	2	Hepatocellular(266;0.158)					CAGTGTGGGGGGCAGTGGGGG	0.652									Werner_syndrome|Hutchinson-Gilford_Progeria_Syndrome				8	18					0	0	1	0	0		A	156108471	A	A	156108471	3	1	151	1	0	0	0	0	1	0	0	0	8865	1232	43	4	1954	4	LMNA	1	156108471	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	61878	156108471	93142150	283	77448											
SLC25A44	9673	broad.mit.edu	37	chr1	156170077	156170077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aacgcaagggtgagaaaatgGgccgctttcaggtgcggggg	10	6	18	7	3	1	1	1	1	0	1	1	2	1	1	1	5	2	2	1	5	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:156170077G>A	uc001fnp.2	+	2	761	c.439G>A	c.(439-441)GGC>AGC	p.G147S	SLC25A44_uc010phc.1_Intron|SLC25A44_uc009wrr.2_Missense_Mutation_p.G147S|SLC25A44_uc010phd.1_Intron|SLC25A44_uc010phe.1_Intron	NM_014655	NP_055470	Q96H78	S2544_HUMAN	solute carrier family 25, member 44	147	Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			ovary(1)	1	Hepatocellular(266;0.158)					TGAGAAAATGGGCCGCTTTCA	0.582													23	78					0	0	1	0	0		A	156170077	A	A	156170077	3	1	151	1	0	0	0	0	1	0	0	0	14534	1232	43	4	441	4	SLC25A44	1	156170077	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	61606	156170077	93080544	284	77449											
PAQR6	79957	broad.mit.edu	37	chr1	156214025	156214025	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaaagcagcaataatgagTaggttcccagctgcagccaa	14	7	11	9	0	0	2	0	2	0	0	1	2	1	2	2	1	5	6	2	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:156214025T>C	uc001fnu.1	-	8	1000	c.930A>G	c.(928-930)CTA>CTG	p.L310L	PAQR6_uc010phf.1_Missense_Mutation_p.Y160C|PAQR6_uc001fny.1_Missense_Mutation_p.Y88C|PAQR6_uc001fnv.1_Silent_p.L286L|PAQR6_uc010phg.1_Silent_p.L307L|PAQR6_uc001fnx.1_Silent_p.L204L|PAQR6_uc001fnw.1_Missense_Mutation_p.Y228C|PAQR6_uc001fnz.1_Missense_Mutation_p.Y228C|PAQR6_uc010phh.1_Silent_p.L310L|PAQR6_uc001foa.1_Silent_p.L204L|PAQR6_uc001fob.1_RNA	NM_198406	NP_940798	Q6TCH4	PAQR6_HUMAN	progestin and adipoQ receptor family member VI	310	Helical; (Potential).					integral to membrane	receptor activity				0	Hepatocellular(266;0.158)					CAATAATGAGTAGGTTCCCAG	0.627													14	31					0	0	1	0	0		C	156214025	C	C	156214025	2	2	151	1	0	0	0	0	0	0	0	1	11458	1638	57	3		3	PAQR6	1	156214025	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	43948	156214025	93036596	285	77450											
RHBG	57127	broad.mit.edu	37	chr1	156351209	156351209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctgggggctgggcagcatCggacggccctcaacacatac	8	5	14	14	3	1	0	1	0	0	0	2	1	1	1	1	5	3	4	1	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:156351209C>T	uc010pho.1	+	5	783	c.745C>T	c.(745-747)CGG>TGG	p.R249W	RHBG_uc010phm.1_Missense_Mutation_p.R87W|RHBG_uc010phn.1_RNA|RHBG_uc001fos.2_Missense_Mutation_p.R180W|RHBG_uc009wrz.2_Missense_Mutation_p.R217W|RHBG_uc001for.2_Missense_Mutation_p.R219W	NM_020407	NP_065140	Q9H310	RHBG_HUMAN	Rhesus blood group, B glycoprotein	249	Extracellular (Potential).				transepithelial ammonium transport	anchored to plasma membrane|basolateral plasma membrane|cytoplasmic vesicle membrane|integral to plasma membrane|spectrin-associated cytoskeleton	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			ovary(2)	2	Hepatocellular(266;0.158)					TGGGCAGCATCGGACGGCCCT	0.582													16	40					0	0	1	0	0		T	156351209	T	T	156351209	3	4	151	1	0	0	0	0	1	0	0	0	13349	875	31	1	763	1	RHBG	1	156351209	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	137184	156351209	92899412	286	77451											
MEF2D	4209	broad.mit.edu	37	chr1	156452281	156452281	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggctcattgtactccgtgTacttgagcagcaccttgtcc	6	13	10	12	1	1	1	1	1	0	0	3	1	3	1	3	1	4	5	3	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:156452281T>C	uc001fpc.2	-	3	596	c.206A>G	c.(205-207)TAC>TGC	p.Y69C	MEF2D_uc001fpb.2_Missense_Mutation_p.Y69C|MEF2D_uc001fpd.2_Missense_Mutation_p.Y69C|MEF2D_uc001fpe.1_Missense_Mutation_p.Y69C|MEF2D_uc009wsa.2_RNA	NM_005920	NP_005911	Q14814	MEF2D_HUMAN	myocyte enhancer factor 2D	69	Mef2-type (Potential).				apoptosis|muscle organ development|nervous system development|positive regulation of transcription from RNA polymerase II promoter	nucleus	activating transcription factor binding|histone deacetylase binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTACTCCGTGTACTTGAGCAG	0.567													33	116					0	0	1	0	0		C	156452281	C	C	156452281	3	2	151	1	0	0	0	0	1	0	0	0	9476	1638	57	3	1399	3	MEF2D	1	156452281	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	101072	156452281	92798340	287	77452											
IQGAP3	128239	broad.mit.edu	37	chr1	156499967	156499967	+	Missense_Mutation	SNP	C	T	T																															accccagggcttcaagtcggCgtaggttccgcaggacgcgc																								rs149623112	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:156499967C>T	uc001fpf.2	-	34	4409	c.4334G>A	c.(4333-4335)CGC>CAC	p.R1445H		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1445					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TTCAAGTCGGCGTAGGTTCCG	0.627													4	11					0	0	1	0	0		T	156499967	T	T	156499967	3	4	151	1	0	0	0	0	1	0	0	0	7832	768	27	1	581	1	IQGAP3	1	156499967	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	47686	156499967	92750654	288	77453	143	2									
IQGAP3	128239	broad.mit.edu	37	chr1	156499976	156499976	+	Missense_Mutation	SNP	C	T	T																															cttcaagtcggcgtaggttcCgcaggacgcgccgctgcttc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:156499976C>T	uc001fpf.2	-	34	4400	c.4325G>A	c.(4324-4326)CGG>CAG	p.R1442Q		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1442					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCGTAGGTTCCGCAGGACGCG	0.647													5	7					0	0	1	0	0		T	156499976	T	T	156499976	3	4	151	1	0	0	0	0	1	0	0	0	7832	652	23	1	590	1	IQGAP3	1	156499976	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	9	156499976	92750645	289	77454	143	2									
IQGAP3	128239	broad.mit.edu	37	chr1	156517928	156517928	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaatgctcagcaaacttctgCcgaactaggaagccacggag	13	6	11	11	2	2	0	1	0	1	0	2	4	2	2	2	2	6	2	2	2	5	2	rs151288646		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:156517928C>T	uc001fpf.2	-	19	2316	c.2241G>A	c.(2239-2241)CGG>CGA	p.R747R		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	747	IQ 1.				small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CAAACTTCTGCCGAACTAGGA	0.577													6	23					0	0	1	0	0		T	156517928	T	T	156517928	2	4	151	1	0	0	0	0	0	0	0	1	7832	726	26	2		2	IQGAP3	1	156517928	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	17952	156517928	92732693	290	77455											
IQGAP3	128239	broad.mit.edu	37	chr1	156532379	156532379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctcgaggtctcttacCgttgacatggttgatattgc	6	15	10	10	2	1	2	0	2	1	0	4	3	2	2	2	2	3	3	2	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:156532379C>T	uc001fpf.2	-	9	952	c.877G>A	c.(877-879)GTC>ATC	p.V293I	IQGAP3_uc009wsb.1_Missense_Mutation_p.V250I	NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	293					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GGTCTCTTACCGTTGACATGG	0.507													42	121					0	0	1	0	0		T	156532379	T	T	156532379	3	4	151	1	0	0	0	0	1	0	0	0	7832	666	23	1	4138	1	IQGAP3	1	156532379	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	14451	156532379	92718242	291	77456											
ARHGEF11	9826	broad.mit.edu	37	chr1	156955924	156955924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggtgggaaggggacttgCgctctggtgcagaatctccc	7	9	16	9	1	2	1	0	0	2	1	3	4	2	3	1	5	2	2	1	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:156955924C>T	uc001fqo.2	-	2	1114	c.74G>A	c.(73-75)CGC>CAC	p.R25H	ARHGEF11_uc001fqn.2_Missense_Mutation_p.R25H	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	25					actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					AGGGGACTTGCGCTCTGGTGC	0.473													36	86					0	0	1	0	0		T	156955924	T	T	156955924	3	4	151	1	0	0	0	0	1	0	0	0	896	768	27	1	4774	1	ARHGEF11	1	156955924	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	423545	156955924	92294697	292	77457											
CD1C	911	broad.mit.edu	37	chr1	158263003	158263003	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttccaatatgtgcaggAcaccacttttccatgaattg	11	14	6	10	0	1	1	0	1	1	0	3	2	3	2	3	1	1	1	3	1	3	5	rs114722992	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:158263003A>G	uc001fru.2	+	5	1183	c.891A>G	c.(889-891)GGA>GGG	p.G297G	CD1C_uc001frv.2_Intron	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	297	Extracellular (Potential).				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					TATGTGCAGGACACCACTTTT	0.373													66	304					0	0	1	0	0		G	158263003	G	G	158263003	2	3	151	1	0	0	0	0	0	0	0	1	2979	289	10	3		3	CD1C	1	158263003	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1307079	158263003	90987618	293	77458											
OR6K2	81448	broad.mit.edu	37	chr1	158670434	158670434	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgaatggtggttcgattgggGctctccatctccaagttgaa	8	13	12	8	1	2	2	0	2	2	0	5	3	2	2	2	4	0	3	2	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:158670434G>T	uc001fsu.1	-	1	9	c.9C>A	c.(7-9)AGC>AGA	p.S3R		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	3	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TTCGATTGGGGCTCTCCATCT	0.433													27	75					3.65163e-15	3.79484e-15	1	1	0		T	158670434	T	T	158670434	3	4	151	1	0	0	0	0	1	0	0	0	11221	1194	42	5	969	5	OR6K2	1	158670434	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	407431	158670434	90580187	294	77459											
OR6K3	391114	broad.mit.edu	37	chr1	158687161	158687161	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatacactgccaaagaataTcgggaagaccatgaggtggc	14	7	12	8	1	0	4	0	2	0	2	1	5	0	5	2	3	2	0	2	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:158687161T>A	uc010pip.1	-	1	793	c.793A>T	c.(793-795)ATA>TTA	p.I265L		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	265	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					CCAAAGAATATCGGGAAGACC	0.458													27	117					0	0	1	0	0		A	158687161	A	A	158687161	3	1	151	1	0	0	0	0	1	0	0	0	11222	1435	50	5	204	5	OR6K3	1	158687161	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	16727	158687161	90563460	295	77460											
OR6K3	391114	broad.mit.edu	37	chr1	158687464	158687464	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaaaccgaagaggcaggAacctgcagagagttgagcac	16	3	14	8	1	0	3	0	1	0	2	0	7	0	5	2	3	4	4	2	3	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:158687464A>G	uc010pip.1	-	1	490	c.490T>C	c.(490-492)TCC>CCC	p.S164P		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	164	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					AAGAGGCAGGAACCTGCAGAG	0.512													27	98					0	0	1	0	0		G	158687464	G	G	158687464	3	3	151	1	0	0	0	0	1	0	0	0	11222	246	9	3	507	3	OR6K3	1	158687464	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	303	158687464	90563157	296	77461											
CADM3	57863	broad.mit.edu	37	chr1	159163707	159163707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatggtaaaaccttcactGtcagcagctcggtgacattc	11	10	8	12	1	2	1	2	1	0	0	4	1	2	1	2	2	3	3	2	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:159163707G>A	uc001ftl.2	+	5	710	c.568G>A	c.(568-570)GTC>ATC	p.V190I	CADM3_uc009wsy.1_Intron|CADM3_uc001ftk.2_Missense_Mutation_p.V224I	NM_001127173	NP_001120645	Q8N126	CADM3_HUMAN	cell adhesion molecule 3 isoform 2	190	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|heterophilic cell-cell adhesion|homophilic cell adhesion	cell-cell junction|integral to membrane	protein homodimerization activity			ovary(2)	2	all_hematologic(112;0.0429)					AACCTTCACTGTCAGCAGCTC	0.517													13	53					0	0	1	0	0		A	159163707	A	A	159163707	3	1	151	1	0	0	0	0	1	0	0	0	2571	1377	48	4	692	4	CADM3	1	159163707	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	476243	159163707	90086914	297	77462											
OR10J3	441911	broad.mit.edu	37	chr1	159284344	159284344	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccagagagagtcagcaggtAcaaagttaggaagacaacaa	18	4	12	7	0	1	3	1	0	0	3	1	5	1	4	1	2	3	3	1	2	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:159284344A>G	uc010piu.1	-	1	106	c.106T>C	c.(106-108)TAC>CAC	p.Y36H		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					GTCAGCAGGTACAAAGTTAGG	0.443													48	213					0	0	1	0	0		G	159284344	G	G	159284344	3	3	151	1	0	0	0	0	1	0	0	0	10930	391	14	3	885	3	OR10J3	1	159284344	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	120637	159284344	89966277	298	77463											
FCRL6	343413	broad.mit.edu	37	chr1	159780002	159780002	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgtgagatcctggagaaaAgctggtcagtaactcctctt	11	12	10	8	0	2	2	1	1	1	2	4	4	4	2	2	2	2	2	2	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:159780002A>C	uc001fud.3	+	6	1047	c.1005A>C	c.(1003-1005)AAA>AAC	p.K335N	FCRL6_uc001fuc.2_Missense_Mutation_p.K342N|FCRL6_uc009wsz.1_Missense_Mutation_p.K240N|FCRL6_uc009wta.2_Missense_Mutation_p.K335N	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	335	Cytoplasmic (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					CCTGGAGAAAAGCTGGTCAGT	0.552													18	114					0	0	1	0	0		C	159780002	C	C	159780002	3	2	151	1	0	0	0	0	1	0	0	0	5813	69	3	5	1027	5	FCRL6	1	159780002	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	495658	159780002	89470619	299	77464											
VSIG8	391123	broad.mit.edu	37	chr1	159827580	159827580	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggtaggacagctctgAgtggtagctgtgctgggagg	6	10	17	8	0	1	1	0	1	1	0	2	3	2	3	1	5	3	5	1	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:159827580A>T	uc001fuh.2	-	4	743	c.607T>A	c.(607-609)TCA>ACA	p.S203T	C1orf204_uc001fuf.1_5'Flank|C1orf204_uc001fug.1_5'Flank	NM_001013661	NP_001013683	Q5VU13	VSIG8_HUMAN	V-set and immunoglobulin domain containing 8	203	Extracellular (Potential).|Ig-like V-type 2.					integral to membrane				central_nervous_system(1)	1	all_hematologic(112;0.0597)					GACAGCTCTGAGTGGTAGCTG	0.597													11	42					0	0	1	0	0		T	159827580	T	T	159827580	3	4	151	1	0	0	0	0	1	0	0	0	17252	304	11	5	653	5	VSIG8	1	159827580	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	47578	159827580	89423041	300	77465											
IGSF8	93185	broad.mit.edu	37	chr1	160063696	160063696	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcccctgcagccaatcgCtcagcatagggagctccagc	9	6	10	16	1	1	0	1	0	0	0	4	1	3	1	4	1	6	5	4	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:160063696C>A	uc001fva.2	-	3	753	c.708G>T	c.(706-708)GAG>GAT	p.E236D	IGSF8_uc001fuz.2_Missense_Mutation_p.E236D|IGSF8_uc009wtf.2_Missense_Mutation_p.E236D	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	236	Extracellular (Potential).|Ig-like C2-type 2.				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CAGCCAATCGCTCAGCATAGG	0.642													14	62					4.36969e-10	4.49804e-10	1	1	0		A	160063696	A	A	160063696	3	1	151	1	0	0	0	0	1	0	0	0	7620	796	28	5	1149	5	IGSF8	1	160063696	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	236116	160063696	89186925	301	77466											
ATP1A4	480	broad.mit.edu	37	chr1	160134082	160134082	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcatccatctgatcactgtGgtggccgtcttccttggtgt	4	16	10	11	1	4	1	2	1	2	0	6	1	6	1	3	3	0	0	3	3	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:160134082G>T	uc001fve.3	+	7	1394	c.915G>T	c.(913-915)GTG>GTT	p.V305V	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_5'Flank	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	305	Helical; (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TGATCACTGTGGTGGCCGTCT	0.527													46	205					1.54707e-10	1.59462e-10	1	1	0		T	160134082	T	T	160134082	2	4	151	1	0	0	0	0	0	0	0	1	1132	1335	47	5		5	ATP1A4	1	160134082	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	70386	160134082	89116539	302	77467											
COPA	1314	broad.mit.edu	37	chr1	160267456	160267456	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatttccacaatctggtggTtcccctgcagcagggccact	8	10	9	14	0	1	0	0	0	1	0	3	0	3	0	4	3	2	3	4	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:160267456T>C	uc009wti.2	-	20	2451	c.2057A>G	c.(2056-2058)AAC>AGC	p.N686S	COPA_uc001fvv.3_Missense_Mutation_p.N695S	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	686					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AATCTGGTGGTTCCCCTGCAG	0.473													35	160					0	0	1	0	0		C	160267456	C	C	160267456	3	2	151	1	0	0	0	0	1	0	0	0	3730	1725	60	3	1673	3	COPA	1	160267456	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	133374	160267456	88983165	303	77468											
COPA	1314	broad.mit.edu	37	chr1	160268702	160268702	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgacaaaatgcagtgccActtcaggatagcccttcttc	10	11	7	13	0	2	1	1	1	1	0	3	2	2	2	3	1	3	1	3	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:160268702A>G	uc009wti.2	-	19	2304	c.1910T>C	c.(1909-1911)GTG>GCG	p.V637A	COPA_uc001fvv.3_Missense_Mutation_p.V646A	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	637					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			ATGCAGTGCCACTTCAGGATA	0.463													35	158					0	0	1	0	0		G	160268702	G	G	160268702	3	3	151	1	0	0	0	0	1	0	0	0	3730	159	6	3	1824	3	COPA	1	160268702	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1246	160268702	88981919	304	77469											
COPA	1314	broad.mit.edu	37	chr1	160276963	160276963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaactcaccgaatgcatcCgatctaggacagcaaaccga	14	7	7	13	3	2	0	1	0	1	0	3	4	3	1	3	1	4	2	3	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:160276963C>T	uc009wti.2	-	14	1686	c.1292G>A	c.(1291-1293)CGG>CAG	p.R431Q	COPA_uc001fvv.3_Missense_Mutation_p.R431Q|COPA_uc009wtj.1_Missense_Mutation_p.R377Q	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	431					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CGAATGCATCCGATCTAGGAC	0.473													38	176					0	0	1	0	0		T	160276963	T	T	160276963	3	4	151	1	0	0	0	0	1	0	0	0	3730	652	23	1	2489	1	COPA	1	160276963	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	8261	160276963	88973658	305	77470											
NCSTN	23385	broad.mit.edu	37	chr1	160320035	160320035	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgaaaccaaagtcatcAagcaggtaatgacactgcca	19	6	7	9	0	2	2	2	2	0	0	2	2	2	2	2	1	3	2	2	1	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:160320035A>G	uc001fvx.2	+	5	701	c.577A>G	c.(577-579)AAG>GAG	p.K193E	NCSTN_uc001fvy.2_Missense_Mutation_p.K173E|NCSTN_uc010pjf.1_Missense_Mutation_p.K193E|NCSTN_uc001fvz.2_5'UTR|NCSTN_uc010pjg.1_5'UTR	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	193	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CAAAGTCATCAAGCAGGTAAT	0.308													36	161					0	0	1	0	0		G	160320035	G	G	160320035	3	3	151	1	0	0	0	0	1	0	0	0	10260	131	5	3	595	3	NCSTN	1	160320035	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	43072	160320035	88930586	306	77471											
SLAMF7	57823	broad.mit.edu	37	chr1	160718018	160718018	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacccgtgaaagagctggtCggttccgttggtggggccgt	5	9	18	9	4	0	2	0	1	0	1	2	3	1	3	3	6	1	3	3	6	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:160718018C>T	uc001fwq.2	+	2	105	c.90C>T	c.(88-90)GTC>GTT	p.V30V	SLAMF7_uc010pjn.1_Intron|SLAMF7_uc001fws.2_Intron|SLAMF7_uc001fwr.2_Silent_p.V30V|SLAMF7_uc010pjo.1_Silent_p.V30V|SLAMF7_uc010pjp.1_Intron|SLAMF7_uc010pjq.1_Silent_p.V30V|SLAMF7_uc010pjr.1_Intron	NM_021181	NP_067004	Q9NQ25	SLAF7_HUMAN	SLAM family member 7	30	Extracellular (Potential).				cell adhesion|natural killer cell activation|natural killer cell mediated cytotoxicity	integral to membrane	receptor activity			skin(2)|ovary(1)	3	all_cancers(52;2.63e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			AAGAGCTGGTCGGTTCCGTTG	0.502													10	63					0	0	1	0	0		T	160718018	T	T	160718018	2	4	151	1	0	0	0	0	0	0	0	1	14394	871	31	1		1	SLAMF7	1	160718018	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	397983	160718018	88532603	307	77472											
ITLN2	142683	broad.mit.edu	37	chr1	160917764	160917764	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttatcccagcacaaagggcGttggctgctctctcgttatt	7	14	9	11	2	1	0	0	0	1	0	4	0	2	0	1	2	2	5	1	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:160917764G>A	uc001fxd.2	-	7	838	c.780C>T	c.(778-780)AAC>AAT	p.N260N	ITLN2_uc009wts.2_Silent_p.N259N|ITLN2_uc010pju.1_Silent_p.N177N	NM_080878	NP_543154	Q8WWU7	ITLN2_HUMAN	intelectin 2 precursor	260	Fibrinogen C-terminal.				signal transduction	extracellular region	receptor binding|sugar binding			ovary(1)	1	all_cancers(52;2.99e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CACAAAGGGCGTTGGCTGCTC	0.408													13	97					0	0	1	0	0		A	160917764	A	A	160917764	2	1	151	1	0	0	0	0	0	0	0	1	7927	1136	40	1		1	ITLN2	1	160917764	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	199746	160917764	88332857	308	77473											
KLHDC9	126823	broad.mit.edu	37	chr1	161070003	161070003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtccacaggtttgcatcctgGactttatctaaatagtgcca	10	13	8	10	0	1	0	0	0	1	0	3	1	3	1	3	2	2	2	3	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:161070003G>A	uc001fxr.2	+	4	1211	c.1039G>A	c.(1039-1041)GAC>AAC	p.D347N	KLHDC9_uc001fxq.2_Missense_Mutation_p.D109N|KLHDC9_uc001fxs.2_3'UTR	NM_152366	NP_689579	Q8NEP7	KLDC9_HUMAN	kelch/ankyrin repeat containing cyclin A1	347	Kelch 3.										0	all_cancers(52;1.28e-19)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			TTGCATCCTGGACTTTATCTA	0.473													42	153					0	0	1	0	0		A	161070003	A	A	161070003	3	1	151	1	0	0	0	0	1	0	0	0	8380	1174	41	4	1072	4	KLHDC9	1	161070003	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	152239	161070003	88180618	309	77474											
FCGR2C	9103	broad.mit.edu	37	chr1	161559418	161559418	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctccaagaggactctgTgactctgacatgccggggga	8	8	14	11	2	2	3	0	2	2	1	3	5	3	5	2	3	2	1	2	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:161559418T>C	uc001gav.2	+	4	299	c.200T>C	c.(199-201)GTG>GCG	p.V67A	FCGR2C_uc009wuj.2_RNA|FCGR2C_uc009wuk.2_RNA	NM_201563	NP_963857			Fc fragment of IgG, low affinity IIc, receptor												0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			GAGGACTCTGTGACTCTGACA	0.587													21	90					0	0	1	0	0		C	161559418	C	C	161559418	3	2	151	1	0	0	0	0	1	0	0	0	5797	1696	59	3	210	3	FCGR2C	1	161559418	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	489415	161559418	87691203	310	77475											
RGS5	8490	broad.mit.edu	37	chr1	163122374	163122374	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtttgaatgaattcttcaTaaatttgctttgccttctca	9	18	5	9	1	3	2	2	2	2	0	4	2	3	2	2	0	2	2	2	0	4	7	rs144088608		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:163122374T>C	uc001gcn.2	-	4	597	c.350A>G	c.(349-351)TAT>TGT	p.Y117C	RGS5_uc009wvb.2_RNA	NM_003617	NP_003608	O15539	RGS5_HUMAN	regulator of G-protein signalling 5	117	RGS.				negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity				0			LUSC - Lung squamous cell carcinoma(543;0.187)			GAATTCTTCATAAATTTGCTT	0.453													8	515					0	0	1	0	0		C	163122374	C	C	163122374	3	2	151	1	0	0	0	0	1	0	0	0	13333	1406	49	3	203	3	RGS5	1	163122374	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1562956	163122374	86128247	311	77476											
NUF2	83540	broad.mit.edu	37	chr1	163315530	163315530	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactgcctgccttcatgtcaGttggaagtgcagttatatca	9	13	10	9	0	3	0	3	0	0	0	3	2	3	1	2	1	3	3	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:163315530G>T	uc001gcq.1	+	11	1170	c.870G>T	c.(868-870)CAG>CAT	p.Q290H	NUF2_uc001gcp.2_Missense_Mutation_p.Q290H|NUF2_uc001gcr.1_Missense_Mutation_p.Q290H|NUF2_uc009wvc.1_Intron	NM_145697	NP_663735	Q9BZD4	NUF2_HUMAN	NUF2, NDC80 kinetochore complex component	290	Interaction with the N-terminus of NDC80.|Potential.				cell division|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding			ovary(3)|skin(1)	4	all_hematologic(923;0.101)					CTTCATGTCAGTTGGAAGTGC	0.358													22	121					1.64113e-05	1.66225e-05	1	1	0		T	163315530	T	T	163315530	3	4	151	1	0	0	0	0	1	0	0	0	10766	1020	36	5	908	5	NUF2	1	163315530	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	193156	163315530	85935091	312	77477											
RXRG	6258	broad.mit.edu	37	chr1	165386317	165386317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacaaggcacttctgatagcGacagtactggcagcggttgc	10	8	13	10	2	1	1	0	1	1	0	1	3	1	1	0	3	4	4	0	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:165386317G>A	uc001gda.2	-	4	883	c.583C>T	c.(583-585)CGC>TGC	p.R195C		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	195	NR C4-type.|Nuclear receptor.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	TTCTGATAGCGACAGTACTGG	0.512													13	71					0	0	1	0	0		A	165386317	A	A	165386317	3	1	151	1	0	0	0	0	1	0	0	0	13790	1058	37	1	836	1	RXRG	1	165386317	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2070787	165386317	83864304	313	77478											
ALDH9A1	223	broad.mit.edu	37	chr1	165632366	165632366	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcgattgtcacacggccgTtctctctgccaaatcctgaa	9	12	7	13	3	3	1	1	1	2	0	6	2	4	1	3	1	1	1	3	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:165632366T>C	uc001gdh.1	-	11	1583	c.1478A>G	c.(1477-1479)AAC>AGC	p.N493S	ALDH9A1_uc010pky.1_Missense_Mutation_p.N399S|ALDH9A1_uc010pkz.1_Missense_Mutation_p.N483S	NM_000696	NP_000687	P49189	AL9A1_HUMAN	aldehyde dehydrogenase 9A1	469					carnitine biosynthetic process|cellular aldehyde metabolic process|hormone metabolic process|neurotransmitter biosynthetic process	cytosol|plasma membrane	3-chloroallyl aldehyde dehydrogenase activity|4-trimethylammoniobutyraldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aminobutyraldehyde dehydrogenase activity				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				NADH(DB00157)	CACACGGCCGTTCTCTCTGCC	0.438													23	63					0	0	1	0	0		C	165632366	C	C	165632366	3	2	151	1	0	0	0	0	1	0	0	0	506	1725	60	3	82	3	ALDH9A1	1	165632366	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	246049	165632366	83618255	314	77479											
TADA1	117143	broad.mit.edu	37	chr1	166838708	166838708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagaaaccaaaatctgacaaCgcgtgagaatggccaggagg	16	5	12	8	2	1	3	0	2	1	2	1	5	1	4	2	3	2	0	2	3	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:166838708C>T	uc001gdw.2	-	3	390	c.206G>A	c.(205-207)CGT>CAT	p.R69H	TADA1_uc009wve.2_Missense_Mutation_p.R69H	NM_053053	NP_444281	Q96BN2	TADA1_HUMAN	transcriptional adaptor 1-like	69					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(1)	1						AATCTGACAACGCGTGAGAAT	0.388													12	44					0	0	1	0	0		T	166838708	T	T	166838708	3	4	151	1	0	0	0	0	1	0	0	0	15534	536	19	1	825	1	TADA1	1	166838708	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1206342	166838708	82411913	315	77480											
ILDR2	387597	broad.mit.edu	37	chr1	166927241	166927241	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcacaactgcaggctgatgGgaggatgttgagaagtggca	11	8	16	6	0	0	2	0	2	0	1	0	5	0	4	0	4	3	5	0	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:166927241G>T	uc001gdx.1	-	2	200	c.144C>A	c.(142-144)TCC>TCA	p.S48S		NM_199351	NP_955383	Q71H61	ILDR2_HUMAN	immunoglobulin-like domain containing receptor	48	Ig-like V-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1						CAGGCTGATGGGAGGATGTTG	0.572													34	152					6.70999e-13	6.95585e-13	1	1	0		T	166927241	T	T	166927241	2	4	151	1	0	0	0	0	0	0	0	1	7726	1219	43	5		5	ILDR2	1	166927241	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	88533	166927241	82323380	316	77481											
DUSP27	92235	broad.mit.edu	37	chr1	167095407	167095407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccctcatagacgaggaggagGaggagaaactgtacgagcag	14	4	15	8	2	1	2	1	0	0	2	1	8	1	5	1	4	3	2	1	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:167095407G>A	uc001geb.1	+	5	1039	c.1039G>A	c.(1039-1041)GAG>AAG	p.E347K		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	347					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						CGAGGAGGAGGAGGAGAAACT	0.657													4	7					0	0	1	0	0		A	167095407	A	A	167095407	3	1	151	1	0	0	0	0	1	0	0	0	4830	1175	41	4	1057	4	DUSP27	1	167095407	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	168166	167095407	82155214	317	77482											
SELL	6402	broad.mit.edu	37	chr1	169677585	169677585	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagggctgcctttagttTgtggcaggcgtcatcgttcc	6	12	13	10	2	1	1	1	0	0	1	3	1	2	1	2	3	1	4	2	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:169677585T>C	uc001ggk.2	-	3	643	c.445A>G	c.(445-447)AAA>GAA	p.K149E	C1orf112_uc001ggj.2_Intron|SELL_uc010pls.1_Missense_Mutation_p.K102E|SELL_uc001ggl.1_Missense_Mutation_p.K162E	NM_000655	NP_000646	P14151	LYAM1_HUMAN	selectin L precursor	149	C-type lectin.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	integral to plasma membrane	glycosphingolipid binding|heparin binding|protease binding|sugar binding				0	all_hematologic(923;0.208)					GCCTTTAGTTTGTGGCAGGCG	0.488													26	83					0	0	1	0	0		C	169677585	C	C	169677585	3	2	151	1	0	0	0	0	1	0	0	0	14041	1821	63	3	701	3	SELL	1	169677585	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2582178	169677585	79573036	318	77483											
SELE	6401	broad.mit.edu	37	chr1	169701051	169701051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtctctacacattcacCgtggccactgcaggatgtat	9	11	10	11	1	2	0	1	0	1	0	3	2	2	1	2	3	2	2	2	3	2	3	rs143566739		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:169701051C>T	uc001ggm.3	-	4	611	c.454G>A	c.(454-456)GGT>AGT	p.G152S	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	152	EGF-like.|Extracellular (Potential).				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					ACACATTCACCGTGGCCACTG	0.443													18	59					0	0	1	0	0		T	169701051	T	T	169701051	3	4	151	1	0	0	0	0	1	0	0	0	14038	652	23	1	1418	1	SELE	1	169701051	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	23466	169701051	79549570	319	77484											
C1orf112	55732	broad.mit.edu	37	chr1	169772333	169772333	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgcagctcttaggagcTctcacaggatgtgttcagca	9	11	12	9	0	3	0	2	0	2	0	4	2	3	2	0	3	4	5	0	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:169772333T>G	uc001ggp.2	+	6	505	c.195T>G	c.(193-195)GCT>GCG	p.A65A	C1orf112_uc001ggj.2_RNA|C1orf112_uc001ggo.2_Silent_p.A65A|C1orf112_uc001ggq.2_Silent_p.A65A|C1orf112_uc009wvt.2_5'UTR|C1orf112_uc010plu.1_Silent_p.A36A|C1orf112_uc009wvu.1_Silent_p.A36A|C1orf112_uc001ggr.2_5'UTR|C1orf112_uc010plv.1_Silent_p.A7A	NM_018186	NP_060656	Q9NSG2	CA112_HUMAN	hypothetical protein LOC55732	65											0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TCTTAGGAGCTCTCACAGGAT	0.299													15	84					0	0	1	0	0		G	169772333	G	G	169772333	2	3	151	1	0	0	0	0	0	0	0	1	1988	1538	54	5		5	C1orf112	1	169772333	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	71282	169772333	79478288	320	77485											
PRRX1	5396	broad.mit.edu	37	chr1	170695482	170695482	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgtggagcagcccatcgTacctcgtcctgctccgagac	6	9	11	15	3	0	1	0	0	0	1	4	3	2	2	4	1	5	4	4	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:170695482T>C	uc001ghf.2	+	3	586	c.539T>C	c.(538-540)GTA>GCA	p.V180A	PRRX1_uc001ghe.2_Missense_Mutation_p.V180A	NM_022716	NP_073207	P54821	PRRX1_HUMAN	paired mesoderm homeobox 1 isoform pmx-1b	180						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity	p.V180I(1)		ovary(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CAGCCCATCGTACCTCGTCCT	0.562													22	59					0	0	1	0	0		C	170695482	C	C	170695482	3	2	151	1	0	0	0	0	1	0	0	0	12634	1638	57	3	549	3	PRRX1	1	170695482	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	923149	170695482	78555139	321	77486											
PRRX1	5396	broad.mit.edu	37	chr1	170695497	170695497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtacctcgtcctgctcCgagacccaccgattatctct	7	11	6	17	4	1	1	0	0	1	1	6	3	3	1	5	0	2	2	5	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:170695497C>T	uc001ghf.2	+	3	601	c.554C>T	c.(553-555)CCG>CTG	p.P185L	PRRX1_uc001ghe.2_Missense_Mutation_p.P185L	NM_022716	NP_073207	P54821	PRRX1_HUMAN	paired mesoderm homeobox 1 isoform pmx-1b	185						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CGTCCTGCTCCGAGACCCACC	0.557													9	75					0	0	1	0	0		T	170695497	T	T	170695497	3	4	151	1	0	0	0	0	1	0	0	0	12634	652	23	1	564	1	PRRX1	1	170695497	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	15	170695497	78555124	322	77487											
C1orf9	51430	broad.mit.edu	37	chr1	172558159	172558159	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatataaatggtgttcagttAgagttgctctttatcggcag	10	16	10	5	1	2	1	1	0	1	1	3	1	2	1	0	2	1	5	0	2	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:172558159A>G	uc001giq.3	+	18	2234	c.1918A>G	c.(1918-1920)AGA>GGA	p.R640G	C1orf9_uc010pmm.1_Missense_Mutation_p.R640G|C1orf9_uc009wwd.2_Missense_Mutation_p.R596G|C1orf9_uc010pmn.1_Intron|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	640					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		GTGTTCAGTTAGAGTTGCTCT	0.393													10	63					0	0	1	0	0		G	172558159	G	G	172558159	3	3	151	1	0	0	0	0	1	0	0	0	2070	412	15	3	1988	3	C1orf9	1	172558159	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1862662	172558159	76692462	323	77488											
SLC9A11	284525	broad.mit.edu	37	chr1	173499145	173499145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actatacatcaagctgaggcGctttttgatctgcacatctg	10	13	8	10	1	3	2	1	2	2	0	3	2	3	2	0	1	3	3	0	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:173499145G>A	uc001giz.2	-	18	2635	c.2212C>T	c.(2212-2214)CGC>TGC	p.R738C	SLC9A11_uc009wwe.2_Missense_Mutation_p.R296C|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	738					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						AAGCTGAGGCGCTTTTTGATC	0.323													44	135					0	0	1	0	0		A	173499145	A	A	173499145	3	1	151	1	0	0	0	0	1	0	0	0	14736	1087	38	1	1206	1	SLC9A11	1	173499145	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	940986	173499145	75751476	324	77489											
KLHL20	27252	broad.mit.edu	37	chr1	173726131	173726131	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttggtggttggtgcagTggagatgccatttccagtgt	6	13	15	7	0	0	1	0	0	0	1	1	2	1	1	3	4	2	3	3	4	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:173726131T>C	uc001gjc.2	+	7	1163	c.984T>C	c.(982-984)AGT>AGC	p.S328S	KLHL20_uc010pmr.1_Silent_p.S139S|KLHL20_uc009wwf.2_Silent_p.S310S	NM_014458	NP_055273	Q9Y2M5	KLH20_HUMAN	kelch-like 20	328	Kelch 1.				cytoskeleton organization|negative regulation of apoptosis|proteasomal ubiquitin-dependent protein catabolic process|response to interferon-alpha	actin cytoskeleton|cell surface|Cul3-RING ubiquitin ligase complex|Golgi apparatus|perinuclear region of cytoplasm|PML body	actin binding|interferon-gamma binding|ubiquitin-protein ligase activity			ovary(1)	1						GTTGGTGCAGTGGAGATGCCA	0.448													36	177					0	0	1	0	0		C	173726131	C	C	173726131	2	2	151	1	0	0	0	0	0	0	0	1	8391	1693	59	3		3	KLHL20	1	173726131	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	226986	173726131	75524490	325	77490											
CACYBP	27101	broad.mit.edu	37	chr1	174975919	174975919	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtttgtgaaaatctacattAccttaactggagttcatcaa	14	14	6	7	0	3	1	2	1	1	0	3	2	3	2	1	1	3	2	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:174975919A>G	uc001gkj.1	+	3	699	c.274A>G	c.(274-276)ACC>GCC	p.T92A	CACYBP_uc001gki.1_Missense_Mutation_p.T49A	NM_014412	NP_055227	Q9HB71	CYBP_HUMAN	calcyclin binding protein isoform 1	92	Interaction with SKP1.|CS.					beta-catenin destruction complex	protein homodimerization activity				0						AATCTACATTACCTTAACTGG	0.403													20	87					0	0	1	0	0		G	174975919	G	G	174975919	3	3	151	1	0	0	0	0	1	0	0	0	2567	391	14	3	284	3	CACYBP	1	174975919	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1249788	174975919	74274702	326	77491											
MRPS14	63931	broad.mit.edu	37	chr1	174987603	174987603	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgagtgaattaatacgtAgcctctcatctgcgtattca	10	14	7	10	2	3	2	2	2	2	0	5	2	4	2	2	0	3	2	2	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:174987603A>G	uc001gkk.2	-	2	172	c.155T>C	c.(154-156)CTA>CCA	p.L52P	MRPS14_uc009wwr.2_Missense_Mutation_p.L37P	NM_022100	NP_071383	O60783	RT14_HUMAN	mitochondrial ribosomal protein S14	52					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0						ATTAATACGTAGCCTCTCATC	0.408													54	201					0	0	1	0	0		G	174987603	G	G	174987603	3	3	151	1	0	0	0	0	1	0	0	0	9842	420	15	3	239	3	MRPS14	1	174987603	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	11684	174987603	74263018	327	77492											
TNN	63923	broad.mit.edu	37	chr1	175087805	175087805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtatgtggtgcactacaCgtctgccaacggagagacca	11	7	12	11	2	1	1	0	0	1	1	1	3	1	2	2	3	4	2	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:175087805C>T	uc001gkl.1	+	11	2608	c.2495C>T	c.(2494-2496)ACG>ATG	p.T832M		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	832	Fibronectin type-III 7.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GTGCACTACACGTCTGCCAAC	0.612													24	76					0	0	1	0	0		T	175087805	T	T	175087805	3	4	151	1	0	0	0	0	1	0	0	0	16348	536	19	1	2533	1	TNN	1	175087805	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	100202	175087805	74162816	328	77493											
TNN	63923	broad.mit.edu	37	chr1	175113675	175113675	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcagatatggggagaccAagcacagtgaggtaggtgac	13	6	16	6	0	0	4	0	2	0	2	0	5	0	4	1	5	1	3	1	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:175113675A>G	uc001gkl.1	+	18	3861	c.3748A>G	c.(3748-3750)AAG>GAG	p.K1250E		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	1250	Fibrinogen C-terminal.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		TGGGGAGACCAAGCACAGTGA	0.527													11	59					0	0	1	0	0		G	175113675	G	G	175113675	3	3	151	1	0	0	0	0	1	0	0	0	16348	131	5	3	3814	3	TNN	1	175113675	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	25870	175113675	74136946	329	77494											
TNR	7143	broad.mit.edu	37	chr1	175299227	175299227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacccgcagtgccgttgtagCttcctatgcggagtttgtac	6	13	11	11	3	0	0	0	0	0	0	1	1	1	1	3	1	5	6	3	1	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:175299227C>T	uc001gkp.1	-	19	3857	c.3776G>A	c.(3775-3777)AGC>AAC	p.S1259N	TNR_uc009wwu.1_Missense_Mutation_p.S1259N	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1259	Fibrinogen C-terminal.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GCCGTTGTAGCTTCCTATGCG	0.597													20	75					0	0	1	0	0		T	175299227	T	T	175299227	3	4	151	1	0	0	0	0	1	0	0	0	16363	797	28	2	312	2	TNR	1	175299227	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	185552	175299227	73951394	330	77495											
TNR	7143	broad.mit.edu	37	chr1	175299353	175299353	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggccctgggatgtgatcCtgtgtatattgtccagccct	6	12	12	11	1	0	1	0	1	0	0	2	2	2	2	4	2	2	1	4	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:175299353C>A	uc001gkp.1	-	19	3731	c.3650G>T	c.(3649-3651)AGG>ATG	p.R1217M	TNR_uc009wwu.1_Missense_Mutation_p.R1217M	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1217	Fibrinogen C-terminal.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GGATGTGATCCTGTGTATATT	0.572													6	52					2.0095e-06	2.04374e-06	1	1	0		A	175299353	A	A	175299353	3	1	151	1	0	0	0	0	1	0	0	0	16363	681	24	5	438	5	TNR	1	175299353	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	126	175299353	73951268	331	77496											
RFWD2	64326	broad.mit.edu	37	chr1	176085813	176085813	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtattctgtggaatcaataaTactactgcaaaatgaagaga	17	11	8	5	0	2	2	1	1	1	1	2	4	2	3	0	1	3	2	0	1	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:176085813T>C	uc001gku.1	-	9	1229	c.973A>G	c.(973-975)ATT>GTT	p.I325V	RFWD2_uc001gkv.1_Missense_Mutation_p.I301V|RFWD2_uc001gkw.1_Missense_Mutation_p.I85V|RFWD2_uc009wwv.2_Missense_Mutation_p.I85V|RFWD2_uc001gkt.1_Missense_Mutation_p.I164V	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	325					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						GAATCAATAATACTACTGCAA	0.299													54	201					0	0	1	0	0		C	176085813	C	C	176085813	3	2	151	1	0	0	0	0	1	0	0	0	13285	1406	49	3	1270	3	RFWD2	1	176085813	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	786460	176085813	73164808	332	77497											
RFWD2	64326	broad.mit.edu	37	chr1	176145092	176145092	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atattgtccacaacatagttAcacttgggacatctattatt	13	15	5	8	0	1	0	0	0	1	0	2	1	2	1	1	1	2	1	1	1	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:176145092A>G	uc001gku.1	-	3	775	c.519T>C	c.(517-519)TGT>TGC	p.C173C	RFWD2_uc001gkv.1_Silent_p.C173C|RFWD2_uc001gkw.1_5'UTR|RFWD2_uc001gkt.1_Silent_p.C32C	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	173	RING-type.				DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						CAACATAGTTACACTTGGGAC	0.323													26	163					0	0	1	0	0		G	176145092	G	G	176145092	2	3	151	1	0	0	0	0	0	0	0	1	13285	389	14	3		3	RFWD2	1	176145092	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	59279	176145092	73105529	333	77498											
PAPPA2	60676	broad.mit.edu	37	chr1	176563808	176563808	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccatcttgattagccaCagtcgctaccaaccaggcac	11	7	7	16	1	1	1	0	1	1	0	2	1	1	1	5	1	3	2	5	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:176563808C>T	uc001gkz.2	+	3	2232	c.1068C>T	c.(1066-1068)CAC>CAT	p.H356H	PAPPA2_uc001gky.1_Silent_p.H356H|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	356					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TGATTAGCCACAGTCGCTACC	0.577													14	58					0	0	1	0	0		T	176563808	T	T	176563808	2	4	151	1	0	0	0	0	0	0	0	1	11452	477	17	4		4	PAPPA2	1	176563808	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	418716	176563808	72686813	334	77499											
FAM5B	57795	broad.mit.edu	37	chr1	177245384	177245384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgagcgctttgtagctgcaGcactcagctacatcacatgc	9	10	10	12	1	2	1	2	1	0	0	2	1	2	1	0	0	7	6	0	0	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:177245384G>A	uc001glf.2	+	6	1138	c.826G>A	c.(826-828)GCA>ACA	p.A276T	FAM5B_uc010pna.1_Missense_Mutation_p.A26T|FAM5B_uc001glg.2_Missense_Mutation_p.A171T	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	276						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TGTAGCTGCAGCACTCAGCTA	0.562													17	63					0	0	1	0	0		A	177245384	A	A	177245384	3	1	151	1	0	0	0	0	1	0	0	0	5607	971	34	2	844	2	FAM5B	1	177245384	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	681576	177245384	72005237	335	77500											
FAM5B	57795	broad.mit.edu	37	chr1	177249772	177249772	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caacccgggctatgtgctggCccaggggctgtgccggccag	5	6	16	14	2	0	0	0	0	0	0	0	0	0	0	4	5	3	3	4	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:177249772C>G	uc001glf.2	+	8	1772	c.1460C>G	c.(1459-1461)GCC>GGC	p.A487G	FAM5B_uc001glg.2_Missense_Mutation_p.A382G	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	487						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TATGTGCTGGCCCAGGGGCTG	0.632													9	53					0	0	1	0	0		G	177249772	G	G	177249772	3	3	151	1	0	0	0	0	1	0	0	0	5607	739	26	5	1486	5	FAM5B	1	177249772	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4388	177249772	72000849	336	77501											
TDRD5	163589	broad.mit.edu	37	chr1	179561744	179561744	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctgtcttcagtcctgtaGggcacaatgtctgaacaaga	10	13	9	9	0	4	2	1	1	3	1	5	2	5	2	1	1	1	2	1	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:179561744G>T	uc001gnf.1	+	2	244	c.-6G>T	c.(-8--4)TAGGG>TATGG		TDRD5_uc010pnp.1_Translation_Start_Site|uc001gne.2_5'Flank|uc010pno.1_5'Flank	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5						DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						CAGTCCTGTAGGGCACAATGT	0.438													37	128					4.34311e-12	4.49367e-12	1	1	0		T	179561744	T	T	179561744	1	4	151	1	0	0	0	0	0	0	0	0	15758	1015	35	5		5	TDRD5	1	179561744	Translation_Start_Site	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2311972	179561744	69688877	337	77502											
CACNA1E	777	broad.mit.edu	37	chr1	181727985	181727985	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaatgtgtcctgaaggTcatcgcttttggctttttgg	5	16	12	8	1	1	1	1	1	0	0	3	2	2	2	2	4	0	2	2	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:181727985T>C	uc001gow.2	+	32	4751	c.4586T>C	c.(4585-4587)GTC>GCC	p.V1529A	CACNA1E_uc009wxs.2_Missense_Mutation_p.V1417A|CACNA1E_uc001gox.1_Missense_Mutation_p.V755A|CACNA1E_uc009wxt.2_Missense_Mutation_p.V755A	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1529	Helical; Name=S2 of repeat IV.|IV.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GTCCTGAAGGTCATCGCTTTT	0.502													31	119					0	0	1	0	0		C	181727985	C	C	181727985	3	2	151	1	0	0	0	0	1	0	0	0	2545	1667	58	3	4712	3	CACNA1E	1	181727985	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2166241	181727985	67522636	338	77503											
DHX9	1660	broad.mit.edu	37	chr1	182836115	182836115	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgtgctcctgagaaaattAgaagcaggcattcgaggaat	13	9	13	6	1	0	2	0	1	0	2	2	5	1	3	1	3	2	3	1	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:182836115A>G	uc001gpr.2	+	14	1657	c.1494A>G	c.(1492-1494)TTA>TTG	p.L498L	DHX9_uc001gps.2_Silent_p.L284L	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9	498	Helicase ATP-binding.				CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						TGAGAAAATTAGAAGCAGGCA	0.303													55	216					0	0	1	0	0		G	182836115	G	G	182836115	2	3	151	1	0	0	0	0	0	0	0	1	4522	417	15	3		3	DHX9	1	182836115	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1108130	182836115	66414506	339	77504											
LAMC2	3918	broad.mit.edu	37	chr1	183201887	183201887	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatgactgtggaaagagtTcgggctctgggaagtcagta	12	9	15	5	1	2	3	1	1	1	2	3	5	2	5	0	3	0	3	0	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:183201887T>C	uc001gqa.2	+	14	2429	c.2115T>C	c.(2113-2115)GTT>GTC	p.V705V	LAMC2_uc001gpz.3_Silent_p.V705V|LAMC2_uc010poa.1_Silent_p.V405V	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	705	Potential.|Domain II and I.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						TGGAAAGAGTTCGGGCTCTGG	0.547													4	135					0	0	1	0	0		C	183201887	C	C	183201887	2	2	151	1	0	0	0	0	0	0	0	1	8631	1770	62	3		3	LAMC2	1	183201887	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	365772	183201887	66048734	340	77505											
RGL1	23179	broad.mit.edu	37	chr1	183881241	183881241	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctagggtctgacatgatcAccagtcccactcccaccaaa	11	9	6	15	0	3	2	1	2	2	0	5	2	5	2	4	1	0	0	4	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:183881241A>G	uc001gqo.2	+	15	1745	c.1588A>G	c.(1588-1590)ACC>GCC	p.T530A	RGL1_uc010pof.1_Missense_Mutation_p.T335A|RGL1_uc001gqm.2_Missense_Mutation_p.T565A|RGL1_uc010pog.1_Missense_Mutation_p.T528A|RGL1_uc010poh.1_Missense_Mutation_p.T528A|RGL1_uc010poi.1_Missense_Mutation_p.T501A	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	530					cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						TGACATGATCACCAGTCCCAC	0.488													21	56					0	0	1	0	0		G	183881241	G	G	183881241	3	3	151	1	0	0	0	0	1	0	0	0	13301	159	6	3	1751	3	RGL1	1	183881241	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	679354	183881241	65369380	341	77506											
RGL1	23179	broad.mit.edu	37	chr1	183885723	183885723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcgctctgtctcggtgaCgtccattacctcgactgtgc	6	11	10	14	4	2	1	0	1	2	0	5	2	3	1	2	1	3	1	2	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:183885723C>T	uc001gqo.2	+	16	2049	c.1892C>T	c.(1891-1893)ACG>ATG	p.T631M	RGL1_uc001gqm.2_Missense_Mutation_p.T666M|RGL1_uc010pog.1_Missense_Mutation_p.T629M|RGL1_uc010poh.1_Missense_Mutation_p.T629M|RGL1_uc010poi.1_Missense_Mutation_p.T602M	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	631					cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						GTCTCGGTGACGTCCATTACC	0.502													31	140					0	0	1	0	0		T	183885723	T	T	183885723	3	4	151	1	0	0	0	0	1	0	0	0	13301	536	19	1	2059	1	RGL1	1	183885723	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4482	183885723	65364898	342	77507											
C1orf26	54823	broad.mit.edu	37	chr1	185137497	185137497	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatcatacagatgttctgtActataatataaaaagaagac	19	11	6	5	0	2	4	1	0	1	4	2	4	2	4	0	0	2	2	0	0	9	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:185137497A>G	uc001grg.3	+	4	305	c.191A>G	c.(190-192)TAC>TGC	p.Y64C	C1orf26_uc001grh.3_Missense_Mutation_p.Y64C	NM_001105518	NP_001098988	Q5T5J6	SWT1_HUMAN	hypothetical protein LOC54823	64											0						GATGTTCTGTACTATAATATA	0.259													11	43					0	0	1	0	0		G	185137497	G	G	185137497	3	3	151	1	0	0	0	0	1	0	0	0	2038	391	14	3	201	3	C1orf26	1	185137497	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1251774	185137497	64113124	343	77508											
HMCN1	83872	broad.mit.edu	37	chr1	185962440	185962440	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcaaattaaatgtccaTggtgagtcttgaaatgagaa	14	12	10	5	0	2	3	1	3	1	1	3	4	3	3	1	1	0	1	1	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:185962440T>C	uc001grq.1	+	23	3733	c.3504T>C	c.(3502-3504)CAT>CAC	p.H1168H	HMCN1_uc001grr.1_Silent_p.H509H	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1168					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TAAATGTCCATGGTGAGTCTT	0.388													20	84					0	0	1	0	0		C	185962440	C	C	185962440	2	2	151	1	0	0	0	0	0	0	0	1	7236	1478	51	3		3	HMCN1	1	185962440	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	824943	185962440	63288181	344	77509											
PRG4	10216	broad.mit.edu	37	chr1	186281960	186281960	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggacttccaaatgtggttAcctcagctatatcactgccc	10	11	8	12	0	2	0	2	0	0	0	3	2	3	1	3	2	3	2	3	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:186281960A>G	uc001gru.3	+	12	4102	c.4051A>G	c.(4051-4053)ACC>GCC	p.T1351A	PRG4_uc001grt.3_Missense_Mutation_p.T1310A|PRG4_uc009wyl.2_Missense_Mutation_p.T1258A|PRG4_uc009wym.2_Missense_Mutation_p.T1217A|PRG4_uc010poo.1_RNA|TPR_uc001grv.2_3'UTR	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	1351					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						AAATGTGGTTACCTCAGCTAT	0.388													24	119					0	0	1	0	0		G	186281960	G	G	186281960	3	3	151	1	0	0	0	0	1	0	0	0	12503	391	14	3	4093	3	PRG4	1	186281960	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	319520	186281960	62968661	345	77510											
TPR	7175	broad.mit.edu	37	chr1	186313637	186313637	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgctccttcgcagcttgtAgagcttcaacatcagcagca	9	10	8	14	1	2	1	2	0	0	1	4	1	3	1	2	0	6	7	2	0	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:186313637A>G	uc001grv.2	-	25	3584	c.3287T>C	c.(3286-3288)CTA>CCA	p.L1096P		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1096	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		CGCAGCTTGTAGAGCTTCAAC	0.403			T	NTRK1	papillary thyroid								53	242					0	0	1	0	0		G	186313637	G	G	186313637	3	3	151	1	0	0	0	0	1	0	0	0	16442	420	15	3	3912	3	TPR	1	186313637	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	31677	186313637	62936984	346	77511											
FAM5C	339479	broad.mit.edu	37	chr1	190067644	190067644	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataacactgcaggggtaggTccaacttagtccgctcccag	10	9	10	12	1	0	0	0	0	0	0	3	0	3	0	3	3	3	3	3	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:190067644T>C	uc001gse.1	-	8	2037	c.1805A>G	c.(1804-1806)GAC>GGC	p.D602G	FAM5C_uc010pot.1_Missense_Mutation_p.D500G	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	602						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CAGGGGTAGGTCCAACTTAGT	0.468													79	323					0	0	1	0	0		C	190067644	C	C	190067644	3	2	151	1	0	0	0	0	1	0	0	0	5608	1667	58	3	499	3	FAM5C	1	190067644	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3754007	190067644	59182977	347	77512											
RGS1	5996	broad.mit.edu	37	chr1	192547467	192547467	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgatcttttgccctgtaaAgcagaagagatatataaagc	14	12	8	7	0	2	3	0	1	2	2	2	4	2	3	1	0	3	2	1	0	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:192547467A>G	uc001gsi.1	+	4	462	c.396A>G	c.(394-396)AAA>AAG	p.K132K	RGS1_uc010pou.1_Silent_p.K132K	NM_002922	NP_002913	Q08116	RGS1_HUMAN	regulator of G-protein signalling 1	132	RGS.				immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|negative regulation of signal transduction	cytoplasm|plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity				0		Breast(1374;0.188)				TGCCCTGTAAAGCAGAAGAGA	0.368													57	218					0	0	1	0	0		G	192547467	G	G	192547467	2	3	151	1	0	0	0	0	0	0	0	1	13317	69	3	3		3	RGS1	1	192547467	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2479823	192547467	56703154	348	77513											
B3GALT2	8707	broad.mit.edu	37	chr1	193149827	193149827	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttgctatctttgtttcgaTtgggtgcatatcctcgcatt	6	18	8	9	2	1	0	0	0	1	0	4	1	2	0	1	1	2	4	1	1	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:193149827T>C	uc001gtc.3	-	2	1581	c.866A>G	c.(865-867)AAT>AGT	p.N289S	CDC73_uc001gtb.2_Intron	NM_003783	NP_003774	O43825	B3GT2_HUMAN	UDP-Gal:betaGlcNAc beta	289	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1						TTTGTTTCGATTGGGTGCATA	0.413													20	118					0	0	1	0	0		C	193149827	C	C	193149827	3	2	151	1	0	0	0	0	1	0	0	0	1249	1493	52	3	406	3	B3GALT2	1	193149827	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	602360	193149827	56100794	349	77514											
CFHR2	3080	broad.mit.edu	37	chr1	196928105	196928105	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattcaagaacaggtgacatAgttgaatttgtttgtaaatc	14	15	8	4	0	1	3	1	2	0	1	2	3	1	3	0	1	1	3	0	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:196928105A>G	uc001gtq.1	+	5	785	c.708A>G	c.(706-708)ATA>ATG	p.I236M	CFHR2_uc001gtr.1_Missense_Mutation_p.I112M	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	236	Sushi 4.					extracellular region				skin(2)|ovary(1)	3						CAGGTGACATAGTTGAATTTG	0.313													26	91					0	0	1	0	0		G	196928105	G	G	196928105	3	3	151	1	0	0	0	0	1	0	0	0	3288	410	15	3	726	3	CFHR2	1	196928105	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3778278	196928105	52322516	350	77515											
F13B	2165	broad.mit.edu	37	chr1	197026524	197026524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgaactatttctccatgacGataagttgttgaatgtgttt	11	17	8	5	1	1	3	0	3	1	0	2	4	1	3	1	0	1	3	1	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:197026524G>A	uc001gtt.1	-	6	921	c.877C>T	c.(877-879)CGT>TGT	p.R293C		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	293	Sushi 5.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TCTCCATGACGATAAGTTGTT	0.368													35	174					0	0	1	0	0		A	197026524	A	A	197026524	3	1	151	1	0	0	0	0	1	0	0	0	5349	1058	37	1	1136	1	F13B	1	197026524	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	98419	197026524	52224097	351	77516											
ASPM	259266	broad.mit.edu	37	chr1	197091116	197091116	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgagtcgagcagctcttaTttctttacgaagatccaaaa	13	13	7	8	2	2	2	0	1	2	1	4	4	3	2	1	0	3	2	1	0	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:197091116T>C	uc001gtu.2	-	16	4056	c.3799A>G	c.(3799-3801)ATA>GTA	p.I1267V	ASPM_uc001gtv.2_Missense_Mutation_p.I1267V|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1267					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GCAGCTCTTATTTCTTTACGA	0.333													5	137					0	0	1	0	0		C	197091116	C	C	197091116	3	2	151	1	0	0	0	0	1	0	0	0	1057	1493	52	3	6686	3	ASPM	1	197091116	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	64592	197091116	52159505	352	77517											
ASPM	259266	broad.mit.edu	37	chr1	197097731	197097731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccaataagccaaggtgaCgggaaaggtcaccttcacca	14	6	9	12	1	2	1	2	1	0	0	3	2	3	2	4	3	1	0	4	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:197097731C>T	uc001gtu.2	-	10	3082	c.2825G>A	c.(2824-2826)CGT>CAT	p.R942H	ASPM_uc001gtv.2_Missense_Mutation_p.R942H|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	942	CH 1.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GCCAAGGTGACGGGAAAGGTC	0.378													13	70					0	0	1	0	0		T	197097731	T	T	197097731	3	4	151	1	0	0	0	0	1	0	0	0	1057	536	19	1	7684	1	ASPM	1	197097731	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	6615	197097731	52152890	353	77518											
ZBTB41	360023	broad.mit.edu	37	chr1	197157461	197157461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctttaaccgagcaaaccGtgatttaaaatgttcttcac	13	13	6	9	2	2	1	1	1	1	0	2	2	2	1	2	0	4	3	2	0	4	6	rs146939360	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:197157461G>A	uc001gtx.1	-	4	1576	c.1507C>T	c.(1507-1509)CGG>TGG	p.R503W	ZBTB41_uc009wyz.1_RNA	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	503	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						CGAGCAAACCGTGATTTAAAA	0.348													24	105					0	0	1	0	0		A	197157461	A	A	197157461	3	1	151	1	0	0	0	0	1	0	0	0	17568	1144	40	1	1250	1	ZBTB41	1	197157461	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	59730	197157461	52093160	354	77519											
ZBTB41	360023	broad.mit.edu	37	chr1	197168674	197168674	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcatctgacatctcctcCtctagctcatcttcttcagc	7	15	3	16	0	8	1	3	1	5	0	10	1	9	1	2	0	3	1	2	0	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:197168674C>T	uc001gtx.1	-	1	999	c.930G>A	c.(928-930)GAG>GAA	p.E310E	ZBTB41_uc009wyz.1_RNA|CRB1_uc010poz.1_5'Flank	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	310					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						ACATCTCCTCCTCTAGCTCAT	0.378													67	212					0	0	1	0	0		T	197168674	T	T	197168674	2	4	151	1	0	0	0	0	0	0	0	1	17568	680	24	4		4	ZBTB41	1	197168674	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	11213	197168674	52081947	355	77520											
ZBTB41	360023	broad.mit.edu	37	chr1	197169174	197169174	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaaaaaattctgatgtgtAaagaaattcaagcaaatgct	19	10	6	6	0	2	2	1	1	1	1	2	2	2	2	0	0	2	3	0	0	8	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:197169174A>G	uc001gtx.1	-	1	499	c.430T>C	c.(430-432)TAC>CAC	p.Y144H	ZBTB41_uc009wyz.1_RNA|CRB1_uc010poz.1_5'Flank	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	144	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TCTGATGTGTAAAGAAATTCA	0.333													22	91					0	0	1	0	0		G	197169174	G	G	197169174	3	3	151	1	0	0	0	0	1	0	0	0	17568	362	13	3	2339	3	ZBTB41	1	197169174	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	500	197169174	52081447	356	77521											
PTPRC	5788	broad.mit.edu	37	chr1	198668766	198668766	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctctgctggaactgacacGcagacattcagcggctccgc	8	7	10	16	3	2	2	1	1	1	1	3	3	3	3	2	2	3	3	2	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:198668766G>A	uc001gur.1	+	5	546	c.366G>A	c.(364-366)ACG>ACA	p.T122T	PTPRC_uc001gus.1_Silent_p.T122T|PTPRC_uc001gut.1_Intron|PTPRC_uc009wze.1_Silent_p.T58T|PTPRC_uc009wzf.1_Silent_p.T58T|PTPRC_uc010ppg.1_Silent_p.T58T|PTPRC_uc001guu.1_Silent_p.T165T|PTPRC_uc001guv.1_RNA|PTPRC_uc001guw.1_RNA	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	122	Extracellular (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						GAACTGACACGCAGACATTCA	0.527											OREG0014061	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	102					0	0	1	0	0		A	198668766	A	A	198668766	2	1	151	1	0	0	0	0	0	0	0	1	12822	1074	38	1		1	PTPRC	1	198668766	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1499592	198668766	50581855	357	77522											
PTPRC	5788	broad.mit.edu	37	chr1	198668804	198668804	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccgccaatgcaaaactcaAccctaccccaggcagcaatg	13	4	7	17	2	1	0	1	0	0	0	1	0	1	0	5	1	5	3	5	1	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:198668804A>G	uc001gur.1	+	5	584	c.404A>G	c.(403-405)AAC>AGC	p.N135S	PTPRC_uc001gus.1_Missense_Mutation_p.N135S|PTPRC_uc001gut.1_Intron|PTPRC_uc009wze.1_Missense_Mutation_p.N71S|PTPRC_uc009wzf.1_Missense_Mutation_p.N71S|PTPRC_uc010ppg.1_Missense_Mutation_p.N71S|PTPRC_uc001guu.1_Missense_Mutation_p.N178S|PTPRC_uc001guv.1_RNA|PTPRC_uc001guw.1_RNA	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	135	Extracellular (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						GCAAAACTCAACCCTACCCCA	0.527											OREG0014061	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	146					0	0	1	0	0		G	198668804	G	G	198668804	3	3	151	1	0	0	0	0	1	0	0	0	12822	43	2	3	429	3	PTPRC	1	198668804	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	38	198668804	50581817	358	77523											
PTPRC	5788	broad.mit.edu	37	chr1	198687384	198687384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgagtcgcataagaattgcGatttccgtgtaaaagatctt	13	13	9	6	3	1	3	0	1	1	2	3	4	2	3	1	0	1	2	1	0	4	5	rs144856406	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:198687384G>A	uc001gur.1	+	14	1786	c.1606G>A	c.(1606-1608)GAT>AAT	p.D536N	PTPRC_uc001gus.1_Missense_Mutation_p.D488N|PTPRC_uc001gut.1_Missense_Mutation_p.D375N|PTPRC_uc009wzf.1_Missense_Mutation_p.D424N|PTPRC_uc010ppg.1_Missense_Mutation_p.D472N	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	536	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TAAGAATTGCGATTTCCGTGT	0.388													15	61					0	0	1	0	0		A	198687384	A	A	198687384	3	1	151	1	0	0	0	0	1	0	0	0	12822	1058	37	1	1667	1	PTPRC	1	198687384	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	18580	198687384	50563237	359	77524											
KIF14	9928	broad.mit.edu	37	chr1	200562825	200562825	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtgatttccaaaatatgTtttccatttacatatgtctt	11	19	4	7	0	1	1	0	1	1	0	3	1	3	1	2	0	1	1	2	0	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:200562825T>C	uc010ppk.1	-	15	3061	c.2622A>G	c.(2620-2622)AAA>AAG	p.K874K	KIF14_uc010ppj.1_Silent_p.K383K	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	874	FHA.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						CCAAAATATGTTTTCCATTTA	0.264													5	177					0	0	1	0	0		C	200562825	C	C	200562825	2	2	151	1	0	0	0	0	0	0	0	1	8292	1722	60	3		3	KIF14	1	200562825	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1875441	200562825	48687796	360	77525											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200818150	200818150	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgttggcctctgaaatggtGcatcttaggatgaaactaga	11	12	11	7	0	2	3	0	2	2	1	2	4	2	4	1	3	2	2	1	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:200818150G>A	uc001gvl.2	+	12	2556	c.2286G>A	c.(2284-2286)GTG>GTA	p.V762V	CAMSAP1L1_uc001gvk.2_Silent_p.V751V|CAMSAP1L1_uc001gvm.2_Silent_p.V735V	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	762						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						CTGAAATGGTGCATCTTAGGA	0.448													34	113					0	0	1	0	0		A	200818150	A	A	200818150	2	1	151	1	0	0	0	0	0	0	0	1	2615	1306	46	2		2	CAMSAP1L1	1	200818150	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	255325	200818150	48432471	361	77526											
CACNA1S	779	broad.mit.edu	37	chr1	201052326	201052326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagagaggctggttgtggtGctctgaggcgatagacaggg	8	8	18	7	1	1	3	0	1	1	2	1	5	1	3	1	5	1	3	1	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:201052326G>A	uc001gvv.2	-	10	1584	c.1357C>T	c.(1357-1359)CAC>TAC	p.H453Y		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	453	Extracellular (Potential).|II.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TGGTTGTGGTGCTCTGAGGCG	0.547													12	39					0	0	1	0	0		A	201052326	A	A	201052326	3	1	151	1	0	0	0	0	1	0	0	0	2550	1319	46	2	4404	2	CACNA1S	1	201052326	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	234176	201052326	48198295	362	77527											
NAV1	89796	broad.mit.edu	37	chr1	201617978	201617978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcatggccaaggccagcgCggctgagctgaaggtcttca	8	6	15	12	3	2	2	1	2	1	0	2	2	2	2	2	5	2	3	2	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:201617978C>T	uc001gwu.2	+	1	529	c.182C>T	c.(181-183)GCG>GTG	p.A61V		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	61					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						AAGGCCAGCGCGGCTGAGCTG	0.393													4	11					0	0	1	0	0		T	201617978	T	T	201617978	3	4	151	1	0	0	0	0	1	0	0	0	10201	768	27	1	184	1	NAV1	1	201617978	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	565652	201617978	47632643	363	77528											
NAV1	89796	broad.mit.edu	37	chr1	201751603	201751603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttagatgtttccaacagtGcagagccaggattcctggct	9	11	11	10	0	0	2	0	0	0	2	2	3	2	3	3	2	3	4	3	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:201751603G>A	uc001gwu.2	+	6	2310	c.1963G>A	c.(1963-1965)GCA>ACA	p.A655T	NAV1_uc001gwv.1_Missense_Mutation_p.A163T|NAV1_uc001gww.1_Missense_Mutation_p.A264T|NAV1_uc001gwx.2_Missense_Mutation_p.A264T|NAV1_uc001gwy.1_Missense_Mutation_p.A36T	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	655					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						TTCCAACAGTGCAGAGCCAGG	0.572													31	101					0	0	1	0	0		A	201751603	A	A	201751603	3	1	151	1	0	0	0	0	1	0	0	0	10201	1319	46	2	2042	2	NAV1	1	201751603	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	133625	201751603	47499018	364	77529											
ELF3	1999	broad.mit.edu	37	chr1	201983146	201983146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctacgagaagctgagccgggCcatgaggtgagctggcggcc	8	5	17	11	3	0	4	0	3	0	1	0	5	0	4	3	4	4	2	3	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:201983146C>T	uc001gxg.3	+	7	4187	c.995C>T	c.(994-996)GCC>GTC	p.A332V	ELF3_uc001gxi.3_Missense_Mutation_p.A332V|ELF3_uc001gxh.3_Missense_Mutation_p.A332V	NM_004433	NP_004424	P78545	ELF3_HUMAN	E74-like factor 3 (ets domain transcription	332	ETS.				epidermis development|epithelial cell differentiation|inflammatory response|mammary gland involution|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0						CTGAGCCGGGCCATGAGGTGA	0.597													5	17					0	0	1	0	0		T	201983146	T	T	201983146	3	4	151	1	0	0	0	0	1	0	0	0	5063	739	26	2	1021	2	ELF3	1	201983146	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	231543	201983146	47267475	365	77530											
PTPN7	5778	broad.mit.edu	37	chr1	202123315	202123315	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggctctgcctcctaccTccttgccctctcggagctga	3	12	9	17	1	2	1	0	1	2	0	5	2	4	2	5	2	4	2	5	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:202123315T>G	uc001gxm.1	-	6	736	c.605A>C	c.(604-606)GAG>GCG	p.E202A	PTPN7_uc001gxl.1_Missense_Mutation_p.E241A|PTPN7_uc001gxn.1_Missense_Mutation_p.E202A|PTPN7_uc010ppv.1_Missense_Mutation_p.E21A|PTPN7_uc010ppw.1_Missense_Mutation_p.E150A|PTPN7_uc010ppx.1_Missense_Mutation_p.E276A|PTPN7_uc010ppy.1_Intron|PTPN7_uc001gxo.1_Missense_Mutation_p.E154A	NM_002832	NP_002823	P35236	PTN7_HUMAN	protein tyrosine phosphatase, non-receptor type	202	Tyrosine-protein phosphatase.					cytosol|internal side of plasma membrane	protein binding|protein tyrosine phosphatase activity			skin(1)	1						GCCTCCTACCTCCTTGCCCTC	0.587													15	68					0	0	1	0	0		G	202123315	G	G	202123315	3	3	151	1	0	0	0	0	1	0	0	0	12818	1565	54	5	497	5	PTPN7	1	202123315	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	140169	202123315	47127306	366	77531											
KDM5B	10765	broad.mit.edu	37	chr1	202700079	202700079	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgagcttcggtcagtctgCtgagcagggcttggctttgc	4	12	16	9	1	2	2	1	2	1	0	3	2	2	2	0	4	4	5	0	4	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:202700079C>T	uc001gyf.2	-	25	4250	c.4134G>A	c.(4132-4134)CAG>CAA	p.Q1378Q	KDM5B_uc009xag.2_Silent_p.Q1414Q|KDM5B_uc001gyg.1_Silent_p.Q1220Q	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1378					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						GGTCAGTCTGCTGAGCAGGGC	0.517													20	74					0	0	1	0	0		T	202700079	T	T	202700079	2	4	151	1	0	0	0	0	0	0	0	1	8150	796	28	2		2	KDM5B	1	202700079	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	576764	202700079	46550542	367	77532											
KDM5B	10765	broad.mit.edu	37	chr1	202702811	202702811	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagattcgcaggccctgtgaAatactgggtaccgccacaca	11	7	10	13	2	0	2	0	1	0	1	1	2	0	2	3	2	2	2	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:202702811A>G	uc001gyf.2	-	23	3743	c.3627T>C	c.(3625-3627)ATT>ATC	p.I1209I	KDM5B_uc009xag.2_Silent_p.I1245I|KDM5B_uc001gyg.1_Silent_p.I1051I	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1209	PHD-type 2.				negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						GGCCCTGTGAAATACTGGGTA	0.522													20	64					0	0	1	0	0		G	202702811	G	G	202702811	2	3	151	1	0	0	0	0	0	0	0	1	8150	10	1	3		3	KDM5B	1	202702811	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2732	202702811	46547810	368	77533											
PPFIA4	8497	broad.mit.edu	37	chr1	203012612	203012612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcagaactgaaagcagaaCggaataacacacgggtaagt	18	6	10	7	2	1	3	1	1	0	2	1	4	1	4	0	2	4	2	0	2	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:203012612C>T	uc009xaj.2	+	7	763	c.763C>T	c.(763-765)CGG>TGG	p.R255W	PPFIA4_uc010pqf.1_5'Flank			O75335	LIPA4_HUMAN	SubName: Full=Liprin alpha4;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						GAAAGCAGAACGGAATAACAC	0.542													3	14					0	0	1	0	0		T	203012612	T	T	203012612	3	4	151	1	0	0	0	0	1	0	0	0	12331	551	19	1		1	PPFIA4	1	203012612	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	309801	203012612	46238009	369	77534											
PPFIA4	8497	broad.mit.edu	37	chr1	203024745	203024745	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcggccgctccacacctaAgctcacctcccgcagtgctg	7	6	9	19	3	1	0	1	0	0	0	3	0	3	0	5	1	3	4	5	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:203024745A>G	uc001gyz.2	+	3	1090	c.497A>G	c.(496-498)AAG>AGG	p.K166R	PPFIA4_uc009xaj.2_Missense_Mutation_p.K797R|PPFIA4_uc010pqf.1_Missense_Mutation_p.K379R|PPFIA4_uc001gza.2_Missense_Mutation_p.K166R|PPFIA4_uc001gzb.1_5'Flank	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	166					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						TCCACACCTAAGCTCACCTCC	0.662													8	40					0	0	1	0	0		G	203024745	G	G	203024745	3	3	151	1	0	0	0	0	1	0	0	0	12331	72	3	3	507	3	PPFIA4	1	203024745	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	12133	203024745	46225876	370	77535											
FMOD	2331	broad.mit.edu	37	chr1	203317279	203317279	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgggtaagggtcatagggAtcgtagtaggtggactgctg	9	10	17	5	2	1	0	1	0	0	0	2	2	1	2	0	5	2	4	0	5	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:203317279A>G	uc001gzr.2	-	2	256	c.120T>C	c.(118-120)GAT>GAC	p.D40D	FMOD_uc010pqi.1_RNA	NM_002023	NP_002014	Q06828	FMOD_HUMAN	fibromodulin precursor	40					transforming growth factor beta receptor complex assembly	extracellular space|proteinaceous extracellular matrix				ovary(2)|breast(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.171)			GGTCATAGGGATCGTAGTAGG	0.592													10	57					0	0	1	0	0		G	203317279	G	G	203317279	2	3	151	1	0	0	0	0	0	0	0	1	5973	330	12	3		3	FMOD	1	203317279	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	292534	203317279	45933342	371	77536											
PLEKHA6	22874	broad.mit.edu	37	chr1	204236645	204236645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccaccaggacgaaccagcGcttgttccactgcttaaccc	10	8	7	16	2	0	0	0	0	0	0	2	2	2	1	5	1	4	3	5	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:204236645G>A	uc001hau.2	-	5	555	c.238C>T	c.(238-240)CGC>TGC	p.R80C		NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	80	PH.									ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			ACGAACCAGCGCTTGTTCCAC	0.597													13	70					0	0	1	0	0		A	204236645	A	A	204236645	3	1	151	1	0	0	0	0	1	0	0	0	12079	1087	38	1	2980	1	PLEKHA6	1	204236645	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	919366	204236645	45013976	372	77537											
PIK3C2B	5287	broad.mit.edu	37	chr1	204418333	204418333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgcaggatgacactgtctgGctggtggaaattaggtgcac	9	10	14	8	0	1	1	0	1	1	0	1	3	1	3	0	5	2	3	0	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:204418333G>A	uc001haw.2	-	15	2805	c.2326C>T	c.(2326-2328)CCA>TCA	p.P776S	PIK3C2B_uc010pqv.1_Missense_Mutation_p.P776S	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	776					cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			ACACTGTCTGGCTGGTGGAAA	0.547													5	20					0	0	1	0	0		A	204418333	A	A	204418333	3	1	151	1	0	0	0	0	1	0	0	0	11929	1203	42	2	2658	2	PIK3C2B	1	204418333	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	181688	204418333	44832288	373	77538											
NFASC	23114	broad.mit.edu	37	chr1	204937448	204937448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgagcagccagatggtgcttCgtggcatggacctcctgctg	6	9	14	12	2	0	1	0	0	0	1	2	3	1	2	3	3	4	4	3	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:204937448C>T	uc001hbj.2	+	9	1106	c.778C>T	c.(778-780)CGT>TGT	p.R260C	NFASC_uc001hbh.2_Missense_Mutation_p.R260C|NFASC_uc010pqz.1_Missense_Mutation_p.R254C|NFASC_uc010pra.1_Missense_Mutation_p.R271C|NFASC_uc001hbi.2_Missense_Mutation_p.R271C|NFASC_uc009xbg.1_Missense_Mutation_p.R344C|NFASC_uc010prb.1_Missense_Mutation_p.R271C|NFASC_uc010prc.1_5'UTR|NFASC_uc001hbk.1_Missense_Mutation_p.R81C	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	260	Extracellular (Potential).|Ig-like C2-type 3.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			GATGGTGCTTCGTGGCATGGA	0.582													19	83					0	0	1	0	0		T	204937448	T	T	204937448	3	4	151	1	0	0	0	0	1	0	0	0	10378	884	31	1	859	1	NFASC	1	204937448	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	519115	204937448	44313173	374	77539											
NFASC	23114	broad.mit.edu	37	chr1	204945914	204945914	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggccaaggcctacctcAccgtgctaggtaactgccca	9	7	9	16	1	1	0	1	0	0	0	1	0	1	0	6	3	4	2	6	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:204945914A>G	uc001hbj.2	+	16	2150	c.1822A>G	c.(1822-1824)ACC>GCC	p.T608A	NFASC_uc001hbh.2_Missense_Mutation_p.T608A|NFASC_uc010pqz.1_Missense_Mutation_p.T602A|NFASC_uc010pra.1_Missense_Mutation_p.T619A|NFASC_uc001hbi.2_Missense_Mutation_p.T619A|NFASC_uc010prb.1_Missense_Mutation_p.T619A|NFASC_uc010prc.1_Missense_Mutation_p.T175A|NFASC_uc001hbk.1_Missense_Mutation_p.T429A	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	608	Extracellular (Potential).				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			GGCCTACCTCACCGTGCTAGG	0.652													14	78					0	0	1	0	0		G	204945914	G	G	204945914	3	3	151	1	0	0	0	0	1	0	0	0	10378	159	6	3	1931	3	NFASC	1	204945914	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	8466	204945914	44304707	375	77540											
TMEM81	388730	broad.mit.edu	37	chr1	205052683	205052683	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaagttcttgaagctgtcActgctgcaggccccccctta	7	12	9	13	0	2	1	1	1	1	0	2	1	2	1	3	1	3	5	3	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:205052683A>G	uc001hbt.2	-	1	906	c.766T>C	c.(766-768)TGA>CGA	p.*256R		NM_203376	NP_976310	Q6P7N7	TMM81_HUMAN	transmembrane protein 81 precursor	256						integral to membrane					0	all_cancers(21;0.144)|Breast(84;0.0437)		BRCA - Breast invasive adenocarcinoma(75;0.0923)			TGAAGCTGTCACTGCTGCAGG	0.552													21	75					0	0	1	0	0		G	205052683	G	G	205052683	4	3	151	1	0	0	0	0	0	0	0	0	16230	172	6	3	5	3	TMEM81	1	205052683	Nonstop_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	106769	205052683	44197938	376	77541											
RBBP5	5929	broad.mit.edu	37	chr1	205074295	205074295	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatgaccatctcggctccAgctgaggaaaaaaaaggggt	13	9	11	8	1	1	2	0	2	1	0	3	3	2	3	2	4	1	2	2	4	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:205074295A>G	uc001hbu.1	-	4	350	c.220T>C	c.(220-222)TGG>CGG	p.W74R	RBBP5_uc010prd.1_Missense_Mutation_p.W109R|RBBP5_uc001hbv.1_Missense_Mutation_p.W74R|RBBP5_uc010pre.1_5'UTR	NM_005057	NP_005048	Q15291	RBBP5_HUMAN	retinoblastoma binding protein 5	74	WD 2.				histone H3-K4 methylation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription, DNA-dependent	MLL1 complex|Set1C/COMPASS complex	methylated histone residue binding|transcription regulatory region DNA binding			lung(1)	1	Breast(84;0.0505)		BRCA - Breast invasive adenocarcinoma(75;0.0923)			TCTCGGCTCCAGCTGAGGAAA	0.433													26	97					0	0	1	0	0		G	205074295	G	G	205074295	3	3	151	1	0	0	0	0	1	0	0	0	13127	202	7	3	1440	3	RBBP5	1	205074295	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	21612	205074295	44176326	377	77542											
KLHDC8A	55220	broad.mit.edu	37	chr1	205312636	205312636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acatcccccgatggcatagaCctggcccccggtctccagca	8	6	9	18	2	1	1	0	0	1	1	3	2	2	1	6	3	1	2	6	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:205312636C>T	uc001hcf.1	-	2	665	c.97G>A	c.(97-99)GTC>ATC	p.V33I	KLHDC8A_uc010prg.1_Intron|KLHDC8A_uc001hcg.1_Missense_Mutation_p.V33I	NM_018203	NP_060673	Q8IYD2	KLD8A_HUMAN	kelch domain containing 8A	33	Kelch 2.									ovary(1)	1	Breast(84;0.23)		BRCA - Breast invasive adenocarcinoma(75;0.117)			ATGGCATAGACCTGGCCCCCG	0.677													7	33					0	0	1	0	0		T	205312636	T	T	205312636	3	4	151	1	0	0	0	0	1	0	0	0	8378	507	18	4	975	4	KLHDC8A	1	205312636	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	238341	205312636	43937985	378	77543											
RAB7L1	8934	broad.mit.edu	37	chr1	205739514	205739514	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggtttgtagattgatgtAgtccccttgggtggacaaag	8	14	13	6	0	0	2	0	1	0	1	1	3	1	3	2	3	0	3	2	3	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:205739514A>G	uc001hdf.3	-	6	908	c.568T>C	c.(568-570)TAC>CAC	p.Y190H	RAB7L1_uc009xbp.2_Missense_Mutation_p.Y118H|RAB7L1_uc001hde.3_Missense_Mutation_p.Y190H|RAB7L1_uc010prr.1_Missense_Mutation_p.Y166H|RAB7L1_uc009xbq.2_RNA	NM_003929	NP_003920	O14966	RAB7L_HUMAN	RAB7, member RAS oncogene family-like 1 isoform	190					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding			ovary(1)	1	Breast(84;0.0799)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			AGATTGATGTAGTCCCCTTGG	0.418													20	71					0	0	1	0	0		G	205739514	G	G	205739514	3	3	151	1	0	0	0	0	1	0	0	0	12980	420	15	3	47	3	RAB7L1	1	205739514	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	426878	205739514	43511107	379	77544											
SRGAP2	23380	broad.mit.edu	37	chr1	206566999	206566999	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgcatctgtcttcaagtActacatccatgacctatctg	11	13	5	12	0	4	1	1	1	3	0	5	1	5	1	2	0	3	2	2	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:206566999A>G	uc001hdy.2	+	4	872	c.539A>G	c.(538-540)TAC>TGC	p.Y180C	SRGAP2_uc009xbt.2_Missense_Mutation_p.Y104C|SRGAP2_uc010prt.1_Missense_Mutation_p.Y104C|SRGAP2_uc001hdx.2_Missense_Mutation_p.Y180C|SRGAP2_uc010pru.1_Missense_Mutation_p.Y104C|SRGAP2_uc010prv.1_Missense_Mutation_p.Y104C	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	267					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					GTCTTCAAGTACTACATCCAT	0.478													8	104					0	0	1	0	0		G	206566999	G	G	206566999	3	3	151	1	0	0	0	0	1	0	0	0	15171	391	14	3	554	3	SRGAP2	1	206566999	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	827485	206566999	42683622	380	77545											
CR2	1380	broad.mit.edu	37	chr1	207639972	207639972	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaggtacagttgttcaggtAccttccgcctcattggagaa	10	12	10	9	1	2	1	2	0	0	1	3	2	3	1	3	3	2	4	3	3	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:207639972A>G	uc001hfw.2	+	2	254	c.160A>G	c.(160-162)ACC>GCC	p.T54A	CR2_uc001hfv.2_Missense_Mutation_p.T54A|CR2_uc009xch.2_Missense_Mutation_p.T54A	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	54	Sushi 1.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TTGTTCAGGTACCTTCCGCCT	0.413													46	221					0	0	1	0	0		G	207639972	G	G	207639972	3	3	151	1	0	0	0	0	1	0	0	0	3845	391	14	3	166	3	CR2	1	207639972	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1072973	207639972	41610649	381	77546											
CR1	1378	broad.mit.edu	37	chr1	207679344	207679344	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacatatctgaactatgaaTgccgccctggttattccgga	10	11	10	10	2	1	2	0	2	1	0	2	4	2	4	3	3	2	1	3	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:207679344T>C	uc001hfy.2	+	2	357	c.217T>C	c.(217-219)TGC>CGC	p.C73R	CR1_uc009xcl.1_Missense_Mutation_p.C73R|CR1_uc001hfx.2_Missense_Mutation_p.C73R|CR1_uc010psg.1_Missense_Mutation_p.C73R|CR1_uc009xcj.1_Missense_Mutation_p.C73R|CR1_uc009xck.1_Missense_Mutation_p.C73R	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	73	Sushi 1.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						GAACTATGAATGCCGCCCTGG	0.473													38	183					0	0	1	0	0		C	207679344	C	C	207679344	3	2	151	1	0	0	0	0	1	0	0	0	3843	1464	51	3	223	3	CR1	1	207679344	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	39372	207679344	41571277	382	77547											
CR1L	1379	broad.mit.edu	37	chr1	207867785	207867785	+	Missense_Mutation	SNP	C	T	T																															tcactatggatcagtggtgaCctaccactgcaatcttggaa																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:207867785C>T	uc001hga.3	+	5	672	c.551C>T	c.(550-552)ACC>ATC	p.T184I	CR1L_uc001hfz.2_RNA|CR1L_uc001hgb.1_RNA	NM_175710	NP_783641	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	184	Sushi 3.					cytoplasm|extracellular region|membrane					0						TCAGTGGTGACCTACCACTGC	0.488													50	158					0	0	1	0	0		T	207867785	T	T	207867785	3	4	151	1	0	0	0	0	1	0	0	0	3844	507	18	4	569	4	CR1L	1	207867785	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	188441	207867785	41382836	383	77548	144	2									
CR1L	1379	broad.mit.edu	37	chr1	207867788	207867788	+	Missense_Mutation	SNP	A	G	G																															ctatggatcagtggtgacctAccactgcaatcttggaagca																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:207867788A>G	uc001hga.3	+	5	675	c.554A>G	c.(553-555)TAC>TGC	p.Y185C	CR1L_uc001hfz.2_RNA|CR1L_uc001hgb.1_RNA	NM_175710	NP_783641	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	185	Sushi 3.					cytoplasm|extracellular region|membrane					0						GTGGTGACCTACCACTGCAAT	0.488													9	206					0	0	1	0	0		G	207867788	G	G	207867788	3	3	151	1	0	0	0	0	1	0	0	0	3844	391	14	3	572	3	CR1L	1	207867788	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3	207867788	41382833	384	77549	144	2									
CD46	4179	broad.mit.edu	37	chr1	207940424	207940424	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggatttggaaaaaaattttActacaaagcaacagttatgt	18	12	7	4	0	0	0	0	0	0	0	0	2	0	2	0	2	4	2	0	2	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:207940424A>G	uc001hgc.2	+	6	896	c.740A>G	c.(739-741)TAC>TGC	p.Y247C	CD46_uc001hgd.2_Missense_Mutation_p.Y247C|CD46_uc001hge.2_Missense_Mutation_p.Y247C|CD46_uc001hgf.2_Missense_Mutation_p.Y247C|CD46_uc001hgg.2_Missense_Mutation_p.Y247C|CD46_uc001hgh.2_Missense_Mutation_p.Y247C|CD46_uc001hgi.2_Missense_Mutation_p.Y247C|CD46_uc001hgj.2_Missense_Mutation_p.Y247C|CD46_uc001hgk.2_Missense_Mutation_p.Y247C|CD46_uc001hgl.2_Missense_Mutation_p.Y247C|CD46_uc001hgm.2_Missense_Mutation_p.Y247C|CD46_uc001hgn.2_Missense_Mutation_p.Y247C|CD46_uc001hgo.2_Missense_Mutation_p.Y247C|CD46_uc001hgp.2_Missense_Mutation_p.Y247C	NM_002389	NP_002380	P15529	MCP_HUMAN	CD46 antigen, complement regulatory protein	247	Extracellular (Potential).|Sushi 4.				complement activation, classical pathway|innate immune response|interspecies interaction between organisms|single fertilization	inner acrosomal membrane|integral to plasma membrane	protein binding|receptor activity			large_intestine(2)|lung(1)|central_nervous_system(1)	4						AAAAAATTTTACTACAAAGCA	0.378													27	105					0	0	1	0	0		G	207940424	G	G	207940424	3	3	151	1	0	0	0	0	1	0	0	0	3021	391	14	3	762	3	CD46	1	207940424	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	72636	207940424	41310197	385	77550											
PLXNA2	5362	broad.mit.edu	37	chr1	208206749	208206749	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggtcaccgtggtcatggTtcttcaccagatgccacacc	7	11	9	14	1	5	1	3	0	2	1	5	1	5	1	4	3	1	1	4	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:208206749T>C	uc001hgz.2	-	28	5728	c.4970A>G	c.(4969-4971)AAC>AGC	p.N1657S		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1657	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GTGGTCATGGTTCTTCACCAG	0.622													12	74					0	0	1	0	0		C	208206749	C	C	208206749	3	2	151	1	0	0	0	0	1	0	0	0	12139	1725	60	3	734	3	PLXNA2	1	208206749	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	266325	208206749	41043872	386	77551											
LAMB3	3914	broad.mit.edu	37	chr1	209803132	209803132	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgccggttccggaaatagTgcagctgacaccgctcacag	9	6	13	13	4	1	1	1	1	0	0	2	2	2	2	3	3	2	4	3	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:209803132T>A	uc001hhg.2	-	9	1472	c.1082A>T	c.(1081-1083)CAC>CTC	p.H361L	LAMB3_uc009xco.2_Missense_Mutation_p.H361L|LAMB3_uc001hhh.2_Missense_Mutation_p.H361L|LAMB3_uc010psl.1_RNA	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	361	Laminin EGF-like 2.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		CCGGAAATAGTGCAGCTGACA	0.592													17	55					0	0	1	0	0		A	209803132	A	A	209803132	3	1	151	1	0	0	0	0	1	0	0	0	8628	1696	59	5	2492	5	LAMB3	1	209803132	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1596383	209803132	39447489	387	77552											
IRF6	3664	broad.mit.edu	37	chr1	209964008	209964008	+	Missense_Mutation	SNP	T	C	C																															caggatcagtcctctgtccaTgacgtccagcagcttgctag																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:209964008T>C	uc001hhq.1	-	7	1155	c.892A>G	c.(892-894)ATG>GTG	p.M298V	IRF6_uc010psm.1_Missense_Mutation_p.M203V|IRF6_uc009xct.1_Missense_Mutation_p.M298V	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	298					cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		CCTCTGTCCATGACGTCCAGC	0.547										HNSCC(57;0.16)			24	106					0	0	1	0	0		C	209964008	C	C	209964008	3	2	151	1	0	0	0	0	1	0	0	0	7850	1464	51	3	523	3	IRF6	1	209964008	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	160876	209964008	39286613	388	77553	145	3									
IRF6	3664	broad.mit.edu	37	chr1	209964012	209964012	+	Silent	SNP	G	A	A																															atcagtcctctgtccatgacGtccagcagcttgctagtgaa																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:209964012G>A	uc001hhq.1	-	7	1151	c.888C>T	c.(886-888)GAC>GAT	p.D296D	IRF6_uc010psm.1_Silent_p.D201D|IRF6_uc009xct.1_Silent_p.D296D	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	296			FTSKLLD -> L (in VWS).		cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		TGTCCATGACGTCCAGCAGCT	0.547										HNSCC(57;0.16)			25	104					0	0	1	0	0		A	209964012	A	A	209964012	2	1	151	1	0	0	0	0	0	0	0	1	7850	1136	40	1		1	IRF6	1	209964012	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4	209964012	39286609	389	77554	145	3									
IRF6	3664	broad.mit.edu	37	chr1	209964020	209964020	+	Silent	SNP	G	A	A																															tctgtccatgacgtccagcaGcttgctagtgaacagcttct																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:209964020G>A	uc001hhq.1	-	7	1143	c.880C>T	c.(880-882)CTG>TTG	p.L294L	IRF6_uc010psm.1_Silent_p.L199L|IRF6_uc009xct.1_Silent_p.L294L	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	294			FTSKLLD -> L (in VWS).|L -> P (in VWS).		cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		ACGTCCAGCAGCTTGCTAGTG	0.547										HNSCC(57;0.16)			27	114					0	0	1	0	0		A	209964020	A	A	209964020	2	1	151	1	0	0	0	0	0	0	0	1	7850	962	34	2		2	IRF6	1	209964020	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	8	209964020	39286601	390	77555	145	3									
INTS7	25896	broad.mit.edu	37	chr1	212142038	212142038	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcttaaaggattcagtggTgtactagctgcctgggaaaa	13	10	12	6	0	1	0	1	0	0	0	1	2	1	2	1	3	4	3	1	3	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:212142038T>C	uc001hiw.1	-	14	1932	c.1827A>G	c.(1825-1827)ACA>ACG	p.T609T	INTS7_uc009xdb.1_Silent_p.T609T|INTS7_uc001hix.1_Silent_p.T485T|INTS7_uc001hiy.1_Silent_p.T609T|INTS7_uc010pta.1_Silent_p.T560T	NM_015434	NP_056249	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	609					snRNA processing	integrator complex	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		GATTCAGTGGTGTACTAGCTG	0.363													21	77					0	0	1	0	0		C	212142038	C	C	212142038	2	2	151	1	0	0	0	0	0	0	0	1	7799	1683	59	3		3	INTS7	1	212142038	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2178018	212142038	37108583	391	77556											
INTS7	25896	broad.mit.edu	37	chr1	212161324	212161324	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taagctgtcataaggagtctGgagggcacactcacaaagtg	13	8	12	8	0	3	0	2	0	1	0	3	2	3	2	0	3	1	2	0	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:212161324G>A	uc001hiw.1	-	8	1006	c.901C>T	c.(901-903)CAG>TAG	p.Q301*	INTS7_uc009xdb.1_Nonsense_Mutation_p.Q301*|INTS7_uc001hix.1_Nonsense_Mutation_p.Q177*|INTS7_uc001hiy.1_Nonsense_Mutation_p.Q301*|INTS7_uc010pta.1_Nonsense_Mutation_p.Q252*	NM_015434	NP_056249	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	301					snRNA processing	integrator complex	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		TAAGGAGTCTGGAGGGCACAC	0.388													10	61					0	0	1	0	0		A	212161324	A	A	212161324	4	1	151	1	0	0	0	0	0	1	0	0	7799	1357	47	4	2039	4	INTS7	1	212161324	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	19286	212161324	37089297	392	77557											
KCNK2	3776	broad.mit.edu	37	chr1	215345490	215345490	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttattttgtggttatcActctaacaactattggattt	10	19	5	7	0	2	0	1	0	1	0	2	1	2	1	1	2	2	1	1	2	5	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:215345490A>G	uc001hkq.2	+	5	956	c.787A>G	c.(787-789)ACT>GCT	p.T263A	KCNK2_uc001hko.2_Missense_Mutation_p.T259A|KCNK2_uc009xdm.2_Intron|KCNK2_uc001hkp.2_RNA|KCNK2_uc010pua.1_RNA|KCNK2_uc001hkr.3_Missense_Mutation_p.T248A	NM_001017425	NP_001017425	O95069	KCNK2_HUMAN	potassium channel, subfamily K, member 2 isoform	263							outward rectifier potassium channel activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.0399)|all cancers(67;0.0556)|GBM - Glioblastoma multiforme(131;0.068)	Dofetilide(DB00204)	TGTGGTTATCACTCTAACAAC	0.408													42	194					0	0	1	0	0		G	215345490	G	G	215345490	3	3	151	1	0	0	0	0	1	0	0	0	8082	159	6	3	848	3	KCNK2	1	215345490	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3184166	215345490	33905131	393	77558											
USH2A	7399	broad.mit.edu	37	chr1	215802205	215802205	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacagtgagttgtccatcAagactttcttgtcttgaatg	9	14	8	10	0	3	3	1	2	2	1	4	3	4	3	2	0	0	1	2	0	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:215802205A>G	uc001hku.1	-	71	15857	c.15470T>C	c.(15469-15471)TTG>TCG	p.L5157S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	5157	Cytoplasmic (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GTTGTCCATCAAGACTTTCTT	0.498										HNSCC(13;0.011)			34	115					0	0	1	0	0		G	215802205	G	G	215802205	3	3	151	1	0	0	0	0	1	0	0	0	17062	131	5	3	146	3	USH2A	1	215802205	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	456715	215802205	33448416	394	77559											
USH2A	7399	broad.mit.edu	37	chr1	215953368	215953368	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctctccggaactccttgggTagtagctgcaactacctgaa	9	10	10	12	1	1	1	0	1	1	0	3	2	2	2	3	2	5	5	3	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:215953368T>C	uc001hku.1	-	55	11143	c.10756A>G	c.(10756-10758)ACC>GCC	p.T3586A		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3586	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACTCCTTGGGTAGTAGCTGCA	0.458										HNSCC(13;0.011)			15	72					0	0	1	0	0		C	215953368	C	C	215953368	3	2	151	1	0	0	0	0	1	0	0	0	17062	1638	57	3	4924	3	USH2A	1	215953368	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	151163	215953368	33297253	395	77560											
USH2A	7399	broad.mit.edu	37	chr1	216405425	216405425	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgattaactgcaccagttgTatggcatgagcatggcaggc	10	10	13	8	0	0	2	0	2	0	0	0	2	0	2	1	3	3	6	1	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:216405425T>C	uc001hku.1	-	14	3250	c.2863A>G	c.(2863-2865)ACA>GCA	p.T955A	USH2A_uc001hkv.2_Missense_Mutation_p.T955A	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	955	Extracellular (Potential).|Laminin EGF-like 9.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GCACCAGTTGTATGGCATGAG	0.408										HNSCC(13;0.011)			27	132					0	0	1	0	0		C	216405425	C	C	216405425	3	2	151	1	0	0	0	0	1	0	0	0	17062	1638	57	3	12995	3	USH2A	1	216405425	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	452057	216405425	32845196	396	77561											
USH2A	7399	broad.mit.edu	37	chr1	216497021	216497021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctaaatgtgacattgccacGggaatatggagtaaaactgt	14	10	11	6	1	0	1	0	1	0	0	0	3	0	3	1	2	2	2	1	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:216497021G>A	uc001hku.1	-	8	1732	c.1345C>T	c.(1345-1347)CGT>TGT	p.R449C	USH2A_uc001hkv.2_Missense_Mutation_p.R449C	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	449	Laminin N-terminal.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACATTGCCACGGGAATATGGA	0.348										HNSCC(13;0.011)			39	141					0	0	1	0	0		A	216497021	A	A	216497021	3	1	151	1	0	0	0	0	1	0	0	0	17062	1116	39	1	14537	1	USH2A	1	216497021	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	91596	216497021	32753600	397	77562											
ESRRG	2104	broad.mit.edu	37	chr1	216850574	216850574	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatcttcaacaatggtgcTggagcagtcatcatacagtt	11	11	11	8	0	4	0	3	0	1	0	4	2	4	2	0	3	4	3	0	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:216850574T>C	uc001hkw.1	-	2	482	c.316A>G	c.(316-318)AGC>GGC	p.S106G	ESRRG_uc001hky.1_Missense_Mutation_p.S83G|ESRRG_uc009xdp.1_Missense_Mutation_p.S83G|ESRRG_uc001hkz.1_Missense_Mutation_p.S83G|ESRRG_uc010puc.1_Missense_Mutation_p.S83G|ESRRG_uc001hla.1_Missense_Mutation_p.S83G|ESRRG_uc001hlb.1_Missense_Mutation_p.S83G|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Missense_Mutation_p.S83G|ESRRG_uc001hld.1_Missense_Mutation_p.S83G|ESRRG_uc001hkx.1_Missense_Mutation_p.S111G|ESRRG_uc009xdo.1_Missense_Mutation_p.S83G|ESRRG_uc001hle.1_Missense_Mutation_p.S83G	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	106					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	ACAATGGTGCTGGAGCAGTCA	0.517													62	204					0	0	1	0	0		C	216850574	C	C	216850574	3	2	151	1	0	0	0	0	1	0	0	0	5270	1580	55	3	1084	3	ESRRG	1	216850574	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	353553	216850574	32400047	398	77563											
GPATCH2	55105	broad.mit.edu	37	chr1	217783709	217783709	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaatattctttgaagacAttccatgaaggcgactgagt	12	15	8	6	1	1	4	0	3	1	1	2	5	2	4	1	1	0	0	1	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:217783709A>G	uc001hlf.1	-	5	1148	c.1052T>C	c.(1051-1053)ATG>ACG	p.M351T	GPATCH2_uc001hlg.3_Missense_Mutation_p.M351T	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	351						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		CTTTGAAGACATTCCATGAAG	0.348													19	193					0	0	1	0	0		G	217783709	G	G	217783709	3	3	151	1	0	0	0	0	1	0	0	0	6606	217	8	3	558	3	GPATCH2	1	217783709	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	933135	217783709	31466912	399	77564											
TGFB2	7042	broad.mit.edu	37	chr1	218614599	218614599	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatctgcttctccttgctgCgtgtcccaagatttagaacc	7	13	8	13	1	2	2	0	0	2	2	4	2	3	2	3	0	4	3	3	0	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:218614599C>T	uc001hlm.2	+	7	1793	c.1140C>T	c.(1138-1140)TGC>TGT	p.C380C	TGFB2_uc001hln.2_Silent_p.C408C|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	380					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		CTCCTTGCTGCGTGTCCCAAG	0.408													48	168					0	0	1	0	0		T	218614599	T	T	218614599	2	4	151	1	0	0	0	0	0	0	0	1	15843	776	27	1		1	TGFB2	1	218614599	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	830890	218614599	30636022	400	77565											
EPRS	2058	broad.mit.edu	37	chr1	220170682	220170682	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttccttaaaaggagcagaGgtctaccaagagagaaaacc	16	7	9	9	0	1	3	0	0	1	3	2	5	2	4	3	2	3	1	3	2	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:220170682G>T	uc001hly.1	-	18	2454	c.2184C>A	c.(2182-2184)ACC>ACA	p.T728T	EPRS_uc010puf.1_Silent_p.T479T|EPRS_uc001hlz.1_Silent_p.T735T	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	728	Glutamyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	AAGGAGCAGAGGTCTACCAAG	0.318													26	86					4.72057e-08	4.83085e-08	1	1	0		T	220170682	T	T	220170682	2	4	151	1	0	0	0	0	0	0	0	1	5199	987	35	5		5	EPRS	1	220170682	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1556083	220170682	29079939	401	77566											
MARK1	4139	broad.mit.edu	37	chr1	220826557	220826557	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaagcactttccatggtgaAcagctccgggagcgacgcag	10	6	13	12	4	0	1	0	1	0	0	2	4	2	2	2	2	4	3	2	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:220826557A>G	uc001hmn.3	+	16	2448	c.1851A>G	c.(1849-1851)GAA>GAG	p.E617E	MARK1_uc009xdw.2_Silent_p.E618E|MARK1_uc010pun.1_Silent_p.E617E|MARK1_uc001hmm.3_Silent_p.E595E	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1	617					intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		TCCATGGTGAACAGCTCCGGG	0.567													31	113					0	0	1	0	0		G	220826557	G	G	220826557	2	3	151	1	0	0	0	0	0	0	0	1	9330	40	2	3		3	MARK1	1	220826557	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	655875	220826557	28424064	402	77567											
TLR5	7100	broad.mit.edu	37	chr1	223285544	223285544	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaatgtgttctggtcaGgatctttgatgttatggaag	10	14	12	5	0	3	1	1	1	2	0	3	3	3	3	0	3	1	3	0	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:223285544G>T	uc001hnv.1	-	4	1276	c.830C>A	c.(829-831)CCT>CAT	p.P277H	TLR5_uc001hnw.1_Missense_Mutation_p.P277H	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	277	Extracellular (Potential).				cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		GTTCTGGTCAGGATCTTTGAT	0.488													27	110					9.39395e-14	9.75491e-14	1	1	0		T	223285544	T	T	223285544	3	4	151	1	0	0	0	0	1	0	0	0	15979	1000	35	5	1750	5	TLR5	1	223285544	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2458987	223285544	25965077	403	77568											
C1orf65	164127	broad.mit.edu	37	chr1	223567614	223567614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggccctggtgctgacccGtctcaagaaggcccagagga	8	7	14	12	1	1	3	1	1	1	2	2	4	1	4	3	4	1	1	3	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:223567614G>A	uc001hoa.2	+	1	900	c.797G>A	c.(796-798)CGT>CAT	p.R266H		NM_152610	NP_689823	Q8N715	CA065_HUMAN	hypothetical protein LOC164127	266	Potential.									central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0704)		GTGCTGACCCGTCTCAAGAAG	0.622													6	29					0	0	1	0	0		A	223567614	A	A	223567614	3	1	151	1	0	0	0	0	1	0	0	0	2058	1145	40	1	799	1	C1orf65	1	223567614	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	282070	223567614	25683007	404	77569											
CNIH3	149111	broad.mit.edu	37	chr1	224804920	224804920	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctacatgctgtctctggTgctgtgcgctgcgctcatct	3	14	11	13	2	3	0	1	0	2	0	4	0	3	0	0	1	6	5	0	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:224804920T>C	uc001hos.1	+	1	742	c.44T>C	c.(43-45)GTG>GCG	p.V15A		NM_152495	NP_689708	Q8TBE1	CNIH3_HUMAN	cornichon homolog 3	15	Helical; (Potential).				intracellular signal transduction|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic shaft|postsynaptic membrane					0	Breast(184;0.218)			GBM - Glioblastoma multiforme(131;0.073)		CTGTCTCTGGTGCTGTGCGCT	0.572													71	386					0	0	1	0	0		C	224804920	C	C	224804920	3	2	151	1	0	0	0	0	1	0	0	0	3607	1696	59	3	46	3	CNIH3	1	224804920	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1237306	224804920	24445701	405	77570											
CNIH3	149111	broad.mit.edu	37	chr1	224868721	224868721	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catagaccagtgcaatcctgTtcatgcggtaagtggcgggt	9	10	13	9	2	1	1	1	0	0	1	2	1	2	1	2	3	2	3	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:224868721T>C	uc001hos.1	+	2	841	c.143T>C	c.(142-144)GTT>GCT	p.V48A		NM_152495	NP_689708	Q8TBE1	CNIH3_HUMAN	cornichon homolog 3	48	Lumenal (Potential).				intracellular signal transduction|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic shaft|postsynaptic membrane					0	Breast(184;0.218)			GBM - Glioblastoma multiforme(131;0.073)		TGCAATCCTGTTCATGCGGTA	0.488													24	83					0	0	1	0	0		C	224868721	C	C	224868721	3	2	151	1	0	0	0	0	1	0	0	0	3607	1725	60	3	149	3	CNIH3	1	224868721	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	63801	224868721	24381900	406	77571											
CNIH3	149111	broad.mit.edu	37	chr1	224922301	224922301	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatagctcagaactagcCtacgacccaccggtggtcat	11	7	10	13	2	2	2	2	0	0	2	2	3	2	2	3	2	4	2	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:224922301C>A	uc001hos.1	+	5	1046	c.348C>A	c.(346-348)GCC>GCA	p.A116A		NM_152495	NP_689708	Q8TBE1	CNIH3_HUMAN	cornichon homolog 3	116	Cytoplasmic (Potential).				intracellular signal transduction|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic shaft|postsynaptic membrane					0	Breast(184;0.218)			GBM - Glioblastoma multiforme(131;0.073)		CAGAACTAGCCTACGACCCAC	0.522													21	93					1.10923e-09	1.14052e-09	1	1	0		A	224922301	A	A	224922301	2	1	151	1	0	0	0	0	0	0	0	1	3607	668	24	5		5	CNIH3	1	224922301	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	53580	224922301	24328320	407	77572											
PARP1	142	broad.mit.edu	37	chr1	226552822	226552822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcttaaagggcttgtaacGctggcattcgccttcacgct	7	12	10	12	3	1	0	1	0	0	0	2	0	1	0	1	2	2	6	1	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:226552822G>A	uc001hqd.3	-	19	2710	c.2539C>T	c.(2539-2541)CGT>TGT	p.R847C		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	847	PARP catalytic.				cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		GGCTTGTAACGCTGGCATTCG	0.488								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					21	72					0	0	1	0	0		A	226552822	A	A	226552822	3	1	151	1	0	0	0	0	1	0	0	0	11473	1087	38	1	525	1	PARP1	1	226552822	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1630521	226552822	22697799	408	77573											
CDC42BPA	8476	broad.mit.edu	37	chr1	227216861	227216861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggaaaaagtcgtacatgaCgatttcgtcctgagatcaca	14	10	9	8	3	1	2	1	2	0	1	4	5	2	3	1	1	1	1	1	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:227216861C>T	uc001hqr.2	-	29	4767	c.3824G>A	c.(3823-3825)CGT>CAT	p.R1275H	CDC42BPA_uc001hqq.2_Missense_Mutation_p.R574H|CDC42BPA_uc001hqs.2_Missense_Mutation_p.R1194H|CDC42BPA_uc009xes.2_Missense_Mutation_p.R1247H|CDC42BPA_uc010pvs.1_Missense_Mutation_p.R1255H|CDC42BPA_uc001hqp.2_Missense_Mutation_p.R431H|CDC42BPA_uc001hqt.2_Missense_Mutation_p.R153H|CDC42BPA_uc001hqu.1_Missense_Mutation_p.R482H	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	1288	CNH.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TCGTACATGACGATTTCGTCC	0.398													12	70					0	0	1	0	0		T	227216861	T	T	227216861	3	4	151	1	0	0	0	0	1	0	0	0	3075	536	19	1	1367	1	CDC42BPA	1	227216861	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	664039	227216861	22033760	409	77574											
CDC42BPA	8476	broad.mit.edu	37	chr1	227335223	227335223	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaaggatttcaggagagAtataatctggagttcctaca	13	12	10	6	0	2	2	1	1	1	1	3	6	3	5	1	3	1	1	1	3	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:227335223A>T	uc001hqr.2	-	7	1674	c.731T>A	c.(730-732)ATC>AAC	p.I244N	CDC42BPA_uc001hqs.2_Missense_Mutation_p.I244N|CDC42BPA_uc009xes.2_Missense_Mutation_p.I244N|CDC42BPA_uc010pvs.1_Missense_Mutation_p.I244N	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	244	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TTCAGGAGAGATATAATCTGG	0.358													22	70					0	0	1	0	0		T	227335223	T	T	227335223	3	4	151	1	0	0	0	0	1	0	0	0	3075	333	12	5	4548	5	CDC42BPA	1	227335223	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	118362	227335223	21915398	410	77575											
ZNF678	339500	broad.mit.edu	37	chr1	227842264	227842264	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgtattgaatgtggcagaAattttagctggaggtcaatc	13	13	11	4	0	1	2	1	1	0	1	2	3	1	3	0	3	1	3	0	3	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:227842264A>G	uc001hqw.1	+	4	658	c.313A>G	c.(313-315)AAT>GAT	p.N105D	ZNF678_uc009xet.1_Intron|ZNF678_uc009xeu.1_Intron	NM_178549	NP_848644	F5GXA7	F5GXA7_HUMAN	zinc finger protein 678	160					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			pancreas(1)	1		Prostate(94;0.0885)				ATGTGGCAGAAATTTTAGCTG	0.353													25	101					0	0	1	0	0		G	227842264	G	G	227842264	3	3	151	1	0	0	0	0	1	0	0	0	18110	14	1	3	492	3	ZNF678	1	227842264	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	507041	227842264	21408357	411	77576											
JMJD4	65094	broad.mit.edu	37	chr1	227921375	227921375	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggaagatgtcagcatggaAcggggacctgcggcagcaag	11	4	17	9	3	1	1	1	0	0	1	1	4	1	4	1	5	4	3	1	5	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:227921375A>G	uc001hrb.2	-	4	700	c.700T>C	c.(700-702)TTC>CTC	p.F234L	SNAP47_uc001hqz.2_Intron|SNAP47_uc001hra.2_Intron|SNAP47_uc001hrd.2_5'Flank|SNAP47_uc001hre.2_5'Flank|SNAP47_uc001hrf.2_5'Flank|LOC100130093_uc001hqx.3_RNA|LOC100130093_uc001hqy.3_RNA|JMJD4_uc001hrc.2_Missense_Mutation_p.F234L	NM_023007	NP_075383	Q9H9V9	JMJD4_HUMAN	jumonji domain containing 4 isoform 1	234	JmjC.										0		Prostate(94;0.0885)				TCAGCATGGAACGGGGACCTG	0.622													9	47					0	0	1	0	0		G	227921375	G	G	227921375	3	3	151	1	0	0	0	0	1	0	0	0	7967	43	2	3	703	3	JMJD4	1	227921375	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	79111	227921375	21329246	412	77577											
WNT3A	89780	broad.mit.edu	37	chr1	228238516	228238516	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggtggctgtagcgaggAcatcgagtttggtgggatgg	6	10	21	4	2	0	0	0	0	0	0	1	4	0	2	0	7	1	3	0	7	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:228238516A>G	uc001hrq.1	+	3	551	c.473A>G	c.(472-474)GAC>GGC	p.D158G	WNT3A_uc001hrp.1_Missense_Mutation_p.D158G	NM_033131	NP_149122	P56704	WNT3A_HUMAN	wingless-type MMTV integration site family,	158					axis specification|cell proliferation in forebrain|cell-cell signaling|cellular response to retinoic acid|convergent extension|dermatome development|dorsal/ventral neural tube patterning|embryonic pattern specification|extracellular matrix organization|hemopoietic stem cell proliferation|hippocampus development|inner ear morphogenesis|mammary gland development|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of neuron projection development|notochord development|palate development|paraxial mesodermal cell fate commitment|positive regulation of catenin import into nucleus|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of receptor internalization|positive regulation of transcription from RNA polymerase II promoter|signalosome assembly|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuroblast division|Wnt receptor signaling pathway, calcium modulating pathway	cell surface|early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled-2 binding|receptor agonist activity|signal transducer activity|transcription coactivator activity			ovary(1)	1		Prostate(94;0.0405)				TGTAGCGAGGACATCGAGTTT	0.657													11	59					0	0	1	0	0		G	228238516	G	G	228238516	3	3	151	1	0	0	0	0	1	0	0	0	17415	275	10	3	483	3	WNT3A	1	228238516	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	317141	228238516	21012105	413	77578											
GUK1	2987	broad.mit.edu	37	chr1	228333221	228333221	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcacccccaggcatgtcggGccccaggcctgtggtgctga	5	7	13	16	1	1	1	1	1	0	0	2	1	1	1	5	4	1	2	5	4	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:228333221G>C	uc001hsh.2	+	3	311	c.8G>C	c.(7-9)GGC>GCC	p.G3A	GUK1_uc001hsi.2_Missense_Mutation_p.G24A|GUK1_uc001hsj.2_5'UTR|GUK1_uc010pvv.1_Missense_Mutation_p.G3A	NM_000858	NP_000849	Q16774	KGUA_HUMAN	guanylate kinase 1 isoform b	3					nucleobase, nucleoside and nucleotide interconversion|purine nucleotide metabolic process	cytosol	ATP binding|guanylate kinase activity				0		Prostate(94;0.0405)				GGCATGTCGGGCCCCAGGCCT	0.627													4	17					0	0	1	0	0		C	228333221	C	C	228333221	3	2	151	1	0	0	0	0	1	0	0	0	6916	1203	42	5	77	5	GUK1	1	228333221	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	94705	228333221	20917400	414	77579											
GJC2	57165	broad.mit.edu	37	chr1	228346175	228346175	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgtacggcttcgaggTgcgaccgttctttccctgca	4	12	11	14	4	1	0	0	0	1	0	3	2	2	0	3	2	4	5	3	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:228346175T>C	uc001hsk.2	+	2	891	c.716T>C	c.(715-717)GTG>GCG	p.V239A		NM_020435	NP_065168	Q5T442	CXG2_HUMAN	gap junction protein, gamma 2, 47kDa	239	Extracellular (Potential).				cell death	connexon complex|integral to membrane					0		Prostate(94;0.0405)				GGCTTCGAGGTGCGACCGTTC	0.647													3	26					0	0	1	0	0		C	228346175	C	C	228346175	3	2	151	1	0	0	0	0	1	0	0	0	6430	1696	59	3	718	3	GJC2	1	228346175	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	12954	228346175	20904446	415	77580											
C1orf69	200205	broad.mit.edu	37	chr1	228363092	228363092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggctggccagggcaacGtggggctggccctgctgtgg	4	7	19	11	1	1	0	1	0	0	0	1	0	1	0	2	7	2	4	2	7	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:228363092G>A	uc001hsl.3	+	3	1038	c.949G>A	c.(949-951)GTG>ATG	p.V317M	C1orf69_uc010pvw.1_Missense_Mutation_p.V124M	NM_001010867	NP_001010867	Q5T440	CAF17_HUMAN	hypothetical protein LOC200205 precursor	317					glycine catabolic process|heme biosynthetic process	mitochondrion	aminomethyltransferase activity				0		Prostate(94;0.0405)				CCAGGGCAACGTGGGGCTGGC	0.632													18	74					0	0	1	0	0		A	228363092	A	A	228363092	3	1	151	1	0	0	0	0	1	0	0	0	2060	1145	40	1	959	1	C1orf69	1	228363092	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	16917	228363092	20887529	416	77581											
OBSCN	84033	broad.mit.edu	37	chr1	228433238	228433238	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtgacgtggtacaaggaCgggaagaagctgagctccag	12	5	17	7	2	0	3	0	2	0	1	1	6	1	5	1	4	3	3	1	4	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:228433238C>T	uc009xez.1	+	12	3650	c.3606C>T	c.(3604-3606)GAC>GAT	p.D1202D	OBSCN_uc001hsn.2_Silent_p.D1202D	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1202	Ig-like 12.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGTACAAGGACGGGAAGAAGC	0.597													20	72					0	0	1	0	0		T	228433238	T	T	228433238	2	4	151	1	0	0	0	0	0	0	0	1	10831	535	19	1		1	OBSCN	1	228433238	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	70146	228433238	20817383	417	77582											
OBSCN	84033	broad.mit.edu	37	chr1	228437904	228437904	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagtatagctgcgaggcCgggggccagcggctctcctt	5	7	18	11	3	1	0	0	0	1	0	2	2	1	1	3	6	3	3	3	6	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:228437904C>T	uc009xez.1	+	14	4316	c.4272C>T	c.(4270-4272)GCC>GCT	p.A1424A	OBSCN_uc001hsn.2_Silent_p.A1424A	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1424	Ig-like 14.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCTGCGAGGCCGGGGGCCAGC	0.652													4	63					0	0	1	0	0		T	228437904	T	T	228437904	2	4	151	1	0	0	0	0	0	0	0	1	10831	639	23	1		1	OBSCN	1	228437904	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4666	228437904	20812717	418	77583											
OBSCN	84033	broad.mit.edu	37	chr1	228456347	228456347	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagacagaggtgacgtggTacaaggatgggaagaagctg	13	5	16	7	1	0	4	0	1	0	3	0	6	0	6	1	4	2	2	1	4	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:228456347T>C	uc009xez.1	+	17	5022	c.4978T>C	c.(4978-4980)TAC>CAC	p.Y1660H	OBSCN_uc001hsn.2_Missense_Mutation_p.Y1660H|OBSCN_uc001hso.2_Missense_Mutation_p.Y106H	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1660	Ig-like 17.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGTGACGTGGTACAAGGATGG	0.677													9	34					0	0	1	0	0		C	228456347	C	C	228456347	3	2	151	1	0	0	0	0	1	0	0	0	10831	1638	57	3	5040	3	OBSCN	1	228456347	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	18443	228456347	20794274	419	77584											
OBSCN	84033	broad.mit.edu	37	chr1	228509588	228509588	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcccgtcggctgcacCggctcttccgcaccaaaagt	6	7	12	16	4	1	0	0	0	1	0	3	0	2	0	4	3	2	5	4	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:228509588C>T	uc009xez.1	+	55	15090	c.15046C>T	c.(15046-15048)CGG>TGG	p.R5016W	OBSCN_uc001hsn.2_Missense_Mutation_p.R5016W	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5016					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TCGGCTGCACCGGCTCTTCCG	0.647													9	42					0	0	1	0	0		T	228509588	T	T	228509588	3	4	151	1	0	0	0	0	1	0	0	0	10831	643	23	1	15260	1	OBSCN	1	228509588	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	53241	228509588	20741033	420	77585											
TTC13	79573	broad.mit.edu	37	chr1	231064815	231064815	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtaaggggggtatcaaggTgtgcatgaagatatcgagaa	13	8	15	5	2	1	3	1	1	0	2	2	4	1	3	1	4	1	3	1	4	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:231064815T>C	uc001huf.3	-	12	1356	c.1325A>G	c.(1324-1326)CAC>CGC	p.H442R	TTC13_uc009xfi.2_Missense_Mutation_p.H389R|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Missense_Mutation_p.H389R|TTC13_uc009xfk.1_Missense_Mutation_p.H332R	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	442							binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		GGTATCAAGGTGTGCATGAAG	0.408													29	129					0	0	1	0	0		C	231064815	C	C	231064815	3	2	151	1	0	0	0	0	1	0	0	0	16706	1696	59	3	1305	3	TTC13	1	231064815	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2555227	231064815	18185806	421	77586											
C1orf124	83932	broad.mit.edu	37	chr1	231487299	231487299	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactaggaaaggaaccagtaTtggccgcagagaataaaggt	17	6	12	6	1	0	1	0	0	0	1	0	4	0	3	2	4	2	2	2	4	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:231487299T>G	uc001hur.2	+	4	1148	c.700T>G	c.(700-702)TTG>GTG	p.L234V	C1orf124_uc001hus.2_Missense_Mutation_p.L234V|C1orf124_uc001hut.2_Missense_Mutation_p.L191V	NM_032018	NP_114407	Q9H040	CA124_HUMAN	hypothetical protein LOC83932 isoform a	234					DNA repair	nuclear speck	DNA binding|metal ion binding				0	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				GGAACCAGTATTGGCCGCAGA	0.388													22	92					0	0	1	0	0		G	231487299	G	G	231487299	3	3	151	1	0	0	0	0	1	0	0	0	1995	1490	52	5	714	5	C1orf124	1	231487299	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	422484	231487299	17763322	422	77587											
TSNAX	7257	broad.mit.edu	37	chr1	231673007	231673007	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaaatatgagagacttgTgaaacttagtcgggatataa	16	11	10	4	1	0	4	0	3	0	1	1	6	0	5	0	1	1	0	0	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:231673007T>C	uc001huw.2	+	3	328	c.170T>C	c.(169-171)GTG>GCG	p.V57A	TSNAX-DISC1_uc010pwe.1_5'UTR|TSNAX-DISC1_uc010pwf.1_5'UTR|TSNAX-DISC1_uc010pwg.1_5'UTR|TSNAX-DISC1_uc010pwh.1_5'UTR|TSNAX-DISC1_uc010pwi.1_Intron|TSNAX-DISC1_uc010pwj.1_5'UTR|TSNAX-DISC1_uc010pwk.1_5'UTR|TSNAX-DISC1_uc010pwl.1_RNA	NM_005999	NP_005990	Q99598	TSNAX_HUMAN	translin-associated factor X	57					cell differentiation|multicellular organismal development|spermatogenesis	nucleus|perinuclear region of cytoplasm	protein transporter activity|sequence-specific DNA binding				0		all_cancers(173;0.0395)|Acute lymphoblastic leukemia(190;3.76e-06)|Prostate(94;0.116)				GAGAGACTTGTGAAACTTAGT	0.343													28	99					0	0	1	0	0		C	231673007	C	C	231673007	3	2	151	1	0	0	0	0	1	0	0	0	16657	1696	59	3	180	3	TSNAX	1	231673007	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	185708	231673007	17577614	423	77588											
SIPA1L2	57568	broad.mit.edu	37	chr1	232538136	232538136	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatgctcttccaattgattAccttccgaaggtcggtctgg	7	15	9	10	2	2	1	0	1	2	0	5	2	4	1	3	3	2	1	3	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:232538136A>G	uc001hvg.2	-	20	5180	c.5022_splice	c.e20+1	p.K1674_splice	SIPA1L2_uc001hvf.2_Splice_Site_p.K730_splice	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like						regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				CCAATTGATTACCTTCCGAAG	0.408													21	56					0	0	1	0	0		G	232538136	G	G	232538136	5	3	151	1	0	0	0	0	0	0	1	0	14355	405	14	3	152	3	SIPA1L2	1	232538136	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	865129	232538136	16712485	424	77589											
SIPA1L2	57568	broad.mit.edu	37	chr1	232650649	232650649	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctctttggggggaatggAcaaagatgtctccgattgtg	8	12	14	7	1	2	1	0	0	2	1	4	4	3	3	2	4	0	0	2	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:232650649A>G	uc001hvg.2	-	1	595	c.437T>C	c.(436-438)GTC>GCC	p.V146A		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	146					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GGGGGAATGGACAAAGATGTC	0.488													49	202					0	0	1	0	0		G	232650649	G	G	232650649	3	3	151	1	0	0	0	0	1	0	0	0	14355	275	10	3	4815	3	SIPA1L2	1	232650649	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	112513	232650649	16599972	425	77590											
PCNXL2	80003	broad.mit.edu	37	chr1	233394715	233394715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtgacttgctttgtaccCgttcccttatggagccccgg	5	12	12	12	2	0	1	0	1	0	0	1	3	1	2	4	3	3	3	4	3	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:233394715C>T	uc001hvl.2	-	5	1128	c.893G>A	c.(892-894)CGG>CAG	p.R298Q	PCNXL2_uc009xfu.2_RNA|PCNXL2_uc009xfv.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	298						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GCTTTGTACCCGTTCCCTTAT	0.552													15	126					0	0	1	0	0		T	233394715	T	T	233394715	3	4	151	1	0	0	0	0	1	0	0	0	11611	652	23	1	5640	1	PCNXL2	1	233394715	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	744066	233394715	15855906	426	77591											
TARBP1	6894	broad.mit.edu	37	chr1	234563331	234563331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcttttacctttgatcaCgcctaaacacagttccaaat	12	13	4	12	1	2	1	1	1	1	0	3	1	3	1	3	0	2	2	3	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:234563331C>T	uc001hwd.2	-	18	3242	c.3242G>A	c.(3241-3243)CGT>CAT	p.R1081H		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	1081					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			CCTTTGATCACGCCTAAACAC	0.343													14	49					0	0	1	0	0		T	234563331	T	T	234563331	3	4	151	1	0	0	0	0	1	0	0	0	15580	536	19	1	1675	1	TARBP1	1	234563331	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1168616	234563331	14687290	427	77592											
TARBP1	6894	broad.mit.edu	37	chr1	234565023	234565023	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaagatataattttccaCgccatgtcaaaagactctat	17	11	5	8	1	2	3	1	0	1	3	3	3	3	3	2	0	0	0	2	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:234565023C>T	uc001hwd.2	-	17	2919	c.2919G>A	c.(2917-2919)GCG>GCA	p.A973A		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	973					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			TAATTTTCCACGCCATGTCAA	0.343													28	112					0	0	1	0	0		T	234565023	T	T	234565023	2	4	151	1	0	0	0	0	0	0	0	1	15580	523	19	1		1	TARBP1	1	234565023	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1692	234565023	14685598	428	77593											
RBM34	23029	broad.mit.edu	37	chr1	235324296	235324296	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgccacctctggaatggTgttcgccgcgaaataagcta	9	9	12	11	4	1	0	0	0	1	0	2	2	1	1	3	3	2	2	3	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:235324296T>C	uc001hwn.2	-	2	170	c.140A>G	c.(139-141)CAC>CGC	p.H47R	RBM34_uc001hwo.2_RNA|ARID4B_uc001hwp.2_RNA|RBM34_uc010pxp.1_Missense_Mutation_p.H47R	NM_015014	NP_055829	P42696	RBM34_HUMAN	RNA binding motif protein 34 isoform 1	47						nucleolus	nucleotide binding|RNA binding			central_nervous_system(1)	1	Ovarian(103;0.0398)	all_cancers(173;0.177)|Prostate(94;0.0166)	OV - Ovarian serous cystadenocarcinoma(106;5.43e-05)|Epithelial(3;0.000121)			TCTGGAATGGTGTTCGCCGCG	0.582													17	21					0	0	1	0	0		C	235324296	C	C	235324296	3	2	151	1	0	0	0	0	1	0	0	0	13156	1696	59	3	1213	3	RBM34	1	235324296	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	759273	235324296	13926325	429	77594											
B3GALNT2	148789	broad.mit.edu	37	chr1	235658060	235658060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatcacgtttcgaagttcaTggttattgcgagctgacaac	10	14	9	8	3	2	1	2	1	0	0	3	3	2	1	0	1	3	4	0	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:235658060T>C	uc001hxc.2	-	2	420	c.191A>G	c.(190-192)CAT>CGT	p.H64R	B3GALNT2_uc001hxd.1_Missense_Mutation_p.H105R	NM_152490	NP_689703	Q8NCR0	B3GL2_HUMAN	beta-1,3-N-acetylgalactosaminyltransferase 2	64	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			breast(1)	1	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.0539)|Prostate(94;0.0353)	OV - Ovarian serous cystadenocarcinoma(106;0.000117)			TCGAAGTTCATGGTTATTGCG	0.428													37	144					0	0	1	0	0		C	235658060	C	C	235658060	3	2	151	1	0	0	0	0	1	0	0	0	1247	1464	51	3	1355	3	B3GALNT2	1	235658060	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	333764	235658060	13592561	430	77595											
LYST	1130	broad.mit.edu	37	chr1	235827885	235827885	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgtccaacgagatccccgTtcaccgtccagagtctgagg	9	8	10	14	3	2	3	1	1	1	2	5	4	5	3	5	1	1	1	5	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:235827885T>C	uc001hxj.2	-	51	11250	c.11075A>G	c.(11074-11076)AAC>AGC	p.N3692S	LYST_uc001hxi.2_Missense_Mutation_p.N916S	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3692	WD 5.				defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GAGATCCCCGTTCACCGTCCA	0.552									Chediak-Higashi_syndrome				20	65					0	0	1	0	0		C	235827885	C	C	235827885	3	2	151	1	0	0	0	0	1	0	0	0	9146	1725	60	3	342	3	LYST	1	235827885	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	169825	235827885	13422736	431	77596											
LYST	1130	broad.mit.edu	37	chr1	235896835	235896835	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agctgctgaataagttcctgCcaatgtctgctggcactcaa	10	11	9	11	0	2	1	1	1	1	0	3	1	3	1	2	1	4	5	2	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:235896835C>T	uc001hxj.2	-	34	8944	c.8769G>A	c.(8767-8769)TGG>TGA	p.W2923*	LYST_uc001hxi.2_Nonsense_Mutation_p.W147*	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2923					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TAAGTTCCTGCCAATGTCTGC	0.408									Chediak-Higashi_syndrome				5	122					0	0	1	0	0		T	235896835	T	T	235896835	4	4	151	1	0	0	0	0	0	1	0	0	9146	740	26	2	2716	2	LYST	1	235896835	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	68950	235896835	13353786	432	77597											
LYST	1130	broad.mit.edu	37	chr1	235922883	235922883	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccatctgttgtggaataatAttagaggaattctctcctgg	10	14	10	7	0	2	1	0	0	2	1	4	3	3	3	2	3	0	1	2	3	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:235922883A>G	uc001hxj.2	-	23	6445	c.6270T>C	c.(6268-6270)AAT>AAC	p.N2090N	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2090					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GTGGAATAATATTAGAGGAAT	0.378									Chediak-Higashi_syndrome				22	96					0	0	1	0	0		G	235922883	G	G	235922883	2	3	151	1	0	0	0	0	0	0	0	1	9146	446	16	3		3	LYST	1	235922883	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	26048	235922883	13327738	433	77598											
NID1	4811	broad.mit.edu	37	chr1	236148697	236148697	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accttgtctaatgatggtggTtggctctccaccatgtagac	8	13	10	10	0	2	2	0	1	2	1	3	2	2	2	3	3	0	3	3	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:236148697T>C	uc001hxo.2	-	15	3139	c.3037A>G	c.(3037-3039)ACC>GCC	p.T1013A	NID1_uc009xgd.2_Missense_Mutation_p.T880A|NID1_uc009xgc.2_Missense_Mutation_p.T99A	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	1013	LDL-receptor class B 1.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	ATGATGGTGGTTGGCTCTCCA	0.458													22	88					0	0	1	0	0		C	236148697	C	C	236148697	3	2	151	1	0	0	0	0	1	0	0	0	10433	1725	60	3	730	3	NID1	1	236148697	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	225814	236148697	13101924	434	77599											
ACTN2	88	broad.mit.edu	37	chr1	236914881	236914881	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggtgattcagagctacAacatcagaatcagctcaagc	16	7	9	9	0	4	4	4	1	0	3	4	4	4	4	0	1	5	2	0	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:236914881A>G	uc001hyf.2	+	15	1972	c.1768A>G	c.(1768-1770)AAC>GAC	p.N590D	ACTN2_uc001hyg.2_Missense_Mutation_p.N382D|ACTN2_uc009xgi.1_Missense_Mutation_p.N590D|ACTN2_uc010pxu.1_Missense_Mutation_p.N279D|ACTN2_uc001hyh.2_Missense_Mutation_p.N278D	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	590	Spectrin 3.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			TCAGAGCTACAACATCAGAAT	0.597													23	81					0	0	1	0	0		G	236914881	G	G	236914881	3	3	151	1	0	0	0	0	1	0	0	0	205	130	5	3	1826	3	ACTN2	1	236914881	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	766184	236914881	12335740	435	77600											
MTR	4548	broad.mit.edu	37	chr1	236995292	236995292	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcccttcaggattggaccgTacaccaactttgttaacatt	11	12	7	11	1	1	0	1	0	0	0	1	2	1	2	3	2	4	2	3	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:236995292T>C	uc001hyi.3	+	13	1525	c.1102T>C	c.(1102-1104)TAC>CAC	p.Y368H	MTR_uc010pxw.1_Intron|MTR_uc010pxx.1_Missense_Mutation_p.Y368H|MTR_uc010pxy.1_Missense_Mutation_p.Y368H	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	368					nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	GATTGGACCGTACACCAACTT	0.398													8	86					0	0	1	0	0		C	236995292	C	C	236995292	3	2	151	1	0	0	0	0	1	0	0	0	9976	1638	57	3	1152	3	MTR	1	236995292	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	80411	236995292	12255329	436	77601											
MTR	4548	broad.mit.edu	37	chr1	237016301	237016301	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacctccctgtgtatgatgaTatccataaggaacttctgca	12	12	7	10	0	1	2	0	2	1	0	3	3	3	3	3	1	3	2	3	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:237016301T>C	uc001hyi.3	+	18	2289	c.1866T>C	c.(1864-1866)GAT>GAC	p.D622D	MTR_uc010pxw.1_Silent_p.D215D|MTR_uc010pxx.1_Silent_p.D622D|MTR_uc010pxy.1_Intron	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	622	Pterin-binding.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	TGTATGATGATATCCATAAGG	0.433													29	172					0	0	1	0	0		C	237016301	C	C	237016301	2	2	151	1	0	0	0	0	0	0	0	1	9976	1403	49	3		3	MTR	1	237016301	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	21009	237016301	12234320	437	77602											
RYR2	6262	broad.mit.edu	37	chr1	237838135	237838135	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgaagcccatcagtataTcctggagtttggtaggtacc	10	11	12	8	0	1	1	1	1	0	0	2	3	2	3	3	4	2	4	3	4	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:237838135T>A	uc001hyl.1	+	60	8939	c.8819T>A	c.(8818-8820)ATC>AAC	p.I2940N	RYR2_uc010pxz.1_5'UTR	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2940	Modulator (Potential).|Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CATCAGTATATCCTGGAGTTT	0.418													7	47					0	0	1	0	0		A	237838135	A	A	237838135	3	1	151	1	0	0	0	0	1	0	0	0	13794	1435	50	5	9057	5	RYR2	1	237838135	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	821834	237838135	11412486	438	77603											
CHRM3	1131	broad.mit.edu	37	chr1	240071898	240071898	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatcctcaactccaccaagTtaccctcatcggacaacctg	11	8	4	18	1	2	0	2	0	0	0	5	1	4	1	6	1	3	1	6	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:240071898T>C	uc001hyp.2	+	5	1926	c.1147T>C	c.(1147-1149)TTA>CTA	p.L383L		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	383	Cytoplasmic (By similarity).			KLP -> RLS (in Ref. 7; AAG30036).	cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	CTCCACCAAGTTACCCTCATC	0.602													4	13					0	0	1	0	0		C	240071898	C	C	240071898	2	2	151	1	0	0	0	0	0	0	0	1	3381	1722	60	3		3	CHRM3	1	240071898	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2233763	240071898	9178723	439	77604											
FMN2	56776	broad.mit.edu	37	chr1	240286491	240286491	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgcagggcgaacgctgtTggagaagctgttcagccagc	9	8	14	10	2	2	1	1	0	1	1	2	3	2	1	1	2	5	5	1	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:240286491T>C	uc010pyd.1	+	2	1853	c.1628T>C	c.(1627-1629)TTG>TCG	p.L543S	FMN2_uc010pye.1_Missense_Mutation_p.L543S	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	543					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CGAACGCTGTTGGAGAAGCTG	0.547													15	68					0	0	1	0	0		C	240286491	C	C	240286491	3	2	151	1	0	0	0	0	1	0	0	0	5964	1821	63	3	1634	3	FMN2	1	240286491	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	214593	240286491	8964130	440	77605											
RGS7	6000	broad.mit.edu	37	chr1	240966228	240966228	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttgcctgtagaagctcCtgataggcactggatcttat	8	15	9	9	0	2	2	0	1	2	1	3	3	3	3	2	2	2	3	2	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:240966228C>T	uc001hyv.2	-	16	1665	c.1335G>A	c.(1333-1335)CAG>CAA	p.Q445Q	RGS7_uc010pyh.1_Silent_p.Q419Q|RGS7_uc010pyj.1_Silent_p.Q361Q|RGS7_uc001hyu.2_Silent_p.Q445Q|RGS7_uc009xgn.1_Silent_p.Q392Q|RGS7_uc001hyw.2_Silent_p.Q445Q|RGS7_uc001hyt.2_Silent_p.Q277Q	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	445	RGS.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			GTAGAAGCTCCTGATAGGCAC	0.358													41	192					0	0	1	0	0		T	240966228	T	T	240966228	2	4	151	1	0	0	0	0	0	0	0	1	13335	680	24	4		4	RGS7	1	240966228	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	679737	240966228	8284393	441	77606											
PLD5	200150	broad.mit.edu	37	chr1	242511481	242511481	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtccacggctgaaaagaTcagtgcaaccagaatggcaa	15	6	11	9	1	1	3	1	1	0	2	2	4	2	3	2	2	2	3	2	2	5	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:242511481T>A	uc001hzn.1	-	2	380	c.253A>T	c.(253-255)ATC>TTC	p.I85F	PLD5_uc001hzl.3_Missense_Mutation_p.I23F|PLD5_uc001hzm.3_5'UTR|PLD5_uc001hzo.1_5'UTR			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	85	Helical; (Potential).					integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			GCTGAAAAGATCAGTGCAACC	0.428													36	154					0	0	1	0	0		A	242511481	A	A	242511481	3	1	151	1	0	0	0	0	1	0	0	0	12068	1450	50	5		5	PLD5	1	242511481	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1545253	242511481	6739140	442	77607											
ZNF238	10472	broad.mit.edu	37	chr1	244218042	244218042	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacagtatgagccggcccaTctggctcccctgagggagga	8	7	14	12	1	1	2	0	2	1	0	2	4	2	4	4	4	2	3	4	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:244218042T>A	uc001iae.2	+	1	1461	c.939T>A	c.(937-939)CAT>CAA	p.H313Q	ZNF238_uc001iad.3_Missense_Mutation_p.H322Q|ZNF238_uc001iaf.1_3'UTR	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	313	Interaction with DNMT3A.				negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			AGCCGGCCCATCTGGCTCCCC	0.532													13	82					0	0	1	0	0		A	244218042	A	A	244218042	3	1	151	1	0	0	0	0	1	0	0	0	17815	1432	50	5	972	5	ZNF238	1	244218042	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1706561	244218042	5032579	443	77608											
C1orf100	200159	broad.mit.edu	37	chr1	244528019	244528019	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcatgactgccatccgacTacgagaatttattgagcgtc	11	11	8	11	3	1	3	1	2	0	1	3	5	2	3	2	0	3	0	2	0	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:244528019T>C	uc001iah.2	+	2	130	c.17T>C	c.(16-18)CTA>CCA	p.L6P	C1orf100_uc001iai.2_Missense_Mutation_p.L6P	NM_001012970	NP_001012988	Q5SVJ3	CA100_HUMAN	hypothetical protein LOC200159	6											0	all_cancers(71;3.94e-05)|all_epithelial(71;0.000138)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|all_lung(81;0.0736)|Ovarian(71;0.0761)|Lung NSC(105;0.103)		all cancers(7;8.19e-08)|GBM - Glioblastoma multiforme(7;2.05e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.000984)			GCCATCCGACTACGAGAATTT	0.468													22	89					0	0	1	0	0		C	244528019	C	C	244528019	3	2	151	1	0	0	0	0	1	0	0	0	1978	1522	53	3	19	3	C1orf100	1	244528019	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	309977	244528019	4722602	444	77609											
KIF26B	55083	broad.mit.edu	37	chr1	245849706	245849706	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttttgaaaaaatccatgTctgctgggagcgaagggttc	11	11	13	6	1	1	1	0	1	1	0	3	3	2	2	1	3	2	3	1	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:245849706T>C	uc001ibf.1	+	12	3861	c.3421T>C	c.(3421-3423)TCT>CCT	p.S1141P	KIF26B_uc001ibg.1_Missense_Mutation_p.S759P|KIF26B_uc001ibh.1_Missense_Mutation_p.S383P	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1141					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			AAAATCCATGTCTGCTGGGAG	0.582													4	154					0	0	1	0	0		C	245849706	C	C	245849706	3	2	151	1	0	0	0	0	1	0	0	0	8311	1667	58	3	3467	3	KIF26B	1	245849706	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1321687	245849706	3400915	445	77610											
AHCTF1	25909	broad.mit.edu	37	chr1	247013668	247013668	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttcaacactttcctgattTtctacagatcttttaattct	10	20	2	9	0	4	2	1	1	3	1	5	2	5	2	1	0	2	0	1	0	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:247013668T>C	uc001ibu.1	-	32	5647	c.5640A>G	c.(5638-5640)GAA>GAG	p.E1880E	AHCTF1_uc001ibv.1_Silent_p.E1889E|AHCTF1_uc009xgs.1_Silent_p.E741E|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	1880	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			TTTCCTGATTTTCTACAGATC	0.323													35	113					0	0	1	0	0		C	247013668	C	C	247013668	2	2	151	1	0	0	0	0	0	0	0	1	408	1838	64	3		3	AHCTF1	1	247013668	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1163962	247013668	2236953	446	77611											
AHCTF1	25909	broad.mit.edu	37	chr1	247051505	247051505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtttggctgcttcagtaaCgccgtctaataggtacatat	9	14	10	8	2	2	0	1	0	1	0	2	0	2	0	1	2	3	5	1	2	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:247051505C>T	uc001ibu.1	-	18	2306	c.2299G>A	c.(2299-2301)GTT>ATT	p.V767I	AHCTF1_uc001ibv.1_Missense_Mutation_p.V776I|AHCTF1_uc009xgs.1_5'UTR	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	767	Necessary for cytoplasmic localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			GCTTCAGTAACGCCGTCTAAT	0.328													15	84					0	0	1	0	0		T	247051505	T	T	247051505	3	4	151	1	0	0	0	0	1	0	0	0	408	536	19	1	4573	1	AHCTF1	1	247051505	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	37837	247051505	2199116	447	77612											
ZNF695	57116	broad.mit.edu	37	chr1	247150946	247150946	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtatggtttctctccagTatgaattttcttatgtttag	7	22	7	5	0	2	1	0	1	2	0	4	1	3	1	1	1	0	4	1	1	5	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:247150946T>C	uc009xgu.2	-	4	1016	c.871A>G	c.(871-873)ACT>GCT	p.T291A	ZNF695_uc001ica.2_Intron|ZNF695_uc001icb.1_Intron|ZNF695_uc009xgt.1_Intron|ZNF695_uc001ibx.2_Intron|ZNF695_uc001iby.2_Intron	NM_020394	NP_065127	Q8IW36	ZN695_HUMAN	zinc finger protein SBZF3	291					regulation of transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			TTCTCTCCAGTATGAATTTTC	0.348													8	31					0	0	1	0	0		C	247150946	C	C	247150946	3	2	151	1	0	0	0	0	1	0	0	0	18123	1638	57	3	680	3	ZNF695	1	247150946	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	99441	247150946	2099675	448	77613											
VN1R5	317705	broad.mit.edu	37	chr1	247420160	247420160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcctgtccccgagtctcaCcagtgaaaagagcctcccag	10	6	9	16	1	1	2	1	1	1	1	4	3	3	2	6	0	2	0	6	0	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:247420160C>T	uc010pyu.1	+	2	787	c.787C>T	c.(787-789)CCA>TCA	p.P263S		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	263	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			CCGAGTCTCACCAGTGAAAAG	0.473													37	121					0	0	1	0	0		T	247420160	T	T	247420160	3	4	151	1	0	0	0	0	1	0	0	0	17207	507	18	4	789	4	VN1R5	1	247420160	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	269214	247420160	1830461	449	77614											
OR11L1	391189	broad.mit.edu	37	chr1	248005113	248005113	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagatgagcaggaaaatgAcaaagagcagggcctgccat	16	5	13	7	0	0	4	0	2	0	2	0	5	0	5	2	2	3	3	2	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:248005113A>G	uc001idn.1	-	1	86	c.86T>C	c.(85-87)GTC>GCC	p.V29A		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	29	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CAGGAAAATGACAAAGAGCAG	0.507													6	38					0	0	1	0	0		G	248005113	G	G	248005113	3	3	151	1	0	0	0	0	1	0	0	0	10949	275	10	3	886	3	OR11L1	1	248005113	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	584953	248005113	1245508	450	77615											
OR2L8	391190	broad.mit.edu	37	chr1	248112616	248112616	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcttggatcataggctcgAtcaatgcttgtgctcacact	8	13	10	10	1	4	0	3	0	1	0	5	2	4	1	0	3	2	3	0	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:248112616A>C	uc001idt.1	+	1	457	c.457A>C	c.(457-459)ATC>CTC	p.I153L	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	153	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			CATAGGCTCGATCAATGCTTG	0.443													8	235					0	0	1	0	0		C	248112616	C	C	248112616	3	2	151	1	0	0	0	0	1	0	0	0	11028	333	12	5	459	5	OR2L8	1	248112616	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	107503	248112616	1138005	451	77616											
OR2L2	26246	broad.mit.edu	37	chr1	248201952	248201952	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgtggccatttgctttcCtctccactatcccatccgta	6	16	5	14	1	1	0	0	0	1	0	5	0	4	0	5	1	1	2	5	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:248201952C>A	uc001idw.2	+	1	479	c.383C>A	c.(382-384)CCT>CAT	p.P128H	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	128	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			ATTTGCTTTCCTCTCCACTAT	0.398													53	247					9.72345e-25	1.01749e-24	1	1	0		A	248201952	A	A	248201952	3	1	151	1	0	0	0	0	1	0	0	0	11026	681	24	5	385	5	OR2L2	1	248201952	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	89336	248201952	1048669	452	77617											
OR2L13	284521	broad.mit.edu	37	chr1	248263216	248263216	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccatttcttctgcgatgTcccagccatgttgcttcttg	5	16	8	12	1	3	1	0	1	3	0	4	2	4	1	3	0	3	2	3	0	0	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:248263216T>A	uc001ids.2	+	3	876	c.539T>A	c.(538-540)GTC>GAC	p.V180D		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			TTCTGCGATGTCCCAGCCATG	0.458													57	260					0	0	1	0	0		A	248263216	A	A	248263216	3	1	151	1	0	0	0	0	1	0	0	0	11025	1667	58	5	541	5	OR2L13	1	248263216	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	61264	248263216	987405	453	77618											
OR2T2	401992	broad.mit.edu	37	chr1	248616758	248616758	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcatctctgtctcctacacGcacatcctcctgactgtcca	7	12	5	17	1	3	1	1	1	2	0	8	1	6	1	4	0	1	1	4	0	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:248616758G>A	uc001iek.1	+	1	660	c.660G>A	c.(658-660)ACG>ACA	p.T220T		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	220	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCTCCTACACGCACATCCTCC	0.527													17	53					0	0	1	0	0		A	248616758	A	A	248616758	2	1	151	1	0	0	0	0	0	0	0	1	11039	1074	38	1		1	OR2T2	1	248616758	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	353542	248616758	633863	454	77619											
OR2G6	391211	broad.mit.edu	37	chr1	248685072	248685072	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtcttgagccttctggggaAcactgccctcatactagtat	8	12	9	12	1	3	1	1	1	2	0	3	2	3	2	2	2	4	1	2	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:248685072A>G	uc001ien.1	+	1	125	c.125A>G	c.(124-126)AAC>AGC	p.N42S		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	42	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTTCTGGGGAACACTGCCCTC	0.468													38	157					0	0	1	0	0		G	248685072	G	G	248685072	3	3	151	1	0	0	0	0	1	0	0	0	11019	43	2	3	127	3	OR2G6	1	248685072	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	68314	248685072	565549	455	77620											
OR2T10	127069	broad.mit.edu	37	chr1	248756250	248756250	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatagtgtagaaaaaggatgAcatcatatctttctcaggag	15	11	10	5	0	3	2	2	1	2	1	4	5	3	4	0	2	0	1	0	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr1:248756250A>G	uc010pzn.1	-	1	820	c.820T>C	c.(820-822)TCA>CCA	p.S274P		NM_001004693	NP_001004693	Q8NGZ9	O2T10_HUMAN	olfactory receptor, family 2, subfamily T,	274	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AAAAAGGATGACATCATATCT	0.428													18	88					0	0	1	0	0		G	248756250	G	G	248756250	3	3	151	1	0	0	0	0	1	0	0	0	11036	275	10	3	121	3	OR2T10	1	248756250	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	71178	248756250	494371	456	77621											
ACP1	52	broad.mit.edu	37	chr2	271876	271876	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttaaaggtaacatttgTcgatcacccattgcagaagc	12	14	7	8	1	1	1	1	0	0	1	2	2	1	1	1	1	3	2	1	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:271876T>C	uc002qwg.2	+	2	150	c.54T>C	c.(52-54)TGT>TGC	p.C18C	ACP1_uc002qwd.2_Silent_p.C18C|ACP1_uc002qwe.3_RNA|ACP1_uc002qwh.2_RNA|ACP1_uc002qwf.2_Silent_p.C18C	NM_007099	NP_009030	P24666	PPAC_HUMAN	acid phosphatase 1, soluble isoform b	18				CLGNICRS -> PARREAAR (in Ref. 5; AAB27085).		cytoplasm|internal side of plasma membrane|nucleus|soluble fraction	acid phosphatase activity|identical protein binding|non-membrane spanning protein tyrosine phosphatase activity			skin(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.00175)|Lung NSC(108;0.216)|all_epithelial(98;0.236)		all cancers(51;0.000391)|Epithelial(75;0.00281)|OV - Ovarian serous cystadenocarcinoma(76;0.00542)|GBM - Glioblastoma multiforme(21;0.127)		GTAACATTTGTCGATCACCCA	0.453													41	168					0	0	1	0	0		C	271876	C	C	271876	2	2	151	1	0	0	0	0	0	0	0	1	162	1673	58	3		3	ACP1	2	271876	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08		271876	242927497	457	77622											
SNTG2	54221	broad.mit.edu	37	chr2	1271265	1271265	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaagagccatgttttcaaCgtggagcttggcagcgagct	9	9	15	8	2	1	1	1	0	0	1	1	4	1	3	1	3	5	4	1	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:1271265C>T	uc002qwq.2	+	14	1334	c.1206C>T	c.(1204-1206)AAC>AAT	p.N402N	SNTG2_uc010ewi.2_Silent_p.N275N	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	402	PH.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		ATGTTTTCAACGTGGAGCTTG	0.512													8	31					0	0	1	0	0		T	1271265	T	T	1271265	2	4	151	1	0	0	0	0	0	0	0	1	14900	535	19	1		1	SNTG2	2	1271265	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	999389	1271265	241928108	458	77623											
PXDN	7837	broad.mit.edu	37	chr2	1652950	1652950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgggccccgctcctggcccGggagtcattgggggggatca	4	6	18	13	3	2	0	2	0	0	0	3	2	3	2	4	6	0	1	4	6	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:1652950G>A	uc002qxa.2	-	17	2666	c.2602C>T	c.(2602-2604)CGG>TGG	p.R868W		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	868					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CTCCTGGCCCGGGAGTCATTG	0.662													3	7					0	0	1	0	0		A	1652950	A	A	1652950	3	1	151	1	0	0	0	0	1	0	0	0	12872	1115	39	1	1865	1	PXDN	2	1652950	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	381685	1652950	241546423	459	77624											
RNF144A	9781	broad.mit.edu	37	chr2	7170296	7170296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actacgataagggaccctgcCggaacaagctgggccactcc	11	5	11	14	2	0	0	0	0	0	0	1	3	1	2	4	3	4	1	4	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:7170296C>T	uc002qys.2	+	8	1139	c.697C>T	c.(697-699)CGG>TGG	p.R233W	RNF144A_uc002qyt.2_Missense_Mutation_p.R82W	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	233						Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		GGGACCCTGCCGGAACAAGCT	0.522													22	117					0	0	1	0	0		T	7170296	T	T	7170296	3	4	151	1	0	0	0	0	1	0	0	0	13470	643	23	1	719	1	RNF144A	2	7170296	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5517346	7170296	236029077	460	77625											
KIDINS220	57498	broad.mit.edu	37	chr2	8871241	8871241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgaacaaatggacatcCgagctataattggatcttgc	12	12	8	9	1	2	1	0	1	2	0	3	4	3	3	1	2	3	1	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:8871241C>T	uc002qzc.2	-	30	5107	c.4925G>A	c.(4924-4926)CGG>CAG	p.R1642Q	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Missense_Mutation_p.R1543Q|KIDINS220_uc002qzb.2_Missense_Mutation_p.R496Q	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1642	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					AATGGACATCCGAGCTATAAT	0.493													30	116					0	0	1	0	0		T	8871241	T	T	8871241	3	4	151	1	0	0	0	0	1	0	0	0	8287	652	23	1	394	1	KIDINS220	2	8871241	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1700945	8871241	234328132	461	77626											
KIDINS220	57498	broad.mit.edu	37	chr2	8871508	8871508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgtgttctggagacttcGgcactctctctactttccct	5	15	7	14	1	3	1	0	0	3	1	6	2	4	1	1	2	1	2	1	2	1	4	rs76169344	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:8871508G>A	uc002qzc.2	-	30	4840	c.4658C>T	c.(4657-4659)CCG>CTG	p.P1553L	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Missense_Mutation_p.P1454L|KIDINS220_uc002qzb.2_Missense_Mutation_p.P407L	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1553	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TGGAGACTTCGGCACTCTCTC	0.453													55	181					0	0	1	0	0		A	8871508	A	A	8871508	3	1	151	1	0	0	0	0	1	0	0	0	8287	1116	39	1	661	1	KIDINS220	2	8871508	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	267	8871508	234327865	462	77627											
KIDINS220	57498	broad.mit.edu	37	chr2	8967216	8967216	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacgctctgtgatatcaaaActgacattttcacagaaagc	14	11	7	9	1	3	4	2	3	1	1	3	4	3	4	0	0	2	1	0	0	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:8967216A>G	uc002qzc.2	-	2	190	c.8T>C	c.(7-9)GTT>GCT	p.V3A	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_5'UTR|KIDINS220_uc010yiw.1_Missense_Mutation_p.V3A	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	3	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TGATATCAAAACTGACATTTT	0.284													18	47					0	0	1	0	0		G	8967216	G	G	8967216	3	3	151	1	0	0	0	0	1	0	0	0	8287	43	2	3	5423	3	KIDINS220	2	8967216	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	95708	8967216	234232157	463	77628											
ADAM17	6868	broad.mit.edu	37	chr2	9630364	9630364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagtttaaaggaggcaGccttttcacttctggtgacc	8	12	11	10	0	2	1	1	1	1	0	2	2	2	2	2	3	2	4	2	3	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:9630364G>A	uc002qzu.2	-	19	2600	c.2417C>T	c.(2416-2418)GCT>GTT	p.A806V	IAH1_uc010yiz.1_Intron|ADAM17_uc010ewy.2_Missense_Mutation_p.A789V|ADAM17_uc010ewz.2_Missense_Mutation_p.A149V	NM_003183	NP_003174	P78536	ADA17_HUMAN	a disintegrin and metalloprotease domain 17	806	Cytoplasmic (Potential).				B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			lung(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)		AAAGGAGGCAGCCTTTTCACT	0.463													24	66					0	0	1	0	0		A	9630364	A	A	9630364	3	1	151	1	0	0	0	0	1	0	0	0	238	971	34	2	61	2	ADAM17	2	9630364	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	663148	9630364	233569009	464	77629											
YWHAQ	10971	broad.mit.edu	37	chr2	9727550	9727550	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaaacaactcactgttaggTtgtctctaagcaactgcatg	12	12	8	9	0	2	0	1	0	1	0	3	0	2	0	0	1	5	5	0	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:9727550T>C	uc002qzw.2	-	4	835	c.671A>G	c.(670-672)AAC>AGC	p.N224S	YWHAQ_uc002qzx.2_Missense_Mutation_p.N224S	NM_006826	NP_006817	P27348	1433T_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	224					negative regulation of transcription, DNA-dependent	centrosome|nucleus	protein N-terminus binding			breast(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.241)		CACTGTTAGGTTGTCTCTAAG	0.328													27	106					0	0	1	0	0		C	9727550	C	C	9727550	3	2	151	1	0	0	0	0	1	0	0	0	17531	1725	60	3	74	3	YWHAQ	2	9727550	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	97186	9727550	233471823	465	77630											
RRM2	6241	broad.mit.edu	37	chr2	10269216	10269216	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcattgggatgaattgcActctaatgaagcaatacatt	14	12	8	7	0	2	2	1	2	1	0	2	3	2	3	0	1	4	3	0	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:10269216A>G	uc002rah.2	+	9	1143	c.952A>G	c.(952-954)ACT>GCT	p.T318A		NM_001034	NP_001025	P31350	RIR2_HUMAN	ribonucleotide reductase M2 polypeptide isoform	318					deoxyribonucleoside diphosphate metabolic process|deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol	ribonucleoside-diphosphate reductase activity|transition metal ion binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.188)|OV - Ovarian serous cystadenocarcinoma(76;0.221)		GATGAATTGCACTCTAATGAA	0.403													62	252					0	0	1	0	0		G	10269216	G	G	10269216	3	3	151	1	0	0	0	0	1	0	0	0	13707	159	6	3	1166	3	RRM2	2	10269216	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	541666	10269216	232930157	466	77631											
NOL10	79954	broad.mit.edu	37	chr2	10822127	10822127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtactgtccatcttttgAcaccttaatagtggtacaca	12	14	6	9	0	1	1	0	1	1	0	2	1	2	1	2	1	2	2	2	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:10822127A>G	uc002raq.2	-	3	306	c.181T>C	c.(181-183)TCA>CCA	p.S61P	NOL10_uc010yje.1_Missense_Mutation_p.S61P|NOL10_uc010yjf.1_Missense_Mutation_p.S11P|NOL10_uc002rap.2_Missense_Mutation_p.S61P|NOL10_uc002rar.2_5'UTR	NM_024894	NP_079170	Q9BSC4	NOL10_HUMAN	nucleolar protein 10	61	WD 1.					nucleolus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.207)		CCATCTTTTGACACCTTAATA	0.358													4	27					0	0	1	0	0		G	10822127	G	G	10822127	3	3	151	1	0	0	0	0	1	0	0	0	10539	275	10	3	1961	3	NOL10	2	10822127	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	552911	10822127	232377246	467	77632											
PQLC3	130814	broad.mit.edu	37	chr2	11312126	11312126	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagacgagagactcaggaActgtgagtgcgctgacttgg	11	7	16	7	2	1	4	1	2	0	2	1	8	1	6	0	3	2	1	0	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:11312126A>G	uc002rbc.2	+	5	563	c.430A>G	c.(430-432)ACT>GCT	p.T144A	PQLC3_uc010yjk.1_Missense_Mutation_p.T144A	NM_152391	NP_689604	Q8N755	PQLC3_HUMAN	PQ loop repeat containing 3 precursor	144						integral to membrane					0	all_hematologic(175;0.0797)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.0978)|OV - Ovarian serous cystadenocarcinoma(76;0.132)		AGACTCAGGAACTGTGAGTGC	0.493													22	94					0	0	1	0	0		G	11312126	G	G	11312126	3	3	151	1	0	0	0	0	1	0	0	0	12442	43	2	3	448	3	PQLC3	2	11312126	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	489999	11312126	231887247	468	77633											
NBAS	51594	broad.mit.edu	37	chr2	15358989	15358989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcaggtgaaatgattgccCcaaaatctgcagcacgtgaa	14	8	10	9	1	2	3	1	3	1	0	2	3	2	3	2	1	3	2	2	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:15358989C>T	uc002rcc.1	-	48	6366	c.6340G>A	c.(6340-6342)GGG>AGG	p.G2114R	NBAS_uc002rcb.1_Intron|NBAS_uc010exl.1_Missense_Mutation_p.G1186R|NBAS_uc002rcd.1_Intron	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	2114										ovary(2)|liver(1)|skin(1)	4						AATGATTGCCCCAAAATCTGC	0.577													9	115					0	0	1	0	0		T	15358989	T	T	15358989	3	4	151	1	0	0	0	0	1	0	0	0	10204	623	22	4	795	4	NBAS	2	15358989	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4046863	15358989	227840384	469	77634											
SMC6	79677	broad.mit.edu	37	chr2	17896257	17896257	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcatgattatggcaacaaTaggcctgcagaagccctttt	12	10	9	10	0	0	2	0	1	0	1	0	2	0	2	2	2	4	3	2	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:17896257T>C	uc002rco.2	-	16	1897	c.1601A>G	c.(1600-1602)TAT>TGT	p.Y534C	SMC6_uc010exo.2_Missense_Mutation_p.Y534C|SMC6_uc002rcn.2_Missense_Mutation_p.Y534C|SMC6_uc002rcp.1_Missense_Mutation_p.Y560C|SMC6_uc002rcq.2_Missense_Mutation_p.Y560C	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	534	Flexible hinge.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					ATGGCAACAATAGGCCTGCAG	0.428													33	184					0	0	1	0	0		C	17896257	C	C	17896257	3	2	151	1	0	0	0	0	1	0	0	0	14812	1406	49	3	1726	3	SMC6	2	17896257	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2537268	17896257	225303116	470	77635											
RHOB	388	broad.mit.edu	37	chr2	20647623	20647623	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtccgcacagagctggccCgcatgaagcaggaacccgtg	10	5	13	13	3	0	2	0	1	0	1	1	3	1	3	3	2	3	4	3	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:20647623C>A	uc002rdv.2	+	1	789	c.397C>A	c.(397-399)CGC>AGC	p.R133S		NM_004040	NP_004031	P62745	RHOB_HUMAN	ras homolog gene family, member B precursor	133					angiogenesis|axon guidance|cell adhesion|endosome to lysosome transport|negative regulation of cell cycle|platelet activation|positive regulation of angiogenesis|protein transport|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|transformed cell apoptosis	cytosol|late endosome membrane|nucleus|plasma membrane	GTP binding|GTPase activity|protein binding			ovary(1)|lung(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)	all_epithelial(98;4.19e-09)|Lung NSC(108;0.00452)|Ovarian(717;0.0164)		OV - Ovarian serous cystadenocarcinoma(76;1.14e-22)|Epithelial(75;7.84e-19)		AGAGCTGGCCCGCATGAAGCA	0.622													4	117					0.184627	0.184763	1	1	0		A	20647623	A	A	20647623	3	1	151	1	0	0	0	0	1	0	0	0	13357	652	23	5	399	5	RHOB	2	20647623	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2751366	20647623	222551750	471	77636											
APOB	338	broad.mit.edu	37	chr2	21242613	21242613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctggtgtccccggtcagcGgatagtaggaggcggagtct	7	8	16	10	3	2	0	1	0	1	0	3	3	3	3	3	6	1	1	3	6	2	2	rs41288783	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:21242613G>A	uc002red.2	-	19	3109	c.2981C>T	c.(2980-2982)CCG>CTG	p.P994L		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	994					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CCCGGTCAGCGGATAGTAGGA	0.542													9	39					0	0	1	0	0		A	21242613	A	A	21242613	3	1	151	1	0	0	0	0	1	0	0	0	785	1116	39	1	10754	1	APOB	2	21242613	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	594990	21242613	221956760	472	77637											
ITSN2	50618	broad.mit.edu	37	chr2	24480829	24480829	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatcctcttcctccatgcAcctccccaaaccaccaattt	10	10	1	20	0	1	0	0	0	1	0	5	0	5	0	9	0	2	1	9	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:24480829A>G	uc002rfe.2	-	23	3074	c.2816T>C	c.(2815-2817)GTG>GCG	p.V939A	ITSN2_uc002rff.2_Missense_Mutation_p.V912A|ITSN2_uc002rfg.2_Missense_Mutation_p.V939A|ITSN2_uc002rfh.1_RNA	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	939	SH3 2.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCTCCATGCACCTCCCCAAA	0.408													34	150					0	0	1	0	0		G	24480829	G	G	24480829	3	3	151	1	0	0	0	0	1	0	0	0	7943	159	6	3	2400	3	ITSN2	2	24480829	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3238216	24480829	218718544	473	77638											
ITSN2	50618	broad.mit.edu	37	chr2	24480952	24480952	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtgcttttaagttttctAccacttgtccctatgaatac	8	17	5	11	0	1	1	0	1	1	0	2	1	2	1	3	0	3	2	3	0	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:24480952A>G	uc002rfe.2	-	23	2951	c.2693T>C	c.(2692-2694)GTA>GCA	p.V898A	ITSN2_uc002rff.2_Missense_Mutation_p.V871A|ITSN2_uc002rfg.2_Missense_Mutation_p.V898A|ITSN2_uc002rfh.1_RNA	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	898	SH3 2.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TAAGTTTTCTACCACTTGTCC	0.348													18	119					0	0	1	0	0		G	24480952	G	G	24480952	3	3	151	1	0	0	0	0	1	0	0	0	7943	391	14	3	2523	3	ITSN2	2	24480952	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	123	24480952	218718421	474	77639											
NCOA1	8648	broad.mit.edu	37	chr2	24888673	24888673	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttagaagaactagctgagTtactgtctgccaacattagt	13	13	8	7	0	1	3	0	1	1	2	1	3	1	3	1	0	5	2	1	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:24888673T>A	uc002rfk.2	+	4	403	c.145T>A	c.(145-147)TTA>ATA	p.L49I	NCOA1_uc010eye.2_Missense_Mutation_p.L49I|NCOA1_uc002rfi.2_Intron|NCOA1_uc002rfj.2_Missense_Mutation_p.L49I|NCOA1_uc002rfl.2_Missense_Mutation_p.L49I	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	49	Helix-loop-helix motif.|LXXLL motif 1.								PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACTAGCTGAGTTACTGTCTGC	0.378			T	PAX3	alveolar rhadomyosarcoma								28	108					0	0	1	0	0		A	24888673	A	A	24888673	3	1	151	1	0	0	0	0	1	0	0	0	10247	1722	60	5	151	5	NCOA1	2	24888673	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	407721	24888673	218310700	475	77640											
NCOA1	8648	broad.mit.edu	37	chr2	24928022	24928022	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgatgggacaatgcttagCgcccacaccaagtgtaaact	14	8	9	10	1	0	1	0	1	0	0	0	2	0	2	2	1	3	2	2	1	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:24928022C>T	uc002rfk.2	+	10	1275	c.1017C>T	c.(1015-1017)AGC>AGT	p.S339S	NCOA1_uc010eye.2_Silent_p.S339S|NCOA1_uc002rfi.2_Silent_p.S188S|NCOA1_uc002rfj.2_Silent_p.S339S|NCOA1_uc002rfl.2_Silent_p.S339S	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	339									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAATGCTTAGCGCCCACACCA	0.433			T	PAX3	alveolar rhadomyosarcoma								28	142					0	0	1	0	0		T	24928022	T	T	24928022	2	4	151	1	0	0	0	0	0	0	0	1	10247	767	27	1		1	NCOA1	2	24928022	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	39349	24928022	218271351	476	77641											
CENPO	79172	broad.mit.edu	37	chr2	25039542	25039542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgcagccctcctgactgggCccttgcagagaaacccactg	8	8	10	15	0	0	2	0	1	0	1	1	3	1	2	4	1	4	2	4	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:25039542C>T	uc002rfo.1	+	6	811	c.622C>T	c.(622-624)CCC>TCC	p.P208S	CENPO_uc002rfp.1_Missense_Mutation_p.P202S|CENPO_uc002rfq.1_Missense_Mutation_p.P208S	NM_024322	NP_077298	Q9BU64	CENPO_HUMAN	centromere protein O	208					cell division|CenH3-containing nucleosome assembly at centromere|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					CCTGACTGGGCCCTTGCAGAG	0.488													150	618					0	0	1	0	0		T	25039542	T	T	25039542	3	4	151	1	0	0	0	0	1	0	0	0	3242	739	26	2	640	2	CENPO	2	25039542	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	111520	25039542	218159831	477	77642											
POMC	5443	broad.mit.edu	37	chr2	25387620	25387620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaacagggcccccgagcGgctgcagcacgatctcggca	9	3	13	16	4	1	0	0	0	1	0	2	2	1	0	2	3	5	5	2	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:25387620G>A	uc002rfy.1	-	3	285	c.22C>T	c.(22-24)CGC>TGC	p.R8C	POMC_uc002rfz.1_Missense_Mutation_p.R8C|POMC_uc002rga.1_Missense_Mutation_p.R8C	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	8					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)	GCCCCCGAGCGGCTGCAGCAC	0.607													15	56					0	0	1	0	0		A	25387620	A	A	25387620	3	1	151	1	0	0	0	0	1	0	0	0	12261	1116	39	1	789	1	POMC	2	25387620	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	348078	25387620	217811753	478	77643											
DNMT3A	1788	broad.mit.edu	37	chr2	25468893	25468893	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcaacaaacttaccctcAatgttccggcacttctgccg	10	9	7	15	2	2	0	1	0	1	0	3	0	3	0	3	2	4	3	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:25468893A>G	uc002rgc.2	-	12	1727	c.1470T>C	c.(1468-1470)ATT>ATC	p.I490I	DNMT3A_uc002rgd.2_Silent_p.I490I|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Silent_p.I301I	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	490	ADD.				regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACTTACCCTCAATGTTCCGGC	0.607			Mis|F|N|S		AML								23	56					0	0	1	0	0		G	25468893	G	G	25468893	2	3	151	1	0	0	0	0	0	0	0	1	4682	126	5	3		3	DNMT3A	2	25468893	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	81273	25468893	217730480	479	77644											
C2orf18	54978	broad.mit.edu	37	chr2	27000990	27000990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctccttcagcggaaaccctCgtgggacactggaggatgca	9	7	13	12	2	1	0	1	0	0	0	3	4	2	4	2	4	3	2	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:27000990C>T	uc002rhp.1	+	6	803	c.727C>T	c.(727-729)CGT>TGT	p.R243C	C2orf18_uc002rhq.1_Missense_Mutation_p.R160C|C2orf18_uc010eyo.1_Missense_Mutation_p.R190C|C2orf18_uc010ylc.1_Missense_Mutation_p.R96C	NM_017877	NP_060347	Q8N357	CB018_HUMAN	ANT2-binding protein precursor	243						integral to membrane|lysosomal membrane					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGGAAACCCTCGTGGGACACT	0.602													15	81					0	0	1	0	0		T	27000990	T	T	27000990	3	4	151	1	0	0	0	0	1	0	0	0	2161	884	31	1	749	1	C2orf18	2	27000990	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1532097	27000990	216198383	480	77645											
TMEM214	54867	broad.mit.edu	37	chr2	27262941	27262941	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggggctcccacctgctcAccgtggtgcggcccagcttg	3	9	13	16	2	2	0	1	0	1	0	3	0	3	0	4	4	3	3	4	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:27262941A>G	uc002ria.3	+	15	1776	c.1666A>G	c.(1666-1668)ACC>GCC	p.T556A	TMEM214_uc010yle.1_RNA|TMEM214_uc002rib.3_Missense_Mutation_p.T511A	NM_017727	NP_060197	Q6NUQ4	TM214_HUMAN	transmembrane protein 214 isoform 1	556						integral to membrane	protein binding				0						CCACCTGCTCACCGTGGTGCG	0.627													8	64					0	0	1	0	0		G	27262941	G	G	27262941	3	3	151	1	0	0	0	0	1	0	0	0	16162	159	6	3	1724	3	TMEM214	2	27262941	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	261951	27262941	215936432	481	77646											
EMILIN1	11117	broad.mit.edu	37	chr2	27305042	27305042	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggggcgtcctgcaaggActgagcgggcgcctggcaga	6	5	18	12	4	0	2	0	1	0	1	1	3	1	3	2	5	3	2	2	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:27305042A>G	uc002rii.3	+	4	1031	c.603A>G	c.(601-603)GGA>GGG	p.G201G	EMILIN1_uc010eyq.1_Silent_p.G201G|EMILIN1_uc002rik.3_5'Flank	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	201					cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCTGCAAGGACTGAGCGGGC	0.672													7	35					0	0	1	0	0		G	27305042	G	G	27305042	2	3	151	1	0	0	0	0	0	0	0	1	5101	262	10	3		3	EMILIN1	2	27305042	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	42101	27305042	215894331	482	77647											
ABHD1	84696	broad.mit.edu	37	chr2	27351433	27351433	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacaaagcatcttccaagTcctcctgcagtctcagcccc	10	9	5	17	0	2	0	1	0	2	0	6	0	5	0	5	0	4	2	5	0	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:27351433T>C	uc002rit.2	+	2	399	c.239T>C	c.(238-240)GTC>GCC	p.V80A	ABHD1_uc002riu.2_RNA|ABHD1_uc002riv.2_Intron	NM_032604	NP_115993	Q96SE0	ABHD1_HUMAN	abhydrolase domain-containing protein 1	80						integral to membrane	carboxylesterase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATCTTCCAAGTCCTCCTGCAG	0.507													32	173					0	0	1	0	0		C	27351433	C	C	27351433	3	2	151	1	0	0	0	0	1	0	0	0	73	1667	58	3	245	3	ABHD1	2	27351433	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	46391	27351433	215847940	483	77648											
SLC5A6	8884	broad.mit.edu	37	chr2	27430127	27430127	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttctgtccctgctcaccTcataggcactggtgagatgc	6	11	9	15	0	3	1	2	1	1	1	4	2	4	1	3	2	2	2	3	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:27430127T>C	uc002rjd.2	-	3	783	c.392A>G	c.(391-393)GAG>GGG	p.E131G	SLC5A6_uc010eyv.1_Missense_Mutation_p.E131G|SLC5A6_uc002rje.1_Missense_Mutation_p.E131G	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	131					biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	CCTGCTCACCTCATAGGCACT	0.577													10	45					0	0	1	0	0		C	27430127	C	C	27430127	3	2	151	1	0	0	0	0	1	0	0	0	14694	1565	54	3	1575	3	SLC5A6	2	27430127	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	78694	27430127	215769246	484	77649											
C2orf28	51374	broad.mit.edu	37	chr2	27439752	27439752	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttcttcgggattctgggagCcaccactctatccgtctcca	6	12	9	14	2	4	0	0	0	4	0	7	2	5	2	4	2	1	1	4	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:27439752C>A	uc002rjf.2	+	7	964	c.791C>A	c.(790-792)GCC>GAC	p.A264D	C2orf28_uc002rjg.2_Missense_Mutation_p.A151D|C2orf28_uc002rjh.2_RNA|CAD_uc002rji.2_5'Flank|CAD_uc010eyw.2_5'Flank	NM_080592	NP_542159	Q6UW56	APR3_HUMAN	apoptosis related protein 3 isoform b	209	Helical; (Potential).					integral to membrane|plasma membrane				skin(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATTCTGGGAGCCACCACTCTA	0.493													12	68					1.5842e-08	1.62488e-08	1	1	0		A	27439752	A	A	27439752	3	1	151	1	0	0	0	0	1	0	0	0	2163	739	26	5	817	5	C2orf28	2	27439752	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	9625	27439752	215759621	485	77650											
CAD	790	broad.mit.edu	37	chr2	27444118	27444118	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggcatccacgtagcagcActggtagtgggagagtgctg	8	8	16	9	2	0	1	0	0	0	1	2	2	1	1	1	3	3	6	1	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:27444118A>G	uc002rji.2	+	3	417	c.255A>G	c.(253-255)GCA>GCG	p.A85A	CAD_uc010eyw.2_Silent_p.A85A	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	85	GATase (Glutamine amidotransferase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	ACGTAGCAGCACTGGTAGTGG	0.542													11	41					0	0	1	0	0		G	27444118	G	G	27444118	2	3	151	1	0	0	0	0	0	0	0	1	2568	146	6	3		3	CAD	2	27444118	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4366	27444118	215755255	486	77651											
SNX17	9784	broad.mit.edu	37	chr2	27598544	27598544	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaggctccttccgggtcAcccgcatgcgatgctggcgg	6	7	15	13	4	1	1	1	0	0	1	3	3	3	1	3	4	2	3	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:27598544A>G	uc002rkg.1	+	10	1168	c.946A>G	c.(946-948)ACC>GCC	p.T316A	SNX17_uc010ylj.1_Missense_Mutation_p.T296A|SNX17_uc010ylk.1_Missense_Mutation_p.T102A|SNX17_uc010eza.1_Missense_Mutation_p.T102A|SNX17_uc002rki.1_RNA|SNX17_uc002rkh.1_Missense_Mutation_p.T102A|SNX17_uc010yll.1_Missense_Mutation_p.T102A|SNX17_uc010ylm.1_Missense_Mutation_p.T102A|SNX17_uc010yln.1_Missense_Mutation_p.T304A|SNX17_uc010ylo.1_Missense_Mutation_p.T234A|SNX17_uc010ylp.1_Missense_Mutation_p.T291A|SNX17_uc010ylq.1_Missense_Mutation_p.T102A	NM_014748	NP_055563	Q15036	SNX17_HUMAN	sorting nexin 17	316					cell communication|endosome transport|intracellular protein transport|regulation of endocytosis|signal transduction	cytoplasmic vesicle membrane|cytosol|early endosome|Golgi apparatus	low-density lipoprotein particle receptor binding|phosphatidylinositol binding|protein C-terminus binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTCCGGGTCACCCGCATGCG	0.652													14	59					0	0	1	0	0		G	27598544	G	G	27598544	3	3	151	1	0	0	0	0	1	0	0	0	14913	159	6	3	984	3	SNX17	2	27598544	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	154426	27598544	215600829	487	77652											
IFT172	26160	broad.mit.edu	37	chr2	27670413	27670413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactctgggctgcagagcgcGtggcatagtaatgagcgatc	9	8	14	10	3	1	2	0	1	1	1	2	3	1	2	0	2	3	4	0	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:27670413G>A	uc002rku.2	-	42	4679	c.4628C>T	c.(4627-4629)ACG>ATG	p.T1543M	IFT172_uc010ezb.2_RNA	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	1543					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					TGCAGAGCGCGTGGCATAGTA	0.512													36	132					0	0	1	0	0		A	27670413	A	A	27670413	3	1	151	1	0	0	0	0	1	0	0	0	7573	1145	40	1	649	1	IFT172	2	27670413	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	71869	27670413	215528960	488	77653											
C2orf16	84226	broad.mit.edu	37	chr2	27802997	27802997	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtatcgtgaaagagatagAcccgtcatacggagaagccc	15	6	11	9	3	1	4	1	1	0	3	2	6	1	4	2	1	2	1	2	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:27802997A>G	uc002rkz.3	+	1	3609	c.3558A>G	c.(3556-3558)AGA>AGG	p.R1186R	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1186										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					AAAGAGATAGACCCGTCATAC	0.443													29	110					0	0	1	0	0		G	27802997	G	G	27802997	2	3	151	1	0	0	0	0	0	0	0	1	2160	272	10	3		3	C2orf16	2	27802997	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	132584	27802997	215396376	489	77654											
GPN1	11321	broad.mit.edu	37	chr2	27854759	27854759	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaatctctttgctaccagaTttgatcaggtatatctgtct	9	17	6	9	0	5	2	2	1	3	1	6	2	5	2	1	1	2	2	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:27854759T>C	uc010ymc.1	+	4	367	c.346T>C	c.(346-348)TTT>CTT	p.F116L	ZNF512_uc010yly.1_RNA|CCDC121_uc002rle.2_5'Flank|GPN1_uc010ezf.2_Missense_Mutation_p.F90L|GPN1_uc010yma.1_Missense_Mutation_p.F23L|GPN1_uc010ymb.1_Intron|GPN1_uc010ymd.1_Intron|GPN1_uc010yme.1_Missense_Mutation_p.F116L|GPN1_uc010ezg.1_Intron	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	102						cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						TGCTACCAGATTTGATCAGGT	0.378													45	165					0	0	1	0	0		C	27854759	C	C	27854759	3	2	151	1	0	0	0	0	1	0	0	0	6632	1493	52	3	443	3	GPN1	2	27854759	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	51762	27854759	215344614	490	77655											
MRPL33	9553	broad.mit.edu	37	chr2	27994648	27994648	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccaggtgtggtcaccatgTtcctctccgcggtcttctgt	3	13	11	14	2	4	0	1	0	3	0	6	0	5	0	4	3	0	1	4	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:27994648T>C	uc002rlm.1	+	1	65	c.4T>C	c.(4-6)TTC>CTC	p.F2L	MRPL33_uc002rln.1_Missense_Mutation_p.F2L	NM_004891	NP_004882	O75394	RM33_HUMAN	mitochondrial ribosomal protein L33 isoform a	2					translation	mitochondrion|ribosome	structural constituent of ribosome				0	Acute lymphoblastic leukemia(172;0.155)					GGTCACCATGTTCCTCTCCGC	0.652													6	21					0	0	1	0	0		C	27994648	C	C	27994648	3	2	151	1	0	0	0	0	1	0	0	0	9814	1725	60	3	6	3	MRPL33	2	27994648	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	139889	27994648	215204725	491	77656											
RBKS	64080	broad.mit.edu	37	chr2	28081321	28081321	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaccttacacaccatggaCgtcattgctccaagccgagc	10	9	7	15	2	1	0	1	0	0	0	2	2	2	1	4	1	5	1	4	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:28081321C>T	uc002rlo.1	-	2	218	c.207G>A	c.(205-207)ACG>ACA	p.T69T	RBKS_uc010ezi.1_Silent_p.T2T|RBKS_uc010ymg.1_Silent_p.T69T	NM_022128	NP_071411	Q9H477	RBSK_HUMAN	ribokinase	69					D-ribose metabolic process		ATP binding|ribokinase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)					ACACCATGGACGTCATTGCTC	0.408													24	68					0	0	1	0	0		T	28081321	T	T	28081321	2	4	151	1	0	0	0	0	0	0	0	1	13133	523	19	1		1	RBKS	2	28081321	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	86673	28081321	215118052	492	77657											
FOSL2	2355	broad.mit.edu	37	chr2	28631696	28631696	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggctgcagccaagtgccGgaaccgacgccgggagctga	8	4	16	13	4	0	1	0	1	0	0	0	4	0	3	4	3	5	4	4	3	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:28631696G>A	uc002rma.2	+	3	1234	c.425G>A	c.(424-426)CGG>CAG	p.R142Q	FOSL2_uc010ymi.1_Missense_Mutation_p.R103Q	NM_005253	NP_005244	P15408	FOSL2_HUMAN	FOS-like antigen 2	142	Basic motif.				cell death|regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(172;0.155)					GCCAAGTGCCGGAACCGACGC	0.637													4	16					0	0	1	0	0		A	28631696	A	A	28631696	3	1	151	1	0	0	0	0	1	0	0	0	6002	1116	39	1	435	1	FOSL2	2	28631696	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	550375	28631696	214567677	493	77658											
WDR43	23160	broad.mit.edu	37	chr2	29124900	29124900	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagaagctgtaggaatgagTaaccagactgacttattggc	13	10	11	7	0	1	4	1	2	0	2	1	5	1	5	1	2	2	3	1	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:29124900T>C	uc002rmo.2	+	2	305	c.273T>C	c.(271-273)AGT>AGC	p.S91S		NM_015131	NP_055946	Q15061	WDR43_HUMAN	WD repeat domain 43	91	WD 2.					nucleolus				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TAGGAATGAGTAACCAGACTG	0.338													16	120					0	0	1	0	0		C	29124900	C	C	29124900	2	2	151	1	0	0	0	0	0	0	0	1	17321	1635	57	3		3	WDR43	2	29124900	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	493204	29124900	214074473	494	77659											
ALK	238	broad.mit.edu	37	chr2	29498087	29498087	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctgcaggatcttgtcctctCcgctaactgcaatagagaag	10	11	9	11	1	3	1	0	0	3	1	5	3	4	2	2	1	3	3	2	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:29498087C>T	uc002rmy.2	-	11	2826	c.1919G>A	c.(1918-1920)GGA>GAA	p.G640E		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	640	Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	CTTGTCCTCTCCGCTAACTGC	0.493			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				30	91					0	0	1	0	0		T	29498087	T	T	29498087	3	4	151	1	0	0	0	0	1	0	0	0	525	855	30	4	3019	4	ALK	2	29498087	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	373187	29498087	213701286	495	77660											
LCLAT1	253558	broad.mit.edu	37	chr2	30756115	30756115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgtggaattgcctgatgcGatatagctacctcagattgg	9	12	11	9	1	1	2	1	1	0	1	1	4	1	3	3	2	4	1	3	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:30756115G>A	uc002rnj.2	+	4	622	c.413G>A	c.(412-414)CGA>CAA	p.R138Q	LCLAT1_uc010ymp.1_5'UTR|LCLAT1_uc002rnk.1_Missense_Mutation_p.R138Q|LCLAT1_uc002rnl.2_Missense_Mutation_p.R100Q|LCLAT1_uc010ymq.1_Missense_Mutation_p.R100Q	NM_182551	NP_872357	Q6UWP7	LCLT1_HUMAN	lysocardiolipin acyltransferase 1 isoform 1	138					multicellular organismal development|phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			ovary(2)	2						TGCCTGATGCGATATAGCTAC	0.403													63	295					0	0	1	0	0		A	30756115	A	A	30756115	3	1	151	1	0	0	0	0	1	0	0	0	8693	1058	37	1	423	1	LCLAT1	2	30756115	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1258028	30756115	212443258	496	77661											
BIRC6	57448	broad.mit.edu	37	chr2	32658760	32658760	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagtactacctaaagcttgTatggttggacatgtggactt	10	15	10	6	0	0	0	0	0	0	0	0	2	0	2	1	3	3	4	1	3	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:32658760T>C	uc010ezu.2	+	13	3431	c.3297T>C	c.(3295-3297)TGT>TGC	p.C1099C		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1099					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					CTAAAGCTTGTATGGTTGGAC	0.363													15	39					0	0	1	0	0		C	32658760	C	C	32658760	2	2	151	1	0	0	0	0	0	0	0	1	1439	1644	57	3		3	BIRC6	2	32658760	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1902645	32658760	210540613	497	77662											
BIRC6	57448	broad.mit.edu	37	chr2	32664624	32664624	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaatccatgtcaaggcagTgaatgaaagaggaacagaag	17	8	11	5	0	1	4	1	2	0	2	2	5	2	5	1	2	1	1	1	2	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:32664624T>C	uc010ezu.2	+	16	3814	c.3680T>C	c.(3679-3681)GTG>GCG	p.V1227A		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1227					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					GTCAAGGCAGTGAATGAAAGA	0.403													20	35					0	0	1	0	0		C	32664624	C	C	32664624	3	2	151	1	0	0	0	0	1	0	0	0	1439	1696	59	3	3742	3	BIRC6	2	32664624	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5864	32664624	210534749	498	77663											
LTBP1	4052	broad.mit.edu	37	chr2	33586574	33586574	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctgaagctggtggtgagaActataaaggtcagaatcaag	14	10	12	5	0	3	3	2	2	1	2	3	4	3	3	0	3	2	1	0	3	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:33586574A>G	uc002ros.2	+	28	4265	c.4265A>G	c.(4264-4266)AAC>AGC	p.N1422S	LTBP1_uc002rot.2_Missense_Mutation_p.N1096S|LTBP1_uc002rou.2_Missense_Mutation_p.N1095S|LTBP1_uc002rov.2_Missense_Mutation_p.N1042S|LTBP1_uc010ymz.1_Missense_Mutation_p.N1053S|LTBP1_uc010yna.1_Missense_Mutation_p.N1000S|LTBP1_uc010ynb.1_Missense_Mutation_p.N319S	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1421					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				GGTGGTGAGAACTATAAAGGT	0.388													12	77					0	0	1	0	0		G	33586574	G	G	33586574	3	3	151	1	0	0	0	0	1	0	0	0	9091	43	2	3	4427	3	LTBP1	2	33586574	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	921950	33586574	209612799	499	77664											
VIT	5212	broad.mit.edu	37	chr2	36970392	36970392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtgtgtgtggcgctgccGtacacaggtgagtggttctg	5	11	16	9	2	1	1	0	1	1	0	1	1	1	1	2	3	2	3	2	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:36970392G>A	uc002rpl.2	+	4	489	c.268G>A	c.(268-270)GTA>ATA	p.V90I	VIT_uc002rpk.2_Missense_Mutation_p.V83I|VIT_uc010ynf.1_Missense_Mutation_p.V83I|VIT_uc002rpm.2_Missense_Mutation_p.V83I|VIT_uc010ezv.2_Missense_Mutation_p.V83I|VIT_uc010ezw.2_Missense_Mutation_p.V83I	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	90	LCCL.					proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				TGGCGCTGCCGTACACAGGTG	0.473													20	71					0	0	1	0	0		A	36970392	A	A	36970392	3	1	151	1	0	0	0	0	1	0	0	0	17197	1145	40	1	278	1	VIT	2	36970392	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3383818	36970392	206228981	500	77665											
STRN	6801	broad.mit.edu	37	chr2	37132754	37132754	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgcacttctgtttcattAccttcatctagaaaacatta	11	15	5	10	0	4	1	2	0	2	1	4	1	4	1	1	1	3	3	1	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:37132754A>G	uc002rpn.2	-	4	429	c.420T>C	c.(418-420)GGT>GGC	p.G140G	STRN_uc010ezx.2_Silent_p.G140G	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	140					dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				CTGTTTCATTACCTTCATCTA	0.328													30	118					0	0	1	0	0		G	37132754	G	G	37132754	2	3	151	1	0	0	0	0	0	0	0	1	15354	378	14	3		3	STRN	2	37132754	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	162362	37132754	206066619	501	77666											
QPCT	25797	broad.mit.edu	37	chr2	37594397	37594397	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcagactccaagccagAtttgtcactccagctgatct	9	13	7	12	0	3	3	2	1	1	2	5	3	5	3	3	0	2	2	3	0	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:37594397A>T	uc002rqg.2	+	4	691	c.569A>T	c.(568-570)GAT>GTT	p.D190V	QPCT_uc002rqh.2_Missense_Mutation_p.D141V	NM_012413	NP_036545	Q16769	QPCT_HUMAN	glutaminyl-peptide cyclotransferase precursor	190					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	extracellular region	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|zinc ion binding			central_nervous_system(1)	1		Ovarian(717;0.051)|all_hematologic(82;0.21)				TCCAAGCCAGATTTGTCACTC	0.383													45	211					0	0	1	0	0		T	37594397	T	T	37594397	3	4	151	1	0	0	0	0	1	0	0	0	12899	333	12	5	583	5	QPCT	2	37594397	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	461643	37594397	205604976	502	77667											
FAM82A1	151393	broad.mit.edu	37	chr2	38231304	38231304	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgatcttgaggaaaaccAgaatgctttgaagttctgta	13	13	9	6	0	2	4	0	3	2	1	2	5	2	5	1	1	3	3	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:38231304A>G	uc002rql.2	+	10	1247	c.1124A>G	c.(1123-1125)CAG>CGG	p.Q375R	FAM82A1_uc002rqn.1_Missense_Mutation_p.Q553R|FAM82A1_uc002rqm.2_Missense_Mutation_p.Q230R	NM_144713	NP_653314	Q96LZ7	RMD2_HUMAN	family with sequence similarity 82, member A1	375						cytoplasm|integral to membrane|microtubule|spindle pole	binding			ovary(1)	1						GAGGAAAACCAGAATGCTTTG	0.353													29	144					0	0	1	0	0		G	38231304	G	G	38231304	3	3	151	1	0	0	0	0	1	0	0	0	5644	188	7	3	2152	3	FAM82A1	2	38231304	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	636907	38231304	204968069	503	77668											
ATL2	64225	broad.mit.edu	37	chr2	38525536	38525536	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttttgccatcattgtgcTttataaaatttgcataggtt	10	20	6	5	0	1	0	1	0	0	0	1	0	1	0	1	1	3	3	1	1	5	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:38525536T>C	uc002rqq.2	-	12	1412	c.1382A>G	c.(1381-1383)AAG>AGG	p.K461R	ATL2_uc010ynm.1_Missense_Mutation_p.K443R|ATL2_uc010ynn.1_Missense_Mutation_p.K443R|ATL2_uc010yno.1_Missense_Mutation_p.K290R|ATL2_uc002rqs.2_Missense_Mutation_p.K461R|ATL2_uc002rqr.2_Missense_Mutation_p.K290R	NM_001135673	NP_001129145	Q8NHH9	ATLA2_HUMAN	atlastin GTPase 2 isoform 2	461	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			ovary(1)|kidney(1)|skin(1)	3						ATCATTGTGCTTTATAAAATT	0.413													46	174					0	0	1	0	0		C	38525536	C	C	38525536	3	2	151	1	0	0	0	0	1	0	0	0	1108	1609	56	3	489	3	ATL2	2	38525536	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	294232	38525536	204673837	504	77669											
SOS1	6654	broad.mit.edu	37	chr2	39237753	39237753	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacagagtgaggttggtggTatgtcgaatcattttcagaa	11	12	12	6	1	2	3	2	1	0	2	3	4	2	3	1	3	0	2	1	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:39237753T>C	uc002rrk.3	-	15	2523	c.2482A>G	c.(2482-2484)ACC>GCC	p.T828A	SOS1_uc002rrj.3_Missense_Mutation_p.T442A	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	828	Ras-GEF.				apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				AGGTTGGTGGTATGTCGAATC	0.333									Noonan_syndrome				24	98					0	0	1	0	0		C	39237753	C	C	39237753	3	2	151	1	0	0	0	0	1	0	0	0	14961	1638	57	3	1555	3	SOS1	2	39237753	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	712217	39237753	203961620	505	77670											
COX7A2L	9167	broad.mit.edu	37	chr2	42578469	42578469	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttggtcaggcaggcctcGtttcaggtagacgggcacac	8	9	13	11	2	2	1	2	0	0	1	3	1	2	1	1	5	0	4	1	5	1	3	rs61754513		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:42578469G>A	uc002rsk.2	-	3	290	c.235C>T	c.(235-237)CGA>TGA	p.R79*	COX7A2L_uc002rsl.2_RNA	NM_004718	NP_004709	O14548	COX7R_HUMAN	cytochrome c oxidase subunit VIIa polypeptide 2	79					respiratory electron transport chain	mitochondrial respiratory chain	cytochrome-c oxidase activity|electron carrier activity				0						GGCAGGCCTCGTTTCAGGTAG	0.468													10	49					0	0	1	0	0		A	42578469	A	A	42578469	4	1	151	1	0	0	0	0	0	1	0	0	3784	1153	40	1	113	1	COX7A2L	2	42578469	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3340716	42578469	200620904	506	77671											
LRPPRC	10128	broad.mit.edu	37	chr2	44187750	44187750	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcttgagaaaacatatcActatcagacagacatccatt	16	9	5	11	0	2	3	2	1	0	3	3	4	3	3	2	0	2	1	2	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:44187750A>G	uc002rtr.2	-	13	1570	c.1512T>C	c.(1510-1512)AGT>AGC	p.S504S	LRPPRC_uc010yob.1_Silent_p.S404S	NM_133259	NP_573566	P42704	LPPRC_HUMAN	leucine-rich PPR motif-containing protein	504					mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				AAAACATATCACTATCAGACA	0.343													45	199					0	0	1	0	0		G	44187750	G	G	44187750	2	3	151	1	0	0	0	0	0	0	0	1	8983	156	6	3		3	LRPPRC	2	44187750	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1609281	44187750	199011623	507	77672											
SIX2	10736	broad.mit.edu	37	chr2	45236051	45236051	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggctctccaggatcttgtAgagctcgcggaagttgccgc	6	10	14	11	3	2	1	0	0	2	1	4	3	2	3	2	3	2	4	2	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:45236051A>G	uc002ruo.2	-	1	492	c.199T>C	c.(199-201)TAC>CAC	p.Y67H	SIX2_uc002rup.2_Missense_Mutation_p.Y67H	NM_016932	NP_058628	Q9NPC8	SIX2_HUMAN	SIX homeobox 2	67						nucleus	sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				AGGATCTTGTAGAGCTCGCGG	0.632													13	52					0	0	1	0	0		G	45236051	G	G	45236051	3	3	151	1	0	0	0	0	1	0	0	0	14372	420	15	3	684	3	SIX2	2	45236051	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1048301	45236051	197963322	508	77673											
MSH6	2956	broad.mit.edu	37	chr2	48027122	48027122	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtatgacttcagagtctgAttccattgggttgacaccag	10	12	11	8	0	2	4	1	3	1	1	3	4	3	4	2	2	0	2	2	2	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:48027122A>T	uc002rwd.3	+	4	2152	c.2000A>T	c.(1999-2001)GAT>GTT	p.D667V	MSH6_uc002rwc.2_Missense_Mutation_p.D667V|MSH6_uc010fbj.2_Missense_Mutation_p.D365V|MSH6_uc010yoi.1_Missense_Mutation_p.D537V|MSH6_uc010yoj.1_Missense_Mutation_p.D365V	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	667					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TCAGAGTCTGATTCCATTGGG	0.438			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				56	262					0	0	1	0	0		T	48027122	T	T	48027122	3	4	151	1	0	0	0	0	1	0	0	0	9892	333	12	5	2014	5	MSH6	2	48027122	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2791071	48027122	195172251	509	77674											
MSH6	2956	broad.mit.edu	37	chr2	48027725	48027725	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggaaggattcaaagtaaTgtgtaaaattatagggatca	16	12	10	3	0	3	0	2	0	1	0	3	3	3	3	0	3	0	2	0	3	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:48027725T>C	uc002rwd.3	+	4	2755	c.2603T>C	c.(2602-2604)ATG>ACG	p.M868T	MSH6_uc002rwc.2_Missense_Mutation_p.M868T|MSH6_uc010fbj.2_Missense_Mutation_p.M566T|MSH6_uc010yoi.1_Missense_Mutation_p.M738T|MSH6_uc010yoj.1_Missense_Mutation_p.M566T	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	868					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TTCAAAGTAATGTGTAAAATT	0.378			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				54	186					0	0	1	0	0		C	48027725	C	C	48027725	3	2	151	1	0	0	0	0	1	0	0	0	9892	1464	51	3	2617	3	MSH6	2	48027725	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	603	48027725	195171648	510	77675											
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48808756	48808756	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacagcttgatccatattgTaggctttctgaacccaaggt	11	13	8	9	0	1	2	0	2	1	0	2	2	2	2	2	2	3	3	2	2	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:48808756T>C	uc010yol.1	+	1	1031	c.984T>C	c.(982-984)TGT>TGC	p.C328C	STON1_uc002rwo.3_Silent_p.C328C|STON1_uc010fbm.2_Silent_p.C328C|STON1-GTF2A1L_uc002rwp.1_Silent_p.C328C|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Silent_p.C328C	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	328					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ATCCATATTGTAGGCTTTCTG	0.363													50	205					0	0	1	0	0		C	48808756	C	C	48808756	2	2	151	1	0	0	0	0	0	0	0	1	15342	1644	57	3		3	STON1-GTF2A1L	2	48808756	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	781031	48808756	194390617	511	77676											
FSHR	2492	broad.mit.edu	37	chr2	49190230	49190230	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaagtcagtgaagatgAgcatggccatgcgcttggcg	11	7	16	7	2	1	4	1	2	0	2	1	5	1	5	1	3	2	2	1	3	2	1	rs113877695		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:49190230A>G	uc002rww.2	-	10	1804	c.1730T>C	c.(1729-1731)CTC>CCC	p.L577P	FSHR_uc002rwx.2_Missense_Mutation_p.L515P|FSHR_uc010fbn.2_Missense_Mutation_p.L551P	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	577	Helical; Name=6; (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	AGTGAAGATGAGCATGGCCAT	0.522									Gonadal_Dysgenesis_46_XX				12	35					0	0	1	0	0		G	49190230	G	G	49190230	3	3	151	1	0	0	0	0	1	0	0	0	6087	304	11	3	361	3	FSHR	2	49190230	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	381474	49190230	194009143	512	77677											
NRXN1	9378	broad.mit.edu	37	chr2	50464031	50464031	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggccagtctgtctgctcGtgtactgggtcggtcattag	5	14	13	9	2	3	0	1	0	2	0	5	0	3	0	1	3	2	2	1	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:50464031G>A	uc010fbp.2	-	2	1144	c.337C>T	c.(337-339)CGA>TGA	p.R113*	NRXN1_uc002rxb.3_Nonsense_Mutation_p.R820*|NRXN1_uc010fbq.2_Nonsense_Mutation_p.R1188*|NRXN1_uc002rxe.3_Nonsense_Mutation_p.R1148*|NRXN1_uc002rxc.1_RNA	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	113	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CTGTCTGCTCGTGTACTGGGT	0.473													23	88					0	0	1	0	0		A	50464031	A	A	50464031	4	1	151	1	0	0	0	0	0	1	0	0	10684	1153	40	1	1105	1	NRXN1	2	50464031	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1273801	50464031	192735342	513	77678											
NRXN1	9378	broad.mit.edu	37	chr2	51254957	51254957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagccccccgacgaaaaggCcgctgaacaccgtcatgtcc	10	4	10	17	4	1	1	1	1	0	0	2	3	2	1	6	1	2	2	6	1	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:51254957C>T	uc010fbq.2	-	2	1932	c.455G>A	c.(454-456)GGC>GAC	p.G152D	NRXN1_uc002rxe.3_Missense_Mutation_p.G152D|NRXN1_uc002rxd.1_Missense_Mutation_p.G152D	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GACGAAAAGGCCGCTGAACAC	0.667													8	19					0	0	1	0	0		T	51254957	T	T	51254957	3	4	151	1	0	0	0	0	1	0	0	0	10684	739	26	2	4543	2	NRXN1	2	51254957	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	790926	51254957	191944416	514	77679											
PSME4	23198	broad.mit.edu	37	chr2	54125072	54125072	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtatggcacgaagaggcaAcactcggtcatctctcagca	11	7	10	13	3	3	1	2	0	1	1	5	2	3	1	1	3	2	4	1	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:54125072A>G	uc002rxp.2	-	31	3597	c.3541T>C	c.(3541-3543)TTG>CTG	p.L1181L	PSME4_uc010yop.1_Silent_p.L1067L|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Silent_p.L556L|PSME4_uc010fbv.1_Silent_p.L325L	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	1181	HEAT 3.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			CGAAGAGGCAACACTCGGTCA	0.413													27	154					0	0	1	0	0		G	54125072	G	G	54125072	2	3	151	1	0	0	0	0	0	0	0	1	12731	40	2	3		3	PSME4	2	54125072	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2870115	54125072	189074301	515	77680											
SPTBN1	6711	broad.mit.edu	37	chr2	54873365	54873365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatccaggggcaccagcctcGcattgacgacatctttgaga	11	8	10	12	2	1	2	0	2	1	1	3	4	2	2	3	2	1	2	3	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:54873365G>A	uc002rxu.2	+	23	4868	c.4619G>A	c.(4618-4620)CGC>CAC	p.R1540H	SPTBN1_uc002rxx.2_Missense_Mutation_p.R1527H	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1540	Spectrin 12.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			CACCAGCCTCGCATTGACGAC	0.552													34	142					0	0	1	0	0		A	54873365	A	A	54873365	3	1	151	1	0	0	0	0	1	0	0	0	15144	1087	38	1	4818	1	SPTBN1	2	54873365	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	748293	54873365	188326008	516	77681											
C2orf63	130162	broad.mit.edu	37	chr2	55449384	55449384	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgataccttatcaaaaacaTttcggtatatgatgtaatat	16	15	5	5	1	1	2	1	2	0	0	2	2	1	2	1	1	2	2	1	1	8	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:55449384T>C	uc002ryi.2	-	3	510	c.164A>G	c.(163-165)AAT>AGT	p.N55S	C2orf63_uc002ryh.2_5'UTR|C2orf63_uc002ryj.2_Intron	NM_152385	NP_689598	Q8NHS4	CB063_HUMAN	hypothetical protein LOC130162 isoform 1	55							binding			ovary(2)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(58;0.179)|Lung(47;0.189)			ATCAAAAACATTTCGGTATAT	0.343													30	112					0	0	1	0	0		C	55449384	C	C	55449384	3	2	151	1	0	0	0	0	1	0	0	0	2185	1493	52	3	1640	3	C2orf63	2	55449384	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	576019	55449384	187749989	517	77682											
MTIF2	4528	broad.mit.edu	37	chr2	55470795	55470795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagtcaacaacttcacGtgcccttggctttatagggg	8	11	9	13	1	2	0	2	0	0	0	3	0	3	0	3	3	3	1	3	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:55470795G>A	uc002ryn.2	-	13	2058	c.1321C>T	c.(1321-1323)CGT>TGT	p.R441C	MTIF2_uc010yox.1_Missense_Mutation_p.R110C|MTIF2_uc002ryo.2_Missense_Mutation_p.R441C	NM_001005369	NP_001005369	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	441					regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1						ACAACTTCACGTGCCCTTGGC	0.373													62	206					0	0	1	0	0		A	55470795	A	A	55470795	3	1	151	1	0	0	0	0	1	0	0	0	9952	1145	40	1	882	1	MTIF2	2	55470795	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	21411	55470795	187728578	518	77683											
CCDC88A	55704	broad.mit.edu	37	chr2	55573429	55573429	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcatctaattcatctcggTacattctggcagagcgagca	10	11	10	10	2	4	1	1	0	3	1	5	2	4	1	0	2	4	4	0	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:55573429T>C	uc002ryv.2	-	10	1765	c.923A>G	c.(922-924)TAC>TGC	p.Y308C	CCDC88A_uc010yoz.1_Missense_Mutation_p.Y308C|CCDC88A_uc010ypa.1_Missense_Mutation_p.Y308C|CCDC88A_uc010ypb.1_Missense_Mutation_p.Y210C	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	308	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						TTCATCTCGGTACATTCTGGC	0.318													40	131					0	0	1	0	0		C	55573429	C	C	55573429	3	2	151	1	0	0	0	0	1	0	0	0	2866	1638	57	3	4784	3	CCDC88A	2	55573429	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	102634	55573429	187625944	519	77684											
PAPOLG	64895	broad.mit.edu	37	chr2	61019297	61019297	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtcaatcgaagctcgggcGgacttcaatccaaaagattg	13	9	10	9	3	2	1	2	0	0	1	5	3	3	2	1	2	1	1	1	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:61019297G>T	uc002sai.2	+	17	1783	c.1552G>T	c.(1552-1554)GGA>TGA	p.G518*	PAPOLG_uc002saj.2_Nonsense_Mutation_p.G207*|PAPOLG_uc002sak.2_Nonsense_Mutation_p.G53*|PAPOLG_uc010fch.2_Nonsense_Mutation_p.G207*	NM_022894	NP_075045	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma	518					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(2;0.0797)		LUSC - Lung squamous cell carcinoma(5;1.19e-07)|Lung(5;2.86e-06)|Epithelial(17;0.0768)			AAGCTCGGGCGGACTTCAATC	0.408													28	138					1.55811e-20	1.627e-20	1	1	0		T	61019297	T	T	61019297	4	4	151	1	0	0	0	0	0	1	0	0	11450	1117	39	5	1618	5	PAPOLG	2	61019297	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	5445868	61019297	182180076	520	77685											
COMMD1	150684	broad.mit.edu	37	chr2	62228080	62228080	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctcaaatacacacacctgTtgccattatagagctggaat	14	10	7	10	0	1	1	1	0	0	1	1	2	1	2	2	1	4	3	2	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:62228080T>C	uc002sbp.2	+	2	436	c.425T>C	c.(424-426)GTT>GCT	p.V142A	COMMD1_uc002sbq.1_RNA	NM_152516	NP_689729	Q8N668	COMD1_HUMAN	MURR1	142	COMM.				copper ion homeostasis|negative regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|regulation of proteasomal ubiquitin-dependent protein catabolic process	cell junction|Cul2-RING ubiquitin ligase complex|cytoplasm|nucleolus	copper ion binding|protein homodimerization activity			ovary(1)	1	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;4.73e-07)|Epithelial(17;0.0216)|all cancers(80;0.0934)			CACACACCTGTTGCCATTATA	0.448													17	82					0	0	1	0	0		C	62228080	C	C	62228080	3	2	151	1	0	0	0	0	1	0	0	0	3717	1725	60	3	431	3	COMMD1	2	62228080	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1208783	62228080	180971293	521	77686											
EHBP1	23301	broad.mit.edu	37	chr2	62991483	62991483	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaaacattgaaatcactgTaacactttttaaggtaagtt	16	14	6	5	0	1	2	1	2	0	0	1	2	1	2	0	1	2	3	0	1	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:62991483T>C	uc002sby.2	+	4	727	c.245T>C	c.(244-246)GTA>GCA	p.V82A	EHBP1_uc010fcp.2_Missense_Mutation_p.V82A|EHBP1_uc010fcq.1_Missense_Mutation_p.V82A|EHBP1_uc002sbx.2_Missense_Mutation_p.V82A|EHBP1_uc002sbz.2_Missense_Mutation_p.V82A|EHBP1_uc002scb.2_Missense_Mutation_p.V82A|EHBP1_uc002sca.2_Missense_Mutation_p.V82A	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	82						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			GAAATCACTGTAACACTTTTT	0.343									Hereditary_Prostate_Cancer				34	118					0	0	1	0	0		C	62991483	C	C	62991483	3	2	151	1	0	0	0	0	1	0	0	0	4981	1638	57	3	255	3	EHBP1	2	62991483	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	763403	62991483	180207890	522	77687											
EHBP1	23301	broad.mit.edu	37	chr2	63092036	63092036	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtctacaaaaagaaaaaatAtaagacctgtggatatgagc	20	8	8	5	0	1	3	0	1	1	2	1	4	1	4	1	1	2	0	1	1	9	4	rs139208941		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:63092036A>C	uc002sby.2	+	10	1515	c.1033A>C	c.(1033-1035)ATA>CTA	p.I345L	EHBP1_uc010fcp.2_Missense_Mutation_p.I310L|EHBP1_uc002sbx.2_Missense_Mutation_p.I310L|EHBP1_uc002sbz.2_Missense_Mutation_p.I310L|EHBP1_uc002scb.2_Missense_Mutation_p.I310L	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	345						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			AAGAAAAAATATAAGACCTGT	0.383									Hereditary_Prostate_Cancer				25	174					0	0	1	0	0		C	63092036	C	C	63092036	3	2	151	1	0	0	0	0	1	0	0	0	4981	449	16	5	1067	5	EHBP1	2	63092036	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	100553	63092036	180107337	523	77688											
EHBP1	23301	broad.mit.edu	37	chr2	63176256	63176256	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgatccagatgctgatagaAccactttaaatcatgcagat	14	11	7	9	0	1	5	1	2	0	3	2	5	2	5	2	0	3	2	2	0	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:63176256A>G	uc002sby.2	+	14	2862	c.2380A>G	c.(2380-2382)ACC>GCC	p.T794A	EHBP1_uc010fcp.2_Missense_Mutation_p.T759A|EHBP1_uc002sbz.2_Missense_Mutation_p.T759A|EHBP1_uc002scb.2_Missense_Mutation_p.T759A	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	794						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			TGCTGATAGAACCACTTTAAA	0.348									Hereditary_Prostate_Cancer				12	100					0	0	1	0	0		G	63176256	G	G	63176256	3	3	151	1	0	0	0	0	1	0	0	0	4981	43	2	3	2430	3	EHBP1	2	63176256	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	84220	63176256	180023117	524	77689											
C2orf86	51057	broad.mit.edu	37	chr2	63631685	63631685	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcagctgtcagccatgggCtctttgtctacacttacgga	8	12	10	11	1	3	0	1	0	2	0	3	1	3	1	1	2	5	3	1	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:63631685C>T	uc002sch.2	-	10	1379	c.933G>A	c.(931-933)GAG>GAA	p.E311E	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Silent_p.E152E|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Silent_p.E119E|C2orf86_uc002sci.1_Silent_p.E287E|C2orf86_uc010fcr.1_Silent_p.E201E	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	311					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						CAGCCATGGGCTCTTTGTCTA	0.493													29	111					0	0	1	0	0		T	63631685	T	T	63631685	2	4	151	1	0	0	0	0	0	0	0	1	2204	796	28	2		2	C2orf86	2	63631685	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	455429	63631685	179567688	525	77690											
MDH1	4190	broad.mit.edu	37	chr2	63832446	63832446	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtggcgctgctgtcatcaaGgctcgaaaactatccagtgc	9	9	11	12	3	2	0	2	0	0	0	4	1	3	0	1	2	3	3	1	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:63832446G>T	uc002scj.1	+	7	764	c.708G>T	c.(706-708)AAG>AAT	p.K236N	MDH1_uc010ypv.1_Missense_Mutation_p.K254N|MDH1_uc010ypw.1_Missense_Mutation_p.K141N	NM_005917	NP_005908	P40925	MDHC_HUMAN	cytosolic malate dehydrogenase	236					gluconeogenesis|tricarboxylic acid cycle	centrosome|cytosol	L-malate dehydrogenase activity|malic enzyme activity			kidney(2)	2					NADH(DB00157)	CTGTCATCAAGGCTCGAAAAC	0.493													23	52					1.50039e-11	1.55034e-11	1	1	0		T	63832446	T	T	63832446	3	4	151	1	0	0	0	0	1	0	0	0	9426	991	35	5	734	5	MDH1	2	63832446	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	200761	63832446	179366927	526	77691											
AFTPH	54812	broad.mit.edu	37	chr2	64779360	64779360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attagaagaaatagaatgtgCagttttaaatgatagagaag	19	11	10	1	0	0	5	0	1	0	4	0	6	0	5	0	0	1	2	0	0	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:64779360C>T	uc002sdc.2	+	1	784	c.752C>T	c.(751-753)GCA>GTA	p.A251V	AFTPH_uc002scz.2_Missense_Mutation_p.A251V|AFTPH_uc002sda.2_Missense_Mutation_p.A251V|AFTPH_uc002sdb.2_Missense_Mutation_p.A251V	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	251					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						ATAGAATGTGCAGTTTTAAAT	0.343													20	111					0	0	1	0	0		T	64779360	T	T	64779360	3	4	151	1	0	0	0	0	1	0	0	0	364	710	25	2	754	2	AFTPH	2	64779360	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	946914	64779360	178420013	527	77692											
ACTR2	10097	broad.mit.edu	37	chr2	65482703	65482703	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgttgcgaggatacgccTtcaaccactctgctgatttt	7	15	8	11	2	3	1	1	1	2	0	3	3	3	2	2	1	4	2	2	1	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:65482703T>C	uc002sdq.2	+	6	825	c.610T>C	c.(610-612)TTC>CTC	p.F204L	ACTR2_uc010yqf.1_Missense_Mutation_p.F149L|ACTR2_uc002sdp.2_Missense_Mutation_p.F209L|ACTR2_uc010yqg.1_Missense_Mutation_p.F152L	NM_005722	NP_005713	P61160	ARP2_HUMAN	actin-related protein 2 isoform b	204					cellular component movement	Arp2/3 protein complex|cell projection|cytoplasm	actin binding|ATP binding				0						AGGATACGCCTTCAACCACTC	0.383													48	155					0	0	1	0	0		C	65482703	C	C	65482703	3	2	151	1	0	0	0	0	1	0	0	0	211	1609	56	3	651	3	ACTR2	2	65482703	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	703343	65482703	177716670	528	77693											
WDR92	116143	broad.mit.edu	37	chr2	68352436	68352436	+	RNA	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagaaattgccatcgacagTgagcccttgggccgcatctc	9	10	10	12	2	1	2	0	1	1	1	3	3	1	2	3	1	2	1	3	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:68352436T>C	uc002sed.1	-	9		c.1105A>G						Q96MX6	WDR92_HUMAN	Homo sapiens cDNA FLJ31741 fis, clone NT2RI2007148.						apoptosis|histone lysine methylation		methylated histone residue binding				0						CCATCGACAGTGAGCCCTTGG	0.493													6	160					0	0	1	0	0		C	68352436	C	C	68352436	1	2	151	0	1	0	0	0	0	0	0	0	17365	1711	59	3		3	WDR92	2	68352436	RNA	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2869733	68352436	174846937	529	77694											
FAM136A	84908	broad.mit.edu	37	chr2	70528094	70528094	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctcacaacagctggcgcTgcaccggaacatgagaccct	10	6	10	15	2	1	1	1	1	0	1	2	3	2	2	3	2	4	3	3	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:70528094T>C	uc002sgq.3	-	2	183	c.106A>G	c.(106-108)AGC>GGC	p.S36G	FAM136A_uc010fdp.2_RNA	NM_032822	NP_116211	Q96C01	F136A_HUMAN	hypothetical protein LOC84908	36						mitochondrion	protein binding				0						CAGCTGGCGCTGCACCGGAAC	0.582													5	161					0	0	1	0	0		C	70528094	C	C	70528094	3	2	151	1	0	0	0	0	1	0	0	0	5461	1580	55	3	318	3	FAM136A	2	70528094	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2175658	70528094	172671279	530	77695											
ADD2	119	broad.mit.edu	37	chr2	70915174	70915174	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtatctcacatgcagcCtgcaggtggaagatcttgta	10	11	10	10	0	2	1	1	0	2	1	3	2	2	2	2	2	3	4	2	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:70915174C>A	uc002sgz.2	-	9	1395	c.930G>T	c.(928-930)CAG>CAT	p.Q310H	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Missense_Mutation_p.Q310H|ADD2_uc002sha.2_Intron|ADD2_uc002sgx.2_Missense_Mutation_p.Q310H|ADD2_uc010fdt.1_Missense_Mutation_p.Q310H|ADD2_uc002shc.1_Missense_Mutation_p.Q310H|ADD2_uc002shd.1_Intron|ADD2_uc010fdu.1_Missense_Mutation_p.Q326H	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	310					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						CACATGCAGCCTGCAGGTGGA	0.527													19	78					5.35267e-07	5.45817e-07	1	1	0		A	70915174	A	A	70915174	3	1	151	1	0	0	0	0	1	0	0	0	305	680	24	5	1459	5	ADD2	2	70915174	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	387080	70915174	172284199	531	77696											
ATP6V1B1	525	broad.mit.edu	37	chr2	71163109	71163109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatggagatagacagcaggCctggggggctccccggcagt	8	5	16	12	1	0	2	0	0	0	2	1	3	1	2	4	6	1	3	4	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:71163109C>T	uc002shj.2	+	1	112	c.25C>T	c.(25-27)CCT>TCT	p.P9S	ATP6V1B1_uc002shi.1_Missense_Mutation_p.P9S|ATP6V1B1_uc010fdv.2_Missense_Mutation_p.P9S|ATP6V1B1_uc010fdw.2_RNA	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	9					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						AGACAGCAGGCCTGGGGGGCT	0.627													9	35					0	0	1	0	0		T	71163109	T	T	71163109	3	4	151	1	0	0	0	0	1	0	0	0	1179	739	26	2	27	2	ATP6V1B1	2	71163109	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	247935	71163109	172036264	532	77697											
ATP6V1B1	525	broad.mit.edu	37	chr2	71187158	71187158	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcatgaacagcattgccCgcggccagaagatccccatc	11	6	9	15	3	1	3	1	1	0	2	3	3	2	3	4	1	3	1	4	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:71187158C>A	uc002shj.2	+	6	622	c.535C>A	c.(535-537)CGC>AGC	p.R179S	ATP6V1B1_uc002shi.1_Missense_Mutation_p.R179S|ATP6V1B1_uc010fdv.2_Missense_Mutation_p.R179S|ATP6V1B1_uc010fdw.2_RNA|ATP6V1B1_uc010fdx.2_Missense_Mutation_p.R137S	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	179					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						CAGCATTGCCCGCGGCCAGAA	0.627													18	50					5.3912e-06	5.47179e-06	1	1	0		A	71187158	A	A	71187158	3	1	151	1	0	0	0	0	1	0	0	0	1179	652	23	5	557	5	ATP6V1B1	2	71187158	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	24049	71187158	172012215	533	77698											
ZNF638	27332	broad.mit.edu	37	chr2	71576963	71576963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgagagtggaaccaagatGtcaggcttacacatttcagg	12	10	12	7	0	2	2	2	1	0	2	2	4	2	3	1	3	2	2	1	3	3	3	rs141176451		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:71576963G>A	uc002shx.2	+	2	1198	c.879G>A	c.(877-879)ATG>ATA	p.M293I	ZNF638_uc010fec.2_Missense_Mutation_p.M399I|ZNF638_uc010yqw.1_Intron|ZNF638_uc002shw.2_Missense_Mutation_p.M293I|ZNF638_uc002shy.2_Missense_Mutation_p.M293I|ZNF638_uc002shz.2_Missense_Mutation_p.M293I|ZNF638_uc002sia.2_Missense_Mutation_p.M293I|ZNF638_uc002sib.1_Missense_Mutation_p.M293I	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	293					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						GAACCAAGATGTCAGGCTTAC	0.438													57	251					0	0	1	0	0		A	71576963	A	A	71576963	3	1	151	1	0	0	0	0	1	0	0	0	18080	1377	48	4	881	4	ZNF638	2	71576963	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	389805	71576963	171622410	534	77699											
SFXN5	94097	broad.mit.edu	37	chr2	73195648	73195648	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaccactcgcgtcagcgcCgtctccagcagggcctgagg	7	5	14	15	4	2	1	1	1	1	0	4	2	2	2	4	3	2	1	4	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:73195648C>T	uc002siq.2	-	12	887	c.756G>A	c.(754-756)ACG>ACA	p.T252T	SFXN5_uc002sio.2_Silent_p.T144T|SFXN5_uc010yrc.1_Silent_p.T101T|SFXN5_uc002sip.2_RNA|SFXN5_uc010fet.2_Intron|SFXN5_uc010fer.2_RNA|SFXN5_uc010feq.2_Silent_p.T34T|SFXN5_uc010fes.2_Silent_p.T34T	NM_144579	NP_653180	Q8TD22	SFXN5_HUMAN	sideroflexin 5	252					iron ion homeostasis	integral to membrane	cation transmembrane transporter activity			ovary(1)	1						GCGTCAGCGCCGTCTCCAGCA	0.647													8	41					0	0	1	0	0		T	73195648	T	T	73195648	2	4	151	1	0	0	0	0	0	0	0	1	14223	639	23	1		1	SFXN5	2	73195648	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1618685	73195648	170003725	535	77700											
C2orf7	84279	broad.mit.edu	37	chr2	73455993	73455993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtcctggatcatctccaCgtagaagctgtcattgtcaa	10	12	8	11	1	4	1	3	0	1	1	6	2	5	2	2	1	1	2	2	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:73455993C>T	uc002siy.2	-	4	444	c.376G>A	c.(376-378)GTG>ATG	p.V126M		NM_032319	NP_115695	Q9BSG0	PADC1_HUMAN	chromosome 2 open reading frame 7 precursor	126	PA.					extracellular region					0						ATCATCTCCACGTAGAAGCTG	0.617													3	25					0	0	1	0	0		T	73455993	T	T	73455993	3	4	151	1	0	0	0	0	1	0	0	0	2192	536	19	1	198	1	C2orf7	2	73455993	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	260345	73455993	169743380	536	77701											
CCT7	10574	broad.mit.edu	37	chr2	73479961	73479961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctcccacagcagcaggccGgggccgtggtcgtggccgcc	4	5	16	16	4	0	0	0	0	0	0	2	0	1	0	5	5	3	3	5	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:73479961G>A	uc002siz.2	+	12	1706	c.1604G>A	c.(1603-1605)CGG>CAG	p.R535Q	CCT7_uc002sja.2_Missense_Mutation_p.R331Q|CCT7_uc010yrf.1_Missense_Mutation_p.R491Q|CCT7_uc010feu.2_Missense_Mutation_p.R493Q|CCT7_uc010yrg.1_Missense_Mutation_p.R435Q|CCT7_uc010yrh.1_Missense_Mutation_p.R407Q|CCT7_uc010yri.1_Missense_Mutation_p.R448Q	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	535					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						GCAGCAGGCCGGGGCCGTGGT	0.627													6	26					0	0	1	0	0		A	73479961	A	A	73479961	3	1	151	1	0	0	0	0	1	0	0	0	2962	1116	39	1	1650	1	CCT7	2	73479961	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	23968	73479961	169719412	537	77702											
ALMS1	7840	broad.mit.edu	37	chr2	73651914	73651914	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagttgcaacttcatttgAcataactgatgaaaacatag	15	13	6	7	0	2	3	2	3	0	0	2	3	2	3	0	0	4	2	0	0	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:73651914A>G	uc002sje.1	+	6	1235	c.1124A>G	c.(1123-1125)GAC>GGC	p.D375G	ALMS1_uc002sjf.1_Missense_Mutation_p.D332G	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	374					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						ACTTCATTTGACATAACTGAT	0.373													16	88					0	0	1	0	0		G	73651914	G	G	73651914	3	3	151	1	0	0	0	0	1	0	0	0	535	275	10	3	1139	3	ALMS1	2	73651914	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	171953	73651914	169547459	538	77703											
MTHFD2	10797	broad.mit.edu	37	chr2	74438395	74438395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagaaacatacaattcttgCagatattgtaatatctgctg	15	13	7	6	0	2	2	0	0	2	2	2	3	2	2	0	0	4	3	0	0	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:74438395C>T	uc002skk.2	+	6	819	c.740C>T	c.(739-741)GCA>GTA	p.A247V	MTHFD2_uc002skj.2_Missense_Mutation_p.A145V|MTHFD2_uc010yro.1_Missense_Mutation_p.A145V|MTHFD2_uc010ffb.2_Missense_Mutation_p.A206V|MTHFD2_uc010yrp.1_Missense_Mutation_p.A83V	NM_006636	NP_006627	P13995	MTDC_HUMAN	methylenetetrahydrofolate dehydrogenase 2	247					folic acid-containing compound biosynthetic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	magnesium ion binding|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NAD+) activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|phosphate binding|protein binding				0					NADH(DB00157)|Tetrahydrofolic acid(DB00116)	ACAATTCTTGCAGATATTGTA	0.408													39	127					0	0	1	0	0		T	74438395	T	T	74438395	3	4	151	1	0	0	0	0	1	0	0	0	9947	710	25	2	762	2	MTHFD2	2	74438395	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	786481	74438395	168760978	539	77704											
SLC4A5	57835	broad.mit.edu	37	chr2	74474176	74474176	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtcacctgtgtcaggggcGacacactcgcacttgtaggt	7	9	13	12	3	2	0	2	0	0	0	3	1	2	0	1	4	0	2	1	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:74474176G>A	uc002sko.1	-	14	2048	c.2046C>T	c.(2044-2046)GTC>GTT	p.V682V	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Silent_p.V682V|SLC4A5_uc010ffc.1_Silent_p.V682V|SLC4A5_uc002skp.1_Silent_p.V618V|SLC4A5_uc002sks.1_Silent_p.V682V	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	682	Cytoplasmic (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						TGTCAGGGGCGACACACTCGC	0.537													60	223					0	0	1	0	0		A	74474176	A	A	74474176	2	1	151	1	0	0	0	0	0	0	0	1	14682	1045	37	1		1	SLC4A5	2	74474176	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	35781	74474176	168725197	540	77705											
DCTN1	1639	broad.mit.edu	37	chr2	74597614	74597614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccagggcatccttcaggCgggcattctgctcctcaagc	7	9	10	15	1	4	0	3	0	1	0	6	0	6	0	3	3	2	3	3	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:74597614C>T	uc002skx.2	-	11	1417	c.1106G>A	c.(1105-1107)CGC>CAC	p.R369H	DCTN1_uc002skv.2_Missense_Mutation_p.R235H|DCTN1_uc002sku.2_Missense_Mutation_p.R235H|DCTN1_uc002skw.1_Missense_Mutation_p.R345H|DCTN1_uc010ffd.2_Missense_Mutation_p.R349H|DCTN1_uc002sky.2_Missense_Mutation_p.R332H	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	369	Potential.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						ATCCTTCAGGCGGGCATTCTG	0.522													15	52					0	0	1	0	0		T	74597614	T	T	74597614	3	4	151	1	0	0	0	0	1	0	0	0	4309	768	27	1	2818	1	DCTN1	2	74597614	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	123438	74597614	168601759	541	77706											
RTKN	6242	broad.mit.edu	37	chr2	74654556	74654556	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccttctctcttactcatgTcaaagaaaagctgccacaga	12	10	5	14	0	4	2	2	0	2	2	5	2	4	2	3	0	3	1	3	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:74654556T>C	uc002sle.2	-	10	1367	c.1250A>G	c.(1249-1251)GAC>GGC	p.D417G	RTKN_uc002slc.2_Missense_Mutation_p.D404G|RTKN_uc002sld.2_Missense_Mutation_p.D367G	NM_001015055	NP_001015055	Q9BST9	RTKN_HUMAN	rhotekin isoform a	417					apoptosis|regulation of anti-apoptosis|Rho protein signal transduction	intracellular	GTP binding|GTP-Rho binding|GTPase inhibitor activity			skin(1)	1						CTTACTCATGTCAAAGAAAAG	0.473													71	271					0	0	1	0	0		C	74654556	C	C	74654556	3	2	151	1	0	0	0	0	1	0	0	0	13747	1667	58	3	453	3	RTKN	2	74654556	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	56942	74654556	168544817	542	77707											
MOGS	7841	broad.mit.edu	37	chr2	74688480	74688480	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccatgcctcgcccatcGcggtcactgtactgctccca	6	8	8	19	3	1	0	1	0	0	0	4	0	2	0	4	1	4	2	4	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:74688480G>A	uc010ffj.2	-	4	2599	c.2436C>T	c.(2434-2436)CGC>CGT	p.R812R	MOGS_uc010ffh.2_Silent_p.R537R|MOGS_uc010yrt.1_Silent_p.R693R|MOGS_uc010ffi.2_Silent_p.R706R	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	812	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						CTCGCCCATCGCGGTCACTGT	0.617													23	54					0	0	1	0	0		A	74688480	A	A	74688480	2	1	151	1	0	0	0	0	0	0	0	1	9715	1074	38	1		1	MOGS	2	74688480	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	33924	74688480	168510893	543	77708											
MOGS	7841	broad.mit.edu	37	chr2	74691666	74691666	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccagtcccctccgtgcTgacccccaggcctcttgacg	5	8	9	19	2	1	2	0	2	1	0	4	2	4	2	7	1	2	2	7	1	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:74691666T>G	uc010ffj.2	-	2	699	c.536A>C	c.(535-537)CAG>CCG	p.Q179P	MOGS_uc010ffh.2_5'Flank|MOGS_uc010yrt.1_Missense_Mutation_p.Q60P|MOGS_uc010ffi.2_Missense_Mutation_p.Q73P|MOGS_uc010yru.1_Intron	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	179	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						CCCTCCGTGCTGACCCCCAGG	0.617													21	68					0	0	1	0	0		G	74691666	G	G	74691666	3	3	151	1	0	0	0	0	1	0	0	0	9715	1580	55	5	1989	5	MOGS	2	74691666	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3186	74691666	168507707	544	77709											
AUP1	550	broad.mit.edu	37	chr2	74754151	74754151	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttggcaaatgttagggcTgttggctgaggggtcaccgg	7	10	17	7	1	1	1	1	1	0	0	1	2	1	1	1	6	0	5	1	6	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:74754151T>A	uc010yrx.1	-	10	1410	c.1284A>T	c.(1282-1284)ACA>ACT	p.T428T	DQX1_uc010yrw.1_5'Flank|AUP1_uc002sme.2_Silent_p.T104T|AUP1_uc002smf.2_Silent_p.T371T|AUP1_uc002smg.2_RNA|AUP1_uc002smh.2_Silent_p.T280T|HTRA2_uc002smi.1_5'Flank|HTRA2_uc002smj.1_5'Flank|HTRA2_uc002smk.1_5'Flank|HTRA2_uc002sml.1_5'Flank|HTRA2_uc002smm.1_5'Flank|HTRA2_uc002smn.1_5'Flank			Q9Y679	AUP1_HUMAN	SubName: Full=cDNA FLJ57204, highly similar to Homo sapiens ancient ubiquitous protein 1 (AUP1), transcript variant 2, mRNA;	437	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nucleus	protein binding				0						ATGTTAGGGCTGTTGGCTGAG	0.547													3	69					0	0	1	0	0		A	74754151	A	A	74754151	2	1	151	1	0	0	0	0	0	0	0	1	1221	1567	55	5		5	AUP1	2	74754151	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	62485	74754151	168445222	545	77710											
TACR1	6869	broad.mit.edu	37	chr2	75425766	75425766	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagtagaacaggccgtagtAccattcgttgtggacagcat	11	9	12	9	2	0	1	0	0	0	1	1	2	0	2	2	2	3	6	2	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:75425766A>G	uc002sng.2	-	1	880	c.295T>C	c.(295-297)TAC>CAC	p.Y99H	TACR1_uc002snh.2_Missense_Mutation_p.Y99H	NM_001058	NP_001049	P25103	NK1R_HUMAN	tachykinin receptor 1 isoform long	99	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|detection of abiotic stimulus|mechanosensory behavior	integral to plasma membrane	protein binding			ovary(1)	1					Aprepitant(DB00673)|Ketamine(DB01221)|Vapreotide(DB04894)	AGGCCGTAGTACCATTCGTTG	0.512													37	83					0	0	1	0	0		G	75425766	G	G	75425766	3	3	151	1	0	0	0	0	1	0	0	0	15530	391	14	3	952	3	TACR1	2	75425766	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	671615	75425766	167773607	546	77711											
LRRTM4	80059	broad.mit.edu	37	chr2	77745646	77745646	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgtttcatgctggctgggTagcgtttccaagacacatag	8	13	12	8	1	1	1	1	0	0	1	2	1	2	1	1	2	2	6	1	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:77745646T>C	uc002snr.2	-	3	1764	c.1349A>G	c.(1348-1350)TAC>TGC	p.Y450C	LRRTM4_uc002snq.2_Missense_Mutation_p.Y450C|LRRTM4_uc002sns.2_Missense_Mutation_p.Y450C|LRRTM4_uc002snt.2_Missense_Mutation_p.Y451C	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	450	Cytoplasmic (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GCTGGCTGGGTAGCGTTTCCA	0.463													6	47					0	0	1	0	0		C	77745646	C	C	77745646	3	2	151	1	0	0	0	0	1	0	0	0	9060	1638	57	3	437	3	LRRTM4	2	77745646	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2319880	77745646	165453727	547	77712											
CTNNA2	1496	broad.mit.edu	37	chr2	80816514	80816514	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagagaaaagcaagctggAtgcagaagtggccaaatggg	16	5	14	6	0	1	2	1	0	0	2	1	4	1	3	1	3	3	3	1	3	6	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:80816514A>C	uc010ysh.1	+	14	2098	c.2093A>C	c.(2092-2094)GAT>GCT	p.D698A	CTNNA2_uc010yse.1_Missense_Mutation_p.D698A|CTNNA2_uc010ysf.1_Missense_Mutation_p.D698A|CTNNA2_uc010ysg.1_Missense_Mutation_p.D698A|CTNNA2_uc010ysi.1_Missense_Mutation_p.D330A|CTNNA2_uc010ysj.1_Missense_Mutation_p.D27A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	698					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						AGCAAGCTGGATGCAGAAGTG	0.488													10	70					0	0	1	0	0		C	80816514	C	C	80816514	3	2	151	1	0	0	0	0	1	0	0	0	4016	333	12	5	1939	5	CTNNA2	2	80816514	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3070868	80816514	162382859	548	77713											
RETSAT	54884	broad.mit.edu	37	chr2	85571218	85571218	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtcactgccccgctttccCttcagctccgcctgccactc	4	11	6	20	2	2	0	2	0	0	0	5	0	4	0	6	0	3	2	6	0	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:85571218C>A	uc002spd.2	-	9	1628	c.1437G>T	c.(1435-1437)AAG>AAT	p.K479N	RETSAT_uc010fge.2_Intron|RETSAT_uc010ysm.1_Missense_Mutation_p.K418N|RETSAT_uc010fgf.2_Missense_Mutation_p.K270N	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	479					retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(2)	2					Vitamin A(DB00162)	CCCGCTTTCCCTTCAGCTCCG	0.542													12	52					3.07112e-06	3.12052e-06	1	1	0		A	85571218	A	A	85571218	3	1	151	1	0	0	0	0	1	0	0	0	13263	680	24	5	407	5	RETSAT	2	85571218	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4754704	85571218	157628155	549	77714											
RETSAT	54884	broad.mit.edu	37	chr2	85571464	85571464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgggcatggagacgtagcGctccatcctgcatgtgacaa	9	8	12	12	2	0	2	0	1	0	1	2	3	2	2	3	2	2	4	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:85571464G>A	uc002spd.2	-	8	1455	c.1264C>T	c.(1264-1266)CGC>TGC	p.R422C	RETSAT_uc010fge.2_RNA|RETSAT_uc010ysm.1_Missense_Mutation_p.R361C|RETSAT_uc010fgf.2_Missense_Mutation_p.R213C	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	422					retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(2)	2					Vitamin A(DB00162)	GAGACGTAGCGCTCCATCCTG	0.557													11	43					0	0	1	0	0		A	85571464	A	A	85571464	3	1	151	1	0	0	0	0	1	0	0	0	13263	1087	38	1	584	1	RETSAT	2	85571464	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	246	85571464	157627909	550	77715											
SH2D6	284948	broad.mit.edu	37	chr2	85662598	85662598	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccgctatgctgttgagagTgccctgctccacttacaaaa	10	10	9	12	1	0	1	0	1	0	1	1	3	1	1	3	0	4	4	3	0	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:85662598T>C	uc002spq.2	+	2	392	c.231T>C	c.(229-231)AGT>AGC	p.S77S	SH2D6_uc002spo.2_Intron|SH2D6_uc002spp.2_RNA	NM_198482	NP_940884	Q7Z4S9	SH2D6_HUMAN	SH2 domain containing 6	77	SH2.									central_nervous_system(1)	1						CTGTTGAGAGTGCCCTGCTCC	0.582													12	76					0	0	1	0	0		C	85662598	C	C	85662598	2	2	151	1	0	0	0	0	0	0	0	1	14263	1693	59	3		3	SH2D6	2	85662598	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	91134	85662598	157536775	551	77716											
PTCD3	55037	broad.mit.edu	37	chr2	86352118	86352118	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttactctcttgtgtctagAgcaaaaaacaacgctgagag	14	11	8	8	1	2	2	0	1	2	2	3	3	2	2	0	0	4	2	0	0	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:86352118A>G	uc002sqw.2	+	10	783	c.717A>G	c.(715-717)CGA>CGG	p.R239R	PTCD3_uc010ytc.1_RNA|PTCD3_uc002sqx.1_5'UTR	NM_017952	NP_060422	Q96EY7	PTCD3_HUMAN	pentatricopeptide repeat domain 3 precursor	239						mitochondrion	protein binding			ovary(1)	1						TTGTGTCTAGAGCAAAAAACA	0.279													19	37					0	0	1	0	0		G	86352118	G	G	86352118	2	3	151	1	0	0	0	0	0	0	0	1	12751	318	11	3		3	PTCD3	2	86352118	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	689520	86352118	156847255	552	77717											
REEP1	65055	broad.mit.edu	37	chr2	86479109	86479109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatcacagccgctgtggCggccacgttcaagccccgct	7	6	11	17	4	2	0	2	0	0	0	2	0	2	0	5	2	3	3	5	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:86479109C>T	uc002srh.3	-	5	532	c.388G>A	c.(388-390)GCC>ACC	p.A130T	REEP1_uc010ytg.1_Missense_Mutation_p.A109T|REEP1_uc010yth.1_Missense_Mutation_p.A103T|REEP1_uc010yti.1_Intron	NM_022912	NP_075063	Q9H902	REEP1_HUMAN	receptor accessory protein 1 isoform 2	130					cell death|protein insertion into membrane	integral to membrane|mitochondrial membrane	olfactory receptor binding				0						GCCGCTGTGGCGGCCACGTTC	0.537													28	116					0	0	1	0	0		T	86479109	T	T	86479109	3	4	151	1	0	0	0	0	1	0	0	0	13229	768	27	1	290	1	REEP1	2	86479109	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	126991	86479109	156720264	553	77718											
C2orf51	200523	broad.mit.edu	37	chr2	88828868	88828868	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcctcgtggatcccaaacAccagcctgctgcagagatgg	9	7	12	13	1	0	1	0	0	0	1	2	3	1	2	4	2	5	2	4	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:88828868A>G	uc002stb.1	+	4	561	c.419A>G	c.(418-420)CAC>CGC	p.H140R		NM_152670	NP_689883	Q96LM6	TSC21_HUMAN	chromosome 2 open reading frame 51	140						nucleus				skin(1)	1						GATCCCAAACACCAGCCTGCT	0.572													34	97					0	0	1	0	0		G	88828868	G	G	88828868	3	3	151	1	0	0	0	0	1	0	0	0	2176	159	6	3	429	3	C2orf51	2	88828868	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2349759	88828868	154370505	554	77719											
EIF2AK3	9451	broad.mit.edu	37	chr2	88885403	88885403	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgcgcacaataaacgttgTtgctatgatacaaaacaaaa	17	9	6	9	2	0	1	0	1	0	0	0	1	0	1	1	0	5	4	1	0	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:88885403T>C	uc002stc.3	-	9	1808	c.1606A>G	c.(1606-1608)ACA>GCA	p.T536A		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	536	Cytoplasmic (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						ATAAACGTTGTTGCTATGATA	0.343													33	103					0	0	1	0	0		C	88885403	C	C	88885403	3	2	151	1	0	0	0	0	1	0	0	0	5004	1725	60	3	1780	3	EIF2AK3	2	88885403	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	56535	88885403	154313970	555	77720											
TEKT4	150483	broad.mit.edu	37	chr2	95537557	95537557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggccacagagacccaggCgctggcgcagcgcacgcagc	8	2	15	16	4	0	1	0	0	0	1	0	2	0	1	2	3	2	5	2	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:95537557C>T	uc002stw.1	+	1	326	c.233C>T	c.(232-234)GCG>GTG	p.A78V	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	78					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						GAGACCCAGGCGCTGGCGCAG	0.677													3	11					0	0	1	0	0		T	95537557	T	T	95537557	3	4	151	1	0	0	0	0	1	0	0	0	15780	768	27	1	235	1	TEKT4	2	95537557	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	6652154	95537557	147661816	556	77721											
MAL	4118	broad.mit.edu	37	chr2	95719178	95719178	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtccatgcggtgttctcttTaatcagatggaagtcttcat	8	15	10	8	1	4	1	2	0	2	1	6	2	5	2	1	3	1	1	1	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:95719178T>C	uc002stx.1	+	4	499	c.440T>C	c.(439-441)TTA>TCA	p.L147S	MAL_uc002sty.1_Missense_Mutation_p.L91S|MAL_uc002stz.1_Missense_Mutation_p.L105S|MAL_uc002sua.1_Missense_Mutation_p.L49S	NM_002371	NP_002362	P21145	MAL_HUMAN	T-lymphocyte maturation-associated protein	147	Helical; (Potential).|MARVEL.				apical protein localization|cell differentiation|central nervous system development|induction of apoptosis|membrane raft polarization|myelination	apical plasma membrane|endoplasmic reticulum|endosome|integral to plasma membrane|membrane raft	apoptotic protease activator activity|channel activity|lipid binding|structural constituent of myelin sheath				0				STAD - Stomach adenocarcinoma(1183;0.18)		GTGTTCTCTTTAATCAGATGG	0.478													47	189					0	0	1	0	0		C	95719178	C	C	95719178	3	2	151	1	0	0	0	0	1	0	0	0	9217	1764	61	3	454	3	MAL	2	95719178	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	181621	95719178	147480195	557	77722											
ZNF2	7549	broad.mit.edu	37	chr2	95847341	95847341	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaattcacactggagagaaAccctttcagtgcaacgagtg	13	8	10	10	2	2	1	2	0	0	1	2	5	2	2	1	1	3	1	1	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:95847341A>G	uc002suf.2	+	6	1227	c.765A>G	c.(763-765)AAA>AAG	p.K255K	ZNF2_uc002sug.2_Silent_p.K213K|ZNF2_uc010yue.1_Silent_p.K218K|ZNF2_uc010fhs.2_Silent_p.K176K	NM_021088	NP_066574	Q9BSG1	ZNF2_HUMAN	zinc finger protein 2 isoform a	255					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(717;0.00768)		READ - Rectum adenocarcinoma(193;0.0222)		CTGGAGAGAAACCCTTTCAGT	0.488													44	165					0	0	1	0	0		G	95847341	G	G	95847341	2	3	151	1	0	0	0	0	0	0	0	1	17785	40	2	3		3	ZNF2	2	95847341	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	128163	95847341	147352032	558	77723											
ARID5A	10865	broad.mit.edu	37	chr2	97216987	97216987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcctgaggcctacaagcGgctcctatccagcttctact	7	11	8	15	1	1	1	0	1	1	0	4	1	4	1	4	2	4	2	4	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:97216987G>A	uc002swe.2	+	7	822	c.722G>A	c.(721-723)CGG>CAG	p.R241Q	ARID5A_uc010yuq.1_Missense_Mutation_p.R189Q|ARID5A_uc002swf.2_Missense_Mutation_p.R77Q|ARID5A_uc002swg.2_Missense_Mutation_p.R189Q	NM_212481	NP_997646	Q03989	ARI5A_HUMAN	AT rich interactive domain 5A	241					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding				0						GCCTACAAGCGGCTCCTATCC	0.612													13	45					0	0	1	0	0		A	97216987	A	A	97216987	3	1	151	1	0	0	0	0	1	0	0	0	921	1116	39	1	748	1	ARID5A	2	97216987	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1369646	97216987	145982386	559	77724											
LMAN2L	81562	broad.mit.edu	37	chr2	97377619	97377619	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accgtcaaatgcctcttgacGtagcgaatcaccaggaaggt	12	8	10	11	3	3	1	2	1	1	0	3	3	3	2	3	2	2	1	3	2	4	2	rs143337559	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:97377619G>A	uc002swu.2	-	5	687	c.651C>T	c.(649-651)TAC>TAT	p.Y217Y	LMAN2L_uc002swv.2_Silent_p.Y228Y|LMAN2L_uc010yut.1_Silent_p.Y83Y|LMAN2L_uc010yuu.1_Silent_p.Y81Y|LMAN2L_uc010yuv.1_Silent_p.Y70Y|LMAN2L_uc010yuw.1_Silent_p.Y72Y|LMAN2L_uc002sww.2_Silent_p.Y70Y|LMAN2L_uc010yux.1_Silent_p.Y72Y	NM_030805	NP_110432	Q9H0V9	LMA2L_HUMAN	lectin, mannose-binding 2-like isoform 2	217	L-type lectin-like.|Lumenal (Potential).				ER to Golgi vesicle-mediated transport|protein folding|protein transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle|Golgi membrane|integral to membrane	mannose binding|metal ion binding				0						GCCTCTTGACGTAGCGAATCA	0.552													26	100					0	0	1	0	0		A	97377619	A	A	97377619	2	1	151	1	0	0	0	0	0	0	0	1	8856	1140	40	1		1	LMAN2L	2	97377619	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	160632	97377619	145821754	560	77725											
CNNM4	26504	broad.mit.edu	37	chr2	97427380	97427380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggaccccatggagctgcGcatcgtgcagaactgtggca	8	7	13	13	2	0	1	0	0	0	1	1	3	0	3	3	3	4	4	3	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:97427380G>A	uc002swx.2	+	1	742	c.644G>A	c.(643-645)CGC>CAC	p.R215H		NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	215	DUF21.				biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						ATGGAGCTGCGCATCGTGCAG	0.587													22	101					0	0	1	0	0		A	97427380	A	A	97427380	3	1	151	1	0	0	0	0	1	0	0	0	3618	1087	38	1	646	1	CNNM4	2	97427380	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	49761	97427380	145771993	561	77726											
SEMA4C	54910	broad.mit.edu	37	chr2	97530013	97530013	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtacagggtcagtgtagcGgtcccacttctgggcttcct	5	11	14	11	1	2	0	1	0	1	0	4	0	4	0	2	4	2	3	2	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:97530013G>A	uc002sxh.3	-	10	1229	c.1069C>T	c.(1069-1071)CGC>TGC	p.R357C	SEMA4C_uc002sxf.3_5'Flank|SEMA4C_uc002sxe.2_5'Flank|SEMA4C_uc002sxg.3_Missense_Mutation_p.R410C	NM_017789	NP_060259	Q9C0C4	SEM4C_HUMAN	semaphorin 4C precursor	357	Extracellular (Potential).|Dominant negative effect on myogenic differentiation (By similarity).|Sema.				muscle cell differentiation|nervous system development|positive regulation of stress-activated MAPK cascade	cell junction|integral to membrane|postsynaptic density|postsynaptic membrane|synaptic vesicle membrane	receptor activity			skin(2)	2						TCAGTGTAGCGGTCCCACTTC	0.607													37	119					0	0	1	0	0		A	97530013	A	A	97530013	3	1	151	1	0	0	0	0	1	0	0	0	14058	1116	39	1	1456	1	SEMA4C	2	97530013	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	102633	97530013	145669360	562	77727											
ACTR1B	10120	broad.mit.edu	37	chr2	98275421	98275421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctctgccgccttctcccGgttcttactcgggttgagcg	3	12	10	16	4	3	1	0	1	3	0	5	1	3	1	4	2	3	2	4	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:98275421G>A	uc002syb.2	-	5	569	c.361C>T	c.(361-363)CGG>TGG	p.R121W		NM_005735	NP_005726	P42025	ACTY_HUMAN	ARP1 actin-related protein 1 homolog B,	121						centrosome|dynactin complex	ATP binding|protein binding			skin(1)	1						GCCTTCTCCCGGTTCTTACTC	0.597													34	152					0	0	1	0	0		A	98275421	A	A	98275421	3	1	151	1	0	0	0	0	1	0	0	0	210	1115	39	1	797	1	ACTR1B	2	98275421	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	745408	98275421	144923952	563	77728											
ZAP70	7535	broad.mit.edu	37	chr2	98354253	98354253	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagtggccgctcaagtggTacgcacccgaatgcatcaac	11	6	12	12	3	2	0	2	0	0	0	2	2	2	1	2	3	3	4	2	3	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:98354253T>C	uc002syd.1	+	12	1723	c.1516T>C	c.(1516-1518)TAC>CAC	p.Y506H	ZAP70_uc002sye.1_Missense_Mutation_p.Y396H|ZAP70_uc002syf.1_Missense_Mutation_p.Y199H	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	506	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						GCTCAAGTGGTACGCACCCGA	0.637													6	114					0	0	1	0	0		C	98354253	C	C	98354253	3	2	151	1	0	0	0	0	1	0	0	0	17540	1638	57	3	1554	3	ZAP70	2	98354253	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	78832	98354253	144845120	564	77729											
TMEM131	23505	broad.mit.edu	37	chr2	98411544	98411544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttataaacttcagttcccGaataactctagaagctgtaa	14	13	6	8	1	2	1	1	0	1	1	3	2	3	1	1	0	3	4	1	0	8	7	rs61753932		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:98411544G>A	uc002syh.3	-	29	3464	c.3235C>T	c.(3235-3237)CGG>TGG	p.R1079W		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1079						integral to membrane				ovary(4)|central_nervous_system(2)	6						TTCAGTTCCCGAATAACTCTA	0.368													11	45					0	0	1	0	0		A	98411544	A	A	98411544	3	1	151	1	0	0	0	0	1	0	0	0	16069	1057	37	1	2468	1	TMEM131	2	98411544	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	57291	98411544	144787829	565	77730											
VWA3B	200403	broad.mit.edu	37	chr2	98872590	98872590	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttttttttaacaggcgCttgaataaaattgtttggcg	9	19	8	5	2	0	1	0	1	0	0	0	1	0	1	0	2	1	2	0	2	4	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:98872590C>A	uc002syo.2	+	21	3060	c.2796C>A	c.(2794-2796)CGC>CGA	p.R932R	VWA3B_uc002sym.2_Silent_p.R932R|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Silent_p.R589R|VWA3B_uc002syp.1_Silent_p.R324R|VWA3B_uc002syq.1_Silent_p.R208R|VWA3B_uc002syr.1_Silent_p.R249R|VWA3B_uc002sys.2_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	932										ovary(3)|large_intestine(2)|skin(1)	6						TTAACAGGCGCTTGAATAAAA	0.348													14	110					1.52009e-12	1.57459e-12	1	1	0		A	98872590	A	A	98872590	2	1	151	1	0	0	0	0	0	0	0	1	17267	784	28	5		5	VWA3B	2	98872590	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	461046	98872590	144326783	566	77731											
CNGA3	1261	broad.mit.edu	37	chr2	99006150	99006150	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaagaaggatgcgatcgTggtggacccgtccagcaacc	13	5	13	10	3	0	1	0	0	0	1	2	5	1	3	3	3	3	1	3	3	4	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:99006150T>C	uc002syt.2	+	6	896	c.479T>C	c.(478-480)GTG>GCG	p.V160A	CNGA3_uc002syu.2_Missense_Mutation_p.V142A|CNGA3_uc010fij.2_Missense_Mutation_p.V164A	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	160					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						GATGCGATCGTGGTGGACCCG	0.527													26	138					0	0	1	0	0		C	99006150	C	C	99006150	3	2	151	1	0	0	0	0	1	0	0	0	3601	1696	59	3	497	3	CNGA3	2	99006150	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	133560	99006150	144193223	567	77732											
C2orf55	343990	broad.mit.edu	37	chr2	99454683	99454683	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctacttcctgtggacgaCggcgattcttttctcttctt	4	17	9	11	3	3	0	0	0	3	0	5	3	4	1	1	2	2	1	1	2	1	7	rs147976810	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:99454683C>T	uc002szf.1	-	3	432	c.138G>A	c.(136-138)CCG>CCA	p.P46P		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	46											0						CTGTGGACGACGGCGATTCTT	0.408													10	41					0	0	1	0	0		T	99454683	T	T	99454683	2	4	151	1	0	0	0	0	0	0	0	1	2179	523	19	1		1	C2orf55	2	99454683	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	448533	99454683	143744690	568	77733											
TSGA10	80705	broad.mit.edu	37	chr2	99636888	99636888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catggagattctctcatttgCcatctgactcctcaggagtt	8	14	8	11	0	4	2	2	1	2	1	6	4	5	3	2	2	1	1	2	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:99636888C>T	uc002szg.3	-	16	2300	c.1672G>A	c.(1672-1674)GCA>ACA	p.A558T	TSGA10_uc002szh.3_Missense_Mutation_p.A558T|TSGA10_uc002szi.3_Missense_Mutation_p.A558T|TSGA10_uc010fin.1_Missense_Mutation_p.A558T	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	558	Interaction with HIF1A (By similarity).				spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						CTCTCATTTGCCATCTGACTC	0.383													16	98					0	0	1	0	0		T	99636888	T	T	99636888	3	4	151	1	0	0	0	0	1	0	0	0	16643	739	26	2	440	2	TSGA10	2	99636888	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	182205	99636888	143562485	569	77734											
MITD1	129531	broad.mit.edu	37	chr2	99787981	99787981	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgttcacatacctgatgagTatgtctaatataaggatctt	13	15	7	6	0	3	2	1	2	2	0	3	3	3	3	1	1	1	2	1	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:99787981T>C	uc002szs.1	-	3	430	c.382A>G	c.(382-384)ACT>GCT	p.T128A	MRPL30_uc002szl.1_Intron|MRPL30_uc002szr.2_Intron	NM_138798	NP_620153	Q8WV92	MITD1_HUMAN	MIT, microtubule interacting and transport,	128					protein transport	late endosome membrane				large_intestine(1)|ovary(1)	2						ACCTGATGAGTATGTCTAATA	0.294													19	87					0	0	1	0	0		C	99787981	C	C	99787981	3	2	151	1	0	0	0	0	1	0	0	0	9613	1638	57	3	387	3	MITD1	2	99787981	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	151093	99787981	143411392	570	77735											
LYG1	129530	broad.mit.edu	37	chr2	99909004	99909004	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagctcatagctaccacagTagttcaggccgtgacgtctt	11	10	9	11	2	3	1	2	1	1	0	3	1	3	1	2	1	3	4	2	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:99909004T>C	uc002szy.2	-	4	393	c.143A>G	c.(142-144)TAC>TGC	p.Y48C	MRPL30_uc002szl.1_Intron|LYG1_uc010yvo.1_Missense_Mutation_p.Y48C	NM_174898	NP_777558	Q8N1E2	LYG1_HUMAN	lysozyme g-like protein 1 precursor	48					cell wall macromolecule catabolic process|peptidoglycan catabolic process	extracellular region	lysozyme activity				0						GCTACCACAGTAGTTCAGGCC	0.532													22	71					0	0	1	0	0		C	99909004	C	C	99909004	3	2	151	1	0	0	0	0	1	0	0	0	9122	1638	57	3	457	3	LYG1	2	99909004	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	121023	99909004	143290369	571	77736											
AFF3	3899	broad.mit.edu	37	chr2	100175428	100175428	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggagggccaggcatcggTaactgcaggcgaaaagagaa	15	3	15	8	2	0	1	0	0	0	1	1	4	0	2	1	5	2	3	1	5	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:100175428T>C	uc002tag.2	-	21	3430	c.3194A>G	c.(3193-3195)TAC>TGC	p.Y1065C	AFF3_uc002taf.2_Missense_Mutation_p.Y1090C	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	1065					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						CAGGCATCGGTAACTGCAGGC	0.463											OREG0014830	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	44					0	0	1	0	0		C	100175428	C	C	100175428	3	2	151	1	0	0	0	0	1	0	0	0	358	1638	57	3	502	3	AFF3	2	100175428	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	266424	100175428	143023945	572	77737											
MAP4K4	9448	broad.mit.edu	37	chr2	102314966	102314966	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttttgagctggtggaagTggttggaaatggcacctatg	9	13	15	4	0	0	1	0	1	0	0	0	4	0	3	1	5	1	3	1	5	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:102314966T>C	uc002tbg.2	+	2	144	c.89T>C	c.(88-90)GTG>GCG	p.V30A	MAP4K4_uc002tbc.2_Missense_Mutation_p.V30A|MAP4K4_uc002tbd.2_Missense_Mutation_p.V30A|MAP4K4_uc002tbe.2_Missense_Mutation_p.V30A|MAP4K4_uc002tbf.2_Missense_Mutation_p.V30A|MAP4K4_uc010yvy.1_Missense_Mutation_p.V30A|MAP4K4_uc002tbh.2_Missense_Mutation_p.V30A|MAP4K4_uc002tbi.2_Missense_Mutation_p.V30A	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	30	Protein kinase.				intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CTGGTGGAAGTGGTTGGAAAT	0.478													80	315					0	0	1	0	0		C	102314966	C	C	102314966	3	2	151	1	0	0	0	0	1	0	0	0	9280	1696	59	3	95	3	MAP4K4	2	102314966	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2139538	102314966	140884407	573	77738											
SLC9A4	389015	broad.mit.edu	37	chr2	103119969	103119969	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgaagacatagaaactgtCgacattttggctggatgtgc	11	13	11	6	1	0	3	0	1	0	2	1	5	0	4	0	2	2	1	0	2	3	4	rs147197838		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:103119969C>T	uc002tbz.3	+	3	1240	c.783C>T	c.(781-783)GTC>GTT	p.V261V		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	261	Extracellular (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						TAGAAACTGTCGACATTTTGG	0.358													18	74					0	0	1	0	0		T	103119969	T	T	103119969	2	4	151	1	0	0	0	0	0	0	0	1	14741	871	31	1		1	SLC9A4	2	103119969	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	805003	103119969	140079404	574	77739											
SLC9A4	389015	broad.mit.edu	37	chr2	103121775	103121775	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacgtgtcccagacatcatAcacgaccatcaagtacttca	15	8	5	13	2	3	1	3	0	0	1	4	2	4	1	2	0	3	1	2	0	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:103121775A>G	uc002tbz.3	+	4	1500	c.1043A>G	c.(1042-1044)TAC>TGC	p.Y348C		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	348	Extracellular (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						CAGACATCATACACGACCATC	0.468													19	70					0	0	1	0	0		G	103121775	G	G	103121775	3	3	151	1	0	0	0	0	1	0	0	0	14741	391	14	3	1057	3	SLC9A4	2	103121775	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1806	103121775	140077598	575	77740											
RGPD3	653489	broad.mit.edu	37	chr2	107041443	107041443	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcacctgaaaatccctTgaaattgaggtcttttttgc	10	14	7	10	0	1	3	0	3	1	0	3	3	3	3	3	1	2	1	3	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:107041443T>G	uc010ywi.1	-	20	3037	c.2980A>C	c.(2980-2982)AAG>CAG	p.K994Q		NM_001144013	NP_001137485	A6NKT7	RGPD3_HUMAN	RANBP2-like and GRIP domain containing 3	994					intracellular transport		binding			ovary(1)	1						GAAAATCCCTTGAAATTGAGG	0.373													7	380					0	0	1	0	0		G	107041443	G	G	107041443	3	3	151	1	0	0	0	0	1	0	0	0	13312	1821	63	5	2312	5	RGPD3	2	107041443	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3919668	107041443	136157930	576	77741											
RGPD4	285190	broad.mit.edu	37	chr2	108455368	108455368	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagagcaaaatactgggTggaaagagcagcaaaacttt	17	7	12	5	0	0	2	0	0	0	2	0	4	0	4	0	3	5	3	0	3	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:108455368T>C	uc010ywk.1	+	4	435	c.353T>C	c.(352-354)GTG>GCG	p.V118A	RGPD4_uc002tdu.2_5'UTR	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	118					intracellular transport		binding			skin(2)	2						AAATACTGGGTGGAAAGAGCA	0.353													57	318					0	0	1	0	0		C	108455368	C	C	108455368	3	2	151	1	0	0	0	0	1	0	0	0	13313	1696	59	3	367	3	RGPD4	2	108455368	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1413925	108455368	134744005	577	77742											
RGPD4	285190	broad.mit.edu	37	chr2	108488518	108488518	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtatccagtggtgaggaaaAtgaaaaagttgtttttagtc	14	13	11	3	0	0	2	0	2	0	0	2	3	1	3	1	2	0	3	1	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:108488518A>G	uc010ywk.1	+	20	4140	c.4058A>G	c.(4057-4059)AAT>AGT	p.N1353S	RGPD4_uc002tdu.2_Missense_Mutation_p.N540S|RGPD4_uc010ywl.1_Intron	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	1353	RanBD1 2.				intracellular transport		binding			skin(2)	2						GGTGAGGAAAATGAAAAAGTT	0.373													117	458					0	0	1	0	0		G	108488518	G	G	108488518	3	3	151	1	0	0	0	0	1	0	0	0	13313	101	4	3	4136	3	RGPD4	2	108488518	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	33150	108488518	134710855	578	77743											
SULT1C4	27233	broad.mit.edu	37	chr2	108998284	108998284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtggagaaaagtaaacGggcaccgactcatcaacgat	15	7	11	8	3	2	2	2	1	0	1	2	5	2	2	1	2	2	2	1	2	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:108998284G>A	uc002tea.1	+	2	609	c.236G>A	c.(235-237)CGG>CAG	p.R79Q	SULT1C4_uc002tdz.2_Missense_Mutation_p.R79Q|SULT1C4_uc010ywr.1_RNA|SULT1C4_uc002teb.1_Missense_Mutation_p.R79Q	NM_006588	NP_006579	O75897	ST1C4_HUMAN	sulfotransferase family, cytosolic, 1C, member	79					3'-phosphoadenosine 5'-phosphosulfate metabolic process|sulfation|xenobiotic metabolic process	cytosol	sulfotransferase activity				0						AAAAGTAAACGGGCACCGACT	0.398													20	101					0	0	1	0	0		A	108998284	A	A	108998284	3	1	151	1	0	0	0	0	1	0	0	0	15404	1116	39	1	242	1	SULT1C4	2	108998284	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	509766	108998284	134201089	579	77744											
GCC2	9648	broad.mit.edu	37	chr2	109086207	109086207	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaaatgagttgatggcagTacgttccaaatacagtgaag	16	9	11	5	1	0	3	0	3	0	0	1	4	1	3	1	1	2	4	1	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:109086207T>C	uc002tec.2	+	6	576	c.422T>C	c.(421-423)GTA>GCA	p.V141A	GCC2_uc002ted.2_Missense_Mutation_p.V40A	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	141	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						TTGATGGCAGTACGTTCCAAA	0.338													4	141					0	0	1	0	0		C	109086207	C	C	109086207	3	2	151	1	0	0	0	0	1	0	0	0	6301	1638	57	3	444	3	GCC2	2	109086207	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	87923	109086207	134113166	580	77745											
GCC2	9648	broad.mit.edu	37	chr2	109102288	109102288	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagattctcattctataggAaactgatcacttaatacttc	14	14	4	9	0	3	2	2	1	2	1	5	3	3	3	0	1	2	0	0	1	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:109102288A>G	uc002tec.2	+	15	3870	c.3716A>G	c.(3715-3717)GAA>GGA	p.E1239G	GCC2_uc002ted.2_Missense_Mutation_p.E1138G	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	1239	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						ATTCTATAGGAAACTGATCAC	0.284													14	53					0	0	1	0	0		G	109102288	G	G	109102288	3	3	151	1	0	0	0	0	1	0	0	0	6301	260	9	3	3774	3	GCC2	2	109102288	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	16081	109102288	134097085	581	77746											
RANBP2	5903	broad.mit.edu	37	chr2	109371486	109371486	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgcagattcagaaataaaAcattctacaccgtctcctac	16	10	4	11	1	3	2	1	0	2	2	4	2	3	2	2	0	4	1	2	0	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:109371486A>G	uc002tem.3	+	16	2454	c.2328A>G	c.(2326-2328)AAA>AAG	p.K776K		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	776					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						CAGAAATAAAACATTCTACAC	0.358													11	433					0	0	1	0	0		G	109371486	G	G	109371486	2	3	151	1	0	0	0	0	0	0	0	1	13053	40	2	3		3	RANBP2	2	109371486	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	269198	109371486	133827887	582	77747											
TMEM87B	84910	broad.mit.edu	37	chr2	112817574	112817574	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatcaggacctttgatattTaggaaaactatgtttaactc	15	14	6	6	0	1	1	1	1	0	0	2	3	1	3	1	2	2	1	1	2	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:112817574T>A	uc002thm.2	+	2	555	c.186T>A	c.(184-186)TTT>TTA	p.F62L	TMEM87B_uc010fkg.2_Missense_Mutation_p.F62L|TMEM87B_uc010fkh.2_Missense_Mutation_p.F62L	NM_032824	NP_116213	Q96K49	TM87B_HUMAN	transmembrane protein 87B precursor	62						integral to membrane					0						CTTTGATATTTAGGAAAACTA	0.219													10	44					0	0	1	0	0		A	112817574	A	A	112817574	3	1	151	1	0	0	0	0	1	0	0	0	16236	1751	61	5	192	5	TMEM87B	2	112817574	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3446088	112817574	130381799	583	77748											
TMEM87B	84910	broad.mit.edu	37	chr2	112824632	112824632	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagtgattcacaggtgttTccctctttgaatgtgagtat	10	15	9	7	0	2	3	1	3	1	0	3	3	3	3	1	1	1	2	1	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:112824632T>C	uc002thm.2	+	4	807	c.438T>C	c.(436-438)TTT>TTC	p.F146F	TMEM87B_uc010fkg.2_Silent_p.F146F|TMEM87B_uc010fkh.2_Silent_p.F146F	NM_032824	NP_116213	Q96K49	TM87B_HUMAN	transmembrane protein 87B precursor	146						integral to membrane					0						CACAGGTGTTTCCCTCTTTGA	0.318													30	127					0	0	1	0	0		C	112824632	C	C	112824632	2	2	151	1	0	0	0	0	0	0	0	1	16236	1780	62	3		3	TMEM87B	2	112824632	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	7058	112824632	130374741	584	77749											
ZC3H6	376940	broad.mit.edu	37	chr2	113080227	113080227	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgccaattatttttaggTgttgaatactgatgaagaac	12	16	8	5	0	0	4	0	3	0	1	0	4	0	4	1	1	3	1	1	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:113080227T>C	uc002thq.1	+	9	1482	c.1088T>C	c.(1087-1089)GTG>GCG	p.V363A		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	363	Potential.						nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						TATTTTTAGGTGTTGAATACT	0.333													19	59					0	0	1	0	0		C	113080227	C	C	113080227	3	2	151	1	0	0	0	0	1	0	0	0	17596	1710	59	3	1122	3	ZC3H6	2	113080227	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	255595	113080227	130119146	585	77750											
POLR1B	84172	broad.mit.edu	37	chr2	113304624	113304624	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatttgctttcaaagatgaGcgtatctcttttactattct	10	18	6	7	1	3	2	1	1	2	1	4	3	3	2	0	0	3	2	0	0	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:113304624G>A	uc002thw.2	+	2	793	c.213G>A	c.(211-213)GAG>GAA	p.E71E	POLR1B_uc010fkn.2_Intron|POLR1B_uc002thx.2_5'UTR|POLR1B_uc010fko.2_Silent_p.E71E|POLR1B_uc010fkp.2_Intron|POLR1B_uc010yxn.1_Silent_p.E109E|POLR1B_uc002thy.2_Intron|POLR1B_uc010yxo.1_Intron	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	71					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1						TCAAAGATGAGCGTATCTCTT	0.408													29	131					0	0	1	0	0		A	113304624	A	A	113304624	2	1	151	1	0	0	0	0	0	0	0	1	12229	962	34	2		2	POLR1B	2	113304624	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	224397	113304624	129894749	586	77751											
SLC20A1	6574	broad.mit.edu	37	chr2	113417111	113417111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agactccaagaagcgaattcGaatggacagttacaccagtt	15	8	9	9	2	0	2	0	0	0	2	2	5	1	3	2	1	2	2	2	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:113417111G>A	uc002tib.2	+	8	1825	c.1379G>A	c.(1378-1380)CGA>CAA	p.R460Q	SLC20A1_uc002tic.1_Missense_Mutation_p.R272Q	NM_005415	NP_005406	Q8WUM9	S20A1_HUMAN	solute carrier family 20 (phosphate	460	Cytoplasmic (Potential).				phosphate metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to plasma membrane	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity			ovary(2)	2						AAGCGAATTCGAATGGACAGT	0.488													49	179					0	0	1	0	0		A	113417111	A	A	113417111	3	1	151	1	0	0	0	0	1	0	0	0	14463	1058	37	1	1405	1	SLC20A1	2	113417111	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	112487	113417111	129782262	587	77752											
CKAP2L	150468	broad.mit.edu	37	chr2	113504147	113504147	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaagtatttcattagaaggTacaccctgaaataaaccaaa	18	11	5	7	0	1	2	1	1	0	1	1	2	1	2	2	1	2	2	2	1	9	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:113504147T>C	uc002tie.2	-	6	1687	c.1608A>G	c.(1606-1608)GTA>GTG	p.V536V	CKAP2L_uc002tif.2_Silent_p.V125V|CKAP2L_uc010yxp.1_Silent_p.V371V	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	536						centrosome					0						CATTAGAAGGTACACCCTGAA	0.348													33	138					0	0	1	0	0		C	113504147	C	C	113504147	2	2	151	1	0	0	0	0	0	0	0	1	3446	1625	57	3		3	CKAP2L	2	113504147	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	87036	113504147	129695226	588	77753											
CKAP2L	150468	broad.mit.edu	37	chr2	113509871	113509871	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgaggttcagacattctgtCagagtgttgttaattttact	10	17	9	5	0	3	3	2	1	1	2	3	3	3	3	0	1	1	3	0	1	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:113509871C>T	uc002tie.2	-	5	1654	c.1575G>A	c.(1573-1575)CTG>CTA	p.L525L	CKAP2L_uc002tif.2_Silent_p.L114L|CKAP2L_uc010yxp.1_Silent_p.L360L|CKAP2L_uc010yxq.1_Silent_p.L360L	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	525						centrosome					0						GACATTCTGTCAGAGTGTTGT	0.343													55	309					0	0	1	0	0		T	113509871	T	T	113509871	2	4	151	1	0	0	0	0	0	0	0	1	3446	813	29	4		4	CKAP2L	2	113509871	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5724	113509871	129689502	589	77754											
RABL2A	11159	broad.mit.edu	37	chr2	114398540	114398540	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacagagcttcgggagttcAggccagagatcccatgcatc	11	8	11	11	1	1	2	1	0	0	2	4	4	2	3	2	2	3	3	2	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:114398540A>G	uc002tkn.3	+	6	581	c.367A>G	c.(367-369)AGG>GGG	p.R123G	RABL2A_uc010flb.2_Missense_Mutation_p.R123G|RABL2A_uc002tkl.3_Intron|RABL2A_uc002tkm.3_Intron|RABL2A_uc002tks.3_Missense_Mutation_p.R123G|RABL2A_uc002tkr.2_Missense_Mutation_p.R123G|RABL2A_uc002tkp.3_Missense_Mutation_p.R123G	NM_007082	NP_009013	Q9UBK7	RBL2A_HUMAN	RAB, member of RAS oncogene family-like 2A	123					small GTPase mediated signal transduction		GTP binding|GTPase activity			skin(1)	1						TCGGGAGTTCAGGCCAGAGAT	0.507													25	79					0	0	1	0	0		G	114398540	G	G	114398540	3	3	151	1	0	0	0	0	1	0	0	0	12995	179	7	3	385	3	RABL2A	2	114398540	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	888669	114398540	128800833	590	77755											
DDX18	8886	broad.mit.edu	37	chr2	118586976	118586976	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaacagatctttaatgttAataacctaaatttgcctcag	15	14	5	7	0	2	2	1	1	1	1	2	2	2	2	2	0	3	1	2	0	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:118586976A>G	uc002tlh.1	+	13	1903	c.1804A>G	c.(1804-1806)AAT>GAT	p.N602D		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	602							ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4						CTTTAATGTTAATAACCTAAA	0.373													38	231					0	0	1	0	0		G	118586976	G	G	118586976	3	3	151	1	0	0	0	0	1	0	0	0	4348	362	13	3	1854	3	DDX18	2	118586976	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4188436	118586976	124612397	591	77756											
CCDC93	54520	broad.mit.edu	37	chr2	118701647	118701647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttctccatattataccGtctgtctaggtcttcctaaa	8	17	4	12	1	5	0	0	0	5	0	7	0	6	0	3	1	1	0	3	1	6	7	rs142085524	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:118701647G>A	uc002tlj.2	-	18	1492	c.1366C>T	c.(1366-1368)CGG>TGG	p.R456W	CCDC93_uc010fld.1_Missense_Mutation_p.R456W	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	456										large_intestine(1)|ovary(1)	2						ATATTATACCGTCTGTCTAGG	0.308													32	117					0	0	1	0	0		A	118701647	A	A	118701647	3	1	151	1	0	0	0	0	1	0	0	0	2875	1144	40	1	557	1	CCDC93	2	118701647	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	114671	118701647	124497726	592	77757											
TMEM177	80775	broad.mit.edu	37	chr2	120438936	120438936	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagtaccactgccgtgcaCgccctgctggccccagcttg	6	7	11	17	2	0	0	0	0	0	0	0	0	0	0	5	1	6	5	5	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:120438936C>T	uc010flg.1	+	2	980	c.507C>T	c.(505-507)CAC>CAT	p.H169H	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Silent_p.H169H|TMEM177_uc002tmd.2_Silent_p.H169H|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	169	Helical; (Potential).					integral to membrane				ovary(1)	1	Colorectal(110;0.196)					CTGCCGTGCACGCCCTGCTGG	0.652													26	83					0	0	1	0	0		T	120438936	T	T	120438936	2	4	151	1	0	0	0	0	0	0	0	1	16119	535	19	1		1	TMEM177	2	120438936	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1737289	120438936	122760437	593	77758											
GLI2	2736	broad.mit.edu	37	chr2	121746705	121746705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggtgcagtacatcaaggCgcacgccagtggcgctctgg	7	7	15	12	4	2	0	1	0	1	0	2	0	2	0	1	4	2	4	1	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:121746705C>T	uc010flp.2	+	13	3245	c.3215C>T	c.(3214-3216)GCG>GTG	p.A1072V	GLI2_uc002tmq.1_Missense_Mutation_p.A744V|GLI2_uc002tmr.1_Missense_Mutation_p.A727V|GLI2_uc002tmt.3_Missense_Mutation_p.A744V|GLI2_uc002tmu.3_Missense_Mutation_p.A727V	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	1072					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				TACATCAAGGCGCACGCCAGT	0.697													25	54					0	0	1	0	0		T	121746705	T	T	121746705	3	4	151	1	0	0	0	0	1	0	0	0	6453	768	27	1	3265	1	GLI2	2	121746705	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1307769	121746705	121452668	594	77759											
TFCP2L1	29842	broad.mit.edu	37	chr2	122038815	122038815	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggggacagctggggttccTcctgcttgaagatgggcaga	7	8	17	9	1	0	3	0	1	0	2	2	4	2	4	2	5	2	4	2	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:122038815T>C	uc002tmx.2	-	2	188	c.95A>G	c.(94-96)GAG>GGG	p.E32G	TFCP2L1_uc010flr.2_Missense_Mutation_p.E32G	NM_014553	NP_055368	Q9NZI6	TF2L1_HUMAN	LBP-9	32	Mediate transcriptional repression.				female pregnancy|steroid biosynthetic process	mitochondrion|nucleolus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			pancreas(2)|ovary(1)	3	Renal(3;0.01)					CTGGGGTTCCTCCTGCTTGAA	0.632													26	89					0	0	1	0	0		C	122038815	C	C	122038815	3	2	151	1	0	0	0	0	1	0	0	0	15821	1551	54	3	1400	3	TFCP2L1	2	122038815	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	292110	122038815	121160558	595	77760											
MKI67IP	84365	broad.mit.edu	37	chr2	122493259	122493259	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatgaaaagatctgggttTcgtcaagtaggttaggtagg	13	12	13	3	1	2	2	1	1	1	1	3	2	2	2	0	4	0	4	0	4	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:122493259T>G	uc002tnk.2	-	2	250	c.173A>C	c.(172-174)GAA>GCA	p.E58A	MKI67IP_uc010fls.2_Missense_Mutation_p.E58A	NM_032390	NP_115766	Q9BYG3	MK67I_HUMAN	MKI67 interacting nucleolar phosphoprotein	58	RRM.				protein complex assembly|rRNA metabolic process|rRNA transcription	condensed nuclear chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						GATCTGGGTTTCGTCAAGTAG	0.393													15	95					0	0	1	0	0		G	122493259	G	G	122493259	3	3	151	1	0	0	0	0	1	0	0	0	9617	1783	62	5	732	5	MKI67IP	2	122493259	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	454444	122493259	120706114	596	77761											
MKI67IP	84365	broad.mit.edu	37	chr2	122494368	122494368	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctccttttgaaactcgAcatcttcctgcggattaagc	9	12	6	14	2	1	1	0	1	1	0	4	3	3	2	4	1	3	0	4	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:122494368A>G	uc002tnk.2	-	1	136	c.59T>C	c.(58-60)GTC>GCC	p.V20A	MKI67IP_uc010fls.2_Missense_Mutation_p.V20A	NM_032390	NP_115766	Q9BYG3	MK67I_HUMAN	MKI67 interacting nucleolar phosphoprotein	20					protein complex assembly|rRNA metabolic process|rRNA transcription	condensed nuclear chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						TTGAAACTCGACATCTTCCTG	0.632													7	49					0	0	1	0	0		G	122494368	G	G	122494368	3	3	151	1	0	0	0	0	1	0	0	0	9617	275	10	3	850	3	MKI67IP	2	122494368	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1109	122494368	120705005	597	77762											
CNTNAP5	129684	broad.mit.edu	37	chr2	125504828	125504828	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaacaccatttacctggtgGattgggcggtccaatgaaag	11	9	13	8	1	0	1	0	1	0	0	1	3	1	3	3	5	2	0	3	5	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:125504828G>T	uc002tno.2	+	14	2461	c.2097G>T	c.(2095-2097)TGG>TGT	p.W699C	CNTNAP5_uc010flu.2_Missense_Mutation_p.W700C	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	699	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TTACCTGGTGGATTGGGCGGT	0.552													14	68					0.000151284	0.000152917	1	1	0		T	125504828	T	T	125504828	3	4	151	1	0	0	0	0	1	0	0	0	3653	1183	41	5	2151	5	CNTNAP5	2	125504828	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3010460	125504828	117694545	598	77763											
MYO7B	4648	broad.mit.edu	37	chr2	128389922	128389922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagaagtttatagacactcGgagggggaagctgctggccc	10	7	14	10	1	0	2	0	0	0	2	1	4	0	4	2	4	2	3	2	4	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:128389922G>A	uc002top.2	+	38	5326	c.5273G>A	c.(5272-5274)CGG>CAG	p.R1758Q	MYO7B_uc002tos.1_5'Flank|MYO7B_uc002tot.2_5'Flank	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	1758	MyTH4 2.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		ATAGACACTCGGAGGGGGAAG	0.682													10	27					0	0	1	0	0		A	128389922	A	A	128389922	3	1	151	1	0	0	0	0	1	0	0	0	10101	1116	39	1	5419	1	MYO7B	2	128389922	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2885094	128389922	114809451	599	77764											
MYO7B	4648	broad.mit.edu	37	chr2	128389955	128389955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcccccgactgcagccGccgaatccagaaggtcctga	8	5	12	16	3	0	2	0	1	0	1	2	4	2	2	6	2	2	2	6	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:128389955G>A	uc002top.2	+	38	5359	c.5306G>A	c.(5305-5307)CGC>CAC	p.R1769H	MYO7B_uc002tos.1_5'Flank|MYO7B_uc002tot.2_5'Flank	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	1769	MyTH4 2.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GACTGCAGCCGCCGAATCCAG	0.682													13	23					0	0	1	0	0		A	128389955	A	A	128389955	3	1	151	1	0	0	0	0	1	0	0	0	10101	1087	38	1	5452	1	MYO7B	2	128389955	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	33	128389955	114809418	600	77765											
WDR33	55339	broad.mit.edu	37	chr2	128525807	128525807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactttatttgttgatgtccGaacaaattttgttgttactg	9	20	7	5	1	0	1	0	1	0	0	1	2	1	1	1	0	3	3	1	0	5	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:128525807G>A	uc002tpg.1	-	4	517	c.334C>T	c.(334-336)CGG>TGG	p.R112W	WDR33_uc002tph.1_Missense_Mutation_p.R112W|WDR33_uc002tpi.1_Missense_Mutation_p.R112W	NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	112					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		GTTGATGTCCGAACAAATTTT	0.343													6	18					0	0	1	0	0		A	128525807	A	A	128525807	3	1	151	1	0	0	0	0	1	0	0	0	17313	1057	37	1	4161	1	WDR33	2	128525807	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	135852	128525807	114673566	601	77766											
UGGT1	56886	broad.mit.edu	37	chr2	128934410	128934410	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acgatggcactgattctcccCctgatgctgatgaggtggtt	7	12	12	10	1	1	4	0	4	1	0	2	5	1	4	2	3	1	3	2	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:128934410C>A	uc002tps.2	+	32	3740	c.3562C>A	c.(3562-3564)CCT>ACT	p.P1188T	UGGT1_uc002tpr.2_Missense_Mutation_p.P1164T	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	1188					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						TGATTCTCCCCCTGATGCTGA	0.418													48	298					4.78724e-31	5.02207e-31	1	1	0		A	128934410	A	A	128934410	3	1	151	1	0	0	0	0	1	0	0	0	16967	623	22	5	3688	5	UGGT1	2	128934410	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	408603	128934410	114264963	602	77767											
FAM123C	205147	broad.mit.edu	37	chr2	131520855	131520855	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacaagaaggaagctgagAgcccaggcactcctgccgcc	12	3	13	13	1	0	2	0	1	0	2	1	5	1	4	4	3	3	2	4	3	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:131520855A>G	uc002trw.2	+	2	1400	c.1210A>G	c.(1210-1212)AGC>GGC	p.S404G	FAM123C_uc010fmv.2_Missense_Mutation_p.S404G|FAM123C_uc010fms.1_Missense_Mutation_p.S404G|FAM123C_uc010fmt.1_Missense_Mutation_p.S404G|FAM123C_uc010fmu.1_Missense_Mutation_p.S404G	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	404										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GGAAGCTGAGAGCCCAGGCAC	0.627													11	39					0	0	1	0	0		G	131520855	G	G	131520855	3	3	151	1	0	0	0	0	1	0	0	0	5435	304	11	3	1212	3	FAM123C	2	131520855	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2586445	131520855	111678518	603	77768											
FAM123C	205147	broad.mit.edu	37	chr2	131521980	131521980	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcccttgcagctcagcAcagaggctgtggagcaggtg	9	6	14	12	0	1	1	1	0	0	1	1	2	1	2	2	3	5	5	2	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:131521980A>G	uc002trw.2	+	2	2525	c.2335A>G	c.(2335-2337)ACA>GCA	p.T779A	FAM123C_uc010fmv.2_Missense_Mutation_p.T779A|FAM123C_uc010fms.1_Missense_Mutation_p.T779A|FAM123C_uc010fmt.1_Missense_Mutation_p.T779A|FAM123C_uc010fmu.1_Missense_Mutation_p.T779A	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	779										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GCAGCTCAGCACAGAGGCTGT	0.672													5	13					0	0	1	0	0		G	131521980	G	G	131521980	3	3	151	1	0	0	0	0	1	0	0	0	5435	159	6	3	2337	3	FAM123C	2	131521980	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1125	131521980	111677393	604	77769											
MGAT5	4249	broad.mit.edu	37	chr2	135185960	135185960	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccatacatgccatatgaaTttacgtgcgaggggatgcta	12	10	11	8	2	0	1	0	1	0	0	0	3	0	2	2	2	6	1	2	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:135185960T>A	uc002ttv.1	+	14	1964	c.1819T>A	c.(1819-1821)TTT>ATT	p.F607I		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	607	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		GCCATATGAATTTACGTGCGA	0.453													24	108					0	0	1	0	0		A	135185960	A	A	135185960	3	1	151	1	0	0	0	0	1	0	0	0	9566	1493	52	5	1873	5	MGAT5	2	135185960	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3663980	135185960	108013413	605	77770											
RAB3GAP1	22930	broad.mit.edu	37	chr2	135848570	135848570	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttattggtacatatagggTatatttacttctggcacatg	10	18	8	5	0	1	0	0	0	1	0	1	0	1	0	0	3	2	3	0	3	7	11			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:135848570T>C	uc002tuj.2	+	4	178	c.153T>C	c.(151-153)GGT>GGC	p.G51G	RAB3GAP1_uc010fnf.2_Silent_p.G51G|RAB3GAP1_uc010fng.2_5'UTR|RAB3GAP1_uc010fnh.1_RNA	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein	51						centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		ACATATAGGGTATATTTACTT	0.343													30	148					0	0	1	0	0		C	135848570	C	C	135848570	2	2	151	1	0	0	0	0	0	0	0	1	12960	1625	57	3		3	RAB3GAP1	2	135848570	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	662610	135848570	107350803	606	77771											
LCT	3938	broad.mit.edu	37	chr2	136548301	136548301	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggtctgtttcttcccgCtgggacactccattctctgt	4	16	9	12	1	3	1	0	1	3	0	6	2	5	2	2	2	0	2	2	2	0	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:136548301C>T	uc002tuu.1	-	15	5273	c.5262G>A	c.(5260-5262)CAG>CAA	p.Q1754Q		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1754	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TTTCTTCCCGCTGGGACACTC	0.517													20	69					0	0	1	0	0		T	136548301	T	T	136548301	2	4	151	1	0	0	0	0	0	0	0	1	8709	796	28	2		2	LCT	2	136548301	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	699731	136548301	106651072	607	77772											
CXCR4	7852	broad.mit.edu	37	chr2	136872772	136872772	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagaaagccaggatgaggatGactgtggtcttgagggcctt	11	9	15	6	0	1	4	0	3	1	1	1	6	1	6	2	4	1	0	2	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:136872772G>A	uc002tuz.2	-	2	821	c.726C>T	c.(724-726)GTC>GTT	p.V242V	CXCR4_uc002tuy.2_Silent_p.V246V|CXCR4_uc010fnk.2_Silent_p.V227V	NM_003467	NP_003458	P61073	CXCR4_HUMAN	chemokine (C-X-C motif) receptor 4 isoform b	242	Helical; Name=6.			VIL -> IIP (in Ref. 12; AAK29630).	activation of MAPK activity|apoptosis|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|inflammatory response|initiation of viral infection|regulation of chemotaxis|response to hypoxia|response to virus	cell leading edge|cell surface|cytoplasmic membrane-bounded vesicle|integral to membrane|plasma membrane	actin binding|C-X-C chemokine receptor activity|coreceptor activity|myosin light chain binding|ubiquitin binding|ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.155)	Framycetin(DB00452)	GGATGAGGATGACTGTGGTCT	0.517													34	141					0	0	1	0	0		A	136872772	A	A	136872772	2	1	151	1	0	0	0	0	0	0	0	1	4096	1277	45	4		4	CXCR4	2	136872772	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	324471	136872772	106326601	608	77773											
THSD7B	80731	broad.mit.edu	37	chr2	138169187	138169187	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttggaacagggaaaagcAgaaagaaggagaaatgccag	18	5	14	4	0	0	3	0	0	0	3	0	6	0	5	1	3	3	2	1	3	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:138169187A>G	uc002tva.1	+	13	2611	c.2611A>G	c.(2611-2613)AGA>GGA	p.R871G	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.R761G	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AGGGAAAAGCAGAAAGAAGGA	0.358													26	104					0	0	1	0	0		G	138169187	G	G	138169187	3	3	151	1	0	0	0	0	1	0	0	0	15905	180	7	3	2661	3	THSD7B	2	138169187	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1296415	138169187	105030186	609	77774											
LRP1B	53353	broad.mit.edu	37	chr2	141232837	141232837	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtttctatgacaacactCtgattggttccatccattcc	8	16	6	11	0	2	2	0	2	2	0	5	2	5	2	3	2	1	2	3	2	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:141232837C>A	uc002tvj.1	-	60	10467	c.9495G>T	c.(9493-9495)CAG>CAT	p.Q3165H		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3165	Extracellular (Potential).|LDL-receptor class B 30.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TGACAACACTCTGATTGGTTC	0.363										TSP Lung(27;0.18)			29	100					7.53681e-25	7.88976e-25	1	1	0		A	141232837	A	A	141232837	3	1	151	1	0	0	0	0	1	0	0	0	8973	912	32	5	4432	5	LRP1B	2	141232837	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3063650	141232837	101966536	610	77775											
LRP1B	53353	broad.mit.edu	37	chr2	141243084	141243084	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcattggggaccgctgtgtTatgaactacctacaaaacaa	13	10	9	9	1	0	1	0	1	0	0	0	2	0	2	2	2	5	3	2	2	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:141243084T>C	uc002tvj.1	-	59	10225	c.9253A>G	c.(9253-9255)AAC>GAC	p.N3085D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3085	Extracellular (Potential).|LDL-receptor class B 28.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACCGCTGTGTTATGAACTACC	0.353										TSP Lung(27;0.18)			22	63					0	0	1	0	0		C	141243084	C	C	141243084	3	2	151	1	0	0	0	0	1	0	0	0	8973	1754	61	3	4678	3	LRP1B	2	141243084	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10247	141243084	101956289	611	77776											
KYNU	8942	broad.mit.edu	37	chr2	143718259	143718259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaggagactcaattgcaGtgatcctgttcagtggggtg	10	10	15	6	0	2	2	2	1	0	1	3	4	3	3	1	4	1	2	1	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:143718259G>A	uc002tvl.2	+	8	779	c.649G>A	c.(649-651)GTG>ATG	p.V217M	KYNU_uc002tvk.2_Missense_Mutation_p.V217M|KYNU_uc010fnm.2_Missense_Mutation_p.V217M	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	217					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	CTCAATTGCAGTGATCCTGTT	0.423													34	126					0	0	1	0	0		A	143718259	A	A	143718259	3	1	151	1	0	0	0	0	1	0	0	0	8603	1029	36	4	675	4	KYNU	2	143718259	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2475175	143718259	99481114	612	77777											
ARHGAP15	55843	broad.mit.edu	37	chr2	144525621	144525621	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggggattgtatttggaccTacccttctgcgagctgaaaa	9	13	11	8	1	1	1	0	1	1	0	1	4	1	3	2	3	3	2	2	3	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:144525621T>C	uc002tvm.3	+	14	1459	c.1308T>C	c.(1306-1308)CCT>CCC	p.P436P	ARHGAP15_uc002tvn.2_Silent_p.P202P	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	436	Rho-GAP.				regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		TATTTGGACCTACCCTTCTGC	0.458													33	160					0	0	1	0	0		C	144525621	C	C	144525621	2	2	151	1	0	0	0	0	0	0	0	1	866	1509	53	3		3	ARHGAP15	2	144525621	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	807362	144525621	98673752	613	77778											
ORC4L	5000	broad.mit.edu	37	chr2	148693233	148693233	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaagttctttccatgggcTttattaattctaattgctgc	8	18	7	8	0	2	1	0	1	2	0	3	1	3	1	1	1	2	3	1	1	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:148693233T>C	uc002twi.2	-	14	1292	c.1157A>G	c.(1156-1158)AAG>AGG	p.K386R	ORC4L_uc002twj.2_Missense_Mutation_p.K386R|ORC4L_uc010zbo.1_Missense_Mutation_p.K312R|ORC4L_uc010zbp.1_Missense_Mutation_p.K169R|ORC4L_uc010fnr.2_3'UTR|ORC4L_uc010zbq.1_Missense_Mutation_p.K302R|ORC4L_uc002twk.2_Missense_Mutation_p.K386R|ORC4L_uc002twl.1_RNA	NM_181741	NP_859525	O43929	ORC4_HUMAN	origin recognition complex subunit 4	386					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|nucleoside-triphosphatase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.0963)|COAD - Colon adenocarcinoma(177;0.203)		TTCCATGGGCTTTATTAATTC	0.383													53	194					0	0	1	0	0		C	148693233	C	C	148693233	3	2	151	1	0	0	0	0	1	0	0	0	11283	1609	56	3	157	3	ORC4L	2	148693233	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4167612	148693233	94506140	614	77779											
ORC4L	5000	broad.mit.edu	37	chr2	148733504	148733504	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgtgtgaattaagctgttActctttgatttacgactgct	8	18	8	7	1	2	2	0	2	2	0	2	3	2	2	0	0	4	3	0	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:148733504A>G	uc002twi.2	-	2	159	c.24T>C	c.(22-24)AGT>AGC	p.S8S	ORC4L_uc002twj.2_Silent_p.S8S|ORC4L_uc010zbo.1_Intron|ORC4L_uc010zbp.1_5'UTR|ORC4L_uc010fnr.2_Silent_p.S8S|ORC4L_uc010zbq.1_Intron|ORC4L_uc002twk.2_Silent_p.S8S|ORC4L_uc010zbr.1_Silent_p.S8S	NM_181741	NP_859525	O43929	ORC4_HUMAN	origin recognition complex subunit 4	8					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|nucleoside-triphosphatase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.0963)|COAD - Colon adenocarcinoma(177;0.203)		TTAAGCTGTTACTCTTTGATT	0.294													20	113					0	0	1	0	0		G	148733504	G	G	148733504	2	3	151	1	0	0	0	0	0	0	0	1	11283	388	14	3		3	ORC4L	2	148733504	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	40271	148733504	94465869	615	77780											
MBD5	55777	broad.mit.edu	37	chr2	149247708	149247708	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcaggtataataactacAaaagaactatgatgagtttt	17	14	6	4	0	1	3	1	2	0	1	1	3	1	3	0	1	3	2	0	1	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:149247708A>G	uc002twm.3	+	12	4796	c.3808A>G	c.(3808-3810)AAA>GAA	p.K1270E	MBD5_uc010zbs.1_Intron|MBD5_uc010fns.2_Missense_Mutation_p.K1270E|MBD5_uc002two.2_Missense_Mutation_p.K528E|MBD5_uc002twp.2_Missense_Mutation_p.K320E	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1270						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		TAATAACTACAAAAGAACTAT	0.418													24	99					0	0	1	0	0		G	149247708	G	G	149247708	3	3	151	1	0	0	0	0	1	0	0	0	9365	131	5	3	3834	3	MBD5	2	149247708	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	514204	149247708	93951665	616	77781											
NMI	9111	broad.mit.edu	37	chr2	152139394	152139394	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttaccttattttgttcAtcttttataaattcatctgg	8	23	3	7	0	4	0	2	0	2	0	4	0	4	0	1	1	1	1	1	1	5	11			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:152139394A>G	uc002txi.2	-	2	399	c.69T>C	c.(67-69)GAT>GAC	p.D23D	NMI_uc010zbx.1_Silent_p.D23D|NMI_uc002txj.2_Silent_p.D23D	NM_004688	NP_004679	Q13287	NMI_HUMAN	N-myc and STAT interactor	23					inflammatory response|JAK-STAT cascade|transcription from RNA polymerase II promoter	cytoplasm|nucleus	nucleotide binding|protein binding|transcription cofactor activity				0				BRCA - Breast invasive adenocarcinoma(221;0.0571)		TATTTTGTTCATCTTTTATAA	0.269													17	64					0	0	1	0	0		G	152139394	G	G	152139394	2	3	151	1	0	0	0	0	0	0	0	1	10516	214	8	3		3	NMI	2	152139394	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2891686	152139394	91059979	617	77782											
RIF1	55183	broad.mit.edu	37	chr2	152321218	152321218	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtaggagggtgaggagAtctaaaggttgtgattgctg	12	10	17	2	0	1	4	0	2	1	2	1	6	1	5	0	4	1	3	0	4	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:152321218A>T	uc002txm.2	+	30	5314	c.5184A>T	c.(5182-5184)AGA>AGT	p.R1728S	RIF1_uc002txl.2_Missense_Mutation_p.R1728S|RIF1_uc002txn.2_Missense_Mutation_p.R1728S|RIF1_uc002txo.2_Missense_Mutation_p.R1728S|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	1728					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		GGGTGAGGAGATCTAAAGGTT	0.368													15	72					0	0	1	0	0		T	152321218	T	T	152321218	3	4	151	1	0	0	0	0	1	0	0	0	13384	330	12	5	5298	5	RIF1	2	152321218	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	181824	152321218	90878155	618	77783											
NEB	4703	broad.mit.edu	37	chr2	152476094	152476094	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacacttcttggccaaaacGataccaagcatgtccactgg	12	9	8	12	1	1	1	0	1	1	0	2	2	2	1	3	2	3	1	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:152476094G>A	uc010fnx.2	-	69	10205	c.10014C>T	c.(10012-10014)ATC>ATT	p.I3338I		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3338	Nebulin 91.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGGCCAAAACGATACCAAGCA	0.478													26	115					0	0	1	0	0		A	152476094	A	A	152476094	2	1	151	1	0	0	0	0	0	0	0	1	10321	1048	37	1		1	NEB	2	152476094	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	154876	152476094	90723279	619	77784											
NEB	4703	broad.mit.edu	37	chr2	152584353	152584353	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggctgtgccagagctggtTtggaagtttctgattgctca	6	14	13	8	0	2	2	1	1	1	1	2	3	2	3	1	3	3	5	1	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:152584353T>C	uc010fnx.2	-	5	337	c.146A>G	c.(145-147)AAA>AGA	p.K49R		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	49					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CAGAGCTGGTTTGGAAGTTTC	0.443													21	82					0	0	1	0	0		C	152584353	C	C	152584353	3	2	151	1	0	0	0	0	1	0	0	0	10321	1841	64	3	26252	3	NEB	2	152584353	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	108259	152584353	90615020	620	77785											
FMNL2	114793	broad.mit.edu	37	chr2	153192179	153192179	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcgcacaacgtgccttTgaagctgccgatgccagagc	9	6	13	13	3	0	2	0	1	0	1	0	3	0	2	3	1	6	2	3	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:153192179T>C	uc002tye.2	+	1	429	c.62T>C	c.(61-63)TTG>TCG	p.L21S		NM_052905	NP_443137	Q96PY5	FMNL2_HUMAN	formin-like 2	21					actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|ovary(1)	3						AACGTGCCTTTGAAGCTGCCG	0.413													5	14					0	0	1	0	0		C	153192179	C	C	153192179	3	2	151	1	0	0	0	0	1	0	0	0	5966	1821	63	3	64	3	FMNL2	2	153192179	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	607826	153192179	90007194	621	77786											
PRPF40A	55660	broad.mit.edu	37	chr2	153514439	153514439	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttcttaggcgatttgtgTtttgattctgatctttgtct	4	24	8	5	1	4	2	0	2	4	0	4	3	4	2	0	1	0	1	0	1	1	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:153514439T>C	uc002tyh.3	-	25	2686	c.2664A>G	c.(2662-2664)AAA>AAG	p.K888K	PRPF40A_uc002tyg.3_Silent_p.K344K|PRPF40A_uc010zcd.1_Silent_p.K839K	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	915					mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						GCGATTTGTGTTTTGATTCTG	0.348													11	44					0	0	1	0	0		C	153514439	C	C	153514439	2	2	151	1	0	0	0	0	0	0	0	1	12593	1722	60	3		3	PRPF40A	2	153514439	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	322260	153514439	89684934	622	77787											
NR4A2	4929	broad.mit.edu	37	chr2	157185874	157185874	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcacaggtgcgcacgccGtagtgttggcaggccgcgtt	5	8	14	14	5	1	0	1	0	0	0	1	0	1	0	3	3	1	5	3	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:157185874G>A	uc002tyz.3	-	3	1247	c.825C>T	c.(823-825)TAC>TAT	p.Y275Y	NR4A2_uc002tyx.3_Silent_p.Y212Y|NR4A2_uc010zcf.1_Silent_p.Y275Y|NR4A2_uc010zcg.1_5'Flank	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	275	NR C4-type.|Nuclear receptor.				cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						TGCGCACGCCGTAGTGTTGGC	0.677													4	10					0	0	1	0	0		A	157185874	A	A	157185874	2	1	151	1	0	0	0	0	0	0	0	1	10652	1140	40	1		1	NR4A2	2	157185874	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3671435	157185874	86013499	623	77788											
GALNT5	11227	broad.mit.edu	37	chr2	158152254	158152254	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctggaaagagtttatttAagtagaaagaaagtggcctg	14	12	11	4	0	1	3	0	0	1	3	1	4	1	4	1	2	0	2	1	2	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:158152254A>G	uc002tzg.2	+	4	2076	c.1821A>G	c.(1819-1821)TTA>TTG	p.L607L	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	607	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						GAGTTTATTTAAGTAGAAAGA	0.373													69	260					0	0	1	0	0		G	158152254	G	G	158152254	2	3	151	1	0	0	0	0	0	0	0	1	6231	359	13	3		3	GALNT5	2	158152254	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	966380	158152254	85047119	624	77789											
ERMN	57471	broad.mit.edu	37	chr2	158182017	158182017	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgcaccttccagactgggTtctaccctgtagtgtggcag	7	11	12	11	0	1	1	0	0	1	1	2	1	2	1	3	2	2	4	3	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:158182017T>C	uc002tzh.2	-	1	400	c.138A>G	c.(136-138)GAA>GAG	p.E46E	ERMN_uc010zcj.1_5'Flank|ERMN_uc010zck.1_Silent_p.E46E|ERMN_uc002tzi.2_Silent_p.E59E	NM_020711	NP_065762	Q8TAM6	ERMIN_HUMAN	ermin, ERM-like protein isoform b	46						cytoplasm|cytoskeleton				ovary(1)|skin(1)	2						CCAGACTGGGTTCTACCCTGT	0.458													27	118					0	0	1	0	0		C	158182017	C	C	158182017	2	2	151	1	0	0	0	0	0	0	0	1	5243	1722	60	3		3	ERMN	2	158182017	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	29763	158182017	85017356	625	77790											
CYTIP	9595	broad.mit.edu	37	chr2	158287107	158287107	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatctgatcaggtcaacgActtgtttgtaggtaaaacct	12	12	9	8	2	3	1	2	1	1	0	3	3	3	1	1	2	2	3	1	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:158287107A>C	uc002tzj.1	-	5	512	c.440T>G	c.(439-441)GTC>GGC	p.V147G	CYTIP_uc010zcl.1_Missense_Mutation_p.V41G	NM_004288	NP_004279	O60759	CYTIP_HUMAN	cytohesin 1 interacting protein	147	PDZ.				regulation of cell adhesion	cell cortex|early endosome	protein binding			ovary(1)|kidney(1)|skin(1)	3						CAGGTCAACGACTTGTTTGTA	0.418													24	100					0	0	1	0	0		C	158287107	C	C	158287107	3	2	151	1	0	0	0	0	1	0	0	0	4210	275	10	5	655	5	CYTIP	2	158287107	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	105090	158287107	84912266	626	77791											
ACVR1C	130399	broad.mit.edu	37	chr2	158412846	158412846	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggggcatttggtgatgcTacagtttaaagaagaaagaa	14	12	12	3	0	0	4	0	1	0	3	0	4	0	4	0	3	2	3	0	3	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:158412846T>C	uc002tzk.3	-	3	548	c.305_splice	c.e3-1	p.A102_splice	ACVR1C_uc002tzl.3_Intron|ACVR1C_uc010fof.2_Intron|ACVR1C_uc010foe.2_Splice_Site_p.A52_splice	NM_145259	NP_660302	Q8NER5	ACV1C_HUMAN	activin A receptor, type IC isoform 1						apoptosis|cell differentiation|regulation of apoptosis	activin receptor complex	activin receptor activity, type I|ATP binding|transforming growth factor beta receptor activity			lung(3)|ovary(2)|skin(2)	7						TTGGTGATGCTACAGTTTAAA	0.403													28	86					0	0	1	0	0		C	158412846	C	C	158412846	5	2	151	1	0	0	0	0	0	0	1	0	222	1536	53	3	1206	3	ACVR1C	2	158412846	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	125739	158412846	84786527	627	77792											
ACVR1	90	broad.mit.edu	37	chr2	158594106	158594106	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaagtctttttgatacgCagtgctgtgagtcttgcgga	8	14	12	7	2	3	2	1	2	2	0	3	3	3	3	0	1	3	2	0	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:158594106C>A	uc002tzm.3	-	12	1806	c.1467G>T	c.(1465-1467)CTG>CTT	p.L489L	ACVR1_uc002tzn.3_Silent_p.L489L|ACVR1_uc010fog.2_Silent_p.L489L	NM_001111067	NP_001104537	Q04771	ACVR1_HUMAN	activin A receptor, type I precursor	489	Cytoplasmic (Potential).|Protein kinase.				BMP signaling pathway|G1/S transition of mitotic cell cycle|negative regulation of activin receptor signaling pathway|negative regulation of apoptosis|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	activin receptor complex	activin binding|ATP binding|follistatin binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta binding			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.104)	Adenosine triphosphate(DB00171)	TTTTGATACGCAGTGCTGTGA	0.388													29	118					5.60225e-13	5.80974e-13	1	1	0		A	158594106	A	A	158594106	2	1	151	1	0	0	0	0	0	0	0	1	220	697	25	5		5	ACVR1	2	158594106	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	181260	158594106	84605267	628	77793											
UPP2	151531	broad.mit.edu	37	chr2	158971625	158971625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attaacagtttgtctgtgtcGgtgggagccccaacagaatg	10	11	12	8	1	1	1	0	0	1	1	2	2	1	2	2	2	3	1	2	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:158971625G>A	uc002tzp.2	+	3	387	c.193G>A	c.(193-195)GGT>AGT	p.G65S	UPP2_uc002tzo.2_Missense_Mutation_p.G122S	NM_173355	NP_775491	O95045	UPP2_HUMAN	uridine phosphorylase 2 isoform a	65					nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage|uridine metabolic process	cytosol|type III intermediate filament	uridine phosphorylase activity				0						TGTCTGTGTCGGTGGGAGCCC	0.418													31	82					0	0	1	0	0		A	158971625	A	A	158971625	3	1	151	1	0	0	0	0	1	0	0	0	17039	1116	39	1	382	1	UPP2	2	158971625	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	377519	158971625	84227748	629	77794											
PKP4	8502	broad.mit.edu	37	chr2	159517885	159517885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaagctcggaagcaaatgCggtcctgcgaggggctggta	11	6	16	8	3	0	1	0	0	0	1	2	3	1	2	1	5	4	4	1	5	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:159517885C>T	uc002tzv.2	+	13	2394	c.2134C>T	c.(2134-2136)CGG>TGG	p.R712W	PKP4_uc002tzt.1_Missense_Mutation_p.R564W|PKP4_uc002tzu.2_Missense_Mutation_p.R712W|PKP4_uc002tzw.2_Missense_Mutation_p.R712W|PKP4_uc002tzx.2_Missense_Mutation_p.R369W|PKP4_uc002tzy.1_Missense_Mutation_p.R370W|PKP4_uc002uaa.2_Missense_Mutation_p.R564W|uc002uab.1_RNA|PKP4_uc002uac.2_5'Flank	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	712	ARM 6.				cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						GAAGCAAATGCGGTCCTGCGA	0.577										HNSCC(62;0.18)			33	41					0	0	1	0	0		T	159517885	T	T	159517885	3	4	151	1	0	0	0	0	1	0	0	0	12006	759	27	1	2180	1	PKP4	2	159517885	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	546260	159517885	83681488	630	77795											
LY75	4065	broad.mit.edu	37	chr2	160738648	160738648	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttaccctcattatggagTtttgtgacaaccacctccac	11	12	5	13	0	1	1	1	1	0	0	2	2	2	2	4	1	3	1	4	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:160738648T>C	uc002ubc.3	-	7	1302	c.1233A>G	c.(1231-1233)AAA>AAG	p.K411K	LY75_uc002ubb.3_Silent_p.K411K|LY75_uc010fos.2_Silent_p.K411K|LY75_uc010fot.1_Silent_p.K411K	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	411	C-type lectin 2.|Extracellular (Potential).				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		CATTATGGAGTTTTGTGACAA	0.388													44	181					0	0	1	0	0		C	160738648	C	C	160738648	2	2	151	1	0	0	0	0	0	0	0	1	9117	1722	60	3		3	LY75	2	160738648	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1220763	160738648	82460725	631	77796											
RBMS1	5937	broad.mit.edu	37	chr2	161133827	161133827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccaacctcaacaggaaccGctgtcgtctgcatatgtgca	11	9	8	13	2	2	0	1	0	1	0	3	1	2	1	3	1	6	3	3	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:161133827G>A	uc002ubo.2	-	12	1574	c.1130C>T	c.(1129-1131)GCG>GTG	p.A377V	RBMS1_uc002ubj.2_Missense_Mutation_p.A357V|RBMS1_uc002ubk.2_Missense_Mutation_p.A341V|RBMS1_uc002ubl.2_Missense_Mutation_p.A372V|RBMS1_uc002ubn.2_Missense_Mutation_p.A374V|RBMS1_uc002ubi.3_Missense_Mutation_p.A390V|RBMS1_uc002ubm.2_Missense_Mutation_p.A360V|RBMS1_uc002ubp.2_Missense_Mutation_p.A393V	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	377					DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						AACAGGAACCGCTGTCGTCTG	0.438													24	83					0	0	1	0	0		A	161133827	A	A	161133827	3	1	151	1	0	0	0	0	1	0	0	0	13173	1087	38	1	98	1	RBMS1	2	161133827	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	395179	161133827	82065546	632	77797											
RBMS1	5937	broad.mit.edu	37	chr2	161135111	161135111	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgggccagagggctgAtcattgatgcgggctgtagt	6	11	16	8	1	2	3	1	2	1	1	2	3	2	3	1	3	2	4	1	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:161135111A>G	uc002ubo.2	-	11	1454	c.1010T>C	c.(1009-1011)ATC>ACC	p.I337T	RBMS1_uc002ubj.2_Missense_Mutation_p.I317T|RBMS1_uc002ubk.2_Missense_Mutation_p.I301T|RBMS1_uc002ubl.2_Missense_Mutation_p.I332T|RBMS1_uc002ubn.2_Missense_Mutation_p.I334T|RBMS1_uc002ubi.3_Missense_Mutation_p.I350T|RBMS1_uc002ubm.2_Missense_Mutation_p.I320T|RBMS1_uc002ubp.2_Missense_Mutation_p.I353T	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	337					DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						CAGAGGGCTGATCATTGATGC	0.507											OREG0015036	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	37					0	0	1	0	0		G	161135111	G	G	161135111	3	3	151	1	0	0	0	0	1	0	0	0	13173	333	12	3	222	3	RBMS1	2	161135111	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1284	161135111	82064262	633	77798											
RBMS1	5937	broad.mit.edu	37	chr2	161141508	161141508	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttattttaacgacatacccGttctgtatagcagctgtagt	10	16	7	8	2	1	0	0	0	1	0	1	1	1	0	1	0	4	5	1	0	6	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:161141508G>A	uc002ubo.2	-	8	1248	c.804C>T	c.(802-804)AAC>AAT	p.N268N	RBMS1_uc002ubj.2_Silent_p.N232N|RBMS1_uc002ubk.2_Silent_p.N232N|RBMS1_uc002ubl.2_Silent_p.N263N|RBMS1_uc002ubn.2_Silent_p.N265N|RBMS1_uc002ubi.3_Silent_p.N265N|RBMS1_uc002ubm.2_Silent_p.N235N|RBMS1_uc002ubp.2_Silent_p.N268N|RBMS1_uc010fox.2_Silent_p.N268N	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	268					DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						CGACATACCCGTTCTGTATAG	0.343													27	90					0	0	1	0	0		A	161141508	A	A	161141508	2	1	151	1	0	0	0	0	0	0	0	1	13173	1136	40	1		1	RBMS1	2	161141508	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	6397	161141508	82057865	634	77799											
TBR1	10716	broad.mit.edu	37	chr2	162273269	162273269	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagccagccacagtctgcGgccactgctcccagtgccat	7	7	9	18	1	1	0	0	0	1	0	3	0	3	0	6	1	5	1	6	1	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:162273269G>A	uc002ubw.1	+	1	650	c.348G>A	c.(346-348)GCG>GCA	p.A116A	TBR1_uc010foy.2_5'Flank	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	116						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CACAGTCTGCGGCCACTGCTC	0.647													34	110					0	0	1	0	0		A	162273269	A	A	162273269	2	1	151	1	0	0	0	0	0	0	0	1	15672	1103	39	1		1	TBR1	2	162273269	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1131761	162273269	80926104	635	77800											
TBR1	10716	broad.mit.edu	37	chr2	162275431	162275431	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttacagtccttgcacaagtAccagccccgcctgcatgtgg	8	10	9	14	1	0	0	0	0	0	0	1	0	1	0	5	1	5	3	5	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:162275431A>G	uc002ubw.1	+	4	1300	c.998A>G	c.(997-999)TAC>TGC	p.Y333C	TBR1_uc010foy.2_Missense_Mutation_p.Y46C	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	333	T-box.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						TTGCACAAGTACCAGCCCCGC	0.612													11	61					0	0	1	0	0		G	162275431	G	G	162275431	3	3	151	1	0	0	0	0	1	0	0	0	15672	391	14	3	1012	3	TBR1	2	162275431	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2162	162275431	80923942	636	77801											
GCG	2641	broad.mit.edu	37	chr2	163002048	163002048	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaataagaatgtacagacttActctcgccttcctcggcctt	11	12	6	12	2	1	2	0	0	1	2	4	2	2	2	3	1	2	1	3	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:163002048A>G	uc002ucc.2	-	4	491	c.392_splice	c.e4+1	p.D131_splice		NM_002054	NP_002045	P01275	GLUC_HUMAN	glucagon preproprotein						cell proliferation|cellular response to glucagon stimulus|energy reserve metabolic process|feeding behavior|regulation of insulin secretion	plasma membrane|soluble fraction	hormone activity				0					Exenatide(DB01276)|Phentolamine(DB00692)	GTACAGACTTACTCTCGCCTT	0.398													43	168					0	0	1	0	0		G	163002048	G	G	163002048	5	3	151	1	0	0	0	0	0	0	1	0	6305	405	14	3	160	3	GCG	2	163002048	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	726617	163002048	80197325	637	77802											
KCNH7	90134	broad.mit.edu	37	chr2	163230092	163230092	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcctgctgttaccatactgTaggctggggggaccacagtg	8	10	13	10	0	0	0	0	0	0	0	1	1	1	1	3	4	3	4	3	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:163230092T>C	uc002uch.1	-	15	3424	c.3212A>G	c.(3211-3213)TAC>TGC	p.Y1071C		NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	1071	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	TACCATACTGTAGGCTGGGGG	0.478													17	83					0	0	1	0	0		C	163230092	C	C	163230092	3	2	151	1	0	0	0	0	1	0	0	0	8053	1638	57	3	386	3	KCNH7	2	163230092	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	228044	163230092	79969281	638	77803											
KCNH7	90134	broad.mit.edu	37	chr2	163393494	163393494	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggggtggcagcgttttcaTtatccgtcacatattcaaaa	10	13	9	9	2	3	0	3	0	0	0	4	0	4	0	1	3	1	2	1	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:163393494T>C	uc002uch.1	-	3	616	c.404A>G	c.(403-405)AAT>AGT	p.N135S	KCNH7_uc002uci.2_Missense_Mutation_p.N135S	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	135	Cytoplasmic (Potential).|PAC.				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	AGCGTTTTCATTATCCGTCAC	0.378													59	262					0	0	1	0	0		C	163393494	C	C	163393494	3	2	151	1	0	0	0	0	1	0	0	0	8053	1493	52	3	3308	3	KCNH7	2	163393494	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	163402	163393494	79805879	639	77804											
FIGN	55137	broad.mit.edu	37	chr2	164467285	164467285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgtttgaaatgctgttgtCgggcattctgtacataggac	8	15	12	6	1	1	1	0	1	1	0	2	2	1	2	0	2	2	5	0	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:164467285C>T	uc002uck.1	-	3	1368	c.1057G>A	c.(1057-1059)GAC>AAC	p.D353N		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	353						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						ATGCTGTTGTCGGGCATTCTG	0.448													38	167					0	0	1	0	0		T	164467285	T	T	164467285	3	4	151	1	0	0	0	0	1	0	0	0	5905	884	31	1	1226	1	FIGN	2	164467285	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1073791	164467285	78732088	640	77805											
XIRP2	129446	broad.mit.edu	37	chr2	168105878	168105878	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agataagatgaaaaaggaagTtttacaaagctcaagggaca	20	7	10	4	0	1	3	1	1	0	2	1	5	1	5	0	2	2	2	0	2	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:168105878T>C	uc002udx.2	+	8	7994	c.7976T>C	c.(7975-7977)GTT>GCT	p.V2659A	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.V2484A|XIRP2_uc010fpq.2_Missense_Mutation_p.V2437A|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.V5A	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2484					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAAAAGGAAGTTTTACAAAGC	0.403													32	75					0	0	1	0	0		C	168105878	C	C	168105878	3	2	151	1	0	0	0	0	1	0	0	0	17456	1725	60	3	8006	3	XIRP2	2	168105878	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3638593	168105878	75093495	641	77806											
STK39	27347	broad.mit.edu	37	chr2	168931518	168931518	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcttcttttactcttcGtgactgtaaaacaattatgt	10	20	4	7	1	3	1	0	1	3	0	4	1	3	1	0	0	2	1	0	0	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:168931518G>A	uc002uea.2	-	12	1376	c.1216C>T	c.(1216-1218)CGA>TGA	p.R406*		NM_013233	NP_037365	Q9UEW8	STK39_HUMAN	serine threonine kinase 39 (STE20/SPS1 homolog,	406					response to stress	cytoplasm|nucleus	ATP binding|protein binding|receptor signaling protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2						TTTACTCTTCGTGACTGTAAA	0.318													23	92					0	0	1	0	0		A	168931518	A	A	168931518	4	1	151	1	0	0	0	0	0	1	0	0	15330	1153	40	1	449	1	STK39	2	168931518	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	825640	168931518	74267855	642	77807											
LRP2	4036	broad.mit.edu	37	chr2	170009453	170009453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaacctagagccctcccctCgcacagtgtaatacacaaca	14	6	5	16	1	0	1	0	0	0	1	2	1	1	1	4	0	4	2	4	0	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:170009453C>T	uc002ues.2	-	67	12530	c.12317G>A	c.(12316-12318)CGA>CAA	p.R4106Q		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4106	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GCCCTCCCCTCGCACAGTGTA	0.468													7	337					0	0	1	0	0		T	170009453	T	T	170009453	3	4	151	1	0	0	0	0	1	0	0	0	8974	884	31	1	1702	1	LRP2	2	170009453	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1077935	170009453	73189920	643	77808											
LRP2	4036	broad.mit.edu	37	chr2	170044660	170044660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcattatcctcatcacagaCgaaggttttactaatgcagc	12	12	7	10	1	3	1	3	0	0	1	4	2	4	1	1	1	3	2	1	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:170044660C>T	uc002ues.2	-	49	9361	c.9148G>A	c.(9148-9150)GTC>ATC	p.V3050I		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3050	LDL-receptor class A 24.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding	p.V3050I(1)		ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TCATCACAGACGAAGGTTTTA	0.512													45	158					0	0	1	0	0		T	170044660	T	T	170044660	3	4	151	1	0	0	0	0	1	0	0	0	8974	536	19	1	4943	1	LRP2	2	170044660	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	35207	170044660	73154713	644	77809											
LRP2	4036	broad.mit.edu	37	chr2	170097525	170097525	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggactcatctgtcccatTggggcagtcaaagatgccat	9	10	12	10	0	3	1	2	0	1	1	4	2	4	2	2	4	1	1	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:170097525T>C	uc002ues.2	-	25	4231	c.4018A>G	c.(4018-4020)AAT>GAT	p.N1340D	LRP2_uc010zdf.1_Missense_Mutation_p.N1203D	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1340	LDL-receptor class A 15.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TCTGTCCCATTGGGGCAGTCA	0.483													25	132					0	0	1	0	0		C	170097525	C	C	170097525	3	2	151	1	0	0	0	0	1	0	0	0	8974	1812	63	3	10169	3	LRP2	2	170097525	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	52865	170097525	73101848	645	77810											
FASTKD1	79675	broad.mit.edu	37	chr2	170413695	170413695	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtaaatttcagaaaagatAccttttaatcagacatgagt	16	13	6	6	1	2	4	2	1	0	3	3	4	2	4	1	0	1	1	1	0	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:170413695A>G	uc002uev.3	-	6	1470	c.1082_splice	c.e6+1	p.R361_splice	FASTKD1_uc002uew.3_Splice_Site|FASTKD1_uc002uex.3_Splice_Site_p.R347_splice	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1						apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4						CAGAAAAGATACCTTTTAATC	0.373													44	117					0	0	1	0	0		G	170413695	G	G	170413695	5	3	151	1	0	0	0	0	0	0	1	0	5699	405	14	3	1499	3	FASTKD1	2	170413695	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	316170	170413695	72785678	646	77811											
UBR3	130507	broad.mit.edu	37	chr2	170843155	170843155	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtaacttttttccctcagAttctcctgagaatgatattc	10	17	5	9	0	2	3	1	2	1	2	5	4	3	3	2	0	1	1	2	0	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:170843155A>T	uc010zdi.1	+	25	3635	c.3635A>T	c.(3634-3636)GAT>GTT	p.D1212V	UBR3_uc002ufr.3_Intron|UBR3_uc010fqa.2_Missense_Mutation_p.D33V|UBR3_uc002uft.3_Missense_Mutation_p.D65V	NM_172070	NP_742067	Q6ZT12	UBR3_HUMAN	E3 ubiquitin-protein ligase UBR3	1212					sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0						TTTCCCTCAGATTCTCCTGAG	0.403													6	126					0	0	1	0	0		T	170843155	T	T	170843155	3	4	151	1	0	0	0	0	1	0	0	0	16929	347	12	5	3733	5	UBR3	2	170843155	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	429460	170843155	72356218	647	77812											
SP5	389058	broad.mit.edu	37	chr2	171572883	171572883	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcgcccccggacttcctgCaggtgccctacgaccccgcg	4	5	12	20	6	0	0	0	0	0	0	1	2	1	1	6	3	3	1	6	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:171572883C>T	uc002uge.2	+	2	332	c.166C>T	c.(166-168)CAG>TAG	p.Q56*	LOC440925_uc002ugd.2_5'Flank	NM_001003845	NP_001003845	Q6BEB4	SP5_HUMAN	Sp5 transcription factor	56					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ggACTTCCTGCAGGTGCCCTA	0.647													8	16					0	0	1	0	0		T	171572883	T	T	171572883	4	4	151	1	0	0	0	0	0	1	0	0	14992	711	25	2	172	2	SP5	2	171572883	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	729728	171572883	71626490	648	77813											
GAD1	2571	broad.mit.edu	37	chr2	171700573	171700573	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtttacatatgaaattgcAccagtgtttgtcctcatgga	11	14	9	7	0	1	1	1	1	0	0	2	2	2	2	2	2	2	3	2	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:171700573A>G	uc002ugi.2	+	7	1079	c.657A>G	c.(655-657)GCA>GCG	p.A219A		NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	219					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	ATGAAATTGCACCAGTGTTTG	0.368													5	118					0	0	1	0	0		G	171700573	G	G	171700573	2	3	151	1	0	0	0	0	0	0	0	1	6193	146	6	3		3	GAD1	2	171700573	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	127690	171700573	71498800	649	77814											
HAT1	8520	broad.mit.edu	37	chr2	172823402	172823402	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatttcaaggtcaaggccAtggtgctcaacttcttgaaa	11	12	8	10	0	4	1	3	1	1	0	5	1	5	1	2	3	2	1	2	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:172823402A>G	uc002uhi.2	+	8	831	c.755A>G	c.(754-756)CAT>CGT	p.H252R	HAT1_uc010fqi.2_Missense_Mutation_p.H87R|HAT1_uc002uhj.2_Missense_Mutation_p.H167R	NM_003642	NP_003633	O14929	HAT1_HUMAN	histone acetyltransferase 1	252					chromatin silencing at telomere|DNA packaging	cytoplasm|nuclear matrix|nucleoplasm	histone acetyltransferase activity|protein binding			large_intestine(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.216)			GGTCAAGGCCATGGTGCTCAA	0.323													11	75					0	0	1	0	0		G	172823402	G	G	172823402	3	3	151	1	0	0	0	0	1	0	0	0	6980	217	8	3	785	3	HAT1	2	172823402	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1122829	172823402	70375971	650	77815											
DLX2	1746	broad.mit.edu	37	chr2	172965310	172965310	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccggggcgcccccgccGccgtgatggtggtggtggtg	2	7	18	14	5	1	1	1	1	0	0	1	1	1	1	5	6	0	0	5	6	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:172965310G>A	uc002uhn.2	-	3	1160	c.948C>T	c.(946-948)GGC>GGT	p.G316G		NM_004405	NP_004396	Q07687	DLX2_HUMAN	distal-less homeobox 2	316	Poly-Gly.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.216)			CGCCCCCGCCGCCGTGATGGT	0.667													15	19					0	0	1	0	0		A	172965310	A	A	172965310	2	1	151	1	0	0	0	0	0	0	0	1	4577	1074	38	1		1	DLX2	2	172965310	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	141908	172965310	70234063	651	77816											
ZAK	51776	broad.mit.edu	37	chr2	174131421	174131421	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccccacaggccatctccCgccaaaaccaataaagagag	16	3	7	15	1	1	1	0	0	1	1	2	2	1	1	6	1	2	0	6	1	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:174131421C>T	uc002uhz.2	+	20	2546	c.2346C>T	c.(2344-2346)CCC>CCT	p.P782P	uc002uib.2_Intron	NM_016653	NP_057737	Q9NYL2	MLTK_HUMAN	MLK-related kinase isoform 1	782					activation of JUN kinase activity|activation of MAPKK activity|cell cycle arrest|cell death|cell differentiation|cell proliferation|DNA damage checkpoint|positive regulation of apoptosis|response to radiation	cytoplasm|nucleus	ATP binding|identical protein binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			lung(3)|stomach(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.176)			GGCCATCTCCCGCCAAAACCA	0.473													6	19					0	0	1	0	0		T	174131421	T	T	174131421	2	4	151	1	0	0	0	0	0	0	0	1	17538	639	23	1		1	ZAK	2	174131421	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1166111	174131421	69067952	652	77817											
SP3	6670	broad.mit.edu	37	chr2	174819995	174819995	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggattgtctgtggtgtaatAccttgcacaatttgggcttg	7	16	12	6	0	1	0	0	0	1	0	1	1	1	1	1	3	2	3	1	3	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:174819995A>G	uc002uig.2	-	4	1409	c.1245T>C	c.(1243-1245)GGT>GGC	p.G415G	SP3_uc002uie.2_Silent_p.G347G|SP3_uc002uif.2_Silent_p.G362G|SP3_uc010zel.1_Silent_p.G412G	NM_003111	NP_003102	Q02447	SP3_HUMAN	Sp3 transcription factor isoform 1	415	Transactivation domain (Gln-rich).				negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	protein binding|zinc ion binding		EWSR1/SP3(3)	soft_tissue(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.185)			GTGGTGTAATACCTTGCACAA	0.443													22	82					0	0	1	0	0		G	174819995	G	G	174819995	2	3	151	1	0	0	0	0	0	0	0	1	14990	378	14	3		3	SP3	2	174819995	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	688574	174819995	68379378	653	77818											
KIAA1715	80856	broad.mit.edu	37	chr2	176857025	176857025	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaattcatcaggaagatacCacaaatatacaattaagcat	20	10	4	7	0	2	1	2	0	0	1	2	2	2	2	1	1	3	1	1	1	9	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:176857025C>T	uc002ukc.1	-	4	384	c.191G>A	c.(190-192)TGG>TAG	p.W64*	KIAA1715_uc010zer.1_Nonsense_Mutation_p.W64*|KIAA1715_uc010fqw.1_Nonsense_Mutation_p.W130*|KIAA1715_uc010zes.1_Intron|KIAA1715_uc002ukd.1_Intron|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	64	Helical; (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			AGGAAGATACCACAAATATAC	0.308													13	72					0	0	1	0	0		T	176857025	T	T	176857025	4	4	151	1	0	0	0	0	0	1	0	0	8270	595	21	4	1135	4	KIAA1715	2	176857025	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2037030	176857025	66342348	654	77819											
EVX2	344191	broad.mit.edu	37	chr2	176948405	176948405	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcctcgagcacagcatTgccagccgagttggacaaat	11	6	12	12	2	0	0	0	0	0	0	1	3	0	1	3	2	4	3	3	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:176948405T>C	uc010zeu.1	-	1	286	c.100A>G	c.(100-102)AAT>GAT	p.N34D		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	34						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		AGCACAGCATTGCCAGCCGAG	0.592													21	82					0	0	1	0	0		C	176948405	C	C	176948405	3	2	151	1	0	0	0	0	1	0	0	0	5303	1812	63	3	1340	3	EVX2	2	176948405	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	91380	176948405	66250968	655	77820											
HOXD9	3235	broad.mit.edu	37	chr2	176988303	176988303	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgcagccgcagcagcagcaActtgacccaagtaagtgcaa	13	5	10	13	2	0	1	0	1	0	0	1	1	0	1	2	0	6	7	2	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:176988303A>G	uc010zex.1	+	1	891	c.807A>G	c.(805-807)CAA>CAG	p.Q269Q		NM_014213	NP_055028	P28356	HXD9_HUMAN	homeobox D9	269			Missing.			nucleus	sequence-specific DNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		AGCAGCAGCAACTTGACCCAA	0.517													4	15					0	0	1	0	0		G	176988303	G	G	176988303	2	3	151	1	0	0	0	0	0	0	0	1	7342	40	2	3		3	HOXD9	2	176988303	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	39898	176988303	66211070	656	77821											
HOXD4	3233	broad.mit.edu	37	chr2	177016792	177016792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagaaggtgcacgtgaattCgggtaaggctagggtccagt	11	8	16	6	2	0	2	0	1	0	1	2	3	1	2	1	4	1	3	1	4	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:177016792C>T	uc002uks.2	+	1	680	c.431C>T	c.(430-432)TCG>TTG	p.S144L		NM_014621	NP_055436	P09016	HXD4_HUMAN	homeobox D4	144						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00765)|Epithelial(96;0.105)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		CACGTGAATTCGGGTAAGGCT	0.607													7	26					0	0	1	0	0		T	177016792	T	T	177016792	3	4	151	1	0	0	0	0	1	0	0	0	7340	893	31	1	433	1	HOXD4	2	177016792	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	28489	177016792	66182581	657	77822											
MTX2	10651	broad.mit.edu	37	chr2	177193105	177193105	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtcaacaatatgctgttgActgcagaggtaaaatactag	15	11	9	6	0	1	2	1	1	0	1	1	2	1	2	0	1	4	4	0	1	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:177193105A>G	uc002ukx.2	+	6	605	c.370A>G	c.(370-372)ACT>GCT	p.T124A	MTX2_uc002ukw.2_Missense_Mutation_p.T114A	NM_006554	NP_006545	O75431	MTX2_HUMAN	metaxin 2	124					protein targeting to mitochondrion	mitochondrial outer membrane				ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00365)|Epithelial(96;0.0654)|all cancers(119;0.181)			TATGCTGTTGACTGCAGAGGT	0.338													43	193					0	0	1	0	0		G	177193105	G	G	177193105	3	3	151	1	0	0	0	0	1	0	0	0	9986	275	10	3	392	3	MTX2	2	177193105	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	176313	177193105	66006268	658	77823											
NFE2L2	4780	broad.mit.edu	37	chr2	178098751	178098751	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgggagtagttggcagaTccactggtttctgactggat	8	12	13	8	0	1	2	0	1	1	1	2	4	2	4	2	4	0	4	2	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:178098751T>G	uc002ulh.3	-	2	849	c.294A>C	c.(292-294)GGA>GGC	p.G98G	NFE2L2_uc002ulg.3_Silent_p.G82G|NFE2L2_uc010zfa.1_Silent_p.G82G|NFE2L2_uc002uli.3_Silent_p.G82G|NFE2L2_uc010fra.2_Silent_p.G82G|NFE2L2_uc010frb.2_Silent_p.G82G	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	98					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			AGTTGGCAGATCCACTGGTTT	0.368			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			12	84					0	0	1	0	0		G	178098751	G	G	178098751	2	3	151	1	0	0	0	0	0	0	0	1	10387	1422	50	5		5	NFE2L2	2	178098751	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	905646	178098751	65100622	659	77824											
AGPS	8540	broad.mit.edu	37	chr2	178386079	178386079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaattagtgacccactgaccGtatttgaacaaactgaggta	14	10	9	8	1	0	4	0	4	0	0	0	5	0	4	2	1	2	2	2	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:178386079G>A	uc002ull.2	+	18	1827	c.1780G>A	c.(1780-1782)GTA>ATA	p.V594I	AGPS_uc010zfb.1_Missense_Mutation_p.V504I	NM_003659	NP_003650	O00116	ADAS_HUMAN	alkyldihydroxyacetone phosphate synthase	594					ether lipid biosynthetic process	peroxisomal matrix|peroxisomal membrane|plasma membrane	alkylglycerone-phosphate synthase activity|flavin adenine dinucleotide binding|oxidoreductase activity			ovary(2)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0018)|Epithelial(96;0.00919)|all cancers(119;0.0358)			CCCACTGACCGTATTTGAACA	0.333													33	169					0	0	1	0	0		A	178386079	A	A	178386079	3	1	151	1	0	0	0	0	1	0	0	0	394	1145	40	1	1850	1	AGPS	2	178386079	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	287328	178386079	64813294	660	77825											
TTN	7273	broad.mit.edu	37	chr2	179395406	179395406	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtgacctcttttgccctTaatacactgctttcaaccac	9	13	5	14	0	2	1	1	1	1	0	2	1	2	1	3	1	4	1	3	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179395406T>C	uc010zfg.1	-	307	98456	c.98232A>G	c.(98230-98232)TTA>TTG	p.L32744L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.L26439L|TTN_uc010zfi.1_Silent_p.L26372L|TTN_uc010zfj.1_Silent_p.L26247L|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33671							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTTTGCCCTTAATACACTGC	0.428													16	83					0	0	1	0	0		C	179395406	C	C	179395406	2	2	151	1	0	0	0	0	0	0	0	1	16761	1751	61	3		3	TTN	2	179395406	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1009327	179395406	63803967	661	77826											
TTN	7273	broad.mit.edu	37	chr2	179399400	179399400	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggacttcaggtgcatagTattctggggcagtgaataga	10	11	15	5	0	2	2	1	1	1	1	2	3	2	3	0	5	1	3	0	5	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179399400T>C	uc010zfg.1	-	307	94462	c.94238A>G	c.(94237-94239)TAC>TGC	p.Y31413C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Y25108C|TTN_uc010zfi.1_Missense_Mutation_p.Y25041C|TTN_uc010zfj.1_Missense_Mutation_p.Y24916C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32340							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGGTGCATAGTATTCTGGGGC	0.463													5	115					0	0	1	0	0		C	179399400	C	C	179399400	3	2	151	1	0	0	0	0	1	0	0	0	16761	1638	57	3	6057	3	TTN	2	179399400	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3994	179399400	63799973	662	77827											
TTN	7273	broad.mit.edu	37	chr2	179410270	179410270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatagtctttgttgacaCgtgtccagcgcaggctcttc	7	12	9	13	2	2	1	0	1	2	0	4	1	3	1	2	1	1	3	2	1	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179410270C>T	uc010zfg.1	-	293	88087	c.87863G>A	c.(87862-87864)CGT>CAT	p.R29288H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R22983H|TTN_uc010zfi.1_Missense_Mutation_p.R22916H|TTN_uc010zfj.1_Missense_Mutation_p.R22791H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30215							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTGTTGACACGTGTCCAGCG	0.483													111	480					0	0	1	0	0		T	179410270	T	T	179410270	3	4	151	1	0	0	0	0	1	0	0	0	16761	536	19	1	12488	1	TTN	2	179410270	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	10870	179410270	63789103	663	77828											
TTN	7273	broad.mit.edu	37	chr2	179425761	179425761	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctccagctttgacaacaatAacgtctcggaacttgacatc	12	11	6	12	2	2	2	0	2	2	0	5	3	2	3	1	1	4	1	1	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179425761A>G	uc010zfg.1	-	275	77618	c.77394T>C	c.(77392-77394)GTT>GTC	p.V25798V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.V19493V|TTN_uc010zfi.1_Silent_p.V19426V|TTN_uc010zfj.1_Silent_p.V19301V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26725							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGACAACAATAACGTCTCGGA	0.443													61	221					0	0	1	0	0		G	179425761	G	G	179425761	2	3	151	1	0	0	0	0	0	0	0	1	16761	349	13	3		3	TTN	2	179425761	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	15491	179425761	63773612	664	77829											
TTN	7273	broad.mit.edu	37	chr2	179426570	179426570	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgccatgttgtagaggtggTttctttcttttcaacaatgt	7	18	10	6	0	3	1	1	0	2	1	3	1	3	1	1	2	2	3	1	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179426570T>C	uc010zfg.1	-	275	76809	c.76585A>G	c.(76585-76587)ACC>GCC	p.T25529A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T19224A|TTN_uc010zfi.1_Missense_Mutation_p.T19157A|TTN_uc010zfj.1_Missense_Mutation_p.T19032A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26456							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.R25529C(1)		ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTAGAGGTGGTTTCTTTCTTT	0.393													11	62					0	0	1	0	0		C	179426570	C	C	179426570	3	2	151	1	0	0	0	0	1	0	0	0	16761	1725	60	3	23838	3	TTN	2	179426570	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	809	179426570	63772803	665	77830											
TTN	7273	broad.mit.edu	37	chr2	179427717	179427717	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagccctgtcagtgagaatGccttctgccttttcccattt	6	15	8	12	0	2	2	1	2	1	1	3	3	3	2	4	0	3	0	4	0	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179427717G>A	uc010zfg.1	-	275	75662	c.75438C>T	c.(75436-75438)GGC>GGT	p.G25146G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G18841G|TTN_uc010zfi.1_Silent_p.G18774G|TTN_uc010zfj.1_Silent_p.G18649G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26073							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGTGAGAATGCCTTCTGCCT	0.438													6	175					0	0	1	0	0		A	179427717	A	A	179427717	2	1	151	1	0	0	0	0	0	0	0	1	16761	1306	46	2		2	TTN	2	179427717	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1147	179427717	63771656	666	77831											
TTN	7273	broad.mit.edu	37	chr2	179436182	179436182	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctctgaattgaggtaggTactcttcccatatctgtttt	8	16	9	8	0	3	2	0	2	3	0	4	2	4	2	1	3	1	4	1	3	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179436182T>C	uc010zfg.1	-	275	67197	c.66973A>G	c.(66973-66975)ACC>GCC	p.T22325A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T16020A|TTN_uc010zfi.1_Missense_Mutation_p.T15953A|TTN_uc010zfj.1_Missense_Mutation_p.T15828A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23252							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGAGGTAGGTACTCTTCCCA	0.458													24	95					0	0	1	0	0		C	179436182	C	C	179436182	3	2	151	1	0	0	0	0	1	0	0	0	16761	1638	57	3	33450	3	TTN	2	179436182	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	8465	179436182	63763191	667	77832											
TTN	7273	broad.mit.edu	37	chr2	179437938	179437938	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggactggtaggacttggTgcactaattccagcagcatt	11	11	11	8	0	0	0	0	0	0	0	1	2	1	2	1	4	3	4	1	4	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179437938T>C	uc010zfg.1	-	275	65441	c.65217A>G	c.(65215-65217)GCA>GCG	p.A21739A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.A15434A|TTN_uc010zfi.1_Silent_p.A15367A|TTN_uc010zfj.1_Silent_p.A15242A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22666							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAGGACTTGGTGCACTAATTC	0.408													28	120					0	0	1	0	0		C	179437938	C	C	179437938	2	2	151	1	0	0	0	0	0	0	0	1	16761	1683	59	3		3	TTN	2	179437938	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1756	179437938	63761435	668	77833											
TTN	7273	broad.mit.edu	37	chr2	179440977	179440977	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactgagtgattctgagggcGgttcctgtggtatcttttat	7	16	12	6	1	2	3	0	3	2	0	3	3	3	3	1	3	1	2	1	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179440977G>A	uc010zfg.1	-	275	62402	c.62178C>T	c.(62176-62178)ACC>ACT	p.T20726T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.T14421T|TTN_uc010zfi.1_Silent_p.T14354T|TTN_uc010zfj.1_Silent_p.T14229T|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21653							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCTGAGGGCGGTTCCTGTGG	0.473													18	68					0	0	1	0	0		A	179440977	A	A	179440977	2	1	151	1	0	0	0	0	0	0	0	1	16761	1103	39	1		1	TTN	2	179440977	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3039	179440977	63758396	669	77834											
TTN	7273	broad.mit.edu	37	chr2	179446390	179446390	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaagttgcacctcacccagTtatcggagtcagcccgtttt	8	12	9	12	2	2	0	2	0	0	0	3	1	2	1	3	1	2	5	3	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179446390T>C	uc010zfg.1	-	265	59125	c.58901A>G	c.(58900-58902)AAC>AGC	p.N19634S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.N13329S|TTN_uc010zfi.1_Missense_Mutation_p.N13262S|TTN_uc010zfj.1_Missense_Mutation_p.N13137S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20561							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCTCACCCAGTTATCGGAGTC	0.498													9	37					0	0	1	0	0		C	179446390	C	C	179446390	3	2	151	1	0	0	0	0	1	0	0	0	16761	1725	60	3	41562	3	TTN	2	179446390	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5413	179446390	63752983	670	77835											
TTN	7273	broad.mit.edu	37	chr2	179483496	179483496	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcagcttctgctttggggTaggcatcatatggcaccacc	8	12	10	11	0	3	0	2	0	1	0	3	0	3	0	2	4	2	5	2	4	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179483496T>C	uc010zfg.1	-	200	39301	c.39077A>G	c.(39076-39078)TAC>TGC	p.Y13026C	TTN_uc010zfh.1_Missense_Mutation_p.Y6721C|TTN_uc010zfi.1_Missense_Mutation_p.Y6654C|TTN_uc010zfj.1_Missense_Mutation_p.Y6529C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13953							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGCTTTGGGGTAGGCATCATA	0.408													12	65					0	0	1	0	0		C	179483496	C	C	179483496	3	2	151	1	0	0	0	0	1	0	0	0	16761	1638	57	3	61360	3	TTN	2	179483496	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	37106	179483496	63715877	671	77836											
TTN	7273	broad.mit.edu	37	chr2	179497272	179497272	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaatgatcagtttgccActtgtgtgcttatcttcagc	7	16	7	11	0	4	1	3	1	1	0	4	1	4	1	2	0	3	2	2	0	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179497272A>G	uc010zfg.1	-	184	35981	c.35757T>C	c.(35755-35757)AGT>AGC	p.S11919S	TTN_uc010zfh.1_Silent_p.S5614S|TTN_uc010zfi.1_Silent_p.S5547S|TTN_uc010zfj.1_Silent_p.S5422S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12846							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCAGTTTGCCACTTGTGTGCT	0.333													36	128					0	0	1	0	0		G	179497272	G	G	179497272	2	3	151	1	0	0	0	0	0	0	0	1	16761	156	6	3		3	TTN	2	179497272	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	13776	179497272	63702101	672	77837											
TTN	7273	broad.mit.edu	37	chr2	179540660	179540660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcaatacctttggcaggggGagcctcctctttcttgggaa	8	11	12	10	0	2	0	0	0	2	0	3	2	3	2	3	4	3	2	3	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179540660G>A	uc010zfg.1	-	144	30846	c.30622C>T	c.(30622-30624)CCC>TCC	p.P10208S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P6869S|TTN_uc010fre.1_Intron|TTN_uc002una.1_RNA|TTN_uc010frf.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11135							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGGCAGGGGGAGCCTCCTCT	0.363													9	21					0	0	1	0	0		A	179540660	A	A	179540660	3	1	151	1	0	0	0	0	1	0	0	0	16761	1174	41	4	70039	4	TTN	2	179540660	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	43388	179540660	63658713	673	77838											
TTN	7273	broad.mit.edu	37	chr2	179553404	179553404	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgacttccgattatatacCttcgtgccgcgtgacttcca	7	13	7	14	4	0	2	0	2	0	0	3	3	2	2	5	0	2	0	5	0	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179553404C>A	uc010zfg.1	-	123	28689	c.28465G>T	c.(28465-28467)GTA>TTA	p.V9489L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.V6150L|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10416							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GATTATATACCTTCGTGCCGC	0.393													24	80					1.96895e-08	2.0176e-08	1	1	0		A	179553404	A	A	179553404	3	1	151	1	0	0	0	0	1	0	0	0	16761	695	24	5	72280	5	TTN	2	179553404	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	12744	179553404	63645969	674	77839											
TTN	7273	broad.mit.edu	37	chr2	179575918	179575918	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtattgtctaaaaatgatgTttgtacatttgggctgtctt	9	19	9	4	0	2	1	0	1	2	0	2	1	2	1	0	1	1	4	0	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179575918T>C	uc010zfg.1	-	94	24537	c.24313A>G	c.(24313-24315)ACA>GCA	p.T8105A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T4766A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9032							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAAAATGATGTTTGTACATTT	0.433													69	210					0	0	1	0	0		C	179575918	C	C	179575918	3	2	151	1	0	0	0	0	1	0	0	0	16761	1725	60	3	76548	3	TTN	2	179575918	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	22514	179575918	63623455	675	77840											
TTN	7273	broad.mit.edu	37	chr2	179593250	179593250	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactcttaagtaggcatcaCagctactgcttccgaagtca	11	10	8	12	1	3	0	2	0	1	0	4	1	4	0	1	1	3	5	1	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179593250C>G	uc010zfg.1	-	63	15895	c.15671G>C	c.(15670-15672)TGT>TCT	p.C5224S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.C1885S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6151							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTAGGCATCACAGCTACTGCT	0.398													6	53					0	0	1	0	0		G	179593250	G	G	179593250	3	3	151	1	0	0	0	0	1	0	0	0	16761	478	17	5	85314	5	TTN	2	179593250	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	17332	179593250	63606123	676	77841											
TTN	7273	broad.mit.edu	37	chr2	179616447	179616447	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctctaagctggaagagtgAtggtgtaaatcactctcagc	12	11	10	8	0	3	2	2	1	2	1	5	3	3	3	0	2	2	2	0	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179616447A>G	uc002unb.2	-	46	10904	c.10680T>C	c.(10678-10680)CAT>CAC	p.H3560H	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGAAGAGTGATGGTGTAAAT	0.413													53	213					0	0	1	0	0		G	179616447	G	G	179616447	2	3	151	1	0	0	0	0	0	0	0	1	16761	330	12	3		3	TTN	2	179616447	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	23197	179616447	63582926	677	77842											
TTN	7273	broad.mit.edu	37	chr2	179640599	179640599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcgcttgaatttactgcGcagctcttccgactcttcag	6	14	8	13	3	4	1	1	1	3	0	5	2	5	1	1	0	4	3	1	0	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179640599G>A	uc010zfg.1	-	28	6216	c.5992C>T	c.(5992-5994)CGC>TGC	p.R1998C	TTN_uc010zfh.1_Missense_Mutation_p.R1952C|TTN_uc010zfi.1_Missense_Mutation_p.R1952C|TTN_uc010zfj.1_Missense_Mutation_p.R1952C|TTN_uc002unb.2_Missense_Mutation_p.R1998C|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1998							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATTTACTGCGCAGCTCTTCC	0.453													60	290					0	0	1	0	0		A	179640599	A	A	179640599	3	1	151	1	0	0	0	0	1	0	0	0	16761	1087	38	1	105336	1	TTN	2	179640599	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	24152	179640599	63558774	678	77843											
TTN	7273	broad.mit.edu	37	chr2	179659647	179659647	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaaaaccattctgacagtAcctctttagcaccagtggca	14	9	6	12	0	2	1	0	1	2	0	2	1	2	1	3	1	4	3	3	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179659647A>C	uc010zfg.1	-	7	1469	c.1245_splice	c.e7+1	p.E415_splice	TTN_uc010zfh.1_Splice_Site_p.E415_splice|TTN_uc010zfi.1_Splice_Site_p.E415_splice|TTN_uc010zfj.1_Splice_Site_p.E415_splice|TTN_uc002unb.2_Splice_Site_p.E415_splice|TTN_uc010frg.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A								ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCTGACAGTACCTCTTTAGC	0.483													26	104					0	0	1	0	0		C	179659647	C	C	179659647	5	2	151	1	0	0	0	0	0	0	1	0	16761	405	14	5	110165	5	TTN	2	179659647	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	19048	179659647	63539726	679	77844											
SESTD1	91404	broad.mit.edu	37	chr2	179981458	179981458	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtttcttgagcatcatcGcccaatctgatgtgagtctt	7	16	8	10	2	4	3	1	3	3	0	6	3	4	3	1	0	1	2	1	0	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:179981458G>A	uc002uni.3	-	15	1734	c.1584C>T	c.(1582-1584)GGC>GGT	p.G528G	SESTD1_uc002unh.3_5'UTR	NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	528	Spectrin 3.				regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			GAGCATCATCGCCCAATCTGA	0.403													35	134					0	0	1	0	0		A	179981458	A	A	179981458	2	1	151	1	0	0	0	0	0	0	0	1	14152	1074	38	1		1	SESTD1	2	179981458	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	321811	179981458	63217915	680	77845											
UBE2E3	10477	broad.mit.edu	37	chr2	181927574	181927574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaccaacagagcagaacacGacaggatagccagacagtgg	16	3	12	10	1	0	4	0	1	0	3	0	6	0	5	2	2	4	1	2	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:181927574G>A	uc002unq.1	+	7	802	c.583G>A	c.(583-585)GAC>AAC	p.D195N	UBE2E3_uc002unr.1_Missense_Mutation_p.D195N|UBE2E3_uc010fri.1_Missense_Mutation_p.D195N	NM_182678	NP_872619	Q969T4	UB2E3_HUMAN	ubiquitin-conjugating enzyme E2E 3	195					protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|regulation of growth	cytoplasm|nucleolus	ATP binding|protein binding|ubiquitin-protein ligase activity			ovary(1)	1						AGCAGAACACGACAGGATAGC	0.433													5	30					0	0	1	0	0		A	181927574	A	A	181927574	3	1	151	1	0	0	0	0	1	0	0	0	16880	1058	37	1	601	1	UBE2E3	2	181927574	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1946116	181927574	61271799	681	77846											
ITGA4	3676	broad.mit.edu	37	chr2	182346369	182346369	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcggagccagcatactaccGaagtagtcggaggagctcct	10	8	12	11	3	0	0	0	0	0	0	3	4	1	3	3	3	5	3	3	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:182346369G>A	uc002unu.2	+	7	1562	c.799G>A	c.(799-801)GAA>AAA	p.E267K	ITGA4_uc010zfl.1_Missense_Mutation_p.E267K	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	267	FG-GAP 4.|Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	GCATACTACCGAAGTAGTCGG	0.373													24	73					0	0	1	0	0		A	182346369	A	A	182346369	3	1	151	1	0	0	0	0	1	0	0	0	7894	1059	37	1	825	1	ITGA4	2	182346369	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	418795	182346369	60853004	682	77847											
ITGA4	3676	broad.mit.edu	37	chr2	182358109	182358109	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtgctatttatatttacaAtggccgtgcagatgggatct	10	14	11	6	1	1	1	0	0	1	1	1	2	1	2	1	3	3	2	1	3	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:182358109A>G	uc002unu.2	+	11	1974	c.1211A>G	c.(1210-1212)AAT>AGT	p.N404S		NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	404	FG-GAP 6.|Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	TATATTTACAATGGCCGTGCA	0.358													6	103					0	0	1	0	0		G	182358109	G	G	182358109	3	3	151	1	0	0	0	0	1	0	0	0	7894	101	4	3	1253	3	ITGA4	2	182358109	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	11740	182358109	60841264	683	77848											
FRZB	2487	broad.mit.edu	37	chr2	183730857	183730857	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgcacacgcccctgtcgtAcactggcagctcctcgcagg	7	7	11	16	3	0	0	0	0	0	0	3	1	1	0	3	2	3	5	3	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:183730857A>G	uc002upa.1	-	1	642	c.424T>C	c.(424-426)TAC>CAC	p.Y142H		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein precursor	142	FZ.				brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)			CCCCTGTCGTACACTGGCAGC	0.632													3	20					0	0	1	0	0		G	183730857	G	G	183730857	3	3	151	1	0	0	0	0	1	0	0	0	6079	391	14	3	577	3	FRZB	2	183730857	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1372748	183730857	59468516	684	77849											
NCKAP1	10787	broad.mit.edu	37	chr2	183817966	183817966	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagttttctattgactggagTacggtcatgtatgctcttac	8	17	9	7	1	3	1	1	1	2	0	3	2	3	2	0	2	3	4	0	2	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:183817966T>C	uc002upc.2	-	21	2649	c.2247A>G	c.(2245-2247)GTA>GTG	p.V749V	NCKAP1_uc002upb.2_Silent_p.V755V	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	749					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			TTGACTGGAGTACGGTCATGT	0.368													32	150					0	0	1	0	0		C	183817966	C	C	183817966	2	2	151	1	0	0	0	0	0	0	0	1	10240	1625	57	3		3	NCKAP1	2	183817966	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	87109	183817966	59381407	685	77850											
DUSP19	142679	broad.mit.edu	37	chr2	183951825	183951825	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgctttcctcagtgactttAcatataagagcatttctata	12	16	5	8	0	2	2	1	1	1	1	3	2	3	2	1	0	3	2	1	0	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:183951825A>G	uc002upd.2	+	3	706	c.331A>G	c.(331-333)ACA>GCA	p.T111A	DUSP19_uc010frp.2_Intron|DUSP19_uc010zfr.1_RNA|DUSP19_uc002upe.2_Intron	NM_080876	NP_543152	Q8WTR2	DUS19_HUMAN	dual specificity phosphatase 19 isoform 1	111					JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|positive regulation of JNK cascade|positive regulation of JUN kinase activity	cytoplasm	JUN kinase phosphatase activity|MAP-kinase scaffold activity|mitogen-activated protein kinase kinase kinase binding|protein kinase activator activity|protein kinase inhibitor activity|protein tyrosine phosphatase activity			ovary(4)|pancreas(1)	5						CAGTGACTTTACATATAAGAG	0.313													5	143					0	0	1	0	0		G	183951825	G	G	183951825	3	3	151	1	0	0	0	0	1	0	0	0	4824	391	14	3	341	3	DUSP19	2	183951825	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	133859	183951825	59247548	686	77851											
ZNF804A	91752	broad.mit.edu	37	chr2	185731181	185731181	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaactctgtgacaagcagtActataagcaccaggagtttg	13	10	10	8	0	1	2	0	2	1	0	1	3	1	3	1	1	4	4	1	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:185731181A>G	uc002uph.2	+	2	791	c.197A>G	c.(196-198)TAC>TGC	p.Y66C		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	66	C2H2-type.					intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						GACAAGCAGTACTATAAGCAC	0.368													18	94					0	0	1	0	0		G	185731181	G	G	185731181	3	3	151	1	0	0	0	0	1	0	0	0	18195	391	14	3	203	3	ZNF804A	2	185731181	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1779356	185731181	57468192	687	77852											
ZNF804A	91752	broad.mit.edu	37	chr2	185803661	185803661	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcttccgttcttcatcctAgccatctggctttcccatct	5	15	5	16	1	4	0	1	0	3	0	7	0	7	0	4	1	2	3	4	1	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:185803661A>G	uc002uph.2	+	4	4132	c.3538A>G	c.(3538-3540)AGC>GGC	p.S1180G		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	1180						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TCTTCATCCTAGCCATCTGGC	0.512													7	386					0	0	1	0	0		G	185803661	G	G	185803661	3	3	151	1	0	0	0	0	1	0	0	0	18195	420	15	3	3552	3	ZNF804A	2	185803661	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	72480	185803661	57395712	688	77853											
ZC3H15	55854	broad.mit.edu	37	chr2	187360023	187360023	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtttatcaaggctgtcAcacatcaagttaaatttggt	14	13	8	6	0	3	1	3	0	0	1	3	1	3	1	0	2	0	3	0	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:187360023A>G	uc002upo.2	+	2	364	c.139A>G	c.(139-141)ACA>GCA	p.T47A		NM_018471	NP_060941	Q8WU90	ZC3HF_HUMAN	erythropoietin 4 immediate early response	47						cytoplasm|nucleolus|plasma membrane	nucleic acid binding|zinc ion binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Epithelial(96;0.0922)|all cancers(119;0.233)			CAAGGCTGTCACACATCAAGT	0.318													5	20					0	0	1	0	0		G	187360023	G	G	187360023	3	3	151	1	0	0	0	0	1	0	0	0	17592	159	6	3	145	3	ZC3H15	2	187360023	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1556362	187360023	55839350	689	77854											
FAM171B	165215	broad.mit.edu	37	chr2	187625956	187625956	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttgctgtactactttgtTattgcaggtaagaaaatggc	10	17	9	5	0	0	1	0	0	0	1	0	1	0	1	0	2	4	5	0	2	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:187625956T>C	uc002ups.2	+	7	1241	c.1129T>C	c.(1129-1131)TAT>CAT	p.Y377H	FAM171B_uc002upr.1_Missense_Mutation_p.Y377H|FAM171B_uc002upt.2_5'Flank	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	377	Cytoplasmic (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						ACTACTTTGTTATTGCAGGTA	0.318													37	114					0	0	1	0	0		C	187625956	C	C	187625956	3	2	151	1	0	0	0	0	1	0	0	0	5502	1754	61	3	1155	3	FAM171B	2	187625956	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	265933	187625956	55573417	690	77855											
COL3A1	1281	broad.mit.edu	37	chr2	189873812	189873812	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaatggatttcaaaatcAacaccgatgagattatgact	17	10	6	8	1	2	2	2	2	0	1	2	5	2	3	2	1	2	0	2	1	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:189873812A>G	uc002uqj.1	+	48	3805	c.3688A>G	c.(3688-3690)AAC>GAC	p.N1230D		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	1230					axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	TTTCAAAATCAACACCGATGA	0.458													33	162					0	0	1	0	0		G	189873812	G	G	189873812	3	3	151	1	0	0	0	0	1	0	0	0	3691	130	5	3	3878	3	COL3A1	2	189873812	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2247856	189873812	53325561	691	77856											
ANKAR	150709	broad.mit.edu	37	chr2	190608058	190608058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catacaatgcaaatgctttcCgcatcctattaaaagaatgc	15	11	5	10	1	0	1	0	0	0	1	2	1	2	1	2	0	4	3	2	0	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:190608058C>T	uc002uqw.1	+	20	3655	c.3655C>T	c.(3655-3657)CGC>TGC	p.R1219C	ANKAR_uc002uqu.2_RNA|ANKAR_uc002uqx.1_RNA|ANKAR_uc002uqy.1_Intron	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	1290						integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			AAATGCTTTCCGCATCCTATT	0.358													21	60					0	0	1	0	0		T	190608058	T	T	190608058	3	4	151	1	0	0	0	0	1	0	0	0	623	652	23	1	3946	1	ANKAR	2	190608058	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	734246	190608058	52591315	692	77857											
SDPR	8436	broad.mit.edu	37	chr2	192700728	192700728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctcctcggatgttagcGcgtagctaccctcatagcgt	6	10	10	15	5	1	0	1	0	0	0	3	1	2	1	4	1	4	3	4	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:192700728G>A	uc002utb.2	-	2	1529	c.1199C>T	c.(1198-1200)GCG>GTG	p.A400V		NM_004657	NP_004648	O95810	SDPR_HUMAN	serum deprivation response protein	400						caveola|cytosol	phosphatidylserine binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0647)		Phosphatidylserine(DB00144)	GGATGTTAGCGCGTAGCTACC	0.607													43	148					0	0	1	0	0		A	192700728	A	A	192700728	3	1	151	1	0	0	0	0	1	0	0	0	13995	1087	38	1	82	1	SDPR	2	192700728	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2092670	192700728	50498645	693	77858											
TMEFF2	23671	broad.mit.edu	37	chr2	192818525	192818525	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtatagaacactgtagtccTttttttcacagtgttgtcca	9	16	7	9	1	1	1	1	0	0	1	3	1	3	1	2	0	1	3	2	0	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:192818525T>C	uc002utc.2	-	9	1302	c.908A>G	c.(907-909)AAG>AGG	p.K303R		NM_016192	NP_057276	Q9UIK5	TEFF2_HUMAN	transmembrane protein with EGF-like and two	303	Required for shedding.|Extracellular (Potential).					extracellular region|integral to membrane				lung(2)|pancreas(1)|breast(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.0835)			ACTGTAGTCCTTTTTTTCACA	0.398													30	116					0	0	1	0	0		C	192818525	C	C	192818525	3	2	151	1	0	0	0	0	1	0	0	0	16039	1609	56	3	224	3	TMEFF2	2	192818525	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	117797	192818525	50380848	694	77859											
SLC39A10	57181	broad.mit.edu	37	chr2	196593047	196593047	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcagtcactgcaggcatgTtcctctatgtagccttggtg	6	14	11	10	0	2	0	1	0	1	0	3	0	3	0	2	2	3	5	2	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:196593047T>C	uc002utg.3	+	9	2525	c.2311T>C	c.(2311-2313)TTC>CTC	p.F771L	SLC39A10_uc002uth.3_Missense_Mutation_p.F771L|SLC39A10_uc010zgp.1_Missense_Mutation_p.F321L	NM_001127257	NP_001120729	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter),	771	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.221)			TGCAGGCATGTTCCTCTATGT	0.413													69	279					0	0	1	0	0		C	196593047	C	C	196593047	3	2	151	1	0	0	0	0	1	0	0	0	14638	1725	60	3	2341	3	SLC39A10	2	196593047	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3774522	196593047	46606326	695	77860											
DNAH7	56171	broad.mit.edu	37	chr2	196640613	196640613	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcagctgagtttctgacTgatccttagtgatatctgca	10	14	9	8	0	2	4	0	4	2	0	3	4	3	4	1	0	3	4	1	0	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:196640613T>C	uc002utj.3	-	60	11260	c.11159A>G	c.(11158-11160)CAG>CGG	p.Q3720R	DNAH7_uc002uti.3_Missense_Mutation_p.Q203R	NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3720					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AGTTTCTGACTGATCCTTAGT	0.468													38	123					0	0	1	0	0		C	196640613	C	C	196640613	3	2	151	1	0	0	0	0	1	0	0	0	4612	1580	55	3	939	3	DNAH7	2	196640613	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	47566	196640613	46558760	696	77861											
DNAH7	56171	broad.mit.edu	37	chr2	196746539	196746539	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaatgtaaacacttttccCagttcctgttggtcctacaa	10	14	6	11	1	0	0	0	0	0	0	3	0	3	0	3	1	2	4	3	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:196746539C>A	uc002utj.3	-	36	6042	c.5941G>T	c.(5941-5943)GGG>TGG	p.G1981W		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1981	AAA 3 (By similarity).|ATP (Potential).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						ACACTTTTCCCAGTTCCTGTT	0.363													35	190					6.19805e-25	6.48956e-25	1	1	0		A	196746539	A	A	196746539	3	1	151	1	0	0	0	0	1	0	0	0	4612	594	21	5	6253	5	DNAH7	2	196746539	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	105926	196746539	46452834	697	77862											
DNAH7	56171	broad.mit.edu	37	chr2	196765042	196765042	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagtaagaactgacttcacGgctctcattccatagtcgta	11	11	8	11	2	2	2	2	1	1	1	5	2	3	2	1	1	1	4	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:196765042G>A	uc002utj.3	-	28	4613	c.4512C>T	c.(4510-4512)GCC>GCT	p.A1504A		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1504	AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CTGACTTCACGGCTCTCATTC	0.423													46	258					0	0	1	0	0		A	196765042	A	A	196765042	2	1	151	1	0	0	0	0	0	0	0	1	4612	1103	39	1		1	DNAH7	2	196765042	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	18503	196765042	46434331	698	77863											
DNAH7	56171	broad.mit.edu	37	chr2	196825620	196825620	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttttacgttgaggatatAcagatggtagccaaccaaat	13	14	8	6	1	0	2	0	1	0	1	0	3	0	3	2	2	4	2	2	2	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:196825620A>G	uc002utj.3	-	18	2356	c.2255T>C	c.(2254-2256)GTA>GCA	p.V752A		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	752	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TTGAGGATATACAGATGGTAG	0.353													34	138					0	0	1	0	0		G	196825620	G	G	196825620	3	3	151	1	0	0	0	0	1	0	0	0	4612	391	14	3	10011	3	DNAH7	2	196825620	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	60578	196825620	46373753	699	77864											
STK17B	9262	broad.mit.edu	37	chr2	197004484	197004484	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctcccacaaatggtgaTgtgtgagttaacaacatata	13	13	7	8	0	2	2	0	2	2	0	3	2	2	2	1	1	2	1	1	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:197004484T>C	uc002utk.2	-	7	1020	c.696A>G	c.(694-696)ACA>ACG	p.T232T	STK17B_uc010fsh.2_Silent_p.T232T	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	232	Protein kinase.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			CAAATGGTGATGTGTGAGTTA	0.303													38	173					0	0	1	0	0		C	197004484	C	C	197004484	2	2	151	1	0	0	0	0	0	0	0	1	15316	1451	51	3		3	STK17B	2	197004484	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	178864	197004484	46194889	700	77865											
STK17B	9262	broad.mit.edu	37	chr2	197021224	197021224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcatgaagattaataacacGgggacaagactttgccaatt	15	10	8	8	1	1	3	1	1	0	2	1	4	1	4	1	2	2	0	1	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:197021224G>A	uc002utk.2	-	3	598	c.274C>T	c.(274-276)CGT>TGT	p.R92C	STK17B_uc010fsh.2_Missense_Mutation_p.R92C	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	92	Protein kinase.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			TTAATAACACGGGGACAAGAC	0.328													29	115					0	0	1	0	0		A	197021224	A	A	197021224	3	1	151	1	0	0	0	0	1	0	0	0	15316	1116	39	1	868	1	STK17B	2	197021224	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	16740	197021224	46178149	701	77866											
HECW2	57520	broad.mit.edu	37	chr2	197298107	197298107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgcatctggggatttcgaCgcctcacaaaaagcaggtgc	11	7	11	12	3	2	0	1	0	1	0	3	2	2	1	2	3	2	2	2	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:197298107C>T	uc002utm.1	-	2	224	c.41G>A	c.(40-42)CGT>CAT	p.R14H		NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	14					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						GGGATTTCGACGCCTCACAAA	0.557													16	63					0	0	1	0	0		T	197298107	T	T	197298107	3	4	151	1	0	0	0	0	1	0	0	0	7059	536	19	1	4789	1	HECW2	2	197298107	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	276883	197298107	45901266	702	77867											
GTF3C3	9330	broad.mit.edu	37	chr2	197643670	197643670	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtatctttcagagcaaacaAgagcactgaggaggggaagt	14	8	13	6	0	2	3	1	1	1	2	2	5	2	5	0	3	3	3	0	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:197643670A>G	uc002uts.2	-	10	1430	c.1340T>C	c.(1339-1341)CTT>CCT	p.L447P	GTF3C3_uc010zgu.1_Intron|GTF3C3_uc002utt.3_Missense_Mutation_p.L122P	NM_012086	NP_036218	Q9Y5Q9	TF3C3_HUMAN	general transcription factor IIIC, polypeptide	447	TPR 7.					transcription factor TFIIIC complex	DNA binding|protein binding			ovary(3)|breast(3)|pancreas(1)	7						AGAGCAAACAAGAGCACTGAG	0.418													17	106					0	0	1	0	0		G	197643670	G	G	197643670	3	3	151	1	0	0	0	0	1	0	0	0	6890	72	3	3	1356	3	GTF3C3	2	197643670	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	345563	197643670	45555703	703	77868											
GTF3C3	9330	broad.mit.edu	37	chr2	197662543	197662543	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcattgacatctttgtcttgGgatttggtagagttaattcc	8	18	9	6	0	3	2	1	1	2	1	4	3	4	3	1	2	0	2	1	2	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:197662543G>T	uc002uts.2	-	2	282	c.192C>A	c.(190-192)TCC>TCA	p.S64S	GTF3C3_uc010zgu.1_Silent_p.S64S|GTF3C3_uc002utu.2_Silent_p.S64S	NM_012086	NP_036218	Q9Y5Q9	TF3C3_HUMAN	general transcription factor IIIC, polypeptide	64						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(3)|breast(3)|pancreas(1)	7						CTTTGTCTTGGGATTTGGTAG	0.348													26	114					1.77063e-15	1.84148e-15	1	1	0		T	197662543	T	T	197662543	2	4	151	1	0	0	0	0	0	0	0	1	6890	1219	43	5		5	GTF3C3	2	197662543	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	18873	197662543	45536830	704	77869											
SF3B1	23451	broad.mit.edu	37	chr2	198268397	198268397	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgacgctcttgatcctcaAgtgtaggagacatcagcaga	13	9	10	9	1	3	4	2	2	1	2	4	5	4	4	1	1	1	3	1	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:198268397A>G	uc002uue.2	-	12	1679	c.1631T>C	c.(1630-1632)CTT>CCT	p.L544P		NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	544	Interaction with SF3B14.|HEAT 1.				nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			TTGATCCTCAAGTGTAGGAGA	0.403													23	74					0	0	1	0	0		G	198268397	G	G	198268397	3	3	151	1	0	0	0	0	1	0	0	0	14174	72	3	3	2339	3	SF3B1	2	198268397	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	605854	198268397	44930976	705	77870											
MOBKL3	25843	broad.mit.edu	37	chr2	198405143	198405143	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatttttctttgtgcagcTcataaaactccaaaagaggt	12	14	8	7	0	2	1	1	0	1	1	3	2	3	2	1	2	3	2	1	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:198405143T>A	uc002uun.3	+	5	376	c.336T>A	c.(334-336)GCT>GCA	p.A112A	MOBKL3_uc002uum.3_Silent_p.A80A|MOBKL3_uc010fsn.2_Silent_p.A91A|MOBKL3_uc010fso.2_Silent_p.A13A|MOBKL3_uc010zgz.1_Silent_p.A13A	NM_015387	NP_056202	Q9Y3A3	MOBL3_HUMAN	Mps One Binder kinase activator-like 3 isoform	112					transport	Golgi cisterna membrane|perinuclear region of cytoplasm	metal ion binding|protein binding				0			Epithelial(96;0.225)			TTTGTGCAGCTCATAAAACTC	0.294													19	63					0	0	1	0	0		A	198405143	A	A	198405143	2	1	151	1	0	0	0	0	0	0	0	1	9705	1538	54	5		5	MOBKL3	2	198405143	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	136746	198405143	44794230	706	77871											
PLCL1	5334	broad.mit.edu	37	chr2	198953591	198953591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcacagaatgcaatcGtgtctattaaggaactatgt	12	13	7	9	1	2	1	1	0	1	1	4	2	3	2	1	1	2	1	1	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:198953591G>A	uc010fsp.2	+	3	3016	c.2725G>A	c.(2725-2727)GTG>ATG	p.V909M	PLCL1_uc002uuv.3_Missense_Mutation_p.V830M	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	909	Potential.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	GAATGCAATCGTGTCTATTAA	0.453													135	626					0	0	1	0	0		A	198953591	A	A	198953591	3	1	151	1	0	0	0	0	1	0	0	0	12058	1145	40	1	2735	1	PLCL1	2	198953591	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	548448	198953591	44245782	707	77872											
PLCL1	5334	broad.mit.edu	37	chr2	198968586	198968586	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagaacttcataatttggggGcaaaagaaggcttgaaggga	16	8	13	4	0	1	3	1	1	0	2	1	4	1	4	0	4	1	2	0	4	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:198968586G>T	uc010fsp.2	+	5	3322	c.3031G>T	c.(3031-3033)GCA>TCA	p.A1011S	PLCL1_uc002uuv.3_Missense_Mutation_p.A932S	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	1011					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TAATTTGGGGGCAAAAGAAGG	0.378													4	52					0.150653	0.150959	1	1	0		T	198968586	T	T	198968586	3	4	151	1	0	0	0	0	1	0	0	0	12058	1203	42	5	3049	5	PLCL1	2	198968586	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	14995	198968586	44230787	708	77873											
SPATS2L	26010	broad.mit.edu	37	chr2	201304024	201304024	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcagctcatcttgaaataAagccagatgagttggcaaag	14	9	10	8	0	2	3	1	2	1	1	2	3	2	3	1	1	3	4	1	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:201304024A>C	uc002uvn.3	+	7	977	c.625A>C	c.(625-627)AAG>CAG	p.K209Q	SPATS2L_uc010fst.2_Missense_Mutation_p.K209Q|SPATS2L_uc002uvo.3_Missense_Mutation_p.K149Q|SPATS2L_uc002uvp.3_Missense_Mutation_p.K209Q|SPATS2L_uc002uvq.3_Intron|SPATS2L_uc002uvr.3_Missense_Mutation_p.K209Q|SPATS2L_uc010zhc.1_Missense_Mutation_p.K239Q	NM_015535	NP_056350	Q9NUQ6	SPS2L_HUMAN	SPATS2-like protein isoform a	209						cytoplasm|nucleolus				ovary(2)|pancreas(1)	3						TCTTGAAATAAAGCCAGATGA	0.423													17	55					0	0	1	0	0		C	201304024	C	C	201304024	3	2	151	1	0	0	0	0	1	0	0	0	15045	15	1	5	643	5	SPATS2L	2	201304024	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2335438	201304024	41895349	709	77874											
SPATS2L	26010	broad.mit.edu	37	chr2	201332111	201332111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcagctggccgaactcaggGcagaaattaaggtcagttct	11	9	12	9	1	3	1	2	0	1	1	3	2	3	1	1	3	3	4	1	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:201332111G>A	uc002uvn.3	+	10	1298	c.946G>A	c.(946-948)GCA>ACA	p.A316T	SPATS2L_uc010fst.2_Missense_Mutation_p.A316T|SPATS2L_uc002uvo.3_Missense_Mutation_p.A256T|SPATS2L_uc002uvp.3_Missense_Mutation_p.A316T|SPATS2L_uc002uvq.3_Missense_Mutation_p.A247T|SPATS2L_uc002uvr.3_Missense_Mutation_p.A316T|SPATS2L_uc010zhc.1_Missense_Mutation_p.A346T	NM_015535	NP_056350	Q9NUQ6	SPS2L_HUMAN	SPATS2-like protein isoform a	316	Potential.					cytoplasm|nucleolus				ovary(2)|pancreas(1)	3						CGAACTCAGGGCAGAAATTAA	0.473													13	44					0	0	1	0	0		A	201332111	A	A	201332111	3	1	151	1	0	0	0	0	1	0	0	0	15045	1203	42	2	976	2	SPATS2L	2	201332111	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	28087	201332111	41867262	710	77875											
NDUFB3	4709	broad.mit.edu	37	chr2	201950221	201950221	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggtggctttgcaaagagTgtttccttttctgatgtatt	7	18	11	5	0	1	2	0	1	1	1	2	2	2	2	1	2	1	4	1	2	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:201950221T>C	uc002uwx.3	+	3	503	c.180T>C	c.(178-180)AGT>AGC	p.S60S		NM_002491	NP_002482	O43676	NDUB3_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	60					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0					NADH(DB00157)	TTGCAAAGAGTGTTTCCTTTT	0.358													39	115					0	0	1	0	0		C	201950221	C	C	201950221	2	2	151	1	0	0	0	0	0	0	0	1	10301	1693	59	3		3	NDUFB3	2	201950221	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	618110	201950221	41249152	711	77876											
STRADB	55437	broad.mit.edu	37	chr2	202344807	202344807	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgttgcctcctgcttataAcaagccatcaatatcattgc	11	13	5	12	0	2	0	2	0	0	0	3	0	3	0	3	0	5	2	3	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:202344807A>G	uc002uyd.3	+	12	1531	c.1166A>G	c.(1165-1167)AAC>AGC	p.N389S		NM_018571	NP_061041	Q9C0K7	STRAB_HUMAN	STE20-related kinase adaptor beta	389					activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|protein binding|protein kinase activity			skin(2)|stomach(1)|lung(1)	4						CCTGCTTATAACAAGCCATCA	0.378													43	202					0	0	1	0	0		G	202344807	G	G	202344807	3	3	151	1	0	0	0	0	1	0	0	0	15350	43	2	3	1208	3	STRADB	2	202344807	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	394586	202344807	40854566	712	77877											
CYP20A1	57404	broad.mit.edu	37	chr2	204161589	204161589	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtatgaactggtaacatcAtcaagggaagaagcttggat	16	9	11	5	0	2	2	2	1	0	1	2	4	2	4	0	3	3	3	0	3	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:204161589A>G	uc002uzv.3	+	13	1969	c.1347A>G	c.(1345-1347)TCA>TCG	p.S449S	CYP20A1_uc002uzx.3_Silent_p.S347S|CYP20A1_uc010zif.1_Silent_p.S457S|CYP20A1_uc002uzy.3_Silent_p.S347S|CYP20A1_uc002uzw.3_RNA|CYP20A1_uc010ftw.2_Silent_p.S179S	NM_177538	NP_803882	Q6UW02	CP20A_HUMAN	cytochrome P450, family 20, subfamily A,	449						integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0						TGGTAACATCATCAAGGGAAG	0.333													15	92					0	0	1	0	0		G	204161589	G	G	204161589	2	3	151	1	0	0	0	0	0	0	0	1	4155	204	8	3		3	CYP20A1	2	204161589	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1816782	204161589	39037784	713	77878											
RAPH1	65059	broad.mit.edu	37	chr2	204354576	204354576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctaactgtgcagtgacgtCgtccaaggagtagctggcat	9	11	12	9	2	1	1	0	1	1	0	3	2	2	2	1	2	3	4	1	2	3	3	rs145036827	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:204354576C>T	uc002vad.2	-	4	688	c.463G>A	c.(463-465)GAC>AAC	p.D155N	RAPH1_uc002vae.2_Missense_Mutation_p.D155N|RAPH1_uc002vaf.2_Missense_Mutation_p.D155N	NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	155					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10						GCAGTGACGTCGTCCAAGGAG	0.443													48	186					0	0	1	0	0		T	204354576	T	T	204354576	3	4	151	1	0	0	0	0	1	0	0	0	13075	884	31	1	3504	1	RAPH1	2	204354576	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	192987	204354576	38844797	714	77879											
NRP2	8828	broad.mit.edu	37	chr2	206580934	206580934	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtatgactttatcgagaTtcgggatggggacagtgaat	11	11	14	5	2	0	3	0	2	0	1	2	6	0	5	0	4	0	1	0	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:206580934T>A	uc002vaw.2	+	3	1060	c.269T>A	c.(268-270)ATT>AAT	p.I90N	NRP2_uc002vat.2_Missense_Mutation_p.I90N|NRP2_uc002vau.2_Missense_Mutation_p.I90N|NRP2_uc002vav.2_Missense_Mutation_p.I90N|NRP2_uc002vax.2_Missense_Mutation_p.I90N|NRP2_uc002vay.2_Missense_Mutation_p.I90N|NRP2_uc010fud.2_Missense_Mutation_p.I90N	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	90	Extracellular (Potential).|CUB 1.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						TTTATCGAGATTCGGGATGGG	0.547													51	179					0	0	1	0	0		A	206580934	A	A	206580934	3	1	151	1	0	0	0	0	1	0	0	0	10680	1493	52	5	279	5	NRP2	2	206580934	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2226358	206580934	36618439	715	77880											
NRP2	8828	broad.mit.edu	37	chr2	206581054	206581054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcacctccgactacgcccGgcagggggcaggcttctctc	5	8	12	16	3	2	0	1	0	1	0	5	1	3	0	3	4	1	4	3	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:206581054G>A	uc002vaw.2	+	3	1180	c.389G>A	c.(388-390)CGG>CAG	p.R130Q	NRP2_uc002vat.2_Missense_Mutation_p.R130Q|NRP2_uc002vau.2_Missense_Mutation_p.R130Q|NRP2_uc002vav.2_Missense_Mutation_p.R130Q|NRP2_uc002vax.2_Missense_Mutation_p.R130Q|NRP2_uc002vay.2_Missense_Mutation_p.R130Q|NRP2_uc010fud.2_Missense_Mutation_p.R130Q	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	130	Extracellular (Potential).|CUB 1.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						GACTACGCCCGGCAGGGGGCA	0.612													25	102					0	0	1	0	0		A	206581054	A	A	206581054	3	1	151	1	0	0	0	0	1	0	0	0	10680	1116	39	1	399	1	NRP2	2	206581054	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	120	206581054	36618319	716	77881											
ZDBF2	57683	broad.mit.edu	37	chr2	207173178	207173178	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcgaataaagaaataaatcTtttgagggaggaacatgttt	16	11	11	3	1	1	2	0	1	1	1	1	5	1	4	0	3	1	1	0	3	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:207173178T>C	uc002vbp.2	+	5	4176	c.3926T>C	c.(3925-3927)CTT>CCT	p.L1309P		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1309							nucleic acid binding|zinc ion binding			ovary(3)	3						GAAATAAATCTTTTGAGGGAG	0.353													12	49					0	0	1	0	0		C	207173178	C	C	207173178	3	2	151	1	0	0	0	0	1	0	0	0	17624	1609	56	3	3936	3	ZDBF2	2	207173178	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	592124	207173178	36026195	717	77882											
ADAM23	8745	broad.mit.edu	37	chr2	207426927	207426927	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcaactctgaaaaacagTatggtcttccaatggcagtg	12	12	8	9	0	3	1	1	1	2	0	4	1	4	1	1	2	2	2	1	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:207426927T>C	uc002vbq.2	+	13	1478	c.1255T>C	c.(1255-1257)TAT>CAT	p.Y419H	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	419	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		TGAAAAACAGTATGGTCTTCC	0.413													47	267					0	0	1	0	0		C	207426927	C	C	207426927	3	2	151	1	0	0	0	0	1	0	0	0	245	1652	57	3	1305	3	ADAM23	2	207426927	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	253749	207426927	35772446	718	77883											
CCNYL1	151195	broad.mit.edu	37	chr2	208607011	208607011	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatttatttacagatttgTtcgtactctttttagtgctg	9	20	6	6	1	1	1	0	0	1	1	2	1	1	1	0	0	3	3	0	0	5	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:208607011T>C	uc002vci.2	+	5	788	c.431T>C	c.(430-432)GTT>GCT	p.V144A	CCNYL1_uc002vch.2_Missense_Mutation_p.V125A	NM_001142300	NP_001135772	Q8N7R7	CCYL1_HUMAN	cyclin Y-like 1 isoform 1	195	Cyclin N-terminal.				regulation of cyclin-dependent protein kinase activity		protein kinase binding				0				LUSC - Lung squamous cell carcinoma(261;0.0731)|Epithelial(149;0.139)|Lung(261;0.14)		TACAGATTTGTTCGTACTCTT	0.338													39	169					0	0	1	0	0		C	208607011	C	C	208607011	3	2	151	1	0	0	0	0	1	0	0	0	2940	1725	60	3	610	3	CCNYL1	2	208607011	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1180084	208607011	34592362	719	77884											
CRYGC	1420	broad.mit.edu	37	chr2	208994373	208994373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtggtggtttcgtagctgCggccctggaaggccctgtcc	4	10	15	12	2	0	0	0	0	0	0	2	1	1	1	3	5	2	3	3	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:208994373C>T	uc002vco.3	-	2	82	c.44G>A	c.(43-45)CGC>CAC	p.R15H		NM_020989	NP_066269	P07315	CRGC_HUMAN	crystallin, gamma C	15	Beta/gamma crystallin 'Greek key' 1.				visual perception	cytoplasm|nucleus	protein binding|structural constituent of eye lens				0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.0858)|Lung(261;0.133)		TTCGTAGCTGCGGCCCTGGAA	0.522													50	138					0	0	1	0	0		T	208994373	T	T	208994373	3	4	151	1	0	0	0	0	1	0	0	0	3919	768	27	1	488	1	CRYGC	2	208994373	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	387362	208994373	34205000	720	77885											
PIKFYVE	200576	broad.mit.edu	37	chr2	209150475	209150475	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccgagcttgcacatattgTagaaaaatagccttaagtta	14	12	7	8	1	0	1	0	0	0	1	1	2	1	1	2	0	3	4	2	0	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:209150475T>C	uc002vcz.2	+	6	797	c.639T>C	c.(637-639)TGT>TGC	p.C213C	PIKFYVE_uc010fun.1_5'UTR|PIKFYVE_uc002vcy.1_Silent_p.C213C|PIKFYVE_uc002vcv.2_Silent_p.C116C|PIKFYVE_uc002vcw.2_Silent_p.C213C|PIKFYVE_uc002vcx.2_Silent_p.C127C	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	213	FYVE-type.				cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						GCACATATTGTAGAAAAATAG	0.358													55	187					0	0	1	0	0		C	209150475	C	C	209150475	2	2	151	1	0	0	0	0	0	0	0	1	11943	1644	57	3		3	PIKFYVE	2	209150475	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	156102	209150475	34048898	721	77886											
PIKFYVE	200576	broad.mit.edu	37	chr2	209200094	209200094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaatattcattaagcgtcagGccccattaaaagtgtccctt	13	12	6	10	1	2	0	2	0	0	0	3	0	3	0	3	1	1	0	3	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:209200094G>A	uc002vcz.2	+	25	4365	c.4207G>A	c.(4207-4209)GCC>ACC	p.A1403T	PIKFYVE_uc002vcy.1_Missense_Mutation_p.A1347T	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1403					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						TAAGCGTCAGGCCCCATTAAA	0.343													60	307					0	0	1	0	0		A	209200094	A	A	209200094	3	1	151	1	0	0	0	0	1	0	0	0	11943	1203	42	2	4312	2	PIKFYVE	2	209200094	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	49619	209200094	33999279	722	77887											
MAP2	4133	broad.mit.edu	37	chr2	210560125	210560125	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttgaggctacacaggaCatgaccccctcatccaaagc	14	6	7	14	0	1	2	1	2	0	0	2	3	2	3	3	2	3	1	3	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:210560125C>T	uc002vde.1	+	7	3479	c.3231C>T	c.(3229-3231)GAC>GAT	p.D1077D	MAP2_uc002vdc.1_Silent_p.D1077D|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.D1073D	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1077					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CTACACAGGACATGACCCCCT	0.453													27	89					0	0	1	0	0		T	210560125	T	T	210560125	2	4	151	1	0	0	0	0	0	0	0	1	9253	477	17	4		4	MAP2	2	210560125	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1360031	210560125	32639248	723	77888											
MAP2	4133	broad.mit.edu	37	chr2	210594919	210594919	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaacagattgacagccaaaAgttgaacttcagagagcatg	17	8	9	7	0	1	4	1	2	0	2	1	5	1	4	1	0	4	2	1	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:210594919A>C	uc002vde.1	+	15	5530	c.5282A>C	c.(5281-5283)AAG>ACG	p.K1761T	MAP2_uc002vdd.1_Missense_Mutation_p.K493T|MAP2_uc002vdf.1_Missense_Mutation_p.K436T|MAP2_uc002vdg.1_Missense_Mutation_p.K405T|MAP2_uc002vdh.1_Missense_Mutation_p.K462T|MAP2_uc002vdi.1_Missense_Mutation_p.K1757T	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1761					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	GACAGCCAAAAGTTGAACTTC	0.507													8	22					0	0	1	0	0		C	210594919	C	C	210594919	3	2	151	1	0	0	0	0	1	0	0	0	9253	72	3	5	5600	5	MAP2	2	210594919	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	34794	210594919	32604454	724	77889											
LANCL1	10314	broad.mit.edu	37	chr2	211319864	211319864	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctgcctgcttctcattgTtcatcttgtgatatagcaca	7	17	6	11	0	4	1	2	1	3	0	5	1	4	1	1	0	3	3	1	0	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:211319864T>C	uc010zjh.1	-	4	449	c.374A>G	c.(373-375)AAC>AGC	p.N125S	LANCL1_uc002ved.2_Missense_Mutation_p.N125S|LANCL1_uc010fuq.2_Missense_Mutation_p.N125S	NM_001136574	NP_001130046	O43813	LANC1_HUMAN	lanthionine synthetase C-like protein 1	125						cytoplasm|integral to plasma membrane|microtubule cytoskeleton|nucleus	catalytic activity|G-protein coupled receptor activity|glutathione binding|low-density lipoprotein particle receptor binding|SH3 domain binding|zinc ion binding				0				Epithelial(149;0.00562)|Lung(261;0.0468)|LUSC - Lung squamous cell carcinoma(261;0.0495)|all cancers(144;0.0569)		CTTCTCATTGTTCATCTTGTG	0.438													16	103					0	0	1	0	0		C	211319864	C	C	211319864	3	2	151	1	0	0	0	0	1	0	0	0	8636	1725	60	3	853	3	LANCL1	2	211319864	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	724945	211319864	31879509	725	77890											
CPS1	1373	broad.mit.edu	37	chr2	211502472	211502472	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagggcaaaggagattgggTtctcagataagcagatttca	15	9	12	5	0	2	3	2	0	1	3	3	4	2	3	0	3	1	3	0	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:211502472T>A	uc002vee.3	+	22	2866	c.2734T>A	c.(2734-2736)TTC>ATC	p.F912I	CPS1_uc010fur.2_Missense_Mutation_p.F918I|CPS1_uc010fus.2_Missense_Mutation_p.F461I	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	912				F -> L (in Ref. 6; CAE45707).	carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		GGAGATTGGGTTCTCAGATAA	0.408													28	132					0	0	1	0	0		A	211502472	A	A	211502472	3	1	151	1	0	0	0	0	1	0	0	0	3826	1725	60	5	2842	5	CPS1	2	211502472	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	182608	211502472	31696901	726	77891											
ERBB4	2066	broad.mit.edu	37	chr2	212989574	212989574	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtacttgcgcaaggctcggTactgctgttccaggtcagag	8	10	13	10	2	1	1	1	0	0	1	3	1	2	1	1	3	4	6	1	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:212989574T>C	uc002veg.1	-	2	235	c.137A>G	c.(136-138)TAC>TGC	p.Y46C	ERBB4_uc002veh.1_Missense_Mutation_p.Y46C|ERBB4_uc010zji.1_Missense_Mutation_p.Y46C|ERBB4_uc010zjj.1_Missense_Mutation_p.Y46C|ERBB4_uc010fut.1_Missense_Mutation_p.Y46C	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	46	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CAAGGCTCGGTACTGCTGTTC	0.478										TSP Lung(8;0.080)			25	55					0	0	1	0	0		C	212989574	C	C	212989574	3	2	151	1	0	0	0	0	1	0	0	0	5217	1638	57	3	3897	3	ERBB4	2	212989574	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1487102	212989574	30209799	727	77892											
ERBB4	2066	broad.mit.edu	37	chr2	212989624	212989624	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttattctccgttcctgcAcacactgcaaagacaagaag	13	10	7	11	1	1	2	0	0	1	2	3	2	2	2	2	0	2	4	2	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:212989624A>G	uc002veg.1	-	2	185	c.87T>C	c.(85-87)TGT>TGC	p.C29C	ERBB4_uc002veh.1_Silent_p.C29C|ERBB4_uc010zji.1_Silent_p.C29C|ERBB4_uc010zjj.1_Silent_p.C29C|ERBB4_uc010fut.1_Silent_p.C29C	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	29	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CCGTTCCTGCACACACTGCAA	0.423										TSP Lung(8;0.080)			13	57					0	0	1	0	0		G	212989624	G	G	212989624	2	3	151	1	0	0	0	0	0	0	0	1	5217	157	6	3		3	ERBB4	2	212989624	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	50	212989624	30209749	728	77893											
VWC2L	402117	broad.mit.edu	37	chr2	215440456	215440456	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgaagtgaaagtggacgAatgtaacatctgtcattgtc	13	12	10	6	1	2	2	1	2	1	0	3	4	2	3	0	1	1	1	0	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:215440456A>G	uc002vet.2	+	4	711	c.581A>G	c.(580-582)GAA>GGA	p.E194G	VWC2L_uc010zjl.1_3'UTR	NM_001080500	NP_001073969	B2RUY7	VWC2L_HUMAN	von Willebrand factor C domain-containing	194						extracellular region					0						AAAGTGGACGAATGTAACATC	0.448													42	231					0	0	1	0	0		G	215440456	G	G	215440456	3	3	151	1	0	0	0	0	1	0	0	0	17270	246	9	3	591	3	VWC2L	2	215440456	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2450832	215440456	27758917	729	77894											
ABCA12	26154	broad.mit.edu	37	chr2	215813766	215813766	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcattagtttttcatacccGgtcttatttctgatcagaat	10	17	6	8	1	4	2	2	1	2	1	4	2	4	2	1	1	2	2	1	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:215813766G>A	uc002vew.2	-	46	7180	c.6960C>T	c.(6958-6960)ACC>ACT	p.T2320T	ABCA12_uc002vev.2_Silent_p.T2002T|ABCA12_uc010zjn.1_Silent_p.T1247T	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	2320	ABC transporter 2.				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TTTCATACCCGGTCTTATTTC	0.333													26	149					0	0	1	0	0		A	215813766	A	A	215813766	2	1	151	1	0	0	0	0	0	0	0	1	30	1103	39	1		1	ABCA12	2	215813766	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	373310	215813766	27385607	730	77895											
FN1	2335	broad.mit.edu	37	chr2	216240093	216240093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtgtggtggccaggaaacGcaggttggatggtgcatcaa	9	8	18	6	1	1	0	1	0	0	0	1	2	1	2	1	7	2	3	1	7	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:216240093G>A	uc002vfa.2	-	38	6267	c.6001C>T	c.(6001-6003)CGT>TGT	p.R2001C	FN1_uc002vfb.2_Missense_Mutation_p.R1820C|FN1_uc002vfc.2_Missense_Mutation_p.R1820C|FN1_uc002vfd.2_Missense_Mutation_p.R2001C|FN1_uc002vfe.2_Missense_Mutation_p.R1910C|FN1_uc002vff.2_Missense_Mutation_p.R1910C|FN1_uc002vfg.2_Missense_Mutation_p.R1820C|FN1_uc002vfh.2_Missense_Mutation_p.R1820C|FN1_uc002vfi.2_Missense_Mutation_p.R2001C|FN1_uc002vfj.2_Missense_Mutation_p.R1911C|FN1_uc002vez.2_Missense_Mutation_p.R195C|FN1_uc010zjp.1_Missense_Mutation_p.R538C|FN1_uc002vfk.1_RNA|FN1_uc010fva.1_RNA|FN1_uc010fvb.1_RNA|FN1_uc010fvc.1_Missense_Mutation_p.R363C|FN1_uc010fvd.1_Missense_Mutation_p.R92C	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1910	Binds to FBLN1.|Heparin-binding 2.|Fibronectin type-III 15.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCCAGGAAACGCAGGTTGGAT	0.488													16	51					0	0	1	0	0		A	216240093	A	A	216240093	3	1	151	1	0	0	0	0	1	0	0	0	5976	1087	38	1	1468	1	FN1	2	216240093	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	426327	216240093	26959280	731	77896											
TNS1	7145	broad.mit.edu	37	chr2	218682425	218682425	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcccacctggcatggagtActtggagaagtcgggcagag	10	6	16	9	1	0	2	0	0	0	2	1	4	0	3	2	5	1	3	2	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:218682425A>G	uc002vgt.2	-	24	4716	c.4318T>C	c.(4318-4320)TAC>CAC	p.Y1440H	TNS1_uc002vgr.2_Missense_Mutation_p.Y1427H|TNS1_uc002vgs.2_Missense_Mutation_p.Y1419H|TNS1_uc010zjv.1_Missense_Mutation_p.Y1419H	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1440						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GGCATGGAGTACTTGGAGAAG	0.498													14	62					0	0	1	0	0		G	218682425	G	G	218682425	3	3	151	1	0	0	0	0	1	0	0	0	16368	391	14	3	929	3	TNS1	2	218682425	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2442332	218682425	24516948	732	77897											
ZNF142	7701	broad.mit.edu	37	chr2	219508394	219508394	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggctcttctgtttcttctgGctccctgggaagctccaaag	6	13	10	12	0	4	0	0	0	4	0	6	1	6	1	2	3	1	4	2	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:219508394G>A	uc002vin.2	-	8	3281	c.2845C>T	c.(2845-2847)CCA>TCA	p.P949S	ZNF142_uc002vil.2_Missense_Mutation_p.P910S|ZNF142_uc010fvt.2_Missense_Mutation_p.P786S|ZNF142_uc002vim.2_Missense_Mutation_p.P786S	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	949					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		GTTTCTTCTGGCTCCCTGGGA	0.557													8	325					0	0	1	0	0		A	219508394	A	A	219508394	3	1	151	1	0	0	0	0	1	0	0	0	17756	1203	42	2	2230	2	ZNF142	2	219508394	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	825969	219508394	23690979	733	77898											
BCS1L	617	broad.mit.edu	37	chr2	219526551	219526551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtgggctctgaatggcGtccctttggctatccacgcc	5	11	12	13	2	1	1	0	1	1	0	3	1	3	1	3	3	1	3	3	3	2	2	rs143968821		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:219526551G>A	uc002vio.2	+	4	948	c.530G>A	c.(529-531)CGT>CAT	p.R177H	ZNF142_uc002vin.2_5'Flank|ZNF142_uc010fvt.2_5'Flank|ZNF142_uc002vim.2_5'Flank|BCS1L_uc002vip.2_Missense_Mutation_p.R177H|BCS1L_uc002viq.2_Missense_Mutation_p.R177H|BCS1L_uc010fvu.2_Missense_Mutation_p.R177H|BCS1L_uc010fvv.2_Missense_Mutation_p.R177H|BCS1L_uc002vir.2_Missense_Mutation_p.R177H|BCS1L_uc002vis.2_Missense_Mutation_p.R177H	NM_004328	NP_004319	Q9Y276	BCS1_HUMAN	BCS1-like	177	Mitochondrial matrix (Potential).				mitochondrial respiratory chain complex I assembly|mitochondrial respiratory chain complex III assembly|mitochondrial respiratory chain complex IV assembly	integral to membrane|mitochondrial respiratory chain complex III	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Renal(207;0.0474)		Epithelial(149;7.12e-07)|all cancers(144;0.000131)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCTGAATGGCGTCCCTTTGGC	0.537													13	40					0	0	1	0	0		A	219526551	A	A	219526551	3	1	151	1	0	0	0	0	1	0	0	0	1390	1145	40	1	540	1	BCS1L	2	219526551	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	18157	219526551	23672822	734	77899											
STK36	27148	broad.mit.edu	37	chr2	219554645	219554645	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaggcctactttgcctgtAccttcaatctggagaggagc	8	12	10	11	0	3	1	2	0	1	1	3	3	3	2	3	3	4	1	3	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:219554645A>G	uc002viu.2	+	13	1890	c.1624A>G	c.(1624-1626)ACC>GCC	p.T542A	STK36_uc002viv.2_Missense_Mutation_p.T542A	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	542					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		CTTTGCCTGTACCTTCAATCT	0.488													3	18					0	0	1	0	0		G	219554645	G	G	219554645	3	3	151	1	0	0	0	0	1	0	0	0	15327	391	14	3	1670	3	STK36	2	219554645	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	28094	219554645	23644728	735	77900											
TTLL4	9654	broad.mit.edu	37	chr2	219602475	219602475	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaagcagagtggtccctcaGgcacagtacctgccacgcca	10	6	10	15	1	2	1	2	0	0	1	3	1	3	1	4	2	3	3	4	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:219602475G>T	uc002viy.2	+	3	446	c.76G>T	c.(76-78)GGC>TGC	p.G26C	TTLL4_uc010zkl.1_Intron|TTLL4_uc010fvx.2_Missense_Mutation_p.G26C	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	26					protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		TGGTCCCTCAGGCACAGTACC	0.572													13	75					1.49906e-05	1.51891e-05	1	1	0		T	219602475	T	T	219602475	3	4	151	1	0	0	0	0	1	0	0	0	16755	1000	35	5	78	5	TTLL4	2	219602475	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	47830	219602475	23596898	736	77901											
TTLL4	9654	broad.mit.edu	37	chr2	219603313	219603313	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtgttgcctcttcctggtAtaaccggaataacttagcca	10	12	8	11	1	1	0	0	0	1	0	2	1	2	1	4	2	4	2	4	2	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:219603313A>G	uc002viy.2	+	3	1284	c.914A>G	c.(913-915)TAT>TGT	p.Y305C	TTLL4_uc010zkl.1_Missense_Mutation_p.Y140C|TTLL4_uc010fvx.2_Missense_Mutation_p.Y305C	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	305					protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		TCTTCCTGGTATAACCGGAAT	0.527													48	167					0	0	1	0	0		G	219603313	G	G	219603313	3	3	151	1	0	0	0	0	1	0	0	0	16755	449	16	3	916	3	TTLL4	2	219603313	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	838	219603313	23596060	737	77902											
PRKAG3	53632	broad.mit.edu	37	chr2	219694778	219694778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgtgctcctgcatgaagcGcatgtagatctgggcgccgg	6	9	16	10	3	1	2	0	1	1	1	2	2	2	2	2	3	3	4	2	3	2	1	rs141188865		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:219694778G>A	uc002vjb.1	-	4	575	c.556C>T	c.(556-558)CGC>TGC	p.R186C	PRKAG3_uc010zkn.1_RNA|PRKAG3_uc010fvy.1_Missense_Mutation_p.R186C|PRKAG3_uc010zko.1_Missense_Mutation_p.R182C	NM_017431	NP_059127	Q9UGI9	AAKG3_HUMAN	AMP-activated protein kinase, non-catalytic	186					cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|intracellular protein kinase cascade|regulation of fatty acid oxidation	cytosol	AMP-activated protein kinase activity|protein kinase binding			ovary(1)|lung(1)	2		Renal(207;0.0474)		Epithelial(149;4.35e-07)|all cancers(144;8.96e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGCATGAAGCGCATGTAGATC	0.617													20	118					0	0	1	0	0		A	219694778	A	A	219694778	3	1	151	1	0	0	0	0	1	0	0	0	12524	1087	38	1	953	1	PRKAG3	2	219694778	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	91465	219694778	23504595	738	77903											
WNT10A	80326	broad.mit.edu	37	chr2	219746929	219746929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcctccccccggagcccGtgctcaatgccaacacagtg	7	6	9	19	3	1	0	1	0	0	0	3	1	3	1	7	1	4	1	7	1	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:219746929G>A	uc002vjd.1	+	2	623	c.160G>A	c.(160-162)GTG>ATG	p.V54M		NM_025216	NP_079492	Q9GZT5	WN10A_HUMAN	wingless-type MMTV integration site family,	54					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to transforming growth factor beta stimulus|female gonad development|hair follicle morphogenesis|odontogenesis|regulation of odontogenesis of dentine-containing tooth|sebaceous gland development|skin development|tongue development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			lung(1)|skin(1)	2		Renal(207;0.0474)		Epithelial(149;4.26e-07)|all cancers(144;8.8e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCCGGAGCCCGTGCTCAATGC	0.617													12	50					0	0	1	0	0		A	219746929	A	A	219746929	3	1	151	1	0	0	0	0	1	0	0	0	17408	1145	40	1	166	1	WNT10A	2	219746929	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	52151	219746929	23452444	739	77904											
NHEJ1	79840	broad.mit.edu	37	chr2	219942915	219942915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatcaccaatgctgcatGcctctggcagtttctgtaag	8	13	8	12	0	3	0	1	0	2	0	4	0	4	0	3	1	3	5	3	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:219942915G>A	uc002vjp.3	-	6	748	c.602C>T	c.(601-603)GCA>GTA	p.A201V	NHEJ1_uc002vjq.3_RNA	NM_024782	NP_079058	Q9H9Q4	NHEJ1_HUMAN	nonhomologous end-joining factor 1	201					B cell differentiation|central nervous system development|DNA recombination|double-strand break repair via nonhomologous end joining|positive regulation of ligase activity|response to ionizing radiation|T cell differentiation	nonhomologous end joining complex|nucleus	DNA binding|identical protein binding			lung(1)	1		Renal(207;0.0915)		Epithelial(149;2.15e-06)|all cancers(144;0.000339)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(261;0.0112)		AATGCTGCATGCCTCTGGCAG	0.483								Direct_reversal_of_damage|NHEJ					18	78					0	0	1	0	0		A	219942915	A	A	219942915	3	1	151	1	0	0	0	0	1	0	0	0	10421	1319	46	2	309	2	NHEJ1	2	219942915	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	195986	219942915	23256458	740	77905											
ABCB6	10058	broad.mit.edu	37	chr2	220075831	220075831	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagagaggcctgggtcacCtagggccaaaagaccacaca	13	3	13	12	1	1	2	1	0	0	2	1	4	1	3	4	4	0	0	4	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:220075831C>A	uc002vkc.1	-	15	2246	c.1969_splice	c.e15-1	p.V657_splice	ABCB6_uc010fwe.1_Splice_Site_p.V611_splice	NM_005689	NP_005680	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B, member 6						cadmium ion transmembrane transport|cellular iron ion homeostasis|detoxification of cadmium ion|porphyrin biosynthetic process	ATP-binding cassette (ABC) transporter complex|Golgi apparatus|integral to mitochondrial outer membrane|plasma membrane|vacuolar membrane	ATP binding|efflux transmembrane transporter activity|heme binding|heme-transporting ATPase activity			breast(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;1.22e-06)|all cancers(144;0.000201)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCTGGGTCACCTAGGGCCAAA	0.423													19	64					2.94398e-08	3.01617e-08	1	1	0		A	220075831	A	A	220075831	5	1	151	1	0	0	0	0	0	0	1	0	45	695	24	5	580	5	ABCB6	2	220075831	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	132916	220075831	23123542	741	77906											
ABCB6	10058	broad.mit.edu	37	chr2	220078187	220078187	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctctttcagcaagtcaaAcatgttctccatgtcaatga	11	13	5	12	0	5	1	3	1	2	0	7	1	6	1	2	0	2	2	2	0	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:220078187A>G	uc002vkc.1	-	11	1970	c.1693T>C	c.(1693-1695)TTT>CTT	p.F565L	ABCB6_uc010fwe.1_Missense_Mutation_p.F519L	NM_005689	NP_005680	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B, member 6	565					cadmium ion transmembrane transport|cellular iron ion homeostasis|detoxification of cadmium ion|porphyrin biosynthetic process	ATP-binding cassette (ABC) transporter complex|Golgi apparatus|integral to mitochondrial outer membrane|plasma membrane|vacuolar membrane	ATP binding|efflux transmembrane transporter activity|heme binding|heme-transporting ATPase activity			breast(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;1.22e-06)|all cancers(144;0.000201)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGCAAGTCAAACATGTTCTCC	0.478													7	293					0	0	1	0	0		G	220078187	G	G	220078187	3	3	151	1	0	0	0	0	1	0	0	0	45	43	2	3	871	3	ABCB6	2	220078187	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2356	220078187	23121186	742	77907											
ABCB6	10058	broad.mit.edu	37	chr2	220080754	220080754	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acactggatgtgccccgatcCgcgatccgcagcacctcccc	7	6	9	19	4	0	0	0	0	0	0	3	3	3	1	7	1	2	2	7	1	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:220080754C>T	uc002vkc.1	-	5	1396	c.1119G>A	c.(1117-1119)GCG>GCA	p.A373A	ABCB6_uc010fwe.1_Silent_p.A327A|ABCB6_uc010zku.1_Intron	NM_005689	NP_005680	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B, member 6	373	ABC transmembrane type-1.				cadmium ion transmembrane transport|cellular iron ion homeostasis|detoxification of cadmium ion|porphyrin biosynthetic process	ATP-binding cassette (ABC) transporter complex|Golgi apparatus|integral to mitochondrial outer membrane|plasma membrane|vacuolar membrane	ATP binding|efflux transmembrane transporter activity|heme binding|heme-transporting ATPase activity			breast(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;1.22e-06)|all cancers(144;0.000201)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGCCCCGATCCGCGATCCGCA	0.682													5	10					0	0	1	0	0		T	220080754	T	T	220080754	2	4	151	1	0	0	0	0	0	0	0	1	45	639	23	1		1	ABCB6	2	220080754	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2567	220080754	23118619	743	77908											
SPEG	10290	broad.mit.edu	37	chr2	220309422	220309422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgatgtgcagggaacccagCgcctggagcttcgggatgac	8	6	16	11	3	0	1	0	1	0	0	1	5	0	4	2	3	4	2	2	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:220309422C>T	uc010fwg.2	+	2	436	c.436C>T	c.(436-438)CGC>TGC	p.R146C	SPEG_uc002vlm.2_RNA|SPEG_uc010fwh.1_5'UTR|SPEG_uc002vln.1_5'UTR	NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	146					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GGGAACCCAGCGCCTGGAGCT	0.627													11	45					0	0	1	0	0		T	220309422	T	T	220309422	3	4	151	1	0	0	0	0	1	0	0	0	15061	768	27	1	442	1	SPEG	2	220309422	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	228668	220309422	22889951	744	77909											
SPEG	10290	broad.mit.edu	37	chr2	220333749	220333749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtatgtagaagagccccGgacagccgcctcaggcccca	9	5	12	15	2	1	2	1	0	0	2	1	3	1	3	6	2	2	3	6	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:220333749G>A	uc010fwg.2	+	12	3470	c.3470G>A	c.(3469-3471)CGG>CAG	p.R1157Q		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1157					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GAAGAGCCCCGGACAGCCGCC	0.687													9	23					0	0	1	0	0		A	220333749	A	A	220333749	3	1	151	1	0	0	0	0	1	0	0	0	15061	1116	39	1	3528	1	SPEG	2	220333749	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	24327	220333749	22865624	745	77910											
OBSL1	23363	broad.mit.edu	37	chr2	220416496	220416496	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcttctcgcgaggggggTggcggcacatctggagaggc	5	7	19	10	4	3	1	0	0	3	1	4	3	3	1	0	8	0	1	0	8	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:220416496T>C	uc010fwk.2	-	20	5495	c.5438A>G	c.(5437-5439)CAC>CGC	p.H1813R	hsa-mir-3132|MI0014152_5'Flank	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	1813	Ig-like 14.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		GCGAGGGGGGTGGCGGCACAT	0.692													4	16					0	0	1	0	0		C	220416496	C	C	220416496	3	2	151	1	0	0	0	0	1	0	0	0	10832	1696	59	3	260	3	OBSL1	2	220416496	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	82747	220416496	22782877	746	77911											
OBSL1	23363	broad.mit.edu	37	chr2	220428124	220428124	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcatctccagcgacgcacTgaaactcgcccccgtctgag	9	7	8	17	4	3	2	1	2	2	0	5	3	3	2	3	0	2	1	3	0	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:220428124T>C	uc010fwk.2	-	7	2690	c.2633A>G	c.(2632-2634)CAG>CGG	p.Q878R	OBSL1_uc010zli.1_5'Flank|OBSL1_uc010fwl.1_Missense_Mutation_p.Q353R|OBSL1_uc002vmi.2_Missense_Mutation_p.Q878R|OBSL1_uc002vmj.2_Missense_Mutation_p.Q465R	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	878	Ig-like 6.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		AGCGACGCACTGAAACTCGCC	0.667													6	11					0	0	1	0	0		C	220428124	C	C	220428124	3	2	151	1	0	0	0	0	1	0	0	0	10832	1580	55	3	3269	3	OBSL1	2	220428124	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	11628	220428124	22771249	747	77912											
OBSL1	23363	broad.mit.edu	37	chr2	220431818	220431818	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtatacctgcacatccTccagacctgccaccaggcga	9	7	8	17	3	0	1	0	0	0	1	3	2	2	1	6	1	3	2	6	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:220431818T>G	uc010fwk.2	-	5	1925	c.1868A>C	c.(1867-1869)GAG>GCG	p.E623A	OBSL1_uc010fwl.1_Missense_Mutation_p.E98A|OBSL1_uc002vmi.2_Missense_Mutation_p.E623A|OBSL1_uc002vmj.2_Missense_Mutation_p.E210A	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	623					cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		CTGCACATCCTCCAGACCTGC	0.587													3	18					0	0	1	0	0		G	220431818	G	G	220431818	3	3	151	1	0	0	0	0	1	0	0	0	10832	1551	54	5	4042	5	OBSL1	2	220431818	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3694	220431818	22767555	748	77913											
STK11IP	114790	broad.mit.edu	37	chr2	220476719	220476719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgtggaccaccgactccGgctcttcctggatgttgagg	5	11	12	13	2	2	1	0	1	2	0	4	4	4	3	4	4	0	2	4	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:220476719G>A	uc002vml.2	+	19	2454	c.2411G>A	c.(2410-2412)CGG>CAG	p.R804Q		NM_052902	NP_443134	Q8N1F8	S11IP_HUMAN	LKB1 interacting protein	804					protein localization	cytoplasm	protein kinase binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;2.69e-07)|all cancers(144;5.91e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CACCGACTCCGGCTCTTCCTG	0.652													4	3					0	0	1	0	0		A	220476719	A	A	220476719	3	1	151	1	0	0	0	0	1	0	0	0	15313	1116	39	1	2485	1	STK11IP	2	220476719	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	44901	220476719	22722654	749	77914											
SLC4A3	6508	broad.mit.edu	37	chr2	220502890	220502890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggcccctctcaaggctcGtcgcatcatcggggactttg	6	10	11	14	3	2	0	2	0	1	0	6	1	2	1	2	4	0	2	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:220502890G>A	uc002vmp.3	+	18	3040	c.2771G>A	c.(2770-2772)CGT>CAT	p.R924H	SLC4A3_uc002vmo.3_Missense_Mutation_p.R951H|SLC4A3_uc010fwm.2_Missense_Mutation_p.R474H	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	924	Cytoplasmic (Potential).|Membrane (anion exchange).				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTCAAGGCTCGTCGCATCATC	0.602													4	28					0	0	1	0	0		A	220502890	A	A	220502890	3	1	151	1	0	0	0	0	1	0	0	0	14680	1145	40	1	2918	1	SLC4A3	2	220502890	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	26171	220502890	22696483	750	77915											
SLC4A3	6508	broad.mit.edu	37	chr2	220503505	220503505	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccctgggcagtgcccgTcctttcccgccgtggatgat	4	9	11	17	3	0	1	0	1	0	0	2	2	2	2	7	2	1	1	7	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:220503505T>C	uc002vmp.3	+	19	3206	c.2937T>C	c.(2935-2937)CGT>CGC	p.R979R	SLC4A3_uc002vmo.3_Silent_p.R1006R|SLC4A3_uc010fwm.2_Silent_p.R529R	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	979	Membrane (anion exchange).				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCAGTGCCCGTCCTTTCCCGC	0.607													5	22					0	0	1	0	0		C	220503505	C	C	220503505	2	2	151	1	0	0	0	0	0	0	0	1	14680	1654	58	3		3	SLC4A3	2	220503505	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	615	220503505	22695868	751	77916											
EPHA4	2043	broad.mit.edu	37	chr2	222298873	222298873	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacttacatcttgattggAcatatcccaatagggcctct	11	12	8	10	0	2	2	0	1	2	1	3	4	3	3	2	2	1	0	2	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:222298873A>G	uc002vmq.2	-	14	2527	c.2485T>C	c.(2485-2487)TCC>CCC	p.S829P	EPHA4_uc002vmr.2_Missense_Mutation_p.S829P|EPHA4_uc010zlm.1_Missense_Mutation_p.S770P|EPHA4_uc010zln.1_Missense_Mutation_p.S829P	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	829	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		TCTTGATTGGACATATCCCAA	0.413													30	137					0	0	1	0	0		G	222298873	G	G	222298873	3	3	151	1	0	0	0	0	1	0	0	0	5177	275	10	3	491	3	EPHA4	2	222298873	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1795368	222298873	20900500	752	77917											
EPHA4	2043	broad.mit.edu	37	chr2	222428898	222428898	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgttgtctgattcatagtAgtacaggttaaacgtctcct	9	15	9	8	2	3	1	1	1	2	0	5	1	3	1	1	1	2	4	1	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:222428898A>G	uc002vmq.2	-	3	418	c.376T>C	c.(376-378)TAC>CAC	p.Y126H	EPHA4_uc002vmr.2_Missense_Mutation_p.Y126H|EPHA4_uc010zlm.1_Missense_Mutation_p.Y67H|EPHA4_uc010zln.1_Missense_Mutation_p.Y126H	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	126	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		GATTCATAGTAGTACAGGTTA	0.458													6	290					0	0	1	0	0		G	222428898	G	G	222428898	3	3	151	1	0	0	0	0	1	0	0	0	5177	420	15	3	2644	3	EPHA4	2	222428898	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	130025	222428898	20770475	753	77918											
WDFY1	57590	broad.mit.edu	37	chr2	224763705	224763705	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgagggttgtgatgactgAacacgtgttctgttcaagct	8	15	12	6	1	2	4	1	4	1	0	2	4	2	4	0	1	2	4	0	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:224763705A>G	uc002vnq.2	-	6	619	c.568T>C	c.(568-570)TCA>CCA	p.S190P		NM_020830	NP_065881	Q8IWB7	WDFY1_HUMAN	WD repeat and FYVE domain containing 1	190	WD 4.					cytosol|early endosome|nucleus	1-phosphatidylinositol binding|zinc ion binding			lung(1)	1		all_lung(227;0.00682)|Lung NSC(271;0.00859)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;5.34e-10)|all cancers(144;1.67e-07)|Lung(261;0.00807)|LUSC - Lung squamous cell carcinoma(224;0.00843)		GTGATGACTGAACACGTGTTC	0.418													43	179					0	0	1	0	0		G	224763705	G	G	224763705	3	3	151	1	0	0	0	0	1	0	0	0	17294	246	9	3	692	3	WDFY1	2	224763705	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2334807	224763705	18435668	754	77919											
DOCK10	55619	broad.mit.edu	37	chr2	225740890	225740890	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgccagcacaaaataggTcagatcattcattttcaatt	14	12	6	9	0	4	1	4	0	0	1	4	1	4	1	1	1	3	2	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:225740890T>C	uc010fwz.1	-	8	1035	c.796A>G	c.(796-798)ACC>GCC	p.T266A	DOCK10_uc002vob.2_Missense_Mutation_p.T260A|DOCK10_uc002vod.1_Missense_Mutation_p.T266A	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	266	PH.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		ACAAAATAGGTCAGATCATTC	0.398													11	44					0	0	1	0	0		C	225740890	C	C	225740890	3	2	151	1	0	0	0	0	1	0	0	0	4691	1667	58	3	5960	3	DOCK10	2	225740890	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	977185	225740890	17458483	755	77920											
COL4A3	1285	broad.mit.edu	37	chr2	228121099	228121099	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccctgggttaatgggtgAagatggcattaaggtaatcc	10	13	12	6	0	0	2	0	1	0	1	2	2	2	2	2	4	0	3	2	4	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:228121099A>G	uc002vom.1	+	17	1136	c.974A>G	c.(973-975)GAA>GGA	p.E325G	COL4A3_uc002von.1_Missense_Mutation_p.E325G|COL4A3_uc002voo.1_Missense_Mutation_p.E325G|COL4A3_uc002vop.1_Missense_Mutation_p.E325G|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	325	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		TTAATGGGTGAAGATGGCATT	0.448													24	86					0	0	1	0	0		G	228121099	G	G	228121099	3	3	151	1	0	0	0	0	1	0	0	0	3694	246	9	3	1040	3	COL4A3	2	228121099	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2380209	228121099	15078274	756	77921											
SLC19A3	80704	broad.mit.edu	37	chr2	228552887	228552887	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtattgcagcttacctgaaTgctgactggcaagttgagcc	10	11	11	9	0	0	3	0	3	0	0	0	3	0	3	2	1	5	6	2	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:228552887T>A	uc002vpi.2	-	5	1398	c.1309A>T	c.(1309-1311)ATT>TTT	p.I437F	SLC19A3_uc002vpj.2_RNA|SLC19A3_uc010zlv.1_Missense_Mutation_p.I433F	NM_025243	NP_079519	Q9BZV2	S19A3_HUMAN	solute carrier family 19, member 3	437	Helical; (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)	CTTACCTGAATGCTGACTGGC	0.383													31	138					0	0	1	0	0		A	228552887	A	A	228552887	3	1	151	1	0	0	0	0	1	0	0	0	14455	1464	51	5	189	5	SLC19A3	2	228552887	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	431788	228552887	14646486	757	77922											
SLC19A3	80704	broad.mit.edu	37	chr2	228563875	228563875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattggtaggaaaagtgagaAaaggaaagccacggagacag	18	4	14	5	1	0	2	0	1	0	2	0	6	0	4	1	4	1	1	1	4	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:228563875A>G	uc002vpi.2	-	3	645	c.556T>C	c.(556-558)TTC>CTC	p.F186L	SLC19A3_uc002vpj.2_RNA|SLC19A3_uc010zlv.1_Missense_Mutation_p.F182L	NM_025243	NP_079519	Q9BZV2	S19A3_HUMAN	solute carrier family 19, member 3	186	Helical; (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)	AAAAGTGAGAAAAGGAAAGCC	0.458													22	111					0	0	1	0	0		G	228563875	G	G	228563875	3	3	151	1	0	0	0	0	1	0	0	0	14455	14	1	3	950	3	SLC19A3	2	228563875	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	10988	228563875	14635498	758	77923											
TRIP12	9320	broad.mit.edu	37	chr2	230683187	230683187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgaagctgttgactttcatCactggcttgcaatccttgta	8	15	8	10	0	2	2	2	2	0	0	3	2	3	2	1	1	2	5	1	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:230683187C>T	uc002vpw.1	-	8	1457	c.1348G>A	c.(1348-1350)GAT>AAT	p.D450N	TRIP12_uc002vpx.1_Missense_Mutation_p.D498N|TRIP12_uc002vpy.1_Missense_Mutation_p.D153N|TRIP12_uc010zlz.1_Intron|TRIP12_uc010fxh.1_Missense_Mutation_p.D456N	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	450					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		TGACTTTCATCACTGGCTTGC	0.368													41	175					0	0	1	0	0		T	230683187	T	T	230683187	3	4	151	1	0	0	0	0	1	0	0	0	16582	826	29	4	4766	4	TRIP12	2	230683187	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2119312	230683187	12516186	759	77924											
TRIP12	9320	broad.mit.edu	37	chr2	230723955	230723955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttttcttttctgactcCgtgaaccgccagtggcccca	5	14	7	15	2	2	2	0	2	2	0	4	2	4	2	6	1	1	0	6	1	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:230723955C>T	uc002vpw.1	-	3	543	c.434G>A	c.(433-435)CGG>CAG	p.R145Q	TRIP12_uc002vpx.1_Missense_Mutation_p.R187Q|TRIP12_uc002vpy.1_Intron|TRIP12_uc010zlz.1_RNA|TRIP12_uc010fxh.1_Missense_Mutation_p.R145Q	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	145					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		TTTCTGACTCCGTGAACCGCC	0.483													48	200					0	0	1	0	0		T	230723955	T	T	230723955	3	4	151	1	0	0	0	0	1	0	0	0	16582	652	23	1	5700	1	TRIP12	2	230723955	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	40768	230723955	12475418	760	77925											
SP140L	93349	broad.mit.edu	37	chr2	231254679	231254679	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggattttcaggctccttTacttccagtgacctgtggtg	5	16	11	9	0	1	1	1	1	0	0	3	2	3	2	3	3	1	1	3	3	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:231254679T>C	uc010fxm.1	+	11	996	c.905T>C	c.(904-906)TTA>TCA	p.L302S	SP140L_uc010fxo.1_Intron	NM_138402	NP_612411	Q9H930	LY10L_HUMAN	SP140 nuclear body protein-like	302	SAND.					nucleus	DNA binding|metal ion binding			central_nervous_system(1)	1						CAGGCTCCTTTACTTCCAGTG	0.423													15	79					0	0	1	0	0		C	231254679	C	C	231254679	3	2	151	1	0	0	0	0	1	0	0	0	14988	1764	61	3	947	3	SP140L	2	231254679	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	530724	231254679	11944694	761	77926											
SP100	6672	broad.mit.edu	37	chr2	231331847	231331847	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcagtgataggacaagAccacgacttttcagaatcca	13	10	8	10	1	2	3	1	1	1	2	3	5	3	4	2	1	1	1	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:231331847A>G	uc002vqt.2	+	13	1349	c.1208A>G	c.(1207-1209)GAC>GGC	p.D403G	SP100_uc002vqs.2_Missense_Mutation_p.D403G|SP100_uc002vqu.1_Missense_Mutation_p.D403G|SP100_uc002vqq.1_Missense_Mutation_p.D403G|SP100_uc002vqr.1_Missense_Mutation_p.D378G|SP100_uc010zmc.1_Missense_Mutation_p.D378G|SP100_uc002vqv.1_Missense_Mutation_p.D367G	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	403					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		ATAGGACAAGACCACGACTTT	0.483													46	189					0	0	1	0	0		G	231331847	G	G	231331847	3	3	151	1	0	0	0	0	1	0	0	0	14985	275	10	3	1258	3	SP100	2	231331847	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	77168	231331847	11867526	762	77927											
PSMD1	5707	broad.mit.edu	37	chr2	231941799	231941799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgattaaaattttaagtggtGaaatggctattgagttacat	14	16	9	2	0	0	3	0	3	0	0	0	3	0	3	0	2	1	2	0	2	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:231941799G>A	uc002vrn.1	+	9	1125	c.994G>A	c.(994-996)GAA>AAA	p.E332K	PSMD1_uc002vrm.1_Missense_Mutation_p.E332K|PSMD1_uc010fxu.1_Missense_Mutation_p.E196K	NM_002807	NP_002798	Q99460	PSMD1_HUMAN	proteasome 26S non-ATPase subunit 1	332					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding			ovary(1)|skin(1)	2		Ovarian(221;0.000626)|Medulloblastoma(418;0.0109)|Renal(207;0.0112)|Lung NSC(271;0.0538)|all_lung(227;0.0713)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;4e-26)|LUSC - Lung squamous cell carcinoma(224;0.0138)|Lung(119;0.0168)	Bortezomib(DB00188)	TTTAAGTGGTGAAATGGCTAT	0.299													14	65					0	0	1	0	0		A	231941799	A	A	231941799	3	1	151	1	0	0	0	0	1	0	0	0	12714	1291	45	4	1028	4	PSMD1	2	231941799	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	609952	231941799	11257574	763	77928											
HTR2B	3357	broad.mit.edu	37	chr2	231973323	231973323	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattgatgaagactgaatggTtgaacttcggagcctcattg	11	12	12	6	1	1	5	1	4	0	1	2	7	1	6	1	2	2	1	1	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:231973323T>C	uc002vro.2	-	4	1859	c.1354A>G	c.(1354-1356)ACC>GCC	p.T452A	PSMD1_uc002vrm.1_Intron|PSMD1_uc010fxu.1_Intron|PSMD1_uc002vrn.1_Intron|HTR2B_uc010fxv.2_Missense_Mutation_p.T385A	NM_000867	NP_000858	P41595	5HT2B_HUMAN	5-hydroxytryptamine (serotonin) receptor 2B	452	Cytoplasmic (By similarity).			T -> P (in Ref. 2; CAA85319).	activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cardiac muscle hypertrophy|cellular response to calcium ion|cellular response to temperature stimulus|cGMP biosynthetic process|embryonic morphogenesis|ERK1 and ERK2 cascade|G-protein coupled receptor internalization|heart morphogenesis|intestine smooth muscle contraction|negative regulation of apoptosis|negative regulation of autophagy|neural crest cell migration|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|phosphorylation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of cytokine secretion|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAP kinase activity|positive regulation of nitric-oxide synthase activity|protein kinase C signaling cascade|regulation of behavior|release of sequestered calcium ion into cytosol|response to drug|vasoconstriction	cytoplasm|integral to membrane|plasma membrane	calcium channel activity|drug binding|G-protein alpha-subunit binding|phosphatidylinositol phospholipase C activity|Ras GTPase activator activity|serotonin binding|serotonin receptor activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;4.48e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0141)	Chlorprothixene(DB01239)|Eletriptan(DB00216)|Fenfluramine(DB00574)|Methotrimeprazine(DB01403)|Minaprine(DB00805)|Quetiapine(DB01224)|Sumatriptan(DB00669)|Tegaserod(DB01079)|Triflupromazine(DB00508)	GACTGAATGGTTGAACTTCGG	0.403													17	65					0	0	1	0	0		C	231973323	C	C	231973323	3	2	151	1	0	0	0	0	1	0	0	0	7458	1725	60	3	95	3	HTR2B	2	231973323	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	31524	231973323	11226050	764	77929											
HTR2B	3357	broad.mit.edu	37	chr2	231973661	231973661	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttatatttgtaataaagaagGgacaccacataagcaaaaag	20	9	7	5	0	0	1	0	0	0	1	0	2	0	2	1	1	1	2	1	1	9	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:231973661G>T	uc002vro.2	-	4	1521	c.1016C>A	c.(1015-1017)CCC>CAC	p.P339H	PSMD1_uc002vrm.1_Intron|PSMD1_uc010fxu.1_Intron|PSMD1_uc002vrn.1_Intron|HTR2B_uc010fxv.2_Missense_Mutation_p.P272H	NM_000867	NP_000858	P41595	5HT2B_HUMAN	5-hydroxytryptamine (serotonin) receptor 2B	339	Helical; Name=6; (By similarity).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cardiac muscle hypertrophy|cellular response to calcium ion|cellular response to temperature stimulus|cGMP biosynthetic process|embryonic morphogenesis|ERK1 and ERK2 cascade|G-protein coupled receptor internalization|heart morphogenesis|intestine smooth muscle contraction|negative regulation of apoptosis|negative regulation of autophagy|neural crest cell migration|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|phosphorylation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of cytokine secretion|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAP kinase activity|positive regulation of nitric-oxide synthase activity|protein kinase C signaling cascade|regulation of behavior|release of sequestered calcium ion into cytosol|response to drug|vasoconstriction	cytoplasm|integral to membrane|plasma membrane	calcium channel activity|drug binding|G-protein alpha-subunit binding|phosphatidylinositol phospholipase C activity|Ras GTPase activator activity|serotonin binding|serotonin receptor activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;4.48e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0141)	Chlorprothixene(DB01239)|Eletriptan(DB00216)|Fenfluramine(DB00574)|Methotrimeprazine(DB01403)|Minaprine(DB00805)|Quetiapine(DB01224)|Sumatriptan(DB00669)|Tegaserod(DB01079)|Triflupromazine(DB00508)	AATAAAGAAGGGACACCACAT	0.393													48	154					3.54909e-21	3.70957e-21	1	1	0		T	231973661	T	T	231973661	3	4	151	1	0	0	0	0	1	0	0	0	7458	1232	43	5	433	5	HTR2B	2	231973661	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	338	231973661	11225712	765	77930											
EFHD1	80303	broad.mit.edu	37	chr2	233527579	233527579	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgatgatggagaagctggggGccccccagacccacctgggc	8	5	15	13	0	0	4	0	2	0	2	0	5	0	4	5	4	1	1	5	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:233527579G>C	uc002vtc.2	+	2	578	c.370G>C	c.(370-372)GCC>CCC	p.A124P	EFHD1_uc010fyf.2_Missense_Mutation_p.A28P|EFHD1_uc002vtd.2_Missense_Mutation_p.A12P	NM_025202	NP_079478	Q9BUP0	EFHD1_HUMAN	EF-hand domain family, member D1	124	EF-hand 1.						calcium ion binding|protein binding				0		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Breast(86;0.0199)|Renal(207;0.025)		Epithelial(121;2.08e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00825)|Lung(119;0.0101)		GAAGCTGGGGGCCCCCCAGAC	0.602													13	32					0	0	1	0	0		C	233527579	C	C	233527579	3	2	151	1	0	0	0	0	1	0	0	0	4954	1203	42	5	376	5	EFHD1	2	233527579	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1553918	233527579	9671794	766	77931											
GIGYF2	26058	broad.mit.edu	37	chr2	233620987	233620987	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcgattgacaggacgaGgaggaggaggaacagtggtg	11	6	18	6	2	0	1	0	1	0	0	1	8	1	6	1	6	2	0	1	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:233620987G>C	uc002vti.3	+	8	659	c.322G>C	c.(322-324)GGA>CGA	p.G108R	GIGYF2_uc010zmj.1_Missense_Mutation_p.G108R|GIGYF2_uc002vtg.2_Missense_Mutation_p.G108R|GIGYF2_uc002vtj.3_Missense_Mutation_p.G108R|GIGYF2_uc002vtk.3_Missense_Mutation_p.G108R|GIGYF2_uc002vth.3_Missense_Mutation_p.G108R|GIGYF2_uc010zmk.1_RNA	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	108	Poly-Gly.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		GACAGGACGAGGAGGAGGAGG	0.398													9	63					0	0	1	0	0		C	233620987	C	C	233620987	3	2	151	1	0	0	0	0	1	0	0	0	6393	1001	35	5	336	5	GIGYF2	2	233620987	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	93408	233620987	9578386	767	77932											
NEU2	4759	broad.mit.edu	37	chr2	233897415	233897415	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcctgcagaaggagagcGtgttccagtcgggagcccat	8	8	14	11	2	0	2	0	0	0	2	3	4	2	3	3	2	3	2	3	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:233897415G>A	uc010zmn.1	+	1	34	c.34G>A	c.(34-36)GTG>ATG	p.V12M		NM_005383	NP_005374	Q9Y3R4	NEUR2_HUMAN	neuraminidase 2	12							exo-alpha-sialidase activity				0		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0271)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0839)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0488)		GAAGGAGAGCGTGTTCCAGTC	0.622													23	124					0	0	1	0	0		A	233897415	A	A	233897415	3	1	151	1	0	0	0	0	1	0	0	0	10361	1145	40	1	36	1	NEU2	2	233897415	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	276428	233897415	9301958	768	77933											
AGAP1	116987	broad.mit.edu	37	chr2	236649676	236649676	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgatcagagatgaaggggGccccccggaggcgcaggtga	9	4	18	10	2	1	4	1	3	0	1	1	6	1	5	3	5	0	2	3	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:236649676G>C	uc002vvs.2	+	4	975	c.380G>C	c.(379-381)GGC>GCC	p.G127A	AGAP1_uc002vvt.2_Missense_Mutation_p.G127A	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	127	Small GTPase-like.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						GATGAAGGGGGCCCCCCGGAG	0.488													10	46					0	0	1	0	0		C	236649676	C	C	236649676	3	2	151	1	0	0	0	0	1	0	0	0	366	1203	42	5	394	5	AGAP1	2	236649676	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2752261	236649676	6549697	769	77934											
COL6A3	1293	broad.mit.edu	37	chr2	238257297	238257297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgccaactccgtctctccCgtcatctccctaagagtggg	7	10	8	16	2	3	1	1	0	2	1	7	1	5	1	4	1	2	0	4	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:238257297C>T	uc002vwl.2	-	29	7174	c.6889G>A	c.(6889-6891)GGG>AGG	p.G2297R	COL6A3_uc002vwo.2_Missense_Mutation_p.G2091R|COL6A3_uc010znj.1_Missense_Mutation_p.G1690R|COL6A3_uc002vwp.1_Missense_Mutation_p.G118R	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2297	Triple-helical region.|Collagen-like 4.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CCGTCTCTCCCGTCATCTCCC	0.562													8	45					0	0	1	0	0		T	238257297	T	T	238257297	3	4	151	1	0	0	0	0	1	0	0	0	3704	652	23	1	2708	1	COL6A3	2	238257297	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1607621	238257297	4942076	770	77935											
COL6A3	1293	broad.mit.edu	37	chr2	238287506	238287506	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagcttgcaaataggagTcctcagactgcccagctgtg	9	9	12	11	0	1	1	1	0	0	1	2	2	2	2	2	2	4	4	2	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:238287506T>A	uc002vwl.2	-	6	2555	c.2270A>T	c.(2269-2271)GAC>GTC	p.D757V	COL6A3_uc002vwo.2_Missense_Mutation_p.D551V|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwq.2_Missense_Mutation_p.D551V|COL6A3_uc002vwr.2_Missense_Mutation_p.D350V|COL6A3_uc010znk.1_Intron	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	757	VWFA 4.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CAAATAGGAGTCCTCAGACTG	0.572													10	42					0	0	1	0	0		A	238287506	A	A	238287506	3	1	151	1	0	0	0	0	1	0	0	0	3704	1667	58	5	7466	5	COL6A3	2	238287506	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	30209	238287506	4911867	771	77936											
COL6A3	1293	broad.mit.edu	37	chr2	238303834	238303834	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatattatatcagcagccgcAccatttttgacatctttaaa	14	14	4	9	1	2	1	1	1	1	0	2	1	2	1	2	0	2	2	2	0	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:238303834A>G	uc002vwl.2	-	3	390	c.105T>C	c.(103-105)GGT>GGC	p.G35G	COL6A3_uc002vwo.2_Intron|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwq.2_Intron|COL6A3_uc002vwr.2_Intron|COL6A3_uc010znk.1_Silent_p.G35G	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	35	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CAGCAGCCGCACCATTTTTGA	0.338													10	41					0	0	1	0	0		G	238303834	G	G	238303834	2	3	151	1	0	0	0	0	0	0	0	1	3704	146	6	3		3	COL6A3	2	238303834	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	16328	238303834	4895539	772	77937											
RBM44	375316	broad.mit.edu	37	chr2	238725821	238725821	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttcagtgagtcaagatActaacacagagagtactcag	14	12	8	7	0	3	3	3	1	0	2	3	4	3	3	0	0	3	1	0	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:238725821A>G	uc002vxi.3	+	3	394	c.262A>G	c.(262-264)ACT>GCT	p.T88A		NM_001080504	NP_001073973	Q6ZP01	RBM44_HUMAN	RNA binding motif protein 44	87							nucleotide binding|RNA binding			ovary(4)	4		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;3.74e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.3e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000118)|Lung(119;0.0112)|LUSC - Lung squamous cell carcinoma(224;0.0266)		GAGTCAAGATACTAACACAGA	0.328													17	78					0	0	1	0	0		G	238725821	G	G	238725821	3	3	151	1	0	0	0	0	1	0	0	0	13163	391	14	3	268	3	RBM44	2	238725821	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	421987	238725821	4473552	773	77938											
UBE2F	140739	broad.mit.edu	37	chr2	238925217	238925217	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttgatagatgagggttActaccagggtggaaaatttc	11	15	11	4	0	0	3	0	2	0	1	1	4	0	4	1	3	2	1	1	3	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:238925217A>G	uc002vxk.2	+	5	315	c.224A>G	c.(223-225)TAC>TGC	p.Y75C	UBE2F_uc010znn.1_Missense_Mutation_p.Y43C|UBE2F_uc002vxl.2_RNA|UBE2F_uc010zno.1_Intron|UBE2F_uc010znp.1_Missense_Mutation_p.Y75C|SCLY_uc002vxm.3_Intron	NM_080678	NP_542409	Q969M7	UBE2F_HUMAN	NEDD8-conjugating enzyme	75					protein neddylation		ATP binding|NEDD8 ligase activity|protein binding				0		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;6.7e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|Kidney(56;3.53e-09)|KIRC - Kidney renal clear cell carcinoma(57;9.79e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000136)|Lung(119;0.0126)|LUSC - Lung squamous cell carcinoma(224;0.0301)		GATGAGGGTTACTACCAGGGT	0.373													47	162					0	0	1	0	0		G	238925217	G	G	238925217	3	3	151	1	0	0	0	0	1	0	0	0	16881	391	14	3	238	3	UBE2F	2	238925217	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	199396	238925217	4274156	774	77939											
SCLY	51540	broad.mit.edu	37	chr2	238990408	238990408	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagaggtggacgacatcctCgcggcagtccgcccgaccac	8	4	13	16	5	0	1	0	0	0	1	3	4	2	2	4	3	0	2	4	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:238990408C>T	uc010fyv.2	+	5	607	c.543C>T	c.(541-543)CTC>CTT	p.L181L	SCLY_uc002vxm.3_Silent_p.L148L|SCLY_uc002vxn.2_Silent_p.L181L|SCLY_uc010znq.1_Intron|SCLY_uc010znr.1_Silent_p.L87L	NM_016510	NP_057594	Q96I15	SCLY_HUMAN	selenocysteine lyase	181					cellular amino acid metabolic process	cytosol	pyridoxal phosphate binding|selenocysteine lyase activity|transferase activity			ovary(2)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;1.37e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.6e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;8.25e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000128)|Lung(119;0.0118)|LUSC - Lung squamous cell carcinoma(224;0.0285)		ACGACATCCTCGCGGCAGTCC	0.562													5	78					0	0	1	0	0		T	238990408	T	T	238990408	2	4	151	1	0	0	0	0	0	0	0	1	13932	871	31	1		1	SCLY	2	238990408	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	65191	238990408	4208965	775	77940											
PER2	8864	broad.mit.edu	37	chr2	239181712	239181712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttgcggaaagaggcttacgGcattcttcacaatgtgctca	10	12	10	9	2	3	1	2	0	1	1	3	2	3	2	0	3	3	3	0	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:239181712G>A	uc002vyc.2	-	5	806	c.569C>T	c.(568-570)GCC>GTC	p.A190V	PER2_uc010znv.1_Missense_Mutation_p.A190V|PER2_uc010znw.1_Missense_Mutation_p.A190V|PER2_uc010fyx.1_Missense_Mutation_p.A190V	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	190	PAS 1.				circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		GAGGCTTACGGCATTCTTCAC	0.572													11	57					0	0	1	0	0		A	239181712	A	A	239181712	3	1	151	1	0	0	0	0	1	0	0	0	11749	1217	42	2	3274	2	PER2	2	239181712	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	191304	239181712	4017661	776	77941											
GPC1	2817	broad.mit.edu	37	chr2	241404053	241404053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actccatggtgctcatcaccGacaagttctggggtacatcg	9	10	10	12	2	3	0	2	0	1	0	5	1	4	0	2	3	2	3	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:241404053G>A	uc002vyw.3	+	5	1125	c.904G>A	c.(904-906)GAC>AAC	p.D302N		NM_002081	NP_002072	P35052	GPC1_HUMAN	glypican 1 precursor	302					axon guidance	anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			breast(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;4.51e-33)|all cancers(36;1.74e-30)|OV - Ovarian serous cystadenocarcinoma(60;4.73e-15)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;9.1e-06)|Colorectal(34;0.000487)|Lung(119;0.0013)|LUSC - Lung squamous cell carcinoma(224;0.0154)|COAD - Colon adenocarcinoma(134;0.0194)|READ - Rectum adenocarcinoma(96;0.0949)		GCTCATCACCGACAAGTTCTG	0.617													10	46					0	0	1	0	0		A	241404053	A	A	241404053	3	1	151	1	0	0	0	0	1	0	0	0	6612	1058	37	1	922	1	GPC1	2	241404053	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2222341	241404053	1795320	777	77942											
ANKMY1	51281	broad.mit.edu	37	chr2	241465157	241465157	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgaaggactgggcggggTagtggaggaggaaacacatg	11	6	19	5	1	0	1	0	1	0	0	0	5	0	5	0	7	1	2	0	7	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:241465157T>C	uc002vyz.1	-	6	1242	c.1013A>G	c.(1012-1014)TAC>TGC	p.Y338C	ANKMY1_uc002vza.1_Missense_Mutation_p.Y197C|ANKMY1_uc010fzd.1_Missense_Mutation_p.Y427C|ANKMY1_uc002vzb.1_Missense_Mutation_p.Y197C|ANKMY1_uc002vzc.1_Missense_Mutation_p.Y197C|ANKMY1_uc002vzd.1_Missense_Mutation_p.Y197C|ANKMY1_uc010fze.1_Missense_Mutation_p.Y7C|ANKMY1_uc002vze.2_Missense_Mutation_p.Y99C	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	338							zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		CTGGGCGGGGTAGTGGAGGAG	0.582													11	39					0	0	1	0	0		C	241465157	C	C	241465157	3	2	151	1	0	0	0	0	1	0	0	0	634	1638	57	3	1860	3	ANKMY1	2	241465157	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	61104	241465157	1734216	778	77943											
HDLBP	3069	broad.mit.edu	37	chr2	242181959	242181959	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataacaacggtgtcgcttccTgaaccttccacgggaaagtg	11	9	10	11	3	0	1	0	1	0	0	3	2	2	2	3	2	3	1	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:242181959T>C	uc002waz.2	-	17	2313	c.2085A>G	c.(2083-2085)TCA>TCG	p.S695S	HDLBP_uc002wba.2_Silent_p.S695S|HDLBP_uc002wbb.2_Silent_p.S647S	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	695	KH 8.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		TGTCGCTTCCTGAACCTTCCA	0.602													11	37					0	0	1	0	0		C	242181959	C	C	242181959	2	2	151	1	0	0	0	0	0	0	0	1	7041	1567	55	3		3	HDLBP	2	242181959	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	716802	242181959	1017414	779	77944											
FARP2	9855	broad.mit.edu	37	chr2	242432345	242432345	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttttcctttattgacagaAccagctttcaggatatctgc	10	16	6	9	0	2	2	1	1	1	1	3	3	3	3	2	1	3	1	2	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:242432345A>G	uc002wbi.1	+	25	2906	c.2789A>G	c.(2788-2790)AAC>AGC	p.N930S		NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	930	PH 2.				axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		TATTGACAGAACCAGCTTTCA	0.463													34	113					0	0	1	0	0		G	242432345	G	G	242432345	3	3	151	1	0	0	0	0	1	0	0	0	5691	57	2	3	2883	3	FARP2	2	242432345	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	250386	242432345	767028	780	77945											
ING5	84289	broad.mit.edu	37	chr2	242644110	242644110	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcagaggaacttccagcTgatgcgagagctggaccaga	12	7	12	10	1	1	4	1	1	0	3	2	7	2	6	2	2	4	2	2	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:242644110T>A	uc002wcd.2	+	2	105	c.80T>A	c.(79-81)CTG>CAG	p.L27Q	ING5_uc002wcc.1_Missense_Mutation_p.L27Q	NM_032329	NP_115705	Q8WYH8	ING5_HUMAN	inhibitor of growth family, member 5	27					DNA replication|histone H3 acetylation|negative regulation of cell proliferation|negative regulation of growth|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;2.16e-33)|all cancers(36;4.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.6e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.65e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0839)		AACTTCCAGCTGATGCGAGAG	0.522													41	137					0	0	1	0	0		A	242644110	A	A	242644110	3	1	151	1	0	0	0	0	1	0	0	0	7755	1580	55	5	86	5	ING5	2	242644110	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	211765	242644110	555263	781	77946											
ING5	84289	broad.mit.edu	37	chr2	242662478	242662478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atggggagatgattggctgtGacaatccagacgtgagtgtc	10	10	15	6	1	0	5	0	3	0	2	2	6	1	5	1	3	0	1	1	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr2:242662478G>A	uc002wcd.2	+	6	632	c.607G>A	c.(607-609)GAC>AAC	p.D203N		NM_032329	NP_115705	Q8WYH8	ING5_HUMAN	inhibitor of growth family, member 5	203	PHD-type.				DNA replication|histone H3 acetylation|negative regulation of cell proliferation|negative regulation of growth|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;2.16e-33)|all cancers(36;4.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.6e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.65e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0839)		GATTGGCTGTGACAATCCAGA	0.592													24	65					0	0	1	0	0		A	242662478	A	A	242662478	3	1	151	1	0	0	0	0	1	0	0	0	7755	1290	45	4	629	4	ING5	2	242662478	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	18368	242662478	536895	782	77947											
CHL1	10752	broad.mit.edu	37	chr3	431057	431057	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacattgcgggtgatgacGcctgctgtctatgcccctta	7	11	10	13	2	1	2	0	2	1	0	1	2	1	2	3	1	3	1	3	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:431057G>A	uc003bou.2	+	19	2593	c.2322G>A	c.(2320-2322)ACG>ACA	p.T774T	CHL1_uc003bot.2_Silent_p.T790T|CHL1_uc003bow.1_Silent_p.T774T|CHL1_uc011asi.1_Silent_p.T790T	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	774	Fibronectin type-III 2.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		GGGTGATGACGCCTGCTGTCT	0.438													18	66					0	0	1	0	0		A	431057	A	A	431057	2	1	151	1	0	0	0	0	0	0	0	1	3352	1074	38	1		1	CHL1	3	431057	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08		431057	197591373	783	77948											
CNTN6	27255	broad.mit.edu	37	chr3	1414032	1414032	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatggatgttacagttggCgagagtatagtgctaccatg	13	11	12	5	1	0	1	0	0	0	1	0	3	0	2	1	2	3	4	1	2	6	5	rs138661122		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:1414032C>T	uc003boz.2	+	13	1809	c.1542C>T	c.(1540-1542)GGC>GGT	p.G514G	CNTN6_uc011asj.1_Silent_p.G442G|CNTN6_uc003bpa.2_Silent_p.G514G	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	514	Ig-like C2-type 6.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TTACAGTTGGCGAGAGTATAG	0.393													24	123					0	0	1	0	0		T	1414032	T	T	1414032	2	4	151	1	0	0	0	0	0	0	0	1	3648	755	27	1		1	CNTN6	3	1414032	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	982975	1414032	196608398	784	77949											
LRRN1	57633	broad.mit.edu	37	chr3	3886572	3886572	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttctcttacagagcaatAacatcgcaaagactgtggat	13	11	8	9	1	1	2	0	0	1	2	3	3	1	3	0	1	4	3	0	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:3886572A>G	uc003bpt.3	+	2	1008	c.247A>G	c.(247-249)AAC>GAC	p.N83D	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	83	Extracellular (Potential).|LRR 1.					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		ACAGAGCAATAACATCGCAAA	0.448													33	109					0	0	1	0	0		G	3886572	G	G	3886572	3	3	151	1	0	0	0	0	1	0	0	0	9052	362	13	3	249	3	LRRN1	3	3886572	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2472540	3886572	194135858	785	77950											
C3orf32	51066	broad.mit.edu	37	chr3	8671348	8671348	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggttcacagatgactcAccgtgcccgccccgtggcag	7	7	12	15	3	2	2	2	1	0	1	2	2	2	2	4	2	1	2	4	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:8671348A>G	uc003bqu.2	-	7	768	c.522_splice	c.e7+1	p.T174_splice	C3orf32_uc003bqz.2_Splice_Site_p.T174_splice|C3orf32_uc003bqt.2_Splice_Site_p.T123_splice|C3orf32_uc011atg.1_Splice_Site_p.T196_splice|C3orf32_uc003bqv.2_Splice_Site_p.T123_splice|C3orf32_uc003bqw.2_Splice_Site|C3orf32_uc003bqx.2_Splice_Site|C3orf32_uc003bqy.2_Splice_Site_p.T174_splice	NM_015931	NP_057015	Q9Y2M2	CC032_HUMAN	hypothetical protein LOC51066											skin(1)	1						CAGATGACTCACCGTGCCCGC	0.358													5	40					0	0	1	0	0		G	8671348	G	G	8671348	5	3	151	1	0	0	0	0	0	0	1	0	2225	173	6	3	561	3	C3orf32	3	8671348	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4784776	8671348	189351082	786	77951											
THUMPD3	25917	broad.mit.edu	37	chr3	9413199	9413199	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttaagtggaaggccgaCatgaccaactttgatgtgga	12	12	11	6	1	0	2	0	2	0	0	0	5	0	4	2	3	1	0	2	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:9413199C>T	uc003bro.3	+	4	934	c.786C>T	c.(784-786)GAC>GAT	p.D262D	LOC440944_uc003brm.2_Intron|THUMPD3_uc003brn.3_Silent_p.D262D	NM_001114092	NP_001107564	Q9BV44	THUM3_HUMAN	THUMP domain containing 3	262	THUMP.						methyltransferase activity|protein binding|RNA binding			ovary(1)	1	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.101)		GGAAGGCCGACATGACCAACT	0.433													49	238					0	0	1	0	0		T	9413199	T	T	9413199	2	4	151	1	0	0	0	0	0	0	0	1	15909	477	17	4		4	THUMPD3	3	9413199	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	741851	9413199	188609231	787	77952											
SETD5	55209	broad.mit.edu	37	chr3	9488951	9488951	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccatcccaagcaccccacAgagtgttggtgtgaataccc	11	8	8	14	0	0	2	0	1	0	1	1	2	1	2	5	1	3	2	5	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:9488951A>C	uc003brt.2	+	14	2177	c.1742A>C	c.(1741-1743)CAG>CCG	p.Q581P	SETD5_uc003brs.1_Missense_Mutation_p.Q562P|SETD5_uc003bru.2_Missense_Mutation_p.Q483P|SETD5_uc003brv.2_Missense_Mutation_p.Q470P|SETD5_uc010hck.2_Missense_Mutation_p.Q63P|SETD5_uc003brx.2_Missense_Mutation_p.Q250P	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	581										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		AGCACCCCACAGAGTGTTGGT	0.463													52	232					0	0	1	0	0		C	9488951	C	C	9488951	3	2	151	1	0	0	0	0	1	0	0	0	14159	188	7	5	1788	5	SETD5	3	9488951	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	75752	9488951	188533479	788	77953											
CPNE9	151835	broad.mit.edu	37	chr3	9768398	9768398	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcggtgtaggaccagccaTgtttgagggtgagtaggaag	9	9	17	6	2	0	2	0	2	0	0	1	4	0	4	2	4	1	3	2	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:9768398T>C	uc003bsd.2	+	18	1565	c.1394T>C	c.(1393-1395)ATG>ACG	p.M465T		NM_153635	NP_705899	Q8IYJ1	CPNE9_HUMAN	copine-like protein	465	VWFA.									ovary(2)	2	Medulloblastoma(99;0.227)					GGACCAGCCATGTTTGAGGGT	0.552													18	65					0	0	1	0	0		C	9768398	C	C	9768398	3	2	151	1	0	0	0	0	1	0	0	0	3822	1464	51	3	1464	3	CPNE9	3	9768398	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	279447	9768398	188254032	789	77954											
BRPF1	7862	broad.mit.edu	37	chr3	9775910	9775910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcccggtggagacctgccGaaaggtctacaagagttaca	11	7	13	10	2	1	2	0	0	1	2	1	4	1	2	3	3	4	1	3	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:9775910G>A	uc003bse.2	+	2	485	c.86G>A	c.(85-87)CGA>CAA	p.R29Q	BRPF1_uc003bsf.2_Missense_Mutation_p.R29Q|BRPF1_uc003bsg.2_Missense_Mutation_p.R29Q|BRPF1_uc011ati.1_Missense_Mutation_p.R29Q	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	29	C2H2-type.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					GAGACCTGCCGAAAGGTCTAC	0.532													22	72					0	0	1	0	0		A	9775910	A	A	9775910	3	1	151	1	0	0	0	0	1	0	0	0	1523	1058	37	1	88	1	BRPF1	3	9775910	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	7512	9775910	188246520	790	77955											
OGG1	4968	broad.mit.edu	37	chr3	9792665	9792665	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcacactggagtggtgtActagcggatcaagtatggac	10	9	13	9	1	1	0	1	0	0	0	1	3	1	3	1	4	3	3	1	4	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:9792665A>G	uc003bsi.2	+	2	517	c.174A>G	c.(172-174)GTA>GTG	p.V58V	OGG1_uc003bsh.2_Silent_p.V58V|OGG1_uc003bsj.2_Silent_p.V58V|OGG1_uc003bsk.2_Silent_p.V58V|OGG1_uc003bsl.2_Silent_p.V58V|OGG1_uc003bsm.2_Silent_p.V58V|OGG1_uc003bsn.2_Silent_p.V58V|OGG1_uc003bso.2_Silent_p.V58V|OGG1_uc003bsp.1_5'Flank|OGG1_uc010hcm.1_5'Flank|OGG1_uc003bsq.1_5'Flank|OGG1_uc003bsr.1_5'Flank	NM_002542	NP_002533	O15527	OGG1_HUMAN	8-oxoguanine DNA-glycosylase 1 isoform 1a	58					depurination|nucleotide-excision repair|regulation of protein import into nucleus, translocation|regulation of transcription, DNA-dependent|response to oxidative stress|response to radiation	mitochondrion|nuclear matrix|nuclear speck	damaged DNA binding|endonuclease activity|oxidized purine base lesion DNA N-glycosylase activity|protein binding				0	Medulloblastoma(99;0.227)					GGAGTGGTGTACTAGCGGATC	0.567								BER_DNA_glycosylases					9	40					0	0	1	0	0		G	9792665	G	G	9792665	2	3	151	1	0	0	0	0	0	0	0	1	10864	378	14	3		3	OGG1	3	9792665	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	16755	9792665	188229765	791	77956											
ARPC4	10093	broad.mit.edu	37	chr3	9841903	9841903	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgttacaacctgtgaccAtcagcaggaatgagaaggaa	14	8	10	9	0	1	2	1	2	0	1	2	5	2	4	3	2	3	2	3	2	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:9841903A>G	uc003bsz.1	+	3	736	c.157A>G	c.(157-159)ATC>GTC	p.I53V	ARPC4_uc003bta.1_5'UTR|ARPC4_uc003btb.1_5'UTR|ARPC4_uc003btc.1_5'UTR|TTLL3_uc003btd.3_5'UTR	NM_005718	NP_005709	P59998	ARPC4_HUMAN	actin related protein 2/3 complex subunit 4	53					actin filament polymerization|actin nucleation	Arp2/3 protein complex|cell projection|cytoplasm	actin binding				0	Medulloblastoma(99;0.227)					ACCTGTGACCATCAGCAGGAA	0.483													10	43					0	0	1	0	0		G	9841903	G	G	9841903	3	3	151	1	0	0	0	0	1	0	0	0	974	217	8	3	167	3	ARPC4	3	9841903	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	49238	9841903	188180527	792	77957											
CRELD1	78987	broad.mit.edu	37	chr3	9982597	9982597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtgaaggagaagggacacGagggggcagcgggcactgtg	10	4	21	6	2	0	2	0	1	0	1	0	5	0	3	0	5	1	2	0	5	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:9982597G>A	uc003bug.2	+	6	642	c.524G>A	c.(523-525)CGA>CAA	p.R175Q	CIDEC_uc003bto.2_Intron|CRELD1_uc003buf.2_Missense_Mutation_p.R175Q|CRELD1_uc003buh.2_Missense_Mutation_p.R175Q|CRELD1_uc003bui.2_Missense_Mutation_p.R175Q|CRELD1_uc003buj.2_RNA	NM_001077415	NP_001070883	Q96HD1	CREL1_HUMAN	cysteine-rich with EGF-like domains 1 isoform 3	175	Extracellular (Potential).|EGF-like 1.				cardiac septum development|endocardial cushion development	integral to membrane	calcium ion binding			ovary(1)	1						GAAGGGACACGAGGGGGCAGC	0.627													13	37					0	0	1	0	0		A	9982597	A	A	9982597	3	1	151	1	0	0	0	0	1	0	0	0	3869	1058	37	1	542	1	CRELD1	3	9982597	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	140694	9982597	188039833	793	77958											
FANCD2	2177	broad.mit.edu	37	chr3	10076903	10076903	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcaaactgcttctggggAttgacatactgcaggtaaga	12	11	10	8	0	3	2	2	1	1	1	3	3	3	3	0	3	4	3	0	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:10076903A>T	uc003buw.2	+	6	502	c.424A>T	c.(424-426)ATT>TTT	p.I142F	FANCD2_uc003bux.1_Missense_Mutation_p.I142F|FANCD2_uc003buy.1_Missense_Mutation_p.I142F|FANCD2_uc003buv.2_Missense_Mutation_p.I142F	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	142	Interaction with FANCE.				DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		GCTTCTGGGGATTGACATACT	0.378			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				4	149					0	0	1	0	0		T	10076903	T	T	10076903	3	4	151	1	0	0	0	0	1	0	0	0	5679	333	12	5	442	5	FANCD2	3	10076903	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	94306	10076903	187945527	794	77959											
IRAK2	3656	broad.mit.edu	37	chr3	10264468	10264468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgccagaggatttcatcCgggtggggcagctgacaaag	10	8	14	9	1	2	2	1	1	1	1	3	3	3	3	2	4	2	2	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:10264468C>T	uc003bve.1	+	9	1238	c.1162C>T	c.(1162-1164)CGG>TGG	p.R388W		NM_001570	NP_001561	O43187	IRAK2_HUMAN	interleukin-1 receptor-associated kinase 2	388	Protein kinase.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|endosome membrane|plasma membrane	ATP binding|NF-kappaB-inducing kinase activity|protein heterodimerization activity|protein homodimerization activity			lung(5)|breast(3)	8						GGATTTCATCCGGGTGGGGCA	0.527													35	111					0	0	1	0	0		T	10264468	T	T	10264468	3	4	151	1	0	0	0	0	1	0	0	0	7839	643	23	1	1196	1	IRAK2	3	10264468	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	187565	10264468	187757962	795	77960											
SLC6A11	6538	broad.mit.edu	37	chr3	10916650	10916650	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcctcttgtgcacaggttgTatacgtgactgcgacattcc	7	13	9	12	2	1	1	0	1	1	0	3	2	3	1	2	1	3	3	2	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:10916650T>C	uc003bvz.2	+	6	795	c.761T>C	c.(760-762)GTA>GCA	p.V254A		NM_014229	NP_055044	P48066	S6A11_HUMAN	solute carrier family 6 (neurotransmitter	254	Helical; Name=5; (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.229)		GCACAGGTTGTATACGTGACT	0.408													55	233					0	0	1	0	0		C	10916650	C	C	10916650	3	2	151	1	0	0	0	0	1	0	0	0	14699	1638	57	3	783	3	SLC6A11	3	10916650	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	652182	10916650	187105780	796	77961											
SLC6A1	6529	broad.mit.edu	37	chr3	11078588	11078588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagcgaagacatcgttcGcccagagaatggtcctgagc	10	6	12	13	3	0	3	0	1	0	2	3	5	1	3	3	1	2	1	3	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:11078588G>A	uc010hdq.2	+	16	2147	c.1736G>A	c.(1735-1737)CGC>CAC	p.R579H		NM_003042	NP_003033	P30531	SC6A1_HUMAN	solute carrier family 6 (neurotransmitter	579	Cytoplasmic (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)|skin(1)	2		Ovarian(110;0.0392)		OV - Ovarian serous cystadenocarcinoma(96;0.00099)	Cocaine(DB00907)|Tiagabine(DB00906)	GACATCGTTCGCCCAGAGAAT	0.637													13	59					0	0	1	0	0		A	11078588	A	A	11078588	3	1	151	1	0	0	0	0	1	0	0	0	14698	1087	38	1	1790	1	SLC6A1	3	11078588	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	161938	11078588	186943842	797	77962											
SYN2	6854	broad.mit.edu	37	chr3	12208796	12208796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcgatgctggagcagattgCcatgtcagacaggtgagttg	9	10	15	7	1	1	3	1	1	0	2	1	5	1	4	1	2	4	3	1	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:12208796C>T	uc003bwm.2	+	12	1207	c.1043C>T	c.(1042-1044)GCC>GTC	p.A348V	SYN2_uc003bwl.1_Missense_Mutation_p.A348V|SYN2_uc003bwn.2_Missense_Mutation_p.A22V	NM_133625	NP_598328	Q92777	SYN2_HUMAN	synapsin II isoform IIa	348					neurotransmitter secretion	synaptic vesicle	ATP binding|ligase activity			ovary(1)|central_nervous_system(1)	2						GAGCAGATTGCCATGTCAGAC	0.512													4	19					0	0	1	0	0		T	12208796	T	T	12208796	3	4	151	1	0	0	0	0	1	0	0	0	15466	739	26	2	1074	2	SYN2	3	12208796	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1130208	12208796	185813634	798	77963											
NUP210	23225	broad.mit.edu	37	chr3	13372109	13372109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgggtccatccaggacgcGgtagctcagagaggctgcac	8	7	14	12	3	1	1	1	0	0	1	4	3	3	2	2	4	2	4	2	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:13372109G>A	uc003bxv.1	-	30	4044	c.3961C>T	c.(3961-3963)CGC>TGC	p.R1321C		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1321	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					TCCAGGACGCGGTAGCTCAGA	0.507													33	94					0	0	1	0	0		A	13372109	A	A	13372109	3	1	151	1	0	0	0	0	1	0	0	0	10779	1116	39	1	1746	1	NUP210	3	13372109	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1163313	13372109	184650321	799	77964											
FBLN2	2199	broad.mit.edu	37	chr3	13670760	13670760	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgactgcaaagccggctTtcagcgggatgcctttggcc	6	10	13	12	2	1	1	1	1	0	0	1	2	1	2	3	3	4	2	3	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:13670760T>C	uc011avb.1	+	12	2794	c.2669T>C	c.(2668-2670)TTT>TCT	p.F890S	FBLN2_uc011auz.1_Missense_Mutation_p.F916S|FBLN2_uc011ava.1_Missense_Mutation_p.F937S|FBLN2_uc011avc.1_Missense_Mutation_p.F937S	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	890	EGF-like 6; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			AAAGCCGGCTTTCAGCGGGAT	0.642													7	19					0	0	1	0	0		C	13670760	C	C	13670760	3	2	151	1	0	0	0	0	1	0	0	0	5713	1841	64	3	1546	3	FBLN2	3	13670760	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	298651	13670760	184351670	800	77965											
WNT7A	7476	broad.mit.edu	37	chr3	13896052	13896052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggcctgcctcgttgttgtGcaagttcatgagagtccggg	5	12	14	10	3	1	1	1	1	0	1	4	2	2	1	3	2	2	4	3	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:13896052G>A	uc003bye.1	-	3	852	c.547C>T	c.(547-549)CAC>TAC	p.H183Y		NM_004625	NP_004616	O00755	WNT7A_HUMAN	wingless-type MMTV integration site family,	183					activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3						TCGTTGTTGTGCAAGTTCATG	0.507													52	268					0	0	1	0	0		A	13896052	A	A	13896052	3	1	151	1	0	0	0	0	1	0	0	0	17420	1319	46	2	510	2	WNT7A	3	13896052	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	225292	13896052	184126378	801	77966											
XPC	7508	broad.mit.edu	37	chr3	14199626	14199626	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgtcatccagactgggTcgtacctctgtgtgacatct	7	13	9	12	1	4	2	2	1	2	1	6	2	5	2	2	1	1	1	2	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:14199626T>C	uc011ave.1	-	9	1861	c.1757A>G	c.(1756-1758)GAC>GGC	p.D586G	XPC_uc011avf.1_Missense_Mutation_p.D393G|XPC_uc011avg.1_Missense_Mutation_p.D549G	NM_004628	NP_004619	Q01831	XPC_HUMAN	xeroderma pigmentosum, complementation group C	586	Interaction with RAD23B.				nucleotide-excision repair, DNA damage recognition|nucleotide-excision repair, DNA damage removal	cytoplasm|nucleoplasm|XPC complex	bubble DNA binding|damaged DNA binding|loop DNA binding|protein binding|single-stranded DNA binding			ovary(2)|breast(1)	3						CCAGACTGGGTCGTACCTCTG	0.577			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		NER	Xeroderma_Pigmentosum				6	152					0	0	1	0	0		C	14199626	C	C	14199626	3	2	151	1	0	0	0	0	1	0	0	0	17467	1667	58	3		3	XPC	3	14199626	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	303574	14199626	183822804	802	77967											
C3orf20	84077	broad.mit.edu	37	chr3	14768513	14768513	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgactcagttcattaatTctatcttgctggccgcaggt	8	14	9	10	1	4	1	2	1	2	0	4	1	4	1	1	2	1	3	1	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:14768513T>C	uc003byy.2	+	11	2076	c.1672T>C	c.(1672-1674)TCT>CCT	p.S558P	C3orf20_uc003byz.2_Missense_Mutation_p.S436P|C3orf20_uc003bza.2_Missense_Mutation_p.S436P|C3orf20_uc003bzb.1_Missense_Mutation_p.S59P	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	558						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						GTTCATTAATTCTATCTTGCT	0.522													31	102					0	0	1	0	0		C	14768513	C	C	14768513	3	2	151	1	0	0	0	0	1	0	0	0	2216	1783	62	3	1706	3	C3orf20	3	14768513	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	568887	14768513	183253917	803	77968											
MRPS25	64432	broad.mit.edu	37	chr3	15094962	15094962	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccacatccaccaggaccTgctccccagaatctggaaac	11	7	6	17	0	2	1	0	0	2	1	5	3	4	3	6	2	2	1	6	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:15094962T>C	uc003bzl.2	-	3	369	c.254A>G	c.(253-255)CAG>CGG	p.Q85R	MRPS25_uc011avl.1_Intron|MRPS25_uc011avm.1_Missense_Mutation_p.Q85R	NM_022497	NP_071942	P82663	RT25_HUMAN	mitochondrial ribosomal protein S25	85					translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0						CACCAGGACCTGCTCCCCAGA	0.468													15	54					0	0	1	0	0		C	15094962	C	C	15094962	3	2	151	1	0	0	0	0	1	0	0	0	9854	1580	55	3	275	3	MRPS25	3	15094962	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	326449	15094962	182927468	804	77969											
ZFYVE20	64145	broad.mit.edu	37	chr3	15116352	15116352	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaagggggcagggcccctgCggagagatgccacctccccg	7	4	15	15	2	1	1	1	0	0	1	2	3	2	2	6	4	2	1	6	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:15116352C>T	uc003bzm.1	-	14	1906	c.1292G>A	c.(1291-1293)CGC>CAC	p.R431H	ZFYVE20_uc010hek.1_Missense_Mutation_p.R431H	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	431	Necessary for the interaction with RAB4A.|Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						AGGGCCCCTGCGGAGAGATGC	0.657													14	65					0	0	1	0	0		T	15116352	T	T	15116352	3	4	151	1	0	0	0	0	1	0	0	0	17691	768	27	1	1066	1	ZFYVE20	3	15116352	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	21390	15116352	182906078	805	77970											
ZFYVE20	64145	broad.mit.edu	37	chr3	15131914	15131914	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattttcttaccaagctccTggggttcccacatgtaagga	10	12	9	10	0	1	0	0	0	1	0	3	2	3	1	3	3	2	3	3	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:15131914T>C	uc003bzm.1	-	5	895	c.281A>G	c.(280-282)CAG>CGG	p.Q94R	ZFYVE20_uc010hek.1_Missense_Mutation_p.Q94R|ZFYVE20_uc011avn.1_Missense_Mutation_p.Q94R	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	94					blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						ACCAAGCTCCTGGGGTTCCCA	0.294													36	138					0	0	1	0	0		C	15131914	C	C	15131914	3	2	151	1	0	0	0	0	1	0	0	0	17691	1580	55	3	2113	3	ZFYVE20	3	15131914	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	15562	15131914	182890516	806	77971											
HACL1	26061	broad.mit.edu	37	chr3	15604967	15604967	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttttggagttcttctggTgtttgtacaaaatacccttt	8	19	8	6	0	2	0	0	0	2	0	2	2	2	1	1	2	2	3	1	2	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:15604967T>C	uc003caf.2	-	16	1762	c.1602A>G	c.(1600-1602)ACA>ACG	p.T534T	HACL1_uc011avr.1_RNA|HACL1_uc011avs.1_Silent_p.T507T|HACL1_uc011avt.1_Silent_p.T474T|HACL1_uc003cag.2_Silent_p.T178T|HACL1_uc011avu.1_Silent_p.T452T|HACL1_uc010hep.2_Silent_p.T293T	NM_012260	NP_036392	Q9UJ83	HACL1_HUMAN	2-hydroxyphytanoyl-CoA lyase	534					fatty acid alpha-oxidation	peroxisomal matrix	carbon-carbon lyase activity|identical protein binding|magnesium ion binding|thiamine pyrophosphate binding				0						GTTCTTCTGGTGTTTGTACAA	0.453													22	77					0	0	1	0	0		C	15604967	C	C	15604967	2	2	151	1	0	0	0	0	0	0	0	1	6957	1683	59	3		3	HACL1	3	15604967	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	473053	15604967	182417463	807	77972											
HACL1	26061	broad.mit.edu	37	chr3	15609957	15609957	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctgtgacgaggaaggtagTtctgaagcacagtccgtcca	11	8	12	10	2	1	2	0	2	1	0	3	4	3	3	3	2	1	3	3	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:15609957T>C	uc003caf.2	-	13	1392	c.1232A>G	c.(1231-1233)AAC>AGC	p.N411S	HACL1_uc011avr.1_RNA|HACL1_uc011avs.1_Missense_Mutation_p.N384S|HACL1_uc011avt.1_Missense_Mutation_p.N351S|HACL1_uc003cag.2_Missense_Mutation_p.N55S|HACL1_uc011avu.1_Missense_Mutation_p.N329S|HACL1_uc010hep.2_Missense_Mutation_p.N170S	NM_012260	NP_036392	Q9UJ83	HACL1_HUMAN	2-hydroxyphytanoyl-CoA lyase	411	Thiamine pyrophosphate binding.				fatty acid alpha-oxidation	peroxisomal matrix	carbon-carbon lyase activity|identical protein binding|magnesium ion binding|thiamine pyrophosphate binding				0						AGGAAGGTAGTTCTGAAGCAC	0.373													36	170					0	0	1	0	0		C	15609957	C	C	15609957	3	2	151	1	0	0	0	0	1	0	0	0	6957	1725	60	3	524	3	HACL1	3	15609957	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4990	15609957	182412473	808	77973											
HACL1	26061	broad.mit.edu	37	chr3	15610025	15610025	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accacgaaacagtctctaggTagttgttcttgaacatggta	12	12	9	8	1	2	1	0	1	2	0	3	2	2	1	1	2	2	4	1	2	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:15610025T>C	uc003caf.2	-	13	1324	c.1164A>G	c.(1162-1164)CTA>CTG	p.L388L	HACL1_uc011avr.1_RNA|HACL1_uc011avs.1_Silent_p.L361L|HACL1_uc011avt.1_Silent_p.L328L|HACL1_uc003cag.2_Silent_p.L32L|HACL1_uc011avu.1_Silent_p.L306L|HACL1_uc010hep.2_Silent_p.L147L	NM_012260	NP_036392	Q9UJ83	HACL1_HUMAN	2-hydroxyphytanoyl-CoA lyase	388					fatty acid alpha-oxidation	peroxisomal matrix	carbon-carbon lyase activity|identical protein binding|magnesium ion binding|thiamine pyrophosphate binding				0						AGTCTCTAGGTAGTTGTTCTT	0.378													37	201					0	0	1	0	0		C	15610025	C	C	15610025	2	2	151	1	0	0	0	0	0	0	0	1	6957	1625	57	3		3	HACL1	3	15610025	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	68	15610025	182412405	809	77974											
ANKRD28	23243	broad.mit.edu	37	chr3	15726863	15726863	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacaggcagcagacaggtgTataggcgtccggcccctgct	8	6	13	14	2	0	1	0	0	0	1	1	1	1	1	4	4	2	4	4	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:15726863T>C	uc003caj.1	-	21	2312	c.2169A>G	c.(2167-2169)ATA>ATG	p.I723M	ANKRD28_uc003cai.1_Missense_Mutation_p.I569M|ANKRD28_uc011avz.1_Missense_Mutation_p.I569M|ANKRD28_uc003cak.1_RNA|ANKRD28_uc011awa.1_RNA|ANKRD28_uc003cal.1_Missense_Mutation_p.I753M|ANKRD28_uc003cam.2_Missense_Mutation_p.I756M	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28	723	ANK 21.					nucleoplasm	protein binding			breast(1)	1						CAGACAGGTGTATAGGCGTCC	0.488													44	181					0	0	1	0	0		C	15726863	C	C	15726863	3	2	151	1	0	0	0	0	1	0	0	0	656	1628	57	3	1024	3	ANKRD28	3	15726863	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	116838	15726863	182295567	810	77975											
RFTN1	23180	broad.mit.edu	37	chr3	16358352	16358352	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactcagttttcttcaaccgTaccaagctctctgacttcct	8	14	5	14	1	4	1	2	1	2	0	6	2	5	1	3	0	3	3	3	0	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:16358352T>C	uc003cay.2	-	10	2002	c.1720A>G	c.(1720-1722)ACG>GCG	p.T574A	RFTN1_uc010hes.2_Missense_Mutation_p.T538A|OXNAD1_uc003cax.2_Intron|OXNAD1_uc011awb.1_Intron	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	574						plasma membrane				ovary(3)|central_nervous_system(1)	4						TCTTCAACCGTACCAAGCTCT	0.552													10	436					0	0	1	0	0		C	16358352	C	C	16358352	3	2	151	1	0	0	0	0	1	0	0	0	13283	1638	57	3	20	3	RFTN1	3	16358352	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	631489	16358352	181664078	811	77976											
SATB1	6304	broad.mit.edu	37	chr3	18428081	18428081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttggggtcctcttcctttCggaggatttctgaaagcaag	7	14	11	9	1	3	1	0	1	3	0	6	3	5	3	2	4	1	1	2	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:18428081C>T	uc003cbh.2	-	8	2964	c.1229G>A	c.(1228-1230)CGA>CAA	p.R410Q	SATB1_uc003cbi.2_Missense_Mutation_p.R410Q|SATB1_uc003cbj.2_Missense_Mutation_p.R410Q	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	410	CUT 1.|Matrix attachment region (MAR) DNA- binding.			R->N: Impaired MAR-DNA-binding.	cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						CTCTTCCTTTCGGAGGATTTC	0.507													20	94					0	0	1	0	0		T	18428081	T	T	18428081	3	4	151	1	0	0	0	0	1	0	0	0	13878	884	31	1	1078	1	SATB1	3	18428081	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2069729	18428081	179594349	812	77977											
SATB1	6304	broad.mit.edu	37	chr3	18462397	18462397	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtggacccttcggatcActcacattgttagacatttc	8	13	9	11	1	2	1	2	0	0	1	4	3	2	3	1	3	0	2	1	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:18462397A>G	uc003cbh.2	-	2	1798	c.63T>C	c.(61-63)AGT>AGC	p.S21S	SATB1_uc003cbi.2_Silent_p.S21S|SATB1_uc003cbj.2_Silent_p.S21S	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	21	Nuclear localization signal.				cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						CCTTCGGATCACTCACATTGT	0.498													28	158					0	0	1	0	0		G	18462397	G	G	18462397	2	3	151	1	0	0	0	0	0	0	0	1	13878	156	6	3		3	SATB1	3	18462397	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	34316	18462397	179560033	813	77978											
KCNH8	131096	broad.mit.edu	37	chr3	19498275	19498275	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctagggaaaggggatttaaTtggagcaaatctatcaatta	15	12	10	4	0	3	0	1	0	2	0	3	3	3	3	0	4	1	1	0	4	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:19498275T>A	uc003cbk.1	+	11	2036	c.1841T>A	c.(1840-1842)ATT>AAT	p.I614N	KCNH8_uc010hex.1_Missense_Mutation_p.I75N	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	614	cNMP.|Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						GGGGATTTAATTGGAGCAAAT	0.373													4	164					0	0	1	0	0		A	19498275	A	A	19498275	3	1	151	1	0	0	0	0	1	0	0	0	8054	1493	52	5	1883	5	KCNH8	3	19498275	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1035878	19498275	178524155	814	77979											
SGOL1	151648	broad.mit.edu	37	chr3	20225109	20225109	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgaaaatacctgagcaggTtctactgtttgttgtgatgt	11	15	10	5	0	1	3	0	3	1	0	1	3	1	3	1	1	3	4	1	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:20225109T>C	uc003cbs.2	-	3	517	c.330A>G	c.(328-330)GAA>GAG	p.E110E	SGOL1_uc003cbr.2_Silent_p.E110E|SGOL1_uc010hfa.2_Silent_p.E110E|SGOL1_uc003cbt.2_Silent_p.E110E|SGOL1_uc003cbu.2_Silent_p.E110E|SGOL1_uc003cbv.2_Silent_p.E110E|SGOL1_uc003cbw.2_Silent_p.E110E|SGOL1_uc003cbx.2_Silent_p.E110E|SGOL1_uc003cby.2_Silent_p.E110E|SGOL1_uc003cbz.2_Silent_p.E110E|SGOL1_uc003cca.2_Silent_p.E110E|SGOL1_uc003ccb.2_Silent_p.E110E|SGOL1_uc003ccc.2_Silent_p.E110E	NM_001012410	NP_001012410	Q5FBB7	SGOL1_HUMAN	shugoshin-like 1 isoform A2	110	Necessary for interaction with PPP2CA and PPP2R1A.				attachment of spindle microtubules to kinetochore|cell division|centriole-centriole cohesion|meiotic chromosome segregation|mitotic prometaphase	centrosome|condensed chromosome kinetochore|cytosol|mitotic cohesin complex|spindle pole	protein binding				0						CCTGAGCAGGTTCTACTGTTT	0.323													36	170					0	0	1	0	0		C	20225109	C	C	20225109	2	2	151	1	0	0	0	0	0	0	0	1	14241	1722	60	3		3	SGOL1	3	20225109	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	726834	20225109	177797321	815	77980											
SLC4A7	9497	broad.mit.edu	37	chr3	27490198	27490198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attctttatcttttcttctcCggtggtgatgtttgtgtccg	3	21	9	8	2	4	1	0	1	4	0	6	1	5	1	2	2	0	1	2	2	1	7	rs149158126		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:27490198C>T	uc003cdv.2	-	3	277	c.206G>A	c.(205-207)CGG>CAG	p.R69Q	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Missense_Mutation_p.R74Q|SLC4A7_uc011aww.1_Missense_Mutation_p.R78Q|SLC4A7_uc011awx.1_Missense_Mutation_p.R78Q|SLC4A7_uc011awy.1_Missense_Mutation_p.R74Q|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Missense_Mutation_p.R74Q|SLC4A7_uc011axb.1_Missense_Mutation_p.R78Q|SLC4A7_uc010hfm.2_Missense_Mutation_p.R74Q|SLC4A7_uc003cdw.2_Missense_Mutation_p.R69Q	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	69	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						TTTTCTTCTCCGGTGGTGATG	0.398													38	163					0	0	1	0	0		T	27490198	T	T	27490198	3	4	151	1	0	0	0	0	1	0	0	0	14683	652	23	1	3530	1	SLC4A7	3	27490198	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	7265089	27490198	170532232	816	77981											
EOMES	8320	broad.mit.edu	37	chr3	27758600	27758600	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcataataccctcccatgccTtttgaggtgtctttactata	9	15	6	11	0	1	1	0	1	1	0	2	1	2	1	3	1	3	1	3	1	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:27758600T>C	uc003cdx.2	-	6	2022	c.2022A>G	c.(2020-2022)AAA>AAG	p.K674K	EOMES_uc003cdy.3_Silent_p.K693K|EOMES_uc010hfn.2_3'UTR|EOMES_uc011axc.1_Silent_p.K398K	NM_005442	NP_005433	O95936	EOMES_HUMAN	eomesodermin	674	Required for transcription activation (By similarity).				CD8-positive, alpha-beta T cell differentiation involved in immune response|cell differentiation involved in embryonic placenta development|endoderm formation|mesoderm formation|mesodermal to mesenchymal transition involved in gastrulation|positive regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|breast(1)	4						CTCCCATGCCTTTTGAGGTGT	0.393													51	206					0	0	1	0	0		C	27758600	C	C	27758600	2	2	151	1	0	0	0	0	0	0	0	1	5155	1606	56	3		3	EOMES	3	27758600	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	268402	27758600	170263830	817	77982											
OSBPL10	114884	broad.mit.edu	37	chr3	31725576	31725576	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacatctccagcaaagatcGcttctccaggataaaggtgg	13	9	9	10	1	2	1	0	0	2	1	5	2	2	2	2	3	2	2	2	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:31725576G>A	uc003cev.2	-	9	1657	c.1276C>T	c.(1276-1278)CGA>TGA	p.R426*	OSBPL10_uc003ceu.1_Nonsense_Mutation_p.R183*|OSBPL10_uc011axf.1_Nonsense_Mutation_p.R362*	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	426					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		AGCAAAGATCGCTTCTCCAGG	0.507													15	71					0	0	1	0	0		A	31725576	A	A	31725576	4	1	151	1	0	0	0	0	0	1	0	0	11294	1095	38	1	1038	1	OSBPL10	3	31725576	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3966976	31725576	166296854	818	77983											
GPD1L	23171	broad.mit.edu	37	chr3	32201136	32201136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacttctgctgaagtgtaccGcatcctcaaacagaagggac	12	8	10	11	1	2	2	1	1	1	1	3	4	3	3	2	1	3	3	2	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:32201136G>A	uc003cew.2	+	7	989	c.929G>A	c.(928-930)CGC>CAC	p.R310H		NM_015141	NP_055956	Q8N335	GPD1L_HUMAN	glycerol-3-phosphate dehydrogenase 1-like	310					glycerol-3-phosphate catabolic process	glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|NAD binding|protein homodimerization activity				0						GAAGTGTACCGCATCCTCAAA	0.453													9	40					0	0	1	0	0		A	32201136	A	A	32201136	3	1	151	1	0	0	0	0	1	0	0	0	6620	1087	38	1	955	1	GPD1L	3	32201136	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	475560	32201136	165821294	819	77984											
TMPPE	643853	broad.mit.edu	37	chr3	33135378	33135378	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcttcggccactaaaaagaAcatggtaaagaaactggaat	17	8	8	8	1	1	2	0	0	1	2	2	3	1	3	1	3	2	1	1	3	8	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:33135378A>G	uc003cfk.2	-	2	501	c.310T>C	c.(310-312)TTC>CTC	p.F104L	GLB1_uc003cfh.1_Intron|GLB1_uc003cfi.1_Intron|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Intron|TMPPE_uc011axl.1_Intron	NM_001039770	NP_001034859	Q6ZT21	TMPPE_HUMAN	transmembrane protein with	104	Helical; (Potential).					integral to membrane	metal ion binding				0						ACTAAAAAGAACATGGTAAAG	0.527													7	31					0	0	1	0	0		G	33135378	G	G	33135378	3	3	151	1	0	0	0	0	1	0	0	0	16263	43	2	3	1055	3	TMPPE	3	33135378	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	934242	33135378	164887052	820	77985											
UBP1	7342	broad.mit.edu	37	chr3	33458253	33458253	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatggactgtccttaccttTactaattttccattgatctc	10	17	4	10	0	1	1	0	1	1	0	4	2	3	2	3	1	2	0	3	1	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:33458253T>C	uc003cfq.3	-	3	869	c.339A>G	c.(337-339)GTA>GTG	p.V113V	UBP1_uc003cfr.3_Silent_p.V113V|UBP1_uc010hga.2_Silent_p.V113V	NM_014517	NP_055332	Q9NZI7	UBIP1_HUMAN	upstream binding protein 1 (LBP-1a) isoform a	113					negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|viral genome replication	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			kidney(2)	2						TCCTTACCTTTACTAATTTTC	0.289													5	174					0	0	1	0	0		C	33458253	C	C	33458253	2	2	151	1	0	0	0	0	0	0	0	1	16921	1741	61	3		3	UBP1	3	33458253	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	322875	33458253	164564177	821	77986											
PDCD6IP	10015	broad.mit.edu	37	chr3	33855092	33855092	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggatgctttcgataaaggTtcactttttggaggctctgt	9	15	11	6	1	2	0	1	0	1	0	3	3	2	2	0	4	1	3	0	4	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:33855092T>G	uc003cfx.2	+	3	461	c.306T>G	c.(304-306)GGT>GGG	p.G102G	PDCD6IP_uc011axv.1_Silent_p.G102G|PDCD6IP_uc003cfy.2_Silent_p.G102G	NM_013374	NP_037506	Q8WUM4	PDC6I_HUMAN	programmed cell death 6 interacting protein	102	BRO1.				apoptosis|cell cycle|cell division|interspecies interaction between organisms|protein transport	cytosol|melanosome|microtubule organizing center	calcium-dependent protein binding			ovary(1)|skin(1)	2						TCGATAAAGGTTCACTTTTTG	0.303													6	325					0	0	1	0	0		G	33855092	G	G	33855092	2	3	151	1	0	0	0	0	0	0	0	1	11643	1712	60	5		5	PDCD6IP	3	33855092	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	396839	33855092	164167338	822	77987											
ARPP21	10777	broad.mit.edu	37	chr3	35731623	35731623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaattattgatttcattgCtgacaacaagtatgttaaac	15	14	7	5	0	1	2	1	2	0	0	1	3	1	3	0	1	3	3	0	1	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:35731623C>T	uc003cgb.2	+	8	800	c.536C>T	c.(535-537)GCT>GTT	p.A179V	ARPP21_uc003cga.2_Missense_Mutation_p.A179V|ARPP21_uc011axy.1_Missense_Mutation_p.A179V|ARPP21_uc003cgf.2_Missense_Mutation_p.A15V	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	179	R3H.					cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						GATTTCATTGCTGACAACAAG	0.323													22	72					0	0	1	0	0		T	35731623	T	T	35731623	3	4	151	1	0	0	0	0	1	0	0	0	979	797	28	2	571	2	ARPP21	3	35731623	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1876531	35731623	162290807	823	77988											
ARPP21	10777	broad.mit.edu	37	chr3	35732357	35732357	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttgaattatgttctagTaatcattataaaaagttccc	13	18	4	6	0	3	1	1	1	2	0	4	1	4	1	1	0	0	3	1	0	8	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:35732357T>C	uc003cgb.2	+	9	810	c.546T>C	c.(544-546)AAT>AAC	p.N182N	ARPP21_uc003cga.2_Silent_p.N182N|ARPP21_uc011axy.1_Silent_p.N182N|ARPP21_uc003cgf.2_Silent_p.N18N	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	182	R3H.					cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						TATGTTCTAGTAATCATTATA	0.338													20	85					0	0	1	0	0		C	35732357	C	C	35732357	2	2	151	1	0	0	0	0	0	0	0	1	979	1652	57	3		3	ARPP21	3	35732357	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	734	35732357	162290073	824	77989											
ARPP21	10777	broad.mit.edu	37	chr3	35756944	35756944	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcagtcagtttgctcccAggaaagcctttttgtggaaa	9	15	9	8	0	2	0	2	0	0	0	3	2	3	2	2	2	2	2	2	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:35756944A>G	uc003cgb.2	+	12	1175	c.911A>G	c.(910-912)CAG>CGG	p.Q304R	ARPP21_uc003cga.2_Missense_Mutation_p.Q270R|ARPP21_uc011axy.1_Missense_Mutation_p.Q270R|ARPP21_uc003cgf.2_Missense_Mutation_p.Q106R	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	304						cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						GTTTGCTCCCAGGAAAGCCTT	0.328													17	154					0	0	1	0	0		G	35756944	G	G	35756944	3	3	151	1	0	0	0	0	1	0	0	0	979	188	7	3	962	3	ARPP21	3	35756944	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	24587	35756944	162265486	825	77990											
TRANK1	9881	broad.mit.edu	37	chr3	36873767	36873767	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcacctcttgatgaggAcattcatgaaacggaaaaag	14	10	9	8	1	2	3	1	3	1	0	2	5	2	5	1	2	2	1	1	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:36873767A>T	uc003cgj.2	-	12	5827	c.5525T>A	c.(5524-5526)GTC>GAC	p.V1842D		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2392					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						CTTGATGAGGACATTCATGAA	0.507													35	172					0	0	1	0	0		T	36873767	T	T	36873767	3	4	151	1	0	0	0	0	1	0	0	0	16480	275	10	5	1614	5	TRANK1	3	36873767	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1116823	36873767	161148663	826	77991											
GOLGA4	2803	broad.mit.edu	37	chr3	37368264	37368264	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcattggaagataggctTgagtcagaaagtgctgcaaa	15	8	13	5	0	1	3	1	1	0	2	1	4	1	4	0	3	2	4	0	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:37368264T>C	uc003cgv.2	+	14	5191	c.4887T>C	c.(4885-4887)CTT>CTC	p.L1629L	GOLGA4_uc010hgr.1_Silent_p.L1190L|GOLGA4_uc003cgw.2_Silent_p.L1651L|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Silent_p.L1510L	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1629	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						AAGATAGGCTTGAGTCAGAAA	0.363													25	115					0	0	1	0	0		C	37368264	C	C	37368264	2	2	151	1	0	0	0	0	0	0	0	1	6570	1799	63	3		3	GOLGA4	3	37368264	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	494497	37368264	160654166	827	77992											
VILL	50853	broad.mit.edu	37	chr3	38043035	38043035	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caactgctaccttgtgctctAcacataccagaggctgggcc	9	9	9	14	0	1	1	0	0	1	1	1	1	1	1	3	2	6	3	3	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:38043035A>G	uc003chj.2	+	12	1557	c.1271A>G	c.(1270-1272)TAC>TGC	p.Y424C	VILL_uc003chl.2_Missense_Mutation_p.Y424C|VILL_uc010hgu.2_Missense_Mutation_p.Y254C	NM_015873	NP_056957	O15195	VILL_HUMAN	villin-like protein	424	Gelsolin-like 4.				actin filament capping|cytoskeleton organization	actin cytoskeleton	actin binding|structural constituent of cytoskeleton				0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		CTTGTGCTCTACACATACCAG	0.592													10	82					0	0	1	0	0		G	38043035	G	G	38043035	3	3	151	1	0	0	0	0	1	0	0	0	17191	391	14	3	1313	3	VILL	3	38043035	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	674771	38043035	159979395	828	77993											
DLEC1	9940	broad.mit.edu	37	chr3	38127756	38127756	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accggtgttggactgtggttActgcctcattgggggagtca	6	12	15	8	1	2	0	2	0	0	0	2	2	2	2	2	5	2	2	2	5	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:38127756A>G	uc003cho.1	+	9	1481	c.1460A>G	c.(1459-1461)TAC>TGC	p.Y487C	DLEC1_uc003chp.1_Missense_Mutation_p.Y487C|DLEC1_uc010hgv.1_Missense_Mutation_p.Y487C|DLEC1_uc010hgw.1_Missense_Mutation_p.Y128C|DLEC1_uc003chq.1_Intron	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	487					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		GACTGTGGTTACTGCCTCATT	0.488													42	237					0	0	1	0	0		G	38127756	G	G	38127756	3	3	151	1	0	0	0	0	1	0	0	0	4558	391	14	3	1494	3	DLEC1	3	38127756	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	84721	38127756	159894674	829	77994											
OXSR1	9943	broad.mit.edu	37	chr3	38263180	38263180	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctgaagttatggaacaggTaccgtgtctttttttctgtt	8	17	9	7	1	2	1	0	1	2	0	2	2	2	2	2	2	2	3	2	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:38263180T>C	uc003chy.2	+	6	942	c.600_splice	c.e6+2	p.Q200_splice	OXSR1_uc010hhb.2_Splice_Site_p.Q134_splice|OXSR1_uc010hha.1_Splice_Site_p.Q132_splice	NM_005109	NP_005100	O95747	OXSR1_HUMAN	oxidative-stress responsive 1						intracellular protein kinase cascade|response to oxidative stress		ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		ATGGAACAGGTACCGTGTCTT	0.393													33	137					0	0	1	0	0		C	38263180	C	C	38263180	5	2	151	1	0	0	0	0	0	0	1	0	11355	1652	57	3	624	3	OXSR1	3	38263180	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	135424	38263180	159759250	830	77995											
OXSR1	9943	broad.mit.edu	37	chr3	38287645	38287645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcatctacctcagccagctgGgcagattgctacacagccaa	11	8	8	14	0	3	1	2	0	1	1	3	1	3	1	3	1	6	3	3	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:38287645G>A	uc003chy.2	+	13	1532	c.1190G>A	c.(1189-1191)GGG>GAG	p.G397E	OXSR1_uc010hhb.2_Missense_Mutation_p.G331E	NM_005109	NP_005100	O95747	OXSR1_HUMAN	oxidative-stress responsive 1	397					intracellular protein kinase cascade|response to oxidative stress		ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		CAGCCAGCTGGGCAGATTGCT	0.507													35	141					0	0	1	0	0		A	38287645	A	A	38287645	3	1	151	1	0	0	0	0	1	0	0	0	11355	1232	43	4	1240	4	OXSR1	3	38287645	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	24465	38287645	159734785	831	77996											
SLC22A13	9390	broad.mit.edu	37	chr3	38316147	38316147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctcttcaccctcatcGgcctggccacagcttttgtg	4	13	8	16	1	3	0	2	0	1	0	5	0	4	0	4	2	2	2	4	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:38316147G>A	uc003chz.3	+	3	589	c.535G>A	c.(535-537)GGC>AGC	p.G179S	SLC22A13_uc011aym.1_Intron|SLC22A13_uc011ayn.1_Missense_Mutation_p.G179S	NM_004256	NP_004247	Q9Y226	S22AD_HUMAN	solute carrier family 22 (organic anion	179	Helical; (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0533)|Kidney(284;0.067)		CACCCTCATCGGCCTGGCCAC	0.607													18	44					0	0	1	0	0		A	38316147	A	A	38316147	3	1	151	1	0	0	0	0	1	0	0	0	14469	1116	39	1	545	1	SLC22A13	3	38316147	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	28502	38316147	159706283	832	77997											
SCN5A	6331	broad.mit.edu	37	chr3	38603961	38603961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggagtgcacgcagcgtcCgcagtgacttgatggggccc	7	6	16	12	4	0	2	0	2	0	0	1	4	1	3	2	3	2	3	2	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:38603961C>T	uc003cio.2	-	22	4102	c.3908G>A	c.(3907-3909)CGG>CAG	p.R1303Q	SCN5A_uc003cin.2_Missense_Mutation_p.R1302Q|SCN5A_uc003cil.3_Missense_Mutation_p.R1303Q|SCN5A_uc010hhi.2_Missense_Mutation_p.R1303Q|SCN5A_uc010hhk.2_Missense_Mutation_p.R1302Q|SCN5A_uc011ayr.1_Missense_Mutation_p.R1249Q|SCN5A_uc010hhj.1_Missense_Mutation_p.R913Q	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1303	Helical; Voltage-sensor; Name=S4 of repeat III; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	ACGCAGCGTCCGCAGTGACTT	0.622													6	27					0	0	1	0	0		T	38603961	T	T	38603961	3	4	151	1	0	0	0	0	1	0	0	0	13947	652	23	1	2170	1	SCN5A	3	38603961	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	287814	38603961	159418469	833	77998											
SCN10A	6336	broad.mit.edu	37	chr3	38748787	38748787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caccaggggccgtgggatggGcttctggggcttcttggagc	4	9	18	10	1	2	0	0	0	2	0	2	2	2	2	2	7	1	2	2	7	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:38748787G>A	uc003ciq.2	-	25	4369	c.4369C>T	c.(4369-4371)CCC>TCC	p.P1457S		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1457					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CGTGGGATGGGCTTCTGGGGC	0.562													12	93					0	0	1	0	0		A	38748787	A	A	38748787	3	1	151	1	0	0	0	0	1	0	0	0	13937	1203	42	2	1513	2	SCN10A	3	38748787	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	144826	38748787	159273643	834	77999											
SCN10A	6336	broad.mit.edu	37	chr3	38830483	38830483	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagttcgggtcatgcacAcacaattaaccaaaatagtg	14	9	9	9	1	2	0	2	0	0	0	3	0	2	0	1	2	2	2	1	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:38830483A>G	uc003ciq.2	-	3	434	c.434T>C	c.(433-435)GTG>GCG	p.V145A		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	145	Helical; Name=S1 of repeat I; (Potential).|I.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GGTCATGCACACACAATTAAC	0.393													4	94					0	0	1	0	0		G	38830483	G	G	38830483	3	3	151	1	0	0	0	0	1	0	0	0	13937	159	6	3	5536	3	SCN10A	3	38830483	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	81696	38830483	159191947	835	78000											
SCN11A	11280	broad.mit.edu	37	chr3	38888509	38888509	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggtgaaggcgaaaagaatAtccatgcagtggaggcgatc	13	6	15	7	3	0	2	0	1	0	1	2	5	1	3	1	4	1	1	1	4	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:38888509A>G	uc011ays.1	-	26	5251	c.5052T>C	c.(5050-5052)GAT>GAC	p.D1684D		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1684					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CGAAAAGAATATCCATGCAGT	0.468													44	174					0	0	1	0	0		G	38888509	G	G	38888509	2	3	151	1	0	0	0	0	0	0	0	1	13938	446	16	3		3	SCN11A	3	38888509	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	58026	38888509	159133921	836	78001											
SCN11A	11280	broad.mit.edu	37	chr3	38889232	38889232	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaaggtagaaatcattgtAcctcaggagaaggagaaaag	17	7	11	6	0	2	3	2	0	0	3	3	5	3	3	2	3	1	2	2	3	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:38889232A>G	uc011ays.1	-	26	4528	c.4329T>C	c.(4327-4329)AGT>AGC	p.S1443S		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1443	IV.|Helical; Name=S3 of repeat IV; (By similarity).				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	AAATCATTGTACCTCAGGAGA	0.483													6	19					0	0	1	0	0		G	38889232	G	G	38889232	2	3	151	1	0	0	0	0	0	0	0	1	13938	405	14	3		3	SCN11A	3	38889232	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	723	38889232	159133198	837	78002											
WDR48	57599	broad.mit.edu	37	chr3	39111148	39111148	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcacaggtgttacgggtatgGgatccaagaacatgtgcaaa	13	9	12	7	1	1	1	1	0	0	1	2	2	2	2	1	3	3	3	1	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:39111148G>T	uc003cit.2	+	7	595	c.585G>T	c.(583-585)TGG>TGT	p.W195C	WDR48_uc011ayt.1_Missense_Mutation_p.W186C|WDR48_uc011ayu.1_Missense_Mutation_p.W113C|WDR48_uc011ayv.1_Intron|WDR48_uc003ciu.2_RNA	NM_020839	NP_065890	Q8TAF3	WDR48_HUMAN	WD repeat domain 48	195	WD 4.				interspecies interaction between organisms|protein deubiquitination	lysosome|nucleus	protein binding			ovary(1)|breast(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		TACGGGTATGGGATCCAAGAA	0.343													24	93					3.01185e-09	3.09387e-09	1	1	0		T	39111148	T	T	39111148	3	4	151	1	0	0	0	0	1	0	0	0	17327	1241	43	5	611	5	WDR48	3	39111148	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	221916	39111148	158911282	838	78003											
RPSA	3921	broad.mit.edu	37	chr3	39449253	39449253	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgacttccagatggaacagTacatctataaaaggaaaagt	17	10	8	6	0	1	2	0	1	1	1	2	4	2	4	1	2	2	1	1	2	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:39449253T>C	uc003cjp.2	+	2	194	c.109T>C	c.(109-111)TAC>CAC	p.Y37H	RPSA_uc003cjq.2_Missense_Mutation_p.Y37H|RPSA_uc003cjr.2_Missense_Mutation_p.Y37H|RPSA_uc003cjt.2_5'Flank|SNORA6_uc003cjs.1_5'Flank	NM_002295	NP_002286	P08865	RSSA_HUMAN	ribosomal protein SA	37					cell adhesion|endocrine pancreas development|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosomal small subunit assembly|rRNA export from nucleus|translational elongation|translational termination|viral transcription	90S preribosome|cytosolic small ribosomal subunit|nucleus|plasma membrane	protein binding|receptor activity|ribosome binding|structural constituent of ribosome			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0509)|Kidney(284;0.064)		GATGGAACAGTACATCTATAA	0.343													23	65					0	0	1	0	0		C	39449253	C	C	39449253	3	2	151	1	0	0	0	0	1	0	0	0	13688	1638	57	3	111	3	RPSA	3	39449253	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	338105	39449253	158573177	839	78004											
ZNF619	285267	broad.mit.edu	37	chr3	40529325	40529325	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacattcagtcaaaagatcActctggttcagcatcagcga	14	9	8	10	1	6	2	5	0	1	2	6	3	6	2	0	1	2	2	0	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:40529325A>G	uc011azb.1	+	6	1722	c.1444A>G	c.(1444-1446)ACT>GCT	p.T482A	ZNF619_uc010hhz.2_Missense_Mutation_p.T433A|ZNF619_uc003ckj.2_Missense_Mutation_p.T426A|ZNF619_uc011azc.1_Missense_Mutation_p.T442A|ZNF619_uc011azd.1_Missense_Mutation_p.T398A|ZNF619_uc011aza.1_Missense_Mutation_p.T384A	NM_001145082	NP_001138554	E9PCD9	E9PCD9_HUMAN	zinc finger protein 619 isoform 1	482					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		TCAAAAGATCACTCTGGTTCA	0.473													23	86					0	0	1	0	0		G	40529325	G	G	40529325	3	3	151	1	0	0	0	0	1	0	0	0	18068	159	6	3	1484	3	ZNF619	3	40529325	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1080072	40529325	157493105	840	78005											
CTNNB1	1499	broad.mit.edu	37	chr3	41266486	41266486	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgactcgagctcagagggtaCgagctgctatgttccctgag	8	10	13	10	2	1	3	1	2	0	1	3	5	2	3	1	1	4	5	1	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:41266486C>T	uc010hia.1	+	5	439	c.283C>T	c.(283-285)CGA>TGA	p.R95*	CTNNB1_uc003ckp.2_Nonsense_Mutation_p.R95*|CTNNB1_uc003ckq.2_Nonsense_Mutation_p.R95*|CTNNB1_uc003ckr.2_Nonsense_Mutation_p.R95*|CTNNB1_uc011azf.1_Nonsense_Mutation_p.R88*|CTNNB1_uc011azg.1_Nonsense_Mutation_p.R23*|uc010hib.1_RNA	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	95					adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.A5_Q143del(7)|p.Q28_H134del(5)|p.W25_I140del(4)|p.T3_A126del(2)|p.V22_L139>V(2)|p.M5_N141>D(2)|p.L10_N141del(2)|p.A5_Y142>D(2)|p.A20_Q143del(1)|p.A5_Q143>E(1)|p.A13_R151del(1)|p.S23_I140del(1)|p.A20_R151del(1)|p.A20_N141del(1)|p.D11_Y142>H(1)|p.I35_K170del(1)|p.Y30_A97del(1)|p.V22_T102del(1)|p.D6_K133del(1)|p.M1_V173del(1)|p.E15_I140>V(1)|p.?(1)|p.D17_P128del(1)|p.H24_M131del(1)|p.A5_D144>D(1)|p.L7_I140del(1)|p.K19_Y142>V(1)|p.D17_A126del(1)|p.A20_L148del(1)|p.E9_I140del(1)|p.P16_K133del(1)|p.D6_I140del(1)|p.Q28_I140del(1)|p.A20_S111del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	TCAGAGGGTACGAGCTGCTAT	0.453		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				47	180					0	0	1	0	0		T	41266486	T	T	41266486	4	4	151	1	0	0	0	0	0	1	0	0	4019	528	19	1	293	1	CTNNB1	3	41266486	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	737161	41266486	156755944	841	78006											
TRAK1	22906	broad.mit.edu	37	chr3	42261039	42261039	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccaccttcaccttcaccAcctgtcgcatcctgcatcct	7	11	3	20	1	2	0	2	0	0	0	6	0	5	0	7	0	1	2	7	0	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:42261039A>G	uc003cky.2	+	15	2233	c.2017A>G	c.(2017-2019)ACC>GCC	p.T673A	TRAK1_uc011azi.1_Missense_Mutation_p.T652A	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	673					endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						CACCTTCACCACCTGTCGCAT	0.547													40	205					0	0	1	0	0		G	42261039	G	G	42261039	3	3	151	1	0	0	0	0	1	0	0	0	16475	159	6	3	2463	3	TRAK1	3	42261039	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	994553	42261039	155761391	842	78007											
SNRK	54861	broad.mit.edu	37	chr3	43388884	43388884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccttgaggatgacctcaCggccactcctttgtcccacg	7	9	10	15	2	1	2	1	2	0	0	3	4	3	4	5	3	0	0	5	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:43388884C>T	uc003cms.3	+	7	1465	c.1133C>T	c.(1132-1134)ACG>ATG	p.T378M	SNRK_uc003cmt.3_Missense_Mutation_p.T378M|SNRK_uc010hik.2_Missense_Mutation_p.T378M|SNRK_uc011azr.1_Missense_Mutation_p.T172M	NM_017719	NP_060189	Q9NRH2	SNRK_HUMAN	SNF related kinase	378					myeloid cell differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.0636)|Kidney(284;0.0792)		GATGACCTCACGGCCACTCCT	0.522													33	104					0	0	1	0	0		T	43388884	T	T	43388884	3	4	151	1	0	0	0	0	1	0	0	0	14876	536	19	1	1151	1	SNRK	3	43388884	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1127845	43388884	154633546	843	78008											
ANO10	55129	broad.mit.edu	37	chr3	43621906	43621906	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcaagcttcttcagggcTtcactgtcatgcagtggaaa	9	12	9	11	0	5	0	4	0	1	0	6	1	6	1	1	2	2	3	1	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:43621906T>G	uc003cmv.2	-	5	702	c.531A>C	c.(529-531)GAA>GAC	p.E177D	ANO10_uc011azs.1_Missense_Mutation_p.E177D|ANO10_uc003cmw.2_Missense_Mutation_p.E111D|ANO10_uc010hil.2_Missense_Mutation_p.E177D|ANO10_uc011azt.1_Missense_Mutation_p.E66D	NM_018075	NP_060545	Q9NW15	ANO10_HUMAN	transmembrane protein 16K	177	Cytoplasmic (Potential).				cell death	chloride channel complex	chloride channel activity			ovary(2)	2						TCTTCAGGGCTTCACTGTCAT	0.473													4	146					0	0	1	0	0		G	43621906	G	G	43621906	3	3	151	1	0	0	0	0	1	0	0	0	696	1606	56	5	1487	5	ANO10	3	43621906	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	233022	43621906	154400524	844	78009											
ZNF445	353274	broad.mit.edu	37	chr3	44489669	44489669	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctctgatgatacgcaagatgGgagctatgactgaaagtcct	12	10	11	8	1	1	5	0	4	1	1	2	6	2	6	1	1	2	2	1	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:44489669G>A	uc003cnf.2	-	8	1842	c.1494C>T	c.(1492-1494)TCC>TCT	p.S498S	ZNF445_uc011azv.1_Silent_p.S486S|ZNF445_uc011azw.1_Silent_p.S498S	NM_181489	NP_852466	P59923	ZN445_HUMAN	zinc finger protein 445	498	C2H2-type 1.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		ACGCAAGATGGGAGCTATGAC	0.493													28	154					0	0	1	0	0		A	44489669	A	A	44489669	2	1	151	1	0	0	0	0	0	0	0	1	17943	1219	43	4		4	ZNF445	3	44489669	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	867763	44489669	153532761	845	78010											
ZNF167	55888	broad.mit.edu	37	chr3	44598750	44598750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgtctgggccgcaggaaGcattgagccggcttcgggag	8	7	17	9	3	1	2	0	1	1	1	2	4	1	4	2	4	2	3	2	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:44598750G>A	uc010hin.2	+	2	599	c.211G>A	c.(211-213)GCA>ACA	p.A71T	ZNF167_uc003cnh.2_RNA|ZNF167_uc003cni.2_Missense_Mutation_p.A71T|ZNF167_uc010hio.2_Intron|ZNF167_uc003cnj.2_Missense_Mutation_p.A71T|ZNF167_uc003cnk.2_Missense_Mutation_p.A71T	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	71	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		GCCGCAGGAAGCATTGAGCCG	0.582													13	64					0	0	1	0	0		A	44598750	A	A	44598750	3	1	151	1	0	0	0	0	1	0	0	0	17766	971	34	2	213	2	ZNF167	3	44598750	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	109081	44598750	153423680	846	78011											
ZNF197	10168	broad.mit.edu	37	chr3	44683453	44683453	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagtagttctcaaagagcAgactctcataaaggaacatc	16	8	7	10	0	2	2	2	0	2	2	5	3	2	3	1	1	2	3	1	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:44683453A>G	uc003cnm.2	+	6	1037	c.831A>G	c.(829-831)GCA>GCG	p.A277A	ZNF197_uc003cnn.2_Intron|ZNF197_uc003cno.2_Intron|ZNF197_uc003cnp.2_Intron	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	277	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|skin(1)	4				KIRC - Kidney renal clear cell carcinoma(197;0.0478)|Kidney(197;0.0598)		CTCAAAGAGCAGACTCTCATA	0.428													11	38					0	0	1	0	0		G	44683453	G	G	44683453	2	3	151	1	0	0	0	0	0	0	0	1	17784	175	7	3		3	ZNF197	3	44683453	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	84703	44683453	153338977	847	78012											
ZNF35	7584	broad.mit.edu	37	chr3	44700955	44700955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctttgcctgtaacgactGtggcaaagcctttacccaga	9	10	9	13	1	0	1	0	0	0	1	0	2	0	1	4	1	4	2	4	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:44700955G>A	uc003cnq.2	+	4	1321	c.1100G>A	c.(1099-1101)TGT>TAT	p.C367Y	ZNF35_uc003cnr.2_Missense_Mutation_p.C207Y	NM_003420	NP_003411	P13682	ZNF35_HUMAN	zinc finger protein 35	367	C2H2-type 6.				cellular response to retinoic acid|spermatogenesis	nucleus|perinuclear region of cytoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(412;0.0228)		OV - Ovarian serous cystadenocarcinoma(275;2.49e-27)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)		TGTAACGACTGTGGCAAAGCC	0.448													22	83					0	0	1	0	0		A	44700955	A	A	44700955	3	1	151	1	0	0	0	0	1	0	0	0	17887	1377	48	4	1110	4	ZNF35	3	44700955	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	17502	44700955	153321475	848	78013											
KIF15	56992	broad.mit.edu	37	chr3	44872475	44872475	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atattctggatctgaaagaaAcccttaggctgagaatactt	14	12	8	7	0	2	3	0	2	2	2	2	5	2	4	1	2	2	1	1	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:44872475A>G	uc003cnx.3	+	26	3285	c.3136A>G	c.(3136-3138)ACC>GCC	p.T1046A	KIF15_uc010hiq.2_Missense_Mutation_p.T949A|KIF15_uc010hir.2_Missense_Mutation_p.T94A	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	1046	Potential.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		TCTGAAAGAAACCCTTAGGCT	0.393													58	264					0	0	1	0	0		G	44872475	G	G	44872475	3	3	151	1	0	0	0	0	1	0	0	0	8293	43	2	3	3238	3	KIF15	3	44872475	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	171520	44872475	153149955	849	78014											
ZDHHC3	51304	broad.mit.edu	37	chr3	45000709	45000709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgttgatgatgctatacaCgtagtctcgagatggaatca	11	12	10	8	3	2	3	1	2	1	1	4	5	3	4	1	1	2	3	1	1	4	4	rs148007027		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:45000709C>T	uc003cod.2	-	2	494	c.220G>A	c.(220-222)GTG>ATG	p.V74M	ZDHHC3_uc003cog.2_Missense_Mutation_p.V74M|ZDHHC3_uc011bad.1_Missense_Mutation_p.V74M	NM_016598	NP_057682	Q9NYG2	ZDHC3_HUMAN	zinc finger, DHHC-type containing 3 isoform 2	74	Helical; (Potential).					Golgi membrane|integral to membrane	zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00943)|KIRC - Kidney renal clear cell carcinoma(197;0.053)|Kidney(197;0.0665)		ATGCTATACACGTAGTCTCGA	0.562													27	112					0	0	1	0	0		T	45000709	T	T	45000709	3	4	151	1	0	0	0	0	1	0	0	0	17641	536	19	1	1044	1	ZDHHC3	3	45000709	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	128234	45000709	153021721	850	78015											
XCR1	2829	broad.mit.edu	37	chr3	46062826	46062826	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtcctgaggatctccacgTagcagaacaggataatcccc	11	7	11	12	1	1	2	0	1	1	1	4	4	3	4	4	3	2	2	4	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:46062826T>C	uc003cpe.2	-	3	838	c.614A>G	c.(613-615)TAC>TGC	p.Y205C	uc003cpd.1_5'Flank|XCR1_uc003cpf.2_Missense_Mutation_p.Y205C	NM_005283	NP_005274	P46094	XCR1_HUMAN	XC chemokine receptor 1	205	Helical; Name=5; (Potential).				chemotaxis|G-protein signaling, coupled to cyclic nucleotide second messenger|inflammatory response	integral to plasma membrane	chemokine receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		GATCTCCACGTAGCAGAACAG	0.582													14	52					0	0	1	0	0		C	46062826	C	C	46062826	3	2	151	1	0	0	0	0	1	0	0	0	17451	1638	57	3	391	3	XCR1	3	46062826	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1062117	46062826	151959604	851	78016											
CCR1	1230	broad.mit.edu	37	chr3	46245390	46245390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgcccgcaaggcaaacaCggcgtggacgatggccaggt	9	4	15	13	5	0	0	0	0	0	0	0	2	0	1	3	5	2	2	3	5	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:46245390C>T	uc003cph.1	-	2	486	c.415G>A	c.(415-417)GTG>ATG	p.V139M	CCR3_uc003cpg.1_Intron	NM_001295	NP_001286	P32246	CCR1_HUMAN	chemokine (C-C motif) receptor 1	139	Cytoplasmic (Potential).				cell adhesion|cell-cell signaling|cytokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	integral to plasma membrane	C-C chemokine receptor activity			skin(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		AAGGCAAACACGGCGTGGACG	0.512													11	51					0	0	1	0	0		T	46245390	T	T	46245390	3	4	151	1	0	0	0	0	1	0	0	0	2942	536	19	1	656	1	CCR1	3	46245390	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	182564	46245390	151777040	852	78017											
LTF	4057	broad.mit.edu	37	chr3	46480816	46480816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcaacacctgtttcaggcGttccaccttatccatccgag	9	10	8	14	2	1	0	1	0	0	0	4	2	4	0	5	1	2	3	5	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:46480816G>A	uc003cpq.2	-	15	1917	c.1879C>T	c.(1879-1881)CGC>TGC	p.R627C	LTF_uc003fzr.2_Missense_Mutation_p.R583C|LTF_uc010hjh.2_Missense_Mutation_p.R625C|LTF_uc003cpr.2_Missense_Mutation_p.R614C	NM_002343	NP_002334	P02788	TRFL_HUMAN	lactotransferrin precursor	627	Transferrin-like 2.				cellular iron ion homeostasis|defense response to bacterium|humoral immune response|iron ion transport	extracellular region|stored secretory granule	ferric iron binding|heparin binding|protein binding|serine-type endopeptidase activity			central_nervous_system(2)|ovary(1)|lung(1)	4				all cancers(1;7.55e-14)|GBM - Glioblastoma multiforme(1;2.1e-09)|Epithelial(1;9.25e-07)|Colorectal(1;3.81e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00129)|COAD - Colon adenocarcinoma(1;0.00308)|KIRC - Kidney renal clear cell carcinoma(197;0.0205)|Kidney(197;0.0242)|OV - Ovarian serous cystadenocarcinoma(275;0.089)	Pefloxacin(DB00487)	TGTTTCAGGCGTTCCACCTTA	0.547													31	137					0	0	1	0	0		A	46480816	A	A	46480816	3	1	151	1	0	0	0	0	1	0	0	0	9097	1145	40	1	265	1	LTF	3	46480816	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	235426	46480816	151541614	853	78018											
ALS2CL	259173	broad.mit.edu	37	chr3	46721994	46721994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgacccctgggccgtggcGctgaccagcctgccacatgc	6	6	12	17	2	0	2	0	2	0	0	0	2	0	2	6	2	3	1	6	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:46721994G>A	uc003cqa.1	-	14	1664	c.1474C>T	c.(1474-1476)CGC>TGC	p.R492C	ALS2CL_uc003cpz.1_Missense_Mutation_p.R7C|ALS2CL_uc003cqb.1_Missense_Mutation_p.R492C|ALS2CL_uc003cqc.1_RNA	NM_147129	NP_667340	Q60I27	AL2CL_HUMAN	ALS2 C-terminal like isoform 1	492	MORN 6.				endosome organization|regulation of Rho protein signal transduction		GTPase activator activity|identical protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)|central_nervous_system(2)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000726)|KIRC - Kidney renal clear cell carcinoma(197;0.0171)|Kidney(197;0.0202)		GGGCCGTGGCGCTGACCAGCC	0.602													10	36					0	0	1	0	0		A	46721994	A	A	46721994	3	1	151	1	0	0	0	0	1	0	0	0	551	1087	38	1	1439	1	ALS2CL	3	46721994	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	241178	46721994	151300436	854	78019											
PRSS45	377047	broad.mit.edu	37	chr3	46784041	46784041	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagaatccatctgccctcAacttcacaagccaatggccc	11	7	6	17	0	3	1	2	0	1	1	4	1	4	1	5	1	3	0	5	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:46784041A>G	uc010hjl.2	-	4	486	c.486T>C	c.(484-486)GTT>GTC	p.V162V	PRSS45_uc011bam.1_RNA	NM_199183	NP_954652	Q7RTY3	PRS45_HUMAN	testis serine protease 5	194	Peptidase S1.				proteolysis		serine-type endopeptidase activity				0						ATCTGCCCTCAACTTCACAAG	0.567													6	49					0	0	1	0	0		G	46784041	G	G	46784041	2	3	151	1	0	0	0	0	0	0	0	1	12651	117	5	3		3	PRSS45	3	46784041	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	62047	46784041	151238389	855	78020											
PTH1R	5745	broad.mit.edu	37	chr3	46944090	46944090	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcttcatggccacaccatAcaccgaggtctcagggacgc	9	8	10	14	2	3	0	2	0	2	0	4	2	3	1	3	3	1	0	3	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:46944090A>G	uc003cqm.2	+	14	1489	c.1286A>G	c.(1285-1287)TAC>TGC	p.Y429C	PTH1R_uc003cqn.2_Missense_Mutation_p.Y429C	NM_000316	NP_000307	Q03431	PTH1R_HUMAN	parathyroid hormone receptor 1 precursor	429	Extracellular (Potential).					cytoplasm|integral to plasma membrane|nucleus	parathyroid hormone receptor activity|peptide hormone binding|protein self-association			breast(1)	1						GCCACACCATACACCGAGGTC	0.602									Ollier_disease_/_Maffuci_syndrome				7	26					0	0	1	0	0		G	46944090	G	G	46944090	3	3	151	1	0	0	0	0	1	0	0	0	12781	391	14	3	1332	3	PTH1R	3	46944090	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	160049	46944090	151078340	856	78021											
SETD2	29072	broad.mit.edu	37	chr3	47147559	47147559	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactccttcactcgagctttAaactctttatgatcgagtac	10	15	5	11	2	2	1	1	1	1	0	5	3	3	1	1	0	4	2	1	0	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:47147559A>G	uc003cqs.2	-	6	4820	c.4767T>C	c.(4765-4767)TTT>TTC	p.F1589F	SETD2_uc003cqv.2_Silent_p.F1578F	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1589	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		CTCGAGCTTTAAACTCTTTAT	0.408			N|F|S|Mis		clear cell renal carcinoma								32	140					0	0	1	0	0		G	47147559	G	G	47147559	2	3	151	1	0	0	0	0	0	0	0	1	14156	359	13	3		3	SETD2	3	47147559	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	203469	47147559	150874871	857	78022											
KIF9	64147	broad.mit.edu	37	chr3	47282448	47282448	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaattcggttgatctcactAccttgctcattcttaaactc	11	15	4	11	1	3	1	2	1	2	0	6	1	3	1	1	1	3	2	1	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:47282448A>G	uc010hjp.2	-	18	2371	c.1767T>C	c.(1765-1767)GGT>GGC	p.G589G	KIF9_uc003cqx.2_Silent_p.G589G|KIF9_uc003cqy.2_Silent_p.G524G|KIF9_uc011bat.1_RNA|uc003cqw.1_Intron	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	589					blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		TGATCTCACTACCTTGCTCAT	0.483													39	170					0	0	1	0	0		G	47282448	G	G	47282448	2	3	151	1	0	0	0	0	0	0	0	1	8326	378	14	3		3	KIF9	3	47282448	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	134889	47282448	150739982	858	78023											
KIF9	64147	broad.mit.edu	37	chr3	47318859	47318859	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatgaacttttttcctagtAcccattctagctaaaaagaa	14	13	5	9	0	1	2	0	1	1	1	2	2	2	2	2	0	3	3	2	0	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:47318859A>G	uc010hjp.2	-	3	610	c.6T>C	c.(4-6)GGT>GGC	p.G2G	KIF9_uc003cqx.2_Silent_p.G2G|KIF9_uc003cqy.2_Silent_p.G2G|KIF9_uc011bat.1_RNA|KIF9_uc011bau.1_RNA|KIF9_uc003cra.3_RNA	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	2	Kinesin-motor.				blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		TTTTCCTAGTACCCATTCTAG	0.373													17	76					0	0	1	0	0		G	47318859	G	G	47318859	2	3	151	1	0	0	0	0	0	0	0	1	8326	378	14	3		3	KIF9	3	47318859	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	36411	47318859	150703571	859	78024											
PTPN23	25930	broad.mit.edu	37	chr3	47450682	47450682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtgctgcaaaacctaaagCgcatcctggctaaggtgcag	11	7	11	12	2	0	0	0	0	0	0	1	0	1	0	3	2	5	5	3	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:47450682C>T	uc003crf.1	+	17	1768	c.1672C>T	c.(1672-1674)CGC>TGC	p.R558C	PTPN23_uc011baw.1_Missense_Mutation_p.R523C|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.R428C	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	558	Potential.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		AAACCTAAAGCGCATCCTGGC	0.607													13	64					0	0	1	0	0		T	47450682	T	T	47450682	3	4	151	1	0	0	0	0	1	0	0	0	12813	768	27	1	1738	1	PTPN23	3	47450682	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	131823	47450682	150571748	860	78025											
SCAP	22937	broad.mit.edu	37	chr3	47470135	47470135	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcacaaatatctgctggAcataagccaccggggcaccc	12	7	8	14	1	2	0	1	0	1	0	2	1	2	1	3	3	2	2	3	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:47470135A>G	uc003crh.1	-	4	533	c.278T>C	c.(277-279)GTC>GCC	p.V93A	SCAP_uc011baz.1_Intron|SCAP_uc003crg.2_Intron	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	93	Lumenal (By similarity).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		TATCTGCTGGACATAAGCCAC	0.512													28	119					0	0	1	0	0		G	47470135	G	G	47470135	3	3	151	1	0	0	0	0	1	0	0	0	13902	275	10	3	3641	3	SCAP	3	47470135	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	19453	47470135	150552295	861	78026											
SMARCC1	6599	broad.mit.edu	37	chr3	47651722	47651722	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctggccatgctgctgctgTtccatttgctgtcgtgctcg	2	16	11	12	2	1	0	0	0	1	0	4	0	2	0	2	1	5	6	2	1	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:47651722T>C	uc003crq.2	-	26	2995	c.2877A>G	c.(2875-2877)GAA>GAG	p.E959E	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Silent_p.E850E	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	959					chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		GCTGCTGCTGTTCCATTTGCT	0.552													67	300					0	0	1	0	0		C	47651722	C	C	47651722	2	2	151	1	0	0	0	0	0	0	0	1	14800	1722	60	3		3	SMARCC1	3	47651722	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	181587	47651722	150370708	862	78027											
SMARCC1	6599	broad.mit.edu	37	chr3	47747936	47747936	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccgtgattctgttggtgTcggagggggaggcgaaggcg	5	10	19	7	4	1	1	0	1	1	0	3	4	2	3	1	6	0	1	1	6	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:47747936T>C	uc003crq.2	-	10	1121	c.1003A>G	c.(1003-1005)ACA>GCA	p.T335A	SMARCC1_uc011bbd.1_Missense_Mutation_p.T226A	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	335	Poly-Pro.				chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		TCTGTTGGTGTCGGAGGGGGA	0.378													12	67					0	0	1	0	0		C	47747936	C	C	47747936	3	2	151	1	0	0	0	0	1	0	0	0	14800	1667	58	3	2390	3	SMARCC1	3	47747936	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	96214	47747936	150274494	863	78028											
DHX30	22907	broad.mit.edu	37	chr3	47887884	47887884	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtggacccacatcgggAcaccatcctcaacgccattg	10	7	8	16	2	1	0	1	0	0	0	3	2	2	2	5	2	1	0	5	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:47887884A>G	uc003cru.2	+	11	1748	c.1322A>G	c.(1321-1323)GAC>GGC	p.D441G	DHX30_uc003crt.2_Missense_Mutation_p.D402G	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	441						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		CCACATCGGGACACCATCCTC	0.662													18	64					0	0	1	0	0		G	47887884	G	G	47887884	3	3	151	1	0	0	0	0	1	0	0	0	4510	275	10	3	1367	3	DHX30	3	47887884	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	139948	47887884	150134546	864	78029											
DHX30	22907	broad.mit.edu	37	chr3	47889727	47889727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgatccagcgccggggcCgggcgggccgctgccagtcc	4	5	17	15	5	0	1	0	1	0	0	2	1	2	1	6	4	2	1	6	4	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:47889727C>T	uc003cru.2	+	15	2770	c.2344C>T	c.(2344-2346)CGG>TGG	p.R782W	DHX30_uc003crt.2_Missense_Mutation_p.R743W|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	782	Helicase C-terminal.					mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		gcgccggggccgggcgggccg	0.498													7	23					0	0	1	0	0		T	47889727	T	T	47889727	3	4	151	1	0	0	0	0	1	0	0	0	4510	643	23	1	2405	1	DHX30	3	47889727	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1843	47889727	150132703	865	78030											
COL7A1	1294	broad.mit.edu	37	chr3	48604159	48604159	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accactctctctccggggggAcctcgctcaccctgtcagac	6	8	9	18	2	4	1	2	0	2	1	7	2	4	2	4	3	0	1	4	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:48604159A>G	uc003ctz.2	-	111	8239	c.8238T>C	c.(8236-8238)GGT>GGC	p.G2746G	UCN2_uc003cty.1_5'Flank	NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2746	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CTCCGGGGGGACCTCGCTCAC	0.642													13	85					0	0	1	0	0		G	48604159	G	G	48604159	2	3	151	1	0	0	0	0	0	0	0	1	3707	262	10	3		3	COL7A1	3	48604159	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	714432	48604159	149418271	866	78031											
COL7A1	1294	broad.mit.edu	37	chr3	48630051	48630051	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgatgctgttggcgtagaGggcaatcacagtcacttggt	8	10	13	10	2	2	1	2	0	0	1	2	2	2	1	1	3	1	4	1	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:48630051G>T	uc003ctz.2	-	7	929	c.928C>A	c.(928-930)CTC>ATC	p.L310I		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	310	Nonhelical region (NC1).|Fibronectin type-III 1.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TTGGCGTAGAGGGCAATCACA	0.632													9	49					1.58986e-06	1.61756e-06	1	1	0		T	48630051	T	T	48630051	3	4	151	1	0	0	0	0	1	0	0	0	3707	1000	35	5	8354	5	COL7A1	3	48630051	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	25892	48630051	149392379	867	78032											
CELSR3	1951	broad.mit.edu	37	chr3	48691211	48691211	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccacggaaatggtggggAtgggccatagctgagtggat	9	9	17	6	1	0	1	0	1	0	0	0	4	0	4	2	6	2	1	2	6	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:48691211A>G	uc003cul.2	-	9	5570	c.5289T>C	c.(5287-5289)CAT>CAC	p.H1763H	CELSR3_uc003cuf.1_Silent_p.H1833H|CELSR3_uc010hkg.2_5'Flank	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1763	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AATGGTGGGGATGGGCCATAG	0.587													31	107					0	0	1	0	0		G	48691211	G	G	48691211	2	3	151	1	0	0	0	0	0	0	0	1	3226	330	12	3		3	CELSR3	3	48691211	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	61160	48691211	149331219	868	78033											
CELSR3	1951	broad.mit.edu	37	chr3	48696568	48696568	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggaagttgttgagcacaGggctgttgtcattctggtca	7	14	13	7	0	4	1	2	1	2	0	4	2	4	2	0	3	1	5	0	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:48696568G>T	uc003cul.2	-	1	3781	c.3500C>A	c.(3499-3501)CCT>CAT	p.P1167H	CELSR3_uc003cuf.1_Missense_Mutation_p.P1237H	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1167	Extracellular (Potential).|Cadherin 8.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GTTGAGCACAGGGCTGTTGTC	0.547													28	119					5.60225e-13	5.80974e-13	1	1	0		T	48696568	T	T	48696568	3	4	151	1	0	0	0	0	1	0	0	0	3226	1000	35	5	6578	5	CELSR3	3	48696568	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	5357	48696568	149325862	869	78034											
LAMB2	3913	broad.mit.edu	37	chr3	49161917	49161917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggttccagaagttgggggCacagcggtcacagctagggc	9	6	17	9	1	1	1	1	0	0	1	2	2	2	1	1	5	2	4	1	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:49161917C>T	uc003cwe.2	-	22	3537	c.3238G>A	c.(3238-3240)GCC>ACC	p.A1080T	LAMB2_uc003cwf.1_Missense_Mutation_p.A1080T	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1080	Laminin EGF-like 11.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		AAGTTGGGGGCACAGCGGTCA	0.647													13	31					0	0	1	0	0		T	49161917	T	T	49161917	3	4	151	1	0	0	0	0	1	0	0	0	8627	710	25	2	2202	2	LAMB2	3	49161917	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	465349	49161917	148860513	870	78035											
CCDC36	339834	broad.mit.edu	37	chr3	49249252	49249252	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatatcaaagagatgctcagTattccttcaggctctgggta	12	12	9	8	0	4	1	3	0	1	1	5	2	5	1	1	2	1	4	1	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:49249252T>C	uc003cwk.2	+	4	426	c.39T>C	c.(37-39)AGT>AGC	p.S13S	CCDC36_uc003cwl.3_Silent_p.S13S|CCDC36_uc011bck.1_Silent_p.S13S|CCDC36_uc010hkt.2_RNA	NM_178173	NP_835467	Q8IYA8	CCD36_HUMAN	coiled-coil domain containing 36	13										ovary(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(193;9.11e-05)|Kidney(197;0.00248)|KIRC - Kidney renal clear cell carcinoma(197;0.00262)		AGATGCTCAGTATTCCTTCAG	0.239													24	145					0	0	1	0	0		C	49249252	C	C	49249252	2	2	151	1	0	0	0	0	0	0	0	1	2811	1635	57	3		3	CCDC36	3	49249252	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	87335	49249252	148773178	871	78036											
BSN	8927	broad.mit.edu	37	chr3	49688405	49688405	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaagccacctccagagactAccccaacccctgcgactcct	10	5	6	20	2	0	1	0	0	0	1	2	4	2	1	8	0	4	0	8	0	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:49688405A>G	uc003cxe.3	+	4	1993	c.1879A>G	c.(1879-1881)ACC>GCC	p.T627A		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	627					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		TCCAGAGACTACCCCAACCCC	0.597													21	115					0	0	1	0	0		G	49688405	G	G	49688405	3	3	151	1	0	0	0	0	1	0	0	0	1533	391	14	3	1893	3	BSN	3	49688405	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	439153	49688405	148334025	872	78037											
BSN	8927	broad.mit.edu	37	chr3	49695210	49695210	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagggccaactgccatcAgcccctacctgcctggcatc	7	9	9	16	0	1	0	1	0	0	0	2	0	1	0	6	2	5	2	6	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:49695210A>G	uc003cxe.3	+	5	8335	c.8221A>G	c.(8221-8223)AGC>GGC	p.S2741G		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2741					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		AACTGCCATCAGCCCCTACCT	0.632													16	47					0	0	1	0	0		G	49695210	G	G	49695210	3	3	151	1	0	0	0	0	1	0	0	0	1533	188	7	3	8239	3	BSN	3	49695210	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6805	49695210	148327220	873	78038											
BSN	8927	broad.mit.edu	37	chr3	49700635	49700635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgccatgaggcccggcccCactctcagcccagctctgct	5	7	10	19	2	2	1	1	1	2	0	4	1	2	1	5	2	3	2	5	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:49700635C>T	uc003cxe.3	+	7	11158	c.11044C>T	c.(11044-11046)CAC>TAC	p.H3682Y		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	3682					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		GGCCCGGCCCCACTCTCAGCC	0.657													16	34					0	0	1	0	0		T	49700635	T	T	49700635	3	4	151	1	0	0	0	0	1	0	0	0	1533	594	21	4	11070	4	BSN	3	49700635	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5425	49700635	148321795	874	78039											
BSN	8927	broad.mit.edu	37	chr3	49701969	49701969	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcggggcagccgagcaaGctggcaaactgacggaaggt	10	4	17	10	3	0	1	0	1	0	0	0	3	0	2	1	6	4	4	1	6	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:49701969G>T	uc003cxe.3	+	9	11836	c.11722G>T	c.(11722-11724)GCT>TCT	p.A3908S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	3908					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		AGCCGAGCAAGCTGGCAAACT	0.632													16	71					5.03518e-11	5.19489e-11	1	1	0		T	49701969	T	T	49701969	3	4	151	1	0	0	0	0	1	0	0	0	1533	971	34	5	11756	5	BSN	3	49701969	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1334	49701969	148320461	875	78040											
RNF123	63891	broad.mit.edu	37	chr3	49737143	49737143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagctccaagtggcggttgCggggccagcccaccgtcctc	6	6	14	15	3	0	1	0	0	0	1	3	1	2	1	5	4	3	2	5	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:49737143C>T	uc003cxh.2	+	12	1008	c.922C>T	c.(922-924)CGG>TGG	p.R308W	RNF123_uc010hky.1_5'UTR|RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	308						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		GTGGCGGTTGCGGGGCCAGCC	0.657													15	48					0	0	1	0	0		T	49737143	T	T	49737143	3	4	151	1	0	0	0	0	1	0	0	0	13458	759	27	1	964	1	RNF123	3	49737143	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	35174	49737143	148285287	876	78041											
MST1R	4486	broad.mit.edu	37	chr3	49936349	49936349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaagacgactgacatccCgctgcacgggctgcccactg	8	5	10	18	3	0	2	0	1	0	1	1	3	1	2	4	1	2	3	4	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:49936349C>T	uc003cxy.3	-	3	1763	c.1499G>A	c.(1498-1500)CGG>CAG	p.R500Q	MST1R_uc011bdd.1_Missense_Mutation_p.R500Q|MST1R_uc011bde.1_Missense_Mutation_p.R500Q|MST1R_uc011bdf.1_Intron|MST1R_uc011bdc.1_5'Flank	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	500	Extracellular (Potential).|Sema.				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		ACTGACATCCCGCTGCACGGG	0.597													27	93					0	0	1	0	0		T	49936349	T	T	49936349	3	4	151	1	0	0	0	0	1	0	0	0	9909	652	23	1	2775	1	MST1R	3	49936349	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	199206	49936349	148086081	877	78042											
GNAT1	2779	broad.mit.edu	37	chr3	50231251	50231251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccgagcaggacgtgctgcGctcgcgagtcaagaccactg	9	5	13	14	5	1	1	1	0	0	1	2	4	1	2	2	1	3	3	2	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:50231251G>A	uc003cym.2	+	5	631	c.515G>A	c.(514-516)CGC>CAC	p.R172H	GNAT1_uc003cyl.2_Missense_Mutation_p.R172H	NM_144499	NP_653082	P11488	GNAT1_HUMAN	rod-type transducin alpha subunit	172	GTP (By similarity).				detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|negative regulation of cyclic-nucleotide phosphodiesterase activity|rhodopsin mediated phototransduction|sensory perception of umami taste	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	acyl binding|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GDP binding|GTP binding|GTPase activity|protein kinase binding|signal transducer activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		GACGTGCTGCGCTCGCGAGTC	0.652													12	42					0	0	1	0	0		A	50231251	A	A	50231251	3	1	151	1	0	0	0	0	1	0	0	0	6526	1087	38	1	533	1	GNAT1	3	50231251	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	294902	50231251	147791179	878	78043											
IFRD2	7866	broad.mit.edu	37	chr3	50326260	50326260	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcagcacggcgcggaaagTagagcgctggcgccgacgat	9	4	17	11	7	0	1	0	0	0	1	0	4	0	2	1	3	3	4	1	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:50326260T>C	uc011bdp.1	-	9	1315	c.1186A>G	c.(1186-1188)ACT>GCT	p.T396A	IFRD2_uc003czb.2_Missense_Mutation_p.T498A	NM_006764	NP_006755	Q12894	IFRD2_HUMAN	interferon-related developmental regulator 2	396							binding			lung(2)|ovary(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GCGCGGAAAGTAGAGCGCTGG	0.592													3	22					0	0	1	0	0		C	50326260	C	C	50326260	3	2	151	1	0	0	0	0	1	0	0	0	7570	1638	57	3	350	3	IFRD2	3	50326260	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	95009	50326260	147696170	879	78044											
HYAL1	3373	broad.mit.edu	37	chr3	50338063	50338063	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcgtgagctggatggagaAactggcagggttaaggagga	12	6	19	4	1	0	2	0	1	0	1	0	6	0	5	0	7	2	3	0	7	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:50338063A>G	uc003czp.2	-	4	1291	c.1159T>C	c.(1159-1161)TTC>CTC	p.F387L	HYAL3_uc003czc.1_5'Flank|HYAL3_uc003czd.1_5'Flank|HYAL3_uc003cze.1_5'Flank|HYAL3_uc003czf.1_5'Flank|HYAL3_uc003czg.1_5'Flank|NAT6_uc003czi.2_5'Flank|NAT6_uc003czj.2_5'Flank|NAT6_uc003czk.3_5'Flank|NAT6_uc003czl.1_5'Flank|HYAL1_uc003czm.2_Missense_Mutation_p.F205L|HYAL1_uc003czo.2_Missense_Mutation_p.F128L|HYAL1_uc003czq.2_Missense_Mutation_p.F357L|HYAL1_uc003czr.2_Missense_Mutation_p.F387L|HYAL1_uc003czn.2_Missense_Mutation_p.F48L|HYAL1_uc003czs.2_Missense_Mutation_p.F387L|HYAL1_uc003czt.2_3'UTR	NM_033159	NP_149349	Q12794	HYAL1_HUMAN	hyaluronoglucosaminidase 1 isoform 1	387	EGF-like.					extracellular space|lysosome	hyalurononglucosaminidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)	Hyaluronidase(DB00070)	TGGATGGAGAAACTGGCAGGG	0.632													10	41					0	0	1	0	0		G	50338063	G	G	50338063	3	3	151	1	0	0	0	0	1	0	0	0	7479	14	1	3	152	3	HYAL1	3	50338063	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	11803	50338063	147684367	880	78045											
HYAL2	8692	broad.mit.edu	37	chr3	50357862	50357862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgggcttgagctccatgGcccatgacaccgccagcacc	7	7	11	16	1	0	2	0	2	0	0	1	2	1	2	5	2	2	3	5	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:50357862G>A	uc003czu.2	-	2	279	c.59C>T	c.(58-60)GCC>GTC	p.A20V	HYAL2_uc003czx.2_Missense_Mutation_p.A20V|HYAL2_uc003czv.2_Missense_Mutation_p.A20V|HYAL2_uc003czw.2_Missense_Mutation_p.A20V|HYAL2_uc010hlj.2_Missense_Mutation_p.A20V	NM_033158	NP_149348	Q12891	HYAL2_HUMAN	hyaluronoglucosaminidase 2 precursor	20						anchored to membrane|lysosome|plasma membrane	hyalurononglucosaminidase activity|receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)	Hyaluronidase(DB00070)	GAGCTCCATGGCCCATGACAC	0.667													4	8					0	0	1	0	0		A	50357862	A	A	50357862	3	1	151	1	0	0	0	0	1	0	0	0	7480	1203	42	2	1374	2	HYAL2	3	50357862	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	19799	50357862	147664568	881	78046											
CACNA2D2	9254	broad.mit.edu	37	chr3	50416569	50416569	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagacgtcctgcacgcggTcctcaccaccatccgtgaac	10	6	8	17	4	1	2	1	1	0	1	4	2	4	2	5	1	2	1	5	1	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:50416569T>C	uc003daq.2	-	12	1252	c.1214A>G	c.(1213-1215)GAC>GGC	p.D405G	CACNA2D2_uc003dap.2_Missense_Mutation_p.D405G	NM_006030	NP_006021	Q9NY47	CA2D2_HUMAN	calcium channel, voltage-dependent, alpha	405	VWFA.|Extracellular (Potential).				energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000365)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)	Gabapentin(DB00996)	CTGCACGCGGTCCTCACCACC	0.592													14	60					0	0	1	0	0		C	50416569	C	C	50416569	3	2	151	1	0	0	0	0	1	0	0	0	2552	1667	58	3	2356	3	CACNA2D2	3	50416569	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	58707	50416569	147605861	882	78047											
RBM15B	29890	broad.mit.edu	37	chr3	51430017	51430017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcccatagggctaaggtggCcatgtcgggccgagtgattg	7	8	17	9	2	0	1	0	1	0	0	1	2	0	1	3	5	0	1	3	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:51430017C>T	uc003dbd.2	+	1	1287	c.1187C>T	c.(1186-1188)GCC>GTC	p.A396V		NM_013286	NP_037418	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	396	RRM 2.				interspecies interaction between organisms|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleoplasm	nucleotide binding|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GCTAAGGTGGCCATGTCGGGC	0.607													9	53					0	0	1	0	0		T	51430017	T	T	51430017	3	4	151	1	0	0	0	0	1	0	0	0	13142	739	26	2	1189	2	RBM15B	3	51430017	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1013448	51430017	146592413	883	78048											
TLR9	54106	broad.mit.edu	37	chr3	52256132	52256132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtcttgagggcgttggCgctaaggttgagctctcgca	6	11	14	10	3	2	2	0	2	2	0	3	2	2	2	0	3	1	5	0	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:52256132C>T	uc003dda.1	-	2	2834	c.2200G>A	c.(2200-2202)GCC>ACC	p.A734T	TLR9_uc003ddb.2_Missense_Mutation_p.A831T	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	734	LRR 25.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	AGGGCGTTGGCGCTAAGGTTG	0.617													26	89					0	0	1	0	0		T	52256132	T	T	52256132	3	4	151	1	0	0	0	0	1	0	0	0	15983	768	27	1	902	1	TLR9	3	52256132	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	826115	52256132	145766298	884	78049											
TLR9	54106	broad.mit.edu	37	chr3	52257592	52257592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgcccacatcgagcacaCgcagggcggtcagattggcc	8	6	12	15	4	1	1	1	0	0	1	3	2	2	1	3	3	1	2	3	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:52257592C>T	uc003dda.1	-	2	1374	c.740G>A	c.(739-741)CGT>CAT	p.R247H	TLR9_uc003ddb.2_Missense_Mutation_p.R344H	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	247	LRR 8.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	ATCGAGCACACGCAGGGCGGT	0.627													10	24					0	0	1	0	0		T	52257592	T	T	52257592	3	4	151	1	0	0	0	0	1	0	0	0	15983	536	19	1	2362	1	TLR9	3	52257592	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1460	52257592	145764838	885	78050											
TLR9	54106	broad.mit.edu	37	chr3	52258032	52258032	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatggggctgaggccaacCggcgggcagttccacttgag	7	7	16	11	2	0	2	0	2	0	0	1	2	1	2	3	5	2	4	3	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:52258032C>T	uc003dda.1	-	2	934	c.300G>A	c.(298-300)CCG>CCA	p.P100P	TLR9_uc003ddb.2_Silent_p.P197P|TLR9_uc003ddc.1_Silent_p.P85P	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	100	LRR 2.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	TGAGGCCAACCGGCGGGCAGT	0.597													19	79					0	0	1	0	0		T	52258032	T	T	52258032	2	4	151	1	0	0	0	0	0	0	0	1	15983	639	23	1		1	TLR9	3	52258032	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	440	52258032	145764398	886	78051											
TWF2	11344	broad.mit.edu	37	chr3	52265209	52265209	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcaggtgccgcacaggaCgacaggtgtttctggtaccc	7	7	16	11	2	1	0	0	0	1	0	1	2	1	1	2	6	2	4	2	6	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:52265209C>T	uc003ddd.2	-	5	568	c.417G>A	c.(415-417)TCG>TCA	p.S139S	TLR9_uc003ddb.2_5'UTR|TLR9_uc003ddc.1_5'Flank|TWF2_uc010hmc.2_Silent_p.S139S	NM_007284	NP_009215	Q6IBS0	TWF2_HUMAN	twinfilin-like protein	139	ADF-H 1.					cytoskeleton|perinuclear region of cytoplasm	actin binding|ATP binding			stomach(1)|ovary(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;2.43e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CCGCACAGGACGACAGGTGTT	0.622													21	116					0	0	1	0	0		T	52265209	T	T	52265209	2	4	151	1	0	0	0	0	0	0	0	1	16808	523	19	1		1	TWF2	3	52265209	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	7177	52265209	145757221	887	78052											
BAP1	8314	broad.mit.edu	37	chr3	52439911	52439911	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtctgaatcagctctggCtgtgttactcttatcagcta	7	15	10	9	0	5	1	2	1	3	0	5	1	5	1	0	2	3	4	0	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:52439911C>T	uc003ddx.2	-	10	916	c.801G>A	c.(799-801)CAG>CAA	p.Q267Q	BAP1_uc003ddw.2_5'Flank|BAP1_uc010hmg.2_5'Flank|BAP1_uc010hmh.2_5'Flank	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	267					monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		TCAGCTCTGGCTGTGTTACTC	0.527			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								14	55					0	0	1	0	0		T	52439911	T	T	52439911	2	4	151	1	0	0	0	0	0	0	0	1	1312	796	28	2		2	BAP1	3	52439911	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	174702	52439911	145582519	888	78053											
SEMA3G	56920	broad.mit.edu	37	chr3	52469661	52469661	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtccgattgtgctcggcAtgcacccggctcttcatctt	4	12	11	14	4	3	0	1	0	2	0	5	1	4	0	2	3	2	4	2	3	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:52469661A>G	uc003dea.1	-	16	2307	c.2307T>C	c.(2305-2307)CAT>CAC	p.H769H		NM_020163	NP_064548	Q9NS98	SEM3G_HUMAN	semaphorin sem2 precursor	769					multicellular organismal development	extracellular region|membrane	receptor activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00173)|KIRC - Kidney renal clear cell carcinoma(197;0.00196)|OV - Ovarian serous cystadenocarcinoma(275;0.0333)		TGTGCTCGGCATGCACCCGGC	0.687													17	125					0	0	1	0	0		G	52469661	G	G	52469661	2	3	151	1	0	0	0	0	0	0	0	1	14055	214	8	3		3	SEMA3G	3	52469661	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	29750	52469661	145552769	889	78054											
SEMA3G	56920	broad.mit.edu	37	chr3	52475363	52475363	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtctccgagaagaagaagtAcaccttgtcattgtcctggt	10	11	10	10	2	2	3	1	0	1	3	4	4	3	3	3	1	1	1	3	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:52475363A>G	uc003dea.1	-	7	730	c.730T>C	c.(730-732)TAC>CAC	p.Y244H		NM_020163	NP_064548	Q9NS98	SEM3G_HUMAN	semaphorin sem2 precursor	244	Sema.				multicellular organismal development	extracellular region|membrane	receptor activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00173)|KIRC - Kidney renal clear cell carcinoma(197;0.00196)|OV - Ovarian serous cystadenocarcinoma(275;0.0333)		AAGAAGAAGTACACCTTGTCA	0.632													12	64					0	0	1	0	0		G	52475363	G	G	52475363	3	3	151	1	0	0	0	0	1	0	0	0	14055	391	14	3	1658	3	SEMA3G	3	52475363	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5702	52475363	145547067	890	78055											
TNNC1	7134	broad.mit.edu	37	chr3	52485421	52485421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttaccatcatagtcgatgCggccgtcgttgttcttgtct	5	15	10	11	4	3	0	1	0	2	0	5	1	3	0	2	1	2	3	2	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:52485421C>T	uc003deb.2	-	5	466	c.440G>A	c.(439-441)CGC>CAC	p.R147H		NM_003280	NP_003271	P63316	TNNC1_HUMAN	troponin C, slow	147	3.|EF-hand 4.				cardiac muscle contraction|muscle filament sliding|regulation of ATPase activity|regulation of muscle filament sliding speed|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin filament binding|calcium ion binding|calcium-dependent protein binding|protein homodimerization activity|troponin I binding|troponin T binding				0				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00175)|KIRC - Kidney renal clear cell carcinoma(197;0.00198)|OV - Ovarian serous cystadenocarcinoma(275;0.0525)	Bepridil(DB01244)|Dihydroxyaluminium(DB01375)|Levosimendan(DB00922)	ATAGTCGATGCGGCCGTCGTT	0.592													16	28					0	0	1	0	0		T	52485421	T	T	52485421	3	4	151	1	0	0	0	0	1	0	0	0	16349	768	27	1	53	1	TNNC1	3	52485421	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	10058	52485421	145537009	891	78056											
NT5DC2	64943	broad.mit.edu	37	chr3	52563198	52563198	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcaggatgtcacgggcggTactgaagatctcggggtgca	9	8	16	8	3	3	2	2	1	1	1	4	4	3	3	0	5	2	2	0	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:52563198T>C	uc003deo.2	-	2	698	c.274A>G	c.(274-276)ACC>GCC	p.T92A	NT5DC2_uc003dem.2_5'Flank|NT5DC2_uc003den.2_Missense_Mutation_p.T129A|NT5DC2_uc010hmi.2_Missense_Mutation_p.T129A|NT5DC2_uc010hmj.2_5'UTR	NM_022908	NP_075059	Q9H857	NT5D2_HUMAN	5'-nucleotidase domain containing 2 isoform 2	92							hydrolase activity|metal ion binding				0				BRCA - Breast invasive adenocarcinoma(193;1.7e-05)|Kidney(197;0.00177)|KIRC - Kidney renal clear cell carcinoma(197;0.002)|OV - Ovarian serous cystadenocarcinoma(275;0.0476)		TCACGGGCGGTACTGAAGATC	0.587													18	67					0	0	1	0	0		C	52563198	C	C	52563198	3	2	151	1	0	0	0	0	1	0	0	0	10710	1638	57	3	1340	3	NT5DC2	3	52563198	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	77777	52563198	145459232	892	78057											
PBRM1	55193	broad.mit.edu	37	chr3	52637747	52637747	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatatatttctgaatctgTcctataacagcatcaagagt	13	15	5	8	0	4	2	2	1	2	1	5	2	5	2	1	0	2	1	1	0	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:52637747T>C	uc003des.2	-	17	2581	c.2569A>G	c.(2569-2571)ACA>GCA	p.T857A	PBRM1_uc003dex.2_Intron|PBRM1_uc003deq.2_Missense_Mutation_p.T857A|PBRM1_uc003der.2_Missense_Mutation_p.T825A|PBRM1_uc003det.2_Missense_Mutation_p.T872A|PBRM1_uc003deu.2_Missense_Mutation_p.T872A|PBRM1_uc003dev.2_Intron|PBRM1_uc003dew.2_Missense_Mutation_p.T857A|PBRM1_uc010hmk.1_Missense_Mutation_p.T857A|PBRM1_uc003dey.2_Missense_Mutation_p.T857A|PBRM1_uc003dez.1_Missense_Mutation_p.T857A|PBRM1_uc003dfb.1_Missense_Mutation_p.T770A|PBRM1_uc003dfa.1_Missense_Mutation_p.T203A	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	857	Bromo 6.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TCTGAATCTGTCCTATAACAG	0.308			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								10	40					0	0	1	0	0		C	52637747	C	C	52637747	3	2	151	1	0	0	0	0	1	0	0	0	11510	1681	58	3	2387	3	PBRM1	3	52637747	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	74549	52637747	145384683	893	78058											
NEK4	6787	broad.mit.edu	37	chr3	52777458	52777458	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctgctacactcagagaCgctttcctcactgaagggcc	8	8	10	15	1	2	2	2	1	0	1	3	3	3	2	3	2	2	2	3	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:52777458C>T	uc003dfq.3	-	12	2103	c.1914G>A	c.(1912-1914)GCG>GCA	p.A638A	NEK4_uc011bej.1_Silent_p.A549A|NEK4_uc003dfr.2_Silent_p.A592A	NM_003157	NP_003148	P51957	NEK4_HUMAN	NIMA-related kinase 4	638					cell division|mitosis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.44e-05)|Kidney(197;0.000711)|KIRC - Kidney renal clear cell carcinoma(197;0.00086)|OV - Ovarian serous cystadenocarcinoma(275;0.0513)		CACTCAGAGACGCTTTCCTCA	0.542													34	165					0	0	1	0	0		T	52777458	T	T	52777458	2	4	151	1	0	0	0	0	0	0	0	1	10345	523	19	1		1	NEK4	3	52777458	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	139711	52777458	145244972	894	78059											
ITIH1	3697	broad.mit.edu	37	chr3	52823759	52823759	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgggcggctgggaatcgcaaAccctgccacggactttcagt	8	7	13	13	4	1	0	1	0	0	0	2	2	1	2	2	4	2	2	2	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:52823759A>G	uc003dfs.2	+	19	2234	c.2210A>G	c.(2209-2211)AAC>AGC	p.N737S	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Missense_Mutation_p.N338S|ITIH1_uc010hmo.1_Missense_Mutation_p.N291S|ITIH1_uc003dfu.2_Missense_Mutation_p.N103S	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	737	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		GGAATCGCAAACCCTGCCACG	0.577													20	126					0	0	1	0	0		G	52823759	G	G	52823759	3	3	151	1	0	0	0	0	1	0	0	0	7919	43	2	3	2284	3	ITIH1	3	52823759	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	46301	52823759	145198671	895	78060											
CACNA1D	776	broad.mit.edu	37	chr3	53694220	53694220	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaggcgggaaccactcaagCggcaaatctggaggctttga	12	6	14	9	2	2	1	1	1	1	0	2	4	2	3	1	5	2	2	1	5	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:53694220C>T	uc003dgv.3	+	5	847	c.684C>T	c.(682-684)AGC>AGT	p.S228S	CACNA1D_uc003dgu.3_Silent_p.S228S|CACNA1D_uc003dgy.3_Silent_p.S228S	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	228	Extracellular (Potential).|I.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	ACCACTCAAGCGGCAAATCTG	0.433													29	79					0	0	1	0	0		T	53694220	T	T	53694220	2	4	151	1	0	0	0	0	0	0	0	1	2544	767	27	1		1	CACNA1D	3	53694220	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	870461	53694220	144328210	896	78061											
CACNA1D	776	broad.mit.edu	37	chr3	53844236	53844236	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccgacatctcctaccggActttcacaccagccagcctg	9	7	7	18	2	2	0	1	0	1	0	3	2	2	1	6	1	4	0	6	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:53844236A>G	uc003dgv.3	+	47	6266	c.6103A>G	c.(6103-6105)ACT>GCT	p.T2035A	CACNA1D_uc003dgu.3_Missense_Mutation_p.T2055A|CACNA1D_uc003dgy.3_Missense_Mutation_p.T2011A|CACNA1D_uc003dgw.3_Missense_Mutation_p.T1702A|CACNA1D_uc011bes.1_RNA	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	2035	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	CTCCTACCGGACTTTCACACC	0.617													12	52					0	0	1	0	0		G	53844236	G	G	53844236	3	3	151	1	0	0	0	0	1	0	0	0	2544	275	10	3	6461	3	CACNA1D	3	53844236	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	150016	53844236	144178194	897	78062											
CHDH	55349	broad.mit.edu	37	chr3	53851805	53851805	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctccagcagcaactgtctTagcgctgggtggccagcgtc	6	9	12	14	2	1	0	0	0	1	0	4	0	3	0	3	2	5	3	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:53851805T>C	uc003dgz.2	-	9	2224	c.1784A>G	c.(1783-1785)TAA>TGA	p.*595*		NM_018397	NP_060867	Q8NE62	CHDH_HUMAN	choline dehydrogenase precursor	595					alcohol metabolic process		choline dehydrogenase activity|flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		Hepatocellular(537;0.152)		BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)	Choline(DB00122)	GCAACTGTCTTAGCGCTGGGT	0.582													6	39					0	0	1	0	0		C	53851805	C	C	53851805	2	2	151	1	0	0	0	0	0	0	0	1	3336	1761	61	3		3	CHDH	3	53851805	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	7569	53851805	144170625	898	78063											
CHDH	55349	broad.mit.edu	37	chr3	53856520	53856520	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgcagtccactcacccTgtggctctggccattcttga	6	11	9	15	0	3	1	1	1	2	0	4	1	4	1	3	2	2	3	3	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:53856520T>C	uc003dgz.2	-	4	1293	c.853A>G	c.(853-855)AGG>GGG	p.R285G		NM_018397	NP_060867	Q8NE62	CHDH_HUMAN	choline dehydrogenase precursor	285					alcohol metabolic process		choline dehydrogenase activity|flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		Hepatocellular(537;0.152)		BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)	Choline(DB00122)	CCACTCACCCTGTGGCTCTGG	0.637													18	48					0	0	1	0	0		C	53856520	C	C	53856520	3	2	151	1	0	0	0	0	1	0	0	0	3336	1579	55	3	955	3	CHDH	3	53856520	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4715	53856520	144165910	899	78064											
CACNA2D3	55799	broad.mit.edu	37	chr3	54661852	54661852	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaacttttcgccaaaggAattggaatgttggatatagc	14	11	10	6	1	0	0	0	0	0	0	1	4	0	3	1	3	2	1	1	3	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:54661852A>G	uc003dhf.2	+	10	1050	c.1002A>G	c.(1000-1002)GGA>GGG	p.G334G	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Silent_p.G240G|CACNA2D3_uc003dhh.1_RNA|CACNA2D3_uc010hmv.1_Silent_p.G68G	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	334	Extracellular (Potential).|VWFA.					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		TCGCCAAAGGAATTGGAATGT	0.423													7	20					0	0	1	0	0		G	54661852	G	G	54661852	2	3	151	1	0	0	0	0	0	0	0	1	2553	233	9	3		3	CACNA2D3	3	54661852	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	805332	54661852	143360578	900	78065											
CACNA2D3	55799	broad.mit.edu	37	chr3	54919520	54919520	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgtcatgttcttaggtccTactgcaacactgacctacac	10	12	6	13	0	2	1	1	1	1	0	3	1	3	1	2	1	4	2	2	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:54919520T>C	uc003dhf.2	+	23	2011	c.1963T>C	c.(1963-1965)TAC>CAC	p.Y655H	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Missense_Mutation_p.Y561H|CACNA2D3_uc003dhh.1_RNA|CACNA2D3_uc010hmv.1_Missense_Mutation_p.Y389H|uc003dhk.1_Intron	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	655	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		TCTTAGGTCCTACTGCAACAC	0.473													4	35					0	0	1	0	0		C	54919520	C	C	54919520	3	2	151	1	0	0	0	0	1	0	0	0	2553	1522	53	3	2053	3	CACNA2D3	3	54919520	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	257668	54919520	143102910	901	78066											
LRTM1	57408	broad.mit.edu	37	chr3	54959015	54959015	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaattgttggacaagtttaAggtcatgagccatggcactg	11	11	13	6	0	1	1	1	1	0	0	1	3	1	3	1	4	1	3	1	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:54959015A>G	uc003dhl.2	-	2	369	c.235T>C	c.(235-237)TTA>CTA	p.L79L	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	79	Extracellular (Potential).|LRR 2.					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		GACAAGTTTAAGGTCATGAGC	0.443													17	56					0	0	1	0	0		G	54959015	G	G	54959015	2	3	151	1	0	0	0	0	0	0	0	1	9062	69	3	3		3	LRTM1	3	54959015	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	39495	54959015	143063415	902	78067											
WNT5A	7474	broad.mit.edu	37	chr3	55513396	55513396	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacagtgctgcagttccAccttcgatgtcggaattgat	9	12	9	11	2	0	1	0	1	0	0	4	3	2	2	3	1	2	3	3	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:55513396A>G	uc003dhn.2	-	3	655	c.337T>C	c.(337-339)TGG>CGG	p.W113R	WNT5A_uc003dhm.2_Missense_Mutation_p.W98R|WNT5A_uc010hmw.2_Missense_Mutation_p.W98R|WNT5A_uc010hmx.2_Missense_Mutation_p.W24R	NM_003392	NP_003383	P41221	WNT5A_HUMAN	wingless-type MMTV integration site family,	113					activation of JUN kinase activity|activation of protein kinase B activity|axon guidance|cartilage development|cellular protein localization|cellular response to calcium ion|cellular response to interferon-gamma|cellular response to lipopolysaccharide|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|cervix development|cochlea morphogenesis|convergent extension involved in organogenesis|dopaminergic neuron differentiation|dorsal/ventral axis specification|embryonic digit morphogenesis|embryonic skeletal system development|epithelial cell proliferation involved in mammary gland duct elongation|epithelial to mesenchymal transition|face development|genitalia development|heart looping|hemopoietic stem cell proliferation|keratinocyte differentiation|lateral sprouting involved in mammary gland duct morphogenesis|lens development in camera-type eye|male gonad development|mammary gland branching involved in thelarche|negative regulation of apoptosis|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of mesenchymal cell proliferation|negative regulation of transcription, DNA-dependent|neural tube closure|olfactory bulb interneuron development|optic cup formation involved in camera-type eye development|palate development|positive regulation of angiogenesis|positive regulation of cartilage development|positive regulation of cGMP metabolic process|positive regulation of chemokine biosynthetic process|positive regulation of cytokine secretion involved in immune response|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of macrophage activation|positive regulation of macrophage cytokine production|positive regulation of mesenchymal cell proliferation|positive regulation of neuron projection development|positive regulation of NF-kappaB transcription factor activity|positive regulation of ossification|positive regulation of protein catabolic process|positive regulation of protein kinase C signaling cascade|positive regulation of T cell chemotaxis|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|primitive streak formation|regulation of branching involved in mammary gland duct morphogenesis|somitogenesis|tail morphogenesis|type B pancreatic cell development|urinary bladder development|uterus development|vagina development|Wnt receptor signaling pathway, calcium modulating pathway|wound healing	extracellular space|membrane fraction|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|receptor tyrosine kinase-like orphan receptor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.00377)|Kidney(284;0.00408)|OV - Ovarian serous cystadenocarcinoma(275;0.204)		CTGCAGTTCCACCTTCGATGT	0.413													24	83					0	0	1	0	0		G	55513396	G	G	55513396	3	3	151	1	0	0	0	0	1	0	0	0	17417	159	6	3	817	3	WNT5A	3	55513396	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	554381	55513396	142509034	903	78068											
C3orf63	23272	broad.mit.edu	37	chr3	56681185	56681185	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaattgtaaaaactgagctAtttttaatacatctggcatg	16	14	6	5	0	1	1	0	1	1	0	1	1	1	1	0	1	3	3	0	1	8	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:56681185A>G	uc003did.3	-	14	1681	c.1580T>C	c.(1579-1581)ATA>ACA	p.I527T	C3orf63_uc003dic.3_Missense_Mutation_p.I131T|C3orf63_uc003die.3_Missense_Mutation_p.I527T	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	527										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		AAACTGAGCTATTTTTAATAC	0.333													29	135					0	0	1	0	0		G	56681185	G	G	56681185	3	3	151	1	0	0	0	0	1	0	0	0	2242	449	16	3	3536	3	C3orf63	3	56681185	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1167789	56681185	141341245	904	78069											
APPL1	26060	broad.mit.edu	37	chr3	57294173	57294173	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccacagacacaagttacaAggctcacggtgagttccaca	14	7	8	12	1	1	2	1	1	0	1	3	2	3	2	2	2	1	3	2	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:57294173A>G	uc003dio.2	+	18	1834	c.1687A>G	c.(1687-1689)AGG>GGG	p.R563G	APPL1_uc010hnb.2_Missense_Mutation_p.R563G|APPL1_uc011bey.1_Missense_Mutation_p.R546G	NM_012096	NP_036228	Q9UKG1	DP13A_HUMAN	adaptor protein, phosphotyrosine interaction, PH	563	PID.				apoptosis|cell cycle|cell proliferation|insulin receptor signaling pathway|regulation of apoptosis|regulation of establishment of protein localization in plasma membrane|regulation of glucose import	cytosol|early endosome membrane|microsome|nucleus|vesicle membrane	protein kinase B binding			breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0124)|Kidney(284;0.0144)		ACAAGTTACAAGGCTCACGGT	0.294													4	75					0	0	1	0	0		G	57294173	G	G	57294173	3	3	151	1	0	0	0	0	1	0	0	0	817	63	3	3	1757	3	APPL1	3	57294173	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	612988	57294173	140728257	905	78070											
FLNB	2317	broad.mit.edu	37	chr3	58110079	58110079	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgttccgggaagctaccAccgactttacagttgactct	9	12	9	11	2	1	1	0	1	1	0	2	3	2	2	3	1	3	3	3	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:58110079A>G	uc003djj.2	+	22	3910	c.3745A>G	c.(3745-3747)ACC>GCC	p.T1249A	FLNB_uc010hne.2_Missense_Mutation_p.T1249A|FLNB_uc003djk.2_Missense_Mutation_p.T1249A|FLNB_uc010hnf.2_Missense_Mutation_p.T1249A|FLNB_uc003djl.2_Missense_Mutation_p.T1080A|FLNB_uc003djm.2_Missense_Mutation_p.T1080A	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1249	Filamin 11.|Interaction with FBLP1.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		GGAAGCTACCACCGACTTTAC	0.572													15	91					0	0	1	0	0		G	58110079	G	G	58110079	3	3	151	1	0	0	0	0	1	0	0	0	5948	159	6	3	3831	3	FLNB	3	58110079	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	815906	58110079	139912351	906	78071											
FLNB	2317	broad.mit.edu	37	chr3	58131754	58131754	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaactgccaccttcaccatCgtcacagaggatgcaggaga	14	6	9	12	1	2	2	2	0	0	2	3	4	2	3	3	2	3	1	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:58131754C>T	uc003djj.2	+	33	5697	c.5532C>T	c.(5530-5532)ATC>ATT	p.I1844I	FLNB_uc010hne.2_Silent_p.I1875I|FLNB_uc003djk.2_Silent_p.I1833I|FLNB_uc010hnf.2_Silent_p.I1820I|FLNB_uc003djl.2_Silent_p.I1664I|FLNB_uc003djm.2_Silent_p.I1651I	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1844	Filamin 17.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		CCTTCACCATCGTCACAGAGG	0.527													26	86					0	0	1	0	0		T	58131754	T	T	58131754	2	4	151	1	0	0	0	0	0	0	0	1	5948	874	31	1		1	FLNB	3	58131754	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	21675	58131754	139890676	907	78072											
ABHD6	57406	broad.mit.edu	37	chr3	58260523	58260523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagctctgctcctatgtccGcttcaaggtgccccagcagg	6	10	10	15	1	3	0	2	0	1	0	5	0	5	0	4	2	4	4	4	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:58260523G>A	uc003djs.3	+	6	1072	c.662G>A	c.(661-663)CGC>CAC	p.R221H	ABHD6_uc003djr.2_Missense_Mutation_p.R221H|ABHD6_uc003djt.3_Missense_Mutation_p.R221H	NM_020676	NP_065727	Q9BV23	ABHD6_HUMAN	abhydrolase domain containing 6	221	Cytoplasmic (Potential).					integral to membrane	acylglycerol lipase activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(55;0.000225)|KIRC - Kidney renal clear cell carcinoma(284;0.0471)|Kidney(284;0.0589)|OV - Ovarian serous cystadenocarcinoma(275;0.209)		TCCTATGTCCGCTTCAAGGTG	0.587													48	177					0	0	1	0	0		A	58260523	A	A	58260523	3	1	151	1	0	0	0	0	1	0	0	0	86	1087	38	1	680	1	ABHD6	3	58260523	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	128769	58260523	139761907	908	78073											
FAM3D	131177	broad.mit.edu	37	chr3	58639425	58639425	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagcgtggcagacggatggTtttcatgctgaagctcatgt	8	11	13	9	2	2	2	2	1	0	1	2	3	2	3	1	3	3	4	1	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:58639425T>C	uc003dkq.2	-	3	394	c.97A>G	c.(97-99)ACC>GCC	p.T33A		NM_138805	NP_620160	Q96BQ1	FAM3D_HUMAN	family with sequence similarity 3, member D	33					negative regulation of insulin secretion	extracellular region	cytokine activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000225)|Kidney(10;0.000667)|KIRC - Kidney renal clear cell carcinoma(10;0.000802)|OV - Ovarian serous cystadenocarcinoma(275;0.169)		AGACGGATGGTTTTCATGCTG	0.572													42	156					0	0	1	0	0		C	58639425	C	C	58639425	3	2	151	1	0	0	0	0	1	0	0	0	5573	1725	60	3	609	3	FAM3D	3	58639425	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	378902	58639425	139383005	909	78074											
C3orf67	200844	broad.mit.edu	37	chr3	58870331	58870331	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagtttggcgaagtttagTcatgtttagcagctgtgtga	8	16	12	5	1	2	1	2	1	0	0	2	2	2	1	0	1	2	5	0	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:58870331T>C	uc003dkt.1	-	7	689	c.280A>G	c.(280-282)ACT>GCT	p.T94A	uc003dku.1_Intron|C3orf67_uc003dkv.1_5'UTR|C3orf67_uc003dkw.2_Missense_Mutation_p.T2A	NM_198463	NP_940865	Q6ZVT6	CC067_HUMAN	hypothetical protein LOC200844	94											0		all_cancers(2;0.000156)|all_epithelial(2;0.000493)|Breast(2;0.00446)|all_lung(2;0.074)|Lung NSC(2;0.248)		BRCA - Breast invasive adenocarcinoma(55;5.93e-06)|Kidney(10;0.00155)|KIRC - Kidney renal clear cell carcinoma(10;0.00172)|OV - Ovarian serous cystadenocarcinoma(275;0.23)		CGAAGTTTAGTCATGTTTAGC	0.373													48	224					0	0	1	0	0		C	58870331	C	C	58870331	3	2	151	1	0	0	0	0	1	0	0	0	2244	1667	58	3	1451	3	C3orf67	3	58870331	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	230906	58870331	139152099	910	78075											
PTPRG	5793	broad.mit.edu	37	chr3	61975397	61975397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accagtatgcgcgtgttgggGaagaataccaggaactgcaa	13	7	13	8	2	0	1	0	0	0	1	0	3	0	3	2	3	4	3	2	3	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:61975397G>A	uc003dlb.2	+	3	1008	c.289G>A	c.(289-291)GAA>AAA	p.E97K	PTPRG_uc003dlc.2_Missense_Mutation_p.E97K	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	97	Extracellular (Potential).|Alpha-carbonic anhydrase.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		GCGTGTTGGGGAAGAATACCA	0.488													20	74					0	0	1	0	0		A	61975397	A	A	61975397	3	1	151	1	0	0	0	0	1	0	0	0	12827	1175	41	4	299	4	PTPRG	3	61975397	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3105066	61975397	136047033	911	78076											
CADPS	8618	broad.mit.edu	37	chr3	62452032	62452032	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctttgcaaccaagagtgtTatcatttctttaacagtttc	11	16	5	9	0	2	1	1	0	1	1	3	1	2	1	2	0	3	3	2	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:62452032T>A	uc003dll.2	-	25	3894	c.3534A>T	c.(3532-3534)ATA>ATT	p.I1178I	CADPS_uc003dlj.1_Silent_p.I133I|CADPS_uc003dlk.1_Silent_p.I626I|CADPS_uc003dlm.2_Silent_p.I1139I|CADPS_uc003dln.2_Silent_p.I1099I	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	1178	Mediates targeting and association with DCVs (By similarity).				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		CCAAGAGTGTTATCATTTCTT	0.338													19	55					0	0	1	0	0		A	62452032	A	A	62452032	2	1	151	1	0	0	0	0	0	0	0	1	2573	1744	61	5		5	CADPS	3	62452032	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	476635	62452032	135570398	912	78077											
THOC7	80145	broad.mit.edu	37	chr3	63824156	63824156	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgagacagcgtgctcagcaTacgttggtactggctatatc	9	12	11	9	2	1	1	1	1	0	1	2	2	1	1	0	2	5	5	0	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:63824156T>C	uc003dlt.3	-	3	288	c.157A>G	c.(157-159)ATG>GTG	p.M53V	C3orf49_uc003dls.3_Intron|THOC7_uc003dlu.3_5'UTR	NM_025075	NP_079351	Q6I9Y2	THOC7_HUMAN	Ngg1 interacting factor 3 like 1 binding protein	53	Interaction with THOC5.				intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	cytoplasm|THO complex part of transcription export complex	protein binding|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(55;0.000439)|Kidney(15;0.00194)|KIRC - Kidney renal clear cell carcinoma(15;0.00218)		GTGCTCAGCATACGTTGGTAC	0.303													22	112					0	0	1	0	0		C	63824156	C	C	63824156	3	2	151	1	0	0	0	0	1	0	0	0	15895	1406	49	3	481	3	THOC7	3	63824156	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1372124	63824156	134198274	913	78078											
ATXN7	6314	broad.mit.edu	37	chr3	63898589	63898589	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgaggcttccaaacttccTgggaaggacggtgagtgtcc	8	10	14	9	1	0	2	0	2	0	0	3	4	3	4	3	4	1	2	3	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:63898589T>C	uc003dlw.3	+	3	868	c.315T>C	c.(313-315)CCT>CCC	p.P105P	ATXN7_uc003dlv.2_Silent_p.P105P|ATXN7_uc010hnv.2_Silent_p.P105P|ATXN7_uc010hnu.1_RNA	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	105				P -> H (in Ref. 2; AAC19162).	cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		CCAAACTTCCTGGGAAGGACG	0.537													11	45					0	0	1	0	0		C	63898589	C	C	63898589	2	2	151	1	0	0	0	0	0	0	0	1	1216	1567	55	3		3	ATXN7	3	63898589	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	74433	63898589	134123841	914	78079											
ATXN7	6314	broad.mit.edu	37	chr3	63976414	63976414	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctatgttttctcttgcagTtttgcacatttgggagccgg	5	16	12	8	1	1	0	0	0	1	0	2	1	1	1	1	3	3	5	1	3	1	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:63976414T>C	uc003dlw.3	+	11	2114	c.1561T>C	c.(1561-1563)TTT>CTT	p.F521L	ATXN7_uc003dlv.2_Missense_Mutation_p.F521L|ATXN7_uc010hnv.2_Missense_Mutation_p.F521L|ATXN7_uc011bfn.1_Missense_Mutation_p.F376L	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	521					cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		TCTCTTGCAGTTTTGCACATT	0.522													27	127					0	0	1	0	0		C	63976414	C	C	63976414	3	2	151	1	0	0	0	0	1	0	0	0	1216	1739	60	3	1663	3	ATXN7	3	63976414	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	77825	63976414	134046016	915	78080											
PRICKLE2	166336	broad.mit.edu	37	chr3	64085149	64085149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaccgggagatggcctcgcGttcgctggccaggtggaggg	6	7	18	10	4	0	1	0	0	0	1	2	3	0	2	3	6	1	2	3	6	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:64085149G>A	uc003dmf.2	-	8	2699	c.2113C>T	c.(2113-2115)CGC>TGC	p.R705C		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	705	Arg-rich.					cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		ATGGCCTCGCGTTCGCTGGCC	0.617													24	77					0	0	1	0	0		A	64085149	A	A	64085149	3	1	151	1	0	0	0	0	1	0	0	0	12509	1145	40	1	425	1	PRICKLE2	3	64085149	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	108735	64085149	133937281	916	78081											
ADAMTS9	56999	broad.mit.edu	37	chr3	64547309	64547309	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaccgtgggccttggcagTcgcgttccgactccggtctg	4	9	14	14	5	1	0	0	0	1	0	4	2	3	0	4	3	0	2	4	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:64547309T>C	uc003dmg.2	-	30	4675	c.4643A>G	c.(4642-4644)GAC>GGC	p.D1548G	ADAMTS9_uc011bfo.1_Missense_Mutation_p.D1520G|ADAMTS9_uc003dmh.1_Missense_Mutation_p.D1377G|ADAMTS9_uc011bfp.1_Missense_Mutation_p.D459G|uc003dmi.1_5'Flank	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1548	TSP type-1 12.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		GCCTTGGCAGTCGCGTTCCGA	0.572													19	136					0	0	1	0	0		C	64547309	C	C	64547309	3	2	151	1	0	0	0	0	1	0	0	0	273	1667	58	3	1204	3	ADAMTS9	3	64547309	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	462160	64547309	133475121	917	78082											
ADAMTS9	56999	broad.mit.edu	37	chr3	64582593	64582593	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttattctctccacacagtcGtttgcggtgtatccattttc	6	18	6	11	2	1	0	0	0	1	0	6	0	3	0	2	1	1	2	2	1	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:64582593G>A	uc003dmg.2	-	27	4124	c.4092C>T	c.(4090-4092)AAC>AAT	p.N1364N	ADAMTS9_uc011bfo.1_Silent_p.N1336N|ADAMTS9_uc003dmh.1_Silent_p.N1193N|ADAMTS9_uc011bfp.1_Silent_p.N275N	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1364	TSP type-1 9.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CCACACAGTCGTTTGCGGTGT	0.498													16	77					0	0	1	0	0		A	64582593	A	A	64582593	2	1	151	1	0	0	0	0	0	0	0	1	273	1136	40	1		1	ADAMTS9	3	64582593	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	35284	64582593	133439837	918	78083											
ADAMTS9	56999	broad.mit.edu	37	chr3	64619438	64619438	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgttaaaatgcttcccGtcaaagtgagcacactgttc	11	13	8	9	1	1	2	1	2	0	0	3	2	2	2	1	0	2	4	1	0	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:64619438G>A	uc003dmg.2	-	13	2006	c.1974C>T	c.(1972-1974)GAC>GAT	p.D658D	ADAMTS9_uc011bfo.1_Silent_p.D630D|ADAMTS9_uc003dmh.1_Silent_p.D487D|ADAMTS9_uc003dmk.1_Silent_p.D658D	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	658	Cys-rich.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		AATGCTTCCCGTCAAAGTGAG	0.478													60	207					0	0	1	0	0		A	64619438	A	A	64619438	2	1	151	1	0	0	0	0	0	0	0	1	273	1136	40	1		1	ADAMTS9	3	64619438	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	36845	64619438	133402992	919	78084											
ADAMTS9	56999	broad.mit.edu	37	chr3	64636769	64636769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtagaagttcagtgttggagCcatgacatgctggggactct	9	11	14	7	0	2	2	1	1	1	1	2	4	2	4	1	3	2	4	1	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:64636769C>T	uc003dmg.2	-	9	1419	c.1387G>A	c.(1387-1389)GCT>ACT	p.A463T	ADAMTS9_uc011bfo.1_Missense_Mutation_p.A435T|ADAMTS9_uc003dmh.1_Missense_Mutation_p.A292T|ADAMTS9_uc003dmk.1_Missense_Mutation_p.A463T	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	463	Peptidase M12B.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		AGTGTTGGAGCCATGACATGC	0.393													25	101					0	0	1	0	0		T	64636769	T	T	64636769	3	4	151	1	0	0	0	0	1	0	0	0	273	739	26	2	4544	2	ADAMTS9	3	64636769	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	17331	64636769	133385661	920	78085											
LRIG1	26018	broad.mit.edu	37	chr3	66463397	66463397	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctgttgagcccctggaagGtgaggccctctatcagccga	8	8	13	12	1	2	2	1	2	1	0	2	4	2	3	4	3	3	2	4	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:66463397G>T	uc003dmx.2	-	6	703	c.689C>A	c.(688-690)ACC>AAC	p.T230N	LRIG1_uc010hnz.2_5'UTR|LRIG1_uc010hoa.2_Missense_Mutation_p.T230N	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	230	Extracellular (Potential).|LRR 7.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		CCCCTGGAAGGTGAGGCCCTC	0.532													18	46					1.50039e-11	1.55034e-11	1	1	0		T	66463397	T	T	66463397	3	4	151	1	0	0	0	0	1	0	0	0	8962	1261	44	5	2648	5	LRIG1	3	66463397	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1826628	66463397	131559033	921	78086											
FAM19A4	151647	broad.mit.edu	37	chr3	68929977	68929977	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgcgacagcaacactgActtagcacagactctcatcc	12	7	7	15	1	1	2	1	1	1	1	3	3	2	2	2	0	4	2	2	0	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:68929977A>G	uc003dnh.1	-	3	477	c.34T>C	c.(34-36)TCA>CCA	p.S12P	FAM19A4_uc003dni.1_Missense_Mutation_p.S12P	NM_182522	NP_872328	Q96LR4	F19A4_HUMAN	family with sequence similarity 19 (chemokine	12						extracellular region				skin(2)	2		Lung NSC(201;0.0198)		BRCA - Breast invasive adenocarcinoma(55;1.38e-05)|Epithelial(33;0.000124)|LUSC - Lung squamous cell carcinoma(21;0.0248)|KIRC - Kidney renal clear cell carcinoma(39;0.0729)|Kidney(39;0.0904)		AGCAACACTGACTTAGCACAG	0.562													17	64					0	0	1	0	0		G	68929977	G	G	68929977	3	3	151	1	0	0	0	0	1	0	0	0	5545	275	10	3	404	3	FAM19A4	3	68929977	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2466580	68929977	129092453	922	78087											
FOXP1	27086	broad.mit.edu	37	chr3	71096154	71096154	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaattgtcagaaggccttgGcgctgcaaagacaggaggtg	11	8	15	7	1	1	3	1	1	0	2	1	4	1	4	1	4	1	2	1	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:71096154G>A	uc003dol.2	-	6	926	c.603C>T	c.(601-603)CGC>CGT	p.R201R	FOXP1_uc003dom.2_Silent_p.R125R|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Silent_p.R201R|FOXP1_uc003dop.2_Silent_p.R201R|FOXP1_uc003doq.1_Silent_p.R200R|FOXP1_uc003doi.2_Silent_p.R101R|FOXP1_uc003doj.2_Silent_p.R101R|FOXP1_uc003dok.2_Silent_p.R14R	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	201	Gln-rich.				cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		GAAGGCCTTGGCGCTGCAAAG	0.527			T	PAX5	ALL								8	232					0	0	1	0	0		A	71096154	A	A	71096154	2	1	151	1	0	0	0	0	0	0	0	1	6040	1190	42	2		2	FOXP1	3	71096154	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2166177	71096154	126926276	923	78088											
FOXP1	27086	broad.mit.edu	37	chr3	71247404	71247404	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagctgccccgatgtccacGgccggcgtctctccgttgga	4	9	12	16	5	2	0	1	0	1	0	5	2	4	1	5	3	2	2	5	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:71247404G>A	uc003dol.2	-	2	452	c.129C>T	c.(127-129)GCC>GCT	p.A43A	FOXP1_uc003dom.2_Silent_p.A43A|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Silent_p.A43A|FOXP1_uc003dop.2_Silent_p.A43A|FOXP1_uc003doq.1_Silent_p.A43A|FOXP1_uc003dos.2_Silent_p.A43A	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	43					cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		CGATGTCCACGGCCGGCGTCT	0.627			T	PAX5	ALL								20	71					0	0	1	0	0		A	71247404	A	A	71247404	2	1	151	1	0	0	0	0	0	0	0	1	6040	1103	39	1		1	FOXP1	3	71247404	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	151250	71247404	126775026	924	78089											
EIF4E3	317649	broad.mit.edu	37	chr3	71739244	71739244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcgcttcacccactaaagagGcatttacattccagacttgg	11	11	7	12	1	1	2	1	0	0	2	3	2	2	2	2	2	1	2	2	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:71739244G>A	uc003dov.3	-	6	553	c.545C>T	c.(544-546)GCC>GTC	p.A182V	EIF4E3_uc011bgc.1_Missense_Mutation_p.A76V|EIF4E3_uc003dox.2_Missense_Mutation_p.A76V|EIF4E3_uc011bgd.1_Missense_Mutation_p.A76V|EIF4E3_uc010hoc.2_Missense_Mutation_p.A76V	NM_001134651	NP_001128123	Q8N5X7	IF4E3_HUMAN	eukaryotic translation initiation factor 4E	182					regulation of translation	cytoplasm|mRNA cap binding complex	translation initiation factor activity				0		Prostate(10;0.0166)		BRCA - Breast invasive adenocarcinoma(55;2.56e-05)|Epithelial(33;2.9e-05)|Lung(16;9.28e-05)|LUSC - Lung squamous cell carcinoma(21;0.00227)		CACTAAAGAGGCATTTACATT	0.393													29	113					0	0	1	0	0		A	71739244	A	A	71739244	3	1	151	1	0	0	0	0	1	0	0	0	5039	1203	42	2	137	2	EIF4E3	3	71739244	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	491840	71739244	126283186	925	78090											
EIF4E3	317649	broad.mit.edu	37	chr3	71748797	71748797	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctcctctcattaaatgAtaactacatctcaaaggcag	13	12	4	12	0	3	1	2	1	3	0	7	1	4	1	1	1	2	1	1	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:71748797A>G	uc003dov.3	-	3	320	c.312T>C	c.(310-312)TAT>TAC	p.Y104Y	EIF4E3_uc011bgc.1_5'UTR|EIF4E3_uc003dox.2_5'UTR|EIF4E3_uc011bgd.1_5'UTR|EIF4E3_uc010hoc.2_5'UTR	NM_001134651	NP_001128123	Q8N5X7	IF4E3_HUMAN	eukaryotic translation initiation factor 4E	104					regulation of translation	cytoplasm|mRNA cap binding complex	translation initiation factor activity				0		Prostate(10;0.0166)		BRCA - Breast invasive adenocarcinoma(55;2.56e-05)|Epithelial(33;2.9e-05)|Lung(16;9.28e-05)|LUSC - Lung squamous cell carcinoma(21;0.00227)		TCATTAAATGATAACTACATC	0.358													39	210					0	0	1	0	0		G	71748797	G	G	71748797	2	3	151	1	0	0	0	0	0	0	0	1	5039	340	12	3		3	EIF4E3	3	71748797	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	9553	71748797	126273633	926	78091											
PDZRN3	23024	broad.mit.edu	37	chr3	73433573	73433573	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcatccaggactcgcggTactgctccttgagctgctgc	6	9	12	14	2	0	1	0	1	0	0	3	2	2	2	2	2	6	6	2	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:73433573T>C	uc003dpl.1	-	10	2240	c.2144A>G	c.(2143-2145)TAC>TGC	p.Y715C	PDZRN3_uc011bgh.1_Missense_Mutation_p.Y372C|PDZRN3_uc010hoe.1_Missense_Mutation_p.Y413C|PDZRN3_uc011bgf.1_Missense_Mutation_p.Y432C|PDZRN3_uc011bgg.1_Missense_Mutation_p.Y435C	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	715							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GGACTCGCGGTACTGCTCCTT	0.607													5	18					0	0	1	0	0		C	73433573	C	C	73433573	3	2	151	1	0	0	0	0	1	0	0	0	11728	1638	57	3	1060	3	PDZRN3	3	73433573	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1684776	73433573	124588857	927	78092											
ROBO2	6092	broad.mit.edu	37	chr3	77617497	77617497	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcacaaggagtggaccacaGgcaagtgcagaaagagctag	16	3	14	8	0	0	2	0	0	0	2	0	4	0	4	1	3	3	4	1	3	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:77617497G>T	uc003dpy.3	+	13	2526	c.1883G>T	c.(1882-1884)AGG>ATG	p.R628M	ROBO2_uc003dpz.2_Missense_Mutation_p.R632M|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.R632M	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	628	Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		GTGGACCACAGGCAAGTGCAG	0.418													19	98					1.28384e-07	1.31185e-07	1	1	0		T	77617497	T	T	77617497	3	4	151	1	0	0	0	0	1	0	0	0	13539	1000	35	5	1935	5	ROBO2	3	77617497	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4183924	77617497	120404933	928	78093											
VGLL3	389136	broad.mit.edu	37	chr3	87017791	87017791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgttccatgaaaggctcCagcccatgctgaggtagcag	10	9	11	11	0	0	2	0	2	0	0	2	2	2	2	3	2	4	5	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:87017791C>T	uc003dqn.2	-	3	1250	c.886G>A	c.(886-888)GGA>AGA	p.G296R		NM_016206	NP_057290	A8MV65	VGLL3_HUMAN	colon carcinoma related protein	296					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)		TGAAAGGCTCCAGCCCATGCT	0.478													16	53					0	0	1	0	0		T	87017791	T	T	87017791	3	4	151	1	0	0	0	0	1	0	0	0	17186	603	21	4	102	4	VGLL3	3	87017791	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	9400294	87017791	111004639	929	78094											
EPHA3	2042	broad.mit.edu	37	chr3	89391170	89391170	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctttgagattgatgccgtTaatggggtgtcagagctgag	9	12	14	6	1	1	4	1	3	0	2	1	5	1	4	2	2	2	2	2	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:89391170T>C	uc003dqy.2	+	5	1461	c.1236T>C	c.(1234-1236)GTT>GTC	p.V412V	EPHA3_uc003dqx.1_Silent_p.V412V|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	412	Extracellular (Potential).|Fibronectin type-III 1.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		TTGATGCCGTTAATGGGGTGT	0.498										TSP Lung(6;0.00050)			5	102					0	0	1	0	0		C	89391170	C	C	89391170	2	2	151	1	0	0	0	0	0	0	0	1	5176	1741	61	3		3	EPHA3	3	89391170	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2373379	89391170	108631260	930	78095											
PROS1	5627	broad.mit.edu	37	chr3	93598107	93598107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagtgcccgtggatggaCgaatattcaaggtcacattt	11	10	10	10	2	2	0	2	0	0	0	2	3	2	2	2	3	1	0	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:93598107C>T	uc003drb.3	-	13	1885	c.1544G>A	c.(1543-1545)CGT>CAT	p.R515H	PROS1_uc010hoo.2_Missense_Mutation_p.R384H|PROS1_uc003dqz.3_Missense_Mutation_p.R384H	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	515	Laminin G-like 2.		R -> P (in PROS1D).|R -> C (in PROS1D; secretion of the mutant markedly decreased compared with that of the wild-type; intracellular degradation and impaired secretion of the mutant).	R->K: No change in secretion of the mutant.|R->A,E: Markedly reduced secretion of the mutant.	leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	CGTGGATGGACGAATATTCAA	0.438													32	137					0	0	1	0	0		T	93598107	T	T	93598107	3	4	151	1	0	0	0	0	1	0	0	0	12580	536	19	1	498	1	PROS1	3	93598107	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4206937	93598107	104424323	931	78096											
PROS1	5627	broad.mit.edu	37	chr3	93615522	93615522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaaggttcaagggaaggCacactgaaacaacctggaat	15	7	11	8	0	2	1	2	1	0	0	2	3	2	3	1	4	2	2	1	4	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:93615522C>T	uc003drb.3	-	9	1204	c.863G>A	c.(862-864)TGC>TAC	p.C288Y	PROS1_uc010hoo.2_Missense_Mutation_p.C157Y|PROS1_uc003dqz.3_Missense_Mutation_p.C157Y	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	288					leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	CAAGGGAAGGCACACTGAAAC	0.358													39	131					0	0	1	0	0		T	93615522	T	T	93615522	3	4	151	1	0	0	0	0	1	0	0	0	12580	710	25	2	1195	2	PROS1	3	93615522	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	17415	93615522	104406908	932	78097											
ARL13B	200894	broad.mit.edu	37	chr3	93754252	93754252	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatctctggaaaaattggTcaatgagcacaagtgcctgt	12	12	9	8	0	3	1	1	1	2	0	4	2	3	2	1	2	2	1	1	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:93754252T>C	uc003drc.2	+	4	744	c.458T>C	c.(457-459)GTC>GCC	p.V153A	ARL13B_uc010hop.2_Intron|ARL13B_uc003drd.2_Missense_Mutation_p.V46A|ARL13B_uc003dre.2_Missense_Mutation_p.V138A|ARL13B_uc003drf.2_Missense_Mutation_p.V153A|ARL13B_uc003drg.2_Missense_Mutation_p.V50A	NM_182896	NP_878899	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 2-like 1 isoform 1	153							GTP binding				0						GAAAAATTGGTCAATGAGCAC	0.299													43	130					0	0	1	0	0		C	93754252	C	C	93754252	3	2	151	1	0	0	0	0	1	0	0	0	929	1667	58	3	472	3	ARL13B	3	93754252	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	138730	93754252	104268178	933	78098											
EPHA6	285220	broad.mit.edu	37	chr3	97439147	97439147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagccccagaagccatcGcctacagaaaattctcctca	13	6	7	15	1	2	2	1	0	1	2	4	3	2	3	5	1	3	0	5	1	4	2	rs36084843		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:97439147G>A	uc010how.1	+	15	2870	c.2827G>A	c.(2827-2829)GCC>ACC	p.A943T	EPHA6_uc003drt.2_Missense_Mutation_p.A335T|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	848	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						AGAAGCCATCGCCTACAGAAA	0.443													12	78					0	0	1	0	0		A	97439147	A	A	97439147	3	1	151	1	0	0	0	0	1	0	0	0	5179	1087	38	1	3002	1	EPHA6	3	97439147	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3684895	97439147	100583283	934	78099											
GABRR3	200959	broad.mit.edu	37	chr3	97711803	97711803	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagggagctgacccacaggtAcacatccacagccttgaggt	11	6	12	12	0	0	2	0	2	0	0	1	4	1	3	3	3	3	2	3	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:97711803A>G	uc011bgr.1	-	8	997	c.997T>C	c.(997-999)TAC>CAC	p.Y333H		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	333	Helical; (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0						ACCCACAGGTACACATCCACA	0.517													47	157					0	0	1	0	0		G	97711803	G	G	97711803	3	3	151	1	0	0	0	0	1	0	0	0	6192	391	14	3	413	3	GABRR3	3	97711803	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	272656	97711803	100310627	935	78100											
OR5H15	403274	broad.mit.edu	37	chr3	97888382	97888382	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcctctattctacactgTcatcattcctttgttaaatc	9	16	5	11	0	4	0	2	0	2	0	6	1	5	1	2	1	2	1	2	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:97888382T>C	uc011bgu.1	+	1	839	c.839T>C	c.(838-840)GTC>GCC	p.V280A		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	280	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTCTACACTGTCATCATTCCT	0.373													15	116					0	0	1	0	0		C	97888382	C	C	97888382	3	2	151	1	0	0	0	0	1	0	0	0	11180	1667	58	3	841	3	OR5H15	3	97888382	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	176579	97888382	100134048	936	78101											
GPR15	2838	broad.mit.edu	37	chr3	98251737	98251737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcttggtatggaggtgaGtggacccttggcatttgcca	7	12	14	8	0	1	1	1	1	0	0	1	3	1	3	2	5	2	3	2	5	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:98251737G>A	uc011bgy.1	+	1	860	c.860G>A	c.(859-861)AGT>AAT	p.S287N		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	287	Helical; Name=7; (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		ATGGAGGTGAGTGGACCCTTG	0.502													21	98					0	0	1	0	0		A	98251737	A	A	98251737	3	1	151	1	0	0	0	0	1	0	0	0	6670	1029	36	4	862	4	GPR15	3	98251737	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	363355	98251737	99770693	937	78102											
SENP7	57337	broad.mit.edu	37	chr3	101060559	101060559	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagatgtaatagaaagggagTagcaaccgctactttgcttc	13	11	10	7	1	0	2	0	0	0	2	1	3	0	3	1	1	4	5	1	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:101060559T>C	uc003dut.2	-	15	2282	c.2171A>G	c.(2170-2172)TAC>TGC	p.Y724C	SENP7_uc003duu.2_Missense_Mutation_p.Y659C|SENP7_uc003duv.2_Missense_Mutation_p.Y691C|SENP7_uc003duw.2_Missense_Mutation_p.Y658C|SENP7_uc003dux.2_Missense_Mutation_p.Y560C	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	724					proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						AGAAAGGGAGTAGCAACCGCT	0.448													22	74					0	0	1	0	0		C	101060559	C	C	101060559	3	2	151	1	0	0	0	0	1	0	0	0	14076	1638	57	3	1021	3	SENP7	3	101060559	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2808822	101060559	96961871	938	78103											
SENP7	57337	broad.mit.edu	37	chr3	101083732	101083732	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaatgctgattcagaagtActctcattttcattagttgt	12	16	6	7	0	3	2	3	1	1	1	4	2	3	2	0	0	3	3	0	0	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:101083732A>G	uc003dut.2	-	10	1533	c.1422T>C	c.(1420-1422)AGT>AGC	p.S474S	SENP7_uc003duu.2_Silent_p.S409S|SENP7_uc003duv.2_Silent_p.S441S|SENP7_uc003duw.2_Silent_p.S408S|SENP7_uc003dux.2_Silent_p.S310S	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	474					proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						ATTCAGAAGTACTCTCATTTT	0.328													20	122					0	0	1	0	0		G	101083732	G	G	101083732	2	3	151	1	0	0	0	0	0	0	0	1	14076	388	14	3		3	SENP7	3	101083732	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	23173	101083732	96938698	939	78104											
ZBTB11	27107	broad.mit.edu	37	chr3	101384247	101384247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacatcctactgatgacaggGcagattcagcctctgaagaa	13	9	9	10	0	2	5	1	3	1	2	3	5	3	5	2	1	3	1	2	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:101384247G>A	uc003dve.3	-	4	1414	c.1184C>T	c.(1183-1185)GCC>GTC	p.A395V		NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	395					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TGATGACAGGGCAGATTCAGC	0.433													37	121					0	0	1	0	0		A	101384247	A	A	101384247	3	1	151	1	0	0	0	0	1	0	0	0	17549	1203	42	2	2009	2	ZBTB11	3	101384247	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	300515	101384247	96638183	940	78105											
ALCAM	214	broad.mit.edu	37	chr3	105271332	105271332	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaaacagagaaaaggtgAatgaccaggcaaaactaatt	21	6	9	5	0	0	4	0	3	0	1	0	5	0	4	1	2	2	1	1	2	8	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:105271332A>G	uc003dvx.2	+	14	2107	c.1567A>G	c.(1567-1569)AAT>GAT	p.N523D	ALCAM_uc003dvw.1_Missense_Mutation_p.N523D|ALCAM_uc003dvy.2_Missense_Mutation_p.N510D|ALCAM_uc010hpp.2_Missense_Mutation_p.N245D|ALCAM_uc003dvz.2_Missense_Mutation_p.N157D	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	523	Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						AGAAAAGGTGAATGACCAGGC	0.413													44	222					0	0	1	0	0		G	105271332	G	G	105271332	3	3	151	1	0	0	0	0	1	0	0	0	487	246	9	3	1621	3	ALCAM	3	105271332	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3887085	105271332	92751098	941	78106											
CBLB	868	broad.mit.edu	37	chr3	105400628	105400628	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgaagatggaccatgtgTtccattcagcatacagtgac	11	11	9	10	0	2	3	1	2	1	1	3	4	3	4	2	1	2	2	2	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:105400628T>C	uc003dwc.2	-	15	2558	c.2236A>G	c.(2236-2238)ACA>GCA	p.T746A	CBLB_uc003dwa.2_Missense_Mutation_p.T5A|CBLB_uc011bhi.1_Missense_Mutation_p.T768A|CBLB_uc003dwd.1_Missense_Mutation_p.T746A|CBLB_uc003dwe.1_Missense_Mutation_p.T746A	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	746	Pro-rich.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						GGACCATGTGTTCCATTCAGC	0.333			Mis S		AML								11	161					0	0	1	0	0		C	105400628	C	C	105400628	3	2	151	1	0	0	0	0	1	0	0	0	2704	1725	60	3	732	3	CBLB	3	105400628	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	129296	105400628	92621802	942	78107											
IFT57	55081	broad.mit.edu	37	chr3	107938290	107938290	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggatagtatgttagatatTgttgcattagggtcatcata	11	16	10	4	1	2	1	2	0	0	1	3	2	2	2	0	2	1	4	0	2	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:107938290T>C	uc003dwx.3	-	2	590	c.342A>G	c.(340-342)ACA>ACG	p.T114T		NM_018010	NP_060480	Q9NWB7	IFT57_HUMAN	estrogen-related receptor beta like 1	114					activation of caspase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cilium|microtubule basal body	DNA binding|protein binding			ovary(1)|skin(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(3;0.0428)|Epithelial(53;0.246)			TGTTAGATATTGTTGCATTAG	0.373													30	103					0	0	1	0	0		C	107938290	C	C	107938290	2	2	151	1	0	0	0	0	0	0	0	1	7578	1799	63	3		3	IFT57	3	107938290	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2537662	107938290	90084140	943	78108											
MYH15	22989	broad.mit.edu	37	chr3	108147575	108147575	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggtttcctgtttcttagTtatttccagctgagccaaac	7	18	7	9	0	1	1	0	1	1	0	3	1	3	1	3	1	3	4	3	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:108147575T>C	uc003dxa.1	-	28	3583	c.3526A>G	c.(3526-3528)ACT>GCT	p.T1176A		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1176	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TGTTTCTTAGTTATTTCCAGC	0.493													8	190					0	0	1	0	0		C	108147575	C	C	108147575	3	2	151	1	0	0	0	0	1	0	0	0	10052	1725	60	3	2374	3	MYH15	3	108147575	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	209285	108147575	89874855	944	78109											
MYH15	22989	broad.mit.edu	37	chr3	108224573	108224573	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataaaaatttctttacctcTccatctgctgtctcaacaat	13	15	2	11	0	4	0	1	0	4	0	6	0	4	0	2	0	3	1	2	0	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:108224573T>C	uc003dxa.1	-	3	309	c.252A>G	c.(250-252)GGA>GGG	p.G84G		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	84	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TCTTTACCTCTCCATCTGCTG	0.323													65	205					0	0	1	0	0		C	108224573	C	C	108224573	2	2	151	1	0	0	0	0	0	0	0	1	10052	1538	54	3		3	MYH15	3	108224573	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	76998	108224573	89797857	945	78110											
KIAA1524	57650	broad.mit.edu	37	chr3	108282076	108282076	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaagcaaaagccaaaggagTaatcaaacgtgggtcctaaa	19	6	9	7	1	1	0	1	0	0	0	2	1	2	1	2	2	3	2	2	2	9	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:108282076T>C	uc003dxb.3	-	13	1800	c.1531A>G	c.(1531-1533)ACT>GCT	p.T511A	KIAA1524_uc010hpv.1_Missense_Mutation_p.T78A	NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	511						cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						GCCAAAGGAGTAATCAAACGT	0.373													53	213					0	0	1	0	0		C	108282076	C	C	108282076	3	2	151	1	0	0	0	0	1	0	0	0	8255	1638	57	3	1222	3	KIAA1524	3	108282076	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	57503	108282076	89740354	946	78111											
MORC1	27136	broad.mit.edu	37	chr3	108682336	108682336	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctcagagatttttcttttAttttcacattgccccagaga	9	17	5	10	0	3	2	2	0	1	2	4	4	4	2	3	0	1	0	3	0	1	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:108682336A>T	uc003dxl.2	-	27	2811	c.2724T>A	c.(2722-2724)AAT>AAA	p.N908K	MORC1_uc011bhn.1_Missense_Mutation_p.N887K	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	908	Potential.				cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						TTTTTCTTTTATTTTCACATT	0.308													55	218					0	0	1	0	0		T	108682336	T	T	108682336	3	4	151	1	0	0	0	0	1	0	0	0	9719	446	16	5	238	5	MORC1	3	108682336	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	400260	108682336	89340094	947	78112											
DPPA4	55211	broad.mit.edu	37	chr3	109047759	109047759	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaacacatttggggcacaAcatattgtcttcaaggtgcg	11	11	11	8	1	2	1	1	1	1	0	2	1	2	1	0	3	3	1	0	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:109047759A>T	uc003dxq.3	-	6	911	c.856T>A	c.(856-858)TTG>ATG	p.L286M	DPPA4_uc011bho.1_3'UTR	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	286						nucleus	protein binding			upper_aerodigestive_tract(1)	1						TTGGGGCACAACATATTGTCT	0.433													11	63					0	0	1	0	0		T	109047759	T	T	109047759	3	4	151	1	0	0	0	0	1	0	0	0	4742	40	2	5	66	5	DPPA4	3	109047759	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	365423	109047759	88974671	948	78113											
SLC9A10	285335	broad.mit.edu	37	chr3	111927065	111927065	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tataaagtgtaagaaaacagTagttagtgtgttttaattcg	15	15	9	2	1	0	1	0	0	0	1	1	1	0	1	0	0	1	4	0	0	9	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:111927065T>C	uc003dyu.2	-	16	2168	c.1946A>G	c.(1945-1947)TAC>TGC	p.Y649C	SLC9A10_uc011bhu.1_Intron|SLC9A10_uc010hqc.2_Missense_Mutation_p.Y601C	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	649	Helical; (Potential).|Ion transport-like.				cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						AAGAAAACAGTAGTTAGTGTG	0.323													52	255					0	0	1	0	0		C	111927065	C	C	111927065	3	2	151	1	0	0	0	0	1	0	0	0	14735	1638	57	3	1643	3	SLC9A10	3	111927065	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2879306	111927065	86095365	949	78114											
SLC9A10	285335	broad.mit.edu	37	chr3	111997623	111997623	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtatccatgtcaaatgcagTagtaaagaaaactactggtg	15	10	9	7	1	1	1	1	0	0	1	2	1	2	1	1	1	3	4	1	1	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:111997623T>C	uc003dyu.2	-	4	493	c.271A>G	c.(271-273)ACT>GCT	p.T91A	SLC9A10_uc011bhu.1_5'UTR|SLC9A10_uc010hqc.2_Missense_Mutation_p.T91A	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	91	Helical; (Potential).				cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						TCAAATGCAGTAGTAAAGAAA	0.313													36	178					0	0	1	0	0		C	111997623	C	C	111997623	3	2	151	1	0	0	0	0	1	0	0	0	14735	1638	57	3	3366	3	SLC9A10	3	111997623	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	70558	111997623	86024807	950	78115											
CCDC80	151887	broad.mit.edu	37	chr3	112324479	112324479	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catggaccacattggggaagGataccaggatttgacatttc	12	10	11	8	0	0	1	0	1	0	0	1	5	0	5	2	5	1	0	2	5	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:112324479G>T	uc003dzf.2	-	8	2856	c.2638C>A	c.(2638-2640)CCT>ACT	p.P880T	CCDC80_uc011bhv.1_Missense_Mutation_p.P853T|CCDC80_uc003dzg.2_Missense_Mutation_p.P880T	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	880										ovary(2)	2						ATTGGGGAAGGATACCAGGAT	0.463													15	90					6.72482e-11	6.93549e-11	1	1	0		T	112324479	T	T	112324479	3	4	151	1	0	0	0	0	1	0	0	0	2857	1174	41	5	218	5	CCDC80	3	112324479	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	326856	112324479	85697951	951	78116											
WDR52	55779	broad.mit.edu	37	chr3	113115503	113115503	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatcgtgagcccttttggAtcataaagttcaagaattcg	14	12	8	7	2	2	2	2	1	0	1	4	3	2	3	1	1	1	1	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:113115503A>T	uc003eae.1	-	14	1687	c.1641T>A	c.(1639-1641)GAT>GAA	p.D547E		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	547	WD 6.									central_nervous_system(1)	1						GCCCTTTTGGATCATAAAGTT	0.388													30	92					0	0	1	0	0		T	113115503	T	T	113115503	3	4	151	1	0	0	0	0	1	0	0	0	17330	330	12	5	4026	5	WDR52	3	113115503	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	791024	113115503	84906927	952	78117											
CCDC52	152185	broad.mit.edu	37	chr3	113184570	113184570	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaatgagctctcgatgaTcacctaatacttgttccagt	11	13	6	11	1	3	2	2	2	1	0	5	3	4	2	2	0	2	2	2	0	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:113184570T>C	uc003eag.3	-	11	1508	c.1217A>G	c.(1216-1218)GAT>GGT	p.D406G	CCDC52_uc003eaf.3_RNA|CCDC52_uc003eah.1_Missense_Mutation_p.D302G	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52	406	Potential.				cell division|mitosis	centriole|spindle	protein binding				0						CTCTCGATGATCACCTAATAC	0.393													33	129					0	0	1	0	0		C	113184570	C	C	113184570	3	2	151	1	0	0	0	0	1	0	0	0	2825	1435	50	3	1382	3	CCDC52	3	113184570	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	69067	113184570	84837860	953	78118											
SIDT1	54847	broad.mit.edu	37	chr3	113321913	113321913	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtgggccaccgggccaGtcagacacagacagctccgt	9	5	14	13	2	1	2	1	0	0	2	2	3	2	2	4	3	1	1	4	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:113321913G>A	uc003eak.2	+	12	1830	c.1179G>A	c.(1177-1179)CAG>CAA	p.Q393Q	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Silent_p.Q393Q|SIDT1_uc011big.1_Silent_p.Q146Q|SIDT1_uc011bih.1_RNA|SIDT1_uc011bii.1_5'Flank	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	393	Cytoplasmic (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						CACCGGGCCAGTCAGACACAG	0.552													19	52					0	0	1	0	0		A	113321913	A	A	113321913	2	1	151	1	0	0	0	0	0	0	0	1	14327	1020	36	4		4	SIDT1	3	113321913	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	137343	113321913	84700517	954	78119											
SIDT1	54847	broad.mit.edu	37	chr3	113329934	113329934	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacccagacatcaatgccagCgcctactctgcctatgcctc	9	8	6	18	1	2	1	1	0	1	1	3	1	2	1	5	0	5	0	5	0	3	2	rs145430934		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:113329934C>T	uc003eak.2	+	18	2451	c.1800C>T	c.(1798-1800)AGC>AGT	p.S600S	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Silent_p.S600S|SIDT1_uc011big.1_Silent_p.S353S|SIDT1_uc011bih.1_RNA|SIDT1_uc011bii.1_Silent_p.S53S	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	600	Cytoplasmic (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						TCAATGCCAGCGCCTACTCTG	0.577													29	116					0	0	1	0	0		T	113329934	T	T	113329934	2	4	151	1	0	0	0	0	0	0	0	1	14327	767	27	1		1	SIDT1	3	113329934	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	8021	113329934	84692496	955	78120											
DRD3	1814	broad.mit.edu	37	chr3	113847607	113847607	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttccggaactcgatatTgaaggtggtatagatcacag	11	11	12	7	2	1	2	1	1	0	1	3	4	2	3	1	4	1	2	1	4	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:113847607T>C	uc003ebd.2	-	8	1582	c.1159A>G	c.(1159-1161)AAT>GAT	p.N387D	DRD3_uc010hqn.1_Missense_Mutation_p.N387D|DRD3_uc003ebb.1_Missense_Mutation_p.N354D|DRD3_uc003ebc.1_Missense_Mutation_p.N387D	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	387	Helical; Name=7.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	AACTCGATATTGAAGGTGGTA	0.542													16	470					0	0	1	0	0		C	113847607	C	C	113847607	3	2	151	1	0	0	0	0	1	0	0	0	4764	1812	63	3	47	3	DRD3	3	113847607	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	517673	113847607	84174823	956	78121											
DRD3	1814	broad.mit.edu	37	chr3	113890604	113890604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccagggcatcaccaaggtgGccaccagcaagtctgccaca	11	4	10	16	0	2	0	1	0	1	0	2	0	2	0	5	3	2	2	5	3	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:113890604G>A	uc003ebd.2	-	3	659	c.236C>T	c.(235-237)GCC>GTC	p.A79V	DRD3_uc010hqn.1_Missense_Mutation_p.A79V|DRD3_uc003ebb.1_Missense_Mutation_p.A79V|DRD3_uc003ebc.1_Missense_Mutation_p.A79V	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	79	Helical; Name=2.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	CACCAAGGTGGCCACCAGCAA	0.557													16	95					0	0	1	0	0		A	113890604	A	A	113890604	3	1	151	1	0	0	0	0	1	0	0	0	4764	1203	42	2	990	2	DRD3	3	113890604	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	42997	113890604	84131826	957	78122											
ZBTB20	26137	broad.mit.edu	37	chr3	114069373	114069373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaaggcttggggccactgcCcgcgggctgggtagtgaaga	8	6	18	9	2	0	2	0	1	0	1	0	3	0	2	2	5	1	3	2	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:114069373C>T	uc003ebi.2	-	4	1732	c.1552G>A	c.(1552-1554)GGC>AGC	p.G518S	ZBTB20_uc003ebj.2_Missense_Mutation_p.G445S|ZBTB20_uc010hqp.2_Missense_Mutation_p.G445S|ZBTB20_uc003ebk.2_Missense_Mutation_p.G445S|ZBTB20_uc003ebl.2_Missense_Mutation_p.G445S|ZBTB20_uc003ebm.2_Missense_Mutation_p.G445S|ZBTB20_uc003ebn.2_Missense_Mutation_p.G445S|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	518					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GGGCCACTGCCCGCGGGCTGG	0.622													17	61					0	0	1	0	0		T	114069373	T	T	114069373	3	4	151	1	0	0	0	0	1	0	0	0	17554	623	22	4	681	4	ZBTB20	3	114069373	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	178769	114069373	83953057	958	78123											
ZBTB20	26137	broad.mit.edu	37	chr3	114069493	114069493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgagggtttctgtctggcGtaagtagagctgggtacttg	6	13	17	5	1	2	2	0	1	2	1	2	2	2	2	0	4	2	5	0	4	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:114069493G>A	uc003ebi.2	-	4	1612	c.1432C>T	c.(1432-1434)CGC>TGC	p.R478C	ZBTB20_uc003ebj.2_Missense_Mutation_p.R405C|ZBTB20_uc010hqp.2_Missense_Mutation_p.R405C|ZBTB20_uc003ebk.2_Missense_Mutation_p.R405C|ZBTB20_uc003ebl.2_Missense_Mutation_p.R405C|ZBTB20_uc003ebm.2_Missense_Mutation_p.R405C|ZBTB20_uc003ebn.2_Missense_Mutation_p.R405C|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	478					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TCTGTCTGGCGTAAGTAGAGC	0.562													36	97					0	0	1	0	0		A	114069493	A	A	114069493	3	1	151	1	0	0	0	0	1	0	0	0	17554	1145	40	1	801	1	ZBTB20	3	114069493	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	120	114069493	83952937	959	78124											
B4GALT4	8702	broad.mit.edu	37	chr3	118945806	118945806	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttacattcctgagggcgataCcggcctctggacactttggg	7	11	12	11	2	1	1	0	1	1	0	2	3	2	2	3	4	2	0	3	4	2	4	rs143371634	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:118945806C>T	uc003ecg.2	-	4	977	c.336G>A	c.(334-336)CGG>CGA	p.R112R	B4GALT4_uc003ece.1_Silent_p.R112R|B4GALT4_uc003ecf.2_RNA|B4GALT4_uc003ech.2_Silent_p.R112R|B4GALT4_uc003eci.2_Silent_p.R112R|B4GALT4_uc011biy.1_RNA	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	112	Lumenal (Potential).				membrane lipid metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding|N-acetyllactosamine synthase activity				0				GBM - Glioblastoma multiforme(114;0.222)	N-Acetyl-D-glucosamine(DB00141)	GAGGGCGATACCGGCCTCTGG	0.502													19	84					0	0	1	0	0		T	118945806	T	T	118945806	2	4	151	1	0	0	0	0	0	0	0	1	1274	494	18	4		4	B4GALT4	3	118945806	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4876313	118945806	79076624	960	78125											
ARHGAP31	57514	broad.mit.edu	37	chr3	119120876	119120876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctccagggcgctcaggcccGgcccccaccggaacagctga	7	4	12	18	3	2	1	1	1	1	0	3	2	2	2	5	4	2	2	5	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:119120876G>A	uc003ecj.3	+	10	1809	c.1277G>A	c.(1276-1278)CGG>CAG	p.R426Q		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	426					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						GCTCAGGCCCGGCCCCCACCG	0.617													13	81					0	0	1	0	0		A	119120876	A	A	119120876	3	1	151	1	0	0	0	0	1	0	0	0	880	1116	39	1	1315	1	ARHGAP31	3	119120876	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	175070	119120876	78901554	961	78126											
ARHGAP31	57514	broad.mit.edu	37	chr3	119121036	119121036	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atggagccctcgccgcgtaaCcagcgcaaggcgctgaacat	10	5	12	14	5	0	1	0	1	0	0	1	2	0	2	3	2	4	3	3	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:119121036C>T	uc003ecj.3	+	10	1969	c.1437C>T	c.(1435-1437)AAC>AAT	p.N479N		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	479					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						CGCCGCGTAACCAGCGCAAGG	0.597													10	103					0	0	1	0	0		T	119121036	T	T	119121036	2	4	151	1	0	0	0	0	0	0	0	1	880	506	18	4		4	ARHGAP31	3	119121036	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	160	119121036	78901394	962	78127											
C3orf15	89876	broad.mit.edu	37	chr3	119452224	119452224	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccataggattagtggaactTgagtcatgtctcccagattt	10	13	9	9	0	2	2	1	1	1	1	3	4	2	4	2	2	1	0	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:119452224T>C	uc003ede.3	+	10	1292	c.1215T>C	c.(1213-1215)CTT>CTC	p.L405L	C3orf15_uc010hqy.1_Silent_p.L405L|C3orf15_uc010hqz.2_Silent_p.L343L|C3orf15_uc011bjd.1_Silent_p.L279L|C3orf15_uc011bje.1_Silent_p.L385L|C3orf15_uc010hra.1_Silent_p.L166L	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	Error:Variant_position_missing_in_Q7Z4T9_after_alignment						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		TAGTGGAACTTGAGTCATGTC	0.398													21	108					0	0	1	0	0		C	119452224	C	C	119452224	2	2	151	1	0	0	0	0	0	0	0	1	2212	1799	63	3		3	C3orf15	3	119452224	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	331188	119452224	78570206	963	78128											
POLQ	10721	broad.mit.edu	37	chr3	121207128	121207128	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataatagattcatcattggaAcaagtcaactgctggtgggt	13	12	10	6	0	3	1	3	0	0	1	3	2	3	2	0	3	3	1	0	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:121207128A>G	uc003eee.3	-	16	4779	c.4650T>C	c.(4648-4650)TGT>TGC	p.C1550C	POLQ_uc003eed.2_Silent_p.C722C	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1550					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		CATCATTGGAACAAGTCAACT	0.328								DNA_polymerases_(catalytic_subunits)					29	166					0	0	1	0	0		G	121207128	G	G	121207128	2	3	151	1	0	0	0	0	0	0	0	1	12227	41	2	3		3	POLQ	3	121207128	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1754904	121207128	76815302	964	78129											
POLQ	10721	broad.mit.edu	37	chr3	121263572	121263572	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtttacataaatttggatAcctgaataaactaaattctt	16	16	4	5	0	1	1	0	1	1	0	1	2	1	2	1	1	3	1	1	1	10	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:121263572A>G	uc003eee.3	-	2	472	c.343_splice	c.e2+1	p.A115_splice		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta						DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AAATTTGGATACCTGAATAAA	0.333								DNA_polymerases_(catalytic_subunits)					16	60					0	0	1	0	0		G	121263572	G	G	121263572	5	3	151	1	0	0	0	0	0	0	1	0	12227	405	14	3	7543	3	POLQ	3	121263572	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	56444	121263572	76758858	965	78130											
GOLGB1	2804	broad.mit.edu	37	chr3	121409831	121409831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggagttcattgaaaaggCggtttcagaaagaagagcat	15	9	13	4	1	2	4	2	1	0	3	2	5	2	5	0	3	1	3	0	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:121409831C>T	uc003eei.3	-	14	8491	c.8365G>A	c.(8365-8367)GCC>ACC	p.A2789T	GOLGB1_uc010hrc.2_Missense_Mutation_p.A2794T|GOLGB1_uc003eej.3_Missense_Mutation_p.A2755T	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	2789	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding	p.A2789T(1)		ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		ATTGAAAAGGCGGTTTCAGAA	0.423													32	123					0	0	1	0	0		T	121409831	T	T	121409831	3	4	151	1	0	0	0	0	1	0	0	0	6580	768	27	1	1450	1	GOLGB1	3	121409831	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	146259	121409831	76612599	966	78131											
GOLGB1	2804	broad.mit.edu	37	chr3	121414358	121414358	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccatttcttgctcagctTcctgcaactgcttttctgtc	4	17	5	15	0	3	0	1	0	2	0	6	0	5	0	3	0	5	4	3	0	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:121414358T>C	uc003eei.3	-	13	5123	c.4997A>G	c.(4996-4998)GAA>GGA	p.E1666G	GOLGB1_uc010hrc.2_Missense_Mutation_p.E1671G|GOLGB1_uc003eej.3_Missense_Mutation_p.E1632G|GOLGB1_uc011bjm.1_Missense_Mutation_p.E1552G|GOLGB1_uc010hrd.1_Missense_Mutation_p.E1630G	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1666	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TTGCTCAGCTTCCTGCAACTG	0.428													10	378					0	0	1	0	0		C	121414358	C	C	121414358	3	2	151	1	0	0	0	0	1	0	0	0	6580	1783	62	3	4822	3	GOLGB1	3	121414358	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4527	121414358	76608072	967	78132											
GOLGB1	2804	broad.mit.edu	37	chr3	121415161	121415161	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctttttgcttatgagtttTtgcagttcatccagtttagg	6	20	8	7	0	1	1	1	1	0	0	3	1	3	1	2	1	2	5	2	1	2	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:121415161T>C	uc003eei.3	-	13	4320	c.4194A>G	c.(4192-4194)CAA>CAG	p.Q1398Q	GOLGB1_uc010hrc.2_Silent_p.Q1403Q|GOLGB1_uc003eej.3_Silent_p.Q1364Q|GOLGB1_uc011bjm.1_Silent_p.Q1284Q|GOLGB1_uc010hrd.1_Silent_p.Q1362Q	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1398	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TTATGAGTTTTTGCAGTTCAT	0.408													19	362					0	0	1	0	0		C	121415161	C	C	121415161	2	2	151	1	0	0	0	0	0	0	0	1	6580	1838	64	3		3	GOLGB1	3	121415161	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	803	121415161	76607269	968	78133											
GOLGB1	2804	broad.mit.edu	37	chr3	121417318	121417318	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcatcctgatgacactgAccaatatctggtacagcaga	14	9	7	11	0	2	4	1	3	1	1	3	4	3	4	2	1	3	2	2	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:121417318A>G	uc003eei.3	-	13	2163	c.2037T>C	c.(2035-2037)GGT>GGC	p.G679G	GOLGB1_uc010hrc.2_Silent_p.G684G|GOLGB1_uc003eej.3_Silent_p.G645G|GOLGB1_uc011bjm.1_Silent_p.G565G|GOLGB1_uc010hrd.1_Silent_p.G643G	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	679	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		GATGACACTGACCAATATCTG	0.353													39	146					0	0	1	0	0		G	121417318	G	G	121417318	2	3	151	1	0	0	0	0	0	0	0	1	6580	262	10	3		3	GOLGB1	3	121417318	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2157	121417318	76605112	969	78134											
ILDR1	286676	broad.mit.edu	37	chr3	121712306	121712306	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggctcggccgccagcgTgcctcactggatgaggggac	5	6	18	12	3	1	1	1	1	0	0	2	3	1	3	3	6	2	1	3	6	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:121712306T>C	uc003ees.2	-	7	1396	c.1290A>G	c.(1288-1290)GCA>GCG	p.A430A	ILDR1_uc003eeq.2_Silent_p.A398A|ILDR1_uc003eer.2_Silent_p.A386A|ILDR1_uc010hrg.2_Silent_p.A341A	NM_175924	NP_787120	Q86SU0	ILDR1_HUMAN	immunoglobulin-like domain containing receptor	430	Cytoplasmic (Potential).					cytosol|integral to membrane|plasma membrane	receptor activity			skin(1)	1				GBM - Glioblastoma multiforme(114;0.156)		GCCGCCAGCGTGCCTCACTGG	0.652													5	21					0	0	1	0	0		C	121712306	C	C	121712306	2	2	151	1	0	0	0	0	0	0	0	1	7725	1683	59	3		3	ILDR1	3	121712306	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	294988	121712306	76310124	970	78135											
CASR	846	broad.mit.edu	37	chr3	122003712	122003712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaggtcatctttggcagcGgcacggtcaccttctcactg	8	10	11	12	2	4	1	3	0	2	1	5	1	4	1	1	4	1	2	1	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:122003712G>A	uc003eev.3	+	7	3283	c.2911G>A	c.(2911-2913)GGC>AGC	p.G971S	CASR_uc003eew.3_Missense_Mutation_p.G981S	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	971	Cytoplasmic (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	CTTTGGCAGCGGCACGGTCAC	0.582													8	43					0	0	1	0	0		A	122003712	A	A	122003712	3	1	151	1	0	0	0	0	1	0	0	0	2685	1116	39	1	2963	1	CASR	3	122003712	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	291406	122003712	76018718	971	78136											
PARP15	165631	broad.mit.edu	37	chr3	122335917	122335917	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatatgaaatgaaaatcggTgcaattacttttcaggttgc	13	13	9	6	1	1	2	1	2	0	0	2	2	1	2	0	2	3	3	0	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:122335917T>C	uc003efm.2	+	6	972	c.906T>C	c.(904-906)GGT>GGC	p.G302G	PARP15_uc003efn.2_Intron|PARP15_uc003efo.1_Silent_p.G49G|PARP15_uc003efp.1_Silent_p.G68G|PARP15_uc011bjt.1_Silent_p.G68G	NM_001113523	NP_001106995	Q460N3	PAR15_HUMAN	poly (ADP-ribose) polymerase family, member 15	280	Macro 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	NAD+ ADP-ribosyltransferase activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)	5				GBM - Glioblastoma multiforme(114;0.0531)		TGAAAATCGGTGCAATTACTT	0.403													21	256					0	0	1	0	0		C	122335917	C	C	122335917	2	2	151	1	0	0	0	0	0	0	0	1	11478	1683	59	3		3	PARP15	3	122335917	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	332205	122335917	75686513	972	78137											
ADCY5	111	broad.mit.edu	37	chr3	123021996	123021996	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actccgccacgtgacacgcgTtgacctggctcgcgctgatg	6	8	12	15	6	0	3	0	3	0	0	2	3	1	3	3	1	0	3	3	1	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:123021996T>C	uc003egh.1	-	14	2630	c.2630A>G	c.(2629-2631)AAC>AGC	p.N877S	ADCY5_uc003egg.1_Missense_Mutation_p.N510S|ADCY5_uc003egi.1_Missense_Mutation_p.N436S	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	877	Extracellular (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		GTGACACGCGTTGACCTGGCT	0.642													6	38					0	0	1	0	0		C	123021996	C	C	123021996	3	2	151	1	0	0	0	0	1	0	0	0	297	1725	60	3	1187	3	ADCY5	3	123021996	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	686079	123021996	75000434	973	78138											
KALRN	8997	broad.mit.edu	37	chr3	124281903	124281903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacactcccgaagcagcGtggagatggactgcttcttc	8	10	10	13	2	2	1	1	0	2	1	5	4	3	2	1	2	3	2	1	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:124281903G>A	uc003ehg.2	+	34	5270	c.5143G>A	c.(5143-5145)GTG>ATG	p.V1715M	KALRN_uc003ehi.2_Missense_Mutation_p.V88M	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1715					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						CCGAAGCAGCGTGGAGATGGA	0.637													27	83					0	0	1	0	0		A	124281903	A	A	124281903	3	1	151	1	0	0	0	0	1	0	0	0	7991	1145	40	1	5344	1	KALRN	3	124281903	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1259907	124281903	73740527	974	78139											
ITGB5	3693	broad.mit.edu	37	chr3	124487942	124487942	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtttcccagagtggagcagCaggcactcgacgcaatctct	9	8	12	12	2	1	1	0	0	1	1	4	3	2	2	1	3	2	5	1	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:124487942C>T	uc003eho.2	-	12	2232	c.1935G>A	c.(1933-1935)CTG>CTA	p.L645L	ITGB5_uc010hrx.2_RNA	NM_002213	NP_002204	P18084	ITB5_HUMAN	integrin, beta 5 precursor	645	Extracellular (Potential).			L -> P (in Ref. 3; AAA59183).	cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)		AGTGGAGCAGCAGGCACTCGA	0.547													20	73					0	0	1	0	0		T	124487942	T	T	124487942	2	4	151	1	0	0	0	0	0	0	0	1	7914	697	25	2		2	ITGB5	3	124487942	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	206039	124487942	73534488	975	78140											
SLC12A8	84561	broad.mit.edu	37	chr3	124826845	124826845	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taagagtagtccactgcaacGtatgtcagcatgaagttgat	13	11	10	7	1	1	3	1	2	0	1	2	3	2	3	1	0	3	5	1	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:124826845G>A	uc003ehv.3	-	10	1296	c.1185C>T	c.(1183-1185)TAC>TAT	p.Y395Y	SLC12A8_uc003ehw.3_Silent_p.Y424Y|SLC12A8_uc003eht.3_Silent_p.Y196Y|SLC12A8_uc003ehu.3_Silent_p.Y148Y|SLC12A8_uc010hry.2_Silent_p.Y148Y	NM_024628	NP_078904	A0AV02	S12A8_HUMAN	solute carrier family 12, member 8	395	Helical; (Potential).				potassium ion transport	integral to membrane	symporter activity				0						CCACTGCAACGTATGTCAGCA	0.572													10	38					0	0	1	0	0		A	124826845	A	A	124826845	2	1	151	1	0	0	0	0	0	0	0	1	14414	1140	40	1		1	SLC12A8	3	124826845	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	338903	124826845	73195585	976	78141											
SLC12A8	84561	broad.mit.edu	37	chr3	124906230	124906230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgagggccaccaggatgaCgaaggacaccaggaacatgc	14	2	14	11	2	0	1	0	1	0	0	0	7	0	4	3	4	2	0	3	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:124906230C>T	uc003ehv.3	-	4	352	c.241G>A	c.(241-243)GTC>ATC	p.V81I	SLC12A8_uc003ehw.3_Missense_Mutation_p.V110I|SLC12A8_uc010hrz.1_5'UTR	NM_024628	NP_078904	A0AV02	S12A8_HUMAN	solute carrier family 12, member 8	81	Helical; (Potential).				potassium ion transport	integral to membrane	symporter activity				0						ACCAGGATGACGAAGGACACC	0.622													8	25					0	0	1	0	0		T	124906230	T	T	124906230	3	4	151	1	0	0	0	0	1	0	0	0	14414	536	19	1	1947	1	SLC12A8	3	124906230	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	79385	124906230	73116200	977	78142											
CCDC37	348807	broad.mit.edu	37	chr3	126154470	126154470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagcgggcccgggcgcGcgcccaggctgagatcaaga	7	4	16	14	5	2	2	1	1	1	2	2	3	2	2	2	3	2	2	2	3	1	0	rs142534437	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:126154470G>A	uc003eiu.1	+	16	1796	c.1697G>A	c.(1696-1698)CGC>CAC	p.R566H	CCDC37_uc010hsg.1_Missense_Mutation_p.R567H	NM_182628	NP_872434	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37	566	Potential.									ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.166)		GCCCGGGCGCGCGCCCAGGCT	0.602													4	28					0	0	1	0	0		A	126154470	A	A	126154470	3	1	151	1	0	0	0	0	1	0	0	0	2812	1087	38	1	1755	1	CCDC37	3	126154470	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1248240	126154470	71867960	978	78143											
UROC1	131669	broad.mit.edu	37	chr3	126222903	126222903	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccagccctgcctgtggcgTttctcaagggctgctttatc	5	12	11	13	1	1	0	1	0	1	0	3	0	1	0	3	2	4	3	3	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:126222903T>C	uc003eiz.1	-	9	869	c.837A>G	c.(835-837)AAA>AAG	p.K279K	UROC1_uc010hsi.1_Silent_p.K279K	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	279					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		GCCTGTGGCGTTTCTCAAGGG	0.572													5	46					0	0	1	0	0		C	126222903	C	C	126222903	2	2	151	1	0	0	0	0	0	0	0	1	17054	1722	60	3		3	UROC1	3	126222903	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	68433	126222903	71799527	979	78144											
PLXNA1	5361	broad.mit.edu	37	chr3	126733642	126733642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactgctcaccacactacCgcgccctgtcacccaagcgc	8	5	9	19	3	2	0	2	0	0	0	2	1	2	1	4	1	3	1	4	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:126733642C>T	uc003ejg.2	+	13	2780	c.2776C>T	c.(2776-2778)CGC>TGC	p.R926C		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	949	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		ACCACACTACCGCGCCCTGTC	0.647													5	20					0	0	1	0	0		T	126733642	T	T	126733642	3	4	151	1	0	0	0	0	1	0	0	0	12138	652	23	1	2895	1	PLXNA1	3	126733642	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	510739	126733642	71288788	980	78145											
PLXNA1	5361	broad.mit.edu	37	chr3	126748346	126748346	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctacaacatctccaacTcctccaccttcaccaagtcc	10	8	2	21	1	2	0	1	0	1	0	6	0	5	0	8	0	3	0	8	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:126748346T>C	uc003ejg.2	+	26	4772	c.4768T>C	c.(4768-4770)TCC>CCC	p.S1590P	PLXNA1_uc003ejh.2_Missense_Mutation_p.S258P	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1613	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CATCTCCAACTCCTCCACCTT	0.677													18	115					0	0	1	0	0		C	126748346	C	C	126748346	3	2	151	1	0	0	0	0	1	0	0	0	12138	1551	54	3	4939	3	PLXNA1	3	126748346	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	14704	126748346	71274084	981	78146											
ACAD9	28976	broad.mit.edu	37	chr3	128627052	128627052	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaatgagattctccggatgTacatcgccctgacgggtctg	8	10	11	12	3	2	2	0	2	2	1	4	4	2	3	3	2	1	1	3	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:128627052T>C	uc003ela.3	+	13	1505	c.1303T>C	c.(1303-1305)TAC>CAC	p.Y435H	ACAD9_uc010hsw.1_Missense_Mutation_p.Y312H|ACAD9_uc011bks.1_Missense_Mutation_p.Y312H|ACAD9_uc003elb.2_Missense_Mutation_p.Y312H|ACAD9_uc003eld.1_RNA|ACAD9_uc003ele.2_Missense_Mutation_p.Y87H	NM_014049	NP_054768	Q9H845	ACAD9_HUMAN	acyl-Coenzyme A dehydrogenase family, member 9	435						mitochondrion	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding			ovary(2)|central_nervous_system(1)	3						TCTCCGGATGTACATCGCCCT	0.597													44	160					0	0	1	0	0		C	128627052	C	C	128627052	3	2	151	1	0	0	0	0	1	0	0	0	111	1638	57	3	1353	3	ACAD9	3	128627052	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1878706	128627052	69395378	982	78147											
IFT122	55764	broad.mit.edu	37	chr3	129202433	129202433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaccttccctgtgcacCggcagaagctgcagggcttt	7	8	11	15	1	0	1	0	0	0	1	1	1	1	1	4	2	4	6	4	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:129202433C>T	uc003emm.2	+	15	1965	c.1759C>T	c.(1759-1761)CGG>TGG	p.R587W	IFT122_uc003eml.2_Missense_Mutation_p.R638W|IFT122_uc003emn.2_Missense_Mutation_p.R528W|IFT122_uc003emo.2_Missense_Mutation_p.R476W|IFT122_uc003emp.2_Missense_Mutation_p.R437W|IFT122_uc010htc.2_Missense_Mutation_p.R579W|IFT122_uc011bky.1_Missense_Mutation_p.R378W|IFT122_uc003emq.2_Missense_Mutation_p.R427W|IFT122_uc003emr.2_Missense_Mutation_p.R378W|IFT122_uc011bla.1_Missense_Mutation_p.R378W|IFT122_uc011bkx.1_Missense_Mutation_p.R427W|IFT122_uc011bkz.1_RNA|IFT122_uc010htd.1_Missense_Mutation_p.R66W	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	587					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						CCCTGTGCACCGGCAGAAGCT	0.562													14	30					0	0	1	0	0		T	129202433	T	T	129202433	3	4	151	1	0	0	0	0	1	0	0	0	7571	643	23	1	1974	1	IFT122	3	129202433	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	575381	129202433	68819997	983	78148											
TMCC1	23023	broad.mit.edu	37	chr3	129370592	129370592	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgctgctgctgctgcTgcagctccatcttggagatg	5	11	11	14	0	1	1	0	0	1	1	2	2	2	1	3	1	7	7	3	1	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:129370592T>C	uc003emz.3	-	7	2195	c.1694A>G	c.(1693-1695)CAG>CGG	p.Q565R	TMCC1_uc003emy.3_Missense_Mutation_p.Q241R|TMCC1_uc011blc.1_Missense_Mutation_p.Q386R|TMCC1_uc010htg.2_Missense_Mutation_p.Q451R	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	565	Potential.					integral to membrane				skin(1)	1						CTGCTGCTGCTGCAGCTCCAT	0.572													8	59					0	0	1	0	0		C	129370592	C	C	129370592	3	2	151	1	0	0	0	0	1	0	0	0	16017	1580	55	3	271	3	TMCC1	3	129370592	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	168159	129370592	68651838	984	78149											
COL6A6	131873	broad.mit.edu	37	chr3	130346189	130346189	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatggcagtccaggttatggTagtgtcggacgcaagggagc	9	8	17	7	2	0	0	0	0	0	0	2	3	1	2	1	5	1	4	1	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:130346189T>C	uc010htl.2	+	25	4999	c.4968T>C	c.(4966-4968)GGT>GGC	p.G1656G	COL6A6_uc003eni.3_5'UTR	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1656	Triple-helical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CAGGTTATGGTAGTGTCGGAC	0.433													16	78					0	0	1	0	0		C	130346189	C	C	130346189	2	2	151	1	0	0	0	0	0	0	0	1	3706	1625	57	3		3	COL6A6	3	130346189	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	975597	130346189	67676241	985	78150											
COL6A6	131873	broad.mit.edu	37	chr3	130394222	130394222	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaaggatgatagaaagtgCtcccaaacaacatgattaaa	18	8	9	6	0	0	3	0	2	0	1	1	5	1	5	1	2	3	1	1	2	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:130394222C>A	uc010htl.2	+	36	6804	c.6773C>A	c.(6772-6774)GCT>GAT	p.A2258D	COL6A6_uc003eni.3_Missense_Mutation_p.A357D	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	2258	Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						ATAGAAAGTGCTCCCAAACAA	0.373													5	17					0.0215528	0.0216404	1	1	0		A	130394222	A	A	130394222	3	1	151	1	0	0	0	0	1	0	0	0	3706	797	28	5	6915	5	COL6A6	3	130394222	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	48033	130394222	67628208	986	78151											
ASTE1	28990	broad.mit.edu	37	chr3	130743233	130743233	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacactggaagaagtcctgTagcttcacctgggactgttg	9	10	11	11	0	1	1	1	0	0	1	2	3	2	3	3	2	1	3	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:130743233T>C	uc003env.1	-	3	1360	c.918A>G	c.(916-918)CTA>CTG	p.L306L	NEK11_uc003enx.2_5'Flank|NEK11_uc003eny.2_5'Flank|NEK11_uc003eoa.2_5'Flank|NEK11_uc003enz.2_5'Flank|NEK11_uc010htn.2_5'Flank|NEK11_uc011blk.1_5'Flank|NEK11_uc011bll.1_5'Flank|NEK11_uc003enw.1_5'Flank|NEK11_uc011blm.1_5'Flank|ASTE1_uc010htm.1_Silent_p.L306L|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	306					DNA repair		nuclease activity				0						AGAAGTCCTGTAGCTTCACCT	0.423													46	126					0	0	1	0	0		C	130743233	C	C	130743233	2	2	151	1	0	0	0	0	0	0	0	1	1063	1625	57	3		3	ASTE1	3	130743233	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	349011	130743233	67279197	987	78152											
DNAJC13	23317	broad.mit.edu	37	chr3	132213065	132213065	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatgatgtcaatagatgaTgcttatgaagtgcttaatct	12	15	8	6	0	2	4	1	3	1	1	2	4	2	4	1	0	2	2	1	0	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:132213065T>C	uc003eor.2	+	34	3968	c.3903T>C	c.(3901-3903)GAT>GAC	p.D1301D		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1301	J.						heat shock protein binding			ovary(1)|breast(1)	2						CAATAGATGATGCTTATGAAG	0.378													25	117					0	0	1	0	0		C	132213065	C	C	132213065	2	2	151	1	0	0	0	0	0	0	0	1	4638	1461	51	3		3	DNAJC13	3	132213065	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1469832	132213065	65809365	988	78153											
TMEM108	66000	broad.mit.edu	37	chr3	132948153	132948153	+	Translation_Start_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gataagcaggaccagatgatAccatgaagagaagtttacag	17	7	11	6	0	0	4	0	2	0	2	0	7	0	5	2	1	3	2	2	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:132948153A>G	uc003eph.2	+	3	272	c.-2A>G	c.(-4-0)ATACC>ATGCC		TMEM108_uc003epi.2_Translation_Start_Site|TMEM108_uc003epj.1_Translation_Start_Site|TMEM108_uc003epk.2_Translation_Start_Site	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor							integral to membrane				ovary(2)|skin(2)	4						ACCAGATGATACCATGAAGAG	0.343													4	109					0	0	1	0	0		G	132948153	G	G	132948153	1	3	151	1	0	0	0	0	0	0	0	0	16049	406	14	3		3	TMEM108	3	132948153	Translation_Start_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	735088	132948153	65074277	989	78154											
BFSP2	8419	broad.mit.edu	37	chr3	133167397	133167397	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaactctctgtataaagtcAttgatgaggctaatttgact	12	16	7	6	0	2	3	1	3	1	0	3	3	2	3	0	1	1	2	0	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:133167397A>G	uc003epn.1	+	3	775	c.637A>G	c.(637-639)ATT>GTT	p.I213V	uc003epo.2_Intron	NM_003571	NP_003562	Q13515	BFSP2_HUMAN	phakinin	213	Rod.|Potential.				response to stimulus|visual perception	cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens				0						GTATAAAGTCATTGATGAGGC	0.378													15	63					0	0	1	0	0		G	133167397	G	G	133167397	3	3	151	1	0	0	0	0	1	0	0	0	1417	217	8	3	647	3	BFSP2	3	133167397	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	219244	133167397	64855033	990	78155											
TOPBP1	11073	broad.mit.edu	37	chr3	133356834	133356834	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctactgctggggaggctgcGacctgtctggcatgttgtga	5	11	15	10	1	1	1	0	1	1	0	1	3	1	2	2	4	3	4	2	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:133356834G>A	uc003eps.2	-	14	2538	c.2406C>T	c.(2404-2406)GTC>GTT	p.V802V		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	802					DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						GGGAGGCTGCGACCTGTCTGG	0.493								Other_conserved_DNA_damage_response_genes					68	239					0	0	1	0	0		A	133356834	A	A	133356834	2	1	151	1	0	0	0	0	0	0	0	1	16395	1045	37	1		1	TOPBP1	3	133356834	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	189437	133356834	64665596	991	78156											
TOPBP1	11073	broad.mit.edu	37	chr3	133358933	133358933	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcttcatatttagagccAccacgttctttcagtataag	11	13	7	10	1	3	1	2	0	1	1	3	1	3	1	2	0	2	4	2	0	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:133358933A>G	uc003eps.2	-	13	2235	c.2103T>C	c.(2101-2103)GGT>GGC	p.G701G		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	701	BRCT 5.				DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						ATTTAGAGCCACCACGTTCTT	0.408								Other_conserved_DNA_damage_response_genes					17	62					0	0	1	0	0		G	133358933	G	G	133358933	2	3	151	1	0	0	0	0	0	0	0	1	16395	146	6	3		3	TOPBP1	3	133358933	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2099	133358933	64663497	992	78157											
TF	7018	broad.mit.edu	37	chr3	133467417	133467417	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctaccttgattgcatcAgggccattgcggtaagtcgc	7	11	10	13	2	1	1	1	1	0	0	3	1	2	1	4	2	3	2	4	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:133467417A>G	uc003epu.1	+	7	1933	c.205A>G	c.(205-207)AGG>GGG	p.R69G	TF_uc011bls.1_Missense_Mutation_p.R69G|TF_uc011blt.1_Intron|TF_uc003epw.1_Intron|TF_uc010htv.1_RNA|TF_uc003epv.1_Missense_Mutation_p.R69G	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	69	Transferrin-like 1.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	TGATTGCATCAGGGCCATTGC	0.473													13	61					0	0	1	0	0		G	133467417	G	G	133467417	3	3	151	1	0	0	0	0	1	0	0	0	15810	179	7	3	211	3	TF	3	133467417	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	108484	133467417	64555013	993	78158											
MSL2	55167	broad.mit.edu	37	chr3	135870304	135870304	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttggcctcggcatgtaagAacacttggattttgagtagc	9	12	12	8	2	0	2	0	1	0	1	1	3	0	3	1	3	2	4	1	3	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:135870304A>G	uc003eqx.1	-	2	2152	c.1419T>C	c.(1417-1419)GTT>GTC	p.V473V	MSL2_uc011bmb.1_Silent_p.V399V	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	473					histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						GGCATGTAAGAACACTTGGAT	0.473													27	103					0	0	1	0	0		G	135870304	G	G	135870304	2	3	151	1	0	0	0	0	0	0	0	1	9896	233	9	3		3	MSL2	3	135870304	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2402887	135870304	62152126	994	78159											
STAG1	10274	broad.mit.edu	37	chr3	136057249	136057249	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctgcagagtcaaagaagTctggccttagctcagctctc	10	10	10	11	0	4	2	2	0	2	2	5	2	4	2	1	1	4	4	1	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:136057249T>C	uc003era.1	-	33	4008	c.3716A>G	c.(3715-3717)GAC>GGC	p.D1239G	STAG1_uc003erb.1_Missense_Mutation_p.D1202G	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	1239					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						GTCAAAGAAGTCTGGCCTTAG	0.368													20	121					0	0	1	0	0		C	136057249	C	C	136057249	3	2	151	1	0	0	0	0	1	0	0	0	15267	1667	58	3	68	3	STAG1	3	136057249	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	186945	136057249	61965181	995	78160											
STAG1	10274	broad.mit.edu	37	chr3	136062728	136062728	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaggttcttgaatctggTctcccatgggccgactgttc	6	13	10	12	1	4	1	1	1	3	0	6	2	4	1	2	3	0	2	2	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:136062728T>C	uc003era.1	-	30	3684	c.3392A>G	c.(3391-3393)GAC>GGC	p.D1131G	STAG1_uc003erb.1_Missense_Mutation_p.D1131G	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	1131					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						TTGAATCTGGTCTCCCATGGG	0.458													4	136					0	0	1	0	0		C	136062728	C	C	136062728	3	2	151	1	0	0	0	0	1	0	0	0	15267	1667	58	3	404	3	STAG1	3	136062728	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5479	136062728	61959702	996	78161											
DBR1	51163	broad.mit.edu	37	chr3	137886057	137886057	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcttgtcggaaaaaagAtttagtcttaagaagttgct	13	14	8	6	1	2	2	0	0	2	2	3	3	2	3	0	1	1	2	0	1	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:137886057A>G	uc003erv.2	-	5	716	c.580T>C	c.(580-582)TCT>CCT	p.S194P	DBR1_uc003eru.2_Missense_Mutation_p.S143P	NM_016216	NP_057300	Q9UK59	DBR1_HUMAN	debranching enzyme homolog 1	194						nucleus	metal ion binding|RNA lariat debranching enzyme activity				0						CGGAAAAAAGATTTAGTCTTA	0.368													4	151					0	0	1	0	0		G	137886057	G	G	137886057	3	3	151	1	0	0	0	0	1	0	0	0	4260	333	12	3	1070	3	DBR1	3	137886057	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1823329	137886057	60136373	997	78162											
ESYT3	83850	broad.mit.edu	37	chr3	138193080	138193080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagaaacctaacaccatgtaCcagcagtggagctgatccct	13	7	8	13	0	0	2	0	1	0	1	1	3	1	3	4	1	5	3	4	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:138193080C>T	uc003esk.2	+	20	2580	c.2354C>T	c.(2353-2355)ACC>ATC	p.T785I		NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain	785	C2 3.					integral to membrane|plasma membrane					0						ACACCATGTACCAGCAGTGGA	0.448													44	193					0	0	1	0	0		T	138193080	T	T	138193080	3	4	151	1	0	0	0	0	1	0	0	0	5274	507	18	4	2432	4	ESYT3	3	138193080	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	307023	138193080	59829350	998	78163											
FOXL2	668	broad.mit.edu	37	chr3	138665239	138665239	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaccttgatgaagcactcgTtgaggctgaggttgtggcgg	7	10	16	8	2	0	4	0	4	0	0	1	4	0	4	1	4	1	5	1	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:138665239T>C	uc003esw.2	-	1	744	c.326A>G	c.(325-327)AAC>AGC	p.N109S	uc003esv.1_5'Flank|C3orf72_uc003esx.1_5'Flank|C3orf72_uc011bmr.1_5'Flank	NM_023067	NP_075555	P58012	FOXL2_HUMAN	forkhead box L2	109	Fork-head.		N -> K (in BPES; type II; diffuse nuclear localization as wild type; impaired transactivation activity).		convergent extension|DNA fragmentation involved in apoptotic nuclear change|embryonic eye morphogenesis|extraocular skeletal muscle development|female somatic sex determination|induction of apoptosis|menstruation|negative regulation of transcription, DNA-dependent|ovarian follicle development|pattern specification process|positive regulation of caspase activity|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	caspase regulator activity|DNA bending activity|double-stranded DNA binding|estrogen receptor binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|ubiquitin conjugating enzyme binding			ovary(266)|large_intestine(1)|skin(1)	268						GAAGCACTCGTTGAGGCTGAG	0.587			Mis		granulosa-cell tumour of the ovary		Blepharophimosis|ptosis and epicanthus inversus Types I|II; Premature ovarian failure type III						5	34					0	0	1	0	0		C	138665239	C	C	138665239	3	2	151	1	0	0	0	0	1	0	0	0	6031	1725	60	3	808	3	FOXL2	3	138665239	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	472159	138665239	59357191	999	78164											
COPB2	9276	broad.mit.edu	37	chr3	139077910	139077910	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacccattcttcaacaacaAaggcttcttttaatccaggg	12	12	5	12	0	4	0	2	0	2	0	5	0	5	0	2	2	2	1	2	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:139077910A>G	uc003etf.3	-	19	2544	c.2414T>C	c.(2413-2415)TTT>TCT	p.F805S	COPB2_uc011bmv.1_Missense_Mutation_p.F776S|COPB2_uc010hui.2_Missense_Mutation_p.F776S	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	805					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						TTCAACAACAAAGGCTTCTTT	0.453													40	180					0	0	1	0	0		G	139077910	G	G	139077910	3	3	151	1	0	0	0	0	1	0	0	0	3732	14	1	3	322	3	COPB2	3	139077910	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	412671	139077910	58944520	1000	78165											
TRIM42	287015	broad.mit.edu	37	chr3	140406631	140406631	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacagctttaaagctgacaaGgaggcaaagcgaaaagagat	19	5	11	6	1	0	2	0	1	0	1	0	5	0	3	0	2	4	3	0	2	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:140406631G>T	uc003eto.1	+	3	1298	c.1107G>T	c.(1105-1107)AAG>AAT	p.K369N		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	369						intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						AAGCTGACAAGGAGGCAAAGC	0.363													10	61					1.76689e-08	1.81124e-08	1	1	0		T	140406631	T	T	140406631	3	4	151	1	0	0	0	0	1	0	0	0	16543	991	35	5	1117	5	TRIM42	3	140406631	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1328721	140406631	57615799	1001	78166											
RASA2	5922	broad.mit.edu	37	chr3	141292021	141292021	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaatcctgtgaaatcgaTcctattaaattgaaagaggg	16	11	8	6	1	1	3	1	2	0	1	4	4	3	3	2	1	0	0	2	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:141292021T>C	uc003etz.1	+	13	1317	c.1317T>C	c.(1315-1317)GAT>GAC	p.D439D	RASA2_uc010huq.1_Silent_p.D439D|RASA2_uc003eua.1_Silent_p.D439D|RASA2_uc011bnc.1_Silent_p.D31D	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	439	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6						GTGAAATCGATCCTATTAAAT	0.254													21	82					0	0	1	0	0		C	141292021	C	C	141292021	2	2	151	1	0	0	0	0	0	0	0	1	13086	1432	50	3		3	RASA2	3	141292021	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	885390	141292021	56730409	1002	78167											
RASA2	5922	broad.mit.edu	37	chr3	141300007	141300007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagaagaaggatatattatAgcagttaaaaaggtatgatg	19	10	10	2	0	0	3	0	1	0	2	0	4	0	4	0	2	1	3	0	2	11	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:141300007A>G	uc003etz.1	+	17	1740	c.1740A>G	c.(1738-1740)ATA>ATG	p.I580M	RASA2_uc010huq.1_Missense_Mutation_p.I580M|RASA2_uc003eua.1_Missense_Mutation_p.I580M|RASA2_uc011bnc.1_Missense_Mutation_p.I172M	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	580					intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6						GATATATTATAGCAGTTAAAA	0.249													6	35					0	0	1	0	0		G	141300007	G	G	141300007	3	3	151	1	0	0	0	0	1	0	0	0	13086	410	15	3	1806	3	RASA2	3	141300007	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	7986	141300007	56722423	1003	78168											
XRN1	54464	broad.mit.edu	37	chr3	142103414	142103414	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacttgttttgaccactgtTtctctagacgaacttcacca	10	14	5	12	1	2	2	1	1	1	1	3	3	2	2	2	0	2	2	2	0	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:142103414T>G	uc003eus.2	-	21	2520	c.2453A>C	c.(2452-2454)AAA>ACA	p.K818T	XRN1_uc010huu.2_Missense_Mutation_p.K284T|XRN1_uc003eut.2_Missense_Mutation_p.K818T|XRN1_uc003euu.2_Missense_Mutation_p.K818T|XRN1_uc003euv.1_Missense_Mutation_p.K679T	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	818					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						TGACCACTGTTTCTCTAGACG	0.303													6	236					0	0	1	0	0		G	142103414	G	G	142103414	3	3	151	1	0	0	0	0	1	0	0	0	17485	1841	64	5	2755	5	XRN1	3	142103414	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	803407	142103414	55919016	1004	78169											
XRN1	54464	broad.mit.edu	37	chr3	142137699	142137699	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatttttgtctaaagcagTccaacacagagaattttcct	12	15	5	9	0	2	1	1	0	1	1	4	2	4	1	2	0	2	1	2	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:142137699T>C	uc003eus.2	-	11	1265	c.1198A>G	c.(1198-1200)ACT>GCT	p.T400A	XRN1_uc003eut.2_Missense_Mutation_p.T400A|XRN1_uc003euu.2_Missense_Mutation_p.T400A|XRN1_uc003euv.1_Missense_Mutation_p.T261A|XRN1_uc003euw.2_Missense_Mutation_p.T400A|XRN1_uc011bnh.1_Missense_Mutation_p.T190A	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	400					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						TCTAAAGCAGTCCAACACAGA	0.338													33	138					0	0	1	0	0		C	142137699	C	C	142137699	3	2	151	1	0	0	0	0	1	0	0	0	17485	1667	58	3	4050	3	XRN1	3	142137699	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	34285	142137699	55884731	1005	78170											
PLS1	5357	broad.mit.edu	37	chr3	142423328	142423328	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacattgaatgtgttatcggAtcttggagagggtgaaaaag	13	11	13	4	1	1	3	0	2	1	1	2	5	1	4	0	3	0	1	0	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:142423328A>T	uc010huv.2	+	14	1688	c.1529A>T	c.(1528-1530)GAT>GTT	p.D510V	PLS1_uc003euz.2_Missense_Mutation_p.D510V|PLS1_uc003eva.2_Missense_Mutation_p.D510V	NM_001145319	NP_001138791	Q14651	PLSI_HUMAN	plastin 1	510	Actin-binding 2.					cytoplasm	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(1)	1						GTGTTATCGGATCTTGGAGAG	0.313													22	64					0	0	1	0	0		T	142423328	T	T	142423328	3	4	151	1	0	0	0	0	1	0	0	0	12126	333	12	5	1579	5	PLS1	3	142423328	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	285629	142423328	55599102	1006	78171											
SLC9A9	285195	broad.mit.edu	37	chr3	142987779	142987779	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaccattcaggtaatgttgTagtcagcggaggaccagagt	12	9	12	8	1	2	1	2	0	0	1	2	3	2	3	2	3	1	3	2	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:142987779T>C	uc003evn.2	-	15	1830	c.1648A>G	c.(1648-1650)ACA>GCA	p.T550A		NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	550					regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						GGTAATGTTGTAGTCAGCGGA	0.473													37	101					0	0	1	0	0		C	142987779	C	C	142987779	3	2	151	1	0	0	0	0	1	0	0	0	14746	1638	57	3	297	3	SLC9A9	3	142987779	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	564451	142987779	55034651	1007	78172											
PLSCR4	57088	broad.mit.edu	37	chr3	145914557	145914557	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacaaagccaatggtgacAccaggaggacactgcacctc	14	4	10	13	0	0	1	0	1	0	0	1	3	0	3	3	3	3	2	3	3	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:145914557A>G	uc010huy.2	-	7	977	c.648T>C	c.(646-648)GGT>GGC	p.G216G	PLSCR4_uc010huz.2_Silent_p.G216G|PLSCR4_uc003evt.3_Silent_p.G216G|PLSCR4_uc010hva.2_Silent_p.G126G|PLSCR4_uc003evu.3_Silent_p.G111G	NM_001128305	NP_001121777	Q9NRQ2	PLS4_HUMAN	phospholipid scramblase 4 isoform a	216	Cytoplasmic (By similarity).				blood coagulation|phospholipid scrambling	integral to membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding				0						CAATGGTGACACCAGGAGGAC	0.463													17	70					0	0	1	0	0		G	145914557	G	G	145914557	2	3	151	1	0	0	0	0	0	0	0	1	12131	146	6	3		3	PLSCR4	3	145914557	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2926778	145914557	52107873	1008	78173											
ZIC4	84107	broad.mit.edu	37	chr3	147120530	147120530	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacttgactctttaagagTgtttcggtaaagccgtaatc	10	15	8	8	2	1	2	0	1	1	1	3	2	1	2	1	1	2	3	1	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:147120530T>C	uc003ewd.1	-	2	328	c.55A>G	c.(55-57)ACT>GCT	p.T19A	ZIC4_uc011bno.1_Missense_Mutation_p.T69A	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	19						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						TCTTTAAGAGTGTTTCGGTAA	0.323													63	212					0	0	1	0	0		C	147120530	C	C	147120530	3	2	151	1	0	0	0	0	1	0	0	0	17706	1696	59	3	965	3	ZIC4	3	147120530	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1205973	147120530	50901900	1009	78174											
ZIC1	7545	broad.mit.edu	37	chr3	147128763	147128763	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccttcaaagccaaatacaaActggttaaccacatccgcgt	14	8	5	14	2	1	0	1	0	0	0	2	0	2	0	4	1	4	1	4	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:147128763A>G	uc003ewe.2	+	1	1583	c.864A>G	c.(862-864)AAA>AAG	p.K288K		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	288	C2H2-type 2; atypical.				behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCAAATACAAACTGGTTAACC	0.587													14	96					0	0	1	0	0		G	147128763	G	G	147128763	2	3	151	1	0	0	0	0	0	0	0	1	17703	40	2	3		3	ZIC1	3	147128763	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	8233	147128763	50893667	1010	78175											
RNF13	11342	broad.mit.edu	37	chr3	149589943	149589943	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtaattttgatataaaggTatgattatcttttttcattt	11	23	5	2	0	2	2	1	2	1	0	2	2	2	2	0	1	0	2	0	1	6	12			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:149589943T>C	uc003exn.3	+	5	1105	c.321_splice	c.e5+2	p.K107_splice	RNF13_uc003exp.3_Splice_Site_p.K107_splice|RNF13_uc010hvh.2_Splice_Site	NM_007282	NP_009213	O43567	RNF13_HUMAN	ring finger protein 13						protein autoubiquitination	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane|nuclear inner membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		all_neural(597;0.0138)|Myeloproliferative disorder(1037;0.0255)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GATATAAAGGTATGATTATCT	0.294													10	46					0	0	1	0	0		C	149589943	C	C	149589943	5	2	151	1	0	0	0	0	0	0	1	0	13462	1652	57	3	333	3	RNF13	3	149589943	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2461180	149589943	48432487	1011	78176											
P2RY14	9934	broad.mit.edu	37	chr3	150931733	150931733	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaagtccaaagaggcttTacaattttataatatctgtc	16	13	6	6	0	1	2	0	0	1	2	3	2	2	2	1	1	1	1	1	1	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:150931733T>C	uc003eyr.1	-	3	850	c.372A>G	c.(370-372)GTA>GTG	p.V124V	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY14_uc003eys.1_Silent_p.V124V	NM_001081455	NP_001074924	Q15391	P2Y14_HUMAN	P2Y14 receptor	124	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled|UDP-activated nucleotide receptor activity			large_intestine(2)|ovary(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AAAGAGGCTTTACAATTTTAT	0.423													21	99					0	0	1	0	0		C	150931733	C	C	150931733	2	2	151	1	0	0	0	0	0	0	0	1	11370	1741	61	3		3	P2RY14	3	150931733	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1341790	150931733	47090697	1012	78177											
P2RY13	53829	broad.mit.edu	37	chr3	151046137	151046137	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggactttctataagaatcaTatactttttttgcaataacc	13	17	4	7	0	2	1	1	0	1	1	2	2	2	2	1	1	3	1	1	1	7	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:151046137T>C	uc003eyv.2	-	2	728	c.707A>G	c.(706-708)TAT>TGT	p.Y236C	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_176894	NP_795713	Q9BPV8	P2Y13_HUMAN	purinergic receptor P2Y, G-protein coupled, 13	236	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(3)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0189)|Lung(72;0.0278)			ATAAGAATCATATACTTTTTT	0.328													22	110					0	0	1	0	0		C	151046137	C	C	151046137	3	2	151	1	0	0	0	0	1	0	0	0	11369	1406	49	3	361	3	P2RY13	3	151046137	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	114404	151046137	46976293	1013	78178											
MED12L	116931	broad.mit.edu	37	chr3	151085530	151085530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggacgtcgtgcagcatgtcGcacttccctctcttctagca	7	11	9	14	3	2	0	0	0	2	0	6	1	3	1	1	1	3	4	1	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:151085530G>A	uc003eyp.2	+	22	3357	c.3319G>A	c.(3319-3321)GCA>ACA	p.A1107T	MED12L_uc011bnz.1_Missense_Mutation_p.A967T|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.A270T	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1107					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GCAGCATGTCGCACTTCCCTC	0.453													57	189					0	0	1	0	0		A	151085530	A	A	151085530	3	1	151	1	0	0	0	0	1	0	0	0	9447	1087	38	1	3405	1	MED12L	3	151085530	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	39393	151085530	46936900	1014	78179											
IGSF10	285313	broad.mit.edu	37	chr3	151155548	151155548	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacatgacttcaggagaTggtgtcccttcagctctgca	9	11	9	12	0	3	2	2	1	1	1	5	3	5	2	2	2	2	2	2	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:151155548T>C	uc011bod.1	-	6	6801	c.6801A>G	c.(6799-6801)CCA>CCG	p.P2267P	IGSF10_uc011bob.1_Silent_p.P294P|IGSF10_uc011boc.1_Silent_p.P246P	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	2267	Ig-like C2-type 9.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTTCAGGAGATGGTGTCCCTT	0.408													53	196					0	0	1	0	0		C	151155548	C	C	151155548	2	2	151	1	0	0	0	0	0	0	0	1	7613	1451	51	3		3	IGSF10	3	151155548	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	70018	151155548	46866882	1015	78180											
AADACL2	344752	broad.mit.edu	37	chr3	151475230	151475230	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgatggacttatgtatgttAcaagacttcgaaatgttgga	13	14	10	4	1	0	2	0	1	0	1	1	5	0	4	0	2	1	3	0	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:151475230A>G	uc003ezc.2	+	5	1174	c.1054A>G	c.(1054-1056)ACA>GCA	p.T352A	AADACL2_uc010hvn.2_Missense_Mutation_p.T139A	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2 precursor	352						extracellular region|integral to membrane	carboxylesterase activity				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			TATGTATGTTACAAGACTTCG	0.358													41	223					0	0	1	0	0		G	151475230	G	G	151475230	3	3	151	1	0	0	0	0	1	0	0	0	11	391	14	3	1072	3	AADACL2	3	151475230	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	319682	151475230	46547200	1016	78181											
SLC33A1	9197	broad.mit.edu	37	chr3	155560327	155560327	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgtgtttcttcttttactActgatacttcgttttctttt	4	25	4	8	1	3	1	0	1	3	0	4	1	3	1	0	0	3	2	0	0	3	12			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:155560327A>G	uc003fan.3	-	2	1238	c.857T>C	c.(856-858)GTA>GCA	p.V286A	SLC33A1_uc003fao.1_Missense_Mutation_p.V286A	NM_004733	NP_004724	O00400	ACATN_HUMAN	acetyl-coenzyme A transporter	286	Cytoplasmic (Potential).				cell death|transmembrane transport	endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane|membrane fraction	acetyl-CoA transporter activity			ovary(2)|large_intestine(1)|pancreas(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TTCTTTTACTACTGATACTTC	0.318													19	68					0	0	1	0	0		G	155560327	G	G	155560327	3	3	151	1	0	0	0	0	1	0	0	0	14591	391	14	3	812	3	SLC33A1	3	155560327	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4085097	155560327	42462103	1017	78182											
GFM1	85476	broad.mit.edu	37	chr3	158402330	158402330	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggggtttttagatgcctgCgagaagggccctctttctgg	6	12	14	9	1	2	2	0	0	2	2	2	3	2	2	2	4	2	1	2	4	2	4	rs141903395		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:158402330C>T	uc003fce.2	+	15	1889	c.1782C>T	c.(1780-1782)TGC>TGT	p.C594C	GFM1_uc003fcf.2_RNA|GFM1_uc003fcg.2_Silent_p.C525C	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor	594					mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			TAGATGCCTGCGAGAAGGGCC	0.438													20	100					0	0	1	0	0		T	158402330	T	T	158402330	2	4	151	1	0	0	0	0	0	0	0	1	6356	776	27	1		1	GFM1	3	158402330	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2842003	158402330	39620100	1018	78183											
NMD3	51068	broad.mit.edu	37	chr3	160955951	160955951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacatgctcagaagatggtcGaatttcttcagtgtacagtt	12	13	9	7	1	3	2	2	0	1	2	4	3	3	2	0	1	3	3	0	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:160955951G>A	uc003feb.1	+	8	747	c.628G>A	c.(628-630)GAA>AAA	p.E210K	NMD3_uc003fec.2_Missense_Mutation_p.E210K|NMD3_uc003fed.1_Missense_Mutation_p.E210K|NMD3_uc010hwh.2_Missense_Mutation_p.E30K	NM_015938	NP_057022	Q96D46	NMD3_HUMAN	NMD3 homolog	210					protein transport	cytoplasm|nucleolus|nucleoplasm				ovary(1)	1			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			GAAGATGGTCGAATTTCTTCA	0.338													54	207					0	0	1	0	0		A	160955951	A	A	160955951	3	1	151	1	0	0	0	0	1	0	0	0	10507	1059	37	1	654	1	NMD3	3	160955951	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2553621	160955951	37066479	1019	78184											
SI	6476	broad.mit.edu	37	chr3	164767648	164767648	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaccttgaataaagctggAaacttcattcatgtcctgaa	14	12	7	8	0	2	3	2	3	0	0	3	4	3	4	2	1	3	1	2	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:164767648A>G	uc003fei.2	-	14	1590	c.1528T>C	c.(1528-1530)TCC>CCC	p.S510P		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	510	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	ATAAAGCTGGAAACTTCATTC	0.294										HNSCC(35;0.089)			25	91					0	0	1	0	0		G	164767648	G	G	164767648	3	3	151	1	0	0	0	0	1	0	0	0	14322	246	9	3	4095	3	SI	3	164767648	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3811697	164767648	33254782	1020	78185											
GOLIM4	27333	broad.mit.edu	37	chr3	167750468	167750468	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctccagggcctttctgTgctcctcttccacctgatgc	3	13	7	18	0	2	1	0	1	2	0	6	1	6	1	7	1	2	1	7	1	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:167750468T>C	uc003ffe.2	-	9	1360	c.1016A>G	c.(1015-1017)CAC>CGC	p.H339R	GOLIM4_uc011bpe.1_Missense_Mutation_p.H339R|GOLIM4_uc011bpf.1_Missense_Mutation_p.H311R|GOLIM4_uc011bpg.1_Missense_Mutation_p.H311R	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	339	Glu-rich.|Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						GGCCTTTCTGTGCTCCTCTTC	0.562													28	154					0	0	1	0	0		C	167750468	C	C	167750468	3	2	151	1	0	0	0	0	1	0	0	0	6581	1696	59	3	1106	3	GOLIM4	3	167750468	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2982820	167750468	30271962	1021	78186											
SLC7A14	57709	broad.mit.edu	37	chr3	170198305	170198305	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagctctgctctgagatgTagtcagaaccaaagatgatg	13	9	10	9	0	3	4	1	2	2	3	3	5	3	4	2	0	3	3	2	0	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:170198305T>C	uc003fgz.2	-	7	2082	c.1766A>G	c.(1765-1767)TAC>TGC	p.Y589C	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	589						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			CTCTGAGATGTAGTCAGAACC	0.562													15	83					0	0	1	0	0		C	170198305	C	C	170198305	3	2	151	1	0	0	0	0	1	0	0	0	14721	1638	57	3	557	3	SLC7A14	3	170198305	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2447837	170198305	27824125	1022	78187											
PLD1	5337	broad.mit.edu	37	chr3	171405313	171405313	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactcttctggatgggtaggTtttgaacaggctcattttta	8	17	10	6	0	3	1	1	1	2	0	3	2	3	2	0	4	2	3	0	4	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:171405313T>C	uc003fhs.2	-	15	1717	c.1601A>G	c.(1600-1602)AAC>AGC	p.N534S	PLD1_uc003fht.2_Missense_Mutation_p.N534S	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	534	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	GATGGGTAGGTTTTGAACAGG	0.373													32	162					0	0	1	0	0		C	171405313	C	C	171405313	3	2	151	1	0	0	0	0	1	0	0	0	12064	1725	60	3	1675	3	PLD1	3	171405313	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1207008	171405313	26617117	1023	78188											
PLD1	5337	broad.mit.edu	37	chr3	171406516	171406516	+	Missense_Mutation	SNP	C	T	T																															gacccgcttcacactgcccaCgtctgtgagtctgtgctcat																								rs149680370		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:171406516C>T	uc003fhs.2	-	14	1605	c.1489G>A	c.(1489-1491)GTG>ATG	p.V497M	PLD1_uc003fht.2_Missense_Mutation_p.V497M	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	497	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	ACACTGCCCACGTCTGTGAGT	0.483													25	79					0	0	1	0	0		T	171406516	T	T	171406516	3	4	151	1	0	0	0	0	1	0	0	0	12064	536	19	1	1791	1	PLD1	3	171406516	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1203	171406516	26615914	1024	78189	146	2									
PLD1	5337	broad.mit.edu	37	chr3	171406526	171406526	+	Silent	SNP	T	C	C																															acactgcccacgtctgtgagTctgtgctcattgtcgtccca																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:171406526T>C	uc003fhs.2	-	14	1595	c.1479A>G	c.(1477-1479)AGA>AGG	p.R493R	PLD1_uc003fht.2_Silent_p.R493R	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	493	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	CGTCTGTGAGTCTGTGCTCAT	0.507													21	82					0	0	1	0	0		C	171406526	C	C	171406526	2	2	151	1	0	0	0	0	0	0	0	1	12064	1664	58	3		3	PLD1	3	171406526	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10	171406526	26615904	1025	78190	146	2									
PLD1	5337	broad.mit.edu	37	chr3	171455811	171455811	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattttctgcagtgcagaggTatttacccgtggctcgtttt	7	16	10	8	2	1	1	0	0	1	1	2	1	1	1	1	2	3	5	1	2	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:171455811T>A	uc003fhs.2	-	2	147	c.31A>T	c.(31-33)ACC>TCC	p.T11S	PLD1_uc003fht.2_Missense_Mutation_p.T11S	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	11					cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	AGTGCAGAGGTATTTACCCGT	0.433													19	114					0	0	1	0	0		A	171455811	A	A	171455811	3	1	151	1	0	0	0	0	1	0	0	0	12064	1638	57	5	3297	5	PLD1	3	171455811	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	49285	171455811	26566619	1026	78191											
FNDC3B	64778	broad.mit.edu	37	chr3	172065073	172065073	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagatgaagaatccttagaActcatttatcatgggacaga	16	10	9	6	0	2	5	2	1	0	4	3	7	3	6	1	1	1	0	1	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:172065073A>G	uc003fhy.2	+	21	2608	c.2436A>G	c.(2434-2436)GAA>GAG	p.E812E	FNDC3B_uc003fhz.3_Silent_p.E812E	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	812	Fibronectin type-III 6.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		AATCCTTAGAACTCATTTATC	0.428													36	157					0	0	1	0	0		G	172065073	G	G	172065073	2	3	151	1	0	0	0	0	0	0	0	1	5984	40	2	3		3	FNDC3B	3	172065073	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	609262	172065073	25957357	1027	78192											
NCEH1	57552	broad.mit.edu	37	chr3	172365860	172365860	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacaatgataaaattcagTgccagcaggtgatggctcag	15	8	11	7	0	2	2	2	2	0	0	2	3	2	2	1	2	3	2	1	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:172365860T>C	uc011bpx.1	-	2	417	c.279A>G	c.(277-279)GCA>GCG	p.A93A	NCEH1_uc003fig.2_Silent_p.A93A|NCEH1_uc011bpw.1_5'UTR|NCEH1_uc011bpy.1_Intron	NM_001146276	NP_001139748	Q6PIU2	NCEH1_HUMAN	arylacetamide deacetylase-like 1 isoform a	61	Lumenal (Potential).				lipid catabolic process	endoplasmic reticulum|integral to membrane|microsome	carboxylesterase activity				0						TAAAATTCAGTGCCAGCAGGT	0.507													3	77					0	0	1	0	0		C	172365860	C	C	172365860	2	2	151	1	0	0	0	0	0	0	0	1	10234	1683	59	3		3	NCEH1	3	172365860	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	300787	172365860	25656570	1028	78193											
NLGN1	22871	broad.mit.edu	37	chr3	173322505	173322505	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgttgggatgtttgcttcaGgctggccatgtgctatcaca	7	14	12	8	0	2	0	2	0	0	0	2	1	2	1	1	3	2	5	1	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:173322505G>A	uc003fio.1	+	3	540	c.117G>A	c.(115-117)CAG>CAA	p.Q39Q	NLGN1_uc010hww.1_Silent_p.Q39Q|NLGN1_uc003fip.1_Silent_p.Q39Q	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	39					calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			GTTTGCTTCAGGCTGGCCATG	0.468													34	138					0	0	1	0	0		A	173322505	A	A	173322505	2	1	151	1	0	0	0	0	0	0	0	1	10480	991	35	4		4	NLGN1	3	173322505	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	956645	173322505	24699925	1029	78194											
NLGN1	22871	broad.mit.edu	37	chr3	173998423	173998423	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagaacattacagagccaAtaaggtgaacctctggttgg	15	9	10	7	0	1	3	0	1	1	2	1	3	1	3	2	3	4	1	2	3	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:173998423A>G	uc003fio.1	+	7	2225	c.1802A>G	c.(1801-1803)AAT>AGT	p.N601S	NLGN1_uc003fip.1_Missense_Mutation_p.N601S	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	618	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TACAGAGCCAATAAGGTGAAC	0.388													38	170					0	0	1	0	0		G	173998423	G	G	173998423	3	3	151	1	0	0	0	0	1	0	0	0	10480	101	4	3	1820	3	NLGN1	3	173998423	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	675918	173998423	24024007	1030	78195											
NAALADL2	254827	broad.mit.edu	37	chr3	174814922	174814922	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgccacgtcttaaaaatacTttgcacagccaccattttat	12	14	4	11	1	1	0	0	0	1	0	1	0	1	0	3	0	4	1	3	0	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:174814922T>C	uc003fit.2	+	2	473	c.386T>C	c.(385-387)CTT>CCT	p.L129P	NAALADL2_uc003fiu.1_Missense_Mutation_p.L122P	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	129	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		TTAAAAATACTTTGCACAGCC	0.383													37	163					0	0	1	0	0		C	174814922	C	C	174814922	3	2	151	1	0	0	0	0	1	0	0	0	10148	1609	56	3	392	3	NAALADL2	3	174814922	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	816499	174814922	23207508	1031	78196											
ZMAT3	64393	broad.mit.edu	37	chr3	178745553	178745553	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagagcttacagtaatcAttctccgtggccaggatcac	11	10	8	12	1	4	1	3	0	1	1	5	2	4	2	2	2	2	2	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:178745553A>G	uc003fjg.2	-	4	697	c.438T>C	c.(436-438)AAT>AAC	p.N146N	ZMAT3_uc010hxa.2_Silent_p.N146N|ZMAT3_uc003fji.2_Silent_p.N146N	NM_022470	NP_071915	Q9HA38	ZMAT3_HUMAN	p53 target zinc finger protein isoform 1	146					apoptosis|protein transport|regulation of growth|response to DNA damage stimulus|transmembrane transport	nucleolus	RNA binding|zinc ion binding			ovary(2)	2	all_cancers(143;3.31e-18)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;6.74e-27)|GBM - Glioblastoma multiforme(14;0.00448)|BRCA - Breast invasive adenocarcinoma(182;0.0527)			TACAGTAATCATTCTCCGTGG	0.493													21	55					0	0	1	0	0		G	178745553	G	G	178745553	2	3	151	1	0	0	0	0	0	0	0	1	17718	214	8	3		3	ZMAT3	3	178745553	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3930631	178745553	19276877	1032	78197											
PIK3CA	5290	broad.mit.edu	37	chr3	178916944	178916944	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtaggcaaccgtgaagaaAagatcctcaatcgagaaatt	17	7	9	8	2	1	4	1	1	0	3	3	5	2	4	2	1	1	2	2	1	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:178916944A>G	uc003fjk.2	+	2	488	c.331A>G	c.(331-333)AAG>GAG	p.K111E		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	111					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.K111N(10)|p.K111E(7)|p.K111R(1)|p.K111del(1)|p.K111_I112>N(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			CCGTGAAGAAAAGATCCTCAA	0.333		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			26	126					0	0	1	0	0		G	178916944	G	G	178916944	3	3	151	1	0	0	0	0	1	0	0	0	11932	15	1	3	333	3	PIK3CA	3	178916944	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	171391	178916944	19105486	1033	78198											
PIK3CA	5290	broad.mit.edu	37	chr3	178948070	178948070	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagaaaaaatttggttatAaacgagaacgtgtgccattt	17	11	9	4	2	0	3	0	0	0	3	0	4	0	3	1	1	3	1	1	1	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:178948070A>G	uc003fjk.2	+	20	2999	c.2842A>G	c.(2842-2844)AAA>GAA	p.K948E		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	948	PI3K/PI4K.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			ATTTGGTTATAAACGAGAACG	0.323		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			29	124					0	0	1	0	0		G	178948070	G	G	178948070	3	3	151	1	0	0	0	0	1	0	0	0	11932	363	13	3	2916	3	PIK3CA	3	178948070	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	31126	178948070	19074360	1034	78199											
B3GNT5	84002	broad.mit.edu	37	chr3	182987868	182987868	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcctccttttactgtttgtAaaaactgctcctgaaaacta	11	15	5	10	0	0	1	0	1	0	0	3	1	3	1	3	0	4	3	3	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:182987868A>G	uc003flk.2	+	2	812	c.282A>G	c.(280-282)GTA>GTG	p.V94V	MCF2L2_uc003fli.1_Intron|MCF2L2_uc003flj.1_Intron|MCF2L2_uc011bqr.1_Intron|B3GNT5_uc003fll.2_Silent_p.V94V|B3GNT5_uc003flm.2_Silent_p.V94V	NM_032047	NP_114436	Q9BYG0	B3GN5_HUMAN	UDP-GlcNAc:betaGal	94	Lumenal (Potential).				central nervous system development|glycolipid biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	beta-galactosyl-N-acetylglucosaminylgalactosylglucosyl-ceramide beta-1,3-acetylglucosaminyltransferase activity|galactosyltransferase activity			ovary(1)	1	all_cancers(143;8.52e-13)|Ovarian(172;0.0355)		all cancers(12;4.52e-44)|Epithelial(37;8.82e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TACTGTTTGTAAAAACTGCTC	0.453													46	109					0	0	1	0	0		G	182987868	G	G	182987868	2	3	151	1	0	0	0	0	0	0	0	1	1261	349	13	3		3	B3GNT5	3	182987868	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4039798	182987868	15034562	1035	78200											
KLHL6	89857	broad.mit.edu	37	chr3	183225901	183225901	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagcagcgggaagacctcTgggcactgcctgatgagagg	9	6	17	9	1	1	3	0	2	1	2	1	6	1	5	2	4	3	2	2	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:183225901T>C	uc003flr.2	-	3	913	c.855A>G	c.(853-855)CCA>CCG	p.P285P	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_Silent_p.P283P	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	285										haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			GGAAGACCTCTGGGCACTGCC	0.532													5	92					0	0	1	0	0		C	183225901	C	C	183225901	2	2	151	1	0	0	0	0	0	0	0	1	8409	1567	55	3		3	KLHL6	3	183225901	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	238033	183225901	14796529	1036	78201											
YEATS2	55689	broad.mit.edu	37	chr3	183508661	183508661	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcagcagcaagtgtgtgTgagccaggccaccgtgggaa	9	6	17	9	1	0	1	0	1	0	0	0	2	0	2	3	3	3	3	3	3	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:183508661T>A	uc003fly.2	+	21	3185	c.2990T>A	c.(2989-2991)GTG>GAG	p.V997E	YEATS2_uc003flz.2_Missense_Mutation_p.V76E	NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	997					histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			CAAGTGTGTGTGAGCCAGGCC	0.592													26	87					0	0	1	0	0		A	183508661	A	A	183508661	3	1	151	1	0	0	0	0	1	0	0	0	17498	1696	59	5	3068	5	YEATS2	3	183508661	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	282760	183508661	14513769	1037	78202											
ABCF3	55324	broad.mit.edu	37	chr3	183906155	183906155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtgcgagaggatttgctaCggagggagcgggagctcact	8	8	18	7	3	1	1	1	0	0	1	1	6	1	5	0	4	5	2	0	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:183906155C>T	uc003fmz.2	+	7	929	c.796C>T	c.(796-798)CGG>TGG	p.R266W	ABCF3_uc003fna.2_Missense_Mutation_p.R260W|ABCF3_uc003fnb.2_5'Flank	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	266	ABC transporter 1.						ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GGATTTGCTACGGAGGGAGCG	0.602													29	133					0	0	1	0	0		T	183906155	T	T	183906155	3	4	151	1	0	0	0	0	1	0	0	0	67	527	19	1	822	1	ABCF3	3	183906155	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	397494	183906155	14116275	1038	78203											
PSMD2	5708	broad.mit.edu	37	chr3	184019697	184019697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacgcagagaaggtccagcGggagcctctgctcactctgg	8	7	14	12	2	3	2	1	1	2	1	4	4	4	3	2	3	3	2	2	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:184019697G>A	uc003fnn.1	+	5	575	c.542G>A	c.(541-543)CGG>CAG	p.R181Q	PSMD2_uc011brj.1_Missense_Mutation_p.R22Q|PSMD2_uc011brk.1_Missense_Mutation_p.R51Q	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	181					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	AAGGTCCAGCGGGAGCCTCTG	0.542													15	73					0	0	1	0	0		A	184019697	A	A	184019697	3	1	151	1	0	0	0	0	1	0	0	0	12720	1116	39	1	560	1	PSMD2	3	184019697	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	113542	184019697	14002733	1039	78204											
PSMD2	5708	broad.mit.edu	37	chr3	184020206	184020206	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcagccctactgcgttgTgccctgggtgtgttccgaaa	7	11	11	12	2	1	0	1	0	0	0	2	1	2	0	3	1	5	2	3	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:184020206T>C	uc003fnn.1	+	6	786	c.753T>C	c.(751-753)TGT>TGC	p.C251C	PSMD2_uc011brj.1_Silent_p.C92C|PSMD2_uc011brk.1_Silent_p.C121C	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	251					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	TACTGCGTTGTGCCCTGGGTG	0.463													17	81					0	0	1	0	0		C	184020206	C	C	184020206	2	2	151	1	0	0	0	0	0	0	0	1	12720	1702	59	3		3	PSMD2	3	184020206	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	509	184020206	14002224	1040	78205											
VPS8	23355	broad.mit.edu	37	chr3	184557512	184557512	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagtctgatagcagtgggTacatctcatggattggcttt	8	14	11	8	0	2	1	1	1	2	0	4	2	3	2	1	3	2	3	1	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:184557512T>C	uc003fpb.1	+	7	678	c.507T>C	c.(505-507)GGT>GGC	p.G169G	VPS8_uc010hyd.1_Silent_p.G169G|VPS8_uc003fpc.1_3'UTR	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	169							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TAGCAGTGGGTACATCTCATG	0.313													7	23					0	0	1	0	0		C	184557512	C	C	184557512	2	2	151	1	0	0	0	0	0	0	0	1	17244	1625	57	3		3	VPS8	3	184557512	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	537306	184557512	13464918	1041	78206											
C3orf70	285382	broad.mit.edu	37	chr3	184801194	184801194	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacagtacctcggtgagtcAgggggaaggggaggctggaa	11	6	18	6	1	1	1	1	1	0	0	2	4	1	4	1	7	2	2	1	7	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:184801194A>G	uc003fpd.2	-	2	545	c.354T>C	c.(352-354)CCT>CCC	p.P118P		NM_001025266	NP_001020437	A6NLC5	CC070_HUMAN	hypothetical protein LOC285382	118											0						TCGGTGAGTCAGGGGGAAGGG	0.473													38	150					0	0	1	0	0		G	184801194	G	G	184801194	2	3	151	1	0	0	0	0	0	0	0	1	2245	175	7	3		3	C3orf70	3	184801194	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	243682	184801194	13221236	1042	78207											
TRA2B	6434	broad.mit.edu	37	chr3	185641624	185641624	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcaaaatatacaaaggcaAatcctcttgaacgcctagac	16	10	5	10	1	2	2	1	1	1	1	3	2	3	2	2	1	2	1	2	1	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:185641624A>G	uc003fpv.2	-	4	758	c.482T>C	c.(481-483)TTT>TCT	p.F161S	TRA2B_uc003fpt.2_RNA|TRA2B_uc003fpu.2_RNA|TRA2B_uc010hym.2_Missense_Mutation_p.F61S|TRA2B_uc003fpw.2_Missense_Mutation_p.F161S	NM_004593	NP_004584	P62995	TRA2B_HUMAN	splicing factor, arginine/serine-rich 10	161	RRM.				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)	2						TACAAAGGCAAATCCTCTTGA	0.388													24	80					0	0	1	0	0		G	185641624	G	G	185641624	3	3	151	1	0	0	0	0	1	0	0	0	16460	14	1	3	408	3	TRA2B	3	185641624	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	840430	185641624	12380806	1043	78208											
ETV5	2119	broad.mit.edu	37	chr3	185769827	185769827	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatggctcaccttctgcaTgatgcccttttcatagtaat	10	15	6	10	0	3	1	2	1	1	0	3	1	3	1	2	1	2	3	2	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:185769827T>C	uc003fpz.2	-	12	1550	c.1303A>G	c.(1303-1305)ATG>GTG	p.M435V	ETV5_uc003fpy.2_Missense_Mutation_p.M477V	NM_004454	NP_004445	P41161	ETV5_HUMAN	ets variant gene 5 (ets-related molecule)	435	ETS.				cellular response to oxidative stress	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|skin(2)|breast(1)	5	all_cancers(143;4.06e-12)|Ovarian(172;0.0386)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.62e-24)			ACCTTCTGCATGATGCCCTTT	0.517			T	TMPRSS2|SCL45A3	Prostate 								34	164					0	0	1	0	0		C	185769827	C	C	185769827	3	2	151	1	0	0	0	0	1	0	0	0	5290	1464	51	3	237	3	ETV5	3	185769827	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	128203	185769827	12252603	1044	78209											
CRYGS	1427	broad.mit.edu	37	chr3	186256602	186256602	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacggtagttgggtagctcAtagaaaatccagacaccctc	12	8	9	12	1	1	2	1	0	0	2	3	2	2	2	3	2	1	4	3	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:186256602A>G	uc003fqe.2	-	3	472	c.420T>C	c.(418-420)TAT>TAC	p.Y140Y	CRYGS_uc003fqf.2_Silent_p.Y140Y	NM_017541	NP_060011	P22914	CRBS_HUMAN	crystallin, gamma S	140	Beta/gamma crystallin 'Greek key' 4.						structural constituent of eye lens				0	all_cancers(143;3.75e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.5e-22)	GBM - Glioblastoma multiforme(93;0.0906)		TGGGTAGCTCATAGAAAATCC	0.532													25	95					0	0	1	0	0		G	186256602	G	G	186256602	2	3	151	1	0	0	0	0	0	0	0	1	3922	224	8	3		3	CRYGS	3	186256602	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	486775	186256602	11765828	1045	78210											
LEPREL1	55214	broad.mit.edu	37	chr3	189705372	189705372	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccagcagactctcatagtAatccacattgtctaggacat	13	11	6	11	0	2	1	1	0	2	1	5	2	4	2	2	1	1	2	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:189705372A>G	uc011bsk.1	-	5	1430	c.1042T>C	c.(1042-1044)TAC>CAC	p.Y348H	LEPREL1_uc003fsg.2_Missense_Mutation_p.Y167H	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	348					collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	CTCTCATAGTAATCCACATTG	0.413													28	59					0	0	1	0	0		G	189705372	G	G	189705372	3	3	151	1	0	0	0	0	1	0	0	0	8746	362	13	3	1128	3	LEPREL1	3	189705372	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3448770	189705372	8317058	1046	78211											
CLDN16	10686	broad.mit.edu	37	chr3	190126276	190126276	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagctgttctcacctgcTgcttatatctttttaaaggt	7	17	8	9	0	2	0	1	0	2	0	3	1	2	1	1	2	3	4	1	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:190126276T>C	uc003fsi.2	+	4	834	c.766T>C	c.(766-768)TGC>CGC	p.C256R	CLDN16_uc010hze.2_Intron	NM_006580	NP_006571	Q9Y5I7	CLD16_HUMAN	claudin 16	256	Helical; (Potential).				calcium-independent cell-cell adhesion|cellular metal ion homeostasis|excretion	integral to membrane|tight junction	identical protein binding|magnesium ion transmembrane transporter activity|structural molecule activity			ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.018)		TCTCACCTGCTGCTTATATCT	0.378													30	152					0	0	1	0	0		C	190126276	C	C	190126276	3	2	151	1	0	0	0	0	1	0	0	0	3480	1580	55	3	780	3	CLDN16	3	190126276	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	420904	190126276	7896154	1047	78212											
C3orf59	151963	broad.mit.edu	37	chr3	192517221	192517221	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctcagccaagagtggcAcaaggctgagtggcgcatgt	11	6	15	9	1	1	2	1	1	0	1	1	2	1	2	1	4	1	4	1	4	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:192517221A>G	uc011bsp.1	-	2	751	c.430T>C	c.(430-432)TGC>CGC	p.C144R		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	144											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		CAAGAGTGGCACAAGGCTGAG	0.512													20	73					0	0	1	0	0		G	192517221	G	G	192517221	3	3	151	1	0	0	0	0	1	0	0	0	2240	159	6	3	1049	3	C3orf59	3	192517221	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2390945	192517221	5505209	1048	78213											
ATP13A4	84239	broad.mit.edu	37	chr3	193183832	193183832	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccactaagcacatagacAcacagagtatagatcatccc	16	6	5	14	0	1	3	1	0	0	3	2	3	2	3	3	0	1	2	3	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:193183832A>G	uc003ftd.2	-	11	1362	c.1254T>C	c.(1252-1254)TGT>TGC	p.C418C	ATP13A4_uc003fte.1_Silent_p.C418C|ATP13A4_uc011bsr.1_Intron|ATP13A4_uc010hzi.2_RNA|ATP13A4_uc003ftf.3_Silent_p.C124C	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	418	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		GCACATAGACACACAGAGTAT	0.438													40	143					0	0	1	0	0		G	193183832	G	G	193183832	2	3	151	1	0	0	0	0	0	0	0	1	1127	157	6	3		3	ATP13A4	3	193183832	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	666611	193183832	4838598	1049	78214											
LSG1	55341	broad.mit.edu	37	chr3	194373752	194373752	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtgggattttcactaagTgaaggagaatccctagctgg	10	12	13	6	0	1	2	1	1	0	1	2	4	2	3	1	3	1	2	1	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:194373752T>C	uc003fui.2	-	8	1194	c.879A>G	c.(877-879)TCA>TCG	p.S293S		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	293					nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		TTTCACTAAGTGAAGGAGAAT	0.483													33	120					0	0	1	0	0		C	194373752	C	C	194373752	2	2	151	1	0	0	0	0	0	0	0	1	9067	1683	59	3		3	LSG1	3	194373752	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1189920	194373752	3648678	1050	78215											
LSG1	55341	broad.mit.edu	37	chr3	194387291	194387291	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcaggcacaaacttaatAttaagtttctctgttcaaat	14	14	5	8	0	3	0	2	0	1	0	4	0	3	0	0	1	2	4	0	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:194387291A>G	uc003fui.2	-	3	552	c.237T>C	c.(235-237)AAT>AAC	p.N79N		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	79					nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		CAAACTTAATATTAAGTTTCT	0.353													39	116					0	0	1	0	0		G	194387291	G	G	194387291	2	3	151	1	0	0	0	0	0	0	0	1	9067	446	16	3		3	LSG1	3	194387291	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	13539	194387291	3635139	1051	78216											
ACAP2	23527	broad.mit.edu	37	chr3	195022799	195022799	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctggcattgccagggatAcactggacccgctgaagcgc	9	6	13	13	2	0	1	0	1	0	0	0	3	0	3	2	3	4	3	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:195022799A>G	uc003fun.3	-	14	1462	c.1221T>C	c.(1219-1221)TGT>TGC	p.C407C		NM_012287	NP_036419	Q15057	ACAP2_HUMAN	centaurin, beta 2	407	Arf-GAP.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)	2						TGCCAGGGATACACTGGACCC	0.507													10	329					0	0	1	0	0		G	195022799	G	G	195022799	2	3	151	1	0	0	0	0	0	0	0	1	119	389	14	3		3	ACAP2	3	195022799	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	635508	195022799	2999631	1052	78217											
PCYT1A	5130	broad.mit.edu	37	chr3	195975110	195975110	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtacgtattagggaaaaggTtcttcgcttgcatcagagct	10	12	12	7	2	2	1	1	0	1	1	3	2	2	2	0	3	3	6	0	3	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:195975110T>C	uc003fwg.2	-	5	475	c.302A>G	c.(301-303)AAC>AGC	p.N101S	PCYT1A_uc003fwh.2_Missense_Mutation_p.N101S	NM_005017	NP_005008	P49585	PCY1A_HUMAN	choline phosphate cytidylyltransferase 1 alpha	101	Catalytic (Potential).					cytosol|soluble fraction	choline-phosphate cytidylyltransferase activity				0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.28e-24)|all cancers(36;1.01e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00259)	Choline(DB00122)	AGGGAAAAGGTTCTTCGCTTG	0.433													66	165					0	0	1	0	0		C	195975110	C	C	195975110	3	2	151	1	0	0	0	0	1	0	0	0	11629	1725	60	3	825	3	PCYT1A	3	195975110	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	952311	195975110	2047320	1053	78218											
UBXN7	26043	broad.mit.edu	37	chr3	196098870	196098870	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcttgaacattttgaatgTttatcatcagccacttattt	11	18	5	7	0	3	2	2	2	1	0	3	2	3	2	1	0	2	1	1	0	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:196098870T>A	uc003fwm.3	-	6	587	c.512A>T	c.(511-513)AAC>ATC	p.N171I	UBXN7_uc003fwn.3_Missense_Mutation_p.N23I|UBXN7_uc010iae.2_Missense_Mutation_p.N9I	NM_015562	NP_056377	O94888	UBXN7_HUMAN	UBX domain containing 7	171							protein binding			ovary(2)|pancreas(1)	3						ATTTTGAATGTTTATCATCAG	0.393													42	96					0	0	1	0	0		A	196098870	A	A	196098870	3	1	151	1	0	0	0	0	1	0	0	0	16944	1725	60	5	981	5	UBXN7	3	196098870	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	123760	196098870	1923560	1054	78219											
PIGX	54965	broad.mit.edu	37	chr3	196460765	196460765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcaaatatggccattttTccctataagttttatgtagt	10	20	5	6	0	1	0	1	0	0	0	2	0	2	0	2	1	0	2	2	1	6	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:196460765T>C	uc010iaj.2	+	7	981	c.700T>C	c.(700-702)TCC>CCC	p.S234P	PIGX_uc003fwx.3_Missense_Mutation_p.S216P|PIGX_uc011btx.1_RNA	NM_017861	NP_060331	Q8TBF5	PIGX_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	257	Cytoplasmic (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane					0	all_cancers(143;1.41e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;1.08e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00322)		TGGCCATTTTTCCCTATAAGT	0.333													26	203					0	0	1	0	0		C	196460765	C	C	196460765	3	2	151	1	0	0	0	0	1	0	0	0	11922	1783	62	3	849	3	PIGX	3	196460765	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	361895	196460765	1561665	1055	78220											
PAK2	5062	broad.mit.edu	37	chr3	196539109	196539109	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcttctggtacagttttcActgctactgacgttgcactg	6	14	11	10	1	2	1	1	1	1	0	2	1	2	1	0	2	4	6	0	2	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:196539109A>G	uc003fwy.3	+	9	1115	c.793A>G	c.(793-795)ACT>GCT	p.T265A		NM_002577	NP_002568	Q13177	PAK2_HUMAN	p21-activated kinase 2	265	Protein kinase.				axon guidance|cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of apoptosis|regulation of defense response to virus by virus|regulation of growth|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|nucleus|perinuclear region of cytoplasm|plasma membrane	ATP binding|identical protein binding|protein kinase binding|protein serine/threonine kinase activity|protein tyrosine kinase activator activity			ovary(1)|lung(1)	2	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00405)		TACAGTTTTCACTGCTACTGA	0.408													32	119					0	0	1	0	0		G	196539109	G	G	196539109	3	3	151	1	0	0	0	0	1	0	0	0	11420	159	6	3	823	3	PAK2	3	196539109	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	78344	196539109	1483321	1056	78221											
SENP5	205564	broad.mit.edu	37	chr3	196613083	196613083	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttagtttagacgaagcatTccctgaccaacagaatggca	13	9	9	10	1	0	3	0	1	0	2	1	4	1	3	2	1	2	4	2	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:196613083T>C	uc003fwz.3	+	2	1280	c.1031T>C	c.(1030-1032)TTC>TCC	p.F344S	SENP5_uc011bty.1_Missense_Mutation_p.F344S	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	344					cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		GACGAAGCATTCCCTGACCAA	0.507													16	103					0	0	1	0	0		C	196613083	C	C	196613083	3	2	151	1	0	0	0	0	1	0	0	0	14074	1783	62	3	1033	3	SENP5	3	196613083	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	73974	196613083	1409347	1057	78222											
NCBP2	22916	broad.mit.edu	37	chr3	196666226	196666226	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcatagatttgttcttcAgttgtgtaaaaagaaagatt	14	16	8	3	0	3	3	2	0	1	3	3	3	3	3	0	0	0	4	0	0	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:196666226A>C	uc003fxd.1	-	2	246	c.156T>G	c.(154-156)ACT>ACG	p.T52T	NCBP2_uc003fxb.1_5'UTR|NCBP2_uc011btz.1_Silent_p.T34T|NCBP2_uc003fxc.1_RNA|NCBP2_uc003fxe.1_Intron|NCBP2_uc003fxf.2_Silent_p.T52T	NM_007362	NP_031388	P52298	NCBP2_HUMAN	nuclear cap binding protein subunit 2, 20kDa	52	RRM.				gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of RNA export from nucleus|positive regulation of viral transcription|regulation of translational initiation|snRNA export from nucleus|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm	nucleotide binding|protein binding|RNA 7-methylguanosine cap binding				0	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.42e-24)|all cancers(36;2.27e-22)|OV - Ovarian serous cystadenocarcinoma(49;4.13e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00551)		TTTGTTCTTCAGTTGTGTAAA	0.318													20	115					0	0	1	0	0		C	196666226	C	C	196666226	2	2	151	1	0	0	0	0	0	0	0	1	10231	175	7	5		5	NCBP2	3	196666226	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	53143	196666226	1356204	1058	78223											
MFI2	4241	broad.mit.edu	37	chr3	196743098	196743098	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacccttcatggcgtgcaggTactcatggcccagccacgcc	7	7	11	16	2	2	0	2	0	0	0	2	1	2	0	4	3	3	2	4	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:196743098T>C	uc003fxk.3	-	8	1156	c.1043A>G	c.(1042-1044)TAC>TGC	p.Y348C		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	348	Transferrin-like 1.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		GGCGTGCAGGTACTCATGGCC	0.602													12	51					0	0	1	0	0		C	196743098	C	C	196743098	3	2	151	1	0	0	0	0	1	0	0	0	9540	1638	57	3	1209	3	MFI2	3	196743098	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	76872	196743098	1279332	1059	78224											
KIAA0226	9711	broad.mit.edu	37	chr3	197420641	197420641	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagtcagagagctgtgcCgaatcacgtgagctgaactg	11	7	13	10	2	2	4	2	2	0	2	2	6	2	4	2	0	4	2	2	0	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:197420641C>T	uc003fyc.2	-	11	1914	c.1731G>A	c.(1729-1731)TCG>TCA	p.S577S	KIAA0226_uc003fyd.3_Silent_p.S532S|KIAA0226_uc003fye.1_Silent_p.S284S|KIAA0226_uc003fyf.2_3'UTR	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	577	Ser-rich.				autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		AGAGCTGTGCCGAATCACGTG	0.433													11	110					0	0	1	0	0		T	197420641	T	T	197420641	2	4	151	1	0	0	0	0	0	0	0	1	8178	639	23	1		1	KIAA0226	3	197420641	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	677543	197420641	601789	1060	78225											
KIAA0226	9711	broad.mit.edu	37	chr3	197430456	197430456	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagccaggaggcgggggttgTtctgttccactgcttccagg	5	10	16	10	1	1	0	0	0	1	0	3	2	3	1	3	5	2	4	3	5	0	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:197430456T>C	uc003fyc.2	-	5	716	c.533A>G	c.(532-534)AAC>AGC	p.N178S	KIAA0226_uc003fyd.3_Missense_Mutation_p.N118S|KIAA0226_uc003fye.1_5'Flank|KIAA0226_uc003fyf.2_Missense_Mutation_p.N11S|KIAA0226_uc003fyg.2_Missense_Mutation_p.N171S	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	178	RUN.				autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		GCGGGGGTTGTTCTGTTCCAC	0.567													7	57					0	0	1	0	0		C	197430456	C	C	197430456	3	2	151	1	0	0	0	0	1	0	0	0	8178	1725	60	3	2498	3	KIAA0226	3	197430456	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	9815	197430456	591974	1061	78226											
LMLN	89782	broad.mit.edu	37	chr3	197701945	197701945	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaaagaatcttgtaaaggTatgtaataaatactcataac	20	11	6	4	0	2	1	1	0	1	1	2	2	2	1	0	1	2	3	0	1	11	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr3:197701945T>C	uc011buo.1	+	3	370	c.348_splice	c.e3+2	p.K116_splice	LMLN_uc003fyt.2_Splice_Site_p.K64_splice|LMLN_uc010iar.2_Splice_Site_p.K116_splice|LMLN_uc010ias.2_Splice_Site_p.K64_splice|LMLN_uc003fyu.2_Splice_Site	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2						cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		CTTGTAAAGGTATGTAATAAA	0.199													39	226					0	0	1	0	0		C	197701945	C	C	197701945	5	2	151	1	0	0	0	0	0	0	1	0	8864	1652	57	3	360	3	LMLN	3	197701945	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	271489	197701945	320485	1062	78227											
ZNF595	152687	broad.mit.edu	37	chr4	86073	86073	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaattcatactggagagaaAccctacacatgtgaagaatg	17	8	9	7	0	1	4	1	1	0	3	1	6	1	5	1	1	3	0	1	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:86073A>G	uc003fzv.1	+	5	834	c.678A>G	c.(676-678)AAA>AAG	p.K226K	ZNF595_uc003fzu.1_Intron|ZNF718_uc003fzt.3_Intron|ZNF595_uc011bus.1_5'UTR|ZNF595_uc011but.1_5'UTR	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	226					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		CTGGAGAGAAACCCTACACAT	0.403													5	14					0	0	1	0	0		G	86073	G	G	86073	2	3	151	1	0	0	0	0	0	0	0	1	18050	40	2	3		3	ZNF595	4	86073	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08		86073	191068203	1063	78228											
ZNF721	170960	broad.mit.edu	37	chr4	436007	436007	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttacatttgtagagtttaTctccagtatgaattttctta	10	20	5	6	0	2	2	0	1	2	1	3	2	2	2	1	0	1	3	1	0	6	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:436007T>A	uc003gag.2	-	3	2940	c.2249A>T	c.(2248-2250)GAT>GTT	p.D750V	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.D782V|ZNF721_uc010ibe.2_Missense_Mutation_p.D738V	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	750						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GTAGAGTTTATCTCCAGTATG	0.378													11	45					0	0	1	0	0		A	436007	A	A	436007	3	1	151	1	0	0	0	0	1	0	0	0	18147	1435	50	5	526	5	ZNF721	4	436007	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	349934	436007	190718269	1064	78229											
GAK	2580	broad.mit.edu	37	chr4	870373	870373	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccccgtgtggaactgaaTctggaacatcttcatggatg	12	10	10	9	1	3	1	1	1	2	0	3	4	3	4	2	3	3	0	2	3	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:870373T>A	uc003gbm.3	-	18	2198	c.1999A>T	c.(1999-2001)ATT>TTT	p.I667F	GAK_uc003gbn.3_Missense_Mutation_p.I588F|GAK_uc010ibk.1_Missense_Mutation_p.I561F|GAK_uc003gbl.3_Missense_Mutation_p.I531F	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	667	C2 tensin-type.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		TGGAACTGAATCTGGAACATC	0.552													12	45					0	0	1	0	0		A	870373	A	A	870373	3	1	151	1	0	0	0	0	1	0	0	0	6210	1435	50	5	1980	5	GAK	4	870373	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	434366	870373	190283903	1065	78230											
CTBP1	1487	broad.mit.edu	37	chr4	1207327	1207327	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctcgatggatgcctgctcGctgtaccatgcagcatgggg	7	10	13	11	2	1	0	0	0	1	0	3	2	1	1	2	3	5	5	2	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:1207327G>A	uc003gcv.1	-	7	1125	c.960C>T	c.(958-960)AGC>AGT	p.S320S	uc003gcs.1_Intron|CTBP1_uc003gct.1_Silent_p.S301S|CTBP1_uc003gcu.1_Silent_p.S309S|CTBP1_uc003gcw.2_5'UTR	NM_001328	NP_001319	Q13363	CTBP1_HUMAN	C-terminal binding protein 1 isoform 1	320	Interaction with GLIS2 2 (By similarity).				interspecies interaction between organisms|negative regulation of cell proliferation|negative regulation of histone H4 acetylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone deacetylation|protein phosphorylation|regulation of cell cycle|regulation of transcription by chromatin organization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|viral genome replication|white fat cell differentiation	cytoplasm|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein C-terminus binding|protein domain specific binding|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00818)	Colorectal(103;0.2)		ATGCCTGCTCGCTGTACCATG	0.652													11	40					0	0	1	0	0		A	1207327	A	A	1207327	2	1	151	1	0	0	0	0	0	0	0	1	4000	1078	38	1		1	CTBP1	4	1207327	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	336954	1207327	189946949	1066	78231											
SLBP	7884	broad.mit.edu	37	chr4	1701386	1701386	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacactttcatctgtctcAaagtcagccggcacagtaga	12	9	9	11	1	4	1	3	0	2	1	5	2	4	2	1	2	1	2	1	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:1701386A>G	uc003gdi.1	-	5	499	c.384T>C	c.(382-384)TTT>TTC	p.F128F	SLBP_uc010ibx.1_Silent_p.F135F|SLBP_uc003gdj.1_Silent_p.F108F|SLBP_uc003gdk.1_Silent_p.F89F|SLBP_uc011bvf.1_Silent_p.F93F|SLBP_uc003gdl.1_Silent_p.F45F	NM_006527	NP_006518	Q14493	SLBP_HUMAN	stem-loop (histone) binding protein	128					DNA replication involved in S phase|histone mRNA 3'-end processing|mRNA export from nucleus|regulation of S phase|termination of RNA polymerase II transcription	cytosol|histone pre-mRNA 3'end processing complex|nucleoplasm	histone pre-mRNA DCP binding|histone pre-mRNA stem-loop binding|protein binding				0		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.0055)			CATCTGTCTCAAAGTCAGCCG	0.393													25	119					0	0	1	0	0		G	1701386	G	G	1701386	2	3	151	1	0	0	0	0	0	0	0	1	14397	127	5	3		3	SLBP	4	1701386	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	494059	1701386	189452890	1067	78232											
WHSC1	7468	broad.mit.edu	37	chr4	1978235	1978235	+	Frame_Shift_Del	DEL	A	-	-																															tttcatcagaggaaaagggcAaaaagaccaagaagaaaacg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:1978235delA	uc003gdz.3	+	21	3831	c.3655delA	c.(3655-3657)AAAfs	p.K1219fs	WHSC1_uc003geb.3_Frame_Shift_Del_p.K1219fs|WHSC1_uc003gec.3_Frame_Shift_Del_p.K1219fs|WHSC1_uc003ged.3_Frame_Shift_Del_p.K1219fs|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gei.3_Frame_Shift_Del_p.K438fs|WHSC1_uc011bvh.1_Frame_Shift_Del_p.K280fs|WHSC1_uc010icf.2_Frame_Shift_Del_p.K567fs	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	1219					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		GGAAAAGGGCAAAAAGACCAA	0.527			T	IGH@	MM								15	24	---	---	---	---						.	-	1978235	-	-	1978235	7	5	151	1	0	1	0	1	0	0	0	0	17388	131	5	0	3809	0	WHSC1	4	1978235	Frame_Shift_Del	DEL	A	TCGA-CG-5721-01A-11D-1600-08	276849	1978235	189176041	1068	78233											
HAUS3	79441	broad.mit.edu	37	chr4	2233811	2233811	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttctttttgtcttcacaTcagcaagaatatcagtgagg	10	17	7	7	0	5	2	3	1	2	1	5	2	5	2	0	1	1	1	0	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:2233811T>A	uc003ges.1	-	5	1885	c.1655A>T	c.(1654-1656)GAT>GTT	p.D552V	POLN_uc003ger.2_5'Flank|POLN_uc011bvi.1_Intron|HAUS3_uc011bvj.1_Intron|HAUS3_uc003get.1_Missense_Mutation_p.D552V	NM_024511	NP_078787	Q68CZ6	HAUS3_HUMAN	HAUS augmin-like complex, subunit 3	552					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				large_intestine(2)|breast(2)	4						TGTCTTCACATCAGCAAGAAT	0.264													9	71					0	0	1	0	0		A	2233811	A	A	2233811	3	1	151	1	0	0	0	0	1	0	0	0	6983	1435	50	5	160	5	HAUS3	4	2233811	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	255576	2233811	188920465	1069	78234											
HTT	3064	broad.mit.edu	37	chr4	3109036	3109036	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctggtgaaccttctgccGtgcctgactcgaacaagcaa	10	9	9	13	2	1	2	0	2	1	0	2	3	1	2	4	1	6	1	4	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:3109036G>A	uc011bvq.1	+	7	784	c.639G>A	c.(637-639)CCG>CCA	p.P213P		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	211	HEAT 1.				establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		ACCTTCTGCCGTGCCTGACTC	0.473													27	109					0	0	1	0	0		A	3109036	A	A	3109036	2	1	151	1	0	0	0	0	0	0	0	1	7473	1132	40	1		1	HTT	4	3109036	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	875225	3109036	188045240	1070	78235											
HTT	3064	broad.mit.edu	37	chr4	3190708	3190708	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caactggttggtattcttttAgaagacattgttacaaaaca	14	14	7	6	0	1	2	0	0	1	2	1	2	1	2	0	2	3	3	0	2	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:3190708A>C	uc011bvq.1	+	41	5407	c.5262A>C	c.(5260-5262)TTA>TTC	p.L1754F		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1752					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GTATTCTTTTAGAAGACATTG	0.383													47	159					0	0	1	0	0		C	3190708	C	C	3190708	3	2	151	1	0	0	0	0	1	0	0	0	7473	417	15	5	5414	5	HTT	4	3190708	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	81672	3190708	187963568	1071	78236											
HTT	3064	broad.mit.edu	37	chr4	3219639	3219639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatcatcagcctggcccGcctgccccttgtcaacagct	7	9	7	18	1	4	0	4	0	0	0	4	0	4	0	5	1	4	1	5	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:3219639G>A	uc011bvq.1	+	53	7353	c.7208G>A	c.(7207-7209)CGC>CAC	p.R2403H		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2401	Nuclear export signal (By similarity).				establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		AGCCTGGCCCGCCTGCCCCTT	0.582													23	65					0	0	1	0	0		A	3219639	A	A	3219639	3	1	151	1	0	0	0	0	1	0	0	0	7473	1087	38	1	7408	1	HTT	4	3219639	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	28931	3219639	187934637	1072	78237											
RGS12	6002	broad.mit.edu	37	chr4	3319065	3319065	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagttcatctctgtcctgTaccgagacatgggtgagctg	7	12	12	10	1	2	2	1	1	1	1	4	3	3	2	2	1	3	4	2	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:3319065T>C	uc003ggw.2	+	2	2072	c.1168T>C	c.(1168-1170)TAC>CAC	p.Y390H	RGS12_uc003ggu.2_Missense_Mutation_p.Y390H|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Missense_Mutation_p.Y390H|RGS12_uc003ggx.1_Missense_Mutation_p.Y390H	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	390						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CTCTGTCCTGTACCGAGACAT	0.622													21	64					0	0	1	0	0		C	3319065	C	C	3319065	3	2	151	1	0	0	0	0	1	0	0	0	13320	1638	57	3	1170	3	RGS12	4	3319065	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	99426	3319065	187835211	1073	78238											
OTOP1	133060	broad.mit.edu	37	chr4	4228315	4228315	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcgccgtcaggaagcacaGcaggtcgctcttgctcacgc	8	6	13	14	4	3	0	2	0	1	0	4	2	3	1	1	2	4	4	1	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:4228315G>A	uc003ghp.1	-	1	307	c.277C>T	c.(277-279)CTG>TTG	p.L93L		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	93	Helical; (Potential).				biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		AGGAAGCACAGCAGGTCGCTC	0.682													4	12					0	0	1	0	0		A	4228315	A	A	4228315	2	1	151	1	0	0	0	0	0	0	0	1	11324	962	34	2		2	OTOP1	4	4228315	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	909250	4228315	186925961	1074	78239											
STK32B	55351	broad.mit.edu	37	chr4	5461855	5461855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaaggatcctgagagccGcgtgtccagccttcatgaca	10	7	11	13	2	1	2	1	2	0	1	3	5	3	3	5	1	2	0	5	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:5461855G>A	uc003gih.1	+	9	873	c.809G>A	c.(808-810)CGC>CAC	p.R270H	STK32B_uc010ida.1_Missense_Mutation_p.R223H	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	270	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						CCTGAGAGCCGCGTGTCCAGC	0.562											OREG0016061	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	82					0	0	1	0	0		A	5461855	A	A	5461855	3	1	151	1	0	0	0	0	1	0	0	0	15323	1087	38	1	843	1	STK32B	4	5461855	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1233540	5461855	185692421	1075	78240											
C4orf6	10141	broad.mit.edu	37	chr4	5527092	5527092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaattcacaagactcacaAttcaaagaaccaatttttta	18	11	3	9	0	3	2	3	0	0	2	3	2	3	2	1	0	1	1	1	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:5527092A>G	uc003gii.2	+	1	210	c.35A>G	c.(34-36)AAT>AGT	p.N12S		NM_005750	NP_005741	Q99440	CD006_HUMAN	chromosome 4 open reading frame 6	12					nervous system development						0						aagactcacaattcaaagaac	0.04													7	15					0	0	1	0	0		G	5527092	G	G	5527092	3	3	151	1	0	0	0	0	1	0	0	0	2281	101	4	3	37	3	C4orf6	4	5527092	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	65237	5527092	185627184	1076	78241											
EVC2	132884	broad.mit.edu	37	chr4	5578085	5578085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagaatcccgggcccatcggCcacccactgctgccagctcg	7	5	10	19	3	0	1	0	0	0	1	3	1	1	1	5	2	3	2	5	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:5578085C>T	uc003gij.2	-	18	3208	c.3154G>A	c.(3154-3156)GCC>ACC	p.A1052T	EVC2_uc011bwb.1_Missense_Mutation_p.A492T|EVC2_uc003gik.2_Missense_Mutation_p.A972T	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1052	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						GGCCCATCGGCCACCCACTGC	0.622													8	35					0	0	1	0	0		T	5578085	T	T	5578085	3	4	151	1	0	0	0	0	1	0	0	0	5294	739	26	2	792	2	EVC2	4	5578085	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	50993	5578085	185576191	1077	78242											
EVC	2121	broad.mit.edu	37	chr4	5731079	5731079	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcacagcattcgccctgAaggccaaagtcatctacccc	12	8	6	15	1	3	1	2	1	1	0	4	1	3	1	4	1	2	1	4	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:5731079A>G	uc003gil.1	+	3	530	c.346A>G	c.(346-348)AAG>GAG	p.K116E	EVC_uc003gim.1_RNA	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	116					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				ATTCGCCCTGAAGGCCAAAGT	0.488													20	88					0	0	1	0	0		G	5731079	G	G	5731079	3	3	151	1	0	0	0	0	1	0	0	0	5293	247	9	3	356	3	EVC	4	5731079	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	152994	5731079	185423197	1078	78243											
CRMP1	1400	broad.mit.edu	37	chr4	5857879	5857879	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttaactgacctttgtcctGcaccagcacctccagctcct	7	12	5	17	0	0	1	0	1	0	0	3	1	3	1	6	0	4	3	6	0	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:5857879G>A	uc003gip.2	-	5	570	c.469C>T	c.(469-471)CAG>TAG	p.Q157*	CRMP1_uc003gin.1_Nonsense_Mutation_p.Q69*|CRMP1_uc003giq.2_Nonsense_Mutation_p.Q157*|CRMP1_uc003gir.2_Nonsense_Mutation_p.Q152*|CRMP1_uc003gis.2_Nonsense_Mutation_p.Q271*	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	157					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		CCTTTGTCCTGCACCAGCACC	0.527													15	47					0	0	1	0	0		A	5857879	A	A	5857879	4	1	151	1	0	0	0	0	0	1	0	0	3893	1328	46	2	1293	2	CRMP1	4	5857879	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	126800	5857879	185296397	1079	78244											
MAN2B2	23324	broad.mit.edu	37	chr4	6610923	6610923	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggccccatttccgataactAcctgttcacaccgggcaagg	9	8	10	14	2	1	0	1	0	0	0	2	1	2	0	5	3	2	2	5	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:6610923A>G	uc003gjf.1	+	12	1940	c.1904A>G	c.(1903-1905)TAC>TGC	p.Y635C	MAN2B2_uc003gje.1_Missense_Mutation_p.Y635C|MAN2B2_uc011bwf.1_Missense_Mutation_p.Y584C	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	635					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						TCCGATAACTACCTGTTCACA	0.577													17	61					0	0	1	0	0		G	6610923	G	G	6610923	3	3	151	1	0	0	0	0	1	0	0	0	9235	391	14	3	1950	3	MAN2B2	4	6610923	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	753044	6610923	184543353	1080	78245											
CCDC96	257236	broad.mit.edu	37	chr4	7043037	7043037	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttggcctccctgatcttctgCctcacgcctctgcaggacaa	6	11	8	16	1	4	1	1	1	3	0	5	2	5	2	4	2	2	1	4	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:7043037C>T	uc003gjv.2	-	1	1692	c.1629G>A	c.(1627-1629)AGG>AGA	p.R543R	TADA2B_uc003gjw.3_5'Flank|TADA2B_uc010idi.2_5'Flank	NM_153376	NP_699207	Q2M329	CCD96_HUMAN	coiled-coil domain containing 96	543											0						TGATCTTCTGCCTCACGCCTC	0.537													26	57					0	0	1	0	0		T	7043037	T	T	7043037	2	4	151	1	0	0	0	0	0	0	0	1	2877	738	26	2		2	CCDC96	4	7043037	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	432114	7043037	184111239	1081	78246											
GRPEL1	80273	broad.mit.edu	37	chr4	7062879	7062879	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttttggaacacactgtgTtgccttctccagaacgtctg	7	15	8	11	1	3	1	0	0	3	1	4	2	3	2	2	1	3	1	2	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:7062879T>C	uc003gjy.1	-	4	405	c.364A>G	c.(364-366)ACA>GCA	p.T122A	GRPEL1_uc003gjz.1_3'UTR	NM_025196	NP_079472	Q9HAV7	GRPE1_HUMAN	GrpE-like 1, mitochondrial precursor	122					protein folding|protein import into mitochondrial matrix	mitochondrial matrix	adenyl-nucleotide exchange factor activity|chaperone binding|protein homodimerization activity|unfolded protein binding				0						ACACACTGTGTTGCCTTCTCC	0.468													26	128					0	0	1	0	0		C	7062879	C	C	7062879	3	2	151	1	0	0	0	0	1	0	0	0	6822	1725	60	3	293	3	GRPEL1	4	7062879	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	19842	7062879	184091397	1082	78247											
AFAP1	60312	broad.mit.edu	37	chr4	7795427	7795427	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaaggtctgtttggctgTctgaatgacacttgcagaca	10	11	11	9	0	2	4	0	2	2	2	2	4	2	4	1	2	1	3	1	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:7795427T>C	uc003gkg.1	-	11	1666	c.1393A>G	c.(1393-1395)ACA>GCA	p.T465A	AFAP1_uc011bwk.1_Missense_Mutation_p.T465A	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	465				T -> A (in Ref. 2; BAF83496).		actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						TGTTTGGCTGTCTGAATGACA	0.468													32	159					0	0	1	0	0		C	7795427	C	C	7795427	3	2	151	1	0	0	0	0	1	0	0	0	353	1667	58	3	1083	3	AFAP1	4	7795427	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	732548	7795427	183358849	1083	78248											
SH3TC1	54436	broad.mit.edu	37	chr4	8229571	8229571	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctactcctggctgacatctAcagccgcaagtgcctgcccc	7	8	8	18	1	1	1	0	1	1	0	2	1	2	1	6	1	5	2	6	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:8229571A>G	uc003gkv.3	+	12	2251	c.2150A>G	c.(2149-2151)TAC>TGC	p.Y717C	SH3TC1_uc003gkw.3_Missense_Mutation_p.Y641C|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	717							binding			large_intestine(2)|pancreas(1)	3						GCTGACATCTACAGCCGCAAG	0.652													16	34					0	0	1	0	0		G	8229571	G	G	8229571	3	3	151	1	0	0	0	0	1	0	0	0	14286	391	14	3	2192	3	SH3TC1	4	8229571	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	434144	8229571	182924705	1084	78249											
SLC2A9	56606	broad.mit.edu	37	chr4	9836555	9836555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagttggagagccagttgaCggtgcctgcaatgatgaagg	12	8	15	6	1	0	4	0	3	0	1	0	5	0	4	2	3	3	3	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:9836555C>T	uc003gmc.2	-	11	1430	c.1369G>A	c.(1369-1371)GTC>ATC	p.V457I	SLC2A9_uc003gmd.2_Missense_Mutation_p.V428I	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein	457	Helical; Name=11; (Potential).				glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						AGCCAGTTGACGGTGCCTGCA	0.532													10	53					0	0	1	0	0		T	9836555	T	T	9836555	3	4	151	1	0	0	0	0	1	0	0	0	14577	536	19	1	261	1	SLC2A9	4	9836555	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1606984	9836555	181317721	1085	78250											
ZNF518B	85460	broad.mit.edu	37	chr4	10445841	10445841	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatttcttgaataccttcAgaggtagcttttgaagttcc	9	17	8	7	0	2	4	1	3	1	1	3	4	3	4	2	1	2	3	2	1	4	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:10445841A>G	uc003gmn.2	-	3	2599	c.2112T>C	c.(2110-2112)TCT>TCC	p.S704S		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	704					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						GAATACCTTCAGAGGTAGCTT	0.458													41	161					0	0	1	0	0		G	10445841	G	G	10445841	2	3	151	1	0	0	0	0	0	0	0	1	17988	175	7	3		3	ZNF518B	4	10445841	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	609286	10445841	180708435	1086	78251											
ZNF518B	85460	broad.mit.edu	37	chr4	10446888	10446888	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagaacaagctgctgtgtAccattgacaaccttcacatc	12	11	6	12	0	2	2	2	1	0	1	3	2	2	2	2	0	5	3	2	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:10446888A>G	uc003gmn.2	-	3	1552	c.1065T>C	c.(1063-1065)GGT>GGC	p.G355G		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	355					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						GCTGCTGTGTACCATTGACAA	0.448													56	217					0	0	1	0	0		G	10446888	G	G	10446888	2	3	151	1	0	0	0	0	0	0	0	1	17988	378	14	3		3	ZNF518B	4	10446888	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1047	10446888	180707388	1087	78252											
BOD1L	259282	broad.mit.edu	37	chr4	13571645	13571645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggtcaggattatcgcttcGcttttttcacaggggcttcc	5	15	11	10	2	2	0	2	0	0	0	5	1	3	1	1	4	0	3	1	4	1	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:13571645G>A	uc003gmz.1	-	26	9263	c.9146C>T	c.(9145-9147)GCG>GTG	p.A3049V		NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	3049							DNA binding			ovary(5)|breast(1)	6						TTATCGCTTCGCTTTTTTCAC	0.552													4	27					0	0	1	0	0		A	13571645	A	A	13571645	3	1	151	1	0	0	0	0	1	0	0	0	1484	1087	38	1	13	1	BOD1L	4	13571645	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3124757	13571645	177582631	1088	78253											
BOD1L	259282	broad.mit.edu	37	chr4	13601895	13601895	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacattcatccttctcctccTtgctggttgaggcaagagga	8	12	9	12	0	2	2	1	1	1	1	5	3	4	3	3	3	1	3	3	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:13601895T>A	uc003gmz.1	-	10	6746	c.6629A>T	c.(6628-6630)AAG>ATG	p.K2210M	BOD1L_uc010idr.1_Missense_Mutation_p.K1547M	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2210							DNA binding			ovary(5)|breast(1)	6						CTTCTCCTCCTTGCTGGTTGA	0.512													18	56					0	0	1	0	0		A	13601895	A	A	13601895	3	1	151	1	0	0	0	0	1	0	0	0	1484	1609	56	5	2594	5	BOD1L	4	13601895	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	30250	13601895	177552381	1089	78254											
BOD1L	259282	broad.mit.edu	37	chr4	13602539	13602539	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagtggaaatagtggtatcTtcaactttttcgagctgact	10	14	9	8	1	2	1	1	1	1	0	3	3	2	2	1	2	2	2	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:13602539T>C	uc003gmz.1	-	10	6102	c.5985A>G	c.(5983-5985)GAA>GAG	p.E1995E	BOD1L_uc010idr.1_Silent_p.E1332E	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1995							DNA binding			ovary(5)|breast(1)	6						TAGTGGTATCTTCAACTTTTT	0.468													14	64					0	0	1	0	0		C	13602539	C	C	13602539	2	2	151	1	0	0	0	0	0	0	0	1	1484	1606	56	3		3	BOD1L	4	13602539	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	644	13602539	177551737	1090	78255											
CC2D2A	57545	broad.mit.edu	37	chr4	15511838	15511838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcaagttccatgattctgCacgaaaaatcaagcctaaac	16	9	6	10	1	3	1	2	1	1	0	4	2	4	1	2	0	3	2	2	0	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:15511838C>T	uc010idv.2	+	8	760	c.515C>T	c.(514-516)GCA>GTA	p.A172V	CC2D2A_uc003gnx.2_Missense_Mutation_p.A123V|CC2D2A_uc003gnu.2_Missense_Mutation_p.A172V|CC2D2A_uc003gnv.2_Missense_Mutation_p.A172V	NM_001080522	NP_001073991	Q9P2K1	C2D2A_HUMAN	coiled-coil and C2 domain containing 2A isoform	172					cell projection organization	cilium|microtubule basal body				pancreas(2)|ovary(1)	3						CATGATTCTGCACGAAAAATC	0.348													10	62					0	0	1	0	0		T	15511838	T	T	15511838	3	4	151	1	0	0	0	0	1	0	0	0	2731	710	25	2	740	2	CC2D2A	4	15511838	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1909299	15511838	175642438	1091	78256											
CD38	952	broad.mit.edu	37	chr4	15780076	15780076	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcccggtgtccggggacaaAccctgctgccggctctctag	6	7	13	15	3	1	0	0	0	1	0	3	1	2	1	4	4	4	2	4	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:15780076A>G	uc011bxc.1	+	1	146	c.39A>G	c.(37-39)AAA>AAG	p.K13K	CD38_uc003goj.1_Silent_p.K13K|CD38_uc003gol.1_Silent_p.K13K	NM_001775	NP_001766	P28907	CD38_HUMAN	CD38 antigen	13	Cytoplasmic (Potential).				B cell receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of apoptosis|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of transcription, DNA-dependent|response to drug	integral to membrane|plasma membrane	binding|NAD+ nucleosidase activity|receptor activity			ovary(2)	2						CCGGGGACAAACCCTGCTGCC	0.652													20	115					0	0	1	0	0		G	15780076	G	G	15780076	2	3	151	1	0	0	0	0	0	0	0	1	3012	40	2	3		3	CD38	4	15780076	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	268238	15780076	175374200	1092	78257											
TAPT1	202018	broad.mit.edu	37	chr4	16215413	16215413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttccaattctcttggtattCgcaaacaagtgtatactctt	10	17	5	9	1	2	0	0	0	2	0	5	0	3	0	1	1	2	3	1	1	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:16215413C>T	uc010ied.1	-	2	389	c.308G>A	c.(307-309)CGA>CAA	p.R103Q	TAPT1_uc011bxe.1_Intron|TAPT1_uc003gow.3_Intron	NM_153365	NP_699196	Q6NXT6	TAPT1_HUMAN	transmembrane anterior posterior transformation	103						integral to membrane	growth hormone-releasing hormone receptor activity				0						TCTTGGTATTCGCAAACAAGT	0.338													15	64					0	0	1	0	0		T	16215413	T	T	16215413	3	4	151	1	0	0	0	0	1	0	0	0	15579	884	31	1	1447	1	TAPT1	4	16215413	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	435337	16215413	174938863	1093	78258											
GPR125	166647	broad.mit.edu	37	chr4	22425958	22425958	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatgttacttgcaatgtcAaccatcacgtcacctagcta	12	12	6	11	1	3	1	3	1	0	0	3	1	3	1	2	0	4	3	2	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:22425958A>G	uc003gqm.1	-	11	1726	c.1461T>C	c.(1459-1461)GTT>GTC	p.V487V	GPR125_uc010ieo.1_Silent_p.V361V|GPR125_uc003gqn.1_Silent_p.V261V|GPR125_uc003gqo.2_Silent_p.V487V	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	487	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				TTGCAATGTCAACCATCACGT	0.453													31	145					0	0	1	0	0		G	22425958	G	G	22425958	2	3	151	1	0	0	0	0	0	0	0	1	6654	117	5	3		3	GPR125	4	22425958	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6210545	22425958	168728318	1094	78259											
GPR125	166647	broad.mit.edu	37	chr4	22449096	22449096	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgcaagataatcaaaagttCcttgagataatgaagaaaac	20	8	7	6	1	1	4	1	2	0	3	2	5	2	4	1	0	1	2	1	0	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:22449096C>A	uc003gqm.1	-	5	777	c.512G>T	c.(511-513)GGA>GTA	p.G171V	GPR125_uc010ieo.1_Missense_Mutation_p.G45V|GPR125_uc003gqo.2_Missense_Mutation_p.G171V	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	171	Extracellular (Potential).|LRR 4.				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				ATCAAAAGTTCCTTGAGATAA	0.254													25	92					4.47668e-21	4.67821e-21	1	1	0		A	22449096	A	A	22449096	3	1	151	1	0	0	0	0	1	0	0	0	6654	855	30	5	3513	5	GPR125	4	22449096	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	23138	22449096	168705180	1095	78260											
GBA3	57733	broad.mit.edu	37	chr4	22750561	22750561	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgctgggagtatttcagacaAacatttcaggaactgttcaa	13	11	9	8	1	3	1	3	0	0	1	3	3	3	3	0	2	2	3	0	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:22750561A>G	uc003gqp.3	+	4	1276	c.1185A>G	c.(1183-1185)CAA>CAG	p.Q395Q	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Silent_p.Q396Q	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	395					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						ATTTCAGACAAACATTTCAGG	0.373													7	10					0	0	1	0	0		G	22750561	G	G	22750561	2	3	151	1	0	0	0	0	0	0	0	1	6283	11	1	3		3	GBA3	4	22750561	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	301465	22750561	168403715	1096	78261											
CCDC149	91050	broad.mit.edu	37	chr4	24875302	24875302	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagatcagaaataagtcttaCctgtttccttttttcaggag	11	15	8	7	0	3	2	2	0	1	2	4	4	4	3	2	1	1	1	2	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:24875302C>T	uc011bxr.1	-	4	408	c.264_splice	c.e4+1	p.Q88_splice	CCDC149_uc003grc.2_Splice_Site_p.Q88_splice|CCDC149_uc003grb.2_Splice_Site|CCDC149_uc003grd.2_Splice_Site_p.Q88_splice|CCDC149_uc003gre.2_Splice_Site_p.Q33_splice	NM_173463	NP_775734	B4DZG3	B4DZG3_HUMAN	coiled-coil domain containing 149 isoform 1												0		Breast(46;0.173)				ATAAGTCTTACCTGTTTCCTT	0.348													19	68					0	0	1	0	0		T	24875302	T	T	24875302	5	4	151	1	0	0	0	0	0	0	1	0	2786	521	18	4	1368	4	CCDC149	4	24875302	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2124741	24875302	166278974	1097	78262											
SLC34A2	10568	broad.mit.edu	37	chr4	25671295	25671295	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggagccactgtccatgActtcttcaactggctgtccg	7	11	10	13	1	2	1	1	1	1	0	4	2	4	2	3	2	3	2	3	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:25671295A>T	uc003grr.2	+	7	743	c.662A>T	c.(661-663)GAC>GTC	p.D221V	SLC34A2_uc003grs.2_Missense_Mutation_p.D220V|SLC34A2_uc010iev.2_Missense_Mutation_p.D220V	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	221	Helical; Name=M3; (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				ACTGTCCATGACTTCTTCAAC	0.537													28	159					0	0	1	0	0		T	25671295	T	T	25671295	3	4	151	1	0	0	0	0	1	0	0	0	14593	275	10	5	684	5	SLC34A2	4	25671295	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	795993	25671295	165482981	1098	78263											
SLC34A2	10568	broad.mit.edu	37	chr4	25677873	25677873	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaacatctctgccaagtaTcgctggttcgccgtcttcta	7	12	9	13	3	3	0	0	0	3	0	6	0	3	0	2	2	2	4	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:25677873T>A	uc003grr.2	+	13	1656	c.1575T>A	c.(1573-1575)TAT>TAA	p.Y525*	SLC34A2_uc003grs.2_Nonsense_Mutation_p.Y524*|SLC34A2_uc010iev.2_Nonsense_Mutation_p.Y524*	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	525	Cytoplasmic (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				CTGCCAAGTATCGCTGGTTCG	0.592													27	95					0	0	1	0	0		A	25677873	A	A	25677873	4	1	151	1	0	0	0	0	0	1	0	0	14593	1442	50	5	1621	5	SLC34A2	4	25677873	Nonsense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6578	25677873	165476403	1099	78264											
SEL1L3	23231	broad.mit.edu	37	chr4	25806334	25806334	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acagccttctcaaatatcttCccaccgatttctgatacaga	12	12	4	13	1	3	2	1	1	3	1	5	3	4	2	3	0	2	0	3	0	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:25806334C>T	uc003gru.3	-	10	1757	c.1605G>A	c.(1603-1605)GGG>GGA	p.G535G	SEL1L3_uc003grv.2_5'UTR	NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	535						integral to membrane	binding				0						CAAATATCTTCCCACCGATTT	0.418													11	83					0	0	1	0	0		T	25806334	T	T	25806334	2	4	151	1	0	0	0	0	0	0	0	1	14037	842	30	4		4	SEL1L3	4	25806334	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	128461	25806334	165347942	1100	78265											
PCDH7	5099	broad.mit.edu	37	chr4	30725028	30725028	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccctgtggggatggtcAccgtgatggatgctgacaag	9	8	15	9	1	1	2	1	2	0	0	1	4	1	4	2	4	2	1	2	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:30725028A>G	uc003gsk.1	+	1	2992	c.1984A>G	c.(1984-1986)ACC>GCC	p.T662A	PCDH7_uc011bxw.1_Missense_Mutation_p.T615A|PCDH7_uc011bxx.1_Missense_Mutation_p.T662A	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	662	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GGGGATGGTCACCGTGATGGA	0.448													32	141					0	0	1	0	0		G	30725028	G	G	30725028	3	3	151	1	0	0	0	0	1	0	0	0	11535	159	6	3	1986	3	PCDH7	4	30725028	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4918694	30725028	160429248	1101	78266											
TBC1D1	23216	broad.mit.edu	37	chr4	38023271	38023271	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcagtgcagcagacagctaAggcgccagcccagctgtgtg	9	5	14	13	2	0	1	0	0	0	1	0	1	0	1	2	1	5	5	2	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:38023271A>G	uc003gtb.2	+	6	1485	c.1142A>G	c.(1141-1143)AAG>AGG	p.K381R	TBC1D1_uc011byd.1_Missense_Mutation_p.K381R|TBC1D1_uc010ifd.2_Missense_Mutation_p.K128R|TBC1D1_uc011byf.1_Missense_Mutation_p.K252R	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	381	PID.					nucleus	Rab GTPase activator activity			ovary(1)	1						CAGACAGCTAAGGCGCCAGCC	0.527													3	18					0	0	1	0	0		G	38023271	G	G	38023271	3	3	151	1	0	0	0	0	1	0	0	0	15622	72	3	3	1160	3	TBC1D1	4	38023271	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	7298243	38023271	153131005	1102	78267											
KLB	152831	broad.mit.edu	37	chr4	39409016	39409016	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttataggagtttctttttaTcaattttcaatttcctggcc	8	21	5	7	0	3	0	2	0	1	0	4	1	4	1	2	2	0	1	2	2	5	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:39409016T>C	uc003gua.2	+	1	544	c.447T>C	c.(445-447)TAT>TAC	p.Y149Y	KLB_uc011byj.1_Silent_p.Y149Y	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	149	Extracellular (Potential).|Glycosyl hydrolase-1 1.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						TTTCTTTTTATCAATTTTCAA	0.408													44	217					0	0	1	0	0		C	39409016	C	C	39409016	2	2	151	1	0	0	0	0	0	0	0	1	8348	1442	50	3		3	KLB	4	39409016	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1385745	39409016	151745260	1103	78268											
UBE2K	3093	broad.mit.edu	37	chr4	39779998	39779998	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaatgcagtaatagtggccTtgtcttcaaaatcatgggat	13	12	10	6	0	3	1	2	0	1	1	3	2	3	2	1	2	1	2	1	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:39779998T>G	uc003guu.3	+	7	831	c.547T>G	c.(547-549)TTG>GTG	p.L183V	UBE2K_uc003gus.3_Missense_Mutation_p.L140V|UBE2K_uc003gut.3_Missense_Mutation_p.L132V|UBE2K_uc010ifn.2_RNA|UBE2K_uc011byq.1_Missense_Mutation_p.L122V|UBE2K_uc003guq.3_Missense_Mutation_p.L80V	NM_005339	NP_005330	P61086	UBE2K_HUMAN	ubiquitin-conjugating enzyme E2K isoform 1	183	UBA.				protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm	ATP binding|ubiquitin protein ligase binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						AATAGTGGCCTTGTCTTCAAA	0.393													25	95					0	0	1	0	0		G	39779998	G	G	39779998	3	3	151	1	0	0	0	0	1	0	0	0	16888	1606	56	5	573	5	UBE2K	4	39779998	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	370982	39779998	151374278	1104	78269											
N4BP2	55728	broad.mit.edu	37	chr4	40122482	40122482	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaattggaacaaatgacaaAatgaatgaaatatccttatc	20	10	6	5	0	0	3	0	3	0	0	2	5	1	4	1	1	1	0	1	1	9	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:40122482A>G	uc003guy.3	+	9	3089	c.2751A>G	c.(2749-2751)AAA>AAG	p.K917K	N4BP2_uc010ifq.2_Silent_p.K837K|N4BP2_uc010ifr.2_Silent_p.K837K	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	917						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						CAAATGACAAAATGAATGAAA	0.413													20	70					0	0	1	0	0		G	40122482	G	G	40122482	2	3	151	1	0	0	0	0	0	0	0	1	10128	11	1	3		3	N4BP2	4	40122482	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	342484	40122482	151031794	1105	78270											
CHRNA9	55584	broad.mit.edu	37	chr4	40356386	40356386	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgacgaggaatattgagtAcatcgccaagtgcctcaaag	13	8	11	9	2	1	2	1	2	0	0	2	4	1	3	2	1	2	2	2	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:40356386A>G	uc003gva.1	+	5	1305	c.1289A>G	c.(1288-1290)TAC>TGC	p.Y430C		NM_017581	NP_060051	Q9UGM1	ACHA9_HUMAN	cholinergic receptor, nicotinic, alpha 9	430	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|synaptic transmission	cell junction|postsynaptic membrane	calcium channel activity|receptor activity			breast(3)|skin(3)|central_nervous_system(1)	7					Nicotine(DB00184)	AATATTGAGTACATCGCCAAG	0.488													22	90					0	0	1	0	0		G	40356386	G	G	40356386	3	3	151	1	0	0	0	0	1	0	0	0	3392	391	14	3	1307	3	CHRNA9	4	40356386	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	233904	40356386	150797890	1106	78271											
BEND4	389206	broad.mit.edu	37	chr4	42119623	42119623	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcataaaatgagccaccgTtgtgcaggaaagtccccacc	12	8	8	13	1	1	1	1	1	0	0	2	2	2	2	5	1	2	2	5	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:42119623T>C	uc003gwn.2	-	6	2097	c.1517A>G	c.(1516-1518)AAC>AGC	p.N506S	BEND4_uc003gwm.2_3'UTR	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	506											0						TGAGCCACCGTTGTGCAGGAA	0.537													6	15					0	0	1	0	0		C	42119623	C	C	42119623	3	2	151	1	0	0	0	0	1	0	0	0	1401	1725	60	3	91	3	BEND4	4	42119623	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1763237	42119623	149034653	1107	78272											
GRXCR1	389207	broad.mit.edu	37	chr4	42895333	42895333	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacaggccacggaaagtccGgtttcggatcgcgtcctctc	7	9	12	13	5	1	1	0	1	1	0	6	3	3	3	3	4	0	1	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:42895333G>T	uc003gwt.2	+	1	50	c.50G>T	c.(49-51)CGG>CTG	p.R17L		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	17					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						CGGAAAGTCCGGTTTCGGATC	0.507													19	86					3.32936e-07	3.39817e-07	1	1	0		T	42895333	T	T	42895333	3	4	151	1	0	0	0	0	1	0	0	0	6828	1116	39	5	52	5	GRXCR1	4	42895333	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	775710	42895333	148258943	1108	78273											
YIPF7	285525	broad.mit.edu	37	chr4	44638028	44638028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atgctggctgaaaaaattgtCctgcgtaacccgatgacatg	12	10	10	9	2	0	2	0	2	0	0	1	3	1	2	2	1	3	3	2	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:44638028C>T	uc010ifx.1	-	3	280	c.263G>A	c.(262-264)GGA>GAA	p.G88E	YIPF7_uc010ify.1_Missense_Mutation_p.G88E	NM_182592	NP_872398	Q8N8F6	YIPF7_HUMAN	Yip1 domain family, member 7	88						endoplasmic reticulum membrane|integral to membrane					0						AAAAAATTGTCCTGCGTAACC	0.408													8	46					0	0	1	0	0		T	44638028	T	T	44638028	3	4	151	1	0	0	0	0	1	0	0	0	17509	855	30	4	595	4	YIPF7	4	44638028	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1742695	44638028	146516248	1109	78274											
NIPAL1	152519	broad.mit.edu	37	chr4	48036924	48036924	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attatcttcctactttttaaAcgagcacttgaacattcatg	12	16	4	9	1	2	1	1	1	1	0	3	2	3	1	1	0	4	1	1	0	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:48036924A>G	uc003gxw.2	+	5	554	c.488A>G	c.(487-489)AAC>AGC	p.N163S		NM_207330	NP_997213	Q6NVV3	NIPA3_HUMAN	NIPA-like domain containing 1	163	Cytoplasmic (Potential).					integral to membrane					0						TACTTTTTAAACGAGCACTTG	0.383													22	132					0	0	1	0	0		G	48036924	G	G	48036924	3	3	151	1	0	0	0	0	1	0	0	0	10443	43	2	3	506	3	NIPAL1	4	48036924	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3398896	48036924	143117352	1110	78275											
TEC	7006	broad.mit.edu	37	chr4	48173385	48173385	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatttcattgagttttacCttcttttaacttcttcaccc	9	20	2	10	0	4	1	2	1	2	0	4	1	4	1	2	0	2	1	2	0	4	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:48173385C>A	uc003gxz.2	-	4	416	c.325G>T	c.(325-327)GAA>TAA	p.E109*		NM_003215	NP_003206	P42680	TEC_HUMAN	tec protein tyrosine kinase	109	PH.				intracellular protein kinase cascade	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)	9						TGAGTTTTACCTTCTTTTAAC	0.303													9	87					1.76689e-08	1.81124e-08	1	1	0		A	48173385	A	A	48173385	4	1	151	1	0	0	0	0	0	1	0	0	15767	695	24	5	1630	5	TEC	4	48173385	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	136461	48173385	142980891	1111	78276											
SLAIN2	57606	broad.mit.edu	37	chr4	48384711	48384711	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttagatgatgaagatgacaAtatgcatcatgcagtatacc	15	12	8	6	0	1	5	1	3	0	2	1	5	1	5	1	0	3	3	1	0	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:48384711A>G	uc003gya.3	+	5	1133	c.989A>G	c.(988-990)AAT>AGT	p.N330S	SLAIN2_uc003gyb.1_5'UTR	NM_020846	NP_065897	Q9P270	SLAI2_HUMAN	SLAIN motif family, member 2	330						centrosome					0						GAAGATGACAATATGCATCAT	0.453													4	107					0	0	1	0	0		G	48384711	G	G	48384711	3	3	151	1	0	0	0	0	1	0	0	0	14391	101	4	3	1007	3	SLAIN2	4	48384711	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	211326	48384711	142769565	1112	78277											
FRYL	285527	broad.mit.edu	37	chr4	48530056	48530056	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcattagcttttctcttgTtcttcgctaaaggaaaaaaa	13	16	5	7	1	3	0	1	0	2	0	5	1	3	1	0	1	1	3	0	1	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:48530056T>C	uc003gyh.1	-	52	7677	c.7072A>G	c.(7072-7074)ACA>GCA	p.T2358A	FRYL_uc003gyg.1_Missense_Mutation_p.T1054A|FRYL_uc003gyi.1_Missense_Mutation_p.T1246A|FRYL_uc003gyj.1_Missense_Mutation_p.T653A	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	2358					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TTTTCTCTTGTTCTTCGCTAA	0.358													17	84					0	0	1	0	0		C	48530056	C	C	48530056	3	2	151	1	0	0	0	0	1	0	0	0	6078	1725	60	3	2021	3	FRYL	4	48530056	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	145345	48530056	142624220	1113	78278											
FRYL	285527	broad.mit.edu	37	chr4	48563635	48563635	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatttgtgagcatagcgaaAcatcttcggttccagaatct	12	12	8	9	2	2	2	0	1	2	1	4	3	3	2	1	1	3	2	1	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:48563635A>G	uc003gyh.1	-	33	4320	c.3715T>C	c.(3715-3717)TTT>CTT	p.F1239L	FRYL_uc003gyk.2_Missense_Mutation_p.F1239L|FRYL_uc003gyi.1_Missense_Mutation_p.F128L	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	1239					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						GCATAGCGAAACATCTTCGGT	0.348													17	97					0	0	1	0	0		G	48563635	G	G	48563635	3	3	151	1	0	0	0	0	1	0	0	0	6078	43	2	3	5454	3	FRYL	4	48563635	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	33579	48563635	142590641	1114	78279											
CWH43	80157	broad.mit.edu	37	chr4	48990684	48990684	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgaggataatcactatTggtaagatttaaaagagttt	14	14	9	4	0	1	3	1	1	0	2	1	4	1	4	0	2	1	3	0	2	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:48990684T>C	uc003gyv.2	+	2	416	c.234T>C	c.(232-234)ATT>ATC	p.I78I	CWH43_uc011bzl.1_Silent_p.I51I	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	78					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						TAATCACTATTGGTAAGATTT	0.279													10	49					0	0	1	0	0		C	48990684	C	C	48990684	2	2	151	1	0	0	0	0	0	0	0	1	4076	1826	63	3		3	CWH43	4	48990684	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	427049	48990684	142163592	1115	78280											
CWH43	80157	broad.mit.edu	37	chr4	49046852	49046852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtgaatacattatgtatcGagggctgatcaggtgagcac	11	11	13	6	1	1	3	1	3	0	0	2	4	1	3	0	2	2	3	0	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:49046852G>A	uc003gyv.2	+	14	2035	c.1853G>A	c.(1852-1854)CGA>CAA	p.R618Q	CWH43_uc011bzl.1_Missense_Mutation_p.R591Q	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	618	Required for function in lipid remodeling (By similarity).				GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						ATTATGTATCGAGGGCTGATC	0.368													51	160					0	0	1	0	0		A	49046852	A	A	49046852	3	1	151	1	0	0	0	0	1	0	0	0	4076	1058	37	1	1907	1	CWH43	4	49046852	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	56168	49046852	142107424	1116	78281											
USP46	64854	broad.mit.edu	37	chr4	53468063	53468063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcaaccaagtcatacatgcGgtccaggttcactgcatcac	11	8	8	14	2	3	0	3	0	0	0	4	0	4	0	2	2	4	3	2	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:53468063G>A	uc003gzn.2	-	7	1065	c.880C>T	c.(880-882)CGC>TGC	p.R294C	USP46_uc003gzm.3_Missense_Mutation_p.R287C|USP46_uc011bzr.1_Missense_Mutation_p.R271C|USP46_uc011bzs.1_Missense_Mutation_p.R178C	NM_022832	NP_073743	P62068	UBP46_HUMAN	ubiquitin specific peptidase 46 isoform 1	294					behavior|protein deubiquitination|regulation of synaptic transmission, GABAergic|ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0295)			TCATACATGCGGTCCAGGTTC	0.537													15	79					0	0	1	0	0		A	53468063	A	A	53468063	3	1	151	1	0	0	0	0	1	0	0	0	17103	1116	39	1	232	1	USP46	4	53468063	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4421211	53468063	137686213	1117	78282											
SCFD2	152579	broad.mit.edu	37	chr4	54231560	54231560	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctattaaggaggtgcacAtcctggggtagcagtgggaa	10	8	16	7	1	0	0	0	0	0	0	1	2	1	2	1	5	2	4	1	5	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:54231560A>G	uc003gzu.2	-	1	683	c.549T>C	c.(547-549)GAT>GAC	p.D183D	SCFD2_uc010igm.2_Silent_p.D183D	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2	183					protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			GGAGGTGCACATCCTGGGGTA	0.577													13	42					0	0	1	0	0		G	54231560	G	G	54231560	2	3	151	1	0	0	0	0	0	0	0	1	13915	214	8	3		3	SCFD2	4	54231560	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	763497	54231560	136922716	1118	78283											
PDGFRA	5156	broad.mit.edu	37	chr4	54245411	54245411	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatgaaaatgaagttgaaagGccagaagaagaaaatgccag	20	5	12	4	0	0	6	0	3	0	3	0	7	0	6	2	1	1	1	2	1	8	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:54245411G>A	uc003haa.2	+	3	336	c.150G>A	c.(148-150)AGG>AGA	p.R50R	FIP1L1_uc003gzx.3_Silent_p.R35R|FIP1L1_uc011bzt.1_Silent_p.R50R|FIP1L1_uc003gzy.2_Silent_p.R50R|FIP1L1_uc011bzu.1_Silent_p.R35R|FIP1L1_uc003gzz.2_Silent_p.R35R|FIP1L1_uc003hab.2_Silent_p.R38R	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	Error:Variant_position_missing_in_P16234_after_alignment					cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	AAGTTGAAAGGCCAGAAGAAG	0.269			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			25	126					0	0	1	0	0		A	54245411	A	A	54245411	2	1	151	1	0	0	0	0	0	0	0	1	11680	1194	42	2		2	PDGFRA	4	54245411	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	13851	54245411	136908865	1119	78284											
SRD5A3	79644	broad.mit.edu	37	chr4	56236243	56236243	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcataggaaagctttcctAccatttttgttttaagttaa	13	16	6	6	0	0	0	0	0	0	0	1	1	1	1	2	1	3	4	2	1	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:56236243A>G	uc003hau.2	+	5	1037	c.942A>G	c.(940-942)CTA>CTG	p.L314L	uc003hav.1_Intron|uc003haw.1_Intron	NM_024592	NP_078868	Q9H8P0	PORED_HUMAN	steroid 5 alpha-reductase 3	314	Cytoplasmic (Potential).				androgen biosynthetic process|dolichol metabolic process|dolichol-linked oligosaccharide biosynthetic process|polyprenol catabolic process	endoplasmic reticulum membrane|integral to membrane	3-oxo-5-alpha-steroid 4-dehydrogenase activity|oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor				0	all_cancers(7;0.0308)|all_lung(4;0.00195)|Lung NSC(11;0.00431)|all_epithelial(27;0.0425)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.0179)			AAGCTTTCCTACCATTTTTGT	0.413													50	215					0	0	1	0	0		G	56236243	G	G	56236243	2	3	151	1	0	0	0	0	0	0	0	1	15165	378	14	3		3	SRD5A3	4	56236243	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1990832	56236243	134918033	1120	78285											
EXOC1	55763	broad.mit.edu	37	chr4	56763012	56763012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcaaaaatgctgagcgtCgtggagacctggataaagca	13	9	11	8	2	2	2	1	1	1	1	3	4	2	3	1	2	3	2	1	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:56763012C>T	uc003hbe.1	+	16	2241	c.2083C>T	c.(2083-2085)CGT>TGT	p.R695C	EXOC1_uc003hbf.1_Missense_Mutation_p.R695C|EXOC1_uc003hbg.1_Missense_Mutation_p.R680C	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	695					exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					TGCTGAGCGTCGTGGAGACCT	0.333													22	72					0	0	1	0	0		T	56763012	T	T	56763012	3	4	151	1	0	0	0	0	1	0	0	0	5309	884	31	1	2141	1	EXOC1	4	56763012	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	526769	56763012	134391264	1121	78286											
CEP135	9662	broad.mit.edu	37	chr4	56841097	56841097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgctctacaagttatagcGcacgtgaaaaaagttcaata	15	11	7	8	2	2	1	1	1	1	0	2	1	2	1	0	0	3	4	0	0	9	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:56841097G>A	uc003hbi.2	+	11	1669	c.1435G>A	c.(1435-1437)GCA>ACA	p.A479T	CEP135_uc003hbj.2_Missense_Mutation_p.A185T	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	479	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					AAGTTATAGCGCACGTGAAAA	0.323													40	132					0	0	1	0	0		A	56841097	A	A	56841097	3	1	151	1	0	0	0	0	1	0	0	0	3250	1087	38	1	1473	1	CEP135	4	56841097	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	78085	56841097	134313179	1122	78287											
AASDH	132949	broad.mit.edu	37	chr4	57220334	57220334	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcgcattgtgccaagtggTactgtcacttcatcatcaag	9	12	9	11	1	4	0	4	0	0	0	5	0	4	0	1	1	2	3	1	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:57220334T>C	uc003hbn.2	-	8	1407	c.1254A>G	c.(1252-1254)GTA>GTG	p.V418V	AASDH_uc010ihb.2_5'UTR|AASDH_uc011caa.1_Silent_p.V265V|AASDH_uc003hbo.2_Silent_p.V318V|AASDH_uc011cab.1_Intron|AASDH_uc010ihc.2_Silent_p.V418V|AASDH_uc003hbp.2_Silent_p.V418V	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	418					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				TGCCAAGTGGTACTGTCACTT	0.393													21	107					0	0	1	0	0		C	57220334	C	C	57220334	2	2	151	1	0	0	0	0	0	0	0	1	22	1625	57	3		3	AASDH	4	57220334	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	379237	57220334	133933942	1123	78288											
REST	5978	broad.mit.edu	37	chr4	57777024	57777024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcggtgaagaaagacagatgGcagaactgatgccggttggg	12	7	16	6	2	0	6	0	2	0	4	1	6	0	6	1	4	2	2	1	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:57777024G>A	uc003hch.2	+	2	567	c.220G>A	c.(220-222)GCA>ACA	p.A74T	REST_uc003hci.2_Missense_Mutation_p.A74T|REST_uc003hcj.1_Missense_Mutation_p.A74T|REST_uc010ihf.2_5'UTR	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	74	Interaction with SIN3A.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					AAGACAGATGGCAGAACTGAT	0.473													23	72					0	0	1	0	0		A	57777024	A	A	57777024	3	1	151	1	0	0	0	0	1	0	0	0	13259	1203	42	2	222	2	REST	4	57777024	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	556690	57777024	133377252	1124	78289											
REST	5978	broad.mit.edu	37	chr4	57777250	57777250	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaacacctggagcggaggAcaaaggcaagagctcgaaga	16	3	14	8	2	0	3	0	1	0	2	1	7	0	6	1	4	3	2	1	4	4	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:57777250A>G	uc003hch.2	+	2	793	c.446A>G	c.(445-447)GAC>GGC	p.D149G	REST_uc003hci.2_Missense_Mutation_p.D149G|REST_uc003hcj.1_Missense_Mutation_p.D149G|REST_uc010ihf.2_5'UTR	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	149					cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					GGAGCGGAGGACAAAGGCAAG	0.468													26	134					0	0	1	0	0		G	57777250	G	G	57777250	3	3	151	1	0	0	0	0	1	0	0	0	13259	275	10	3	448	3	REST	4	57777250	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	226	57777250	133377026	1125	78290											
LPHN3	23284	broad.mit.edu	37	chr4	62758502	62758502	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaaaccggagtactagtAccccatctccagctgtcgag	12	7	10	12	2	1	1	0	0	1	1	3	4	1	2	4	1	4	3	4	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:62758502A>G	uc010ihh.2	+	7	1578	c.1405A>G	c.(1405-1407)ACC>GCC	p.T469A	LPHN3_uc003hcq.3_Missense_Mutation_p.T469A|LPHN3_uc003hcs.1_Missense_Mutation_p.T298A	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	469	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GAGTACTAGTACCCCATCTCC	0.547													14	79					0	0	1	0	0		G	62758502	G	G	62758502	3	3	151	1	0	0	0	0	1	0	0	0	8935	391	14	3	1431	3	LPHN3	4	62758502	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4981252	62758502	128395774	1126	78291											
EPHA5	2044	broad.mit.edu	37	chr4	66197715	66197715	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcacctgagccacagcgTccattgaactgtatccattt	10	11	8	12	1	1	2	1	2	0	0	3	2	3	2	4	1	3	1	4	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:66197715T>G	uc003hcy.2	-	17	3177	c.2984A>C	c.(2983-2985)GAC>GCC	p.D995A	EPHA5_uc003hcx.2_Missense_Mutation_p.D927A|EPHA5_uc003hcz.2_Missense_Mutation_p.D973A|EPHA5_uc011cah.1_Missense_Mutation_p.D996A|EPHA5_uc011cai.1_Missense_Mutation_p.D974A|EPHA5_uc003hda.2_Missense_Mutation_p.D996A	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	995	Cytoplasmic (Potential).|SAM.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						AGCCACAGCGTCCATTGAACT	0.423										TSP Lung(17;0.13)			9	86					0	0	1	0	0		G	66197715	G	G	66197715	3	3	151	1	0	0	0	0	1	0	0	0	5178	1667	58	5	137	5	EPHA5	4	66197715	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3439213	66197715	124956561	1127	78292											
YTHDC1	91746	broad.mit.edu	37	chr4	69202829	69202829	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagtcactggcctcacttcGagtgtcataatcatttccct	9	13	7	12	1	4	1	4	0	0	1	6	2	5	1	2	1	0	0	2	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:69202829G>A	uc003hdx.2	-	4	1152	c.799C>T	c.(799-801)CGA>TGA	p.R267*	YTHDC1_uc003hdy.2_Nonsense_Mutation_p.R267*	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	267										upper_aerodigestive_tract(1)|ovary(1)	2						GCCTCACTTCGAGTGTCATAA	0.333													30	111					0	0	1	0	0		A	69202829	A	A	69202829	4	1	151	1	0	0	0	0	0	1	0	0	17522	1066	37	1	1440	1	YTHDC1	4	69202829	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3005114	69202829	121951447	1128	78293											
UGT2B10	7365	broad.mit.edu	37	chr4	69682128	69682128	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctgtaaagatgtagttTcaaataagaaacttatgaaa	18	13	6	4	0	2	3	1	1	1	2	2	3	2	3	0	0	1	3	0	0	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:69682128T>C	uc003hee.2	+	1	416	c.391T>C	c.(391-393)TCA>CCA	p.S131P	UGT2B10_uc011cam.1_Missense_Mutation_p.S131P	NM_001075	NP_001066	P36537	UDB10_HUMAN	UDP glucuronosyltransferase 2B10 isoform 1	131					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						AGATGTAGTTTCAAATAAGAA	0.323													30	134					0	0	1	0	0		C	69682128	C	C	69682128	3	2	151	1	0	0	0	0	1	0	0	0	16982	1783	62	3	393	3	UGT2B10	4	69682128	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	479299	69682128	121472148	1129	78294											
UGT2B10	7365	broad.mit.edu	37	chr4	69696589	69696589	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaaggaaagaagggaaaaAgggattagttatatctgaga	20	7	13	1	0	1	2	0	1	1	2	1	7	1	5	0	3	0	1	0	3	9	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:69696589A>G	uc003hee.2	+	6	1604	c.1579A>G	c.(1579-1581)AGG>GGG	p.R527G	UGT2B10_uc011cam.1_Missense_Mutation_p.R443G	NM_001075	NP_001066	P36537	UDB10_HUMAN	UDP glucuronosyltransferase 2B10 isoform 1	527					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						GAAGGGAAAAAGGGATTAGTT	0.373													27	117					0	0	1	0	0		G	69696589	G	G	69696589	3	3	151	1	0	0	0	0	1	0	0	0	16982	63	3	3	1601	3	UGT2B10	4	69696589	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	14461	69696589	121457687	1130	78295											
UGT2A3	79799	broad.mit.edu	37	chr4	69817054	69817054	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctataagcattacatcgtagTtggtttcctgtagcttcttc	8	17	7	9	1	1	0	0	0	1	0	4	0	2	0	1	1	3	6	1	1	5	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:69817054T>C	uc003hef.2	-	1	456	c.425A>G	c.(424-426)AAC>AGC	p.N142S	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	142	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						TACATCGTAGTTGGTTTCCTG	0.378													38	120					0	0	1	0	0		C	69817054	C	C	69817054	3	2	151	1	0	0	0	0	1	0	0	0	16981	1725	60	3	1182	3	UGT2A3	4	69817054	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	120465	69817054	121337222	1131	78296											
C4orf35	85438	broad.mit.edu	37	chr4	71201539	71201539	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacattaactgactctgaTgagaagtttatcactgtgtt	11	15	8	7	0	2	3	1	3	1	1	2	4	2	3	0	0	2	3	0	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:71201539T>C	uc003hff.2	+	1	869	c.783T>C	c.(781-783)GAT>GAC	p.D261D		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	261						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				CTGACTCTGATGAGAAGTTTA	0.403													29	104					0	0	1	0	0		C	71201539	C	C	71201539	2	2	151	1	0	0	0	0	0	0	0	1	2268	1461	51	3		3	C4orf35	4	71201539	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1384485	71201539	119952737	1132	78297											
MUC7	4589	broad.mit.edu	37	chr4	71346984	71346984	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccacccacaccttctgcaActacaccagctccaccatct	10	7	2	22	0	2	0	0	0	2	0	3	0	3	0	7	0	4	2	7	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:71346984A>G	uc011cat.1	+	4	811	c.523A>G	c.(523-525)ACT>GCT	p.T175A	MUC7_uc011cau.1_Missense_Mutation_p.T175A|MUC7_uc003hfj.2_Missense_Mutation_p.T175A|uc011cav.1_RNA	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	175	1.|Thr-rich.					extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			ACCTTCTGCAACTACACCAGC	0.532													17	118					0	0	1	0	0		G	71346984	G	G	71346984	3	3	151	1	0	0	0	0	1	0	0	0	9999	43	2	3	529	3	MUC7	4	71346984	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	145445	71346984	119807292	1133	78298											
ADAMTS3	9508	broad.mit.edu	37	chr4	73205379	73205379	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatgttgccataaacagtAcctagatcatcaaggccttc	12	11	8	10	0	2	1	2	0	0	1	3	2	2	2	3	2	3	2	3	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:73205379A>G	uc003hgk.1	-	5	730	c.693T>C	c.(691-693)GGT>GGC	p.G231G		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	231					collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CATAAACAGTACCTAGATCAT	0.463													44	187					0	0	1	0	0		G	73205379	G	G	73205379	2	3	151	1	0	0	0	0	0	0	0	1	267	378	14	3		3	ADAMTS3	4	73205379	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1858395	73205379	117948897	1134	78299											
ANKRD17	26057	broad.mit.edu	37	chr4	73981536	73981536	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catatagtgaacaacatattAccttatcagtgatggttgct	13	14	7	7	0	1	2	1	2	0	0	1	2	1	2	1	1	4	2	1	1	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:73981536A>G	uc003hgp.2	-	23	4401	c.4284_splice	c.e23+1	p.K1428_splice	ANKRD17_uc003hgo.2_Splice_Site_p.K1315_splice|ANKRD17_uc003hgq.2_Splice_Site_p.K1177_splice|ANKRD17_uc003hgr.2_Splice_Site_p.K1427_splice|ANKRD17_uc011cbd.1_Splice_Site_p.K993_splice	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a						interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			ACAACATATTACCTTATCAGT	0.363													28	168					0	0	1	0	0		G	73981536	G	G	73981536	5	3	151	1	0	0	0	0	0	0	1	0	646	405	14	3	3573	3	ANKRD17	4	73981536	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	776157	73981536	117172740	1135	78300											
ANKRD17	26057	broad.mit.edu	37	chr4	74008406	74008406	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccaaaagtagttccaccActgccagatgaccccctgca	12	6	8	15	0	0	2	0	1	0	1	1	3	1	2	6	0	3	3	6	0	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:74008406A>G	uc003hgp.2	-	12	2153	c.2036T>C	c.(2035-2037)GTG>GCG	p.V679A	ANKRD17_uc003hgo.2_Missense_Mutation_p.V566A|ANKRD17_uc003hgq.2_Missense_Mutation_p.V679A|ANKRD17_uc003hgr.2_Missense_Mutation_p.V679A|ANKRD17_uc011cbd.1_Missense_Mutation_p.V244A	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	679	ANK 14.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TAGTTCCACCACTGCCAGATG	0.433													24	108					0	0	1	0	0		G	74008406	G	G	74008406	3	3	151	1	0	0	0	0	1	0	0	0	646	159	6	3	5867	3	ANKRD17	4	74008406	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	26870	74008406	117145870	1136	78301											
ALB	213	broad.mit.edu	37	chr4	74279175	74279175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctgtgaaaatcaagattcGatctccagtaaactgaagga	16	10	8	7	1	3	3	1	2	2	1	5	5	3	4	1	1	1	1	1	1	6	2	rs143665140		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:74279175G>A	uc003hgs.3	+	8	955	c.882G>A	c.(880-882)TCG>TCA	p.S294S	ALB_uc003hgw.3_Silent_p.S102S|ALB_uc011cbe.1_5'UTR|ALB_uc003hgt.3_Silent_p.S294S|ALB_uc010iii.2_Silent_p.S179S|ALB_uc003hgu.3_Silent_p.S144S|ALB_uc003hgv.3_5'UTR|ALB_uc011cbf.1_Silent_p.S184S|ALB_uc010iij.2_RNA|ALB_uc003hgx.3_5'UTR	NM_000477	NP_000468	P02768	ALBU_HUMAN	albumin preproprotein	294	Albumin 2.				bile acid and bile salt transport|bile acid metabolic process|cellular response to starvation|hemolysis by symbiont of host erythrocytes|lipoprotein metabolic process|maintenance of mitochondrion location|negative regulation of apoptosis|platelet activation|platelet degranulation|sodium-independent organic anion transport|transmembrane transport	extracellular space|platelet alpha granule lumen|protein complex	antioxidant activity|chaperone binding|copper ion binding|DNA binding|drug binding|fatty acid binding|pyridoxal phosphate binding|toxin binding			ovary(3)|skin(3)	6	Breast(15;0.00102)		Epithelial(6;4.8e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000263)|all cancers(17;0.000472)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Acenocoumarol(DB01418)|Acitretin(DB00459)|Alfentanil(DB00802)|Aluminium(DB01370)|Auranofin(DB00995)|Bismuth(DB01402)|Captopril(DB01197)|Carboplatin(DB00958)|Cefalotin(DB00456)|Cefazolin(DB01327)|Cefonicid(DB01328)|Cefoperazone(DB01329)|Chlorpheniramine(DB01114)|Chlorpromazine(DB00477)|Ciprofloxacin(DB00537)|Clonazepam(DB01068)|Cloxacillin(DB01147)|Cytarabine(DB00987)|Dantrolene(DB01219)|Diclofenac(DB00586)|Diflunisal(DB00861)|Digitoxin(DB01396)|Estrone(DB00655)|Ethacrynic acid(DB00903)|Etodolac(DB00749)|Flurbiprofen(DB00712)|Gadobenate Dimeglumine(DB00743)|Gatifloxacin(DB01044)|Gliclazide(DB01120)|Halothane(DB01159)|Human Serum Albumin(DB00062)|Hyaluronidase(DB00070)|Ibuprofen(DB01050)|Insulin-detemir(DB01307)|Insulin-glargine(DB01308)|Iodipamide(DB04711)|Ketoprofen(DB01009)|Levamisole(DB00848)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Mefenamic acid(DB00784)|Mephenytoin(DB00532)|Methotrexate(DB00563)|Nortriptyline(DB00540)|Oxazepam(DB00842)|Paclitaxel(DB01229)|Phenprocoumon(DB00946)|Probenecid(DB01032)|Propofol(DB00818)|Pyridoxine(DB00165)|Salicyclic acid(DB00936)|Saquinavir(DB01232)|Serum albumin(DB00096)|Serum albumin iodonated(DB00064)|Sodium lauryl sulfate(DB00815)|Sucralfate(DB00364)|Sulfamethizole(DB00576)|Sulindac(DB00605)|Suprofen(DB00870)|Testosterone(DB00624)|Xanthophyll(DB00137)	ATCAAGATTCGATCTCCAGTA	0.418													26	95					0	0	1	0	0		A	74279175	A	A	74279175	2	1	151	1	0	0	0	0	0	0	0	1	486	1045	37	1		1	ALB	4	74279175	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	270769	74279175	116875101	1137	78302											
CDKL2	8999	broad.mit.edu	37	chr4	76551133	76551133	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatcaccattccataacTcccttctccaaccaaaccca	12	10	0	19	0	3	0	2	0	1	0	6	0	5	0	6	0	3	0	6	0	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:76551133T>C	uc003hiq.2	-	2	565	c.40A>G	c.(40-42)AGT>GGT	p.S14G	CDKL2_uc011cbp.1_Missense_Mutation_p.S14G|CDKL2_uc010iix.1_RNA	NM_003948	NP_003939	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2	14	ATP (By similarity).|Protein kinase.				sex differentiation|signal transduction	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(2)|stomach(2)|breast(2)|skin(1)	7			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			ATTCCATAACTCCCTTCTCCA	0.328													64	203					0	0	1	0	0		C	76551133	C	C	76551133	3	2	151	1	0	0	0	0	1	0	0	0	3157	1551	54	3	1481	3	CDKL2	4	76551133	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2271958	76551133	114603143	1138	78303											
G3BP2	9908	broad.mit.edu	37	chr4	76570767	76570767	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtggaccaccgggaccTcgatcattgcgcctaatatc	9	8	9	15	4	1	0	1	0	0	0	3	3	1	2	5	2	1	0	5	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:76570767T>C	uc003hir.2	-	12	1461	c.1296A>G	c.(1294-1296)CGA>CGG	p.R432R	G3BP2_uc003his.2_Silent_p.R432R|G3BP2_uc003hit.2_Silent_p.R399R	NM_012297	NP_036429	Q9UN86	G3BP2_HUMAN	Ras-GTPase activating protein SH3 domain-binding	432	Gly-rich.				cytoplasmic sequestering of NF-kappaB|mRNA transport|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	GTPase activator activity|nucleotide binding|receptor signaling complex scaffold activity|RNA binding			breast(2)|central_nervous_system(1)	3			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			CACCGGGACCTCGATCATTGC	0.512													26	139					0	0	1	0	0		C	76570767	C	C	76570767	2	2	151	1	0	0	0	0	0	0	0	1	6156	1538	54	3		3	G3BP2	4	76570767	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	19634	76570767	114583509	1139	78304											
SHROOM3	57619	broad.mit.edu	37	chr4	77661944	77661944	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagcggaggagcgtcggAcagcggccgtggcccccaga	7	3	18	13	5	0	2	0	1	0	1	1	5	0	5	3	5	3	1	3	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:77661944A>G	uc011cbx.1	+	5	3571	c.2618A>G	c.(2617-2619)GAC>GGC	p.D873G	SHROOM3_uc011cbz.1_Missense_Mutation_p.D697G|SHROOM3_uc003hkf.1_Missense_Mutation_p.D748G|SHROOM3_uc003hkg.2_Missense_Mutation_p.D651G	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	873					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			GGAGCGTCGGACAGCGGCCGT	0.687													3	19					0	0	1	0	0		G	77661944	G	G	77661944	3	3	151	1	0	0	0	0	1	0	0	0	14320	275	10	3	2636	3	SHROOM3	4	77661944	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1091177	77661944	113492332	1140	78305											
ANKRD56	345079	broad.mit.edu	37	chr4	77817393	77817393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacccttgggctgggtgccGttcctgccttggagggcttc	3	11	14	13	1	0	0	0	0	0	0	2	1	1	1	4	4	3	3	4	4	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:77817393G>A	uc003hki.2	-	1	1610	c.1610C>T	c.(1609-1611)ACG>ATG	p.T537M		NM_001029870	NP_001025041	A6NEL2	ANR56_HUMAN	ankyrin repeat domain 56	537											0						GCTGGGTGCCGTTCCTGCCTT	0.577													16	50					0	0	1	0	0		A	77817393	A	A	77817393	3	1	151	1	0	0	0	0	1	0	0	0	682	1145	40	1	775	1	ANKRD56	4	77817393	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	155449	77817393	113336883	1141	78306											
FRAS1	80144	broad.mit.edu	37	chr4	79205664	79205664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatggtgtgtgcacagctGtggactgggtttttaccaag	7	13	15	6	0	0	0	0	0	0	0	0	2	0	2	1	4	3	3	1	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:79205664G>A	uc003hlb.2	+	13	1801	c.1361G>A	c.(1360-1362)TGT>TAT	p.C454Y	FRAS1_uc003hkw.2_Missense_Mutation_p.C454Y|FRAS1_uc003hky.1_Missense_Mutation_p.C158Y|FRAS1_uc003hkz.2_Missense_Mutation_p.C158Y|FRAS1_uc003hla.1_5'Flank	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	454	FU 1.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						GTGCACAGCTGTGGACTGGGT	0.502													56	205					0	0	1	0	0		A	79205664	A	A	79205664	3	1	151	1	0	0	0	0	1	0	0	0	6056	1377	48	4	1411	4	FRAS1	4	79205664	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1388271	79205664	111948612	1142	78307											
NAA11	84779	broad.mit.edu	37	chr4	80246583	80246583	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctgccatctgcgagagaTcccgcttcatagcataagca	11	9	8	13	2	3	1	1	0	2	1	4	3	4	1	2	0	4	3	2	0	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:80246583T>A	uc003hlt.3	-	1	589	c.449A>T	c.(448-450)GAT>GTT	p.D150V		NM_032693	NP_116082	Q9BSU3	NAA11_HUMAN	alpha-N-acetyltransferase 1B	150	N-acetyltransferase.					cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2						CTGCGAGAGATCCCGCTTCAT	0.522													20	63					0	0	1	0	0		A	80246583	A	A	80246583	3	1	151	1	0	0	0	0	1	0	0	0	10135	1435	50	5	244	5	NAA11	4	80246583	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1040919	80246583	110907693	1143	78308											
SEC31A	22872	broad.mit.edu	37	chr4	83765642	83765642	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccatgcattatgaaaccCggaggtggaggattttctcc	9	13	10	9	1	1	1	0	1	1	0	3	4	2	4	3	4	2	1	3	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:83765642C>T	uc003hnf.2	-	21	2687	c.2523G>A	c.(2521-2523)CCG>CCA	p.P841P	SEC31A_uc003hnd.2_5'UTR|SEC31A_uc003hne.2_Silent_p.P605P|SEC31A_uc011ccl.1_Silent_p.P802P|SEC31A_uc003hnl.2_Silent_p.P802P|SEC31A_uc003hng.2_Silent_p.P841P|SEC31A_uc003hnh.2_Silent_p.P841P|SEC31A_uc003hni.2_Silent_p.P841P|SEC31A_uc003hnj.2_Silent_p.P802P|SEC31A_uc011ccm.1_Silent_p.P836P|SEC31A_uc011ccn.1_Silent_p.P841P|SEC31A_uc003hnk.2_Silent_p.P802P|SEC31A_uc003hnm.2_Silent_p.P841P|SEC31A_uc003hnn.1_Silent_p.P841P	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	841	Interaction with PDCD6.|Pro-rich.				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				TTATGAAACCCGGAGGTGGAG	0.453													15	71					0	0	1	0	0		T	83765642	T	T	83765642	2	4	151	1	0	0	0	0	0	0	0	1	14023	639	23	1		1	SEC31A	4	83765642	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3519059	83765642	107388634	1144	78309											
CDS1	1040	broad.mit.edu	37	chr4	85553014	85553014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggtgaagaaacattatcGtctgcagttttatatggtgt	10	17	10	4	1	1	2	0	1	1	1	2	2	1	2	0	2	2	2	0	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:85553014G>A	uc011ccv.1	+	6	1121	c.623G>A	c.(622-624)CGT>CAT	p.R208H	CDS1_uc010ike.1_Missense_Mutation_p.R12H	NM_001263	NP_001254	Q92903	CDS1_HUMAN	CDP-diacylglycerol synthase 1	208					signal transduction|visual perception	endoplasmic reticulum membrane|integral to membrane	diacylglycerol cholinephosphotransferase activity|phosphatidate cytidylyltransferase activity			large_intestine(2)|ovary(1)|breast(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.00101)		AAACATTATCGTCTGCAGTTT	0.328													60	307					0	0	1	0	0		A	85553014	A	A	85553014	3	1	151	1	0	0	0	0	1	0	0	0	3180	1145	40	1	645	1	CDS1	4	85553014	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1787372	85553014	105601262	1145	78310											
CDS1	1040	broad.mit.edu	37	chr4	85569713	85569713	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgccttttatcattaggggCccaaatcccagcaaagtgct	10	12	8	11	0	1	0	1	0	0	0	2	0	2	0	3	2	3	2	3	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:85569713C>T	uc011ccv.1	+	13	1758	c.1260C>T	c.(1258-1260)GGC>GGT	p.G420G		NM_001263	NP_001254	Q92903	CDS1_HUMAN	CDP-diacylglycerol synthase 1	420					signal transduction|visual perception	endoplasmic reticulum membrane|integral to membrane	diacylglycerol cholinephosphotransferase activity|phosphatidate cytidylyltransferase activity			large_intestine(2)|ovary(1)|breast(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.00101)		TCATTAGGGGCCCAAATCCCA	0.373													19	80					0	0	1	0	0		T	85569713	T	T	85569713	2	4	151	1	0	0	0	0	0	0	0	1	3180	726	26	2		2	CDS1	4	85569713	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	16699	85569713	105584563	1146	78311											
WDFY3	23001	broad.mit.edu	37	chr4	85660161	85660161	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcccaagtcaaggcaattAccttcactaatatcttggct	12	12	5	12	0	3	0	2	0	1	0	4	0	4	0	2	2	1	2	2	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:85660161A>G	uc003hpd.2	-	40	6982	c.6574_splice	c.e40+1	p.G2192_splice		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform							cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CAAGGCAATTACCTTCACTAA	0.413													20	128					0	0	1	0	0		G	85660161	G	G	85660161	5	3	151	1	0	0	0	0	0	0	1	0	17296	405	14	3	4120	3	WDFY3	4	85660161	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	90448	85660161	105494115	1147	78312											
WDFY3	23001	broad.mit.edu	37	chr4	85672710	85672710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgtctatgattaagacccGcatgaagtcaaaaacgaact	15	10	8	8	2	2	3	1	2	1	1	2	4	2	3	1	0	2	2	1	0	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:85672710G>A	uc003hpd.2	-	36	6307	c.5899C>T	c.(5899-5901)CGG>TGG	p.R1967W		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1967						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		ATTAAGACCCGCATGAAGTCA	0.433													27	113					0	0	1	0	0		A	85672710	A	A	85672710	3	1	151	1	0	0	0	0	1	0	0	0	17296	1086	38	1	4813	1	WDFY3	4	85672710	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	12549	85672710	105481566	1148	78313											
WDFY3	23001	broad.mit.edu	37	chr4	85694043	85694043	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actacaaatttctcacaaacCgcaaaggttggcaaagtaga	17	8	7	9	1	1	1	1	0	1	1	2	1	1	1	1	2	2	4	1	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:85694043C>T	uc003hpd.2	-	30	5202	c.4794G>A	c.(4792-4794)GCG>GCA	p.A1598A		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1598						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TCTCACAAACCGCAAAGGTTG	0.338													12	56					0	0	1	0	0		T	85694043	T	T	85694043	2	4	151	1	0	0	0	0	0	0	0	1	17296	639	23	1		1	WDFY3	4	85694043	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	21333	85694043	105460233	1149	78314											
WDFY3	23001	broad.mit.edu	37	chr4	85731422	85731422	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catagcaacgagcaaggatgTaatgtacacaaatcctccaa	17	7	7	10	1	0	0	0	0	0	0	2	2	2	1	2	1	4	4	2	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:85731422T>C	uc003hpd.2	-	14	2371	c.1963A>G	c.(1963-1965)ACA>GCA	p.T655A	WDFY3_uc003hpf.2_Missense_Mutation_p.T655A	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	655						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AGCAAGGATGTAATGTACACA	0.433													12	57					0	0	1	0	0		C	85731422	C	C	85731422	3	2	151	1	0	0	0	0	1	0	0	0	17296	1638	57	3	8880	3	WDFY3	4	85731422	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	37379	85731422	105422854	1150	78315											
MAPK10	5602	broad.mit.edu	37	chr4	86989018	86989018	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catacttgggccgattctccAcatagtttcttactgtgggt	7	15	9	10	1	2	0	0	0	2	0	3	1	2	0	2	2	2	1	2	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:86989018A>G	uc003hpq.2	-	9	960	c.893T>C	c.(892-894)GTG>GCG	p.V298A	MAPK10_uc010ikg.2_Missense_Mutation_p.V260A|MAPK10_uc003hpr.2_Missense_Mutation_p.V260A|MAPK10_uc003hps.2_Missense_Mutation_p.V298A|MAPK10_uc003hpt.2_Missense_Mutation_p.V298A|MAPK10_uc003hpu.2_Missense_Mutation_p.V298A|MAPK10_uc003hpv.2_Missense_Mutation_p.V153A|MAPK10_uc003hpn.2_Missense_Mutation_p.V46A|MAPK10_uc003hpo.2_Missense_Mutation_p.V153A|MAPK10_uc011ccw.1_Missense_Mutation_p.V184A|MAPK10_uc003hpp.2_Missense_Mutation_p.V153A	NM_138982	NP_620448	P53779	MK10_HUMAN	mitogen-activated protein kinase 10 isoform 2	298	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)		CCGATTCTCCACATAGTTTCT	0.458													33	100					0	0	1	0	0		G	86989018	G	G	86989018	3	3	151	1	0	0	0	0	1	0	0	0	9290	159	6	3	526	3	MAPK10	4	86989018	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1257596	86989018	104165258	1151	78316											
PTPN13	5783	broad.mit.edu	37	chr4	87638237	87638237	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctcccaggggtagatgAaaccttaagtcaaggccagt	11	9	12	9	0	2	2	1	1	1	1	3	2	2	2	3	4	1	1	3	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:87638237A>G	uc003hpz.2	+	9	1832	c.1352A>G	c.(1351-1353)GAA>GGA	p.E451G	PTPN13_uc003hpy.2_Missense_Mutation_p.E451G|PTPN13_uc003hqa.2_Missense_Mutation_p.E451G|PTPN13_uc003hqb.2_Missense_Mutation_p.E451G	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	451						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		GGGGTAGATGAAACCTTAAGT	0.388													6	25					0	0	1	0	0		G	87638237	G	G	87638237	3	3	151	1	0	0	0	0	1	0	0	0	12805	246	9	3	1382	3	PTPN13	4	87638237	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	649219	87638237	103516039	1152	78317											
PTPN13	5783	broad.mit.edu	37	chr4	87672210	87672210	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcgagtttaaatagaagTcctgaaaggaggaaacatga	16	9	12	4	1	0	3	0	2	0	1	1	6	1	5	1	2	2	2	1	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:87672210T>C	uc003hpz.2	+	19	3579	c.3099T>C	c.(3097-3099)AGT>AGC	p.S1033S	PTPN13_uc003hpy.2_Silent_p.S1033S|PTPN13_uc003hqa.2_Silent_p.S1033S|PTPN13_uc003hqb.2_Intron	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1033						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		TAAATAGAAGTCCTGAAAGGA	0.388													11	39					0	0	1	0	0		C	87672210	C	C	87672210	2	2	151	1	0	0	0	0	0	0	0	1	12805	1664	58	3		3	PTPN13	4	87672210	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	33973	87672210	103482066	1153	78318											
PTPN13	5783	broad.mit.edu	37	chr4	87679930	87679930	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgacttggatggatgctTgaagccaggtactttacatt	10	13	11	7	0	0	2	0	2	0	0	0	4	0	4	1	3	5	3	1	3	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:87679930T>C	uc003hpz.2	+	22	3893	c.3413T>C	c.(3412-3414)TTG>TCG	p.L1138S	PTPN13_uc003hpy.2_Missense_Mutation_p.L1138S|PTPN13_uc003hqa.2_Missense_Mutation_p.L1119S|PTPN13_uc003hqb.2_Missense_Mutation_p.L947S	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1138	PDZ 1.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		GATGGATGCTTGAAGCCAGGT	0.403													21	127					0	0	1	0	0		C	87679930	C	C	87679930	3	2	151	1	0	0	0	0	1	0	0	0	12805	1821	63	3	3495	3	PTPN13	4	87679930	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	7720	87679930	103474346	1154	78319											
KLHL8	57563	broad.mit.edu	37	chr4	88099686	88099686	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcatttctggtccaaagaAccaactgtttttgttgatag	11	16	7	7	0	2	2	1	1	1	1	3	2	3	2	2	1	2	2	2	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:88099686A>G	uc011cdb.1	-	5	1424	c.1039T>C	c.(1039-1041)TTC>CTC	p.F347L	KLHL8_uc003hql.1_Missense_Mutation_p.F347L|KLHL8_uc003hqm.1_Missense_Mutation_p.F271L|KLHL8_uc003hqn.1_Missense_Mutation_p.F164L|KLHL8_uc010ikj.1_5'UTR	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8	347	Kelch 1.										0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		GGTCCAAAGAACCAACTGTTT	0.443													27	160					0	0	1	0	0		G	88099686	G	G	88099686	3	3	151	1	0	0	0	0	1	0	0	0	8411	43	2	3	847	3	KLHL8	4	88099686	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	419756	88099686	103054590	1155	78320											
NUDT9	53343	broad.mit.edu	37	chr4	88363012	88363012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggactggactggtgggcCgggggcttttggggcgatgg	4	8	22	7	3	0	0	0	0	0	0	0	4	0	2	1	9	0	1	1	9	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:88363012C>T	uc003hqq.2	+	4	798	c.475C>T	c.(475-477)CGG>TGG	p.R159W	NUDT9_uc003hqr.2_Missense_Mutation_p.R109W|NUDT9_uc010ikl.2_Missense_Mutation_p.R127W	NM_024047	NP_076952	Q9BW91	NUDT9_HUMAN	nudix-type motif 9 isoform a	159						mitochondrion	ADP-ribose diphosphatase activity				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000937)		ACTGGTGGGCCGGGGGCTTTT	0.428													3	40					0	0	1	0	0		T	88363012	T	T	88363012	3	4	151	1	0	0	0	0	1	0	0	0	10765	643	23	1	489	1	NUDT9	4	88363012	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	263326	88363012	102791264	1156	78321											
SPARCL1	8404	broad.mit.edu	37	chr4	88414912	88414912	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggccatcagtgccgccaTcatcgccatcatcatcgcca	8	8	9	16	3	4	0	4	0	0	0	6	0	4	0	5	2	1	0	5	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:88414912T>C	uc010ikm.2	-	5	1612	c.1040A>G	c.(1039-1041)GAT>GGT	p.D347G	SPARCL1_uc011cdc.1_Missense_Mutation_p.D222G|SPARCL1_uc003hqs.3_Missense_Mutation_p.D347G|SPARCL1_uc011cdd.1_Missense_Mutation_p.D222G|SPARCL1_uc003hqt.2_Missense_Mutation_p.D347G	NM_001128310	NP_001121782	Q14515	SPRL1_HUMAN	SPARC-like 1 precursor	347					signal transduction	extracellular space|proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00118)		AGTGCCGCcatcatcgccatc	0.443													37	135					0	0	1	0	0		C	88414912	C	C	88414912	3	2	151	1	0	0	0	0	1	0	0	0	15021	1435	50	3	986	3	SPARCL1	4	88414912	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	51900	88414912	102739364	1157	78322											
HERC5	51191	broad.mit.edu	37	chr4	89425424	89425424	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcaattacattttcaacgActctgtaaaggcggtttatg	12	15	7	7	2	3	0	2	0	1	0	3	1	3	0	0	2	2	2	0	2	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:89425424A>G	uc003hrt.2	+	21	2777	c.2624A>G	c.(2623-2625)GAC>GGC	p.D875G	HERC5_uc011cdm.1_Missense_Mutation_p.D513G	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	875	HECT.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		ATTTTCAACGACTCTGTAAAG	0.343													31	141					0	0	1	0	0		G	89425424	G	G	89425424	3	3	151	1	0	0	0	0	1	0	0	0	7077	275	10	3	2706	3	HERC5	4	89425424	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1010512	89425424	101728852	1158	78323											
HERC3	8916	broad.mit.edu	37	chr4	89608434	89608434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggagataatgtaactGtgtgcaaggataacaggtta	13	10	14	4	0	0	1	0	0	0	1	0	3	0	2	0	4	3	3	0	4	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:89608434G>A	uc003hrw.1	+	23	2807	c.2641G>A	c.(2641-2643)GTG>ATG	p.V881M	HERC3_uc011cdn.1_Missense_Mutation_p.V763M|HERC3_uc011cdo.1_Missense_Mutation_p.V325M	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	881					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		TAATGTAACTGTGTGCAAGGA	0.353													17	68					0	0	1	0	0		A	89608434	A	A	89608434	3	1	151	1	0	0	0	0	1	0	0	0	7075	1377	48	4	2723	4	HERC3	4	89608434	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	183010	89608434	101545842	1159	78324											
GPRIN3	285513	broad.mit.edu	37	chr4	90169014	90169014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catggactggaaaacactgtGctgccttcctctgagcttct	8	12	9	12	0	2	1	0	1	2	0	3	3	3	3	2	2	4	2	2	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:90169014G>A	uc003hsm.1	-	2	2767	c.2248C>T	c.(2248-2250)CAC>TAC	p.H750Y		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	750										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		AAAACACTGTGCTGCCTTCCT	0.468													37	191					0	0	1	0	0		A	90169014	A	A	90169014	3	1	151	1	0	0	0	0	1	0	0	0	6747	1319	46	2	86	2	GPRIN3	4	90169014	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	560580	90169014	100985262	1160	78325											
GPRIN3	285513	broad.mit.edu	37	chr4	90171194	90171194	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggctctcctagatcgTcttcttttccggaagctgca	5	14	9	13	2	3	1	0	0	3	1	6	2	4	2	3	2	2	3	3	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:90171194T>C	uc003hsm.1	-	2	587	c.68A>G	c.(67-69)GAC>GGC	p.D23G		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	23										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		TCCTAGATCGTCTTCTTTTCC	0.537													25	91					0	0	1	0	0		C	90171194	C	C	90171194	3	2	151	1	0	0	0	0	1	0	0	0	6747	1667	58	3	2266	3	GPRIN3	4	90171194	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2180	90171194	100983082	1161	78326											
MMRN1	22915	broad.mit.edu	37	chr4	90816310	90816310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccactcgggtcatgtcggCggagatagctacaactccag	11	7	11	12	3	1	1	1	0	0	1	4	2	2	1	2	3	4	1	2	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:90816310C>T	uc003hst.2	+	1	259	c.188C>T	c.(187-189)GCG>GTG	p.A63V	MMRN1_uc010iku.2_Missense_Mutation_p.A63V	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	63					cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		GTCATGTCGGCGGAGATAGCT	0.473													22	61					0	0	1	0	0		T	90816310	T	T	90816310	3	4	151	1	0	0	0	0	1	0	0	0	9688	768	27	1	190	1	MMRN1	4	90816310	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	645116	90816310	100337966	1162	78327											
MMRN1	22915	broad.mit.edu	37	chr4	90849013	90849013	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgactcttctgcagaagaaGattgacaatatttctttgac	12	14	7	8	0	3	6	0	3	3	3	3	6	3	6	0	0	1	1	0	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:90849013G>A	uc003hst.2	+	5	1094	c.1023G>A	c.(1021-1023)AAG>AAA	p.K341K	MMRN1_uc010iku.2_Silent_p.K307K|MMRN1_uc011cds.1_Silent_p.K83K	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	341	Potential.				cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		TGCAGAAGAAGATTGACAATA	0.368													32	218					0	0	1	0	0		A	90849013	A	A	90849013	2	1	151	1	0	0	0	0	0	0	0	1	9688	933	33	4		4	MMRN1	4	90849013	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	32703	90849013	100305263	1163	78328											
FAM190A	401145	broad.mit.edu	37	chr4	91230144	91230144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttctgtggatgtaacagaaCgggcaggaagctctttacaa	12	10	12	7	1	2	1	0	0	2	1	2	3	2	3	0	3	4	4	0	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:91230144C>T	uc003hsv.3	+	2	1049	c.709C>T	c.(709-711)CGG>TGG	p.R237W	FAM190A_uc003hsu.3_Missense_Mutation_p.R237W|FAM190A_uc010ikv.2_RNA|FAM190A_uc003hsw.2_Missense_Mutation_p.R237W	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1	237										large_intestine(1)|ovary(1)	2						TGTAACAGAACGGGCAGGAAG	0.433													26	90					0	0	1	0	0		T	91230144	T	T	91230144	3	4	151	1	0	0	0	0	1	0	0	0	5532	527	19	1	711	1	FAM190A	4	91230144	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	381131	91230144	99924132	1164	78329											
GRID2	2895	broad.mit.edu	37	chr4	94436447	94436447	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatatgagcatgtccgcaTgaaaggactgaatccttttg	11	12	11	7	1	0	3	0	3	0	0	2	4	2	4	2	2	1	3	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:94436447T>C	uc011cdt.1	+	13	2336	c.2078T>C	c.(2077-2079)ATG>ACG	p.M693T	GRID2_uc011cdu.1_Missense_Mutation_p.M598T	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	693	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CATGTCCGCATGAAAGGACTG	0.478													18	78					0	0	1	0	0		C	94436447	C	C	94436447	3	2	151	1	0	0	0	0	1	0	0	0	6788	1464	51	3	2128	3	GRID2	4	94436447	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3206303	94436447	96717829	1165	78330											
GRID2	2895	broad.mit.edu	37	chr4	94436498	94436498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtattcccaaatgtggcGgatgatcaaccgaagcaatg	13	9	10	9	2	1	1	1	1	0	0	2	3	2	2	2	2	2	2	2	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:94436498G>A	uc011cdt.1	+	13	2387	c.2129G>A	c.(2128-2130)CGG>CAG	p.R710Q	GRID2_uc011cdu.1_Missense_Mutation_p.R615Q	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	710	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CAAATGTGGCGGATGATCAAC	0.473													14	105					0	0	1	0	0		A	94436498	A	A	94436498	3	1	151	1	0	0	0	0	1	0	0	0	6788	1116	39	1	2179	1	GRID2	4	94436498	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	51	94436498	96717778	1166	78331											
ATOH1	474	broad.mit.edu	37	chr4	94750593	94750593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagggagcggcgcaggatGcatgggctgaaccacgcctt	8	5	16	12	3	0	1	0	1	0	0	0	3	0	3	3	4	3	3	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:94750593G>A	uc003hta.1	+	1	516	c.516G>A	c.(514-516)ATG>ATA	p.M172I		NM_005172	NP_005163	Q92858	ATOH1_HUMAN	atonal homolog 1	172	Helix-loop-helix motif.				transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;3.57e-07)		GGCGCAGGATGCATGGGCTGA	0.597													12	40					0	0	1	0	0		A	94750593	A	A	94750593	3	1	151	1	0	0	0	0	1	0	0	0	1113	1319	46	2	518	2	ATOH1	4	94750593	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	314095	94750593	96403683	1167	78332											
SMARCAD1	56916	broad.mit.edu	37	chr4	95158115	95158115	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgttagttgattgaatcaAcaagcactatggatggagca	13	12	10	6	0	2	2	1	2	1	0	2	4	2	4	0	2	3	4	0	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:95158115A>G	uc003htc.3	+	5	805	c.550A>G	c.(550-552)ACA>GCA	p.T184A	SMARCAD1_uc003htb.3_Missense_Mutation_p.T184A|SMARCAD1_uc003htd.3_Missense_Mutation_p.T184A|SMARCAD1_uc010ila.2_Missense_Mutation_p.T47A	NM_020159	NP_064544	Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated	184	CUE 1.				chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		GATTGAATCAACAAGCACTAT	0.323													4	147					0	0	1	0	0		G	95158115	G	G	95158115	3	3	151	1	0	0	0	0	1	0	0	0	14797	43	2	3	564	3	SMARCAD1	4	95158115	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	407522	95158115	95996161	1168	78333											
HPGDS	27306	broad.mit.edu	37	chr4	95220654	95220654	+	Nonsense_Mutation	SNP	G	A	A																															gagtttggtttggggccttcGttttatccagttagcgacgg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:95220654G>A	uc003hte.1	-	6	668	c.577C>T	c.(577-579)CGA>TGA	p.R193*		NM_014485	NP_055300	O60760	HPGDS_HUMAN	prostaglandin D2 synthase, hematopoietic	193	GST C-terminal.				locomotory behavior|prostaglandin biosynthetic process|signal transduction	cytoplasm|nucleus	calcium ion binding|glutathione transferase activity|magnesium ion binding|prostaglandin-D synthase activity|protein homodimerization activity			ovary(1)	1					Glutathione(DB00143)	TGGGGCCTTCGTTTTATCCAG	0.478													20	76					0	0	1	0	0		A	95220654	A	A	95220654	4	1	151	1	0	0	0	0	0	1	0	0	7351	1153	40	1	26	1	HPGDS	4	95220654	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	62539	95220654	95933622	1169	78334	147	2									
HPGDS	27306	broad.mit.edu	37	chr4	95220656	95220656	+	Missense_Mutation	SNP	T	C	C																															gtttggtttggggccttcgtTttatccagttagcgacggca																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:95220656T>C	uc003hte.1	-	6	666	c.575A>G	c.(574-576)AAA>AGA	p.K192R		NM_014485	NP_055300	O60760	HPGDS_HUMAN	prostaglandin D2 synthase, hematopoietic	192	GST C-terminal.				locomotory behavior|prostaglandin biosynthetic process|signal transduction	cytoplasm|nucleus	calcium ion binding|glutathione transferase activity|magnesium ion binding|prostaglandin-D synthase activity|protein homodimerization activity			ovary(1)	1					Glutathione(DB00143)	GGGCCTTCGTTTTATCCAGTT	0.473													29	67					0	0	1	0	0		C	95220656	C	C	95220656	3	2	151	1	0	0	0	0	1	0	0	0	7351	1841	64	3	28	3	HPGDS	4	95220656	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2	95220656	95933620	1170	78335	147	2									
PDLIM5	10611	broad.mit.edu	37	chr4	95561578	95561578	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaaacgaactccgatgtgCgcccattgtaaccaggtcat	11	8	11	11	3	1	0	1	0	0	0	2	3	2	1	3	2	4	1	3	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:95561578C>T	uc003hti.2	+	9	1411	c.1260C>T	c.(1258-1260)TGC>TGT	p.C420C	PDLIM5_uc011cdx.1_Silent_p.C317C|PDLIM5_uc003hth.2_Silent_p.C311C|PDLIM5_uc003htj.2_Silent_p.C95C|PDLIM5_uc003htk.2_Silent_p.C449C|PDLIM5_uc011cdy.1_Silent_p.C298C|PDLIM5_uc003htl.2_Silent_p.C95C	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	420	LIM zinc-binding 1.				regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		CTCCGATGTGCGCCCATTGTA	0.423													38	159					0	0	1	0	0		T	95561578	T	T	95561578	2	4	151	1	0	0	0	0	0	0	0	1	11702	776	27	1		1	PDLIM5	4	95561578	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	340922	95561578	95592698	1171	78336											
ADH4	127	broad.mit.edu	37	chr4	100052676	100052676	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtttcagatccacctgcAcagtcaagggcaaaatccac	13	8	8	12	0	2	1	2	0	0	1	4	1	4	1	3	2	1	3	3	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:100052676A>G	uc003hun.2	-	6	898	c.822T>C	c.(820-822)TGT>TGC	p.C274C	uc003hum.1_Intron|ADH4_uc011ced.1_Silent_p.C293C	NM_000670	NP_000661	P08319	ADH4_HUMAN	class II alcohol dehydrogenase, pi subunit	274					alcohol catabolic process|cellular aldehyde metabolic process|ethanol oxidation|quinone cofactor metabolic process|retinol metabolic process|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	alcohol dehydrogenase activity, zinc-dependent|all-trans retinal binding|benzaldehyde dehydrogenase activity|NAD binding|NADPH:quinone reductase activity|retinol binding|retinol dehydrogenase activity|zinc ion binding			skin(2)	2				OV - Ovarian serous cystadenocarcinoma(123;4.48e-08)	NADH(DB00157)	ATCCACCTGCACAGTCAAGGG	0.403													10	77					0	0	1	0	0		G	100052676	G	G	100052676	2	3	151	1	0	0	0	0	0	0	0	1	310	157	6	3		3	ADH4	4	100052676	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4491098	100052676	91101600	1172	78337											
ADH6	130	broad.mit.edu	37	chr4	100128683	100128683	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgaacactggcaggcaacAccccaacaaccacacagacc	15	3	7	16	0	0	2	0	1	0	1	0	2	0	2	4	2	4	3	4	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:100128683A>G	uc003hup.3	-	7	978	c.884T>C	c.(883-885)GTG>GCG	p.V295A	uc003hum.1_Intron|ADH6_uc003huo.2_Missense_Mutation_p.V295A|ADH6_uc011cef.1_Missense_Mutation_p.V86A|ADH6_uc010ile.2_Intron	NM_000672	NP_000663	P28332	ADH6_HUMAN	class V alcohol dehydrogenase isoform 2	295	NAD (By similarity).				ethanol oxidation|response to ethanol|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|electron carrier activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(123;3.58e-08)	Abacavir(DB01048)|NADH(DB00157)	GGCAGGCAACACCCCAACAAC	0.428													14	66					0	0	1	0	0		G	100128683	G	G	100128683	3	3	151	1	0	0	0	0	1	0	0	0	312	159	6	3	259	3	ADH6	4	100128683	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	76007	100128683	91025593	1173	78338											
ADH6	130	broad.mit.edu	37	chr4	100131424	100131424	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgcaggtaaacctgctggTaccatcagacatcagttggg	10	10	11	10	0	2	1	2	0	0	1	2	1	2	1	2	3	4	5	2	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:100131424T>C	uc003hup.3	-	5	476	c.382A>G	c.(382-384)ACC>GCC	p.T128A	uc003hum.1_Intron|ADH6_uc003huo.2_Missense_Mutation_p.T128A|ADH6_uc011cef.1_Intron|ADH6_uc010ile.2_Missense_Mutation_p.T128A	NM_000672	NP_000663	P28332	ADH6_HUMAN	class V alcohol dehydrogenase isoform 2	128					ethanol oxidation|response to ethanol|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|electron carrier activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(123;3.58e-08)	Abacavir(DB01048)|NADH(DB00157)	AACCTGCTGGTACCATCAGAC	0.348													7	171					0	0	1	0	0		C	100131424	C	C	100131424	3	2	151	1	0	0	0	0	1	0	0	0	312	1638	57	3	769	3	ADH6	4	100131424	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2741	100131424	91022852	1174	78339											
RG9MTD2	93587	broad.mit.edu	37	chr4	100479326	100479326	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggttccatttgacattgTcgctctaattttttcctctt	5	22	5	9	1	2	1	0	1	2	0	5	1	4	1	2	1	0	2	2	1	1	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:100479326T>C	uc003huy.2	-	3	541	c.228A>G	c.(226-228)CGA>CGG	p.R76R	RG9MTD2_uc003huz.3_Silent_p.R76R|RG9MTD2_uc003hva.3_Silent_p.R76R	NM_152292	NP_689505	Q8TBZ6	RG9D2_HUMAN	RNA (guanine-9-) methyltransferase domain	76	Potential.						methyltransferase activity			ovary(2)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;1.7e-08)		TTTGACATTGTCGCTCTAATT	0.333													24	117					0	0	1	0	0		C	100479326	C	C	100479326	2	2	151	1	0	0	0	0	0	0	0	1	13297	1654	58	3		3	RG9MTD2	4	100479326	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	347902	100479326	90674950	1175	78340											
DNAJB14	79982	broad.mit.edu	37	chr4	100844195	100844195	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctttaaaaggtttactttActtttaaaagcatctgttgc	11	18	6	6	0	1	0	0	0	1	0	1	0	1	0	0	1	5	4	0	1	6	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:100844195A>G	uc003hvl.2	-	3	602	c.451_splice	c.e3+1	p.K151_splice	DNAJB14_uc003hvk.2_Splice_Site_p.K66_splice|DNAJB14_uc010ili.2_Splice_Site_p.K84_splice	NM_001031723	NP_001026893	Q8TBM8	DJB14_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 14						protein folding	integral to membrane	heat shock protein binding|unfolded protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;4.59e-09)		GGTTTACTTTACTTTTAAAAG	0.348													19	47					0	0	1	0	0		G	100844195	G	G	100844195	5	3	151	1	0	0	0	0	0	0	1	0	4625	405	14	3	710	3	DNAJB14	4	100844195	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	364869	100844195	90310081	1176	78341											
DDIT4L	115265	broad.mit.edu	37	chr4	101111136	101111136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctcaaactgccagttgcaAccatggtcaacggctctgtt	9	11	9	12	1	3	0	2	0	1	0	3	0	3	0	2	2	6	5	2	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:101111136A>G	uc003hvq.2	-	2	208	c.5T>C	c.(4-6)GTT>GCT	p.V2A		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	2					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		GCCAGTTGCAACCATGGTCAA	0.557													9	66					0	0	1	0	0		G	101111136	G	G	101111136	3	3	151	1	0	0	0	0	1	0	0	0	4335	43	2	3	584	3	DDIT4L	4	101111136	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	266941	101111136	90043140	1177	78342											
CENPE	1062	broad.mit.edu	37	chr4	104104378	104104378	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaacttgtccatcactaagTttcttgatcacttgtcccaa	10	14	4	13	0	3	1	2	1	1	0	5	1	5	1	3	0	1	1	3	0	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:104104378T>C	uc003hxb.1	-	10	903	c.813A>G	c.(811-813)AAA>AAG	p.K271K	CENPE_uc003hxc.1_Silent_p.K271K	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	271	Kinesin-motor.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		CATCACTAAGTTTCTTGATCA	0.343													22	78					0	0	1	0	0		C	104104378	C	C	104104378	2	2	151	1	0	0	0	0	0	0	0	1	3233	1722	60	3		3	CENPE	4	104104378	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2993242	104104378	87049898	1178	78343											
TET2	54790	broad.mit.edu	37	chr4	106156249	106156249	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggtgcttacttcaagcaaAgctcagtgttcactaaggat	12	12	9	8	0	3	0	3	0	0	0	3	1	3	1	0	2	4	4	0	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:106156249A>G	uc003hxk.2	+	3	1536	c.1150A>G	c.(1150-1152)AGC>GGC	p.S384G	TET2_uc011cez.1_Missense_Mutation_p.S405G|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Missense_Mutation_p.S384G|TET2_uc003hxi.1_Missense_Mutation_p.S384G	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	384					cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		CTTCAAGCAAAGCTCAGTGTT	0.458			Mis N|F		MDS								38	143					0	0	1	0	0		G	106156249	G	G	106156249	3	3	151	1	0	0	0	0	1	0	0	0	15795	72	3	3	1152	3	TET2	4	106156249	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2051871	106156249	84998027	1179	78344											
NPNT	255743	broad.mit.edu	37	chr4	106848587	106848587	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaaaacctgtaatcaaggTaggaaaacagtctgacataa	19	7	9	6	0	2	1	1	1	1	0	2	3	2	3	1	3	2	2	1	3	8	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:106848587T>C	uc003hya.2	+	3	470	c.265_splice	c.e3+2	p.D89_splice	NPNT_uc011cfc.1_Splice_Site_p.D106_splice|NPNT_uc011cfd.1_Splice_Site_p.D89_splice|NPNT_uc011cfe.1_Splice_Site_p.D89_splice|NPNT_uc010ilt.1_Splice_Site_p.D89_splice|NPNT_uc011cff.1_Splice_Site_p.D89_splice|NPNT_uc010ilu.1_Splice_Site	NM_001033047	NP_001028219	Q6UXI9	NPNT_HUMAN	nephronectin precursor						cell differentiation	membrane	calcium ion binding			skin(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.41e-07)		GTAATCAAGGTAGGAAAACAG	0.398													11	40					0	0	1	0	0		C	106848587	C	C	106848587	5	2	151	1	0	0	0	0	0	0	1	0	10609	1652	57	3	332	3	NPNT	4	106848587	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	692338	106848587	84305689	1180	78345											
PAPSS1	9061	broad.mit.edu	37	chr4	108622349	108622349	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagccaaactgtgcaaccAcgaaagccacctctggtccc	11	7	8	15	1	1	0	0	0	1	0	2	1	2	0	5	1	5	2	5	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:108622349A>G	uc003hyk.2	-	2	237	c.153T>C	c.(151-153)CGT>CGC	p.R51R	PAPSS1_uc011cfh.1_RNA	NM_005443	NP_005434	O43252	PAPS1_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase	51	Adenylyl-sulfate kinase.				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|sulfate adenylyltransferase (ATP) activity			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.49e-05)		CTGTGCAACCACGAAAGCCAC	0.463													39	181					0	0	1	0	0		G	108622349	G	G	108622349	2	3	151	1	0	0	0	0	0	0	0	1	11453	146	6	3		3	PAPSS1	4	108622349	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1773762	108622349	82531927	1181	78346											
HADH	3033	broad.mit.edu	37	chr4	108940769	108940769	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccaccaccagacaagacCgattcgctggcctccatttc	10	8	7	16	2	0	2	0	0	0	2	3	3	1	2	6	1	1	1	6	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:108940769C>T	uc003hyq.2	+	4	642	c.493C>T	c.(493-495)CGA>TGA	p.R165*	HADH_uc010ilx.2_Nonsense_Mutation_p.R165*|HADH_uc010ily.2_5'UTR|HADH_uc003hyr.2_Nonsense_Mutation_p.R169*	NM_005327	NP_005318	Q16836	HCDH_HUMAN	L-3-hydroxyacyl-Coenzyme A dehydrogenase	165					fatty acid beta-oxidation	mitochondrial matrix	3-hydroxyacyl-CoA dehydrogenase activity|NAD+ binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000168)	NADH(DB00157)	CAGACAAGACCGATTCGCTGG	0.498													28	199					0	0	1	0	0		T	108940769	T	T	108940769	4	4	151	1	0	0	0	0	0	1	0	0	6958	644	23	1	507	1	HADH	4	108940769	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	318420	108940769	82213507	1182	78347											
RPL34	6164	broad.mit.edu	37	chr4	109546411	109546411	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataaaaatgaaaagacgctgTatgtatgacttttttttttt	14	18	6	3	1	0	3	0	2	0	1	0	3	0	3	0	0	0	3	0	0	7	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:109546411T>C	uc003hyz.2	+	5	439	c.395_splice	c.e5+2		RPL34_uc003hza.2_Splice_Site	NM_000995	NP_000986	P49207	RL34_HUMAN	ribosomal protein L34						endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000286)		AAAGACGCTGTATGTATGACT	0.308													7	11					0	0	1	0	0		C	109546411	C	C	109546411	5	2	151	1	0	0	0	0	0	0	1	0	13608	1652	57	3		3	RPL34	4	109546411	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	605642	109546411	81607865	1183	78348											
AGXT2L1	64850	broad.mit.edu	37	chr4	109675819	109675819	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcttttcctttctgaaacTtatatgggctaatctcaatt	10	18	4	9	0	3	1	1	1	3	0	5	1	4	1	1	1	1	1	1	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:109675819T>G	uc003hzc.2	-	5	639	c.458A>C	c.(457-459)AAG>ACG	p.K153T	AGXT2L1_uc010imc.2_Missense_Mutation_p.K147T|AGXT2L1_uc011cfm.1_Missense_Mutation_p.K113T|AGXT2L1_uc011cfn.1_Missense_Mutation_p.K80T|AGXT2L1_uc011cfo.1_Missense_Mutation_p.K95T	NM_031279	NP_112569	Q8TBG4	AT2L1_HUMAN	alanine-glyoxylate aminotransferase 2-like 1	153					cellular amino acid metabolic process	mitochondrion	alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000281)		TTTCTGAAACTTATATGGGCT	0.249													31	133					0	0	1	0	0		G	109675819	G	G	109675819	3	3	151	1	0	0	0	0	1	0	0	0	406	1609	56	5	1077	5	AGXT2L1	4	109675819	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	129408	109675819	81478457	1184	78349											
GAR1	54433	broad.mit.edu	37	chr4	110739135	110739135	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgaagatgacatagtttgTaaatgtaccacagatgaaaa	17	11	9	4	0	0	5	0	3	0	2	0	5	0	5	1	0	1	3	1	0	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:110739135T>C	uc003hzt.2	+	3	565	c.258T>C	c.(256-258)TGT>TGC	p.C86C	GAR1_uc003hzu.2_Silent_p.C86C|GAR1_uc010imh.1_Silent_p.C86C|GAR1_uc010imi.2_Silent_p.C86C	NM_018983	NP_061856	Q9NY12	GAR1_HUMAN	nucleolar protein family A, member 1	86					rRNA processing|snRNA pseudouridine synthesis	box H/ACA snoRNP complex|Cajal body	cation channel activity|pseudouridine synthase activity|snoRNA binding				0						ACATAGTTTGTAAATGTACCA	0.338													24	136					0	0	1	0	0		C	110739135	C	C	110739135	2	2	151	1	0	0	0	0	0	0	0	1	6255	1644	57	3		3	GAR1	4	110739135	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1063316	110739135	80415141	1185	78350											
EGF	1950	broad.mit.edu	37	chr4	110909752	110909752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacagatatagatgaatGtgagatgggtgtcccagtgt	11	10	13	7	0	0	4	0	2	0	3	1	5	1	4	2	1	0	0	2	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:110909752G>A	uc003hzy.3	+	18	3073	c.2621G>A	c.(2620-2622)TGT>TAT	p.C874Y	EGF_uc011cfu.1_Missense_Mutation_p.C832Y|EGF_uc011cfv.1_Missense_Mutation_p.C874Y|EGF_uc010imk.2_Intron	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	874	EGF-like 7; calcium-binding (Potential).|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	ATAGATGAATGTGAGATGGGT	0.453													47	197					0	0	1	0	0		A	110909752	A	A	110909752	3	1	151	1	0	0	0	0	1	0	0	0	4968	1377	48	4	2691	4	EGF	4	110909752	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	170617	110909752	80244524	1186	78351											
ENPEP	2028	broad.mit.edu	37	chr4	111398135	111398135	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatggcctgtatctcctgAccatggagttcgccggctgg	6	10	14	11	2	1	2	0	1	1	1	3	4	1	3	4	4	0	3	4	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:111398135A>G	uc003iab.3	+	1	907	c.565A>G	c.(565-567)ACC>GCC	p.T189A		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	189	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	GTATCTCCTGACCATGGAGTT	0.517													19	89					0	0	1	0	0		G	111398135	G	G	111398135	3	3	151	1	0	0	0	0	1	0	0	0	5136	275	10	3	567	3	ENPEP	4	111398135	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	488383	111398135	79756141	1187	78352											
ENPEP	2028	broad.mit.edu	37	chr4	111409702	111409702	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtttgtttctaaggagcaTagtggccaccgatcatgaac	10	13	10	8	1	2	1	1	1	1	0	2	3	2	2	2	2	2	3	2	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:111409702T>C	uc003iab.3	+	2	992	c.650T>C	c.(649-651)ATA>ACA	p.I217T		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	217	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	CTAAGGAGCATAGTGGCCACC	0.383													10	39					0	0	1	0	0		C	111409702	C	C	111409702	3	2	151	1	0	0	0	0	1	0	0	0	5136	1406	49	3	656	3	ENPEP	4	111409702	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	11567	111409702	79744574	1188	78353											
ALPK1	80216	broad.mit.edu	37	chr4	113352170	113352170	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgcaaaaacaggagtctgCatcactgctctaaaaacaga	17	7	8	9	0	3	1	1	0	2	1	3	3	3	2	0	1	5	3	0	1	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:113352170C>T	uc003iap.3	+	11	1746	c.1467C>T	c.(1465-1467)TGC>TGT	p.C489C	ALPK1_uc003ian.3_Silent_p.C489C|ALPK1_uc011cfx.1_Silent_p.C411C|ALPK1_uc003iao.3_Intron|ALPK1_uc010imo.2_Silent_p.C317C	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	489							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		CAGGAGTCTGCATCACTGCTC	0.368													23	94					0	0	1	0	0		T	113352170	T	T	113352170	2	4	151	1	0	0	0	0	0	0	0	1	544	718	25	2		2	ALPK1	4	113352170	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1942468	113352170	77802106	1189	78354											
C4orf21	55345	broad.mit.edu	37	chr4	113540080	113540080	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatacgtttcaacgaacTgtataattttttgtaatgaa	14	15	6	6	2	1	1	1	1	0	0	1	2	1	1	0	0	4	4	0	0	7	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:113540080T>C	uc003iau.2	-	6	1329	c.1118A>G	c.(1117-1119)CAG>CGG	p.Q373R	C4orf21_uc003iaw.2_Missense_Mutation_p.Q373R	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		TTCAACGAACTGTATAATTTT	0.348													25	183					0	0	1	0	0		C	113540080	C	C	113540080	3	2	151	1	0	0	0	0	1	0	0	0	2257	1580	55	3	5288	3	C4orf21	4	113540080	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	187910	113540080	77614196	1190	78355											
LARP7	51574	broad.mit.edu	37	chr4	113568024	113568024	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaatgttgtttatataagTataccacattataagtctac	14	15	6	6	0	1	0	0	0	1	0	1	0	1	0	1	1	2	4	1	1	9	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:113568024T>C	uc003iay.2	+	5	743	c.465T>C	c.(463-465)AGT>AGC	p.S155S	LARP7_uc003iaz.2_Silent_p.S162S|LARP7_uc003iba.2_Silent_p.S76S|LARP7_uc003ibb.2_Silent_p.S155S	NM_016648	NP_057732	Q4G0J3	LARP7_HUMAN	La ribonucleoprotein domain family, member 7	155	RRM.				RNA processing	nucleoplasm|ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(3)	3		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		TTTATATAAGTATACCACATT	0.333													47	177					0	0	1	0	0		C	113568024	C	C	113568024	2	2	151	1	0	0	0	0	0	0	0	1	8649	1635	57	3		3	LARP7	4	113568024	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	27944	113568024	77586252	1191	78356											
PRSS12	8492	broad.mit.edu	37	chr4	119203203	119203203	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggtcaccccatacaccAcccagctctctccgggccgt	8	6	9	18	2	2	0	1	0	1	0	4	1	3	1	6	3	2	1	6	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:119203203A>G	uc003ica.1	-	13	2563	c.2516T>C	c.(2515-2517)GTG>GCG	p.V839A		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	839	Peptidase S1.			VVY -> AAL (in Ref. 3; AAD25919).		membrane	scavenger receptor activity			skin(1)	1						CCCATACACCACCCAGCTCTC	0.537													25	78					0	0	1	0	0		G	119203203	G	G	119203203	3	3	151	1	0	0	0	0	1	0	0	0	12637	159	6	3	115	3	PRSS12	4	119203203	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5635179	119203203	71951073	1192	78357											
PRSS12	8492	broad.mit.edu	37	chr4	119216958	119216958	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatttttcccaccaatgaTccgcttctgccgacggtgca	9	11	8	13	3	1	2	0	1	1	1	3	3	3	2	4	1	2	2	4	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:119216958T>A	uc003ica.1	-	10	1938	c.1891A>T	c.(1891-1893)ATC>TTC	p.I631F		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	631	Peptidase S1.	Reactive bond homolog (Potential).				membrane	scavenger receptor activity			skin(1)	1						CCACCAATGATCCGCTTCTGC	0.368													24	94					0	0	1	0	0		A	119216958	A	A	119216958	3	1	151	1	0	0	0	0	1	0	0	0	12637	1435	50	5	752	5	PRSS12	4	119216958	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	13755	119216958	71937318	1193	78358											
PRDM5	11107	broad.mit.edu	37	chr4	121732558	121732558	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaggcttgatgctgaagaAcactttttattgcacactga	11	14	9	7	0	0	4	0	3	0	1	0	4	0	4	0	1	3	4	0	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:121732558A>G	uc003idn.2	-	8	1162	c.912T>C	c.(910-912)TGT>TGC	p.C304C	PRDM5_uc003ido.2_Silent_p.C273C|PRDM5_uc010ine.2_Silent_p.C273C	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	304	C2H2-type 5.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						ATGCTGAAGAACACTTTTTAT	0.264													22	71					0	0	1	0	0		G	121732558	G	G	121732558	2	3	151	1	0	0	0	0	0	0	0	1	12482	41	2	3		3	PRDM5	4	121732558	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2515600	121732558	69421718	1194	78359											
PRDM5	11107	broad.mit.edu	37	chr4	121737729	121737729	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctcctggtgctgctcaaaActacaagacaaccagcaaag	14	7	8	12	0	2	1	1	0	1	1	3	1	2	1	2	1	6	3	2	1	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:121737729A>G	uc003idn.2	-	7	994	c.744T>C	c.(742-744)AGT>AGC	p.S248S	PRDM5_uc003ido.2_Silent_p.H217H|PRDM5_uc010ine.2_Silent_p.H217H|PRDM5_uc010inf.2_Silent_p.H217H	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	248	C2H2-type 3; atypical.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						GCTGCTCAAAACTACAAGACA	0.478													13	46					0	0	1	0	0		G	121737729	G	G	121737729	2	3	151	1	0	0	0	0	0	0	0	1	12482	57	2	3		3	PRDM5	4	121737729	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5171	121737729	69416547	1195	78360											
KIAA1109	84162	broad.mit.edu	37	chr4	123109234	123109234	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagatatgttggtcttcAaaatgatgagtaagaaaatc	16	12	8	5	0	2	4	1	2	1	2	4	4	3	4	1	1	0	2	1	1	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:123109234A>G	uc003ieh.2	+	7	857	c.812A>G	c.(811-813)CAA>CGA	p.Q271R	KIAA1109_uc003iei.1_Missense_Mutation_p.Q25R	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	271					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GTTGGTCTTCAAAATGATGAG	0.313													4	83					0	0	1	0	0		G	123109234	G	G	123109234	3	3	151	1	0	0	0	0	1	0	0	0	8224	130	5	3	838	3	KIAA1109	4	123109234	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1371505	123109234	68045042	1196	78361											
KIAA1109	84162	broad.mit.edu	37	chr4	123128293	123128293	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagactggtctagtgacagTcctccagacattttttcatt	10	14	7	10	0	2	3	1	1	1	2	4	3	4	3	2	1	0	0	2	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:123128293T>C	uc003ieh.2	+	14	1572	c.1527T>C	c.(1525-1527)AGT>AGC	p.S509S	KIAA1109_uc003iei.1_Silent_p.S263S|KIAA1109_uc010ins.1_5'UTR|KIAA1109_uc003iej.1_5'Flank	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	509					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CTAGTGACAGTCCTCCAGACA	0.318													74	253					0	0	1	0	0		C	123128293	C	C	123128293	2	2	151	1	0	0	0	0	0	0	0	1	8224	1664	58	3		3	KIAA1109	4	123128293	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	19059	123128293	68025983	1197	78362											
KIAA1109	84162	broad.mit.edu	37	chr4	123141513	123141513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactactgatggtcctgaatGccctacagctttcttggaaa	11	12	8	10	0	1	2	0	2	1	0	2	3	2	3	2	2	5	1	2	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:123141513G>A	uc003ieh.2	+	20	2546	c.2501G>A	c.(2500-2502)TGC>TAC	p.C834Y	KIAA1109_uc003iei.1_Missense_Mutation_p.C588Y|KIAA1109_uc010ins.1_Missense_Mutation_p.C178Y|KIAA1109_uc003iej.1_Missense_Mutation_p.C219Y	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	834					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GGTCCTGAATGCCCTACAGCT	0.373													20	90					0	0	1	0	0		A	123141513	A	A	123141513	3	1	151	1	0	0	0	0	1	0	0	0	8224	1319	46	2	2579	2	KIAA1109	4	123141513	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	13220	123141513	68012763	1198	78363											
KIAA1109	84162	broad.mit.edu	37	chr4	123156180	123156180	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcccaaaattatagatggTaataaaatgtttcgtcactt	15	15	5	6	1	1	1	1	0	0	1	3	1	2	1	1	1	0	2	1	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:123156180T>C	uc003ieh.2	+	25	3619	c.3574_splice	c.e25+2	p.G1192_splice	KIAA1109_uc003iei.1_Splice_Site_p.G945_splice|KIAA1109_uc010ins.1_Splice_Site_p.G535_splice	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein						regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TTATAGATGGTAATAAAATGT	0.333													27	120					0	0	1	0	0		C	123156180	C	C	123156180	5	2	151	1	0	0	0	0	0	0	1	0	8224	1652	57	3	3674	3	KIAA1109	4	123156180	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	14667	123156180	67998096	1199	78364											
KIAA1109	84162	broad.mit.edu	37	chr4	123161495	123161495	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcatttgaacagctttctgTtccaacttttaaggtataaa	12	16	6	7	0	2	1	1	1	1	0	3	1	3	1	1	1	3	3	1	1	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:123161495T>C	uc003ieh.2	+	27	4703	c.4658T>C	c.(4657-4659)GTT>GCT	p.V1553A	KIAA1109_uc003iei.1_Missense_Mutation_p.V1306A|KIAA1109_uc010ins.1_Missense_Mutation_p.V896A|KIAA1109_uc003iek.2_Missense_Mutation_p.V172A	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1553					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CAGCTTTCTGTTCCAACTTTT	0.333													15	102					0	0	1	0	0		C	123161495	C	C	123161495	3	2	151	1	0	0	0	0	1	0	0	0	8224	1725	60	3	4764	3	KIAA1109	4	123161495	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5315	123161495	67992781	1200	78365											
KIAA1109	84162	broad.mit.edu	37	chr4	123170828	123170828	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgtggacttgaaaatttaAccataaaaggcaagcatttt	17	12	7	5	0	0	1	0	1	0	0	0	2	0	2	1	2	2	2	1	2	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:123170828A>G	uc003ieh.2	+	34	5746	c.5701A>G	c.(5701-5703)ACC>GCC	p.T1901A	KIAA1109_uc003iek.2_Missense_Mutation_p.T520A	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1901					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TGAAAATTTAACCATAAAAGG	0.373													15	82					0	0	1	0	0		G	123170828	G	G	123170828	3	3	151	1	0	0	0	0	1	0	0	0	8224	43	2	3	5835	3	KIAA1109	4	123170828	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	9333	123170828	67983448	1201	78366											
KIAA1109	84162	broad.mit.edu	37	chr4	123175388	123175388	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgatttgaaaaaagatctAcctctgatgcctcctcctcc	11	12	6	12	0	2	4	0	3	2	1	5	5	5	4	5	0	2	0	5	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:123175388A>T	uc003ieh.2	+	36	6006	c.5961A>T	c.(5959-5961)CTA>CTT	p.L1987L	KIAA1109_uc003iel.1_5'Flank|KIAA1109_uc003iek.2_Silent_p.L606L	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1987					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAAAAGATCTACCTCTGATGC	0.378													33	86					0	0	1	0	0		T	123175388	T	T	123175388	2	4	151	1	0	0	0	0	0	0	0	1	8224	378	14	5		5	KIAA1109	4	123175388	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4560	123175388	67978888	1202	78367											
KIAA1109	84162	broad.mit.edu	37	chr4	123255605	123255605	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctgtatggtatgaaagAtagtgcaacatctcctcctt	12	12	8	9	0	1	2	0	1	1	1	3	2	2	2	2	1	3	4	2	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:123255605A>G	uc003ieh.2	+	67	11798	c.11753A>G	c.(11752-11754)GAT>GGT	p.D3918G	KIAA1109_uc003iem.2_Intron	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3918					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GGTATGAAAGATAGTGCAACA	0.478													32	120					0	0	1	0	0		G	123255605	G	G	123255605	3	3	151	1	0	0	0	0	1	0	0	0	8224	333	12	3	12019	3	KIAA1109	4	123255605	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	80217	123255605	67898671	1203	78368											
ADAD1	132612	broad.mit.edu	37	chr4	123342484	123342484	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaatgttaagtcggtttaAcctgcttgccaaagaagcta	12	12	9	8	1	0	1	0	0	0	1	1	1	0	1	2	1	5	5	2	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:123342484A>G	uc003ieo.2	+	12	1788	c.1556A>G	c.(1555-1557)AAC>AGC	p.N519S	ADAD1_uc003iep.2_Missense_Mutation_p.N508S|ADAD1_uc003ieq.2_Missense_Mutation_p.N501S	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	519	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						AGTCGGTTTAACCTGCTTGCC	0.338													22	101					0	0	1	0	0		G	123342484	G	G	123342484	3	3	151	1	0	0	0	0	1	0	0	0	231	43	2	3	1594	3	ADAD1	4	123342484	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	86879	123342484	67811792	1204	78369											
SPATA5	166378	broad.mit.edu	37	chr4	123949496	123949496	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgggtgctctaaaacAatgatagcaaaggctttggc	12	9	10	10	0	1	1	0	1	1	0	1	1	1	1	2	3	3	3	2	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:123949496A>G	uc003iez.3	+	11	2098	c.2025A>G	c.(2023-2025)ACA>ACG	p.T675T	SPATA5_uc003iey.2_Silent_p.T674T	NM_145207	NP_660208	Q8NB90	SPAT5_HUMAN	spermatogenesis associated 5	675	ATP 2 (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	mitochondrion	ATP binding|nucleoside-triphosphatase activity				0						GCTCTAAAACAATGATAGCAA	0.443													36	152					0	0	1	0	0		G	123949496	G	G	123949496	2	3	151	1	0	0	0	0	0	0	0	1	15036	117	5	3		3	SPATA5	4	123949496	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	607012	123949496	67204780	1205	78370											
ANKRD50	57182	broad.mit.edu	37	chr4	125591594	125591594	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatataaagtgtaggccgAccatcagcatctttgcagtt	13	11	9	8	1	2	1	1	0	1	1	2	2	2	1	2	1	2	4	2	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:125591594A>G	uc003ifg.3	-	3	3104	c.2838T>C	c.(2836-2838)GGT>GGC	p.G946G	ANKRD50_uc011cgo.1_Silent_p.G767G|ANKRD50_uc010inw.2_Silent_p.G946G	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	946	ANK 15.									central_nervous_system(1)	1						GTGTAGGCCGACCATCAGCAT	0.423													36	130					0	0	1	0	0		G	125591594	G	G	125591594	2	3	151	1	0	0	0	0	0	0	0	1	677	262	10	3		3	ANKRD50	4	125591594	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1642098	125591594	65562682	1206	78371											
FAT4	79633	broad.mit.edu	37	chr4	126240723	126240723	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattcccagatggtcaattgTatataaaaagtgaactggac	15	12	8	6	0	1	2	1	1	0	1	2	3	2	3	1	2	1	1	1	2	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:126240723T>C	uc003ifj.3	+	1	3157	c.3157T>C	c.(3157-3159)TAT>CAT	p.Y1053H		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1053	Cadherin 10.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGGTCAATTGTATATAAAAAG	0.408													61	207					0	0	1	0	0		C	126240723	C	C	126240723	3	2	151	1	0	0	0	0	1	0	0	0	5706	1638	57	3	3159	3	FAT4	4	126240723	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	649129	126240723	64913553	1207	78372											
FAT4	79633	broad.mit.edu	37	chr4	126328057	126328057	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaaatgctctcgtcacatAcactatcattagtggagctg	11	12	8	10	1	3	0	2	0	1	0	4	1	3	1	0	1	4	3	0	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:126328057A>G	uc003ifj.3	+	3	5330	c.5330A>G	c.(5329-5331)TAC>TGC	p.Y1777C	FAT4_uc011cgp.1_Missense_Mutation_p.Y75C	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1777	Cadherin 17.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTCGTCACATACACTATCATT	0.428													42	158					0	0	1	0	0		G	126328057	G	G	126328057	3	3	151	1	0	0	0	0	1	0	0	0	5706	391	14	3	5340	3	FAT4	4	126328057	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	87334	126328057	64826219	1208	78373											
FAT4	79633	broad.mit.edu	37	chr4	126336235	126336235	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcactgctcaagtctccatTattttgttggatgtaaatga	11	15	8	7	0	2	1	1	1	1	0	3	2	2	2	1	1	2	4	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:126336235T>C	uc003ifj.3	+	5	6117	c.6117T>C	c.(6115-6117)ATT>ATC	p.I2039I	FAT4_uc011cgp.1_Silent_p.I337I	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2039	Cadherin 19.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AAGTCTCCATTATTTTGTTGG	0.413													77	293					0	0	1	0	0		C	126336235	C	C	126336235	2	2	151	1	0	0	0	0	0	0	0	1	5706	1742	61	3		3	FAT4	4	126336235	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	8178	126336235	64818041	1209	78374											
FAT4	79633	broad.mit.edu	37	chr4	126389698	126389698	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacactgcgagttgaacagTtatggatttgaggagttatc	13	12	11	5	1	0	2	0	2	0	0	1	5	0	4	0	2	3	3	0	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:126389698T>C	uc003ifj.3	+	11	11931	c.11931T>C	c.(11929-11931)AGT>AGC	p.S3977S	FAT4_uc011cgp.1_Silent_p.S2240S|FAT4_uc003ifi.1_Silent_p.S1455S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3977	Laminin G-like 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AGTTGAACAGTTATGGATTTG	0.313													18	95					0	0	1	0	0		C	126389698	C	C	126389698	2	2	151	1	0	0	0	0	0	0	0	1	5706	1722	60	3		3	FAT4	4	126389698	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	53463	126389698	64764578	1210	78375											
FAT4	79633	broad.mit.edu	37	chr4	126398439	126398439	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagtttgcagtcaatggAaggcctctggaacccagcca	11	8	12	10	0	2	0	1	0	1	0	2	3	2	3	3	4	3	2	3	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:126398439A>G	uc003ifj.3	+	13	12423	c.12423A>G	c.(12421-12423)GGA>GGG	p.G4141G	FAT4_uc011cgp.1_Silent_p.G2404G|FAT4_uc003ifi.1_Silent_p.G1619G	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4141	Laminin G-like 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAGTCAATGGAAGGCCTCTGG	0.418													37	204					0	0	1	0	0		G	126398439	G	G	126398439	2	3	151	1	0	0	0	0	0	0	0	1	5706	233	9	3		3	FAT4	4	126398439	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	8741	126398439	64755837	1211	78376											
FAT4	79633	broad.mit.edu	37	chr4	126400953	126400953	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccaacatggtggcacatgTatggattactggtcatggca	10	11	12	8	0	1	0	1	0	0	0	1	1	1	1	1	5	3	3	1	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:126400953T>C	uc003ifj.3	+	14	12531	c.12531T>C	c.(12529-12531)TGT>TGC	p.C4177C	FAT4_uc011cgp.1_Intron|FAT4_uc003ifi.1_Silent_p.C1655C	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4177	EGF-like 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GTGGCACATGTATGGATTACT	0.443													11	53					0	0	1	0	0		C	126400953	C	C	126400953	2	2	151	1	0	0	0	0	0	0	0	1	5706	1644	57	3		3	FAT4	4	126400953	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2514	126400953	64753323	1212	78377											
FAT4	79633	broad.mit.edu	37	chr4	126411790	126411790	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcacaactcagaaaccAtccccagcgcccctttggca	10	8	5	18	1	2	1	2	0	0	1	4	1	4	1	6	1	3	1	6	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:126411790A>G	uc003ifj.3	+	17	13813	c.13813A>G	c.(13813-13815)ATC>GTC	p.I4605V	FAT4_uc011cgp.1_Missense_Mutation_p.I2846V|FAT4_uc003ifi.1_Missense_Mutation_p.I2082V	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4605	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTCAGAAACCATCCCCAGCGC	0.488													18	90					0	0	1	0	0		G	126411790	G	G	126411790	3	3	151	1	0	0	0	0	1	0	0	0	5706	217	8	3	13879	3	FAT4	4	126411790	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	10837	126411790	64742486	1213	78378											
INTU	27152	broad.mit.edu	37	chr4	128554306	128554306	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcgggtcagcgactcgggTtcatattcctcagcgagtag	8	10	13	10	4	3	0	3	0	0	0	6	3	4	0	1	2	2	2	1	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:128554306T>C	uc003ifk.1	+	1	187	c.117T>C	c.(115-117)GGT>GGC	p.G39G	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	39										ovary(1)	1						GCGACTCGGGTTCATATTCCT	0.498													20	90					0	0	1	0	0		C	128554306	C	C	128554306	2	2	151	1	0	0	0	0	0	0	0	1	7802	1712	60	3		3	INTU	4	128554306	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2142516	128554306	62599970	1214	78379											
INTU	27152	broad.mit.edu	37	chr4	128627893	128627893	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgcctattctcagtaggctAcaaggtacttccaaagtagc	11	11	8	11	1	1	0	1	0	1	0	4	0	2	0	2	2	3	4	2	2	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:128627893A>G	uc003ifk.1	+	12	2110	c.2040A>G	c.(2038-2040)CTA>CTG	p.L680L	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	680										ovary(1)	1						TCAGTAGGCTACAAGGTACTT	0.453													30	142					0	0	1	0	0		G	128627893	G	G	128627893	2	3	151	1	0	0	0	0	0	0	0	1	7802	378	14	3		3	INTU	4	128627893	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	73587	128627893	62526383	1215	78380											
INTU	27152	broad.mit.edu	37	chr4	128632194	128632194	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctatccaccctcagctaatAaagaatttccatcagtgttg	12	13	5	11	0	3	1	2	0	1	1	5	1	5	1	3	0	1	2	3	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:128632194A>G	uc003ifk.1	+	14	2566	c.2496A>G	c.(2494-2496)ATA>ATG	p.I832M	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	832										ovary(1)	1						CTCAGCTAATAAAGAATTTCC	0.428													42	117					0	0	1	0	0		G	128632194	G	G	128632194	3	3	151	1	0	0	0	0	1	0	0	0	7802	352	13	3	2550	3	INTU	4	128632194	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4301	128632194	62522082	1216	78381											
PLK4	10733	broad.mit.edu	37	chr4	128814700	128814700	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtttagcactggaatccatAatttcagaagaggaaaggaa	16	10	10	5	0	1	2	1	0	0	2	2	5	2	5	1	3	1	2	1	3	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:128814700A>G	uc003ifo.2	+	12	2600	c.2355A>G	c.(2353-2355)ATA>ATG	p.I785M	PLK4_uc011cgs.1_Missense_Mutation_p.I753M|PLK4_uc011cgt.1_Missense_Mutation_p.I744M	NM_014264	NP_055079	O00444	PLK4_HUMAN	polo-like kinase 4	785					G2/M transition of mitotic cell cycle|positive regulation of centriole replication|trophoblast giant cell differentiation	centriole|cleavage furrow|cytosol|nucleolus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						TGGAATCCATAATTTCAGAAG	0.328													28	96					0	0	1	0	0		G	128814700	G	G	128814700	3	3	151	1	0	0	0	0	1	0	0	0	12117	352	13	3	2401	3	PLK4	4	128814700	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	182506	128814700	62339576	1217	78382											
PHF17	79960	broad.mit.edu	37	chr4	129783206	129783206	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggctctgcggctgccTgaggaagtagtggatttcct	6	10	15	10	1	1	1	0	1	1	0	2	3	2	3	3	4	2	3	3	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:129783206T>C	uc003igk.2	+	9	1609	c.1329T>C	c.(1327-1329)CCT>CCC	p.P443P	PHF17_uc003igj.2_Silent_p.P443P|PHF17_uc003igl.2_Silent_p.P431P|PHF17_uc011cgy.1_Silent_p.P443P|PHF17_uc003igm.2_Silent_p.P443P	NM_199320	NP_955352	Q6IE81	JADE1_HUMAN	PHD finger protein 17 long isoform	443					apoptosis|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell growth|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	histone acetyltransferase complex|mitochondrion	protein binding|zinc ion binding				0						TGCGGCTGCCTGAGGAAGTAG	0.527													6	55					0	0	1	0	0		C	129783206	C	C	129783206	2	2	151	1	0	0	0	0	0	0	0	1	11847	1567	55	3		3	PHF17	4	129783206	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	968506	129783206	61371070	1218	78383											
SCLT1	132320	broad.mit.edu	37	chr4	129878253	129878253	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcattttctctatgtcttcTtctttttgcttctcctcaag	4	23	3	11	0	7	0	2	0	5	0	9	0	7	0	1	0	1	1	1	0	2	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:129878253T>C	uc003igp.2	-	13	1580	c.1074A>G	c.(1072-1074)GAA>GAG	p.E358E	SCLT1_uc003ign.2_Silent_p.E22E|SCLT1_uc003igo.2_5'UTR|SCLT1_uc003igq.2_Intron|SCLT1_uc010iob.1_Intron	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	358	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						CTATGTCTTCTTCTTTTTGCT	0.289													23	126					0	0	1	0	0		C	129878253	C	C	129878253	2	2	151	1	0	0	0	0	0	0	0	1	13931	1606	56	3		3	SCLT1	4	129878253	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	95047	129878253	61276023	1219	78384											
PCDH10	57575	broad.mit.edu	37	chr4	134073171	134073171	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatcgtgcgtggcaacgaaAtgaacctctttcgcatggac	10	9	11	11	4	1	1	0	1	1	0	3	3	1	2	1	2	3	3	1	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:134073171A>G	uc003iha.2	+	1	2702	c.1876A>G	c.(1876-1878)ATG>GTG	p.M626V	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.M626V	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	626	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TGGCAACGAAATGAACCTCTT	0.682													10	54					0	0	1	0	0		G	134073171	G	G	134073171	3	3	151	1	0	0	0	0	1	0	0	0	11526	101	4	3	1878	3	PCDH10	4	134073171	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4194918	134073171	57081105	1220	78385											
PCDH18	54510	broad.mit.edu	37	chr4	138451686	138451686	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccattagatgggtcaatGgttacatatgtagttatgga	11	14	11	5	0	1	1	1	0	0	1	2	2	2	2	1	3	1	4	1	3	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:138451686G>T	uc003ihe.3	-	1	1944	c.1557C>A	c.(1555-1557)ACC>ACA	p.T519T	PCDH18_uc003ihf.3_Silent_p.T512T|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Silent_p.T299T|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	519	Extracellular (Potential).|Cadherin 5.				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					ATGGGTCAATGGTTACATATG	0.423													62	229					1.80625e-27	1.89266e-27	1	1	0		T	138451686	T	T	138451686	2	4	151	1	0	0	0	0	0	0	0	1	11532	1335	47	5		5	PCDH18	4	138451686	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4378515	138451686	52702590	1221	78386											
MAML3	55534	broad.mit.edu	37	chr4	140810714	140810714	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatatacggcatcaaggggtTtttgttggggttggccactg	7	13	15	6	1	1	0	1	0	0	0	1	1	1	0	1	6	1	4	1	6	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:140810714T>C	uc003ihz.1	-	3	2616	c.1864A>G	c.(1864-1866)AAC>GAC	p.N622D	MAML3_uc011chd.1_Intron	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	622	Gln-rich.				Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					ATCAAGGGGTTTTTGTTGGGG	0.388													41	152					0	0	1	0	0		C	140810714	C	C	140810714	3	2	151	1	0	0	0	0	1	0	0	0	9225	1841	64	3	1556	3	MAML3	4	140810714	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2359028	140810714	50343562	1222	78387											
CLGN	1047	broad.mit.edu	37	chr4	141311858	141311858	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcaatttcttcttcactcTtttcctcaggttcactttcc	5	21	2	13	0	7	0	4	0	3	0	9	0	9	0	2	1	0	1	2	1	1	8	rs113979220		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:141311858T>C	uc011chi.1	-	15	1894	c.1676A>G	c.(1675-1677)AAG>AGG	p.K559R	CLGN_uc003iii.2_Missense_Mutation_p.K559R	NM_001130675	NP_001124147	O14967	CLGN_HUMAN	calmegin precursor	559	Cytoplasmic (Potential).				protein folding	endoplasmic reticulum membrane|integral to membrane	calcium ion binding|unfolded protein binding			ovary(2)|skin(1)	3	all_hematologic(180;0.162)					TTCTTCACTCTTTTCCTCAGG	0.313													32	137					0	0	1	0	0		C	141311858	C	C	141311858	3	2	151	1	0	0	0	0	1	0	0	0	3527	1609	56	3	164	3	CLGN	4	141311858	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	501144	141311858	49842418	1223	78388											
OTUD4	54726	broad.mit.edu	37	chr4	146059468	146059468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aatcagcatgcagaagctgcCcaggggtctcagattcaaga	13	7	11	10	0	3	3	3	0	1	3	4	3	3	3	1	2	4	3	1	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:146059468C>T	uc003ika.3	-	21	2402	c.2264G>A	c.(2263-2265)GGG>GAG	p.G755E	OTUD4_uc003ijz.3_Missense_Mutation_p.G754E	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	819							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					CAGAAGCTGCCCAGGGGTCTC	0.478													30	101					0	0	1	0	0		T	146059468	T	T	146059468	3	4	151	1	0	0	0	0	1	0	0	0	11333	623	22	4	889	4	OTUD4	4	146059468	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4747610	146059468	45094808	1224	78389											
MMAA	166785	broad.mit.edu	37	chr4	146560420	146560420	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatcccatgtgctcagccGtttaattctcttggactcca	8	13	8	12	1	2	0	1	0	1	0	5	2	4	2	3	2	2	2	3	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:146560420G>A	uc003ikh.3	+	2	214	c.129G>A	c.(127-129)CCG>CCA	p.P43P	MMAA_uc003ikg.2_Silent_p.P43P|MMAA_uc003iki.1_RNA|MMAA_uc010iow.2_RNA	NM_172250	NP_758454	Q8IVH4	MMAA_HUMAN	methylmalonic aciduria type A precursor	43						mitochondrion	GTP binding|nucleoside-triphosphatase activity			ovary(1)	1	all_hematologic(180;0.151)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GTGCTCAGCCGTTTAATTCTC	0.418													55	183					0	0	1	0	0		A	146560420	A	A	146560420	2	1	151	1	0	0	0	0	0	0	0	1	9657	1132	40	1		1	MMAA	4	146560420	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	500952	146560420	44593856	1225	78390											
POU4F2	5458	broad.mit.edu	37	chr4	147561397	147561397	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggctcacgcgccgcacatgGccaccatgaaccccatgcac	9	4	9	19	4	1	1	1	1	0	0	1	1	1	1	5	2	2	3	5	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:147561397G>T	uc003ikv.2	+	2	915	c.667G>T	c.(667-669)GCC>TCC	p.A223S		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	223					estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					GCCGCACATGGCCACCATGAA	0.731													4	11					0.00024832	0.000250813	1	1	0		T	147561397	T	T	147561397	3	4	151	1	0	0	0	0	1	0	0	0	12298	1203	42	5	673	5	POU4F2	4	147561397	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1000977	147561397	43592879	1226	78391											
ARHGAP10	79658	broad.mit.edu	37	chr4	148993227	148993227	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagaactacgtcaagctgCtgtagctcctggcctcagag	10	8	10	13	1	2	2	2	0	0	2	3	2	3	2	2	1	5	4	2	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:148993227C>T	uc003ilf.2	+	23	2356	c.2356C>T	c.(2356-2358)CTG>TTG	p.L786L	ARHGAP10_uc003ilg.2_Silent_p.L384L|ARHGAP10_uc003ilh.2_Silent_p.L367L|ARHGAP10_uc003ili.2_Silent_p.L219L	NM_024605	NP_078881	A1A4S6	RHG10_HUMAN	Rho GTPase activating protein 10	786	SH3.				apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			skin(2)|pancreas(1)|lung(1)	4	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)		CGTCAAGCTGCTGTAGCTCCT	0.602													11	46					0	0	1	0	0		T	148993227	T	T	148993227	2	4	151	1	0	0	0	0	0	0	0	1	862	796	28	2		2	ARHGAP10	4	148993227	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1431830	148993227	42161049	1227	78392											
NR3C2	4306	broad.mit.edu	37	chr4	149002532	149002532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagcggcttggcgttccccGactccaccttgggcagctgg	5	8	14	14	3	0	1	0	0	0	1	2	2	2	1	4	4	2	4	4	4	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:149002532G>A	uc003ilj.3	-	9	3252	c.2918C>T	c.(2917-2919)TCG>TTG	p.S973L	NR3C2_uc003ilk.3_Missense_Mutation_p.S856L|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	973	Steroid-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	GGCGTTCCCCGACTCCACCTT	0.567													12	31					0	0	1	0	0		A	149002532	A	A	149002532	3	1	151	1	0	0	0	0	1	0	0	0	10650	1059	37	1	40	1	NR3C2	4	149002532	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	9305	149002532	42151744	1228	78393											
NR3C2	4306	broad.mit.edu	37	chr4	149357029	149357029	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacagatagatcccacagtActggctgccggactggaaag	12	7	11	11	1	0	2	0	0	0	2	1	4	1	4	2	3	3	2	2	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:149357029A>G	uc003ilj.3	-	2	1318	c.984T>C	c.(982-984)AGT>AGC	p.S328S	NR3C2_uc003ilk.3_Silent_p.S328S|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	328	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	ATCCCACAGTACTGGCTGCCG	0.507													22	81					0	0	1	0	0		G	149357029	G	G	149357029	2	3	151	1	0	0	0	0	0	0	0	1	10650	388	14	3		3	NR3C2	4	149357029	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	354497	149357029	41797247	1229	78394											
LRBA	987	broad.mit.edu	37	chr4	151236759	151236759	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctggtatggctggtcttgTacagcaccttgatgagctgg	7	12	14	8	0	1	2	0	2	1	0	1	2	1	2	1	4	4	6	1	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:151236759T>C	uc010ipj.2	-	52	8154	c.7680A>G	c.(7678-7680)GTA>GTG	p.V2560V	LRBA_uc010ipi.2_Silent_p.V82V|LRBA_uc003ils.3_Silent_p.V455V|LRBA_uc003ilt.3_Silent_p.V1208V|LRBA_uc003ilu.3_Silent_p.V2549V	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2560						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					GCTGGTCTTGTACAGCACCTT	0.388													16	82					0	0	1	0	0		C	151236759	C	C	151236759	2	2	151	1	0	0	0	0	0	0	0	1	8949	1625	57	3		3	LRBA	4	151236759	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1879730	151236759	39917517	1230	78395											
LRBA	987	broad.mit.edu	37	chr4	151356858	151356858	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaaataagttgtaaagggTtcctaaaaaatagcaattaa	20	10	8	3	0	0	0	0	0	0	0	1	1	1	1	1	2	1	4	1	2	10	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:151356858T>C	uc010ipj.2	-	47	7431	c.6957A>G	c.(6955-6957)GAA>GAG	p.E2319E	LRBA_uc010ipi.2_Intron|LRBA_uc003ils.3_Silent_p.E209E|LRBA_uc003ilt.3_Silent_p.E967E|LRBA_uc003ilu.3_Silent_p.E2308E	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2319	BEACH.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TTGTAAAGGGTTCCTAAAAAA	0.328													22	94					0	0	1	0	0		C	151356858	C	C	151356858	2	2	151	1	0	0	0	0	0	0	0	1	8949	1722	60	3		3	LRBA	4	151356858	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	120099	151356858	39797418	1231	78396											
MAB21L2	10586	broad.mit.edu	37	chr4	151504269	151504269	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaggcggccatcgccaaaAccatccgagaggtctgtaag	12	5	12	12	3	1	1	0	0	1	1	3	2	2	1	4	3	1	2	4	3	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:151504269A>G	uc003ilw.2	+	1	1193	c.88A>G	c.(88-90)ACC>GCC	p.T30A	LRBA_uc003ils.3_5'Flank|LRBA_uc003ilt.3_Intron|LRBA_uc003ilu.3_Intron|LRBA_uc010ipj.2_Intron	NM_006439	NP_006430	Q9Y586	MB212_HUMAN	mab-21-like protein 2	30					nervous system development	nucleus				ovary(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.159)		CATCGCCAAAACCATCCGAGA	0.587													6	36					0	0	1	0	0		G	151504269	G	G	151504269	3	3	151	1	0	0	0	0	1	0	0	0	9160	43	2	3	90	3	MAB21L2	4	151504269	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	147411	151504269	39650007	1232	78397											
LRBA	987	broad.mit.edu	37	chr4	151604819	151604819	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctcttatcaaatgatcAcacatcttctcatcttctcg	9	15	4	13	1	7	1	3	1	5	0	9	1	7	1	0	0	1	2	0	0	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:151604819A>G	uc010ipj.2	-	37	6279	c.5805T>C	c.(5803-5805)TGT>TGC	p.C1935C	LRBA_uc003ilt.3_Silent_p.C594C|LRBA_uc003ilu.3_Silent_p.C1935C	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1935						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TCAAATGATCACACATCTTCT	0.373													25	101					0	0	1	0	0		G	151604819	G	G	151604819	2	3	151	1	0	0	0	0	0	0	0	1	8949	157	6	3		3	LRBA	4	151604819	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	100550	151604819	39549457	1233	78398											
PRSS48	345062	broad.mit.edu	37	chr4	152212379	152212379	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcctggagtctacaccaAtgtaatctactaccaaaaat	14	12	4	11	0	3	0	0	0	3	0	4	1	4	1	3	1	3	1	3	1	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:152212379A>C	uc011cif.1	+	5	761	c.761A>C	c.(760-762)AAT>ACT	p.N254T	PRSS48_uc011cig.1_Missense_Mutation_p.N111T	NM_183375	NP_899231	Q7RTY5	PRS48_HUMAN	epidermis-specific serine protease-like protein	254	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity	p.G254R(1)		large_intestine(1)	1						GTCTACACCAATGTAATCTAC	0.438													7	212					0	0	1	0	0		C	152212379	C	C	152212379	3	2	151	1	0	0	0	0	1	0	0	0	12652	101	4	5	779	5	PRSS48	4	152212379	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	607560	152212379	38941897	1234	78399											
FBXW7	55294	broad.mit.edu	37	chr4	153247360	153247360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatcccaaaccctaagagtgGcatctcgagaaccgctaaca	14	7	7	13	2	1	2	0	0	1	2	3	3	2	2	3	1	3	2	3	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:153247360G>A	uc003ims.2	-	10	1591	c.1442C>T	c.(1441-1443)GCC>GTC	p.A481V	FBXW7_uc011cii.1_Missense_Mutation_p.A481V|FBXW7_uc003imt.2_Missense_Mutation_p.A481V|FBXW7_uc011cih.1_Missense_Mutation_p.A305V|FBXW7_uc003imq.2_Missense_Mutation_p.A401V|FBXW7_uc003imr.2_Missense_Mutation_p.A363V	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	481	WD 3.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				CCTAAGAGTGGCATCTCGAGA	0.403			Mis|N|D|F		colorectal|endometrial|T-ALL								17	86					0	0	1	0	0		A	153247360	A	A	153247360	3	1	151	1	0	0	0	0	1	0	0	0	5783	1203	42	2	693	2	FBXW7	4	153247360	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1034981	153247360	37906916	1235	78400											
RNF175	285533	broad.mit.edu	37	chr4	154636790	154636790	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgtccgataagctccttgTaggcaaccggctgacactgt	9	11	10	11	2	0	1	0	1	0	0	2	2	2	1	3	2	2	4	3	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:154636790T>C	uc003int.2	-	7	1028	c.655A>G	c.(655-657)ACA>GCA	p.T219A	RNF175_uc003inu.1_Missense_Mutation_p.T91A	NM_173662	NP_775933	Q8N4F7	RN175_HUMAN	ring finger protein 175	219						integral to membrane	zinc ion binding			ovary(1)|pancreas(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				AAGCTCCTTGTAGGCAACCGG	0.493													4	35					0	0	1	0	0		C	154636790	C	C	154636790	3	2	151	1	0	0	0	0	1	0	0	0	13488	1638	57	3	343	3	RNF175	4	154636790	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1389430	154636790	36517486	1236	78401											
PLRG1	5356	broad.mit.edu	37	chr4	155468901	155468901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttatgaacatatgaatccGttgcattctgaggacccttc	10	14	8	9	1	1	3	0	3	1	0	3	4	2	4	2	1	2	3	2	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:155468901G>A	uc003iny.2	-	3	284	c.221C>T	c.(220-222)ACG>ATG	p.T74M	PLRG1_uc003inz.2_Missense_Mutation_p.T74M|PLRG1_uc011cil.1_Translation_Start_Site	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	74						catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				ATATGAATCCGTTGCATTCTG	0.343													19	95					0	0	1	0	0		A	155468901	A	A	155468901	3	1	151	1	0	0	0	0	1	0	0	0	12125	1145	40	1	1375	1	PLRG1	4	155468901	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	832111	155468901	35685375	1237	78402											
NPY2R	4887	broad.mit.edu	37	chr4	156135287	156135287	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatcatcttgcttggggtaAttggcaactccttggtgatc	7	14	10	10	0	2	1	1	1	1	0	4	1	3	1	2	4	2	3	2	4	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:156135287A>T	uc003ioq.2	+	2	691	c.196A>T	c.(196-198)ATT>TTT	p.I66F	NPY2R_uc003ior.2_Missense_Mutation_p.I66F	NM_000910	NP_000901	P49146	NPY2R_HUMAN	neuropeptide Y receptor Y2	66	Helical; Name=1; (Potential).				cardiac left ventricle morphogenesis|inhibition of adenylate cyclase activity by G-protein signaling pathway|locomotory behavior|outflow tract morphogenesis	integral to plasma membrane	calcium channel regulator activity			lung(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0854)				GCTTGGGGTAATTGGCAACTC	0.463													24	94					0	0	1	0	0		T	156135287	T	T	156135287	3	4	151	1	0	0	0	0	1	0	0	0	10628	101	4	5	198	5	NPY2R	4	156135287	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	666386	156135287	35018989	1238	78403											
GUCY1B3	2983	broad.mit.edu	37	chr4	156721148	156721148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagagaggaatacaaactcaCccaagaactggaaatcctca	18	6	7	10	0	2	2	2	0	0	2	3	5	3	4	2	2	3	0	2	2	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:156721148C>T	uc003ipc.2	+	9	1264	c.1097C>T	c.(1096-1098)ACC>ATC	p.T366I	GUCY1B3_uc011cio.1_Missense_Mutation_p.T388I|GUCY1B3_uc011cip.1_Missense_Mutation_p.T346I|GUCY1B3_uc003ipd.2_Missense_Mutation_p.T294I|GUCY1B3_uc010iqf.2_Missense_Mutation_p.T366I|GUCY1B3_uc010iqg.2_Missense_Mutation_p.T294I|GUCY1B3_uc011ciq.1_Missense_Mutation_p.T294I	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	366					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		TACAAACTCACCCAAGAACTG	0.458													20	59					0	0	1	0	0		T	156721148	T	T	156721148	3	4	151	1	0	0	0	0	1	0	0	0	6911	507	18	4	1131	4	GUCY1B3	4	156721148	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	585861	156721148	34433128	1239	78404											
PDGFC	56034	broad.mit.edu	37	chr4	157693895	157693895	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagttgccaagttggcctatAtagatcttctaagtccaact	12	13	7	9	0	2	1	0	0	2	1	3	1	3	1	3	1	2	2	3	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:157693895A>G	uc003iph.1	-	4	1137	c.646T>C	c.(646-648)TAT>CAT	p.Y216H	PDGFC_uc003ipi.1_Missense_Mutation_p.Y53H|PDGFC_uc011cis.1_Missense_Mutation_p.Y53H|PDGFC_uc011cir.1_Missense_Mutation_p.Y60H	NM_016205	NP_057289	Q9NRA1	PDGFC_HUMAN	platelet-derived growth factor C precursor	216					central nervous system development|platelet-derived growth factor receptor signaling pathway|positive regulation of cell division|positive regulation of DNA replication|positive regulation of fibroblast proliferation|vascular endothelial growth factor receptor signaling pathway	endoplasmic reticulum lumen|extracellular space|Golgi membrane|nucleus	cell surface binding|growth factor activity|platelet-derived growth factor receptor binding|protein homodimerization activity			ovary(1)|lung(1)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.08)|Kidney(143;0.0977)|COAD - Colon adenocarcinoma(41;0.212)		GTTGGCCTATATAGATCTTCT	0.388													16	91					0	0	1	0	0		G	157693895	G	G	157693895	3	3	151	1	0	0	0	0	1	0	0	0	11678	449	16	3	403	3	PDGFC	4	157693895	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	972747	157693895	33460381	1240	78405											
RXFP1	59350	broad.mit.edu	37	chr4	159559213	159559213	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaaaccaatttgattatcTtgtcaaactcaagtctctgt	13	14	5	9	0	4	1	2	1	2	0	5	1	4	1	1	0	3	1	1	0	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:159559213T>C	uc003ipz.2	+	13	1107	c.1025T>C	c.(1024-1026)CTT>CCT	p.L342P	RXFP1_uc010iqj.1_Missense_Mutation_p.L171P|RXFP1_uc011cja.1_Missense_Mutation_p.L237P|RXFP1_uc010iqo.2_Intron|RXFP1_uc011cjb.1_Intron|RXFP1_uc010iqk.2_Missense_Mutation_p.L210P|RXFP1_uc011cjc.1_Missense_Mutation_p.L261P|RXFP1_uc011cjd.1_Missense_Mutation_p.L261P|RXFP1_uc010iql.2_Missense_Mutation_p.L186P|RXFP1_uc011cje.1_Missense_Mutation_p.L369P|RXFP1_uc010iqm.2_Missense_Mutation_p.L309P|RXFP1_uc011cjf.1_Missense_Mutation_p.L212P|RXFP1_uc010iqn.2_Missense_Mutation_p.L288P	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	342	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		TTTGATTATCTTGTCAAACTC	0.259													32	80					0	0	1	0	0		C	159559213	C	C	159559213	3	2	151	1	0	0	0	0	1	0	0	0	13784	1609	56	3	1075	3	RXFP1	4	159559213	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1865318	159559213	31595063	1241	78406											
RXFP1	59350	broad.mit.edu	37	chr4	159569818	159569818	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactgatgcattatgctggAtacccatttttgtagtgaaa	11	16	8	6	0	0	2	0	2	0	0	0	3	0	3	1	1	4	3	1	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:159569818A>T	uc003ipz.2	+	17	2006	c.1924A>T	c.(1924-1926)ATA>TTA	p.I642L	RXFP1_uc011cja.1_Missense_Mutation_p.I537L|RXFP1_uc010iqo.2_Missense_Mutation_p.I594L|RXFP1_uc011cjb.1_Missense_Mutation_p.I540L|RXFP1_uc010iqk.2_Missense_Mutation_p.I510L|RXFP1_uc011cjc.1_Missense_Mutation_p.I561L|RXFP1_uc011cjd.1_Missense_Mutation_p.I561L|RXFP1_uc010iql.2_Missense_Mutation_p.I486L|RXFP1_uc011cje.1_Missense_Mutation_p.I669L|RXFP1_uc010iqm.2_Missense_Mutation_p.I609L|RXFP1_uc011cjf.1_Missense_Mutation_p.I511L|RXFP1_uc010iqn.2_Missense_Mutation_p.I587L	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	642	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		ATTATGCTGGATACCCATTTT	0.303													22	71					0	0	1	0	0		T	159569818	T	T	159569818	3	4	151	1	0	0	0	0	1	0	0	0	13784	333	12	5	1990	5	RXFP1	4	159569818	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	10605	159569818	31584458	1242	78407											
FNIP2	57600	broad.mit.edu	37	chr4	159780291	159780291	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggaagaaaattgccataAgcatcatcttttccctatgt	13	12	8	8	0	2	1	1	0	1	1	3	3	3	3	2	2	2	1	2	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:159780291A>G	uc003iqe.3	+	9	1123	c.940A>G	c.(940-942)AGC>GGC	p.S314G		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	314					DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		AATTGCCATAAGCATCATCTT	0.408													24	69					0	0	1	0	0		G	159780291	G	G	159780291	3	3	151	1	0	0	0	0	1	0	0	0	5990	72	3	3	974	3	FNIP2	4	159780291	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	210473	159780291	31373985	1243	78408											
FSTL5	56884	broad.mit.edu	37	chr4	162376252	162376252	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtggatcgtgtggtgaGgcacattcccactggccagg	6	9	17	9	1	0	1	0	1	0	0	2	2	1	2	2	6	0	1	2	6	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:162376252G>T	uc003iqh.2	-	15	2181	c.1745C>A	c.(1744-1746)CCT>CAT	p.P582H	FSTL5_uc003iqi.2_Missense_Mutation_p.P581H|FSTL5_uc010iqv.2_Missense_Mutation_p.P572H	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	582						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CGTGTGGTGAGGCACATTCCC	0.418													5	64					0.00198382	0.00199816	1	1	0		T	162376252	T	T	162376252	3	4	151	1	0	0	0	0	1	0	0	0	6094	1000	35	5	806	5	FSTL5	4	162376252	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2595961	162376252	28778024	1244	78409											
FSTL5	56884	broad.mit.edu	37	chr4	162459394	162459394	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttcattctttgcgatacaAgtgtatgctccagtatcttc	8	16	7	10	1	3	0	1	0	2	0	5	1	4	0	1	0	3	4	1	0	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:162459394A>G	uc003iqh.2	-	10	1672	c.1236T>C	c.(1234-1236)ACT>ACC	p.T412T	FSTL5_uc003iqi.2_Silent_p.T411T|FSTL5_uc010iqv.2_Silent_p.T411T	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	412	Ig-like 2.					extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TTGCGATACAAGTGTATGCTC	0.413													70	301					0	0	1	0	0		G	162459394	G	G	162459394	2	3	151	1	0	0	0	0	0	0	0	1	6094	59	3	3		3	FSTL5	4	162459394	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	83142	162459394	28694882	1245	78410											
FSTL5	56884	broad.mit.edu	37	chr4	162463689	162463689	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaagtaaaaagcaccttgaAgcgtgagttgtttggaaagc	14	9	12	6	1	0	2	0	2	0	0	0	3	0	3	1	1	3	5	1	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:162463689A>G	uc003iqh.2	-	9	1608	c.1172T>C	c.(1171-1173)CTT>CCT	p.L391P	FSTL5_uc003iqi.2_Missense_Mutation_p.L390P|FSTL5_uc010iqv.2_Missense_Mutation_p.L390P	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	391	Ig-like 2.					extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		AGCACCTTGAAGCGTGAGTTG	0.358													28	132					0	0	1	0	0		G	162463689	G	G	162463689	3	3	151	1	0	0	0	0	1	0	0	0	6094	72	3	3	1403	3	FSTL5	4	162463689	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4295	162463689	28690587	1246	78411											
FSTL5	56884	broad.mit.edu	37	chr4	162697185	162697185	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attttgtaaatctaatagcaTatttttcatcttgctgtatt	11	21	4	5	0	3	0	1	0	2	0	3	0	3	0	0	0	2	4	0	0	6	11			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:162697185T>C	uc003iqh.2	-	5	887	c.451A>G	c.(451-453)ATG>GTG	p.M151V	FSTL5_uc003iqi.2_Missense_Mutation_p.M150V|FSTL5_uc010iqv.2_Missense_Mutation_p.M150V	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	151						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TCTAATAGCATATTTTTCATC	0.284													11	49					0	0	1	0	0		C	162697185	C	C	162697185	3	2	151	1	0	0	0	0	1	0	0	0	6094	1406	49	3	2140	3	FSTL5	4	162697185	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	233496	162697185	28457091	1247	78412											
TKTL2	84076	broad.mit.edu	37	chr4	164393014	164393014	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataagcctagtttacttcaTtaaagtaagtgttacggctg	13	14	8	6	1	1	0	1	0	0	0	1	0	1	0	1	1	3	4	1	1	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:164393014T>G	uc003iqp.3	-	1	2034	c.1873A>C	c.(1873-1875)ATG>CTG	p.M625L		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	625						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				GTTTACTTCATTAAAGTAAGT	0.383													7	43					0	0	1	0	0		G	164393014	G	G	164393014	3	3	151	1	0	0	0	0	1	0	0	0	15961	1493	52	5	11	5	TKTL2	4	164393014	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1695829	164393014	26761262	1248	78413											
TKTL2	84076	broad.mit.edu	37	chr4	164394169	164394169	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcttggcaactatagcagTaggcttgttcttcacttgac	8	14	10	9	0	3	1	1	1	2	0	3	1	3	1	0	3	2	5	0	3	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:164394169T>C	uc003iqp.3	-	1	879	c.718A>G	c.(718-720)ACT>GCT	p.T240A		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	240						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				ACTATAGCAGTAGGCTTGTTC	0.458													58	229					0	0	1	0	0		C	164394169	C	C	164394169	3	2	151	1	0	0	0	0	1	0	0	0	15961	1638	57	3	1166	3	TKTL2	4	164394169	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1155	164394169	26760107	1249	78414											
KLHL2	11275	broad.mit.edu	37	chr4	166160048	166160048	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggttacagaagaaaatgtAcaggtaagagtaaacacttc	18	8	9	6	0	0	3	0	0	0	3	1	3	0	3	0	2	3	4	0	2	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:166160048A>G	uc003irb.2	+	4	637	c.378A>G	c.(376-378)GTA>GTG	p.V126V	KLHL2_uc011cjm.1_Silent_p.V130V|KLHL2_uc003irc.2_Silent_p.V38V	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	126					intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		AAGAAAATGTACAGGTAAGAG	0.348													15	134					0	0	1	0	0		G	166160048	G	G	166160048	2	3	151	1	0	0	0	0	0	0	0	1	8390	378	14	3		3	KLHL2	4	166160048	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1765879	166160048	24994228	1250	78415											
SC4MOL	6307	broad.mit.edu	37	chr4	166254547	166254547	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaaatgaaagtgtcagcAtctttagttcagcatccttg	13	12	7	9	0	3	1	2	1	1	0	4	1	4	1	1	0	3	3	1	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:166254547A>G	uc003ire.2	+	2	155	c.25A>G	c.(25-27)ATC>GTC	p.I9V	SC4MOL_uc010irb.2_Missense_Mutation_p.I9V|SC4MOL_uc003irf.2_Intron	NM_006745	NP_006736	Q15800	ERG25_HUMAN	sterol-C4-methyl oxidase-like isoform 1	9					cholesterol biosynthetic process|fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	C-4 methylsterol oxidase activity|iron ion binding				0	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0875)	NADH(DB00157)	AAGTGTCAGCATCTTTAGTTC	0.333													28	127					0	0	1	0	0		G	166254547	G	G	166254547	3	3	151	1	0	0	0	0	1	0	0	0	13890	217	8	3	27	3	SC4MOL	4	166254547	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	94499	166254547	24899729	1251	78416											
DDX60	55601	broad.mit.edu	37	chr4	169146804	169146804	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaaagcatcactaaaatcCtcagggagatcatcaaggaa	17	8	7	9	0	5	1	4	0	1	1	6	3	6	2	1	2	1	1	1	2	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:169146804C>A	uc003irp.2	-	34	4849	c.4557G>T	c.(4555-4557)GAG>GAT	p.E1519D	DDX60_uc003iro.2_Translation_Start_Site	NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	1519							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		CACTAAAATCCTCAGGGAGAT	0.353													24	80					2.27525e-19	2.37357e-19	1	1	0		A	169146804	A	A	169146804	3	1	151	1	0	0	0	0	1	0	0	0	4381	680	24	5	601	5	DDX60	4	169146804	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2892257	169146804	22007472	1252	78417											
DDX60L	91351	broad.mit.edu	37	chr4	169325220	169325220	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatatcttttgaactagacAatgaatccggactaaggttc	13	12	7	9	1	1	3	0	2	1	1	3	4	2	4	2	2	1	1	2	2	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:169325220A>G	uc003irq.3	-	25	3472	c.3251T>C	c.(3250-3252)TTG>TCG	p.L1084S	DDX60L_uc003irr.1_Missense_Mutation_p.L1084S|DDX60L_uc003irs.1_Missense_Mutation_p.L779S	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	1084							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		TGAACTAGACAATGAATCCGG	0.289													3	8					0	0	1	0	0		G	169325220	G	G	169325220	3	3	151	1	0	0	0	0	1	0	0	0	4382	131	5	3	1925	3	DDX60L	4	169325220	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	178416	169325220	21829056	1253	78418											
PALLD	23022	broad.mit.edu	37	chr4	169845505	169845505	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgtcgtgtattgggagTgccaccacctcagatatttt	9	13	11	8	1	1	1	1	0	0	1	2	3	1	3	3	2	1	1	3	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:169845505T>C	uc011cjx.1	+	19	3369	c.3158T>C	c.(3157-3159)GTG>GCG	p.V1053A	CBR4_uc011cjy.1_Intron|PALLD_uc003iru.2_Missense_Mutation_p.V1036A|PALLD_uc003irv.2_Missense_Mutation_p.V654A|PALLD_uc003irw.2_Missense_Mutation_p.V538A|PALLD_uc003irx.2_Missense_Mutation_p.V262A	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2	1260	Ig-like C2-type 5.|Interaction with EZR.				cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)		GTATTGGGAGTGCCACCACCT	0.468									Pancreatic_Cancer_Familial_Clustering_of				14	79					0	0	1	0	0		C	169845505	C	C	169845505	3	2	151	1	0	0	0	0	1	0	0	0	11426	1696	59	3	3735	3	PALLD	4	169845505	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	520285	169845505	21308771	1254	78419											
NEK1	4750	broad.mit.edu	37	chr4	170498105	170498105	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtttttgcagtggtttctTttcgtgtaattttttatctc	5	24	7	5	1	2	0	0	0	2	0	4	0	2	0	0	1	1	4	0	1	2	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:170498105T>C	uc003isb.1	-	11	1486	c.994A>G	c.(994-996)AAG>GAG	p.K332E	NEK1_uc003isc.1_Missense_Mutation_p.K332E|NEK1_uc003isd.1_Missense_Mutation_p.K332E|NEK1_uc003ise.1_Missense_Mutation_p.K332E|NEK1_uc003isf.1_Missense_Mutation_p.K332E|NEK1_uc003isg.1_Missense_Mutation_p.K253E	NM_012224	NP_036356	Q96PY6	NEK1_HUMAN	NIMA-related kinase 1	332					cell division|cilium assembly|mitosis	nucleus|pericentriolar material	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(3)|ovary(2)|large_intestine(1)	6		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)|KIRC - Kidney renal clear cell carcinoma(143;0.0325)|Kidney(143;0.0385)|LUSC - Lung squamous cell carcinoma(193;0.14)		AGTGGTTTCTTTTCGTGTAAT	0.323													10	29					0	0	1	0	0		C	170498105	C	C	170498105	3	2	151	1	0	0	0	0	1	0	0	0	10340	1850	64	3	2878	3	NEK1	4	170498105	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	652600	170498105	20656171	1255	78420											
CLCN3	1182	broad.mit.edu	37	chr4	170618838	170618838	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctatatggcagttatgcctgGcactcatatttaaaatcata	13	14	6	8	0	2	0	2	0	0	0	2	0	2	0	1	2	1	3	1	2	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:170618838G>A	uc003isi.2	+	9	2025	c.1516G>A	c.(1516-1518)GCA>ACA	p.A506T	CLCN3_uc003ish.2_Missense_Mutation_p.A506T|CLCN3_uc011cjz.1_Missense_Mutation_p.A489T|CLCN3_uc011cka.1_Missense_Mutation_p.A479T|CLCN3_uc003isj.1_Missense_Mutation_p.A479T	NM_001829	NP_001820	P51790	CLCN3_HUMAN	chloride channel 3 isoform b	506	Helical; (By similarity).				endosomal lumen acidification	cell surface|early endosome membrane|Golgi membrane|integral to membrane|late endosome membrane|transport vesicle membrane	antiporter activity|ATP binding|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|voltage-gated chloride channel activity			breast(2)|ovary(1)	3		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0233)|LUSC - Lung squamous cell carcinoma(193;0.131)		GTTATGCCTGGCACTCATATT	0.373													31	225					0	0	1	0	0		A	170618838	A	A	170618838	3	1	151	1	0	0	0	0	1	0	0	0	3467	1203	42	2	1546	2	CLCN3	4	170618838	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	120733	170618838	20535438	1256	78421											
MFAP3L	9848	broad.mit.edu	37	chr4	170913013	170913013	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccatgatagtcctgcagTtcataatgagaggcggcaga	11	9	11	10	1	1	3	1	2	0	2	3	4	3	3	3	2	1	3	3	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:170913013T>C	uc003isp.3	-	3	924	c.746A>G	c.(745-747)AAC>AGC	p.N249S	MFAP3L_uc003isn.3_Missense_Mutation_p.N146S	NM_021647	NP_067679	O75121	MFA3L_HUMAN	microfibrillar-associated protein 3-like isoform	249	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0201)|LUSC - Lung squamous cell carcinoma(193;0.116)		AGTCCTGCAGTTCATAATGAG	0.557													24	103					0	0	1	0	0		C	170913013	C	C	170913013	3	2	151	1	0	0	0	0	1	0	0	0	9534	1725	60	3	487	3	MFAP3L	4	170913013	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	294175	170913013	20241263	1257	78422											
AADAT	51166	broad.mit.edu	37	chr4	170983111	170983111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggctaggagctgagctatCgacgtagaaagcatttccag	12	8	13	8	2	0	2	0	1	0	1	2	4	1	3	1	2	3	5	1	2	4	4	rs139598358		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:170983111C>T	uc003isr.2	-	12	1510	c.1168G>A	c.(1168-1170)GAT>AAT	p.D390N	AADAT_uc003iss.2_Missense_Mutation_p.D390N|AADAT_uc003ist.2_Missense_Mutation_p.D394N	NM_016228	NP_057312	Q8N5Z0	AADAT_HUMAN	kynurenine aminotransferase II	390					2-oxoglutarate metabolic process|biosynthetic process|glutamate metabolic process|lysine catabolic process	mitochondrial matrix	2-aminoadipate transaminase activity|kynurenine-oxoglutarate transaminase activity|protein homodimerization activity				0		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0355)|LUSC - Lung squamous cell carcinoma(193;0.118)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GCTGAGCTATCGACGTAGAAA	0.403													29	93					0	0	1	0	0		T	170983111	T	T	170983111	3	4	151	1	0	0	0	0	1	0	0	0	14	884	31	1	117	1	AADAT	4	170983111	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	70098	170983111	20171165	1258	78423											
GALNTL6	442117	broad.mit.edu	37	chr4	173232782	173232782	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggaaaggtgaacatgggAaaccttacccccttactgaa	14	8	10	9	0	0	2	0	2	0	0	0	4	0	4	3	3	4	0	3	3	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:173232782A>G	uc003isv.2	+	4	1001	c.265A>G	c.(265-267)AAA>GAA	p.K89E		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	89	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						TGAACATGGGAAACCTTACCC	0.388													41	175					0	0	1	0	0		G	173232782	G	G	173232782	3	3	151	1	0	0	0	0	1	0	0	0	6240	247	9	3	275	3	GALNTL6	4	173232782	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2249671	173232782	17921494	1259	78424											
GALNTL6	442117	broad.mit.edu	37	chr4	173873306	173873306	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcccagaaggagctgcgcaAgcagctcaagtgcaaggact	12	5	13	11	1	1	1	1	0	0	1	1	3	1	3	1	2	6	5	1	2	4	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:173873306A>C	uc003isv.2	+	10	2004	c.1268A>C	c.(1267-1269)AAG>ACG	p.K423T		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	423	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						GAGCTGCGCAAGCAGCTCAAG	0.597													6	37					0	0	1	0	0		C	173873306	C	C	173873306	3	2	151	1	0	0	0	0	1	0	0	0	6240	72	3	5	1302	5	GALNTL6	4	173873306	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	640524	173873306	17280970	1260	78425											
GALNT7	51809	broad.mit.edu	37	chr4	174219377	174219377	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaggagcatgggattggagTatgctctggaaacgggtgcc	9	8	17	7	2	1	0	0	0	1	0	1	5	1	4	1	5	4	3	1	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:174219377T>C	uc003isz.3	+	6	1160	c.1077T>C	c.(1075-1077)AGT>AGC	p.S359S	GALNT7_uc011ckb.1_Intron	NM_017423	NP_059119	Q86SF2	GALT7_HUMAN	polypeptide N-acetylgalactosaminyltransferase 7	359	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			central_nervous_system(1)	1		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;1.87e-18)|Epithelial(43;3.44e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-09)|STAD - Stomach adenocarcinoma(60;0.0019)|GBM - Glioblastoma multiforme(59;0.0119)|LUSC - Lung squamous cell carcinoma(193;0.0199)		GGGATTGGAGTATGCTCTGGA	0.448													15	57					0	0	1	0	0		C	174219377	C	C	174219377	2	2	151	1	0	0	0	0	0	0	0	1	6233	1635	57	3		3	GALNT7	4	174219377	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	346071	174219377	16934899	1261	78426											
MORF4	10934	broad.mit.edu	37	chr4	174537650	174537650	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaggatctacctgggcccTtttctttcgaggaggctggg	6	12	14	9	1	2	0	0	0	2	0	3	3	2	2	2	5	1	2	2	5	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:174537650T>G	uc011cke.1	-	1	145	c.145A>C	c.(145-147)AGG>CGG	p.R49R		NM_006792	NP_006783			mortality factor 4												0		Prostate(90;0.00201)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0765)|all_hematologic(60;0.107)		all cancers(43;1.88e-18)|Epithelial(43;1.19e-16)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		ACCTGGGCCCTTTTCTTTCGA	0.403													7	206					0	0	1	0	0		G	174537650	G	G	174537650	2	3	151	1	0	0	0	0	0	0	0	1	9723	1608	56	5		5	MORF4	4	174537650	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	318273	174537650	16616626	1262	78427											
ADAM29	11086	broad.mit.edu	37	chr4	175897057	175897057	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggggttttcaaggaatattAcagataaatgactttgctta	13	14	10	4	0	1	2	1	1	0	1	1	3	1	3	0	3	2	2	0	3	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:175897057A>G	uc003iuc.2	+	5	1051	c.381A>G	c.(379-381)TTA>TTG	p.L127L	ADAM29_uc003iud.2_Silent_p.L127L|ADAM29_uc010irr.2_Silent_p.L127L|ADAM29_uc011cki.1_Silent_p.L127L	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	127					proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		AAGGAATATTACAGATAAATG	0.403													4	154					0	0	1	0	0		G	175897057	G	G	175897057	2	3	151	1	0	0	0	0	0	0	0	1	247	388	14	3		3	ADAM29	4	175897057	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1359407	175897057	15257219	1263	78428											
ADAM29	11086	broad.mit.edu	37	chr4	175897485	175897485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaatctgtgcacctgtattGcaagtggaagtcggagaaca	13	9	12	7	1	1	1	0	0	1	1	2	4	1	2	1	2	3	3	1	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:175897485G>A	uc003iuc.2	+	5	1479	c.809G>A	c.(808-810)TGC>TAC	p.C270Y	ADAM29_uc003iud.2_Missense_Mutation_p.C270Y|ADAM29_uc010irr.2_Missense_Mutation_p.C270Y|ADAM29_uc011cki.1_Missense_Mutation_p.C270Y	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	270	Peptidase M12B.|Extracellular (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		CACCTGTATTGCAAGTGGAAG	0.413													73	244					0	0	1	0	0		A	175897485	A	A	175897485	3	1	151	1	0	0	0	0	1	0	0	0	247	1319	46	2	811	2	ADAM29	4	175897485	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	428	175897485	15256791	1264	78429											
ODZ3	55714	broad.mit.edu	37	chr4	183603166	183603166	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actggcccagactgctcaaaCggtgaggttaataaatgcag	13	8	11	9	1	1	2	1	1	0	1	1	2	1	2	1	3	3	3	1	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:183603166C>T	uc003ivd.1	+	10	2071	c.2034C>T	c.(2032-2034)AAC>AAT	p.N678N	ODZ3_uc003ive.1_Silent_p.N84N	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	678	Extracellular (Potential).|EGF-like 6.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		ACTGCTCAAACGGTGAGGTTA	0.433													23	61					0	0	1	0	0		T	183603166	T	T	183603166	2	4	151	1	0	0	0	0	0	0	0	1	10855	550	19	1		1	ODZ3	4	183603166	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	7705681	183603166	7551110	1265	78430											
ODZ3	55714	broad.mit.edu	37	chr4	183664498	183664498	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgtgggatcgatggcagTctgtacgtaggcgatttcaa	8	12	14	7	3	2	0	1	0	1	0	3	3	2	1	0	3	1	4	0	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:183664498T>A	uc003ivd.1	+	18	3592	c.3555T>A	c.(3553-3555)AGT>AGA	p.S1185R	ODZ3_uc003ive.1_Missense_Mutation_p.S591R	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1185	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TCGATGGCAGTCTGTACGTAG	0.493													23	75					0	0	1	0	0		A	183664498	A	A	183664498	3	1	151	1	0	0	0	0	1	0	0	0	10855	1664	58	5	3625	5	ODZ3	4	183664498	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	61332	183664498	7489778	1266	78431											
ODZ3	55714	broad.mit.edu	37	chr4	183675540	183675540	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttctttttttattaaggtAcgtctggaatggcccactga	9	17	8	7	1	2	1	0	1	2	0	2	2	2	2	1	3	1	1	1	3	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:183675540A>G	uc003ivd.1	+	21	4057	c.4020A>G	c.(4018-4020)GTA>GTG	p.V1340V	ODZ3_uc003ive.1_Silent_p.V753V	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1340	Extracellular (Potential).|NHL 3.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TTATTAAGGTACGTCTGGAAT	0.378													3	8					0	0	1	0	0		G	183675540	G	G	183675540	2	3	151	1	0	0	0	0	0	0	0	1	10855	378	14	3		3	ODZ3	4	183675540	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	11042	183675540	7478736	1267	78432											
ODZ3	55714	broad.mit.edu	37	chr4	183710405	183710405	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgatggccgtcaatgtcAcctattcatccacaggtcaa	11	10	8	12	1	4	1	4	1	0	0	5	1	5	1	3	2	1	1	3	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:183710405A>G	uc003ivd.1	+	24	5501	c.5464A>G	c.(5464-5466)ACC>GCC	p.T1822A		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1822	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CGTCAATGTCACCTATTCATC	0.542													6	16					0	0	1	0	0		G	183710405	G	G	183710405	3	3	151	1	0	0	0	0	1	0	0	0	10855	159	6	3	5558	3	ODZ3	4	183710405	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	34865	183710405	7443871	1268	78433											
ODZ3	55714	broad.mit.edu	37	chr4	183721189	183721189	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacgcgcaggttcgcggaCgtggagatgcagttcggcgc	7	6	18	10	7	0	1	0	0	0	1	2	4	0	3	0	5	1	4	0	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:183721189C>T	uc003ivd.1	+	27	7822	c.7785C>T	c.(7783-7785)GAC>GAT	p.D2595D		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2595	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GGTTCGCGGACGTGGAGATGC	0.697													4	0					0	0	1	0	0		T	183721189	T	T	183721189	2	4	151	1	0	0	0	0	0	0	0	1	10855	535	19	1		1	ODZ3	4	183721189	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	10784	183721189	7433087	1269	78434											
CCDC111	201973	broad.mit.edu	37	chr4	185593425	185593425	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggccatggatttccccatTtttcagaagcacctgcaaga	11	10	8	12	0	1	2	1	0	0	2	2	3	2	3	4	2	2	2	4	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:185593425T>C	uc003iwk.2	+	7	1088	c.655T>C	c.(655-657)TTT>CTT	p.F219L	CCDC111_uc010isd.1_RNA|CCDC111_uc003iwj.2_Missense_Mutation_p.F219L|CCDC111_uc003iwl.2_Missense_Mutation_p.F219L|CCDC111_uc003iwm.2_Missense_Mutation_p.F90L|CCDC111_uc003iwn.2_Missense_Mutation_p.F44L	NM_152683	NP_689896	Q96LW4	CC111_HUMAN	coiled-coil domain containing 111	219					DNA replication, synthesis of RNA primer		DNA primase activity			central_nervous_system(1)	1		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.00531)|Hepatocellular(41;0.00932)|Renal(120;0.0246)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|all_neural(102;0.131)		all cancers(43;5.84e-27)|Epithelial(43;2.2e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.28e-11)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.03e-05)|Colorectal(24;7.57e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000249)|COAD - Colon adenocarcinoma(29;0.000502)|LUSC - Lung squamous cell carcinoma(40;0.00995)|READ - Rectum adenocarcinoma(43;0.173)		ATTTCCCCATTTTTCAGAAGC	0.413													35	129					0	0	1	0	0		C	185593425	C	C	185593425	3	2	151	1	0	0	0	0	1	0	0	0	2751	1841	64	3	673	3	CCDC111	4	185593425	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1872236	185593425	5560851	1270	78435											
HELT	391723	broad.mit.edu	37	chr4	185940960	185940960	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgttcagtacctgagagcActgcactccgctgattttcc	8	11	8	14	2	1	2	1	2	0	1	3	3	3	2	4	0	3	5	4	0	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:185940960A>G	uc011ckq.1	+	3	447	c.447A>G	c.(445-447)GCA>GCG	p.A149A	HELT_uc011cko.1_Silent_p.A64A|HELT_uc003ixa.3_Silent_p.A64A|HELT_uc011ckp.1_Silent_p.A8A	NM_001029887	NP_001025058	A6NFD8	HELT_HUMAN	HES/HEY-like transcription factor	149	Helix-loop-helix motif.						DNA binding				0		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;8.92e-26)|Epithelial(43;3.02e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-11)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		ACCTGAGAGCACTGCACTCCG	0.642													9	20					0	0	1	0	0		G	185940960	G	G	185940960	2	3	151	1	0	0	0	0	0	0	0	1	7064	146	6	3		3	HELT	4	185940960	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	347535	185940960	5213316	1271	78436											
SNX25	83891	broad.mit.edu	37	chr4	186274723	186274723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggctgaaccatgtttcAtgttgattggggagattttt	7	17	11	6	0	1	3	1	2	0	1	1	4	1	3	2	3	1	3	2	3	1	6	rs149097763		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:186274723A>G	uc003ixh.2	+	15	2248	c.2059A>G	c.(2059-2061)ATG>GTG	p.M687V	SNX25_uc010ish.2_Missense_Mutation_p.M403V|SNX25_uc003ixi.2_Missense_Mutation_p.M191V	NM_031953	NP_114159	Q9H3E2	SNX25_HUMAN	sorting nexin 25	687					cell communication|protein transport	endosome membrane	phosphatidylinositol binding|signal transducer activity			ovary(2)|breast(2)|pancreas(1)	5		all_lung(41;1.03e-13)|Lung NSC(41;2.5e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00886)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;2.13e-24)|Epithelial(43;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.6e-11)|BRCA - Breast invasive adenocarcinoma(30;0.00013)|Colorectal(24;0.000165)|GBM - Glioblastoma multiforme(59;0.000357)|COAD - Colon adenocarcinoma(29;0.000887)|STAD - Stomach adenocarcinoma(60;0.00118)|LUSC - Lung squamous cell carcinoma(40;0.0129)|READ - Rectum adenocarcinoma(43;0.228)		ACCATGTTTCATGTTGATTGG	0.408													50	214					0	0	1	0	0		G	186274723	G	G	186274723	3	3	151	1	0	0	0	0	1	0	0	0	14921	217	8	3	2113	3	SNX25	4	186274723	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	333763	186274723	4879553	1272	78437											
PDLIM3	27295	broad.mit.edu	37	chr4	186435463	186435463	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaaaggtttgggccgaataTtatgcttgtgttcaaagtag	11	13	12	5	2	1	0	1	0	0	0	1	2	1	0	1	2	1	4	1	2	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:186435463T>C	uc003ixw.3	-	4	483	c.359A>G	c.(358-360)AAT>AGT	p.N120S	PDLIM3_uc003ixx.3_Intron|PDLIM3_uc010isi.2_Intron|PDLIM3_uc003ixy.2_Missense_Mutation_p.I183V|PDLIM3_uc003ixz.2_Missense_Mutation_p.I183V	NM_014476	NP_055291	Q53GG5	PDLI3_HUMAN	PDZ and LIM domain protein 3 isoform a	120						sarcomere	zinc ion binding			ovary(2)	2		all_lung(41;1.03e-13)|Lung NSC(41;2.49e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.00996)|Colorectal(36;0.0161)|all_hematologic(60;0.0592)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.4e-10)|BRCA - Breast invasive adenocarcinoma(30;8.64e-05)|GBM - Glioblastoma multiforme(59;0.000167)|STAD - Stomach adenocarcinoma(60;0.000828)|LUSC - Lung squamous cell carcinoma(40;0.00984)|COAD - Colon adenocarcinoma(29;0.0115)|READ - Rectum adenocarcinoma(43;0.171)		GGGCCGAATATTATGCTTGTG	0.458													25	162					0	0	1	0	0		C	186435463	C	C	186435463	3	2	151	1	0	0	0	0	1	0	0	0	11700	1493	52	3	755	3	PDLIM3	4	186435463	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	160740	186435463	4718813	1273	78438											
SORBS2	8470	broad.mit.edu	37	chr4	186533064	186533064	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacagggaagatgccttgtCtgttggttcctgggatttta	9	14	12	6	0	1	1	0	0	1	1	2	3	2	3	2	3	2	2	2	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:186533064C>A	uc003iyl.2	-	18	3812	c.2954G>T	c.(2953-2955)AGA>ATA	p.R985I	SORBS2_uc003iyh.2_Missense_Mutation_p.R709I|SORBS2_uc011ckw.1_Missense_Mutation_p.R546I|SORBS2_uc003iyi.2_Missense_Mutation_p.R616I|SORBS2_uc011ckx.1_Missense_Mutation_p.R551I|SORBS2_uc003iyk.2_Missense_Mutation_p.R529I|SORBS2_uc003iym.2_Missense_Mutation_p.R1085I|SORBS2_uc003iyn.1_Missense_Mutation_p.R576I|SORBS2_uc011cku.1_Missense_Mutation_p.R377I|SORBS2_uc011ckv.1_Missense_Mutation_p.R889I|SORBS2_uc003iyd.2_Missense_Mutation_p.R684I|SORBS2_uc003iye.2_Missense_Mutation_p.R558I|SORBS2_uc003iya.2_Missense_Mutation_p.R505I|SORBS2_uc003iyb.2_Missense_Mutation_p.R458I|SORBS2_uc003iyc.2_Missense_Mutation_p.R438I|SORBS2_uc003iyg.2_Missense_Mutation_p.R1099I|SORBS2_uc003iyf.2_Missense_Mutation_p.R521I|SORBS2_uc003iyo.1_Missense_Mutation_p.R434I	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	985	SH3 2.					actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		GATGCCTTGTCTGTTGGTTCC	0.413													15	102					2.61681e-11	2.70136e-11	1	1	0		A	186533064	A	A	186533064	3	1	151	1	0	0	0	0	1	0	0	0	14953	913	32	5	364	5	SORBS2	4	186533064	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	97601	186533064	4621212	1274	78439											
SORBS2	8470	broad.mit.edu	37	chr4	186544622	186544622	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagctgatgaggtggcggTggtggtggtggtggtgatgg	5	10	24	2	1	0	3	0	3	0	0	0	4	0	4	0	10	1	1	0	10	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:186544622T>C	uc003iyl.2	-	13	2807	c.1949A>G	c.(1948-1950)CAC>CGC	p.H650R	SORBS2_uc003iyh.2_Intron|SORBS2_uc011ckw.1_Intron|SORBS2_uc003iyi.2_Intron|SORBS2_uc011ckx.1_Intron|SORBS2_uc003iyk.2_Intron|SORBS2_uc003iym.2_Missense_Mutation_p.H750R|SORBS2_uc003iyn.1_Intron|SORBS2_uc011cku.1_Intron|SORBS2_uc011ckv.1_Missense_Mutation_p.H554R|SORBS2_uc003iyd.2_Intron|SORBS2_uc003iye.2_Intron|SORBS2_uc003iya.2_Intron|SORBS2_uc003iyb.2_Intron|SORBS2_uc003iyc.2_Intron|SORBS2_uc003iyg.2_Missense_Mutation_p.H764R|SORBS2_uc003iyf.2_Intron|SORBS2_uc003iyo.1_Intron	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	650	His-rich.					actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		GAggtggcggtggtggtggtg	0.383													29	68					0	0	1	0	0		C	186544622	C	C	186544622	3	2	151	1	0	0	0	0	1	0	0	0	14953	1696	59	3	1389	3	SORBS2	4	186544622	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	11558	186544622	4609654	1275	78440											
TLR3	7098	broad.mit.edu	37	chr4	187000110	187000110	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaataaaattcaagcgctAaaaagtgaagaactggatat	21	8	7	5	1	1	2	1	1	0	1	1	3	1	3	0	1	3	1	0	1	11	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:187000110A>G	uc003iyq.2	+	3	659	c.558A>G	c.(556-558)CTA>CTG	p.L186L	TLR3_uc011ckz.1_5'Flank	NM_003265	NP_003256	O15455	TLR3_HUMAN	toll-like receptor 3 precursor	186	Lumenal (Potential).|LRR 6.				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|defense response to bacterium|defense response to virus|detection of virus|hyperosmotic response|I-kappaB phosphorylation|inflammatory response|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of osteoclast differentiation|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|toll-like receptor 3 signaling pathway	endoplasmic reticulum membrane|endosome membrane|integral to plasma membrane	double-stranded RNA binding|transmembrane receptor activity			ovary(2)|prostate(1)|lung(1)|breast(1)	5		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		TTCAAGCGCTAAAAAGTGAAG	0.308													21	67					0	0	1	0	0		G	187000110	G	G	187000110	2	3	151	1	0	0	0	0	0	0	0	1	15977	349	13	3		3	TLR3	4	187000110	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	455488	187000110	4154166	1276	78441											
TLR3	7098	broad.mit.edu	37	chr4	187005313	187005313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacaccatctattaaaagacCcattatgcaaaaggtaggta	17	9	6	9	0	1	1	0	0	1	1	1	1	1	1	2	2	1	3	2	2	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:187005313C>T	uc003iyq.2	+	4	2574	c.2473C>T	c.(2473-2475)CCA>TCA	p.P825S	TLR3_uc011ckz.1_Missense_Mutation_p.P548S|TLR3_uc003iyr.2_Missense_Mutation_p.P548S	NM_003265	NP_003256	O15455	TLR3_HUMAN	toll-like receptor 3 precursor	825	Cytoplasmic (Potential).|TIR.				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|defense response to bacterium|defense response to virus|detection of virus|hyperosmotic response|I-kappaB phosphorylation|inflammatory response|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of osteoclast differentiation|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|toll-like receptor 3 signaling pathway	endoplasmic reticulum membrane|endosome membrane|integral to plasma membrane	double-stranded RNA binding|transmembrane receptor activity			ovary(2)|prostate(1)|lung(1)|breast(1)	5		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		ATTAAAAGACCCATTATGCAA	0.254													17	85					0	0	1	0	0		T	187005313	T	T	187005313	3	4	151	1	0	0	0	0	1	0	0	0	15977	623	22	4	2483	4	TLR3	4	187005313	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5203	187005313	4148963	1277	78442											
FAT1	2195	broad.mit.edu	37	chr4	187549306	187549306	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccactgaaggctccaaaagtAcctgactcgatcgagtacag	13	7	9	12	2	0	2	0	2	0	0	3	4	1	2	3	1	2	3	3	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr4:187549306A>G	uc003izf.2	-	9	4998	c.4810_splice	c.e9+1	p.G1604_splice		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor						actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTCCAAAAGTACCTGACTCGA	0.423										HNSCC(5;0.00058)			3	21					0	0	1	0	0		G	187549306	G	G	187549306	5	3	151	1	0	0	0	0	0	0	1	0	5703	405	14	3	9030	3	FAT1	4	187549306	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	543993	187549306	3604970	1278	78443											
SDHA	6389	broad.mit.edu	37	chr5	240561	240561	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgctgatggaagcataagAacatcggaactgcgactcag	13	9	11	8	2	1	2	1	1	0	1	2	5	1	4	0	2	5	2	0	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:240561A>G	uc003jao.3	+	11	1636	c.1521A>G	c.(1519-1521)AGA>AGG	p.R507R	SDHA_uc011clv.1_Silent_p.R507R|SDHA_uc011clw.1_Silent_p.R459R|SDHA_uc003jap.3_Silent_p.R507R|SDHA_uc003jaq.3_Silent_p.R282R|SDHA_uc003jar.3_Silent_p.R101R	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	507					nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	GAAGCATAAGAACATCGGAAC	0.453									Familial_Paragangliomas				8	77					0	0	1	0	0		G	240561	G	G	240561	2	3	151	1	0	0	0	0	0	0	0	1	13988	243	9	3		3	SDHA	5	240561	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08		240561	180674699	1279	78444											
CEP72	55722	broad.mit.edu	37	chr5	635582	635582	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagcagctgcagagggTgctgtctggagaagatgcct	9	7	18	7	0	1	3	0	0	1	3	1	6	1	5	1	4	5	4	1	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:635582T>C	uc003jbf.2	+	6	859	c.787T>C	c.(787-789)TGC>CGC	p.C263R	CEP72_uc011clz.1_RNA	NM_018140	NP_060610	Q9P209	CEP72_HUMAN	centrosomal protein 72 kDa	263					G2/M transition of mitotic cell cycle|gamma-tubulin complex localization|spindle organization	centrosome|cytosol				ovary(1)	1			Epithelial(17;0.000339)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|Lung(60;0.0863)			CTGCAGAGGGTGCTGTCTGGA	0.612													9	49					0	0	1	0	0		C	635582	C	C	635582	3	2	151	1	0	0	0	0	1	0	0	0	3263	1696	59	3	809	3	CEP72	5	635582	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	395021	635582	180279678	1280	78445											
TPPP	11076	broad.mit.edu	37	chr5	678016	678016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacggcaaagcgccggaaggCctcctccagggcactgagct	9	4	13	15	3	0	1	0	1	0	0	2	2	2	2	4	4	2	3	4	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:678016C>T	uc003jbg.3	-	1	878	c.160G>A	c.(160-162)GCC>ACC	p.A54T	TPPP_uc003jbh.3_Missense_Mutation_p.A54T	NM_007030	NP_008961	O94811	TPPP_HUMAN	tubulin polymerization promoting protein	54	Mediates interaction with LIMK1.				microtubule bundle formation|microtubule polymerization|positive regulation of protein polymerization	nucleus|perinuclear region of cytoplasm|soluble fraction	calcium ion binding|microtubule binding				0		Ovarian(839;0.0563)	Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)	GBM - Glioblastoma multiforme(108;0.0191)		CGCCGGAAGGCCTCCTCCAGG	0.677													4	23					0	0	1	0	0		T	678016	T	T	678016	3	4	151	1	0	0	0	0	1	0	0	0	16439	739	26	2	511	2	TPPP	5	678016	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	42434	678016	180237244	1281	78446											
TRIP13	9319	broad.mit.edu	37	chr5	908157	908157	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaggatttgattgatgatAaagacgccctggtgttcgtg	9	14	12	6	2	1	4	1	3	0	1	2	5	1	5	1	2	0	1	1	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:908157A>G	uc003jbr.2	+	8	837	c.727A>G	c.(727-729)AAA>GAA	p.K243E	TRIP13_uc010ite.1_Missense_Mutation_p.K243E	NM_004237	NP_004228	Q15645	PCH2_HUMAN	thyroid hormone receptor interactor 13	243					double-strand break repair|reciprocal meiotic recombination|synaptonemal complex assembly|transcription from RNA polymerase II promoter		ATP binding|identical protein binding|nucleoside-triphosphatase activity|transcription cofactor activity				0			Epithelial(17;0.00147)|OV - Ovarian serous cystadenocarcinoma(19;0.00271)|all cancers(22;0.00622)|Lung(60;0.165)			GATTGATGATAAAGACGCCCT	0.463													39	160					0	0	1	0	0		G	908157	G	G	908157	3	3	151	1	0	0	0	0	1	0	0	0	16583	363	13	3	757	3	TRIP13	5	908157	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	230141	908157	180007103	1282	78447											
TRIP13	9319	broad.mit.edu	37	chr5	916037	916037	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaagagcgagggcctcagCggccgggtcctgagaaaact	11	4	16	10	3	1	2	1	1	0	2	2	5	2	3	3	4	3	0	3	4	3	0	rs147247158		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:916037C>T	uc003jbr.2	+	12	1262	c.1152C>T	c.(1150-1152)AGC>AGT	p.S384S		NM_004237	NP_004228	Q15645	PCH2_HUMAN	thyroid hormone receptor interactor 13	384					double-strand break repair|reciprocal meiotic recombination|synaptonemal complex assembly|transcription from RNA polymerase II promoter		ATP binding|identical protein binding|nucleoside-triphosphatase activity|transcription cofactor activity				0			Epithelial(17;0.00147)|OV - Ovarian serous cystadenocarcinoma(19;0.00271)|all cancers(22;0.00622)|Lung(60;0.165)			AGGGCCTCAGCGGCCGGGTCC	0.537													51	212					0	0	1	0	0		T	916037	T	T	916037	2	4	151	1	0	0	0	0	0	0	0	1	16583	767	27	1		1	TRIP13	5	916037	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	7880	916037	179999223	1283	78448											
NKD2	85409	broad.mit.edu	37	chr5	1037966	1037966	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagccccagggcagggcctcGcacctccaggcccggtcccg	5	3	14	19	3	0	0	0	0	0	0	3	1	2	0	7	4	1	2	7	4	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:1037966G>A	uc003jbt.1	+	10	839	c.834G>A	c.(832-834)TCG>TCA	p.S278S	NKD2_uc010itf.1_3'UTR	NM_033120	NP_149111	Q969F2	NKD2_HUMAN	naked cuticle homolog 2	278					exocytosis|Wnt receptor signaling pathway	cytoplasmic membrane-bounded vesicle|plasma membrane	calcium ion binding|ubiquitin protein ligase binding				0	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;3.28e-09)		Epithelial(17;0.00093)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00417)|Lung(60;0.165)			GCAGGGCCTCGCACCTCCAGG	0.667													8	24					0	0	1	0	0		A	1037966	A	A	1037966	2	1	151	1	0	0	0	0	0	0	0	1	10461	1074	38	1		1	NKD2	5	1037966	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	121929	1037966	179877294	1284	78449											
SLC6A19	340024	broad.mit.edu	37	chr5	1221330	1221330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctggcaagtcacgtggCgcgtggtcagccccctgctc	4	10	12	15	3	4	0	2	0	2	0	5	0	4	0	2	3	2	2	2	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:1221330C>T	uc003jbw.3	+	11	1659	c.1603C>T	c.(1603-1605)CGC>TGC	p.R535C		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	535	Helical; Name=11; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			AGTCACGTGGCGCGTGGTCAG	0.557													11	39					0	0	1	0	0		T	1221330	T	T	1221330	3	4	151	1	0	0	0	0	1	0	0	0	14707	768	27	1	1645	1	SLC6A19	5	1221330	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	183364	1221330	179693930	1285	78450											
CLPTM1L	81037	broad.mit.edu	37	chr5	1331946	1331946	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgccgatcatgctcttcTtcttcttccagaaactgatg	9	14	6	12	1	5	2	1	1	4	1	6	3	6	2	2	0	3	1	2	0	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:1331946T>C	uc003jch.2	-	8	990	c.944A>G	c.(943-945)AAG>AGG	p.K315R	CLPTM1L_uc003jcg.2_Missense_Mutation_p.K182R	NM_030782	NP_110409	Q96KA5	CLP1L_HUMAN	CLPTM1-like	315	Cytoplasmic (Potential).				apoptosis	integral to membrane				breast(1)|central_nervous_system(1)	2	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		CATGCTCTTCTTCTTCTTCCA	0.527													19	82					0	0	1	0	0		C	1331946	C	C	1331946	3	2	151	1	0	0	0	0	1	0	0	0	3558	1609	56	3	712	3	CLPTM1L	5	1331946	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	110616	1331946	179583314	1286	78451											
IRX1	79192	broad.mit.edu	37	chr5	3600153	3600153	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcctagccacggactgtAcacctgccacatcggcaagt	9	7	9	16	2	0	0	0	0	0	0	1	1	0	1	5	2	4	2	5	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:3600153A>G	uc003jde.2	+	2	1143	c.1091A>G	c.(1090-1092)TAC>TGC	p.Y364C		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	364						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CACGGACTGTACACCTGCCAC	0.483													2	9					0	0	1	0	0		G	3600153	G	G	3600153	3	3	151	1	0	0	0	0	1	0	0	0	7859	391	14	3	1097	3	IRX1	5	3600153	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2268207	3600153	177315107	1287	78452											
ADAMTS16	170690	broad.mit.edu	37	chr5	5235263	5235263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcagacgattcagagggCggcactacaagtggaagcct	13	5	13	10	2	1	2	1	0	0	2	1	4	1	3	1	3	3	2	1	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:5235263C>T	uc003jdl.2	+	13	2125	c.1987C>T	c.(1987-1989)CGG>TGG	p.R663W	ADAMTS16_uc003jdk.1_Missense_Mutation_p.R663W|ADAMTS16_uc010itk.1_RNA	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	663	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						ATTCAGAGGGCGGCACTACAA	0.478													9	48					0	0	1	0	0		T	5235263	T	T	5235263	3	4	151	1	0	0	0	0	1	0	0	0	261	759	27	1	2037	1	ADAMTS16	5	5235263	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1635110	5235263	175679997	1288	78453											
KIAA0947	23379	broad.mit.edu	37	chr5	5473675	5473675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcttttcatttgctagaatgCcccggtagatgttggcttca	7	16	9	9	1	3	2	2	0	1	2	3	2	3	2	2	2	2	4	2	2	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:5473675C>T	uc003jdm.3	+	16	6449	c.6227C>T	c.(6226-6228)GCC>GTC	p.A2076V		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	2076										ovary(1)|central_nervous_system(1)	2						TGCTAGAATGCCCCGGTAGAT	0.333													11	43					0	0	1	0	0		T	5473675	T	T	5473675	3	4	151	1	0	0	0	0	1	0	0	0	8218	739	26	2	6289	2	KIAA0947	5	5473675	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	238412	5473675	175441585	1289	78454											
FASTKD3	79072	broad.mit.edu	37	chr5	7867338	7867338	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggactcaggttggaaactaTtgatagggaaaagttgttta	14	12	12	3	0	1	1	1	1	0	0	1	4	1	4	0	4	1	3	0	4	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:7867338T>C	uc003jeb.2	-	2	996	c.859A>G	c.(859-861)ATA>GTA	p.I287V	FASTKD3_uc011cmp.1_5'UTR|FASTKD3_uc003jec.2_Intron|MTRR_uc010itn.1_5'Flank|MTRR_uc003jee.3_5'Flank|MTRR_uc003jed.2_5'Flank|MTRR_uc003jef.3_5'Flank|MTRR_uc003jeg.3_5'Flank|MTRR_uc010ito.2_5'Flank	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	287					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						TTGGAAACTATTGATAGGGAA	0.373													6	220					0	0	1	0	0		C	7867338	C	C	7867338	3	2	151	1	0	0	0	0	1	0	0	0	5701	1493	52	3	1153	3	FASTKD3	5	7867338	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2393663	7867338	173047922	1290	78455											
SEMA5A	9037	broad.mit.edu	37	chr5	9136697	9136697	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	catttcttcattaccacatcCcagccacagtaagggtcctg	10	11	6	14	0	2	0	1	0	1	0	4	0	4	0	4	1	2	1	4	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:9136697C>A	uc003jek.2	-	13	2230	c.1518G>T	c.(1516-1518)TGG>TGT	p.W506C		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	506	Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						TTACCACATCCCAGCCACAGT	0.532													9	47					4.68919e-08	4.80054e-08	1	1	0		A	9136697	A	A	9136697	3	1	151	1	0	0	0	0	1	0	0	0	14062	624	22	5	1750	5	SEMA5A	5	9136697	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1269359	9136697	171778563	1291	78456											
CTNND2	1501	broad.mit.edu	37	chr5	11023012	11023012	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctgtcactgtgtcatcCgacatggccttgcttgcagt	7	12	10	12	1	2	0	2	0	0	0	3	1	3	0	2	1	3	3	2	1	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:11023012C>T	uc003jfa.1	-	17	3013	c.2868G>A	c.(2866-2868)TCG>TCA	p.S956S	CTNND2_uc010itt.2_Silent_p.S865S|CTNND2_uc011cmy.1_Silent_p.S619S|CTNND2_uc011cmz.1_Silent_p.S523S|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Silent_p.S548S	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	956					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						CTGTGTCATCCGACATGGCCT	0.517													36	115					0	0	1	0	0		T	11023012	T	T	11023012	2	4	151	1	0	0	0	0	0	0	0	1	4023	639	23	1		1	CTNND2	5	11023012	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1886315	11023012	169892248	1292	78457											
CTNND2	1501	broad.mit.edu	37	chr5	11199700	11199700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtttctcagagctccacagGcactacggtggacttcggtc	7	10	12	12	2	1	1	1	0	1	1	5	2	2	2	1	5	2	3	1	5	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:11199700G>A	uc003jfa.1	-	11	1980	c.1835C>T	c.(1834-1836)GCC>GTC	p.A612V	CTNND2_uc010itt.2_Missense_Mutation_p.A521V|CTNND2_uc011cmy.1_Missense_Mutation_p.A275V|CTNND2_uc011cmz.1_Missense_Mutation_p.A179V|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.A179V	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	612	ARM 3.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						AGCTCCACAGGCACTACGGTG	0.512													30	126					0	0	1	0	0		A	11199700	A	A	11199700	3	1	151	1	0	0	0	0	1	0	0	0	4023	1203	42	2	1890	2	CTNND2	5	11199700	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	176688	11199700	169715560	1293	78458											
DNAH5	1767	broad.mit.edu	37	chr5	13721260	13721260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggagacagatgagtggcGtccgtggatcagattcctcc	10	8	13	10	2	1	4	1	1	0	3	4	6	4	5	3	3	0	0	3	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:13721260G>A	uc003jfd.2	-	71	12170	c.12128C>T	c.(12127-12129)ACG>ATG	p.T4043M	DNAH5_uc003jfc.2_Missense_Mutation_p.T211M	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4043	AAA 6 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GATGAGTGGCGTCCGTGGATC	0.498									Kartagener_syndrome				35	122					0	0	1	0	0		A	13721260	A	A	13721260	3	1	151	1	0	0	0	0	1	0	0	0	4610	1145	40	1	1782	1	DNAH5	5	13721260	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2521560	13721260	167194000	1294	78459											
DNAH5	1767	broad.mit.edu	37	chr5	13923452	13923452	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgatgaagaacacacatacCccagtaagagccacatcgtt	15	7	7	12	1	0	4	0	2	0	2	1	4	0	4	3	0	3	2	3	0	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:13923452C>T	uc003jfd.2	-	4	417	c.375G>A	c.(373-375)GGG>GGA	p.G125G	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	125	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					ACACACATACCCCAGTAAGAG	0.468									Kartagener_syndrome				9	339					0	0	1	0	0		T	13923452	T	T	13923452	2	4	151	1	0	0	0	0	0	0	0	1	4610	610	22	4		4	DNAH5	5	13923452	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	202192	13923452	166991808	1295	78460											
FAM105B	90268	broad.mit.edu	37	chr5	14692970	14692970	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcttcccaggttgaaaTgttccttcttgcctatgctg	5	17	7	12	0	3	1	0	1	3	0	5	1	5	1	3	1	2	3	3	1	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:14692970T>C	uc003jfk.2	+	7	1024	c.872T>C	c.(871-873)ATG>ACG	p.M291T		NM_138348	NP_612357	Q96BN8	F105B_HUMAN	hypothetical protein LOC90268	291										ovary(2)	2	Lung NSC(4;0.00696)					CAGGTTGAAATGTTCCTTCTT	0.507													28	104					0	0	1	0	0		C	14692970	C	C	14692970	3	2	151	1	0	0	0	0	1	0	0	0	5399	1464	51	3	898	3	FAM105B	5	14692970	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	769518	14692970	166222290	1296	78461											
FBXL7	23194	broad.mit.edu	37	chr5	15928130	15928130	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccggggagacggtggccAtggtgcactccccgcccccg	5	5	14	17	4	1	1	1	0	0	1	2	2	2	1	6	5	1	1	6	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:15928130A>G	uc003jfn.1	+	3	740	c.259A>G	c.(259-261)ATG>GTG	p.M87V		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	87					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						GACGGTGGCCATGGTGCACTC	0.667													5	14					0	0	1	0	0		G	15928130	G	G	15928130	3	3	151	1	0	0	0	0	1	0	0	0	5738	217	8	3	269	3	FBXL7	5	15928130	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1235160	15928130	164987130	1297	78462											
FBXL7	23194	broad.mit.edu	37	chr5	15928377	15928377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccatcaacgtggaccgcgCcctcaaggtgctgacccgca	9	5	11	16	4	2	1	2	1	0	0	2	3	2	2	4	2	2	2	4	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:15928377C>T	uc003jfn.1	+	3	987	c.506C>T	c.(505-507)GCC>GTC	p.A169V		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	169					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						GTGGACCGCGCCCTCAAGGTG	0.662													3	15					0	0	1	0	0		T	15928377	T	T	15928377	3	4	151	1	0	0	0	0	1	0	0	0	5738	739	26	2	516	2	FBXL7	5	15928377	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	247	15928377	164986883	1298	78463											
MYO10	4651	broad.mit.edu	37	chr5	16670845	16670845	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acggatcctgtccggaagctCcgcctcagggtcccctctag	6	8	11	16	3	2	0	1	0	1	0	6	2	6	2	6	3	1	1	6	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:16670845C>T	uc003jft.3	-	39	6141	c.5673G>A	c.(5671-5673)CGG>CGA	p.R1891R	MYO10_uc011cnb.1_Silent_p.R520R|MYO10_uc011cnc.1_Silent_p.R770R|MYO10_uc011cnd.1_Silent_p.R1248R|MYO10_uc011cne.1_Silent_p.R1248R|MYO10_uc010itx.2_Silent_p.R1513R	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1891	FERM.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						TCCGGAAGCTCCGCCTCAGGG	0.582													8	63					0	0	1	0	0		T	16670845	T	T	16670845	2	4	151	1	0	0	0	0	0	0	0	1	10080	842	30	4		4	MYO10	5	16670845	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	742468	16670845	164244415	1299	78464											
CDH18	1016	broad.mit.edu	37	chr5	19520773	19520773	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaattaacttacctggccaGgcttagaattttcacataca	14	12	5	10	0	1	1	1	0	0	1	1	1	1	1	2	2	3	1	2	2	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:19520773G>T	uc003jgc.2	-	9	1882	c.1505C>A	c.(1504-1506)CCT>CAT	p.P502H	CDH18_uc003jgd.2_Missense_Mutation_p.P502H|CDH18_uc011cnm.1_Missense_Mutation_p.P502H	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	502	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TACCTGGCCAGGCTTAGAATT	0.398													13	82					5.50884e-06	5.58596e-06	1	1	0		T	19520773	T	T	19520773	3	4	151	1	0	0	0	0	1	0	0	0	3106	1000	35	5	883	5	CDH18	5	19520773	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2849928	19520773	161394487	1300	78465											
CDH10	1008	broad.mit.edu	37	chr5	24488256	24488256	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagagctgcaaacagtactActataacttgaaaaaagaca	19	8	6	8	0	1	3	1	1	0	2	1	3	1	3	0	0	6	3	0	0	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:24488256A>G	uc003jgr.1	-	12	2215	c.1883T>C	c.(1882-1884)GTA>GCA	p.V628A	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	628	Helical; (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AAACAGTACTACTATAACTTG	0.353										HNSCC(23;0.051)			4	104					0	0	1	0	0		G	24488256	G	G	24488256	3	3	151	1	0	0	0	0	1	0	0	0	3099	391	14	3	487	3	CDH10	5	24488256	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4967483	24488256	156427004	1301	78466											
CDH10	1008	broad.mit.edu	37	chr5	24593567	24593567	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggcaggcatacccagaaTagaaacagtagcaaaaattg	17	7	10	7	0	0	2	0	0	0	2	0	2	0	2	1	2	3	4	1	2	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:24593567T>A	uc003jgr.1	-	2	365	c.33A>T	c.(31-33)CTA>CTT	p.L11L	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	11					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ATACCCAGAATAGAAACAGTA	0.408										HNSCC(23;0.051)			7	133					0	0	1	0	0		A	24593567	A	A	24593567	2	1	151	1	0	0	0	0	0	0	0	1	3099	1393	49	5		5	CDH10	5	24593567	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	105311	24593567	156321693	1302	78467											
CDH9	1007	broad.mit.edu	37	chr5	26885845	26885845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattatcgcaggcacacacaCggatagtgagtgtaccagtg	12	8	12	9	2	0	1	0	1	0	0	1	3	0	2	1	2	1	3	1	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:26885845C>T	uc003jgs.1	-	11	1929	c.1760G>A	c.(1759-1761)CGT>CAT	p.R587H	CDH9_uc011cnv.1_Missense_Mutation_p.R180H	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	587	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						GGCACACACACGGATAGTGAG	0.483													19	44					0	0	1	0	0		T	26885845	T	T	26885845	3	4	151	1	0	0	0	0	1	0	0	0	3120	536	19	1	617	1	CDH9	5	26885845	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2292278	26885845	154029415	1303	78468											
CDH6	1004	broad.mit.edu	37	chr5	31305309	31305309	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgaaaagaagaaagtgtAtacccttaaagtggaagcct	16	10	9	6	0	0	3	0	1	0	2	0	4	0	4	2	1	2	1	2	1	9	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:31305309A>T	uc003jhe.1	+	7	1354	c.1028A>T	c.(1027-1029)TAT>TTT	p.Y343F	CDH6_uc003jhd.1_Missense_Mutation_p.Y343F	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	343	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						AAGAAAGTGTATACCCTTAAA	0.453													20	121					0	0	1	0	0		T	31305309	T	T	31305309	3	4	151	1	0	0	0	0	1	0	0	0	3117	449	16	5	1050	5	CDH6	5	31305309	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4419464	31305309	149609951	1304	78469											
PDZD2	23037	broad.mit.edu	37	chr5	32052721	32052721	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtgctgacttttaggaatAccacattgtgaagaagtcta	12	13	10	6	0	1	3	0	2	1	1	1	4	1	4	1	1	2	1	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:32052721A>G	uc003jhl.2	+	9	2058	c.1670A>G	c.(1669-1671)TAC>TGC	p.Y557C	PDZD2_uc003jhm.2_Missense_Mutation_p.Y557C|PDZD2_uc011cnx.1_Missense_Mutation_p.Y383C	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	557					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						TTTTAGGAATACCACATTGTG	0.443													47	205					0	0	1	0	0		G	32052721	G	G	32052721	3	3	151	1	0	0	0	0	1	0	0	0	11720	391	14	3	1700	3	PDZD2	5	32052721	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	747412	32052721	148862539	1305	78470											
PDZD2	23037	broad.mit.edu	37	chr5	32061149	32061149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaactccgtcaacgtccGccatgctgctttaagcaaag	11	9	9	12	3	1	1	1	1	0	0	3	1	3	1	3	0	5	3	3	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:32061149G>A	uc003jhl.2	+	14	2748	c.2360G>A	c.(2359-2361)CGC>CAC	p.R787H	PDZD2_uc003jhm.2_Missense_Mutation_p.R787H|PDZD2_uc011cnx.1_Missense_Mutation_p.R613H	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	787	PDZ 4.				cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GTCAACGTCCGCCATGCTGCT	0.537													21	63					0	0	1	0	0		A	32061149	A	A	32061149	3	1	151	1	0	0	0	0	1	0	0	0	11720	1087	38	1	2410	1	PDZD2	5	32061149	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	8428	32061149	148854111	1306	78471											
ZFR	51663	broad.mit.edu	37	chr5	32390499	32390499	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgatcatcccaatgatgtTgttcttcctccattctcctc	6	15	6	14	1	3	1	1	1	2	0	8	2	6	1	4	1	0	2	4	1	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:32390499T>C	uc003jhr.1	-	12	2104	c.2024A>G	c.(2023-2025)CAA>CGA	p.Q675R	ZFR_uc011cny.1_5'Flank	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	675					multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		CCAATGATGTTGTTCTTCCTC	0.478													32	118					0	0	1	0	0		C	32390499	C	C	32390499	3	2	151	1	0	0	0	0	1	0	0	0	17684	1812	63	3	1236	3	ZFR	5	32390499	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	329350	32390499	148524761	1307	78472											
NPR3	4883	broad.mit.edu	37	chr5	32712294	32712294	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggggccagtgtgcgagTatgcagcagcgccagtggcc	6	7	16	12	2	0	0	0	0	0	0	1	1	1	0	4	3	4	3	4	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:32712294T>C	uc003jhv.2	+	1	630	c.412T>C	c.(412-414)TAT>CAT	p.Y138H	NPR3_uc010iuo.2_Intron|NPR3_uc011cnz.1_Intron|NPR3_uc003jhu.2_Missense_Mutation_p.Y138H	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	138	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	AGTGTGCGAGTATGCAGCAGC	0.672													14	56					0	0	1	0	0		C	32712294	C	C	32712294	3	2	151	1	0	0	0	0	1	0	0	0	10615	1638	57	3	414	3	NPR3	5	32712294	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	321795	32712294	148202966	1308	78473											
NPR3	4883	broad.mit.edu	37	chr5	32712393	32712393	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagcacaaggactctgagTactcgcacctcacgcgcgtg	9	7	10	15	4	2	1	1	1	1	0	4	2	3	2	2	1	2	3	2	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:32712393T>C	uc003jhv.2	+	1	729	c.511T>C	c.(511-513)TAC>CAC	p.Y171H	NPR3_uc010iuo.2_Intron|NPR3_uc011cnz.1_Intron|NPR3_uc003jhu.2_Missense_Mutation_p.Y171H	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	171	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	GGACTCTGAGTACTCGCACCT	0.677													14	32					0	0	1	0	0		C	32712393	C	C	32712393	3	2	151	1	0	0	0	0	1	0	0	0	10615	1638	57	3	513	3	NPR3	5	32712393	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	99	32712393	148202867	1309	78474											
TARS	6897	broad.mit.edu	37	chr5	33457407	33457407	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcagatatggagactctcCagagaatttatggcatttca	14	11	9	7	0	2	3	1	0	1	3	3	5	2	3	1	2	1	2	1	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:33457407C>T	uc003jhy.2	+	9	1178	c.883C>T	c.(883-885)CAG>TAG	p.Q295*	TARS_uc011cob.1_Nonsense_Mutation_p.Q283*|TARS_uc010iup.1_Nonsense_Mutation_p.Q236*|TARS_uc011coc.1_Nonsense_Mutation_p.Q316*|TARS_uc003jhz.2_Nonsense_Mutation_p.Q191*|TARS_uc011cod.1_Nonsense_Mutation_p.Q174*	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	295					threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)	GGAGACTCTCCAGAGAATTTA	0.388													19	108					0	0	1	0	0		T	33457407	T	T	33457407	4	4	151	1	0	0	0	0	0	1	0	0	15584	595	21	4	917	4	TARS	5	33457407	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	745014	33457407	147457853	1310	78475											
ADAMTS12	81792	broad.mit.edu	37	chr5	33751615	33751615	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgcttcttcacgggttcAatgaaaaagtctccatgtgg	10	12	11	8	1	4	1	2	1	2	0	5	2	4	2	1	3	1	2	1	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:33751615A>G	uc003jia.1	-	3	691	c.528T>C	c.(526-528)ATT>ATC	p.I176I	ADAMTS12_uc010iuq.1_Silent_p.I176I|ADAMTS12_uc003jib.1_Silent_p.I176I	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	176					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TCACGGGTTCAATGAAAAAGT	0.413										HNSCC(64;0.19)			24	138					0	0	1	0	0		G	33751615	G	G	33751615	2	3	151	1	0	0	0	0	0	0	0	1	257	126	5	3		3	ADAMTS12	5	33751615	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	294208	33751615	147163645	1311	78476											
RXFP3	51289	broad.mit.edu	37	chr5	33937720	33937720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctacctgctgctggtgcGcttcatcgccgaccgccgcg	3	9	13	16	6	1	0	1	0	0	0	2	1	1	0	4	1	5	4	4	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:33937720G>A	uc003jic.1	+	1	1232	c.875G>A	c.(874-876)CGC>CAC	p.R292H		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	292	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CTGCTGGTGCGCTTCATCGCC	0.682													3	6					0	0	1	0	0		A	33937720	A	A	33937720	3	1	151	1	0	0	0	0	1	0	0	0	13786	1087	38	1	877	1	RXFP3	5	33937720	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	186105	33937720	146977540	1312	78477											
RAI14	26064	broad.mit.edu	37	chr5	34824309	34824309	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaatggtacctcggtctTcctatgaaaaactccagtca	12	11	7	11	1	2	1	1	1	1	0	5	1	4	1	3	2	3	2	3	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:34824309T>C	uc003jir.2	+	15	2558	c.2362T>C	c.(2362-2364)TCC>CCC	p.S788P	RAI14_uc010iur.2_Missense_Mutation_p.S759P|RAI14_uc011coj.1_Missense_Mutation_p.S788P|RAI14_uc003jis.2_Missense_Mutation_p.S791P|RAI14_uc003jit.2_Missense_Mutation_p.S788P|RAI14_uc011cok.1_Missense_Mutation_p.S780P	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	788	Potential.					cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					ACCTCGGTCTTCCTATGAAAA	0.428													49	194					0	0	1	0	0		C	34824309	C	C	34824309	3	2	151	1	0	0	0	0	1	0	0	0	13033	1783	62	3	2481	3	RAI14	5	34824309	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	886589	34824309	146090951	1313	78478											
AGXT2	64902	broad.mit.edu	37	chr5	35026572	35026572	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccacagatgtgctcagcgtAtctttgaattgctcaatata	11	13	8	9	1	3	2	2	1	1	1	3	2	3	2	1	0	3	3	1	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:35026572A>G	uc003jjf.2	-	8	892	c.813T>C	c.(811-813)GAT>GAC	p.D271D	AGXT2_uc003jje.1_5'Flank|AGXT2_uc011com.1_Silent_p.D271D	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	271					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	TGCTCAGCGTATCTTTGAATT	0.393													20	91					0	0	1	0	0		G	35026572	G	G	35026572	2	3	151	1	0	0	0	0	0	0	0	1	405	446	16	3		3	AGXT2	5	35026572	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	202263	35026572	145888688	1314	78479											
UGT3A1	133688	broad.mit.edu	37	chr5	35957483	35957483	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaaaggccacaaggacaaaCcctgcatccccaaagttggc	14	4	8	15	0	0	0	0	0	0	0	1	1	1	1	5	3	2	2	5	3	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:35957483C>T	uc003jjv.1	-	5	1039	c.882G>A	c.(880-882)GGG>GGA	p.G294G	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Silent_p.G294G|UGT3A1_uc011cor.1_Silent_p.G260G	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	294	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CAAGGACAAACCCTGCATCCC	0.488													9	48					0	0	1	0	0		T	35957483	T	T	35957483	2	4	151	1	0	0	0	0	0	0	0	1	16989	494	18	4		4	UGT3A1	5	35957483	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	930911	35957483	144957777	1315	78480											
UGT3A2	167127	broad.mit.edu	37	chr5	36035842	36035842	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccacgcagccaccagacAgccatgcccagcagcttccc	9	3	8	21	1	0	1	0	0	0	1	1	1	1	1	7	0	5	3	7	0	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:36035842A>G	uc003jjz.1	-	7	1623	c.1530T>C	c.(1528-1530)GCT>GCC	p.A510A	UGT3A2_uc011cos.1_Silent_p.A476A|UGT3A2_uc011cot.1_Silent_p.A208A	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	510	Cytoplasmic (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GCCACCAGACAGCCATGCCCA	0.587													4	31					0	0	1	0	0		G	36035842	G	G	36035842	2	3	151	1	0	0	0	0	0	0	0	1	16990	175	7	3		3	UGT3A2	5	36035842	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	78359	36035842	144879418	1316	78481											
UGT3A2	167127	broad.mit.edu	37	chr5	36064364	36064364	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatacctggcataaaaggAcctcttttgtggttaagcat	13	12	9	7	0	1	1	0	0	1	1	1	2	1	2	2	3	2	3	2	3	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:36064364A>G	uc003jjz.1	-	2	276	c.183T>C	c.(181-183)GGT>GGC	p.G61G	UGT3A2_uc011cos.1_Intron|UGT3A2_uc011cot.1_5'UTR	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	61	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GCATAAAAGGACCTCTTTTGT	0.398													18	95					0	0	1	0	0		G	36064364	G	G	36064364	2	3	151	1	0	0	0	0	0	0	0	1	16990	262	10	3		3	UGT3A2	5	36064364	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	28522	36064364	144850896	1317	78482											
NIPBL	25836	broad.mit.edu	37	chr5	36985832	36985832	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaacattgagatcctctagTagaaatgaacatggcattaa	17	10	8	6	0	1	3	0	2	1	2	2	5	2	3	1	1	2	2	1	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:36985832T>C	uc003jkl.3	+	10	3049	c.2550T>C	c.(2548-2550)AGT>AGC	p.S850S	NIPBL_uc003jkk.3_Silent_p.S850S|NIPBL_uc003jkm.1_Silent_p.S729S	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	850					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GATCCTCTAGTAGAAATGAAC	0.408													21	63					0	0	1	0	0		C	36985832	C	C	36985832	2	2	151	1	0	0	0	0	0	0	0	1	10447	1635	57	3		3	NIPBL	5	36985832	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	921468	36985832	143929428	1318	78483											
NIPBL	25836	broad.mit.edu	37	chr5	37024793	37024793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgtgtgtaaaaatgattcGcagagtcaatgatgaagagg	16	10	12	3	1	1	5	1	3	0	2	2	5	1	5	0	1	0	2	0	1	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:37024793G>A	uc003jkl.3	+	30	6180	c.5681G>A	c.(5680-5682)CGC>CAC	p.R1894H	NIPBL_uc003jkk.3_Missense_Mutation_p.R1894H	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1894					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			AAAATGATTCGCAGAGTCAAT	0.299													19	90					0	0	1	0	0		A	37024793	A	A	37024793	3	1	151	1	0	0	0	0	1	0	0	0	10447	1087	38	1	5795	1	NIPBL	5	37024793	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	38961	37024793	143890467	1319	78484											
WDR70	55100	broad.mit.edu	37	chr5	37703147	37703147	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacttgttttctttgagcgTaggactttccaaagggtgta	10	15	10	6	1	1	1	0	1	1	0	2	2	2	2	1	2	2	3	1	2	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:37703147T>C	uc003jkv.2	+	13	1432	c.1374T>C	c.(1372-1374)CGT>CGC	p.R458R		NM_018034	NP_060504	Q9NW82	WDR70_HUMAN	WD repeat domain 70	458	WD 6.									ovary(1)|central_nervous_system(1)	2	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TCTTTGAGCGTAGGACTTTCC	0.423													27	138					0	0	1	0	0		C	37703147	C	C	37703147	2	2	151	1	0	0	0	0	0	0	0	1	17347	1625	57	3		3	WDR70	5	37703147	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	678354	37703147	143212113	1320	78485											
EGFLAM	133584	broad.mit.edu	37	chr5	38407115	38407115	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggaagaatggtgtggccatAatgtcaaggctctttgacat	11	11	13	6	0	2	2	1	1	1	1	2	3	2	3	1	4	0	1	1	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:38407115A>G	uc003jlc.1	+	8	1338	c.1014A>G	c.(1012-1014)ATA>ATG	p.I338M	EGFLAM_uc003jlb.1_Missense_Mutation_p.I338M|EGFLAM_uc003jle.1_Missense_Mutation_p.I104M|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	338						cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					GTGTGGCCATAATGTCAAGGC	0.547													25	102					0	0	1	0	0		G	38407115	G	G	38407115	3	3	151	1	0	0	0	0	1	0	0	0	4972	352	13	3	1058	3	EGFLAM	5	38407115	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	703968	38407115	142508145	1321	78486											
EGFLAM	133584	broad.mit.edu	37	chr5	38464058	38464058	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtggaagatgccgtggatggGaaaaacatcaacacttgtgg	13	8	14	6	1	1	1	1	0	0	1	1	4	1	4	1	4	3	0	1	4	4	1	rs17855226		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:38464058G>A	uc003jlc.1	+	23	3348	c.3024G>A	c.(3022-3024)GGG>GGA	p.G1008G	EGFLAM_uc003jlb.1_Silent_p.G1000G|EGFLAM_uc003jle.1_Silent_p.G766G|EGFLAM_uc003jlf.1_Silent_p.G366G|EGFLAM_uc003jlg.1_Silent_p.G143G|EGFLAM_uc003jlh.1_Silent_p.G90G	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	1008	Laminin G-like 3.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					CCGTGGATGGGAAAAACATCA	0.527													10	55					0	0	1	0	0		A	38464058	A	A	38464058	2	1	151	1	0	0	0	0	0	0	0	1	4972	1161	41	4		4	EGFLAM	5	38464058	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	56943	38464058	142451202	1322	78487											
LIFR	3977	broad.mit.edu	37	chr5	38506631	38506631	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaaagtgtagcttgtagcAcgtgggcccaccaacgctgt	10	9	11	11	2	0	0	0	0	0	0	0	0	0	0	2	1	3	5	2	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:38506631A>G	uc010ive.1	-	8	1427	c.1095T>C	c.(1093-1095)CGT>CGC	p.R365R	LIFR_uc003jli.2_Silent_p.R365R	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	365	Fibronectin type-III 2.|Extracellular (Potential).				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					AGCTTGTAGCACGTGGGCCCA	0.418			T	PLAG1	salivary adenoma								22	85					0	0	1	0	0		G	38506631	G	G	38506631	2	3	151	1	0	0	0	0	0	0	0	1	8796	146	6	3		3	LIFR	5	38506631	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	42573	38506631	142408629	1323	78488											
OSMR	9180	broad.mit.edu	37	chr5	38932047	38932047	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgctcatcatggtcatgTgctacttgaaaagtcagtgg	9	14	10	8	0	5	1	4	1	1	0	5	1	5	1	0	2	3	2	0	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:38932047T>C	uc003jln.1	+	16	2642	c.2275T>C	c.(2275-2277)TGC>CGC	p.C759R	OSMR_uc011cpj.1_Intron	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	759	Helical; (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					CATGGTCATGTGCTACTTGAA	0.388													6	166					0	0	1	0	0		C	38932047	C	C	38932047	3	2	151	1	0	0	0	0	1	0	0	0	11311	1696	59	3	2371	3	OSMR	5	38932047	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	425416	38932047	141983213	1324	78489											
DAB2	1601	broad.mit.edu	37	chr5	39376963	39376963	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatctctttatccccaagTgggtctaaggcagtgaaggc	9	12	11	9	0	2	2	0	2	2	0	4	2	3	2	2	3	0	1	2	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:39376963T>C	uc003jlx.2	-	12	2457	c.1926A>G	c.(1924-1926)CCA>CCG	p.P642P	DAB2_uc003jlw.2_Silent_p.P621P	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	642					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			TATCCCCAAGTGGGTCTAAGG	0.552											OREG0016586	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	72					0	0	1	0	0		C	39376963	C	C	39376963	2	2	151	1	0	0	0	0	0	0	0	1	4221	1683	59	3		3	DAB2	5	39376963	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	444916	39376963	141538297	1325	78490											
DAB2	1601	broad.mit.edu	37	chr5	39377133	39377133	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attccccaaagggcttgttgTtgaccaagcattgggtgcca	9	11	11	10	0	0	1	0	1	0	0	1	1	1	1	4	2	2	4	4	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:39377133T>C	uc003jlx.2	-	12	2287	c.1756A>G	c.(1756-1758)ACA>GCA	p.T586A	DAB2_uc003jlw.2_Missense_Mutation_p.T565A	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	586					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			GGGCTTGTTGTTGACCAAGCA	0.552											OREG0016586	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	131					0	0	1	0	0		C	39377133	C	C	39377133	3	2	151	1	0	0	0	0	1	0	0	0	4221	1725	60	3	568	3	DAB2	5	39377133	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	170	39377133	141538127	1326	78491											
HEATR7B2	133558	broad.mit.edu	37	chr5	41015568	41015568	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccctgcagtctttccactTccaagtgaatgcctaaaatc	12	11	5	13	0	1	1	0	1	1	0	4	1	3	1	4	0	3	1	4	0	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:41015568T>G	uc003jmj.3	-	29	3387	c.2897A>C	c.(2896-2898)GAA>GCA	p.E966A	HEATR7B2_uc003jmi.3_Missense_Mutation_p.E521A	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	966	HEAT 10.						binding			ovary(6)|central_nervous_system(2)	8						TCTTTCCACTTCCAAGTGAAT	0.388													13	55					0	0	1	0	0		G	41015568	G	G	41015568	3	3	151	1	0	0	0	0	1	0	0	0	7051	1783	62	5	1916	5	HEATR7B2	5	41015568	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1638435	41015568	139899692	1327	78492											
FBXO4	26272	broad.mit.edu	37	chr5	41927177	41927177	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatctgtgtcagttgggaagTacaaatcattattggaatga	13	13	11	4	0	3	1	2	1	1	0	3	4	3	3	0	2	1	2	0	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:41927177T>C	uc003jmq.2	+	2	308	c.252T>C	c.(250-252)AGT>AGC	p.S84S	FBXO4_uc003jmp.2_Silent_p.S84S|FBXO4_uc003jmr.2_Silent_p.S84S	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	84	F-box.				positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)				AGTTGGGAAGTACAAATCATT	0.383													55	231					0	0	1	0	0		C	41927177	C	C	41927177	2	2	151	1	0	0	0	0	0	0	0	1	5762	1635	57	3		3	FBXO4	5	41927177	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	911609	41927177	138988083	1328	78493											
ZNF131	7690	broad.mit.edu	37	chr5	43161820	43161820	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accattttaaggagcacatgAaatcacactccactgagagt	15	9	7	10	0	1	2	1	2	0	1	2	4	2	3	2	1	1	1	2	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:43161820A>G	uc011cpw.1	+	5	877	c.841A>G	c.(841-843)AAA>GAA	p.K281E	ZNF131_uc010ivl.1_Missense_Mutation_p.K247E|ZNF131_uc003jnj.3_Missense_Mutation_p.K2E|ZNF131_uc003jnk.2_Missense_Mutation_p.K247E|ZNF131_uc003jnn.3_Missense_Mutation_p.K2E|ZNF131_uc003jnl.1_Intron|ZNF131_uc010ivm.1_Intron	NM_003432	NP_003423	P52739	ZN131_HUMAN	zinc finger protein 131	281	C2H2-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GGAGCACATGAAATCACACTC	0.378													27	88					0	0	1	0	0		G	43161820	G	G	43161820	3	3	151	1	0	0	0	0	1	0	0	0	17746	247	9	3	757	3	ZNF131	5	43161820	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1234643	43161820	137753440	1329	78494											
NNT	23530	broad.mit.edu	37	chr5	43644365	43644365	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggttcagttgttgtggatTtagctgctgaggctggtgga	7	14	16	4	0	1	1	1	1	0	0	1	3	1	3	0	5	2	6	0	5	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:43644365T>C	uc003joe.2	+	8	1291	c.1036T>C	c.(1036-1038)TTA>CTA	p.L346L	NNT_uc003jof.2_Silent_p.L346L	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	346	Mitochondrial matrix.				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	TGTTGTGGATTTAGCTGCTGA	0.363													32	147					0	0	1	0	0		C	43644365	C	C	43644365	2	2	151	1	0	0	0	0	0	0	0	1	10529	1838	64	3		3	NNT	5	43644365	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	482545	43644365	137270895	1330	78495											
MRPS30	10884	broad.mit.edu	37	chr5	44811164	44811164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtgaagaaattattcctCgtggtcatcgaagaggtcga	11	11	13	6	3	1	3	1	1	0	2	5	5	2	3	1	3	0	0	1	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:44811164C>T	uc003joh.2	+	2	693	c.655C>T	c.(655-657)CGT>TGT	p.R219C	MRPS30_uc003joi.1_RNA	NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	219					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)					AATTATTCCTCGTGGTCATCG	0.363													28	108					0	0	1	0	0		T	44811164	T	T	44811164	3	4	151	1	0	0	0	0	1	0	0	0	9858	884	31	1	661	1	MRPS30	5	44811164	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1166799	44811164	136104096	1331	78496											
EMB	133418	broad.mit.edu	37	chr5	49699039	49699039	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctttttcttttgtgtgtActtttcacaaagcagaatgg	8	19	7	7	0	3	1	1	0	2	1	3	1	3	1	0	1	2	2	0	1	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:49699039A>G	uc003jom.2	-	6	1099	c.850T>C	c.(850-852)TAC>CAC	p.Y284H	EMB_uc010ivq.2_Missense_Mutation_p.Y78H|EMB_uc003jol.2_Missense_Mutation_p.Y215H|EMB_uc011cpy.1_Missense_Mutation_p.Y234H|EMB_uc010ivr.2_Missense_Mutation_p.Y230H	NM_198449	NP_940851	Q6PCB8	EMB_HUMAN	embigin precursor	284	Cytoplasmic (Potential).					integral to membrane					0	Lung SC(58;0.218)	Lung NSC(810;0.0795)				TTTTGTGTGTACTTTTCACAA	0.343													10	55					0	0	1	0	0		G	49699039	G	G	49699039	3	3	151	1	0	0	0	0	1	0	0	0	5093	391	14	3	149	3	EMB	5	49699039	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4887875	49699039	131216221	1332	78497											
DHX29	54505	broad.mit.edu	37	chr5	54569171	54569171	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgcagcttgatcttgggTtgaaagaatagaatgcagag	12	11	13	5	0	1	5	0	2	1	3	1	5	1	5	0	1	4	5	0	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:54569171T>C	uc003jpx.2	-	17	2845	c.2725A>G	c.(2725-2727)ACC>GCC	p.T909A	DHX29_uc010ivw.2_RNA	NM_019030	NP_061903	Q7Z478	DHX29_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 29	909	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|translation initiation factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0544)|Prostate(74;0.183)				TGATCTTGGGTTGAAAGAATA	0.358													18	81					0	0	1	0	0		C	54569171	C	C	54569171	3	2	151	1	0	0	0	0	1	0	0	0	4509	1725	60	3	1428	3	DHX29	5	54569171	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4870132	54569171	126346089	1333	78498											
DHX29	54505	broad.mit.edu	37	chr5	54591220	54591220	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattaccttactcttagggTcctcttcatatgtttttgtt	8	20	5	8	0	3	0	1	0	2	0	4	0	4	0	2	1	2	2	2	1	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:54591220T>C	uc003jpx.2	-	5	758	c.638A>G	c.(637-639)GAC>GGC	p.D213G	DHX29_uc010ivw.2_RNA	NM_019030	NP_061903	Q7Z478	DHX29_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 29	213							ATP binding|ATP-dependent helicase activity|translation initiation factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0544)|Prostate(74;0.183)				ACTCTTAGGGTCCTCTTCATA	0.338													25	163					0	0	1	0	0		C	54591220	C	C	54591220	3	2	151	1	0	0	0	0	1	0	0	0	4509	1667	58	3	3563	3	DHX29	5	54591220	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	22049	54591220	126324040	1334	78499											
GPBP1	65056	broad.mit.edu	37	chr5	56509990	56509990	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactttgctccagcctggctTaatttccctactccaccatc	7	13	5	16	0	0	0	0	0	0	0	4	1	3	0	5	1	3	2	5	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:56509990T>C	uc003jrh.3	+	3	1307	c.33T>C	c.(31-33)CTT>CTC	p.L11L	GPBP1_uc010iwg.2_Silent_p.L11L|GPBP1_uc003jri.3_Intron|GPBP1_uc003jrj.3_Silent_p.L11L|GPBP1_uc003jrk.3_Silent_p.L11L	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	11					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		CAGCCTGGCTTAATTTCCCTA	0.428													54	186					0	0	1	0	0		C	56509990	C	C	56509990	2	2	151	1	0	0	0	0	0	0	0	1	6610	1741	61	3		3	GPBP1	5	56509990	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1918770	56509990	124405270	1335	78500											
KIF2A	3796	broad.mit.edu	37	chr5	61659541	61659541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacatccggtcaaacatctGcaaatgcacattcatctcgg	13	9	7	12	2	4	0	2	0	2	0	6	1	5	0	1	2	4	2	1	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:61659541G>A	uc003jsy.3	+	14	1593	c.1282G>A	c.(1282-1284)GCA>ACA	p.A428T	KIF2A_uc003jsz.3_Missense_Mutation_p.A428T|KIF2A_uc010iwp.2_Missense_Mutation_p.A409T|KIF2A_uc003jsx.3_Missense_Mutation_p.A408T|KIF2A_uc010iwq.2_Missense_Mutation_p.A231T	NM_004520	NP_004511	O00139	KIF2A_HUMAN	kinesin heavy chain member 2 isoform 1	428	Kinesin-motor.				blood coagulation|cell differentiation|cell division|microtubule-based movement|mitotic prometaphase|mitotic spindle organization|nervous system development	centrosome|cytosol|microtubule|spindle pole	ATP binding|microtubule motor activity|protein binding				0		Lung NSC(810;8.94e-06)|Prostate(74;0.0132)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.14)		TCAAACATCTGCAAATGCACA	0.333													20	100					0	0	1	0	0		A	61659541	A	A	61659541	3	1	151	1	0	0	0	0	1	0	0	0	8313	1319	46	2	1336	2	KIF2A	5	61659541	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	5149551	61659541	119255719	1336	78501											
HTR1A	3350	broad.mit.edu	37	chr5	63256867	63256867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacctttttgaccgtcttgCggatgcggaagcgcgcagct	6	10	12	13	5	1	1	0	1	1	0	1	3	1	3	3	2	4	2	3	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:63256867C>T	uc011cqt.1	-	1	680	c.680G>A	c.(679-681)CGC>CAC	p.R227H		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	227	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity	p.R227H(1)		ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	GACCGTCTTGCGGATGCGGAA	0.587													11	72					0	0	1	0	0		T	63256867	T	T	63256867	3	4	151	1	0	0	0	0	1	0	0	0	7452	768	27	1	591	1	HTR1A	5	63256867	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1597326	63256867	117658393	1337	78502											
RNF180	285671	broad.mit.edu	37	chr5	63509837	63509837	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcttttcatagaaaatcAcatagtttggatctgaacat	15	13	7	6	0	3	3	2	1	1	2	3	4	3	4	0	1	2	2	0	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:63509837A>G	uc003jti.2	+	4	794	c.684A>G	c.(682-684)TCA>TCG	p.S228S	RNF180_uc003jth.3_Silent_p.S228S|RNF180_uc010iws.2_Intron	NM_001113561	NP_001107033	Q86T96	RN180_HUMAN	ring finger protein 180 isoform 1	228	Cytoplasmic (Potential).					integral to membrane|nuclear envelope	zinc ion binding				0		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0848)|Colorectal(97;0.234)		Lung(70;0.114)		ATAGAAAATCACATAGTTTGG	0.383													40	159					0	0	1	0	0		G	63509837	G	G	63509837	2	3	151	1	0	0	0	0	0	0	0	1	13489	146	6	3		3	RNF180	5	63509837	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	252970	63509837	117405423	1338	78503											
RGS7BP	401190	broad.mit.edu	37	chr5	63803674	63803674	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgtgaaatggcccgtcAggcacaccaaaaattggctg	12	7	12	10	1	1	1	1	1	0	0	1	1	1	1	2	4	0	3	2	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:63803674A>G	uc003jtj.2	+	2	302	c.302A>G	c.(301-303)CAG>CGG	p.Q101R		NM_001029875	NP_001025046	Q6MZT1	R7BP_HUMAN	regulator of G-protein signaling 7 binding	101					negative regulation of signal transduction	cytoplasm|nucleus|plasma membrane					0		Lung NSC(810;0.000518)|Prostate(74;0.0435)|Ovarian(174;0.186)		Lung(70;0.147)		ATGGCCCGTCAGGCACACCAA	0.493													5	46					0	0	1	0	0		G	63803674	G	G	63803674	3	3	151	1	0	0	0	0	1	0	0	0	13336	188	7	3	308	3	RGS7BP	5	63803674	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	293837	63803674	117111586	1339	78504											
PPWD1	23398	broad.mit.edu	37	chr5	64879030	64879030	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgggagacattcacaccAaactttttcctgttgagtat	11	13	8	9	0	1	2	1	1	0	1	2	3	2	2	2	1	1	3	2	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:64879030A>G	uc003jtv.3	+	8	1523	c.1516A>G	c.(1516-1518)AAA>GAA	p.K506E	PPWD1_uc011cqv.1_Missense_Mutation_p.K476E|PPWD1_uc011cqw.1_Missense_Mutation_p.K350E	NM_015342	NP_056157	Q96BP3	PPWD1_HUMAN	peptidylprolyl isomerase domain and WD repeat	506	PPIase cyclophilin-type.				protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00451)		CATTCACACCAAACTTTTTCC	0.373													44	240					0	0	1	0	0		G	64879030	G	G	64879030	3	3	151	1	0	0	0	0	1	0	0	0	12436	131	5	3	1546	3	PPWD1	5	64879030	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1075356	64879030	116036230	1340	78505											
NLN	57486	broad.mit.edu	37	chr5	65084052	65084052	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttgaatatgatgggaaaAtcaatgcctgggatctatat	13	14	10	4	0	2	2	1	2	1	0	2	4	2	4	1	2	1	1	1	2	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:65084052A>G	uc003juf.2	+	8	1182	c.1066A>G	c.(1066-1068)ATC>GTC	p.I356V	NLN_uc003jue.2_Missense_Mutation_p.I356V|NLN_uc003jug.2_Missense_Mutation_p.I185V|NLN_uc010iww.2_Missense_Mutation_p.I51V	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	356					proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)		TGATGGGAAAATCAATGCCTG	0.393													42	210					0	0	1	0	0		G	65084052	G	G	65084052	3	3	151	1	0	0	0	0	1	0	0	0	10486	101	4	3	1096	3	NLN	5	65084052	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	205022	65084052	115831208	1341	78506											
ERBB2IP	55914	broad.mit.edu	37	chr5	65324153	65324153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagcaattgacagctatGtggctctcagataatcaggt	12	11	9	9	0	2	2	2	1	1	1	3	2	2	2	0	2	3	3	0	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:65324153G>A	uc003juk.1	+	14	1496	c.1188G>A	c.(1186-1188)ATG>ATA	p.M396I	ERBB2IP_uc003juh.1_Missense_Mutation_p.M396I|ERBB2IP_uc003jui.1_Missense_Mutation_p.M396I|ERBB2IP_uc003juj.1_Missense_Mutation_p.M396I|ERBB2IP_uc011cqx.1_Missense_Mutation_p.M396I|ERBB2IP_uc011cqy.1_Missense_Mutation_p.M396I|ERBB2IP_uc011cqz.1_Missense_Mutation_p.M396I|ERBB2IP_uc010iwx.1_Missense_Mutation_p.M396I|ERBB2IP_uc003jul.1_Missense_Mutation_p.M396I	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	396	LRR 17.				basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		TGACAGCTATGTGGCTCTCAG	0.303													14	92					0	0	1	0	0		A	65324153	A	A	65324153	3	1	151	1	0	0	0	0	1	0	0	0	5215	1377	48	4	1234	4	ERBB2IP	5	65324153	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	240101	65324153	115591107	1342	78507											
ERBB2IP	55914	broad.mit.edu	37	chr5	65350643	65350643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagtgatttcaattattcacGgactagtccttcaaaaagac	14	13	6	8	1	3	2	3	1	0	1	4	3	4	3	1	1	0	0	1	1	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:65350643G>A	uc003juk.1	+	21	3805	c.3497G>A	c.(3496-3498)CGG>CAG	p.R1166Q	ERBB2IP_uc003jui.1_Missense_Mutation_p.R1166Q|ERBB2IP_uc003juj.1_Missense_Mutation_p.R1166Q|ERBB2IP_uc011cqx.1_Missense_Mutation_p.R1166Q|ERBB2IP_uc011cqy.1_Missense_Mutation_p.R1166Q|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Missense_Mutation_p.R1162Q|ERBB2IP_uc003jul.1_Missense_Mutation_p.R1162Q	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	1166					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		AATTATTCACGGACTAGTCCT	0.403													24	85					0	0	1	0	0		A	65350643	A	A	65350643	3	1	151	1	0	0	0	0	1	0	0	0	5215	1116	39	1	3571	1	ERBB2IP	5	65350643	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	26490	65350643	115564617	1343	78508											
CD180	4064	broad.mit.edu	37	chr5	66478818	66478818	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaaagcttgacatcagatAgcttaactccccttagagat	14	10	8	9	0	1	3	1	1	0	2	2	5	2	4	2	1	3	2	2	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:66478818A>G	uc003juy.2	-	3	2001	c.1853T>C	c.(1852-1854)CTA>CCA	p.L618P		NM_005582	NP_005573	Q99467	CD180_HUMAN	CD180 molecule precursor	618	Extracellular (Potential).|LRRCT.				inflammatory response|innate immune response	integral to membrane|plasma membrane	receptor activity			ovary(1)	1		Lung NSC(167;4.94e-05)|Prostate(74;0.00601)|Ovarian(174;0.0654)|Breast(144;0.198)|Colorectal(97;0.234)		Lung(70;0.0046)		GACATCAGATAGCTTAACTCC	0.393													25	127					0	0	1	0	0		G	66478818	G	G	66478818	3	3	151	1	0	0	0	0	1	0	0	0	2975	420	15	3	136	3	CD180	5	66478818	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1128175	66478818	114436442	1344	78509											
CD180	4064	broad.mit.edu	37	chr5	66479818	66479818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgagatgtcagagaagcGgtgttcctgcaggttgaggc	9	9	17	6	1	1	3	1	2	0	2	2	6	2	4	1	4	2	3	1	4	1	2	rs140099362		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:66479818G>A	uc003juy.2	-	3	1001	c.853C>T	c.(853-855)CGC>TGC	p.R285C		NM_005582	NP_005573	Q99467	CD180_HUMAN	CD180 molecule precursor	285	Extracellular (Potential).|LRR 8.				inflammatory response|innate immune response	integral to membrane|plasma membrane	receptor activity			ovary(1)	1		Lung NSC(167;4.94e-05)|Prostate(74;0.00601)|Ovarian(174;0.0654)|Breast(144;0.198)|Colorectal(97;0.234)		Lung(70;0.0046)		TCAGAGAAGCGGTGTTCCTGC	0.473													28	125					0	0	1	0	0		A	66479818	A	A	66479818	3	1	151	1	0	0	0	0	1	0	0	0	2975	1116	39	1	1136	1	CD180	5	66479818	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1000	66479818	114435442	1345	78510											
RAD17	5884	broad.mit.edu	37	chr5	68687758	68687758	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacctgatagggtttttgaAaatcaagaggtccaagctat	15	11	9	6	0	1	3	1	2	0	1	2	3	2	3	2	2	2	2	2	2	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:68687758A>G	uc003jwo.2	+	10	1202	c.1140A>G	c.(1138-1140)GAA>GAG	p.E380E	RAD17_uc003jwg.2_Silent_p.E369E|RAD17_uc003jwh.2_Silent_p.E369E|RAD17_uc003jwi.2_Silent_p.E369E|RAD17_uc003jwj.2_Silent_p.E369E|RAD17_uc003jwk.2_Silent_p.E369E|RAD17_uc003jwl.2_Silent_p.E369E|RAD17_uc003jwm.2_Silent_p.E204E|RAD17_uc003jwn.2_Silent_p.E283E|RAD17_uc003jwp.2_5'Flank	NM_133339	NP_579917	O75943	RAD17_HUMAN	RAD17 homolog isoform 2	380					cell cycle|DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint|mitotic cell cycle checkpoint|negative regulation of DNA replication|regulation of phosphorylation	nucleoplasm	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Lung NSC(167;5.19e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;9.36e-57)|Epithelial(20;1.21e-52)|all cancers(19;3.34e-48)|Lung(70;0.0183)		GGGTTTTTGAAAATCAAGAGG	0.343								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					35	162					0	0	1	0	0		G	68687758	G	G	68687758	2	3	151	1	0	0	0	0	0	0	0	1	13004	11	1	3		3	RAD17	5	68687758	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2207940	68687758	112227502	1346	78511											
MARVELD2	153562	broad.mit.edu	37	chr5	68728430	68728430	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgagaacagcaaaaatgaAacctgaactactgagtggac	18	6	9	8	0	0	4	0	4	0	1	0	6	0	5	1	1	5	1	1	1	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:68728430A>G	uc003jwq.2	+	4	1318	c.1259A>G	c.(1258-1260)AAA>AGA	p.K420R	MARVELD2_uc010ixf.2_Missense_Mutation_p.K408R|MARVELD2_uc003jwr.1_Missense_Mutation_p.K420R|MARVELD2_uc003jws.1_RNA	NM_001038603	NP_001033692	Q8N4S9	MALD2_HUMAN	MARVEL domain containing 2 isoform 1	420	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane|tight junction					0		Lung NSC(167;0.000937)|Prostate(74;0.0187)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;7.31e-57)|Epithelial(20;1.05e-52)|all cancers(19;2.63e-48)|Lung(70;0.0183)		GCAAAAATGAAACCTGAACTA	0.463													15	70					0	0	1	0	0		G	68728430	G	G	68728430	3	3	151	1	0	0	0	0	1	0	0	0	9336	14	1	3	1269	3	MARVELD2	5	68728430	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	40672	68728430	112186830	1347	78512											
ZNF366	167465	broad.mit.edu	37	chr5	71756026	71756026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgctgcttgaggtggtgcGgctgcacaaactccatgcca	8	9	13	11	1	0	1	0	1	0	0	1	1	1	1	2	3	6	4	2	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:71756026G>A	uc003kce.1	-	2	1484	c.1298C>T	c.(1297-1299)CCG>CTG	p.P433L		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	433	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		GAGGTGGTGCGGCTGCACAAA	0.622													8	22					0	0	1	0	0		A	71756026	A	A	71756026	3	1	151	1	0	0	0	0	1	0	0	0	17895	1116	39	1	952	1	ZNF366	5	71756026	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3027596	71756026	109159234	1348	78513											
TNPO1	3842	broad.mit.edu	37	chr5	72173153	72173153	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagccaatatgcaaagatgtActcgtaaggcatcttcctaa	14	10	7	10	1	1	1	0	0	1	1	3	1	2	1	2	1	3	4	2	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:72173153A>G	uc003kck.3	+	9	1047	c.900A>G	c.(898-900)GTA>GTG	p.V300V	TNPO1_uc011csi.1_RNA|TNPO1_uc011csj.1_Silent_p.V250V|TNPO1_uc003kch.2_Silent_p.V292V|TNPO1_uc003kci.3_Silent_p.V292V|TNPO1_uc003kcg.3_Silent_p.V292V	NM_002270	NP_002261	Q92973	TNPO1_HUMAN	transportin 1 isoform 1	300					interspecies interaction between organisms|mRNA metabolic process|protein import into nucleus, translocation	cytosol|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			skin(3)|urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)	7		Lung NSC(167;0.0053)|Ovarian(174;0.0175)		OV - Ovarian serous cystadenocarcinoma(47;6.14e-54)		GCAAAGATGTACTCGTAAGGC	0.343													24	99					0	0	1	0	0		G	72173153	G	G	72173153	2	3	151	1	0	0	0	0	0	0	0	1	16360	378	14	3		3	TNPO1	5	72173153	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	417127	72173153	108742107	1349	78514											
RGNEF	64283	broad.mit.edu	37	chr5	73048780	73048780	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtatctgtgtgcctctgctcGgaaggttactctccggtgac	5	13	12	11	2	3	1	0	1	3	0	5	2	3	2	2	3	3	3	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:73048780G>A	uc011csq.1	+	3	239	c.228G>A	c.(226-228)TCG>TCA	p.S76S	RGNEF_uc003kcx.2_Silent_p.S76S|RGNEF_uc003kcy.1_Silent_p.S76S|RGNEF_uc010izf.2_Silent_p.S76S	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	76					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		GCCTCTGCTCGGAAGGTTACT	0.582													7	36					0	0	1	0	0		A	73048780	A	A	73048780	2	1	151	1	0	0	0	0	0	0	0	1	13308	1103	39	1		1	RGNEF	5	73048780	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	875627	73048780	107866480	1350	78515											
ARSB	411	broad.mit.edu	37	chr5	78076471	78076471	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtattgagacggtggagggaAccagtaaccacagcctagca	13	6	13	9	1	0	1	0	1	0	1	0	4	0	3	3	3	4	3	3	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:78076471A>G	uc003kfq.2	-	8	2637	c.1351T>C	c.(1351-1353)TTC>CTC	p.F451L		NM_000046	NP_000037	P15848	ARSB_HUMAN	arylsulfatase B isoform 1 precursor	451					lysosomal transport|lysosome organization	lysosome	arylsulfatase activity|metal ion binding|N-acetylgalactosamine-4-sulfatase activity			upper_aerodigestive_tract(1)	1		all_lung(232;0.000637)|Lung NSC(167;0.00173)|Ovarian(174;0.0105)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;4.24e-44)|Epithelial(54;3.12e-39)|all cancers(79;3.02e-34)		GGTGGAGGGAACCAGTAACCA	0.488													8	31					0	0	1	0	0		G	78076471	G	G	78076471	3	3	151	1	0	0	0	0	1	0	0	0	989	43	2	3	254	3	ARSB	5	78076471	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5027691	78076471	102838789	1351	78516											
BHMT	635	broad.mit.edu	37	chr5	78423758	78423758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcttcagaaaaacatggcaGctggggaagtggtttggaca	13	8	14	6	0	1	1	1	0	0	1	1	3	1	3	0	5	3	4	0	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:78423758G>A	uc003kfu.3	+	7	1094	c.989G>A	c.(988-990)AGC>AAC	p.S330N	BHMT_uc011cti.1_Missense_Mutation_p.S177N	NM_001713	NP_001704	Q93088	BHMT1_HUMAN	betaine-homocysteine methyltransferase	330					protein methylation|regulation of homocysteine metabolic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)	AAACATGGCAGCTGGGGAAGT	0.483													13	38					0	0	1	0	0		A	78423758	A	A	78423758	3	1	151	1	0	0	0	0	1	0	0	0	1426	971	34	2	1015	2	BHMT	5	78423758	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	347287	78423758	102491502	1352	78517											
JMY	133746	broad.mit.edu	37	chr5	78610597	78610597	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagtgccccctcagcacAcctctttgacagcagccagc	9	6	8	18	0	2	1	1	1	1	0	2	1	2	1	5	0	6	2	5	0	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:78610597A>G	uc003kfx.3	+	9	3102	c.2582A>G	c.(2581-2583)CAC>CGC	p.H861R	JMY_uc003kfw.1_Missense_Mutation_p.H507R	NM_152405	NP_689618	Q8N9B5	JMY_HUMAN	junction-mediating and regulatory protein	861					'de novo' actin filament nucleation|actin polymerization-dependent cell motility|Arp2/3 complex-mediated actin nucleation|cell cycle arrest|DNA repair|induction of apoptosis|positive regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter	cell leading edge|cytoplasm|cytoskeleton|nucleus	actin binding|transcription coactivator activity				0		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;4.45e-45)|Epithelial(54;5.85e-40)|all cancers(79;2.89e-35)		CCCTCAGCACACCTCTTTGAC	0.522													4	59					0	0	1	0	0		G	78610597	G	G	78610597	3	3	151	1	0	0	0	0	1	0	0	0	7973	159	6	3	2616	3	JMY	5	78610597	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	186839	78610597	102304663	1353	78518											
CMYA5	202333	broad.mit.edu	37	chr5	79031641	79031641	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagtccagaagccagcaatCgctcctccatctaaatggaa	14	7	8	12	1	1	2	0	0	1	2	5	3	4	3	4	1	2	2	4	1	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:79031641C>T	uc003kgc.2	+	2	7125	c.7053C>T	c.(7051-7053)ATC>ATT	p.I2351I		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2351						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AGCCAGCAATCGCTCCTCCAT	0.358													16	64					0	0	1	0	0		T	79031641	T	T	79031641	2	4	151	1	0	0	0	0	0	0	0	1	3593	874	31	1		1	CMYA5	5	79031641	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	421044	79031641	101883619	1354	78519											
CMYA5	202333	broad.mit.edu	37	chr5	79034494	79034494	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaacagaaaggtgtttaTggggaaggagaatcagtaga	17	7	15	2	0	1	4	1	0	0	4	1	7	1	5	0	4	1	2	0	4	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:79034494T>A	uc003kgc.2	+	2	9978	c.9906T>A	c.(9904-9906)TAT>TAA	p.Y3302*		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3302						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AAGGTGTTTATGGGGAAGGAG	0.473													27	124					0	0	1	0	0		A	79034494	A	A	79034494	4	1	151	1	0	0	0	0	0	1	0	0	3593	1471	51	5	9912	5	CMYA5	5	79034494	Nonsense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2853	79034494	101880766	1355	78520											
CMYA5	202333	broad.mit.edu	37	chr5	79095361	79095361	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaatgagggtgtccacccTgcctttgccctggagaaacc	8	11	10	12	0	0	2	0	1	0	1	1	3	1	2	5	2	3	0	5	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:79095361T>C	uc003kgc.2	+	13	12204	c.12132T>C	c.(12130-12132)CCT>CCC	p.P4044P		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	4044	B30.2/SPRY.					perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GTGTCCACCCTGCCTTTGCCC	0.498													14	62					0	0	1	0	0		C	79095361	C	C	79095361	2	2	151	1	0	0	0	0	0	0	0	1	3593	1567	55	3		3	CMYA5	5	79095361	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	60867	79095361	101819899	1356	78521											
ZFYVE16	9765	broad.mit.edu	37	chr5	79770525	79770525	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatttatctattttatcaaCttcttatcagtttgcaaaag	12	18	5	6	0	4	0	2	0	2	0	4	1	4	1	0	1	2	2	0	1	7	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:79770525C>G	uc003kgr.3	+	18	4639	c.4337C>G	c.(4336-4338)ACT>AGT	p.T1446S	ZFYVE16_uc003kgq.3_Missense_Mutation_p.T1446S|ZFYVE16_uc003kgs.3_Missense_Mutation_p.T1446S|ZFYVE16_uc003kgt.3_Missense_Mutation_p.T534S|ZFYVE16_uc003kgu.3_Missense_Mutation_p.T198S	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	1446					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		ATTTTATCAACTTCTTATCAG	0.338													14	144					0	0	1	0	0		G	79770525	G	G	79770525	3	3	151	1	0	0	0	0	1	0	0	0	17689	565	20	5	4399	5	ZFYVE16	5	79770525	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	675164	79770525	101144735	1357	78522											
MSH3	4437	broad.mit.edu	37	chr5	80109433	80109433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagagtaatgataattaccGgaccaaacatgggtggaaag	17	7	12	5	1	0	2	0	1	0	1	0	5	0	4	2	3	2	1	2	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:80109433G>A	uc003kgz.2	+	20	2939	c.2686G>A	c.(2686-2688)GGA>AGA	p.G896R		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	896	ATP (Potential).				maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		GATAATTACCGGACCAAACAT	0.373								MMR					40	135					0	0	1	0	0		A	80109433	A	A	80109433	3	1	151	1	0	0	0	0	1	0	0	0	9889	1117	39	1	2764	1	MSH3	5	80109433	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	338908	80109433	100805827	1358	78523											
MSH3	4437	broad.mit.edu	37	chr5	80160751	80160751	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcagtgaggatgaaagcaaActggatccaggtatgaaata	16	8	12	5	0	1	3	1	3	0	0	2	5	2	5	1	3	2	2	1	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:80160751A>G	uc003kgz.2	+	22	3373	c.3120A>G	c.(3118-3120)AAA>AAG	p.K1040K		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	1040					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		ATGAAAGCAAACTGGATCCAG	0.378								MMR					5	152					0	0	1	0	0		G	80160751	G	G	80160751	2	3	151	1	0	0	0	0	0	0	0	1	9889	40	2	3		3	MSH3	5	80160751	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	51318	80160751	100754509	1359	78524											
RASGRF2	5924	broad.mit.edu	37	chr5	80503095	80503095	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggccgaatgctttgagTccttgtcggccatggagctg	7	11	14	9	2	0	2	0	2	0	0	2	4	1	3	3	3	2	2	3	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:80503095T>A	uc003kha.1	+	21	2998	c.2998T>A	c.(2998-3000)TCC>ACC	p.S1000T	RNU5E_uc011cto.1_Intron|RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	1000					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		ATGCTTTGAGTCCTTGTCGGC	0.557													10	67					0	0	1	0	0		A	80503095	A	A	80503095	3	1	151	1	0	0	0	0	1	0	0	0	13098	1667	58	5	3080	5	RASGRF2	5	80503095	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	342344	80503095	100412165	1360	78525											
ZCCHC9	84240	broad.mit.edu	37	chr5	80607037	80607037	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctctttcaataggtggcggTtgcaaactttgtggctctgt	6	15	12	8	1	3	0	1	0	2	0	3	0	3	0	0	4	2	4	0	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:80607037T>A	uc003khj.2	+	5	769	c.636T>A	c.(634-636)GGT>GGA	p.G212G	RNU5E_uc011cto.1_Intron|ZCCHC9_uc003khk.3_Silent_p.G212G|ZCCHC9_uc003khi.2_Silent_p.G212G	NM_001131035	NP_001124507	Q8N567	ZCHC9_HUMAN	zinc finger, CCHC domain containing 9	212	CCHC-type 4.						nucleic acid binding|zinc ion binding			ovary(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;8.18e-45)|Epithelial(54;2.72e-39)|all cancers(79;7.33e-34)		TAGGTGGCGGTTGCAAACTTT	0.294													92	486					0	0	1	0	0		A	80607037	A	A	80607037	2	1	151	1	0	0	0	0	0	0	0	1	17620	1712	60	5		5	ZCCHC9	5	80607037	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	103942	80607037	100308223	1361	78526											
VCAN	1462	broad.mit.edu	37	chr5	82816822	82816822	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaagtcaactttgagagaTtctacaactgaagaaaaagt	19	9	8	5	0	2	4	1	2	1	2	2	6	2	4	0	0	3	0	0	0	8	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:82816822T>C	uc003kii.3	+	7	3053	c.2697T>C	c.(2695-2697)GAT>GAC	p.D899D	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Silent_p.D899D|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	899	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CTTTGAGAGATTCTACAACTG	0.413													7	275					0	0	1	0	0		C	82816822	C	C	82816822	2	2	151	1	0	0	0	0	0	0	0	1	17164	1490	52	3		3	VCAN	5	82816822	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2209785	82816822	98098438	1362	78527											
VCAN	1462	broad.mit.edu	37	chr5	82817461	82817461	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtgctgtaactgagcaCaaagtgaaaacagatgaagt	16	7	11	7	0	0	4	0	3	0	1	0	4	0	4	1	1	4	3	1	1	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:82817461C>T	uc003kii.3	+	7	3692	c.3336C>T	c.(3334-3336)CAC>CAT	p.H1112H	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Silent_p.H1112H|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1112	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TAACTGAGCACAAAGTGAAAA	0.413													13	62					0	0	1	0	0		T	82817461	T	T	82817461	2	4	151	1	0	0	0	0	0	0	0	1	17164	477	17	4		4	VCAN	5	82817461	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	639	82817461	98097799	1363	78528											
VCAN	1462	broad.mit.edu	37	chr5	82832848	82832848	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaatgagtgatttgagtgtAattggtcatccaatagattc	12	14	10	5	1	1	4	1	3	0	1	3	5	2	4	1	1	0	1	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:82832848A>G	uc003kii.3	+	8	4382	c.4026A>G	c.(4024-4026)GTA>GTG	p.V1342V	VCAN_uc003kij.3_Silent_p.V355V|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Silent_p.V6V	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1342	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ATTTGAGTGTAATTGGTCATC	0.348													16	94					0	0	1	0	0		G	82832848	G	G	82832848	2	3	151	1	0	0	0	0	0	0	0	1	17164	349	13	3		3	VCAN	5	82832848	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	15387	82832848	98082412	1364	78529											
VCAN	1462	broad.mit.edu	37	chr5	82835440	82835440	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgaaaagtcacattttttCttagctactgcattagtaac	13	15	5	8	0	2	1	1	1	1	0	2	1	2	1	0	0	4	3	0	0	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:82835440C>T	uc003kii.3	+	8	6974	c.6618C>T	c.(6616-6618)TTC>TTT	p.F2206F	VCAN_uc003kij.3_Silent_p.F1219F|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Silent_p.F870F	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2206	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CACATTTTTTCTTAGCTACTG	0.373													46	192					0	0	1	0	0		T	82835440	T	T	82835440	2	4	151	1	0	0	0	0	0	0	0	1	17164	912	32	4		4	VCAN	5	82835440	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2592	82835440	98079820	1365	78530											
EDIL3	10085	broad.mit.edu	37	chr5	83360623	83360623	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatggggggtgtgaaagagTtagcatatggagtgttgtta	10	14	16	1	0	0	2	0	1	0	1	0	3	0	3	0	4	1	4	0	4	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:83360623T>C	uc003kio.1	-	8	1267	c.848A>G	c.(847-849)AAC>AGC	p.N283S	EDIL3_uc003kip.1_Missense_Mutation_p.N273S|EDIL3_uc011ctt.1_Missense_Mutation_p.N60S	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like	283	F5/8 type C 1.				cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)		TGTGAAAGAGTTAGCATATGG	0.373													40	116					0	0	1	0	0		C	83360623	C	C	83360623	3	2	151	1	0	0	0	0	1	0	0	0	4921	1725	60	3	610	3	EDIL3	5	83360623	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	525183	83360623	97554637	1366	78531											
TMEM161B	153396	broad.mit.edu	37	chr5	87536644	87536644	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttacctgccattacagagTagccatcgagcaagagaata	14	8	8	11	1	0	2	0	0	0	2	1	4	0	2	4	0	5	2	4	0	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:87536644T>C	uc003kjc.2	-	2	218	c.93A>G	c.(91-93)CTA>CTG	p.L31L	TMEM161B_uc011cty.1_Silent_p.L20L|TMEM161B_uc010jax.2_RNA|TMEM161B_uc011ctz.1_Intron	NM_153354	NP_699185	Q8NDZ6	T161B_HUMAN	transmembrane protein 161B	31						integral to membrane				skin(2)	2		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)		CATTACAGAGTAGCCATCGAG	0.398													19	131					0	0	1	0	0		C	87536644	C	C	87536644	2	2	151	1	0	0	0	0	0	0	0	1	16102	1625	57	3		3	TMEM161B	5	87536644	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4176021	87536644	93378616	1367	78532											
GPR98	84059	broad.mit.edu	37	chr5	89949384	89949384	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggatgctttgtactttacCggactagagggtgcatttgg	8	13	13	7	2	0	1	0	0	0	1	0	3	0	3	1	4	4	3	1	4	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:89949384C>T	uc003kju.2	+	20	4089	c.3993C>T	c.(3991-3993)ACC>ACT	p.T1331T	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1331	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TGTACTTTACCGGACTAGAGG	0.443													15	50					0	0	1	0	0		T	89949384	T	T	89949384	2	4	151	1	0	0	0	0	0	0	0	1	6737	639	23	1		1	GPR98	5	89949384	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2412740	89949384	90965876	1368	78533											
MCTP1	79772	broad.mit.edu	37	chr5	94288931	94288931	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaatggctcacctttatatAcaatggctccctaagatgat	13	13	6	9	0	1	2	1	1	0	1	2	2	2	2	2	2	1	2	2	2	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:94288931A>G	uc003kkx.2	-	3	973	c.973T>C	c.(973-975)TAT>CAT	p.Y325H	MCTP1_uc003kkv.2_Missense_Mutation_p.Y104H|MCTP1_uc003kkw.2_Missense_Mutation_p.Y104H|MCTP1_uc003kkz.2_5'UTR	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L	325	C2 1.				calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		ACCTTTATATACAATGGCTCC	0.353													23	44					0	0	1	0	0		G	94288931	G	G	94288931	3	3	151	1	0	0	0	0	1	0	0	0	9418	391	14	3	2110	3	MCTP1	5	94288931	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4339547	94288931	86626329	1369	78534											
TTC37	9652	broad.mit.edu	37	chr5	94859446	94859446	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaggctttcctataacaTccacgagctctgtttttatc	10	15	5	11	1	2	0	1	0	1	0	5	1	4	0	2	1	2	3	2	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:94859446T>C	uc003klb.2	-	17	1815	c.1545A>G	c.(1543-1545)GGA>GGG	p.G515G	TTC37_uc010jbf.1_Silent_p.G467G	NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	515	TPR 8.						binding			ovary(3)|pancreas(1)	4						TCCTATAACATCCACGAGCTC	0.393													40	115					0	0	1	0	0		C	94859446	C	C	94859446	2	2	151	1	0	0	0	0	0	0	0	1	16731	1422	50	3		3	TTC37	5	94859446	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	570515	94859446	86055814	1370	78535											
ARSK	153642	broad.mit.edu	37	chr5	94927320	94927320	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcttgtggatatttaccctAccatgcttggtaagtaatgt	9	16	8	8	0	1	0	0	0	1	0	1	1	1	1	2	2	3	3	2	2	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:94927320A>G	uc003kld.2	+	6	1245	c.1087A>G	c.(1087-1089)ACC>GCC	p.T363A	ARSK_uc010jbg.2_Missense_Mutation_p.T204A|ARSK_uc011cum.1_RNA	NM_198150	NP_937793	Q6UWY0	ARSK_HUMAN	arylsulfatase K precursor	363						extracellular region	arylsulfatase activity|metal ion binding			pancreas(1)	1		all_cancers(142;3.38e-06)|all_epithelial(76;6.57e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.00473)		all cancers(79;6.5e-16)		TATTTACCCTACCATGCTTGG	0.398													47	220					0	0	1	0	0		G	94927320	G	G	94927320	3	3	151	1	0	0	0	0	1	0	0	0	997	391	14	3	1109	3	ARSK	5	94927320	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	67874	94927320	85987940	1371	78536											
ELL2	22936	broad.mit.edu	37	chr5	95249473	95249473	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaaagatatctatacaaAcctacatatggtccaccggg	16	8	8	9	1	1	2	0	0	1	2	2	3	2	2	3	2	3	0	3	2	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:95249473A>G	uc003klr.3	-	4	831	c.481_splice	c.e4+1	p.G161_splice		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2						regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		ATCTATACAAACCTACATATG	0.398													35	156					0	0	1	0	0		G	95249473	G	G	95249473	5	3	151	1	0	0	0	0	0	0	1	0	5071	57	2	3	1475	3	ELL2	5	95249473	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	322153	95249473	85665787	1372	78537											
LNPEP	4012	broad.mit.edu	37	chr5	96315402	96315402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgacattcaggggttctGtgacaatttcagttcaggct	9	13	11	8	1	4	2	3	2	1	0	4	3	4	2	0	3	0	3	0	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:96315402G>A	uc003kmv.1	+	2	1094	c.580G>A	c.(580-582)GTG>ATG	p.V194M	LNPEP_uc003kmw.1_Missense_Mutation_p.V180M	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1	194	Extracellular (Potential).				cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		CAGGGGTTCTGTGACAATTTC	0.463													48	162					0	0	1	0	0		A	96315402	A	A	96315402	3	1	151	1	0	0	0	0	1	0	0	0	8881	1377	48	4	586	4	LNPEP	5	96315402	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1065929	96315402	84599858	1373	78538											
LNPEP	4012	broad.mit.edu	37	chr5	96315595	96315595	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctagcagggcacaattataCgttgaagatagagtactcgg	13	10	11	7	2	1	3	0	1	1	2	2	3	1	3	0	2	3	4	0	2	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:96315595C>T	uc003kmv.1	+	2	1287	c.773C>T	c.(772-774)ACG>ATG	p.T258M	LNPEP_uc003kmw.1_Missense_Mutation_p.T244M	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1	258	Extracellular (Potential).				cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		CACAATTATACGTTGAAGATA	0.418													16	105					0	0	1	0	0		T	96315595	T	T	96315595	3	4	151	1	0	0	0	0	1	0	0	0	8881	536	19	1	779	1	LNPEP	5	96315595	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	193	96315595	84599665	1374	78539											
CHD1	1105	broad.mit.edu	37	chr5	98209302	98209302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagtttaatgttacctgttCgttctgttcctgaagaacta	9	17	7	8	1	2	2	1	1	1	1	4	2	3	2	2	0	2	5	2	0	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:98209302C>T	uc003knf.2	-	25	3714	c.3566G>A	c.(3565-3567)CGA>CAA	p.R1189Q	CHD1_uc010jbn.2_5'UTR	NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	1189					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	GTTACCTGTTCGTTCTGTTCC	0.313													16	80					0	0	1	0	0		T	98209302	T	T	98209302	3	4	151	1	0	0	0	0	1	0	0	0	3326	884	31	1	1610	1	CHD1	5	98209302	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1893707	98209302	82705958	1375	78540											
PPIP5K2	23262	broad.mit.edu	37	chr5	102494895	102494895	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacacccattcttgttcaaAtggtgaaaagtgcaaatatg	14	13	7	7	0	2	1	1	1	1	0	2	1	2	1	1	1	2	2	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:102494895A>G	uc003kod.3	+	17	2302	c.1783A>G	c.(1783-1785)ATG>GTG	p.M595V	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.M595V	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	595					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						TCTTGTTCAAATGGTGAAAAG	0.353													24	165					0	0	1	0	0		G	102494895	G	G	102494895	3	3	151	1	0	0	0	0	1	0	0	0	12355	101	4	3	1845	3	PPIP5K2	5	102494895	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4285593	102494895	78420365	1376	78541											
MAN2A1	4124	broad.mit.edu	37	chr5	109181585	109181585	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcaacctagaatgacacTgagcaaattgcctcttcaag	14	10	7	10	0	3	3	2	2	1	1	3	4	3	3	2	0	3	1	2	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:109181585T>C	uc003kou.1	+	18	3683	c.2720T>C	c.(2719-2721)CTG>CCG	p.L907P		NM_002372	NP_002363	Q16706	MA2A1_HUMAN	mannosidase, alpha, class 2A, member 1	907	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(142;8.66e-07)|all_epithelial(76;7.73e-09)|Prostate(80;0.000303)|Lung NSC(167;0.0186)|all_lung(232;0.0241)|Ovarian(225;0.0444)|Colorectal(57;0.0959)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;2.17e-10)|Epithelial(69;1.37e-09)|COAD - Colon adenocarcinoma(37;0.141)		AGAATGACACTGAGCAAATTG	0.368													63	221					0	0	1	0	0		C	109181585	C	C	109181585	3	2	151	1	0	0	0	0	1	0	0	0	9232	1580	55	3	2790	3	MAN2A1	5	109181585	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6686690	109181585	71733675	1377	78542											
SLC25A46	91137	broad.mit.edu	37	chr5	110096994	110096994	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggagtgcctcatagcaaaCgacttcttccgcttctttcc	7	13	8	13	2	3	0	1	0	2	0	5	2	5	1	3	1	3	2	3	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:110096994C>T	uc003koz.2	+	8	836	c.769C>T	c.(769-771)CGA>TGA	p.R257*	SLC25A46_uc011cvi.1_Nonsense_Mutation_p.R166*	NM_138773	NP_620128	Q96AG3	S2546_HUMAN	solute carrier family 25, member 46	257					transport	integral to membrane|mitochondrial inner membrane					0		all_cancers(142;0.00203)|all_epithelial(76;4.52e-05)|Prostate(80;0.0115)|Colorectal(57;0.0676)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;2.58e-09)|Epithelial(69;7.29e-08)|all cancers(49;9.35e-06)|COAD - Colon adenocarcinoma(37;0.211)		TCATAGCAAACGACTTCTTCC	0.398													51	220					0	0	1	0	0		T	110096994	T	T	110096994	4	4	151	1	0	0	0	0	0	1	0	0	14536	528	19	1	799	1	SLC25A46	5	110096994	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	915409	110096994	70818266	1378	78543											
SLC25A46	91137	broad.mit.edu	37	chr5	110097241	110097241	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccattggaaacagttttgcAccgccttcacattcaaggaa	12	10	7	12	1	2	0	2	0	0	0	2	2	2	2	3	2	2	2	3	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:110097241A>G	uc003koz.2	+	8	1083	c.1016A>G	c.(1015-1017)CAC>CGC	p.H339R	SLC25A46_uc011cvi.1_Missense_Mutation_p.H248R	NM_138773	NP_620128	Q96AG3	S2546_HUMAN	solute carrier family 25, member 46	339	Solcar 2.				transport	integral to membrane|mitochondrial inner membrane					0		all_cancers(142;0.00203)|all_epithelial(76;4.52e-05)|Prostate(80;0.0115)|Colorectal(57;0.0676)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;2.58e-09)|Epithelial(69;7.29e-08)|all cancers(49;9.35e-06)|COAD - Colon adenocarcinoma(37;0.211)		ACAGTTTTGCACCGCCTTCAC	0.398													72	339					0	0	1	0	0		G	110097241	G	G	110097241	3	3	151	1	0	0	0	0	1	0	0	0	14536	159	6	3	1046	3	SLC25A46	5	110097241	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	247	110097241	70818019	1379	78544											
WDR36	134430	broad.mit.edu	37	chr5	110445992	110445992	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacatcgaggaagttttggCaaggatcaaggtagagaatt	15	10	12	4	1	1	1	1	0	0	1	2	5	1	3	0	4	1	3	0	4	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:110445992C>T	uc003kpd.2	+	13	1716	c.1599C>T	c.(1597-1599)GGC>GGT	p.G533G	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	533					response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		GAAGTTTTGGCAAGGATCAAG	0.358													33	122					0	0	1	0	0		T	110445992	T	T	110445992	2	4	151	1	0	0	0	0	0	0	0	1	17316	697	25	2		2	WDR36	5	110445992	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	348751	110445992	70469268	1380	78545											
WDR36	134430	broad.mit.edu	37	chr5	110462497	110462497	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataacaaatttgtcatcccaGgtggaagaaaactggaccca	16	8	8	9	0	1	1	1	0	0	1	2	3	2	3	2	3	2	0	2	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:110462497G>T	uc003kpd.2	+	23	2889	c.2772G>T	c.(2770-2772)CAG>CAT	p.Q924H	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	924					response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		TGTCATCCCAGGTGGAAGAAA	0.323													19	87					6.94344e-10	7.14333e-10	1	1	0		T	110462497	T	T	110462497	3	4	151	1	0	0	0	0	1	0	0	0	17316	991	35	5	2862	5	WDR36	5	110462497	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	16505	110462497	70452763	1381	78546											
APC	324	broad.mit.edu	37	chr5	112102935	112102935	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagtaaaactgcggtcaaaAatgtccctccgttcttatgg	11	11	10	9	2	2	0	1	0	1	0	4	1	4	1	2	3	2	2	2	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:112102935A>G	uc010jby.2	+	4	650	c.270A>G	c.(268-270)AAA>AAG	p.K90K	APC_uc011cvt.1_Silent_p.K100K|APC_uc003kpz.3_Silent_p.K90K|APC_uc003kpy.3_Silent_p.K90K|APC_uc010jbz.2_5'UTR	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	90	Leu-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity			large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGCGGTCAAAAATGTCCCTCC	0.403		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			16	85					0	0	1	0	0		G	112102935	G	G	112102935	2	3	151	1	0	0	0	0	0	0	0	1	763	11	1	3		3	APC	5	112102935	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1640438	112102935	68812325	1382	78547											
APC	324	broad.mit.edu	37	chr5	112176628	112176628	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttcaccagtaaaacctatAccacaaaatactgaatatag	19	9	3	10	0	1	1	1	1	0	0	1	1	1	1	3	0	3	1	3	0	10	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:112176628A>G	uc010jby.2	+	16	5717	c.5337A>G	c.(5335-5337)ATA>ATG	p.I1779M	APC_uc011cvt.1_Missense_Mutation_p.I1761M|APC_uc003kpz.3_Missense_Mutation_p.I1779M|APC_uc003kpy.3_Missense_Mutation_p.I1779M|APC_uc010jbz.2_Missense_Mutation_p.I1496M|APC_uc010jca.2_Missense_Mutation_p.I1079M	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1779	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.K1192fs*3(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TAAAACCTATACCACAAAATA	0.358		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			20	61					0	0	1	0	0		G	112176628	G	G	112176628	3	3	151	1	0	0	0	0	1	0	0	0	763	381	14	3	5395	3	APC	5	112176628	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	73693	112176628	68738632	1383	78548											
REEP5	7905	broad.mit.edu	37	chr5	112222733	112222733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctttagtgatggcatctgCagtctctttggccttgtctt	4	19	9	9	0	4	1	0	1	4	0	5	1	4	1	1	2	1	2	1	2	1	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:112222733C>T	uc003kqe.1	-	4	643	c.499G>A	c.(499-501)GCA>ACA	p.A167T	SRP19_uc011cvu.1_Intron|SRP19_uc011cvv.1_Intron|REEP5_uc011cvw.1_Missense_Mutation_p.A140T|REEP5_uc011cvx.1_RNA|REEP5_uc011cvy.1_Intron|REEP5_uc011cvz.1_RNA	NM_005669	NP_005660	Q00765	REEP5_HUMAN	receptor accessory protein 5	167						integral to membrane	protein binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		Epithelial(69;1.3e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.26e-08)|all cancers(49;3.56e-07)|Colorectal(14;0.00778)|COAD - Colon adenocarcinoma(37;0.013)		ATGGCATCTGCAGTCTCTTTG	0.502													22	122					0	0	1	0	0		T	112222733	T	T	112222733	3	4	151	1	0	0	0	0	1	0	0	0	13233	710	25	2	78	2	REEP5	5	112222733	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	46105	112222733	68692527	1384	78549											
YTHDC2	64848	broad.mit.edu	37	chr5	112915375	112915375	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttgatgagtggctccatTtcacactggagccagaggta	11	10	11	9	0	1	3	1	2	0	1	2	4	2	4	2	3	2	2	2	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:112915375T>C	uc003kqn.2	+	24	3520	c.3337T>C	c.(3337-3339)TTC>CTC	p.F1113L		NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	1113							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		GTGGCTCCATTTCACACTGGA	0.358													45	145					0	0	1	0	0		C	112915375	C	C	112915375	3	2	151	1	0	0	0	0	1	0	0	0	17523	1841	64	3	3431	3	YTHDC2	5	112915375	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	692642	112915375	67999885	1385	78550											
TRIM36	55521	broad.mit.edu	37	chr5	114469592	114469592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgaagaatcaattctctgCtgcaaggactacagattgaa	15	11	8	7	0	2	4	1	2	1	2	3	5	2	5	0	1	3	2	0	1	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:114469592C>T	uc003kqs.2	-	8	2008	c.1499G>A	c.(1498-1500)AGC>AAC	p.S500N	TRIM36_uc011cwc.1_Missense_Mutation_p.S488N|TRIM36_uc003kqt.2_Missense_Mutation_p.S345N	NM_018700	NP_061170	Q9NQ86	TRI36_HUMAN	tripartite motif-containing 36 isoform 1	500	Fibronectin type-III.					acrosomal vesicle|cytoskeleton	ligase activity|zinc ion binding			ovary(4)|lung(2)|breast(2)	8		all_cancers(142;0.00133)|all_epithelial(76;2.41e-05)|Prostate(80;0.00955)|Ovarian(225;0.0443)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;3.62e-08)|Epithelial(69;7.69e-08)|all cancers(49;9.33e-06)		CAATTCTCTGCTGCAAGGACT	0.373													24	136					0	0	1	0	0		T	114469592	T	T	114469592	3	4	151	1	0	0	0	0	1	0	0	0	16536	797	28	2	699	2	TRIM36	5	114469592	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1554217	114469592	66445668	1386	78551											
PGGT1B	5229	broad.mit.edu	37	chr5	114572137	114572137	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcatatccatgcctgaccAgttgttgagcatatagcaaa	12	13	7	9	0	1	2	1	2	0	0	2	2	2	2	3	0	3	4	3	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:114572137A>G	uc003kqw.3	-	5	583	c.562T>C	c.(562-564)TGG>CGG	p.W188R	PGGT1B_uc003kqx.3_Missense_Mutation_p.W65R|PGGT1B_uc010jch.2_Missense_Mutation_p.W188R	NM_005023	NP_005014	P53609	PGTB1_HUMAN	geranylgeranyltransferase type 1 beta	188					protein geranylgeranylation	CAAX-protein geranylgeranyltransferase complex	CAAX-protein geranylgeranyltransferase activity				0		all_cancers(142;0.000523)|all_epithelial(76;6.45e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		Epithelial(69;2.95e-08)|OV - Ovarian serous cystadenocarcinoma(64;4.98e-08)|all cancers(49;3.1e-06)	Pravastatin(DB00175)	ATGCCTGACCAGTTGTTGAGC	0.363													36	152					0	0	1	0	0		G	114572137	G	G	114572137	3	3	151	1	0	0	0	0	1	0	0	0	11808	188	7	3	591	3	PGGT1B	5	114572137	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	102545	114572137	66343123	1387	78552											
TMED7-TICAM2	100302736	broad.mit.edu	37	chr5	114916287	114916287	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccatatttcttgtctcttTccatatagtttgttgtgtct	6	22	5	8	0	3	0	0	0	3	0	5	0	4	0	2	0	1	2	2	0	4	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:114916287T>C	uc003krd.2	-	4	1673	c.667A>G	c.(667-669)AAA>GAA	p.K223E	TMED7-TICAM2_uc003kre.2_Missense_Mutation_p.K392E|TICAM2_uc003krc.2_Missense_Mutation_p.K223E	NM_021649	NP_067681	Q86XR7	TCAM2_HUMAN	toll-like receptor adaptor molecule 2	223	TIR.				I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	Golgi apparatus|intrinsic to membrane|plasma membrane	protein binding|transmembrane receptor activity				0						CTTGTCTCTTTCCATATAGTT	0.353													13	89					0	0	1	0	0		C	114916287	C	C	114916287	3	2	151	1	0	0	0	0	1	0	0	0	16035	1792	62	3		3	TMED7-TICAM2	5	114916287	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	344150	114916287	65998973	1388	78553											
TMED7-TICAM2	100302736	broad.mit.edu	37	chr5	114916505	114916505	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggacgtatagaactggaaaTtacaccaagtatctcttaaa	16	10	8	7	1	1	1	0	0	1	1	2	3	1	3	1	2	2	2	1	2	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:114916505T>C	uc003krd.2	-	4	1455	c.449A>G	c.(448-450)AAT>AGT	p.N150S	TMED7-TICAM2_uc003kre.2_Missense_Mutation_p.N319S|TICAM2_uc003krc.2_Missense_Mutation_p.N150S	NM_021649	NP_067681	Q86XR7	TCAM2_HUMAN	toll-like receptor adaptor molecule 2	150	TIR.				I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	Golgi apparatus|intrinsic to membrane|plasma membrane	protein binding|transmembrane receptor activity				0						GAACTGGAAATTACACCAAGT	0.413													33	104					0	0	1	0	0		C	114916505	C	C	114916505	3	2	151	1	0	0	0	0	1	0	0	0	16035	1493	52	3		3	TMED7-TICAM2	5	114916505	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	218	114916505	65998755	1389	78554											
SEMA6A	57556	broad.mit.edu	37	chr5	115813736	115813736	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacttcccatatcgttcacaCcggccaaggggaacctttat	10	10	7	14	2	1	0	1	0	0	0	3	1	2	1	4	3	1	1	4	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:115813736C>T	uc010jck.2	-	14	2251	c.1542G>A	c.(1540-1542)CGG>CGA	p.R514R	SEMA6A_uc003krx.3_Silent_p.R514R|SEMA6A_uc003krw.3_Silent_p.R46R|SEMA6A_uc010jcj.2_Silent_p.R58R	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	514	Extracellular (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		ATCGTTCACACCGGCCAAGGG	0.463													44	182					0	0	1	0	0		T	115813736	T	T	115813736	2	4	151	1	0	0	0	0	0	0	0	1	14064	494	18	4		4	SEMA6A	5	115813736	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	897231	115813736	65101524	1390	78555											
DMXL1	1657	broad.mit.edu	37	chr5	118485923	118485923	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagatgaagaaaatacaaaGcctagagttattgacctttc	17	10	7	7	0	0	5	0	2	0	3	1	5	0	5	2	0	2	1	2	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:118485923G>A	uc003ksd.2	+	18	4582	c.4401G>A	c.(4399-4401)AAG>AAA	p.K1467K	DMXL1_uc010jcl.1_Silent_p.K1467K	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1467										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		AAAATACAAAGCCTAGAGTTA	0.373													66	232					0	0	1	0	0		A	118485923	A	A	118485923	2	1	151	1	0	0	0	0	0	0	0	1	4600	962	34	2		2	DMXL1	5	118485923	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2672187	118485923	62429337	1391	78556											
CEP120	153241	broad.mit.edu	37	chr5	122717893	122717893	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccagttctttctgcttcAgctacaaaaggaagaaaaat	15	10	8	8	0	3	1	1	0	2	1	3	3	3	2	1	1	4	3	1	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:122717893A>G	uc003ktk.2	-	15	2097	c.2015T>C	c.(2014-2016)CTG>CCG	p.L672P	CEP120_uc011cwq.1_Missense_Mutation_p.L481P|CEP120_uc010jcz.1_Missense_Mutation_p.L646P	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	672	Potential.					centrosome				ovary(1)	1						TTTCTGCTTCAGCTACAAAAG	0.363													37	152					0	0	1	0	0		G	122717893	G	G	122717893	3	3	151	1	0	0	0	0	1	0	0	0	3249	202	7	3	973	3	CEP120	5	122717893	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4231970	122717893	58197367	1392	78557											
CEP120	153241	broad.mit.edu	37	chr5	122726848	122726848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagccacagacactcccaCagttggggctagctccacag	11	5	10	15	0	0	2	0	0	0	2	2	2	2	2	3	2	2	3	3	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:122726848C>T	uc003ktk.2	-	8	1076	c.994G>A	c.(994-996)GTG>ATG	p.V332M	CEP120_uc011cwq.1_Missense_Mutation_p.V141M|CEP120_uc010jcz.1_Missense_Mutation_p.V306M	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	332						centrosome				ovary(1)	1						GACACTCCCACAGTTGGGGCT	0.537													17	84					0	0	1	0	0		T	122726848	T	T	122726848	3	4	151	1	0	0	0	0	1	0	0	0	3249	478	17	4	2022	4	CEP120	5	122726848	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	8955	122726848	58188412	1393	78558											
CSNK1G3	1456	broad.mit.edu	37	chr5	122911547	122911547	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacattatagattttggttTggcaaaggaatatattgatc	13	16	8	4	0	1	2	1	1	0	1	2	3	1	3	0	3	0	2	0	3	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:122911547T>C	uc003ktm.2	+	6	1282	c.563T>C	c.(562-564)TTG>TCG	p.L188S	CSNK1G3_uc003ktl.2_Missense_Mutation_p.L188S|CSNK1G3_uc003ktn.2_Missense_Mutation_p.L188S|CSNK1G3_uc003kto.2_Missense_Mutation_p.L188S|CSNK1G3_uc011cwr.1_Missense_Mutation_p.L113S|CSNK1G3_uc011cws.1_Missense_Mutation_p.L75S|CSNK1G3_uc010jda.2_Missense_Mutation_p.L188S	NM_004384	NP_004375	Q9Y6M4	KC1G3_HUMAN	casein kinase 1, gamma 3 isoform 1	188	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0		all_cancers(142;0.0156)|Prostate(80;0.0322)|Lung NSC(810;0.245)	KIRC - Kidney renal clear cell carcinoma(527;0.165)|Kidney(363;0.229)	OV - Ovarian serous cystadenocarcinoma(64;0.000121)|Epithelial(69;0.000227)|all cancers(49;0.00176)		GATTTTGGTTTGGCAAAGGAA	0.363													38	117					0	0	1	0	0		C	122911547	C	C	122911547	3	2	151	1	0	0	0	0	1	0	0	0	3959	1821	63	3	581	3	CSNK1G3	5	122911547	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	184699	122911547	58003713	1394	78559											
LMNB1	4001	broad.mit.edu	37	chr5	126156662	126156662	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccgagcatcctcaagtcgTagtgtacgtacaactagagg	11	9	10	11	3	1	1	1	0	0	1	4	2	3	1	2	1	4	4	2	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:126156662T>C	uc003kud.1	+	7	1589	c.1221T>C	c.(1219-1221)CGT>CGC	p.R407R	LMNB1_uc010jdb.1_RNA|LMNB1_uc011cxb.1_Silent_p.R197R	NM_005573	NP_005564	P20700	LMNB1_HUMAN	lamin B1	407	Tail.				cellular component disassembly involved in apoptosis	lamin filament|nuclear inner membrane	protein binding|structural molecule activity			kidney(1)|central_nervous_system(1)	2		all_cancers(142;0.103)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.033)|OV - Ovarian serous cystadenocarcinoma(64;0.0398)|all cancers(49;0.0903)		CCTCAAGTCGTAGTGTACGTA	0.448													21	61					0	0	1	0	0		C	126156662	C	C	126156662	2	2	151	1	0	0	0	0	0	0	0	1	8866	1625	57	3		3	LMNB1	5	126156662	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3245115	126156662	54758598	1395	78560											
FBN2	2201	broad.mit.edu	37	chr5	127599336	127599336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaggcattgggattggagCattcattctcatctagtgaa	11	12	10	8	0	3	1	2	1	2	0	4	3	3	3	0	3	1	2	0	3	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:127599336C>T	uc003kuu.2	-	63	8412	c.7973G>A	c.(7972-7974)TGC>TAC	p.C2658Y		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	2658	EGF-like 46; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GGGATTGGAGCATTCATTCTC	0.512													9	53					0	0	1	0	0		T	127599336	T	T	127599336	3	4	151	1	0	0	0	0	1	0	0	0	5717	710	25	2	777	2	FBN2	5	127599336	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1442674	127599336	53315924	1396	78561											
FBN2	2201	broad.mit.edu	37	chr5	127647035	127647035	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgaggtagtagccttgtggGcactcacactggaagctccc	8	9	12	12	0	1	1	1	1	0	0	2	2	2	2	2	3	2	4	2	3	3	3	rs147452231	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:127647035G>A	uc003kuu.2	-	39	5470	c.5031C>T	c.(5029-5031)TGC>TGT	p.C1677C		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1677	EGF-like 27; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		AGCCTTGTGGGCACTCACACT	0.483													4	67					0	0	1	0	0		A	127647035	A	A	127647035	2	1	151	1	0	0	0	0	0	0	0	1	5717	1195	42	2		2	FBN2	5	127647035	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	47699	127647035	53268225	1397	78562											
ADAMTS19	171019	broad.mit.edu	37	chr5	128861990	128861990	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgcagataaaggaagaccTaggtctagaaaaatagcaga	18	7	11	5	0	1	4	0	0	1	4	1	5	1	5	1	2	2	3	1	2	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:128861990T>A	uc003kvb.1	+	4	909	c.909T>A	c.(907-909)CCT>CCA	p.P303P	ADAMTS19_uc003kvc.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	303					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		AAGGAAGACCTAGGTCTAGAA	0.343													9	72					0	0	1	0	0		A	128861990	A	A	128861990	2	1	151	1	0	0	0	0	0	0	0	1	264	1509	53	5		5	ADAMTS19	5	128861990	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1214955	128861990	52053270	1398	78563											
ADAMTS19	171019	broad.mit.edu	37	chr5	129015545	129015545	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggctggaactaccgttcaTtatgtaagacgaggcctctg	9	12	11	9	2	2	1	1	0	1	1	2	3	2	2	2	3	2	3	2	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:129015545T>G	uc003kvb.1	+	17	2577	c.2577T>G	c.(2575-2577)CAT>CAG	p.H859Q	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	859	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		CTACCGTTCATTATGTAAGAC	0.438													27	130					0	0	1	0	0		G	129015545	G	G	129015545	3	3	151	1	0	0	0	0	1	0	0	0	264	1490	52	5	2643	5	ADAMTS19	5	129015545	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	153555	129015545	51899715	1399	78564											
RAD50	10111	broad.mit.edu	37	chr5	131953957	131953957	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaacttgtgaacaaggaTctggatatttattataagac	16	12	8	5	0	1	3	0	1	1	2	1	5	1	5	0	2	2	0	0	2	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:131953957T>G	uc003kxi.2	+	21	3747	c.3360T>G	c.(3358-3360)GAT>GAG	p.D1120E	RAD50_uc003kxh.2_Missense_Mutation_p.D981E	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	1120					DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TGAACAAGGATCTGGATATTT	0.328								Homologous_recombination					28	104					0	0	1	0	0		G	131953957	G	G	131953957	3	3	151	1	0	0	0	0	1	0	0	0	13009	1432	50	5	3442	5	RAD50	5	131953957	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2938412	131953957	48961303	1400	78565											
KIF3A	11127	broad.mit.edu	37	chr5	132070038	132070038	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatcagtcttatgtacagTgatagttcccctcatctcat	11	14	6	10	0	4	2	3	1	2	1	6	2	5	2	2	0	1	2	2	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:132070038T>C	uc003kxo.2	-	2	293	c.139A>G	c.(139-141)ACT>GCT	p.T47A	KIF3A_uc003kxn.2_Missense_Mutation_p.T6A|KIF3A_uc011cxf.1_Missense_Mutation_p.T47A|KIF3A_uc003kxp.2_Missense_Mutation_p.T47A	NM_007054	NP_008985	Q9Y496	KIF3A_HUMAN	kinesin family member 3A	47	Kinesin-motor.				blood coagulation|organelle organization|plus-end-directed vesicle transport along microtubule	centrosome|cytosol|kinesin II complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|protein binding			pancreas(1)	1		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTATGTACAGTGATAGTTCCC	0.398													89	359					0	0	1	0	0		C	132070038	C	C	132070038	3	2	151	1	0	0	0	0	1	0	0	0	8316	1696	59	3	2024	3	KIF3A	5	132070038	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	116081	132070038	48845222	1401	78566											
SHROOM1	134549	broad.mit.edu	37	chr5	132158969	132158969	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggtcgctgtctgaggcCgcccgggccagggcgcggcg	3	5	19	14	6	2	1	1	1	1	0	3	1	2	1	3	5	0	1	3	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:132158969C>T	uc003kxx.2	-	9	3004	c.2199G>A	c.(2197-2199)GCG>GCA	p.A733A	SHROOM1_uc003kxy.1_Silent_p.A733A	NM_133456	NP_597713	Q2M3G4	SHRM1_HUMAN	shroom family member 1	733	ASD2.				actin filament bundle assembly|cell morphogenesis	cytoplasm|microtubule	actin filament binding			pancreas(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TGTCTGAGGCCGCCCGGGCCA	0.682													7	27					0	0	1	0	0		T	132158969	T	T	132158969	2	4	151	1	0	0	0	0	0	0	0	1	14318	639	23	1		1	SHROOM1	5	132158969	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	88931	132158969	48756291	1402	78567											
AFF4	27125	broad.mit.edu	37	chr5	132220768	132220768	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cataataaaattttacctacCttcccaagccaggcgatggt	13	11	6	11	1	0	0	0	0	0	0	1	1	1	0	4	2	3	0	4	2	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:132220768C>A	uc003kyd.2	-	19	3551	c.3143G>T	c.(3142-3144)AGC>ATC	p.S1048I	AFF4_uc011cxk.1_Missense_Mutation_p.S726I	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	1048					transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTTTACCTACCTTCCCAAGCC	0.299													5	32					0.014758	0.0148262	1	1	0		A	132220768	A	A	132220768	3	1	151	1	0	0	0	0	1	0	0	0	359	695	24	5	360	5	AFF4	5	132220768	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	61799	132220768	48694492	1403	78568											
HSPA4	3308	broad.mit.edu	37	chr5	132424147	132424147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatagttggtggtgctacacGaatccctgcggtaaaagaga	12	9	13	7	2	0	1	0	0	0	1	1	4	1	1	1	3	3	3	1	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:132424147G>A	uc003kyj.2	+	9	1318	c.1037G>A	c.(1036-1038)CGA>CAA	p.R346Q		NM_002154	NP_002145	P34932	HSP74_HUMAN	heat shock 70kDa protein 4	346					cellular chaperone-mediated protein complex assembly|protein import into mitochondrial outer membrane|response to unfolded protein	cytoplasm|nucleus	ATP binding			lung(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GGTGCTACACGAATCCCTGCG	0.348													22	65					0	0	1	0	0		A	132424147	A	A	132424147	3	1	151	1	0	0	0	0	1	0	0	0	7428	1058	37	1	1071	1	HSPA4	5	132424147	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	203379	132424147	48491113	1404	78569											
HSPA4	3308	broad.mit.edu	37	chr5	132428415	132428415	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcaagtggaccaggaggaAccacatgttgaagagcaaca	16	5	12	8	0	0	2	0	1	0	1	0	5	0	5	2	3	4	3	2	3	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:132428415A>G	uc003kyj.2	+	13	1865	c.1584A>G	c.(1582-1584)GAA>GAG	p.E528E		NM_002154	NP_002145	P34932	HSP74_HUMAN	heat shock 70kDa protein 4	528					cellular chaperone-mediated protein complex assembly|protein import into mitochondrial outer membrane|response to unfolded protein	cytoplasm|nucleus	ATP binding			lung(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ACCAGGAGGAACCACATGTTG	0.388													8	35					0	0	1	0	0		G	132428415	G	G	132428415	2	3	151	1	0	0	0	0	0	0	0	1	7428	40	2	3		3	HSPA4	5	132428415	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4268	132428415	48486845	1405	78570											
FSTL4	23105	broad.mit.edu	37	chr5	132535212	132535212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcagctgcagcactgaCtatgaagcgcccgtcggggg	7	7	15	12	3	1	2	1	2	0	0	2	2	1	2	1	2	4	4	1	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:132535212C>T	uc003kyn.1	-	16	2322	c.2104G>A	c.(2104-2106)GTC>ATC	p.V702I	FSTL4_uc003kym.1_Missense_Mutation_p.V351I	NM_015082	NP_055897	Q6MZW2	FSTL4_HUMAN	follistatin-like 4 precursor	702						extracellular region	calcium ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(142;0.244)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GCAGCACTGACTATGAAGCGC	0.592													12	62					0	0	1	0	0		T	132535212	T	T	132535212	3	4	151	1	0	0	0	0	1	0	0	0	6093	565	20	4	428	4	FSTL4	5	132535212	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	106797	132535212	48380048	1406	78571											
TCF7	6932	broad.mit.edu	37	chr5	133473800	133473800	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccaactctctctctacgaAcatttcaacagcccacatcc	11	9	2	19	1	3	0	1	0	2	0	6	1	4	0	4	0	5	0	4	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:133473800A>G	uc003kyt.2	+	4	688	c.492A>G	c.(490-492)GAA>GAG	p.E164E	TCF7_uc003kyu.1_Silent_p.E49E|TCF7_uc003kyv.2_Silent_p.E49E|TCF7_uc003kyw.2_Silent_p.E49E|TCF7_uc003kyx.2_5'UTR|TCF7_uc003kyy.2_Silent_p.E49E|TCF7_uc003kyz.2_Silent_p.E49E|TCF7_uc003kza.2_Silent_p.E49E	NM_003202	NP_003193	P36402	TCF7_HUMAN	transcription factor 7 (T-cell specific,	164					cellular response to interleukin-4|immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription regulatory region DNA binding				0		Breast(839;0.058)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CTCTCTACGAACATTTCAACA	0.587													11	60					0	0	1	0	0		G	133473800	G	G	133473800	2	3	151	1	0	0	0	0	0	0	0	1	15721	40	2	3		3	TCF7	5	133473800	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	938588	133473800	47441460	1407	78572											
PPP2CA	5515	broad.mit.edu	37	chr5	133536726	133536726	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctctgatatgatccagtgTatctatagatggcgagagac	11	12	11	7	1	2	4	0	2	2	2	3	6	3	4	1	1	1	2	1	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:133536726T>C	uc003kze.2	-	4	924	c.526A>G	c.(526-528)ACA>GCA	p.T176A		NM_002715	NP_002706	P67775	PP2AA_HUMAN	protein phosphatase 2, catalytic subunit, alpha	176					ceramide metabolic process|inactivation of MAPK activity|induction of apoptosis|meiosis|negative regulation of cell growth|negative regulation of epithelial to mesenchymal transition|negative regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of protein serine/threonine kinase activity|protein dephosphorylation|regulation of cell adhesion|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction|spindle pole	metal ion binding|phosphoprotein phosphatase activity			ovary(2)|lung(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Vitamin E(DB00163)	TGATCCAGTGTATCTATAGAT	0.353													25	95					0	0	1	0	0		C	133536726	C	C	133536726	3	2	151	1	0	0	0	0	1	0	0	0	12402	1638	57	3	419	3	PPP2CA	5	133536726	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	62926	133536726	47378534	1408	78573											
PPP2CA	5515	broad.mit.edu	37	chr5	133561534	133561534	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactggtccagctccttggTgaacaccttctcgtccatga	7	11	8	15	1	1	2	0	2	1	0	5	2	4	2	5	2	2	1	5	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:133561534T>C	uc003kze.2	-	1	417	c.19A>G	c.(19-21)ACC>GCC	p.T7A	CDKL3_uc011cxm.1_Intron|CDKL3_uc011cxn.1_Intron	NM_002715	NP_002706	P67775	PP2AA_HUMAN	protein phosphatase 2, catalytic subunit, alpha	7					ceramide metabolic process|inactivation of MAPK activity|induction of apoptosis|meiosis|negative regulation of cell growth|negative regulation of epithelial to mesenchymal transition|negative regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of protein serine/threonine kinase activity|protein dephosphorylation|regulation of cell adhesion|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction|spindle pole	metal ion binding|phosphoprotein phosphatase activity			ovary(2)|lung(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Vitamin E(DB00163)	AGCTCCTTGGTGAACACCTTC	0.677													5	29					0	0	1	0	0		C	133561534	C	C	133561534	3	2	151	1	0	0	0	0	1	0	0	0	12402	1696	59	3	938	3	PPP2CA	5	133561534	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	24808	133561534	47353726	1409	78574											
SEC24A	10802	broad.mit.edu	37	chr5	133997278	133997278	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatagcttcataaagtcaggTagtattcttatagaagtgct	14	14	8	5	0	3	1	2	0	1	1	3	1	3	1	0	1	2	4	0	1	9	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:133997278T>C	uc003kzs.2	+	2	853	c.565_splice	c.e2+2	p.G189_splice	SEC24A_uc011cxu.1_Splice_Site	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A						COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TAAAGTCAGGTAGTATTCTTA	0.303													16	57					0	0	1	0	0		C	133997278	C	C	133997278	5	2	151	1	0	0	0	0	0	0	1	0	14019	1652	57	3	573	3	SEC24A	5	133997278	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	435744	133997278	46917982	1410	78575											
SEC24A	10802	broad.mit.edu	37	chr5	134044487	134044487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgactccctttcagcttaccGttcttcagtcttaagtaacc	8	15	5	13	1	4	1	2	1	2	0	5	1	5	1	3	0	3	3	3	0	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:134044487G>A	uc003kzs.2	+	18	2924	c.2636G>A	c.(2635-2637)CGT>CAT	p.R879H	SEC24A_uc011cxu.1_Missense_Mutation_p.R643H	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A	879					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCAGCTTACCGTTCTTCAGTC	0.468													38	171					0	0	1	0	0		A	134044487	A	A	134044487	3	1	151	1	0	0	0	0	1	0	0	0	14019	1145	40	1	2706	1	SEC24A	5	134044487	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	47209	134044487	46870773	1411	78576											
DDX46	9879	broad.mit.edu	37	chr5	134109545	134109545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaagtggagtttagaggacGatgatggtatattttttagc	13	14	12	2	1	0	2	0	1	0	1	0	5	0	4	0	3	1	2	0	3	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:134109545G>A	uc003kzw.2	+	5	775	c.607G>A	c.(607-609)GAT>AAT	p.D203N	DDX46_uc003kzv.1_RNA	NM_014829	NP_055644	Q7L014	DDX46_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46	203	Poly-Asp.				mRNA processing|RNA splicing	Cajal body|nuclear speck	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TTTAGAGGACGATGATGGTAT	0.318													14	67					0	0	1	0	0		A	134109545	A	A	134109545	3	1	151	1	0	0	0	0	1	0	0	0	4367	1058	37	1	625	1	DDX46	5	134109545	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	65058	134109545	46805715	1412	78577											
KLHL3	26249	broad.mit.edu	37	chr5	137056206	137056206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatgtgggcagggttgaCagtgatcgtcctctggttct	5	12	13	11	1	2	2	0	2	2	0	4	2	3	2	3	3	0	3	3	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:137056206C>T	uc010jek.2	-	2	526	c.82G>A	c.(82-84)GTC>ATC	p.V28I	MYOT_uc011cye.1_Intron|KLHL3_uc010jem.1_Intron	NM_017415	NP_059111	Q9UH77	KLHL3_HUMAN	kelch-like 3	28						cytoplasm|cytoskeleton	actin binding|structural molecule activity				0		all_hematologic(541;3.67e-07)|Breast(839;7.61e-05)|Prostate(281;0.000825)|Ovarian(839;0.0481)|all_lung(232;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	GBM - Glioblastoma multiforme(465;0.0223)		GCAGGGTTGACAGTGATCGTC	0.502													24	104					0	0	1	0	0		T	137056206	T	T	137056206	3	4	151	1	0	0	0	0	1	0	0	0	8399	478	17	4	1737	4	KLHL3	5	137056206	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2946661	137056206	43859054	1413	78578											
PKD2L2	27039	broad.mit.edu	37	chr5	137271556	137271556	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagtattattctatggaaaTtcaagatgactaccagcctg	15	12	7	7	0	2	2	1	1	1	1	2	3	2	3	2	1	2	1	2	1	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:137271556T>A	uc003lby.2	+	13	1798	c.1742T>A	c.(1741-1743)ATT>AAT	p.I581N	PKD2L2_uc003lbw.1_Missense_Mutation_p.I581N|PKD2L2_uc003lbx.2_Missense_Mutation_p.I480N|PKD2L2_uc011cyi.1_Missense_Mutation_p.I189N	NM_014386	NP_055201	Q9NZM6	PK2L2_HUMAN	polycystic kidney disease 2-like 2	581	Cytoplasmic (Potential).					integral to membrane	calcium ion binding|ion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TCTATGGAAATTCAAGATGAC	0.398													14	78					0	0	1	0	0		A	137271556	A	A	137271556	3	1	151	1	0	0	0	0	1	0	0	0	11987	1493	52	5	1792	5	PKD2L2	5	137271556	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	215350	137271556	43643704	1414	78579											
NME5	8382	broad.mit.edu	37	chr5	137454576	137454576	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagttggcattatatgtaaAtttaaatagtccttagcagc	14	14	8	5	0	0	1	0	0	0	1	1	1	1	1	1	1	2	4	1	1	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:137454576A>C	uc003lce.2	-	5	564	c.486T>G	c.(484-486)AAT>AAG	p.N162K	BRD8_uc003lcc.1_Intron	NM_003551	NP_003542	P56597	NDK5_HUMAN	non-metastatic cells 5, protein expressed in	162					anti-apoptosis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatid development|UTP biosynthetic process		ATP binding|nucleoside diphosphate kinase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TTATATGTAAATTTAAATAGT	0.328													13	64					0	0	1	0	0		C	137454576	C	C	137454576	3	2	151	1	0	0	0	0	1	0	0	0	10513	98	4	5	160	5	NME5	5	137454576	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	183020	137454576	43460684	1415	78580											
CDC23	8697	broad.mit.edu	37	chr5	137533902	137533902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttaccaattacacagcacGtttctacacgatatttatca	13	14	3	11	2	3	0	1	0	2	0	3	1	3	0	1	0	4	2	1	0	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:137533902G>A	uc003lcl.2	-	9	1029	c.998C>T	c.(997-999)ACG>ATG	p.T333M		NM_004661	NP_004652	Q9UJX2	CDC23_HUMAN	cell division cycle protein 23	333	TPR 5.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1 phase of mitotic cell cycle|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase plate congression|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of exit from mitosis	anaphase-promoting complex|cytosol|nucleoplasm	binding|ubiquitin-protein ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TACACAGCACGTTTCTACACG	0.264													38	137					0	0	1	0	0		A	137533902	A	A	137533902	3	1	151	1	0	0	0	0	1	0	0	0	3064	1145	40	1	827	1	CDC23	5	137533902	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	79326	137533902	43381358	1416	78581											
KDM3B	51780	broad.mit.edu	37	chr5	137727078	137727078	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taagccaggctctaaggctgGcagctctgtggaccggaaag	10	7	14	10	1	2	0	0	0	2	0	2	2	2	2	2	5	2	4	2	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:137727078G>T	uc003lcy.1	+	8	1957	c.1757G>T	c.(1756-1758)GGC>GTC	p.G586V	KDM3B_uc010jew.1_Missense_Mutation_p.G242V|KDM3B_uc011cys.1_Intron	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	586					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						TCTAAGGCTGGCAGCTCTGTG	0.557													22	76					6.32553e-13	6.55856e-13	1	1	0		T	137727078	T	T	137727078	3	4	151	1	0	0	0	0	1	0	0	0	8143	1203	42	5	1787	5	KDM3B	5	137727078	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	193176	137727078	43188182	1417	78582											
CTNNA1	1495	broad.mit.edu	37	chr5	138269585	138269585	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacgtcgcctctaccaaatAccaaaagtcacagggtatgg	13	8	8	12	2	2	0	1	0	1	0	3	0	2	0	3	2	3	1	3	2	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:138269585A>G	uc003ldh.2	+	18	2623	c.2528A>G	c.(2527-2529)TAC>TGC	p.Y843C	CTNNA1_uc011cyx.1_Missense_Mutation_p.Y740C|CTNNA1_uc011cyy.1_Missense_Mutation_p.Y720C|CTNNA1_uc003ldi.2_Missense_Mutation_p.Y541C|CTNNA1_uc003ldj.2_3'UTR|CTNNA1_uc003ldl.2_Missense_Mutation_p.Y473C	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	843					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TCTACCAAATACCAAAAGTCA	0.507													8	47					0	0	1	0	0		G	138269585	G	G	138269585	3	3	151	1	0	0	0	0	1	0	0	0	4015	391	14	3	2594	3	CTNNA1	5	138269585	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	542507	138269585	42645675	1418	78583											
SLC23A1	9963	broad.mit.edu	37	chr5	138714371	138714371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaatgccttcggtgaagatgCccctgtaaggaaagggagag	13	7	14	7	1	0	3	0	1	0	2	1	5	0	4	3	3	2	1	3	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:138714371C>T	uc003leh.2	-	10	1173	c.1076G>A	c.(1075-1077)GGC>GAC	p.G359D	SLC23A1_uc003leg.2_Missense_Mutation_p.G363D	NM_005847	NP_005838	Q9UHI7	S23A1_HUMAN	solute carrier family 23 (nucleobase	359	Helical; (Potential).				brain development|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|response to toxin|transepithelial L-ascorbic acid transport|water-soluble vitamin metabolic process	apical plasma membrane|cytoplasm|integral to plasma membrane|intracellular organelle|membrane fraction	dehydroascorbic acid transporter activity|L-ascorbate:sodium symporter activity|nucleobase transmembrane transporter activity|protein binding|sodium-dependent L-ascorbate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)		Vitamin C(DB00126)	GGTGAAGATGCCCCTGTAAGG	0.607													3	8					0	0	1	0	0		T	138714371	T	T	138714371	3	4	151	1	0	0	0	0	1	0	0	0	14487	739	26	2	740	2	SLC23A1	5	138714371	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	444786	138714371	42200889	1419	78584											
PSD2	84249	broad.mit.edu	37	chr5	139193808	139193808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agactctgagctcagcagctCggaggggttggagcctggta	8	8	16	9	1	2	2	1	1	1	1	3	4	2	4	1	5	4	5	1	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:139193808C>T	uc003leu.1	+	4	1080	c.875C>T	c.(874-876)TCG>TTG	p.S292L		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	292	SEC7.				regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCAGCAGCTCGGAGGGGTTG	0.632													22	123					0	0	1	0	0		T	139193808	T	T	139193808	3	4	151	1	0	0	0	0	1	0	0	0	12669	893	31	1	885	1	PSD2	5	139193808	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	479437	139193808	41721452	1420	78585											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139884751	139884751	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaacactagcttgtgcaggTggtcatgaagaacttgtatc	11	13	10	7	0	1	2	1	1	0	1	2	2	1	2	0	2	4	3	0	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:139884751T>C	uc003lfs.1	+	17	3319	c.3195T>C	c.(3193-3195)GGT>GGC	p.G1065G	ANKHD1_uc003lfq.1_Silent_p.G1084G|ANKHD1_uc003lfr.2_Silent_p.G1065G|ANKHD1_uc003lft.1_Silent_p.G276G|ANKHD1_uc003lfu.1_Silent_p.G545G|ANKHD1_uc003lfv.1_Silent_p.G142G	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1065						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTGTGCAGGTGGTCATGAAG	0.338													16	95					0	0	1	0	0		C	139884751	C	C	139884751	2	2	151	1	0	0	0	0	0	0	0	1	629	1683	59	3		3	ANKHD1-EIF4EBP3	5	139884751	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	690943	139884751	41030509	1421	78586											
SLC35A4	113829	broad.mit.edu	37	chr5	139947472	139947472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggtctgcatgctggcggcGgctctggcccaggcctcctg	3	9	15	14	2	2	0	0	0	2	0	3	0	3	0	3	6	2	3	3	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:139947472G>A	uc003lgg.1	+	3	1446	c.718G>A	c.(718-720)GGC>AGC	p.G240S	SLC35A4_uc003lgh.1_Missense_Mutation_p.G240S	NM_080670	NP_542401	Q96G79	S35A4_HUMAN	solute carrier family 35, member A4	240	Leu-rich.					Golgi membrane|integral to membrane	sugar:hydrogen symporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTGGCGGCGGCTCTGGCCC	0.572													17	61					0	0	1	0	0		A	139947472	A	A	139947472	3	1	151	1	0	0	0	0	1	0	0	0	14598	1116	39	1	720	1	SLC35A4	5	139947472	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	62721	139947472	40967788	1422	78587											
PCDHA4	56144	broad.mit.edu	37	chr5	140188651	140188651	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccgttccgcgtggggctgTacactggcgagatcagcaca	7	8	13	13	4	1	1	1	0	0	1	3	2	3	1	2	3	2	4	2	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140188651T>C	uc003lhi.2	+	1	1980	c.1879T>C	c.(1879-1881)TAC>CAC	p.Y627H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.Y627H|PCDHA4_uc011daa.1_Missense_Mutation_p.Y627H	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	627	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGGGGCTGTACACTGGCGA	0.687													12	46					0	0	1	0	0		C	140188651	C	C	140188651	3	2	151	1	0	0	0	0	1	0	0	0	11545	1638	57	3	1881	3	PCDHA4	5	140188651	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	241179	140188651	40726609	1423	78588											
PCDHA5	56143	broad.mit.edu	37	chr5	140203141	140203141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtggtggcgaaggtgcGcgcagtggaccctgattcgg	6	7	17	11	5	0	1	0	1	0	0	1	3	0	2	2	5	1	1	2	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140203141G>A	uc003lhl.2	+	1	1781	c.1781G>A	c.(1780-1782)CGC>CAC	p.R594H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.R594H|PCDHA5_uc003lhj.1_Missense_Mutation_p.R594H	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	594	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGAAGGTGCGCGCAGTGGAC	0.697													15	46					0	0	1	0	0		A	140203141	A	A	140203141	3	1	151	1	0	0	0	0	1	0	0	0	11546	1087	38	1	1783	1	PCDHA5	5	140203141	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	14490	140203141	40712119	1424	78589											
PCDHA5	56143	broad.mit.edu	37	chr5	140203465	140203465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caacgtgtacctgatcatcgCcatctgtgcggtgtccagcc	7	10	10	14	3	2	1	1	1	1	0	4	1	3	1	4	1	4	1	4	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140203465C>T	uc003lhl.2	+	1	2105	c.2105C>T	c.(2104-2106)GCC>GTC	p.A702V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.A702V|PCDHA5_uc003lhj.1_Missense_Mutation_p.A702V	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	702	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGATCATCGCCATCTGTGCG	0.692													8	63					0	0	1	0	0		T	140203465	T	T	140203465	3	4	151	1	0	0	0	0	1	0	0	0	11546	739	26	2	2107	2	PCDHA5	5	140203465	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	324	140203465	40711795	1425	78590											
PCDHA7	56141	broad.mit.edu	37	chr5	140214272	140214272	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcgggcggagcgcggagTgcagcatccacctggaggtg	6	6	19	10	4	0	0	0	0	0	0	1	3	1	3	2	5	4	2	2	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140214272T>C	uc003lhq.2	+	1	304	c.304T>C	c.(304-306)TGC>CGC	p.C102R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.C102R	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	102	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGCGCGGAGTGCAGCATCCA	0.562													29	340					0	0	1	0	0		C	140214272	C	C	140214272	3	2	151	1	0	0	0	0	1	0	0	0	11548	1696	59	3	306	3	PCDHA7	5	140214272	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10807	140214272	40700988	1426	78591											
PCDHA9	9752	broad.mit.edu	37	chr5	140228384	140228384	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcgggcggagcgcggagTgcagcatccacctggaggtg	6	6	19	10	4	0	0	0	0	0	0	1	3	1	3	2	5	4	2	2	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140228384T>C	uc003lhu.2	+	1	1028	c.304T>C	c.(304-306)TGC>CGC	p.C102R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.C102R	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	102	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGCGCGGAGTGCAGCATCCA	0.577													17	177					0	0	1	0	0		C	140228384	C	C	140228384	3	2	151	1	0	0	0	0	1	0	0	0	11550	1696	59	3	306	3	PCDHA9	5	140228384	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	14112	140228384	40686876	1427	78592											
PCDHA9	9752	broad.mit.edu	37	chr5	140229555	140229555	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagaacgccctggtgtcctActcgctggtggagcggcggt	5	8	17	11	4	0	1	0	0	0	1	2	3	1	2	2	6	3	1	2	6	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140229555A>G	uc003lhu.2	+	1	2199	c.1475A>G	c.(1474-1476)TAC>TGC	p.Y492C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.Y492C	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	492	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGTGTCCTACTCGCTGGTG	0.662													16	60					0	0	1	0	0		G	140229555	G	G	140229555	3	3	151	1	0	0	0	0	1	0	0	0	11550	391	14	3	1477	3	PCDHA9	5	140229555	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1171	140229555	40685705	1428	78593											
PCDHA9	9752	broad.mit.edu	37	chr5	140229744	140229744	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgacgctgcaggtgttcgTgctggacgagaacgacaatg	9	8	15	9	5	0	2	0	1	0	1	1	5	0	3	0	2	3	4	0	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140229744T>C	uc003lhu.2	+	1	2388	c.1664T>C	c.(1663-1665)GTG>GCG	p.V555A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.V555A	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	555	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGTGTTCGTGCTGGACGAG	0.692													15	69					0	0	1	0	0		C	140229744	C	C	140229744	3	2	151	1	0	0	0	0	1	0	0	0	11550	1696	59	3	1666	3	PCDHA9	5	140229744	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	189	140229744	40685516	1429	78594											
PCDHA9	9752	broad.mit.edu	37	chr5	140230117	140230117	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggcgccaaagtcatcGtcgcgggcgtcagtgggtgc	6	6	17	12	5	2	0	2	0	0	0	4	0	2	0	2	4	1	0	2	4	1	0	rs140380568	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140230117G>A	uc003lhu.2	+	1	2761	c.2037G>A	c.(2035-2037)TCG>TCA	p.S679S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Silent_p.S679S	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	679	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAAAGTCATCGTCGCGGGCGT	0.657													8	43					0	0	1	0	0		A	140230117	A	A	140230117	2	1	151	1	0	0	0	0	0	0	0	1	11550	1132	40	1		1	PCDHA9	5	140230117	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	373	140230117	40685143	1430	78595											
PCDHA10	56139	broad.mit.edu	37	chr5	140236179	140236179	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattttgttcttgatattatAaacaaaaaagacaaagacaa	20	13	4	4	0	1	3	0	1	1	2	1	3	1	3	0	0	1	1	0	0	10	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140236179A>T	uc003lhx.2	+	1	546	c.546A>T	c.(544-546)ATA>ATT	p.I182I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Silent_p.I182I|PCDHA10_uc011dad.1_Silent_p.I182I	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	182	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGATATTATAAACAAAAAAG	0.408													9	214					0	0	1	0	0		T	140236179	T	T	140236179	2	4	151	1	0	0	0	0	0	0	0	1	11539	352	13	5		5	PCDHA10	5	140236179	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6062	140236179	40679081	1431	78596											
PCDHA11	56138	broad.mit.edu	37	chr5	140249416	140249416	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacaatgatccagagtttgAtaaatcagaatataaggtga	17	10	9	5	1	1	5	1	3	0	2	2	6	2	5	1	1	0	1	1	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140249416A>T	uc003lia.2	+	1	1586	c.728A>T	c.(727-729)GAT>GTT	p.D243V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.D243V	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	243	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGAGTTTGATAAATCAGAA	0.458													5	26					0	0	1	0	0		T	140249416	T	T	140249416	3	4	151	1	0	0	0	0	1	0	0	0	11540	333	12	5	730	5	PCDHA11	5	140249416	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	13237	140249416	40665844	1432	78597											
PCDHA11	56138	broad.mit.edu	37	chr5	140250295	140250295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacagttccaggtgagcgCgcgcgatgcgggcgtgccgc	5	6	17	13	7	0	1	0	1	0	0	1	2	1	1	2	2	4	2	2	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140250295C>T	uc003lia.2	+	1	2465	c.1607C>T	c.(1606-1608)GCG>GTG	p.A536V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.A536V	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	536	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGTGAGCGCGCGCGATGCG	0.667													11	66					0	0	1	0	0		T	140250295	T	T	140250295	3	4	151	1	0	0	0	0	1	0	0	0	11540	768	27	1	1609	1	PCDHA11	5	140250295	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	879	140250295	40664965	1433	78598											
PCDHA13	56136	broad.mit.edu	37	chr5	140263420	140263420	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgtacgcgctgcagccgTtggaccacgaggagctggag	8	6	17	10	4	0	0	0	0	0	0	0	4	0	3	2	4	4	5	2	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140263420T>C	uc003lif.2	+	1	1567	c.1567T>C	c.(1567-1569)TTG>CTG	p.L523L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.L523L|PCDHA13_uc003lid.2_Silent_p.L523L	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	523	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGCAGCCGTTGGACCACGA	0.682													9	72					0	0	1	0	0		C	140263420	C	C	140263420	2	2	151	1	0	0	0	0	0	0	0	1	11542	1722	60	3		3	PCDHA13	5	140263420	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	13125	140263420	40651840	1434	78599											
PCDHA13	56136	broad.mit.edu	37	chr5	140263984	140263984	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgcgcggtgtccagcctgTtggtgctcacgttgctgctg	2	13	14	12	3	2	0	1	0	1	0	3	0	3	0	2	2	5	5	2	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140263984T>C	uc003lif.2	+	1	2131	c.2131T>C	c.(2131-2133)TTG>CTG	p.L711L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.L711L|PCDHA13_uc003lid.2_Silent_p.L711L	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	711	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTCCAGCCTGTTGGTGCTCAC	0.657													21	96					0	0	1	0	0		C	140263984	C	C	140263984	2	2	151	1	0	0	0	0	0	0	0	1	11542	1722	60	3		3	PCDHA13	5	140263984	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	564	140263984	40651276	1435	78600											
PCDHAC1	56135	broad.mit.edu	37	chr5	140306707	140306707	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagcggcaatttggtggTcagagagccggcggaccgcg	8	5	16	12	5	1	1	1	0	0	1	1	3	1	2	3	5	2	1	3	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140306707T>C	uc003lih.2	+	1	406	c.230T>C	c.(229-231)GTC>GCC	p.V77A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.V77A	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	77	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATTTGGTGGTCAGAGAGCCG	0.627													5	43					0	0	1	0	0		C	140306707	C	C	140306707	3	2	151	1	0	0	0	0	1	0	0	0	11551	1667	58	3	232	3	PCDHAC1	5	140306707	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	42723	140306707	40608553	1436	78601											
PCDHB5	26167	broad.mit.edu	37	chr5	140516540	140516540	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtctccatcaacgcggaCaacggccacctgtttgccct	7	9	9	16	3	2	0	1	0	1	0	3	1	2	1	4	3	3	1	4	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140516540C>T	uc003liq.2	+	1	1741	c.1524C>T	c.(1522-1524)GAC>GAT	p.D508D		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	508	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCAACGCGGACAACGGCCACC	0.677													12	79					0	0	1	0	0		T	140516540	T	T	140516540	2	4	151	1	0	0	0	0	0	0	0	1	11564	477	17	4		4	PCDHB5	5	140516540	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	209833	140516540	40398720	1437	78602											
PCDHB7	56129	broad.mit.edu	37	chr5	140554005	140554005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaggcgttcgagttccGcgtgggcgccacagaccgcg	5	6	15	15	7	0	1	0	0	0	1	2	2	1	1	4	2	1	3	4	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140554005G>A	uc003lit.2	+	1	1763	c.1589G>A	c.(1588-1590)CGC>CAC	p.R530H		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	530	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCGAGTTCCGCGTGGGCGCC	0.692													24	44					0	0	1	0	0		A	140554005	A	A	140554005	3	1	151	1	0	0	0	0	1	0	0	0	11566	1087	38	1	1591	1	PCDHB7	5	140554005	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	37465	140554005	40361255	1438	78603											
PCDHB8	56128	broad.mit.edu	37	chr5	140559306	140559306	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caactcgcccttcgtgctgtAcccgctgcagaatggctccg	6	9	10	16	4	0	1	0	0	0	1	3	1	1	1	3	1	4	5	3	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140559306A>G	uc011dai.1	+	1	1877	c.1691A>G	c.(1690-1692)TAC>TGC	p.Y564C	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	564	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCGTGCTGTACCCGCTGCAG	0.721													3	45					0	0	1	0	0		G	140559306	G	G	140559306	3	3	151	1	0	0	0	0	1	0	0	0	11567	391	14	3	1693	3	PCDHB8	5	140559306	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5301	140559306	40355954	1439	78604											
PCDHB16	57717	broad.mit.edu	37	chr5	140562720	140562720	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaataccctgagctagtgTtggataaagagctggatcgg	12	9	14	6	1	0	2	0	1	0	1	1	5	0	5	1	4	3	3	1	4	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140562720T>C	uc003liv.2	+	1	1741	c.586T>C	c.(586-588)TTG>CTG	p.L196L	PCDHB16_uc010jfw.1_Intron	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	196	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGAGCTAGTGTTGGATAAAGA	0.488													13	83					0	0	1	0	0		C	140562720	C	C	140562720	2	2	151	1	0	0	0	0	0	0	0	1	11560	1722	60	3		3	PCDHB16	5	140562720	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3414	140562720	40352540	1440	78605											
PCDHB16	57717	broad.mit.edu	37	chr5	140564077	140564077	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtgctggtcaaggacaatgGcgagcctccgcgctcggcca	7	6	15	13	4	1	0	1	0	0	0	3	2	2	1	3	5	2	2	3	5	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140564077G>C	uc003liv.2	+	1	3098	c.1943G>C	c.(1942-1944)GGC>GCC	p.G648A	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	648	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAGGACAATGGCGAGCCTCCG	0.711													7	17					0	0	1	0	0		C	140564077	C	C	140564077	3	2	151	1	0	0	0	0	1	0	0	0	11560	1203	42	5	1945	5	PCDHB16	5	140564077	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1357	140564077	40351183	1441	78606											
PCDHB9	56127	broad.mit.edu	37	chr5	140568285	140568285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcgtccgggagaacaacaGccccgccctgcacatcggca	9	5	11	16	4	0	1	0	0	0	1	3	2	1	1	4	2	4	3	4	2	2	1	rs17844522		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140568285G>A	uc003liw.1	+	3	1394	c.1394G>A	c.(1393-1395)AGC>AAC	p.S465N		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	465	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGAACAACAGCCCCGCCCTG	0.627													36	111					0	0	1	0	0		A	140568285	A	A	140568285	3	1	151	1	0	0	0	0	1	0	0	0	11568	971	34	2	1395	2	PCDHB9	5	140568285	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4208	140568285	40346975	1442	78607											
PCDHB9	56127	broad.mit.edu	37	chr5	140568579	140568579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caactcgcccttcgtgctgtAcccgctgcagaacggctccg	6	8	10	17	5	0	1	0	0	0	1	3	1	1	1	3	1	5	5	3	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140568579A>G	uc003liw.1	+	3	1688	c.1688A>G	c.(1687-1689)TAC>TGC	p.Y563C		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	563	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCGTGCTGTACCCGCTGCAG	0.726													4	43					0	0	1	0	0		G	140568579	G	G	140568579	3	3	151	1	0	0	0	0	1	0	0	0	11568	391	14	3	1689	3	PCDHB9	5	140568579	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	294	140568579	40346681	1443	78608											
PCDHB10	56126	broad.mit.edu	37	chr5	140573462	140573462	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtctccgacgtcaatgAcaacgcccccgccttcaccc	7	7	7	20	4	3	1	2	1	1	0	4	2	3	1	6	1	1	0	6	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140573462A>C	uc003lix.2	+	1	1511	c.1337A>C	c.(1336-1338)GAC>GCC	p.D446A		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	446	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GACGTCAATGACAACGCCCCC	0.587													21	75					0	0	1	0	0		C	140573462	C	C	140573462	3	2	151	1	0	0	0	0	1	0	0	0	11554	275	10	5	1339	5	PCDHB10	5	140573462	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4883	140573462	40341798	1444	78609											
PCDHB12	56124	broad.mit.edu	37	chr5	140590145	140590145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctggtgctggacgccaacGacaactcgcccttcgtgctg	6	9	12	14	4	0	0	0	0	0	0	2	2	0	1	2	2	5	3	2	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140590145G>A	uc003liz.2	+	1	1855	c.1666G>A	c.(1666-1668)GAC>AAC	p.D556N	PCDHB12_uc011dak.1_Missense_Mutation_p.D219N	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	556	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGACGCCAACGACAACTCGCC	0.711													13	27					0	0	1	0	0		A	140590145	A	A	140590145	3	1	151	1	0	0	0	0	1	0	0	0	11556	1058	37	1	1668	1	PCDHB12	5	140590145	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	16683	140590145	40325115	1445	78610											
PCDHB12	56124	broad.mit.edu	37	chr5	140590290	140590290	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagaacgcctggctgtcgtAccagctgctcaaggccacgg	8	6	12	15	3	1	1	1	0	0	1	2	1	1	1	4	3	4	4	4	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140590290A>G	uc003liz.2	+	1	2000	c.1811A>G	c.(1810-1812)TAC>TGC	p.Y604C	PCDHB12_uc011dak.1_Missense_Mutation_p.Y267C	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	604	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGCTGTCGTACCAGCTGCTC	0.716													5	85					0	0	1	0	0		G	140590290	G	G	140590290	3	3	151	1	0	0	0	0	1	0	0	0	11556	391	14	3	1813	3	PCDHB12	5	140590290	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	145	140590290	40324970	1446	78611											
PCDHGA3	56112	broad.mit.edu	37	chr5	140725675	140725675	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgattcggacctcactctgtAcctggtggtggcggtggccg	4	10	15	12	4	2	0	1	0	1	0	3	2	2	1	3	6	1	1	3	6	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140725675A>G	uc003ljm.1	+	1	2075	c.2075A>G	c.(2074-2076)TAC>TGC	p.Y692C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Missense_Mutation_p.Y452C|PCDHGA3_uc011dap.1_Missense_Mutation_p.Y692C	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	692	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCACTCTGTACCTGGTGGTG	0.682													14	65					0	0	1	0	0		G	140725675	G	G	140725675	3	3	151	1	0	0	0	0	1	0	0	0	11574	391	14	3	2077	3	PCDHGA3	5	140725675	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	135385	140725675	40189585	1447	78612											
PCDHGA4	56111	broad.mit.edu	37	chr5	140735157	140735157	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgatgttaatgataacccAcccagttttgggacagaaca	14	10	8	9	1	0	2	0	1	0	1	1	4	0	3	2	1	2	2	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140735157A>G	uc003ljq.1	+	1	390	c.390A>G	c.(388-390)CCA>CCG	p.P130P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Silent_p.P130P	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	130	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGATAACCCACCCAGTTTTG	0.418													9	46					0	0	1	0	0		G	140735157	G	G	140735157	2	3	151	1	0	0	0	0	0	0	0	1	11575	146	6	3		3	PCDHGA4	5	140735157	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	9482	140735157	40180103	1448	78613											
PCDHGB3	56102	broad.mit.edu	37	chr5	140751421	140751421	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggacctaatggccttgTctcctactacatcgtggcca	7	12	9	13	1	1	0	0	0	1	0	3	1	1	1	4	3	2	0	4	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140751421T>C	uc003ljw.1	+	1	1460	c.1460T>C	c.(1459-1461)GTC>GCC	p.V487A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.V487A|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	487	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATGGCCTTGTCTCCTACTAC	0.632													15	105					0	0	1	0	0		C	140751421	C	C	140751421	3	2	151	1	0	0	0	0	1	0	0	0	11583	1667	58	3	1462	3	PCDHGB3	5	140751421	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	16264	140751421	40163839	1449	78614											
PCDHGA8	9708	broad.mit.edu	37	chr5	140772702	140772702	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtctgataaatattaacAccctggttgaggataaagga	14	11	11	5	0	1	2	0	2	1	0	1	4	1	4	1	4	1	1	1	4	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140772702A>G	uc003lkd.1	+	1	1220	c.322A>G	c.(322-324)ACC>GCC	p.T108A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.T108A	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	108	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAATATTAACACCCTGGTTGA	0.463													19	78					0	0	1	0	0		G	140772702	G	G	140772702	3	3	151	1	0	0	0	0	1	0	0	0	11579	159	6	3	324	3	PCDHGA8	5	140772702	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	21281	140772702	40142558	1450	78615											
PCDHGA9	56107	broad.mit.edu	37	chr5	140782733	140782733	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcgtctctagaggtaggAcgcagcttttctctctgaac	8	12	10	11	2	3	2	0	1	3	1	6	3	3	3	0	2	2	4	0	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140782733A>G	uc003lkh.1	+	1	214	c.214A>G	c.(214-216)ACG>GCG	p.T72A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.T72A	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	72	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGAGGTAGGACGCAGCTTTT	0.622													22	92					0	0	1	0	0		G	140782733	G	G	140782733	3	3	151	1	0	0	0	0	1	0	0	0	11580	275	10	3	216	3	PCDHGA9	5	140782733	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	10031	140782733	40132527	1451	78616											
PCDHGA9	56107	broad.mit.edu	37	chr5	140782869	140782869	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagacagagtgaaactgtAcggaatagaaatagaagtaa	20	7	11	3	1	0	6	0	2	0	4	0	7	0	7	0	1	2	2	0	1	9	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140782869A>G	uc003lkh.1	+	1	350	c.350A>G	c.(349-351)TAC>TGC	p.Y117C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.Y117C	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	117	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGAAACTGTACGGAATAGAA	0.493													22	103					0	0	1	0	0		G	140782869	G	G	140782869	3	3	151	1	0	0	0	0	1	0	0	0	11580	391	14	3	352	3	PCDHGA9	5	140782869	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	136	140782869	40132391	1452	78617											
PCDHGA10	56106	broad.mit.edu	37	chr5	140794829	140794829	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacctcagacctcactctgtAcctggtggtagcggtggccg	7	9	12	13	2	3	1	2	0	1	1	3	1	3	1	4	4	3	2	4	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140794829A>G	uc003lkl.1	+	1	2087	c.2087A>G	c.(2086-2088)TAC>TGC	p.Y696C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.Y696C|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	696	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCACTCTGTACCTGGTGGTA	0.652													16	101					0	0	1	0	0		G	140794829	G	G	140794829	3	3	151	1	0	0	0	0	1	0	0	0	11570	391	14	3	2089	3	PCDHGA10	5	140794829	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	11960	140794829	40120431	1453	78618											
PCDHGB7	56099	broad.mit.edu	37	chr5	140797840	140797840	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caattccggaaagatgaaatAaacttagaaatcagtgaatc	19	9	7	6	1	1	4	1	2	0	2	3	5	2	5	1	1	1	0	1	1	8	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140797840A>G	uc003lkn.1	+	1	559	c.414A>G	c.(412-414)ATA>ATG	p.I138M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.I138M|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	138	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGATGAAATAAACTTAGAAA	0.398													45	114					0	0	1	0	0		G	140797840	G	G	140797840	3	3	151	1	0	0	0	0	1	0	0	0	11587	352	13	3	416	3	PCDHGB7	5	140797840	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3011	140797840	40117420	1454	78619											
PCDHGA11	56105	broad.mit.edu	37	chr5	140801979	140801979	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccacctgccttttaaattAgaaaagacttatggaaatta	17	12	5	7	0	0	2	0	0	0	2	0	3	0	3	3	1	2	0	3	1	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140801979A>G	uc003lkq.1	+	1	1443	c.1185A>G	c.(1183-1185)TTA>TTG	p.L395L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Silent_p.L395L|PCDHGA11_uc003lkp.1_Silent_p.L395L	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	395	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTTTAAATTAGAAAAGACTT	0.403													21	75					0	0	1	0	0		G	140801979	G	G	140801979	2	3	151	1	0	0	0	0	0	0	0	1	11571	417	15	3		3	PCDHGA11	5	140801979	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4139	140801979	40113281	1455	78620											
PCDHGA12	26025	broad.mit.edu	37	chr5	140812322	140812322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctcaccgtggccgtggccGacagcatcccccaagtcctg	6	6	11	18	4	1	0	1	0	0	0	3	1	3	0	6	2	1	2	6	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140812322G>A	uc003lkt.1	+	1	2165	c.1996G>A	c.(1996-1998)GAC>AAC	p.D666N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.D666N	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	666	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCCGTGGCCGACAGCATCCC	0.662													21	53					0	0	1	0	0		A	140812322	A	A	140812322	3	1	151	1	0	0	0	0	1	0	0	0	11572	1058	37	1	1998	1	PCDHGA12	5	140812322	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	10343	140812322	40102938	1456	78621											
PCDHGC4	56098	broad.mit.edu	37	chr5	140865090	140865090	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaaggtcctttggaaatgtAccgagcagaggtagagatcg	12	8	14	7	3	0	2	0	0	0	2	2	6	1	3	2	3	2	3	2	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140865090A>G	uc003lky.1	+	1	350	c.350A>G	c.(349-351)TAC>TGC	p.Y117C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Missense_Mutation_p.Y117C	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	117	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGGAAATGTACCGAGCAGAG	0.572													29	113					0	0	1	0	0		G	140865090	G	G	140865090	3	3	151	1	0	0	0	0	1	0	0	0	11589	391	14	3	352	3	PCDHGC4	5	140865090	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	52768	140865090	40050170	1457	78622											
DIAPH1	1729	broad.mit.edu	37	chr5	140958698	140958698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttttaatccatccagcagcGgctggaaacgttccacttca	10	12	7	12	2	1	0	1	0	0	0	4	1	4	1	3	2	3	3	3	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:140958698G>A	uc003llb.3	-	9	1031	c.890C>T	c.(889-891)CCG>CTG	p.P297L	DIAPH1_uc003llc.3_Missense_Mutation_p.P288L	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	297	GBD/FH3.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCCAGCAGCGGCTGGAAACG	0.453													135	308					0	0	1	0	0		A	140958698	A	A	140958698	3	1	151	1	0	0	0	0	1	0	0	0	4524	1116	39	1	3008	1	DIAPH1	5	140958698	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	93608	140958698	39956562	1458	78623											
PCDH1	5097	broad.mit.edu	37	chr5	141243673	141243673	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaccagagtcaaagtcctcGgctgccacctggctgaccgt	9	7	10	15	2	1	2	1	1	0	1	3	2	2	2	5	2	1	2	5	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:141243673G>A	uc003llq.2	-	3	2340	c.2223C>T	c.(2221-2223)GCC>GCT	p.A741A	PCDH1_uc003llp.2_Silent_p.A741A|PCDH1_uc011dbf.1_Silent_p.A719A	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	741	Extracellular (Potential).|Cadherin 7.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		CAAAGTCCTCGGCTGCCACCT	0.537													10	51					0	0	1	0	0		A	141243673	A	A	141243673	2	1	151	1	0	0	0	0	0	0	0	1	11525	1103	39	1		1	PCDH1	5	141243673	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	284975	141243673	39671587	1459	78624											
PCDH1	5097	broad.mit.edu	37	chr5	141248257	141248257	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcagggcactgctggcGcgtggggggctgccgccatc	4	5	18	14	4	0	0	0	0	0	0	1	0	0	0	2	5	3	5	2	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:141248257G>A	uc003llq.2	-	2	897	c.780C>T	c.(778-780)CGC>CGT	p.R260R	PCDH1_uc003llp.2_Silent_p.R260R|PCDH1_uc011dbf.1_Silent_p.R238R	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	260	Extracellular (Potential).|Cadherin 2.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		CACTGCTGGCGCGTGGGGGGC	0.602													14	37					0	0	1	0	0		A	141248257	A	A	141248257	2	1	151	1	0	0	0	0	0	0	0	1	11525	1074	38	1		1	PCDH1	5	141248257	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4584	141248257	39667003	1460	78625											
YIPF5	81555	broad.mit.edu	37	chr5	143540084	143540084	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagaaaaactacaccaTccaataatcccagcagtgag	18	5	7	11	0	0	2	0	1	0	1	2	3	2	2	3	0	4	2	3	0	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:143540084T>G	uc003lnk.3	-	6	1092	c.651A>C	c.(649-651)GGA>GGC	p.G217G	YIPF5_uc003lnl.3_Silent_p.G217G|YIPF5_uc010jgl.2_Silent_p.G163G	NM_001024947	NP_001020118	Q969M3	YIPF5_HUMAN	Yip1 domain family, member 5	217	Helical; (Potential).				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle|Golgi cisterna membrane|integral to membrane				ovary(1)|skin(1)	2		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			AACTACACCATCCAATAATCC	0.373													6	57					0	0	1	0	0		G	143540084	G	G	143540084	2	3	151	1	0	0	0	0	0	0	0	1	17507	1422	50	5		5	YIPF5	5	143540084	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2291827	143540084	37375176	1461	78626											
KCTD16	57528	broad.mit.edu	37	chr5	143587110	143587110	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgaatatgtcttctaccGtaagtacaaagggttgtttt	11	15	8	7	1	2	1	0	1	2	0	2	1	2	1	1	1	2	4	1	1	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:143587110G>A	uc003lnm.1	+	3	1461	c.832_splice	c.e3+1	p.R278_splice	KCTD16_uc003lnn.1_Splice_Site_p.R278_splice	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain							cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			GTCTTCTACCGTAAGTACAAA	0.393													18	95					0	0	1	0	0		A	143587110	A	A	143587110	5	1	151	1	0	0	0	0	0	0	1	0	8119	1159	40	1	835	1	KCTD16	5	143587110	Splice_Site	SNP	G	TCGA-CG-5721-01A-11D-1600-08	47026	143587110	37328150	1462	78627											
LARS	51520	broad.mit.edu	37	chr5	145493676	145493676	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgtgcatgagtttaatgaAccagatagattattgtatcg	14	14	9	4	1	0	4	0	2	0	2	1	4	0	4	1	0	2	3	1	0	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:145493676A>G	uc003lnx.1	-	32	3762	c.3524T>C	c.(3523-3525)GTT>GCT	p.V1175A	LARS_uc003lnw.1_Missense_Mutation_p.V333A|LARS_uc011dbq.1_Missense_Mutation_p.V1129A|LARS_uc011dbr.1_Missense_Mutation_p.V1121A|LARS_uc011dbs.1_Missense_Mutation_p.V1148A	NM_020117	NP_064502	Q9P2J5	SYLC_HUMAN	leucyl-tRNA synthetase	1175					leucyl-tRNA aminoacylation	cytosol	ATP binding|leucine-tRNA ligase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Leucine(DB00149)	AGTTTAATGAACCAGATAGAT	0.403													61	269					0	0	1	0	0		G	145493676	G	G	145493676	3	3	151	1	0	0	0	0	1	0	0	0	8650	43	2	3	10	3	LARS	5	145493676	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1906566	145493676	35421584	1463	78628											
GPR151	134391	broad.mit.edu	37	chr5	145895104	145895104	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactcttcagccacagctggTacatccacgaggcacatttc	11	9	7	14	1	2	0	1	0	1	0	4	1	3	0	2	2	4	3	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:145895104T>C	uc003lod.1	-	1	573	c.573A>G	c.(571-573)GTA>GTG	p.V191V		NM_194251	NP_919227	Q8TDV0	GP151_HUMAN	G protein-coupled receptor 151	191	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCACAGCTGGTACATCCACGA	0.493													18	51					0	0	1	0	0		C	145895104	C	C	145895104	2	2	151	1	0	0	0	0	0	0	0	1	6672	1625	57	3		3	GPR151	5	145895104	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	401428	145895104	35020156	1464	78629											
DPYSL3	1809	broad.mit.edu	37	chr5	146792252	146792252	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtgaagatctcatagagCtgaaatagaaatgagtcttt	15	11	10	5	0	2	6	1	3	2	3	3	6	2	6	0	1	1	1	0	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:146792252C>T	uc003lon.1	-	6	651	c.541_splice	c.e6-1	p.L181_splice	DPYSL3_uc003loo.2_Splice_Site_p.L295_splice	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3						axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTCATAGAGCTGAAATAGAA	0.498													8	37					0	0	1	0	0		T	146792252	T	T	146792252	5	4	151	1	0	0	0	0	0	0	1	0	4754	811	28	2	1208	2	DPYSL3	5	146792252	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	897148	146792252	34123008	1465	78630											
JAKMIP2	9832	broad.mit.edu	37	chr5	147019216	147019216	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggcttctcgttcagcgtcGatgatgcctcccgtctgctc	3	14	10	14	4	3	1	1	1	2	0	7	2	4	1	2	1	3	3	2	1	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:147019216G>A	uc003loq.1	-	10	1891	c.1509C>T	c.(1507-1509)ATC>ATT	p.I503I	JAKMIP2_uc011dbx.1_Silent_p.I461I|JAKMIP2_uc003lor.1_Silent_p.I503I|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Silent_p.I503I	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	503	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTCAGCGTCGATGATGCCTC	0.453													35	563					0	0	1	0	0		A	147019216	A	A	147019216	2	1	151	1	0	0	0	0	0	0	0	1	7957	1048	37	1		1	JAKMIP2	5	147019216	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	226964	147019216	33896044	1466	78631											
HTR4	3360	broad.mit.edu	37	chr5	147902878	147902878	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggggtcatcttgttcctatAgaccaaaggctggcagcaga	11	9	12	9	0	2	2	1	0	1	2	3	2	3	2	2	4	1	4	2	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:147902878A>G	uc003lpn.2	-	5	549	c.385T>C	c.(385-387)TAT>CAT	p.Y129H	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Missense_Mutation_p.Y129H|HTR4_uc003lpj.1_Missense_Mutation_p.Y129H|HTR4_uc003lpk.2_Missense_Mutation_p.Y129H|HTR4_uc011dby.1_Missense_Mutation_p.Y129H|HTR4_uc003lpl.2_Missense_Mutation_p.Y129H|HTR4_uc003lpm.2_Missense_Mutation_p.Y129H|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Missense_Mutation_p.Y129H	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	129	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	TTGTTCCTATAGACCAAAGGC	0.502													7	39					0	0	1	0	0		G	147902878	G	G	147902878	3	3	151	1	0	0	0	0	1	0	0	0	7465	420	15	3	1089	3	HTR4	5	147902878	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	883662	147902878	33012382	1467	78632											
SH3TC2	79628	broad.mit.edu	37	chr5	148388499	148388499	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaatctgcagctctgtcagCttattgaaaatccggagctc	10	12	8	11	1	3	1	1	1	2	0	5	2	4	2	1	1	4	4	1	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:148388499C>T	uc003lpu.2	-	15	3545	c.3393G>A	c.(3391-3393)AAG>AAA	p.K1131K	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_Silent_p.K775K|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_Silent_p.K678K|SH3TC2_uc010jgx.2_Silent_p.K1124K	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	1131	TPR 6.						binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTCTGTCAGCTTATTGAAAA	0.532													48	205					0	0	1	0	0		T	148388499	T	T	148388499	2	4	151	1	0	0	0	0	0	0	0	1	14287	796	28	2		2	SH3TC2	5	148388499	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	485621	148388499	32526761	1468	78633											
SH3TC2	79628	broad.mit.edu	37	chr5	148388548	148388548	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgccttcaacctccttgctAaaggaacagctccagcctag	10	8	7	16	1	1	0	1	0	0	0	3	1	3	1	6	1	5	2	6	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:148388548A>G	uc003lpu.2	-	15	3496	c.3344T>C	c.(3343-3345)TTA>TCA	p.L1115S	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_Missense_Mutation_p.L759S|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_Missense_Mutation_p.L662S|SH3TC2_uc010jgx.2_Missense_Mutation_p.L1108S	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	1115	TPR 5.						binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTCCTTGCTAAAGGAACAGC	0.478													47	175					0	0	1	0	0		G	148388548	G	G	148388548	3	3	151	1	0	0	0	0	1	0	0	0	14287	372	13	3	534	3	SH3TC2	5	148388548	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	49	148388548	32526712	1469	78634											
SH3TC2	79628	broad.mit.edu	37	chr5	148431762	148431762	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattcagatgaggctatacActcactcgatacagttggat	12	12	9	8	1	2	2	2	1	0	1	3	4	2	3	0	2	2	3	0	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:148431762A>G	uc003lpu.2	-	2	246	c.94T>C	c.(94-96)TGT>CGT	p.C32R	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc003lpt.2_5'UTR|SH3TC2_uc010jgx.2_Missense_Mutation_p.C32R|SH3TC2_uc003lpv.1_5'UTR|SH3TC2_uc011dbz.1_5'UTR|SH3TC2_uc003lpw.1_Missense_Mutation_p.C32R	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	32							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGGCTATACACTCACTCGAT	0.383													47	225					0	0	1	0	0		G	148431762	G	G	148431762	3	3	151	1	0	0	0	0	1	0	0	0	14287	159	6	3	3836	3	SH3TC2	5	148431762	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	43214	148431762	32483498	1470	78635											
ABLIM3	22885	broad.mit.edu	37	chr5	148617149	148617149	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccgacgagatgctggagAgatgtggctatggagaggta	10	9	17	5	2	0	3	0	0	0	3	1	8	1	4	1	4	1	3	1	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:148617149A>G	uc003lpy.2	+	11	1278	c.1027A>G	c.(1027-1029)AGA>GGA	p.R343G	ABLIM3_uc003lpz.1_Missense_Mutation_p.R343G|ABLIM3_uc003lqa.1_Intron|ABLIM3_uc003lqb.2_Intron|ABLIM3_uc003lqc.1_Missense_Mutation_p.R343G|ABLIM3_uc003lqd.1_Intron|ABLIM3_uc003lqf.2_Intron|ABLIM3_uc003lqe.1_Intron	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3	343					axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATGCTGGAGAGATGTGGCTA	0.542													33	143					0	0	1	0	0		G	148617149	G	G	148617149	3	3	151	1	0	0	0	0	1	0	0	0	96	296	11	3	1065	3	ABLIM3	5	148617149	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	185387	148617149	32298111	1471	78636											
ARHGEF37	389337	broad.mit.edu	37	chr5	149003693	149003693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagaaagtgcagccacctcCcaccacacaagtaagcatcc	14	5	7	15	0	0	1	0	1	0	1	2	2	2	1	5	0	3	3	5	0	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:149003693C>T	uc003lra.1	+	10	1518	c.1454C>T	c.(1453-1455)CCC>CTC	p.P485L		NM_001001669	NP_001001669	A1IGU5	ARH37_HUMAN	hypothetical protein LOC389337	485					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0						CAGCCACCTCCCACCACACAA	0.557													23	77					0	0	1	0	0		T	149003693	T	T	149003693	3	4	151	1	0	0	0	0	1	0	0	0	906	623	22	4	1488	4	ARHGEF37	5	149003693	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	386544	149003693	31911567	1472	78637											
ARSI	340075	broad.mit.edu	37	chr5	149677489	149677489	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgttgctttcgcttgagcAggggactgtggacaaagcct	7	11	13	10	2	0	1	0	1	0	0	2	3	1	3	2	3	3	4	2	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:149677489A>G	uc003lrv.2	-	2	1587	c.998T>C	c.(997-999)CTG>CCG	p.L333P		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	333						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCGCTTGAGCAGGGGACTGTG	0.632													15	59					0	0	1	0	0		G	149677489	G	G	149677489	3	3	151	1	0	0	0	0	1	0	0	0	995	188	7	3	715	3	ARSI	5	149677489	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	673796	149677489	31237771	1473	78638											
TNIP1	10318	broad.mit.edu	37	chr5	150410293	150410293	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactgaggcccctcacggTcattttttggagactctaaa	9	12	8	12	1	4	2	3	1	1	1	4	3	4	2	2	3	0	0	2	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:150410293T>C	uc003ltf.2	-	18	2481	c.1892A>G	c.(1891-1893)GAC>GGC	p.D631G	TNIP1_uc011dcn.1_Missense_Mutation_p.D149G|TNIP1_uc010jhl.2_RNA|TNIP1_uc010jhm.2_Missense_Mutation_p.D567G|TNIP1_uc010jhn.2_Missense_Mutation_p.T535A|TNIP1_uc011dco.1_3'UTR|TNIP1_uc003lth.2_RNA|TNIP1_uc003lti.2_Missense_Mutation_p.D631G|TNIP1_uc003ltg.2_Missense_Mutation_p.D578G|TNIP1_uc003ltj.2_Missense_Mutation_p.D631G|TNIP1_uc010jho.1_Intron|TNIP1_uc010jhq.1_Intron|TNIP1_uc010jhp.1_Intron|TNIP1_uc010jhr.1_Intron|TNIP1_uc003ltk.2_Intron	NM_006058	NP_006049	Q15025	TNIP1_HUMAN	TNFAIP3 interacting protein 1	631	Pro-rich.				defense response|glycoprotein biosynthetic process|negative regulation of viral genome replication|translation	cytoplasm|nucleus	protein binding			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.0911)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCCCTCACGGTCATTTTTTGG	0.438													22	71					0	0	1	0	0		C	150410293	C	C	150410293	3	2	151	1	0	0	0	0	1	0	0	0	16339	1667	58	3	22	3	TNIP1	5	150410293	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	732804	150410293	30504967	1474	78639											
ANXA6	309	broad.mit.edu	37	chr5	150484828	150484828	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggatttgtaaagtttgTcggcaaagaagagaggcttg	12	12	13	4	1	1	2	1	0	0	2	2	4	1	3	0	3	0	4	0	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:150484828T>C	uc003ltl.1	-	24	1969	c.1817A>G	c.(1816-1818)GAC>GGC	p.D606G	ANXA6_uc011dcp.1_Missense_Mutation_p.D574G|ANXA6_uc003ltm.1_Missense_Mutation_p.D600G|ANXA6_uc003ltn.1_Missense_Mutation_p.D393G|ANXA6_uc003lto.1_Missense_Mutation_p.D193G	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	606						melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GTAAAGTTTGTCGGCAAAGAA	0.478													6	52					0	0	1	0	0		C	150484828	C	C	150484828	3	2	151	1	0	0	0	0	1	0	0	0	722	1667	58	3	216	3	ANXA6	5	150484828	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	74535	150484828	30430432	1475	78640											
FAT2	2196	broad.mit.edu	37	chr5	150900933	150900933	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccttggggtccagatgcaCtgtgttatggcagatttgac	9	12	12	8	0	0	3	0	1	0	2	1	3	1	3	2	3	2	3	2	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:150900933C>G	uc003lue.3	-	18	11234	c.11221G>C	c.(11221-11223)GTG>CTG	p.V3741L	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.V434L	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3741	Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCCAGATGCACTGTGTTATGG	0.607													15	75					0	0	1	0	0		G	150900933	G	G	150900933	3	3	151	1	0	0	0	0	1	0	0	0	5704	565	20	5	1852	5	FAT2	5	150900933	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	416105	150900933	30014327	1476	78641											
SPARC	6678	broad.mit.edu	37	chr5	151052748	151052748	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcaaattctcctacttcCacctggacaggattagctcc	10	12	5	14	0	3	0	2	0	1	0	6	2	5	2	4	2	2	1	4	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:151052748C>T	uc003luh.2	-	3	174	c.150G>A	c.(148-150)GTG>GTA	p.V50V	GM2A_uc011dcs.1_Intron|SPARC_uc003lug.2_5'UTR|SPARC_uc003lui.2_Silent_p.V50V	NM_003118	NP_003109	P09486	SPRC_HUMAN	secreted protein, acidic, cysteine-rich	50	Asp/Glu-rich (acidic; binds calcium).				ossification|platelet activation|platelet degranulation|signal transduction	basement membrane|extracellular space|platelet alpha granule lumen	calcium ion binding|collagen binding			central_nervous_system(1)	1		Medulloblastoma(196;0.109)|all_hematologic(541;0.122)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)	OV - Ovarian serous cystadenocarcinoma(192;0.00118)	Becaplermin(DB00102)	CTCCTACTTCCACCTGGACAG	0.527													50	163					0	0	1	0	0		T	151052748	T	T	151052748	2	4	151	1	0	0	0	0	0	0	0	1	15020	581	21	4		4	SPARC	5	151052748	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	151815	151052748	29862512	1477	78642											
G3BP1	10146	broad.mit.edu	37	chr5	151170481	151170481	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtgatgtcacaaaactTcaccaactgccacaccaaga	17	6	6	12	0	2	2	2	1	0	1	2	3	2	2	3	0	3	0	3	0	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:151170481T>C	uc003lun.2	+	4	380	c.209T>C	c.(208-210)TTC>TCC	p.F70S	G3BP1_uc010jhy.1_Missense_Mutation_p.F70S|G3BP1_uc003lum.2_Missense_Mutation_p.F70S|G3BP1_uc011dcu.1_5'UTR|G3BP1_uc010jhz.2_5'UTR	NM_005754	NP_005745	Q13283	G3BP1_HUMAN	Ras-GTPase-activating protein SH3-domain-binding	70	NTF2.				Ras protein signal transduction|transport	cytosol|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|endonuclease activity|protein binding|RNA binding			skin(3)|ovary(1)	4		all_hematologic(541;0.0338)|Medulloblastoma(196;0.091)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)			TCACAAAACTTCACCAACTGC	0.378													19	46					0	0	1	0	0		C	151170481	C	C	151170481	3	2	151	1	0	0	0	0	1	0	0	0	6155	1783	62	3	219	3	G3BP1	5	151170481	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	117733	151170481	29744779	1478	78643											
FAM114A2	10827	broad.mit.edu	37	chr5	153381868	153381868	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcttcctgccatgcagaAccaatgcagctgttttgtgg	7	12	10	12	0	0	1	0	0	0	1	1	1	1	1	4	1	6	5	4	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:153381868A>G	uc003lvb.2	-	11	1787	c.1199T>C	c.(1198-1200)GTT>GCT	p.V400A	FAM114A2_uc003lvc.2_Missense_Mutation_p.V400A|FAM114A2_uc003lvd.2_Missense_Mutation_p.V400A|FAM114A2_uc003lve.2_Missense_Mutation_p.V216A|FAM114A2_uc011dda.1_Missense_Mutation_p.V330A	NM_018691	NP_061161	Q9NRY5	F1142_HUMAN	hypothetical protein LOC10827	400							purine nucleotide binding				0						GCCATGCAGAACCAATGCAGC	0.443													5	190					0	0	1	0	0		G	153381868	G	G	153381868	3	3	151	1	0	0	0	0	1	0	0	0	5415	43	2	3	334	3	FAM114A2	5	153381868	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2211387	153381868	27533392	1479	78644											
GALNT10	55568	broad.mit.edu	37	chr5	153792536	153792536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagggctgcgtccgaggcCgtggggaggctgcctggaac	6	6	19	10	3	0	1	0	0	0	1	1	4	1	3	3	6	3	2	3	6	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:153792536C>T	uc003lvh.2	+	10	1606	c.1474C>T	c.(1474-1476)CGT>TGT	p.R492C	GALNT10_uc010jic.2_RNA|GALNT10_uc010jid.2_Missense_Mutation_p.R333C|uc003lvi.2_Intron|GALNT10_uc003lvj.2_Missense_Mutation_p.R163C	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	492	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			CGTCCGAGGCCGTGGGGAGGC	0.627													8	24					0	0	1	0	0		T	153792536	T	T	153792536	3	4	151	1	0	0	0	0	1	0	0	0	6223	652	23	1	1512	1	GALNT10	5	153792536	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	410668	153792536	27122724	1480	78645											
LARP1	23367	broad.mit.edu	37	chr5	154173252	154173252	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgcccaccggagcctagAcacatacctgccaatcgcgg	10	5	9	17	4	0	1	0	0	0	1	2	2	0	2	5	2	3	0	5	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:154173252A>G	uc003lvp.2	+	5	1266	c.837A>G	c.(835-837)AGA>AGG	p.R279R	LARP1_uc003lvo.2_Silent_p.R202R|LARP1_uc010jie.1_Silent_p.R74R	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	279							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CGGAGCCTAGACACATACCTG	0.552													26	121					0	0	1	0	0		G	154173252	G	G	154173252	2	3	151	1	0	0	0	0	0	0	0	1	8644	272	10	3		3	LARP1	5	154173252	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	380716	154173252	26742008	1481	78646											
GEMIN5	25929	broad.mit.edu	37	chr5	154284949	154284949	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcttttggtggctcctttTtcagtaaaatgactttgtta	7	20	7	7	0	2	1	1	1	1	0	4	1	3	1	1	2	0	3	1	2	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:154284949T>C	uc003lvx.3	-	17	2566	c.2483A>G	c.(2482-2484)AAA>AGA	p.K828R	GEMIN5_uc011ddk.1_Missense_Mutation_p.K827R	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	828					ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TGGCTCCTTTTTCAGTAAAAT	0.353													11	97					0	0	1	0	0		C	154284949	C	C	154284949	3	2	151	1	0	0	0	0	1	0	0	0	6346	1841	64	3	2091	3	GEMIN5	5	154284949	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	111697	154284949	26630311	1482	78647											
KIF4B	285643	broad.mit.edu	37	chr5	154394631	154394631	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaatgaaaaattaagtcgTtgtctgagcaaggcagctgg	14	9	13	5	1	1	3	0	2	1	1	2	4	1	3	0	2	2	4	0	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:154394631T>C	uc010jih.1	+	1	1372	c.1212T>C	c.(1210-1212)CGT>CGC	p.R404R		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	404	Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			AATTAAGTCGTTGTCTGAGCA	0.453													35	154					0	0	1	0	0		C	154394631	C	C	154394631	2	2	151	1	0	0	0	0	0	0	0	1	8320	1712	60	3		3	KIF4B	5	154394631	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	109682	154394631	26520629	1483	78648											
KIF4B	285643	broad.mit.edu	37	chr5	154396976	154396976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcaaagaagactgctccagCtccctccccttttgacctcc	8	10	6	17	0	1	3	1	1	0	2	5	3	5	3	6	0	2	2	6	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:154396976C>T	uc010jih.1	+	1	3717	c.3557C>T	c.(3556-3558)GCT>GTT	p.A1186V		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	1186	Interaction with PRC1 (By similarity).|Globular (By similarity).				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			ACTGCTCCAGCTCCCTCCCCT	0.493													8	62					0	0	1	0	0		T	154396976	T	T	154396976	3	4	151	1	0	0	0	0	1	0	0	0	8320	797	28	2	3559	2	KIF4B	5	154396976	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2345	154396976	26518284	1484	78649											
C5orf40	408263	broad.mit.edu	37	chr5	156769912	156769912	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atagcgggtgggtcaccaccCcccctctgtaaggcacccgc	7	6	11	17	2	2	0	1	0	1	0	2	0	2	0	5	3	1	2	5	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:156769912C>A	uc003lwu.2	-	2	821	c.633G>T	c.(631-633)GGG>GGT	p.G211G	CYFIP2_uc003lwq.2_Intron|CYFIP2_uc011ddn.1_Intron|CYFIP2_uc011ddo.1_Intron|CYFIP2_uc003lwr.2_Intron|CYFIP2_uc003lws.2_Intron|CYFIP2_uc003lwt.2_Intron|CYFIP2_uc011ddp.1_Intron	NM_001001343	NP_001001343	Q8TBE3	FNDC9_HUMAN	hypothetical protein LOC408263	211						integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GGTCACCACCCCCCCTCTGTA	0.587											OREG0016977	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	63					1.02788e-11	1.06251e-11	1	1	0		A	156769912	A	A	156769912	2	1	151	1	0	0	0	0	0	0	0	1	2302	610	22	5		5	C5orf40	5	156769912	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2372936	156769912	24145348	1485	78650											
SOX30	11063	broad.mit.edu	37	chr5	157053373	157053373	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccctgagcactttttctTcttcctcctcatcactgtcg	6	16	4	15	1	4	1	2	1	2	0	8	1	7	1	3	0	1	1	3	0	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:157053373T>A	uc003lxb.1	-	5	2579	c.2237A>T	c.(2236-2238)GAA>GTA	p.E746V	SOX30_uc003lxc.1_3'UTR|SOX30_uc011dds.1_Missense_Mutation_p.E441V	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	746					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CACTTTTTCTTCTTCCTCCTC	0.378													25	141					0	0	1	0	0		A	157053373	A	A	157053373	3	1	151	1	0	0	0	0	1	0	0	0	14977	1783	62	5	28	5	SOX30	5	157053373	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	283461	157053373	23861887	1486	78651											
EBF1	1879	broad.mit.edu	37	chr5	158135143	158135143	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgcagttggaggggaGgcttgtggaggaggccatgg	6	8	21	6	0	0	0	0	0	0	0	0	4	0	4	1	8	2	5	1	8	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:158135143G>T	uc010jip.2	-	15	1890	c.1588C>A	c.(1588-1590)CTC>ATC	p.L530I	EBF1_uc011ddw.1_Missense_Mutation_p.L398I|EBF1_uc011ddx.1_Missense_Mutation_p.L531I|EBF1_uc003lxl.3_Missense_Mutation_p.L499I	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	530	Pro/Ser/Thr-rich.				multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TTGGAGGGGAGGCTTGTGGAG	0.557			T	HMGA2	lipoma								3	10					0.184627	0.184763	1	1	0		T	158135143	T	T	158135143	3	4	151	1	0	0	0	0	1	0	0	0	4886	1000	35	5	195	5	EBF1	5	158135143	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1081770	158135143	22780117	1487	78652											
FABP6	2172	broad.mit.edu	37	chr5	159659203	159659203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttggtcccagcactactccGggggccacaccatgaccaac	9	6	9	17	1	0	1	0	1	0	0	2	1	2	1	5	3	3	1	5	3	2	2	rs140576066		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:159659203G>A	uc003lya.1	+	2	294	c.166G>A	c.(166-168)GGG>AGG	p.G56R	FABP6_uc003lxx.1_Missense_Mutation_p.G105R|FABP6_uc003lxz.1_Missense_Mutation_p.G105R	NM_001445	NP_001436	P51161	FABP6_HUMAN	gastrotropin isoform 2	56					bile acid and bile salt transport|bile acid metabolic process|negative regulation of cell proliferation	cytosol	transporter activity				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCACTACTCCGGGGGCCACAC	0.562													7	19					0	0	1	0	0		A	159659203	A	A	159659203	3	1	151	1	0	0	0	0	1	0	0	0	5372	1116	39	1	327	1	FABP6	5	159659203	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1524060	159659203	21256057	1488	78653											
SLU7	10569	broad.mit.edu	37	chr5	159835377	159835377	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgagattccggacagtaaTtcgtctcttggagtcaaaat	11	12	9	9	2	2	1	1	1	1	1	5	4	3	3	2	2	0	1	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:159835377T>C	uc003lyg.2	-	8	933	c.778A>G	c.(778-780)ATT>GTT	p.I260V		NM_006425	NP_006416	O95391	SLU7_HUMAN	step II splicing factor SLU7	260					alternative nuclear mRNA splicing, via spliceosome|nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|cytoplasm|nuclear speck|small nuclear ribonucleoprotein complex	pre-mRNA 3'-splice site binding|second spliceosomal transesterification activity|zinc ion binding			ovary(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CGGACAGTAATTCGTCTCTTG	0.348													29	137					0	0	1	0	0		C	159835377	C	C	159835377	3	2	151	1	0	0	0	0	1	0	0	0	14780	1493	52	3	1018	3	SLU7	5	159835377	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	176174	159835377	21079883	1489	78654											
GABRA6	2559	broad.mit.edu	37	chr5	161113279	161113279	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgaagttgaaggcaacttcTactcagaaaacgtcagtcgg	13	9	10	9	3	3	2	2	1	1	1	5	3	3	2	0	2	3	2	0	2	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:161113279T>C	uc003lyu.2	+	2	420	c.82T>C	c.(82-84)TAC>CAC	p.Y28H		NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	28	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	AGGCAACTTCTACTCAGAAAA	0.483										TCGA Ovarian(5;0.080)			21	95					0	0	1	0	0		C	161113279	C	C	161113279	3	2	151	1	0	0	0	0	1	0	0	0	6179	1522	53	3	88	3	GABRA6	5	161113279	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1277902	161113279	19801981	1490	78655											
GABRA1	2554	broad.mit.edu	37	chr5	161318037	161318037	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctcaacagagagtctgtAccagcaagaactgtctttgg	11	10	11	9	0	3	2	1	0	2	2	3	3	3	2	1	2	4	3	1	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:161318037A>G	uc010jiw.2	+	9	1305	c.837A>G	c.(835-837)GTA>GTG	p.V279V	GABRA1_uc010jix.2_Silent_p.V279V|GABRA1_uc010jiy.2_Silent_p.V279V|GABRA1_uc003lyx.3_Silent_p.V279V|GABRA1_uc010jiz.2_Silent_p.V279V|GABRA1_uc010jja.2_Silent_p.V279V|GABRA1_uc010jjb.2_Silent_p.V279V	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	279	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	GAGAGTCTGTACCAGCAAGAA	0.408													20	106					0	0	1	0	0		G	161318037	G	G	161318037	2	3	151	1	0	0	0	0	0	0	0	1	6174	378	14	3		3	GABRA1	5	161318037	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	204758	161318037	19597223	1491	78656											
NUDCD2	134492	broad.mit.edu	37	chr5	162886992	162886992	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacctcctccaaggtctggTaccactggccccacggggtc	7	7	10	17	1	1	0	0	0	1	0	4	0	3	0	6	5	1	1	6	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:162886992T>C	uc003lze.2	-	1	152	c.65A>G	c.(64-66)TAC>TGC	p.Y22C	HMMR_uc003lzh.2_5'Flank|HMMR_uc003lzf.2_5'Flank|HMMR_uc003lzg.2_5'Flank|HMMR_uc011dem.1_5'Flank	NM_145266	NP_660309	Q8WVJ2	NUDC2_HUMAN	NudC domain containing 2	22	CS.					intracellular					0	Renal(175;0.000281)	Medulloblastoma(196;0.0207)|all_neural(177;0.0966)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0981)|OV - Ovarian serous cystadenocarcinoma(192;0.183)|Epithelial(171;0.247)		CAAGGTCTGGTACCACTGGCC	0.687													26	142					0	0	1	0	0		C	162886992	C	C	162886992	3	2	151	1	0	0	0	0	1	0	0	0	10742	1638	57	3	424	3	NUDCD2	5	162886992	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1568955	162886992	18028268	1492	78657											
ODZ2	57451	broad.mit.edu	37	chr5	167645692	167645692	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatatgttttcaacgctgAtggcatccaccaatacactg	11	13	7	10	1	1	1	1	1	0	0	2	1	2	1	2	1	2	4	2	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:167645692A>G	uc010jjd.2	+	23	4769	c.4769A>G	c.(4768-4770)GAT>GGT	p.D1590G	ODZ2_uc003lzr.3_Missense_Mutation_p.D1360G|ODZ2_uc003lzt.3_Missense_Mutation_p.D963G|ODZ2_uc010jje.2_Missense_Mutation_p.D854G	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		TTCAACGCTGATGGCATCCAC	0.458													48	149					0	0	1	0	0		G	167645692	G	G	167645692	3	3	151	1	0	0	0	0	1	0	0	0	10854	333	12	3	4859	3	ODZ2	5	167645692	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4758700	167645692	13269568	1493	78658											
WWC1	23286	broad.mit.edu	37	chr5	167850759	167850759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggccctcaggctgcatcaCcaccatccacgaggatgagg	9	5	11	16	2	2	1	2	1	0	0	3	3	3	2	5	4	1	2	5	4	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:167850759C>T	uc003lzu.2	+	11	1589	c.1496C>T	c.(1495-1497)ACC>ATC	p.T499I	WWC1_uc003lzv.2_Missense_Mutation_p.T499I|WWC1_uc011den.1_Missense_Mutation_p.T499I|WWC1_uc003lzw.2_Missense_Mutation_p.T298I	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	499					cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		GGCTGCATCACCACCATCCAC	0.632													12	44					0	0	1	0	0		T	167850759	T	T	167850759	3	4	151	1	0	0	0	0	1	0	0	0	17437	507	18	4	1538	4	WWC1	5	167850759	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	205067	167850759	13064501	1494	78659											
SLIT3	6586	broad.mit.edu	37	chr5	168098380	168098380	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgggagggccttgaagTcctgcagctcgttgttgatg	5	12	17	7	1	0	2	0	2	0	0	2	3	1	3	2	3	2	4	2	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:168098380T>C	uc003mab.2	-	34	4370	c.3950A>G	c.(3949-3951)GAC>GGC	p.D1317G	SLIT3_uc010jjg.2_Missense_Mutation_p.D1324G	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	1317	Laminin G-like.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGCCTTGAAGTCCTGCAGCTC	0.657													6	24					0	0	1	0	0		C	168098380	C	C	168098380	3	2	151	1	0	0	0	0	1	0	0	0	14766	1667	58	3	633	3	SLIT3	5	168098380	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	247621	168098380	12816880	1495	78660											
SLIT3	6586	broad.mit.edu	37	chr5	168176497	168176497	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcacaggtgaagtcctggAtggccacatcctggatggga	10	8	13	10	0	1	1	1	1	0	0	3	4	3	4	3	5	0	0	3	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:168176497A>C	uc003mab.2	-	19	2537	c.2117T>G	c.(2116-2118)ATC>AGC	p.I706S	SLIT3_uc010jjg.2_Missense_Mutation_p.I706S	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	706	LRRCT 3.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAAGTCCTGGATGGCCACATC	0.552													26	116					0	0	1	0	0		C	168176497	C	C	168176497	3	2	151	1	0	0	0	0	1	0	0	0	14766	333	12	5	2526	5	SLIT3	5	168176497	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	78117	168176497	12738763	1496	78661											
DOCK2	1794	broad.mit.edu	37	chr5	169145773	169145773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtgttcaagttcattgttCggtcgaggacattattttca	9	17	9	6	2	3	0	3	0	0	0	5	2	3	1	0	2	0	3	0	2	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:169145773C>T	uc003maf.2	+	22	2325	c.2245C>T	c.(2245-2247)CGG>TGG	p.R749W	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.R241W	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	749					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GTTCATTGTTCGGTCGAGGAC	0.418													29	139					0	0	1	0	0		T	169145773	T	T	169145773	3	4	151	1	0	0	0	0	1	0	0	0	4693	875	31	1	2331	1	DOCK2	5	169145773	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	969276	169145773	11769487	1497	78662											
DOCK2	1794	broad.mit.edu	37	chr5	169454930	169454930	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggccgaggcgacgagcagTacatgcagctcctggagtca	9	5	16	11	3	1	0	1	0	0	0	2	4	2	1	2	4	4	4	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:169454930T>C	uc003maf.2	+	34	3525	c.3445T>C	c.(3445-3447)TAC>CAC	p.Y1149H	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.Y641H	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1149	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CGACGAGCAGTACATGCAGCT	0.522													21	102					0	0	1	0	0		C	169454930	C	C	169454930	3	2	151	1	0	0	0	0	1	0	0	0	4693	1638	57	3	3579	3	DOCK2	5	169454930	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	309157	169454930	11460330	1498	78663											
FBXW11	23291	broad.mit.edu	37	chr5	171318497	171318497	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattatctcgtaggccacTgataattttttcatcatcgt	11	16	6	8	2	3	2	2	1	1	1	5	2	3	2	1	1	0	1	1	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:171318497T>C	uc003mbm.1	-	6	1134	c.763A>G	c.(763-765)AGT>GGT	p.S255G	FBXW11_uc011dey.1_Missense_Mutation_p.S223G|FBXW11_uc003mbl.1_Missense_Mutation_p.S242G|FBXW11_uc003mbn.1_Missense_Mutation_p.S221G	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	255	WD 1.				cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity	p.N260_I262(1)		ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CGTAGGCCACTGATAATTTTT	0.368													21	128					0	0	1	0	0		C	171318497	C	C	171318497	3	2	151	1	0	0	0	0	1	0	0	0	5778	1580	55	3	893	3	FBXW11	5	171318497	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1863567	171318497	9596763	1499	78664											
UBTD2	92181	broad.mit.edu	37	chr5	171638962	171638962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgccagaaaaaaaccaccGctgactacctggttccactc	12	8	6	15	1	1	2	0	1	1	1	3	2	2	2	5	1	3	2	5	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:171638962G>A	uc003mbp.1	-	3	703	c.577C>T	c.(577-579)CGG>TGG	p.R193W		NM_152277	NP_689490	Q8WUN7	UBTD2_HUMAN	dendritic cell-derived ubiquitin-like protein	193	Ubiquitin-like.					cytoplasm					0	Renal(175;0.000159)|Lung NSC(126;0.00976)|all_lung(126;0.0156)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AAAAACCACCGCTGACTACCT	0.488													32	133					0	0	1	0	0		A	171638962	A	A	171638962	3	1	151	1	0	0	0	0	1	0	0	0	16934	1086	38	1	131	1	UBTD2	5	171638962	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	320465	171638962	9276298	1500	78665											
SH3PXD2B	285590	broad.mit.edu	37	chr5	171766816	171766816	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagaaagttgggtctcgaCgcgttgctcgtcttcttgta	6	13	12	10	4	3	1	0	0	3	1	5	2	3	1	1	1	1	4	1	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:171766816C>T	uc003mbr.2	-	13	1464	c.1293G>A	c.(1291-1293)GCG>GCA	p.A431A		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	431					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TGGGTCTCGACGCGTTGCTCG	0.587													16	42					0	0	1	0	0		T	171766816	T	T	171766816	2	4	151	1	0	0	0	0	0	0	0	1	14282	523	19	1		1	SH3PXD2B	5	171766816	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	127854	171766816	9148444	1501	78666											
DUSP1	1843	broad.mit.edu	37	chr5	172195808	172195808	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggctctgaaggtagctcAgcgcactgttcgtggagtgg	6	10	17	8	2	2	1	1	1	1	0	3	2	2	2	0	5	2	5	0	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:172195808A>G	uc003mbv.1	-	4	1309	c.1061T>C	c.(1060-1062)CTG>CCG	p.L354P	DUSP1_uc011dez.1_Missense_Mutation_p.L212P|DUSP1_uc003mbu.1_Missense_Mutation_p.L242P	NM_004417	NP_004408	P28562	DUS1_HUMAN	dual specificity phosphatase 1	354	Tyrosine-protein phosphatase.				cell cycle|endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|non-membrane spanning protein tyrosine phosphatase activity|protein binding			breast(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00431)|all_lung(126;0.00729)	all_hematologic(541;4.11e-18)|Breast(839;0.00637)|Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.15)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)	GBM - Glioblastoma multiforme(465;0.0103)		AAGGTAGCTCAGCGCACTGTT	0.617													22	83					0	0	1	0	0		G	172195808	G	G	172195808	3	3	151	1	0	0	0	0	1	0	0	0	4815	188	7	3	46	3	DUSP1	5	172195808	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	428992	172195808	8719452	1502	78667											
RPL26L1	51121	broad.mit.edu	37	chr5	172386967	172386967	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgcgcaggaagatcatgTcatccccgctctccaaggag	10	7	11	13	3	3	1	2	0	1	1	5	3	4	3	3	2	1	2	3	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:172386967T>C	uc003mcc.2	+	2	133	c.91T>C	c.(91-93)TCA>CCA	p.S31P	LOC100268168_uc011dfb.1_5'Flank|LOC100268168_uc011dfc.1_5'Flank	NM_016093	NP_057177	Q9UNX3	RL26L_HUMAN	ribosomal protein L26-like 1	31					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|large ribosomal subunit	structural constituent of ribosome				0	Renal(175;0.000159)|Lung NSC(126;0.00344)|all_lung(126;0.00594)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GAAGATCATGTCATCCCCGCT	0.577													51	183					0	0	1	0	0		C	172386967	C	C	172386967	3	2	151	1	0	0	0	0	1	0	0	0	13599	1667	58	3	93	3	RPL26L1	5	172386967	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	191159	172386967	8528293	1503	78668											
BNIP1	662	broad.mit.edu	37	chr5	172590823	172590823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcttatcacaaaatacaatCgccgggagctgacggacaag	15	6	10	10	3	1	1	1	1	0	0	2	3	1	3	1	2	3	2	1	2	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:172590823C>T	uc003mcj.3	+	6	690	c.586C>T	c.(586-588)CGC>TGC	p.R196C	BNIP1_uc003mci.3_Missense_Mutation_p.R239C|BNIP1_uc003mck.3_Missense_Mutation_p.R205C|BNIP1_uc003mcl.3_Missense_Mutation_p.R162C	NM_001205	NP_001196	Q12981	SEC20_HUMAN	BCL2/adenovirus E1B 19kD interacting protein 1	196	Cytoplasmic (Potential).				anti-apoptosis|apoptosis|endoplasmic reticulum membrane fusion|endoplasmic reticulum organization|induction of apoptosis|vesicle-mediated transport	integral to endoplasmic reticulum membrane|nuclear envelope|SNARE complex	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			AAAATACAATCGCCGGGAGCT	0.478													26	95					0	0	1	0	0		T	172590823	T	T	172590823	3	4	151	1	0	0	0	0	1	0	0	0	1477	884	31	1	741	1	BNIP1	5	172590823	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	203856	172590823	8324437	1504	78669											
C5orf25	375484	broad.mit.edu	37	chr5	175772238	175772238	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacttaataatcaaaaggatTaagcccaaaccccagcaagg	18	6	7	10	0	1	0	1	0	0	0	1	2	1	1	3	2	3	1	3	2	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:175772238T>C	uc003mds.3	+	12	2816	c.2409T>C	c.(2407-2409)ATT>ATC	p.I803I	C5orf25_uc003mdt.3_Silent_p.I388I|C5orf25_uc003mdr.3_RNA|C5orf25_uc003mdv.2_Silent_p.I264I			Q8NDZ2	CE025_HUMAN	RecName: Full=Uncharacterized protein C5orf25;	803											0	all_cancers(89;0.00381)|Renal(175;0.000269)|Lung NSC(126;0.0122)|all_lung(126;0.0193)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.119)		TCAAAAGGATTAAGCCCAAAC	0.488													34	128					0	0	1	0	0		C	175772238	C	C	175772238	2	2	151	1	0	0	0	0	0	0	0	1	2291	1742	61	3		3	C5orf25	5	175772238	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3181415	175772238	5143022	1505	78670											
CDHR2	54825	broad.mit.edu	37	chr5	176004743	176004743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttccccagagcttgtacGtcctcacggtgccagagcac	7	9	10	15	3	1	2	1	0	0	2	3	2	3	2	4	1	4	4	4	1	1	3	rs115283964	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:176004743G>A	uc003mem.1	+	14	1522	c.1456G>A	c.(1456-1458)GTC>ATC	p.V486I	CDHR2_uc003men.1_Missense_Mutation_p.V486I	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	486	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GAGCTTGTACGTCCTCACGGT	0.607													12	39					0	0	1	0	0		A	176004743	A	A	176004743	3	1	151	1	0	0	0	0	1	0	0	0	3122	1145	40	1	1506	1	CDHR2	5	176004743	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	232505	176004743	4910517	1506	78671											
CDHR2	54825	broad.mit.edu	37	chr5	176005416	176005416	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggacggtgacggtgaggaAcggtgagctgctggaccggg	8	5	21	7	4	0	3	0	3	0	0	0	6	0	6	1	7	3	2	1	7	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:176005416A>G	uc003mem.1	+	16	1691	c.1625A>G	c.(1624-1626)AAC>AGC	p.N542S	CDHR2_uc003men.1_Missense_Mutation_p.N542S	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	542	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						ACGGTGAGGAACGGTGAGCTG	0.522													8	22					0	0	1	0	0		G	176005416	G	G	176005416	3	3	151	1	0	0	0	0	1	0	0	0	3122	43	2	3	1683	3	CDHR2	5	176005416	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	673	176005416	4909844	1507	78672											
CDHR2	54825	broad.mit.edu	37	chr5	176011443	176011443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtggtgaaggcctgggacGcggaccagacggaagccaac	10	3	17	11	4	0	2	0	1	0	1	0	5	0	5	3	5	2	0	3	5	3	0	rs116786975	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:176011443G>A	uc003mem.1	+	19	2227	c.2161G>A	c.(2161-2163)GCG>ACG	p.A721T	CDHR2_uc003men.1_Missense_Mutation_p.A721T	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	721	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GGCCTGGGACGCGGACCAGAC	0.642													32	112					0	0	1	0	0		A	176011443	A	A	176011443	3	1	151	1	0	0	0	0	1	0	0	0	3122	1087	38	1	2231	1	CDHR2	5	176011443	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	6027	176011443	4903817	1508	78673											
CDHR2	54825	broad.mit.edu	37	chr5	176016062	176016062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgattcagggaacaatggcGtcatcctgttctccatcctc	9	12	8	12	1	3	1	2	1	1	0	7	2	5	2	3	2	1	1	3	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:176016062G>A	uc003mem.1	+	22	2953	c.2887G>A	c.(2887-2889)GTC>ATC	p.V963I	CDHR2_uc003men.1_Missense_Mutation_p.V963I	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	963	Extracellular (Potential).|Cadherin 9.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GAACAATGGCGTCATCCTGTT	0.587													62	285					0	0	1	0	0		A	176016062	A	A	176016062	3	1	151	1	0	0	0	0	1	0	0	0	3122	1145	40	1	2969	1	CDHR2	5	176016062	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4619	176016062	4899198	1509	78674											
CDHR2	54825	broad.mit.edu	37	chr5	176017111	176017111	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaaccaggactacagtatAcattgtggacattcaggaca	14	8	10	9	0	1	0	1	0	0	0	1	3	1	3	1	4	3	2	1	4	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:176017111A>G	uc003mem.1	+	25	3305	c.3239A>G	c.(3238-3240)TAC>TGC	p.Y1080C	CDHR2_uc003men.1_Missense_Mutation_p.Y1080C	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	1080	Extracellular (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						ACTACAGTATACATTGTGGAC	0.607													90	373					0	0	1	0	0		G	176017111	G	G	176017111	3	3	151	1	0	0	0	0	1	0	0	0	3122	391	14	3	3333	3	CDHR2	5	176017111	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1049	176017111	4898149	1510	78675											
UNC5A	90249	broad.mit.edu	37	chr5	176304606	176304606	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccccctggcgtcctgctcAcccggccagtcatcctggct	4	8	10	19	2	2	0	2	0	0	0	4	1	4	0	6	3	1	2	6	3	0	0	rs143892682		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:176304606A>G	uc003mey.2	+	10	1729	c.1537A>G	c.(1537-1539)ACC>GCC	p.T513A		NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	513	ZU5.|Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CGTCCTGCTCACCCGGCCAGT	0.637													10	31					0	0	1	0	0		G	176304606	G	G	176304606	3	3	151	1	0	0	0	0	1	0	0	0	17017	159	6	3	1575	3	UNC5A	5	176304606	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	287495	176304606	4610654	1511	78676											
F12	2161	broad.mit.edu	37	chr5	176830304	176830304	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcagagcgtggtctcggaGggtcgcgcggcgccgcttgg	3	7	20	11	7	1	1	0	0	1	1	3	2	1	2	1	6	1	2	1	6	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:176830304G>T	uc003mgo.3	-	12	1531	c.1482C>A	c.(1480-1482)CCC>CCA	p.P494P	PFN3_uc003mgl.2_5'Flank|F12_uc011dfy.1_Missense_Mutation_p.P25H|F12_uc003mgn.3_Missense_Mutation_p.P25H|F12_uc010jkl.2_RNA	NM_000505	NP_000496	P00748	FA12_HUMAN	coagulation factor XII precursor	494	Peptidase S1.				Factor XII activation|fibrinolysis|innate immune response|positive regulation of blood coagulation|positive regulation of fibrinolysis|positive regulation of plasminogen activation|protein autoprocessing|response to misfolded protein|zymogen activation	extracellular space|plasma membrane	serine-type endopeptidase activity				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGGTCTCGGAGGGTCGCGCGG	0.672									Hereditary_Angioedema				13	46					4.3838e-07	4.47273e-07	1	1	0		T	176830304	T	T	176830304	2	4	151	1	0	0	0	0	0	0	0	1	5347	987	35	5		5	F12	5	176830304	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	525698	176830304	4084956	1512	78677											
DDX41	51428	broad.mit.edu	37	chr5	176939332	176939332	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagactcaccacacgcttTgttgatgaaggtagtggcga	12	9	11	9	2	1	3	1	2	0	1	1	4	1	3	1	2	1	3	1	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:176939332T>C	uc003mho.2	-	15	1633	c.1612A>G	c.(1612-1614)AAA>GAA	p.K538E	DOK3_uc003mhi.3_5'Flank|DOK3_uc003mhj.3_5'Flank|DOK3_uc003mhk.2_5'Flank|DOK3_uc003mhl.2_5'Flank|DDX41_uc003mhm.2_Missense_Mutation_p.K318E|DDX41_uc003mhn.2_Missense_Mutation_p.K407E|DDX41_uc003mhp.2_Missense_Mutation_p.K407E	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	538	Helicase C-terminal.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			CCACACGCTTTGTTGATGAAG	0.622													15	67					0	0	1	0	0		C	176939332	C	C	176939332	3	2	151	1	0	0	0	0	1	0	0	0	4364	1821	63	3	268	3	DDX41	5	176939332	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	109028	176939332	3975928	1513	78678											
FAM193B	54540	broad.mit.edu	37	chr5	176958383	176958383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagcagctcatccacatctCggtggtccacggcgggctcc	6	7	11	17	3	2	0	1	0	1	0	6	0	5	0	4	4	2	3	4	4	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:176958383C>T	uc003mhs.3	-	7	2665	c.1076G>A	c.(1075-1077)CGA>CAA	p.R359Q	FAM193B_uc003mht.2_Missense_Mutation_p.R18Q|FAM193B_uc003mhu.2_Intron|FAM193B_uc003mhv.2_Missense_Mutation_p.R18Q|FAM193B_uc003mhw.2_RNA	NM_019057	NP_061930	E9PET5	E9PET5_HUMAN	hypothetical protein LOC54540	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment											0						ATCCACATCTCGGTGGTCCAC	0.657													4	4					0	0	1	0	0		T	176958383	T	T	176958383	3	4	151	1	0	0	0	0	1	0	0	0	5536	884	31	1	1309	1	FAM193B	5	176958383	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	19051	176958383	3956877	1514	78679											
N4BP3	23138	broad.mit.edu	37	chr5	177548744	177548744	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaggggaggcaggaggcagCgaggccagagacagtgctga	11	3	19	8	1	0	2	0	1	0	1	0	6	0	4	1	6	2	3	1	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:177548744C>T	uc003mik.1	+	5	1624	c.1377C>T	c.(1375-1377)AGC>AGT	p.S459S	N4BP3_uc003mil.1_Silent_p.S128S	NM_015111	NP_055926	O15049	N4BP3_HUMAN	Nedd4 binding protein 3	459	Potential.					cytoplasmic vesicle membrane					0	all_cancers(89;0.00294)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAGGAGGCAGCGAGGCCAGAG	0.682													6	23					0	0	1	0	0		T	177548744	T	T	177548744	2	4	151	1	0	0	0	0	0	0	0	1	10131	767	27	1		1	N4BP3	5	177548744	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	590361	177548744	3366516	1515	78680											
CLK4	57396	broad.mit.edu	37	chr5	178040801	178040801	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgagctgcttcacggtaacGgcctacattttttacgattt	9	14	8	10	4	1	0	1	0	0	0	1	2	1	0	1	2	5	3	1	2	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:178040801G>A	uc003mjf.1	-	6	694	c.586C>T	c.(586-588)CGT>TGT	p.R196C	CLK4_uc003mjg.1_Missense_Mutation_p.R160C|CLK4_uc010jku.1_Missense_Mutation_p.R16C|CLK4_uc003mjh.1_Missense_Mutation_p.R16C|CLK4_uc010jkv.1_RNA|CLK4_uc011dgg.1_Missense_Mutation_p.R196C|CLK4_uc011dgh.1_Missense_Mutation_p.R16C	NM_020666	NP_065717	Q9HAZ1	CLK4_HUMAN	CDC-like kinase 4	196	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(1)	1	all_cancers(89;0.000969)|Renal(175;0.000159)|all_epithelial(37;0.000451)|Lung NSC(126;0.00545)|all_lung(126;0.00918)	all_cancers(40;0.0272)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.235)		TCACGGTAACGGCCTACATTT	0.368													35	142					0	0	1	0	0		A	178040801	A	A	178040801	3	1	151	1	0	0	0	0	1	0	0	0	3542	1116	39	1	891	1	CLK4	5	178040801	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	492057	178040801	2874459	1516	78681											
GRM6	2916	broad.mit.edu	37	chr5	178413444	178413444	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaccgcacgaaggtggccAccaccgtggtagtggccacg	8	6	14	13	4	0	0	0	0	0	0	0	1	0	0	5	4	1	3	5	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:178413444A>G	uc003mjr.2	-	8	1990	c.1811T>C	c.(1810-1812)GTG>GCG	p.V604A	GRM6_uc003mjq.2_5'Flank|GRM6_uc010jla.1_Missense_Mutation_p.V187A|GRM6_uc003mjs.1_Missense_Mutation_p.V224A	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	604	Helical; Name=1; (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		GAAGGTGGCCACCACCGTGGT	0.687													3	12					0	0	1	0	0		G	178413444	G	G	178413444	3	3	151	1	0	0	0	0	1	0	0	0	6817	159	6	3	834	3	GRM6	5	178413444	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	372643	178413444	2501816	1517	78682											
ADAMTS2	9509	broad.mit.edu	37	chr5	178552049	178552049	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcggctctcgggccgggcGtcattgcagtgcttggcgtg	2	9	18	12	6	2	0	1	0	1	0	3	0	2	0	1	5	2	3	1	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:178552049G>A	uc003mjw.2	-	19	2883	c.2883C>T	c.(2881-2883)GAC>GAT	p.D961D		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	961	TSP type-1 3.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CGGGCCGGGCGTCATTGCAGT	0.701													20	66					0	0	1	0	0		A	178552049	A	A	178552049	2	1	151	1	0	0	0	0	0	0	0	1	265	1136	40	1		1	ADAMTS2	5	178552049	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	138605	178552049	2363211	1518	78683											
ADAMTS2	9509	broad.mit.edu	37	chr5	178699958	178699958	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaggaggggacgtgggtggCcggcgatacaccacatgcac	10	4	17	10	3	0	1	0	0	0	1	0	4	0	3	2	6	2	1	2	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:178699958C>T	uc003mjw.2	-	3	642	c.642G>A	c.(640-642)CGG>CGA	p.R214R	ADAMTS2_uc011dgm.1_Silent_p.R214R	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	214					collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		ACGTGGGTGGCCGGCGATACA	0.662													15	39					0	0	1	0	0		T	178699958	T	T	178699958	2	4	151	1	0	0	0	0	0	0	0	1	265	726	26	2		2	ADAMTS2	5	178699958	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	147909	178699958	2215302	1519	78684											
RUFY1	80230	broad.mit.edu	37	chr5	179021905	179021905	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagcagaagaatgaagccatCacatcctttgaaggaaaaac	18	6	8	9	0	1	4	1	2	0	2	2	5	2	5	2	1	3	1	2	1	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:179021905C>T	uc003mka.1	+	12	1452	c.1452C>T	c.(1450-1452)ATC>ATT	p.I484I	RUFY1_uc003mkb.1_Silent_p.I376I|RUFY1_uc003mkc.1_Silent_p.I376I|RUFY1_uc003mkd.1_Silent_p.I86I	NM_025158	NP_079434	Q96T51	RUFY1_HUMAN	RUN and FYVE domain-containing 1 isoform a	484	Potential.				endocytosis|protein transport	early endosome membrane	lipid binding|zinc ion binding			ovary(4)|breast(1)	5	all_cancers(89;0.00018)|all_epithelial(37;8.37e-05)|Renal(175;0.000159)|Lung NSC(126;0.00108)|all_lung(126;0.00195)	all_cancers(40;0.0322)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ATGAAGCCATCACATCCTTTG	0.463										HNSCC(44;0.11)			13	63					0	0	1	0	0		T	179021905	T	T	179021905	2	4	151	1	0	0	0	0	0	0	0	1	13763	816	29	4		4	RUFY1	5	179021905	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	321947	179021905	1893355	1520	78685											
TBC1D9B	23061	broad.mit.edu	37	chr5	179290695	179290695	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgtgtcgtctgcaaggTcttcacattgcagggagccc	7	9	12	13	2	3	0	1	0	2	0	4	1	3	1	2	2	3	3	2	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:179290695T>C	uc003mlh.2	-	22	3543	c.3506A>G	c.(3505-3507)GAC>GGC	p.D1169G	TBC1D9B_uc003mli.2_Missense_Mutation_p.D1152G|TBC1D9B_uc003mlj.2_Missense_Mutation_p.D1151G|TBC1D9B_uc003mlf.2_Missense_Mutation_p.D243G|TBC1D9B_uc003mlg.2_Missense_Mutation_p.D328G|TBC1D9B_uc011dgv.1_Missense_Mutation_p.D328G	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	1169						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTCTGCAAGGTCTTCACATTG	0.632													22	78					0	0	1	0	0		C	179290695	C	C	179290695	3	2	151	1	0	0	0	0	1	0	0	0	15653	1667	58	3	250	3	TBC1D9B	5	179290695	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	268790	179290695	1624565	1521	78686											
TBC1D9B	23061	broad.mit.edu	37	chr5	179320379	179320379	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagaagagctcctggtcGcgggtgtccacacggatgct	9	7	15	10	3	0	3	0	0	0	3	3	5	2	4	2	3	2	2	2	3	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:179320379G>A	uc003mlh.2	-	5	703	c.666C>T	c.(664-666)CGC>CGT	p.R222R	TBC1D9B_uc003mli.2_Silent_p.R222R|TBC1D9B_uc003mlj.2_Silent_p.R222R	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	222						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCTCCTGGTCGCGGGTGTCCA	0.612													19	63					0	0	1	0	0		A	179320379	A	A	179320379	2	1	151	1	0	0	0	0	0	0	0	1	15653	1074	38	1		1	TBC1D9B	5	179320379	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	29684	179320379	1594881	1522	78687											
MAPK9	5601	broad.mit.edu	37	chr5	179663507	179663507	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagactgagaaggagtggcGttgctacttactgctgcatc	10	10	13	8	1	0	2	0	1	0	2	1	5	0	3	0	2	5	4	0	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:179663507G>A	uc003mls.3	-	12	1423	c.1152C>T	c.(1150-1152)AAC>AAT	p.N384N	MAPK9_uc003mlt.3_3'UTR|MAPK9_uc010jlc.2_Silent_p.N384N|MAPK9_uc003mlv.3_3'UTR	NM_002752	NP_002743	P45984	MK09_HUMAN	mitogen-activated protein kinase 9 isoform JNK2	384					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|protein binding|protein binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)	4	all_cancers(89;6.54e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0236)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAGGAGTGGCGTTGCTACTTA	0.488													22	122					0	0	1	0	0		A	179663507	A	A	179663507	2	1	151	1	0	0	0	0	0	0	0	1	9305	1136	40	1		1	MAPK9	5	179663507	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	343128	179663507	1251753	1523	78688											
CNOT6	57472	broad.mit.edu	37	chr5	179994949	179994949	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagagtcatgacaaaagatAacattggggttgcagtactg	15	9	11	6	0	1	3	1	1	0	2	1	3	1	3	0	2	3	3	0	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:179994949A>G	uc003mlx.2	+	9	1322	c.973A>G	c.(973-975)AAC>GAC	p.N325D	CNOT6_uc010jld.2_Missense_Mutation_p.N325D|CNOT6_uc010jle.2_Missense_Mutation_p.N320D	NM_015455	NP_056270	Q9ULM6	CNOT6_HUMAN	CCR4-NOT transcription complex, subunit 6	325					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	exonuclease activity|metal ion binding|protein binding|RNA binding				0	all_cancers(89;3.3e-05)|all_epithelial(37;7.38e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00543)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.023)		GACAAAAGATAACATTGGGGT	0.428													37	120					0	0	1	0	0		G	179994949	G	G	179994949	3	3	151	1	0	0	0	0	1	0	0	0	3625	362	13	3	1003	3	CNOT6	5	179994949	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	331442	179994949	920311	1524	78689											
BTNL9	153579	broad.mit.edu	37	chr5	180477189	180477189	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccaagcctaaggttcagTggagagaccaccagggacag	13	4	12	12	0	1	1	1	0	0	1	1	4	1	3	5	3	1	1	5	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr5:180477189T>C	uc003mmt.2	+	4	787	c.556T>C	c.(556-558)TGG>CGG	p.W186R	BTNL9_uc011dhi.1_Missense_Mutation_p.W117R	NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	186	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TAAGGTTCAGTGGAGAGACCA	0.582													20	80					0	0	1	0	0		C	180477189	C	C	180477189	3	2	151	1	0	0	0	0	1	0	0	0	1571	1696	59	3	566	3	BTNL9	5	180477189	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	482240	180477189	438071	1525	78690											
TUBB2A	7280	broad.mit.edu	37	chr6	3154142	3154142	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgaactccccttgttcGtcggccgtggcgtcctggta	3	12	11	15	5	0	0	0	0	0	0	6	1	3	0	5	3	1	2	5	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:3154142G>A	uc003mvc.2	-	4	1379	c.1293C>T	c.(1291-1293)GAC>GAT	p.D431D	TUBB2A_uc003mvb.2_Silent_p.D424D|TUBB2A_uc003mvd.2_Silent_p.D394D	NM_001069	NP_001060	Q13885	TBB2A_HUMAN	tubulin, beta 2	431					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			skin(1)	1	Ovarian(93;0.0386)	all_hematologic(90;0.0895)				CCCCTTGTTCGTCGGCCGTGG	0.567													26	69					0	0	1	0	0		A	3154142	A	A	3154142	2	1	151	1	0	0	0	0	0	0	0	1	16780	1136	40	1		1	TUBB2A	6	3154142	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08		3154142	167960925	1526	78691											
FARS2	10667	broad.mit.edu	37	chr6	5369143	5369143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccgttgttctcggtctacGacaacctttctccagtggtc	5	13	8	15	3	3	0	0	0	3	0	6	1	3	0	4	2	2	2	4	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:5369143G>A	uc010jnv.1	+	2	676	c.340G>A	c.(340-342)GAC>AAC	p.D114N	FARS2_uc003mwr.2_Missense_Mutation_p.D114N|FARS2_uc003mws.1_Missense_Mutation_p.D114N	NM_006567	NP_006558	O95363	SYFM_HUMAN	phenylalanyl-tRNA synthetase 2 precursor	114					phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)	CTCGGTCTACGACAACCTTTC	0.552													13	55					0	0	1	0	0		A	5369143	A	A	5369143	3	1	151	1	0	0	0	0	1	0	0	0	5692	1058	37	1	342	1	FARS2	6	5369143	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2215001	5369143	165745924	1527	78692											
F13A1	2162	broad.mit.edu	37	chr6	6224953	6224953	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagcaaaaacccagcattgGccataccggactggattctc	12	7	8	14	1	1	0	0	0	1	0	2	2	1	2	4	3	4	2	4	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:6224953G>A	uc003mwv.2	-	7	1062	c.939C>T	c.(937-939)GGC>GGT	p.G313G	F13A1_uc011dib.1_Silent_p.G250G	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	313					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	CCCAGCATTGGCCATACCGGA	0.428													49	193					0	0	1	0	0		A	6224953	A	A	6224953	2	1	151	1	0	0	0	0	0	0	0	1	5348	1190	42	2		2	F13A1	6	6224953	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	855810	6224953	164890114	1528	78693											
DSP	1832	broad.mit.edu	37	chr6	7580913	7580913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgacaaagaaacaaatgaccGgaaatgcctggaagatgaaa	20	4	10	7	2	0	4	0	2	0	2	0	7	0	6	2	2	2	0	2	2	6	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:7580913G>A	uc003mxp.1	+	23	4769	c.4490G>A	c.(4489-4491)CGG>CAG	p.R1497Q	DSP_uc003mxq.1_Intron	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1497	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		ACAAATGACCGGAAATGCCTG	0.403													36	96					0	0	1	0	0		A	7580913	A	A	7580913	3	1	151	1	0	0	0	0	1	0	0	0	4787	1116	39	1	4580	1	DSP	6	7580913	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1355960	7580913	163534154	1529	78694											
TXNDC5	81567	broad.mit.edu	37	chr6	7904918	7904918	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtatttgtctcccaggTcattccaagtcggctgcagc	6	14	10	11	1	2	0	1	0	1	0	5	0	3	0	2	2	2	4	2	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:7904918T>C	uc003mxv.2	-	2	334	c.302A>G	c.(301-303)GAC>GGC	p.D101G	TXNDC5_uc003mxw.2_Missense_Mutation_p.D58G|TXNDC5_uc010jnz.2_5'UTR|TXNDC5_uc010joa.1_5'UTR	NM_030810	NP_110437	Q8NBS9	TXND5_HUMAN	thioredoxin domain containing 5 isoform 1	101	Thioredoxin 1.				anti-apoptosis|cell redox homeostasis|cellular membrane organization|glycerol ether metabolic process|post-Golgi vesicle-mediated transport	endoplasmic reticulum lumen|lysosomal lumen	electron carrier activity|isomerase activity|protein disulfide oxidoreductase activity				0	Ovarian(93;0.0398)					GTCTCCCAGGTCATTCCAAGT	0.572													12	43					0	0	1	0	0		C	7904918	C	C	7904918	3	2	151	1	0	0	0	0	1	0	0	0	16825	1667	58	3	1032	3	TXNDC5	6	7904918	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	324005	7904918	163210149	1530	78695											
MAK	4117	broad.mit.edu	37	chr6	10764770	10764770	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacggttcacaatatttaggTtttttgctgtaggattataa	11	17	8	5	1	1	0	1	0	0	0	1	1	1	1	0	3	1	4	0	3	6	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:10764770T>C	uc003mzl.2	-	13	2016	c.1787A>G	c.(1786-1788)AAC>AGC	p.N596S	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Missense_Mutation_p.N596S	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	596					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				AATATTTAGGTTTTTTGCTGT	0.468													36	134					0	0	1	0	0		C	10764770	C	C	10764770	3	2	151	1	0	0	0	0	1	0	0	0	9215	1725	60	3	88	3	MAK	6	10764770	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2859852	10764770	160350297	1531	78696											
MAK	4117	broad.mit.edu	37	chr6	10791920	10791920	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcttaccgaaatggagaaTcttttttccttttttcttta	10	20	4	7	1	3	1	0	0	3	1	4	3	4	1	2	1	1	0	2	1	5	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:10791920T>A	uc003mzl.2	-	9	1533	c.1304A>T	c.(1303-1305)GAT>GTT	p.D435V	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Missense_Mutation_p.D435V|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	435					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				AAATGGAGAATCTTTTTTCCT	0.348													16	89					0	0	1	0	0		A	10791920	A	A	10791920	3	1	151	1	0	0	0	0	1	0	0	0	9215	1435	50	5	587	5	MAK	6	10791920	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	27150	10791920	160323147	1532	78697											
NEDD9	4739	broad.mit.edu	37	chr6	11190367	11190367	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggagccaccgtgtgggtActccgttgagttcatgatgc	6	11	14	10	2	1	2	1	2	0	0	2	3	2	3	3	2	3	3	3	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:11190367A>G	uc003mzv.2	-	5	1902	c.1735T>C	c.(1735-1737)TAC>CAC	p.Y579H	NEDD9_uc010joz.2_Missense_Mutation_p.Y579H|NEDD9_uc003mzw.3_Missense_Mutation_p.Y433H	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	579					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			CCGTGTGGGTACTCCGTTGAG	0.622													12	76					0	0	1	0	0		G	11190367	G	G	11190367	3	3	151	1	0	0	0	0	1	0	0	0	10332	391	14	3	781	3	NEDD9	6	11190367	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	398447	11190367	159924700	1533	78698											
HIVEP1	3096	broad.mit.edu	37	chr6	12131031	12131031	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagagtatgtatatgtcCgaggcaggggaagaggaaaa	16	7	15	3	1	0	3	0	1	0	2	1	6	1	5	1	4	0	3	1	4	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:12131031C>T	uc003nac.2	+	6	6420	c.6241C>T	c.(6241-6243)CGA>TGA	p.R2081*	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2081					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				TGTATATGTCCGAGGCAGGGG	0.343													25	90					0	0	1	0	0		T	12131031	T	T	12131031	4	4	151	1	0	0	0	0	0	1	0	0	7202	644	23	1	6259	1	HIVEP1	6	12131031	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	940664	12131031	158984036	1534	78699											
GFOD1	54438	broad.mit.edu	37	chr6	13486930	13486930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caggttaatgcacaccaagtCcacgtcctgatgcagcagca	12	7	9	13	1	0	1	0	1	0	0	2	1	2	1	3	1	4	5	3	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:13486930C>T	uc003nat.1	-	1	858	c.193G>A	c.(193-195)GAC>AAC	p.D65N	GFOD1_uc003nas.1_5'Flank|C6orf114_uc003nav.2_5'Flank	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	65						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			CACACCAAGTCCACGTCCTGA	0.627													7	40					0	0	1	0	0		T	13486930	T	T	13486930	3	4	151	1	0	0	0	0	1	0	0	0	6358	855	30	4	987	4	GFOD1	6	13486930	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1355899	13486930	157628137	1535	78700											
SIRT5	23408	broad.mit.edu	37	chr6	13595769	13595769	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgagaattacaagagtcCaatttgtccagctttatcag	12	12	9	8	0	1	2	1	1	0	2	3	3	3	2	2	1	2	2	2	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:13595769C>A	uc003nay.2	+	6	832	c.536C>A	c.(535-537)CCA>CAA	p.P179Q	SIRT5_uc003naw.2_Missense_Mutation_p.P179Q|SIRT5_uc003nax.2_Missense_Mutation_p.P71Q|SIRT5_uc011dit.1_Missense_Mutation_p.P179Q	NM_012241	NP_036373	Q9NXA8	SIRT5_HUMAN	sirtuin 5 isoform 1	179	Deacetylase sirtuin-type.				chromatin silencing|protein ADP-ribosylation|protein deacetylation	mitochondrial intermembrane space|mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|zinc ion binding			skin(2)|upper_aerodigestive_tract(1)	3	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.176)		Suramin(DB04786)	TACAAGAGTCCAATTTGTCCA	0.338													30	156					6.00712e-18	6.25708e-18	1	1	0		A	13595769	A	A	13595769	3	1	151	1	0	0	0	0	1	0	0	0	14366	594	21	5	550	5	SIRT5	6	13595769	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	108839	13595769	157519298	1536	78701											
MYLIP	29116	broad.mit.edu	37	chr6	16141988	16141988	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacaaccagaacactgccaaGtataactatgaggagctctg	15	8	8	10	0	1	2	0	1	1	1	1	3	1	3	2	1	6	2	2	1	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:16141988G>T	uc003nbq.2	+	3	648	c.411G>T	c.(409-411)AAG>AAT	p.K137N	MYLIP_uc003nbr.2_5'UTR	NM_013262	NP_037394	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting	137	FERM.				cellular component movement|nervous system development	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)			ACACTGCCAAGTATAACTATG	0.498													19	92					2.4624e-09	2.52993e-09	1	1	0		T	16141988	T	T	16141988	3	4	151	1	0	0	0	0	1	0	0	0	10073	1020	36	5	421	5	MYLIP	6	16141988	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2546219	16141988	154973079	1537	78702											
ATXN1	6310	broad.mit.edu	37	chr6	16326924	16326924	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgggtaggcggcctgggTgaccagggcctcagggttga	5	7	20	9	1	1	2	1	2	0	0	1	2	1	2	3	7	0	3	3	7	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:16326924T>C	uc003nbt.2	-	8	2589	c.1618A>G	c.(1618-1620)ACC>GCC	p.T540A	ATXN1_uc010jpi.2_Missense_Mutation_p.T540A|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	540	Self-association.|Interaction with USP7.|RNA-binding.				cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				GCGGCCTGGGTGACCAGGGCC	0.667													12	44					0	0	1	0	0		C	16326924	C	C	16326924	3	2	151	1	0	0	0	0	1	0	0	0	1210	1696	59	3	837	3	ATXN1	6	16326924	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	184936	16326924	154788143	1538	78703											
ATXN1	6310	broad.mit.edu	37	chr6	16326947	16326947	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagggcctcagggttgaagTtctcgctcttgggaagggcg	6	9	16	10	2	3	1	1	1	2	0	4	2	3	2	2	4	0	3	2	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:16326947T>C	uc003nbt.2	-	8	2566	c.1595A>G	c.(1594-1596)AAC>AGC	p.N532S	ATXN1_uc010jpi.2_Missense_Mutation_p.N532S|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	532	Self-association.				cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				AGGGTTGAAGTTCTCGCTCTT	0.672													13	82					0	0	1	0	0		C	16326947	C	C	16326947	3	2	151	1	0	0	0	0	1	0	0	0	1210	1725	60	3	860	3	ATXN1	6	16326947	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	23	16326947	154788120	1539	78704											
NUP153	9972	broad.mit.edu	37	chr6	17628924	17628924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagctccaaaggcaaaagtgGcttttgctggctgttcagat	10	11	12	8	0	1	1	1	0	0	1	2	2	2	1	1	3	2	6	1	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:17628924G>A	uc003ncd.1	-	18	3706	c.3506C>T	c.(3505-3507)GCC>GTC	p.A1169V	NUP153_uc011dje.1_Missense_Mutation_p.A1200V|NUP153_uc010jpl.1_Missense_Mutation_p.A1127V	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	1169					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			GGCAAAAGTGGCTTTTGCTGG	0.323													11	32					0	0	1	0	0		A	17628924	A	A	17628924	3	1	151	1	0	0	0	0	1	0	0	0	10774	1203	42	2	941	2	NUP153	6	17628924	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1301977	17628924	153486143	1540	78705											
NUP153	9972	broad.mit.edu	37	chr6	17637582	17637582	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgtcaatgtaagggctcGcttcacacaagttccaggtt	10	11	9	11	1	2	0	2	0	0	0	4	0	3	0	1	2	0	5	1	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:17637582G>A	uc003ncd.1	-	16	2466	c.2266C>T	c.(2266-2268)CGA>TGA	p.R756*	NUP153_uc011dje.1_Nonsense_Mutation_p.R787*|NUP153_uc010jpl.1_Nonsense_Mutation_p.R714*	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	756					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			GTAAGGGCTCGCTTCACACAA	0.438													69	209					0	0	1	0	0		A	17637582	A	A	17637582	4	1	151	1	0	0	0	0	0	1	0	0	10774	1095	38	1	2189	1	NUP153	6	17637582	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	8658	17637582	153477485	1541	78706											
CDKAL1	54901	broad.mit.edu	37	chr6	21065338	21065338	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcctggagaaacagatcAggattttcaagaaacagtga	15	11	9	6	0	2	4	2	1	0	3	3	6	3	5	1	2	2	0	1	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:21065338A>G	uc003ndc.1	+	12	1289	c.1115A>G	c.(1114-1116)CAG>CGG	p.Q372R	CDKAL1_uc003ndd.1_Missense_Mutation_p.Q372R|CDKAL1_uc003nde.1_Missense_Mutation_p.Q302R|CDKAL1_uc003ndf.1_5'UTR	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	372					RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			GAAACAGATCAGGATTTTCAA	0.343													5	140					0	0	1	0	0		G	21065338	G	G	21065338	3	3	151	1	0	0	0	0	1	0	0	0	3155	188	7	3	1153	3	CDKAL1	6	21065338	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3427756	21065338	150049729	1542	78707											
PRL	5617	broad.mit.edu	37	chr6	22290499	22290499	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctccggggcttcttgcatAccacgtacttccgtgaccag	6	10	10	15	3	1	1	0	1	1	0	3	1	3	1	5	2	3	3	5	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:22290499A>G	uc003ndp.2	-	4	915	c.396T>C	c.(394-396)GGT>GGC	p.G132G	PRL_uc003ndo.2_Silent_p.G133G|PRL_uc003ndq.2_Silent_p.G132G	NM_000948	NP_000939	P01236	PRL_HUMAN	prolactin precursor	132					cell proliferation|cell surface receptor linked signaling pathway|female pregnancy|lactation|positive regulation of JAK-STAT cascade|regulation of multicellular organism growth	cytosol|extracellular region	hormone activity|prolactin receptor binding				0	Ovarian(93;0.163)					CTTCTTGCATACCACGTACTT	0.483													20	95					0	0	1	0	0		G	22290499	G	G	22290499	2	3	151	1	0	0	0	0	0	0	0	1	12550	378	14	3		3	PRL	6	22290499	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1225161	22290499	148824568	1543	78708											
MRS2	57380	broad.mit.edu	37	chr6	24403466	24403466	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccggctccgcgtggcaggTactgcccttccccggcaaca	6	6	12	17	4	0	0	0	0	0	0	2	1	2	0	5	4	3	4	5	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:24403466T>C	uc003neb.2	+	1	312	c.190_splice	c.e1+2	p.G64_splice	MRS2_uc003nea.2_Splice_Site_p.G64_splice|MRS2_uc011djl.1_Splice_Site_p.G64_splice|MRS2_uc011djm.1_Splice_Site|MRS2_uc011djn.1_Splice_Site_p.G64_splice	NM_020662	NP_065713	Q9HD23	MRS2_HUMAN	MRS2-like, magnesium homeostasis factor						ion transport	integral to membrane|mitochondrial inner membrane					0						GCGTGGCAGGTACTGCCCTTC	0.711													5	11					0	0	1	0	0		C	24403466	C	C	24403466	5	2	151	1	0	0	0	0	0	0	1	0	9869	1652	57	3	194	3	MRS2	6	24403466	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2112967	24403466	146711601	1544	78709											
MRS2	57380	broad.mit.edu	37	chr6	24423918	24423918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggagcatcctaacaaaccGttaggaacagccccgtggat	14	6	10	11	2	0	0	0	0	0	0	1	3	1	3	4	3	5	2	4	3	5	2	rs114959453	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:24423918G>A	uc003neb.2	+	11	1450	c.1328G>A	c.(1327-1329)CGT>CAT	p.R443H	MRS2_uc011djl.1_Missense_Mutation_p.R446H|MRS2_uc011djm.1_RNA|MRS2_uc011djn.1_Missense_Mutation_p.R393H|MRS2_uc003nec.2_Missense_Mutation_p.R320H	NM_020662	NP_065713	Q9HD23	MRS2_HUMAN	MRS2-like, magnesium homeostasis factor	443	Mitochondrial matrix (Potential).				ion transport	integral to membrane|mitochondrial inner membrane					0						CTAACAAACCGTTAGGAACAG	0.383													8	21					0	0	1	0	0		A	24423918	A	A	24423918	3	1	151	1	0	0	0	0	1	0	0	0	9869	1145	40	1	1370	1	MRS2	6	24423918	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	20452	24423918	146691149	1545	78710											
TDP2	51567	broad.mit.edu	37	chr6	24666997	24666997	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagcttgcgaccgaggcaaActccacacacagaagtcgcc	12	4	10	15	3	0	1	0	0	0	1	2	3	1	1	3	1	3	3	3	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:24666997A>G	uc003nej.2	-	1	119	c.94T>C	c.(94-96)TTT>CTT	p.F32L	TDP2_uc003nei.2_5'Flank|TDP2_uc010jpu.1_Missense_Mutation_p.F32L|ACOT13_uc010jpv.2_5'Flank|ACOT13_uc003nek.2_5'Flank	NM_016614	NP_057698	O95551	TYDP2_HUMAN	TRAF and TNF receptor-associated protein	32					cell surface receptor linked signaling pathway|double-strand break repair	PML body	5'-tyrosyl-DNA phosphodiesterase activity|magnesium ion binding|nuclease activity|protein binding|transcription corepressor activity			ovary(1)|lung(1)	2						ACCGAGGCAAACTCCACACAC	0.627								Direct_reversal_of_damage|Editing_and_processing_nucleases					34	221					0	0	1	0	0		G	24666997	G	G	24666997	3	3	151	1	0	0	0	0	1	0	0	0	15754	43	2	3	1022	3	TDP2	6	24666997	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	243079	24666997	146448070	1546	78711											
SCGN	10590	broad.mit.edu	37	chr6	25652698	25652698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttctggcaggtctggcagCgctttgatgcggatggtgag	5	11	17	8	2	2	2	0	2	2	0	2	3	2	3	0	5	2	4	0	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:25652698C>T	uc003nfb.2	+	1	270	c.67C>T	c.(67-69)CGC>TGC	p.R23C	SCGN_uc010jpz.2_5'UTR	NM_006998	NP_008929	O76038	SEGN_HUMAN	secretagogin precursor	23	EF-hand 1.					extracellular region|transport vesicle membrane	calcium ion binding			ovary(2)|pancreas(1)	3						GGTCTGGCAGCGCTTTGATGC	0.612													5	32					0	0	1	0	0		T	25652698	T	T	25652698	3	4	151	1	0	0	0	0	1	0	0	0	13928	768	27	1	69	1	SCGN	6	25652698	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	985701	25652698	145462369	1547	78712											
HIST1H2BB	3018	broad.mit.edu	37	chr6	26043727	26043727	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggccttggatgagatgccGgtgtcggggtggacctgctt	5	11	17	8	2	0	1	0	1	0	1	1	4	0	3	3	6	2	1	3	6	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:26043727G>A	uc003nfu.2	-	1	159	c.159C>T	c.(157-159)ACC>ACT	p.T53T	HIST1H3C_uc003nfv.2_5'Flank	NM_021062	NP_066406	P33778	H2B1B_HUMAN	histone cluster 1, H2bb	53					nucleosome assembly	nucleosome|nucleus	DNA binding				0						ATGAGATGCCGGTGTCGGGGT	0.542													52	220					0	0	1	0	0		A	26043727	A	A	26043727	2	1	151	1	0	0	0	0	0	0	0	1	7157	1103	39	1		1	HIST1H2BB	6	26043727	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	391029	26043727	145071340	1548	78713											
HIST1H1C	3006	broad.mit.edu	37	chr6	26056487	26056487	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcagagcagccagagaaActccgctacgctctttagag	11	10	9	11	2	2	3	1	0	1	3	3	4	3	3	2	0	4	3	2	0	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:26056487A>G	uc003nfw.2	-	1	213	c.170T>C	c.(169-171)GTT>GCT	p.V57A		NM_005319	NP_005310	P16403	H12_HUMAN	histone cluster 1, H1c	57	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)|skin(2)	5						AGCCAGAGAAACTCCGCTACG	0.572													20	85					0	0	1	0	0		G	26056487	G	G	26056487	3	3	151	1	0	0	0	0	1	0	0	0	7140	43	2	3	475	3	HIST1H1C	6	26056487	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	12760	26056487	145058580	1549	78714											
HIST1H2BD	3017	broad.mit.edu	37	chr6	26158506	26158506	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagcgcagccgcaaggagAgctattcagtgtatgtgtac	11	8	13	9	2	1	1	1	0	0	1	1	2	1	1	1	1	4	6	1	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:26158506A>T	uc003ngr.2	+	1	158	c.109A>T	c.(109-111)AGC>TGC	p.S37C	HIST1H2BD_uc003ngs.2_Missense_Mutation_p.S37C	NM_021063	NP_066407	P58876	H2B1D_HUMAN	histone cluster 1, H2bd	37					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|pancreas(1)	2						CCGCAAGGAGAGCTATTCAGT	0.542													49	189					0	0	1	0	0		T	26158506	T	T	26158506	3	4	151	1	0	0	0	0	1	0	0	0	7159	304	11	5	111	5	HIST1H2BD	6	26158506	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	102019	26158506	144956561	1550	78715											
HIST1H2BH	8345	broad.mit.edu	37	chr6	26251978	26251978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagaagcgtaaacgcagcCgcaaggagagctactccgta	14	4	12	11	4	0	2	0	0	0	2	1	3	1	2	2	1	5	6	2	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:26251978C>T	uc003nhh.2	+	1	100	c.100C>T	c.(100-102)CGC>TGC	p.R34C	HIST1H3F_uc003nhg.1_5'Flank	NM_003524	NP_003515	Q93079	H2B1H_HUMAN	histone cluster 1, H2bh	34					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)	3						TAAACGCAGCCGCAAGGAGAG	0.557													52	131					0	0	1	0	0		T	26251978	T	T	26251978	3	4	151	1	0	0	0	0	1	0	0	0	7163	652	23	1	102	1	HIST1H2BH	6	26251978	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	93472	26251978	144863089	1551	78716											
BTN2A1	11120	broad.mit.edu	37	chr6	26463655	26463655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcctcttcatggtcaccaCggctgtgatcatcagagaca	9	9	10	13	2	5	2	4	1	1	1	5	3	5	2	2	3	0	1	2	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:26463655C>T	uc003nib.1	+	4	826	c.614C>T	c.(613-615)ACG>ATG	p.T205M	BTN2A1_uc003nic.1_Missense_Mutation_p.T205M|BTN2A1_uc003nid.1_Missense_Mutation_p.T53M|BTN2A1_uc011dko.1_Missense_Mutation_p.T144M|BTN2A1_uc010jqk.1_5'Flank	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1	205	Extracellular (Potential).				lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						ATGGTCACCACGGCTGTGATC	0.542													48	157					0	0	1	0	0		T	26463655	T	T	26463655	3	4	151	1	0	0	0	0	1	0	0	0	1563	536	19	1	624	1	BTN2A1	6	26463655	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	211677	26463655	144651412	1552	78717											
HIST1H2AH	85235	broad.mit.edu	37	chr6	27114940	27114940	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagcaaggcggtaaagcTcgcgccaaggccaagacccg	12	2	14	13	4	0	1	0	0	0	1	1	1	0	1	3	4	2	4	3	4	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:27114940T>C	uc003niz.2	+	1	33	c.33T>C	c.(31-33)GCT>GCC	p.A11A	HIST1H2BK_uc003nix.1_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080596	NP_542163	Q96KK5	H2A1H_HUMAN	histone cluster 1, H2ah	11					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GCGGTAAAGCTCGCGCCAAGG	0.582													17	86					0	0	1	0	0		C	27114940	C	C	27114940	2	2	151	1	0	0	0	0	0	0	0	1	7150	1538	54	3		3	HIST1H2AH	6	27114940	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	651285	27114940	144000127	1553	78718											
HIST1H4L	8368	broad.mit.edu	37	chr6	27841075	27841075	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggcgtgctccgtgtaggTaactgcatcgcggattacat	7	13	12	9	4	0	0	0	0	0	0	2	1	1	1	1	3	4	4	1	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:27841075T>C	uc003njz.2	-	1	215	c.214A>G	c.(214-216)ACC>GCC	p.T72A	HIST1H3I_uc003njy.2_5'Flank	NM_003546	NP_003537	P62805	H4_HUMAN	histone cluster 1, H4l	72					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)|breast(1)	2						TCCGTGTAGGTAACTGCATCG	0.562													20	63					0	0	1	0	0		C	27841075	C	C	27841075	3	2	151	1	0	0	0	0	1	0	0	0	7192	1638	57	3	101	3	HIST1H4L	6	27841075	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	726135	27841075	143273992	1554	78719											
ZNF165	7718	broad.mit.edu	37	chr6	28056918	28056918	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgctatgaatgtaatgaAtgtgggaaaagctttgcaga	15	11	12	3	0	0	4	0	2	0	2	0	5	0	5	0	1	3	4	0	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:28056918A>T	uc003nkg.2	+	5	2212	c.1128A>T	c.(1126-1128)GAA>GAT	p.E376D	ZNF165_uc003nkh.2_Missense_Mutation_p.E376D|ZNF165_uc003nki.3_Missense_Mutation_p.E376D|ZSCAN12P1_uc003nkj.3_5'Flank	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	376	C2H2-type 3.				viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AATGTAATGAATGTGGGAAAA	0.448													18	78					0	0	1	0	0		T	28056918	T	T	28056918	3	4	151	1	0	0	0	0	1	0	0	0	17765	98	4	5	1138	5	ZNF165	6	28056918	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	215843	28056918	143058149	1555	78720											
ZSCAN16	80345	broad.mit.edu	37	chr6	28093556	28093556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagagactggagaggaggCagtgacggtactggaggatc	11	6	17	7	1	0	3	0	1	0	2	2	8	1	6	1	6	1	2	1	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:28093556C>T	uc003nkm.2	+	2	435	c.335C>T	c.(334-336)GCA>GTA	p.A112V	uc010jqw.1_Intron|uc003nkk.1_RNA|uc003nkl.1_Intron|ZSCAN16_uc011dky.1_Missense_Mutation_p.A112V	NM_025231	NP_079507	Q9H4T2	ZSC16_HUMAN	zinc finger and SCAN domain containing 16	112	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)	1						GGAGAGGAGGCAGTGACGGTA	0.328													15	42					0	0	1	0	0		T	28093556	T	T	28093556	3	4	151	1	0	0	0	0	1	0	0	0	18254	710	25	2	337	2	ZSCAN16	6	28093556	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	36638	28093556	143021511	1556	78721											
ZNF193	7746	broad.mit.edu	37	chr6	28200920	28200920	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacactgcaacctcattcgCcatcagaagatccacacagt	13	7	6	15	2	2	2	2	0	0	2	4	3	3	2	3	0	2	1	3	0	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:28200920C>T	uc003nkq.1	+	4	1264	c.1149C>T	c.(1147-1149)CGC>CGT	p.R383R	ZNF193_uc003nkr.1_Silent_p.R383R|ZNF193_uc010jqz.1_Silent_p.R434R	NM_006299	NP_006290	O15535	ZN193_HUMAN	zinc finger protein 193	383	C2H2-type 5.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ACCTCATTCGCCATCAGAAGA	0.498													14	64					0	0	1	0	0		T	28200920	T	T	28200920	2	4	151	1	0	0	0	0	0	0	0	1	17782	726	26	2		2	ZNF193	6	28200920	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	107364	28200920	142914147	1557	78722											
NKAPL	222698	broad.mit.edu	37	chr6	28227368	28227368	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtcgctctgggtcgcgaggGcggctcccaagattccgcaa	7	7	14	13	5	1	1	0	0	1	1	5	2	3	1	2	3	0	3	2	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:28227368G>A	uc003nkt.2	+	1	271	c.219G>A	c.(217-219)GGG>GGA	p.G73G	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	73										upper_aerodigestive_tract(1)|ovary(1)	2						GGTCGCGAGGGCGGCTCCCAA	0.612													25	67					0	0	1	0	0		A	28227368	A	A	28227368	2	1	151	1	0	0	0	0	0	0	0	1	10459	1190	42	2		2	NKAPL	6	28227368	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	26448	28227368	142887699	1558	78723											
ZNF187	7741	broad.mit.edu	37	chr6	28239891	28239891	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgaagagaccacaggacCtcgagaagcactaagtcggc	14	6	11	10	2	0	3	0	1	0	2	2	6	0	4	2	2	1	1	2	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:28239891C>A	uc011dld.1	+	2	464	c.194C>A	c.(193-195)CCT>CAT	p.P65H	ZNF187_uc011dlc.1_Missense_Mutation_p.P65H|ZNF187_uc003nku.3_Intron|ZNF187_uc003nkw.3_5'UTR|ZNF187_uc011dle.1_5'UTR|ZNF187_uc011dlf.1_Intron|ZNF187_uc011dlg.1_5'UTR	NM_001111039	NP_001104509	Q16670	ZN187_HUMAN	zinc finger protein 187 isoform b	65	SCAN box.				viral reproduction	nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ACCACAGGACCTCGAGAAGCA	0.542													3	19					0.00909568	0.00914281	1	1	0		A	28239891	A	A	28239891	3	1	151	1	0	0	0	0	1	0	0	0	17778	681	24	5	196	5	ZNF187	6	28239891	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	12523	28239891	142875176	1559	78724											
ZNF323	64288	broad.mit.edu	37	chr6	28294405	28294405	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attctctggtgctcaatgagTactgaactcttagtgaagct	10	14	9	8	0	3	3	1	3	2	0	4	3	3	3	0	1	4	3	0	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:28294405T>C	uc003nla.2	-	4	1159	c.759A>G	c.(757-759)GTA>GTG	p.V253V	ZNF323_uc003nld.2_Silent_p.V253V|ZNF323_uc010jra.2_Silent_p.V253V|ZNF323_uc003nlb.2_Silent_p.V94V|ZNF323_uc010jrb.2_Silent_p.V94V|ZNF323_uc003nlc.2_Silent_p.V253V	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	253	C2H2-type 1.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GCTCAATGAGTACTGAACTCT	0.502													22	149					0	0	1	0	0		C	28294405	C	C	28294405	2	2	151	1	0	0	0	0	0	0	0	1	17868	1625	57	3		3	ZNF323	6	28294405	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	54514	28294405	142820662	1560	78725											
ZNF311	282890	broad.mit.edu	37	chr6	28963503	28963503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgcttaggtctgagctccGactgaaggcccttccacact	7	12	9	13	1	1	2	0	2	1	0	3	3	3	2	3	2	2	2	3	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:28963503G>A	uc003nlu.2	-	7	1789	c.1276C>T	c.(1276-1278)CGG>TGG	p.R426W	ZNF311_uc011dlk.1_Missense_Mutation_p.R334W|ZNF311_uc003nlv.2_Missense_Mutation_p.R334W	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	426	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						TCTGAGCTCCGACTGAAGGCC	0.512													24	118					0	0	1	0	0		A	28963503	A	A	28963503	3	1	151	1	0	0	0	0	1	0	0	0	17859	1057	37	1	728	1	ZNF311	6	28963503	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	669098	28963503	142151564	1561	78726											
OR2B3	442184	broad.mit.edu	37	chr6	29054534	29054534	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaccacagcgtggcatgttAagagtcaaggaagactgcag	13	7	13	8	1	1	3	1	1	0	2	1	4	1	4	1	2	2	3	1	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:29054534A>G	uc003nlx.2	-	1	557	c.492T>C	c.(490-492)CTT>CTC	p.L164L		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						GTGGCATGTTAAGAGTCAAGG	0.483													16	58					0	0	1	0	0		G	29054534	G	G	29054534	2	3	151	1	0	0	0	0	0	0	0	1	11009	349	13	3		3	OR2B3	6	29054534	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	91031	29054534	142060533	1562	78727											
OR2J2	26707	broad.mit.edu	37	chr6	29141711	29141711	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgtatgctggttgcatggTtcaactttactttgttcttg	5	19	9	8	1	2	0	1	0	1	0	3	0	2	0	0	2	4	6	0	2	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:29141711T>C	uc011dlm.1	+	1	401	c.299T>C	c.(298-300)GTT>GCT	p.V100A		NM_030905	NP_112167	O76002	OR2J2_HUMAN	olfactory receptor, family 2, subfamily J,	100	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGTTGCATGGTTCAACTTTAC	0.478													82	299					0	0	1	0	0		C	29141711	C	C	29141711	3	2	151	1	0	0	0	0	1	0	0	0	11022	1725	60	3	301	3	OR2J2	6	29141711	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	87177	29141711	141973356	1563	78728											
OR2J2	26707	broad.mit.edu	37	chr6	29142197	29142197	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcatgtgcatgtatctccAgccaccatcagaaaattctc	12	11	6	12	0	4	1	2	0	2	1	6	1	4	1	3	0	2	2	3	0	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:29142197A>G	uc011dlm.1	+	1	887	c.785A>G	c.(784-786)CAG>CGG	p.Q262R		NM_030905	NP_112167	O76002	OR2J2_HUMAN	olfactory receptor, family 2, subfamily J,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGTATCTCCAGCCACCATCA	0.428													38	160					0	0	1	0	0		G	29142197	G	G	29142197	3	3	151	1	0	0	0	0	1	0	0	0	11022	188	7	3	787	3	OR2J2	6	29142197	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	486	29142197	141972870	1564	78729											
OR14J1	442191	broad.mit.edu	37	chr6	29275052	29275052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaattcattaatgagattGcactggctgcattcacaacg	13	12	8	8	1	2	2	2	2	0	1	2	3	2	2	0	1	3	3	0	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:29275052G>A	uc011dln.1	+	1	586	c.586G>A	c.(586-588)GCA>ACA	p.A196T		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	196	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TAATGAGATTGCACTGGCTGC	0.438													46	214					0	0	1	0	0		A	29275052	A	A	29275052	3	1	151	1	0	0	0	0	1	0	0	0	10967	1319	46	2	588	2	OR14J1	6	29275052	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	132855	29275052	141840015	1565	78730											
OR11A1	26531	broad.mit.edu	37	chr6	29394640	29394640	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacagcagagggtgcaacaTaaaagatcatgagcgttcca	15	6	12	8	1	1	3	1	1	0	2	2	4	2	4	1	2	4	3	1	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:29394640T>C	uc003nmg.2	-	1	870	c.779A>G	c.(778-780)TAT>TGT	p.Y260C		NM_013937	NP_039225	Q9GZK7	O11A1_HUMAN	olfactory receptor, family 11, subfamily A,	260	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GGGTGCAACATAAAAGATCAT	0.522													38	115					0	0	1	0	0		C	29394640	C	C	29394640	3	2	151	1	0	0	0	0	1	0	0	0	10943	1406	49	3	172	3	OR11A1	6	29394640	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	119588	29394640	141720427	1566	78731											
HLA-F	3134	broad.mit.edu	37	chr6	29694737	29694737	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggggtgctcttccaaggaTatttgggctgcctccggagt	5	12	15	9	1	1	0	0	0	1	0	3	2	3	2	3	5	2	2	3	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:29694737T>A	uc003nno.3	+	7	1238	c.1114T>A	c.(1114-1116)TAT>AAT	p.Y372N	HLA-F_uc011dlx.1_Missense_Mutation_p.Y372N|HLA-F_uc011dly.1_RNA|LOC285830_uc003nnp.2_RNA|LOC285830_uc011dlz.1_RNA	NM_001098479	NP_001091949	P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	Error:Variant_position_missing_in_P30511_after_alignment					antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity				0						CTTCCAAGGATATTTGGGCTG	0.493													49	201					0	0	1	0	0		A	29694737	A	A	29694737	3	1	151	1	0	0	0	0	1	0	0	0	7227	1406	49	5	1149	5	HLA-F	6	29694737	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	300097	29694737	141420330	1567	78732											
HLA-G	3135	broad.mit.edu	37	chr6	29796520	29796520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtggctgaacaaaggagaGcctacctggagggcacgtgc	11	6	15	9	1	0	2	0	1	0	1	0	4	0	3	2	4	4	2	2	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:29796520G>A	uc003nnw.2	+	4	722	c.544G>A	c.(544-546)GCC>ACC	p.A182T	HLA-G_uc011dmb.1_Missense_Mutation_p.A154T|HLA-G_uc003raj.3_Missense_Mutation_p.A187T|HLA-G_uc003nnz.3_Intron|HLA-G_uc010jrn.2_Intron|HLA-G_uc003nny.3_Intron|HLA-G_uc003ran.1_5'Flank	NM_002127	NP_002118	P17693	HLAG_HUMAN	major histocompatibility complex, class I, G	182	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|cellular defense response|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			ovary(3)|central_nervous_system(1)	4						ACAAAGGAGAGCCTACCTGGA	0.657													9	72					0	0	1	0	0		A	29796520	A	A	29796520	3	1	151	1	0	0	0	0	1	0	0	0	7228	971	34	2	554	2	HLA-G	6	29796520	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	101783	29796520	141318547	1568	78733											
TRIM31	11074	broad.mit.edu	37	chr6	30078246	30078246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcagctgcctgggtggCatgttctgcttggtcttcag	4	13	13	11	0	3	0	1	0	2	0	4	0	4	0	2	3	4	5	2	3	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:30078246C>T	uc003npg.1	-	4	833	c.723G>A	c.(721-723)ATG>ATA	p.M241I	TRIM31_uc003npi.3_RNA	NM_007028	NP_008959	Q9BZY9	TRI31_HUMAN	tripartite motif protein 31	241						mitochondrion	ligase activity|zinc ion binding			lung(1)	1						GCCTGGGTGGCATGTTCTGCT	0.557													45	193					0	0	1	0	0		T	30078246	T	T	30078246	3	4	151	1	0	0	0	0	1	0	0	0	16531	710	25	2	578	2	TRIM31	6	30078246	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	281726	30078246	141036821	1569	78734											
PPP1R10	5514	broad.mit.edu	37	chr6	30571371	30571371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggcaacttggagcctcctgCcccatcaggtgagccacctg	8	7	11	15	0	1	1	1	1	0	0	2	2	2	2	6	3	4	1	6	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:30571371C>T	uc003nqn.1	-	16	2197	c.1645G>A	c.(1645-1647)GCA>ACA	p.A549T	PPP1R10_uc010jsc.1_Missense_Mutation_p.A203T	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	549	Gly-rich.|Interaction with WDR82 (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						GAGCCTCCTGCCCCATCAGGT	0.537													6	196					0	0	1	0	0		T	30571371	T	T	30571371	3	4	151	1	0	0	0	0	1	0	0	0	12374	739	26	2	1197	2	PPP1R10	6	30571371	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	493125	30571371	140543696	1570	78735											
MDC1	9656	broad.mit.edu	37	chr6	30673546	30673546	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgagatgtgggcttgggAgtgactggctgggctgtgga	5	10	20	6	0	0	2	0	2	0	1	0	5	0	4	1	5	0	3	1	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:30673546A>G	uc003nrg.3	-	10	3854	c.3414T>C	c.(3412-3414)ACT>ACC	p.T1138T	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Silent_p.T745T	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1138	Pro-rich.			Missing (in Ref. 2; CAH18685).	cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TGGGCTTGGGAGTGACTGGCT	0.577								Other_conserved_DNA_damage_response_genes					64	205					0	0	1	0	0		G	30673546	G	G	30673546	2	3	151	1	0	0	0	0	0	0	0	1	9421	291	11	3		3	MDC1	6	30673546	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	102175	30673546	140441521	1571	78736											
IER3	8870	broad.mit.edu	37	chr6	30712102	30712102	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaccactcgagggtagagaAccctgcggctgcgctttcgg	7	8	13	13	4	1	1	1	0	0	1	3	3	1	1	2	3	3	3	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:30712102A>G	uc003nrn.2	-	1	226	c.194T>C	c.(193-195)GTT>GCT	p.V65A	FLOT1_uc003nrm.2_5'Flank|FLOT1_uc011dmr.1_5'Flank	NM_003897	NP_003888	P46695	IEX1_HUMAN	immediate early response 3	65	Cytoplasmic (Potential).				anatomical structure morphogenesis|anti-apoptosis|apoptosis	integral to membrane	protein binding				0						AGGGTAGAGAACCCTGCGGCT	0.697													6	16					0	0	1	0	0		G	30712102	G	G	30712102	3	3	151	1	0	0	0	0	1	0	0	0	7522	43	2	3	284	3	IER3	6	30712102	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	38556	30712102	140402965	1572	78737											
DDR1	780	broad.mit.edu	37	chr6	30866961	30866961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccggccgcctgcctgccCgcagggcctatatgagctga	5	7	13	16	3	0	2	0	2	0	0	1	2	1	2	6	2	3	2	6	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:30866961C>T	uc003nrr.2	+	19	2889	c.2630C>T	c.(2629-2631)CCG>CTG	p.P877L	DDR1_uc010jse.2_Missense_Mutation_p.P840L|DDR1_uc003nrq.2_Missense_Mutation_p.P840L|DDR1_uc003nrs.2_Missense_Mutation_p.P877L|DDR1_uc003nrt.2_Missense_Mutation_p.P840L|DDR1_uc011dms.1_Missense_Mutation_p.P858L|DDR1_uc003nru.2_Missense_Mutation_p.P840L|DDR1_uc003nrv.2_Missense_Mutation_p.P883L|DDR1_uc003nrz.1_Silent_p.P241P	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	877	Cytoplasmic (Potential).|Protein kinase.				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	CCTGCCTGCCCGCAGGGCCTA	0.582													18	115					0	0	1	0	0		T	30866961	T	T	30866961	3	4	151	1	0	0	0	0	1	0	0	0	4339	652	23	1	2714	1	DDR1	6	30866961	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	154859	30866961	140248106	1573	78738											
VARS2	57176	broad.mit.edu	37	chr6	30887979	30887979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaccatgacctccctctgcGgggactggctgcaggtggta	6	8	15	12	1	1	1	0	1	1	0	2	3	2	3	3	6	2	3	3	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:30887979G>A	uc003nsc.1	+	12	1911	c.1279G>A	c.(1279-1281)GGG>AGG	p.G427R	VARS2_uc011dmx.1_Missense_Mutation_p.G427R|VARS2_uc011dmy.1_Missense_Mutation_p.G287R|VARS2_uc011dmz.1_Missense_Mutation_p.G457R|VARS2_uc011dna.1_Missense_Mutation_p.G425R|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_5'UTR|VARS2_uc010jsg.1_5'UTR|VARS2_uc010jsh.1_5'Flank	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	427					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						CTCCCTCTGCGGGGACTGGCT	0.577													8	58					0	0	1	0	0		A	30887979	A	A	30887979	3	1	151	1	0	0	0	0	1	0	0	0	17150	1116	39	1	1419	1	VARS2	6	30887979	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	21018	30887979	140227088	1574	78739											
CCHCR1	54535	broad.mit.edu	37	chr6	31113487	31113487	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcaccccgaatggtgtggAccttgcggacagcatagctg	9	7	13	12	3	0	0	0	0	0	0	0	3	0	2	3	3	3	3	3	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:31113487A>G	uc003nsr.3	-	11	1535	c.1412T>C	c.(1411-1413)GTC>GCC	p.V471A	CCHCR1_uc011dne.1_Missense_Mutation_p.V471A|CCHCR1_uc003nsq.3_Missense_Mutation_p.V524A|CCHCR1_uc003nsp.3_Missense_Mutation_p.V560A|CCHCR1_uc010jsk.1_Missense_Mutation_p.V471A	NM_019052	NP_061925	Q8TD31	CCHCR_HUMAN	coiled-coil alpha-helical rod protein 1 isoform	471					cell differentiation|multicellular organismal development	cytoplasm|nucleus	protein binding			skin(1)	1						AATGGTGTGGACCTTGCGGAC	0.612													5	79					0	0	1	0	0		G	31113487	G	G	31113487	3	3	151	1	0	0	0	0	1	0	0	0	2880	275	10	3	968	3	CCHCR1	6	31113487	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	225508	31113487	140001580	1575	78740											
BAT2	7916	broad.mit.edu	37	chr6	31594921	31594921	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgccccaaagcctcccctAcccccacctcaccggggccc	6	4	6	25	1	1	0	1	0	0	0	2	0	2	0	11	2	3	0	11	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:31594921A>G	uc003nvb.3	+	11	1485	c.1236A>G	c.(1234-1236)CTA>CTG	p.L412L	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Silent_p.L412L	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	412	4 X 57 AA type A repeats.|2 X type B repeats.|2-1.					cytoplasm|nucleus	protein binding				0						AGCCTCCCCTACCCCCACCTC	0.652													3	13					0	0	1	0	0		G	31594921	G	G	31594921	2	3	151	1	0	0	0	0	0	0	0	1	1320	378	14	3		3	BAT2	6	31594921	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	481434	31594921	139520146	1576	78741											
HSPA1L	3305	broad.mit.edu	37	chr6	31779558	31779558	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaaacagtgttctggggAttcattgctacctggttctt	9	15	9	8	0	4	0	2	0	2	0	4	1	4	1	1	3	3	3	1	3	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:31779558A>G	uc003nxh.2	-	2	375	c.192T>C	c.(190-192)AAT>AAC	p.N64N	HSPA1L_uc010jte.2_Silent_p.N64N	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	64					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						TGTTCTGGGGATTCATTGCTA	0.502													51	196					0	0	1	0	0		G	31779558	G	G	31779558	2	3	151	1	0	0	0	0	0	0	0	1	7426	330	12	3		3	HSPA1L	6	31779558	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	184637	31779558	139335509	1577	78742											
EHMT2	10919	broad.mit.edu	37	chr6	31851644	31851644	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcgcagttctctgagatgTacttgtaatcctcagggcag	8	13	10	10	1	3	1	1	1	2	1	6	2	4	1	1	1	1	5	1	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:31851644T>C	uc003nxz.1	-	22	2865	c.2855A>G	c.(2854-2856)TAC>TGC	p.Y952C	EHMT2_uc003nxv.1_5'UTR|EHMT2_uc003nxw.1_5'UTR|EHMT2_uc003nxx.1_Missense_Mutation_p.Y150C|EHMT2_uc003nxy.1_Missense_Mutation_p.Y750C|EHMT2_uc011don.1_Missense_Mutation_p.Y975C|EHMT2_uc003nya.1_Missense_Mutation_p.Y918C	NM_006709	NP_006700	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	952					DNA methylation|peptidyl-lysine dimethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			ovary(1)	1						CTCTGAGATGTACTTGTAATC	0.597													37	115					0	0	1	0	0		C	31851644	C	C	31851644	3	2	151	1	0	0	0	0	1	0	0	0	4990	1638	57	3	805	3	EHMT2	6	31851644	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	72086	31851644	139263423	1578	78743											
SKIV2L	6499	broad.mit.edu	37	chr6	31931254	31931254	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccccgtgcccctggagcacTatcttttcacagggaacagc	8	8	10	15	1	2	0	1	0	1	0	2	2	2	2	4	2	4	1	4	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:31931254T>C	uc003nyn.1	+	14	1857	c.1468T>C	c.(1468-1470)TAT>CAT	p.Y490H	SKIV2L_uc011dou.1_Missense_Mutation_p.Y332H|SKIV2L_uc011dov.1_Missense_Mutation_p.Y297H	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	490						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						CCTGGAGCACTATCTTTTCAC	0.567													3	82					0	0	1	0	0		C	31931254	C	C	31931254	3	2	151	1	0	0	0	0	1	0	0	0	14384	1522	53	3	1522	3	SKIV2L	6	31931254	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	79610	31931254	139183813	1579	78744											
TNXB	7148	broad.mit.edu	37	chr6	32017065	32017065	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgtgatgcccacggtggAcactgggcccacgcgctgcc	6	5	13	17	4	0	1	0	1	0	0	0	2	0	2	4	3	2	1	4	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:32017065A>G	uc003nzl.2	-	28	9935	c.9733T>C	c.(9733-9735)TCC>CCC	p.S3245P	TNXB_uc003nzh.1_5'Flank	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3292	Fibronectin type-III 24.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CCCACGGTGGACACTGGGCCC	0.652													6	16					0	0	1	0	0		G	32017065	G	G	32017065	3	3	151	1	0	0	0	0	1	0	0	0	16371	275	10	3	5048	3	TNXB	6	32017065	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	85811	32017065	139098002	1580	78745											
TNXB	7148	broad.mit.edu	37	chr6	32020473	32020473	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacccacagcggacactgggCccacgcgctgcccctcgtgg	6	4	12	19	4	0	0	0	0	0	0	1	1	0	1	4	3	2	1	4	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:32020473C>G	uc003nzl.2	-	26	9285	c.9083G>C	c.(9082-9084)GGC>GCC	p.G3028A		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3075	Fibronectin type-III 22.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GGACACTGGGCCCACGCGCTG	0.637													5	53					0	0	1	0	0		G	32020473	G	G	32020473	3	3	151	1	0	0	0	0	1	0	0	0	16371	739	26	5	5706	5	TNXB	6	32020473	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3408	32020473	139094594	1581	78746											
HLA-DQB1	3119	broad.mit.edu	37	chr6	32632719	32632719	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcggcgtcaccgcgcggtAcacccccacgtcgctgtcga	5	6	12	18	8	1	0	1	0	0	0	3	1	1	0	3	2	2	2	3	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:32632719A>G	uc003obw.2	-	2	317	c.235T>C	c.(235-237)TAC>CAC	p.Y79H	HLA-DQB1_uc010juc.1_Missense_Mutation_p.Y34H|HLA-DQB1_uc003obv.2_Missense_Mutation_p.Y79H|HLA-DQB1_uc011dqd.1_Missense_Mutation_p.Y79H|HLA-DQB1_uc011dqe.1_Missense_Mutation_p.Y79H	NM_002123	NP_002114	P01920	DQB1_HUMAN	major histocompatibility complex, class II, DQ	79	Extracellular (Potential).|Beta-1.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ACCGCGCGGTACACCCCCACG	0.637									Melanoma_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia|T-cell_Lymphoma_(Cutaneous)__Familial_Clustering_of|Sj_gren_syndrome				38	55					0	0	1	0	0		G	32632719	G	G	32632719	3	3	151	1	0	0	0	0	1	0	0	0	7222	391	14	3	566	3	HLA-DQB1	6	32632719	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	612246	32632719	138482348	1582	78747											
BRD2	6046	broad.mit.edu	37	chr6	32944141	32944141	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtcctcaacattccccAcccatcagtcatttcctctc	8	12	2	19	0	4	0	3	0	1	0	8	0	7	0	5	0	1	0	5	0	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:32944141A>G	uc003ocn.3	+	6	2426	c.725A>G	c.(724-726)CAC>CGC	p.H242R	BRD2_uc003oco.2_RNA|BRD2_uc003ocq.3_Missense_Mutation_p.H242R|BRD2_uc003ocp.3_Missense_Mutation_p.H122R|BRD2_uc010juh.2_Missense_Mutation_p.H242R	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	242					spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						AACATTCCCCACCCATCAGTC	0.567													29	110					0	0	1	0	0		G	32944141	G	G	32944141	3	3	151	1	0	0	0	0	1	0	0	0	1505	159	6	3	743	3	BRD2	6	32944141	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	311422	32944141	138170926	1583	78748											
RING1	6015	broad.mit.edu	37	chr6	33177562	33177562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcacagccctacggagcGggtaataggagagacatgtt	11	9	13	8	2	1	1	1	0	0	1	1	4	1	3	1	3	3	2	1	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:33177562G>A	uc003odk.2	+	3	432	c.238G>A	c.(238-240)GGG>AGG	p.G80R	RING1_uc011dqx.1_Missense_Mutation_p.G80R|RING1_uc003odl.2_Missense_Mutation_p.G51R	NM_002931	NP_002922	Q06587	RING1_HUMAN	ring finger protein 1	80	Necessary for transcriptional repression (By similarity).|RING-type.				histone H2A monoubiquitination|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear speck|PcG protein complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						CCTACGGAGCGGGTAATAGGA	0.517													16	67					0	0	1	0	0		A	33177562	A	A	33177562	3	1	151	1	0	0	0	0	1	0	0	0	13399	1130	39	1	244	1	RING1	6	33177562	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	233421	33177562	137937505	1584	78749											
TAPBP	6892	broad.mit.edu	37	chr6	33281604	33281604	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctccacgaaccaacactcGatcaccgcgggtcctgctga	9	7	8	17	4	1	1	1	1	0	0	5	3	4	1	5	1	3	1	5	1	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:33281604G>A	uc003odx.1	-	2	246	c.75C>T	c.(73-75)ATC>ATT	p.I25I	TAPBP_uc010jus.1_Silent_p.I25I|TAPBP_uc003ody.2_Silent_p.I25I|TAPBP_uc003odz.2_Silent_p.I25I|TAPBP_uc010jut.1_Silent_p.I25I|TAPBP_uc011drc.1_Silent_p.I25I	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	25	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1						ACCAACACTCGATCACCGCGG	0.687													17	48					0	0	1	0	0		A	33281604	A	A	33281604	2	1	151	1	0	0	0	0	0	0	0	1	15577	1048	37	1		1	TAPBP	6	33281604	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	104042	33281604	137833463	1585	78750											
SYNGAP1	8831	broad.mit.edu	37	chr6	33411288	33411288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atggctatagcaagagtgagGacctctcttccggggtcccc	8	9	12	12	1	1	2	0	1	1	1	4	3	3	3	4	4	1	2	4	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:33411288G>A	uc011dri.1	+	15	3154	c.2959G>A	c.(2959-2961)GAC>AAC	p.D987N	SYNGAP1_uc010juy.2_Missense_Mutation_p.D958N|SYNGAP1_uc010juz.2_Missense_Mutation_p.D699N	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	987					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						CAAGAGTGAGGACCTCTCTTC	0.502													55	259					0	0	1	0	0		A	33411288	A	A	33411288	3	1	151	1	0	0	0	0	1	0	0	0	15472	1174	41	4	3017	4	SYNGAP1	6	33411288	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	129684	33411288	137703779	1586	78751											
ANKS1A	23294	broad.mit.edu	37	chr6	34937796	34937796	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgccttctagggatgtggtCgaggttcttctgaggaacga	7	13	14	7	2	3	1	0	1	3	0	4	5	3	3	1	4	2	1	1	4	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:34937796C>T	uc003ojx.3	+	3	430	c.288C>T	c.(286-288)GTC>GTT	p.V96V	ANKS1A_uc011dss.1_Silent_p.V96V|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR|ANKS1A_uc010jvq.1_RNA|ANKS1A_uc010jvr.1_5'Flank	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	96	ANK 1.					cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						GGGATGTGGTCGAGGTTCTTC	0.488													28	77					0	0	1	0	0		T	34937796	T	T	34937796	2	4	151	1	0	0	0	0	0	0	0	1	688	871	31	1		1	ANKS1A	6	34937796	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1526508	34937796	136177271	1587	78752											
SRPK1	6732	broad.mit.edu	37	chr6	35854499	35854499	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaataggtttttaaaaggatAcgtgttccattaactcctga	14	14	7	6	1	0	1	0	1	0	0	2	2	2	2	2	2	2	2	2	2	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:35854499A>G	uc003olj.2	-	6	601	c.478_splice	c.e6+1	p.H160_splice	SRPK1_uc011dtg.1_Splice_Site_p.H144_splice|SRPK1_uc003olh.2_Splice_Site_p.H53_splice|SRPK1_uc003oli.2_Splice_Site_p.H53_splice	NM_003137	NP_003128	Q96SB4	SRPK1_HUMAN	SFRS protein kinase 1						cell differentiation|chromosome segregation|interspecies interaction between organisms|intracellular protein kinase cascade|mRNA processing|negative regulation of viral genome replication|positive regulation of viral genome replication|regulation of mRNA processing|RNA splicing	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						TTAAAAGGATACGTGTTCCAT	0.368													8	42					0	0	1	0	0		G	35854499	G	G	35854499	5	3	151	1	0	0	0	0	0	0	1	0	15184	405	14	3	1531	3	SRPK1	6	35854499	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	916703	35854499	135260568	1588	78753											
SLC26A8	116369	broad.mit.edu	37	chr6	35919034	35919034	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttccttgacaaggcaaacAgcacggcgtcgtgaacgctg	10	7	11	13	4	0	2	0	2	0	0	2	2	1	2	2	2	3	3	2	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:35919034A>T	uc003olm.2	-	19	2489	c.2378T>A	c.(2377-2379)CTG>CAG	p.L793Q	SLC26A8_uc010jwa.2_RNA|SLC26A8_uc003olk.2_Missense_Mutation_p.L375Q|SLC26A8_uc003oln.2_Missense_Mutation_p.L793Q|SLC26A8_uc003oll.2_Missense_Mutation_p.L688Q	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	793	Interaction with RACGAP1.|STAS.|Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						CAAGGCAAACAGCACGGCGTC	0.488													19	94					0	0	1	0	0		T	35919034	T	T	35919034	3	4	151	1	0	0	0	0	1	0	0	0	14548	188	7	5	542	5	SLC26A8	6	35919034	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	64535	35919034	135196033	1589	78754											
SLC26A8	116369	broad.mit.edu	37	chr6	35930388	35930388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttgctcagaataataccaGccagcacagcctgtggggaa	12	7	11	11	1	1	1	1	0	0	1	1	2	1	2	3	2	5	3	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:35930388G>A	uc003olm.2	-	12	1487	c.1376C>T	c.(1375-1377)GCT>GTT	p.A459V	SLC26A8_uc010jwa.2_RNA|SLC26A8_uc003olk.2_Missense_Mutation_p.A41V|SLC26A8_uc003oln.2_Missense_Mutation_p.A459V|SLC26A8_uc003oll.2_Missense_Mutation_p.A354V	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	459	Helical; (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						AATAATACCAGCCAGCACAGC	0.458													23	37					0	0	1	0	0		A	35930388	A	A	35930388	3	1	151	1	0	0	0	0	1	0	0	0	14548	971	34	2	1572	2	SLC26A8	6	35930388	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	11354	35930388	135184679	1590	78755											
PNPLA1	285848	broad.mit.edu	37	chr6	36274133	36274133	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttcatgtgaaggaaacCgtcagcaagccttatgtaac	12	10	10	9	1	2	1	2	1	0	0	2	2	2	2	2	2	4	3	2	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:36274133C>T	uc010jwf.2	+	7	1449	c.1449C>T	c.(1447-1449)ACC>ACT	p.T483T	PNPLA1_uc003olw.1_Silent_p.T388T|PNPLA1_uc010jwe.1_Silent_p.T397T	NM_001145717	NP_001139189	Q8N8W4	PLPL1_HUMAN	patatin-like phospholipase domain containing 1	483					lipid catabolic process		hydrolase activity			large_intestine(1)|pancreas(1)|breast(1)|skin(1)	4						TGAAGGAAACCGTCAGCAAGC	0.483													37	187					0	0	1	0	0		T	36274133	T	T	36274133	2	4	151	1	0	0	0	0	0	0	0	1	12183	639	23	1		1	PNPLA1	6	36274133	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	343745	36274133	134840934	1591	78756											
FGD2	221472	broad.mit.edu	37	chr6	36993651	36993651	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgagtctgcctccactgctaCgcattcctcactggaaatgt	8	11	8	14	2	2	0	1	0	1	0	4	2	4	1	3	1	3	2	3	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:36993651C>T	uc010jwp.1	+	14	1713	c.1542C>T	c.(1540-1542)TAC>TAT	p.Y514Y	FGD2_uc003ong.2_Silent_p.Y236Y|FGD2_uc011dtv.1_Silent_p.Y142Y|FGD2_uc003onj.1_Silent_p.Y91Y	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	514	FYVE-type.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3						TCCACTGCTACGCATTCCTCA	0.612													16	53					0	0	1	0	0		T	36993651	T	T	36993651	2	4	151	1	0	0	0	0	0	0	0	1	5847	547	19	1		1	FGD2	6	36993651	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	719518	36993651	134121416	1592	78757											
TBC1D22B	55633	broad.mit.edu	37	chr6	37298880	37298880	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcaacgaagaaattgggCtgcttctcgccgaggcatac	10	7	14	10	3	1	1	0	0	1	1	2	3	1	1	1	4	3	4	1	4	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:37298880C>T	uc003onn.2	+	13	1596	c.1450C>T	c.(1450-1452)CTG>TTG	p.L484L	TBC1D22B_uc010jwt.2_RNA|TBC1D22B_uc003onp.2_Silent_p.L142L	NM_017772	NP_060242	Q9NU19	TB22B_HUMAN	TBC1 domain family, member 22B	484						intracellular	Rab GTPase activator activity				0			OV - Ovarian serous cystadenocarcinoma(102;0.241)			AGAAATTGGGCTGCTTCTCGC	0.517													34	179					0	0	1	0	0		T	37298880	T	T	37298880	2	4	151	1	0	0	0	0	0	0	0	1	15637	796	28	2		2	TBC1D22B	6	37298880	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	305229	37298880	133816187	1593	78758											
DNAH8	1769	broad.mit.edu	37	chr6	38723785	38723785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatacaaaatttgattaatgCcatcagaatgattcacggtg	16	12	7	6	1	2	3	2	2	0	1	2	3	2	3	1	1	2	0	1	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:38723785C>T	uc003ooe.1	+	8	1394	c.794C>T	c.(793-795)GCC>GTC	p.A265V		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTGATTAATGCCATCAGAATG	0.328													17	131					0	0	1	0	0		T	38723785	T	T	38723785	3	4	151	1	0	0	0	0	1	0	0	0	4613	739	26	2	816	2	DNAH8	6	38723785	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1424905	38723785	132391282	1594	78759											
DNAH8	1769	broad.mit.edu	37	chr6	38843564	38843564	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccagaaatacctaaaggCtcaaatcaaaccatgtatga	18	9	5	9	0	2	2	2	1	0	1	2	2	2	2	3	1	3	2	3	1	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:38843564C>A	uc003ooe.1	+	51	7767	c.7167C>A	c.(7165-7167)GGC>GGA	p.G2389G		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TACCTAAAGGCTCAAATCAAA	0.368													23	72					5.35356e-11	5.52232e-11	1	1	0		A	38843564	A	A	38843564	2	1	151	1	0	0	0	0	0	0	0	1	4613	784	28	5		5	DNAH8	6	38843564	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	119779	38843564	132271503	1595	78760											
DNAH8	1769	broad.mit.edu	37	chr6	38919215	38919215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggaagaaagtgataccCggacacctctgatatgcttc	11	10	10	10	1	1	3	0	2	1	1	2	5	1	5	2	2	2	1	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:38919215C>T	uc003ooe.1	+	80	12319	c.11719C>T	c.(11719-11721)CGG>TGG	p.R3907W	DNAH8_uc003oog.1_Missense_Mutation_p.R356W|uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AAGTGATACCCGGACACCTCT	0.413													85	372					0	0	1	0	0		T	38919215	T	T	38919215	3	4	151	1	0	0	0	0	1	0	0	0	4613	643	23	1	12029	1	DNAH8	6	38919215	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	75651	38919215	132195852	1596	78761											
DNAH8	1769	broad.mit.edu	37	chr6	38998045	38998045	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccccaagctgtatgtgtgTcctatttacaagaaacccag	12	10	8	11	0	0	1	0	0	0	1	1	2	1	1	4	0	3	2	4	0	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:38998045T>C	uc003ooe.1	+	91	13950	c.13350T>C	c.(13348-13350)TGT>TGC	p.C4450C		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TGTATGTGTGTCCTATTTACA	0.502													37	121					0	0	1	0	0		C	38998045	C	C	38998045	2	2	151	1	0	0	0	0	0	0	0	1	4613	1673	58	3		3	DNAH8	6	38998045	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	78830	38998045	132117022	1597	78762											
KCNK17	89822	broad.mit.edu	37	chr6	39267322	39267322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggactctggctcccggtcagGtccctgtctccagctttggg	3	11	13	14	1	3	0	1	0	2	0	6	1	5	1	3	5	1	2	3	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:39267322G>A	uc003ooo.2	-	5	1020	c.880C>T	c.(880-882)CCT>TCT	p.P294S	KCNK17_uc003oop.2_3'UTR	NM_031460	NP_113648	Q96T54	KCNKH_HUMAN	potassium channel, subfamily K, member 17	294	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2						TCCCGGTCAGGTCCCTGTCTC	0.577													22	90					0	0	1	0	0		A	39267322	A	A	39267322	3	1	151	1	0	0	0	0	1	0	0	0	8080	1261	44	4	122	4	KCNK17	6	39267322	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	269277	39267322	131847745	1598	78763											
MED20	9477	broad.mit.edu	37	chr6	41875024	41875024	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacaggggccatactccAcctgggaaccaaaagcacag	14	3	9	15	0	0	0	0	0	0	0	1	1	1	1	5	3	3	1	5	3	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:41875024A>G	uc003ork.2	-	4	546	c.425T>C	c.(424-426)GTG>GCG	p.V142A	MED20_uc003orj.2_Missense_Mutation_p.V77A|MED20_uc011duh.1_Missense_Mutation_p.W117R|MED20_uc011dui.1_RNA|MED20_uc011duj.1_Missense_Mutation_p.V77A	NM_004275	NP_004266	Q9H944	MED20_HUMAN	Trf (TATA binding protein-related	142					regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	mediator complex	DNA-directed RNA polymerase activity|protein binding				0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000367)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GCCATACTCCACCTGGGAACC	0.562													5	15					0	0	1	0	0		G	41875024	G	G	41875024	3	3	151	1	0	0	0	0	1	0	0	0	9456	173	6	3	217	3	MED20	6	41875024	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2607702	41875024	129240043	1599	78764											
UBR2	23304	broad.mit.edu	37	chr6	42620271	42620271	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccattctgccctctgtttgCaagcctggttaacattttgc	6	16	7	12	0	2	0	0	0	2	0	3	0	3	0	3	1	5	3	3	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:42620271C>G	uc011dur.1	+	25	2657	c.2657C>G	c.(2656-2658)GCA>GGA	p.A886G	UBR2_uc011dus.1_Missense_Mutation_p.A531G|UBR2_uc003osh.2_RNA	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	886					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			CCTCTGTTTGCAAGCCTGGTT	0.433													63	320					0	0	1	0	0		G	42620271	G	G	42620271	3	3	151	1	0	0	0	0	1	0	0	0	16928	710	25	5	2901	5	UBR2	6	42620271	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	745247	42620271	128494796	1600	78765											
UBR2	23304	broad.mit.edu	37	chr6	42650804	42650804	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattaaagttggtgccgtaAcagtgaagttaaaagatatc	16	11	9	5	1	0	2	0	1	0	1	1	2	0	2	1	1	2	3	1	1	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:42650804A>G	uc011dur.1	+	43	4730	c.4730A>G	c.(4729-4731)AAC>AGC	p.N1577S	UBR2_uc011dus.1_Missense_Mutation_p.N1222S|UBR2_uc003osh.2_RNA|UBR2_uc011dut.1_Missense_Mutation_p.N165S	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	1577					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			TGGTGCCGTAACAGTGAAGTT	0.373													25	120					0	0	1	0	0		G	42650804	G	G	42650804	3	3	151	1	0	0	0	0	1	0	0	0	16928	43	2	3	5046	3	UBR2	6	42650804	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	30533	42650804	128464263	1601	78766											
MRPL2	51069	broad.mit.edu	37	chr6	43023745	43023745	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catccccttcccgagcagcaActaaaagacaggatttcatt	13	9	6	13	1	1	1	1	0	0	1	3	3	3	2	3	1	3	2	3	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:43023745A>G	uc003ots.1	-	5	644	c.521T>C	c.(520-522)GTT>GCT	p.V174A	CUL7_uc011dvb.1_5'Flank|CUL7_uc003otq.2_5'Flank|CUL7_uc010jyh.2_5'Flank|KLC4_uc003otr.1_Intron|MRPL2_uc011dvc.1_Silent_p.S198S	NM_015950	NP_057034	Q5T653	RM02_HUMAN	mitochondrial ribosomal protein L2 precursor	174					translation	mitochondrion|ribosome	structural constituent of ribosome				0		Ovarian(999;0.0014)	Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00708)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)	BRCA - Breast invasive adenocarcinoma(397;0.0026)		CCGAGCAGCAACTAAAAGACA	0.542													10	52					0	0	1	0	0		G	43023745	G	G	43023745	3	3	151	1	0	0	0	0	1	0	0	0	9803	57	2	3	408	3	MRPL2	6	43023745	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	372941	43023745	128091322	1602	78767											
MRPL2	51069	broad.mit.edu	37	chr6	43025842	43025842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agacttcctcatcttcactgGtgtaatggtgtacttggtac	8	15	9	9	0	3	1	2	0	1	1	4	1	4	1	1	3	2	3	1	3	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:43025842G>A	uc003ots.1	-	2	349	c.226C>T	c.(226-228)CCA>TCA	p.P76S	KLC4_uc003otr.1_Intron|MRPL2_uc011dvc.1_Missense_Mutation_p.P76S|MRPL2_uc010jyi.2_3'UTR|MRPL2_uc003ott.3_Missense_Mutation_p.P76S|KLC4_uc011dvd.1_5'Flank|KLC4_uc003otu.2_5'Flank|KLC4_uc003otv.1_5'Flank|KLC4_uc003otw.1_5'Flank|KLC4_uc003otx.1_5'Flank|KLC4_uc003oty.1_5'Flank|KLC4_uc003otz.1_5'Flank	NM_015950	NP_057034	Q5T653	RM02_HUMAN	mitochondrial ribosomal protein L2 precursor	76					translation	mitochondrion|ribosome	structural constituent of ribosome				0		Ovarian(999;0.0014)	Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00708)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)	BRCA - Breast invasive adenocarcinoma(397;0.0026)		ATCTTCACTGGTGTAATGGTG	0.507													50	190					0	0	1	0	0		A	43025842	A	A	43025842	3	1	151	1	0	0	0	0	1	0	0	0	9803	1261	44	4	715	4	MRPL2	6	43025842	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2097	43025842	128089225	1603	78768											
TTBK1	84630	broad.mit.edu	37	chr6	43226884	43226884	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcacccccaattctgccCgggaggccctctgaggggct	7	7	12	15	1	2	1	0	1	2	0	2	2	2	2	4	4	2	2	4	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:43226884C>T	uc003ouq.1	+	11	1404	c.1125C>T	c.(1123-1125)CCC>CCT	p.P375P		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	375						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			CAATTCTGCCCGGGAGGCCCT	0.647													18	57					0	0	1	0	0		T	43226884	T	T	43226884	2	4	151	1	0	0	0	0	0	0	0	1	16702	639	23	1		1	TTBK1	6	43226884	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	201042	43226884	127888183	1604	78769											
ZNF318	24149	broad.mit.edu	37	chr6	43306959	43306959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccattggccaatggaccacCacttagcttagtctcagggg	9	9	10	13	0	1	0	1	0	1	0	2	1	1	1	4	4	1	1	4	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:43306959C>T	uc003oux.2	-	10	4855	c.4777G>A	c.(4777-4779)GGT>AGT	p.G1593S	ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	1593					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			AATGGACCACCACTTAGCTTA	0.493													6	151					0	0	1	0	0		T	43306959	T	T	43306959	3	4	151	1	0	0	0	0	1	0	0	0	17861	594	21	4	2066	4	ZNF318	6	43306959	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	80075	43306959	127808108	1605	78770											
ZNF318	24149	broad.mit.edu	37	chr6	43308192	43308192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagccaagccagcttggcGgtccagattccgccgctcct	7	7	10	17	3	0	1	0	0	0	1	3	1	3	1	6	2	3	2	6	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:43308192G>A	uc003oux.2	-	10	3622	c.3544C>T	c.(3544-3546)CGC>TGC	p.R1182C	ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	1182					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			CCAGCTTGGCGGTCCAGATTC	0.443													16	61					0	0	1	0	0		A	43308192	A	A	43308192	3	1	151	1	0	0	0	0	1	0	0	0	17861	1116	39	1	3299	1	ZNF318	6	43308192	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1233	43308192	127806875	1606	78771											
TMEM63B	55362	broad.mit.edu	37	chr6	44116270	44116270	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctgaaggacttcaacgTgtgtaaatgccagggctgca	11	9	11	10	1	1	1	1	1	0	0	2	2	2	2	2	2	3	3	2	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:44116270T>C	uc003owr.2	+	14	1206	c.1142T>C	c.(1141-1143)GTG>GCG	p.V381A	TMEM63B_uc003owq.1_Missense_Mutation_p.V381A|TMEM63B_uc003ows.2_Missense_Mutation_p.V284A|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	381						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			GACTTCAACGTGTGTAAATGC	0.612													23	83					0	0	1	0	0		C	44116270	C	C	44116270	3	2	151	1	0	0	0	0	1	0	0	0	16216	1696	59	3	1192	3	TMEM63B	6	44116270	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	808078	44116270	126998797	1607	78772											
TCTE1	202500	broad.mit.edu	37	chr6	44250298	44250298	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgggtcagcttgaagatcTgtgggcaggcagagggtcta	8	10	16	7	1	3	3	1	1	2	2	4	3	3	3	0	4	1	3	0	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:44250298T>C	uc003oxi.2	-	4	1003	c.847_splice	c.e4-1	p.I283_splice	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_182539	NP_872345	Q5JU00	TCTE1_HUMAN	t-complex-associated testis expressed 1											ovary(2)|skin(2)	4	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CTTGAAGATCTGTGGGCAGGC	0.552													12	45					0	0	1	0	0		C	44250298	C	C	44250298	5	2	151	1	0	0	0	0	0	0	1	0	15742	1594	55	3	668	3	TCTE1	6	44250298	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	134028	44250298	126864769	1608	78773											
TCTE1	202500	broad.mit.edu	37	chr6	44253990	44253990	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtggaccctgcgcacgtaaTtccggcagagcggcagcagg	8	5	15	13	5	0	1	0	0	0	1	1	2	1	2	2	4	3	5	2	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:44253990T>A	uc003oxi.2	-	3	713	c.557A>T	c.(556-558)AAT>ATT	p.N186I	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_182539	NP_872345	Q5JU00	TCTE1_HUMAN	t-complex-associated testis expressed 1	186										ovary(2)|skin(2)	4	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GCGCACGTAATTCCGGCAGAG	0.652													12	43					0	0	1	0	0		A	44253990	A	A	44253990	3	1	151	1	0	0	0	0	1	0	0	0	15742	1493	52	5	960	5	TCTE1	6	44253990	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3692	44253990	126861077	1609	78774											
GPR116	221395	broad.mit.edu	37	chr6	46826170	46826170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaacagacattcttcctcGtatagacttcccggggctgg	8	10	10	13	2	1	2	0	0	1	2	4	2	3	2	3	3	1	2	3	3	3	5	rs141322343	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:46826170G>A	uc003oyo.3	-	17	3759	c.3470C>T	c.(3469-3471)ACG>ATG	p.T1157M	GPR116_uc011dwj.1_Missense_Mutation_p.T712M|GPR116_uc011dwk.1_Missense_Mutation_p.T586M|GPR116_uc003oyp.3_Missense_Mutation_p.T1015M|GPR116_uc003oyq.3_Missense_Mutation_p.T1157M|GPR116_uc010jzi.1_Missense_Mutation_p.T829M	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	1157	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			ATTCTTCCTCGTATAGACTTC	0.557													11	41					0	0	1	0	0		A	46826170	A	A	46826170	3	1	151	1	0	0	0	0	1	0	0	0	6648	1145	40	1	590	1	GPR116	6	46826170	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2572180	46826170	124288897	1610	78775											
GPR115	221393	broad.mit.edu	37	chr6	47682298	47682298	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggagatatcatacatgcgTcacgtgtgcatcgtgaatat	12	11	10	8	4	2	2	2	1	0	1	3	3	2	2	0	1	3	1	0	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:47682298T>C	uc003oza.1	+	6	1575	c.1317T>C	c.(1315-1317)CGT>CGC	p.R439R	GPR115_uc003oyz.1_Silent_p.R496R|GPR115_uc003ozb.1_Silent_p.R437R	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	439	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						CATACATGCGTCACGTGTGCA	0.483													86	283					0	0	1	0	0		C	47682298	C	C	47682298	2	2	151	1	0	0	0	0	0	0	0	1	6647	1654	58	3		3	GPR115	6	47682298	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	856128	47682298	123432769	1611	78776											
RHAG	6005	broad.mit.edu	37	chr6	49574880	49574880	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacctgtcatcagacctccaAcaactgctgttccgatagag	11	9	8	13	1	2	2	2	0	0	2	4	4	4	2	4	0	3	2	4	0	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:49574880A>G	uc003ozk.3	-	8	1183	c.1121T>C	c.(1120-1122)GTT>GCT	p.V374A	RHAG_uc010jzl.2_Missense_Mutation_p.V374A|RHAG_uc010jzm.2_Silent_p.C333C	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein	374	Helical; (Potential).				carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					CAGACCTCCAACAACTGCTGT	0.423													9	21					0	0	1	0	0		G	49574880	G	G	49574880	3	3	151	1	0	0	0	0	1	0	0	0	13340	43	2	3	120	3	RHAG	6	49574880	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1892582	49574880	121540187	1612	78777											
PGK2	5232	broad.mit.edu	37	chr6	49753787	49753787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagcagtgtctccaccccCtataacagtgatgcagccct	10	9	8	14	0	1	1	0	1	1	0	2	1	1	1	4	0	4	3	4	0	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:49753787C>T	uc003ozu.2	-	1	1221	c.1114G>A	c.(1114-1116)GGG>AGG	p.G372R		NM_138733	NP_620061	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	372					glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			ovary(1)	1	Lung NSC(77;0.0402)					TCTCCACCCCCTATAACAGTG	0.502													50	236					0	0	1	0	0		T	49753787	T	T	49753787	3	4	151	1	0	0	0	0	1	0	0	0	11810	681	24	4	143	4	PGK2	6	49753787	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	178907	49753787	121361280	1613	78778											
TFAP2D	83741	broad.mit.edu	37	chr6	50681777	50681777	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaaacccaacatgtcaacTacctttccgggactagtcca	13	8	7	13	1	1	1	1	0	0	1	3	3	3	2	4	1	4	0	4	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:50681777T>C	uc003paf.2	+	1	521	c.9T>C	c.(7-9)ACT>ACC	p.T3T	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	3							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					ACATGTCAACTACCTTTCCGG	0.333													30	103					0	0	1	0	0		C	50681777	C	C	50681777	2	2	151	1	0	0	0	0	0	0	0	1	15815	1509	53	3		3	TFAP2D	6	50681777	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	927990	50681777	120433290	1614	78779											
C6orf142	90523	broad.mit.edu	37	chr6	54025582	54025582	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccccaaagacattgttgggTtctgacacagtcaaagtatg	12	11	9	9	0	2	2	1	1	1	1	3	2	3	2	2	1	0	3	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:54025582T>C	uc003pcg.3	+	7	992	c.879T>C	c.(877-879)GGT>GGC	p.G293G	C6orf142_uc003pcf.2_Silent_p.G817G|C6orf142_uc003pch.3_Intron|C6orf142_uc011dxa.1_Silent_p.G828G	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523	293						nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					CATTGTTGGGTTCTGACACAG	0.199													18	94					0	0	1	0	0		C	54025582	C	C	54025582	2	2	151	1	0	0	0	0	0	0	0	1	2336	1712	60	3		3	C6orf142	6	54025582	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3343805	54025582	117089485	1615	78780											
FAM83B	222584	broad.mit.edu	37	chr6	54805207	54805207	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatccgctttttgcaacaaCgaatgccaacccttgaacat	13	11	5	12	2	0	1	0	1	0	0	1	2	1	1	3	0	6	2	3	0	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:54805207C>T	uc003pck.2	+	5	1554	c.1438C>T	c.(1438-1440)CGA>TGA	p.R480*		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	480										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					TTTGCAACAACGAATGCCAAC	0.413													35	117					0	0	1	0	0		T	54805207	T	T	54805207	4	4	151	1	0	0	0	0	0	1	0	0	5648	528	19	1	1452	1	FAM83B	6	54805207	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	779625	54805207	116309860	1616	78781											
FAM83B	222584	broad.mit.edu	37	chr6	54806569	54806569	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcaactgatcggcgtgttTacagtcgttttgagccgttt	7	16	10	8	4	1	2	1	2	0	0	3	2	1	2	1	1	3	3	1	1	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:54806569T>C	uc003pck.2	+	5	2916	c.2800T>C	c.(2800-2802)TAC>CAC	p.Y934H		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	934										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					TCGGCGTGTTTACAGTCGTTT	0.438													35	133					0	0	1	0	0		C	54806569	C	C	54806569	3	2	151	1	0	0	0	0	1	0	0	0	5648	1754	61	3	2814	3	FAM83B	6	54806569	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1362	54806569	116308498	1617	78782											
GFRAL	389400	broad.mit.edu	37	chr6	55264054	55264054	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaaatcactttaactggAtttcattcccccttcaatgg	13	13	4	11	0	3	0	3	0	0	0	4	1	4	1	2	2	2	0	2	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:55264054A>T	uc003pcm.1	+	7	1115	c.1029A>T	c.(1027-1029)GGA>GGT	p.G343G		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	343	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			CTTTAACTGGATTTCATTCCC	0.289													13	52					0	0	1	0	0		T	55264054	T	T	55264054	2	4	151	1	0	0	0	0	0	0	0	1	6366	320	12	5		5	GFRAL	6	55264054	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	457485	55264054	115851013	1618	78783											
HMGCLL1	54511	broad.mit.edu	37	chr6	55441964	55441964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtttgttagaagagaaGtctaggaagataaagttcaa	17	10	12	2	0	2	3	1	0	1	3	2	6	2	4	0	2	0	3	0	2	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:55441964G>A	uc003pcn.2	-	2	269	c.110C>T	c.(109-111)ACT>ATT	p.T37I	HMGCLL1_uc003pco.2_Intron|HMGCLL1_uc010jzx.2_Intron|HMGCLL1_uc011dxc.1_Intron|HMGCLL1_uc011dxd.1_Intron|HMGCLL1_uc011dxe.1_Intron|HMGCLL1_uc003pcp.2_Intron	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	37							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			tagaagagaagtctaggaaga	0.04													3	14					0	0	1	0	0		A	55441964	A	A	55441964	3	1	151	1	0	0	0	0	1	0	0	0	7246	1043	36	4	1038	4	HMGCLL1	6	55441964	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	177910	55441964	115673103	1619	78784											
BMP5	653	broad.mit.edu	37	chr6	55684535	55684535	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgttgctccggtccttgtAtatccggaattcagctgctg	5	15	11	10	2	1	0	1	0	0	0	4	1	4	1	3	2	3	6	3	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:55684535A>G	uc003pcq.2	-	2	1313	c.601T>C	c.(601-603)TAC>CAC	p.Y201H	BMP5_uc011dxf.1_Missense_Mutation_p.Y201H	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	201					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			CGGTCCTTGTATATCCGGAAT	0.358													28	91					0	0	1	0	0		G	55684535	G	G	55684535	3	3	151	1	0	0	0	0	1	0	0	0	1464	449	16	3	787	3	BMP5	6	55684535	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	242571	55684535	115430532	1620	78785											
DST	667	broad.mit.edu	37	chr6	56510686	56510686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctacttctggacgaagggCcttctctctctctagcatgg	6	14	9	12	1	5	0	0	0	5	0	7	2	5	1	1	3	2	1	1	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:56510686C>T	uc003pdf.2	-	14	1685	c.1657G>A	c.(1657-1659)GCC>ACC	p.A553T	DST_uc003pcz.3_Missense_Mutation_p.A375T|DST_uc011dxj.1_Missense_Mutation_p.A404T|DST_uc011dxk.1_Missense_Mutation_p.A415T|DST_uc011dxl.1_Missense_Mutation_p.A404T|DST_uc003pcy.3_5'Flank|DST_uc003pdb.2_5'Flank|DST_uc003pdc.3_5'Flank|DST_uc003pdd.3_5'Flank|DST_uc003pde.2_Missense_Mutation_p.A491T	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	375					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			GGACGAAGGGCCTTCTCTCTC	0.438													5	171					0	0	1	0	0		T	56510686	T	T	56510686	3	4	151	1	0	0	0	0	1	0	0	0	4789	754	26	2		2	DST	6	56510686	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	826151	56510686	114604381	1621	78786											
PRIM2	5558	broad.mit.edu	37	chr6	57512649	57512649	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggcctctttaaattccTctctggaaatggatatggaa	10	14	8	9	0	3	0	0	0	3	0	5	3	4	3	2	4	0	0	2	4	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:57512649T>C	uc003pdx.2	+	15	1564	c.1477T>C	c.(1477-1479)TCT>CCT	p.S493P		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	493					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		TTTAAATTCCTCTCTGGAAAT	0.398													53	662					0	0	1	0	0		C	57512649	C	C	57512649	3	2	151	1	0	0	0	0	1	0	0	0	12513	1551	54	3	1527	3	PRIM2	6	57512649	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1001963	57512649	113602418	1622	78787											
KHDRBS2	202559	broad.mit.edu	37	chr6	62688109	62688109	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttccccactcttccttagTtcttcttcctgtgaaaaagg	7	15	6	13	0	3	1	0	1	3	0	6	1	6	1	4	1	0	2	4	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:62688109T>C	uc003peg.2	-	4	592	c.345A>G	c.(343-345)GAA>GAG	p.E115E		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	115	KH.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		TCTTCCTTAGTTCTTCTTCCT	0.348													21	89					0	0	1	0	0		C	62688109	C	C	62688109	2	2	151	1	0	0	0	0	0	0	0	1	8163	1722	60	3		3	KHDRBS2	6	62688109	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5175460	62688109	108426958	1623	78788											
PHF3	23469	broad.mit.edu	37	chr6	64408425	64408425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagcttttctctttttttcGggacacagatgctaaatata	11	16	7	7	1	1	2	0	0	1	2	3	3	1	3	0	1	2	2	0	1	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:64408425G>A	uc003pep.1	+	7	2938	c.2912G>A	c.(2911-2913)CGG>CAG	p.R971Q	PHF3_uc010kah.1_Missense_Mutation_p.R785Q|PHF3_uc003pen.2_Missense_Mutation_p.R883Q|PHF3_uc011dxs.1_Missense_Mutation_p.R240Q	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	971	TFIIS central.				multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			TCTTTTTTTCGGGACACAGAT	0.308													19	110					0	0	1	0	0		A	64408425	A	A	64408425	3	1	151	1	0	0	0	0	1	0	0	0	11855	1116	39	1	2938	1	PHF3	6	64408425	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1720316	64408425	106706642	1624	78789											
LMBRD1	55788	broad.mit.edu	37	chr6	70490403	70490403	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactatagtaaccgtataatAcagtgtcctcaatctgtctg	12	14	6	9	1	3	0	1	0	2	0	4	0	4	0	2	0	3	2	2	0	8	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:70490403A>G	uc003pfa.2	-	3	405	c.290T>C	c.(289-291)GTA>GCA	p.V97A	LMBRD1_uc003pez.2_Missense_Mutation_p.V24A|LMBRD1_uc010kal.2_Missense_Mutation_p.V24A|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	97	Extracellular (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						ACCGTATAATACAGTGTCCTC	0.289													33	114					0	0	1	0	0		G	70490403	G	G	70490403	3	3	151	1	0	0	0	0	1	0	0	0	8859	391	14	3	1388	3	LMBRD1	6	70490403	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6081978	70490403	100624664	1625	78790											
COL19A1	1310	broad.mit.edu	37	chr6	70831829	70831829	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggatattataacaaggatAacaaggtatggcttcttttt	13	15	9	4	0	1	0	0	0	1	0	1	2	1	2	0	4	2	2	0	4	7	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:70831829A>G	uc003pfc.1	+	17	1453	c.1336A>G	c.(1336-1338)AAC>GAC	p.N446D	COL19A1_uc010kam.1_Missense_Mutation_p.N342D	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	446					cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TAACAAGGATAACAAGGTATG	0.279													41	144					0	0	1	0	0		G	70831829	G	G	70831829	3	3	151	1	0	0	0	0	1	0	0	0	3679	362	13	3	1398	3	COL19A1	6	70831829	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	341426	70831829	100283238	1626	78791											
COL19A1	1310	broad.mit.edu	37	chr6	70909413	70909413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagggaaggatgggttgcctGggccaccaggagaccctgga	9	5	17	10	0	0	1	0	0	0	1	0	5	0	4	4	6	1	1	4	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:70909413G>A	uc003pfc.1	+	49	3313	c.3196G>A	c.(3196-3198)GGG>AGG	p.G1066R		NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	1066	Triple-helical region 6 (COL6).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TGGGTTGCCTGGGCCACCAGG	0.488													24	70					0	0	1	0	0		A	70909413	A	A	70909413	3	1	151	1	0	0	0	0	1	0	0	0	3679	1348	47	4	3386	4	COL19A1	6	70909413	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	77584	70909413	100205654	1627	78792											
COL9A1	1297	broad.mit.edu	37	chr6	70984464	70984464	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccaggggatccatcaggTcctgttaatccctaatagag	11	9	11	10	0	1	1	1	0	0	1	4	3	4	2	4	3	1	1	4	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:70984464T>C	uc003pfg.3	-	11	1146	c.987A>G	c.(985-987)GGA>GGG	p.G329G	COL9A1_uc003pfe.3_5'UTR|COL9A1_uc003pff.3_Silent_p.G86G	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	329	Triple-helical region (COL3).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						ATCCATCAGGTCCTGTTAATC	0.348													3	85					0	0	1	0	0		C	70984464	C	C	70984464	2	2	151	1	0	0	0	0	0	0	0	1	3710	1654	58	3		3	COL9A1	6	70984464	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	75051	70984464	100130603	1628	78793											
RIMS1	22999	broad.mit.edu	37	chr6	72806716	72806716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaataggggaagaagcgcggCgttaccagggcgagcacaaa	15	3	15	8	4	0	1	0	0	0	1	0	3	0	2	1	4	3	2	1	4	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:72806716C>T	uc003pga.2	+	3	387	c.310C>T	c.(310-312)CGT>TGT	p.R104C		NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	104	RabBD.				calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				AGAAGCGCGGCGTTACCAGGG	0.448													13	51					0	0	1	0	0		T	72806716	T	T	72806716	3	4	151	1	0	0	0	0	1	0	0	0	13392	768	27	1	320	1	RIMS1	6	72806716	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1822252	72806716	98308351	1629	78794											
EEF1A1	1915	broad.mit.edu	37	chr6	74227952	74227952	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaatacaggggcatagccGgcgcttatttggcctggatg	8	10	13	10	2	0	0	0	0	0	0	1	1	1	1	3	5	2	2	3	5	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:74227952G>A	uc003phi.2	-	6	1102	c.1065C>T	c.(1063-1065)GCC>GCT	p.A355A	EEF1A1_uc003phd.2_Silent_p.A80A|EEF1A1_uc003phe.2_Silent_p.A345A|EEF1A1_uc003phf.2_Silent_p.A348A|EEF1A1_uc003phg.2_Intron|EEF1A1_uc003phh.2_Silent_p.A201A|EEF1A1_uc003phj.2_Silent_p.A355A|EEF1A1_uc003phk.2_Silent_p.A355A|EEF1A1_uc003phl.2_Intron|EEF1A1_uc003phm.1_Intron	NM_001402	NP_001393	P68104	EF1A1_HUMAN	eukaryotic translation elongation factor 1 alpha	355						cytosol|eukaryotic translation elongation factor 1 complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0						GGGCATAGCCGGCGCTTATTT	0.448													12	84					0	0	1	0	0		A	74227952	A	A	74227952	2	1	151	1	0	0	0	0	0	0	0	1	4929	1103	39	1		1	EEF1A1	6	74227952	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1421236	74227952	96887115	1630	78795											
SLC17A5	26503	broad.mit.edu	37	chr6	74348179	74348179	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttctttcaagagggggaGcccaagaagaccacatggca	12	7	12	10	0	2	3	1	0	1	3	2	4	2	4	2	3	2	2	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:74348179G>A	uc003phn.3	-	4	697	c.569C>T	c.(568-570)GCT>GTT	p.A190V	SLC17A5_uc010kax.2_5'Flank|SLC17A5_uc010kay.2_RNA|SLC17A5_uc011dyo.1_Intron	NM_012434	NP_036566	Q9NRA2	S17A5_HUMAN	sialin	190					anion transport	integral to plasma membrane|lysosomal membrane|membrane fraction	sialic acid:hydrogen symporter activity			skin(5)|central_nervous_system(1)	6						AAGAGGGGGAGCCCAAGAAGA	0.373													12	55					0	0	1	0	0		A	74348179	A	A	74348179	3	1	151	1	0	0	0	0	1	0	0	0	14445	971	34	2	950	2	SLC17A5	6	74348179	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	120227	74348179	96766888	1631	78796											
CD109	135228	broad.mit.edu	37	chr6	74512960	74512960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taggttaccagagagaacttCtctatcagagggaagatggc	13	9	12	7	0	2	4	1	0	1	4	3	6	2	5	1	3	2	1	1	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:74512960C>T	uc003php.2	+	24	3321	c.2896C>T	c.(2896-2898)CTC>TTC	p.L966F	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Missense_Mutation_p.L966F|CD109_uc010kba.2_Missense_Mutation_p.L889F	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	966						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						GAGAGAACTTCTCTATCAGAG	0.383													31	99					0	0	1	0	0		T	74512960	T	T	74512960	3	4	151	1	0	0	0	0	1	0	0	0	2966	913	32	4	2990	4	CD109	6	74512960	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	164781	74512960	96602107	1632	78797											
CD109	135228	broad.mit.edu	37	chr6	74516797	74516797	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggatatagaaagtatcaggTatttcgtatttaatttaata	15	16	8	2	1	1	1	1	0	0	1	2	2	1	2	0	2	0	3	0	2	9	11			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:74516797T>C	uc003php.2	+	25	3614	c.3189_splice	c.e25+2	p.Q1063_splice	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Splice_Site_p.Q1063_splice|CD109_uc010kba.2_Splice_Site_p.Q986_splice	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor							anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						AAGTATCAGGTATTTCGTATT	0.353													6	72					0	0	1	0	0		C	74516797	C	C	74516797	5	2	151	1	0	0	0	0	0	0	1	0	2966	1652	57	3	3289	3	CD109	6	74516797	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3837	74516797	96598270	1633	78798											
COL12A1	1303	broad.mit.edu	37	chr6	75848672	75848672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagtttgttggggctggcaCgggtcctatcatgagaaaag	10	11	14	6	1	1	1	1	1	0	1	2	2	2	1	1	4	0	4	1	4	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:75848672C>T	uc003phs.2	-	28	5129	c.4963G>A	c.(4963-4965)GTG>ATG	p.V1655M	COL12A1_uc003pht.2_Missense_Mutation_p.V491M	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1655	Fibronectin type-III 12.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GGGGCTGGCACGGGTCCTATC	0.388													26	103					0	0	1	0	0		T	75848672	T	T	75848672	3	4	151	1	0	0	0	0	1	0	0	0	3672	536	19	1	4384	1	COL12A1	6	75848672	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1331875	75848672	95266395	1634	78799											
COL12A1	1303	broad.mit.edu	37	chr6	75875301	75875301	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgaaattctgtatttggTctctggctgcagattttcta	8	18	8	7	0	3	2	0	1	3	1	4	2	3	2	0	2	2	3	0	2	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:75875301T>C	uc003phs.2	-	14	3071	c.2905A>G	c.(2905-2907)ACC>GCC	p.T969A	COL12A1_uc003pht.2_Intron	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	969	Fibronectin type-III 6.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CTGTATTTGGTCTCTGGCTGC	0.413													8	224					0	0	1	0	0		C	75875301	C	C	75875301	3	2	151	1	0	0	0	0	1	0	0	0	3672	1667	58	3	6498	3	COL12A1	6	75875301	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	26629	75875301	95239766	1635	78800											
IRAK1BP1	134728	broad.mit.edu	37	chr6	79577355	79577355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actggttccctgggctgaccGgagccgggagaacaacctgg	8	6	15	12	2	0	2	0	1	0	1	1	4	1	3	4	5	3	2	4	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:79577355G>A	uc003pim.2	+	1	167	c.62G>A	c.(61-63)CGG>CAG	p.R21Q	IRAK1BP1_uc010kbg.1_RNA	NM_001010844	NP_001010844	Q5VVH5	IKBP1_HUMAN	interleukin-1 receptor-associated kinase 1	21	Intrinsically disordered.				I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus					0		all_cancers(76;0.0398)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)		BRCA - Breast invasive adenocarcinoma(397;0.21)		TGGGCTGACCGGAGCCGGGAG	0.607													17	93					0	0	1	0	0		A	79577355	A	A	79577355	3	1	151	1	0	0	0	0	1	0	0	0	7838	1116	39	1	64	1	IRAK1BP1	6	79577355	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3702054	79577355	91537712	1636	78801											
PHIP	55023	broad.mit.edu	37	chr6	79724917	79724917	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgtggttcaagaacaaatAcctcatcttcatgaccctga	12	11	8	10	0	4	3	3	2	1	1	4	3	4	3	2	2	2	1	2	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:79724917A>G	uc003pir.2	-	15	1632	c.1406T>C	c.(1405-1407)GTA>GCA	p.V469A	PHIP_uc011dyp.1_Missense_Mutation_p.V469A	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	469	WD 7.		V -> I (in a colorectal cancer sample; somatic mutation).		insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding	p.V469I(1)		large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		AAGAACAAATACCTCATCTTC	0.358													22	79					0	0	1	0	0		G	79724917	G	G	79724917	3	3	151	1	0	0	0	0	1	0	0	0	11861	391	14	3	4163	3	PHIP	6	79724917	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	147562	79724917	91390150	1637	78802											
TTK	7272	broad.mit.edu	37	chr6	80749999	80749999	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaattcaaactcatccaggTactacttctttaaaaatttg	15	14	3	9	0	3	0	2	0	1	0	4	0	4	0	1	1	3	1	1	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:80749999T>C	uc003pjc.2	+	20	2466	c.2392_splice	c.e20+2	p.V798_splice	TTK_uc003pjb.3_Splice_Site_p.V797_splice	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase						mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		CTCATCCAGGTACTACTTCTT	0.328													21	76					0	0	1	0	0		C	80749999	C	C	80749999	5	2	151	1	0	0	0	0	0	0	1	0	16746	1652	57	3	2468	3	TTK	6	80749999	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1025082	80749999	90365068	1638	78803											
DOPEY1	23033	broad.mit.edu	37	chr6	83819867	83819867	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatatgttgttggaaaaggTtgctgctgctgtggaccagt	10	13	13	5	0	0	0	0	0	0	0	0	2	0	2	1	3	3	6	1	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:83819867T>C	uc003pjs.1	+	6	775	c.515T>C	c.(514-516)GTT>GCT	p.V172A	DOPEY1_uc011dyy.1_Missense_Mutation_p.V172A|DOPEY1_uc010kbl.1_Missense_Mutation_p.V172A	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	172					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		TTGGAAAAGGTTGCTGCTGCT	0.393													59	222					0	0	1	0	0		C	83819867	C	C	83819867	3	2	151	1	0	0	0	0	1	0	0	0	4713	1725	60	3	529	3	DOPEY1	6	83819867	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3069868	83819867	87295200	1639	78804											
PGM3	5238	broad.mit.edu	37	chr6	83891476	83891476	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtggaggtttctgatgacTtttcacaaagtcagctccac	9	13	9	10	0	3	2	2	2	1	0	4	3	4	3	1	2	1	2	1	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:83891476T>C	uc003pjv.2	-	6	806	c.766A>G	c.(766-768)AGT>GGT	p.S256G	PGM3_uc003pjw.2_Missense_Mutation_p.S175G|PGM3_uc011dyz.1_Missense_Mutation_p.S284G	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	256					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		TTCTGATGACTTTTCACAAAG	0.408													39	154					0	0	1	0	0		C	83891476	C	C	83891476	3	2	151	1	0	0	0	0	1	0	0	0	11819	1609	56	3	894	3	PGM3	6	83891476	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	71609	83891476	87223591	1640	78805											
ME1	4199	broad.mit.edu	37	chr6	83933648	83933648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccactggcaaaaattgcaCgtccctacaacaaagacaca	16	6	6	13	1	0	1	0	0	0	1	1	1	1	1	2	1	4	2	2	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:83933648C>T	uc003pjy.2	-	12	1386	c.1280G>A	c.(1279-1281)CGT>CAT	p.R427H	ME1_uc011dzb.1_Missense_Mutation_p.R352H|ME1_uc011dzc.1_Missense_Mutation_p.R261H	NM_002395	NP_002386	P48163	MAOX_HUMAN	cytosolic malic enzyme 1	427					carbohydrate metabolic process|cellular lipid metabolic process|malate metabolic process|NADP biosynthetic process|response to carbohydrate stimulus|response to hormone stimulus	cytosol	ADP binding|electron carrier activity|malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|manganese ion binding|NAD binding|NADP binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;1.28e-06)|Acute lymphoblastic leukemia(125;5.03e-07)|all_hematologic(105;0.000238)|all_epithelial(107;0.00218)		BRCA - Breast invasive adenocarcinoma(397;0.0641)	NADH(DB00157)	AAAAATTGCACGTCCCTACAA	0.398													8	61					0	0	1	0	0		T	83933648	T	T	83933648	3	4	151	1	0	0	0	0	1	0	0	0	9435	536	19	1	450	1	ME1	6	83933648	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	42172	83933648	87181419	1641	78806											
PRSS35	167681	broad.mit.edu	37	chr6	84234379	84234379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctctggattcacgggaacGatgccaattgtgcttacggc	8	10	12	11	3	2	0	1	0	1	0	2	3	2	2	2	3	4	1	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:84234379G>A	uc003pjz.2	+	2	1382	c.1219G>A	c.(1219-1221)GAT>AAT	p.D407N	PRSS35_uc010kbm.2_Missense_Mutation_p.D407N	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	407	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		TCACGGGAACGATGCCAATTG	0.502													10	41					0	0	1	0	0		A	84234379	A	A	84234379	3	1	151	1	0	0	0	0	1	0	0	0	12646	1058	37	1	1221	1	PRSS35	6	84234379	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	300731	84234379	86880688	1642	78807											
SNX14	57231	broad.mit.edu	37	chr6	86281916	86281916	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagccatggctggtagtttTcaagtagcaaagaaggccta	12	10	11	8	0	1	1	1	0	0	1	1	1	1	1	2	3	2	5	2	3	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:86281916T>C	uc003pkr.2	-	4	549	c.356A>G	c.(355-357)GAA>GGA	p.E119G	SNX14_uc003pkq.2_5'UTR|SNX14_uc011dzg.1_Missense_Mutation_p.E67G|SNX14_uc003pks.2_Missense_Mutation_p.E119G|SNX14_uc003pkt.2_Missense_Mutation_p.E119G	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a	119					cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		CTGGTAGTTTTCAAGTAGCAA	0.294													6	108					0	0	1	0	0		C	86281916	C	C	86281916	3	2	151	1	0	0	0	0	1	0	0	0	14910	1783	62	3	2588	3	SNX14	6	86281916	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2047537	86281916	84833151	1643	78808											
ZNF292	23036	broad.mit.edu	37	chr6	87969203	87969203	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctttaaatgtgtagtaccTacatgtacaaaaacatttac	15	13	4	9	0	0	0	0	0	0	0	0	0	0	0	2	0	5	3	2	0	9	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:87969203T>A	uc003plm.3	+	8	5897	c.5856T>A	c.(5854-5856)CCT>CCA	p.P1952P		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1952	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		GTGTAGTACCTACATGTACAA	0.303													3	13					0	0	1	0	0		A	87969203	A	A	87969203	2	1	151	1	0	0	0	0	0	0	0	1	17851	1509	53	5		5	ZNF292	6	87969203	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1687287	87969203	83145864	1644	78809											
SLC35A1	10559	broad.mit.edu	37	chr6	88210879	88210879	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctcttttttttaggtgAcctaccagttgaagattccg	8	17	7	9	1	1	3	0	2	1	1	3	3	2	3	3	1	1	1	3	1	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:88210879A>G	uc011dzj.1	+	4	437	c.358A>G	c.(358-360)ACC>GCC	p.T120A	SLC35A1_uc003plx.2_RNA|SLC35A1_uc010kbw.2_5'UTR|SLC35A1_uc003plz.2_RNA|SLC35A1_uc011dzi.1_5'UTR|SLC35A1_uc003ply.2_RNA|SLC35A1_uc010kbx.2_Missense_Mutation_p.T120A|SLC35A1_uc010kby.2_RNA	NM_006416	NP_006407	P78382	S35A1_HUMAN	solute carrier family 35 (CMP-sialic acid	120	Helical; (Potential).				carbohydrate metabolic process|protein modification process	Golgi membrane|integral to plasma membrane	CMP-N-acetylneuraminate transmembrane transporter activity|sugar:hydrogen symporter activity				0		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		TTTTTAGGTGACCTACCAGTT	0.303													31	131					0	0	1	0	0		G	88210879	G	G	88210879	3	3	151	1	0	0	0	0	1	0	0	0	14595	275	10	3	372	3	SLC35A1	6	88210879	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	241676	88210879	82904188	1645	78810											
CNR1	1268	broad.mit.edu	37	chr6	88853864	88853864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgcagaatgcaaacaccGtcttaatgagcttgttcatc	12	12	7	10	1	2	2	1	1	1	1	3	2	2	2	1	0	5	4	1	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:88853864G>A	uc011dzq.1	-	2	4693	c.1130C>T	c.(1129-1131)ACG>ATG	p.T377M	CNR1_uc010kbz.2_Missense_Mutation_p.T377M|CNR1_uc011dzr.1_Missense_Mutation_p.T377M|CNR1_uc011dzs.1_Missense_Mutation_p.T377M|CNR1_uc003pmq.3_Missense_Mutation_p.T377M|CNR1_uc011dzt.1_Missense_Mutation_p.T377M|CNR1_uc010kca.2_Missense_Mutation_p.T344M	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	377	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	TGCAAACACCGTCTTAATGAG	0.522													28	97					0	0	1	0	0		A	88853864	A	A	88853864	3	1	151	1	0	0	0	0	1	0	0	0	3634	1145	40	1	292	1	CNR1	6	88853864	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	642985	88853864	82261203	1646	78811											
PNRC1	10957	broad.mit.edu	37	chr6	89790771	89790771	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacccccgggcactgccccCgaccctcttcctccctcatt	4	8	7	22	2	2	0	1	0	1	0	4	2	4	1	7	2	1	1	7	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:89790771C>A	uc003pmv.2	+	1	343	c.158C>A	c.(157-159)CCG>CAG	p.P53Q	PNRC1_uc003pmu.2_Missense_Mutation_p.P53Q|PNRC1_uc003pmx.2_5'Flank	NM_006813	NP_006804	Q12796	PNRC1_HUMAN	proline-rich nuclear receptor coactivator 1	53					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding				0		all_cancers(76;3.64e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.102)		GCACTGCCCCCGACCCTCTTC	0.692										Multiple Myeloma(7;0.094)			18	35					2.35188e-11	2.42925e-11	1	1	0		A	89790771	A	A	89790771	3	1	151	1	0	0	0	0	1	0	0	0	12193	652	23	5	160	5	PNRC1	6	89790771	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	936907	89790771	81324296	1647	78812											
BACH2	60468	broad.mit.edu	37	chr6	90661192	90661192	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttggtgtctgtgggcacGtcaggctcgggcagcagggc	4	9	17	11	2	2	0	1	0	1	0	4	0	3	0	1	5	1	4	1	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:90661192G>A	uc011eab.1	-	7	1442	c.633C>T	c.(631-633)GAC>GAT	p.D211D	BACH2_uc003pnw.2_Silent_p.D211D|BACH2_uc010kch.2_Silent_p.D211D	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	211						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		CTGTGGGCACGTCAGGCTCGG	0.557													33	109					0	0	1	0	0		A	90661192	A	A	90661192	2	1	151	1	0	0	0	0	0	0	0	1	1285	1136	40	1		1	BACH2	6	90661192	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	870421	90661192	80453875	1648	78813											
BACH2	60468	broad.mit.edu	37	chr6	90661316	90661316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgtctctgaatccatcGtctcctcctcttcatcctcc	4	14	5	18	2	4	1	1	1	3	0	11	1	8	1	6	1	0	0	6	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:90661316G>A	uc011eab.1	-	7	1318	c.509C>T	c.(508-510)ACG>ATG	p.T170M	BACH2_uc003pnw.2_Missense_Mutation_p.T170M|BACH2_uc010kch.2_Missense_Mutation_p.T170M	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	170						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		TGAATCCATCGTCTCCTCCTC	0.607													27	86					0	0	1	0	0		A	90661316	A	A	90661316	3	1	151	1	0	0	0	0	1	0	0	0	1285	1145	40	1	2028	1	BACH2	6	90661316	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	124	90661316	80453751	1649	78814											
KIAA0776	23376	broad.mit.edu	37	chr6	96974251	96974251	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataaattgcaagaaagtggTcaggtcaccatatcagaact	16	9	9	7	0	3	2	3	0	0	2	3	3	3	2	1	2	2	1	1	2	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:96974251T>C	uc003por.2	+	5	453	c.405T>C	c.(403-405)GGT>GGC	p.G135G	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	135	Required for E3 UFM1-protein ligase activity.|Involved in CDK5RAP3-binding.				negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		AAGAAAGTGGTCAGGTCACCA	0.323													22	143					0	0	1	0	0		C	96974251	C	C	96974251	2	2	151	1	0	0	0	0	0	0	0	1	8209	1654	58	3		3	KIAA0776	6	96974251	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6312935	96974251	74140816	1650	78815											
KLHL32	114792	broad.mit.edu	37	chr6	97562108	97562108	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaagttgagcatgccagTggccggacgtgtgctgtgag	7	8	19	7	2	0	2	0	2	0	0	0	4	0	4	2	4	3	3	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:97562108T>C	uc010kcm.1	+	7	1549	c.1077T>C	c.(1075-1077)AGT>AGC	p.S359S	KLHL32_uc003poy.2_Silent_p.S359S|KLHL32_uc011ead.1_Silent_p.S323S|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Silent_p.S290S|KLHL32_uc003ppa.2_Intron	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	359	Kelch 2.									ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		AGCATGCCAGTGGCCGGACGT	0.587													18	72					0	0	1	0	0		C	97562108	C	C	97562108	2	2	151	1	0	0	0	0	0	0	0	1	8402	1693	59	3		3	KLHL32	6	97562108	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	587857	97562108	73552959	1651	78816											
C6orf167	253714	broad.mit.edu	37	chr6	97679388	97679388	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatacaaagaaaaatagtAtaactactgctggatttata	20	11	6	4	0	0	2	0	0	0	2	0	3	0	3	0	1	4	2	0	1	11	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:97679388A>T	uc003ppb.2	-	13	1709	c.1443T>A	c.(1441-1443)TAT>TAA	p.Y481*	C6orf167_uc011eaf.1_Nonsense_Mutation_p.Y441*|C6orf167_uc010kcn.1_Nonsense_Mutation_p.Y255*	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	481					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		GAAAAATAGTATAACTACTGC	0.368													23	67					0	0	1	0	0		T	97679388	T	T	97679388	4	4	151	1	0	0	0	0	0	1	0	0	2345	456	16	5	2340	5	C6orf167	6	97679388	Nonsense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	117280	97679388	73435679	1652	78817											
C6orf167	253714	broad.mit.edu	37	chr6	97715821	97715821	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgttcttcaaataggctgAtgttggttaaattgtcactt	11	17	8	5	0	3	1	2	1	1	0	3	1	3	1	0	2	0	4	0	2	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:97715821A>T	uc003ppb.2	-	8	1021	c.755T>A	c.(754-756)ATC>AAC	p.I252N	C6orf167_uc011eaf.1_Missense_Mutation_p.I252N|C6orf167_uc010kcn.1_Missense_Mutation_p.I26N|C6orf167_uc010kco.1_Missense_Mutation_p.I26N|C6orf167_uc003ppc.2_Missense_Mutation_p.I252N	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	252					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		AAATAGGCTGATGTTGGTTAA	0.308													12	61					0	0	1	0	0		T	97715821	T	T	97715821	3	4	151	1	0	0	0	0	1	0	0	0	2345	333	12	5	3048	5	C6orf167	6	97715821	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	36433	97715821	73399246	1653	78818											
FBXL4	26235	broad.mit.edu	37	chr6	99328484	99328484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaacagaagttcaaaatgCtgagcagtgctgtttgctgc	11	11	11	8	0	1	3	1	2	0	1	1	3	1	3	0	0	6	6	0	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:99328484C>T	uc003ppf.1	-	7	1692	c.1334G>A	c.(1333-1335)AGC>AAC	p.S445N	FBXL4_uc003ppg.1_Missense_Mutation_p.S445N|FBXL4_uc003pph.1_Missense_Mutation_p.S47N|FBXL4_uc010kcp.2_Intron	NM_012160	NP_036292	Q9UKA2	FBXL4_HUMAN	F-box and leucine-rich repeat protein 4	445	LRR 3.				ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex				skin(2)	2		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0413)		GTTCAAAATGCTGAGCAGTGC	0.393													13	55					0	0	1	0	0		T	99328484	T	T	99328484	3	4	151	1	0	0	0	0	1	0	0	0	5735	797	28	2	543	2	FBXL4	6	99328484	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1612663	99328484	71786583	1654	78819											
COQ3	51805	broad.mit.edu	37	chr6	99828203	99828203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgggaagtactgtacagtCtcgcccaagggtacctaaaa	12	10	10	9	1	1	0	0	0	1	0	2	1	1	1	2	2	3	3	2	2	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:99828203C>T	uc003ppk.2	-	3	275	c.248G>A	c.(247-249)AGA>AAA	p.R83K		NM_017421	NP_059117	Q9NZJ6	COQ3_HUMAN	hexaprenyldihydroxybenzoate methyltransferase	83					glycerol metabolic process|ubiquinone biosynthetic process	mitochondrial matrix	2-polyprenyl-6-methoxy-1,4-benzoquinone methyltransferase activity|3-demethylubiquinone-9 3-O-methyltransferase activity|hexaprenyldihydroxybenzoate methyltransferase activity			upper_aerodigestive_tract(1)	1		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0625)		ACTGTACAGTCTCGCCCAAGG	0.423													21	62					0	0	1	0	0		T	99828203	T	T	99828203	3	4	151	1	0	0	0	0	1	0	0	0	3749	913	32	4	881	4	COQ3	6	99828203	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	499719	99828203	71286864	1655	78820											
SFRS18	25957	broad.mit.edu	37	chr6	99860536	99860536	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggcatcattcctggtggTtgttctaccatgctttgctg	4	18	10	9	0	2	0	1	0	1	0	3	0	3	0	2	3	3	5	2	3	1	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:99860536T>C	uc003ppo.3	-	4	396	c.168A>G	c.(166-168)CAA>CAG	p.Q56Q	SFRS18_uc003ppp.3_Silent_p.Q56Q|SFRS18_uc011eag.1_Silent_p.Q56Q|SFRS18_uc003ppr.2_Silent_p.Q56Q|SFRS18_uc003ppt.2_Silent_p.Q56Q|SFRS18_uc003pps.2_Silent_p.Q56Q	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	56	Gln-rich.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		TTCCTGGTGGTTGTTCTACCA	0.438													7	165					0	0	1	0	0		C	99860536	C	C	99860536	2	2	151	1	0	0	0	0	0	0	0	1	14199	1722	60	3		3	SFRS18	6	99860536	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	32333	99860536	71254531	1656	78821											
PRDM13	59336	broad.mit.edu	37	chr6	100062346	100062346	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctgcggcccttcggcgAccccagcaatctcaacaagc	8	7	9	17	3	2	0	1	0	2	0	4	1	2	0	3	2	4	1	3	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:100062346A>G	uc003pqg.1	+	4	2096	c.1835A>G	c.(1834-1836)GAC>GGC	p.D612G		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	612	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		CCCTTCGGCGACCCCAGCAAT	0.622													5	25					0	0	1	0	0		G	100062346	G	G	100062346	3	3	151	1	0	0	0	0	1	0	0	0	12476	275	10	3	1849	3	PRDM13	6	100062346	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	201810	100062346	71052721	1657	78822											
ASCC3	10973	broad.mit.edu	37	chr6	101054919	101054919	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctatcccgaaagcaagggTcagcttgaggttggaatctc	10	10	11	10	1	2	1	1	1	1	0	5	3	4	2	2	3	2	3	2	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:101054919T>C	uc003pqk.2	-	31	5160	c.4831A>G	c.(4831-4833)ACC>GCC	p.T1611A		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1611	Helicase C-terminal 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		AAAGCAAGGGTCAGCTTGAGG	0.368													18	91					0	0	1	0	0		C	101054919	C	C	101054919	3	2	151	1	0	0	0	0	1	0	0	0	1034	1667	58	3	1825	3	ASCC3	6	101054919	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	992573	101054919	70060148	1658	78823											
ASCC3	10973	broad.mit.edu	37	chr6	101296426	101296426	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagaaataattcgattagtAgcattacaagctgcagtggc	14	11	10	6	1	0	1	0	1	0	1	1	3	0	1	0	1	4	4	0	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:101296426A>G	uc003pqk.2	-	4	728	c.399T>C	c.(397-399)GCT>GCC	p.A133A	ASCC3_uc011eai.1_Silent_p.A35A|ASCC3_uc003pql.2_Silent_p.A133A|ASCC3_uc010kcv.2_Silent_p.A133A	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	133					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		TTCGATTAGTAGCATTACAAG	0.383													14	83					0	0	1	0	0		G	101296426	G	G	101296426	2	3	151	1	0	0	0	0	0	0	0	1	1034	407	15	3		3	ASCC3	6	101296426	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	241507	101296426	69818641	1659	78824											
PREP	5550	broad.mit.edu	37	chr6	105781311	105781311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcttgaatgtgaacaccGtcccctcattggtcacgtag	8	12	9	12	3	3	2	2	2	1	0	5	2	4	2	3	1	1	1	3	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:105781311G>A	uc003prc.2	-	8	1096	c.893C>T	c.(892-894)ACG>ATG	p.T298M		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	298				T -> A (in Ref. 2; BAA04661).	proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)	TGTGAACACCGTCCCCTCATT	0.458													43	182					0	0	1	0	0		A	105781311	A	A	105781311	3	1	151	1	0	0	0	0	1	0	0	0	12496	1145	40	1	1271	1	PREP	6	105781311	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4484885	105781311	65333756	1660	78825											
RTN4IP1	84816	broad.mit.edu	37	chr6	107050772	107050772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagcaaaagtaccaactcCgcctgaagcgcctaagatta	15	8	7	11	2	0	2	0	1	0	1	1	2	1	2	4	0	4	2	4	0	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:107050772C>T	uc003prj.2	-	5	1123	c.646G>A	c.(646-648)GGA>AGA	p.G216R	RTN4IP1_uc010kdd.2_Intron|RTN4IP1_uc003prk.2_Missense_Mutation_p.G116R	NM_032730	NP_116119	Q8WWV3	RT4I1_HUMAN	reticulon 4 interacting protein 1 precursor	216						mitochondrion	oxidoreductase activity|zinc ion binding				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;9.45e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.0144)	Epithelial(6;0.000873)|all cancers(7;0.00363)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0394)	all cancers(137;0.113)|BRCA - Breast invasive adenocarcinoma(108;0.127)|Epithelial(106;0.144)		GTACCAACTCCGCCTGAAGCG	0.294													30	97					0	0	1	0	0		T	107050772	T	T	107050772	3	4	151	1	0	0	0	0	1	0	0	0	13754	661	23	1	564	1	RTN4IP1	6	107050772	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1269461	107050772	64064295	1661	78826											
BEND3	57673	broad.mit.edu	37	chr6	107391162	107391162	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccggtggaggaggaagacGgcaaactcgcctggtgagga	11	4	18	8	3	0	2	0	1	0	1	1	6	0	6	2	7	2	1	2	7	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:107391162G>A	uc003prs.2	-	5	1883	c.1233C>T	c.(1231-1233)GCC>GCT	p.A411A		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	411	BEN 2.									ovary(3)	3						GGAGGAAGACGGCAAACTCGC	0.622													20	52					0	0	1	0	0		A	107391162	A	A	107391162	2	1	151	1	0	0	0	0	0	0	0	1	1400	1103	39	1		1	BEND3	6	107391162	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	340390	107391162	63723905	1662	78827											
BEND3	57673	broad.mit.edu	37	chr6	107420485	107420485	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcggtgaattcagttgagTtcatcttctattccgctaaa	9	16	7	9	2	4	2	2	2	2	0	6	2	5	2	1	1	0	3	1	1	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:107420485T>C	uc003prs.2	-	3	655	c.5A>G	c.(4-6)AAC>AGC	p.N2S		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	2										ovary(3)	3						TTCAGTTGAGTTCATCTTCTA	0.313													5	216					0	0	1	0	0		C	107420485	C	C	107420485	3	2	151	1	0	0	0	0	1	0	0	0	1400	1725	60	3	2493	3	BEND3	6	107420485	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	29323	107420485	63694582	1663	78828											
PDSS2	57107	broad.mit.edu	37	chr6	107780386	107780386	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgaccacgccaagagcccAccgaggagatggtgtcgagg	11	3	14	13	4	0	2	0	0	0	2	1	6	0	2	5	3	1	0	5	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:107780386A>G	uc003prt.2	-	1	394	c.104T>C	c.(103-105)GTG>GCG	p.V35A	PDSS2_uc011eak.1_Intron|PDSS2_uc011eal.1_Missense_Mutation_p.V35A|PDSS2_uc003pru.2_Missense_Mutation_p.V35A|PDSS2_uc003prv.2_Missense_Mutation_p.V35A	NM_020381	NP_065114	Q86YH6	DLP1_HUMAN	prenyl diphosphate synthase, subunit 2	35					isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	protein heterodimerization activity			ovary(2)	2	Breast(9;0.0127)	all_cancers(87;3.63e-05)|Acute lymphoblastic leukemia(125;2.86e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.0108)|Colorectal(196;0.156)|Lung NSC(302;0.211)	BRCA - Breast invasive adenocarcinoma(8;0.0101)|all cancers(7;0.243)	BRCA - Breast invasive adenocarcinoma(108;0.112)|OV - Ovarian serous cystadenocarcinoma(136;0.173)|all cancers(137;0.191)		CCAAGAGCCCACCGAGGAGAT	0.627											OREG0017595	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	77					0	0	1	0	0		G	107780386	G	G	107780386	3	3	151	1	0	0	0	0	1	0	0	0	11713	159	6	3	1127	3	PDSS2	6	107780386	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	359901	107780386	63334681	1664	78829											
OSTM1	28962	broad.mit.edu	37	chr6	108385478	108385478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgccattaagagacttctgGcacaactctgactctctgaa	11	11	7	12	0	3	3	0	2	3	1	4	4	3	3	1	1	2	1	1	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:108385478G>A	uc003psd.2	-	2	514	c.428C>T	c.(427-429)GCC>GTC	p.A143V		NM_014028	NP_054747	Q86WC4	OSTM1_HUMAN	osteopetrosis associated transmembrane protein 1	143	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1		all_cancers(87;3.82e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000195)|Colorectal(196;0.0293)|all_lung(197;0.0938)		BRCA - Breast invasive adenocarcinoma(108;0.0131)|Epithelial(106;0.0438)|OV - Ovarian serous cystadenocarcinoma(136;0.0571)|all cancers(137;0.0581)		GAGACTTCTGGCACAACTCTG	0.353											OREG0003974	type=REGULATORY REGION|Gene=OSTM1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	28	96					0	0	1	0	0		A	108385478	A	A	108385478	3	1	151	1	0	0	0	0	1	0	0	0	11317	1203	42	2	596	2	OSTM1	6	108385478	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	605092	108385478	62729589	1665	78830											
SESN1	27244	broad.mit.edu	37	chr6	109323528	109323528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccctgtcctagtggtcgagGaattctaatgccaagttcct	8	13	9	11	1	1	0	0	0	1	0	5	2	4	1	4	2	1	1	4	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:109323528G>A	uc003pst.3	-	2	213	c.121C>T	c.(121-123)CCT>TCT	p.P41S	SESN1_uc003psu.2_Missense_Mutation_p.P100S	NM_014454	NP_055269	Q9Y6P5	SESN1_HUMAN	sestrin 1	41					cell cycle arrest|negative regulation of cell proliferation|response to DNA damage stimulus	nucleus				ovary(1)	1		all_cancers(87;6.45e-05)|Acute lymphoblastic leukemia(125;3.55e-10)|all_hematologic(75;1.68e-07)|all_epithelial(87;0.0106)|Colorectal(196;0.0637)		Epithelial(106;0.0014)|BRCA - Breast invasive adenocarcinoma(108;0.00146)|all cancers(137;0.0031)|OV - Ovarian serous cystadenocarcinoma(136;0.0117)		AGTGGTCGAGGAATTCTAATG	0.413													17	85					0	0	1	0	0		A	109323528	A	A	109323528	3	1	151	1	0	0	0	0	1	0	0	0	14149	1174	41	4	1393	4	SESN1	6	109323528	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	938050	109323528	61791539	1666	78831											
MICAL1	64780	broad.mit.edu	37	chr6	109774467	109774467	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcatagaaatacttaccCttcctaggagggggctggag	11	8	14	8	0	0	1	0	0	0	1	1	4	1	4	2	5	3	2	2	5	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:109774467C>A	uc003ptj.2	-	3	824	c.570G>T	c.(568-570)AAG>AAT	p.K190N	MICAL1_uc003ptk.2_Missense_Mutation_p.K190N|MICAL1_uc010kdr.2_Missense_Mutation_p.K190N|MICAL1_uc011eaq.1_Missense_Mutation_p.K209N	NM_022765	NP_073602	Q8TDZ2	MICA1_HUMAN	microtubule associated monoxygenase, calponin	190					cytoskeleton organization|signal transduction	cytoplasm|intermediate filament	SH3 domain binding|zinc ion binding			breast(2)|ovary(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		AATACTTACCCTTCCTAGGAG	0.522													16	67					6.94344e-10	7.14333e-10	1	1	0		A	109774467	A	A	109774467	3	1	151	1	0	0	0	0	1	0	0	0	9587	695	24	5	2721	5	MICAL1	6	109774467	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	450939	109774467	61340600	1667	78832											
ZBTB24	9841	broad.mit.edu	37	chr6	109787303	109787303	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atattgaggctctgaatgtgTtctgtttgctcctgttgagc	6	17	11	7	0	2	3	0	3	2	0	3	3	3	3	1	1	2	5	1	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:109787303T>C	uc003ptl.1	-	7	2013	c.1845A>G	c.(1843-1845)GAA>GAG	p.E615E	MICAL1_uc011eaq.1_5'Flank|ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Silent_p.E559E|ZBTB24_uc010kdt.1_RNA	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	615					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		TCTGAATGTGTTCTGTTTGCT	0.478													37	131					0	0	1	0	0		C	109787303	C	C	109787303	2	2	151	1	0	0	0	0	0	0	0	1	17556	1722	60	3		3	ZBTB24	6	109787303	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	12836	109787303	61327764	1668	78833											
AKD1	221264	broad.mit.edu	37	chr6	109962765	109962765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctctgcaccctgaagttTggttagaatagctgctcttt	7	16	8	10	0	2	2	0	1	2	1	3	2	3	2	2	1	3	5	2	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:109962765T>C	uc003ptn.2	-	10	966	c.889A>G	c.(889-891)AAA>GAA	p.K297E	AKD1_uc003ptr.3_Missense_Mutation_p.K297E	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	297					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						CCCTGAAGTTTGGTTAGAATA	0.303													26	84					0	0	1	0	0		C	109962765	C	C	109962765	3	2	151	1	0	0	0	0	1	0	0	0	460	1821	63	3	4986	3	AKD1	6	109962765	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	175462	109962765	61152302	1669	78834											
GPR6	2830	broad.mit.edu	37	chr6	110300895	110300895	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcttgccgccacttggAccgtgtccctaggcctgggg	3	10	13	15	2	0	0	0	0	0	0	2	1	2	1	6	4	2	1	6	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:110300895A>T	uc011eaw.1	+	2	760	c.580A>T	c.(580-582)ACC>TCC	p.T194S	GPR6_uc011eav.1_Missense_Mutation_p.T209S|GPR6_uc003ptu.2_Missense_Mutation_p.T194S	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	194	Helical; Name=4; (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		CGCCACTTGGACCGTGTCCCT	0.692													6	26					0	0	1	0	0		T	110300895	T	T	110300895	3	4	151	1	0	0	0	0	1	0	0	0	6716	275	10	5	582	5	GPR6	6	110300895	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	338130	110300895	60814172	1670	78835											
WASF1	8936	broad.mit.edu	37	chr6	110434550	110434550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttcttcctttggatcaaGctgtgtaacactaacagata	11	15	6	9	0	3	1	1	0	2	1	4	2	4	2	1	1	3	2	1	1	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:110434550G>A	uc003ptv.1	-	5	1084	c.247C>T	c.(247-249)CTT>TTT	p.L83F	WASF1_uc003ptw.1_Missense_Mutation_p.L83F|WASF1_uc003ptx.1_Missense_Mutation_p.L83F|WASF1_uc003pty.1_Missense_Mutation_p.L83F|WASF1_uc003ptz.1_Missense_Mutation_p.L83F	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	83					actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)		TTTGGATCAAGCTGTGTAACA	0.303													17	48					0	0	1	0	0		A	110434550	A	A	110434550	3	1	151	1	0	0	0	0	1	0	0	0	17278	971	34	2	1460	2	WASF1	6	110434550	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	133655	110434550	60680517	1671	78836											
DDO	8528	broad.mit.edu	37	chr6	110714482	110714482	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaccacgatgtcaaaggaCggatgaagttcccacaggtc	12	8	11	10	2	1	2	1	2	0	0	3	5	2	4	2	3	0	1	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:110714482C>T	uc003puc.2	-	5	610	c.606G>A	c.(604-606)CCG>CCA	p.P202P	C6orf186_uc003pub.2_Intron|DDO_uc003pud.2_Silent_p.P143P	NM_003649	NP_003640	Q99489	OXDD_HUMAN	D-aspartate oxidase isoform a	174					aspartate catabolic process	peroxisome	binding|D-amino-acid oxidase activity|D-aspartate oxidase activity			ovary(2)|breast(1)	3		all_cancers(87;3.47e-21)|all_epithelial(87;9.03e-20)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_lung(197;2.98e-05)|Lung NSC(302;3.25e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.00327)		all cancers(137;2.54e-48)|Epithelial(106;3.11e-44)|OV - Ovarian serous cystadenocarcinoma(136;2.08e-24)|BRCA - Breast invasive adenocarcinoma(108;0.000141)|GBM - Glioblastoma multiforme(226;0.00046)		TGTCAAAGGACGGATGAAGTT	0.502													48	250					0	0	1	0	0		T	110714482	T	T	110714482	2	4	151	1	0	0	0	0	0	0	0	1	4337	523	19	1		1	DDO	6	110714482	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	279932	110714482	60400585	1672	78837											
CDK19	23097	broad.mit.edu	37	chr6	110943323	110943323	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttcaggatcatcttcatTaaggaattctcgtttggggt	8	17	9	7	1	6	0	3	0	3	0	7	2	6	2	0	4	0	1	0	4	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:110943323T>C	uc003puh.1	-	11	1151	c.1078A>G	c.(1078-1080)AAT>GAT	p.N360D	CDK19_uc003pui.1_Missense_Mutation_p.N300D|CDK19_uc011eax.1_Missense_Mutation_p.N236D	NM_015076	NP_055891	Q9BWU1	CDK19_HUMAN	cell division cycle 2-like 6 (CDK8-like)	360							ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						TCATCTTCATTAAGGAATTCT	0.353													35	174					0	0	1	0	0		C	110943323	C	C	110943323	3	2	151	1	0	0	0	0	1	0	0	0	3138	1754	61	3	442	3	CDK19	6	110943323	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	228841	110943323	60171744	1673	78838											
REV3L	5980	broad.mit.edu	37	chr6	111628643	111628643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatgctgaggttggctcCgacatttactacagatgcca	11	10	9	11	1	0	2	0	1	0	1	1	3	1	2	2	2	5	3	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:111628643C>T	uc003puy.3	-	31	9496	c.9173G>A	c.(9172-9174)CGG>CAG	p.R3058Q	REV3L_uc003pux.3_Missense_Mutation_p.R2980Q|REV3L_uc003puz.3_Missense_Mutation_p.R2980Q|REV3L_uc003puw.3_Missense_Mutation_p.R125Q	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	3058					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		AGGTTGGCTCCGACATTTACT	0.463								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					31	158					0	0	1	0	0		T	111628643	T	T	111628643	3	4	151	1	0	0	0	0	1	0	0	0	13265	652	23	1	227	1	REV3L	6	111628643	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	685320	111628643	59486424	1674	78839											
REV3L	5980	broad.mit.edu	37	chr6	111650832	111650832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgacgcgcatcaagcattCgtgacagggctctgtcttgc	8	10	11	12	3	3	2	1	2	2	0	4	2	3	2	0	1	2	3	0	1	1	2	rs141338934		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:111650832C>T	uc003puy.3	-	25	8467	c.8144G>A	c.(8143-8145)CGA>CAA	p.R2715Q	REV3L_uc003pux.3_Missense_Mutation_p.R2637Q|REV3L_uc003puz.3_Missense_Mutation_p.R2637Q|REV3L_uc003pva.1_RNA	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2715					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		ATCAAGCATTCGTGACAGGGC	0.413								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					29	121					0	0	1	0	0		T	111650832	T	T	111650832	3	4	151	1	0	0	0	0	1	0	0	0	13265	884	31	1	1280	1	REV3L	6	111650832	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	22189	111650832	59464235	1675	78840											
REV3L	5980	broad.mit.edu	37	chr6	111695836	111695836	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattctggtgtttcagtacaAacttaacctcagcaccagac	12	11	6	12	0	3	1	2	0	1	1	3	1	3	1	2	1	4	3	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:111695836A>G	uc003puy.3	-	13	4045	c.3722T>C	c.(3721-3723)TTT>TCT	p.F1241S	REV3L_uc003pux.3_Missense_Mutation_p.F1163S|REV3L_uc003puz.3_Missense_Mutation_p.F1163S	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1241					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TTTCAGTACAAACTTAACCTC	0.373								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					4	148					0	0	1	0	0		G	111695836	G	G	111695836	3	3	151	1	0	0	0	0	1	0	0	0	13265	14	1	3	5750	3	REV3L	6	111695836	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	45004	111695836	59419231	1676	78841											
FYN	2534	broad.mit.edu	37	chr6	112015676	112015676	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccactagaatgtttgctgatCgcagatctctatggatataa	12	13	8	8	1	1	3	0	1	1	2	3	4	1	4	1	1	1	3	1	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:112015676C>T	uc003pvj.2	-	11	1515	c.1175G>A	c.(1174-1176)CGA>CAA	p.R392Q	FYN_uc003pvi.2_Missense_Mutation_p.R337Q|FYN_uc003pvk.2_Missense_Mutation_p.R392Q|FYN_uc003pvh.2_Missense_Mutation_p.R389Q|FYN_uc010kdy.1_Missense_Mutation_p.R83Q	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	392	Protein kinase.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	GTTTGCTGATCGCAGATCTCT	0.473													74	348					0	0	1	0	0		T	112015676	T	T	112015676	3	4	151	1	0	0	0	0	1	0	0	0	6140	884	31	1	450	1	FYN	6	112015676	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	319840	112015676	59099391	1677	78842											
ROS1	6098	broad.mit.edu	37	chr6	117681045	117681045	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataatatcccatctcattaTcagctgtgtagcaaacggca	13	11	6	11	1	2	0	2	0	1	0	4	0	3	0	1	1	3	4	1	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:117681045T>A	uc003pxp.1	-	23	3774	c.3575A>T	c.(3574-3576)GAT>GTT	p.D1192V	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1192	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		CATCTCATTATCAGCTGTGTA	0.393			T	GOPC|ROS1	glioblastoma|NSCLC								36	151					0	0	1	0	0		A	117681045	A	A	117681045	3	1	151	1	0	0	0	0	1	0	0	0	13556	1435	50	5	3552	5	ROS1	6	117681045	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5665369	117681045	53434022	1678	78843											
ROS1	6098	broad.mit.edu	37	chr6	117709040	117709040	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtatttcatagcactctgCagctcaggtacattcagcat	10	14	7	10	0	4	0	3	0	1	0	4	0	4	0	0	1	5	6	0	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:117709040C>T	uc003pxp.1	-	13	2116	c.1917G>A	c.(1915-1917)CTG>CTA	p.L639L	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	639	Fibronectin type-III 3.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TAGCACTCTGCAGCTCAGGTA	0.498			T	GOPC|ROS1	glioblastoma|NSCLC								63	240					0	0	1	0	0		T	117709040	T	T	117709040	2	4	151	1	0	0	0	0	0	0	0	1	13556	697	25	2		2	ROS1	6	117709040	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	27995	117709040	53406027	1679	78844											
SLC35F1	222553	broad.mit.edu	37	chr6	118588225	118588225	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcctgctgatccggtacaAggctgtgcatttcatcggca	7	12	10	12	2	1	1	1	1	0	0	4	1	3	1	2	3	3	5	2	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:118588225A>G	uc003pxx.3	+	4	746	c.545A>G	c.(544-546)AAG>AGG	p.K182R	SLC35F1_uc003pxy.1_5'UTR	NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	182					transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		ATCCGGTACAAGGCTGTGCAT	0.522													95	435					0	0	1	0	0		G	118588225	G	G	118588225	3	3	151	1	0	0	0	0	1	0	0	0	14613	72	3	3	559	3	SLC35F1	6	118588225	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	879185	118588225	52526842	1680	78845											
C6orf204	387119	broad.mit.edu	37	chr6	118845081	118845081	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacgagatgatccagtcaaAacctgcagaaacatgtttac	15	9	8	9	1	1	4	1	2	0	2	2	5	2	4	2	0	4	2	2	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:118845081A>G	uc003pxz.1	-	4	1611	c.1023T>C	c.(1021-1023)GTT>GTC	p.V341V	C6orf204_uc003pya.1_Silent_p.V344V|C6orf204_uc003pyb.2_Silent_p.V341V|C6orf204_uc011ebj.1_Silent_p.V239V|C6orf204_uc003pyc.2_Silent_p.V344V	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	341						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		ATCCAGTCAAAACCTGCAGAA	0.269													25	109					0	0	1	0	0		G	118845081	G	G	118845081	2	3	151	1	0	0	0	0	0	0	0	1	2356	1	1	3		3	C6orf204	6	118845081	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	256856	118845081	52269986	1681	78846											
MCM9	254394	broad.mit.edu	37	chr6	119252713	119252713	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacttcactggggaacatgTtgaaatattccccgatttcc	10	12	8	11	1	1	1	1	1	0	0	3	3	3	2	3	2	1	2	3	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:119252713T>C	uc003pyh.2	-	2	439	c.176A>G	c.(175-177)AAC>AGC	p.N59S		NM_153255	NP_694987	Q9NXL9	MCM9_HUMAN	minichromosome maintenance complex component 9	59					DNA replication		ATP binding|DNA binding|nucleoside-triphosphatase activity			ovary(1)	1		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0676)|OV - Ovarian serous cystadenocarcinoma(136;0.194)		GGGGAACATGTTGAAATATTC	0.443													33	168					0	0	1	0	0		C	119252713	C	C	119252713	3	2	151	1	0	0	0	0	1	0	0	0	9412	1725	60	3	1023	3	MCM9	6	119252713	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	407632	119252713	51862354	1682	78847											
FAM184A	79632	broad.mit.edu	37	chr6	119345686	119345686	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctctagacatggtcactAtgcgttggacatgctgggct	7	13	11	10	1	2	1	1	0	1	1	3	2	2	2	0	3	2	3	0	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:119345686A>G	uc003pyj.2	-	2	800	c.452T>C	c.(451-453)ATA>ACA	p.I151T	FAM184A_uc003pyk.3_Missense_Mutation_p.I31T|FAM184A_uc003pyl.3_Missense_Mutation_p.I31T	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	151	Potential.									ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						CATGGTCACTATGCGTTGGAC	0.398													41	151					0	0	1	0	0		G	119345686	G	G	119345686	3	3	151	1	0	0	0	0	1	0	0	0	5522	449	16	3	3038	3	FAM184A	6	119345686	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	92973	119345686	51769381	1683	78848											
PKIB	5570	broad.mit.edu	37	chr6	123039072	123039072	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacagacggaacctcagatTtgcccctcaaactggaggct	11	7	9	14	1	2	2	2	0	0	2	2	4	2	4	4	3	3	1	4	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:123039072T>C	uc003pyz.2	+	6	594	c.133T>C	c.(133-135)TTG>CTG	p.L45L	PKIB_uc003pza.2_Silent_p.L45L|PKIB_uc003pzb.2_Silent_p.L45L|PKIB_uc003pzc.2_Silent_p.L52L|PKIB_uc011ebq.1_Silent_p.L45L	NM_181794	NP_861459	Q9C010	IPKB_HUMAN	cAMP-dependent protein kinase inhibitor beta	45							cAMP-dependent protein kinase inhibitor activity				0				GBM - Glioblastoma multiforme(226;0.164)		AACCTCAGATTTGCCCCTCAA	0.507													16	79					0	0	1	0	0		C	123039072	C	C	123039072	2	2	151	1	0	0	0	0	0	0	0	1	11993	1838	64	3		3	PKIB	6	123039072	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3693386	123039072	48075995	1684	78849											
LAMA2	3908	broad.mit.edu	37	chr6	129511376	129511376	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgaaggaggagactgtagTcgttgcaaatccggcttctt	9	12	13	7	2	1	2	0	1	1	1	3	4	2	3	1	3	1	5	1	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:129511376T>C	uc003qbn.2	+	11	1599	c.1494T>C	c.(1492-1494)AGT>AGC	p.S498S	LAMA2_uc003qbo.2_Silent_p.S498S	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	498	Laminin EGF-like 4.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GAGACTGTAGTCGTTGCAAAT	0.423													19	136					0	0	1	0	0		C	129511376	C	C	129511376	2	2	151	1	0	0	0	0	0	0	0	1	8622	1664	58	3		3	LAMA2	6	129511376	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6472304	129511376	41603691	1685	78850											
LAMA2	3908	broad.mit.edu	37	chr6	129649468	129649468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgttctcaaccaggtggcCgcacccctggaccaaccctg	7	7	10	17	2	1	0	1	0	1	0	2	1	1	1	6	3	3	2	6	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:129649468C>T	uc003qbn.2	+	29	4327	c.4222C>T	c.(4222-4224)CGC>TGC	p.R1408C	LAMA2_uc003qbo.2_Missense_Mutation_p.R1408C	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1408	Laminin EGF-like 14; second part.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		ACCAGGTGGCCGCACCCCTGG	0.502													38	139					0	0	1	0	0		T	129649468	T	T	129649468	3	4	151	1	0	0	0	0	1	0	0	0	8622	652	23	1	4336	1	LAMA2	6	129649468	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	138092	129649468	41465599	1686	78851											
LAMA2	3908	broad.mit.edu	37	chr6	129802514	129802514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	attcagcaccaagaatgagtCcggcatcattcttttgggaa	12	11	9	9	1	3	2	2	1	1	1	4	3	4	3	2	2	1	2	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:129802514C>T	uc003qbn.2	+	54	7784	c.7679C>T	c.(7678-7680)TCC>TTC	p.S2560F	LAMA2_uc003qbo.2_Missense_Mutation_p.S2556F|uc003qbq.2_RNA	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2560	Laminin G-like 3.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		AAGAATGAGTCCGGCATCATT	0.483													48	175					0	0	1	0	0		T	129802514	T	T	129802514	3	4	151	1	0	0	0	0	1	0	0	0	8622	855	30	4	7897	4	LAMA2	6	129802514	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	153046	129802514	41312553	1687	78852											
MED23	9439	broad.mit.edu	37	chr6	131911475	131911475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attttacctctatcatacaaCgagttctctcttgctgaaat	11	16	4	10	1	4	1	1	1	3	0	5	2	4	1	1	0	4	2	1	0	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:131911475C>T	uc003qcs.1	-	27	3968	c.3794G>A	c.(3793-3795)CGT>CAT	p.R1265H	MED23_uc003qcq.2_Missense_Mutation_p.R1271H|MED23_uc003qcr.1_Missense_Mutation_p.R120H	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	1265					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		TATCATACAACGAGTTCTCTC	0.299													22	91					0	0	1	0	0		T	131911475	T	T	131911475	3	4	151	1	0	0	0	0	1	0	0	0	9459	536	19	1	331	1	MED23	6	131911475	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2108961	131911475	39203592	1688	78853											
MED23	9439	broad.mit.edu	37	chr6	131944545	131944545	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtttaaatgttaaggcccaAagctgtgttctttcccactc	10	14	7	10	0	1	0	0	0	1	0	3	0	2	0	2	1	1	4	2	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:131944545A>G	uc003qcs.1	-	5	516	c.342T>C	c.(340-342)CTT>CTC	p.L114L	MED23_uc003qcq.2_Silent_p.L114L|MED23_uc003qct.1_Silent_p.L114L|MED23_uc011ecb.1_RNA	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	114					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		TTAAGGCCCAAAGCTGTGTTC	0.348													26	133					0	0	1	0	0		G	131944545	G	G	131944545	2	3	151	1	0	0	0	0	0	0	0	1	9459	1	1	3		3	MED23	6	131944545	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	33070	131944545	39170522	1689	78854											
ENPP3	5169	broad.mit.edu	37	chr6	132006573	132006573	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccagaataaacttcttctAcatgtacgaagggcctgccc	11	10	7	13	1	2	1	0	0	2	1	3	2	3	1	3	1	4	1	3	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:132006573A>G	uc003qcu.3	+	14	1537	c.1190A>G	c.(1189-1191)TAC>TGC	p.Y397C	ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Missense_Mutation_p.Y397C	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	397	Extracellular (Potential).|Phosphodiesterase.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		AACTTCTTCTACATGTACGAA	0.358													54	291					0	0	1	0	0		G	132006573	G	G	132006573	3	3	151	1	0	0	0	0	1	0	0	0	5139	391	14	3	1240	3	ENPP3	6	132006573	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	62028	132006573	39108494	1690	78855											
TAAR6	319100	broad.mit.edu	37	chr6	132892197	132892197	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcatcctcagagagttacaAagccagagtggccaggagag	14	6	12	9	0	2	3	2	0	0	3	3	5	3	3	3	2	2	1	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:132892197A>G	uc011eck.1	+	1	737	c.737A>G	c.(736-738)AAA>AGA	p.K246R		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	246	Cytoplasmic (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		GAGAGTTACAAAGCCAGAGTG	0.403													16	79					0	0	1	0	0		G	132892197	G	G	132892197	3	3	151	1	0	0	0	0	1	0	0	0	15517	14	1	3	739	3	TAAR6	6	132892197	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	885624	132892197	38222870	1691	78856											
VNN2	8875	broad.mit.edu	37	chr6	133079002	133079002	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaaactgccacagagatTggaaaagaggaagtgaccat	18	5	11	7	0	0	3	0	1	0	2	0	6	0	5	2	2	2	1	2	2	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:133079002T>G	uc003qdt.2	-	1	32	c.21A>C	c.(19-21)CCA>CCC	p.P7P	VNN2_uc003qds.2_5'Flank|VNN2_uc010kgb.2_Silent_p.P7P|VNN2_uc003qdv.2_Intron	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor	7					cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		CCACAGAGATTGGAAAAGAGG	0.388													25	78					0	0	1	0	0		G	133079002	G	G	133079002	2	3	151	1	0	0	0	0	0	0	0	1	17209	1799	63	5		5	VNN2	6	133079002	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	186805	133079002	38036065	1692	78857											
ALDH8A1	64577	broad.mit.edu	37	chr6	135239850	135239850	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actggaccaaatatctcttcCgtcatgcagcaggattcatc	11	11	7	12	1	3	0	2	0	1	0	6	2	4	2	2	2	2	2	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:135239850C>T	uc003qew.2	-	7	1220	c.1167G>A	c.(1165-1167)ACG>ACA	p.T389T	ALDH8A1_uc003qex.2_Silent_p.T335T|ALDH8A1_uc010kgh.2_Silent_p.T167T|ALDH8A1_uc011ecx.1_Silent_p.T339T	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	389					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		ATATCTCTTCCGTCATGCAGC	0.507													34	134					0	0	1	0	0		T	135239850	T	T	135239850	2	4	151	1	0	0	0	0	0	0	0	1	505	639	23	1		1	ALDH8A1	6	135239850	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2160848	135239850	35875217	1693	78858											
BCLAF1	9774	broad.mit.edu	37	chr6	136599140	136599140	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcgtgaagggatgtgAtgaattggactattctgaga	10	14	12	5	1	2	4	0	4	2	1	3	7	2	6	0	2	0	0	0	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:136599140A>G	uc003qgx.1	-	4	1132	c.879T>C	c.(877-879)CAT>CAC	p.H293H	BCLAF1_uc003qgw.1_Silent_p.H293H|BCLAF1_uc003qgy.1_Silent_p.H291H|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.H291H	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	293					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		AAGGGATGTGATGAATTGGAC	0.468													14	126					0	0	1	0	0		G	136599140	G	G	136599140	2	3	151	1	0	0	0	0	0	0	0	1	1384	330	12	3		3	BCLAF1	6	136599140	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1359290	136599140	34515927	1694	78859											
BCLAF1	9774	broad.mit.edu	37	chr6	136600996	136600996	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgtgatctagaattggaGcgacccatttcttttctcct	9	15	8	9	1	3	2	0	1	3	1	4	5	3	3	2	1	1	0	2	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:136600996G>A	uc003qgx.1	-	3	262	c.9C>T	c.(7-9)CGC>CGT	p.R3R	BCLAF1_uc003qgw.1_Silent_p.R3R|BCLAF1_uc003qgy.1_Silent_p.R3R|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.R3R	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	3					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TAGAATTGGAGCGACCCATTT	0.308													25	71					0	0	1	0	0		A	136600996	A	A	136600996	2	1	151	1	0	0	0	0	0	0	0	1	1384	958	34	2		2	BCLAF1	6	136600996	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1856	136600996	34514071	1695	78860											
MAP7	9053	broad.mit.edu	37	chr6	136682268	136682268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgcgactcctcctcacggcGagtcgtcctctcttcagcca	5	9	9	18	5	3	0	2	0	1	0	8	2	6	0	4	1	1	0	4	1	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:136682268G>A	uc003qgz.2	-	12	1822	c.1576C>T	c.(1576-1578)CGC>TGC	p.R526C	MAP7_uc011edf.1_Missense_Mutation_p.R511C|MAP7_uc011edg.1_Missense_Mutation_p.R556C|MAP7_uc010kgu.2_Missense_Mutation_p.R548C|MAP7_uc011edh.1_Missense_Mutation_p.R511C|MAP7_uc010kgv.2_Missense_Mutation_p.R548C|MAP7_uc010kgs.2_Missense_Mutation_p.R380C|MAP7_uc011edi.1_Missense_Mutation_p.R380C|MAP7_uc010kgq.1_Missense_Mutation_p.R432C|MAP7_uc003qha.1_Missense_Mutation_p.R489C	NM_003980	NP_003971	Q14244	MAP7_HUMAN	microtubule-associated protein 7	526	Potential.				establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)		TCCTCACGGCGAGTCGTCCTC	0.597													4	27					0	0	1	0	0		A	136682268	A	A	136682268	3	1	151	1	0	0	0	0	1	0	0	0	9284	1058	37	1	701	1	MAP7	6	136682268	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	81272	136682268	34432799	1696	78861											
MAP7	9053	broad.mit.edu	37	chr6	136732783	136732783	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttctcccgttcctcacgTcgctcccgggccagccgctg	2	11	10	18	5	2	0	1	0	1	0	6	0	4	0	5	1	1	4	5	1	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:136732783T>C	uc003qgz.2	-	3	465	c.219A>G	c.(217-219)CGA>CGG	p.R73R	MAP7_uc011edf.1_Silent_p.R58R|MAP7_uc011edg.1_Silent_p.R95R|MAP7_uc010kgu.2_Silent_p.R95R|MAP7_uc011edh.1_Silent_p.R95R|MAP7_uc010kgv.2_Silent_p.R95R|MAP7_uc010kgs.2_5'UTR|MAP7_uc011edi.1_5'UTR|MAP7_uc010kgq.1_Silent_p.R73R|MAP7_uc003qha.1_Silent_p.R73R|MAP7_uc010kgr.2_Intron|MAP7_uc010kgt.2_Silent_p.R95R	NM_003980	NP_003971	Q14244	MAP7_HUMAN	microtubule-associated protein 7	73					establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)		GTTCCTCACGTCGCTCCCGGG	0.502													3	4					0	0	1	0	0		C	136732783	C	C	136732783	2	2	151	1	0	0	0	0	0	0	0	1	9284	1654	58	3		3	MAP7	6	136732783	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	50515	136732783	34382284	1697	78862											
IL20RA	53832	broad.mit.edu	37	chr6	137329777	137329777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctcagaaggctgagcaCggcgagggggccctgggacg	7	5	18	11	3	1	2	1	1	1	1	2	4	1	3	1	5	1	3	1	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:137329777C>T	uc003qhj.2	-	5	1116	c.683G>A	c.(682-684)CGT>CAT	p.R228H	IL20RA_uc011edl.1_Missense_Mutation_p.R179H|IL20RA_uc003qhk.2_Missense_Mutation_p.R117H|IL20RA_uc003qhi.2_Translation_Start_Site	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	228	Extracellular (Potential).|Fibronectin type-III 2.					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)		AGGCTGAGCACGGCGAGGGGG	0.537													42	173					0	0	1	0	0		T	137329777	T	T	137329777	3	4	151	1	0	0	0	0	1	0	0	0	7684	536	19	1	990	1	IL20RA	6	137329777	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	596994	137329777	33785290	1698	78863											
KIAA1244	57221	broad.mit.edu	37	chr6	138584111	138584111	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgccgtgggagtcagggaaCgagaggagccttgacatcag	11	5	16	9	3	2	2	2	1	0	1	2	6	2	5	2	3	2	0	2	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:138584111C>T	uc003qhu.2	+	12	1491	c.1491C>T	c.(1489-1491)AAC>AAT	p.N497N		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	497					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		AGTCAGGGAACGAGAGGAGCC	0.592													6	12					0	0	1	0	0		T	138584111	T	T	138584111	2	4	151	1	0	0	0	0	0	0	0	1	8233	535	19	1		1	KIAA1244	6	138584111	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1254334	138584111	32530956	1699	78864											
REPS1	85021	broad.mit.edu	37	chr6	139262580	139262580	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatgaaaagcagcacaaaActcatccagtgtcaatgcac	17	6	7	11	0	2	2	2	1	0	1	3	2	3	2	1	0	4	3	1	0	5	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:139262580A>G	uc003qii.2	-	8	1606	c.1027T>C	c.(1027-1029)TTT>CTT	p.F343L	REPS1_uc003qig.3_Missense_Mutation_p.F343L|REPS1_uc011edr.1_Missense_Mutation_p.F343L|REPS1_uc003qij.2_Missense_Mutation_p.F343L|REPS1_uc003qik.2_5'UTR	NM_031922	NP_114128	Q96D71	REPS1_HUMAN	RALBP1 associated Eps domain containing 1	343	EF-hand.|EH 2.					coated pit|plasma membrane	calcium ion binding|SH3 domain binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(68;0.000434)|OV - Ovarian serous cystadenocarcinoma(155;0.000548)		GCAGCACAAAACTCATCCAGT	0.373													43	201					0	0	1	0	0		G	139262580	G	G	139262580	3	3	151	1	0	0	0	0	1	0	0	0	13253	43	2	3	1415	3	REPS1	6	139262580	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	678469	139262580	31852487	1700	78865											
HECA	51696	broad.mit.edu	37	chr6	139488248	139488248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgaacactttccacgtgCgcatggaagacgatgcccaa	12	7	10	12	3	0	2	0	1	0	1	1	4	1	3	2	1	4	2	2	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:139488248C>T	uc003qin.2	+	2	1384	c.1099C>T	c.(1099-1101)CGC>TGC	p.R367C		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	367					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		TTTCCACGTGCGCATGGAAGA	0.602													25	59					0	0	1	0	0		T	139488248	T	T	139488248	3	4	151	1	0	0	0	0	1	0	0	0	7054	768	27	1	1105	1	HECA	6	139488248	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	225668	139488248	31626819	1701	78866											
TXLNB	167838	broad.mit.edu	37	chr6	139563930	139563930	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgcctgatcagcctgtgcTccaacagggagaccctcgca	9	6	11	15	2	1	2	1	1	0	1	3	4	2	2	4	1	3	2	4	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:139563930T>A	uc011eds.1	-	10	1953	c.1788A>T	c.(1786-1788)GGA>GGT	p.G596G		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	596						cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		CAGCCTGTGCTCCAACAGGGA	0.612													35	134					0	0	1	0	0		A	139563930	A	A	139563930	2	1	151	1	0	0	0	0	0	0	0	1	16814	1538	54	5		5	TXLNB	6	139563930	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	75682	139563930	31551137	1702	78867											
HIVEP2	3097	broad.mit.edu	37	chr6	143091213	143091213	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagaaggcccactggactTctgccccggaagtggtgccc	7	8	12	14	1	2	1	1	0	1	1	2	3	2	3	4	4	2	0	4	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:143091213T>A	uc003qjd.2	-	5	5406	c.4663A>T	c.(4663-4665)AAG>TAG	p.K1555*		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1555	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CCACTGGACTTCTGCCCCGGA	0.522													7	153					0	0	1	0	0		A	143091213	A	A	143091213	4	1	151	1	0	0	0	0	0	1	0	0	7203	1792	62	5	2701	5	HIVEP2	6	143091213	Nonsense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3527283	143091213	28023854	1703	78868											
HIVEP2	3097	broad.mit.edu	37	chr6	143093607	143093607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggccgacatgggtcaaagcGttccgtgtgaccatgagaaa	11	7	14	9	3	1	2	1	2	0	1	2	4	2	2	3	2	1	1	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:143093607G>A	uc003qjd.2	-	5	3012	c.2269C>T	c.(2269-2271)CGC>TGC	p.R757C		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	757					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GGGTCAAAGCGTTCCGTGTGA	0.522													12	57					0	0	1	0	0		A	143093607	A	A	143093607	3	1	151	1	0	0	0	0	1	0	0	0	7203	1145	40	1	5095	1	HIVEP2	6	143093607	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2394	143093607	28021460	1704	78869											
UTRN	7402	broad.mit.edu	37	chr6	145095484	145095484	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaatcaaaatccgaagactAcaaaaagcactatgttgtga	18	8	7	8	1	1	2	1	1	0	1	2	3	2	2	1	0	2	3	1	0	8	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:145095484A>G	uc003qkt.2	+	59	8708	c.8616A>G	c.(8614-8616)CTA>CTG	p.L2872L		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	2872	Interaction with SYNM.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TCCGAAGACTACAAAAAGCAC	0.323													22	67					0	0	1	0	0		G	145095484	G	G	145095484	2	3	151	1	0	0	0	0	0	0	0	1	17129	378	14	3		3	UTRN	6	145095484	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2001877	145095484	26019583	1705	78870											
EPM2A	7957	broad.mit.edu	37	chr6	145956616	145956616	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctacccagccagatatttggTagaattctaatgagaacata	15	11	7	8	0	1	3	0	1	1	3	1	4	1	3	2	1	3	1	2	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:145956616T>C	uc003qkw.2	-	3	840	c.483A>G	c.(481-483)CTA>CTG	p.L161L	EPM2A_uc003qkv.2_Silent_p.L161L|EPM2A_uc010khr.2_Intron|EPM2A_uc003qkx.2_Silent_p.L23L|EPM2A_uc003qku.2_Silent_p.L7L	NM_005670	NP_005661	O95278	EPM2A_HUMAN	laforin isoform a	161					glycogen metabolic process	cytosol|endoplasmic reticulum|nucleus|plasma membrane|polysome	carbohydrate binding|identical protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1		Ovarian(120;0.162)		OV - Ovarian serous cystadenocarcinoma(155;3.38e-07)|GBM - Glioblastoma multiforme(68;0.0203)		AGATATTTGGTAGAATTCTAA	0.378													32	175					0	0	1	0	0		C	145956616	C	C	145956616	2	2	151	1	0	0	0	0	0	0	0	1	5191	1625	57	3		3	EPM2A	6	145956616	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	861132	145956616	25158451	1706	78871											
FBXO30	84085	broad.mit.edu	37	chr6	146127309	146127309	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggacacatttctagatgtTcagcaactttatttcgggcc	10	13	8	10	1	2	1	1	0	1	1	3	2	2	2	1	2	2	2	1	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:146127309T>C	uc003qla.2	-	2	432	c.233A>G	c.(232-234)GAA>GGA	p.E78G	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	78	TRAF-type.						ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		TTCTAGATGTTCAGCAACTTT	0.413													75	293					0	0	1	0	0		C	146127309	C	C	146127309	3	2	151	1	0	0	0	0	1	0	0	0	5754	1783	62	3	2012	3	FBXO30	6	146127309	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	170693	146127309	24987758	1707	78872											
SHPRH	257218	broad.mit.edu	37	chr6	146267451	146267451	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctccaaaataatgtgaCggaataaaataattcaccac	17	11	4	9	1	1	1	1	1	0	0	3	2	3	2	3	1	0	0	3	1	7	5	rs140562619	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:146267451C>T	uc003qlf.2	-	7	1638	c.1239G>A	c.(1237-1239)CCG>CCA	p.P413P	SHPRH_uc003qld.2_Silent_p.P413P|SHPRH_uc003qle.2_Silent_p.P413P|SHPRH_uc003qlg.1_5'UTR|SHPRH_uc003qlj.1_Silent_p.P302P	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	413					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		AATAATGTGACGGAATAAAAT	0.323													5	67					0	0	1	0	0		T	146267451	T	T	146267451	2	4	151	1	0	0	0	0	0	0	0	1	14316	523	19	1		1	SHPRH	6	146267451	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	140142	146267451	24847616	1708	78873											
SASH1	23328	broad.mit.edu	37	chr6	148865705	148865705	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagccccaccagccctagCgactgtcccccagcactggc	7	4	9	21	1	0	0	0	0	0	0	1	1	1	0	7	1	4	1	7	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:148865705C>T	uc003qme.1	+	18	3574	c.3099C>T	c.(3097-3099)AGC>AGT	p.S1033S	SASH1_uc011eeb.1_Silent_p.S794S|SASH1_uc003qmf.1_Silent_p.S443S	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	1033	Pro-rich.						protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CCAGCCCTAGCGACTGTCCCC	0.711													6	22					0	0	1	0	0		T	148865705	T	T	148865705	2	4	151	1	0	0	0	0	0	0	0	1	13873	767	27	1		1	SASH1	6	148865705	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2598254	148865705	22249362	1709	78874											
C6orf72	116254	broad.mit.edu	37	chr6	149911891	149911891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagttggataaagtggacGtcatacctgtgacagctatc	11	12	10	8	1	2	1	2	1	0	0	3	3	2	3	1	2	2	2	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:149911891G>A	uc003qmq.1	+	8	937	c.910G>A	c.(910-912)GTC>ATC	p.V304I		NM_138785	NP_620140	Q9NU53	CF072_HUMAN	hypothetical protein LOC116254 precursor	304	Cytoplasmic (Potential).					integral to membrane					0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;9.66e-12)|GBM - Glioblastoma multiforme(68;0.171)		TAAAGTGGACGTCATACCTGT	0.343													23	71					0	0	1	0	0		A	149911891	A	A	149911891	3	1	151	1	0	0	0	0	1	0	0	0	2374	1145	40	1	940	1	C6orf72	6	149911891	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1046186	149911891	21203176	1710	78875											
LATS1	9113	broad.mit.edu	37	chr6	150004383	150004383	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtttttcctaacagtaatAggtgaagttgtaatctgttt	10	19	8	4	0	1	1	0	1	1	0	2	1	2	1	1	1	1	5	1	1	5	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:150004383A>G	uc003qmu.1	-	4	2390	c.1842T>C	c.(1840-1842)CCT>CCC	p.P614P	LATS1_uc010kif.1_Silent_p.P509P|LATS1_uc003qmv.1_Silent_p.P614P|LATS1_uc003qmw.2_Silent_p.P614P|LATS1_uc010kig.1_Silent_p.P509P	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	614	Interaction with YAP1.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		TAACAGTAATAGGTGAAGTTG	0.363													42	180					0	0	1	0	0		G	150004383	G	G	150004383	2	3	151	1	0	0	0	0	0	0	0	1	8662	407	15	3		3	LATS1	6	150004383	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	92492	150004383	21110684	1711	78876											
LATS1	9113	broad.mit.edu	37	chr6	150004895	150004895	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgcccactgctcggggAtgactgggctggagcagaag	8	8	15	10	1	1	2	1	1	0	1	2	4	1	4	1	4	3	3	1	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:150004895A>G	uc003qmu.1	-	4	1878	c.1330T>C	c.(1330-1332)TCC>CCC	p.S444P	LATS1_uc010kif.1_Missense_Mutation_p.S339P|LATS1_uc003qmv.1_Missense_Mutation_p.S444P|LATS1_uc003qmw.2_Missense_Mutation_p.S444P|LATS1_uc010kig.1_Missense_Mutation_p.S339P	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	444					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		CTGCTCGGGGATGACTGGGCT	0.438													88	342					0	0	1	0	0		G	150004895	G	G	150004895	3	3	151	1	0	0	0	0	1	0	0	0	8662	333	12	3	2082	3	LATS1	6	150004895	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	512	150004895	21110172	1712	78877											
PLEKHG1	57480	broad.mit.edu	37	chr6	151130245	151130245	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccattccctttctcaggagaTacagagtttgctcactaact	10	13	6	12	0	2	2	2	0	1	2	4	3	3	2	2	1	3	2	2	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:151130245T>C	uc003qny.1	+	9	1229	c.917T>C	c.(916-918)ATA>ACA	p.I306T	PLEKHG1_uc011eel.1_Missense_Mutation_p.I346T|PLEKHG1_uc011eem.1_Missense_Mutation_p.I365T|PLEKHG1_uc003qnz.2_Missense_Mutation_p.I306T	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	306					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		TCTCAGGAGATACAGAGTTTG	0.562													11	71					0	0	1	0	0		C	151130245	C	C	151130245	3	2	151	1	0	0	0	0	1	0	0	0	12087	1406	49	3	943	3	PLEKHG1	6	151130245	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1125350	151130245	19984822	1713	78878											
AKAP12	9590	broad.mit.edu	37	chr6	151671447	151671447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctggacaaggtcaagagcGctaccttgtcttccaccgag	10	8	11	12	2	2	1	1	0	1	1	3	3	3	2	3	2	3	2	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:151671447G>A	uc011eep.1	+	4	2161	c.1921G>A	c.(1921-1923)GCT>ACT	p.A641T	AKAP12_uc003qoe.2_Missense_Mutation_p.A641T|AKAP12_uc003qof.2_Missense_Mutation_p.A543T|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.A536T	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	641					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GGTCAAGAGCGCTACCTTGTC	0.512													15	55					0	0	1	0	0		A	151671447	A	A	151671447	3	1	151	1	0	0	0	0	1	0	0	0	448	1087	38	1	1960	1	AKAP12	6	151671447	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	541202	151671447	19443620	1714	78879											
AKAP12	9590	broad.mit.edu	37	chr6	151674211	151674211	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacagccgttgaccagtttgTacgtacagaagaaacagcca	14	7	10	10	2	0	3	0	1	0	2	0	4	0	3	3	0	5	4	3	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:151674211T>C	uc011eep.1	+	4	4925	c.4685T>C	c.(4684-4686)GTA>GCA	p.V1562A	AKAP12_uc003qoe.2_Missense_Mutation_p.V1562A|AKAP12_uc003qof.2_Missense_Mutation_p.V1464A|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.V1457A	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	1562					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GACCAGTTTGTACGTACAGAA	0.458													32	144					0	0	1	0	0		C	151674211	C	C	151674211	3	2	151	1	0	0	0	0	1	0	0	0	448	1638	57	3	4724	3	AKAP12	6	151674211	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2764	151674211	19440856	1715	78880											
C6orf97	80129	broad.mit.edu	37	chr6	151917602	151917602	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagggacaacgcgcatcttAccatcaggaacttgcagaag	14	6	11	10	2	2	2	1	0	1	2	2	4	2	4	1	2	4	2	1	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:151917602A>C	uc003qol.2	+	9	1689	c.1600A>C	c.(1600-1602)ACC>CCC	p.T534P		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	534	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		CGCGCATCTTACCATCAGGAA	0.552													25	96					0	0	1	0	0		C	151917602	C	C	151917602	3	2	151	1	0	0	0	0	1	0	0	0	2377	391	14	5	1634	5	C6orf97	6	151917602	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	243391	151917602	19197465	1716	78881											
SYNE1	23345	broad.mit.edu	37	chr6	152454461	152454461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccagttccttgatatgacGactgacctccttcaagagaa	11	11	7	12	1	1	4	1	3	0	1	4	6	4	4	4	0	0	1	4	0	3	4	rs149045775		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:152454461G>A	uc010kiw.2	-	143	26553	c.25951C>T	c.(25951-25953)CGT>TGT	p.R8651C	SYNE1_uc010kiv.2_Missense_Mutation_p.R3175C|SYNE1_uc003qos.3_Missense_Mutation_p.R3175C|SYNE1_uc003qot.3_Missense_Mutation_p.R8603C|SYNE1_uc003qou.3_Missense_Mutation_p.R8651C|SYNE1_uc003qop.3_Missense_Mutation_p.R836C|SYNE1_uc011eez.1_Missense_Mutation_p.R853C|SYNE1_uc003qoq.3_Missense_Mutation_p.R853C|SYNE1_uc003qor.3_Missense_Mutation_p.R1574C	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	8651	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTGATATGACGACTGACCTCC	0.413										HNSCC(10;0.0054)			70	305					0	0	1	0	0		A	152454461	A	A	152454461	3	1	151	1	0	0	0	0	1	0	0	0	15470	1058	37	1	458	1	SYNE1	6	152454461	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	536859	152454461	18660606	1717	78882											
SYNE1	23345	broad.mit.edu	37	chr6	152539517	152539517	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctaaactcttggcaaaggTttcataatcaagaactccag	14	12	6	9	0	4	1	2	0	2	1	5	1	5	1	1	2	2	2	1	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:152539517T>C	uc010kiw.2	-	121	22668	c.22066A>G	c.(22066-22068)ACC>GCC	p.T7356A	SYNE1_uc010kiv.2_Missense_Mutation_p.T1880A|SYNE1_uc003qos.3_Missense_Mutation_p.T1880A|SYNE1_uc003qot.3_Missense_Mutation_p.T7285A|SYNE1_uc003qou.3_Missense_Mutation_p.T7356A|SYNE1_uc003qor.3_Missense_Mutation_p.T256A	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7356	Spectrin 24.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTGGCAAAGGTTTCATAATCA	0.378										HNSCC(10;0.0054)			8	423					0	0	1	0	0		C	152539517	C	C	152539517	3	2	151	1	0	0	0	0	1	0	0	0	15470	1725	60	3	4504	3	SYNE1	6	152539517	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	85056	152539517	18575550	1718	78883											
SYNE1	23345	broad.mit.edu	37	chr6	152643022	152643022	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcactttctcctgcatgCttcagaaacattacagggat	10	14	6	11	0	4	1	2	0	2	1	5	2	4	2	1	1	4	2	1	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:152643022C>T	uc010kiw.2	-	83	16520	c.15918_splice	c.e83-1	p.N5306_splice	SYNE1_uc003qot.3_Splice_Site_p.N5235_splice|SYNE1_uc003qou.3_Splice_Site_p.N5306_splice|SYNE1_uc010kiz.2_Splice_Site_p.N1061_splice	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1						cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTCCTGCATGCTTCAGAAACA	0.398										HNSCC(10;0.0054)			36	160					0	0	1	0	0		T	152643022	T	T	152643022	5	4	151	1	0	0	0	0	0	0	1	0	15470	811	28	2	10805	2	SYNE1	6	152643022	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	103505	152643022	18472045	1719	78884											
SYNE1	23345	broad.mit.edu	37	chr6	152786491	152786491	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcgatcccagttagagaTcacttcttccagcatgctcc	10	11	7	13	1	2	1	1	0	1	1	5	3	5	1	3	0	3	3	3	0	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:152786491T>C	uc010kiw.2	-	18	2436	c.1834A>G	c.(1834-1836)ATC>GTC	p.I612V	SYNE1_uc003qot.3_Missense_Mutation_p.I619V|SYNE1_uc003qou.3_Missense_Mutation_p.I612V|SYNE1_uc010kjb.1_Missense_Mutation_p.I595V|SYNE1_uc003qpa.1_Missense_Mutation_p.I612V|SYNE1_uc003qow.2_5'Flank|SYNE1_uc003qox.1_Missense_Mutation_p.I128V|SYNE1_uc003qoz.2_Missense_Mutation_p.I44V|SYNE1_uc003qoy.2_Missense_Mutation_p.I179V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	612	Cytoplasmic (Potential).|HAT 1.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CAGTTAGAGATCACTTCTTCC	0.448										HNSCC(10;0.0054)			18	122					0	0	1	0	0		C	152786491	C	C	152786491	3	2	151	1	0	0	0	0	1	0	0	0	15470	1435	50	3	25148	3	SYNE1	6	152786491	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	143469	152786491	18328576	1720	78885											
SYNE1	23345	broad.mit.edu	37	chr6	152831446	152831446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctaactatgctgtccaCggaggatgcgctgctggaca	10	8	13	10	2	0	1	0	0	0	1	1	4	1	4	1	3	5	4	1	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:152831446C>T	uc010kiw.2	-	8	1065	c.463G>A	c.(463-465)GTG>ATG	p.V155M	SYNE1_uc003qot.3_Missense_Mutation_p.V162M|SYNE1_uc003qou.3_Missense_Mutation_p.V155M|SYNE1_uc010kjb.1_Missense_Mutation_p.V155M|SYNE1_uc003qpa.1_Missense_Mutation_p.V155M	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	155	Actin-binding.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		ATGCTGTCCACGGAGGATGCG	0.473										HNSCC(10;0.0054)			35	126					0	0	1	0	0		T	152831446	T	T	152831446	3	4	151	1	0	0	0	0	1	0	0	0	15470	536	19	1	26559	1	SYNE1	6	152831446	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	44955	152831446	18283621	1721	78886											
MTRF1L	54516	broad.mit.edu	37	chr6	153315653	153315653	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcttatgccttacctcagTaggctggggtaatattgcta	8	13	12	8	0	1	0	1	0	0	0	1	0	1	0	2	4	3	5	2	4	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:153315653T>C	uc003qpi.3	-	4	787	c.682A>G	c.(682-684)ACT>GCT	p.T228A	MTRF1L_uc003qpl.3_Missense_Mutation_p.T228A|MTRF1L_uc011efa.1_Missense_Mutation_p.T192A|MTRF1L_uc003qpj.3_Missense_Mutation_p.T86A|MTRF1L_uc003qpk.3_Missense_Mutation_p.T192A	NM_019041	NP_061914	Q9UGC7	RF1ML_HUMAN	mitochondrial translational release factor	228						mitochondrion	translation release factor activity, codon specific				0		Ovarian(120;0.125)		OV - Ovarian serous cystadenocarcinoma(155;4.24e-10)|BRCA - Breast invasive adenocarcinoma(81;0.0888)		CTTACCTCAGTAGGCTGGGGT	0.473													39	126					0	0	1	0	0		C	153315653	C	C	153315653	3	2	151	1	0	0	0	0	1	0	0	0	9978	1638	57	3	476	3	MTRF1L	6	153315653	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	484207	153315653	17799414	1722	78887											
RBM16	22828	broad.mit.edu	37	chr6	155114029	155114029	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgagattattcagccccttTtggatatggcagccgggatt	8	13	12	8	1	1	1	1	1	0	1	1	4	1	3	3	3	2	1	3	3	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:155114029T>C	uc003qqa.2	+	6	626	c.394T>C	c.(394-396)TTG>CTG	p.L132L	RBM16_uc011efj.1_Silent_p.L198L|RBM16_uc011efk.1_Silent_p.L177L|RBM16_uc003qpz.2_Silent_p.L132L|RBM16_uc010kji.2_Silent_p.L153L	NM_014892	NP_055707	Q9UPN6	SCAF8_HUMAN	RNA-binding motif protein 16	132	CID.				mRNA processing|RNA splicing	nuclear matrix|spliceosomal complex	nucleotide binding|RNA binding|RNA polymerase core enzyme binding				0		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;2.33e-15)|BRCA - Breast invasive adenocarcinoma(81;0.00524)		TCAGCCCCTTTTGGATATGGC	0.393													13	59					0	0	1	0	0		C	155114029	C	C	155114029	2	2	151	1	0	0	0	0	0	0	0	1	13143	1838	64	3		3	RBM16	6	155114029	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1798376	155114029	16001038	1723	78888											
ARID1B	57492	broad.mit.edu	37	chr6	157522190	157522190	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggcggccctacacaggcgCccccttacccaggcatgaac	8	5	10	18	2	0	1	0	1	0	0	0	1	0	1	4	4	3	1	4	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:157522190C>G	uc003qqn.2	+	18	4560	c.4408C>G	c.(4408-4410)CCC>GCC	p.P1470A	ARID1B_uc003qqo.2_Missense_Mutation_p.P1430A|ARID1B_uc003qqp.2_Missense_Mutation_p.P1417A	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1475	Pro-rich.				chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TACACAGGCGCCCCCTTACCC	0.587													10	60					0	0	1	0	0		G	157522190	G	G	157522190	3	3	151	1	0	0	0	0	1	0	0	0	914	739	26	5	4532	5	ARID1B	6	157522190	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2408161	157522190	13592877	1724	78889											
ARID1B	57492	broad.mit.edu	37	chr6	157527749	157527749	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcagctcggcgggggtgAcaccaccgagcacattcaga	9	5	14	13	3	1	2	1	1	0	1	2	3	1	2	2	4	2	3	2	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:157527749A>G	uc003qqn.2	+	20	5572	c.5420A>G	c.(5419-5421)GAC>GGC	p.D1807G	ARID1B_uc003qqo.2_Missense_Mutation_p.D1767G|ARID1B_uc003qqp.2_Missense_Mutation_p.D1754G	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1812					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		GGCGGGGGTGACACCACCGAG	0.542													34	175					0	0	1	0	0		G	157527749	G	G	157527749	3	3	151	1	0	0	0	0	1	0	0	0	914	275	10	3	5552	3	ARID1B	6	157527749	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5559	157527749	13587318	1725	78890											
C6orf35	729515	broad.mit.edu	37	chr6	157739925	157739925	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagggaagacccgctttcCggtaatgcagccgtggccat	9	7	13	12	3	0	1	0	0	0	1	1	2	1	2	4	3	2	4	4	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:157739925C>T	uc003sih.3	-	3	479	c.216G>A	c.(214-216)CCG>CCA	p.P72P		NM_018452	NP_060922	Q9NWH2	CF035_HUMAN	hypothetical protein LOC729515	72						integral to membrane					0						ACCCGCTTTCCGGTAATGCAG	0.498													25	99					0	0	1	0	0		T	157739925	T	T	157739925	2	4	151	1	0	0	0	0	0	0	0	1	2366	639	23	1		1	C6orf35	6	157739925	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	212176	157739925	13375142	1726	78891											
SYNJ2	8871	broad.mit.edu	37	chr6	158483115	158483115	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgggaagctagagaaatTggagaccctcttgaggccac	12	7	14	8	0	1	3	0	1	1	2	1	6	1	4	2	4	1	1	2	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:158483115T>C	uc003qqx.1	+	8	1121	c.1046T>C	c.(1045-1047)TTG>TCG	p.L349S	SYNJ2_uc011efm.1_RNA|SYNJ2_uc003qqw.1_Missense_Mutation_p.L349S|SYNJ2_uc003qqy.1_Missense_Mutation_p.L62S|SYNJ2_uc011efn.1_Missense_Mutation_p.L277S|SYNJ2_uc010kjo.1_Missense_Mutation_p.L298S|SYNJ2_uc003qqz.1_5'UTR	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	349	SAC.						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		CTAGAGAAATTGGAGACCCTC	0.522													68	281					0	0	1	0	0		C	158483115	C	C	158483115	3	2	151	1	0	0	0	0	1	0	0	0	15478	1821	63	3	1076	3	SYNJ2	6	158483115	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	743190	158483115	12631952	1727	78892											
FNDC1	84624	broad.mit.edu	37	chr6	159642717	159642717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagggctgccctaacaaagcGaaagatttcaggtatgtttc	12	10	10	9	1	1	1	1	0	0	1	2	2	1	1	1	2	3	3	1	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:159642717G>A	uc010kjv.2	+	6	955	c.755G>A	c.(754-756)CGA>CAA	p.R252Q	FNDC1_uc010kjw.1_Missense_Mutation_p.R200Q	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	252						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		CTAACAAAGCGAAAGATTTCA	0.483													8	55					0	0	1	0	0		A	159642717	A	A	159642717	3	1	151	1	0	0	0	0	1	0	0	0	5982	1058	37	1	777	1	FNDC1	6	159642717	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1159602	159642717	11472350	1728	78893											
ACAT2	39	broad.mit.edu	37	chr6	160197274	160197274	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttactttcttactgatggaAcgggaacagtcaccccagcc	10	10	8	13	1	2	1	1	1	1	0	2	3	2	3	3	2	5	0	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:160197274A>G	uc010kjy.2	+	6	858	c.727A>G	c.(727-729)ACG>GCG	p.T243A	ACAT2_uc011efw.1_Missense_Mutation_p.T272A	NM_005891	NP_005882	Q9BWD1	THIC_HUMAN	acetyl-Coenzyme A acetyltransferase 2	243						mitochondrion|nucleolus	acetyl-CoA C-acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.51e-18)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		TACTGATGGAACGGGAACAGT	0.418													12	43					0	0	1	0	0		G	160197274	G	G	160197274	3	3	151	1	0	0	0	0	1	0	0	0	122	43	2	3	749	3	ACAT2	6	160197274	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	554557	160197274	10917793	1729	78894											
IGF2R	3482	broad.mit.edu	37	chr6	160466820	160466820	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagaacttctggggaaggCggttgcttttatgagtttga	8	15	14	4	1	1	3	0	3	1	1	1	5	1	4	0	4	2	3	0	4	3	6	rs139665293		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:160466820C>T	uc003qta.2	+	14	1957	c.1809C>T	c.(1807-1809)GGC>GGT	p.G603G		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	603	4.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		CTGGGGAAGGCGGTTGCTTTT	0.493													68	266					0	0	1	0	0		T	160466820	T	T	160466820	2	4	151	1	0	0	0	0	0	0	0	1	7592	755	27	1		1	IGF2R	6	160466820	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	269546	160466820	10648247	1730	78895											
IGF2R	3482	broad.mit.edu	37	chr6	160494304	160494304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaagaggctgagatacGtggaccaggtcctgcagctg	11	6	13	11	1	0	2	0	1	0	2	1	4	1	3	3	3	4	3	3	3	3	1	rs140858283		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:160494304G>A	uc003qta.2	+	34	4898	c.4750G>A	c.(4750-4752)GTG>ATG	p.V1584M		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1584	11.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GCTGAGATACGTGGACCAGGT	0.557													8	61					0	0	1	0	0		A	160494304	A	A	160494304	3	1	151	1	0	0	0	0	1	0	0	0	7592	1145	40	1	4884	1	IGF2R	6	160494304	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	27484	160494304	10620763	1731	78896											
SLC22A1	6580	broad.mit.edu	37	chr6	160560826	160560826	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcaccattgaccgcgtgggCcgcatctaccccatggccat	8	8	9	16	3	2	1	1	1	1	0	2	1	2	1	6	2	1	1	6	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:160560826C>T	uc003qtc.2	+	7	1308	c.1203C>T	c.(1201-1203)GGC>GGT	p.G401G	SLC22A1_uc003qtd.2_Silent_p.G401G	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	401	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		ACCGCGTGGGCCGCATCTACC	0.552													21	60					0	0	1	0	0		T	160560826	T	T	160560826	2	4	151	1	0	0	0	0	0	0	0	1	14465	726	26	2		2	SLC22A1	6	160560826	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	66522	160560826	10554241	1732	78897											
SLC22A3	6581	broad.mit.edu	37	chr6	160819102	160819102	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggagcattcaccttaggctAtgcagcagacaggtaggtac	11	9	12	9	0	1	1	1	0	0	1	1	2	1	2	1	4	4	6	1	4	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:160819102A>G	uc003qti.2	+	2	548	c.521A>G	c.(520-522)TAT>TGT	p.Y174C	SLC22A3_uc011efx.1_RNA	NM_021977	NP_068812	O75751	S22A3_HUMAN	solute carrier family 22 member 3	174						integral to plasma membrane|membrane fraction	protein binding|quaternary ammonium group transmembrane transporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(66;0.00028)|Ovarian(120;0.0308)|Prostate(117;0.218)		OV - Ovarian serous cystadenocarcinoma(65;9.47e-17)|BRCA - Breast invasive adenocarcinoma(81;9.75e-06)		ACCTTAGGCTATGCAGCAGAC	0.433													39	172					0	0	1	0	0		G	160819102	G	G	160819102	3	3	151	1	0	0	0	0	1	0	0	0	14480	449	16	3	527	3	SLC22A3	6	160819102	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	258276	160819102	10295965	1733	78898											
SLC22A3	6581	broad.mit.edu	37	chr6	160858109	160858109	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctatatagactttttcaTctcgggcgtggtggaactgc	7	14	10	10	2	3	1	1	0	2	1	4	2	3	2	1	3	2	0	1	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:160858109T>G	uc003qti.2	+	7	1181	c.1154T>G	c.(1153-1155)ATC>AGC	p.I385S	SLC22A3_uc011efx.1_RNA	NM_021977	NP_068812	O75751	S22A3_HUMAN	solute carrier family 22 member 3	385	Helical; (Potential).					integral to plasma membrane|membrane fraction	protein binding|quaternary ammonium group transmembrane transporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(66;0.00028)|Ovarian(120;0.0308)|Prostate(117;0.218)		OV - Ovarian serous cystadenocarcinoma(65;9.47e-17)|BRCA - Breast invasive adenocarcinoma(81;9.75e-06)		GACTTTTTCATCTCGGGCGTG	0.512													47	199					0	0	1	0	0		G	160858109	G	G	160858109	3	3	151	1	0	0	0	0	1	0	0	0	14480	1435	50	5	1180	5	SLC22A3	6	160858109	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	39007	160858109	10256958	1734	78899											
LPA	4018	broad.mit.edu	37	chr6	161007564	161007564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccatcactggacattgcGtcaggttgcagtactcccat	9	12	8	12	1	2	0	2	0	0	0	4	1	4	1	2	2	3	3	2	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:161007564G>A	uc003qtl.2	-	26	4166	c.4046C>T	c.(4045-4047)ACG>ATG	p.T1349M		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3857	Kringle 34.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	TGGACATTGCGTCAGGTTGCA	0.522													38	128					0	0	1	0	0		A	161007564	A	A	161007564	3	1	151	1	0	0	0	0	1	0	0	0	8921	1145	40	1	2136	1	LPA	6	161007564	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	149455	161007564	10107503	1735	78900											
PLG	5340	broad.mit.edu	37	chr6	161162399	161162399	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccatccccaaattatgTggtcgctgaccggaccgaat	9	10	9	13	3	1	1	0	1	1	0	3	3	2	2	5	2	1	1	5	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:161162399T>C	uc003qtm.3	+	17	2138	c.2075T>C	c.(2074-2076)GTG>GCG	p.V692A		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	692	Peptidase S1.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	CCAAATTATGTGGTCGCTGAC	0.478													23	83					0	0	1	0	0		C	161162399	C	C	161162399	3	2	151	1	0	0	0	0	1	0	0	0	12105	1696	59	3	2145	3	PLG	6	161162399	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	154835	161162399	9952668	1736	78901											
MAP3K4	4216	broad.mit.edu	37	chr6	161523764	161523764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagaggagattcaagtgggtCcacaagaagaagttgggaac	16	6	14	5	0	1	4	1	0	0	4	2	6	2	5	1	3	1	1	1	3	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:161523764C>T	uc003qtn.2	+	19	3951	c.3809C>T	c.(3808-3810)TCC>TTC	p.S1270F	MAP3K4_uc010kkc.1_Missense_Mutation_p.S1266F|MAP3K4_uc003qto.2_Missense_Mutation_p.S1220F|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.S723F|MAP3K4_uc003qtp.2_Missense_Mutation_p.S206F|MAP3K4_uc003qtq.2_5'UTR	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	1270					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		TCAAGTGGGTCCACAAGAAGA	0.323													7	29					0	0	1	0	0		T	161523764	T	T	161523764	3	4	151	1	0	0	0	0	1	0	0	0	9270	855	30	4	3883	4	MAP3K4	6	161523764	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	361365	161523764	9591303	1737	78902											
AGPAT4	56895	broad.mit.edu	37	chr6	161653160	161653160	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtgaagagctgaatggtgTtgatgattagccctgaggca	11	10	15	5	0	0	6	0	5	0	1	0	7	0	6	1	2	2	3	1	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:161653160T>C	uc003qtr.1	-	2	313	c.86A>G	c.(85-87)AAC>AGC	p.N29S	AGPAT4_uc003qts.1_5'UTR|AGPAT4_uc011egb.1_Missense_Mutation_p.N29S|AGPAT4_uc003qtt.1_RNA|AGPAT4_uc011egc.1_Missense_Mutation_p.N29S|AGPAT4_uc011egd.1_Intron|AGPAT4_uc011ege.1_Missense_Mutation_p.N29S	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	29	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		CTGAATGGTGTTGATGATTAG	0.517													12	55					0	0	1	0	0		C	161653160	C	C	161653160	3	2	151	1	0	0	0	0	1	0	0	0	389	1725	60	3	1082	3	AGPAT4	6	161653160	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	129396	161653160	9461907	1738	78903											
PACRG	135138	broad.mit.edu	37	chr6	163149299	163149299	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagagaccctgagcttaaAcaaatgcccagacaagatgc	18	5	8	10	0	0	4	0	1	0	3	0	5	0	4	2	0	4	1	2	0	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:163149299A>G	uc003qua.2	+	2	256	c.32A>G	c.(31-33)AAC>AGC	p.N11S	PARK2_uc003qtx.3_5'Flank|PARK2_uc003qty.3_5'Flank|PARK2_uc003qtz.3_5'Flank|PARK2_uc010kke.1_5'Flank|PACRG_uc003qub.2_Missense_Mutation_p.N11S|PACRG_uc003quc.2_Missense_Mutation_p.N11S	NM_152410	NP_689623	Q96M98	PACRG_HUMAN	parkin co-regulated gene protein isoform 1	11											0		Breast(66;2.41e-05)|Ovarian(120;0.0245)|Prostate(117;0.0273)|all_neural(5;0.0416)|Glioma(2;0.203)		OV - Ovarian serous cystadenocarcinoma(33;4.31e-19)|GBM - Glioblastoma multiforme(2;7.42e-11)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)|KIRC - Kidney renal clear cell carcinoma(3;0.205)|Kidney(3;0.242)		CTGAGCTTAAACAAATGCCCA	0.488													10	238					0	0	1	0	0		G	163149299	G	G	163149299	3	3	151	1	0	0	0	0	1	0	0	0	11389	43	2	3	34	3	PACRG	6	163149299	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1496139	163149299	7965768	1739	78904											
SMOC2	64094	broad.mit.edu	37	chr6	168947819	168947819	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgatgccgcagctccagcgTtggagactcagcctcaagga	10	7	12	12	2	2	2	2	1	0	1	3	4	3	3	3	2	4	3	3	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:168947819T>C	uc003qws.1	+	6	552	c.532T>C	c.(532-534)TTG>CTG	p.L178L	SMOC2_uc003qwr.1_Silent_p.L189L	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	178					signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		AGCTCCAGCGTTGGAGACTCA	0.522													27	143					0	0	1	0	0		C	168947819	C	C	168947819	2	2	151	1	0	0	0	0	0	0	0	1	14827	1722	60	3		3	SMOC2	6	168947819	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5798520	168947819	2167248	1740	78905											
SMOC2	64094	broad.mit.edu	37	chr6	169064767	169064767	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctagcccccagaggtcaTgctgaaagtacgtctaatag	11	9	10	11	1	2	2	1	1	1	1	2	2	2	2	2	1	4	3	2	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:169064767T>C	uc003qws.1	+	12	1319	c.1299T>C	c.(1297-1299)CAT>CAC	p.H433H	SMOC2_uc003qwr.1_Silent_p.H444H|SMOC2_uc011egu.1_Silent_p.H110H	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	433					signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		CCAGAGGTCATGCTGAAAGTA	0.299													14	75					0	0	1	0	0		C	169064767	C	C	169064767	2	2	151	1	0	0	0	0	0	0	0	1	14827	1461	51	3		3	SMOC2	6	169064767	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	116948	169064767	2050300	1741	78906											
THBS2	7058	broad.mit.edu	37	chr6	169621532	169621532	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacctgccctcacctgatgtAgccagtcttgggcctgtgag	6	10	12	13	0	2	2	1	2	1	0	2	3	2	2	5	1	2	1	5	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:169621532A>G	uc003qwt.2	-	21	3612	c.3364T>C	c.(3364-3366)TAC>CAC	p.Y1122H		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	1122	TSP C-terminal.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CACCTGATGTAGCCAGTCTTG	0.522													17	109					0	0	1	0	0		G	169621532	G	G	169621532	3	3	151	1	0	0	0	0	1	0	0	0	15879	420	15	3	166	3	THBS2	6	169621532	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	556765	169621532	1493535	1742	78907											
THBS2	7058	broad.mit.edu	37	chr6	169625316	169625316	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacgccatcgttgtcatcAtcagggtcacaggcgtcgcc	7	8	13	13	4	4	0	4	0	0	0	6	1	4	1	2	3	0	1	2	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:169625316A>G	uc003qwt.2	-	18	2945	c.2697T>C	c.(2695-2697)GAT>GAC	p.D899D		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	899	TSP type-3 7.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		cgttgtcatcatcagggtcac	0.194													8	41					0	0	1	0	0		G	169625316	G	G	169625316	2	3	151	1	0	0	0	0	0	0	0	1	15879	214	8	3		3	THBS2	6	169625316	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3784	169625316	1489751	1743	78908											
THBS2	7058	broad.mit.edu	37	chr6	169625355	169625355	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctggccgtctctgtcatgGtcagcctggttggcgttgga	3	12	14	12	2	3	0	2	0	1	0	4	1	3	1	3	5	1	2	3	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:169625355G>A	uc003qwt.2	-	18	2906	c.2658C>T	c.(2656-2658)GAC>GAT	p.D886D		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	886	TSP type-3 7.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		ctctgtcatggtcagcctggt	0.119													7	19					0	0	1	0	0		A	169625355	A	A	169625355	2	1	151	1	0	0	0	0	0	0	0	1	15879	1252	44	4		4	THBS2	6	169625355	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	39	169625355	1489712	1744	78909											
THBS2	7058	broad.mit.edu	37	chr6	169648841	169648841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgtgcccctggacttgcCgtcctgcttgagctgggccg	3	9	14	15	3	0	1	0	1	0	0	1	2	1	2	5	2	5	2	5	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:169648841C>T	uc003qwt.2	-	4	528	c.280G>A	c.(280-282)GGC>AGC	p.G94S		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	94	TSP N-terminal.|Heparin-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CTGGACTTGCCGTCCTGCTTG	0.622													13	54					0	0	1	0	0		T	169648841	T	T	169648841	3	4	151	1	0	0	0	0	1	0	0	0	15879	652	23	1	3318	1	THBS2	6	169648841	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	23486	169648841	1466226	1745	78910											
DLL1	28514	broad.mit.edu	37	chr6	170597560	170597560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcctctgggtggccaggCggctgatgagtctttctggg	3	11	18	9	1	3	2	0	2	3	0	3	2	3	2	2	6	1	1	2	6	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:170597560C>T	uc003qxm.2	-	4	907	c.437G>A	c.(436-438)CGC>CAC	p.R146H	DLL1_uc011ehc.1_Missense_Mutation_p.R146H|DLL1_uc003qxn.3_3'UTR	NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	146	Extracellular (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		GGTGGCCAGGCGGCTGATGAG	0.627													5	25					0	0	1	0	0		T	170597560	T	T	170597560	3	4	151	1	0	0	0	0	1	0	0	0	4572	768	27	1	1766	1	DLL1	6	170597560	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	948719	170597560	517507	1746	78911											
FAM120B	84498	broad.mit.edu	37	chr6	170632185	170632185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttgctagaacacatcacGtccaagcagaaagctacctg	14	7	9	11	1	1	2	1	0	0	2	2	2	2	2	2	1	5	4	2	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr6:170632185G>A	uc003qxp.2	+	3	1861	c.1753G>A	c.(1753-1755)GTC>ATC	p.V585I	FAM120B_uc003qxo.1_Missense_Mutation_p.V585I|FAM120B_uc011ehd.1_Intron	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	585					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		AACACATCACGTCCAAGCAGA	0.408													20	62					0	0	1	0	0		A	170632185	A	A	170632185	3	1	151	1	0	0	0	0	1	0	0	0	5428	1145	40	1	1759	1	FAM120B	6	170632185	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	34625	170632185	482882	1747	78912											
FAM20C	56975	broad.mit.edu	37	chr7	195593	195593	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcagaattcctctccccCggggaggcggccgtggactc	5	7	15	14	3	1	1	0	0	1	1	4	3	2	3	4	6	1	1	4	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:195593C>T	uc003sip.2	+	2	876	c.645C>T	c.(643-645)CCC>CCT	p.P215P		NM_020223	NP_064608	Q8IXL6	DMP4_HUMAN	family with sequence similarity 20, member C	215						extracellular region					0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.57e-17)|Epithelial(4;1.26e-16)|all cancers(6;4.79e-14)		TCCTCTCCCCCGGGGAGGCGG	0.612													6	38					0	0	1	0	0		T	195593	T	T	195593	2	4	151	1	0	0	0	0	0	0	0	1	5550	639	23	1		1	FAM20C	7	195593	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08		195593	158943070	1748	78913											
GET4	51608	broad.mit.edu	37	chr7	930607	930607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtatcattttctgcactcagCggacggggagggctgtgcca	7	10	14	10	2	3	0	2	0	1	0	3	2	3	2	1	4	3	3	1	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:930607C>T	uc003sjl.1	+	5	601	c.509C>T	c.(508-510)GCG>GTG	p.A170V	GET4_uc003sjj.1_RNA	NM_015949	NP_057033	Q7L5D6	GET4_HUMAN	hypothetical protein LOC51608	170					tail-anchored membrane protein insertion into ER membrane|transport	BAT3 complex	protein binding				0						CTGCACTCAGCGGACGGGGAG	0.498													34	109					0	0	1	0	0		T	930607	T	T	930607	3	4	151	1	0	0	0	0	1	0	0	0	6351	768	27	1	527	1	GET4	7	930607	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	735014	930607	158208056	1749	78914											
GPER	2852	broad.mit.edu	37	chr7	1131459	1131459	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccacctcccccgagctcaAcctgtcccacccgctcctgg	6	6	6	23	2	1	0	1	0	0	0	4	1	4	0	8	1	2	2	8	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:1131459A>G	uc010ksd.1	+	2	484	c.95A>G	c.(94-96)AAC>AGC	p.N32S	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPER_uc003sjz.1_Missense_Mutation_p.N32S|GPER_uc003ska.1_Missense_Mutation_p.N32S|GPER_uc003skb.2_Missense_Mutation_p.N32S	NM_001098201	NP_001091671	Q99527	GPER_HUMAN	G protein-coupled receptor 30	32	Extracellular (Potential).			Missing (in Ref. 7; AAB02736).		endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;2.32e-16)		CCCGAGCTCAACCTGTCCCAC	0.667													3	24					0	0	1	0	0		G	1131459	G	G	1131459	3	3	151	1	0	0	0	0	1	0	0	0	6622	43	2	3	97	3	GPER	7	1131459	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	200852	1131459	158007204	1750	78915											
INTS1	26173	broad.mit.edu	37	chr7	1527082	1527082	+	Frame_Shift_Del	DEL	C	-	-																															gggggaggcctccgggggggCcccctgagggccacagggga																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:1527082delC	uc003skn.2	-	20	2621	c.2520delG	c.(2518-2520)GGGfs	p.G840fs	INTS1_uc003skp.1_Frame_Shift_Del_p.G187fs	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	840					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		TCCGGGGGGGCCCCCTGAGGG	0.677													9	14	---	---	---	---						.	-	1527082	-	-	1527082	7	5	151	1	0	1	0	1	0	0	0	0	7791	726	26	0	4168	0	INTS1	7	1527082	Frame_Shift_Del	DEL	C	TCGA-CG-5721-01A-11D-1600-08	395623	1527082	157611581	1751	78916											
CHST12	55501	broad.mit.edu	37	chr7	2472497	2472497	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttctggacaagtttctcAgtgctggcgtgaagcagagc	9	11	13	8	1	2	2	1	1	2	1	3	3	2	3	0	2	3	4	0	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:2472497A>G	uc003smc.2	+	2	358	c.223A>G	c.(223-225)AGT>GGT	p.S75G	CHST12_uc003smd.2_Missense_Mutation_p.S75G	NM_018641	NP_061111	Q9NRB3	CHSTC_HUMAN	carbohydrate sulfotransferase 12	75	Lumenal (Potential).				dermatan sulfate biosynthetic process	integral to Golgi membrane	3'-phosphoadenosine 5'-phosphosulfate binding|chondroitin 4-sulfotransferase activity|protein binding			kidney(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0847)|OV - Ovarian serous cystadenocarcinoma(56;2.25e-13)		CAAGTTTCTCAGTGCTGGCGT	0.677													12	43					0	0	1	0	0		G	2472497	G	G	2472497	3	3	151	1	0	0	0	0	1	0	0	0	3403	188	7	3	225	3	CHST12	7	2472497	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	945415	2472497	156666166	1752	78917											
TTYH3	80727	broad.mit.edu	37	chr7	2698073	2698073	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggcccacaccgtcagcaaCgccccggtcactgagtacat	9	5	10	17	4	2	1	2	1	0	0	2	1	2	1	4	2	3	2	4	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:2698073C>T	uc003smp.2	+	12	1591	c.1404C>T	c.(1402-1404)AAC>AAT	p.N468N	TTYH3_uc010ksn.2_Silent_p.N188N|TTYH3_uc003smq.2_Silent_p.N297N	NM_025250	NP_079526	Q9C0H2	TTYH3_HUMAN	tweety 3	468	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.04e-14)		CCGTCAGCAACGCCCCGGTCA	0.667													3	13					0	0	1	0	0		T	2698073	T	T	2698073	2	4	151	1	0	0	0	0	0	0	0	1	16767	535	19	1		1	TTYH3	7	2698073	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	225576	2698073	156440590	1753	78918											
CARD11	84433	broad.mit.edu	37	chr7	2953031	2953031	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgggccggcggcgctcgcagTagaaggcgcgtaccaggctg	6	4	18	13	7	0	1	0	0	0	1	1	1	0	1	2	5	1	5	2	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:2953031T>C	uc003smv.2	-	22	3313	c.2909A>G	c.(2908-2910)TAC>TGC	p.Y970C		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	970					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GCGCTCGCAGTAGAAGGCGCG	0.657			Mis		DLBCL								14	50					0	0	1	0	0		C	2953031	C	C	2953031	3	2	151	1	0	0	0	0	1	0	0	0	2648	1638	57	3	571	3	CARD11	7	2953031	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	254958	2953031	156185632	1754	78919											
CARD11	84433	broad.mit.edu	37	chr7	2979388	2979388	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaggccctcacctggaTgatggactgcagctcctggt	6	8	11	16	0	1	1	1	1	0	0	2	3	2	3	5	4	2	2	5	4	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:2979388T>C	uc003smv.2	-	6	1263	c.859A>G	c.(859-861)ATC>GTC	p.I287V		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	287	Potential.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		CTCACCTGGATGATGGACTGC	0.592			Mis		DLBCL								33	97					0	0	1	0	0		C	2979388	C	C	2979388	3	2	151	1	0	0	0	0	1	0	0	0	2648	1464	51	3	2685	3	CARD11	7	2979388	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	26357	2979388	156159275	1755	78920											
CARD11	84433	broad.mit.edu	37	chr7	2987388	2987388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcctcttcatccttcagcGtctccatgtagtcatccatc	6	14	5	16	2	5	0	3	0	2	0	10	0	8	0	4	0	1	1	4	0	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:2987388G>A	uc003smv.2	-	3	445	c.41C>T	c.(40-42)ACG>ATG	p.T14M		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	14					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		ATCCTTCAGCGTCTCCATGTA	0.458			Mis		DLBCL								54	227					0	0	1	0	0		A	2987388	A	A	2987388	3	1	151	1	0	0	0	0	1	0	0	0	2648	1145	40	1	3515	1	CARD11	7	2987388	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	8000	2987388	156151275	1756	78921											
SDK1	221935	broad.mit.edu	37	chr7	4007008	4007008	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagttactgacgggatgacAgccattctaaggtgtgaggt	11	10	13	7	1	1	3	0	3	1	0	1	4	1	4	1	3	2	1	1	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:4007008A>T	uc003smx.2	+	10	1627	c.1488A>T	c.(1486-1488)ACA>ACT	p.T496T		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	496	Ig-like C2-type 5.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		ACGGGATGACAGCCATTCTAA	0.547													12	63					0	0	1	0	0		T	4007008	T	T	4007008	2	4	151	1	0	0	0	0	0	0	0	1	13993	175	7	5		5	SDK1	7	4007008	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1019620	4007008	155131655	1757	78922											
SDK1	221935	broad.mit.edu	37	chr7	4198165	4198165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcagttcagagacagaggcgGtgaccacgctgcaggatggt	10	7	15	9	2	2	3	2	1	0	2	2	5	2	4	1	4	1	3	1	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:4198165G>A	uc003smx.2	+	31	4850	c.4711G>A	c.(4711-4713)GTG>ATG	p.V1571M	SDK1_uc010kso.2_Missense_Mutation_p.V847M|SDK1_uc003smy.2_Missense_Mutation_p.V58M	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1571	Fibronectin type-III 9.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GACAGAGGCGGTGACCACGCT	0.602													7	31					0	0	1	0	0		A	4198165	A	A	4198165	3	1	151	1	0	0	0	0	1	0	0	0	13993	1261	44	4	4833	4	SDK1	7	4198165	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	191157	4198165	154940498	1758	78923											
SDK1	221935	broad.mit.edu	37	chr7	4304866	4304866	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagggcccagggccgcgcAcctgcgccgcacaggtacga	7	2	15	17	6	0	0	0	0	0	0	0	1	0	0	4	3	2	4	4	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:4304866A>G	uc003smx.2	+	45	6631	c.6492A>G	c.(6490-6492)GCA>GCG	p.A2164A	SDK1_uc010kso.2_Silent_p.A1420A|SDK1_uc003smy.2_Silent_p.A651A|SDK1_uc003smz.2_Silent_p.A224A	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	2164	Extracellular (Potential).|Cytoplasmic (Potential).				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		AGGGCCGCGCACCTGCGCCGC	0.697													3	8					0	0	1	0	0		G	4304866	G	G	4304866	2	3	151	1	0	0	0	0	0	0	0	1	13993	146	6	3		3	SDK1	7	4304866	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	106701	4304866	154833797	1759	78924											
KIAA0415	9907	broad.mit.edu	37	chr7	4830774	4830774	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgctgtcaaagatgaggAccctggctcacagtccagcc	10	9	10	12	0	2	2	2	1	0	1	3	3	3	3	3	2	2	2	3	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:4830774A>G	uc003sne.2	+	17	2265	c.2182A>G	c.(2182-2184)ACC>GCC	p.T728A	KIAA0415_uc010ksp.2_RNA|KIAA0415_uc003snf.2_Missense_Mutation_p.T205A	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	728					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		AAAGATGAGGACCCTGGCTCA	0.637													3	9					0	0	1	0	0		G	4830774	G	G	4830774	3	3	151	1	0	0	0	0	1	0	0	0	8191	275	10	3	2248	3	KIAA0415	7	4830774	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	525908	4830774	154307889	1760	78925											
RADIL	55698	broad.mit.edu	37	chr7	4856879	4856879	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccgtgcaccttggagacAtagtagacgcactgctggaa	10	8	12	11	3	0	2	0	0	0	2	1	4	1	3	2	2	2	4	2	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:4856879A>G	uc003snj.1	-	7	1892	c.1719T>C	c.(1717-1719)TAT>TAC	p.Y573Y	RADIL_uc003sng.1_RNA|RADIL_uc003sni.1_Silent_p.Y78Y|RADIL_uc011jwc.1_Silent_p.Y333Y|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	573	Dilute.				cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		CCTTGGAGACATAGTAGACGC	0.617													10	55					0	0	1	0	0		G	4856879	G	G	4856879	2	3	151	1	0	0	0	0	0	0	0	1	13022	224	8	3		3	RADIL	7	4856879	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	26105	4856879	154281784	1761	78926											
RBAK	57786	broad.mit.edu	37	chr7	5104755	5104755	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagttgtcatactatactgaAcattatagaagtcattcaga	15	13	7	6	0	3	3	3	1	0	2	3	4	3	3	0	0	3	1	0	0	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:5104755A>G	uc010kss.1	+	6	1992	c.1668A>G	c.(1666-1668)GAA>GAG	p.E556E	LOC389458_uc003snr.2_Intron|RBAK_uc003sns.1_Silent_p.E556E	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	556	Interaction with AR.|C2H2-type 11.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		ACTATACTGAACATTATAGAA	0.388													25	85					0	0	1	0	0		G	5104755	G	G	5104755	2	3	151	1	0	0	0	0	0	0	0	1	13125	40	2	3		3	RBAK	7	5104755	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	247876	5104755	154033908	1762	78927											
WIPI2	26100	broad.mit.edu	37	chr7	5269339	5269339	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgcagctgcaggaaaaggtActtacgtgccttcatcccca	10	8	10	13	2	1	0	1	0	0	0	2	1	2	1	3	2	5	4	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:5269339A>G	uc003snv.2	+	12	1438	c.1222A>G	c.(1222-1224)ACT>GCT	p.T408A	WIPI2_uc003snw.2_Intron|WIPI2_uc003snx.2_Missense_Mutation_p.T390A|WIPI2_uc003sny.2_Intron|WIPI2_uc010ksv.2_Missense_Mutation_p.T264A|WIPI2_uc003soa.2_Intron|WIPI2_uc003sob.2_Missense_Mutation_p.T151A	NM_015610	NP_056425	Q9Y4P8	WIPI2_HUMAN	WD repeat domain, phosphoinositide interacting 2	408					autophagic vacuole assembly	cytosol|PAS complex|pre-autophagosomal structure membrane	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding			ovary(2)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0925)|OV - Ovarian serous cystadenocarcinoma(56;2.59e-14)		AGGAAAAGGTACTTACGTGCC	0.567													8	37					0	0	1	0	0		G	5269339	G	G	5269339	3	3	151	1	0	0	0	0	1	0	0	0	17397	391	14	3	1302	3	WIPI2	7	5269339	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	164584	5269339	153869324	1763	78928											
SLC29A4	222962	broad.mit.edu	37	chr7	5338952	5338952	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgacctacttcatcacgcTgtgcctgttccccggcctcg	4	11	9	17	4	2	1	2	1	0	0	4	1	3	1	5	1	2	2	5	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:5338952T>C	uc003sod.2	+	9	1264	c.1103T>C	c.(1102-1104)CTG>CCG	p.L368P	SLC29A4_uc003soc.2_Missense_Mutation_p.L368P|SLC29A4_uc003soe.2_Missense_Mutation_p.L354P|SLC29A4_uc010ksw.2_RNA	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	368	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		TTCATCACGCTGTGCCTGTTC	0.637													4	35					0	0	1	0	0		C	5338952	C	C	5338952	3	2	151	1	0	0	0	0	1	0	0	0	14562	1580	55	3	1133	3	SLC29A4	7	5338952	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	69613	5338952	153799711	1764	78929											
TNRC18	84629	broad.mit.edu	37	chr7	5401582	5401582	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgctgcttctccttgtacTggcgctgcacctcggccagc	4	10	10	17	3	1	0	0	0	1	0	3	0	1	0	3	2	4	5	3	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:5401582T>C	uc003soi.3	-	13	4827	c.4478A>G	c.(4477-4479)CAG>CGG	p.Q1493R		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1493	Potential.						DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CTCCTTGTACTGGCGCTGCAC	0.522													2	6					0	0	1	0	0		C	5401582	C	C	5401582	3	2	151	1	0	0	0	0	1	0	0	0	16364	1580	55	3	4500	3	TNRC18	7	5401582	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	62630	5401582	153737081	1765	78930											
FSCN1	6624	broad.mit.edu	37	chr7	5643159	5643159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactttgacatcgagtggcGtgaccggcgcatcacactga	9	9	11	12	4	1	3	1	3	0	0	2	4	1	3	1	2	1	1	1	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:5643159G>A	uc003sou.2	+	3	1136	c.1022G>A	c.(1021-1023)CGT>CAT	p.R341H	FSCN1_uc003sov.2_Missense_Mutation_p.R63H|FSCN1_uc003sow.2_Missense_Mutation_p.R63H	NM_003088	NP_003079	Q16658	FSCN1_HUMAN	fascin 1	341					actin filament bundle assembly|cell migration|cell proliferation	cell junction|cytoplasm|filopodium|invadopodium|stress fiber	actin filament binding|drug binding|protein binding, bridging			ovary(1)	1		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;1.21e-13)		ATCGAGTGGCGTGACCGGCGC	0.622													8	47					0	0	1	0	0		A	5643159	A	A	5643159	3	1	151	1	0	0	0	0	1	0	0	0	6081	1145	40	1	1032	1	FSCN1	7	5643159	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	241577	5643159	153495504	1766	78931											
ZDHHC4	55146	broad.mit.edu	37	chr7	6624663	6624663	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtgtgtgtaactggtgTgtgcaccgtttcgaccatca	7	12	13	9	2	1	0	1	0	0	0	2	1	1	0	2	2	2	4	2	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:6624663T>C	uc003sqi.2	+	8	871	c.513T>C	c.(511-513)TGT>TGC	p.C171C	ZDHHC4_uc003sql.2_Silent_p.C171C|ZDHHC4_uc003sqh.2_Silent_p.C171C|ZDHHC4_uc003sqj.2_Silent_p.C171C|ZDHHC4_uc003sqk.2_Silent_p.C171C|ZDHHC4_uc003sqm.2_Silent_p.C171C	NM_001134388	NP_001127860	Q9NPG8	ZDHC4_HUMAN	zinc finger, DHHC-type containing 4	171	DHHC-type.					integral to membrane	acyltransferase activity|zinc ion binding			breast(1)|pancreas(1)	2		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.1)		GTAACTGGTGTGTGCACCGTT	0.537													12	60					0	0	1	0	0		C	6624663	C	C	6624663	2	2	151	1	0	0	0	0	0	0	0	1	17642	1702	59	3		3	ZDHHC4	7	6624663	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	981504	6624663	152514000	1767	78932											
ZDHHC4	55146	broad.mit.edu	37	chr7	6628294	6628294	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttcatgctgggctttgTcgtggttctgagcttcctcc	2	17	11	11	1	3	1	1	1	2	0	6	1	5	1	2	2	2	4	2	2	0	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:6628294T>C	uc003sqi.2	+	9	1146	c.788T>C	c.(787-789)GTC>GCC	p.V263A	ZDHHC4_uc003sql.2_Missense_Mutation_p.V263A|ZDHHC4_uc003sqh.2_Missense_Mutation_p.V263A|ZDHHC4_uc003sqj.2_Missense_Mutation_p.V263A|ZDHHC4_uc003sqk.2_Missense_Mutation_p.V263A|ZDHHC4_uc003sqm.2_Missense_Mutation_p.V263A|C7orf26_uc003sqo.1_5'Flank|C7orf26_uc003sqp.1_5'Flank|C7orf26_uc003sqq.1_5'Flank	NM_001134388	NP_001127860	Q9NPG8	ZDHC4_HUMAN	zinc finger, DHHC-type containing 4	263	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			breast(1)|pancreas(1)	2		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.1)		CTGGGCTTTGTCGTGGTTCTG	0.527													7	256					0	0	1	0	0		C	6628294	C	C	6628294	3	2	151	1	0	0	0	0	1	0	0	0	17642	1667	58	3	810	3	ZDHHC4	7	6628294	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3631	6628294	152510369	1768	78933											
C7orf28B	221960	broad.mit.edu	37	chr7	6844657	6844657	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacgatgctgtccagtcttcGgcaaaaatccaacgttgggt	11	10	10	10	3	1	0	0	0	1	0	4	1	3	0	2	2	3	3	2	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:6844657G>A	uc003sqx.1	-	12	1051	c.1018C>T	c.(1018-1020)CGA>TGA	p.R340*	C7orf28B_uc011jxd.1_Nonsense_Mutation_p.R197*	NM_198097	NP_932765	P86791	CCZ1_HUMAN	hypothetical protein LOC221960	340						lysosomal membrane					0		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)		TCCAGTCTTCGGCAAAAATCC	0.458													12	79					0	0	1	0	0		A	6844657	A	A	6844657	4	1	151	1	0	0	0	0	0	1	0	0	2387	1124	39	1	446	1	C7orf28B	7	6844657	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	216363	6844657	152294006	1769	78934											
COL28A1	340267	broad.mit.edu	37	chr7	7410437	7410437	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaatccaggttgaggtgaCgatgaaccaaaaatttgaac	16	8	9	8	1	0	4	0	4	0	0	1	5	1	4	3	2	2	1	3	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:7410437C>T	uc003src.1	-	33	3102	c.2985G>A	c.(2983-2985)TCG>TCA	p.S995S	COL28A1_uc011jxe.1_Silent_p.S678S	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	995					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		GTTGAGGTGACGATGAACCAA	0.363													37	150					0	0	1	0	0		T	7410437	T	T	7410437	2	4	151	1	0	0	0	0	0	0	0	1	3689	523	19	1		1	COL28A1	7	7410437	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	565780	7410437	151728226	1770	78935											
COL28A1	340267	broad.mit.edu	37	chr7	7514247	7514247	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaccttctcccctttgatTgacaggccttgtaatccctg	7	14	7	13	0	1	2	0	2	1	0	3	2	2	2	5	1	1	2	5	1	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:7514247T>C	uc003src.1	-	15	1404	c.1287A>G	c.(1285-1287)TCA>TCG	p.S429S	COL28A1_uc011jxe.1_Silent_p.S112S|COL28A1_uc003srd.2_5'UTR	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	429					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		CCCCTTTGATTGACAGGCCTT	0.403													35	127					0	0	1	0	0		C	7514247	C	C	7514247	2	2	151	1	0	0	0	0	0	0	0	1	3689	1799	63	3		3	COL28A1	7	7514247	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	103810	7514247	151624416	1771	78936											
COL28A1	340267	broad.mit.edu	37	chr7	7571101	7571101	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgtagaaagtgcaatggTgataaatgatattcctgaaa	16	11	9	5	1	0	4	0	3	0	1	1	4	1	4	2	1	2	2	2	1	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:7571101T>C	uc003src.1	-	3	676	c.559A>G	c.(559-561)ACC>GCC	p.T187A	COL28A1_uc011jxe.1_5'UTR	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	187	VWFA 1.				cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		AGTGCAATGGTGATAAATGAT	0.408													14	70					0	0	1	0	0		C	7571101	C	C	7571101	3	2	151	1	0	0	0	0	1	0	0	0	3689	1696	59	3	2950	3	COL28A1	7	7571101	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	56854	7571101	151567562	1772	78937											
THSD7A	221981	broad.mit.edu	37	chr7	11415490	11415490	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttttgccttctttggggTttctttggctttttgctgta	1	24	10	6	0	2	0	0	0	2	0	2	0	2	0	1	3	2	5	1	3	1	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:11415490T>C	uc003ssf.3	-	27	5157	c.4905A>G	c.(4903-4905)AAA>AAG	p.K1635K	uc003ssb.2_Intron|THSD7A_uc003ssd.3_Silent_p.K139K	NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1635	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TTCTTTGGGGTTTCTTTGGCT	0.348										HNSCC(18;0.044)			28	142					0	0	1	0	0		C	11415490	C	C	11415490	2	2	151	1	0	0	0	0	0	0	0	1	15904	1722	60	3		3	THSD7A	7	11415490	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3844389	11415490	147723173	1773	78938											
THSD7A	221981	broad.mit.edu	37	chr7	11676323	11676323	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctatctccctcacctgaatAccttcttcccccttaatgca	8	13	3	17	0	3	1	1	1	2	0	5	1	4	1	5	0	2	2	5	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:11676323A>G	uc003ssf.3	-	2	708	c.456T>C	c.(454-456)GGT>GGC	p.G152G		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	152	Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TCACCTGAATACCTTCTTCCC	0.493										HNSCC(18;0.044)			19	87					0	0	1	0	0		G	11676323	G	G	11676323	2	3	151	1	0	0	0	0	0	0	0	1	15904	378	14	3		3	THSD7A	7	11676323	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	260833	11676323	147462340	1774	78939											
DNAH11	8701	broad.mit.edu	37	chr7	21598618	21598618	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaattgttcagagaacaagTacgtaacagtacaatatata	19	10	7	5	1	1	2	1	0	0	2	1	3	1	2	0	0	4	4	0	0	10	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:21598618T>C	uc003svc.2	+	3	723	c.692_splice	c.e3+2	p.K231_splice		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11						microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AGAGAACAAGTACGTAACAGT	0.264									Kartagener_syndrome				4	14					0	0	1	0	0		C	21598618	C	C	21598618	5	2	151	1	0	0	0	0	0	0	1	0	4605	1652	57	3	704	3	DNAH11	7	21598618	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	9922295	21598618	137540045	1775	78940											
DNAH11	8701	broad.mit.edu	37	chr7	21744053	21744053	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatgtttttttttctaggTactcatgagagcattaaggg	12	16	9	4	0	2	1	1	1	1	1	2	2	2	1	0	2	2	3	0	2	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:21744053T>C	uc003svc.2	+	39	6327	c.6296T>C	c.(6295-6297)GTA>GCA	p.V2099A		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2099					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TTTTTCTAGGTACTCATGAGA	0.378									Kartagener_syndrome				6	31					0	0	1	0	0		C	21744053	C	C	21744053	3	2	151	1	0	0	0	0	1	0	0	0	4605	1652	57	3	6447	3	DNAH11	7	21744053	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	145435	21744053	137394610	1776	78941											
C7orf30	115416	broad.mit.edu	37	chr7	23340583	23340583	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagattactttgtgattgttAgtggaacttctacccgacac	10	14	8	9	1	1	2	0	1	1	1	1	4	1	3	1	1	3	1	1	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:23340583A>G	uc003swd.1	+	2	414	c.382A>G	c.(382-384)AGT>GGT	p.S128G		NM_138446	NP_612455	Q96EH3	CG030_HUMAN	hypothetical protein LOC115416	128						mitochondrion					0			GBM - Glioblastoma multiforme(13;0.154)			TGTGATTGTTAGTGGAACTTC	0.403													101	345					0	0	1	0	0		G	23340583	G	G	23340583	3	3	151	1	0	0	0	0	1	0	0	0	2389	420	15	3	388	3	C7orf30	7	23340583	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1596530	23340583	135798080	1777	78942											
IGF2BP3	10643	broad.mit.edu	37	chr7	23387308	23387308	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagtagagaggatagtaatCgacttctcagcagcccccgc	11	7	12	11	2	1	1	1	0	1	1	3	5	1	3	2	2	2	3	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:23387308C>T	uc003swg.2	-	7	995	c.729G>A	c.(727-729)TCG>TCA	p.S243S	IGF2BP3_uc003swf.2_5'UTR	NM_006547	NP_006538	O00425	IF2B3_HUMAN	insulin-like growth factor 2 mRNA binding	243	KH 1.				anatomical structure morphogenesis|negative regulation of translation|translation	cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			ovary(2)	2						GGATAGTAATCGACTTCTCAG	0.453													14	89					0	0	1	0	0		T	23387308	T	T	23387308	2	4	151	1	0	0	0	0	0	0	0	1	7591	871	31	1		1	IGF2BP3	7	23387308	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	46725	23387308	135751355	1778	78943											
OSBPL3	26031	broad.mit.edu	37	chr7	24881939	24881939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agataacagaacttcctgagCatcaaaaaactcagaaaggg	19	6	8	8	0	2	4	2	1	0	3	3	4	3	4	1	1	4	1	1	1	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:24881939C>T	uc003sxf.2	-	13	1765	c.1360G>A	c.(1360-1362)GCT>ACT	p.A454T	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Missense_Mutation_p.A418T|OSBPL3_uc003sxh.2_Missense_Mutation_p.A423T|OSBPL3_uc003sxi.2_Missense_Mutation_p.A387T|OSBPL3_uc003sxj.1_Missense_Mutation_p.A183T|OSBPL3_uc003sxk.1_Missense_Mutation_p.A152T	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	454					lipid transport		lipid binding|protein binding			skin(1)	1						ACTTCCTGAGCATCAAAAAAC	0.398													72	351					0	0	1	0	0		T	24881939	T	T	24881939	3	4	151	1	0	0	0	0	1	0	0	0	11298	710	25	2	1347	2	OSBPL3	7	24881939	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1494631	24881939	134256724	1779	78944											
HOXA7	3204	broad.mit.edu	37	chr7	27195919	27195919	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgttttggtcgtaggaggcGcagggcaggttgccgtaggc	6	10	18	7	3	0	0	0	0	0	0	1	1	0	1	1	6	1	6	1	6	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:27195919G>A	uc003sys.2	-	1	378	c.246C>T	c.(244-246)TGC>TGT	p.C82C		NM_006896	NP_008827	P31268	HXA7_HUMAN	homeobox A7	82					angiogenesis|negative regulation of cell-matrix adhesion|negative regulation of keratinocyte differentiation|negative regulation of leukocyte migration|negative regulation of monocyte differentiation|negative regulation of transcription from RNA polymerase II promoter		sequence-specific DNA binding|transcription factor binding				0						CGTAGGAGGCGCAGGGCAGGT	0.662													5	18					0	0	1	0	0		A	27195919	A	A	27195919	2	1	151	1	0	0	0	0	0	0	0	1	7313	1079	38	1		1	HOXA7	7	27195919	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2313980	27195919	131942744	1780	78945											
TRIL	9865	broad.mit.edu	37	chr7	28996503	28996503	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggtggcgacactgcacgAagacagtgaggagccggccc	9	3	18	11	3	0	2	0	1	0	1	0	5	0	3	2	5	2	1	2	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:28996503A>G	uc003szt.2	-	3	1527	c.1160T>C	c.(1159-1161)TTC>TCC	p.F387S	uc003szu.1_5'Flank	NM_014817	NP_055632	Q7L0X0	TRIL_HUMAN	TLR4 interactor with leucine rich repeats	387	Extracellular (Potential).|LRRCT.				inflammatory response|innate immune response|regulation of cytokine production involved in immune response|toll-like receptor 4 signaling pathway	lipopolysaccharide receptor complex	lipopolysaccharide binding				0						ACACTGCACGAAGACAGTGAG	0.652													6	15					0	0	1	0	0		G	28996503	G	G	28996503	3	3	151	1	0	0	0	0	1	0	0	0	16511	246	9	3	1279	3	TRIL	7	28996503	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1800584	28996503	130142160	1781	78946											
SCRN1	9805	broad.mit.edu	37	chr7	29980470	29980470	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtggtgagcgaaagctgActgcaaatgcacctcactcc	11	9	10	11	1	1	2	1	2	0	0	2	3	2	2	2	1	4	3	2	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:29980470A>G	uc010kvp.2	-	4	771	c.567T>C	c.(565-567)AGT>AGC	p.S189S	SCRN1_uc011jzy.1_Silent_p.S121S|SCRN1_uc003tak.2_Silent_p.S189S|SCRN1_uc011jzz.1_Silent_p.S189S|SCRN1_uc011kaa.1_Silent_p.S209S|SCRN1_uc011jzw.1_Intron|SCRN1_uc011jzx.1_Intron	NM_001145515	NP_001138987	Q12765	SCRN1_HUMAN	secernin 1 isoform c	189					exocytosis|proteolysis	cytoplasm|nuclear membrane	dipeptidase activity			ovary(2)	2						GCGAAAGCTGACTGCAAATGC	0.448													45	192					0	0	1	0	0		G	29980470	G	G	29980470	2	3	151	1	0	0	0	0	0	0	0	1	13963	272	10	3		3	SCRN1	7	29980470	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	983967	29980470	129158193	1782	78947											
SCRN1	9805	broad.mit.edu	37	chr7	29983717	29983717	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcttcaaagtaattcccAccttgtccatgttcttccaa	10	14	4	13	0	3	0	1	0	2	0	6	0	6	0	4	0	0	3	4	0	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:29983717A>G	uc010kvp.2	-	3	624	c.420T>C	c.(418-420)GGT>GGC	p.G140G	SCRN1_uc011jzy.1_Silent_p.G72G|SCRN1_uc003tak.2_Silent_p.G140G|SCRN1_uc011jzz.1_Silent_p.G140G|SCRN1_uc011kaa.1_Silent_p.G160G|SCRN1_uc011jzw.1_Silent_p.G72G|SCRN1_uc011jzx.1_Intron	NM_001145515	NP_001138987	Q12765	SCRN1_HUMAN	secernin 1 isoform c	140					exocytosis|proteolysis	cytoplasm|nuclear membrane	dipeptidase activity			ovary(2)	2						AGTAATTCCCACCTTGTCCAT	0.468													14	95					0	0	1	0	0		G	29983717	G	G	29983717	2	3	151	1	0	0	0	0	0	0	0	1	13963	146	6	3		3	SCRN1	7	29983717	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3247	29983717	129154946	1783	78948											
PLEKHA8	84725	broad.mit.edu	37	chr7	30094382	30094382	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgaaaaatcatgacaataActtgactcagtctggatcag	15	10	7	9	0	4	3	3	3	1	0	4	4	4	4	1	1	1	0	1	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:30094382A>G	uc003tam.1	+	8	945	c.854A>G	c.(853-855)AAC>AGC	p.N285S	PLEKHA8_uc003tao.2_Missense_Mutation_p.N169S|PLEKHA8_uc003tap.1_Missense_Mutation_p.N285S|PLEKHA8_uc003tan.2_Missense_Mutation_p.N285S	NM_032639	NP_116028	Q96JA3	PKHA8_HUMAN	pleckstrin homology domain containing, family A	285					protein transport	cytoplasm	glycolipid binding|glycolipid transporter activity			breast(3)|ovary(1)	4						CATGACAATAACTTGACTCAG	0.378													7	193					0	0	1	0	0		G	30094382	G	G	30094382	3	3	151	1	0	0	0	0	1	0	0	0	12081	43	2	3	884	3	PLEKHA8	7	30094382	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	110665	30094382	129044281	1784	78949											
FAM188B	84182	broad.mit.edu	37	chr7	30825490	30825490	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacttctgcatgggagaagaTagacaagcttcactcggagc	12	8	12	9	1	2	3	1	0	1	3	3	6	2	4	0	2	3	2	0	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:30825490T>C	uc003tbt.2	+	4	622	c.545T>C	c.(544-546)ATA>ACA	p.I182T	FAM188B_uc010kwe.2_Missense_Mutation_p.I153T	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	182											0						TGGGAGAAGATAGACAAGCTT	0.512													42	150					0	0	1	0	0		C	30825490	C	C	30825490	3	2	151	1	0	0	0	0	1	0	0	0	5526	1406	49	3	559	3	FAM188B	7	30825490	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	731108	30825490	128313173	1785	78950											
FAM188B	84182	broad.mit.edu	37	chr7	30931599	30931599	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggcatcagtgaactggaaCggctcagaccccatcctgtg	9	7	13	12	1	2	2	2	1	0	1	3	3	3	3	3	4	2	2	3	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:30931599C>T	uc003tbt.2	+	18	2330	c.2253C>T	c.(2251-2253)AAC>AAT	p.N751N	FAM188B_uc010kwe.2_Silent_p.N722N|AQP1_uc011kac.1_Intron|FAM188B_uc003tbu.2_Silent_p.N271N	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	751											0						TGAACTGGAACGGCTCAGACC	0.557													37	239					0	0	1	0	0		T	30931599	T	T	30931599	2	4	151	1	0	0	0	0	0	0	0	1	5526	535	19	1		1	FAM188B	7	30931599	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	106109	30931599	128207064	1786	78951											
KBTBD2	25948	broad.mit.edu	37	chr7	32910428	32910428	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaaaactcaacaatcgtAcacaattctctgcatttatt	15	12	3	11	1	2	0	1	0	1	0	4	0	2	0	0	0	5	3	0	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:32910428A>G	uc003tdb.2	-	4	1060	c.401T>C	c.(400-402)GTA>GCA	p.V134A	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	134											0			GBM - Glioblastoma multiforme(11;0.0499)			CAACAATCGTACACAATTCTC	0.358													20	95					0	0	1	0	0		G	32910428	G	G	32910428	3	3	151	1	0	0	0	0	1	0	0	0	8009	391	14	3	1474	3	KBTBD2	7	32910428	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1978829	32910428	126228235	1787	78952											
KBTBD2	25948	broad.mit.edu	37	chr7	32914664	32914664	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcattcattgccaagttAcccgtgtatgcataagttat	10	15	7	9	1	2	0	2	0	0	0	2	0	2	0	2	0	3	4	2	0	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:32914664A>G	uc003tdb.2	-	3	935	c.276T>C	c.(274-276)GGT>GGC	p.G92G	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	92	BTB.										0			GBM - Glioblastoma multiforme(11;0.0499)			TTGCCAAGTTACCCGTGTATG	0.343													17	220					0	0	1	0	0		G	32914664	G	G	32914664	2	3	151	1	0	0	0	0	0	0	0	1	8009	378	14	3		3	KBTBD2	7	32914664	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4236	32914664	126223999	1788	78953											
BBS9	27241	broad.mit.edu	37	chr7	33303903	33303903	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaatttctttcatacaggTaccaggtacttgcttttgca	10	17	6	8	0	2	0	1	0	1	0	2	0	2	0	1	2	5	4	1	2	5	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:33303903T>C	uc003tdn.1	+	7	1132	c.619T>C	c.(619-621)TAC>CAC	p.Y207H	BBS9_uc003tdo.1_Missense_Mutation_p.Y207H|BBS9_uc003tdp.1_Missense_Mutation_p.Y207H|BBS9_uc003tdq.1_Missense_Mutation_p.Y207H|BBS9_uc010kwn.1_RNA|BBS9_uc011kan.1_Missense_Mutation_p.Y207H|BBS9_uc011kao.1_Missense_Mutation_p.Y85H	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	207					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			TTCATACAGGTACCAGGTACT	0.244									Bardet-Biedl_syndrome				10	50					0	0	1	0	0		C	33303903	C	C	33303903	3	2	151	1	0	0	0	0	1	0	0	0	1343	1652	57	3	641	3	BBS9	7	33303903	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	389239	33303903	125834760	1789	78954											
ANLN	54443	broad.mit.edu	37	chr7	36462243	36462243	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcgttgttttacatagcTgggaagagaacacttttgat	11	15	10	5	1	0	2	0	1	0	1	0	4	0	3	0	1	4	3	0	1	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:36462243T>C	uc003tff.2	+	14	2505	c.2301T>C	c.(2299-2301)ACT>ACC	p.T767T	ANLN_uc011kaz.1_Silent_p.T679T|ANLN_uc003tfg.2_Silent_p.T730T|ANLN_uc010kxe.2_Silent_p.T729T	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	767	Localization to the cleavage furrow.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						TTTACATAGCTGGGAAGAGAA	0.343													22	92					0	0	1	0	0		C	36462243	C	C	36462243	2	2	151	1	0	0	0	0	0	0	0	1	694	1594	55	3		3	ANLN	7	36462243	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3158340	36462243	122676420	1790	78955											
ELMO1	9844	broad.mit.edu	37	chr7	37354480	37354480	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgatatagaagtttgaacTatcggcatgctggagtgcaa	12	12	12	5	1	0	3	0	2	0	1	1	4	0	4	0	2	3	4	0	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:37354480T>C	uc003tfk.1	-	4	473	c.166A>G	c.(166-168)AGT>GGT	p.S56G	ELMO1_uc010kxg.1_Missense_Mutation_p.S56G	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	56					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						AAGTTTGAACTATCGGCATGC	0.333													11	82					0	0	1	0	0		C	37354480	C	C	37354480	3	2	151	1	0	0	0	0	1	0	0	0	5073	1522	53	3	2093	3	ELMO1	7	37354480	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	892237	37354480	121784183	1791	78956											
AMPH	273	broad.mit.edu	37	chr7	38505843	38505843	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtattaacataaaatccaActcgtctgccatgtggaaac	16	10	6	9	1	1	0	0	0	1	0	3	1	2	1	2	1	4	1	2	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:38505843A>G	uc003tgu.2	-	8	665	c.596T>C	c.(595-597)GTT>GCT	p.V199A	AMPH_uc003tgv.2_Missense_Mutation_p.V199A|AMPH_uc003tgt.2_5'Flank	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	199	BAR.				endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						ATAAAATCCAACTCGTCTGCC	0.373													12	42					0	0	1	0	0		G	38505843	G	G	38505843	3	3	151	1	0	0	0	0	1	0	0	0	588	43	2	3	1547	3	AMPH	7	38505843	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1151363	38505843	120632820	1792	78957											
VPS41	27072	broad.mit.edu	37	chr7	38765894	38765894	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtccacggttcttagcActgcagatgttgcagaactg	8	11	11	11	1	1	2	0	0	1	2	2	2	2	2	2	2	4	5	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:38765894A>G	uc003tgy.2	-	29	2543	c.2517T>C	c.(2515-2517)AGT>AGC	p.S839S	VPS41_uc003tgz.2_Silent_p.S814S|VPS41_uc010kxn.2_Silent_p.S750S|VPS41_uc003tgx.2_RNA	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	839	RING-type; atypical.				Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						GGTTCTTAGCACTGCAGATGT	0.358													8	98					0	0	1	0	0		G	38765894	G	G	38765894	2	3	151	1	0	0	0	0	0	0	0	1	17236	156	6	3		3	VPS41	7	38765894	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	260051	38765894	120372769	1793	78958											
POU6F2	11281	broad.mit.edu	37	chr7	39500291	39500291	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgctacagagggccccgcGtacagccagtcggccatctg	8	6	13	14	3	1	1	0	0	1	1	2	1	1	1	4	2	4	2	4	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:39500291G>A	uc003thb.1	+	9	1590	c.1548G>A	c.(1546-1548)GCG>GCA	p.A516A		NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1	516	POU-specific.				central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						AGGGCCCCGCGTACAGCCAGT	0.592													4	10					0	0	1	0	0		A	39500291	A	A	39500291	2	1	151	1	0	0	0	0	0	0	0	1	12304	1132	40	1		1	POU6F2	7	39500291	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	734397	39500291	119638372	1794	78959											
POU6F2	11281	broad.mit.edu	37	chr7	39503921	39503921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggacatcacccctaaaagtgCccagaagatcaagccggtgc	13	5	10	13	1	2	2	2	0	0	2	2	3	2	3	4	2	3	0	4	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:39503921C>T	uc003thb.1	+	10	1754	c.1712C>T	c.(1711-1713)GCC>GTC	p.A571V		NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1	571	POU-specific.				central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						CCTAAAAGTGCCCAGAAGATC	0.542													10	60					0	0	1	0	0		T	39503921	T	T	39503921	3	4	151	1	0	0	0	0	1	0	0	0	12304	739	26	2	1750	2	POU6F2	7	39503921	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3630	39503921	119634742	1795	78960											
INHBA	3624	broad.mit.edu	37	chr7	41729279	41729279	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacactcctccacgatcatgTtctgaatgtcctttttgatg	8	15	6	12	1	2	2	1	2	1	0	5	3	5	2	3	0	0	1	3	0	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:41729279T>C	uc003thq.2	-	2	1485	c.1250A>G	c.(1249-1251)AAC>AGC	p.N417S	INHBA_uc003thr.2_Missense_Mutation_p.N417S	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	417					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						CACGATCATGTTCTGAATGTC	0.473										TSP Lung(11;0.080)			11	102					0	0	1	0	0		C	41729279	C	C	41729279	3	2	151	1	0	0	0	0	1	0	0	0	7757	1725	60	3	34	3	INHBA	7	41729279	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2225358	41729279	117409384	1796	78961											
PSMA2	5683	broad.mit.edu	37	chr7	42962944	42962944	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatggatctgactgaaataAatatggtcgtccctcattcc	12	12	8	9	1	2	3	1	2	1	1	5	4	4	4	2	2	0	0	2	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:42962944A>G	uc003thy.2	-	5	484	c.436T>C	c.(436-438)TTA>CTA	p.L146L	C7orf25_uc010kxr.2_5'UTR|PSMA2_uc010kxt.2_Silent_p.L68L|PSMA2_uc003thz.1_Silent_p.L68L	NM_002787	NP_002778	P25787	PSA2_HUMAN	proteasome subunit alpha type 2	146					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|response to virus|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	protein binding|threonine-type endopeptidase activity			large_intestine(2)|ovary(1)	3						GACTGAAATAAATATGGTCGT	0.343													3	57					0	0	1	0	0		G	42962944	G	G	42962944	2	3	151	1	0	0	0	0	0	0	0	1	12689	11	1	3		3	PSMA2	7	42962944	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1233665	42962944	116175719	1797	78962											
CAMK2B	816	broad.mit.edu	37	chr7	44260472	44260472	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcctcgatgagctgctcCgtggtcttaatgatctcctg	6	12	11	12	3	2	2	0	2	2	0	5	3	3	2	3	2	2	2	3	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:44260472C>A	uc003tkq.2	-	21	1836	c.1626G>T	c.(1624-1626)ACG>ACT	p.T542T	CAMK2B_uc003tkp.2_Silent_p.T418T|CAMK2B_uc003tkx.2_Silent_p.T378T|CAMK2B_uc010kyd.2_RNA|CAMK2B_uc003tkr.2_Silent_p.T394T|CAMK2B_uc003tks.2_Silent_p.T393T|CAMK2B_uc003tku.2_Silent_p.T379T|CAMK2B_uc003tkv.2_Silent_p.T355T|CAMK2B_uc003tkt.2_Silent_p.T394T|CAMK2B_uc003tkw.2_Silent_p.T325T|CAMK2B_uc010kyc.2_Silent_p.T418T|CAMK2B_uc003tkn.2_Silent_p.T175T	NM_001220	NP_001211	Q13554	KCC2B_HUMAN	calcium/calmodulin-dependent protein kinase II	542					interferon-gamma-mediated signaling pathway|synaptic transmission	cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)|ovary(1)	2						TGAGCTGCTCCGTGGTCTTAA	0.652													3	3					1	1	1	1	0		A	44260472	A	A	44260472	2	1	151	1	0	0	0	0	0	0	0	1	2603	639	23	5		5	CAMK2B	7	44260472	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1297528	44260472	114878191	1798	78963											
DDX56	54606	broad.mit.edu	37	chr7	44607803	44607803	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagctggaggtccctaGggttgtcttcaaagtatgtc	8	11	13	9	0	2	0	1	0	1	0	4	1	3	1	1	3	2	5	1	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:44607803G>T	uc003tlg.2	-	12	2046	c.1403C>A	c.(1402-1404)CCT>CAT	p.P468H	DDX56_uc003tle.2_RNA|DDX56_uc003tlf.2_Missense_Mutation_p.P404H|DDX56_uc003tlh.2_RNA|DDX56_uc010kyg.2_Missense_Mutation_p.P428H	NM_019082	NP_061955	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	468					rRNA processing	nucleolus	ATP binding|ATP-dependent RNA helicase activity|identical protein binding|RNA binding			upper_aerodigestive_tract(1)	1						GAGGTCCCTAGGGTTGTCTTC	0.557													11	34					3.07112e-06	3.12052e-06	1	1	0		T	44607803	T	T	44607803	3	4	151	1	0	0	0	0	1	0	0	0	4377	1000	35	5	252	5	DDX56	7	44607803	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	347331	44607803	114530860	1799	78964											
ZMIZ2	83637	broad.mit.edu	37	chr7	44802571	44802571	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcctcctgcctgctgagcActgcatcaccaagagtgagt	8	8	11	14	1	1	3	1	2	0	1	2	3	2	3	4	0	4	3	4	0	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:44802571A>T	uc003tlr.2	+	12	1811	c.1688A>T	c.(1687-1689)CAC>CTC	p.H563L	ZMIZ2_uc003tlq.2_Missense_Mutation_p.H505L|ZMIZ2_uc003tls.2_Missense_Mutation_p.H537L|ZMIZ2_uc003tlt.2_Missense_Mutation_p.H186L|ZMIZ2_uc010kyj.2_Missense_Mutation_p.H85L|ZMIZ2_uc003tlu.2_5'Flank	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	563					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						CCTGCTGAGCACTGCATCACC	0.627													29	103					0	0	1	0	0		T	44802571	T	T	44802571	3	4	151	1	0	0	0	0	1	0	0	0	17722	159	6	5	1730	5	ZMIZ2	7	44802571	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	194768	44802571	114336092	1800	78965											
MYO1G	64005	broad.mit.edu	37	chr7	45005794	45005794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgtccccctgcagccCgtgctgctccaggagagcgc	5	5	13	18	3	0	1	0	0	0	1	2	2	2	1	5	2	5	3	5	2	0	0	rs145905005	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:45005794C>T	uc003tmh.2	-	16	2179	c.2035G>A	c.(2035-2037)GGG>AGG	p.G679R	MYO1G_uc003tmf.2_Missense_Mutation_p.G122R|MYO1G_uc003tmg.2_Missense_Mutation_p.G441R|MYO1G_uc010kym.2_Missense_Mutation_p.G564R|MYO1G_uc003tmi.1_3'UTR	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	679	Myosin head-like.					myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						CCCTGCAGCCCGTGCTGCTCC	0.632													4	36					0	0	1	0	0		T	45005794	T	T	45005794	3	4	151	1	0	0	0	0	1	0	0	0	10092	652	23	1	1049	1	MYO1G	7	45005794	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	203223	45005794	114132869	1801	78966											
ADCY1	107	broad.mit.edu	37	chr7	45717522	45717522	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaccgctcatctttttctAccaacgttgtctacaccacc	10	12	4	15	2	4	0	1	0	3	0	4	1	4	0	4	0	4	2	4	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:45717522A>G	uc003tne.3	+	9	1678	c.1660A>G	c.(1660-1662)ACC>GCC	p.T554A		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	554	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	ATCTTTTTCTACCAACGTTGT	0.507													26	162					0	0	1	0	0		G	45717522	G	G	45717522	3	3	151	1	0	0	0	0	1	0	0	0	292	391	14	3	1694	3	ADCY1	7	45717522	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	711728	45717522	113421141	1802	78967											
IGFBP1	3484	broad.mit.edu	37	chr7	45930221	45930221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggataatttccatctgatgGccccttctgaagaggatcat	10	13	9	9	0	3	3	1	2	2	1	4	5	4	5	3	3	0	0	3	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:45930221G>A	uc003tnp.2	+	2	717	c.424G>A	c.(424-426)GCC>ACC	p.A142T	IGFBP1_uc003tno.3_Missense_Mutation_p.A142T|IGFBP1_uc010kyn.2_Missense_Mutation_p.A142T	NM_000596	NP_000587	P08833	IBP1_HUMAN	insulin-like growth factor binding protein 1	142						extracellular space	insulin-like growth factor binding			lung(1)	1						CCATCTGATGGCCCCTTCTGA	0.512											OREG0018048	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	142					0	0	1	0	0		A	45930221	A	A	45930221	3	1	151	1	0	0	0	0	1	0	0	0	7594	1203	42	2	430	2	IGFBP1	7	45930221	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	212699	45930221	113208442	1803	78968											
TNS3	64759	broad.mit.edu	37	chr7	47479116	47479116	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtgcttggacttgagcAtgcgcgtgacctcctgtagg	5	10	13	13	3	0	2	0	2	0	0	1	3	1	3	4	2	3	3	4	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:47479116A>G	uc003tnv.2	-	6	486	c.119T>C	c.(118-120)ATG>ACG	p.M40T	TNS3_uc003tnw.2_Missense_Mutation_p.M40T|TNS3_uc010kyo.1_Missense_Mutation_p.M40T	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	40	Phosphatase tensin-type.					focal adhesion	protein binding			ovary(4)	4						GGACTTGAGCATGCGCGTGAC	0.617													5	34					0	0	1	0	0		G	47479116	G	G	47479116	3	3	151	1	0	0	0	0	1	0	0	0	16369	217	8	3	4322	3	TNS3	7	47479116	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1548895	47479116	111659547	1804	78969											
HUS1	3364	broad.mit.edu	37	chr7	48018405	48018405	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaagcttggctatcatgtTactgattcctaaagcagggg	10	11	12	8	0	1	1	1	1	0	0	2	1	2	1	1	4	3	5	1	4	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:48018405T>C	uc003tod.1	-	2	191	c.61A>G	c.(61-63)AAC>GAC	p.N21D	HUS1_uc003toe.1_Missense_Mutation_p.N21D|HUS1_uc011kce.1_RNA	NM_004507	NP_004498	O60921	HUS1_HUMAN	HUS1 checkpoint protein	21					DNA damage checkpoint|DNA replication	Golgi apparatus|nucleolus|nucleoplasm	protein binding			ovary(2)|lung(2)|kidney(1)	5		Breast(660;0.00139)				GCTATCATGTTACTGATTCCT	0.403								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					27	103					0	0	1	0	0		C	48018405	C	C	48018405	3	2	151	1	0	0	0	0	1	0	0	0	7475	1754	61	3	809	3	HUS1	7	48018405	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	539289	48018405	111120258	1805	78970											
ABCA13	154664	broad.mit.edu	37	chr7	48313721	48313721	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagaagaaacctaaattTgagattttattagctctttt	16	15	6	4	0	1	3	0	1	1	3	1	5	1	3	1	0	2	1	1	0	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:48313721T>C	uc003toq.2	+	17	4483	c.4458T>C	c.(4456-4458)TTT>TTC	p.F1486F	ABCA13_uc010kyr.2_Silent_p.F989F	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1486					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AACCTAAATTTGAGATTTTAT	0.299													10	43					0	0	1	0	0		C	48313721	C	C	48313721	2	2	151	1	0	0	0	0	0	0	0	1	31	1809	63	3		3	ABCA13	7	48313721	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	295316	48313721	110824942	1806	78971											
IKZF1	10320	broad.mit.edu	37	chr7	50467961	50467961	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgccaagactccacggAcaccgagagcaacaacgagg	14	2	11	14	3	0	2	0	0	0	2	1	5	1	3	3	2	5	2	3	2	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:50467961A>G	uc003tow.3	+	9	1364	c.1196A>G	c.(1195-1197)GAC>GGC	p.D399G	IKZF1_uc003tox.3_Missense_Mutation_p.D357G|IKZF1_uc003toy.3_Missense_Mutation_p.D357G|IKZF1_uc011kck.1_Missense_Mutation_p.D312G|IKZF1_uc003toz.3_Missense_Mutation_p.D369G|IKZF1_uc010kyx.2_Missense_Mutation_p.D139G|IKZF1_uc003tpa.3_Missense_Mutation_p.D141G	NM_006060	NP_006051	Q13422	IKZF1_HUMAN	zinc finger protein, subfamily 1A, 1 (Ikaros)	399					cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding			haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				GACTCCACGGACACCGAGAGC	0.657			D		ALL								7	8					0	0	1	0	0		G	50467961	G	G	50467961	3	3	151	1	0	0	0	0	1	0	0	0	7630	275	10	3	1222	3	IKZF1	7	50467961	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2154240	50467961	108670702	1807	78972											
COBL	23242	broad.mit.edu	37	chr7	51095667	51095667	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcgccgtggcctggggcGcgcacagagccattgaccag	6	5	16	14	4	0	2	0	1	0	1	1	2	0	2	4	4	1	2	4	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:51095667G>A	uc003tpr.3	-	10	3311	c.3126C>T	c.(3124-3126)CGC>CGT	p.R1042R	COBL_uc003tps.2_Silent_p.R1099R|COBL_uc011kcl.1_Silent_p.R1042R|COBL_uc003tpp.3_Silent_p.R828R|COBL_uc003tpq.3_Silent_p.R983R|COBL_uc003tpo.3_Silent_p.R584R	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	1042										skin(3)|ovary(2)	5	Glioma(55;0.08)					GGCCTGGGGCGCGCACAGAGC	0.607													16	69					0	0	1	0	0		A	51095667	A	A	51095667	2	1	151	1	0	0	0	0	0	0	0	1	3656	1074	38	1		1	COBL	7	51095667	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	627706	51095667	108042996	1808	78973											
COBL	23242	broad.mit.edu	37	chr7	51096316	51096316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctcccctagggggttcCggccctcatggtgggcagac	4	8	13	16	1	1	1	1	0	0	1	4	1	4	1	6	5	0	2	6	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:51096316C>T	uc003tpr.3	-	10	2662	c.2477G>A	c.(2476-2478)CGG>CAG	p.R826Q	COBL_uc003tps.2_Missense_Mutation_p.R883Q|COBL_uc011kcl.1_Missense_Mutation_p.R826Q|COBL_uc003tpp.3_Missense_Mutation_p.R612Q|COBL_uc003tpq.3_Missense_Mutation_p.R767Q|COBL_uc003tpo.3_Missense_Mutation_p.R368Q	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	826										skin(3)|ovary(2)	5	Glioma(55;0.08)					TAGGGGGTTCCGGCCCTCATG	0.617													19	62					0	0	1	0	0		T	51096316	T	T	51096316	3	4	151	1	0	0	0	0	1	0	0	0	3656	652	23	1	1324	1	COBL	7	51096316	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	649	51096316	108042347	1809	78974											
POM121L12	285877	broad.mit.edu	37	chr7	53103642	53103642	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaagccgcagcgggtggTctccgagggctggaggcgcc	5	4	18	14	5	1	0	0	0	1	0	2	2	1	1	4	5	2	2	4	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:53103642T>C	uc003tpz.2	+	1	294	c.278T>C	c.(277-279)GTC>GCC	p.V93A		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	93											0						CAGCGGGTGGTCTCCGAGGGC	0.697													3	11					0	0	1	0	0		C	53103642	C	C	53103642	3	2	151	1	0	0	0	0	1	0	0	0	12260	1667	58	3	280	3	POM121L12	7	53103642	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2007326	53103642	106035021	1810	78975											
EGFR	1956	broad.mit.edu	37	chr7	55220349	55220349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacaggcccccgggagagcGactgcctggtaagatgcccc	8	4	14	15	2	0	2	0	0	0	2	0	4	0	2	5	3	3	2	5	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:55220349G>A	uc003tqk.2	+	6	985	c.739G>A	c.(739-741)GAC>AAC	p.D247N	EGFR_uc003tqh.2_Missense_Mutation_p.D247N|EGFR_uc003tqi.2_Missense_Mutation_p.D247N|EGFR_uc003tqj.2_Missense_Mutation_p.D247N|EGFR_uc010kzg.1_Missense_Mutation_p.D202N|EGFR_uc011kco.1_Missense_Mutation_p.D194N|EGFR_uc003tql.1_RNA	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	247	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	CCGGGAGAGCGACTGCCTGGT	0.682		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			7	51					0	0	1	0	0		A	55220349	A	A	55220349	3	1	151	1	0	0	0	0	1	0	0	0	4973	1058	37	1	761	1	EGFR	7	55220349	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2116707	55220349	103918314	1811	78976											
CCT6A	908	broad.mit.edu	37	chr7	56123451	56123451	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggccagaacatctcttcgTactaaagttcatgctgaact	11	12	8	10	1	2	2	1	1	1	1	4	2	2	2	1	1	4	3	1	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:56123451T>C	uc003trl.1	+	4	635	c.471T>C	c.(469-471)CGT>CGC	p.R157R	PSPH_uc003trj.2_Intron|CCT6A_uc003trm.1_Silent_p.R112R|CCT6A_uc011kcu.1_Silent_p.R126R	NM_001762	NP_001753	P40227	TCPZ_HUMAN	chaperonin containing TCP1, subunit 6A isoform	157					'de novo' posttranslational protein folding	cytosol	ATP binding|unfolded protein binding			upper_aerodigestive_tract(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CATCTCTTCGTACTAAAGTTC	0.373													25	129					0	0	1	0	0		C	56123451	C	C	56123451	2	2	151	1	0	0	0	0	0	0	0	1	2960	1625	57	3		3	CCT6A	7	56123451	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	903102	56123451	103015212	1812	78977											
CCT6A	908	broad.mit.edu	37	chr7	56128609	56128609	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggagtccaagcatttgcTgatgcattgctcattattcc	8	15	8	10	0	1	1	1	1	0	0	3	2	3	2	2	1	4	4	2	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:56128609T>C	uc003trl.1	+	11	1487	c.1323T>C	c.(1321-1323)GCT>GCC	p.A441A	PSPH_uc003trj.2_Intron|CCT6A_uc003trm.1_Silent_p.A396A|CCT6A_uc011kcu.1_Silent_p.A410A	NM_001762	NP_001753	P40227	TCPZ_HUMAN	chaperonin containing TCP1, subunit 6A isoform	441					'de novo' posttranslational protein folding	cytosol	ATP binding|unfolded protein binding			upper_aerodigestive_tract(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			AAGCATTTGCTGATGCATTGC	0.448													16	108					0	0	1	0	0		C	56128609	C	C	56128609	2	2	151	1	0	0	0	0	0	0	0	1	2960	1567	55	3		3	CCT6A	7	56128609	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5158	56128609	103010054	1813	78978											
PHKG1	5260	broad.mit.edu	37	chr7	56148962	56148962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggtactggtagtagatccGcactgaagccagcacggtca	10	7	13	11	3	1	2	1	1	0	1	2	2	2	2	2	3	3	5	2	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:56148962G>A	uc003trz.1	-	10	1144	c.949C>T	c.(949-951)CGG>TGG	p.R317W	PSPH_uc003trj.2_Intron|PHKG1_uc003try.1_Missense_Mutation_p.R211W|PHKG1_uc011kdb.1_Missense_Mutation_p.R349W|PHKG1_uc011kdc.1_Missense_Mutation_p.R308W|PHKG1_uc011kdd.1_Missense_Mutation_p.R263W	NM_006213	NP_006204	Q16816	PHKG1_HUMAN	phosphorylase kinase gamma subunit 1	317	Calmodulin-binding (domain-N).				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			large_intestine(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TAGTAGATCCGCACTGAAGCC	0.682													4	29					0	0	1	0	0		A	56148962	A	A	56148962	3	1	151	1	0	0	0	0	1	0	0	0	11865	1086	38	1	218	1	PHKG1	7	56148962	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	20353	56148962	102989701	1814	78979											
ZNF117	51351	broad.mit.edu	37	chr7	64439903	64439903	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaaggtgttgggcaaaatAataaaacataactgaaagaa	21	7	8	5	0	0	2	0	1	0	1	0	2	0	2	1	2	2	2	1	2	9	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:64439903A>G	uc003ttr.2	-	4	1331	c.46T>C	c.(46-48)TAT>CAT	p.Y16H		NM_015852	NP_056936	Q03924	ZN117_HUMAN	zinc finger protein 117	16						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Lung NSC(55;0.0295)|all_lung(88;0.0691)				TGGGCAAAATAATAAAACATA	0.323													19	80					0	0	1	0	0		G	64439903	G	G	64439903	3	3	151	1	0	0	0	0	1	0	0	0	17742	362	13	3	1409	3	ZNF117	7	64439903	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	8290941	64439903	94698760	1815	78980											
ZNF92	168374	broad.mit.edu	37	chr7	64863286	64863286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attttgcccaagatgtttggCcagagcacagcataaaagat	14	10	9	8	0	0	3	0	0	0	3	0	3	0	3	2	1	3	3	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:64863286C>T	uc003ttz.2	+	4	402	c.259C>T	c.(259-261)CCA>TCA	p.P87S	ZNF92_uc003tua.2_Missense_Mutation_p.P18S|ZNF92_uc010kzu.2_Missense_Mutation_p.P55S|ZNF92_uc003tub.2_Missense_Mutation_p.P11S	NM_152626	NP_689839	Q03936	ZNF92_HUMAN	zinc finger protein 92 isoform 2	87						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(55;0.159)				AGATGTTTGGCCAGAGCACAG	0.303													17	57					0	0	1	0	0		T	64863286	T	T	64863286	3	4	151	1	0	0	0	0	1	0	0	0	18226	739	26	2	273	2	ZNF92	7	64863286	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	423383	64863286	94275377	1816	78981											
KCTD7	154881	broad.mit.edu	37	chr7	66104004	66104004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgagcggagtgagagtgacGggcagctttttgagcaccac	9	9	15	8	2	0	4	0	4	0	1	0	6	0	5	1	2	3	3	1	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:66104004G>A	uc003tve.2	+	4	817	c.655G>A	c.(655-657)GGG>AGG	p.G219R	RABGEF1_uc003tvf.2_Intron|KCTD7_uc003tvd.3_Missense_Mutation_p.G219R	NM_153033	NP_694578	Q96MP8	KCTD7_HUMAN	potassium channel tetramerisation domain	219						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)	3						TGAGAGTGACGGGCAGCTTTT	0.562													16	90					0	0	1	0	0		A	66104004	A	A	66104004	3	1	151	1	0	0	0	0	1	0	0	0	8130	1116	39	1	669	1	KCTD7	7	66104004	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1240718	66104004	93034659	1817	78982											
C7orf42	55069	broad.mit.edu	37	chr7	66413599	66413599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggagctcagatgactgcGccctccacggtcactgtgag	7	8	13	13	3	2	3	2	2	0	1	3	4	3	4	2	2	2	1	2	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:66413599G>A	uc003tvk.2	+	4	778	c.514G>A	c.(514-516)GCC>ACC	p.A172T	C7orf42_uc010lah.2_RNA|C7orf42_uc003tvl.2_Missense_Mutation_p.A172T	NM_017994	NP_060464	Q9NWD8	CG042_HUMAN	hypothetical protein LOC55069	172						integral to membrane				ovary(1)	1						AGATGACTGCGCCCTCCACGG	0.547													10	22					0	0	1	0	0		A	66413599	A	A	66413599	3	1	151	1	0	0	0	0	1	0	0	0	2395	1087	38	1	524	1	C7orf42	7	66413599	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	309595	66413599	92725064	1818	78983											
TYW1	55253	broad.mit.edu	37	chr7	66483036	66483036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagtcctgtggcggccactGcaagaaaggcaaatgtgaat	13	7	13	8	1	0	2	0	1	0	1	1	3	1	2	2	3	1	2	2	3	5	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:66483036G>A	uc003tvn.2	+	6	916	c.767G>A	c.(766-768)TGC>TAC	p.C256Y	TYW1_uc010lai.2_RNA	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	256					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				GGCGGCCACTGCAAGAAAGGC	0.517													11	42					0	0	1	0	0		A	66483036	A	A	66483036	3	1	151	1	0	0	0	0	1	0	0	0	16844	1319	46	2	789	2	TYW1	7	66483036	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	69437	66483036	92655627	1819	78984											
TYW1	55253	broad.mit.edu	37	chr7	66660204	66660204	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaagcagtcttaccatggcCcacgtgccctggcatgagga	9	7	12	13	1	1	1	0	1	1	0	1	2	1	2	3	3	3	3	3	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:66660204C>A	uc003tvn.2	+	15	2006	c.1857C>A	c.(1855-1857)GCC>GCA	p.A619A	TYW1_uc010lai.2_RNA|TYW1_uc011kef.1_Silent_p.A233A|PMS2L4_uc003tvo.2_Intron	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	619					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				TTACCATGGCCCACGTGCCCT	0.483													9	113					4.93089e-13	5.11547e-13	1	1	0		A	66660204	A	A	66660204	2	1	151	1	0	0	0	0	0	0	0	1	16844	610	22	5		5	TYW1	7	66660204	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	177168	66660204	92478459	1820	78985											
AUTS2	26053	broad.mit.edu	37	chr7	69064829	69064829	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacaatgggaagcccccgTcctccgccccgtcccggccc	7	4	10	20	4	0	1	0	0	0	1	3	2	3	2	8	2	1	0	8	2	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:69064829T>C	uc003tvw.3	+	1	933	c.190T>C	c.(190-192)TCC>CCC	p.S64P	AUTS2_uc003tvv.3_Missense_Mutation_p.S64P|AUTS2_uc003tvx.3_Missense_Mutation_p.S64P	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	64										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		GAAGCCCCCGTCCTCCGCCCC	0.483													4	11					0	0	1	0	0		C	69064829	C	C	69064829	3	2	151	1	0	0	0	0	1	0	0	0	1226	1667	58	3	192	3	AUTS2	7	69064829	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2404625	69064829	90073834	1821	78986											
AUTS2	26053	broad.mit.edu	37	chr7	69064944	69064944	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtcacttttgaagcgcTggaggtaagggggacccccc	7	10	13	11	1	1	1	1	1	0	0	1	3	1	3	3	4	1	2	3	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:69064944T>C	uc003tvw.3	+	1	1048	c.305T>C	c.(304-306)CTG>CCG	p.L102P	AUTS2_uc003tvv.3_Missense_Mutation_p.L102P|AUTS2_uc003tvx.3_Missense_Mutation_p.L102P	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	102										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		TTTGAAGCGCTGGAGGTAAGG	0.637													9	28					0	0	1	0	0		C	69064944	C	C	69064944	3	2	151	1	0	0	0	0	1	0	0	0	1226	1580	55	3	307	3	AUTS2	7	69064944	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	115	69064944	90073719	1822	78987											
AUTS2	26053	broad.mit.edu	37	chr7	69583207	69583207	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccggagcagctctcgggaAaggctcagtgatgtaagttt	10	9	13	9	2	2	1	1	1	1	0	3	3	2	3	1	3	2	5	1	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:69583207A>C	uc003tvw.3	+	3	1355	c.612A>C	c.(610-612)GAA>GAC	p.E204D	AUTS2_uc003tvv.3_Missense_Mutation_p.E204D|AUTS2_uc003tvx.3_Missense_Mutation_p.E204D	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	204										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		GCTCTCGGGAAAGGCTCAGTG	0.433													3	73					0	0	1	0	0		C	69583207	C	C	69583207	3	2	151	1	0	0	0	0	1	0	0	0	1226	11	1	5	622	5	AUTS2	7	69583207	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	518263	69583207	89555456	1823	78988											
WBSCR17	64409	broad.mit.edu	37	chr7	70886037	70886037	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggagctgtggtgcatgtAcatcagccccccaaaagact	10	8	11	12	0	1	1	1	0	0	1	1	2	1	2	3	2	4	3	3	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:70886037A>G	uc003tvy.2	+	5	908	c.908A>G	c.(907-909)TAC>TGC	p.Y303C	WBSCR17_uc003tvz.2_Missense_Mutation_p.Y2C	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	303	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TGGTGCATGTACATCAGCCCC	0.592													35	81					0	0	1	0	0		G	70886037	G	G	70886037	3	3	151	1	0	0	0	0	1	0	0	0	17290	391	14	3	926	3	WBSCR17	7	70886037	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1302830	70886037	88252626	1824	78989											
TYW1B	441250	broad.mit.edu	37	chr7	72081820	72081820	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactttctctgcagtaggtaAcgccctgtggaaacagtata	12	11	9	9	1	1	0	0	0	1	0	2	1	1	1	1	2	4	4	1	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:72081820A>G	uc011kej.1	-	16	1781	c.1622T>C	c.(1621-1623)GTT>GCT	p.V541A	TYW1B_uc011keh.1_Missense_Mutation_p.V379A|TYW1B_uc011kei.1_Missense_Mutation_p.V167A	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform	541					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						GCAGTAGGTAACGCCCTGTGG	0.393													32	110					0	0	1	0	0		G	72081820	G	G	72081820	3	3	151	1	0	0	0	0	1	0	0	0	16845	43	2	3	513	3	TYW1B	7	72081820	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1195783	72081820	87056843	1825	78990											
NSUN5	55695	broad.mit.edu	37	chr7	72717856	72717856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttctgctgcagcgcatctCgcaccacgtcttcattctcc	5	12	8	16	3	5	0	1	0	4	0	7	0	5	0	2	1	3	5	2	1	0	3	rs3950374		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:72717856C>T	uc003txw.2	-	8	1148	c.1112G>A	c.(1111-1113)CGA>CAA	p.R371Q	FKBP6_uc003twz.2_Intron|NSUN5_uc003txv.2_Missense_Mutation_p.R371Q|NSUN5_uc003txx.2_Missense_Mutation_p.R333Q|NSUN5_uc011kev.1_Missense_Mutation_p.R371Q	NM_018044	NP_060514	Q96P11	NSUN5_HUMAN	NOL1/NOP2/Sun domain family, member 5 isoform 2	371							methyltransferase activity				0		Lung NSC(55;0.163)				CAGCGCATCTCGCACCACGTC	0.662													3	24					0	0	1	0	0		T	72717856	T	T	72717856	3	4	151	1	0	0	0	0	1	0	0	0	10700	884	31	1	321	1	NSUN5	7	72717856	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	636036	72717856	86420807	1826	78991											
BAZ1B	9031	broad.mit.edu	37	chr7	72892413	72892413	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttactagaggtcctaggtgTacccccagaattccgtgggg	8	11	12	10	1	0	2	0	0	0	2	2	2	2	2	4	4	2	1	4	4	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:72892413T>C	uc003tyc.2	-	7	1723	c.1378A>G	c.(1378-1380)ACA>GCA	p.T460A		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	460	Lys-rich.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				GTCCTAGGTGTACCCCCAGAA	0.478													25	139					0	0	1	0	0		C	72892413	C	C	72892413	3	2	151	1	0	0	0	0	1	0	0	0	1331	1638	57	3	3125	3	BAZ1B	7	72892413	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	174557	72892413	86246250	1827	78992											
MLXIPL	51085	broad.mit.edu	37	chr7	73030508	73030508	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagacaccagcttgccaCtgtcaaaggggagaggagta	12	6	15	8	0	1	2	1	0	0	2	1	5	1	3	2	4	2	2	2	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:73030508C>T	uc003tyn.1	-	2	342	c.294_splice	c.e2-1	p.S98_splice	MLXIPL_uc003tyk.1_Splice_Site_p.S98_splice|MLXIPL_uc003tyl.1_Splice_Site_p.S98_splice|MLXIPL_uc003tym.1_Splice_Site_p.S98_splice|MLXIPL_uc003tyo.1_Splice_Site|MLXIPL_uc003typ.1_Splice_Site_p.S98_splice	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14						anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				CAGCTTGCCACTGTCAAAGGG	0.542													17	57					0	0	1	0	0		T	73030508	T	T	73030508	5	4	151	1	0	0	0	0	0	0	1	0	9655	579	20	4	2329	4	MLXIPL	7	73030508	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	138095	73030508	86108155	1828	78993											
RFC2	5982	broad.mit.edu	37	chr7	73646517	73646517	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagagagttcactccttcCgctattttcatgtgagtgta	11	14	8	8	1	2	2	2	1	0	1	4	3	4	2	2	0	0	3	2	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:73646517C>T	uc003uaj.2	-	11	1009	c.984G>A	c.(982-984)GCG>GCA	p.A328A	RFC2_uc011kfa.1_RNA|RFC2_uc003uak.2_Silent_p.A294A|RFC2_uc010lbp.2_Silent_p.A257A|RFC2_uc003ual.2_Silent_p.A227A	NM_181471	NP_852136	P35250	RFC2_HUMAN	replication factor C 2 isoform 1	328					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding			liver(1)|central_nervous_system(1)	2						TCACTCCTTCCGCTATTTTCA	0.433													39	141					0	0	1	0	0		T	73646517	T	T	73646517	2	4	151	1	0	0	0	0	0	0	0	1	13270	639	23	1		1	RFC2	7	73646517	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	616009	73646517	85492146	1829	78994											
POMZP3	22932	broad.mit.edu	37	chr7	76241116	76241116	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctagggtgaccttcaggtgGcaggtgatgtatatctgcaa	9	11	14	7	0	2	2	1	2	1	0	2	2	2	2	1	4	1	4	1	4	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:76241116G>A	uc003uft.2	-	5	1107	c.360C>T	c.(358-360)TGC>TGT	p.C120C	uc003ufs.1_Intron|POMZP3_uc003ufu.2_Intron|POMZP3_uc003ufv.2_RNA|POMZP3_uc011kgm.1_RNA	NM_012230	NP_036362	Q6PJE2	POZP3_HUMAN	POMZP3 fusion protein isoform 1	120											0		Myeloproliferative disorder(862;0.204)				CCTTCAGGTGGCAGGTGATGT	0.522													6	35					0	0	1	0	0		A	76241116	A	A	76241116	2	1	151	1	0	0	0	0	0	0	0	1	12266	1195	42	2		2	POMZP3	7	76241116	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2594599	76241116	82897547	1830	78995											
POMZP3	22932	broad.mit.edu	37	chr7	76254925	76254925	+	Silent	SNP	T	C	C																															ttctctttgagggcactcagTacagtctcctttgcacatgg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:76254925T>C	uc003uft.2	-	3	888	c.141A>G	c.(139-141)GTA>GTG	p.V47V	uc003ufs.1_Intron|POMZP3_uc003ufu.2_Silent_p.V47V|POMZP3_uc003ufv.2_RNA|POMZP3_uc011kgm.1_RNA	NM_012230	NP_036362	Q6PJE2	POZP3_HUMAN	POMZP3 fusion protein isoform 1	47											0		Myeloproliferative disorder(862;0.204)				GGGCACTCAGTACAGTCTCCT	0.448													76	277					0	0	1	0	0		C	76254925	C	C	76254925	2	2	151	1	0	0	0	0	0	0	0	1	12266	1625	57	3		3	POMZP3	7	76254925	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	13809	76254925	82883738	1831	78996	148	2									
POMZP3	22932	broad.mit.edu	37	chr7	76254929	76254929	+	Missense_Mutation	SNP	G	C	C																															ctttgagggcactcagtacaGtctcctttgcacatgggtct																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:76254929G>C	uc003uft.2	-	3	884	c.137C>G	c.(136-138)ACT>AGT	p.T46S	uc003ufs.1_Intron|POMZP3_uc003ufu.2_Missense_Mutation_p.T46S|POMZP3_uc003ufv.2_RNA|POMZP3_uc011kgm.1_RNA	NM_012230	NP_036362	Q6PJE2	POZP3_HUMAN	POMZP3 fusion protein isoform 1	46											0		Myeloproliferative disorder(862;0.204)				ACTCAGTACAGTCTCCTTTGC	0.438													59	290					0	0	1	0	0		C	76254929	C	C	76254929	3	2	151	1	0	0	0	0	1	0	0	0	12266	1029	36	5	449	5	POMZP3	7	76254929	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4	76254929	82883734	1832	78997	148	2									
CCDC146	57639	broad.mit.edu	37	chr7	76883847	76883847	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggaagaaaaaatcatcatAgtaaaagaatttgagaagat	23	8	8	2	0	2	4	2	1	0	4	2	6	2	5	0	1	0	1	0	1	10	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:76883847A>G	uc003uga.2	+	5	601	c.474A>G	c.(472-474)ATA>ATG	p.I158M		NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	158										ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				AAATCATCATAGTAAAAGAAT	0.269													17	46					0	0	1	0	0		G	76883847	G	G	76883847	3	3	151	1	0	0	0	0	1	0	0	0	2783	410	15	3	488	3	CCDC146	7	76883847	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	628918	76883847	82254816	1833	78998											
PION	54103	broad.mit.edu	37	chr7	76941475	76941475	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccgcgaaatgatgttagaActcataggatgatcccaaag	14	10	9	8	2	1	3	1	2	0	1	3	5	3	4	2	1	1	1	2	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:76941475A>G	uc003ugf.2	-	29	2395	c.2316T>C	c.(2314-2316)AGT>AGC	p.S772S	PION_uc011kgo.1_Silent_p.S93S|PION_uc003ugd.2_Silent_p.S166S	NM_017439	NP_059135	A4D1B5	GSAP_HUMAN	pigeon homolog	772					beta-amyloid formation|regulation of proteolysis	trans-Golgi network	beta-amyloid binding			central_nervous_system(1)	1						TGATGTTAGAACTCATAGGAT	0.373													16	73					0	0	1	0	0		G	76941475	G	G	76941475	2	3	151	1	0	0	0	0	0	0	0	1	11953	40	2	3		3	PION	7	76941475	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	57628	76941475	82197188	1834	78999											
PION	54103	broad.mit.edu	37	chr7	77035409	77035409	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatgtaagctctcataatcGttttctaaaacatctgaaat	15	14	4	8	1	3	1	1	1	3	0	5	1	3	1	0	0	2	3	0	0	5	5	rs144142632	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:77035409G>A	uc003ugf.2	-	2	202	c.123C>T	c.(121-123)AAC>AAT	p.N41N	PION_uc003ugg.1_Translation_Start_Site	NM_017439	NP_059135	A4D1B5	GSAP_HUMAN	pigeon homolog	41					beta-amyloid formation|regulation of proteolysis	trans-Golgi network	beta-amyloid binding			central_nervous_system(1)	1						TCTCATAATCGTTTTCTAAAA	0.214													5	22					0	0	1	0	0		A	77035409	A	A	77035409	2	1	151	1	0	0	0	0	0	0	0	1	11953	1136	40	1		1	PION	7	77035409	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	93934	77035409	82103254	1835	79000											
RSBN1L	222194	broad.mit.edu	37	chr7	77402579	77402579	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atataggacaaggttttgaaCgacagactacagctgctgtt	13	11	10	7	1	0	2	0	1	0	1	0	4	0	3	0	2	4	4	0	2	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:77402579C>T	uc010ldt.1	+	6	1785	c.1741C>T	c.(1741-1743)CGA>TGA	p.R581*	RSBN1L_uc003ugm.2_Nonsense_Mutation_p.R363*	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	581						nucleus				ovary(1)	1						AGGTTTTGAACGACAGACTAC	0.433													29	108					0	0	1	0	0		T	77402579	T	T	77402579	4	4	151	1	0	0	0	0	0	1	0	0	13722	528	19	1	1763	1	RSBN1L	7	77402579	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	367170	77402579	81736084	1836	79001											
MAGI2	9863	broad.mit.edu	37	chr7	78119138	78119138	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcgtggatccagccatgAtgttgtctttgtgttatggc	7	15	12	7	1	1	1	0	1	1	0	3	2	2	2	2	2	1	2	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:78119138A>G	uc003ugx.2	-	6	1239	c.985T>C	c.(985-987)TCA>CCA	p.S329P	MAGI2_uc003ugy.2_Missense_Mutation_p.S329P|MAGI2_uc010ldx.1_5'UTR|MAGI2_uc010ldy.1_5'UTR|MAGI2_uc011kgr.1_Missense_Mutation_p.S161P|MAGI2_uc011kgs.1_Missense_Mutation_p.S166P	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	329	WW 1.|Interaction with DDN.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TCCAGCCATGATGTTGTCTTT	0.368													74	282					0	0	1	0	0		G	78119138	G	G	78119138	3	3	151	1	0	0	0	0	1	0	0	0	9209	333	12	3	3450	3	MAGI2	7	78119138	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	716559	78119138	81019525	1837	79002											
HGF	3082	broad.mit.edu	37	chr7	81372722	81372723	+	Missense_Mutation	DNP	CA	TG	TG																															tgtgagggtcaagagtatagCaccatggcctcggctggcca																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:81372722_81372723CA>TG	uc003uhl.2	-	7	976_977	c.811_812TG>CA	c.(811-813)TGC>CAC	p.C271H	HGF_uc003uhm.2_Missense_Mutation_p.C266H|HGF_uc003uhn.1_Missense_Mutation_p.C271H|HGF_uc003uho.1_Missense_Mutation_p.C266H	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	271	Kringle 2.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						AAGAGTATAGCACCATGGCCTC	0.47													25	73					0	0	1	0	0		TG	81372723	TG	TG	81372722	3	4	151	1	0	0	0	0	1	0	0	0	7101	710	25	2	1434	2	HGF	7	81372722	Missense_Mutation	DNP	CA	TCGA-CG-5721-01A-11D-1600-08	3253584	81372722	77765941	1838	79003											
HGF	3082	broad.mit.edu	37	chr7	81392115	81392115	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttttatcttcagtgctggAtctattttgattagggtagt	7	20	10	4	0	3	1	1	1	2	0	3	2	3	2	0	2	1	3	0	2	4	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:81392115A>T	uc003uhl.2	-	2	327	c.162T>A	c.(160-162)GAT>GAA	p.D54E	HGF_uc003uhm.2_Missense_Mutation_p.D54E|HGF_uc003uhn.1_Missense_Mutation_p.D54E|HGF_uc003uho.1_Missense_Mutation_p.D54E|HGF_uc003uhp.2_Missense_Mutation_p.D54E	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	54	PAN.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						TCAGTGCTGGATCTATTTTGA	0.303													7	151					0	0	1	0	0		T	81392115	T	T	81392115	3	4	151	1	0	0	0	0	1	0	0	0	7101	330	12	5	2112	5	HGF	7	81392115	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	19393	81392115	77746548	1839	79004											
CACNA2D1	781	broad.mit.edu	37	chr7	81611899	81611899	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaccttggtgctatgaatgTatagccagattcttcaaaat	13	13	7	8	0	2	2	1	1	1	1	2	2	2	2	2	1	3	2	2	1	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:81611899T>C	uc003uhr.1	-	24	2195	c.1939A>G	c.(1939-1941)ACA>GCA	p.T647A		NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	659	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	GCTATGAATGTATAGCCAGAT	0.368													24	135					0	0	1	0	0		C	81611899	C	C	81611899	3	2	151	1	0	0	0	0	1	0	0	0	2551	1638	57	3	1400	3	CACNA2D1	7	81611899	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	219784	81611899	77526764	1840	79005											
CACNA2D1	781	broad.mit.edu	37	chr7	81643727	81643727	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttgttacctttgttttcAcaggccatccactgaatagg	9	15	8	9	0	1	1	1	1	0	0	2	2	2	1	3	2	1	2	3	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:81643727A>G	uc003uhr.1	-	13	1468	c.1212T>C	c.(1210-1212)TGT>TGC	p.C404C	uc003uhs.1_Intron	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	404	Extracellular (Potential).|VWFA.					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	CTTTGTTTTCACAGGCCATCC	0.313													10	88					0	0	1	0	0		G	81643727	G	G	81643727	2	3	151	1	0	0	0	0	0	0	0	1	2551	157	6	3		3	CACNA2D1	7	81643727	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	31828	81643727	77494936	1841	79006											
PCLO	27445	broad.mit.edu	37	chr7	82453563	82453563	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcctaccctttgatgggTcagggaagataccatggctt	9	13	10	9	0	1	2	1	1	0	1	2	3	2	3	3	3	2	1	3	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:82453563T>C	uc003uhx.2	-	19	14874	c.14585A>G	c.(14584-14586)GAC>GGC	p.D4862G	PCLO_uc003uhv.2_Missense_Mutation_p.D4862G|PCLO_uc003uht.1_Missense_Mutation_p.D304G|PCLO_uc003uhu.1_Missense_Mutation_p.D283G	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4724	Ser-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CTTTGATGGGTCAGGGAAGAT	0.388													10	38					0	0	1	0	0		C	82453563	C	C	82453563	3	2	151	1	0	0	0	0	1	0	0	0	11602	1667	58	3	888	3	PCLO	7	82453563	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	809836	82453563	76685100	1842	79007											
PCLO	27445	broad.mit.edu	37	chr7	82584247	82584247	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaactctttctggaggtctgTaattttctgcataggatctt	9	17	8	7	0	5	0	0	0	5	0	5	2	5	2	0	3	2	2	0	3	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:82584247T>C	uc003uhx.2	-	5	6311	c.6022A>G	c.(6022-6024)ACA>GCA	p.T2008A	PCLO_uc003uhv.2_Missense_Mutation_p.T2008A	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1939					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TGGAGGTCTGTAATTTTCTGC	0.363													63	231					0	0	1	0	0		C	82584247	C	C	82584247	3	2	151	1	0	0	0	0	1	0	0	0	11602	1638	57	3	9507	3	PCLO	7	82584247	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	130684	82584247	76554416	1843	79008											
PCLO	27445	broad.mit.edu	37	chr7	82585531	82585531	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actaatctctttgagctggtTtctgatgaactcatcatctt	9	17	6	9	0	5	3	2	3	3	0	6	3	5	3	0	1	2	2	0	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:82585531T>C	uc003uhx.2	-	5	5027	c.4738A>G	c.(4738-4740)AAC>GAC	p.N1580D	PCLO_uc003uhv.2_Missense_Mutation_p.N1580D	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1511					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTGAGCTGGTTTCTGATGAAC	0.433													7	303					0	0	1	0	0		C	82585531	C	C	82585531	3	2	151	1	0	0	0	0	1	0	0	0	11602	1841	64	3	10791	3	PCLO	7	82585531	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1284	82585531	76553132	1844	79009											
SEMA3E	9723	broad.mit.edu	37	chr7	83095872	83095872	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacaggtcagaaggtgtgTcctgttatagtgatgcaaaa	13	10	11	7	0	1	2	1	1	0	1	2	2	2	2	2	2	1	2	2	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:83095872T>A	uc003uhy.1	-	4	848	c.382A>T	c.(382-384)ACA>TCA	p.T128S		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	128	Sema.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				AGAAGGTGTGTCCTGTTATAG	0.398													25	84					0	0	1	0	0		A	83095872	A	A	83095872	3	1	151	1	0	0	0	0	1	0	0	0	14053	1667	58	5	2001	5	SEMA3E	7	83095872	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	510341	83095872	76042791	1845	79010											
SEMA3D	223117	broad.mit.edu	37	chr7	84649547	84649547	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcactctggactgagtcttAccttgaatatctgcaactcc	9	12	8	12	0	3	2	0	2	3	0	4	3	4	3	2	2	3	2	2	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:84649547A>G	uc003uic.2	-	12	1543	c.1503_splice	c.e12+1	p.K501_splice	SEMA3D_uc010led.2_Splice_Site_p.K501_splice|SEMA3D_uc003uib.2_Splice_Site_p.K140_splice	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor						cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						ACTGAGTCTTACCTTGAATAT	0.413													18	91					0	0	1	0	0		G	84649547	G	G	84649547	5	3	151	1	0	0	0	0	0	0	1	0	14052	405	14	3	852	3	SEMA3D	7	84649547	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1553675	84649547	74489116	1846	79011											
GRM3	2913	broad.mit.edu	37	chr7	86415866	86415866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgggccgctccaacatccGcaagtcctacgacagcgtga	9	6	12	14	4	0	1	0	1	0	0	3	2	3	1	4	2	3	2	4	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:86415866G>A	uc003uid.2	+	3	1857	c.758G>A	c.(757-759)CGC>CAC	p.R253H	GRM3_uc010lef.2_Missense_Mutation_p.R251H|GRM3_uc010leg.2_Missense_Mutation_p.R125H|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	253	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TCCAACATCCGCAAGTCCTAC	0.627													12	44					0	0	1	0	0		A	86415866	A	A	86415866	3	1	151	1	0	0	0	0	1	0	0	0	6814	1087	38	1	764	1	GRM3	7	86415866	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1766319	86415866	72722797	1847	79012											
GRM3	2913	broad.mit.edu	37	chr7	86469092	86469092	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgatcttatgcactgtgtaCgccttcaaaacgcggaagtg	10	11	11	9	3	2	1	1	1	1	0	2	2	2	2	1	1	3	2	1	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:86469092C>T	uc003uid.2	+	4	3361	c.2262C>T	c.(2260-2262)TAC>TAT	p.Y754Y	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Silent_p.Y626Y|GRM3_uc010leh.2_Silent_p.Y346Y	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	754	Helical; Name=5; (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GCACTGTGTACGCCTTCAAAA	0.448													33	118					0	0	1	0	0		T	86469092	T	T	86469092	2	4	151	1	0	0	0	0	0	0	0	1	6814	547	19	1		1	GRM3	7	86469092	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	53226	86469092	72669571	1848	79013											
DMTF1	9988	broad.mit.edu	37	chr7	86813838	86813838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgaacgagtcggtaccCgctcagaaaagcaatgtcgt	11	8	12	10	4	1	2	1	1	0	1	3	3	1	2	1	2	3	4	1	2	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:86813838C>T	uc003uih.2	+	11	1272	c.946C>T	c.(946-948)CGC>TGC	p.R316C	DMTF1_uc003uii.2_Missense_Mutation_p.R50C|DMTF1_uc003uij.2_Missense_Mutation_p.R50C|DMTF1_uc011khb.1_Missense_Mutation_p.R228C|DMTF1_uc003uik.2_RNA|DMTF1_uc003uil.2_Missense_Mutation_p.R316C|DMTF1_uc003uin.2_Missense_Mutation_p.R50C	NM_001142327	NP_001135799	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	316	H-T-H motif (By similarity).|Interaction with CCND1, CCND2 and CCND3 (By similarity).|HTH myb-type.|Required for DNA-binding (By similarity).				cell cycle	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(14;0.0058)					AGTCGGTACCCGCTCAGAAAA	0.488													11	41					0	0	1	0	0		T	86813838	T	T	86813838	3	4	151	1	0	0	0	0	1	0	0	0	4598	652	23	1	980	1	DMTF1	7	86813838	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	344746	86813838	72324825	1849	79014											
DMTF1	9988	broad.mit.edu	37	chr7	86817425	86817425	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtcttaataaaaggtcttAaacagttacatgagaaccaa	18	10	6	7	0	2	1	0	1	2	1	2	2	2	1	1	1	3	1	1	1	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:86817425A>G	uc003uih.2	+	13	1545	c.1219A>G	c.(1219-1221)AAA>GAA	p.K407E	DMTF1_uc003uii.2_Missense_Mutation_p.K141E|DMTF1_uc003uij.2_Missense_Mutation_p.K141E|DMTF1_uc011khb.1_Missense_Mutation_p.K319E|DMTF1_uc003uik.2_RNA|DMTF1_uc003uil.2_Missense_Mutation_p.K407E|DMTF1_uc003uin.2_Missense_Mutation_p.K141E	NM_001142327	NP_001135799	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	407	Interaction with CCND1, CCND2 and CCND3 (By similarity).|Required for DNA-binding (By similarity).				cell cycle	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(14;0.0058)					AAAAGGTCTTAAACAGTTACA	0.423													22	100					0	0	1	0	0		G	86817425	G	G	86817425	3	3	151	1	0	0	0	0	1	0	0	0	4598	363	13	3	1261	3	DMTF1	7	86817425	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3587	86817425	72321238	1850	79015											
CROT	54677	broad.mit.edu	37	chr7	86990750	86990750	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctatctggatgttcgtatAccatcacaattgaatgtcaa	12	13	7	9	1	3	1	2	1	1	0	4	2	3	2	2	1	1	2	2	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:86990750A>G	uc003uit.2	+	5	530	c.285A>G	c.(283-285)ATA>ATG	p.I95M	CROT_uc003uiu.2_Missense_Mutation_p.I123M	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	95					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	ATGTTCGTATACCATCACAAT	0.403													7	166					0	0	1	0	0		G	86990750	G	G	86990750	3	3	151	1	0	0	0	0	1	0	0	0	3897	381	14	3	383	3	CROT	7	86990750	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	173325	86990750	72147913	1851	79016											
ABCB4	5244	broad.mit.edu	37	chr7	87101978	87101978	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcactgtcttcgttttttTccttttttgtttgctgtaaa	4	25	5	7	1	2	0	1	0	1	0	4	0	3	0	1	0	1	4	1	0	2	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:87101978T>C	uc003uiv.1	-	3	170	c.94A>G	c.(94-96)AAA>GAA	p.K32E	ABCB4_uc003uiw.1_Missense_Mutation_p.K32E|ABCB4_uc003uix.1_Missense_Mutation_p.K32E|ABCB4_uc003uiy.2_Missense_Mutation_p.K32E	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	32	Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					TTCGTTTTTTTCCTTTTTTGT	0.254													4	85					0	0	1	0	0		C	87101978	C	C	87101978	3	2	151	1	0	0	0	0	1	0	0	0	43	1792	62	3	3870	3	ABCB4	7	87101978	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	111228	87101978	72036685	1852	79017											
ZNF804B	219578	broad.mit.edu	37	chr7	88964603	88964603	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctacttgtctgatgatatAacaaagagcagccaaatgca	15	11	7	8	0	2	3	0	2	2	1	2	3	2	3	1	0	5	2	1	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:88964603A>G	uc011khi.1	+	4	2845	c.2307A>G	c.(2305-2307)ATA>ATG	p.I769M		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	769						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CTGATGATATAACAAAGAGCA	0.378										HNSCC(36;0.09)			19	89					0	0	1	0	0		G	88964603	G	G	88964603	3	3	151	1	0	0	0	0	1	0	0	0	18196	352	13	3	2321	3	ZNF804B	7	88964603	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1862625	88964603	70174060	1853	79018											
CLDN12	9069	broad.mit.edu	37	chr7	90042638	90042638	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtactcccatccacccagTatgcatacttactcacagcc	10	11	4	16	0	1	0	1	0	0	0	3	0	3	0	4	0	5	3	4	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:90042638T>C	uc003ukp.2	+	5	1284	c.648T>C	c.(646-648)AGT>AGC	p.S216S	CLDN12_uc003ukq.2_Silent_p.S216S|CLDN12_uc010leq.2_Silent_p.S216S|CLDN12_uc003ukr.2_Silent_p.S216S|CLDN12_uc003uks.2_Silent_p.S216S	NM_012129	NP_036261	P56749	CLD12_HUMAN	claudin 12	216	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						ATCCACCCAGTATGCATACTT	0.433													8	468					0	0	1	0	0		C	90042638	C	C	90042638	2	2	151	1	0	0	0	0	0	0	0	1	3477	1635	57	3		3	CLDN12	7	90042638	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1078035	90042638	69096025	1854	79019											
FZD1	8321	broad.mit.edu	37	chr7	90895582	90895582	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcaagaccatcaccatcCtggcgctgggccaggtggac	9	6	11	15	1	2	1	2	0	0	1	3	2	3	2	5	4	0	1	5	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:90895582C>G	uc003ula.2	+	1	1800	c.1387C>G	c.(1387-1389)CTG>GTG	p.L463V		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	463	Helical; Name=4; (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			CATCACCATCCTGGCGCTGGG	0.647													28	115					0	0	1	0	0		G	90895582	G	G	90895582	3	3	151	1	0	0	0	0	1	0	0	0	6142	680	24	5	1389	5	FZD1	7	90895582	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	852944	90895582	68243081	1855	79020											
FZD1	8321	broad.mit.edu	37	chr7	90895892	90895892	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttccgggaccagtgggAacgcagctgggtggcccaga	7	5	17	12	2	0	1	0	0	0	1	1	3	1	3	4	5	2	2	4	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:90895892A>C	uc003ula.2	+	1	2110	c.1697A>C	c.(1696-1698)GAA>GCA	p.E566A		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	566	Extracellular (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			GACCAGTGGGAACGCAGCTGG	0.672													9	54					0	0	1	0	0		C	90895892	C	C	90895892	3	2	151	1	0	0	0	0	1	0	0	0	6142	246	9	5	1699	5	FZD1	7	90895892	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	310	90895892	68242771	1856	79021											
AKAP9	10142	broad.mit.edu	37	chr7	91630524	91630524	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaacacaaagaaagttagaAcaactccgggcagagctgga	18	4	11	8	1	0	3	0	0	0	3	1	5	1	4	1	2	4	3	1	2	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:91630524A>G	uc003ulg.2	+	8	1518	c.1293A>G	c.(1291-1293)GAA>GAG	p.E431E	AKAP9_uc003ule.2_Silent_p.E443E|AKAP9_uc003ulf.2_Silent_p.E431E|AKAP9_uc003uli.2_Silent_p.E56E	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	443	Glu-rich.|Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GAAAGTTAGAACAACTCCGGG	0.403			T	BRAF	papillary thyroid								31	127					0	0	1	0	0		G	91630524	G	G	91630524	2	3	151	1	0	0	0	0	0	0	0	1	459	40	2	3		3	AKAP9	7	91630524	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	734632	91630524	67508139	1857	79022											
CYP51A1	1595	broad.mit.edu	37	chr7	91747922	91747922	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgatcaagtaaatttagaTccttgagctaaaatgagaaa	18	10	8	5	1	1	3	1	2	0	2	2	5	2	3	1	0	2	2	1	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:91747922T>A	uc003ulm.3	-	8	1256	c.1094A>T	c.(1093-1095)GAT>GTT	p.D365V	CYP51A1_uc011khn.1_Missense_Mutation_p.D260V|CYP51A1_uc003uln.3_Missense_Mutation_p.D302V	NM_000786	NP_000777	Q16850	CP51A_HUMAN	cytochrome P450, family 51, subfamily A,	359					cholesterol biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|sterol 14-demethylase activity				0	all_cancers(62;2.16e-09)|all_epithelial(64;3.86e-08)|Breast(17;0.00206)|all_lung(186;0.169)|all_hematologic(106;0.215)|Lung NSC(181;0.227)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)		Fluconazole(DB00196)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Miconazole(DB01110)|Terconazole(DB00251)	TAAATTTAGATCCTTGAGCTA	0.323													37	156					0	0	1	0	0		A	91747922	A	A	91747922	3	1	151	1	0	0	0	0	1	0	0	0	4198	1435	50	5	447	5	CYP51A1	7	91747922	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	117398	91747922	67390741	1858	79023											
CDK6	1021	broad.mit.edu	37	chr7	92247394	92247394	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaacttaccagaagtaGgtctttgcctagttcatcga	14	11	8	8	1	2	2	1	0	1	2	3	3	2	2	2	1	3	2	2	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:92247394G>A	uc011khw.1	-	7	1238	c.826C>T	c.(826-828)CTA>TTA	p.L276L	CDK6_uc010lez.2_Silent_p.L276L	NM_001259	NP_001250	Q00534	CDK6_HUMAN	cyclin-dependent kinase 6	276	Protein kinase.				cell dedifferentiation|cell division|G1 phase of mitotic cell cycle|gliogenesis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|negative regulation of osteoblast differentiation|positive regulation of cell-matrix adhesion|positive regulation of fibroblast proliferation|regulation of erythrocyte differentiation|regulation of gene expression|response to virus	cyclin-dependent protein kinase holoenzyme complex|cytosol|nucleus|ruffle	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			central_nervous_system(1)|skin(1)	2	all_cancers(62;8.72e-12)|all_epithelial(64;3.65e-10)|Breast(17;0.000675)|all_lung(186;0.0392)|Lung NSC(181;0.053)|all_neural(327;0.219)|all_hematologic(106;0.237)		STAD - Stomach adenocarcinoma(4;6.16e-07)|GBM - Glioblastoma multiforme(5;1.2e-06)|all cancers(6;3.1e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			ACCAGAAGTAGGTCTTTGCCT	0.473			T	MLLT10	ALL								9	37					0	0	1	0	0		A	92247394	A	A	92247394	2	1	151	1	0	0	0	0	0	0	0	1	3151	991	35	4		4	CDK6	7	92247394	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	499472	92247394	66891269	1859	79024											
CDK6	1021	broad.mit.edu	37	chr7	92462455	92462455	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgcctcagcaccgccacCtcgcggatggtggagagcgg	7	5	16	13	4	1	1	1	0	0	1	2	3	1	2	4	5	3	1	4	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:92462455C>T	uc011khw.1	-	2	595	c.183G>A	c.(181-183)GAG>GAA	p.E61E	CDK6_uc010lez.2_Silent_p.E61E	NM_001259	NP_001250	Q00534	CDK6_HUMAN	cyclin-dependent kinase 6	61	Protein kinase.				cell dedifferentiation|cell division|G1 phase of mitotic cell cycle|gliogenesis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|negative regulation of osteoblast differentiation|positive regulation of cell-matrix adhesion|positive regulation of fibroblast proliferation|regulation of erythrocyte differentiation|regulation of gene expression|response to virus	cyclin-dependent protein kinase holoenzyme complex|cytosol|nucleus|ruffle	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			central_nervous_system(1)|skin(1)	2	all_cancers(62;8.72e-12)|all_epithelial(64;3.65e-10)|Breast(17;0.000675)|all_lung(186;0.0392)|Lung NSC(181;0.053)|all_neural(327;0.219)|all_hematologic(106;0.237)		STAD - Stomach adenocarcinoma(4;6.16e-07)|GBM - Glioblastoma multiforme(5;1.2e-06)|all cancers(6;3.1e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			GCACCGCCACCTCGCGGATGG	0.701			T	MLLT10	ALL								3	9					0	0	1	0	0		T	92462455	T	T	92462455	2	4	151	1	0	0	0	0	0	0	0	1	3151	680	24	4		4	CDK6	7	92462455	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	215061	92462455	66676208	1860	79025											
SAMD9L	219285	broad.mit.edu	37	chr7	92760647	92760647	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaataaacagatattactggTatttttattttttcctctgt	11	20	5	5	0	1	1	0	0	1	1	2	2	2	1	1	1	2	1	1	1	7	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:92760647T>C	uc003umh.1	-	5	5854	c.4638A>G	c.(4636-4638)ATA>ATG	p.I1546M	SAMD9L_uc003umj.1_Missense_Mutation_p.I1546M|SAMD9L_uc003umi.1_Missense_Mutation_p.I1546M|SAMD9L_uc010lfb.1_Missense_Mutation_p.I1546M|SAMD9L_uc003umk.1_Missense_Mutation_p.I1546M|SAMD9L_uc010lfc.1_Missense_Mutation_p.I1546M|SAMD9L_uc010lfd.1_Missense_Mutation_p.I1546M|SAMD9L_uc011khx.1_3'UTR	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1546										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			ATATTACTGGTATTTTTATTT	0.403													24	127					0	0	1	0	0		C	92760647	C	C	92760647	3	2	151	1	0	0	0	0	1	0	0	0	13852	1628	57	3	120	3	SAMD9L	7	92760647	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	298192	92760647	66378016	1861	79026											
COL1A2	1278	broad.mit.edu	37	chr7	94056542	94056542	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggaaaagatggtcgcActggacatcctggtacagtt	10	10	12	9	1	0	1	0	0	0	1	2	3	1	3	1	4	2	4	1	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:94056542A>G	uc003ung.1	+	48	3673	c.3202A>G	c.(3202-3204)ACT>GCT	p.T1068A	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1068					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	AGATGGTCGCACTGGACATCC	0.537										HNSCC(75;0.22)			4	46					0	0	1	0	0		G	94056542	G	G	94056542	3	3	151	1	0	0	0	0	1	0	0	0	3681	159	6	3	3392	3	COL1A2	7	94056542	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1295895	94056542	65082121	1862	79027											
CASD1	64921	broad.mit.edu	37	chr7	94174901	94174901	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagtggtgttatgtatagtAatggatcgaccttatcaatt	11	16	10	4	1	1	0	1	0	0	0	2	2	1	1	1	2	0	4	1	2	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:94174901A>G	uc003uni.3	+	12	1748	c.1521A>G	c.(1519-1521)GTA>GTG	p.V507V	CASD1_uc003unj.3_Silent_p.V507V	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	507	Helical; (Potential).					integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			TATGTATAGTAATGGATCGAC	0.338													38	166					0	0	1	0	0		G	94174901	G	G	94174901	2	3	151	1	0	0	0	0	0	0	0	1	2667	349	13	3		3	CASD1	7	94174901	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	118359	94174901	64963762	1863	79028											
PEG10	23089	broad.mit.edu	37	chr7	94293419	94293419	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggggtctgtcatcgactActccaatgctttccagatga	9	12	9	11	1	2	2	1	1	1	1	5	3	4	2	2	2	2	1	2	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:94293419A>G	uc011kie.1	+	2	996	c.779A>G	c.(778-780)TAC>TGC	p.Y260C		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	184	Necessary for interaction with ALK1.				apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			GTCATCGACTACTCCAATGCT	0.547													34	212					0	0	1	0	0		G	94293419	G	G	94293419	3	3	151	1	0	0	0	0	1	0	0	0	11738	391	14	3	785	3	PEG10	7	94293419	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	118518	94293419	64845244	1864	79029											
PON2	5445	broad.mit.edu	37	chr7	95034793	95034793	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagatagaatgttctggatgCggagaacctattcaggggat	12	10	13	6	1	2	3	1	0	1	3	2	6	2	5	1	4	2	1	1	4	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:95034793C>T	uc003unv.2	-	9	1035	c.914G>A	c.(913-915)CGC>CAC	p.R305H	PON2_uc003unu.2_Missense_Mutation_p.R293H|PON2_uc010lfk.2_RNA|PON2_uc003unw.2_Missense_Mutation_p.R218H	NM_000305	NP_000296	Q15165	PON2_HUMAN	paraoxonase 2 isoform 1	305					aromatic compound catabolic process	extracellular region|plasma membrane	arylesterase activity|identical protein binding|metal ion binding				0	all_cancers(62;9.35e-11)|all_epithelial(64;3.37e-09)		STAD - Stomach adenocarcinoma(171;0.0151)			GTTCTGGATGCGGAGAACCTA	0.433													41	150					0	0	1	0	0		T	95034793	T	T	95034793	3	4	151	1	0	0	0	0	1	0	0	0	12268	768	27	1	154	1	PON2	7	95034793	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	741374	95034793	64103870	1865	79030											
DYNC1I1	1780	broad.mit.edu	37	chr7	95665019	95665019	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacgtcaataacttcgtggTtggcagtgaggaaggtacag	12	9	14	6	2	1	2	1	1	0	1	2	3	1	3	0	4	2	3	0	4	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:95665019T>C	uc003uoc.3	+	13	1647	c.1370T>C	c.(1369-1371)GTT>GCT	p.V457A	DYNC1I1_uc003uod.3_Missense_Mutation_p.V440A|DYNC1I1_uc003uob.2_Missense_Mutation_p.V420A|DYNC1I1_uc003uoe.3_Missense_Mutation_p.V437A|DYNC1I1_uc010lfl.2_Missense_Mutation_p.V446A	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	457	WD 4.				vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			AACTTCGTGGTTGGCAGTGAG	0.463													45	235					0	0	1	0	0		C	95665019	C	C	95665019	3	2	151	1	0	0	0	0	1	0	0	0	4848	1725	60	3	1416	3	DYNC1I1	7	95665019	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	630226	95665019	63473644	1866	79031											
SLC25A13	10165	broad.mit.edu	37	chr7	95750584	95750584	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtccaaatttgttttcaatCcctgcaaatgtagcaactgc	12	13	6	10	0	1	0	1	0	0	0	3	0	3	0	2	0	4	4	2	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:95750584C>A	uc003uof.3	-	18	2138	c.1947G>T	c.(1945-1947)GGG>GGT	p.G649G	SLC25A13_uc003uog.3_Silent_p.G650G|SLC25A13_uc011kik.1_Silent_p.G541G	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	649					ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	TGTTTTCAATCCCTGCAAATG	0.493													25	83					2.21704e-12	2.2952e-12	1	1	0		A	95750584	A	A	95750584	2	1	151	1	0	0	0	0	0	0	0	1	14500	842	30	5		5	SLC25A13	7	95750584	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	85565	95750584	63388079	1867	79032											
LMTK2	22853	broad.mit.edu	37	chr7	97821801	97821801	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaagttccagtttggataAccccaaagagtcagtcataa	14	12	7	8	0	2	1	2	0	0	1	3	2	3	2	3	1	1	2	3	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:97821801A>G	uc003upd.1	+	11	2317	c.2024A>G	c.(2023-2025)AAC>AGC	p.N675S		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	675					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					AGTTTGGATAACCCCAAAGAG	0.413													44	200					0	0	1	0	0		G	97821801	G	G	97821801	3	3	151	1	0	0	0	0	1	0	0	0	8876	43	2	3	2066	3	LMTK2	7	97821801	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2071217	97821801	61316862	1868	79033											
TRRAP	8295	broad.mit.edu	37	chr7	98506451	98506451	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctcttcgccaagaacAtcgacgatgagtccctgccc	9	8	8	16	3	1	2	0	1	1	1	5	4	3	2	4	0	3	1	4	0	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:98506451A>G	uc003upp.2	+	14	1425	c.1216A>G	c.(1216-1218)ATC>GTC	p.I406V	TRRAP_uc011kis.1_Missense_Mutation_p.I406V|TRRAP_uc003upr.2_Missense_Mutation_p.I98V	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	406					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CGCCAAGAACATCGACGATGA	0.642													4	25					0	0	1	0	0		G	98506451	G	G	98506451	3	3	151	1	0	0	0	0	1	0	0	0	16627	217	8	3	1266	3	TRRAP	7	98506451	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	684650	98506451	60632212	1869	79034											
PDAP1	11333	broad.mit.edu	37	chr7	99002549	99002549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcttgtatactgcctcGcccggcctttgtggcctccc	3	11	11	16	2	0	0	0	0	0	0	2	0	1	0	5	3	2	2	5	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:99002549G>A	uc003uqe.2	-	2	162	c.41C>T	c.(40-42)GCG>GTG	p.A14V		NM_014891	NP_055706	Q13442	HAP28_HUMAN	PDGFA associated protein 1	14					cell proliferation|signal transduction						0	all_cancers(62;3.49e-09)|all_epithelial(64;2.57e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)		Becaplermin(DB00102)	ATACTGCCTCGCCCGGCCTTT	0.632													8	50					0	0	1	0	0		A	99002549	A	A	99002549	3	1	151	1	0	0	0	0	1	0	0	0	11632	1087	38	1	524	1	PDAP1	7	99002549	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	496098	99002549	60136114	1870	79035											
ZNF789	285989	broad.mit.edu	37	chr7	99084556	99084556	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcaagccttcagacagcgGtcagctcttacggtccataa	10	8	11	12	2	3	1	2	0	1	1	4	1	4	1	2	3	4	2	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:99084556G>A	uc003uqq.1	+	5	942	c.723G>A	c.(721-723)CGG>CGA	p.R241R	ZNF789_uc010lfw.1_Silent_p.R146R|ZNF789_uc003uqr.1_Silent_p.R183R	NM_213603	NP_998768	Q5FWF6	ZN789_HUMAN	zinc finger protein 789 isoform 1	241	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					TCAGACAGCGGTCAGCTCTTA	0.443													34	123					0	0	1	0	0		A	99084556	A	A	99084556	2	1	151	1	0	0	0	0	0	0	0	1	18185	1248	44	4		4	ZNF789	7	99084556	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	82007	99084556	60054107	1871	79036											
ZNF394	84124	broad.mit.edu	37	chr7	99091161	99091161	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgctgggattataggcgTgagccaccacgcccagccga	10	6	13	12	3	0	1	0	1	0	0	0	3	0	2	4	2	3	1	4	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:99091161T>C	uc003uqs.2	-	3	1838	c.1677A>G	c.(1675-1677)TCA>TCG	p.S559S	ZNF394_uc003uqt.2_Silent_p.S352S	NM_032164	NP_115540	Q53GI3	ZN394_HUMAN	zinc finger protein 394	559					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					attataggcgtgagccaccac	0.149													7	156					0	0	1	0	0		C	99091161	C	C	99091161	2	2	151	1	0	0	0	0	0	0	0	1	17905	1683	59	3		3	ZNF394	7	99091161	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6605	99091161	60047502	1872	79037											
CYP3A43	64816	broad.mit.edu	37	chr7	99441821	99441821	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatcccgacatgatcaaaAcagtgttagtgaaagaatgt	15	10	10	6	1	1	3	1	2	0	1	2	5	2	4	1	1	1	1	1	1	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:99441821A>G	uc003urx.1	+	4	377	c.274A>G	c.(274-276)ACA>GCA	p.T92A	CYP3A43_uc003ury.1_Missense_Mutation_p.T92A|CYP3A43_uc003urz.1_Missense_Mutation_p.T92A|CYP3A43_uc003usa.1_RNA|CYP3A43_uc010lgi.1_Intron|CYP3A43_uc003usb.1_Intron	NM_057095	NP_476436	Q9HB55	CP343_HUMAN	cytochrome P450, family 3, subfamily A,	92			Missing (in allele CYP3A43*2).		xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)				Cetirizine(DB00341)|Doxycycline(DB00254)	CATGATCAAAACAGTGTTAGT	0.378													17	66					0	0	1	0	0		G	99441821	G	G	99441821	3	3	151	1	0	0	0	0	1	0	0	0	4182	43	2	3	288	3	CYP3A43	7	99441821	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	350660	99441821	59696842	1873	79038											
TAF6	6878	broad.mit.edu	37	chr7	99707849	99707849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccagctcagccaagcctgCgatggagccataacgagtcg	10	6	11	14	3	1	0	1	0	0	0	3	3	2	1	4	1	6	1	4	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:99707849C>T	uc003uti.2	-	11	1213	c.1132G>A	c.(1132-1134)GCA>ACA	p.A378T	AP4M1_uc003utd.2_3'UTR|TAF6_uc003utg.2_Missense_Mutation_p.A300T|TAF6_uc003uth.2_Missense_Mutation_p.A435T|TAF6_uc003utk.2_Missense_Mutation_p.A378T|TAF6_uc011kji.1_Missense_Mutation_p.A415T|TAF6_uc003utj.2_Missense_Mutation_p.A368T|TAF6_uc003utl.2_Missense_Mutation_p.A378T|TAF6_uc003utm.2_Missense_Mutation_p.A378T|TAF6_uc003utn.1_RNA	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha	378					negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GCCAAGCCTGCGATGGAGCCA	0.537													42	160					0	0	1	0	0		T	99707849	T	T	99707849	3	4	151	1	0	0	0	0	1	0	0	0	15555	768	27	1	921	1	TAF6	7	99707849	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	266028	99707849	59430814	1874	79039											
STAG3	10734	broad.mit.edu	37	chr7	99779803	99779803	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagcagcaaaacgaccaccGaaaacaacaccggtgagtca	18	2	9	12	3	1	2	1	1	0	1	1	4	1	2	3	1	5	2	3	1	5	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:99779803G>A	uc003utx.1	+	3	362	c.207G>A	c.(205-207)CCG>CCA	p.P69P	STAG3_uc010lgs.1_5'UTR|STAG3_uc011kjk.1_Silent_p.P69P	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	69					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AACGACCACCGAAAACAACAC	0.358													14	50					0	0	1	0	0		A	99779803	A	A	99779803	2	1	151	1	0	0	0	0	0	0	0	1	15269	1045	37	1		1	STAG3	7	99779803	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	71954	99779803	59358860	1875	79040											
ZAN	7455	broad.mit.edu	37	chr7	100345207	100345207	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacactctcttctcaggacaAcctgggcccaactggcaggc	9	7	9	16	0	2	0	1	0	2	0	4	1	2	1	2	4	2	1	2	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:100345207A>G	uc003uwj.2	+	9	1131	c.966A>G	c.(964-966)CAA>CAG	p.Q322Q	ZAN_uc003uwk.2_Silent_p.Q322Q|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	322	MAM 2.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			TCTCAGGACAACCTGGGCCCA	0.517													20	78					0	0	1	0	0		G	100345207	G	G	100345207	2	3	151	1	0	0	0	0	0	0	0	1	17539	40	2	3		3	ZAN	7	100345207	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	565404	100345207	58793456	1876	79041											
SLC12A9	56996	broad.mit.edu	37	chr7	100459368	100459368	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctatacccaggtgcgtaagTatctgcttcggctggacgtc	7	11	11	12	3	1	0	0	0	1	0	3	1	1	1	2	3	3	4	2	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:100459368T>C	uc003uwp.2	+	12	1688	c.1546T>C	c.(1546-1548)TAT>CAT	p.Y516H	SLC12A9_uc003uwq.2_Missense_Mutation_p.Y427H|SLC12A9_uc011kki.1_Missense_Mutation_p.Y47H|SLC12A9_uc003uwr.2_Missense_Mutation_p.Y252H|SLC12A9_uc003uws.2_Missense_Mutation_p.Y47H|SLC12A9_uc003uwt.2_Missense_Mutation_p.Y252H|SLC12A9_uc003uwv.2_Missense_Mutation_p.Y47H	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	516	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					GGTGCGTAAGTATCTGCTTCG	0.652													14	76					0	0	1	0	0		C	100459368	C	C	100459368	3	2	151	1	0	0	0	0	1	0	0	0	14415	1638	57	3	1588	3	SLC12A9	7	100459368	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	114161	100459368	58679295	1877	79042											
SLC12A9	56996	broad.mit.edu	37	chr7	100463584	100463584	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagaatgtggtgctggcccGggccagcggggccttgcccc	5	6	16	14	2	0	1	0	0	0	1	0	1	0	1	5	5	3	1	5	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:100463584G>T	uc003uwp.2	+	14	2244	c.2102G>T	c.(2101-2103)CGG>CTG	p.R701L	SLC12A9_uc011kki.1_Missense_Mutation_p.R232L|SLC12A9_uc003uwr.2_Missense_Mutation_p.R437L|SLC12A9_uc003uws.2_Missense_Mutation_p.R232L|SLC12A9_uc003uwt.2_Missense_Mutation_p.R437L|SLC12A9_uc003uwv.2_Missense_Mutation_p.R232L|TRIP6_uc010lhk.1_5'Flank|TRIP6_uc003uww.2_5'Flank	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	701	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					GTGCTGGCCCGGGCCAGCGGG	0.711													13	60					2.21704e-12	2.2952e-12	1	1	0		T	100463584	T	T	100463584	3	4	151	1	0	0	0	0	1	0	0	0	14415	1116	39	5	2152	5	SLC12A9	7	100463584	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4216	100463584	58675079	1878	79043											
TRIP6	7205	broad.mit.edu	37	chr7	100468291	100468291	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggctgctttgtatgttctAcatgccgggcccagcttcgc	4	13	12	12	2	1	0	0	0	1	0	2	0	1	0	2	2	4	5	2	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:100468291A>G	uc003uww.2	+	6	1095	c.925A>G	c.(925-927)ACA>GCA	p.T309A	TRIP6_uc010lhk.1_RNA	NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6	309	LIM zinc-binding 1.				focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)					TGTATGTTCTACATGCCGGGC	0.627													5	82					0	0	1	0	0		G	100468291	G	G	100468291	3	3	151	1	0	0	0	0	1	0	0	0	16585	391	14	3	947	3	TRIP6	7	100468291	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4707	100468291	58670372	1879	79044											
SRRT	51593	broad.mit.edu	37	chr7	100482368	100482368	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcttaccataggctgagaAtgacagttctaatgatgaca	13	12	8	8	0	2	4	0	4	2	1	3	5	2	4	1	1	1	2	1	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:100482368A>G	uc003uwy.2	+	9	1218	c.950A>G	c.(949-951)AAT>AGT	p.N317S	SRRT_uc010lhl.1_Missense_Mutation_p.N317S|SRRT_uc003uxa.2_Missense_Mutation_p.N317S|SRRT_uc003uwz.2_Missense_Mutation_p.N317S	NM_015908	NP_056992	Q9BXP5	SRRT_HUMAN	arsenate resistance protein 2 isoform a	317	Glu-rich.				cell proliferation|primary miRNA processing|response to arsenic-containing substance	cytoplasm|nucleoplasm	protein binding			ovary(2)	2						TAGGCTGAGAATGACAGTTCT	0.507													8	37					0	0	1	0	0		G	100482368	G	G	100482368	3	3	151	1	0	0	0	0	1	0	0	0	15197	101	4	3	976	3	SRRT	7	100482368	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	14077	100482368	58656295	1880	79045											
MUC17	140453	broad.mit.edu	37	chr7	100676723	100676723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctacaactgcggaaggtAccagcatgccaacctcaact	12	8	7	14	1	2	0	1	0	1	0	2	1	2	1	3	2	8	2	3	2	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:100676723A>G	uc003uxp.1	+	3	2079	c.2026A>G	c.(2026-2028)ACC>GCC	p.T676A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	676	Extracellular (Potential).|9.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TGCGGAAGGTACCAGCATGCC	0.493													13	505					0	0	1	0	0		G	100676723	G	G	100676723	3	3	151	1	0	0	0	0	1	0	0	0	9992	391	14	3	2036	3	MUC17	7	100676723	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	194355	100676723	58461940	1881	79046											
CUX1	1523	broad.mit.edu	37	chr7	101925200	101925200	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacacactgttcctgcactgCctggtcttcctggtgagtgt	5	14	10	12	0	1	1	0	1	1	0	3	1	3	1	3	2	3	2	3	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:101925200C>T	uc003uyt.2	+	21	1909	c.1890C>T	c.(1888-1890)TGC>TGT	p.C630C	CUX1_uc011kkn.1_Silent_p.C591C|CUX1_uc003uyw.2_Silent_p.C584C|CUX1_uc003uyv.2_Silent_p.C614C|CUX1_uc003uyu.2_Silent_p.C628C|CUX1_uc003uyz.2_RNA	NM_001913	NP_001904	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform b	Error:Variant_position_missing_in_P39880_after_alignment					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						TCCTGCACTGCCTGGTCTTCC	0.642													7	28					0	0	1	0	0		T	101925200	T	T	101925200	2	4	151	1	0	0	0	0	0	0	0	1	4067	747	26	2		2	CUX1	7	101925200	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1248477	101925200	57213463	1882	79047											
LRWD1	222229	broad.mit.edu	37	chr7	102113440	102113440	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggccaatgcctccttcAcctacctcaccgccctgacg	6	9	8	18	2	2	1	2	1	0	0	3	1	3	1	7	2	2	0	7	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:102113440A>G	uc003uzn.2	+	15	2026	c.1888A>G	c.(1888-1890)ACC>GCC	p.T630A	LRWD1_uc003uzo.2_Missense_Mutation_p.T478A	NM_152892	NP_690852	Q9UFC0	LRWD1_HUMAN	leucine-rich repeats and WD repeat domain	630	WD 5.				chromatin modification|DNA-dependent DNA replication initiation|establishment of protein localization to chromatin|G1 phase of mitotic cell cycle	centromeric heterochromatin|nuclear origin of replication recognition complex|telomeric heterochromatin	chromatin binding|methyl-CpG binding|methylated histone residue binding			skin(1)	1						TGCCTCCTTCACCTACCTCAC	0.592													9	73					0	0	1	0	0		G	102113440	G	G	102113440	3	3	151	1	0	0	0	0	1	0	0	0	9065	159	6	3	1946	3	LRWD1	7	102113440	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	188240	102113440	57025223	1883	79048											
LRRC17	10234	broad.mit.edu	37	chr7	102574928	102574928	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggaatttggggaactacGccaagtgtgaaagtccacaa	14	7	11	9	2	0	1	0	1	0	0	1	3	1	3	3	3	2	0	3	3	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:102574928G>T	uc003vau.2	+	2	957	c.568G>T	c.(568-570)GCC>TCC	p.A190S	FBXL13_uc010liq.1_Intron|FBXL13_uc003vaq.2_Intron|FBXL13_uc010lir.1_Intron|FBXL13_uc003var.2_Intron|FBXL13_uc003vas.2_Intron|LRRC17_uc003vat.2_Missense_Mutation_p.A190S	NM_001031692	NP_001026862	Q8N6Y2	LRC17_HUMAN	leucine rich repeat containing 17 isoform 1	190	LRRCT 1.				bone marrow development|negative regulation of osteoclast differentiation|ossification	extracellular space				ovary(1)	1						GGGGAACTACGCCAAGTGTGA	0.413													39	128					9.8876e-21	1.03268e-20	1	1	0		T	102574928	T	T	102574928	3	4	151	1	0	0	0	0	1	0	0	0	8991	1087	38	5	570	5	LRRC17	7	102574928	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	461488	102574928	56563735	1884	79049											
FBXL13	222235	broad.mit.edu	37	chr7	102669859	102669859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggcttttatcatcaattccgGagtcatctaaagtaaataaa	15	13	6	7	1	4	0	3	0	1	0	5	1	5	1	1	2	0	2	1	2	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:102669859G>A	uc003vaq.2	-	3	434	c.7C>T	c.(7-9)CCG>TCG	p.P3S	FBXL13_uc010lir.1_Missense_Mutation_p.P3S|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Missense_Mutation_p.P3S|FBXL13_uc003vav.2_RNA	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	3											0						ATCAATTCCGGAGTCATCTAA	0.303													7	22					0	0	1	0	0		A	102669859	A	A	102669859	3	1	151	1	0	0	0	0	1	0	0	0	5723	1174	41	4	2272	4	FBXL13	7	102669859	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	94931	102669859	56468804	1885	79050											
ARMC10	83787	broad.mit.edu	37	chr7	102738781	102738781	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttccctttatgacagccaCgtagcaaaggagattcttct	10	13	7	11	1	2	2	0	1	2	1	3	3	3	2	2	1	2	2	2	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:102738781C>T	uc003vaw.1	+	7	1205	c.813C>T	c.(811-813)CAC>CAT	p.H271H	ARMC10_uc003vay.1_Silent_p.H212H|ARMC10_uc003vax.1_Silent_p.H236H|ARMC10_uc003vbb.1_Silent_p.H177H|ARMC10_uc011kli.1_Silent_p.H212H|ARMC10_uc010lis.1_Silent_p.H153H|ARMC10_uc003vba.1_RNA|ARMC10_uc003vaz.1_Silent_p.H149H	NM_031905	NP_114111	Q8N2F6	ARM10_HUMAN	SVH protein isoform a	271					regulation of growth	endoplasmic reticulum membrane|integral to membrane	binding	p.H271Y(1)		ovary(1)	1						ATGACAGCCACGTAGCAAAGG	0.328													11	49					0	0	1	0	0		T	102738781	T	T	102738781	2	4	151	1	0	0	0	0	0	0	0	1	951	535	19	1		1	ARMC10	7	102738781	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	68922	102738781	56399882	1886	79051											
DNAJC2	27000	broad.mit.edu	37	chr7	102963071	102963071	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatccttggatcacagctgtAtgcattgtctagcaaaagaa	13	12	8	8	0	2	1	1	0	1	1	3	2	3	2	1	1	3	4	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:102963071A>G	uc003vbo.2	-	9	1071	c.820T>C	c.(820-822)TAC>CAC	p.Y274H	PMPCB_uc011kll.1_Intron|DNAJC2_uc003vbn.2_5'UTR|DNAJC2_uc010lix.2_Missense_Mutation_p.Y274H|DNAJC2_uc003vbp.2_5'UTR	NM_014377	NP_055192	Q99543	DNJC2_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 2	274					'de novo' cotranslational protein folding|chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane	chromatin binding|DNA binding|histone binding|Hsp70 protein binding|ubiquitin binding			kidney(1)	1						TCACAGCTGTATGCATTGTCT	0.194													18	66					0	0	1	0	0		G	102963071	G	G	102963071	3	3	151	1	0	0	0	0	1	0	0	0	4645	449	16	3	1081	3	DNAJC2	7	102963071	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	224290	102963071	56175592	1887	79052											
SLC26A5	375611	broad.mit.edu	37	chr7	103029793	103029793	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccagctctattttgctggTtctccagaaaaaggggagat	11	12	10	8	0	2	2	0	0	2	2	3	3	2	2	2	3	3	3	2	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:103029793T>C	uc003vbz.2	-	13	1626	c.1390A>G	c.(1390-1392)ACC>GCC	p.T464A	SLC26A5_uc003vbt.1_Missense_Mutation_p.T464A|SLC26A5_uc003vbu.1_Missense_Mutation_p.T464A|SLC26A5_uc003vbv.1_Intron|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Intron|SLC26A5_uc003vby.2_Intron|SLC26A5_uc010liy.2_Intron	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	464	Extracellular (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						ATTTTGCTGGTTCTCCAGAAA	0.413													21	98					0	0	1	0	0		C	103029793	C	C	103029793	3	2	151	1	0	0	0	0	1	0	0	0	14545	1725	60	3	917	3	SLC26A5	7	103029793	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	66722	103029793	56108870	1888	79053											
SLC26A5	375611	broad.mit.edu	37	chr7	103033447	103033447	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgaaaatccaacgatggcTatggcaatggcatctacgta	14	9	9	9	2	1	1	0	1	1	0	2	2	2	1	1	3	2	4	1	3	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:103033447T>C	uc003vbz.2	-	10	1274	c.1038A>G	c.(1036-1038)ATA>ATG	p.I346M	SLC26A5_uc003vbt.1_Missense_Mutation_p.I346M|SLC26A5_uc003vbu.1_Missense_Mutation_p.I346M|SLC26A5_uc003vbv.1_Intron|SLC26A5_uc003vbw.2_Intron|SLC26A5_uc003vbx.2_Missense_Mutation_p.I346M|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_RNA	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	346	Helical; Name=8; (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						CAACGATGGCTATGGCAATGG	0.478													27	112					0	0	1	0	0		C	103033447	C	C	103033447	3	2	151	1	0	0	0	0	1	0	0	0	14545	1512	53	3	1281	3	SLC26A5	7	103033447	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3654	103033447	56105216	1889	79054											
RELN	5649	broad.mit.edu	37	chr7	103179593	103179593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaaggaatcctcattcacgGcaacgtctgtgctgaccacg	10	8	11	12	3	3	1	2	1	1	0	4	3	4	3	2	3	2	2	2	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:103179593G>A	uc003vca.2	-	45	7272	c.7112C>T	c.(7111-7113)GCC>GTC	p.A2371V	RELN_uc010liz.2_Missense_Mutation_p.A2371V	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2371					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CTCATTCACGGCAACGTCTGT	0.547													21	77					0	0	1	0	0		A	103179593	A	A	103179593	3	1	151	1	0	0	0	0	1	0	0	0	13245	1203	42	2	3354	2	RELN	7	103179593	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	146146	103179593	55959070	1890	79055											
MLL5	55904	broad.mit.edu	37	chr7	104707256	104707256	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaacgttgtcagcctaggTaagttgcacatatctgataa	12	12	10	7	1	2	2	1	2	1	0	2	2	2	2	1	1	3	4	1	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:104707256T>C	uc003vcm.2	+	6	1031	c.497_splice	c.e6+2	p.R166_splice	MLL5_uc010lja.1_Splice_Site_p.R20_splice|MLL5_uc010ljb.1_Splice_Site_p.R166_splice|MLL5_uc003vcl.2_Splice_Site_p.R166_splice|MLL5_uc010ljc.2_Splice_Site_p.R166_splice	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5						cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						TCAGCCTAGGTAAGTTGCACA	0.333													30	123					0	0	1	0	0		C	104707256	C	C	104707256	5	2	151	1	0	0	0	0	0	0	1	0	9642	1652	57	3	513	3	MLL5	7	104707256	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1527663	104707256	54431407	1891	79056											
SRPK2	6733	broad.mit.edu	37	chr7	104773245	104773245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccgtccttaccatacacGccgtgctccagatgtccgca	8	8	8	17	4	0	1	0	0	0	1	3	1	3	1	6	0	4	2	6	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:104773245G>A	uc003vct.2	-	12	1899	c.1712C>T	c.(1711-1713)GCG>GTG	p.A571V	SRPK2_uc003vcu.2_Missense_Mutation_p.A571V|SRPK2_uc003vcv.2_Missense_Mutation_p.A582V|SRPK2_uc003vcs.1_RNA	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	571	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TACCATACACGCCGTGCTCCA	0.557													3	17					0	0	1	0	0		A	104773245	A	A	104773245	3	1	151	1	0	0	0	0	1	0	0	0	15185	1087	38	1	370	1	SRPK2	7	104773245	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	65989	104773245	54365418	1892	79057											
SRPK2	6733	broad.mit.edu	37	chr7	104782498	104782498	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctgaaaccgttctgctTctgtcatgggatggactgct	7	12	13	9	1	3	1	1	1	2	0	3	4	3	3	1	3	3	4	1	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:104782498T>C	uc003vct.2	-	10	1654	c.1467A>G	c.(1465-1467)AGA>AGG	p.R489R	SRPK2_uc003vcu.2_Silent_p.R489R|SRPK2_uc003vcv.2_Silent_p.R500R|SRPK2_uc003vcw.1_Silent_p.R489R	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	489	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CCGTTCTGCTTCTGTCATGGG	0.522													25	99					0	0	1	0	0		C	104782498	C	C	104782498	2	2	151	1	0	0	0	0	0	0	0	1	15185	1780	62	3		3	SRPK2	7	104782498	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	9253	104782498	54356165	1893	79058											
PUS7	54517	broad.mit.edu	37	chr7	105111264	105111264	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttggtctttgcccattcTtctctgcatttaaccaagta	7	18	5	11	0	4	0	0	0	4	0	5	0	4	0	2	1	3	2	2	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:105111264T>G	uc003vcx.2	-	11	1488	c.1269A>C	c.(1267-1269)GAA>GAC	p.E423D	PUS7_uc010lji.2_Missense_Mutation_p.E429D|PUS7_uc003vcy.2_Missense_Mutation_p.E423D|PUS7_uc003vcz.1_Missense_Mutation_p.E423D	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog	423	TRUD.				pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						TTGCCCATTCTTCTCTGCATT	0.448													30	131					0	0	1	0	0		G	105111264	G	G	105111264	3	3	151	1	0	0	0	0	1	0	0	0	12858	1606	56	5	740	5	PUS7	7	105111264	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	328766	105111264	54027399	1894	79059											
PIK3CG	5294	broad.mit.edu	37	chr7	106508581	106508581	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggaggtggccagccgcgAccccaagctctacgccatgc	7	4	14	16	4	1	0	0	0	1	0	1	2	1	1	5	4	4	1	5	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:106508581A>G	uc003vdv.3	+	2	660	c.575A>G	c.(574-576)GAC>GGC	p.D192G	PIK3CG_uc003vdu.2_Missense_Mutation_p.D192G|PIK3CG_uc003vdw.2_Missense_Mutation_p.D192G	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	192					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						GCCAGCCGCGACCCCAAGCTC	0.617													10	52					0	0	1	0	0		G	106508581	G	G	106508581	3	3	151	1	0	0	0	0	1	0	0	0	11935	275	10	3	577	3	PIK3CG	7	106508581	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1397317	106508581	52630082	1895	79060											
GPR22	2845	broad.mit.edu	37	chr7	107114534	107114534	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctcccattctggaaatcaAcatgcagtctgaatctaaca	13	12	5	11	0	5	1	1	1	4	0	6	2	5	2	1	1	3	1	1	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:107114534A>C	uc003vef.2	+	3	1375	c.29A>C	c.(28-30)AAC>ACC	p.N10T	COG5_uc003vec.2_Intron|COG5_uc003ved.2_Intron|COG5_uc003vee.2_Intron	NM_005295	NP_005286	Q99680	GPR22_HUMAN	G protein-coupled receptor 22	10	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(2)	2						CTGGAAATCAACATGCAGTCT	0.343													4	136					0	0	1	0	0		C	107114534	C	C	107114534	3	2	151	1	0	0	0	0	1	0	0	0	6697	43	2	5	31	5	GPR22	7	107114534	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	605953	107114534	52024129	1896	79061											
SLC26A4	5172	broad.mit.edu	37	chr7	107334918	107334918	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaagcttctggaaccctTgcagaaggtataaccctgct	10	9	12	10	0	1	1	0	0	1	1	1	3	1	3	2	4	5	4	2	4	5	4	rs111033307		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:107334918T>C	uc003vep.2	+	11	1558	c.1334T>C	c.(1333-1335)TTG>TCG	p.L445S	SLC26A4_uc011kmb.1_Missense_Mutation_p.L32S|SLC26A4_uc011kmc.1_Intron|SLC26A4_uc011kmd.1_Missense_Mutation_p.L14S	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	445	Cytoplasmic (Potential).		L -> W (in PDS and DFNB4).		regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						CTGGAACCCTTGCAGAAGGTA	0.458									Pendred_syndrome				18	66					0	0	1	0	0		C	107334918	C	C	107334918	3	2	151	1	0	0	0	0	1	0	0	0	14544	1821	63	3	1372	3	SLC26A4	7	107334918	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	220384	107334918	51803745	1897	79062											
NRCAM	4897	broad.mit.edu	37	chr7	107808754	107808754	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catattcaacataaaagttcAcatgctctggtccctcatat	13	13	4	11	0	4	0	3	0	1	0	5	0	5	0	1	1	2	2	1	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:107808754A>G	uc003vfb.2	-	29	3752	c.3281T>C	c.(3280-3282)GTG>GCG	p.V1094A	NRCAM_uc003vfc.2_Intron|NRCAM_uc011kmk.1_Intron|NRCAM_uc003vfd.2_Intron|NRCAM_uc003vfe.2_Intron|NRCAM_uc011kmj.1_Intron	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	1094	Fibronectin type-III 5.|Extracellular (Potential).			HV -> YA (in Ref. 8; CAA04507).	angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						ATAAAAGTTCACATGCTCTGG	0.378													13	59					0	0	1	0	0		G	107808754	G	G	107808754	3	3	151	1	0	0	0	0	1	0	0	0	10663	159	6	3	683	3	NRCAM	7	107808754	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	473836	107808754	51329909	1898	79063											
LRRN3	54674	broad.mit.edu	37	chr7	110764636	110764637	+	Frame_Shift_Ins	INS	-	A	A																															accatctatcagaaaaacagINSaaaaaaatgtgtaaatgtca																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:110764636_110764637insA	uc003vft.3	+	4	2854_2855	c.1808_1809insA	c.(1807-1809)AGAfs	p.R603fs	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Frame_Shift_Ins_p.R603fs|LRRN3_uc003vfs.3_Frame_Shift_Ins_p.R603fs	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	603	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		CAGAAAAACAGAAAAAAATGTG	0.356													40	80	---	---	---	---						.	A	110764637	A	A	110764636	7	5	151	1	0	1	1	0	0	0	0	0	9054	942	33	0	1810	0	LRRN3	7	110764636	Frame_Shift_Ins	INS	-	TCGA-CG-5721-01A-11D-1600-08	2955882	110764636	48374027	1899	79064											
TMEM168	64418	broad.mit.edu	37	chr7	112423920	112423920	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggcagtcatttaatttggTatggaatccccaaagagtta	13	13	9	6	0	1	1	1	0	0	1	2	2	2	2	2	3	0	3	2	3	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:112423920T>C	uc003vgn.2	-	2	1353	c.961A>G	c.(961-963)ACC>GCC	p.T321A	TMEM168_uc010lju.2_Missense_Mutation_p.T321A|TMEM168_uc011kmr.1_Intron	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	321						integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						TTTAATTTGGTATGGAATCCC	0.348													60	300					0	0	1	0	0		C	112423920	C	C	112423920	3	2	151	1	0	0	0	0	1	0	0	0	16108	1638	57	3	1148	3	TMEM168	7	112423920	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1659284	112423920	46714743	1900	79065											
FOXP2	93986	broad.mit.edu	37	chr7	114270053	114270053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagcatcctggaaagcaagCgaaagaggtaggatccggtt	14	6	13	8	2	0	1	0	0	0	1	2	4	2	3	2	4	3	4	2	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:114270053C>T	uc003vhb.2	+	5	964	c.590C>T	c.(589-591)GCG>GTG	p.A197V	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Missense_Mutation_p.A222V|FOXP2_uc003vha.2_Missense_Mutation_p.A105V|FOXP2_uc011kmu.1_Missense_Mutation_p.A214V|FOXP2_uc011kmv.1_Missense_Mutation_p.A197V|FOXP2_uc010ljz.1_Missense_Mutation_p.A105V|FOXP2_uc003vgt.1_RNA|FOXP2_uc003vgv.1_Missense_Mutation_p.A197V|FOXP2_uc003vgx.2_Missense_Mutation_p.A197V|FOXP2_uc003vhd.2_Missense_Mutation_p.A197V|FOXP2_uc003vhc.2_Missense_Mutation_p.A222V	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	197	Gln-rich.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						GGAAAGCAAGCGAAAGAGGTA	0.244													20	79					0	0	1	0	0		T	114270053	T	T	114270053	3	4	151	1	0	0	0	0	1	0	0	0	6041	768	27	1	738	1	FOXP2	7	114270053	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1846133	114270053	44868610	1901	79066											
ST7	7982	broad.mit.edu	37	chr7	116859169	116859169	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcccttatcccttggaaaaGgggcacctattttatcctta	10	14	6	11	0	0	0	0	0	0	0	3	1	3	1	4	3	0	1	4	3	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:116859169G>A	uc003vin.2	+	14	1651	c.1437G>A	c.(1435-1437)AAG>AAA	p.K479K	ST7_uc011knl.1_Silent_p.K456K|ST7_uc003vio.2_Silent_p.K456K|ST7_uc003viq.2_Silent_p.K433K|ST7_uc011knm.1_Silent_p.K436K|ST7_uc003vir.2_Silent_p.K399K|ST7_uc011knn.1_Silent_p.K427K	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b	479						integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		CCTTGGAAAAGGGGCACCTAT	0.448													7	367					0	0	1	0	0		A	116859169	A	A	116859169	2	1	151	1	0	0	0	0	0	0	0	1	15254	991	35	4		4	ST7	7	116859169	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2589116	116859169	42279494	1902	79067											
KCND2	3751	broad.mit.edu	37	chr7	119915302	119915302	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcgcgaatgtggtggaaAcagtgccgtgcggatcaagc	10	8	14	9	4	2	0	2	0	0	0	3	3	2	2	1	3	4	0	1	3	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:119915302A>G	uc003vjj.1	+	1	1581	c.616A>G	c.(616-618)ACA>GCA	p.T206A		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	206					regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TGTGGTGGAAACAGTGCCGTG	0.562													3	85					0	0	1	0	0		G	119915302	G	G	119915302	3	3	151	1	0	0	0	0	1	0	0	0	8035	43	2	3	618	3	KCND2	7	119915302	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3056133	119915302	39223361	1903	79068											
ING3	54556	broad.mit.edu	37	chr7	120593419	120593419	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaatgcaaagaaaaataaAcctgagtggagggaagagca	20	5	12	4	0	0	4	0	2	0	2	0	6	0	6	1	2	3	2	1	2	7	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:120593419A>G	uc003vjn.2	+	3	296	c.162A>G	c.(160-162)AAA>AAG	p.K54K	ING3_uc011knr.1_Silent_p.K54K|ING3_uc003vjl.2_Silent_p.K54K|ING3_uc003vjm.1_Silent_p.K54K|ING3_uc003vjo.2_5'UTR|ING3_uc003vjp.2_Silent_p.K54K|ING3_uc011kns.1_Silent_p.K39K	NM_019071	NP_061944	Q9NXR8	ING3_HUMAN	inhibitor of growth family, member 3 isoform 1	54					histone H2A acetylation|histone H4 acetylation|positive regulation of apoptosis|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|Piccolo NuA4 histone acetyltransferase complex	zinc ion binding			ovary(1)	1	all_neural(327;0.117)					AGAAAAATAAACCTGAGTGGA	0.308													16	96					0	0	1	0	0		G	120593419	G	G	120593419	2	3	151	1	0	0	0	0	0	0	0	1	7753	40	2	3		3	ING3	7	120593419	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	678117	120593419	38545244	1904	79069											
PTPRZ1	5803	broad.mit.edu	37	chr7	121650430	121650430	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagaaggcgctattgtgAatcctggtagagacagtgct	11	11	13	6	1	0	4	0	2	0	2	1	5	1	4	1	2	1	3	1	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:121650430A>G	uc003vjy.2	+	12	1725	c.1330A>G	c.(1330-1332)AAT>GAT	p.N444D	PTPRZ1_uc003vjz.2_Missense_Mutation_p.N444D|PTPRZ1_uc011knt.1_5'UTR	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	444	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						CGCTATTGTGAATCCTGGTAG	0.388													25	121					0	0	1	0	0		G	121650430	G	G	121650430	3	3	151	1	0	0	0	0	1	0	0	0	12839	246	9	3	1376	3	PTPRZ1	7	121650430	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1057011	121650430	37488233	1905	79070											
AASS	10157	broad.mit.edu	37	chr7	121753238	121753238	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaattgggagctgtgcCggcaaattgtcaatggaaca	11	10	12	8	1	2	0	2	0	0	0	2	2	2	2	1	3	3	3	1	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:121753238C>T	uc003vka.2	-	10	1308	c.1212G>A	c.(1210-1212)CCG>CCA	p.P404P	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Silent_p.P404P|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	404	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	GGAGCTGTGCCGGCAAATTGT	0.408													22	79					0	0	1	0	0		T	121753238	T	T	121753238	2	4	151	1	0	0	0	0	0	0	0	1	24	639	23	1		1	AASS	7	121753238	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	102808	121753238	37385425	1906	79071											
FEZF1	389549	broad.mit.edu	37	chr7	121944256	121944256	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctcgtgtcgtaggccacaGgcacgaaggggatcatgcag	9	6	16	10	3	1	0	1	0	0	0	3	2	1	1	1	5	1	4	1	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:121944256G>T	uc003vkd.2	-	1	310	c.236C>A	c.(235-237)CCT>CAT	p.P79H	FEZF1_uc003vkc.2_Missense_Mutation_p.P79H|uc010lko.1_RNA|uc003vkf.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	79					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						GTAGGCCACAGGCACGAAGGG	0.572													11	41					0.105934	0.106306	1	1	0		T	121944256	T	T	121944256	3	4	151	1	0	0	0	0	1	0	0	0	5839	1000	35	5	1207	5	FEZF1	7	121944256	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	191018	121944256	37194407	1907	79072											
RNF133	168433	broad.mit.edu	37	chr7	122338722	122338722	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtattgggattacatgcaTtttggatttttccctctggt	6	19	10	6	0	1	0	0	0	1	0	2	2	2	2	1	4	2	2	1	4	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:122338722T>C	uc003vkj.1	-	1	487	c.251A>G	c.(250-252)AAT>AGT	p.N84S	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron	NM_139175	NP_631914	Q8WVZ7	RN133_HUMAN	ring finger protein 133	84	PA.					endoplasmic reticulum membrane|integral to membrane	ligase activity|zinc ion binding			skin(1)	1						ATTACATGCATTTTGGATTTT	0.443													6	244					0	0	1	0	0		C	122338722	C	C	122338722	3	2	151	1	0	0	0	0	1	0	0	0	13464	1493	52	3	883	3	RNF133	7	122338722	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	394466	122338722	36799941	1908	79073											
IQUB	154865	broad.mit.edu	37	chr7	123109382	123109382	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggctctgatggtgaactgCgtatccatctcaattgtttt	7	16	9	9	1	2	2	1	2	2	0	4	2	3	2	1	2	2	3	1	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:123109382C>T	uc003vkn.2	-	9	2044	c.1467G>A	c.(1465-1467)ACG>ACA	p.T489T	IQUB_uc003vko.2_Silent_p.T489T|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Silent_p.T489T	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	489										ovary(3)|large_intestine(1)	4						TGGTGAACTGCGTATCCATCT	0.343													51	128					0	0	1	0	0		T	123109382	T	T	123109382	2	4	151	1	0	0	0	0	0	0	0	1	7836	755	27	1		1	IQUB	7	123109382	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	770660	123109382	36029281	1909	79074											
ASB15	142685	broad.mit.edu	37	chr7	123256454	123256454	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggagtatgtaaaatataAatatgcaatggatgaagctg	17	10	10	4	0	0	1	0	1	0	0	0	3	0	3	1	2	2	4	1	2	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:123256454A>G	uc003vku.1	+	6	489	c.197A>G	c.(196-198)AAA>AGA	p.K66R	ASB15_uc003vkv.1_Missense_Mutation_p.K66R|ASB15_uc003vkw.1_Missense_Mutation_p.K66R	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	66					intracellular signal transduction					skin(2)|lung(1)	3						GTAAAATATAAATATGCAATG	0.383													24	78					0	0	1	0	0		G	123256454	G	G	123256454	3	3	151	1	0	0	0	0	1	0	0	0	1020	14	1	3	207	3	ASB15	7	123256454	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	147072	123256454	35882209	1910	79075											
SPAM1	6677	broad.mit.edu	37	chr7	123594255	123594255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaaattgggaaaattacttCggccaaatcacttgtggggt	13	12	10	6	1	1	0	1	0	0	0	2	1	1	1	1	4	1	0	1	4	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:123594255C>T	uc003vld.2	+	4	1033	c.631C>T	c.(631-633)CGG>TGG	p.R211W	SPAM1_uc003vle.2_Missense_Mutation_p.R211W|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.R211W|SPAM1_uc010lku.2_Missense_Mutation_p.R211W	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	211				R->G: Reduces activity by over 90%.	binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	AAAATTACTTCGGCCAAATCA	0.378													29	154					0	0	1	0	0		T	123594255	T	T	123594255	3	4	151	1	0	0	0	0	1	0	0	0	15011	875	31	1	633	1	SPAM1	7	123594255	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	337801	123594255	35544408	1911	79076											
SPAM1	6677	broad.mit.edu	37	chr7	123594523	123594523	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaaaaagtccacttccggTttttgcatatacccgcatag	11	12	7	11	2	0	0	0	0	0	0	2	0	2	0	3	1	3	4	3	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:123594523T>C	uc003vld.2	+	4	1301	c.899T>C	c.(898-900)GTT>GCT	p.V300A	SPAM1_uc003vle.2_Missense_Mutation_p.V300A|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.V300A|SPAM1_uc010lku.2_Missense_Mutation_p.V300A	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	300					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	CCACTTCCGGTTTTTGCATAT	0.408													24	82					0	0	1	0	0		C	123594523	C	C	123594523	3	2	151	1	0	0	0	0	1	0	0	0	15011	1725	60	3	901	3	SPAM1	7	123594523	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	268	123594523	35544140	1912	79077											
POT1	25913	broad.mit.edu	37	chr7	124503490	124503490	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcattggctgaacatcacAcaattttagtaatgtccaag	13	12	7	9	0	1	1	1	1	0	0	2	1	2	1	1	1	2	3	1	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:124503490A>G	uc003vlm.2	-	8	1061	c.460T>C	c.(460-462)TGT>CGT	p.C154R	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_Missense_Mutation_p.C23R|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	154					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						TGAACATCACACAATTTTAGT	0.398													6	177					0	0	1	0	0		G	124503490	G	G	124503490	3	3	151	1	0	0	0	0	1	0	0	0	12279	159	6	3	1492	3	POT1	7	124503490	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	908967	124503490	34635173	1913	79078											
GRM8	2918	broad.mit.edu	37	chr7	126409971	126409971	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctctttcccatcaatggtActcattcgtggacaaaggcc	10	11	8	12	1	3	0	2	0	1	0	5	1	4	1	2	3	2	2	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:126409971A>G	uc003vlr.2	-	6	1616	c.1305T>C	c.(1303-1305)AGT>AGC	p.S435S	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.S435S|GRM8_uc010lkz.1_RNA|GRM8_uc003vlu.1_Silent_p.S156S	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	435	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	CATCAATGGTACTCATTCGTG	0.408										HNSCC(24;0.065)			28	162					0	0	1	0	0		G	126409971	G	G	126409971	2	3	151	1	0	0	0	0	0	0	0	1	6819	388	14	3		3	GRM8	7	126409971	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1906481	126409971	32728692	1914	79079											
ATP6V1F	9296	broad.mit.edu	37	chr7	128505435	128505435	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatctctccccacaggcaaTttctaaaccgggatgacatt	11	11	6	13	1	3	1	1	1	2	0	5	2	4	2	3	2	1	1	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:128505435T>C	uc003voc.1	+	2	224	c.163T>C	c.(163-165)TTT>CTT	p.F55L	KCP_uc003vob.1_Intron	NM_004231	NP_004222	Q16864	VATF_HUMAN	ATPase, H+ transporting, lysosomal 14kD, V1	55					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|membrane fraction|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATPase activity, uncoupled|hydrogen ion transporting ATP synthase activity, rotational mechanism|protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)	1						CCACAGGCAATTTCTAAACCG	0.602													8	40					0	0	1	0	0		C	128505435	C	C	128505435	3	2	151	1	0	0	0	0	1	0	0	0	1186	1493	52	3	169	3	ATP6V1F	7	128505435	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2095464	128505435	30633228	1915	79080											
TNPO3	23534	broad.mit.edu	37	chr7	128655045	128655045	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttactcaccaatagagatacTactgtactagagtagaaggc	15	10	8	8	0	1	3	1	0	0	3	1	4	1	3	1	1	4	2	1	1	9	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:128655045T>C	uc003vol.1	-	4	914	c.540A>G	c.(538-540)GTA>GTG	p.V180V	TNPO3_uc003vom.1_Silent_p.V114V|TNPO3_uc010lly.1_Silent_p.V180V|TNPO3_uc010llz.1_Silent_p.V180V	NM_012470	NP_036602	Q9Y5L0	TNPO3_HUMAN	transportin 3	180					splicing factor protein import into nucleus	cytoplasm|nucleus	protein binding|receptor activity			ovary(2)|skin(2)|lung(1)	5						ATAGAGATACTACTGTACTAG	0.373													7	173					0	0	1	0	0		C	128655045	C	C	128655045	2	2	151	1	0	0	0	0	0	0	0	1	16362	1509	53	3		3	TNPO3	7	128655045	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	149610	128655045	30483618	1916	79081											
FAM40B	57464	broad.mit.edu	37	chr7	129098164	129098164	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtctgctggtgatggagaaCgaaccttggatggagagcta	11	9	15	6	1	1	3	0	1	1	2	1	7	1	4	1	4	4	2	1	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:129098164C>T	uc011koy.1	+	10	1187	c.1147C>T	c.(1147-1149)CGA>TGA	p.R383*	FAM40B_uc003vow.2_Nonsense_Mutation_p.R383*|FAM40B_uc011koz.1_Translation_Start_Site	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	383											0						TGATGGAGAACGAACCTTGGA	0.572													7	39					0	0	1	0	0		T	129098164	T	T	129098164	4	4	151	1	0	0	0	0	0	1	0	0	5575	528	19	1	1185	1	FAM40B	7	129098164	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	443119	129098164	30040499	1917	79082											
FAM40B	57464	broad.mit.edu	37	chr7	129102882	129102882	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acagccttccgcagtatatgGtaaggagatggctaggccag	11	8	13	9	1	0	1	0	0	0	1	1	2	1	1	3	4	1	4	3	4	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:129102882G>T	uc011koy.1	+	14	1591	c.1551_splice	c.e14+1	p.M517_splice	FAM40B_uc003vow.2_Splice_Site_p.M517_splice|FAM40B_uc011koz.1_Splice_Site_p.M9_splice	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a												0						GCAGTATATGGTAAGGAGATG	0.498													20	84					1.96292e-10	2.0225e-10	1	1	0		T	129102882	T	T	129102882	5	4	151	1	0	0	0	0	0	0	1	0	5575	1275	44	5	1606	5	FAM40B	7	129102882	Splice_Site	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4718	129102882	30035781	1918	79083											
MEST	4232	broad.mit.edu	37	chr7	130138019	130138019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttgagcaggccagcatcGtggaagcgcttttgcggcat	8	11	13	9	3	0	1	0	1	0	0	1	2	0	2	1	3	4	4	1	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:130138019G>A	uc003vqg.2	+	5	596	c.379G>A	c.(379-381)GTG>ATG	p.V127M	MEST_uc003vqc.2_Missense_Mutation_p.V118M|MEST_uc003vqd.2_Missense_Mutation_p.V118M|MEST_uc003vqf.2_Missense_Mutation_p.V118M|MEST_uc011kph.1_Missense_Mutation_p.V113M|MEST_uc010lmg.2_Missense_Mutation_p.V127M	NM_002402	NP_002393	Q5EB52	MEST_HUMAN	mesoderm specific transcript isoform a	127					mesoderm development	endoplasmic reticulum membrane|integral to membrane	hydrolase activity|protein binding			ovary(2)	2	Melanoma(18;0.0435)					GGCCAGCATCGTGGAAGCGCT	0.507													42	98					0	0	1	0	0		A	130138019	A	A	130138019	3	1	151	1	0	0	0	0	1	0	0	0	9502	1145	40	1	397	1	MEST	7	130138019	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1035137	130138019	29000644	1919	79084											
PLXNA4	91584	broad.mit.edu	37	chr7	131982902	131982902	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccttggagaaggccataTcccggaggactgggccgggg	7	6	18	10	2	0	1	0	0	0	1	2	4	2	3	4	8	0	0	4	8	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:131982902T>C	uc003vra.3	-	4	1680	c.1451A>G	c.(1450-1452)GAT>GGT	p.D484G		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	484	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GAAGGCCATATCCCGGAGGAC	0.572													20	76					0	0	1	0	0		C	131982902	C	C	131982902	3	2	151	1	0	0	0	0	1	0	0	0	12141	1435	50	3	4349	3	PLXNA4	7	131982902	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1844883	131982902	27155761	1920	79085											
LRGUK	136332	broad.mit.edu	37	chr7	133859333	133859333	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagctgagagaaatagaatAcattaaaaatttacccatcc	18	10	6	7	0	0	4	0	2	0	2	1	5	1	4	2	0	3	1	2	0	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:133859333A>G	uc003vrm.1	+	8	981	c.965A>G	c.(964-966)TAC>TGC	p.Y322C		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	322	LRR 9.						ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						GAAATAGAATACATTAAAAAT	0.333													37	123					0	0	1	0	0		G	133859333	G	G	133859333	3	3	151	1	0	0	0	0	1	0	0	0	8961	391	14	3	995	3	LRGUK	7	133859333	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1876431	133859333	25279330	1921	79086											
CALD1	800	broad.mit.edu	37	chr7	134650055	134650055	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctgcttcctttttatcAggacttgagaccaggagacg	8	15	9	9	1	2	2	1	1	1	2	3	5	3	3	2	2	1	1	2	2	1	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:134650055A>G	uc003vrz.2	+	14	2755	c.2296_splice	c.e14-2	p.D766_splice	CALD1_uc003vsa.2_Splice_Site_p.D537_splice|CALD1_uc003vsb.2_Splice_Site_p.D511_splice|CALD1_uc010lmm.2_Splice_Site_p.D536_splice|CALD1_uc011kpt.1_Splice_Site_p.D285_splice|CALD1_uc003vsc.2_Splice_Site_p.D531_splice|CALD1_uc003vsd.2_Splice_Site_p.D505_splice|CALD1_uc011kpu.1_Splice_Site_p.D516_splice|CALD1_uc011kpv.1_Splice_Site_p.D375_splice|CALD1_uc003vse.2_Splice_Site_p.D629_splice|CALD1_uc010lmn.2_Splice_Site	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1						cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						CCTTTTTATCAGGACTTGAGA	0.413													5	141					0	0	1	0	0		G	134650055	G	G	134650055	5	3	151	1	0	0	0	0	0	0	1	0	2584	202	7	3	2397	3	CALD1	7	134650055	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	790722	134650055	24488608	1922	79087											
PTN	5764	broad.mit.edu	37	chr7	136938333	136938333	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtctccactggtgggcAcacacacactccactgccat	10	7	7	17	0	1	0	0	0	1	0	3	0	2	0	3	2	1	1	3	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:136938333A>G	uc003vtq.2	-	3	530	c.167T>C	c.(166-168)GTG>GCG	p.V56A	PTN_uc010lmx.2_Missense_Mutation_p.V56A|PTN_uc003vtr.1_Missense_Mutation_p.V56A	NM_002825	NP_002816	P21246	PTN_HUMAN	pleiotrophin	56					nervous system development|positive regulation of cell division|positive regulation of cell proliferation|transmembrane receptor protein tyrosine phosphatase signaling pathway	endoplasmic reticulum|extracellular space	growth factor activity|heparin binding|protein phosphatase inhibitor activity			upper_aerodigestive_tract(1)|pancreas(1)	2						ACTGGTGGGCACACACACACT	0.498													6	33					0	0	1	0	0		G	136938333	G	G	136938333	3	3	151	1	0	0	0	0	1	0	0	0	12791	159	6	3	351	3	PTN	7	136938333	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2288278	136938333	22200330	1923	79088											
KIAA1549	57670	broad.mit.edu	37	chr7	138601633	138601633	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcaggggaggagcagcActactctctggggggctctg	7	7	18	9	0	2	0	0	0	2	0	3	3	2	2	0	7	3	4	0	7	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:138601633A>G	uc011kql.1	-	2	2788	c.2739T>C	c.(2737-2739)AGT>AGC	p.S913S	KIAA1549_uc003vuk.3_Silent_p.S863S|KIAA1549_uc011kqj.1_Silent_p.S913S	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	913						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GAGGAGCAGCACTACTCTCTG	0.617			O	BRAF	pilocytic astrocytoma								8	27					0	0	1	0	0		G	138601633	G	G	138601633	2	3	151	1	0	0	0	0	0	0	0	1	8260	156	6	3		3	KIAA1549	7	138601633	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1663300	138601633	20537030	1924	79089											
HIPK2	28996	broad.mit.edu	37	chr7	139315945	139315945	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatatggtgagtccgtgTcacggttgaaaaacctagtt	12	11	12	6	2	1	2	1	2	0	0	2	3	2	3	2	3	1	2	2	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:139315945T>C	uc003vvf.3	-	4	1487	c.1313A>G	c.(1312-1314)GAC>GGC	p.D438G	HIPK2_uc003vvd.3_Missense_Mutation_p.D438G	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	438	Protein kinase.|Interaction with DAXX.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					TGAGTCCGTGTCACGGTTGAA	0.488													7	36					0	0	1	0	0		C	139315945	C	C	139315945	3	2	151	1	0	0	0	0	1	0	0	0	7133	1667	58	3	2331	3	HIPK2	7	139315945	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	714312	139315945	19822718	1925	79090											
BRAF	673	broad.mit.edu	37	chr7	140434564	140434564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagcagctcaatagaggCgagaatctacaaaaaaaaaa	20	4	9	8	1	2	2	1	0	1	2	2	3	2	2	1	2	3	2	1	2	9	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:140434564C>T	uc003vwc.3	-	18	2195	c.2134G>A	c.(2134-2136)GCC>ACC	p.A712T		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	712	Protein kinase.				activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCAATAGAGGCGAGAATCTAC	0.284		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				28	100					0	0	1	0	0		T	140434564	T	T	140434564	3	4	151	1	0	0	0	0	1	0	0	0	1499	768	27	1	170	1	BRAF	7	140434564	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1118619	140434564	18704099	1926	79091											
BRAF	673	broad.mit.edu	37	chr7	140534520	140534520	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaactgaaagagatgaaggTagcactgaaaggctagaaga	20	5	12	4	0	0	6	0	3	0	3	0	7	0	6	0	2	2	3	0	2	8	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:140534520T>C	uc003vwc.3	-	3	454	c.393A>G	c.(391-393)CTA>CTG	p.L131L		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	131					activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	GAGATGAAGGTAGCACTGAAA	0.438		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				43	132					0	0	1	0	0		C	140534520	C	C	140534520	2	2	151	1	0	0	0	0	0	0	0	1	1499	1625	57	3		3	BRAF	7	140534520	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	99956	140534520	18604143	1927	79092											
SSBP1	6742	broad.mit.edu	37	chr7	141443490	141443490	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgatcaggggatagtgaagTttaccaactgggtgagtaca	12	9	14	6	1	1	2	1	2	0	0	1	4	1	3	1	3	3	2	1	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:141443490T>C	uc003vwo.1	+	4	293	c.215T>C	c.(214-216)GTT>GCT	p.V72A	SSBP1_uc011kri.1_Missense_Mutation_p.V72A|SSBP1_uc010lnp.1_Missense_Mutation_p.V72A	NM_003143	NP_003134	Q04837	SSBP_HUMAN	single-stranded DNA binding protein 1 precursor	72	SSB.				DNA replication|positive regulation of helicase activity	mitochondrial nucleoid	single-stranded DNA binding			ovary(1)	1	Melanoma(164;0.0171)					GATAGTGAAGTTTACCAACTG	0.373													31	113					0	0	1	0	0		C	141443490	C	C	141443490	3	2	151	1	0	0	0	0	1	0	0	0	15204	1725	60	3	225	3	SSBP1	7	141443490	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	908970	141443490	17695173	1928	79093											
MGAM	8972	broad.mit.edu	37	chr7	141731569	141731569	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgagctttttcacaatcaAgtagagtttgatggaatctg	11	16	9	5	0	3	3	2	2	1	1	3	4	3	4	0	1	1	3	0	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:141731569A>G	uc003vwy.2	+	13	1614	c.1560A>G	c.(1558-1560)CAA>CAG	p.Q520Q		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	520	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	TTCACAATCAAGTAGAGTTTG	0.378													28	141					0	0	1	0	0		G	141731569	G	G	141731569	2	3	151	1	0	0	0	0	0	0	0	1	9559	69	3	3		3	MGAM	7	141731569	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	288079	141731569	17407094	1929	79094											
PRSS1	5644	broad.mit.edu	37	chr7	142460323	142460323	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgcctggatgctcctgtgCtgagccaggctaagtgtgaa	8	10	14	9	0	0	2	0	2	0	0	1	3	1	3	3	2	4	3	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:142460323C>T	uc003wak.2	+	4	513	c.496C>T	c.(496-498)CTG>TTG	p.L166L	uc011krr.1_Intron|uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|TRY6_uc011ksn.1_Intron|PRSS1_uc003wam.2_Silent_p.L106L	NM_002769	NP_002760	P07477	TRY1_HUMAN	protease, serine, 1 preproprotein	166	Peptidase S1.				digestion|proteolysis	extracellular space	metal ion binding|protein binding|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)			TGCTCCTGTGCTGAGCCAGGC	0.532									Hereditary_Pancreatitis				56	379					0	0	1	0	0		T	142460323	T	T	142460323	2	4	151	1	0	0	0	0	0	0	0	1	12636	796	28	2		2	PRSS1	7	142460323	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	728754	142460323	16678340	1930	79095											
TRPV6	55503	broad.mit.edu	37	chr7	142574268	142574268	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtctgtcgtaggacagcaAcaggttgtacatctggcagg	10	10	13	8	1	2	0	0	0	2	0	3	1	2	1	0	4	3	5	0	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:142574268A>G	uc003wbx.1	-	6	871	c.655T>C	c.(655-657)TTG>CTG	p.L219L	TRPV6_uc003wbw.1_Silent_p.L5L|TRPV6_uc010lou.1_Silent_p.L90L	NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	219	Cytoplasmic (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					TAGGACAGCAACAGGTTGTAC	0.562													5	80					0	0	1	0	0		G	142574268	G	G	142574268	2	3	151	1	0	0	0	0	0	0	0	1	16626	40	2	3		3	TRPV6	7	142574268	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	113945	142574268	16564395	1931	79096											
CASP2	835	broad.mit.edu	37	chr7	142989724	142989724	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttacagttgagctgtgactaCgacttgagtctcccttttcc	7	15	8	11	1	1	3	0	3	1	0	3	4	2	3	2	0	3	2	2	0	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:142989724C>T	uc003wco.2	+	4	555	c.408C>T	c.(406-408)TAC>TAT	p.Y136Y	CASP2_uc003wcp.2_Intron|CASP2_uc011kta.1_Silent_p.Y20Y|CASP2_uc003wcq.2_RNA	NM_032982	NP_116764	P42575	CASP2_HUMAN	caspase 2 isoform 1 preproprotein	136					apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|protein maturation by peptide bond cleavage	cytosol	cysteine-type endopeptidase activity|enzyme binding|protein binding|protein domain specific binding			lung(2)|ovary(1)	3	Melanoma(164;0.059)					GCTGTGACTACGACTTGAGTC	0.473													16	86					0	0	1	0	0		T	142989724	T	T	142989724	2	4	151	1	0	0	0	0	0	0	0	1	2674	547	19	1		1	CASP2	7	142989724	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	415456	142989724	16148939	1932	79097											
CASP2	835	broad.mit.edu	37	chr7	142991808	142991808	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggaccacagtactctagTcaccctcttcaagcttttgg	8	13	8	12	0	4	0	2	0	2	0	4	1	4	1	2	2	2	2	2	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:142991808T>C	uc003wco.2	+	6	836	c.689T>C	c.(688-690)GTC>GCC	p.V230A	CASP2_uc003wcp.2_3'UTR|CASP2_uc011kta.1_Missense_Mutation_p.V114A|CASP2_uc003wcq.2_RNA	NM_032982	NP_116764	P42575	CASP2_HUMAN	caspase 2 isoform 1 preproprotein	230					apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|protein maturation by peptide bond cleavage	cytosol	cysteine-type endopeptidase activity|enzyme binding|protein binding|protein domain specific binding			lung(2)|ovary(1)	3	Melanoma(164;0.059)					AGTACTCTAGTCACCCTCTTC	0.498													8	79					0	0	1	0	0		C	142991808	C	C	142991808	3	2	151	1	0	0	0	0	1	0	0	0	2674	1667	58	3	711	3	CASP2	7	142991808	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2084	142991808	16146855	1933	79098											
EPHA1	2041	broad.mit.edu	37	chr7	143095474	143095474	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcttcggggccgggacccCgcccaggtcagctctagttg	4	7	16	14	3	2	0	1	0	1	0	3	1	2	1	4	5	1	3	4	5	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:143095474C>T	uc003wcz.2	-	7	1491	c.1404G>A	c.(1402-1404)GCG>GCA	p.A468A		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	468	Extracellular (Potential).|Fibronectin type-III 2.					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				GCCGGGACCCCGCCCAGGTCA	0.582													19	67					0	0	1	0	0		T	143095474	T	T	143095474	2	4	151	1	0	0	0	0	0	0	0	1	5173	639	23	1		1	EPHA1	7	143095474	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	103666	143095474	16043189	1934	79099											
ARHGEF5	7984	broad.mit.edu	37	chr7	144068315	144068315	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtctaaacatagctgtggAtcatttccaactttcaactt	12	14	5	10	0	3	0	2	0	1	0	4	1	4	1	1	1	4	1	1	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:144068315A>G	uc003wel.2	+	6	3711	c.3593A>G	c.(3592-3594)GAT>GGT	p.D1198G	ARHGEF5_uc003wek.2_Missense_Mutation_p.D1198G|ARHGEF5_uc003wem.2_Missense_Mutation_p.D53G	NM_005435	NP_005426	Q12774	ARHG5_HUMAN	rho guanine nucleotide exchange factor 5	1198	DH.				intracellular signal transduction|regulation of Rho protein signal transduction	intracellular	GTP binding|protein binding|Rho guanyl-nucleotide exchange factor activity			skin(2)	2	Melanoma(164;0.14)					ATAGCTGTGGATCATTTCCAA	0.483													11	207					0	0	1	0	0		G	144068315	G	G	144068315	3	3	151	1	0	0	0	0	1	0	0	0	909	333	12	3	3611	3	ARHGEF5	7	144068315	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	972841	144068315	15070348	1935	79100											
C7orf33	202865	broad.mit.edu	37	chr7	148288118	148288118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcccagtggggcaaggcGccggattgaccttcgcctga	6	7	14	14	3	0	2	0	2	0	0	1	3	0	3	5	4	1	1	5	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:148288118G>A	uc003wew.2	+	1	462	c.101G>A	c.(100-102)CGC>CAC	p.R34H		NM_145304	NP_660347	Q8WU49	CG033_HUMAN	hypothetical protein LOC202865	34										central_nervous_system(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GGGGCAAGGCGCCGGATTGAC	0.567													28	82					0	0	1	0	0		A	148288118	A	A	148288118	3	1	151	1	0	0	0	0	1	0	0	0	2391	1087	38	1	103	1	C7orf33	7	148288118	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4219803	148288118	10850545	1936	79101											
ZNF398	57541	broad.mit.edu	37	chr7	148875952	148875952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagtgacttttactcagttgGgtagctatcccctcccacct	8	13	7	13	0	1	1	1	1	0	0	3	1	3	1	4	1	2	3	4	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:148875952G>A	uc003wfl.2	+	6	1263	c.988G>A	c.(988-990)GGT>AGT	p.G330S	ZNF398_uc011kul.1_Missense_Mutation_p.G159S|ZNF398_uc011kum.1_Missense_Mutation_p.G335S	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	330					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			TACTCAGTTGGGTAGCTATCC	0.532													74	295					0	0	1	0	0		A	148875952	A	A	148875952	3	1	151	1	0	0	0	0	1	0	0	0	17910	1232	43	4	1010	4	ZNF398	7	148875952	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	587834	148875952	10262711	1937	79102											
ZNF212	7988	broad.mit.edu	37	chr7	148949824	148949824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccagacagagggagaagCggagttgggtacagagatgc	12	5	18	6	1	0	4	0	0	0	4	0	7	0	5	1	4	3	2	1	4	2	2	rs150585649	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:148949824C>T	uc003wfp.2	+	4	665	c.569C>T	c.(568-570)GCG>GTG	p.A190V		NM_012256	NP_036388	Q9UDV6	ZN212_HUMAN	zinc finger protein 212	190	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)			GAGGGAGAAGCGGAGTTGGGT	0.567													9	44					0	0	1	0	0		T	148949824	T	T	148949824	3	4	151	1	0	0	0	0	1	0	0	0	17793	768	27	1	583	1	ZNF212	7	148949824	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	73872	148949824	10188839	1938	79103											
ZNF777	27153	broad.mit.edu	37	chr7	149148196	149148196	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggtctggtttggaaatTgcatagtctaggcagaagaa	13	11	13	4	0	2	3	0	1	2	2	2	4	2	4	0	4	1	3	0	4	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:149148196T>C	uc003wfv.2	-	4	1144	c.981A>G	c.(979-981)GCA>GCG	p.A327A		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	327	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GTTTGGAAATTGCATAGTCTA	0.527													24	94					0	0	1	0	0		C	149148196	C	C	149148196	2	2	151	1	0	0	0	0	0	0	0	1	18175	1799	63	3		3	ZNF777	7	149148196	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	198372	149148196	9990467	1939	79104											
ZNF777	27153	broad.mit.edu	37	chr7	149152530	149152530	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctccagcttcctctccActgcttggacggcagcccac	5	8	10	18	1	1	0	0	0	1	0	4	1	3	1	5	3	3	3	5	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:149152530A>G	uc003wfv.2	-	2	747	c.584T>C	c.(583-585)GTG>GCG	p.V195A		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	195					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			CTTCCTCTCCACTGCTTGGAC	0.597													29	108					0	0	1	0	0		G	149152530	G	G	149152530	3	3	151	1	0	0	0	0	1	0	0	0	18175	159	6	3	1931	3	ZNF777	7	149152530	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4334	149152530	9986133	1940	79105											
ZNF746	155061	broad.mit.edu	37	chr7	149189961	149189961	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccttacctggactggggTccacaggaacatctggaatc	10	8	11	12	0	1	0	0	0	1	0	3	3	2	3	3	5	3	0	3	5	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:149189961T>C	uc003wfw.2	-	4	780	c.509A>G	c.(508-510)GAC>GGC	p.D170G	ZNF746_uc010lpi.2_Missense_Mutation_p.D170G	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2	170					negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			TGGACTGGGGTCCACAGGAAC	0.582													16	27					0	0	1	0	0		C	149189961	C	C	149189961	3	2	151	1	0	0	0	0	1	0	0	0	18154	1667	58	3	1444	3	ZNF746	7	149189961	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	37431	149189961	9948702	1941	79106											
ZNF746	155061	broad.mit.edu	37	chr7	149191542	149191542	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcgagcagcctgcgatTcaatcttcctctccatggcc	7	9	10	15	2	3	0	1	0	2	0	5	2	4	0	4	2	3	2	4	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:149191542T>C	uc003wfw.2	-	2	348	c.77A>G	c.(76-78)GAA>GGA	p.E26G	ZNF746_uc010lpi.2_Missense_Mutation_p.E26G	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2	26	Potential.				negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			AGCCTGCGATTCAATCTTCCT	0.537													19	85					0	0	1	0	0		C	149191542	C	C	149191542	3	2	151	1	0	0	0	0	1	0	0	0	18154	1783	62	3	1884	3	ZNF746	7	149191542	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1581	149191542	9947121	1942	79107											
SSPO	23145	broad.mit.edu	37	chr7	149480000	149480000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgctgagggcctcagtgtgCgccgagcttcctctgccttt	3	11	13	14	3	2	1	1	1	1	0	3	2	3	1	4	1	3	2	4	1	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:149480000C>T	uc010lpk.2	+	15	1966	c.1966C>T	c.(1966-1968)CGC>TGC	p.R656C	SSPO_uc010lpl.1_Intron	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	656	VWFD 2.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCTCAGTGTGCGCCGAGCTTC	0.662													5	19					0	0	1	0	0		T	149480000	T	T	149480000	3	4	151	1	0	0	0	0	1	0	0	0	15214	768	27	1	2022	1	SSPO	7	149480000	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	288458	149480000	9658663	1943	79108											
SSPO	23145	broad.mit.edu	37	chr7	149522125	149522125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtggggggttcaggctaCgctggagagaggcagaggcc	8	5	20	8	1	1	2	1	0	0	2	1	4	1	3	1	7	1	5	1	7	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:149522125C>T	uc010lpk.2	+	97	13912	c.13912C>T	c.(13912-13914)CGC>TGC	p.R4638C	SSPO_uc010lpm.1_RNA|SSPO_uc003wgg.2_Intron|SSPO_uc003wgh.2_RNA|SSPO_uc003wgi.1_Intron	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	4638	TSP type-1 23.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GTTCAGGCTACGCTGGAGAGA	0.642													6	12					0	0	1	0	0		T	149522125	T	T	149522125	3	4	151	1	0	0	0	0	1	0	0	0	15214	536	19	1	14288	1	SSPO	7	149522125	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	42125	149522125	9616538	1944	79109											
REPIN1	29803	broad.mit.edu	37	chr7	150069806	150069806	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctacgtctgccccgactgCggcaaagccttcagccagaa	9	6	9	17	3	2	1	1	0	1	1	2	2	2	1	5	1	5	1	5	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:150069806C>T	uc010lpq.1	+	4	1965	c.1476C>T	c.(1474-1476)TGC>TGT	p.C492C	REPIN1_uc003whd.2_Silent_p.C481C|REPIN1_uc010lpr.1_Silent_p.C549C|REPIN1_uc003whc.2_Silent_p.C492C|REPIN1_uc003whe.2_Silent_p.C492C	NM_013400	NP_037532	Q9BWE0	REPI1_HUMAN	replication initiator 1 isoform 1	492	C2H2-type 13.				DNA replication	nuclear origin of replication recognition complex	DNA binding|zinc ion binding			pancreas(1)	1	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)			GCCCCGACTGCGGCAAAGCCT	0.687													5	29					0	0	1	0	0		T	150069806	T	T	150069806	2	4	151	1	0	0	0	0	0	0	0	1	13252	776	27	1		1	REPIN1	7	150069806	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	547681	150069806	9068857	1945	79110											
ZNF775	285971	broad.mit.edu	37	chr7	150094516	150094516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtgccccgagtgcggccGccgcttcagccagaagccca	6	5	13	17	5	1	1	1	0	0	1	1	2	1	1	6	1	5	1	6	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:150094516G>A	uc003whf.1	+	3	1072	c.947G>A	c.(946-948)CGC>CAC	p.R316H		NM_173680	NP_775951	Q96BV0	ZN775_HUMAN	zinc finger protein 775	316	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.0173)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GAGTGCGGCCGCCGCTTCAGC	0.682													4	8					0	0	1	0	0		A	150094516	A	A	150094516	3	1	151	1	0	0	0	0	1	0	0	0	18173	1087	38	1	953	1	ZNF775	7	150094516	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	24710	150094516	9044147	1946	79111											
GIMAP8	155038	broad.mit.edu	37	chr7	150164279	150164279	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaagactatgagggccgaTactgcattttcaacaacaag	14	10	8	9	1	2	2	2	1	0	1	2	3	2	2	1	1	4	1	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:150164279T>C	uc003whj.2	+	2	823	c.493T>C	c.(493-495)TAC>CAC	p.Y165H		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	165						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		TGAGGGCCGATACTGCATTTT	0.453													30	125					0	0	1	0	0		C	150164279	C	C	150164279	3	2	151	1	0	0	0	0	1	0	0	0	6400	1406	49	3	495	3	GIMAP8	7	150164279	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	69763	150164279	8974384	1947	79112											
ACCN3	9311	broad.mit.edu	37	chr7	150746479	150746479	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactgtcgcttccgtggccaAccttgtgggcctgagaactt	6	11	12	12	2	0	1	0	1	0	1	2	3	1	1	4	2	2	1	4	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:150746479A>G	uc003win.2	+	1	875	c.507A>G	c.(505-507)CAA>CAG	p.Q169Q	ACCN3_uc003wio.2_Silent_p.Q169Q|ACCN3_uc003wip.2_Silent_p.Q169Q|ACCN3_uc003wiq.2_RNA	NM_004769	NP_004760	Q9UHC3	ACCN3_HUMAN	amiloride-sensitive cation channel 3 isoform a	169	Extracellular (Potential).				sensory perception|signal transduction	cytoplasm|integral to plasma membrane	ligand-gated sodium channel activity			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TCCGTGGCCAACCTTGTGGGC	0.617													7	63					0	0	1	0	0		G	150746479	G	G	150746479	2	3	151	1	0	0	0	0	0	0	0	1	130	40	2	3		3	ACCN3	7	150746479	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	582200	150746479	8392184	1948	79113											
SMARCD3	6604	broad.mit.edu	37	chr7	150936814	150936814	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttgagctggtttatggActcaatcgtctcatggatct	8	15	10	8	1	4	1	2	1	3	0	6	4	4	3	0	3	1	2	0	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:150936814A>G	uc003wjs.2	-	11	1293	c.1192T>C	c.(1192-1194)TCC>CCC	p.S398P	SMARCD3_uc003wjt.2_Missense_Mutation_p.S385P|SMARCD3_uc003wju.2_Missense_Mutation_p.S385P	NM_001003801	NP_001003801	Q6STE5	SMRD3_HUMAN	SWI/SNF related, matrix associated, actin	398					cellular lipid metabolic process|chromatin modification|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	nuclear hormone receptor binding|protein binding|transcription coactivator activity|transcription factor binding			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGGTTTATGGACTCAATCGTC	0.547													24	122					0	0	1	0	0		G	150936814	G	G	150936814	3	3	151	1	0	0	0	0	1	0	0	0	14804	275	10	3	271	3	SMARCD3	7	150936814	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	190335	150936814	8201849	1949	79114											
PRKAG2	51422	broad.mit.edu	37	chr7	151478262	151478262	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggagcgggagaaaaaccTgatgcccccgggcgaggtag	10	5	16	10	3	1	2	0	1	1	1	1	5	1	3	3	4	3	1	3	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:151478262T>C	uc003wkk.2	-	3	1053	c.442A>G	c.(442-444)AGG>GGG	p.R148G	PRKAG2_uc003wkj.2_Missense_Mutation_p.R104G|PRKAG2_uc010lqe.1_RNA|PRKAG2_uc003wkm.1_Missense_Mutation_p.R148G	NM_016203	NP_057287	Q9UGJ0	AAKG2_HUMAN	AMP-activated protein kinase gamma2 subunit	148					ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)		GAGAAAAACCTGATGCCCCCG	0.587													26	155					0	0	1	0	0		C	151478262	C	C	151478262	3	2	151	1	0	0	0	0	1	0	0	0	12523	1579	55	3	1323	3	PRKAG2	7	151478262	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	541448	151478262	7660401	1950	79115											
MLL3	58508	broad.mit.edu	37	chr7	151845715	151845715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctccgtggaccacagagCgcagttcaagtggacccaca	11	5	11	14	2	1	1	1	0	0	1	2	4	2	3	4	2	1	2	4	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:151845715C>T	uc003wla.2	-	52	13516	c.13297G>A	c.(13297-13299)GCT>ACT	p.A4433T	MLL3_uc003wkz.2_Missense_Mutation_p.A3551T|MLL3_uc003wkx.2_Missense_Mutation_p.A591T|MLL3_uc003wky.2_Missense_Mutation_p.A1997T	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4433					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding	p.A4433T(1)		large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GACCACAGAGCGCAGTTCAAG	0.483			N		medulloblastoma								39	113					0	0	1	0	0		T	151845715	T	T	151845715	3	4	151	1	0	0	0	0	1	0	0	0	9640	768	27	1	1470	1	MLL3	7	151845715	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	367453	151845715	7292948	1951	79116											
MLL3	58508	broad.mit.edu	37	chr7	151853312	151853312	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatggctcactaacactccGgcttttccagcaagttcttc	8	13	6	14	1	3	0	2	0	1	0	6	0	5	0	2	2	2	4	2	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:151853312G>A	uc003wla.2	-	45	12009	c.11790C>T	c.(11788-11790)GCC>GCT	p.A3930A	MLL3_uc003wkz.2_Silent_p.A3048A|MLL3_uc003wkx.2_Silent_p.A88A|MLL3_uc003wky.2_Silent_p.A1494A	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3930					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CTAACACTCCGGCTTTTCCAG	0.473			N		medulloblastoma								37	158					0	0	1	0	0		A	151853312	A	A	151853312	2	1	151	1	0	0	0	0	0	0	0	1	9640	1103	39	1		1	MLL3	7	151853312	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	7597	151853312	7285351	1952	79117											
MLL3	58508	broad.mit.edu	37	chr7	151859654	151859654	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctggcctgctgccatatTgggagtggatgggccgactg	6	10	16	9	1	0	0	0	0	0	0	0	3	0	2	3	4	3	2	3	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:151859654T>C	uc003wla.2	-	43	11227	c.11008A>G	c.(11008-11010)AAT>GAT	p.N3670D	MLL3_uc003wkz.2_Missense_Mutation_p.N2731D|MLL3_uc003wky.2_Missense_Mutation_p.N1179D	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3670					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GCTGCCATATTGGGAGTGGAT	0.488			N		medulloblastoma								17	119					0	0	1	0	0		C	151859654	C	C	151859654	3	2	151	1	0	0	0	0	1	0	0	0	9640	1812	63	3	3795	3	MLL3	7	151859654	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6342	151859654	7279009	1953	79118											
MLL3	58508	broad.mit.edu	37	chr7	151866269	151866269	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacttattagatttatacttActgacaaagcctggaccaaa	16	12	5	8	0	0	2	0	1	0	1	0	3	0	3	2	1	4	0	2	1	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:151866269A>G	uc003wla.2	-	41	9736	c.9517_splice	c.e41+1	p.N3173_splice	MLL3_uc003wkz.2_Splice_Site_p.N2234_splice|MLL3_uc003wky.2_Splice_Site_p.N682_splice	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3						intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ATTTATACTTACTGACAAAGC	0.358			N		medulloblastoma								22	100					0	0	1	0	0		G	151866269	G	G	151866269	5	3	151	1	0	0	0	0	0	0	1	0	9640	405	14	3	5292	3	MLL3	7	151866269	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6615	151866269	7272394	1954	79119											
MLL3	58508	broad.mit.edu	37	chr7	151919092	151919092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttcaaattttacctagctCttttacttttgtgacaattt	10	21	3	7	0	2	1	1	1	1	0	2	1	2	1	1	0	3	1	1	0	5	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:151919092C>T	uc003wla.2	-	22	3712	c.3493G>A	c.(3493-3495)GAG>AAG	p.E1165K	MLL3_uc003wkz.2_Missense_Mutation_p.E226K	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1165					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTACCTAGCTCTTTTACTTTT	0.308			N		medulloblastoma								5	165					0	0	1	0	0		T	151919092	T	T	151919092	3	4	151	1	0	0	0	0	1	0	0	0	9640	922	32	4	11394	4	MLL3	7	151919092	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	52823	151919092	7219571	1955	79120											
DPP6	1804	broad.mit.edu	37	chr7	154263973	154263973	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatatctccagatagagagtAtgcacttttttcatacaatg	14	14	6	7	0	2	2	1	0	1	2	3	3	2	2	1	0	2	2	1	0	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:154263973A>G	uc003wlk.2	+	5	728	c.599A>G	c.(598-600)TAT>TGT	p.Y200C	DPP6_uc003wli.2_Missense_Mutation_p.Y136C|DPP6_uc003wlj.2_Missense_Mutation_p.Y200C|DPP6_uc003wlm.2_Missense_Mutation_p.Y138C|DPP6_uc011kvq.1_Missense_Mutation_p.Y138C	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	200	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			GATAGAGAGTATGCACTTTTT	0.289													12	58					0	0	1	0	0		G	154263973	G	G	154263973	3	3	151	1	0	0	0	0	1	0	0	0	4736	449	16	3	733	3	DPP6	7	154263973	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2344881	154263973	4874690	1956	79121											
DPP6	1804	broad.mit.edu	37	chr7	154679440	154679440	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggacttgacaacagagcatAcgaggtgtgtatgggcacaa	13	8	13	7	1	0	2	0	1	0	1	0	4	0	3	0	3	3	3	0	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:154679440A>G	uc003wlk.2	+	23	2429	c.2300A>G	c.(2299-2301)TAC>TGC	p.Y767C	DPP6_uc003wli.2_Missense_Mutation_p.Y703C|DPP6_uc003wlm.2_Missense_Mutation_p.Y705C|DPP6_uc011kvq.1_Missense_Mutation_p.Y660C	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	767	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			AACAGAGCATACGAGGTGTGT	0.582													43	210					0	0	1	0	0		G	154679440	G	G	154679440	3	3	151	1	0	0	0	0	1	0	0	0	4736	391	14	3	2506	3	DPP6	7	154679440	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	415467	154679440	4459223	1957	79122											
PAXIP1	22976	broad.mit.edu	37	chr7	154748932	154748932	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatttaaggttattactcatAcctggctcttttggaagaag	12	15	8	6	0	2	1	1	0	1	1	2	2	2	2	1	3	2	2	1	3	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:154748932A>G	uc003wlp.2	-	14	2592	c.2549_splice	c.e14+1	p.R850_splice	PAXIP1_uc003wlq.1_Splice_Site_p.R816_splice|PAXIP1_uc011kvs.1_Splice_Site_p.R814_splice	NM_007349	NP_031375	Q6ZW49	PAXI1_HUMAN	PAX interacting protein 1						DNA damage response, signal transduction by p53 class mediator|DNA recombination|DNA repair|histone H3-K4 methylation|positive regulation of histone acetylation|positive regulation of histone H3-K36 methylation|positive regulation of histone H3-K4 methylation|positive regulation of isotype switching|positive regulation of protein ubiquitination|positive regulation of transcription initiation from RNA polymerase II promoter|response to ionizing radiation|transcription, DNA-dependent	histone methyltransferase complex|nuclear matrix				lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0296)	UCEC - Uterine corpus endometrioid carcinoma (81;0.178)		TATTACTCATACCTGGCTCTT	0.358													4	24					0	0	1	0	0		G	154748932	G	G	154748932	5	3	151	1	0	0	0	0	0	0	1	0	11506	405	14	3	690	3	PAXIP1	7	154748932	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	69492	154748932	4389731	1958	79123											
RBM33	155435	broad.mit.edu	37	chr7	155531064	155531064	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccaggcccaggacagccGtttctgcccacacacacaca	10	5	8	18	1	1	0	0	0	1	0	1	1	1	1	4	2	3	1	4	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:155531064G>A	uc010lqk.1	+	11	2072	c.1704G>A	c.(1702-1704)CCG>CCA	p.P568P	RBM33_uc011kvv.1_Silent_p.P377P	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	568	Pro-rich.						nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		CAGGACAGCCGTTTCTGCCCA	0.557													10	27					0	0	1	0	0		A	155531064	A	A	155531064	2	1	151	1	0	0	0	0	0	0	0	1	13155	1132	40	1		1	RBM33	7	155531064	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	782132	155531064	3607599	1959	79124											
RNF32	140545	broad.mit.edu	37	chr7	156437357	156437357	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagatacaaaggcaataatAgatactggacttaaaaaaac	22	7	7	5	0	0	2	0	0	0	2	0	4	0	3	0	2	3	1	0	2	10	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:156437357A>G	uc003wmo.2	+	3	362	c.180A>G	c.(178-180)ATA>ATG	p.I60M	RNF32_uc010lql.1_RNA|RNF32_uc010lqm.2_Missense_Mutation_p.I60M|RNF32_uc003wmp.2_Missense_Mutation_p.I60M|RNF32_uc003wmq.2_Missense_Mutation_p.I60M|RNF32_uc003wmr.2_Missense_Mutation_p.I60M|RNF32_uc003wms.2_Missense_Mutation_p.I60M|RNF32_uc003wmu.2_RNA|RNF32_uc003wmt.2_Missense_Mutation_p.I60M	NM_030936	NP_112198	Q9H0A6	RNF32_HUMAN	ring finger protein 32	60						aggresome|endosome	protein binding|zinc ion binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00291)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		AGGCAATAATAGATACTGGAC	0.368													12	96					0	0	1	0	0		G	156437357	G	G	156437357	3	3	151	1	0	0	0	0	1	0	0	0	13513	410	15	3	186	3	RNF32	7	156437357	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	906293	156437357	2701306	1960	79125											
UBE3C	9690	broad.mit.edu	37	chr7	157000100	157000100	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttaattcaaggtctatggTaccgttgcttcaggtgatat	9	16	9	7	1	3	1	2	1	1	0	3	1	3	1	1	3	2	3	1	3	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:157000100T>C	uc010lqs.2	+	12	1739	c.1427T>C	c.(1426-1428)GTA>GCA	p.V476A	UBE3C_uc003wng.2_Missense_Mutation_p.V476A	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	476					protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		AGGTCTATGGTACCGTTGCTT	0.323													55	225					0	0	1	0	0		C	157000100	C	C	157000100	3	2	151	1	0	0	0	0	1	0	0	0	16907	1638	57	3	1473	3	UBE3C	7	157000100	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	562743	157000100	2138563	1961	79126											
PTPRN2	5799	broad.mit.edu	37	chr7	157414139	157414139	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgggctccgcctggtaggcGcacagcgcttcccactcctt	4	10	11	16	3	0	0	0	0	0	0	3	0	3	0	4	3	1	4	4	3	1	4	rs77143062	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:157414139G>A	uc003wno.2	-	15	2380	c.2259C>T	c.(2257-2259)TGC>TGT	p.C753C	PTPRN2_uc003wnp.2_Silent_p.C736C|PTPRN2_uc003wnq.2_Silent_p.C724C|PTPRN2_uc003wnr.2_Silent_p.C715C|PTPRN2_uc011kwa.1_Silent_p.C776C	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	753	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CCTGGTAGGCGCACAGCGCTT	0.622													61	234					0	0	1	0	0		A	157414139	A	A	157414139	2	1	151	1	0	0	0	0	0	0	0	1	12833	1079	38	1		1	PTPRN2	7	157414139	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	414039	157414139	1724524	1962	79127											
NCAPG2	54892	broad.mit.edu	37	chr7	158472666	158472666	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgtacatagagctcttcaaActgtttctggatttcactat	11	15	6	9	1	4	1	2	0	2	1	4	2	4	2	0	1	3	3	0	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr7:158472666A>G	uc003wnv.1	-	11	1277	c.1132T>C	c.(1132-1134)TTT>CTT	p.F378L	NCAPG2_uc010lqu.1_Missense_Mutation_p.F170L|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.F378L|NCAPG2_uc011kwe.1_Missense_Mutation_p.F378L	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	378					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		AGCTCTTCAAACTGTTTCTGG	0.428													39	176					0	0	1	0	0		G	158472666	G	G	158472666	3	3	151	1	0	0	0	0	1	0	0	0	10227	43	2	3	2371	3	NCAPG2	7	158472666	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1058527	158472666	665997	1963	79128											
DLGAP2	9228	broad.mit.edu	37	chr8	1626408	1626408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttaaacgttctaacagcGtcacggccgccgtccaagct	9	10	9	13	5	2	0	1	0	1	0	3	0	3	0	3	1	4	3	3	1	4	4	rs34274599		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:1626408G>A	uc003wpl.2	+	9	2174	c.2077G>A	c.(2077-2079)GTC>ATC	p.V693I	DLGAP2_uc003wpm.2_Missense_Mutation_p.V679I	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	772					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		TTCTAACAGCGTCACGGCCGC	0.557													13	53					0	0	1	0	0		A	1626408	A	A	1626408	3	1	151	1	0	0	0	0	1	0	0	0	4566	1145	40	1	2107	1	DLGAP2	8	1626408	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08		1626408	144737614	1964	79129											
ARHGEF10	9639	broad.mit.edu	37	chr8	1893759	1893759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgctccgcctttttcacaCggaaactctcaagcacctgc	9	9	6	17	3	2	0	2	0	1	0	4	1	3	1	3	1	3	2	3	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:1893759C>T	uc003wpr.2	+	27	3513	c.3335C>T	c.(3334-3336)ACG>ATG	p.T1112M	ARHGEF10_uc003wps.2_Missense_Mutation_p.T1074M|ARHGEF10_uc010lre.2_Missense_Mutation_p.T763M	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	1137					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		CTTTTTCACACGGAAACTCTC	0.612													14	46					0	0	1	0	0		T	1893759	T	T	1893759	3	4	151	1	0	0	0	0	1	0	0	0	894	536	19	1	3437	1	ARHGEF10	8	1893759	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	267351	1893759	144470263	1965	79130											
CSMD1	64478	broad.mit.edu	37	chr8	3263618	3263618	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcaggtaatggactcggAtccctgggtcttgacaaagc	10	10	12	9	1	1	1	0	1	1	0	3	3	2	3	1	4	2	2	1	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:3263618A>G	uc011kwk.1	-	15	2590	c.2200T>C	c.(2200-2202)TCC>CCC	p.S734P	CSMD1_uc011kwj.1_Missense_Mutation_p.S126P	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	734	Sushi 4.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ATGGACTCGGATCCCTGGGTC	0.567													4	53					0	0	1	0	0		G	3263618	G	G	3263618	3	3	151	1	0	0	0	0	1	0	0	0	3947	333	12	3	8721	3	CSMD1	8	3263618	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1369859	3263618	143100404	1966	79131											
CSMD1	64478	broad.mit.edu	37	chr8	3265725	3265725	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaataatcccagatgatgcCgtaaagttgaagaaacatga	18	8	9	6	1	0	6	0	3	0	3	1	6	1	6	2	0	2	2	2	0	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:3265725C>T	uc011kwk.1	-	14	2160	c.1770G>A	c.(1768-1770)ACG>ACA	p.T590T	CSMD1_uc011kwj.1_5'UTR	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	590	Extracellular (Potential).|CUB 4.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CAGATGATGCCGTAAAGTTGA	0.383													9	21					0	0	1	0	0		T	3265725	T	T	3265725	2	4	151	1	0	0	0	0	0	0	0	1	3947	639	23	1		1	CSMD1	8	3265725	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2107	3265725	143098297	1967	79132											
MCPH1	79648	broad.mit.edu	37	chr8	6302320	6302320	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagtaaagagaaaaagagtAtcacatggctcccattcacc	16	8	7	10	0	3	2	3	0	0	2	4	3	4	2	2	1	0	3	2	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:6302320A>G	uc003wqi.2	+	8	1145	c.1077A>G	c.(1075-1077)GTA>GTG	p.V359V	MCPH1_uc003wqh.2_Silent_p.V359V|MCPH1_uc011kwl.1_Silent_p.V311V	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	359						microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		GAAAAAGAGTATCACATGGCT	0.458													10	49					0	0	1	0	0		G	6302320	G	G	6302320	2	3	151	1	0	0	0	0	0	0	0	1	9416	436	16	3		3	MCPH1	8	6302320	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3036595	6302320	140061702	1968	79133											
ANGPT2	285	broad.mit.edu	37	chr8	6360765	6360765	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaagttggaaggaccacAtgcatcaaaccaccagcctg	13	7	9	12	0	2	0	2	0	0	0	2	2	2	2	4	2	3	3	4	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:6360765A>G	uc003wqj.3	-	9	1677	c.1348T>C	c.(1348-1350)TGT>CGT	p.C450R	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.C449R|ANGPT2_uc010lri.2_Missense_Mutation_p.C398R	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	450	Fibrinogen C-terminal.				angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		GAAGGACCACATGCATCAAAC	0.458													15	67					0	0	1	0	0		G	6360765	G	G	6360765	3	3	151	1	0	0	0	0	1	0	0	0	611	217	8	3	146	3	ANGPT2	8	6360765	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	58445	6360765	140003257	1969	79134											
SGK223	157285	broad.mit.edu	37	chr8	8235521	8235521	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacacctcggaagctgcccAggtagacgacgggggcatcc	9	5	14	13	3	0	1	0	0	0	1	2	3	1	2	3	4	3	4	3	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:8235521A>G	uc003wsh.3	-	2	398	c.398T>C	c.(397-399)CTG>CCG	p.L133P		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	133							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GAAGCTGCCCAGGTAGACGAC	0.592													29	94					0	0	1	0	0		G	8235521	G	G	8235521	3	3	151	1	0	0	0	0	1	0	0	0	14235	188	7	3	3826	3	SGK223	8	8235521	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1874756	8235521	138128501	1970	79135											
CLDN23	137075	broad.mit.edu	37	chr8	8560303	8560303	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcggcctcatcccggTgtcctggtacaaccacttct	5	11	7	18	2	2	0	1	0	1	0	6	0	5	0	6	3	2	1	6	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:8560303T>G	uc003wsi.2	+	1	638	c.395T>G	c.(394-396)GTG>GGG	p.V132G		NM_194284	NP_919260	Q96B33	CLD23_HUMAN	claudin 23	132	Extracellular (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.071)|READ - Rectum adenocarcinoma(644;0.238)		CTCATCCCGGTGTCCTGGTAC	0.697													6	14					0	0	1	0	0		G	8560303	G	G	8560303	3	3	151	1	0	0	0	0	1	0	0	0	3487	1696	59	5	397	5	CLDN23	8	8560303	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	324782	8560303	137803719	1971	79136											
PPP1R3B	79660	broad.mit.edu	37	chr8	8998516	8998516	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtacgtctgtccattgcActcgtagtacacagcaaact	11	10	7	13	2	1	0	0	0	1	0	3	0	2	0	2	0	5	5	2	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:8998516A>G	uc003wsn.3	-	2	811	c.646T>C	c.(646-648)TGC>CGC	p.C216R	PPP1R3B_uc003wso.3_Missense_Mutation_p.C215R	NM_024607	NP_078883	Q86XI6	PPR3B_HUMAN	protein phosphatase 1, regulatory (inhibitor)	216	CBM21.				glycogen metabolic process					ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(149;0.0717)|READ - Rectum adenocarcinoma(644;0.241)		TGTCCATTGCACTCGTAGTAC	0.498													35	146					0	0	1	0	0		G	8998516	G	G	8998516	3	3	151	1	0	0	0	0	1	0	0	0	12394	159	6	3	215	3	PPP1R3B	8	8998516	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	438213	8998516	137365506	1972	79137											
TNKS	8658	broad.mit.edu	37	chr8	9609199	9609199	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaaacctcaggctactgtAgtgagtgcctctctgatctc	8	14	8	11	0	3	2	1	2	2	0	5	2	3	2	2	1	3	2	2	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:9609199A>G	uc003wss.2	+	19	2918	c.2913A>G	c.(2911-2913)GTA>GTG	p.V971V	TNKS_uc011kww.1_Silent_p.V734V|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	971					mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		AGGCTACTGTAGTGAGTGCCT	0.512													54	223					0	0	1	0	0		G	9609199	G	G	9609199	2	3	151	1	0	0	0	0	0	0	0	1	16344	407	15	3		3	TNKS	8	9609199	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	610683	9609199	136754823	1973	79138											
TNKS	8658	broad.mit.edu	37	chr8	9623891	9623891	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggaattggaggaggaacAggctgccctacacacaagga	14	6	13	8	0	0	0	0	0	0	0	0	5	0	5	1	6	3	1	1	6	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:9623891A>G	uc003wss.2	+	25	3701	c.3696A>G	c.(3694-3696)ACA>ACG	p.T1232T	TNKS_uc011kww.1_Silent_p.T995T	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1232	PARP catalytic.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		GAGGAGGAACAGGCTGCCCTA	0.448													20	145					0	0	1	0	0		G	9623891	G	G	9623891	2	3	151	1	0	0	0	0	0	0	0	1	16344	175	7	3		3	TNKS	8	9623891	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	14692	9623891	136740131	1974	79139											
RP1L1	94137	broad.mit.edu	37	chr8	10469723	10469723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggatgaagtgcaggtggAaggggtggaagaggctcctt	9	8	19	5	0	0	2	0	1	0	1	1	5	1	5	1	7	1	2	1	7	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:10469723A>G	uc003wtc.2	-	4	2114	c.1885T>C	c.(1885-1887)TCC>CCC	p.S629P		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	629					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GTGCAGGTGGAAGGGGTGGAA	0.662													11	67					0	0	1	0	0		G	10469723	G	G	10469723	3	3	151	1	0	0	0	0	1	0	0	0	13558	246	9	3	5321	3	RP1L1	8	10469723	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	845832	10469723	135894299	1975	79140											
PINX1	54984	broad.mit.edu	37	chr8	10677706	10677706	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtacgtggctttatacctcGggagtcttcttactctgtct	5	17	9	10	2	4	0	0	0	4	0	5	1	4	1	1	2	3	2	1	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:10677706G>A	uc003wth.2	-	6	501	c.468C>T	c.(466-468)CCC>CCT	p.P156P	SOX7_uc011kwz.1_Intron|PINX1_uc003wti.2_Intron	NM_017884	NP_060354	Q96BK5	PINX1_HUMAN	PIN2-interacting protein 1	156					mitotic metaphase plate congression|negative regulation of cell proliferation	chromosome, telomeric region|condensed chromosome kinetochore|mitochondrion|nuclear chromosome|nucleolus|spindle	protein binding|telomerase inhibitor activity|telomeric RNA binding			lung(1)|kidney(1)|skin(1)	3				Kidney(29;0.0595)|COAD - Colon adenocarcinoma(149;0.105)|KIRC - Kidney renal clear cell carcinoma(542;0.201)		TTTATACCTCGGGAGTCTTCT	0.403													7	36					0	0	1	0	0		A	10677706	A	A	10677706	2	1	151	1	0	0	0	0	0	0	0	1	11952	1103	39	1		1	PINX1	8	10677706	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	207983	10677706	135686316	1976	79141											
BLK	640	broad.mit.edu	37	chr8	11405571	11405571	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtggtggctctgtatgactAcaccgctatgaatgatcggg	8	11	13	9	3	1	3	0	3	1	0	2	3	1	3	1	3	1	3	1	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:11405571A>G	uc003wty.2	+	4	787	c.206A>G	c.(205-207)TAC>TGC	p.Y69C	BLK_uc003wtz.2_5'UTR	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	69	SH3.				intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		CTGTATGACTACACCGCTATG	0.567													13	97					0	0	1	0	0		G	11405571	G	G	11405571	3	3	151	1	0	0	0	0	1	0	0	0	1445	391	14	3	216	3	BLK	8	11405571	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	727865	11405571	134958451	1977	79142											
BLK	640	broad.mit.edu	37	chr8	11420560	11420560	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaccatcaaagcagacgTgtggtcgtttggagtcctcc	8	11	10	12	2	2	1	2	0	0	1	5	2	4	2	3	2	1	2	3	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:11420560T>C	uc003wty.2	+	12	1834	c.1253T>C	c.(1252-1254)GTG>GCG	p.V418A	BLK_uc003wtz.2_Missense_Mutation_p.V347A|BLK_uc003wua.2_Missense_Mutation_p.V254A	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	418	Protein kinase.				intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		AAAGCAGACGTGTGGTCGTTT	0.597													13	53					0	0	1	0	0		C	11420560	C	C	11420560	3	2	151	1	0	0	0	0	1	0	0	0	1445	1696	59	3	1295	3	BLK	8	11420560	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	14989	11420560	134943462	1978	79143											
USP17L2	377630	broad.mit.edu	37	chr8	11995092	11995092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtgtcttcagcgccgaggGctcttggttccctgcctctt	2	14	11	14	2	4	0	1	0	3	0	5	1	5	0	3	2	2	2	3	2	0	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:11995092G>A	uc003wvc.1	-	1	1178	c.1178C>T	c.(1177-1179)GCC>GTC	p.A393V	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	393					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3						AGCGCCGAGGGCTCTTGGTTC	0.557													19	83					0	0	1	0	0		A	11995092	A	A	11995092	3	1	151	1	0	0	0	0	1	0	0	0	17074	1203	42	2	418	2	USP17L2	8	11995092	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	574532	11995092	134368930	1979	79144											
DLC1	10395	broad.mit.edu	37	chr8	12957275	12957275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagttccttggggctgtcGctactgttttccctcctgag	3	16	10	12	1	1	1	1	1	0	0	5	1	4	1	3	2	1	4	3	2	1	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:12957275G>A	uc003wwm.2	-	9	3015	c.2571C>T	c.(2569-2571)AGC>AGT	p.S857S	DLC1_uc003wwk.1_Silent_p.S420S|DLC1_uc003wwl.1_Silent_p.S454S|DLC1_uc011kxx.1_Silent_p.S346S	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	857					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TGGGGCTGTCGCTACTGTTTT	0.582													12	24					0	0	1	0	0		A	12957275	A	A	12957275	2	1	151	1	0	0	0	0	0	0	0	1	4556	1078	38	1		1	DLC1	8	12957275	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	962183	12957275	133406747	1980	79145											
SLC7A2	6542	broad.mit.edu	37	chr8	17407891	17407891	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacgggaacgttggctggTgctgcaacttgcttttatgc	6	15	12	8	2	0	0	0	0	0	0	0	1	0	1	0	3	7	5	0	3	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:17407891T>C	uc011kyc.1	+	5	949	c.780T>C	c.(778-780)GGT>GGC	p.G260G	SLC7A2_uc011kyd.1_Silent_p.G300G|SLC7A2_uc011kye.1_Silent_p.G300G|SLC7A2_uc011kyf.1_Silent_p.G260G	NM_001008539	NP_001008539	P52569	CTR2_HUMAN	solute carrier family 7, member 2 isoform 2	260	Helical; (Potential).				cellular amino acid metabolic process|ion transport	cytoplasm|integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity			ovary(2)|skin(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	L-Lysine(DB00123)|L-Ornithine(DB00129)	CGTTGGCTGGTGCTGCAACTT	0.463													15	62					0	0	1	0	0		C	17407891	C	C	17407891	2	2	151	1	0	0	0	0	0	0	0	1	14722	1683	59	3		3	SLC7A2	8	17407891	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4450616	17407891	128956131	1981	79146											
XPO7	23039	broad.mit.edu	37	chr8	21856749	21856749	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcgtctctatggagacgAtgccctggacaatgctctgc	7	12	10	12	2	2	1	0	0	2	1	4	4	2	2	1	2	3	1	1	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:21856749A>G	uc003xaa.3	+	23	2678	c.2576A>G	c.(2575-2577)GAT>GGT	p.D859G	XPO7_uc010lti.2_Missense_Mutation_p.D868G|XPO7_uc010ltk.2_Missense_Mutation_p.D860G	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	859					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		TATGGAGACGATGCCCTGGAC	0.502													97	435					0	0	1	0	0		G	21856749	G	G	21856749	3	3	151	1	0	0	0	0	1	0	0	0	17475	333	12	3	2718	3	XPO7	8	21856749	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4448858	21856749	124507273	1982	79147											
XPO7	23039	broad.mit.edu	37	chr8	21857143	21857143	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggaacctcacgtcatcAtgtatattctctcttccatt	8	15	5	13	1	5	0	3	0	2	0	7	1	6	1	3	1	1	1	3	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:21857143A>G	uc003xaa.3	+	24	2842	c.2740A>G	c.(2740-2742)ATG>GTG	p.M914V	XPO7_uc010lti.2_Missense_Mutation_p.M923V|XPO7_uc010ltk.2_Missense_Mutation_p.M915V	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	914					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		TCACGTCATCATGTATATTCT	0.443													25	100					0	0	1	0	0		G	21857143	G	G	21857143	3	3	151	1	0	0	0	0	1	0	0	0	17475	217	8	3	2886	3	XPO7	8	21857143	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	394	21857143	124506879	1983	79148											
FAM160B2	64760	broad.mit.edu	37	chr8	21956814	21956814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggttgcggacgccttggCgaaggctgtggctgagaact	6	9	18	8	3	0	1	0	1	0	1	0	4	0	2	1	6	2	3	1	6	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:21956814C>T	uc011kyx.1	+	9	1145	c.1094C>T	c.(1093-1095)GCG>GTG	p.A365V	FAM160B2_uc011kyy.1_RNA	NM_022749	NP_073586	Q86V87	F16B2_HUMAN	retinoic acid induced 16	365											0						GACGCCTTGGCGAAGGCTGTG	0.562													12	30					0	0	1	0	0		T	21956814	T	T	21956814	3	4	151	1	0	0	0	0	1	0	0	0	5482	768	27	1	927	1	FAM160B2	8	21956814	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	99671	21956814	124407208	1984	79149											
RHOBTB2	23221	broad.mit.edu	37	chr8	22864617	22864617	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacaagatctacctctccAcctcttcctccaagttctat	9	12	2	18	0	4	1	0	0	4	1	7	1	6	1	6	0	1	1	6	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:22864617A>G	uc003xcq.2	+	5	1396	c.859A>G	c.(859-861)ACC>GCC	p.T287A	RHOBTB2_uc003xcp.2_Missense_Mutation_p.T309A|RHOBTB2_uc011kzp.1_Missense_Mutation_p.T294A|uc003xcr.2_RNA	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	287	BTB 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		CTACCTCTCCACCTCTTCCTC	0.657													5	137					0	0	1	0	0		G	22864617	G	G	22864617	3	3	151	1	0	0	0	0	1	0	0	0	13359	159	6	3	958	3	RHOBTB2	8	22864617	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	907803	22864617	123499405	1985	79150											
TNFRSF10B	8795	broad.mit.edu	37	chr8	22900649	22900649	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagagacccatcttgaacatAccaggtggacacaatccctc	13	8	7	13	0	1	2	0	1	1	1	3	4	2	3	3	2	2	0	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:22900649A>G	uc003xcu.2	-	2	543	c.250_splice	c.e2+1	p.G84_splice	TNFRSF10B_uc003xct.2_Splice_Site_p.G84_splice|TNFRSF10B_uc011kzq.1_Intron|TNFRSF10B_uc003xcv.2_Splice_Site	NM_003842	NP_003833	O14763	TR10B_HUMAN	tumor necrosis factor receptor superfamily,						activation of NF-kappaB-inducing kinase activity|activation of pro-apoptotic gene products|cell surface receptor linked signaling pathway|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|positive regulation of I-kappaB kinase/NF-kappaB cascade	plasma membrane	caspase activator activity|receptor activity|TRAIL binding				0		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0179)|COAD - Colon adenocarcinoma(73;0.0703)		TCTTGAACATACCAGGTGGAC	0.527													9	29					0	0	1	0	0		G	22900649	G	G	22900649	5	3	151	1	0	0	0	0	0	0	1	0	16306	405	14	3	1102	3	TNFRSF10B	8	22900649	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	36032	22900649	123463373	1986	79151											
CHMP7	91782	broad.mit.edu	37	chr8	23112844	23112844	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtcagagctcagcaccCtctgtgctaactcctgccca	7	9	7	18	0	3	1	2	0	1	1	4	1	4	1	4	0	5	3	4	0	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:23112844C>A	uc003xdc.2	+	4	1204	c.556C>A	c.(556-558)CTC>ATC	p.L186I	CHMP7_uc011kzs.1_RNA|CHMP7_uc003xdd.2_Missense_Mutation_p.L76I|CHMP7_uc003xde.2_Missense_Mutation_p.L44I	NM_152272	NP_689485	Q8WUX9	CHMP7_HUMAN	CHMP family, member 7	186					cellular membrane organization|late endosome to vacuole transport	cytosol|ESCRT III complex	protein transporter activity				0		Prostate(55;0.0513)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		GCTCAGCACCCTCTGTGCTAA	0.577													12	67					0.010729	0.0107826	1	1	0		A	23112844	A	A	23112844	3	1	151	1	0	0	0	0	1	0	0	0	3364	681	24	5	566	5	CHMP7	8	23112844	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	212195	23112844	123251178	1987	79152											
LOXL2	4017	broad.mit.edu	37	chr8	23174508	23174508	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tactgcactccgccctggggGcaggccacgtcctccccgtc	4	7	11	19	3	0	0	0	0	0	0	4	0	3	0	6	3	2	2	6	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:23174508G>A	uc003xdh.1	-	9	1929	c.1590C>T	c.(1588-1590)TGC>TGT	p.C530C	LOXL2_uc010lty.1_Silent_p.C69C	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	530	SRCR 4.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		CGCCCTGGGGGCAGGCCACGT	0.657													8	26					0	0	1	0	0		A	23174508	A	A	23174508	2	1	151	1	0	0	0	0	0	0	0	1	8918	1195	42	2		2	LOXL2	8	23174508	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	61664	23174508	123189514	1988	79153											
KCTD9	54793	broad.mit.edu	37	chr8	25287452	25287452	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacgttggaccctctcaggTtggcttcttgaagatcacac	8	12	9	12	1	4	2	3	1	2	1	5	3	4	3	1	3	0	3	1	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:25287452T>C	uc003xeo.2	-	12	1249	c.1091A>G	c.(1090-1092)AAC>AGC	p.N364S	PPP2R2A_uc003xek.2_Intron|KCTD9_uc011lad.1_RNA	NM_017634	NP_060104	Q7L273	KCTD9_HUMAN	potassium channel tetramerisation domain	364	Pentapeptide repeat 3.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		CCCTCTCAGGTTGGCTTCTTG	0.418													39	165					0	0	1	0	0		C	25287452	C	C	25287452	3	2	151	1	0	0	0	0	1	0	0	0	8132	1725	60	3	82	3	KCTD9	8	25287452	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2112944	25287452	121076570	1989	79154											
CDCA2	157313	broad.mit.edu	37	chr8	25364485	25364485	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtgtgaaagaaaggatgActtcttaggagctgcagaag	16	8	13	4	0	1	4	0	2	1	2	1	6	1	6	0	2	2	2	0	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:25364485A>G	uc003xep.1	+	15	2782	c.2303A>G	c.(2302-2304)GAC>GGC	p.D768G	PPP2R2A_uc003xek.2_Intron|CDCA2_uc011lae.1_3'UTR|CDCA2_uc003xeq.1_Missense_Mutation_p.D753G|CDCA2_uc003xer.1_Missense_Mutation_p.D431G	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	768					cell division|mitosis	cytoplasm|nucleus					0		all_cancers(63;0.0378)|Ovarian(32;0.000878)|all_epithelial(46;0.0162)|Breast(100;0.0164)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.022)|Epithelial(17;1.37e-11)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0443)		AGAAAGGATGACTTCTTAGGA	0.353													17	78					0	0	1	0	0		G	25364485	G	G	25364485	3	3	151	1	0	0	0	0	1	0	0	0	3089	275	10	3	2357	3	CDCA2	8	25364485	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	77033	25364485	120999537	1990	79155											
PTK2B	2185	broad.mit.edu	37	chr8	27297910	27297910	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgacccgctgctgggactAcgaccccagtgaccggcccc	7	5	11	18	3	0	2	0	2	0	0	0	4	0	3	6	2	2	2	6	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:27297910A>G	uc003xfn.1	+	26	2799	c.1991A>G	c.(1990-1992)TAC>TGC	p.Y664C	PTK2B_uc003xfo.1_Missense_Mutation_p.Y664C|PTK2B_uc003xfp.1_Missense_Mutation_p.Y664C|PTK2B_uc003xfq.1_Missense_Mutation_p.Y664C|PTK2B_uc003xfr.1_Missense_Mutation_p.Y410C	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	664	Protein kinase.				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		TGCTGGGACTACGACCCCAGT	0.647													14	64					0	0	1	0	0		G	27297910	G	G	27297910	3	3	151	1	0	0	0	0	1	0	0	0	12786	391	14	3	2069	3	PTK2B	8	27297910	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1933425	27297910	119066112	1991	79156											
EXTL3	2137	broad.mit.edu	37	chr8	28588840	28588840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgacgatgctcacctccGccatgacgaaatcatgtttg	10	11	9	11	3	2	3	2	3	0	0	3	5	3	3	3	0	1	2	3	0	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:28588840G>A	uc003xgz.1	+	4	2842	c.2249G>A	c.(2248-2250)CGC>CAC	p.R750H		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	750	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		GCTCACCTCCGCCATGACGAA	0.348													24	91					0	0	1	0	0		A	28588840	A	A	28588840	3	1	151	1	0	0	0	0	1	0	0	0	5335	1087	38	1	2255	1	EXTL3	8	28588840	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1290930	28588840	117775182	1992	79157											
KIF13B	23303	broad.mit.edu	37	chr8	28980934	28980934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagaggggaccatcaccGcgttcctctcctcagttagg	8	8	11	14	2	3	1	2	0	1	1	5	2	4	2	4	3	1	3	4	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:28980934G>A	uc003xhh.3	-	28	3487	c.3428C>T	c.(3427-3429)GCG>GTG	p.A1143V	uc003xhi.1_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1143	Potential.				microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		GACCATCACCGCGTTCCTCTC	0.542													47	150					0	0	1	0	0		A	28980934	A	A	28980934	3	1	151	1	0	0	0	0	1	0	0	0	8291	1087	38	1	2104	1	KIF13B	8	28980934	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	392094	28980934	117383088	1993	79158											
GSR	2936	broad.mit.edu	37	chr8	30560691	30560691	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggtgtactttttcccacTgacctctattgtgggcttgg	4	15	12	10	1	1	1	0	1	1	0	2	1	2	1	2	4	1	2	2	4	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:30560691T>C	uc003xih.1	-	5	650	c.559A>G	c.(559-561)AGT>GGT	p.S187G		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	187					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)	TTTTTCCCACTGACCTCTATT	0.517													38	155					0	0	1	0	0		C	30560691	C	C	30560691	3	2	151	1	0	0	0	0	1	0	0	0	6844	1580	55	3	1045	3	GSR	8	30560691	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1579757	30560691	115803331	1994	79159											
TEX15	56154	broad.mit.edu	37	chr8	30705316	30705316	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgaactgtcatgagctgtTtctatgttataagatgaaat	12	17	8	4	0	2	4	1	3	1	1	2	4	2	4	0	0	2	3	0	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:30705316T>C	uc003xil.2	-	1	1218	c.1218A>G	c.(1216-1218)GAA>GAG	p.E406E		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	406										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		CATGAGCTGTTTCTATGTTAT	0.348													46	224					0	0	1	0	0		C	30705316	C	C	30705316	2	2	151	1	0	0	0	0	0	0	0	1	15804	1838	64	3		3	TEX15	8	30705316	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	144625	30705316	115658706	1995	79160											
PURG	29942	broad.mit.edu	37	chr8	30889698	30889698	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccagtcccccgcatcatggTttgtctaatccgtaggaagc	8	10	10	13	2	2	0	1	0	1	0	4	1	4	1	4	2	1	3	4	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:30889698T>C	uc003xin.2	-	1	620	c.601A>G	c.(601-603)ACC>GCC	p.T201A	WRN_uc003xio.3_5'Flank|PURG_uc003xim.1_Missense_Mutation_p.T201A	NM_013357	NP_037489	Q9UJV8	PURG_HUMAN	purine-rich element binding protein G isoform A	201	By similarity.					nucleus	DNA binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.0895)|Kidney(114;0.108)		CGCATCATGGTTTGTCTAATC	0.458													17	115					0	0	1	0	0		C	30889698	C	C	30889698	3	2	151	1	0	0	0	0	1	0	0	0	12854	1725	60	3	555	3	PURG	8	30889698	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	184382	30889698	115474324	1996	79161											
WRN	7486	broad.mit.edu	37	chr8	30977830	30977830	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaagtcattcattacggTgctcctaaggacatggaatc	11	10	9	11	2	2	0	2	0	0	0	4	2	3	2	2	3	2	1	2	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:30977830T>G	uc003xio.3	+	21	3308	c.2520T>G	c.(2518-2520)GGT>GGG	p.G840G	WRN_uc010lvk.2_Silent_p.G307G	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	840	Helicase C-terminal.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		TTCATTACGGTGCTCCTAAGG	0.433			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				39	257					0	0	1	0	0		G	30977830	G	G	30977830	2	3	151	1	0	0	0	0	0	0	0	1	17428	1683	59	5		5	WRN	8	30977830	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	88132	30977830	115386192	1997	79162											
C8orf41	80185	broad.mit.edu	37	chr8	33369912	33369912	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccggcattccgcggagccGtgcaccagtcccctcaaata	8	7	9	17	4	1	0	1	0	0	0	4	1	4	1	6	2	2	2	6	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:33369912G>A	uc003xjl.3	-	1	745	c.220C>T	c.(220-222)CGG>TGG	p.R74W	C8orf41_uc003xjk.3_Missense_Mutation_p.R74W|C8orf41_uc010lvv.2_Missense_Mutation_p.R74W|C8orf41_uc003xjm.3_Missense_Mutation_p.R74W|C8orf41_uc003xjn.1_Missense_Mutation_p.R74W	NM_025115	NP_079391	Q6NXR4	CH041_HUMAN	hypothetical protein LOC80185	74							binding				0				KIRC - Kidney renal clear cell carcinoma(67;0.0923)|Kidney(114;0.111)		CCGCGGAGCCGTGCACCAGTC	0.542													20	130					0	0	1	0	0		A	33369912	A	A	33369912	3	1	151	1	0	0	0	0	1	0	0	0	2430	1144	40	1	1334	1	C8orf41	8	33369912	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2392082	33369912	112994110	1998	79163											
KCNU1	157855	broad.mit.edu	37	chr8	36766982	36766982	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaaggacatagtgttcAttgggtctctggactatcta	10	13	11	7	0	3	1	1	1	2	0	4	3	3	3	0	3	1	2	0	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:36766982A>C	uc010lvw.2	+	21	2347	c.2260A>C	c.(2260-2262)ATT>CTT	p.I754L	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	754	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		CATAGTGTTCATTGGGTCTCT	0.443													57	296					0	0	1	0	0		C	36766982	C	C	36766982	3	2	151	1	0	0	0	0	1	0	0	0	8109	217	8	5	2342	5	KCNU1	8	36766982	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3397070	36766982	109597040	1999	79164											
PROSC	11212	broad.mit.edu	37	chr8	37635559	37635559	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcgggattactcaaagaaAcccaccccggacaagtgcgc	13	4	11	13	3	1	1	1	0	0	1	1	4	1	3	3	2	4	0	3	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:37635559A>G	uc003xkh.2	+	8	842	c.765A>G	c.(763-765)AAA>AAG	p.K255K		NM_007198	NP_009129	O94903	PROSC_HUMAN	proline synthetase co-transcribed homolog	255							pyridoxal phosphate binding			central_nervous_system(1)	1		Lung NSC(58;0.174)	BRCA - Breast invasive adenocarcinoma(5;6.14e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)		L-Proline(DB00172)|Pyridoxal Phosphate(DB00114)	ACTCAAAGAAACCCACCCCGG	0.517													9	91					0	0	1	0	0		G	37635559	G	G	37635559	2	3	151	1	0	0	0	0	0	0	0	1	12581	40	2	3		3	PROSC	8	37635559	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	868577	37635559	108728463	2000	79165											
GPR124	25960	broad.mit.edu	37	chr8	37698297	37698297	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttctatttgatcgctggaGggattccactcattatctgt	7	16	10	8	1	3	1	1	1	2	0	5	3	4	3	1	3	0	2	1	3	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:37698297G>T	uc003xkj.2	+	18	3040	c.2677G>T	c.(2677-2679)GGG>TGG	p.G893W	GPR124_uc010lvy.2_Missense_Mutation_p.G676W	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	893	Helical; Name=4; (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			GATCGCTGGAGGGATTCCACT	0.562													5	33					3.59834e-05	3.64192e-05	1	1	0		T	37698297	T	T	37698297	3	4	151	1	0	0	0	0	1	0	0	0	6653	1000	35	5	2726	5	GPR124	8	37698297	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	62738	37698297	108665725	2001	79166											
GPR124	25960	broad.mit.edu	37	chr8	37699017	37699017	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtggtgtgcagctgcttgtAcggggtggcagcctccgccc	3	9	17	12	2	0	0	0	0	0	0	1	0	1	0	3	5	5	5	3	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:37699017A>G	uc003xkj.2	+	19	3524	c.3161A>G	c.(3160-3162)TAC>TGC	p.Y1054C	GPR124_uc010lvy.2_Missense_Mutation_p.Y837C	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	1054	Helical; Name=7; (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			AGCTGCTTGTACGGGGTGGCA	0.701													3	12					0	0	1	0	0		G	37699017	G	G	37699017	3	3	151	1	0	0	0	0	1	0	0	0	6653	391	14	3	3214	3	GPR124	8	37699017	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	720	37699017	108665005	2002	79167											
DDHD2	23259	broad.mit.edu	37	chr8	38092104	38092104	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcagccaagttttagaggTattcttttgactcttttttt	7	21	6	7	0	3	2	1	1	2	1	3	2	3	2	1	1	1	2	1	1	3	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:38092104T>C	uc003xlb.2	+	3	788	c.411_splice	c.e3+2	p.E137_splice	DDHD2_uc003xla.2_Splice_Site_p.E137_splice|DDHD2_uc003xlc.2_Splice_Site_p.E137_splice|DDHD2_uc011lbl.1_Splice_Site	NM_015214	NP_056029	O94830	DDHD2_HUMAN	DDHD domain containing 2 isoform 1						lipid catabolic process	centrosome	hydrolase activity|metal ion binding			large_intestine(1)|ovary(1)	2	Colorectal(12;0.000442)	all_lung(54;0.0657)|Lung NSC(58;0.175)	BRCA - Breast invasive adenocarcinoma(5;3.76e-25)|COAD - Colon adenocarcinoma(9;0.0977)			GTTTTAGAGGTATTCTTTTGA	0.348													36	163					0	0	1	0	0		C	38092104	C	C	38092104	5	2	151	1	0	0	0	0	0	0	1	0	4330	1652	57	3	419	3	DDHD2	8	38092104	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	393087	38092104	108271918	2003	79168											
LETM2	137994	broad.mit.edu	37	chr8	38250157	38250157	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttaaataagacatgtatgAagaactatgagagcaagaag	20	9	9	3	0	0	5	0	2	0	4	0	6	0	5	0	0	2	2	0	0	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:38250157A>G	uc003xlm.1	+	3	175	c.4A>G	c.(4-6)AAG>GAG	p.K2E	LETM2_uc003xlk.2_Missense_Mutation_p.K49E|LETM2_uc011lbn.1_5'UTR|LETM2_uc003xll.1_Missense_Mutation_p.K2E|LETM2_uc003xln.1_5'UTR|LETM2_uc003xlo.1_5'UTR	NM_144652	NP_653253	Q2VYF4	LETM2_HUMAN	leucine zipper-EF-hand containing transmembrane	49	Mitochondrial intermembrane (Potential).					integral to membrane|mitochondrial inner membrane					0	all_cancers(2;6.77e-47)|all_epithelial(2;1.01e-50)|all_lung(3;1.25e-23)|Lung NSC(2;2.76e-23)|Colorectal(12;0.000442)|Esophageal squamous(3;0.00202)	all_lung(54;0.0657)|Hepatocellular(245;0.152)|Lung NSC(58;0.175)	Epithelial(3;1.17e-42)|all cancers(3;5.44e-38)|BRCA - Breast invasive adenocarcinoma(5;5.44e-27)|LUSC - Lung squamous cell carcinoma(2;7.12e-25)|Lung(2;4.49e-22)|COAD - Colon adenocarcinoma(9;0.114)			GACATGTATGAAGAACTATGA	0.423													53	261					0	0	1	0	0		G	38250157	G	G	38250157	3	3	151	1	0	0	0	0	1	0	0	0	8751	247	9	3	6	3	LETM2	8	38250157	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	158053	38250157	108113865	2004	79169											
FGFR1	2260	broad.mit.edu	37	chr8	38274851	38274851	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcaggcccccagcaggtTgatgatattcttatgcttcc	7	12	10	12	1	1	2	0	2	1	0	2	2	2	2	3	2	3	4	3	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:38274851T>C	uc003xlp.2	-	13	2578	c.1636A>G	c.(1636-1638)AAC>GAC	p.N546D	FGFR1_uc010lwf.2_RNA|FGFR1_uc011lbo.1_Missense_Mutation_p.N544D|FGFR1_uc011lbp.1_Missense_Mutation_p.N457D|FGFR1_uc011lbq.1_Missense_Mutation_p.N455D|FGFR1_uc010lwk.2_Missense_Mutation_p.N536D	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	546	Cytoplasmic (Potential).|Protein kinase.				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity	p.N546K(1)		lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	CCCAGCAGGTTGATGATATTC	0.542		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						6	179					0	0	1	0	0		C	38274851	C	C	38274851	3	2	151	1	0	0	0	0	1	0	0	0	5877	1812	63	3	860	3	FGFR1	8	38274851	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	24694	38274851	108089171	2005	79170											
ADAM32	203102	broad.mit.edu	37	chr8	39044429	39044429	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctttgttgttattatagtAccccaaggagataactctgg	10	16	8	7	0	2	1	0	0	2	1	2	2	2	1	2	2	2	3	2	2	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:39044429A>G	uc003xmt.3	+	11	1162	c.917A>G	c.(916-918)TAC>TGC	p.Y306C	ADAM32_uc011lch.1_Intron|ADAM32_uc003xmu.3_Intron	NM_145004	NP_659441	Q8TC27	ADA32_HUMAN	a disintegrin and metalloprotease domain 32	306	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)			TTATTATAGTACCCCAAGGAG	0.318													19	106					0	0	1	0	0		G	39044429	G	G	39044429	3	3	151	1	0	0	0	0	1	0	0	0	249	405	14	3	959	3	ADAM32	8	39044429	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	769578	39044429	107319593	2006	79171											
ADAM18	8749	broad.mit.edu	37	chr8	39525631	39525631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacttatgcattgaatggcCgtttgtgcaagttgggaact	10	13	11	7	1	0	1	0	1	0	0	0	2	0	2	1	2	3	4	1	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:39525631C>T	uc003xni.2	+	14	1441	c.1441C>T	c.(1441-1443)CGT>TGT	p.R481C	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.R457C	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	481	Cys-rich.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			ATTGAATGGCCGTTTGTGCAA	0.398													73	316					0	0	1	0	0		T	39525631	T	T	39525631	3	4	151	1	0	0	0	0	1	0	0	0	239	652	23	1	1495	1	ADAM18	8	39525631	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	481202	39525631	106838391	2007	79172											
AGPAT6	137964	broad.mit.edu	37	chr8	41467407	41467407	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attataacttccagtacatcAgccttcggctcacggtcctg	9	12	7	13	2	2	0	2	0	0	0	5	0	4	0	3	2	3	2	3	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:41467407A>G	uc003xnz.2	+	4	1408	c.469A>G	c.(469-471)AGC>GGC	p.S157G		NM_178819	NP_848934	Q86UL3	GPAT4_HUMAN	lysophosphatidic acid acyltransferase zeta	157	Helical; (Potential).				acyl-CoA metabolic process|lactation|phosphatidylcholine biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|membrane fraction	glycerol-3-phosphate O-acyltransferase activity				0	Ovarian(28;0.00769)|Colorectal(14;0.0202)|Lung SC(25;0.211)	all_lung(54;0.0131)|Lung NSC(58;0.0363)|Hepatocellular(245;0.0462)|Esophageal squamous(32;0.0844)	OV - Ovarian serous cystadenocarcinoma(14;0.00126)|Colorectal(10;0.0014)|Lung(22;0.00177)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0147)			CCAGTACATCAGCCTTCGGCT	0.552													43	182					0	0	1	0	0		G	41467407	G	G	41467407	3	3	151	1	0	0	0	0	1	0	0	0	391	188	7	3	479	3	AGPAT6	8	41467407	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1941776	41467407	104896615	2008	79173											
FNTA	2339	broad.mit.edu	37	chr8	42939922	42939922	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacttgatttacaaccaagTcatagttccccctacctaat	12	14	3	12	0	1	1	1	1	0	0	2	1	2	1	4	0	4	1	4	0	7	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:42939922T>C	uc003xps.2	+	8	963	c.915T>C	c.(913-915)AGT>AGC	p.S305S	FNTA_uc003xpt.2_Silent_p.S214S|FNTA_uc003xpu.2_Silent_p.S238S|FNTA_uc003xpv.2_RNA	NM_002027	NP_002018	P49354	FNTA_HUMAN	farnesyltransferase, CAAX box, alpha isoform a	305					cellular component disassembly involved in apoptosis|positive regulation of deacetylase activity|positive regulation of tubulin deacetylation|protein farnesylation|protein geranylgeranylation|transforming growth factor beta receptor signaling pathway	cytosol|microtubule associated complex	alpha-tubulin binding|CAAX-protein geranylgeranyltransferase activity|microtubule binding|protein farnesyltransferase activity			ovary(1)	1	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			TACAACCAAGTCATAGTTCCC	0.338													14	142					0	0	1	0	0		C	42939922	C	C	42939922	2	2	151	1	0	0	0	0	0	0	0	1	5991	1664	58	3		3	FNTA	8	42939922	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1472515	42939922	103424100	2009	79174											
HGSNAT	138050	broad.mit.edu	37	chr8	43002198	43002198	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctactggaaatctgaatgcTgttatcacgtatgtatcagt	11	15	8	7	1	4	1	2	1	2	0	4	2	4	2	0	1	2	4	0	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:43002198T>C	uc003xpx.3	+	2	274	c.226T>C	c.(226-228)TGT>CGT	p.C76R		NM_152419	NP_689632	Q68CP4	HGNAT_HUMAN	heparan-alpha-glucosaminide N-acetyltransferase	104	Lumenal, vesicle (Potential).		C -> F (in MPS3C; results in a negligible amount of protein synthesis and very low enzyme activity; retained in the endoplasmic reticulum and loss of intralysosomal proteolytic cleavage).		lysosomal transport|protein oligomerization	integral to membrane|lysosomal membrane	heparan-alpha-glucosaminide N-acetyltransferase activity				0	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			ATCTGAATGCTGTTATCACGT	0.408													12	43					0	0	1	0	0		C	43002198	C	C	43002198	3	2	151	1	0	0	0	0	1	0	0	0	7104	1580	55	3	232	3	HGSNAT	8	43002198	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	62276	43002198	103361824	2010	79175											
PRKDC	5591	broad.mit.edu	37	chr8	48701752	48701752	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagagagctgatctaaggcaTtaataaaatcttgaatcact	16	12	7	6	0	3	3	1	2	2	1	3	4	3	3	0	1	1	2	0	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:48701752T>C	uc003xqi.2	-	76	10775	c.10718A>G	c.(10717-10719)AAT>AGT	p.N3573S	PRKDC_uc003xqj.2_Missense_Mutation_p.N3573S|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3573					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				ATCTAAGGCATTAATAAAATC	0.308								NHEJ					18	68					0	0	1	0	0		C	48701752	C	C	48701752	3	2	151	1	0	0	0	0	1	0	0	0	12543	1493	52	3	1716	3	PRKDC	8	48701752	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5699554	48701752	97662270	2011	79176											
PRKDC	5591	broad.mit.edu	37	chr8	48732055	48732055	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactttggtgtaagaggacaTcaatactagaataattctta	15	14	7	5	0	2	2	1	0	1	2	2	3	2	3	0	2	2	1	0	2	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:48732055T>C	uc003xqi.2	-	68	9410	c.9353A>G	c.(9352-9354)GAT>GGT	p.D3118G	PRKDC_uc003xqj.2_Missense_Mutation_p.D3118G|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3118	KIP-binding.|FAT.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TAAGAGGACATCAATACTAGA	0.299								NHEJ					28	103					0	0	1	0	0		C	48732055	C	C	48732055	3	2	151	1	0	0	0	0	1	0	0	0	12543	1435	50	3	3113	3	PRKDC	8	48732055	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	30303	48732055	97631967	2012	79177											
PRKDC	5591	broad.mit.edu	37	chr8	48774943	48774943	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtggcctaccttttctggTttttcactaaacagaaaacc	11	13	7	10	0	2	1	1	0	1	1	2	2	2	1	3	2	3	1	3	2	5	6	rs66507466		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:48774943T>C	uc003xqi.2	-	44	5967	c.5910A>G	c.(5908-5910)AAA>AAG	p.K1970K	PRKDC_uc003xqj.2_Silent_p.K1970K|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1970					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CCTTTTCTGGTTTTTCACTAA	0.363								NHEJ					21	54					0	0	1	0	0		C	48774943	C	C	48774943	2	2	151	1	0	0	0	0	0	0	0	1	12543	1722	60	3		3	PRKDC	8	48774943	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	42888	48774943	97589079	2013	79178											
PRKDC	5591	broad.mit.edu	37	chr8	48817531	48817531	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggctcatacagttgcctTgtcacctgaagaaacaatac	13	10	8	10	0	2	2	2	1	0	1	2	2	2	2	2	1	4	2	2	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:48817531T>C	uc003xqi.2	-	26	2997	c.2940A>G	c.(2938-2940)ACA>ACG	p.T980T	PRKDC_uc003xqj.2_Silent_p.T980T|PRKDC_uc011ldh.1_Silent_p.T980T	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	980					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				ACAGTTGCCTTGTCACCTGAA	0.353								NHEJ					27	112					0	0	1	0	0		C	48817531	C	C	48817531	2	2	151	1	0	0	0	0	0	0	0	1	12543	1799	63	3		3	PRKDC	8	48817531	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	42588	48817531	97546491	2014	79179											
PXDNL	137902	broad.mit.edu	37	chr8	52322005	52322005	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgccgtcgtgggcgcggtActtcgcatggaaacaccggt	6	8	15	12	7	0	0	0	0	0	0	2	1	0	1	2	4	3	2	2	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:52322005A>G	uc003xqu.3	-	17	2280	c.2179T>C	c.(2179-2181)TAC>CAC	p.Y727H	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	727					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TGGGCGCGGTACTTCGCATGG	0.667													4	22					0	0	1	0	0		G	52322005	G	G	52322005	3	3	151	1	0	0	0	0	1	0	0	0	12873	391	14	3	2240	3	PXDNL	8	52322005	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3504474	52322005	94042017	2015	79180											
PXDNL	137902	broad.mit.edu	37	chr8	52322094	52322094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatgaggctgagggagcgcGgggacaccaagtcattgtac	10	6	16	9	3	1	2	1	2	0	0	1	5	1	4	1	4	2	2	1	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:52322094G>A	uc003xqu.3	-	17	2191	c.2090C>T	c.(2089-2091)CCG>CTG	p.P697L	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	697					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GAGGGAGCGCGGGGACACCAA	0.612													7	25					0	0	1	0	0		A	52322094	A	A	52322094	3	1	151	1	0	0	0	0	1	0	0	0	12873	1116	39	1	2329	1	PXDNL	8	52322094	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	89	52322094	94041928	2016	79181											
NPBWR1	2831	broad.mit.edu	37	chr8	53853400	53853400	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctctacgccttcctggaCgccagcttccgcaggaacct	6	10	8	17	3	1	0	0	0	1	0	4	2	4	2	6	2	3	2	6	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:53853400C>T	uc011ldu.1	+	1	933	c.933C>T	c.(931-933)GAC>GAT	p.D311D		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	311	Cytoplasmic (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				CCTTCCTGGACGCCAGCTTCC	0.657													4	13					0	0	1	0	0		T	53853400	T	T	53853400	2	4	151	1	0	0	0	0	0	0	0	1	10587	535	19	1		1	NPBWR1	8	53853400	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1531306	53853400	92510622	2017	79182											
SOX17	64321	broad.mit.edu	37	chr8	55372532	55372532	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgccagctccgcggtatatTactgcaactatcctgacgtg	9	10	9	13	4	0	1	0	1	0	0	2	1	2	1	3	1	4	3	3	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:55372532T>C	uc003xsb.3	+	2	1426	c.1222T>C	c.(1222-1224)TAC>CAC	p.Y408H		NM_022454	NP_071899	Q9H6I2	SOX17_HUMAN	SRY-box 17	408	Sox C-terminal.				angiogenesis|cardiac cell fate determination|endocardial cell differentiation|endocardium formation|endoderm formation|heart formation|heart looping|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|outflow tract morphogenesis|positive regulation of transcription, DNA-dependent|protein destabilization|protein stabilization|regulation of embryonic development|renal system development|vasculogenesis|Wnt receptor signaling pathway	transcription factor complex	beta-catenin binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			lung(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.176)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;1.9e-07)|Epithelial(17;1.7e-05)|all cancers(17;0.000159)			CGCGGTATATTACTGCAACTA	0.602													17	53					0	0	1	0	0		C	55372532	C	C	55372532	3	2	151	1	0	0	0	0	1	0	0	0	14972	1754	61	3	1228	3	SOX17	8	55372532	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1519132	55372532	90991490	2018	79183											
RP1	6101	broad.mit.edu	37	chr8	55534685	55534685	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtctcttttaggttcccagCctccaggcagtgatcctgag	6	12	11	12	0	1	2	0	2	1	0	5	2	4	2	4	3	1	2	4	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:55534685C>T	uc003xsd.1	+	3	772	c.624C>T	c.(622-624)AGC>AGT	p.S208S	RP1_uc011ldy.1_Silent_p.S208S	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	208	Doublecortin 2.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			AGGTTCCCAGCCTCCAGGCAG	0.433													10	56					0	0	1	0	0		T	55534685	T	T	55534685	2	4	151	1	0	0	0	0	0	0	0	1	13557	738	26	2		2	RP1	8	55534685	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	162153	55534685	90829337	2019	79184											
XKR4	114786	broad.mit.edu	37	chr8	56435964	56435964	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgtcatcatccagttctgCtggcacttcttcaccatcgc	6	12	7	16	2	5	0	3	0	2	0	7	0	6	0	3	1	1	3	3	1	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:56435964C>T	uc003xsf.2	+	3	1163	c.1131C>T	c.(1129-1131)TGC>TGT	p.C377C		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	377	Helical; (Potential).					integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			TCCAGTTCTGCTGGCACTTCT	0.572													41	142					0	0	1	0	0		T	56435964	T	T	56435964	2	4	151	1	0	0	0	0	0	0	0	1	17459	805	28	2		2	XKR4	8	56435964	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	901279	56435964	89928058	2020	79185											
PENK	5179	broad.mit.edu	37	chr8	57353979	57353979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccatccaccactctgggCgacctactcttctcatgaag	9	10	7	15	1	3	1	1	1	3	0	6	2	5	1	4	1	1	0	4	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:57353979C>T	uc003xsz.2	-	2	737	c.656G>A	c.(655-657)CGC>CAC	p.R219H	PENK_uc003xta.3_Missense_Mutation_p.R219H	NM_006211	NP_006202	P01210	PENK_HUMAN	proenkephalin	219					neuropeptide signaling pathway	extracellular region	neuropeptide hormone activity|opioid peptide activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_lung(136;0.229)	Epithelial(17;0.000873)|all cancers(17;0.0069)			CCACTCTGGGCGACCTACTCT	0.532													45	194					0	0	1	0	0		T	57353979	T	T	57353979	3	4	151	1	0	0	0	0	1	0	0	0	11746	768	27	1	151	1	PENK	8	57353979	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	918015	57353979	89010043	2021	79186											
SDCBP	6386	broad.mit.edu	37	chr8	59490615	59490615	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatttgttcagctagtccaGgctaattctccagcctcatt	9	15	6	11	0	3	0	2	0	1	0	5	0	4	0	3	1	2	3	3	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:59490615G>A	uc003xtn.2	+	6	576	c.426G>A	c.(424-426)CAG>CAA	p.Q142Q	SDCBP_uc003xto.2_Silent_p.Q141Q|SDCBP_uc003xtr.2_Silent_p.Q141Q|SDCBP_uc003xtp.2_Silent_p.Q136Q|SDCBP_uc003xtq.2_Silent_p.Q142Q|SDCBP_uc003xts.2_Silent_p.Q148Q|SDCBP_uc011led.1_Silent_p.Q83Q	NM_005625	NP_005616	O00560	SDCB1_HUMAN	syntenin isoform 1	142	PDZ 1.				actin cytoskeleton organization|axon guidance|positive regulation of phosphorylation|protein targeting to membrane|substrate-dependent cell migration, cell extension|synaptic transmission	cytoskeleton|cytosol|endoplasmic reticulum membrane|focal adhesion|interleukin-5 receptor complex|melanosome|nucleus	cytoskeletal adaptor activity|frizzled binding|interleukin-5 receptor binding|protein heterodimerization activity|protein N-terminus binding|syndecan binding				0		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				AGCTAGTCCAGGCTAATTCTC	0.388													35	111					0	0	1	0	0		A	59490615	A	A	59490615	2	1	151	1	0	0	0	0	0	0	0	1	13980	991	35	4		4	SDCBP	8	59490615	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2136636	59490615	86873407	2022	79187											
NSMAF	8439	broad.mit.edu	37	chr8	59502099	59502099	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatgtcccattaacgtgTcctggcgtcttccaaatgct	8	13	7	13	2	2	0	1	0	1	0	5	0	5	0	3	1	2	1	3	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:59502099T>C	uc003xtt.2	-	26	2337	c.2123A>G	c.(2122-2124)GAC>GGC	p.D708G	NSMAF_uc011lee.1_Missense_Mutation_p.D739G	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	708					ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				CATTAACGTGTCCTGGCGTCT	0.368													28	109					0	0	1	0	0		C	59502099	C	C	59502099	3	2	151	1	0	0	0	0	1	0	0	0	10693	1667	58	3	654	3	NSMAF	8	59502099	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	11484	59502099	86861923	2023	79188											
CHD7	55636	broad.mit.edu	37	chr8	61654075	61654075	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaggcctcggagaatgtggTtacccggaaaatccagtaaa	14	7	12	8	2	0	1	0	0	0	1	2	4	1	2	3	4	1	2	3	4	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:61654075T>C	uc003xue.2	+	2	561	c.84T>C	c.(82-84)GGT>GGC	p.G28G		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	28					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GAGAATGTGGTTACCCGGAAA	0.453													5	28					0	0	1	0	0		C	61654075	C	C	61654075	2	2	151	1	0	0	0	0	0	0	0	1	3333	1712	60	3		3	CHD7	8	61654075	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2151976	61654075	84709947	2024	79189											
CHD7	55636	broad.mit.edu	37	chr8	61742985	61742985	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaactattattgaagttgaGctaacaaacattcagaagaa	19	10	7	5	0	1	4	1	2	0	2	1	5	1	4	0	0	4	2	0	0	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:61742985G>T	uc003xue.2	+	15	4104	c.3627G>T	c.(3625-3627)GAG>GAT	p.E1209D		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1209					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			TTGAAGTTGAGCTAACAAACA	0.373													35	127					5.91797e-21	6.18319e-21	1	1	0		T	61742985	T	T	61742985	3	4	151	1	0	0	0	0	1	0	0	0	3333	962	34	5	3681	5	CHD7	8	61742985	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	88910	61742985	84621037	2025	79190											
CHD7	55636	broad.mit.edu	37	chr8	61743072	61743072	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcggtggtcaagctaacgtAcctaacctattaaacactat	13	10	8	10	2	1	0	1	0	0	0	1	0	1	0	2	3	5	2	2	3	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:61743072A>G	uc003xue.2	+	15	4191	c.3714A>G	c.(3712-3714)GTA>GTG	p.V1238V		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1238					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			AAGCTAACGTACCTAACCTAT	0.418													30	121					0	0	1	0	0		G	61743072	G	G	61743072	2	3	151	1	0	0	0	0	0	0	0	1	3333	378	14	3		3	CHD7	8	61743072	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	87	61743072	84620950	2026	79191											
CHD7	55636	broad.mit.edu	37	chr8	61765392	61765392	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttctgtgttacagaaccGcccgacctctcctccataat	8	11	5	17	2	2	1	0	0	2	1	4	2	3	1	6	0	2	1	6	0	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:61765392G>A	uc003xue.2	+	31	6585	c.6108G>A	c.(6106-6108)CCG>CCA	p.P2036P		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2036					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			TTACAGAACCGCCCGACCTCT	0.473													36	113					0	0	1	0	0		A	61765392	A	A	61765392	2	1	151	1	0	0	0	0	0	0	0	1	3333	1074	38	1		1	CHD7	8	61765392	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	22320	61765392	84598630	2027	79192											
ADHFE1	137872	broad.mit.edu	37	chr8	67357523	67357523	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgctgtcggtggtggctctAccatggacacctgtaaggct	6	12	13	10	1	1	0	0	0	1	0	2	1	1	1	2	5	2	4	2	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:67357523A>G	uc003xwb.3	+	6	458	c.424A>G	c.(424-426)ACC>GCC	p.T142A	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Missense_Mutation_p.T94A|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_Intron|ADHFE1_uc011les.1_Missense_Mutation_p.T72A|ADHFE1_uc011leq.1_Intron|ADHFE1_uc011ler.1_Intron	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	142					2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			TGGTGGCTCTACCATGGACAC	0.468													26	119					0	0	1	0	0		G	67357523	G	G	67357523	3	3	151	1	0	0	0	0	1	0	0	0	314	391	14	3	446	3	ADHFE1	8	67357523	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5592131	67357523	79006499	2028	79193											
VCPIP1	80124	broad.mit.edu	37	chr8	67576862	67576862	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatcattagttgtgattcGgatcttcttctccttagaag	8	17	7	9	1	4	2	1	1	3	1	7	3	5	3	2	1	0	1	2	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:67576862G>A	uc003xwn.2	-	1	2591	c.2332C>T	c.(2332-2334)CGA>TGA	p.R778*	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	778					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			GTTGTGATTCGGATCTTCTTC	0.448													55	237					0	0	1	0	0		A	67576862	A	A	67576862	4	1	151	1	0	0	0	0	0	1	0	0	17167	1124	39	1	1348	1	VCPIP1	8	67576862	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	219339	67576862	78787160	2029	79194											
VCPIP1	80124	broad.mit.edu	37	chr8	67578033	67578033	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctcttcaagttttatgtaCtttttaataaggtcctgagg	9	18	7	7	0	2	1	1	1	1	0	4	1	4	1	2	2	1	2	2	2	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:67578033C>T	uc003xwn.2	-	1	1420	c.1161G>A	c.(1159-1161)AAG>AAA	p.K387K	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	387					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			GTTTTATGTACTTTTTAATAA	0.413													61	272					0	0	1	0	0		T	67578033	T	T	67578033	2	4	151	1	0	0	0	0	0	0	0	1	17167	564	20	4		4	VCPIP1	8	67578033	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1171	67578033	78785989	2030	79195											
COPS5	10987	broad.mit.edu	37	chr8	67970406	67970406	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcagccatagccagggTggctatgataccacccgatt	10	7	11	13	1	0	1	0	1	0	0	0	2	0	1	5	2	4	2	5	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:67970406T>C	uc003xxe.2	-	3	750	c.419A>G	c.(418-420)CAC>CGC	p.H140R	COPS5_uc003xxd.2_Missense_Mutation_p.H76R|COPS5_uc003xxf.2_Missense_Mutation_p.H185R|COPS5_uc010lyu.1_5'Flank|COPS5_uc010lyv.1_Missense_Mutation_p.H140R	NM_006837	NP_006828	Q92905	CSN5_HUMAN	COP9 signalosome subunit 5	140	JAMM motif.|MPN.	Zinc; catalytic (By similarity).			cullin deneddylation|transcription from RNA polymerase II promoter	eukaryotic translation initiation factor 3 complex|signalosome	metal ion binding|metallopeptidase activity|protein binding|transcription coactivator activity|translation initiation factor activity			ovary(1)|skin(1)	2	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00389)|OV - Ovarian serous cystadenocarcinoma(28;0.00691)|all cancers(69;0.0205)|BRCA - Breast invasive adenocarcinoma(89;0.153)			ATAGCCAGGGTGGCTATGATA	0.418													12	51					0	0	1	0	0		C	67970406	C	C	67970406	3	2	151	1	0	0	0	0	1	0	0	0	3739	1696	59	3	609	3	COPS5	8	67970406	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	392373	67970406	78393616	2031	79196											
CSPP1	79848	broad.mit.edu	37	chr8	68007638	68007638	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagaaaagatgtcttaacTccttcagaggcatatgaaga	15	10	8	8	0	2	5	1	1	1	4	3	5	3	5	2	1	1	1	2	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:68007638T>A	uc003xxi.2	+	8	757	c.726T>A	c.(724-726)ACT>ACA	p.T242T	CSPP1_uc003xxg.1_Silent_p.T234T|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Silent_p.T207T|CSPP1_uc003xxk.2_5'UTR	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	242						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			ATGTCTTAACTCCTTCAGAGG	0.363													34	89					0	0	1	0	0		A	68007638	A	A	68007638	2	1	151	1	0	0	0	0	0	0	0	1	3965	1538	54	5		5	CSPP1	8	68007638	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	37232	68007638	78356384	2032	79197											
ARFGEF1	10565	broad.mit.edu	37	chr8	68213490	68213490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagagatgtactaactatgCgaggacatttggactggcat	12	11	11	7	1	0	1	0	0	0	1	0	5	0	3	0	3	3	2	0	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:68213490C>T	uc003xxo.1	-	3	671	c.281G>A	c.(280-282)CGC>CAC	p.R94H		NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	94					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			ACTAACTATGCGAGGACATTT	0.378													35	138					0	0	1	0	0		T	68213490	T	T	68213490	3	4	151	1	0	0	0	0	1	0	0	0	852	768	27	1	5416	1	ARFGEF1	8	68213490	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	205852	68213490	78150532	2033	79198											
SULF1	23213	broad.mit.edu	37	chr8	70488282	70488282	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcaatgcctttgtgactAcacccatgtgctgcccgtca	8	12	7	14	1	3	1	3	1	0	0	3	1	3	1	3	0	4	1	3	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:70488282A>G	uc010lza.1	+	6	967	c.250A>G	c.(250-252)ACA>GCA	p.T84A	SULF1_uc003xyd.2_Missense_Mutation_p.T84A|SULF1_uc003xye.2_Missense_Mutation_p.T84A|SULF1_uc003xyf.2_Missense_Mutation_p.T84A|SULF1_uc003xyg.2_Missense_Mutation_p.T84A	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	84					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			CTTTGTGACTACACCCATGTG	0.522													11	35					0	0	1	0	0		G	70488282	G	G	70488282	3	3	151	1	0	0	0	0	1	0	0	0	15395	391	14	3	256	3	SULF1	8	70488282	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2274792	70488282	75875740	2034	79199											
SLCO5A1	81796	broad.mit.edu	37	chr8	70744455	70744455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctttcaatggtggtaattaCgctgctcaggtacccagaga	10	11	10	10	1	2	1	2	0	0	1	2	2	2	1	2	3	3	4	2	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:70744455C>T	uc003xyl.2	-	2	1161	c.454G>A	c.(454-456)GTA>ATA	p.V152I	SLCO5A1_uc010lzb.2_Missense_Mutation_p.V152I|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Missense_Mutation_p.V152I|SLCO5A1_uc010lzc.2_Missense_Mutation_p.V152I	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	152	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			GTGGTAATTACGCTGCTCAGG	0.552											OREG0018815	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	46					0	0	1	0	0		T	70744455	T	T	70744455	3	4	151	1	0	0	0	0	1	0	0	0	14756	536	19	1	2128	1	SLCO5A1	8	70744455	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	256173	70744455	75619567	2035	79200											
NCOA2	10499	broad.mit.edu	37	chr8	71071751	71071751	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggattacctgtgaagcatAtgtaaagatattacaagttg	15	13	9	4	0	0	2	0	1	0	1	0	3	0	3	1	1	3	3	1	1	9	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:71071751A>G	uc003xyn.1	-	10	1275	c.1113T>C	c.(1111-1113)CAT>CAC	p.H371H		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	371					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TGTGAAGCATATGTAAAGATA	0.363			T	RUNXBP2	AML								77	288					0	0	1	0	0		G	71071751	G	G	71071751	2	3	151	1	0	0	0	0	0	0	0	1	10248	446	16	3		3	NCOA2	8	71071751	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	327296	71071751	75292271	2036	79201											
MSC	9242	broad.mit.edu	37	chr8	72756075	72756075	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccgggcacgctcacgggcGttggccgcgttccgctgcga	4	7	15	15	8	1	0	1	0	0	0	3	1	3	0	3	3	1	5	3	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:72756075G>A	uc003xyx.1	-	1	657	c.339C>T	c.(337-339)AAC>AAT	p.N113N	uc011lff.1_Intron|uc003xyy.2_5'Flank	NM_005098	NP_005089	O60682	MUSC_HUMAN	musculin	113	Basic motif.				transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Breast(64;0.176)		Epithelial(68;0.137)|BRCA - Breast invasive adenocarcinoma(89;0.203)			GCTCACGGGCGTTGGCCGCGT	0.701											OREG0018826	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	25					0	0	1	0	0		A	72756075	A	A	72756075	2	1	151	1	0	0	0	0	0	0	0	1	9886	1136	40	1		1	MSC	8	72756075	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1684324	72756075	73607947	2037	79202											
C8orf84	157869	broad.mit.edu	37	chr8	73979655	73979655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttccaagttccttgacacCgaggattaccaattgcttgc	9	14	7	11	1	0	1	0	1	0	0	2	3	2	2	4	1	3	2	4	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:73979655C>T	uc003xzf.2	-	5	921	c.716G>A	c.(715-717)CGG>CAG	p.R239Q		NM_153225	NP_694957	Q8IVN8	RPESP_HUMAN	RPE-spondin precursor	239					immune response	extracellular region	polysaccharide binding|scavenger receptor activity				0						TCCTTGACACCGAGGATTACC	0.363													26	124					0	0	1	0	0		T	73979655	T	T	73979655	3	4	151	1	0	0	0	0	1	0	0	0	2443	652	23	1	82	1	C8orf84	8	73979655	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1223580	73979655	72384367	2038	79203											
ZFHX4	79776	broad.mit.edu	37	chr8	77764330	77764330	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgcctcattttcctatgAccccagaagcactgctgcag	8	13	7	13	0	1	2	1	1	0	1	2	2	2	2	4	0	4	3	4	0	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:77764330A>G	uc003yav.2	+	10	5425	c.5038A>G	c.(5038-5040)ACC>GCC	p.T1680A	ZFHX4_uc003yau.1_Missense_Mutation_p.T1725A|ZFHX4_uc003yaw.1_Missense_Mutation_p.T1680A	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1680	Gln-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTTTCCTATGACCCCAGAAGC	0.478										HNSCC(33;0.089)			12	86					0	0	1	0	0		G	77764330	G	G	77764330	3	3	151	1	0	0	0	0	1	0	0	0	17660	275	10	3	5207	3	ZFHX4	8	77764330	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3784675	77764330	68599692	2039	79204											
ZFHX4	79776	broad.mit.edu	37	chr8	77767833	77767833	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttacatcacagatgacccGgatgacaacgccgaccgcag	12	7	9	13	4	1	3	1	2	0	1	1	5	1	4	3	1	2	1	3	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:77767833G>A	uc003yav.2	+	10	8928	c.8541G>A	c.(8539-8541)CCG>CCA	p.P2847P	ZFHX4_uc003yau.1_Silent_p.P2892P|ZFHX4_uc003yaw.1_Silent_p.P2847P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2847						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CAGATGACCCGGATGACAACG	0.483										HNSCC(33;0.089)			11	46					0	0	1	0	0		A	77767833	A	A	77767833	2	1	151	1	0	0	0	0	0	0	0	1	17660	1103	39	1		1	ZFHX4	8	77767833	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3503	77767833	68596189	2040	79205											
PEX2	5828	broad.mit.edu	37	chr8	77895910	77895910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaatgaatacctaggagacGttctgtcaaagttgcaaact	15	10	9	7	1	2	3	1	1	1	2	2	4	2	3	1	1	3	3	1	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:77895910G>A	uc003yax.2	-	4	963	c.505C>T	c.(505-507)CGT>TGT	p.R169C	PEX2_uc003yay.2_Missense_Mutation_p.R169C|PEX2_uc003yaz.2_Missense_Mutation_p.R169C	NM_000318	NP_000309	P28328	PEX2_HUMAN	peroxin 2	169					peroxisome organization	integral to peroxisomal membrane	protein binding|zinc ion binding			ovary(1)	1						CCTAGGAGACGTTCTGTCAAA	0.378													30	134					0	0	1	0	0		A	77895910	A	A	77895910	3	1	151	1	0	0	0	0	1	0	0	0	11764	1145	40	1	416	1	PEX2	8	77895910	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	128077	77895910	68468112	2041	79206											
TPD52	7163	broad.mit.edu	37	chr8	80963804	80963804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatgactgagccaacagacGaaaaagcagctgaggccttc	14	6	11	10	1	0	5	0	4	0	1	1	6	0	5	2	1	4	2	2	1	3	1	rs141089311		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:80963804G>A	uc003ybr.1	-	4	786	c.464C>T	c.(463-465)TCG>TTG	p.S155L	TPD52_uc010lzr.2_RNA|TPD52_uc010lzs.1_RNA|TPD52_uc003ybs.1_Missense_Mutation_p.S115L|TPD52_uc003ybt.1_Missense_Mutation_p.S115L|TPD52_uc003ybq.1_RNA|TPD52_uc003ybu.1_RNA	NM_001025252	NP_001020423	P55327	TPD52_HUMAN	tumor protein D52 isoform 1	155					anatomical structure morphogenesis|B cell differentiation|secretion	endoplasmic reticulum|perinuclear region of cytoplasm	calcium ion binding|protein heterodimerization activity|protein homodimerization activity			ovary(1)	1	all_epithelial(4;1.13e-09)|Lung NSC(7;9.71e-07)|all_lung(9;3.75e-06)	Lung NSC(129;3.55e-06)|all_lung(136;1.53e-05)|Acute lymphoblastic leukemia(644;0.158)	BRCA - Breast invasive adenocarcinoma(6;0.00181)|Epithelial(68;0.0149)|all cancers(69;0.0612)			GCCAACAGACGAAAAAGCAGC	0.388													28	112					0	0	1	0	0		A	80963804	A	A	80963804	3	1	151	1	0	0	0	0	1	0	0	0	16423	1059	37	1	299	1	TPD52	8	80963804	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3067894	80963804	65400218	2042	79207											
IMPA1	3612	broad.mit.edu	37	chr8	82586104	82586104	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaaacttgtagtttttgAccattacaaaaggcaccttt	12	15	7	7	0	0	2	0	2	0	0	0	2	0	2	2	1	2	3	2	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:82586104A>G	uc003ych.2	-	6	556	c.429T>C	c.(427-429)GGT>GGC	p.G143G	IMPA1_uc011lfq.1_Silent_p.G202G|IMPA1_uc011lfr.1_Silent_p.G143G	NM_005536	NP_005527	P29218	IMPA1_HUMAN	inositol(myo)-1(or 4)-monophosphatase 1 isoform	143					inositol phosphate dephosphorylation|phosphatidylinositol biosynthetic process|signal transduction	cytoplasm	inositol-1(or 4)-monophosphatase activity|metal ion binding|protein homodimerization activity			skin(1)	1					Lithium(DB01356)	GTAGTTTTTGACCATTACAAA	0.338													24	114					0	0	1	0	0		G	82586104	G	G	82586104	2	3	151	1	0	0	0	0	0	0	0	1	7738	262	10	3		3	IMPA1	8	82586104	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1622300	82586104	63777918	2043	79208											
RALYL	138046	broad.mit.edu	37	chr8	85774581	85774581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccccgtgcagtaattcCgctgaagcgtcccagagtgg	8	8	11	14	3	0	2	0	1	0	1	3	2	3	2	5	1	2	3	5	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:85774581C>T	uc003ycq.3	+	7	880	c.464C>T	c.(463-465)CCG>CTG	p.P155L	RALYL_uc003ycr.3_Missense_Mutation_p.P155L|RALYL_uc003ycs.3_Missense_Mutation_p.P155L|RALYL_uc010lzy.2_Missense_Mutation_p.P144L|RALYL_uc003yct.3_Missense_Mutation_p.P168L|RALYL_uc003ycu.3_Missense_Mutation_p.P82L|RALYL_uc003ycv.3_Missense_Mutation_p.P67L	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2	155							identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						GCAGTAATTCCGCTGAAGCGT	0.522													8	17					0	0	1	0	0		T	85774581	T	T	85774581	3	4	151	1	0	0	0	0	1	0	0	0	13045	652	23	1	525	1	RALYL	8	85774581	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3188477	85774581	60589441	2044	79209											
LRRCC1	85444	broad.mit.edu	37	chr8	86035830	86035830	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccacaataaaaactacaaCtcttttgtaaggtacttgtt	15	13	4	9	0	1	0	0	0	1	0	1	0	1	0	1	1	4	3	1	1	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:86035830C>T	uc003ycw.2	+	7	1267	c.1113C>T	c.(1111-1113)AAC>AAT	p.N371N	LRRCC1_uc010lzz.1_Intron|LRRCC1_uc010maa.1_Silent_p.N72N|LRRCC1_uc003ycx.2_Silent_p.N278N|LRRCC1_uc003ycy.2_Silent_p.N351N	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	371					cell division|mitosis	centriole|nucleus					0						AAAACTACAACTCTTTTGTAA	0.323													28	89					0	0	1	0	0		T	86035830	T	T	86035830	2	4	151	1	0	0	0	0	0	0	0	1	9044	564	20	4		4	LRRCC1	8	86035830	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	261249	86035830	60328192	2045	79210											
LRRCC1	85444	broad.mit.edu	37	chr8	86050657	86050657	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagtgaaagaaaaatttgaAaacaaggaaaagaaacttaa	25	6	8	2	0	0	4	0	2	0	2	0	6	0	5	0	1	2	0	0	1	11	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:86050657A>G	uc003ycw.2	+	17	2941	c.2787A>G	c.(2785-2787)GAA>GAG	p.E929E	LRRCC1_uc003ycx.2_Silent_p.E836E|LRRCC1_uc003ycy.2_Silent_p.E909E	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	929					cell division|mitosis	centriole|nucleus					0						AAAAATTTGAAAACAAGGAAA	0.318													5	136					0	0	1	0	0		G	86050657	G	G	86050657	2	3	151	1	0	0	0	0	0	0	0	1	9044	11	1	3		3	LRRCC1	8	86050657	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	14827	86050657	60313365	2046	79211											
NBN	4683	broad.mit.edu	37	chr8	90982768	90982768	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacctccaaagacaactgcGgaactcaatttcttatgcta	13	10	5	13	1	2	1	1	0	1	1	3	2	3	2	3	1	4	1	3	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:90982768G>A	uc003yej.1	-	7	830	c.720C>T	c.(718-720)TCC>TCT	p.S240S	NBN_uc003yei.1_Silent_p.S158S|NBN_uc011lgb.1_Silent_p.S240S	NM_002485	NP_002476	O60934	NBN_HUMAN	nibrin	240					cell cycle arrest|DNA damage response, signal transduction by p53 class mediator|DNA duplex unwinding|double-strand break repair via homologous recombination|meiosis|mitotic cell cycle G1/S transition checkpoint|mitotic cell cycle G2/M transition DNA damage checkpoint|positive regulation of kinase activity|positive regulation of protein autophosphorylation|regulation of DNA-dependent DNA replication initiation|telomere maintenance	Mre11 complex|nuclear chromosome, telomeric region|nuclear inclusion body|nucleolus|nucleoplasm	protein N-terminus binding|transcription factor binding			central_nervous_system(3)|kidney(3)|lung(1)	7			BRCA - Breast invasive adenocarcinoma(11;0.0344)			AGACAACTGCGGAACTCAATT	0.343								Direct_reversal_of_damage|Homologous_recombination	Nijmegen_Breakage_syndrome				25	97					0	0	1	0	0		A	90982768	A	A	90982768	2	1	151	1	0	0	0	0	0	0	0	1	10209	1103	39	1		1	NBN	8	90982768	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4932111	90982768	55381254	2047	79212											
NBN	4683	broad.mit.edu	37	chr8	90990516	90990516	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagtaaaatattctggcttTacaattggacgtccacaaat	14	13	6	8	1	2	0	1	0	1	0	3	1	3	1	1	2	1	2	1	2	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:90990516T>C	uc003yej.1	-	5	626	c.516A>G	c.(514-516)GTA>GTG	p.V172V	NBN_uc003yei.1_Silent_p.V90V|NBN_uc011lgb.1_Silent_p.V172V	NM_002485	NP_002476	O60934	NBN_HUMAN	nibrin	172	BRCT.				cell cycle arrest|DNA damage response, signal transduction by p53 class mediator|DNA duplex unwinding|double-strand break repair via homologous recombination|meiosis|mitotic cell cycle G1/S transition checkpoint|mitotic cell cycle G2/M transition DNA damage checkpoint|positive regulation of kinase activity|positive regulation of protein autophosphorylation|regulation of DNA-dependent DNA replication initiation|telomere maintenance	Mre11 complex|nuclear chromosome, telomeric region|nuclear inclusion body|nucleolus|nucleoplasm	protein N-terminus binding|transcription factor binding			central_nervous_system(3)|kidney(3)|lung(1)	7			BRCA - Breast invasive adenocarcinoma(11;0.0344)			ATTCTGGCTTTACAATTGGAC	0.303								Direct_reversal_of_damage|Homologous_recombination	Nijmegen_Breakage_syndrome				23	106					0	0	1	0	0		C	90990516	C	C	90990516	2	2	151	1	0	0	0	0	0	0	0	1	10209	1741	61	3		3	NBN	8	90990516	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	7748	90990516	55373506	2048	79213											
SLC26A7	115111	broad.mit.edu	37	chr8	92406197	92406197	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaatgacgtattatggaaAcctagactcagagaaaccaa	18	7	8	8	1	1	3	1	1	0	2	1	5	1	4	2	1	3	2	2	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:92406197A>G	uc003yex.2	+	19	2143	c.1865A>G	c.(1864-1866)AAC>AGC	p.N622S	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Missense_Mutation_p.N622S|SLC26A7_uc003yfa.2_Missense_Mutation_p.N622S	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	622	STAS.|Cytoplasmic (Potential).					basolateral plasma membrane|integral to membrane|recycling endosome membrane	anion:anion antiporter activity|bicarbonate transmembrane transporter activity|chloride channel activity|oxalate transmembrane transporter activity|sulfate transmembrane transporter activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.00802)			TATTATGGAAACCTAGACTCA	0.353													26	147					0	0	1	0	0		G	92406197	G	G	92406197	3	3	151	1	0	0	0	0	1	0	0	0	14547	43	2	3	1931	3	SLC26A7	8	92406197	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1415681	92406197	53957825	2049	79214											
RUNX1T1	862	broad.mit.edu	37	chr8	92972632	92972632	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcctgcagggtctgtccAcagatgtgatggtgcttctc	5	12	14	10	0	2	2	0	1	2	1	4	2	3	2	2	3	2	2	2	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:92972632A>G	uc003yfd.2	-	11	1737	c.1653T>C	c.(1651-1653)TGT>TGC	p.C551C	RUNX1T1_uc003yfc.1_Silent_p.C524C|RUNX1T1_uc003yfe.1_Silent_p.C514C|RUNX1T1_uc010mao.2_Silent_p.C524C|RUNX1T1_uc011lgi.1_Silent_p.C562C|uc010mam.2_5'Flank|RUNX1T1_uc010man.1_Silent_p.C176C|RUNX1T1_uc003yfb.1_Silent_p.C514C	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	551	MYND-type.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GGGTCTGTCCACAGATGTGAT	0.597													14	46					0	0	1	0	0		G	92972632	G	G	92972632	2	3	151	1	0	0	0	0	0	0	0	1	13772	157	6	3		3	RUNX1T1	8	92972632	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	566435	92972632	53391390	2050	79215											
FAM92A1	137392	broad.mit.edu	37	chr8	94713550	94713550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcctatgtgcggaaaactgCcaggctgagagacaaagcag	13	6	13	9	1	0	2	0	1	0	1	0	4	0	3	2	2	5	2	2	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:94713550C>T	uc010maq.2	+	2	228	c.125C>T	c.(124-126)GCC>GTC	p.A42V	FAM92A1_uc003yfu.1_RNA|FAM92A1_uc003yfv.3_RNA	NM_145269	NP_660312	A1XBS5	F92A1_HUMAN	hypothetical protein LOC137392	42											0	Breast(36;2.4e-06)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			CGGAAAACTGCCAGGCTGAGA	0.478													8	30					0	0	1	0	0		T	94713550	T	T	94713550	3	4	151	1	0	0	0	0	1	0	0	0	5666	739	26	2	131	2	FAM92A1	8	94713550	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1740918	94713550	51650472	2051	79216											
TMEM67	91147	broad.mit.edu	37	chr8	94793924	94793924	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgctgcttcctatgatatAagaggaaattttctcaagtg	11	15	9	6	0	1	2	1	1	1	1	3	3	2	3	1	1	2	3	1	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:94793924A>G	uc011lgk.1	+	10	1088	c.1017A>G	c.(1015-1017)ATA>ATG	p.I339M	TMEM67_uc010mat.1_Missense_Mutation_p.I254M|TMEM67_uc010maw.2_Intron|TMEM67_uc003yga.3_Missense_Mutation_p.I258M	NM_153704	NP_714915	Q5HYA8	MKS3_HUMAN	meckelin isoform 1	339					cilium assembly|ER-associated protein catabolic process|negative regulation of centrosome duplication	centrosome|cilium membrane|cytoplasmic vesicle membrane|endoplasmic reticulum membrane|integral to membrane|microtubule basal body	unfolded protein binding			ovary(2)	2	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.00896)			CCTATGATATAAGAGGAAATT	0.313													20	98					0	0	1	0	0		G	94793924	G	G	94793924	3	3	151	1	0	0	0	0	1	0	0	0	16221	352	13	3	1193	3	TMEM67	8	94793924	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	80374	94793924	51570098	2052	79217											
CDH17	1015	broad.mit.edu	37	chr8	95143161	95143161	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccatcattgatgcggatcaAgacgacatactccctctcct	10	10	6	15	2	3	2	2	1	1	1	5	4	4	3	3	1	2	0	3	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:95143161A>G	uc003ygh.2	-	16	2352	c.2227T>C	c.(2227-2229)TTG>CTG	p.L743L	CDH17_uc011lgo.1_Silent_p.L529L|CDH17_uc011lgp.1_Silent_p.L743L	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	743	Cadherin 7.|Extracellular (Potential).					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			ATGCGGATCAAGACGACATAC	0.478													18	101					0	0	1	0	0		G	95143161	G	G	95143161	2	3	151	1	0	0	0	0	0	0	0	1	3105	69	3	3		3	CDH17	8	95143161	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	349237	95143161	51220861	2053	79218											
CDH17	1015	broad.mit.edu	37	chr8	95161011	95161011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtacccgatatggacttcCggcttctctgtccaatggag	7	13	10	11	2	1	0	0	0	1	0	4	3	3	2	3	3	1	2	3	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:95161011C>T	uc003ygh.2	-	14	2013	c.1888G>A	c.(1888-1890)GGA>AGA	p.G630R	CDH17_uc011lgo.1_Missense_Mutation_p.G416R|CDH17_uc011lgp.1_Missense_Mutation_p.G630R	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	630	Cadherin 6.|Extracellular (Potential).					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			TATGGACTTCCGGCTTCTCTG	0.413													7	29					0	0	1	0	0		T	95161011	T	T	95161011	3	4	151	1	0	0	0	0	1	0	0	0	3105	661	23	1	630	1	CDH17	8	95161011	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	17850	95161011	51203011	2054	79219											
KIAA1429	25962	broad.mit.edu	37	chr8	95503952	95503952	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattccatcttgaggaaccActtctttactttcagcagca	10	14	6	11	0	3	1	1	1	2	0	4	2	4	2	2	1	4	3	2	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:95503952A>G	uc003ygo.1	-	22	5007	c.4994T>C	c.(4993-4995)GTG>GCG	p.V1665A	KIAA1429_uc010maz.1_Intron	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1665					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			TTGAGGAACCACTTCTTTACT	0.448													31	163					0	0	1	0	0		G	95503952	G	G	95503952	3	3	151	1	0	0	0	0	1	0	0	0	8247	159	6	3	456	3	KIAA1429	8	95503952	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	342941	95503952	50860070	2055	79220											
KIAA1429	25962	broad.mit.edu	37	chr8	95504890	95504890	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaattttaccttgacgttaTaaaggtctcatgcttgtgct	10	17	7	7	1	1	1	1	1	1	0	2	1	1	1	1	1	3	3	1	1	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:95504890T>C	uc003ygo.1	-	21	4811	c.4798A>G	c.(4798-4800)ATA>GTA	p.I1600V	KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1600					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			CTTGACGTTATAAAGGTCTCA	0.338													53	190					0	0	1	0	0		C	95504890	C	C	95504890	3	2	151	1	0	0	0	0	1	0	0	0	8247	1406	49	3	656	3	KIAA1429	8	95504890	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	938	95504890	50859132	2056	79221											
KIAA1429	25962	broad.mit.edu	37	chr8	95523695	95523695	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatatgtaaagtaacaagCgctgaaggaacacgcatgtc	16	7	10	8	2	0	1	0	1	0	0	1	2	0	2	0	1	4	5	0	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:95523695C>T	uc003ygo.1	-	13	3121	c.3108G>A	c.(3106-3108)GCG>GCA	p.A1036A	KIAA1429_uc003ygp.2_Silent_p.A1036A|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1036					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			AAGTAACAAGCGCTGAAGGAA	0.413													17	86					0	0	1	0	0		T	95523695	T	T	95523695	2	4	151	1	0	0	0	0	0	0	0	1	8247	755	27	1		1	KIAA1429	8	95523695	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	18805	95523695	50840327	2057	79222											
ESRP1	54845	broad.mit.edu	37	chr8	95690551	95690551	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagccctccacagcgtactAcccagcaggcactcagctct	9	6	8	18	1	2	0	1	0	1	0	3	0	3	0	3	1	6	5	3	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:95690551A>G	uc003ygq.3	+	13	1955	c.1772A>G	c.(1771-1773)TAC>TGC	p.Y591C	ESRP1_uc003ygr.3_Missense_Mutation_p.Y587C|ESRP1_uc003ygs.3_Missense_Mutation_p.Y587C|ESRP1_uc003ygt.3_Missense_Mutation_p.Y591C|ESRP1_uc003ygu.3_Missense_Mutation_p.Y587C|ESRP1_uc003ygv.2_Missense_Mutation_p.Y431C|ESRP1_uc003ygw.2_Missense_Mutation_p.Y431C	NM_017697	NP_060167	Q6NXG1	ESRP1_HUMAN	RNA binding motif protein 35A isoform 1	591					mRNA processing|regulation of RNA splicing|RNA splicing	nucleus|plasma membrane	mRNA binding|nucleotide binding		ESRP1/RAF1(4)	prostate(4)	4						ACAGCGTACTACCCAGCAGGC	0.507													15	62					0	0	1	0	0		G	95690551	G	G	95690551	3	3	151	1	0	0	0	0	1	0	0	0	5266	391	14	3	1822	3	ESRP1	8	95690551	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	166856	95690551	50673471	2058	79223											
DPY19L4	286148	broad.mit.edu	37	chr8	95746974	95746974	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacggaaattctggttttccAacaggcaggtaagaagaaag	16	8	11	6	1	1	2	0	0	1	2	2	3	2	3	1	4	2	3	1	4	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:95746974A>G	uc003ygx.2	+	3	368	c.244A>G	c.(244-246)AAC>GAC	p.N82D	DPY19L4_uc003ygy.2_Missense_Mutation_p.N19D	NM_181787	NP_861452	Q7Z388	D19L4_HUMAN	dpy-19-like 4	82						integral to membrane				ovary(2)	2	Breast(36;3.85e-06)					CTGGTTTTCCAACAGGCAGGT	0.373													11	90					0	0	1	0	0		G	95746974	G	G	95746974	3	3	151	1	0	0	0	0	1	0	0	0	4749	130	5	3	254	3	DPY19L4	8	95746974	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	56423	95746974	50617048	2059	79224											
TP53INP1	94241	broad.mit.edu	37	chr8	95942825	95942825	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctatttctgttaagaggcTgtctttcactgtgttctttt	5	20	9	7	0	4	1	1	0	3	1	4	1	4	1	0	2	0	4	0	2	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:95942825T>C	uc003yhg.2	-	4	989	c.605A>G	c.(604-606)CAG>CGG	p.Q202R	C8orf38_uc003yhe.1_Intron|C8orf38_uc003yhf.2_Intron|TP53INP1_uc003yhh.2_3'UTR	NM_033285	NP_150601	Q96A56	T53I1_HUMAN	tumor protein p53 inducible nuclear protein 1	202					apoptosis	PML body					0	Breast(36;8.75e-07)					GTTAAGAGGCTGTCTTTCACT	0.483													50	204					0	0	1	0	0		C	95942825	C	C	95942825	3	2	151	1	0	0	0	0	1	0	0	0	16414	1580	55	3	121	3	TP53INP1	8	95942825	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	195851	95942825	50421197	2060	79225											
PTDSS1	9791	broad.mit.edu	37	chr8	97307438	97307438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggccttgctgatccgtaGttacggtctctgctggacaa	8	11	12	10	2	1	1	0	1	1	0	3	3	2	2	2	3	3	4	2	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:97307438G>A	uc003yht.1	+	5	656	c.554G>A	c.(553-555)AGT>AAT	p.S185N	PTDSS1_uc003yhu.1_Missense_Mutation_p.S39N	NM_014754	NP_055569	P48651	PTSS1_HUMAN	phosphatidylserine synthase 1	185					phosphatidylserine biosynthetic process	integral to membrane	transferase activity			ovary(1)	1	Breast(36;6.18e-05)				Phosphatidylserine(DB00144)	CTGATCCGTAGTTACGGTCTC	0.493													19	95					0	0	1	0	0		A	97307438	A	A	97307438	3	1	151	1	0	0	0	0	1	0	0	0	12758	1029	36	4	572	4	PTDSS1	8	97307438	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1364613	97307438	49056584	2061	79226											
PGCP	10404	broad.mit.edu	37	chr8	98041636	98041636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttattattttcccagggctgCgtccaaagaggactctgcgg	8	12	11	10	2	1	1	0	0	1	1	3	2	3	2	2	3	2	1	2	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:98041636C>T	uc003yhw.2	+	6	1133	c.967C>T	c.(967-969)CGT>TGT	p.R323C		NM_016134	NP_057218	Q9Y646	PGCP_HUMAN	plasma glutamate carboxypeptidase precursor	323					peptide metabolic process|proteolysis	cytoplasm|extracellular space	metal ion binding|metallocarboxypeptidase activity			upper_aerodigestive_tract(1)	1	Breast(36;1.86e-05)					CCCAGGGCTGCGTCCAAAGAG	0.428													5	9					0	0	1	0	0		T	98041636	T	T	98041636	3	4	151	1	0	0	0	0	1	0	0	0	11805	768	27	1	985	1	PGCP	8	98041636	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	734198	98041636	48322386	2062	79227											
TSPYL5	85453	broad.mit.edu	37	chr8	98289418	98289418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgaaggtaggccctgtccgCctgggcgttcatgttctcca	5	10	12	14	3	2	0	1	0	1	0	4	1	3	0	5	3	0	3	5	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:98289418C>T	uc003yhy.2	-	1	759	c.655G>A	c.(655-657)GCG>ACG	p.A219T		NM_033512	NP_277047	Q86VY4	TSYL5_HUMAN	TSPY-like 5	219					cellular response to gamma radiation|nucleosome assembly|positive regulation of cell proliferation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|regulation of growth	nucleus	protein binding			large_intestine(1)|ovary(1)	2	Breast(36;2.56e-06)					GCCCTGTCCGCCTGGGCGTTC	0.607													10	80					0	0	1	0	0		T	98289418	T	T	98289418	3	4	151	1	0	0	0	0	1	0	0	0	16688	739	26	2	602	2	TSPYL5	8	98289418	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	247782	98289418	48074604	2063	79228											
TSPYL5	85453	broad.mit.edu	37	chr8	98289628	98289628	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgctacaggtttctggggCcttcttcccggcagggccac	4	10	14	13	1	2	0	0	0	2	0	3	0	3	0	3	6	2	3	3	6	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:98289628C>G	uc003yhy.2	-	1	549	c.445G>C	c.(445-447)GCC>CCC	p.A149P		NM_033512	NP_277047	Q86VY4	TSYL5_HUMAN	TSPY-like 5	149					cellular response to gamma radiation|nucleosome assembly|positive regulation of cell proliferation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|regulation of growth	nucleus	protein binding			large_intestine(1)|ovary(1)	2	Breast(36;2.56e-06)					GTTTCTGGGGCCTTCTTCCCG	0.657													21	68					0	0	1	0	0		G	98289628	G	G	98289628	3	3	151	1	0	0	0	0	1	0	0	0	16688	739	26	5	812	5	TSPYL5	8	98289628	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	210	98289628	48074394	2064	79229											
VPS13B	157680	broad.mit.edu	37	chr8	100396469	100396469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcagtatacaaggactagCagttaatattgacccaatct	14	12	7	8	0	1	1	0	1	1	0	1	2	1	2	1	1	3	4	1	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:100396469C>T	uc003yiv.2	+	20	2969	c.2858C>T	c.(2857-2859)GCA>GTA	p.A953V	VPS13B_uc003yiw.2_Missense_Mutation_p.A953V|VPS13B_uc003yiu.1_Missense_Mutation_p.A953V|VPS13B_uc003yix.1_Missense_Mutation_p.A424V	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	953					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CAAGGACTAGCAGTTAATATT	0.289													40	214					0	0	1	0	0		T	100396469	T	T	100396469	3	4	151	1	0	0	0	0	1	0	0	0	17216	710	25	2	3055	2	VPS13B	8	100396469	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2106841	100396469	45967553	2065	79230											
VPS13B	157680	broad.mit.edu	37	chr8	100403908	100403908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctctgaatatgccagcagcCctgtaaaaacaaaaacggta	16	7	7	11	1	1	1	0	1	1	0	1	1	1	1	3	1	5	3	3	1	8	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:100403908C>T	uc003yiv.2	+	21	3169	c.3058C>T	c.(3058-3060)CCT>TCT	p.P1020S	VPS13B_uc003yiw.2_Missense_Mutation_p.P1020S|VPS13B_uc003yiu.1_Missense_Mutation_p.P1020S|VPS13B_uc003yix.1_Missense_Mutation_p.P490S	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1020					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TGCCAGCAGCCCTGTAAAAAC	0.294													15	68					0	0	1	0	0		T	100403908	T	T	100403908	3	4	151	1	0	0	0	0	1	0	0	0	17216	623	22	4	3259	4	VPS13B	8	100403908	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	7439	100403908	45960114	2066	79231											
VPS13B	157680	broad.mit.edu	37	chr8	100711773	100711773	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatgtcaatttggatataTcaaagcctttgaaagcaaac	15	11	8	7	1	2	1	2	1	0	0	2	3	2	3	1	2	3	1	1	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:100711773T>A	uc003yiv.2	+	36	6253	c.6142T>A	c.(6142-6144)TCA>ACA	p.S2048T	VPS13B_uc003yiw.2_Missense_Mutation_p.S2023T	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2048					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TTTGGATATATCAAAGCCTTT	0.338													16	93					0	0	1	0	0		A	100711773	A	A	100711773	3	1	151	1	0	0	0	0	1	0	0	0	17216	1435	50	5	6474	5	VPS13B	8	100711773	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	307865	100711773	45652249	2067	79232											
VPS13B	157680	broad.mit.edu	37	chr8	100833587	100833587	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaagtcagtagcaattaaActggtccataacctgacatc	15	9	6	11	0	1	1	1	1	0	0	3	1	2	1	2	1	3	2	2	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:100833587A>G	uc003yiv.2	+	50	9246	c.9135A>G	c.(9133-9135)AAA>AAG	p.K3045K	VPS13B_uc003yiw.2_Silent_p.K3020K	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3045					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TAGCAATTAAACTGGTCCATA	0.363													25	120					0	0	1	0	0		G	100833587	G	G	100833587	2	3	151	1	0	0	0	0	0	0	0	1	17216	40	2	3		3	VPS13B	8	100833587	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	121814	100833587	45530435	2068	79233											
VPS13B	157680	broad.mit.edu	37	chr8	100871606	100871606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatcgggaacggggtcgccGacttcttcaggcttccgtat	6	10	13	12	5	2	0	1	0	1	0	5	2	3	1	2	4	1	3	2	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:100871606G>A	uc003yiv.2	+	57	11128	c.11017G>A	c.(11017-11019)GAC>AAC	p.D3673N	VPS13B_uc003yiw.2_Missense_Mutation_p.D3648N	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3673					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CGGGGTCGCCGACTTCTTCAG	0.597													15	64					0	0	1	0	0		A	100871606	A	A	100871606	3	1	151	1	0	0	0	0	1	0	0	0	17216	1058	37	1	11433	1	VPS13B	8	100871606	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	38019	100871606	45492416	2069	79234											
VPS13B	157680	broad.mit.edu	37	chr8	100871692	100871692	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagggaccacatcgtttgtAaagcacatctccaaaggtag	14	8	10	9	1	1	1	0	0	1	1	3	2	1	2	2	2	1	4	2	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:100871692A>G	uc003yiv.2	+	57	11214	c.11103A>G	c.(11101-11103)GTA>GTG	p.V3701V	VPS13B_uc003yiw.2_Silent_p.V3676V	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3701					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CATCGTTTGTAAAGCACATCT	0.498													25	81					0	0	1	0	0		G	100871692	G	G	100871692	2	3	151	1	0	0	0	0	0	0	0	1	17216	349	13	3		3	VPS13B	8	100871692	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	86	100871692	45492330	2070	79235											
RGS22	26166	broad.mit.edu	37	chr8	100974620	100974620	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacattcagactatgacgtAccttgaacctatcagcagca	14	9	6	12	1	2	3	2	2	0	1	2	3	2	3	2	0	5	3	2	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:100974620A>G	uc003yjb.1	-	27	4035	c.3840_splice	c.e27+1		RGS22_uc003yja.1_Splice_Site|RGS22_uc003yjc.1_Splice_Site	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22						negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			ACTATGACGTACCTTGAACCT	0.403													18	57					0	0	1	0	0		G	100974620	G	G	100974620	5	3	151	1	0	0	0	0	0	0	1	0	13330	405	14	3		3	RGS22	8	100974620	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	102928	100974620	45389402	2071	79236											
UBR5	51366	broad.mit.edu	37	chr8	103297965	103297965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtactgatggtaccactccGgcgtaagtttgaaggatcaa	11	11	11	8	2	1	2	1	2	0	0	2	3	2	3	2	3	2	4	2	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:103297965G>A	uc003ykr.1	-	39	5293	c.5260C>T	c.(5260-5262)CGG>TGG	p.R1754W	UBR5_uc003yks.1_Missense_Mutation_p.R1754W	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1754					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			GTACCACTCCGGCGTAAGTTT	0.458													18	73					0	0	1	0	0		A	103297965	A	A	103297965	3	1	151	1	0	0	0	0	1	0	0	0	16931	1115	39	1	3223	1	UBR5	8	103297965	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2323345	103297965	43066057	2072	79237											
UBR5	51366	broad.mit.edu	37	chr8	103312362	103312362	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcaacgaacgtctcatcAtttcccgtaatctcaaacta	12	12	3	14	3	4	0	4	0	3	0	8	1	5	0	1	0	3	1	1	0	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:103312362A>G	uc003ykr.1	-	23	3005	c.2972T>C	c.(2971-2973)ATG>ACG	p.M991T	UBR5_uc003yks.1_Missense_Mutation_p.M991T	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	991					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			ACGTCTCATCATTTCCCGTAA	0.453													13	172					0	0	1	0	0		G	103312362	G	G	103312362	3	3	151	1	0	0	0	0	1	0	0	0	16931	217	8	3	5575	3	UBR5	8	103312362	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	14397	103312362	43051660	2073	79238											
UBR5	51366	broad.mit.edu	37	chr8	103338886	103338886	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctttgactaaaaggaactAcacccctgaaaacaaaaaac	19	7	4	11	0	0	2	0	2	0	0	1	3	1	3	3	1	4	0	3	1	9	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:103338886A>G	uc003ykr.1	-	13	1520	c.1487T>C	c.(1486-1488)GTA>GCA	p.V496A	UBR5_uc003yks.1_Missense_Mutation_p.V496A	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	496					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			AAAAGGAACTACACCCCTGAA	0.333													9	59					0	0	1	0	0		G	103338886	G	G	103338886	3	3	151	1	0	0	0	0	1	0	0	0	16931	391	14	3	7100	3	UBR5	8	103338886	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	26524	103338886	43025136	2074	79239											
FZD6	8323	broad.mit.edu	37	chr8	104330885	104330885	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcctctgcaaagcatttgTaccaacctgcatagaacaaa	14	11	5	11	0	1	1	0	0	1	1	2	1	2	1	3	0	6	4	3	0	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:104330885T>C	uc003ylh.2	+	3	529	c.245T>C	c.(244-246)GTA>GCA	p.V82A	FZD6_uc003yli.2_Missense_Mutation_p.V82A|FZD6_uc003ylj.2_Missense_Mutation_p.V82A|FZD6_uc011lhn.1_Missense_Mutation_p.V48A|FZD6_uc011lho.1_Intron|FZD6_uc011lhp.1_Missense_Mutation_p.V27A	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	82	FZ.|Extracellular (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			AAAGCATTTGTACCAACCTGC	0.348													39	155					0	0	1	0	0		C	104330885	C	C	104330885	3	2	151	1	0	0	0	0	1	0	0	0	6148	1638	57	3	251	3	FZD6	8	104330885	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	991999	104330885	42033137	2075	79240											
RIMS2	9699	broad.mit.edu	37	chr8	105263882	105263882	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaaatcttttatgggagTggcccagatacttttagatg	11	14	9	7	0	2	2	1	0	1	2	2	3	2	3	1	2	1	0	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:105263882T>C	uc003yls.2	+	28	4179	c.3938T>C	c.(3937-3939)GTG>GCG	p.V1313A	RIMS2_uc003ylp.2_Missense_Mutation_p.V1295A|RIMS2_uc003ylq.2_Missense_Mutation_p.V1109A|RIMS2_uc003ylr.2_Missense_Mutation_p.V1134A	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1357	C2 2.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TTTATGGGAGTGGCCCAGATA	0.438										HNSCC(12;0.0054)			41	175					0	0	1	0	0		C	105263882	C	C	105263882	3	2	151	1	0	0	0	0	1	0	0	0	13393	1696	59	3	4174	3	RIMS2	8	105263882	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	932997	105263882	41100140	2076	79241											
LRP12	29967	broad.mit.edu	37	chr8	105510164	105510164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaaagcagcagcagttggagGatttgcttctttggcacaga	12	10	12	7	0	1	1	0	0	1	1	1	3	1	3	0	3	4	6	0	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:105510164G>A	uc003yma.2	-	5	711	c.616C>T	c.(616-618)CCT>TCT	p.P206S	LRP12_uc003ymb.2_Missense_Mutation_p.P187S|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	206	Extracellular (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GCAGTTGGAGGATTTGCTTCT	0.418													42	209					0	0	1	0	0		A	105510164	A	A	105510164	3	1	151	1	0	0	0	0	1	0	0	0	8972	1174	41	4	1975	4	LRP12	8	105510164	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	246282	105510164	40853858	2077	79242											
OXR1	55074	broad.mit.edu	37	chr8	107758085	107758085	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcactagctttcggtggTggagggtaagtctcttgaac	8	13	13	7	1	2	1	1	1	1	0	4	3	2	2	0	4	2	2	0	4	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:107758085T>C	uc011lht.1	+	15	2583	c.2484T>C	c.(2482-2484)GGT>GGC	p.G828G	OXR1_uc003ymf.2_Silent_p.G800G|OXR1_uc011lhu.1_Silent_p.G793G|OXR1_uc010mcg.2_RNA|OXR1_uc010mch.2_Silent_p.G456G|OXR1_uc003ymk.2_Silent_p.G197G|OXR1_uc003yml.2_Silent_p.G170G	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	828	TLD.				cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			CTTTCGGTGGTGGAGGGTAAG	0.289													15	98					0	0	1	0	0		C	107758085	C	C	107758085	2	2	151	1	0	0	0	0	0	0	0	1	11353	1683	59	3		3	OXR1	8	107758085	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2247921	107758085	38605937	2078	79243											
EIF3E	3646	broad.mit.edu	37	chr8	109260960	109260960	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaagggagtctgtgctcActaaaactttattggtagcg	13	11	11	6	1	2	1	1	0	1	1	2	2	2	2	0	2	3	2	0	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:109260960A>G	uc003ymu.2	-	1	1	c.-27_splice	c.e1-1		EIF3E_uc003ymv.2_Splice_Site|EIF3E_uc010mci.1_Splice_Site|EIF3E_uc010mcj.1_Splice_Site	NM_001568	NP_001559	P60228	EIF3E_HUMAN	eukaryotic translation initiation factor 3,						negative regulation of translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|eukaryotic translation initiation factor 3 complex|PML body	protein N-terminus binding			ovary(2)|kidney(1)	3			OV - Ovarian serous cystadenocarcinoma(57;6.84e-10)			GTCTGTGCTCACTAAAACTTT	0.493													7	24					0	0	1	0	0		G	109260960	G	G	109260960	5	3	151	1	0	0	0	0	0	0	1	0	5023	174	6	3		3	EIF3E	8	109260960	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1502875	109260960	37103062	2079	79244											
NUDCD1	84955	broad.mit.edu	37	chr8	110257628	110257628	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgccagagtagggcatcaAcatcatggcgcaaacagaag	14	6	12	9	1	2	2	2	0	0	2	2	2	2	2	1	2	3	4	1	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:110257628A>G	uc003ynb.3	-	9	1493	c.1382T>C	c.(1381-1383)GTT>GCT	p.V461A	NUDCD1_uc003yna.2_Missense_Mutation_p.V432A|NUDCD1_uc010mcl.2_Missense_Mutation_p.V374A	NM_032869	NP_116258	Q96RS6	NUDC1_HUMAN	NudC domain containing 1 isoform 1	461										ovary(1)|breast(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;1.56e-12)			TAGGGCATCAACATCATGGCG	0.413													17	92					0	0	1	0	0		G	110257628	G	G	110257628	3	3	151	1	0	0	0	0	1	0	0	0	10741	43	2	3	377	3	NUDCD1	8	110257628	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	996668	110257628	36106394	2080	79245											
PKHD1L1	93035	broad.mit.edu	37	chr8	110425663	110425663	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgtagttatgtttagcatAcaaaggattcctggcaaatt	13	15	8	5	0	0	0	0	0	0	0	1	1	1	1	1	2	2	5	1	2	7	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:110425663A>G	uc003yne.2	+	21	2353	c.2249A>G	c.(2248-2250)TAC>TGC	p.Y750C		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	750	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TGTTTAGCATACAAAGGATTC	0.274										HNSCC(38;0.096)			5	24					0	0	1	0	0		G	110425663	G	G	110425663	3	3	151	1	0	0	0	0	1	0	0	0	11991	391	14	3	2331	3	PKHD1L1	8	110425663	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	168035	110425663	35938359	2081	79246											
PKHD1L1	93035	broad.mit.edu	37	chr8	110453524	110453524	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtccatcccttgcaatgttAcatcatcatcagaaaatgtc	12	12	6	11	0	3	1	3	0	0	1	6	1	5	1	2	1	2	2	2	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:110453524A>G	uc003yne.2	+	34	4224	c.4120A>G	c.(4120-4122)ACA>GCA	p.T1374A		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1374	Extracellular (Potential).|IPT/TIG 7.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTGCAATGTTACATCATCATC	0.299										HNSCC(38;0.096)			9	34					0	0	1	0	0		G	110453524	G	G	110453524	3	3	151	1	0	0	0	0	1	0	0	0	11991	391	14	3	4254	3	PKHD1L1	8	110453524	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	27861	110453524	35910498	2082	79247											
PKHD1L1	93035	broad.mit.edu	37	chr8	110474095	110474095	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttatgtttcatgctcctgtAcctggtgctaacatggtaac	8	15	9	9	0	1	0	1	0	0	0	2	0	2	0	2	2	5	6	2	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:110474095A>G	uc003yne.2	+	48	7445	c.7341A>G	c.(7339-7341)GTA>GTG	p.V2447V		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2447	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ATGCTCCTGTACCTGGTGCTA	0.408										HNSCC(38;0.096)			7	16					0	0	1	0	0		G	110474095	G	G	110474095	2	3	151	1	0	0	0	0	0	0	0	1	11991	378	14	3		3	PKHD1L1	8	110474095	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	20571	110474095	35889927	2083	79248											
KCNV1	27012	broad.mit.edu	37	chr8	110980664	110980664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtagtcatagaggtggtggCccaccaccatgcacaaggga	12	6	13	10	0	1	1	1	0	0	1	1	2	1	2	3	4	1	2	3	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:110980664C>T	uc003ynr.3	-	3	1498	c.1156G>A	c.(1156-1158)GCC>ACC	p.A386T	KCNV1_uc010mcw.2_Missense_Mutation_p.A386T	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	386						voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			GAGGTGGTGGCCCACCACCAT	0.458													10	138					0	0	1	0	0		T	110980664	T	T	110980664	3	4	151	1	0	0	0	0	1	0	0	0	8110	739	26	2	350	2	KCNV1	8	110980664	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	506569	110980664	35383358	2084	79249											
CSMD3	114788	broad.mit.edu	37	chr8	113256718	113256718	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagccaggctgacaggtaTaaatcagtgtatacccatga	15	8	10	8	0	1	3	1	2	0	1	1	3	1	3	2	2	2	3	2	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:113256718T>C	uc003ynu.2	-	65	10466	c.10307A>G	c.(10306-10308)TAT>TGT	p.Y3436C	CSMD3_uc003yns.2_Missense_Mutation_p.Y2638C|CSMD3_uc003ynt.2_Missense_Mutation_p.Y3396C|CSMD3_uc011lhx.1_Missense_Mutation_p.Y3267C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3436	Extracellular (Potential).|Sushi 28.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CTGACAGGTATAAATCAGTGT	0.443										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			29	128					0	0	1	0	0		C	113256718	C	C	113256718	3	2	151	1	0	0	0	0	1	0	0	0	3949	1406	49	3	844	3	CSMD3	8	113256718	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2276054	113256718	33107304	2085	79250											
CSMD3	114788	broad.mit.edu	37	chr8	113702138	113702138	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaccattggttattctctTgacaaacaatggatttctct	11	15	6	9	0	2	2	0	1	2	1	4	3	2	3	1	2	1	1	1	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:113702138T>C	uc003ynu.2	-	14	2273	c.2114A>G	c.(2113-2115)CAA>CGA	p.Q705R	CSMD3_uc003yns.2_5'UTR|CSMD3_uc003ynt.2_Missense_Mutation_p.Q665R|CSMD3_uc011lhx.1_Missense_Mutation_p.Q601R	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	705	Extracellular (Potential).|Sushi 3.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GTTATTCTCTTGACAAACAAT	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			44	174					0	0	1	0	0		C	113702138	C	C	113702138	3	2	151	1	0	0	0	0	1	0	0	0	3949	1812	63	3	9241	3	CSMD3	8	113702138	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	445420	113702138	32661884	2086	79251											
TRPS1	7227	broad.mit.edu	37	chr8	116599390	116599390	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgccagatgggcggcctcCacattgggactatcccttag	7	8	12	14	3	0	1	0	0	0	1	2	2	2	2	4	3	0	0	4	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:116599390C>T	uc003ynz.2	-	4	2958	c.2499G>A	c.(2497-2499)GTG>GTA	p.V833V	TRPS1_uc011lhy.1_Silent_p.V837V|TRPS1_uc003yny.2_Silent_p.V846V|TRPS1_uc010mcy.2_Silent_p.V833V	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	833					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GGGCGGCCTCCACATTGGGAC	0.617									Langer-Giedion_syndrome				33	122					0	0	1	0	0		T	116599390	T	T	116599390	2	4	151	1	0	0	0	0	0	0	0	1	16619	581	21	4		4	TRPS1	8	116599390	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2897252	116599390	29764632	2087	79252											
TRPS1	7227	broad.mit.edu	37	chr8	116616290	116616290	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtacatctacgtcaggggTggtgaatgaacactgatggc	11	9	14	7	1	2	3	1	3	1	0	2	4	2	3	0	4	3	1	0	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:116616290T>C	uc003ynz.2	-	3	2326	c.1867A>G	c.(1867-1869)ACC>GCC	p.T623A	TRPS1_uc011lhy.1_Missense_Mutation_p.T627A|TRPS1_uc003yny.2_Missense_Mutation_p.T636A|TRPS1_uc010mcy.2_Missense_Mutation_p.T623A	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	623	C2H2-type 3; atypical.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			ACGTCAGGGGTGGTGAATGAA	0.498									Langer-Giedion_syndrome				10	66					0	0	1	0	0		C	116616290	C	C	116616290	3	2	151	1	0	0	0	0	1	0	0	0	16619	1696	59	3	1994	3	TRPS1	8	116616290	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	16900	116616290	29747732	2088	79253											
TRPS1	7227	broad.mit.edu	37	chr8	116617019	116617019	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtgcagggatggacttgtTagagtttttctctgaaggtt	9	15	13	4	0	1	2	0	1	1	1	2	4	1	4	0	3	1	4	0	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:116617019T>C	uc003ynz.2	-	3	1597	c.1138A>G	c.(1138-1140)AAC>GAC	p.N380D	TRPS1_uc011lhy.1_Missense_Mutation_p.N384D|TRPS1_uc003yny.2_Missense_Mutation_p.N393D|TRPS1_uc010mcy.2_Missense_Mutation_p.N380D	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	380					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			ATGGACTTGTTAGAGTTTTTC	0.433									Langer-Giedion_syndrome				24	89					0	0	1	0	0		C	116617019	C	C	116617019	3	2	151	1	0	0	0	0	1	0	0	0	16619	1754	61	3	2723	3	TRPS1	8	116617019	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	729	116617019	29747003	2089	79254											
EXT1	2131	broad.mit.edu	37	chr8	118825188	118825188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgtcgtagggcagaaaacGgctgctcataacctgggagg	10	8	15	8	2	1	1	1	0	0	1	2	2	1	2	1	4	3	5	1	4	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:118825188G>A	uc003yok.1	-	8	2418	c.1645C>T	c.(1645-1647)CGT>TGT	p.R549C		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	549	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			GGCAGAAAACGGCTGCTCATA	0.517			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				5	22					0	0	1	0	0		A	118825188	A	A	118825188	3	1	151	1	0	0	0	0	1	0	0	0	5331	1116	39	1	611	1	EXT1	8	118825188	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2208169	118825188	27538834	2090	79255											
EXT1	2131	broad.mit.edu	37	chr8	118831934	118831934	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgggcacagtactgggacTtggctgcagccacgagaagc	9	6	14	12	1	0	1	0	0	0	1	0	3	0	2	2	3	4	4	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:118831934T>A	uc003yok.1	-	6	2290	c.1517A>T	c.(1516-1518)AAG>ATG	p.K506M		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	506	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			GTACTGGGACTTGGCTGCAGC	0.597			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				7	70					0	0	1	0	0		A	118831934	A	A	118831934	3	1	151	1	0	0	0	0	1	0	0	0	5331	1609	56	5	747	5	EXT1	8	118831934	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6746	118831934	27532088	2091	79256											
TAF2	6873	broad.mit.edu	37	chr8	120809270	120809270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acaaccaaaaaactgctgggCcaaggattgggctaaacacc	16	5	9	11	0	0	0	0	0	0	0	0	1	0	1	3	3	4	2	3	3	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:120809270C>T	uc003you.2	-	8	1321	c.1051G>A	c.(1051-1053)GCC>ACC	p.A351T		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	351					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			AACTGCTGGGCCAAGGATTGG	0.363													19	94					0	0	1	0	0		T	120809270	T	T	120809270	3	4	151	1	0	0	0	0	1	0	0	0	15549	739	26	2	2624	2	TAF2	8	120809270	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1977336	120809270	25554752	2092	79257											
DEPDC6	64798	broad.mit.edu	37	chr8	120977536	120977536	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggggtcaagtatgagcgcAccttcatggcatctgaattc	11	10	11	9	1	3	2	2	2	1	0	4	2	3	2	1	3	1	3	1	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:120977536A>G	uc003yow.3	+	4	677	c.490A>G	c.(490-492)ACC>GCC	p.T164A	DEPDC6_uc011lid.1_Missense_Mutation_p.T63A	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	164	DEP 2.				intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GTATGAGCGCACCTTCATGGC	0.532													14	85					0	0	1	0	0		G	120977536	G	G	120977536	3	3	151	1	0	0	0	0	1	0	0	0	4449	159	6	3	504	3	DEPDC6	8	120977536	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	168266	120977536	25386486	2093	79258											
DEPDC6	64798	broad.mit.edu	37	chr8	121061867	121061867	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgtcctgcatgtagactAccggaccgtgagcaatctga	11	9	10	11	2	1	3	0	2	1	1	2	4	2	4	3	1	3	3	3	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:121061867A>G	uc003yow.3	+	9	1341	c.1154A>G	c.(1153-1155)TAC>TGC	p.Y385C	DEPDC6_uc011lid.1_Missense_Mutation_p.Y284C	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	385	PDZ.				intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CATGTAGACTACCGGACCGTG	0.517													30	130					0	0	1	0	0		G	121061867	G	G	121061867	3	3	151	1	0	0	0	0	1	0	0	0	4449	391	14	3	1188	3	DEPDC6	8	121061867	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	84331	121061867	25302155	2094	79259											
COL14A1	7373	broad.mit.edu	37	chr8	121327827	121327827	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccttccaggtccacaggTattatttttgttttttaagt	7	19	8	7	0	0	0	0	0	0	0	2	0	2	0	3	3	0	2	3	3	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:121327827T>C	uc003yox.2	+	39	4870	c.4605_splice	c.e39+2	p.Q1535_splice	COL14A1_uc003yoz.2_Splice_Site_p.Q500_splice	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor						cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			GGTCCACAGGTATTATTTTTG	0.388													12	44					0	0	1	0	0		C	121327827	C	C	121327827	5	2	151	1	0	0	0	0	0	0	1	0	3674	1652	57	3	4757	3	COL14A1	8	121327827	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	265960	121327827	25036195	2095	79260											
HAS2	3037	broad.mit.edu	37	chr8	122641473	122641473	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtaattatccgtttggatAaactggtagccaacaatata	15	13	7	6	1	0	0	0	0	0	0	1	1	1	1	2	2	3	3	2	2	10	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:122641473A>G	uc003yph.2	-	2	646	c.108T>C	c.(106-108)TTT>TTC	p.F36F		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	36	Extracellular (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			CCGTTTGGATAAACTGGTAGC	0.423													4	167					0	0	1	0	0		G	122641473	G	G	122641473	2	3	151	1	0	0	0	0	0	0	0	1	6978	359	13	3		3	HAS2	8	122641473	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1313646	122641473	23722549	2096	79261											
ZHX2	22882	broad.mit.edu	37	chr8	123964290	123964290	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagtgattctgggatctcGgtgagtaaaacccccatcat	11	10	10	10	1	3	2	1	2	2	0	4	4	3	3	2	2	1	1	2	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:123964290G>T	uc003ypk.1	+	3	1107	c.540G>T	c.(538-540)TCG>TCT	p.S180S		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	180						cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			CTGGGATCTCGGTGAGTAAAA	0.527													28	91					5.77227e-19	6.01823e-19	1	1	0		T	123964290	T	T	123964290	2	4	151	1	0	0	0	0	0	0	0	1	17701	1103	39	5		5	ZHX2	8	123964290	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1322817	123964290	22399732	2097	79262											
WDR67	93594	broad.mit.edu	37	chr8	124140543	124140543	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttttcaccatcggaataAcctggatataaatgttgtga	12	16	7	6	1	1	1	1	1	0	0	2	3	1	3	2	2	1	1	2	2	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:124140543A>G	uc003ypp.1	+	14	1997	c.1907A>G	c.(1906-1908)AAC>AGC	p.N636S	WDR67_uc011lig.1_Missense_Mutation_p.N636S|WDR67_uc011lih.1_Missense_Mutation_p.N526S|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Intron|WDR67_uc003ypt.1_Missense_Mutation_p.N93S|WDR67_uc003ypu.1_Missense_Mutation_p.N93S	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	636						centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			CATCGGAATAACCTGGATATA	0.338													34	126					0	0	1	0	0		G	124140543	G	G	124140543	3	3	151	1	0	0	0	0	1	0	0	0	17344	43	2	3	1961	3	WDR67	8	124140543	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	176253	124140543	22223479	2098	79263											
WDR67	93594	broad.mit.edu	37	chr8	124164129	124164129	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatcttcgccagagactcActgcccgggctcgtcacaga	10	7	10	14	3	3	2	2	0	1	2	5	4	3	2	2	1	1	1	2	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:124164129A>G	uc003ypp.1	+	22	3241	c.3151A>G	c.(3151-3153)ACT>GCT	p.T1051A	WDR67_uc011lig.1_Missense_Mutation_p.T955A|WDR67_uc011lih.1_Missense_Mutation_p.T941A|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Missense_Mutation_p.T685A|WDR67_uc003ypt.1_Missense_Mutation_p.T443A|WDR67_uc003ypu.1_Missense_Mutation_p.T443A	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	1051						centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			CCAGAGACTCACTGCCCGGGC	0.438													9	60					0	0	1	0	0		G	124164129	G	G	124164129	3	3	151	1	0	0	0	0	1	0	0	0	17344	159	6	3	3237	3	WDR67	8	124164129	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	23586	124164129	22199893	2099	79264											
ZHX1	11244	broad.mit.edu	37	chr8	124267009	124267009	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtaaggaccagaccaggcTgaccaactatttggcatgtc	12	8	11	10	0	0	2	0	1	0	1	1	4	0	3	3	3	1	3	3	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:124267009T>C	uc003yqe.2	-	3	1608	c.1178A>G	c.(1177-1179)CAG>CGG	p.Q393R	C8orf76_uc003yqd.2_Intron|ZHX1_uc003yqf.2_Missense_Mutation_p.Q393R|ZHX1_uc003yqg.2_Intron|ZHX1_uc010mdi.2_Missense_Mutation_p.Q393R	NM_007222	NP_009153	Q9UKY1	ZHX1_HUMAN	zinc fingers and homeoboxes 1	393	Required for dimerization.|Required for interaction with NFYA.				negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			CAGACCAGGCTGACCAACTAT	0.438													40	176					0	0	1	0	0		C	124267009	C	C	124267009	3	2	151	1	0	0	0	0	1	0	0	0	17700	1580	55	3	1447	3	ZHX1	8	124267009	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	102880	124267009	22097013	2100	79265											
ATAD2	29028	broad.mit.edu	37	chr8	124348743	124348743	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagatgaaaggtccattggTtgctttattacagtgacata	13	13	9	6	0	0	3	0	2	0	1	1	3	1	3	1	2	2	2	1	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:124348743T>C	uc003yqh.3	-	22	3189	c.3081A>G	c.(3079-3081)CAA>CAG	p.Q1027Q	ATAD2_uc011lii.1_Silent_p.Q818Q|ATAD2_uc003yqi.3_RNA	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	1027	Bromo.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			GGTCCATTGGTTGCTTTATTA	0.328													31	183					0	0	1	0	0		C	124348743	C	C	124348743	2	2	151	1	0	0	0	0	0	0	0	1	1072	1722	60	3		3	ATAD2	8	124348743	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	81734	124348743	22015279	2101	79266											
ATAD2	29028	broad.mit.edu	37	chr8	124382167	124382167	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcatcatcttcatcatcAtcatcatcatcatcatcgtc	10	16	1	14	1	12	0	10	0	2	0	14	0	12	0	0	0	0	0	0	0	0	2	rs149531312	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:124382167A>T	uc003yqh.3	-	7	933	c.825T>A	c.(823-825)GAT>GAA	p.D275E	ATAD2_uc011lii.1_Missense_Mutation_p.D66E|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.D275E	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	275	Asp-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			cttcatcatcatcatcatcat	0.179													10	62					0	0	1	0	0		T	124382167	T	T	124382167	3	4	151	1	0	0	0	0	1	0	0	0	1072	214	8	5	3435	5	ATAD2	8	124382167	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	33424	124382167	21981855	2102	79267											
ANXA13	312	broad.mit.edu	37	chr8	124705988	124705988	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcctgaccagctagatctTtgtccacgtcatctccttca	8	13	5	15	1	4	2	2	1	2	1	7	2	6	2	4	0	1	1	4	0	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:124705988T>C	uc003yqu.2	-	7	576	c.503A>G	c.(502-504)AAA>AGA	p.K168R	ANXA13_uc003yqt.2_Missense_Mutation_p.K209R	NM_004306	NP_004297	P27216	ANX13_HUMAN	annexin A13 isoform a	168					cell differentiation	plasma membrane	calcium ion binding|calcium-dependent phospholipid binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(37;2.06e-11)|Ovarian(258;0.00579)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00288)			AGCTAGATCTTTGTCCACGTC	0.353													67	234					0	0	1	0	0		C	124705988	C	C	124705988	3	2	151	1	0	0	0	0	1	0	0	0	717	1841	64	3	467	3	ANXA13	8	124705988	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	323821	124705988	21658034	2103	79268											
FER1L6	654463	broad.mit.edu	37	chr8	125015417	125015417	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctgcaggtaattttggAaacctgattgatggaggatc	10	12	12	7	0	1	2	0	2	1	0	2	5	1	5	2	4	2	2	2	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:125015417A>G	uc003yqw.2	+	13	1736	c.1530A>G	c.(1528-1530)GGA>GGG	p.G510G	uc003yqx.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	510	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			GTAATTTTGGAAACCTGATTG	0.498													50	193					0	0	1	0	0		G	125015417	G	G	125015417	2	3	151	1	0	0	0	0	0	0	0	1	5829	233	9	3		3	FER1L6	8	125015417	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	309429	125015417	21348605	2104	79269											
RNF139	11236	broad.mit.edu	37	chr8	125498142	125498142	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttttacacgtacagctcAgcctttctgttagctgcaac	10	13	7	11	1	2	0	1	0	1	0	2	0	2	0	1	0	7	6	1	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:125498142A>G	uc003yrc.2	+	2	595	c.252A>G	c.(250-252)TCA>TCG	p.S84S		NM_007218	NP_009149	Q8WU17	RN139_HUMAN	ring finger protein 139	84					negative regulation of cell proliferation|regulation of protein ubiquitination	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			CGTACAGCTCAGCCTTTCTGT	0.378									Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				31	158					0	0	1	0	0		G	125498142	G	G	125498142	2	3	151	1	0	0	0	0	0	0	0	1	13467	175	7	3		3	RNF139	8	125498142	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	482725	125498142	20865880	2105	79270											
TATDN1	83940	broad.mit.edu	37	chr8	125528239	125528239	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaaattcaccacatcttgTaggatgacatccaactgtac	13	12	5	11	0	3	1	2	1	1	0	4	2	4	2	2	1	2	2	2	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:125528239T>C	uc003yrd.2	-	5	277	c.235A>G	c.(235-237)ACA>GCA	p.T79A	TATDN1_uc003yre.2_RNA|TATDN1_uc010mdm.2_Missense_Mutation_p.T32A|TATDN1_uc003yrf.2_Missense_Mutation_p.T79A	NM_032026	NP_114415	Q6P1N9	TATD1_HUMAN	TatD DNase domain containing 1 isoform a	79						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding				0	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			CCACATCTTGTAGGATGACAT	0.294													15	76					0	0	1	0	0		C	125528239	C	C	125528239	3	2	151	1	0	0	0	0	1	0	0	0	15616	1638	57	3	690	3	TATDN1	8	125528239	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	30097	125528239	20835783	2106	79271											
KIAA0196	9897	broad.mit.edu	37	chr8	126087304	126087304	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgcagctttgtaaggtTcccaagcatctactagatta	10	16	7	8	0	1	1	0	0	1	1	2	1	2	1	1	1	4	5	1	1	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:126087304T>C	uc003yrt.2	-	8	1243	c.914A>G	c.(913-915)GAA>GGA	p.E305G	KIAA0196_uc011lir.1_Missense_Mutation_p.E157G	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	305					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			TTTGTAAGGTTCCCAAGCATC	0.383													56	175					0	0	1	0	0		C	126087304	C	C	126087304	3	2	151	1	0	0	0	0	1	0	0	0	8177	1783	62	3	2653	3	KIAA0196	8	126087304	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	559065	126087304	20276718	2107	79272											
ADCY8	114	broad.mit.edu	37	chr8	131812714	131812714	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattgagcaagcgcaggcaTtccactccctggttattcat	9	12	8	12	1	2	1	2	1	0	0	4	1	4	1	2	2	2	4	2	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:131812714T>C	uc003ytd.3	-	15	3274	c.3018A>G	c.(3016-3018)GAA>GAG	p.E1006E	ADCY8_uc010mds.2_Silent_p.E875E	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1006	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			AGCGCAGGCATTCCACTCCCT	0.443										HNSCC(32;0.087)			45	171					0	0	1	0	0		C	131812714	C	C	131812714	2	2	151	1	0	0	0	0	0	0	0	1	300	1490	52	3		3	ADCY8	8	131812714	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5725410	131812714	14551308	2108	79273											
EFR3A	23167	broad.mit.edu	37	chr8	132997309	132997309	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgccagcatgttagcaaggTaatgtatttagaaaagtcct	13	13	9	6	0	0	1	0	0	0	1	1	1	1	1	2	1	3	5	2	1	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:132997309T>C	uc003yte.2	+	16	2070	c.1869_splice	c.e16+2	p.K623_splice		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A							plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			GTTAGCAAGGTAATGTATTTA	0.343													42	191					0	0	1	0	0		C	132997309	C	C	132997309	5	2	151	1	0	0	0	0	0	0	1	0	4964	1652	57	3	1933	3	EFR3A	8	132997309	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1184595	132997309	13366713	2109	79274											
TG	7038	broad.mit.edu	37	chr8	133879302	133879302	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatctgctgggtgtcggcCaatatcttcggtaagttctg	6	14	11	10	2	3	0	0	0	3	0	6	0	4	0	2	3	1	3	2	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:133879302C>T	uc003ytw.2	+	1	98	c.57C>T	c.(55-57)GCC>GCT	p.A19A		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	19					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GGGTGTCGGCCAATATCTTCG	0.468													3	12					0	0	1	0	0		T	133879302	T	T	133879302	2	4	151	1	0	0	0	0	0	0	0	1	15838	581	21	4		4	TG	8	133879302	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	881993	133879302	12484720	2110	79275											
TG	7038	broad.mit.edu	37	chr8	133883660	133883660	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacattaacagcacagacacCtcctacctccctcagtgtca	12	9	4	16	0	2	1	2	0	0	1	4	1	4	1	4	0	4	1	4	0	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:133883660C>A	uc003ytw.2	+	4	383	c.342C>A	c.(340-342)ACC>ACA	p.T114T		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	114	Thyroglobulin type-1 2.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GCACAGACACCTCCTACCTCC	0.517													18	82					1.02788e-11	1.06251e-11	1	1	0		A	133883660	A	A	133883660	2	1	151	1	0	0	0	0	0	0	0	1	15838	668	24	5		5	TG	8	133883660	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4358	133883660	12480362	2111	79276											
TG	7038	broad.mit.edu	37	chr8	133899319	133899319	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaaatgccctcaaattcCttgcttctctcctggagctt	9	13	5	14	0	2	0	1	0	1	0	5	1	4	1	4	1	3	2	4	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:133899319C>A	uc003ytw.2	+	9	1743	c.1702C>A	c.(1702-1704)CTT>ATT	p.L568I		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	568					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CCTCAAATTCCTTGCTTCTCT	0.443													30	125					3.1745e-13	3.29396e-13	1	1	0		A	133899319	A	A	133899319	3	1	151	1	0	0	0	0	1	0	0	0	15838	681	24	5	1736	5	TG	8	133899319	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	15659	133899319	12464703	2112	79277											
TG	7038	broad.mit.edu	37	chr8	133900283	133900283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttcctcaggacggtgcaggCcctgctctctaactccagca	7	10	9	15	1	2	0	1	0	1	0	5	1	4	1	3	3	4	3	3	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:133900283C>T	uc003ytw.2	+	10	2272	c.2231C>T	c.(2230-2232)GCC>GTC	p.A744V		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	744	Thyroglobulin type-1 7.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		ACGGTGCAGGCCCTGCTCTCT	0.537													8	25					0	0	1	0	0		T	133900283	T	T	133900283	3	4	151	1	0	0	0	0	1	0	0	0	15838	739	26	2	2269	2	TG	8	133900283	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	964	133900283	12463739	2113	79278											
WISP1	8840	broad.mit.edu	37	chr8	134225274	134225274	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgagtgctgtaagatgtgCgctcagcagcttggggacaa	9	10	15	7	1	1	2	1	1	0	1	1	3	1	3	0	2	4	5	0	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:134225274C>T	uc003yub.2	+	2	313	c.237C>T	c.(235-237)TGC>TGT	p.C79C	WISP1_uc003yuc.2_Silent_p.C79C|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Silent_p.C79C|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_5'Flank	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	79	IGFBP N-terminal.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GTAAGATGTGCGCTCAGCAGC	0.637													14	54					0	0	1	0	0		T	134225274	T	T	134225274	2	4	151	1	0	0	0	0	0	0	0	1	17398	776	27	1		1	WISP1	8	134225274	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	324991	134225274	12138748	2114	79279											
FAM135B	51059	broad.mit.edu	37	chr8	139164318	139164318	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttggctcttgctgtgcatAtctgaaggttcagcaaaacc	9	12	9	11	0	3	1	1	1	2	0	3	1	3	1	2	2	4	5	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:139164318A>G	uc003yuy.2	-	13	2571	c.2400T>C	c.(2398-2400)GAT>GAC	p.D800D	FAM135B_uc003yux.2_Silent_p.D701D|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Silent_p.D362D|FAM135B_uc003yvb.2_Silent_p.D362D	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	800										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			TGCTGTGCATATCTGAAGGTT	0.517										HNSCC(54;0.14)			27	108					0	0	1	0	0		G	139164318	G	G	139164318	2	3	151	1	0	0	0	0	0	0	0	1	5460	446	16	3		3	FAM135B	8	139164318	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4939044	139164318	7199704	2115	79280											
COL22A1	169044	broad.mit.edu	37	chr8	139890062	139890062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtcggacacgtggaagaCgtgggcggacttgggctctg	8	7	18	8	4	1	1	0	0	1	1	2	5	1	4	0	5	0	1	0	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:139890062C>T	uc003yvd.2	-	3	1036	c.589G>A	c.(589-591)GTC>ATC	p.V197I		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	197	VWFA.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			ACGTGGAAGACGTGGGCGGAC	0.667										HNSCC(7;0.00092)			6	36					0	0	1	0	0		T	139890062	T	T	139890062	3	4	151	1	0	0	0	0	1	0	0	0	3684	536	19	1	4543	1	COL22A1	8	139890062	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	725744	139890062	6473960	2116	79281											
EIF2C2	27161	broad.mit.edu	37	chr8	141542189	141542189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttggtgaacctggaccGccttggccagtgcttggtgg	4	12	15	10	1	1	1	0	1	1	0	1	2	1	2	4	5	2	1	4	5	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:141542189G>A	uc003yvn.2	-	19	2574	c.2534C>T	c.(2533-2535)GCG>GTG	p.A845V	EIF2C2_uc010men.2_Missense_Mutation_p.A768V|EIF2C2_uc010meo.2_Missense_Mutation_p.A811V	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	845					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			AACCTGGACCGCCTTGGCCAG	0.527													26	130					0	0	1	0	0		A	141542189	A	A	141542189	3	1	151	1	0	0	0	0	1	0	0	0	5012	1087	38	1	49	1	EIF2C2	8	141542189	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1652127	141542189	4821833	2117	79282											
EIF2C2	27161	broad.mit.edu	37	chr8	141566004	141566004	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccacacgtaccctgcccccGtagaggatggagggcggctg	7	5	14	15	3	0	1	0	0	0	1	0	3	0	3	4	4	2	3	4	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:141566004G>A	uc003yvn.2	-	10	1300	c.1260C>T	c.(1258-1260)TAC>TAT	p.Y420Y	EIF2C2_uc010men.2_Silent_p.Y343Y|EIF2C2_uc010meo.2_Silent_p.Y420Y	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	420					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			CCCTGCCCCCGTAGAGGATGG	0.612													4	31					0	0	1	0	0		A	141566004	A	A	141566004	2	1	151	1	0	0	0	0	0	0	0	1	5012	1140	40	1		1	EIF2C2	8	141566004	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	23815	141566004	4798018	2118	79283											
DENND3	22898	broad.mit.edu	37	chr8	142151331	142151331	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtttctacaatggcaaaacGcaccgggagtgtcctggctg	9	10	12	10	2	1	0	0	0	1	0	2	1	2	1	2	3	2	4	2	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:142151331G>A	uc003yvy.2	+	4	569	c.291G>A	c.(289-291)ACG>ACA	p.T97T	DENND3_uc003yvw.1_Silent_p.T110T|DENND3_uc003yvx.2_Missense_Mutation_p.R176H|DENND3_uc010mep.2_Silent_p.T110T	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	97										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			ATGGCAAAACGCACCGGGAGT	0.532													22	80					0	0	1	0	0		A	142151331	A	A	142151331	2	1	151	1	0	0	0	0	0	0	0	1	4438	1074	38	1		1	DENND3	8	142151331	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	585327	142151331	4212691	2119	79284											
DENND3	22898	broad.mit.edu	37	chr8	142160983	142160983	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctgcccgagcagacccCgaaagccccatcctggacct	9	6	8	18	2	0	1	0	0	0	1	1	4	1	2	8	1	4	1	8	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:142160983C>T	uc003yvy.2	+	6	824	c.546C>T	c.(544-546)CCC>CCT	p.P182P	DENND3_uc010mep.2_Silent_p.P195P	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	182	DENN.									ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			GAGCAGACCCCGAAAGCCCCA	0.597													23	103					0	0	1	0	0		T	142160983	T	T	142160983	2	4	151	1	0	0	0	0	0	0	0	1	4438	639	23	1		1	DENND3	8	142160983	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	9652	142160983	4203039	2120	79285											
DENND3	22898	broad.mit.edu	37	chr8	142200505	142200505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagactgcacggcggccGcctgtggtgctgtaagtccg	6	8	14	13	4	1	1	1	0	0	1	2	1	2	1	3	3	2	3	3	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:142200505G>A	uc003yvy.2	+	20	3406	c.3128G>A	c.(3127-3129)CGC>CAC	p.R1043H	DENND3_uc010mep.2_Missense_Mutation_p.R1004H|DENND3_uc003ywa.1_Missense_Mutation_p.R93H|DENND3_uc003ywb.2_Missense_Mutation_p.R93H	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	1043										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			CACGGCGGCCGCCTGTGGTGC	0.627													3	16					0	0	1	0	0		A	142200505	A	A	142200505	3	1	151	1	0	0	0	0	1	0	0	0	4438	1087	38	1	3202	1	DENND3	8	142200505	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	39522	142200505	4163517	2121	79286											
SLC45A4	57210	broad.mit.edu	37	chr8	142228816	142228816	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcacgtgcaatgccgagTcgcttttgctgcgcatgatg	6	10	13	12	5	0	1	0	1	0	0	1	2	0	1	2	1	4	5	2	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:142228816T>C	uc003ywd.1	-	4	1078	c.770A>G	c.(769-771)GAC>GGC	p.D257G	SLC45A4_uc003ywc.1_Missense_Mutation_p.D257G|SLC45A4_uc010meq.1_Missense_Mutation_p.D255G	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	308					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CAATGCCGAGTCGCTTTTGCT	0.667													24	109					0	0	1	0	0		C	142228816	C	C	142228816	3	2	151	1	0	0	0	0	1	0	0	0	14668	1667	58	3	1646	3	SLC45A4	8	142228816	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	28311	142228816	4135206	2122	79287											
GPR20	2843	broad.mit.edu	37	chr8	142367700	142367700	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtagtacacagcgaagcgCgtgggcagggacagccctac	10	4	14	13	4	0	0	0	0	0	0	0	2	0	1	2	2	5	3	2	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:142367700C>T	uc003ywf.2	-	2	413	c.324G>A	c.(322-324)ACG>ACA	p.T108T		NM_005293	NP_005284	Q99678	GPR20_HUMAN	G protein-coupled receptor 20	108	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(97;4.32e-16)|all_epithelial(106;6.61e-14)|Lung NSC(106;9.4e-06)|all_lung(105;1.35e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0415)			CAGCGAAGCGCGTGGGCAGGG	0.612													12	34					0	0	1	0	0		T	142367700	T	T	142367700	2	4	151	1	0	0	0	0	0	0	0	1	6695	755	27	1		1	GPR20	8	142367700	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	138884	142367700	3996322	2123	79288											
FLJ43860	389690	broad.mit.edu	37	chr8	142445294	142445294	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgtgcagaagagggtgTgcagtagccgccagcggagc	9	4	17	11	3	0	2	0	0	0	2	0	3	0	3	3	2	6	3	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:142445294T>C	uc003ywi.2	-	29	3692	c.3611A>G	c.(3610-3612)CAC>CGC	p.H1204R	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	1204							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GAAGAGGGTGTGCAGTAGCCG	0.667													5	21					0	0	1	0	0		C	142445294	C	C	142445294	3	2	151	1	0	0	0	0	1	0	0	0	5944	1696	59	3	361	3	FLJ43860	8	142445294	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	77594	142445294	3918728	2124	79289											
LYNX1	66004	broad.mit.edu	37	chr8	143856711	143856711	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacgcgtgcttggagtaGccatcatacacagtctcgaa	10	9	12	10	3	2	0	1	0	1	0	3	3	2	2	1	2	3	2	1	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:143856711G>A	uc003yxc.1	-	4	495	c.225C>T	c.(223-225)GGC>GGT	p.G75G	LYNX1_uc003yxb.2_Intron|LYNX1_uc003yxd.1_Silent_p.G75G|LYNX1_uc003yxe.1_Silent_p.G75G	NM_177476	NP_803429	Q9BZG9	LYNX1_HUMAN	Ly-6 neurotoxin-like protein 1 isoform c	75	UPAR/Ly6.					anchored to membrane|plasma membrane					0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					GCTTGGAGTAGCCATCATACA	0.667													4	27					0	0	1	0	0		A	143856711	A	A	143856711	2	1	151	1	0	0	0	0	0	0	0	1	9126	958	34	2		2	LYNX1	8	143856711	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1411417	143856711	2507311	2125	79290											
LY6D	8581	broad.mit.edu	37	chr8	143867011	143867011	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgctacccacctgtgtTcgtggtcttgcagaagcgag	8	10	12	11	2	1	2	0	0	1	2	2	3	1	2	2	1	4	3	2	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:143867011T>C	uc003yxf.1	-	2	221	c.145A>G	c.(145-147)AAC>GAC	p.N49D		NM_003695	NP_003686	Q14210	LY6D_HUMAN	lymphocyte antigen 6 complex, locus D precursor	49	UPAR/Ly6.				cell adhesion	anchored to membrane|membrane fraction|plasma membrane	protein binding				0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					CCACCTGTGTTCGTGGTCTTG	0.642													8	82					0	0	1	0	0		C	143867011	C	C	143867011	3	2	151	1	0	0	0	0	1	0	0	0	9108	1783	62	3	249	3	LY6D	8	143867011	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10300	143867011	2497011	2126	79291											
CYP11B2	1585	broad.mit.edu	37	chr8	143994741	143994741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcccgcagcaagggcagctCggtggttgccttctggggat	5	8	16	12	3	1	0	0	0	1	0	2	1	1	1	2	5	3	5	2	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:143994741C>T	uc003yxk.1	-	6	1084	c.1081G>A	c.(1081-1083)GAG>AAG	p.E361K		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	361					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	AAGGGCAGCTCGGTGGTTGCC	0.687									Familial_Hyperaldosteronism_type_I				17	57					0	0	1	0	0		T	143994741	T	T	143994741	3	4	151	1	0	0	0	0	1	0	0	0	4149	893	31	1	446	1	CYP11B2	8	143994741	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	127730	143994741	2369281	2127	79292											
PUF60	22827	broad.mit.edu	37	chr8	144900634	144900634	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggatggtgtcctcccccAgctcatagtagatagagccc	8	8	12	13	1	1	2	1	0	0	2	3	3	3	3	4	3	2	2	4	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:144900634A>G	uc003yzs.2	-	6	483	c.419T>C	c.(418-420)CTG>CCG	p.L140P	PUF60_uc003yzr.2_Missense_Mutation_p.L80P|PUF60_uc003yzt.2_Missense_Mutation_p.L123P|PUF60_uc003yzq.2_Missense_Mutation_p.L97P|PUF60_uc003yzu.1_Missense_Mutation_p.L129P	NM_078480	NP_510965	Q9UHX1	PUF60_HUMAN	poly-U binding splicing factor 60KDa isoform a	140	RRM 1.|Inhibits homodimerization.|Inhibits transcriptional repression, interaction with ERCC3 and apoptosis induction.				apoptosis|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleus|ribonucleoprotein complex	DNA binding|nucleotide binding|protein binding|RNA binding				0	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			GTCCTCCCCCAGCTCATAGTA	0.627													5	8					0	0	1	0	0		G	144900634	G	G	144900634	3	3	151	1	0	0	0	0	1	0	0	0	12849	188	7	3	1288	3	PUF60	8	144900634	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	905893	144900634	1463388	2128	79293											
EPPK1	83481	broad.mit.edu	37	chr8	144945718	144945718	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttcagcagctctcctggTgtcacggtgtccctcagccc	4	11	10	16	1	4	0	3	0	1	0	6	0	5	0	3	2	3	3	3	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:144945718T>C	uc003zaa.1	-	1	1717	c.1704A>G	c.(1702-1704)ACA>ACG	p.T568T		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	568	Plectin 10.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCTCTCCTGGTGTCACGGTGT	0.647													3	21					0	0	1	0	0		C	144945718	C	C	144945718	2	2	151	1	0	0	0	0	0	0	0	1	5198	1683	59	3		3	EPPK1	8	144945718	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	45084	144945718	1418304	2129	79294											
PLEC	5339	broad.mit.edu	37	chr8	144994121	144994121	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccacctcctccacgatggTaatgagaatcttgatgacct	10	11	7	13	1	1	3	0	3	1	1	4	5	4	3	5	1	0	1	5	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:144994121T>C	uc003zaf.1	-	32	10449	c.10279A>G	c.(10279-10281)ACC>GCC	p.T3427A	PLEC_uc003zab.1_Missense_Mutation_p.T3290A|PLEC_uc003zac.1_Missense_Mutation_p.T3294A|PLEC_uc003zad.2_Missense_Mutation_p.T3290A|PLEC_uc003zae.1_Missense_Mutation_p.T3258A|PLEC_uc003zag.1_Missense_Mutation_p.T3268A|PLEC_uc003zah.2_Missense_Mutation_p.T3276A|PLEC_uc003zaj.2_Missense_Mutation_p.T3317A	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3427	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TCCACGATGGTAATGAGAATC	0.627													23	99					0	0	1	0	0		C	144994121	C	C	144994121	3	2	151	1	0	0	0	0	1	0	0	0	12071	1638	57	3	3779	3	PLEC	8	144994121	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	48403	144994121	1369901	2130	79295											
PLEC	5339	broad.mit.edu	37	chr8	145005812	145005812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caactgcccctcggcctcccGcacatctgagaagaactggg	9	6	10	16	2	1	2	0	1	1	2	3	3	2	2	4	2	3	1	4	2	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145005812G>A	uc003zaf.1	-	19	2775	c.2605C>T	c.(2605-2607)CGG>TGG	p.R869W	PLEC_uc003zab.1_Missense_Mutation_p.R732W|PLEC_uc003zac.1_Missense_Mutation_p.R736W|PLEC_uc003zad.2_Missense_Mutation_p.R732W|PLEC_uc003zae.1_Missense_Mutation_p.R700W|PLEC_uc003zag.1_Missense_Mutation_p.R710W|PLEC_uc003zah.2_Missense_Mutation_p.R718W|PLEC_uc003zaj.2_Missense_Mutation_p.R759W	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	869	Spectrin 3.|Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TCGGCCTCCCGCACATCTGAG	0.662													4	9					0	0	1	0	0		A	145005812	A	A	145005812	3	1	151	1	0	0	0	0	1	0	0	0	12071	1086	38	1	11505	1	PLEC	8	145005812	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	11691	145005812	1358210	2131	79296											
GRINA	2907	broad.mit.edu	37	chr8	145066997	145066997	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctcaccatcattggccgCgccaaggagtagccgagctc	9	7	10	15	3	2	0	2	0	0	0	4	2	3	1	5	2	2	2	5	2	2	2	rs139058041	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145066997C>T	uc003zan.1	+	7	1270	c.1104C>T	c.(1102-1104)CGC>CGT	p.R368R	GRINA_uc003zao.1_Silent_p.R368R|GRINA_uc003zap.1_Silent_p.R368R	NM_001009184	NP_001009184	Q7Z429	GRINA_HUMAN	glutamate receptor, ionotropic, N-methyl	368						integral to membrane				central_nervous_system(1)	1	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TCATTGGCCGCGCCAAGGAGT	0.607													5	15					0	0	1	0	0		T	145066997	T	T	145066997	2	4	151	1	0	0	0	0	0	0	0	1	6801	755	27	1		1	GRINA	8	145066997	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	61185	145066997	1297025	2132	79297											
EXOSC4	54512	broad.mit.edu	37	chr8	145134886	145134886	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccctgccggacagggcccTagtgaactgtcaatatagtt	10	9	11	11	1	1	1	1	1	0	0	1	2	1	2	3	2	3	1	3	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145134886T>C	uc003zau.2	+	2	322	c.212T>C	c.(211-213)CTA>CCA	p.L71P	GPAA1_uc003zav.1_5'Flank|GPAA1_uc003zaw.1_5'Flank|GPAA1_uc003zax.2_5'Flank	NM_019037	NP_061910	Q9NPD3	EXOS4_HUMAN	exosome component 4	71					DNA deamination|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear mRNA surveillance|positive regulation of cell growth	cytosol|exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5'-exoribonuclease activity|AU-rich element binding|protein binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;3.48e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GACAGGGCCCTAGTGAACTGT	0.622													31	148					0	0	1	0	0		C	145134886	C	C	145134886	3	2	151	1	0	0	0	0	1	0	0	0	5325	1522	53	3	218	3	EXOSC4	8	145134886	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	67889	145134886	1229136	2133	79298											
GPAA1	8733	broad.mit.edu	37	chr8	145139749	145139749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctctacatgcccgctgtcGgcttcttgctcctggtcctt	2	14	9	16	2	2	0	0	0	2	0	5	0	4	0	4	2	3	3	4	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145139749G>A	uc003zax.2	+	8	1245	c.1135G>A	c.(1135-1137)GGC>AGC	p.G379S	GPAA1_uc003zav.1_Missense_Mutation_p.G257S|GPAA1_uc003zaw.1_Missense_Mutation_p.G319S	NM_003801	NP_003792	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment	379	Helical; (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein complex assembly|protein retention in ER lumen	GPI-anchor transamidase complex	tubulin binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCCCGCTGTCGGCTTCTTGCT	0.602													29	108					0	0	1	0	0		A	145139749	A	A	145139749	3	1	151	1	0	0	0	0	1	0	0	0	6602	1116	39	1	1165	1	GPAA1	8	145139749	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4863	145139749	1224273	2134	79299											
FBXL6	26233	broad.mit.edu	37	chr8	145579255	145579255	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacttcctccaggccccggTaggcccgcttcagaccccgg	5	6	12	18	3	1	1	1	0	0	1	3	2	3	2	7	5	0	2	7	5	1	3	rs140699050		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145579255T>C	uc003zcb.2	-	9	1581	c.1556A>G	c.(1555-1557)TAC>TGC	p.Y519C	C8ORFK29_uc011llb.1_5'Flank|C8ORFK29_uc010mfw.2_5'Flank|C8ORFK29_uc003zby.3_5'UTR|FBXL6_uc003zbz.2_Missense_Mutation_p.Y246C|FBXL6_uc003zca.2_Missense_Mutation_p.Y513C|FBXL6_uc010mfx.2_Missense_Mutation_p.Y280C|GPR172A_uc003zcc.1_5'Flank|GPR172A_uc003zcd.1_5'Flank|GPR172A_uc003zce.1_5'Flank|GPR172A_uc010mfy.1_5'Flank|GPR172A_uc003zcf.1_5'Flank|GPR172A_uc011llc.1_5'Flank	NM_012162	NP_036294	Q8N531	FBXL6_HUMAN	F-box and leucine-rich repeat protein 6 isoform	519					proteolysis		ubiquitin-protein ligase activity			ovary(1)|lung(1)	2	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			CAGGCCCCGGTAGGCCCGCTT	0.672													8	54					0	0	1	0	0		C	145579255	C	C	145579255	3	2	151	1	0	0	0	0	1	0	0	0	5737	1638	57	3	67	3	FBXL6	8	145579255	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	439506	145579255	784767	2135	79300											
ADCK5	203054	broad.mit.edu	37	chr8	145608333	145608333	+	Frame_Shift_Del	DEL	G	-	-																															gtgctctccaccgcggtagtGggggcgcccctgctcctcgg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145608333delG	uc003zch.2	+	3	222	c.168delG	c.(166-168)GTGfs	p.V56fs	ADCK5_uc003zcg.2_RNA	NM_174922	NP_777582	Q3MIX3	ADCK5_HUMAN	aarF domain containing kinase 5	56	Helical; (Potential).					integral to membrane	protein serine/threonine kinase activity			stomach(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;8.96e-41)|Epithelial(56;4.08e-40)|all cancers(56;4.51e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			CCGCGGTAGTGGGGGCGCCCC	0.667													3	6	---	---	---	---						.	-	145608333	-	-	145608333	7	5	151	1	0	1	0	1	0	0	0	0	291	1335	47	0	178	0	ADCK5	8	145608333	Frame_Shift_Del	DEL	G	TCGA-CG-5721-01A-11D-1600-08	29078	145608333	755689	2136	79301											
CPSF1	29894	broad.mit.edu	37	chr8	145619366	145619366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccatgaggttgcggtcgCggtcagacactggggagcag	9	6	16	10	3	1	2	1	1	0	1	2	3	1	3	1	5	2	2	1	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145619366C>T	uc003zcj.2	-	34	3896	c.3821G>A	c.(3820-3822)CGC>CAC	p.R1274H	MIR939_hsa-mir-939|MI0005761_RNA	NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	1274					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			GTTGCGGTCGCGGTCAGACAC	0.682													8	20					0	0	1	0	0		T	145619366	T	T	145619366	3	4	151	1	0	0	0	0	1	0	0	0	3827	768	27	1	530	1	CPSF1	8	145619366	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	11033	145619366	744656	2137	79302											
SLC39A4	55630	broad.mit.edu	37	chr8	145640188	145640188	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcagctgctgttggagcagGgcagggctcagttgggccca	6	8	16	11	0	2	0	2	0	0	0	2	1	2	1	1	4	3	7	1	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145640188G>A	uc003zcq.2	-	5	997	c.897C>T	c.(895-897)GCC>GCT	p.A299A	SLC39A4_uc003zcm.1_5'Flank|SLC39A4_uc003zcn.2_5'Flank|SLC39A4_uc003zco.2_Silent_p.A23A|SLC39A4_uc003zcp.2_Silent_p.A274A	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	299	Extracellular (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|recycling endosome membrane	zinc ion transmembrane transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			GTTGGAGCAGGGCAGGGCTCA	0.662													18	77					0	0	1	0	0		A	145640188	A	A	145640188	2	1	151	1	0	0	0	0	0	0	0	1	14645	1219	43	4		4	SLC39A4	8	145640188	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	20822	145640188	723834	2138	79303											
NFKBIL2	4796	broad.mit.edu	37	chr8	145655794	145655794	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taccagcactcacctgacagGccaaggaagctaaggccttg	12	6	10	13	0	1	1	1	1	0	0	1	2	1	2	4	3	3	2	4	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145655794G>A	uc011llg.1	-	25	3951	c.3936C>T	c.(3934-3936)GGC>GGT	p.G1312G	VPS28_uc003zcs.1_5'Flank|VPS28_uc003zct.1_5'Flank	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	1312					cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CACCTGACAGGCCAAGGAAGC	0.602													5	14					0	0	1	0	0		A	145655794	A	A	145655794	2	1	151	1	0	0	0	0	0	0	0	1	10401	1190	42	2		2	NFKBIL2	8	145655794	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	15606	145655794	708228	2139	79304											
MFSD3	113655	broad.mit.edu	37	chr8	145735779	145735779	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctgtttcctcttctccTgctggaccacggcgtttctg	3	14	9	15	2	3	0	0	0	3	0	5	1	4	1	4	2	2	3	4	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145735779T>C	uc003zdi.1	+	2	884	c.719T>C	c.(718-720)CTG>CCG	p.L240P		NM_138431	NP_612440	Q96ES6	MFSD3_HUMAN	major facilitator superfamily domain containing	240	Leu-rich.				transmembrane transport	integral to membrane				central_nervous_system(2)	2	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CCTCTTCTCCTGCTGGACCAC	0.642													20	75					0	0	1	0	0		C	145735779	C	C	145735779	3	2	151	1	0	0	0	0	1	0	0	0	9550	1580	55	3	725	3	MFSD3	8	145735779	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	79985	145735779	628243	2140	79305											
ARHGAP39	80728	broad.mit.edu	37	chr8	145773654	145773654	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcttcaggaagggtgaCggcctcctctctgggaagaa	8	8	13	12	1	3	2	1	1	2	1	5	4	4	4	3	4	0	0	3	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145773654C>T	uc003zdt.1	-	6	1371	c.816G>A	c.(814-816)CCG>CCA	p.P272P	ARHGAP39_uc011llk.1_Silent_p.P272P|ARHGAP39_uc003zds.1_Silent_p.P272P	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	272	Pro-rich.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						GGAAGGGTGACGGCCTCCTCT	0.716													3	11					0	0	1	0	0		T	145773654	T	T	145773654	2	4	151	1	0	0	0	0	0	0	0	1	884	523	19	1		1	ARHGAP39	8	145773654	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	37875	145773654	590368	2141	79306											
ARHGAP39	80728	broad.mit.edu	37	chr8	145780968	145780968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgaagaagctggccgtccGcactgtaatcccggtaaatc	11	8	11	11	3	0	2	0	1	0	1	3	2	2	2	3	2	1	4	3	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145780968G>A	uc003zdt.1	-	5	1127	c.572C>T	c.(571-573)GCG>GTG	p.A191V	ARHGAP39_uc011llk.1_Missense_Mutation_p.A191V|ARHGAP39_uc003zds.1_Missense_Mutation_p.A191V	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	191					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						CTGGCCGTCCGCACTGTAATC	0.493													30	101					0	0	1	0	0		A	145780968	A	A	145780968	3	1	151	1	0	0	0	0	1	0	0	0	884	1087	38	1	2808	1	ARHGAP39	8	145780968	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	7314	145780968	583054	2142	79307											
ZNF34	80778	broad.mit.edu	37	chr8	145999512	145999512	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttgtagggcttctcttcAgtgtgaagccgctgatgctt	6	15	11	9	1	2	2	1	2	1	0	3	2	2	2	1	1	2	4	1	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145999512A>G	uc003zdy.3	-	6	924	c.822T>C	c.(820-822)ACT>ACC	p.T274T	ZNF34_uc010mgb.2_Silent_p.T171T|ZNF34_uc003zdx.3_Silent_p.T253T	NM_030580	NP_085057	Q8IZ26	ZNF34_HUMAN	zinc finger protein 34	274					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.221)	OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;5.18e-38)|all cancers(56;4.41e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.0179)		GCTTCTCTTCAGTGTGAAGCC	0.463													20	73					0	0	1	0	0		G	145999512	G	G	145999512	2	3	151	1	0	0	0	0	0	0	0	1	17881	175	7	3		3	ZNF34	8	145999512	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	218544	145999512	364510	2143	79308											
ZNF34	80778	broad.mit.edu	37	chr8	145999668	145999668	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagttacgaactgtattTgttttttttgacctgtgtac	8	18	8	7	1	0	2	0	1	0	1	0	3	0	2	2	0	3	4	2	0	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:145999668T>C	uc003zdy.3	-	6	768	c.666A>G	c.(664-666)ACA>ACG	p.T222T	ZNF34_uc010mgb.2_Silent_p.T119T|ZNF34_uc003zdx.3_Silent_p.T201T	NM_030580	NP_085057	Q8IZ26	ZNF34_HUMAN	zinc finger protein 34	222					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.221)	OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;5.18e-38)|all cancers(56;4.41e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.0179)		GAACTGTATTTGTTTTTTTTG	0.353													7	47					0	0	1	0	0		C	145999668	C	C	145999668	2	2	151	1	0	0	0	0	0	0	0	1	17881	1799	63	3		3	ZNF34	8	145999668	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	156	145999668	364354	2144	79309											
ZNF7	7553	broad.mit.edu	37	chr8	146054477	146054477	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaccactgagcctcatggTaggaagcttgactgcctcct	8	9	9	15	0	1	2	1	2	0	0	2	3	2	3	5	2	3	2	5	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:146054477T>C	uc003zeg.3	+	2	140	c.3_splice	c.e2+2	p.M1_splice	ZNF7_uc010mge.2_Splice_Site_p.M1_splice|ZNF7_uc011lln.1_Splice_Site|ZNF7_uc003zeh.2_Splice_Site_p.M1_splice|ZNF7_uc003zej.2_Splice_Site_p.M1_splice	NM_003416	NP_003407	P17097	ZNF7_HUMAN	zinc finger protein 7						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.0812)|Ovarian(118;0.0822)|Acute lymphoblastic leukemia(644;0.143)	Epithelial(56;8.75e-39)|OV - Ovarian serous cystadenocarcinoma(54;1.13e-38)|all cancers(56;8.48e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;2.11e-07)		AGCCTCATGGTAGGAAGCTTG	0.592													3	25					0	0	1	0	0		C	146054477	C	C	146054477	5	2	151	1	0	0	0	0	0	0	1	0	18127	1652	57	3	7	3	ZNF7	8	146054477	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	54809	146054477	309545	2145	79310											
ZNF250	58500	broad.mit.edu	37	chr8	146108158	146108158	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttccccagaatcactgttTgctctgaaattaatggcttc	9	16	6	10	0	2	2	1	1	1	1	4	2	3	2	2	1	1	3	2	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr8:146108158T>C	uc003zeq.3	-	6	542	c.425A>G	c.(424-426)CAA>CGA	p.Q142R	COMMD5_uc010mgf.2_Intron|ZNF250_uc003zer.3_Missense_Mutation_p.Q137R|ZNF250_uc010mgg.2_Missense_Mutation_p.Q137R	NM_021061	NP_066405	P15622	ZN250_HUMAN	zinc finger protein 250 isoform a	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;2.53e-38)|OV - Ovarian serous cystadenocarcinoma(54;4.07e-38)|all cancers(56;2.27e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.0654)		AATCACTGTTTGCTCTGAAAT	0.393													54	245					0	0	1	0	0		C	146108158	C	C	146108158	3	2	151	1	0	0	0	0	1	0	0	0	17820	1812	63	3	1261	3	ZNF250	8	146108158	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	53681	146108158	255864	2146	79311											
FOXD4	2298	broad.mit.edu	37	chr9	117563	117563	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgccattgtcgaacatgTcctgggaggcggggtccagg	7	8	16	10	2	0	0	0	0	0	0	3	2	2	1	3	5	3	1	3	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:117563T>C	uc003zfz.2	-	1	855	c.557A>G	c.(556-558)GAC>GGC	p.D186G		NM_207305	NP_997188	Q12950	FOXD4_HUMAN	forkhead box D4	186	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	all_lung(41;0.218)	all_cancers(5;0.0395)|Acute lymphoblastic leukemia(5;1.91e-07)|all_hematologic(5;1.95e-06)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GTCGAACATGTCCTGGGAGGC	0.662													29	226					0	0	1	0	0		C	117563	C	C	117563	3	2	151	1	0	0	0	0	1	0	0	0	6013	1667	58	3	766	3	FOXD4	9	117563	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08		117563	141095868	2147	79312											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													7	62					0	0	1	0	0		G	164038	G	G	164038	5	3	151	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	46475	164038	141049393	2148	79313											
DOCK8	81704	broad.mit.edu	37	chr9	334363	334363	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacccttgagagggaggtaActgatgtggactctgtggtt	8	11	14	8	0	1	2	0	2	1	1	1	5	1	4	2	4	1	2	2	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:334363A>G	uc003zgf.2	+	11	1376	c.1264A>G	c.(1264-1266)ACT>GCT	p.T422A	DOCK8_uc011lls.1_Missense_Mutation_p.T422A|DOCK8_uc010mgu.2_5'UTR|DOCK8_uc010mgv.2_Missense_Mutation_p.T354A|DOCK8_uc003zgg.2_Missense_Mutation_p.T354A|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	422	DHR-1.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		GAGGGAGGTAACTGATGTGGA	0.547													4	166					0	0	1	0	0		G	334363	G	G	334363	3	3	151	1	0	0	0	0	1	0	0	0	4699	43	2	3	1306	3	DOCK8	9	334363	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	170325	334363	140879068	2149	79314											
DOCK8	81704	broad.mit.edu	37	chr9	382641	382641	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagacctcgcggggacaCactccgcagcagacgaggaa	12	2	12	15	4	0	2	0	0	0	2	2	5	1	4	3	3	1	2	3	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:382641C>A	uc003zgf.2	+	22	2846	c.2734C>A	c.(2734-2736)CAC>AAC	p.H912N	DOCK8_uc010mgu.2_Missense_Mutation_p.H214N|DOCK8_uc010mgv.2_Missense_Mutation_p.H844N|DOCK8_uc010mgw.1_Missense_Mutation_p.H214N|DOCK8_uc003zgk.2_Missense_Mutation_p.H370N	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	912					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		CGCGGGGACACACTCCGCAGC	0.517													17	79					1.67942e-08	1.72222e-08	1	1	0		A	382641	A	A	382641	3	1	151	1	0	0	0	0	1	0	0	0	4699	478	17	5	2820	5	DOCK8	9	382641	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	48278	382641	140830790	2150	79315											
DMRT1	1761	broad.mit.edu	37	chr9	894037	894037	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccgtctctgtttccttatTacaacaatctatacaactgc	11	14	4	12	1	2	0	0	0	2	0	4	0	3	0	2	0	6	1	2	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:894037T>C	uc003zgv.2	+	3	813	c.664T>C	c.(664-666)TAC>CAC	p.Y222H	DMRT1_uc003zgu.1_Missense_Mutation_p.Y222H	NM_021951	NP_068770	Q9Y5R6	DMRT1_HUMAN	doublesex and mab-3 related transcription factor	222					cell differentiation|male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(10;2.66e-10)|Lung NSC(10;2.82e-10)|Breast(48;0.232)		Lung(218;0.037)		GTTTCCTTATTACAACAATCT	0.537											OREG0019071	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	162					0	0	1	0	0		C	894037	C	C	894037	3	2	151	1	0	0	0	0	1	0	0	0	4591	1754	61	3	674	3	DMRT1	9	894037	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	511396	894037	140319394	2151	79316											
DMRT1	1761	broad.mit.edu	37	chr9	916875	916875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttcttcacttttgaggAtgctccctcttacccggaag	7	13	8	13	1	3	1	1	1	2	0	4	3	4	3	3	2	2	2	3	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:916875A>G	uc003zgv.2	+	4	1084	c.935A>G	c.(934-936)GAT>GGT	p.D312G		NM_021951	NP_068770	Q9Y5R6	DMRT1_HUMAN	doublesex and mab-3 related transcription factor	312					cell differentiation|male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(10;2.66e-10)|Lung NSC(10;2.82e-10)|Breast(48;0.232)		Lung(218;0.037)		ACTTTTGAGGATGCTCCCTCT	0.552													18	66					0	0	1	0	0		G	916875	G	G	916875	3	3	151	1	0	0	0	0	1	0	0	0	4591	333	12	3	949	3	DMRT1	9	916875	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	22838	916875	140296556	2152	79317											
SMARCA2	6595	broad.mit.edu	37	chr9	2161726	2161726	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggaaatggaagaggaagTacggcttaagaagcgaaaaa	19	4	15	3	2	0	2	0	0	0	2	0	7	0	6	0	5	2	2	0	5	8	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:2161726T>C	uc003zhc.2	+	28	4121	c.4022T>C	c.(4021-4023)GTA>GCA	p.V1341A	SMARCA2_uc003zhd.2_Missense_Mutation_p.V1341A|SMARCA2_uc010mha.2_Missense_Mutation_p.V1274A|SMARCA2_uc011llw.1_Missense_Mutation_p.V45A|SMARCA2_uc003zhf.2_Missense_Mutation_p.V5A|SMARCA2_uc011llx.1_Missense_Mutation_p.V5A|SMARCA2_uc003zhe.2_Missense_Mutation_p.V47A|SMARCA2_uc003zhg.2_Missense_Mutation_p.V5A|SMARCA2_uc010mhb.2_Missense_Mutation_p.V29A	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1341					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		GAAGAGGAAGTACGGCTTAAG	0.433													7	37					0	0	1	0	0		C	2161726	C	C	2161726	3	2	151	1	0	0	0	0	1	0	0	0	14794	1638	57	3	4128	3	SMARCA2	9	2161726	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1244851	2161726	139051705	2153	79318											
RFX3	5991	broad.mit.edu	37	chr9	3262957	3262957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacattggcaaagtcgacaCggttgaggtcactaagcatc	12	8	12	9	2	1	1	1	1	0	0	3	3	1	2	0	4	1	3	0	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:3262957C>T	uc003zhr.2	-	14	1895	c.1583G>A	c.(1582-1584)CGT>CAT	p.R528H	RFX3_uc010mhd.2_Missense_Mutation_p.R528H|RFX3_uc003zhs.1_Missense_Mutation_p.R528H	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	528					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		AAAGTCGACACGGTTGAGGTC	0.443													41	191					0	0	1	0	0		T	3262957	T	T	3262957	3	4	151	1	0	0	0	0	1	0	0	0	13289	536	19	1	842	1	RFX3	9	3262957	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1101231	3262957	137950474	2154	79319											
GLIS3	169792	broad.mit.edu	37	chr9	4118618	4118618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacctggtggatgagtgcCgaggactagggtaaggagag	10	6	20	5	1	0	2	0	1	0	1	0	7	0	5	2	6	1	1	2	6	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:4118618C>T	uc003zhw.1	-	3	589	c.395G>A	c.(394-396)CGG>CAG	p.R132Q	GLIS3_uc003zhx.1_Missense_Mutation_p.R287Q|GLIS3_uc003zic.1_Missense_Mutation_p.R287Q|GLIS3_uc003zie.1_Missense_Mutation_p.R287Q|GLIS3_uc010mhh.1_Missense_Mutation_p.R162Q|GLIS3_uc003zid.1_Missense_Mutation_p.R65Q|GLIS3_uc010mhi.1_Missense_Mutation_p.R94Q|GLIS3_uc003zif.1_Missense_Mutation_p.R65Q|GLIS3_uc003zig.1_Missense_Mutation_p.R131Q|GLIS3_uc003zih.1_Missense_Mutation_p.R65Q|GLIS3_uc003zhy.1_Missense_Mutation_p.R65Q|GLIS3_uc003zhz.1_Missense_Mutation_p.R65Q|GLIS3_uc003zib.1_Missense_Mutation_p.R131Q|GLIS3_uc010mhg.1_Missense_Mutation_p.R65Q	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	132	Ser-rich.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		GGATGAGTGCCGAGGACTAGG	0.542													26	93					0	0	1	0	0		T	4118618	T	T	4118618	3	4	151	1	0	0	0	0	1	0	0	0	6462	652	23	1	1964	1	GLIS3	9	4118618	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	855661	4118618	137094813	2155	79320											
ERMP1	79956	broad.mit.edu	37	chr9	5811260	5811260	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatgtttccatgtcgatacTtagaagcagcagccagcata	12	10	8	11	1	0	1	0	0	0	1	2	2	1	1	3	0	5	4	3	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:5811260T>G	uc003zjm.1	-	7	1232	c.1178A>C	c.(1177-1179)AAG>ACG	p.K393T	ERMP1_uc011lme.1_RNA|ERMP1_uc010mhs.1_Missense_Mutation_p.K7T	NM_024896	NP_079172	Q7Z2K6	ERMP1_HUMAN	aminopeptidase Fxna	393	Extracellular (Potential).				proteolysis	endoplasmic reticulum membrane|integral to membrane	metal ion binding|metallopeptidase activity			ovary(1)	1		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00115)|Lung(218;0.111)		ATGTCGATACTTAGAAGCAGC	0.363													28	123					0	0	1	0	0		G	5811260	G	G	5811260	3	3	151	1	0	0	0	0	1	0	0	0	5244	1609	56	5	1572	5	ERMP1	9	5811260	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1692642	5811260	135402171	2156	79321											
KIAA2026	158358	broad.mit.edu	37	chr9	5929149	5929149	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacagcttgcctccgatgaTaccattttccctaaaaataa	13	13	4	11	1	0	1	0	1	0	0	2	2	2	1	4	0	4	1	4	0	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:5929149T>C	uc003zjq.3	-	6	2609	c.2393A>G	c.(2392-2394)TAT>TGT	p.Y798C	KIAA2026_uc010mht.2_5'UTR	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	798										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		CCTCCGATGATACCATTTTCC	0.299													14	75					0	0	1	0	0		C	5929149	C	C	5929149	3	2	151	1	0	0	0	0	1	0	0	0	8286	1406	49	3	3930	3	KIAA2026	9	5929149	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	117889	5929149	135284282	2157	79322											
KIAA2026	158358	broad.mit.edu	37	chr9	5968410	5968410	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctataaaccttatttcaccTggactaagaggctctccaaa	13	12	5	11	0	3	1	1	0	2	1	4	2	3	2	3	2	1	1	3	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:5968410T>C	uc003zjq.3	-	3	2037	c.1821A>G	c.(1819-1821)CCA>CCG	p.P607P		NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	607										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		TTATTTCACCTGGACTAAGAG	0.368													40	171					0	0	1	0	0		C	5968410	C	C	5968410	2	2	151	1	0	0	0	0	0	0	0	1	8286	1567	55	3		3	KIAA2026	9	5968410	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	39261	5968410	135245021	2158	79323											
KIAA2026	158358	broad.mit.edu	37	chr9	5988525	5988525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctagatgtaactgctatcGttgtcttttctctcaagtgc	7	17	7	10	1	4	1	1	0	3	1	6	1	4	1	0	0	3	3	0	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:5988525G>A	uc003zjq.3	-	2	830	c.614C>T	c.(613-615)ACG>ATG	p.T205M		NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	205										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		AACTGCTATCGTTGTCTTTTC	0.448													8	45					0	0	1	0	0		A	5988525	A	A	5988525	3	1	151	1	0	0	0	0	1	0	0	0	8286	1145	40	1	5725	1	KIAA2026	9	5988525	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	20115	5988525	135224906	2159	79324											
RANBP6	26953	broad.mit.edu	37	chr9	6012876	6012876	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggccaccgaaaatattctAcatatttaaatgaagttgga	15	13	7	6	1	1	1	0	1	1	0	1	3	1	2	2	2	1	1	2	2	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:6012876A>G	uc003zjr.2	-	1	2743	c.2732T>C	c.(2731-2733)GTA>GCA	p.V911A	RANBP6_uc011lmf.1_Missense_Mutation_p.V559A|RANBP6_uc003zjs.2_Missense_Mutation_p.V499A	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	911	HEAT 6.				protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		AAAATATTCTACATATTTAAA	0.433													25	94					0	0	1	0	0		G	6012876	G	G	6012876	3	3	151	1	0	0	0	0	1	0	0	0	13056	391	14	3	589	3	RANBP6	9	6012876	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	24351	6012876	135200555	2160	79325											
UHRF2	115426	broad.mit.edu	37	chr9	6486850	6486850	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtgttcacagaccccaTgttggtggaattcatggtcg	8	11	13	9	1	2	1	2	0	0	1	3	2	2	2	2	4	0	3	2	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:6486850T>C	uc003zjy.2	+	9	1762	c.1422T>C	c.(1420-1422)CAT>CAC	p.H474H	UHRF2_uc003zjz.2_RNA|UHRF2_uc003zka.1_Silent_p.H251H|UHRF2_uc003zkb.2_RNA	NM_152896	NP_690856	Q96PU4	UHRF2_HUMAN	ubiquitin-like with PHD and ring finger domains	474	YDG.|Methyl-CpG binding and interaction with HDAC1.				cell cycle|cell differentiation|cell proliferation|protein autoubiquitination|regulation of cell cycle|ubiquitin-dependent protein catabolic process	nucleus	DNA binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0392)|Lung(218;0.129)		ACAGACCCCATGTTGGTGGAA	0.393													15	59					0	0	1	0	0		C	6486850	C	C	6486850	2	2	151	1	0	0	0	0	0	0	0	1	16996	1461	51	3		3	UHRF2	9	6486850	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	473974	6486850	134726581	2161	79326											
GLDC	2731	broad.mit.edu	37	chr9	6536071	6536071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggcctacgcaccttcagcGgattgaccctggggtcgatg	7	8	14	12	3	1	1	1	1	0	0	2	3	1	2	3	4	2	1	3	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:6536071G>A	uc003zkc.2	-	23	3024	c.2831C>T	c.(2830-2832)CCG>CTG	p.P944L		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	944					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	CACCTTCAGCGGATTGACCCT	0.512													22	79					0	0	1	0	0		A	6536071	A	A	6536071	3	1	151	1	0	0	0	0	1	0	0	0	6448	1116	39	1	243	1	GLDC	9	6536071	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	49221	6536071	134677360	2162	79327											
KDM4C	23081	broad.mit.edu	37	chr9	6984274	6984274	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccccgactcagtcacagaTgacctcaaggtcagtgaaaa	15	6	8	12	1	4	3	4	2	0	1	4	4	4	3	3	1	1	0	3	1	4	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:6984274T>G	uc003zkh.2	+	10	1804	c.1224T>G	c.(1222-1224)GAT>GAG	p.D408E	KDM4C_uc010mhu.2_Missense_Mutation_p.D430E|KDM4C_uc011lmi.1_Missense_Mutation_p.D408E|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Missense_Mutation_p.D408E|KDM4C_uc011lmk.1_Missense_Mutation_p.D227E|KDM4C_uc011lml.1_Missense_Mutation_p.D95E	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	408					positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						CAGTCACAGATGACCTCAAGG	0.512													25	70					0	0	1	0	0		G	6984274	G	G	6984274	3	3	151	1	0	0	0	0	1	0	0	0	8146	1461	51	5	1328	5	KDM4C	9	6984274	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	448203	6984274	134229157	2163	79328											
PTPRD	5789	broad.mit.edu	37	chr9	8500960	8500960	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatggagtattcagtgataAtgccattctgtttttccact	9	17	8	7	0	2	2	1	2	1	0	3	3	3	3	2	1	1	2	2	1	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:8500960A>G	uc003zkk.2	-	23	2633	c.1922T>C	c.(1921-1923)ATT>ACT	p.I641T	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Missense_Mutation_p.I641T|PTPRD_uc003zkm.2_Missense_Mutation_p.I628T|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	641	Fibronectin type-III 4.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TTCAGTGATAATGCCATTCTG	0.463										TSP Lung(15;0.13)			36	170					0	0	1	0	0		G	8500960	G	G	8500960	3	3	151	1	0	0	0	0	1	0	0	0	12824	101	4	3	3976	3	PTPRD	9	8500960	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1516686	8500960	132712471	2164	79329											
PTPRD	5789	broad.mit.edu	37	chr9	8518133	8518133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctggacatccctcggggCactggatggtgcttgctctg	4	11	14	12	1	1	0	0	0	1	0	3	2	2	2	2	5	3	3	2	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:8518133C>T	uc003zkk.2	-	20	1969	c.1258G>A	c.(1258-1260)GCC>ACC	p.A420T	PTPRD_uc003zkp.2_Missense_Mutation_p.A420T|PTPRD_uc003zkq.2_Missense_Mutation_p.A420T|PTPRD_uc003zkr.2_Missense_Mutation_p.A414T|PTPRD_uc003zks.2_Missense_Mutation_p.A410T|PTPRD_uc003zkl.2_Missense_Mutation_p.A420T|PTPRD_uc003zkm.2_Missense_Mutation_p.A407T|PTPRD_uc003zkn.2_Missense_Mutation_p.A420T|PTPRD_uc003zko.2_Missense_Mutation_p.A417T	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	420	Fibronectin type-III 2.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TCCCTCGGGGCACTGGATGGT	0.512										TSP Lung(15;0.13)			49	185					0	0	1	0	0		T	8518133	T	T	8518133	3	4	151	1	0	0	0	0	1	0	0	0	12824	710	25	2	4652	2	PTPRD	9	8518133	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	17173	8518133	132695298	2165	79330											
PTPRD	5789	broad.mit.edu	37	chr9	8521543	8521543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatcttggtgggacacggCgaactggaacaaaacacaag	16	5	12	8	2	1	1	0	0	1	1	1	4	1	3	0	4	3	0	0	4	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:8521543C>T	uc003zkk.2	-	19	1406	c.695G>A	c.(694-696)CGC>CAC	p.R232H	PTPRD_uc003zkp.2_Missense_Mutation_p.R232H|PTPRD_uc003zkq.2_Missense_Mutation_p.R232H|PTPRD_uc003zkr.2_Missense_Mutation_p.R226H|PTPRD_uc003zks.2_Missense_Mutation_p.R222H|PTPRD_uc003zkl.2_Missense_Mutation_p.R232H|PTPRD_uc003zkm.2_Missense_Mutation_p.R219H|PTPRD_uc003zkn.2_Missense_Mutation_p.R232H|PTPRD_uc003zko.2_Missense_Mutation_p.R229H	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	232	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TGGGACACGGCGAACTGGAAC	0.448										TSP Lung(15;0.13)			8	96					0	0	1	0	0		T	8521543	T	T	8521543	3	4	151	1	0	0	0	0	1	0	0	0	12824	768	27	1	5219	1	PTPRD	9	8521543	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3410	8521543	132691888	2166	79331											
FREM1	158326	broad.mit.edu	37	chr9	14746967	14746967	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcgatcccattgcactgaTacagcttctggatgccttct	8	12	9	12	1	2	1	0	1	2	0	3	3	3	2	2	2	4	2	2	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:14746967T>C	uc003zlm.2	-	34	6682	c.6092A>G	c.(6091-6093)TAT>TGT	p.Y2031C	FREM1_uc010mic.2_RNA|FREM1_uc003zlk.2_RNA|FREM1_uc003zll.2_Missense_Mutation_p.Y567C	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	2031					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		ATTGCACTGATACAGCTTCTG	0.493													8	41					0	0	1	0	0		C	14746967	C	C	14746967	3	2	151	1	0	0	0	0	1	0	0	0	6058	1406	49	3	463	3	FREM1	9	14746967	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6225424	14746967	126466464	2167	79332											
C9orf93	203238	broad.mit.edu	37	chr9	15777690	15777690	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattagtctggtaatggaaTgtatacctctgcacagtagc	13	12	9	7	0	2	0	0	0	2	0	2	1	2	1	1	2	3	4	1	2	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:15777690T>C	uc003zmd.2	+	19	3079	c.2764T>C	c.(2764-2766)TGT>CGT	p.C922R	C9orf93_uc003zme.2_Missense_Mutation_p.C837R|C9orf93_uc011lmu.1_Missense_Mutation_p.C930R|C9orf93_uc003zmf.1_Missense_Mutation_p.C230R	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	922											0				GBM - Glioblastoma multiforme(50;4.84e-07)		GGTAATGGAATGTATACCTCT	0.398													37	85					0	0	1	0	0		C	15777690	C	C	15777690	3	2	151	1	0	0	0	0	1	0	0	0	2509	1464	51	3	2834	3	C9orf93	9	15777690	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1030723	15777690	125435741	2168	79333											
HAUS6	54801	broad.mit.edu	37	chr9	19083042	19083042	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcccacaaagaccgaacCtttggaaacagaaacaaaat	20	4	7	10	1	0	2	0	0	0	2	0	5	0	3	3	1	4	0	3	1	7	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:19083042C>A	uc003znk.2	-	8	953	c.700_splice	c.e8-1	p.V234_splice	HAUS6_uc011lmz.1_Splice_Site|HAUS6_uc003znl.1_Splice_Site_p.V98_splice|HAUS6_uc003znm.1_Splice_Site	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6						cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						AAGACCGAACCTTTGGAAACA	0.328													23	56					0.000720815	0.000727106	1	1	0		A	19083042	A	A	19083042	5	1	151	1	0	0	0	0	0	0	1	0	6986	695	24	5	2208	5	HAUS6	9	19083042	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3305352	19083042	122130389	2169	79334											
KIAA1797	54914	broad.mit.edu	37	chr9	20923715	20923715	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaagcagccttgctgtcgTcgtatctagacatgaagcca	10	11	9	11	2	2	2	0	1	2	1	4	2	2	2	2	0	4	3	2	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:20923715T>C	uc003zog.1	+	27	3272	c.2909T>C	c.(2908-2910)GTC>GCC	p.V970A	KIAA1797_uc003zoh.1_Missense_Mutation_p.V406A	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	970						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		CTTGCTGTCGTCGTATCTAGA	0.438													6	29					0	0	1	0	0		C	20923715	C	C	20923715	3	2	151	1	0	0	0	0	1	0	0	0	8274	1667	58	3	3003	3	KIAA1797	9	20923715	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1840673	20923715	120289716	2170	79335											
IFNB1	3456	broad.mit.edu	37	chr9	21077708	21077708	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcaaagttcatcctgtccTtgaggcagtattcaagcctc	9	13	8	11	0	3	1	3	1	0	0	6	1	5	1	3	1	1	3	3	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:21077708T>G	uc003zok.2	-	1	236	c.161A>C	c.(160-162)AAG>ACG	p.K54T		NM_002176	NP_002167	P01574	IFNB_HUMAN	interferon, beta 1, fibroblast precursor	54					activation of caspase activity|B cell proliferation|blood coagulation|cellular response to exogenous dsRNA|defense response to virus|induction of apoptosis|natural killer cell activation|negative regulation of cell proliferation|negative regulation of T cell differentiation|negative regulation of T-helper 2 cell cytokine production|negative regulation of viral genome replication|negative regulation of viral transcription|negative regulation of virion penetration into host cell|positive regulation of innate immune response|positive regulation of transcription from RNA polymerase II promoter|regulation of MHC class I biosynthetic process|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding|transcription corepressor activity			ovary(1)|breast(1)|kidney(1)	3				GBM - Glioblastoma multiforme(5;7.45e-142)|Lung(24;2.42e-17)|LUSC - Lung squamous cell carcinoma(38;7.17e-11)	Interferon beta-1a(DB00060)|Interferon beta-1b(DB00068)	CATCCTGTCCTTGAGGCAGTA	0.478													29	111					0	0	1	0	0		G	21077708	G	G	21077708	3	3	151	1	0	0	0	0	1	0	0	0	7562	1609	56	5	406	5	IFNB1	9	21077708	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	153993	21077708	120135723	2171	79336											
IFNA21	3452	broad.mit.edu	37	chr9	21166383	21166383	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctcatggaggacagagaTggcttgagccttctggaact	10	10	12	9	0	2	2	1	1	2	1	3	6	2	5	1	4	2	1	1	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:21166383T>C	uc003zom.2	-	1	277	c.229A>G	c.(229-231)ATC>GTC	p.I77V		NM_002175	NP_002166	P01568	IFN21_HUMAN	interferon, alpha 21 precursor	77					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding			central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(5;1.93e-187)|Lung(24;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		AGGACAGAGATGGCTTGAGCC	0.483													6	208					0	0	1	0	0		C	21166383	C	C	21166383	3	2	151	1	0	0	0	0	1	0	0	0	7554	1464	51	3	344	3	IFNA21	9	21166383	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	88675	21166383	120047048	2172	79337											
IFNA17	3451	broad.mit.edu	37	chr9	21227977	21227977	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggaactggttgccatcaaActcctcctggggaagtccaa	10	9	10	12	0	1	0	1	0	0	0	4	2	4	2	4	4	3	1	4	4	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:21227977A>G	uc003zos.1	-	1	245	c.196T>C	c.(196-198)TTT>CTT	p.F66L	IFNA14_uc003zoo.1_Intron	NM_021268	NP_067091	P01571	IFN17_HUMAN	interferon, alpha 17 precursor	66					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				Lung(24;2.13e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		TTGCCATCAAACTCCTCCTGG	0.507													46	214					0	0	1	0	0		G	21227977	G	G	21227977	3	3	151	1	0	0	0	0	1	0	0	0	7552	43	2	3	377	3	IFNA17	9	21227977	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	61594	21227977	119985454	2173	79338											
IFNA5	3442	broad.mit.edu	37	chr9	21304924	21304924	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcagctgctggtaaagtTcagtgtagaatttgtctaga	11	14	10	6	0	3	2	2	0	1	2	3	2	3	2	0	1	2	5	0	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:21304924T>C	uc011lnh.1	-	1	332	c.332A>G	c.(331-333)GAA>GGA	p.E111G		NM_002169	NP_002160	P01569	IFNA5_HUMAN	interferon, alpha 5 precursor	111					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding			ovary(1)	1				Lung(24;2.34e-24)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		CTGGTAAAGTTCAGTGTAGAA	0.468													32	146					0	0	1	0	0		C	21304924	C	C	21304924	3	2	151	1	0	0	0	0	1	0	0	0	7556	1783	62	3	241	3	IFNA5	9	21304924	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	76947	21304924	119908507	2174	79339											
IFNA1	3439	broad.mit.edu	37	chr9	21441040	21441041	+	Missense_Mutation	DNP	AA	GG	GG																															atgagatccctctctttatcAacaaacttgcaagaaagatt																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:21441040_21441041AA>GG	uc003zpd.1	+	1	601_602	c.534_535AA>GG	c.(532-537)TCAACA>TCGGCA	p.T179A		NM_024013	NP_076918	P01562	IFNA1_HUMAN	interferon, alpha 1 precursor	179					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			ovary(2)	2				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.0173)		TCTCTTTATCAACAAACTTGCA	0.401													38	190					0	0	1	0	0		GG	21441041	GG	GG	21441040	3	3	151	1	0	0	0	0	1	0	0	0	7547	117	5	3	536	3	IFNA1	9	21441040	Missense_Mutation	DNP	AA	TCGA-CG-5721-01A-11D-1600-08	136116	21441040	119772391	2175	79340											
PLAA	9373	broad.mit.edu	37	chr9	26920381	26920381	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagtctgtccttctctagtAccttaaaataaaaattttaa	14	15	4	8	1	2	0	0	0	2	0	4	1	3	0	2	0	1	1	2	0	8	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:26920381A>G	uc003zqd.2	-	8	1466	c.1041T>C	c.(1039-1041)GGT>GGC	p.G347G	PLAA_uc003zqe.2_Silent_p.G347G	NM_001031689	NP_001026859	Q9Y263	PLAP_HUMAN	phospholipase A2-activating protein	347					phospholipid metabolic process|signal transduction		phospholipase A2 activator activity				0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(218;1.32e-05)|LUSC - Lung squamous cell carcinoma(38;0.00011)		CTTCTCTAGTACCTTAAAATA	0.323													31	101					0	0	1	0	0		G	26920381	G	G	26920381	2	3	151	1	0	0	0	0	0	0	0	1	12030	405	14	3		3	PLAA	9	26920381	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5479341	26920381	114293050	2176	79341											
LRRC19	64922	broad.mit.edu	37	chr9	26998038	26998038	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttctagactggagaggtTaccaaaaccgttattatgta	14	13	8	6	1	1	2	0	0	1	2	1	3	1	2	2	2	2	3	2	2	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:26998038T>C	uc003zqh.2	-	3	394	c.283A>G	c.(283-285)AAC>GAC	p.N95D	IFT74_uc010mja.2_Intron|IFT74_uc010mjb.2_Intron|IFT74_uc003zqf.3_Intron|IFT74_uc003zqg.3_Intron	NM_022901	NP_075052	Q9H756	LRC19_HUMAN	leucine rich repeat containing 19 precursor	95	Extracellular (Potential).|LRR 2.					integral to membrane					0		all_neural(11;1.81e-09)		Lung(218;1.06e-05)|LUSC - Lung squamous cell carcinoma(38;0.0001)		CTGGAGAGGTTACCAAAACCG	0.318													45	212					0	0	1	0	0		C	26998038	C	C	26998038	3	2	151	1	0	0	0	0	1	0	0	0	8993	1754	61	3	841	3	LRRC19	9	26998038	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	77657	26998038	114215393	2177	79342											
IFT74	80173	broad.mit.edu	37	chr9	27009025	27009025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctgattttaggaaagaaAaacaaatcagaagtgtcgaa	18	10	8	5	1	2	3	1	1	1	2	3	5	2	4	0	1	1	0	0	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:27009025A>G	uc010mja.2	+	9	722	c.595A>G	c.(595-597)AAA>GAA	p.K199E	IFT74_uc010mjb.2_Missense_Mutation_p.K199E|IFT74_uc003zqf.3_Missense_Mutation_p.K199E|IFT74_uc003zqg.3_Missense_Mutation_p.K199E	NM_001099223	NP_001092693	Q96LB3	IFT74_HUMAN	coiled-coil domain containing 2 isoform a	199	Potential.					cytoplasmic membrane-bounded vesicle|intraflagellar transport particle B|microtubule-based flagellum				skin(1)	1		all_neural(11;2.36e-10)		Lung(218;1.4e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)		TAGGAAAGAAAAACAAATCAG	0.294													10	47					0	0	1	0	0		G	27009025	G	G	27009025	3	3	151	1	0	0	0	0	1	0	0	0	7579	15	1	3	625	3	IFT74	9	27009025	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	10987	27009025	114204406	2178	79343											
DDX58	23586	broad.mit.edu	37	chr9	32485235	32485235	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcagctgagctatgatgTatttaaatttgtcgctaatc	11	16	7	7	1	2	2	2	2	0	0	4	2	2	2	0	0	2	4	0	0	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:32485235T>C	uc003zra.2	-	10	1576	c.1418A>G	c.(1417-1419)TAC>TGC	p.Y473C	DDX58_uc010mjj.2_RNA|DDX58_uc010mjk.1_Missense_Mutation_p.Y428C|DDX58_uc011lnr.1_Missense_Mutation_p.Y270C|DDX58_uc010mji.2_Missense_Mutation_p.Y402C	NM_014314	NP_055129	O95786	DDX58_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	473					detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		AGCTATGATGTATTTAAATTT	0.378													58	231					0	0	1	0	0		C	32485235	C	C	32485235	3	2	151	1	0	0	0	0	1	0	0	0	4378	1638	57	3	1395	3	DDX58	9	32485235	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5476210	32485235	108728196	2179	79344											
APTX	54840	broad.mit.edu	37	chr9	32987768	32987768	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcattcaccatgtggagaAcctggccaggctgcagcttc	8	10	11	12	0	2	1	2	0	0	1	3	2	2	1	3	3	3	4	3	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:32987768A>G	uc003zrm.2	-	3	454	c.257T>C	c.(256-258)GTT>GCT	p.V86A	APTX_uc010mjm.2_Intron|APTX_uc003zrj.2_5'UTR|APTX_uc011lns.1_Intron|APTX_uc003zrl.2_Intron|APTX_uc003zrn.2_5'UTR|APTX_uc003zro.2_Missense_Mutation_p.V86A|APTX_uc003zrp.2_5'UTR|APTX_uc003zrq.2_5'UTR|APTX_uc003zrr.2_Intron|APTX_uc003zrs.2_Missense_Mutation_p.V86A|APTX_uc003zrt.2_5'UTR|APTX_uc003zru.2_Intron|APTX_uc003zrv.2_Missense_Mutation_p.V100A|APTX_uc003zrw.2_Missense_Mutation_p.V86A|APTX_uc003zrx.2_Missense_Mutation_p.V86A|APTX_uc003zry.2_Missense_Mutation_p.V86A|APTX_uc003zrz.2_Intron|APTX_uc003zsa.1_Intron|APTX_uc003zsb.1_Intron|APTX_uc003zsc.1_Intron	NM_175072	NP_778242	Q7Z2E3	APTX_HUMAN	aprataxin isoform c	100	Interactions with ADPRT and NCL.				cell death|double-strand break repair|regulation of protein stability|response to hydrogen peroxide|single strand break repair	chromatin|nucleolus|nucleoplasm	chromatin binding|damaged DNA binding|DNA 5'-adenosine monophosphate hydrolase activity|double-stranded DNA binding|double-stranded RNA binding|phosphoglycolate phosphatase activity|phosphoprotein binding|polynucleotide 3'-phosphatase activity|protein N-terminus binding|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0302)	GBM - Glioblastoma multiforme(74;0.105)		CATGTGGAGAACCTGGCCAGG	0.458								Direct_reversal_of_damage|Editing_and_processing_nucleases					21	102					0	0	1	0	0		G	32987768	G	G	32987768	3	3	151	1	0	0	0	0	1	0	0	0	820	43	2	3	800	3	APTX	9	32987768	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	502533	32987768	108225663	2180	79345											
DNAJA1	3301	broad.mit.edu	37	chr9	33038770	33038770	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaaggaagtggaagagActgatgagatggaccaagta	17	5	16	3	0	0	4	0	2	0	3	0	10	0	8	1	4	0	1	1	4	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:33038770A>G	uc003zsd.1	+	9	1246	c.1063A>G	c.(1063-1065)ACT>GCT	p.T355A	DNAJA1_uc011lnt.1_Missense_Mutation_p.T198A	NM_001539	NP_001530	P31689	DNJA1_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 1	355					protein folding|response to heat|response to unfolded protein	membrane	ATP binding|heat shock protein binding|low-density lipoprotein particle receptor binding|metal ion binding|unfolded protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.0227)	GBM - Glioblastoma multiforme(74;0.102)		AGTGGAAGAGACTGATGAGAT	0.443													11	64					0	0	1	0	0		G	33038770	G	G	33038770	3	3	151	1	0	0	0	0	1	0	0	0	4617	275	10	3	1093	3	DNAJA1	9	33038770	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	51002	33038770	108174661	2181	79346											
SMU1	55234	broad.mit.edu	37	chr9	33053213	33053213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtagaatcacactgttgaCggtaatatctgtccctgcgg	11	11	10	9	2	2	2	1	1	1	1	3	2	3	2	1	2	1	3	1	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:33053213C>T	uc003zsf.1	-	10	1306	c.1198G>A	c.(1198-1200)GTC>ATC	p.V400I	SMU1_uc010mjo.1_Missense_Mutation_p.V400I|SMU1_uc010mjp.1_Intron|SMU1_uc011lnu.1_Missense_Mutation_p.V239I	NM_018225	NP_060695	Q2TAY7	SMU1_HUMAN	smu-1 suppressor of mec-8 and unc-52 homolog	400	WD 5.					cytoplasm|nucleus				ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0227)	GBM - Glioblastoma multiforme(74;0.11)		ACACTGTTGACGGTAATATCT	0.438													41	157					0	0	1	0	0		T	33053213	T	T	33053213	3	4	151	1	0	0	0	0	1	0	0	0	14842	536	19	1	355	1	SMU1	9	33053213	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	14443	33053213	108160218	2182	79347											
B4GALT1	2683	broad.mit.edu	37	chr9	33120581	33120581	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacattgaggagcttagcAcgattgaatatagtgtctcc	12	11	9	9	1	1	2	0	2	1	0	2	4	1	3	2	1	3	2	2	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:33120581A>G	uc003zsg.2	-	3	861	c.672T>C	c.(670-672)CGT>CGC	p.R224R		NM_001497	NP_001488	P15291	B4GT1_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	224	Lumenal (Potential).				oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	basolateral plasma membrane|brush border membrane|desmosome|external side of plasma membrane|extracellular region|glycocalyx|Golgi cisterna membrane|Golgi trans cisterna|integral to membrane	alpha-tubulin binding|beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|beta-tubulin binding|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity|protein binding|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(29;0.0084)	GBM - Glioblastoma multiforme(74;0.121)	N-Acetyl-D-glucosamine(DB00141)	GGAGCTTAGCACGATTGAATA	0.448													15	85					0	0	1	0	0		G	33120581	G	G	33120581	2	3	151	1	0	0	0	0	0	0	0	1	1271	146	6	3		3	B4GALT1	9	33120581	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	67368	33120581	108092850	2183	79348											
AQP7	364	broad.mit.edu	37	chr9	33386157	33386157	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagcgacgggaccggtcAccatcagctgtccacccgaa	9	6	11	15	4	2	0	2	0	0	0	3	3	3	1	4	2	2	2	4	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:33386157A>G	uc003zst.2	-	6	615	c.443T>C	c.(442-444)GTG>GCG	p.V148A	SUGT1P1_uc010mjq.1_Intron|AQP7_uc003zsu.1_Missense_Mutation_p.V91A|AQP7_uc010mjs.2_Missense_Mutation_p.V56A|AQP7_uc010mjt.2_Missense_Mutation_p.V56A|AQP7_uc011lnx.1_Missense_Mutation_p.V148A|AQP7_uc011lny.1_Missense_Mutation_p.V147A|AQP7_uc003zss.3_Missense_Mutation_p.V56A|AQP7_uc011lnz.1_Missense_Mutation_p.V56A|AQP7_uc011loa.1_Intron	NM_001170	NP_001161	O14520	AQP7_HUMAN	aquaporin 7	148	Extracellular (Potential).				excretion|generation of precursor metabolites and energy	cell-cell junction|cytoplasm|integral to plasma membrane	glycerol channel activity|water channel activity				0			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		GGGACCGGTCACCATCAGCTG	0.572													11	85					0	0	1	0	0		G	33386157	G	G	33386157	3	3	151	1	0	0	0	0	1	0	0	0	831	159	6	3	597	3	AQP7	9	33386157	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	265576	33386157	107827274	2184	79349											
UBAP2	55833	broad.mit.edu	37	chr9	33948577	33948577	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctccaaatcctgagccaagGacggatgactttaaaagggg	13	8	11	9	1	1	2	0	2	1	0	3	4	2	4	3	4	1	0	3	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:33948577G>A	uc003ztq.1	-	13	1178	c.1065C>T	c.(1063-1065)GTC>GTT	p.V355V	UBAP2_uc011loc.1_Silent_p.V264V|UBAP2_uc011lod.1_Silent_p.V88V|UBAP2_uc011loe.1_Silent_p.V110V|UBAP2_uc011lof.1_Silent_p.V280V|UBAP2_uc011log.1_Silent_p.V301V|UBAP2_uc003ztr.2_Silent_p.V227V|UBAP2_uc003zts.2_5'UTR	NM_018449	NP_060919	Q5T6F2	UBAP2_HUMAN	ubiquitin associated protein 2	355										ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)		CTGAGCCAAGGACGGATGACT	0.413													48	161					0	0	1	0	0		A	33948577	A	A	33948577	2	1	151	1	0	0	0	0	0	0	0	1	16863	1161	41	4		4	UBAP2	9	33948577	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	562420	33948577	107264854	2185	79350											
C9orf23	138716	broad.mit.edu	37	chr9	34611198	34611198	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttgcgaattttgctgccAtctcggacccgcatctcaag	8	11	10	12	3	2	0	1	0	2	0	4	2	2	1	2	2	3	3	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:34611198A>G	uc003zuu.2	-	2	377	c.96T>C	c.(94-96)GAT>GAC	p.D32D	C9orf23_uc003zuv.2_Silent_p.D32D	NM_148179	NP_680545	Q8N5L8	CI023_HUMAN	hypothetical protein LOC138716	32							nucleic acid binding				0	all_epithelial(49;0.0863)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.0385)		TTTTGCTGCCATCTCGGACCC	0.607													9	42					0	0	1	0	0		G	34611198	G	G	34611198	2	3	151	1	0	0	0	0	0	0	0	1	2477	214	8	3		3	C9orf23	9	34611198	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	662621	34611198	106602233	2186	79351											
ARID3C	138715	broad.mit.edu	37	chr9	34622508	34622508	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcagtgccagacaagggTttggaattccactctcctct	9	10	10	12	0	2	1	0	0	2	1	4	2	3	2	3	3	1	2	3	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:34622508T>C	uc011lon.1	-	5	884	c.884A>G	c.(883-885)AAC>AGC	p.N295S	DCTN3_uc003zuw.1_5'Flank|DCTN3_uc003zux.1_5'Flank	NM_001017363	NP_001017363	A6NKF2	ARI3C_HUMAN	AT rich interactive domain 3C (BRIGHT- like)	295	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.175)		CAGACAAGGGTTTGGAATTCC	0.572													22	86					0	0	1	0	0		C	34622508	C	C	34622508	3	2	151	1	0	0	0	0	1	0	0	0	918	1725	60	3	365	3	ARID3C	9	34622508	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	11310	34622508	106590923	2187	79352											
SIGMAR1	10280	broad.mit.edu	37	chr9	34635783	34635783	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgggatgacgccccggccgTactccaccatccatgtgttt	7	10	10	14	3	0	1	0	1	0	0	2	2	2	2	6	2	1	2	6	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:34635783T>C	uc003zvb.2	-	4	592	c.518A>G	c.(517-519)TAC>TGC	p.Y173C	SIGMAR1_uc003zva.3_Missense_Mutation_p.Y153C|SIGMAR1_uc003zuz.2_Missense_Mutation_p.Y84C|SIGMAR1_uc003zvc.2_Missense_Mutation_p.Y142C|SIGMAR1_uc003zvd.2_RNA|SIGMAR1_uc011loo.1_Intron	NM_005866	NP_005857	Q99720	SGMR1_HUMAN	sigma non-opioid intracellular receptor 1	173	Cytoplasmic (Potential).				ergosterol biosynthetic process|lipid transport	cell junction|endoplasmic reticulum membrane|growth cone|integral to plasma membrane|lipid particle|nuclear inner membrane|nuclear outer membrane	C-8 sterol isomerase activity|drug binding				0					Dextromethorphan(DB00514)	GCCCCGGCCGTACTCCACCAT	0.612													14	38					0	0	1	0	0		C	34635783	C	C	34635783	3	2	151	1	0	0	0	0	1	0	0	0	14341	1638	57	3	157	3	SIGMAR1	9	34635783	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	13275	34635783	106577648	2188	79353											
PIGO	84720	broad.mit.edu	37	chr9	35091856	35091856	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagctaacagggccaccagCgccgccacacaagctccata	12	3	9	17	2	0	0	0	0	0	0	1	0	1	0	5	1	4	3	5	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:35091856C>T	uc003zwd.2	-	7	2424	c.2028G>A	c.(2026-2028)GCG>GCA	p.A676A	PIGO_uc003zwc.1_3'UTR|PIGO_uc003zwe.2_Intron|PIGO_uc003zwf.2_Intron|PIGO_uc003zwg.1_Silent_p.A239A	NM_032634	NP_116023	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	676	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	transferase activity			large_intestine(1)|ovary(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GGGCCACCAGCGCCGCCACAC	0.607													4	32					0	0	1	0	0		T	35091856	T	T	35091856	2	4	151	1	0	0	0	0	0	0	0	1	11913	755	27	1		1	PIGO	9	35091856	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	456073	35091856	106121575	2189	79354											
STOML2	30968	broad.mit.edu	37	chr9	35100102	35100102	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctggacatctctgctgctcCcactggagagtgagtctgga	7	10	12	12	0	2	2	0	1	2	1	4	5	3	4	2	3	2	2	2	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:35100102C>A	uc003zwi.2	-	10	1064	c.1001G>T	c.(1000-1002)GGG>GTG	p.G334V	STOML2_uc003zwh.2_Missense_Mutation_p.G225V|STOML2_uc003zwj.2_Missense_Mutation_p.G225V|STOML2_uc011lou.1_Missense_Mutation_p.G289V|STOML2_uc003zwk.2_Missense_Mutation_p.G283V	NM_013442	NP_038470	Q9UJZ1	STML2_HUMAN	stomatin (EPB72)-like 2	334						cytoskeleton	receptor binding				0			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			TCTGCTGCTCCCACTGGAGAG	0.547													45	193					2.64894e-19	2.76234e-19	1	1	0		A	35100102	A	A	35100102	3	1	151	1	0	0	0	0	1	0	0	0	15339	623	22	5	73	5	STOML2	9	35100102	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	8246	35100102	106113329	2190	79355											
UNC13B	10497	broad.mit.edu	37	chr9	35378381	35378381	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcaaaactaagaagcgtAccaagaccatttttggaaac	17	8	7	9	1	1	2	1	0	0	2	1	3	1	3	2	1	5	2	2	1	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:35378381A>G	uc003zwq.2	+	16	2198	c.1906A>G	c.(1906-1908)ACC>GCC	p.T636A	UNC13B_uc003zwr.2_Missense_Mutation_p.T636A	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	636	C2 2.				excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			TAAGAAGCGTACCAAGACCAT	0.483													53	212					0	0	1	0	0		G	35378381	G	G	35378381	3	3	151	1	0	0	0	0	1	0	0	0	17011	391	14	3	1968	3	UNC13B	9	35378381	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	278279	35378381	105835050	2191	79356											
UNC13B	10497	broad.mit.edu	37	chr9	35403993	35403993	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgagaatttgtgaaacTcaaatcagagtctcgttcca	12	10	9	10	2	3	3	2	1	1	2	5	4	4	3	2	1	1	1	2	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:35403993T>A	uc003zwq.2	+	39	5031	c.4739T>A	c.(4738-4740)CTC>CAC	p.L1580H	UNC13B_uc003zwr.2_Missense_Mutation_p.L1599H|ATP8B5P_uc010mkn.1_5'Flank|ATP8B5P_uc010mko.2_5'Flank|ATP8B5P_uc010mkp.2_5'Flank|ATP8B5P_uc003zwu.2_5'Flank	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	1580					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			TTTGTGAAACTCAAATCAGAG	0.527													9	56					0	0	1	0	0		A	35403993	A	A	35403993	3	1	151	1	0	0	0	0	1	0	0	0	17011	1551	54	5	4893	5	UNC13B	9	35403993	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	25612	35403993	105809438	2192	79357											
RUSC2	9853	broad.mit.edu	37	chr9	35547398	35547398	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacaacaagatgcatggcAccccccgtgccaatctcaac	12	7	6	16	1	2	1	1	0	2	1	3	1	2	1	4	1	5	2	4	1	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:35547398A>G	uc003zww.2	+	2	1135	c.880A>G	c.(880-882)ACC>GCC	p.T294A	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.T294A	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	294						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			GATGCATGGCACCCCCCGTGC	0.587													18	94					0	0	1	0	0		G	35547398	G	G	35547398	3	3	151	1	0	0	0	0	1	0	0	0	13776	159	6	3	882	3	RUSC2	9	35547398	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	143405	35547398	105666033	2193	79358											
TESK1	7016	broad.mit.edu	37	chr9	35609379	35609379	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcggcctcccaaccctggtcCcctagatcaggacccgtcct	6	8	8	19	2	1	1	1	0	0	1	5	2	4	2	7	3	1	0	7	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:35609379C>T	uc003zxa.2	+	10	1857	c.1521C>T	c.(1519-1521)TCC>TCT	p.S507S	TESK1_uc003zwz.1_RNA|TESK1_uc010mks.2_Silent_p.S347S	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	507					cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			AACCCTGGTCCCCTAGATCAG	0.652													7	55					0	0	1	0	0		T	35609379	T	T	35609379	2	4	151	1	0	0	0	0	0	0	0	1	15792	610	22	4		4	TESK1	9	35609379	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	61981	35609379	105604052	2194	79359											
TLN1	7094	broad.mit.edu	37	chr9	35707150	35707150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaccagctcggggggtccCggggattgactgcgagggcc	5	5	18	13	4	0	1	0	1	0	0	2	4	1	2	4	6	2	1	4	6	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:35707150C>T	uc003zxt.2	-	37	5228	c.4874G>A	c.(4873-4875)CGG>CAG	p.R1625Q		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1625	Interaction with SYNM.				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CGGGGGGTCCCGGGGATTGAC	0.602													24	94					0	0	1	0	0		T	35707150	T	T	35707150	3	4	151	1	0	0	0	0	1	0	0	0	15972	652	23	1	2835	1	TLN1	9	35707150	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	97771	35707150	105506281	2195	79360											
TMEM8B	51754	broad.mit.edu	37	chr9	35852855	35852855	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgaccagccaggcatcgTggttttctgcatcatggact	7	12	11	11	1	2	1	1	1	1	0	3	2	2	2	2	3	2	3	2	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:35852855T>C	uc003zym.2	+	12	1866	c.851T>C	c.(850-852)GTG>GCG	p.V284A	TMEM8B_uc003zyo.2_Missense_Mutation_p.V284A	NM_001042589	NP_001036054	A6NDV4	TMM8B_HUMAN	transmembrane protein 8B isoform a	284	Extracellular (Potential).				cell-matrix adhesion|regulation of growth|regulation of mitotic cell cycle	cell surface|endoplasmic reticulum|integral to membrane|mitochondrion|nucleus|plasma membrane	protein binding			ovary(1)	1						CCAGGCATCGTGGTTTTCTGC	0.502													41	178					0	0	1	0	0		C	35852855	C	C	35852855	3	2	151	1	0	0	0	0	1	0	0	0	16240	1696	59	3	1071	3	TMEM8B	9	35852855	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	145705	35852855	105360576	2196	79361											
MELK	9833	broad.mit.edu	37	chr9	36643018	36643018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcacctcgatgatgattgcGtaacagaactttctgtacat	11	14	7	9	2	2	3	1	2	1	1	3	4	2	3	1	0	4	2	1	0	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:36643018G>A	uc003zzn.2	+	11	997	c.859G>A	c.(859-861)GTA>ATA	p.V287I	MELK_uc011lpm.1_Missense_Mutation_p.V156I|MELK_uc011lpn.1_Missense_Mutation_p.V287I|MELK_uc011lpo.1_Missense_Mutation_p.V93I|MELK_uc010mll.2_Missense_Mutation_p.V255I|MELK_uc011lpp.1_Missense_Mutation_p.V239I|MELK_uc010mlm.2_Missense_Mutation_p.V216I|MELK_uc011lpq.1_Missense_Mutation_p.V93I|MELK_uc011lpr.1_Missense_Mutation_p.V216I|MELK_uc011lps.1_Missense_Mutation_p.V207I	NM_014791	NP_055606	Q14680	MELK_HUMAN	maternal embryonic leucine zipper kinase	287						cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		Acute lymphoblastic leukemia(2;1.09e-08)|all_hematologic(2;8.15e-06)	STAD - Stomach adenocarcinoma(86;0.228)			TGATGATTGCGTAACAGAACT	0.259													11	74					0	0	1	0	0		A	36643018	A	A	36643018	3	1	151	1	0	0	0	0	1	0	0	0	9488	1145	40	1	897	1	MELK	9	36643018	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	790163	36643018	104570413	2197	79362											
FBXO10	26267	broad.mit.edu	37	chr9	37541449	37541449	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacactcagggtacgtcgtTccctcctccggcggaataga	9	8	10	14	4	1	1	1	0	0	1	5	2	4	2	3	3	2	2	3	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:37541449T>C	uc004aab.2	-	2	366	c.317A>G	c.(316-318)GAA>GGA	p.E106G	FBXO10_uc004aac.2_Missense_Mutation_p.E122G|FBXO10_uc004aad.2_Intron	NM_012166	NP_036298	Q9UK96	FBX10_HUMAN	F-box protein 10	106						ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(5)	5				GBM - Glioblastoma multiforme(29;0.0107)		GGTACGTCGTTCCCTCCTCCG	0.552													13	78					0	0	1	0	0		C	37541449	C	C	37541449	3	2	151	1	0	0	0	0	1	0	0	0	5740	1783	62	3	2593	3	FBXO10	9	37541449	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	898431	37541449	103671982	2198	79363											
FRMPD1	22844	broad.mit.edu	37	chr9	37745884	37745884	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaggcaaaagtgacagctcTagcatctgcctttctgctga	11	10	10	10	0	3	2	0	2	3	0	3	3	3	2	1	1	4	4	1	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:37745884T>C	uc004aag.1	+	16	3899	c.3855T>C	c.(3853-3855)TCT>TCC	p.S1285S	FRMPD1_uc004aah.1_Silent_p.S1285S	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1285						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		GTGACAGCTCTAGCATCTGCC	0.493													34	137					0	0	1	0	0		C	37745884	C	C	37745884	2	2	151	1	0	0	0	0	0	0	0	1	6071	1509	53	3		3	FRMPD1	9	37745884	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	204435	37745884	103467547	2199	79364											
RG9MTD3	158234	broad.mit.edu	37	chr9	37768227	37768227	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggattttctagttacctggTaagtctctttttgcatatta	8	20	7	6	0	2	0	0	0	2	0	3	1	2	1	1	2	2	3	1	2	5	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:37768227T>C	uc004aai.2	+	5	650	c.573_splice	c.e5+2	p.L191_splice	RG9MTD3_uc011lqo.1_Intron|RG9MTD3_uc011lqp.1_Splice_Site_p.L113_splice|RG9MTD3_uc011lqq.1_Splice_Site_p.L80_splice|RG9MTD3_uc004aaj.2_Splice_Site|RG9MTD3_uc004aak.2_Splice_Site_p.L96_splice	NM_144964	NP_659401	Q6PF06	RG9D3_HUMAN	RNA (guanine-9-) methyltransferase domain								methyltransferase activity				0				GBM - Glioblastoma multiforme(29;0.00817)|Lung(182;0.226)		AGTTACCTGGTAAGTCTCTTT	0.333													46	191					0	0	1	0	0		C	37768227	C	C	37768227	5	2	151	1	0	0	0	0	0	0	1	0	13298	1652	57	3	589	3	RG9MTD3	9	37768227	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	22343	37768227	103445204	2200	79365											
ALDH1B1	219	broad.mit.edu	37	chr9	38397185	38397185	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatcgtcacctgccacacGccatttggagggtttaagga	11	9	10	11	2	1	0	1	0	0	0	2	2	1	2	3	3	2	1	3	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:38397185G>A	uc004aay.2	+	2	1552	c.1440G>A	c.(1438-1440)ACG>ACA	p.T480T		NM_000692	NP_000683	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1B1 precursor	480					carbohydrate metabolic process	mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity			skin(1)	1				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)	NADH(DB00157)	CCTGCCACACGCCATTTGGAG	0.562													19	42					0	0	1	0	0		A	38397185	A	A	38397185	2	1	151	1	0	0	0	0	0	0	0	1	493	1074	38	1		1	ALDH1B1	9	38397185	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	628958	38397185	102816246	2201	79366											
ZNF658	26149	broad.mit.edu	37	chr9	40774856	40774856	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaattcattctgtgtgagTcacatttacaggatattttt	11	17	7	6	0	3	1	2	1	1	0	3	2	3	2	0	1	1	1	0	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:40774856T>C	uc004abs.2	-	5	571	c.419A>G	c.(418-420)GAC>GGC	p.D140G	ZNF658_uc010mmm.1_Missense_Mutation_p.D140G|ZNF658_uc010mmn.1_Missense_Mutation_p.D140G	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	140					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		TCTGTGTGAGTCACATTTACA	0.323													15	64					0	0	1	0	0		C	40774856	C	C	40774856	3	2	151	1	0	0	0	0	1	0	0	0	18094	1667	58	3	2764	3	ZNF658	9	40774856	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2377671	40774856	100438575	2202	79367											
FAM75A6	389730	broad.mit.edu	37	chr9	43627524	43627524	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtccgggcagctgtttcgagTtctctcccatgttccagaag	6	12	11	12	2	1	1	0	0	1	1	6	2	4	1	3	1	1	5	3	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:43627524T>C	uc011lrb.1	-	4	1192	c.1163A>G	c.(1162-1164)AAC>AGC	p.N388S		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	388						integral to membrane					0						CTGTTTCGAGTTCTCTCCCAT	0.483													74	289					0	0	1	0	0		C	43627524	C	C	43627524	3	2	151	1	0	0	0	0	1	0	0	0	5636	1725	60	3	2872	3	FAM75A6	9	43627524	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2852668	43627524	97585907	2203	79368											
PRKACG	5568	broad.mit.edu	37	chr9	71628684	71628684	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagttgtccttaaaggagaActggagcttgacgaggaacg	12	8	15	6	2	0	2	0	1	0	1	1	7	1	5	1	4	3	2	1	4	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:71628684A>G	uc004agy.2	-	1	356	c.325T>C	c.(325-327)TTC>CTC	p.F109L		NM_002732	NP_002723	P22612	KAPCG_HUMAN	protein kinase, cAMP-dependent, catalytic,	109	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|gluconeogenesis|intracellular protein kinase cascade|male gonad development|nerve growth factor receptor signaling pathway|regulation of insulin secretion|spermatogenesis|transmembrane transport|triglyceride catabolic process|water transport	cytosol|nucleoplasm	ATP binding|cAMP-dependent protein kinase activity			ovary(1)|pancreas(1)|skin(1)	3						TTAAAGGAGAACTGGAGCTTG	0.557													23	93					0	0	1	0	0		G	71628684	G	G	71628684	3	3	151	1	0	0	0	0	1	0	0	0	12521	43	2	3	734	3	PRKACG	9	71628684	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	28001160	71628684	69584747	2204	79369											
PRKACG	5568	broad.mit.edu	37	chr9	71628958	71628958	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggctttggctaggaactcGttcacgctctcctcctgctc	4	13	9	15	2	2	0	1	0	1	0	6	1	3	1	2	3	2	5	2	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:71628958G>A	uc004agy.2	-	1	82	c.51C>T	c.(49-51)AAC>AAT	p.N17N		NM_002732	NP_002723	P22612	KAPCG_HUMAN	protein kinase, cAMP-dependent, catalytic,	17					activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|gluconeogenesis|intracellular protein kinase cascade|male gonad development|nerve growth factor receptor signaling pathway|regulation of insulin secretion|spermatogenesis|transmembrane transport|triglyceride catabolic process|water transport	cytosol|nucleoplasm	ATP binding|cAMP-dependent protein kinase activity			ovary(1)|pancreas(1)|skin(1)	3						CTAGGAACTCGTTCACGCTCT	0.448													18	44					0	0	1	0	0		A	71628958	A	A	71628958	2	1	151	1	0	0	0	0	0	0	0	1	12521	1136	40	1		1	PRKACG	9	71628958	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	274	71628958	69584473	2205	79370											
C9orf135	138255	broad.mit.edu	37	chr9	72501762	72501762	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatccctcttaggtgtgcatTgacaacgtactcagaagatt	11	13	8	9	1	2	3	1	1	1	2	3	3	3	3	1	1	3	2	1	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:72501762T>A	uc004ahl.2	+	5	523	c.458T>A	c.(457-459)TTG>TAG	p.L153*	C9orf135_uc011lrw.1_Nonsense_Mutation_p.L45*|C9orf135_uc010moq.2_Nonsense_Mutation_p.L45*|C9orf135_uc011lrx.1_RNA|C9orf135_uc010mop.2_Intron	NM_001010940	NP_001010940	Q5VTT2	CI135_HUMAN	hypothetical protein LOC138255	153	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						AGGTGTGCATTGACAACGTAC	0.323													28	109					0	0	1	0	0		A	72501762	A	A	72501762	4	1	151	1	0	0	0	0	0	1	0	0	2461	1821	63	5	476	5	C9orf135	9	72501762	Nonsense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	872804	72501762	68711669	2206	79371											
TRPM3	80036	broad.mit.edu	37	chr9	73151634	73151634	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgctccggcttggaggTctgtctgtgggtgcaagtgt	5	13	15	8	1	3	0	1	0	2	0	4	1	4	1	1	4	2	3	1	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:73151634T>C	uc004aid.2	-	25	4603	c.4359A>G	c.(4357-4359)AGA>AGG	p.R1453R	TRPM3_uc004ahu.2_Silent_p.R1295R|TRPM3_uc004ahv.2_Silent_p.R1255R|TRPM3_uc004ahw.2_Silent_p.R1325R|TRPM3_uc004ahx.2_Silent_p.R1312R|TRPM3_uc004ahy.2_Silent_p.R1315R|TRPM3_uc004ahz.2_Silent_p.R1302R|TRPM3_uc004aia.2_Silent_p.R1300R|TRPM3_uc004aib.2_Silent_p.R1290R|TRPM3_uc004aic.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1478	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GGCTTGGAGGTCTGTCTGTGG	0.527													9	82					0	0	1	0	0		C	73151634	C	C	73151634	2	2	151	1	0	0	0	0	0	0	0	1	16613	1664	58	3		3	TRPM3	9	73151634	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	649872	73151634	68061797	2207	79372											
TRPM3	80036	broad.mit.edu	37	chr9	73213424	73213424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccagtaaatgatgttcaCgcagtagatgaccctcccgt	12	10	8	11	2	1	3	1	2	0	1	2	3	2	3	3	0	1	4	3	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:73213424C>T	uc004aid.2	-	20	3167	c.2923G>A	c.(2923-2925)GTG>ATG	p.V975M	TRPM3_uc004ahu.2_Missense_Mutation_p.V805M|TRPM3_uc004ahv.2_Missense_Mutation_p.V777M|TRPM3_uc004ahw.2_Missense_Mutation_p.V847M|TRPM3_uc004ahx.2_Missense_Mutation_p.V834M|TRPM3_uc004ahy.2_Missense_Mutation_p.V837M|TRPM3_uc004ahz.2_Missense_Mutation_p.V824M|TRPM3_uc004aia.2_Missense_Mutation_p.V822M|TRPM3_uc004aib.2_Missense_Mutation_p.V812M|TRPM3_uc004aic.2_Missense_Mutation_p.V975M	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1000	Helical; (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						ATGATGTTCACGCAGTAGATG	0.483													52	164					0	0	1	0	0		T	73213424	T	T	73213424	3	4	151	1	0	0	0	0	1	0	0	0	16613	536	19	1	2224	1	TRPM3	9	73213424	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	61790	73213424	68000007	2208	79373											
ALDH1A1	216	broad.mit.edu	37	chr9	75524662	75524662	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacttcatgatttgctgcActggtccaaaaatctatacc	13	13	5	10	0	2	1	1	1	1	0	3	1	3	1	2	1	4	2	2	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:75524662A>G	uc004ajd.2	-	11	1267	c.1214T>C	c.(1213-1215)GTG>GCG	p.V405A	ALDH1A1_uc011lsh.1_Missense_Mutation_p.V326A|ALDH1A1_uc011lsg.1_Missense_Mutation_p.V231A	NM_000689	NP_000680	P00352	AL1A1_HUMAN	aldehyde dehydrogenase 1A1	405					cellular aldehyde metabolic process|ethanol oxidation|xenobiotic metabolic process	cytosol	aldehyde dehydrogenase (NAD) activity|androgen binding|Ras GTPase activator activity|retinal dehydrogenase activity			ovary(3)|lung(1)	4					NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	GATTTGCTGCACTGGTCCAAA	0.294													32	147					0	0	1	0	0		G	75524662	G	G	75524662	3	3	151	1	0	0	0	0	1	0	0	0	490	159	6	3	303	3	ALDH1A1	9	75524662	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2311238	75524662	65688769	2209	79374											
RORB	6096	broad.mit.edu	37	chr9	77257488	77257488	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattagcaacggcctgagcAacctgaacaacgagaccagc	14	4	10	13	2	0	3	0	2	0	1	0	4	0	3	3	1	7	3	3	1	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:77257488A>G	uc004aji.2	+	4	476	c.427A>G	c.(427-429)AAC>GAC	p.N143D	RORB_uc004ajh.2_Missense_Mutation_p.N132D	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	143	Hinge (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						CGGCCTGAGCAACCTGAACAA	0.468													12	77					0	0	1	0	0		G	77257488	G	G	77257488	3	3	151	1	0	0	0	0	1	0	0	0	13554	130	5	3	408	3	RORB	9	77257488	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1732826	77257488	63955943	2210	79375											
TRPM6	140803	broad.mit.edu	37	chr9	77435270	77435270	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttggaaaaggtgcttggActgtttaagactaaagttga	14	13	11	3	0	0	2	0	1	0	1	0	4	0	4	0	3	1	3	0	3	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:77435270A>G	uc004ajl.1	-	9	1322	c.1084T>C	c.(1084-1086)TCC>CCC	p.S362P	TRPM6_uc004ajk.1_Missense_Mutation_p.S357P|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.S362P|TRPM6_uc010mpd.1_Missense_Mutation_p.S362P|TRPM6_uc010mpe.1_Intron	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	362	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						AGGTGCTTGGACTGTTTAAGA	0.393													18	96					0	0	1	0	0		G	77435270	G	G	77435270	3	3	151	1	0	0	0	0	1	0	0	0	16616	275	10	3	5108	3	TRPM6	9	77435270	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	177782	77435270	63778161	2211	79376											
OSTF1	26578	broad.mit.edu	37	chr9	77755814	77755814	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatggctaccaatgctgcCtgtgcatctctcctgaaaaa	11	10	8	12	0	1	1	0	1	1	0	3	2	2	1	3	1	4	3	3	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:77755814C>T	uc004ajv.3	+	9	763	c.552C>T	c.(550-552)GCC>GCT	p.A184A	OSTF1_uc004ajw.3_Silent_p.A141A|OSTF1_uc004ajx.3_Silent_p.A187A	NM_012383	NP_036515	Q92882	OSTF1_HUMAN	osteoclast stimulating factor 1	184					ossification|signal transduction	cytoplasm	identical protein binding			skin(1)	1						CCAATGCTGCCTGTGCATCTC	0.403													24	100					0	0	1	0	0		T	77755814	T	T	77755814	2	4	151	1	0	0	0	0	0	0	0	1	11316	668	24	4		4	OSTF1	9	77755814	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	320544	77755814	63457617	2212	79377											
PCSK5	5125	broad.mit.edu	37	chr9	78749046	78749046	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtttctgacctggagagaCgtacagcatgttattgtcag	9	12	11	9	2	2	2	1	1	1	1	2	4	2	3	2	1	2	4	2	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:78749046C>T	uc004ajz.2	+	10	1768	c.1230C>T	c.(1228-1230)GAC>GAT	p.D410D	PCSK5_uc004ajy.2_Silent_p.D410D|PCSK5_uc004aka.2_Intron	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	410	Catalytic.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						CCTGGAGAGACGTACAGCATG	0.423													15	115					0	0	1	0	0		T	78749046	T	T	78749046	2	4	151	1	0	0	0	0	0	0	0	1	11622	535	19	1		1	PCSK5	9	78749046	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	993232	78749046	62464385	2213	79378											
PRUNE2	158471	broad.mit.edu	37	chr9	79321580	79321580	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaatatcaccctgaactggTactccccagggactggcatt	10	10	8	13	0	2	1	2	1	0	0	3	2	3	2	3	3	2	2	3	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:79321580T>C	uc010mpk.2	-	8	5734	c.5610A>G	c.(5608-5610)GTA>GTG	p.V1870V	PRUNE2_uc004akj.3_5'Flank|PRUNE2_uc010mpl.1_5'Flank	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1870					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CCTGAACTGGTACTCCCCAGG	0.458													13	46					0	0	1	0	0		C	79321580	C	C	79321580	2	2	151	1	0	0	0	0	0	0	0	1	12663	1625	57	3		3	PRUNE2	9	79321580	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	572534	79321580	61891851	2214	79379											
FOXB2	442425	broad.mit.edu	37	chr9	79634951	79634951	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggaagcaccaagagcgcGccgggcgccggtccgggagg	7	1	20	13	7	0	1	0	0	0	1	1	3	1	3	4	5	2	1	4	5	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:79634951G>A	uc004ako.1	+	1	381	c.381G>A	c.(379-381)GCG>GCA	p.A127A		NM_001013735	NP_001013757	Q5VYV0	FOXB2_HUMAN	forkhead box B2	127					brain development|embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CCAAGAGCGCGCCGGGCGCCG	0.433													5	9					0	0	1	0	0		A	79634951	A	A	79634951	2	1	151	1	0	0	0	0	0	0	0	1	6007	1074	38	1		1	FOXB2	9	79634951	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	313371	79634951	61578480	2215	79380											
VPS13A	23230	broad.mit.edu	37	chr9	79952387	79952387	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttgggatttaccatacatAatgcatttgtggccacctat	10	14	9	8	0	0	0	0	0	0	0	0	1	0	1	3	3	3	2	3	3	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:79952387A>G	uc004akr.2	+	47	6572	c.6312A>G	c.(6310-6312)ATA>ATG	p.I2104M	VPS13A_uc004akp.3_Missense_Mutation_p.I2104M|VPS13A_uc004akq.3_Missense_Mutation_p.I2104M|VPS13A_uc004aks.2_Missense_Mutation_p.I2065M|VPS13A_uc004akt.2_Missense_Mutation_p.I444M	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2104					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						TACCATACATAATGCATTTGT	0.348													51	173					0	0	1	0	0		G	79952387	G	G	79952387	3	3	151	1	0	0	0	0	1	0	0	0	17215	352	13	3	6498	3	VPS13A	9	79952387	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	317436	79952387	61261044	2216	79381											
PSAT1	29968	broad.mit.edu	37	chr9	80921348	80921348	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgatgtcaagggagcagtActggtttgtgacatgtcctc	8	11	12	10	1	1	1	1	1	0	0	3	3	2	2	2	2	2	3	2	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:80921348A>G	uc004ala.2	+	5	584	c.516A>G	c.(514-516)GTA>GTG	p.V172V	PSAT1_uc004alb.2_Silent_p.V172V	NM_058179	NP_478059	Q9Y617	SERC_HUMAN	phosphoserine aminotransferase 1 isoform 1	172					L-serine biosynthetic process|pyridoxine biosynthetic process		O-phospho-L-serine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)	AGGGAGCAGTACTGGTTTGTG	0.502													9	480					0	0	1	0	0		G	80921348	G	G	80921348	2	3	151	1	0	0	0	0	0	0	0	1	12666	378	14	3		3	PSAT1	9	80921348	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	968961	80921348	60292083	2217	79382											
FRMD3	257019	broad.mit.edu	37	chr9	85925432	85925432	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaatcacataaaatgtctTcccttcaaacttcaatttgc	13	13	3	12	0	4	0	3	0	1	0	5	0	5	0	2	0	2	0	2	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:85925432T>G	uc004ams.1	-	9	1007	c.805A>C	c.(805-807)AAG>CAG	p.K269Q	FRMD3_uc004amr.1_Missense_Mutation_p.K255Q	NM_174938	NP_777598	A2A2Y4	FRMD3_HUMAN	FERM domain containing 3	269	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2						TAAAATGTCTTCCCTTCAAAC	0.398													71	346					0	0	1	0	0		G	85925432	G	G	85925432	3	3	151	1	0	0	0	0	1	0	0	0	6064	1792	62	5	1012	5	FRMD3	9	85925432	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5004084	85925432	55287999	2218	79383											
UBQLN1	29979	broad.mit.edu	37	chr9	86292640	86292640	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctgagttgttaaaagcatAcctcctactccaggcaccaa	12	9	7	13	0	0	1	0	1	0	0	2	1	2	1	5	1	3	4	5	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:86292640A>G	uc004amv.2	-	6	1679	c.1105_splice	c.e6+1	p.A369_splice	UBQLN1_uc004amw.2_Splice_Site_p.A369_splice	NM_013438	NP_038466	Q9UMX0	UBQL1_HUMAN	ubiquilin 1 isoform 1						apoptosis|regulation of protein ubiquitination|response to hypoxia	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm|proteasome complex	kinase binding				0						TTAAAAGCATACCTCCTACTC	0.433													5	43					0	0	1	0	0		G	86292640	G	G	86292640	5	3	151	1	0	0	0	0	0	0	1	0	16922	405	14	3	686	3	UBQLN1	9	86292640	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	367208	86292640	54920791	2219	79384											
GKAP1	80318	broad.mit.edu	37	chr9	86357453	86357453	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagttccttacctgaatagTgagctcattcttgatacttt	10	16	6	9	0	2	3	1	3	1	0	3	3	3	3	2	0	3	2	2	0	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:86357453T>C	uc004amy.2	-	11	1463	c.967A>G	c.(967-969)ACT>GCT	p.T323A	GKAP1_uc004amz.2_Missense_Mutation_p.T272A	NM_025211	NP_079487	Q5VSY0	GKAP1_HUMAN	G kinase anchoring protein 1 isoform a	323	Potential.				signal transduction	Golgi apparatus					0						ACCTGAATAGTGAGCTCATTC	0.348													39	217					0	0	1	0	0		C	86357453	C	C	86357453	3	2	151	1	0	0	0	0	1	0	0	0	6438	1696	59	3	145	3	GKAP1	9	86357453	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	64813	86357453	54855978	2220	79385											
AGTPBP1	23287	broad.mit.edu	37	chr9	88236136	88236136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgggttatccaagtcatAtaccacacgatctatgatat	12	14	6	9	1	2	1	1	1	1	0	3	2	3	1	2	1	1	1	2	1	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:88236136A>G	uc011ltd.1	-	14	2113	c.2080T>C	c.(2080-2082)TAT>CAT	p.Y694H	AGTPBP1_uc004aod.3_Missense_Mutation_p.Y320H|AGTPBP1_uc011ltc.1_Missense_Mutation_p.Y592H|AGTPBP1_uc010mqc.2_Missense_Mutation_p.Y654H|AGTPBP1_uc011lte.1_Missense_Mutation_p.Y706H	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	694					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						TCCAAGTCATATACCACACGA	0.239													24	92					0	0	1	0	0		G	88236136	G	G	88236136	3	3	151	1	0	0	0	0	1	0	0	0	400	449	16	3	1648	3	AGTPBP1	9	88236136	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1878683	88236136	52977295	2221	79386											
IARS	3376	broad.mit.edu	37	chr9	95050089	95050089	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataccttccactcagcagaaTatctcatcacaattgctcgg	12	11	5	13	1	3	1	3	0	1	1	6	1	4	1	2	1	3	2	2	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:95050089T>A	uc004art.1	-	4	637	c.380A>T	c.(379-381)TAT>TTT	p.Y127F	IARS_uc004ars.1_5'UTR|IARS_uc004aru.3_Missense_Mutation_p.Y127F|IARS_uc010mqr.2_Missense_Mutation_p.Y17F|IARS_uc010mqt.2_Intron	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	127					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	CTCAGCAGAATATCTCATCAC	0.398													53	186					0	0	1	0	0		A	95050089	A	A	95050089	3	1	151	1	0	0	0	0	1	0	0	0	7489	1406	49	5	3532	5	IARS	9	95050089	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6813953	95050089	46163342	2222	79387											
OGN	4969	broad.mit.edu	37	chr9	95165630	95165630	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcctgctgggttggtggTgctggctttatcagaggcac	5	12	16	8	0	1	1	1	0	0	1	2	2	2	1	1	5	2	5	1	5	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:95165630T>C	uc004asa.2	-	2	295	c.60A>G	c.(58-60)GCA>GCG	p.A20A	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|OGN_uc004asb.2_Silent_p.A20A|OGN_uc011ltx.1_Silent_p.A38A	NM_014057	NP_054776	P20774	MIME_HUMAN	osteoglycin preproprotein	20						extracellular space|proteinaceous extracellular matrix	growth factor activity				0						GGGTTGGTGGTGCTGGCTTTA	0.393													12	52					0	0	1	0	0		C	95165630	C	C	95165630	2	2	151	1	0	0	0	0	0	0	0	1	10865	1683	59	3		3	OGN	9	95165630	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	115541	95165630	46047801	2223	79388											
IPPK	64768	broad.mit.edu	37	chr9	95378327	95378327	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgatgaagggacgacaggCctttgatcagagctgcaagt	11	8	13	9	2	1	3	1	2	0	1	2	6	1	4	1	2	2	2	1	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:95378327C>T	uc004asl.1	-	13	1540	c.1263G>A	c.(1261-1263)AGG>AGA	p.R421R	IPPK_uc004ask.1_Silent_p.R120R|uc004asm.2_5'Flank	NM_022755	NP_073592	Q9H8X2	IPPK_HUMAN	inositol 1,3,4,5,6-pentakisphosphate 2-kinase	421					inositol or phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol pentakisphosphate 2-kinase activity			ovary(2)	2						GGACGACAGGCCTTTGATCAG	0.498													7	38					0	0	1	0	0		T	95378327	T	T	95378327	2	4	151	1	0	0	0	0	0	0	0	1	7817	738	26	2		2	IPPK	9	95378327	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	212697	95378327	45835104	2224	79389											
IPPK	64768	broad.mit.edu	37	chr9	95432206	95432206	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctgcgcgtgggccaccAccaggctcttattgccctct	5	10	9	17	2	3	0	1	0	2	0	3	0	3	0	5	2	2	1	5	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:95432206A>G	uc004asl.1	-	1	342	c.65T>C	c.(64-66)GTG>GCG	p.V22A		NM_022755	NP_073592	Q9H8X2	IPPK_HUMAN	inositol 1,3,4,5,6-pentakisphosphate 2-kinase	22					inositol or phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol pentakisphosphate 2-kinase activity			ovary(2)	2						GTGGGCCACCACCAGGCTCTT	0.657													6	34					0	0	1	0	0		G	95432206	G	G	95432206	3	3	151	1	0	0	0	0	1	0	0	0	7817	159	6	3	1462	3	IPPK	9	95432206	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	53879	95432206	45781225	2225	79390											
WNK2	65268	broad.mit.edu	37	chr9	95947742	95947742	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgagcccgaagaggaggaGgacgacgaggacgacctcaa	14	1	16	10	5	1	1	1	0	0	1	1	11	1	5	2	4	1	0	2	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:95947742G>C	uc004ati.1	+	1	531	c.531G>C	c.(529-531)GAG>GAC	p.E177D	WNK2_uc011lud.1_Missense_Mutation_p.E177D|WNK2_uc004atj.2_Missense_Mutation_p.E177D|WNK2_uc010mrc.1_Missense_Mutation_p.E177D	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	177					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						AAGAGGAGGAGGACGACGAGG	0.692													4	7					0	0	1	0	0		C	95947742	C	C	95947742	3	2	151	1	0	0	0	0	1	0	0	0	17404	991	35	5	533	5	WNK2	9	95947742	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	515536	95947742	45265689	2226	79391											
WNK2	65268	broad.mit.edu	37	chr9	95947835	95947835	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccgcggttccttcaagacGgtctacaaggggctggacac	8	7	14	12	3	2	1	1	0	1	1	3	2	3	2	2	6	1	2	2	6	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:95947835G>A	uc004ati.1	+	1	624	c.624G>A	c.(622-624)ACG>ACA	p.T208T	WNK2_uc011lud.1_Silent_p.T208T|WNK2_uc004atj.2_Silent_p.T208T|WNK2_uc010mrc.1_Silent_p.T208T	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	208	ATP (By similarity).|Protein kinase.				intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						CCTTCAAGACGGTCTACAAGG	0.662													4	10					0	0	1	0	0		A	95947835	A	A	95947835	2	1	151	1	0	0	0	0	0	0	0	1	17404	1103	39	1		1	WNK2	9	95947835	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	93	95947835	45265596	2227	79392											
WNK2	65268	broad.mit.edu	37	chr9	96062342	96062342	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatttgcaggctggacggTttaccacccaacgtctgaga	9	11	10	11	2	2	1	1	1	1	1	2	3	2	2	2	3	3	3	2	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:96062342T>G	uc004ati.1	+	26	6236	c.6236T>G	c.(6235-6237)GTT>GGT	p.V2079G	WNK2_uc011lud.1_Missense_Mutation_p.V2042G|WNK2_uc004atj.2_Missense_Mutation_p.V2042G|WNK2_uc004atk.2_Intron	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	2079					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						GGCTGGACGGTTTACCACCCA	0.483													51	205					0	0	1	0	0		G	96062342	G	G	96062342	3	3	151	1	0	0	0	0	1	0	0	0	17404	1725	60	5	6223	5	WNK2	9	96062342	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	114507	96062342	45151089	2228	79393											
FAM120A	23196	broad.mit.edu	37	chr9	96323469	96323469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccattgggctgggagcaggcGgggccgtgggggccgggggc	3	4	24	10	3	0	0	0	0	0	0	0	1	0	1	3	9	1	2	3	9	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:96323469G>A	uc004atw.2	+	16	2910	c.2885G>A	c.(2884-2886)CGG>CAG	p.R962Q	FAM120A_uc004aty.2_Missense_Mutation_p.R743Q|FAM120A_uc004atz.2_Missense_Mutation_p.R610Q|FAM120A_uc010mrg.2_Missense_Mutation_p.R229Q|FAM120A_uc004aua.1_5'Flank	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	962	RNA binding.					cytoplasm|plasma membrane	RNA binding				0						GGGAGCAGGCGGGGCCGTGGG	0.527													15	60					0	0	1	0	0		A	96323469	A	A	96323469	3	1	151	1	0	0	0	0	1	0	0	0	5426	1116	39	1	2947	1	FAM120A	9	96323469	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	261127	96323469	44889962	2229	79394											
PTPDC1	138639	broad.mit.edu	37	chr9	96847621	96847621	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatggcatgttccatggcGtgtggcggtagagcttgcaa	8	10	14	9	2	0	1	0	0	0	1	1	1	1	1	1	4	2	5	1	4	2	3	rs149606330	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:96847621G>A	uc004auf.1	+	3	511	c.171G>A	c.(169-171)GCG>GCA	p.A57A	PTPDC1_uc004aug.1_Silent_p.A57A|PTPDC1_uc004auh.1_Silent_p.A109A|PTPDC1_uc010mrj.1_Silent_p.A111A|PTPDC1_uc010mri.1_Silent_p.A109A	NM_177995	NP_818931	A2A3K4	PTPC1_HUMAN	protein tyrosine phosphatase domain containing 1	57							protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1						GTTCCATGGCGTGTGGCGGTA	0.498													22	93					0	0	1	0	0		A	96847621	A	A	96847621	2	1	151	1	0	0	0	0	0	0	0	1	12796	1132	40	1		1	PTPDC1	9	96847621	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	524152	96847621	44365810	2230	79395											
FANCC	2176	broad.mit.edu	37	chr9	97887409	97887409	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttctacaaagcactgcgTaaacacctgaatagtggcta	14	9	8	10	1	1	1	0	1	1	0	1	1	1	1	1	1	5	4	1	1	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:97887409T>C	uc004avh.2	-	10	1217	c.955A>G	c.(955-957)ACG>GCG	p.T319A	FANCC_uc004avi.3_Missense_Mutation_p.T319A|uc004avj.2_5'Flank	NM_000136	NP_000127	Q00597	FANCC_HUMAN	Fanconi anemia, complementation group C	319					protein complex assembly	cytosol|nucleoplasm	protein binding			kidney(1)	1		Acute lymphoblastic leukemia(62;0.138)				AAGCACTGCGTAAACACCTGA	0.428			D|Mis|N|F|S			AML|leukemia		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				25	81					0	0	1	0	0		C	97887409	C	C	97887409	3	2	151	1	0	0	0	0	1	0	0	0	5678	1638	57	3	745	3	FANCC	9	97887409	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1039788	97887409	43326022	2231	79396											
PTCH1	5727	broad.mit.edu	37	chr9	98231280	98231280	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacgtgcgtgtgggggtcgTactccgtgcggagctggaca	6	8	17	10	5	0	0	0	0	0	0	2	2	1	2	1	4	4	2	1	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:98231280T>C	uc004avk.3	-	14	2191	c.2003A>G	c.(2002-2004)TAC>TGC	p.Y668C	PTCH1_uc010mro.2_Missense_Mutation_p.Y517C|PTCH1_uc010mrp.2_Missense_Mutation_p.Y517C|PTCH1_uc010mrq.2_Missense_Mutation_p.Y517C|PTCH1_uc004avl.3_Missense_Mutation_p.Y517C|PTCH1_uc010mrr.2_Missense_Mutation_p.Y602C|PTCH1_uc004avm.3_Missense_Mutation_p.Y667C|PTCH1_uc010mrs.1_Missense_Mutation_p.Y336C	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	668	Cytoplasmic (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity	p.Y668Y(1)		skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				GTGGGGGTCGTACTCCGTGCG	0.622									Basal_Cell_Nevus_syndrome				20	96					0	0	1	0	0		C	98231280	C	C	98231280	3	2	151	1	0	0	0	0	1	0	0	0	12752	1638	57	3	2380	3	PTCH1	9	98231280	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	343871	98231280	42982151	2232	79397											
C9orf102	375748	broad.mit.edu	37	chr9	98683534	98683534	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagaggacgtgactttgatActtcaatcttctgagccttg	10	13	9	9	1	3	4	1	3	2	1	3	5	3	5	1	1	2	0	1	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:98683534A>G	uc004avt.3	+	7	1657	c.1269A>G	c.(1267-1269)ATA>ATG	p.I423M	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Missense_Mutation_p.I125M|C9orf102_uc010mry.1_Missense_Mutation_p.I125M|C9orf102_uc010mrz.2_Missense_Mutation_p.I234M|C9orf102_uc004avu.2_5'Flank	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	423					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				TGACTTTGATACTTCAATCTT	0.358													20	93					0	0	1	0	0		G	98683534	G	G	98683534	3	3	151	1	0	0	0	0	1	0	0	0	2448	381	14	3	1295	3	C9orf102	9	98683534	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	452254	98683534	42529897	2233	79398											
C9orf102	375748	broad.mit.edu	37	chr9	98740497	98740497	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagctgtttgcagttctaaGgtaagaaaaatatagggtag	15	12	11	3	0	1	1	0	0	1	1	1	1	1	1	0	2	2	6	0	2	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:98740497G>T	uc004avu.2	+	12	2610	c.1365G>T	c.(1363-1365)AAG>AAT	p.K455N	uc010msa.1_Missense_Mutation_p.K145N|uc011lun.1_Missense_Mutation_p.K145N			Q5T890	RAD26_HUMAN	Homo sapiens cDNA, FLJ97452.	Error:Variant_position_missing_in_Q5T890_after_alignment					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				GCAGTTCTAAGGTAAGAAAAA	0.393													3	32					0.004672	0.00470143	1	1	0		T	98740497	T	T	98740497	3	4	151	1	0	0	0	0	1	0	0	0	2448	1015	35	5		5	C9orf102	9	98740497	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	56963	98740497	42472934	2234	79399											
KIAA1529	57653	broad.mit.edu	37	chr9	100120005	100120005	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagtccaggggagagaaaAccgtaagtgttcaatagatt	16	8	12	5	1	1	3	1	0	0	3	2	5	2	4	2	2	1	2	2	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:100120005A>G	uc011lut.1	+	37	4683	c.3910A>G	c.(3910-3912)ACC>GCC	p.T1304A	KIAA1529_uc004axe.1_Missense_Mutation_p.T1136A|KIAA1529_uc004axg.1_Missense_Mutation_p.T1165A|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Missense_Mutation_p.T321A	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				GGGAGAGAAAACCGTAAGTGT	0.343													6	172					0	0	1	0	0		G	100120005	G	G	100120005	3	3	151	1	0	0	0	0	1	0	0	0	8256	43	2	3	3504	3	KIAA1529	9	100120005	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1379508	100120005	41093426	2235	79400											
TBC1D2	55357	broad.mit.edu	37	chr9	100983263	100983263	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcttggcgtggttcttgTccataagcagctgcacgtgc	5	12	13	11	2	1	0	0	0	1	0	2	0	2	0	1	2	5	6	1	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:100983263T>C	uc011lvb.1	-	6	1406	c.1226A>G	c.(1225-1227)GAC>GGC	p.D409G	TBC1D2_uc004ayq.2_Missense_Mutation_p.D409G|TBC1D2_uc004ayr.2_Missense_Mutation_p.D191G|TBC1D2_uc004ayo.3_Missense_Mutation_p.D409G	NM_018421	NP_060891	Q9BYX2	TBD2A_HUMAN	TBC1 domain family, member 2	409	Potential.|Interaction with RAC1.					cell junction|cytoplasmic membrane-bounded vesicle|nucleus	Rab GTPase activator activity			ovary(3)	3		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.55e-37)		GTGGTTCTTGTCCATAAGCAG	0.642													10	46					0	0	1	0	0		C	100983263	C	C	100983263	3	2	151	1	0	0	0	0	1	0	0	0	15633	1667	58	3	1559	3	TBC1D2	9	100983263	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	863258	100983263	40230168	2236	79401											
COL15A1	1306	broad.mit.edu	37	chr9	101748054	101748054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagcccagcagcacccGtggtggcgtgctcttcgcca	6	7	14	14	3	1	1	0	1	1	0	2	1	1	1	3	3	4	3	3	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:101748054G>A	uc004azb.1	+	3	514	c.308G>A	c.(307-309)CGT>CAT	p.R103H	COL15A1_uc004aza.2_Missense_Mutation_p.R103H	NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	103	TSP N-terminal.				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				AGCAGCACCCGTGGTGGCGTG	0.637													16	55					0	0	1	0	0		A	101748054	A	A	101748054	3	1	151	1	0	0	0	0	1	0	0	0	3675	1145	40	1	318	1	COL15A1	9	101748054	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	764791	101748054	39465377	2237	79402											
INVS	27130	broad.mit.edu	37	chr9	103035332	103035332	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatctcctcatgaagcatgaAcagttgagaaaagatgctgc	15	9	9	8	0	2	4	1	3	1	2	3	5	2	4	1	0	4	3	1	0	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:103035332A>G	uc004bap.1	+	12	1970	c.1758A>G	c.(1756-1758)GAA>GAG	p.E586E	INVS_uc010mta.1_Silent_p.E490E|INVS_uc011lve.1_Silent_p.E490E|INVS_uc004bao.1_Silent_p.E586E|INVS_uc004baq.1_Silent_p.E490E|INVS_uc004bar.1_Silent_p.E490E|INVS_uc010mtb.1_Silent_p.E260E	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	586					negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				TGAAGCATGAACAGTTGAGAA	0.502													35	153					0	0	1	0	0		G	103035332	G	G	103035332	2	3	151	1	0	0	0	0	0	0	0	1	7803	40	2	3		3	INVS	9	103035332	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1287278	103035332	38178099	2238	79403											
C9orf30	91283	broad.mit.edu	37	chr9	103213194	103213194	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagaaaactacaaactttTaccaaggaatggcctgtttc	16	10	7	8	0	0	1	0	0	0	1	1	3	0	2	2	2	4	1	2	2	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:103213194T>C	uc004baw.2	+	3	841	c.774T>C	c.(772-774)TTT>TTC	p.F258F	TMEFF1_uc004bay.1_Intron|C9orf30_uc004bax.2_RNA	NM_080655	NP_542386	Q96H12	CI030_HUMAN	hypothetical protein LOC91283	258										ovary(1)	1		Acute lymphoblastic leukemia(62;0.0527)				TACAAACTTTTACCAAGGAAT	0.418													23	83					0	0	1	0	0		C	103213194	C	C	103213194	2	2	151	1	0	0	0	0	0	0	0	1	2481	1751	61	3		3	C9orf30	9	103213194	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	177862	103213194	38000237	2239	79404											
ABCA1	19	broad.mit.edu	37	chr9	107594877	107594877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgaagcgagatatggtcCggattgcctggttagtctcg	8	11	13	9	3	1	2	0	1	1	1	3	4	2	3	3	3	2	1	3	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:107594877C>T	uc004bcl.2	-	12	1800	c.1487G>A	c.(1486-1488)CGG>CAG	p.R496Q		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	496	Extracellular.		R -> W (associated with increased plasma HDL cholesterol).		Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AGATATGGTCCGGATTGCCTG	0.478													20	77					0	0	1	0	0		T	107594877	T	T	107594877	3	4	151	1	0	0	0	0	1	0	0	0	28	652	23	1	5454	1	ABCA1	9	107594877	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4381683	107594877	33618554	2240	79405											
SLC44A1	23446	broad.mit.edu	37	chr9	108118594	108118594	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcagtgacaatagtgtctTacacaggctgattagtggag	11	12	12	6	0	2	2	1	2	1	0	2	3	2	3	0	2	1	1	0	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:108118594T>C	uc004bcn.2	+	6	823	c.602T>C	c.(601-603)TTA>TCA	p.L201S	SLC44A1_uc010mtk.1_Missense_Mutation_p.L201S|SLC44A1_uc004bco.1_5'UTR	NM_080546	NP_536856	Q8WWI5	CTL1_HUMAN	CDW92 antigen	201	Mitochondrial intermembrane (Potential).					integral to membrane|mitochondrial outer membrane|plasma membrane	choline transmembrane transporter activity			breast(3)|ovary(1)	4					Choline(DB00122)	AATAGTGTCTTACACAGGCTG	0.408													23	149					0	0	1	0	0		C	108118594	C	C	108118594	3	2	151	1	0	0	0	0	1	0	0	0	14660	1764	61	3	624	3	SLC44A1	9	108118594	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	523717	108118594	33094837	2241	79406											
SLC44A1	23446	broad.mit.edu	37	chr9	108118607	108118607	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgtcttacacaggctgatTagtggagtaatgaccagcaa	13	10	11	7	0	1	2	0	2	1	0	1	3	1	3	1	2	2	3	1	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:108118607T>C	uc004bcn.2	+	6	836	c.615T>C	c.(613-615)ATT>ATC	p.I205I	SLC44A1_uc010mtk.1_Silent_p.I205I|SLC44A1_uc004bco.1_5'UTR	NM_080546	NP_536856	Q8WWI5	CTL1_HUMAN	CDW92 antigen	205	Mitochondrial intermembrane (Potential).					integral to membrane|mitochondrial outer membrane|plasma membrane	choline transmembrane transporter activity			breast(3)|ovary(1)	4					Choline(DB00122)	ACAGGCTGATTAGTGGAGTAA	0.403													28	130					0	0	1	0	0		C	108118607	C	C	108118607	2	2	151	1	0	0	0	0	0	0	0	1	14660	1742	61	3		3	SLC44A1	9	108118607	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	13	108118607	33094824	2242	79407											
TMEM38B	55151	broad.mit.edu	37	chr9	108536265	108536265	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgagaagaaaagtgaagcAaagtcaccttccaatggcgt	15	8	11	7	1	1	3	1	2	0	2	2	4	2	3	2	1	1	1	2	1	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:108536265A>G	uc004bcu.1	+	6	897	c.780A>G	c.(778-780)GCA>GCG	p.A260A	TMEM38B_uc010mtn.1_3'UTR	NM_018112	NP_060582	Q9NVV0	TM38B_HUMAN	transmembrane protein 38B	260	Cytoplasmic (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			ovary(1)|skin(1)	2						AAAGTGAAGCAAAGTCACCTT	0.398													28	132					0	0	1	0	0		G	108536265	G	G	108536265	2	3	151	1	0	0	0	0	0	0	0	1	16185	117	5	3		3	TMEM38B	9	108536265	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	417658	108536265	32677166	2243	79408											
ZNF462	58499	broad.mit.edu	37	chr9	109734375	109734375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaacaacagccgtgttagcCctgtgcctctttctggggct	6	11	12	12	1	2	0	0	0	2	0	2	1	2	1	3	3	5	2	3	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:109734375C>T	uc004bcz.2	+	8	6806	c.6517C>T	c.(6517-6519)CCT>TCT	p.P2173S	ZNF462_uc010mto.2_Missense_Mutation_p.P2082S|ZNF462_uc004bda.2_Missense_Mutation_p.P2081S|ZNF462_uc011lvz.1_Missense_Mutation_p.P130S|ZNF462_uc004bdb.1_Missense_Mutation_p.P81S	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	2173					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						CCGTGTTAGCCCTGTGCCTCT	0.527													14	57					0	0	1	0	0		T	109734375	T	T	109734375	3	4	151	1	0	0	0	0	1	0	0	0	17951	623	22	4	6543	4	ZNF462	9	109734375	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1198110	109734375	31479056	2244	79409											
KLF4	9314	broad.mit.edu	37	chr9	110250404	110250404	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcggtctctctccgaggtaGgggcgccaggttgctaccgc	4	9	14	14	4	2	0	0	0	2	0	5	1	2	0	3	5	2	3	3	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:110250404G>A	uc004bdh.2	-	3	865	c.244C>T	c.(244-246)CTA>TTA	p.L82L	KLF4_uc004bdf.1_Silent_p.L41L|KLF4_uc004bdg.2_Silent_p.L91L	NM_004235	NP_004226	O43474	KLF4_HUMAN	Kruppel-like factor 4 (gut)	91					fat cell differentiation|mesodermal cell fate determination|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|stem cell maintenance|transcription from RNA polymerase II promoter	nucleus	RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor recruiting transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(2)|lung(1)	3						CTCCGAGGTAGGGGCGCCAGG	0.667													7	25					0	0	1	0	0		A	110250404	A	A	110250404	2	1	151	1	0	0	0	0	0	0	0	1	8364	991	35	4		4	KLF4	9	110250404	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	516029	110250404	30963027	2245	79410											
ACTL7A	10881	broad.mit.edu	37	chr9	111625200	111625200	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccctgcaatgcacatcgccTaccagtcgcgcctgtccatg	7	8	8	18	3	0	0	0	0	0	0	3	0	1	0	6	0	3	2	6	0	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:111625200T>C	uc004bdj.1	+	1	598	c.598T>C	c.(598-600)TAC>CAC	p.Y200H		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	200						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						GCACATCGCCTACCAGTCGCG	0.567													21	84					0	0	1	0	0		C	111625200	C	C	111625200	3	2	151	1	0	0	0	0	1	0	0	0	200	1522	53	3	600	3	ACTL7A	9	111625200	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1374796	111625200	29588231	2246	79411											
ACTL7A	10881	broad.mit.edu	37	chr9	111625720	111625720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagtggcttccctaaccGtctgcagaaggagctaagca	10	8	11	12	1	2	1	1	0	1	1	3	2	3	2	2	2	4	5	2	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:111625720G>A	uc004bdj.1	+	1	1118	c.1118G>A	c.(1117-1119)CGT>CAT	p.R373H		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	373						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						TTCCCTAACCGTCTGCAGAAG	0.587													14	85					0	0	1	0	0		A	111625720	A	A	111625720	3	1	151	1	0	0	0	0	1	0	0	0	200	1145	40	1	1120	1	ACTL7A	9	111625720	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	520	111625720	29587711	2247	79412											
IKBKAP	8518	broad.mit.edu	37	chr9	111663739	111663739	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccctcaggcaaaaacactgGcaggtatgggaatgggttgt	11	9	13	8	0	1	0	1	0	0	0	2	1	2	1	1	5	1	4	1	5	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:111663739G>A	uc004bdm.3	-	18	2500	c.1980C>T	c.(1978-1980)TGC>TGT	p.C660C	IKBKAP_uc004bdl.2_Silent_p.C311C|IKBKAP_uc011lwc.1_Silent_p.C546C|IKBKAP_uc010mtq.2_Silent_p.C311C	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	660					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						AAAAACACTGGCAGGTATGGG	0.403													11	27					0	0	1	0	0		A	111663739	A	A	111663739	2	1	151	1	0	0	0	0	0	0	0	1	7626	1195	42	2		2	IKBKAP	9	111663739	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	38019	111663739	29549692	2248	79413											
IKBKAP	8518	broad.mit.edu	37	chr9	111681604	111681604	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtaacttgtggtctatggTcatcccagggcaaagcagac	11	9	12	9	0	2	1	1	0	1	1	3	1	3	1	1	4	2	3	1	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:111681604T>C	uc004bdm.3	-	7	1098	c.578A>G	c.(577-579)GAC>GGC	p.D193G	IKBKAP_uc004bdl.2_5'Flank|IKBKAP_uc011lwc.1_Missense_Mutation_p.D79G|IKBKAP_uc010mtq.2_Intron	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	193					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						TGGTCTATGGTCATCCCAGGG	0.448													12	57					0	0	1	0	0		C	111681604	C	C	111681604	3	2	151	1	0	0	0	0	1	0	0	0	7626	1667	58	3	3544	3	IKBKAP	9	111681604	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	17865	111681604	29531827	2249	79414											
EPB41L4B	54566	broad.mit.edu	37	chr9	112029799	112029799	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggttctgaagaatagtattTaactcgaaagtgtaaagcat	15	13	9	4	1	1	2	0	1	1	1	2	3	1	2	0	1	2	4	0	1	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:112029799T>C	uc004bdz.1	-	4	782	c.487A>G	c.(487-489)AAA>GAA	p.K163E	EPB41L4B_uc004bea.2_Missense_Mutation_p.K163E	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	163	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						GAATAGTATTTAACTCGAAAG	0.443													28	92					0	0	1	0	0		C	112029799	C	C	112029799	3	2	151	1	0	0	0	0	1	0	0	0	5164	1763	61	3	2459	3	EPB41L4B	9	112029799	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	348195	112029799	29183632	2250	79415											
PTPN3	5774	broad.mit.edu	37	chr9	112166752	112166752	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactggatcagcaccgtcccGctttcgaggcccttctttag	7	11	9	14	3	2	0	1	0	1	0	4	2	3	1	3	2	2	2	3	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:112166752G>A	uc004bed.2	-	19	2041	c.1929C>T	c.(1927-1929)AGC>AGT	p.S643S	PTPN3_uc004beb.2_Silent_p.S512S|PTPN3_uc004bec.2_Silent_p.S467S|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Silent_p.S598S|PTPN3_uc011lwh.1_Silent_p.S489S|PTPN3_uc011lwd.1_Silent_p.S111S|PTPN3_uc011lwe.1_Silent_p.S356S|PTPN3_uc011lwf.1_Silent_p.S311S	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	643					negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						GCACCGTCCCGCTTTCGAGGC	0.502													20	68					0	0	1	0	0		A	112166752	A	A	112166752	2	1	151	1	0	0	0	0	0	0	0	1	12814	1078	38	1		1	PTPN3	9	112166752	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	136953	112166752	29046679	2251	79416											
SVEP1	79987	broad.mit.edu	37	chr9	113166770	113166770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agattctctcagggaaccagCgaccatctttctgacaggtg	10	10	10	11	1	4	2	1	1	3	1	5	4	4	3	2	2	2	0	2	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:113166770C>T	uc010mtz.2	-	39	9840	c.9503G>A	c.(9502-9504)CGC>CAC	p.R3168H	SVEP1_uc010mty.2_Missense_Mutation_p.R1094H	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	3168	Sushi 29.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						AGGGAACCAGCGACCATCTTT	0.418													104	396					0	0	1	0	0		T	113166770	T	T	113166770	3	4	151	1	0	0	0	0	1	0	0	0	15445	768	27	1	1252	1	SVEP1	9	113166770	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1000018	113166770	28046661	2252	79417											
MUSK	4593	broad.mit.edu	37	chr9	113530124	113530124	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagaaagataacaaaggCtactgcgcccagtacagagg	16	4	10	11	1	0	3	0	0	0	3	0	3	0	3	2	2	4	2	2	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:113530124C>T	uc004bey.2	+	8	1043	c.945C>T	c.(943-945)GGC>GGT	p.G315G		NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	315	FZ.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						ATAACAAAGGCTACTGCGCCC	0.423													20	140					0	0	1	0	0		T	113530124	T	T	113530124	2	4	151	1	0	0	0	0	0	0	0	1	10007	784	28	2		2	MUSK	9	113530124	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	363354	113530124	27683307	2253	79418											
MUSK	4593	broad.mit.edu	37	chr9	113547866	113547866	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcttactagatagacttcAtcccaaccccatgtaccaga	12	10	5	14	0	2	3	1	0	1	3	3	3	3	3	4	0	3	2	4	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:113547866A>G	uc004bey.2	+	12	1744	c.1646A>G	c.(1645-1647)CAT>CGT	p.H549R	MUSK_uc004bez.1_Missense_Mutation_p.H129R	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	549	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						GATAGACTTCATCCCAACCCC	0.493													47	220					0	0	1	0	0		G	113547866	G	G	113547866	3	3	151	1	0	0	0	0	1	0	0	0	10007	217	8	3	1728	3	MUSK	9	113547866	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	17742	113547866	27665565	2254	79419											
KIAA0368	23392	broad.mit.edu	37	chr9	114184265	114184265	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgccccttccaaagtactaTacgctccaaccatcatagat	12	10	5	14	1	1	1	1	0	0	1	3	1	3	1	5	0	4	2	5	0	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:114184265T>C	uc004bfe.1	-	16	1925	c.1925A>G	c.(1924-1926)TAT>TGT	p.Y642C	KIAA0368_uc010muc.1_Missense_Mutation_p.Y464C	NM_001080398	NP_001073867			KIAA0368 protein												0						CAAAGTACTATACGCTCCAAC	0.443													15	47					0	0	1	0	0		C	114184265	C	C	114184265	3	2	151	1	0	0	0	0	1	0	0	0	8187	1406	49	3	4272	3	KIAA0368	9	114184265	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	636399	114184265	27029166	2255	79420											
C9orf84	158401	broad.mit.edu	37	chr9	114490230	114490230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagatctggtacttcttttGccagagatggactcttttgt	8	17	9	7	0	3	2	0	0	3	2	3	4	3	3	1	2	2	1	1	2	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:114490230G>A	uc004bfr.2	-	11	1460	c.1325C>T	c.(1324-1326)GCA>GTA	p.A442V	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Missense_Mutation_p.A403V|C9orf84_uc010mug.2_Missense_Mutation_p.A388V	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	442										ovary(2)	2						TACTTCTTTTGCCAGAGATGG	0.348													23	132					0	0	1	0	0		A	114490230	A	A	114490230	3	1	151	1	0	0	0	0	1	0	0	0	2503	1319	46	2	3073	2	C9orf84	9	114490230	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	305965	114490230	26723201	2256	79421											
SUSD1	64420	broad.mit.edu	37	chr9	114911561	114911561	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgttgggaatgaatgtcttGttgttgtttgtggctcgata	6	18	13	4	2	1	1	0	1	1	0	3	3	1	2	0	2	0	5	0	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:114911561G>C	uc004bfu.2	-	3	377	c.336C>G	c.(334-336)AAC>AAG	p.N112K	SUSD1_uc010mui.2_Missense_Mutation_p.N112K|SUSD1_uc010muj.2_Missense_Mutation_p.N112K	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	112	EGF-like 2; calcium-binding (Potential).|Extracellular (Potential).					integral to membrane	calcium ion binding				0						TGAATGTCTTGTTGTTGTTTG	0.418													77	368					0	0	1	0	0		C	114911561	C	C	114911561	3	2	151	1	0	0	0	0	1	0	0	0	15432	1368	48	5	1967	5	SUSD1	9	114911561	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	421331	114911561	26301870	2257	79422											
ROD1	9991	broad.mit.edu	37	chr9	114997101	114997101	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacttaaaagaatcaccTgtagcttgaggaaatccaat	16	10	6	9	0	1	2	1	1	0	1	3	3	3	3	3	1	2	2	3	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:114997101T>C	uc004bfw.2	-	9	1150	c.963A>G	c.(961-963)ACA>ACG	p.T321T	ROD1_uc004bfv.2_Silent_p.T327T|ROD1_uc004bfx.2_Silent_p.T324T|ROD1_uc011lwu.1_Silent_p.T293T|ROD1_uc004bfy.2_Silent_p.T226T|ROD1_uc004bfz.2_Silent_p.T293T	NM_005156	NP_005147	O95758	ROD1_HUMAN	ROD1 regulator of differentiation 1 isoform 1	321					anatomical structure morphogenesis|mRNA processing	nucleus	nucleotide binding|RNA binding			skin(1)	1						AAGAATCACCTGTAGCTTGAG	0.368													10	55					0	0	1	0	0		C	114997101	C	C	114997101	2	2	151	1	0	0	0	0	0	0	0	1	13544	1594	55	3		3	ROD1	9	114997101	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	85540	114997101	26216330	2258	79423											
BSPRY	54836	broad.mit.edu	37	chr9	116130558	116130558	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccgaagaagcagagggcAttttggatccccaggagtcg	11	6	15	9	2	0	2	0	0	0	2	2	6	1	5	3	4	1	2	3	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:116130558A>G	uc004bhg.3	+	5	625	c.577A>G	c.(577-579)ATT>GTT	p.I193V	BSPRY_uc010muw.2_Intron	NM_017688	NP_060158	Q5W0U4	BSPRY_HUMAN	B-box and SPRY domain containing	193					calcium ion transport	cytoplasm|membrane	zinc ion binding			breast(1)	1						AGCAGAGGGCATTTTGGATCC	0.473													44	166					0	0	1	0	0		G	116130558	G	G	116130558	3	3	151	1	0	0	0	0	1	0	0	0	1535	217	8	3	595	3	BSPRY	9	116130558	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1133457	116130558	25082873	2259	79424											
HDHD3	81932	broad.mit.edu	37	chr9	116136524	116136524	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgagggctccacctccagCccatgggcccgggccttggt	4	7	14	16	1	0	1	0	1	0	0	2	1	2	1	6	4	1	2	6	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:116136524C>T	uc004bhi.1	-	2	895	c.111G>A	c.(109-111)GGG>GGA	p.G37G	HDHD3_uc004bhj.2_Silent_p.G37G|HDHD3_uc004bhk.2_Silent_p.G37G	NM_031219	NP_112496	Q9BSH5	HDHD3_HUMAN	haloacid dehalogenase-like hydrolase domain	37							phosphoglycolate phosphatase activity|protein binding				0						CCACCTCCAGCCCATGGGCCC	0.647													7	25					0	0	1	0	0		T	116136524	T	T	116136524	2	4	151	1	0	0	0	0	0	0	0	1	7040	726	26	2		2	HDHD3	9	116136524	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5966	116136524	25076907	2260	79425											
DFNB31	25861	broad.mit.edu	37	chr9	117186646	117186646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttgagcagcttgaacagggCcatgacgagggcctccacag	10	6	14	11	1	0	3	0	3	0	0	1	4	1	3	3	2	3	3	3	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:117186646C>T	uc004biz.3	-	6	2033	c.1384G>A	c.(1384-1386)GCC>ACC	p.A462T	DFNB31_uc004bix.2_Missense_Mutation_p.A111T|DFNB31_uc004biy.3_Missense_Mutation_p.A79T|DFNB31_uc004bja.3_Missense_Mutation_p.A462T	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	462					inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						TTGAACAGGGCCATGACGAGG	0.642													9	73					0	0	1	0	0		T	117186646	T	T	117186646	3	4	151	1	0	0	0	0	1	0	0	0	4461	739	26	2	1367	2	DFNB31	9	117186646	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1050122	117186646	24026785	2261	79426											
DFNB31	25861	broad.mit.edu	37	chr9	117266884	117266884	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaagacgttgcggcgcgcGtggtaagcgttcaggcagtg	7	8	17	9	7	1	1	1	0	0	1	2	2	1	1	0	3	2	4	0	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:117266884G>A	uc004biz.3	-	1	847	c.198C>T	c.(196-198)CAC>CAT	p.H66H	DFNB31_uc004biy.3_5'Flank|DFNB31_uc004bja.3_Silent_p.H66H|DFNB31_uc004bjb.2_Silent_p.H66H	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	66					inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						TGCGGCGCGCGTGGTAAGCGT	0.677													3	22					0	0	1	0	0		A	117266884	A	A	117266884	2	1	151	1	0	0	0	0	0	0	0	1	4461	1136	40	1		1	DFNB31	9	117266884	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	80238	117266884	23946547	2262	79427											
TNC	3371	broad.mit.edu	37	chr9	117804499	117804499	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttccgagtctcctaccTcctgtaatgggcacataggt	7	12	8	14	1	1	0	0	0	1	0	4	1	3	0	5	2	1	2	5	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:117804499T>C	uc004bjj.3	-	18	5609	c.5247A>G	c.(5245-5247)GGA>GGG	p.G1749G	TNC_uc010mvf.2_Silent_p.G1476G	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1749	Fibronectin type-III 13.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GTCTCCTACCTCCTGTAATGG	0.478													5	223					0	0	1	0	0		C	117804499	C	C	117804499	2	2	151	1	0	0	0	0	0	0	0	1	16295	1565	54	3		3	TNC	9	117804499	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	537615	117804499	23408932	2263	79428											
TNC	3371	broad.mit.edu	37	chr9	117826299	117826299	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagttgagtttgagggcaTcccagcccacctcggccacc	7	8	10	16	1	0	2	0	2	0	0	3	2	2	2	6	2	1	3	6	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:117826299T>C	uc004bjj.3	-	12	3898	c.3536A>G	c.(3535-3537)GAT>GGT	p.D1179G	TNC_uc010mvf.2_Missense_Mutation_p.D1179G	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1179	Fibronectin type-III 7.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TTTGAGGGCATCCCAGCCCAC	0.522													30	235					0	0	1	0	0		C	117826299	C	C	117826299	3	2	151	1	0	0	0	0	1	0	0	0	16295	1435	50	3	3137	3	TNC	9	117826299	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	21800	117826299	23387132	2264	79429											
TNC	3371	broad.mit.edu	37	chr9	117853152	117853152	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtaaacgtggttaaacAccactggctggttctcttct	8	15	9	9	1	2	0	0	0	2	0	3	0	2	0	1	3	2	5	1	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:117853152A>G	uc004bjj.3	-	2	508	c.146T>C	c.(145-147)GTG>GCG	p.V49A	TNC_uc010mvf.2_Missense_Mutation_p.V49A	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	49					cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GTGGTTAAACACCACTGGCTG	0.577													20	125					0	0	1	0	0		G	117853152	G	G	117853152	3	3	151	1	0	0	0	0	1	0	0	0	16295	159	6	3	6567	3	TNC	9	117853152	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	26853	117853152	23360279	2265	79430											
PAPPA	5069	broad.mit.edu	37	chr9	118950133	118950133	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaacccgacggtgacgcgCgagcaggtggacttccagca	11	4	14	12	5	0	2	0	1	0	1	1	5	1	3	2	3	3	2	2	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:118950133C>T	uc004bjn.2	+	2	1497	c.1116C>T	c.(1114-1116)CGC>CGT	p.R372R	PAPPA_uc011lxp.1_Silent_p.R165R|PAPPA_uc011lxq.1_Silent_p.R165R	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	372	Metalloprotease.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CGGTGACGCGCGAGCAGGTGG	0.572													10	37					0	0	1	0	0		T	118950133	T	T	118950133	2	4	151	1	0	0	0	0	0	0	0	1	11451	755	27	1		1	PAPPA	9	118950133	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1096981	118950133	22263298	2266	79431											
PAPPA	5069	broad.mit.edu	37	chr9	118974132	118974132	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaaacacaagtcctgtggTgacccagggccaggaaatga	13	6	11	11	0	0	2	0	2	0	0	1	3	1	3	4	3	1	0	4	3	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:118974132T>C	uc004bjn.2	+	4	2220	c.1839T>C	c.(1837-1839)GGT>GGC	p.G613G	PAPPA_uc011lxp.1_Intron|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	613					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						AGTCCTGTGGTGACCCAGGGC	0.532													63	346					0	0	1	0	0		C	118974132	C	C	118974132	2	2	151	1	0	0	0	0	0	0	0	1	11451	1683	59	3		3	PAPPA	9	118974132	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	23999	118974132	22239299	2267	79432											
ASTN2	23245	broad.mit.edu	37	chr9	119204810	119204810	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgagtgcctccctcgtgTatccacagcatacagagtga	9	10	9	13	1	1	3	0	2	1	1	4	3	3	3	3	0	3	2	3	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:119204810T>C	uc004bjs.1	-	21	3621	c.3520A>G	c.(3520-3522)ACA>GCA	p.T1174A	ASTN2_uc004bjr.1_Missense_Mutation_p.T1170A|ASTN2_uc004bjt.1_Missense_Mutation_p.T1123A|ASTN2_uc004bjp.1_Missense_Mutation_p.T267A|ASTN2_uc004bjq.1_Missense_Mutation_p.T226A|ASTN2_uc011lxr.1_Missense_Mutation_p.T226A|ASTN2_uc011lxs.1_Missense_Mutation_p.T226A|ASTN2_uc011lxt.1_Missense_Mutation_p.T226A|ASTN2_uc004bjo.1_Translation_Start_Site	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	1174	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CTCCCTCGTGTATCCACAGCA	0.537													28	96					0	0	1	0	0		C	119204810	C	C	119204810	3	2	151	1	0	0	0	0	1	0	0	0	1066	1638	57	3	552	3	ASTN2	9	119204810	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	230678	119204810	22008621	2268	79433											
DBC1	1620	broad.mit.edu	37	chr9	122011371	122011371	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcatgaggggcactggatgGcggaccagatctctcctctc	7	8	14	12	1	2	2	0	1	2	1	5	4	3	4	2	6	0	2	2	6	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:122011371G>A	uc004bkc.2	-	3	732	c.276C>T	c.(274-276)CGC>CGT	p.R92R	DBC1_uc004bkd.2_Silent_p.R92R	NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	92	MACPF.				cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GCACTGGATGGCGGACCAGAT	0.532													12	58					0	0	1	0	0		A	122011371	A	A	122011371	2	1	151	1	0	0	0	0	0	0	0	1	4250	1190	42	2		2	DBC1	9	122011371	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2806561	122011371	19202060	2269	79434											
C5	727	broad.mit.edu	37	chr9	123737152	123737152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgatgtccatactcaagcGgagttgtttaaccaggagtg	11	11	11	8	2	1	0	1	0	0	0	3	3	2	2	2	2	3	2	2	2	3	4	rs141543606	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:123737152G>A	uc004bkv.2	-	30	3952	c.3922C>T	c.(3922-3924)CGC>TGC	p.R1308C		NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	1308					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	ATACTCAAGCGGAGTTGTTTA	0.393													55	206					0	0	1	0	0		A	123737152	A	A	123737152	3	1	151	1	0	0	0	0	1	0	0	0	2283	1116	39	1	1156	1	C5	9	123737152	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1725781	123737152	17476279	2270	79435											
DAB2IP	153090	broad.mit.edu	37	chr9	124543794	124543794	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccacgcagagatgcaagcGgctgtggactccaaacagaa	14	4	12	11	2	0	2	0	0	0	2	1	5	1	3	2	2	3	3	2	2	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:124543794G>A	uc004bln.2	+	15	3351	c.3282G>A	c.(3280-3282)GCG>GCA	p.A1094A	DAB2IP_uc004blo.2_Silent_p.A998A|DAB2IP_uc004blp.2_Silent_p.A527A	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	1122	Potential.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						AGATGCAAGCGGCTGTGGACT	0.567													20	79					0	0	1	0	0		A	124543794	A	A	124543794	2	1	151	1	0	0	0	0	0	0	0	1	4222	1103	39	1		1	DAB2IP	9	124543794	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	806642	124543794	16669637	2271	79436											
TTLL11	158135	broad.mit.edu	37	chr9	124751996	124751996	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctgacaaccaccatcaggTttcacgataaaagtgggctt	12	9	8	12	1	2	1	2	1	0	0	2	2	2	1	3	2	1	2	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:124751996T>C	uc004blt.1	-	4	1205	c.1017A>G	c.(1015-1017)AAA>AAG	p.K339K	TTLL11_uc011lyl.1_Silent_p.K339K|TTLL11_uc004blr.2_RNA|TTLL11_uc011lym.1_Silent_p.K16K|TTLL11_uc004blu.1_3'UTR	NM_194252	NP_919228	Q8NHH1	TTL11_HUMAN	tubulin tyrosine ligase-like family, member 11	339	TTL.				protein modification process	cilium|microtubule basal body	tubulin-tyrosine ligase activity				0						CACCATCAGGTTTCACGATAA	0.468													38	170					0	0	1	0	0		C	124751996	C	C	124751996	2	2	151	1	0	0	0	0	0	0	0	1	16750	1722	60	3		3	TTLL11	9	124751996	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	208202	124751996	16461435	2272	79437											
TTLL11	158135	broad.mit.edu	37	chr9	124801573	124801573	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaacttgttcacttgaccGgagaatatgtcattgtcgtg	10	13	11	7	2	2	2	2	1	0	1	3	4	2	3	1	2	1	1	1	2	3	5	rs116781476	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:124801573G>A	uc004blt.1	-	2	995	c.807C>T	c.(805-807)TCC>TCT	p.S269S	TTLL11_uc011lyl.1_Silent_p.S269S|TTLL11_uc004blr.2_RNA|TTLL11_uc011lym.1_5'UTR|TTLL11_uc004blu.1_Silent_p.S269S	NM_194252	NP_919228	Q8NHH1	TTL11_HUMAN	tubulin tyrosine ligase-like family, member 11	269	TTL.				protein modification process	cilium|microtubule basal body	tubulin-tyrosine ligase activity				0						TCACTTGACCGGAGAATATGT	0.418													18	71					0	0	1	0	0		A	124801573	A	A	124801573	2	1	151	1	0	0	0	0	0	0	0	1	16750	1103	39	1		1	TTLL11	9	124801573	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	49577	124801573	16411858	2273	79438											
NDUFA8	4702	broad.mit.edu	37	chr9	124914655	124914655	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctccatagtgatgggcCgcagctttaagcacagcaga	11	8	12	10	1	0	3	0	2	0	1	1	3	1	3	2	1	4	5	2	1	2	3	rs117079538	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:124914655C>T	uc004blv.2	-	2	226	c.84G>A	c.(82-84)GCG>GCA	p.A28A		NM_014222	NP_055037	P51970	NDUA8_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	28					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			breast(1)	1					NADH(DB00157)	AGTGATGGGCCGCAGCTTTAA	0.478													26	61					0	0	1	0	0		T	124914655	T	T	124914655	2	4	151	1	0	0	0	0	0	0	0	1	10290	639	23	1		1	NDUFA8	9	124914655	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	113082	124914655	16298776	2274	79439											
MRRF	92399	broad.mit.edu	37	chr9	125033202	125033202	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaaagtgcttccgcatggTccaccctacctttcgcaatt	9	13	6	13	2	0	0	0	0	0	0	3	0	2	0	4	1	2	3	4	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:125033202T>C	uc004bmb.2	+	2	147	c.32T>C	c.(31-33)GTC>GCC	p.V11A	MRRF_uc004bmc.2_Missense_Mutation_p.V11A|MRRF_uc011lyq.1_Missense_Mutation_p.V32A|MRRF_uc010mvz.1_RNA|MRRF_uc010mwa.2_Missense_Mutation_p.V11A|MRRF_uc011lyr.1_Missense_Mutation_p.V11A|MRRF_uc004bmd.2_Missense_Mutation_p.V11A|MRRF_uc004bme.2_RNA	NM_138777	NP_620132	Q96E11	RRFM_HUMAN	mitochondrial ribosome recycling factor isoform	11					ribosome disassembly|translation	mitochondrion	sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						TTCCGCATGGTCCACCCTACC	0.423													50	216					0	0	1	0	0		C	125033202	C	C	125033202	3	2	151	1	0	0	0	0	1	0	0	0	9868	1667	58	3	34	3	MRRF	9	125033202	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	118547	125033202	16180229	2275	79440											
ZBTB6	10773	broad.mit.edu	37	chr9	125673881	125673881	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatctcacagtctttatcAgaattttcatcttcattctt	10	20	2	9	0	7	1	4	0	4	1	8	1	7	1	0	0	0	0	0	0	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:125673881A>G	uc004bnh.2	-	2	560	c.471T>C	c.(469-471)TCT>TCC	p.S157S		NM_006626	NP_006617	Q15916	ZBTB6_HUMAN	zinc finger and BTB domain containing 6	157					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGTCTTTATCAGAATTTTCAT	0.343													29	129					0	0	1	0	0		G	125673881	G	G	125673881	2	3	151	1	0	0	0	0	0	0	0	1	17577	175	7	3		3	ZBTB6	9	125673881	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	640679	125673881	15539550	2276	79441											
CRB2	286204	broad.mit.edu	37	chr9	126133465	126133465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctccgcactcgggagtccGctggcctgttgctccagttt	3	13	11	14	3	1	0	0	0	1	0	5	1	3	1	4	2	1	5	4	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:126133465G>A	uc004bnx.1	+	8	2136	c.2044G>A	c.(2044-2046)GCT>ACT	p.A682T	CRB2_uc004bnw.1_Missense_Mutation_p.A682T	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	682	Extracellular (Potential).|Laminin G-like 2.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						TCGGGAGTCCGCTGGCCTGTT	0.612													48	202					0	0	1	0	0		A	126133465	A	A	126133465	3	1	151	1	0	0	0	0	1	0	0	0	3852	1087	38	1	2074	1	CRB2	9	126133465	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	459584	126133465	15079966	2277	79442											
DENND1A	57706	broad.mit.edu	37	chr9	126212994	126212994	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcttcaagcggtttttcAcctcttttattcccattttt	5	22	4	10	1	3	0	2	0	1	0	4	0	4	0	2	1	2	2	2	1	2	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:126212994A>C	uc004bnz.1	-	18	1567	c.1334T>G	c.(1333-1335)GTG>GGG	p.V445G	DENND1A_uc011lzl.1_Missense_Mutation_p.V220G|DENND1A_uc004bny.1_Missense_Mutation_p.V184G|DENND1A_uc011lzm.1_Missense_Mutation_p.V413G|DENND1A_uc004boa.1_Missense_Mutation_p.V445G|DENND1A_uc004bob.1_Missense_Mutation_p.V415G|DENND1A_uc004boc.2_Missense_Mutation_p.V413G	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	445						cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						GCGGTTTTTCACCTCTTTTAT	0.353													17	94					0	0	1	0	0		C	126212994	C	C	126212994	3	2	151	1	0	0	0	0	1	0	0	0	4432	159	6	5	1822	5	DENND1A	9	126212994	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	79529	126212994	15000437	2278	79443											
NR5A1	2516	broad.mit.edu	37	chr9	127245230	127245230	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagtcaagcagggcggcgTtggccttctcctgagcgtct	5	11	14	11	3	3	1	1	1	2	0	4	1	3	1	2	3	2	3	2	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:127245230T>C	uc004boo.1	-	7	1380	c.1193A>G	c.(1192-1194)AAC>AGC	p.N398S		NM_004959	NP_004950	Q13285	STF1_HUMAN	nuclear receptor subfamily 5, group A, member 1	398	Important for dimerization.				cell-cell signaling|male gonad development|positive regulation of transcription from RNA polymerase II promoter|primary sex determination|regulation of steroid biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|phospholipid binding|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						CAGGGCGGCGTTGGCCTTCTC	0.592													20	62					0	0	1	0	0		C	127245230	C	C	127245230	3	2	151	1	0	0	0	0	1	0	0	0	10654	1725	60	3	196	3	NR5A1	9	127245230	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1032236	127245230	13968201	2279	79444											
OLFML2A	169611	broad.mit.edu	37	chr9	127549284	127549284	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggaccaggtgaggatgAcctcggagggctccgactgc	8	6	15	12	2	0	2	0	2	0	0	2	6	1	5	4	5	1	1	4	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:127549284A>G	uc004bov.2	+	2	234	c.121A>G	c.(121-123)ACC>GCC	p.T41A	OLFML2A_uc010mwr.1_Missense_Mutation_p.T41A	NM_182487	NP_872293	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A precursor	41											0						GGTGAGGATGACCTCGGAGGG	0.647													21	107					0	0	1	0	0		G	127549284	G	G	127549284	3	3	151	1	0	0	0	0	1	0	0	0	10876	275	10	3	127	3	OLFML2A	9	127549284	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	304054	127549284	13664147	2280	79445											
OLFML2A	169611	broad.mit.edu	37	chr9	127549392	127549392	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgtggaggacttctacacgGtggagactgtgagctcgggc	7	8	17	9	3	1	2	0	1	1	1	2	5	1	4	0	5	2	1	0	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:127549392G>T	uc004bov.2	+	2	342	c.229G>T	c.(229-231)GTG>TTG	p.V77L	OLFML2A_uc010mwr.1_Missense_Mutation_p.V77L	NM_182487	NP_872293	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A precursor	77											0						CTTCTACACGGTGGAGACTGT	0.627													6	44					0.00198382	0.00199816	1	1	0		T	127549392	T	T	127549392	3	4	151	1	0	0	0	0	1	0	0	0	10876	1261	44	5	235	5	OLFML2A	9	127549392	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	108	127549392	13664039	2281	79446											
ANGPTL2	23452	broad.mit.edu	37	chr9	129870558	129870558	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgggagagctccaacgcGttgtcccgcttgcggatgat	7	9	14	11	4	0	2	0	1	0	1	2	4	2	3	2	2	4	4	2	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:129870558G>A	uc004bqr.1	-	2	953	c.453C>T	c.(451-453)AAC>AAT	p.N151N	RALGPS1_uc004bqo.1_Intron|RALGPS1_uc011mab.1_Intron|RALGPS1_uc011mac.1_Intron|RALGPS1_uc004bqq.3_Intron|ANGPTL2_uc010mxg.1_Intron	NM_012098	NP_036230	Q9UKU9	ANGL2_HUMAN	angiopoietin-like 2 precursor	151					multicellular organismal development|signal transduction	extracellular space	receptor binding				0						GCTCCAACGCGTTGTCCCGCT	0.602													13	60					0	0	1	0	0		A	129870558	A	A	129870558	2	1	151	1	0	0	0	0	0	0	0	1	614	1136	40	1		1	ANGPTL2	9	129870558	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2321166	129870558	11342873	2282	79447											
ZNF79	7633	broad.mit.edu	37	chr9	130207103	130207103	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccttcagccagagtgcaaAcctcacaaaccatcagagga	14	5	9	13	0	3	2	3	0	0	2	3	3	3	3	4	2	4	1	4	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:130207103A>G	uc004bqw.3	+	5	1538	c.1124A>G	c.(1123-1125)AAC>AGC	p.N375S	ZNF79_uc011maf.1_Missense_Mutation_p.N351S|ZNF79_uc011mag.1_Missense_Mutation_p.N351S	NM_007135	NP_009066	Q15937	ZNF79_HUMAN	zinc finger protein 79	375	C2H2-type 7.			Missing (in Ref. 4; CAA46339).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						CAGAGTGCAAACCTCACAAAC	0.542													24	68					0	0	1	0	0		G	130207103	G	G	130207103	3	3	151	1	0	0	0	0	1	0	0	0	18186	43	2	3	1142	3	ZNF79	9	130207103	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	336545	130207103	11006328	2283	79448											
STXBP1	6812	broad.mit.edu	37	chr9	130416038	130416038	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaggatgctgtcctcctgCtgcaagatgacagacatcat	11	10	10	10	0	1	4	1	2	0	2	3	5	3	5	2	1	3	3	2	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:130416038C>T	uc004brl.2	+	3	329	c.132C>T	c.(130-132)TGC>TGT	p.C44C	STXBP1_uc004brk.2_Silent_p.C44C	NM_001032221	NP_001027392	P61764	STXB1_HUMAN	syntaxin binding protein 1 isoform b	44					axon target recognition|energy reserve metabolic process|glutamate secretion|negative regulation of synaptic transmission, GABAergic|neurotransmitter secretion|platelet aggregation|platelet degranulation|protein transport|regulation of insulin secretion|regulation of synaptic vesicle priming|synaptic vesicle maturation|vesicle docking involved in exocytosis	cytosol|mitochondrion|plasma membrane|platelet alpha granule|protein complex	identical protein binding|syntaxin-1 binding|syntaxin-2 binding			skin(1)	1						TGTCCTCCTGCTGCAAGATGA	0.448													20	78					0	0	1	0	0		T	130416038	T	T	130416038	2	4	151	1	0	0	0	0	0	0	0	1	15377	805	28	2		2	STXBP1	9	130416038	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	208935	130416038	10797393	2284	79449											
PTRH1	138428	broad.mit.edu	37	chr9	130476402	130476402	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggccccagtgagggcccctGgcttcgctcacggatgtggt	4	8	15	14	3	1	1	1	1	0	0	2	2	1	2	4	5	0	2	4	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:130476402G>T	uc004bro.2	-	5	640	c.622C>A	c.(622-624)CAG>AAG	p.Q208K	PTRH1_uc004brm.2_Intron|PTRH1_uc010mxm.2_3'UTR|PTRH1_uc011mah.1_Missense_Mutation_p.Q221K|TTC16_uc004brq.1_5'Flank|TTC16_uc011mai.1_5'Flank|TTC16_uc004brr.1_5'Flank	NM_001002913	NP_001002913	Q86Y79	PTH_HUMAN	peptidyl-tRNA hydrolase 1 homolog	208					translation		aminoacyl-tRNA hydrolase activity|protein binding				0						GAGGGCCCCTGGCTTCGCTCA	0.647													4	14					0.0293803	0.0294944	1	1	0		T	130476402	T	T	130476402	3	4	151	1	0	0	0	0	1	0	0	0	12841	1357	47	5	26	5	PTRH1	9	130476402	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	60364	130476402	10737029	2285	79450											
PIP5KL1	138429	broad.mit.edu	37	chr9	130687442	130687442	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctcatcctcgtggagacgTtggaaggctatcaggaggct	8	10	13	10	2	2	1	2	0	1	1	5	4	3	3	1	5	0	3	1	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:130687442T>C	uc011mao.1	-	9	906	c.861A>G	c.(859-861)CAA>CAG	p.Q287Q	PIP5KL1_uc004bsu.2_Silent_p.Q84Q	NM_001135219	NP_001128691	Q5T9C9	PI5L1_HUMAN	phosphatidylinositol-4-phosphate 5-kinase-like 1	287	PIPK.					cytoplasm|membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			lung(1)|kidney(1)	2						CGTGGAGACGTTGGAAGGCTA	0.632													9	80					0	0	1	0	0		C	130687442	C	C	130687442	2	2	151	1	0	0	0	0	0	0	0	1	11961	1722	60	3		3	PIP5KL1	9	130687442	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	211040	130687442	10525989	2286	79451											
SLC25A25	114789	broad.mit.edu	37	chr9	130868031	130868031	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgcctcccgcagcaacaaCatgggcatcgttggtggctt	8	9	11	13	2	0	0	0	0	0	0	2	0	1	0	2	3	4	5	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:130868031C>T	uc004bte.2	+	6	698	c.669C>T	c.(667-669)AAC>AAT	p.N223N	SLC25A25_uc004btb.2_Silent_p.N257N|SLC25A25_uc004btc.2_Silent_p.N243N|SLC25A25_uc004btd.2_Silent_p.N255N|SLC25A25_uc004btf.2_Silent_p.N120N	NM_052901	NP_443133	Q6KCM7	SCMC2_HUMAN	solute carrier family 25, member 25 isoform a	223	Solcar 1.|Mitochondrial matrix (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding				0						GCAGCAACAACATGGGCATCG	0.627													16	65					0	0	1	0	0		T	130868031	T	T	130868031	2	4	151	1	0	0	0	0	0	0	0	1	14513	477	17	4		4	SLC25A25	9	130868031	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	180589	130868031	10345400	2287	79452											
CIZ1	25792	broad.mit.edu	37	chr9	130941627	130941627	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgtttcggtactgtcaTccgggcctgcggctgggcct	2	13	14	12	3	2	0	1	0	1	0	4	0	3	0	3	4	2	3	3	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:130941627T>A	uc004btt.2	-	8	1022	c.859A>T	c.(859-861)ATG>TTG	p.M287L	CIZ1_uc004btr.2_Missense_Mutation_p.M287L|CIZ1_uc004bts.2_Missense_Mutation_p.M258L|CIZ1_uc011maq.1_Missense_Mutation_p.M282L|CIZ1_uc004btu.2_Missense_Mutation_p.M263L|CIZ1_uc011mar.1_Missense_Mutation_p.M186L|CIZ1_uc011mas.1_Missense_Mutation_p.M317L|CIZ1_uc004btw.2_Missense_Mutation_p.M287L|CIZ1_uc004btv.2_Missense_Mutation_p.M287L|CIZ1_uc004btx.2_Missense_Mutation_p.M263L	NM_001131016	NP_001124488	Q9ULV3	CIZ1_HUMAN	CDKN1A interacting zinc finger protein 1 isoform	287	Gln-rich.					nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4						GGTACTGTCATCCGGGCCTGC	0.582													25	88					0	0	1	0	0		A	130941627	A	A	130941627	3	1	151	1	0	0	0	0	1	0	0	0	3444	1435	50	5	1877	5	CIZ1	9	130941627	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	73596	130941627	10271804	2288	79453											
GOLGA2	2801	broad.mit.edu	37	chr9	131021357	131021357	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggtggcagcttccaggCgctcctaaggggccagaaaa	9	6	15	11	1	0	1	0	0	0	1	2	1	2	1	3	5	1	4	3	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:131021357C>T	uc011maw.1	-	20	2034	c.2021G>A	c.(2020-2022)CGC>CAC	p.R674H	GOLGA2_uc010mxw.2_Intron|GOLGA2_uc004buh.2_Missense_Mutation_p.R147H	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	674	Potential.					Golgi cisterna membrane	protein binding			ovary(1)	1						AGCTTCCAGGCGCTCCTAAGG	0.622													14	72					0	0	1	0	0		T	131021357	T	T	131021357	3	4	151	1	0	0	0	0	1	0	0	0	6567	768	27	1	1015	1	GOLGA2	9	131021357	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	79730	131021357	10192074	2289	79454											
COQ4	51117	broad.mit.edu	37	chr9	131087459	131087459	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagaccacaggacaccgCaccctgaaggtcctcaggga	11	3	14	13	1	1	2	1	1	0	1	2	5	2	4	4	5	0	1	4	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:131087459C>T	uc004bur.3	+	3	587	c.240C>T	c.(238-240)CGC>CGT	p.R80R	TRUB2_uc004buq.1_5'Flank|COQ4_uc011max.1_Silent_p.R80R|COQ4_uc004bus.2_Silent_p.R56R|COQ4_uc010mxy.2_Silent_p.R56R	NM_016035	NP_057119	Q9Y3A0	COQ4_HUMAN	coenzyme Q4 homolog precursor	80					ubiquinone biosynthetic process	mitochondrial inner membrane					0						CAGGACACCGCACCCTGAAGG	0.507													6	57					0	0	1	0	0		T	131087459	T	T	131087459	2	4	151	1	0	0	0	0	0	0	0	1	3750	697	25	2		2	COQ4	9	131087459	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	66102	131087459	10125972	2290	79455											
PKN3	29941	broad.mit.edu	37	chr9	131469074	131469074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcggatgaagatcagcaGcctggaggccagtgggtccc	8	6	16	11	1	1	2	1	1	0	1	2	4	2	4	3	4	3	2	3	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:131469074G>A	uc004bvw.2	+	4	887	c.494G>A	c.(493-495)AGC>AAC	p.S165N	PKN3_uc010myh.2_Missense_Mutation_p.S165N|PKN3_uc011mbk.1_5'UTR	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	165	REM 2.				signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4						AAGATCAGCAGCCTGGAGGCC	0.657													3	8					0	0	1	0	0		A	131469074	A	A	131469074	3	1	151	1	0	0	0	0	1	0	0	0	12000	971	34	2	508	2	PKN3	9	131469074	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	381615	131469074	9744357	2291	79456											
ENDOG	2021	broad.mit.edu	37	chr9	131584738	131584738	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgagctccgcacctacgTgatgcccaacgcacctgtgg	9	8	10	14	3	0	2	0	2	0	0	1	2	1	2	4	1	4	3	4	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:131584738T>C	uc004bwc.2	+	3	928	c.743T>C	c.(742-744)GTG>GCG	p.V248A	C9orf114_uc004bwd.2_3'UTR|C9orf114_uc004bwe.2_3'UTR|C9orf114_uc010mym.2_RNA	NM_004435	NP_004426	Q14249	NUCG_HUMAN	endonuclease G precursor	248						mitochondrion	endonuclease activity|metal ion binding|nucleic acid binding				0						CGCACCTACGTGATGCCCAAC	0.597													5	13					0	0	1	0	0		C	131584738	C	C	131584738	3	2	151	1	0	0	0	0	1	0	0	0	5123	1696	59	3	753	3	ENDOG	9	131584738	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	115664	131584738	9628693	2292	79457											
PHYHD1	254295	broad.mit.edu	37	chr9	131703842	131703842	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggcaccacctggagcccGgagaactggtaggtgacagg	9	6	15	11	1	1	2	0	1	1	1	1	4	1	3	3	6	2	2	3	6	2	1	rs147819781	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:131703842G>A	uc004bwo.2	+	12	1755	c.822G>A	c.(820-822)CCG>CCA	p.P274P	PHYHD1_uc004bwn.2_Missense_Mutation_p.R267Q|PHYHD1_uc004bwm.2_RNA|PHYHD1_uc004bwp.2_Silent_p.P253P|NUP188_uc004bwq.1_Silent_p.P10P	NM_001100876	NP_001094346	Q5SRE7	PHYD1_HUMAN	phytanoyl-CoA dioxygenase domain containing 1	274							metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CCTGGAGCCCGGAGAACTGGT	0.592													24	96					0	0	1	0	0		A	131703842	A	A	131703842	2	1	151	1	0	0	0	0	0	0	0	1	11884	1116	39	1		1	PHYHD1	9	131703842	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	119104	131703842	9509589	2293	79458											
DOLK	22845	broad.mit.edu	37	chr9	131709341	131709341	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaccatggaggcgggcaatAggccactgtttgcggacatt	9	9	14	9	2	0	1	0	1	0	0	0	3	0	3	2	5	1	2	2	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:131709341A>G	uc004bwr.2	-	1	672	c.242T>C	c.(241-243)CTA>CCA	p.L81P	NUP188_uc004bws.1_5'Flank|NUP188_uc004bwq.1_Intron	NM_014908	NP_055723	Q9UPQ8	DOLK_HUMAN	dolichol kinase	81	Helical; (Potential).				dolichyl diphosphate biosynthetic process|dolichyl monophosphate biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to endoplasmic reticulum membrane|membrane fraction	dolichol kinase activity				0						GGCGGGCAATAGGCCACTGTT	0.577													15	51					0	0	1	0	0		G	131709341	G	G	131709341	3	3	151	1	0	0	0	0	1	0	0	0	4709	420	15	3	1378	3	DOLK	9	131709341	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5499	131709341	9504090	2294	79459											
NUP188	23511	broad.mit.edu	37	chr9	131767594	131767594	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctccttagaacaaaaatgggGatggcctcccctcagctgtt	10	10	9	12	0	1	1	1	0	0	1	3	2	3	2	4	3	2	2	4	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:131767594G>A	uc004bws.1	+	40	4544	c.4522G>A	c.(4522-4524)GAT>AAT	p.D1508N		NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1508					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						CAAAAATGGGGATGGCCTCCC	0.572													20	76					0	0	1	0	0		A	131767594	A	A	131767594	3	1	151	1	0	0	0	0	1	0	0	0	10777	1174	41	4	4680	4	NUP188	9	131767594	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	58253	131767594	9445837	2295	79460											
FAM73B	84895	broad.mit.edu	37	chr9	131832578	131832578	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgacctggacaatgtgcgctAcacgtcactgcccgcgctgg	7	7	12	15	5	1	0	1	0	0	0	1	2	1	1	2	2	3	2	2	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:131832578A>G	uc004bxa.2	+	16	1814	c.1628A>G	c.(1627-1629)TAC>TGC	p.Y543C	FAM73B_uc004bwy.2_RNA|FAM73B_uc004bwz.2_RNA|FAM73B_uc004bxb.2_Missense_Mutation_p.Y119C	NM_032809	NP_116198	Q7L4E1	FA73B_HUMAN	hypothetical protein LOC84895	543						integral to membrane				skin(1)	1						AATGTGCGCTACACGTCACTG	0.667													7	43					0	0	1	0	0		G	131832578	G	G	131832578	3	3	151	1	0	0	0	0	1	0	0	0	5632	391	14	3	1686	3	FAM73B	9	131832578	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	64984	131832578	9380853	2296	79461											
CRAT	1384	broad.mit.edu	37	chr9	131857756	131857756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtaatgcgccaggcgggCggcgttggtctccgcgcagc	5	6	17	13	6	1	0	0	0	1	0	2	0	1	0	2	5	2	3	2	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:131857756C>T	uc004bxh.2	-	14	2083	c.1801G>A	c.(1801-1803)GCC>ACC	p.A601T	CRAT_uc004bxg.2_Missense_Mutation_p.A580T|CRAT_uc004bxk.3_Missense_Mutation_p.A580T	NM_000755	NP_000746	P43155	CACP_HUMAN	carnitine acetyltransferase precursor	601					energy derivation by oxidation of organic compounds|fatty acid beta-oxidation using acyl-CoA oxidase|transport	endoplasmic reticulum|mitochondrial inner membrane|peroxisomal matrix	carnitine O-acetyltransferase activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)	L-Carnitine(DB00583)	GCCAGGCGGGCGGCGTTGGTC	0.667													9	31					0	0	1	0	0		T	131857756	T	T	131857756	3	4	151	1	0	0	0	0	1	0	0	0	3850	768	27	1	83	1	CRAT	9	131857756	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	25178	131857756	9355675	2297	79462											
C9orf106	414318	broad.mit.edu	37	chr9	132084350	132084350	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaggccctgattgcctgctTtgcacacagggctgtgagct	6	12	12	11	0	0	2	0	2	0	0	0	2	0	2	2	2	4	4	2	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:132084350T>C	uc004bxs.2	+	2	311	c.258T>C	c.(256-258)CTT>CTC	p.L86L		NM_001012715	NP_001012733	Q8NAJ2	CI106_HUMAN	hypothetical protein LOC414318	86											0		Ovarian(14;0.00556)|Medulloblastoma(224;0.235)				attgcctgctttgcacacagg	0.075													3	5					0	0	1	0	0		C	132084350	C	C	132084350	2	2	151	1	0	0	0	0	0	0	0	1	2450	1828	64	3		3	C9orf106	9	132084350	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	226594	132084350	9129081	2298	79463											
USP20	10868	broad.mit.edu	37	chr9	132620767	132620767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaaagcacaacttgaccGtgaacctgaccacgttccga	15	6	7	13	3	0	3	0	3	0	0	1	4	1	3	4	0	3	2	4	0	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:132620767G>A	uc004bys.2	+	6	431	c.220G>A	c.(220-222)GTG>ATG	p.V74M	USP20_uc004byr.2_Missense_Mutation_p.V74M|USP20_uc004byt.1_Missense_Mutation_p.V74M	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	74	UBP-type.				endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				CAACTTGACCGTGAACCTGAC	0.557													33	112					0	0	1	0	0		A	132620767	A	A	132620767	3	1	151	1	0	0	0	0	1	0	0	0	17078	1145	40	1	234	1	USP20	9	132620767	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	536417	132620767	8592664	2299	79464											
USP20	10868	broad.mit.edu	37	chr9	132630544	132630544	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgatcccagatgaggcGggccgagccatctctgagaa	9	7	13	12	2	1	4	0	3	1	2	3	6	2	4	3	2	2	1	3	2	1	0	rs35868738		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:132630544G>A	uc004bys.2	+	11	1162	c.951G>A	c.(949-951)GCG>GCA	p.A317A	USP20_uc004byr.2_Silent_p.A317A|USP20_uc004byt.1_Silent_p.A317A	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	317					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				CAGATGAGGCGGGCCGAGCCA	0.657													6	18					0	0	1	0	0		A	132630544	A	A	132630544	2	1	151	1	0	0	0	0	0	0	0	1	17078	1103	39	1		1	USP20	9	132630544	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	9777	132630544	8582887	2300	79465											
FNBP1	23048	broad.mit.edu	37	chr9	132687349	132687349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgttatctgacacagtgcGcttcattggctgagtgtaat	8	14	11	8	1	2	2	1	2	1	0	2	2	2	2	0	1	1	5	0	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:132687349G>A	uc004byw.1	-	9	1096	c.877C>T	c.(877-879)CGC>TGC	p.R293C	FNBP1_uc011mbv.1_Missense_Mutation_p.R293C|FNBP1_uc011mbw.1_Missense_Mutation_p.R293C|FNBP1_uc004bza.2_Missense_Mutation_p.R293C|FNBP1_uc004byz.1_Missense_Mutation_p.R293C|FNBP1_uc004byx.1_Missense_Mutation_p.R214C|FNBP1_uc004byy.1_Missense_Mutation_p.R214C	NM_015033	NP_055848	Q96RU3	FNBP1_HUMAN	formin binding protein 1	293	Interaction with microtubules (By similarity).|Required for self-association and induction of membrane tubulation.				endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|lysosome|plasma membrane	identical protein binding|lipid binding				0		Ovarian(14;0.000536)		GBM - Glioblastoma multiforme(294;0.0378)		GACACAGTGCGCTTCATTGGC	0.423			T	MLL	AML								26	91					0	0	1	0	0		A	132687349	A	A	132687349	3	1	151	1	0	0	0	0	1	0	0	0	5979	1087	38	1	1012	1	FNBP1	9	132687349	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	56805	132687349	8526082	2301	79466											
ASS1	445	broad.mit.edu	37	chr9	133342148	133342148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgcctgaattctacaacCggttcaagggccgcaatgac	11	8	11	11	2	2	2	1	2	1	0	2	3	2	3	3	3	3	2	3	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:133342148C>T	uc004bzm.2	+	7	813	c.457C>T	c.(457-459)CGG>TGG	p.R153W	ASS1_uc004bzn.2_Missense_Mutation_p.R153W|ASS1_uc010mza.2_Missense_Mutation_p.R229W|ASS1_uc004bzo.2_Missense_Mutation_p.R134W|ASS1_uc010mzb.2_Missense_Mutation_p.R191W|ASS1_uc004bzp.2_Missense_Mutation_p.R153W|ASS1_uc010mzc.2_Missense_Mutation_p.R153W	NM_000050	NP_000041	P00966	ASSY_HUMAN	argininosuccinate synthetase 1	153					arginine biosynthetic process|urea cycle	cytosol	argininosuccinate synthase activity|ATP binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000514)	Adenosine triphosphate(DB00171)|L-Arginine(DB00125)|L-Aspartic Acid(DB00128)|L-Citrulline(DB00155)	ATTCTACAACCGGTTCAAGGG	0.612													8	71					0	0	1	0	0		T	133342148	T	T	133342148	3	4	151	1	0	0	0	0	1	0	0	0	1062	643	23	1	475	1	ASS1	9	133342148	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	654799	133342148	7871283	2302	79467											
FUBP3	8939	broad.mit.edu	37	chr9	133491810	133491810	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctggctttcataatgacaTagacagcaacagcacaatcc	15	8	6	12	0	1	2	1	1	0	1	2	2	2	2	2	1	3	3	2	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:133491810T>C	uc004bzr.1	+	7	581	c.473T>C	c.(472-474)ATA>ACA	p.I158T	FUBP3_uc010mzd.1_Missense_Mutation_p.I98T|FUBP3_uc004bzs.1_Missense_Mutation_p.I71T	NM_003934	NP_003925	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	158					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		CATAATGACATAGACAGCAAC	0.502													17	67					0	0	1	0	0		C	133491810	C	C	133491810	3	2	151	1	0	0	0	0	1	0	0	0	6107	1406	49	3	499	3	FUBP3	9	133491810	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	149662	133491810	7721621	2303	79468											
NUP214	8021	broad.mit.edu	37	chr9	134072751	134072751	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccaggagaacctgccgcAtctagcagcagacctgtggc	10	5	11	15	1	1	2	0	0	1	2	1	3	1	2	5	2	4	3	5	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:134072751A>T	uc004cag.2	+	29	3981	c.3870A>T	c.(3868-3870)GCA>GCT	p.A1290A	NUP214_uc004cah.2_Silent_p.A1280A|NUP214_uc004cai.2_Silent_p.A720A|NUP214_uc010mzg.2_RNA|NUP214_uc011mcg.1_Silent_p.A116A|NUP214_uc011mcf.1_Silent_p.A67A|NUP214_uc010mzh.1_5'UTR|NUP214_uc010mzi.1_5'UTR	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	1290	Pro/Ser/Thr-rich.|11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		AACCTGCCGCATCTAGCAGCA	0.547			T	DEK|SET|ABL1	AML|T-ALL								5	191					0	0	1	0	0		T	134072751	T	T	134072751	2	4	151	1	0	0	0	0	0	0	0	1	10781	204	8	5		5	NUP214	9	134072751	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	580941	134072751	7140680	2304	79469											
NUP214	8021	broad.mit.edu	37	chr9	134073745	134073745	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatagcctccagcaccacgTccattgttgctcccggccca	7	8	7	19	2	0	0	0	0	0	0	3	0	3	0	7	1	3	3	7	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:134073745T>C	uc004cag.2	+	29	4975	c.4864T>C	c.(4864-4866)TCC>CCC	p.S1622P	NUP214_uc004cah.2_Missense_Mutation_p.S1612P|NUP214_uc004cai.2_Missense_Mutation_p.S1052P|NUP214_uc010mzg.2_RNA|NUP214_uc011mcg.1_Missense_Mutation_p.S448P|NUP214_uc011mcf.1_Missense_Mutation_p.S399P|NUP214_uc010mzh.1_Missense_Mutation_p.S136P|NUP214_uc010mzi.1_Missense_Mutation_p.S136P	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	1622	Pro/Ser/Thr-rich.|11 X 3 AA approximate repeats.|11 X 5 AA approximate repeats.|18 X 4 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		CAGCACCACGTCCATTGTTGC	0.582			T	DEK|SET|ABL1	AML|T-ALL								41	113					0	0	1	0	0		C	134073745	C	C	134073745	3	2	151	1	0	0	0	0	1	0	0	0	10781	1667	58	3	4978	3	NUP214	9	134073745	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	994	134073745	7139686	2305	79470											
POMT1	10585	broad.mit.edu	37	chr9	134379614	134379614	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttctacaagatgtggggAtttttgaagcgccctgtagt	8	15	11	7	1	1	2	0	1	1	1	1	3	1	3	1	2	2	1	1	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:134379614A>T	uc004cav.2	+	2	211	c.9A>T	c.(7-9)GGA>GGT	p.G3G	POMT1_uc011mci.1_Silent_p.G3G|POMT1_uc004cax.2_Silent_p.G3G|POMT1_uc011mcj.1_Intron|POMT1_uc004cau.2_Silent_p.G3G|POMT1_uc004caw.2_Intron|POMT1_uc011mck.1_Intron|POMT1_uc011mcl.1_Intron|POMT1_uc011mcm.1_Silent_p.G3G	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	3					multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		AGATGTGGGGATTTTTGAAGC	0.582											OREG0019563	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	151					0	0	1	0	0		T	134379614	T	T	134379614	2	4	151	1	0	0	0	0	0	0	0	1	12264	320	12	5		5	POMT1	9	134379614	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	305869	134379614	6833817	2306	79471											
UCK1	83549	broad.mit.edu	37	chr9	134405877	134405877	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctcgcgatttacctggAtggtcaaaattgtactgtcc	8	13	11	9	2	1	0	1	0	0	0	3	2	2	1	2	3	2	2	2	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:134405877A>T	uc004cay.2	-	2	365	c.264T>A	c.(262-264)CAT>CAA	p.H88Q	UCK1_uc010mzk.2_Missense_Mutation_p.H79Q|UCK1_uc004cba.2_Missense_Mutation_p.H88Q|UCK1_uc004caz.2_RNA	NM_031432	NP_113620	Q9HA47	UCK1_HUMAN	uridine-cytidine kinase 1 isoform a	88					pyrimidine base metabolic process|pyrimidine nucleoside salvage	cytosol	ATP binding|phosphotransferase activity, alcohol group as acceptor|uridine kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;2.34e-05)|Epithelial(140;0.000219)		ATTTACCTGGATGGTCAAAAT	0.592													26	114					0	0	1	0	0		T	134405877	T	T	134405877	3	4	151	1	0	0	0	0	1	0	0	0	16949	330	12	5	593	5	UCK1	9	134405877	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	26263	134405877	6807554	2307	79472											
NTNG2	84628	broad.mit.edu	37	chr9	135042324	135042324	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagggccccacctgggagTtctacgcctgccagcccaag	8	6	12	15	1	1	1	0	1	1	0	1	2	1	2	6	2	3	1	6	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:135042324T>C	uc004cbh.2	+	2	882	c.106T>C	c.(106-108)TTC>CTC	p.F36L		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	36	Laminin N-terminal.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		CACCTGGGAGTTCTACGCCTG	0.607													14	64					0	0	1	0	0		C	135042324	C	C	135042324	3	2	151	1	0	0	0	0	1	0	0	0	10724	1725	60	3	108	3	NTNG2	9	135042324	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	636447	135042324	6171107	2308	79473											
SETX	23064	broad.mit.edu	37	chr9	135152521	135152521	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggccaatctgatgaacaTcgaatggcttctgtctgtct	10	13	9	9	1	4	2	0	2	4	0	5	3	4	2	1	2	1	1	1	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:135152521T>C	uc004cbk.2	-	22	7044	c.6861A>G	c.(6859-6861)CGA>CGG	p.R2287R	SETX_uc004cbj.2_Silent_p.R1906R|SETX_uc010mzt.2_Silent_p.R1906R	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	2287					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		CTGATGAACATCGAATGGCTT	0.358													13	70					0	0	1	0	0		C	135152521	C	C	135152521	2	2	151	1	0	0	0	0	0	0	0	1	14166	1422	50	3		3	SETX	9	135152521	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	110197	135152521	6060910	2309	79474											
C9orf98	158067	broad.mit.edu	37	chr9	135742312	135742312	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgttgttttccctgaggcGggtggacctaatattacaat	9	15	10	7	1	0	1	0	1	0	0	1	2	1	2	2	3	1	2	2	3	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:135742312G>A	uc004cbu.1	-	3	754	c.198C>T	c.(196-198)CCC>CCT	p.P66P	C9orf98_uc010mzx.1_RNA|C9orf98_uc004cbv.1_5'UTR	NM_152572	NP_689785	Q96MA6	KAD8_HUMAN	putative adenylate kinase-like protein C9orf98	66						cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;4.89e-06)|Epithelial(140;0.00016)		TCCCTGAGGCGGGTGGACCTA	0.458													32	85					0	0	1	0	0		A	135742312	A	A	135742312	2	1	151	1	0	0	0	0	0	0	0	1	2512	1103	39	1		1	C9orf98	9	135742312	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	589791	135742312	5471119	2310	79475											
CEL	1056	broad.mit.edu	37	chr9	135939927	135939927	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaaaatcctcagccacAtcctggctggcaaggtggga	10	7	12	12	0	1	0	1	0	0	0	3	2	3	2	4	5	1	2	4	5	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:135939927A>G	uc010naa.1	+	2	228	c.212A>G	c.(211-213)CAT>CGT	p.H71R		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	68	Heparin-binding.				cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		CCTCAGCCACATCCTGGCTGG	0.652													9	42					0	0	1	0	0		G	135939927	G	G	135939927	3	3	151	1	0	0	0	0	1	0	0	0	3212	217	8	3	218	3	CEL	9	135939927	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	197615	135939927	5273504	2311	79476											
CEL	1056	broad.mit.edu	37	chr9	135945877	135945877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gacctacgcctacctgttttCccatccctctcggatgcccg	5	11	7	18	3	1	0	0	0	1	0	4	2	3	1	6	1	3	1	6	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:135945877C>T	uc010naa.1	+	10	1341	c.1325C>T	c.(1324-1326)TCC>TTC	p.S442F		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	439					cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		TACCTGTTTTCCCATCCCTCT	0.622													15	71					0	0	1	0	0		T	135945877	T	T	135945877	3	4	151	1	0	0	0	0	1	0	0	0	3212	855	30	4	1363	4	CEL	9	135945877	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5950	135945877	5267554	2312	79477											
RALGDS	5900	broad.mit.edu	37	chr9	135985812	135985812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaccagcttctccagcGtgccagccttcacggtccgc	5	8	9	19	3	2	0	1	0	1	0	5	0	4	0	6	1	4	2	6	1	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:135985812G>A	uc004cco.2	-	3	379	c.359C>T	c.(358-360)ACG>ATG	p.T120M	RALGDS_uc004ccp.2_RNA|RALGDS_uc004ccq.2_Missense_Mutation_p.T120M|RALGDS_uc004ccr.2_Missense_Mutation_p.T119M|RALGDS_uc011mcv.1_Missense_Mutation_p.T103M|RALGDS_uc004ccs.2_Missense_Mutation_p.T65M|RALGDS_uc011mcw.1_Missense_Mutation_p.T191M|RALGDS_uc004ccv.1_5'Flank|RALGDS_uc004ccu.1_5'Flank	NM_006266	NP_006257	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	120	N-terminal Ras-GEF.				nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		CTTCTCCAGCGTGCCAGCCTT	0.587			T	CIITA	PMBL|Hodgkin Lymphona|								10	42					0	0	1	0	0		A	135985812	A	A	135985812	3	1	151	1	0	0	0	0	1	0	0	0	13041	1145	40	1	2449	1	RALGDS	9	135985812	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	39935	135985812	5227619	2313	79478											
REXO4	57109	broad.mit.edu	37	chr9	136279819	136279819	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggctgcctccttagcttTccgcttcttatgctcgatgt	3	16	10	12	2	1	0	0	0	1	0	4	1	3	0	3	2	3	4	3	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:136279819T>C	uc004cdm.2	-	2	738	c.538A>G	c.(538-540)AAA>GAA	p.K180E	ADAMTS13_uc004cdp.3_Intron|REXO4_uc011mde.1_Missense_Mutation_p.K43E|REXO4_uc011mdf.1_Missense_Mutation_p.K43E|REXO4_uc004cdn.2_Intron|REXO4_uc004cdo.2_Silent_p.G120G	NM_020385	NP_065118	Q9GZR2	REXO4_HUMAN	XPMC2 prevents mitotic catastrophe 2 homolog	180						nucleolus	exonuclease activity|nucleic acid binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.58e-08)|Epithelial(140;9.55e-07)|all cancers(34;1.05e-05)		TCCTTAGCTTTCCGCTTCTTA	0.537													33	122					0	0	1	0	0		C	136279819	C	C	136279819	3	2	151	1	0	0	0	0	1	0	0	0	13268	1792	62	3	758	3	REXO4	9	136279819	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	294007	136279819	4933612	2314	79479											
ADAMTS13	11093	broad.mit.edu	37	chr9	136304555	136304555	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgccaaccacaggcctctcTtcacacacttgggtgagttg	8	11	9	13	0	2	1	1	1	1	0	3	1	2	1	3	2	2	1	3	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:136304555T>C	uc004cdv.3	+	15	2218	c.1774T>C	c.(1774-1776)TTC>CTC	p.F592L	ADAMTS13_uc004cdp.3_5'UTR|ADAMTS13_uc004cdt.1_Missense_Mutation_p.F592L|ADAMTS13_uc004cdu.1_Missense_Mutation_p.F561L|ADAMTS13_uc004cdw.3_Missense_Mutation_p.F592L|ADAMTS13_uc004cdx.3_Missense_Mutation_p.F561L|ADAMTS13_uc004cdy.1_RNA|ADAMTS13_uc004cdz.3_Missense_Mutation_p.F262L|ADAMTS13_uc004cds.1_Missense_Mutation_p.F117L|ADAMTS13_uc004cdr.1_RNA	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	592	Spacer.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		CAGGCCTCTCTTCACACACTT	0.343													35	142					0	0	1	0	0		C	136304555	C	C	136304555	3	2	151	1	0	0	0	0	1	0	0	0	258	1609	56	3	1832	3	ADAMTS13	9	136304555	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	24736	136304555	4908876	2315	79480											
TMEM8C	389827	broad.mit.edu	37	chr9	136384051	136384051	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggcccgagtacaccccgTagccccatcggtcatggtag	7	7	13	14	3	1	0	1	0	0	0	2	1	1	0	5	4	2	3	5	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:136384051T>C	uc011mdk.1	-	3	344	c.344A>G	c.(343-345)TAC>TGC	p.Y115C		NM_001080483	NP_001073952	A6NI61	TMM8C_HUMAN	transmembrane protein 8C	115	Helical; (Potential).					integral to membrane					0						GTACACCCCGTAGCCCCATCG	0.622													16	91					0	0	1	0	0		C	136384051	C	C	136384051	3	2	151	1	0	0	0	0	1	0	0	0	16241	1638	57	3	333	3	TMEM8C	9	136384051	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	79496	136384051	4829380	2316	79481											
VAV2	7410	broad.mit.edu	37	chr9	136641200	136641200	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcggccggctgatgggCggctggtggcagagcacaag	7	5	20	9	3	0	2	0	1	0	1	0	3	0	2	1	7	1	4	1	7	1	0	rs150295787		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:136641200C>T	uc004ces.2	-	24	2014	c.1968G>A	c.(1966-1968)CCG>CCA	p.P656P	VAV2_uc004cer.2_Silent_p.P646P|VAV2_uc004cet.1_Silent_p.P195P	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	656					angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		GGCTGATGGGCGGCTGGTGGC	0.617													13	41					0	0	1	0	0		T	136641200	T	T	136641200	2	4	151	1	0	0	0	0	0	0	0	1	17158	755	27	1		1	VAV2	9	136641200	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	257149	136641200	4572231	2317	79482											
VAV2	7410	broad.mit.edu	37	chr9	136674187	136674187	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatgtcctccagggtgcggTagtacttggcctcggtctcc	5	11	12	13	2	1	0	0	0	1	0	5	0	3	0	4	4	2	2	4	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:136674187T>C	uc004ces.2	-	7	687	c.641A>G	c.(640-642)TAC>TGC	p.Y214C	VAV2_uc004cer.2_Missense_Mutation_p.Y209C	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	214	DH.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		CAGGGTGCGGTAGTACTTGGC	0.587													13	74					0	0	1	0	0		C	136674187	C	C	136674187	3	2	151	1	0	0	0	0	1	0	0	0	17158	1638	57	3	2091	3	VAV2	9	136674187	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	32987	136674187	4539244	2318	79483											
BRD3	8019	broad.mit.edu	37	chr9	136917441	136917441	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttaccttgttataaatgTaacaatttgtaaacatggtg	13	17	6	5	0	1	0	0	0	1	0	1	0	1	0	1	1	3	3	1	1	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:136917441T>C	uc004cew.2	-	3	526	c.338A>G	c.(337-339)TAC>TGC	p.Y113C	BRD3_uc004cex.2_Missense_Mutation_p.Y113C	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	113	Bromo 1.					nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		GTTATAAATGTAACAATTTGT	0.468			T	NUT|C15orf55	lethal midline carcinoma of young people								17	68					0	0	1	0	0		C	136917441	C	C	136917441	3	2	151	1	0	0	0	0	1	0	0	0	1506	1638	57	3	1882	3	BRD3	9	136917441	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	243254	136917441	4295990	2319	79484											
KIAA0649	9858	broad.mit.edu	37	chr9	138376588	138376588	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccacagggcagagggaTgccacgacgccaggccggct	8	2	18	13	3	0	1	0	0	0	1	0	3	0	2	4	6	1	2	4	6	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:138376588T>C	uc004cfr.1	+	4	781	c.232T>C	c.(232-234)TGC>CGC	p.C78R		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	78						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		GGCAGAGGGATGCCACGACGC	0.687													7	38					0	0	1	0	0		C	138376588	C	C	138376588	3	2	151	1	0	0	0	0	1	0	0	0	8203	1464	51	3	234	3	KIAA0649	9	138376588	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1459147	138376588	2836843	2320	79485											
LHX3	8022	broad.mit.edu	37	chr9	139092558	139092558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagccttgaggatgaagcGgtccaggatgtgctggtcac	9	8	15	9	1	1	3	1	2	0	1	2	5	2	5	2	4	3	1	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:139092558G>A	uc004cha.2	-	2	218	c.121C>T	c.(121-123)CGC>TGC	p.R41C	LHX3_uc004cgz.2_Missense_Mutation_p.R46C	NM_178138	NP_835258	Q9UBR4	LHX3_HUMAN	LIM homeobox protein 3 isoform a	41	LIM zinc-binding 1.				inner ear development|organ morphogenesis|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;8.43e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.26e-07)		AGGATGAAGCGGTCCAGGATG	0.627													9	40					0	0	1	0	0		A	139092558	A	A	139092558	3	1	151	1	0	0	0	0	1	0	0	0	8788	1116	39	1	1092	1	LHX3	9	139092558	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	715970	139092558	2120873	2321	79486											
PMPCA	23203	broad.mit.edu	37	chr9	139313291	139313291	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcccaggcaccactggaTgtataacgcgacctcctacc	9	8	7	17	2	0	0	0	0	0	0	3	2	3	1	6	2	2	2	6	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:139313291T>C	uc004chl.2	+	10	1126	c.1121T>C	c.(1120-1122)ATG>ACG	p.M374T	PMPCA_uc010nbl.2_Missense_Mutation_p.M274T|PMPCA_uc011mdz.1_Missense_Mutation_p.M243T|PMPCA_uc004chm.1_Missense_Mutation_p.M124T|PMPCA_uc004chn.1_5'Flank	NM_015160	NP_055975	Q10713	MPPA_HUMAN	peptidase (mitochondrial processing) alpha	374					proteolysis	mitochondrial inner membrane|mitochondrial matrix	metalloendopeptidase activity|zinc ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;9.3e-06)|Epithelial(140;1.15e-05)		CACCACTGGATGTATAACGCG	0.612													14	34					0	0	1	0	0		C	139313291	C	C	139313291	3	2	151	1	0	0	0	0	1	0	0	0	12159	1464	51	3	1159	3	PMPCA	9	139313291	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	220733	139313291	1900140	2322	79487											
SEC16A	9919	broad.mit.edu	37	chr9	139370019	139370019	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcatgtgcacagcttcCgtggtggagttaagaggcag	10	8	16	7	1	0	1	0	0	0	1	1	3	1	3	1	4	3	5	1	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:139370019C>T	uc004chx.2	-	3	2358	c.2049G>A	c.(2047-2049)ACG>ACA	p.T683T	SEC16A_uc004chv.3_Silent_p.T310T|SEC16A_uc004chw.2_Silent_p.T683T|SEC16A_uc010nbn.2_Silent_p.T683T|SEC16A_uc010nbo.1_Silent_p.T683T	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	505					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GCACAGCTTCCGTGGTGGAGT	0.637													11	22					0	0	1	0	0		T	139370019	T	T	139370019	2	4	151	1	0	0	0	0	0	0	0	1	14011	639	23	1		1	SEC16A	9	139370019	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	56728	139370019	1843412	2323	79488											
SEC16A	9919	broad.mit.edu	37	chr9	139370931	139370931	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctcattttctgtctcTcccccttggaaaaacatcgc	7	15	4	15	1	4	0	1	0	3	0	8	1	5	1	3	1	1	0	3	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:139370931T>C	uc004chx.2	-	3	1446	c.1137A>G	c.(1135-1137)GGA>GGG	p.G379G	SEC16A_uc004chv.3_Silent_p.G6G|SEC16A_uc004chw.2_Silent_p.G379G|SEC16A_uc010nbn.2_Silent_p.G379G|SEC16A_uc010nbo.1_Silent_p.G379G	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	201					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		TTTCTGTCTCTCCCCCTTGGA	0.582													5	30					0	0	1	0	0		C	139370931	C	C	139370931	2	2	151	1	0	0	0	0	0	0	0	1	14011	1538	54	3		3	SEC16A	9	139370931	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	912	139370931	1842500	2324	79489											
MAMDC4	158056	broad.mit.edu	37	chr9	139752922	139752922	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccggcctgggcggatacagCtgggactggggcgggggagc	5	4	21	11	3	0	0	0	0	0	0	0	3	0	3	2	8	3	1	2	8	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:139752922C>A	uc004cjs.2	+	22	2795	c.2745C>A	c.(2743-2745)AGC>AGA	p.S915R	MAMDC4_uc011mej.1_Missense_Mutation_p.S252R	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	994	Extracellular (Potential).|MAM 6.				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		GCGGATACAGCTGGGACTGGG	0.677													5	15					5.18039e-06	5.25881e-06	1	1	0		A	139752922	A	A	139752922	3	1	151	1	0	0	0	0	1	0	0	0	9222	796	28	5	2831	5	MAMDC4	9	139752922	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	381991	139752922	1460509	2325	79490											
MAMDC4	158056	broad.mit.edu	37	chr9	139752975	139752975	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacccccagccccctgtggAccacaccctgggcacagagg	8	5	10	18	0	0	1	0	0	0	1	0	2	0	2	6	3	2	1	6	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:139752975A>G	uc004cjs.2	+	22	2848	c.2798A>G	c.(2797-2799)GAC>GGC	p.D933G	MAMDC4_uc011mej.1_Missense_Mutation_p.D270G	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	1012	Extracellular (Potential).|MAM 6.				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		CCCCCTGTGGACCACACCCTG	0.701													5	17					0	0	1	0	0		G	139752975	G	G	139752975	3	3	151	1	0	0	0	0	1	0	0	0	9222	275	10	3	2884	3	MAMDC4	9	139752975	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	53	139752975	1460456	2326	79491											
TRAF2	7186	broad.mit.edu	37	chr9	139814796	139814796	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgggagaccagagccaCgcggggtcagagctcctgca	8	6	14	13	2	2	3	1	0	1	3	3	4	3	3	3	3	3	2	3	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:139814796C>T	uc010nbu.2	+	9	962	c.789C>T	c.(787-789)CAC>CAT	p.H263H	TRAF2_uc004cjv.2_Silent_p.H263H|TRAF2_uc011mek.1_Silent_p.H252H|TRAF2_uc010nbw.2_Silent_p.H238H	NM_021138	NP_066961	Q12933	TRAF2_HUMAN	TNF receptor-associated factor 2	263				Missing (in Ref. 2; BAB70792).	activation of caspase activity|activation of NF-kappaB-inducing kinase activity|activation of pro-apoptotic gene products|cellular protein complex assembly|induction of apoptosis by extracellular signals|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|protein autoubiquitination|protein homotrimerization|protein K63-linked ubiquitination|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane	CD40 receptor binding|enzyme binding|protein binding|signal transducer activity|sphingolipid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.229)	OV - Ovarian serous cystadenocarcinoma(145;4.48e-06)|Epithelial(140;9.55e-06)		ACCAGAGCCACGCGGGGTCAG	0.622													11	51					0	0	1	0	0		T	139814796	T	T	139814796	2	4	151	1	0	0	0	0	0	0	0	1	16464	535	19	1		1	TRAF2	9	139814796	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	61821	139814796	1398635	2327	79492											
ABCA2	20	broad.mit.edu	37	chr9	139911421	139911421	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgccatagaccacggcGtccaccatcagcatggtgac	11	6	11	13	2	1	2	1	1	0	1	2	3	2	3	4	3	2	1	4	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:139911421G>A	uc011mem.1	-	18	2854	c.2706C>T	c.(2704-2706)GAC>GAT	p.D902D	ABCA2_uc011mel.1_Silent_p.D903D|ABCA2_uc004ckl.1_Silent_p.D833D|ABCA2_uc004ckm.1_Silent_p.D933D|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	902	Helical; (Potential).				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		AGACCACGGCGTCCACCATCA	0.652													14	59					0	0	1	0	0		A	139911421	A	A	139911421	2	1	151	1	0	0	0	0	0	0	0	1	32	1136	40	1		1	ABCA2	9	139911421	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	96625	139911421	1302010	2328	79493											
ABCA2	20	broad.mit.edu	37	chr9	139912270	139912270	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgctccttctccgccacgAtgtgctggatggtcatggcc	4	11	13	13	2	2	0	1	0	1	0	4	2	3	1	4	4	2	2	4	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:139912270A>G	uc011mem.1	-	15	2325	c.2177T>C	c.(2176-2178)ATC>ACC	p.I726T	ABCA2_uc011mel.1_Missense_Mutation_p.I727T|ABCA2_uc004ckl.1_Missense_Mutation_p.I657T|ABCA2_uc004ckm.1_Missense_Mutation_p.I757T|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	726					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CTCCGCCACGATGTGCTGGAT	0.687													4	23					0	0	1	0	0		G	139912270	G	G	139912270	3	3	151	1	0	0	0	0	1	0	0	0	32	333	12	3	5266	3	ABCA2	9	139912270	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	849	139912270	1301161	2329	79494											
UAP1L1	91373	broad.mit.edu	37	chr9	139972986	139972986	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcgagttcactctggggcCcacggccgagttcttcaggg	6	8	14	13	3	4	0	2	0	2	0	4	2	4	0	2	4	1	2	2	4	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:139972986C>A	uc010ncb.2	+	3	559	c.527C>A	c.(526-528)CCC>CAC	p.P176H	UAP1L1_uc004cla.3_Missense_Mutation_p.P53H	NM_207309	NP_997192	Q3KQV9	UAP1L_HUMAN	UDP-N-acteylglucosamine pyrophosphorylase 1-like	176							nucleotidyltransferase activity			ovary(1)	1	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0821)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;2.96e-05)|Epithelial(140;0.000486)		ACTCTGGGGCCCACGGCCGAG	0.652													17	51					2.23348e-06	2.27111e-06	1	1	0		A	139972986	A	A	139972986	3	1	151	1	0	0	0	0	1	0	0	0	16852	623	22	5	537	5	UAP1L1	9	139972986	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	60716	139972986	1240445	2330	79495											
NDOR1	27158	broad.mit.edu	37	chr9	140110800	140110800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggagggtggactctgcagcCcggacgcagccgcgtatcta	8	6	15	12	4	2	0	0	0	2	0	2	3	2	3	2	4	3	3	2	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:140110800C>T	uc004clw.2	+	14	1837	c.1726C>T	c.(1726-1728)CCG>TCG	p.P576S	NDOR1_uc004clx.2_Missense_Mutation_p.P585S|NDOR1_uc011mes.1_Missense_Mutation_p.P569S|NDOR1_uc004cly.2_3'UTR	NM_014434	NP_055249	Q9UHB4	NDOR1_HUMAN	NADPH dependent diflavin oxidoreductase 1	576					cell death	cytosol|intermediate filament cytoskeleton|nucleus|perinuclear region of cytoplasm	flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding|oxidoreductase activity|protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		ACTCTGCAGCCCGGACGCAGC	0.672													7	30					0	0	1	0	0		T	140110800	T	T	140110800	3	4	151	1	0	0	0	0	1	0	0	0	10268	623	22	4	1807	4	NDOR1	9	140110800	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	137814	140110800	1102631	2331	79496											
TUBB2C	10383	broad.mit.edu	37	chr9	140136267	140136267	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaacgcatcaacgtgtactAcaatgaggccaccggtgagg	12	6	13	10	3	1	2	1	2	0	0	1	3	1	3	2	4	4	2	2	4	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:140136267A>G	uc004cmh.1	+	2	254	c.152A>G	c.(151-153)TAC>TGC	p.Y51C	TUBB2C_uc004cmg.1_5'UTR	NM_006088	NP_006079	P68371	TBB2C_HUMAN	tubulin, beta, 2	51					'de novo' posttranslational protein folding|cellular component movement|G2/M transition of mitotic cell cycle|microtubule-based movement|natural killer cell mediated cytotoxicity|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|MHC class I protein binding|structural molecule activity|unfolded protein binding			ovary(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		AACGTGTACTACAATGAGGCC	0.692													7	18					0	0	1	0	0		G	140136267	G	G	140136267	3	3	151	1	0	0	0	0	1	0	0	0	16782	391	14	3	158	3	TUBB2C	9	140136267	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	25467	140136267	1077164	2332	79497											
NOXA1	10811	broad.mit.edu	37	chr9	140328738	140328738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcttccccaagtgcttcGtggtccccgccggccctcgg	3	9	11	18	4	1	0	0	0	1	0	5	0	3	0	6	3	1	2	6	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:140328738G>A	uc004cmv.2	+	14	1492	c.1357G>A	c.(1357-1359)GTG>ATG	p.V453M	C9orf167_uc011mew.1_Intron|NOXA1_uc004cmu.2_Missense_Mutation_p.V460M|NOXA1_uc010nch.2_Missense_Mutation_p.V404M	NM_006647	NP_006638	Q86UR1	NOXA1_HUMAN	NADPH oxidase activator 1	453	SH3.		Missing (in NOXA1truncated, a cDNA isolated from Caco-2 cells treated with butyrate).		regulation of hydrogen peroxide metabolic process|regulation of respiratory burst|superoxide metabolic process	cytoplasm|NADPH oxidase complex	Rac GTPase binding|superoxide-generating NADPH oxidase activator activity				0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000238)|Epithelial(140;0.000982)		CAAGTGCTTCGTGGTCCCCGC	0.647													19	72					0	0	1	0	0		A	140328738	A	A	140328738	3	1	151	1	0	0	0	0	1	0	0	0	10579	1145	40	1	1432	1	NOXA1	9	140328738	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	192471	140328738	884693	2333	79498											
ENTPD8	377841	broad.mit.edu	37	chr9	140329696	140329696	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggccaggtctcctcgctgAacccgtagccctcgtgcagg	5	8	13	15	3	1	1	0	1	1	0	4	1	1	1	4	3	3	3	4	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:140329696A>C	uc004cmw.2	-	9	1440	c.1256T>G	c.(1255-1257)TTC>TGC	p.F419C	C9orf167_uc011mew.1_Intron|ENTPD8_uc004cmx.2_Missense_Mutation_p.F382C	NM_001033113	NP_001028285	Q5MY95	ENTP8_HUMAN	ectonucleoside triphosphate diphosphohydrolase 8	419	Extracellular (Potential).					integral to membrane|plasma membrane	ATP binding			skin(1)	1	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000224)|Epithelial(140;0.000898)		CTCCTCGCTGAACCCGTAGCC	0.697													5	24					0	0	1	0	0		C	140329696	C	C	140329696	3	2	151	1	0	0	0	0	1	0	0	0	5153	246	9	5	239	5	ENTPD8	9	140329696	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	958	140329696	883735	2334	79499											
ARRDC1	92714	broad.mit.edu	37	chr9	140508787	140508787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagcgctggatccacgacGtacggaccattgcggaggtg	9	6	14	12	5	0	0	0	0	0	0	1	4	1	3	3	4	3	2	3	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:140508787G>A	uc004cns.2	+	6	729	c.655G>A	c.(655-657)GTA>ATA	p.V219I	ARRDC1_uc004cnt.2_Missense_Mutation_p.V94I|ARRDC1_uc004cnu.2_RNA|ARRDC1_uc004cnv.2_Missense_Mutation_p.V199I|ARRDC1_uc004cnw.2_Missense_Mutation_p.V94I|ARRDC1_uc004cnp.1_Missense_Mutation_p.V219I|ARRDC1_uc004cnq.1_Missense_Mutation_p.V201I|ARRDC1_uc011mfb.1_Missense_Mutation_p.V94I|ARRDC1_uc004cnx.1_Missense_Mutation_p.V94I|ARRDC1_uc004cny.2_RNA	NM_152285	NP_689498	Q8N5I2	ARRD1_HUMAN	arrestin domain containing 1	219											0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000273)|Epithelial(140;0.000464)		GATCCACGACGTACGGACCAT	0.687													18	84					0	0	1	0	0		A	140508787	A	A	140508787	3	1	151	1	0	0	0	0	1	0	0	0	983	1145	40	1	677	1	ARRDC1	9	140508787	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	179091	140508787	704644	2335	79500											
EHMT1	79813	broad.mit.edu	37	chr9	140685319	140685319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcgggcgctaatattgacaCctgctcagaagaccagagga	12	6	13	10	2	1	4	1	1	0	3	1	5	1	5	2	3	1	2	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:140685319C>T	uc011mfc.1	+	16	2439	c.2402C>T	c.(2401-2403)ACC>ATC	p.T801I	EHMT1_uc004cob.1_Missense_Mutation_p.T770I	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	801	ANK 2.				DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		AATATTGACACCTGCTCAGAA	0.557													40	126					0	0	1	0	0		T	140685319	T	T	140685319	3	4	151	1	0	0	0	0	1	0	0	0	4989	507	18	4	2513	4	EHMT1	9	140685319	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	176532	140685319	528112	2336	79501											
CACNA1B	774	broad.mit.edu	37	chr9	140968057	140968057	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctttgtccagtccttcaagGtgggccaggcggggggcctc	4	9	15	13	1	1	0	1	0	0	0	4	0	3	0	5	6	0	0	5	6	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr9:140968057G>A	uc004cog.2	+	32	4936	c.4791_splice	c.e32+1	p.K1597_splice	CACNA1B_uc004coi.2_Splice_Site_p.K809_splice|CACNA1B_uc004cok.1_5'Flank|CACNA1B_uc010ncp.1_5'Flank	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,						membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	GTCCTTCAAGGTGGGCCAGGC	0.652													15	61					0	0	1	0	0		A	140968057	A	A	140968057	5	1	151	1	0	0	0	0	0	0	1	0	2542	1275	44	4	4918	4	CACNA1B	9	140968057	Splice_Site	SNP	G	TCGA-CG-5721-01A-11D-1600-08	282738	140968057	245374	2337	79502											
DIP2C	22982	broad.mit.edu	37	chr10	395363	395363	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagctctcttgtgcagcTgcacgcaggtcagcgagttc	6	11	11	13	2	3	0	2	0	2	0	6	1	3	0	0	1	5	6	0	1	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:395363T>A	uc001ifp.2	-	25	3107	c.3017A>T	c.(3016-3018)CAG>CTG	p.Q1006L	DIP2C_uc009xhi.1_Missense_Mutation_p.Q392L	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	1006						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CTTGTGCAGCTGCACGCAGGT	0.602													11	51					0	0	1	0	0		A	395363	A	A	395363	3	1	151	1	0	0	0	0	1	0	0	0	4535	1580	55	5	1705	5	DIP2C	10	395363	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08		395363	135139384	2338	79503											
LARP4B	23185	broad.mit.edu	37	chr10	890939	890939	+	Frame_Shift_Del	DEL	T	-	-																															agataagcagaattccaatgTttttttaagtacttctcggg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:890939delT	uc001ifs.1	-	5	528	c.487delA	c.(487-489)ACAfs	p.T163fs		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	163	HTH La-type RNA-binding.						nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						AATTCCAATGTTTTTTTAAGT	0.353													59	78	---	---	---	---						.	-	890939	-	-	890939	7	5	151	1	0	1	0	1	0	0	0	0	8647	1725	60	0	1781	0	LARP4B	10	890939	Frame_Shift_Del	DEL	T	TCGA-CG-5721-01A-11D-1600-08	495576	890939	134643808	2339	79504											
PITRM1	10531	broad.mit.edu	37	chr10	3199640	3199640	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttactgatgtcagcatcAgcccaaagctggtagactga	12	9	9	11	0	2	3	2	2	0	1	2	3	2	3	1	1	4	3	1	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:3199640A>G	uc010qah.1	-	11	1270	c.1238T>C	c.(1237-1239)CTG>CCG	p.L413P	PITRM1_uc001igr.1_Missense_Mutation_p.L445P|PITRM1_uc001igt.1_Missense_Mutation_p.L445P|PITRM1_uc009xhv.1_Missense_Mutation_p.L10P|PITRM1_uc001igu.1_Missense_Mutation_p.L437P|PITRM1_uc010qai.1_Missense_Mutation_p.L416P|PITRM1_uc001igw.1_Missense_Mutation_p.L445P			E7ES23	E7ES23_HUMAN	SubName: Full=cDNA FLJ54065, moderately similar to Mus musculus pitrilysin metallepetidase 1 (Pitrm1), mRNA;	413					proteolysis		metalloendopeptidase activity|zinc ion binding			pancreas(1)	1						TGTCAGCATCAGCCCAAAGCT	0.308													9	36					0	0	1	0	0		G	3199640	G	G	3199640	3	3	151	1	0	0	0	0	1	0	0	0	11972	188	7	3	1843	3	PITRM1	10	3199640	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2308701	3199640	132335107	2340	79505											
KLF6	1316	broad.mit.edu	37	chr10	3821740	3821740	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctctgctccctcagaggtgCctcttcatgtgcagggccag	5	11	11	14	0	4	1	2	0	2	1	6	1	5	1	3	2	3	2	3	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:3821740C>T	uc001iha.2	-	4	1110	c.843G>A	c.(841-843)AGG>AGA	p.R281R	KLF6_uc010qaj.1_3'UTR|KLF6_uc010qak.1_RNA|KLF6_uc010qal.1_Silent_p.R239R	NM_001300	NP_001291	Q99612	KLF6_HUMAN	Kruppel-like factor 6 isoform A	281	C2H2-type 3.				B cell differentiation	nucleus	zinc ion binding			central_nervous_system(3)|lung(1)	4				Colorectal(1;0.238)		CTCAGAGGTGCCTCTTCATGT	0.562													11	53					0	0	1	0	0		T	3821740	T	T	3821740	2	4	151	1	0	0	0	0	0	0	0	1	8366	738	26	2		2	KLF6	10	3821740	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	622100	3821740	131713007	2341	79506											
NET1	10276	broad.mit.edu	37	chr10	5498073	5498073	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttacattttcctgtttcaAgacatcttggttctgactcg	7	18	6	10	1	3	2	1	1	2	1	5	2	4	2	1	1	1	2	1	1	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:5498073A>G	uc001iia.2	+	11	1359	c.1221A>G	c.(1219-1221)CAA>CAG	p.Q407Q	NET1_uc010qar.1_Silent_p.Q226Q|NET1_uc001iib.2_Silent_p.Q353Q|NET1_uc010qas.1_Silent_p.Q226Q	NM_001047160	NP_001040625	Q7Z628	ARHG8_HUMAN	neuroepithelial cell transforming gene 1 isoform	407	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1						TCCTGTTTCAAGACATCTTGG	0.433													12	110					0	0	1	0	0		G	5498073	G	G	5498073	2	3	151	1	0	0	0	0	0	0	0	1	10357	69	3	3		3	NET1	10	5498073	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1676333	5498073	130036674	2342	79507											
CALML5	51806	broad.mit.edu	37	chr10	5541219	5541219	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggaagctgatttcgccGtcgccgtcgctgtcaacctc	5	11	10	15	5	1	1	1	1	0	0	6	2	2	2	4	1	2	2	4	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:5541219G>A	uc001iic.2	-	1	315	c.183C>T	c.(181-183)GAC>GAT	p.D61D		NM_017422	NP_059118	Q9NZT1	CALL5_HUMAN	calmodulin-like 5	61	EF-hand 2.|2 (Potential).				epidermis development|signal transduction		calcium ion binding|protein binding				0						TGATTTCGCCGTCGCCGTCGC	0.662													16	66					0	0	1	0	0		A	5541219	A	A	5541219	2	1	151	1	0	0	0	0	0	0	0	1	2592	1136	40	1		1	CALML5	10	5541219	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	43146	5541219	129993528	2343	79508											
CALML3	810	broad.mit.edu	37	chr10	5567441	5567441	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgatccgggccgcggacacGgacggagacggacaggtgaa	11	3	17	10	6	0	3	0	2	0	1	1	7	1	6	2	6	0	0	2	6	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:5567441G>A	uc001iie.1	+	1	518	c.393G>A	c.(391-393)ACG>ACA	p.T131T	uc001iid.1_5'Flank	NM_005185	NP_005176	P27482	CALL3_HUMAN	calmodulin-like 3	131	4.|EF-hand 4.						calcium ion binding				0						CCGCGGACACGGACGGAGACG	0.677													6	26					0	0	1	0	0		A	5567441	A	A	5567441	2	1	151	1	0	0	0	0	0	0	0	1	2590	1103	39	1		1	CALML3	10	5567441	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	26222	5567441	129967306	2344	79509											
ITIH5	80760	broad.mit.edu	37	chr10	7682799	7682799	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgtaatttcgccctgatAcaccttgtctccaataagcc	9	13	5	14	1	2	1	0	1	2	0	4	1	2	1	4	0	2	1	4	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:7682799A>G	uc001ijq.2	-	4	398	c.319T>C	c.(319-321)TAT>CAT	p.Y107H	ITIH5_uc001ijr.1_Missense_Mutation_p.Y107H	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	107	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						TCGCCCTGATACACCTTGTCT	0.388													7	284					0	0	1	0	0		G	7682799	G	G	7682799	3	3	151	1	0	0	0	0	1	0	0	0	7923	391	14	3	2690	3	ITIH5	10	7682799	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2115358	7682799	127851948	2345	79510											
ITIH5	80760	broad.mit.edu	37	chr10	7683905	7683905	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacatagtgaagttggtgAtgaaagctgcagctggaatc	12	10	12	7	0	0	3	0	3	0	0	1	4	0	4	1	2	4	4	1	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:7683905A>G	uc001ijq.2	-	3	363	c.284T>C	c.(283-285)ATC>ACC	p.I95T	ITIH5_uc001ijr.1_Missense_Mutation_p.I95T	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	95	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						GAAGTTGGTGATGAAAGCTGC	0.507													27	145					0	0	1	0	0		G	7683905	G	G	7683905	3	3	151	1	0	0	0	0	1	0	0	0	7923	333	12	3	2729	3	ITIH5	10	7683905	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1106	7683905	127850842	2346	79511											
TAF3	83860	broad.mit.edu	37	chr10	7866512	7866512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttacctgccacccattgtgtCttctcaagaaggtttgtgag	8	14	9	10	0	2	2	1	1	2	1	3	2	2	2	3	1	2	1	3	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:7866512C>T	uc010qbd.1	+	2	398	c.398C>T	c.(397-399)TCT>TTT	p.S133F		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	133					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						CCCATTGTGTCTTCTCAAGAA	0.353													37	204					0	0	1	0	0		T	7866512	T	T	7866512	3	4	151	1	0	0	0	0	1	0	0	0	15550	913	32	4	404	4	TAF3	10	7866512	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	182607	7866512	127668235	2347	79512											
TAF3	83860	broad.mit.edu	37	chr10	8006770	8006770	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcaggcccggagtgtactActcccaaagcttccacttcc	8	11	7	15	1	1	0	1	0	0	0	4	1	4	1	4	2	3	2	4	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:8006770A>G	uc010qbd.1	+	3	1297	c.1297A>G	c.(1297-1299)ACT>GCT	p.T433A		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	433					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						GGAGTGTACTACTCCCAAAGC	0.473													37	131					0	0	1	0	0		G	8006770	G	G	8006770	3	3	151	1	0	0	0	0	1	0	0	0	15550	391	14	3	1307	3	TAF3	10	8006770	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	140258	8006770	127527977	2348	79513											
TAF3	83860	broad.mit.edu	37	chr10	8007187	8007187	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaaggaaactggcagggaaAcaaagtatccctggaaggaa	18	4	12	7	0	0	0	0	0	0	0	1	4	1	4	1	5	2	2	1	5	7	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:8007187A>G	uc010qbd.1	+	3	1714	c.1714A>G	c.(1714-1716)ACA>GCA	p.T572A		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	572	Lys-rich.				maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						TGGCAGGGAAACAAAGTATCC	0.209													6	69					0	0	1	0	0		G	8007187	G	G	8007187	3	3	151	1	0	0	0	0	1	0	0	0	15550	43	2	3	1724	3	TAF3	10	8007187	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	417	8007187	127527560	2349	79514											
NUDT5	11164	broad.mit.edu	37	chr10	12221106	12221106	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcagtctgctctttcctggTtgtacgtttcactgattccc	4	16	8	13	2	3	1	1	1	2	0	5	1	5	1	2	1	2	5	2	1	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:12221106T>C	uc001ilj.2	-	4	573	c.157A>G	c.(157-159)ACC>GCC	p.T53A	NUDT5_uc001ilk.2_Missense_Mutation_p.T53A	NM_014142	NP_054861	Q9UKK9	NUDT5_HUMAN	nudix-type motif 5	53					D-ribose catabolic process|ribonucleoside diphosphate catabolic process	intracellular	ADP-ribose diphosphatase activity|magnesium ion binding			ovary(1)|pancreas(1)	2		Renal(717;0.228)				TCTTTCCTGGTTGTACGTTTC	0.413													22	116					0	0	1	0	0		C	12221106	C	C	12221106	3	2	151	1	0	0	0	0	1	0	0	0	10761	1725	60	3	530	3	NUDT5	10	12221106	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4213919	12221106	123313641	2350	79515											
NMT2	9397	broad.mit.edu	37	chr10	15154898	15154898	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggctcttgtgagcagggTggtgcatcaccgtggagggg	6	9	19	7	1	2	2	1	2	1	0	2	3	2	3	1	6	2	3	1	6	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:15154898T>C	uc001inz.1	-	10	1319	c.1235A>G	c.(1234-1236)CAC>CGC	p.H412R	NMT2_uc001ioa.1_Missense_Mutation_p.H399R|NMT2_uc009xjo.1_Missense_Mutation_p.H412R|NMT2_uc010qbz.1_Missense_Mutation_p.H224R	NM_004808	NP_004799	O60551	NMT2_HUMAN	N-myristoyltransferase 2	412					N-terminal protein myristoylation|protein lipoylation	Golgi apparatus|plasma membrane	glycylpeptide N-tetradecanoyltransferase activity			ovary(1)	1						GTGAGCAGGGTGGTGCATCAC	0.542													34	115					0	0	1	0	0		C	15154898	C	C	15154898	3	2	151	1	0	0	0	0	1	0	0	0	10523	1696	59	3	273	3	NMT2	10	15154898	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2933792	15154898	120379849	2351	79516											
FAM171A1	221061	broad.mit.edu	37	chr10	15255063	15255063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgctggctccgagggggCatccgcagtccgtctggtcg	3	8	17	13	4	1	0	0	0	1	0	5	1	4	0	3	5	1	5	3	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:15255063C>T	uc001iob.2	-	8	2531	c.2524G>A	c.(2524-2526)GCC>ACC	p.A842T		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	842	Cytoplasmic (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						TCCGAGGGGGCATCCGCAGTC	0.617													24	145					0	0	1	0	0		T	15255063	T	T	15255063	3	4	151	1	0	0	0	0	1	0	0	0	5501	710	25	2	152	2	FAM171A1	10	15255063	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	100165	15255063	120279684	2352	79517											
CUBN	8029	broad.mit.edu	37	chr10	16994323	16994323	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagttctgattgtttggatAattggcagggaaccgtggag	9	12	15	5	1	1	1	0	1	1	0	1	4	1	4	1	4	1	4	1	4	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:16994323A>G	uc001ioo.2	-	33	4973	c.4921T>C	c.(4921-4923)TAT>CAT	p.Y1641H		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1641	CUB 11.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTGTTTGGATAATTGGCAGGG	0.463													20	83					0	0	1	0	0		G	16994323	G	G	16994323	3	3	151	1	0	0	0	0	1	0	0	0	4054	362	13	3	6090	3	CUBN	10	16994323	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1739260	16994323	118540424	2353	79518											
CACNB2	783	broad.mit.edu	37	chr10	18823131	18823131	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccttggcccctattatagTatatgtaaagatttcttctc	9	17	5	10	0	2	1	0	0	2	1	4	1	3	1	3	1	0	2	3	1	7	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:18823131T>C	uc001ipr.2	+	11	1241	c.1181T>C	c.(1180-1182)GTA>GCA	p.V394A	CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Missense_Mutation_p.V370A|CACNB2_uc001ipt.2_Missense_Mutation_p.V356A|CACNB2_uc001ipu.2_Missense_Mutation_p.V366A|CACNB2_uc001ipv.2_Missense_Mutation_p.V342A|CACNB2_uc009xka.1_Missense_Mutation_p.V328A|CACNB2_uc001ipw.2_Missense_Mutation_p.V301A|CACNB2_uc001ipx.2_Missense_Mutation_p.V339A|CACNB2_uc001ipz.2_Missense_Mutation_p.V316A|CACNB2_uc001ipy.2_Missense_Mutation_p.V340A|CACNB2_uc010qco.1_Missense_Mutation_p.V308A|CACNB2_uc001iqa.2_Missense_Mutation_p.V346A|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	394					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	CCTATTATAGTATATGTAAAG	0.353													41	195					0	0	1	0	0		C	18823131	C	C	18823131	3	2	151	1	0	0	0	0	1	0	0	0	2556	1638	57	3	1533	3	CACNB2	10	18823131	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1828808	18823131	116711616	2354	79519											
C10orf113	387638	broad.mit.edu	37	chr10	21414839	21414839	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccatgcttccctttggtTataccttctggtcccagaga	8	14	7	12	0	1	1	0	0	1	1	4	2	4	1	4	2	2	2	4	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:21414839T>C	uc001iqm.2	-	2	371	c.351A>G	c.(349-351)ATA>ATG	p.I117M	NEBL_uc001iqk.2_Intron	NM_001010896	NP_001010896	Q5VZT2	CJ113_HUMAN	hypothetical protein LOC387638	127										ovary(3)|pancreas(1)	4						TCCCTTTGGTTATACCTTCTG	0.468													60	225					0	0	1	0	0		C	21414839	C	C	21414839	3	2	151	1	0	0	0	0	1	0	0	0	1587	1744	61	3	90	3	C10orf113	10	21414839	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2591708	21414839	114119908	2355	79520											
PIP4K2A	5305	broad.mit.edu	37	chr10	23003192	23003192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactttctgcgctacgaagtGcttcttcttggtcttggtct	4	17	9	11	2	5	0	0	0	5	0	5	1	5	0	0	2	3	2	0	2	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:23003192G>A	uc001irl.3	-	1	312	c.64C>T	c.(64-66)CAC>TAC	p.H22Y		NM_005028	NP_005019	P48426	PI42A_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	22							1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding			ovary(1)|skin(1)	2						GCTACGAAGTGCTTCTTCTTG	0.642													4	29					0	0	1	0	0		A	23003192	A	A	23003192	3	1	151	1	0	0	0	0	1	0	0	0	11955	1319	46	2	1196	2	PIP4K2A	10	23003192	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1588353	23003192	112531555	2356	79521											
THNSL1	79896	broad.mit.edu	37	chr10	25314110	25314110	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagtggttgcagatagggTgcaagacaaaacttgccctg	14	8	12	7	0	0	2	0	0	0	2	0	2	0	2	1	2	4	3	1	2	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:25314110T>C	uc001isi.3	+	3	2287	c.1958T>C	c.(1957-1959)GTG>GCG	p.V653A	ENKUR_uc001ish.1_Intron	NM_024838	NP_079114	Q8IYQ7	THNS1_HUMAN	threonine synthase-like 1	653					threonine biosynthetic process		ATP binding|pyridoxal phosphate binding|shikimate kinase activity|threonine synthase activity			pancreas(1)	1					L-Threonine(DB00156)|Pyridoxal Phosphate(DB00114)	GCAGATAGGGTGCAAGACAAA	0.418													30	132					0	0	1	0	0		C	25314110	C	C	25314110	3	2	151	1	0	0	0	0	1	0	0	0	15887	1696	59	3	1960	3	THNSL1	10	25314110	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2310918	25314110	110220637	2357	79522											
GPR158	57512	broad.mit.edu	37	chr10	25861658	25861658	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcatgaggatgctggcagTaatactcttggtagtgtttt	8	15	13	5	0	2	1	1	1	1	0	2	2	2	2	0	4	2	5	0	4	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:25861658T>C	uc001isj.2	+	7	1655	c.1595T>C	c.(1594-1596)GTA>GCA	p.V532A		NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	532	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						ATGCTGGCAGTAATACTCTTG	0.438													39	102					0	0	1	0	0		C	25861658	C	C	25861658	3	2	151	1	0	0	0	0	1	0	0	0	6678	1638	57	3	1621	3	GPR158	10	25861658	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	547548	25861658	109673089	2358	79523											
GPR158	57512	broad.mit.edu	37	chr10	25887184	25887184	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagtcggtgccgttggtgTgcaagtcagcaagcgctcac	7	8	15	11	4	2	0	2	0	0	0	3	1	2	1	1	3	4	4	1	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:25887184T>C	uc001isj.2	+	11	2689	c.2629T>C	c.(2629-2631)TGC>CGC	p.C877R	GPR158_uc001isk.2_Missense_Mutation_p.C252R	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	877	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GCCGTTGGTGTGCAAGTCAGC	0.488													13	173					0	0	1	0	0		C	25887184	C	C	25887184	3	2	151	1	0	0	0	0	1	0	0	0	6678	1696	59	3	2671	3	GPR158	10	25887184	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	25526	25887184	109647563	2359	79524											
GPR158	57512	broad.mit.edu	37	chr10	25887343	25887343	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtgtggaagaacgcactAaatcccagaaacctttgcca	14	7	9	11	1	0	2	0	0	0	2	1	3	1	3	3	2	3	1	3	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:25887343A>G	uc001isj.2	+	11	2848	c.2788A>G	c.(2788-2790)AAA>GAA	p.K930E	GPR158_uc001isk.2_Missense_Mutation_p.K305E	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	930	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						AGAACGCACTAAATCCCAGAA	0.433													7	252					0	0	1	0	0		G	25887343	G	G	25887343	3	3	151	1	0	0	0	0	1	0	0	0	6678	363	13	3	2830	3	GPR158	10	25887343	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	159	25887343	109647404	2360	79525											
GPR158	57512	broad.mit.edu	37	chr10	25887641	25887641	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaaaagttcaaaagcacgTatctattgtggcttctgaaa	15	12	7	7	1	4	1	2	1	2	0	4	1	4	1	0	1	1	4	0	1	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:25887641T>C	uc001isj.2	+	11	3146	c.3086T>C	c.(3085-3087)GTA>GCA	p.V1029A	GPR158_uc001isk.2_Missense_Mutation_p.V404A	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1029	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						CAAAAGCACGTATCTATTGTG	0.453													26	107					0	0	1	0	0		C	25887641	C	C	25887641	3	2	151	1	0	0	0	0	1	0	0	0	6678	1638	57	3	3128	3	GPR158	10	25887641	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	298	25887641	109647106	2361	79526											
ANKRD26	22852	broad.mit.edu	37	chr10	27306695	27306695	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agacattttgaacctgcagtCtccagttctgctgtaagatc	10	13	8	10	0	2	3	0	1	2	2	4	3	2	3	2	0	3	4	2	0	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:27306695C>G	uc001ith.2	-	30	4411	c.4239G>C	c.(4237-4239)GAG>GAC	p.E1413D	ANKRD26_uc001itg.2_Missense_Mutation_p.E1100D|ANKRD26_uc009xku.1_Missense_Mutation_p.E1414D	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1413	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						AACCTGCAGTCTCCAGTTCTG	0.338													18	118					0	0	1	0	0		G	27306695	G	G	27306695	3	3	151	1	0	0	0	0	1	0	0	0	654	912	32	5	910	5	ANKRD26	10	27306695	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1419054	27306695	108228052	2362	79527											
ANKRD26	22852	broad.mit.edu	37	chr10	27382687	27382687	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccaccaggagagttactActtctggatgaccattggca	10	11	10	10	0	1	2	0	1	1	1	2	4	2	3	3	3	2	2	3	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:27382687A>G	uc001ith.2	-	2	456	c.284T>C	c.(283-285)GTA>GCA	p.V95A	ANKRD26_uc009xku.1_Missense_Mutation_p.V95A	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	95	ANK 2.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						GAGAGTTACTACTTCTGGATG	0.443													14	63					0	0	1	0	0		G	27382687	G	G	27382687	3	3	151	1	0	0	0	0	1	0	0	0	654	391	14	3	4980	3	ANKRD26	10	27382687	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	75992	27382687	108152060	2363	79528											
MASTL	84930	broad.mit.edu	37	chr10	27454351	27454351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaaaaaaatcaagaccctGcaaacatcctttcagcctgt	16	8	5	12	0	2	2	2	0	0	2	3	2	3	2	3	0	3	1	3	0	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:27454351G>A	uc001itm.2	+	6	1333	c.694G>A	c.(694-696)GCA>ACA	p.A232T	MASTL_uc001itl.2_Missense_Mutation_p.A232T|MASTL_uc009xkw.1_Missense_Mutation_p.A232T|MASTL_uc009xkx.1_RNA	NM_032844	NP_116233	Q96GX5	GWL_HUMAN	microtubule associated serine/threonine	232	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|mitosis|negative regulation of protein phosphatase type 2A activity|regulation of cell cycle|response to DNA damage stimulus	centrosome|cleavage furrow|nucleus	ATP binding|protein phosphatase 2A binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						TCAAGACCCTGCAAACATCCT	0.393													49	151					0	0	1	0	0		A	27454351	A	A	27454351	3	1	151	1	0	0	0	0	1	0	0	0	9346	1319	46	2	716	2	MASTL	10	27454351	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	71664	27454351	108080396	2364	79529											
PTCHD3	374308	broad.mit.edu	37	chr10	27687296	27687296	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagccccgggaagaaatgAtttcatttgatgaagaaata	16	10	10	5	1	1	6	1	4	0	2	1	7	1	7	2	1	1	0	2	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:27687296A>T	uc001itu.2	-	4	2349	c.2231T>A	c.(2230-2232)ATC>AAC	p.I744N		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	744					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GGAAGAAATGATTTCATTTGA	0.313													5	79					0	0	1	0	0		T	27687296	T	T	27687296	3	4	151	1	0	0	0	0	1	0	0	0	12756	333	12	5	76	5	PTCHD3	10	27687296	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	232945	27687296	107847451	2365	79530											
MPP7	143098	broad.mit.edu	37	chr10	28358700	28358700	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagtagcgcagaactcaCggggcactgtcacgccatag	11	6	12	12	3	2	2	2	1	0	1	2	2	2	2	1	2	2	3	1	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:28358700C>T	uc001iua.1	-	15	1608	c.1204_splice	c.e15+1	p.H402_splice	MPP7_uc009xkz.1_Splice_Site|MPP7_uc001iub.1_Splice_Site_p.H402_splice|MPP7_uc009xla.2_Splice_Site_p.H402_splice|MPP7_uc010qdv.1_Splice_Site	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7						establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						GCAGAACTCACGGGGCACTGT	0.378													11	48					0	0	1	0	0		T	28358700	T	T	28358700	5	4	151	1	0	0	0	0	0	0	1	0	9757	550	19	1	545	1	MPP7	10	28358700	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	671404	28358700	107176047	2366	79531											
WAC	51322	broad.mit.edu	37	chr10	28897190	28897190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctgcctctggactgaaccCcacatctgcacctccaacat	9	10	5	17	0	3	1	0	1	3	0	4	2	4	2	5	1	4	1	5	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:28897190C>T	uc001iuf.2	+	8	1080	c.995C>T	c.(994-996)CCC>CTC	p.P332L	WAC_uc001iud.2_Missense_Mutation_p.P287L|WAC_uc001iue.2_Intron|WAC_uc009xlb.2_Missense_Mutation_p.P287L|WAC_uc001iug.2_Missense_Mutation_p.P229L|WAC_uc001iuh.2_Missense_Mutation_p.P287L	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	332					cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						GGACTGAACCCCACATCTGCA	0.468													42	136					0	0	1	0	0		T	28897190	T	T	28897190	3	4	151	1	0	0	0	0	1	0	0	0	17273	623	22	4	1025	4	WAC	10	28897190	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	538490	28897190	106637557	2367	79532											
KIAA1462	57608	broad.mit.edu	37	chr10	30316194	30316194	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctcgtccattccgttgctAacctccaggtgtctcttctc	5	14	7	15	2	2	0	0	0	2	0	8	0	5	0	4	1	3	3	4	1	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:30316194A>G	uc001iux.2	-	2	2942	c.2883T>C	c.(2881-2883)GTT>GTC	p.V961V	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Silent_p.V823V|KIAA1462_uc009xle.1_Silent_p.V961V	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	961										ovary(4)	4						TTCCGTTGCTAACCTCCAGGT	0.577													29	144					0	0	1	0	0		G	30316194	G	G	30316194	2	3	151	1	0	0	0	0	0	0	0	1	8250	349	13	3		3	KIAA1462	10	30316194	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1419004	30316194	105218553	2368	79533											
KIAA1462	57608	broad.mit.edu	37	chr10	30317740	30317740	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgatttatcgtcaagctttAtgtcttcacagaaaccctgg	11	14	7	9	1	3	2	2	1	1	1	4	2	3	2	1	1	2	1	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:30317740A>T	uc001iux.2	-	2	1396	c.1337T>A	c.(1336-1338)ATA>AAA	p.I446K	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.I308K|KIAA1462_uc009xle.1_Missense_Mutation_p.I446K	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	446										ovary(4)	4						GTCAAGCTTTATGTCTTCACA	0.483													32	156					0	0	1	0	0		T	30317740	T	T	30317740	3	4	151	1	0	0	0	0	1	0	0	0	8250	449	16	5	2750	5	KIAA1462	10	30317740	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1546	30317740	105217007	2369	79534											
ZNF438	220929	broad.mit.edu	37	chr10	31134202	31134202	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggagctgccttttcagTcttggacatgcatgtgattc	7	14	12	8	0	2	1	1	1	1	0	3	3	2	3	1	3	3	2	1	3	0	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:31134202T>C	uc010qdz.1	-	8	2610	c.2175A>G	c.(2173-2175)AGA>AGG	p.R725R	ZNF438_uc001ivn.2_Silent_p.R676R|ZNF438_uc010qdy.1_Silent_p.R715R|ZNF438_uc001ivo.3_Silent_p.R289R|ZNF438_uc009xlg.2_Silent_p.R725R|ZNF438_uc001ivp.3_Silent_p.R715R|ZNF438_uc010qea.1_Silent_p.R725R|ZNF438_uc010qeb.1_Silent_p.R725R	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	725					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				GCCTTTTCAGTCTTGGACATG	0.537													36	159					0	0	1	0	0		C	31134202	C	C	31134202	2	2	151	1	0	0	0	0	0	0	0	1	17935	1664	58	3		3	ZNF438	10	31134202	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	816462	31134202	104400545	2370	79535											
EPC1	80314	broad.mit.edu	37	chr10	32575755	32575755	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtccaaggccagttgccagTttggtctaagtgaggcttaa	10	11	12	8	0	1	1	0	1	1	0	2	1	2	1	3	3	1	3	3	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:32575755T>C	uc001iwg.1	-	9	1528	c.1258A>G	c.(1258-1260)ACT>GCT	p.T420A	EPC1_uc001iwi.3_Missense_Mutation_p.T370A|EPC1_uc009xlt.2_Missense_Mutation_p.T370A|EPC1_uc001iwh.1_Missense_Mutation_p.T420A	NM_025209	NP_079485	Q9H2F5	EPC1_HUMAN	enhancer of polycomb 1	420					histone H2A acetylation|histone H4 acetylation|negative regulation of gene expression, epigenetic|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear membrane|Piccolo NuA4 histone acetyltransferase complex				ovary(3)|central_nervous_system(1)	4		Prostate(175;0.0199)				CAGTTGCCAGTTTGGTCTAAG	0.368													18	82					0	0	1	0	0		C	32575755	C	C	32575755	3	2	151	1	0	0	0	0	1	0	0	0	5168	1725	60	3	1280	3	EPC1	10	32575755	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1441553	32575755	102958992	2371	79536											
C10orf68	79741	broad.mit.edu	37	chr10	32983820	32983820	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgtagctcatgatgaagaAccaggcaaaaatcttgtgct	14	11	9	7	0	2	3	1	2	1	1	2	3	2	3	1	1	3	4	1	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:32983820A>G	uc001iwn.3	+	6	752	c.279A>G	c.(277-279)GAA>GAG	p.E93E	C10orf68_uc001iwl.1_Silent_p.E101E|C10orf68_uc001iwm.1_Intron|C10orf68_uc010qei.1_Silent_p.E20E	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	93										skin(2)|ovary(1)	3						ATGATGAAGAACCAGGCAAAA	0.338													12	34					0	0	1	0	0		G	32983820	G	G	32983820	2	3	151	1	0	0	0	0	0	0	0	1	1616	40	2	3		3	C10orf68	10	32983820	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	408065	32983820	102550927	2372	79537											
NRP1	8829	broad.mit.edu	37	chr10	33481334	33481334	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaattcacagttaaaaccaTatgttggaaactcttcagtg	15	12	6	8	0	3	0	2	0	1	0	3	1	3	1	1	1	2	2	1	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:33481334T>C	uc001iwx.3	-	13	2460	c.1937A>G	c.(1936-1938)TAT>TGT	p.Y646C	NRP1_uc001iwv.3_Missense_Mutation_p.Y646C|NRP1_uc009xlz.2_Missense_Mutation_p.Y639C|NRP1_uc001iww.3_Missense_Mutation_p.Y458C|NRP1_uc001iwy.3_Missense_Mutation_p.Y639C	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	646	Extracellular (Potential).|MAM.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	GTTAAAACCATATGTTGGAAA	0.448													73	362					0	0	1	0	0		C	33481334	C	C	33481334	3	2	151	1	0	0	0	0	1	0	0	0	10679	1406	49	3	854	3	NRP1	10	33481334	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	497514	33481334	102053413	2373	79538											
PARD3	56288	broad.mit.edu	37	chr10	34620065	34620065	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtctccatgccttcatcaTcatcatctaccgcgggttta	8	13	7	13	2	6	0	4	0	2	0	7	0	6	0	3	2	2	1	3	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:34620065T>C	uc010qej.1	-	19	2822	c.2822A>G	c.(2821-2823)GAT>GGT	p.D941G	PARD3_uc010qek.1_Missense_Mutation_p.D938G|PARD3_uc010qel.1_Missense_Mutation_p.D941G|PARD3_uc010qem.1_Missense_Mutation_p.D925G|PARD3_uc010qen.1_Missense_Mutation_p.D895G|PARD3_uc010qeo.1_Missense_Mutation_p.D895G|PARD3_uc010qep.1_Missense_Mutation_p.D851G|PARD3_uc010qeq.1_Missense_Mutation_p.D866G|PARD3_uc001ixo.1_Missense_Mutation_p.D654G|PARD3_uc001ixp.1_Missense_Mutation_p.D772G|PARD3_uc001ixq.1_Missense_Mutation_p.D895G|PARD3_uc001ixr.1_Missense_Mutation_p.D938G|PARD3_uc001ixt.1_Missense_Mutation_p.D759G|PARD3_uc001ixu.1_Missense_Mutation_p.D883G|PARD3_uc001ixs.1_Missense_Mutation_p.D564G	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	941					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				GCCTTCATCATCATCATCTAC	0.358													19	86					0	0	1	0	0		C	34620065	C	C	34620065	3	2	151	1	0	0	0	0	1	0	0	0	11462	1435	50	3	1311	3	PARD3	10	34620065	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1138731	34620065	100914682	2374	79539											
PARD3	56288	broad.mit.edu	37	chr10	34739363	34739363	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcccgcgggaggcttctgTagttttcatctttctattca	6	17	8	10	2	5	0	2	0	3	0	6	1	6	1	1	2	0	3	1	2	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:34739363T>C	uc010qej.1	-	5	596	c.596A>G	c.(595-597)TAC>TGC	p.Y199C	PARD3_uc010qek.1_Missense_Mutation_p.Y199C|PARD3_uc010qel.1_Missense_Mutation_p.Y199C|PARD3_uc010qem.1_Missense_Mutation_p.Y199C|PARD3_uc010qen.1_Missense_Mutation_p.Y199C|PARD3_uc010qeo.1_Missense_Mutation_p.Y199C|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron|PARD3_uc001ixp.1_Missense_Mutation_p.Y64C|PARD3_uc001ixq.1_Missense_Mutation_p.Y199C|PARD3_uc001ixr.1_Missense_Mutation_p.Y199C|PARD3_uc001ixt.1_Intron|PARD3_uc001ixu.1_Intron	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	199					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				GAGGCTTCTGTAGTTTTCATC	0.428													28	78					0	0	1	0	0		C	34739363	C	C	34739363	3	2	151	1	0	0	0	0	1	0	0	0	11462	1638	57	3	3593	3	PARD3	10	34739363	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	119298	34739363	100795384	2375	79540											
ZNF33A	7581	broad.mit.edu	37	chr10	38345181	38345181	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacaaatcatcactcacagTacatcacagggctcacacag	15	6	6	14	0	5	0	5	0	0	0	5	0	5	0	0	1	1	3	0	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:38345181T>C	uc001izh.2	+	5	2304	c.2126T>C	c.(2125-2127)GTA>GCA	p.V709A	ZNF33A_uc001izg.2_Missense_Mutation_p.V710A|ZNF33A_uc010qev.1_Missense_Mutation_p.V716A|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	709	C2H2-type 14.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						TCACTCACAGTACATCACAGG	0.403													41	153					0	0	1	0	0		C	38345181	C	C	38345181	3	2	151	1	0	0	0	0	1	0	0	0	17879	1638	57	3	2143	3	ZNF33A	10	38345181	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3605818	38345181	97189566	2376	79541											
ZNF33A	7581	broad.mit.edu	37	chr10	38345257	38345257	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttttaccgtaaatcggaActtgctcaacatcagagatc	13	12	6	10	2	3	1	2	0	1	1	5	3	3	2	1	1	4	2	1	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:38345257A>G	uc001izh.2	+	5	2380	c.2202A>G	c.(2200-2202)GAA>GAG	p.E734E	ZNF33A_uc001izg.2_Silent_p.E735E|ZNF33A_uc010qev.1_Silent_p.E741E|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	734	C2H2-type 15.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						GTAAATCGGAACTTGCTCAAC	0.393													33	127					0	0	1	0	0		G	38345257	G	G	38345257	2	3	151	1	0	0	0	0	0	0	0	1	17879	40	2	3		3	ZNF33A	10	38345257	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	76	38345257	97189490	2377	79542											
HNRNPF	3185	broad.mit.edu	37	chr10	43882564	43882564	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctcccgaacaggtcggTggtgaagccgtagccatcac	8	8	12	13	3	2	1	1	1	1	0	5	2	3	1	3	3	3	1	3	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:43882564T>C	uc009xmh.1	-	3	1256	c.769A>G	c.(769-771)ACC>GCC	p.T257A	HNRNPF_uc001jar.2_Missense_Mutation_p.T257A|HNRNPF_uc001jas.2_Missense_Mutation_p.T257A|HNRNPF_uc001jat.2_Missense_Mutation_p.T257A|HNRNPF_uc001jav.2_Missense_Mutation_p.T257A|HNRNPF_uc001jau.2_Missense_Mutation_p.T257A|uc010qfa.1_Silent_p.G82G	NM_001098208	NP_001091678	P52597	HNRPF_HUMAN	heterogeneous nuclear ribonucleoprotein F	257					regulation of RNA splicing	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding				0						AACAGGTCGGTGGTGAAGCCG	0.592													5	42					0	0	1	0	0		C	43882564	C	C	43882564	3	2	151	1	0	0	0	0	1	0	0	0	7281	1696	59	3	482	3	HNRNPF	10	43882564	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5537307	43882564	91652183	2378	79543											
ZNF22	7570	broad.mit.edu	37	chr10	45499107	45499107	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttctttcagagttctaaTctcattcagcatcgacggat	10	15	7	9	2	5	1	3	0	3	1	7	3	5	2	0	1	1	3	0	1	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:45499107T>C	uc001jbw.2	+	2	534	c.291T>C	c.(289-291)AAT>AAC	p.N97N	C10orf25_uc010qff.1_5'Flank|C10orf25_uc001jbv.1_5'Flank|uc001jbx.1_RNA	NM_006963	NP_008894	P17026	ZNF22_HUMAN	zinc finger protein 22 (KOX 15)	97	C2H2-type 2.				odontogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|plasma membrane	DNA binding|zinc ion binding			breast(1)|kidney(1)	2		Prostate(175;0.0352)|all_neural(218;0.202)				AGAGTTCTAATCTCATTCAGC	0.418													15	91					0	0	1	0	0		C	45499107	C	C	45499107	2	2	151	1	0	0	0	0	0	0	0	1	17799	1432	50	3		3	ZNF22	10	45499107	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1616543	45499107	90035640	2379	79544											
ANUBL1	93550	broad.mit.edu	37	chr10	46159025	46159025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttgctttcacagaaataAcagtttcaaaaggtgaaact	15	14	6	6	0	2	2	2	1	0	1	2	2	2	2	0	1	3	2	0	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:46159025A>G	uc001jcp.3	-	2	391	c.149T>C	c.(148-150)GTT>GCT	p.V50A	ANUBL1_uc001jcm.3_Missense_Mutation_p.V50A|ANUBL1_uc009xmu.2_5'UTR|ANUBL1_uc001jcn.3_5'UTR|ANUBL1_uc001jco.3_Missense_Mutation_p.V50A|ANUBL1_uc001jcq.2_RNA|ANUBL1_uc001jcr.2_Missense_Mutation_p.V50A	NM_001128324	NP_001121796	Q86XD8	ANUB1_HUMAN	AN1, ubiquitin-like, homolog	50	Ubiquitin-like.						zinc ion binding				0						CACAGAAATAACAGTTTCAAA	0.318													16	55					0	0	1	0	0		G	46159025	G	G	46159025	3	3	151	1	0	0	0	0	1	0	0	0	713	43	2	3	2070	3	ANUBL1	10	46159025	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	659918	46159025	89375722	2380	79545											
FRMPD2	143162	broad.mit.edu	37	chr10	49395242	49395242	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctggcccatacctgcatgCatgctctgaacaggtggtcc	7	9	11	14	0	1	1	0	1	1	0	2	1	2	1	4	3	5	3	4	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:49395242C>A	uc001jgi.2	-	17	2366	c.2259G>T	c.(2257-2259)ATG>ATT	p.M753I	FRMPD2_uc001jgh.2_Missense_Mutation_p.M721I|FRMPD2_uc001jgj.2_Missense_Mutation_p.M731I	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	753					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		TACCTGCATGCATGCTCTGAA	0.577													5	26					0.000602214	0.000608148	1	1	0		A	49395242	A	A	49395242	3	1	151	1	0	0	0	0	1	0	0	0	6072	710	25	5	1722	5	FRMPD2	10	49395242	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3236217	49395242	86139505	2381	79546											
FRMPD2	143162	broad.mit.edu	37	chr10	49400886	49400886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaatgagaggcttagacCgggcctggtgtgcaggactc	9	8	14	10	1	0	2	0	1	0	2	2	4	1	3	3	4	1	2	3	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:49400886C>T	uc001jgi.2	-	16	2113	c.2006G>A	c.(2005-2007)CGG>CAG	p.R669Q	FRMPD2_uc001jgh.2_Missense_Mutation_p.R637Q|FRMPD2_uc001jgj.2_Missense_Mutation_p.R647Q	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	669					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		AGGCTTAGACCGGGCCTGGTG	0.463													23	128					0	0	1	0	0		T	49400886	T	T	49400886	3	4	151	1	0	0	0	0	1	0	0	0	6072	652	23	1	1979	1	FRMPD2	10	49400886	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5644	49400886	86133861	2382	79547											
FRMPD2	143162	broad.mit.edu	37	chr10	49447676	49447676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaggctgcagtgactgtGtgtcaaggtgctccaatggg	9	9	16	7	0	1	1	1	1	0	0	2	2	2	2	1	4	2	3	1	4	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:49447676G>A	uc001jgi.2	-	7	867	c.760C>T	c.(760-762)CAC>TAC	p.H254Y	FRMPD2_uc001jgh.2_Missense_Mutation_p.H223Y|FRMPD2_uc001jgj.2_Missense_Mutation_p.H232Y	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	254					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		CAGTGACTGTGTGTCAAGGTG	0.512													13	70					0	0	1	0	0		A	49447676	A	A	49447676	3	1	151	1	0	0	0	0	1	0	0	0	6072	1377	48	4	3261	4	FRMPD2	10	49447676	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	46790	49447676	86087071	2383	79548											
C10orf71	118461	broad.mit.edu	37	chr10	50532305	50532305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cactgcatcacacatcaatcCccagaaggaccctacagctg	13	6	6	16	0	2	1	2	0	0	1	3	2	3	2	3	1	3	2	3	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:50532305C>T	uc010qgp.1	+	3	2054	c.1715C>T	c.(1714-1716)CCC>CTC	p.P572L		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	572											0						CACATCAATCCCCAGAAGGAC	0.537													9	49					0	0	1	0	0		T	50532305	T	T	50532305	3	4	151	1	0	0	0	0	1	0	0	0	1617	623	22	4	1717	4	C10orf71	10	50532305	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1084629	50532305	85002442	2384	79549											
OGDHL	55753	broad.mit.edu	37	chr10	50946030	50946030	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggatctgccggcgcagcAcgtggaagtagttggccggt	7	7	17	10	4	1	0	0	0	1	0	1	2	1	2	2	5	2	5	2	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:50946030A>G	uc001jie.2	-	19	2622	c.2480T>C	c.(2479-2481)GTG>GCG	p.V827A	OGDHL_uc009xog.2_Missense_Mutation_p.V854A|OGDHL_uc010qgt.1_Missense_Mutation_p.V770A|OGDHL_uc010qgu.1_Missense_Mutation_p.V618A	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	827					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						CCGGCGCAGCACGTGGAAGTA	0.652													29	130					0	0	1	0	0		G	50946030	G	G	50946030	3	3	151	1	0	0	0	0	1	0	0	0	10859	159	6	3	572	3	OGDHL	10	50946030	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	413725	50946030	84588717	2385	79550											
OGDHL	55753	broad.mit.edu	37	chr10	50957801	50957801	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcctccagcttggggtcaaActggcagaagatctgctcca	9	8	11	13	1	2	2	1	0	1	2	4	2	4	2	3	3	3	3	3	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:50957801A>G	uc001jie.2	-	8	1100	c.958T>C	c.(958-960)TTT>CTT	p.F320L	OGDHL_uc009xog.2_Missense_Mutation_p.F347L|OGDHL_uc010qgt.1_Missense_Mutation_p.F263L|OGDHL_uc010qgu.1_Missense_Mutation_p.F111L|OGDHL_uc009xoh.2_Missense_Mutation_p.F111L	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	320					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						TTGGGGTCAAACTGGCAGAAG	0.662													3	5					0	0	1	0	0		G	50957801	G	G	50957801	3	3	151	1	0	0	0	0	1	0	0	0	10859	43	2	3	2138	3	OGDHL	10	50957801	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	11771	50957801	84576946	2386	79551											
AGAP6	414189	broad.mit.edu	37	chr10	51751448	51751448	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatatagctttggagtttaAcccttctgccaatccagagg	10	12	9	10	0	1	1	0	0	1	1	2	2	2	2	3	2	3	3	3	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:51751448A>G	uc001jix.3	+	3	703	c.305A>G	c.(304-306)AAC>AGC	p.N102S		NM_001077665	NP_001071133	Q5VW22	AGAP6_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	102					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			skin(1)	1						TTGGAGTTTAACCCTTCTGCC	0.373													7	205					0	0	1	0	0		G	51751448	G	G	51751448	3	3	151	1	0	0	0	0	1	0	0	0	372	43	2	3	315	3	AGAP6	10	51751448	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	793647	51751448	83783299	2387	79552											
BICC1	80114	broad.mit.edu	37	chr10	60562876	60562876	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagaccctgaactgagtgcTaccgaaagccctttggctga	10	9	10	12	1	1	4	1	3	0	1	1	5	1	4	3	1	4	2	3	1	3	2	rs139787636		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:60562876T>C	uc001jki.1	+	15	2055	c.2055T>C	c.(2053-2055)GCT>GCC	p.A685A	BICC1_uc001jkj.1_Silent_p.A326A	NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	685					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						AACTGAGTGCTACCGAAAGCC	0.512													13	64					0	0	1	0	0		C	60562876	C	C	60562876	2	2	151	1	0	0	0	0	0	0	0	1	1428	1509	53	3		3	BICC1	10	60562876	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	8811428	60562876	74971871	2388	79553											
PHYHIPL	84457	broad.mit.edu	37	chr10	60994089	60994089	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatcacaagacagtggcatAgcagagatggaagaacttcc	17	6	10	8	0	1	3	1	0	0	3	2	5	2	4	1	2	2	2	1	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:60994089A>G	uc001jkk.3	+	2	398	c.132A>G	c.(130-132)ATA>ATG	p.I44M	PHYHIPL_uc001jkl.3_Translation_Start_Site|PHYHIPL_uc001jkm.3_Missense_Mutation_p.I18M	NM_032439	NP_115815	Q96FC7	PHIPL_HUMAN	phytanoyl-CoA 2-hydroxylase interacting	44											0						ACAGTGGCATAGCAGAGATGG	0.338													20	68					0	0	1	0	0		G	60994089	G	G	60994089	3	3	151	1	0	0	0	0	1	0	0	0	11886	410	15	3	170	3	PHYHIPL	10	60994089	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	431213	60994089	74540658	2389	79554											
FAM13C	220965	broad.mit.edu	37	chr10	61112119	61112119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccatgctgggtcgcaataCgctgtccaccagcacggtcg	7	7	12	15	4	0	0	0	0	0	0	3	0	1	0	3	2	3	4	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:61112119C>T	uc001jkn.2	-	4	369	c.235G>A	c.(235-237)GTA>ATA	p.V79I	FAM13C_uc001jko.2_Missense_Mutation_p.V79I|FAM13C_uc010qid.1_5'UTR|FAM13C_uc010qie.1_5'UTR|FAM13C_uc010qif.1_Missense_Mutation_p.V101I|FAM13C_uc001jkp.2_5'UTR	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	79										ovary(2)	2						GGTCGCAATACGCTGTCCACC	0.607													10	71					0	0	1	0	0		T	61112119	T	T	61112119	3	4	151	1	0	0	0	0	1	0	0	0	5465	536	19	1	1570	1	FAM13C	10	61112119	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	118030	61112119	74422628	2390	79555											
SLC16A9	220963	broad.mit.edu	37	chr10	61413938	61413938	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgccacttcctcttggcAagctgtttgcaaaaatatgt	11	13	7	10	0	1	0	0	0	1	0	2	0	2	0	2	1	4	4	2	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:61413938A>G	uc010qig.1	-	5	1295	c.846T>C	c.(844-846)CTT>CTC	p.L282L		NM_194298	NP_919274	Q7RTY1	MOT9_HUMAN	solute carrier family 16 (monocarboxylic acid	282	Extracellular (Potential).				urate metabolic process	integral to membrane|plasma membrane	symporter activity			skin(2)|ovary(1)	3						TCCTCTTGGCAAGCTGTTTGC	0.373													65	245					0	0	1	0	0		G	61413938	G	G	61413938	2	3	151	1	0	0	0	0	0	0	0	1	14440	117	5	3		3	SLC16A9	10	61413938	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	301819	61413938	74120809	2391	79556											
ANK3	288	broad.mit.edu	37	chr10	61830159	61830159	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccctgacttctgatcagTcttatcaggagtcttttcag	7	14	9	11	0	6	2	3	2	3	0	6	3	6	3	2	2	0	0	2	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:61830159T>C	uc001jky.2	-	37	10672	c.10480A>G	c.(10480-10482)ACT>GCT	p.T3494A	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	3494					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTCTGATCAGTCTTATCAGGA	0.443													5	171					0	0	1	0	0		C	61830159	C	C	61830159	3	2	151	1	0	0	0	0	1	0	0	0	622	1667	58	3	2994	3	ANK3	10	61830159	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	416221	61830159	73704588	2392	79557											
ANK3	288	broad.mit.edu	37	chr10	61832609	61832609	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcagtctgttgggagagaAccatcttctctgggctgctg	6	12	12	11	0	4	1	1	0	3	1	5	3	4	2	2	2	2	3	2	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:61832609A>G	uc001jky.2	-	37	8222	c.8030T>C	c.(8029-8031)GTT>GCT	p.V2677A	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2677					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTGGGAGAGAACCATCTTCTC	0.562													23	133					0	0	1	0	0		G	61832609	G	G	61832609	3	3	151	1	0	0	0	0	1	0	0	0	622	43	2	3	5444	3	ANK3	10	61832609	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2450	61832609	73702138	2393	79558											
ARID5B	84159	broad.mit.edu	37	chr10	63852092	63852092	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccccaaagcctgtcgggTatcacccatgaccatgtcag	10	8	8	15	1	3	1	3	1	0	0	4	1	3	1	5	1	1	1	5	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:63852092T>C	uc001jlt.1	+	10	2896	c.2870T>C	c.(2869-2871)GTA>GCA	p.V957A		NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	957					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					GCCTGTCGGGTATCACCCATG	0.522													37	158					0	0	1	0	0		C	63852092	C	C	63852092	3	2	151	1	0	0	0	0	1	0	0	0	922	1638	57	3	2908	3	ARID5B	10	63852092	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2019483	63852092	71682655	2394	79559											
RTKN2	219790	broad.mit.edu	37	chr10	63999501	63999501	+	Frame_Shift_Del	DEL	A	-	-																															agctcccattttgaataaacAaaaaatggcatagcgtcgtg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:63999501delA	uc001jlw.2	-	5	491	c.394delT	c.(394-396)TGTfs	p.C132fs	RTKN2_uc001jlx.2_Frame_Shift_Del_p.C132fs	NM_145307	NP_660350	Q8IZC4	RTKN2_HUMAN	rhotekin 2	132					signal transduction	intracellular					0	Prostate(12;0.0297)|all_hematologic(501;0.215)					TTGAATAAACAAAAAATGGCA	0.289													18	35	---	---	---	---						.	-	63999501	-	-	63999501	7	5	151	1	0	1	0	1	0	0	0	0	13748	130	5	0	1467	0	RTKN2	10	63999501	Frame_Shift_Del	DEL	A	TCGA-CG-5721-01A-11D-1600-08	147409	63999501	71535246	2395	79560											
JMJD1C	221037	broad.mit.edu	37	chr10	64944406	64944406	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggtcctagatcaggacgtAcaaaaaatcctggcaaatga	15	8	10	8	1	1	2	1	1	0	1	3	3	3	3	2	3	1	2	2	3	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:64944406A>G	uc001jmn.2	-	21	7223	c.6923T>C	c.(6922-6924)GTA>GCA	p.V2308A	JMJD1C_uc001jml.2_Missense_Mutation_p.V2071A|JMJD1C_uc001jmm.2_Missense_Mutation_p.V2020A|JMJD1C_uc010qiq.1_Missense_Mutation_p.V2126A|JMJD1C_uc009xpi.2_Missense_Mutation_p.V2126A|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmo.2_Missense_Mutation_p.V215A	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	2308	JmjC.				blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding	p.V2071E(1)		ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					ATCAGGACGTACAAAAAATCC	0.358													28	122					0	0	1	0	0		G	64944406	G	G	64944406	3	3	151	1	0	0	0	0	1	0	0	0	7966	391	14	3	723	3	JMJD1C	10	64944406	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	944905	64944406	70590341	2396	79561											
JMJD1C	221037	broad.mit.edu	37	chr10	64967249	64967249	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgattacatccgttttggTattacacatcgtatttacag	10	17	7	7	2	0	1	0	1	0	0	2	1	1	1	1	1	3	3	1	1	5	8	rs139881253	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:64967249T>C	uc001jmn.2	-	10	4480	c.4180A>G	c.(4180-4182)ACC>GCC	p.T1394A	JMJD1C_uc001jml.2_Missense_Mutation_p.T1175A|JMJD1C_uc001jmm.2_Missense_Mutation_p.T1106A|JMJD1C_uc010qiq.1_Missense_Mutation_p.T1212A|JMJD1C_uc009xpi.2_Missense_Mutation_p.T1212A|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Missense_Mutation_p.T431A	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1394					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TCCGTTTTGGTATTACACATC	0.423													53	164					0	0	1	0	0		C	64967249	C	C	64967249	3	2	151	1	0	0	0	0	1	0	0	0	7966	1638	57	3	3510	3	JMJD1C	10	64967249	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	22843	64967249	70567498	2397	79562											
CTNNA3	29119	broad.mit.edu	37	chr10	67748557	67748557	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttagtggtcctttgccccTggaaaaaaatttatatatgt	11	16	7	7	0	0	0	0	0	0	0	1	1	1	1	3	2	1	0	3	2	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:67748557T>C	uc009xpn.1	-	16	2283	c.2160_splice	c.e16-1	p.R720_splice	CTNNA3_uc001jmw.2_Splice_Site_p.R720_splice	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3						cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						CCTTTGCCCCTGGAAAAAAAT	0.383													39	134					0	0	1	0	0		C	67748557	C	C	67748557	5	2	151	1	0	0	0	0	0	0	1	0	4017	1594	55	3	541	3	CTNNA3	10	67748557	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2781308	67748557	67786190	2398	79563											
HERC4	26091	broad.mit.edu	37	chr10	69785304	69785304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttacataacaccttaccGtccacaagcaatctcagtga	13	11	4	13	1	1	1	1	1	1	0	3	1	2	1	3	0	4	1	3	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:69785304G>A	uc001jng.3	-	8	1218	c.907C>T	c.(907-909)CGG>TGG	p.R303W	HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Missense_Mutation_p.R303W|HERC4_uc009xpr.2_Missense_Mutation_p.R303W|HERC4_uc001jni.3_Missense_Mutation_p.R47W|HERC4_uc001jnj.2_Missense_Mutation_p.R303W	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	303	RCC1 6.				cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						ACACCTTACCGTCCACAAGCA	0.383													53	232					0	0	1	0	0		A	69785304	A	A	69785304	3	1	151	1	0	0	0	0	1	0	0	0	7076	1159	40	1	2342	1	HERC4	10	69785304	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2036747	69785304	65749443	2399	79564											
DNA2	1763	broad.mit.edu	37	chr10	70191674	70191674	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatacccacgatgagtgtgTagtcttttgaaagaagtacc	12	11	10	8	1	1	3	0	2	1	1	1	4	1	3	2	0	2	3	2	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:70191674T>C	uc001jof.2	-	13	2186	c.2186A>G	c.(2185-2187)TAC>TGC	p.Y729C	DNA2_uc001jog.1_Missense_Mutation_p.Y643C|DNA2_uc001joh.1_RNA	NM_001080449	NP_001073918	P51530	DNA2L_HUMAN	DNA replication helicase 2 homolog	643					base-excision repair|DNA replication, removal of RNA primer|mitochondrial DNA repair|mitochondrial DNA replication|positive regulation of DNA replication|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	mitochondrial nucleoid|nucleoplasm	5'-flap endonuclease activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|site-specific endodeoxyribonuclease activity, specific for altered base				0						GATGAGTGTGTAGTCTTTTGA	0.353													87	311					0	0	1	0	0		C	70191674	C	C	70191674	3	2	151	1	0	0	0	0	1	0	0	0	4602	1638	57	3	1290	3	DNA2	10	70191674	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	406370	70191674	65343073	2400	79565											
TET1	80312	broad.mit.edu	37	chr10	70405606	70405606	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttgcatcagttgccaccAagaaataatgaagtggagta	15	10	10	6	0	1	2	1	1	0	1	1	4	1	3	2	1	2	3	2	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:70405606A>G	uc001jok.3	+	4	3625	c.3120A>G	c.(3118-3120)CCA>CCG	p.P1040P		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1040					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						AGTTGCCACCAAGAAATAATG	0.373													34	163					0	0	1	0	0		G	70405606	G	G	70405606	2	3	151	1	0	0	0	0	0	0	0	1	15794	117	5	3		3	TET1	10	70405606	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	213932	70405606	65129141	2401	79566											
DDX50	79009	broad.mit.edu	37	chr10	70672961	70672961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaactggcaaaccaagtagCcaaagacttcaaagatataa	19	6	8	8	0	1	2	1	0	0	2	1	3	1	3	2	2	3	2	2	2	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:70672961C>T	uc001jou.2	+	5	790	c.683C>T	c.(682-684)GCC>GTC	p.A228V	DDX50_uc001jot.2_Missense_Mutation_p.A228V|DDX50_uc010qjc.1_Missense_Mutation_p.A228V	NM_024045	NP_076950	Q9BQ39	DDX50_HUMAN	nucleolar protein GU2	228	Helicase ATP-binding.					nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1						AACCAAGTAGCCAAAGACTTC	0.358													15	88					0	0	1	0	0		T	70672961	T	T	70672961	3	4	151	1	0	0	0	0	1	0	0	0	4371	739	26	2	701	2	DDX50	10	70672961	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	267355	70672961	64861786	2402	79567											
SUPV3L1	6832	broad.mit.edu	37	chr10	70951476	70951476	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagccaaatgggaaacaggcTtcacatgtttcttgtacagt	12	11	9	9	0	2	0	1	0	1	0	2	1	2	1	1	2	3	3	1	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:70951476T>C	uc001jpe.1	+	6	862	c.807T>C	c.(805-807)GCT>GCC	p.A269A	SUPV3L1_uc010qjd.1_Silent_p.A138A	NM_003171	NP_003162	Q8IYB8	SUV3_HUMAN	suppressor of var1, 3-like 1 precursor	269	Helicase ATP-binding.				DNA duplex unwinding	mitochondrial nucleoid|nucleus	ATP binding|DNA binding|DNA helicase activity|RNA binding			urinary_tract(1)|ovary(1)	2						GGAAACAGGCTTCACATGTTT	0.358													20	66					0	0	1	0	0		C	70951476	C	C	70951476	2	2	151	1	0	0	0	0	0	0	0	1	15427	1596	56	3		3	SUPV3L1	10	70951476	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	278515	70951476	64583271	2403	79568											
HKDC1	80201	broad.mit.edu	37	chr10	71003054	71003054	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcggggacgacggggccCtggaggacattcgcactgag	7	6	16	12	4	0	1	0	1	0	0	2	5	0	4	2	6	0	1	2	6	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:71003054C>A	uc001jpf.3	+	7	941	c.808C>A	c.(808-810)CTG>ATG	p.L270M	HKDC1_uc010qje.1_Missense_Mutation_p.L133M	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	270					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						CGACGGGGCCCTGGAGGACAT	0.592													29	92					2.65835e-16	2.76684e-16	1	1	0		A	71003054	A	A	71003054	3	1	151	1	0	0	0	0	1	0	0	0	7209	680	24	5	834	5	HKDC1	10	71003054	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	51578	71003054	64531693	2404	79569											
HK1	3098	broad.mit.edu	37	chr10	71128328	71128328	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaaagcgatttaaagcgAgcggagtggaaggagcagat	15	5	16	5	3	0	1	0	0	0	1	0	7	0	5	0	4	4	1	0	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:71128328A>G	uc001jpl.3	+	5	633	c.532A>G	c.(532-534)AGC>GGC	p.S178G	HK1_uc001jpg.3_Missense_Mutation_p.S166G|HK1_uc001jph.3_Missense_Mutation_p.S182G|HK1_uc001jpi.3_Missense_Mutation_p.S182G|HK1_uc001jpj.3_Missense_Mutation_p.S213G|HK1_uc001jpk.3_Missense_Mutation_p.S177G|HK1_uc009xqd.2_Missense_Mutation_p.S56G	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	178	Regulatory.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						ATTTAAAGCGAGCGGAGTGGA	0.567													12	97					0	0	1	0	0		G	71128328	G	G	71128328	3	3	151	1	0	0	0	0	1	0	0	0	7206	304	11	3	728	3	HK1	10	71128328	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	125274	71128328	64406419	2405	79570											
CDH23	64072	broad.mit.edu	37	chr10	73498265	73498265	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccctcaggtctacatcaCtgtgctggacgagaatgaca	11	9	9	12	1	4	2	3	1	1	1	4	4	4	3	1	2	2	1	1	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:73498265C>T	uc001jrx.3	+	33	4597	c.4220C>T	c.(4219-4221)ACT>ATT	p.T1407I	C10orf105_uc001jsb.1_5'Flank|CDH23_uc001jsc.1_Missense_Mutation_p.T214I	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1407	Cadherin 13.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GTCTACATCACTGTGCTGGAC	0.617													19	101					0	0	1	0	0		T	73498265	T	T	73498265	3	4	151	1	0	0	0	0	1	0	0	0	3111	565	20	4	4699	4	CDH23	10	73498265	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2369937	73498265	62036482	2406	79571											
CDH23	64072	broad.mit.edu	37	chr10	73553070	73553070	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggggtcatccgtgttggtAatgccaccatcgacagagag	9	8	13	11	3	1	1	1	0	0	1	3	3	2	1	4	3	1	2	4	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:73553070A>T	uc001jrx.3	+	46	6762	c.6385A>T	c.(6385-6387)AAT>TAT	p.N2129Y	CDH23_uc001jsg.3_5'Flank|CDH23_uc001jsh.3_5'Flank	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	2129	Cadherin 20.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CCGTGTTGGTAATGCCACCAT	0.597													18	70					0	0	1	0	0		T	73553070	T	T	73553070	3	4	151	1	0	0	0	0	1	0	0	0	3111	362	13	5	6916	5	CDH23	10	73553070	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	54805	73553070	61981677	2407	79572											
DNAJB12	54788	broad.mit.edu	37	chr10	74095633	74095633	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggggtgcccatcttctgtgCtctgtggtacatatctgtgt	4	15	13	9	0	4	0	0	0	4	0	4	0	4	0	1	3	3	2	1	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:74095633C>A	uc010qjv.1	-	8	1315	c.1165G>T	c.(1165-1167)GCA>TCA	p.A389S	DNAJB12_uc001jsz.2_Missense_Mutation_p.A389S|DNAJB12_uc001jta.2_Missense_Mutation_p.A389S	NM_017626	NP_060096	Q9NXW2	DJB12_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 12	355					protein folding	endoplasmic reticulum|integral to membrane	heat shock protein binding|unfolded protein binding				0						ATCTTCTGTGCTCTGTGGTAC	0.592													18	99					3.32936e-07	3.39817e-07	1	1	0		A	74095633	A	A	74095633	3	1	151	1	0	0	0	0	1	0	0	0	4623	797	28	5	68	5	DNAJB12	10	74095633	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	542563	74095633	61439114	2408	79573											
P4HA1	5033	broad.mit.edu	37	chr10	74813265	74813265	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttccatccacagttccgTatggtaataatctgcttctg	8	16	7	10	1	2	0	0	0	2	0	5	0	5	0	3	1	1	5	3	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:74813265T>C	uc010qka.1	-	7	881	c.547A>G	c.(547-549)ACG>GCG	p.T183A	P4HA1_uc001jtg.2_Missense_Mutation_p.T183A|P4HA1_uc001jth.2_Missense_Mutation_p.T183A|P4HA1_uc010qkb.1_Missense_Mutation_p.T183A|P4HA1_uc001jti.2_RNA	NM_001142595	NP_001136067	P13674	P4HA1_HUMAN	prolyl 4-hydroxylase, alpha I subunit isoform 2	183						endoplasmic reticulum lumen|mitochondrion	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			ovary(1)	1	Prostate(51;0.0198)				Hydralazine(DB01275)|L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	CACAGTTCCGTATGGTAATAA	0.408													44	201					0	0	1	0	0		C	74813265	C	C	74813265	3	2	151	1	0	0	0	0	1	0	0	0	11375	1638	57	3	1172	3	P4HA1	10	74813265	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	717632	74813265	60721482	2409	79574											
TTC18	118491	broad.mit.edu	37	chr10	75051441	75051441	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagttggttccaagcaagtAgcatcctcaaagaaaatttc	14	12	7	8	0	1	1	1	0	0	1	4	1	3	1	2	1	2	5	2	1	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:75051441A>G	uc009xrc.2	-	19	2308	c.2187T>C	c.(2185-2187)GCT>GCC	p.A729A	TTC18_uc001jty.2_Silent_p.A729A|TTC18_uc001jtv.3_5'Flank|TTC18_uc001jtw.3_5'Flank|TTC18_uc001jtx.2_Silent_p.A110A	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18	729	TPR 3.						binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					CCAAGCAAGTAGCATCCTCAA	0.393													13	44					0	0	1	0	0		G	75051441	G	G	75051441	2	3	151	1	0	0	0	0	0	0	0	1	16711	407	15	3		3	TTC18	10	75051441	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	238176	75051441	60483306	2410	79575											
USP54	159195	broad.mit.edu	37	chr10	75331193	75331193	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttaccttgagagcgcaaaAgatgcaggaatctcccatgc	13	8	9	11	1	1	2	0	1	1	2	2	4	1	3	2	1	4	2	2	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:75331193A>G	uc001juo.2	-	2	243	c.226T>C	c.(226-228)TTT>CTT	p.F76L	USP54_uc001jup.2_Missense_Mutation_p.F76L|USP54_uc010qkl.1_Missense_Mutation_p.F76L	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	76					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					AGAGCGCAAAAGATGCAGGAA	0.423													28	118					0	0	1	0	0		G	75331193	G	G	75331193	3	3	151	1	0	0	0	0	1	0	0	0	17111	72	3	3	4912	3	USP54	10	75331193	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	279752	75331193	60203554	2411	79576											
NDST2	8509	broad.mit.edu	37	chr10	75563469	75563469	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcaaataggaaatcagTgctggcattggaaggaacag	14	11	11	5	0	2	0	2	0	0	0	2	3	2	3	0	4	2	2	0	4	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:75563469T>C	uc001jvk.2	-	11	2809	c.2005A>G	c.(2005-2007)ACT>GCT	p.T669A	NDST2_uc010qks.1_Missense_Mutation_p.T295A|NDST2_uc010qkt.1_Missense_Mutation_p.T546A|NDST2_uc001jvl.1_Missense_Mutation_p.T76A|NDST2_uc009xro.2_Missense_Mutation_p.T295A|NDST2_uc010qku.1_Missense_Mutation_p.T544A	NM_003635	NP_003626	P52849	NDST2_HUMAN	heparan glucosaminyl	669	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 2.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			ovary(1)	1	Prostate(51;0.0112)					AGGAAATCAGTGCTGGCATTG	0.488													50	207					0	0	1	0	0		C	75563469	C	C	75563469	3	2	151	1	0	0	0	0	1	0	0	0	10275	1696	59	3	666	3	NDST2	10	75563469	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	232276	75563469	59971278	2412	79577											
DLG5	9231	broad.mit.edu	37	chr10	79589141	79589141	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccactgaggttgatgtgcagCggcgtgaccaccttcccacc	7	8	11	15	2	0	3	0	3	0	0	1	3	1	3	5	2	2	2	5	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:79589141C>T	uc001jzk.2	-	12	2227	c.2157G>A	c.(2155-2157)CCG>CCA	p.P719P	DLG5_uc001jzj.2_Silent_p.P474P|DLG5_uc009xru.1_RNA|DLG5_uc001jzl.3_Silent_p.P323P	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	719	PDZ 2.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			TGATGTGCAGCGGCGTGACCA	0.627													36	116					0	0	1	0	0		T	79589141	T	T	79589141	2	4	151	1	0	0	0	0	0	0	0	1	4564	755	27	1		1	DLG5	10	79589141	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4025672	79589141	55945606	2413	79578											
DLG5	9231	broad.mit.edu	37	chr10	79590513	79590513	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttaccgtctccctctcgaActctacaacttccgtttccc	6	13	4	18	3	3	0	0	0	3	0	7	1	5	0	4	0	4	2	4	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:79590513A>G	uc001jzk.2	-	10	1937	c.1867T>C	c.(1867-1869)TTC>CTC	p.F623L	DLG5_uc001jzj.2_Missense_Mutation_p.F378L|DLG5_uc009xru.1_RNA|DLG5_uc001jzl.3_Missense_Mutation_p.F227L	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	623	PDZ 1.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			TCCCTCTCGAACTCTACAACT	0.557													6	63					0	0	1	0	0		G	79590513	G	G	79590513	3	3	151	1	0	0	0	0	1	0	0	0	4564	43	2	3	3984	3	DLG5	10	79590513	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1372	79590513	55944234	2414	79579											
POLR3A	11128	broad.mit.edu	37	chr10	79769355	79769355	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttgcccttggttcgcaGgttggccctcactggattgt	3	14	12	12	1	1	0	1	0	0	0	2	1	1	1	2	4	2	4	2	4	0	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:79769355G>T	uc001jzn.2	-	14	1943	c.1849C>A	c.(1849-1851)CTG>ATG	p.L617M		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	617					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			TTGGTTCGCAGGTTGGCCCTC	0.577													31	136					6.00712e-18	6.25708e-18	1	1	0		T	79769355	T	T	79769355	3	4	151	1	0	0	0	0	1	0	0	0	12247	991	35	5	2395	5	POLR3A	10	79769355	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	178842	79769355	55765392	2415	79580											
ZMIZ1	57178	broad.mit.edu	37	chr10	81056311	81056311	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagcccccaaccccccgagGccactcacctcccccaacta	9	3	4	25	1	1	0	1	0	0	0	2	1	2	0	10	1	3	0	10	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:81056311G>A	uc001kaf.2	+	13	1886	c.1314G>A	c.(1312-1314)AGG>AGA	p.R438R	ZMIZ1_uc001kag.2_Silent_p.R314R|ZMIZ1_uc001kah.1_3'UTR	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	438	Pro-rich.				transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			ACCCCCCGAGGCCACTCACCT	0.627													11	44					0	0	1	0	0		A	81056311	A	A	81056311	2	1	151	1	0	0	0	0	0	0	0	1	17721	1194	42	2		2	ZMIZ1	10	81056311	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1286956	81056311	54478436	2416	79581											
C10orf58	84293	broad.mit.edu	37	chr10	82185681	82185681	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgggcgtccccctctaTgcagtggtaaaggagcacat	9	8	12	12	1	1	0	0	0	1	0	2	1	2	1	2	3	3	4	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:82185681T>C	uc001kcc.3	+	4	490	c.330T>C	c.(328-330)TAT>TAC	p.Y110Y	C10orf58_uc001kcd.3_Silent_p.Y99Y|C10orf58_uc001kce.3_Silent_p.Y110Y|C10orf58_uc001kcf.3_Silent_p.Y110Y	NM_032333	NP_115709	Q9BRX8	CJ058_HUMAN	hypothetical protein LOC84293 precursor	110						extracellular region					0			Colorectal(32;0.229)			TCCCCCTCTATGCAGTGGTAA	0.512													4	143					0	0	1	0	0		C	82185681	C	C	82185681	2	2	151	1	0	0	0	0	0	0	0	1	1613	1471	51	3		3	C10orf58	10	82185681	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1129370	82185681	53349066	2417	79582											
GRID1	2894	broad.mit.edu	37	chr10	87615784	87615784	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggggtgccccctcacacgtAcctttttgatggtatccagc	6	11	11	13	1	1	1	1	1	0	0	2	1	2	1	4	3	3	2	4	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:87615784A>G	uc001kdl.1	-	7	1214	c.1113_splice	c.e7+1	p.K371_splice	GRID1_uc009xsu.1_Splice_Site	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1							cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CCTCACACGTACCTTTTTGAT	0.557										Multiple Myeloma(13;0.14)			17	76					0	0	1	0	0		G	87615784	G	G	87615784	5	3	151	1	0	0	0	0	0	0	1	0	6787	405	14	3	1954	3	GRID1	10	87615784	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5430103	87615784	47918963	2418	79583											
C10orf116	10974	broad.mit.edu	37	chr10	88728350	88728350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaacaggtggaggggaccGcccaggaagccggtgaggat	11	3	18	9	2	0	1	0	1	0	0	0	5	0	5	3	7	3	1	3	7	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:88728350G>A	uc001ked.2	+	1	163	c.49G>A	c.(49-51)GCC>ACC	p.A17T	AGAP11_uc001kee.2_5'Flank|uc001kec.1_3'UTR	NM_006829	NP_006820	Q15847	APM2_HUMAN	adipose specific 2	17											0						GGAGGGGACCGCCCAGGAAGC	0.652													4	18					0	0	1	0	0		A	88728350	A	A	88728350	3	1	151	1	0	0	0	0	1	0	0	0	1589	1087	38	1	51	1	C10orf116	10	88728350	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1112566	88728350	46806397	2419	79584											
ATAD1	84896	broad.mit.edu	37	chr10	89574266	89574266	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catccatttgatagtaaagtAtgtcactgcaccaaatattg	14	13	6	8	0	1	1	1	1	0	0	2	1	2	1	2	0	1	3	2	0	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:89574266A>G	uc001key.1	-	1	374	c.91T>C	c.(91-93)TAC>CAC	p.Y31H	ATAD1_uc009xth.1_RNA|ATAD1_uc001kez.1_Missense_Mutation_p.Y31H	NM_032810	NP_116199	Q8NBU5	ATAD1_HUMAN	ATPase family, AAA domain containing 1	31						peroxisome	ATP binding|nucleoside-triphosphatase activity			large_intestine(1)|ovary(1)	2		all_cancers(4;6.78e-12)|Prostate(4;3.56e-12)|all_epithelial(4;5.58e-09)|Melanoma(5;0.0273)|Breast(4;0.0424)|all_hematologic(4;0.0846)|Colorectal(252;0.207)|Glioma(4;0.217)|all_neural(4;0.224)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00131)|GBM - Glioblastoma multiforme(1;1.1e-32)|Lung(2;1.4e-05)|LUSC - Lung squamous cell carcinoma(2;2.69e-05)|Colorectal(12;7.09e-05)|COAD - Colon adenocarcinoma(12;0.000261)|STAD - Stomach adenocarcinoma(243;0.235)		ATAGTAAAGTATGTCACTGCA	0.358													37	113					0	0	1	0	0		G	89574266	G	G	89574266	3	3	151	1	0	0	0	0	1	0	0	0	1071	449	16	3	1030	3	ATAD1	10	89574266	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	845916	89574266	45960481	2420	79585											
IFIT3	3437	broad.mit.edu	37	chr10	91098570	91098570	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgagttcaaagctacaaTgtacaacttgttggcctaca	13	11	7	10	0	1	1	1	1	0	0	1	1	1	1	1	1	5	4	1	1	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:91098570T>C	uc001kgf.2	+	2	387	c.158T>C	c.(157-159)ATG>ACG	p.M53T	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron|IFIT3_uc001kgg.2_Missense_Mutation_p.M53T	NM_001549	NP_001540	O14879	IFIT3_HUMAN	interferon-induced protein with	53	TPR 1.				type I interferon-mediated signaling pathway		protein binding			central_nervous_system(1)	1						AAAGCTACAATGTACAACTTG	0.413													29	153					0	0	1	0	0		C	91098570	C	C	91098570	3	2	151	1	0	0	0	0	1	0	0	0	7540	1464	51	3	173	3	IFIT3	10	91098570	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1524304	91098570	44436177	2421	79586											
HECTD2	143279	broad.mit.edu	37	chr10	93185148	93185148	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttcacctgcacatcttgtTttccctaacatcaagaatgg	11	13	6	11	0	3	1	2	0	1	1	4	1	4	1	2	1	2	3	2	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:93185148T>C	uc001khl.2	+	2	349	c.249T>C	c.(247-249)GTT>GTC	p.V83V	LOC100188947_uc010qnl.1_Intron|HECTD2_uc001khk.2_Silent_p.V83V|HECTD2_uc010qnm.1_Silent_p.V83V|HECTD2_uc001khm.2_RNA	NM_182765	NP_877497	Q5U5R9	HECD2_HUMAN	HECT domain containing 2 isoform a	83					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			skin(1)	1						CACATCTTGTTTTCCCTAACA	0.274													11	39					0	0	1	0	0		C	93185148	C	C	93185148	2	2	151	1	0	0	0	0	0	0	0	1	7056	1828	64	3		3	HECTD2	10	93185148	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2086578	93185148	42349599	2422	79587											
TNKS2	80351	broad.mit.edu	37	chr10	93596680	93596680	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctctcttttttagagggTatctcattaggtaattcaga	9	18	7	7	0	4	2	2	0	3	2	7	2	4	2	0	2	0	2	0	2	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:93596680T>C	uc001khp.2	+	13	1749	c.1452T>C	c.(1450-1452)GGT>GGC	p.G484G		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	484					positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				TTTTAGAGGGTATCTCATTAG	0.403													11	56					0	0	1	0	0		C	93596680	C	C	93596680	2	2	151	1	0	0	0	0	0	0	0	1	16346	1625	57	3		3	TNKS2	10	93596680	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	411532	93596680	41938067	2423	79588											
BTAF1	9044	broad.mit.edu	37	chr10	93740227	93740227	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagaactcttcatcttggcTtatacctatactgcctgata	10	15	5	11	0	4	2	2	1	2	1	4	2	4	2	2	1	4	1	2	1	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:93740227T>C	uc001khr.2	+	15	1765	c.1667T>C	c.(1666-1668)CTT>CCT	p.L556P	BTAF1_uc001khs.1_Missense_Mutation_p.L226P|BTAF1_uc001kht.1_5'UTR	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	556	HEAT 4.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				TCATCTTGGCTTATACCTATA	0.353													15	99					0	0	1	0	0		C	93740227	C	C	93740227	3	2	151	1	0	0	0	0	1	0	0	0	1539	1609	56	3	1725	3	BTAF1	10	93740227	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	143547	93740227	41794520	2424	79589											
CPEB3	22849	broad.mit.edu	37	chr10	93940759	93940759	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctgttcctggatgatggaAatttatccccatgcgtccta	9	14	8	10	1	1	1	0	1	1	0	4	3	4	3	4	2	1	1	4	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:93940759A>G	uc001khw.1	-	4	1356	c.1183T>C	c.(1183-1185)TTC>CTC	p.F395L	CPEB3_uc001khu.1_Missense_Mutation_p.F395L|CPEB3_uc001khv.1_Missense_Mutation_p.F372L|CPEB3_uc010qnn.1_Missense_Mutation_p.F372L	NM_014912	NP_055727	Q8NE35	CPEB3_HUMAN	cytoplasmic polyadenylation element binding	395							nucleotide binding|RNA binding				0		Colorectal(252;0.0869)				GGATGATGGAAATTTATCCCC	0.264													19	93					0	0	1	0	0		G	93940759	G	G	93940759	3	3	151	1	0	0	0	0	1	0	0	0	3805	14	1	3	968	3	CPEB3	10	93940759	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	200532	93940759	41593988	2425	79590											
MARCH5	54708	broad.mit.edu	37	chr10	94070932	94070932	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctactgatgaagatgatagaAcagctgaatgggtgagacca	15	8	12	6	0	0	7	0	5	0	3	0	8	0	7	1	1	3	1	1	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:94070932A>C	uc001khx.1	+	2	408	c.76A>C	c.(76-78)ACA>CCA	p.T26P	MARCH5_uc010qno.1_5'UTR	NM_017824	NP_060294	Q9NX47	MARH5_HUMAN	membrane-associated ring finger (C3HC4) 5	26	RING-CH-type.				cell aging|protein autoubiquitination|protein localization in mitochondrion|protein polyubiquitination|regulation of mitochondrial fission	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane	GTPase binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1						AGATGATAGAACAGCTGAATG	0.428													12	71					0	0	1	0	0		C	94070932	C	C	94070932	3	2	151	1	0	0	0	0	1	0	0	0	9322	43	2	5	82	5	MARCH5	10	94070932	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	130173	94070932	41463815	2426	79591											
CYP26A1	1592	broad.mit.edu	37	chr10	94834724	94834724	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcgaaccccaactggcGggcgacggggactccgagca	8	3	16	14	5	0	0	0	0	0	0	1	4	1	1	3	5	4	2	3	5	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:94834724G>A	uc001kil.2	+	3	648	c.603G>A	c.(601-603)GCG>GCA	p.A201A	CYP26A1_uc001kik.1_Silent_p.A132A|CYP26A1_uc001kim.1_Silent_p.A99A	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	201					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				CCCAACTGGCGGGCGACGGGG	0.652													8	44					0	0	1	0	0		A	94834724	A	A	94834724	2	1	151	1	0	0	0	0	0	0	0	1	4158	1103	39	1		1	CYP26A1	10	94834724	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	763792	94834724	40700023	2427	79592											
PDE6C	5146	broad.mit.edu	37	chr10	95399875	95399875	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaactgtacgaattccgcTtcagtgacttcccccttaca	10	11	6	14	2	1	2	1	1	0	1	3	3	3	2	3	0	3	2	3	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:95399875T>C	uc001kiu.3	+	12	1669	c.1531T>C	c.(1531-1533)TTC>CTC	p.F511L		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	511					visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				CGAATTCCGCTTCAGTGACTT	0.413													41	158					0	0	1	0	0		C	95399875	C	C	95399875	3	2	151	1	0	0	0	0	1	0	0	0	11666	1609	56	3	1577	3	PDE6C	10	95399875	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	565151	95399875	40134872	2428	79593											
PDE6C	5146	broad.mit.edu	37	chr10	95400298	95400298	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaacgtggggcagaccaTgtttactttgctgatggtag	8	13	13	7	1	1	2	1	1	0	1	1	2	1	2	1	3	3	5	1	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:95400298T>G	uc001kiu.3	+	13	1859	c.1721T>G	c.(1720-1722)ATG>AGG	p.M574R		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	574					visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				GGGCAGACCATGTTTACTTTG	0.448													34	199					0	0	1	0	0		G	95400298	G	G	95400298	3	3	151	1	0	0	0	0	1	0	0	0	11666	1464	51	5	1771	5	PDE6C	10	95400298	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	423	95400298	40134449	2429	79594											
PLCE1	51196	broad.mit.edu	37	chr10	96081696	96081696	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgttcaagatgacaaagaGgtgatcttgagctcagagga	14	10	12	5	0	3	6	2	3	1	3	3	7	3	7	0	2	1	2	0	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:96081696G>T	uc001kjk.2	+	30	7015	c.6381G>T	c.(6379-6381)GAG>GAT	p.E2127D	PLCE1_uc010qnx.1_Missense_Mutation_p.E2111D|PLCE1_uc001kjm.2_Missense_Mutation_p.E1819D|PLCE1_uc001kjp.2_Missense_Mutation_p.E485D	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	2127					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				ATGACAAAGAGGTGATCTTGA	0.388													12	66					1.49906e-05	1.51891e-05	1	1	0		T	96081696	T	T	96081696	3	4	151	1	0	0	0	0	1	0	0	0	12053	991	35	5	6781	5	PLCE1	10	96081696	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	681398	96081696	39453051	2430	79595											
HELLS	3070	broad.mit.edu	37	chr10	96306134	96306134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaagctttctcccccgtcagGctcggaggctccagcaatgg	8	8	11	14	2	2	0	1	0	1	0	5	1	3	1	3	4	2	4	3	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:96306134G>A	uc001kjt.2	+	2	137	c.32G>A	c.(31-33)GGC>GAC	p.G11D	HELLS_uc001kjs.2_5'UTR|HELLS_uc009xul.2_Missense_Mutation_p.G11D|HELLS_uc009xum.2_Missense_Mutation_p.G11D|HELLS_uc009xun.2_5'UTR|HELLS_uc009xuo.2_Missense_Mutation_p.G11D|HELLS_uc001kju.2_5'UTR|HELLS_uc009xup.2_RNA|HELLS_uc009xuq.2_5'UTR|HELLS_uc009xur.2_RNA	NM_018063	NP_060533	Q9NRZ9	HELLS_HUMAN	helicase, lymphoid-specific	11					cell division|centromeric heterochromatin formation|lymphocyte proliferation|maintenance of DNA methylation|methylation-dependent chromatin silencing|mitosis|transcription, DNA-dependent	centromeric heterochromatin|nucleus	ATP binding|DNA binding|helicase activity			ovary(1)|kidney(1)	2		Colorectal(252;0.0429)		all cancers(201;2.13e-05)		CCCCCGTCAGGCTCGGAGGCT	0.488													29	84					0	0	1	0	0		A	96306134	A	A	96306134	3	1	151	1	0	0	0	0	1	0	0	0	7062	1217	42	2	38	2	HELLS	10	96306134	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	224438	96306134	39228613	2431	79596											
CYP2C18	1562	broad.mit.edu	37	chr10	96493085	96493085	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataacatccctgacttctgTgctgcacaatgacaaagaat	15	10	6	10	0	1	3	0	2	1	1	2	3	2	3	1	0	3	2	1	0	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:96493085T>C	uc001kjv.3	+	8	1507	c.1181T>C	c.(1180-1182)GTG>GCG	p.V394A	CYP2C18_uc001kjw.3_Missense_Mutation_p.V335A|CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_5'UTR	NM_000772	NP_000763	P33260	CP2CI_HUMAN	cytochrome P450 family 2 subfamily C polypeptide	394					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(3)|lung(1)|skin(1)	5		Colorectal(252;0.09)		all cancers(201;2.8e-06)|KIRC - Kidney renal clear cell carcinoma(50;0.0646)|Kidney(138;0.0805)		CTGACTTCTGTGCTGCACAAT	0.343													41	204					0	0	1	0	0		C	96493085	C	C	96493085	3	2	151	1	0	0	0	0	1	0	0	0	4168	1696	59	3	1211	3	CYP2C18	10	96493085	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	186951	96493085	39041662	2432	79597											
ALDH18A1	5832	broad.mit.edu	37	chr10	97387227	97387227	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttacttctgaaaagaaggtAccaactttcttcccctccac	11	13	4	13	0	2	2	0	1	2	1	4	2	4	2	4	1	3	1	4	1	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:97387227A>G	uc001kkz.2	-	9	1292	c.1050T>C	c.(1048-1050)GGT>GGC	p.G350G	ALDH18A1_uc001kky.2_Silent_p.G348G|ALDH18A1_uc010qog.1_Silent_p.G239G|ALDH18A1_uc010qoh.1_Silent_p.G138G	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	350	Glutamate 5-kinase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)	AAAAGAAGGTACCAACTTTCT	0.478													42	244					0	0	1	0	0		G	97387227	G	G	97387227	2	3	151	1	0	0	0	0	0	0	0	1	489	378	14	3		3	ALDH18A1	10	97387227	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	894142	97387227	38147520	2433	79598											
ALDH18A1	5832	broad.mit.edu	37	chr10	97392721	97392721	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcattactttgtaccttctAcatctgaaagaacaatcaag	15	12	5	9	0	3	2	1	1	2	1	3	2	3	2	1	0	5	2	1	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:97392721A>G	uc001kkz.2	-	7	1045	c.803T>C	c.(802-804)GTA>GCA	p.V268A	ALDH18A1_uc001kky.2_Missense_Mutation_p.V266A|ALDH18A1_uc010qog.1_Missense_Mutation_p.V157A|ALDH18A1_uc010qoh.1_Missense_Mutation_p.V56A	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	268	Glutamate 5-kinase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)	TGTACCTTCTACATCTGAAAG	0.378													14	82					0	0	1	0	0		G	97392721	G	G	97392721	3	3	151	1	0	0	0	0	1	0	0	0	489	391	14	3	1632	3	ALDH18A1	10	97392721	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5494	97392721	38142026	2434	79599											
ENTPD1	953	broad.mit.edu	37	chr10	97607278	97607278	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtgaacgtaagtgaccttTacaagaccccctgcaccaag	13	8	8	12	1	0	3	0	2	0	1	0	3	0	3	4	0	3	2	4	0	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:97607278T>C	uc001klh.3	+	7	1213	c.889T>C	c.(889-891)TAC>CAC	p.Y297H	ENTPD1_uc001kli.3_Missense_Mutation_p.Y304H|uc001klg.1_Intron|ENTPD1_uc010qoj.1_Missense_Mutation_p.Y309H|ENTPD1_uc010qok.1_Missense_Mutation_p.Y189H|ENTPD1_uc010qol.1_Missense_Mutation_p.Y189H|ENTPD1_uc010qom.1_Intron|ENTPD1_uc010qon.1_Missense_Mutation_p.Y159H|ENTPD1_uc009xva.2_Missense_Mutation_p.Y159H|ENTPD1_uc009xuz.2_Intron	NM_001776	NP_001767	P49961	ENTP1_HUMAN	ectonucleoside triphosphate diphosphohydrolase 1	297	Extracellular (Potential).				cell adhesion	integral to plasma membrane	ATP binding			ovary(3)	3		Colorectal(252;0.0821)		Epithelial(162;1.31e-07)|all cancers(201;5.33e-06)		AAGTGACCTTTACAAGACCCC	0.418													7	185					0	0	1	0	0		C	97607278	C	C	97607278	3	2	151	1	0	0	0	0	1	0	0	0	5146	1754	61	3	1012	3	ENTPD1	10	97607278	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	214557	97607278	37927469	2435	79600											
ZNF518A	9849	broad.mit.edu	37	chr10	97916643	97916643	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtaacaatgagagtgtataTactttactgaacttgacaaa	16	13	7	5	0	0	3	0	3	0	1	0	4	0	3	0	0	4	2	0	0	8	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:97916643T>A	uc001klp.2	+	6	1421	c.564T>A	c.(562-564)TAT>TAA	p.Y188*	ZNF518A_uc001klo.1_Intron|ZNF518A_uc001klq.2_Nonsense_Mutation_p.Y188*|ZNF518A_uc001klr.2_Nonsense_Mutation_p.Y188*	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	188					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		AGAGTGTATATACTTTACTGA	0.353													78	368					0	0	1	0	0		A	97916643	A	A	97916643	4	1	151	1	0	0	0	0	0	1	0	0	17987	1413	49	5	566	5	ZNF518A	10	97916643	Nonsense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	309365	97916643	37618104	2436	79601											
ZNF518A	9849	broad.mit.edu	37	chr10	97918869	97918869	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagaacaaaaaaaaactatAattgttcagacttcaaaagg	21	9	5	6	0	3	2	3	0	0	2	3	2	3	2	0	1	2	1	0	1	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:97918869A>G	uc001klp.2	+	6	3647	c.2790A>G	c.(2788-2790)ATA>ATG	p.I930M	ZNF518A_uc001klo.1_Missense_Mutation_p.I400M|ZNF518A_uc001klq.2_Missense_Mutation_p.I930M|ZNF518A_uc001klr.2_Missense_Mutation_p.I930M	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	930					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		AAAAAACTATAATTGTTCAGA	0.348													40	94					0	0	1	0	0		G	97918869	G	G	97918869	3	3	151	1	0	0	0	0	1	0	0	0	17987	352	13	3	2792	3	ZNF518A	10	97918869	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2226	97918869	37615878	2437	79602											
ZNF518A	9849	broad.mit.edu	37	chr10	97920061	97920061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagattccatcagaactttgCggcttttcccttttagttct	8	17	6	10	1	2	2	1	0	1	2	4	2	4	2	2	1	2	2	2	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:97920061C>T	uc001klp.2	+	6	4839	c.3982C>T	c.(3982-3984)CGG>TGG	p.R1328W	ZNF518A_uc001klo.1_Missense_Mutation_p.R798W|ZNF518A_uc001klq.2_Missense_Mutation_p.R1328W|ZNF518A_uc001klr.2_Missense_Mutation_p.R1328W	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	1328					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		CAGAACTTTGCGGCTTTTCCC	0.393													25	104					0	0	1	0	0		T	97920061	T	T	97920061	3	4	151	1	0	0	0	0	1	0	0	0	17987	759	27	1	3984	1	ZNF518A	10	97920061	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1192	97920061	37614686	2438	79603											
TM9SF3	56889	broad.mit.edu	37	chr10	98287919	98287919	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttatatgcccagaaagaCgtgaagatgaaatacctaag	17	9	8	7	1	1	5	0	2	1	3	1	5	1	5	2	0	2	0	2	0	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:98287919C>T	uc001kmm.3	-	12	1627	c.1410G>A	c.(1408-1410)ACG>ACA	p.T470T	TM9SF3_uc010qot.1_Silent_p.T470T	NM_020123	NP_064508	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3 precursor	470						integral to membrane	binding				0		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		CCCAGAAAGACGTGAAGATGA	0.393													36	149					0	0	1	0	0		T	98287919	T	T	98287919	2	4	151	1	0	0	0	0	0	0	0	1	16004	523	19	1		1	TM9SF3	10	98287919	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	367858	98287919	37246828	2439	79604											
RRP12	23223	broad.mit.edu	37	chr10	99126849	99126849	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgaagcttcatgcggaagTgccgccgcatgtcatctgaa	9	9	11	12	4	3	1	2	1	1	0	4	3	4	2	3	1	3	2	3	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:99126849T>A	uc001knf.2	-	26	3135	c.2996A>T	c.(2995-2997)CAC>CTC	p.H999L	RRP12_uc001kne.2_Missense_Mutation_p.H14L|RRP12_uc009xvl.2_Missense_Mutation_p.H116L|RRP12_uc009xvm.2_Missense_Mutation_p.H717L|RRP12_uc010qou.1_Missense_Mutation_p.H938L|RRP12_uc009xvn.2_Missense_Mutation_p.H899L	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	999						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		CATGCGGAAGTGCCGCCGCAT	0.607													10	42					0	0	1	0	0		A	99126849	A	A	99126849	3	1	151	1	0	0	0	0	1	0	0	0	13711	1696	59	5	933	5	RRP12	10	99126849	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	838930	99126849	36407898	2440	79605											
RRP12	23223	broad.mit.edu	37	chr10	99132949	99132949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagcgactcacttcagcacGgtcagcctctggtaaaagga	13	7	10	11	2	4	0	3	0	1	0	4	2	4	1	1	3	3	2	1	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:99132949G>A	uc001knf.2	-	18	2174	c.2035C>T	c.(2035-2037)CGT>TGT	p.R679C	RRP12_uc009xvl.2_5'UTR|RRP12_uc009xvm.2_Missense_Mutation_p.R397C|RRP12_uc010qou.1_Missense_Mutation_p.R618C|RRP12_uc009xvn.2_Missense_Mutation_p.R579C	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	679						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		ACTTCAGCACGGTCAGCCTCT	0.607													13	59					0	0	1	0	0		A	99132949	A	A	99132949	3	1	151	1	0	0	0	0	1	0	0	0	13711	1116	39	1	1926	1	RRP12	10	99132949	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	6100	99132949	36401798	2441	79606											
RRP12	23223	broad.mit.edu	37	chr10	99148278	99148278	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatctcctggatgcagaacTtggcagtggaaatggcagca	12	8	12	9	0	1	1	0	0	1	1	2	3	1	3	1	4	3	4	1	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:99148278T>C	uc001knf.2	-	7	996	c.857A>G	c.(856-858)AAG>AGG	p.K286R	RRP12_uc009xvm.2_Intron|RRP12_uc010qou.1_Missense_Mutation_p.K225R|RRP12_uc009xvn.2_Missense_Mutation_p.K186R	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	286						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		GATGCAGAACTTGGCAGTGGA	0.582													17	64					0	0	1	0	0		C	99148278	C	C	99148278	3	2	151	1	0	0	0	0	1	0	0	0	13711	1609	56	3	3148	3	RRP12	10	99148278	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	15329	99148278	36386469	2442	79607											
UBTD1	80019	broad.mit.edu	37	chr10	99330203	99330203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctcacagaccgcacaCggctccaggagaccaagatc	12	4	10	15	2	1	3	1	0	0	3	3	4	2	3	3	2	2	4	3	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:99330203C>T	uc001knv.1	+	3	800	c.607C>T	c.(607-609)CGG>TGG	p.R203W	ANKRD2_uc001knw.2_5'Flank|ANKRD2_uc009xvu.2_5'Flank	NM_024954	NP_079230	Q9HAC8	UBTD1_HUMAN	ubiquitin domain containing 1	203	Ubiquitin-like.										0		Colorectal(252;0.162)		Epithelial(162;3.04e-10)|all cancers(201;2.86e-08)		AGACCGCACACGGCTCCAGGA	0.622													16	34					0	0	1	0	0		T	99330203	T	T	99330203	3	4	151	1	0	0	0	0	1	0	0	0	16933	527	19	1	617	1	UBTD1	10	99330203	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	181925	99330203	36204544	2443	79608											
ZFYVE27	118813	broad.mit.edu	37	chr10	99498302	99498302	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgatgcccgaggctccccTggagtctccaccttttccta	5	11	9	16	2	1	1	0	1	1	0	4	3	3	2	6	2	1	1	6	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:99498302T>C	uc001koo.2	+	2	268	c.68T>C	c.(67-69)CTG>CCG	p.L23P	ZFYVE27_uc001kon.2_Missense_Mutation_p.L23P|ZFYVE27_uc001koq.2_Missense_Mutation_p.L23P|ZFYVE27_uc010qpa.1_Missense_Mutation_p.L23P|ZFYVE27_uc001kop.2_Missense_Mutation_p.L23P|ZFYVE27_uc010qpb.1_Intron|ZFYVE27_uc010qpc.1_RNA|ZFYVE27_uc010qpd.1_Missense_Mutation_p.L23P|ZFYVE27_uc001kok.1_RNA|ZFYVE27_uc001kol.1_Missense_Mutation_p.L23P|ZFYVE27_uc001kom.1_Missense_Mutation_p.L23P	NM_144588	NP_653189	Q5T4F4	ZFY27_HUMAN	zinc finger, FYVE domain containing 27 isoform	23	Cytoplasmic (Potential).				cell death|nerve growth factor receptor signaling pathway|neuron projection development|protein localization in plasma membrane	axon|dendrite|endoplasmic reticulum membrane|growth cone membrane|integral to membrane|recycling endosome membrane	metal ion binding|protein binding			ovary(1)	1		Colorectal(252;0.0846)		Epithelial(162;7.08e-10)|all cancers(201;5.18e-08)		GAGGCTCCCCTGGAGTCTCCA	0.488													37	133					0	0	1	0	0		C	99498302	C	C	99498302	3	2	151	1	0	0	0	0	1	0	0	0	17694	1580	55	3	70	3	ZFYVE27	10	99498302	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	168099	99498302	36036445	2444	79609											
LOXL4	84171	broad.mit.edu	37	chr10	100012116	100012116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggaaaccacatacctgtggGgcagtttgtgtcctccagac	10	9	11	11	0	0	1	0	0	0	1	2	2	2	2	4	3	2	2	4	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:100012116G>A	uc001kpa.1	-	12	2096	c.1945C>T	c.(1945-1947)CCC>TCC	p.P649S		NM_032211	NP_115587	Q96JB6	LOXL4_HUMAN	lysyl oxidase-like 4 precursor	649	Lysyl-oxidase like.					extracellular space|membrane	copper ion binding|protein binding|scavenger receptor activity			ovary(3)|breast(1)|skin(1)	5		Colorectal(252;0.234)		Epithelial(162;2.14e-11)|all cancers(201;2.49e-09)		ATACCTGTGGGGCAGTTTGTG	0.537													8	230					0	0	1	0	0		A	100012116	A	A	100012116	3	1	151	1	0	0	0	0	1	0	0	0	8920	1232	43	4	341	4	LOXL4	10	100012116	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	513814	100012116	35522631	2445	79610											
PYROXD2	84795	broad.mit.edu	37	chr10	100167720	100167720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catggcgcctctcgaagacgGcggtgttcacccccagtctc	6	8	11	16	4	3	1	1	0	2	1	5	2	3	1	3	3	0	1	3	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:100167720G>A	uc001kpc.2	-	3	268	c.182C>T	c.(181-183)GCC>GTC	p.A61V	PYROXD2_uc001kpb.2_RNA|PYROXD2_uc001kpd.2_RNA|PYROXD2_uc010qpe.1_Missense_Mutation_p.A61V	NM_032709	NP_116098	Q8N2H3	PYRD2_HUMAN	pyridine nucleotide-disulphide oxidoreductase	61	FAD (Potential).						oxidoreductase activity			central_nervous_system(1)	1						CTCGAAGACGGCGGTGTTCAC	0.627													3	17					0	0	1	0	0		A	100167720	A	A	100167720	3	1	151	1	0	0	0	0	1	0	0	0	12892	1203	42	2	1619	2	PYROXD2	10	100167720	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	155604	100167720	35367027	2446	79611											
SLC25A28	81894	broad.mit.edu	37	chr10	101373648	101373648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacacattgcgatagcgggCagctgggtcaggctgtagac	10	7	14	10	2	1	1	1	0	0	1	1	2	1	1	0	3	4	4	0	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:101373648C>T	uc001kpx.2	-	2	454	c.325G>A	c.(325-327)GCC>ACC	p.A109T	SLC25A28_uc001kpy.2_5'UTR|SLC25A28_uc009xwk.1_Missense_Mutation_p.A109T	NM_031212	NP_112489	Q96A46	MFRN2_HUMAN	solute carrier family 25, member 28	109	Solcar 1.				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Colorectal(252;0.234)		Epithelial(162;2.57e-10)|all cancers(201;2.01e-08)		CGATAGCGGGCAGCTGGGTCA	0.572													5	31					0	0	1	0	0		T	101373648	T	T	101373648	3	4	151	1	0	0	0	0	1	0	0	0	14516	710	25	2	781	2	SLC25A28	10	101373648	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1205928	101373648	34161099	2447	79612											
ABCC2	1244	broad.mit.edu	37	chr10	101567244	101567244	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttagtcaactacagtgtgTagtaatattcgtcttccagt	10	16	7	8	1	2	0	1	0	1	0	4	0	3	0	1	0	2	2	1	0	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:101567244T>C	uc001kqf.2	+	12	1773	c.1634T>C	c.(1633-1635)GTA>GCA	p.V545A		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	545	ABC transmembrane type-1 1.|Helical; Name=10; (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	CTACAGTGTGTAGTAATATTC	0.478													8	176					0	0	1	0	0		C	101567244	C	C	101567244	3	2	151	1	0	0	0	0	1	0	0	0	53	1638	57	3	1680	3	ABCC2	10	101567244	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	193596	101567244	33967503	2448	79613											
ABCC2	1244	broad.mit.edu	37	chr10	101591749	101591749	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaggtatatttgtgttcaTagcacatttctggagtgcct	8	17	9	7	0	3	0	1	0	2	0	3	1	3	1	1	2	2	3	1	2	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:101591749T>C	uc001kqf.2	+	23	3258	c.3119T>C	c.(3118-3120)ATA>ACA	p.I1040T		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	1040	ABC transmembrane type-1 2.|Helical; Name=13; (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TTTGTGTTCATAGCACATTTC	0.433													42	215					0	0	1	0	0		C	101591749	C	C	101591749	3	2	151	1	0	0	0	0	1	0	0	0	53	1406	49	3	3209	3	ABCC2	10	101591749	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	24505	101591749	33942998	2449	79614											
DNMBP	23268	broad.mit.edu	37	chr10	101656041	101656041	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgaggagcaaagccagTgagatgcttcaggtgactgc	11	7	13	10	0	1	3	1	3	0	1	1	5	1	4	2	2	4	2	2	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:101656041T>C	uc001kqj.2	-	10	3126	c.3034A>G	c.(3034-3036)ACT>GCT	p.T1012A	DNMBP_uc010qpl.1_Intron|DNMBP_uc001kqg.2_Missense_Mutation_p.T300A|DNMBP_uc001kqh.2_Missense_Mutation_p.T644A	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	1012	BAR.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		GCAAAGCCAGTGAGATGCTTC	0.488													14	65					0	0	1	0	0		C	101656041	C	C	101656041	3	2	151	1	0	0	0	0	1	0	0	0	4680	1696	59	3	1731	3	DNMBP	10	101656041	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	64292	101656041	33878706	2450	79615											
SEC31B	25956	broad.mit.edu	37	chr10	102249885	102249885	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggggtgtgggagaccatgcGgccgggacctagtggtctca	6	8	18	9	2	1	1	1	0	1	1	2	3	1	2	3	6	1	0	3	6	1	1	rs146812157	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:102249885G>A	uc001krc.1	-	21	2947	c.2845C>T	c.(2845-2847)CGC>TGC	p.R949C	SEC31B_uc010qpo.1_Missense_Mutation_p.R948C|SEC31B_uc001krd.1_Missense_Mutation_p.R486C|SEC31B_uc001krf.1_Intron|SEC31B_uc001kre.1_Intron	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B	949	Pro-rich.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		GAGACCATGCGGCCGGGACCT	0.627													21	84					0	0	1	0	0		A	102249885	A	A	102249885	3	1	151	1	0	0	0	0	1	0	0	0	14024	1116	39	1	718	1	SEC31B	10	102249885	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	593844	102249885	33284862	2451	79616											
FAM178A	55719	broad.mit.edu	37	chr10	102690834	102690834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgttaaagtggctgtttcGggtaagaggaatgtttagag	10	14	15	2	1	0	2	0	0	0	2	1	3	0	3	0	3	0	5	0	3	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:102690834G>A	uc001krt.3	+	9	2977	c.2435G>A	c.(2434-2436)CGG>CAG	p.R812Q	FAM178A_uc001krs.2_Missense_Mutation_p.R812Q	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	812											0						TGGCTGTTTCGGGTAAGAGGA	0.363													46	144					0	0	1	0	0		A	102690834	A	A	102690834	3	1	151	1	0	0	0	0	1	0	0	0	5514	1130	39	1	2469	1	FAM178A	10	102690834	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	440949	102690834	32843913	2452	79617											
FBXW4	6468	broad.mit.edu	37	chr10	103371117	103371117	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagatgcttggtggtgagAcgcaggcagtacacagggct	10	8	16	7	1	0	2	0	1	0	2	0	4	0	2	0	4	2	5	0	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:103371117A>G	uc001kto.2	-	9	1516	c.1170T>C	c.(1168-1170)CGT>CGC	p.R390R		NM_022039	NP_071322	P57775	FBXW4_HUMAN	F-box and WD repeat domain containing 4	390					ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	ubiquitin ligase complex				skin(1)	1		Colorectal(252;0.123)		Epithelial(162;4.35e-08)|all cancers(201;1.92e-06)		TGGTGGTGAGACGCAGGCAGT	0.597													17	75					0	0	1	0	0		G	103371117	G	G	103371117	2	3	151	1	0	0	0	0	0	0	0	1	5781	262	10	3		3	FBXW4	10	103371117	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	680283	103371117	32163630	2453	79618											
MGEA5	10724	broad.mit.edu	37	chr10	103551111	103551111	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaaatacttatcacatacTtgtctccaataagatcaggc	14	12	4	11	0	3	1	2	0	1	1	5	1	4	1	2	1	2	0	2	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:103551111T>A	uc001ktv.2	-	13	2704	c.2261A>T	c.(2260-2262)AAG>ATG	p.K754M	MGEA5_uc001ktu.2_RNA|MGEA5_uc010qqe.1_Missense_Mutation_p.K701M|MGEA5_uc009xws.2_Missense_Mutation_p.K687M	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	754	Histone acetyltransferase activity (By similarity).|Required for histone H4 binding (By similarity).				glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		TATCACATACTTGTCTCCAAT	0.363													18	102					0	0	1	0	0		A	103551111	A	A	103551111	3	1	151	1	0	0	0	0	1	0	0	0	9573	1623	56	5	505	5	MGEA5	10	103551111	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	179994	103551111	31983636	2454	79619											
MGEA5	10724	broad.mit.edu	37	chr10	103553747	103553747	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaattgtgctgaagaatgacTacgacaccctgttgagatca	13	10	10	8	1	1	4	1	3	0	2	1	7	1	4	1	0	2	2	1	0	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:103553747T>C	uc001ktv.2	-	11	2436	c.1993A>G	c.(1993-1995)AGT>GGT	p.S665G	MGEA5_uc001ktu.2_Intron|MGEA5_uc010qqe.1_Missense_Mutation_p.S612G|MGEA5_uc009xws.2_Missense_Mutation_p.S612G	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	665	Histone acetyltransferase activity (By similarity).				glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		GAAGAATGACTACGACACCCT	0.458													49	241					0	0	1	0	0		C	103553747	C	C	103553747	3	2	151	1	0	0	0	0	1	0	0	0	9573	1522	53	3	781	3	MGEA5	10	103553747	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2636	103553747	31981000	2455	79620											
MGEA5	10724	broad.mit.edu	37	chr10	103560141	103560141	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttatctggatggacacagtActatcttcactgtcagctgc	9	14	8	10	0	4	0	2	0	2	0	4	2	4	2	0	2	3	2	0	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:103560141A>G	uc001ktv.2	-	8	1496	c.1053T>C	c.(1051-1053)AGT>AGC	p.S351S	MGEA5_uc001ktu.2_5'Flank|MGEA5_uc010qqe.1_Intron|MGEA5_uc009xws.2_Intron|MGEA5_uc001ktw.2_Silent_p.S351S|MGEA5_uc009xwt.2_Silent_p.S114S	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	351					glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		TGGACACAGTACTATCTTCAC	0.328													18	114					0	0	1	0	0		G	103560141	G	G	103560141	2	3	151	1	0	0	0	0	0	0	0	1	9573	388	14	3		3	MGEA5	10	103560141	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6394	103560141	31974606	2456	79621											
PITX3	5309	broad.mit.edu	37	chr10	103990855	103990855	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcgccggttcttgaaccAcacctgcgggcacgggagaa	8	5	15	13	5	1	2	0	1	1	1	1	3	1	2	3	4	2	2	3	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:103990855A>G	uc001kuu.1	-	4	479	c.325T>C	c.(325-327)TGG>CGG	p.W109R		NM_005029	NP_005020	O75364	PITX3_HUMAN	paired-like homeodomain 3	109	Homeobox.				dopaminergic neuron differentiation|lens morphogenesis in camera-type eye|midbrain development|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Colorectal(252;0.00957)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		TTCTTGAACCACACCTGCGGG	0.751													5	5					0	0	1	0	0		G	103990855	G	G	103990855	3	3	151	1	0	0	0	0	1	0	0	0	11975	159	6	3	587	3	PITX3	10	103990855	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	430714	103990855	31543892	2457	79622											
GBF1	8729	broad.mit.edu	37	chr10	104127249	104127249	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaggagtttcgcaaaaaTctgaaaggtgtgaatggagg	13	10	13	5	1	2	2	0	2	2	0	3	4	2	4	0	4	0	2	0	4	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:104127249T>A	uc001kux.1	+	21	2811	c.2571T>A	c.(2569-2571)AAT>AAA	p.N857K	GBF1_uc001kuy.1_Missense_Mutation_p.N857K|GBF1_uc001kuz.1_Missense_Mutation_p.N858K	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	857	SEC7.				COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		TTCGCAAAAATCTGAAAGGTG	0.448													10	66					0	0	1	0	0		A	104127249	A	A	104127249	3	1	151	1	0	0	0	0	1	0	0	0	6286	1432	50	5	2649	5	GBF1	10	104127249	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	136394	104127249	31407498	2458	79623											
GBF1	8729	broad.mit.edu	37	chr10	104129053	104129053	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccatttggcccatcgtcAtggtgacatcctgcgggagg	7	11	12	11	2	1	1	1	1	0	0	4	2	3	2	3	4	1	0	3	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:104129053A>G	uc001kux.1	+	24	3296	c.3056A>G	c.(3055-3057)CAT>CGT	p.H1019R	GBF1_uc001kuy.1_Missense_Mutation_p.H1019R|GBF1_uc001kuz.1_Missense_Mutation_p.H1020R	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1019					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		GCCCATCGTCATGGTGACATC	0.498													37	110					0	0	1	0	0		G	104129053	G	G	104129053	3	3	151	1	0	0	0	0	1	0	0	0	6286	217	8	3	3146	3	GBF1	10	104129053	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1804	104129053	31405694	2459	79624											
GBF1	8729	broad.mit.edu	37	chr10	104129985	104129985	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcctccagctggagtcaCtacaggagctcatgaaggta	11	9	11	10	0	2	1	2	1	0	0	4	3	4	3	2	3	3	4	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:104129985C>T	uc001kux.1	+	27	3631	c.3391C>T	c.(3391-3393)CTA>TTA	p.L1131L	GBF1_uc001kuy.1_Silent_p.L1131L|GBF1_uc001kuz.1_Silent_p.L1132L	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1131					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		GCTGGAGTCACTACAGGAGCT	0.473													64	251					0	0	1	0	0		T	104129985	T	T	104129985	2	4	151	1	0	0	0	0	0	0	0	1	6286	564	20	4		4	GBF1	10	104129985	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	932	104129985	31404762	2460	79625											
CUEDC2	79004	broad.mit.edu	37	chr10	104183602	104183602	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccttttgggggcctctgagGcgtctgggcaggtcctgcag	3	11	16	11	1	2	1	0	1	2	0	4	1	4	1	3	5	1	2	3	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:104183602G>A	uc001kvn.2	-	7	760	c.609C>T	c.(607-609)CGC>CGT	p.R203R	CUEDC2_uc001kvm.2_5'Flank	NM_024040	NP_076945	Q9H467	CUED2_HUMAN	CUE domain containing 2	203						cytoplasm|nucleus	protein binding				0		Colorectal(252;0.122)		Epithelial(162;9.17e-09)|all cancers(201;2.16e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		GGCCTCTGAGGCGTCTGGGCA	0.537													8	41					0	0	1	0	0		A	104183602	A	A	104183602	2	1	151	1	0	0	0	0	0	0	0	1	4056	1190	42	2		2	CUEDC2	10	104183602	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	53617	104183602	31351145	2461	79626											
SUFU	51684	broad.mit.edu	37	chr10	104268964	104268964	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggactatgttagcatgtAcaggaatgtggggagccctt	9	12	13	7	0	0	0	0	0	0	0	0	3	0	3	1	4	3	3	1	4	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:104268964A>G	uc001kvy.1	+	2	367	c.221A>G	c.(220-222)TAC>TGC	p.Y74C	SUFU_uc001kvw.1_Missense_Mutation_p.Y74C|SUFU_uc001kvx.2_Missense_Mutation_p.Y74C	NM_016169	NP_057253	Q9UMX1	SUFU_HUMAN	suppressor of fused	74					negative regulation of transcription from RNA polymerase II promoter|proteolysis|skeletal system development	cytoplasm|nucleus	identical protein binding|protein binding|signal transducer activity|transcription corepressor activity|transcription factor binding			central_nervous_system(4)|skin(2)|breast(1)	7		Colorectal(252;0.207)		Epithelial(162;1.36e-08)|all cancers(201;3.81e-07)|BRCA - Breast invasive adenocarcinoma(275;0.242)		GTTAGCATGTACAGGaatgtg	0.259			D|F|S		medulloblastoma	medulloblastoma			Medulloblastoma_associated_with_Germline_SUFU_Mutation				27	163					0	0	1	0	0		G	104268964	G	G	104268964	3	3	151	1	0	0	0	0	1	0	0	0	15393	391	14	3	227	3	SUFU	10	104268964	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	85362	104268964	31265783	2462	79627											
SUFU	51684	broad.mit.edu	37	chr10	104389822	104389822	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgcttgctccctccacaGttcaaacttcccaaagagta	10	11	6	14	0	1	1	1	0	0	1	4	1	4	1	3	0	3	4	3	0	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:104389822G>A	uc001kvy.1	+	12	1512	c.1366_splice	c.e12-1	p.F456_splice	SUFU_uc009xxe.1_Splice_Site|SUFU_uc009xxf.1_Splice_Site	NM_016169	NP_057253	Q9UMX1	SUFU_HUMAN	suppressor of fused						negative regulation of transcription from RNA polymerase II promoter|proteolysis|skeletal system development	cytoplasm|nucleus	identical protein binding|protein binding|signal transducer activity|transcription corepressor activity|transcription factor binding			central_nervous_system(4)|skin(2)|breast(1)	7		Colorectal(252;0.207)		Epithelial(162;1.36e-08)|all cancers(201;3.81e-07)|BRCA - Breast invasive adenocarcinoma(275;0.242)		TCCCTCCACAGTTCAAACTTC	0.562			D|F|S		medulloblastoma	medulloblastoma			Medulloblastoma_associated_with_Germline_SUFU_Mutation				48	199					0	0	1	0	0		A	104389822	A	A	104389822	5	1	151	1	0	0	0	0	0	0	1	0	15393	1043	36	4	1421	4	SUFU	10	104389822	Splice_Site	SNP	G	TCGA-CG-5721-01A-11D-1600-08	120858	104389822	31144925	2463	79628											
C10orf26	54838	broad.mit.edu	37	chr10	104557834	104557834	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacagtctcagtgctgcaacTactactatgaactctggtgt	10	12	9	10	0	2	1	1	1	2	0	3	2	2	1	0	1	6	2	0	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:104557834T>C	uc001kwe.3	+	2	372	c.112T>C	c.(112-114)TAC>CAC	p.Y38H	C10orf26_uc001kwf.3_Missense_Mutation_p.Y59H|C10orf26_uc009xxg.1_RNA	NM_017787	NP_060257	Q9NX94	OPA1L_HUMAN	hypothetical protein LOC54838 isoform 2	38						integral to membrane				central_nervous_system(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;6.14e-09)|all cancers(201;1.66e-07)|BRCA - Breast invasive adenocarcinoma(275;0.224)		GTGCTGCAACTACTACTATGA	0.473													18	75					0	0	1	0	0		C	104557834	C	C	104557834	3	2	151	1	0	0	0	0	1	0	0	0	1602	1522	53	3	212	3	C10orf26	10	104557834	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	168012	104557834	30976913	2464	79629											
AS3MT	57412	broad.mit.edu	37	chr10	104638614	104638614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctatttttaggtgactgtCgttttgtttctgcaacattt	6	22	7	6	1	2	1	0	1	2	0	3	1	2	1	0	1	2	3	0	1	3	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:104638614C>T	uc001kwk.2	+	9	891	c.751C>T	c.(751-753)CGT>TGT	p.R251C	AS3MT_uc001kwj.2_Missense_Mutation_p.R253C|AS3MT_uc009xxh.2_Missense_Mutation_p.R251C	NM_020682	NP_065733	Q9HBK9	AS3MT_HUMAN	arsenic (+3 oxidation state) methyltransferase	251					arsonoacetate metabolic process|toxin metabolic process	cytosol	arsenite methyltransferase activity|methylarsonite methyltransferase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;5.87e-09)|all cancers(201;1.58e-07)|BRCA - Breast invasive adenocarcinoma(275;0.223)		AGGTGACTGTCGTTTTGTTTC	0.413													28	107					0	0	1	0	0		T	104638614	T	T	104638614	3	4	151	1	0	0	0	0	1	0	0	0	1006	884	31	1	785	1	AS3MT	10	104638614	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	80780	104638614	30896133	2465	79630											
USMG5	84833	broad.mit.edu	37	chr10	105151956	105151956	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaacttcttaccatttatgTtgctttcacagctggagttt	8	18	6	9	0	3	0	2	0	1	0	3	1	3	1	1	1	4	4	1	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:105151956T>C	uc001kww.1	-	4	435	c.172A>G	c.(172-174)ACA>GCA	p.T58A	USMG5_uc001kwx.1_RNA	NM_032747	NP_116136	Q96IX5	USMG5_HUMAN	upregulated during skeletal muscle growth 5	58						integral to membrane					0		Colorectal(252;0.142)		Epithelial(162;3.94e-09)|all cancers(201;2.76e-08)|BRCA - Breast invasive adenocarcinoma(275;0.197)		ACCATTTATGTTGCTTTCACA	0.308													21	76					0	0	1	0	0		C	105151956	C	C	105151956	3	2	151	1	0	0	0	0	1	0	0	0	17064	1725	60	3	8	3	USMG5	10	105151956	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	513342	105151956	30382791	2466	79631											
CALHM1	255022	broad.mit.edu	37	chr10	105217967	105217967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctcacctgggagatgcagCggaggtaacgcacggccacc	9	4	13	15	3	1	1	1	0	0	1	1	3	1	2	4	4	3	3	4	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:105217967C>T	uc001kxe.2	-	1	682	c.542G>A	c.(541-543)CGC>CAC	p.R181H		NM_001001412	NP_001001412	Q8IU99	CAHM1_HUMAN	calcium homeostasis modulator 1	181						endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel activity|identical protein binding			ovary(1)	1						GGAGATGCAGCGGAGGTAACG	0.677													9	44					0	0	1	0	0		T	105217967	T	T	105217967	3	4	151	1	0	0	0	0	1	0	0	0	2585	768	27	1	506	1	CALHM1	10	105217967	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	66011	105217967	30316780	2467	79632											
C10orf79	80217	broad.mit.edu	37	chr10	105920859	105920859	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcataatctttgaattgtTttctttcttcttcagtccac	7	21	3	10	0	6	1	2	1	5	0	8	1	7	1	1	0	0	1	1	0	2	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:105920859T>C	uc001kxw.2	-	27	3592	c.3476A>G	c.(3475-3477)AAA>AGA	p.K1159R	C10orf79_uc009xxq.2_Missense_Mutation_p.K467R	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1159	Potential.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TTTGAATTGTTTTCTTTCTTC	0.328													6	108					0	0	1	0	0		C	105920859	C	C	105920859	3	2	151	1	0	0	0	0	1	0	0	0	1621	1841	64	3	1569	3	C10orf79	10	105920859	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	702892	105920859	29613888	2468	79633											
SHOC2	8036	broad.mit.edu	37	chr10	112769489	112769489	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaattagtcttgacaaacAaccagttgaccactcttccc	14	10	5	12	0	2	3	0	2	2	1	3	3	3	3	3	0	2	1	3	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:112769489A>G	uc001kzl.3	+	8	1790	c.1441A>G	c.(1441-1443)AAC>GAC	p.N481D	SHOC2_uc009xxx.2_Missense_Mutation_p.N481D|SHOC2_uc010qrg.1_Missense_Mutation_p.N120D|SHOC2_uc001kzn.2_Missense_Mutation_p.N435D	NM_007373	NP_031399	Q9UQ13	SHOC2_HUMAN	soc-2 suppressor of clear homolog	481	LRR 17.				fibroblast growth factor receptor signaling pathway|positive regulation of Ras protein signal transduction|Ras protein signal transduction	nucleus|protein phosphatase type 1 complex	protein phosphatase binding|protein phosphatase regulator activity			ovary(1)|skin(1)	2				Epithelial(162;0.000796)|all cancers(201;0.011)|BRCA - Breast invasive adenocarcinoma(275;0.126)		CTTGACAAACAACCAGTTGAC	0.343													22	85					0	0	1	0	0		G	112769489	G	G	112769489	3	3	151	1	0	0	0	0	1	0	0	0	14312	130	5	3	1467	3	SHOC2	10	112769489	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6848630	112769489	22765258	2469	79634											
GPAM	57678	broad.mit.edu	37	chr10	113935430	113935430	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacatctcgctcttgaataAaaagaacgtaagaaaggcgt	16	8	9	8	3	2	3	0	1	2	2	3	3	2	3	0	1	1	3	0	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:113935430A>G	uc009xxy.1	-	6	539	c.341T>C	c.(340-342)TTT>TCT	p.F114S	GPAM_uc001kzp.2_Missense_Mutation_p.F114S|GPAM_uc001kzq.1_Missense_Mutation_p.F114S	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate	114					phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		CTCTTGAATAAAAAGAACGTA	0.448													42	109					0	0	1	0	0		G	113935430	G	G	113935430	3	3	151	1	0	0	0	0	1	0	0	0	6603	14	1	3	2213	3	GPAM	10	113935430	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1165941	113935430	21599317	2470	79635											
GPAM	57678	broad.mit.edu	37	chr10	113937763	113937763	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtgtgagtttcattgataTaaataacattccgcaaaccc	13	14	6	8	1	1	2	1	2	0	0	2	2	2	2	2	0	2	2	2	0	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:113937763T>C	uc009xxy.1	-	5	476	c.278A>G	c.(277-279)TAT>TGT	p.Y93C	GPAM_uc001kzp.2_Missense_Mutation_p.Y93C|GPAM_uc001kzq.1_Missense_Mutation_p.Y93C	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate	93					phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		TTCATTGATATAAATAACATT	0.289													21	92					0	0	1	0	0		C	113937763	C	C	113937763	3	2	151	1	0	0	0	0	1	0	0	0	6603	1406	49	3	2280	3	GPAM	10	113937763	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2333	113937763	21596984	2471	79636											
TDRD1	56165	broad.mit.edu	37	chr10	115980582	115980582	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taataaacatgagcttcaagTtcatgtacagggacttcaag	15	11	8	7	0	3	1	3	1	0	0	3	2	3	2	0	1	3	3	0	1	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:115980582T>C	uc001lbg.1	+	19	2903	c.2750T>C	c.(2749-2751)GTT>GCT	p.V917A	TDRD1_uc001lbf.2_Missense_Mutation_p.V794A|TDRD1_uc001lbh.1_Missense_Mutation_p.V908A|TDRD1_uc001lbi.1_Missense_Mutation_p.V908A|TDRD1_uc010qsc.1_Missense_Mutation_p.V521A|TDRD1_uc001lbj.2_Missense_Mutation_p.V626A	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	917					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		GAGCTTCAAGTTCATGTACAG	0.299													34	120					0	0	1	0	0		C	115980582	C	C	115980582	3	2	151	1	0	0	0	0	1	0	0	0	15755	1725	60	3	2820	3	TDRD1	10	115980582	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2042819	115980582	19554165	2472	79637											
VWA2	340706	broad.mit.edu	37	chr10	116046098	116046098	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggttgcgggcccagcgcgTcacgcaagggcgcgagagct	7	4	18	12	6	1	1	1	0	0	1	1	3	1	1	1	3	3	3	1	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:116046098T>C	uc001lbl.1	+	11	1719	c.1398T>C	c.(1396-1398)CGT>CGC	p.R466R	VWA2_uc001lbk.1_Silent_p.R466R|VWA2_uc009xyf.1_Silent_p.R162R	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	466	VWFA 2.					extracellular region		p.R466H(1)		ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		GCCCAGCGCGTCACGCAAGGG	0.647													4	75					0	0	1	0	0		C	116046098	C	C	116046098	2	2	151	1	0	0	0	0	0	0	0	1	17265	1654	58	3		3	VWA2	10	116046098	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	65516	116046098	19488649	2473	79638											
FAM160B1	57700	broad.mit.edu	37	chr10	116602927	116602927	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgccagaggcctcggttgTttgtccaaatcaggattaca	10	11	10	10	1	1	1	1	0	0	1	3	2	2	2	3	3	2	2	3	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:116602927T>C	uc001lcb.2	+	6	1093	c.758T>C	c.(757-759)GTT>GCT	p.V253A	FAM160B1_uc001lcc.2_Missense_Mutation_p.V253A	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	253										lung(1)	1						GCCTCGGTTGTTTGTCCAAAT	0.423													51	177					0	0	1	0	0		C	116602927	C	C	116602927	3	2	151	1	0	0	0	0	1	0	0	0	5481	1725	60	3	780	3	FAM160B1	10	116602927	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	556829	116602927	18931820	2474	79639											
FAM160B1	57700	broad.mit.edu	37	chr10	116603563	116603563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtaagtttgccagagcctGcggctgcaaagtgccttaca	10	10	11	10	1	0	1	0	0	0	1	0	1	0	1	3	1	6	4	3	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:116603563G>A	uc001lcb.2	+	7	1215	c.880G>A	c.(880-882)GCG>ACG	p.A294T	FAM160B1_uc001lcc.2_Missense_Mutation_p.A294T	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	294										lung(1)	1						GCCAGAGCCTGCGGCTGCAAA	0.473													16	64					0	0	1	0	0		A	116603563	A	A	116603563	3	1	151	1	0	0	0	0	1	0	0	0	5481	1319	46	2	906	2	FAM160B1	10	116603563	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	636	116603563	18931184	2475	79640											
TRUB1	142940	broad.mit.edu	37	chr10	116731926	116731926	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaaagatggacaaagacTttcgactttgatgaagagag	18	8	11	4	1	0	6	0	2	0	4	1	9	0	7	0	1	0	0	0	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:116731926T>C	uc001lcd.2	+	6	690	c.629T>C	c.(628-630)CTT>CCT	p.L210P	TRUB1_uc010qsl.1_Missense_Mutation_p.L112P	NM_139169	NP_631908	Q8WWH5	TRUB1_HUMAN	TruB pseudouridine (psi) synthase homolog 1	210					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding				0		Colorectal(252;0.09)|Breast(234;0.174)|Lung NSC(174;0.245)		Epithelial(162;0.00879)|all cancers(201;0.0243)		GGACAAAGACTTTCGACTTTG	0.418													26	122					0	0	1	0	0		C	116731926	C	C	116731926	3	2	151	1	0	0	0	0	1	0	0	0	16628	1609	56	3	651	3	TRUB1	10	116731926	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	128363	116731926	18802821	2476	79641											
ATRNL1	26033	broad.mit.edu	37	chr10	116930924	116930924	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgttcttggacatggtcagCagtatgctgtggagggacat	8	12	14	7	0	2	0	1	0	1	0	2	3	2	3	0	4	2	4	0	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:116930924C>T	uc001lcg.2	+	8	1608	c.1222C>T	c.(1222-1224)CAG>TAG	p.Q408*	ATRNL1_uc001lce.2_RNA|ATRNL1_uc001lcf.2_Nonsense_Mutation_p.Q408*|ATRNL1_uc009xyq.2_Silent_p.S378S	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	408	Kelch 2.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		ACATGGTCAGCAGTATGCTGT	0.363													55	249					0	0	1	0	0		T	116930924	T	T	116930924	4	4	151	1	0	0	0	0	0	1	0	0	1208	711	25	2	1252	2	ATRNL1	10	116930924	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	198998	116930924	18603823	2477	79642											
GFRA1	2674	broad.mit.edu	37	chr10	117884972	117884972	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggacacgctggtggtgcacGgggtgatgtacgccgacctg	6	8	17	10	4	0	1	0	1	0	0	0	3	0	2	2	5	2	3	2	5	1	1	rs77730201		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:117884972G>T	uc001lcj.2	-	6	1228	c.530C>A	c.(529-531)CCG>CAG	p.P177Q	GFRA1_uc001lci.2_Missense_Mutation_p.P172Q|GFRA1_uc009xyr.2_Missense_Mutation_p.P172Q	NM_005264	NP_005255	P56159	GFRA1_HUMAN	GDNF family receptor alpha 1 isoform a	177	2.				axon guidance	anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity			ovary(1)|pancreas(1)	2		Lung NSC(174;0.21)		all cancers(201;0.0337)		GGTGGTGCACGGGGTGATGTA	0.592													9	39					0.00448238	0.00451229	1	1	0		T	117884972	T	T	117884972	3	4	151	1	0	0	0	0	1	0	0	0	6362	1116	39	5	891	5	GFRA1	10	117884972	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	954048	117884972	17649775	2478	79643											
HSPA12A	259217	broad.mit.edu	37	chr10	118439100	118439100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagggcagggtgatgttcagCgggttagttctgtctggggc	6	11	18	6	1	3	1	1	1	2	0	3	1	3	1	0	5	1	4	0	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:118439100C>T	uc001lct.2	-	10	1305	c.1200G>A	c.(1198-1200)CCG>CCA	p.P400P	HSPA12A_uc001lcu.2_Silent_p.P317P	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	400							ATP binding			ovary(1)	1				all cancers(201;0.0158)		TGATGTTCAGCGGGTTAGTTC	0.512													29	107					0	0	1	0	0		T	118439100	T	T	118439100	2	4	151	1	0	0	0	0	0	0	0	1	7420	755	27	1		1	HSPA12A	10	118439100	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	554128	118439100	17095647	2479	79644											
PDZD8	118987	broad.mit.edu	37	chr10	119043331	119043331	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgttgtctgacgtgttgggTgtgtgttttggtgaaggttc	3	18	16	4	2	1	2	0	2	1	0	3	2	1	2	0	3	0	4	0	3	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:119043331T>C	uc001lde.1	-	5	3112	c.2913A>G	c.(2911-2913)ACA>ACG	p.T971T		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	971					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		ACGTGTTGGGTGTGTGTTTTG	0.438													115	501					0	0	1	0	0		C	119043331	C	C	119043331	2	2	151	1	0	0	0	0	0	0	0	1	11724	1683	59	3		3	PDZD8	10	119043331	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	604231	119043331	16491416	2480	79645											
PDZD8	118987	broad.mit.edu	37	chr10	119043801	119043801	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aacttcttcaaccaaatgggGttctttttctttttctacgt	8	19	5	9	1	5	0	1	0	4	0	5	0	5	0	1	2	3	1	1	2	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:119043801G>A	uc001lde.1	-	5	2642	c.2443C>T	c.(2443-2445)CCC>TCC	p.P815S		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	815					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		ACCAAATGGGGTTCTTTTTCT	0.353													31	144					0	0	1	0	0		A	119043801	A	A	119043801	3	1	151	1	0	0	0	0	1	0	0	0	11724	1261	44	4	1025	4	PDZD8	10	119043801	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	470	119043801	16490946	2481	79646											
RAB11FIP2	22841	broad.mit.edu	37	chr10	119798815	119798815	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgttgcaaatttttggggTaatgaagcagtcacatttgt	11	15	11	4	0	1	1	1	1	0	0	1	1	1	1	0	2	2	4	0	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:119798815T>C	uc001ldj.1	-	3	1373	c.933A>G	c.(931-933)TTA>TTG	p.L311L	RAB11FIP2_uc009xyz.1_Silent_p.L311L	NM_014904	NP_055719	Q7L804	RFIP2_HUMAN	RAB11 family interacting protein 2	311					protein transport	plasma membrane|recycling endosome membrane	protein homodimerization activity				0		Colorectal(252;0.235)		all cancers(201;0.0238)		ATTTTTGGGGTAATGAAGCAG	0.368													51	171					0	0	1	0	0		C	119798815	C	C	119798815	2	2	151	1	0	0	0	0	0	0	0	1	12919	1635	57	3		3	RAB11FIP2	10	119798815	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	755014	119798815	15735932	2482	79647											
SFXN4	119559	broad.mit.edu	37	chr10	120921921	120921921	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttgcctcgagttttctatActttcctaaaatcagatatc	11	16	5	9	1	2	1	1	0	1	1	5	2	3	1	2	0	2	2	2	0	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:120921921A>G	uc001leb.2	-	3	228	c.183T>C	c.(181-183)AGT>AGC	p.S61S	SFXN4_uc001ldy.2_5'Flank|SFXN4_uc001ldz.2_5'UTR|SFXN4_uc001lea.2_RNA	NM_213649	NP_998814	Q6P4A7	SFXN4_HUMAN	sideroflexin 4	61					iron ion homeostasis	integral to membrane|mitochondrial membrane	cation transmembrane transporter activity			ovary(1)	1		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0261)		AGTTTTCTATACTTTCCTAAA	0.453													17	66					0	0	1	0	0		G	120921921	G	G	120921921	2	3	151	1	0	0	0	0	0	0	0	1	14222	388	14	3		3	SFXN4	10	120921921	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1123106	120921921	14612826	2483	79648											
BAG3	9531	broad.mit.edu	37	chr10	121436385	121436385	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggctggagcaggctgtagAcaactttgaaggcaagaaga	13	6	16	6	0	0	4	0	1	0	3	0	5	0	5	0	5	2	5	0	5	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:121436385A>G	uc001lem.2	+	4	1625	c.1319A>G	c.(1318-1320)GAC>GGC	p.D440G	BAG3_uc001lel.2_Missense_Mutation_p.D439G	NM_004281	NP_004272	O95817	BAG3_HUMAN	BCL2-associated athanogene 3	440	BAG.				anti-apoptosis|apoptosis|protein folding	cytosol				ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)		CAGGCTGTAGACAACTTTGAA	0.532													8	50					0	0	1	0	0		G	121436385	G	G	121436385	3	3	151	1	0	0	0	0	1	0	0	0	1289	275	10	3	1333	3	BAG3	10	121436385	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	514464	121436385	14098362	2484	79649											
INPP5F	22876	broad.mit.edu	37	chr10	121586661	121586661	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctccttcagagattactgTtgctcatgggagtgggcttg	6	14	13	8	0	2	1	2	0	0	1	3	3	3	2	1	2	3	4	1	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:121586661T>C	uc001leo.2	+	20	2934	c.2768T>C	c.(2767-2769)GTT>GCT	p.V923A	INPP5F_uc001lep.2_Missense_Mutation_p.V313A	NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	923							phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		GAGATTACTGTTGCTCATGGG	0.507													5	130					0	0	1	0	0		C	121586661	C	C	121586661	3	2	151	1	0	0	0	0	1	0	0	0	7774	1725	60	3	2846	3	INPP5F	10	121586661	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	150276	121586661	13948086	2485	79650											
SEC23IP	11196	broad.mit.edu	37	chr10	121658045	121658045	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaggtatcaagcagcagTgatccttttgggaatattgg	10	13	11	7	0	2	1	2	1	1	0	4	2	3	2	1	3	2	3	1	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:121658045T>C	uc001leu.1	+	2	342	c.270T>C	c.(268-270)AGT>AGC	p.S90S	SEC23IP_uc010qtc.1_Intron	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	90	Interaction with SEC23A.				Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		CAAGCAGCAGTGATCCTTTTG	0.473													57	218					0	0	1	0	0		C	121658045	C	C	121658045	2	2	151	1	0	0	0	0	0	0	0	1	14018	1693	59	3		3	SEC23IP	10	121658045	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	71384	121658045	13876702	2486	79651											
PPAPDC1A	196051	broad.mit.edu	37	chr10	122348907	122348907	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaacacagcttgccataaaCcctacgttagtctgcgagtc	11	9	7	14	2	1	0	0	0	1	0	2	1	1	0	3	0	6	2	3	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:122348907C>A	uc001lev.1	+	7	1061	c.709C>A	c.(709-711)CCC>ACC	p.P237T	PPAPDC1A_uc009xzl.1_Missense_Mutation_p.P174T|PPAPDC1A_uc001lew.1_3'UTR|PPAPDC1A_uc001lex.1_Missense_Mutation_p.N86K|PPAPDC1A_uc001ley.1_Missense_Mutation_p.P116T	NM_001030059	NP_001025230	Q5VZY2	PPC1A_HUMAN	phosphatidic acid phosphatase type 2 domain	237					phospholipid dephosphorylation	integral to membrane	phosphatidate phosphatase activity			breast(1)	1		Lung NSC(174;0.1)|all_lung(145;0.132)		all cancers(201;0.0117)		TTGCCATAAACCCTACGTTAG	0.552													19	147					1.87028e-06	1.9025e-06	1	1	0		A	122348907	A	A	122348907	3	1	151	1	0	0	0	0	1	0	0	0	12312	507	18	5	735	5	PPAPDC1A	10	122348907	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	690862	122348907	13185840	2487	79652											
TACC2	10579	broad.mit.edu	37	chr10	123989903	123989903	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatgcggatagaagcccTgaagctggccaggcagattg	11	7	13	10	1	1	3	1	1	0	2	1	4	1	4	2	3	3	2	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:123989903T>C	uc001lfv.2	+	16	8435	c.8075T>C	c.(8074-8076)CTG>CCG	p.L2692P	TACC2_uc001lfw.2_Missense_Mutation_p.L838P|TACC2_uc009xzx.2_Intron|TACC2_uc010qtv.1_Intron|TACC2_uc001lfx.2_Intron|TACC2_uc001lfy.2_Intron|TACC2_uc001lfz.2_Missense_Mutation_p.L770P|TACC2_uc001lga.2_Intron|TACC2_uc009xzy.2_Intron|TACC2_uc001lgb.2_Intron	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	2692	Potential.					microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				ATAGAAGCCCTGAAGCTGGCC	0.567													29	123					0	0	1	0	0		C	123989903	C	C	123989903	3	2	151	1	0	0	0	0	1	0	0	0	15527	1580	55	3	8205	3	TACC2	10	123989903	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1640996	123989903	11544844	2488	79653											
TACC2	10579	broad.mit.edu	37	chr10	124013541	124013541	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactcaccaagatttgtgaCgaactgattgccaaaatggg	14	9	10	8	1	1	3	1	2	0	1	1	5	1	3	2	1	3	0	2	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:124013541C>T	uc001lfv.2	+	23	9177	c.8817C>T	c.(8815-8817)GAC>GAT	p.D2939D	TACC2_uc001lfw.2_Silent_p.D1085D|TACC2_uc009xzx.2_Silent_p.D2817D|TACC2_uc010qtv.1_Silent_p.D2866D|TACC2_uc001lfx.2_Silent_p.D566D|TACC2_uc001lfy.2_Silent_p.D562D|TACC2_uc001lfz.2_Silent_p.D1017D|TACC2_uc001lga.2_Silent_p.D987D|TACC2_uc009xzy.2_Silent_p.D999D|TACC2_uc001lgb.2_Silent_p.D897D	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	2939	Potential.					microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				AGATTTGTGACGAACTGATTG	0.438													28	87					0	0	1	0	0		T	124013541	T	T	124013541	2	4	151	1	0	0	0	0	0	0	0	1	15527	535	19	1		1	TACC2	10	124013541	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	23638	124013541	11521206	2489	79654											
PSTK	118672	broad.mit.edu	37	chr10	124742484	124742484	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctttgtttttggttttggAtgacaatttttattatcaga	9	21	7	4	0	1	2	1	1	0	1	1	3	1	3	1	2	0	2	1	2	3	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:124742484A>T	uc001lgy.1	+	2	892	c.452A>T	c.(451-453)GAT>GTT	p.D151V		NM_153336	NP_699167	Q8IV42	PSTK_HUMAN	phosphoseryl-tRNA kinase	151							ATP binding|kinase activity			liver(1)	1		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0725)		TTGGTTTTGGATGACAATTTT	0.338													41	176					0	0	1	0	0		T	124742484	T	T	124742484	3	4	151	1	0	0	0	0	1	0	0	0	12742	333	12	5	458	5	PSTK	10	124742484	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	728943	124742484	10792263	2490	79655											
GPR26	2849	broad.mit.edu	37	chr10	125426428	125426428	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccagacgagcgcctgcgcTtcgccgtcttcactggcgcc	4	7	13	17	6	2	1	1	0	1	1	3	2	2	1	4	2	2	1	4	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:125426428T>C	uc001lhh.2	+	1	558	c.505T>C	c.(505-507)TTC>CTC	p.F169L		NM_153442	NP_703143	Q8NDV2	GPR26_HUMAN	G protein-coupled receptor 26	169	Helical; Name=5; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1		Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)				GCGCCTGCGCTTCGCCGTCTT	0.677													4	15					0	0	1	0	0		C	125426428	C	C	125426428	3	2	151	1	0	0	0	0	1	0	0	0	6699	1609	56	3	507	3	GPR26	10	125426428	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	683944	125426428	10108319	2491	79656											
GPR26	2849	broad.mit.edu	37	chr10	125447563	125447563	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actccttactgcgacaccagTaccgcaaaagctgcaaggag	13	6	9	13	2	0	0	0	0	0	0	1	2	1	1	3	1	5	4	3	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:125447563T>C	uc001lhh.2	+	3	954	c.901T>C	c.(901-903)TAC>CAC	p.Y301H		NM_153442	NP_703143	Q8NDV2	GPR26_HUMAN	G protein-coupled receptor 26	301	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1		Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)				GCGACACCAGTACCGCAAAAG	0.597													22	75					0	0	1	0	0		C	125447563	C	C	125447563	3	2	151	1	0	0	0	0	1	0	0	0	6699	1638	57	3	911	3	GPR26	10	125447563	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	21135	125447563	10087184	2492	79657											
GPR26	2849	broad.mit.edu	37	chr10	125447602	125447602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agattctgaacaggctcctgCacagacgctccatccactcc	10	8	7	16	1	1	3	0	1	1	2	5	3	5	3	4	1	2	3	4	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:125447602C>T	uc001lhh.2	+	3	993	c.940C>T	c.(940-942)CAC>TAC	p.H314Y		NM_153442	NP_703143	Q8NDV2	GPR26_HUMAN	G protein-coupled receptor 26	314	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1		Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)				CAGGCTCCTGCACAGACGCTC	0.572													5	31					0	0	1	0	0		T	125447602	T	T	125447602	3	4	151	1	0	0	0	0	1	0	0	0	6699	710	25	2	950	2	GPR26	10	125447602	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	39	125447602	10087145	2493	79658											
CPXM2	119587	broad.mit.edu	37	chr10	125526528	125526528	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccactcagggattgcaatAtagtgattgggaactttcct	12	12	9	8	0	1	1	1	1	0	0	2	3	2	3	2	2	3	1	2	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:125526528A>G	uc001lhk.1	-	10	1765	c.1440T>C	c.(1438-1440)TAT>TAC	p.Y480Y	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	480					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		GGATTGCAATATAGTGATTGG	0.463													34	94					0	0	1	0	0		G	125526528	G	G	125526528	2	3	151	1	0	0	0	0	0	0	0	1	3841	456	16	3		3	CPXM2	10	125526528	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	78926	125526528	10008219	2494	79659											
CPXM2	119587	broad.mit.edu	37	chr10	125528175	125528175	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaactgcaccagcagcagcAgcagctcccggcccagcacc	10	2	10	19	2	0	0	0	0	0	0	1	1	1	0	4	1	8	7	4	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:125528175A>G	uc001lhk.1	-	9	1491	c.1166T>C	c.(1165-1167)CTG>CCG	p.L389P	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	389	Poly-Leu.				cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		CAGCAGCAGCAGCAGCTCCCG	0.617													14	83					0	0	1	0	0		G	125528175	G	G	125528175	3	3	151	1	0	0	0	0	1	0	0	0	3841	188	7	3	1128	3	CPXM2	10	125528175	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1647	125528175	10006572	2495	79660											
CPXM2	119587	broad.mit.edu	37	chr10	125601960	125601960	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggaggtcatttcttccCgcgcaccacgctccgtcata	6	11	9	15	4	3	0	2	0	1	0	5	1	5	1	3	2	1	3	3	2	1	3	rs112542031	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:125601960C>T	uc001lhk.1	-	4	883	c.558G>A	c.(556-558)GCG>GCA	p.A186A	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	186	F5/8 type C.				cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		CATTTCTTCCCGCGCACCACG	0.468													13	58					0	0	1	0	0		T	125601960	T	T	125601960	2	4	151	1	0	0	0	0	0	0	0	1	3841	639	23	1		1	CPXM2	10	125601960	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	73785	125601960	9932787	2496	79661											
C10orf137	26098	broad.mit.edu	37	chr10	127413917	127413917	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacatggttgaaagagtttTatcaaagactcattgatcag	14	12	10	5	0	3	4	3	2	0	2	3	5	3	5	0	2	0	2	0	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:127413917T>C	uc001liq.1	+	5	834	c.541T>C	c.(541-543)TAT>CAT	p.Y181H	C10orf137_uc001lin.2_Missense_Mutation_p.Y181H|C10orf137_uc001lio.1_Missense_Mutation_p.Y181H|C10orf137_uc001lip.1_5'UTR	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	181					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GAAAGAGTTTTATCAAAGACT	0.353													28	83					0	0	1	0	0		C	127413917	C	C	127413917	3	2	151	1	0	0	0	0	1	0	0	0	1597	1754	61	3	559	3	C10orf137	10	127413917	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1811957	127413917	8120830	2497	79662											
C10orf90	118611	broad.mit.edu	37	chr10	128192694	128192694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaccactccaaggacaagCgccggtccccaaatgcaccc	13	3	8	17	2	0	1	0	0	0	1	2	2	2	2	6	2	3	1	6	2	4	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:128192694C>T	uc001ljq.2	-	3	1196	c.1075G>A	c.(1075-1077)GCT>ACT	p.A359T	C10orf90_uc001ljp.2_Missense_Mutation_p.A312T|C10orf90_uc010qum.1_Missense_Mutation_p.A456T|C10orf90_uc009yao.2_Missense_Mutation_p.A456T|C10orf90_uc001ljs.1_Missense_Mutation_p.A312T	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	359										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		CAAGGACAAGCGCCGGTCCCC	0.512											OREG0020616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	64					0	0	1	0	0		T	128192694	T	T	128192694	3	4	151	1	0	0	0	0	1	0	0	0	1626	768	27	1	1052	1	C10orf90	10	128192694	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	778777	128192694	7342053	2498	79663											
DOCK1	1793	broad.mit.edu	37	chr10	128821470	128821470	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcccccctcaggtgatgTtcgaaatgatatctatgtaa	10	14	7	10	1	3	2	1	2	2	0	5	3	3	2	3	1	0	2	3	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:128821470T>C	uc001ljt.2	+	14	1335	c.1271T>C	c.(1270-1272)GTT>GCT	p.V424A	DOCK1_uc010qun.1_Missense_Mutation_p.V445A	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	424	DHR-1.				apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		TCAGGTGATGTTCGAAATGAT	0.368													31	114					0	0	1	0	0		C	128821470	C	C	128821470	3	2	151	1	0	0	0	0	1	0	0	0	4690	1725	60	3	1325	3	DOCK1	10	128821470	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	628776	128821470	6713277	2499	79664											
FAM196A	642938	broad.mit.edu	37	chr10	128974139	128974139	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgttggttggaatggaaaAccaaggctgtggtcttgtgc	8	13	15	5	0	1	0	0	0	1	0	1	2	1	2	1	5	2	3	1	5	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:128974139A>G	uc001lju.1	-	1	562	c.521T>C	c.(520-522)GTT>GCT	p.V174A	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.V174A|FAM196A_uc001ljv.1_Missense_Mutation_p.V174A|FAM196A_uc009yap.1_Missense_Mutation_p.V174A	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	174										ovary(2)	2						GGAATGGAAAACCAAGGCTGT	0.572													6	99					0	0	1	0	0		G	128974139	G	G	128974139	3	3	151	1	0	0	0	0	1	0	0	0	5539	43	2	3	930	3	FAM196A	10	128974139	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	152669	128974139	6560608	2500	79665											
PTPRE	5791	broad.mit.edu	37	chr10	129871635	129871635	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactatttcatcgccacccAggggccactggcacacacgg	9	6	11	15	2	1	0	1	0	0	0	2	1	1	1	3	5	0	1	3	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:129871635A>G	uc001lkb.2	+	17	1778	c.1499A>G	c.(1498-1500)CAG>CGG	p.Q500R	PTPRE_uc009yat.2_Missense_Mutation_p.Q511R|PTPRE_uc009yau.2_Missense_Mutation_p.Q500R|PTPRE_uc001lkd.2_Missense_Mutation_p.Q442R|PTPRE_uc010quq.1_Missense_Mutation_p.Q401R	NM_006504	NP_006495	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E	500	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)				ATCGCCACCCAGGGGCCACTG	0.552													7	67					0	0	1	0	0		G	129871635	G	G	129871635	3	3	151	1	0	0	0	0	1	0	0	0	12825	188	7	3	1596	3	PTPRE	10	129871635	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	897496	129871635	5663112	2501	79666											
MKI67	4288	broad.mit.edu	37	chr10	129906399	129906399	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccactaattcctcggtgtgAccaggagtctggaagagctc	9	9	12	11	1	1	2	0	1	1	1	4	4	2	4	3	3	1	1	3	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:129906399A>G	uc001lke.2	-	13	3900	c.3705T>C	c.(3703-3705)GGT>GGC	p.G1235G	MKI67_uc001lkf.2_Silent_p.G875G|MKI67_uc009yav.1_Silent_p.G810G|MKI67_uc009yaw.1_Silent_p.G385G	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1235	16 X 122 AA approximate repeats.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				CCTCGGTGTGACCAGGAGTCT	0.512													19	132					0	0	1	0	0		G	129906399	G	G	129906399	2	3	151	1	0	0	0	0	0	0	0	1	9616	262	10	3		3	MKI67	10	129906399	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	34764	129906399	5628348	2502	79667											
PWWP2B	170394	broad.mit.edu	37	chr10	134218153	134218153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcctctttggcctaccccCgttggctccgctgccccagg	2	9	11	19	3	1	0	0	0	1	0	2	0	2	0	7	4	2	3	7	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:134218153C>T	uc001lll.3	+	2	178	c.149C>T	c.(148-150)CCG>CTG	p.P50L	PWWP2B_uc009ybe.2_Missense_Mutation_p.P50L	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	50											0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		GGCCTACCCCCGTTGGCTCCG	0.657													57	186					0	0	1	0	0		T	134218153	T	T	134218153	3	4	151	1	0	0	0	0	1	0	0	0	12871	652	23	1	155	1	PWWP2B	10	134218153	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4311754	134218153	1316594	2503	79668											
GPR123	84435	broad.mit.edu	37	chr10	134886463	134886463	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcaacaaattaccagaggCcgccgactcgtttggggaaa	13	6	12	10	3	0	1	0	0	0	1	1	3	0	2	3	4	2	2	3	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:134886463C>T	uc001llw.2	+	3	497	c.497C>T	c.(496-498)GCC>GTC	p.A166V				Q86SQ6	GP123_HUMAN	RecName: Full=Probable G-protein coupled receptor 123;	Error:Variant_position_missing_in_Q86SQ6_after_alignment						integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		TTACCAGAGGCCGCCGACTCG	0.562													3	9					0	0	1	0	0		T	134886463	T	T	134886463	3	4	151	1	0	0	0	0	1	0	0	0	6652	754	26	2		2	GPR123	10	134886463	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	668310	134886463	648284	2504	79669											
TUBGCP2	10844	broad.mit.edu	37	chr10	135099060	135099060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggtcggcgtgcgccatcgCcttctcctgcttggtctcga	2	11	14	14	5	2	0	0	0	2	0	6	1	2	0	3	4	2	1	3	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:135099060C>T	uc001lmg.1	-	12	2152	c.1795G>A	c.(1795-1797)GCG>ACG	p.A599T	TUBGCP2_uc001lmf.1_Missense_Mutation_p.A192T|TUBGCP2_uc010qvc.1_Missense_Mutation_p.A627T|TUBGCP2_uc009ybk.1_Intron|TUBGCP2_uc010qvd.1_Missense_Mutation_p.A469T|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	599					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		TGCGCCATCGCCTTCTCCTGC	0.587													4	10					0	0	1	0	0		T	135099060	T	T	135099060	3	4	151	1	0	0	0	0	1	0	0	0	16792	739	26	2	941	2	TUBGCP2	10	135099060	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	212597	135099060	435687	2505	79670											
CYP2E1	1571	broad.mit.edu	37	chr10	135346227	135346227	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcccagctttctacactActtgcctggaagccacagaa	10	12	6	13	0	1	1	0	0	1	1	2	2	2	2	3	1	5	1	3	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr10:135346227A>G	uc001lnj.1	+	5	713	c.680A>G	c.(679-681)TAC>TGC	p.Y227C	CYP2E1_uc001lnk.1_Missense_Mutation_p.Y90C|CYP2E1_uc009ybl.1_Missense_Mutation_p.Y28C|CYP2E1_uc009ybm.1_5'UTR|CYP2E1_uc001lnl.1_Missense_Mutation_p.Y28C	NM_000773	NP_000764	P05181	CP2E1_HUMAN	cytochrome P450, family 2, subfamily E,	227					drug metabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|enzyme binding|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen|oxygen binding			central_nervous_system(3)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)	Acetaminophen(DB00316)|Chlorzoxazone(DB00356)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Dacarbazine(DB00851)|Dapsone(DB00250)|Enflurane(DB00228)|Eszopiclone(DB00402)|Ethanol(DB00898)|Ethosuximide(DB00593)|Fomepizole(DB01213)|Glutathione(DB00143)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Isoniazid(DB00951)|Menadione(DB00170)|Mephenytoin(DB00532)|Methoxyflurane(DB01028)|Midazolam(DB00683)|Mitoxantrone(DB01204)|Nicotine(DB00184)|Nifedipine(DB01115)|Nitrofurantoin(DB00698)|Orphenadrine(DB01173)|Phenelzine(DB00780)|Quinidine(DB00908)|S-Adenosylmethionine(DB00118)|Sevoflurane(DB01236)|Theophylline(DB00277)|Tolbutamide(DB01124)	TTTCTACACTACTTGCCTGGA	0.388									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				9	221					0	0	1	0	0		G	135346227	G	G	135346227	3	3	151	1	0	0	0	0	1	0	0	0	4173	391	14	3	698	3	CYP2E1	10	135346227	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	247167	135346227	188520	2506	79671											
NLRP6	171389	broad.mit.edu	37	chr11	281524	281524	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accagaggtgaccgagggggCcaaagggctcgaggacaccg	11	2	17	11	3	0	2	0	1	0	1	1	5	0	3	4	5	0	1	4	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:281524C>G	uc010qvs.1	+	4	1790	c.1790C>G	c.(1789-1791)GCC>GGC	p.A597G	NLRP6_uc010qvt.1_Missense_Mutation_p.A597G	NM_138329	NP_612202	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	597						cytoplasm	ATP binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.28e-28)|Epithelial(43;2.47e-27)|OV - Ovarian serous cystadenocarcinoma(40;4.66e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.0485)|LUSC - Lung squamous cell carcinoma(625;0.122)		ACCGAGGGGGCCAAAGGGCTC	0.652													23	67					0	0	1	0	0		G	281524	G	G	281524	3	3	151	1	0	0	0	0	1	0	0	0	10500	739	26	5	1804	5	NLRP6	11	281524	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08		281524	134724992	2507	79672											
RNH1	6050	broad.mit.edu	37	chr11	498027	498027	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggcacagctcccgcacGcccgcatcctccagcctgtt	5	7	8	21	3	0	0	0	0	0	0	3	0	3	0	6	1	2	5	6	1	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:498027G>A	uc001lpk.1	-	7	2479	c.1071C>T	c.(1069-1071)GGC>GGT	p.G357G	RNH1_uc001lpl.1_Silent_p.G357G|RNH1_uc001lpm.1_Silent_p.G357G|RNH1_uc001lpn.1_Silent_p.G357G|RNH1_uc001lpo.1_Silent_p.G357G|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Silent_p.G357G|RNH1_uc001lpt.1_Silent_p.G114G|RNH1_uc001lpq.1_Silent_p.G357G|RNH1_uc001lpr.1_Silent_p.G357G|RNH1_uc001lps.1_Silent_p.G357G	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	357	LRR 12.				mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GCTCCCGCACGCCCGCATCCT	0.607													19	81					0	0	1	0	0		A	498027	A	A	498027	2	1	151	1	0	0	0	0	0	0	0	1	13529	1074	38	1		1	RNH1	11	498027	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	216503	498027	134508489	2508	79673											
RASSF7	8045	broad.mit.edu	37	chr11	563560	563560	+	Missense_Mutation	SNP	G	A	A																															gcctgtgtcctcccgcagtgGcccccatgacgcagaactcc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:563560G>A	uc001lqc.2	+	6	1072	c.1037G>A	c.(1036-1038)GGC>GAC	p.G346D	C11orf35_uc001lpx.2_5'Flank|RASSF7_uc001lqa.2_3'UTR|RASSF7_uc001lqb.2_3'UTR|RASSF7_uc001lqd.2_Nonsense_Mutation_p.W318*	NM_003475	NP_003466	Q02833	RASF7_HUMAN	Ras association (RalGDS/AF-6) domain family	346					regulation of transcription, DNA-dependent|signal transduction	nucleus	DNA binding|protein binding			skin(1)	1		all_cancers(49;2.16e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;7.18e-28)|Epithelial(43;6.93e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.97e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TCCCGCAGTGGCCCCCATGAC	0.692													4	15					0	0	1	0	0		A	563560	A	A	563560	3	1	151	1	0	0	0	0	1	0	0	0	13116	1212	42	2	1118	2	RASSF7	11	563560	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	65533	563560	134442956	2509	79674	149	2									
RASSF7	8045	broad.mit.edu	37	chr11	563570	563570	+	Silent	SNP	C	T	T																															tcccgcagtggcccccatgaCgcagaactcctggaggtagc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:563570C>T	uc001lqc.2	+	6	1082	c.1047C>T	c.(1045-1047)GAC>GAT	p.D349D	C11orf35_uc001lpx.2_5'Flank|RASSF7_uc001lqa.2_3'UTR|RASSF7_uc001lqb.2_3'UTR|RASSF7_uc001lqd.2_3'UTR	NM_003475	NP_003466	Q02833	RASF7_HUMAN	Ras association (RalGDS/AF-6) domain family	349					regulation of transcription, DNA-dependent|signal transduction	nucleus	DNA binding|protein binding			skin(1)	1		all_cancers(49;2.16e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;7.18e-28)|Epithelial(43;6.93e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.97e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GCCCCCATGACGCAGAACTCC	0.682													4	16					0	0	1	0	0		T	563570	T	T	563570	2	4	151	1	0	0	0	0	0	0	0	1	13116	535	19	1		1	RASSF7	11	563570	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	10	563570	134442946	2510	79675	149	2									
PHRF1	57661	broad.mit.edu	37	chr11	605153	605153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctctcgaatcgcgcggaCgctgggcctgcgcaggcctg	4	7	15	15	7	1	0	0	0	1	0	4	2	1	1	2	3	1	3	2	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:605153C>T	uc001lqe.2	+	11	1318	c.1187C>T	c.(1186-1188)ACG>ATG	p.T396M	PHRF1_uc010qwc.1_Missense_Mutation_p.T396M|PHRF1_uc010qwd.1_Missense_Mutation_p.T395M|PHRF1_uc010qwe.1_Missense_Mutation_p.T392M|PHRF1_uc009ybz.1_Missense_Mutation_p.T187M|PHRF1_uc009yca.1_5'Flank	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	396	Arg-rich.						RNA polymerase binding|zinc ion binding				0						ATCGCGCGGACGCTGGGCCTG	0.572													10	38					0	0	1	0	0		T	605153	T	T	605153	3	4	151	1	0	0	0	0	1	0	0	0	11880	536	19	1	1225	1	PHRF1	11	605153	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	41583	605153	134401363	2511	79676											
DEAF1	10522	broad.mit.edu	37	chr11	679734	679734	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggccggactctctgatatGacagcagtggcctctaccgt	7	10	12	12	2	2	2	0	2	2	0	3	3	2	3	3	3	2	1	3	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:679734G>A	uc001lqq.1	-	8	1773	c.1080C>T	c.(1078-1080)GTC>GTT	p.V360V	DEAF1_uc009ycf.1_RNA	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	360					embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		TCTCTGATATGACAGCAGTGG	0.632													8	43					0	0	1	0	0		A	679734	A	A	679734	2	1	151	1	0	0	0	0	0	0	0	1	4383	1277	45	4		4	DEAF1	11	679734	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	74581	679734	134326782	2512	79677											
CD151	977	broad.mit.edu	37	chr11	837482	837482	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccactgctgtggcagcaacaActcacaggactggcgagaca	12	5	11	13	1	1	1	1	0	0	1	1	3	1	2	1	3	4	3	1	3	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:837482A>G	uc001lry.2	+	7	623	c.479A>G	c.(478-480)AAC>AGC	p.N160S	CD151_uc001lrx.2_RNA|CD151_uc001lrz.2_Missense_Mutation_p.N160S|CD151_uc001lsa.2_Missense_Mutation_p.N160S|CD151_uc001lsb.2_Missense_Mutation_p.N160S	NM_004357	NP_004348	P48509	CD151_HUMAN	CD151 antigen	160	Extracellular (Potential).				cell adhesion|hemidesmosome assembly	cytosol|integral to plasma membrane|membrane fraction	protein binding				0		all_cancers(49;2.31e-08)|all_epithelial(84;3.72e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.179)|all_lung(207;0.227)		all cancers(45;1.54e-25)|Epithelial(43;1.22e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.91e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGCAGCAACAACTCACAGGAC	0.627													5	15					0	0	1	0	0		G	837482	G	G	837482	3	3	151	1	0	0	0	0	1	0	0	0	2968	43	2	3	497	3	CD151	11	837482	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	157748	837482	134169034	2513	79678											
MUC6	4588	broad.mit.edu	37	chr11	1025234	1025234	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgtgcctgttccagatgAgcgtcaggttgtacctcccg	6	12	11	12	2	2	2	2	1	0	1	4	2	4	2	4	1	3	3	4	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:1025234A>C	uc001lsw.2	-	23	2984	c.2933T>G	c.(2932-2934)CTC>CGC	p.L978R		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	978	VWFD 3.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GTTCCAGATGAGCGTCAGGTT	0.667													33	147					0	0	1	0	0		C	1025234	C	C	1025234	3	2	151	1	0	0	0	0	1	0	0	0	9998	304	11	5	4430	5	MUC6	11	1025234	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	187752	1025234	133981282	2514	79679											
MUC2	4583	broad.mit.edu	37	chr11	1081139	1081139	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgaacctgccccacgtgAccggtgagttgtgccccagg	7	7	14	13	2	0	3	0	3	0	0	0	3	0	3	6	3	3	1	6	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:1081139A>G	uc001lsx.1	+	11	1462	c.1435A>G	c.(1435-1437)ACC>GCC	p.T479A		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	479	VWFD 2.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	GCCCCACGTGACCGGTGAGTT	0.652													5	27					0	0	1	0	0		G	1081139	G	G	1081139	3	3	151	1	0	0	0	0	1	0	0	0	9993	275	10	3	1477	3	MUC2	11	1081139	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	55905	1081139	133925377	2515	79680											
MUC5B	727897	broad.mit.edu	37	chr11	1258211	1258211	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgccatcaatgactttgcCacgcgtagccggtccgtggt	8	10	11	12	4	1	1	1	1	0	0	2	1	2	1	4	2	3	1	4	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:1258211C>A	uc009ycr.1	+	41	5319	c.5193C>A	c.(5191-5193)GCC>GCA	p.A1731A	MUC5B_uc009yct.1_Silent_p.A1038A|MUC5B_uc001ltb.2_Silent_p.A1041A|MUC5B_uc001lta.2_Silent_p.A706A	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1038	VWFD 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ATGACTTTGCCACGCGTAGCC	0.667													3	6					0.115264	0.115583	1	1	0		A	1258211	A	A	1258211	2	1	151	1	0	0	0	0	0	0	0	1	9997	581	21	5		5	MUC5B	11	1258211	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	177072	1258211	133748305	2516	79681											
DUSP8	1850	broad.mit.edu	37	chr11	1579347	1579347	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccgcagactcaccgatgAactcgatggacttgtccagc	10	7	9	15	3	1	2	1	1	0	1	3	5	2	3	4	1	2	1	4	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:1579347A>G	uc001lts.2	-	5	820	c.692T>C	c.(691-693)TTC>TCC	p.F231S		NM_004420	NP_004411	Q13202	DUS8_HUMAN	dual specificity phosphatase 8	231	Tyrosine-protein phosphatase.				inactivation of MAPK activity	cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		all_epithelial(84;0.000134)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000621)|Lung(200;0.0687)|LUSC - Lung squamous cell carcinoma(625;0.0825)		CTCACCGATGAACTCGATGGA	0.602													26	129					0	0	1	0	0		G	1579347	G	G	1579347	3	3	151	1	0	0	0	0	1	0	0	0	4837	246	9	3	1197	3	DUSP8	11	1579347	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	321136	1579347	133427169	2517	79682											
KRTAP5-5	439915	broad.mit.edu	37	chr11	1651339	1651339	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtggcaaagggggctgtgGctcttgcgggggctccaaga	6	8	18	9	1	1	1	0	0	1	1	2	1	2	1	1	6	1	4	1	6	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:1651339G>C	uc001lty.2	+	1	307	c.269G>C	c.(268-270)GGC>GCC	p.G90A		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	90	8 X 4 AA repeats of C-C-X-P.					keratin filament				lung(1)	1		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GGGGGCTGTGGCTCTTGCGGG	0.602													6	118					0	0	1	0	0		C	1651339	C	C	1651339	3	2	151	1	0	0	0	0	1	0	0	0	8580	1203	42	5	271	5	KRTAP5-5	11	1651339	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	71992	1651339	133355177	2518	79683											
CTSD	1509	broad.mit.edu	37	chr11	1775320	1775320	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgcctgtgtccacaatGgcctcacagccctccttgca	8	9	9	15	0	1	0	1	0	0	0	3	1	3	0	5	1	3	1	5	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:1775320G>T	uc001luc.1	-	7	1009	c.876C>A	c.(874-876)GCC>GCA	p.A292A	CTSD_uc009yda.1_RNA	NM_001909	NP_001900	P07339	CATD_HUMAN	cathepsin D preproprotein	292					cell death|proteolysis	extracellular space|lysosome|melanosome	aspartic-type endopeptidase activity				0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TGTCCACAATGGCCTCACAGC	0.687													4	19					0.00909568	0.00914281	1	1	0		T	1775320	T	T	1775320	2	4	151	1	0	0	0	0	0	0	0	1	4035	1335	47	5		5	CTSD	11	1775320	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	123981	1775320	133231196	2519	79684											
OSBPL5	114879	broad.mit.edu	37	chr11	3141762	3141762	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcagcagcaccgtgcccacCcactggcccaccttgggcgt	6	6	11	18	2	0	0	0	0	0	0	0	0	0	0	5	2	4	3	5	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:3141762C>A	uc001lxk.2	-	6	653	c.495G>T	c.(493-495)TGG>TGT	p.W165C	OSBPL5_uc010qxq.1_Intron|OSBPL5_uc009ydw.2_Intron|OSBPL5_uc001lxl.2_Intron|OSBPL5_uc009ydx.2_Missense_Mutation_p.W189C	NM_020896	NP_065947	Q9H0X9	OSBL5_HUMAN	oxysterol-binding protein-like protein 5 isoform	165	PH.				cholesterol metabolic process|cholesterol transport|Golgi to plasma membrane transport	cytosol	oxysterol binding|protein binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		CCGTGCCCACCCACTGGCCCA	0.642													13	70					5.50884e-06	5.58596e-06	1	1	0		A	3141762	A	A	3141762	3	1	151	1	0	0	0	0	1	0	0	0	11299	624	22	5	2212	5	OSBPL5	11	3141762	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1366442	3141762	131864754	2520	79685											
NUP98	4928	broad.mit.edu	37	chr11	3744545	3744545	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcatccacactgttgctgTtgctgtgtttatttccagca	7	17	7	10	0	1	0	1	0	0	0	3	0	3	0	2	0	3	6	2	0	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:3744545T>C	uc001lyh.2	-	16	2279	c.1988A>G	c.(1987-1989)AAC>AGC	p.N663S	NUP98_uc001lyi.2_Missense_Mutation_p.N663S|NUP98_uc001lyj.1_Missense_Mutation_p.N663S|NUP98_uc001lyk.1_Missense_Mutation_p.N680S	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	680					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		ACTGTTGCTGTTGCTGTGTTT	0.423			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								23	108					0	0	1	0	0		C	3744545	C	C	3744545	3	2	151	1	0	0	0	0	1	0	0	0	10792	1725	60	3	3507	3	NUP98	11	3744545	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	602783	3744545	131261971	2521	79686											
RRM1	6240	broad.mit.edu	37	chr11	4150330	4150330	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtatgatatgtggaatgtTactcctacagacctatggga	12	12	10	7	0	0	2	0	1	0	1	1	4	1	4	2	2	2	2	2	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:4150330T>C	uc001lyw.3	+	15	2038	c.1719T>C	c.(1717-1719)GTT>GTC	p.V573V	RRM1_uc009yej.2_RNA|RRM1_uc009yei.2_Silent_p.V533V|RRM1_uc010qyc.1_Silent_p.V476V|RRM1_uc010qyd.1_Silent_p.V235V	NM_001033	NP_001024	P23921	RIR1_HUMAN	ribonucleoside-diphosphate reductase M1 chain	573					deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion	cytosol|nucleoplasm|ribonucleoside-diphosphate reductase complex	ATP binding|ribonucleoside-diphosphate reductase activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00502)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0848)|LUSC - Lung squamous cell carcinoma(625;0.205)	Clofarabine(DB00631)|Fludarabine(DB01073)|Gemcitabine(DB00441)|Hydroxyurea(DB01005)	TGTGGAATGTTACTCCTACAG	0.259													42	155					0	0	1	0	0		C	4150330	C	C	4150330	2	2	151	1	0	0	0	0	0	0	0	1	13706	1741	61	3		3	RRM1	11	4150330	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	405785	4150330	130856186	2522	79687											
RRM1	6240	broad.mit.edu	37	chr11	4159522	4159522	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctaaaagataaagaaaaggTatcaaaagaggaagaagaga	24	4	11	2	0	1	5	1	0	0	5	1	7	1	6	0	2	0	2	0	2	11	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:4159522T>C	uc001lyw.3	+	19	2607	c.2288T>C	c.(2287-2289)GTA>GCA	p.V763A	RRM1_uc009yej.2_RNA|RRM1_uc009yei.2_Missense_Mutation_p.V723A|RRM1_uc010qyc.1_Missense_Mutation_p.V666A|RRM1_uc010qyd.1_Missense_Mutation_p.V425A	NM_001033	NP_001024	P23921	RIR1_HUMAN	ribonucleoside-diphosphate reductase M1 chain	763					deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion	cytosol|nucleoplasm|ribonucleoside-diphosphate reductase complex	ATP binding|ribonucleoside-diphosphate reductase activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00502)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0848)|LUSC - Lung squamous cell carcinoma(625;0.205)	Clofarabine(DB00631)|Fludarabine(DB01073)|Gemcitabine(DB00441)|Hydroxyurea(DB01005)	AAAGAAAAGGTATCAAAAGAG	0.413													12	56					0	0	1	0	0		C	4159522	C	C	4159522	3	2	151	1	0	0	0	0	1	0	0	0	13706	1638	57	3	2362	3	RRM1	11	4159522	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	9192	4159522	130846994	2523	79688											
OR52K2	119774	broad.mit.edu	37	chr11	4471390	4471390	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccatgctgcccctcatgTccacatcctccttgccaatt	6	11	5	19	1	1	0	1	0	0	0	4	0	4	0	8	0	3	1	8	0	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:4471390T>C	uc001lyz.1	+	1	821	c.821T>C	c.(820-822)GTC>GCC	p.V274A		NM_001005172	NP_001005172	Q8NGK3	O52K2_HUMAN	olfactory receptor, family 52, subfamily K,	274	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.48e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0821)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCCCCTCATGTCCACATCCTC	0.502													58	171					0	0	1	0	0		C	4471390	C	C	4471390	3	2	151	1	0	0	0	0	1	0	0	0	11143	1667	58	3	823	3	OR52K2	11	4471390	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	311868	4471390	130535126	2524	79689											
OR52K1	390036	broad.mit.edu	37	chr11	4510299	4510299	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatccaggctgatgcagccCtccatgaacccatgtacctc	9	10	7	15	0	0	2	0	2	0	0	3	2	2	2	5	1	4	3	5	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:4510299C>A	uc001lza.1	+	1	169	c.169C>A	c.(169-171)CTC>ATC	p.L57I		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		TGATGCAGCCCTCCATGAACC	0.498													47	146					2.74695e-27	2.87781e-27	1	1	0		A	4510299	A	A	4510299	3	1	151	1	0	0	0	0	1	0	0	0	11142	681	24	5	171	5	OR52K1	11	4510299	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	38909	4510299	130496217	2525	79690											
OR51E2	81285	broad.mit.edu	37	chr11	4702990	4702990	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgttaagggtcacttgcctcCcacagcctgcaagtccttgt	7	12	9	13	0	1	0	1	0	0	0	3	0	3	0	4	1	3	2	4	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:4702990C>A	uc001lzk.2	-	2	1196	c.952G>T	c.(952-954)GGA>TGA	p.G318*		NM_030774	NP_110401	Q9H255	O51E2_HUMAN	olfactory receptor, family 51, subfamily E,	318	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(3)|ovary(2)	5		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;3e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00476)|LUSC - Lung squamous cell carcinoma(625;0.2)		CACTTGCCTCCCACAGCCTGC	0.428													19	88					8.28177e-16	8.61812e-16	1	1	0		A	4702990	A	A	4702990	4	1	151	1	0	0	0	0	0	1	0	0	11114	632	22	5	14	5	OR51E2	11	4702990	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	192691	4702990	130303526	2526	79691											
OR51F1	256892	broad.mit.edu	37	chr11	4790303	4790303	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacagggggtaaaagcaggTatacattagccatcactgaa	15	7	11	8	0	1	1	1	1	0	0	1	1	1	1	1	3	3	4	1	3	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:4790303T>C	uc010qyl.1	-	1	845	c.845A>G	c.(844-846)TAC>TGC	p.Y282C		NM_001004752	NP_001004752	A6NLW9	A6NLW9_HUMAN	olfactory receptor, family 51, subfamily F,	282						integral to membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.87e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0045)|LUSC - Lung squamous cell carcinoma(625;0.192)		TAAAAGCAGGTATACATTAGC	0.478													32	104					0	0	1	0	0		C	4790303	C	C	4790303	3	2	151	1	0	0	0	0	1	0	0	0	11115	1638	57	3	96	3	OR51F1	11	4790303	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	87313	4790303	130216213	2527	79692											
OR51T1	401665	broad.mit.edu	37	chr11	4903765	4903765	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctacctgaatggcactgaCgtattgtttattcttttctc	7	18	6	10	1	3	2	0	2	3	0	4	2	3	2	1	1	1	3	1	1	4	8	rs138268565		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:4903765C>T	uc010qyp.1	+	1	717	c.717C>T	c.(715-717)GAC>GAT	p.D239D		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	212	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATGGCACTGACGTATTGTTTA	0.443													35	134					0	0	1	0	0		T	4903765	T	T	4903765	2	4	151	1	0	0	0	0	0	0	0	1	11125	535	19	1		1	OR51T1	11	4903765	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	113462	4903765	130102751	2528	79693											
OR51G1	79324	broad.mit.edu	37	chr11	4945549	4945549	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagtggctctttggaggctGctattaagaagaattgtcat	12	13	11	5	0	2	2	1	0	1	2	2	3	2	3	0	3	1	3	0	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:4945549G>A	uc010qyr.1	-	1	21	c.21C>T	c.(19-21)AGC>AGT	p.S7S		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	7	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTTGGAGGCTGCTATTAAGAA	0.443													18	65					0	0	1	0	0		A	4945549	A	A	4945549	2	1	151	1	0	0	0	0	0	0	0	1	11117	1310	46	2		2	OR51G1	11	4945549	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	41784	4945549	130060967	2529	79694											
OR51A4	401666	broad.mit.edu	37	chr11	4967443	4967443	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcactctaatctgtttagtTtttacacaataaacaattgg	13	16	4	8	0	3	0	1	0	2	0	3	0	3	0	0	1	2	2	0	1	7	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:4967443T>C	uc010qys.1	-	1	888	c.888A>G	c.(886-888)AAA>AAG	p.K296K		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	296	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCTGTTTAGTTTTTACACAAT	0.393													47	175					0	0	1	0	0		C	4967443	C	C	4967443	2	2	151	1	0	0	0	0	0	0	0	1	11106	1838	64	3		3	OR51A4	11	4967443	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	21894	4967443	130039073	2530	79695											
OR51A4	401666	broad.mit.edu	37	chr11	4967610	4967610	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagatgtgtgaaacacaagTattgagagccttaagctgct	14	10	10	7	0	0	3	0	2	0	2	0	4	0	3	1	0	4	3	1	0	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:4967610T>C	uc010qys.1	-	1	721	c.721A>G	c.(721-723)ACT>GCT	p.T241A		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GAAACACAAGTATTGAGAGCC	0.473													24	105					0	0	1	0	0		C	4967610	C	C	4967610	3	2	151	1	0	0	0	0	1	0	0	0	11106	1638	57	3	222	3	OR51A4	11	4967610	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	167	4967610	130038906	2531	79696											
OR51A4	401666	broad.mit.edu	37	chr11	4967644	4967644	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctcctttttggatgcAattcccagtacagtcttgag	8	14	9	10	0	1	1	0	1	1	0	3	2	3	2	2	1	4	4	2	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:4967644A>G	uc010qys.1	-	1	687	c.687T>C	c.(685-687)ATT>ATC	p.I229I		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTTTGGATGCAATTCCCAGTA	0.443													28	113					0	0	1	0	0		G	4967644	G	G	4967644	2	3	151	1	0	0	0	0	0	0	0	1	11106	126	5	3		3	OR51A4	11	4967644	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	34	4967644	130038872	2532	79697											
HBD	3045	broad.mit.edu	37	chr11	5255572	5255572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttataaccttgataccaacCtgcccagggcctcaccacca	11	8	5	17	0	1	1	1	1	0	0	1	1	1	1	7	1	4	0	7	1	4	4	rs35654785		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:5255572C>T	uc001maf.1	-	1	287	c.92G>A	c.(91-93)AGA>AAA	p.R31K		NM_000519	NP_000510	P02042	HBD_HUMAN	delta globin	31					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;5.69e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGATACCAACCTGCCCAGGGC	0.517													24	115					0	0	1	0	0		T	5255572	T	T	5255572	3	4	151	1	0	0	0	0	1	0	0	0	6995	695	24	4	363	4	HBD	11	5255572	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	287928	5255572	129750944	2533	79698											
OR51B6	390058	broad.mit.edu	37	chr11	5373179	5373179	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattggtgtgcgggtattgAcaagggctggtctgtccatt	7	13	15	6	1	1	2	0	1	1	1	2	2	2	2	1	4	1	2	1	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:5373179A>G	uc010qzb.1	+	1	442	c.442A>G	c.(442-444)ACA>GCA	p.T148A	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCGGGTATTGACAAGGGCTGG	0.478													40	151					0	0	1	0	0		G	5373179	G	G	5373179	3	3	151	1	0	0	0	0	1	0	0	0	11111	275	10	3	444	3	OR51B6	11	5373179	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	117607	5373179	129633337	2534	79699											
OR51M1	390059	broad.mit.edu	37	chr11	5411261	5411261	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcaataatctgtatggActgatggtggtagttttcac	10	15	9	7	0	3	1	2	1	1	0	3	2	3	2	1	3	0	3	1	3	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:5411261A>G	uc010qzc.1	+	1	633	c.633A>G	c.(631-633)GGA>GGG	p.G211G	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004756	NP_001004756	B2RNI9	B2RNI9_HUMAN	olfactory receptor, family 51, subfamily M,	211						integral to membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.98e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATCTGTATGGACTGATGGTGG	0.522													26	150					0	0	1	0	0		G	5411261	G	G	5411261	2	3	151	1	0	0	0	0	0	0	0	1	11122	262	10	3		3	OR51M1	11	5411261	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	38082	5411261	129595255	2535	79700											
TRIM6-TRIM34	445372	broad.mit.edu	37	chr11	5625792	5625792	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggagtctctaaagaagcTgaagaacgaggagcaggaag	16	5	14	6	1	2	3	1	1	1	2	3	7	2	6	0	3	3	2	0	3	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:5625792T>G	uc001mbf.2	+	3	780	c.536T>G	c.(535-537)CTG>CGG	p.L179R	HBG2_uc001mak.1_Intron|TRIM6_uc009yeo.1_Missense_Mutation_p.L125R|TRIM6_uc010qzj.1_5'UTR|TRIM6_uc001mbc.1_Missense_Mutation_p.L151R|TRIM6_uc001mbe.2_5'UTR|TRIM6_uc010qzk.1_5'UTR|TRIM6_uc010qzl.1_Intron|TRIM6_uc001mbd.2_Missense_Mutation_p.L179R|TRIM6_uc001mbg.1_5'Flank|TRIM6_uc009yep.1_5'Flank	NM_001003819	NP_001003819	B2RNG4	B2RNG4_HUMAN	tripartite motif-containing 6 and tripartite	179						intracellular	zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;1.01e-08)|BRCA - Breast invasive adenocarcinoma(625;0.145)		CTAAAGAAGCTGAAGAACGAG	0.443													38	130					0	0	1	0	0		G	5625792	G	G	5625792	3	3	151	1	0	0	0	0	1	0	0	0	16560	1580	55	5	546	5	TRIM6-TRIM34	11	5625792	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	214531	5625792	129380724	2536	79701											
OR56B1	387748	broad.mit.edu	37	chr11	5758600	5758600	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgattccagttctacttaAtgtgttgcacaacatcatcc	10	16	5	10	0	2	1	1	1	1	0	4	1	4	1	2	0	3	3	2	0	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:5758600A>C	uc001mbt.1	+	1	854	c.854A>C	c.(853-855)AAT>ACT	p.N285T	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005180	NP_001005180	Q8NGI3	O56B1_HUMAN	olfactory receptor, family 56, subfamily B,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.086)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.184)		GTTCTACTTAATGTGTTGCAC	0.433													11	624					0	0	1	0	0		C	5758600	C	C	5758600	3	2	151	1	0	0	0	0	1	0	0	0	11156	101	4	5	856	5	OR56B1	11	5758600	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	132808	5758600	129247916	2537	79702											
OR52N5	390075	broad.mit.edu	37	chr11	5799138	5799138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgctgaaagccttctgccGagcatctgatgaagagaggc	10	8	14	9	1	2	4	0	3	2	1	2	6	2	4	2	2	4	2	2	2	2	1	rs117500523	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:5799138G>A	uc010qzn.1	-	1	727	c.727C>T	c.(727-729)CGG>TGG	p.R243W	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001922	NP_001001922	Q8NH56	O52N5_HUMAN	olfactory receptor, family 52, subfamily N,	243	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.05e-11)|LUSC - Lung squamous cell carcinoma(625;0.112)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.195)		GCCTTCTGCCGAGCATCTGAT	0.463													16	91					0	0	1	0	0		A	5799138	A	A	5799138	3	1	151	1	0	0	0	0	1	0	0	0	11149	1057	37	1	251	1	OR52N5	11	5799138	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	40538	5799138	129207378	2538	79703											
OR52N1	79473	broad.mit.edu	37	chr11	5810021	5810021	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatgaatgaagctggagttAggctggtgccatttagaaat	12	11	14	4	0	0	3	0	2	0	1	0	5	0	5	1	4	2	3	1	4	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:5810021A>G	uc010qzo.1	-	1	26	c.26T>C	c.(25-27)CTA>CCA	p.L9P	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001913	NP_001001913	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N,	9	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.05e-11)|LUSC - Lung squamous cell carcinoma(625;0.112)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.195)		AGCTGGAGTTAGGCTGGTGCC	0.398													20	111					0	0	1	0	0		G	5810021	G	G	5810021	3	3	151	1	0	0	0	0	1	0	0	0	11146	420	15	3	939	3	OR52N1	11	5810021	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	10883	5810021	129196495	2539	79704											
C11orf42	160298	broad.mit.edu	37	chr11	6232207	6232207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgggggccccagggaccccGacgggcactccatgtccctg	5	5	15	16	2	0	0	0	0	0	0	2	2	2	1	6	4	0	1	6	4	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:6232207G>A	uc001mcj.2	+	3	985	c.937G>A	c.(937-939)GAC>AAC	p.D313N		NM_173525	NP_775796	Q8N5U0	CK042_HUMAN	hypothetical protein LOC160298	313										ovary(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.95e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAGGGACCCCGACGGGCACTC	0.632													6	30					0	0	1	0	0		A	6232207	A	A	6232207	3	1	151	1	0	0	0	0	1	0	0	0	1644	1058	37	1	947	1	C11orf42	11	6232207	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	422186	6232207	128774309	2540	79705											
FAM160A2	84067	broad.mit.edu	37	chr11	6244318	6244318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcagtcctacctgaattaCtgcattgcagaactccaggg	10	12	8	11	0	1	2	1	1	0	1	3	2	3	2	3	1	5	2	3	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:6244318C>T	uc001mcl.3	-	4	1287	c.928G>A	c.(928-930)GTA>ATA	p.V310I	FAM160A2_uc001mck.3_Missense_Mutation_p.V310I|FAM160A2_uc001mcm.2_Missense_Mutation_p.V310I	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	310					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						ACCTGAATTACTGCATTGCAG	0.507													47	209					0	0	1	0	0		T	6244318	T	T	6244318	3	4	151	1	0	0	0	0	1	0	0	0	5480	565	20	4	2068	4	FAM160A2	11	6244318	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	12111	6244318	128762198	2541	79706											
CNGA4	1262	broad.mit.edu	37	chr11	6261527	6261527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcttacccaaatgcctttcGcattgccaagctgatgcttt	9	13	7	12	1	0	1	0	1	0	0	1	1	0	1	3	0	6	4	3	0	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:6261527G>A	uc001mco.2	+	4	610	c.503G>A	c.(502-504)CGC>CAC	p.R168H	CNGA4_uc010raa.1_Intron|CNGA4_uc001mcn.2_Missense_Mutation_p.R128H	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	168	Extracellular (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AATGCCTTTCGCATTGCCAAG	0.582													45	135					0	0	1	0	0		A	6261527	A	A	6261527	3	1	151	1	0	0	0	0	1	0	0	0	3602	1087	38	1	517	1	CNGA4	11	6261527	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	17209	6261527	128744989	2542	79707											
CCKBR	887	broad.mit.edu	37	chr11	6292348	6292348	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggcctgccctggagctgAcggcgctgacggctcctggg	3	6	16	16	4	0	2	0	2	0	0	1	3	1	3	4	5	2	3	4	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:6292348A>G	uc001mcp.2	+	5	1112	c.919A>G	c.(919-921)ACG>GCG	p.T307A	CCKBR_uc001mcq.2_Missense_Mutation_p.T235A|CCKBR_uc001mcr.2_Missense_Mutation_p.T307A|CCKBR_uc001mcs.2_Missense_Mutation_p.T376A|CCKBR_uc001mct.1_RNA	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	307	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	CCTGGAGCTGACGGCGCTGAC	0.667													11	34					0	0	1	0	0		G	6292348	G	G	6292348	3	3	151	1	0	0	0	0	1	0	0	0	2884	275	10	3	937	3	CCKBR	11	6292348	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	30821	6292348	128714168	2543	79708											
DNHD1	144132	broad.mit.edu	37	chr11	6540902	6540902	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgtgacaggatcaggacaGgccaaggctccatatacctt	12	8	10	11	0	1	1	1	1	0	0	2	3	2	3	3	4	1	1	3	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:6540902G>T	uc001mdw.3	+	8	2029	c.1465G>T	c.(1465-1467)GGC>TGC	p.G489C	DNHD1_uc001mdp.2_Missense_Mutation_p.G489C|DNHD1_uc001mdq.2_Missense_Mutation_p.G178C	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	489					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GATCAGGACAGGCCAAGGCTC	0.537													25	98					1.10923e-09	1.14052e-09	1	1	0		T	6540902	T	T	6540902	3	4	151	1	0	0	0	0	1	0	0	0	4674	1000	35	5	1487	5	DNHD1	11	6540902	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	248554	6540902	128465614	2544	79709											
DNHD1	144132	broad.mit.edu	37	chr11	6592035	6592035	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctgagtctcgaagaggCgcccagcttgcggaaaggcg	8	7	15	11	4	1	2	0	1	1	1	3	4	2	3	2	3	2	2	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:6592035C>T	uc001mdw.3	+	42	13857	c.13293C>T	c.(13291-13293)GGC>GGT	p.G4431G	DNHD1_uc001mea.3_Silent_p.G700G|DNHD1_uc001meb.2_3'UTR|DNHD1_uc001mec.2_Silent_p.G699G|DNHD1_uc010rao.1_Silent_p.G689G|DNHD1_uc009yfg.2_Silent_p.G56G	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	4431	Potential.				microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		CTCGAAGAGGCGCCCAGCTTG	0.637													8	28					0	0	1	0	0		T	6592035	T	T	6592035	2	4	151	1	0	0	0	0	0	0	0	1	4674	755	27	1		1	DNHD1	11	6592035	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	51133	6592035	128414481	2545	79710											
DCHS1	8642	broad.mit.edu	37	chr11	6662222	6662222	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtccagttccccagtaactAccagctcaggtactggagtc	9	9	10	13	0	1	0	1	0	0	0	4	1	3	1	4	3	4	4	4	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:6662222A>G	uc001mem.1	-	2	1033	c.623T>C	c.(622-624)GTA>GCA	p.V208A		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	208	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCCAGTAACTACCAGCTCAGG	0.622													27	111					0	0	1	0	0		G	6662222	G	G	6662222	3	3	151	1	0	0	0	0	1	0	0	0	4290	391	14	3	9353	3	DCHS1	11	6662222	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	70187	6662222	128344294	2546	79711											
OR2AG2	338755	broad.mit.edu	37	chr11	6789715	6789715	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatagtgtacatggtatgTcctatagcaatcagggatgc	11	12	11	7	0	1	0	1	0	0	0	2	1	2	1	1	2	4	4	1	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:6789715T>C	uc001meq.1	-	1	474	c.474A>G	c.(472-474)GGA>GGG	p.G158G		NM_001004490	NP_001004490	A6NM03	O2AG2_HUMAN	olfactory receptor, family 2, subfamily AG,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		ACATGGTATGTCCTATAGCAA	0.507													28	90					0	0	1	0	0		C	6789715	C	C	6789715	2	2	151	1	0	0	0	0	0	0	0	1	11004	1654	58	3		3	OR2AG2	11	6789715	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	127493	6789715	128216801	2547	79712											
OR2D3	120775	broad.mit.edu	37	chr11	6942479	6942479	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttttcttagaaatctcTcctttgcagatctctgtttc	7	21	4	9	0	3	2	0	0	3	2	7	2	4	2	1	0	1	2	1	0	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:6942479T>C	uc010rav.1	+	1	247	c.247T>C	c.(247-249)TCC>CCC	p.S83P		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	83	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TAGAAATCTCTCCTTTGCAGA	0.408													59	234					0	0	1	0	0		C	6942479	C	C	6942479	3	2	151	1	0	0	0	0	1	0	0	0	11014	1551	54	3	249	3	OR2D3	11	6942479	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	152764	6942479	128064037	2548	79713											
NLRP14	338323	broad.mit.edu	37	chr11	7059912	7059912	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaattaaatacattcaagtTattcctaaaggagaccatgg	16	11	8	6	0	1	1	1	0	0	1	2	3	2	2	2	3	1	1	2	3	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:7059912T>C	uc001mfb.1	+	2	418	c.95T>C	c.(94-96)TTA>TCA	p.L32S		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	32	DAPIN.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		ACATTCAAGTTATTCCTAAAG	0.428													52	132					0	0	1	0	0		C	7059912	C	C	7059912	3	2	151	1	0	0	0	0	1	0	0	0	10495	1764	61	3	97	3	NLRP14	11	7059912	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	117433	7059912	127946604	2549	79714											
TUB	7275	broad.mit.edu	37	chr11	8117104	8117104	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccaaggcccagtgcagAttctgactgtgggccagtca	9	7	13	12	0	2	2	1	1	1	1	2	2	2	2	3	3	1	1	3	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:8117104A>T	uc001mga.2	+	5	606	c.457A>T	c.(457-459)ATT>TTT	p.I153F	TUB_uc010rbk.1_Missense_Mutation_p.I159F|TUB_uc001mfy.2_Missense_Mutation_p.I208F	NM_177972	NP_813977	P50607	TUB_HUMAN	tubby isoform b	153					phagocytosis|positive regulation of phagocytosis|response to stimulus	cytoplasm|extracellular region|nucleus|plasma membrane				ovary(1)	1		all_lung(207;6.91e-20)|Lung NSC(207;3.36e-17)		Epithelial(150;1.69e-62)|BRCA - Breast invasive adenocarcinoma(625;8.54e-06)|LUSC - Lung squamous cell carcinoma(625;0.000184)		CCCAGTGCAGATTCTGACTGT	0.667													6	42					0	0	1	0	0		T	8117104	T	T	8117104	3	4	151	1	0	0	0	0	1	0	0	0	16768	333	12	5	686	5	TUB	11	8117104	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1057192	8117104	126889412	2550	79715											
RIC3	79608	broad.mit.edu	37	chr11	8132264	8132264	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcactctaaaccctgggggTtacgcttcctcagcatgctg	7	12	9	13	1	3	0	2	0	1	0	4	0	4	0	2	2	4	4	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:8132264T>C	uc001mgd.2	-	6	1145	c.1091A>G	c.(1090-1092)AAC>AGC	p.N364S	RIC3_uc001mgb.2_Missense_Mutation_p.N202S|RIC3_uc001mgc.2_Missense_Mutation_p.N363S|RIC3_uc001mge.2_Missense_Mutation_p.N182S|RIC3_uc010rbl.1_Missense_Mutation_p.N314S|RIC3_uc010rbm.1_Missense_Mutation_p.N392S|RIC3_uc009yfm.2_Missense_Mutation_p.N283S|RIC3_uc009yfn.2_Missense_Mutation_p.N167S	NM_024557	NP_078833	Q7Z5B4	RIC3_HUMAN	resistance to inhibitors of cholinesterase 3	364	Cytoplasmic (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				large_intestine(1)|ovary(1)|pancreas(1)	3				Epithelial(150;2.89e-07)|BRCA - Breast invasive adenocarcinoma(625;0.204)		ACCCTGGGGGTTACGCTTCCT	0.498													27	112					0	0	1	0	0		C	8132264	C	C	8132264	3	2	151	1	0	0	0	0	1	0	0	0	13379	1725	60	3	22	3	RIC3	11	8132264	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	15160	8132264	126874252	2551	79716											
SBF2	81846	broad.mit.edu	37	chr11	9803113	9803113	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctggggccagcagggaTgaccatttctacttcagcca	9	9	11	12	0	2	1	1	1	1	0	2	2	2	2	3	3	4	2	3	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:9803113T>C	uc001mib.2	-	39	5530	c.5392A>G	c.(5392-5394)ATC>GTC	p.I1798V	uc001mhz.1_Intron|SBF2_uc001mid.2_Missense_Mutation_p.I442V|SBF2_uc001mic.2_Missense_Mutation_p.I88V|uc001mie.3_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1798	PH.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		CCAGCAGGGATGACCATTTCT	0.483													40	164					0	0	1	0	0		C	9803113	C	C	9803113	3	2	151	1	0	0	0	0	1	0	0	0	13884	1464	51	3	165	3	SBF2	11	9803113	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1670849	9803113	125203403	2552	79717											
SBF2	81846	broad.mit.edu	37	chr11	9853940	9853940	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaactactgtcctgtacagcTtgaggtacgactaaaaggcc	13	9	9	10	1	0	1	0	1	0	0	1	2	1	1	2	2	5	3	2	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:9853940T>C	uc001mib.2	-	27	3621	c.3483A>G	c.(3481-3483)CAA>CAG	p.Q1161Q		NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1161	Myotubularin phosphatase.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		CCTGTACAGCTTGAGGTACGA	0.333													26	76					0	0	1	0	0		C	9853940	C	C	9853940	2	2	151	1	0	0	0	0	0	0	0	1	13884	1606	56	3		3	SBF2	11	9853940	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	50827	9853940	125152576	2553	79718											
USP47	55031	broad.mit.edu	37	chr11	11927031	11927031	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgagggctggcgaatcgAcacatatcttgatattccat	11	13	9	8	2	1	2	0	2	1	0	3	4	2	2	1	2	0	1	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:11927031A>G	uc001mjq.1	+	9	1728	c.965A>G	c.(964-966)GAC>GGC	p.D322G	USP47_uc001mjr.2_Missense_Mutation_p.D234G|USP47_uc001mjs.2_Missense_Mutation_p.D302G	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	322					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		TGGCGAATCGACACATATCTT	0.423													19	66					0	0	1	0	0		G	11927031	G	G	11927031	3	3	151	1	0	0	0	0	1	0	0	0	17104	275	10	3	727	3	USP47	11	11927031	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2073091	11927031	123079485	2554	79719											
PARVA	55742	broad.mit.edu	37	chr11	12530142	12530142	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttcagaaacgagaaggAatcctccagtctcggcaaat	14	8	8	11	2	2	2	1	0	1	2	5	4	4	3	3	2	1	1	3	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:12530142A>G	uc001mki.2	+	7	718	c.669A>G	c.(667-669)GGA>GGG	p.G223G	PARVA_uc010rck.1_Silent_p.G170G	NM_018222	NP_060692	Q9NVD7	PARVA_HUMAN	parvin, alpha	223					cell adhesion|cell junction assembly|cilium morphogenesis	actin cytoskeleton|cytosol|focal adhesion	actin binding			breast(3)	3				Epithelial(150;0.00624)		AACGAGAAGGAATCCTCCAGT	0.428													23	102					0	0	1	0	0		G	12530142	G	G	12530142	2	3	151	1	0	0	0	0	0	0	0	1	11487	233	9	3		3	PARVA	11	12530142	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	603111	12530142	122476374	2555	79720											
RRAS2	22800	broad.mit.edu	37	chr11	14316397	14316397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaaactcttcttgtcctgCtgtatccaaaactaaagaaa	14	12	4	11	0	2	1	0	0	2	1	5	1	5	1	3	0	3	2	3	0	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:14316397C>T	uc001mlf.3	-	3	521	c.208G>A	c.(208-210)GCA>ACA	p.A70T	RRAS2_uc009ygq.2_5'UTR|RRAS2_uc010rco.1_Missense_Mutation_p.A76T	NM_012250	NP_036382	P62070	RRAS2_HUMAN	related RAS viral (r-ras) oncogene homolog 2	70	GTP (By similarity).					endoplasmic reticulum|plasma membrane	GTP binding|GTPase activity|protein binding			breast(1)	1				Epithelial(150;0.203)		TCTTGTCCTGCTGTATCCAAA	0.403													41	138					0	0	1	0	0		T	14316397	T	T	14316397	3	4	151	1	0	0	0	0	1	0	0	0	13702	797	28	2	422	2	RRAS2	11	14316397	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1786255	14316397	120690119	2556	79721											
COPB1	1315	broad.mit.edu	37	chr11	14486521	14486521	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgttagctttaatatttgcGaagtcatgaggagcaagagt	13	12	11	5	2	1	2	1	1	0	1	1	4	1	3	0	1	3	3	0	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:14486521G>A	uc001mli.2	-	18	2653	c.2346C>T	c.(2344-2346)TTC>TTT	p.F782F	COPB1_uc001mlg.2_Silent_p.F782F|COPB1_uc001mlh.2_Silent_p.F782F	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	782					COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						TAATATTTGCGAAGTCATGAG	0.328													12	68					0	0	1	0	0		A	14486521	A	A	14486521	2	1	151	1	0	0	0	0	0	0	0	1	3731	1049	37	1		1	COPB1	11	14486521	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	170124	14486521	120519995	2557	79722											
COPB1	1315	broad.mit.edu	37	chr11	14515965	14515965	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttcaaagcttcagtctTtgactttacatctccttttt	7	21	3	10	0	5	1	2	1	3	0	6	1	5	1	1	0	2	1	1	0	2	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:14515965T>A	uc001mli.2	-	3	419	c.112A>T	c.(112-114)AAG>TAG	p.K38*	COPB1_uc001mlg.2_Nonsense_Mutation_p.K38*|COPB1_uc001mlh.2_Nonsense_Mutation_p.K38*|PSMA1_uc010rcp.1_RNA	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	38					COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						GCTTCAGTCTTTGACTTTACA	0.289													14	102					0	0	1	0	0		A	14515965	A	A	14515965	4	1	151	1	0	0	0	0	0	1	0	0	3731	1850	64	5	2829	5	COPB1	11	14515965	Nonsense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	29444	14515965	120490551	2558	79723											
PDE3B	5140	broad.mit.edu	37	chr11	14839924	14839924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaacttagaaattctgataGcaatctgtgtaacaggtaag	15	11	9	6	0	2	2	0	1	2	1	2	2	2	2	0	1	3	4	0	1	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:14839924G>A	uc001mln.2	+	6	2071	c.1718G>A	c.(1717-1719)AGC>AAC	p.S573N	PDE3B_uc010rcr.1_Missense_Mutation_p.S522N	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	573					cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						AATTCTGATAGCAATCTGTGT	0.289													10	70					0	0	1	0	0		A	14839924	A	A	14839924	3	1	151	1	0	0	0	0	1	0	0	0	11657	971	34	2	1740	2	PDE3B	11	14839924	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	323959	14839924	120166592	2559	79724											
CYP2R1	120227	broad.mit.edu	37	chr11	14913534	14913534	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcggggctgtacctctccgTacacctggctctgctttctc	3	13	10	15	2	3	0	0	0	3	0	6	0	3	0	3	3	3	5	3	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:14913534T>C	uc001mlr.2	-	1	218	c.218A>G	c.(217-219)TAC>TGC	p.Y73C	CYP2R1_uc001mlo.2_5'Flank|CYP2R1_uc001mlp.2_5'Flank|CYP2R1_uc001mlq.2_5'Flank	NM_024514	NP_078790	Q6VVX0	CP2R1_HUMAN	cytochrome P450, family 2, subfamily R,	73					hormone biosynthetic process|vitamin D metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholestanetriol 26-monooxygenase activity|electron carrier activity|heme binding|vitamin D3 25-hydroxylase activity			ovary(1)|central_nervous_system(1)	2					Cholecalciferol(DB00169)|Ergocalciferol(DB00153)	TACCTCTCCGTACACCTGGCT	0.687													5	19					0	0	1	0	0		C	14913534	C	C	14913534	3	2	151	1	0	0	0	0	1	0	0	0	4176	1638	57	3	1307	3	CYP2R1	11	14913534	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	73610	14913534	120092982	2560	79725											
PIK3C2A	5286	broad.mit.edu	37	chr11	17156673	17156673	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catacccctagttgaactccTgctagtgtcttctcctccaa	8	13	5	15	0	2	1	0	1	2	0	5	1	4	1	5	0	3	2	5	0	5	5	rs143022303		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:17156673T>C	uc001mmq.3	-	9	1948	c.1882A>G	c.(1882-1884)AGG>GGG	p.R628G	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Missense_Mutation_p.R248G|PIK3C2A_uc001mmr.3_Intron|PIK3C2A_uc010rcx.1_Missense_Mutation_p.R628G	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	628					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	GTTGAACTCCTGCTAGTGTCT	0.338													6	262					0	0	1	0	0		C	17156673	C	C	17156673	3	2	151	1	0	0	0	0	1	0	0	0	11928	1579	55	3	3274	3	PIK3C2A	11	17156673	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2243139	17156673	117849843	2561	79726											
KCNJ11	3767	broad.mit.edu	37	chr11	17409176	17409176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgttgatcatgagccccaCgatgttctgcacgatgagga	9	9	13	10	3	2	3	1	3	1	0	2	6	2	4	2	2	2	3	2	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:17409176C>T	uc001mna.2	-	1	1031	c.463G>A	c.(463-465)GTG>ATG	p.V155M	KCNJ11_uc001mnb.3_Missense_Mutation_p.V68M	NM_000525	NP_000516	B4DWI4	B4DWI4_HUMAN	potassium inwardly-rectifying channel J11	155						integral to membrane	ATP-activated inward rectifier potassium channel activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0276)|Colorectal(2;0.0633)		ATGAGCCCCACGATGTTCTGC	0.562											OREG0020810	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	34					0	0	1	0	0		T	17409176	T	T	17409176	3	4	151	1	0	0	0	0	1	0	0	0	8061	536	19	1	713	1	KCNJ11	11	17409176	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	252503	17409176	117597340	2562	79727											
NAV2	89797	broad.mit.edu	37	chr11	20122663	20122663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatagtgcttcgagagggacGggagttgacagacggggtta	10	9	17	5	3	0	3	0	1	0	2	1	6	0	5	0	4	1	3	0	4	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:20122663G>A	uc001mpr.3	+	32	6732	c.6371G>A	c.(6370-6372)CGG>CAG	p.R2124Q	NAV2_uc001mpp.2_Missense_Mutation_p.R2057Q|NAV2_uc009yhx.2_Missense_Mutation_p.R1185Q|NAV2_uc009yhz.2_Missense_Mutation_p.R766Q|NAV2_uc001mpu.2_Missense_Mutation_p.R559Q	NM_182964	NP_892009	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 1	2180						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						CGAGAGGGACGGGAGTTGACA	0.532													18	79					0	0	1	0	0		A	20122663	A	A	20122663	3	1	151	1	0	0	0	0	1	0	0	0	10202	1116	39	1	6606	1	NAV2	11	20122663	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2713487	20122663	114883853	2563	79728											
SLC6A5	9152	broad.mit.edu	37	chr11	20629055	20629055	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgatgctgatcatctctgTcctaatagccatatactaca	11	12	6	12	2	2	1	1	1	1	0	4	2	3	1	2	0	4	1	2	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:20629055T>C	uc001mqd.2	+	5	1115	c.842T>C	c.(841-843)GTC>GCC	p.V281A	SLC6A5_uc009yic.2_Missense_Mutation_p.V46A	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	281	Helical; Name=3; (Potential).				synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	ATCATCTCTGTCCTAATAGCC	0.443													73	360					0	0	1	0	0		C	20629055	C	C	20629055	3	2	151	1	0	0	0	0	1	0	0	0	14712	1667	58	3	860	3	SLC6A5	11	20629055	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	506392	20629055	114377461	2564	79729											
MUC15	143662	broad.mit.edu	37	chr11	26587159	26587159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actggagaaatctgttattcCgtggctgttgttgggtagat	8	15	13	5	1	1	2	0	0	1	2	2	3	2	2	1	3	0	5	1	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:26587159C>T	uc001mqx.2	-	2	513	c.247G>A	c.(247-249)GGA>AGA	p.G83R	ANO3_uc010rdr.1_Intron|ANO3_uc001mqt.3_Intron|ANO3_uc010rds.1_Intron|ANO3_uc010rdt.1_Intron|MUC15_uc001mqw.2_Missense_Mutation_p.G110R|MUC15_uc001mqy.2_Missense_Mutation_p.G110R	NM_145650	NP_663625	Q8N387	MUC15_HUMAN	mucin 15 isoform b	83	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						TCTGTTATTCCGTGGCTGTTG	0.428													23	108					0	0	1	0	0		T	26587159	T	T	26587159	3	4	151	1	0	0	0	0	1	0	0	0	9990	661	23	1	769	1	MUC15	11	26587159	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5958104	26587159	108419357	2565	79730											
FIBIN	387758	broad.mit.edu	37	chr11	27016599	27016599	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtccctgctgaaggagAcactggacatctctgtgggg	8	8	14	11	0	1	2	0	1	1	1	3	4	2	3	2	5	1	1	2	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:27016599A>G	uc001mrd.2	+	1	972	c.526A>G	c.(526-528)ACA>GCA	p.T176A		NM_203371	NP_976249	Q8TAL6	FIBIN_HUMAN	fin bud initiation factor homolog precursor	176						extracellular region|Golgi apparatus					0						GCTGAAGGAGACACTGGACAT	0.567													25	97					0	0	1	0	0		G	27016599	G	G	27016599	3	3	151	1	0	0	0	0	1	0	0	0	5899	275	10	3	528	3	FIBIN	11	27016599	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	429440	27016599	107989917	2566	79731											
BBOX1	8424	broad.mit.edu	37	chr11	27141369	27141369	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattactgtgatttttctgtAcaatcaaaacataaaattat	16	16	4	5	0	2	1	1	1	1	0	2	2	2	1	0	0	3	1	0	0	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:27141369A>G	uc001mre.1	+	7	1181	c.813A>G	c.(811-813)GTA>GTG	p.V271V	BBOX1_uc009yih.1_Silent_p.V271V|BBOX1_uc001mrg.1_Silent_p.V271V	NM_003986	NP_003977	O75936	BODG_HUMAN	gamma-butyrobetaine dioxygenase	271					carnitine biosynthetic process	actin cytoskeleton|cytosol|intracellular membrane-bounded organelle	gamma-butyrobetaine dioxygenase activity|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1					Succinic acid(DB00139)|Vitamin C(DB00126)	ATTTTTCTGTACAATCAAAAC	0.303													29	90					0	0	1	0	0		G	27141369	G	G	27141369	2	3	151	1	0	0	0	0	0	0	0	1	1335	378	14	3		3	BBOX1	11	27141369	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	124770	27141369	107865147	2567	79732											
KCNA4	3739	broad.mit.edu	37	chr11	30032677	30032677	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatggtcaccacagcccAccaaaatgcatctgggatgc	11	8	9	13	0	3	0	2	0	1	0	3	1	3	1	3	2	3	1	3	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:30032677A>G	uc001msk.2	-	2	2701	c.1549T>C	c.(1549-1551)TGG>CGG	p.W517R		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	517						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						ACCACAGCCCACCAAAATGCA	0.517													15	84					0	0	1	0	0		G	30032677	G	G	30032677	3	3	151	1	0	0	0	0	1	0	0	0	8021	159	6	3	416	3	KCNA4	11	30032677	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2891308	30032677	104973839	2568	79733											
DCDC1	341019	broad.mit.edu	37	chr11	31312290	31312290	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgaggtcctctcagtaagTttcttcattctaatagaaag	12	14	7	8	0	4	2	2	1	3	1	6	2	5	2	1	1	0	2	1	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:31312290T>C	uc001msv.2	-	7	1066	c.864A>G	c.(862-864)AAA>AAG	p.K288K	DCDC1_uc001msu.1_Intron	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	288					intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					TCTCAGTAAGTTTCTTCATTC	0.383													32	92					0	0	1	0	0		C	31312290	C	C	31312290	2	2	151	1	0	0	0	0	0	0	0	1	4287	1722	60	3		3	DCDC1	11	31312290	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1279613	31312290	103694226	2569	79734											
PAX6	5080	broad.mit.edu	37	chr11	31824298	31824298	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgggccccgctgtgagctAgctctacaatcttctgccgg	5	9	12	15	3	3	1	0	1	3	0	3	1	3	1	4	2	4	3	4	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:31824298A>G	uc001mtd.3	-	4	985	c.95T>C	c.(94-96)CTA>CCA	p.L32P	PAX6_uc001mte.3_Missense_Mutation_p.L32P|PAX6_uc001mtg.3_Missense_Mutation_p.L32P|PAX6_uc001mtf.3_Missense_Mutation_p.L32P|PAX6_uc001mth.3_Missense_Mutation_p.L32P|PAX6_uc009yjr.2_Missense_Mutation_p.L32P	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	32	Paired.				blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					GCTGTGAGCTAGCTCTACAAT	0.652									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				3	21					0	0	1	0	0		G	31824298	G	G	31824298	3	3	151	1	0	0	0	0	1	0	0	0	11502	420	15	3	1255	3	PAX6	11	31824298	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	512008	31824298	103182218	2570	79735											
RCN1	5954	broad.mit.edu	37	chr11	32118854	32118854	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaatttcctgggaagaatAcaaacaagccacctatggtt	16	10	7	8	0	0	1	0	0	0	1	1	2	1	2	3	2	3	1	3	2	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:32118854A>G	uc010reb.1	+	2	685	c.419A>G	c.(418-420)TAC>TGC	p.Y140C	RCN1_uc010rea.1_Missense_Mutation_p.Y89C|RCN1_uc001mtk.2_Translation_Start_Site	NM_002901	NP_002892	Q15293	RCN1_HUMAN	reticulocalbin 1 precursor	140	EF-hand 2.					endoplasmic reticulum lumen	calcium ion binding			large_intestine(1)	1	Lung SC(675;0.225)					TGGGAAGAATACAAACAAGCC	0.443													7	34					0	0	1	0	0		G	32118854	G	G	32118854	3	3	151	1	0	0	0	0	1	0	0	0	13204	391	14	3	425	3	RCN1	11	32118854	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	294556	32118854	102887662	2571	79736											
CCDC73	493860	broad.mit.edu	37	chr11	32635338	32635338	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgattctgttttctctgtAttatttaacaatgtatgctg	10	20	6	5	0	2	1	0	1	2	0	3	1	2	1	0	0	2	4	0	0	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:32635338A>G	uc001mtv.2	-	16	2570	c.2526T>C	c.(2524-2526)AAT>AAC	p.N842N		NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	842										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					TTTTCTCTGTATTATTTAACA	0.348													69	272					0	0	1	0	0		G	32635338	G	G	32635338	2	3	151	1	0	0	0	0	0	0	0	1	2849	446	16	3		3	CCDC73	11	32635338	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	516484	32635338	102371178	2572	79737											
FBXO3	26273	broad.mit.edu	37	chr11	33780074	33780074	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccattgtgaattcggtatgaAcatcgataatcgtcaggaag	13	11	10	7	3	1	2	1	2	0	0	4	4	1	3	1	2	1	1	1	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:33780074A>G	uc001muz.2	-	4	460	c.432T>C	c.(430-432)TGT>TGC	p.C144C	FBXO3_uc001muy.2_Silent_p.C31C|FBXO3_uc009ykb.2_RNA|FBXO3_uc001mva.1_Silent_p.C144C|FBXO3_uc001mvb.1_Silent_p.C139C|FBXO3_uc010rek.1_RNA	NM_012175	NP_036307	Q9UK99	FBX3_HUMAN	F-box only protein 3 isoform 1	144					proteolysis	nucleus	ubiquitin-protein ligase activity			pancreas(1)	1		Lung NSC(402;0.0804)		BRCA - Breast invasive adenocarcinoma(625;0.00315)|Lung(977;0.00488)|LUSC - Lung squamous cell carcinoma(625;0.008)		TTCGGTATGAACATCGATAAT	0.393													17	94					0	0	1	0	0		G	33780074	G	G	33780074	2	3	151	1	0	0	0	0	0	0	0	1	5753	41	2	3		3	FBXO3	11	33780074	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1144736	33780074	101226442	2573	79738											
EHF	26298	broad.mit.edu	37	chr11	34680429	34680429	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggatggacgaagactggTatataaatttgggaagaatg	14	11	14	2	1	0	2	0	0	0	2	0	6	0	5	0	4	0	1	0	4	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:34680429T>C	uc001mvr.1	+	9	965	c.854T>C	c.(853-855)GTA>GCA	p.V285A	EHF_uc009yke.1_Missense_Mutation_p.V262A|EHF_uc009ykf.1_Missense_Mutation_p.V288A	NM_012153	NP_036285	Q9NZC4	EHF_HUMAN	ets homologous factor	285	ETS.				cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)			CGAAGACTGGTATATAAATTT	0.398													22	52					0	0	1	0	0		C	34680429	C	C	34680429	3	2	151	1	0	0	0	0	1	0	0	0	4987	1638	57	3	884	3	EHF	11	34680429	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	900355	34680429	100326087	2574	79739											
PDHX	8050	broad.mit.edu	37	chr11	34991757	34991757	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agattaactgaatctaaaagTactgtacctcatgcatatgc	15	12	6	8	0	2	2	1	1	1	1	2	2	2	2	1	0	5	3	1	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:34991757T>C	uc001mvt.2	+	7	1414	c.888T>C	c.(886-888)AGT>AGC	p.S296S	PDHX_uc010rep.1_Silent_p.S281S|PDHX_uc010req.1_Intron	NM_003477	NP_003468	O00330	ODPX_HUMAN	pyruvate dehydrogenase complex, component X	296					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	acyltransferase activity			kidney(1)	1	all_epithelial(35;0.115)|Lung NSC(22;0.218)|all_lung(20;0.242)	all_hematologic(20;0.124)	STAD - Stomach adenocarcinoma(6;0.00113)			AATCTAAAAGTACTGTACCTC	0.393													13	86					0	0	1	0	0		C	34991757	C	C	34991757	2	2	151	1	0	0	0	0	0	0	0	1	11686	1635	57	3		3	PDHX	11	34991757	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	311328	34991757	100014759	2575	79740											
FJX1	24147	broad.mit.edu	37	chr11	35641182	35641182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgcggtccgggcggggCgctggtctttctggacaatg	4	8	17	12	5	2	0	0	0	2	0	3	1	3	1	2	6	0	2	2	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:35641182C>T	uc001mwh.2	+	1	1448	c.998C>T	c.(997-999)GCG>GTG	p.A333V		NM_014344	NP_055159	Q86VR8	FJX1_HUMAN	four jointed box 1 precursor	333						extracellular space					0	all_cancers(35;0.177)|all_lung(20;0.0238)|Lung NSC(22;0.0494)|all_epithelial(35;0.0739)	all_hematologic(20;0.107)				CCGGGCGGGGCGCTGGTCTTT	0.642													9	18					0	0	1	0	0		T	35641182	T	T	35641182	3	4	151	1	0	0	0	0	1	0	0	0	5915	768	27	1	1000	1	FJX1	11	35641182	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	649425	35641182	99365334	2576	79741											
LRRC4C	57689	broad.mit.edu	37	chr11	40136377	40136377	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgtgagagaggtggtcAcattggtggtctcccagtcg	6	11	17	7	1	2	2	1	1	1	1	4	3	2	2	1	5	0	0	1	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:40136377A>G	uc001mxa.1	-	2	3430	c.1466T>C	c.(1465-1467)GTG>GCG	p.V489A	LRRC4C_uc001mxc.1_Missense_Mutation_p.V485A|LRRC4C_uc001mxd.1_Missense_Mutation_p.V485A|LRRC4C_uc001mxb.1_Missense_Mutation_p.V485A	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	489					regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				AGAGGTGGTCACATTGGTGGT	0.522													20	80					0	0	1	0	0		G	40136377	G	G	40136377	3	3	151	1	0	0	0	0	1	0	0	0	9026	159	6	3	460	3	LRRC4C	11	40136377	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4495195	40136377	94870139	2577	79742											
TTC17	55761	broad.mit.edu	37	chr11	43427103	43427103	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctaaaagagcagattgtAcagaaagctaccctagagtc	15	7	10	9	0	0	4	0	0	0	4	1	4	0	4	2	1	4	3	2	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:43427103A>G	uc001mxi.2	+	12	1533	c.1519A>G	c.(1519-1521)ACA>GCA	p.T507A	TTC17_uc001mxh.2_Missense_Mutation_p.T507A|TTC17_uc010rfj.1_Missense_Mutation_p.T450A|TTC17_uc001mxj.2_Missense_Mutation_p.T277A	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	507							binding			ovary(5)	5						AGCAGATTGTACAGAAAGCTA	0.383													39	226					0	0	1	0	0		G	43427103	G	G	43427103	3	3	151	1	0	0	0	0	1	0	0	0	16710	391	14	3	1565	3	TTC17	11	43427103	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3290726	43427103	91579413	2578	79743											
ACCSL	390110	broad.mit.edu	37	chr11	44072889	44072889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggtctgtttacagcctgCgggaagaagtggcccggttc	6	10	15	10	2	1	1	0	0	1	1	2	2	1	2	2	4	3	2	2	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:44072889C>T	uc001mxw.1	+	4	696	c.640C>T	c.(640-642)CGG>TGG	p.R214W	ACCSL_uc009ykr.2_Missense_Mutation_p.R33W	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	214							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						TTACAGCCTGCGGGAAGAAGT	0.493													24	124					0	0	1	0	0		T	44072889	T	T	44072889	3	4	151	1	0	0	0	0	1	0	0	0	134	759	27	1	654	1	ACCSL	11	44072889	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	645786	44072889	90933627	2579	79744											
CHST1	8534	broad.mit.edu	37	chr11	45671419	45671419	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcggccgtggccgccgagTttcgcacggtgccgtatttg	3	11	14	13	7	1	0	0	0	1	0	3	1	1	0	4	3	1	3	4	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:45671419T>C	uc001mys.1	-	4	1726	c.1055A>G	c.(1054-1056)AAC>AGC	p.N352S		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	352	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		GGCCGCCGAGTTTCGCACGGT	0.672													20	70					0	0	1	0	0		C	45671419	C	C	45671419	3	2	151	1	0	0	0	0	1	0	0	0	3400	1725	60	3	184	3	CHST1	11	45671419	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1598530	45671419	89335097	2580	79745											
GYLTL1B	120071	broad.mit.edu	37	chr11	45947887	45947887	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgctgctactctgaggcgTctgacctcaaggtgagtggg	7	9	15	10	2	3	3	1	3	2	0	3	3	3	3	1	3	3	2	1	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:45947887T>C	uc001nbv.1	+	8	1108	c.997T>C	c.(997-999)TCT>CCT	p.S333P	GYLTL1B_uc001nbw.1_Missense_Mutation_p.S302P|GYLTL1B_uc001nbx.1_Missense_Mutation_p.S333P|GYLTL1B_uc001nby.1_5'Flank|GYLTL1B_uc001nbz.1_5'Flank	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	333	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		CTCTGAGGCGTCTGACCTCAA	0.612													15	93					0	0	1	0	0		C	45947887	C	C	45947887	3	2	151	1	0	0	0	0	1	0	0	0	6923	1667	58	3	1023	3	GYLTL1B	11	45947887	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	276468	45947887	89058629	2581	79746											
PHF21A	51317	broad.mit.edu	37	chr11	45992799	45992799	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccttctgactgttgatggcGgtcaccatagcaatggtagg	8	11	13	9	1	2	2	1	2	1	0	2	2	2	2	2	4	1	3	2	4	3	4	rs148927461		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:45992799G>A	uc001ncc.3	-	7	1104	c.480C>T	c.(478-480)ACC>ACT	p.T160T	PHF21A_uc001ncb.3_Silent_p.T160T|PHF21A_uc009ykx.2_Silent_p.T160T|PHF21A_uc001nce.2_Silent_p.T160T|PHF21A_uc001nca.1_5'UTR	NM_001101802	NP_001095272	Q96BD5	PF21A_HUMAN	BRAF35/HDAC2 complex isoform a	160					blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						TGTTGATGGCGGTCACCATAG	0.547													28	92					0	0	1	0	0		A	45992799	A	A	45992799	2	1	151	1	0	0	0	0	0	0	0	1	11852	1103	39	1		1	PHF21A	11	45992799	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	44912	45992799	89013717	2582	79747											
AMBRA1	55626	broad.mit.edu	37	chr11	46564329	46564329	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccactcagatcctgtcaacCcaggagctatttctcggtga	9	11	8	13	1	3	2	2	1	1	1	6	3	5	3	3	2	2	1	3	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:46564329C>A	uc010rgu.1	-	7	1598	c.1238G>T	c.(1237-1239)GGG>GTG	p.G413V	AMBRA1_uc010rgt.1_5'UTR|AMBRA1_uc009ylc.1_Missense_Mutation_p.G413V|AMBRA1_uc001ncu.1_Missense_Mutation_p.G323V|AMBRA1_uc001ncv.2_Missense_Mutation_p.G323V|AMBRA1_uc001ncw.2_Missense_Mutation_p.G323V|AMBRA1_uc001ncx.2_Missense_Mutation_p.G413V	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	413					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		TCCTGTCAACCCAGGAGCTAT	0.602													22	105					8.10497e-08	8.29275e-08	1	1	0		A	46564329	A	A	46564329	3	1	151	1	0	0	0	0	1	0	0	0	565	623	22	5	2706	5	AMBRA1	11	46564329	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	571530	46564329	88442187	2583	79748											
ZNF408	79797	broad.mit.edu	37	chr11	46727107	46727107	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcatgggctacaccctcccGcagagcctcaggcggcatca	8	5	12	16	2	2	1	2	0	0	1	3	1	3	1	3	4	2	4	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:46727107G>A	uc001nde.1	+	5	2087	c.1857G>A	c.(1855-1857)CCG>CCA	p.P619P	ZNF408_uc010rgw.1_Silent_p.P611P	NM_024741	NP_079017	Q9H9D4	ZN408_HUMAN	zinc finger protein 408	619	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding				0						ACACCCTCCCGCAGAGCCTCA	0.652													18	45					0	0	1	0	0		A	46727107	A	A	46727107	2	1	151	1	0	0	0	0	0	0	0	1	17913	1074	38	1		1	ZNF408	11	46727107	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	162778	46727107	88279409	2584	79749											
F2	2147	broad.mit.edu	37	chr11	46747671	46747671	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgaggagggcgtgtggtgCtatgtggccgggaagcctgg	6	8	21	6	2	0	1	0	1	0	0	0	4	0	3	2	6	2	1	2	6	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:46747671C>T	uc001ndf.3	+	7	865	c.822C>T	c.(820-822)TGC>TGT	p.C274C	F2_uc001ndg.3_RNA	NM_000506	NP_000497	P00734	THRB_HUMAN	coagulation factor II preproprotein	274	Kringle 2.				activation of caspase activity|acute-phase response|blood coagulation, intrinsic pathway|cell surface receptor linked signaling pathway|cytosolic calcium ion homeostasis|fibrinolysis|leukocyte migration|negative regulation of astrocyte differentiation|negative regulation of fibrinolysis|negative regulation of platelet activation|negative regulation of proteolysis|peptidyl-glutamic acid carboxylation|platelet activation|positive regulation of collagen biosynthetic process|positive regulation of protein phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of release of sequestered calcium ion into cytosol|post-translational protein modification|proteolysis|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	cytosol|endoplasmic reticulum lumen|extracellular space|Golgi lumen|plasma membrane|soluble fraction	calcium ion binding|growth factor activity|serine-type endopeptidase activity|thrombospondin receptor activity			ovary(3)	3		all_lung(304;0.000414)|Lung NSC(402;0.0011)		BRCA - Breast invasive adenocarcinoma(625;0.146)	Antihemophilic Factor(DB00025)|Argatroban(DB00278)|Bivalirudin(DB00006)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)|Enoxaparin(DB01225)|Heparin(DB01109)|Lepirudin(DB00001)|Menadione(DB00170)|Proflavine(DB01123)|Simvastatin(DB00641)|Suramin(DB04786)|Warfarin(DB00682)|Ximelagatran(DB04898)	GCGTGTGGTGCTATGTGGCCG	0.607													26	110					0	0	1	0	0		T	46747671	T	T	46747671	2	4	151	1	0	0	0	0	0	0	0	1	5350	805	28	2		2	F2	11	46747671	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	20564	46747671	88258845	2585	79750											
F2	2147	broad.mit.edu	37	chr11	46747718	46747718	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggtactgcgacctcaactAttgtggtgagctgcctgggt	6	12	14	9	1	1	1	1	1	0	0	1	2	1	1	2	3	5	2	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:46747718A>G	uc001ndf.3	+	7	912	c.869A>G	c.(868-870)TAT>TGT	p.Y290C	F2_uc001ndg.3_RNA	NM_000506	NP_000497	P00734	THRB_HUMAN	coagulation factor II preproprotein	290	Kringle 2.				activation of caspase activity|acute-phase response|blood coagulation, intrinsic pathway|cell surface receptor linked signaling pathway|cytosolic calcium ion homeostasis|fibrinolysis|leukocyte migration|negative regulation of astrocyte differentiation|negative regulation of fibrinolysis|negative regulation of platelet activation|negative regulation of proteolysis|peptidyl-glutamic acid carboxylation|platelet activation|positive regulation of collagen biosynthetic process|positive regulation of protein phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of release of sequestered calcium ion into cytosol|post-translational protein modification|proteolysis|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	cytosol|endoplasmic reticulum lumen|extracellular space|Golgi lumen|plasma membrane|soluble fraction	calcium ion binding|growth factor activity|serine-type endopeptidase activity|thrombospondin receptor activity			ovary(3)	3		all_lung(304;0.000414)|Lung NSC(402;0.0011)		BRCA - Breast invasive adenocarcinoma(625;0.146)	Antihemophilic Factor(DB00025)|Argatroban(DB00278)|Bivalirudin(DB00006)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)|Enoxaparin(DB01225)|Heparin(DB01109)|Lepirudin(DB00001)|Menadione(DB00170)|Proflavine(DB01123)|Simvastatin(DB00641)|Suramin(DB04786)|Warfarin(DB00682)|Ximelagatran(DB04898)	GACCTCAACTATTGTGGTGAG	0.577													18	81					0	0	1	0	0		G	46747718	G	G	46747718	3	3	151	1	0	0	0	0	1	0	0	0	5350	449	16	3	895	3	F2	11	46747718	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	47	46747718	88258798	2586	79751											
CKAP5	9793	broad.mit.edu	37	chr11	46765729	46765729	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactcccggagctgagagagTttgctgtggagcatgtctgt	7	11	15	8	1	1	2	0	1	1	1	2	6	2	4	1	2	3	4	1	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:46765729T>C	uc001ndi.1	-	44	6053	c.5943A>G	c.(5941-5943)AAA>AAG	p.K1981K	CKAP5_uc009ylg.1_Silent_p.K1874K|CKAP5_uc001ndj.1_Silent_p.K1921K|CKAP5_uc001ndh.1_Silent_p.K910K	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	1981					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						GCTGAGAGAGTTTGCTGTGGA	0.537													18	60					0	0	1	0	0		C	46765729	C	C	46765729	2	2	151	1	0	0	0	0	0	0	0	1	3448	1722	60	3		3	CKAP5	11	46765729	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	18011	46765729	88240787	2587	79752											
PACSIN3	29763	broad.mit.edu	37	chr11	47203980	47203980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacggtccccctccactttCgggcccagtcagccaactgc	6	7	8	20	2	1	0	1	0	0	0	4	0	3	0	6	2	3	0	6	2	1	1	rs147642333	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:47203980C>T	uc001ndw.2	-	4	523	c.185G>A	c.(184-186)CGA>CAA	p.R62Q	PACSIN3_uc001ndx.2_Missense_Mutation_p.R62Q|PACSIN3_uc001ndy.2_Missense_Mutation_p.R62Q|PACSIN3_uc001ndz.2_RNA|PACSIN3_uc001nea.2_RNA	NM_016223	NP_057307	Q9UKS6	PACN3_HUMAN	protein kinase C and casein kinase substrate in	62	FCH.				endocytosis|negative regulation of endocytosis|positive regulation of membrane protein ectodomain proteolysis	cytoplasm|plasma membrane	cytoskeletal protein binding				0						CCTCCACTTTCGGGCCCAGTC	0.667													18	57					0	0	1	0	0		T	47203980	T	T	47203980	3	4	151	1	0	0	0	0	1	0	0	0	11395	884	31	1	1121	1	PACSIN3	11	47203980	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	438251	47203980	87802536	2588	79753											
SLC39A13	91252	broad.mit.edu	37	chr11	47436421	47436421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctggggggcctactgggcGctggcttcgccatctgtacc	3	9	15	14	3	1	0	0	0	1	0	2	0	1	0	3	5	2	4	3	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:47436421G>A	uc009ylq.2	+	8	1051	c.880G>A	c.(880-882)GCT>ACT	p.A294T	SLC39A13_uc001nfd.2_3'UTR|SLC39A13_uc001nfe.1_RNA|SLC39A13_uc001nff.3_Missense_Mutation_p.A294T|SLC39A13_uc001nfg.3_Missense_Mutation_p.A294T	NM_001128225	NP_001121697	Q96H72	S39AD_HUMAN	solute carrier family 39 (zinc transporter),	294	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity				0				Lung(87;0.0936)		CCTACTGGGCGCTGGCTTCGC	0.662													23	96					0	0	1	0	0		A	47436421	A	A	47436421	3	1	151	1	0	0	0	0	1	0	0	0	14641	1087	38	1	906	1	SLC39A13	11	47436421	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	232441	47436421	87570095	2589	79754											
NUP160	23279	broad.mit.edu	37	chr11	47837550	47837550	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagttcactccaggaaagaTccaaattcctctcagttcct	11	12	5	13	0	3	1	3	0	1	1	8	2	7	2	4	1	0	2	4	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:47837550T>G	uc001ngm.2	-	12	1548	c.1463A>C	c.(1462-1464)GAT>GCT	p.D488A	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	488					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						CCAGGAAAGATCCAAATTCCT	0.348													15	76					0	0	1	0	0		G	47837550	G	G	47837550	3	3	151	1	0	0	0	0	1	0	0	0	10776	1435	50	5	2947	5	NUP160	11	47837550	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	401129	47837550	87168966	2590	79755											
PTPRJ	5795	broad.mit.edu	37	chr11	48152056	48152056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgacagtggtcagcacgaCggagatcggcttagcatgga	11	7	15	8	3	1	2	1	1	0	1	2	5	1	3	0	4	2	3	0	4	1	1	rs140690947	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:48152056C>T	uc001ngp.3	+	8	1758	c.1403C>T	c.(1402-1404)ACG>ATG	p.T468M	PTPRJ_uc001ngo.3_Missense_Mutation_p.T468M	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	468	Extracellular (Potential).|Fibronectin type-III 5.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						GTCAGCACGACGGAGATCGGC	0.468													10	63					0	0	1	0	0		T	48152056	T	T	48152056	3	4	151	1	0	0	0	0	1	0	0	0	12829	536	19	1	1433	1	PTPRJ	11	48152056	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	314506	48152056	86854460	2591	79756											
OR4C3	256144	broad.mit.edu	37	chr11	48347301	48347301	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacctgtggagcccacttcaTtgttgttgccttgttctttg	4	17	9	11	0	2	0	1	0	1	0	2	1	2	1	3	1	2	3	3	1	0	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:48347301T>C	uc010rhv.1	+	1	809	c.809T>C	c.(808-810)ATT>ACT	p.I270T		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GCCCACTTCATTGTTGTTGCC	0.438													51	258					0	0	1	0	0		C	48347301	C	C	48347301	3	2	151	1	0	0	0	0	1	0	0	0	11069	1493	52	3	811	3	OR4C3	11	48347301	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	195245	48347301	86659215	2592	79757											
FOLH1	2346	broad.mit.edu	37	chr11	49197411	49197411	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattaaaatagtctcttaacTgtgtagaaaagtttccagta	16	14	6	5	0	1	1	0	0	1	1	3	1	2	1	1	0	1	3	1	0	9	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:49197411T>C	uc001ngy.2	-	8	1280	c.1019A>G	c.(1018-1020)CAA>CGA	p.Q340R	FOLH1_uc001ngz.2_Missense_Mutation_p.Q340R|FOLH1_uc009yly.2_Missense_Mutation_p.Q325R|FOLH1_uc009ylz.2_Missense_Mutation_p.Q325R|FOLH1_uc009yma.2_Missense_Mutation_p.Q32R	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	340	NAALADase.|Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	GTCTCTTAACTGTGTAGAAAA	0.373													24	93					0	0	1	0	0		C	49197411	C	C	49197411	3	2	151	1	0	0	0	0	1	0	0	0	5993	1594	55	3	1281	3	FOLH1	11	49197411	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	850110	49197411	85809105	2593	79758											
OR4C46	119749	broad.mit.edu	37	chr11	51515506	51515506	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctgctattcctctgtcaaTacccctaacctgatcacaca	10	11	4	16	0	3	1	2	1	1	0	4	1	4	1	5	0	3	1	5	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:51515506T>C	uc010ric.1	+	1	225	c.225T>C	c.(223-225)AAT>AAC	p.N75N		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	75	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCTCTGTCAATACCCCTAACC	0.483													84	279					0	0	1	0	0		C	51515506	C	C	51515506	2	2	151	1	0	0	0	0	0	0	0	1	11070	1403	49	3		3	OR4C46	11	51515506	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2318095	51515506	83491010	2594	79759											
OR4A15	81328	broad.mit.edu	37	chr11	55135662	55135662	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattcatagataccgtctaTtctactgcatttgctcccaa	10	15	4	12	1	4	1	2	0	2	1	5	1	5	1	2	0	4	2	2	0	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:55135662T>C	uc010rif.1	+	1	303	c.303T>C	c.(301-303)TAT>TAC	p.Y101Y		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	101	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						ATACCGTCTATTCTACTGCAT	0.418													39	249					0	0	1	0	0		C	55135662	C	C	55135662	2	2	151	1	0	0	0	0	0	0	0	1	11059	1500	52	3		3	OR4A15	11	55135662	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3620156	55135662	79870854	2595	79760											
OR4C16	219428	broad.mit.edu	37	chr11	55339775	55339775	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcacttaagaacccaatgTtcttcttccttttctactta	10	16	4	11	0	3	1	0	0	3	1	4	1	4	1	2	1	2	2	2	1	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:55339775T>G	uc010rih.1	+	1	172	c.172T>G	c.(172-174)TTC>GTC	p.F58V		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				GAACCCAATGTTCTTCTTCCT	0.388													65	235					0	0	1	0	0		G	55339775	G	G	55339775	3	3	151	1	0	0	0	0	1	0	0	0	11068	1725	60	5	174	5	OR4C16	11	55339775	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	204113	55339775	79666741	2596	79761											
OR4C11	219429	broad.mit.edu	37	chr11	55371683	55371683	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaaatagaaagaagtacatgGggcttcctagtgtccggctg	13	9	12	7	1	0	2	0	0	0	2	2	2	2	2	2	3	1	3	2	3	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:55371683G>T	uc010rii.1	-	1	167	c.167C>A	c.(166-168)CCC>CAC	p.P56H		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GAAGTACATGGGGCTTCCTAG	0.378													24	144					1.66031e-10	1.71102e-10	1	1	0		T	55371683	T	T	55371683	3	4	151	1	0	0	0	0	1	0	0	0	11064	1232	43	5	767	5	OR4C11	11	55371683	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	31908	55371683	79634833	2597	79762											
OR5W2	390148	broad.mit.edu	37	chr11	55681578	55681578	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcataggcggaaggccagtgTcatatgtatcaaagcatctg	12	9	12	8	1	3	0	2	0	1	0	3	1	3	1	1	3	1	3	1	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:55681578T>C	uc010rir.1	-	1	481	c.481A>G	c.(481-483)ACA>GCA	p.T161A		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	161	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AAGGCCAGTGTCATATGTATC	0.448													24	121					0	0	1	0	0		C	55681578	C	C	55681578	3	2	151	1	0	0	0	0	1	0	0	0	11204	1667	58	3	453	3	OR5W2	11	55681578	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	309895	55681578	79324938	2598	79763											
OR5AS1	219447	broad.mit.edu	37	chr11	55798339	55798339	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgcttcattgtgttggcaTatttcagtggaagtacaaca	10	15	9	7	0	3	0	2	0	1	0	3	1	3	1	0	2	3	4	0	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:55798339T>C	uc010riw.1	+	1	445	c.445T>C	c.(445-447)TAT>CAT	p.Y149H		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	149	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					TGTGTTGGCATATTTCAGTGG	0.458													61	248					0	0	1	0	0		C	55798339	C	C	55798339	3	2	151	1	0	0	0	0	1	0	0	0	11165	1406	49	3	447	3	OR5AS1	11	55798339	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	116761	55798339	79208177	2599	79764											
OR8I2	120586	broad.mit.edu	37	chr11	55861664	55861664	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctacagtctgaggaacaAagatgtgaaaaatgctcttc	15	10	8	8	0	3	3	0	2	3	1	4	4	3	4	0	1	3	1	0	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:55861664A>G	uc010rix.1	+	1	881	c.881A>G	c.(880-882)AAA>AGA	p.K294R		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	294	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					CTGAGGAACAAAGATGTGAAA	0.398													11	61					0	0	1	0	0		G	55861664	G	G	55861664	3	3	151	1	0	0	0	0	1	0	0	0	11259	14	1	3	883	3	OR8I2	11	55861664	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	63325	55861664	79144852	2600	79765											
OR8H3	390152	broad.mit.edu	37	chr11	55890310	55890310	+	Missense_Mutation	SNP	G	T	T																															ccttatgtgattggctttatGgactcctttgtcaatgtggt																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:55890310G>T	uc001nii.1	+	1	462	c.462G>T	c.(460-462)ATG>ATT	p.M154I		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					TTGGCTTTATGGACTCCTTTG	0.438													8	334					6.40141e-05	6.47532e-05	1	1	0		T	55890310	T	T	55890310	3	4	151	1	0	0	0	0	1	0	0	0	11258	1348	47	5	464	5	OR8H3	11	55890310	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	28646	55890310	79116206	2601	79766	150	2									
OR8H3	390152	broad.mit.edu	37	chr11	55890312	55890312	+	Missense_Mutation	SNP	A	G	G																															ttatgtgattggctttatggActcctttgtcaatgtggttt																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:55890312A>G	uc001nii.1	+	1	464	c.464A>G	c.(463-465)GAC>GGC	p.D155G		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					GGCTTTATGGACTCCTTTGTC	0.448													9	338					0	0	1	0	0		G	55890312	G	G	55890312	3	3	151	1	0	0	0	0	1	0	0	0	11258	275	10	3	466	3	OR8H3	11	55890312	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2	55890312	79116204	2602	79767	150	2									
OR8H3	390152	broad.mit.edu	37	chr11	55890420	55890420	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagctctgtcctgcactgAcacagacaacactgaaatgc	12	10	7	12	0	1	3	0	2	1	1	2	3	2	3	1	0	4	2	1	0	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:55890420A>G	uc001nii.1	+	1	572	c.572A>G	c.(571-573)GAC>GGC	p.D191G		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					TCCTGCACTGACACAGACAAC	0.423													74	345					0	0	1	0	0		G	55890420	G	G	55890420	3	3	151	1	0	0	0	0	1	0	0	0	11258	275	10	3	574	3	OR8H3	11	55890420	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	108	55890420	79116096	2603	79768											
OR8J3	81168	broad.mit.edu	37	chr11	55904915	55904915	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgggtggcacattcatagaAtgaggtagttttcttcttta	9	17	10	5	0	3	2	1	1	2	1	3	2	3	2	0	3	0	3	0	3	4	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:55904915A>T	uc010riz.1	-	1	280	c.280T>A	c.(280-282)TTC>ATC	p.F94I		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					CATTCATAGAATGAGGTAGTT	0.423													34	193					0	0	1	0	0		T	55904915	T	T	55904915	3	4	151	1	0	0	0	0	1	0	0	0	11261	101	4	5	669	5	OR8J3	11	55904915	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	14495	55904915	79101601	2604	79769											
OR5J2	282775	broad.mit.edu	37	chr11	55944776	55944776	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttttgctagcctaaggaTccactcagcatcaggcagac	10	10	9	12	0	2	1	2	0	0	1	3	2	3	2	2	2	4	4	2	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:55944776T>G	uc010rjb.1	+	1	683	c.683T>G	c.(682-684)ATC>AGC	p.I228S		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	228	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					AGCCTAAGGATCCACTCAGCA	0.463													32	156					0	0	1	0	0		G	55944776	G	G	55944776	3	3	151	1	0	0	0	0	1	0	0	0	11184	1435	50	5	685	5	OR5J2	11	55944776	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	39861	55944776	79061740	2605	79770											
OR5T1	390155	broad.mit.edu	37	chr11	56043602	56043602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcactgcttcctatgttgCtagcattttacatgctacta	9	16	5	11	0	1	0	1	0	0	0	2	0	2	0	1	0	6	5	1	0	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:56043602C>T	uc001nio.1	+	1	488	c.488C>T	c.(487-489)GCT>GTT	p.A163V		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	163	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TCCTATGTTGCTAGCATTTTA	0.433													72	328					0	0	1	0	0		T	56043602	T	T	56043602	3	4	151	1	0	0	0	0	1	0	0	0	11200	797	28	2	490	2	OR5T1	11	56043602	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	98826	56043602	78962914	2606	79771											
OR8J1	219477	broad.mit.edu	37	chr11	56128242	56128242	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttattgctcttctaatataAtcaatcatttttactgtgat	11	20	3	7	0	4	1	2	1	2	0	4	1	4	1	0	0	2	1	0	0	6	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:56128242A>G	uc010rjh.1	+	1	520	c.520A>G	c.(520-522)ATC>GTC	p.I174V		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	174	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TTCTAATATAATCAATCATTT	0.368													8	133					0	0	1	0	0		G	56128242	G	G	56128242	3	3	151	1	0	0	0	0	1	0	0	0	11260	101	4	3	522	3	OR8J1	11	56128242	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	84640	56128242	78878274	2607	79772											
OR8J1	219477	broad.mit.edu	37	chr11	56128506	56128506	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctattcatgtatgtgcagCcccgaagtaaccattcactg	10	12	8	11	1	2	0	2	0	0	0	2	1	2	0	3	0	4	4	3	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:56128506C>G	uc010rjh.1	+	1	784	c.784C>G	c.(784-786)CCC>GCC	p.P262A		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GTATGTGCAGCCCCGAAGTAA	0.408													44	184					0	0	1	0	0		G	56128506	G	G	56128506	3	3	151	1	0	0	0	0	1	0	0	0	11260	739	26	5	786	5	OR8J1	11	56128506	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	264	56128506	78878010	2608	79773											
APLNR	187	broad.mit.edu	37	chr11	57003976	57003976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctccaagtccccggtggtgCgtaacaccatgacaggcatg	9	8	11	13	2	1	1	0	1	1	0	3	1	2	1	4	3	2	2	4	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:57003976C>T	uc001njo.2	-	1	952	c.503G>A	c.(502-504)CGC>CAC	p.R168H	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	168	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						CCCGGTGGTGCGTAACACCAT	0.642													11	45					0	0	1	0	0		T	57003976	T	T	57003976	3	4	151	1	0	0	0	0	1	0	0	0	777	768	27	1	643	1	APLNR	11	57003976	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	875470	57003976	78002540	2609	79774											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57077433	57077433	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcggcatcctggctgctgtAcctaccatggtggtccctct	5	12	10	14	1	1	0	0	0	1	0	4	0	3	0	4	4	3	4	4	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:57077433A>G	uc001njr.2	-	5	3064	c.2752T>C	c.(2752-2754)TAC>CAC	p.Y918H	TNKS1BP1_uc001njs.2_Missense_Mutation_p.Y918H|TNKS1BP1_uc009ymd.1_Missense_Mutation_p.Y369H	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	918	Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				TGGCTGCTGTACCTACCATGG	0.572													8	301					0	0	1	0	0		G	57077433	G	G	57077433	3	3	151	1	0	0	0	0	1	0	0	0	16345	391	14	3	2461	3	TNKS1BP1	11	57077433	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	73457	57077433	77929083	2610	79775											
SLC43A3	29015	broad.mit.edu	37	chr11	57182546	57182546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcgtagctccagaaggagCggagttcctgcttctgccct	8	9	12	12	2	1	1	0	0	1	1	3	3	3	3	3	2	5	4	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:57182546C>T	uc001nkg.2	-	10	1213	c.803G>A	c.(802-804)CGC>CAC	p.R268H	PRG2_uc001nke.2_Missense_Mutation_p.R167H|SLC43A3_uc001nkh.2_Missense_Mutation_p.R268H|SLC43A3_uc010rjr.1_Missense_Mutation_p.R281H|SLC43A3_uc009yme.2_Missense_Mutation_p.R268H|SLC43A3_uc001nki.2_Missense_Mutation_p.R268H|SLC43A3_uc009ymf.1_Missense_Mutation_p.R268H	NM_014096	NP_054815	Q8NBI5	S43A3_HUMAN	solute carrier family 43, member 3	268					transmembrane transport	integral to membrane				central_nervous_system(1)	1						CCAGAAGGAGCGGAGTTCCTG	0.572													28	81					0	0	1	0	0		T	57182546	T	T	57182546	3	4	151	1	0	0	0	0	1	0	0	0	14659	768	27	1	692	1	SLC43A3	11	57182546	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	105113	57182546	77823970	2611	79776											
UBE2L6	9246	broad.mit.edu	37	chr11	57319863	57319863	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccactccgaatcggagggTgaactcttcggcattctttc	7	12	10	12	3	2	1	0	1	2	0	7	3	4	2	2	3	1	1	2	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:57319863T>C	uc001nkn.1	-	4	526	c.430A>G	c.(430-432)ACC>GCC	p.T144A	UBE2L6_uc001nko.1_Missense_Mutation_p.T78A	NM_004223	NP_004214	O14933	UB2L6_HUMAN	ubiquitin-conjugating enzyme E2L 6 isoform 1	144					negative regulation of type I interferon production	cytosol	protein binding|ubiquitin-protein ligase activity			ovary(1)	1						AATCGGAGGGTGAACTCTTCG	0.577													18	194					0	0	1	0	0		C	57319863	C	C	57319863	3	2	151	1	0	0	0	0	1	0	0	0	16890	1696	59	3	35	3	UBE2L6	11	57319863	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	137317	57319863	77686653	2612	79777											
CLP1	10978	broad.mit.edu	37	chr11	57428563	57428563	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttatggattccgaggctgTttctatccccatgccttcaa	7	16	7	11	1	2	0	1	0	1	0	4	2	4	1	4	2	1	2	4	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:57428563T>C	uc001nkw.2	+	3	1072	c.933T>C	c.(931-933)TGT>TGC	p.C311C	CLP1_uc010rjw.1_Silent_p.C247C|CLP1_uc009yml.2_Silent_p.C311C	NM_006831	NP_006822	Q92989	CLP1_HUMAN	ATP/GTP-binding protein isoform 1	311					mRNA 3'-end processing|nuclear mRNA splicing, via spliceosome|siRNA loading onto RISC involved in RNA interference|targeting of mRNA for destruction involved in RNA interference|termination of RNA polymerase II transcription|tRNA splicing, via endonucleolytic cleavage and ligation	nucleoplasm|tRNA-intron endonuclease complex	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity			ovary(1)	1						TCCGAGGCTGTTTCTATCCCC	0.498													50	203					0	0	1	0	0		C	57428563	C	C	57428563	2	2	151	1	0	0	0	0	0	0	0	1	3553	1731	60	3		3	CLP1	11	57428563	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	108700	57428563	77577953	2613	79778											
ZDHHC5	25921	broad.mit.edu	37	chr11	57466793	57466793	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgaaccaggcccaacagccCcatacctgggccgatcgatg	10	5	10	16	2	0	1	0	1	0	0	1	3	0	1	6	2	4	0	6	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:57466793C>A	uc001nkx.1	+	11	3141	c.1885C>A	c.(1885-1887)CCA>ACA	p.P629T	ZDHHC5_uc001nky.1_Missense_Mutation_p.P576T|ZDHHC5_uc001nkz.1_Missense_Mutation_p.P443T	NM_015457	NP_056272	Q9C0B5	ZDHC5_HUMAN	zinc finger, DHHC domain containing 5	629						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)	1						CCCAACAGCCCCATACCTGGG	0.597													18	118					4.22769e-11	4.36345e-11	1	1	0		A	57466793	A	A	57466793	3	1	151	1	0	0	0	0	1	0	0	0	17643	623	22	5	1923	5	ZDHHC5	11	57466793	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	38230	57466793	77539723	2614	79779											
CTNND1	1500	broad.mit.edu	37	chr11	57564331	57564331	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcgtggatctgcatcgcTttcatccagagccttatggg	7	11	12	11	2	2	1	1	0	1	1	4	2	3	2	2	2	3	3	2	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:57564331T>C	uc001nmc.3	+	6	1394	c.823T>C	c.(823-825)TTT>CTT	p.F275L	CTNND1_uc001nlf.1_Missense_Mutation_p.F275L|CTNND1_uc001nlh.1_Missense_Mutation_p.F275L|CTNND1_uc001nlu.3_Missense_Mutation_p.F174L|CTNND1_uc001nlt.3_Missense_Mutation_p.F174L|CTNND1_uc001nls.3_Missense_Mutation_p.F174L|CTNND1_uc001nlw.3_Missense_Mutation_p.F174L|CTNND1_uc001nmf.3_Missense_Mutation_p.F275L|CTNND1_uc001nmd.3_Missense_Mutation_p.F221L|CTNND1_uc001nlk.3_Missense_Mutation_p.F221L|CTNND1_uc001nme.3_Missense_Mutation_p.F275L|CTNND1_uc001nll.3_Missense_Mutation_p.F221L|CTNND1_uc001nmg.3_Missense_Mutation_p.F221L|CTNND1_uc001nlj.3_Missense_Mutation_p.F221L|CTNND1_uc001nlr.3_Missense_Mutation_p.F221L|CTNND1_uc001nlp.3_Missense_Mutation_p.F221L|CTNND1_uc001nlx.3_Intron|CTNND1_uc001nlz.3_Intron|CTNND1_uc009ymn.2_Intron|CTNND1_uc001nlm.3_Missense_Mutation_p.F275L|CTNND1_uc001nly.3_Intron|CTNND1_uc001nmb.3_Intron|CTNND1_uc001nma.3_Intron|CTNND1_uc001nmi.3_Missense_Mutation_p.F174L|CTNND1_uc001nmh.3_Missense_Mutation_p.F275L|CTNND1_uc001nlq.3_Missense_Mutation_p.F174L|CTNND1_uc001nln.3_Missense_Mutation_p.F275L|CTNND1_uc001nli.3_Missense_Mutation_p.F275L|CTNND1_uc001nlo.3_Missense_Mutation_p.F174L|CTNND1_uc001nlv.3_Missense_Mutation_p.F174L	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	275					adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				TCTGCATCGCTTTCATCCAGA	0.557													52	241					0	0	1	0	0		C	57564331	C	C	57564331	3	2	151	1	0	0	0	0	1	0	0	0	4022	1609	56	3	837	3	CTNND1	11	57564331	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	97538	57564331	77442185	2615	79780											
OR9I1	219954	broad.mit.edu	37	chr11	57886082	57886082	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcatggggatgaccactgTatagaagacagacacgactt	14	7	11	9	1	0	4	0	1	0	3	0	6	0	5	1	2	1	2	1	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:57886082T>C	uc001nml.1	-	1	835	c.835A>G	c.(835-837)ACA>GCA	p.T279A	OR9Q1_uc001nmj.2_Intron	NM_001005211	NP_001005211	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I,	279	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Breast(21;0.0589)				ATGACCACTGTATAGAAGACA	0.478													42	155					0	0	1	0	0		C	57886082	C	C	57886082	3	2	151	1	0	0	0	0	1	0	0	0	11272	1638	57	3	113	3	OR9I1	11	57886082	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	321751	57886082	77120434	2616	79781											
OR9Q2	219957	broad.mit.edu	37	chr11	57958080	57958080	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttctatcttgccactatgTtagggaacacaggcatgatc	10	13	9	9	0	2	1	0	1	2	0	3	2	2	2	1	2	2	3	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:57958080T>C	uc010rka.1	+	1	118	c.118T>C	c.(118-120)TTA>CTA	p.L40L		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				TGCCACTATGTTAGGGAACAC	0.498													21	58					0	0	1	0	0		C	57958080	C	C	57958080	2	2	151	1	0	0	0	0	0	0	0	1	11275	1722	60	3		3	OR9Q2	11	57958080	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	71998	57958080	77048436	2617	79782											
OR10Q1	219960	broad.mit.edu	37	chr11	57995544	57995544	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatcctctgaggtgctggaCcgaggacgcaggtacacgag	9	7	14	11	3	2	1	1	1	1	0	3	5	3	3	2	4	2	3	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:57995544C>T	uc010rkd.1	-	1	804	c.804G>A	c.(802-804)CGG>CGA	p.R268R		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				AGGTGCTGGACCGAGGACGCA	0.602													8	44					0	0	1	0	0		T	57995544	T	T	57995544	2	4	151	1	0	0	0	0	0	0	0	1	10935	494	18	4		4	OR10Q1	11	57995544	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	37464	57995544	77010972	2618	79783											
OR5B3	441608	broad.mit.edu	37	chr11	58170499	58170499	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcatggttgtggtgtaatgTaggggtttgcacactgctgc	6	14	15	6	0	1	0	1	0	0	0	1	0	1	0	0	4	3	6	0	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:58170499T>A	uc010rkf.1	-	1	384	c.384A>T	c.(382-384)CTA>CTT	p.L128L		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	128	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TGGTGTAATGTAGGGGTTTGC	0.493													30	131					0	0	1	0	0		A	58170499	A	A	58170499	2	1	151	1	0	0	0	0	0	0	0	1	11171	1625	57	5		5	OR5B3	11	58170499	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	174955	58170499	76836017	2619	79784											
OR5B2	390190	broad.mit.edu	37	chr11	58190667	58190667	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacaagataaagagggggAtctgtagttctgggacactg	13	9	14	5	0	2	3	0	1	2	2	2	5	2	5	0	3	1	2	0	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:58190667A>C	uc010rkg.1	-	1	68	c.68T>G	c.(67-69)ATC>AGC	p.I23S		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	23	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AAAGAGGGGGATCTGTAGTTC	0.458													27	127					0	0	1	0	0		C	58190667	C	C	58190667	3	2	151	1	0	0	0	0	1	0	0	0	11169	333	12	5	865	5	OR5B2	11	58190667	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	20168	58190667	76815849	2620	79785											
OR4D9	390199	broad.mit.edu	37	chr11	59283042	59283042	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctcctcatatcttacacGgtcatcttgatgatgctgag	8	16	7	10	1	5	3	2	3	3	0	6	3	5	3	1	1	2	1	1	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:59283042G>A	uc010rkv.1	+	1	657	c.657G>A	c.(655-657)ACG>ACA	p.T219T		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	219	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TATCTTACACGGTCATCTTGA	0.493													50	243					0	0	1	0	0		A	59283042	A	A	59283042	2	1	151	1	0	0	0	0	0	0	0	1	11078	1103	39	1		1	OR4D9	11	59283042	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1092375	59283042	75723474	2621	79786											
PATL1	219988	broad.mit.edu	37	chr11	59424057	59424057	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgggggccgaacatggacaGgcttcggacacagaatctat	11	8	13	9	2	1	1	0	0	1	1	2	4	1	3	1	5	1	1	1	5	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:59424057G>T	uc001noe.3	-	6	781	c.638C>A	c.(637-639)CCT>CAT	p.P213H	PATL1_uc009yms.1_Missense_Mutation_p.P213H|PATL1_uc010rkw.1_Intron	NM_152716	NP_689929	Q86TB9	PATL1_HUMAN	protein associated with topoisomerase II homolog	213	Pro-rich.|Region N; interaction with decapping machinery.				cytoplasmic mRNA processing body assembly|deadenylation-dependent decapping of nuclear-transcribed mRNA	cytoplasmic mRNA processing body	protein binding|RNA binding			ovary(1)	1						AACATGGACAGGCTTCGGACA	0.483													7	37					8.12818e-05	8.21897e-05	1	1	0		T	59424057	T	T	59424057	3	4	151	1	0	0	0	0	1	0	0	0	11494	1000	35	5	1730	5	PATL1	11	59424057	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	141015	59424057	75582459	2622	79787											
PATL1	219988	broad.mit.edu	37	chr11	59425039	59425039	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacagccatctgtttaggTggggtgcctatggggacagc	7	10	16	8	0	1	0	0	0	1	0	1	1	1	1	2	6	4	2	2	6	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:59425039T>C	uc001noe.3	-	5	728	c.585A>G	c.(583-585)CCA>CCG	p.P195P	PATL1_uc009yms.1_Silent_p.P195P|PATL1_uc010rkw.1_Intron	NM_152716	NP_689929	Q86TB9	PATL1_HUMAN	protein associated with topoisomerase II homolog	195	Pro-rich.|Region N; interaction with decapping machinery.				cytoplasmic mRNA processing body assembly|deadenylation-dependent decapping of nuclear-transcribed mRNA	cytoplasmic mRNA processing body	protein binding|RNA binding			ovary(1)	1						TCTGTTTAGGTGGGGTGCCTA	0.488													21	112					0	0	1	0	0		C	59425039	C	C	59425039	2	2	151	1	0	0	0	0	0	0	0	1	11494	1683	59	3		3	PATL1	11	59425039	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	982	59425039	75581477	2623	79788											
MRPL16	54948	broad.mit.edu	37	chr11	59574011	59574011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagagtcccgcggctcacagCctttgctgcgaagggcaact	8	8	12	13	3	1	1	1	0	0	1	2	2	2	1	2	2	4	3	2	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:59574011C>T	uc001noh.2	-	4	779	c.565G>A	c.(565-567)GCT>ACT	p.A189T		NM_017840	NP_060310	Q9NX20	RM16_HUMAN	mitochondrial ribosomal protein L16 precursor	189							rRNA binding			central_nervous_system(1)	1						CGGCTCACAGCCTTTGCTGCG	0.522													42	153					0	0	1	0	0		T	59574011	T	T	59574011	3	4	151	1	0	0	0	0	1	0	0	0	9799	739	26	2	194	2	MRPL16	11	59574011	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	148972	59574011	75432505	2624	79789											
MS4A10	341116	broad.mit.edu	37	chr11	60557963	60557963	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagcacgagaagtcccagaAgaagagcagccttcttaagg	14	5	11	11	1	1	4	0	0	1	4	2	5	2	4	3	1	3	2	3	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:60557963A>G	uc001npz.1	+	2	251	c.155A>G	c.(154-156)AAG>AGG	p.K52R		NM_206893	NP_996776	Q96PG2	M4A10_HUMAN	membrane-spanning 4-domains, subfamily A, member	52	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(1)|skin(1)	2						AAGTCCCAGAAGAAGAGCAGC	0.622													15	64					0	0	1	0	0		G	60557963	G	G	60557963	3	3	151	1	0	0	0	0	1	0	0	0	9873	72	3	3	157	3	MS4A10	11	60557963	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	983952	60557963	74448553	2625	79790											
TMEM109	79073	broad.mit.edu	37	chr11	60689377	60689377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcttggccttgctggggCggatcctgtggggcctgaag	3	11	18	9	1	1	1	0	1	1	0	2	2	2	2	3	7	1	1	3	7	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:60689377C>T	uc001nqg.2	+	4	850	c.472C>T	c.(472-474)CGG>TGG	p.R158W	TMEM109_uc001nqh.2_Missense_Mutation_p.R158W|TMEM132A_uc001nqi.2_5'Flank|TMEM132A_uc001nqj.2_5'Flank	NM_024092	NP_076997	Q9BVC6	TM109_HUMAN	transmembrane protein 109 precursor	158						integral to membrane|nuclear outer membrane|sarcoplasmic reticulum membrane					0						CTTGCTGGGGCGGATCCTGTG	0.667													17	111					0	0	1	0	0		T	60689377	T	T	60689377	3	4	151	1	0	0	0	0	1	0	0	0	16050	759	27	1	482	1	TMEM109	11	60689377	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	131414	60689377	74317139	2626	79791											
CD6	923	broad.mit.edu	37	chr11	60781400	60781400	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctccctcagccctccccgTaatggtgaaccaccagcacc	8	6	6	21	1	1	1	1	1	0	0	3	1	3	1	8	1	3	2	8	1	2	1	rs112948328		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:60781400T>C	uc001nqq.2	+	8	1524	c.1301T>C	c.(1300-1302)GTA>GCA	p.V434A	CD6_uc001nqp.2_Missense_Mutation_p.V434A|CD6_uc001nqr.2_Intron|CD6_uc001nqs.2_RNA|CD6_uc001nqt.2_Missense_Mutation_p.V434A	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule precursor	434	Cytoplasmic (Potential).				cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1						GCCCTCCCCGTAATGGTGAAC	0.562													6	45					0	0	1	0	0		C	60781400	C	C	60781400	3	2	151	1	0	0	0	0	1	0	0	0	3031	1638	57	3	1331	3	CD6	11	60781400	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	92023	60781400	74225116	2627	79792											
PGA3	643834	broad.mit.edu	37	chr11	60971733	60971733	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaacagcccctggagaacTacctggatgtgagtgtgcgg	10	8	14	9	1	0	3	0	2	0	1	0	5	0	4	3	3	5	0	3	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:60971733T>A	uc001nqx.2	+	2	264	c.211T>A	c.(211-213)TAC>AAC	p.Y71N	PGA3_uc010rld.1_Missense_Mutation_p.Y71N	NM_001079807	NP_001073275			pepsinogen 3, group I precursor											ovary(1)|skin(1)	2						CCTGGAGAACTACCTGGATGT	0.607													5	133					0	0	1	0	0		A	60971733	A	A	60971733	3	1	151	1	0	0	0	0	1	0	0	0	11790	1522	53	5	217	5	PGA3	11	60971733	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	190333	60971733	74034783	2628	79793											
DAK	26007	broad.mit.edu	37	chr11	61106890	61106890	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggcgggggctgtgcggcAcggtgcttatacacaaggtg	6	7	18	10	4	0	0	0	0	0	0	0	0	0	0	1	6	3	3	1	6	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:61106890A>C	uc001nre.2	+	5	726	c.469A>C	c.(469-471)ACG>CCG	p.T157P	DDB1_uc010rlf.1_Intron|DAK_uc009ynm.1_Missense_Mutation_p.T87P	NM_015533	NP_056348	Q3LXA3	DHAK_HUMAN	dihydroxyacetone kinase 2	157	DhaK.				glycerol metabolic process	cytosol	ATP binding|FAD-AMP lyase (cyclizing) activity|glycerone kinase activity|metal ion binding				0						GCTGTGCGGCACGGTGCTTAT	0.617													12	46					0	0	1	0	0		C	61106890	C	C	61106890	3	2	151	1	0	0	0	0	1	0	0	0	4231	159	6	5	483	5	DAK	11	61106890	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	135157	61106890	73899626	2629	79794											
DAK	26007	broad.mit.edu	37	chr11	61111397	61111397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactgggcggaagcggagccGggtagcccctgccgagcccc	6	4	16	15	4	0	0	0	0	0	0	0	3	0	2	6	4	6	1	6	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:61111397G>A	uc001nre.2	+	12	1309	c.1052G>A	c.(1051-1053)CGG>CAG	p.R351Q	DDB1_uc010rlf.1_5'Flank|DAK_uc009ynm.1_Missense_Mutation_p.R281Q	NM_015533	NP_056348	Q3LXA3	DHAK_HUMAN	dihydroxyacetone kinase 2	351					glycerol metabolic process	cytosol	ATP binding|FAD-AMP lyase (cyclizing) activity|glycerone kinase activity|metal ion binding				0						AAGCGGAGCCGGGTAGCCCCT	0.607													15	40					0	0	1	0	0		A	61111397	A	A	61111397	3	1	151	1	0	0	0	0	1	0	0	0	4231	1116	39	1	1094	1	DAK	11	61111397	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4507	61111397	73895119	2630	79795											
DAGLA	747	broad.mit.edu	37	chr11	61511005	61511005	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcctctccctctgcaggAgcaagtcccagtctgagatg	7	10	9	15	0	4	1	0	1	4	1	7	3	5	2	3	1	2	2	3	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:61511005A>G	uc001nsa.2	+	20	2284	c.2173A>G	c.(2173-2175)AGC>GGC	p.S725G		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	725	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		CCTCTGCAGGAGCAAGTCCCA	0.632													47	265					0	0	1	0	0		G	61511005	G	G	61511005	3	3	151	1	0	0	0	0	1	0	0	0	4229	318	11	3	2247	3	DAGLA	11	61511005	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	399608	61511005	73495511	2631	79796											
RAB3IL1	5866	broad.mit.edu	37	chr11	61675578	61675578	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcggagcccttctctcggAtctccatggaagagctgcgc	7	9	11	14	3	2	1	0	0	2	1	6	4	2	4	2	3	3	1	2	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:61675578A>T	uc001nso.2	-	2	370	c.212T>A	c.(211-213)ATC>AAC	p.I71N	RAB3IL1_uc001nsp.2_Missense_Mutation_p.I118N	NM_013401	NP_037533	Q8TBN0	R3GEF_HUMAN	RAB3A interacting protein (rabin3)-like 1	71							protein binding			skin(2)|central_nervous_system(1)	3						CTTCTCTCGGATCTCCATGGA	0.672													7	32					0	0	1	0	0		T	61675578	T	T	61675578	3	4	151	1	0	0	0	0	1	0	0	0	12962	333	12	5	972	5	RAB3IL1	11	61675578	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	164573	61675578	73330938	2632	79797											
AHNAK	79026	broad.mit.edu	37	chr11	62285758	62285758	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagggcatttgatgtcaccAgagacagccagatctccctg	10	10	10	11	0	2	3	1	1	1	2	3	4	2	3	3	1	1	1	3	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:62285758A>G	uc001ntl.2	-	5	16431	c.16131T>C	c.(16129-16131)TCT>TCC	p.S5377S	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	5377					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TGATGTCACCAGAGACAGCCA	0.517													27	113					0	0	1	0	0		G	62285758	G	G	62285758	2	3	151	1	0	0	0	0	0	0	0	1	414	175	7	3		3	AHNAK	11	62285758	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	610180	62285758	72720758	2633	79798											
AHNAK	79026	broad.mit.edu	37	chr11	62297276	62297276	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcctgaaacaccaaggTcagccttgggcaggttcata	10	9	12	10	0	2	1	2	1	0	0	3	1	3	1	3	4	2	2	3	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:62297276T>C	uc001ntl.2	-	5	4913	c.4613A>G	c.(4612-4614)GAC>GGC	p.D1538G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1538					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				AACACCAAGGTCAGCCTTGGG	0.507													89	315					0	0	1	0	0		C	62297276	C	C	62297276	3	2	151	1	0	0	0	0	1	0	0	0	414	1667	58	3	13179	3	AHNAK	11	62297276	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	11518	62297276	72709240	2634	79799											
AHNAK	79026	broad.mit.edu	37	chr11	62299953	62299953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tagagtcatatgaacatctgGaccttcccctttggctcctg	8	13	8	12	0	2	2	1	1	1	1	4	3	4	3	4	2	1	1	4	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:62299953G>A	uc001ntl.2	-	5	2236	c.1936C>T	c.(1936-1938)CCA>TCA	p.P646S	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	646					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TGAACATCTGGACCTTCCCCT	0.522													46	210					0	0	1	0	0		A	62299953	A	A	62299953	3	1	151	1	0	0	0	0	1	0	0	0	414	1174	41	4	15856	4	AHNAK	11	62299953	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2677	62299953	72706563	2635	79800											
TUT1	64852	broad.mit.edu	37	chr11	62342880	62342880	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttgccacactcggtgccAcaaggcacagcgccagctcg	8	5	10	18	3	0	0	0	0	0	0	2	0	0	0	4	2	4	2	4	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:62342880A>G	uc001nto.2	-	9	2463	c.2425T>C	c.(2425-2427)TGG>CGG	p.W809R	EEF1G_uc001ntm.1_5'Flank|EEF1G_uc010rlw.1_5'Flank|EEF1G_uc001ntn.1_5'Flank|TUT1_uc001ntp.1_Missense_Mutation_p.W305R	NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	771					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						ACTCGGTGCCACAAGGCACAG	0.677													29	67					0	0	1	0	0		G	62342880	G	G	62342880	3	3	151	1	0	0	0	0	1	0	0	0	16806	159	6	3	317	3	TUT1	11	62342880	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	42927	62342880	72663636	2636	79801											
MTA2	9219	broad.mit.edu	37	chr11	62364226	62364226	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacacagcaccgggcctccCtggggtaccagggtcgacat	8	5	13	15	3	0	0	0	0	0	0	2	2	1	0	4	4	2	2	4	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:62364226C>A	uc001ntq.1	-	9	1146	c.765G>T	c.(763-765)CAG>CAT	p.Q255H	MTA2_uc010rlx.1_Missense_Mutation_p.Q82H	NM_004739	NP_004730	O94776	MTA2_HUMAN	metastasis-associated protein 2	255	ELM2.				chromatin assembly or disassembly	NuRD complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CCGGGCCTCCCTGGGGTACCA	0.557													12	90					5.50884e-06	5.58596e-06	1	1	0		A	62364226	A	A	62364226	3	1	151	1	0	0	0	0	1	0	0	0	9927	680	24	5	1281	5	MTA2	11	62364226	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	21346	62364226	72642290	2637	79802											
GANAB	23193	broad.mit.edu	37	chr11	62397917	62397917	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacagccccaggttccgcaGctcctcgtgaactcggtagc	8	8	10	15	3	0	1	0	1	0	0	4	1	2	1	4	2	5	4	4	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:62397917G>T	uc001nub.2	-	12	1480	c.1447C>A	c.(1447-1449)CTG>ATG	p.L483M	GANAB_uc001nua.2_Missense_Mutation_p.L505M|GANAB_uc001nuc.2_Missense_Mutation_p.L386M|GANAB_uc010rma.1_Missense_Mutation_p.L391M|GANAB_uc010rmb.1_Missense_Mutation_p.L369M	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2	483					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5						AGGTTCCGCAGCTCCTCGTGA	0.577													30	87					4.4194e-11	4.56045e-11	1	1	0		T	62397917	T	T	62397917	3	4	151	1	0	0	0	0	1	0	0	0	6248	962	34	5	1439	5	GANAB	11	62397917	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	33691	62397917	72608599	2638	79803											
INTS5	80789	broad.mit.edu	37	chr11	62417003	62417003	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaatgtacgcgtggccctAcaacccatccacagctgtag	11	9	8	13	2	0	0	0	0	0	0	1	0	1	0	3	1	4	3	3	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:62417003A>G	uc001nud.2	-	2	602	c.549T>C	c.(547-549)TGT>TGC	p.C183C	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	183					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						GCGTGGCCCTACAACCCATCC	0.562													10	37					0	0	1	0	0		G	62417003	G	G	62417003	2	3	151	1	0	0	0	0	0	0	0	1	7797	389	14	3		3	INTS5	11	62417003	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	19086	62417003	72589513	2639	79804											
C11orf83	790955	broad.mit.edu	37	chr11	62439509	62439509	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactctgcaggaggcagcgAccacgcaggagaacgtggcc	10	3	14	14	3	1	1	0	0	1	1	1	4	1	2	3	4	3	3	3	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:62439509A>G	uc001nui.3	+	2	297	c.205A>G	c.(205-207)ACC>GCC	p.T69A	C11orf48_uc001nue.2_5'Flank|C11orf48_uc001nuf.2_5'Flank|C11orf48_uc010rmd.1_5'Flank	NM_001085372	NP_001078841	Q6UW78	CK083_HUMAN	hypothetical protein LOC790955 precursor	69						extracellular region					0						GGAGGCAGCGACCACGCAGGA	0.682													3	15					0	0	1	0	0		G	62439509	G	G	62439509	3	3	151	1	0	0	0	0	1	0	0	0	1669	275	10	3	211	3	C11orf83	11	62439509	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	22506	62439509	72567007	2640	79805											
UBXN1	51035	broad.mit.edu	37	chr11	62446168	62446168	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgagcgcttaccagtccAtcgcagcctcgatgccctgg	7	7	12	15	4	0	0	0	0	0	0	3	3	1	1	4	2	4	2	4	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:62446168A>G	uc001nul.1	-	2	239	c.107T>C	c.(106-108)ATG>ACG	p.M36T	UBXN1_uc001nuj.2_Missense_Mutation_p.M36T|UBXN1_uc001num.1_Missense_Mutation_p.M36T|UBXN1_uc001nuk.2_Missense_Mutation_p.M1T|UBXN1_uc010rme.1_Missense_Mutation_p.M36T|UBXN1_uc010rmf.1_Missense_Mutation_p.M36T	NM_015853	NP_056937	Q04323	UBXN1_HUMAN	UBX domain protein 1	36	UBA.				negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process	cytoplasm	ATPase binding|K6-linked polyubiquitin binding				0						TTACCAGTCCATCGCAGCCTC	0.652													7	10					0	0	1	0	0		G	62446168	G	G	62446168	3	3	151	1	0	0	0	0	1	0	0	0	16937	217	8	3	859	3	UBXN1	11	62446168	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6659	62446168	72560348	2641	79806											
ZBTB3	79842	broad.mit.edu	37	chr11	62520195	62520195	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatctgacacatcagtctcTtcatcagagatcacaatagc	13	11	5	12	0	7	2	5	1	2	1	8	3	7	2	0	0	1	0	0	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:62520195T>G	uc001nuz.2	-	2	1214	c.1092A>C	c.(1090-1092)GAA>GAC	p.E364D		NM_024784	NP_079060	Q9H5J0	ZBTB3_HUMAN	zinc finger and BTB domain containing 3	364					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3						CATCAGTCTCTTCATCAGAGA	0.398													6	118					0	0	1	0	0		G	62520195	G	G	62520195	3	3	151	1	0	0	0	0	1	0	0	0	17559	1606	56	5	636	5	ZBTB3	11	62520195	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	74027	62520195	72486321	2642	79807											
SLC22A6	9356	broad.mit.edu	37	chr11	62751091	62751091	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtagatggggaagttgggTgcgaaggctgcgcaggtccc	8	7	18	8	2	0	1	0	0	0	1	1	3	1	2	1	5	2	4	1	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:62751091T>C	uc001nwk.2	-	3	853	c.546A>G	c.(544-546)GCA>GCG	p.A182A	SLC22A6_uc001nwl.2_Silent_p.A182A|SLC22A6_uc001nwj.2_Silent_p.A182A|SLC22A6_uc001nwm.2_Silent_p.A182A	NM_004790	NP_004781	Q4U2R8	S22A6_HUMAN	solute carrier family 22 member 6 isoform a	182	Helical; (Potential).				alpha-ketoglutarate transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|protein binding				0						GGAAGTTGGGTGCGAAGGCTG	0.592													8	7					0	0	1	0	0		C	62751091	C	C	62751091	2	2	151	1	0	0	0	0	0	0	0	1	14483	1683	59	3		3	SLC22A6	11	62751091	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	230896	62751091	72255425	2643	79808											
SLC22A25	387601	broad.mit.edu	37	chr11	62931516	62931516	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggctcccccaatattagcaAagtttccagtgattccagta	11	11	8	11	0	0	1	0	1	0	0	3	1	3	1	4	1	1	4	4	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:62931516A>G	uc001nwr.1	-	9	1424	c.1424T>C	c.(1423-1425)TTT>TCT	p.F475S	SLC22A10_uc010rmo.1_Intron|SLC22A25_uc009yoq.1_RNA|SLC22A25_uc001nws.1_RNA	NM_199352	NP_955384	Q6T423	S22AP_HUMAN	putative UST1-like organic anion transporter	475	Helical; Name=11; (Potential).				transmembrane transport	integral to membrane				ovary(3)|skin(1)	4						AATATTAGCAAAGTTTCCAGT	0.413													50	182					0	0	1	0	0		G	62931516	G	G	62931516	3	3	151	1	0	0	0	0	1	0	0	0	14479	14	1	3	223	3	SLC22A25	11	62931516	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	180425	62931516	72075000	2644	79809											
RTN3	10313	broad.mit.edu	37	chr11	63487482	63487482	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggtgagtctgatgacaCagtaatagaggacatcacag	13	10	11	7	0	3	4	1	3	2	1	3	5	3	5	0	2	0	1	0	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:63487482C>T	uc001nxq.2	+	3	1695	c.1508C>T	c.(1507-1509)ACA>ATA	p.T503I	RTN3_uc001nxo.2_Intron|RTN3_uc001nxm.2_Intron|RTN3_uc001nxn.2_Missense_Mutation_p.T484I|RTN3_uc001nxp.2_Intron|RTN3_uc009yov.2_Missense_Mutation_p.T391I|RTN3_uc010rmt.1_Intron|RTN3_uc010rmu.1_Intron	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	503					apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						TCTGATGACACAGTAATAGAG	0.408													20	99					0	0	1	0	0		T	63487482	T	T	63487482	3	4	151	1	0	0	0	0	1	0	0	0	13752	478	17	4	1518	4	RTN3	11	63487482	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	555966	63487482	71519034	2645	79810											
RCOR2	283248	broad.mit.edu	37	chr11	63681926	63681926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggccccccagccgccgggCctgtctgtccatcacactag	5	6	11	19	3	2	0	1	0	1	0	3	0	3	0	7	2	1	0	7	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:63681926C>T	uc001nyc.2	-	6	956	c.568G>A	c.(568-570)GCC>ACC	p.A190T		NM_173587	NP_775858	Q8IZ40	RCOR2_HUMAN	REST corepressor 2	190					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)|skin(1)	2						AGCCGCCGGGCCTGTCTGTCC	0.597													20	87					0	0	1	0	0		T	63681926	T	T	63681926	3	4	151	1	0	0	0	0	1	0	0	0	13208	739	26	2	1031	2	RCOR2	11	63681926	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	194444	63681926	71324590	2646	79811											
FLRT1	23769	broad.mit.edu	37	chr11	63884888	63884888	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtgttttgagacggggccGcagggcggcgtggccaatgc	6	7	19	9	4	0	1	0	1	0	1	0	3	0	1	2	5	1	2	2	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:63884888G>A	uc001nyi.1	+	2	1490	c.1149G>A	c.(1147-1149)CCG>CCA	p.P383P	MACROD1_uc001nyh.2_Intron	NM_013280	NP_037412	Q9NZU1	FLRT1_HUMAN	fibronectin leucine rich transmembrane protein	355	Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity				0						AGACGGGGCCGCAGGGCGGCG	0.647													9	29					0	0	1	0	0		A	63884888	A	A	63884888	2	1	151	1	0	0	0	0	0	0	0	1	5952	1074	38	1		1	FLRT1	11	63884888	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	202962	63884888	71121628	2647	79812											
STIP1	10963	broad.mit.edu	37	chr11	63965054	63965054	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagaaaaccgagaagactatCgacagattgccaagtaggct	16	6	11	8	2	0	4	0	0	0	4	1	7	0	4	2	1	2	2	2	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:63965054C>T	uc001nyk.1	+	7	1036	c.889C>T	c.(889-891)CGA>TGA	p.R297*	STIP1_uc010rnb.1_Nonsense_Mutation_p.R273*	NM_006819	NP_006810	P31948	STIP1_HUMAN	stress-induced-phosphoprotein 1	297					axon guidance|response to stress	Golgi apparatus|nucleus				ovary(2)|liver(1)	3						AGAAGACTATCGACAGATTGC	0.517													8	24					0	0	1	0	0		T	63965054	T	T	63965054	4	4	151	1	0	0	0	0	0	1	0	0	15310	876	31	1	915	1	STIP1	11	63965054	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	80166	63965054	71041462	2648	79813											
CCDC88B	283234	broad.mit.edu	37	chr11	64120560	64120560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcagagttgtctcgggagCggggtgagctgcagggtgaa	7	8	20	6	2	1	3	0	2	1	1	2	4	1	4	0	5	3	4	0	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:64120560C>T	uc001nzy.2	+	21	3579	c.3535C>T	c.(3535-3537)CGG>TGG	p.R1179W	CCDC88B_uc009ypo.1_Missense_Mutation_p.R1176W|CCDC88B_uc001oaa.2_Missense_Mutation_p.R331W|CCDC88B_uc001oab.1_Missense_Mutation_p.R10W|CCDC88B_uc001oac.2_5'Flank	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	1179	Potential.				microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						GTCTCGGGAGCGGGGTGAGCT	0.682													3	6					0	0	1	0	0		T	64120560	T	T	64120560	3	4	151	1	0	0	0	0	1	0	0	0	2867	759	27	1	3617	1	CCDC88B	11	64120560	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	155506	64120560	70885956	2649	79814											
NRXN2	9379	broad.mit.edu	37	chr11	64398015	64398015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaatgtcgtccgtgcccaCgttaaagatcacccccacgg	9	8	10	14	4	1	1	1	0	0	1	3	1	2	1	4	2	1	2	4	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:64398015C>T	uc001oap.2	-	4	989	c.478G>A	c.(478-480)GTG>ATG	p.V160M	NRXN2_uc001oar.2_Missense_Mutation_p.V1206M|NRXN2_uc001oas.2_Missense_Mutation_p.V1166M|NRXN2_uc001oaq.2_Missense_Mutation_p.V873M	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	160	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						TCCGTGCCCACGTTAAAGATC	0.602													18	48					0	0	1	0	0		T	64398015	T	T	64398015	3	4	151	1	0	0	0	0	1	0	0	0	10685	536	19	1	1542	1	NRXN2	11	64398015	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	277455	64398015	70608501	2650	79815											
NRXN2	9379	broad.mit.edu	37	chr11	64419563	64419563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgccacgccggaccaccCtcaccgtgtgccactcattg	6	9	8	18	3	3	0	2	0	1	0	3	1	3	1	6	1	2	0	6	1	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:64419563C>T	uc001oar.2	-	14	2919	c.2480G>A	c.(2479-2481)AGG>AAG	p.R827K	NRXN2_uc001oas.2_Missense_Mutation_p.R787K|NRXN2_uc001oaq.2_Missense_Mutation_p.R494K	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	183	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CCGGACCACCCTCACCGTGTG	0.612													20	57					0	0	1	0	0		T	64419563	T	T	64419563	3	4	151	1	0	0	0	0	1	0	0	0	10685	681	24	4	2971	4	NRXN2	11	64419563	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	21548	64419563	70586953	2651	79816											
ATG2A	23130	broad.mit.edu	37	chr11	64677290	64677290	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcctggcccgcccaggggTccggctcaggccgcaggtcg	3	4	17	17	5	1	0	1	0	0	0	3	0	2	0	5	7	0	2	5	7	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:64677290T>C	uc001obx.2	-	14	2085	c.1970A>G	c.(1969-1971)GAC>GGC	p.D657G		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	657							protein binding			ovary(1)|central_nervous_system(1)	2						CGCCCAGGGGTCCGGCTCAGG	0.711													7	27					0	0	1	0	0		C	64677290	C	C	64677290	3	2	151	1	0	0	0	0	1	0	0	0	1094	1667	58	3	3958	3	ATG2A	11	64677290	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	257727	64677290	70329226	2652	79817											
GPHA2	170589	broad.mit.edu	37	chr11	64702546	64702546	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccaccagcacagagtaccGagaagggaaggcgctggact	12	3	15	11	2	0	2	0	0	0	2	0	5	0	4	3	4	2	3	3	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:64702546G>A	uc001oca.2	-	3	260	c.205C>T	c.(205-207)CGG>TGG	p.R69W		NM_130769	NP_570125	Q96T91	GPHA2_HUMAN	glycoprotein hormone alpha 2 precursor	69						extracellular region	hormone activity				0						ACAGAGTACCGAGAAGGGAAG	0.622													21	58					0	0	1	0	0		A	64702546	A	A	64702546	3	1	151	1	0	0	0	0	1	0	0	0	6623	1057	37	1	192	1	GPHA2	11	64702546	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	25256	64702546	70303970	2653	79818											
SAC3D1	29901	broad.mit.edu	37	chr11	64811817	64811817	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaatgctgcccgcctgtTccgtctgctccagaccctgc	4	9	11	17	2	1	1	0	0	1	1	3	1	3	1	5	1	4	4	5	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:64811817T>C	uc001ocm.2	+	2	1084	c.695T>C	c.(694-696)TTC>TCC	p.F232S	SAC3D1_uc010rnv.1_Missense_Mutation_p.F219S	NM_013299	NP_037431			SAC3 domain containing 1												0						GCCCGCCTGTTCCGTCTGCTC	0.682													8	82					0	0	1	0	0		C	64811817	C	C	64811817	3	2	151	1	0	0	0	0	1	0	0	0	13827	1783	62	3	701	3	SAC3D1	11	64811817	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	109271	64811817	70194699	2654	79819											
ZFPL1	7542	broad.mit.edu	37	chr11	64855573	64855573	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaaccctcacatccgcgTgggcccctcctgagccccct	6	7	8	20	2	1	2	1	2	0	0	3	2	3	2	7	1	2	0	7	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:64855573T>C	uc001ocq.1	+	8	1085	c.920T>C	c.(919-921)GTG>GCG	p.V307A		NM_006782	NP_006773	O95159	ZFPL1_HUMAN	zinc finger protein-like 1	307	Lumenal (Potential).				regulation of transcription, DNA-dependent|vesicle-mediated transport	Golgi apparatus|integral to membrane|nucleus	DNA binding|zinc ion binding			ovary(1)	1						CACATCCGCGTGGGCCCCTCC	0.652													23	97					0	0	1	0	0		C	64855573	C	C	64855573	3	2	151	1	0	0	0	0	1	0	0	0	17681	1696	59	3	946	3	ZFPL1	11	64855573	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	43756	64855573	70150943	2655	79820											
C11orf2	738	broad.mit.edu	37	chr11	64876190	64876190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgcagggtctccgggCggccttcctgggctgcctga	3	8	14	16	2	1	1	0	1	1	0	3	1	2	1	6	4	2	2	6	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:64876190C>T	uc001ocr.1	+	5	1287	c.1247C>T	c.(1246-1248)GCG>GTG	p.A416V	C11orf2_uc001ocs.1_Missense_Mutation_p.A292V	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	416					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						GGTCTCCGGGCGGCCTTCCTG	0.736													4	17					0	0	1	0	0		T	64876190	T	T	64876190	3	4	151	1	0	0	0	0	1	0	0	0	1636	768	27	1	1265	1	C11orf2	11	64876190	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	20617	64876190	70130326	2656	79821											
TM7SF2	7108	broad.mit.edu	37	chr11	64880808	64880808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtttgtcgccaccctcaccGctttcatcttcagcctcttt	4	15	5	17	3	5	0	3	0	2	0	6	0	5	0	4	0	1	2	4	0	0	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:64880808G>A	uc001oct.2	+	4	568	c.421G>A	c.(421-423)GCT>ACT	p.A141T	TM7SF2_uc010rny.1_Missense_Mutation_p.A25T|TM7SF2_uc001ocu.2_Missense_Mutation_p.A141T|TM7SF2_uc001ocv.2_Missense_Mutation_p.A162T	NM_003273	NP_003264	O76062	ERG24_HUMAN	transmembrane 7 superfamily member 2	141	Helical; (Potential).				cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane	delta14-sterol reductase activity			ovary(1)	1						CACCCTCACCGCTTTCATCTT	0.647											OREG0021072	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	76					0	0	1	0	0		A	64880808	A	A	64880808	3	1	151	1	0	0	0	0	1	0	0	0	15999	1087	38	1	435	1	TM7SF2	11	64880808	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4618	64880808	70125708	2657	79822											
SPDYC	387778	broad.mit.edu	37	chr11	64940375	64940375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgacctctgaatgtcatcGccctccctcccaaaattatc	9	12	4	16	1	3	2	1	2	2	0	7	2	5	2	4	0	0	0	4	0	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:64940375G>A	uc010rnz.1	+	6	737	c.737G>A	c.(736-738)CGC>CAC	p.R246H		NM_001008778	NP_001008778	Q5MJ68	SPDYC_HUMAN	speedy C	246					cell cycle	nucleus	protein kinase binding				0						GAATGTCATCGCCCTCCCTCC	0.567													34	125					0	0	1	0	0		A	64940375	A	A	64940375	3	1	151	1	0	0	0	0	1	0	0	0	15053	1087	38	1	759	1	SPDYC	11	64940375	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	59567	64940375	70066141	2658	79823											
TIGD3	220359	broad.mit.edu	37	chr11	65123616	65123616	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggagctggccgatatcAtgggccaggacttcgtgccc	8	7	13	13	2	1	0	1	0	0	0	2	3	1	2	4	4	2	1	4	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65123616A>G	uc001odo.3	+	2	500	c.337A>G	c.(337-339)ATG>GTG	p.M113V		NM_145719	NP_663771	Q6B0B8	TIGD3_HUMAN	tigger transposable element derived 3	113	H-T-H motif (By similarity).|HTH CENPB-type.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						GGCCGATATCATGGGCCAGGA	0.642													16	47					0	0	1	0	0		G	65123616	G	G	65123616	3	3	151	1	0	0	0	0	1	0	0	0	15922	217	8	3	339	3	TIGD3	11	65123616	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	183241	65123616	69882900	2659	79824											
SLC25A45	283130	broad.mit.edu	37	chr11	65143909	65143909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcggaggagatattcgtagCtgaggaaggtgacagcattg	12	8	16	5	2	0	3	0	2	0	1	1	6	0	5	0	4	3	3	0	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65143909C>T	uc001odp.1	-	6	1258	c.836G>A	c.(835-837)AGC>AAC	p.S279N	SLC25A45_uc009yqi.1_Missense_Mutation_p.S217N|SLC25A45_uc001odq.1_Missense_Mutation_p.S255N|SLC25A45_uc001odr.1_Missense_Mutation_p.S279N|SLC25A45_uc001ods.1_Missense_Mutation_p.S237N|SLC25A45_uc001odt.1_Missense_Mutation_p.S237N	NM_001077241	NP_001070709	Q8N413	S2545_HUMAN	solute carrier family 25, member 45 isoform b	279	Helical; Name=6; (Potential).|Solcar 3.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0						ATATTCGTAGCTGAGGAAGGT	0.617													13	38					0	0	1	0	0		T	65143909	T	T	65143909	3	4	151	1	0	0	0	0	1	0	0	0	14535	797	28	2	34	2	SLC25A45	11	65143909	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	20293	65143909	69862607	2660	79825											
EHBP1L1	254102	broad.mit.edu	37	chr11	65351025	65351025	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggaagcagagatgaaggTtttagagtctccagagaaca	15	7	12	7	0	1	4	0	1	1	3	2	7	1	5	2	2	2	2	2	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65351025T>C	uc001oeo.3	+	9	3147	c.2882T>C	c.(2881-2883)GTT>GCT	p.V961A	EHBP1L1_uc001oep.1_Intron	NM_001099409	NP_001092879	Q8N3D4	EH1L1_HUMAN	tangerin	961										central_nervous_system(1)	1						GAGATGAAGGTTTTAGAGTCT	0.552													11	24					0	0	1	0	0		C	65351025	C	C	65351025	3	2	151	1	0	0	0	0	1	0	0	0	4982	1725	60	3	2916	3	EHBP1L1	11	65351025	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	207116	65351025	69655491	2661	79826											
PCNXL3	399909	broad.mit.edu	37	chr11	65396413	65396413	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaagttctgggagcgcgActacaagtgagtctcacagg	10	8	12	11	2	3	1	2	1	2	0	4	3	3	2	1	2	2	1	1	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65396413A>G	uc001oey.2	+	24	3935	c.3935A>G	c.(3934-3936)GAC>GGC	p.D1312G	PCNXL3_uc001oez.2_Missense_Mutation_p.D199G	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1312						integral to membrane					0						TGGGAGCGCGACTACAAGTGA	0.647													4	18					0	0	1	0	0		G	65396413	G	G	65396413	3	3	151	1	0	0	0	0	1	0	0	0	11612	275	10	3	4029	3	PCNXL3	11	65396413	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	45388	65396413	69610103	2662	79827											
OVOL1	5017	broad.mit.edu	37	chr11	65562117	65562117	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgaagtgtcacaacgacGtcaagaggcacctctgcacg	13	6	10	12	3	3	2	2	1	1	1	3	3	3	2	1	1	2	2	1	1	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65562117G>A	uc001ofp.2	+	3	743	c.427G>A	c.(427-429)GTC>ATC	p.V143I	OVOL1_uc001ofq.2_Missense_Mutation_p.V81I	NM_004561	NP_004552	O14753	OVOL1_HUMAN	OVO-like 1 binding protein	143					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				READ - Rectum adenocarcinoma(159;0.17)		TCACAACGACGTCAAGAGGCA	0.582													26	79					0	0	1	0	0		A	65562117	A	A	65562117	3	1	151	1	0	0	0	0	1	0	0	0	11345	1145	40	1	437	1	OVOL1	11	65562117	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	165704	65562117	69444399	2663	79828											
EFEMP2	30008	broad.mit.edu	37	chr11	65635808	65635808	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccacgcagcggttggtgTccacgcagcggtagccccca	6	6	13	16	4	0	0	0	0	0	0	2	0	2	0	4	3	3	5	4	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65635808T>C	uc001ofy.3	-	9	1126	c.932A>G	c.(931-933)GAC>GGC	p.D311G	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Missense_Mutation_p.D311G	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	311	EGF-like 6; calcium-binding (Potential).				blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		GCGGTTGGTGTCCACGCAGCG	0.602													5	31					0	0	1	0	0		C	65635808	C	C	65635808	3	2	151	1	0	0	0	0	1	0	0	0	4948	1667	58	3	411	3	EFEMP2	11	65635808	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	73691	65635808	69370708	2664	79829											
CTSW	1521	broad.mit.edu	37	chr11	65650552	65650552	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccccaggaattgcgcagtAcctggccacttatggcccca	8	8	10	15	1	0	0	0	0	0	0	1	1	1	1	6	3	2	2	6	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65650552A>G	uc001ogc.1	+	8	800	c.758A>G	c.(757-759)TAC>TGC	p.Y253C	CTSW_uc001ogb.1_Missense_Mutation_p.Y253C	NM_001335	NP_001326	P56202	CATW_HUMAN	cathepsin W preproprotein	253					immune response|proteolysis		cysteine-type endopeptidase activity			central_nervous_system(1)	1				READ - Rectum adenocarcinoma(159;0.168)		ATTGCGCAGTACCTGGCCACT	0.592													10	208					0	0	1	0	0		G	65650552	G	G	65650552	3	3	151	1	0	0	0	0	1	0	0	0	4045	391	14	3	788	3	CTSW	11	65650552	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	14744	65650552	69355964	2665	79830											
SART1	9092	broad.mit.edu	37	chr11	65734962	65734962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcggggacggggtcgccGccgagtgtccgaagtggagg	6	5	20	10	6	0	0	0	0	0	0	2	4	1	2	3	6	1	0	3	6	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65734962G>A	uc001ogl.2	+	11	1426	c.1334G>A	c.(1333-1335)CGC>CAC	p.R445H		NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	445					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1						CGGGGTCGCCGCCGAGTGTCC	0.672													15	14					0	0	1	0	0		A	65734962	A	A	65734962	3	1	151	1	0	0	0	0	1	0	0	0	13871	1087	38	1	1376	1	SART1	11	65734962	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	84410	65734962	69271554	2666	79831											
SART1	9092	broad.mit.edu	37	chr11	65745360	65745360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagacgggccggaaactcaCacccaaggaggtgagcaggg	12	3	16	10	2	1	2	1	2	0	1	1	5	1	4	2	5	2	1	2	5	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65745360C>T	uc001ogl.2	+	17	2254	c.2162C>T	c.(2161-2163)ACA>ATA	p.T721I		NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	721					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1						CGGAAACTCACACCCAAGGAG	0.617													3	9					0	0	1	0	0		T	65745360	T	T	65745360	3	4	151	1	0	0	0	0	1	0	0	0	13871	478	17	4	2228	4	SART1	11	65745360	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	10398	65745360	69261156	2667	79832											
GAL3ST3	89792	broad.mit.edu	37	chr11	65810615	65810616	+	Missense_Mutation	DNP	TC	CT	CT																															ggcccgccaggtaggcggcgTcgtcgcgcgggctgcgctca																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65810615_65810616TC>CT	uc001ogv.2	-	2	818_819	c.658_659GA>AG	c.(658-660)GAC>AGC	p.D220S	GAL3ST3_uc001ogw.2_Missense_Mutation_p.D220S	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	220	Lumenal (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						GTAGGCGGCGTCGTCGCGCGGG	0.668													6	27					0	0	1	0	0		CT	65810616	CT	CT	65810615	3	2	151	1	0	0	0	0	1	0	0	0	6214	1667	58	3	640	3	GAL3ST3	11	65810615	Missense_Mutation	DNP	TC	TCGA-CG-5721-01A-11D-1600-08	65255	65810615	69195901	2668	79833											
GAL3ST3	89792	broad.mit.edu	37	chr11	65811111	65811111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcgcggcggcgagttccGcagaggagggcagctcaagg	7	3	21	10	5	1	1	1	0	0	1	2	3	2	2	1	7	1	4	1	7	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65811111G>A	uc001ogv.2	-	2	323	c.163C>T	c.(163-165)CGG>TGG	p.R55W	GAL3ST3_uc001ogw.2_Missense_Mutation_p.R55W	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	55	Lumenal (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						GGCGAGTTCCGCAGAGGAGGG	0.652													8	20					0	0	1	0	0		A	65811111	A	A	65811111	3	1	151	1	0	0	0	0	1	0	0	0	6214	1086	38	1	1136	1	GAL3ST3	11	65811111	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	496	65811111	69195405	2669	79834											
SF3B2	10992	broad.mit.edu	37	chr11	65829239	65829239	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatttccttggggatgccagTaggaccagtgagtgtcagtt	8	12	14	7	0	1	1	1	1	0	0	2	4	2	3	3	3	1	2	3	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65829239T>C	uc001ogy.1	+	15	1902	c.1862T>C	c.(1861-1863)GTA>GCA	p.V621A		NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	621					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						GGGATGCCAGTAGGACCAGTG	0.542													13	57					0	0	1	0	0		C	65829239	C	C	65829239	3	2	151	1	0	0	0	0	1	0	0	0	14176	1638	57	3	1920	3	SF3B2	11	65829239	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	18128	65829239	69177277	2670	79835											
SF3B2	10992	broad.mit.edu	37	chr11	65830509	65830509	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgggtaccatgctggtggCtggggcaaacctccagtgga	7	10	15	9	0	0	0	0	0	0	0	1	1	1	1	3	6	3	4	3	6	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:65830509C>T	uc001ogy.1	+	17	2047	c.2007C>T	c.(2005-2007)GGC>GGT	p.G669G		NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	669					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						ATGCTGGTGGCTGGGGCAAAC	0.502													5	57					0	0	1	0	0		T	65830509	T	T	65830509	2	4	151	1	0	0	0	0	0	0	0	1	14176	784	28	2		2	SF3B2	11	65830509	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1270	65830509	69176007	2671	79836											
CD248	57124	broad.mit.edu	37	chr11	66083132	66083132	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaggcagtgtgggatgcGtggcagagaccaccacaggc	11	4	16	10	1	0	2	0	0	0	2	0	4	0	3	2	4	1	2	2	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:66083132G>A	uc001ohm.1	-	1	1384	c.1367C>T	c.(1366-1368)ACG>ATG	p.T456M		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	456	Pro-rich.|Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	TGTGGGATGCGTGGCAGAGAC	0.662													21	75					0	0	1	0	0		A	66083132	A	A	66083132	3	1	151	1	0	0	0	0	1	0	0	0	2992	1145	40	1	910	1	CD248	11	66083132	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	252623	66083132	68923384	2672	79837											
ACTN3	89	broad.mit.edu	37	chr11	66330379	66330379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagacagccgagactgacaCgactgagcaagttgtagctt	13	7	12	9	2	0	4	0	2	0	2	0	7	0	4	1	0	3	4	1	0	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:66330379C>T	uc001oio.1	+	21	2519	c.2501C>T	c.(2500-2502)ACG>ATG	p.T834M	ACTN3_uc010rpi.1_RNA	NM_001104	NP_001095	Q08043	ACTN3_HUMAN	actinin, alpha 3	834					focal adhesion assembly|muscle filament sliding|regulation of apoptosis	actin filament|cytosol|focal adhesion|pseudopodium	actin binding|calcium ion binding|integrin binding|protein homodimerization activity|structural constituent of muscle				0						GAGACTGACACGACTGAGCAA	0.592													4	105					0	0	1	0	0		T	66330379	T	T	66330379	3	4	151	1	0	0	0	0	1	0	0	0	206	536	19	1	2579	1	ACTN3	11	66330379	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	247247	66330379	68676137	2673	79838											
CTSF	8722	broad.mit.edu	37	chr11	66335072	66335072	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaccttggtgtccactgggCcacagtccttccgcagcagc	7	8	11	15	1	0	0	0	0	0	0	3	1	3	0	5	2	3	2	5	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:66335072C>T	uc001oip.2	-	3	464	c.374G>A	c.(373-375)GGC>GAC	p.G125D		NM_003793	NP_003784	Q9UBX1	CATF_HUMAN	cathepsin F precursor	125					proteolysis	lysosome	cysteine-type endopeptidase activity				0						GTCCACTGGGCCACAGTCCTT	0.587													33	147					0	0	1	0	0		T	66335072	T	T	66335072	3	4	151	1	0	0	0	0	1	0	0	0	4037	739	26	2	1124	2	CTSF	11	66335072	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4693	66335072	68671444	2674	79839											
CCDC87	55231	broad.mit.edu	37	chr11	66358970	66358970	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccttgatcaaaatgtaagTggtcagaagagacatggctc	13	9	11	8	0	2	3	2	1	0	2	3	4	2	3	1	2	0	2	1	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:66358970T>C	uc001oiq.3	-	1	1585	c.1517A>G	c.(1516-1518)CAC>CGC	p.H506R	CCS_uc001oir.2_5'Flank	NM_018219	NP_060689	Q9NVE4	CCD87_HUMAN	coiled-coil domain containing 87	506										ovary(1)|skin(1)	2						AAAATGTAAGTGGTCAGAAGA	0.458													10	235					0	0	1	0	0		C	66358970	C	C	66358970	3	2	151	1	0	0	0	0	1	0	0	0	2865	1696	59	3	1036	3	CCDC87	11	66358970	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	23898	66358970	68647546	2675	79840											
RBM14	10432	broad.mit.edu	37	chr11	66392441	66392441	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtgcagctgcttcttcctAcaacacccagggagcagctt	8	10	9	14	1	1	0	0	0	1	0	3	1	2	1	2	1	7	5	2	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:66392441A>G	uc001oit.2	+	2	1233	c.1094A>G	c.(1093-1095)TAC>TGC	p.Y365C	RBM14_uc009yrh.2_Intron|RBM14_uc009yri.2_Intron|RBM4_uc009yrj.2_Intron|RBM4_uc009yrk.2_Intron	NM_006328	NP_006319	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	365	Ala-rich.				DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|histone deacetylation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus	mediator complex|ribonucleoprotein complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|protein binding, bridging|RNA binding|RNA polymerase II transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						GCTTCTTCCTACAACACCCAG	0.617													23	131					0	0	1	0	0		G	66392441	G	G	66392441	3	3	151	1	0	0	0	0	1	0	0	0	13140	391	14	3	1100	3	RBM14	11	66392441	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	33471	66392441	68614075	2676	79841											
RBM14	10432	broad.mit.edu	37	chr11	66393007	66393007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctacgatggggcaggtcagCcgtctgcagcctacctgtcc	6	8	12	15	2	2	0	1	0	1	0	3	1	3	0	5	3	5	2	5	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:66393007C>T	uc001oit.2	+	2	1799	c.1660C>T	c.(1660-1662)CCG>TCG	p.P554S	RBM14_uc009yrh.2_Intron|RBM14_uc009yri.2_Intron|RBM4_uc009yrj.2_Intron|RBM4_uc009yrk.2_Intron	NM_006328	NP_006319	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	554	Ala-rich.				DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|histone deacetylation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus	mediator complex|ribonucleoprotein complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|protein binding, bridging|RNA binding|RNA polymerase II transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						GGCAGGTCAGCCGTCTGCAGC	0.677													6	36					0	0	1	0	0		T	66393007	T	T	66393007	3	4	151	1	0	0	0	0	1	0	0	0	13140	739	26	2	1666	2	RBM14	11	66393007	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	566	66393007	68613509	2677	79842											
RBM4	5936	broad.mit.edu	37	chr11	66411167	66411167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgcgtacggagcgctcgatgCctactacaagcgctgccgtg	7	7	13	14	7	0	0	0	0	0	0	1	2	0	1	2	1	7	3	2	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:66411167C>T	uc009yrj.2	+	3	1147	c.659C>T	c.(658-660)GCC>GTC	p.A220V	RBM4_uc009yrk.2_Missense_Mutation_p.A195V|RBM4_uc001oiw.1_Missense_Mutation_p.A220V|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Missense_Mutation_p.A220V|RBM4_uc001oiz.1_Missense_Mutation_p.A220V	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	220	Interaction with TNPO3.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		GCGCTCGATGCCTACTACAAG	0.552													13	59					0	0	1	0	0		T	66411167	T	T	66411167	3	4	151	1	0	0	0	0	1	0	0	0	13159	739	26	2	665	2	RBM4	11	66411167	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	18160	66411167	68595349	2678	79843											
RBM4B	83759	broad.mit.edu	37	chr11	66436153	66436153	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgttcataccgggccatgTcatacagagaattccgtgta	10	10	9	12	3	2	1	2	0	0	1	3	2	3	1	4	1	2	2	4	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:66436153T>C	uc001oja.2	-	2	1691	c.1022A>G	c.(1021-1023)GAC>GGC	p.D341G	RBM4B_uc001ojb.2_Missense_Mutation_p.D341G	NM_031492	NP_113680	Q9BQ04	RBM4B_HUMAN	RNA binding motif protein 4B	341	Interaction with TNPO3 (By similarity).				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|RNA splicing	nucleolus	nucleotide binding|RNA binding|zinc ion binding				0						CCGGGCCATGTCATACAGAGA	0.532													15	76					0	0	1	0	0		C	66436153	C	C	66436153	3	2	151	1	0	0	0	0	1	0	0	0	13167	1667	58	3	61	3	RBM4B	11	66436153	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	24986	66436153	68570363	2679	79844											
SPTBN2	6712	broad.mit.edu	37	chr11	66468627	66468627	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctaggccctgggtggactcGatgactttggtcttctctct	4	14	11	12	1	3	1	0	1	3	0	5	3	3	2	2	4	0	0	2	4	1	3	rs139352096		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:66468627G>A	uc001ojd.2	-	16	3015	c.2943C>T	c.(2941-2943)ATC>ATT	p.I981I		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	981	Spectrin 7.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GGGTGGACTCGATGACTTTGG	0.647													21	64					0	0	1	0	0		A	66468627	A	A	66468627	2	1	151	1	0	0	0	0	0	0	0	1	15145	1048	37	1		1	SPTBN2	11	66468627	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	32474	66468627	68537889	2680	79845											
CARNS1	57571	broad.mit.edu	37	chr11	67191326	67191326	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacttttcccggattaccCgagacttgcagggcgaggcc	8	8	12	13	3	0	1	0	0	0	1	1	4	1	2	3	3	3	2	3	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:67191326C>T	uc009yrp.2	+	9	2190	c.1738C>T	c.(1738-1740)CGA>TGA	p.R580*	PPP1CA_uc001okx.1_5'Flank|CARNS1_uc001olc.3_Nonsense_Mutation_p.R719*	NM_020811	NP_065862	A5YM72	CRNS1_HUMAN	ATP-grasp domain containing 1	580	ATP-grasp.|ATP (By similarity).				carnosine biosynthetic process		ATP binding|carnosine synthase activity|metal ion binding				0						CCGGATTACCCGAGACTTGCA	0.632													7	31					0	0	1	0	0		T	67191326	T	T	67191326	4	4	151	1	0	0	0	0	0	1	0	0	2659	644	23	1	2141	1	CARNS1	11	67191326	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	722699	67191326	67815190	2681	79846											
CABP4	57010	broad.mit.edu	37	chr11	67223796	67223796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggccgccttcgaggagtttGacactgaccgtgacggctac	8	8	13	12	4	0	3	0	3	0	0	1	5	0	4	3	3	1	2	3	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:67223796G>A	uc001olo.2	+	3	501	c.424G>A	c.(424-426)GAC>AAC	p.D142N	CABP4_uc001oln.2_Missense_Mutation_p.D37N	NM_145200	NP_660201	P57796	CABP4_HUMAN	calcium binding protein 4	142	1 (Potential).|EF-hand 1.				visual perception	cytoplasm|extracellular region|terminal button	calcium ion binding				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			CGAGGAGTTTGACACTGACCG	0.652													24	59					0	0	1	0	0		A	67223796	A	A	67223796	3	1	151	1	0	0	0	0	1	0	0	0	2536	1290	45	4	434	4	CABP4	11	67223796	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	32470	67223796	67782720	2682	79847											
PITPNM1	9600	broad.mit.edu	37	chr11	67267701	67267701	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttgctggccgcagaccgggCctcggtgctcggtttcccgg	2	9	16	14	5	0	1	0	0	0	1	3	1	1	1	4	5	2	5	4	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:67267701C>A	uc001olx.2	-	5	1021	c.832G>T	c.(832-834)GCC>TCC	p.A278S	PITPNM1_uc001olw.2_5'Flank|PITPNM1_uc001oly.2_Missense_Mutation_p.A278S|PITPNM1_uc001olz.2_Missense_Mutation_p.A278S	NM_004910	NP_004901	O00562	PITM1_HUMAN	phosphatidylinositol transfer protein,	278					brain development|lipid metabolic process|phototransduction|protein transport	cleavage furrow|endoplasmic reticulum membrane|Golgi cisterna membrane|lipid particle|membrane fraction|midbody	metal ion binding|phosphatidylinositol transporter activity			lung(2)|central_nervous_system(1)	3						GCAGACCGGGCCTCGGTGCTC	0.697													17	61					2.39187e-15	2.48711e-15	1	1	0		A	67267701	A	A	67267701	3	1	151	1	0	0	0	0	1	0	0	0	11969	739	26	5	2978	5	PITPNM1	11	67267701	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	43905	67267701	67738815	2683	79848											
TBX10	347853	broad.mit.edu	37	chr11	67399796	67399796	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctggggccttacctttctcCctgtctgtggcacccttcag	3	13	9	16	0	3	0	1	0	2	0	4	0	3	0	5	3	1	1	5	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:67399796C>T	uc001omp.2	-	7	949	c.861G>A	c.(859-861)AGG>AGA	p.R287R	NUDT8_uc001omn.2_5'Flank|NUDT8_uc001omo.1_5'Flank	NM_005995	NP_005986	O75333	TBX10_HUMAN	T-box 10	287					anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						TACCTTTCTCCCTGTCTGTGG	0.622													20	114					0	0	1	0	0		T	67399796	T	T	67399796	2	4	151	1	0	0	0	0	0	0	0	1	15676	622	22	4		4	TBX10	11	67399796	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	132095	67399796	67606720	2684	79849											
ACY3	91703	broad.mit.edu	37	chr11	67410319	67410319	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcgttaatgaacacggggTacaccgtggactctccctca	9	9	9	14	3	2	1	1	1	1	0	4	2	2	2	3	3	2	2	3	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:67410319T>C	uc001omq.2	-	8	1007	c.836A>G	c.(835-837)TAC>TGC	p.Y279C		NM_080658	NP_542389	Q96HD9	ACY3_HUMAN	aspartoacylase 3	279					interspecies interaction between organisms	apical plasma membrane|cytoplasm	hydrolase activity, acting on ester bonds|metal ion binding				0					L-Aspartic Acid(DB00128)	GAACACGGGGTACACCGTGGA	0.582													21	64					0	0	1	0	0		C	67410319	C	C	67410319	3	2	151	1	0	0	0	0	1	0	0	0	227	1638	57	3	127	3	ACY3	11	67410319	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10523	67410319	67596197	2685	79850											
C11orf24	53838	broad.mit.edu	37	chr11	68029961	68029961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggaagtggacgtgggcgCggggagtgcaagtgtcatgg	7	8	21	5	3	1	0	1	0	0	0	1	3	1	3	0	6	1	1	0	6	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:68029961C>T	uc001onr.3	-	4	944	c.502G>A	c.(502-504)GCG>ACG	p.A168T	C11orf24_uc001ons.2_Missense_Mutation_p.A168T	NM_022338	NP_071733	Q96F05	CK024_HUMAN	hypothetical protein LOC53838 precursor	168	Extracellular (Potential).					integral to membrane					0						GACGTGGGCGCGGGGAGTGCA	0.632													7	40					0	0	1	0	0		T	68029961	T	T	68029961	3	4	151	1	0	0	0	0	1	0	0	0	1638	768	27	1	851	1	C11orf24	11	68029961	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	619642	68029961	66976555	2686	79851											
LRP5	4041	broad.mit.edu	37	chr11	68192577	68192577	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccctcccgcaggtacctgTacttcaccaacatgcaggac	10	7	7	17	1	1	0	1	0	0	0	2	1	2	1	4	2	4	4	4	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:68192577T>C	uc001ont.2	+	15	3319	c.3244T>C	c.(3244-3246)TAC>CAC	p.Y1082H	LRP5_uc009ysg.2_Missense_Mutation_p.Y492H	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1082	LDL-receptor class B 18.|Beta-propeller 4.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CAGGTACCTGTACTTCACCAA	0.677													4	42					0	0	1	0	0		C	68192577	C	C	68192577	3	2	151	1	0	0	0	0	1	0	0	0	8978	1638	57	3	3302	3	LRP5	11	68192577	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	162616	68192577	66813939	2687	79852											
MTL5	9633	broad.mit.edu	37	chr11	68475936	68475936	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggcgcatgtggcctccAccacctcccaggagatgcat	8	6	12	15	1	0	1	0	0	0	1	2	2	2	1	5	4	1	3	5	4	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:68475936A>G	uc001ooc.2	-	10	1507	c.1367T>C	c.(1366-1368)GTG>GCG	p.V456A		NM_004923	NP_004914	Q9Y4I5	MTL5_HUMAN	metallothionein-like 5, testis-specific isoform	456					cell differentiation|cellular metal ion homeostasis|multicellular organismal development|response to metal ion|spermatogenesis	cytoplasm|nucleus|soluble fraction	metal ion binding			ovary(2)|breast(1)	3	Esophageal squamous(3;4.37e-12)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.185)			TGTGGCCTCCACCACCTCCCA	0.532													13	54					0	0	1	0	0		G	68475936	G	G	68475936	3	3	151	1	0	0	0	0	1	0	0	0	9954	159	6	3	163	3	MTL5	11	68475936	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	283359	68475936	66530580	2688	79853											
IGHMBP2	3508	broad.mit.edu	37	chr11	68678967	68678967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagaagcggttttatttGcgctgtctcagaaagaactt	13	12	10	6	2	1	4	1	0	1	4	2	4	1	4	0	1	3	2	0	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:68678967G>A	uc001ook.1	+	5	709	c.607G>A	c.(607-609)GCG>ACG	p.A203T	IGHMBP2_uc001ooj.1_RNA	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	203					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			GGTTTTATTTGCGCTGTCTCA	0.522													17	57					0	0	1	0	0		A	68678967	A	A	68678967	3	1	151	1	0	0	0	0	1	0	0	0	7607	1319	46	2	625	2	IGHMBP2	11	68678967	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	203031	68678967	66327549	2689	79854											
IGHMBP2	3508	broad.mit.edu	37	chr11	68705747	68705747	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggctttgccaagtgcacAgccggcgtcacaaccctggg	7	7	13	14	3	1	0	1	0	0	0	1	0	1	0	3	3	5	2	3	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:68705747A>C	uc001ook.1	+	14	2811	c.2709A>C	c.(2707-2709)ACA>ACC	p.T903T	IGHMBP2_uc001ool.1_Silent_p.T527T	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	903	AN1-type.				cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CCAAGTGCACAGCCGGCGTCA	0.642													8	28					0	0	1	0	0		C	68705747	C	C	68705747	2	2	151	1	0	0	0	0	0	0	0	1	7607	175	7	5		5	IGHMBP2	11	68705747	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	26780	68705747	66300769	2690	79855											
TPCN2	219931	broad.mit.edu	37	chr11	68846360	68846360	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcttctgcccctttcagAttctcaactgcgtcttcatt	5	16	5	15	1	6	1	3	0	4	1	7	1	6	1	3	0	3	0	3	0	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:68846360A>T	uc001oos.2	+	16	1527	c.1411A>T	c.(1411-1413)ATT>TTT	p.I471F	TPCN2_uc001oor.2_Missense_Mutation_p.I386F|TPCN2_uc010rqg.1_Missense_Mutation_p.I471F|TPCN2_uc001oot.2_RNA	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	471	Helical; Name=S2 of repeat II; (Potential).				cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CCCCTTTCAGATTCTCAACTG	0.592													23	87					0	0	1	0	0		T	68846360	T	T	68846360	3	4	151	1	0	0	0	0	1	0	0	0	16422	347	12	5	1473	5	TPCN2	11	68846360	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	140613	68846360	66160156	2691	79856											
ORAOV1	220064	broad.mit.edu	37	chr11	69482723	69482723	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttatcgtaagtagggtcAtcataagggaatttctggat	12	14	11	4	1	3	0	2	0	1	0	4	2	3	2	0	3	0	3	0	3	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:69482723A>G	uc001opc.2	-	4	443	c.285T>C	c.(283-285)GAT>GAC	p.D95D	ORAOV1_uc010rqi.1_Silent_p.D95D|ORAOV1_uc009ysm.2_RNA|ORAOV1_uc001opd.2_Silent_p.D36D	NM_153451	NP_703152	Q8WV07	ORAV1_HUMAN	oral cancer overexpressed 1	95											0	all_cancers(3;5.53e-114)|all_epithelial(3;1.34e-121)|Breast(3;9.28e-34)|all_lung(4;1.99e-21)|Lung NSC(4;4.65e-21)|Hepatocellular(3;6.15e-15)|Melanoma(5;1.89e-05)|Ovarian(3;0.0348)		Epithelial(3;5.64e-57)|all cancers(3;5.98e-51)|BRCA - Breast invasive adenocarcinoma(2;5.49e-48)|Lung(3;1.13e-16)|LUSC - Lung squamous cell carcinoma(11;3.74e-15)|STAD - Stomach adenocarcinoma(18;0.0278)|LUAD - Lung adenocarcinoma(13;0.0537)			AAGTAGGGTCATCATAAGGGA	0.413													27	97					0	0	1	0	0		G	69482723	G	G	69482723	2	3	151	1	0	0	0	0	0	0	0	1	11279	214	8	3		3	ORAOV1	11	69482723	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	636363	69482723	65523793	2692	79857											
ORAOV1	220064	broad.mit.edu	37	chr11	69486577	69486577	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcaaaagcaaaaccttggTagcacccgatctgtgaatgt	14	9	9	9	1	1	1	0	1	1	0	1	2	1	1	2	1	4	4	2	1	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:69486577T>C	uc001opc.2	-	3	325	c.167A>G	c.(166-168)TAC>TGC	p.Y56C	ORAOV1_uc010rqi.1_Missense_Mutation_p.Y56C|ORAOV1_uc009ysm.2_Intron|ORAOV1_uc001opd.2_Intron|ORAOV1_uc001ope.1_Missense_Mutation_p.Y56C	NM_153451	NP_703152	Q8WV07	ORAV1_HUMAN	oral cancer overexpressed 1	56											0	all_cancers(3;5.53e-114)|all_epithelial(3;1.34e-121)|Breast(3;9.28e-34)|all_lung(4;1.99e-21)|Lung NSC(4;4.65e-21)|Hepatocellular(3;6.15e-15)|Melanoma(5;1.89e-05)|Ovarian(3;0.0348)		Epithelial(3;5.64e-57)|all cancers(3;5.98e-51)|BRCA - Breast invasive adenocarcinoma(2;5.49e-48)|Lung(3;1.13e-16)|LUSC - Lung squamous cell carcinoma(11;3.74e-15)|STAD - Stomach adenocarcinoma(18;0.0278)|LUAD - Lung adenocarcinoma(13;0.0537)			AAAACCTTGGTAGCACCCGAT	0.413													24	103					0	0	1	0	0		C	69486577	C	C	69486577	3	2	151	1	0	0	0	0	1	0	0	0	11279	1638	57	3	258	3	ORAOV1	11	69486577	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3854	69486577	65519939	2693	79858											
CTTN	2017	broad.mit.edu	37	chr11	70265913	70265913	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaagtggataagagcgcCgttggctttgagtatcaagg	12	9	14	6	2	1	2	1	1	0	1	1	4	1	3	1	3	1	3	1	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:70265913C>A	uc001opv.3	+	9	836	c.630C>A	c.(628-630)GCC>GCA	p.A210A	CTTN_uc001opu.2_Silent_p.A210A|CTTN_uc001opw.3_Silent_p.A210A|CTTN_uc010rqm.1_5'Flank|CTTN_uc001opx.2_5'Flank	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	210	Cortactin 4.					cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		ATAAGAGCGCCGTTGGCTTTG	0.448													18	59					3.41278e-10	3.51436e-10	1	1	0		A	70265913	A	A	70265913	2	1	151	1	0	0	0	0	0	0	0	1	4047	639	23	5		5	CTTN	11	70265913	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	779336	70265913	64740603	2694	79859											
SHANK2	22941	broad.mit.edu	37	chr11	70333642	70333642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgaacgcaggcttaatcGtcccgtagactcttggagtt	9	12	11	9	3	1	2	0	1	1	1	3	4	2	3	1	2	1	4	1	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:70333642G>A	uc001oqc.2	-	21	2834	c.2756C>T	c.(2755-2757)ACG>ATG	p.T919M	SHANK2_uc010rqn.1_Missense_Mutation_p.T331M|SHANK2_uc001opz.2_Missense_Mutation_p.T324M|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	540					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			AGGCTTAATCGTCCCGTAGAC	0.607													6	21					0	0	1	0	0		A	70333642	A	A	70333642	3	1	151	1	0	0	0	0	1	0	0	0	14290	1145	40	1	2801	1	SHANK2	11	70333642	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	67729	70333642	64672874	2695	79860											
NUMA1	4926	broad.mit.edu	37	chr11	71726677	71726677	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcttcattagccacctgAagttgctgctgcagaatctc	8	11	10	12	1	2	2	1	1	1	1	3	2	2	2	2	1	4	5	2	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:71726677A>G	uc001orl.1	-	15	2044	c.1872T>C	c.(1870-1872)CTT>CTC	p.L624L	NUMA1_uc009ysw.1_Silent_p.L187L|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Silent_p.L624L|NUMA1_uc001orn.2_Silent_p.L187L|NUMA1_uc009ysx.1_Silent_p.L624L|NUMA1_uc001oro.1_Silent_p.L624L	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	624	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						TAGCCACCTGAAGTTGCTGCT	0.617			T	RARA	APL								6	49					0	0	1	0	0		G	71726677	G	G	71726677	2	3	151	1	0	0	0	0	0	0	0	1	10769	233	9	3		3	NUMA1	11	71726677	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1393035	71726677	63279839	2696	79861											
INPPL1	3636	broad.mit.edu	37	chr11	71943988	71943988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaccagctcaacctggagCgggagaagcacaaggtcttc	11	6	13	11	1	2	1	1	0	1	1	3	4	2	3	2	4	4	2	2	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:71943988C>T	uc001osf.2	+	16	2068	c.1921C>T	c.(1921-1923)CGG>TGG	p.R641W	INPPL1_uc001osg.2_Missense_Mutation_p.R399W	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	641					actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						CAACCTGGAGCGGGAGAAGCA	0.562													13	68					0	0	1	0	0		T	71943988	T	T	71943988	3	4	151	1	0	0	0	0	1	0	0	0	7777	759	27	1	1983	1	INPPL1	11	71943988	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	217311	71943988	63062528	2697	79862											
PDE2A	5138	broad.mit.edu	37	chr11	72288519	72288519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcatccaggaagtccagcGagttgttacttgggaggccg	8	9	13	11	2	1	0	1	0	0	0	3	3	3	2	4	3	2	2	4	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:72288519G>A	uc010rrc.1	-	31	2978	c.2735C>T	c.(2734-2736)TCG>TTG	p.S912L	PDE2A_uc001oso.2_Missense_Mutation_p.S891L|PDE2A_uc010rra.1_Missense_Mutation_p.S905L|PDE2A_uc001osn.2_Missense_Mutation_p.S656L|PDE2A_uc010rrb.1_Missense_Mutation_p.S903L|PDE2A_uc010rrd.1_Missense_Mutation_p.S797L	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	912					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	GAAGTCCAGCGAGTTGTTACT	0.602													15	73					0	0	1	0	0		A	72288519	A	A	72288519	3	1	151	1	0	0	0	0	1	0	0	0	11655	1059	37	1	94	1	PDE2A	11	72288519	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	344531	72288519	62717997	2698	79863											
ARAP1	116985	broad.mit.edu	37	chr11	72408664	72408664	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcgctccaccagcaccAgcacctggttctcactgtcc	6	10	6	19	1	1	0	1	0	1	0	6	0	4	0	6	1	2	4	6	1	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:72408664A>G	uc001osu.2	-	20	2957	c.2768T>C	c.(2767-2769)CTG>CCG	p.L923P	ARAP1_uc001osv.2_Missense_Mutation_p.L923P|ARAP1_uc001osr.2_Missense_Mutation_p.L683P|ARAP1_uc001oss.2_Missense_Mutation_p.L678P|ARAP1_uc009yth.2_Missense_Mutation_p.L617P|ARAP1_uc010rre.1_Missense_Mutation_p.L678P	NM_001040118	NP_001035207	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	923					actin filament reorganization involved in cell cycle|negative regulation of stress fiber assembly|positive regulation of Cdc42 GTPase activity|positive regulation of filopodium assembly|regulation of ARF GTPase activity|regulation of cell shape|regulation of cellular component movement|small GTPase mediated signal transduction	cytosol|Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|Rho GTPase activator activity|zinc ion binding			skin(1)	1						CACCAGCACCAGCACCTGGTT	0.632													22	115					0	0	1	0	0		G	72408664	G	G	72408664	3	3	151	1	0	0	0	0	1	0	0	0	838	188	7	3	1648	3	ARAP1	11	72408664	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	120145	72408664	62597852	2699	79864											
PAAF1	80227	broad.mit.edu	37	chr11	73638354	73638354	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacatgggagaagcagatcTacacatgctgtcgagacggt	12	7	12	10	2	1	3	0	0	1	3	2	5	1	3	1	2	3	2	1	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:73638354T>C	uc001ouk.1	+	12	1160	c.1126T>C	c.(1126-1128)TAC>CAC	p.Y376H	PAAF1_uc001oul.1_Missense_Mutation_p.Y359H|PAAF1_uc009ytx.1_RNA|PAAF1_uc001oum.1_Missense_Mutation_p.Y359H|PAAF1_uc001oun.1_RNA	NM_025155	NP_079431	Q9BRP4	PAAF1_HUMAN	proteasomal ATPase-associated factor 1	376	WD 5.				interspecies interaction between organisms	proteasome complex	protein binding			ovary(1)|skin(1)	2	Breast(11;7.42e-05)					GAAGCAGATCTACACATGCTG	0.458													14	74					0	0	1	0	0		C	73638354	C	C	73638354	3	2	151	1	0	0	0	0	1	0	0	0	11381	1522	53	3	1172	3	PAAF1	11	73638354	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1229690	73638354	61368162	2700	79865											
UCP3	7352	broad.mit.edu	37	chr11	73716934	73716934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacaggtcaccgccatggCtcctgtggtgcagccggcca	6	6	14	15	2	1	0	1	0	0	0	2	0	2	0	5	5	2	3	5	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:73716934C>T	uc001our.2	-	4	737	c.382G>A	c.(382-384)GCC>ACC	p.A128T	UCP3_uc001ous.2_Missense_Mutation_p.A128T	NM_003356	NP_003347	P55916	UCP3_HUMAN	uncoupling protein 3 isoform UCP3L	128	Solcar 2.|Helical; Name=3; (Potential).				mitochondrial transport|respiratory electron transport chain|respiratory gaseous exchange	integral to membrane|mitochondrial inner membrane	binding			pancreas(1)	1	Breast(11;2.08e-05)					ACCGCCATGGCTCCTGTGGTG	0.607													10	37					0	0	1	0	0		T	73716934	T	T	73716934	3	4	151	1	0	0	0	0	1	0	0	0	16958	797	28	2	576	2	UCP3	11	73716934	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	78580	73716934	61289582	2701	79866											
C2CD3	26005	broad.mit.edu	37	chr11	73824826	73824826	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccagtgtgtctcttactTccatctgtaattttactgga	10	16	6	9	0	2	0	0	0	2	0	4	1	3	1	2	1	3	1	2	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:73824826T>C	uc001ouu.2	-	11	2069	c.1842A>G	c.(1840-1842)GGA>GGG	p.G614G	C2CD3_uc001ouv.2_Silent_p.G614G	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	614						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					GTCTCTTACTTCCATCTGTAA	0.363													42	140					0	0	1	0	0		C	73824826	C	C	73824826	2	2	151	1	0	0	0	0	0	0	0	1	2157	1797	62	3		3	C2CD3	11	73824826	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	107892	73824826	61181690	2702	79867											
XRRA1	143570	broad.mit.edu	37	chr11	74554950	74554950	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcaagcgaatgaagatgtCatccagaagttgggctctag	12	8	12	9	2	2	3	1	1	1	2	3	4	3	3	2	1	1	3	2	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:74554950C>A	uc009yub.2	-	18	2406	c.2074G>T	c.(2074-2076)GAC>TAC	p.D692Y	XRRA1_uc001ovm.2_Intron|XRRA1_uc001ovn.2_Missense_Mutation_p.D315Y|XRRA1_uc001ovo.2_Missense_Mutation_p.D300Y|XRRA1_uc001ovq.3_Intron|XRRA1_uc001ovp.3_Missense_Mutation_p.D417Y|XRRA1_uc001ovr.2_Missense_Mutation_p.D315Y|XRRA1_uc001ovs.1_3'UTR	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	692					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						ATGAAGATGTCATCCAGAAGT	0.557													5	25					4.096e-09	4.20674e-09	1	1	0		A	74554950	A	A	74554950	3	1	151	1	0	0	0	0	1	0	0	0	17487	826	29	5	312	5	XRRA1	11	74554950	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	730124	74554950	60451566	2703	79868											
SLCO2B1	11309	broad.mit.edu	37	chr11	74911354	74911354	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtgcagccatctggtggTgcccttcctgctcctggtca	5	11	11	14	1	2	0	1	0	1	0	4	0	4	0	4	3	5	2	4	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:74911354T>C	uc001owb.2	+	11	2072	c.1685T>C	c.(1684-1686)GTG>GCG	p.V562A	SLCO2B1_uc010rrq.1_Missense_Mutation_p.V307A|SLCO2B1_uc010rrr.1_Missense_Mutation_p.V418A|SLCO2B1_uc010rrs.1_Missense_Mutation_p.V446A|SLCO2B1_uc001owc.2_Missense_Mutation_p.V335A|SLCO2B1_uc001owd.2_Missense_Mutation_p.V540A	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	562	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	CATCTGGTGGTGCCCTTCCTG	0.632													34	137					0	0	1	0	0		C	74911354	C	C	74911354	3	2	151	1	0	0	0	0	1	0	0	0	14752	1696	59	3	1727	3	SLCO2B1	11	74911354	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	356404	74911354	60095162	2704	79869											
ACER3	55331	broad.mit.edu	37	chr11	76730809	76730809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cactttacctgagatataggCcaaaagtgaaggtaagtcca	15	9	9	8	0	0	2	0	2	0	1	1	3	1	2	3	2	1	1	3	2	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:76730809C>T	uc009yum.1	+	10	843	c.739C>T	c.(739-741)CCA>TCA	p.P247S	ACER3_uc001oxu.2_RNA|ACER3_uc009yun.1_Missense_Mutation_p.P205S|ACER3_uc009yuo.1_Missense_Mutation_p.P152S|ACER3_uc010rsh.1_Missense_Mutation_p.P210S|ACER3_uc010rsi.1_Missense_Mutation_p.P152S|ACER3_uc010rsj.1_Missense_Mutation_p.P152S	NM_018367	NP_060837	Q9NUN7	ACER3_HUMAN	phytoceramidase, alkaline	247					ceramide metabolic process|phytosphingosine biosynthetic process|positive regulation of cell proliferation|sphingosine biosynthetic process	integral to endoplasmic reticulum membrane|integral to Golgi membrane	phytoceramidase activity				0						GAGATATAGGCCAAAAGTGAA	0.403													41	121					0	0	1	0	0		T	76730809	T	T	76730809	3	4	151	1	0	0	0	0	1	0	0	0	140	739	26	2	777	2	ACER3	11	76730809	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1819455	76730809	58275707	2705	79870											
KCTD21	283219	broad.mit.edu	37	chr11	77884849	77884849	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtattaatcgaataatcttaTtgttcataaaatccagagca	16	14	5	6	1	2	1	1	0	1	1	4	2	3	1	1	0	1	3	1	0	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:77884849T>C	uc001ozb.2	-	2	827	c.752A>G	c.(751-753)AAT>AGT	p.N251S		NM_001029859	NP_001025030	Q4G0X4	KCD21_HUMAN	potassium channel tetramerisation domain	251						voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.46e-24)			AATAATCTTATTGTTCATAAA	0.478													63	220					0	0	1	0	0		C	77884849	C	C	77884849	3	2	151	1	0	0	0	0	1	0	0	0	8125	1493	52	3	34	3	KCTD21	11	77884849	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1154040	77884849	57121667	2706	79871											
USP35	57558	broad.mit.edu	37	chr11	77907363	77907363	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaggggctggttcggcgCgtgctggaggcggcgcggca	5	5	21	10	6	0	0	0	0	0	0	1	1	0	1	0	8	2	5	0	8	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:77907363C>T	uc009yva.1	+	2	318	c.72C>T	c.(70-72)CGC>CGT	p.R24R	USP35_uc001oze.2_Intron|USP35_uc001ozc.2_Intron|USP35_uc010rsp.1_Intron|USP35_uc001ozd.2_5'UTR|USP35_uc001ozf.2_5'Flank	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	24					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			TGGTTCGGCGCGTGCTGGAGG	0.726													5	13					0	0	1	0	0		T	77907363	T	T	77907363	2	4	151	1	0	0	0	0	0	0	0	1	17092	755	27	1		1	USP35	11	77907363	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	22514	77907363	57099153	2707	79872											
ODZ4	26011	broad.mit.edu	37	chr11	78369544	78369544	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggtcaccttctgaaggTcctggtttcacaaagtaatg	10	11	10	10	0	3	1	2	1	1	0	4	1	4	1	3	3	0	2	3	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:78369544T>C	uc001ozl.3	-	34	8332	c.7869A>G	c.(7867-7869)GGA>GGG	p.G2623G	ODZ4_uc001ozk.3_Silent_p.G848G|ODZ4_uc009yvb.1_Intron	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2623	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CTTCTGAAGGTCCTGGTTTCA	0.547													9	39					0	0	1	0	0		C	78369544	C	C	78369544	2	2	151	1	0	0	0	0	0	0	0	1	10856	1654	58	3		3	ODZ4	11	78369544	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	462181	78369544	56636972	2708	79873											
ODZ4	26011	broad.mit.edu	37	chr11	78383286	78383286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctggtcgtacagaatcCgaagggtgaacttgcggtgg	8	8	15	10	4	0	2	0	1	0	1	2	3	1	2	3	4	3	1	3	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:78383286C>T	uc001ozl.3	-	31	6048	c.5585G>A	c.(5584-5586)CGG>CAG	p.R1862Q	ODZ4_uc001ozk.3_Missense_Mutation_p.R87Q|ODZ4_uc009yvb.1_Missense_Mutation_p.R446Q	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1862	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						GTACAGAATCCGAAGGGTGAA	0.557													18	62					0	0	1	0	0		T	78383286	T	T	78383286	3	4	151	1	0	0	0	0	1	0	0	0	10856	652	23	1	2740	1	ODZ4	11	78383286	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	13742	78383286	56623230	2709	79874											
PCF11	51585	broad.mit.edu	37	chr11	82877219	82877219	+	Frame_Shift_Del	DEL	A	-	-																															agagaagagaaaaactgcagAaaaaaaggataaagatgagc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:82877219delA	uc001ozx.3	+	5	1625	c.1280delA	c.(1279-1281)GAAfs	p.E427fs	PCF11_uc010rsu.1_Frame_Shift_Del_p.E427fs	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	427	Lys-rich.				mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						AAAACTGCAGAAAAAAAGGAT	0.348													10	22	---	---	---	---						.	-	82877219	-	-	82877219	7	5	151	1	0	1	0	1	0	0	0	0	11592	246	9	0	1298	0	PCF11	11	82877219	Frame_Shift_Del	DEL	A	TCGA-CG-5721-01A-11D-1600-08	4493933	82877219	52129297	2710	79875											
DLG2	1740	broad.mit.edu	37	chr11	83641391	83641391	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtcatctcagagtcaggTagcaggcctaggtggtagtg	8	10	15	8	0	3	1	3	0	1	1	4	1	3	1	1	5	1	3	1	5	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:83641391T>C	uc001paj.2	-	10	1464	c.1161A>G	c.(1159-1161)CTA>CTG	p.L387L	DLG2_uc001pai.2_Intron|DLG2_uc010rsy.1_Silent_p.L354L|DLG2_uc010rsz.1_Silent_p.L387L|DLG2_uc010rta.1_Silent_p.L387L|DLG2_uc001pak.2_Silent_p.L492L|DLG2_uc010rtb.1_Silent_p.L354L|DLG2_uc001pal.1_Silent_p.L387L|DLG2_uc001pam.1_Silent_p.L426L	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	387						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				CAGAGTCAGGTAGCAGGCCTA	0.512													13	116					0	0	1	0	0		C	83641391	C	C	83641391	2	2	151	1	0	0	0	0	0	0	0	1	4561	1625	57	3		3	DLG2	11	83641391	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	764172	83641391	51365125	2711	79876											
DLG2	1740	broad.mit.edu	37	chr11	83810087	83810087	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaatcccaggccagaatTcccctatagaaacaaaaagc	17	6	6	12	0	0	3	0	1	0	2	2	3	2	3	4	1	2	0	4	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:83810087T>A	uc001paj.2	-	5	616	c.313A>T	c.(313-315)AAT>TAT	p.N105Y	DLG2_uc001pai.2_Missense_Mutation_p.N54Y|DLG2_uc010rsy.1_Missense_Mutation_p.N72Y|DLG2_uc010rsz.1_Missense_Mutation_p.N105Y|DLG2_uc010rta.1_Missense_Mutation_p.N105Y|DLG2_uc001pak.2_Missense_Mutation_p.N210Y|DLG2_uc010rtb.1_Missense_Mutation_p.N72Y|DLG2_uc001pal.1_Missense_Mutation_p.N105Y|DLG2_uc001pam.1_Missense_Mutation_p.N144Y	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	105	PDZ 1.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				AGGCCAGAATTCCCCTATAGA	0.418													21	52					0	0	1	0	0		A	83810087	A	A	83810087	3	1	151	1	0	0	0	0	1	0	0	0	4561	1783	62	5	2425	5	DLG2	11	83810087	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	168696	83810087	51196429	2712	79877											
PRSS23	11098	broad.mit.edu	37	chr11	86519334	86519334	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagccatgcccgagcagAtgaaatttcagtggatccgg	10	9	11	11	2	2	2	2	1	0	1	3	4	3	3	3	2	3	1	3	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:86519334A>G	uc001pcb.2	+	2	865	c.649A>G	c.(649-651)ATG>GTG	p.M217V	PRSS23_uc001pcc.1_Intron|PRSS23_uc010rts.1_Missense_Mutation_p.M185V	NM_007173	NP_009104	O95084	PRS23_HUMAN	protease, serine, 23 precursor	217					proteolysis	extracellular region|nucleus	serine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GCCCGAGCAGATGAAATTTCA	0.522													10	51					0	0	1	0	0		G	86519334	G	G	86519334	3	3	151	1	0	0	0	0	1	0	0	0	12642	333	12	3	651	3	PRSS23	11	86519334	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2709247	86519334	48487182	2713	79878											
TMEM135	65084	broad.mit.edu	37	chr11	87029214	87029214	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcattgaagcagggaaggtTccctattttcctcatgcaga	10	11	11	9	0	1	2	1	1	0	1	3	3	3	3	2	3	2	4	2	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:87029214T>C	uc001pch.2	+	13	1136	c.1113T>C	c.(1111-1113)GTT>GTC	p.V371V	TMEM135_uc010rtt.1_Silent_p.V232V|TMEM135_uc001pci.2_Silent_p.V349V	NM_022918	NP_075069	Q86UB9	TM135_HUMAN	transmembrane protein 135	371						integral to membrane					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CAGGGAAGGTTCCCTATTTTC	0.343													48	184					0	0	1	0	0		C	87029214	C	C	87029214	2	2	151	1	0	0	0	0	0	0	0	1	16076	1770	62	3		3	TMEM135	11	87029214	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	509880	87029214	47977302	2714	79879											
GRM5	2915	broad.mit.edu	37	chr11	88337911	88337911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagagtctccattctcatCgaataggatcgtatctccag	10	12	9	10	2	3	1	1	0	3	1	8	4	3	2	2	2	0	1	2	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:88337911C>T	uc001pcq.2	-	4	1569	c.1369G>A	c.(1369-1371)GAT>AAT	p.D457N	GRM5_uc009yvm.2_Missense_Mutation_p.D457N	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	457	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CCATTCTCATCGAATAGGATC	0.433													16	60					0	0	1	0	0		T	88337911	T	T	88337911	3	4	151	1	0	0	0	0	1	0	0	0	6816	884	31	1	2293	1	GRM5	11	88337911	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1308697	88337911	46668605	2715	79880											
NOX4	50507	broad.mit.edu	37	chr11	89224368	89224368	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcctaccaggcagaggTgtttaaccccttcgttggcg	7	10	11	13	2	0	1	0	0	0	1	2	1	1	1	5	3	2	3	5	3	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:89224368T>C	uc001pct.2	-	1	286	c.47A>G	c.(46-48)CAC>CGC	p.H16R	NOX4_uc009yvr.2_5'Flank|NOX4_uc001pcu.2_5'UTR|NOX4_uc001pcw.2_Missense_Mutation_p.H16R|NOX4_uc001pcx.2_Missense_Mutation_p.H16R|NOX4_uc001pcv.2_Missense_Mutation_p.H16R|NOX4_uc009yvo.2_RNA|NOX4_uc010rtu.1_5'UTR|NOX4_uc009yvp.2_Missense_Mutation_p.H16R|NOX4_uc010rtv.1_Intron|NOX4_uc009yvq.2_Intron|NOX4_uc009yvs.1_RNA|NOX4_uc001pcy.2_RNA	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	16	Cytoplasmic (Potential).				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				CAGGCAGAGGTGTTTAACCCC	0.642													5	13					0	0	1	0	0		C	89224368	C	C	89224368	3	2	151	1	0	0	0	0	1	0	0	0	10577	1696	59	3	1761	3	NOX4	11	89224368	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	886457	89224368	45782148	2716	79881											
NAALAD2	10003	broad.mit.edu	37	chr11	89880585	89880585	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagtggaagaaatttggActagattcagccaagttggt	13	10	11	7	0	1	2	1	0	0	2	1	4	1	4	2	3	1	1	2	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:89880585A>G	uc001pdf.3	+	3	391	c.282A>G	c.(280-282)GGA>GGG	p.G94G	NAALAD2_uc009yvx.2_Silent_p.G94G|NAALAD2_uc009yvy.2_Silent_p.G94G|NAALAD2_uc001pdd.2_Silent_p.G94G|NAALAD2_uc001pde.2_Silent_p.G94G	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	94	Extracellular (Potential).				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				AGAAATTTGGACTAGATTCAG	0.373													7	142					0	0	1	0	0		G	89880585	G	G	89880585	2	3	151	1	0	0	0	0	0	0	0	1	10146	262	10	3		3	NAALAD2	11	89880585	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	656217	89880585	45125931	2717	79882											
CHORDC1	26973	broad.mit.edu	37	chr11	89947184	89947184	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgtaactgtataaagtatAccttggtctttttattgctt	10	20	6	5	0	1	0	0	0	1	0	1	0	1	0	1	1	3	4	1	1	8	12			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:89947184A>G	uc001pdg.2	-	4	739	c.329_splice	c.e4+1	p.S110_splice	CHORDC1_uc009yvz.2_Splice_Site_p.S91_splice	NM_012124	NP_036256	Q9UHD1	CHRD1_HUMAN	cysteine and histidine-rich domain-containing						chaperone-mediated protein folding|regulation of response to stress|response to stress		Hsp90 protein binding|identical protein binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.00915)				TATAAAGTATACCTTGGTCTT	0.353													46	191					0	0	1	0	0		G	89947184	G	G	89947184	5	3	151	1	0	0	0	0	0	0	1	0	3368	405	14	3	699	3	CHORDC1	11	89947184	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	66599	89947184	45059332	2718	79883											
FAT3	120114	broad.mit.edu	37	chr11	92495039	92495039	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgactgtgacagatggTggtccctctccaaaacagtc	10	9	11	11	0	1	3	0	2	1	1	4	3	2	3	2	3	1	0	2	3	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:92495039T>C	uc001pdj.3	+	4	3704	c.3687T>C	c.(3685-3687)GGT>GGC	p.G1229G		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1229	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TGACAGATGGTGGTCCCTCTC	0.423										TCGA Ovarian(4;0.039)			46	210					0	0	1	0	0		C	92495039	C	C	92495039	2	2	151	1	0	0	0	0	0	0	0	1	5705	1683	59	3		3	FAT3	11	92495039	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2547855	92495039	42511477	2719	79884											
FAT3	120114	broad.mit.edu	37	chr11	92531033	92531033	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacatgtttaagatcgaaccGgtcctaggcatcatcaccat	13	10	7	11	2	2	1	2	0	0	1	4	2	3	1	3	2	2	2	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:92531033G>A	uc001pdj.3	+	9	4871	c.4854G>A	c.(4852-4854)CCG>CCA	p.P1618P		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1618	Cadherin 15.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGATCGAACCGGTCCTAGGCA	0.423										TCGA Ovarian(4;0.039)			28	104					0	0	1	0	0		A	92531033	A	A	92531033	2	1	151	1	0	0	0	0	0	0	0	1	5705	1103	39	1		1	FAT3	11	92531033	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	35994	92531033	42475483	2720	79885											
FAT3	120114	broad.mit.edu	37	chr11	92532943	92532943	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagttacatctgcttacaAgctgacaataagagccagcg	14	9	9	9	1	1	3	0	2	1	1	1	3	1	3	1	0	6	3	1	0	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:92532943A>G	uc001pdj.3	+	9	6781	c.6764A>G	c.(6763-6765)AAG>AGG	p.K2255R		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2255	Cadherin 20.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCTGCTTACAAGCTGACAATA	0.428										TCGA Ovarian(4;0.039)			7	33					0	0	1	0	0		G	92532943	G	G	92532943	3	3	151	1	0	0	0	0	1	0	0	0	5705	72	3	3	6798	3	FAT3	11	92532943	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1910	92532943	42473573	2721	79886											
FAT3	120114	broad.mit.edu	37	chr11	92538325	92538325	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttaactgcaggaggaaAccctcgaggaaggtttgctc	10	12	11	8	1	0	0	0	0	0	0	2	4	0	3	1	4	4	3	1	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:92538325A>G	uc001pdj.3	+	10	8920	c.8903A>G	c.(8902-8904)AAC>AGC	p.N2968S		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2968	Cadherin 27.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GCAGGAGGAAACCCTCGAGGA	0.438										TCGA Ovarian(4;0.039)			8	61					0	0	1	0	0		G	92538325	G	G	92538325	3	3	151	1	0	0	0	0	1	0	0	0	5705	43	2	3	8941	3	FAT3	11	92538325	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5382	92538325	42468191	2722	79887											
SLC36A4	120103	broad.mit.edu	37	chr11	92901114	92901114	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactttttatacttaccctgAcaacatactggtaaattatc	14	15	3	9	0	0	1	0	1	0	0	1	1	0	1	1	1	5	1	1	1	9	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:92901114A>G	uc001pdn.2	-	7	861	c.764T>C	c.(763-765)GTC>GCC	p.V255A	SLC36A4_uc001pdm.2_Missense_Mutation_p.V120A	NM_152313	NP_689526	Q6YBV0	S36A4_HUMAN	solute carrier family 36 (proton/amino acid	255					L-alanine transport|proline transport|tryptophan transport	integral to membrane	symporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				ACTTACCCTGACAACATACTG	0.254													20	118					0	0	1	0	0		G	92901114	G	G	92901114	3	3	151	1	0	0	0	0	1	0	0	0	14621	275	10	3	770	3	SLC36A4	11	92901114	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	362789	92901114	42105402	2723	79888											
ENDOD1	23052	broad.mit.edu	37	chr11	94862578	94862578	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctgtgtacaccatgggCgctattccaattgtttgcaa	8	14	8	11	1	0	0	0	0	0	0	2	0	2	0	3	1	2	4	3	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:94862578C>T	uc001pfh.2	+	2	1413	c.1338C>T	c.(1336-1338)GGC>GGT	p.G446G		NM_015036	NP_055851	O94919	ENDD1_HUMAN	endonuclease domain containing 1 precursor	446						extracellular region	endonuclease activity|metal ion binding|nucleic acid binding				0		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.00824)				ACACCATGGGCGCTATTCCAA	0.532													42	183					0	0	1	0	0		T	94862578	T	T	94862578	2	4	151	1	0	0	0	0	0	0	0	1	5122	755	27	1		1	ENDOD1	11	94862578	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1961464	94862578	40143938	2724	79889											
SESN3	143686	broad.mit.edu	37	chr11	94911072	94911072	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgattttcccaggtatagTcctaaaagaataaaatgtat	16	13	6	6	0	0	2	0	1	0	1	2	2	2	2	2	1	0	2	2	1	8	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:94911072T>C	uc001pfk.1	-	8	1280	c.1058A>G	c.(1057-1059)GAC>GGC	p.D353G	SESN3_uc010rug.1_Missense_Mutation_p.D214G	NM_144665	NP_653266	P58005	SESN3_HUMAN	sestrin 3	353					cell cycle arrest	nucleus					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.234)		CCAGGTATAGTCCTAAAAGAA	0.333													14	65					0	0	1	0	0		C	94911072	C	C	94911072	3	2	151	1	0	0	0	0	1	0	0	0	14151	1681	58	3	432	3	SESN3	11	94911072	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	48494	94911072	40095444	2725	79890											
CEP57	9702	broad.mit.edu	37	chr11	95562484	95562484	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaataactaaagttcgaaaaTaccaagcccaggtaactcag	19	7	6	9	1	1	0	1	0	0	0	2	1	1	0	2	1	4	2	2	1	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:95562484T>A	uc001pfp.1	+	10	1482	c.1261T>A	c.(1261-1263)TAC>AAC	p.Y421N	CEP57_uc010ruh.1_Missense_Mutation_p.Y412N|CEP57_uc010rui.1_Missense_Mutation_p.Y395N|CEP57_uc009ywn.1_Missense_Mutation_p.Y269N|CEP57_uc001pfq.1_Missense_Mutation_p.Y395N|CEP57_uc001pfr.1_Missense_Mutation_p.Y269N	NM_014679	NP_055494	Q86XR8	CEP57_HUMAN	translokin	421	Mediates interaction with microtubules (By similarity).|Potential.				fibroblast growth factor receptor signaling pathway|G2/M transition of mitotic cell cycle|protein import into nucleus, translocation|spermatid development	centrosome|cytosol|Golgi apparatus|microtubule|nucleus	fibroblast growth factor binding|protein homodimerization activity			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				AGTTCGAAAATACCAAGCCCA	0.358									Mosaic_Variegated_Aneuploidy_Syndrome				52	212					0	0	1	0	0		A	95562484	A	A	95562484	3	1	151	1	0	0	0	0	1	0	0	0	3259	1406	49	5	1299	5	CEP57	11	95562484	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	651412	95562484	39444032	2726	79891											
MAML2	84441	broad.mit.edu	37	chr11	95712489	95712489	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccatttagtgtttggctcaTttggttcatgggtctcattt	5	19	9	8	0	3	0	3	0	1	0	4	0	3	0	1	3	0	3	1	3	1	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:95712489T>C	uc001pfw.1	-	5	4379	c.3094A>G	c.(3094-3096)ATG>GTG	p.M1032V		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	1032					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				GTTTGGCTCATTTGGTTCATG	0.493			T	MECT1|CRTC3	salivary gland mucoepidermoid								8	44					0	0	1	0	0		C	95712489	C	C	95712489	3	2	151	1	0	0	0	0	1	0	0	0	9224	1493	52	3	380	3	MAML2	11	95712489	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	150005	95712489	39294027	2727	79892											
MAML2	84441	broad.mit.edu	37	chr11	95826382	95826382	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcttactgcaagacagagtCtctcctggctccttctttac	7	14	7	13	0	2	2	0	0	2	2	5	2	4	2	2	1	4	3	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:95826382C>G	uc001pfw.1	-	2	2098	c.813G>C	c.(811-813)GAG>GAC	p.E271D		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	271					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				AAGACAGAGTCTCTCCTGGCT	0.483			T	MECT1|CRTC3	salivary gland mucoepidermoid								27	102					0	0	1	0	0		G	95826382	G	G	95826382	3	3	151	1	0	0	0	0	1	0	0	0	9224	912	32	5	2673	5	MAML2	11	95826382	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	113893	95826382	39180134	2728	79893											
CNTN5	53942	broad.mit.edu	37	chr11	100221600	100221600	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attagggtaccatcatattcAggtaagttttgacacagtag	13	13	9	6	0	2	1	2	1	0	0	2	1	2	1	1	2	1	4	1	2	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:100221600A>G	uc001pga.2	+	24	3537	c.3198A>G	c.(3196-3198)TCA>TCG	p.S1066S	CNTN5_uc001pgb.2_Silent_p.S992S|CNTN5_uc010ruk.1_Silent_p.S337S	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	1066					cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CATCATATTCAGGTAAGTTTT	0.378													18	89					0	0	1	0	0		G	100221600	G	G	100221600	2	3	151	1	0	0	0	0	0	0	0	1	3647	202	7	3		3	CNTN5	11	100221600	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4395218	100221600	34784916	2729	79894											
KIAA1377	57562	broad.mit.edu	37	chr11	101815143	101815143	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagcggaggaaagcaggTgccttaatttctagaacagt	13	9	11	8	1	2	1	1	0	1	1	2	3	2	3	1	3	4	1	1	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:101815143T>A	uc001pgm.2	+	3	664	c.394_splice	c.e3+2	p.V132_splice	KIAA1377_uc001pgn.2_Splice_Site_p.V88_splice|KIAA1377_uc009yxa.1_Splice_Site	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562								protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		GGAAAGCAGGTGCCTTAATTT	0.343													16	55					0	0	1	0	0		A	101815143	A	A	101815143	5	1	151	1	0	0	0	0	0	0	1	0	8243	1710	59	5	406	5	KIAA1377	11	101815143	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1593543	101815143	33191373	2730	79895											
MMP10	4319	broad.mit.edu	37	chr11	102650475	102650475	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagtacttttctaggtatTgctaatggaaaatagaattt	13	17	8	3	0	1	1	0	0	1	1	1	2	1	2	0	2	2	4	0	2	9	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:102650475T>C	uc001phg.1	-	2	129	c.107A>G	c.(106-108)CAA>CGA	p.Q36R		NM_002425	NP_002416	P09238	MMP10_HUMAN	matrix metalloproteinase 10 preproprotein	36					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			kidney(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_epithelial(12;0.00961)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0303)|Lung(13;0.0828)|all cancers(10;0.116)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0145)		TTCTAGGTATTGCTAATGGAA	0.303													16	98					0	0	1	0	0		C	102650475	C	C	102650475	3	2	151	1	0	0	0	0	1	0	0	0	9667	1826	63	3	1359	3	MMP10	11	102650475	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	835332	102650475	32356041	2731	79896											
DYNC2H1	79659	broad.mit.edu	37	chr11	103068666	103068666	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatttatttccacagatagTttctacgttacatggggagc	10	15	8	8	1	2	1	1	0	1	1	3	2	3	2	1	2	3	2	1	2	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:103068666T>C	uc001pho.2	+	48	7857	c.7713T>C	c.(7711-7713)AGT>AGC	p.S2571S	DYNC2H1_uc001phn.1_Silent_p.S2571S|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2571					cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CCACAGATAGTTTCTACGTTA	0.363													5	5					0	0	1	0	0		C	103068666	C	C	103068666	2	2	151	1	0	0	0	0	0	0	0	1	4852	1722	60	3		3	DYNC2H1	11	103068666	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	418191	103068666	31937850	2732	79897											
DDI1	414301	broad.mit.edu	37	chr11	103907841	103907841	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctcgtgtagacttcagTggcattgcggtgcctgggac	6	10	14	11	2	1	1	1	0	0	1	2	2	1	2	2	3	3	2	2	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:103907841T>C	uc001phr.2	+	1	534	c.291T>C	c.(289-291)AGT>AGC	p.S97S	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	97					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		TAGACTTCAGTGGCATTGCGG	0.637													31	157					0	0	1	0	0		C	103907841	C	C	103907841	2	2	151	1	0	0	0	0	0	0	0	1	4331	1693	59	3		3	DDI1	11	103907841	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	839175	103907841	31098675	2733	79898											
CARD16	114769	broad.mit.edu	37	chr11	104915212	104915212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgcccctttcggaataaCggagtcaatcaaagctcggg	10	9	11	11	3	2	0	2	0	0	0	4	2	2	2	2	3	3	1	2	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:104915212C>T	uc001pip.1	-	2	208	c.181G>A	c.(181-183)GTT>ATT	p.V61I	CASP1_uc010rve.1_Intron|CASP1_uc010rvf.1_Intron|CASP1_uc010rvg.1_Intron|CASP1_uc010rvh.1_Intron|CASP1_uc010rvi.1_Intron|CARD16_uc001pio.1_Missense_Mutation_p.V61I	NM_001017534	NP_001017534	Q5EG05	CAR16_HUMAN	caspase-1 dominant-negative inhibitor pseudo-ICE	61	CARD.				regulation of apoptosis	intracellular	cysteine-type endopeptidase inhibitor activity			skin(1)	1						TTCGGAATAACGGAGTCAATC	0.453													84	347					0	0	1	0	0		T	104915212	T	T	104915212	3	4	151	1	0	0	0	0	1	0	0	0	2650	536	19	1	444	1	CARD16	11	104915212	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1007371	104915212	30091304	2734	79899											
CARD16	114769	broad.mit.edu	37	chr11	104915354	104915354	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttcacccatggaatggatAaacagctttctcttctcctt	9	14	5	13	0	3	0	1	0	2	0	5	2	3	2	3	2	2	1	3	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:104915354A>G	uc001pip.1	-	2	66	c.39T>C	c.(37-39)TTT>TTC	p.F13F	CASP1_uc010rve.1_Intron|CASP1_uc010rvf.1_Intron|CASP1_uc010rvg.1_Intron|CASP1_uc010rvh.1_Intron|CASP1_uc010rvi.1_Intron|CARD16_uc001pio.1_Silent_p.F13F	NM_001017534	NP_001017534	Q5EG05	CAR16_HUMAN	caspase-1 dominant-negative inhibitor pseudo-ICE	13	CARD.				regulation of apoptosis	intracellular	cysteine-type endopeptidase inhibitor activity			skin(1)	1						TGGAATGGATAAACAGCTTTC	0.413													107	448					0	0	1	0	0		G	104915354	G	G	104915354	2	3	151	1	0	0	0	0	0	0	0	1	2650	359	13	3		3	CARD16	11	104915354	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	142	104915354	30091162	2735	79900											
GRIA4	2893	broad.mit.edu	37	chr11	105758275	105758275	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggaaagcatgttaaaggcTaccattatatcattgcaaac	15	12	7	7	0	1	0	1	0	0	0	1	1	1	1	1	2	4	4	1	2	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:105758275T>C	uc001pix.2	+	6	1149	c.703T>C	c.(703-705)TAC>CAC	p.Y235H	GRIA4_uc001piu.1_Missense_Mutation_p.Y235H|GRIA4_uc001piw.2_Missense_Mutation_p.Y235H|GRIA4_uc009yxk.1_Missense_Mutation_p.Y235H	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	235	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	TGTTAAAGGCTACCATTATAT	0.254													24	135					0	0	1	0	0		C	105758275	C	C	105758275	3	2	151	1	0	0	0	0	1	0	0	0	6786	1522	53	3	721	3	GRIA4	11	105758275	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	842921	105758275	29248241	2736	79901											
GRIA4	2893	broad.mit.edu	37	chr11	105776013	105776013	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtttgagctgaaaagcAcaggacctagaaaggtgagc	14	8	13	6	0	0	4	0	3	0	1	0	5	0	5	1	2	3	3	1	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:105776013A>G	uc001pix.2	+	9	1590	c.1144A>G	c.(1144-1146)ACA>GCA	p.T382A	GRIA4_uc001piu.1_Missense_Mutation_p.T382A|GRIA4_uc001piw.2_Missense_Mutation_p.T382A|GRIA4_uc009yxk.1_Missense_Mutation_p.T382A	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	382	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	GCTGAAAAGCACAGGACCTAG	0.393													14	45					0	0	1	0	0		G	105776013	G	G	105776013	3	3	151	1	0	0	0	0	1	0	0	0	6786	159	6	3	1174	3	GRIA4	11	105776013	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	17738	105776013	29230503	2737	79902											
GUCY1A2	2977	broad.mit.edu	37	chr11	106810451	106810451	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatgctaattctgaggtccGcaggaacttgggaggttccc	8	11	13	9	1	1	2	0	2	1	0	3	4	3	4	2	4	2	3	2	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:106810451G>A	uc001pjg.1	-	4	1331	c.941C>T	c.(940-942)GCG>GTG	p.A314V	GUCY1A2_uc010rvo.1_Missense_Mutation_p.A314V|GUCY1A2_uc009yxn.1_Missense_Mutation_p.A314V	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	314					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		TCTGAGGTCCGCAGGAACTTG	0.448													14	73					0	0	1	0	0		A	106810451	A	A	106810451	3	1	151	1	0	0	0	0	1	0	0	0	6909	1087	38	1	1277	1	GUCY1A2	11	106810451	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1034438	106810451	28196065	2738	79903											
CWF19L2	143884	broad.mit.edu	37	chr11	107299652	107299652	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatcagtactggtttccgAtggcttttgatttgaatgtt	7	19	9	6	1	2	2	2	2	0	0	3	3	3	2	1	2	1	4	1	2	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:107299652A>G	uc010rvp.1	-	8	1336	c.1306T>C	c.(1306-1308)TCG>CCG	p.S436P	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	436							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		CTGGTTTCCGATGGCTTTTGA	0.403													83	395					0	0	1	0	0		G	107299652	G	G	107299652	3	3	151	1	0	0	0	0	1	0	0	0	4075	333	12	3	1422	3	CWF19L2	11	107299652	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	489201	107299652	27706864	2739	79904											
ELMOD1	55531	broad.mit.edu	37	chr11	107535915	107535915	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctcggaaggtttaatcAacatgtagttgcccacgccg	9	10	10	12	3	1	0	1	0	0	0	2	1	1	1	3	2	3	3	3	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:107535915A>G	uc010rvs.1	+	12	1401	c.997A>G	c.(997-999)AAC>GAC	p.N333D	ELMOD1_uc001pjm.2_Missense_Mutation_p.N325D|ELMOD1_uc010rvt.1_Missense_Mutation_p.N327D	NM_018712	NP_061182	Q8N336	ELMD1_HUMAN	ELMO/CED-12 domain containing 1 isoform 1	333					phagocytosis	cytoskeleton	GTPase activator activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00304)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Epithelial(105;0.00027)|all cancers(92;0.00481)		AGGTTTAATCAACATGTAGTT	0.493													39	149					0	0	1	0	0		G	107535915	G	G	107535915	3	3	151	1	0	0	0	0	1	0	0	0	5076	130	5	3	1039	3	ELMOD1	11	107535915	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	236263	107535915	27470601	2740	79905											
CUL5	8065	broad.mit.edu	37	chr11	107965548	107965548	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctctatagctgattcagTtaatataaaaattctgaatg	14	16	5	6	0	3	2	1	2	2	0	4	2	3	2	0	0	1	2	0	0	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:107965548T>C	uc001pjv.2	+	15	2244	c.1577T>C	c.(1576-1578)GTT>GCT	p.V526A	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	526					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		GCTGATTCAGTTAATATAAAA	0.333													12	67					0	0	1	0	0		C	107965548	C	C	107965548	3	2	151	1	0	0	0	0	1	0	0	0	4062	1725	60	3	1635	3	CUL5	11	107965548	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	429633	107965548	27040968	2741	79906											
ACAT1	38	broad.mit.edu	37	chr11	108017014	108017014	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggttgtactagcaaacaTtaaaatgttggagattgatc	13	14	9	5	0	1	2	0	1	1	1	2	3	1	2	0	2	3	4	0	2	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:108017014T>C	uc001pjy.2	+	11	1167	c.1091T>C	c.(1090-1092)ATT>ACT	p.I364T		NM_000019	NP_000010	P24752	THIL_HUMAN	acetyl-Coenzyme A acetyltransferase 1 precursor	364					acetoacetic acid biosynthetic process|branched chain family amino acid catabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	acetyl-CoA C-acetyltransferase activity|metal ion binding			ovary(3)	3		all_cancers(61;6.41e-10)|all_epithelial(67;2.83e-06)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;2.96e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.00108)|OV - Ovarian serous cystadenocarcinoma(223;0.192)	Sulfasalazine(DB00795)	CTAGCAAACATTAAAATGTTG	0.333													50	198					0	0	1	0	0		C	108017014	C	C	108017014	3	2	151	1	0	0	0	0	1	0	0	0	121	1493	52	3	1133	3	ACAT1	11	108017014	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	51466	108017014	26989502	2742	79907											
ATM	472	broad.mit.edu	37	chr11	108159816	108159816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaaaagcattttagaaattCtttccaaaagccctgtaagt	16	13	5	7	0	1	1	0	0	1	1	2	1	2	1	2	0	2	2	2	0	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:108159816C>T	uc001pkb.1	+	28	4607	c.4222C>T	c.(4222-4224)CTT>TTT	p.L1408F	ATM_uc009yxr.1_Missense_Mutation_p.L1408F|ATM_uc001pkd.3_Missense_Mutation_p.L60F|ATM_uc001pke.1_Missense_Mutation_p.L60F|ATM_uc010rvw.1_Missense_Mutation_p.L60F|ATM_uc001pkf.2_Missense_Mutation_p.L60F	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1408					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TTTAGAAATTCTTTCCAAAAG	0.303			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			16	100					0	0	1	0	0		T	108159816	T	T	108159816	3	4	151	1	0	0	0	0	1	0	0	0	1110	913	32	4	4328	4	ATM	11	108159816	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	142802	108159816	26846700	2743	79908											
ATM	472	broad.mit.edu	37	chr11	108202676	108202676	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggccttagcaaatgcaaAcagagatgaatttctgacta	15	10	8	8	0	1	3	0	2	1	1	1	4	1	3	1	1	3	2	1	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:108202676A>G	uc001pkb.1	+	52	8085	c.7700A>G	c.(7699-7701)AAC>AGC	p.N2567S	ATM_uc009yxr.1_Missense_Mutation_p.N2567S|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.N1219S|ATM_uc001pkg.1_Missense_Mutation_p.N924S	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2567					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		GCAAATGCAAACAGAGATGAA	0.358			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			22	115					0	0	1	0	0		G	108202676	G	G	108202676	3	3	151	1	0	0	0	0	1	0	0	0	1110	43	2	3	7902	3	ATM	11	108202676	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	42860	108202676	26803840	2744	79909											
ATM	472	broad.mit.edu	37	chr11	108236086	108236086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttcaacaaagtagctgaaCgtgtcttaatgagactacaa	15	11	8	7	1	2	2	1	2	1	1	2	3	2	2	0	0	4	3	0	0	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:108236086C>T	uc001pkb.1	+	63	9407	c.9022C>T	c.(9022-9024)CGT>TGT	p.R3008C	ATM_uc009yxr.1_Missense_Mutation_p.R3008C|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.R1660C	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	3008			R -> C (in AT, T-prolymphocytic leukemia and mantle cell lymphoma).|R -> H (in B-cell chronic lymphocytic leukemia).		cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding	p.R3008C(4)|p.R3008H(4)		haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		AGTAGCTGAACGTGTCTTAAT	0.413			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			24	116					0	0	1	0	0		T	108236086	T	T	108236086	3	4	151	1	0	0	0	0	1	0	0	0	1110	536	19	1	9268	1	ATM	11	108236086	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	33410	108236086	26770430	2745	79910											
EXPH5	23086	broad.mit.edu	37	chr11	108382343	108382343	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcgtgtagaataattctgTttgtctttttctaaagcgtt	8	20	7	6	2	4	1	0	0	4	1	5	1	4	1	0	0	1	3	0	0	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:108382343T>C	uc001pkk.2	-	6	4002	c.3891A>G	c.(3889-3891)AAA>AAG	p.K1297K	EXPH5_uc010rvy.1_Silent_p.K1109K|EXPH5_uc010rvz.1_Silent_p.K1141K|EXPH5_uc010rwa.1_Silent_p.K1221K	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1297					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		AATAATTCTGTTTGTCTTTTT	0.373													26	132					0	0	1	0	0		C	108382343	C	C	108382343	2	2	151	1	0	0	0	0	0	0	0	1	5330	1722	60	3		3	EXPH5	11	108382343	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	146257	108382343	26624173	2746	79911											
EXPH5	23086	broad.mit.edu	37	chr11	108389088	108389088	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttccagaggtgaattgtAtatttttgcctgctaatttt	9	20	7	5	0	0	2	0	1	0	1	1	2	1	2	2	1	2	2	2	1	4	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:108389088A>G	uc001pkk.2	-	5	616	c.505T>C	c.(505-507)TAC>CAC	p.Y169H	EXPH5_uc010rvy.1_5'UTR|EXPH5_uc010rvz.1_Missense_Mutation_p.Y13H|EXPH5_uc010rwa.1_Missense_Mutation_p.Y93H	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	169					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		GGTGAATTGTATATTTTTGCC	0.443													16	70					0	0	1	0	0		G	108389088	G	G	108389088	3	3	151	1	0	0	0	0	1	0	0	0	5330	449	16	3	5472	3	EXPH5	11	108389088	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6745	108389088	26617428	2747	79912											
PPP2R1B	5519	broad.mit.edu	37	chr11	111612842	111612842	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgacctaacttctgtagtActggcttcacttctccctgt	6	16	6	13	0	3	1	1	1	2	0	4	1	3	1	2	1	2	3	2	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:111612842A>G	uc001plx.1	-	14	1808	c.1724T>C	c.(1723-1725)GTA>GCA	p.V575A	PPP2R1B_uc001plw.1_Missense_Mutation_p.V575A|PPP2R1B_uc010rwi.1_Missense_Mutation_p.V511A|PPP2R1B_uc010rwj.1_Missense_Mutation_p.V414A|PPP2R1B_uc010rwk.1_Missense_Mutation_p.V530A|PPP2R1B_uc010rwl.1_Missense_Mutation_p.V448A	NM_002716	NP_002707	P30154	2AAB_HUMAN	beta isoform of regulatory subunit A, protein	575	HEAT 15.						protein binding				0		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|Epithelial(105;2.36e-06)|all cancers(92;3.78e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0761)		CTTCTGTAGTACTGGCTTCAC	0.383													32	170					0	0	1	0	0		G	111612842	G	G	111612842	3	3	151	1	0	0	0	0	1	0	0	0	12405	391	14	3	312	3	PPP2R1B	11	111612842	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3223754	111612842	23393674	2748	79913											
PPP2R1B	5519	broad.mit.edu	37	chr11	111625257	111625257	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaatttgattcataattatgGtctctctatcttcaatgggc	10	17	7	7	0	5	1	2	1	3	0	6	2	5	1	0	2	0	0	0	2	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:111625257G>C	uc001plx.1	-	8	1079	c.995C>G	c.(994-996)ACC>AGC	p.T332S	PPP2R1B_uc001plw.1_Missense_Mutation_p.T332S|PPP2R1B_uc010rwi.1_Missense_Mutation_p.T268S|PPP2R1B_uc010rwj.1_Missense_Mutation_p.T171S|PPP2R1B_uc010rwk.1_Missense_Mutation_p.T332S|PPP2R1B_uc010rwl.1_Missense_Mutation_p.T205S	NM_002716	NP_002707	P30154	2AAB_HUMAN	beta isoform of regulatory subunit A, protein	332	HEAT 8.						protein binding				0		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|Epithelial(105;2.36e-06)|all cancers(92;3.78e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0761)		CATAATTATGGTCTCTCTATC	0.313													7	80					0	0	1	0	0		C	111625257	C	C	111625257	3	2	151	1	0	0	0	0	1	0	0	0	12405	1261	44	5	1065	5	PPP2R1B	11	111625257	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	12415	111625257	23381259	2749	79914											
C11orf57	55216	broad.mit.edu	37	chr11	111953431	111953431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggaaacaaccacataaacGcaagaaaaaatccaggaaaa	24	2	7	8	1	0	1	0	0	0	1	1	3	1	3	2	2	3	1	2	2	10	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:111953431G>A	uc001pmr.3	+	6	1295	c.614G>A	c.(613-615)CGC>CAC	p.R205H	C11orf57_uc001pmw.3_Missense_Mutation_p.R206H|C11orf57_uc001pmt.3_Missense_Mutation_p.R206H|C11orf57_uc001pmv.3_Missense_Mutation_p.R205H|C11orf57_uc001pms.3_Missense_Mutation_p.R177H	NM_001082970	NP_001076439	Q6ZUT1	CK057_HUMAN	hypothetical protein LOC55216 isoform b	205	Lys-rich.									breast(2)|ovary(1)	3		all_cancers(61;9.8e-15)|all_epithelial(67;6.57e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.6e-07)|BRCA - Breast invasive adenocarcinoma(274;6.17e-07)|all cancers(92;7.01e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0521)		CCACATAAACGCAAGAAAAAA	0.408													24	102					0	0	1	0	0		A	111953431	A	A	111953431	3	1	151	1	0	0	0	0	1	0	0	0	1653	1087	38	1	635	1	C11orf57	11	111953431	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	328174	111953431	23053085	2750	79915											
USP28	57646	broad.mit.edu	37	chr11	113672318	113672318	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaatgcaggggatgatcAgttcattcatcacattaatg	12	12	11	6	0	4	2	4	2	0	0	4	3	4	3	0	3	1	2	0	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:113672318A>G	uc001poh.2	-	24	2978	c.2945T>C	c.(2944-2946)CTG>CCG	p.L982P	USP28_uc001pog.2_Missense_Mutation_p.L658P|USP28_uc010rwy.1_Missense_Mutation_p.L825P|USP28_uc001poi.2_Missense_Mutation_p.L305P	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	982					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		GGGGATGATCAGTTCATTCAT	0.408													22	106					0	0	1	0	0		G	113672318	G	G	113672318	3	3	151	1	0	0	0	0	1	0	0	0	17084	188	7	3	296	3	USP28	11	113672318	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1718887	113672318	21334198	2751	79916											
USP28	57646	broad.mit.edu	37	chr11	113684655	113684655	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttcaatagtctgagtagtActtgcaatacaagtctttaa	13	15	7	6	0	3	1	1	1	2	0	3	1	3	1	0	0	3	4	0	0	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:113684655A>G	uc001poh.2	-	15	1728	c.1695T>C	c.(1693-1695)AGT>AGC	p.S565S	USP28_uc001pog.2_Silent_p.S273S|USP28_uc010rwy.1_Silent_p.S440S|USP28_uc001poi.2_Intron|USP28_uc001poj.3_Silent_p.S565S	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	565					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		TCTGAGTAGTACTTGCAATAC	0.358													10	71					0	0	1	0	0		G	113684655	G	G	113684655	2	3	151	1	0	0	0	0	0	0	0	1	17084	388	14	3		3	USP28	11	113684655	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	12337	113684655	21321861	2752	79917											
USP28	57646	broad.mit.edu	37	chr11	113694409	113694409	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcgaataagctccttgcTcctgtacatgtacctaagta	11	14	6	10	1	0	0	0	0	0	0	3	1	2	0	3	0	4	5	3	0	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:113694409T>A	uc001poh.2	-	12	1234	c.1201A>T	c.(1201-1203)AGC>TGC	p.S401C	USP28_uc001pog.2_Missense_Mutation_p.S109C|USP28_uc010rwy.1_Missense_Mutation_p.S276C|USP28_uc001poi.2_5'UTR|USP28_uc001poj.3_Missense_Mutation_p.S401C	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	401					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		AGCTCCTTGCTCCTGTACATG	0.259													16	72					0	0	1	0	0		A	113694409	A	A	113694409	3	1	151	1	0	0	0	0	1	0	0	0	17084	1551	54	5	2088	5	USP28	11	113694409	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	9754	113694409	21312107	2753	79918											
APOA1	335	broad.mit.edu	37	chr11	116708093	116708093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacggccaaggtcagcaccGcagctttcatcctgaagggc	9	6	12	14	2	2	1	2	1	0	0	3	1	3	1	3	3	2	4	3	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:116708093G>A	uc001ppu.1	-	2	90	c.11C>T	c.(10-12)GCG>GTG	p.A4V	APOA1_uc001ppv.1_Missense_Mutation_p.A4V	NM_000039	NP_000030	P02647	APOA1_HUMAN	apolipoprotein A-I preproprotein	4					Cdc42 protein signal transduction|cholesterol efflux|cholesterol homeostasis|cholesterol import|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|negative regulation of cytokine secretion involved in immune response|negative regulation of interleukin-1 beta secretion|negative regulation of very-low-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|phospholipid efflux|platelet activation|platelet degranulation|positive regulation of cholesterol esterification|positive regulation of hydrolase activity|protein stabilization|reverse cholesterol transport	endocytic vesicle|endoplasmic reticulum lumen|plasma membrane|spherical high-density lipoprotein particle|stored secretory granule|very-low-density lipoprotein particle	apolipoprotein A-I receptor binding|beta-amyloid binding|cholesterol binding|cholesterol transporter activity|enzyme binding|high-density lipoprotein particle receptor binding|identical protein binding|phosphatidylcholine-sterol O-acyltransferase activator activity|phospholipid binding				0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.59e-05)|all cancers(92;0.000162)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		GGTCAGCACCGCAGCTTTCAT	0.642													2	2					0	0	1	0	0		A	116708093	A	A	116708093	3	1	151	1	0	0	0	0	1	0	0	0	780	1087	38	1	804	1	APOA1	11	116708093	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3013684	116708093	18298423	2754	79919											
SIK3	23387	broad.mit.edu	37	chr11	116717117	116717117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctctgtttcttgttacaCgcctgcctgctccatgctga	5	15	7	14	1	2	1	0	1	2	0	4	1	3	1	3	0	4	4	3	0	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:116717117C>T	uc001ppy.2	-	23	3823	c.3787G>A	c.(3787-3789)GTG>ATG	p.V1263M	SIK3_uc001ppz.2_Missense_Mutation_p.V1102M|SIK3_uc001pqa.2_Missense_Mutation_p.V1203M|SIK3_uc001ppw.2_Missense_Mutation_p.V620M|SIK3_uc001ppx.2_Missense_Mutation_p.V641M	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	1263						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						TCTTGTTACACGCCTGCCTGC	0.537													28	152					0	0	1	0	0		T	116717117	T	T	116717117	3	4	151	1	0	0	0	0	1	0	0	0	14344	536	19	1	8	1	SIK3	11	116717117	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	9024	116717117	18289399	2755	79920											
SIK3	23387	broad.mit.edu	37	chr11	116719861	116719861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtcgctgttctggatcGtgtggtgtctctggagggcc	3	13	15	10	3	2	0	0	0	2	0	6	2	2	2	1	4	0	2	1	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:116719861G>A	uc001ppy.2	-	21	3512	c.3476C>T	c.(3475-3477)ACG>ATG	p.T1159M	SIK3_uc001ppz.2_Missense_Mutation_p.T998M|SIK3_uc001pqa.2_Missense_Mutation_p.T1099M|SIK3_uc001ppw.2_Missense_Mutation_p.T516M|SIK3_uc001ppx.2_Missense_Mutation_p.T537M	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	1159						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						GTTCTGGATCGTGTGGTGTCT	0.602													12	63					0	0	1	0	0		A	116719861	A	A	116719861	3	1	151	1	0	0	0	0	1	0	0	0	14344	1145	40	1	327	1	SIK3	11	116719861	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2744	116719861	18286655	2756	79921											
TAGLN	6876	broad.mit.edu	37	chr11	117073798	117073798	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatcgagaagaagtatgaCgaggagctggaggagcggct	15	5	16	5	3	0	3	0	1	0	2	1	8	0	6	0	4	2	3	0	4	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:117073798C>T	uc001pqm.2	+	2	190	c.69C>T	c.(67-69)GAC>GAT	p.D23D	uc001pqk.1_5'Flank|TAGLN_uc001pql.1_Intron|TAGLN_uc001pqn.2_Silent_p.D23D|TAGLN_uc001pqo.2_Silent_p.D23D|TAGLN_uc001pqp.2_Silent_p.D23D|uc001pqq.1_5'Flank	NM_003186	NP_003177	Q01995	TAGL_HUMAN	transgelin	23					muscle organ development	cytoplasm	actin binding				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|Epithelial(105;5.49e-05)|all cancers(92;0.000435)		AGAAGTATGACGAGGAGCTGG	0.597													10	26					0	0	1	0	0		T	117073798	T	T	117073798	2	4	151	1	0	0	0	0	0	0	0	1	15563	535	19	1		1	TAGLN	11	117073798	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	353937	117073798	17932718	2757	79922											
PCSK7	9159	broad.mit.edu	37	chr11	117098958	117098958	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgcaatgtcctggatggTgtgttccactccgtcatcca	6	12	12	11	1	1	0	1	0	0	0	5	1	5	1	4	3	1	2	4	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:117098958T>C	uc001pqr.2	-	4	778	c.577A>G	c.(577-579)ACC>GCC	p.T193A		NM_004716	NP_004707	Q16549	PCSK7_HUMAN	proprotein convertase subtilisin/kexin type 7	193	Catalytic.|Extracellular (Potential).				peptide hormone processing	integral to Golgi membrane	serine-type endopeptidase activity				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.72e-06)|Epithelial(105;6.71e-05)|all cancers(92;0.000537)		TCCTGGATGGTGTGTTCCACT	0.592			T	IGH@	MLCLS								6	20					0	0	1	0	0		C	117098958	C	C	117098958	3	2	151	1	0	0	0	0	1	0	0	0	11624	1696	59	3	1836	3	PCSK7	11	117098958	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	25160	117098958	17907558	2758	79923											
PCSK7	9159	broad.mit.edu	37	chr11	117100293	117100293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtgcccctgaagctctcCgatgcgtccagcattcacca	8	9	9	15	2	2	1	1	1	1	0	4	2	3	1	5	0	4	3	5	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:117100293C>T	uc001pqr.2	-	3	469	c.268G>A	c.(268-270)GGA>AGA	p.G90R		NM_004716	NP_004707	Q16549	PCSK7_HUMAN	proprotein convertase subtilisin/kexin type 7	90					peptide hormone processing	integral to Golgi membrane	serine-type endopeptidase activity				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.72e-06)|Epithelial(105;6.71e-05)|all cancers(92;0.000537)		TGAAGCTCTCCGATGCGTCCA	0.657			T	IGH@	MLCLS								17	55					0	0	1	0	0		T	117100293	T	T	117100293	3	4	151	1	0	0	0	0	1	0	0	0	11624	661	23	1	2149	1	PCSK7	11	117100293	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1335	117100293	17906223	2759	79924											
BACE1	23621	broad.mit.edu	37	chr11	117165972	117165972	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgttggggccatgggggaTgcttaccaggtcggtgccca	6	8	17	10	2	0	0	0	0	0	0	1	2	0	1	3	6	3	2	3	6	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:117165972T>C	uc001pqz.2	-	3	903	c.442A>G	c.(442-444)ATC>GTC	p.I148V	BACE1_uc001pqw.2_Missense_Mutation_p.I148V|BACE1_uc001pqx.2_Intron|BACE1_uc001pqy.2_Intron|BACE1_uc001pra.1_Intron|BACE1_uc010rxg.1_Missense_Mutation_p.I48V|BACE1_uc010rxh.1_Missense_Mutation_p.I48V	NM_012104	NP_036236	P56817	BACE1_HUMAN	beta-site APP-cleaving enzyme 1 isoform A	148	Extracellular (Potential).				beta-amyloid metabolic process|membrane protein ectodomain proteolysis	cell surface|cytoplasmic vesicle membrane|endoplasmic reticulum|endosome|integral to plasma membrane|trans-Golgi network	aspartic-type endopeptidase activity|beta-aspartyl-peptidase activity|protein binding			ovary(1)	1	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000563)|all cancers(92;0.0032)		CCATGGGGGATGCTTACCAGG	0.587													19	84					0	0	1	0	0		C	117165972	C	C	117165972	3	2	151	1	0	0	0	0	1	0	0	0	1282	1464	51	3	1091	3	BACE1	11	117165972	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	65679	117165972	17840544	2760	79925											
BACE1	23621	broad.mit.edu	37	chr11	117186277	117186277	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggggctgcccacggtcaTctccacgtagtagccctgcc	5	7	13	16	3	2	0	1	0	1	0	3	0	2	0	4	4	3	3	4	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:117186277T>C	uc001pqz.2	-	1	696	c.235A>G	c.(235-237)ATG>GTG	p.M79V	BACE1_uc001pqw.2_Missense_Mutation_p.M79V|BACE1_uc001pqx.2_Missense_Mutation_p.M79V|BACE1_uc001pqy.2_Missense_Mutation_p.M79V|BACE1_uc001pra.1_Missense_Mutation_p.M79V	NM_012104	NP_036236	P56817	BACE1_HUMAN	beta-site APP-cleaving enzyme 1 isoform A	79	Extracellular (Potential).				beta-amyloid metabolic process|membrane protein ectodomain proteolysis	cell surface|cytoplasmic vesicle membrane|endoplasmic reticulum|endosome|integral to plasma membrane|trans-Golgi network	aspartic-type endopeptidase activity|beta-aspartyl-peptidase activity|protein binding			ovary(1)	1	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000563)|all cancers(92;0.0032)		CCCACGGTCATCTCCACGTAG	0.667													10	21					0	0	1	0	0		C	117186277	C	C	117186277	3	2	151	1	0	0	0	0	1	0	0	0	1282	1435	50	3	1306	3	BACE1	11	117186277	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	20305	117186277	17820239	2761	79926											
CEP164	22897	broad.mit.edu	37	chr11	117279701	117279701	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgagcagtgaaagttctgaAtctttttccccgcctcaccg	8	12	8	13	2	3	3	1	3	2	0	4	3	4	3	4	0	1	2	4	0	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:117279701A>T	uc001prc.2	+	29	3852	c.3705A>T	c.(3703-3705)GAA>GAT	p.E1235D	CEP164_uc001prb.2_Missense_Mutation_p.E1238D|CEP164_uc001prf.2_Intron|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Missense_Mutation_p.E668D	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	1235					cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		AAAGTTCTGAATCTTTTTCCC	0.577													4	60					0	0	1	0	0		T	117279701	T	T	117279701	3	4	151	1	0	0	0	0	1	0	0	0	3252	98	4	5	3811	5	CEP164	11	117279701	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	93424	117279701	17726815	2762	79927											
DSCAML1	57453	broad.mit.edu	37	chr11	117301513	117301513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggcttgggtggtgaggCggtaaagcggcagatgccag	7	7	20	7	2	0	2	0	1	0	1	0	2	0	2	1	7	2	3	1	7	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:117301513C>T	uc001prh.1	-	32	5793	c.5791G>A	c.(5791-5793)GCC>ACC	p.A1931T		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1871	Cytoplasmic (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GGTGGTGAGGCGGTAAAGCGG	0.612													41	127					0	0	1	0	0		T	117301513	T	T	117301513	3	4	151	1	0	0	0	0	1	0	0	0	4775	768	27	1	558	1	DSCAML1	11	117301513	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	21812	117301513	17705003	2763	79928											
DSCAML1	57453	broad.mit.edu	37	chr11	117391895	117391895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtctgggccttgcgggtaGcgaagcactggtaggccccg	5	7	17	12	4	1	0	0	0	1	0	1	1	1	0	3	5	3	3	3	5	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:117391895G>A	uc001prh.1	-	6	1345	c.1343C>T	c.(1342-1344)GCT>GTT	p.A448V	DSCAML1_uc001pri.1_Missense_Mutation_p.A252V	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	388	Extracellular (Potential).|Ig-like C2-type 4.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CTTGCGGGTAGCGAAGCACTG	0.662													27	72					0	0	1	0	0		A	117391895	A	A	117391895	3	1	151	1	0	0	0	0	1	0	0	0	4775	971	34	2	5110	2	DSCAML1	11	117391895	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	90382	117391895	17614621	2764	79929											
MPZL2	10205	broad.mit.edu	37	chr11	118133782	118133782	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccagcacccgggaggtaTaaatttccacagctgctata	11	9	8	13	1	0	0	0	0	0	0	2	1	2	1	4	2	3	4	4	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:118133782T>C	uc001psn.2	-	2	230	c.89A>G	c.(88-90)TAT>TGT	p.Y30C	MPZL2_uc001pso.2_Missense_Mutation_p.Y30C|MPZL2_uc001psp.1_Missense_Mutation_p.Y30C	NM_005797	NP_005788	O60487	MPZL2_HUMAN	myelin protein zero-like 2 precursor	30	Extracellular (Potential).|Ig-like V-type.				anatomical structure morphogenesis|homophilic cell adhesion	cytoskeleton|integral to membrane				skin(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.04e-05)		CCGGGAGGTATAAATTTCCAC	0.468													47	237					0	0	1	0	0		C	118133782	C	C	118133782	3	2	151	1	0	0	0	0	1	0	0	0	9768	1406	49	3	574	3	MPZL2	11	118133782	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	741887	118133782	16872734	2765	79930											
MLL	4297	broad.mit.edu	37	chr11	118359442	118359442	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcgtcgttgcaaattctgTcacgtttgtggaaggcaaca	9	13	11	8	3	2	0	1	0	1	0	4	1	2	1	0	2	2	4	0	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:118359442T>C	uc001pta.2	+	11	4469	c.4446T>C	c.(4444-4446)TGT>TGC	p.C1482C	MLL_uc001ptb.2_Silent_p.C1482C|MLL_uc001pte.1_RNA	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1482	PHD-type 2.|PHD-type 1.				apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GCAAATTCTGTCACGTTTGTG	0.358			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								18	81					0	0	1	0	0		C	118359442	C	C	118359442	2	2	151	1	0	0	0	0	0	0	0	1	9638	1673	58	3		3	MLL	11	118359442	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	225660	118359442	16647074	2766	79931											
MLL	4297	broad.mit.edu	37	chr11	118362626	118362626	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attctcggactaccagccatTtgctacgctaccggcaggta	9	10	9	13	3	1	0	0	0	1	0	2	1	1	1	3	3	5	4	3	3	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:118362626T>C	uc001pta.2	+	15	5001	c.4978T>C	c.(4978-4980)TTG>CTG	p.L1660L	MLL_uc001ptb.2_Silent_p.L1663L|MLL_uc001pte.1_RNA	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1660					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TACCAGCCATTTGCTACGCTA	0.458			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								3	47					0	0	1	0	0		C	118362626	C	C	118362626	2	2	151	1	0	0	0	0	0	0	0	1	9638	1838	64	3		3	MLL	11	118362626	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3184	118362626	16643890	2767	79932											
MLL	4297	broad.mit.edu	37	chr11	118374582	118374582	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagctcaactgggaagaagCgaggcaagagatcagctgaa	15	4	14	8	1	2	3	2	1	0	2	2	6	2	4	0	2	4	4	0	2	5	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:118374582C>T	uc001pta.2	+	27	7989	c.7966C>T	c.(7966-7968)CGA>TGA	p.R2656*	MLL_uc001ptb.2_Nonsense_Mutation_p.R2659*	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2656					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TGGGAAGAAGCGAGGCAAGAG	0.448			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								12	51					0	0	1	0	0		T	118374582	T	T	118374582	4	4	151	1	0	0	0	0	0	1	0	0	9638	760	27	1	8072	1	MLL	11	118374582	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	11956	118374582	16631934	2768	79933											
ARCN1	372	broad.mit.edu	37	chr11	118454616	118454616	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagacagggcaaaaaagcAccaggatttggcggatttgg	14	6	15	6	1	0	1	0	0	0	1	0	5	0	3	1	5	1	2	1	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:118454616A>G	uc001ptq.2	+	4	701	c.540A>G	c.(538-540)GCA>GCG	p.A180A	ARCN1_uc009zah.2_Intron|ARCN1_uc010ryg.1_Silent_p.A92A|ARCN1_uc009zag.2_Silent_p.A221A	NM_001655	NP_001646	P48444	COPD_HUMAN	archain isoform 1	180					COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	clathrin adaptor complex|COPI vesicle coat|cytosol					0	all_hematologic(175;0.0349)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		GCAAAAAAGCACCAGGATTTG	0.483													16	74					0	0	1	0	0		G	118454616	G	G	118454616	2	3	151	1	0	0	0	0	0	0	0	1	842	146	6	3		3	ARCN1	11	118454616	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	80034	118454616	16551900	2769	79934											
PHLDB1	23187	broad.mit.edu	37	chr11	118514810	118514810	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgctctactcacccagaaTggcacgggcagccttcctcg	8	7	10	16	3	2	1	1	0	1	1	4	1	3	1	3	2	3	3	3	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:118514810T>C	uc001ptr.1	+	16	3392	c.3039T>C	c.(3037-3039)AAT>AAC	p.N1013N	PHLDB1_uc001pts.2_Silent_p.N1013N|PHLDB1_uc001ptt.2_Silent_p.N966N|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Silent_p.N813N|PHLDB1_uc001ptw.1_Silent_p.N368N|PHLDB1_uc009zai.1_Silent_p.N49N|PHLDB1_uc001ptx.1_Silent_p.N49N|PHLDB1_uc010ryi.1_Silent_p.N156N|PHLDB1_uc010ryj.1_Silent_p.N151N	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	1013											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		TCACCCAGAATGGCACGGGCA	0.622													5	35					0	0	1	0	0		C	118514810	C	C	118514810	2	2	151	1	0	0	0	0	0	0	0	1	11870	1461	51	3		3	PHLDB1	11	118514810	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	60194	118514810	16491706	2770	79935											
TREH	11181	broad.mit.edu	37	chr11	118529408	118529408	+	Frame_Shift_Del	DEL	C	-	-																															cctgaacttcatattctcctCccccaccgggctgtccaccg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:118529408delC	uc001pty.1	-	14	1625	c.1580delG	c.(1579-1581)GGAfs	p.G527fs	TREH_uc009zaj.1_Frame_Shift_Del_p.G496fs|TREH_uc001ptz.1_Frame_Shift_Del_p.G404fs	NM_007180	NP_009111	O43280	TREA_HUMAN	trehalase precursor	527					polysaccharide digestion|trehalose catabolic process	anchored to plasma membrane	alpha,alpha-trehalase activity			pancreas(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.16e-05)		ATATTCTCCTCCCCCACCGGG	0.612													7	10	---	---	---	---						.	-	118529408	-	-	118529408	7	5	151	1	0	1	0	1	0	0	0	0	16495	855	30	0	178	0	TREH	11	118529408	Frame_Shift_Del	DEL	C	TCGA-CG-5721-01A-11D-1600-08	14598	118529408	16477108	2771	79936											
BCL9L	283149	broad.mit.edu	37	chr11	118772844	118772844	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcccatgcagcccaatctgTtcctctttccgccgtttctc	4	14	5	18	2	3	0	0	0	3	0	7	0	6	0	5	0	2	3	5	0	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:118772844T>C	uc001pug.2	-	6	2573	c.1608A>G	c.(1606-1608)GAA>GAG	p.E536E	BCL9L_uc009zal.2_Silent_p.E531E	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	536					negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		GCCCAATCTGTTCCTCTTTCC	0.627													17	77					0	0	1	0	0		C	118772844	C	C	118772844	2	2	151	1	0	0	0	0	0	0	0	1	1383	1722	60	3		3	BCL9L	11	118772844	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	243436	118772844	16233672	2772	79937											
SLC37A4	2542	broad.mit.edu	37	chr11	118895642	118895642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actcagccttcttggacactCggcccatcttggtgcggatg	6	11	11	13	2	3	0	1	0	2	0	4	2	3	2	2	4	2	0	2	4	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:118895642C>T	uc010rys.1	-	11	2025	c.1268G>A	c.(1267-1269)CGA>CAA	p.R423Q	SLC37A4_uc009zam.2_RNA|SLC37A4_uc009zan.2_RNA|SLC37A4_uc010ryr.1_Missense_Mutation_p.R445Q|SLC37A4_uc010ryt.1_Missense_Mutation_p.R350Q|SLC37A4_uc001pus.2_Missense_Mutation_p.R423Q	NM_001164277	NP_001157749	O43826	G6PT1_HUMAN	solute carrier family 37 (glucose-6-phosphate	423					glucose homeostasis|glucose metabolic process	endoplasmic reticulum membrane|integral to endoplasmic reticulum membrane|integral to membrane	glucose-6-phosphate transmembrane transporter activity|glucose-6-phosphate transmembrane transporter activity			large_intestine(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.58e-05)		CTTGGACACTCGGCCCATCTT	0.607									Glycogen_Storage_Disease_type_Ib				7	22					0	0	1	0	0		T	118895642	T	T	118895642	3	4	151	1	0	0	0	0	1	0	0	0	14625	884	31	1	25	1	SLC37A4	11	118895642	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	122798	118895642	16110874	2773	79938											
NLRX1	79671	broad.mit.edu	37	chr11	119044607	119044607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctccctgtgccaacttgtgGcccagcgctacacgcccctg	5	8	9	19	2	0	0	0	0	0	0	1	0	1	0	6	1	4	1	6	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:119044607G>A	uc001pvu.2	+	5	864	c.649G>A	c.(649-651)GCC>ACC	p.A217T	NLRX1_uc010rzc.1_Missense_Mutation_p.A39T|NLRX1_uc001pvv.2_Missense_Mutation_p.A217T|NLRX1_uc001pvw.2_Missense_Mutation_p.A217T|NLRX1_uc001pvx.2_Missense_Mutation_p.A217T	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	217	Required for interaction with MAVS.|NACHT.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		CCAACTTGTGGCCCAGCGCTA	0.632													14	38					0	0	1	0	0		A	119044607	A	A	119044607	3	1	151	1	0	0	0	0	1	0	0	0	10504	1203	42	2	663	2	NLRX1	11	119044607	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	148965	119044607	15961909	2774	79939											
NLRX1	79671	broad.mit.edu	37	chr11	119045201	119045201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggccctctgccattggcCgtatccccagcaagtacgtg	6	9	10	16	3	1	0	0	0	1	0	3	0	2	0	5	2	3	3	5	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:119045201C>T	uc001pvu.2	+	6	1104	c.889C>T	c.(889-891)CGT>TGT	p.R297C	NLRX1_uc010rzc.1_Missense_Mutation_p.R119C|NLRX1_uc001pvv.2_Missense_Mutation_p.R297C|NLRX1_uc001pvw.2_Missense_Mutation_p.R297C|NLRX1_uc001pvx.2_Missense_Mutation_p.R297C	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	297	Required for interaction with MAVS.|NACHT.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		TGCCATTGGCCGTATCCCCAG	0.542													52	192					0	0	1	0	0		T	119045201	T	T	119045201	3	4	151	1	0	0	0	0	1	0	0	0	10504	652	23	1	907	1	NLRX1	11	119045201	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	594	119045201	15961315	2775	79940											
PVRL1	5818	broad.mit.edu	37	chr11	119547833	119547833	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggtccagtggtactcagtgGctggggggttagcatcagct	6	11	16	8	0	2	0	2	0	0	0	3	0	3	0	1	6	3	5	1	6	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:119547833G>A	uc001pwv.2	-	4	1002	c.830C>T	c.(829-831)GCC>GTC	p.A277V	PVRL1_uc001pwu.1_Missense_Mutation_p.A277V|PVRL1_uc001pww.2_Missense_Mutation_p.A277V	NM_002855	NP_002846	Q15223	PVRL1_HUMAN	poliovirus receptor-related 1 isoform 1	277	Extracellular (Potential).|Ig-like C2-type 2.				adherens junction organization|cell junction assembly|entry of virus into host cell|heterophilic cell-cell adhesion|homophilic cell adhesion|immune response	cell-cell adherens junction|extracellular region|integral to membrane	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0		Breast(348;0.037)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.29e-05)		GTACTCAGTGGCTGGGGGGTT	0.567													20	31					0	0	1	0	0		A	119547833	A	A	119547833	3	1	151	1	0	0	0	0	1	0	0	0	12864	1203	42	2	1181	2	PVRL1	11	119547833	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	502632	119547833	15458683	2776	79941											
POU2F3	25833	broad.mit.edu	37	chr11	120175765	120175765	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaccctgggctgccaggAtcctctttagaaccccacct	7	8	10	16	0	1	1	0	0	1	1	2	2	2	2	6	3	2	2	6	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:120175765A>T	uc001pxc.2	+	7	573	c.471A>T	c.(469-471)GGA>GGT	p.G157G	POU2F3_uc010rzk.1_Silent_p.G111G|POU2F3_uc010rzl.1_Silent_p.G87G|POU2F3_uc001pxe.1_5'Flank	NM_014352	NP_055167	Q9UKI9	PO2F3_HUMAN	POU transcription factor	157					negative regulation by host of viral transcription	cytoplasm	sequence-specific DNA binding			ovary(1)|skin(1)	2		Breast(109;0.0011)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;6.85e-06)		GGCTGCCAGGATCCTCTTTAG	0.507													26	111					0	0	1	0	0		T	120175765	T	T	120175765	2	4	151	1	0	0	0	0	0	0	0	1	12292	320	12	5		5	POU2F3	11	120175765	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	627932	120175765	14830751	2777	79942											
TECTA	7007	broad.mit.edu	37	chr11	120996338	120996338	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgacaactgcacccagtgcGacgctgccactgaagccctc	9	6	9	17	3	0	1	0	1	0	0	2	3	0	1	3	0	5	2	3	0	2	0	rs150927084		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:120996338G>A	uc010rzo.1	+	7	1531	c.1531G>A	c.(1531-1533)GAC>AAC	p.D511N		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	511	VWFD 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CACCCAGTGCGACGCTGCCAC	0.622													19	96					0	0	1	0	0		A	120996338	A	A	120996338	3	1	151	1	0	0	0	0	1	0	0	0	15772	1058	37	1	1557	1	TECTA	11	120996338	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	820573	120996338	14010178	2778	79943											
CRTAM	56253	broad.mit.edu	37	chr11	122722513	122722513	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaagtgcttacattacagCgactctgtaagcacaaagga	15	9	8	9	1	1	0	0	0	1	0	1	2	1	1	0	1	6	3	0	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:122722513C>T	uc001pyj.2	+	3	306	c.306C>T	c.(304-306)AGC>AGT	p.S102S		NM_019604	NP_062550	O95727	CRTAM_HUMAN	class-I MHC-restricted T cell associated	102	Ig-like V-type.|Extracellular (Potential).				cell recognition|detection of tumor cell|positive regulation of cytokine secretion|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	integral to membrane|plasma membrane	receptor binding			ovary(1)	1		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.28e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		TACATTACAGCGACTCTGTAA	0.478													24	96					0	0	1	0	0		T	122722513	T	T	122722513	2	4	151	1	0	0	0	0	0	0	0	1	3900	767	27	1		1	CRTAM	11	122722513	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1726175	122722513	12284003	2779	79944											
SCN3B	55800	broad.mit.edu	37	chr11	123508962	123508962	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatatcatctcgatgagcagCcacaaggtgaggaagaccag	14	7	11	9	1	2	3	1	2	1	1	3	5	2	4	2	2	2	1	2	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:123508962C>A	uc001pza.1	-	5	923	c.516G>T	c.(514-516)TGG>TGT	p.W172C	SCN3B_uc001pzb.1_Missense_Mutation_p.W172C	NM_001040151	NP_001035241	Q9NY72	SCN3B_HUMAN	voltage-gated sodium channel beta-3 subunit	172	Helical; (Potential).				axon guidance	integral to membrane|plasma membrane	voltage-gated sodium channel activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0227)		CGATGAGCAGCCACAAGGTGA	0.433													15	56					1.49906e-05	1.51891e-05	1	1	0		A	123508962	A	A	123508962	3	1	151	1	0	0	0	0	1	0	0	0	13944	740	26	5	139	5	SCN3B	11	123508962	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	786449	123508962	11497554	2780	79945											
ZNF202	7753	broad.mit.edu	37	chr11	123597538	123597538	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcacttgagaaatattagTaccaaatcttctttcattaa	15	16	3	7	0	4	1	2	1	2	1	4	2	4	1	1	0	1	1	1	0	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:123597538T>C	uc001pzd.1	-	9	1514	c.1114A>G	c.(1114-1116)ACT>GCT	p.T372A	ZNF202_uc001pzc.1_Missense_Mutation_p.T148A|ZNF202_uc001pze.1_Missense_Mutation_p.T372A|ZNF202_uc001pzf.1_Missense_Mutation_p.T372A	NM_003455	NP_003446	O95125	ZN202_HUMAN	zinc finger protein 202	372					lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.03)		GAAATATTAGTACCAAATCTT	0.438													7	348					0	0	1	0	0		C	123597538	C	C	123597538	3	2	151	1	0	0	0	0	1	0	0	0	17788	1638	57	3	836	3	ZNF202	11	123597538	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	88576	123597538	11408978	2781	79946											
OR8B2	26595	broad.mit.edu	37	chr11	124252768	124252768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcatgcacccggtgtgggCcgtggctccagccaatccca	8	6	12	15	2	0	0	0	0	0	0	2	0	2	0	5	3	3	3	5	3	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:124252768C>T	uc010sai.1	-	1	472	c.472G>A	c.(472-474)GCC>ACC	p.A158T		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		CCGGTGTGGGCCGTGGCTCCA	0.502													13	22					0	0	1	0	0		T	124252768	T	T	124252768	3	4	151	1	0	0	0	0	1	0	0	0	11246	739	26	2	472	2	OR8B2	11	124252768	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	655230	124252768	10753748	2782	79947											
TBRG1	84897	broad.mit.edu	37	chr11	124496881	124496881	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactcgaatatatgccagcAtgaagtgcccagaccagaag	14	7	10	10	1	0	3	0	1	0	2	1	4	0	3	3	0	4	2	3	0	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:124496881A>C	uc001qak.3	+	5	911	c.673A>C	c.(673-675)ATG>CTG	p.M225L	TBRG1_uc001qaj.3_Missense_Mutation_p.M74L|TBRG1_uc001qal.3_Missense_Mutation_p.M1L|TBRG1_uc001qam.3_RNA|TBRG1_uc009zbf.2_RNA|TBRG1_uc009zbg.2_Missense_Mutation_p.M74L|TBRG1_uc009zbh.2_Missense_Mutation_p.M1L	NM_032811	NP_116200	Q3YBR2	TBRG1_HUMAN	transforming growth factor beta regulator 1	225	FYR N-terminal.				cell cycle arrest|DNA replication|negative regulation of cell proliferation|nucleolus to nucleoplasm transport|protein stabilization	nucleus	DNA binding|protein binding				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0218)		ATATGCCAGCATGAAGTGCCC	0.443													3	13					0	0	1	0	0		C	124496881	C	C	124496881	3	2	151	1	0	0	0	0	1	0	0	0	15673	217	8	5	691	5	TBRG1	11	124496881	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	244113	124496881	10509635	2783	79948											
ROBO4	54538	broad.mit.edu	37	chr11	124757724	124757724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggagcagtggggaactgttgGcatgctgcagctctgcaaag	9	8	16	8	0	1	0	0	0	1	0	1	2	1	2	0	4	6	7	0	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:124757724G>A	uc001qbg.2	-	13	2101	c.1961C>T	c.(1960-1962)GCC>GTC	p.A654V	ROBO4_uc010sas.1_Missense_Mutation_p.A509V|ROBO4_uc001qbh.2_Missense_Mutation_p.A544V|ROBO4_uc001qbi.2_Missense_Mutation_p.A212V|ROBO4_uc010sat.1_Missense_Mutation_p.A212V	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	654					angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		GGAACTGTTGGCATGCTGCAG	0.552													10	43					0	0	1	0	0		A	124757724	A	A	124757724	3	1	151	1	0	0	0	0	1	0	0	0	13541	1203	42	2	1086	2	ROBO4	11	124757724	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	260843	124757724	10248792	2784	79949											
PKNOX2	63876	broad.mit.edu	37	chr11	125298986	125298986	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcaagtaaacaactggTgagtttgcatcacctgcatg	11	11	9	10	0	1	1	1	1	0	0	2	1	2	1	2	1	5	5	2	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:125298986T>C	uc001qbu.2	+	11	1327	c.1013_splice	c.e11+2	p.W338_splice	PKNOX2_uc010saz.1_Splice_Site_p.W309_splice|PKNOX2_uc010sba.1_Splice_Site_p.W309_splice|PKNOX2_uc010sbb.1_Splice_Site_p.W274_splice|PKNOX2_uc001qbv.2_Splice_Site_p.W103_splice	NM_022062	NP_071345	Q96KN3	PKNX2_HUMAN	PBX/knotted 1 homeobox 2							nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(109;0.00234)|all_lung(97;0.0191)|Lung NSC(97;0.0196)|Medulloblastoma(222;0.0447)|all_neural(223;0.116)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.117)		AAACAACTGGTGAGTTTGCAT	0.577											OREG0021475	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	59					0	0	1	0	0		C	125298986	C	C	125298986	5	2	151	1	0	0	0	0	0	0	1	0	12002	1710	59	3	1045	3	PKNOX2	11	125298986	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	541262	125298986	9707530	2785	79950											
STT3A	3703	broad.mit.edu	37	chr11	125476321	125476321	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtactgtttactgcctgggCactatactttctatgcagat	8	16	8	9	0	1	1	0	0	1	1	1	1	1	1	1	1	5	4	1	1	5	7	rs1051714		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:125476321C>T	uc001qcd.2	+	8	851	c.741C>T	c.(739-741)GGC>GGT	p.G247G	STT3A_uc009zbm.2_Silent_p.G247G|STT3A_uc001qce.2_Silent_p.G247G|STT3A_uc010sbg.1_Silent_p.G155G|STT3A_uc009zbn.2_Silent_p.G21G	NM_152713	NP_689926	P46977	STT3A_HUMAN	integral membrane protein 1	247	Helical; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity				0	all_hematologic(175;0.228)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0996)		ACTGCCTGGGCACTATACTTT	0.488													49	194					0	0	1	0	0		T	125476321	T	T	125476321	2	4	151	1	0	0	0	0	0	0	0	1	15358	697	25	2		2	STT3A	11	125476321	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	177335	125476321	9530195	2786	79951											
CDON	50937	broad.mit.edu	37	chr11	125880279	125880279	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtggtaccatgttcattTgcagcttcgcagatgtattt	7	17	10	7	1	1	1	1	0	0	1	2	1	1	1	1	1	3	6	1	1	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:125880279T>C	uc009zbw.2	-	8	1637	c.1509A>G	c.(1507-1509)GCA>GCG	p.A503A	CDON_uc001qdc.3_Silent_p.A503A|CDON_uc001qdd.3_RNA	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	503	Ig-like C2-type 5.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		CATGTTCATTTGCAGCTTCGC	0.433													10	36					0	0	1	0	0		C	125880279	C	C	125880279	2	2	151	1	0	0	0	0	0	0	0	1	3173	1799	63	3		3	CDON	11	125880279	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	403958	125880279	9126237	2787	79952											
FAM118B	79607	broad.mit.edu	37	chr11	126110831	126110831	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttactggatgctgccatTgattttgatcttttagaaga	9	16	9	7	0	1	4	0	2	1	2	1	5	1	5	2	1	3	1	2	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:126110831T>C	uc001qdf.2	+	4	414	c.231T>C	c.(229-231)ATT>ATC	p.I77I	FAM118B_uc009zca.2_Silent_p.I81I|FAM118B_uc001qdg.2_Silent_p.I77I	NM_024556	NP_078832	Q9BPY3	F118B_HUMAN	hypothetical protein LOC79607	77											0	all_hematologic(175;0.145)	Breast(109;0.00156)|Lung NSC(97;0.00948)|all_lung(97;0.0101)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0784)		ATGCTGCCATTGATTTTGATC	0.458													18	350					0	0	1	0	0		C	126110831	C	C	126110831	2	2	151	1	0	0	0	0	0	0	0	1	5423	1800	63	3		3	FAM118B	11	126110831	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	230552	126110831	8895685	2788	79953											
FOXRED1	55572	broad.mit.edu	37	chr11	126141443	126141443	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcccgagcactcggatgTggtgatcgtgggaggtgggg	5	8	19	9	3	0	1	0	1	0	0	3	4	1	3	2	6	1	1	2	6	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:126141443T>C	uc001qdi.2	+	2	244	c.197T>C	c.(196-198)GTG>GCG	p.V66A	SRPR_uc001qdh.2_5'Flank|SRPR_uc010sbm.1_5'Flank|FOXRED1_uc010sbn.1_Intron|FOXRED1_uc010sbo.1_Intron|FOXRED1_uc010sbp.1_Intron|FOXRED1_uc010sbq.1_5'UTR|FOXRED1_uc001qdj.2_5'UTR|FOXRED1_uc010sbr.1_Missense_Mutation_p.V52A|FOXRED1_uc001qdk.2_5'UTR	NM_017547	NP_060017	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing	66	Helical; (Potential).					integral to membrane|mitochondrion	oxidoreductase activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)		CACTCGGATGTGGTGATCGTG	0.552													23	100					0	0	1	0	0		C	126141443	C	C	126141443	3	2	151	1	0	0	0	0	1	0	0	0	6047	1696	59	3	203	3	FOXRED1	11	126141443	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	30612	126141443	8865073	2789	79954											
KIRREL3	84623	broad.mit.edu	37	chr11	126343330	126343330	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcacgcaggctgatcacaggGccccccaggatgacggggtc	8	4	15	14	2	1	2	1	2	0	0	2	3	1	3	3	5	0	3	3	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:126343330G>C	uc001qea.2	-	5	826	c.465C>G	c.(463-465)GGC>GGG	p.G155G	KIRREL3_uc001qeb.2_Silent_p.G155G|KIRREL3_uc001qec.1_Silent_p.G155G	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	155	Ig-like C2-type 2.|Extracellular (Potential).				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		TGATCACAGGGCCCCCCAGGA	0.667													2	3					0	0	1	0	0		C	126343330	C	C	126343330	2	2	151	1	0	0	0	0	0	0	0	1	8342	1190	42	5		5	KIRREL3	11	126343330	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	201887	126343330	8663186	2790	79955											
TP53AIP1	63970	broad.mit.edu	37	chr11	128805564	128805564	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggcctgtctctaagcacTgtggctccaggaaggaaagg	10	8	14	9	0	1	0	0	0	1	0	3	2	2	2	2	5	1	2	2	5	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:128805564T>A	uc001qey.2	-	4	507	c.297A>T	c.(295-297)ACA>ACT	p.T99T	TP53AIP1_uc001qex.2_3'UTR			Q9HCN2	TPIP1_HUMAN	RecName: Full=p53-regulated apoptosis-inducing protein 1;          Short=p53AIP1;	99					apoptosis	mitochondrion				lung(1)	1						CTCTAAGCACTGTGGCTCCAG	0.403													4	19					0	0	1	0	0		A	128805564	A	A	128805564	2	1	151	1	0	0	0	0	0	0	0	1	16408	1595	55	5		5	TP53AIP1	11	128805564	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2462234	128805564	6200952	2791	79956											
TMEM45B	120224	broad.mit.edu	37	chr11	129724713	129724713	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggcagtattcatggaaggTaattttgtggaacggatgga	11	12	15	3	1	1	0	1	0	0	0	1	4	1	4	0	6	1	3	0	6	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:129724713T>C	uc001qfe.1	+	3	446	c.385_splice	c.e3+2	p.G129_splice	TMEM45B_uc001qff.1_Splice_Site_p.G129_splice	NM_138788	NP_620143	Q96B21	TM45B_HUMAN	transmembrane protein 45B							integral to membrane					0	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.012)|Lung(977;0.179)|LUSC - Lung squamous cell carcinoma(976;0.189)		TCATGGAAGGTAATTTTGTGG	0.438													19	52					0	0	1	0	0		C	129724713	C	C	129724713	5	2	151	1	0	0	0	0	0	0	1	0	16195	1652	57	3	393	3	TMEM45B	11	129724713	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	919149	129724713	5281803	2792	79957											
ST14	6768	broad.mit.edu	37	chr11	130079714	130079714	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcaaagagaacactggggTataggggccggggccaccca	12	4	15	10	1	1	1	1	0	0	1	1	3	1	1	3	6	1	1	3	6	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:130079714T>C	uc001qfw.2	+	19	2757	c.2564T>C	c.(2563-2565)GTA>GCA	p.V855A		NM_021978	NP_068813	Q9Y5Y6	ST14_HUMAN	matriptase	855	Extracellular (Potential).				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(2)|skin(2)|central_nervous_system(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000602)|Breast(109;0.000962)|all_lung(97;0.00126)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0183)|Lung(977;0.228)	Urokinase(DB00013)	AACACTGGGGTATAGGGGCCG	0.632													11	44					0	0	1	0	0		C	130079714	C	C	130079714	3	2	151	1	0	0	0	0	1	0	0	0	15236	1638	57	3	2638	3	ST14	11	130079714	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	355001	130079714	4926802	2793	79958											
ADAMTS15	170689	broad.mit.edu	37	chr11	130331434	130331434	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgggcatggctgatgtgggTaccatgtgtgaccccaagag	8	9	15	9	0	0	3	0	2	0	1	0	3	0	3	3	3	1	3	3	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:130331434T>C	uc010scd.1	+	2	1008	c.1008T>C	c.(1006-1008)GGT>GGC	p.G336G		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	336	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		CTGATGTGGGTACCATGTGTG	0.592													20	76					0	0	1	0	0		C	130331434	C	C	130331434	2	2	151	1	0	0	0	0	0	0	0	1	260	1625	57	3		3	ADAMTS15	11	130331434	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	251720	130331434	4675082	2794	79959											
IGSF9B	22997	broad.mit.edu	37	chr11	133806051	133806051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatcctgggagatgttgaCggtgatgttctcaggagggg	8	10	17	6	1	1	3	1	2	1	1	3	5	2	4	1	5	1	3	1	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:133806051C>T	uc001qgx.3	-	6	949	c.718G>A	c.(718-720)GTC>ATC	p.V240I	IGSF9B_uc001qgy.1_Missense_Mutation_p.V82I	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	240	Extracellular (Potential).|Ig-like 3.					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		GAGATGTTGACGGTGATGTTC	0.617													7	18					0	0	1	0	0		T	133806051	T	T	133806051	3	4	151	1	0	0	0	0	1	0	0	0	7622	536	19	1	3387	1	IGSF9B	11	133806051	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3474617	133806051	1200465	2795	79960											
VPS26B	112936	broad.mit.edu	37	chr11	134114906	134114906	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcgggacatcaacaagaagTtctctgtgcgctattacctc	10	11	9	11	2	2	1	1	0	1	1	4	2	2	2	1	1	4	2	1	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:134114906T>C	uc001qhe.2	+	5	1252	c.796T>C	c.(796-798)TTC>CTC	p.F266L		NM_052875	NP_443107	Q4G0F5	VP26B_HUMAN	vacuolar protein sorting 26 homolog B	266					protein transport|vacuolar transport	cytosol|retromer complex					0	all_hematologic(175;0.127)	all_cancers(12;1.1e-21)|all_epithelial(12;3.77e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;2.43e-10)|all cancers(11;2.94e-09)|BRCA - Breast invasive adenocarcinoma(10;9.57e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00164)|Lung(977;0.216)		CAACAAGAAGTTCTCTGTGCG	0.617											OREG0021548	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	68					0	0	1	0	0		C	134114906	C	C	134114906	3	2	151	1	0	0	0	0	1	0	0	0	17224	1725	60	3	814	3	VPS26B	11	134114906	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	308855	134114906	891610	2796	79961											
B3GAT1	27087	broad.mit.edu	37	chr11	134253954	134253954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggatggtgggcagcgtgtCggaccatggcgggggccgcg	4	6	22	9	5	0	0	0	0	0	0	1	2	0	2	2	7	1	1	2	7	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr11:134253954C>T	uc001qhq.2	-	4	502	c.241G>A	c.(241-243)GAC>AAC	p.D81N	B3GAT1_uc001qhr.2_Missense_Mutation_p.D81N|B3GAT1_uc010scv.1_Missense_Mutation_p.D94N	NM_018644	NP_061114	Q9P2W7	B3GA1_HUMAN	beta-1,3-glucuronyltransferase 1	81	Lumenal (Potential).				carbohydrate metabolic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.39e-23)|all_epithelial(12;7.17e-17)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|Medulloblastoma(222;0.0125)|all_neural(223;0.0137)|Esophageal squamous(93;0.0559)		Epithelial(10;2.58e-11)|all cancers(11;5.75e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.000879)|Lung(977;0.0864)		GGCAGCGTGTCGGACCATGGC	0.701													3	7					0	0	1	0	0		T	134253954	T	T	134253954	3	4	151	1	0	0	0	0	1	0	0	0	1254	884	31	1	775	1	B3GAT1	11	134253954	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	139048	134253954	752562	2797	79962											
KDM5A	5927	broad.mit.edu	37	chr12	416989	416989	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatttaggaagaggaacacaGctgttatggaaccagtcttt	13	11	11	6	0	1	1	0	0	1	1	1	5	1	4	1	3	3	2	1	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:416989G>A	uc001qif.1	-	23	3924	c.3561C>T	c.(3559-3561)AGC>AGT	p.S1187S	KDM5A_uc001qie.1_Silent_p.S1187S	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	1187	PHD-type 2.				chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						GAGGAACACAGCTGTTATGGA	0.448			T 	NUP98	AML								36	211					0	0	1	0	0		A	416989	A	A	416989	2	1	151	1	0	0	0	0	0	0	0	1	8149	962	34	2		2	KDM5A	12	416989	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08		416989	133434906	2798	79963											
B4GALNT3	283358	broad.mit.edu	37	chr12	667191	667191	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttcctgcagctaccagtaCgtgaagctaagtggaaactt	11	10	9	11	1	0	1	0	1	0	0	1	2	1	2	3	1	6	4	3	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:667191C>T	uc001qii.1	+	17	2544	c.2544C>T	c.(2542-2544)TAC>TAT	p.Y848Y	B4GALNT3_uc001qik.1_Silent_p.Y397Y	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	848	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			GCTACCAGTACGTGAAGCTAA	0.552													12	84					0	0	1	0	0		T	667191	T	T	667191	2	4	151	1	0	0	0	0	0	0	0	1	1269	547	19	1		1	B4GALNT3	12	667191	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	250202	667191	133184704	2799	79964											
WNK1	65125	broad.mit.edu	37	chr12	1005855	1005855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgacaatgagtcagatatcGaagatgaagacttaaagtta	17	9	10	5	2	1	5	1	2	0	3	2	7	1	5	0	0	0	1	0	0	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:1005855G>A	uc001qio.3	+	24	6709	c.6202G>A	c.(6202-6204)GAA>AAA	p.E2068K	WNK1_uc001qip.3_Missense_Mutation_p.E1820K|WNK1_uc001qir.3_Missense_Mutation_p.E1241K	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	2068					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GTCAGATATCGAAGATGAAGA	0.393													14	87					0	0	1	0	0		A	1005855	A	A	1005855	3	1	151	1	0	0	0	0	1	0	0	0	17403	1059	37	1	7798	1	WNK1	12	1005855	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	338664	1005855	132846040	2800	79965											
RAD52	5893	broad.mit.edu	37	chr12	1023614	1023614	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgattaattcttgagtcActcctgcaaggaagtctttc	10	15	7	9	0	3	2	1	2	2	0	5	3	4	3	1	1	2	1	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:1023614A>G	uc001qis.1	-	10	1064	c.950T>C	c.(949-951)GTG>GCG	p.V317A	RAD52_uc001qit.1_RNA|RAD52_uc010sdt.1_Missense_Mutation_p.V240A|RAD52_uc001qiu.1_Missense_Mutation_p.V317A|RAD52_uc001qiv.1_RNA|RAD52_uc001qiw.1_RNA	NM_134424	NP_602296	P43351	RAD52_HUMAN	RAD52 homolog	317					DNA recombinase assembly|mitotic recombination|reciprocal meiotic recombination	nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1	all_cancers(10;0.0119)|all_epithelial(11;0.0171)|all_lung(10;0.0521)|Ovarian(42;0.0816)|Lung NSC(10;0.0987)		OV - Ovarian serous cystadenocarcinoma(31;0.00123)|BRCA - Breast invasive adenocarcinoma(9;0.0323)			TTCTTGAGTCACTCCTGCAAG	0.473								Homologous_recombination					16	65					0	0	1	0	0		G	1023614	G	G	1023614	3	3	151	1	0	0	0	0	1	0	0	0	13016	159	6	3	318	3	RAD52	12	1023614	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	17759	1023614	132828281	2801	79966											
RAD52	5893	broad.mit.edu	37	chr12	1034619	1034619	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atccatgtctgatatacctgGcgtggaagcttatttagtga	10	14	10	7	1	1	2	0	2	1	0	2	3	2	3	2	2	2	1	2	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:1034619G>A	uc001qis.1	-	7	654	c.540C>T	c.(538-540)CGC>CGT	p.R180R	RAD52_uc001qit.1_RNA|RAD52_uc010sdt.1_Silent_p.R103R|RAD52_uc001qiu.1_Silent_p.R180R|RAD52_uc001qiv.1_RNA|RAD52_uc001qiw.1_RNA|RAD52_uc010sdu.1_Silent_p.R180R|RAD52_uc001qix.1_3'UTR	NM_134424	NP_602296	P43351	RAD52_HUMAN	RAD52 homolog	180					DNA recombinase assembly|mitotic recombination|reciprocal meiotic recombination	nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1	all_cancers(10;0.0119)|all_epithelial(11;0.0171)|all_lung(10;0.0521)|Ovarian(42;0.0816)|Lung NSC(10;0.0987)		OV - Ovarian serous cystadenocarcinoma(31;0.00123)|BRCA - Breast invasive adenocarcinoma(9;0.0323)			GATATACCTGGCGTGGAAGCT	0.428								Homologous_recombination					33	146					0	0	1	0	0		A	1034619	A	A	1034619	2	1	151	1	0	0	0	0	0	0	0	1	13016	1190	42	2		2	RAD52	12	1034619	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	11005	1034619	132817276	2802	79967											
ADIPOR2	79602	broad.mit.edu	37	chr12	1882025	1882025	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagctctgaggaacatgaAtacagtgatgaagctcctca	14	8	10	9	0	2	5	1	4	1	1	3	6	3	6	1	1	4	2	1	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:1882025A>G	uc001qjm.2	+	3	386	c.189A>G	c.(187-189)GAA>GAG	p.E63E	ADIPOR2_uc001qjn.2_Silent_p.E63E	NM_024551	NP_078827	Q86V24	ADR2_HUMAN	adiponectin receptor 2	63	Cytoplasmic (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane	hormone binding|receptor activity				0	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000382)			AGGAACATGAATACAGTGATG	0.428													25	108					0	0	1	0	0		G	1882025	G	G	1882025	2	3	151	1	0	0	0	0	0	0	0	1	319	98	4	3		3	ADIPOR2	12	1882025	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	847406	1882025	131969870	2803	79968											
ADIPOR2	79602	broad.mit.edu	37	chr12	1889790	1889790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccactcagagggggtctctCggctcttctctaagtaagta	8	11	11	11	1	4	1	1	0	3	1	7	1	4	1	1	3	0	3	1	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:1889790C>T	uc001qjm.2	+	5	834	c.637C>T	c.(637-639)CGG>TGG	p.R213W	ADIPOR2_uc001qjn.2_Missense_Mutation_p.R213W	NM_024551	NP_078827	Q86V24	ADR2_HUMAN	adiponectin receptor 2	213	Cytoplasmic (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane	hormone binding|receptor activity				0	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000382)			GGGGGTCTCTCGGCTCTTCTC	0.433													85	288					0	0	1	0	0		T	1889790	T	T	1889790	3	4	151	1	0	0	0	0	1	0	0	0	319	875	31	1	651	1	ADIPOR2	12	1889790	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	7765	1889790	131962105	2804	79969											
CACNA2D4	93589	broad.mit.edu	37	chr12	1904931	1904931	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttactgttgggaatctgCtgcaccacaaataccctgca	11	10	9	11	0	1	0	0	0	1	0	1	1	1	1	2	2	5	5	2	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:1904931C>T	uc001qjp.2	-	36	3360	c.3129G>A	c.(3127-3129)CAG>CAA	p.Q1043Q	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc001qjo.2_Silent_p.Q186Q|CACNA2D4_uc001qjs.1_Silent_p.Q110Q|CACNA2D4_uc010sdw.1_Silent_p.Q173Q|CACNA2D4_uc009zdr.1_RNA	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	1043	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		TGGGAATCTGCTGCACCACAA	0.542													24	109					0	0	1	0	0		T	1904931	T	T	1904931	2	4	151	1	0	0	0	0	0	0	0	1	2554	796	28	2		2	CACNA2D4	12	1904931	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	15141	1904931	131946964	2805	79970											
CACNA1C	775	broad.mit.edu	37	chr12	2676928	2676928	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcatctccgtgctcagatgCgtccggctgctgaggatttt	5	12	13	11	3	2	2	1	1	1	1	4	3	3	3	2	3	3	4	2	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:2676928C>T	uc009zdu.1	+	13	2176	c.1863C>T	c.(1861-1863)TGC>TGT	p.C621C	CACNA1C_uc009zdv.1_Silent_p.C618C|CACNA1C_uc001qkb.2_Silent_p.C621C|CACNA1C_uc001qkc.2_Silent_p.C621C|CACNA1C_uc001qke.2_Silent_p.C621C|CACNA1C_uc001qkf.2_Silent_p.C621C|CACNA1C_uc001qjz.2_Silent_p.C621C|CACNA1C_uc001qkd.2_Silent_p.C621C|CACNA1C_uc001qkg.2_Silent_p.C621C|CACNA1C_uc009zdw.1_Silent_p.C621C|CACNA1C_uc001qkh.2_Silent_p.C621C|CACNA1C_uc001qkl.2_Silent_p.C621C|CACNA1C_uc001qkn.2_Silent_p.C621C|CACNA1C_uc001qko.2_Silent_p.C621C|CACNA1C_uc001qkp.2_Silent_p.C621C|CACNA1C_uc001qkr.2_Silent_p.C621C|CACNA1C_uc001qku.2_Silent_p.C621C|CACNA1C_uc001qkq.2_Silent_p.C621C|CACNA1C_uc001qks.2_Silent_p.C621C|CACNA1C_uc001qkt.2_Silent_p.C621C|CACNA1C_uc001qka.1_Silent_p.C156C|CACNA1C_uc001qki.1_Silent_p.C357C|CACNA1C_uc001qkj.1_Silent_p.C357C|CACNA1C_uc001qkk.1_Silent_p.C357C|CACNA1C_uc001qkm.1_Silent_p.C357C	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	621	II.|Helical; Name=S4 of repeat II; (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	TGCTCAGATGCGTCCGGCTGC	0.572													7	18					0	0	1	0	0		T	2676928	T	T	2676928	2	4	151	1	0	0	0	0	0	0	0	1	2543	776	27	1		1	CACNA1C	12	2676928	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	771997	2676928	131174967	2806	79971											
CACNA1C	775	broad.mit.edu	37	chr12	2716226	2716226	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagctgggagaacagcaagTttgactttgacaatgttctg	11	11	12	7	0	1	3	0	2	1	1	1	4	1	3	0	1	3	5	0	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:2716226T>C	uc009zdu.1	+	27	3659	c.3346T>C	c.(3346-3348)TTT>CTT	p.F1116L	CACNA1C_uc009zdv.1_Missense_Mutation_p.F1093L|CACNA1C_uc001qkb.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qkc.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qke.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qkf.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qjz.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qkd.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qkg.2_Missense_Mutation_p.F1096L|CACNA1C_uc009zdw.1_Missense_Mutation_p.F1096L|CACNA1C_uc001qkh.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qkl.2_Missense_Mutation_p.F1116L|CACNA1C_uc001qkn.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qko.2_Missense_Mutation_p.F1116L|CACNA1C_uc001qkp.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qkr.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qku.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qkq.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qks.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qkt.2_Missense_Mutation_p.F1096L|CACNA1C_uc001qka.1_Missense_Mutation_p.F631L|CACNA1C_uc001qki.1_Missense_Mutation_p.F832L|CACNA1C_uc001qkj.1_Missense_Mutation_p.F832L|CACNA1C_uc001qkk.1_Missense_Mutation_p.F832L|CACNA1C_uc001qkm.1_Missense_Mutation_p.F832L	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1116	Extracellular (Potential).|III.|Dihydropyridine binding (By similarity).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GAACAGCAAGTTTGACTTTGA	0.557													8	30					0	0	1	0	0		C	2716226	C	C	2716226	3	2	151	1	0	0	0	0	1	0	0	0	2543	1725	60	3	3560	3	CACNA1C	12	2716226	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	39298	2716226	131135669	2807	79972											
FKBP4	2288	broad.mit.edu	37	chr12	2909724	2909724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actacaggccttctctgctgCcattgaaagctgtaacaagg	11	10	9	11	0	1	1	0	1	1	0	2	1	1	1	2	2	5	3	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:2909724C>T	uc001qkz.2	+	8	1211	c.1013C>T	c.(1012-1014)GCC>GTC	p.A338V		NM_002014	NP_002005	Q02790	FKBP4_HUMAN	FK506 binding protein 52	338	TPR 2.|Interaction with tubulin (By similarity).				negative regulation of microtubule polymerization or depolymerization|negative regulation of neuron projection development|protein folding	axonal growth cone|cytosol|membrane|microtubule|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity|protein binding, bridging				0			OV - Ovarian serous cystadenocarcinoma(31;0.00105)		Dimethyl sulfoxide(DB01093)	TTCTCTGCTGCCATTGAAAGC	0.527													14	59					0	0	1	0	0		T	2909724	T	T	2909724	3	4	151	1	0	0	0	0	1	0	0	0	5924	739	26	2	1043	2	FKBP4	12	2909724	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	193498	2909724	130942171	2808	79973											
ITFG2	55846	broad.mit.edu	37	chr12	2926419	2926419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtggtgggagacaccagcGggaaggtgtctgtgtataaa	10	9	17	5	1	1	1	0	0	1	1	1	3	1	2	1	5	1	1	1	5	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:2926419G>A	uc001qlb.1	+	2	191	c.127G>A	c.(127-129)GGG>AGG	p.G43R	ITFG2_uc001qla.1_Missense_Mutation_p.G43R|ITFG2_uc010seb.1_Intron|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	43	FG-GAP 1; atypical.										0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			AGACACCAGCGGGAAGGTGTC	0.502													10	45					0	0	1	0	0		A	2926419	A	A	2926419	3	1	151	1	0	0	0	0	1	0	0	0	7886	1116	39	1	133	1	ITFG2	12	2926419	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	16695	2926419	130925476	2809	79974											
FOXM1	2305	broad.mit.edu	37	chr12	2983279	2983279	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagctggtttgggtttgaggCcggagtcctggaggctgagt	5	12	18	6	1	0	2	0	2	0	0	1	4	1	4	2	6	1	4	2	6	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:2983279C>T	uc001qlf.2	-	2	631	c.366G>A	c.(364-366)CGG>CGA	p.R122R	FOXM1_uc001qle.2_Silent_p.R122R|FOXM1_uc001qlg.2_Silent_p.R122R|FOXM1_uc009zea.2_Silent_p.R122R|FOXM1_uc009zeb.2_Silent_p.R122R	NM_021953	NP_068772	Q08050	FOXM1_HUMAN	forkhead box M1 isoform 2	122					cell cycle|embryo development|liver development|negative regulation of cell aging|negative regulation of stress-activated MAPK cascade|negative regulation of transcription from RNA polymerase II promoter|pattern specification process|positive regulation of cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of cell growth|regulation of cell proliferation|regulation of oxygen and reactive oxygen species metabolic process|regulation of Ras protein signal transduction|regulation of reactive oxygen species metabolic process|regulation of sequence-specific DNA binding transcription factor activity|tissue development|transcription from RNA polymerase II promoter|vasculogenesis	cytoplasm|transcription factor complex	DNA bending activity|DNA binding|DNA binding|double-stranded DNA binding|promoter binding|protein binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|transcription factor binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.000622)			GGGTTTGAGGCCGGAGTCCTG	0.547													37	160					0	0	1	0	0		T	2983279	T	T	2983279	2	4	151	1	0	0	0	0	0	0	0	1	6032	726	26	2		2	FOXM1	12	2983279	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	56860	2983279	130868616	2810	79975											
TEAD4	7004	broad.mit.edu	37	chr12	3129841	3129842	+	Missense_Mutation	DNP	CC	TT	TT																															ccgccccatcgccctctgcgCccccggcacccccatggcag																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:3129841_3129842CC>TT	uc010sej.1	+	9	899_900	c.622_623CC>TT	c.(622-624)CCC>TTC	p.P208F	TEAD4_uc010sek.1_Missense_Mutation_p.P165F|TEAD4_uc001qln.2_Missense_Mutation_p.P80F	NM_003213	NP_003204	Q15561	TEAD4_HUMAN	TEA domain family member 4 isoform 1	209					hippo signaling cascade|muscle organ development|skeletal system development		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(42;0.211)		OV - Ovarian serous cystadenocarcinoma(31;0.000563)|COAD - Colon adenocarcinoma(12;0.0831)			GCCCTCTGCGCCCCCGGCACCC	0.668													21	48					0	0	1	0	0		TT	3129842	TT	TT	3129841	3	4	151	1	0	0	0	0	1	0	0	0	15766	739	26	2	651	2	TEAD4	12	3129841	Missense_Mutation	DNP	CC	TCGA-CG-5721-01A-11D-1600-08	146562	3129841	130722054	2811	79976											
PRMT8	56341	broad.mit.edu	37	chr12	3649830	3649830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgctaagcccgtgcaatGcgtccatcatgtgtccactc	7	10	8	16	2	1	0	1	0	0	0	4	0	3	0	4	0	4	2	4	0	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:3649830G>A	uc001qmf.2	+	2	501	c.134G>A	c.(133-135)TGC>TAC	p.C45Y	PRMT8_uc009zed.2_Missense_Mutation_p.C36Y|PRMT8_uc009zee.1_RNA	NM_019854	NP_062828	Q9NR22	ANM8_HUMAN	HMT1 hnRNP methyltransferase-like 4	45					regulation of protein binding	cytoplasm|plasma membrane	histone-arginine N-methyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity			ovary(3)|central_nervous_system(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(31;0.0109)|COAD - Colon adenocarcinoma(12;0.0264)			CCCGTGCAATGCGTCCATCAT	0.607													58	221					0	0	1	0	0		A	3649830	A	A	3649830	3	1	151	1	0	0	0	0	1	0	0	0	12564	1319	46	2	140	2	PRMT8	12	3649830	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	519989	3649830	130202065	2812	79977											
AKAP3	10566	broad.mit.edu	37	chr12	4737718	4737718	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcatctactgaactcccgTtgccaagttgggccctgggg	6	11	11	13	1	2	1	1	1	1	0	3	1	3	1	3	3	3	2	3	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:4737718T>C	uc001qnb.3	-	4	579	c.350A>G	c.(349-351)AAC>AGC	p.N117S		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	117					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						TGAACTCCCGTTGCCAAGTTG	0.493													35	155					0	0	1	0	0		C	4737718	C	C	4737718	3	2	151	1	0	0	0	0	1	0	0	0	452	1725	60	3	2219	3	AKAP3	12	4737718	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1087888	4737718	129114177	2813	79978											
GALNT8	26290	broad.mit.edu	37	chr12	4870167	4870167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagattttgccctgttcccGgattgcccacctagagagac	8	10	10	13	2	0	3	0	0	0	3	1	6	1	4	4	1	2	1	4	1	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:4870167G>A	uc001qne.1	+	7	1309	c.1217G>A	c.(1216-1218)CGG>CAG	p.R406Q		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	406	Lumenal (Potential).|Catalytic subdomain B.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						CCCTGTTCCCGGATTGCCCAC	0.537													24	76					0	0	1	0	0		A	4870167	A	A	4870167	3	1	151	1	0	0	0	0	1	0	0	0	6234	1116	39	1	1243	1	GALNT8	12	4870167	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	132449	4870167	128981728	2814	79979											
KCNA1	3736	broad.mit.edu	37	chr12	5020786	5020786	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctgaggaacgagtactTcttcgaccgcaaccggccca	9	6	9	17	4	1	1	0	1	1	0	2	4	1	2	5	2	3	2	5	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:5020786T>C	uc001qnh.2	+	2	1347	c.242T>C	c.(241-243)TTC>TCC	p.F81S		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	81					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AACGAGTACTTCTTCGACCGC	0.627													16	53					0	0	1	0	0		C	5020786	C	C	5020786	3	2	151	1	0	0	0	0	1	0	0	0	8017	1783	62	3	244	3	KCNA1	12	5020786	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	150619	5020786	128831109	2815	79980											
KCNA5	3741	broad.mit.edu	37	chr12	5153912	5153912	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacgtgttcgcggacgagaTacgcttctaccagctggggg	7	8	16	10	5	1	1	0	0	1	1	2	4	1	3	1	4	3	3	1	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:5153912T>C	uc001qni.2	+	1	828	c.599T>C	c.(598-600)ATA>ACA	p.I200T		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	200						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GCGGACGAGATACGCTTCTAC	0.637													5	41					0	0	1	0	0		C	5153912	C	C	5153912	3	2	151	1	0	0	0	0	1	0	0	0	8022	1406	49	3	601	3	KCNA5	12	5153912	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	133126	5153912	128697983	2816	79981											
NTF3	4908	broad.mit.edu	37	chr12	5603650	5603650	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtgattgcaatggacacCgaactgctgcgacaacagag	12	6	12	11	3	0	2	0	1	0	1	0	5	0	3	2	2	5	2	2	2	3	1	rs35988749	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:5603650C>T	uc001qnl.3	+	1	353	c.270C>T	c.(268-270)ACC>ACT	p.T90T	NTF3_uc001qnk.3_Silent_p.T103T	NM_002527	NP_002518	P20783	NTF3_HUMAN	neurotrophin 3 isoform 2 preproprotein	90					signal transduction	extracellular region	growth factor activity|neurotrophin receptor binding			pancreas(1)	1						CAATGGACACCGAACTGCTGC	0.617													16	47					0	0	1	0	0		T	5603650	T	T	5603650	2	4	151	1	0	0	0	0	0	0	0	1	10715	639	23	1		1	NTF3	12	5603650	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	449738	5603650	128248245	2817	79982											
CD27	939	broad.mit.edu	37	chr12	6559390	6559390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatgctgagtgtgcctgtcGcaatggctggcagtgcaggg	7	9	16	9	1	0	1	0	1	0	0	1	1	0	1	1	3	3	5	1	3	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:6559390G>A	uc001qod.2	+	3	531	c.320G>A	c.(319-321)CGC>CAC	p.R107H	LOC678655_uc001qob.2_Intron|LOC678655_uc001qoc.2_Intron|LOC678655_uc009zel.1_Intron|CD27_uc001qoe.2_5'UTR|LOC678655_uc009zem.1_Intron|LOC678655_uc001qof.2_Intron|TAPBPL_uc001qog.3_5'Flank|TAPBPL_uc001qoh.3_5'Flank|TAPBPL_uc001qoi.1_5'Flank	NM_001242	NP_001233	P26842	CD27_HUMAN	tumor necrosis factor receptor superfamily,	107	Extracellular (Potential).|TNFR-Cys 3.				anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway|immunoglobulin mediated immune response|induction of apoptosis|positive regulation of B cell differentiation|positive regulation of JNK cascade|release of cytoplasmic sequestered NF-kappaB	extracellular region|integral to plasma membrane	caspase inhibitor activity|protein binding|transmembrane receptor activity				0						TGTGCCTGTCGCAATGGCTGG	0.602													16	50					0	0	1	0	0		A	6559390	A	A	6559390	3	1	151	1	0	0	0	0	1	0	0	0	2993	1087	38	1	330	1	CD27	12	6559390	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	955740	6559390	127292505	2818	79983											
CD27	939	broad.mit.edu	37	chr12	6559772	6559772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcaggcagctgcctgccCggactctctctacccactgg	6	9	9	17	1	3	0	1	0	2	0	4	1	3	1	3	3	4	2	3	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:6559772C>T	uc001qod.2	+	4	725	c.514C>T	c.(514-516)CGG>TGG	p.R172W	LOC678655_uc001qob.2_Intron|LOC678655_uc001qoc.2_RNA|LOC678655_uc009zel.1_RNA|CD27_uc001qoe.2_Missense_Mutation_p.R22W|LOC678655_uc009zem.1_RNA|LOC678655_uc001qof.2_Intron|TAPBPL_uc001qog.3_5'Flank|TAPBPL_uc001qoh.3_5'Flank|TAPBPL_uc001qoi.1_5'Flank	NM_001242	NP_001233	P26842	CD27_HUMAN	tumor necrosis factor receptor superfamily,	172	Extracellular (Potential).				anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway|immunoglobulin mediated immune response|induction of apoptosis|positive regulation of B cell differentiation|positive regulation of JNK cascade|release of cytoplasmic sequestered NF-kappaB	extracellular region|integral to plasma membrane	caspase inhibitor activity|protein binding|transmembrane receptor activity				0						GCTGCCTGCCCGGACTCTCTC	0.572													14	50					0	0	1	0	0		T	6559772	T	T	6559772	3	4	151	1	0	0	0	0	1	0	0	0	2993	643	23	1	528	1	CD27	12	6559772	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	382	6559772	127292123	2819	79984											
CHD4	1108	broad.mit.edu	37	chr12	6707246	6707246	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgatagtttcggaacatcAcctgacagtgcagctccagc	10	9	10	12	1	1	2	1	2	0	0	3	3	2	3	2	1	4	4	2	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:6707246A>G	uc001qpo.2	-	12	1870	c.1706T>C	c.(1705-1707)GTG>GCG	p.V569A	CHD4_uc001qpn.2_Missense_Mutation_p.V562A|CHD4_uc001qpp.2_Missense_Mutation_p.V566A	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	569	Chromo 1.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TCGGAACATCACCTGACAGTG	0.473													9	277					0	0	1	0	0		G	6707246	G	G	6707246	3	3	151	1	0	0	0	0	1	0	0	0	3330	159	6	3	4148	3	CHD4	12	6707246	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	147474	6707246	127144649	2820	79985											
ZNF384	171017	broad.mit.edu	37	chr12	6778267	6778267	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgtgtgcgtagacaggTgcacctctagtgaggctgca	8	10	13	10	1	2	2	1	1	1	1	2	2	2	2	1	2	3	4	1	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:6778267T>C	uc010sfh.1	-	10	1470	c.1262A>G	c.(1261-1263)CAC>CGC	p.H421R	ZNF384_uc001qpz.2_Missense_Mutation_p.H360R|ZNF384_uc001qqa.2_Missense_Mutation_p.H360R|ZNF384_uc001qqb.2_Missense_Mutation_p.H344R|ZNF384_uc001qqc.2_Missense_Mutation_p.H360R|ZNF384_uc001qqd.2_Missense_Mutation_p.H305R|ZNF384_uc001qqe.2_Missense_Mutation_p.H344R	NM_001135734	NP_001129206	Q8TF68	ZN384_HUMAN	nuclear matrix transcription factor 4 isoform d	421	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/ZNF384(4)	haematopoietic_and_lymphoid_tissue(4)|central_nervous_system(3)|kidney(1)	8						CGTAGACAGGTGCACCTCTAG	0.517			T	EWSR1|TAF15 	ALL								23	66					0	0	1	0	0		C	6778267	C	C	6778267	3	2	151	1	0	0	0	0	1	0	0	0	17900	1696	59	3	479	3	ZNF384	12	6778267	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	71021	6778267	127073628	2821	79986											
C12orf57	113246	broad.mit.edu	37	chr12	7053291	7053291	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcagacgccctatggcgTccgcctcgacccaaccggcg	6	6	11	18	6	1	1	1	0	0	1	3	2	2	1	5	2	1	1	5	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:7053291T>C	uc001qrz.2	+	1	89	c.7T>C	c.(7-9)TCC>CCC	p.S3P	C12orf57_uc009zfj.1_Intron|PTPN6_uc001qsa.1_5'Flank|PTPN6_uc010sfr.1_5'Flank	NM_138425	NP_612434	Q99622	C10_HUMAN	C10 protein	3											0						CCCTATGGCGTCCGCCTCGAC	0.587											OREG0021642	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	130					0	0	1	0	0		C	7053291	C	C	7053291	3	2	151	1	0	0	0	0	1	0	0	0	1704	1667	58	3	9	3	C12orf57	12	7053291	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	275024	7053291	126798604	2822	79987											
PTPN6	5777	broad.mit.edu	37	chr12	7064896	7064896	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccagagaacaagggcaagaAccgctacaagaacattctcc	16	4	9	12	1	1	3	0	0	1	3	2	4	1	3	3	1	4	2	3	1	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:7064896A>G	uc001qsb.2	+	7	1063	c.821A>G	c.(820-822)AAC>AGC	p.N274S	PTPN6_uc001qsa.1_Missense_Mutation_p.N276S|PTPN6_uc010sfr.1_Missense_Mutation_p.N235S|PTPN6_uc009zfl.1_Missense_Mutation_p.N274S|PTPN6_uc010sfs.1_Missense_Mutation_p.N262S	NM_002831	NP_002822	P29350	PTN6_HUMAN	protein tyrosine phosphatase, non-receptor type	274	Tyrosine-protein phosphatase.				apoptosis|cell junction assembly|G-protein coupled receptor protein signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|negative regulation of peptidyl-tyrosine phosphorylation|platelet activation|positive regulation of cell proliferation|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of G1/S transition of mitotic cell cycle|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol|membrane|nucleus	protein binding|protein tyrosine phosphatase activity			breast(1)	1						AAGGGCAAGAACCGCTACAAG	0.587													3	49					0	0	1	0	0		G	7064896	G	G	7064896	3	3	151	1	0	0	0	0	1	0	0	0	12817	43	2	3	865	3	PTPN6	12	7064896	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	11605	7064896	126786999	2823	79988											
PTPN6	5777	broad.mit.edu	37	chr12	7066906	7066906	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggggagcatgacacaacCgaatacaaactccgtacctt	13	7	9	12	3	0	1	0	1	0	0	1	3	1	2	3	2	6	2	3	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:7066906C>T	uc001qsb.2	+	10	1406	c.1164C>T	c.(1162-1164)ACC>ACT	p.T388T	PTPN6_uc001qsa.1_Silent_p.T390T|PTPN6_uc010sfr.1_Silent_p.T349T|PTPN6_uc009zfl.1_Silent_p.T388T|PTPN6_uc010sfs.1_Silent_p.T376T	NM_002831	NP_002822	P29350	PTN6_HUMAN	protein tyrosine phosphatase, non-receptor type	388	Tyrosine-protein phosphatase.				apoptosis|cell junction assembly|G-protein coupled receptor protein signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|negative regulation of peptidyl-tyrosine phosphorylation|platelet activation|positive regulation of cell proliferation|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of G1/S transition of mitotic cell cycle|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol|membrane|nucleus	protein binding|protein tyrosine phosphatase activity			breast(1)	1						ATGACACAACCGAATACAAAC	0.592													10	56					0	0	1	0	0		T	7066906	T	T	7066906	2	4	151	1	0	0	0	0	0	0	0	1	12817	639	23	1		1	PTPN6	12	7066906	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2010	7066906	126784989	2824	79989											
APOBEC1	339	broad.mit.edu	37	chr12	7805264	7805264	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgaaaatctctttctgacGtaaatttttttataaaatta	14	18	5	4	1	2	2	0	2	2	0	3	2	2	2	0	1	0	1	0	1	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:7805264G>A	uc001qtb.2	-	3	246	c.212C>T	c.(211-213)ACG>ATG	p.T71M	APOBEC1_uc001qtc.2_Missense_Mutation_p.T26M|APOBEC1_uc010sgf.1_Missense_Mutation_p.T71M	NM_001644	NP_001635	P41238	ABEC1_HUMAN	apolipoprotein B mRNA editing enzyme	71					cytidine to uridine editing|DNA demethylation|lipid metabolic process|mRNA modification|mRNA processing|negative regulation of methylation-dependent chromatin silencing	nucleoplasm	cytidine deaminase activity|RNA binding|zinc ion binding				0						TCTTTCTGACGtaaatttttt	0.468													14	37					0	0	1	0	0		A	7805264	A	A	7805264	3	1	151	1	0	0	0	0	1	0	0	0	787	1145	40	1	510	1	APOBEC1	12	7805264	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	738358	7805264	126046631	2825	79990											
FOXJ2	55810	broad.mit.edu	37	chr12	8196589	8196589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggcaagcaagagcccaCggggaggcgttgcagggagt	11	3	19	8	2	0	1	0	0	0	1	0	4	0	4	1	6	3	4	1	6	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:8196589C>T	uc001qtu.2	+	5	1605	c.520C>T	c.(520-522)CGG>TGG	p.R174W	FOXJ2_uc001qtt.1_Missense_Mutation_p.R174W	NM_018416	NP_060886	Q9P0K8	FOXJ2_HUMAN	forkhead box J2	174					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	nucleolus|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				Kidney(36;0.0944)		CAAGAGCCCACGGGGAGGCGT	0.547													22	95					0	0	1	0	0		T	8196589	T	T	8196589	3	4	151	1	0	0	0	0	1	0	0	0	6026	527	19	1	534	1	FOXJ2	12	8196589	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	391325	8196589	125655306	2826	79991											
PHC1	1911	broad.mit.edu	37	chr12	9089487	9089487	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaatctcctgaagtgcgagTactgtgggaagtacgccccc	9	8	12	12	3	1	1	0	1	1	0	2	4	1	2	3	1	3	2	3	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:9089487T>C	uc001qvd.2	+	12	2560	c.2404T>C	c.(2404-2406)TAC>CAC	p.Y802H	PHC1_uc001qve.2_Missense_Mutation_p.Y802H	NM_004426	NP_004417	P78364	PHC1_HUMAN	polyhomeotic 1-like	802	FCS-type.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						GAAGTGCGAGTACTGTGGGAA	0.527													8	22					0	0	1	0	0		C	9089487	C	C	9089487	3	2	151	1	0	0	0	0	1	0	0	0	11835	1638	57	3	2446	3	PHC1	12	9089487	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	892898	9089487	124762408	2827	79992											
KLRB1	3820	broad.mit.edu	37	chr12	9754153	9754153	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaataatcccagcacagctaAgtttcagggcaaattgatgc	14	9	9	9	0	1	1	1	1	0	0	2	2	2	1	1	1	3	4	1	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:9754153A>T	uc010sgt.1	-	2	190	c.128T>A	c.(127-129)CTT>CAT	p.L43H		NM_002258	NP_002249	Q12918	KLRB1_HUMAN	killer cell lectin-like receptor subfamily B,	43	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	sugar binding|transmembrane receptor activity				0						AGCACAGCTAAGTTTCAGGGC	0.338													4	70					0	0	1	0	0		T	9754153	T	T	9754153	3	4	151	1	0	0	0	0	1	0	0	0	8430	72	3	5	568	5	KLRB1	12	9754153	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	664666	9754153	124097742	2828	79993											
KLRC2	3822	broad.mit.edu	37	chr12	10586526	10586526	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatccactcctcaggacaaTggccacaatgacgtgctaat	13	9	7	12	1	1	1	1	1	0	0	3	2	3	2	3	2	1	1	3	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:10586526T>C	uc001qyk.2	-	4	354	c.347A>G	c.(346-348)CAT>CGT	p.H116R	KLRC3_uc001qyh.2_Intron|KLRC2_uc010she.1_Missense_Mutation_p.H116R	NM_002260	NP_002251	P26717	NKG2C_HUMAN	killer cell lectin-like receptor subfamily C,	116	Extracellular (Potential).|C-type lectin.				cellular defense response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0						CTCAGGACAATGGCCACAATG	0.333													39	219					0	0	1	0	0		C	10586526	C	C	10586526	3	2	151	1	0	0	0	0	1	0	0	0	8432	1464	51	3	360	3	KLRC2	12	10586526	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	832373	10586526	123265369	2829	79994											
CSDA	8531	broad.mit.edu	37	chr12	10854626	10854626	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaattgtagggacgccggTatccacggcgaacagacggc	10	6	15	10	5	0	1	0	0	0	1	1	3	1	2	2	5	1	3	2	5	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:10854626T>C	uc001qyt.2	-	8	1229	c.986A>G	c.(985-987)TAC>TGC	p.Y329C	CSDA_uc001qyu.2_Missense_Mutation_p.Y260C	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	329					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					GGGACGCCGGTATCCACGGCG	0.582													49	159					0	0	1	0	0		C	10854626	C	C	10854626	3	2	151	1	0	0	0	0	1	0	0	0	3930	1638	57	3	140	3	CSDA	12	10854626	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	268100	10854626	122997269	2830	79995											
PRB1	5542	broad.mit.edu	37	chr12	11506566	11506566	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggggtggtccttgtggCtttcctggaggagatcaggg	4	12	19	6	0	1	1	1	0	0	1	3	3	3	2	2	7	0	1	2	7	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:11506566C>T	uc001qzw.1	-	4	508	c.471G>A	c.(469-471)AAG>AAA	p.K157K	PRB1_uc001qzu.1_Intron|PRB1_uc001qzv.1_Intron	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	218	9.|15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].		Missing (in clone CP-4).|Missing (in clone CP-5).|Missing (in allele S).			extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GTCCTTGTGGCTTTCCTGGAG	0.597													13	89					0	0	1	0	0		T	11506566	T	T	11506566	2	4	151	1	0	0	0	0	0	0	0	1	12464	796	28	2		2	PRB1	12	11506566	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	651940	11506566	122345329	2831	79996											
GPRC5A	9052	broad.mit.edu	37	chr12	13065434	13065434	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgggcccacgcttggccgagCccttacaaagactatgaagt	10	7	11	13	3	0	2	0	1	0	1	0	3	0	2	3	2	2	1	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:13065434C>T	uc001rba.2	+	4	1685	c.1035C>T	c.(1033-1035)AGC>AGT	p.S345S	uc001rbb.3_5'Flank	NM_003979	NP_003970	Q8NFJ5	RAI3_HUMAN	G protein-coupled receptor, family C, group 5,	345	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|Golgi apparatus|integral to plasma membrane	G-protein coupled receptor activity				0		Prostate(47;0.141)		BRCA - Breast invasive adenocarcinoma(232;0.0708)	Tretinoin(DB00755)	CTTGGCCGAGCCCTTACAAAG	0.537													51	200					0	0	1	0	0		T	13065434	T	T	13065434	2	4	151	1	0	0	0	0	0	0	0	1	6740	738	26	2		2	GPRC5A	12	13065434	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1558868	13065434	120786461	2832	79997											
KIAA1467	57613	broad.mit.edu	37	chr12	13215855	13215855	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttgtggtactgccagaCttggatgaagacggtgttcg	8	11	14	8	2	0	3	0	1	0	2	1	4	0	4	2	3	2	3	2	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:13215855C>T	uc001rbi.2	+	5	821	c.798C>T	c.(796-798)GAC>GAT	p.D266D	KIAA1467_uc009zhx.1_RNA	NM_020853	NP_065904	A2RU67	K1467_HUMAN	hypothetical protein LOC57613	266						integral to membrane				central_nervous_system(2)|skin(1)	3		Prostate(47;0.184)		BRCA - Breast invasive adenocarcinoma(232;0.157)		TACTGCCAGACTTGGATGAAG	0.468													91	341					0	0	1	0	0		T	13215855	T	T	13215855	2	4	151	1	0	0	0	0	0	0	0	1	8251	564	20	4		4	KIAA1467	12	13215855	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	150421	13215855	120636040	2833	79998											
GRIN2B	2904	broad.mit.edu	37	chr12	13716145	13716145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggtgctctcgccagctgAcatctcaaacatgtgggcgt	10	9	11	11	2	2	1	1	1	2	0	4	1	2	1	1	2	3	2	1	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:13716145A>G	uc001rbt.2	-	13	4206	c.4027T>C	c.(4027-4029)TCA>CCA	p.S1343P		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1343	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TCGCCAGCTGACATCTCAAAC	0.607													17	70					0	0	1	0	0		G	13716145	G	G	13716145	3	3	151	1	0	0	0	0	1	0	0	0	6796	275	10	3	431	3	GRIN2B	12	13716145	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	500290	13716145	120135750	2834	79999											
ATF7IP	55729	broad.mit.edu	37	chr12	14613945	14613945	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacttctttacccacagTgggcccatcaggactctata	11	10	8	12	0	3	0	1	0	2	0	3	2	3	2	2	3	1	0	2	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:14613945T>C	uc001rbw.2	+	9	2833	c.2675T>C	c.(2674-2676)GTG>GCG	p.V892A	ATF7IP_uc010shs.1_3'UTR|ATF7IP_uc001rbu.2_Missense_Mutation_p.V892A|ATF7IP_uc001rbv.1_Missense_Mutation_p.V891A|ATF7IP_uc001rbx.2_Missense_Mutation_p.V891A|ATF7IP_uc010sht.1_3'UTR|ATF7IP_uc001rby.3_Missense_Mutation_p.V892A|ATF7IP_uc001rca.2_Missense_Mutation_p.V892A	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	892					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						TTACCCACAGTGGGCCCATCA	0.468													19	63					0	0	1	0	0		C	14613945	C	C	14613945	3	2	151	1	0	0	0	0	1	0	0	0	1088	1696	59	3	2705	3	ATF7IP	12	14613945	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	897800	14613945	119237950	2835	80000											
PLBD1	79887	broad.mit.edu	37	chr12	14664232	14664232	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgttcagaatattctacaTatgtaggaatttgctccaca	12	16	6	7	0	2	1	1	0	1	1	3	2	3	2	1	1	2	3	1	1	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:14664232T>C	uc001rcc.1	-	8	1309	c.1148A>G	c.(1147-1149)TAT>TGT	p.Y383C		NM_024829	NP_079105	Q6P4A8	PLBL1_HUMAN	phospholipase B domain containing 1	383					lipid catabolic process	extracellular region	hydrolase activity				0						ATATTCTACATATGTAGGAAT	0.373													4	155					0	0	1	0	0		C	14664232	C	C	14664232	3	2	151	1	0	0	0	0	1	0	0	0	12044	1406	49	3	529	3	PLBD1	12	14664232	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	50287	14664232	119187663	2836	80001											
GUCY2C	2984	broad.mit.edu	37	chr12	14827604	14827604	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagcaaatttgggggtggTaatattttctccattttcaa	11	16	9	5	0	2	1	1	1	1	0	3	1	2	1	1	3	1	2	1	3	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:14827604T>C	uc001rcd.2	-	8	1176	c.1039A>G	c.(1039-1041)ACC>GCC	p.T347A	GUCY2C_uc009zhz.2_Missense_Mutation_p.T347A	NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	347	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TTGGGGGTGGTAATATTTTCT	0.373													32	178					0	0	1	0	0		C	14827604	C	C	14827604	3	2	151	1	0	0	0	0	1	0	0	0	6912	1638	57	3	2262	3	GUCY2C	12	14827604	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	163372	14827604	119024291	2837	80002											
C12orf60	144608	broad.mit.edu	37	chr12	14976450	14976450	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgaaaaaactgcaggatgTactaaaaactgaggattcca	17	9	8	7	0	0	2	0	2	0	0	1	4	1	4	1	2	4	2	1	2	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:14976450T>C	uc001rcj.3	+	2	785	c.581T>C	c.(580-582)GTA>GCA	p.V194A		NM_175874	NP_787070	Q5U649	CL060_HUMAN	hypothetical protein LOC144608	194										ovary(1)|central_nervous_system(1)	2						CTGCAGGATGTACTAAAAACT	0.413													9	94					0	0	1	0	0		C	14976450	C	C	14976450	3	2	151	1	0	0	0	0	1	0	0	0	1706	1638	57	3	583	3	C12orf60	12	14976450	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	148846	14976450	118875445	2838	80003											
ERP27	121506	broad.mit.edu	37	chr12	15090939	15090939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaatgaattccatggcagCtgggacatctgtgagccacg	11	8	12	10	1	1	2	0	2	1	0	2	3	2	3	2	2	3	3	2	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:15090939C>T	uc001rco.2	-	2	163	c.142G>A	c.(142-144)GCT>ACT	p.A48T		NM_152321	NP_689534	Q96DN0	ERP27_HUMAN	endoplasmic reticulum protein 27 kDa precursor	48	Thioredoxin.					endoplasmic reticulum lumen				breast(1)	1						TCCATGGCAGCTGGGACATCT	0.527													28	93					0	0	1	0	0		T	15090939	T	T	15090939	3	4	151	1	0	0	0	0	1	0	0	0	5249	797	28	2	703	2	ERP27	12	15090939	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	114489	15090939	118760956	2839	80004											
RERG	85004	broad.mit.edu	37	chr12	15264338	15264338	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcgatggttgcttggtgTcggtaggttgattctaaggg	6	15	15	5	2	2	1	1	1	1	0	4	2	2	1	0	5	1	4	0	5	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:15264338T>C	uc001rcs.2	-	3	272	c.132A>G	c.(130-132)CGA>CGG	p.R44R	RERG_uc001rct.2_Silent_p.R44R|RERG_uc010shu.1_Silent_p.R25R	NM_032918	NP_116307	Q96A58	RERG_HUMAN	RAS-like, estrogen-regulated, growth inhibitor	44					negative regulation of cell growth|negative regulation of cell proliferation|response to hormone stimulus|small GTPase mediated signal transduction	cytosol|membrane|nucleus	estrogen receptor binding|GDP binding|GTP binding|GTPase activity			lung(1)	1						TTGCTTGGTGTCGGTAGGTTG	0.353													52	143					0	0	1	0	0		C	15264338	C	C	15264338	2	2	151	1	0	0	0	0	0	0	0	1	13257	1654	58	3		3	RERG	12	15264338	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	173399	15264338	118587557	2840	80005											
PTPRO	5800	broad.mit.edu	37	chr12	15734725	15734725	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcctgtagacacttccGgatcaactatgtaagtcacc	10	10	9	12	1	2	1	2	0	0	1	3	2	3	2	3	2	1	2	3	2	4	4	rs146574957		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:15734725G>A	uc001rcv.1	+	23	3419	c.3245G>A	c.(3244-3246)CGG>CAG	p.R1082Q	PTPRO_uc001rcw.1_Missense_Mutation_p.R1054Q|PTPRO_uc001rcx.1_Missense_Mutation_p.R271Q|PTPRO_uc001rcy.1_Missense_Mutation_p.R271Q|PTPRO_uc001rcz.1_Missense_Mutation_p.R243Q|PTPRO_uc001rda.1_Missense_Mutation_p.R243Q	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	1082	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)				AGACACTTCCGGATCAACTAT	0.398													21	77					0	0	1	0	0		A	15734725	A	A	15734725	3	1	151	1	0	0	0	0	1	0	0	0	12834	1116	39	1	3335	1	PTPRO	12	15734725	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	470387	15734725	118117170	2841	80006											
PIK3C2G	5288	broad.mit.edu	37	chr12	18435356	18435356	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggttttagtccttctgtgtTaccaaaacctcaaaatacga	12	14	6	9	1	2	0	1	0	1	0	3	1	3	0	3	1	3	2	3	1	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:18435356T>C	uc001rdt.2	+	2	457	c.341T>C	c.(340-342)TTA>TCA	p.L114S	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.L114S|PIK3C2G_uc010sic.1_5'UTR	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	114					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				CCTTCTGTGTTACCAAAACCT	0.413													4	135					0	0	1	0	0		C	18435356	C	C	18435356	3	2	151	1	0	0	0	0	1	0	0	0	11930	1764	61	3	343	3	PIK3C2G	12	18435356	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2700631	18435356	115416539	2842	80007											
PDE3A	5139	broad.mit.edu	37	chr12	20766423	20766423	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catcgccgtcatgggcgaggCccacggcctcattaccgacc	7	6	11	17	5	2	0	2	0	0	0	3	2	2	0	5	3	1	0	5	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:20766423C>G	uc001reh.1	+	3	1080	c.1058C>G	c.(1057-1059)GCC>GGC	p.A353G		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	353					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	ATGGGCGAGGCCCACGGCCTC	0.542													9	120					0	0	1	0	0		G	20766423	G	G	20766423	3	3	151	1	0	0	0	0	1	0	0	0	11656	739	26	5	1068	5	PDE3A	12	20766423	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2331067	20766423	113085472	2843	80008											
PDE3A	5139	broad.mit.edu	37	chr12	20792787	20792787	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcttttacaggtatcttAcagactttttgaagacatgg	10	17	7	7	0	3	3	0	1	3	2	3	3	3	3	0	2	2	1	0	2	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:20792787A>G	uc001reh.1	+	10	2169	c.2147A>G	c.(2146-2148)TAC>TGC	p.Y716C		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	716					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	CAGGTATCTTACAGACTTTTT	0.343													34	121					0	0	1	0	0		G	20792787	G	G	20792787	3	3	151	1	0	0	0	0	1	0	0	0	11656	391	14	3	2185	3	PDE3A	12	20792787	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	26364	20792787	113059108	2844	80009											
PDE3A	5139	broad.mit.edu	37	chr12	20799759	20799759	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataatgtgacagatgataaaTacggatgtctgtctgggaat	14	12	11	4	1	2	3	0	2	2	1	2	5	2	5	0	2	1	0	0	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:20799759T>A	uc001reh.1	+	12	2462	c.2440T>A	c.(2440-2442)TAC>AAC	p.Y814N		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	814	Catalytic (By similarity).				lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	AGATGATAAATACGGATGTCT	0.418													61	227					0	0	1	0	0		A	20799759	A	A	20799759	3	1	151	1	0	0	0	0	1	0	0	0	11656	1406	49	5	2486	5	PDE3A	12	20799759	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6972	20799759	113052136	2845	80010											
LST-3TM12	338821	broad.mit.edu	37	chr12	21174422	21174422	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattctaaagaaaccaatatTgatccatcagaaaattcaac	19	11	3	8	0	3	3	2	1	1	2	4	3	4	3	2	0	2	0	2	0	9	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:21174422T>C	uc010sin.1	+	3	246	c.246T>C	c.(244-246)ATT>ATC	p.I82I	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Silent_p.I129I	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	82						membrane	transporter activity				0						AAACCAATATTGATCCATCAG	0.308													4	15					0	0	1	0	0		C	21174422	C	C	21174422	2	2	151	1	0	0	0	0	0	0	0	1	9084	1800	63	3		3	LST-3TM12	12	21174422	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	374663	21174422	112677473	2846	80011											
SLCO1B3	28234	broad.mit.edu	37	chr12	21229407	21229407	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtattctagttccaatatAttttggggctctgattgata	10	17	9	5	0	2	2	0	2	2	0	3	2	3	2	1	3	0	3	1	3	6	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:21229407A>G	uc010sil.1	+	15	2017	c.1952A>G	c.(1951-1953)TAT>TGT	p.Y651C	LST-3TM12_uc010sim.1_Missense_Mutation_p.Y590C|LST-3TM12_uc010sin.1_Missense_Mutation_p.Y543C			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					GTTCCAATATATTTTGGGGCT	0.378													45	199					0	0	1	0	0		G	21229407	G	G	21229407	3	3	151	1	0	0	0	0	1	0	0	0	14749	449	16	3		3	SLCO1B3	12	21229407	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	54985	21229407	112622488	2847	80012											
SLCO1B1	10599	broad.mit.edu	37	chr12	21375266	21375266	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaattgaaatcacttgcacTgggtttccactcaatggtta	11	14	8	8	0	2	2	2	2	0	0	3	2	3	2	1	2	1	3	1	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:21375266T>C	uc001req.3	+	13	1819	c.1715T>C	c.(1714-1716)CTG>CCG	p.L572P		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	572	Helical; Name=11; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	TCACTTGCACTGGGTTTCCAC	0.234													22	78					0	0	1	0	0		C	21375266	C	C	21375266	3	2	151	1	0	0	0	0	1	0	0	0	14748	1580	55	3	1761	3	SLCO1B1	12	21375266	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	145859	21375266	112476629	2848	80013											
RECQL	5965	broad.mit.edu	37	chr12	21623156	21623156	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcgatttttcttttcttaGctcctgtattcttagaacca	8	19	4	10	1	3	1	0	0	3	1	5	2	4	1	2	0	2	2	2	0	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:21623156G>T	uc001rex.2	-	16	2270	c.1922C>A	c.(1921-1923)GCT>GAT	p.A641D	RECQL_uc001rey.2_Missense_Mutation_p.A641D|PYROXD1_uc001rew.2_3'UTR|PYROXD1_uc009ziq.2_3'UTR|PYROXD1_uc009zir.2_3'UTR	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	641					DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						TCTTTTCTTAGCTCCTGTATT	0.333								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					21	128					3.62473e-10	3.73191e-10	1	1	0		T	21623156	T	T	21623156	3	4	151	1	0	0	0	0	1	0	0	0	13226	971	34	5	31	5	RECQL	12	21623156	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	247890	21623156	112228739	2849	80014											
LDHB	3945	broad.mit.edu	37	chr12	21788591	21788591	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctggttaatccccgggcaTtgaggatacatggaaggctc	9	9	13	10	2	0	1	0	1	0	0	2	3	1	3	2	5	1	4	2	5	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:21788591T>C	uc001rfc.2	-	7	908	c.890A>G	c.(889-891)AAT>AGT	p.N297S	LDHB_uc001rfd.2_Missense_Mutation_p.N297S|LDHB_uc001rfe.2_Missense_Mutation_p.N297S	NM_002300	NP_002291	P07195	LDHB_HUMAN	L-lactate dehydrogenase B	297					glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity			breast(2)|ovary(1)	3					NADH(DB00157)	TCCCCGGGCATTGAGGATACA	0.458													6	146					0	0	1	0	0		C	21788591	C	C	21788591	3	2	151	1	0	0	0	0	1	0	0	0	8717	1493	52	3	118	3	LDHB	12	21788591	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	165435	21788591	112063304	2850	80015											
KCNJ8	3764	broad.mit.edu	37	chr12	21919133	21919133	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtcaatcacgtggcagaTgatcaaaggggccaccagaa	13	7	11	10	1	3	3	3	1	0	2	3	3	3	3	2	3	0	1	2	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:21919133T>C	uc001rff.2	-	3	1137	c.799A>G	c.(799-801)ATC>GTC	p.I267V		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	267	Cytoplasmic (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	ACGTGGCAGATGATCAAAGGG	0.483													19	63					0	0	1	0	0		C	21919133	C	C	21919133	3	2	151	1	0	0	0	0	1	0	0	0	8072	1464	51	3	479	3	KCNJ8	12	21919133	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	130542	21919133	111932762	2851	80016											
ABCC9	10060	broad.mit.edu	37	chr12	21970154	21970154	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagttctctgactccatagTcaggaaactgttcaccttct	10	14	6	11	0	4	1	2	1	2	0	6	2	5	2	2	1	1	2	2	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:21970154T>C	uc001rfi.1	-	31	3879	c.3859A>G	c.(3859-3861)ACT>GCT	p.T1287A	ABCC9_uc001rfh.2_Missense_Mutation_p.T1287A|ABCC9_uc001rfj.1_Missense_Mutation_p.T1251A	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1287	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GACTCCATAGTCAGGAAACTG	0.388													60	272					0	0	1	0	0		C	21970154	C	C	21970154	3	2	151	1	0	0	0	0	1	0	0	0	59	1667	58	3	964	3	ABCC9	12	21970154	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	51021	21970154	111881741	2852	80017											
ABCC9	10060	broad.mit.edu	37	chr12	22061055	22061055	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caactttgtagcaataaagtActgaattggcgcaaggagca	15	9	10	7	1	0	1	0	1	0	0	0	2	0	2	0	2	4	5	0	2	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:22061055A>G	uc001rfi.1	-	9	1431	c.1411T>C	c.(1411-1413)TAC>CAC	p.Y471H	ABCC9_uc001rfh.2_Missense_Mutation_p.Y471H|ABCC9_uc001rfj.1_Missense_Mutation_p.Y471H	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	471	ABC transmembrane type-1 1.|Helical; Name=9; (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GCAATAAAGTACTGAATTGGC	0.373													16	55					0	0	1	0	0		G	22061055	G	G	22061055	3	3	151	1	0	0	0	0	1	0	0	0	59	391	14	3	3500	3	ABCC9	12	22061055	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	90901	22061055	111790840	2853	80018											
SOX5	6660	broad.mit.edu	37	chr12	23716308	23716308	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagcttcttggattgcctTggtgacagcatcatggtcat	7	13	11	10	1	3	1	2	1	1	0	3	3	3	2	2	3	3	2	2	3	0	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:23716308T>C	uc001rfw.2	-	11	1474	c.1372A>G	c.(1372-1374)AAG>GAG	p.K458E	SOX5_uc001rfx.2_Missense_Mutation_p.K445E|SOX5_uc001rfy.2_Intron|SOX5_uc001rfv.2_Missense_Mutation_p.K72E|SOX5_uc010siv.1_Missense_Mutation_p.K445E|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.K410E	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	458	Potential.				transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TGGATTGCCTTGGTGACAGCA	0.428													25	188					0	0	1	0	0		C	23716308	C	C	23716308	3	2	151	1	0	0	0	0	1	0	0	0	14979	1821	63	3	939	3	SOX5	12	23716308	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1655253	23716308	110135587	2854	80019											
SOX5	6660	broad.mit.edu	37	chr12	23893942	23893942	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgatcatacccatgagttgCctttctttctcagctaagct	8	16	6	11	0	3	2	2	2	2	0	4	2	3	2	2	0	4	3	2	0	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:23893942C>T	uc001rfw.2	-	5	702	c.600G>A	c.(598-600)AGG>AGA	p.R200R	SOX5_uc001rfx.2_Silent_p.R187R|SOX5_uc001rfy.2_Silent_p.R187R|SOX5_uc010siv.1_Silent_p.R187R|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Silent_p.R152R	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	200	Potential.				transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						CCATGAGTTGCCTTTCTTTCT	0.423													18	66					0	0	1	0	0		T	23893942	T	T	23893942	2	4	151	1	0	0	0	0	0	0	0	1	14979	738	26	2		2	SOX5	12	23893942	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	177634	23893942	109957953	2855	80020											
BCAT1	586	broad.mit.edu	37	chr12	25002718	25002718	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagagacacagatttacttAccctcccatcttgcagtccc	11	10	5	15	0	1	2	0	0	1	2	3	3	3	2	3	0	3	1	3	0	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:25002718A>G	uc001rgd.3	-	6	1116	c.674_splice	c.e6+1	p.G225_splice	BCAT1_uc001rgc.2_Splice_Site_p.G224_splice|BCAT1_uc010six.1_Splice_Site_p.G237_splice|BCAT1_uc010siy.1_Splice_Site_p.G188_splice|BCAT1_uc001rge.3_Splice_Site_p.G164_splice	NM_005504	NP_005495	P54687	BCAT1_HUMAN	branched chain aminotransferase 1, cytosolic						branched chain family amino acid biosynthetic process|branched chain family amino acid catabolic process|cell proliferation|G1/S transition of mitotic cell cycle	cytosol	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			lung(1)|breast(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Ovarian(17;0.107)|Colorectal(261;0.196)				Gabapentin(DB00996)|L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|L-Valine(DB00161)|Pyridoxal Phosphate(DB00114)	AGATTTACTTACCCTCCCATC	0.408													37	207					0	0	1	0	0		G	25002718	G	G	25002718	5	3	151	1	0	0	0	0	0	0	1	0	1355	405	14	3	508	3	BCAT1	12	25002718	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1108776	25002718	108849177	2856	80021											
ITPR2	3709	broad.mit.edu	37	chr12	26714699	26714699	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacgctttcatgtacctgtAacttttcaataatatttctg	10	18	4	9	1	4	0	3	0	1	0	4	0	4	0	1	0	2	3	1	0	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:26714699A>G	uc001rhg.2	-	35	5234	c.4817T>C	c.(4816-4818)TTA>TCA	p.L1606S		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1606	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					ATGTACCTGTAACTTTTCAAT	0.333													4	51					0	0	1	0	0		G	26714699	G	G	26714699	3	3	151	1	0	0	0	0	1	0	0	0	7937	372	13	3	3380	3	ITPR2	12	26714699	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1711981	26714699	107137196	2857	80022											
FGFR1OP2	26127	broad.mit.edu	37	chr12	27107161	27107161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagattaagagatcatgacGatgcagcagaatctctgatt	16	10	9	6	1	2	5	1	2	1	3	3	7	2	5	0	0	2	2	0	0	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:27107161G>A	uc001rhm.2	+	2	412	c.70G>A	c.(70-72)GAT>AAT	p.D24N	FGFR1OP2_uc001rhl.2_Missense_Mutation_p.D24N|FGFR1OP2_uc001rhn.2_Missense_Mutation_p.D24N	NM_015633	NP_056448	Q9NVK5	FGOP2_HUMAN	FGFR1 oncogene partner 2	24	Potential.					cytoplasm					0	Colorectal(261;0.0847)					AGATCATGACGATGCAGCAGA	0.358													22	89					0	0	1	0	0		A	27107161	A	A	27107161	3	1	151	1	0	0	0	0	1	0	0	0	5879	1058	37	1	72	1	FGFR1OP2	12	27107161	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	392462	27107161	106744734	2858	80023											
STK38L	23012	broad.mit.edu	37	chr12	27475266	27475266	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttctctttctagtgccaAataccacagaaccggactac	11	13	5	12	1	2	1	0	0	2	1	3	2	2	2	3	1	4	0	3	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:27475266A>G	uc001rhr.2	+	14	1472	c.1273A>G	c.(1273-1275)AAT>GAT	p.N425D	STK38L_uc001rhs.2_RNA|STK38L_uc010sjm.1_Missense_Mutation_p.N332D|STK38L_uc010sjn.1_Missense_Mutation_p.N163D|STK38L_uc010sjo.1_Missense_Mutation_p.N90D	NM_015000	NP_055815	Q9Y2H1	ST38L_HUMAN	serine/threonine kinase 38 like	425	AGC-kinase C-terminal.				intracellular protein kinase cascade|regulation of cellular component organization	actin cytoskeleton|cytoplasm	actin binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|kidney(1)	5	Colorectal(261;0.0847)					TCTAGTGCCAAATACCACAGA	0.363													57	226					0	0	1	0	0		G	27475266	G	G	27475266	3	3	151	1	0	0	0	0	1	0	0	0	15329	14	1	3	1323	3	STK38L	12	27475266	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	368105	27475266	106376629	2859	80024											
FAR2	55711	broad.mit.edu	37	chr12	29485561	29485561	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgacgtgcgccagttgaActggttggaatacattgaaa	11	12	11	7	2	0	3	0	3	0	0	0	4	0	4	1	2	3	2	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:29485561A>G	uc001ris.3	+	11	1433	c.1286A>G	c.(1285-1287)AAC>AGC	p.N429S	FAR2_uc001rit.2_Missense_Mutation_p.N429S|FAR2_uc009zjm.2_Missense_Mutation_p.N332S	NM_018099	NP_060569	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	429					ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0						CGCCAGTTGAACTGGTTGGAA	0.403													20	111					0	0	1	0	0		G	29485561	G	G	29485561	3	3	151	1	0	0	0	0	1	0	0	0	5689	43	2	3	1324	3	FAR2	12	29485561	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2010295	29485561	104366334	2860	80025											
ERGIC2	51290	broad.mit.edu	37	chr12	29524548	29524548	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccaaacttaaagttttttTccgattcagtcgcctcatct	10	16	4	11	2	3	0	2	0	1	0	5	1	4	0	3	0	2	1	3	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:29524548T>C	uc001riv.2	-	2	152	c.19A>G	c.(19-21)AAA>GAA	p.K7E	ERGIC2_uc001riw.2_RNA	NM_016570	NP_057654	Q96RQ1	ERGI2_HUMAN	PTX1 protein	7	Cytoplasmic (Potential).				vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane|nucleus				ovary(1)	1	Lung NSC(12;2.02e-08)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)|Lung SC(9;0.184)				Arsenic trioxide(DB01169)	AAAGTTTTTTTCCGATTCAGT	0.378													5	66					0	0	1	0	0		C	29524548	C	C	29524548	3	2	151	1	0	0	0	0	1	0	0	0	5232	1792	62	3	1166	3	ERGIC2	12	29524548	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	38987	29524548	104327347	2861	80026											
IPO8	10526	broad.mit.edu	37	chr12	30814171	30814171	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacttcttcatattcatcActttgaagaactttgccaaa	13	15	3	10	0	5	2	4	1	1	1	5	2	5	2	1	0	3	0	1	0	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:30814171A>G	uc001rjd.2	-	16	1955	c.1785T>C	c.(1783-1785)AGT>AGC	p.S595S	IPO8_uc001rje.1_Silent_p.S84S|IPO8_uc010sjt.1_Silent_p.S390S	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	595					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					CATATTCATCACTTTGAAGAA	0.333													28	99					0	0	1	0	0		G	30814171	G	G	30814171	2	3	151	1	0	0	0	0	0	0	0	1	7814	156	6	3		3	IPO8	12	30814171	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1289623	30814171	103037724	2862	80027											
IPO8	10526	broad.mit.edu	37	chr12	30815390	30815390	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaacagttcctgcataatAggcctcacatgtggcttcat	10	12	8	11	0	2	0	2	0	0	0	3	0	3	0	2	2	3	4	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:30815390A>G	uc001rjd.2	-	15	1796	c.1626T>C	c.(1624-1626)CCT>CCC	p.P542P	IPO8_uc001rje.1_Silent_p.P31P|IPO8_uc010sjt.1_Silent_p.P337P	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	542					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					CCTGCATAATAGGCCTCACAT	0.343													13	77					0	0	1	0	0		G	30815390	G	G	30815390	2	3	151	1	0	0	0	0	0	0	0	1	7814	407	15	3		3	IPO8	12	30815390	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1219	30815390	103036505	2863	80028											
CAPRIN2	65981	broad.mit.edu	37	chr12	30873765	30873765	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaggagtctctgaggtcaTaaactctgtttcagatccag	10	12	9	10	0	5	2	3	1	2	1	7	3	6	3	1	2	1	1	1	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:30873765T>A	uc001rji.1	-	12	2879	c.2128A>T	c.(2128-2130)ATG>TTG	p.M710L	CAPRIN2_uc001rjf.1_Missense_Mutation_p.M507L|CAPRIN2_uc001rjg.1_Missense_Mutation_p.M377L|CAPRIN2_uc001rjh.1_Missense_Mutation_p.M710L|CAPRIN2_uc001rjj.1_Missense_Mutation_p.M377L|CAPRIN2_uc001rjk.3_Missense_Mutation_p.M710L|CAPRIN2_uc001rjl.3_Intron|CAPRIN2_uc001rjm.1_Intron	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	710					negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					TCTGAGGTCATAAACTCTGTT	0.378													34	159					0	0	1	0	0		A	30873765	A	A	30873765	3	1	151	1	0	0	0	0	1	0	0	0	2639	1406	49	5	1283	5	CAPRIN2	12	30873765	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	58375	30873765	102978130	2864	80029											
DENND5B	160518	broad.mit.edu	37	chr12	31545266	31545266	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttgaacccatggtggaaaActtgctcaagggctgcaacc	12	9	10	10	0	1	1	1	1	0	0	1	2	1	2	2	3	5	3	2	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:31545266A>G	uc001rki.1	-	19	3587	c.3401T>C	c.(3400-3402)GTT>GCT	p.V1134A	DENND5B_uc001rkh.1_Missense_Mutation_p.V1169A|DENND5B_uc009zjq.1_Intron	NM_144973	NP_659410	Q6ZUT9	DEN5B_HUMAN	DENN/MADD domain containing 5B	1134	RUN 2.					integral to membrane				ovary(1)|central_nervous_system(1)	2						ATGGTGGAAAACTTGCTCAAG	0.453													16	73					0	0	1	0	0		G	31545266	G	G	31545266	3	3	151	1	0	0	0	0	1	0	0	0	4443	43	2	3	435	3	DENND5B	12	31545266	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	671501	31545266	102306629	2865	80030											
BICD1	636	broad.mit.edu	37	chr12	32481126	32481126	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaacaaggacctcatctgaAccagttgcaaaagaaagcac	18	5	8	10	0	2	2	1	1	1	1	2	4	2	3	2	1	4	3	2	1	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:32481126A>G	uc001rku.2	+	5	1818	c.1737A>G	c.(1735-1737)GAA>GAG	p.E579E	BICD1_uc001rkv.2_Silent_p.E579E|BICD1_uc010skd.1_RNA	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	579					anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			CCTCATCTGAACCAGTTGCAA	0.532													5	120					0	0	1	0	0		G	32481126	G	G	32481126	2	3	151	1	0	0	0	0	0	0	0	1	1429	40	2	3		3	BICD1	12	32481126	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	935860	32481126	101370769	2866	80031											
FGD4	121512	broad.mit.edu	37	chr12	32754251	32754251	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagaagcaaaccgaggcTcgtttccagcagagatggtg	12	7	14	8	2	0	2	0	0	0	2	2	5	1	3	2	3	3	4	2	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:32754251T>C	uc001rkz.2	+	6	1207	c.730T>C	c.(730-732)TCG>CCG	p.S244P	FGD4_uc001rlc.2_Missense_Mutation_p.S329P|FGD4_uc001rky.2_5'UTR|FGD4_uc001rla.2_5'UTR|FGD4_uc010ske.1_Missense_Mutation_p.S356P|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	244	DH.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					aaaccgaggctcGTTTCCAGC	0.179													25	76					0	0	1	0	0		C	32754251	C	C	32754251	3	2	151	1	0	0	0	0	1	0	0	0	5849	1551	54	3	744	3	FGD4	12	32754251	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	273125	32754251	101097644	2867	80032											
KIF21A	55605	broad.mit.edu	37	chr12	39703510	39703510	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacgacattgttgggatgAccccccagtgacattatttc	10	11	9	11	1	0	2	0	2	0	0	1	5	0	3	3	1	0	1	3	1	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:39703510A>G	uc001rly.2	-	33	4301	c.4155T>C	c.(4153-4155)GGT>GGC	p.G1385G	KIF21A_uc001rlv.2_Silent_p.G330G|KIF21A_uc001rlw.2_Silent_p.G655G|KIF21A_uc001rlx.2_Silent_p.G1372G|KIF21A_uc001rlz.2_Silent_p.G1332G|KIF21A_uc010skl.1_Silent_p.G1348G|KIF21A_uc001rlt.2_Silent_p.G5G|KIF21A_uc001rlu.2_Silent_p.G5G	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	1385	WD 2.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TGTTGGGATGACCCCCCAGTG	0.358													19	89					0	0	1	0	0		G	39703510	G	G	39703510	2	3	151	1	0	0	0	0	0	0	0	1	8304	262	10	3		3	KIF21A	12	39703510	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6949259	39703510	94148385	2868	80033											
C12orf40	283461	broad.mit.edu	37	chr12	40040225	40040225	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacaatgtcgcctcactgTgtaccttctaaactctgcct	8	14	5	14	1	3	0	1	0	2	0	4	0	3	0	3	0	4	1	3	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:40040225T>C	uc001rmc.2	+	4	464	c.297T>C	c.(295-297)TGT>TGC	p.C99C	C12orf40_uc009zjv.1_RNA	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	99										ovary(6)	6						CGCCTCACTGTGTACCTTCTA	0.338													40	226					0	0	1	0	0		C	40040225	C	C	40040225	2	2	151	1	0	0	0	0	0	0	0	1	1689	1702	59	3		3	C12orf40	12	40040225	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	336715	40040225	93811670	2869	80034											
SLC2A13	114134	broad.mit.edu	37	chr12	40223949	40223949	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctttattaactggaacAcaggaggagtcaatgacagt	14	10	11	6	0	1	1	1	1	0	0	1	5	1	4	0	3	3	1	0	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:40223949A>G	uc010skm.1	-	7	1452	c.1401T>C	c.(1399-1401)TGT>TGC	p.C467C	C12orf40_uc009zjv.1_Intron|SLC2A13_uc001rme.1_Silent_p.C114C	NM_052885	NP_443117	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose	467	Extracellular (Potential).					integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)				TAACTGGAACACAGGAGGAGT	0.363										HNSCC(50;0.14)			24	72					0	0	1	0	0		G	40223949	G	G	40223949	2	3	151	1	0	0	0	0	0	0	0	1	14567	157	6	3		3	SLC2A13	12	40223949	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	183724	40223949	93627946	2870	80035											
PRICKLE1	144165	broad.mit.edu	37	chr12	42853620	42853620	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcactacttggttaagaaatAatacaatttttgcccttgtg	12	16	6	7	0	1	1	1	0	0	1	1	1	1	1	1	1	3	1	1	1	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:42853620A>G	uc010skv.1	-	8	2774	c.2487T>C	c.(2485-2487)ATT>ATC	p.I829I	PRICKLE1_uc001rnl.2_Silent_p.I829I|PRICKLE1_uc010skw.1_Silent_p.I829I|PRICKLE1_uc001rnm.2_Silent_p.I829I|PRICKLE1_uc001rnk.1_5'Flank	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	829				Missing: Abolishes localization to the nuclear membrane.	negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		GTTAAGAAATAATACAATTTT	0.393													51	281					0	0	1	0	0		G	42853620	G	G	42853620	2	3	151	1	0	0	0	0	0	0	0	1	12508	358	13	3		3	PRICKLE1	12	42853620	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2629671	42853620	90998275	2871	80036											
PRICKLE1	144165	broad.mit.edu	37	chr12	42853889	42853889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggttctgcaggccataatCggaagtggcatgggcgtact	8	10	15	8	2	1	0	0	0	1	0	2	1	1	1	1	5	2	4	1	5	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:42853889C>T	uc010skv.1	-	8	2505	c.2218G>A	c.(2218-2220)GAT>AAT	p.D740N	PRICKLE1_uc001rnl.2_Missense_Mutation_p.D740N|PRICKLE1_uc010skw.1_Missense_Mutation_p.D740N|PRICKLE1_uc001rnm.2_Missense_Mutation_p.D740N|PRICKLE1_uc001rnk.1_5'Flank	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	740					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		AGGCCATAATCGGAAGTGGCA	0.493													28	133					0	0	1	0	0		T	42853889	T	T	42853889	3	4	151	1	0	0	0	0	1	0	0	0	12508	884	31	1	281	1	PRICKLE1	12	42853889	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	269	42853889	90998006	2872	80037											
ADAMTS20	80070	broad.mit.edu	37	chr12	43792885	43792885	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atacctcattccagctattgGctttccatgaagggcatctg	9	13	8	11	0	2	1	1	1	1	0	4	1	4	1	3	2	2	3	3	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:43792885G>A	uc010skx.1	-	29	4436	c.4436C>T	c.(4435-4437)GCC>GTC	p.A1479V		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1479	TSP type-1 12.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CCAGCTATTGGCTTTCCATGA	0.299													4	3					0	0	1	0	0		A	43792885	A	A	43792885	3	1	151	1	0	0	0	0	1	0	0	0	266	1203	42	2	1339	2	ADAMTS20	12	43792885	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	938996	43792885	90059010	2873	80038											
PUS7L	83448	broad.mit.edu	37	chr12	44136258	44136258	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacatttttcaaaatccatAccatttcattcttcagcaaa	14	16	1	10	0	4	0	3	0	1	0	5	0	5	0	2	0	3	1	2	0	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:44136258A>G	uc001rnq.3	-	5	1851	c.1362_splice	c.e5+1	p.M454_splice	PUS7L_uc001rnr.3_Splice_Site_p.M454_splice|PUS7L_uc001rns.3_Splice_Site_p.M454_splice|PUS7L_uc009zkb.2_Splice_Site_p.M141_splice	NM_001098615	NP_001092085	Q9H0K6	PUS7L_HUMAN	pseudouridylate synthase 7 homolog (S.						pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)		CAAAATCCATACCATTTCATT	0.348													21	102					0	0	1	0	0		G	44136258	G	G	44136258	5	3	151	1	0	0	0	0	0	0	1	0	12859	405	14	3	761	3	PUS7L	12	44136258	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	343373	44136258	89715637	2874	80039											
TMEM117	84216	broad.mit.edu	37	chr12	44782204	44782204	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatcaagacaaaacttacActcgcatgaaaagaaaatct	21	7	5	8	1	2	4	1	1	1	3	3	4	2	4	0	0	2	1	0	0	9	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:44782204A>G	uc001rod.2	+	8	1360	c.1294A>G	c.(1294-1296)ACT>GCT	p.T432A	TMEM117_uc001roe.2_Missense_Mutation_p.T328A|TMEM117_uc009zkc.2_3'UTR	NM_032256	NP_115632	Q9H0C3	TM117_HUMAN	transmembrane protein 117	432						endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		CAAAACTTACACTCGCATGAA	0.418													20	120					0	0	1	0	0		G	44782204	G	G	44782204	3	3	151	1	0	0	0	0	1	0	0	0	16056	159	6	3	1320	3	TMEM117	12	44782204	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	645946	44782204	89069691	2875	80040											
NELL2	4753	broad.mit.edu	37	chr12	45170874	45170874	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagctccatgattttctgcAcaagtccatggaagtcattg	10	13	9	9	0	2	1	1	1	1	0	4	2	4	2	2	1	2	3	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:45170874A>G	uc001rog.2	-	7	1308	c.713T>C	c.(712-714)GTG>GCG	p.V238A	NELL2_uc001rof.3_Missense_Mutation_p.V237A|NELL2_uc001roh.2_Missense_Mutation_p.V238A|NELL2_uc009zkd.2_Missense_Mutation_p.V237A|NELL2_uc010skz.1_Missense_Mutation_p.V288A|NELL2_uc010sla.1_Missense_Mutation_p.V261A|NELL2_uc001roi.1_Missense_Mutation_p.V238A|NELL2_uc010slb.1_Missense_Mutation_p.V237A|NELL2_uc001roj.2_Missense_Mutation_p.V238A	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	238	TSP N-terminal.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		GATTTTCTGCACAAGTCCATG	0.388													28	104					0	0	1	0	0		G	45170874	G	G	45170874	3	3	151	1	0	0	0	0	1	0	0	0	10353	159	6	3	1793	3	NELL2	12	45170874	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	388670	45170874	88681021	2876	80041											
ANO6	196527	broad.mit.edu	37	chr12	45771863	45771863	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatcttcgacagttttggaAccctggtctttgcagtattt	7	16	9	9	1	2	0	0	0	2	0	3	2	2	1	1	2	2	4	1	2	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:45771863A>G	uc001roo.2	+	10	1467	c.1132A>G	c.(1132-1134)ACC>GCC	p.T378A	ANO6_uc010sld.1_Missense_Mutation_p.T378A|ANO6_uc010sle.1_Missense_Mutation_p.T378A|ANO6_uc010slf.1_Missense_Mutation_p.T399A|ANO6_uc010slg.1_Missense_Mutation_p.T360A	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	378	Helical; (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						CAGTTTTGGAACCCTGGTCTT	0.313													45	195					0	0	1	0	0		G	45771863	G	G	45771863	3	3	151	1	0	0	0	0	1	0	0	0	701	43	2	3	1190	3	ANO6	12	45771863	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	600989	45771863	88080032	2877	80042											
SFRS2IP	9169	broad.mit.edu	37	chr12	46316821	46316821	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgctgtgacttgatgaCgaagtattaccagaacttgg	10	13	11	7	1	0	4	0	3	0	1	0	5	0	4	1	1	3	3	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:46316821C>T	uc001rox.2	-	13	4310	c.4023G>A	c.(4021-4023)TCG>TCA	p.S1341S	SFRS2IP_uc001row.2_Silent_p.S1026S	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	1341					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		GACTTGATGACGAAGTATTAC	0.468													87	296					0	0	1	0	0		T	46316821	T	T	46316821	2	4	151	1	0	0	0	0	0	0	0	1	14202	523	19	1		1	SFRS2IP	12	46316821	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	544958	46316821	87535074	2878	80043											
SFRS2IP	9169	broad.mit.edu	37	chr12	46322023	46322023	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttaacttccccttcctcAccaactagcacaggaagatc	11	12	4	14	0	1	1	1	0	0	1	4	2	3	2	4	1	3	1	4	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:46322023A>G	uc001rox.2	-	11	1748	c.1461T>C	c.(1459-1461)GGT>GGC	p.G487G	SFRS2IP_uc001row.2_Silent_p.G172G|SFRS2IP_uc001roy.1_Silent_p.G561G	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	487					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		CCCCTTCCTCACCAACTAGCA	0.378													39	177					0	0	1	0	0		G	46322023	G	G	46322023	2	3	151	1	0	0	0	0	0	0	0	1	14202	146	6	3		3	SFRS2IP	12	46322023	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5202	46322023	87529872	2879	80044											
SLC38A2	54407	broad.mit.edu	37	chr12	46756417	46756417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagtgagttacagaactcCggatctgcaaaaaaaataaa	20	7	7	7	1	1	2	0	1	1	1	2	3	2	3	1	1	3	2	1	1	9	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:46756417C>T	uc001rpg.2	-	14	1624	c.1184G>A	c.(1183-1185)CGG>CAG	p.R395Q	SLC38A2_uc010sli.1_Missense_Mutation_p.R233Q|SLC38A2_uc001rph.2_Missense_Mutation_p.R295Q	NM_018976	NP_061849	Q96QD8	S38A2_HUMAN	solute carrier family 38, member 2	395	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|glutamate secretion|neurotransmitter secretion|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			urinary_tract(1)|skin(1)	2	Lung SC(27;0.192)|Renal(347;0.236)		OV - Ovarian serous cystadenocarcinoma(5;0.0048)|Epithelial(2;0.0374)	GBM - Glioblastoma multiforme(48;0.226)		TACAGAACTCCGGATCTGCaa	0.313													20	77					0	0	1	0	0		T	46756417	T	T	46756417	3	4	151	1	0	0	0	0	1	0	0	0	14629	652	23	1	348	1	SLC38A2	12	46756417	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	434394	46756417	87095478	2880	80045											
SLC38A2	54407	broad.mit.edu	37	chr12	46758170	46758170	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaataagcatatttagttAcctgtgagttgaaaataaaa	19	12	7	3	0	0	2	0	2	0	0	0	3	0	2	1	0	2	3	1	0	10	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:46758170A>T	uc001rpg.2	-	10	1313	c.873_splice	c.e10+1	p.Q291_splice	SLC38A2_uc010sli.1_Splice_Site_p.Q129_splice|SLC38A2_uc001rph.2_Splice_Site_p.Q191_splice	NM_018976	NP_061849	Q96QD8	S38A2_HUMAN	solute carrier family 38, member 2						cellular nitrogen compound metabolic process|glutamate secretion|neurotransmitter secretion|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			urinary_tract(1)|skin(1)	2	Lung SC(27;0.192)|Renal(347;0.236)		OV - Ovarian serous cystadenocarcinoma(5;0.0048)|Epithelial(2;0.0374)	GBM - Glioblastoma multiforme(48;0.226)		ATATTTAGTTACCTGTGAGTT	0.393													22	318					0	0	1	0	0		T	46758170	T	T	46758170	5	4	151	1	0	0	0	0	0	0	1	0	14629	405	14	5	673	5	SLC38A2	12	46758170	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1753	46758170	87093725	2881	80046											
SLC38A2	54407	broad.mit.edu	37	chr12	46758283	46758283	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggtggtgtttattgtttcGttaattatcaaagcagcttc	10	17	9	5	1	1	0	1	0	0	0	3	0	1	0	0	2	2	5	0	2	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:46758283G>A	uc001rpg.2	-	10	1202	c.762C>T	c.(760-762)AAC>AAT	p.N254N	SLC38A2_uc010sli.1_Silent_p.N92N|SLC38A2_uc001rph.2_Silent_p.N154N	NM_018976	NP_061849	Q96QD8	S38A2_HUMAN	solute carrier family 38, member 2	254	Extracellular (Potential).				cellular nitrogen compound metabolic process|glutamate secretion|neurotransmitter secretion|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			urinary_tract(1)|skin(1)	2	Lung SC(27;0.192)|Renal(347;0.236)		OV - Ovarian serous cystadenocarcinoma(5;0.0048)|Epithelial(2;0.0374)	GBM - Glioblastoma multiforme(48;0.226)		TTATTGTTTCGTTAATTATCA	0.368													99	341					0	0	1	0	0		A	46758283	A	A	46758283	2	1	151	1	0	0	0	0	0	0	0	1	14629	1136	40	1		1	SLC38A2	12	46758283	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	113	46758283	87093612	2882	80047											
FAM113B	91523	broad.mit.edu	37	chr12	47629856	47629856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccccggttcccacagggtcCcccagatgcctgtttttcct	4	11	9	17	1	0	1	0	0	0	1	3	1	3	1	7	2	1	2	7	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:47629856C>T	uc001rpn.2	+	4	1741	c.1010C>T	c.(1009-1011)CCC>CTC	p.P337L	FAM113B_uc001rpq.2_Missense_Mutation_p.P337L	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	337	Pro-rich.						hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					CCACAGGGTCCCCCAGATGCC	0.363													37	150					0	0	1	0	0		T	47629856	T	T	47629856	3	4	151	1	0	0	0	0	1	0	0	0	5413	623	22	4	1012	4	FAM113B	12	47629856	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	871573	47629856	86222039	2883	80048											
ADCY6	112	broad.mit.edu	37	chr12	49170029	49170029	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggatgaggaaagtctcaAtgtgctgctccttgaggtac	10	10	12	9	0	1	2	1	2	1	0	3	4	2	4	2	3	3	3	2	3	3	2	rs143114060	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:49170029A>G	uc001rsh.3	-	7	2300	c.1640T>C	c.(1639-1641)ATT>ACT	p.I547T	ADCY6_uc001rsj.3_Missense_Mutation_p.I547T|ADCY6_uc001rsi.3_Missense_Mutation_p.I547T|ADCY6_uc010slw.1_5'Flank	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	547	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						GAAAGTCTCAATGTGCTGCTC	0.632													10	53					0	0	1	0	0		G	49170029	G	G	49170029	3	3	151	1	0	0	0	0	1	0	0	0	298	101	4	3	1926	3	ADCY6	12	49170029	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1540173	49170029	84681866	2884	80049											
PRKAG1	5571	broad.mit.edu	37	chr12	49399287	49399287	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcccataaaggggcagctcGtacaccgttagtcaccaaag	13	7	9	12	2	1	0	1	0	0	0	3	0	2	0	3	2	2	4	3	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:49399287G>A	uc001rsy.2	-	4	277	c.208C>T	c.(208-210)CGA>TGA	p.R70*	uc001rsw.2_Intron|PRKAG1_uc010smd.1_Nonsense_Mutation_p.R38*|PRKAG1_uc001rsx.2_Translation_Start_Site|PRKAG1_uc001rsz.2_Nonsense_Mutation_p.R70*|PRKAG1_uc009zlb.2_Translation_Start_Site|PRKAG1_uc010sme.1_Nonsense_Mutation_p.R70*	NM_002733	NP_002724	P54619	AAKG1_HUMAN	AMP-activated protein kinase, noncatalytic	70	CBS 1.				cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|positive regulation of protein kinase activity|regulation of fatty acid oxidation|regulation of glycolysis|spermatogenesis	cytosol	cAMP-dependent protein kinase activity|cAMP-dependent protein kinase regulator activity|protein kinase binding			kidney(1)	1						GGGGCAGCTCGTACACCGTTA	0.423													30	94					0	0	1	0	0		A	49399287	A	A	49399287	4	1	151	1	0	0	0	0	0	1	0	0	12522	1153	40	1	823	1	PRKAG1	12	49399287	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	229258	49399287	84452608	2885	80050											
MLL2	8085	broad.mit.edu	37	chr12	49434235	49434235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggactggaagcgaggggtaaCgggtgatgggcaaaaagctt	12	6	18	5	2	0	1	0	1	0	0	0	4	0	3	0	6	3	3	0	6	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:49434235C>T	uc001rta.3	-	31	7318	c.7318G>A	c.(7318-7320)GTT>ATT	p.V2440I		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2440	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CGAGGGGTAACGGGTGATGGG	0.622			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			9	60					0	0	1	0	0		T	49434235	T	T	49434235	3	4	151	1	0	0	0	0	1	0	0	0	9639	536	19	1	9391	1	MLL2	12	49434235	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	34948	49434235	84417660	2886	80051											
MLL2	8085	broad.mit.edu	37	chr12	49434492	49434492	+	Frame_Shift_Del	DEL	G	-	-																															aaggtgccaaagcctgggcaGggggtggctcctggggcctt																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:49434492delG	uc001rta.3	-	31	7061	c.7061delC	c.(7060-7062)CCTfs	p.P2354fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2354	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGCCTGGGCAGGGGGTGGCTC	0.622			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			17	36	---	---	---	---						.	-	49434492	-	-	49434492	7	5	151	1	0	1	0	1	0	0	0	0	9639	1000	35	0	9648	0	MLL2	12	49434492	Frame_Shift_Del	DEL	G	TCGA-CG-5721-01A-11D-1600-08	257	49434492	84417403	2887	80052											
MLL2	8085	broad.mit.edu	37	chr12	49434729	49434729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggactccccaaaaggtgggGgcgagagcaggggctcggaa	10	3	19	9	2	0	1	0	0	0	1	2	4	1	3	2	7	1	2	2	7	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:49434729G>A	uc001rta.3	-	31	6824	c.6824C>T	c.(6823-6825)CCC>CTC	p.P2275L		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2275	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AAAAGGTGGGGGCGAGAGCAG	0.622			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			13	47					0	0	1	0	0		A	49434729	A	A	49434729	3	1	151	1	0	0	0	0	1	0	0	0	9639	1232	43	4	9885	4	MLL2	12	49434729	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	237	49434729	84417166	2888	80053											
LMBR1L	55716	broad.mit.edu	37	chr12	49499707	49499707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgaggcagggacacttacGcaatcttgttgacggtggca	9	9	14	9	2	1	2	0	2	1	0	1	3	1	3	0	4	1	5	0	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:49499707G>A	uc001rth.3	-	3	533	c.191C>T	c.(190-192)GCG>GTG	p.A64V	LMBR1L_uc001rtg.3_Missense_Mutation_p.A59V|LMBR1L_uc001rti.3_Missense_Mutation_p.A64V|LMBR1L_uc001rtj.1_5'Flank|LMBR1L_uc009zld.1_5'UTR|LMBR1L_uc010smf.1_Intron	NM_018113	NP_060583	Q6UX01	LMBRL_HUMAN	lipocalin-interacting membrane receptor	64	LCN1-binding.|Cytoplasmic (Potential).				endocytosis	integral to membrane|plasma membrane	receptor activity			pancreas(1)	1						GGACACTTACGCAATCTTGTT	0.557													10	41					0	0	1	0	0		A	49499707	A	A	49499707	3	1	151	1	0	0	0	0	1	0	0	0	8858	1101	38	1	1338	1	LMBR1L	12	49499707	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	64978	49499707	84352188	2889	80054											
PRPH	5630	broad.mit.edu	37	chr12	49689976	49689976	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggttggaggaggagacGcgcaagcgggaggacgcgga	10	3	21	7	5	1	1	1	0	0	1	1	7	1	6	0	7	1	2	0	7	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:49689976G>A	uc001rtu.2	+	2	636	c.561G>A	c.(559-561)ACG>ACA	p.T187T		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	187	Coil 1B.|Rod.						structural molecule activity				0						AGGAGGAGACGCGCAAGCGGG	0.682													5	29					0	0	1	0	0		A	49689976	A	A	49689976	2	1	151	1	0	0	0	0	0	0	0	1	12598	1074	38	1		1	PRPH	12	49689976	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	190269	49689976	84161919	2890	80055											
NCKAP5L	57701	broad.mit.edu	37	chr12	50196941	50196941	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcctgggcaagtgccgagTtctctgcctgcaggagtgag	6	9	16	10	1	1	1	0	1	1	0	2	3	1	2	3	3	3	3	3	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:50196941T>G	uc009zlk.2	-	4	333	c.131A>C	c.(130-132)AAC>ACC	p.N44T		NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	40	Potential.									central_nervous_system(1)	1						AAGTGCCGAGTTCTCTGCCTG	0.572													9	52					0	0	1	0	0		G	50196941	G	G	50196941	3	3	151	1	0	0	0	0	1	0	0	0	10243	1725	60	5	3913	5	NCKAP5L	12	50196941	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	506965	50196941	83654954	2891	80056											
GPD1	2819	broad.mit.edu	37	chr12	50500173	50500173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggggccaacattgccagcGaggtggctgatgagaagttc	9	8	16	8	1	0	2	0	2	0	1	1	4	0	2	2	4	3	2	2	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:50500173G>A	uc001rvz.2	+	4	496	c.463G>A	c.(463-465)GAG>AAG	p.E155K	GPD1_uc001rwa.2_Missense_Mutation_p.E132K	NM_005276	NP_005267	P21695	GPDA_HUMAN	glycerol-3-phosphate dehydrogenase 1 (soluble)	155					glycerol-3-phosphate catabolic process|triglyceride biosynthetic process	cytosol|glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|protein homodimerization activity				0					NADH(DB00157)	CATTGCCAGCGAGGTGGCTGA	0.592													8	35					0	0	1	0	0		A	50500173	A	A	50500173	3	1	151	1	0	0	0	0	1	0	0	0	6619	1059	37	1	477	1	GPD1	12	50500173	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	303232	50500173	83351722	2892	80057											
LARP4	113251	broad.mit.edu	37	chr12	50847269	50847269	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataaaagccatcaatacattTtttgctaagaatggttatcg	15	14	6	6	1	1	1	1	0	0	1	2	1	1	1	1	1	3	2	1	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:50847269T>C	uc001rwp.1	+	9	975	c.831T>C	c.(829-831)TTT>TTC	p.F277F	LARP4_uc001rwo.1_Silent_p.F283F|LARP4_uc001rwq.1_Intron|LARP4_uc001rwr.1_Silent_p.F277F|LARP4_uc001rws.1_Silent_p.F276F|LARP4_uc009zlr.1_Silent_p.F96F|LARP4_uc001rwt.1_Intron|LARP4_uc001rwm.2_Silent_p.F277F|LARP4_uc001rwn.2_Silent_p.F207F	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a	277	RRM.						nucleotide binding|RNA binding			ovary(1)	1						TCAATACATTTTTTGCTAAGA	0.308													46	129					0	0	1	0	0		C	50847269	C	C	50847269	2	2	151	1	0	0	0	0	0	0	0	1	8646	1838	64	3		3	LARP4	12	50847269	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	347096	50847269	83004626	2893	80058											
DIP2B	57609	broad.mit.edu	37	chr12	51034587	51034587	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacttctgctccctctaagTaccaccgaactcgatctggg	10	10	7	14	2	3	0	0	0	3	0	5	2	4	0	3	1	4	2	3	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:51034587T>C	uc001rwv.2	+	3	409	c.253T>C	c.(253-255)TAC>CAC	p.Y85H	DIP2B_uc001rwu.2_Missense_Mutation_p.Y85H|DIP2B_uc009zls.1_5'UTR	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	85						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						TCCCTCTAAGTACCACCGAAC	0.453													16	52					0	0	1	0	0		C	51034587	C	C	51034587	3	2	151	1	0	0	0	0	1	0	0	0	4534	1638	57	3	263	3	DIP2B	12	51034587	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	187318	51034587	82817308	2894	80059											
LETMD1	25875	broad.mit.edu	37	chr12	51449688	51449688	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaaactgatttcttagatAtctatcatgctttccggaag	13	14	6	8	1	3	2	1	1	2	1	4	3	4	3	1	1	3	1	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:51449688A>G	uc001rxm.2	+	5	600	c.544A>G	c.(544-546)ATC>GTC	p.I182V	LETMD1_uc010smz.1_Missense_Mutation_p.I132V|LETMD1_uc010sna.1_Intron|LETMD1_uc001rxl.2_Missense_Mutation_p.I126V|LETMD1_uc009zlv.2_Intron|LETMD1_uc001rxs.2_Intron|LETMD1_uc009zlw.2_Missense_Mutation_p.I195V|LETMD1_uc001rxn.2_Missense_Mutation_p.I25V|LETMD1_uc001rxo.2_RNA|LETMD1_uc001rxp.2_Missense_Mutation_p.I65V|LETMD1_uc001rxq.2_Intron|LETMD1_uc001rxr.2_Intron|LETMD1_uc001rxt.2_Intron	NM_015416	NP_056231	Q6P1Q0	LTMD1_HUMAN	LETM1 domain containing 1 isoform 1	182	Mitochondrial intermembrane (Potential).|LETM1.					integral to membrane|mitochondrial outer membrane	protein binding			central_nervous_system(2)	2						TTTCTTAGATATCTATCATGC	0.433													43	201					0	0	1	0	0		G	51449688	G	G	51449688	3	3	151	1	0	0	0	0	1	0	0	0	8752	449	16	3	562	3	LETMD1	12	51449688	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	415101	51449688	82402207	2895	80060											
CSRNP2	81566	broad.mit.edu	37	chr12	51458364	51458364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtggaggtaatgagtcCggacccggattggattaaat	10	11	15	5	2	0	1	0	1	0	0	1	5	1	5	2	6	0	1	2	6	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:51458364C>T	uc001rxu.1	-	5	1095	c.797G>A	c.(796-798)CGG>CAG	p.R266Q		NM_030809	NP_110436	Q9H175	CSRN2_HUMAN	TGF-beta induced apoptosis protein 12	266					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GTAATGAGTCCGGACCCGGAT	0.602													27	122					0	0	1	0	0		T	51458364	T	T	51458364	3	4	151	1	0	0	0	0	1	0	0	0	3967	652	23	1	838	1	CSRNP2	12	51458364	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	8676	51458364	82393531	2896	80061											
SLC4A8	9498	broad.mit.edu	37	chr12	51882561	51882561	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtgatagctgcaattatcCcagctcttctctgtactatc	8	15	6	12	0	2	1	0	1	2	0	5	1	3	1	1	0	4	4	1	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:51882561C>A	uc001rys.1	+	18	2543	c.2365C>A	c.(2365-2367)CCA>ACA	p.P789T	SLC4A8_uc001rym.2_Missense_Mutation_p.P736T|SLC4A8_uc001ryn.2_Missense_Mutation_p.P736T|SLC4A8_uc001ryo.2_Missense_Mutation_p.P736T|SLC4A8_uc010snj.1_Missense_Mutation_p.P816T|SLC4A8_uc001ryr.2_Missense_Mutation_p.P789T	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	789	Helical; (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		TGCAATTATCCCAGCTCTTCT	0.423													45	134					1.48646e-12	1.54005e-12	1	1	0		A	51882561	A	A	51882561	3	1	151	1	0	0	0	0	1	0	0	0	14684	623	22	5	2435	5	SLC4A8	12	51882561	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	424197	51882561	81969334	2897	80062											
SCN8A	6334	broad.mit.edu	37	chr12	52156379	52156379	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggttggaacatttttgaCggatttattgtctccctcag	9	15	10	7	1	2	1	1	1	1	0	3	4	2	3	1	3	1	1	1	3	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:52156379C>T	uc001ryw.2	+	15	2641	c.2463C>T	c.(2461-2463)GAC>GAT	p.D821D	SCN8A_uc010snl.1_Silent_p.D686D|SCN8A_uc001ryy.2_Silent_p.D686D	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	821	Helical; Name=S3 of repeat II; (Potential).|II.				axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	ACATTTTTGACGGATTTATTG	0.418													68	187					0	0	1	0	0		T	52156379	T	T	52156379	2	4	151	1	0	0	0	0	0	0	0	1	13949	535	19	1		1	SCN8A	12	52156379	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	273818	52156379	81695516	2898	80063											
KRT80	144501	broad.mit.edu	37	chr12	52566892	52566892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagatccgcgatctcgctgCggctgctctggaggctgctc	4	10	14	13	4	2	1	0	1	2	1	5	4	3	2	1	3	3	5	1	3	0	0	rs141107117		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:52566892C>T	uc001rzx.2	-	6	985	c.887G>A	c.(886-888)CGC>CAC	p.R296H	KRT80_uc001rzw.2_Missense_Mutation_p.R331H|KRT80_uc001rzy.2_Missense_Mutation_p.R296H	NM_182507	NP_872313	Q6KB66	K2C80_HUMAN	keratin 80 isoform a	296	Rod.|Coil 2.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.108)		GATCTCGCTGCGGCTGCTCTG	0.652													9	36					0	0	1	0	0		T	52566892	T	T	52566892	3	4	151	1	0	0	0	0	1	0	0	0	8510	768	27	1	522	1	KRT80	12	52566892	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	410513	52566892	81285003	2899	80064											
KRT83	3889	broad.mit.edu	37	chr12	52714818	52714818	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgcactgcgcgttggggTctatctccaggttgaggggc	5	10	15	11	3	3	1	1	1	2	0	4	1	3	1	1	5	1	3	1	5	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:52714818T>C	uc001saf.2	-	1	365	c.302A>G	c.(301-303)GAC>GGC	p.D101G		NM_002282	NP_002273	P78385	KRT83_HUMAN	keratin 83	101	Head.				epidermis development	keratin filament	structural molecule activity			skin(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		CGCGTTGGGGTCTATCTCCAG	0.627													35	148					0	0	1	0	0		C	52714818	C	C	52714818	3	2	151	1	0	0	0	0	1	0	0	0	8513	1667	58	3	1215	3	KRT83	12	52714818	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	147926	52714818	81137077	2900	80065											
KRT82	3888	broad.mit.edu	37	chr12	52800051	52800051	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagcctggctggaaagagTggtacgacatggcaggagag	11	6	18	6	1	0	2	0	0	0	2	0	6	0	4	1	6	2	3	1	6	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:52800051T>A	uc001sai.1	-	1	126	c.11A>T	c.(10-12)CAC>CTC	p.H4L		NM_033033	NP_149022	Q9NSB4	KRT82_HUMAN	keratin 82	4	Head.					keratin filament	protein binding|structural constituent of epidermis			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.193)		CTGGAAAGAGTGGTACGACAT	0.577													4	16					0	0	1	0	0		A	52800051	A	A	52800051	3	1	151	1	0	0	0	0	1	0	0	0	8512	1696	59	5	1566	5	KRT82	12	52800051	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	85233	52800051	81051844	2901	80066											
KRT6A	3853	broad.mit.edu	37	chr12	52881872	52881872	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgttgacttgtccaacGccttcgccattcagcctgtg	7	12	9	13	2	1	2	1	1	0	1	3	2	2	2	4	0	2	1	4	0	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:52881872G>A	uc001sam.2	-	8	1649	c.1440C>T	c.(1438-1440)GGC>GGT	p.G480G		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	480	Tail.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		CTTGTCCAACGCCTTCGCCAT	0.587													25	93					0	0	1	0	0		A	52881872	A	A	52881872	2	1	151	1	0	0	0	0	0	0	0	1	8496	1074	38	1		1	KRT6A	12	52881872	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	81821	52881872	80970023	2902	80067											
KRT1	3848	broad.mit.edu	37	chr12	53069123	53069123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccggccgccagagctgcCgccgccgccgcctccagagc	4	2	13	22	6	0	2	0	0	0	2	1	2	1	2	10	1	3	1	10	1	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:53069123C>T	uc001sau.1	-	9	1848	c.1789G>A	c.(1789-1791)GGC>AGC	p.G597S	KRT1_uc001sav.1_Missense_Mutation_p.G590S	NM_006121	NP_006112	P04264	K2C1_HUMAN	keratin 1	597	Gly/Ser-rich.|Tail.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding			ovary(1)|skin(1)	2						ccagagctgccgccgccgccg	0.294													2	2					0	0	1	0	0		T	53069123	T	T	53069123	3	4	151	1	0	0	0	0	1	0	0	0	8463	652	23	1	149	1	KRT1	12	53069123	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	187251	53069123	80782772	2903	80068											
TENC1	23371	broad.mit.edu	37	chr12	53449467	53449467	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagcacgtggtcgtactatActgcaaggtgggccaggacc	10	7	13	11	2	0	0	0	0	0	0	1	1	0	1	2	4	4	3	2	4	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:53449467A>G	uc001sbp.2	+	9	824	c.689A>G	c.(688-690)TAC>TGC	p.Y230C	uc001sbk.1_5'Flank|TENC1_uc001sbl.2_Missense_Mutation_p.Y106C|TENC1_uc001sbm.2_Missense_Mutation_p.Y240C|TENC1_uc001sbn.2_Missense_Mutation_p.Y240C|TENC1_uc001sbo.1_Missense_Mutation_p.Y230C|TENC1_uc001sbq.2_5'Flank|TENC1_uc001sbr.2_5'Flank	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	230	Phosphatase tensin-type.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						GTCGTACTATACTGCAAGGTG	0.607													33	171					0	0	1	0	0		G	53449467	G	G	53449467	3	3	151	1	0	0	0	0	1	0	0	0	15783	391	14	3	832	3	TENC1	12	53449467	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	380344	53449467	80402428	2904	80069											
TENC1	23371	broad.mit.edu	37	chr12	53455004	53455004	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggcatcagtcaccatgTcaccttcgcacctctgctct	8	10	7	16	1	5	1	3	0	2	1	6	1	5	1	3	1	1	3	3	1	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:53455004T>C	uc001sbp.2	+	20	3449	c.3314T>C	c.(3313-3315)GTC>GCC	p.V1105A	TENC1_uc001sbl.2_Missense_Mutation_p.V981A|TENC1_uc001sbn.2_Missense_Mutation_p.V1115A|TENC1_uc001sbq.2_Missense_Mutation_p.V503A|TENC1_uc001sbr.2_RNA|TENC1_uc009zmr.2_Missense_Mutation_p.V600A|TENC1_uc001sbs.2_5'Flank	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	1105	Pro-rich.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						AGTCACCATGTCACCTTCGCA	0.607													5	115					0	0	1	0	0		C	53455004	C	C	53455004	3	2	151	1	0	0	0	0	1	0	0	0	15783	1667	58	3	3501	3	TENC1	12	53455004	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5537	53455004	80396891	2905	80070											
TENC1	23371	broad.mit.edu	37	chr12	53456009	53456009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggtgaagatcaagggctGccccagtgagccctactttg	9	8	14	10	0	1	3	1	2	0	1	1	3	1	3	3	3	3	1	3	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:53456009G>A	uc001sbp.2	+	23	3782	c.3647G>A	c.(3646-3648)TGC>TAC	p.C1216Y	TENC1_uc001sbl.2_Missense_Mutation_p.C1092Y|TENC1_uc001sbn.2_Missense_Mutation_p.C1226Y|TENC1_uc001sbq.2_Missense_Mutation_p.C614Y|TENC1_uc001sbr.2_RNA|TENC1_uc009zmr.2_Missense_Mutation_p.C711Y|TENC1_uc001sbs.2_5'UTR	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	1216	SH2.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						ATCAAGGGCTGCCCCAGTGAG	0.602													14	52					0	0	1	0	0		A	53456009	A	A	53456009	3	1	151	1	0	0	0	0	1	0	0	0	15783	1319	46	2	3846	2	TENC1	12	53456009	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1005	53456009	80395886	2906	80071											
ESPL1	9700	broad.mit.edu	37	chr12	53671610	53671610	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctggcttaacagctcagTccaaatgcctggaccaagcc	10	9	8	14	0	2	0	1	0	1	0	3	1	3	1	4	2	4	2	4	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:53671610T>C	uc001sck.2	+	11	2321	c.2230T>C	c.(2230-2232)TCC>CCC	p.S744P	ESPL1_uc001scj.2_Missense_Mutation_p.S419P|ESPL1_uc010soe.1_5'Flank	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	744					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						AACAGCTCAGTCCAAATGCCT	0.562													34	143					0	0	1	0	0		C	53671610	C	C	53671610	3	2	151	1	0	0	0	0	1	0	0	0	5261	1667	58	3	2268	3	ESPL1	12	53671610	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	215601	53671610	80180285	2907	80072											
ESPL1	9700	broad.mit.edu	37	chr12	53677233	53677233	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctcagagaagctggtctgCcacctgggccgcctgggtag	6	8	15	12	1	2	1	1	0	1	1	2	2	2	1	4	3	3	3	4	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:53677233C>T	uc001sck.2	+	16	3079	c.2988C>T	c.(2986-2988)TGC>TGT	p.C996C	ESPL1_uc001scj.2_Silent_p.C671C|ESPL1_uc010soe.1_Silent_p.C207C	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	996					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						AGCTGGTCTGCCACCTGGGCC	0.507													30	122					0	0	1	0	0		T	53677233	T	T	53677233	2	4	151	1	0	0	0	0	0	0	0	1	5261	747	26	2		2	ESPL1	12	53677233	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5623	53677233	80174662	2908	80073											
C12orf10	60314	broad.mit.edu	37	chr12	53696953	53696953	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcactagtgaagaggacagCatggtgggcaccctctatga	11	7	14	9	0	1	3	0	2	1	1	1	4	1	4	1	4	1	3	1	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:53696953C>T	uc001scp.3	+	3	517	c.465C>T	c.(463-465)AGC>AGT	p.S155S	C12orf10_uc010sof.1_Silent_p.S155S|C12orf10_uc009zmx.2_Silent_p.S155S|C12orf10_uc001scq.3_Silent_p.S40S	NM_021640	NP_067653	Q86UA3	Q86UA3_HUMAN	MYG1 protein precursor	155										ovary(2)	2						AAGAGGACAGCATGGTGGGCA	0.607													21	78					0	0	1	0	0		T	53696953	T	T	53696953	2	4	151	1	0	0	0	0	0	0	0	1	1677	709	25	2		2	C12orf10	12	53696953	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	19720	53696953	80154942	2909	80074											
HOXC8	3224	broad.mit.edu	37	chr12	54403221	54403221	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcgcccggcttccagcaCgcttcgcaccacgttcaaga	7	7	10	17	6	1	1	1	0	0	1	4	1	2	1	3	2	1	5	3	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:54403221C>T	uc001ser.2	+	1	332	c.153C>T	c.(151-153)CAC>CAT	p.H51H		NM_022658	NP_073149	P31273	HXC8_HUMAN	homeobox C8	51						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCTTCCAGCACGCTTCGCACC	0.662													44	142					0	0	1	0	0		T	54403221	T	T	54403221	2	4	151	1	0	0	0	0	0	0	0	1	7332	535	19	1		1	HOXC8	12	54403221	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	706268	54403221	79448674	2910	80075											
ITGA5	3678	broad.mit.edu	37	chr12	54799103	54799103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcccacctcctgaggccGcccgtcaggggtccgatcca	5	6	11	19	3	1	1	1	1	0	0	4	2	4	1	8	3	1	0	8	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:54799103G>A	uc001sga.2	-	12	1140	c.1072C>T	c.(1072-1074)CGG>TGG	p.R358W	ITGA5_uc010sow.1_RNA|ITGA5_uc009znp.1_RNA	NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	358	Extracellular (Potential).|FG-GAP 5.				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						TCCTGAGGCCGCCCGTCAGGG	0.647													7	23					0	0	1	0	0		A	54799103	A	A	54799103	3	1	151	1	0	0	0	0	1	0	0	0	7895	1086	38	1	2153	1	ITGA5	12	54799103	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	395882	54799103	79052792	2911	80076											
KIAA0748	9840	broad.mit.edu	37	chr12	55356581	55356581	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggacatcctctgctgtgtTtcctcttcacagcagaagac	8	12	9	12	0	3	2	1	0	2	2	5	3	5	3	2	1	2	3	2	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:55356581T>C	uc001sgn.3	-	9	1211	c.1101A>G	c.(1099-1101)GAA>GAG	p.E367E	KIAA0748_uc001sgl.3_Silent_p.E229E|KIAA0748_uc001sgm.3_Silent_p.E114E|KIAA0748_uc010spb.1_Silent_p.E114E|KIAA0748_uc010spc.1_Silent_p.E229E|KIAA0748_uc010spd.1_Silent_p.E367E|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	367										ovary(1)|central_nervous_system(1)	2						TCTGCTGTGTTTCCTCTTCAC	0.517													21	72					0	0	1	0	0		C	55356581	C	C	55356581	2	2	151	1	0	0	0	0	0	0	0	1	8206	1838	64	3		3	KIAA0748	12	55356581	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	557478	55356581	78495314	2912	80077											
ITGA7	3679	broad.mit.edu	37	chr12	56092633	56092633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcacccttgtggttggcgcGgggggctccagccacaaagc	7	6	15	13	2	0	0	0	0	0	0	1	0	1	0	3	5	3	3	3	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56092633G>A	uc001shh.2	-	6	1091	c.871C>T	c.(871-873)CGC>TGC	p.R291C	ITGA7_uc001shg.2_Missense_Mutation_p.R287C|ITGA7_uc010sps.1_Missense_Mutation_p.R194C|ITGA7_uc009znw.2_5'Flank|ITGA7_uc009znx.2_Missense_Mutation_p.R174C	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	331	FG-GAP 4.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						TGGTTGGCGCGGGGGGCTCCA	0.622													5	17					0	0	1	0	0		A	56092633	A	A	56092633	3	1	151	1	0	0	0	0	1	0	0	0	7897	1116	39	1	2634	1	ITGA7	12	56092633	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	736052	56092633	77759262	2913	80078											
DNAJC14	85406	broad.mit.edu	37	chr12	56221972	56221972	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccccaaagctggagaggtAcagtggtggcaaaagttgct	11	8	13	9	0	0	1	0	0	0	1	1	2	1	1	2	4	3	5	2	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56221972A>G	uc001shx.1	-	2	675	c.471T>C	c.(469-471)TGT>TGC	p.C157C	DNAJC14_uc001shu.1_Silent_p.C157C|DNAJC14_uc009zob.1_Silent_p.C157C|DNAJC14_uc001shy.1_Silent_p.C157C	NM_032364	NP_115740	Q6Y2X3	DJC14_HUMAN	dopamine receptor interacting protein	157					protein folding|protein transport	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|unfolded protein binding			ovary(3)|large_intestine(1)	4						CTGGAGAGGTACAGTGGTGGC	0.483													49	160					0	0	1	0	0		G	56221972	G	G	56221972	2	3	151	1	0	0	0	0	0	0	0	1	4639	389	14	3		3	DNAJC14	12	56221972	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	129339	56221972	77629923	2914	80079											
IKZF4	64375	broad.mit.edu	37	chr12	56428913	56428913	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaaggaagtgcttcgggTggtgggcgagagtggtgagc	7	8	19	7	2	0	2	0	1	0	1	2	4	1	3	1	5	2	1	1	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56428913T>C	uc001sjb.1	+	9	1715	c.1556T>C	c.(1555-1557)GTG>GCG	p.V519A	IKZF4_uc010sqa.1_Missense_Mutation_p.V472A|IKZF4_uc001sjc.1_Missense_Mutation_p.V519A|IKZF4_uc001sjd.1_Missense_Mutation_p.V417A|IKZF4_uc009zoi.1_Missense_Mutation_p.V474A|IKZF4_uc001sje.1_Missense_Mutation_p.V478A	NM_022465	NP_071910	Q9H2S9	IKZF4_HUMAN	zinc finger protein, subfamily 1A, 4	519					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (6;0.025)|OV - Ovarian serous cystadenocarcinoma(18;0.123)			GTGCTTCGGGTGGTGGGCGAG	0.617													52	175					0	0	1	0	0		C	56428913	C	C	56428913	3	2	151	1	0	0	0	0	1	0	0	0	7633	1696	59	3	1586	3	IKZF4	12	56428913	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	206941	56428913	77422982	2915	80080											
ERBB3	2065	broad.mit.edu	37	chr12	56481863	56481863	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgtccacagcctcttgTctacaacaagctaactttcc	9	12	5	15	1	2	0	0	0	2	0	5	0	4	0	3	0	5	2	3	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56481863T>C	uc001sjh.2	+	7	984	c.791T>C	c.(790-792)GTC>GCC	p.V264A	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.V205A|ERBB3_uc001sji.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	264	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CAGCCTCTTGTCTACAACAAG	0.512													14	71					0	0	1	0	0		C	56481863	C	C	56481863	3	2	151	1	0	0	0	0	1	0	0	0	5216	1667	58	3	948	3	ERBB3	12	56481863	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	52950	56481863	77370032	2916	80081											
PA2G4	5036	broad.mit.edu	37	chr12	56505008	56505008	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atttacagttctgctcatgcCcaatggccccatgcggataa	10	11	8	12	1	2	0	1	0	1	0	2	1	2	1	3	2	4	2	3	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56505008C>A	uc001sjm.2	+	11	1399	c.980C>A	c.(979-981)CCC>CAC	p.P327H	PA2G4_uc009zol.2_Missense_Mutation_p.P327H|PA2G4_uc009zom.2_Intron	NM_006191	NP_006182	Q9UQ80	PA2G4_HUMAN	ErbB3-binding protein 1	327	Necessary for nucleolar localization.				cell cycle arrest|cell proliferation|negative regulation of transcription, DNA-dependent|regulation of translation|rRNA processing	cytoplasm|nucleolus|ribonucleoprotein complex	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|ubiquitin protein ligase binding				0			OV - Ovarian serous cystadenocarcinoma(18;0.0739)			CTGCTCATGCCCAATGGCCCC	0.433													34	140					8.91981e-05	9.01776e-05	1	1	0		A	56505008	A	A	56505008	3	1	151	1	0	0	0	0	1	0	0	0	11380	623	22	5	1022	5	PA2G4	12	56505008	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	23145	56505008	77346887	2917	80082											
ZC3H10	84872	broad.mit.edu	37	chr12	56515016	56515016	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggccctcattttgagTcatatgaatatagtttggct	9	16	9	7	0	2	3	2	3	0	0	2	3	2	3	1	2	0	2	1	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56515016T>C	uc001sjp.1	+	3	859	c.670T>C	c.(670-672)TCA>CCA	p.S224P		NM_032786	NP_116175	Q96K80	ZC3HA_HUMAN	zinc finger CCCH-type containing 10	224							nucleic acid binding|zinc ion binding				0			OV - Ovarian serous cystadenocarcinoma(18;0.12)			TCATTTTGAGTCATATGAATA	0.547													18	75					0	0	1	0	0		C	56515016	C	C	56515016	3	2	151	1	0	0	0	0	1	0	0	0	17584	1667	58	3	672	3	ZC3H10	12	56515016	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10008	56515016	77336879	2918	80083											
SMARCC2	6601	broad.mit.edu	37	chr12	56563585	56563585	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtctccatcactcttctcGgactccttctcactgtcgcc	4	13	7	17	2	5	0	2	0	4	0	10	1	6	1	3	2	0	0	3	2	0	2	rs148688009	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56563585G>A	uc001skb.2	-	23	2536	c.2430C>T	c.(2428-2430)TCC>TCT	p.S810S	SMARCC2_uc001skd.2_Silent_p.S841S|SMARCC2_uc001ska.2_Silent_p.S841S|SMARCC2_uc001skc.2_Silent_p.S840S|SMARCC2_uc010sqf.1_Silent_p.S730S	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	810	Glu-rich.				chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			CACTCTTCTCGGACTCCTTCT	0.552													59	185					0	0	1	0	0		A	56563585	A	A	56563585	2	1	151	1	0	0	0	0	0	0	0	1	14801	1103	39	1		1	SMARCC2	12	56563585	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	48569	56563585	77288310	2919	80084											
SMARCC2	6601	broad.mit.edu	37	chr12	56565655	56565655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaaaatgcaagatgcactCgtcctgtgtgcggcttccca	11	9	10	11	2	0	2	0	0	0	2	3	2	2	2	2	1	3	3	2	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56565655C>T	uc001skb.2	-	20	2006	c.1900G>A	c.(1900-1902)GAG>AAG	p.E634K	SMARCC2_uc001skd.2_Missense_Mutation_p.E665K|SMARCC2_uc001ska.2_Missense_Mutation_p.E665K|SMARCC2_uc001skc.2_Missense_Mutation_p.E664K|SMARCC2_uc010sqf.1_Missense_Mutation_p.E554K	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	634	SANT.				chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			AAGATGCACTCGTCCTGTGTG	0.542													19	69					0	0	1	0	0		T	56565655	T	T	56565655	3	4	151	1	0	0	0	0	1	0	0	0	14801	893	31	1	1780	1	SMARCC2	12	56565655	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2070	56565655	77286240	2920	80085											
SMARCC2	6601	broad.mit.edu	37	chr12	56581046	56581046	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgtagcaactgtacaacCaggctagacagggacttgtt	13	10	10	8	0	0	1	0	0	0	1	0	2	0	2	1	2	4	5	1	2	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56581046C>T	uc001skb.2	-	2	262	c.156G>A	c.(154-156)CTG>CTA	p.L52L	SMARCC2_uc001skd.2_Silent_p.L52L|SMARCC2_uc001ska.2_Silent_p.L52L|SMARCC2_uc001skc.2_Silent_p.L52L|SMARCC2_uc010sqf.1_5'UTR	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	52					chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			ACTGTACAACCAGGCTAGACA	0.438													26	169					0	0	1	0	0		T	56581046	T	T	56581046	2	4	151	1	0	0	0	0	0	0	0	1	14801	581	21	4		4	SMARCC2	12	56581046	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	15391	56581046	77270849	2921	80086											
SMARCC2	6601	broad.mit.edu	37	chr12	56583145	56583145	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccgcgtaccttcttgtagTtcttgccgagccacagccgc	5	10	10	16	4	2	0	0	0	2	0	2	1	2	0	5	0	4	3	5	0	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56583145T>C	uc001skb.2	-	1	207	c.101A>G	c.(100-102)AAC>AGC	p.N34S	SMARCC2_uc001skd.2_Missense_Mutation_p.N34S|SMARCC2_uc001ska.2_Missense_Mutation_p.N34S|SMARCC2_uc001skc.2_Missense_Mutation_p.N34S|SMARCC2_uc010sqf.1_5'UTR	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	34					chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			CTTCTTGTAGTTCTTGCCGAG	0.498													3	23					0	0	1	0	0		C	56583145	C	C	56583145	3	2	151	1	0	0	0	0	1	0	0	0	14801	1725	60	3	3752	3	SMARCC2	12	56583145	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2099	56583145	77268750	2922	80087											
SLC39A5	283375	broad.mit.edu	37	chr12	56628733	56628733	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagccgcgtctgcatcggCgctccggcccctgcaccccc	4	5	11	21	5	1	0	0	0	1	0	3	1	2	0	6	2	3	3	6	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56628733C>T	uc010sqj.1	+	6	854	c.597C>T	c.(595-597)GGC>GGT	p.G199G	SLC39A5_uc010sqi.1_Silent_p.G90G|SLC39A5_uc010sqk.1_Silent_p.G199G	NM_173596	NP_775867	Q6ZMH5	S39A5_HUMAN	solute carrier family 39 (metal ion	199	Extracellular (By similarity).				zinc ion transport	basolateral plasma membrane|integral to membrane	metal ion transmembrane transporter activity			ovary(1)|skin(1)	2						TCTGCATCGGCGCTCCGGCCC	0.607													45	151					0	0	1	0	0		T	56628733	T	T	56628733	2	4	151	1	0	0	0	0	0	0	0	1	14646	755	27	1		1	SLC39A5	12	56628733	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	45588	56628733	77223162	2923	80088											
PAN2	9924	broad.mit.edu	37	chr12	56713165	56713165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccaatgtcaatgagaaaaCgaagctttaagtaggtagac	16	9	9	7	1	1	2	1	1	0	2	2	4	2	2	1	1	2	3	1	1	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56713165C>T	uc001skx.2	-	23	3582	c.3209G>A	c.(3208-3210)CGT>CAT	p.R1070H	PAN2_uc001skw.2_Missense_Mutation_p.R218H|PAN2_uc001skz.2_Missense_Mutation_p.R1069H|PAN2_uc001sky.2_Missense_Mutation_p.R1066H	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	1070	Exonuclease.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						AATGAGAAAACGAAGCTTTAA	0.453													29	118					0	0	1	0	0		T	56713165	T	T	56713165	3	4	151	1	0	0	0	0	1	0	0	0	11433	536	19	1	415	1	PAN2	12	56713165	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	84432	56713165	77138730	2924	80089											
PAN2	9924	broad.mit.edu	37	chr12	56717655	56717655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctggtccaggcagatgcttCgcttcagcacctgagcaaag	9	9	11	12	1	2	2	1	1	1	1	4	2	3	2	2	2	3	5	2	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:56717655C>T	uc001skx.2	-	14	2493	c.2120G>A	c.(2119-2121)CGA>CAA	p.R707Q	PAN2_uc001skw.2_5'UTR|PAN2_uc001skz.2_Missense_Mutation_p.R706Q|PAN2_uc001sky.2_Missense_Mutation_p.R703Q	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	707					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						GCAGATGCTTCGCTTCAGCAC	0.512													28	134					0	0	1	0	0		T	56717655	T	T	56717655	3	4	151	1	0	0	0	0	1	0	0	0	11433	884	31	1	1540	1	PAN2	12	56717655	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4490	56717655	77134240	2925	80090											
BAZ2A	11176	broad.mit.edu	37	chr12	57005600	57005600	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccagtgatctcttccacGtcagcagtggtttctagaaa	9	13	8	11	1	4	2	1	1	3	1	7	2	5	2	2	1	1	2	2	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:57005600G>A	uc001slq.1	-	6	1766	c.1572C>T	c.(1570-1572)GAC>GAT	p.D524D	BAZ2A_uc001slp.1_Silent_p.D522D|BAZ2A_uc009zow.1_Silent_p.D492D	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	524					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						TCTCTTCCACGTCAGCAGTGG	0.498													5	8					0	0	1	0	0		A	57005600	A	A	57005600	2	1	151	1	0	0	0	0	0	0	0	1	1332	1136	40	1		1	BAZ2A	12	57005600	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	287945	57005600	76846295	2926	80091											
PTGES3	10728	broad.mit.edu	37	chr12	57060033	57060033	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctacatcctcatcaccAcccatgttgttcatcatcta	12	13	2	14	0	6	0	4	0	2	0	7	0	7	0	3	0	1	2	3	0	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:57060033A>G	uc001slu.3	-	6	688	c.393T>C	c.(391-393)GGT>GGC	p.G131G	PTGES3_uc001slw.3_RNA|PTGES3_uc010sqs.1_Silent_p.G98G|PTGES3_uc001slv.3_Silent_p.G101G|PTGES3_uc010sqt.1_Intron|PTGES3_uc009zox.2_RNA	NM_006601	NP_006592	Q15185	TEBP_HUMAN	prostaglandin-E synthase 3	131	Asp/Glu-rich.				chaperone cofactor-dependent protein refolding|hormone biosynthetic process|prostaglandin biosynthetic process|signal transduction|telomere maintenance	cytosol|telomerase holoenzyme complex	prostaglandin-E synthase activity|telomerase activity|unfolded protein binding				0						CCTCATCACCACCCATGTTGT	0.294													4	87					0	0	1	0	0		G	57060033	G	G	57060033	2	3	151	1	0	0	0	0	0	0	0	1	12771	146	6	3		3	PTGES3	12	57060033	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	54433	57060033	76791862	2927	80092											
NACA	4666	broad.mit.edu	37	chr12	57107367	57107367	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatctgaagcagggctcttgTagacatctggttttgtgatg	8	15	12	6	0	3	3	0	2	3	1	3	3	3	3	0	2	1	4	0	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:57107367T>C	uc001slz.2	-	5	684	c.335A>G	c.(334-336)TAC>TGC	p.Y112C	NACA_uc001sly.2_Missense_Mutation_p.Y112C|NACA_uc009zoy.1_Missense_Mutation_p.Y1975C|NACA_uc001smc.2_Missense_Mutation_p.Y112C|NACA_uc001sma.2_Missense_Mutation_p.Y822C|NACA_uc001smb.2_Missense_Mutation_p.Y112C|NACA_uc010squ.1_RNA	NM_001113201	NP_001106672	Q13765	NACA_HUMAN	nascent polypeptide-associated complex alpha	112	NAC-A/B.				interspecies interaction between organisms|protein transport|transcription, DNA-dependent|translation	nascent polypeptide-associated complex|nucleus	DNA binding			ovary(1)	1						AGGGCTCTTGTAGACATCTGG	0.388			T	BCL6	NHL								8	305					0	0	1	0	0		C	57107367	C	C	57107367	3	2	151	1	0	0	0	0	1	0	0	0	10151	1638	57	3	328	3	NACA	12	57107367	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	47334	57107367	76744528	2928	80093											
PRIM1	5557	broad.mit.edu	37	chr12	57135217	57135217	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttagtttccttgtgtagtAcctgttttaggatgaacact	8	17	8	8	0	0	1	0	1	0	0	1	2	1	2	3	1	2	4	3	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:57135217A>G	uc001smd.2	-	9	1046	c.982_splice	c.e9+1	p.G328_splice		NM_000946	NP_000937	P49642	PRI1_HUMAN	DNA primase polypeptide 1						DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	DNA primase activity|metal ion binding				0						CTTGTGTAGTACCTGTTTTAG	0.353													11	38					0	0	1	0	0		G	57135217	G	G	57135217	5	3	151	1	0	0	0	0	0	0	1	0	12512	405	14	3	298	3	PRIM1	12	57135217	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	27850	57135217	76716678	2929	80094											
GPR182	11318	broad.mit.edu	37	chr12	57389660	57389660	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggtggccctgtccaccAccatcctgggcttcctgctg	3	10	12	16	1	0	0	0	0	0	0	3	0	3	0	6	4	1	2	6	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:57389660A>G	uc001smk.2	+	2	761	c.667A>G	c.(667-669)ACC>GCC	p.T223A	RDH16_uc010sqx.1_Intron	NM_007264	NP_009195	O15218	GP182_HUMAN	G protein-coupled receptor 182	223	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(1)	1						CCTGTCCACCACCATCCTGGG	0.637													9	37					0	0	1	0	0		G	57389660	G	G	57389660	3	3	151	1	0	0	0	0	1	0	0	0	6692	159	6	3	669	3	GPR182	12	57389660	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	254443	57389660	76462235	2930	80095											
ZBTB39	9880	broad.mit.edu	37	chr12	57397714	57397714	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcattctctccaaaagccaActcatcctcactgtcatcac	11	11	3	16	0	6	0	5	0	1	0	9	0	8	0	3	0	2	0	3	0	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:57397714A>G	uc001sml.1	-	2	1074	c.988T>C	c.(988-990)TTG>CTG	p.L330L	RDH16_uc010sqx.1_5'Flank	NM_014830	NP_055645	O15060	ZBT39_HUMAN	zinc finger and BTB domain containing 39	330					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						CCAAAAGCCAACTCATCCTCA	0.512													63	283					0	0	1	0	0		G	57397714	G	G	57397714	2	3	151	1	0	0	0	0	0	0	0	1	17565	40	2	3		3	ZBTB39	12	57397714	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	8054	57397714	76454181	2931	80096											
STAT6	6778	broad.mit.edu	37	chr12	57499295	57499295	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatccagccggccagtcagCgatgcccgggtcttgggctc	5	8	13	15	3	3	0	2	0	1	0	5	1	4	0	4	3	3	1	4	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:57499295C>T	uc009zpe.2	-	8	1019	c.768G>A	c.(766-768)TCG>TCA	p.S256S	STAT6_uc009zpf.2_Silent_p.S256S|STAT6_uc001sna.2_Silent_p.S256S|STAT6_uc010srb.1_Silent_p.S146S|STAT6_uc010src.1_Silent_p.S146S|STAT6_uc010srd.1_Silent_p.S146S|STAT6_uc009zpg.2_Silent_p.S305S	NM_003153	NP_003144	P42226	STAT6_HUMAN	signal transducer and activator of transcription	256					regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(2)|lung(1)|skin(1)	4						GGCCAGTCAGCGATGCCCGGG	0.612													11	31					0	0	1	0	0		T	57499295	T	T	57499295	2	4	151	1	0	0	0	0	0	0	0	1	15295	755	27	1		1	STAT6	12	57499295	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	101581	57499295	76352600	2932	80097											
LRP1	4035	broad.mit.edu	37	chr12	57532311	57532311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtatctcaaagggctggcGgtgcgacggtgagagggact	8	8	17	8	3	1	1	1	1	1	1	2	4	1	2	0	5	1	2	0	5	2	1	rs146149784	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:57532311G>A	uc001snd.2	+	2	603	c.137G>A	c.(136-138)CGG>CAG	p.R46Q	LRP1_uc010sre.1_Missense_Mutation_p.R46Q|LRP1_uc001snb.2_Missense_Mutation_p.R46Q|LRP1_uc001snc.1_Missense_Mutation_p.R46Q	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	46	LDL-receptor class A 1.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	AAGGGCTGGCGGTGCGACGGT	0.507													57	175					0	0	1	0	0		A	57532311	A	A	57532311	3	1	151	1	0	0	0	0	1	0	0	0	8969	1116	39	1	143	1	LRP1	12	57532311	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	33016	57532311	76319584	2933	80098											
INHBC	3626	broad.mit.edu	37	chr12	57843705	57843705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctcatgctgtgtacccaCggcccggcgccccctgtctc	3	8	12	18	3	2	0	1	0	1	0	3	0	2	0	4	3	2	3	4	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:57843705C>T	uc001snv.1	+	2	1086	c.959C>T	c.(958-960)ACG>ATG	p.T320M		NM_005538	NP_005529	P55103	INHBC_HUMAN	inhibin beta C chain preproprotein	320					growth	extracellular region	growth factor activity|hormone activity|transforming growth factor beta receptor binding				0						TGTGTACCCACGGCCCGGCGC	0.557													26	71					0	0	1	0	0		T	57843705	T	T	57843705	3	4	151	1	0	0	0	0	1	0	0	0	7759	536	19	1	965	1	INHBC	12	57843705	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	311394	57843705	76008190	2934	80099											
DDIT3	1649	broad.mit.edu	37	chr12	57910686	57910686	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatttcctgcttgagccgtTcattctcttcagctagctgt	5	16	8	12	2	3	1	2	1	1	0	5	2	4	1	2	0	4	4	2	0	1	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:57910686T>C	uc001soi.2	-	4	596	c.416A>G	c.(415-417)GAA>GGA	p.E139G	MARS_uc001sof.1_Intron|DDIT3_uc009zps.2_Missense_Mutation_p.E162G|DDIT3_uc009zpt.2_Missense_Mutation_p.E162G	NM_004083	NP_004074	P35638	DDIT3_HUMAN	DNA-damage-inducible transcript 3	139	Leucine-zipper.				cell cycle arrest|cell redox homeostasis|mRNA transcription from RNA polymerase II promoter|negative regulation of determination of dorsal identity|regulation of DNA-dependent transcription in response to stress|response to DNA damage stimulus	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription factor binding		FUS/DDIT3(623)|EWSR1/DDIT3(43)	soft_tissue(666)|large_intestine(1)|central_nervous_system(1)|lung(1)|skin(1)|ovary(1)	671						CTTGAGCCGTTCATTCTCTTC	0.522			T	FUS	liposarcoma								53	164					0	0	1	0	0		C	57910686	C	C	57910686	3	2	151	1	0	0	0	0	1	0	0	0	4333	1783	62	3	97	3	DDIT3	12	57910686	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	66981	57910686	75941209	2935	80100											
DDIT3	1649	broad.mit.edu	37	chr12	57911081	57911081	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaggaggtgaaacataggTacccccattttcatctgaag	12	10	9	10	0	2	2	1	2	1	0	3	3	3	3	3	3	2	1	3	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:57911081T>C	uc001soi.2	-	3	289	c.109A>G	c.(109-111)ACC>GCC	p.T37A	MARS_uc001sof.1_RNA|DDIT3_uc009zps.2_Missense_Mutation_p.T60A|DDIT3_uc009zpt.2_Missense_Mutation_p.T60A	NM_004083	NP_004074	P35638	DDIT3_HUMAN	DNA-damage-inducible transcript 3	37					cell cycle arrest|cell redox homeostasis|mRNA transcription from RNA polymerase II promoter|negative regulation of determination of dorsal identity|regulation of DNA-dependent transcription in response to stress|response to DNA damage stimulus	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription factor binding		FUS/DDIT3(623)|EWSR1/DDIT3(43)	soft_tissue(666)|large_intestine(1)|central_nervous_system(1)|lung(1)|skin(1)|ovary(1)	671						GAAACATAGGTACCCCCATTT	0.473			T	FUS	liposarcoma								8	75					0	0	1	0	0		C	57911081	C	C	57911081	3	2	151	1	0	0	0	0	1	0	0	0	4333	1638	57	3	408	3	DDIT3	12	57911081	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	395	57911081	75940814	2936	80101											
KIF5A	3798	broad.mit.edu	37	chr12	57963058	57963058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagctatgttccatatcGtgacagcaaaatgacaagga	17	8	9	7	1	0	2	0	2	0	0	2	4	1	3	1	1	2	3	1	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:57963058G>A	uc001sor.1	+	10	1047	c.839G>A	c.(838-840)CGT>CAT	p.R280H	KIF5A_uc010srr.1_Missense_Mutation_p.R191H	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	280	Kinesin-motor.|Microtubule-binding.		R -> H (in SPG10; complicated form).|R -> L (in SPG10; pure form).|R -> C (in SPG10).	R->S: Strongly reduces microtubule affinity; slightly reduces gliding velocity.	blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						GTTCCATATCGTGACAGCAAA	0.458													12	79					0	0	1	0	0		A	57963058	A	A	57963058	3	1	151	1	0	0	0	0	1	0	0	0	8321	1145	40	1	877	1	KIF5A	12	57963058	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	51977	57963058	75888837	2937	80102											
AGAP2	116986	broad.mit.edu	37	chr12	58124631	58124631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgagcccgttaatgctggCtgaggggccaaaggcagaga	11	5	16	9	2	0	2	0	1	0	1	0	5	0	2	2	4	2	4	2	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:58124631C>T	uc001spq.2	-	11	2251	c.2251G>A	c.(2251-2253)GCC>ACC	p.A751T	AGAP2_uc001spp.2_Missense_Mutation_p.A751T|AGAP2_uc001spr.2_Missense_Mutation_p.A415T	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	751	PH.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						TTAATGCTGGCTGAGGGGCCA	0.592													5	22					0	0	1	0	0		T	58124631	T	T	58124631	3	4	151	1	0	0	0	0	1	0	0	0	368	797	28	2	1363	2	AGAP2	12	58124631	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	161573	58124631	75727264	2938	80103											
AVIL	10677	broad.mit.edu	37	chr12	58193644	58193644	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttcaacagaactgctatAgggtaatattttggctcact	11	16	7	7	0	2	1	2	0	0	1	2	1	2	1	0	2	3	3	0	2	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:58193644A>G	uc001sqj.1	-	18	2309	c.2280T>C	c.(2278-2280)CCT>CCC	p.P760P	AVIL_uc009zqe.1_Silent_p.P753P	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	760	Headpiece (By similarity).|HP.				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					GAACTGCTATAGGGTAATATT	0.448													52	217					0	0	1	0	0		G	58193644	G	G	58193644	2	3	151	1	0	0	0	0	0	0	0	1	1228	407	15	3		3	AVIL	12	58193644	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	69013	58193644	75658251	2939	80104											
XRCC6BP1	91419	broad.mit.edu	37	chr12	58350647	58350647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacagagactttgaaaacCgtgatcggtattattcaaat	14	12	7	8	2	2	3	2	2	0	1	3	4	2	3	1	1	1	1	1	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:58350647C>T	uc001sqp.2	+	6	755	c.715C>T	c.(715-717)CGT>TGT	p.R239C		NM_033276	NP_150592	Q9Y6H3	ATP23_HUMAN	XRCC6 binding protein 1	239					double-strand break repair via nonhomologous end joining	DNA-dependent protein kinase-DNA ligase 4 complex	DNA-dependent protein kinase activity|metal ion binding|metalloendopeptidase activity			ovary(1)	1						CTTTGAAAACCGTGATCGGTA	0.328													32	108					0	0	1	0	0		T	58350647	T	T	58350647	3	4	151	1	0	0	0	0	1	0	0	0	17484	652	23	1	737	1	XRCC6BP1	12	58350647	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	157003	58350647	75501248	2940	80105											
USP15	9958	broad.mit.edu	37	chr12	62777633	62777633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttacagacacaggtaggaCgttttgcacctcagttctct	9	13	8	11	1	3	1	1	0	2	1	4	2	3	2	1	2	2	4	1	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:62777633C>T	uc001src.1	+	10	1111	c.1102C>T	c.(1102-1104)CGT>TGT	p.R368C	USP15_uc001srb.1_Missense_Mutation_p.R339C	NM_006313	NP_006304	Q9Y4E8	UBP15_HUMAN	ubiquitin specific peptidase 15	368					protein deubiquitination|ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)	3			GBM - Glioblastoma multiforme(1;0.000276)	GBM - Glioblastoma multiforme(28;0.0622)		ACAGGTAGGACGTTTTGCACC	0.323													38	149					0	0	1	0	0		T	62777633	T	T	62777633	3	4	151	1	0	0	0	0	1	0	0	0	17072	536	19	1	1049	1	USP15	12	62777633	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4426986	62777633	71074262	2941	80106											
MON2	23041	broad.mit.edu	37	chr12	62949836	62949836	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcagacaaagaaaagatTgagtctggaggtggcaatat	16	8	12	5	0	1	4	0	1	1	3	1	5	1	5	0	3	1	2	0	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:62949836T>C	uc001sre.2	+	25	3664	c.3273T>C	c.(3271-3273)ATT>ATC	p.I1091I	MON2_uc009zqj.2_Silent_p.I1091I|MON2_uc010ssl.1_Silent_p.I1019I|MON2_uc010ssm.1_Silent_p.I1068I|MON2_uc010ssn.1_Silent_p.I1091I|MON2_uc001srf.2_Silent_p.I854I	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	1092					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		AAGAAAAGATTGAGTCTGGAG	0.413													10	56					0	0	1	0	0		C	62949836	C	C	62949836	2	2	151	1	0	0	0	0	0	0	0	1	9718	1800	63	3		3	MON2	12	62949836	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	172203	62949836	70902059	2942	80107											
AVPR1A	552	broad.mit.edu	37	chr12	63544060	63544060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgatcatggagaagacgaagTactgcggcgtgctcagcacg	11	6	14	10	5	2	2	2	0	0	2	2	5	2	2	0	2	4	3	0	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:63544060T>C	uc001sro.1	-	1	2531	c.557A>G	c.(556-558)TAC>TGC	p.Y186C		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	186	Helical; Name=4; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	GAAGACGAAGTACTGCGGCGT	0.647													18	82					0	0	1	0	0		C	63544060	C	C	63544060	3	2	151	1	0	0	0	0	1	0	0	0	1232	1638	57	3	707	3	AVPR1A	12	63544060	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	594224	63544060	70307835	2943	80108											
DPY19L2	283417	broad.mit.edu	37	chr12	64061918	64061918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctgcgccagggaattacGgacgaactggaaggggccga	11	4	17	9	4	0	0	0	0	0	0	0	6	0	3	2	5	4	1	2	5	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:64061918G>A	uc001srp.1	-	1	437	c.256C>T	c.(256-258)CGT>TGT	p.R86C	DPY19L2_uc009zqk.1_RNA	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	86					multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		AGGGAATTACGGACGAACTGG	0.607													20	118					0	0	1	0	0		A	64061918	A	A	64061918	3	1	151	1	0	0	0	0	1	0	0	0	4747	1116	39	1	2108	1	DPY19L2	12	64061918	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	517858	64061918	69789977	2944	80109											
HELB	92797	broad.mit.edu	37	chr12	66704385	66704385	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatgcctacacactgtgTcaggtaaaacctttgacatt	11	13	6	11	0	2	1	2	1	0	0	2	1	2	1	2	1	3	1	2	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:66704385T>C	uc001sti.2	+	4	1705	c.1677T>C	c.(1675-1677)TGT>TGC	p.C559C	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	559					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		ACACACTGTGTCAGGTAAAAC	0.308													35	169					0	0	1	0	0		C	66704385	C	C	66704385	2	2	151	1	0	0	0	0	0	0	0	1	7061	1673	58	3		3	HELB	12	66704385	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2642467	66704385	67147510	2945	80110											
CAND1	55832	broad.mit.edu	37	chr12	67691600	67691600	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgatgaattaagagagtActgtattcaagcctttgaat	14	14	9	4	0	1	5	1	4	0	1	1	6	1	5	1	0	2	2	1	0	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:67691600A>G	uc001stn.2	+	6	1258	c.821A>G	c.(820-822)TAC>TGC	p.Y274C	CAND1_uc001sto.2_5'Flank	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	274	HEAT 7.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		TTAAGAGAGTACTGTATTCAA	0.289													30	100					0	0	1	0	0		G	67691600	G	G	67691600	3	3	151	1	0	0	0	0	1	0	0	0	2618	391	14	3	843	3	CAND1	12	67691600	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	987215	67691600	66160295	2946	80111											
CAND1	55832	broad.mit.edu	37	chr12	67692747	67692747	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagatgtcctaaggaagtatAtcctcatgtttctaccatta	12	15	6	8	0	2	1	1	0	1	1	4	2	4	2	3	1	1	2	3	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:67692747A>G	uc001stn.2	+	7	1309	c.872A>G	c.(871-873)TAT>TGT	p.Y291C	CAND1_uc001sto.2_Translation_Start_Site	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	291	HEAT 8.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		AAGGAAGTATATCCTCATGTT	0.264													19	84					0	0	1	0	0		G	67692747	G	G	67692747	3	3	151	1	0	0	0	0	1	0	0	0	2618	449	16	3	898	3	CAND1	12	67692747	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1147	67692747	66159148	2947	80112											
DYRK2	8445	broad.mit.edu	37	chr12	68051408	68051408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcaggtggtcaaggcctacGatcacaaagtccaccagcac	12	5	11	13	1	2	0	2	0	0	0	3	1	3	0	3	4	2	2	3	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:68051408G>A	uc001str.3	+	3	1123	c.721G>A	c.(721-723)GAT>AAT	p.D241N	DYRK2_uc001sts.3_Missense_Mutation_p.D168N	NM_006482	NP_006473	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	241	Protein kinase.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|positive regulation of glycogen biosynthetic process|smoothened signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|manganese ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(1)|central_nervous_system(1)	4			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		CAAGGCCTACGATCACAAAGT	0.577													18	75					0	0	1	0	0		A	68051408	A	A	68051408	3	1	151	1	0	0	0	0	1	0	0	0	4862	1058	37	1	731	1	DYRK2	12	68051408	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	358661	68051408	65800487	2948	80113											
DYRK2	8445	broad.mit.edu	37	chr12	68052075	68052075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctccaagggttatccccGttactgcactgtcacgactc	8	10	9	14	2	1	0	1	0	0	0	4	2	3	0	3	1	3	4	3	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:68052075G>A	uc001str.3	+	3	1790	c.1388G>A	c.(1387-1389)CGT>CAT	p.R463H	DYRK2_uc001sts.3_Missense_Mutation_p.R390H	NM_006482	NP_006473	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	463	Protein kinase.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|positive regulation of glycogen biosynthetic process|smoothened signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|manganese ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(1)|central_nervous_system(1)	4			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		GGTTATCCCCGTTACTGCACT	0.557													28	114					0	0	1	0	0		A	68052075	A	A	68052075	3	1	151	1	0	0	0	0	1	0	0	0	4862	1145	40	1	1398	1	DYRK2	12	68052075	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	667	68052075	65799820	2949	80114											
IL26	55801	broad.mit.edu	37	chr12	68619014	68619014	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaattgcagttgaccaaaaAcgtcttccatgaagaaggac	15	8	9	9	1	1	3	0	2	1	1	2	4	2	4	2	1	2	3	2	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:68619014A>G	uc001stx.1	-	3	313	c.278T>C	c.(277-279)GTT>GCT	p.V93A		NM_018402	NP_060872	Q9NPH9	IL26_HUMAN	interleukin 26 precursor	93					cell-cell signaling|negative regulation of epithelial cell proliferation|positive regulation of cytokine secretion|positive regulation of ERK1 and ERK2 cascade|positive regulation of JAK-STAT cascade|positive regulation of protein kinase B signaling cascade|positive regulation of stress-activated MAPK cascade|positive regulation of transcription from RNA polymerase II promoter	cytosol|extracellular space|soluble fraction	cytokine activity				0			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000515)		TTGACCAAAAACGTCTTCCAT	0.358													31	122					0	0	1	0	0		G	68619014	G	G	68619014	3	3	151	1	0	0	0	0	1	0	0	0	7695	43	2	3	249	3	IL26	12	68619014	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	566939	68619014	65232881	2950	80115											
MDM1	56890	broad.mit.edu	37	chr12	68720795	68720795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaataaaacttggctctttcGtgatgcctacaaaacacggt	14	11	7	9	2	1	1	0	1	1	0	2	1	1	1	1	2	4	1	1	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:68720795G>A	uc001stz.2	-	3	276	c.140C>T	c.(139-141)ACG>ATG	p.T47M	MDM1_uc010stc.1_Missense_Mutation_p.T47M|MDM1_uc009zqv.1_Intron|MDM1_uc001sua.3_Missense_Mutation_p.T47M|MDM1_uc010std.1_3'UTR	NM_017440	NP_059136	Q8TC05	MDM1_HUMAN	mouse Mdm1 nuclear protein homolog isoform 1	47						nucleus				ovary(3)|skin(2)	5			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000174)		TGGCTCTTTCGTGATGCCTAC	0.363													22	61					0	0	1	0	0		A	68720795	A	A	68720795	3	1	151	1	0	0	0	0	1	0	0	0	9430	1145	40	1	2223	1	MDM1	12	68720795	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	101781	68720795	65131100	2951	80116											
MDM2	4193	broad.mit.edu	37	chr12	69233299	69233299	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggaaaatgatgataaaatTacacaagcttcacaatcaca	20	8	6	7	0	2	2	2	2	0	0	2	4	2	3	0	1	2	1	0	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:69233299T>C	uc001sui.2	+	11	1451	c.1164T>C	c.(1162-1164)ATT>ATC	p.I388I	MDM2_uc009zri.2_Silent_p.I343I|MDM2_uc009zqx.2_Silent_p.I333I|MDM2_uc009zqw.2_Intron|MDM2_uc001suk.2_Intron|MDM2_uc001sun.3_Silent_p.I207I|MDM2_uc009zqz.2_Silent_p.I335I|MDM2_uc009zra.2_Silent_p.I186I|MDM2_uc001sum.1_Intron|MDM2_uc009zrd.2_Silent_p.I72I|MDM2_uc009zrc.2_Silent_p.I72I|MDM2_uc009zre.2_Silent_p.I129I|MDM2_uc009zrf.2_Silent_p.I72I|MDM2_uc001suo.2_Silent_p.I182I|MDM2_uc009zrg.2_Silent_p.I104I|MDM2_uc009zrh.2_Silent_p.I156I	NM_002392	NP_002383	Q00987	MDM2_HUMAN	mouse double minute 2 homolog isoform MDM2	382	Necessary for interaction with USP2.				cellular response to hypoxia|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|establishment of protein localization|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein complex assembly|protein destabilization|protein localization to nucleus|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to antibiotic|synaptic transmission	cytosol|endocytic vesicle membrane|insoluble fraction|nucleolus|nucleoplasm|plasma membrane|protein complex	enzyme binding|identical protein binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|central_nervous_system(1)	3	all_cancers(1;8.46e-121)|all_epithelial(5;3.21e-36)|Lung NSC(4;2.16e-33)|all_lung(4;3.03e-31)|Glioma(1;1.9e-09)|Breast(13;1.59e-06)|all_neural(1;1.03e-05)|Melanoma(1;0.0171)|Renal(347;0.0684)		all cancers(2;8.67e-65)|GBM - Glioblastoma multiforme(2;8.89e-62)|BRCA - Breast invasive adenocarcinoma(5;2.43e-08)|Lung(24;1.5e-05)|LUAD - Lung adenocarcinoma(15;8.5e-05)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			ATGATAAAATTACACAAGCTT	0.353			A		sarcoma|glioma|colorectal|other								29	124					0	0	1	0	0		C	69233299	C	C	69233299	2	2	151	1	0	0	0	0	0	0	0	1	9431	1742	61	3		3	MDM2	12	69233299	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	512504	69233299	64618596	2952	80117											
LGR5	8549	broad.mit.edu	37	chr12	71976241	71976241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcttgtgctgcagatgaaCgtgaccttgaagatttcctg	8	14	10	9	1	1	5	0	3	1	2	2	5	2	5	2	0	3	2	2	0	2	4	rs145133989		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:71976241C>T	uc001swl.2	+	17	1606	c.1558C>T	c.(1558-1560)CGT>TGT	p.R520C	LGR5_uc001swm.2_Missense_Mutation_p.R496C|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	520	Extracellular (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						TGCAGATGAACGTGACCTTGA	0.463													20	85					0	0	1	0	0		T	71976241	T	T	71976241	3	4	151	1	0	0	0	0	1	0	0	0	8773	536	19	1	1624	1	LGR5	12	71976241	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2742942	71976241	61875654	2953	80118											
ZFC3H1	196441	broad.mit.edu	37	chr12	72008422	72008422	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactaaatcagtaaaaaattTgaattcttgaactttgtttc	15	16	4	6	0	2	2	1	2	1	0	3	2	2	2	0	0	1	2	0	0	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:72008422T>A	uc001swo.2	-	30	5778	c.5419A>T	c.(5419-5421)AAA>TAA	p.K1807*		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	1807	HAT 5.				RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						GTAAAAAATTTGAATTCTTGA	0.338													64	202					0	0	1	0	0		A	72008422	A	A	72008422	4	1	151	1	0	0	0	0	0	1	0	0	17658	1821	63	5	574	5	ZFC3H1	12	72008422	Nonsense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	32181	72008422	61843473	2954	80119											
CAPS2	84698	broad.mit.edu	37	chr12	75685541	75685541	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttgaattgctttgaagAccagcctatcattggtttct	9	16	7	9	0	2	3	1	2	1	1	2	3	2	3	3	1	3	2	3	1	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:75685541A>G	uc001sxk.3	-	14	1477	c.1280T>C	c.(1279-1281)GTC>GCC	p.V427A	CAPS2_uc001sxm.3_Missense_Mutation_p.V195A|CAPS2_uc009zsa.2_Missense_Mutation_p.V17A|CAPS2_uc001sxi.3_Missense_Mutation_p.V163A|CAPS2_uc001sxj.3_Missense_Mutation_p.V338A|CAPS2_uc001sxl.3_Missense_Mutation_p.V408A	NM_032606	NP_115995	Q9BXY5	CAYP2_HUMAN	calcyphosine 2	427							calcium ion binding			ovary(2)	2						TGCTTTGAAGACCAGCCTATC	0.323													18	79					0	0	1	0	0		G	75685541	G	G	75685541	3	3	151	1	0	0	0	0	1	0	0	0	2641	275	10	3	413	3	CAPS2	12	75685541	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3677119	75685541	58166354	2955	80120											
E2F7	144455	broad.mit.edu	37	chr12	77440086	77440086	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcacatttacaatgtcAtagatgcgtctcctttccac	10	13	5	13	1	2	1	1	0	1	1	5	1	4	1	3	0	3	1	3	0	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:77440086A>G	uc001sym.3	-	5	797	c.561T>C	c.(559-561)TAT>TAC	p.Y187Y	E2F7_uc001syn.2_Silent_p.Y187Y	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	187	Potential.				cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						TTACAATGTCATAGATGCGTC	0.493													18	90					0	0	1	0	0		G	77440086	G	G	77440086	2	3	151	1	0	0	0	0	0	0	0	1	4878	224	8	3		3	E2F7	12	77440086	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1754545	77440086	56411809	2956	80121											
E2F7	144455	broad.mit.edu	37	chr12	77449892	77449892	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcggggccatccttgatcGatcaacaaatatattttcct	10	14	6	11	2	1	1	1	1	0	0	5	2	3	1	3	2	1	0	3	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:77449892G>A	uc001sym.3	-	3	348	c.112C>T	c.(112-114)CGA>TGA	p.R38*	E2F7_uc001syn.2_Nonsense_Mutation_p.R38*	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	38					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						ATCCTTGATCGATCAACAAAT	0.333													23	91					0	0	1	0	0		A	77449892	A	A	77449892	4	1	151	1	0	0	0	0	0	1	0	0	4878	1066	37	1	2667	1	E2F7	12	77449892	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	9806	77449892	56402003	2957	80122											
NAV3	89795	broad.mit.edu	37	chr12	78562562	78562562	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacttatagaactaagagaaAccattgaaatgctgaaggct	18	9	8	6	0	0	4	0	2	0	2	0	5	0	4	1	1	4	2	1	1	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:78562562A>G	uc001syp.2	+	24	5070	c.4897A>G	c.(4897-4899)ACC>GCC	p.T1633A	NAV3_uc001syo.2_Missense_Mutation_p.T1633A|NAV3_uc010sub.1_Missense_Mutation_p.T1119A|NAV3_uc009zsf.2_Missense_Mutation_p.T464A	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1633	Potential.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						ACTAAGAGAAACCATTGAAAT	0.408										HNSCC(70;0.22)			20	130					0	0	1	0	0		G	78562562	G	G	78562562	3	3	151	1	0	0	0	0	1	0	0	0	10203	43	2	3	4991	3	NAV3	12	78562562	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1112670	78562562	55289333	2958	80123											
LIN7A	8825	broad.mit.edu	37	chr12	81239535	81239535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttcactgatagcagctggtCtcctcttttgaggcctccgt	5	14	10	12	1	3	2	1	2	2	0	5	2	4	2	3	2	2	3	3	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:81239535C>T	uc001szj.1	-	4	650	c.457G>A	c.(457-459)GAC>AAC	p.D153N	LIN7A_uc001szk.1_RNA	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	153	PDZ.				exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						AGCAGCTGGTCTCCTCTTTTG	0.423													15	104					0	0	1	0	0		T	81239535	T	T	81239535	3	4	151	1	0	0	0	0	1	0	0	0	8827	913	32	4	252	4	LIN7A	12	81239535	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2676973	81239535	52612360	2959	80124											
PPFIA2	8499	broad.mit.edu	37	chr12	81675044	81675044	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaacacctaccgatggaaActatccaccatttttaaatg	17	10	4	10	1	0	0	0	0	0	0	1	2	1	1	4	1	3	0	4	1	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:81675044A>G	uc001szo.1	-	27	3365	c.3204T>C	c.(3202-3204)AGT>AGC	p.S1068S	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	967										ovary(3)|lung(2)|pancreas(1)	6						ACCGATGGAAACTATCCACCA	0.313													3	42					0	0	1	0	0		G	81675044	G	G	81675044	2	3	151	1	0	0	0	0	0	0	0	1	12329	40	2	3		3	PPFIA2	12	81675044	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	435509	81675044	52176851	2960	80125											
PPFIA2	8499	broad.mit.edu	37	chr12	81688654	81688654	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaaggacttgttagggaaAccatctcctggattgctaat	11	12	10	8	0	1	1	0	1	1	0	2	4	1	4	2	3	2	2	2	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:81688654A>G	uc001szo.1	-	24	3046	c.2885T>C	c.(2884-2886)GTT>GCT	p.V962A	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	888										ovary(3)|lung(2)|pancreas(1)	6						TGTTAGGGAAACCATCTCCTG	0.468													5	22					0	0	1	0	0		G	81688654	G	G	81688654	3	3	151	1	0	0	0	0	1	0	0	0	12329	43	2	3	924	3	PPFIA2	12	81688654	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	13610	81688654	52163241	2961	80126											
TMTC2	160335	broad.mit.edu	37	chr12	83290084	83290084	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatggcattaaaaacgatgTatcacagagaacccagcttc	17	8	7	9	1	1	1	1	0	0	1	2	3	1	1	1	1	3	3	1	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:83290084T>C	uc001szt.2	+	3	1574	c.1142T>C	c.(1141-1143)GTA>GCA	p.V381A	TMTC2_uc001szr.1_Missense_Mutation_p.V381A|TMTC2_uc001szs.1_Missense_Mutation_p.V381A|TMTC2_uc010suk.1_Missense_Mutation_p.V136A	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	381						endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						AAAAACGATGTATCACAGAGA	0.403													11	274					0	0	1	0	0		C	83290084	C	C	83290084	3	2	151	1	0	0	0	0	1	0	0	0	16286	1638	57	3	1152	3	TMTC2	12	83290084	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1601430	83290084	50561811	2962	80127											
SLC6A15	55117	broad.mit.edu	37	chr12	85279318	85279318	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccaatgatgacgttgtagTagagagctacaaaatagcac	16	8	10	7	1	0	3	0	2	0	1	0	4	0	3	1	0	4	5	1	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:85279318T>C	uc001szv.2	-	4	963	c.470A>G	c.(469-471)TAC>TGC	p.Y157C	SLC6A15_uc010sul.1_Missense_Mutation_p.Y50C|SLC6A15_uc001szy.2_Missense_Mutation_p.Y157C	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	157	Helical; Name=3; (Potential).				cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						GACGTTGTAGTAGAGAGCTAC	0.368													16	86					0	0	1	0	0		C	85279318	C	C	85279318	3	2	151	1	0	0	0	0	1	0	0	0	14703	1638	57	3	1872	3	SLC6A15	12	85279318	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1989234	85279318	48572577	2963	80128											
LRRIQ1	84125	broad.mit.edu	37	chr12	85439837	85439837	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaagaatttatgagaagtAaaaccgattgtgccactcct	16	10	8	7	1	0	3	0	1	0	3	1	5	1	3	3	0	2	1	3	0	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:85439837A>G	uc001tac.2	+	5	487	c.376A>G	c.(376-378)AAA>GAA	p.K126E	LRRIQ1_uc001tab.1_Missense_Mutation_p.K126E|LRRIQ1_uc001taa.1_Missense_Mutation_p.K126E|LRRIQ1_uc001tad.2_Missense_Mutation_p.K34E	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	126										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		TATGAGAAGTAAAACCGATTG	0.348													26	102					0	0	1	0	0		G	85439837	G	G	85439837	3	3	151	1	0	0	0	0	1	0	0	0	9047	363	13	3	390	3	LRRIQ1	12	85439837	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	160519	85439837	48412058	2964	80129											
C12orf29	91298	broad.mit.edu	37	chr12	88436611	88436611	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacttttttagatcagccatAcctttgggctcgactagata	10	15	7	9	1	1	2	1	0	0	2	2	3	1	2	2	1	3	1	2	1	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:88436611A>G	uc001tao.2	+	3	376	c.218A>G	c.(217-219)TAC>TGC	p.Y73C	C12orf29_uc001tap.2_RNA|C12orf29_uc009zsk.2_RNA	NM_001009894	NP_001009894	Q8N999	CL029_HUMAN	hypothetical protein LOC91298	73											0						GATCAGCCATACCTTTGGGCT	0.303													6	52					0	0	1	0	0		G	88436611	G	G	88436611	3	3	151	1	0	0	0	0	1	0	0	0	1683	391	14	3	228	3	C12orf29	12	88436611	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2996774	88436611	45415284	2965	80130											
KITLG	4254	broad.mit.edu	37	chr12	88939540	88939540	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacttaccaatttagtgaCgtcttttacattattagtca	11	18	4	8	1	2	1	1	1	1	0	2	1	2	1	1	0	3	0	1	0	7	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:88939540C>A	uc001tav.2	-	2	301	c.118G>T	c.(118-120)GTC>TTC	p.V40F	KITLG_uc001taw.2_Missense_Mutation_p.V40F	NM_000899	NP_000890	P21583	SCF_HUMAN	KIT ligand isoform b precursor	40	Extracellular (Potential).				cell adhesion|cell proliferation|hemopoiesis|male gonad development|positive regulation of DNA replication|signal transduction	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	growth factor activity|identical protein binding|stem cell factor receptor binding			ovary(1)	1						AATTTAGTGACGTCTTTTACA	0.373									Testicular_Cancer_Familial_Clustering_of				10	62					0.00829132	0.00834045	1	1	0		A	88939540	A	A	88939540	3	1	151	1	0	0	0	0	1	0	0	0	8346	536	19	5	735	5	KITLG	12	88939540	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	502929	88939540	44912355	2966	80131											
PLXNC1	10154	broad.mit.edu	37	chr12	94654559	94654559	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgagacgcacggagtcCgtcgtcgaaaaactcctcac	11	7	10	13	5	1	1	1	1	0	1	5	4	3	2	2	1	2	2	2	1	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:94654559C>T	uc001tdc.2	+	20	3642	c.3393C>T	c.(3391-3393)TCC>TCT	p.S1131S	PLXNC1_uc010sut.1_Silent_p.S178S|PLXNC1_uc009zsv.2_5'Flank	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1131	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						GCACGGAGTCCGTCGTCGAAA	0.512													12	51					0	0	1	0	0		T	94654559	T	T	94654559	2	4	151	1	0	0	0	0	0	0	0	1	12145	639	23	1		1	PLXNC1	12	94654559	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5715019	94654559	39197336	2967	80132											
FGD6	55785	broad.mit.edu	37	chr12	95488366	95488366	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaaaaaggagaaaacaatAcctcatcaagactcctacta	22	6	4	9	0	2	2	2	0	0	2	3	3	3	2	2	1	3	0	2	1	11	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:95488366A>G	uc001tdp.3	-	15	3824	c.3600_splice	c.e15+1	p.E1200_splice	FGD6_uc009zsx.2_Splice_Site_p.E333_splice|FGD6_uc001tdq.1_Splice_Site_p.E236_splice	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6						actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						AGAAAACAATACCTCATCAAG	0.373													44	119					0	0	1	0	0		G	95488366	G	G	95488366	5	3	151	1	0	0	0	0	0	0	1	0	5851	405	14	3	718	3	FGD6	12	95488366	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	833807	95488366	38363529	2968	80133											
FGD6	55785	broad.mit.edu	37	chr12	95546740	95546740	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctccttggcaatatgatgAactttacttttcattccatt	10	18	4	9	0	2	2	1	2	1	0	4	2	3	2	2	1	2	1	2	1	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:95546740A>G	uc001tdp.3	-	4	2840	c.2616T>C	c.(2614-2616)GTT>GTC	p.V872V	FGD6_uc009zsx.2_Silent_p.V5V	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	872	DH.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						CAATATGATGAACTTTACTTT	0.353													39	107					0	0	1	0	0		G	95546740	G	G	95546740	2	3	151	1	0	0	0	0	0	0	0	1	5851	233	9	3		3	FGD6	12	95546740	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	58374	95546740	38305155	2969	80134											
USP44	84101	broad.mit.edu	37	chr12	95927368	95927368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaactatttctattatggtcGactgagcgagcccttgtaaa	12	13	8	8	2	1	1	0	1	1	0	2	3	1	1	1	1	3	1	1	1	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:95927368G>A	uc001teg.2	-	2	809	c.665C>T	c.(664-666)TCG>TTG	p.S222L	USP44_uc001teh.2_Missense_Mutation_p.S222L|USP44_uc009zte.2_Missense_Mutation_p.S219L	NM_001042403	NP_001035862	Q9H0E7	UBP44_HUMAN	ubiquitin thiolesterase 44	222					anaphase|cell division|mitosis|negative regulation of mitotic anaphase-promoting complex activity|protein deubiquitination|regulation of spindle checkpoint|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)|breast(1)|central_nervous_system(1)	3						TATTATGGTCGACTGAGCGAG	0.403													39	136					0	0	1	0	0		A	95927368	A	A	95927368	3	1	151	1	0	0	0	0	1	0	0	0	17101	1059	37	1	1493	1	USP44	12	95927368	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	380628	95927368	37924527	2970	80135											
CCDC38	120935	broad.mit.edu	37	chr12	96263270	96263270	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacaaacctttttctttggTtgtgctactgctttttccag	8	18	6	9	0	1	0	0	0	1	0	2	0	2	0	2	1	5	3	2	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:96263270T>C	uc001tek.1	-	15	1800	c.1566A>G	c.(1564-1566)CAA>CAG	p.Q522Q		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	522	Potential.									skin(1)	1						TTTTCTTTGGTTGTGCTACTG	0.348													41	179					0	0	1	0	0		C	96263270	C	C	96263270	2	2	151	1	0	0	0	0	0	0	0	1	2813	1722	60	3		3	CCDC38	12	96263270	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	335902	96263270	37588625	2971	80136											
LTA4H	4048	broad.mit.edu	37	chr12	96407035	96407035	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacttgattgagaacatcaAcctatgaatagtaagaattc	17	11	6	7	0	1	4	1	3	0	2	2	5	1	4	1	0	3	1	1	0	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:96407035A>G	uc001ten.1	-	14	1378	c.1310T>C	c.(1309-1311)GTT>GCT	p.V437A	LTA4H_uc010suy.1_Missense_Mutation_p.V399A|LTA4H_uc010suz.1_Missense_Mutation_p.V399A|LTA4H_uc010sva.1_RNA|LTA4H_uc009ztj.2_RNA	NM_000895	NP_000886	P09960	LKHA4_HUMAN	leukotriene A4 hydrolase	437					hormone biosynthetic process|inflammatory response|leukotriene biosynthetic process|peptide catabolic process|prostanoid metabolic process|proteolysis	cytosol|nucleus	aminopeptidase activity|epoxide hydrolase activity|leukotriene-A4 hydrolase activity|metallopeptidase activity|protein binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(1)	1						GAGAACATCAACCTATGAATA	0.363													12	60					0	0	1	0	0		G	96407035	G	G	96407035	3	3	151	1	0	0	0	0	1	0	0	0	9087	57	2	3	549	3	LTA4H	12	96407035	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	143765	96407035	37444860	2972	80137											
FAM71C	196472	broad.mit.edu	37	chr12	100042499	100042499	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtggaggcttacagtgatAccagggctatcctagctggg	9	9	14	9	0	0	1	0	1	0	0	1	2	1	2	2	4	3	3	2	4	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:100042499A>G	uc001tgn.2	+	1	969	c.547A>G	c.(547-549)ACC>GCC	p.T183A	ANKS1B_uc001tge.1_Intron|ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Intron	NM_153364	NP_699195	Q8NEG0	FA71C_HUMAN	hypothetical protein LOC196472	183											0				OV - Ovarian serous cystadenocarcinoma(2;0.00733)|Epithelial(2;0.0385)|all cancers(2;0.19)		TTACAGTGATACCAGGGCTAT	0.512													10	24					0	0	1	0	0		G	100042499	G	G	100042499	3	3	151	1	0	0	0	0	1	0	0	0	5623	391	14	3	549	3	FAM71C	12	100042499	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3635464	100042499	33809396	2973	80138											
NR1H4	9971	broad.mit.edu	37	chr12	100930827	100930827	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcacaaaaaagctaccaggTattttttaaataatcaaagt	18	13	4	6	0	2	0	2	0	0	0	2	0	2	0	1	1	2	2	1	1	9	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:100930827T>C	uc001tht.1	+	6	989	c.961_splice	c.e6+2	p.G321_splice	NR1H4_uc001thp.1_Splice_Site_p.G307_splice|NR1H4_uc001thq.1_Splice_Site_p.G311_splice|NR1H4_uc010svj.1_Splice_Site|NR1H4_uc001thr.1_Splice_Site_p.G311_splice|NR1H4_uc010svk.1_Splice_Site_p.G260_splice|NR1H4_uc001ths.1_Splice_Site_p.G317_splice	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4						bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						AGCTACCAGGTATTTTTTAaa	0.174													31	157					0	0	1	0	0		C	100930827	C	C	100930827	5	2	151	1	0	0	0	0	0	0	1	0	10638	1652	57	3	943	3	NR1H4	12	100930827	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	888328	100930827	32921068	2974	80139											
ANO4	121601	broad.mit.edu	37	chr12	101336279	101336279	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagagaagtatttgaaagaaAcattagagcagaaggattgc	18	8	12	3	0	0	5	0	1	0	4	0	8	0	6	0	1	3	2	0	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:101336279A>G	uc010svm.1	+	5	994	c.422A>G	c.(421-423)AAC>AGC	p.N141S	ANO4_uc010svl.1_RNA|ANO4_uc001thw.2_Missense_Mutation_p.N106S|ANO4_uc001thx.2_Missense_Mutation_p.N141S	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	141	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						TTTGAAAGAAACATTAGAGCA	0.343										HNSCC(74;0.22)			46	191					0	0	1	0	0		G	101336279	G	G	101336279	3	3	151	1	0	0	0	0	1	0	0	0	699	43	2	3	327	3	ANO4	12	101336279	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	405452	101336279	32515616	2975	80140											
ANO4	121601	broad.mit.edu	37	chr12	101381332	101381332	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaggatcgataaacaaatAagcaggtttcggagatggtt	15	9	11	6	2	0	1	0	0	0	1	2	4	0	2	0	4	2	3	0	4	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:101381332A>G	uc010svm.1	+	8	1190	c.618A>G	c.(616-618)ATA>ATG	p.I206M	ANO4_uc010svl.1_RNA|ANO4_uc001thw.2_Missense_Mutation_p.I171M|ANO4_uc001thx.2_Missense_Mutation_p.I206M	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	206	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						ATAAACAAATAAGCAGGTTTC	0.517										HNSCC(74;0.22)	OREG0022059	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	105	398					0	0	1	0	0		G	101381332	G	G	101381332	3	3	151	1	0	0	0	0	1	0	0	0	699	352	13	3	535	3	ANO4	12	101381332	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	45053	101381332	32470563	2976	80141											
GNPTAB	79158	broad.mit.edu	37	chr12	102158613	102158613	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaatatttaccaggggaatTttcacctcttcctgggctct	9	14	8	10	0	3	0	1	0	2	0	4	2	4	1	3	3	1	1	3	3	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:102158613T>C	uc001tit.2	-	13	2261	c.2082A>G	c.(2080-2082)AAA>AAG	p.K694K		NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	694					cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						CCAGGGGAATTTTCACCTCTT	0.423													28	122					0	0	1	0	0		C	102158613	C	C	102158613	2	2	151	1	0	0	0	0	0	0	0	1	6560	1838	64	3		3	GNPTAB	12	102158613	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	777281	102158613	31693282	2977	80142											
PAH	5053	broad.mit.edu	37	chr12	103306669	103306669	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagttgtcttcaatatagCttgtttcctacaggataaga	11	15	8	7	0	2	1	1	0	1	1	3	2	3	2	1	1	3	4	1	1	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:103306669C>A	uc001tjq.1	-	3	540	c.68G>T	c.(67-69)AGC>ATC	p.S23I	PAH_uc010swc.1_Missense_Mutation_p.S23I	NM_000277	NP_000268	P00439	PH4H_HUMAN	phenylalanine hydroxylase	23					catecholamine biosynthetic process|L-phenylalanine catabolic process|neurotransmitter biosynthetic process	cytosol	phenylalanine 4-monooxygenase activity			ovary(4)	4					Epinephrine(DB00668)|L-Phenylalanine(DB00120)|Levodopa(DB01235)|Norepinephrine(DB00368)|Tetrahydrobiopterin(DB00360)	TTCAATATAGCTTGTTTCCTA	0.373													35	153					6.00712e-18	6.25708e-18	1	1	0		A	103306669	A	A	103306669	3	1	151	1	0	0	0	0	1	0	0	0	11413	797	28	5	1338	5	PAH	12	103306669	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1148056	103306669	30545226	2978	80143											
STAB2	55576	broad.mit.edu	37	chr12	104067847	104067847	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catccacgccacctgtgaatAcagcaatgggacagccaggt	12	6	10	13	1	0	1	0	1	0	0	1	2	1	2	4	2	3	1	4	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:104067847A>G	uc001tjw.2	+	23	2720	c.2534A>G	c.(2533-2535)TAC>TGC	p.Y845C		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	845	Extracellular (Potential).|EGF-like 7.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						ACCTGTGAATACAGCAATGGG	0.547													16	75					0	0	1	0	0		G	104067847	G	G	104067847	3	3	151	1	0	0	0	0	1	0	0	0	15263	391	14	3	2624	3	STAB2	12	104067847	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	761178	104067847	29784048	2979	80144											
HSP90B1	7184	broad.mit.edu	37	chr12	104340627	104340627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtttgaaacagcaacgcttCggtcagggtatcttttacca	10	13	9	9	2	2	1	1	1	1	0	3	1	2	1	1	2	4	4	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:104340627C>T	uc001tkb.1	+	16	2275	c.2170C>T	c.(2170-2172)CGG>TGG	p.R724W	HSP90B1_uc010swg.1_Missense_Mutation_p.R389W|HSP90B1_uc009zui.1_Intron	NM_003299	NP_003290	P14625	ENPL_HUMAN	heat shock protein 90kDa beta, member 1	724					actin rod assembly|anti-apoptosis|cellular response to ATP|ER-associated protein catabolic process|protein folding|protein transport|regulation of phosphoprotein phosphatase activity|response to hypoxia|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|melanosome|microsome|midbody|perinuclear region of cytoplasm	ATP binding|calcium ion binding|low-density lipoprotein particle receptor binding|protein phosphatase binding|RNA binding|unfolded protein binding|virion binding			ovary(2)|skin(1)	3					Rifabutin(DB00615)	AGCAACGCTTCGGTCAGGGTA	0.368													14	81					0	0	1	0	0		T	104340627	T	T	104340627	3	4	151	1	0	0	0	0	1	0	0	0	7419	875	31	1	2232	1	HSP90B1	12	104340627	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	272780	104340627	29511268	2980	80145											
GLT8D2	83468	broad.mit.edu	37	chr12	104388210	104388210	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaccaggattgaaagagcAggtgctggggctgatgccaa	12	6	14	9	0	0	3	0	2	0	1	0	4	0	4	2	4	3	3	2	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:104388210A>G	uc001tkh.1	-	9	1076	c.670T>C	c.(670-672)TGC>CGC	p.C224R	GLT8D2_uc001tki.1_Missense_Mutation_p.C224R	NM_031302	NP_112592	Q9H1C3	GL8D2_HUMAN	glycosyltransferase 8 domain containing 2	224	Lumenal (Potential).					integral to membrane	transferase activity, transferring glycosyl groups			ovary(1)|skin(1)	2						TTGAAAGAGCAGGTGCTGGGG	0.478													15	90					0	0	1	0	0		G	104388210	G	G	104388210	3	3	151	1	0	0	0	0	1	0	0	0	6485	188	7	3	391	3	GLT8D2	12	104388210	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	47583	104388210	29463685	2981	80146											
APPL2	55198	broad.mit.edu	37	chr12	105622983	105622983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcatcttcttcaaacaCgctcagtaaagagcgagtct	12	9	8	12	2	5	1	2	0	3	1	5	2	5	1	1	0	3	3	1	0	3	3	rs143353224		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:105622983C>T	uc001tlf.1	-	2	291	c.73G>A	c.(73-75)GTG>ATG	p.V25M	APPL2_uc010swt.1_Translation_Start_Site|APPL2_uc001tlg.1_Translation_Start_Site|APPL2_uc010swu.1_Missense_Mutation_p.V25M|APPL2_uc009zuq.2_Translation_Start_Site	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH	25	Required for RAB5A binding (By similarity).				cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1						TCTTCAAACACGCTCAGTAAA	0.502													7	30					0	0	1	0	0		T	105622983	T	T	105622983	3	4	151	1	0	0	0	0	1	0	0	0	818	536	19	1	2001	1	APPL2	12	105622983	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1234773	105622983	28228912	2982	80147											
CKAP4	10970	broad.mit.edu	37	chr12	106633587	106633587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcgagccgctccgtgtcggCcgcctccttgaaagcctgct	4	8	13	16	5	0	1	0	1	0	0	3	2	2	1	6	2	3	2	6	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:106633587C>T	uc001tlk.2	-	2	1108	c.1024G>A	c.(1024-1026)GCC>ACC	p.A342T		NM_006825	NP_006816	Q07065	CKAP4_HUMAN	cytoskeleton-associated protein 4	342	Potential.					ER-Golgi intermediate compartment membrane|integral to membrane|membrane fraction					0						TCCGTGTCGGCCGCCTCCTTG	0.637													5	25					0	0	1	0	0		T	106633587	T	T	106633587	3	4	151	1	0	0	0	0	1	0	0	0	3447	739	26	2	788	2	CKAP4	12	106633587	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1010604	106633587	27218308	2983	80148											
RIC8B	55188	broad.mit.edu	37	chr12	107208622	107208622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatatgcagatactgctgcGactagccaagctaaatgagt	15	9	9	8	1	0	2	0	1	0	1	0	3	0	2	1	0	6	3	1	0	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:107208622G>A	uc001tlx.2	+	3	406	c.281G>A	c.(280-282)CGA>CAA	p.R94Q	RIC8B_uc001tlw.2_Missense_Mutation_p.R94Q|RIC8B_uc001tly.2_Missense_Mutation_p.R54Q|RIC8B_uc001tlz.2_RNA	NM_018157	NP_060627	Q9NVN3	RIC8B_HUMAN	resistance to inhibitors of cholinesterase 8	94					regulation of G-protein coupled receptor protein signaling pathway	cell cortex|cytosol|plasma membrane	G-protein alpha-subunit binding|guanyl-nucleotide exchange factor activity			ovary(1)	1						ATACTGCTGCGACTAGCCAAG	0.398													36	129					0	0	1	0	0		A	107208622	A	A	107208622	3	1	151	1	0	0	0	0	1	0	0	0	13381	1058	37	1	291	1	RIC8B	12	107208622	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	575035	107208622	26643273	2984	80149											
CRY1	1407	broad.mit.edu	37	chr12	107386601	107386601	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctggactttaggaccaatActctgtgtgtcctcttcctg	6	15	8	12	0	3	0	0	0	3	0	5	2	5	2	3	2	1	0	3	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:107386601A>G	uc001tmi.3	-	12	2584	c.1725T>C	c.(1723-1725)AGT>AGC	p.S575S		NM_004075	NP_004066	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	575					DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			ovary(3)	3						TAGGACCAATACTCTGTGTGT	0.368													43	174					0	0	1	0	0		G	107386601	G	G	107386601	2	3	151	1	0	0	0	0	0	0	0	1	3906	388	14	3		3	CRY1	12	107386601	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	177979	107386601	26465294	2985	80150											
SART3	9733	broad.mit.edu	37	chr12	108941702	108941702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctcaaagaggtcatacaCgtgctctctgtccaggccat	9	12	8	12	1	3	1	2	0	2	1	6	1	4	1	2	2	2	1	2	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:108941702C>T	uc001tmz.1	-	3	740	c.505G>A	c.(505-507)GTG>ATG	p.V169M	SART3_uc009zux.1_Translation_Start_Site|SART3_uc010swx.1_Missense_Mutation_p.V169M|SART3_uc010swy.1_Missense_Mutation_p.V37M|SART3_uc010swz.1_Missense_Mutation_p.V169M|SART3_uc001tna.1_RNA	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	169	HAT 2.				RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						AGGTCATACACGTGCTCTCTG	0.463									Porokeratosis				10	59					0	0	1	0	0		T	108941702	T	T	108941702	3	4	151	1	0	0	0	0	1	0	0	0	13872	536	19	1	2454	1	SART3	12	108941702	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1555101	108941702	24910193	2986	80151											
USP30	84749	broad.mit.edu	37	chr12	109520724	109520724	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctgaagcggcatgagcAcgtgcagttcaatgagttcc	9	9	12	11	2	2	3	1	3	1	0	3	3	3	3	2	1	3	5	2	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:109520724A>G	uc010sxi.1	+	11	1129	c.1025A>G	c.(1024-1026)CAC>CGC	p.H342R	USP30_uc001tnu.3_Missense_Mutation_p.H311R|USP30_uc001tnw.3_Missense_Mutation_p.H59R	NM_032663	NP_116052	Q70CQ3	UBP30_HUMAN	ubiquitin specific peptidase 30	342	Cytoplasmic (Potential).				ubiquitin-dependent protein catabolic process	integral to membrane|mitochondrial outer membrane	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(1)	1						CGGCATGAGCACGTGCAGTTC	0.537													12	55					0	0	1	0	0		G	109520724	G	G	109520724	3	3	151	1	0	0	0	0	1	0	0	0	17087	159	6	3	1067	3	USP30	12	109520724	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	579022	109520724	24331171	2987	80152											
ACACB	32	broad.mit.edu	37	chr12	109685423	109685423	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttaagggatttaaatacCtgtacctgactccccaagac	12	13	6	10	0	0	2	0	1	0	1	1	3	1	3	4	1	2	1	4	1	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:109685423C>A	uc001tob.2	+	40	5703	c.5584C>A	c.(5584-5586)CTG>ATG	p.L1862M	ACACB_uc001toc.2_Missense_Mutation_p.L1862M|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.L528M	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1862	Carboxyltransferase.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	ATTTAAATACCTGTACCTGAC	0.423													27	166					5.61819e-17	5.8486e-17	1	1	0		A	109685423	A	A	109685423	3	1	151	1	0	0	0	0	1	0	0	0	107	680	24	5	5738	5	ACACB	12	109685423	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	164699	109685423	24166472	2988	80153											
KCTD10	83892	broad.mit.edu	37	chr12	109898554	109898554	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	taaaggcaccgccccgtctcGaaggtagttgagtatcgtac	10	9	11	11	4	1	1	0	1	1	0	3	2	1	1	3	2	1	5	3	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:109898554G>C	uc001toi.1	-	3	362	c.274C>G	c.(274-276)CGA>GGA	p.R92G	KCTD10_uc001toh.1_5'Flank|KCTD10_uc009zvi.1_Missense_Mutation_p.R89G|KCTD10_uc001toj.1_Missense_Mutation_p.R100G|KCTD10_uc001tok.1_Intron	NM_031954	NP_114160	Q9H3F6	BACD3_HUMAN	potassium channel tetramerisation domain	92	BTB.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0						GCCCCGTCTCGAAGGTAGTTG	0.597													8	57					0	0	1	0	0		C	109898554	C	C	109898554	3	2	151	1	0	0	0	0	1	0	0	0	8113	1066	37	5	687	5	KCTD10	12	109898554	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	213131	109898554	23953341	2989	80154											
TRPV4	59341	broad.mit.edu	37	chr12	110226519	110226519	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggttcaggagggagaccaGggctgtgggaggataggggt	8	6	22	5	1	1	1	1	0	0	1	1	5	1	4	1	8	0	2	1	8	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:110226519G>A	uc001tpj.1	-	12	1989	c.1894C>T	c.(1894-1896)CTG>TTG	p.L632L	TRPV4_uc001tpg.1_Silent_p.L598L|TRPV4_uc001tph.1_Silent_p.L585L|TRPV4_uc001tpi.1_Silent_p.L525L|TRPV4_uc001tpk.1_Silent_p.L632L|TRPV4_uc001tpl.1_Silent_p.L572L	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	632	Helical; (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						AGGGAGACCAGGGCTGTGGGA	0.453													17	73					0	0	1	0	0		A	110226519	A	A	110226519	2	1	151	1	0	0	0	0	0	0	0	1	16624	991	35	4		4	TRPV4	12	110226519	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	327965	110226519	23625376	2990	80155											
PPTC7	160760	broad.mit.edu	37	chr12	110989605	110989605	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacttaccgagcaaagggActttattttgcagcaactca	12	10	7	12	1	1	0	1	0	0	0	1	2	1	1	2	1	5	3	2	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:110989605A>G	uc001trh.1	-	2	620	c.392T>C	c.(391-393)GTC>GCC	p.V131A		NM_139283	NP_644812	Q8NI37	PPTC7_HUMAN	T-cell activation protein phosphatase 2C	131	PP2C-like.						metal ion binding|phosphoprotein phosphatase activity				0						GAGCAAAGGGACTTTATTTTG	0.408													57	218					0	0	1	0	0		G	110989605	G	G	110989605	3	3	151	1	0	0	0	0	1	0	0	0	12435	275	10	3	542	3	PPTC7	12	110989605	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	763086	110989605	22862290	2991	80156											
TCTN1	79600	broad.mit.edu	37	chr12	111057695	111057695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagtgtgacatcaactgctGctgtgatcccgactgcagct	9	10	10	12	1	1	2	1	2	0	0	2	3	2	2	1	0	5	4	1	0	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:111057695G>A	uc009zvs.2	+	2	383	c.275G>A	c.(274-276)TGC>TAC	p.C92Y	TCTN1_uc010syb.1_Missense_Mutation_p.C92Y|TCTN1_uc009zvr.1_RNA|TCTN1_uc001trl.2_RNA|TCTN1_uc001trm.2_Missense_Mutation_p.C32Y|TCTN1_uc010syc.1_RNA|TCTN1_uc001tro.2_RNA|TCTN1_uc001trp.3_Missense_Mutation_p.C92Y|TCTN1_uc001trn.3_Missense_Mutation_p.C92Y|TCTN1_uc001tri.2_Missense_Mutation_p.C36Y|TCTN1_uc001trj.1_Missense_Mutation_p.C36Y|TCTN1_uc001trk.3_RNA	NM_001082537	NP_001076006	Q2MV58	TECT1_HUMAN	tectonic family member 1 isoform 2	92	Cys-rich.				multicellular organismal development	extracellular region					0						ATCAACTGCTGCTGTGATCCC	0.473													9	179					0	0	1	0	0		A	111057695	A	A	111057695	3	1	151	1	0	0	0	0	1	0	0	0	15747	1319	46	2	381	2	TCTN1	12	111057695	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	68090	111057695	22794200	2992	80157											
CCDC63	160762	broad.mit.edu	37	chr12	111317711	111317711	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatggccctttcaacaggTcactgttcactttgacaaga	11	11	8	11	0	3	2	3	1	0	1	3	2	3	2	1	2	2	2	1	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:111317711T>C	uc001trv.1	+	6	686	c.491T>C	c.(490-492)GTC>GCC	p.V164A	CCDC63_uc009zvt.1_Intron|CCDC63_uc010sye.1_Missense_Mutation_p.V124A|CCDC63_uc001trw.1_Missense_Mutation_p.V79A	NM_152591	NP_689804	Q8NA47	CCD63_HUMAN	coiled-coil domain containing 63	164	Potential.									skin(6)|ovary(1)|pancreas(1)	8						TTTCAACAGGTCACTGTTCAC	0.473													65	207					0	0	1	0	0		C	111317711	C	C	111317711	3	2	151	1	0	0	0	0	1	0	0	0	2837	1681	58	3	509	3	CCDC63	12	111317711	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	260016	111317711	22534184	2993	80158											
MYL2	4633	broad.mit.edu	37	chr12	111356998	111356998	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttgctttcttaggtgcCtgggggaaaaaagcatcgat	9	14	11	7	1	2	0	0	0	2	0	3	2	2	1	1	3	3	2	1	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:111356998C>A	uc001try.3	-	2	75	c.4_splice	c.e2-1	p.A2_splice	MYL2_uc001trx.3_Translation_Start_Site	NM_000432	NP_000423	P10916	MLRV_HUMAN	slow cardiac myosin regulatory light chain 2						cardiac myofibril assembly|heart contraction|muscle filament sliding|negative regulation of cell growth|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	cytosol|myosin complex|sarcomere	actin monomer binding|calcium ion binding|myosin heavy chain binding|structural constituent of muscle			ovary(1)	1						TCTTAGGTGCCTGGGGGAAAA	0.517													12	48					5.50884e-06	5.58596e-06	1	1	0		A	111356998	A	A	111356998	5	1	151	1	0	0	0	0	0	0	1	0	10065	695	24	5	521	5	MYL2	12	111356998	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	39287	111356998	22494897	2994	80159											
ACAD10	80724	broad.mit.edu	37	chr12	112193508	112193508	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagccatgattaaaatggtcGccccgtccatggcctcccga	9	9	9	14	3	0	1	0	1	0	0	3	2	2	1	6	2	1	0	6	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:112193508G>A	uc001tsq.2	+	20	3198	c.2998G>A	c.(2998-3000)GCC>ACC	p.A1000T	ACAD10_uc009zvx.2_Missense_Mutation_p.A1031T|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	1000							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						TAAAATGGTCGCCCCGTCCAT	0.527													33	98					0	0	1	0	0		A	112193508	A	A	112193508	3	1	151	1	0	0	0	0	1	0	0	0	108	1087	38	1	3169	1	ACAD10	12	112193508	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	836510	112193508	21658387	2995	80160											
MAPKAPK5	8550	broad.mit.edu	37	chr12	112305379	112305379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctgttctctttaaggtaCgtctgcacatgatgtgtgcc	6	15	9	11	1	3	1	0	1	3	0	4	1	3	1	2	1	3	3	2	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:112305379C>T	uc001tta.2	+	4	449	c.190C>T	c.(190-192)CGT>TGT	p.R64C	MAPKAPK5_uc001tsz.2_Missense_Mutation_p.R64C|MAPKAPK5_uc001ttb.2_Translation_Start_Site	NM_139078	NP_620777	Q8IW41	MAPK5_HUMAN	MAP kinase-activated protein kinase 5 isoform 2	64	Protein kinase.				signal transduction	cytoplasm|nucleus	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)	3						CTTTAAGGTACGTCTGCACAT	0.403													38	196					0	0	1	0	0		T	112305379	T	T	112305379	3	4	151	1	0	0	0	0	1	0	0	0	9309	536	19	1	204	1	MAPKAPK5	12	112305379	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	111871	112305379	21546516	2996	80161											
ERP29	10961	broad.mit.edu	37	chr12	112460247	112460247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ataacctctcaagtgtgaagGagactcagaagaagtgggcc	14	7	12	8	0	2	4	2	1	1	3	3	5	2	4	2	2	1	0	2	2	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:112460247G>A	uc001ttk.1	+	3	695	c.577G>A	c.(577-579)GAG>AAG	p.E193K	ERP29_uc001ttl.1_3'UTR	NM_006817	NP_006808	P30040	ERP29_HUMAN	endoplasmic reticulum protein 29 isoform 1	193					intracellular protein transport|protein folding|protein secretion	endoplasmic reticulum lumen|melanosome	protein disulfide isomerase activity				0						AAGTGTGAAGGAGACTCAGAA	0.572													15	63					0	0	1	0	0		A	112460247	A	A	112460247	3	1	151	1	0	0	0	0	1	0	0	0	5250	1175	41	4	587	4	ERP29	12	112460247	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	154868	112460247	21391648	2997	80162											
RPH3A	22895	broad.mit.edu	37	chr12	113306354	113306354	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgagcctgctgcccctgaAcagcctgctcctgagcccaa	8	7	10	16	0	0	3	0	3	0	0	1	3	1	3	6	0	7	2	6	0	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:113306354A>G	uc010syl.1	+	8	926	c.564A>G	c.(562-564)GAA>GAG	p.E188E	RPH3A_uc001ttz.2_Silent_p.E188E|RPH3A_uc001tty.2_Silent_p.E184E|RPH3A_uc009zwe.1_Silent_p.E184E|RPH3A_uc010sym.1_Silent_p.E139E|RPH3A_uc001tua.2_5'UTR	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	188	Pro-rich.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		CTGCCCCTGAACAGCCTGCTC	0.577													11	41					0	0	1	0	0		G	113306354	G	G	113306354	2	3	151	1	0	0	0	0	0	0	0	1	13576	40	2	3		3	RPH3A	12	113306354	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	846107	113306354	20545541	2998	80163											
OAS1	4938	broad.mit.edu	37	chr12	113354471	113354471	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaccagcaactctgcatctActggacaaagtattatgact	13	11	6	11	0	2	1	0	1	2	0	2	2	2	2	1	1	5	3	1	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:113354471A>G	uc001tud.2	+	4	918	c.812A>G	c.(811-813)TAC>TGC	p.Y271C	OAS1_uc010syn.1_Missense_Mutation_p.Y270C|OAS1_uc010syo.1_3'UTR|OAS1_uc001tub.2_Missense_Mutation_p.Y271C|OAS1_uc001tuc.2_Missense_Mutation_p.Y271C|OAS1_uc009zwf.2_Missense_Mutation_p.Y270C	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	271					interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						CTCTGCATCTACTGGACAAAG	0.453													24	145					0	0	1	0	0		G	113354471	G	G	113354471	3	3	151	1	0	0	0	0	1	0	0	0	10818	391	14	3	826	3	OAS1	12	113354471	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	48117	113354471	20497424	2999	80164											
DTX1	1840	broad.mit.edu	37	chr12	113532900	113532900	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctacggggagaagacgggTacgcagccgcctgggaagat	11	5	16	9	4	1	3	0	0	1	3	1	5	1	4	2	4	3	2	2	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:113532900T>C	uc001tuk.1	+	7	1776	c.1440T>C	c.(1438-1440)GGT>GGC	p.G480G		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	480					negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						AGAAGACGGGTACGCAGCCGC	0.647													11	45					0	0	1	0	0		C	113532900	C	C	113532900	2	2	151	1	0	0	0	0	0	0	0	1	4799	1625	57	3		3	DTX1	12	113532900	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	178429	113532900	20318995	3000	80165											
DDX54	79039	broad.mit.edu	37	chr12	113612693	113612693	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctcaccttcagctgctcgTtgagcttggtatccacgtca	6	12	9	14	2	3	1	3	1	0	0	5	1	4	1	3	1	3	5	3	1	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:113612693T>C	uc001tup.2	-	9	951	c.923A>G	c.(922-924)AAC>AGC	p.N308S	DDX54_uc001tuq.3_Missense_Mutation_p.N308S	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	308					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						CAGCTGCTCGTTGAGCTTGGT	0.627											OREG0022139	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	10					0	0	1	0	0		C	113612693	C	C	113612693	3	2	151	1	0	0	0	0	1	0	0	0	4375	1725	60	3	1773	3	DDX54	12	113612693	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	79793	113612693	20239202	3001	80166											
IQCD	115811	broad.mit.edu	37	chr12	113645894	113645894	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcagctggccttttagaTgggtctgtctttggccctat	5	15	12	9	0	3	1	1	0	2	1	3	2	3	2	2	4	1	1	2	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:113645894T>C	uc001tuv.1	-	2	500	c.78A>G	c.(76-78)CCA>CCG	p.P26P	IQCD_uc001tuu.2_Silent_p.P26P	NM_138451	NP_612460	Q96DY2	IQCD_HUMAN	IQ motif containing D	26										ovary(1)	1						GCCTTTTAGATGGGTCTGTCT	0.517													7	246					0	0	1	0	0		C	113645894	C	C	113645894	2	2	151	1	0	0	0	0	0	0	0	1	7821	1451	51	3		3	IQCD	12	113645894	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	33201	113645894	20206001	3002	80167											
TPCN1	53373	broad.mit.edu	37	chr12	113723763	113723763	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacttgtcttccggatggaActtgtgagtggacagcatgt	8	13	13	7	1	1	1	0	1	1	0	2	4	2	4	1	3	3	2	1	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:113723763A>G	uc001tuw.2	+	18	1820	c.1523A>G	c.(1522-1524)AAC>AGC	p.N508S	TPCN1_uc001tux.2_Missense_Mutation_p.N580S|TPCN1_uc010syt.1_Missense_Mutation_p.N440S	NM_017901	NP_060371	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1 isoform 2	508	Helical; Name=S3 of repeat II; (Potential).					endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated ion channel activity			skin(2)|ovary(1)	3						TCCGGATGGAACTTGTGAGTG	0.567													15	104					0	0	1	0	0		G	113723763	G	G	113723763	3	3	151	1	0	0	0	0	1	0	0	0	16421	43	2	3	1809	3	TPCN1	12	113723763	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	77869	113723763	20128132	3003	80168											
TPCN1	53373	broad.mit.edu	37	chr12	113730874	113730874	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctctcccagatggagagatAccaggtgaggagcccaggcc	10	5	13	13	0	1	3	0	1	1	2	2	6	1	5	5	4	2	0	5	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:113730874A>G	uc001tuw.2	+	26	2546	c.2249A>G	c.(2248-2250)TAC>TGC	p.Y750C	TPCN1_uc001tux.2_Missense_Mutation_p.Y822C|TPCN1_uc010syu.1_5'Flank	NM_017901	NP_060371	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1 isoform 2	750	Cytoplasmic (Potential).					endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated ion channel activity			skin(2)|ovary(1)	3						ATGGAGAGATACCAGGTGAGG	0.587													3	60					0	0	1	0	0		G	113730874	G	G	113730874	3	3	151	1	0	0	0	0	1	0	0	0	16421	391	14	3	2567	3	TPCN1	12	113730874	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	7111	113730874	20121021	3004	80169											
RBM19	9904	broad.mit.edu	37	chr12	114397151	114397151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcattcgcccaagtggctGcctgcgcccgcctctgatga	6	9	10	16	3	2	2	1	2	1	0	3	2	2	2	4	1	2	1	4	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:114397151G>A	uc009zwi.2	-	5	581	c.437C>T	c.(436-438)GCA>GTA	p.A146V	RBM19_uc001tvn.3_Missense_Mutation_p.A146V|RBM19_uc001tvm.2_Missense_Mutation_p.A146V	NM_001146699	NP_001140171	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	146					multicellular organismal development|positive regulation of embryonic development	chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|RNA binding			skin(3)|ovary(1)|liver(1)|central_nervous_system(1)	6	Medulloblastoma(191;0.163)|all_neural(191;0.178)					CCAAGTGGCTGCCTGCGCCCG	0.597													9	21					0	0	1	0	0		A	114397151	A	A	114397151	3	1	151	1	0	0	0	0	1	0	0	0	13146	1319	46	2	2525	2	RBM19	12	114397151	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	666277	114397151	19454744	3005	80170											
TBX5	6910	broad.mit.edu	37	chr12	114841604	114841604	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacggggacttgctgggggCcccgagcgcgctctcgggtt	3	7	18	13	6	1	0	0	0	1	0	2	3	1	1	2	5	2	3	2	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:114841604C>G	uc001tvo.2	-	2	595	c.100G>C	c.(100-102)GCC>CCC	p.A34P	TBX5_uc001tvp.2_Missense_Mutation_p.A34P|TBX5_uc001tvq.2_Intron|TBX5_uc010syv.1_Missense_Mutation_p.A34P	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	34				GFGLAHTPLEPDAKDLPCDSKPESALGAPSKSPSSPQAAFT QQ -> ALAGAHLWSLTQKTCLRFEPRARSGPPASPPGRPR SRLHPA (in Ref. 1; CAA70592).	cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		TTGCTGGGGGCCCCGAGCGCG	0.657													21	46					0	0	1	0	0		G	114841604	G	G	114841604	3	3	151	1	0	0	0	0	1	0	0	0	15686	739	26	5	1555	5	TBX5	12	114841604	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	444453	114841604	19010291	3006	80171											
TBX3	6926	broad.mit.edu	37	chr12	115117308	115117308	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggaaagccccttgagtttAccttatcattctggtatgca	11	13	8	9	0	2	1	1	1	1	0	2	2	2	2	3	2	3	3	3	2	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:115117308A>G	uc001tvt.1	-	4	1828	c.864_splice	c.e4+1	p.K288_splice	TBX3_uc001tvu.1_Splice_Site_p.K268_splice	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2						anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		CCTTGAGTTTACCTTATCATT	0.413													38	130					0	0	1	0	0		G	115117308	G	G	115117308	5	3	151	1	0	0	0	0	0	0	1	0	15684	405	14	3	1385	3	TBX3	12	115117308	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	275704	115117308	18734587	3007	80172											
MED13L	23389	broad.mit.edu	37	chr12	116457117	116457117	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccaagcccttgctgcccAactgcaatgtggcctccagc	8	8	8	17	0	0	0	0	0	0	0	1	0	1	0	5	1	7	2	5	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:116457117A>G	uc001tvw.2	-	7	976	c.921T>C	c.(919-921)GTT>GTC	p.V307V		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	307					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		CTTGCTGCCCAACTGCAATGT	0.532													15	105					0	0	1	0	0		G	116457117	G	G	116457117	2	3	151	1	0	0	0	0	0	0	0	1	9449	117	5	3		3	MED13L	12	116457117	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1339809	116457117	17394778	3008	80173											
NOS1	4842	broad.mit.edu	37	chr12	117723943	117723943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actggatcctgcccacacagCgcgaggcattccgccaggcg	8	5	12	16	4	0	0	0	0	0	0	2	2	2	1	4	3	2	1	4	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:117723943C>T	uc001twm.1	-	6	1942	c.1256G>A	c.(1255-1257)CGC>CAC	p.R419H		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	419					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GCCCACACAGCGCGAGGCATT	0.557													23	95					0	0	1	0	0		T	117723943	T	T	117723943	3	4	151	1	0	0	0	0	1	0	0	0	10560	768	27	1	3144	1	NOS1	12	117723943	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1266826	117723943	16127952	3009	80174											
KSR2	283455	broad.mit.edu	37	chr12	117962945	117962945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctggccttgcgtgggaagCtccgggccgagaggagggac	6	5	20	10	3	0	1	0	0	0	1	1	5	1	4	3	6	2	2	3	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:117962945C>T	uc001two.2	-	14	1899	c.1844G>A	c.(1843-1845)AGC>AAC	p.S615N		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	644					intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GCGTGGGAAGCTCCGGGCCGA	0.587													3	54					0	0	1	0	0		T	117962945	T	T	117962945	3	4	151	1	0	0	0	0	1	0	0	0	8598	797	28	2	949	2	KSR2	12	117962945	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	239002	117962945	15888950	3010	80175											
TAOK3	51347	broad.mit.edu	37	chr12	118590074	118590074	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcagagacactctctgctcTagcttctggagctcacgttc	7	11	9	14	2	4	1	1	0	3	1	6	3	4	2	0	1	3	5	0	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:118590074T>C	uc001twx.2	-	20	2788	c.2493A>G	c.(2491-2493)CTA>CTG	p.L831L	TAOK3_uc001twv.2_Silent_p.L371L|TAOK3_uc001tww.2_Silent_p.L661L|TAOK3_uc001twy.3_Silent_p.L831L	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	831	Potential.				MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTCTCTGCTCTAGCTTCTGGA	0.562													22	109					0	0	1	0	0		C	118590074	C	C	118590074	2	2	151	1	0	0	0	0	0	0	0	1	15574	1509	53	3		3	TAOK3	12	118590074	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	627129	118590074	15261821	3011	80176											
CIT	11113	broad.mit.edu	37	chr12	120142198	120142198	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtatttgctgaggttttcGttgtagcggagaatgacgac	9	13	13	6	3	0	3	0	2	0	1	1	5	0	3	0	2	2	5	0	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:120142198G>A	uc001txi.1	-	40	5201	c.5148C>T	c.(5146-5148)AAC>AAT	p.N1716N	CIT_uc001txh.1_Silent_p.N1235N|CIT_uc001txj.1_Silent_p.N1758N	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1716	CNH.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		TGAGGTTTTCGTTGTAGCGGA	0.512													8	52					0	0	1	0	0		A	120142198	A	A	120142198	2	1	151	1	0	0	0	0	0	0	0	1	3441	1136	40	1		1	CIT	12	120142198	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1552124	120142198	13709697	3012	80177											
GCN1L1	10985	broad.mit.edu	37	chr12	120567101	120567101	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaaacacctcttcaccctgCcgcatcttgaggaggttgac	9	10	9	13	1	3	3	1	3	2	0	3	4	3	4	3	2	2	2	3	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:120567101C>T	uc001txo.2	-	57	7882	c.7869G>A	c.(7867-7869)CGG>CGA	p.R2623R		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	2623	HEAT 24.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTTCACCCTGCCGCATCTTGA	0.517													52	176					0	0	1	0	0		T	120567101	T	T	120567101	2	4	151	1	0	0	0	0	0	0	0	1	6314	726	26	2		2	GCN1L1	12	120567101	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	424903	120567101	13284794	3013	80178											
GCN1L1	10985	broad.mit.edu	37	chr12	120575062	120575062	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcctttgctctcgttccctAtgagccggatttccttgtgc	3	15	9	14	3	1	1	0	1	1	0	4	2	3	2	4	1	3	2	4	1	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:120575062A>G	uc001txo.2	-	50	6738	c.6725T>C	c.(6724-6726)ATA>ACA	p.I2242T		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	2242					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTCGTTCCCTATGAGCCGGAT	0.572													31	144					0	0	1	0	0		G	120575062	G	G	120575062	3	3	151	1	0	0	0	0	1	0	0	0	6314	449	16	3	1326	3	GCN1L1	12	120575062	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	7961	120575062	13276833	3014	80179											
GCN1L1	10985	broad.mit.edu	37	chr12	120593173	120593173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgcctcatgatagatcaCgtcgtcaatcagcaaggagc	12	7	10	12	3	4	2	4	1	0	1	5	3	4	3	2	1	3	1	2	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:120593173C>T	uc001txo.2	-	30	3515	c.3502G>A	c.(3502-3504)GTG>ATG	p.V1168M		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	1168					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGATAGATCACGTCGTCAATC	0.602													16	71					0	0	1	0	0		T	120593173	T	T	120593173	3	4	151	1	0	0	0	0	1	0	0	0	6314	536	19	1	4629	1	GCN1L1	12	120593173	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	18111	120593173	13258722	3015	80180											
RPLP0	6175	broad.mit.edu	37	chr12	120635190	120635190	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggactcgtttgtacccgtTgatgatagaatggggtactg	9	12	13	7	2	0	3	0	2	0	1	1	4	0	4	1	3	2	4	1	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:120635190T>C	uc001txp.2	-	7	964	c.727A>G	c.(727-729)AAC>GAC	p.N243D	GCN1L1_uc001txo.2_5'Flank|RPLP0_uc001txq.2_Missense_Mutation_p.N243D|RPLP0_uc001txr.2_Missense_Mutation_p.N181D	NM_053275	NP_444505	P05388	RLA0_HUMAN	ribosomal protein P0	243					endocrine pancreas development|interspecies interaction between organisms|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleus	protein binding|RNA binding|structural constituent of ribosome			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TTGTACCCGTTGATGATAGAA	0.512													14	44					0	0	1	0	0		C	120635190	C	C	120635190	3	2	151	1	0	0	0	0	1	0	0	0	13629	1812	63	3	234	3	RPLP0	12	120635190	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	42017	120635190	13216705	3016	80181											
RNF34	80196	broad.mit.edu	37	chr12	121858092	121858092	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaagatgatgatgacgaCgatgatgaggatgatgatga	16	8	14	3	2	0	10	0	8	0	2	0	13	0	11	0	1	0	0	0	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:121858092C>T	uc001ual.1	+	4	795	c.681C>T	c.(679-681)GAC>GAT	p.D227D	RNF34_uc001uak.1_Silent_p.D228D|RNF34_uc001uam.1_Silent_p.D227D	NM_025126	NP_079402	Q969K3	RNF34_HUMAN	ring finger protein 34 isoform 2	227	Asp-rich.				apoptosis	endomembrane system|membrane|nuclear speck	ligase activity|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000432)|Epithelial(86;0.00233)		atgatgacgacgatgatgagg	0.338													9	21					0	0	1	0	0		T	121858092	T	T	121858092	2	4	151	1	0	0	0	0	0	0	0	1	13514	535	19	1		1	RNF34	12	121858092	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1222902	121858092	11993803	3017	80182											
ZCCHC8	55596	broad.mit.edu	37	chr12	122958303	122958303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactgccattatcaagaaggGcaccttcagtgtttaccgga	11	10	9	11	1	2	1	2	0	0	1	2	2	2	2	3	2	2	2	3	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:122958303G>A	uc001ucn.2	-	14	1996	c.1865C>T	c.(1864-1866)GCC>GTC	p.A622V	ZCCHC8_uc001ucl.2_Missense_Mutation_p.A233V|ZCCHC8_uc001ucm.2_Missense_Mutation_p.A384V|ZCCHC8_uc009zxp.2_Missense_Mutation_p.A384V|ZCCHC8_uc009zxq.2_Missense_Mutation_p.A384V	NM_017612	NP_060082	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	622						catalytic step 2 spliceosome	nucleic acid binding|protein binding|zinc ion binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.25e-05)|Epithelial(86;0.000113)|BRCA - Breast invasive adenocarcinoma(302;0.202)		ATCAAGAAGGGCACCTTCAGT	0.498													18	286					0	0	1	0	0		A	122958303	A	A	122958303	3	1	151	1	0	0	0	0	1	0	0	0	17619	1203	42	2	262	2	ZCCHC8	12	122958303	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1100211	122958303	10893592	3018	80183											
RSRC2	65117	broad.mit.edu	37	chr12	123005956	123005956	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttctgctccggctcctGtgttttcttccttcattatc	2	20	6	13	1	3	0	1	0	2	0	7	0	6	0	3	1	2	4	3	1	1	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:123005956G>A	uc001ucr.2	-	3	329	c.183C>T	c.(181-183)CAC>CAT	p.H61H	RSRC2_uc001uco.2_5'UTR|RSRC2_uc001ucp.2_5'UTR|RSRC2_uc001ucq.2_5'UTR|RSRC2_uc001ucs.2_5'UTR|RSRC2_uc001uct.2_Missense_Mutation_p.T6I|RSRC2_uc001ucu.2_Silent_p.H61H	NM_023012	NP_075388	Q7L4I2	RSRC2_HUMAN	arginine/serine-rich coiled-coil 2 isoform a	61	Ser-rich.									ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.14e-05)|Epithelial(86;0.000183)|BRCA - Breast invasive adenocarcinoma(302;0.201)		TCCGGCTCCTGTGTTTTCTTC	0.308													23	91					0	0	1	0	0		A	123005956	A	A	123005956	2	1	151	1	0	0	0	0	0	0	0	1	13740	1368	48	4		4	RSRC2	12	123005956	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	47653	123005956	10845939	3019	80184											
KNTC1	9735	broad.mit.edu	37	chr12	123060422	123060422	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctatggaataagagaggtAaatctcttaaacaaggaaat	18	9	10	4	0	1	1	0	0	1	1	2	4	1	3	0	4	1	2	0	4	9	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:123060422A>G	uc001ucv.2	+	29	2725	c.2562A>G	c.(2560-2562)GTA>GTG	p.V854V	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	854					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		TAAGAGAGGTAAATCTCTTAA	0.318													9	33					0	0	1	0	0		G	123060422	G	G	123060422	2	3	151	1	0	0	0	0	0	0	0	1	8444	349	13	3		3	KNTC1	12	123060422	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	54466	123060422	10791473	3020	80185											
KNTC1	9735	broad.mit.edu	37	chr12	123099602	123099602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgacctgcagctttggaatgGactcttgcaaaagcttctgg	9	12	11	9	0	2	1	0	1	2	0	2	3	2	3	1	3	4	4	1	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:123099602G>A	uc001ucv.2	+	56	6105	c.5942G>A	c.(5941-5943)GGA>GAA	p.G1981E	KNTC1_uc010taf.1_Missense_Mutation_p.G906E	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	1981					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		CTTTGGAATGGACTCTTGCAA	0.383													7	26					0	0	1	0	0		A	123099602	A	A	123099602	3	1	151	1	0	0	0	0	1	0	0	0	8444	1174	41	4	6160	4	KNTC1	12	123099602	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	39180	123099602	10752293	3021	80186											
SBNO1	55206	broad.mit.edu	37	chr12	123806165	123806165	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgtttttagagctctcaTagtcactttcttcattatca	9	19	4	9	0	6	1	5	0	2	1	7	1	6	1	0	0	1	2	0	0	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:123806165T>C	uc010tap.1	-	16	2240	c.2240A>G	c.(2239-2241)TAT>TGT	p.Y747C	SBNO1_uc010tao.1_Missense_Mutation_p.Y746C|SBNO1_uc010taq.1_Intron|SBNO1_uc001uet.2_Missense_Mutation_p.Y747C|SBNO1_uc001ueu.2_Missense_Mutation_p.Y746C|SBNO1_uc001uev.2_Missense_Mutation_p.Y745C|SBNO1_uc009zxy.1_Missense_Mutation_p.Y712C	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	747							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		AGAGCTCTCATAGTCACTTTC	0.393													37	141					0	0	1	0	0		C	123806165	C	C	123806165	3	2	151	1	0	0	0	0	1	0	0	0	13887	1406	49	3	2005	3	SBNO1	12	123806165	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	706563	123806165	10045730	3022	80187											
DDX55	57696	broad.mit.edu	37	chr12	124102328	124102328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcgtgcatcgctgcggtcGcacagctcgcattggccacg	5	9	12	15	6	0	0	0	0	0	0	4	0	0	0	1	2	3	5	1	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:124102328G>A	uc001ufi.2	+	11	1097	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H	DDX55_uc001ufh.2_Missense_Mutation_p.R211H|DDX55_uc001ufj.1_Missense_Mutation_p.R211H|DDX55_uc001ufk.2_Missense_Mutation_p.R211H|DDX55_uc001ufl.2_5'Flank	NM_020936	NP_065987	Q8NHQ9	DDX55_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 55	358	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000142)|Epithelial(86;0.000637)|all cancers(50;0.00772)		CGCTGCGGTCGCACAGCTCGC	0.507													26	109					0	0	1	0	0		A	124102328	A	A	124102328	3	1	151	1	0	0	0	0	1	0	0	0	4376	1087	38	1	1115	1	DDX55	12	124102328	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	296163	124102328	9749567	3023	80188											
DNAH10	196385	broad.mit.edu	37	chr12	124330240	124330240	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagacgtcttccacaaagcGcaaaaaggggagaagcaggc	16	3	13	9	2	1	2	0	0	1	2	2	4	2	2	1	3	2	2	1	3	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:124330240G>A	uc001uft.3	+	30	5125	c.5100G>A	c.(5098-5100)GCG>GCA	p.A1700A		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1700	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TCCACAAAGCGCAAAAAGGGG	0.562													16	37					0	0	1	0	0		A	124330240	A	A	124330240	2	1	151	1	0	0	0	0	0	0	0	1	4604	1074	38	1		1	DNAH10	12	124330240	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	227912	124330240	9521655	3024	80189											
DNAH10	196385	broad.mit.edu	37	chr12	124352477	124352477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttagccaagatgttggatGcgttgctagaaggagaaata	14	10	13	4	1	0	3	0	0	0	3	0	5	0	4	1	2	3	4	1	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:124352477G>A	uc001uft.3	+	42	7001	c.6976G>A	c.(6976-6978)GCG>ACG	p.A2326T		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2326					microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GATGTTGGATGCGTTGCTAGA	0.502													11	35					0	0	1	0	0		A	124352477	A	A	124352477	3	1	151	1	0	0	0	0	1	0	0	0	4604	1319	46	2	7142	2	DNAH10	12	124352477	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	22237	124352477	9499418	3025	80190											
ZNF664	144348	broad.mit.edu	37	chr12	124496699	124496699	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaataggaaaaatgatctAcaagtgccccatgtgtaggg	15	8	10	8	0	1	1	0	1	1	0	1	2	1	2	3	2	2	1	3	2	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:124496699A>G	uc001ufz.2	+	6	1838	c.8A>G	c.(7-9)TAC>TGC	p.Y3C	ZNF664_uc001uga.2_Missense_Mutation_p.Y3C|ZNF664_uc001ugb.2_Missense_Mutation_p.Y3C	NM_152437	NP_689650	Q8N3J9	ZN664_HUMAN	zinc finger protein 664	3	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.000239)|OV - Ovarian serous cystadenocarcinoma(86;0.000247)|all cancers(50;0.00155)|BRCA - Breast invasive adenocarcinoma(302;0.249)		AAAATGATCTACAAGTGCCCC	0.368													6	138					0	0	1	0	0		G	124496699	G	G	124496699	3	3	151	1	0	0	0	0	1	0	0	0	18097	391	14	3	10	3	ZNF664	12	124496699	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	144222	124496699	9355196	3026	80191											
DHX37	57647	broad.mit.edu	37	chr12	125432358	125432358	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtttctggtcagtggacaGtggtggggggccaggctttc	5	11	18	7	0	2	0	1	0	1	0	3	1	2	1	1	8	0	2	1	8	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:125432358G>T	uc001ugy.2	-	27	3563	c.3464C>A	c.(3463-3465)ACT>AAT	p.T1155N	DHX37_uc001ugz.1_3'UTR	NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	1155				YLLAEYCEWLPQAMHPDIEKAWPPTTVH -> CEFDQGQGV GVDRMGSLRQGLCALCTVSPGLAEGSGPTAAGQLFAT (in Ref. 2).			ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		TCAGTGGACAGTGGTGGGGGG	0.637													5	15					0.184627	0.184763	1	1	0		T	125432358	T	T	125432358	3	4	151	1	0	0	0	0	1	0	0	0	4516	1029	36	5	13	5	DHX37	12	125432358	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	935659	125432358	8419537	3027	80192											
SLC15A4	121260	broad.mit.edu	37	chr12	129278857	129278857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtagctccttgaatagcagCcagaagaaaaaagtaatagt	17	8	10	6	0	0	3	0	1	0	2	1	3	1	3	2	1	3	4	2	1	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:129278857C>T	uc001uhu.2	-	8	1671	c.1618G>A	c.(1618-1620)GCT>ACT	p.A540T	SLC15A4_uc001uhv.2_RNA	NM_145648	NP_663623	Q8N697	S15A4_HUMAN	solute carrier family 15, member 4	540	Helical; (Potential).				oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.69e-06)|Epithelial(86;1.17e-05)|all cancers(50;5.07e-05)		TGAATAGCAGCCAGAAGAAAA	0.438													20	66					0	0	1	0	0		T	129278857	T	T	129278857	3	4	151	1	0	0	0	0	1	0	0	0	14426	739	26	2	119	2	SLC15A4	12	129278857	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3846499	129278857	4573038	3028	80193											
RIMBP2	23504	broad.mit.edu	37	chr12	130941158	130941158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtcaatcttgccagcgtGctgccggaacttctccaggt	7	10	11	13	2	3	0	1	0	2	0	4	1	3	1	3	3	5	1	3	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:130941158G>A	uc001uil.2	-	4	354	c.190C>T	c.(190-192)CAC>TAC	p.H64Y	RIMBP2_uc001uim.2_5'UTR	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	64						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		TTGCCAGCGTGCTGCCGGAAC	0.607													6	37					0	0	1	0	0		A	130941158	A	A	130941158	3	1	151	1	0	0	0	0	1	0	0	0	13388	1319	46	2	3032	2	RIMBP2	12	130941158	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1662301	130941158	2910737	3029	80194											
GPR133	283383	broad.mit.edu	37	chr12	131439178	131439178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgcgcaggtgcgtggcGtctactccagatcgcaggac	6	10	14	11	4	1	1	0	0	1	1	3	2	2	2	1	3	3	2	1	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:131439178G>A	uc001uit.3	+	2	635	c.76G>A	c.(76-78)GTC>ATC	p.V26I	GPR133_uc010tbm.1_Missense_Mutation_p.V26I	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	26	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		GGTGCGTGGCGTCTACTCCAG	0.572													14	94					0	0	1	0	0		A	131439178	A	A	131439178	3	1	151	1	0	0	0	0	1	0	0	0	6658	1145	40	1	82	1	GPR133	12	131439178	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	498020	131439178	2412717	3030	80195											
EP400	57634	broad.mit.edu	37	chr12	132512679	132512679	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaggatttgtgccctgcctAgccatggaagggtacagtgg	9	10	14	8	0	0	0	0	0	0	0	0	2	0	2	3	4	4	1	3	4	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:132512679A>G	uc001ujn.2	+	26	5262	c.5227A>G	c.(5227-5229)AGC>GGC	p.S1743G	EP400_uc001ujl.2_Missense_Mutation_p.S1742G|EP400_uc001ujm.2_Missense_Mutation_p.S1662G	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1779					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		TGCCCTGCCTAGCCATGGAAG	0.552													18	61					0	0	1	0	0		G	132512679	G	G	132512679	3	3	151	1	0	0	0	0	1	0	0	0	5157	420	15	3	5326	3	EP400	12	132512679	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1073501	132512679	1339216	3031	80196											
EP400	57634	broad.mit.edu	37	chr12	132561083	132561083	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaaaacttcctcaagttgTtcaacagcaaacacccgtgg	13	9	7	12	1	2	0	2	0	0	0	3	0	3	0	2	1	5	4	2	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:132561083T>C	uc001ujn.2	+	51	9079	c.9044T>C	c.(9043-9045)GTT>GCT	p.V3015A	EP400_uc001ujl.2_Missense_Mutation_p.V3014A|EP400_uc001ujm.2_Missense_Mutation_p.V2934A|EP400_uc001ujp.2_Missense_Mutation_p.V225A|EP400_uc010tbo.1_Silent_p.C81C	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	3051					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CCTCAAGTTGTTCAACAGCAA	0.443													6	48					0	0	1	0	0		C	132561083	C	C	132561083	3	2	151	1	0	0	0	0	1	0	0	0	5157	1725	60	3	9243	3	EP400	12	132561083	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	48404	132561083	1290812	3032	80197											
POLE	5426	broad.mit.edu	37	chr12	133241979	133241979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctccatgttcttgcagcGcttcacctcagccgcgtcgc	5	10	8	18	4	3	0	2	0	1	0	5	0	4	0	4	0	3	3	4	0	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:133241979G>A	uc001uks.1	-	21	2421	c.2377C>T	c.(2377-2379)CGC>TGC	p.R793C	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Missense_Mutation_p.R766C	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	793					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		TTCTTGCAGCGCTTCACCTCA	0.567								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					8	36					0	0	1	0	0		A	133241979	A	A	133241979	3	1	151	1	0	0	0	0	1	0	0	0	12215	1087	38	1	4599	1	POLE	12	133241979	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	680896	133241979	609916	3033	80198											
POLE	5426	broad.mit.edu	37	chr12	133245254	133245254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccactgccaggccatcttccGctggcagtttgctccaggct	5	10	10	16	1	1	0	0	0	1	0	3	0	3	0	5	3	2	5	5	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:133245254G>A	uc001uks.1	-	18	2037	c.1993C>T	c.(1993-1995)CGG>TGG	p.R665W	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Missense_Mutation_p.R638W	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	665					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		GCCATCTTCCGCTGGCAGTTT	0.632								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					10	22					0	0	1	0	0		A	133245254	A	A	133245254	3	1	151	1	0	0	0	0	1	0	0	0	12215	1086	38	1	4995	1	POLE	12	133245254	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3275	133245254	606641	3034	80199											
POLE	5426	broad.mit.edu	37	chr12	133256634	133256634	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacttctcgctcacaacccTaatcaggatcagaatgaaaa	17	8	5	11	1	4	2	3	1	1	1	5	3	4	3	1	1	2	1	1	1	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:133256634T>C	uc001uks.1	-	5	375	c.331_splice	c.e5-1	p.G111_splice	POLE_uc010tbq.1_Splice_Site|POLE_uc009zyu.1_Splice_Site_p.G84_splice	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon						base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CTCACAACCCTAATCAGGATC	0.443								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					19	93					0	0	1	0	0		C	133256634	C	C	133256634	5	2	151	1	0	0	0	0	0	0	1	0	12215	1536	53	3	6711	3	POLE	12	133256634	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	11380	133256634	595261	3035	80200											
ANKLE2	23141	broad.mit.edu	37	chr12	133310978	133310978	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcacatgcttaccagacgtGgtggctttatctcggcagga	8	11	12	10	2	1	1	0	0	1	1	2	2	1	2	1	4	3	4	1	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:133310978G>T	uc001ukx.2	-	10	1951	c.1884C>A	c.(1882-1884)ACC>ACA	p.T628T	ANKLE2_uc009zyw.1_5'UTR|ANKLE2_uc001uky.3_Silent_p.T566T	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	628						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		TACCAGACGTGGTGGCTTTAT	0.562													12	33					1.99824e-07	2.04146e-07	1	1	0		T	133310978	T	T	133310978	2	4	151	1	0	0	0	0	0	0	0	1	633	1335	47	5		5	ANKLE2	12	133310978	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	54344	133310978	540917	3036	80201											
ZNF605	100289635	broad.mit.edu	37	chr12	133502068	133502068	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtatgaatcctctgatgcCtcataaggtgtgactttctt	8	16	8	9	0	3	3	1	3	2	0	4	3	4	3	2	1	1	1	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr12:133502068C>A	uc001ulh.2	-	5	2142	c.1817G>T	c.(1816-1818)AGG>ATG	p.R606M	ZNF605_uc001uli.2_Missense_Mutation_p.R637M|ZNF605_uc001ulj.2_Missense_Mutation_p.R606M	NM_183238	NP_899061	Q86T29	ZN605_HUMAN	zinc finger protein 605 isoform 1	606	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00227)|all_epithelial(31;0.142)		OV - Ovarian serous cystadenocarcinoma(86;9.24e-09)|Epithelial(86;2.11e-07)|all cancers(50;5.27e-06)		CCTCTGATGCCTCATAAGGTG	0.403													41	179					3.66854e-30	3.84776e-30	1	1	0		A	133502068	A	A	133502068	3	1	151	1	0	0	0	0	1	0	0	0	18056	681	24	5	112	5	ZNF605	12	133502068	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	191090	133502068	349827	3037	80202											
TPTE2	93492	broad.mit.edu	37	chr13	20056655	20056655	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaacattttcagcatctTcaacttcaaacttggaaagt	15	12	5	9	0	4	0	3	0	1	0	4	1	4	1	0	1	5	2	0	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:20056655T>C	uc001umd.2	-	5	363	c.152A>G	c.(151-153)GAA>GGA	p.E51G	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Missense_Mutation_p.E51G|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	51						endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		TTCAGCATCTTCAACTTCAAA	0.348													6	93					0	0	1	0	0		C	20056655	C	C	20056655	3	2	151	1	0	0	0	0	1	0	0	0	16457	1783	62	3	1484	3	TPTE2	13	20056655	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08		20056655	95113223	3038	80203											
MPHOSPH8	54737	broad.mit.edu	37	chr13	20245347	20245347	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctctttccattgtaggAcagtcattttgtttactcat	7	21	5	8	0	3	0	2	0	1	0	5	1	4	1	1	1	1	2	1	1	2	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:20245347A>G	uc001umh.2	+	13	2468	c.2459A>G	c.(2458-2460)GAC>GGC	p.D820G		NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	820					cell cycle	cytoplasm|nucleus					0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		CCATTGTAGGACAGTCATTTT	0.368													20	59					0	0	1	0	0		G	20245347	G	G	20245347	3	3	151	1	0	0	0	0	1	0	0	0	9745	289	10	3	2509	3	MPHOSPH8	13	20245347	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	188692	20245347	94924531	3039	80204											
PSPC1	55269	broad.mit.edu	37	chr13	20356666	20356666	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggcggcagcgctgcgtgtAcgtcttctcgcccggcttga	4	9	15	13	6	2	1	0	1	2	0	3	2	2	1	1	3	3	4	1	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:20356666A>G	uc001uml.2	-	1	418	c.232T>C	c.(232-234)TAC>CAC	p.Y78H	PSPC1_uc001umj.1_RNA|PSPC1_uc001umk.1_RNA	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	78					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		CGCTGCGTGTACGTCTTCTCG	0.637													11	53					0	0	1	0	0		G	20356666	G	G	20356666	3	3	151	1	0	0	0	0	1	0	0	0	12738	391	14	3	1375	3	PSPC1	13	20356666	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	111319	20356666	94813212	3040	80205											
LATS2	26524	broad.mit.edu	37	chr13	21562886	21562886	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagggagtgagcaggctctGcggggggctgtcgctggcga	5	6	21	9	4	1	1	0	1	1	0	2	4	1	2	0	6	2	4	0	6	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:21562886G>A	uc009zzs.2	-	4	1398	c.1033C>T	c.(1033-1035)CAG>TAG	p.Q345*	LATS2_uc001unr.3_Nonsense_Mutation_p.Q345*	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	345					cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		AGCAGGCTCTGCGGGGGGCTG	0.701													6	25					0	0	1	0	0		A	21562886	A	A	21562886	4	1	151	1	0	0	0	0	0	1	0	0	8663	1328	46	2	2253	2	LATS2	13	21562886	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1206220	21562886	93606992	3041	80206											
LATS2	26524	broad.mit.edu	37	chr13	21562970	21562970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaccggcctgcttgtggtGtgggtgcggcacgtagagcc	4	8	19	10	3	0	1	0	0	0	1	0	2	0	2	3	5	3	3	3	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:21562970G>A	uc009zzs.2	-	4	1314	c.949C>T	c.(949-951)CAC>TAC	p.H317Y	LATS2_uc001unr.3_Missense_Mutation_p.H317Y	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	317					cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		TGCTTGTGGTGTGGGTGCGGC	0.741													4	4					0	0	1	0	0		A	21562970	A	A	21562970	3	1	151	1	0	0	0	0	1	0	0	0	8663	1377	48	4	2337	4	LATS2	13	21562970	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	84	21562970	93606908	3042	80207											
SACS	26278	broad.mit.edu	37	chr13	23932488	23932488	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctacctgttatatgatagAcagaattaaacccaattcca	15	12	4	10	0	1	3	0	1	1	2	2	3	2	3	3	0	2	1	3	0	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:23932488A>G	uc001uon.2	-	7	1179	c.590T>C	c.(589-591)GTC>GCC	p.V197A	SACS_uc001uoo.2_Missense_Mutation_p.V50A|SACS_uc001uop.1_5'Flank|SACS_uc001uoq.1_Missense_Mutation_p.V50A	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	197					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TATATGATAGACAGAATTAAA	0.373													65	324					0	0	1	0	0		G	23932488	G	G	23932488	3	3	151	1	0	0	0	0	1	0	0	0	13829	275	10	3	13165	3	SACS	13	23932488	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2369518	23932488	91237390	3043	80208											
ATP12A	479	broad.mit.edu	37	chr13	25268672	25268672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaattagaaaaagaaacCgcaaagtagctgaaatccct	19	7	8	7	1	0	3	0	1	0	2	1	4	1	4	2	1	2	3	2	1	8	2	rs145531717		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:25268672C>T	uc001upp.2	+	11	1655	c.1468C>T	c.(1468-1470)CGC>TGC	p.R490C	ATP12A_uc010aaa.2_Missense_Mutation_p.R496C	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	490	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	AAAAAGAAACCGCAAAGTAGC	0.393											OREG0022298	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	125					0	0	1	0	0		T	25268672	T	T	25268672	3	4	151	1	0	0	0	0	1	0	0	0	1123	652	23	1	1528	1	ATP12A	13	25268672	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1336184	25268672	89901206	3044	80209											
RNF17	56163	broad.mit.edu	37	chr13	25338390	25338390	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctaggtcttcctaccagCgaatggggaggaagagtcag	10	9	13	9	1	3	1	1	0	2	1	4	4	4	3	2	4	2	0	2	4	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:25338390C>T	uc001upr.2	+	1	90	c.49C>T	c.(49-51)CGA>TGA	p.R17*	RNF17_uc010tdd.1_5'UTR|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Nonsense_Mutation_p.R17*|RNF17_uc001ups.2_5'UTR|RNF17_uc001upq.1_Nonsense_Mutation_p.R17*	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	17					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		TTCCTACCAGCGAATGGGGAG	0.622													13	39					0	0	1	0	0		T	25338390	T	T	25338390	4	4	151	1	0	0	0	0	0	1	0	0	13486	760	27	1	51	1	RNF17	13	25338390	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	69718	25338390	89831488	3045	80210											
RNF17	56163	broad.mit.edu	37	chr13	25448299	25448299	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcttatggtatagagcgAagattgttgccattaaagaa	14	12	11	4	1	0	3	0	0	0	3	0	4	0	3	1	2	2	3	1	2	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:25448299A>G	uc001upr.2	+	33	4536	c.4495A>G	c.(4495-4497)AAG>GAG	p.K1499E	RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.K1495E|RNF17_uc001ups.2_Missense_Mutation_p.K1438E|RNF17_uc010aac.2_Missense_Mutation_p.K691E|RNF17_uc010aad.2_Missense_Mutation_p.K509E	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	1499	Tudor 4.				multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		GTATAGAGCGAAGATTGTTGC	0.299													20	117					0	0	1	0	0		G	25448299	G	G	25448299	3	3	151	1	0	0	0	0	1	0	0	0	13486	247	9	3	4625	3	RNF17	13	25448299	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	109909	25448299	89721579	3046	80211											
SHISA2	387914	broad.mit.edu	37	chr13	26621066	26621066	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatggtctccatcaagcggTtaccccctggggctcggctc	5	9	13	14	2	2	0	1	0	1	0	5	1	2	1	3	6	2	3	3	6	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:26621066T>C	uc001uqm.1	-	2	558	c.473A>G	c.(472-474)AAC>AGC	p.N158S		NM_001007538	NP_001007539	Q6UWI4	SHSA2_HUMAN	shisa homolog 2 precursor	158	Cytoplasmic (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2						CATCAAGCGGTTACCCCCTGG	0.637													7	50					0	0	1	0	0		C	26621066	C	C	26621066	3	2	151	1	0	0	0	0	1	0	0	0	14305	1725	60	3	418	3	SHISA2	13	26621066	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1172767	26621066	88548812	3047	80212											
GPR12	2835	broad.mit.edu	37	chr13	27332961	27332961	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcctgggtgcaagggtgcTacacatcactgggcgagcgc	7	7	14	13	2	1	0	1	0	0	0	2	1	2	0	2	3	4	2	2	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:27332961T>C	uc010aal.2	-	2	1226	c.1004A>G	c.(1003-1005)TAG>TGG	p.*335W	GPR12_uc010tdl.1_Nonstop_Mutation_p.*176W	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	335						integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		GCAAGGGTGCTACACATCACT	0.552													7	26					0	0	1	0	0		C	27332961	C	C	27332961	4	2	151	1	0	0	0	0	0	0	0	0	6650	1535	53	3	4	3	GPR12	13	27332961	Nonstop_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	711895	27332961	87836917	3048	80213											
MTIF3	219402	broad.mit.edu	37	chr13	28014141	28014141	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctaccagttttggggttcgCcttctccatctccctcagcc	4	13	7	17	1	3	0	1	0	2	0	6	0	3	0	6	2	2	2	6	2	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:28014141C>A	uc001urh.2	-	1	1669	c.445G>T	c.(445-447)GCG>TCG	p.A149S	MTIF3_uc001uri.2_Missense_Mutation_p.A149S|MTIF3_uc001urj.2_Missense_Mutation_p.A149S|MTIF3_uc001urk.2_Missense_Mutation_p.A149S	NM_152912	NP_690876	Q9H2K0	IF3M_HUMAN	mitochondrial translational initiation factor 3	149					regulation of translational initiation|ribosome disassembly	mitochondrion	ribosomal small subunit binding|translation initiation factor activity			ovary(1)|skin(1)	2		Lung SC(185;0.0161)	Colorectal(13;0.00042)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.108)|OV - Ovarian serous cystadenocarcinoma(117;0.157)		TTGGGGTTCGCCTTCTCCATC	0.488													17	70					3.52763e-06	3.58371e-06	1	1	0		A	28014141	A	A	28014141	3	1	151	1	0	0	0	0	1	0	0	0	9953	739	26	5	403	5	MTIF3	13	28014141	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	681180	28014141	87155737	3049	80214											
FLT3	2322	broad.mit.edu	37	chr13	28610120	28610120	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtccaagatggtaatgggTatccatccgagaaacaggac	14	7	12	8	1	0	2	0	0	0	2	3	4	3	3	3	4	1	2	3	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:28610120T>C	uc001urw.2	-	11	1452	c.1370A>G	c.(1369-1371)TAC>TGC	p.Y457C	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Missense_Mutation_p.Y457C	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	457	Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	TGGTAATGGGTATCCATCCGA	0.423			Mis|O		AML|ALL								83	274					0	0	1	0	0		C	28610120	C	C	28610120	3	2	151	1	0	0	0	0	1	0	0	0	5956	1638	57	3	1667	3	FLT3	13	28610120	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	595979	28610120	86559758	3050	80215											
FLT3	2322	broad.mit.edu	37	chr13	28611391	28611391	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatggaatatatattctcCtggctggtgcttatgattgc	8	16	10	7	0	1	1	0	1	1	0	2	2	1	2	1	3	3	3	1	3	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:28611391C>A	uc001urw.2	-	10	1322	c.1240G>T	c.(1240-1242)GGA>TGA	p.G414*	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Nonsense_Mutation_p.G414*	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	414	Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	ATATATTCTCCTGGCTGGTGC	0.343			Mis|O		AML|ALL								37	152					6.04917e-29	6.34346e-29	1	1	0		A	28611391	A	A	28611391	4	1	151	1	0	0	0	0	0	1	0	0	5956	690	24	5	1801	5	FLT3	13	28611391	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1271	28611391	86558487	3051	80216											
PAN3	255967	broad.mit.edu	37	chr13	28841299	28841299	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaaaattcaacactcaaaTatcgtaactttgcgtgaagt	17	11	6	7	2	2	2	2	1	0	1	3	2	2	2	0	0	3	1	0	0	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:28841299T>C	uc001urz.2	+	10	1211	c.1203T>C	c.(1201-1203)AAT>AAC	p.N401N	PAN3_uc010tdo.1_Silent_p.N547N|PAN3_uc001ury.2_Silent_p.N235N|PAN3_uc001urx.2_Silent_p.N347N	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	547	Protein kinase.|Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		AACACTCAAATATCGTAACTT	0.383													56	206					0	0	1	0	0		C	28841299	C	C	28841299	2	2	151	1	0	0	0	0	0	0	0	1	11434	1403	49	3		3	PAN3	13	28841299	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	229908	28841299	86328579	3052	80217											
PAN3	255967	broad.mit.edu	37	chr13	28862168	28862168	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggagaccgttatctgtTgaaactctttagggatcatc	10	13	10	8	1	3	2	1	1	2	1	4	5	3	3	1	2	1	2	1	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:28862168T>C	uc001urz.2	+	17	2002	c.1994T>C	c.(1993-1995)TTG>TCG	p.L665S	PAN3_uc001ury.2_Missense_Mutation_p.L499S|PAN3_uc001urx.2_Missense_Mutation_p.L611S	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	811	Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		CGTTATCTGTTGAAACTCTTT	0.433													35	99					0	0	1	0	0		C	28862168	C	C	28862168	3	2	151	1	0	0	0	0	1	0	0	0	11434	1821	63	3	2502	3	PAN3	13	28862168	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	20869	28862168	86307710	3053	80218											
FLT1	2321	broad.mit.edu	37	chr13	28896941	28896941	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctaccctcctcttcctcaAcatcactcagacttttatct	9	14	1	17	0	5	1	3	0	2	1	7	1	7	1	4	0	2	0	4	0	3	4	rs116741209	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:28896941A>G	uc001usb.3	-	21	3224	c.2939T>C	c.(2938-2940)GTT>GCT	p.V980A	FLT1_uc010aap.2_5'Flank|FLT1_uc010aaq.2_Missense_Mutation_p.V105A|FLT1_uc001usa.3_Missense_Mutation_p.V198A	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	980	Cytoplasmic (Potential).|Protein kinase.				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	CTCTTCCTCAACATCACTCAG	0.433													27	190					0	0	1	0	0		G	28896941	G	G	28896941	3	3	151	1	0	0	0	0	1	0	0	0	5955	43	2	3	1117	3	FLT1	13	28896941	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	34773	28896941	86272937	3054	80219											
SLC46A3	283537	broad.mit.edu	37	chr13	29287455	29287455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgtggtataattgccaCaaaatgcaccaatgaaggta	18	9	8	6	0	0	1	0	1	0	0	0	1	0	1	2	2	2	3	2	2	9	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:29287455C>T	uc001usi.2	-	2	1392	c.422G>A	c.(421-423)TGT>TAT	p.C141Y	SLC46A3_uc001usg.2_Missense_Mutation_p.C66Y|SLC46A3_uc001usj.2_Missense_Mutation_p.C141Y|SLC46A3_uc001ush.2_Missense_Mutation_p.C141Y|SLC46A3_uc001usk.2_Missense_Mutation_p.C66Y	NM_181785	NP_861450	Q7Z3Q1	S46A3_HUMAN	solute carrier family 46, member 3 isoform a	141	Helical; (Potential).				transmembrane transport	integral to membrane				central_nervous_system(1)|skin(1)	2		Lung SC(185;0.0367)		all cancers(112;0.159)		ATAATTGCCACAAAATGCACC	0.393													17	106					0	0	1	0	0		T	29287455	T	T	29287455	3	4	151	1	0	0	0	0	1	0	0	0	14671	478	17	4	993	4	SLC46A3	13	29287455	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	390514	29287455	85882423	3055	80220											
USPL1	10208	broad.mit.edu	37	chr13	31232624	31232624	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggctttaaaactaaaggtAtaaaccagaaggccagccac	16	7	9	9	0	0	1	0	0	0	1	0	1	0	1	3	3	3	2	3	3	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:31232624A>G	uc001utc.2	+	9	2842	c.2410A>G	c.(2410-2412)ATA>GTA	p.I804V	USPL1_uc001utd.2_Missense_Mutation_p.I475V|USPL1_uc001ute.1_Missense_Mutation_p.I475V	NM_005800	NP_005791	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	804					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			pancreas(2)|skin(1)	3		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0306)|Epithelial(112;0.131)|OV - Ovarian serous cystadenocarcinoma(117;0.134)		AACTAAAGGTATAAACCAGAA	0.428													20	83					0	0	1	0	0		G	31232624	G	G	31232624	3	3	151	1	0	0	0	0	1	0	0	0	17118	449	16	3	2440	3	USPL1	13	31232624	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1945169	31232624	83937254	3056	80221											
HSPH1	10808	broad.mit.edu	37	chr13	31725327	31725327	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcaaaagctgttcccagtAcctaatttggttgaaacaac	14	11	7	9	0	1	1	1	1	0	0	2	2	2	1	2	1	4	4	2	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:31725327A>T	uc001utj.2	-	7	1063	c.665T>A	c.(664-666)GTA>GAA	p.V222E	HSPH1_uc001utk.2_Missense_Mutation_p.V222E|HSPH1_uc010aaw.2_Missense_Mutation_p.V181E|HSPH1_uc001utl.2_Missense_Mutation_p.V224E|HSPH1_uc010tds.1_Missense_Mutation_p.V146E|HSPH1_uc010tdt.1_RNA	NM_006644	NP_006635	Q92598	HS105_HUMAN	heat shock 105kD	222					positive regulation of MHC class I biosynthetic process|positive regulation of NK T cell activation|response to unfolded protein	cytoplasm|extracellular region	ATP binding				0		Lung SC(185;0.0257)		all cancers(112;0.00385)|Epithelial(112;0.0328)|OV - Ovarian serous cystadenocarcinoma(117;0.0375)|GBM - Glioblastoma multiforme(144;0.125)		TGTTCCCAGTACCTAATTTGG	0.308													12	103					0	0	1	0	0		T	31725327	T	T	31725327	3	4	151	1	0	0	0	0	1	0	0	0	7447	405	14	5	1959	5	HSPH1	13	31725327	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	492703	31725327	83444551	3057	80222											
RXFP2	122042	broad.mit.edu	37	chr13	32376343	32376343	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacagtgctttgaatccaaTcctctatactctcacaacca	13	12	3	13	0	2	1	1	1	2	0	5	1	4	1	3	0	4	1	3	0	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:32376343T>A	uc001utt.2	+	18	2137	c.2066T>A	c.(2065-2067)ATC>AAC	p.I689N	RXFP2_uc010aba.2_Missense_Mutation_p.I648N	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	689	Helical; Name=7; (Potential).					integral to membrane|plasma membrane					0		Lung SC(185;0.0262)		all cancers(112;0.000559)|Epithelial(112;0.0017)|OV - Ovarian serous cystadenocarcinoma(117;0.0145)|BRCA - Breast invasive adenocarcinoma(63;0.0535)		TTGAATCCAATCCTCTATACT	0.328													27	153					0	0	1	0	0		A	32376343	A	A	32376343	3	1	151	1	0	0	0	0	1	0	0	0	13785	1435	50	5	2136	5	RXFP2	13	32376343	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	651016	32376343	82793535	3058	80223											
FRY	10129	broad.mit.edu	37	chr13	32653054	32653054	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaagggccgccaaccatgCtacccatcaatgtggaccca	13	5	9	14	1	1	1	1	0	0	1	1	2	1	2	5	2	3	1	5	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:32653054C>T	uc001utx.2	+	2	650	c.154C>T	c.(154-156)CTA>TTA	p.L52L	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	52					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		GCCAACCATGCTACCCATCAA	0.498													67	297					0	0	1	0	0		T	32653054	T	T	32653054	2	4	151	1	0	0	0	0	0	0	0	1	6077	796	28	2		2	FRY	13	32653054	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	276711	32653054	82516824	3059	80224											
BRCA2	675	broad.mit.edu	37	chr13	32913067	32913067	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctactctattgggttttcaTacagctagcgggaaaaaagt	12	12	9	8	1	2	0	1	0	1	0	2	1	2	1	1	2	4	2	1	2	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:32913067T>C	uc001uub.1	+	11	4802	c.4575T>C	c.(4573-4575)CAT>CAC	p.H1525H		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1525	BRCA2 4.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TGGGTTTTCATACAGCTAGCG	0.388			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			32	129					0	0	1	0	0		C	32913067	C	C	32913067	2	2	151	1	0	0	0	0	0	0	0	1	1502	1403	49	3		3	BRCA2	13	32913067	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	260013	32913067	82256811	3060	80225											
BRCA2	675	broad.mit.edu	37	chr13	32913920	32913920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtaaatgaagatatttgcGttgaggaacttgtgactagc	12	13	11	5	1	0	4	0	3	0	1	0	5	0	5	0	1	3	2	0	1	6	6	rs80358766		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:32913920G>A	uc001uub.1	+	11	5655	c.5428G>A	c.(5428-5430)GTT>ATT	p.V1810I		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1810					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AGATATTTGCGTTGAGGAACT	0.343			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			22	122					0	0	1	0	0		A	32913920	A	A	32913920	3	1	151	1	0	0	0	0	1	0	0	0	1502	1145	40	1	5466	1	BRCA2	13	32913920	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	853	32913920	82255958	3061	80226											
BRCA2	675	broad.mit.edu	37	chr13	32914557	32914557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttaaaagtaacgaacattCagaccagctcacaagagaag	18	7	8	8	1	2	2	2	0	0	2	2	4	2	2	1	0	3	3	1	0	6	4	rs80358843		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:32914557C>T	uc001uub.1	+	11	6292	c.6065C>T	c.(6064-6066)TCA>TTA	p.S2022L		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2022					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AACGAACATTCAGACCAGCTC	0.338			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			38	132					0	0	1	0	0		T	32914557	T	T	32914557	3	4	151	1	0	0	0	0	1	0	0	0	1502	838	29	4	6103	4	BRCA2	13	32914557	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	637	32914557	82255321	3062	80227											
STARD13	90627	broad.mit.edu	37	chr13	33701537	33701537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agccgtgcttgttggacatgGagtgcttctccatgatggcc	6	12	13	10	1	1	1	0	1	1	0	2	3	1	3	3	3	3	3	3	3	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:33701537G>A	uc001uuw.2	-	6	2021	c.1895C>T	c.(1894-1896)TCC>TTC	p.S632F	STARD13_uc001uuu.2_Missense_Mutation_p.S624F|STARD13_uc001uuv.2_Missense_Mutation_p.S514F|STARD13_uc001uux.2_Missense_Mutation_p.S597F|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Missense_Mutation_p.S617F	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	632					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		GTTGGACATGGAGTGCTTCTC	0.592													5	31					0	0	1	0	0		A	33701537	A	A	33701537	3	1	151	1	0	0	0	0	1	0	0	0	15281	1174	41	4	1482	4	STARD13	13	33701537	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	786980	33701537	81468341	3063	80228											
RFC3	5983	broad.mit.edu	37	chr13	34410364	34410364	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatttatcacttggaagcgTttgtggccaaattcatggca	10	13	9	9	1	2	0	2	0	0	0	2	1	2	1	2	3	1	2	2	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:34410364T>C	uc001uuz.2	+	9	1113	c.1003T>C	c.(1003-1005)TTT>CTT	p.F335L	RFC3_uc001uva.2_Intron	NM_002915	NP_002906	P40938	RFC3_HUMAN	replication factor C 3 isoform 1	335					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|response to organophosphorus|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding				0		Hepatocellular(188;0.0191)|Lung SC(185;0.0548)		all cancers(112;5.09e-06)|Epithelial(112;6.52e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00107)|OV - Ovarian serous cystadenocarcinoma(117;0.0285)|GBM - Glioblastoma multiforme(144;0.123)		CTTGGAAGCGTTTGTGGCCAA	0.428													61	248					0	0	1	0	0		C	34410364	C	C	34410364	3	2	151	1	0	0	0	0	1	0	0	0	13271	1725	60	3	1037	3	RFC3	13	34410364	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	708827	34410364	80759514	3064	80229											
NBEA	26960	broad.mit.edu	37	chr13	35632906	35632906	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactgctgatgcaaatagggTattctgtggtcaacttggtg	10	13	12	6	0	2	1	1	1	1	0	2	1	2	1	0	3	4	3	0	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:35632906T>C	uc001uvb.2	+	9	1351	c.1145T>C	c.(1144-1146)GTA>GCA	p.V382A		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	382						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GCAAATAGGGTATTCTGTGGT	0.358													5	14					0	0	1	0	0		C	35632906	C	C	35632906	3	2	151	1	0	0	0	0	1	0	0	0	10205	1638	57	3	1175	3	NBEA	13	35632906	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1222542	35632906	79536972	3065	80230											
NBEA	26960	broad.mit.edu	37	chr13	35738555	35738555	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatattatttttgtacataAcacaattcacctcatttccc	14	16	1	10	0	2	0	2	0	0	0	3	0	3	0	2	0	2	1	2	0	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:35738555A>G	uc001uvb.2	+	25	4348	c.4142A>G	c.(4141-4143)AAC>AGC	p.N1381S	NBEA_uc010abi.2_Missense_Mutation_p.N72S	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1381						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding	p.N1381fs*28(1)		ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TTTGTACATAACACAATTCAC	0.338													10	31					0	0	1	0	0		G	35738555	G	G	35738555	3	3	151	1	0	0	0	0	1	0	0	0	10205	43	2	3	4236	3	NBEA	13	35738555	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	105649	35738555	79431323	3066	80231											
NBEA	26960	broad.mit.edu	37	chr13	35782886	35782886	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaggtagtttagctgtaAccactgtgggagccactact	9	11	10	11	0	0	0	0	0	0	0	1	1	1	1	3	2	4	4	3	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:35782886A>G	uc001uvb.2	+	32	5622	c.5416A>G	c.(5416-5418)ACC>GCC	p.T1806A	NBEA_uc010abi.2_Missense_Mutation_p.T462A	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1806						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TTTAGCTGTAACCACTGTGGG	0.428													6	21					0	0	1	0	0		G	35782886	G	G	35782886	3	3	151	1	0	0	0	0	1	0	0	0	10205	43	2	3	5542	3	NBEA	13	35782886	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	44331	35782886	79386992	3067	80232											
CCNA1	8900	broad.mit.edu	37	chr13	37014180	37014180	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcaccgatgatacatacAcaaaacgacaactgttaaaa	20	8	4	9	2	1	1	1	1	0	0	1	3	1	1	1	0	4	1	1	0	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:37014180A>G	uc001uvr.3	+	6	1308	c.958A>G	c.(958-960)ACA>GCA	p.T320A	CCNA1_uc010teo.1_Missense_Mutation_p.T276A|CCNA1_uc010abq.2_Missense_Mutation_p.T276A|CCNA1_uc010abp.2_Missense_Mutation_p.T276A|CCNA1_uc001uvs.3_Missense_Mutation_p.T319A|CCNA1_uc010abr.2_RNA	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	320					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		TGATACATACACAAAACGACA	0.378													27	122					0	0	1	0	0		G	37014180	G	G	37014180	3	3	151	1	0	0	0	0	1	0	0	0	2912	159	6	3	980	3	CCNA1	13	37014180	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1231294	37014180	78155698	3068	80233											
FAM48A	55578	broad.mit.edu	37	chr13	37598550	37598550	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacacccttccccaatacCgaagactgaactgacacggt	12	9	6	14	2	0	3	0	2	0	1	1	4	1	3	4	1	3	0	4	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:37598550C>T	uc001uwg.2	-	18	1607	c.1359G>A	c.(1357-1359)TCG>TCA	p.S453S	FAM48A_uc010abt.2_Silent_p.S454S|FAM48A_uc001uwh.2_Silent_p.S454S|FAM48A_uc001uwi.2_Silent_p.S453S|FAM48A_uc001uwj.2_Silent_p.S454S|FAM48A_uc001uwk.2_Silent_p.S453S|FAM48A_uc010tes.1_Silent_p.S417S|FAM48A_uc001uwl.1_Silent_p.S453S|FAM48A_uc001uwd.2_5'Flank|FAM48A_uc001uwe.2_5'UTR|FAM48A_uc001uwf.2_Silent_p.S31S	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A	453					autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		TCCCCAATACCGAAGACTGAA	0.368													13	51					0	0	1	0	0		T	37598550	T	T	37598550	2	4	151	1	0	0	0	0	0	0	0	1	5586	639	23	1		1	FAM48A	13	37598550	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	584370	37598550	77571328	3069	80234											
POSTN	10631	broad.mit.edu	37	chr13	38153249	38153249	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caattcattcaccagaagtgTatcatttacctatcaaaata	16	13	3	9	0	4	1	4	0	0	1	4	1	4	1	2	0	1	1	2	0	8	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:38153249T>C	uc001uwo.3	-	14	1919	c.1801A>G	c.(1801-1803)ACA>GCA	p.T601A	POSTN_uc010tet.1_Missense_Mutation_p.T129A|POSTN_uc001uwp.3_Missense_Mutation_p.T601A|POSTN_uc001uwr.2_Missense_Mutation_p.T601A|POSTN_uc001uwq.2_Missense_Mutation_p.T601A|POSTN_uc010teu.1_Missense_Mutation_p.T601A|POSTN_uc010tev.1_Missense_Mutation_p.T601A|POSTN_uc010tew.1_Missense_Mutation_p.T601A	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	601	FAS1 4.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		ACCAGAAGTGTATCATTTACC	0.308													4	67					0	0	1	0	0		C	38153249	C	C	38153249	3	2	151	1	0	0	0	0	1	0	0	0	12278	1638	57	3	749	3	POSTN	13	38153249	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	554699	38153249	77016629	3070	80235											
FREM2	341640	broad.mit.edu	37	chr13	39263610	39263610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcagtggctgtccccttcGtatggtggtacaggaatccc	6	10	14	11	1	0	0	0	0	0	0	3	1	2	1	3	5	1	4	3	5	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:39263610G>A	uc001uwv.2	+	1	2438	c.2129G>A	c.(2128-2130)CGT>CAT	p.R710H		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	710	CSPG 4.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TGTCCCCTTCGTATGGTGGTA	0.557													15	46					0	0	1	0	0		A	39263610	A	A	39263610	3	1	151	1	0	0	0	0	1	0	0	0	6059	1145	40	1	2131	1	FREM2	13	39263610	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1110361	39263610	75906268	3071	80236											
STOML3	161003	broad.mit.edu	37	chr13	39544433	39544433	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatgttgcttgatggacAtcgttgacattagccactgc	11	12	10	8	1	0	3	0	2	0	1	1	4	0	4	1	1	3	3	1	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:39544433A>G	uc001uwx.2	-	5	543	c.405T>C	c.(403-405)GAT>GAC	p.D135D	STOML3_uc010tez.1_Silent_p.D126D	NM_145286	NP_660329	Q8TAV4	STML3_HUMAN	stomatin-like 3 isoform 1	135	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Lung NSC(96;1.42e-05)|Prostate(109;0.00851)|Breast(139;0.0199)|Lung SC(185;0.0743)		all cancers(112;2.93e-08)|Epithelial(112;3.64e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00107)|BRCA - Breast invasive adenocarcinoma(63;0.00349)|GBM - Glioblastoma multiforme(144;0.0137)		CTTGATGGACATCGTTGACAT	0.478													52	222					0	0	1	0	0		G	39544433	G	G	39544433	2	3	151	1	0	0	0	0	0	0	0	1	15340	214	8	3		3	STOML3	13	39544433	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	280823	39544433	75625445	3072	80237											
STOML3	161003	broad.mit.edu	37	chr13	39546706	39546706	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaactttgacaaacacatcTatgcatggcaggaccaggat	14	9	8	10	0	2	1	1	1	1	0	2	3	2	3	1	3	3	2	1	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:39546706T>C	uc001uwx.2	-	4	393	c.255A>G	c.(253-255)ATA>ATG	p.I85M	STOML3_uc010tez.1_Missense_Mutation_p.I76M	NM_145286	NP_660329	Q8TAV4	STML3_HUMAN	stomatin-like 3 isoform 1	85	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Lung NSC(96;1.42e-05)|Prostate(109;0.00851)|Breast(139;0.0199)|Lung SC(185;0.0743)		all cancers(112;2.93e-08)|Epithelial(112;3.64e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00107)|BRCA - Breast invasive adenocarcinoma(63;0.00349)|GBM - Glioblastoma multiforme(144;0.0137)		CAAACACATCTATGCATGGCA	0.378													51	224					0	0	1	0	0		C	39546706	C	C	39546706	3	2	151	1	0	0	0	0	1	0	0	0	15340	1512	53	3	636	3	STOML3	13	39546706	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2273	39546706	75623172	3073	80238											
KBTBD7	84078	broad.mit.edu	37	chr13	41766825	41766825	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagatacaatagatttcAtcattgaagacacatgcttc	15	12	5	9	0	3	4	3	1	0	3	4	4	3	4	0	0	2	1	0	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:41766825A>G	uc001uxw.1	-	1	1878	c.1569T>C	c.(1567-1569)GAT>GAC	p.D523D	uc001uxv.1_Intron	NM_032138	NP_115514	Q8WVZ9	KBTB7_HUMAN	kelch repeat and BTB (POZ) domain containing 7	523	Kelch 3.						protein binding			ovary(1)	1		Lung NSC(96;0.000105)|Breast(139;0.00715)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.21e-09)|Epithelial(112;6.99e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000196)|GBM - Glioblastoma multiforme(144;0.000857)|BRCA - Breast invasive adenocarcinoma(63;0.0669)		AATAGATTTCATCATTGAAGA	0.438													45	162					0	0	1	0	0		G	41766825	G	G	41766825	2	3	151	1	0	0	0	0	0	0	0	1	8014	214	8	3		3	KBTBD7	13	41766825	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2220119	41766825	73403053	3074	80239											
C13orf31	144811	broad.mit.edu	37	chr13	44463029	44463029	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttttactcttccaagggaAtcagcagaggcatttcataa	12	13	8	8	0	3	1	2	0	1	1	4	2	4	2	1	2	2	3	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:44463029A>G	uc010acg.2	+	5	1529	c.1044A>G	c.(1042-1044)GAA>GAG	p.E348E	C13orf31_uc001uzf.3_Silent_p.E348E	NM_001128303	NP_001121775	Q8IV20	CM031_HUMAN	hypothetical protein LOC144811	348											0		Lung NSC(96;0.000163)|all_hematologic(4;0.0127)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Breast(139;0.0364)|Lung SC(185;0.0367)|Acute lymphoblastic leukemia(4;0.138)		GBM - Glioblastoma multiforme(144;0.000573)|BRCA - Breast invasive adenocarcinoma(63;0.121)		TTCCAAGGGAATCAGCAGAGG	0.418													55	236					0	0	1	0	0		G	44463029	G	G	44463029	2	3	151	1	0	0	0	0	0	0	0	1	1729	98	4	3		3	C13orf31	13	44463029	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2696204	44463029	70706849	3075	80240											
KCTD4	386618	broad.mit.edu	37	chr13	45768415	45768415	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcgggcaatagaagttcTccatttcgtaggaagtttag	10	13	10	8	2	1	1	0	0	1	1	4	2	1	2	2	2	0	4	2	2	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:45768415T>C	uc001uzx.3	-	2	692	c.288A>G	c.(286-288)GGA>GGG	p.G96G	GTF2F2_uc001uzv.2_Intron|GTF2F2_uc001uzw.2_Intron	NM_198404	NP_940686	Q8WVF5	KCTD4_HUMAN	potassium channel tetramerisation domain	96	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		Lung NSC(96;6.55e-05)|Breast(139;0.00378)|Prostate(109;0.00438)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000249)|BRCA - Breast invasive adenocarcinoma(63;0.207)		ATAGAAGTTCTCCATTTCGTA	0.438													56	190					0	0	1	0	0		C	45768415	C	C	45768415	2	2	151	1	0	0	0	0	0	0	0	1	8127	1538	54	3		3	KCTD4	13	45768415	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1305386	45768415	69401463	3076	80241											
ZC3H13	23091	broad.mit.edu	37	chr13	46541688	46541688	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgtttcttcaaatccctgCacagatcccagatctttatc	9	16	4	12	0	3	2	1	0	2	2	6	2	5	2	2	0	1	2	2	0	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:46541688C>G	uc010tfw.1	-	14	4278	c.4272G>C	c.(4270-4272)GTG>GTC	p.V1424V	ZC3H13_uc001vaq.2_Silent_p.V8V|ZC3H13_uc001vas.1_Silent_p.V1424V	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	1424							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		CAAATCCCTGCACAGATCCCA	0.413													42	217					0	0	1	0	0		G	46541688	G	G	46541688	2	3	151	1	0	0	0	0	0	0	0	1	17590	697	25	5		5	ZC3H13	13	46541688	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	773273	46541688	68628190	3077	80242											
ZC3H13	23091	broad.mit.edu	37	chr13	46544099	46544099	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttggctcaagagtctgtgTttttcatctatataaaagat	12	16	7	6	0	4	2	2	0	2	2	4	2	4	2	0	1	0	2	0	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:46544099T>C	uc010tfw.1	-	13	2586	c.2580A>G	c.(2578-2580)AAA>AAG	p.K860K	ZC3H13_uc001vaq.2_5'Flank|ZC3H13_uc001vas.1_Silent_p.K860K|ZC3H13_uc001vat.1_Silent_p.K860K	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	860							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		AGAGTCTGTGTTTTTCATCTA	0.378													51	178					0	0	1	0	0		C	46544099	C	C	46544099	2	2	151	1	0	0	0	0	0	0	0	1	17590	1722	60	3		3	ZC3H13	13	46544099	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2411	46544099	68625779	3078	80243											
RB1	5925	broad.mit.edu	37	chr13	48919305	48919305	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgttgaagaagtatgatgTattgtttgcactcttcagca	11	15	9	6	0	2	3	1	2	1	1	2	3	2	3	0	0	2	6	0	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:48919305T>C	uc001vcb.2	+	4	636	c.470T>C	c.(469-471)GTA>GCA	p.V157A	RB1_uc010acs.1_Intron	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	157					androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(5)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AAGTATGATGTATTGTTTGCA	0.303		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			40	172					0	0	1	0	0		C	48919305	C	C	48919305	3	2	151	1	0	0	0	0	1	0	0	0	13123	1638	57	3	484	3	RB1	13	48919305	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2375206	48919305	66250573	3079	80244											
FNDC3A	22862	broad.mit.edu	37	chr13	49580394	49580394	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgatatttctcttttgtctgCccctattgtaagtgcagatg	7	18	8	8	0	2	2	0	1	2	1	3	2	2	2	2	0	2	2	2	0	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:49580394C>T	uc001vcm.2	+	2	373	c.68C>T	c.(67-69)GCC>GTC	p.A23V	FNDC3A_uc001vcl.1_Missense_Mutation_p.A23V|FNDC3A_uc001vcn.2_Missense_Mutation_p.A23V|FNDC3A_uc001vco.2_RNA	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	23						Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		CTTTTGTCTGCCCCTATTGTA	0.318													20	69					0	0	1	0	0		T	49580394	T	T	49580394	3	4	151	1	0	0	0	0	1	0	0	0	5983	739	26	2	70	2	FNDC3A	13	49580394	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	661089	49580394	65589484	3080	80245											
KCNRG	283518	broad.mit.edu	37	chr13	50594527	50594527	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaagccctgaagtgctcatCacgaatgaaacaccaaaacc	18	5	6	12	1	2	2	2	2	0	0	2	3	2	2	3	0	4	1	3	0	7	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:50594527C>T	uc001vdu.2	+	2	996	c.756C>T	c.(754-756)ATC>ATT	p.I252I	DLEU2_uc001vdn.1_Intron|DLEU2_uc001vdo.1_Intron|KCNRG_uc001vdt.2_3'UTR	NM_173605	NP_775876	Q8N5I3	KCNRG_HUMAN	potassium channel regulator isoform 1	252						voltage-gated potassium channel complex	identical protein binding|voltage-gated potassium channel activity				0		Acute lymphoblastic leukemia(7;3.41e-06)|Lung NSC(96;3.08e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.48e-10)|COAD - Colon adenocarcinoma(199;0.204)		AAGTGCTCATCACGAATGAAA	0.363													5	132					0	0	1	0	0		T	50594527	T	T	50594527	2	4	151	1	0	0	0	0	0	0	0	1	8103	816	29	4		4	KCNRG	13	50594527	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1014133	50594527	64575351	3081	80246											
FAM124A	220108	broad.mit.edu	37	chr13	51826294	51826294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccccatcagcgaggggcGctggcagacggaggaccatg	9	3	16	13	3	1	1	1	0	0	1	1	4	1	3	3	5	2	2	3	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:51826294G>A	uc001vfg.1	+	3	922	c.791G>A	c.(790-792)CGC>CAC	p.R264H	FAM124A_uc001vfe.2_Missense_Mutation_p.R264H|FAM124A_uc001vff.1_Missense_Mutation_p.R300H	NM_145019	NP_659456	Q86V42	F124A_HUMAN	hypothetical protein LOC220108	264										central_nervous_system(1)	1		Acute lymphoblastic leukemia(7;0.000334)|Breast(56;0.00156)|Prostate(109;0.00538)|Lung NSC(96;0.0216)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;4.25e-07)		AGCGAGGGGCGCTGGCAGACG	0.617													8	37					0	0	1	0	0		A	51826294	A	A	51826294	3	1	151	1	0	0	0	0	1	0	0	0	5436	1087	38	1	913	1	FAM124A	13	51826294	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1231767	51826294	63343584	3082	80247											
ATP7B	540	broad.mit.edu	37	chr13	52548584	52548584	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctattctcagttggagggTgaccacatggcttccttggt	7	14	11	9	0	2	1	1	1	2	0	4	2	3	2	2	4	0	2	2	4	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:52548584T>C	uc001vfw.2	-	2	929	c.772A>G	c.(772-774)ACC>GCC	p.T258A	ATP7B_uc010adv.2_Missense_Mutation_p.T258A|ATP7B_uc001vfx.2_Missense_Mutation_p.T258A|ATP7B_uc001vfy.2_Missense_Mutation_p.T258A|ATP7B_uc010tgt.1_Missense_Mutation_p.T258A|ATP7B_uc010tgu.1_Missense_Mutation_p.T258A|ATP7B_uc010tgv.1_Missense_Mutation_p.T258A|ATP7B_uc010tgw.1_Missense_Mutation_p.T226A	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	258	HMA 3.|Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		AGTTGGAGGGTGACCACATGG	0.423									Wilson_disease				41	170					0	0	1	0	0		C	52548584	C	C	52548584	3	2	151	1	0	0	0	0	1	0	0	0	1192	1696	59	3	3705	3	ATP7B	13	52548584	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	722290	52548584	62621294	3083	80248											
THSD1	55901	broad.mit.edu	37	chr13	52971767	52971767	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcttctggccccaagggTgcacagccaaactcaaccca	11	6	9	15	0	2	0	1	0	1	0	2	0	2	0	4	3	4	2	4	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:52971767T>C	uc001vgo.2	-	3	1166	c.621A>G	c.(619-621)GCA>GCG	p.A207A	THSD1_uc001vgp.2_Silent_p.A207A|THSD1_uc010tgz.1_Intron|THSD1_uc010aea.2_Intron	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	207	Extracellular (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		GCCCCAAGGGTGCACAGCCAA	0.522													6	72					0	0	1	0	0		C	52971767	C	C	52971767	2	2	151	1	0	0	0	0	0	0	0	1	15902	1683	59	3		3	THSD1	13	52971767	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	423183	52971767	62198111	3084	80249											
CKAP2	26586	broad.mit.edu	37	chr13	53035683	53035683	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgactgccactactaaatTtgtgagcactacatctcaga	13	12	6	10	0	1	3	1	2	1	1	2	3	1	3	1	0	4	1	1	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:53035683T>C	uc001vgv.2	+	4	922	c.725T>C	c.(724-726)TTT>TCT	p.F242S	CKAP2_uc001vgt.2_Missense_Mutation_p.F241S|CKAP2_uc001vgu.2_Missense_Mutation_p.F241S|CKAP2_uc010tha.1_Missense_Mutation_p.F193S	NM_001098525	NP_001091995	Q8WWK9	CKAP2_HUMAN	cytoskeleton associated protein 2 isoform 2	242					apoptosis|cell cycle	centrosome|microtubule|spindle pole				ovary(1)|skin(1)	2		Breast(56;0.000207)|Lung NSC(96;0.00212)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.6e-08)		ACTACTAAATTTGTGAGCACT	0.428													21	85					0	0	1	0	0		C	53035683	C	C	53035683	3	2	151	1	0	0	0	0	1	0	0	0	3445	1841	64	3	739	3	CKAP2	13	53035683	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	63916	53035683	62134195	3085	80250											
PCDH17	27253	broad.mit.edu	37	chr13	58299162	58299162	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaagcaagcagtcagtacTtgcccactgacagtcaatat	13	9	8	11	0	2	2	2	2	0	0	2	2	2	2	1	0	4	3	1	0	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:58299162T>C	uc001vhq.1	+	4	4106	c.3214T>C	c.(3214-3216)TTG>CTG	p.L1072L	PCDH17_uc010aec.1_Silent_p.L1071L|PCDH17_uc001vhr.1_Silent_p.L161L	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	1072	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CAGTCAGTACTTGCCCACTGA	0.532													32	130					0	0	1	0	0		C	58299162	C	C	58299162	2	2	151	1	0	0	0	0	0	0	0	1	11531	1606	56	3		3	PCDH17	13	58299162	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5263479	58299162	56870716	3086	80251											
PCDH20	64881	broad.mit.edu	37	chr13	61987120	61987120	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtgttttcatccaggtgaAataaatccttagatgcttgt	11	15	8	7	0	1	2	1	1	0	1	3	2	3	2	2	1	1	2	2	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:61987120A>G	uc001vid.3	-	2	1476	c.1112T>C	c.(1111-1113)TTT>TCT	p.F371S	PCDH20_uc010thj.1_Missense_Mutation_p.F371S	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	344	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		ATCCAGGTGAAATAAATCCTT	0.433													5	241					0	0	1	0	0		G	61987120	G	G	61987120	3	3	151	1	0	0	0	0	1	0	0	0	11534	14	1	3	1747	3	PCDH20	13	61987120	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3687958	61987120	53182758	3087	80252											
DACH1	1602	broad.mit.edu	37	chr13	72053400	72053400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcagttttttccagttggaCctgtttctcttgagctctgg	4	18	9	10	0	3	1	1	1	2	0	5	2	4	2	2	2	1	4	2	2	0	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:72053400C>T	uc010thn.1	-	9	2194	c.1771G>A	c.(1771-1773)GTC>ATC	p.V591I	DACH1_uc010tho.1_Missense_Mutation_p.V443I|DACH1_uc010thp.1_Missense_Mutation_p.V389I	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	643	DACHbox-C.|Potential.|Interaction with SIN3A (By similarity).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		TCCAGTTGGACCTGTTTCTCT	0.378													27	160					0	0	1	0	0		T	72053400	T	T	72053400	3	4	151	1	0	0	0	0	1	0	0	0	4223	507	18	4	365	4	DACH1	13	72053400	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	10066280	72053400	43116478	3088	80253											
DIS3	22894	broad.mit.edu	37	chr13	73349347	73349347	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatcctgcttagattcatAccattcgttctgtctcttct	9	17	4	11	1	4	1	1	0	3	1	7	1	5	1	2	0	2	2	2	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:73349347A>G	uc001vix.3	-	6	1361	c.987_splice	c.e6+1	p.M329_splice	DIS3_uc001viy.3_Splice_Site_p.M299_splice|DIS3_uc001viz.2_Splice_Site	NM_014953	NP_055768	Q9Y2L1	RRP44_HUMAN	DIS3 mitotic control isoform a						CUT catabolic process|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA catabolic process|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|nucleoplasm	3'-5'-exoribonuclease activity|endonuclease activity|guanyl-nucleotide exchange factor activity|protein binding|RNA binding			central_nervous_system(1)	1		Breast(118;0.0074)|Acute lymphoblastic leukemia(28;0.0195)		GBM - Glioblastoma multiforme(99;0.000181)		TTAGATTCATACCATTCGTTC	0.358										Multiple Myeloma(4;0.011)			27	126					0	0	1	0	0		G	73349347	G	G	73349347	5	3	151	1	0	0	0	0	0	0	1	0	4541	405	14	3	1951	3	DIS3	13	73349347	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1295947	73349347	41820531	3089	80254											
PIBF1	10464	broad.mit.edu	37	chr13	73357645	73357645	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggagtcaaaaaaagtgaAcatctctagttctctggaat	17	10	8	6	0	3	1	1	1	2	0	5	3	3	3	0	2	1	1	0	2	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:73357645A>G	uc001vjc.2	+	2	343	c.38A>G	c.(37-39)AAC>AGC	p.N13S	PIBF1_uc001vja.1_Missense_Mutation_p.N13S|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Missense_Mutation_p.N13S|PIBF1_uc010aep.2_Intron|DIS3_uc001viy.3_5'Flank|DIS3_uc001vix.3_5'Flank|DIS3_uc001viz.2_5'Flank	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	13						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		AAAAAAGTGAACATCTCTAGT	0.318													9	121					0	0	1	0	0		G	73357645	G	G	73357645	3	3	151	1	0	0	0	0	1	0	0	0	11898	43	2	3	40	3	PIBF1	13	73357645	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	8298	73357645	41812233	3090	80255											
COMMD6	170622	broad.mit.edu	37	chr13	76100731	76100731	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagaatccgtcttcacacCgtttcaataactgcagcaat	14	10	5	12	2	3	1	2	0	1	1	4	1	4	1	2	0	3	3	2	0	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:76100731C>T	uc001vjo.1	-	4	302	c.252G>A	c.(250-252)ACG>ACA	p.T84T	COMMD6_uc001vjn.1_Silent_p.T97T|COMMD6_uc010aet.1_RNA|COMMD6_uc001vjp.1_RNA	NM_203495	NP_987091	Q7Z4G1	COMD6_HUMAN	COMM domain containing 6 isoform b	84	COMM.					cytoplasm|nucleus	protein binding				0		Breast(118;0.0979)|Prostate(6;0.122)		GBM - Glioblastoma multiforme(99;0.0104)		GTCTTCACACCGTTTCAATAA	0.328													55	215					0	0	1	0	0		T	76100731	T	T	76100731	2	4	151	1	0	0	0	0	0	0	0	1	3723	639	23	1		1	COMMD6	13	76100731	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2743086	76100731	39069147	3091	80256											
LMO7	4008	broad.mit.edu	37	chr13	76407252	76407252	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagagtcttgactttgggttTacaataaaatgggatattcc	13	14	9	5	0	1	2	0	1	1	1	2	3	2	3	1	2	1	1	1	2	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:76407252T>C	uc001vjv.2	+	13	3076	c.2316T>C	c.(2314-2316)TTT>TTC	p.F772F	LMO7_uc010thv.1_Silent_p.F723F|LMO7_uc001vjt.1_Silent_p.F671F|LMO7_uc010thw.1_Silent_p.F622F|LMO7_uc001vjw.1_Silent_p.F678F	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	1057	PDZ.					cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		ACTTTGGGTTTACAATAAAAT	0.398													21	94					0	0	1	0	0		C	76407252	C	C	76407252	2	2	151	1	0	0	0	0	0	0	0	1	8872	1751	61	3		3	LMO7	13	76407252	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	306521	76407252	38762626	3092	80257											
FBXL3	26224	broad.mit.edu	37	chr13	77581883	77581883	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtggtagttcagggctagTtctcttaagccgtgacactg	9	12	12	8	1	2	1	1	1	1	0	3	1	2	1	1	2	1	4	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:77581883T>C	uc001vkd.2	-	5	1055	c.684A>G	c.(682-684)GAA>GAG	p.E228E		NM_012158	NP_036290	Q9UKT7	FBXL3_HUMAN	F-box and leucine-rich repeat protein 3	228	LRR 3.				regulation of circadian rhythm|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.218)		GBM - Glioblastoma multiforme(99;0.0521)		TCAGGGCTAGTTCTCTTAAGC	0.348													31	95					0	0	1	0	0		C	77581883	C	C	77581883	2	2	151	1	0	0	0	0	0	0	0	1	5734	1722	60	3		3	FBXL3	13	77581883	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1174631	77581883	37587995	3093	80258											
FBXL3	26224	broad.mit.edu	37	chr13	77592813	77592813	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcaattcacaagttgcgaTagtatatcacaagctgcttc	13	11	8	9	1	2	0	2	0	0	0	3	2	2	0	0	0	4	5	0	0	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:77592813T>C	uc001vkd.2	-	3	764	c.393A>G	c.(391-393)CTA>CTG	p.L131L		NM_012158	NP_036290	Q9UKT7	FBXL3_HUMAN	F-box and leucine-rich repeat protein 3	131	LRR 1.				regulation of circadian rhythm|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.218)		GBM - Glioblastoma multiforme(99;0.0521)		CAAGTTGCGATAGTATATCAC	0.338													35	116					0	0	1	0	0		C	77592813	C	C	77592813	2	2	151	1	0	0	0	0	0	0	0	1	5734	1393	49	3		3	FBXL3	13	77592813	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10930	77592813	37577065	3094	80259											
EDNRB	1910	broad.mit.edu	37	chr13	78475265	78475265	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcacaggtcattagtgtAtaaaaaaatgcagtgatggc	15	12	9	5	0	2	1	2	1	0	0	2	1	2	1	0	2	1	2	0	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:78475265A>C	uc001vko.2	-	4	1137	c.879T>G	c.(877-879)TAT>TAG	p.Y293*	EDNRB_uc001vkq.1_Nonsense_Mutation_p.Y293*|uc001vkn.1_Intron|EDNRB_uc010aez.1_Nonsense_Mutation_p.Y293*|EDNRB_uc001vkp.1_Nonsense_Mutation_p.Y376*	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	293	Helical; Name=5; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	TCATTAGTGTATAAAAAAATG	0.338													31	107					0	0	1	0	0		C	78475265	C	C	78475265	4	2	151	1	0	0	0	0	0	1	0	0	4926	456	16	5	586	5	EDNRB	13	78475265	Nonsense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	882452	78475265	36694613	3095	80260											
POU4F1	5457	broad.mit.edu	37	chr13	79175650	79175650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtccagtttctcggcgatgGcggcgatcttctcggacgag	5	10	15	11	6	3	0	0	0	3	0	6	4	4	1	1	5	0	1	1	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:79175650G>A	uc001vkv.2	-	2	1394	c.1160C>T	c.(1159-1161)GCC>GTC	p.A387V	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	387	Homeobox.				axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		CTCGGCGATGGCGGCGATCTT	0.597													16	54					0	0	1	0	0		A	79175650	A	A	79175650	3	1	151	1	0	0	0	0	1	0	0	0	12297	1203	42	2	103	2	POU4F1	13	79175650	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	700385	79175650	35994228	3096	80261											
SLITRK6	84189	broad.mit.edu	37	chr13	86368224	86368224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactaataccttccttggaCgtgagtacattaatgtttcc	10	14	6	11	1	0	1	0	1	0	0	2	2	2	2	4	1	2	2	4	1	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:86368224C>T	uc001vll.1	-	2	2879	c.2420G>A	c.(2419-2421)CGT>CAT	p.R807H	SLITRK6_uc010afe.1_Missense_Mutation_p.R260H	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	807	Cytoplasmic (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		CTTCCTTGGACGTGAGTACAT	0.403													36	196					0	0	1	0	0		T	86368224	T	T	86368224	3	4	151	1	0	0	0	0	1	0	0	0	14772	536	19	1	109	1	SLITRK6	13	86368224	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	7192574	86368224	28801654	3097	80262											
SLITRK5	26050	broad.mit.edu	37	chr13	88329969	88329969	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggcaactccgtagaggatTacaaagacctgcacgagctc	13	6	11	11	2	0	2	0	0	0	2	2	4	1	3	2	2	4	4	2	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:88329969T>C	uc001vln.2	+	2	2545	c.2326T>C	c.(2326-2328)TAC>CAC	p.Y776H	SLITRK5_uc010tic.1_Missense_Mutation_p.Y535H	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	776	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CGTAGAGGATTACAAAGACCT	0.438													17	41					0	0	1	0	0		C	88329969	C	C	88329969	3	2	151	1	0	0	0	0	1	0	0	0	14771	1754	61	3	2328	3	SLITRK5	13	88329969	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1961745	88329969	26839909	3098	80263											
SLITRK5	26050	broad.mit.edu	37	chr13	88330275	88330275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcaatagcctcccggaatatCccaaattcccgtgcagcccc	10	7	7	17	2	0	0	0	0	0	0	3	1	3	1	6	1	3	2	6	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:88330275C>T	uc001vln.2	+	2	2851	c.2632C>T	c.(2632-2634)CCC>TCC	p.P878S	SLITRK5_uc010tic.1_Missense_Mutation_p.P637S	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	878	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CCCGGAATATCCCAAATTCCC	0.607													16	58					0	0	1	0	0		T	88330275	T	T	88330275	3	4	151	1	0	0	0	0	1	0	0	0	14771	855	30	4	2634	4	SLITRK5	13	88330275	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	306	88330275	26839603	3099	80264											
GPC5	2262	broad.mit.edu	37	chr13	92051382	92051382	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgcccgcagcgagggcgtgCagacctgcgaagaagttcgg	8	4	16	13	6	0	2	0	0	0	2	1	4	0	2	3	2	3	3	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:92051382C>T	uc010tif.1	+	1	448	c.82C>T	c.(82-84)CAG>TAG	p.Q28*		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	28						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				CGAGGGCGTGCAGACCTGCGA	0.682													5	3					0	0	1	0	0		T	92051382	T	T	92051382	4	4	151	1	0	0	0	0	0	1	0	0	6616	711	25	2	84	2	GPC5	13	92051382	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3721107	92051382	23118496	3100	80265											
DCT	1638	broad.mit.edu	37	chr13	95131364	95131364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgagagccacagacattgGccgactctgcacccaggcgt	9	6	12	14	2	1	2	0	1	1	2	1	4	1	2	3	2	2	2	3	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:95131364G>A	uc001vlv.3	-	1	573	c.146C>T	c.(145-147)GCC>GTC	p.A49V	DCT_uc010afh.2_Missense_Mutation_p.A49V	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	49	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		ACAGACATTGGCCGACTCTGC	0.617													22	50					0	0	1	0	0		A	95131364	A	A	95131364	3	1	151	1	0	0	0	0	1	0	0	0	4307	1203	42	2	1552	2	DCT	13	95131364	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3079982	95131364	20038514	3101	80266											
TGDS	23483	broad.mit.edu	37	chr13	95230367	95230367	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggacagtgagaaatgcttcTacaacatcagtagcataaag	17	8	9	7	0	2	1	1	1	1	1	2	3	2	2	0	1	4	3	0	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:95230367T>C	uc001vlw.2	-	9	838	c.717A>G	c.(715-717)GTA>GTG	p.V239V	TGDS_uc001vlx.2_RNA	NM_014305	NP_055120	O95455	TGDS_HUMAN	TDP-glucose 4,6-dehydratase	239					cellular metabolic process		coenzyme binding|dTDP-glucose 4,6-dehydratase activity|protein binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)					GAAATGCTTCTACAACATCAG	0.363													14	93					0	0	1	0	0		C	95230367	C	C	95230367	2	2	151	1	0	0	0	0	0	0	0	1	15839	1509	53	3		3	TGDS	13	95230367	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	99003	95230367	19939511	3102	80267											
TGDS	23483	broad.mit.edu	37	chr13	95243105	95243105	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaacataaaacaatgcttAcctacatgtgtttgtgcggc	12	13	8	8	1	0	0	0	0	0	0	0	0	0	0	1	1	6	3	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:95243105A>G	uc001vlw.2	-	4	434	c.313_splice	c.e4+1	p.D105_splice	TGDS_uc001vlx.2_Intron	NM_014305	NP_055120	O95455	TGDS_HUMAN	TDP-glucose 4,6-dehydratase						cellular metabolic process		coenzyme binding|dTDP-glucose 4,6-dehydratase activity|protein binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)					AACAATGCTTACCTACATGTG	0.368													28	171					0	0	1	0	0		G	95243105	G	G	95243105	5	3	151	1	0	0	0	0	0	0	1	0	15839	405	14	3	773	3	TGDS	13	95243105	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	12738	95243105	19926773	3103	80268											
GPR180	160897	broad.mit.edu	37	chr13	95275518	95275518	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcatcacagtggagagaagTacactcaaaagggagttcta	16	8	10	7	0	4	1	3	0	1	1	4	4	4	3	0	2	1	2	0	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:95275518T>C	uc001vly.2	+	7	1128	c.1050T>C	c.(1048-1050)AGT>AGC	p.S350S	GPR180_uc001vlz.2_Silent_p.S249S|GPR180_uc010afi.2_Silent_p.S111S	NM_180989	NP_851320	Q86V85	GP180_HUMAN	G protein-coupled receptor 180 precursor	350						integral to membrane				breast(1)	1	all_neural(89;0.0684)|Medulloblastoma(90;0.163)					TGGAGAGAAGTACACTCAAAA	0.408													5	199					0	0	1	0	0		C	95275518	C	C	95275518	2	2	151	1	0	0	0	0	0	0	0	1	6691	1635	57	3		3	GPR180	13	95275518	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	32413	95275518	19894360	3104	80269											
ABCC4	10257	broad.mit.edu	37	chr13	95695936	95695936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcaggtgaaggactcacCattatcttgtcgctgtcaat	9	12	9	11	2	3	1	2	1	1	0	5	2	4	2	2	2	0	2	2	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:95695936C>T	uc001vmd.3	-	29	3854	c.3735G>A	c.(3733-3735)ATG>ATA	p.M1245I	ABCC4_uc010afj.2_Intron|ABCC4_uc010afk.2_Missense_Mutation_p.M1198I	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	1245	ABC transporter 2.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	AAGGACTCACCATTATCTTGT	0.393													10	101					0	0	1	0	0		T	95695936	T	T	95695936	3	4	151	1	0	0	0	0	1	0	0	0	55	608	21	4	254	4	ABCC4	13	95695936	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	420418	95695936	19473942	3105	80270											
DNAJC3	5611	broad.mit.edu	37	chr13	96361576	96361576	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagctgatgctttatctcagTttcatgctgccgtaggtttg	6	17	10	8	1	2	1	2	1	1	0	3	1	2	1	1	1	4	6	1	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:96361576T>C	uc001vmq.2	+	2	286	c.178T>C	c.(178-180)TTT>CTT	p.F60L	DNAJC3_uc001vmp.2_Missense_Mutation_p.F60L|DNAJC3_uc001vmr.2_Missense_Mutation_p.F60L	NM_006260	NP_006251	Q13217	DNJC3_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 3	60	TPR 1.				protein folding|response to unfolded protein|response to virus		heat shock protein binding|protein kinase inhibitor activity|unfolded protein binding				0	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.126)			TTTATCTCAGTTTCATGCTGC	0.353													14	86					0	0	1	0	0		C	96361576	C	C	96361576	3	2	151	1	0	0	0	0	1	0	0	0	4653	1725	60	3	184	3	DNAJC3	13	96361576	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	665640	96361576	18808302	3106	80271											
FARP1	10160	broad.mit.edu	37	chr13	99020379	99020379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcttctttagggccaaagCacgttgttgttaagtttgtg	7	17	10	7	1	2	0	0	0	2	0	2	0	2	0	1	1	1	5	1	1	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:99020379C>T	uc001vnj.2	+	5	664	c.328C>T	c.(328-330)CAC>TAC	p.H110Y	FARP1_uc001vnh.2_Missense_Mutation_p.H110Y	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	110	FERM.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			AGGGCCAAAGCACGTTGTTGT	0.343													15	72					0	0	1	0	0		T	99020379	T	T	99020379	3	4	151	1	0	0	0	0	1	0	0	0	5690	710	25	2	565	2	FARP1	13	99020379	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2658803	99020379	16149499	3107	80272											
FARP1	10160	broad.mit.edu	37	chr13	99091385	99091385	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgacgtcctgctatacacgAgccgggggctgacggcctcc	7	6	13	15	5	0	1	0	1	0	0	2	3	2	1	4	3	3	2	4	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:99091385A>G	uc001vnj.2	+	21	2704	c.2368A>G	c.(2368-2370)AGC>GGC	p.S790G	FARP1_uc001vnh.2_Missense_Mutation_p.S821G	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	790	PH 1.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			GCTATACACGAGCCGGGGGCT	0.587													5	162					0	0	1	0	0		G	99091385	G	G	99091385	3	3	151	1	0	0	0	0	1	0	0	0	5690	304	11	3	2669	3	FARP1	13	99091385	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	71006	99091385	16078493	3108	80273											
FARP1	10160	broad.mit.edu	37	chr13	99092982	99092982	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatgacctgagcgcctcGcgcacatcgctggagcgcca	8	5	14	14	5	0	2	0	2	0	0	2	5	0	4	3	2	2	2	3	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:99092982G>A	uc001vnj.2	+	24	3024	c.2688G>A	c.(2686-2688)TCG>TCA	p.S896S	FARP1_uc001vnh.2_Silent_p.S927S	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	896					regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			TGAGCGCCTCGCGCACATCGC	0.627													11	49					0	0	1	0	0		A	99092982	A	A	99092982	2	1	151	1	0	0	0	0	0	0	0	1	5690	1074	38	1		1	FARP1	13	99092982	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1597	99092982	16076896	3109	80274											
SLC15A1	6564	broad.mit.edu	37	chr13	99337071	99337071	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctcatcaaattgagcttcGatctccgctgggttgatgta	8	14	9	10	2	3	2	2	2	1	0	6	3	4	2	2	1	1	4	2	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:99337071G>A	uc001vno.2	-	23	2111	c.2034C>T	c.(2032-2034)ATC>ATT	p.I678I		NM_005073	NP_005064	P46059	S15A1_HUMAN	solute carrier family 15 (oligopeptide	678	Cytoplasmic (Potential).				digestion|protein transport	integral to plasma membrane|membrane fraction	peptide:hydrogen symporter activity			ovary(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Cefadroxil(DB01140)|Ceftibuten(DB01415)|Cyclacillin(DB01000)	ATTGAGCTTCGATCTCCGCTG	0.443													16	73					0	0	1	0	0		A	99337071	A	A	99337071	2	1	151	1	0	0	0	0	0	0	0	1	14423	1048	37	1		1	SLC15A1	13	99337071	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	244089	99337071	15832807	3110	80275											
PCCA	5095	broad.mit.edu	37	chr13	101077939	101077939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcacgtggaacctggcttCgcccttattgtctgtcagcg	6	11	11	13	3	2	0	1	0	1	0	3	1	2	1	2	2	3	2	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:101077939C>T	uc001voo.2	+	20	1837	c.1799C>T	c.(1798-1800)TCG>TTG	p.S600L	PCCA_uc010aga.2_Missense_Mutation_p.S574L|PCCA_uc010tiz.1_Missense_Mutation_p.S600L|PCCA_uc001vop.2_RNA	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	600					fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	AACCTGGCTTCGCCCTTATTG	0.478													14	46					0	0	1	0	0		T	101077939	T	T	101077939	3	4	151	1	0	0	0	0	1	0	0	0	11523	893	31	1	1877	1	PCCA	13	101077939	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1740868	101077939	14091939	3111	80276											
NALCN	259232	broad.mit.edu	37	chr13	101755586	101755586	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcctcatctggggcaccagTttgaatatgcgcagaggtct	8	12	11	10	1	3	2	1	1	2	1	4	2	4	2	2	3	1	3	2	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:101755586T>C	uc001vox.1	-	26	3183	c.2994A>G	c.(2992-2994)AAA>AAG	p.K998K		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	998	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GGGGCACCAGTTTGAATATGC	0.438													26	159					0	0	1	0	0		C	101755586	C	C	101755586	2	2	151	1	0	0	0	0	0	0	0	1	10166	1722	60	3		3	NALCN	13	101755586	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	677647	101755586	13414292	3112	80277											
TPP2	7174	broad.mit.edu	37	chr13	103286306	103286306	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttccatttagtgctgaCggggcccttggtgtgagtat	5	14	14	8	1	0	2	0	2	0	0	1	2	1	2	2	4	1	3	2	4	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:103286306C>T	uc001vpi.3	+	11	1354	c.1251C>T	c.(1249-1251)GAC>GAT	p.D417D		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	417					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TTAGTGCTGACGGGGCCCTTG	0.458													21	104					0	0	1	0	0		T	103286306	T	T	103286306	2	4	151	1	0	0	0	0	0	0	0	1	16438	535	19	1		1	TPP2	13	103286306	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1530720	103286306	11883572	3113	80278											
C13orf27	93081	broad.mit.edu	37	chr13	103421785	103421785	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatgaggaagattcataTctcctgatgctccatgtgta	12	13	8	8	0	3	3	2	2	1	1	5	4	4	4	2	1	1	2	2	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:103421785T>A	uc001vpo.2	-	3	300	c.122A>T	c.(121-123)GAT>GTT	p.D41V	C13orf27_uc001vpn.2_5'UTR|C13orf27_uc001vpp.2_5'UTR	NM_138779	NP_620134	Q5JUR7	CM027_HUMAN	hypothetical protein LOC93081	41											0	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AAGATTCATATCTCCTGATGC	0.353													12	59					0	0	1	0	0		A	103421785	A	A	103421785	3	1	151	1	0	0	0	0	1	0	0	0	1726	1435	50	5	577	5	C13orf27	13	103421785	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	135479	103421785	11748093	3114	80279											
ERCC5	2073	broad.mit.edu	37	chr13	103514541	103514541	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaagaactttactagctAtgcaagctgccctgctggga	10	10	9	12	0	0	1	0	0	0	1	1	2	1	2	2	1	7	4	2	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:103514541A>G	uc001vpw.2	+	8	1485	c.1042A>G	c.(1042-1044)ATG>GTG	p.M348V	ERCC5_uc001vpu.1_Missense_Mutation_p.M802V|ERCC5_uc010tjb.1_Missense_Mutation_p.M348V|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Missense_Mutation_p.M180V	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	348					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					TTTACTAGCTATGCAAGCTGC	0.522			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				32	161					0	0	1	0	0		G	103514541	G	G	103514541	3	3	151	1	0	0	0	0	1	0	0	0	5224	449	16	3	1072	3	ERCC5	13	103514541	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	92756	103514541	11655337	3115	80280											
TUBGCP3	10426	broad.mit.edu	37	chr13	113159011	113159011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccaaaatgtgacactggtGcagcaccccggagaactctg	11	6	12	12	1	1	2	0	1	1	1	1	3	1	2	3	3	3	2	3	3	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:113159011G>A	uc001vse.1	-	18	2291	c.2104C>T	c.(2104-2106)CAC>TAC	p.H702Y	TUBGCP3_uc010tjq.1_Missense_Mutation_p.H692Y|TUBGCP3_uc001vsf.2_Missense_Mutation_p.H702Y	NM_006322	NP_006313	Q96CW5	GCP3_HUMAN	tubulin, gamma complex associated protein 3	702					G2/M transition of mitotic cell cycle|microtubule nucleation|single fertilization	centriole|cytosol|polar microtubule	gamma-tubulin binding|structural constituent of cytoskeleton			central_nervous_system(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)					TGACACTGGTGCAGCACCCCG	0.478													9	29					0	0	1	0	0		A	113159011	A	A	113159011	3	1	151	1	0	0	0	0	1	0	0	0	16793	1319	46	2	639	2	TUBGCP3	13	113159011	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	9644470	113159011	2010867	3116	80281											
ATP11A	23250	broad.mit.edu	37	chr13	113470490	113470490	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatgggacgtgccacgtcAccaccgccagcttggatgga	9	6	14	12	3	1	1	1	0	0	1	1	5	1	4	4	3	2	1	4	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:113470490A>G	uc001vsi.3	+	6	623	c.535A>G	c.(535-537)ACC>GCC	p.T179A	ATP11A_uc001vsj.3_Missense_Mutation_p.T179A|ATP11A_uc001vsm.1_Missense_Mutation_p.T55A	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	179	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				GTGCCACGTCACCACCGCCAG	0.552													10	45					0	0	1	0	0		G	113470490	G	G	113470490	3	3	151	1	0	0	0	0	1	0	0	0	1120	159	6	3	557	3	ATP11A	13	113470490	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	311479	113470490	1699388	3117	80282											
MCF2L	23263	broad.mit.edu	37	chr13	113718664	113718664	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttacacggttacatcgataAgtcgcagctgaccgaggacc	11	8	10	12	4	0	1	0	1	0	0	2	4	0	2	2	2	3	3	2	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:113718664A>G	uc001vsu.2	+	6	729	c.707A>G	c.(706-708)AAG>AGG	p.K236R	MCF2L_uc001vsq.2_Missense_Mutation_p.K236R|MCF2L_uc010tjr.1_Missense_Mutation_p.K179R|MCF2L_uc001vsr.2_Missense_Mutation_p.K183R|MCF2L_uc001vss.3_Missense_Mutation_p.K177R|MCF2L_uc010tjs.1_Missense_Mutation_p.K177R|MCF2L_uc001vst.1_Missense_Mutation_p.K141R	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	209	CRAL-TRIO.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				TACATCGATAAGTCGCAGCTG	0.602													19	81					0	0	1	0	0		G	113718664	G	G	113718664	3	3	151	1	0	0	0	0	1	0	0	0	9397	72	3	3	824	3	MCF2L	13	113718664	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	248174	113718664	1451214	3118	80283											
MCF2L	23263	broad.mit.edu	37	chr13	113739245	113739245	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagaagtactgtcagaacAagccccgctctgagagcctg	12	7	11	11	1	2	3	1	2	1	3	2	5	2	3	3	0	4	2	3	0	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:113739245A>C	uc001vsu.2	+	19	2294	c.2272A>C	c.(2272-2274)AAG>CAG	p.K758Q	MCF2L_uc001vsq.2_Missense_Mutation_p.K758Q|MCF2L_uc010tjr.1_Missense_Mutation_p.K701Q|MCF2L_uc001vsr.2_Missense_Mutation_p.K705Q|MCF2L_uc001vss.3_Missense_Mutation_p.K699Q|MCF2L_uc010tjs.1_Missense_Mutation_p.K699Q|MCF2L_uc001vst.1_Missense_Mutation_p.K663Q	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	731	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				CTGTCAGAACAAGCCCCGCTC	0.567													17	95					0	0	1	0	0		C	113739245	C	C	113739245	3	2	151	1	0	0	0	0	1	0	0	0	9397	131	5	5	2441	5	MCF2L	13	113739245	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	20581	113739245	1430633	3119	80284											
ADPRHL1	113622	broad.mit.edu	37	chr13	114083383	114083383	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggcgaacgacacaaacaggGccgtgcacagggagcccagg	12	1	15	13	4	0	0	0	0	0	0	0	3	0	1	2	4	4	1	2	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:114083383G>C	uc001vtq.1	-	4	617	c.530C>G	c.(529-531)GCC>GGC	p.A177G	ADPRHL1_uc001vtp.1_Missense_Mutation_p.A95G	NM_138430	NP_612439	Q8NDY3	ARHL1_HUMAN	ADP-ribosylhydrolase like 1 isoform 1	177					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0395)|all_epithelial(44;0.011)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.0195)|GBM - Glioblastoma multiforme(44;0.116)			CACAAACAGGGCCGTGCACAG	0.682													6	21					0	0	1	0	0		C	114083383	C	C	114083383	3	2	151	1	0	0	0	0	1	0	0	0	332	1203	42	5	550	5	ADPRHL1	13	114083383	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	344138	114083383	1086495	3120	80285											
TFDP1	7027	broad.mit.edu	37	chr13	114287550	114287550	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaacgaagtggcagacgagCtggttgcggagttcagtgct	10	8	15	8	3	1	1	1	0	0	1	1	4	1	2	0	3	4	5	0	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:114287550C>T	uc001vtw.2	+	6	636	c.424C>T	c.(424-426)CTG>TTG	p.L142L	TFDP1_uc010tkd.1_Silent_p.L47L|TFDP1_uc010tke.1_Silent_p.L47L|TFDP1_uc001vty.3_Silent_p.L142L|TFDP1_uc001vtx.2_Silent_p.L22L|TFDP1_uc010agx.2_Silent_p.L142L	NM_007111	NP_009042	Q14186	TFDP1_HUMAN	transcription factor Dp-1	142	Potential.				cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|regulation of transcription from RNA polymerase II promoter	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			lung(4)|ovary(2)|skin(1)	7	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.132)|all_epithelial(44;0.0731)|all_lung(25;0.149)|Breast(118;0.153)	all cancers(43;0.0576)			GGCAGACGAGCTGGTTGCGGA	0.587										TSP Lung(29;0.18)			11	25					0	0	1	0	0		T	114287550	T	T	114287550	2	4	151	1	0	0	0	0	0	0	0	1	15822	796	28	2		2	TFDP1	13	114287550	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	204167	114287550	882328	3121	80286											
FAM70B	348013	broad.mit.edu	37	chr13	114469097	114469097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccccacagaagggctttCgaggaggaagaagacgtcgc	11	5	13	12	3	0	3	0	0	0	3	3	6	1	5	3	3	0	1	3	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:114469097C>T	uc001vuh.2	+	2	83	c.56C>T	c.(55-57)TCG>TTG	p.S19L	FAM70B_uc010tkh.1_Missense_Mutation_p.S19L	NM_182614	NP_872420	Q8WV15	FA70B_HUMAN	family with sequence similarity 70, member B	19						integral to membrane					0	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.123)|all_epithelial(44;0.133)	all cancers(43;0.181)			GAAGGGCTTTCGAGGAGGAAG	0.637													20	84					0	0	1	0	0		T	114469097	T	T	114469097	3	4	151	1	0	0	0	0	1	0	0	0	5620	893	31	1	62	1	FAM70B	13	114469097	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	181547	114469097	700781	3122	80287											
GAS6	2621	broad.mit.edu	37	chr13	114523949	114523949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgacctccagtgtcatgcagCcgcggtagaacgcggtgact	8	8	13	12	4	1	3	1	2	0	1	2	3	2	3	3	2	3	2	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:114523949C>T	uc001vud.2	-	15	2078	c.1925G>A	c.(1924-1926)GGC>GAC	p.G642D	GAS6_uc001vug.2_Missense_Mutation_p.G343D|GAS6_uc001vuf.2_Missense_Mutation_p.G369D	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	685	Laminin G-like 2.				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				TGTCATGCAGCCGCGGTAGAA	0.667													5	22					0	0	1	0	0		T	114523949	T	T	114523949	3	4	151	1	0	0	0	0	1	0	0	0	6264	739	26	2	115	2	GAS6	13	114523949	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	54852	114523949	645929	3123	80288											
CDC16	8881	broad.mit.edu	37	chr13	115022679	115022679	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttttgttatgcatgaggtCggcgtggttgcatttcagaa	7	15	12	7	2	1	2	1	1	0	1	2	2	1	2	1	3	2	4	1	3	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:115022679C>T	uc001vuk.1	+	13	1422	c.1224C>T	c.(1222-1224)GTC>GTT	p.V408V	CDC16_uc001vul.1_Silent_p.V408V|CDC16_uc001vum.1_Silent_p.V314V|CDC16_uc001vun.1_Silent_p.V407V|CDC16_uc001vuo.1_Intron	NM_003903	NP_003894	Q13042	CDC16_HUMAN	anaphase-promoting complex, subunit 6	408	TPR 5.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cell proliferation|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	binding				0	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)			TGCATGAGGTCGGCGTGGTTG	0.423													50	162					0	0	1	0	0		T	115022679	T	T	115022679	2	4	151	1	0	0	0	0	0	0	0	1	3061	871	31	1		1	CDC16	13	115022679	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	498730	115022679	147199	3124	80289											
UPF3A	65110	broad.mit.edu	37	chr13	115051798	115051798	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctagaatatcctgcagtggTagagtttgctccattccaga	10	12	9	10	0	0	3	0	0	0	3	3	3	3	3	4	1	2	4	4	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr13:115051798T>C	uc001vup.2	+	4	480	c.443T>C	c.(442-444)GTA>GCA	p.V148A	UPF3A_uc001vuq.2_Intron|UPF3A_uc001vus.2_Intron|UPF3A_uc001vur.2_RNA|UPF3A_uc001vut.2_5'UTR|UPF3A_uc001vuu.2_5'UTR	NM_023011	NP_075387	Q9H1J1	REN3A_HUMAN	UPF3 regulator of nonsense transcripts homolog A	148					mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation	cytoplasm|nucleus|plasma membrane	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			skin(1)	1	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)	OV - Ovarian serous cystadenocarcinoma(48;0.195)|Epithelial(10;0.2)		CCTGCAGTGGTAGAGTTTGCT	0.408													11	130					0	0	1	0	0		C	115051798	C	C	115051798	3	2	151	1	0	0	0	0	1	0	0	0	17031	1638	57	3	457	3	UPF3A	13	115051798	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	29119	115051798	118080	3125	80290											
OR4K2	390431	broad.mit.edu	37	chr14	20344705	20344705	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggtcacaaaaccatctcTtttgatggctgccttaccca	11	11	6	13	0	2	1	1	1	1	0	3	1	2	1	3	2	3	1	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:20344705T>A	uc001vwh.1	+	1	279	c.279T>A	c.(277-279)TCT>TCA	p.S93S		NM_001005501	NP_001005501	Q8NGD2	OR4K2_HUMAN	olfactory receptor, family 4, subfamily K,	93	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AAACCATCTCTTTTGATGGCT	0.393													73	444					0	0	1	0	0		A	20344705	A	A	20344705	2	1	151	1	0	0	0	0	0	0	0	1	11091	1596	56	5		5	OR4K2	14	20344705	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08		20344705	87004835	3126	80291											
OR4K17	390436	broad.mit.edu	37	chr14	20586234	20586234	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcttgcctgtatagacatAtattttgtacaggtagtcat	12	15	8	6	0	1	1	1	0	0	1	1	1	1	1	1	1	3	4	1	1	7	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:20586234A>G	uc001vwo.1	+	1	669	c.669A>G	c.(667-669)ATA>ATG	p.I223M		NM_001004715	NP_001004715	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K,	195	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		GTATAGACATATATTTTGTAC	0.403													75	356					0	0	1	0	0		G	20586234	G	G	20586234	3	3	151	1	0	0	0	0	1	0	0	0	11090	439	16	3	671	3	OR4K17	14	20586234	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	241529	20586234	86763306	3127	80292											
CCNB1IP1	57820	broad.mit.edu	37	chr14	20781885	20781885	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctttgtatttgctgagtatAtatcttctccatctgtttca	7	20	6	8	0	4	1	1	1	3	0	5	1	4	1	1	0	1	5	1	0	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:20781885A>G	uc001vwv.2	-	6	1022	c.373T>C	c.(373-375)TAT>CAT	p.Y125H	CCNB1IP1_uc001vww.2_Missense_Mutation_p.Y125H|CCNB1IP1_uc001vwx.2_Missense_Mutation_p.Y125H|CCNB1IP1_uc001vwy.2_Missense_Mutation_p.Y125H|CCNB1IP1_uc001vwz.2_Missense_Mutation_p.Y125H	NM_182851	NP_878271	Q9NPC3	CIP1_HUMAN	cyclin B1 interacting protein 1 isoform 3	125						chromosome|nucleus	ligase activity|metal ion binding|protein binding		HMGA2/CCNB1IP1(2)	soft_tissue(2)|ovary(1)	3	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;8.86e-07)|all cancers(55;4.98e-06)	GBM - Glioblastoma multiforme(265;0.0164)		TGCTGAGTATATATCTTCTCC	0.378			T	HMGA2	leiomyoma								29	88					0	0	1	0	0		G	20781885	G	G	20781885	3	3	151	1	0	0	0	0	1	0	0	0	2915	449	16	3	468	3	CCNB1IP1	14	20781885	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	195651	20781885	86567655	3128	80293											
PARP2	10038	broad.mit.edu	37	chr14	20813565	20813565	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcctcagaatctgtgaaggCcttgctgttaaagggcaaag	11	11	11	8	0	2	2	1	1	1	1	3	2	3	2	2	2	1	3	2	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:20813565C>T	uc001vxc.2	+	3	282	c.254C>T	c.(253-255)GCC>GTC	p.A85V	RPPH1_uc001vxa.1_5'Flank|PARP2_uc001vxd.2_Missense_Mutation_p.A72V|PARP2_uc001vxb.1_Missense_Mutation_p.A85V	NM_005484	NP_005475	Q9UGN5	PARP2_HUMAN	poly (ADP-ribose) polymerase family, member 2	85	Potential.				protein ADP-ribosylation	nucleolus|nucleoplasm	DNA binding|NAD+ ADP-ribosyltransferase activity			ovary(1)|pancreas(1)	2	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;5.34e-07)|all cancers(55;3.7e-06)	GBM - Glioblastoma multiforme(265;0.00888)|READ - Rectum adenocarcinoma(17;0.0649)		TCTGTGAAGGCCTTGCTGTTA	0.458								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					14	72					0	0	1	0	0		T	20813565	T	T	20813565	3	4	151	1	0	0	0	0	1	0	0	0	11480	739	26	2	264	2	PARP2	14	20813565	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	31680	20813565	86535975	3129	80294											
APEX1	328	broad.mit.edu	37	chr14	20923812	20923812	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcgtaacgggaatgccgaAgcgtgggaaaaagggagcgg	12	5	18	6	5	0	0	0	0	0	0	1	4	0	3	1	4	4	2	1	4	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:20923812A>G	uc001vxg.2	+	2	340	c.8A>G	c.(7-9)AAG>AGG	p.K3R	OSGEP_uc001vxf.2_5'Flank|APEX1_uc001vxh.2_Missense_Mutation_p.K3R|APEX1_uc001vxi.2_Missense_Mutation_p.K3R|APEX1_uc001vxj.2_Missense_Mutation_p.K3R	NM_001641	NP_001632	P27695	APEX1_HUMAN	APEX nuclease 1	3	Necessary for interaction with YBX1, binding to RNA, NPM1-dependent association with rRNA, endoribonuclease activity on abasic RNA and localization in the nucleoli.				base-excision repair|DNA demethylation|DNA recombination|positive regulation of anti-apoptosis|positive regulation of DNA repair|regulation of mRNA stability|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|endoplasmic reticulum|mitochondrion|nuclear speck|nucleolus|perinuclear region of cytoplasm|ribosome	3'-5' exonuclease activity|chromatin DNA binding|damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|metal ion binding|oxidoreductase activity|phosphodiesterase I activity|protein binding|ribonuclease H activity|RNA binding|site-specific endodeoxyribonuclease activity, specific for altered base|transcription coactivator activity|transcription corepressor activity|uracil DNA N-glycosylase activity			ovary(2)|breast(2)	4	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;1.09e-07)|all cancers(55;1.19e-06)	GBM - Glioblastoma multiforme(265;0.0224)|READ - Rectum adenocarcinoma(17;0.193)	Lucanthone(DB04967)	GGAATGCCGAAGCGTGGGAAA	0.552								Direct_reversal_of_damage|Other_BER_factors					15	109					0	0	1	0	0		G	20923812	G	G	20923812	3	3	151	1	0	0	0	0	1	0	0	0	769	72	3	3	10	3	APEX1	14	20923812	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	110247	20923812	86425728	3130	80295											
RNASE9	390443	broad.mit.edu	37	chr14	21025069	21025069	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtggtctggcgggccctgTactaaaaaatttttccaaac	11	11	10	9	1	1	0	0	0	1	0	2	0	2	0	2	4	2	1	2	4	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:21025069T>C	uc010aho.2	-	4	319	c.160A>G	c.(160-162)ACA>GCA	p.T54A	RNASE9_uc001vxq.3_Missense_Mutation_p.T59A|RNASE9_uc010ahp.2_Missense_Mutation_p.T59A|RNASE9_uc010ahq.2_Missense_Mutation_p.T59A|RNASE9_uc010ahr.2_Missense_Mutation_p.T59A|RNASE9_uc010ahs.2_Missense_Mutation_p.T54A|RNASE9_uc010aht.2_Missense_Mutation_p.T54A|RNASE9_uc010ahu.2_Missense_Mutation_p.T54A	NM_001110357	NP_001103827	P60153	RNAS9_HUMAN	ribonuclease, RNase A family, 9 (non-active)	54						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			ovary(2)	2	all_cancers(95;0.00238)		Epithelial(56;3.32e-06)|all cancers(55;2.46e-05)	GBM - Glioblastoma multiforme(265;0.0141)		GCGGGCCCTGTACTAAAAAAT	0.388													50	177					0	0	1	0	0		C	21025069	C	C	21025069	3	2	151	1	0	0	0	0	1	0	0	0	13435	1638	57	3	461	3	RNASE9	14	21025069	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	101257	21025069	86324471	3131	80296											
OR6S1	341799	broad.mit.edu	37	chr14	21109390	21109390	+	Frame_Shift_Del	DEL	C	-	-																															gaccaagcacagggacgagtCcccccacccagcaggccaag																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:21109390delC	uc001vxv.1	-	1	461	c.461delG	c.(460-462)GGAfs	p.G154fs		NM_001001968	NP_001001968	Q8NH40	OR6S1_HUMAN	olfactory receptor, family 6, subfamily S,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00304)		Epithelial(56;1.23e-06)|all cancers(55;1.01e-05)	GBM - Glioblastoma multiforme(265;0.0135)		AGGGACGAGTCCCCCCACCCA	0.607													17	39	---	---	---	---						.	-	21109390	-	-	21109390	7	5	151	1	0	1	0	1	0	0	0	0	11228	855	30	0	538	0	OR6S1	14	21109390	Frame_Shift_Del	DEL	C	TCGA-CG-5721-01A-11D-1600-08	84321	21109390	86240150	3132	80297											
METT11D1	64745	broad.mit.edu	37	chr14	21460342	21460342	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacacgcactacgtaaaactAcctaccattggcaagaactg	15	8	6	12	2	0	1	0	0	0	1	0	1	0	1	2	1	6	3	2	1	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:21460342A>G	uc001vyn.2	+	4	621	c.424A>G	c.(424-426)ACC>GCC	p.T142A	METT11D1_uc010tlk.1_Silent_p.L152L|METT11D1_uc001vym.2_Missense_Mutation_p.T142A|METT11D1_uc001vyo.2_Missense_Mutation_p.T142A|METT11D1_uc001vyp.2_5'UTR|METT11D1_uc001vyq.2_5'UTR	NM_022734	NP_073571	Q9H7H0	MET17_HUMAN	methyltransferase 11 domain containing 1 isoform	142					translation	mitochondrion|ribosome	copper ion binding|methyltransferase activity				0	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0191)		ACGTAAAACTACCTACCATTG	0.478													17	64					0	0	1	0	0		G	21460342	G	G	21460342	3	3	151	1	0	0	0	0	1	0	0	0	9509	391	14	3	438	3	METT11D1	14	21460342	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	350952	21460342	85889198	3133	80298											
NDRG2	57447	broad.mit.edu	37	chr14	21486152	21486152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcccgatactcactgtagcCcatgccttgcaggaagtact	9	10	9	13	1	1	0	1	0	0	0	2	2	2	1	3	1	5	3	3	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:21486152C>T	uc001vyy.2	-	16	1093	c.943G>A	c.(943-945)GGC>AGC	p.G315S	NDRG2_uc010tll.1_Missense_Mutation_p.G311S|NDRG2_uc001vyt.2_Missense_Mutation_p.G228S|NDRG2_uc001vyu.2_Missense_Mutation_p.G272S|NDRG2_uc001vyv.2_Missense_Mutation_p.G301S|NDRG2_uc001vyw.2_Missense_Mutation_p.G301S|NDRG2_uc001vzb.2_Missense_Mutation_p.G255S|NDRG2_uc001vyx.2_Missense_Mutation_p.G315S|NDRG2_uc001vza.2_Missense_Mutation_p.G301S|NDRG2_uc001vyz.2_Missense_Mutation_p.G301S|NDRG2_uc001vzc.2_Missense_Mutation_p.G285S|NDRG2_uc001vze.2_Missense_Mutation_p.G315S|NDRG2_uc001vzd.2_Missense_Mutation_p.G315S|NDRG2_uc001vzg.2_Missense_Mutation_p.G301S|NDRG2_uc001vzf.2_Missense_Mutation_p.G301S|NDRG2_uc010aig.2_Missense_Mutation_p.G304S	NM_201540	NP_963834	Q9UN36	NDRG2_HUMAN	N-myc downstream-regulated gene 2 isoform a	315					cell differentiation|nervous system development	centrosome|cytosol|Golgi apparatus|nucleus|perinuclear region of cytoplasm				ovary(1)|breast(1)	2	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;6.85e-11)|Epithelial(56;9.49e-09)|all cancers(55;3.84e-08)	GBM - Glioblastoma multiforme(265;0.0191)		TCACTGTAGCCCATGCCTTGC	0.552													63	222					0	0	1	0	0		T	21486152	T	T	21486152	3	4	151	1	0	0	0	0	1	0	0	0	10271	623	22	4	180	4	NDRG2	14	21486152	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	25810	21486152	85863388	3134	80299											
RNASE13	440163	broad.mit.edu	37	chr14	21502245	21502245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacataatggatctttgggCaatctgaattttgcatcttg	10	16	8	7	0	4	1	1	1	3	0	4	2	4	2	0	2	1	2	0	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:21502245C>T	uc001vzj.2	-	2	341	c.203G>A	c.(202-204)TGC>TAC	p.C68Y	NDRG2_uc010tll.1_Intron	NM_001012264	NP_001012264	Q5GAN3	RNS13_HUMAN	ribonuclease, RNase A family, 13 precursor	68						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			upper_aerodigestive_tract(1)	1	all_cancers(95;0.000759)		OV - Ovarian serous cystadenocarcinoma(11;6.85e-11)|Epithelial(56;9.49e-09)|all cancers(55;3.84e-08)	GBM - Glioblastoma multiforme(265;0.019)		GATCTTTGGGCAATCTGAATT	0.433													35	113					0	0	1	0	0		T	21502245	T	T	21502245	3	4	151	1	0	0	0	0	1	0	0	0	13428	710	25	2	271	2	RNASE13	14	21502245	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	16093	21502245	85847295	3135	80300											
RPGRIP1	57096	broad.mit.edu	37	chr14	21771652	21771652	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtggcctaaagatgaaaaTtttgaacagagaagctcatt	16	11	9	5	0	1	4	1	2	0	2	1	5	1	4	1	1	2	1	1	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:21771652T>C	uc001wag.2	+	5	750	c.750T>C	c.(748-750)AAT>AAC	p.N250N		NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	250					response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		AAGATGAAAATTTTGAACAGA	0.473													7	74					0	0	1	0	0		C	21771652	C	C	21771652	2	2	151	1	0	0	0	0	0	0	0	1	13574	1490	52	3		3	RPGRIP1	14	21771652	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	269407	21771652	85577888	3136	80301											
SUPT16H	11198	broad.mit.edu	37	chr14	21831045	21831045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgtagatcttcatttcccGaatatgtggttccttaggca	9	15	9	8	1	2	1	1	0	1	1	4	3	4	1	2	2	0	3	2	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:21831045G>A	uc001wao.2	-	14	1912	c.1573C>T	c.(1573-1575)CGG>TGG	p.R525W		NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	525					DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		TTCATTTCCCGAATATGTGGT	0.408													53	194					0	0	1	0	0		A	21831045	A	A	21831045	3	1	151	1	0	0	0	0	1	0	0	0	15421	1057	37	1	1622	1	SUPT16H	14	21831045	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	59393	21831045	85518495	3137	80302											
SUPT16H	11198	broad.mit.edu	37	chr14	21852192	21852192	+	Translation_Start_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctcccaatgacccggaagTatcgacctcaaagatgccct	11	8	7	15	2	2	2	1	1	1	1	4	4	2	3	4	1	1	1	4	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:21852192T>C	uc001wao.2	-	1	234	c.-105A>G	c.(-107--103)ATACT>ATGCT		SUPT16H_uc001wap.2_Translation_Start_Site|SUPT16H_uc001waq.1_Translation_Start_Site	NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation						DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		GACCCGGAAGTATCGACCTCA	0.507													3	13					0	0	1	0	0		C	21852192	C	C	21852192	1	2	151	1	0	0	0	0	0	0	0	0	15421	1653	57	3		3	SUPT16H	14	21852192	Translation_Start_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	21147	21852192	85497348	3138	80303											
RAB2B	84932	broad.mit.edu	37	chr14	21931909	21931909	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttctctcttcacatccCtgcgggactctaggtcactg	5	14	7	15	1	6	0	2	0	4	0	8	1	7	1	1	2	1	0	1	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:21931909C>A	uc010tlt.1	-	6	481	c.380G>T	c.(379-381)AGG>ATG	p.R127M	RAB2B_uc010tls.1_Missense_Mutation_p.R81M|RAB2B_uc001wax.2_Missense_Mutation_p.R62M|RAB2B_uc010ain.2_Missense_Mutation_p.R18M	NM_032846	NP_116235	Q8WUD1	RAB2B_HUMAN	RAB2B protein isoform 1	127					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane|plasma membrane	GTP binding			ovary(1)	1	all_cancers(95;0.000858)		Epithelial(56;1.53e-06)|all cancers(55;1.44e-05)	GBM - Glioblastoma multiforme(265;0.00391)		CTTCACATCCCTGCGGGACTC	0.403													23	148					1.04121e-07	1.06493e-07	1	1	0		A	21931909	A	A	21931909	3	1	151	1	0	0	0	0	1	0	0	0	12943	681	24	5	282	5	RAB2B	14	21931909	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	79717	21931909	85417631	3139	80304											
ABHD4	63874	broad.mit.edu	37	chr14	23072501	23072501	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgatctgcttggcttcgggCgaagctcaaggccagcattc	7	10	12	12	3	2	0	1	0	1	0	5	2	2	0	1	3	3	4	1	3	2	3	rs148116289		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:23072501C>T	uc001wgm.2	+	3	388	c.319C>T	c.(319-321)CGA>TGA	p.R107*	ABHD4_uc010tmz.1_Nonsense_Mutation_p.R107*|ABHD4_uc010tna.1_Nonsense_Mutation_p.R107*|ABHD4_uc010tnb.1_RNA	NM_022060	NP_071343	Q8TB40	ABHD4_HUMAN	abhydrolase domain containing 4	107					lipid catabolic process		hydrolase activity			central_nervous_system(1)	1	all_cancers(95;5.49e-05)			GBM - Glioblastoma multiforme(265;0.0153)		TGGCTTCGGGCGAAGCTCAAG	0.607													12	55					0	0	1	0	0		T	23072501	T	T	23072501	4	4	151	1	0	0	0	0	0	1	0	0	84	760	27	1	329	1	ABHD4	14	23072501	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1140592	23072501	84277039	3140	80305											
ABHD4	63874	broad.mit.edu	37	chr14	23072664	23072664	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactcaatcaagtaccctgAtaggtaataaggagatggct	14	11	9	7	0	2	2	2	1	0	1	2	3	2	2	1	3	2	3	1	3	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:23072664A>C	uc001wgm.2	+	3	551	c.482A>C	c.(481-483)GAT>GCT	p.D161A	ABHD4_uc010tmz.1_Missense_Mutation_p.D161A|ABHD4_uc010tna.1_Missense_Mutation_p.D161A|ABHD4_uc010tnb.1_RNA	NM_022060	NP_071343	Q8TB40	ABHD4_HUMAN	abhydrolase domain containing 4	161					lipid catabolic process		hydrolase activity			central_nervous_system(1)	1	all_cancers(95;5.49e-05)			GBM - Glioblastoma multiforme(265;0.0153)		AAGTACCCTGATAGGTAATAA	0.502													4	160					0	0	1	0	0		C	23072664	C	C	23072664	3	2	151	1	0	0	0	0	1	0	0	0	84	333	12	5	492	5	ABHD4	14	23072664	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	163	23072664	84276876	3141	80306											
REM2	161253	broad.mit.edu	37	chr14	23354218	23354218	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgctcacgaaccggagAacccaggtatttggggaagc	12	6	13	10	2	1	1	1	0	0	1	1	4	1	2	2	4	4	2	2	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:23354218A>C	uc001whf.1	+	2	504	c.439A>C	c.(439-441)AAC>CAC	p.N147H	REM2_uc010tnd.1_Missense_Mutation_p.N139H	NM_173527	NP_775798	Q8IYK8	REM2_HUMAN	rad and gem related GTP binding protein 2	147					regulation of transcription, DNA-dependent|small GTPase mediated signal transduction	intracellular|plasma membrane	ATP binding|GTP binding|transcription factor binding			large_intestine(1)|central_nervous_system(1)	2	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.012)		CGAACCGGAGAACCCAGGTAT	0.617													3	40					0	0	1	0	0		C	23354218	C	C	23354218	3	2	151	1	0	0	0	0	1	0	0	0	13248	246	9	5	445	5	REM2	14	23354218	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	281554	23354218	83995322	3142	80307											
CDH24	64403	broad.mit.edu	37	chr14	23519067	23519067	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtcacacacaaaagtatcGtagggctcagccagctgggg	12	6	13	10	1	2	0	2	0	0	0	3	1	2	0	1	3	2	4	1	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:23519067G>A	uc001wil.2	-	10	1823	c.1563C>T	c.(1561-1563)TAC>TAT	p.Y521Y	CDH24_uc001wik.3_RNA|CDH24_uc010akf.2_Silent_p.Y483Y	NM_022478	NP_071923	Q86UP0	CAD24_HUMAN	cadherin-like 24 isoform 1	521	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|cell-cell adhesion|homophilic cell adhesion	cell-cell junction|cell-cell junction|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|delta-catenin binding			central_nervous_system(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		CAAAAGTATCGTAGGGCTCAG	0.597													12	41					0	0	1	0	0		A	23519067	A	A	23519067	2	1	151	1	0	0	0	0	0	0	0	1	3112	1140	40	1		1	CDH24	14	23519067	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	164849	23519067	83830473	3143	80308											
ACIN1	22985	broad.mit.edu	37	chr14	23549358	23549358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtcagcatctgtattaggagGagataactgaatgaggacag	14	9	13	5	0	2	3	1	2	1	1	2	6	2	5	0	3	2	2	0	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:23549358G>A	uc001wit.3	-	6	1688	c.1360C>T	c.(1360-1362)CCT>TCT	p.P454S	ACIN1_uc001wis.3_Missense_Mutation_p.P136S|ACIN1_uc010akg.2_Missense_Mutation_p.P454S|ACIN1_uc010tnj.1_Missense_Mutation_p.P414S	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	454					apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		GTATTAGGAGGAGATAACTGA	0.502													22	124					0	0	1	0	0		A	23549358	A	A	23549358	3	1	151	1	0	0	0	0	1	0	0	0	142	1174	41	4	2868	4	ACIN1	14	23549358	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	30291	23549358	83800182	3144	80309											
EFS	10278	broad.mit.edu	37	chr14	23828545	23828545	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttcaggtggacatagtcaTactcctcggccatcggaatg	9	10	10	12	2	2	0	2	0	0	0	5	2	3	2	3	4	1	0	3	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:23828545T>C	uc001wjo.2	-	4	1750	c.1142A>G	c.(1141-1143)TAT>TGT	p.Y381C	EFS_uc001wjp.2_Missense_Mutation_p.Y288C|EFS_uc010tnm.1_Missense_Mutation_p.Y212C	NM_005864	NP_005855	O43281	EFS_HUMAN	embryonal Fyn-associated substrate isoform 1	381					cell adhesion|intracellular signal transduction	cytoplasm	SH3 domain binding			large_intestine(1)	1	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00649)		GACATAGTCATACTCCTCGGC	0.642													38	187					0	0	1	0	0		C	23828545	C	C	23828545	3	2	151	1	0	0	0	0	1	0	0	0	4965	1406	49	3	555	3	EFS	14	23828545	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	279187	23828545	83520995	3145	80310											
MYH6	4624	broad.mit.edu	37	chr14	23861786	23861786	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcacctggttttccttcagTttcttctgtagttgaagggc	5	17	10	9	0	4	1	2	1	2	0	5	1	5	1	2	2	0	4	2	2	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:23861786T>C	uc001wjv.2	-	25	3394	c.3327A>G	c.(3325-3327)AAA>AAG	p.K1109K		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1109	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TTTCCTTCAGTTTCTTCTGTA	0.502													7	394					0	0	1	0	0		C	23861786	C	C	23861786	2	2	151	1	0	0	0	0	0	0	0	1	10056	1722	60	3		3	MYH6	14	23861786	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	33241	23861786	83487754	3146	80311											
MYH7	4625	broad.mit.edu	37	chr14	23885260	23885260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgcttctgggcctcggcggCcatgcggttggcgtggctga	2	11	17	11	4	1	1	0	1	1	0	2	1	1	1	2	6	2	3	2	6	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:23885260C>T	uc001wjx.2	-	34	5012	c.4906G>A	c.(4906-4908)GCC>ACC	p.A1636T		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1636	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		GCCTCGGCGGCCATGCGGTTG	0.607													11	51					0	0	1	0	0		T	23885260	T	T	23885260	3	4	151	1	0	0	0	0	1	0	0	0	10057	739	26	2	929	2	MYH7	14	23885260	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	23474	23885260	83464280	3147	80312											
NGDN	25983	broad.mit.edu	37	chr14	23946446	23946446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgatggtgcgtttgagcGtcagtaagcgagagaaagga	12	8	16	5	3	1	3	1	2	0	1	1	6	1	4	0	2	3	3	0	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:23946446G>A	uc001wjy.2	+	9	778	c.751G>A	c.(751-753)GTC>ATC	p.V251I	NGDN_uc001wjz.2_Missense_Mutation_p.V251I|NGDN_uc001wka.2_RNA	NM_001042635	NP_001036100	Q8NEJ9	NGDN_HUMAN	neuroguidin isoform 1	251					regulation of translation	axon|cytoplasm|dendrite|filopodium|nucleus					0	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		GCGTTTGAGCGTCAGTAAGCG	0.498													30	79					0	0	1	0	0		A	23946446	A	A	23946446	3	1	151	1	0	0	0	0	1	0	0	0	10412	1145	40	1	785	1	NGDN	14	23946446	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	61186	23946446	83403094	3148	80313											
CPNE6	9362	broad.mit.edu	37	chr14	24542843	24542843	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacggagccaccagccccCgaaatgataccttcctcggc	10	5	10	16	3	0	1	0	1	0	0	2	4	1	3	6	3	3	0	6	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:24542843C>T	uc001wll.2	+	3	403	c.304C>T	c.(304-306)CGA>TGA	p.R102*	CPNE6_uc010tnv.1_Nonsense_Mutation_p.R157*|CPNE6_uc001wlm.2_5'UTR|CPNE6_uc001wln.2_5'Flank	NM_006032	NP_006023	O95741	CPNE6_HUMAN	copine 6	102	C2 1.				lipid metabolic process|nervous system development|synaptic transmission|vesicle-mediated transport		calcium ion binding|transporter activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0184)		CACCAGCCCCCGAAATGATAC	0.607													9	59					0	0	1	0	0		T	24542843	T	T	24542843	4	4	151	1	0	0	0	0	0	1	0	0	3819	644	23	1	310	1	CPNE6	14	24542843	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	596397	24542843	82806697	3149	80314											
DCAF11	80344	broad.mit.edu	37	chr14	24588368	24588368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttaggccagatgagcgtcGctttgctgtcttctccattg	5	16	10	10	2	2	2	0	1	2	1	4	2	2	2	2	1	2	2	2	1	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:24588368G>A	uc001wlv.2	+	9	1074	c.794G>A	c.(793-795)CGC>CAC	p.R265H	DCAF11_uc001wlw.2_Missense_Mutation_p.R265H|DCAF11_uc001wlz.2_Missense_Mutation_p.R165H|DCAF11_uc001wly.2_Missense_Mutation_p.R221H|DCAF11_uc001wme.2_Missense_Mutation_p.R225H|DCAF11_uc010tny.1_Missense_Mutation_p.R132H|DCAF11_uc001wmd.2_Missense_Mutation_p.R265H|DCAF11_uc001wmc.2_Missense_Mutation_p.R165H|DCAF11_uc001wmb.3_Missense_Mutation_p.R239H|DCAF11_uc001wma.3_Missense_Mutation_p.R265H	NM_001163484	NP_001156956	Q8TEB1	DCA11_HUMAN	DDB1 and CUL4 associated factor 11 isoform 1	265	WD 3.					CUL4 RING ubiquitin ligase complex	protein binding				0						GATGAGCGTCGCTTTGCTGTC	0.458													64	241					0	0	1	0	0		A	24588368	A	A	24588368	3	1	151	1	0	0	0	0	1	0	0	0	4265	1087	38	1	824	1	DCAF11	14	24588368	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	45525	24588368	82761172	3150	80315											
IRF9	10379	broad.mit.edu	37	chr14	24634066	24634066	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcctttgccccatccccaTctcctggaatgcaccccagg	6	8	8	19	1	1	0	0	0	1	0	3	1	2	1	8	2	2	1	8	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:24634066T>C	uc001wmq.2	+	7	1020	c.893T>C	c.(892-894)ATC>ACC	p.I298T	RNF31_uc001wmp.2_RNA|IRF9_uc010alj.2_Intron	NM_006084	NP_006075	Q00978	IRF9_HUMAN	interferon-stimulated transcription factor 3,	298					interferon-gamma-mediated signaling pathway|response to virus|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|nucleoplasm	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00853)		CCCATCCCCATCTCCTGGAAT	0.657													19	79					0	0	1	0	0		C	24634066	C	C	24634066	3	2	151	1	0	0	0	0	1	0	0	0	7853	1435	50	3	915	3	IRF9	14	24634066	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	45698	24634066	82715474	3151	80316											
GMPR2	51292	broad.mit.edu	37	chr14	24707913	24707913	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagcagctaagctcaaaGagttgagcaggagaactacc	14	6	13	8	0	1	3	1	1	0	2	1	5	1	4	1	2	6	5	1	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:24707913G>T	uc001wnr.2	+	10	1358	c.976G>T	c.(976-978)GAG>TAG	p.E326*	GMPR2_uc001wnv.2_Nonsense_Mutation_p.E163*|GMPR2_uc001wns.2_Nonsense_Mutation_p.E326*|GMPR2_uc001wnt.2_Nonsense_Mutation_p.E293*|GMPR2_uc001wnu.2_Nonsense_Mutation_p.E351*|GMPR2_uc001wnw.2_Nonsense_Mutation_p.E326*|GMPR2_uc010all.2_Nonsense_Mutation_p.E298*|GMPR2_uc001wnx.2_Nonsense_Mutation_p.E344*|GMPR2_uc010tod.1_Nonsense_Mutation_p.E293*|GMPR2_uc010alk.1_Nonsense_Mutation_p.E387*|GMPR2_uc010toe.1_Nonsense_Mutation_p.E387*	NM_001002001	NP_001002001	Q9P2T1	GMPR2_HUMAN	guanosine monophosphate reductase 2 isoform 2	326					nucleotide metabolic process|purine base metabolic process|purine-containing compound salvage	cytosol	GMP reductase activity|metal ion binding			ovary(3)	3				GBM - Glioblastoma multiforme(265;0.0181)		TAAGCTCAAAGAGTTGAGCAG	0.512													35	94					6.19805e-25	6.48956e-25	1	1	0		T	24707913	T	T	24707913	4	4	151	1	0	0	0	0	0	1	0	0	6512	943	33	5	1064	5	GMPR2	14	24707913	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	73847	24707913	82641627	3152	80317											
TGM1	7051	broad.mit.edu	37	chr14	24723893	24723893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagggagaggtctggggtgcGcagacggaaggtgtgctgct	7	7	21	6	2	1	2	0	0	1	2	1	5	1	3	0	6	3	3	0	6	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:24723893G>A	uc001wod.2	-	13	2189	c.2065C>T	c.(2065-2067)CGC>TGC	p.R689C	TGM1_uc010tog.1_Missense_Mutation_p.R247C	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	689					cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	TCTGGGGTGCGCAGACGGAAG	0.632													18	78					0	0	1	0	0		A	24723893	A	A	24723893	3	1	151	1	0	0	0	0	1	0	0	0	15854	1087	38	1	400	1	TGM1	14	24723893	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	15980	24723893	82625647	3153	80318											
C14orf21	161424	broad.mit.edu	37	chr14	24773340	24773340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttctccactcctggtcttGtacttcgaagtctgggtgcc	5	14	9	13	1	3	0	0	0	3	0	6	1	4	0	3	2	2	1	3	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:24773340G>A	uc001wol.1	+	8	1567	c.1504G>A	c.(1504-1506)GTA>ATA	p.V502I	C14orf21_uc001wom.1_Missense_Mutation_p.V53I	NM_174913	NP_777573	Q86U38	CN021_HUMAN	hypothetical protein LOC161424	502							RNA binding			breast(2)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(265;0.0185)		TCCTGGTCTTGTACTTCGAAG	0.602													11	75					0	0	1	0	0		A	24773340	A	A	24773340	3	1	151	1	0	0	0	0	1	0	0	0	1772	1377	48	4	1534	4	C14orf21	14	24773340	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	49447	24773340	82576200	3154	80319											
FOXG1	2290	broad.mit.edu	37	chr14	29237117	29237117	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacggcatctacgagttcaTcatgaagaacttcccttact	12	11	6	12	2	3	2	2	1	1	1	4	3	4	2	1	1	4	2	1	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:29237117T>C	uc001wqe.2	+	1	831	c.632T>C	c.(631-633)ATC>ACC	p.I211T		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	211	Fork-head.				axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		TACGAGTTCATCATGAAGAAC	0.572													8	38					0	0	1	0	0		C	29237117	C	C	29237117	3	2	151	1	0	0	0	0	1	0	0	0	6021	1435	50	3	634	3	FOXG1	14	29237117	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4463777	29237117	78112423	3155	80320											
FOXG1	2290	broad.mit.edu	37	chr14	29237605	29237605	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtcaacggggagatcccgTacgccacgcaccacctcacg	9	5	11	16	5	2	1	2	0	0	1	3	2	3	1	4	3	2	2	4	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:29237605T>C	uc001wqe.2	+	1	1319	c.1120T>C	c.(1120-1122)TAC>CAC	p.Y374H		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	374					axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		GGAGATCCCGTACGCCACGCA	0.677													5	33					0	0	1	0	0		C	29237605	C	C	29237605	3	2	151	1	0	0	0	0	1	0	0	0	6021	1638	57	3	1122	3	FOXG1	14	29237605	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	488	29237605	78111935	3156	80321											
PRKD1	5587	broad.mit.edu	37	chr14	30066890	30066890	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctcaggagccaggtaagcGggggtacccaccactgacct	10	5	12	14	1	1	1	1	1	0	0	1	2	1	2	5	4	3	2	5	4	2	2	rs147092748		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:30066890G>A	uc001wqh.2	-	16	2422	c.2241C>T	c.(2239-2241)CCC>CCT	p.P747P		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	747	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		CCAGGTAAGCGGGGGTACCCA	0.488													26	102					0	0	1	0	0		A	30066890	A	A	30066890	2	1	151	1	0	0	0	0	0	0	0	1	12540	1103	39	1		1	PRKD1	14	30066890	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	829285	30066890	77282650	3157	80322											
HECTD1	25831	broad.mit.edu	37	chr14	31597063	31597063	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaggctggtggttaaagTgttacttaaagattgaccaa	12	13	12	4	0	0	3	0	2	0	1	0	3	0	3	1	3	1	3	1	3	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:31597063T>C	uc001wrc.1	-	26	5398	c.4909A>G	c.(4909-4911)ACT>GCT	p.T1637A	HECTD1_uc001wrb.1_5'UTR|HECTD1_uc001wrd.1_Missense_Mutation_p.T1105A	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1637	Ser-rich.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		GTGGTTAAAGTGTTACTTAAA	0.373													31	170					0	0	1	0	0		C	31597063	C	C	31597063	3	2	151	1	0	0	0	0	1	0	0	0	7055	1696	59	3	2995	3	HECTD1	14	31597063	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1530173	31597063	75752477	3158	80323											
HECTD1	25831	broad.mit.edu	37	chr14	31597105	31597105	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgataaaactgttgttgctgTagctacattgctgctgctag	9	15	10	7	0	0	1	0	1	0	0	0	1	0	1	0	0	7	8	0	0	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:31597105T>C	uc001wrc.1	-	26	5356	c.4867A>G	c.(4867-4869)ACA>GCA	p.T1623A	HECTD1_uc001wrb.1_5'UTR|HECTD1_uc001wrd.1_Missense_Mutation_p.T1091A	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1623	Ser-rich.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		GTTGTTGCTGTAGCTACATTG	0.433													30	145					0	0	1	0	0		C	31597105	C	C	31597105	3	2	151	1	0	0	0	0	1	0	0	0	7055	1638	57	3	3037	3	HECTD1	14	31597105	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	42	31597105	75752435	3159	80324											
HECTD1	25831	broad.mit.edu	37	chr14	31598572	31598572	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcagggtcgtaccctggTgcaagcttgaggtcaaattt	9	12	12	8	1	2	1	2	1	0	0	3	1	2	1	1	3	3	4	1	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:31598572T>C	uc001wrc.1	-	25	4494	c.4005A>G	c.(4003-4005)GCA>GCG	p.A1335A	HECTD1_uc001wrb.1_5'Flank|HECTD1_uc001wrd.1_Intron	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1335	MIB/HERC2.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		CGTACCCTGGTGCAAGCTTGA	0.507													32	111					0	0	1	0	0		C	31598572	C	C	31598572	2	2	151	1	0	0	0	0	0	0	0	1	7055	1683	59	3		3	HECTD1	14	31598572	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1467	31598572	75750968	3160	80325											
HECTD1	25831	broad.mit.edu	37	chr14	31605831	31605831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatcaatgcagtttcaccaGgtgcacgttccaaccgaaat	13	9	7	12	2	2	0	2	0	0	0	3	1	3	0	3	1	3	4	3	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:31605831G>A	uc001wrc.1	-	20	3509	c.3020C>T	c.(3019-3021)CCT>CTT	p.P1007L	HECTD1_uc001wrd.1_Missense_Mutation_p.P522L	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1007					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		AGTTTCACCAGGTGCACGTTC	0.403													38	137					0	0	1	0	0		A	31605831	A	A	31605831	3	1	151	1	0	0	0	0	1	0	0	0	7055	1000	35	4	4908	4	HECTD1	14	31605831	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	7259	31605831	75743709	3161	80326											
ARHGAP5	394	broad.mit.edu	37	chr14	32562839	32562839	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatgacacagaagcaccAcctccttatagtccaattgg	13	9	8	11	0	0	3	0	2	0	1	2	4	2	3	4	1	1	1	4	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:32562839A>G	uc001wrl.2	+	2	3203	c.2964A>G	c.(2962-2964)CCA>CCG	p.P988P	ARHGAP5_uc001wrm.2_Silent_p.P988P|ARHGAP5_uc001wrn.2_Silent_p.P988P|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	988					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		CAGAAGCACCACCTCCTTATA	0.413													28	203					0	0	1	0	0		G	32562839	G	G	32562839	2	3	151	1	0	0	0	0	0	0	0	1	886	146	6	3		3	ARHGAP5	14	32562839	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	957008	32562839	74786701	3162	80327											
AKAP6	9472	broad.mit.edu	37	chr14	33005003	33005003	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaagctttctctgaagagAcaaaagaggtgagtgttttc	12	12	11	6	0	1	4	0	2	1	2	3	5	1	4	0	1	2	3	0	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:33005003A>G	uc001wrq.2	+	3	738	c.568A>G	c.(568-570)ACA>GCA	p.T190A	AKAP6_uc010aml.2_Missense_Mutation_p.T187A	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	190					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CTCTGAAGAGACAAAAGAGGT	0.453													20	99					0	0	1	0	0		G	33005003	G	G	33005003	3	3	151	1	0	0	0	0	1	0	0	0	455	275	10	3	574	3	AKAP6	14	33005003	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	442164	33005003	74344537	3163	80328											
AKAP6	9472	broad.mit.edu	37	chr14	33015103	33015103	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtggaaagaggcaaatggTtgatctaaagcctgagatga	14	9	14	4	0	1	4	0	3	1	2	1	6	1	5	1	4	1	2	1	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:33015103T>C	uc001wrq.2	+	4	1414	c.1244T>C	c.(1243-1245)GTT>GCT	p.V415A	AKAP6_uc010aml.2_Missense_Mutation_p.V412A	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	415					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		AGGCAAATGGTTGATCTAAAG	0.453													59	258					0	0	1	0	0		C	33015103	C	C	33015103	3	2	151	1	0	0	0	0	1	0	0	0	455	1725	60	3	1254	3	AKAP6	14	33015103	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10100	33015103	74334437	3164	80329											
BAZ1A	11177	broad.mit.edu	37	chr14	35245571	35245571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agatattggtacaggctatgGcactttggattttttctaag	10	16	10	5	0	1	1	0	0	1	1	1	2	1	2	0	4	1	3	0	4	4	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:35245571G>A	uc001wsk.2	-	18	2955	c.2387C>T	c.(2386-2388)GCC>GTC	p.A796V	BAZ1A_uc001wsl.2_Missense_Mutation_p.A764V	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	796	Interaction with SMARCA5.				chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		ACAGGCTATGGCACTTTGGAT	0.413													8	259					0	0	1	0	0		A	35245571	A	A	35245571	3	1	151	1	0	0	0	0	1	0	0	0	1330	1203	42	2	2323	2	BAZ1A	14	35245571	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2230468	35245571	72103969	3165	80330											
PPP2R3C	55012	broad.mit.edu	37	chr14	35577396	35577396	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggaaattcttccatatgAatctgtatgaaggagtttag	13	14	10	4	0	2	2	0	2	2	0	3	5	3	4	1	2	0	2	1	2	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:35577396A>G	uc001wss.2	-	5	805	c.451T>C	c.(451-453)TCA>CCA	p.S151P	PPP2R3C_uc001wst.2_Missense_Mutation_p.S35P|PPP2R3C_uc010tpr.1_Missense_Mutation_p.S35P|PPP2R3C_uc001wsu.2_RNA|PPP2R3C_uc010amn.1_Intron|uc001wsv.1_Intron|PPP2R3C_uc001wsw.2_Missense_Mutation_p.S151P|PPP2R3C_uc001wsx.1_Missense_Mutation_p.S151P	NM_017917	NP_060387	Q969Q6	P2R3C_HUMAN	serine/threonine-protein phosphatase 2A	151						centrosome|nucleus	calcium ion binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;8.62e-06)|LUAD - Lung adenocarcinoma(48;1.42e-05)|Epithelial(34;0.0177)|all cancers(34;0.0491)	GBM - Glioblastoma multiforme(112;0.0803)		CTTCCATATGAATCTGTATGA	0.318													47	182					0	0	1	0	0		G	35577396	G	G	35577396	3	3	151	1	0	0	0	0	1	0	0	0	12412	246	9	3	946	3	PPP2R3C	14	35577396	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	331825	35577396	71772144	3166	80331											
INSM2	84684	broad.mit.edu	37	chr14	36004894	36004894	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccattgtgcggagcgcactTccctacagcagatatcaggg	9	8	11	13	2	1	1	1	0	0	1	2	2	2	2	2	2	4	2	2	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:36004894T>C	uc001wth.1	+	1	1647	c.1436T>C	c.(1435-1437)TTC>TCC	p.F479S		NM_032594	NP_115983	Q96T92	INSM2_HUMAN	insulinoma-associated protein IA-6	479	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)|skin(1)	2	Breast(36;0.122)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(9;2.16e-07)|Lung(238;2.63e-07)|Epithelial(34;0.00145)|all cancers(34;0.00452)	GBM - Glioblastoma multiforme(112;0.0223)		GGAGCGCACTTCCCTACAGCA	0.687													18	75					0	0	1	0	0		C	36004894	C	C	36004894	3	2	151	1	0	0	0	0	1	0	0	0	7788	1783	62	3	1438	3	INSM2	14	36004894	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	427498	36004894	71344646	3167	80332											
CTAGE5	4253	broad.mit.edu	37	chr14	39782647	39782647	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagagctggagacctataggTattaaatacatttttctggt	13	14	9	5	0	1	2	0	0	1	2	1	3	1	2	1	3	2	2	1	3	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:39782647T>C	uc001wvg.3	+	14	1631	c.1295_splice	c.e14+2	p.R432_splice	CTAGE5_uc010tqe.1_Splice_Site_p.R394_splice|CTAGE5_uc001wuz.3_Splice_Site_p.R420_splice|CTAGE5_uc001wuy.3_Splice_Site_p.R352_splice|CTAGE5_uc001wvb.3_Splice_Site_p.R403_splice|CTAGE5_uc001wvc.3_Splice_Site_p.R377_splice|CTAGE5_uc001wva.3_Splice_Site_p.R403_splice|CTAGE5_uc001wvh.3_Splice_Site_p.R432_splice|CTAGE5_uc001wvf.3_Splice_Site_p.R357_splice|CTAGE5_uc001wvi.3_Splice_Site_p.R437_splice|CTAGE5_uc010amz.2_Splice_Site_p.R48_splice|CTAGE5_uc001wvj.3_Splice_Site_p.R403_splice	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1								enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		GACCTATAGGTATTAAATACA	0.299													9	66					0	0	1	0	0		C	39782647	C	C	39782647	5	2	151	1	0	0	0	0	0	0	1	0	3997	1652	57	3	1382	3	CTAGE5	14	39782647	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3777753	39782647	67566893	3168	80333											
C14orf28	122525	broad.mit.edu	37	chr14	45370048	45370048	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtttgggaatgagcatgAtaattttacaaaaaatcttg	14	16	8	3	0	1	2	0	2	1	0	1	3	1	3	0	1	2	2	0	1	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:45370048A>G	uc001wvo.2	+	2	676	c.410A>G	c.(409-411)GAT>GGT	p.D137G	C14orf28_uc001wvp.1_Missense_Mutation_p.D137G	NM_001017923	NP_001017923	Q4W4Y0	CN028_HUMAN	hypothetical protein LOC122525	137										ovary(1)	1						AATGAGCATGATAATTTTACA	0.388													18	74					0	0	1	0	0		G	45370048	G	G	45370048	3	3	151	1	0	0	0	0	1	0	0	0	1773	333	12	3	412	3	C14orf28	14	45370048	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5587401	45370048	61979492	3169	80334											
FAM179B	23116	broad.mit.edu	37	chr14	45542710	45542710	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgcatctcaaccaccacaTatcaaaaagagtttggagga	15	8	8	10	0	2	1	2	0	1	1	3	3	2	3	2	2	2	3	2	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:45542710T>C	uc001wvv.2	+	19	5318	c.5109T>C	c.(5107-5109)CAT>CAC	p.H1703H	FAM179B_uc001wvw.2_Silent_p.H1756H|FAM179B_uc010anc.2_RNA	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	1703							binding			skin(2)|upper_aerodigestive_tract(1)	3						AACCACCACATATCAAAAAGA	0.348													5	84					0	0	1	0	0		C	45542710	C	C	45542710	2	2	151	1	0	0	0	0	0	0	0	1	5517	1403	49	3		3	FAM179B	14	45542710	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	172662	45542710	61806830	3170	80335											
FKBP3	2287	broad.mit.edu	37	chr14	45590703	45590703	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacttgtttgaatattagTatcaaaaacagtcccatctt	13	16	4	8	0	2	1	1	1	1	0	3	1	3	1	1	0	2	2	1	0	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:45590703T>C	uc010tqf.1	-	4	512	c.439A>G	c.(439-441)ACT>GCT	p.T147A		NM_002013	NP_002004	Q00688	FKBP3_HUMAN	FK506 binding protein 3, 25kDa	147	PPIase FKBP-type.				protein folding	membrane|nucleus	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|receptor activity				0						TGAATATTAGTATCAAAAACA	0.363													25	89					0	0	1	0	0		C	45590703	C	C	45590703	3	2	151	1	0	0	0	0	1	0	0	0	5923	1638	57	3	251	3	FKBP3	14	45590703	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	47993	45590703	61758837	3171	80336											
FANCM	57697	broad.mit.edu	37	chr14	45636264	45636264	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatggttcctgatggaatcAacccaaaattacacaaaatg	17	9	7	8	0	1	1	1	1	0	0	2	3	2	2	2	2	2	1	2	2	8	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:45636264A>G	uc001wwd.3	+	11	1999	c.1900A>G	c.(1900-1902)AAC>GAC	p.N634D	FANCM_uc001wwc.2_Missense_Mutation_p.N634D|FANCM_uc010anf.2_Missense_Mutation_p.N608D|FANCM_uc001wwe.3_Missense_Mutation_p.N170D	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	634					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						TGATGGAATCAACCCAAAATT	0.393								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				57	227					0	0	1	0	0		G	45636264	G	G	45636264	3	3	151	1	0	0	0	0	1	0	0	0	5685	130	5	3	1942	3	FANCM	14	45636264	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	45561	45636264	61713276	3172	80337											
FANCM	57697	broad.mit.edu	37	chr14	45645728	45645728	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatagcaatagacctctagaTgatctatatggaaggtattt	14	13	9	5	0	2	3	0	1	2	2	2	5	2	4	1	2	1	2	1	2	8	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:45645728T>C	uc001wwd.3	+	14	3870	c.3771T>C	c.(3769-3771)GAT>GAC	p.D1257D	FANCM_uc010anf.2_Silent_p.D1231D|FANCM_uc001wwe.3_Silent_p.D793D|FANCM_uc010ang.2_Silent_p.D471D	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1257					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						GACCTCTAGATGATCTATATG	0.313								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				17	114					0	0	1	0	0		C	45645728	C	C	45645728	2	2	151	1	0	0	0	0	0	0	0	1	5685	1461	51	3		3	FANCM	14	45645728	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	9464	45645728	61703812	3173	80338											
FANCM	57697	broad.mit.edu	37	chr14	45668046	45668046	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagtaataaaagtgaggcActccagttttatttaagtat	16	14	7	4	0	0	1	0	1	0	0	1	1	1	1	1	1	0	4	1	1	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:45668046A>G	uc001wwd.3	+	22	6015	c.5916A>G	c.(5914-5916)GCA>GCG	p.A1972A	FANCM_uc010anf.2_Silent_p.A1946A|FANCM_uc001wwe.3_Silent_p.A1508A|FANCM_uc010ang.2_Silent_p.A1221A	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1972	Interaction with FAAP24 and EME1.				DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						AAAGTGAGGCACTCCAGTTTT	0.343								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				19	76					0	0	1	0	0		G	45668046	G	G	45668046	2	3	151	1	0	0	0	0	0	0	0	1	5685	146	6	3		3	FANCM	14	45668046	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	22318	45668046	61681494	3174	80339											
KLHDC1	122773	broad.mit.edu	37	chr14	50195672	50195672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccacagccacgagccgCgcatacatgtgcagttcttg	9	8	9	15	3	1	0	0	0	1	0	2	1	2	0	4	0	4	3	4	0	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:50195672C>T	uc001www.2	+	7	624	c.596C>T	c.(595-597)GCG>GTG	p.A199V	SDCCAG1_uc010anj.1_Intron|KLHDC1_uc010tqg.1_Missense_Mutation_p.A154V|KLHDC1_uc010tqh.1_Missense_Mutation_p.A114V	NM_172193	NP_751943	Q8N7A1	KLDC1_HUMAN	kelch domain containing 1	199						cytoplasm				pancreas(1)	1	all_epithelial(31;0.00244)|Breast(41;0.00964)					CCACGAGCCGCGCATACATGT	0.413													20	112					0	0	1	0	0		T	50195672	T	T	50195672	3	4	151	1	0	0	0	0	1	0	0	0	8370	768	27	1	622	1	KLHDC1	14	50195672	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4527626	50195672	57153868	3175	80340											
KLHDC2	23588	broad.mit.edu	37	chr14	50246358	50246358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccatgcctgtgcaactgtcGgaaatagaggcttcgtgttt	8	12	11	10	2	0	1	0	0	0	1	2	2	0	2	2	2	3	3	2	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:50246358G>A	uc001wwx.2	+	7	1079	c.679G>A	c.(679-681)GGA>AGA	p.G227R	SDCCAG1_uc010anj.1_Intron|KLHDC2_uc001wwy.2_Missense_Mutation_p.G227R|KLHDC2_uc010anp.2_Missense_Mutation_p.G227R	NM_014315	NP_055130	Q9Y2U9	KLDC2_HUMAN	kelch domain containing 2	227						nucleus	protein binding			ovary(1)	1	all_epithelial(31;0.000959)|Breast(41;0.0117)					TGCAACTGTCGGAAATAGAGG	0.393													21	57					0	0	1	0	0		A	50246358	A	A	50246358	3	1	151	1	0	0	0	0	1	0	0	0	8372	1117	39	1	705	1	KLHDC2	14	50246358	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	50686	50246358	57103182	3176	80341											
SDCCAG1	9147	broad.mit.edu	37	chr14	50255966	50255966	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcagagaccctctgtccAcctctaggtttctggggctg	5	13	11	12	0	4	1	1	0	3	1	5	2	5	1	3	3	0	2	3	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:50255966A>G	uc001wxc.2	-	28	2861	c.2793T>C	c.(2791-2793)GGT>GGC	p.G931G	SDCCAG1_uc010anj.1_Silent_p.G931G|SDCCAG1_uc001wwz.2_Silent_p.G131G|SDCCAG1_uc001wxa.2_Silent_p.G211G|SDCCAG1_uc010tqi.1_Silent_p.G910G|SDCCAG1_uc001wxe.2_Silent_p.G889G	NM_004713	NP_004704	O60524	NEMF_HUMAN	serologically defined colon cancer antigen 1	931						cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)		CCCTCTGTCCACCTCTAGGTT	0.418													8	273					0	0	1	0	0		G	50255966	G	G	50255966	2	3	151	1	0	0	0	0	0	0	0	1	13982	146	6	3		3	SDCCAG1	14	50255966	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	9608	50255966	57093574	3177	80342											
ATP5S	27109	broad.mit.edu	37	chr14	50788253	50788253	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttgtgtggcgtaaagaaActcccatggtcatgtgactc	10	11	11	9	1	1	2	1	1	0	1	3	2	2	2	1	2	1	2	1	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:50788253A>G	uc001wxw.1	+	2	785	c.93A>G	c.(91-93)AAA>AAG	p.K31K	ATP5S_uc001wxv.2_Silent_p.K31K|ATP5S_uc001wxx.1_Silent_p.K31K|ATP5S_uc010ant.1_Intron	NM_001003803	NP_001003803	Q99766	ATP5S_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	31					ATP biosynthetic process	mitochondrial inner membrane|proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity			ovary(1)|skin(1)	2	all_epithelial(31;0.000636)|Breast(41;0.0102)			OV - Ovarian serous cystadenocarcinoma(311;0.0685)		GCGTAAAGAAACTCCCATGGT	0.398													22	94					0	0	1	0	0		G	50788253	G	G	50788253	2	3	151	1	0	0	0	0	0	0	0	1	1164	40	2	3		3	ATP5S	14	50788253	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	532287	50788253	56561287	3178	80343											
NID2	22795	broad.mit.edu	37	chr14	52520419	52520419	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttcttcaggatgagctgggGgaacatccatttccgaaggc	9	10	12	10	1	2	1	1	1	1	0	4	4	4	3	2	4	2	1	2	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:52520419G>A	uc001wzo.2	-	5	1541	c.1307C>T	c.(1306-1308)CCC>CTC	p.P436L	NID2_uc010tqs.1_Missense_Mutation_p.P436L|NID2_uc010tqt.1_Missense_Mutation_p.P436L|NID2_uc001wzp.2_Missense_Mutation_p.P436L	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	436						basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					ATGAGCTGGGGGAACATCCAT	0.547													29	116					0	0	1	0	0		A	52520419	A	A	52520419	3	1	151	1	0	0	0	0	1	0	0	0	10434	1232	43	4	2892	4	NID2	14	52520419	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1732166	52520419	54829121	3179	80344											
PTGDR	5729	broad.mit.edu	37	chr14	52735128	52735128	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcgctgtcggtgctggggtActctgtgctctactccagcc	3	12	12	14	2	2	0	0	0	2	0	5	0	3	0	2	3	5	4	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:52735128A>G	uc001wzq.2	+	1	698	c.596A>G	c.(595-597)TAC>TGC	p.Y199C		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	199	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	GTGCTGGGGTACTCTGTGCTC	0.632													17	71					0	0	1	0	0		G	52735128	G	G	52735128	3	3	151	1	0	0	0	0	1	0	0	0	12763	391	14	3	598	3	PTGDR	14	52735128	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	214709	52735128	54614412	3180	80345											
GPR137C	283554	broad.mit.edu	37	chr14	53101670	53101670	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagtttaccaaattcgcAaagtttgggctggtatggca	10	13	11	7	1	0	0	0	0	0	0	1	0	0	0	1	3	2	7	1	3	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:53101670A>G	uc001wzu.3	+	7	1127	c.1127A>G	c.(1126-1128)CAA>CGA	p.Q376R	GPR137C_uc001wzt.3_Missense_Mutation_p.Q392R	NM_001099652	NP_001093122	Q8N3F9	G137C_HUMAN	G protein-coupled receptor 137C	376	Cytoplasmic (Potential).					integral to membrane					0	Breast(41;0.0716)					CCAAATTCGCAAAGTTTGGGC	0.418													11	71					0	0	1	0	0		G	53101670	G	G	53101670	3	3	151	1	0	0	0	0	1	0	0	0	6662	130	5	3	1153	3	GPR137C	14	53101670	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	366542	53101670	54247870	3181	80346											
FERMT2	10979	broad.mit.edu	37	chr14	53325164	53325164	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgttttggtcttttgcacgTgttgagagaaatatgtagcc	8	16	11	6	2	1	2	0	1	1	1	2	3	1	2	1	1	2	4	1	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:53325164T>C	uc001xad.2	-	15	2029	c.1974A>G	c.(1972-1974)ACA>ACG	p.T658T	FERMT2_uc001xac.2_Silent_p.T665T|FERMT2_uc001xae.2_Silent_p.T658T	NM_006832	NP_006823	Q96AC1	FERM2_HUMAN	fermitin family homolog 2 isoform 1	658	FERM.				actin cytoskeleton organization|cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytosol|focal adhesion|stress fiber	binding				0	Breast(41;0.0342)					CTTTTGCACGTGTTGAGAGAA	0.398													31	97					0	0	1	0	0		C	53325164	C	C	53325164	2	2	151	1	0	0	0	0	0	0	0	1	5832	1683	59	3		3	FERMT2	14	53325164	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	223494	53325164	54024376	3182	80347											
BMP4	652	broad.mit.edu	37	chr14	54416799	54416799	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcctgataatttttcagtAccaccttatcatactcatcc	10	16	2	13	0	4	1	3	1	1	0	6	1	5	1	4	0	2	1	4	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:54416799A>G	uc001xal.3	-	3	1365	c.1178T>C	c.(1177-1179)GTA>GCA	p.V393A	BMP4_uc010aoh.2_Missense_Mutation_p.V393A|BMP4_uc001xao.3_Missense_Mutation_p.V393A|BMP4_uc001xan.3_Missense_Mutation_p.V393A	NM_130851	NP_570912	P12644	BMP4_HUMAN	bone morphogenetic protein 4 preproprotein	393					activation of MAPKK activity|blood vessel endothelial cell proliferation involved in sprouting angiogenesis|BMP signaling pathway involved in heart induction|BMP signaling pathway involved in nephric duct formation|branching involved in ureteric bud morphogenesis|bronchus development|bud dilation involved in lung branching|cardiac septum development|cartilage development|endocardial cushion development|epithelial cell proliferation involved in lung morphogenesis|intermediate mesodermal cell differentiation|lung alveolus development|lymphoid progenitor cell differentiation|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|negative regulation of branch elongation involved in ureteric bud branching by BMP signaling pathway|negative regulation of branching involved in ureteric bud morphogenesis|negative regulation of cell proliferation involved in heart morphogenesis|negative regulation of glomerular mesangial cell proliferation|negative regulation of glomerulus development|negative regulation of immature T cell proliferation in thymus|negative regulation of MAP kinase activity|negative regulation of metanephric comma-shaped body morphogenesis|negative regulation of metanephric S-shaped body morphogenesis|negative regulation of mitosis|negative regulation of myoblast differentiation|negative regulation of phosphorylation|negative regulation of striated muscle tissue development|negative regulation of thymocyte apoptosis|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cardiac muscle fiber development|positive regulation of cartilage development|positive regulation of collagen biosynthetic process|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of kidney development|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|protein localization to nucleus|pulmonary artery endothelial tube morphogenesis|secondary heart field specification|SMAD protein signal transduction|specification of ureteric bud anterior/posterior symmetry by BMP signaling pathway|steroid hormone mediated signaling pathway	extracellular space|proteinaceous extracellular matrix	BMP receptor binding|chemoattractant activity|cytokine activity|growth factor activity				0						ATTTTTCAGTACCACCTTATC	0.428													23	79					0	0	1	0	0		G	54416799	G	G	54416799	3	3	151	1	0	0	0	0	1	0	0	0	1463	391	14	3	52	3	BMP4	14	54416799	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1091635	54416799	52932741	3183	80348											
CGRRF1	10668	broad.mit.edu	37	chr14	54976688	54976688	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaccctgatggctgcggTgtttctggtaacgctttatg	7	13	12	9	2	1	2	0	1	1	1	1	2	1	2	1	3	2	4	1	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:54976688T>C	uc001xay.2	+	1	102	c.11T>C	c.(10-12)GTG>GCG	p.V4A	CGRRF1_uc010tra.1_Missense_Mutation_p.V4A|CGRRF1_uc001xaz.2_RNA	NM_006568	NP_006559	Q99675	CGRF1_HUMAN	cell growth regulator with ring finger domain 1	4					cell cycle arrest|negative regulation of cell proliferation|response to stress		zinc ion binding			ovary(1)	1						ATGGCTGCGGTGTTTCTGGTA	0.373											OREG0022692	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	97					0	0	1	0	0		C	54976688	C	C	54976688	3	2	151	1	0	0	0	0	1	0	0	0	3309	1696	59	3	13	3	CGRRF1	14	54976688	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	559889	54976688	52372852	3184	80349											
WDHD1	11169	broad.mit.edu	37	chr14	55434067	55434067	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gataatatagcaacagcaggGcgtggaagggttgggggaaa	14	6	17	4	1	0	0	0	0	0	0	0	3	0	2	0	5	3	3	0	5	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:55434067G>A	uc001xbm.1	-	17	2187	c.2109C>T	c.(2107-2109)CGC>CGT	p.R703R	WDHD1_uc010aom.1_Silent_p.R220R|WDHD1_uc001xbn.1_Silent_p.R580R	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	703						cytoplasm|nucleoplasm	DNA binding			skin(1)	1						CAACAGCAGGGCGTGGAAGGG	0.388													25	108					0	0	1	0	0		A	55434067	A	A	55434067	2	1	151	1	0	0	0	0	0	0	0	1	17297	1190	42	2		2	WDHD1	14	55434067	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	457379	55434067	51915473	3185	80350											
EXOC5	10640	broad.mit.edu	37	chr14	57700561	57700561	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttcactctttgacagagtAttccagcgtcttcaaatata	11	15	6	9	1	4	2	2	1	2	1	5	2	5	2	1	0	1	2	1	0	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:57700561A>G	uc001xct.2	-	9	1006	c.755T>C	c.(754-756)ATA>ACA	p.I252T	EXOC5_uc001xcs.2_5'Flank|EXOC5_uc010trg.1_Missense_Mutation_p.I197T|EXOC5_uc010trh.1_Missense_Mutation_p.I187T	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	252					exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						TTGACAGAGTATTCCAGCGTC	0.318													31	166					0	0	1	0	0		G	57700561	G	G	57700561	3	3	151	1	0	0	0	0	1	0	0	0	5315	449	16	3	1411	3	EXOC5	14	57700561	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2266494	57700561	49648979	3186	80351											
NAA30	122830	broad.mit.edu	37	chr14	57863507	57863507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtgtaggtgccatcgtttGcaagttggatatgcacaaaa	11	12	12	6	1	0	0	0	0	0	0	1	1	0	1	1	2	3	5	1	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:57863507G>A	uc001xcx.3	+	3	963	c.809G>A	c.(808-810)TGC>TAC	p.C270Y	NAA30_uc010trk.1_Missense_Mutation_p.C12Y|NAA30_uc010aow.2_RNA	NM_001011713	NP_001011713	Q147X3	NAA30_HUMAN	N-acetyltransferase 12	270	N-acetyltransferase.					cytoplasm	peptide alpha-N-acetyltransferase activity			skin(1)	1						GCCATCGTTTGCAAGTTGGAT	0.398													45	124					0	0	1	0	0		A	57863507	A	A	57863507	3	1	151	1	0	0	0	0	1	0	0	0	10140	1319	46	2	815	2	NAA30	14	57863507	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	162946	57863507	49486033	3187	80352											
SLC35F4	341880	broad.mit.edu	37	chr14	58056071	58056071	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagaagttcttataagtaatTtttacaatctgtgtagttcc	12	18	6	5	0	2	1	0	0	2	1	3	1	3	1	1	0	1	4	1	0	8	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:58056071T>C	uc001xdb.1	-	3	558	c.558A>G	c.(556-558)AAA>AAG	p.K186K	SLC35F4_uc010aoz.1_RNA|SLC35F4_uc010apa.1_Silent_p.K27K	NM_001080455	NP_001073924			solute carrier family 35, member F4											ovary(2)	2						TATAAGTAATTTTTACAATCT	0.403													10	70					0	0	1	0	0		C	58056071	C	C	58056071	2	2	151	1	0	0	0	0	0	0	0	1	14616	1838	64	3		3	SLC35F4	14	58056071	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	192564	58056071	49293469	3188	80353											
DACT1	51339	broad.mit.edu	37	chr14	59112667	59112667	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagggctgcccctcaggCgctgcctccgaccttcagag	6	6	12	17	2	2	2	2	0	0	2	3	3	3	2	6	2	2	2	6	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:59112667C>T	uc001xdw.2	+	4	1490	c.1326C>T	c.(1324-1326)GGC>GGT	p.G442G	DACT1_uc010trv.1_Silent_p.G161G|DACT1_uc001xdx.2_Silent_p.G405G|DACT1_uc010trw.1_Silent_p.G161G	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	442					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						GCCCCTCAGGCGCTGCCTCCG	0.597													7	50					0	0	1	0	0		T	59112667	T	T	59112667	2	4	151	1	0	0	0	0	0	0	0	1	4225	755	27	1		1	DACT1	14	59112667	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1056596	59112667	48236873	3189	80354											
DAAM1	23002	broad.mit.edu	37	chr14	59814284	59814284	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatccaatgacgaaatcaaAcgggcaattctaacaatgga	17	9	7	8	2	2	1	1	1	1	0	3	3	3	2	1	2	2	1	1	2	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:59814284A>G	uc001xdz.1	+	18	2258	c.2133A>G	c.(2131-2133)AAA>AAG	p.K711K	DAAM1_uc001xea.1_Silent_p.K701K	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of	711	FH2.				actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		ACGAAATCAAACGGGCAATTC	0.378													5	31					0	0	1	0	0		G	59814284	G	G	59814284	2	3	151	1	0	0	0	0	0	0	0	1	4218	40	2	3		3	DAAM1	14	59814284	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	701617	59814284	47535256	3190	80355											
GPR135	64582	broad.mit.edu	37	chr14	59930515	59930515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttggtcactgccgtcaccGgctctggtggtccctctcgg	2	12	13	14	3	4	0	2	0	2	0	6	0	5	0	3	5	1	2	3	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:59930515G>A	uc010apj.2	-	1	1545	c.1430C>T	c.(1429-1431)CCG>CTG	p.P477L	GPR135_uc001xed.2_RNA	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	477	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		TGCCGTCACCGGCTCTGGTGG	0.567													9	36					0	0	1	0	0		A	59930515	A	A	59930515	3	1	151	1	0	0	0	0	1	0	0	0	6659	1116	39	1	58	1	GPR135	14	59930515	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	116231	59930515	47419025	3191	80356											
GPR135	64582	broad.mit.edu	37	chr14	59930686	59930686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttctggcttgcagacccGggccctggctgggcaggaaa	6	7	16	12	1	1	1	0	0	1	1	1	2	1	2	2	6	1	5	2	6	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:59930686G>A	uc010apj.2	-	1	1374	c.1259C>T	c.(1258-1260)CCG>CTG	p.P420L	GPR135_uc001xed.2_RNA	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	420	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		TTGCAGACCCGGGCCCTGGCT	0.637													8	9					0	0	1	0	0		A	59930686	A	A	59930686	3	1	151	1	0	0	0	0	1	0	0	0	6659	1116	39	1	229	1	GPR135	14	59930686	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	171	59930686	47418854	3192	80357											
JKAMP	51528	broad.mit.edu	37	chr14	59961870	59961870	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgatgctttctgactggtAcacgatgctttacaacccaa	11	13	7	10	1	1	2	0	2	1	0	1	3	1	2	1	1	5	3	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:59961870A>G	uc001xei.3	+	4	930	c.428A>G	c.(427-429)TAC>TGC	p.Y143C	JKAMP_uc001xef.3_Missense_Mutation_p.Y129C|JKAMP_uc001xeh.3_Missense_Mutation_p.Y123C|JKAMP_uc001xeg.3_Missense_Mutation_p.Y137C|JKAMP_uc010try.1_Missense_Mutation_p.Y66C|JKAMP_uc001xej.3_Missense_Mutation_p.Y66C	NM_001098625	NP_001092095	Q9P055	JKAMP_HUMAN	JNK1-associated membrane protein isoform 2	144	Lumenal (Potential).				ER-associated protein catabolic process|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ubiquitin protein ligase binding			breast(1)	1						TCTGACTGGTACACGATGCTT	0.408													27	94					0	0	1	0	0		G	59961870	G	G	59961870	3	3	151	1	0	0	0	0	1	0	0	0	7965	391	14	3	400	3	JKAMP	14	59961870	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	31184	59961870	47387670	3193	80358											
RTN1	6252	broad.mit.edu	37	chr14	60212668	60212668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctatgtatggagcaaatgtgGattcttccaataaatggtcc	12	13	9	7	0	1	0	0	0	1	0	3	2	3	2	2	3	1	2	2	3	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:60212668G>A	uc001xen.1	-	2	982	c.773C>T	c.(772-774)TCC>TTC	p.S258F		NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	258					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		AGCAAATGTGGATTCTTCCAA	0.448													63	287					0	0	1	0	0		A	60212668	A	A	60212668	3	1	151	1	0	0	0	0	1	0	0	0	13750	1174	41	4	1654	4	RTN1	14	60212668	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	250798	60212668	47136872	3194	80359											
SIX4	51804	broad.mit.edu	37	chr14	61186582	61186582	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aattggggatctggacaatgCcatactggttaatttgcact	11	13	10	7	0	1	0	0	0	1	0	1	2	1	2	1	4	3	2	1	4	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:61186582C>A	uc001xfc.2	-	2	1445	c.1445G>T	c.(1444-1446)GGC>GTC	p.G482V	SIX4_uc010app.1_Missense_Mutation_p.G474V	NM_017420	NP_059116	Q9UIU6	SIX4_HUMAN	sine oculis homeobox homolog 4	482						nucleus				breast(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0275)		CTGGACAATGCCATACTGGTT	0.502													43	193					8.01111e-26	8.39112e-26	1	1	0		A	61186582	A	A	61186582	3	1	151	1	0	0	0	0	1	0	0	0	14374	739	26	5	908	5	SIX4	14	61186582	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	973914	61186582	46162958	3195	80360											
HIF1A	3091	broad.mit.edu	37	chr14	62188501	62188501	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgattttactcatccatgTgaccatgaggaaatgagaga	13	13	9	6	0	1	5	1	4	0	1	2	7	2	6	2	1	1	0	2	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:62188501T>C	uc001xfq.2	+	4	821	c.417T>C	c.(415-417)TGT>TGC	p.C139C	HIF1A_uc010tsc.1_Silent_p.C56C|HIF1A_uc001xfr.2_Silent_p.C139C|HIF1A_uc001xfs.2_Silent_p.C140C	NM_001530	NP_001521	Q16665	HIF1A_HUMAN	hypoxia-inducible factor 1, alpha subunit	139	Interaction with TSGA10 (By similarity).|PAS 1.				cellular response to hypoxia|collagen metabolic process|connective tissue replacement involved in inflammatory response wound healing|elastin metabolic process|epithelial to mesenchymal transition|oxygen homeostasis|positive regulation of chemokine production|positive regulation of epithelial cell migration|positive regulation of hormone biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|regulation of transforming growth factor-beta2 production	cytoplasm|nucleolus|transcription factor complex	histone acetyltransferase binding|Hsp90 protein binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			kidney(3)|lung(1)	4				OV - Ovarian serous cystadenocarcinoma(108;1.62e-09)|BRCA - Breast invasive adenocarcinoma(234;0.189)		CTCATCCATGTGACCATGAGG	0.308													23	77					0	0	1	0	0		C	62188501	C	C	62188501	2	2	151	1	0	0	0	0	0	0	0	1	7119	1702	59	3		3	HIF1A	14	62188501	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1001919	62188501	45161039	3196	80361											
SYNE2	23224	broad.mit.edu	37	chr14	64591849	64591849	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactatgtataactttagatAcccaacaactgaagaactga	17	10	6	8	0	0	4	0	2	0	2	0	5	0	4	1	0	5	1	1	0	9	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:64591849A>G	uc001xgm.2	+	71	13705	c.13475A>G	c.(13474-13476)TAC>TGC	p.Y4492C	SYNE2_uc001xgl.2_Missense_Mutation_p.Y4492C|SYNE2_uc010apy.2_Missense_Mutation_p.Y877C|SYNE2_uc010apz.1_Missense_Mutation_p.Y384C	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	4492	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AACTTTAGATACCCAACAACT	0.423													34	93					0	0	1	0	0		G	64591849	G	G	64591849	3	3	151	1	0	0	0	0	1	0	0	0	15471	391	14	3	13753	3	SYNE2	14	64591849	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2403348	64591849	42757691	3197	80362											
ZBTB1	22890	broad.mit.edu	37	chr14	64988891	64988891	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtgatagctgtggattTggctttagctgtgaaaaatt	10	15	11	5	0	0	2	0	2	0	0	0	3	0	3	1	2	2	3	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:64988891T>C	uc001xhh.3	+	4	1100	c.669T>C	c.(667-669)TTT>TTC	p.F223F	ZBTB1_uc010aqg.2_Silent_p.F223F|ZBTB1_uc001xhi.2_Silent_p.F223F	NM_001123329	NP_001116801	Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1 isoform	223	C2H2-type 1; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		all_lung(585;0.000567)|Myeloproliferative disorder(585;0.0255)|all_neural(303;0.0294)		UCEC - Uterine corpus endometrioid carcinoma (185;0.0182)|all cancers(60;3.78e-43)|OV - Ovarian serous cystadenocarcinoma(108;1.22e-20)|BRCA - Breast invasive adenocarcinoma(234;6.75e-06)|KIRC - Kidney renal clear cell carcinoma(182;0.00269)|STAD - Stomach adenocarcinoma(64;0.012)		GCTGTGGATTTGGCTTTAGCT	0.358													37	139					0	0	1	0	0		C	64988891	C	C	64988891	2	2	151	1	0	0	0	0	0	0	0	1	17547	1809	63	3		3	ZBTB1	14	64988891	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	397042	64988891	42360649	3198	80363											
SPTB	6710	broad.mit.edu	37	chr14	65260381	65260381	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagcacactggtcaggtctTtgccatagtccagggaagaa	11	9	12	9	0	2	2	1	1	1	1	3	3	3	3	2	3	2	1	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:65260381T>C	uc001xht.2	-	13	2054	c.2000A>G	c.(1999-2001)AAA>AGA	p.K667R	SPTB_uc001xhr.2_Missense_Mutation_p.K667R|SPTB_uc001xhs.2_Missense_Mutation_p.K667R|SPTB_uc001xhu.2_Missense_Mutation_p.K667R	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	667	Spectrin 4.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		GGTCAGGTCTTTGCCATAGTC	0.537													11	82					0	0	1	0	0		C	65260381	C	C	65260381	3	2	151	1	0	0	0	0	1	0	0	0	15143	1841	64	3	5147	3	SPTB	14	65260381	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	271490	65260381	42089159	3199	80364											
RAB15	376267	broad.mit.edu	37	chr14	65418332	65418332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggcttacctgggcccgccGatagtactgctttgtgatgg	5	12	14	10	2	0	1	0	1	0	0	0	2	0	1	3	3	3	3	3	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:65418332G>A	uc001xhz.2	-	3	316	c.235C>T	c.(235-237)CGG>TGG	p.R79W	FNTB_uc010tsl.1_Intron|FNTB_uc010tsm.1_Intron|RAB15_uc010aqk.2_RNA	NM_198686	NP_941959	P59190	RAB15_HUMAN	RAB15, member RAS onocogene family	79					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)	1				all cancers(60;0.00136)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.0102)		TGGGCCCGCCGATAGTACTGC	0.582													23	73					0	0	1	0	0		A	65418332	A	A	65418332	3	1	151	1	0	0	0	0	1	0	0	0	12926	1057	37	1	411	1	RAB15	14	65418332	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	157951	65418332	41931208	3200	80365											
ZFYVE26	23503	broad.mit.edu	37	chr14	68250106	68250106	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcgtgtagctgggccagagTacccagacgagtcaggaggg	9	5	18	9	2	1	2	1	0	0	2	1	4	1	3	2	4	2	3	2	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:68250106T>C	uc001xka.2	-	21	3902	c.3763A>G	c.(3763-3765)ACT>GCT	p.T1255A	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.T1255A	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1255					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		TGGGCCAGAGTACCCAGACGA	0.582													31	120					0	0	1	0	0		C	68250106	C	C	68250106	3	2	151	1	0	0	0	0	1	0	0	0	17693	1638	57	3	3944	3	ZFYVE26	14	68250106	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2831774	68250106	39099434	3201	80366											
RAD51L1	5890	broad.mit.edu	37	chr14	68353896	68353896	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggcatcctccttgaagtAtttggctgaggagttttcaa	10	13	11	7	0	1	3	1	2	0	1	3	4	3	4	2	3	0	4	2	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:68353896A>G	uc001xkf.1	+	7	795	c.731A>G	c.(730-732)TAT>TGT	p.Y244C	RAD51L1_uc010aqq.2_Missense_Mutation_p.Y244C|RAD51L1_uc001xkd.2_Missense_Mutation_p.Y244C|RAD51L1_uc010aqr.2_Missense_Mutation_p.Y125C|RAD51L1_uc001xke.2_Missense_Mutation_p.Y244C|RAD51L1_uc010aqs.1_Missense_Mutation_p.Y244C|RAD51L1_uc001xkg.1_Missense_Mutation_p.Y244C	NM_133509	NP_598193	O15315	RA51B_HUMAN	RAD51-like 1 isoform 3	244					blood coagulation|DNA repair|reciprocal meiotic recombination	nucleoplasm	ATP binding|DNA binding|DNA-dependent ATPase activity				0				UCEC - Uterine corpus endometrioid carcinoma (185;0.163)|all cancers(60;3.9e-06)|OV - Ovarian serous cystadenocarcinoma(108;0.000103)|BRCA - Breast invasive adenocarcinoma(234;0.000421)		TCCTTGAAGTATTTGGCTGAG	0.313			T	HMGA2	lipoma|uterine leiomyoma			Direct_reversal_of_damage|Homologous_recombination					23	92					0	0	1	0	0		G	68353896	G	G	68353896	3	3	151	1	0	0	0	0	1	0	0	0	13014	449	16	3	753	3	RAD51L1	14	68353896	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	103790	68353896	38995644	3202	80367											
SIPA1L1	26037	broad.mit.edu	37	chr14	72056089	72056089	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatttttctaccagaagggTaagtagagatcctttatttc	13	15	7	6	0	1	2	0	0	1	2	3	3	2	2	2	1	1	2	2	1	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:72056089T>C	uc001xms.2	+	2	1846	c.1498_splice	c.e2+2	p.E500_splice	SIPA1L1_uc001xmt.2_Splice_Site_p.E500_splice|SIPA1L1_uc001xmu.2_Splice_Site_p.E500_splice|SIPA1L1_uc001xmv.2_Splice_Site_p.E500_splice	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like						actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		ACCAGAAGGGTAAGTAGAGAT	0.328													15	77					0	0	1	0	0		C	72056089	C	C	72056089	5	2	151	1	0	0	0	0	0	0	1	0	14354	1652	57	3	1502	3	SIPA1L1	14	72056089	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3702193	72056089	35293451	3203	80368											
SIPA1L1	26037	broad.mit.edu	37	chr14	72202057	72202057	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccttgagtgctgcatccaAcagtgatcagctggaggacc	9	8	11	13	0	1	2	1	2	0	0	2	4	2	4	4	2	4	3	4	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:72202057A>G	uc001xms.2	+	20	5483	c.5135A>G	c.(5134-5136)AAC>AGC	p.N1712S	SIPA1L1_uc001xmt.2_Missense_Mutation_p.N1691S|SIPA1L1_uc001xmu.2_Missense_Mutation_p.N1691S|SIPA1L1_uc001xmv.2_Missense_Mutation_p.N1712S|SIPA1L1_uc010ttm.1_Missense_Mutation_p.N1166S|SIPA1L1_uc001xmw.2_Missense_Mutation_p.N477S	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1712					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		GCTGCATCCAACAGTGATCAG	0.507													39	177					0	0	1	0	0		G	72202057	G	G	72202057	3	3	151	1	0	0	0	0	1	0	0	0	14354	43	2	3	5209	3	SIPA1L1	14	72202057	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	145968	72202057	35147483	3204	80369											
RGS6	9628	broad.mit.edu	37	chr14	72985085	72985085	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggctgtccaagatcttaAgaaacaacccctacaggatg	13	8	9	11	0	1	2	0	0	1	2	2	3	2	3	3	2	3	2	3	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:72985085A>C	uc001xna.3	+	15	1641	c.1118A>C	c.(1117-1119)AAG>ACG	p.K373T	RGS6_uc010ttn.1_Missense_Mutation_p.K373T|RGS6_uc001xmx.3_Missense_Mutation_p.K373T|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.K373T|RGS6_uc010ttp.1_Missense_Mutation_p.K304T|RGS6_uc001xmz.1_Missense_Mutation_p.K234T	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	373	RGS.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		CAAGATCTTAAGAAACAACCC	0.542													22	54					0	0	1	0	0		C	72985085	C	C	72985085	3	2	151	1	0	0	0	0	1	0	0	0	13334	72	3	5	1172	5	RGS6	14	72985085	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	783028	72985085	34364455	3205	80370											
RGS6	9628	broad.mit.edu	37	chr14	73002943	73002943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctatgcccgcttcctccGgtcaaatgcttaccaggatt	8	11	8	14	2	1	0	1	0	0	0	3	1	3	1	4	2	4	3	4	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:73002943G>A	uc001xna.3	+	16	1851	c.1328G>A	c.(1327-1329)CGG>CAG	p.R443Q	RGS6_uc010ttn.1_Missense_Mutation_p.R443Q|RGS6_uc001xmx.3_Missense_Mutation_p.R443Q|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.R443Q|RGS6_uc010ttp.1_Missense_Mutation_p.R374Q|RGS6_uc001xmz.1_Missense_Mutation_p.R304Q	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	443					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		CGCTTCCTCCGGTCAAATGCT	0.532													31	170					0	0	1	0	0		A	73002943	A	A	73002943	3	1	151	1	0	0	0	0	1	0	0	0	13334	1116	39	1	1386	1	RGS6	14	73002943	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	17858	73002943	34346597	3206	80371											
RBM25	58517	broad.mit.edu	37	chr14	73544179	73544179	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaaaattgtggtcctactAccactgtttttgttggcaac	10	15	8	8	0	0	1	0	1	0	0	1	1	1	1	2	2	3	3	2	2	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:73544179A>G	uc001xno.2	+	4	467	c.259A>G	c.(259-261)ACC>GCC	p.T87A	RBM25_uc001xnn.3_Missense_Mutation_p.T87A|RBM25_uc010ttu.1_Missense_Mutation_p.T87A|RBM25_uc001xnp.2_5'UTR	NM_021239	NP_067062	P49756	RBM25_HUMAN	RNA binding motif protein 25	87	RRM.				apoptosis|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|RNA splicing	cytoplasm|nuclear speck	mRNA binding|nucleotide binding|protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)		TGGTCCTACTACCACTGTTTT	0.363													26	72					0	0	1	0	0		G	73544179	G	G	73544179	3	3	151	1	0	0	0	0	1	0	0	0	13150	391	14	3	269	3	RBM25	14	73544179	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	541236	73544179	33805361	3207	80372											
PAPLN	89932	broad.mit.edu	37	chr14	73718794	73718794	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctgcgccgccccagcccCggcttcagctggagccacgg	4	4	12	21	4	1	0	1	0	0	0	1	1	1	1	8	3	4	2	8	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:73718794C>T	uc010ttx.1	+	9	1075	c.912C>T	c.(910-912)CCC>CCT	p.P304P	PAPLN_uc001xnw.3_Silent_p.P277P|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Silent_p.P304P	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	304	TSP type-1 2.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GCCCCAGCCCCGGCTTCAGCT	0.682													3	12					0	0	1	0	0		T	73718794	T	T	73718794	2	4	151	1	0	0	0	0	0	0	0	1	11447	639	23	1		1	PAPLN	14	73718794	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	174615	73718794	33630746	3208	80373											
PAPLN	89932	broad.mit.edu	37	chr14	73729153	73729153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgtgggccaatgtaacCgcttctggtatggcggctgc	5	11	13	12	2	2	0	0	0	2	0	2	0	2	0	3	4	2	4	3	4	3	3	rs150310890	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:73729153C>T	uc010ttx.1	+	18	2504	c.2341C>T	c.(2341-2343)CGC>TGC	p.R781C	PAPLN_uc001xnw.3_Missense_Mutation_p.R754C|PAPLN_uc010arl.2_Intron|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.R765C|PAPLN_uc010arm.2_5'UTR|PAPLN_uc010arn.2_5'UTR	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	781	BPTI/Kunitz inhibitor.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		CCAATGTAACCGCTTCTGGTA	0.627													9	15					0	0	1	0	0		T	73729153	T	T	73729153	3	4	151	1	0	0	0	0	1	0	0	0	11447	652	23	1	2326	1	PAPLN	14	73729153	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	10359	73729153	33620387	3209	80374											
HEATR4	399671	broad.mit.edu	37	chr14	73967394	73967394	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcacctatcaggtagagagCttccacacgctcctgggaat	10	9	9	13	1	2	1	2	0	0	1	4	3	4	2	3	2	1	3	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:73967394C>T	uc010tub.1	-	12	2468	c.2146G>A	c.(2146-2148)GCT>ACT	p.A716T	HEATR4_uc010tua.1_Missense_Mutation_p.A669T	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		AGGTAGAGAGCTTCCACACGC	0.517													23	92					0	0	1	0	0		T	73967394	T	T	73967394	3	4	151	1	0	0	0	0	1	0	0	0	7046	797	28	2	962	2	HEATR4	14	73967394	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	238241	73967394	33382146	3210	80375											
C14orf43	91748	broad.mit.edu	37	chr14	74206530	74206530	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggagggggcagttccacaGgctgagaggtggagactgcc	9	6	18	8	0	0	2	0	1	0	2	1	5	1	3	2	6	1	3	2	6	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:74206530G>T	uc001xot.2	-	2	965	c.182C>A	c.(181-183)CCT>CAT	p.P61H	C14orf43_uc001xou.2_Missense_Mutation_p.P61H|C14orf43_uc010tud.1_Missense_Mutation_p.P61H|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	61					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		CAGTTCCACAGGCTGAGAGGT	0.657													22	64					1.36565e-18	1.42356e-18	1	1	0		T	74206530	T	T	74206530	3	4	151	1	0	0	0	0	1	0	0	0	1777	1000	35	5	2999	5	C14orf43	14	74206530	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	239136	74206530	33143010	3211	80376											
C14orf45	80127	broad.mit.edu	37	chr14	74522353	74522353	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaggaaaaagtattgcgAttgctctttgcaaaaatgaa	17	10	9	5	1	1	2	0	1	1	1	1	4	1	3	0	1	3	3	0	1	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:74522353A>G	uc010tup.1	+	9	1476	c.1353A>G	c.(1351-1353)CGA>CGG	p.R451R	C14orf45_uc001xpm.1_RNA	NM_025057	NP_079333	Q8ND07	CN045_HUMAN	hypothetical protein LOC80127	451											0				BRCA - Breast invasive adenocarcinoma(234;0.00351)		AAGTATTGCGATTGCTCTTTG	0.363													6	136					0	0	1	0	0		G	74522353	G	G	74522353	2	3	151	1	0	0	0	0	0	0	0	1	1778	320	12	3		3	C14orf45	14	74522353	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	315823	74522353	32827187	3212	80377											
LIN52	91750	broad.mit.edu	37	chr14	74562660	74562660	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctttttagtaccaggtgTtgctgaatttgcagcttcct	6	19	8	8	0	1	1	0	1	1	0	2	1	2	1	2	1	4	5	2	1	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:74562660T>C	uc001xpp.2	+	3	126	c.116T>C	c.(115-117)GTT>GCT	p.V39A	LIN52_uc010asb.2_RNA	NM_001024674	NP_001019845	Q52LA3	LIN52_HUMAN	lin-52 homolog	39										breast(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00471)		GTACCAGGTGTTGCTGAATTT	0.239													3	69					0	0	1	0	0		C	74562660	C	C	74562660	3	2	151	1	0	0	0	0	1	0	0	0	8825	1725	60	3	126	3	LIN52	14	74562660	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	40307	74562660	32786880	3213	80378											
ABCD4	5826	broad.mit.edu	37	chr14	74754962	74754962	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccttgccaccaagttggActgtaacagacccagagggc	10	8	11	12	0	0	2	0	0	0	2	1	3	1	3	4	2	2	2	4	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:74754962A>G	uc001xpr.2	-	16	1659	c.1507T>C	c.(1507-1509)TCC>CCC	p.S503P	ABCD4_uc001xps.2_Missense_Mutation_p.S344P|ABCD4_uc001xpt.2_Missense_Mutation_p.S344P|ABCD4_uc010tur.1_Missense_Mutation_p.S399P	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	503	ABC transporter.					ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)		ACCAAGTTGGACTGTAACAGA	0.562													9	22					0	0	1	0	0		G	74754962	G	G	74754962	3	3	151	1	0	0	0	0	1	0	0	0	63	289	10	3	329	3	ABCD4	14	74754962	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	192302	74754962	32594578	3214	80379											
ABCD4	5826	broad.mit.edu	37	chr14	74757053	74757053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggtcttgccagtgcccGtgttgcctgtgatgagcagg	6	10	16	9	1	1	2	0	2	1	0	1	3	1	3	3	3	4	2	3	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:74757053G>A	uc001xpr.2	-	12	1420	c.1268C>T	c.(1267-1269)ACG>ATG	p.T423M	ABCD4_uc001xps.2_Missense_Mutation_p.T264M|ABCD4_uc001xpt.2_Missense_Mutation_p.T264M|ABCD4_uc010tur.1_Missense_Mutation_p.T319M|ABCD4_uc001xpu.2_Missense_Mutation_p.T160M	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	423	ABC transporter.|ATP (Potential).					ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)		GCCAGTGCCCGTGTTGCCTGT	0.627											OREG0022800	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	52	150					0	0	1	0	0		A	74757053	A	A	74757053	3	1	151	1	0	0	0	0	1	0	0	0	63	1145	40	1	584	1	ABCD4	14	74757053	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2091	74757053	32592487	3215	80380											
ABCD4	5826	broad.mit.edu	37	chr14	74762622	74762622	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggggcccatcaaagttttGttcaccacggtccccaggat	9	10	10	12	1	2	0	2	0	0	0	3	1	3	1	4	4	0	2	4	4	1	3	rs149779191		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:74762622G>A	uc001xpr.2	-	6	755	c.603C>T	c.(601-603)AAC>AAT	p.N201N	ABCD4_uc001xps.2_Silent_p.N42N|ABCD4_uc001xpt.2_Silent_p.N42N|ABCD4_uc010tur.1_Silent_p.N114N|ABCD4_uc001xpu.2_5'UTR|ABCD4_uc001xpv.2_RNA	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	201	ABC transmembrane type-1.|Helical; (Potential).					ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)		TCAAAGTTTTGTTCACCACGG	0.547													23	72					0	0	1	0	0		A	74762622	A	A	74762622	2	1	151	1	0	0	0	0	0	0	0	1	63	1368	48	4		4	ABCD4	14	74762622	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	5569	74762622	32586918	3216	80381											
YLPM1	56252	broad.mit.edu	37	chr14	75230218	75230218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccgaattggggccggtatgGcgggagcagccactatccgc	7	6	15	13	4	0	0	0	0	0	0	1	2	1	1	4	5	2	2	4	5	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:75230218G>A	uc001xqj.3	+	1	150	c.26G>A	c.(25-27)GGC>GAC	p.G9D		NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	9					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		GGCCGGTATGGCGGGAGCAGC	0.701													5	5					0	0	1	0	0		A	75230218	A	A	75230218	3	1	151	1	0	0	0	0	1	0	0	0	17512	1203	42	2	28	2	YLPM1	14	75230218	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	467596	75230218	32119322	3217	80382											
YLPM1	56252	broad.mit.edu	37	chr14	75265004	75265004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaagataaaggcctgcctCggccagataatagagataat	16	7	9	9	1	0	3	0	0	0	3	1	4	0	3	4	2	1	0	4	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:75265004C>T	uc001xqj.3	+	5	3128	c.3004C>T	c.(3004-3006)CGG>TGG	p.R1002W	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	807	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		AGGCCTGCCTCGGCCAGATAA	0.428													17	62					0	0	1	0	0		T	75265004	T	T	75265004	3	4	151	1	0	0	0	0	1	0	0	0	17512	875	31	1	3022	1	YLPM1	14	75265004	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	34786	75265004	32084536	3218	80383											
MLH3	27030	broad.mit.edu	37	chr14	75515935	75515935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgttacagtagtcccagCgcttgctctagtcacatcag	9	11	8	13	1	3	0	2	0	1	0	4	0	4	0	1	0	3	4	1	0	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:75515935C>T	uc001xrd.1	-	2	640	c.424G>A	c.(424-426)GCT>ACT	p.A142T	MLH3_uc001xre.1_Missense_Mutation_p.A142T|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	142					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		GTAGTCCCAGCGCTTGCTCTA	0.423								MMR					45	181					0	0	1	0	0		T	75515935	T	T	75515935	3	4	151	1	0	0	0	0	1	0	0	0	9636	768	27	1	3985	1	MLH3	14	75515935	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	250931	75515935	31833605	3219	80384											
BATF	10538	broad.mit.edu	37	chr14	76012903	76012903	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcggtgctgaacagccaCgagcccctgtgctcggtgct	6	8	13	14	4	0	1	0	1	0	0	2	2	0	1	3	2	6	3	3	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:76012903C>T	uc001xrr.2	+	3	509	c.267C>T	c.(265-267)CAC>CAT	p.H89H		NM_006399	NP_006390	Q16520	BATF_HUMAN	basic leucine zipper transcription factor,	89						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.028)		TGAACAGCCACGAGCCCCTGT	0.627													8	7					0	0	1	0	0		T	76012903	T	T	76012903	2	4	151	1	0	0	0	0	0	0	0	1	1326	535	19	1		1	BATF	14	76012903	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	496968	76012903	31336637	3220	80385											
FLVCR2	55640	broad.mit.edu	37	chr14	76088483	76088483	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaacattgaagaccgggAcgagcttgcctaccacatca	13	6	8	14	2	1	2	1	1	0	1	1	4	1	3	4	1	4	1	4	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:76088483A>G	uc001xrs.2	+	2	1107	c.731A>G	c.(730-732)GAC>GGC	p.D244G	FLVCR2_uc010tvd.1_Missense_Mutation_p.D39G	NM_017791	NP_060261	Q9UPI3	FLVC2_HUMAN	feline leukemia virus subgroup C cellular	244					transmembrane transport	integral to membrane|plasma membrane	heme binding|heme transporter activity				0				BRCA - Breast invasive adenocarcinoma(234;0.029)		GAAGACCGGGACGAGCTTGCC	0.458													45	207					0	0	1	0	0		G	76088483	G	G	76088483	3	3	151	1	0	0	0	0	1	0	0	0	5960	275	10	3	737	3	FLVCR2	14	76088483	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	75580	76088483	31261057	3221	80386											
TGFB3	7043	broad.mit.edu	37	chr14	76427332	76427332	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagaagttggcatagtaGcccttaggttcatggaccca	11	9	12	9	0	1	1	1	0	0	1	1	3	1	2	2	3	2	5	2	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:76427332G>T	uc001xsc.2	-	6	1870	c.1014C>A	c.(1012-1014)GGC>GGA	p.G338G		NM_003239	NP_003230	P10600	TGFB3_HUMAN	transforming growth factor, beta 3 precursor	338					cell growth|cell-cell junction organization|detection of hypoxia|face morphogenesis|in utero embryonic development|induction of apoptosis|lung alveolus development|mammary gland development|menstrual cycle phase|negative regulation of cell proliferation|negative regulation of DNA replication|negative regulation of macrophage cytokine production|negative regulation of neuron apoptosis|odontogenesis|ossification involved in bone remodeling|palate development|platelet activation|platelet degranulation|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of collagen biosynthetic process|positive regulation of DNA replication|positive regulation of epithelial to mesenchymal transition|positive regulation of filopodium assembly|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|positive regulation of transcription from RNA polymerase II promoter|response to progesterone stimulus|salivary gland morphogenesis|transforming growth factor beta receptor signaling pathway	extracellular matrix|platelet alpha granule lumen	growth factor activity|identical protein binding|transforming growth factor beta binding|type I transforming growth factor beta receptor binding|type II transforming growth factor beta receptor binding			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0169)		TGGCATAGTAGCCCTTAGGTT	0.552													34	99					1.42033e-22	1.48484e-22	1	1	0		T	76427332	T	T	76427332	2	4	151	1	0	0	0	0	0	0	0	1	15844	958	34	5		5	TGFB3	14	76427332	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	338849	76427332	30922208	3222	80387											
C14orf118	55668	broad.mit.edu	37	chr14	76668165	76668165	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgctacattttttaaaatgCcacaagaaaagagccctgga	15	10	7	9	0	0	2	0	0	0	2	0	3	0	3	2	1	4	1	2	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:76668165C>A	uc001xsh.2	+	10	1506	c.1420C>A	c.(1420-1422)CCA>ACA	p.P474T	C14orf118_uc001xsi.2_Missense_Mutation_p.P469T|C14orf118_uc001xsl.2_RNA|C14orf118_uc001xsn.1_RNA	NM_017926	NP_060396	Q9NWQ4	CN118_HUMAN	hypothetical protein LOC55668 isoform 1	474										ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.0172)		TTTTAAAATGCCACAAGAAAA	0.493													26	154					1.04121e-07	1.06493e-07	1	1	0		A	76668165	A	A	76668165	3	1	151	1	0	0	0	0	1	0	0	0	1744	739	26	5	1498	5	C14orf118	14	76668165	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	240833	76668165	30681375	3223	80388											
POMT2	29954	broad.mit.edu	37	chr14	77745125	77745125	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagtggtggaagtagaggAcccggcccatcaggaaaaac	14	5	14	8	1	1	1	1	0	0	1	1	4	1	4	2	5	1	2	2	5	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:77745125A>G	uc001xti.2	-	19	2180	c.1979T>C	c.(1978-1980)GTC>GCC	p.V660A	POMT2_uc001xth.1_Missense_Mutation_p.V358A	NM_013382	NP_037514	Q9UKY4	POMT2_HUMAN	protein-O-mannosyltransferase 2	660	Helical; (Potential).				protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)		GAAGTAGAGGACCCGGCCCAT	0.607													10	65					0	0	1	0	0		G	77745125	G	G	77745125	3	3	151	1	0	0	0	0	1	0	0	0	12265	275	10	3	285	3	POMT2	14	77745125	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1076960	77745125	29604415	3224	80389											
POMT2	29954	broad.mit.edu	37	chr14	77751306	77751306	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactcacacttgggattgatAtggtcctccacattccagat	10	12	7	12	0	1	2	1	1	0	1	4	3	4	3	3	2	0	0	3	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:77751306A>G	uc001xti.2	-	14	1764	c.1563T>C	c.(1561-1563)CAT>CAC	p.H521H	POMT2_uc001xth.1_Silent_p.H219H	NM_013382	NP_037514	Q9UKY4	POMT2_HUMAN	protein-O-mannosyltransferase 2	521	MIR 3.				protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)		TGGGATTGATATGGTCCTCCA	0.463													21	75					0	0	1	0	0		G	77751306	G	G	77751306	2	3	151	1	0	0	0	0	0	0	0	1	12265	446	16	3		3	POMT2	14	77751306	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6181	77751306	29598234	3225	80390											
VIPAR	63894	broad.mit.edu	37	chr14	77900221	77900221	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctacatcattccaggcTcgaagcttggcacgagcagc	10	8	10	13	2	2	0	1	0	1	0	4	2	3	0	1	2	4	5	1	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:77900221T>C	uc001xtt.1	-	17	1481	c.1143A>G	c.(1141-1143)CGA>CGG	p.R381R	VIPAR_uc001xtu.1_Silent_p.R381R|VIPAR_uc010tvj.1_Silent_p.R332R|VIPAR_uc001xtv.1_Silent_p.R381R	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894	381					endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1						CATTCCAGGCTCGAAGCTTGG	0.498													18	85					0	0	1	0	0		C	77900221	C	C	77900221	2	2	151	1	0	0	0	0	0	0	0	1	17194	1538	54	3		3	VIPAR	14	77900221	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	148915	77900221	29449319	3226	80391											
ISM2	145501	broad.mit.edu	37	chr14	77951099	77951099	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctccagccgcaacggagtaAcctctggggtcctgggaggg	7	6	16	12	2	1	0	0	0	1	0	3	2	3	2	4	5	3	3	4	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:77951099A>G	uc001xtz.2	-	2	379	c.305T>C	c.(304-306)GTT>GCT	p.V102A	ISM2_uc001xua.2_Missense_Mutation_p.V102A|ISM2_uc001xty.2_Missense_Mutation_p.V14A|ISM2_uc010tvl.1_Missense_Mutation_p.V102A	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	102						extracellular region				skin(1)	1						CAACGGAGTAACCTCTGGGGT	0.612													10	43					0	0	1	0	0		G	77951099	G	G	77951099	3	3	151	1	0	0	0	0	1	0	0	0	7877	43	2	3	1434	3	ISM2	14	77951099	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	50878	77951099	29398441	3227	80392											
NRXN3	9369	broad.mit.edu	37	chr14	79432495	79432495	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagagcctcatgtttaaTggccttctctacattgactt	8	15	7	11	0	2	2	1	1	1	1	3	2	2	2	2	1	3	2	2	1	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:79432495T>C	uc001xun.2	+	9	1895	c.1404T>C	c.(1402-1404)AAT>AAC	p.N468N	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Silent_p.N593N	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	841	Laminin G-like 4.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		TCATGTTTAATGGCCTTCTCT	0.463													18	73					0	0	1	0	0		C	79432495	C	C	79432495	2	2	151	1	0	0	0	0	0	0	0	1	10686	1461	51	3		3	NRXN3	14	79432495	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1481396	79432495	27917045	3228	80393											
NRXN3	9369	broad.mit.edu	37	chr14	79432705	79432705	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatggcttcattctcttcaaTagtggtgatggcaatgactt	9	15	10	7	0	3	2	2	2	1	0	4	3	3	2	0	3	0	2	0	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:79432705T>C	uc001xun.2	+	9	2105	c.1614T>C	c.(1612-1614)AAT>AAC	p.N538N	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Silent_p.N663N	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	911	Extracellular (Potential).|Laminin G-like 5.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		TTCTCTTCAATAGTGGTGATG	0.478													54	188					0	0	1	0	0		C	79432705	C	C	79432705	2	2	151	1	0	0	0	0	0	0	0	1	10686	1403	49	3		3	NRXN3	14	79432705	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	210	79432705	27916835	3229	80394											
NRXN3	9369	broad.mit.edu	37	chr14	80328021	80328021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagcaaaccccacggagcCgggaatcagacgggttccgg	11	3	13	14	4	1	1	1	0	0	1	2	3	2	3	4	4	3	2	4	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:80328021C>T	uc001xun.2	+	17	3391	c.2900C>T	c.(2899-2901)CCG>CTG	p.P967L	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Missense_Mutation_p.P543L|NRXN3_uc010asw.2_Missense_Mutation_p.P365L|NRXN3_uc001xur.3_Missense_Mutation_p.P338L	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1549	Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CCCACGGAGCCGGGAATCAGA	0.602													14	48					0	0	1	0	0		T	80328021	T	T	80328021	3	4	151	1	0	0	0	0	1	0	0	0	10686	652	23	1	3312	1	NRXN3	14	80328021	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	895316	80328021	27021519	3230	80395											
C14orf145	145508	broad.mit.edu	37	chr14	81259277	81259277	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgactgctggagctcacTgaggtaccgctcagcctgct	6	10	11	14	1	3	2	2	2	1	0	3	3	3	3	2	2	5	5	2	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:81259277T>C	uc001xux.2	-	13	1558	c.1387A>G	c.(1387-1389)AGT>GGT	p.S463G	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	463	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TGGAGCTCACTGAGGTACCGC	0.537													43	155					0	0	1	0	0		C	81259277	C	C	81259277	3	2	151	1	0	0	0	0	1	0	0	0	1752	1580	55	3	1945	3	C14orf145	14	81259277	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	931256	81259277	26090263	3231	80396											
PTPN21	11099	broad.mit.edu	37	chr14	88946106	88946106	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacacctgcgtccgcatgaTgttgggagacgggtagtcct	7	10	14	10	3	0	2	0	1	0	1	2	3	2	2	3	2	2	4	3	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:88946106T>C	uc001xwv.3	-	13	2000	c.1669A>G	c.(1669-1671)ATC>GTC	p.I557V	PTPN21_uc010twc.1_Missense_Mutation_p.I353V	NM_007039	NP_008970	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type	557						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			ovary(3)|skin(1)	4						GTCCGCATGATGTTGGGAGAC	0.701													3	10					0	0	1	0	0		C	88946106	C	C	88946106	3	2	151	1	0	0	0	0	1	0	0	0	12811	1464	51	3	1883	3	PTPN21	14	88946106	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	7686829	88946106	18403434	3232	80397											
EML5	161436	broad.mit.edu	37	chr14	89091363	89091363	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccatctcgcagggtggtgtAcatggcaaacacaggcccgt	9	8	12	12	2	1	0	0	0	1	0	3	0	2	0	2	4	2	3	2	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:89091363A>G	uc001xxg.2	-	36	5035	c.4849T>C	c.(4849-4851)TAC>CAC	p.Y1617H	EML5_uc001xxf.2_Missense_Mutation_p.Y404H|EML5_uc001xxh.1_Missense_Mutation_p.Y748H	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	1609	WD 24.					cytoplasm|microtubule				ovary(3)	3						AGGGTGGTGTACATGGCAAAC	0.478													15	50					0	0	1	0	0		G	89091363	G	G	89091363	3	3	151	1	0	0	0	0	1	0	0	0	5108	391	14	3	1120	3	EML5	14	89091363	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	145257	89091363	18258177	3233	80398											
FBLN5	10516	broad.mit.edu	37	chr14	92403440	92403440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggggttcgagtagggccctCgatacacagggtttgtccgg	7	9	16	9	3	0	0	0	0	0	0	3	2	1	0	2	5	1	3	2	5	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:92403440C>T	uc001xzx.3	-	4	703	c.230G>A	c.(229-231)CGA>CAA	p.R77Q	FBLN5_uc010aud.2_Missense_Mutation_p.R82Q|FBLN5_uc010aue.2_Missense_Mutation_p.R118Q	NM_006329	NP_006320	Q9UBX5	FBLN5_HUMAN	fibulin 5 precursor	77	EGF-like 1; calcium-binding (Potential).				cell-matrix adhesion|elastic fiber assembly|protein localization at cell surface|regulation of removal of superoxide radicals	extracellular space|proteinaceous extracellular matrix|soluble fraction	calcium ion binding|integrin binding|protein C-terminus binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		all_cancers(154;0.0722)				gtagggCCCTCGATACACAGG	0.473													15	58					0	0	1	0	0		T	92403440	T	T	92403440	3	4	151	1	0	0	0	0	1	0	0	0	5714	884	31	1	1148	1	FBLN5	14	92403440	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3312077	92403440	14946100	3234	80399											
TRIP11	9321	broad.mit.edu	37	chr14	92436177	92436177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taataagaggtacagctgccGagcgaggagccaaaaacgga	16	4	13	8	3	0	1	0	0	0	1	0	5	0	3	2	3	6	2	2	3	5	3	rs146953990	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:92436177G>A	uc001xzy.2	-	21	6568	c.5780C>T	c.(5779-5781)TCG>TTG	p.S1927L	TRIP11_uc010auf.1_Missense_Mutation_p.S1663L	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	1927					transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		TACAGCTGCCGAGCGAGGAGC	0.453			T	PDGFRB	AML								16	45					0	0	1	0	0		A	92436177	A	A	92436177	3	1	151	1	0	0	0	0	1	0	0	0	16581	1059	37	1	163	1	TRIP11	14	92436177	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	32737	92436177	14913363	3235	80400											
ATXN3	4287	broad.mit.edu	37	chr14	92560124	92560124	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcctctgatactctggacTgttgaacaggattagttcta	10	13	10	8	0	3	2	0	2	3	0	3	5	3	4	1	2	3	2	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:92560124T>C	uc001yac.3	-	4	355	c.286A>G	c.(286-288)AGT>GGT	p.S96G	ATXN3_uc010aug.2_Missense_Mutation_p.S81G|ATXN3_uc001yad.3_Missense_Mutation_p.S41G|ATXN3_uc010auh.2_Intron|ATXN3_uc001yae.3_Intron|ATXN3_uc010twl.1_Intron	NM_004993	NP_004984	P54252	ATX3_HUMAN	ataxin 3 reference isoform	96	Josephin.				cell death|nervous system development|nucleotide-excision repair|regulation of transcription, DNA-dependent|synaptic transmission|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleoplasm	cysteine-type peptidase activity|protein binding				0		all_cancers(154;0.0768)		COAD - Colon adenocarcinoma(157;0.224)		TACTCTGGACTGTTGAACAGG	0.338													33	113					0	0	1	0	0		C	92560124	C	C	92560124	3	2	151	1	0	0	0	0	1	0	0	0	1214	1580	55	3	831	3	ATXN3	14	92560124	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	123947	92560124	14789416	3236	80401											
SLC24A4	123041	broad.mit.edu	37	chr14	92909143	92909143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcataattggagtgtgcGgactgtttgctggccaggtc	6	13	15	7	1	0	0	0	0	0	0	1	2	0	2	1	4	3	3	1	4	1	3	rs140536494		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:92909143G>A	uc001yak.2	+	6	538	c.514G>A	c.(514-516)GGA>AGA	p.G172R	SLC24A4_uc001yai.2_Missense_Mutation_p.G125R|SLC24A4_uc010twm.1_Missense_Mutation_p.G189R|SLC24A4_uc001yaj.2_Missense_Mutation_p.G172R|SLC24A4_uc010auj.2_Missense_Mutation_p.G80R|SLC24A4_uc010twn.1_5'Flank	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	189	Helical; (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		TGGAGTGTGCGGACTGTTTGC	0.582													13	62					0	0	1	0	0		A	92909143	A	A	92909143	3	1	151	1	0	0	0	0	1	0	0	0	14493	1117	39	1	536	1	SLC24A4	14	92909143	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	349019	92909143	14440397	3237	80402											
GOLGA5	9950	broad.mit.edu	37	chr14	93282672	93282672	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcagcactgccagtagcaTggagctggaagaacttcggc	11	7	13	10	1	0	1	0	0	0	1	1	3	0	3	1	3	6	5	1	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:93282672T>C	uc001yaz.1	+	7	1579	c.1397T>C	c.(1396-1398)ATG>ACG	p.M466T		NM_005113	NP_005104	Q8TBA6	GOGA5_HUMAN	Golgi autoantigen, golgin subfamily a, 5	466	Cytoplasmic (Potential).|Potential.				Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		GCCAGTAGCATGGAGCTGGAA	0.418			T	RET	papillary thyroid								28	146					0	0	1	0	0		C	93282672	C	C	93282672	3	2	151	1	0	0	0	0	1	0	0	0	6571	1464	51	3	1419	3	GOLGA5	14	93282672	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	373529	93282672	14066868	3238	80403											
CHGA	1113	broad.mit.edu	37	chr14	93398722	93398722	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgctccaggtcggtcGgaggctctggctgtggatgg	4	9	16	12	2	1	0	0	0	1	0	4	2	2	2	3	7	1	3	3	7	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:93398722G>A	uc001ybc.3	+	7	1076	c.816G>A	c.(814-816)TCG>TCA	p.S272S	CHGA_uc010aum.2_RNA|CHGA_uc001ybd.3_Silent_p.S121S	NM_001275	NP_001266	P10645	CMGA_HUMAN	chromogranin A precursor	272					regulation of blood pressure	extracellular region|stored secretory granule				skin(2)	2		all_cancers(154;0.0843)		Epithelial(152;0.102)|COAD - Colon adenocarcinoma(157;0.208)|all cancers(159;0.224)		CAGGTCGGTCGGAGGCTCTGG	0.652													3	6					0	0	1	0	0		A	93398722	A	A	93398722	2	1	151	1	0	0	0	0	0	0	0	1	3341	1103	39	1		1	CHGA	14	93398722	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	116050	93398722	13950818	3239	80404											
MOAP1	64112	broad.mit.edu	37	chr14	93650412	93650412	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctactttcctgttctcaTccctcctgaacatccttcca	7	14	4	16	0	1	1	1	1	1	0	7	1	6	1	5	1	2	2	5	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:93650412T>C	uc001ybj.2	-	3	546	c.176A>G	c.(175-177)GAT>GGT	p.D59G	C14orf109_uc001ybk.3_5'Flank|C14orf109_uc010auo.2_5'Flank	NM_022151	NP_071434	Q96BY2	MOAP1_HUMAN	modulator of apoptosis 1	59					activation of caspase activity|apoptotic nuclear change	cytoplasm	protein homodimerization activity			skin(2)|ovary(1)	3		all_cancers(154;0.00528)|Acute lymphoblastic leukemia(33;0.0497)|all_epithelial(191;0.125)|all_neural(303;0.13)		Epithelial(152;0.178)|all cancers(159;0.2)|COAD - Colon adenocarcinoma(157;0.204)		cctgttctcatccctcctgaa	0													6	328					0	0	1	0	0		C	93650412	C	C	93650412	3	2	151	1	0	0	0	0	1	0	0	0	9698	1435	50	3	883	3	MOAP1	14	93650412	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	251690	93650412	13699128	3240	80405											
KIAA1409	57578	broad.mit.edu	37	chr14	94088327	94088327	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcataccagaggttaggtTaaactgtatggagactttcg	11	13	11	6	1	1	2	1	0	0	2	2	3	1	2	1	3	2	3	1	3	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:94088327T>C	uc001ybv.1	+	28	4366	c.4283T>C	c.(4282-4284)TTA>TCA	p.L1428S	KIAA1409_uc001ybs.1_Missense_Mutation_p.L1406S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1583						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GAGGTTAGGTTAAACTGTATG	0.478													27	99					0	0	1	0	0		C	94088327	C	C	94088327	3	2	151	1	0	0	0	0	1	0	0	0	8246	1764	61	3	4323	3	KIAA1409	14	94088327	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	437915	94088327	13261213	3241	80406											
FAM181A	90050	broad.mit.edu	37	chr14	94395058	94395058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccgcttccttctgggaagagCcaaggcccacccacagctac	9	6	9	17	1	1	1	0	0	1	1	2	2	2	2	5	2	3	2	5	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:94395058C>T	uc001ybz.1	+	3	920	c.613C>T	c.(613-615)CCA>TCA	p.P205S	C14orf86_uc001yby.2_5'Flank|FAM181A_uc010aus.1_Missense_Mutation_p.P143S|FAM181A_uc001yca.1_Missense_Mutation_p.P143S	NM_138344	NP_612353	Q8N9Y4	F181A_HUMAN	hypothetical protein LOC90050	205											0						CTGGGAAGAGCCAAGGCCCAC	0.622													6	33					0	0	1	0	0		T	94395058	T	T	94395058	3	4	151	1	0	0	0	0	1	0	0	0	5519	739	26	2	619	2	FAM181A	14	94395058	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	306731	94395058	12954482	3242	80407											
DDX24	57062	broad.mit.edu	37	chr14	94545855	94545855	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttctgaaacagcttgTgcctttctcttgggtgcttc	4	18	8	11	0	4	1	0	1	4	0	6	1	4	1	1	1	4	2	1	1	1	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:94545855T>C	uc001ycj.2	-	2	333	c.234A>G	c.(232-234)GCA>GCG	p.A78A	DDX24_uc010twq.1_Silent_p.A35A|DDX24_uc010twr.1_Intron|IFI27L1_uc001ycl.2_5'Flank|IFI27L1_uc001yck.2_5'Flank	NM_020414	NP_065147	Q9GZR7	DDX24_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 24	78					RNA metabolic process	cytoplasm|nucleolus|nucleolus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|skin(1)	4		all_cancers(154;0.12)		Epithelial(152;0.114)|all cancers(159;0.19)|COAD - Colon adenocarcinoma(157;0.207)		AAACAGCTTGTGCCTTTCTCT	0.443													7	253					0	0	1	0	0		C	94545855	C	C	94545855	2	2	151	1	0	0	0	0	0	0	0	1	4354	1683	59	3		3	DDX24	14	94545855	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	150797	94545855	12803685	3243	80408											
SERPINA12	145264	broad.mit.edu	37	chr14	94964479	94964479	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctgggcacccaggcacaGcatggagaaagctgtagaga	12	5	14	10	0	0	2	0	0	0	2	1	4	1	2	2	3	2	5	2	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:94964479G>A	uc001ydj.2	-	3	1052	c.256C>T	c.(256-258)CTG>TTG	p.L86L		NM_173850	NP_776249	Q8IW75	SPA12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	86					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			central_nervous_system(2)|ovary(1)|lung(1)	4				COAD - Colon adenocarcinoma(157;0.235)		CCCAGGCACAGCATGGAGAAA	0.502													38	135					0	0	1	0	0		A	94964479	A	A	94964479	2	1	151	1	0	0	0	0	0	0	0	1	14114	962	34	2		2	SERPINA12	14	94964479	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	418624	94964479	12385061	3244	80409											
SERPINA12	145264	broad.mit.edu	37	chr14	94964535	94964535	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagatgttcctgccagggTtgtaaaaggccagcttcttg	9	11	13	8	0	1	1	0	0	1	1	2	2	2	2	3	3	2	4	3	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:94964535T>C	uc001ydj.2	-	3	996	c.200A>G	c.(199-201)AAC>AGC	p.N67S		NM_173850	NP_776249	Q8IW75	SPA12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	67					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			central_nervous_system(2)|ovary(1)|lung(1)	4				COAD - Colon adenocarcinoma(157;0.235)		CCTGCCAGGGTTGTAAAAGGC	0.542													39	162					0	0	1	0	0		C	94964535	C	C	94964535	3	2	151	1	0	0	0	0	1	0	0	0	14114	1725	60	3	1060	3	SERPINA12	14	94964535	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	56	94964535	12385005	3245	80410											
BDKRB2	624	broad.mit.edu	37	chr14	96707338	96707338	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctgggaagtgttcaccAacatgctcctgaatgtcgtg	9	12	10	10	1	3	1	2	1	1	0	5	2	4	2	2	1	2	2	2	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:96707338A>G	uc010avm.1	+	3	869	c.673A>G	c.(673-675)AAC>GAC	p.N225D	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Missense_Mutation_p.N198D|BDKRB2_uc001yfg.2_Missense_Mutation_p.N225D	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	225	Helical; Name=5; (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		AGTGTTCACCAACATGCTCCT	0.552													4	42					0	0	1	0	0		G	96707338	G	G	96707338	3	3	151	1	0	0	0	0	1	0	0	0	1394	130	5	3	679	3	BDKRB2	14	96707338	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1742803	96707338	10642202	3246	80411											
ATG2B	55102	broad.mit.edu	37	chr14	96752298	96752298	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagccgcagtttcataaaTggtctgagccgtgtctgtga	8	12	12	9	3	3	2	1	2	2	0	4	3	3	2	2	1	2	2	2	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:96752298T>C	uc001yfi.2	-	42	6396	c.6031A>G	c.(6031-6033)ATT>GTT	p.I2011V		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	2011										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		GTTTCATAAATGGTCTGAGCC	0.562													6	23					0	0	1	0	0		C	96752298	C	C	96752298	3	2	151	1	0	0	0	0	1	0	0	0	1095	1464	51	3	209	3	ATG2B	14	96752298	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	44960	96752298	10597242	3247	80412											
ATG2B	55102	broad.mit.edu	37	chr14	96811655	96811655	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgttagtttctggctaagAcattcttttgccaattgcat	8	18	7	8	0	3	1	0	0	3	1	3	1	3	1	1	1	2	4	1	1	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:96811655A>G	uc001yfi.2	-	3	758	c.393T>C	c.(391-393)TGT>TGC	p.C131C		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	131										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		TCTGGCTAAGACATTCTTTTG	0.368													23	64					0	0	1	0	0		G	96811655	G	G	96811655	2	3	151	1	0	0	0	0	0	0	0	1	1095	273	10	3		3	ATG2B	14	96811655	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	59357	96811655	10537885	3248	80413											
EML1	2009	broad.mit.edu	37	chr14	100377888	100377888	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcatttcttggagcggaaActatcaaaaacttcgtaaaa	15	11	7	8	2	3	0	2	0	1	0	4	2	3	2	0	2	3	2	0	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:100377888A>G	uc001ygs.2	+	13	1538	c.1469A>G	c.(1468-1470)AAC>AGC	p.N490S	EML1_uc010tww.1_Missense_Mutation_p.N478S|EML1_uc001ygq.2_Missense_Mutation_p.N509S|EML1_uc001ygr.2_Missense_Mutation_p.N509S	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	490	WD 5.					cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				TGGAGCGGAAACTATCAAAAA	0.403													26	97					0	0	1	0	0		G	100377888	G	G	100377888	3	3	151	1	0	0	0	0	1	0	0	0	5104	43	2	3	1580	3	EML1	14	100377888	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3566233	100377888	6971652	3249	80414											
WDR25	79446	broad.mit.edu	37	chr14	100995488	100995488	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatggcaactacctggccctTttctccactgtgtggcccta	7	12	8	14	0	1	0	0	0	1	0	2	0	1	0	4	3	2	1	4	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:100995488T>C	uc010avx.2	+	6	1449	c.1356T>C	c.(1354-1356)CTT>CTC	p.L452L	WDR25_uc001yhm.2_Silent_p.L444L|WDR25_uc001yhn.2_Silent_p.L452L|WDR25_uc010avy.2_RNA|WDR25_uc001yho.2_Silent_p.L195L	NM_001161476	NP_001154948	Q64LD2	WDR25_HUMAN	WD repeat domain 25	452	WD 5.										0		Melanoma(154;0.212)				ACCTGGCCCTTTTCTCCACTG	0.622													10	48					0	0	1	0	0		C	100995488	C	C	100995488	2	2	151	1	0	0	0	0	0	0	0	1	17308	1828	64	3		3	WDR25	14	100995488	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	617600	100995488	6354052	3250	80415											
DIO3	1735	broad.mit.edu	37	chr14	102028188	102028188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgctcaaggcggtgtggCatggccagaagttggatttc	7	10	15	9	3	1	1	1	0	0	1	3	2	1	2	1	5	0	3	1	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:102028188C>T	uc010txq.1	+	1	501	c.277C>T	c.(277-279)CAT>TAT	p.H93Y	DIO3OS_uc001ykd.1_5'Flank|uc001yke.2_5'Flank|uc001ykf.2_5'Flank|uc001ykg.2_5'Flank|uc001ykh.3_5'Flank|MIR1247_hsa-mir-1247|MI0006382_5'Flank	NM_001362	NP_001353	P55073	IOD3_HUMAN	deiodinase, iodothyronine, type III	93	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process	endosome membrane|integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|thyroxine 5-deiodinase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(303;0.185)				GGCGGTGTGGCATGGCCAGAA	0.652													15	59					0	0	1	0	0		T	102028188	T	T	102028188	3	4	151	1	0	0	0	0	1	0	0	0	4532	710	25	2	357	2	DIO3	14	102028188	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1032700	102028188	5321352	3251	80416											
DYNC1H1	1778	broad.mit.edu	37	chr14	102442075	102442075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcggtgatgaaggagaagaaGaaaaagaattcatttcctat	17	10	10	4	1	1	6	1	2	0	4	3	7	2	6	1	2	0	0	1	2	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:102442075G>A	uc001yks.2	+	2	447	c.283G>A	c.(283-285)GAA>AAA	p.E95K		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	95	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						AGGAGAAGAAGAAAAAGAATT	0.289													11	75					0	0	1	0	0		A	102442075	A	A	102442075	3	1	151	1	0	0	0	0	1	0	0	0	4847	943	33	4	289	4	DYNC1H1	14	102442075	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	413887	102442075	4907465	3252	80417											
DYNC1H1	1778	broad.mit.edu	37	chr14	102494083	102494083	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggttcactagccaggttaTccgcaacctccacgtcgtgt	7	11	10	13	3	1	0	1	0	0	0	4	0	3	0	4	2	2	3	4	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:102494083T>C	uc001yks.2	+	47	9340	c.9176T>C	c.(9175-9177)ATC>ACC	p.I3059T		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3059	AAA 4 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						AGCCAGGTTATCCGCAACCTC	0.567													23	143					0	0	1	0	0		C	102494083	C	C	102494083	3	2	151	1	0	0	0	0	1	0	0	0	4847	1435	50	3	9362	3	DYNC1H1	14	102494083	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	52008	102494083	4855457	3253	80418											
WDR20	91833	broad.mit.edu	37	chr14	102675555	102675555	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgagcaaatagtacacagTccaggctctccaaacggaac	15	6	8	12	2	1	0	0	0	1	0	4	2	2	1	2	2	4	3	2	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:102675555T>C	uc001ykz.2	+	3	1097	c.1048T>C	c.(1048-1050)TCC>CCC	p.S350P	WDR20_uc001yky.1_Missense_Mutation_p.S93P|WDR20_uc001yla.2_Missense_Mutation_p.S226P|WDR20_uc001ylb.2_Missense_Mutation_p.S289P|WDR20_uc010txu.1_Missense_Mutation_p.S381P|WDR20_uc001ylc.2_Intron|WDR20_uc001yld.2_Missense_Mutation_p.S350P|WDR20_uc001yle.2_Missense_Mutation_p.S289P|WDR20_uc001ylf.2_Missense_Mutation_p.S362P	NM_144574	NP_653175	Q8TBZ3	WDR20_HUMAN	WD repeat domain 20 isoform 2	350	WD 4.										0						TAGTACACAGTCCAGGCTCTC	0.512											OREG0022939	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	79					0	0	1	0	0		C	102675555	C	C	102675555	3	2	151	1	0	0	0	0	1	0	0	0	17306	1667	58	3	1075	3	WDR20	14	102675555	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	181472	102675555	4673985	3254	80419											
RAGE	5891	broad.mit.edu	37	chr14	102695953	102695953	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgacataggccggtccTcgtctcttgggacggtcctc	5	11	11	14	3	1	1	0	1	1	0	7	2	4	2	4	4	0	0	4	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:102695953T>C	uc001ylm.2	-	11	1249	c.1023A>G	c.(1021-1023)CGA>CGG	p.R341R	RAGE_uc010txv.1_Silent_p.R311R|RAGE_uc001yln.2_Silent_p.R159R|RAGE_uc001ylh.2_Intron|RAGE_uc001yli.2_RNA|RAGE_uc001yll.2_RNA|RAGE_uc001ylj.2_RNA|RAGE_uc001ylk.2_RNA	NM_014226	NP_055041	Q9UQ07	MOK_HUMAN	MAPK/MAK/MRK overlapping kinase	341					signal transduction	Golgi apparatus	ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						AGGCCGGTCCTCGTCTCTTGG	0.512													20	74					0	0	1	0	0		C	102695953	C	C	102695953	2	2	151	1	0	0	0	0	0	0	0	1	13031	1538	54	3		3	RAGE	14	102695953	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	20398	102695953	4653587	3255	80420											
RCOR1	23186	broad.mit.edu	37	chr14	103187412	103187412	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggaatagaaccatatcgActtccagaggtaggattatg	13	10	12	6	1	0	2	0	0	0	2	2	5	1	4	2	4	1	1	2	4	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:103187412A>G	uc001ymb.2	+	9	1113	c.1113A>G	c.(1111-1113)CGA>CGG	p.R371R		NM_015156	NP_055971	Q9UKL0	RCOR1_HUMAN	REST corepressor 1	371	Interaction with KDM1A.				blood coagulation|histone H4 deacetylation|interspecies interaction between organisms	transcriptional repressor complex	protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription regulatory region DNA binding			ovary(1)	1						AACCATATCGACTTCCAGAGG	0.303													48	223					0	0	1	0	0		G	103187412	G	G	103187412	2	3	151	1	0	0	0	0	0	0	0	1	13207	262	10	3		3	RCOR1	14	103187412	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	491459	103187412	4162128	3256	80421											
CDC42BPB	9578	broad.mit.edu	37	chr14	103404718	103404718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttggtgggagcggggcccgGcctttcctcctgggaggggg	2	8	21	10	2	0	0	0	0	0	0	2	2	2	2	4	8	1	1	4	8	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:103404718G>A	uc001ymi.1	-	35	5090	c.4858C>T	c.(4858-4860)CCG>TCG	p.P1620S		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	1620					actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		GCGGGGCCCGGCCTTTCCTCC	0.647													11	58					0	0	1	0	0		A	103404718	A	A	103404718	3	1	151	1	0	0	0	0	1	0	0	0	3076	1203	42	2	289	2	CDC42BPB	14	103404718	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	217306	103404718	3944822	3257	80422											
CDC42BPB	9578	broad.mit.edu	37	chr14	103416191	103416191	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagagcttgcagtcacagacGactgcatatgcgcgctgcca	11	7	11	12	3	1	2	1	0	0	2	1	3	1	2	1	0	5	4	1	0	2	2	rs148759838	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:103416191G>A	uc001ymi.1	-	26	3592	c.3360C>T	c.(3358-3360)GTC>GTT	p.V1120V	CDC42BPB_uc001ymj.1_Silent_p.V222V	NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	1120	PH.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		AGTCACAGACGACTGCATATG	0.552													36	130					0	0	1	0	0		A	103416191	A	A	103416191	2	1	151	1	0	0	0	0	0	0	0	1	3076	1045	37	1		1	CDC42BPB	14	103416191	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	11473	103416191	3933349	3258	80423											
C14orf73	91828	broad.mit.edu	37	chr14	103566731	103566731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgaggcaggccttctccCgggccagccagcgggctttg	4	7	14	16	2	1	1	0	1	1	0	2	1	1	1	5	4	2	2	5	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:103566731C>T	uc001ymk.2	+	1	251	c.175C>T	c.(175-177)CGG>TGG	p.R59W		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	hypothetical protein LOC91828	59											0		Melanoma(154;0.155)	Epithelial(46;0.221)			GGCCTTCTCCCGGGCCAGCCA	0.657													5	10					0	0	1	0	0		T	103566731	T	T	103566731	3	4	151	1	0	0	0	0	1	0	0	0	1782	643	23	1	177	1	C14orf73	14	103566731	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	150540	103566731	3782809	3259	80424											
C14orf73	91828	broad.mit.edu	37	chr14	103574751	103574751	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggttccgaggccacatggTtggaccaagccatccagtgc	9	7	13	12	1	0	0	0	0	0	0	2	2	2	1	5	4	2	2	5	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:103574751T>C	uc001ymk.2	+	10	1949	c.1873T>C	c.(1873-1875)TTG>CTG	p.L625L		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	hypothetical protein LOC91828	625											0		Melanoma(154;0.155)	Epithelial(46;0.221)			GGCCACATGGTTGGACCAAGC	0.627													28	134					0	0	1	0	0		C	103574751	C	C	103574751	2	2	151	1	0	0	0	0	0	0	0	1	1782	1722	60	3		3	C14orf73	14	103574751	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	8020	103574751	3774789	3260	80425											
ZFYVE21	79038	broad.mit.edu	37	chr14	104194125	104194125	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcttctgcgacaggtgcTgcagccagaaggtgccgctg	7	8	15	11	2	1	1	0	0	1	1	1	2	1	1	2	2	6	4	2	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:104194125T>C	uc001yoc.2	+	3	266	c.232T>C	c.(232-234)TGC>CGC	p.C78R	ZFYVE21_uc001yod.2_Missense_Mutation_p.C78R	NM_024071	NP_076976	Q9BQ24	ZFY21_HUMAN	zinc finger, FYVE domain containing 21	78	FYVE-type.					cytoplasmic membrane-bounded vesicle|focal adhesion	metal ion binding				0		Melanoma(154;0.226)		Epithelial(152;0.245)		CGACAGGTGCTGCAGCCAGAA	0.677													10	36					0	0	1	0	0		C	104194125	C	C	104194125	3	2	151	1	0	0	0	0	1	0	0	0	17692	1580	55	3	242	3	ZFYVE21	14	104194125	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	619374	104194125	3155415	3261	80426											
TDRD9	122402	broad.mit.edu	37	chr14	104457499	104457499	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatcacatttttaacaggaAcaaggcttggtcgggggccc	11	9	11	10	1	1	0	1	0	0	0	2	1	1	1	1	5	2	1	1	5	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:104457499A>G	uc001yom.3	+	9	1148	c.1118A>G	c.(1117-1119)AAC>AGC	p.N373S	TDRD9_uc001yon.3_Missense_Mutation_p.N111S	NM_153046	NP_694591	Q8NDG6	TDRD9_HUMAN	tudor domain containing 9	373					cell differentiation|DNA methylation involved in gamete generation|fertilization|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	nucleus|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0768)				TTTAACAGGAACAAGGCTTGG	0.323													6	65					0	0	1	0	0		G	104457499	G	G	104457499	3	3	151	1	0	0	0	0	1	0	0	0	15761	43	2	3	1152	3	TDRD9	14	104457499	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	263374	104457499	2892041	3262	80427											
INF2	64423	broad.mit.edu	37	chr14	105169688	105169688	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaacgagctctccggcagCgacaacgtgccctacgtggt	9	7	12	13	5	1	1	0	1	1	0	2	3	1	1	2	2	6	2	2	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:105169688C>T	uc001ypb.2	+	4	707	c.564C>T	c.(562-564)AGC>AGT	p.S188S	INF2_uc010tyi.1_Silent_p.S188S|INF2_uc001ypc.2_Silent_p.S188S|INF2_uc001yoy.3_Silent_p.S188S|INF2_uc001ypa.2_Silent_p.S188S	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	188	GBD/FH3.				actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)		TCTCCGGCAGCGACAACGTGC	0.657													19	83					0	0	1	0	0		T	105169688	T	T	105169688	2	4	151	1	0	0	0	0	0	0	0	1	7750	767	27	1		1	INF2	14	105169688	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	712189	105169688	2179852	3263	80428											
AKT1	207	broad.mit.edu	37	chr14	105241992	105241992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggacaggcctcaccacGcggtgcttgggcttggccag	5	7	17	12	2	1	0	1	0	0	0	1	1	1	1	3	6	1	2	3	6	0	2	rs17846825	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:105241992G>A	uc001ypk.2	-	5	986	c.432C>T	c.(430-432)CGC>CGT	p.R144R	INF2_uc010tyi.1_Intron|AKT1_uc001ypl.2_Silent_p.R144R|AKT1_uc010axa.2_Silent_p.R144R|AKT1_uc001ypm.2_Silent_p.R144R|AKT1_uc001ypn.2_Silent_p.R144R|AKT1_uc010tyk.1_Silent_p.R82R	NM_005163	NP_005154	P31749	AKT1_HUMAN	AKT1 kinase	144					activation of pro-apoptotic gene products|activation-induced cell death of T cells|endocrine pancreas development|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen biosynthetic process|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|mRNA metabolic process|negative regulation of fatty acid beta-oxidation|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|nitric oxide biosynthetic process|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of blood vessel endothelial cell migration|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of establishment of protein localization in plasma membrane|positive regulation of fat cell differentiation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|positive regulation of nitric oxide biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|protein autophosphorylation|protein import into nucleus, translocation|regulation of neuron projection development|regulation of translation|response to fluid shear stress|response to heat|response to UV-A|T cell costimulation	cytosol|nucleoplasm|plasma membrane	enzyme binding|identical protein binding|nitric-oxide synthase regulator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein serine/threonine kinase activity			breast(86)|urinary_tract(12)|thyroid(10)|lung(7)|endometrium(5)|large_intestine(4)|skin(4)|prostate(3)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|NS(1)	134		all_cancers(154;3.77e-06)|all_lung(585;3.24e-07)|all_epithelial(191;3.45e-05)|all_neural(303;0.0459)|Melanoma(154;0.155)	all cancers(16;0.000486)|OV - Ovarian serous cystadenocarcinoma(23;0.00647)|Epithelial(46;0.0153)|GBM - Glioblastoma multiforme(11;0.116)	all cancers(159;0.0107)|OV - Ovarian serous cystadenocarcinoma(161;0.0132)|Epithelial(152;0.243)	Adenosine triphosphate(DB00171)|Arsenic trioxide(DB01169)	GCCTCACCACGCGGTGCTTGG	0.652		1	Mis		breast|colorectal|ovarian|NSCLC								17	54					0	0	1	0	0		A	105241992	A	A	105241992	2	1	151	1	0	0	0	0	0	0	0	1	478	1074	38	1		1	AKT1	14	105241992	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	72304	105241992	2107548	3264	80429											
KIAA0284	283638	broad.mit.edu	37	chr14	105360905	105360905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcctgaaggaactgaggcGggtgcagaaacagctggaag	13	5	15	8	1	0	3	0	2	0	1	1	5	1	5	1	4	4	2	1	4	4	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:105360905G>A	uc010axb.2	+	18	4621	c.4397G>A	c.(4396-4398)CGG>CAG	p.R1466Q	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Missense_Mutation_p.R1396Q|KIAA0284_uc001yps.2_Missense_Mutation_p.R1407Q|KIAA0284_uc001ypt.2_Missense_Mutation_p.R134Q	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	1501						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		GAACTGAGGCGGGTGCAGAAA	0.632													5	15					0	0	1	0	0		A	105360905	A	A	105360905	3	1	151	1	0	0	0	0	1	0	0	0	8182	1116	39	1	4463	1	KIAA0284	14	105360905	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	118913	105360905	1988635	3265	80430											
AHNAK2	113146	broad.mit.edu	37	chr14	105408451	105408451	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagggacaggtcccccTccagccgcgtactgtccagc	7	5	11	18	2	0	0	0	0	0	0	3	1	3	1	6	2	4	1	6	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:105408451T>A	uc010axc.1	-	7	13457	c.13337A>T	c.(13336-13338)GAG>GTG	p.E4446V	AHNAK2_uc001ypx.2_Missense_Mutation_p.E4346V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4446						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CAGGTCCCCCTCCAGCCGCGT	0.597													39	176					0	0	1	0	0		A	105408451	A	A	105408451	3	1	151	1	0	0	0	0	1	0	0	0	415	1551	54	5	4054	5	AHNAK2	14	105408451	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	47546	105408451	1941089	3266	80431											
AHNAK2	113146	broad.mit.edu	37	chr14	105409290	105409290	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatggaggggaggctcacGtcggctttcgccttcagctc	5	10	14	12	3	2	0	2	0	0	0	5	2	2	2	1	5	2	4	1	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:105409290G>A	uc010axc.1	-	7	12618	c.12498C>T	c.(12496-12498)GAC>GAT	p.D4166D	AHNAK2_uc001ypx.2_Silent_p.D4066D	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4166						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GGAGGCTCACGTCGGCTTTCG	0.607													74	248					0	0	1	0	0		A	105409290	A	A	105409290	2	1	151	1	0	0	0	0	0	0	0	1	415	1136	40	1		1	AHNAK2	14	105409290	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	839	105409290	1940250	3267	80432											
AHNAK2	113146	broad.mit.edu	37	chr14	105409652	105409652	+	Missense_Mutation	SNP	T	C	C																															gggcaggtgccctttgaggcTggctccctcgggcacggggc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:105409652T>C	uc010axc.1	-	7	12256	c.12136A>G	c.(12136-12138)AGC>GGC	p.S4046G	AHNAK2_uc001ypx.2_Missense_Mutation_p.S3946G	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4046						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCTTTGAGGCTGGCTCCCTCG	0.632													32	233					0	0	1	0	0		C	105409652	C	C	105409652	3	2	151	1	0	0	0	0	1	0	0	0	415	1580	55	3	5255	3	AHNAK2	14	105409652	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	362	105409652	1939888	3268	80433	151	2									
AHNAK2	113146	broad.mit.edu	37	chr14	105409662	105409662	+	Silent	SNP	G	C	C																															cctttgaggctggctccctcGggcacggggccctctgggag																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:105409662G>C	uc010axc.1	-	7	12246	c.12126C>G	c.(12124-12126)CCC>CCG	p.P4042P	AHNAK2_uc001ypx.2_Silent_p.P3942P	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4042						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			TGGCTCCCTCGGGCACGGGGC	0.632													29	192					0	0	1	0	0		C	105409662	C	C	105409662	2	2	151	1	0	0	0	0	0	0	0	1	415	1103	39	5		5	AHNAK2	14	105409662	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	10	105409662	1939878	3269	80434	151	2									
AHNAK2	113146	broad.mit.edu	37	chr14	105413753	105413753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggggaggctcatgtcggcttCcaccttcagctcagacacat	8	9	11	13	1	3	1	3	0	0	1	5	2	4	2	2	4	1	3	2	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:105413753C>T	uc010axc.1	-	7	8155	c.8035G>A	c.(8035-8037)GAA>AAA	p.E2679K	AHNAK2_uc001ypx.2_Missense_Mutation_p.E2579K	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2679						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			ATGTCGGCTTCCACCTTCAGC	0.577													9	170					0	0	1	0	0		T	105413753	T	T	105413753	3	4	151	1	0	0	0	0	1	0	0	0	415	864	30	4	9356	4	AHNAK2	14	105413753	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	4091	105413753	1935787	3270	80435											
AHNAK2	113146	broad.mit.edu	37	chr14	105413902	105413902	+	Missense_Mutation	SNP	C	T	T																															gggacaggtccccctccagcCgcgcaccatccagctttgct																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:105413902C>T	uc010axc.1	-	7	8006	c.7886G>A	c.(7885-7887)CGG>CAG	p.R2629Q	AHNAK2_uc001ypx.2_Missense_Mutation_p.R2529Q	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2629						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCCCTCCAGCCGCGCACCATC	0.597													6	220					0	0	1	0	0		T	105413902	T	T	105413902	3	4	151	1	0	0	0	0	1	0	0	0	415	652	23	1	9505	1	AHNAK2	14	105413902	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	149	105413902	1935638	3271	80436	152	2									
AHNAK2	113146	broad.mit.edu	37	chr14	105413905	105413905	+	Missense_Mutation	SNP	G	A	A																															acaggtccccctccagccgcGcaccatccagctttgctctc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:105413905G>A	uc010axc.1	-	7	8003	c.7883C>T	c.(7882-7884)GCG>GTG	p.A2628V	AHNAK2_uc001ypx.2_Missense_Mutation_p.A2528V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2628						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CTCCAGCCGCGCACCATCCAG	0.592													6	219					0	0	1	0	0		A	105413905	A	A	105413905	3	1	151	1	0	0	0	0	1	0	0	0	415	1087	38	1	9508	1	AHNAK2	14	105413905	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3	105413905	1935635	3272	80437	152	2									
PACS2	23241	broad.mit.edu	37	chr14	105843171	105843171	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaggacctggacctcctgTatgacaccctggacatggag	10	7	13	11	0	0	1	0	1	0	0	1	6	1	6	4	5	0	1	4	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:105843171T>C	uc001yqt.2	+	9	1043	c.868T>C	c.(868-870)TAT>CAT	p.Y290H	PACS2_uc001yqs.2_Missense_Mutation_p.Y215H|PACS2_uc001yqv.2_Missense_Mutation_p.Y290H|PACS2_uc001yqu.2_Missense_Mutation_p.Y290H	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	290					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		GGACCTCCTGTATGACACCCT	0.672													16	66					0	0	1	0	0		C	105843171	C	C	105843171	3	2	151	1	0	0	0	0	1	0	0	0	11392	1638	57	3	902	3	PACS2	14	105843171	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	429266	105843171	1506369	3273	80438											
MTA1	9112	broad.mit.edu	37	chr14	105927257	105927257	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagccctggaaaaataTgggaaggatttcacggacat	15	7	13	6	1	1	0	1	0	0	0	1	6	1	5	1	5	1	0	1	5	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr14:105927257T>C	uc001yqx.2	+	10	1096	c.909T>C	c.(907-909)TAT>TAC	p.Y303Y	MTA1_uc001yqy.2_RNA|MTA1_uc001yqz.1_Silent_p.Y217Y|MTA1_uc001yra.1_Silent_p.Y217Y|MTA1_uc001yrb.2_Silent_p.Y64Y	NM_004689	NP_004680	Q13330	MTA1_HUMAN	metastasis associated protein	303	SANT.				signal transduction	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		TGGAAAAATATGGGAAGGATT	0.612													11	46					0	0	1	0	0		C	105927257	C	C	105927257	2	2	151	1	0	0	0	0	0	0	0	1	9926	1471	51	3		3	MTA1	14	105927257	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	84086	105927257	1422283	3274	80439											
OR4M2	390538	broad.mit.edu	37	chr15	22368607	22368607	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattacaccaaggtgacagAatttgttctcactggcctat	13	12	7	9	0	1	2	1	1	1	1	2	2	1	2	2	2	1	1	2	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:22368607A>G	uc010tzu.1	+	1	32	c.32A>G	c.(31-33)GAA>GGA	p.E11G	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		AAGGTGACAGAATTTGTTCTC	0.333													55	538					0	0	1	0	0		G	22368607	G	G	22368607	3	3	151	1	0	0	0	0	1	0	0	0	11095	246	9	3	34	3	OR4M2	15	22368607	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08		22368607	80162785	3275	80440											
OR4M2	390538	broad.mit.edu	37	chr15	22368757	22368757	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgacctctcctatgtattTcctgttggctaatctggcct	5	17	7	12	0	3	1	0	1	3	0	5	1	4	1	4	2	0	3	4	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:22368757T>A	uc010tzu.1	+	1	182	c.182T>A	c.(181-183)TTC>TAC	p.F61Y	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	61	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CCTATGTATTTCCTGTTGGCT	0.383													72	791					0	0	1	0	0		A	22368757	A	A	22368757	3	1	151	1	0	0	0	0	1	0	0	0	11095	1783	62	5	184	5	OR4M2	15	22368757	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	150	22368757	80162635	3276	80441											
CYFIP1	23191	broad.mit.edu	37	chr15	22955229	22955229	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgagaaggaccccaagagCggcttcgacataaaagtacc	14	4	12	11	3	0	2	0	0	0	2	1	5	0	3	3	3	2	2	3	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:22955229C>T	uc001yus.2	+	15	1727	c.1623C>T	c.(1621-1623)AGC>AGT	p.S541S	CYFIP1_uc001yut.2_Silent_p.S541S|CYFIP1_uc010aya.1_Silent_p.S569S|CYFIP1_uc001yuu.2_5'Flank	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	541					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		ACCCCAAGAGCGGCTTCGACA	0.647													8	73					0	0	1	0	0		T	22955229	T	T	22955229	2	4	151	1	0	0	0	0	0	0	0	1	4140	767	27	1		1	CYFIP1	15	22955229	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	586472	22955229	79576163	3277	80442											
NIPA1	123606	broad.mit.edu	37	chr15	23049143	23049143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccaggcacaggcagagggCtctctgactggacgggttgt	8	8	15	10	1	1	2	0	1	1	1	2	3	1	3	1	5	1	4	1	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:23049143C>T	uc001yvc.2	-	5	701	c.676G>A	c.(676-678)GCC>ACC	p.A226T	NIPA1_uc001yvd.2_Missense_Mutation_p.A56T|NIPA1_uc001yve.2_Missense_Mutation_p.A151T	NM_144599	NP_653200	Q7RTP0	NIPA1_HUMAN	non-imprinted in Prader-Willi/Angelman syndrome	226	Helical; (Potential).				cell death	early endosome|integral to membrane|plasma membrane					0		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;4.18e-06)|Epithelial(43;3.97e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00165)		AGGCAGAGGGCTCTCTGACTG	0.602													16	54					0	0	1	0	0		T	23049143	T	T	23049143	3	4	151	1	0	0	0	0	1	0	0	0	10441	797	28	2	317	2	NIPA1	15	23049143	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	93914	23049143	79482249	3278	80443											
NIPA1	123606	broad.mit.edu	37	chr15	23049189	23049189	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagatgtcttgggccgccagCccgatgcccttggtggaagg	7	8	15	11	2	1	1	0	0	1	1	1	3	1	2	4	4	2	0	4	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:23049189C>T	uc001yvc.2	-	5	655	c.630G>A	c.(628-630)GGG>GGA	p.G210G	NIPA1_uc001yvd.2_Silent_p.G40G|NIPA1_uc001yve.2_Silent_p.G135G	NM_144599	NP_653200	Q7RTP0	NIPA1_HUMAN	non-imprinted in Prader-Willi/Angelman syndrome	210	Extracellular (Potential).				cell death	early endosome|integral to membrane|plasma membrane					0		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;4.18e-06)|Epithelial(43;3.97e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00165)		GGGCCGCCAGCCCGATGCCCT	0.617													8	57					0	0	1	0	0		T	23049189	T	T	23049189	2	4	151	1	0	0	0	0	0	0	0	1	10441	726	26	2		2	NIPA1	15	23049189	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	46	23049189	79482203	3279	80444											
NDN	4692	broad.mit.edu	37	chr15	23932183	23932183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgggtcgccctcgtcgttcGgggcctggggaggcggcgcg	1	7	20	13	8	0	0	0	0	0	0	5	1	0	1	2	7	0	1	2	7	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:23932183G>A	uc001ywk.2	-	1	268	c.182C>T	c.(181-183)CCG>CTG	p.P61L		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	61					negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		CTCGTCGTTCGGGGCCTGGGG	0.791									Prader-Willi_syndrome				2	0					0	0	1	0	0		A	23932183	A	A	23932183	3	1	151	1	0	0	0	0	1	0	0	0	10266	1116	39	1	787	1	NDN	15	23932183	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	882994	23932183	78599209	3280	80445											
C15orf2	23742	broad.mit.edu	37	chr15	24921511	24921511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaagaaggatgaggatcCggtgcagatcgaaggggagg	13	5	19	4	2	0	4	0	2	0	2	2	8	1	7	1	6	1	1	1	6	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:24921511C>T	uc001ywo.2	+	1	971	c.497C>T	c.(496-498)CCG>CTG	p.P166L		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	166					cell differentiation|multicellular organismal development|spermatogenesis			p.P166P(1)		ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GATGAGGATCCGGTGCAGATC	0.632													5	53					0	0	1	0	0		T	24921511	T	T	24921511	3	4	151	1	0	0	0	0	1	0	0	0	1787	652	23	1	499	1	C15orf2	15	24921511	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	989328	24921511	77609881	3281	80446											
C15orf2	23742	broad.mit.edu	37	chr15	24922752	24922752	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaagtagttaatatggatActactgccccatctcaggtt	11	13	8	9	0	1	1	1	1	1	0	2	2	1	2	2	2	3	3	2	2	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:24922752A>G	uc001ywo.2	+	1	2212	c.1738A>G	c.(1738-1740)ACT>GCT	p.T580A		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	580					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		TAATATGGATACTACTGCCCC	0.473													38	118					0	0	1	0	0		G	24922752	G	G	24922752	3	3	151	1	0	0	0	0	1	0	0	0	1787	391	14	3	1740	3	C15orf2	15	24922752	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1241	24922752	77608640	3282	80447											
UBE3A	7337	broad.mit.edu	37	chr15	25616547	25616547	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccacgttaggtgacaaataTacaagtgcattgagaaaggc	15	9	10	7	1	0	2	0	2	0	1	1	3	1	2	1	2	2	2	1	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:25616547T>C	uc001zaq.2	-	4	783	c.783A>G	c.(781-783)GTA>GTG	p.V261V	uc001zae.2_Intron|UBE3A_uc001zar.2_Silent_p.V238V|UBE3A_uc001zas.2_Silent_p.V258V|UBE3A_uc001zat.2_Silent_p.V238V	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	261					brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		GTGACAAATATACAAGTGCAT	0.373													9	212					0	0	1	0	0		C	25616547	C	C	25616547	2	2	151	1	0	0	0	0	0	0	0	1	16905	1393	49	3		3	UBE3A	15	25616547	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	693795	25616547	76914845	3283	80448											
ATP10A	57194	broad.mit.edu	37	chr15	25924821	25924821	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggacatgggggccggtgcGctcagcccctccagcagggt	6	5	17	13	2	1	0	1	0	0	0	2	2	2	1	4	5	3	2	4	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:25924821G>A	uc010ayu.2	-	21	4273	c.4167C>T	c.(4165-4167)AGC>AGT	p.S1389S		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1389	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GGGCCGGTGCGCTCAGCCCCT	0.682													16	52					0	0	1	0	0		A	25924821	A	A	25924821	2	1	151	1	0	0	0	0	0	0	0	1	1117	1078	38	1		1	ATP10A	15	25924821	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	308274	25924821	76606571	3284	80449											
ATP10A	57194	broad.mit.edu	37	chr15	25940269	25940269	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacgtagcataggcactGgtctagcagggctgcacacg	9	7	13	12	2	1	0	0	0	1	0	1	0	1	0	0	3	4	7	0	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:25940269G>C	uc010ayu.2	-	14	2891	c.2785C>G	c.(2785-2787)CAG>GAG	p.Q929E		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	929	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CATAGGCACTGGTCTAGCAGG	0.597													15	102					0	0	1	0	0		C	25940269	C	C	25940269	3	2	151	1	0	0	0	0	1	0	0	0	1117	1357	47	5	1746	5	ATP10A	15	25940269	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	15448	25940269	76591123	3285	80450											
OCA2	4948	broad.mit.edu	37	chr15	28235761	28235761	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgccagtgctgcaagggaAcccagcatggccgccagagt	9	5	14	13	1	0	1	0	0	0	1	0	2	0	2	4	2	5	4	4	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:28235761A>G	uc001zbh.3	-	10	1187	c.1077T>C	c.(1075-1077)GGT>GGC	p.G359G	OCA2_uc010ayv.2_Intron	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	359	Helical; (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		CTGCAAGGGAACCCAGCATGG	0.542									Oculocutaneous_Albinism				23	123					0	0	1	0	0		G	28235761	G	G	28235761	2	3	151	1	0	0	0	0	0	0	0	1	10834	30	2	3		3	OCA2	15	28235761	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2295492	28235761	74295631	3286	80451											
HERC2	8924	broad.mit.edu	37	chr15	28446623	28446623	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatattctctctcacataTacagcataatcatcattact	14	15	2	10	0	4	1	3	1	2	0	6	1	4	1	0	0	3	1	0	0	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:28446623T>C	uc001zbj.2	-	48	7801	c.7695A>G	c.(7693-7695)GTA>GTG	p.V2565V	HERC2_uc001zbk.1_Silent_p.V100V	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2565					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CTCTCACATATACAGCATAAT	0.313													17	120					0	0	1	0	0		C	28446623	C	C	28446623	2	2	151	1	0	0	0	0	0	0	0	1	7074	1393	49	3		3	HERC2	15	28446623	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	210862	28446623	74084769	3287	80452											
HERC2	8924	broad.mit.edu	37	chr15	28447538	28447538	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaccagtgagagacttcaGggcaaactcgatgttccttc	11	9	10	11	1	1	2	1	1	0	1	4	4	2	2	2	1	2	3	2	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:28447538G>C	uc001zbj.2	-	46	7541	c.7435C>G	c.(7435-7437)CTG>GTG	p.L2479V	HERC2_uc001zbk.1_Missense_Mutation_p.L14V	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2479					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		AGAGACTTCAGGGCAAACTCG	0.567													7	37					0	0	1	0	0		C	28447538	C	C	28447538	3	2	151	1	0	0	0	0	1	0	0	0	7074	991	35	5	7261	5	HERC2	15	28447538	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	915	28447538	74083854	3288	80453											
HERC2	8924	broad.mit.edu	37	chr15	28474412	28474412	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacagcccaagcgtacagcTtgccaaaggtgacttccagc	11	7	10	13	1	0	1	0	1	0	0	1	1	1	1	3	1	7	3	3	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:28474412T>C	uc001zbj.2	-	34	5307	c.5201A>G	c.(5200-5202)AAG>AGG	p.K1734R		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1734					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		AGCGTACAGCTTGCCAAAGGT	0.383													64	283					0	0	1	0	0		C	28474412	C	C	28474412	3	2	151	1	0	0	0	0	1	0	0	0	7074	1609	56	3	9543	3	HERC2	15	28474412	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	26874	28474412	74056980	3289	80454											
HERC2	8924	broad.mit.edu	37	chr15	28478854	28478854	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacataacaacaagcgaccgAcctcttccacgggatgctcg	13	6	8	14	4	1	0	0	0	1	0	3	3	2	1	3	1	5	1	3	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:28478854A>G	uc001zbj.2	-	28	4413	c.4307T>C	c.(4306-4308)GTC>GCC	p.V1436A		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1436					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CAAGCGACCGACCTCTTCCAC	0.453													17	109					0	0	1	0	0		G	28478854	G	G	28478854	3	3	151	1	0	0	0	0	1	0	0	0	7074	275	10	3	10461	3	HERC2	15	28478854	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4442	28478854	74052538	3290	80455											
MTMR15	22909	broad.mit.edu	37	chr15	31197803	31197803	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgactgttgcttcagaagctAaaatacagctgtcagattca	13	12	8	8	0	3	3	3	1	0	2	3	3	3	3	0	0	4	4	0	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:31197803A>G	uc001zff.2	+	2	1228	c.937A>G	c.(937-939)AAA>GAA	p.K313E	MTMR15_uc001zfc.3_Missense_Mutation_p.K313E|MTMR15_uc010azw.2_Missense_Mutation_p.K313E|MTMR15_uc001zfd.3_Missense_Mutation_p.K313E|MTMR15_uc001zfe.2_5'UTR	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a	313					double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		TTCAGAAGCTAAAATACAGCT	0.413								Direct_reversal_of_damage|Editing_and_processing_nucleases					15	41					0	0	1	0	0		G	31197803	G	G	31197803	3	3	151	1	0	0	0	0	1	0	0	0	9961	363	13	3	939	3	MTMR15	15	31197803	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2718949	31197803	71333589	3291	80456											
MTMR10	54893	broad.mit.edu	37	chr15	31247018	31247018	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcctgtacttcttgaatAttaggcaaggtcttatccaa	10	14	8	9	0	2	1	0	1	2	0	3	1	3	1	2	2	2	3	2	2	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:31247018A>G	uc001zfh.1	-	10	1112	c.1014T>C	c.(1012-1014)AAT>AAC	p.N338N	MTMR10_uc010azx.1_Silent_p.N90N|MTMR10_uc001zfi.1_Silent_p.N90N|MTMR10_uc001zfj.2_Silent_p.N256N|MTMR10_uc001zfk.2_Silent_p.N90N	NM_017762	NP_060232	Q9NXD2	MTMRA_HUMAN	myotubularin related protein 10	338	Myotubularin phosphatase.						phosphatase activity			ovary(1)	1		all_lung(180;2.81e-11)		all cancers(64;7.26e-15)|Epithelial(43;7.2e-11)|GBM - Glioblastoma multiforme(186;0.000158)|BRCA - Breast invasive adenocarcinoma(123;0.00426)|Lung(196;0.174)		CTTCTTGAATATTAGGCAAGG	0.313													4	15					0	0	1	0	0		G	31247018	G	G	31247018	2	3	151	1	0	0	0	0	0	0	0	1	9957	446	16	3		3	MTMR10	15	31247018	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	49215	31247018	71284374	3292	80457											
RYR3	6263	broad.mit.edu	37	chr15	33855130	33855130	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagattctgtctgctttgtGcagcatatagccagtggtct	7	14	12	8	0	3	1	0	0	3	1	3	2	3	1	1	2	4	3	1	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:33855130G>A	uc001zhi.2	+	11	1135	c.1065G>A	c.(1063-1065)GTG>GTA	p.V355V	RYR3_uc010bar.2_Silent_p.V355V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	355	Cytoplasmic (By similarity).|MIR 5.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TCTGCTTTGTGCAGCATATAG	0.458													30	97					0	0	1	0	0		A	33855130	A	A	33855130	2	1	151	1	0	0	0	0	0	0	0	1	13795	1306	46	2		2	RYR3	15	33855130	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2608112	33855130	68676262	3293	80458											
RYR3	6263	broad.mit.edu	37	chr15	34150099	34150099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgagcccgatatgaagtGcgacgacatgatgacggtga	12	7	14	8	5	0	5	0	5	0	0	0	9	0	5	1	1	2	0	1	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:34150099G>A	uc001zhi.2	+	99	14196	c.14126G>A	c.(14125-14127)TGC>TAC	p.C4709Y	RYR3_uc010bar.2_Missense_Mutation_p.C4704Y	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4709				C -> R (in Ref. 6; CAA52326).	cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GATATGAAGTGCGACGACATG	0.592													13	43					0	0	1	0	0		A	34150099	A	A	34150099	3	1	151	1	0	0	0	0	1	0	0	0	13795	1319	46	2	14520	2	RYR3	15	34150099	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	294969	34150099	68381293	3294	80459											
LPCAT4	254531	broad.mit.edu	37	chr15	34657245	34657245	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaggttctcagctcgggAcacaactttgggcaggtcac	10	8	13	10	1	2	0	2	0	1	0	4	2	2	2	0	5	2	3	0	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:34657245A>G	uc001zig.2	-	3	536	c.442T>C	c.(442-444)TCC>CCC	p.S148P	LPCAT4_uc010bav.1_Missense_Mutation_p.S148P	NM_153613	NP_705841	Q643R3	LPCT4_HUMAN	lysophosphatidylcholine acyltransferase 4	148					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|calcium ion binding				0						TCAGCTCGGGACACAACTTTG	0.552													15	65					0	0	1	0	0		G	34657245	G	G	34657245	3	3	151	1	0	0	0	0	1	0	0	0	8931	275	10	3	1180	3	LPCAT4	15	34657245	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	507146	34657245	67874147	3295	80460											
AQR	9716	broad.mit.edu	37	chr15	35189126	35189126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggctgcattccagcaCggatggcttctatctgtgta	7	11	11	12	1	2	0	0	0	2	0	3	1	3	1	2	3	2	5	2	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:35189126C>T	uc001ziv.2	-	22	2613	c.2432G>A	c.(2431-2433)CGT>CAT	p.R811H		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	811						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		CATTCCAGCACGGATGGCTTC	0.274													20	66					0	0	1	0	0		T	35189126	T	T	35189126	3	4	151	1	0	0	0	0	1	0	0	0	835	536	19	1	2081	1	AQR	15	35189126	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	531881	35189126	67342266	3296	80461											
AQR	9716	broad.mit.edu	37	chr15	35207329	35207329	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttaaagttccttagcaggTagtcatgaagagtcaaaaac	15	10	10	6	0	2	2	2	1	0	1	3	2	3	2	1	2	2	4	1	2	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:35207329T>C	uc001ziv.2	-	16	1575	c.1394A>G	c.(1393-1395)TAC>TGC	p.Y465C		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	465						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		CCTTAGCAGGTAGTCATGAAG	0.328													20	79					0	0	1	0	0		C	35207329	C	C	35207329	3	2	151	1	0	0	0	0	1	0	0	0	835	1638	57	3	3143	3	AQR	15	35207329	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	18203	35207329	67324063	3297	80462											
ZNF770	54989	broad.mit.edu	37	chr15	35275452	35275452	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactagttgtctaaaggtttTatgacacacatcacattcaa	15	13	5	8	0	3	1	2	1	1	0	3	1	3	1	0	1	1	2	0	1	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:35275452T>C	uc001ziw.2	-	3	495	c.184A>G	c.(184-186)AAA>GAA	p.K62E		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	62	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		CTAAAGGTTTTATGACACACA	0.348													28	120					0	0	1	0	0		C	35275452	C	C	35275452	3	2	151	1	0	0	0	0	1	0	0	0	18168	1763	61	3	1895	3	ZNF770	15	35275452	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	68123	35275452	67255940	3298	80463											
MEIS2	4212	broad.mit.edu	37	chr15	37385877	37385877	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgaggtcgatgggcatttTccccttcaaacagctaatgt	10	11	10	10	2	1	0	1	0	0	0	3	3	2	0	2	2	2	2	2	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:37385877T>C	uc001zjr.2	-	6	1581	c.544A>G	c.(544-546)AAA>GAA	p.K182E	MEIS2_uc001zjl.2_Missense_Mutation_p.K169E|MEIS2_uc010ucj.1_Missense_Mutation_p.K169E|MEIS2_uc001zjm.2_Missense_Mutation_p.K94E|MEIS2_uc001zjn.2_Missense_Mutation_p.K36E|MEIS2_uc001zjo.2_Missense_Mutation_p.K182E|MEIS2_uc001zjp.2_Missense_Mutation_p.K182E|MEIS2_uc001zjs.2_Missense_Mutation_p.K182E|MEIS2_uc001zju.2_Missense_Mutation_p.K169E|MEIS2_uc001zjt.2_Missense_Mutation_p.K182E	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	182					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		ATGGGCATTTTCCCCTTCAAA	0.478													42	152					0	0	1	0	0		C	37385877	C	C	37385877	3	2	151	1	0	0	0	0	1	0	0	0	9486	1792	62	3	980	3	MEIS2	15	37385877	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2110425	37385877	65145515	3299	80464											
RASGRP1	10125	broad.mit.edu	37	chr15	38786879	38786879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatcttctgtgaggacaCtcccatcagcatgatggtcc	11	10	9	11	0	3	3	1	2	2	1	5	4	5	4	2	2	1	1	2	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:38786879C>T	uc001zke.3	-	16	2141	c.1963G>A	c.(1963-1965)GTG>ATG	p.V655M	RASGRP1_uc010bbe.2_RNA|RASGRP1_uc010bbf.2_Intron|RASGRP1_uc010bbg.2_Intron|RASGRP1_uc001zkd.3_Missense_Mutation_p.V620M	NM_005739	NP_005730	O95267	GRP1_HUMAN	RAS guanyl releasing protein 1 isoform a	655					cell differentiation|platelet activation|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|lipid binding|protein binding			large_intestine(1)|ovary(1)	2		all_cancers(109;6.38e-17)|all_epithelial(112;5.51e-15)|Lung NSC(122;2.12e-11)|all_lung(180;5.63e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;1.97e-07)|BRCA - Breast invasive adenocarcinoma(123;0.00248)		TGTGAGGACACTCCCATCAGC	0.537													4	16					0	0	1	0	0		T	38786879	T	T	38786879	3	4	151	1	0	0	0	0	1	0	0	0	13099	565	20	4	438	4	RASGRP1	15	38786879	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1401002	38786879	63744513	3300	80465											
C15orf53	400359	broad.mit.edu	37	chr15	38988843	38988843	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcccaagaggacctgggcaTttccctctctagtccccgga	7	8	11	15	1	1	1	0	0	1	1	4	3	3	3	5	4	0	1	5	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:38988843T>C	uc001zkf.1	+	1	45	c.35T>C	c.(34-36)ATT>ACT	p.I12T		NM_207444	NP_997327	Q8NAA6	CO053_HUMAN	hypothetical protein LOC400359	12											0		all_cancers(109;1.75e-13)|all_epithelial(112;1.02e-11)|Lung NSC(122;1.9e-09)|all_lung(180;4.04e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;8.39e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0321)		GACCTGGGCATTTCCCTCTCT	0.547													5	119					0	0	1	0	0		C	38988843	C	C	38988843	3	2	151	1	0	0	0	0	1	0	0	0	1804	1493	52	3	37	3	C15orf53	15	38988843	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	201964	38988843	63542549	3301	80466											
FSIP1	161835	broad.mit.edu	37	chr15	39893115	39893115	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcttctgctgcatctttaGtctcctgctcatctgcacat	6	17	5	13	0	6	0	1	0	5	0	7	0	6	0	1	0	4	4	1	0	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:39893115G>C	uc001zki.2	-	12	1930	c.1712C>G	c.(1711-1713)ACT>AGT	p.T571S		NM_152597	NP_689810	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1	571										ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		TGCATCTTTAGTCTCCTGCTC	0.313													37	126					0	0	1	0	0		C	39893115	C	C	39893115	3	2	151	1	0	0	0	0	1	0	0	0	6088	1029	36	5	37	5	FSIP1	15	39893115	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	904272	39893115	62638277	3302	80467											
FSIP1	161835	broad.mit.edu	37	chr15	40034063	40034063	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggagggatttgagtatgaaAcactgaggaaaaggtgtctt	13	11	14	3	0	1	3	0	3	1	0	1	6	1	6	0	4	1	1	0	4	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:40034063A>G	uc001zki.2	-	6	816	c.598T>C	c.(598-600)TTT>CTT	p.F200L		NM_152597	NP_689810	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1	200										ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		TGAGTATGAAACACTGAGGAA	0.328													18	66					0	0	1	0	0		G	40034063	G	G	40034063	3	3	151	1	0	0	0	0	1	0	0	0	6088	43	2	3	1175	3	FSIP1	15	40034063	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	140948	40034063	62497329	3303	80468											
EIF2AK4	440275	broad.mit.edu	37	chr15	40260054	40260054	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatccctagtgacttaccAgctgactttcaagattttct	10	14	5	12	0	2	3	1	2	1	1	3	3	3	3	3	0	2	1	3	0	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:40260054A>G	uc001zkm.1	+	9	1577	c.1527A>G	c.(1525-1527)CCA>CCG	p.P509P	EIF2AK4_uc001zkl.2_Silent_p.P509P|EIF2AK4_uc010bbj.1_Silent_p.P238P	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	509	Protein kinase 1.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		GTGACTTACCAGCTGACTTTC	0.463													28	68					0	0	1	0	0		G	40260054	G	G	40260054	2	3	151	1	0	0	0	0	0	0	0	1	5005	175	7	3		3	EIF2AK4	15	40260054	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	225991	40260054	62271338	3304	80469											
CASC5	57082	broad.mit.edu	37	chr15	40951543	40951543	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtcttttacagattgagActtttattctctagctccgc	7	18	6	10	1	2	2	0	1	2	2	4	3	3	2	1	0	2	1	1	0	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:40951543A>G	uc010bbs.1	+	26	6959	c.6798A>G	c.(6796-6798)AGA>AGG	p.R2266R	CASC5_uc010bbt.1_Silent_p.R2240R	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	2266	Necessary for kinetochore localization and for interaction with NSL1 and DSN1.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		ACAGATTGAGACTTTTATTCT	0.279													23	120					0	0	1	0	0		G	40951543	G	G	40951543	2	3	151	1	0	0	0	0	0	0	0	1	2666	272	10	3		3	CASC5	15	40951543	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	691489	40951543	61579849	3305	80470											
INO80	54617	broad.mit.edu	37	chr15	41276438	41276438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgagtccacgctaatgaagGagtcatctccgtcagcagag	11	8	11	11	2	3	3	2	2	1	1	5	4	4	4	2	1	1	2	2	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:41276438G>A	uc001zni.2	-	33	4247	c.4034C>T	c.(4033-4035)TCC>TTC	p.S1345F	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	1345	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						GCTAATGAAGGAGTCATCTCC	0.517													15	34					0	0	1	0	0		A	41276438	A	A	41276438	3	1	151	1	0	0	0	0	1	0	0	0	7762	1174	41	4	652	4	INO80	15	41276438	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	324895	41276438	61254954	3306	80471											
INO80	54617	broad.mit.edu	37	chr15	41379768	41379768	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacatgctcacctttaagtTtcttttcctccttaaatttc	9	18	2	12	0	2	0	1	0	1	0	5	0	4	0	3	0	2	2	3	0	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:41379768T>C	uc001zni.2	-	6	863	c.650A>G	c.(649-651)AAA>AGA	p.K217R	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	217	Assembles INO80 complex module with putative regulatory components INO80E, INO80F, UCHL5, NFRKB, MCRS1 and IN80D.|Assembles INO80 complex module consisting of conserved components ACTR8, ACTL6A and YY1.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						ACCTTTAAGTTTCTTTTCCTC	0.413													45	186					0	0	1	0	0		C	41379768	C	C	41379768	3	2	151	1	0	0	0	0	1	0	0	0	7762	1841	64	3	4144	3	INO80	15	41379768	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	103330	41379768	61151624	3307	80472											
TYRO3	7301	broad.mit.edu	37	chr15	41864656	41864656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaggggtaagcctccggaGcagggctaaaggccgtctcc	8	5	14	14	2	1	0	0	0	1	0	3	1	2	1	5	5	2	3	5	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:41864656G>A	uc001zof.1	+	15	1993	c.1769G>A	c.(1768-1770)AGC>AAC	p.S590N		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	590	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		AGCCTCCGGAGCAGGGCTAAA	0.607													29	142					0	0	1	0	0		A	41864656	A	A	41864656	3	1	151	1	0	0	0	0	1	0	0	0	16840	971	34	2	1827	2	TYRO3	15	41864656	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	484888	41864656	60666736	3308	80473											
TYRO3	7301	broad.mit.edu	37	chr15	41870425	41870425	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcccctcaatgagacacAgaggcttttgctgctgcagc	9	9	11	12	0	1	2	1	1	0	2	2	4	2	2	2	1	4	4	2	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:41870425A>G	uc001zof.1	+	19	2848	c.2624A>G	c.(2623-2625)CAG>CGG	p.Q875R		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	875	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		AATGAGACACAGAGGCTTTTG	0.627													8	36					0	0	1	0	0		G	41870425	G	G	41870425	3	3	151	1	0	0	0	0	1	0	0	0	16840	188	7	3	2698	3	TYRO3	15	41870425	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5769	41870425	60660967	3309	80474											
MGA	23269	broad.mit.edu	37	chr15	41961222	41961222	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcaaggaattttggttactAatcaggatgcctgtgctttg	10	15	10	6	0	2	0	2	0	0	0	2	2	2	2	1	3	3	2	1	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:41961222A>G	uc001zog.1	+	2	221	c.130A>G	c.(130-132)AAT>GAT	p.N44D	MGA_uc010ucy.1_Missense_Mutation_p.N44D|MGA_uc010ucz.1_Missense_Mutation_p.N44D	NM_001080541	NP_001074010	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 2	44						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		TTTGGTTACTAATCAGGATGC	0.438													5	242					0	0	1	0	0		G	41961222	G	G	41961222	3	3	151	1	0	0	0	0	1	0	0	0	9558	362	13	3	132	3	MGA	15	41961222	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	90797	41961222	60570170	3310	80475											
SPTBN5	51332	broad.mit.edu	37	chr15	42171952	42171952	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctggctcagttcctcctgCtgtcgttggatttgtgtgga	3	16	12	10	1	2	0	1	0	1	0	5	2	4	2	2	3	1	4	2	3	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:42171952C>T	uc001zos.2	-	15	3150	c.2817G>A	c.(2815-2817)CAG>CAA	p.Q939Q		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	974	Spectrin 7.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		GTTCCTCCTGCTGTCGTTGGA	0.617													11	71					0	0	1	0	0		T	42171952	T	T	42171952	2	4	151	1	0	0	0	0	0	0	0	1	15147	796	28	2		2	SPTBN5	15	42171952	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	210730	42171952	60359440	3311	80476											
TMEM87A	25963	broad.mit.edu	37	chr15	42512335	42512335	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatggtgaaaaggcaaaccTaacagaaccaaagtgaacag	20	4	9	8	0	0	3	0	2	0	1	0	3	0	3	2	2	4	1	2	2	8	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:42512335T>C	uc010udd.1	-	16	1563	c.1404_splice	c.e16-1	p.R468_splice		NM_015497	NP_056312	Q8NBN3	TM87A_HUMAN	transmembrane protein 87A isoform 1							integral to membrane				ovary(1)	1		all_cancers(109;4.28e-16)|all_epithelial(112;1.04e-14)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;1.03e-06)		AAGGCAAACCTAACAGAACCA	0.333													28	140					0	0	1	0	0		C	42512335	C	C	42512335	5	2	151	1	0	0	0	0	0	0	1	0	16235	1536	53	3	285	3	TMEM87A	15	42512335	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	340383	42512335	60019057	3312	80477											
CAPN3	825	broad.mit.edu	37	chr15	42652008	42652008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaagccacttgccatgcCgaccgtcattagcgcatctg	9	9	8	15	3	2	0	1	0	1	0	3	1	3	0	5	0	4	1	5	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:42652008C>T	uc001zpn.1	+	1	311	c.5C>T	c.(4-6)CCG>CTG	p.P2L	CAPN3_uc001zpk.1_Intron|CAPN3_uc001zpl.1_Intron|CAPN3_uc010udf.1_Intron|CAPN3_uc010udg.1_Intron|CAPN3_uc001zpo.1_Missense_Mutation_p.P2L|CAPN3_uc001zpp.1_Missense_Mutation_p.P2L	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	2					muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)		CTTGCCATGCCGACCGTCATT	0.537													35	145					0	0	1	0	0		T	42652008	T	T	42652008	3	4	151	1	0	0	0	0	1	0	0	0	2631	652	23	1	59	1	CAPN3	15	42652008	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	139673	42652008	59879384	3313	80478											
CAPN3	825	broad.mit.edu	37	chr15	42693866	42693866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaccaaccctcagtaccGtctgaagctcctggaggagg	9	7	12	13	1	2	1	1	1	1	0	3	4	3	4	4	4	3	2	4	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:42693866G>A	uc001zpn.1	+	11	1688	c.1382G>A	c.(1381-1383)CGT>CAT	p.R461H	CAPN3_uc001zpk.1_Missense_Mutation_p.R234H|CAPN3_uc001zpl.1_Missense_Mutation_p.R374H|CAPN3_uc010udf.1_Missense_Mutation_p.R374H|CAPN3_uc010udg.1_Missense_Mutation_p.R326H|CAPN3_uc001zpo.1_Missense_Mutation_p.R461H|CAPN3_uc001zpp.1_Missense_Mutation_p.R413H|CAPN3_uc001zpq.1_5'Flank	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	461	Domain III.				muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)		CCTCAGTACCGTCTGAAGCTC	0.582													15	61					0	0	1	0	0		A	42693866	A	A	42693866	3	1	151	1	0	0	0	0	1	0	0	0	2631	1145	40	1	1476	1	CAPN3	15	42693866	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	41858	42693866	59837526	3314	80479											
UBR1	197131	broad.mit.edu	37	chr15	43244513	43244513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccggctccacagtgaagtgCgtgaaaaatgcaagctccaa	13	7	10	11	2	0	2	0	2	0	0	3	2	3	2	3	1	3	3	3	1	5	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:43244513C>T	uc001zqq.2	-	45	5035	c.4969G>A	c.(4969-4971)GCA>ACA	p.A1657T		NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	1657					cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			lung(1)	1		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		CAGTGAAGTGCGTGAAAAATG	0.473													46	149					0	0	1	0	0		T	43244513	T	T	43244513	3	4	151	1	0	0	0	0	1	0	0	0	16927	768	27	1	292	1	UBR1	15	43244513	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	550647	43244513	59286879	3315	80480											
UBR1	197131	broad.mit.edu	37	chr15	43258414	43258414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaaaacaatgcagcacagcGaagataaggggtgatgccat	17	5	12	7	1	0	2	0	1	0	1	0	4	0	2	1	2	5	2	1	2	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:43258414G>A	uc001zqq.2	-	41	4594	c.4528C>T	c.(4528-4530)CGC>TGC	p.R1510C		NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	1510					cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			lung(1)	1		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		GCAGCACAGCGAAGATAAGGG	0.443													24	80					0	0	1	0	0		A	43258414	A	A	43258414	3	1	151	1	0	0	0	0	1	0	0	0	16927	1058	37	1	749	1	UBR1	15	43258414	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	13901	43258414	59272978	3316	80481											
TMEM62	80021	broad.mit.edu	37	chr15	43441276	43441276	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatacacttggtggactgAtgcctgttttgcacactcgt	7	14	9	11	1	0	1	0	1	0	0	2	2	1	2	2	2	3	2	2	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:43441276A>G	uc001zqr.2	+	7	1072	c.793A>G	c.(793-795)ATG>GTG	p.M265V	TMEM62_uc010bda.2_Missense_Mutation_p.M135V	NM_024956	NP_079232	Q0P6H9	TMM62_HUMAN	transmembrane protein 62	265						integral to membrane				ovary(1)|breast(1)	2		all_cancers(109;1.16e-10)|all_epithelial(112;2.01e-09)|Lung NSC(122;8.91e-07)|all_lung(180;8.8e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;4.23e-07)		TGGTGGACTGATGCCTGTTTT	0.433													43	181					0	0	1	0	0		G	43441276	G	G	43441276	3	3	151	1	0	0	0	0	1	0	0	0	16214	333	12	3	819	3	TMEM62	15	43441276	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	182862	43441276	59090116	3317	80482											
EPB42	2038	broad.mit.edu	37	chr15	43508513	43508513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggcaggcagaaatgcaCggactggagcgcggaagtac	12	4	16	9	3	1	1	1	0	0	1	1	4	1	4	0	5	3	4	0	5	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:43508513C>T	uc001zra.3	-	2	449	c.149G>A	c.(148-150)CGT>CAT	p.R50H	EPB42_uc010bde.2_Translation_Start_Site|EPB42_uc001zrb.3_Missense_Mutation_p.R80H|EPB42_uc010udm.1_Missense_Mutation_p.R50H	NM_001114134	NP_001107606	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2 isoform 2	50					erythrocyte maturation|peptide cross-linking|regulation of cell shape	cytoplasm|cytoskeleton|plasma membrane	ATP binding|protein binding|protein-glutamine gamma-glutamyltransferase activity|structural constituent of cytoskeleton			ovary(2)	2		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		CAGAAATGCACGGACTGGAGC	0.597													14	61					0	0	1	0	0		T	43508513	T	T	43508513	3	4	151	1	0	0	0	0	1	0	0	0	5166	536	19	1	1974	1	EPB42	15	43508513	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	67237	43508513	59022879	3318	80483											
TGM5	9333	broad.mit.edu	37	chr15	43531051	43531051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctctgtgatgtcatcccGctcgtcactctggatgctct	4	15	9	13	2	5	1	2	1	3	0	8	2	6	2	1	1	1	3	1	1	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:43531051G>A	uc001zrd.1	-	9	1317	c.1309C>T	c.(1309-1311)CGG>TGG	p.R437W	TGM5_uc001zrc.1_Missense_Mutation_p.R94W|TGM5_uc001zre.1_Missense_Mutation_p.R355W	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	437					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	ATGTCATCCCGCTCGTCACTC	0.542													19	40					0	0	1	0	0		A	43531051	A	A	43531051	3	1	151	1	0	0	0	0	1	0	0	0	15858	1086	38	1	873	1	TGM5	15	43531051	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	22538	43531051	59000341	3319	80484											
TGM5	9333	broad.mit.edu	37	chr15	43548792	43548792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagttccagggacatgggcGgatccagttcttgctgcctt	7	12	12	10	1	1	0	0	0	1	0	3	2	3	2	3	3	2	3	3	3	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:43548792G>A	uc001zrd.1	-	4	537	c.529C>T	c.(529-531)CGC>TGC	p.R177C	TGM5_uc001zre.1_Missense_Mutation_p.R95C	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	177					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	GGACATGGGCGGATCCAGTTC	0.557													38	166					0	0	1	0	0		A	43548792	A	A	43548792	3	1	151	1	0	0	0	0	1	0	0	0	15858	1116	39	1	1673	1	TGM5	15	43548792	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	17741	43548792	58982600	3320	80485											
TGM7	116179	broad.mit.edu	37	chr15	43568758	43568758	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcggggtccagctttggtCgggtagaggtccagttgaat	6	11	17	7	2	0	2	0	1	0	1	3	2	2	2	2	6	1	3	2	6	2	3	rs143065351		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:43568758C>T	uc001zrf.1	-	13	2033	c.2028G>A	c.(2026-2028)CCG>CCA	p.P676P		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	676					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	CAGCTTTGGTCGGGTAGAGGT	0.572													23	158					0	0	1	0	0		T	43568758	T	T	43568758	2	4	151	1	0	0	0	0	0	0	0	1	15860	871	31	1		1	TGM7	15	43568758	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	19966	43568758	58962634	3321	80486											
MAP1A	4130	broad.mit.edu	37	chr15	43817423	43817423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatacctctcaccacacagCtcccatgtctgttccagagc	9	9	7	16	0	2	1	1	0	2	1	5	2	4	2	4	1	3	2	4	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:43817423C>T	uc001zrt.2	+	4	4219	c.3752C>T	c.(3751-3753)GCT>GTT	p.A1251V		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1251						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	CACCACACAGCTCCCATGTCT	0.547													18	71					0	0	1	0	0		T	43817423	T	T	43817423	3	4	151	1	0	0	0	0	1	0	0	0	9245	797	28	2	3754	2	MAP1A	15	43817423	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	248665	43817423	58713969	3322	80487											
MAP1A	4130	broad.mit.edu	37	chr15	43819209	43819209	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgacatcccaccctgggtGcccaaggacagacccctccc	8	5	9	19	0	0	2	0	1	0	1	2	3	2	3	6	2	1	1	6	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:43819209G>A	uc001zrt.2	+	4	6005	c.5538G>A	c.(5536-5538)GTG>GTA	p.V1846V		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1846						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	CACCCTGGGTGCCCAAGGACA	0.622													7	41					0	0	1	0	0		A	43819209	A	A	43819209	2	1	151	1	0	0	0	0	0	0	0	1	9245	1306	46	2		2	MAP1A	15	43819209	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1786	43819209	58712183	3323	80488											
MAP1A	4130	broad.mit.edu	37	chr15	43819857	43819857	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctcaccccacctgcagtTcccccccgtgctcctatcct	5	9	5	22	1	1	0	1	0	0	0	4	0	4	0	9	0	3	3	9	0	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:43819857T>C	uc001zrt.2	+	4	6653	c.6186T>C	c.(6184-6186)GTT>GTC	p.V2062V		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	2062						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	CACCTGCAGTTCCCCCCCGTG	0.612													7	51					0	0	1	0	0		C	43819857	C	C	43819857	2	2	151	1	0	0	0	0	0	0	0	1	9245	1770	62	3		3	MAP1A	15	43819857	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	648	43819857	58711535	3324	80489											
ELL3	80237	broad.mit.edu	37	chr15	44065395	44065395	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgaaggtactcacagcgAcgcttttcttctctgtaact	8	14	9	10	2	3	1	1	1	2	0	4	2	3	1	0	2	3	3	0	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:44065395A>G	uc001zsw.1	-	11	1516	c.1113T>C	c.(1111-1113)CGT>CGC	p.R371R	ELL3_uc001zsv.1_Silent_p.R325R|ELL3_uc001zsx.1_Silent_p.R255R	NM_025165	NP_079441	Q9HB65	ELL3_HUMAN	elongation factor RNA polymerase II-like 3	371					positive regulation of transcription elongation, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				ovary(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;7.81e-07)		ACTCACAGCGACGCTTTTCTT	0.428													51	194					0	0	1	0	0		G	44065395	G	G	44065395	2	3	151	1	0	0	0	0	0	0	0	1	5072	262	10	3		3	ELL3	15	44065395	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	245538	44065395	58465997	3325	80490											
WDR76	79968	broad.mit.edu	37	chr15	44149345	44149345	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtgcatagacagtattttAtcactgccggattgaggtat	11	13	10	7	1	1	2	1	1	0	1	1	3	1	3	1	2	2	3	1	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:44149345A>G	uc001zti.1	+	10	1416	c.1393A>G	c.(1393-1395)ATC>GTC	p.I465V		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	465	WD 4.										0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)		ACAGTATTTTATCACTGCCGG	0.363													10	95					0	0	1	0	0		G	44149345	G	G	44149345	3	3	151	1	0	0	0	0	1	0	0	0	17352	449	16	3	1431	3	WDR76	15	44149345	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	83950	44149345	58382047	3326	80491											
SPG11	80208	broad.mit.edu	37	chr15	44913997	44913997	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggatggattcttgtgtTagttgatcccaccacagagc	11	11	11	8	0	1	3	0	1	1	2	2	5	2	5	2	2	1	2	2	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:44913997T>C	uc001ztx.2	-	14	2611	c.2580A>G	c.(2578-2580)CTA>CTG	p.L860L	SPG11_uc010ueh.1_Silent_p.L860L|SPG11_uc010uei.1_Silent_p.L860L|SPG11_uc001ztz.1_5'Flank	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	860	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		ATTCTTGTGTTAGTTGATCCC	0.383													28	101					0	0	1	0	0		C	44913997	C	C	44913997	2	2	151	1	0	0	0	0	0	0	0	1	15066	1741	61	3		3	SPG11	15	44913997	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	764652	44913997	57617395	3327	80492											
SPG11	80208	broad.mit.edu	37	chr15	44914121	44914121	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgaaaaaatcttgttccTttatccagtacctaaaaaca	15	13	4	9	0	1	1	0	1	1	0	3	1	3	1	3	0	2	3	3	0	8	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:44914121T>A	uc001ztx.2	-	14	2487	c.2456A>T	c.(2455-2457)AAG>ATG	p.K819M	SPG11_uc010ueh.1_Missense_Mutation_p.K819M|SPG11_uc010uei.1_Missense_Mutation_p.K819M|SPG11_uc001ztz.1_5'Flank	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	819	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		ATCTTGTTCCTTTATCCAGTA	0.289													13	55					0	0	1	0	0		A	44914121	A	A	44914121	3	1	151	1	0	0	0	0	1	0	0	0	15066	1609	56	5	4983	5	SPG11	15	44914121	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	124	44914121	57617271	3328	80493											
B2M	567	broad.mit.edu	37	chr15	45007846	45007846	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccactgaaaaagatgagtAtgcctgccgtgtgaaccatg	12	8	10	11	1	0	4	0	3	0	1	0	4	0	4	5	0	3	1	5	0	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:45007846A>G	uc001zuc.2	+	2	353	c.293A>G	c.(292-294)TAT>TGT	p.Y98C	B2M_uc010uek.1_Missense_Mutation_p.Y98C|B2M_uc010bdx.1_Missense_Mutation_p.M71V	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor	98	Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding			ovary(2)|skin(1)	3		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		AAAGATGAGTATGCCTGCCGT	0.413													29	152					0	0	1	0	0		G	45007846	G	G	45007846	3	3	151	1	0	0	0	0	1	0	0	0	1245	449	16	3	299	3	B2M	15	45007846	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	93725	45007846	57523546	3329	80494											
TRIM69	140691	broad.mit.edu	37	chr15	45050837	45050837	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaaaacaagctacatctgCagcaacatgtgtccatggag	15	7	10	9	0	1	0	0	0	1	0	2	2	2	2	1	2	6	3	1	2	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:45050837C>A	uc001zuf.2	+	5	1493	c.598C>A	c.(598-600)CAG>AAG	p.Q200K	TRIM69_uc001zui.1_5'UTR|TRIM69_uc010bdy.1_5'UTR|TRIM69_uc001zug.1_Missense_Mutation_p.Q200K|TRIM69_uc001zuh.1_Missense_Mutation_p.Q41K	NM_182985	NP_892030	Q86WT6	TRI69_HUMAN	tripartite motif-containing 69 isoform a	200	Potential.				apoptosis	nuclear speck	zinc ion binding				0		all_cancers(109;2.47e-13)|all_epithelial(112;2.84e-11)|Lung NSC(122;2.23e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;5.5e-19)|GBM - Glioblastoma multiforme(94;1.07e-06)|Colorectal(105;0.138)|COAD - Colon adenocarcinoma(120;0.141)		GCTACATCTGCAGCAACATGT	0.483													15	64					4.7546e-09	4.88223e-09	1	1	0		A	45050837	A	A	45050837	3	1	151	1	0	0	0	0	1	0	0	0	16568	711	25	5	612	5	TRIM69	15	45050837	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	42991	45050837	57480555	3330	80495											
SLC28A2	9153	broad.mit.edu	37	chr15	45567685	45567685	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccttactaactgctgtggaTtctacaacaataccgtctgt	10	13	6	12	1	2	0	0	0	2	0	2	1	2	1	2	1	6	1	2	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:45567685T>C	uc001zva.2	+	18	2016	c.1951T>C	c.(1951-1953)TTC>CTC	p.F651L		NM_004212	NP_004203	O43868	S28A2_HUMAN	solute carrier family 28 (sodium-coupled	651					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		CTGCTGTGGATTCTACAACAA	0.428													91	445					0	0	1	0	0		C	45567685	C	C	45567685	3	2	151	1	0	0	0	0	1	0	0	0	14557	1493	52	3	2017	3	SLC28A2	15	45567685	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	516848	45567685	56963707	3331	80496											
GATM	2628	broad.mit.edu	37	chr15	45658660	45658660	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttgtcacaaattttcccTgagcagccaatttgtgtctg	9	14	8	10	0	2	1	1	1	1	0	3	1	3	1	2	0	2	2	2	0	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:45658660T>C	uc001zvc.2	-	5	1051	c.722A>G	c.(721-723)CAG>CGG	p.Q241R	GATM_uc001zvb.2_Missense_Mutation_p.Q112R|GATM_uc010uev.1_Missense_Mutation_p.Q294R	NM_001482	NP_001473	P50440	GATM_HUMAN	L-arginine:glycine amidinotransferase precursor	241					creatine biosynthetic process	mitochondrial inner membrane|mitochondrial intermembrane space	glycine amidinotransferase activity|protein binding				0		all_cancers(109;1.25e-09)|all_epithelial(112;5.56e-08)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;4.87e-16)|GBM - Glioblastoma multiforme(94;1.97e-06)	Creatine(DB00148)|Glycine(DB00145)|L-Ornithine(DB00129)	AAATTTTCCCTGAGCAGCCAA	0.418													8	49					0	0	1	0	0		C	45658660	C	C	45658660	3	2	151	1	0	0	0	0	1	0	0	0	6278	1580	55	3	569	3	GATM	15	45658660	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	90975	45658660	56872732	3332	80497											
SPATA5L1	79029	broad.mit.edu	37	chr15	45702638	45702638	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaatattcagccctcatcGtttcgaagcgtcattggatt	12	13	7	9	3	3	0	3	0	0	0	5	2	3	1	1	1	2	1	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:45702638G>A	uc001zve.2	+	3	1453	c.1344G>A	c.(1342-1344)TCG>TCA	p.S448S	SPATA5L1_uc001zvf.2_RNA	NM_024063	NP_076968	Q9BVQ7	SPA5L_HUMAN	spermatogenesis associated 5-like 1	448						cytoplasm	ATP binding|nucleoside-triphosphatase activity			ovary(3)|skin(1)	4		Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;7.31e-17)|GBM - Glioblastoma multiforme(94;6.28e-07)		AGCCCTCATCGTTTCGAAGCG	0.383													31	127					0	0	1	0	0		A	45702638	A	A	45702638	2	1	151	1	0	0	0	0	0	0	0	1	15037	1132	40	1		1	SPATA5L1	15	45702638	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	43978	45702638	56828754	3333	80498											
SEMA6D	80031	broad.mit.edu	37	chr15	48056245	48056245	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccccactgtggtcggggtgTttaccacgcagctcaatagg	7	10	12	12	2	1	0	1	0	0	0	3	0	2	0	3	4	2	3	3	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:48056245T>C	uc010bek.2	+	10	1306	c.946T>C	c.(946-948)TTT>CTT	p.F316L	SEMA6D_uc001zvw.2_Missense_Mutation_p.F316L|SEMA6D_uc001zvx.1_Missense_Mutation_p.F316L|SEMA6D_uc001zvy.2_Missense_Mutation_p.F316L|SEMA6D_uc001zvz.2_Missense_Mutation_p.F316L|SEMA6D_uc001zwa.2_Missense_Mutation_p.F316L|SEMA6D_uc001zwb.2_Missense_Mutation_p.F316L|SEMA6D_uc001zwc.2_Missense_Mutation_p.F316L	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	316	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		GGTCGGGGTGTTTACCACGCA	0.483													25	87					0	0	1	0	0		C	48056245	C	C	48056245	3	2	151	1	0	0	0	0	1	0	0	0	14067	1725	60	3	980	3	SEMA6D	15	48056245	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2353607	48056245	54475147	3334	80499											
SLC12A1	6557	broad.mit.edu	37	chr15	48580325	48580325	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcactcaatttaaaaagaaAcaagaaaaaggcacaattga	23	6	6	6	0	1	3	1	1	0	2	1	3	1	3	0	1	2	2	0	1	9	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:48580325A>G	uc001zwn.3	+	22	2931	c.2715A>G	c.(2713-2715)AAA>AAG	p.K905K	SLC12A1_uc001zwq.3_Silent_p.K676K|SLC12A1_uc001zwr.3_Silent_p.K632K	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	905	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	TTAAAAAGAAACAAGAAAAAG	0.383													9	27					0	0	1	0	0		G	48580325	G	G	48580325	2	3	151	1	0	0	0	0	0	0	0	1	14407	40	2	3		3	SLC12A1	15	48580325	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	524080	48580325	53951067	3335	80500											
FBN1	2200	broad.mit.edu	37	chr15	48707828	48707828	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggggcctgcgcagagccAcattcattgatgtcttggca	8	9	13	11	1	2	2	1	1	1	1	2	2	2	2	2	3	2	2	2	3	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:48707828A>G	uc001zwx.1	-	64	8284	c.7956T>C	c.(7954-7956)TGT>TGC	p.C2652C	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2652	EGF-like 47; calcium-binding.		C -> G (in MFS).		heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GCGCAGAGCCACATTCATTGA	0.572													18	105					0	0	1	0	0		G	48707828	G	G	48707828	2	3	151	1	0	0	0	0	0	0	0	1	5716	157	6	3		3	FBN1	15	48707828	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	127503	48707828	53823564	3336	80501											
CEP152	22995	broad.mit.edu	37	chr15	49048376	49048376	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatagtccattctctacgActctggtctagacaagtttg	9	14	8	10	1	3	1	0	0	3	1	5	2	4	1	1	1	2	2	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:49048376A>G	uc001zwy.2	-	20	3103	c.3069T>C	c.(3067-3069)AGT>AGC	p.S1023S	CEP152_uc001zwz.2_Silent_p.S1023S|CEP152_uc001zxa.1_Silent_p.S930S	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	1023					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		ATTCTCTACGACTCTGGTCTA	0.408													42	215					0	0	1	0	0		G	49048376	G	G	49048376	2	3	151	1	0	0	0	0	0	0	0	1	3251	272	10	3		3	CEP152	15	49048376	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	340548	49048376	53483016	3337	80502											
CEP152	22995	broad.mit.edu	37	chr15	49076171	49076171	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacctaccagacacctaccGgactgcaacaagtgggcaca	13	4	10	14	1	0	1	0	0	0	1	0	3	0	3	4	3	4	2	4	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:49076171G>A	uc001zwy.2	-	10	1354	c.1320C>T	c.(1318-1320)TCC>TCT	p.S440S	CEP152_uc001zwz.2_Silent_p.S440S|CEP152_uc001zxa.1_Silent_p.S347S	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	440	Potential.				centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		GACACCTACCGGACTGCAACA	0.433													13	95					0	0	1	0	0		A	49076171	A	A	49076171	2	1	151	1	0	0	0	0	0	0	0	1	3251	1130	39	1		1	CEP152	15	49076171	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	27795	49076171	53455221	3338	80503											
C15orf33	196951	broad.mit.edu	37	chr15	49833967	49833967	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaaatgcttcatggaacgTtgcatatatggcttgtgcca	10	13	11	7	1	1	0	1	0	0	0	1	2	1	2	1	3	4	4	1	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:49833967T>C	uc001zxl.2	-	10	1078	c.784A>G	c.(784-786)ACG>GCG	p.T262A	C15orf33_uc001zxm.2_Missense_Mutation_p.T228A	NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	262										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)		TCATGGAACGTTGCATATATG	0.279													40	189					0	0	1	0	0		C	49833967	C	C	49833967	3	2	151	1	0	0	0	0	1	0	0	0	1794	1725	60	3	770	3	C15orf33	15	49833967	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	757796	49833967	52697425	3339	80504											
TRPM7	54822	broad.mit.edu	37	chr15	50867177	50867177	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatgttctgaccaggtacActgtactttgacagctcttc	9	14	7	11	0	3	2	1	2	2	0	4	2	3	2	1	1	3	4	1	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:50867177A>T	uc001zyt.3	-	34	5155	c.4891T>A	c.(4891-4893)TGT>AGT	p.C1631S	TRPM7_uc001zyr.2_Missense_Mutation_p.C68S	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	1631	Cytoplasmic (Potential).|Alpha-type protein kinase.				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		GACCAGGTACACTGTACTTTG	0.398													60	249					0	0	1	0	0		T	50867177	T	T	50867177	3	4	151	1	0	0	0	0	1	0	0	0	16617	159	6	5	730	5	TRPM7	15	50867177	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1033210	50867177	51664215	3340	80505											
TRPM7	54822	broad.mit.edu	37	chr15	50897284	50897284	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtatcactgatgttgaagtAatcactaaaccatactttaa	15	14	5	7	0	2	2	2	2	0	0	2	2	2	2	1	0	2	3	1	0	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:50897284A>G	uc001zyt.3	-	21	3031	c.2767T>C	c.(2767-2769)TAC>CAC	p.Y923H	TRPM7_uc010bew.1_Missense_Mutation_p.Y923H|TRPM7_uc001zyu.2_Missense_Mutation_p.Y481H	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	923	Helical; (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		ATGTTGAAGTAATCACTAAAC	0.303													33	196					0	0	1	0	0		G	50897284	G	G	50897284	3	3	151	1	0	0	0	0	1	0	0	0	16617	362	13	3	2906	3	TRPM7	15	50897284	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	30107	50897284	51634108	3341	80506											
SPPL2A	84888	broad.mit.edu	37	chr15	51028334	51028334	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacagcccaaacaacagctActgctatgcacagtccagag	15	5	7	14	0	0	1	0	0	0	1	1	1	1	1	2	0	7	3	2	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:51028334A>G	uc001zyv.2	-	8	1076	c.896T>C	c.(895-897)GTA>GCA	p.V299A		NM_032802	NP_116191	Q8TCT8	PSL2_HUMAN	signal peptide peptidase-like 2A	299	Helical; (Potential).					integral to membrane	aspartic-type endopeptidase activity				0				all cancers(107;0.000712)|GBM - Glioblastoma multiforme(94;0.00314)		AACAACAGCTACTGCTATGCA	0.363													26	118					0	0	1	0	0		G	51028334	G	G	51028334	3	3	151	1	0	0	0	0	1	0	0	0	15113	391	14	3	698	3	SPPL2A	15	51028334	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	131050	51028334	51503058	3342	80507											
TNFAIP8L3	388121	broad.mit.edu	37	chr15	51350348	51350348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagctgacaatggtcatggcGgtctggttcagcttcttccg	7	12	12	10	2	4	1	2	1	2	0	5	1	5	1	1	4	2	3	1	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:51350348G>A	uc001zyy.2	-	3	709	c.609C>T	c.(607-609)ACC>ACT	p.T203T		NM_207381	NP_997264	Q5GJ75	TP8L3_HUMAN	tumor necrosis factor, alpha-induced protein	203											0				all cancers(107;0.000389)|GBM - Glioblastoma multiforme(94;0.00338)		TGGTCATGGCGGTCTGGTTCA	0.507													29	77					0	0	1	0	0		A	51350348	A	A	51350348	2	1	151	1	0	0	0	0	0	0	0	1	16304	1103	39	1		1	TNFAIP8L3	15	51350348	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	322014	51350348	51181044	3343	80508											
CYP19A1	1588	broad.mit.edu	37	chr15	51503171	51503171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcagaagtgtaacgaggatgGctttcatcatcaccatggcg	11	10	11	9	2	4	1	4	0	0	1	4	3	4	2	1	3	1	2	1	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:51503171G>A	uc001zyz.3	-	11	1597	c.1346C>T	c.(1345-1347)GCC>GTC	p.A449V	CYP19A1_uc001zza.3_Missense_Mutation_p.A449V	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	449					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	AACGAGGATGGCTTTCATCAT	0.473													20	100					0	0	1	0	0		A	51503171	A	A	51503171	3	1	151	1	0	0	0	0	1	0	0	0	4151	1203	42	2	169	2	CYP19A1	15	51503171	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	152823	51503171	51028221	3344	80509											
DMXL2	23312	broad.mit.edu	37	chr15	51827880	51827880	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagattctgggtctgacaAttcatctaataatttccttg	11	16	7	7	0	4	3	1	2	3	1	5	3	5	3	1	1	0	0	1	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:51827880A>G	uc002abf.2	-	13	2641	c.2416T>C	c.(2416-2418)TTG>CTG	p.L806L	DMXL2_uc010ufy.1_Silent_p.L806L|DMXL2_uc010bfa.2_Silent_p.L806L	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	806						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		GGGTCTGACAATTCATCTAAT	0.343													19	90					0	0	1	0	0		G	51827880	G	G	51827880	2	3	151	1	0	0	0	0	0	0	0	1	4601	98	4	3		3	DMXL2	15	51827880	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	324709	51827880	50703512	3345	80510											
MYO5A	4644	broad.mit.edu	37	chr15	52662616	52662616	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcatttgtagtctttgttcTttaaacatacacataagtaa	13	16	6	6	0	2	0	0	0	2	0	2	0	2	0	0	1	2	4	0	1	6	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:52662616T>C	uc002aby.2	-	22	3062	c.2818_splice	c.e22-1	p.N940_splice	MYO5A_uc002abx.3_Splice_Site_p.N940_splice|MYO5A_uc010uge.1_Splice_Site_p.N809_splice	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1						actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		GTCTTTGTTCTTTAAACATAC	0.308													28	86					0	0	1	0	0		C	52662616	C	C	52662616	5	2	151	1	0	0	0	0	0	0	1	0	10096	1623	56	3	2831	3	MYO5A	15	52662616	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	834736	52662616	49868776	3346	80511											
MYO5A	4644	broad.mit.edu	37	chr15	52668673	52668673	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggcagctctcagtttgTcagctctcaatttttctaga	8	15	8	10	0	4	1	3	0	3	1	6	1	4	1	0	1	3	5	0	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:52668673T>C	uc002aby.2	-	19	2535	c.2291A>G	c.(2290-2292)GAC>GGC	p.D764G	MYO5A_uc002abx.3_Missense_Mutation_p.D764G|MYO5A_uc010uge.1_Missense_Mutation_p.D633G	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	764	Myosin head-like.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		TCTCAGTTTGTCAGCTCTCAA	0.478													10	87					0	0	1	0	0		C	52668673	C	C	52668673	3	2	151	1	0	0	0	0	1	0	0	0	10096	1667	58	3	3368	3	MYO5A	15	52668673	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6057	52668673	49862719	3347	80512											
KIAA1370	56204	broad.mit.edu	37	chr15	52902434	52902434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattagtgtgaatactgcacGtcaaaactggataattagat	15	13	8	5	1	1	2	1	1	0	1	1	3	1	3	0	1	3	1	0	1	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:52902434G>A	uc002acg.3	-	6	830	c.677C>T	c.(676-678)ACG>ATG	p.T226M	KIAA1370_uc002ach.3_RNA|KIAA1370_uc010bfg.1_Missense_Mutation_p.T138M|KIAA1370_uc010ugf.1_Missense_Mutation_p.T233M	NM_019600	NP_062546	Q32MH5	K1370_HUMAN	hypothetical protein LOC56204	226											0				all cancers(107;0.0803)		AATACTGCACGTCAAAACTGG	0.378													30	131					0	0	1	0	0		A	52902434	A	A	52902434	3	1	151	1	0	0	0	0	1	0	0	0	8242	1145	40	1	2585	1	KIAA1370	15	52902434	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	233761	52902434	49628958	3348	80513											
ONECUT1	3175	broad.mit.edu	37	chr15	53049965	53049965	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcatgtagagttcgacgctgGacatctgtgaagaccaacct	11	9	11	10	2	1	3	0	1	1	2	2	5	1	4	2	1	1	4	2	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:53049965G>A	uc002aci.1	-	2	1313	c.1185C>T	c.(1183-1185)GTC>GTT	p.V395V		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	395	Homeobox.				endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		TTCGACGCTGGACATCTGTGA	0.458													72	328					0	0	1	0	0		A	53049965	A	A	53049965	2	1	151	1	0	0	0	0	0	0	0	1	10887	1161	41	4		4	ONECUT1	15	53049965	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	147531	53049965	49481427	3349	80514											
ONECUT1	3175	broad.mit.edu	37	chr15	53081197	53081197	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatacgctgcgccacctcTttggtattgatctcttccat	6	15	8	12	2	2	2	0	2	2	0	4	2	3	2	3	1	2	2	3	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:53081197T>G	uc002aci.1	-	1	1013	c.885A>C	c.(883-885)AAA>AAC	p.K295N		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	295	CUT.				endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		GCGCCACCTCTTTGGTATTGA	0.627													34	121					0	0	1	0	0		G	53081197	G	G	53081197	3	3	151	1	0	0	0	0	1	0	0	0	10887	1606	56	5	520	5	ONECUT1	15	53081197	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	31232	53081197	49450195	3350	80515											
UNC13C	440279	broad.mit.edu	37	chr15	54793148	54793148	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgccctaatcctgaagcatTatctcacttaatgagaagat	14	12	6	9	0	1	3	1	2	1	2	3	4	2	3	2	0	2	1	2	0	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:54793148T>A	uc002ack.2	+	20	5273	c.5273T>A	c.(5272-5274)TTA>TAA	p.L1758*		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1758	MHD1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		CCTGAAGCATTATCTCACTTA	0.378													39	177					0	0	1	0	0		A	54793148	A	A	54793148	4	1	151	1	0	0	0	0	0	1	0	0	17012	1764	61	5	5351	5	UNC13C	15	54793148	Nonsense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1711951	54793148	47738244	3351	80516											
UNC13C	440279	broad.mit.edu	37	chr15	54803967	54803967	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagccctgtatcttgatgaAcaatattcaacaattgcggg	14	11	8	8	1	2	2	1	2	1	0	2	2	2	2	1	1	4	1	1	1	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:54803967A>G	uc002ack.2	+	22	5396	c.5396A>G	c.(5395-5397)AAC>AGC	p.N1799S		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1799					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ATCTTGATGAACAATATTCAA	0.323													5	25					0	0	1	0	0		G	54803967	G	G	54803967	3	3	151	1	0	0	0	0	1	0	0	0	17012	43	2	3	5482	3	UNC13C	15	54803967	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	10819	54803967	47727425	3352	80517											
PIGB	9488	broad.mit.edu	37	chr15	55632864	55632864	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgtgctgcagaactggggaAcattttatggttctcatcca	10	12	10	9	1	1	1	1	0	1	1	3	2	2	2	1	3	4	3	1	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:55632864A>G	uc002act.2	+	8	1217	c.901A>G	c.(901-903)ACA>GCA	p.T301A	PIGB_uc010ugg.1_Missense_Mutation_p.T106A	NM_004855	NP_004846	Q92521	PIGB_HUMAN	phosphatidylinositol glycan, class B	301					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	integral to membrane|intrinsic to endoplasmic reticulum membrane	glycolipid mannosyltransferase activity				0				all cancers(107;0.0255)		GAACTGGGGAACATTTTATGG	0.398													7	31					0	0	1	0	0		G	55632864	G	G	55632864	3	3	151	1	0	0	0	0	1	0	0	0	11904	43	2	3	931	3	PIGB	15	55632864	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	828897	55632864	46898528	3353	80518											
CCPG1	9236	broad.mit.edu	37	chr15	55652756	55652756	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacttgccatgtaactgactAccacttaactgctggagttc	10	12	8	11	0	0	1	0	1	0	0	1	3	0	2	2	1	5	3	2	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:55652756A>G	uc002acv.1	-	8	1380	c.1215T>C	c.(1213-1215)GGT>GGC	p.G405G	CCPG1_uc002acy.2_Silent_p.G405G|CCPG1_uc002acu.1_Silent_p.G261G|CCPG1_uc002acw.1_Silent_p.G130G|CCPG1_uc002acx.2_Intron|CCPG1_uc010bfk.1_Silent_p.G405G|CCPG1_uc002acz.1_Silent_p.G405G	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2	405	Potential.|Lumenal (Potential).				cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		GTAACTGACTACCACTTAACT	0.438													47	153					0	0	1	0	0		G	55652756	G	G	55652756	2	3	151	1	0	0	0	0	0	0	0	1	2941	378	14	3		3	CCPG1	15	55652756	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	19892	55652756	46878636	3354	80519											
PYGO1	26108	broad.mit.edu	37	chr15	55838551	55838551	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcatctgctgcacctctTggttgtcgtggcttattctg	4	15	11	11	1	3	0	0	0	3	0	4	0	3	0	1	3	2	5	1	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:55838551T>C	uc010bfl.1	-	3	986	c.930A>G	c.(928-930)CCA>CCG	p.P310P	PYGO1_uc002adf.1_Silent_p.P310P	NM_015617	NP_056432	Q9Y3Y4	PYGO1_HUMAN	pygopus homolog 1	310					Wnt receptor signaling pathway	nucleus	zinc ion binding			ovary(1)|skin(1)	2				all cancers(107;0.0131)|GBM - Glioblastoma multiforme(80;0.18)		CTGCACCTCTTGGTTGTCGTG	0.473													11	574					0	0	1	0	0		C	55838551	C	C	55838551	2	2	151	1	0	0	0	0	0	0	0	1	12888	1799	63	3		3	PYGO1	15	55838551	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	185795	55838551	46692841	3355	80520											
PYGO1	26108	broad.mit.edu	37	chr15	55839009	55839009	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcattattataagatggatTaccgaaacttgaattatcat	15	15	6	5	1	1	2	1	1	0	1	1	4	1	3	1	1	3	1	1	1	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:55839009T>C	uc010bfl.1	-	3	528	c.472A>G	c.(472-474)AAT>GAT	p.N158D	PYGO1_uc002adf.1_Missense_Mutation_p.N158D	NM_015617	NP_056432	Q9Y3Y4	PYGO1_HUMAN	pygopus homolog 1	158	Asn-rich.				Wnt receptor signaling pathway	nucleus	zinc ion binding			ovary(1)|skin(1)	2				all cancers(107;0.0131)|GBM - Glioblastoma multiforme(80;0.18)		TAAGATGGATTACCGAAACTT	0.393													5	219					0	0	1	0	0		C	55839009	C	C	55839009	3	2	151	1	0	0	0	0	1	0	0	0	12888	1754	61	3	791	3	PYGO1	15	55839009	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	458	55839009	46692383	3356	80521											
PRTG	283659	broad.mit.edu	37	chr15	55972312	55972312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgccaggggtagtggcccGacaaacatatactccagcat	11	8	11	11	1	0	0	0	0	0	0	1	1	1	0	3	3	4	2	3	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:55972312G>A	uc002adg.2	-	6	961	c.913C>T	c.(913-915)CGG>TGG	p.R305W		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	305	Ig-like 3.				multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		GTAGTGGCCCGACAAACATAT	0.408													11	61					0	0	1	0	0		A	55972312	A	A	55972312	3	1	151	1	0	0	0	0	1	0	0	0	12660	1057	37	1	2599	1	PRTG	15	55972312	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	133303	55972312	46559080	3357	80522											
NEDD4	4734	broad.mit.edu	37	chr15	56140717	56140717	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaaaatcgcactgcacatActgtgatttatgtagaagat	15	12	8	6	1	0	4	0	2	0	2	1	4	0	4	0	0	2	3	0	0	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:56140717A>G	uc002adj.2	-	12	3040	c.2740_splice	c.e12+1	p.N914_splice	NEDD4_uc002adl.2_Splice_Site_p.N495_splice|NEDD4_uc002adi.2_Splice_Site_p.N842_splice|NEDD4_uc010ugj.1_Splice_Site_p.N898_splice|NEDD4_uc010bfm.2_Splice_Site_p.N897_splice|NEDD4_uc002adk.2_Splice_Site	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally						development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		CACTGCACATACTGTGATTTA	0.303													26	99					0	0	1	0	0		G	56140717	G	G	56140717	5	3	151	1	0	0	0	0	0	0	1	0	10329	405	14	3	1273	3	NEDD4	15	56140717	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	168405	56140717	46390675	3358	80523											
NEDD4	4734	broad.mit.edu	37	chr15	56207860	56207860	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcaccatttgttgtttcAcagtctaatgtagctgcttt	9	17	6	9	0	3	0	2	0	1	0	3	0	3	0	1	0	2	5	1	0	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:56207860A>G	uc002adj.2	-	1	1470	c.1170T>C	c.(1168-1170)TGT>TGC	p.C390C	NEDD4_uc002adl.2_Intron|NEDD4_uc002adi.2_Silent_p.C390C|NEDD4_uc010ugj.1_Silent_p.C390C|NEDD4_uc010bfm.2_Silent_p.C390C|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	390					development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		TTGTTGTTTCACAGTCTAATG	0.373													24	126					0	0	1	0	0		G	56207860	G	G	56207860	2	3	151	1	0	0	0	0	0	0	0	1	10329	157	6	3		3	NEDD4	15	56207860	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	67143	56207860	46323532	3359	80524											
RFX7	64864	broad.mit.edu	37	chr15	56390322	56390322	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaacgataccaataggtTgaggagaaaggattgaagga	17	6	12	6	1	0	3	0	2	0	1	0	7	0	5	2	4	2	1	2	4	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:56390322T>C	uc010bfn.2	-	8	1064	c.1064A>G	c.(1063-1065)CAA>CGA	p.Q355R	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Missense_Mutation_p.Q169R	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	258					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						ACCAATAGGTTGAGGAGAAAG	0.418													3	76					0	0	1	0	0		C	56390322	C	C	56390322	3	2	151	1	0	0	0	0	1	0	0	0	13293	1812	63	3	3326	3	RFX7	15	56390322	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	182462	56390322	46141070	3360	80525											
ZNF280D	54816	broad.mit.edu	37	chr15	56958612	56958612	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcatcatatgatttacatAggctttgctacagctagtgt	10	15	7	9	0	2	1	2	1	0	0	2	1	2	1	1	1	4	3	1	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:56958612A>G	uc002adu.2	-	16	2192	c.1975T>C	c.(1975-1977)TAT>CAT	p.Y659H	ZNF280D_uc002adv.2_Missense_Mutation_p.Y646H|ZNF280D_uc010bfq.2_Missense_Mutation_p.Y659H|ZNF280D_uc002adw.1_Missense_Mutation_p.Y687H|ZNF280D_uc010bfr.1_RNA|ZNF280D_uc010bfp.2_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	659					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		TGATTTACATAGGCTTTGCTA	0.323													21	148					0	0	1	0	0		G	56958612	G	G	56958612	3	3	151	1	0	0	0	0	1	0	0	0	17842	420	15	3	992	3	ZNF280D	15	56958612	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	568290	56958612	45572780	3361	80526											
ZNF280D	54816	broad.mit.edu	37	chr15	56970887	56970887	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattcatggggcgtatgtgtActttcgatgtgacactgcaa	10	13	11	7	2	1	1	1	1	0	0	2	2	1	1	0	2	2	3	0	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:56970887A>G	uc002adu.2	-	11	1354	c.1137T>C	c.(1135-1137)AGT>AGC	p.S379S	ZNF280D_uc002adv.2_Silent_p.S366S|ZNF280D_uc010bfq.2_Silent_p.S379S|ZNF280D_uc002adw.1_Silent_p.S407S|ZNF280D_uc010bfr.1_RNA|ZNF280D_uc010bfp.2_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	379	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		GCGTATGTGTACTTTCGATGT	0.398													36	118					0	0	1	0	0		G	56970887	G	G	56970887	2	3	151	1	0	0	0	0	0	0	0	1	17842	388	14	3		3	ZNF280D	15	56970887	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	12275	56970887	45560505	3362	80527											
SLTM	79811	broad.mit.edu	37	chr15	59186298	59186298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaatccttacttgctacttCtatcactcgtatttttttta	9	21	2	9	1	2	0	1	0	1	0	4	0	3	0	1	0	3	2	1	0	7	11			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:59186298C>T	uc002afp.2	-	11	1560	c.1472G>A	c.(1471-1473)AGA>AAA	p.R491K	SLTM_uc002afn.2_Missense_Mutation_p.R60K|SLTM_uc002afo.2_Missense_Mutation_p.R473K|SLTM_uc002afq.2_Missense_Mutation_p.R60K|SLTM_uc010bgd.2_Missense_Mutation_p.R60K	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	491					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						CTTGCTACTTCTATCACTCGT	0.299													16	43					0	0	1	0	0		T	59186298	T	T	59186298	3	4	151	1	0	0	0	0	1	0	0	0	14779	913	32	4	1676	4	SLTM	15	59186298	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2215411	59186298	43345094	3363	80528											
CCNB2	9133	broad.mit.edu	37	chr15	59417071	59417071	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccccactgataggaaggTcctaggctgccgtggcccct	6	8	11	16	1	0	1	0	1	0	0	2	2	2	2	7	4	1	1	7	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:59417071T>C	uc002afz.2	+	9	1340	c.1192T>C	c.(1192-1194)TCC>CCC	p.S398P	CCNB2_uc010bge.2_Missense_Mutation_p.S270P	NM_004701	NP_004692	O95067	CCNB2_HUMAN	cyclin B2	398					cell cycle checkpoint|cell division|G2/M transition of mitotic cell cycle|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	centrosome|cytosol|nucleus	protein kinase binding				0						GATAGGAAGGTCCTAGGCTGC	0.473													5	33					0	0	1	0	0		C	59417071	C	C	59417071	3	2	151	1	0	0	0	0	1	0	0	0	2916	1667	58	3	1226	3	CCNB2	15	59417071	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	230773	59417071	43114321	3364	80529											
FOXB1	27023	broad.mit.edu	37	chr15	60297214	60297214	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagaagccgccctactcgTacatctcgctgaccgctatg	9	8	8	16	4	1	2	0	1	1	1	3	2	1	2	4	0	3	3	4	0	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:60297214T>C	uc002agj.1	+	2	531	c.52T>C	c.(52-54)TAC>CAC	p.Y18H	FOXB1_uc010bgh.1_Intron	NM_012182	NP_036314	Q99853	FOXB1_HUMAN	forkhead box B1	18	Fork-head.				axon target recognition|cell migration in diencephalon|epithelial cell differentiation involved in mammary gland alveolus development|floor plate development|hypothalamus cell migration|inferior colliculus development|lactation|mammillothalamic axonal tract development|negative regulation of neuron apoptosis|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|telencephalon cell migration|visual learning	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|central_nervous_system(1)	2						GCCCTACTCGTACATCTCGCT	0.622													8	25					0	0	1	0	0		C	60297214	C	C	60297214	3	2	151	1	0	0	0	0	1	0	0	0	6006	1638	57	3	54	3	FOXB1	15	60297214	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	880143	60297214	42234178	3365	80530											
NARG2	79664	broad.mit.edu	37	chr15	60747243	60747243	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacacactggaatttcccacTgttccttgtacgttggtcca	8	14	7	12	1	0	0	0	0	0	0	3	1	3	1	3	2	2	3	3	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:60747243T>C	uc002agp.2	-	8	1137	c.902A>G	c.(901-903)CAG>CGG	p.Q301R	NARG2_uc002ago.2_Missense_Mutation_p.Q164R|NARG2_uc002agq.3_5'Flank|NARG2_uc010bgk.2_Missense_Mutation_p.Q301R|NARG2_uc002agr.1_Missense_Mutation_p.Q301R	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	301						nucleus				ovary(1)|lung(1)	2						AATTTCCCACTGTTCCTTGTA	0.343													43	165					0	0	1	0	0		C	60747243	C	C	60747243	3	2	151	1	0	0	0	0	1	0	0	0	10187	1580	55	3	2082	3	NARG2	15	60747243	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	450029	60747243	41784149	3366	80531											
HERC1	8925	broad.mit.edu	37	chr15	63952040	63952040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactggttctggtacaatgcGccggtcatttaaaccaagcg	11	10	10	10	3	2	0	1	0	1	0	2	0	2	0	2	3	5	2	2	3	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:63952040G>A	uc002amp.2	-	47	9467	c.9319C>T	c.(9319-9321)CGC>TGC	p.R3107C		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	3107					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						GGTACAATGCGCCGGTCATTT	0.468													14	65					0	0	1	0	0		A	63952040	A	A	63952040	3	1	151	1	0	0	0	0	1	0	0	0	7073	1087	38	1	5394	1	HERC1	15	63952040	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3204797	63952040	38579352	3367	80532											
HERC1	8925	broad.mit.edu	37	chr15	64048790	64048790	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatcctttagaagatgaaAcctttttaatggatctgtga	13	14	8	6	0	1	5	0	2	1	3	2	6	2	6	2	1	1	0	2	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:64048790A>G	uc002amp.2	-	5	1527	c.1379T>C	c.(1378-1380)GTT>GCT	p.V460A	HERC1_uc010uil.1_Intron|HERC1_uc010bgt.1_Missense_Mutation_p.V460A	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	460	WD 1.|RCC1 2.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						AGAAGATGAAACCTTTTTAAT	0.443													14	84					0	0	1	0	0		G	64048790	G	G	64048790	3	3	151	1	0	0	0	0	1	0	0	0	7073	43	2	3	13502	3	HERC1	15	64048790	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	96750	64048790	38482602	3368	80533											
SNX1	6642	broad.mit.edu	37	chr15	64423957	64423957	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctctgaggacaacacggcaTtgtcacgggcactctcccag	9	7	11	14	2	3	1	1	1	2	0	4	2	3	2	1	3	1	3	1	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:64423957T>C	uc002amv.2	+	11	1123	c.1087T>C	c.(1087-1089)TTG>CTG	p.L363L	SNX1_uc010bgv.2_Silent_p.L77L|SNX1_uc010uio.1_Silent_p.L363L|SNX1_uc002amw.2_Silent_p.L363L|SNX1_uc002amx.2_Silent_p.L298L|SNX1_uc002amy.2_Silent_p.L292L|SNX1_uc010bgw.2_Silent_p.L265L	NM_003099	NP_003090	Q13596	SNX1_HUMAN	sorting nexin 1 isoform a	363	BAR.				cell communication|early endosome to Golgi transport|endocytosis|intracellular protein transport	early endosome membrane|Golgi apparatus	phosphatidylinositol binding|protein binding|protein transporter activity				0						CAACACGGCATTGTCACGGGC	0.542													15	83					0	0	1	0	0		C	64423957	C	C	64423957	2	2	151	1	0	0	0	0	0	0	0	1	14905	1490	52	3		3	SNX1	15	64423957	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	375167	64423957	38107435	3369	80534											
ZNF609	23060	broad.mit.edu	37	chr15	64966838	64966838	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtaagaaaaagttgagtggGgaaggggacacagaccttgg	14	7	16	4	0	0	3	0	1	0	2	0	5	0	5	1	5	0	2	1	5	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:64966838G>A	uc002ann.2	+	4	1785	c.1785G>A	c.(1783-1785)GGG>GGA	p.G595G		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	595						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						AGTTGAGTGGGGAAGGGGACA	0.483													21	84					0	0	1	0	0		A	64966838	A	A	64966838	2	1	151	1	0	0	0	0	0	0	0	1	18060	1219	43	4		4	ZNF609	15	64966838	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	542881	64966838	37564554	3370	80535											
ZNF609	23060	broad.mit.edu	37	chr15	64972981	64972981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcacctctccttcccagcGcctgatgtccacacaccacc	7	7	5	22	2	1	1	0	1	1	0	4	1	3	1	8	0	1	1	8	0	0	1	rs142970708		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:64972981G>A	uc002ann.2	+	7	4082	c.4082G>A	c.(4081-4083)CGC>CAC	p.R1361H		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	1361						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CCTTCCCAGCGCCTGATGTCC	0.617													22	87					0	0	1	0	0		A	64972981	A	A	64972981	3	1	151	1	0	0	0	0	1	0	0	0	18060	1087	38	1	4108	1	ZNF609	15	64972981	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	6143	64972981	37558411	3371	80536											
PIF1	80119	broad.mit.edu	37	chr15	65116102	65116102	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgatggtgacgaagtcgcGgggccgcgggcccagcagct	6	5	18	12	5	0	2	0	2	0	0	1	3	0	2	2	4	2	3	2	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:65116102G>T	uc002ant.2	-	2	499	c.433C>A	c.(433-435)CGC>AGC	p.R145S	PIF1_uc002anr.2_5'Flank|PIF1_uc002ans.2_5'Flank|PIF1_uc010uiq.1_Missense_Mutation_p.R145S|PIF1_uc002anu.2_Missense_Mutation_p.R145S	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	145					negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0						ACGAAGTCGCGGGGCCGCGGG	0.761													4	3					0.184627	0.184763	1	1	0		T	65116102	T	T	65116102	3	4	151	1	0	0	0	0	1	0	0	0	11902	1116	39	5	1540	5	PIF1	15	65116102	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	143121	65116102	37415290	3372	80537											
DENND4A	10260	broad.mit.edu	37	chr15	65957726	65957726	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggctgtcccggatcctgAtgtaacttcatattgtccca	9	12	9	11	1	1	1	1	1	0	0	4	2	4	2	3	2	1	2	3	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:65957726A>T	uc002aph.2	-	29	5562	c.5184T>A	c.(5182-5184)CAT>CAA	p.H1728Q	DENND4A_uc002api.2_Missense_Mutation_p.H1771Q	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	1728					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CCGGATCCTGATGTAACTTCA	0.373													4	145					0	0	1	0	0		T	65957726	T	T	65957726	3	4	151	1	0	0	0	0	1	0	0	0	4439	330	12	5	423	5	DENND4A	15	65957726	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	841624	65957726	36573666	3373	80538											
DENND4A	10260	broad.mit.edu	37	chr15	65983159	65983159	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtcaaaggactgctcatgTtattcatatacatcacaatt	13	15	5	8	0	4	0	4	0	0	0	4	1	4	1	0	1	2	2	0	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:65983159T>C	uc002aph.2	-	22	4019	c.3641A>G	c.(3640-3642)AAC>AGC	p.N1214S	DENND4A_uc002api.2_Missense_Mutation_p.N1257S|DENND4A_uc002apj.3_Missense_Mutation_p.N1214S	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	1214					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						ACTGCTCATGTTATTCATATA	0.388													12	50					0	0	1	0	0		C	65983159	C	C	65983159	3	2	151	1	0	0	0	0	1	0	0	0	4439	1725	60	3	1994	3	DENND4A	15	65983159	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	25433	65983159	36548233	3374	80539											
RAB11A	8766	broad.mit.edu	37	chr15	66161946	66161946	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcacccgcgacgacgagtAcgactacctctttaaaggtg	10	7	12	12	5	1	0	0	0	1	0	1	4	1	0	2	2	2	2	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:66161946A>G	uc002apk.2	+	1	151	c.23A>G	c.(22-24)TAC>TGC	p.Y8C	RAB11A_uc010ujk.1_Missense_Mutation_p.Y8C	NM_004663	NP_004654	P62491	RB11A_HUMAN	Ras-related protein Rab-11A	8					cell cycle|cytokinesis|neuron projection development|plasma membrane to endosome transport|protein localization in plasma membrane|small GTPase mediated signal transduction|vesicle-mediated transport	cleavage furrow|plasma membrane|recycling endosome membrane|trans-Golgi network	GTP binding|GTPase activity|syntaxin binding				0						GACGACGAGTACGACTACCTC	0.677													7	51					0	0	1	0	0		G	66161946	G	G	66161946	3	3	151	1	0	0	0	0	1	0	0	0	12916	391	14	3	25	3	RAB11A	15	66161946	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	178787	66161946	36369446	3375	80540											
DIS3L	115752	broad.mit.edu	37	chr15	66612927	66612927	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggacttcagggtggtcgtgCgcatcgattcctgggagtca	7	10	15	9	3	2	0	2	0	0	0	5	3	3	2	1	4	1	1	1	4	0	2	rs150139050		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:66612927C>T	uc010ujm.1	+	9	1198	c.1183C>T	c.(1183-1185)CGC>TGC	p.R395C	DIS3L_uc010ujl.1_Missense_Mutation_p.R25C|DIS3L_uc002app.2_Missense_Mutation_p.R312C|DIS3L_uc002apq.2_Missense_Mutation_p.R395C|DIS3L_uc010bho.2_Missense_Mutation_p.R261C	NM_001143688	NP_001137160	Q8TF46	DI3L1_HUMAN	DIS3 mitotic control homolog (S.	395					rRNA catabolic process	cytoplasm|exosome (RNase complex)	exonuclease activity|protein binding|ribonuclease activity|RNA binding			ovary(2)	2						GGTGGTCGTGCGCATCGATTC	0.453													27	55					0	0	1	0	0		T	66612927	T	T	66612927	3	4	151	1	0	0	0	0	1	0	0	0	4542	768	27	1	1217	1	DIS3L	15	66612927	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	450981	66612927	35918465	3376	80541											
PIAS1	8554	broad.mit.edu	37	chr15	68438968	68438968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagccgaccaattaatatcaCctcacttgtccgactgtcca	11	10	5	15	2	2	0	2	0	0	0	4	2	4	0	5	0	1	0	5	0	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:68438968C>T	uc002aqz.2	+	6	854	c.758C>T	c.(757-759)ACC>ATC	p.T253I	PIAS1_uc010ujx.1_Missense_Mutation_p.T253I	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	253	PINIT.				androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						ATTAATATCACCTCACTTGTC	0.363													42	205					0	0	1	0	0		T	68438968	T	T	68438968	3	4	151	1	0	0	0	0	1	0	0	0	11894	507	18	4	780	4	PIAS1	15	68438968	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1826041	68438968	34092424	3377	80542											
CALML4	91860	broad.mit.edu	37	chr15	68489899	68489899	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaagaatttctttctttggGtcttcttgttttatttgcat	7	22	7	5	0	4	2	0	0	4	2	4	2	4	2	0	1	1	2	0	1	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:68489899G>A	uc002arb.2	-	4	1106	c.372C>T	c.(370-372)GAC>GAT	p.D124D	CALML4_uc002arc.2_Silent_p.D77D|CALML4_uc002ard.2_RNA|CALML4_uc002are.2_RNA|CALML4_uc010bhz.2_Intron	NM_033429	NP_219501	Q96GE6	CALL4_HUMAN	calmodulin-like 4 isoform 1	124	EF-hand 3.						calcium ion binding				0						CTTTCTTTGGGTCTTCTTGTT	0.473													18	77					0	0	1	0	0		A	68489899	A	A	68489899	2	1	151	1	0	0	0	0	0	0	0	1	2591	1252	44	4		4	CALML4	15	68489899	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	50931	68489899	34041493	3378	80543											
ITGA11	22801	broad.mit.edu	37	chr15	68624344	68624344	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcaatggaggacccaaaTcgggcattctggtaactgtg	11	8	14	8	1	1	0	0	0	1	0	2	3	1	2	1	5	1	3	1	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:68624344T>G	uc002ari.2	-	14	1710	c.1623A>C	c.(1621-1623)CGA>CGC	p.R541R	ITGA11_uc010bib.2_Silent_p.R541R	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	541	FG-GAP 6.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	AGGACCCAAATCGGGCATTCT	0.527													4	24					0	0	1	0	0		G	68624344	G	G	68624344	2	3	151	1	0	0	0	0	0	0	0	1	7890	1422	50	5		5	ITGA11	15	68624344	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	134445	68624344	33907048	3379	80544											
KIF23	9493	broad.mit.edu	37	chr15	69732777	69732777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagagaccctctcgggagcGagatcgagaaaaagttactc	14	6	12	9	3	1	4	0	0	1	4	4	8	1	5	1	1	2	1	1	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:69732777G>A	uc002asb.2	+	17	2135	c.2018G>A	c.(2017-2019)CGA>CAA	p.R673Q	KIF23_uc002asc.2_Missense_Mutation_p.R673Q|KIF23_uc010bii.2_Missense_Mutation_p.R563Q|KIF23_uc010ukc.1_Missense_Mutation_p.R490Q	NM_138555	NP_612565	Q02241	KIF23_HUMAN	kinesin family member 23 isoform 1	673					blood coagulation|cytokinesis|microtubule-based movement|mitosis|mitotic spindle elongation	cytosol|kinesin complex|microtubule|midbody|nucleoplasm|spindle	ATP binding|microtubule motor activity|protein binding				0						TCTCGGGAGCGAGATCGAGAA	0.388													18	74					0	0	1	0	0		A	69732777	A	A	69732777	3	1	151	1	0	0	0	0	1	0	0	0	8307	1058	37	1	2084	1	KIF23	15	69732777	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1108433	69732777	32798615	3380	80545											
NR2E3	10002	broad.mit.edu	37	chr15	72105733	72105733	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtctgagcacaggtgaTcctgctggaagaggcgtgga	8	8	15	10	1	1	3	0	2	1	1	2	5	2	5	2	4	2	2	2	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:72105733T>C	uc002ati.2	+	6	942	c.752T>C	c.(751-753)ATC>ACC	p.I251T	NR2E3_uc002ath.1_Missense_Mutation_p.I251T	NM_014249	NP_055064	Q9Y5X4	NR2E3_HUMAN	photoreceptor-specific nuclear receptor isoform	251					phototransduction|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription from RNA polymerase II promoter|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0						GCACAGGTGATCCTGCTGGAA	0.602													5	17					0	0	1	0	0		C	72105733	C	C	72105733	3	2	151	1	0	0	0	0	1	0	0	0	10645	1435	50	3	774	3	NR2E3	15	72105733	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2372956	72105733	30425659	3381	80546											
ARIH1	25820	broad.mit.edu	37	chr15	72837173	72837173	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgcaggtactttgatggAaacctggagaagctctttgc	11	12	11	7	0	1	2	0	1	1	1	1	4	1	3	1	3	5	3	1	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:72837173A>G	uc002aut.3	+	3	770	c.456A>G	c.(454-456)GGA>GGG	p.G152G		NM_005744	NP_005735	Q9Y4X5	ARI1_HUMAN	ariadne ubiquitin-conjugating enzyme E2 binding	152					ubiquitin-dependent protein catabolic process	cytoplasm|ubiquitin ligase complex	ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding				0						ACTTTGATGGAAACCTGGAGA	0.413													22	146					0	0	1	0	0		G	72837173	G	G	72837173	2	3	151	1	0	0	0	0	0	0	0	1	923	233	9	3		3	ARIH1	15	72837173	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	731440	72837173	29694219	3382	80547											
CD276	80381	broad.mit.edu	37	chr15	73995290	73995290	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgcagatggccaacgagcAgggcttgtttgatgtgcaca	9	9	14	9	2	0	2	0	1	0	1	1	3	0	2	1	2	3	5	1	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:73995290A>G	uc002avv.1	+	4	830	c.596A>G	c.(595-597)CAG>CGG	p.Q199R	CD276_uc010bjd.1_Missense_Mutation_p.Q53R|CD276_uc002avu.1_Missense_Mutation_p.Q199R|CD276_uc002avw.1_Intron|CD276_uc010ulb.1_Missense_Mutation_p.Q145R|CD276_uc002avx.2_5'Flank	NM_001024736	NP_001019907	Q5ZPR3	CD276_HUMAN	CD276 antigen isoform a	199	Extracellular (Potential).|Ig-like C2-type 1.				cell proliferation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of T cell proliferation|regulation of immune response|T cell activation	external side of plasma membrane|integral to membrane	receptor binding			skin(1)	1						GCCAACGAGCAGGGCTTGTTT	0.632													13	57					0	0	1	0	0		G	73995290	G	G	73995290	3	3	151	1	0	0	0	0	1	0	0	0	2995	188	7	3	606	3	CD276	15	73995290	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1158117	73995290	28536102	3383	80548											
CCDC33	80125	broad.mit.edu	37	chr15	74536490	74536490	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtggccctatgtggtggtGtaagtagctgcgtgagagtg	6	11	17	7	2	0	1	0	1	0	1	0	2	0	1	2	3	2	3	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:74536490G>T	uc002axo.2	+	2	579	c.185_splice	c.e2+1	p.V62_splice		NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1								protein binding			ovary(3)|skin(2)	5						ATGTGGTGGTGTAAGTAGCTG	0.587													9	64					7.03913e-09	7.22398e-09	1	1	0		T	74536490	T	T	74536490	5	4	151	1	0	0	0	0	0	0	1	0	2809	1391	48	5	192	5	CCDC33	15	74536490	Splice_Site	SNP	G	TCGA-CG-5721-01A-11D-1600-08	541200	74536490	27994902	3384	80549											
PPCDC	60490	broad.mit.edu	37	chr15	75336770	75336770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttctgcacattgacctgcGgaggtgggcagacctcctgc	7	9	13	12	1	1	2	0	1	1	1	2	3	2	3	3	3	3	3	3	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:75336770G>A	uc002azo.2	+	4	388	c.275G>A	c.(274-276)CGG>CAG	p.R92Q		NM_021823	NP_068595	Q96CD2	COAC_HUMAN	phosphopantothenoylcysteine decarboxylase	92					coenzyme A biosynthetic process|pantothenate metabolic process	cytosol	phosphopantothenoylcysteine decarboxylase activity				0						ATTGACCTGCGGAGGTGGGCA	0.577													11	31					0	0	1	0	0		A	75336770	A	A	75336770	3	1	151	1	0	0	0	0	1	0	0	0	12323	1116	39	1	285	1	PPCDC	15	75336770	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	800280	75336770	27194622	3385	80550											
MAN2C1	4123	broad.mit.edu	37	chr15	75651057	75651057	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctataccgtgtctccaggTggtagtccatgacgtcccat	7	11	10	13	2	1	1	0	1	1	0	4	1	3	1	5	2	1	1	5	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:75651057T>C	uc002baf.2	-	19	2251	c.2234A>G	c.(2233-2235)CAC>CGC	p.H745R	MAN2C1_uc002bag.2_Missense_Mutation_p.H745R|MAN2C1_uc002bah.2_Missense_Mutation_p.H762R|MAN2C1_uc010bkk.2_Missense_Mutation_p.H646R	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	745					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						TGTCTCCAGGTGGTAGTCCAT	0.577													5	44					0	0	1	0	0		C	75651057	C	C	75651057	3	2	151	1	0	0	0	0	1	0	0	0	9236	1696	59	3	920	3	MAN2C1	15	75651057	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	314287	75651057	26880335	3386	80551											
SCAPER	49855	broad.mit.edu	37	chr15	77020934	77020934	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcaagatagcaaatgagatAcctagctctttcccgggctg	12	10	9	10	1	2	2	1	1	1	2	3	3	3	2	2	1	3	3	2	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:77020934A>G	uc002bby.2	-	16	2224	c.2165_splice	c.e16+1	p.R722_splice	SCAPER_uc010bkr.2_Intron|SCAPER_uc002bbx.2_Splice_Site_p.R476_splice|SCAPER_uc002bbz.1_Splice_Site_p.R593_splice|SCAPER_uc002bca.1_Splice_Site_p.R587_splice|SCAPER_uc002bcb.1_Splice_Site_p.R728_splice	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER							endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						CAAATGAGATACCTAGCTCTT	0.373													38	177					0	0	1	0	0		G	77020934	G	G	77020934	5	3	151	1	0	0	0	0	0	0	1	0	13903	405	14	3	2099	3	SCAPER	15	77020934	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1369877	77020934	25510458	3387	80552											
SGK269	79834	broad.mit.edu	37	chr15	77472351	77472351	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccagaaaacttttgtagaTagctagattgtcatatgcat	13	14	7	7	0	1	3	1	0	0	3	2	3	2	3	1	0	3	3	1	0	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:77472351T>C	uc002bcm.2	-	3	2226	c.1918A>G	c.(1918-1920)ATC>GTC	p.I640V	SGK269_uc002bcn.2_Missense_Mutation_p.I640V	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	640					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		CTTTTGTAGATAGCTAGATTG	0.358													73	233					0	0	1	0	0		C	77472351	C	C	77472351	3	2	151	1	0	0	0	0	1	0	0	0	14236	1406	49	3	3338	3	SGK269	15	77472351	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	451417	77472351	25059041	3388	80553											
SGK269	79834	broad.mit.edu	37	chr15	77474003	77474003	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacagtgttcttggatgctaAgctcaccacatatactttgc	10	13	7	11	0	2	0	1	0	1	0	2	1	2	1	1	1	4	3	1	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:77474003A>G	uc002bcm.2	-	3	574	c.266T>C	c.(265-267)CTT>CCT	p.L89P	SGK269_uc002bcn.2_Missense_Mutation_p.L89P	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	89					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		TTGGATGCTAAGCTCACCACA	0.453													34	158					0	0	1	0	0		G	77474003	G	G	77474003	3	3	151	1	0	0	0	0	1	0	0	0	14236	72	3	3	4990	3	SGK269	15	77474003	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1652	77474003	25057389	3389	80554											
HMG20A	10363	broad.mit.edu	37	chr15	77750834	77750834	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtaatgatctggctaccActgggtaagcagctgcttta	11	11	11	8	0	1	2	0	1	1	1	1	2	1	2	1	2	4	6	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:77750834A>G	uc002bcr.2	+	3	286	c.85A>G	c.(85-87)ACT>GCT	p.T29A	HMG20A_uc002bcq.1_Missense_Mutation_p.T29A|HMG20A_uc002bcs.2_Missense_Mutation_p.T29A	NM_018200	NP_060670	Q9NP66	HM20A_HUMAN	high-mobility group 20A	29					chromatin modification	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						TCTGGCTACCACTGGGTAAGC	0.448													17	51					0	0	1	0	0		G	77750834	G	G	77750834	3	3	151	1	0	0	0	0	1	0	0	0	7237	159	6	3	87	3	HMG20A	15	77750834	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	276831	77750834	24780558	3390	80555											
IDH3A	3419	broad.mit.edu	37	chr15	78452550	78452550	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaagatgggcttgaaaggTagcactgaagtagagacggg	15	6	15	5	1	0	4	0	2	0	2	0	5	0	4	0	3	2	4	0	3	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:78452550T>A	uc002bdd.2	+	4	316	c.289_splice	c.e4+2	p.G97_splice	IDH3A_uc010umt.1_Splice_Site_p.G97_splice|IDH3A_uc010umu.1_Intron|IDH3A_uc002bde.2_Splice_Site_p.G47_splice|IDH3A_uc010umv.1_Splice_Site_p.G47_splice|IDH3A_uc002bdf.2_Splice_Site|IDH3A_uc002bdg.2_Splice_Site_p.G10_splice	NM_005530	NP_005521	P50213	IDH3A_HUMAN	isocitrate dehydrogenase 3 (NAD+) alpha						carbohydrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0					NADH(DB00157)	GCTTGAAAGGTAGCACTGAAG	0.453													11	44					0	0	1	0	0		A	78452550	A	A	78452550	5	1	151	1	0	0	0	0	0	0	1	0	7512	1652	57	5	305	5	IDH3A	15	78452550	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	701716	78452550	24078842	3391	80556											
IREB2	3658	broad.mit.edu	37	chr15	78732202	78732202	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagaagttcttcgatgtaTctaaacttggcaccaagtat	14	13	7	7	1	2	1	0	0	2	1	3	2	2	1	1	1	1	4	1	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:78732202T>C	uc002bdr.2	+	2	247	c.85T>C	c.(85-87)TCT>CCT	p.S29P	IREB2_uc010unb.1_5'UTR|IREB2_uc002bdq.2_Missense_Mutation_p.S29P	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	29							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		CTTCGATGTATCTAAACTTGG	0.318													23	59					0	0	1	0	0		C	78732202	C	C	78732202	3	2	151	1	0	0	0	0	1	0	0	0	7842	1435	50	3	91	3	IREB2	15	78732202	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	279652	78732202	23799190	3392	80557											
RASGRF1	5923	broad.mit.edu	37	chr15	79304850	79304850	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcatttctgcttcccTggtcccctccctggtcctcc	1	14	6	20	0	2	0	1	0	1	0	7	0	7	0	7	2	2	2	7	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:79304850T>C	uc002beq.2	-	14	2221	c.1846A>G	c.(1846-1848)AGG>GGG	p.R616G	RASGRF1_uc002bep.2_Intron|RASGRF1_uc010blm.1_Intron|RASGRF1_uc002ber.3_Intron|RASGRF1_uc010unh.1_Intron	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	616					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						tctgcttccctggtcccCTCC	0.204													22	58					0	0	1	0	0		C	79304850	C	C	79304850	3	2	151	1	0	0	0	0	1	0	0	0	13097	1579	55	3	2035	3	RASGRF1	15	79304850	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	572648	79304850	23226542	3393	80558											
RASGRF1	5923	broad.mit.edu	37	chr15	79339164	79339164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcggccatccgcagcgggcGcaggaaattgttgacaagga	10	5	16	10	4	0	1	0	1	0	0	1	3	1	3	2	5	1	3	2	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:79339164G>A	uc002beq.2	-	5	1177	c.802C>T	c.(802-804)CGC>TGC	p.R268C	RASGRF1_uc002bep.2_Missense_Mutation_p.R268C|RASGRF1_uc010blm.1_Missense_Mutation_p.R190C|RASGRF1_uc002ber.3_Missense_Mutation_p.R268C	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	268	DH.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						CGCAGCGGGCGCAGGAAATTG	0.587													16	75					0	0	1	0	0		A	79339164	A	A	79339164	3	1	151	1	0	0	0	0	1	0	0	0	13097	1087	38	1	3115	1	RASGRF1	15	79339164	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	34314	79339164	23192228	3394	80559											
KIAA1024	23251	broad.mit.edu	37	chr15	79748861	79748861	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctttgaatcatgtaggtcGgacacagagatctgcaatgc	11	11	10	9	1	2	2	1	1	1	1	4	4	3	3	1	2	2	2	1	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:79748861G>A	uc002bew.1	+	2	447	c.372G>A	c.(370-372)TCG>TCA	p.S124S	KIAA1024_uc010unk.1_Silent_p.S124S	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	124						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						CATGTAGGTCGGACACAGAGA	0.567													18	66					0	0	1	0	0		A	79748861	A	A	79748861	2	1	151	1	0	0	0	0	0	0	0	1	8221	1103	39	1		1	KIAA1024	15	79748861	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	409697	79748861	22782531	3395	80560											
KIAA1024	23251	broad.mit.edu	37	chr15	79749423	79749423	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatgccctataacagccagTacctgaatccagtgtattcc	13	10	6	12	0	0	1	0	1	0	0	2	1	2	1	5	0	4	2	5	0	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:79749423T>C	uc002bew.1	+	2	1009	c.934T>C	c.(934-936)TAC>CAC	p.Y312H	KIAA1024_uc010unk.1_Missense_Mutation_p.Y312H	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	312						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						TAACAGCCAGTACCTGAATCC	0.507													38	134					0	0	1	0	0		C	79749423	C	C	79749423	3	2	151	1	0	0	0	0	1	0	0	0	8221	1638	57	3	936	3	KIAA1024	15	79749423	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	562	79749423	22781969	3396	80561											
ZFAND6	54469	broad.mit.edu	37	chr15	80429859	80429859	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaatgtttactgtggtgtAcaccgttactcagatgtaca	11	13	10	7	1	1	1	1	0	0	1	1	2	1	2	1	2	4	4	1	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:80429859A>G	uc002bfe.1	+	7	827	c.516A>G	c.(514-516)GTA>GTG	p.V172V	ZFAND6_uc002bff.1_Silent_p.V172V|ZFAND6_uc002bfg.1_Silent_p.V160V|ZFAND6_uc002bfh.1_Silent_p.V172V|ZFAND6_uc002bfi.1_Silent_p.V172V	NM_019006	NP_061879	Q6FIF0	ZFAN6_HUMAN	zinc finger, AN1-type domain 6	172	AN1-type.						DNA binding|zinc ion binding				0						ACTGTGGTGTACACCGTTACT	0.383													21	109					0	0	1	0	0		G	80429859	G	G	80429859	2	3	151	1	0	0	0	0	0	0	0	1	17656	378	14	3		3	ZFAND6	15	80429859	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	680436	80429859	22101533	3397	80562											
AP3B2	8120	broad.mit.edu	37	chr15	83328679	83328679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccacaatgtggtcactccGacaggtgtctggcagcatga	10	8	11	12	1	2	1	1	1	1	0	3	2	3	1	2	3	1	2	2	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:83328679G>A	uc010uoh.1	-	25	3193	c.3016C>T	c.(3016-3018)CGG>TGG	p.R1006W	AP3B2_uc010uoi.1_Missense_Mutation_p.R1025W|AP3B2_uc010uoj.1_Missense_Mutation_p.R974W|AP3B2_uc010bmp.2_Missense_Mutation_p.R69W|AP3B2_uc010uog.1_Missense_Mutation_p.R642W	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	1006					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			TGGTCACTCCGACAGGTGTCT	0.547													40	124					0	0	1	0	0		A	83328679	A	A	83328679	3	1	151	1	0	0	0	0	1	0	0	0	745	1057	37	1	240	1	AP3B2	15	83328679	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2898820	83328679	19202713	3398	80563											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84566740	84566740	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgtgtcattcccatccCgtgttataaaccaaaaggta	14	11	7	9	1	1	1	1	0	0	1	3	1	3	1	3	1	1	2	3	1	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:84566740C>A	uc002bjz.3	+	14	1822	c.1598C>A	c.(1597-1599)CCG>CAG	p.P533Q	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.P533Q|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.P533Q	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	533	TSP type-1 3.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			ATTCCCATCCCGTGTTATAAA	0.423													33	100					6.53348e-20	6.8171e-20	1	1	0		A	84566740	A	A	84566740	3	1	151	1	0	0	0	0	1	0	0	0	276	652	23	5	1648	5	ADAMTSL3	15	84566740	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1238061	84566740	17964652	3399	80564											
ZSCAN2	54993	broad.mit.edu	37	chr15	85164847	85164847	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacacaggggagaaaccctAcgagtgcctgacatgtgggg	11	5	15	10	1	0	2	0	1	0	1	0	4	0	2	2	4	3	1	2	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:85164847A>G	uc002bkr.2	+	3	1647	c.1421A>G	c.(1420-1422)TAC>TGC	p.Y474C	ZSCAN2_uc010bmz.1_Missense_Mutation_p.Y472C|ZSCAN2_uc010bna.2_Missense_Mutation_p.Y324C|ZSCAN2_uc010uox.1_Intron|ZSCAN2_uc010uoy.1_Intron|ZSCAN2_uc010uoz.1_Intron	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	474	C2H2-type 10.				cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		GAGAAACCCTACGAGTGCCTG	0.562													15	59					0	0	1	0	0		G	85164847	G	G	85164847	3	3	151	1	0	0	0	0	1	0	0	0	18256	391	14	3	1517	3	ZSCAN2	15	85164847	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	598107	85164847	17366545	3400	80565											
ALPK3	57538	broad.mit.edu	37	chr15	85411579	85411579	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagggcacccggaagagTgctccaagttccaaggccac	10	5	11	15	1	1	1	1	0	0	1	3	2	3	2	5	3	1	3	5	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:85411579T>C	uc002ble.2	+	14	5783	c.5616T>C	c.(5614-5616)AGT>AGC	p.S1872S	ALPK3_uc010upc.1_Silent_p.S173S	NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1872					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CCCGGAAGAGTGCTCCAAGTT	0.617													12	44					0	0	1	0	0		C	85411579	C	C	85411579	2	2	151	1	0	0	0	0	0	0	0	1	546	1693	59	3		3	ALPK3	15	85411579	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	246732	85411579	17119813	3401	80566											
PDE8A	5151	broad.mit.edu	37	chr15	85664157	85664157	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccattttgtacaatgacActgctgtgctggagagccac	9	11	11	10	0	0	2	0	1	0	1	0	3	0	2	2	2	4	3	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:85664157A>G	uc002blh.2	+	18	2053	c.1864A>G	c.(1864-1866)ACT>GCT	p.T622A	PDE8A_uc002bli.2_Missense_Mutation_p.T576A|PDE8A_uc010bnc.2_Missense_Mutation_p.T375A|PDE8A_uc010bnd.2_Missense_Mutation_p.T375A|PDE8A_uc002blj.2_Missense_Mutation_p.T242A|PDE8A_uc002blk.2_Missense_Mutation_p.T242A|PDE8A_uc002bll.2_5'UTR	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	622	Catalytic (By similarity).				cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			GTACAATGACACTGCTGTGCT	0.483													19	90					0	0	1	0	0		G	85664157	G	G	85664157	3	3	151	1	0	0	0	0	1	0	0	0	11672	159	6	3	1934	3	PDE8A	15	85664157	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	252578	85664157	16867235	3402	80567											
AKAP13	11214	broad.mit.edu	37	chr15	86064750	86064750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttgggttccaccctccGtcactgtacaagtactcgga	8	13	8	12	2	1	0	1	0	0	0	4	1	3	1	3	2	2	3	3	2	3	5	rs142964345	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:86064750G>A	uc002blv.1	+	3	295	c.125G>A	c.(124-126)CGT>CAT	p.R42H	AKAP13_uc002bls.2_Missense_Mutation_p.R42H|AKAP13_uc002blt.1_Missense_Mutation_p.R42H|AKAP13_uc002blu.1_Missense_Mutation_p.R42H	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	42					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TCCACCCTCCGTCACTGTACA	0.428													52	249					0	0	1	0	0		A	86064750	A	A	86064750	3	1	151	1	0	0	0	0	1	0	0	0	449	1145	40	1	131	1	AKAP13	15	86064750	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	400593	86064750	16466642	3403	80568											
AKAP13	11214	broad.mit.edu	37	chr15	86278223	86278223	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtttcctttattccagTggagatccttcagggtttgg	6	16	11	8	0	1	1	1	0	0	1	4	2	4	1	3	3	0	3	3	3	1	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:86278223T>C	uc002blv.1	+	31	7453	c.7283T>C	c.(7282-7284)GTG>GCG	p.V2428A	AKAP13_uc002blu.1_Missense_Mutation_p.V2432A|AKAP13_uc002blw.1_Missense_Mutation_p.V893A|AKAP13_uc002blx.1_Missense_Mutation_p.V673A	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2428	Interaction with ESR1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TTTATTCCAGTGGAGATCCTT	0.468													17	437					0	0	1	0	0		C	86278223	C	C	86278223	3	2	151	1	0	0	0	0	1	0	0	0	449	1710	59	3	7471	3	AKAP13	15	86278223	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	213473	86278223	16253169	3404	80569											
AKAP13	11214	broad.mit.edu	37	chr15	86284281	86284281	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgtgcctcccagggtgTggtgctgcagcaggacagct	5	10	15	11	0	1	0	0	0	1	0	2	1	2	1	2	3	5	4	2	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:86284281T>C	uc002blv.1	+	35	7783	c.7613T>C	c.(7612-7614)GTG>GCG	p.V2538A	AKAP13_uc002blu.1_Missense_Mutation_p.V2542A|AKAP13_uc002blw.1_Missense_Mutation_p.V1003A|AKAP13_uc002blx.1_Missense_Mutation_p.V783A	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2538	Interaction with ESR1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TCCCAGGGTGTGGTGCTGCAG	0.647													4	41					0	0	1	0	0		C	86284281	C	C	86284281	3	2	151	1	0	0	0	0	1	0	0	0	449	1696	59	3	7817	3	AKAP13	15	86284281	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6058	86284281	16247111	3405	80570											
HAPLN3	145864	broad.mit.edu	37	chr15	89421322	89421322	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaccacagggtagcggAcgctaccatctgccagccag	10	5	13	13	2	1	1	0	1	1	0	1	2	1	2	4	3	5	2	4	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:89421322A>G	uc002bnc.2	-	5	1090	c.962T>C	c.(961-963)GTC>GCC	p.V321A	HAPLN3_uc002bne.2_RNA|HAPLN3_uc002bnd.2_Missense_Mutation_p.V383A	NM_178232	NP_839946	Q96S86	HPLN3_HUMAN	hyaluronan and proteoglycan link protein 3	321	Link 2.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	Lung NSC(78;0.0392)|all_lung(78;0.077)					AGGGTAGCGGACGCTACCATC	0.637													13	45					0	0	1	0	0		G	89421322	G	G	89421322	3	3	151	1	0	0	0	0	1	0	0	0	6972	275	10	3	124	3	HAPLN3	15	89421322	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3137041	89421322	13110070	3406	80571											
RHCG	51458	broad.mit.edu	37	chr15	90021067	90021067	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccttgcctggggcacttaCggtcaggtatacaaaaccca	10	8	9	14	1	1	0	1	0	0	0	1	0	1	0	4	4	4	2	4	4	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:90021067C>T	uc002bnz.2	-	6	999	c.975_splice	c.e6+1	p.T325_splice	RHCG_uc002bny.2_Splice_Site_p.T96_splice|RHCG_uc002boa.2_Splice_Site|RHCG_uc010bnq.1_Missense_Mutation_p.V210I	NM_016321	NP_057405	Q9UBD6	RHCG_HUMAN	Rh family, C glycoprotein						amine transport|cellular ion homeostasis|epithelial cell differentiation|transepithelial ammonium transport	apical plasma membrane|basolateral plasma membrane|cytoplasmic vesicle|integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			kidney(1)	1	Lung NSC(78;0.0237)|all_lung(78;0.0478)					GGGGCACTTACGGTCAGGTAT	0.587													6	35					0	0	1	0	0		T	90021067	T	T	90021067	5	4	151	1	0	0	0	0	0	0	1	0	13351	550	19	1	483	1	RHCG	15	90021067	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	599745	90021067	12510325	3407	80572											
RHCG	51458	broad.mit.edu	37	chr15	90026320	90026320	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagcaggttaaggagaatgAactcattcacagcgaagagg	15	8	12	6	1	2	3	2	1	0	2	2	5	2	3	0	3	3	2	0	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:90026320A>G	uc002bnz.2	-	3	524	c.500T>C	c.(499-501)TTC>TCC	p.F167S	RHCG_uc002boa.2_RNA|RHCG_uc010bnq.1_Missense_Mutation_p.F51S	NM_016321	NP_057405	Q9UBD6	RHCG_HUMAN	Rh family, C glycoprotein	167	Helical; (Potential).				amine transport|cellular ion homeostasis|epithelial cell differentiation|transepithelial ammonium transport	apical plasma membrane|basolateral plasma membrane|cytoplasmic vesicle|integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			kidney(1)	1	Lung NSC(78;0.0237)|all_lung(78;0.0478)					AAGGAGAATGAACTCATTCAC	0.532													8	45					0	0	1	0	0		G	90026320	G	G	90026320	3	3	151	1	0	0	0	0	1	0	0	0	13351	246	9	3	971	3	RHCG	15	90026320	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5253	90026320	12505072	3408	80573											
C15orf42	90381	broad.mit.edu	37	chr15	90167812	90167812	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagactctagagatgaccAgaagggactgagcctctctc	12	7	10	12	0	2	5	0	2	2	3	4	7	2	6	2	1	1	0	2	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:90167812A>G	uc002boe.2	+	20	4271	c.4271A>G	c.(4270-4272)CAG>CGG	p.Q1424R	C15orf42_uc010upv.1_RNA	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1424					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			AGAGATGACCAGAAGGGACTG	0.597													25	113					0	0	1	0	0		G	90167812	G	G	90167812	3	3	151	1	0	0	0	0	1	0	0	0	1799	188	7	3	4349	3	C15orf42	15	90167812	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	141492	90167812	12363580	3409	80574											
KIF7	374654	broad.mit.edu	37	chr15	90171867	90171867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttccaggtcaagggtaacGgagcgtggaccaagtcccgc	9	7	14	11	3	1	0	1	0	0	0	3	2	3	2	3	4	2	2	3	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:90171867G>A	uc002bof.2	-	19	3892	c.3815C>T	c.(3814-3816)CCG>CTG	p.P1272L	KIF7_uc010upw.1_Missense_Mutation_p.P758L|C15orf42_uc010upv.1_Intron	NM_198525	NP_940927	Q2M1P5	KIF7_HUMAN	kinesin family member 7	1272					microtubule-based movement|negative regulation of smoothened signaling pathway|positive regulation of smoothened signaling pathway	cilium	ATP binding|microtubule motor activity|protein binding			ovary(2)|lung(1)	3	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			CAAGGGTAACGGAGCGTGGAC	0.697													14	54					0	0	1	0	0		A	90171867	A	A	90171867	3	1	151	1	0	0	0	0	1	0	0	0	8325	1116	39	1	220	1	KIF7	15	90171867	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4055	90171867	12359525	3410	80575											
ANPEP	290	broad.mit.edu	37	chr15	90346959	90346959	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcgggtgtggacagcgggtgGgaggaggccagtgcatccac	7	5	20	9	2	0	0	0	0	0	0	1	3	1	3	2	6	2	1	2	6	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:90346959G>T	uc002bop.3	-	8	1648	c.1356C>A	c.(1354-1356)TCC>TCA	p.S452S		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	452	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	ACAGCGGGTGGGAGGAGGCCA	0.607													7	26					5.18039e-06	5.25881e-06	1	1	0		T	90346959	T	T	90346959	2	4	151	1	0	0	0	0	0	0	0	1	710	1219	43	5		5	ANPEP	15	90346959	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	175092	90346959	12184433	3411	80576											
SEMA4B	10509	broad.mit.edu	37	chr15	90766816	90766816	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagggtggagagcgggtgcTacagcagcgctggacctcct	7	7	17	10	2	0	2	0	1	0	1	1	4	1	3	2	4	5	3	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:90766816T>C	uc002boy.2	+	9	1170	c.887T>C	c.(886-888)CTA>CCA	p.L296P	SEMA4B_uc002boz.2_Missense_Mutation_p.L296P|SEMA4B_uc010uqd.1_Missense_Mutation_p.L134P|SEMA4B_uc002bpa.2_Missense_Mutation_p.L134P|SEMA4B_uc010bnv.1_5'UTR	NM_020210	NP_064595			semaphorin 4B precursor											ovary(1)|breast(1)|kidney(1)	3	Melanoma(11;0.00551)|Lung NSC(78;0.0125)|all_lung(78;0.0272)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.217)			GAGCGGGTGCTACAGCAGCGC	0.642													7	25					0	0	1	0	0		C	90766816	C	C	90766816	3	2	151	1	0	0	0	0	1	0	0	0	14057	1522	53	3	917	3	SEMA4B	15	90766816	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	419857	90766816	11764576	3412	80577											
NGRN	51335	broad.mit.edu	37	chr15	90808954	90808954	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgcgtcgacatggcggttAccctgagtctcttgctgggc	4	13	13	11	3	1	1	0	1	1	0	3	2	1	1	1	3	3	2	1	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:90808954A>G	uc002bpf.1	+	1	60	c.10A>G	c.(10-12)ACC>GCC	p.T4A	TTLL13_uc002bpe.1_Intron|NGRN_uc002bpg.1_5'UTR	NM_001033088	NP_001028260	Q9NPE2	NGRN_HUMAN	neugrin	4					neuron differentiation	extracellular region|nucleus				large_intestine(2)|ovary(1)	3	Melanoma(11;0.00551)|Lung NSC(78;0.0178)|all_lung(78;0.0378)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|BRCA - Breast invasive adenocarcinoma(143;0.0323)|Kidney(142;0.0514)			CATGGCGGTTACCCTGAGTCT	0.687													3	7					0	0	1	0	0		G	90808954	G	G	90808954	3	3	151	1	0	0	0	0	1	0	0	0	10418	391	14	3	12	3	NGRN	15	90808954	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	42138	90808954	11722438	3413	80578											
IQGAP1	8826	broad.mit.edu	37	chr15	90972889	90972889	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgccatggatgagattggAttgcctaaggtaacttacct	12	12	10	7	0	0	1	0	1	0	1	0	4	0	3	3	3	4	1	3	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:90972889A>G	uc002bpl.1	+	4	482	c.381A>G	c.(379-381)GGA>GGG	p.G127G		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	127	CH.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			ATGAGATTGGATTGCCTAAGG	0.378													32	122					0	0	1	0	0		G	90972889	G	G	90972889	2	3	151	1	0	0	0	0	0	0	0	1	7830	320	12	3		3	IQGAP1	15	90972889	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	163935	90972889	11558503	3414	80579											
IQGAP1	8826	broad.mit.edu	37	chr15	90984789	90984789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tattgaccgtagaattccagCcgacacatttgcagctttga	11	12	8	10	2	0	3	0	2	0	1	1	4	1	3	3	0	3	3	3	0	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:90984789C>T	uc002bpl.1	+	8	802	c.701C>T	c.(700-702)GCC>GTC	p.A234V		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	234					energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			AGAATTCCAGCCGACACATTT	0.368													28	111					0	0	1	0	0		T	90984789	T	T	90984789	3	4	151	1	0	0	0	0	1	0	0	0	7830	739	26	2	731	2	IQGAP1	15	90984789	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	11900	90984789	11546603	3415	80580											
FES	2242	broad.mit.edu	37	chr15	91435964	91435964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcgaagtgttcagcggaCgcctgcgagccgacaacacc	9	6	13	13	5	1	0	1	0	0	0	1	4	1	1	3	2	4	1	3	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:91435964C>T	uc002bpv.2	+	14	1831	c.1735C>T	c.(1735-1737)CGC>TGC	p.R579C	FES_uc010uqj.1_Missense_Mutation_p.R451C|FES_uc010uqk.1_Missense_Mutation_p.R561C|FES_uc002bpw.2_RNA|FES_uc010bny.2_Missense_Mutation_p.R451C|FES_uc002bpx.2_Missense_Mutation_p.R509C|FES_uc002bpy.2_Missense_Mutation_p.R521C	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	579	Protein kinase.				axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			GTTCAGCGGACGCCTGCGAGC	0.592													10	25					0	0	1	0	0		T	91435964	T	T	91435964	3	4	151	1	0	0	0	0	1	0	0	0	5834	536	19	1	1785	1	FES	15	91435964	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	451175	91435964	11095428	3416	80581											
FES	2242	broad.mit.edu	37	chr15	91437188	91437188	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctactcctccgaaagcgaCgtgtggagctttggcatctt	7	11	11	12	4	1	0	0	0	1	0	3	3	3	1	2	2	3	3	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:91437188C>T	uc002bpv.2	+	18	2322	c.2226C>T	c.(2224-2226)GAC>GAT	p.D742D	FES_uc010uqj.1_Silent_p.D614D|FES_uc010uqk.1_Silent_p.D724D|FES_uc002bpw.2_Intron|FES_uc010bny.2_Silent_p.D601D|FES_uc002bpx.2_Silent_p.D672D|FES_uc002bpy.2_Silent_p.D684D	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	742	Protein kinase.				axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			CCGAAAGCGACGTGTGGAGCT	0.652													71	221					0	0	1	0	0		T	91437188	T	T	91437188	2	4	151	1	0	0	0	0	0	0	0	1	5834	535	19	1		1	FES	15	91437188	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1224	91437188	11094204	3417	80582											
MAN2A2	4122	broad.mit.edu	37	chr15	91449168	91449168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggaggacccccggcggcGcttcctctgggcagaggtct	5	6	16	14	3	2	1	0	0	2	1	3	3	3	3	3	6	0	3	3	6	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:91449168G>A	uc010bnz.2	+	5	744	c.629G>A	c.(628-630)CGC>CAC	p.R210H	MAN2A2_uc010boa.2_Missense_Mutation_p.R252H|MAN2A2_uc002bqc.2_Missense_Mutation_p.R210H|MAN2A2_uc010uql.1_5'Flank|MAN2A2_uc010uqm.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	210	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			CCCCGGCGGCGCTTCCTCTGG	0.572													8	27					0	0	1	0	0		A	91449168	A	A	91449168	3	1	151	1	0	0	0	0	1	0	0	0	9233	1087	38	1	643	1	MAN2A2	15	91449168	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	11980	91449168	11082224	3418	80583											
UNC45A	55898	broad.mit.edu	37	chr15	91493834	91493834	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaacctggctgggatcagCgagaggctccggtaaggtcc	10	6	14	11	2	1	1	1	0	0	1	3	3	3	2	3	5	2	3	3	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:91493834C>T	uc002bqg.2	+	17	2632	c.2292C>T	c.(2290-2292)AGC>AGT	p.S764S	UNC45A_uc002bqd.2_Silent_p.S749S|UNC45A_uc010uqr.1_Silent_p.S156S|UNC45A_uc002bqi.2_Silent_p.S42S	NM_018671	NP_061141	Q9H3U1	UN45A_HUMAN	smooth muscle cell associated protein-1 isoform	764					cell differentiation|muscle organ development	nucleus|perinuclear region of cytoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			CTGGGATCAGCGAGAGGCTCC	0.592													5	26					0	0	1	0	0		T	91493834	T	T	91493834	2	4	151	1	0	0	0	0	0	0	0	1	17014	767	27	1		1	UNC45A	15	91493834	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	44666	91493834	11037558	3419	80584											
NR2F2	7026	broad.mit.edu	37	chr15	96877521	96877521	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaactggccgcgaggatgcTcttcagcgccgtcgagtggg	6	7	16	12	6	2	0	1	0	1	0	3	4	2	1	2	3	3	1	2	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:96877521T>C	uc010uri.1	+	2	1883	c.659T>C	c.(658-660)CTC>CCC	p.L220P	NR2F2_uc002btp.2_Missense_Mutation_p.L87P|NR2F2_uc010urj.1_Missense_Mutation_p.L67P|NR2F2_uc010urk.1_Missense_Mutation_p.L67P	NM_021005	NP_066285	P24468	COT2_HUMAN	nuclear receptor subfamily 2, group F, member 2	220	Interaction with ZFPM2 (By similarity).|Ligand-binding (By similarity).				lipid metabolic process|negative regulation of cyclin-dependent protein kinase activity|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment	nucleus	ligand-regulated transcription factor activity|protein homodimerization activity|retinoic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(1)	3	Lung NSC(78;0.0186)|Melanoma(26;0.0195)|all_lung(78;0.0297)		OV - Ovarian serous cystadenocarcinoma(32;0.0856)			GCGAGGATGCTCTTCAGCGCC	0.627													29	135					0	0	1	0	0		C	96877521	C	C	96877521	3	2	151	1	0	0	0	0	1	0	0	0	10647	1551	54	3	712	3	NR2F2	15	96877521	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5383687	96877521	5653871	3420	80585											
FAM169B	283777	broad.mit.edu	37	chr15	99029181	99029181	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatcttccgtggagcaccaGgattcctttatgtaaacagc	10	11	9	11	1	1	0	0	0	1	0	3	2	3	2	3	2	3	3	3	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:99029181G>T	uc002buk.1	-	3	196	c.-54C>A	c.(-56--52)TCCTG>TCATG			NM_182562	NP_872368	Q8N8A8	F169B_HUMAN	hypothetical protein LOC283777												0						TGGAGCACCAGGATTCCTTTA	0.458													15	85					1.37285e-15	1.42806e-15	1	1	0		T	99029181	T	T	99029181	1	4	151	1	0	0	0	0	0	0	0	0	5499	1015	35	5		5	FAM169B	15	99029181	Translation_Start_Site	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2151660	99029181	3502211	3421	80586											
ADAMTS17	170691	broad.mit.edu	37	chr15	100589167	100589167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggtcttgttgacaatcCgtgtacacgagacgatggtt	8	14	12	7	3	1	2	0	1	1	1	2	4	2	2	1	2	1	3	1	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:100589167C>T	uc002bvv.1	-	18	2565	c.2486G>A	c.(2485-2487)CGG>CAG	p.R829Q		NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	829	TSP type-1 2.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		GTTGACAATCCGTGTACACGA	0.597													23	99					0	0	1	0	0		T	100589167	T	T	100589167	3	4	151	1	0	0	0	0	1	0	0	0	262	652	23	1	821	1	ADAMTS17	15	100589167	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1559986	100589167	1942225	3422	80587											
LRRK1	79705	broad.mit.edu	37	chr15	101606897	101606897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaggattctggcgcccagCggggccgagtcattgccgtc	7	7	15	12	4	2	1	1	0	1	1	3	3	2	2	3	4	2	0	3	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:101606897C>T	uc002bwr.2	+	33	6140	c.5821C>T	c.(5821-5823)CGG>TGG	p.R1941W	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bws.2_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	1941					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGGCGCCCAGCGGGGCCGAGT	0.582													42	213					0	0	1	0	0		T	101606897	T	T	101606897	3	4	151	1	0	0	0	0	1	0	0	0	9050	759	27	1	5947	1	LRRK1	15	101606897	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1017730	101606897	924495	3423	80588											
PCSK6	5046	broad.mit.edu	37	chr15	101924598	101924598	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgggatgtcttcactagcAggtgctggacgtccctccag	6	9	13	13	2	2	0	1	0	1	0	4	2	4	2	3	3	2	2	3	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:101924598A>C	uc002bwy.2	-	11	1657	c.1343T>G	c.(1342-1344)CTG>CGG	p.L448R	PCSK6_uc010bpd.2_Intron|PCSK6_uc010bpe.2_Missense_Mutation_p.L448R|PCSK6_uc002bxa.2_Missense_Mutation_p.L448R|PCSK6_uc002bxb.2_Missense_Mutation_p.L448R|PCSK6_uc002bxc.1_Missense_Mutation_p.L448R|PCSK6_uc002bxd.1_Missense_Mutation_p.L448R|PCSK6_uc002bxe.2_Missense_Mutation_p.L448R|PCSK6_uc002bxg.1_Missense_Mutation_p.L448R|PCSK6_uc002bxf.1_5'Flank	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	448	Catalytic.				glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CTTCACTAGCAGGTGCTGGAC	0.592													4	21					0	0	1	0	0		C	101924598	C	C	101924598	3	2	151	1	0	0	0	0	1	0	0	0	11623	188	7	5	2097	5	PCSK6	15	101924598	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	317701	101924598	606794	3424	80589											
PCSK6	5046	broad.mit.edu	37	chr15	101933449	101933449	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaaaggccccactgctgtAggtggtggccagggtggagg	9	7	17	8	0	0	0	0	0	0	0	0	1	0	1	3	7	1	2	3	7	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:101933449A>G	uc002bwy.2	-	9	1491	c.1177T>C	c.(1177-1179)TAC>CAC	p.Y393H	PCSK6_uc010bpd.2_Missense_Mutation_p.Y263H|PCSK6_uc010bpe.2_Missense_Mutation_p.Y393H|PCSK6_uc002bxa.2_Missense_Mutation_p.Y393H|PCSK6_uc002bxb.2_Missense_Mutation_p.Y393H|PCSK6_uc002bxc.1_Missense_Mutation_p.Y393H|PCSK6_uc002bxd.1_Missense_Mutation_p.Y393H|PCSK6_uc002bxe.2_Missense_Mutation_p.Y393H|PCSK6_uc002bxg.1_Missense_Mutation_p.Y393H	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	393	Catalytic.				glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CCACTGCTGTAGGTGGTGGCC	0.537													4	24					0	0	1	0	0		G	101933449	G	G	101933449	3	3	151	1	0	0	0	0	1	0	0	0	11623	420	15	3	2271	3	PCSK6	15	101933449	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	8851	101933449	597943	3425	80590											
TARSL2	123283	broad.mit.edu	37	chr15	102197159	102197159	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgagccagctgtgcattTcgtattttcttatttagtgt	7	19	8	7	1	1	1	0	1	1	0	2	1	1	1	1	0	4	3	1	0	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:102197159T>C	uc002bxm.2	-	18	2281	c.2226A>G	c.(2224-2226)CGA>CGG	p.R742R	TARSL2_uc002bxl.2_3'UTR|TARSL2_uc010usi.1_RNA	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2	742					threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GCTGTGCATTTCGTATTTTCT	0.318													18	67					0	0	1	0	0		C	102197159	C	C	102197159	2	2	151	1	0	0	0	0	0	0	0	1	15586	1770	62	3		3	TARSL2	15	102197159	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	263710	102197159	334233	3426	80591											
OR4F6	390648	broad.mit.edu	37	chr15	102346378	102346378	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcatttcctggattataggTattattcactcagtgattca	10	17	7	7	0	4	1	4	1	0	0	5	2	5	2	1	2	0	1	1	2	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr15:102346378T>C	uc010utr.1	+	1	456	c.456T>C	c.(454-456)GGT>GGC	p.G152G		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			GGATTATAGGTATTATTCACT	0.393													113	411					0	0	1	0	0		C	102346378	C	C	102346378	2	2	151	1	0	0	0	0	0	0	0	1	11085	1625	57	3		3	OR4F6	15	102346378	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	149219	102346378	185014	3427	80592											
RHBDF1	64285	broad.mit.edu	37	chr16	108423	108423	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaactcacaccactcacaGcggacaggatagacgtagaa	16	4	10	11	2	2	2	2	0	0	2	2	5	2	5	1	3	2	1	1	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:108423G>A	uc002cfl.3	-	21	2632	c.2484C>T	c.(2482-2484)CGC>CGT	p.R828R		NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	828	Lumenal (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				ACCACTCACAGCGGACAGGAT	0.577													31	156					0	0	1	0	0		A	108423	A	A	108423	2	1	151	1	0	0	0	0	0	0	0	1	13344	958	34	2		2	RHBDF1	16	108423	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08		108423	90246330	3428	80593											
AXIN1	8312	broad.mit.edu	37	chr16	364605	364605	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctctgctgctcgctgtcGttggcactggtggctggggc	2	11	17	11	2	1	0	0	0	1	0	3	0	1	0	0	6	2	7	0	6	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:364605G>A	uc002cgp.1	-	3	1134	c.957C>T	c.(955-957)AAC>AAT	p.N319N	AXIN1_uc002cgq.1_Silent_p.N319N	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	319	Interaction with TP53 (By similarity).				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				GCTCGCTGTCGTTGGCACTGG	0.627													6	36					0	0	1	0	0		A	364605	A	A	364605	2	1	151	1	0	0	0	0	0	0	0	1	1237	1136	40	1		1	AXIN1	16	364605	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	256182	364605	89990148	3429	80594											
RAB11FIP3	9727	broad.mit.edu	37	chr16	511444	511444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttggatcccagtgggctcgGcgtgatcagctttgaagact	7	11	13	10	2	1	3	1	2	0	1	3	4	2	4	1	3	1	2	1	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:511444G>A	uc002chf.2	+	2	1094	c.755G>A	c.(754-756)GGC>GAC	p.G252D		NM_014700	NP_055515	O75154	RFIP3_HUMAN	rab11-family interacting protein 3 isoform 1	252	EF-hand 2.|2 (Potential).				cell cycle|cytokinesis|endocytic recycling|protein transport	centrosome|cleavage furrow|midbody|recycling endosome membrane	ADP-ribosylation factor binding|calcium ion binding|protein homodimerization activity|Rab GTPase binding				0		Hepatocellular(16;0.0218)				AGTGGGCTCGGCGTGATCAGC	0.473													30	142					0	0	1	0	0		A	511444	A	A	511444	3	1	151	1	0	0	0	0	1	0	0	0	12920	1203	42	2	761	2	RAB11FIP3	16	511444	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	146839	511444	89843309	3430	80595											
PIGQ	9091	broad.mit.edu	37	chr16	624580	624580	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgccgtcttcgacacggTagcacgcagtgaggtgctct	6	9	14	12	4	2	1	0	1	2	0	3	2	2	1	1	3	3	5	1	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:624580T>C	uc002cho.2	+	2	608	c.506T>C	c.(505-507)GTA>GCA	p.V169A	PIGQ_uc010bqw.2_Missense_Mutation_p.V169A|PIGQ_uc002chm.2_Missense_Mutation_p.V169A|PIGQ_uc002chn.2_Missense_Mutation_p.V169A|PIGQ_uc010uui.1_Missense_Mutation_p.V183A	NM_148920	NP_683721	Q9BRB3	PIGQ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	169					C-terminal protein lipidation|carbohydrate metabolic process|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity			central_nervous_system(1)	1		Hepatocellular(780;0.00335)				TTCGACACGGTAGCACGCAGT	0.687													5	5					0	0	1	0	0		C	624580	C	C	624580	3	2	151	1	0	0	0	0	1	0	0	0	11915	1638	57	3	508	3	PIGQ	16	624580	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	113136	624580	89730173	3431	80596											
WDR90	197335	broad.mit.edu	37	chr16	701657	701657	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttctagtcctcctggggccGgggccacagcctctcccttg	3	10	12	16	1	2	0	0	0	2	0	5	0	4	0	6	4	1	1	6	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:701657G>A	uc002cii.1	+	8	804	c.750G>A	c.(748-750)CCG>CCA	p.P250P	WDR90_uc002cig.1_Silent_p.P250P|WDR90_uc002cih.1_Silent_p.P250P|WDR90_uc002cij.1_RNA	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	250										ovary(1)	1		Hepatocellular(780;0.0218)				TCCTGGGGCCGGGGCCACAGC	0.662													43	147					0	0	1	0	0		A	701657	A	A	701657	2	1	151	1	0	0	0	0	0	0	0	1	17363	1103	39	1		1	WDR90	16	701657	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	77077	701657	89653096	3432	80597											
MSLNL	401827	broad.mit.edu	37	chr16	825480	825480	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggaggccgcaccgtgaCgccaggttggccaagcagct	7	6	14	14	3	0	1	0	1	0	0	1	2	1	2	5	4	2	4	5	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:825480C>T	uc002cjz.1	-	5	1281	c.1281G>A	c.(1279-1281)GCG>GCA	p.A427A		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				breast(3)|ovary(1)	4						CGCACCGTGACGCCAGGTTGG	0.697													4	18					0	0	1	0	0		T	825480	T	T	825480	2	4	151	1	0	0	0	0	0	0	0	1	9900	523	19	1		1	MSLNL	16	825480	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	123823	825480	89529273	3433	80598											
CACNA1H	8912	broad.mit.edu	37	chr16	1262117	1262117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaggagaagcggctgcggCgcctagagaggaggcgcagg	10	2	21	8	4	0	3	0	0	0	3	0	7	0	4	1	6	2	2	1	6	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:1262117C>T	uc002cks.2	+	25	4986	c.4738C>T	c.(4738-4740)CGC>TGC	p.R1580C	CACNA1H_uc002ckt.2_Missense_Mutation_p.R1580C|CACNA1H_uc002cku.2_Missense_Mutation_p.R286C|CACNA1H_uc010brj.2_Missense_Mutation_p.R286C|CACNA1H_uc002ckv.2_Missense_Mutation_p.R286C	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1580	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	GCGGCTGCGGCGCCTAGAGAG	0.711													6	16					0	0	1	0	0		T	1262117	T	T	1262117	3	4	151	1	0	0	0	0	1	0	0	0	2548	768	27	1	4832	1	CACNA1H	16	1262117	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	436637	1262117	89092636	3434	80599											
TPSG1	25823	broad.mit.edu	37	chr16	1272025	1272025	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggcggccgcagccctcAccccagctcacagtgccagc	6	5	12	18	2	2	0	2	0	0	0	2	0	2	0	5	3	4	2	5	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:1272025A>G	uc002ckw.2	-	6	731	c.729T>C	c.(727-729)GGT>GGC	p.G243G		NM_012467	NP_036599	Q9NRR2	TRYG1_HUMAN	transmembrane tryptase preproprotein	243	Peptidase S1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity				0		Hepatocellular(780;0.00369)				CGCAGCCCTCACCCCAGCTCA	0.662													5	20					0	0	1	0	0		G	1272025	G	G	1272025	2	3	151	1	0	0	0	0	0	0	0	1	16452	146	6	3		3	TPSG1	16	1272025	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	9908	1272025	89082728	3435	80600											
BAIAP3	8938	broad.mit.edu	37	chr16	1394813	1394813	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcatcctcaatgtggAcgtcttcaccctgaccttcc	7	11	7	16	1	3	1	2	1	1	0	5	2	5	2	4	1	2	2	4	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:1394813A>G	uc002clk.1	+	20	1877	c.1877A>G	c.(1876-1878)GAC>GGC	p.D626G	BAIAP3_uc002clj.2_Missense_Mutation_p.D608G|BAIAP3_uc010uuz.1_Missense_Mutation_p.D591G|BAIAP3_uc010uva.1_Missense_Mutation_p.D563G|BAIAP3_uc010uvc.1_Missense_Mutation_p.D555G	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	626					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				CTCAATGTGGACGTCTTCACC	0.662													9	48					0	0	1	0	0		G	1394813	G	G	1394813	3	3	151	1	0	0	0	0	1	0	0	0	1305	275	10	3	1955	3	BAIAP3	16	1394813	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	122788	1394813	88959940	3436	80601											
IFT140	9742	broad.mit.edu	37	chr16	1652558	1652558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagggaagcaacccggaacGgcctctcgacgtgtgtatct	10	7	12	12	4	2	0	0	0	2	0	3	3	2	2	2	3	3	2	2	3	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:1652558G>A	uc002cmb.2	-	4	544	c.182C>T	c.(181-183)CCG>CTG	p.P61L		NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	61	WD 2.									ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				AACCCGGAACGGCCTCTCGAC	0.572													12	45					0	0	1	0	0		A	1652558	A	A	1652558	3	1	151	1	0	0	0	0	1	0	0	0	7572	1116	39	1	4318	1	IFT140	16	1652558	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	257745	1652558	88702195	3437	80602											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1797135	1797135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctccgtgccctcggccGccgtcacacccctcaacgag	6	6	8	21	5	2	0	2	0	0	0	5	1	4	0	7	1	2	0	7	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:1797135G>A	uc002cmk.2	+	6	970	c.850G>A	c.(850-852)GCC>ACC	p.A284T	MAPK8IP3_uc002cmj.1_RNA|MAPK8IP3_uc002cml.2_Missense_Mutation_p.A284T|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.A285T	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	284					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						GCCCTCGGCCGCCGTCACACC	0.662													8	39					0	0	1	0	0		A	1797135	A	A	1797135	3	1	151	1	0	0	0	0	1	0	0	0	9304	1087	38	1	872	1	MAPK8IP3	16	1797135	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	144577	1797135	88557618	3438	80603											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1812944	1812944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgccggcttcagccagcGccgcaaccatgccatgtgcc	7	6	10	18	3	1	0	1	0	0	0	1	0	1	0	6	1	6	2	6	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:1812944G>A	uc002cmk.2	+	16	1952	c.1832G>A	c.(1831-1833)CGC>CAC	p.R611H	MAPK8IP3_uc002cml.2_Missense_Mutation_p.R605H|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.R612H	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	611					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						TTCAGCCAGCGCCGCAACCAT	0.652													11	39					0	0	1	0	0		A	1812944	A	A	1812944	3	1	151	1	0	0	0	0	1	0	0	0	9304	1087	38	1	1910	1	MAPK8IP3	16	1812944	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	15809	1812944	88541809	3439	80604											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1818228	1818228	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatcccccacctctggggaGggcgcccgtcccgggggcat	5	5	14	17	3	1	0	0	0	1	0	3	1	3	1	5	5	0	1	5	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:1818228G>T	uc002cmk.2	+	30	3708	c.3588G>T	c.(3586-3588)GAG>GAT	p.E1196D	MAPK8IP3_uc002cml.2_Missense_Mutation_p.E1190D|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.E1197D	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	1196					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						CCTCTGGGGAGGGCGCCCGTC	0.662													24	87					2.4375e-19	2.54234e-19	1	1	0		T	1818228	T	T	1818228	3	4	151	1	0	0	0	0	1	0	0	0	9304	991	35	5	3722	5	MAPK8IP3	16	1818228	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	5284	1818228	88536525	3440	80605											
NUBP2	10101	broad.mit.edu	37	chr16	1836918	1836918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcttcctgctggagaagcCggacgaggccgtggtgtgga	6	7	19	9	3	0	1	0	0	0	1	1	5	1	3	3	6	2	2	3	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:1836918C>T	uc002cmw.3	+	3	385	c.296C>T	c.(295-297)CCG>CTG	p.P99L	NUBP2_uc002cmx.3_Intron|NUBP2_uc010brx.2_Missense_Mutation_p.P39L	NM_012225	NP_036357	Q9Y5Y2	NUBP2_HUMAN	nucleotide binding protein 2 (MinD homolog, E.	99						microtubule organizing center|nucleus	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding|protein binding				0						CTGGAGAAGCCGGACGAGGCC	0.687													6	22					0	0	1	0	0		T	1836918	T	T	1836918	3	4	151	1	0	0	0	0	1	0	0	0	10735	652	23	1	306	1	NUBP2	16	1836918	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	18690	1836918	88517835	3441	80606											
IGFALS	3483	broad.mit.edu	37	chr16	1842147	1842147	+	Frame_Shift_Del	DEL	G	-	-																															agaggttctggaaggctgccGgggggacggacgagaggttg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:1842147delG	uc002cmy.2	-	2	353	c.272delC	c.(271-273)CCGfs	p.P91fs	IGFALS_uc010uvn.1_Frame_Shift_Del_p.P129fs|IGFALS_uc010uvo.1_5'UTR	NM_004970	NP_004961	P35858	ALS_HUMAN	insulin-like growth factor binding protein, acid	91	LRR 1.				cell adhesion|signal transduction	soluble fraction	insulin-like growth factor binding				0						GAAGGCTGCCGGGGGGACGGA	0.682													7	15	---	---	---	---						.	-	1842147	-	-	1842147	7	5	151	1	0	1	0	1	0	0	0	0	7593	1116	39	0	1549	0	IGFALS	16	1842147	Frame_Shift_Del	DEL	G	TCGA-CG-5721-01A-11D-1600-08	5229	1842147	88512606	3442	80607											
RNF151	146310	broad.mit.edu	37	chr16	2018579	2018579	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggaccctggcagagcacCggcagcattgccagcaaggg	9	4	16	12	1	0	1	0	0	0	1	0	2	0	2	3	4	4	5	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:2018579C>A	uc002cnt.1	+	4	399	c.391C>A	c.(391-393)CGG>AGG	p.R131R		NM_174903	NP_777563	Q2KHN1	RN151_HUMAN	ring finger protein 151	131	TRAF-type.				cell differentiation|spermatogenesis	cytoplasm|nucleus	ubiquitin-protein ligase activity|zinc ion binding				0						GGCAGAGCACCGGCAGCATTG	0.706													3	11					0.115264	0.115583	1	1	0		A	2018579	A	A	2018579	2	1	151	1	0	0	0	0	0	0	0	1	13477	643	23	5		5	RNF151	16	2018579	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	176432	2018579	88336174	3443	80608											
ZNF598	90850	broad.mit.edu	37	chr16	2048327	2048327	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggcatcgccatgcgcgAgcacctgctggcaggtgggg	5	7	17	12	3	0	0	0	0	0	0	1	1	0	0	2	5	4	5	2	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:2048327A>G	uc002cof.1	-	14	2636	c.2621T>C	c.(2620-2622)CTC>CCC	p.L874P	ZNF598_uc002coe.1_Missense_Mutation_p.L238P	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	874						intracellular	zinc ion binding			lung(1)|breast(1)	2						GCCATGCGCGAGCACCTGCTG	0.667													15	68					0	0	1	0	0		G	2048327	G	G	2048327	3	3	151	1	0	0	0	0	1	0	0	0	18053	304	11	3	97	3	ZNF598	16	2048327	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	29748	2048327	88306426	3444	80609											
PKD1	5310	broad.mit.edu	37	chr16	2153699	2153699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggctccgcgggtccgagcGcttgccctgggccacgatct	4	7	14	16	5	1	0	0	0	1	0	3	2	3	0	4	3	2	2	4	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:2153699G>A	uc002cos.1	-	23	8568	c.8359C>T	c.(8359-8361)CGC>TGC	p.R2787C	PKD1_uc002cot.1_Missense_Mutation_p.R2787C|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2787	Extracellular (Potential).|REJ.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GGGTCCGAGCGCTTGCCCTGG	0.701													9	23					0	0	1	0	0		A	2153699	A	A	2153699	3	1	151	1	0	0	0	0	1	0	0	0	11982	1087	38	1	4648	1	PKD1	16	2153699	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	105372	2153699	88201054	3445	80610											
CASKIN1	57524	broad.mit.edu	37	chr16	2237034	2237034	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggtcgtaattgttgcaaTaatccttggtcgcccggacc	8	12	10	11	3	1	0	1	0	0	0	4	1	2	1	3	3	1	3	3	3	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:2237034T>A	uc010bsg.1	-	9	907	c.875A>T	c.(874-876)TAT>TTT	p.Y292F		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	292	SH3.				signal transduction	cytoplasm				skin(2)	2						ATTGTTGCAATAATCCTTGGT	0.657													16	58					0	0	1	0	0		A	2237034	A	A	2237034	3	1	151	1	0	0	0	0	1	0	0	0	2669	1406	49	5	3468	5	CASKIN1	16	2237034	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	83335	2237034	88117719	3446	80611											
C16orf79	283870	broad.mit.edu	37	chr16	2259973	2259973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggtatccaccagcagcCgcagggtctcccgatcactg	8	7	12	14	2	2	0	1	0	1	0	4	2	3	1	4	3	2	3	4	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:2259973C>T	uc010bsh.2	-	4	593	c.416G>A	c.(415-417)CGG>CAG	p.R139Q	C16orf79_uc002cpi.1_Missense_Mutation_p.R139Q	NM_182563	NP_872369	Q6PL45	CP079_HUMAN	hypothetical protein LOC283870	139	BRICHOS.					integral to membrane				central_nervous_system(1)	1						CACCAGCAGCCGCAGGGTCTC	0.672													5	10					0	0	1	0	0		T	2259973	T	T	2259973	3	4	151	1	0	0	0	0	1	0	0	0	1839	652	23	1	282	1	C16orf79	16	2259973	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	22939	2259973	88094780	3447	80612											
E4F1	1877	broad.mit.edu	37	chr16	2278379	2278379	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctcgttgcagatgaggAcgatgtgcacagatgcggcc	9	7	15	10	3	0	3	0	1	0	2	1	5	0	4	1	3	3	4	1	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:2278379A>G	uc002cpm.2	+	2	212	c.164A>G	c.(163-165)GAC>GGC	p.D55G	E4F1_uc010bsi.2_Missense_Mutation_p.D55G|E4F1_uc010bsj.2_Missense_Mutation_p.D55G	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	55	Required for ubiquitin ligase activity.				cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						GCAGATGAGGACGATGTGCAC	0.627													8	29					0	0	1	0	0		G	2278379	G	G	2278379	3	3	151	1	0	0	0	0	1	0	0	0	4880	275	10	3	170	3	E4F1	16	2278379	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	18406	2278379	88076374	3448	80613											
ABCA3	21	broad.mit.edu	37	chr16	2369674	2369674	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagcaggggcagctggtActggatggccacgaggaagg	10	4	18	9	1	0	0	0	0	0	0	0	3	0	2	1	7	4	5	1	7	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:2369674A>G	uc002cpy.1	-	8	1493	c.781T>C	c.(781-783)TAC>CAC	p.Y261H	ABCA3_uc010bsk.1_Missense_Mutation_p.Y261H|ABCA3_uc010bsl.1_Missense_Mutation_p.Y261H	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	261	Helical; (Potential).				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				GGCAGCTGGTACTGGATGGCC	0.622													10	60					0	0	1	0	0		G	2369674	G	G	2369674	3	3	151	1	0	0	0	0	1	0	0	0	33	391	14	3	4437	3	ABCA3	16	2369674	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	91295	2369674	87985079	3449	80614											
NTN3	4917	broad.mit.edu	37	chr16	2522124	2522124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcaagtctcaggaccatgGccgcagctgggccccgctgg	6	6	14	15	2	2	0	2	0	1	0	3	1	2	1	4	4	1	4	4	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:2522124G>A	uc002cqj.2	+	1	625	c.422G>A	c.(421-423)GGC>GAC	p.G141D		NM_006181	NP_006172	O00634	NET3_HUMAN	netrin 3 precursor	141	Laminin N-terminal.				axon guidance|muscle cell differentiation|positive regulation of muscle cell differentiation	proteinaceous extracellular matrix				central_nervous_system(1)	1						CAGGACCATGGCCGCAGCTGG	0.672													11	48					0	0	1	0	0		A	2522124	A	A	2522124	3	1	151	1	0	0	0	0	1	0	0	0	10720	1203	42	2	424	2	NTN3	16	2522124	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	152450	2522124	87832629	3450	80615											
SRRM2	23524	broad.mit.edu	37	chr16	2816641	2816641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatctcgaacgccactgttaCcacgcaaacgttctcgaagt	11	9	8	13	5	2	0	0	0	2	0	4	3	2	0	2	0	3	3	2	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:2816641C>T	uc002crk.2	+	11	6661	c.6112C>T	c.(6112-6114)CCA>TCA	p.P2038S	SRRM2_uc002crj.1_Missense_Mutation_p.P1942S|SRRM2_uc002crl.1_Missense_Mutation_p.P2038S|SRRM2_uc010bsu.1_Missense_Mutation_p.P1942S	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2038	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GCCACTGTTACCACGCAAACG	0.597													12	29					0	0	1	0	0		T	2816641	T	T	2816641	3	4	151	1	0	0	0	0	1	0	0	0	15194	507	18	4	6150	4	SRRM2	16	2816641	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	294517	2816641	87538112	3451	80616											
PKMYT1	9088	broad.mit.edu	37	chr16	3026876	3026876	+	Frame_Shift_Del	DEL	G	-	-																															tgggaatgctgcccttggcaGggggcggaggtgggaggctc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:3026876delG	uc002csn.2	-	3	610	c.167delC	c.(166-168)CCTfs	p.P56fs	PKMYT1_uc010uwn.1_RNA|PKMYT1_uc002csm.2_Frame_Shift_Del_p.P56fs|PKMYT1_uc002cso.2_Intron|PKMYT1_uc002csp.2_Frame_Shift_Del_p.P47fs|PKMYT1_uc002csq.2_Frame_Shift_Del_p.P47fs|PKMYT1_uc010bsy.1_Frame_Shift_Del_p.P47fs	NM_004203	NP_004194	Q99640	PMYT1_HUMAN	protein kinase Myt1 isoform 1	56	Pro-rich.				G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis	endoplasmic reticulum membrane|Golgi membrane|membrane fraction|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1						GCCCTTGGCAGGGGGCGGAGG	0.701													4	5	---	---	---	---						.	-	3026876	-	-	3026876	7	5	151	1	0	1	0	1	0	0	0	0	11997	1000	35	0	1398	0	PKMYT1	16	3026876	Frame_Shift_Del	DEL	G	TCGA-CG-5721-01A-11D-1600-08	210235	3026876	87327877	3452	80617											
CLDN9	9080	broad.mit.edu	37	chr16	3063692	3063692	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtaccacgtgtgtggaggAcgaaggtgccaaggcccgta	9	7	16	9	3	0	0	0	0	0	0	0	3	0	2	3	4	2	2	3	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:3063692A>G	uc010uwo.1	+	1	1236	c.329A>G	c.(328-330)GAC>GGC	p.D110G		NM_020982	NP_066192	O95484	CLD9_HUMAN	claudin 9	110	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						TGTGTGGAGGACGAAGGTGCC	0.667													15	102					0	0	1	0	0		G	3063692	G	G	3063692	3	3	151	1	0	0	0	0	1	0	0	0	3495	275	10	3	331	3	CLDN9	16	3063692	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	36816	3063692	87291061	3453	80618											
ZSCAN10	84891	broad.mit.edu	37	chr16	3139421	3139421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggttggagctattgcGgaaacggtggccgcaggtgt	7	8	18	8	3	0	0	0	0	0	0	0	2	0	2	2	7	3	3	2	7	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:3139421G>A	uc002ctv.1	-	5	1937	c.1849C>T	c.(1849-1851)CGC>TGC	p.R617C	ZSCAN10_uc002cty.1_Missense_Mutation_p.R278C|ZSCAN10_uc002ctw.1_Missense_Mutation_p.R535C|ZSCAN10_uc002ctx.1_Missense_Mutation_p.R545C	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	617	C2H2-type 11.				negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GAGCTATTGCGGAAACGGTGG	0.701													9	13					0	0	1	0	0		A	3139421	A	A	3139421	3	1	151	1	0	0	0	0	1	0	0	0	18252	1116	39	1	332	1	ZSCAN10	16	3139421	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	75729	3139421	87215332	3454	80619											
MEFV	4210	broad.mit.edu	37	chr16	3297108	3297108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcctgggatacgcgggtgtCatatgccttcctgatctgcc	5	12	12	12	2	2	1	1	1	1	0	4	2	4	2	4	2	3	0	4	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:3297108C>T	uc002cun.1	-	5	1535	c.1495G>A	c.(1495-1497)GAC>AAC	p.D499N		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	499					inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	ACGCGGGTGTCATATGCCTTC	0.577													52	197					0	0	1	0	0		T	3297108	T	T	3297108	3	4	151	1	0	0	0	0	1	0	0	0	9477	826	29	4	874	4	MEFV	16	3297108	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	157687	3297108	87057645	3455	80620											
ZNF75A	7627	broad.mit.edu	37	chr16	3363138	3363138	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaggccctctacaatgaTgtaatgcaggaaaactatga	16	8	9	8	0	1	3	0	2	1	1	1	4	1	4	1	2	3	2	1	2	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:3363138T>C	uc002cut.3	+	4	589	c.63T>C	c.(61-63)GAT>GAC	p.D21D	ZNF75A_uc002cuv.3_Intron	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	21	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						TCTACAATGATGTAATGCAGG	0.408													18	92					0	0	1	0	0		C	3363138	C	C	3363138	2	2	151	1	0	0	0	0	0	0	0	1	18158	1461	51	3		3	ZNF75A	16	3363138	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	66030	3363138	86991615	3456	80621											
BTBD12	84464	broad.mit.edu	37	chr16	3640761	3640761	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcagtccctggaagggcTggagcagctggaatggccaa	9	6	16	10	0	0	0	0	0	0	0	1	3	1	3	2	6	2	4	2	6	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:3640761T>C	uc002cvp.2	-	12	3505	c.2878A>G	c.(2878-2880)AGC>GGC	p.S960G		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	960	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						CTGGAAGGGCTGGAGCAGCTG	0.637								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				16	84					0	0	1	0	0		C	3640761	C	C	3640761	3	2	151	1	0	0	0	0	1	0	0	0	1543	1580	55	3	2642	3	BTBD12	16	3640761	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	277623	3640761	86713992	3457	80622											
DNASE1	1773	broad.mit.edu	37	chr16	3707235	3707235	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggctgcagctatgtgagAccctcccagtggtcatccat	7	9	12	13	1	1	1	1	1	0	1	3	2	3	1	3	2	2	3	3	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:3707235A>G	uc002cvr.2	+	7	2704	c.597A>G	c.(595-597)AGA>AGG	p.R199R		NM_005223	NP_005214	P24855	DNAS1_HUMAN	deoxyribonuclease I precursor	199					apoptosis|DNA catabolic process	extracellular region|nuclear envelope	actin binding|deoxyribonuclease I activity				0		Ovarian(90;0.0261)		Kidney(780;0.0556)	Dornase Alfa(DB00003)	GCTATGTGAGACCCTCCCAGT	0.632								Direct_reversal_of_damage					14	52					0	0	1	0	0		G	3707235	G	G	3707235	2	3	151	1	0	0	0	0	0	0	0	1	4666	272	10	3		3	DNASE1	16	3707235	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	66474	3707235	86647518	3458	80623											
CREBBP	1387	broad.mit.edu	37	chr16	3828788	3828788	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcgatcctttagagctgcGggatcaggtgttgggaagat	8	10	16	7	3	1	2	1	0	0	2	2	5	2	4	1	4	2	2	1	4	2	3	rs61754522		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:3828788G>A	uc002cvv.2	-	9	2058	c.1854C>T	c.(1852-1854)CCC>CCT	p.P618P	CREBBP_uc002cvw.2_Silent_p.P580P	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	618	KIX.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TTAGAGCTGCGGGATCAGGTG	0.448			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				47	142					0	0	1	0	0		A	3828788	A	A	3828788	2	1	151	1	0	0	0	0	0	0	0	1	3864	1103	39	1		1	CREBBP	16	3828788	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	121553	3828788	86525965	3459	80624											
DNAJA3	9093	broad.mit.edu	37	chr16	4492327	4492327	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaacaaggagttcaccgTgaacatcatggacacgtgtg	12	8	12	9	2	3	1	3	1	0	0	3	3	3	3	1	3	2	1	1	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:4492327T>C	uc002cwk.2	+	5	714	c.689T>C	c.(688-690)GTG>GCG	p.V230A	DNAJA3_uc002cwl.2_Missense_Mutation_p.V230A|DNAJA3_uc010uxk.1_Missense_Mutation_p.V77A	NM_005147	NP_005138	Q96EY1	DNJA3_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 3	230	CR-type.				activation of caspase activity|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of cell proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|neuromuscular junction development|positive regulation of apoptosis|positive regulation of protein ubiquitination|protein folding|protein folding|protein stabilization|response to heat|response to interferon-gamma	cytosol|mitochondrial matrix|mitochondrial nucleoid|nucleus	ATP binding|heat shock protein binding|interferon-gamma receptor binding|metal ion binding|NF-kappaB binding|protein kinase binding			ovary(2)|breast(2)	4						GAGTTCACCGTGAACATCATG	0.532													20	78					0	0	1	0	0		C	4492327	C	C	4492327	3	2	151	1	0	0	0	0	1	0	0	0	4619	1696	59	3	707	3	DNAJA3	16	4492327	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	663539	4492327	85862426	3460	80625											
NMRAL1	57407	broad.mit.edu	37	chr16	4513759	4513759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccgatgttctggccgaCgtatttttctggcatcttca	6	14	9	12	3	4	0	1	0	3	0	4	2	4	0	2	2	1	3	2	2	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:4513759C>T	uc002cwm.2	-	5	778	c.622G>A	c.(622-624)GTC>ATC	p.V208I	NMRAL1_uc002cwn.2_Missense_Mutation_p.V208I|NMRAL1_uc002cwo.2_Missense_Mutation_p.V208I|NMRAL1_uc002cwp.2_Missense_Mutation_p.V244I	NM_020677	NP_065728	Q9HBL8	NMRL1_HUMAN	NmrA-like family domain containing 1	208						nucleus|perinuclear region of cytoplasm	binding			kidney(1)	1						TTCTGGCCGACGTATTTTTCT	0.602													19	48					0	0	1	0	0		T	4513759	T	T	4513759	3	4	151	1	0	0	0	0	1	0	0	0	10520	536	19	1	285	1	NMRAL1	16	4513759	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	21432	4513759	85840994	3461	80626											
UBN1	29855	broad.mit.edu	37	chr16	4911013	4911013	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatggaagtgattcccttggGgtgggattggaccaggaatt	9	11	16	5	0	0	1	0	1	0	0	1	6	1	5	2	6	0	0	2	6	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:4911013G>A	uc002cyb.2	+	7	1359	c.1020G>A	c.(1018-1020)GGG>GGA	p.G340G	UBN1_uc010uxw.1_Silent_p.G340G|UBN1_uc002cyc.2_Silent_p.G340G	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	340					chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						ATTCCCTTGGGGTGGGATTGG	0.572													15	58					0	0	1	0	0		A	4911013	A	A	4911013	2	1	151	1	0	0	0	0	0	0	0	1	16918	1219	43	4		4	UBN1	16	4911013	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	397254	4911013	85443740	3462	80627											
PPL	5493	broad.mit.edu	37	chr16	4933734	4933734	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccgcttgacggccacggagCccaggcgcttctgcagctcg	5	6	13	17	5	1	1	0	1	1	0	2	2	1	2	3	3	3	4	3	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:4933734C>G	uc002cyd.1	-	22	5012	c.4922G>C	c.(4921-4923)GGC>GCC	p.G1641A		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1641	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						GGCCACGGAGCCCAGGCGCTT	0.637													8	34					0	0	1	0	0		G	4933734	G	G	4933734	3	3	151	1	0	0	0	0	1	0	0	0	12356	739	26	5	352	5	PPL	16	4933734	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	22721	4933734	85421019	3463	80628											
CIITA	4261	broad.mit.edu	37	chr16	11001507	11001507	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaatgcttcctgggggccCtgtggctggctctgagtggc	3	11	16	11	0	1	1	0	1	1	0	2	1	2	1	2	5	2	4	2	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:11001507C>A	uc002dai.3	+	11	2291	c.2158C>A	c.(2158-2160)CTG>ATG	p.L720M	CIITA_uc002daj.3_Missense_Mutation_p.L721M|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Missense_Mutation_p.L720M|CIITA_uc002dah.2_Missense_Mutation_p.L672M|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	720	NACHT.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						CCTGGGGGCCCTGTGGCTGGC	0.622			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								22	78					1.22574e-08	1.25745e-08	1	1	0		A	11001507	A	A	11001507	3	1	151	1	0	0	0	0	1	0	0	0	3431	680	24	5	2200	5	CIITA	16	11001507	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	6067773	11001507	79353246	3464	80629											
SOCS1	8651	broad.mit.edu	37	chr16	11348957	11348957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccggcctgaaagtgcacgcGgatgctcgtgggtcccgagg	6	6	17	12	5	0	1	0	1	0	0	2	3	1	2	3	4	2	2	3	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:11348957G>A	uc002dar.1	-	2	533	c.379C>T	c.(379-381)CGC>TGC	p.R127C	C16orf75_uc002daq.1_Intron	NM_003745	NP_003736	O15524	SOCS1_HUMAN	suppressor of cytokine signaling 1	127	SH2.				interferon-gamma-mediated signaling pathway|JAK-STAT cascade|negative regulation of insulin receptor signaling pathway|negative regulation of tyrosine phosphorylation of Stat3 protein|regulation of growth|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol	insulin-like growth factor receptor binding|protein kinase binding|protein kinase inhibitor activity	p.Y64fs*1(1)|p.R127_*212del(1)		haematopoietic_and_lymphoid_tissue(64)|lung(3)|breast(1)|central_nervous_system(1)	69						AAGTGCACGCGGATGCTCGTG	0.687			F|O		Hodgkin Lymphoma|PMBL								3	12					0	0	1	0	0		A	11348957	A	A	11348957	3	1	151	1	0	0	0	0	1	0	0	0	14938	1116	39	1	260	1	SOCS1	16	11348957	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	347450	11348957	79005796	3465	80630											
ZC3H7A	29066	broad.mit.edu	37	chr16	11861389	11861389	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaaatatctttcttacacTtatgatctatgttagcatgg	12	18	5	6	0	3	1	0	1	3	0	3	1	3	1	0	1	2	2	0	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:11861389T>G	uc002dbk.2	-	12	1604	c.1406A>C	c.(1405-1407)AAG>ACG	p.K469T	ZC3H7A_uc002dbj.2_5'Flank|ZC3H7A_uc002dbl.2_Missense_Mutation_p.K469T|ZC3H7A_uc002dbm.1_Missense_Mutation_p.K379T	NM_014153	NP_054872	Q8IWR0	Z3H7A_HUMAN	zinc finger CCCH-type containing 7A	469						nucleus	nucleic acid binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						TTTCTTACACTTATGATCTAT	0.299													32	140					0	0	1	0	0		G	11861389	G	G	11861389	3	3	151	1	0	0	0	0	1	0	0	0	17597	1609	56	5	1553	5	ZC3H7A	16	11861389	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	512432	11861389	78493364	3466	80631											
ZC3H7A	29066	broad.mit.edu	37	chr16	11868834	11868834	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagatgatatgtgaaaacatAcctggctcaatatcttccac	15	11	6	9	0	2	3	1	2	1	1	3	3	3	3	2	1	2	1	2	1	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:11868834A>G	uc002dbk.2	-	7	817	c.619_splice	c.e7+1	p.D207_splice	ZC3H7A_uc002dbl.2_Splice_Site_p.D207_splice|ZC3H7A_uc002dbm.1_Splice_Site_p.D207_splice	NM_014153	NP_054872	Q8IWR0	Z3H7A_HUMAN	zinc finger CCCH-type containing 7A							nucleus	nucleic acid binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						GTGAAAACATACCTGGCTCAA	0.333													18	96					0	0	1	0	0		G	11868834	G	G	11868834	5	3	151	1	0	0	0	0	0	0	1	0	17597	405	14	3	2358	3	ZC3H7A	16	11868834	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	7445	11868834	78485919	3467	80632											
CPPED1	55313	broad.mit.edu	37	chr16	12798799	12798799	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggtctcggccgtgggggTgttgccaatgtcatggttgc	4	11	17	9	3	2	0	1	0	1	0	3	1	2	0	2	5	2	2	2	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:12798799T>C	uc002dca.3	-	3	508	c.397A>G	c.(397-399)ACC>GCC	p.T133A	CPPED1_uc002dcb.3_Intron|CPPED1_uc002dbz.3_RNA	NM_018340	NP_060810	Q9BRF8	CPPED_HUMAN	calcineurin-like phosphoesterase domain	133							hydrolase activity|metal ion binding				0						GCCGTGGGGGTGTTGCCAATG	0.627													16	58					0	0	1	0	0		C	12798799	C	C	12798799	3	2	151	1	0	0	0	0	1	0	0	0	3825	1696	59	3	555	3	CPPED1	16	12798799	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	929965	12798799	77555954	3468	80633											
MKL2	57496	broad.mit.edu	37	chr16	14354893	14354893	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaagtccaaatggcaccAcctgtatctttagaacctat	12	10	5	14	0	1	1	0	0	1	1	2	1	2	1	6	1	1	2	6	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:14354893A>G	uc010uza.1	+	17	3047	c.2892A>G	c.(2890-2892)CCA>CCG	p.P964P	MKL2_uc002dcg.2_Silent_p.P914P|MKL2_uc002dcj.2_Silent_p.P209P	NM_014048	NP_054767	Q9ULH7	MKL2_HUMAN	megakaryoblastic leukemia 2 protein	953					cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5						AAATGGCACCACCTGTATCTT	0.478													20	177					0	0	1	0	0		G	14354893	G	G	14354893	2	3	151	1	0	0	0	0	0	0	0	1	9620	146	6	3		3	MKL2	16	14354893	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1556094	14354893	75999860	3469	80634											
NTAN1	123803	broad.mit.edu	37	chr16	15132496	15132496	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaaatggtgtccaggagtAcggtcctatacgaagttgtt	10	12	13	6	2	0	0	0	0	0	0	2	3	2	2	2	4	2	3	2	4	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:15132496A>G	uc002ddd.2	-	9	693	c.688T>C	c.(688-690)TAC>CAC	p.Y230H	PDXDC1_uc002ddc.2_Intron|NTAN1_uc010uzo.1_Missense_Mutation_p.Y125H	NM_173474	NP_775745	Q96AB6	NTAN1_HUMAN	N-terminal Asn amidase	230						cytoplasm					0						GTCCAGGAGTACGGTCCTATA	0.373													43	167					0	0	1	0	0		G	15132496	G	G	15132496	3	3	151	1	0	0	0	0	1	0	0	0	10714	391	14	3	252	3	NTAN1	16	15132496	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	777603	15132496	75222257	3470	80635											
RRN3	54700	broad.mit.edu	37	chr16	15155702	15155702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggtgtgatcccaatcaCggtatcattctggggcactt	7	13	11	10	1	3	1	2	1	1	0	4	1	4	1	1	4	0	3	1	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:15155702C>T	uc002dde.2	-	18	1923	c.1855G>A	c.(1855-1857)GTG>ATG	p.V619M	PDXDC1_uc002ddc.2_Intron|RRN3_uc010uzp.1_Missense_Mutation_p.V487M|RRN3_uc010uzq.1_Missense_Mutation_p.V589M	NM_018427	NP_060897	Q9NYV6	RRN3_HUMAN	RRN3 RNA polymerase I transcription factor	619	Interaction with EIF3L.|Interaction with TWISTNB.				regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm				ovary(1)	1						ATCCCAATCACGGTATCATTC	0.493													29	81					0	0	1	0	0		T	15155702	T	T	15155702	3	4	151	1	0	0	0	0	1	0	0	0	13709	536	19	1	104	1	RRN3	16	15155702	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	23206	15155702	75199051	3471	80636											
KIAA0430	9665	broad.mit.edu	37	chr16	15725274	15725274	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggctggagcagtgtgtgTatttgcaaatctgcggagac	8	12	15	6	1	1	1	0	0	1	1	1	3	1	2	0	3	3	4	0	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:15725274T>C	uc002ddr.2	-	6	1508	c.1315A>G	c.(1315-1317)ACA>GCA	p.T439A	KIAA0430_uc002ddq.2_Missense_Mutation_p.T438A|KIAA0430_uc010uzv.1_Missense_Mutation_p.T435A|KIAA0430_uc010uzw.1_Missense_Mutation_p.T438A	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	438						peroxisome	nucleotide binding|RNA binding				0						GCAGTGTGTGTATTTGCAAAT	0.423													20	69					0	0	1	0	0		C	15725274	C	C	15725274	3	2	151	1	0	0	0	0	1	0	0	0	8193	1638	57	3	4004	3	KIAA0430	16	15725274	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	569572	15725274	74629479	3472	80637											
MYH11	4629	broad.mit.edu	37	chr16	15842010	15842010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctccagcaccaggaacgCatccagcttgccggactgca	9	6	10	16	2	0	0	0	0	0	0	2	2	2	2	4	2	6	5	4	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:15842010C>T	uc002ddy.2	-	17	2181	c.2074G>A	c.(2074-2076)GCG>ACG	p.A692T	MYH11_uc002ddv.2_Missense_Mutation_p.A699T|MYH11_uc002ddw.2_Missense_Mutation_p.A692T|MYH11_uc002ddx.2_Missense_Mutation_p.A699T|MYH11_uc010bvg.2_Missense_Mutation_p.A524T	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	692	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						ACCAGGAACGCATCCAGCTTG	0.617			T	CBFB	AML								13	62					0	0	1	0	0		T	15842010	T	T	15842010	3	4	151	1	0	0	0	0	1	0	0	0	10049	710	25	2	3979	2	MYH11	16	15842010	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	116736	15842010	74512743	3473	80638											
MYH11	4629	broad.mit.edu	37	chr16	15853509	15853509	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgggtcttgtccagggctTtgttcacgcgggtgagtatc	5	13	15	8	2	2	1	1	1	1	0	4	2	3	1	1	3	0	3	1	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:15853509T>C	uc002ddy.2	-	12	1432	c.1325A>G	c.(1324-1326)AAA>AGA	p.K442R	MYH11_uc002ddv.2_Missense_Mutation_p.K449R|MYH11_uc002ddw.2_Missense_Mutation_p.K442R|MYH11_uc002ddx.2_Missense_Mutation_p.K449R|MYH11_uc010bvg.2_Missense_Mutation_p.K274R|MYH11_uc002dea.1_Missense_Mutation_p.K148R	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	442	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						GTCCAGGGCTTTGTTCACGCG	0.552			T	CBFB	AML								31	108					0	0	1	0	0		C	15853509	C	C	15853509	3	2	151	1	0	0	0	0	1	0	0	0	10049	1841	64	3	4748	3	MYH11	16	15853509	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	11499	15853509	74501244	3474	80639											
XYLT1	64131	broad.mit.edu	37	chr16	17211735	17211735	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtcacggtcacattaggTcccttcccccacttctgcat	7	11	7	16	2	3	0	2	0	1	0	5	0	5	0	3	3	1	1	3	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:17211735T>A	uc002dfa.2	-	11	2410	c.2325A>T	c.(2323-2325)GGA>GGT	p.G775G		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	775	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						TCACATTAGGTCCCTTCCCCC	0.562													18	60					0	0	1	0	0		A	17211735	A	A	17211735	2	1	151	1	0	0	0	0	0	0	0	1	17489	1654	58	5		5	XYLT1	16	17211735	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1358226	17211735	73143018	3475	80640											
XYLT1	64131	broad.mit.edu	37	chr16	17292097	17292097	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtcggccgcactcaggtTgatgaagaagtcccagggcc	9	7	14	11	2	1	3	1	2	0	1	3	3	2	3	3	3	0	3	3	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:17292097T>C	uc002dfa.2	-	5	1346	c.1261A>G	c.(1261-1263)AAC>GAC	p.N421D		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	421	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						GCACTCAGGTTGATGAAGAAG	0.617													19	43					0	0	1	0	0		C	17292097	C	C	17292097	3	2	151	1	0	0	0	0	1	0	0	0	17489	1812	63	3	1650	3	XYLT1	16	17292097	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	80362	17292097	73062656	3476	80641											
SMG1	23049	broad.mit.edu	37	chr16	18859270	18859270	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatcctgagatgcaggaggActtcctccctcacattcaga	10	10	8	13	0	2	2	2	1	0	2	5	5	5	4	3	2	1	1	3	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:18859270A>G	uc002dfm.2	-	37	6072	c.5709T>C	c.(5707-5709)AGT>AGC	p.S1903S	SMG1_uc010bwb.2_Silent_p.S1763S|SMG1_uc010bwa.2_Silent_p.S634S|SMG1_uc002dfo.3_Silent_p.S201S	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	1903	Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						ATGCAGGAGGACTTCCTCCCT	0.383													36	122					0	0	1	0	0		G	18859270	G	G	18859270	2	3	151	1	0	0	0	0	0	0	0	1	14820	272	10	3		3	SMG1	16	18859270	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1567173	18859270	71495483	3477	80642											
SMG1	23049	broad.mit.edu	37	chr16	18863428	18863428	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacacagcctgtccaagaatAccatatattctctctttctc	11	13	3	14	0	3	1	0	0	3	1	6	1	4	1	3	0	2	0	3	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:18863428A>G	uc002dfm.2	-	33	5376	c.5013T>C	c.(5011-5013)GGT>GGC	p.G1671G	SMG1_uc010bwb.2_Silent_p.G1531G|SMG1_uc010bwa.2_Silent_p.G402G|SMG1_uc002dfo.3_5'Flank	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	1671	FAT.|Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						GTCCAAGAATACCATATATTC	0.448													20	89					0	0	1	0	0		G	18863428	G	G	18863428	2	3	151	1	0	0	0	0	0	0	0	1	14820	378	14	3		3	SMG1	16	18863428	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4158	18863428	71491325	3478	80643											
COQ7	10229	broad.mit.edu	37	chr16	19089418	19089418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaggctccagcctatgccGtcctgaagagcattatccag	11	8	9	13	1	0	2	0	1	0	1	3	2	3	2	5	1	4	2	5	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:19089418G>A	uc002dfr.2	+	6	652	c.592G>A	c.(592-594)GTC>ATC	p.V198I	COQ7_uc002dfs.2_Missense_Mutation_p.V184I	NM_016138	NP_057222	Q99807	COQ7_HUMAN	COQ7 protein	198	2.|2 X approximate tandem repeats.				ubiquinone biosynthetic process	mitochondrial inner membrane|nucleus	oxidoreductase activity|transition metal ion binding			skin(1)	1						AGCCTATGCCGTCCTGAAGAG	0.423													13	63					0	0	1	0	0		A	19089418	A	A	19089418	3	1	151	1	0	0	0	0	1	0	0	0	3753	1145	40	1	614	1	COQ7	16	19089418	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	225990	19089418	71265335	3479	80644											
C16orf62	57020	broad.mit.edu	37	chr16	19613036	19613036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgtggatagccgcagcGtcttaccaggtaatgtcgca	8	11	13	9	3	1	0	0	0	1	0	2	1	1	1	2	2	3	3	2	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:19613036G>A	uc002dgn.1	+	9	787	c.775G>A	c.(775-777)GTC>ATC	p.V259I	C16orf62_uc002dgo.1_Missense_Mutation_p.V259I|C16orf62_uc002dgp.1_Missense_Mutation_p.V8I|C16orf62_uc010vas.1_Missense_Mutation_p.V133I|C16orf62_uc002dgm.1_Missense_Mutation_p.V259I	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	259						integral to membrane				ovary(1)	1						TAGCCGCAGCGTCTTACCAGG	0.483											OREG0023661	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	65					0	0	1	0	0		A	19613036	A	A	19613036	3	1	151	1	0	0	0	0	1	0	0	0	1828	1145	40	1	809	1	C16orf62	16	19613036	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	523618	19613036	70741717	3480	80645											
GPRC5B	51704	broad.mit.edu	37	chr16	19884072	19884072	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcccacagcctcgggatgtGctggcgttttcagaggccac	7	8	13	13	2	1	1	1	0	0	1	2	2	1	2	3	3	3	2	3	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:19884072G>A	uc002dgt.2	-	2	204	c.96C>T	c.(94-96)AGC>AGT	p.S32S	GPRC5B_uc010vav.1_Silent_p.S58S	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	32	Extracellular (Potential).									lung(1)|breast(1)|skin(1)	3						CTCGGGATGTGCTGGCGTTTT	0.617													18	80					0	0	1	0	0		A	19884072	A	A	19884072	2	1	151	1	0	0	0	0	0	0	0	1	6741	1310	46	2		2	GPRC5B	16	19884072	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	271036	19884072	70470681	3481	80646											
GP2	2813	broad.mit.edu	37	chr16	20325983	20325983	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaaatgatgtacctgcAgtgctaggggttccattcat	11	12	11	7	0	1	2	1	2	0	1	2	3	2	2	2	2	3	4	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:20325983A>G	uc002dgv.2	-	11	1634	c.1551T>C	c.(1549-1551)ACT>ACC	p.T517T	GP2_uc002dgw.2_Silent_p.T514T|GP2_uc002dgx.2_Silent_p.T370T|GP2_uc002dgy.2_Silent_p.T367T	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	517						anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						ATGTACCTGCAGTGCTAGGGG	0.408													9	62					0	0	1	0	0		G	20325983	G	G	20325983	2	3	151	1	0	0	0	0	0	0	0	1	6597	175	7	3		3	GP2	16	20325983	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	441911	20325983	70028770	3482	80647											
DNAH3	55567	broad.mit.edu	37	chr16	20946788	20946788	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agatccaaaataccacagggGgccccttgtcaatccattcc	12	8	7	14	0	1	1	1	0	0	1	4	1	4	1	6	2	1	0	6	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:20946788G>T	uc010vbe.1	-	61	11879	c.11879C>A	c.(11878-11880)CCC>CAC	p.P3960H	DNAH3_uc010vbd.1_Missense_Mutation_p.P1395H	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3960					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TACCACAGGGGGCCCCTTGTC	0.418													8	39					0.000157383	0.000159052	1	1	0		T	20946788	T	T	20946788	3	4	151	1	0	0	0	0	1	0	0	0	4609	1232	43	5	478	5	DNAH3	16	20946788	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	620805	20946788	69407965	3483	80648											
DNAH3	55567	broad.mit.edu	37	chr16	20966223	20966223	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccacatcaccgcctttgcAcagctttggaagaacacagg	11	8	9	13	1	1	1	1	0	0	1	1	2	1	2	3	2	4	2	3	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:20966223A>G	uc010vbe.1	-	55	10983	c.10983T>C	c.(10981-10983)TGT>TGC	p.C3661C	DNAH3_uc010vbd.1_Silent_p.C1096C	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3661	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CCGCCTTTGCACAGCTTTGGA	0.512													19	146					0	0	1	0	0		G	20966223	G	G	20966223	2	3	151	1	0	0	0	0	0	0	0	1	4609	157	6	3		3	DNAH3	16	20966223	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	19435	20966223	69388530	3484	80649											
DNAH3	55567	broad.mit.edu	37	chr16	21117982	21117982	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtctgcgatgtggctgtActgattacaaatgctacaga	10	14	10	7	1	1	2	0	1	1	1	1	3	1	2	0	1	5	3	0	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:21117982A>G	uc010vbe.1	-	15	2113	c.2113T>C	c.(2113-2115)TAC>CAC	p.Y705H	DNAH3_uc002die.2_Missense_Mutation_p.Y645H	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	705	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ATGTGGCTGTACTGATTACAA	0.348													11	57					0	0	1	0	0		G	21117982	G	G	21117982	3	3	151	1	0	0	0	0	1	0	0	0	4609	391	14	3	10428	3	DNAH3	16	21117982	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	151759	21117982	69236771	3485	80650											
ZP2	7783	broad.mit.edu	37	chr16	21209140	21209140	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tactcttctccccactgctcCcacttgcttttagatcagat	7	15	4	15	0	3	2	1	0	2	2	5	2	4	2	3	0	3	2	3	0	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:21209140C>A	uc002dii.2	-	18	2042	c.2042G>T	c.(2041-2043)GGG>GTG	p.G681V	ZP2_uc010bwn.1_Missense_Mutation_p.G711V	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	681	Extracellular (Potential).				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		CCCACTGCTCCCACTTGCTTT	0.478													28	107					3.90053e-15	4.05273e-15	1	1	0		A	21209140	A	A	21209140	3	1	151	1	0	0	0	0	1	0	0	0	18241	623	22	5	203	5	ZP2	16	21209140	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	91158	21209140	69145613	3486	80651											
ZP2	7783	broad.mit.edu	37	chr16	21216742	21216742	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagacttccacacctaccAcatagtgagtcactccagtg	11	8	7	15	0	1	2	1	1	0	1	3	2	3	2	5	0	1	0	5	0	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:21216742A>G	uc002dii.2	-	7	692	c.692T>C	c.(691-693)GTG>GCG	p.V231A	ZP2_uc010bwn.1_Missense_Mutation_p.V270A|ZP2_uc010bwo.2_Missense_Mutation_p.V270A	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	231	Extracellular (Potential).				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		CACACCTACCACATAGTGAGT	0.458													18	81					0	0	1	0	0		G	21216742	G	G	21216742	3	3	151	1	0	0	0	0	1	0	0	0	18241	173	6	3	1597	3	ZP2	16	21216742	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	7602	21216742	69138011	3487	80652											
CRYM	1428	broad.mit.edu	37	chr16	21288787	21288787	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgctgggctcaaagagtaGcacagtagcctggtgggaag	11	8	15	7	0	1	1	1	0	0	1	1	2	1	2	1	3	3	5	1	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:21288787G>T	uc002dik.2	-	2	374	c.289C>A	c.(289-291)CTA>ATA	p.L97I	CRYM_uc010bwq.1_RNA|CRYM_uc002dil.2_Missense_Mutation_p.L55I|CRYM_uc002dim.2_Missense_Mutation_p.L97I	NM_001888	NP_001879	Q14894	CRYM_HUMAN	crystallin, mu isoform 1	97					negative regulation of transcription from RNA polymerase II promoter|sensory perception of sound|thyroid hormone transport	cytoplasm|nucleus|plasma membrane	NADP binding|protein homodimerization activity|thyroid hormone binding|transcription corepressor activity				0				GBM - Glioblastoma multiforme(48;0.0573)	Levothyroxine(DB00451)	TCAAAGAGTAGCACAGTAGCC	0.602													6	32					0.0215528	0.0216404	1	1	0		T	21288787	T	T	21288787	3	4	151	1	0	0	0	0	1	0	0	0	3924	962	34	5	683	5	CRYM	16	21288787	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	72045	21288787	69065966	3488	80653											
IGSF6	10261	broad.mit.edu	37	chr16	21654458	21654458	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagcaatttcctgaaaaatAcgccgagcactcttcttcta	12	12	6	11	2	3	2	0	2	3	0	4	3	4	2	2	0	3	2	2	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:21654458A>G	uc002djg.1	-	5	656	c.603T>C	c.(601-603)CGT>CGC	p.R201R	uc002diq.3_Intron|METTL9_uc002dje.2_Intron|METTL9_uc002djf.2_Intron	NM_005849	NP_005840	O95976	IGSF6_HUMAN	immunoglobulin superfamily, member 6 precursor	201	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0				GBM - Glioblastoma multiforme(48;0.066)		CCTGAAAAATACGCCGAGCAC	0.328													37	70					0	0	1	0	0		G	21654458	G	G	21654458	2	3	151	1	0	0	0	0	0	0	0	1	7619	378	14	3		3	IGSF6	16	21654458	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	365671	21654458	68700295	3489	80654											
POLR3E	55718	broad.mit.edu	37	chr16	22328320	22328320	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccatgtccctgcagtgagTacctgatgatgctgatgcca	8	11	11	11	0	0	4	0	4	0	0	1	4	1	4	4	0	5	3	4	0	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:22328320T>C	uc002dkk.2	+	11	889	c.733T>C	c.(733-735)TAC>CAC	p.Y245H	POLR3E_uc002dkj.1_Missense_Mutation_p.Y245H|POLR3E_uc002dkm.2_Missense_Mutation_p.Y209H|POLR3E_uc010vbr.1_Missense_Mutation_p.Y245H|POLR3E_uc002dkl.2_Missense_Mutation_p.Y245H|POLR3E_uc010vbs.1_Missense_Mutation_p.Y209H|POLR3E_uc010vbt.1_Missense_Mutation_p.Y189H	NM_018119	NP_060589	Q9NVU0	RPC5_HUMAN	RNA polymerase III polypeptide E	245					innate immune response|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA-directed RNA polymerase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.012)		CTGCAGTGAGTACCTGATGAT	0.642													4	95					0	0	1	0	0		C	22328320	C	C	22328320	3	2	151	1	0	0	0	0	1	0	0	0	12251	1638	57	3	771	3	POLR3E	16	22328320	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	673862	22328320	68026433	3490	80655											
LOC100132247	100132247	broad.mit.edu	37	chr16	22546294	22546294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggccgcttccaccctgagCggatgataatctcaagacac	10	7	11	13	2	1	3	1	2	1	1	3	4	2	4	3	3	1	1	3	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:22546294C>T	uc010bxg.2	+	9	2172	c.1990C>T	c.(1990-1992)CGG>TGG	p.R664W	LOC100132247_uc010vbv.1_Missense_Mutation_p.R664W|LOC100132247_uc010vbw.1_Intron|LOC100132247_uc010bxi.2_Missense_Mutation_p.R645W|LOC100132247_uc010bxk.2_Missense_Mutation_p.R481W|uc010vbx.1_5'Flank|uc002dky.1_5'Flank|uc002dla.1_RNA	NM_001135865	NP_001129337	A8MRT5	K220L_HUMAN	hypothetical protein LOC100132247	664	Pro-rich.					integral to membrane					0						CCACCCTGAGCGGATGATAAT	0.582													13	199					0	0	1	0	0		T	22546294	T	T	22546294	3	4	151	1	0	0	0	0	1	0	0	0	8885	759	27	1	2016	1	LOC100132247	16	22546294	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	217974	22546294	67808459	3491	80656											
HS3ST2	9956	broad.mit.edu	37	chr16	22826085	22826085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggagccgcctcctcggcGcgcctcgctgcctccgcggc	1	6	14	20	8	0	0	0	0	0	0	5	1	2	1	6	3	2	1	6	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:22826085G>A	uc002dli.2	+	1	226	c.154G>A	c.(154-156)GCG>ACG	p.A52T	HS3ST2_uc002dlj.2_RNA	NM_006043	NP_006034	Q9Y278	HS3S2_HUMAN	heparan sulfate D-glucosaminyl	52	Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 2 activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(48;0.0299)		CCTCCTCGGCGCGCCTCGCTG	0.701													2	3					0	0	1	0	0		A	22826085	A	A	22826085	3	1	151	1	0	0	0	0	1	0	0	0	7380	1087	38	1	156	1	HS3ST2	16	22826085	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	279791	22826085	67528668	3492	80657											
EARS2	124454	broad.mit.edu	37	chr16	23540844	23540844	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcacacgcttggcaatcAcatccaccttctccgagatg	10	8	7	16	2	2	1	1	0	1	1	4	2	3	1	4	1	1	3	4	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:23540844A>G	uc002dlt.3	-	7	1363	c.1331T>C	c.(1330-1332)GTG>GCG	p.V444A	EARS2_uc002dlr.3_RNA|EARS2_uc002dls.3_RNA|EARS2_uc002dlu.2_Missense_Mutation_p.V444A	NM_001083614	NP_001077083	Q5JPH6	SYEM_HUMAN	glutamyl-tRNA synthetase 2 precursor	444					glutamyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|glutamate-tRNA ligase activity|RNA binding				0				GBM - Glioblastoma multiforme(48;0.0353)	L-Glutamic Acid(DB00142)	CTTGGCAATCACATCCACCTT	0.602													6	32					0	0	1	0	0		G	23540844	G	G	23540844	3	3	151	1	0	0	0	0	1	0	0	0	4884	159	6	3	252	3	EARS2	16	23540844	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	714759	23540844	66813909	3493	80658											
PALB2	79728	broad.mit.edu	37	chr16	23632760	23632760	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctcagcaaaagttagtatAgtctcctcagggggcatcaa	13	9	9	10	0	4	0	3	0	1	0	5	0	4	0	2	2	1	4	2	2	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:23632760A>G	uc002dlx.1	-	10	3236	c.3036T>C	c.(3034-3036)ACT>ACC	p.T1012T		NM_024675	NP_078951	Q86YC2	PALB2_HUMAN	partner and localizer of BRCA2	1012	Interaction with RAD51 and BRCA2.|WD 4.				double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)		AAGTTAGTATAGTCTCCTCAG	0.343			F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				23	119					0	0	1	0	0		G	23632760	G	G	23632760	2	3	151	1	0	0	0	0	0	0	0	1	11425	407	15	3		3	PALB2	16	23632760	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	91916	23632760	66721993	3494	80659											
PALB2	79728	broad.mit.edu	37	chr16	23641278	23641278	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggccaaaggctggagtagTacctaagatggggaaagcag	14	5	16	6	0	0	1	0	0	0	1	0	3	0	3	2	5	2	4	2	5	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:23641278T>C	uc002dlx.1	-	5	2397	c.2197A>G	c.(2197-2199)ACT>GCT	p.T733A		NM_024675	NP_078951	Q86YC2	PALB2_HUMAN	partner and localizer of BRCA2	733					double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)		GCTGGAGTAGTACCTAAGATG	0.453			F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				20	123					0	0	1	0	0		C	23641278	C	C	23641278	3	2	151	1	0	0	0	0	1	0	0	0	11425	1638	57	3	1399	3	PALB2	16	23641278	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	8518	23641278	66713475	3495	80660											
PLK1	5347	broad.mit.edu	37	chr16	23700987	23700987	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacggcagcgtgcagatcaActtcttccaggtgagctgga	10	8	12	11	2	2	2	1	1	1	1	3	3	3	3	1	3	5	3	1	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:23700987A>G	uc002dlz.1	+	9	1651	c.1598A>G	c.(1597-1599)AAC>AGC	p.N533S		NM_005030	NP_005021	P53350	PLK1_HUMAN	polo-like kinase 1	533	POLO box 2.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G2/M transition DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic prophase|negative regulation of cyclin-dependent protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|protein localization to chromatin|protein ubiquitination|regulation of mitotic anaphase|regulation of protein binding	centrosome|condensed nuclear chromosome outer kinetochore|cytosol|nucleoplasm|spindle microtubule|spindle midzone|spindle pole	anaphase-promoting complex binding|ATP binding|polo kinase kinase activity|protein kinase binding			lung(1)|skin(1)	2				GBM - Glioblastoma multiforme(48;0.0156)		GTGCAGATCAACTTCTTCCAG	0.642													3	17					0	0	1	0	0		G	23700987	G	G	23700987	3	3	151	1	0	0	0	0	1	0	0	0	12113	43	2	3	1632	3	PLK1	16	23700987	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	59709	23700987	66653766	3496	80661											
ERN2	10595	broad.mit.edu	37	chr16	23712303	23712303	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatcacaaagagaatccAccctcccaggaggacagcag	14	4	8	15	0	2	1	2	0	0	1	4	4	4	3	4	2	1	1	4	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:23712303A>G	uc002dma.3	-	12	1649	c.1480T>C	c.(1480-1482)TGG>CGG	p.W494R	ERN2_uc010bxp.2_Intron|ERN2_uc010bxq.1_Missense_Mutation_p.W302R	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	446	Helical; (Potential).				apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		AAGAGAATCCACCCTCCCAGG	0.577													19	81					0	0	1	0	0		G	23712303	G	G	23712303	3	3	151	1	0	0	0	0	1	0	0	0	5246	159	6	3	1488	3	ERN2	16	23712303	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	11316	23712303	66642450	3497	80662											
RBBP6	5930	broad.mit.edu	37	chr16	24581291	24581291	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccccagaaaagctcactctAaatcagcaaaagaacaccaa	19	4	4	14	0	3	2	2	0	1	2	3	2	3	2	3	0	3	2	3	0	8	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:24581291A>G	uc002dmh.2	+	17	4320	c.3280A>G	c.(3280-3282)AAA>GAA	p.K1094E	RBBP6_uc010vcb.1_Missense_Mutation_p.K961E|RBBP6_uc002dmi.2_Missense_Mutation_p.K1060E|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Missense_Mutation_p.K927E	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1094	Interaction with RB1 (By similarity).				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		AGCTCACTCTAAATCAGCAAA	0.383													8	56					0	0	1	0	0		G	24581291	G	G	24581291	3	3	151	1	0	0	0	0	1	0	0	0	13128	363	13	3	3400	3	RBBP6	16	24581291	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	868988	24581291	65773462	3498	80663											
NSMCE1	197370	broad.mit.edu	37	chr16	27246576	27246576	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaggactccaagacactgtTaatgttgttgatgaagtcct	12	12	9	8	0	0	3	0	2	0	1	2	4	2	4	2	1	0	3	2	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:27246576T>C	uc002doi.1	-	3	279	c.181A>G	c.(181-183)AAC>GAC	p.N61D	NSMCE1_uc002doj.1_RNA	NM_145080	NP_659547	Q8WV22	NSE1_HUMAN	non-SMC element 1 homolog	61					DNA recombination|DNA repair|intracellular signal transduction	nucleus	zinc ion binding				0						AAGACACTGTTAATGTTGTTG	0.468											OREG0023693	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	66					0	0	1	0	0		C	27246576	C	C	27246576	3	2	151	1	0	0	0	0	1	0	0	0	10694	1754	61	3	643	3	NSMCE1	16	27246576	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2665285	27246576	63108177	3499	80664											
IL4R	3566	broad.mit.edu	37	chr16	27374428	27374428	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacatgcggtggagcagggTggcacccaggccagtgcggt	7	6	18	10	2	0	0	0	0	0	0	0	1	0	1	2	6	4	3	2	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:27374428T>C	uc002don.2	+	11	1997	c.1755T>C	c.(1753-1755)GGT>GGC	p.G585G	IL4R_uc002dop.3_Silent_p.G570G|IL4R_uc010bxy.2_Silent_p.G585G|IL4R_uc002doo.2_Silent_p.G425G	NM_000418	NP_000409	P24394	IL4RA_HUMAN	interleukin 4 receptor alpha chain isoform a	585	Required for IL4-induced gene expression.|Cytoplasmic (Potential).				immune response|production of molecular mediator involved in inflammatory response	integral to plasma membrane	identical protein binding|interleukin-4 receptor activity|receptor signaling protein activity			ovary(1)|skin(1)	2						TGGAGCAGGGTGGCACCCAGG	0.642													11	33					0	0	1	0	0		C	27374428	C	C	27374428	2	2	151	1	0	0	0	0	0	0	0	1	7714	1683	59	3		3	IL4R	16	27374428	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	127852	27374428	62980325	3500	80665											
GTF3C1	2975	broad.mit.edu	37	chr16	27500487	27500487	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaagccttcatccaccacCtcacggcttccactaaaaga	13	8	4	16	1	3	1	3	0	0	1	5	1	5	1	5	1	1	1	5	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:27500487C>A	uc002dov.1	-	21	3346	c.3306G>T	c.(3304-3306)GAG>GAT	p.E1102D	GTF3C1_uc002dou.2_Missense_Mutation_p.E1102D	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1102						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CATCCACCACCTCACGGCTTC	0.527													9	90					5.35267e-07	5.45817e-07	1	1	0		A	27500487	A	A	27500487	3	1	151	1	0	0	0	0	1	0	0	0	6888	680	24	5	3091	5	GTF3C1	16	27500487	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	126059	27500487	62854266	3501	80666											
KIAA0556	23247	broad.mit.edu	37	chr16	27761462	27761462	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcagatcccactccatcAccattgacttcacgcaccct	9	8	7	17	1	2	2	2	1	0	1	4	2	4	2	4	2	0	2	4	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:27761462A>G	uc002dow.2	+	16	3205	c.3181A>G	c.(3181-3183)ACC>GCC	p.T1061A		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	1061										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						CCACTCCATCACCATTGACTT	0.557													8	68					0	0	1	0	0		G	27761462	G	G	27761462	3	3	151	1	0	0	0	0	1	0	0	0	8199	159	6	3	3243	3	KIAA0556	16	27761462	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	260975	27761462	62593291	3502	80667											
CLN3	1201	broad.mit.edu	37	chr16	28503056	28503056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggaatccgaaaagcgccGccgcgagcctgcacagcctc	9	4	11	17	6	0	0	0	0	0	0	3	3	1	1	5	1	4	1	5	1	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:28503056G>A	uc002dpo.2	-	1	348	c.25C>T	c.(25-27)CGG>TGG	p.R9W	uc010vct.1_Intron|CLN3_uc002dpl.2_5'UTR|CLN3_uc010vcu.1_5'UTR|CLN3_uc002dpn.2_Missense_Mutation_p.R9W|CLN3_uc002dpm.2_5'UTR|CLN3_uc010vcv.1_Missense_Mutation_p.R9W|CLN3_uc010byd.2_Missense_Mutation_p.R9W|CLN3_uc002dpp.2_Missense_Mutation_p.R9W|CLN3_uc002dpt.1_5'UTR|CLN3_uc002dpq.1_Missense_Mutation_p.R9W|CLN3_uc010bye.1_Missense_Mutation_p.R9W|CLN3_uc002dpr.1_RNA|CLN3_uc010byf.1_RNA|CLN3_uc002dps.1_Silent_p.G10G|CLN3_uc002dpu.1_5'UTR|CLN3_uc002dpw.1_5'UTR|CLN3_uc010vcw.1_5'UTR|CLN3_uc002dqa.2_Missense_Mutation_p.R9W|CLN3_uc010vcx.1_5'UTR|CLN3_uc002dpx.1_Missense_Mutation_p.R9W|CLN3_uc002dpy.1_Silent_p.G10G|CLN3_uc002dpz.1_RNA|APOB48R_uc002dqb.1_5'Flank|APOB48R_uc010byg.1_5'Flank	NM_000086	NP_000077	Q13286	CLN3_HUMAN	ceroid-lipofuscinosis, neuronal 3	9					amyloid precursor protein catabolic process|arginine transport|associative learning|autophagic vacuole fusion|cell death|cellular amino acid metabolic process|cytosolic calcium ion homeostasis|galactosylceramide metabolic process|globoside metabolic process|glucosylceramide metabolic process|ionotropic glutamate receptor signaling pathway|lysosomal lumen acidification|lysosomal lumen pH elevation|negative regulation of catalytic activity|negative regulation of macroautophagy|negative regulation of neuron apoptosis|negative regulation of proteolysis|neuromuscular process controlling balance|neurotransmitter metabolic process|protein catabolic process|protein folding|protein processing|receptor-mediated endocytosis|regulation of action potential|sphingomyelin metabolic process|vacuolar transport	autophagic vacuole|caveola|cytosol|early endosome|Golgi membrane|Golgi stack|integral to endoplasmic reticulum membrane|late endosome|lysosomal membrane|membrane fraction|mitochondrion|neuron projection|nucleus|synaptic vesicle|trans-Golgi network	unfolded protein binding				0						GAAAAGCGCCGCCGCGAGCCT	0.642											OREG0023706	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	12					0	0	1	0	0		A	28503056	A	A	28503056	3	1	151	1	0	0	0	0	1	0	0	0	3546	1086	38	1	1351	1	CLN3	16	28503056	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	741594	28503056	61851697	3503	80668											
SULT1A2	6799	broad.mit.edu	37	chr16	28603680	28603680	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatctccttgaacgacgTgtgctcaaccatgaggtcca	9	11	8	13	2	3	2	2	2	1	0	5	3	4	2	3	1	3	1	3	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:28603680T>C	uc002dqg.1	-	7	1030	c.679A>G	c.(679-681)ACG>GCG	p.T227A	uc010vct.1_Intron|SULT1A2_uc002dqh.1_Missense_Mutation_p.T227A	NM_177528	NP_803564	P50226	ST1A2_HUMAN	sulfotransferase family, cytosolic, 1A,	227	PAPS (By similarity).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine biosynthetic process|catecholamine metabolic process|steroid metabolic process|sulfation|xenobiotic metabolic process	cytosol	aryl sulfotransferase activity|flavonol 3-sulfotransferase activity				0						TTGAACGACGTGTGCTCAACC	0.552													32	131					0	0	1	0	0		C	28603680	C	C	28603680	3	2	151	1	0	0	0	0	1	0	0	0	15398	1696	59	3	216	3	SULT1A2	16	28603680	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	100624	28603680	61751073	3504	80669											
MAZ	4150	broad.mit.edu	37	chr16	29818672	29818672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagacaaagagcaaggggcCctacatctgcgctctgtgcg	11	6	13	11	2	2	2	0	0	2	2	2	3	2	2	1	2	4	2	1	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:29818672C>T	uc002dty.2	+	2	734	c.566C>T	c.(565-567)CCC>CTC	p.P189L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAZ_uc002dtv.1_Intron|MAZ_uc010vdx.1_Missense_Mutation_p.P166L|MAZ_uc002dtw.2_Intron|MAZ_uc002dtx.2_Missense_Mutation_p.P189L|MAZ_uc010bzg.2_Intron|MAZ_uc002dtz.1_5'Flank|MAZ_uc002dua.2_5'Flank|MAZ_uc010vdy.1_5'Flank	NM_002383	NP_002374	P56270	MAZ_HUMAN	MYC-associated zinc finger protein isoform 1	189					regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription|transcription initiation from RNA polymerase II promoter	nucleus	DNA binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1						AGCAAGGGGCCCTACATCTGC	0.418													3	12					0	0	1	0	0		T	29818672	T	T	29818672	3	4	151	1	0	0	0	0	1	0	0	0	9358	623	22	4	572	4	MAZ	16	29818672	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1214992	29818672	60536081	3505	80670											
C16orf53	79447	broad.mit.edu	37	chr16	29831039	29831039	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccccactccgatcctcCgggagtagtctcttccctcg	5	9	8	19	3	1	0	0	0	1	0	7	2	5	1	7	1	1	1	7	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:29831039C>T	uc002dug.3	+	3	1048	c.729C>T	c.(727-729)TCC>TCT	p.S243S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|uc002duh.1_Intron|MVP_uc010bzh.1_5'Flank|MVP_uc010vdz.1_5'Flank|MVP_uc002dui.2_5'Flank|MVP_uc002duj.2_5'Flank	NM_024516	NP_078792	Q9BTK6	PA1_HUMAN	PTIP-associated 1 protein	243											0						TCCGATCCTCCGGGAGTAGTC	0.642													13	42					0	0	1	0	0		T	29831039	T	T	29831039	2	4	151	1	0	0	0	0	0	0	0	1	1821	639	23	1		1	C16orf53	16	29831039	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	12367	29831039	60523714	3506	80671											
MVP	9961	broad.mit.edu	37	chr16	29848270	29848270	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcagctggggcagaagcgCgtggtcaaggtgaggtccct	9	7	16	9	2	2	2	2	1	0	1	3	2	3	2	1	5	2	2	1	5	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:29848270C>T	uc002dui.2	+	7	984	c.900C>T	c.(898-900)CGC>CGT	p.R300R	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010bzh.1_RNA|MVP_uc010vdz.1_RNA|MVP_uc002duj.2_Silent_p.R300R|MVP_uc010vea.1_5'UTR	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	300	MVP 6.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						GGCAGAAGCGCGTGGTCAAGG	0.617													4	37					0	0	1	0	0		T	29848270	T	T	29848270	2	4	151	1	0	0	0	0	0	0	0	1	10014	755	27	1		1	MVP	16	29848270	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	17231	29848270	60506483	3507	80672											
MVP	9961	broad.mit.edu	37	chr16	29853294	29853294	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcagttcacagtgttgTccctctcagctgggcggccc	6	9	13	13	1	2	0	2	0	1	0	4	1	3	1	2	3	2	4	2	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:29853294T>C	uc002dui.2	+	10	1579	c.1495T>C	c.(1495-1497)TCC>CCC	p.S499P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010vdz.1_RNA|MVP_uc002duj.2_Missense_Mutation_p.S499P|MVP_uc010vea.1_Missense_Mutation_p.S93P	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	499	MVP 9.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						CACAGTGTTGTCCCTCTCAGC	0.647													6	30					0	0	1	0	0		C	29853294	C	C	29853294	3	2	151	1	0	0	0	0	1	0	0	0	10014	1667	58	3	1529	3	MVP	16	29853294	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5024	29853294	60501459	3508	80673											
SEZ6L2	26470	broad.mit.edu	37	chr16	29884676	29884676	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagcgcagagactcgccCgcctggtagtggtgcttgta	9	8	14	10	3	0	2	0	0	0	2	1	3	0	2	2	2	2	4	2	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:29884676C>T	uc002duq.3	-	14	2613	c.2373G>A	c.(2371-2373)GCG>GCA	p.A791A	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Silent_p.A721A|SEZ6L2_uc002dur.3_Silent_p.A721A|SEZ6L2_uc002dus.3_Silent_p.A677A|SEZ6L2_uc010vec.1_Silent_p.A791A|SEZ6L2_uc010ved.1_Silent_p.A747A	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	791	Sushi 5.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						GAGACTCGCCCGCCTGGTAGT	0.627													9	71					0	0	1	0	0		T	29884676	T	T	29884676	2	4	151	1	0	0	0	0	0	0	0	1	14169	639	23	1		1	SEZ6L2	16	29884676	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	31382	29884676	60470077	3509	80674											
TAOK2	9344	broad.mit.edu	37	chr16	29999006	29999006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccggcggcgtaatccccGcaccacccaacacccattag	9	4	8	20	4	0	0	0	0	0	0	1	0	1	0	7	2	1	2	7	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:29999006G>A	uc002dva.1	+	16	4196	c.3413G>A	c.(3412-3414)CGC>CAC	p.R1138H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Missense_Mutation_p.R1145H|TAOK2_uc002dvd.1_Missense_Mutation_p.R965H	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	1138					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CGTAATCCCCGCACCACCCAA	0.652													19	69					0	0	1	0	0		A	29999006	A	A	29999006	3	1	151	1	0	0	0	0	1	0	0	0	15573	1087	38	1	3471	1	TAOK2	16	29999006	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	114330	29999006	60355747	3510	80675											
TBX6	6911	broad.mit.edu	37	chr16	30100530	30100530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcaggcagggaacatgcGcctgtgcaagggaggggaca	10	4	18	9	2	0	0	0	0	0	0	1	3	0	3	1	6	3	3	1	6	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:30100530G>A	uc010veh.1	-	4	415	c.355C>T	c.(355-357)CGC>TGC	p.R119C	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TBX6_uc002dwk.1_Missense_Mutation_p.R119C	NM_004608	NP_004599	O95947	TBX6_HUMAN	T-box 6	119	T-box.				anatomical structure morphogenesis|mesoderm development|multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GGGAACATGCGCCTGTGCAAG	0.642													8	39					0	0	1	0	0		A	30100530	A	A	30100530	3	1	151	1	0	0	0	0	1	0	0	0	15687	1101	38	1	979	1	TBX6	16	30100530	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	101524	30100530	60254223	3511	80676											
CORO1A	11151	broad.mit.edu	37	chr16	30199327	30199327	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctgcactatctctccaTgttcagttccaaggagtccc	7	14	6	14	0	2	0	1	0	1	0	7	1	6	1	4	1	1	3	4	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:30199327T>C	uc002dww.2	+	8	1048	c.926T>C	c.(925-927)ATG>ACG	p.M309T	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|CORO1A_uc010bzq.2_Missense_Mutation_p.M309T|CORO1A_uc010bzr.2_Missense_Mutation_p.M309T|CORO1A_uc002dwx.2_Missense_Mutation_p.M203T|CORO1A_uc002dwy.1_3'UTR|LOC606724_uc002dwz.1_5'Flank	NM_007074	NP_009005	P31146	COR1A_HUMAN	coronin, actin binding protein, 1A	309	WD 7.				cell-substrate adhesion|innate immune response|leukocyte chemotaxis|negative regulation of actin nucleation|phagolysosome assembly|positive chemotaxis|regulation of cell shape|uropod organization	actin filament|cortical actin cytoskeleton|lamellipodium|phagocytic cup|phagocytic vesicle membrane	actin filament binding|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein homodimerization activity				0						TATCTCTCCATGTTCAGTTCC	0.582													39	128					0	0	1	0	0		C	30199327	C	C	30199327	3	2	151	1	0	0	0	0	1	0	0	0	3756	1464	51	3	952	3	CORO1A	16	30199327	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	98797	30199327	60155426	3512	80677											
SEPHS2	22928	broad.mit.edu	37	chr16	30455783	30455783	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacgaggcaggacttcaatAactcgcggcttgtcaatgat	11	9	10	11	3	2	1	2	1	0	0	3	3	2	2	1	3	1	2	1	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:30455783A>G	uc010ves.1	-	2	1442	c.1266T>C	c.(1264-1266)GTT>GTC	p.V422V	SEPHS2_uc002dyh.1_Silent_p.V365V|SEPHS2_uc010vet.1_Silent_p.V304V	NM_012248	NP_036380	Q99611	SPS2_HUMAN	selenophosphate synthetase 2	422					selenocysteine biosynthetic process		ATP binding|selenide, water dikinase activity			breast(2)	2						GGACTTCAATAACTCGCGGCT	0.522													11	56					0	0	1	0	0		G	30455783	G	G	30455783	2	3	151	1	0	0	0	0	0	0	0	1	14080	349	13	3		3	SEPHS2	16	30455783	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	256456	30455783	59898970	3513	80678											
ITGAL	3683	broad.mit.edu	37	chr16	30507448	30507448	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagaagtctcagagctgcagGgggaccccggctacccactc	10	5	12	14	1	1	2	1	0	1	2	3	3	1	3	3	3	3	3	3	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:30507448G>T	uc002dyi.3	+	14	1710	c.1534G>T	c.(1534-1536)GGG>TGG	p.G512W	ITGAL_uc002dyj.3_Missense_Mutation_p.G429W|ITGAL_uc010vev.1_Intron	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	512	FG-GAP 6.|Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	AGAGCTGCAGGGGGACCCCGG	0.572													23	102					4.4004e-07	4.48882e-07	1	1	0		T	30507448	T	T	30507448	3	4	151	1	0	0	0	0	1	0	0	0	7902	1232	43	5	1588	5	ITGAL	16	30507448	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	51665	30507448	59847305	3514	80679											
SRCAP	10847	broad.mit.edu	37	chr16	30723629	30723629	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggggccagctccgggagtAccagcacattgggctagact	8	6	15	12	2	0	1	0	0	0	1	1	2	1	2	3	4	3	4	3	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:30723629A>G	uc002dze.1	+	13	2247	c.1862A>G	c.(1861-1863)TAC>TGC	p.Y621C	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.Y478C|SRCAP_uc010bzz.1_Missense_Mutation_p.Y191C	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	621					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CTCCGGGAGTACCAGCACATT	0.512													30	136					0	0	1	0	0		G	30723629	G	G	30723629	3	3	151	1	0	0	0	0	1	0	0	0	15160	391	14	3	1904	3	SRCAP	16	30723629	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	216181	30723629	59631124	3515	80680											
SRCAP	10847	broad.mit.edu	37	chr16	30734392	30734392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccagcaccccggcctcCgagctctgggcttccagctg	4	6	12	19	2	1	0	0	0	1	0	3	1	3	0	7	3	3	4	7	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:30734392C>T	uc002dze.1	+	24	4386	c.4001C>T	c.(4000-4002)CCG>CTG	p.P1334L	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.P1129L|SRCAP_uc010bzz.1_Missense_Mutation_p.P904L	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1334	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CCCCGGCCTCCGAGCTCTGGG	0.602													31	98					0	0	1	0	0		T	30734392	T	T	30734392	3	4	151	1	0	0	0	0	1	0	0	0	15160	652	23	1	4087	1	SRCAP	16	30734392	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	10763	30734392	59620361	3516	80681											
STX1B	112755	broad.mit.edu	37	chr16	31012272	31012272	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaatttggaccgaaccttgTtggccgtcttcttgatgtct	6	16	9	10	2	4	1	1	1	3	0	4	3	4	2	3	2	1	1	3	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:31012272T>G	uc010cad.2	-	4	369	c.257A>C	c.(256-258)AAC>ACC	p.N86T	STX1B_uc010vfd.1_Missense_Mutation_p.N86T	NM_052874	NP_443106	P61266	STX1B_HUMAN	syntaxin 1B	86	Potential.|Cytoplasmic (Potential).				intracellular protein transport|neurotransmitter transport|synaptic transmission	integral to plasma membrane	extracellular-glutamate-gated ion channel activity|SNAP receptor activity				0						CCGAACCTTGTTGGCCGTCTT	0.517													26	78					0	0	1	0	0		G	31012272	G	G	31012272	3	3	151	1	0	0	0	0	1	0	0	0	15369	1725	60	5	637	5	STX1B	16	31012272	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	277880	31012272	59342481	3517	80682											
ZNF668	79759	broad.mit.edu	37	chr16	31073349	31073349	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcaccccttcatgggcGcgctggtggcgacggaagct	5	8	15	13	4	2	0	2	0	0	0	2	2	2	1	2	5	1	3	2	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:31073349G>A	uc010caf.2	-	3	1257	c.900C>T	c.(898-900)CGC>CGT	p.R300R	ZNF668_uc002eao.2_Silent_p.R300R	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	300	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						CTTCATGGGCGCGCTGGTGGC	0.692													4	15					0	0	1	0	0		A	31073349	A	A	31073349	2	1	151	1	0	0	0	0	0	0	0	1	18100	1074	38	1		1	ZNF668	16	31073349	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	61077	31073349	59281404	3518	80683											
FUS	2521	broad.mit.edu	37	chr16	31202336	31202336	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaggctatgatcgaggCggctaccggggccgcggcgg	7	4	20	10	6	0	2	0	1	0	1	1	4	0	3	2	8	1	2	2	8	2	2	rs112061837		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:31202336C>T	uc002ebf.2	+	14	1529	c.1446C>T	c.(1444-1446)GGC>GGT	p.G482G	FUS_uc002ebh.2_Silent_p.G481G|FUS_uc002ebg.2_Silent_p.G277G|FUS_uc002ebi.2_Silent_p.G483G|FUS_uc002ebj.2_Silent_p.G278G	NM_004960	NP_004951	P35637	FUS_HUMAN	fusion (involved in t(12;16) in malignant	482	Arg/Gly-rich.				cell death|nuclear mRNA splicing, via spliceosome	nucleoplasm	DNA binding|nucleotide binding|protein binding|RNA binding|zinc ion binding		FUS/DDIT3(623)|FUS/ERG(163)|FUS/CREB3L2(158)|FUS/CREB3L1(6)|FUS/ATF1(4)|FUS/FEV(2)	soft_tissue(791)|haematopoietic_and_lymphoid_tissue(153)|bone(12)|breast(2)	958		Renal(780;0.000219)|Breast(268;0.00957)|Hepatocellular(780;0.121)		GBM - Glioblastoma multiforme(240;2.31e-05)|Kidney(780;0.000209)		ATGATCGAGGCGGCTACCGGG	0.602			T	DDIT3|ERG|FEV|ATF1|CREB3L2|CREB3L1	liposarcoma|AML|Ewing sarcoma|angiomatoid fibrous histiocytoma|fibromyxoid sarcoma								9	66					0	0	1	0	0		T	31202336	T	T	31202336	2	4	151	1	0	0	0	0	0	0	0	1	6114	755	27	1		1	FUS	16	31202336	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	128987	31202336	59152417	3519	80684											
PYDC1	260434	broad.mit.edu	37	chr16	31228272	31228272	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcagcggcaccgtccccagCttcatcttgaacttcttgag	7	10	9	15	3	3	2	1	2	2	0	4	2	4	2	3	1	3	3	3	1	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:31228272C>T	uc002ebo.2	-	1	127	c.78G>A	c.(76-78)AAG>AAA	p.K26K	TRIM72_uc002ebn.1_Intron	NM_152901	NP_690865	Q8WXC3	PYDC1_HUMAN	pyrin domain containing 1	26	DAPIN.				innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|positive regulation of interleukin-1 beta secretion|proteolysis|tumor necrosis factor-mediated signaling pathway	IkappaB kinase complex|nucleus	cysteine-type endopeptidase activity|protein binding				0						CCGTCCCCAGCTTCATCTTGA	0.647													12	37					0	0	1	0	0		T	31228272	T	T	31228272	2	4	151	1	0	0	0	0	0	0	0	1	12883	796	28	2		2	PYDC1	16	31228272	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	25936	31228272	59126481	3520	80685											
ITGAM	3684	broad.mit.edu	37	chr16	31288050	31288050	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtctcaggaaggcttcagCgctgccatcacctctgtaag	9	10	10	12	1	4	0	3	0	2	0	5	1	4	1	2	2	2	3	2	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:31288050C>T	uc002ebq.2	+	10	1166	c.1068C>T	c.(1066-1068)AGC>AGT	p.S356S	ITGAM_uc002ebr.2_Silent_p.S356S|ITGAM_uc010cam.1_Silent_p.S7S	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	356	FG-GAP 3.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						AAGGCTTCAGCGCTGCCATCA	0.488													5	14					0	0	1	0	0		T	31288050	T	T	31288050	2	4	151	1	0	0	0	0	0	0	0	1	7903	767	27	1		1	ITGAM	16	31288050	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	59778	31288050	59066703	3521	80686											
ITGAD	3681	broad.mit.edu	37	chr16	31422138	31422138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccagcataccgggaaggCtgtcatcttcacccaggtgt	9	9	10	13	1	3	0	2	0	1	0	3	1	3	1	3	3	3	2	3	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:31422138C>T	uc002ebv.1	+	12	1344	c.1295C>T	c.(1294-1296)GCT>GTT	p.A432V	ITGAD_uc010cap.1_Missense_Mutation_p.A432V	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	432	FG-GAP 4.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						ACCGGGAAGGCTGTCATCTTC	0.642													7	42					0	0	1	0	0		T	31422138	T	T	31422138	3	4	151	1	0	0	0	0	1	0	0	0	7900	797	28	2	1341	2	ITGAD	16	31422138	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	134088	31422138	58932615	3522	80687											
TGFB1I1	7041	broad.mit.edu	37	chr16	31488739	31488739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgtgcgccacgtgtggcCtccctgtgaccggccgctgc	2	8	14	17	5	0	1	0	1	0	0	1	1	1	1	5	2	2	2	5	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:31488739C>T	uc002ecd.1	+	11	1254	c.1228C>T	c.(1228-1230)CTC>TTC	p.L410F	TGFB1I1_uc002ece.1_Missense_Mutation_p.L393F|TGFB1I1_uc010caq.1_Missense_Mutation_p.L249F	NM_001042454	NP_001035919	O43294	TGFI1_HUMAN	transforming growth factor beta 1 induced	410	LIM zinc-binding 4.				androgen receptor signaling pathway|cell adhesion|negative regulation of cell proliferation|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|transcription from RNA polymerase II promoter|ubiquitin-dependent SMAD protein catabolic process|Wnt receptor signaling pathway	cytoplasm|cytoskeleton|focal adhesion|nuclear matrix	androgen receptor binding|I-SMAD binding|Roundabout binding|transcription coactivator activity|zinc ion binding				0						CACGTGTGGCCTCCCTGTGAC	0.692													6	5					0	0	1	0	0		T	31488739	T	T	31488739	3	4	151	1	0	0	0	0	1	0	0	0	15842	681	24	4	1270	4	TGFB1I1	16	31488739	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	66601	31488739	58866014	3523	80688											
ABCC12	94160	broad.mit.edu	37	chr16	48174690	48174690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcaaccggatggccgtgcGgtagttgatggcccaggcaa	8	8	14	11	3	1	1	1	1	0	0	1	2	1	2	3	5	2	3	3	5	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:48174690G>A	uc002efc.1	-	4	911	c.565C>T	c.(565-567)CGC>TGC	p.R189C	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.R189C|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	189	ABC transmembrane type-1 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				ATGGCCGTGCGGTAGTTGATG	0.527													42	150					0	0	1	0	0		A	48174690	A	A	48174690	3	1	151	1	0	0	0	0	1	0	0	0	52	1116	39	1	3618	1	ABCC12	16	48174690	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	16685951	48174690	42180063	3524	80689											
SIAH1	6477	broad.mit.edu	37	chr16	48396053	48396053	+	Frame_Shift_Del	DEL	A	-	-																															aagacgcatatttacaggggAaaagtactgaattagccact																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:48396053delA	uc002efo.1	-	2	404	c.287delT	c.(286-288)TTCfs	p.F96fs	uc002efk.1_RNA|SIAH1_uc002efl.2_RNA|SIAH1_uc002efn.1_Frame_Shift_Del_p.F127fs	NM_003031	NP_003022	Q8IUQ4	SIAH1_HUMAN	seven in absentia homolog 1 isoform a	96	SIAH-type.|SBD.				axon guidance|cell cycle|neuron apoptosis|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	beta-catenin destruction complex|cytosol|nucleus	protein C-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		all_cancers(37;0.157)|all_lung(18;0.11)|Breast(268;0.238)				TTTACAGGGGAAAAGTACTGA	0.478													31	72	---	---	---	---						.	-	48396053	-	-	48396053	7	5	151	1	0	1	0	1	0	0	0	0	14324	246	9	0	565	0	SIAH1	16	48396053	Frame_Shift_Del	DEL	A	TCGA-CG-5721-01A-11D-1600-08	221363	48396053	41958700	3525	80690											
N4BP1	9683	broad.mit.edu	37	chr16	48576961	48576961	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggtttctgcagaagatcTctgagctggcatgggcaggt	7	12	15	7	0	2	3	0	1	2	2	3	3	2	3	0	4	2	6	0	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:48576961T>C	uc002efp.2	-	7	2782	c.2545A>G	c.(2545-2547)AGA>GGA	p.R849G		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	849					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				GCAGAAGATCTCTGAGCTGGC	0.582													8	56					0	0	1	0	0		C	48576961	C	C	48576961	3	2	151	1	0	0	0	0	1	0	0	0	10127	1559	54	3	149	3	N4BP1	16	48576961	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	180908	48576961	41777792	3526	80691											
N4BP1	9683	broad.mit.edu	37	chr16	48580154	48580154	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatgtcccccacgaacgtgTactgcagcagcctacaacac	12	7	7	15	2	0	0	0	0	0	0	1	1	1	0	3	0	7	3	3	0	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:48580154T>C	uc002efp.2	-	6	2474	c.2237A>G	c.(2236-2238)TAC>TGC	p.Y746C		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	746					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				CACGAACGTGTACTGCAGCAG	0.522													20	70					0	0	1	0	0		C	48580154	C	C	48580154	3	2	151	1	0	0	0	0	1	0	0	0	10127	1638	57	3	461	3	N4BP1	16	48580154	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3193	48580154	41774599	3527	80692											
N4BP1	9683	broad.mit.edu	37	chr16	48596113	48596113	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattctttctgactactgggTaggttctctttattttcaaa	8	19	7	7	0	4	1	1	1	3	0	5	2	4	1	0	2	1	2	0	2	4	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:48596113T>C	uc002efp.2	-	2	678	c.441A>G	c.(439-441)CTA>CTG	p.L147L		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	147					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				GACTACTGGGTAGGTTCTCTT	0.408													35	125					0	0	1	0	0		C	48596113	C	C	48596113	2	2	151	1	0	0	0	0	0	0	0	1	10127	1625	57	3		3	N4BP1	16	48596113	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	15959	48596113	41758640	3528	80693											
CBLN1	869	broad.mit.edu	37	chr16	49313496	49313496	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaaatcaccggccacccgTttagcatgaggctcacctga	10	8	9	14	2	2	3	2	3	0	0	2	3	2	3	4	2	1	3	4	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:49313496T>C	uc002efq.2	-	3	740	c.401A>G	c.(400-402)AAC>AGC	p.N134S		NM_004352	NP_004343	P23435	CBLN1_HUMAN	cerebellin 1 precursor	134	C1q.|Necessary for interaction with CBLN3, and homotrimerization (By similarity).				nervous system development|synaptic transmission	cell junction|extracellular region|synapse					0		all_cancers(37;0.0766)|all_lung(18;0.24)				CGGCCACCCGTTTAGCATGAG	0.617													14	58					0	0	1	0	0		C	49313496	C	C	49313496	3	2	151	1	0	0	0	0	1	0	0	0	2707	1725	60	3	184	3	CBLN1	16	49313496	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	717383	49313496	41041257	3529	80694											
C16orf78	123970	broad.mit.edu	37	chr16	49430466	49430466	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggcaaccttcataagagActggtccaacaagatgcctg	13	7	11	10	0	1	2	1	0	0	2	2	4	2	2	3	2	3	1	3	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:49430466A>G	uc002efr.2	+	4	570	c.527A>G	c.(526-528)GAC>GGC	p.D176G		NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970	176										central_nervous_system(1)	1						TTCATAAGAGACTGGTCCAAC	0.488													14	61					0	0	1	0	0		G	49430466	G	G	49430466	3	3	151	1	0	0	0	0	1	0	0	0	1838	275	10	3	541	3	C16orf78	16	49430466	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	116970	49430466	40924287	3530	80695											
HEATR3	55027	broad.mit.edu	37	chr16	50112751	50112751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagttttgggaatggatgCtggtgaaatggttattcaaa	12	14	13	2	0	1	2	1	2	0	0	1	4	1	4	0	4	1	3	0	4	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:50112751C>T	uc002efw.2	+	7	1025	c.863C>T	c.(862-864)GCT>GTT	p.A288V	HEATR3_uc002efx.2_Missense_Mutation_p.A202V	NM_182922	NP_891552	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3	288							binding			ovary(1)|skin(1)	2						GGAATGGATGCTGGTGAAATG	0.378													20	72					0	0	1	0	0		T	50112751	T	T	50112751	3	4	151	1	0	0	0	0	1	0	0	0	7045	797	28	2	889	2	HEATR3	16	50112751	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	682285	50112751	40242002	3531	80696											
PAPD5	64282	broad.mit.edu	37	chr16	50263114	50263114	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaaggcttccaaggtacaActcaaacaagccatggttcc	14	7	8	12	0	1	0	1	0	0	0	3	0	3	0	3	3	4	4	3	3	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:50263114A>G	uc010vgo.1	+	13	2007	c.1972A>G	c.(1972-1974)ACT>GCT	p.T658A	PAPD5_uc010cbi.2_Intron|PAPD5_uc002efz.2_Missense_Mutation_p.T402A|PAPD5_uc002ega.2_Missense_Mutation_p.T449A	NM_001040284	NP_001035374	Q8NDF8	PAPD5_HUMAN	PAP associated domain containing 5 isoform a	532					cell division|DNA replication|histone mRNA catabolic process|mitosis	cytoplasm|nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding				0		all_cancers(37;0.0452)		BRCA - Breast invasive adenocarcinoma(181;0.0843)|GBM - Glioblastoma multiforme(240;0.231)		CCAAGGTACAACTCAAACAAG	0.428													3	64					0	0	1	0	0		G	50263114	G	G	50263114	3	3	151	1	0	0	0	0	1	0	0	0	11444	43	2	3	2022	3	PAPD5	16	50263114	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	150363	50263114	40091639	3532	80697											
ADCY7	113	broad.mit.edu	37	chr16	50347896	50347896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagcccaagttcagcggcGtggagaagatcaagaccatc	13	6	12	10	2	2	4	2	1	0	3	3	5	2	4	2	2	2	1	2	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:50347896G>A	uc002egd.1	+	22	3047	c.2779G>A	c.(2779-2781)GTG>ATG	p.V927M		NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	927	Cytoplasmic (Potential).|Guanylate cyclase 2.				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	GTTCAGCGGCGTGGAGAAGAT	0.607													16	74					0	0	1	0	0		A	50347896	A	A	50347896	3	1	151	1	0	0	0	0	1	0	0	0	299	1145	40	1	2865	1	ADCY7	16	50347896	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	84782	50347896	40006857	3533	80698											
BRD7	29117	broad.mit.edu	37	chr16	50354660	50354660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgagtactggagtccaaaCgccctggtggctctacttct	7	12	10	12	1	2	1	0	1	2	0	3	2	3	2	2	3	3	2	2	3	3	4	rs143187051	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:50354660C>T	uc002egf.1	-	15	1593	c.1526G>A	c.(1525-1527)CGT>CAT	p.R509H	BRD7_uc002ege.1_Missense_Mutation_p.R510H	NM_013263	NP_037395	Q9NPI1	BRD7_HUMAN	bromodomain containing 7	509					cell cycle|negative regulation of cell proliferation|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of histone acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleus	histone acetyl-lysine binding|p53 binding|transcription coactivator activity|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding				0		all_cancers(37;0.0127)				GGAGTCCAAACGCCCTGGTGG	0.443													71	307					0	0	1	0	0		T	50354660	T	T	50354660	3	4	151	1	0	0	0	0	1	0	0	0	1508	536	19	1	445	1	BRD7	16	50354660	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	6764	50354660	40000093	3534	80699											
NKD1	85407	broad.mit.edu	37	chr16	50659415	50659415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggagctccagtgcgacgtgtCcatggaggaggacagccggc	8	5	17	11	3	0	0	0	0	0	0	2	5	2	4	3	5	3	1	3	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:50659415C>T	uc002egg.1	+	6	610	c.386C>T	c.(385-387)TCC>TTC	p.S129F		NM_033119	NP_149110	Q969G9	NKD1_HUMAN	naked cuticle homolog 1	129	Interaction with DVL1, DVL2 and DVL3 (By similarity).				Wnt receptor signaling pathway	cytoplasm|plasma membrane	calcium ion binding|protein binding				0		all_cancers(37;0.229)		GBM - Glioblastoma multiforme(240;0.243)		TGCGACGTGTCCATGGAGGAG	0.612													13	38					0	0	1	0	0		T	50659415	T	T	50659415	3	4	151	1	0	0	0	0	1	0	0	0	10460	855	30	4	408	4	NKD1	16	50659415	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	304755	50659415	39695338	3535	80700											
SNX20	124460	broad.mit.edu	37	chr16	50707743	50707743	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccaggaactcccgggagcgGcgcacgcagcggatggcgta	8	4	16	13	6	0	0	0	0	0	0	2	3	2	3	2	5	3	3	2	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:50707743G>A	uc002egk.2	-	4	698	c.525C>T	c.(523-525)CGC>CGT	p.R175R	SNX20_uc010vgp.1_Intron|SNX20_uc002egi.3_Intron	NM_182854	NP_878274	Q7Z614	SNX20_HUMAN	sorting nexin 20 isoform 1	175	PX.				cell communication|protein transport	endosome membrane|nucleus|plasma membrane	phosphatidylinositol binding|protein binding			ovary(1)	1						CCCGGGAGCGGCGCACGCAGC	0.701													4	7					0	0	1	0	0		A	50707743	A	A	50707743	2	1	151	1	0	0	0	0	0	0	0	1	14917	1190	42	2		2	SNX20	16	50707743	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	48328	50707743	39647010	3536	80701											
CYLD	1540	broad.mit.edu	37	chr16	50783754	50783754	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaagggaagtataggacagTatattcaagatcgttctgtg	13	11	12	5	2	2	1	1	0	1	1	3	4	2	3	0	2	0	3	0	2	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:50783754T>C	uc002egp.1	+	4	560	c.145T>C	c.(145-147)TAT>CAT	p.Y49H	CYLD_uc002egn.1_Missense_Mutation_p.Y49H|CYLD_uc002ego.2_Missense_Mutation_p.Y49H|CYLD_uc010cbs.1_Missense_Mutation_p.Y49H|CYLD_uc002egq.1_Missense_Mutation_p.Y49H|CYLD_uc002egr.1_Missense_Mutation_p.Y49H|CYLD_uc002egs.1_Missense_Mutation_p.Y49H	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	49					cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				TATAGGACAGTATATTCAAGA	0.398			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				38	139					0	0	1	0	0		C	50783754	C	C	50783754	3	2	151	1	0	0	0	0	1	0	0	0	4146	1638	57	3	147	3	CYLD	16	50783754	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	76011	50783754	39570999	3537	80702											
CYLD	1540	broad.mit.edu	37	chr16	50788337	50788337	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaatgatatcatcccaggTatgttttctttgttttatac	10	19	5	7	0	3	1	2	1	1	0	4	1	4	1	1	1	1	3	1	1	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:50788337T>C	uc002egp.1	+	6	1328	c.913_splice	c.e6+2	p.A305_splice	CYLD_uc002egn.1_Splice_Site_p.E305_splice|CYLD_uc002ego.2_Splice_Site_p.E305_splice|CYLD_uc010cbs.1_Splice_Site_p.E305_splice|CYLD_uc002egq.1_Splice_Site_p.E305_splice|CYLD_uc002egr.1_Splice_Site_p.E305_splice|CYLD_uc002egs.1_Splice_Site_p.E305_splice	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD						cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				TCATCCCAGGTATGTTTTCTT	0.244			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				23	70					0	0	1	0	0		C	50788337	C	C	50788337	5	2	151	1	0	0	0	0	0	0	1	0	4146	1652	57	3	925	3	CYLD	16	50788337	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4583	50788337	39566416	3538	80703											
SALL1	6299	broad.mit.edu	37	chr16	51173803	51173803	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgctgcaggaccacagcgTtcgtgaacttcttctggcag	7	10	12	12	2	2	1	0	1	2	0	3	2	2	2	1	2	4	5	1	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:51173803T>C	uc010vgs.1	-	2	2361	c.2330A>G	c.(2329-2331)AAC>AGC	p.N777S	SALL1_uc010vgr.1_Missense_Mutation_p.N680S|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	777	C2H2-type 5.				adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GACCACAGCGTTCGTGAACTT	0.557													22	117					0	0	1	0	0		C	51173803	C	C	51173803	3	2	151	1	0	0	0	0	1	0	0	0	13835	1725	60	3	1652	3	SALL1	16	51173803	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	385466	51173803	39180950	3539	80704											
SALL1	6299	broad.mit.edu	37	chr16	51174322	51174322	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctctgggagcccacctaggTttcttgtggctgactcaggg	5	11	13	12	0	3	1	1	1	2	0	3	2	3	2	3	4	1	2	3	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:51174322T>C	uc010vgs.1	-	2	1842	c.1811A>G	c.(1810-1812)AAC>AGC	p.N604S	SALL1_uc010vgr.1_Missense_Mutation_p.N507S|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	604					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			CCCACCTAGGTTTCTTGTGGC	0.622													4	40					0	0	1	0	0		C	51174322	C	C	51174322	3	2	151	1	0	0	0	0	1	0	0	0	13835	1725	60	3	2171	3	SALL1	16	51174322	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	519	51174322	39180431	3540	80705											
CHD9	80205	broad.mit.edu	37	chr16	53190246	53190246	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaataaaatttcaccatgTtaatcaatcttttggtagcc	13	16	4	8	0	4	0	3	0	1	0	4	0	4	0	2	1	1	2	2	1	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:53190246T>C	uc002ehb.2	+	1	409	c.245T>C	c.(244-246)GTT>GCT	p.V82A	CHD9_uc002egy.2_Missense_Mutation_p.V82A|CHD9_uc002egz.1_Missense_Mutation_p.V82A|CHD9_uc002eha.1_Missense_Mutation_p.V82A|CHD9_uc002ehc.2_Missense_Mutation_p.V82A	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	82					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				TTTCACCATGTTAATCAATCT	0.363													32	123					0	0	1	0	0		C	53190246	C	C	53190246	3	2	151	1	0	0	0	0	1	0	0	0	3335	1725	60	3	247	3	CHD9	16	53190246	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2015924	53190246	37164507	3541	80706											
RPGRIP1L	23322	broad.mit.edu	37	chr16	53730184	53730184	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacactgcctggcgagactTcattgtccgtgttgttgaag	7	13	12	9	2	1	3	1	2	0	1	2	4	2	3	2	1	1	2	2	1	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:53730184T>C	uc002ehp.2	-	3	173	c.109A>G	c.(109-111)AAG>GAG	p.K37E	RPGRIP1L_uc002eho.3_Missense_Mutation_p.K37E|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.K37E|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.K37E|RPGRIP1L_uc010vgz.1_Missense_Mutation_p.K37E|RPGRIP1L_uc002ehq.1_Missense_Mutation_p.K37E|RPGRIP1L_uc010cby.1_Missense_Mutation_p.K37E	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	37					negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				TGGCGAGACTTCATTGTCCGT	0.383													59	294					0	0	1	0	0		C	53730184	C	C	53730184	3	2	151	1	0	0	0	0	1	0	0	0	13575	1792	62	3	3938	3	RPGRIP1L	16	53730184	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	539938	53730184	36624569	3542	80707											
IRX5	10265	broad.mit.edu	37	chr16	54965177	54965177	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctctactcgtgcccggcgTacagcaccagcgtcatttcg	6	9	10	16	6	2	0	1	0	1	0	4	0	2	0	2	1	5	3	2	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:54965177T>C	uc002ehv.2	+	1	67	c.67T>C	c.(67-69)TAC>CAC	p.Y23H	uc010vhb.1_5'Flank|uc010vhc.1_5'Flank|uc002ehu.1_5'Flank|IRX5_uc010cca.1_Missense_Mutation_p.Y23H|IRX5_uc002ehw.2_5'Flank	NM_005853	NP_005844	P78411	IRX5_HUMAN	iroquois homeobox protein 5	23					response to stimulus|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|vitamin D binding				0						GTGCCCGGCGTACAGCACCAG	0.612													3	13					0	0	1	0	0		C	54965177	C	C	54965177	3	2	151	1	0	0	0	0	1	0	0	0	7863	1638	57	3	69	3	IRX5	16	54965177	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1234993	54965177	35389576	3543	80708											
IRX5	10265	broad.mit.edu	37	chr16	54966639	54966639	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagatgaccctcacccaggTgtccacctggttcgccaacg	9	7	9	16	2	1	2	1	1	0	1	3	2	2	2	5	2	1	1	5	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:54966639T>C	uc002ehv.2	+	2	479	c.479T>C	c.(478-480)GTG>GCG	p.V160A	IRX5_uc010cca.1_Missense_Mutation_p.V212A|IRX5_uc002ehw.2_Missense_Mutation_p.V94A	NM_005853	NP_005844	P78411	IRX5_HUMAN	iroquois homeobox protein 5	160	Homeobox; TALE-type.				response to stimulus|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|vitamin D binding				0						CTCACCCAGGTGTCCACCTGG	0.607													32	115					0	0	1	0	0		C	54966639	C	C	54966639	3	2	151	1	0	0	0	0	1	0	0	0	7863	1696	59	3	485	3	IRX5	16	54966639	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1462	54966639	35388114	3544	80709											
IRX5	10265	broad.mit.edu	37	chr16	54967711	54967711	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctaaagacccgaaaatgTtgcggagccagtctcagcta	12	8	11	10	2	1	1	1	0	1	1	2	3	1	2	2	2	3	3	2	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:54967711T>C	uc002ehv.2	+	3	1378	c.1378T>C	c.(1378-1380)TTG>CTG	p.L460L	IRX5_uc002ehw.2_Silent_p.L394L	NM_005853	NP_005844	P78411	IRX5_HUMAN	iroquois homeobox protein 5	460					response to stimulus|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|vitamin D binding				0						CCCGAAAATGTTGCGGAGCCA	0.552													15	84					0	0	1	0	0		C	54967711	C	C	54967711	2	2	151	1	0	0	0	0	0	0	0	1	7863	1722	60	3		3	IRX5	16	54967711	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1072	54967711	35387042	3545	80710											
BBS2	583	broad.mit.edu	37	chr16	56533690	56533690	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagaaaagcgagatactcacCctctgtgcccgttctgcaat	11	9	9	12	2	3	2	1	0	2	2	3	4	3	2	2	0	4	2	2	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:56533690C>T	uc002ejd.2	-	12	1761	c.1527G>A	c.(1525-1527)AGG>AGA	p.R509R	BBS2_uc010ccg.2_3'UTR	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein	509					adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						AGATACTCACCCTCTGTGCCC	0.418									Bardet-Biedl_syndrome				43	177					0	0	1	0	0		T	56533690	T	T	56533690	2	4	151	1	0	0	0	0	0	0	0	1	1339	637	22	4		4	BBS2	16	56533690	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1565979	56533690	33821063	3546	80711											
NLRC5	84166	broad.mit.edu	37	chr16	57059448	57059448	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggggccattatgggggAcgtcaaggtggaagatggtg	9	7	21	4	1	1	1	1	0	0	1	1	4	1	4	1	8	0	0	1	8	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:57059448A>G	uc002ekk.1	+	6	818	c.593A>G	c.(592-594)GAC>GGC	p.D198G	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.D3G|NLRC5_uc002ekl.2_Missense_Mutation_p.D3G|NLRC5_uc002ekm.2_Missense_Mutation_p.D3G|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	198					defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				ATTATGGGGGACGTCAAGGTG	0.622													26	128					0	0	1	0	0		G	57059448	G	G	57059448	3	3	151	1	0	0	0	0	1	0	0	0	10489	275	10	3	607	3	NLRC5	16	57059448	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	525758	57059448	33295305	3547	80712											
C16orf57	79650	broad.mit.edu	37	chr16	58036471	58036471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgaggaggggcctgaagatGacagcacaaaacacggggga	14	2	16	9	2	0	3	0	2	0	1	0	6	0	5	2	5	2	1	2	5	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:58036471G>A	uc002emz.2	+	2	270	c.187G>A	c.(187-189)GAC>AAC	p.D63N	ZNF319_uc002emx.1_5'Flank|C16orf57_uc010via.1_Missense_Mutation_p.D63N|C16orf57_uc002emy.2_RNA|C16orf57_uc010vib.1_Missense_Mutation_p.D63N|C16orf57_uc010vic.1_Missense_Mutation_p.D12N	NM_024598	NP_078874	Q9BQ65	CP057_HUMAN	hypothetical protein LOC79650	63											0						GCCTGAAGATGACAGCACAAA	0.582													27	117					0	0	1	0	0		A	58036471	A	A	58036471	3	1	151	1	0	0	0	0	1	0	0	0	1824	1290	45	4	193	4	C16orf57	16	58036471	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	977023	58036471	32318282	3548	80713											
PRSS54	221191	broad.mit.edu	37	chr16	58324986	58324986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaactccatgctgctgaccAagccctccttggggtcagga	8	8	12	13	0	1	1	1	1	0	0	3	3	3	3	4	4	4	2	4	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:58324986A>G	uc002enf.2	-	4	535	c.140T>C	c.(139-141)TTG>TCG	p.L47S	PRSS54_uc002eng.2_Missense_Mutation_p.L47S|PRSS54_uc010vie.1_Intron	NM_001080492	NP_001073961	Q6PEW0	PRS54_HUMAN	plasma kallikrein-like protein 4 precursor	47	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						GCTGCTGACCAAGCCCTCCTT	0.627													6	60					0	0	1	0	0		G	58324986	G	G	58324986	3	3	151	1	0	0	0	0	1	0	0	0	12655	131	5	3	1063	3	PRSS54	16	58324986	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	288515	58324986	32029767	3549	80714											
CNOT1	23019	broad.mit.edu	37	chr16	58555205	58555205	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtggcctatttacaatcaAccgttccaagagaactctgg	12	11	8	10	1	2	1	1	0	1	1	3	2	3	1	3	2	3	1	3	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:58555205A>G	uc002env.2	-	48	7227	c.6934T>C	c.(6934-6936)TTG>CTG	p.L2312L	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Silent_p.L2307L|CNOT1_uc002ent.2_Silent_p.L250L|CNOT1_uc010vik.1_Silent_p.L1269L	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	2312					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TTTACAATCAACCGTTCCAAG	0.358													22	143					0	0	1	0	0		G	58555205	G	G	58555205	2	3	151	1	0	0	0	0	0	0	0	1	3620	40	2	3		3	CNOT1	16	58555205	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	230219	58555205	31799548	3550	80715											
CNOT1	23019	broad.mit.edu	37	chr16	58559097	58559097	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaccctcagtgtccaagTccacagccaaattctggaag	12	8	7	14	0	3	0	2	0	1	0	5	1	5	1	4	1	1	0	4	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:58559097T>C	uc002env.2	-	46	7063	c.6770A>G	c.(6769-6771)GAC>GGC	p.D2257G	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.D2252G|CNOT1_uc002ent.2_Missense_Mutation_p.D195G|CNOT1_uc010vik.1_Missense_Mutation_p.D1214G	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	2257					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		AGTGTCCAAGTCCACAGCCAA	0.463													32	131					0	0	1	0	0		C	58559097	C	C	58559097	3	2	151	1	0	0	0	0	1	0	0	0	3620	1667	58	3	376	3	CNOT1	16	58559097	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3892	58559097	31795656	3551	80716											
CNOT1	23019	broad.mit.edu	37	chr16	58614646	58614646	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctctggatttataagggAatgttgaatgaaggagagct	13	12	13	3	0	1	3	0	2	1	1	2	7	1	5	0	3	1	2	0	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:58614646A>G	uc002env.2	-	12	1527	c.1234T>C	c.(1234-1236)TCC>CCC	p.S412P	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.S412P|CNOT1_uc002enx.2_Missense_Mutation_p.S412P|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	412					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TTTATAAGGGAATGTTGAATG	0.373													20	74					0	0	1	0	0		G	58614646	G	G	58614646	3	3	151	1	0	0	0	0	1	0	0	0	3620	246	9	3	6270	3	CNOT1	16	58614646	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	55549	58614646	31740107	3552	80717											
CDH16	1014	broad.mit.edu	37	chr16	66943186	66943186	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctattgctaccagggtGcctacaaggatgcccactgc	9	10	9	13	0	0	0	0	0	0	0	0	1	0	1	4	2	7	1	4	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:66943186G>A	uc002eql.2	-	17	2449	c.2376C>T	c.(2374-2376)GGC>GGT	p.G792G	CDH16_uc010cdy.2_Silent_p.G770G|CDH16_uc002eqm.2_Silent_p.G695G	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	792	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		CTACCAGGGTGCCTACAAGGA	0.592													7	30					0	0	1	0	0		A	66943186	A	A	66943186	2	1	151	1	0	0	0	0	0	0	0	1	3104	1306	46	2		2	CDH16	16	66943186	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	8328540	66943186	23411567	3553	80718											
PLEKHG4	25894	broad.mit.edu	37	chr16	67315670	67315670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgctgacccacatcccaaCggcggggctgcccacttcgc	6	6	10	19	3	0	1	0	1	0	0	2	1	1	1	4	3	3	2	4	3	1	1	rs148286913		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:67315670C>T	uc002eso.3	+	6	3470	c.935C>T	c.(934-936)ACG>ATG	p.T312M	PLEKHG4_uc002esp.3_Missense_Mutation_p.T119M|PLEKHG4_uc002esq.3_Missense_Mutation_p.T312M|PLEKHG4_uc010cef.2_Missense_Mutation_p.T312M|PLEKHG4_uc002ess.3_Missense_Mutation_p.T312M|PLEKHG4_uc010ceg.2_Missense_Mutation_p.T231M	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	312					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		CACATCCCAACGGCGGGGCTG	0.642													16	78					0	0	1	0	0		T	67315670	T	T	67315670	3	4	151	1	0	0	0	0	1	0	0	0	12090	536	19	1	957	1	PLEKHG4	16	67315670	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	372484	67315670	23039083	3554	80719											
PLEKHG4	25894	broad.mit.edu	37	chr16	67320682	67320682	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaacaggggcagctggtgCgacaggatgagtttgtggtg	9	8	19	5	1	0	1	0	1	0	0	0	4	0	3	0	6	3	3	0	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:67320682C>T	uc002eso.3	+	16	5320	c.2785C>T	c.(2785-2787)CGA>TGA	p.R929*	PLEKHG4_uc002esp.3_Nonsense_Mutation_p.R736*|PLEKHG4_uc002esq.3_Nonsense_Mutation_p.R929*|PLEKHG4_uc010cef.2_Nonsense_Mutation_p.R929*|PLEKHG4_uc002ess.3_Nonsense_Mutation_p.R929*|PLEKHG4_uc010ceg.2_Nonsense_Mutation_p.R848*	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	929	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		GCAGCTGGTGCGACAGGATGA	0.612													11	41					0	0	1	0	0		T	67320682	T	T	67320682	4	4	151	1	0	0	0	0	0	1	0	0	12090	760	27	1	2847	1	PLEKHG4	16	67320682	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5012	67320682	23034071	3555	80720											
HSD11B2	3291	broad.mit.edu	37	chr16	67470813	67470813	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcactgtctgcctcgagcActgcagcctggccagcctgg	6	8	12	15	1	2	0	1	0	1	0	3	1	2	0	4	2	5	2	4	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:67470813A>G	uc002etd.2	+	5	1241	c.1125A>G	c.(1123-1125)GCA>GCG	p.A375A		NM_000196	NP_000187	P80365	DHI2_HUMAN	hydroxysteroid (11-beta) dehydrogenase 2	375					glucocorticoid biosynthetic process	endoplasmic reticulum|microsome					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0401)|Epithelial(162;0.0891)	NADH(DB00157)	TGCCTCGAGCACTGCAGCCTG	0.647													14	63					0	0	1	0	0		G	67470813	G	G	67470813	2	3	151	1	0	0	0	0	0	0	0	1	7393	146	6	3		3	HSD11B2	16	67470813	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	150131	67470813	22883940	3556	80721											
CTCF	10664	broad.mit.edu	37	chr16	67662300	67662300	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgatcatgcacaagcgcAcccacaccggggagaagcct	13	4	10	14	2	1	2	1	1	0	1	1	3	1	2	3	2	3	2	3	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:67662300A>G	uc002etl.2	+	9	1836	c.1546A>G	c.(1546-1548)ACC>GCC	p.T516A	CTCF_uc010cek.2_Missense_Mutation_p.T188A|CTCF_uc002etm.1_Missense_Mutation_p.T5A	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor	516	C2H2-type 9.				chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)		GCACAAGCGCACCCACACCGG	0.592													9	66					0	0	1	0	0		G	67662300	G	G	67662300	3	3	151	1	0	0	0	0	1	0	0	0	4003	159	6	3	1572	3	CTCF	16	67662300	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	191487	67662300	22692453	3557	80722											
RLTPR	146206	broad.mit.edu	37	chr16	67683765	67683765	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtctgctggacgtggcgcAggcgctggagcagaaccaca	8	5	17	11	3	1	1	0	0	1	1	1	3	1	3	1	5	3	4	1	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:67683765A>T	uc002etn.2	+	21	2096	c.1976A>T	c.(1975-1977)CAG>CTG	p.Q659L	RLTPR_uc010cel.1_Missense_Mutation_p.Q652L|RLTPR_uc010vjr.1_Missense_Mutation_p.Q623L	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	659	Tropomodulin-like.|LRR 15.									breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		GACGTGGCGCAGGCGCTGGAG	0.672													10	34					0	0	1	0	0		T	67683765	T	T	67683765	3	4	151	1	0	0	0	0	1	0	0	0	13419	188	7	5	2058	5	RLTPR	16	67683765	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	21465	67683765	22670988	3558	80723											
RLTPR	146206	broad.mit.edu	37	chr16	67683871	67683871	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcacgtgcagtccatcaGgtgggcgtccccctcttccc	6	8	10	17	2	2	0	1	0	1	0	5	0	5	0	4	2	2	2	4	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:67683871G>A	uc002etn.2	+	21	2202	c.2082G>A	c.(2080-2082)CAG>CAA	p.Q694Q	RLTPR_uc010cel.1_Silent_p.Q687Q|RLTPR_uc010vjr.1_Silent_p.Q658Q	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	694										breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		CAGTCCATCAGGTGGGCGTCC	0.622													10	30					0	0	1	0	0		A	67683871	A	A	67683871	2	1	151	1	0	0	0	0	0	0	0	1	13419	1014	35	4		4	RLTPR	16	67683871	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	106	67683871	22670882	3559	80724											
ACD	65057	broad.mit.edu	37	chr16	67694161	67694161	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggatgcaacgggcccgggTttcccgcgggcgcccaggcc	4	4	17	16	6	0	0	0	0	0	0	1	1	1	1	4	5	2	2	4	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:67694161T>C	uc002etq.3	-	1	558	c.221A>G	c.(220-222)AAC>AGC	p.N74S	ACD_uc002etp.3_Missense_Mutation_p.N74S|ACD_uc002etr.3_Missense_Mutation_p.N74S|ACD_uc010vjt.1_Missense_Mutation_p.N64S|PARD6A_uc002ets.2_5'Flank|PARD6A_uc002ett.2_5'Flank|PARD6A_uc002etu.2_5'Flank	NM_001082486	NP_001075955	Q96AP0	ACD_HUMAN	adrenocortical dysplasia homolog isoform 1	74					intracellular protein transport|negative regulation of telomere maintenance via telomerase|positive regulation of single-stranded telomeric DNA binding|positive regulation of telomerase activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|telomere assembly	nuclear telomere cap complex|nucleoplasm	DNA binding|DNA polymerase binding			pancreas(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		CGGGCCCGGGTTTCCCGCGGG	0.716													5	32					0	0	1	0	0		C	67694161	C	C	67694161	3	2	151	1	0	0	0	0	1	0	0	0	135	1725	60	3	1461	3	ACD	16	67694161	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10290	67694161	22660592	3560	80725											
C16orf48	84080	broad.mit.edu	37	chr16	67697558	67697558	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgtcgggcagtgagacctActaatgtggcacatggccct	9	9	13	10	1	0	1	0	1	0	1	1	2	0	1	2	3	1	2	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:67697558A>G	uc002etw.1	-	5	1026	c.743_splice	c.e5+1	p.Y248_splice	ACD_uc002etp.3_5'Flank|ACD_uc002etq.3_5'Flank|ACD_uc002etr.3_5'Flank|ACD_uc010vjt.1_5'Flank|C16orf48_uc002etv.1_Splice_Site_p.Y130_splice|C16orf48_uc010cem.1_Intron	NM_032140	NP_115516	Q9H0I2	CP048_HUMAN	hypothetical protein LOC84080							microtubule cytoskeleton	protein binding				0		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		AGTGAGACCTACTAATGTGGC	0.597													6	31					0	0	1	0	0		G	67697558	G	G	67697558	5	3	151	1	0	0	0	0	0	0	1	0	1819	405	14	3	307	3	C16orf48	16	67697558	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3397	67697558	22657195	3561	80726											
RANBP10	57610	broad.mit.edu	37	chr16	67763602	67763602	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtgttgtgcatgtgggaActactggggccatgtcgggg	5	11	17	8	1	0	0	0	0	0	0	1	1	0	1	2	5	3	2	2	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:67763602A>G	uc002eud.2	-	9	1244	c.1128T>C	c.(1126-1128)AGT>AGC	p.S376S	RANBP10_uc010ceo.2_Silent_p.S147S|RANBP10_uc010vju.1_Silent_p.S320S|RANBP10_uc010vjv.1_Silent_p.S259S|RANBP10_uc010vjw.1_Silent_p.S37S	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	376	Ser-rich.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		GCATGTGGGAACTACTGGGGC	0.622													13	64					0	0	1	0	0		G	67763602	G	G	67763602	2	3	151	1	0	0	0	0	0	0	0	1	13051	40	2	3		3	RANBP10	16	67763602	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	66044	67763602	22591151	3562	80727											
NUTF2	10204	broad.mit.edu	37	chr16	67902272	67902272	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgccttacgtgggaaggAcaacagttccaggggaaagc	12	7	13	9	1	1	0	1	0	0	0	2	3	2	3	2	4	4	1	2	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:67902272A>G	uc002eup.2	+	3	228	c.129A>G	c.(127-129)GGA>GGG	p.G43G	NUTF2_uc010vkf.1_Silent_p.G43G|NUTF2_uc002euq.3_5'Flank	NM_005796	NP_005787	P61970	NTF2_HUMAN	nuclear transport factor 2	43	NTF2.				protein transport	cytosol|nuclear pore	protein binding|transporter activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00443)|Epithelial(162;0.0199)|all cancers(182;0.129)		CGTGGGAAGGACAACAGTTCC	0.537													20	82					0	0	1	0	0		G	67902272	G	G	67902272	2	3	151	1	0	0	0	0	0	0	0	1	10798	262	10	3		3	NUTF2	16	67902272	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	138670	67902272	22452481	3563	80728											
PSMB10	5699	broad.mit.edu	37	chr16	67968770	67968770	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtctttgtgatcacacatgCgtccacattgcccccggagc	8	10	9	14	2	2	1	1	1	1	0	3	2	3	2	3	1	3	0	3	1	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:67968770C>A	uc002eux.1	-	7	741	c.640G>T	c.(640-642)GCA>TCA	p.A214S		NM_002801	NP_002792	P40306	PSB10_HUMAN	proteasome beta 10 subunit proprotein	214					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|humoral immune response|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00415)|Epithelial(162;0.0182)|all cancers(182;0.119)		ATCACACATGCGTCCACATTG	0.642													50	180					9.52127e-25	9.96523e-25	1	1	0		A	67968770	A	A	67968770	3	1	151	1	0	0	0	0	1	0	0	0	12697	768	27	5	189	5	PSMB10	16	67968770	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	66498	67968770	22385983	3564	80729											
SLC12A4	6560	broad.mit.edu	37	chr16	67991804	67991804	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgccaggacactcacacaAcagcagcagataagcacgat	16	3	8	14	2	1	1	1	0	0	1	1	3	1	2	1	1	4	3	1	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:67991804A>G	uc002euz.2	-	4	627	c.486T>C	c.(484-486)TGT>TGC	p.C162C	SLC12A4_uc010ceu.2_Silent_p.C156C|SLC12A4_uc010vkh.1_Silent_p.C131C|SLC12A4_uc010vki.1_Silent_p.C162C|SLC12A4_uc010vkj.1_Silent_p.C164C|SLC12A4_uc002eva.2_Silent_p.C162C|SLC12A4_uc002evb.2_Intron|SLC12A4_uc010cew.1_Silent_p.C45C	NM_005072	NP_005063	Q9UP95	S12A4_HUMAN	solute carrier family 12, member 4 isoform a	162	Helical; (Potential).|Poly-Cys.				cell volume homeostasis|potassium ion transport|sodium ion transport	integral to plasma membrane|membrane fraction	potassium:chloride symporter activity			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	CACTCACACAACAGCAGCAGA	0.632													5	36					0	0	1	0	0		G	67991804	G	G	67991804	2	3	151	1	0	0	0	0	0	0	0	1	14410	41	2	3		3	SLC12A4	16	67991804	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	23034	67991804	22362949	3565	80730											
DUS2L	54920	broad.mit.edu	37	chr16	68110607	68110607	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagggagaagttggcacaGcctgtgtatgaaacggtgag	11	7	17	6	2	0	3	0	2	0	1	0	5	0	4	1	4	2	3	1	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:68110607G>A	uc002evi.2	+	15	1304	c.1155G>A	c.(1153-1155)CAG>CAA	p.Q385Q	DUS2L_uc002evj.2_Silent_p.Q385Q|DUS2L_uc010vkk.1_Silent_p.Q350Q|DUS2L_uc010cez.2_Silent_p.Q298Q	NM_017803	NP_060273	Q9NX74	DUS2L_HUMAN	dihydrouridine synthase 2-like, SMM1 homolog	385	DRBM.				tRNA processing	endoplasmic reticulum	double-stranded RNA binding|flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0131)|Epithelial(162;0.0564)		AGTTGGCACAGCCTGTGTATG	0.582													18	59					0	0	1	0	0		A	68110607	A	A	68110607	2	1	151	1	0	0	0	0	0	0	0	1	4812	962	34	2		2	DUS2L	16	68110607	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	118803	68110607	22244146	3566	80731											
ESRP2	80004	broad.mit.edu	37	chr16	68266489	68266489	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccacacccacctggccacgTtgagccctttgaagaagcga	10	6	10	15	2	0	3	0	2	0	1	0	4	0	3	5	1	2	1	5	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:68266489T>C	uc010cfa.1	-	7	1030	c.842A>G	c.(841-843)AAC>AGC	p.N281S	ESRP2_uc002evp.1_RNA|ESRP2_uc002evq.1_Missense_Mutation_p.N271S	NM_024939	NP_079215	Q9H6T0	ESRP2_HUMAN	RNA binding motif protein 35B	281	RRM 1.				mRNA processing|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding|nucleotide binding			ovary(1)	1						CCTGGCCACGTTGAGCCCTTT	0.617													23	91					0	0	1	0	0		C	68266489	C	C	68266489	3	2	151	1	0	0	0	0	1	0	0	0	5267	1725	60	3	1377	3	ESRP2	16	68266489	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	155882	68266489	22088264	3567	80732											
PRMT7	54496	broad.mit.edu	37	chr16	68373316	68373316	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaacaagctatttcccaTccacgtgcagaccagcctcg	10	8	9	14	2	0	1	0	0	0	1	3	2	2	2	4	1	4	2	4	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:68373316T>C	uc002evy.1	+	8	872	c.596T>C	c.(595-597)ATC>ACC	p.I199T	PRMT7_uc002evx.1_Missense_Mutation_p.I199T|PRMT7_uc010vlg.1_Missense_Mutation_p.I149T|PRMT7_uc002evz.1_Missense_Mutation_p.I45T	NM_019023	NP_061896	Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	199					cell differentiation|DNA methylation involved in gamete generation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	[myelin basic protein]-arginine N-methyltransferase activity|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N monomethyltransferase activity|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		CTATTTCCCATCCACGTGCAG	0.582													24	87					0	0	1	0	0		C	68373316	C	C	68373316	3	2	151	1	0	0	0	0	1	0	0	0	12563	1435	50	3	618	3	PRMT7	16	68373316	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	106827	68373316	21981437	3568	80733											
PRMT7	54496	broad.mit.edu	37	chr16	68380154	68380154	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatcaatgaccaggacagaActgatcgatacgtccaggct	14	7	10	10	2	1	4	1	2	0	2	3	6	2	5	2	2	2	1	2	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:68380154A>G	uc002evy.1	+	11	1438	c.1162A>G	c.(1162-1164)ACT>GCT	p.T388A	PRMT7_uc002evx.1_Missense_Mutation_p.T388A|PRMT7_uc010vlg.1_Missense_Mutation_p.T338A|PRMT7_uc002evz.1_Missense_Mutation_p.T234A	NM_019023	NP_061896	Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	388					cell differentiation|DNA methylation involved in gamete generation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	[myelin basic protein]-arginine N-methyltransferase activity|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N monomethyltransferase activity|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		CCAGGACAGAACTGATCGATA	0.557													25	78					0	0	1	0	0		G	68380154	G	G	68380154	3	3	151	1	0	0	0	0	1	0	0	0	12563	43	2	3	1196	3	PRMT7	16	68380154	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6838	68380154	21974599	3569	80734											
SMPD3	55512	broad.mit.edu	37	chr16	68405595	68405595	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaaattttgatctggggccGggcggccccattgcggattc	6	11	14	10	3	1	1	0	1	1	0	2	2	1	2	3	5	1	1	3	5	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:68405595G>A	uc002ewa.2	-	3	912	c.490C>T	c.(490-492)CGG>TGG	p.R164W	SMPD3_uc010cfe.2_Missense_Mutation_p.R164W|SMPD3_uc010vlh.1_Missense_Mutation_p.R164W	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	164	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	ATCTGGGGCCGGGCGGCCCCA	0.622													6	14					0	0	1	0	0		A	68405595	A	A	68405595	3	1	151	1	0	0	0	0	1	0	0	0	14831	1115	39	1	1505	1	SMPD3	16	68405595	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	25441	68405595	21949158	3570	80735											
CDH3	1001	broad.mit.edu	37	chr16	68719188	68719188	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagctgtgggcaccctcgAccgtgaggatgagcagtttg	8	8	14	11	2	0	2	0	2	0	0	1	4	0	3	2	2	2	4	2	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:68719188A>G	uc002ewf.2	+	11	2637	c.1505A>G	c.(1504-1506)GAC>GGC	p.D502G	CDH3_uc010vli.1_Missense_Mutation_p.D447G	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	502	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		GGCACCCTCGACCGTGAGGAT	0.572													7	72					0	0	1	0	0		G	68719188	G	G	68719188	3	3	151	1	0	0	0	0	1	0	0	0	3114	275	10	3	1547	3	CDH3	16	68719188	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	313593	68719188	21635565	3571	80736											
TMCO7	79613	broad.mit.edu	37	chr16	68894021	68894021	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttgaaggaaaccatgaTccgccttgcagctaatttca	11	11	9	10	1	1	2	1	2	0	0	2	3	2	3	3	1	4	3	3	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:68894021T>C	uc002ewi.3	+	2	341	c.329T>C	c.(328-330)ATC>ACC	p.I110T	TMCO7_uc002ewh.2_Missense_Mutation_p.I110T	NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	110						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		GAAACCATGATCCGCCTTGCA	0.473													7	272					0	0	1	0	0		C	68894021	C	C	68894021	3	2	151	1	0	0	0	0	1	0	0	0	16026	1435	50	3	335	3	TMCO7	16	68894021	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	174833	68894021	21460732	3572	80737											
TMCO7	79613	broad.mit.edu	37	chr16	68894252	68894252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacgtggtgtgttttgatgCtgcccccgatgcaactcgaa	8	11	12	10	3	0	2	0	1	0	1	1	4	0	2	2	1	4	3	2	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:68894252C>T	uc002ewi.3	+	2	572	c.560C>T	c.(559-561)GCT>GTT	p.A187V	TMCO7_uc002ewh.2_Missense_Mutation_p.A187V	NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	187						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		TGTTTTGATGCTGCCCCCGAT	0.512													76	260					0	0	1	0	0		T	68894252	T	T	68894252	3	4	151	1	0	0	0	0	1	0	0	0	16026	797	28	2	566	2	TMCO7	16	68894252	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	231	68894252	21460501	3573	80738											
TMCO7	79613	broad.mit.edu	37	chr16	69008054	69008054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcggggaagtccttatgcGaatcgtcagggcattaggtg	9	10	15	7	3	1	0	1	0	0	0	4	2	2	1	1	4	1	1	1	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:69008054G>A	uc002ewi.3	+	15	2837	c.2825G>A	c.(2824-2826)CGA>CAA	p.R942Q		NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	942						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		GTCCTTATGCGAATCGTCAGG	0.473													14	48					0	0	1	0	0		A	69008054	A	A	69008054	3	1	151	1	0	0	0	0	1	0	0	0	16026	1058	37	1	2883	1	TMCO7	16	69008054	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	113802	69008054	21346699	3574	80739											
TMED6	146456	broad.mit.edu	37	chr16	69385573	69385573	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggctggtccccagagccActtagaggttctgtcttctg	6	12	12	11	0	3	2	0	0	3	2	4	2	4	2	3	3	1	2	3	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:69385573A>G	uc002exc.1	-	1	117	c.84T>C	c.(82-84)AGT>AGC	p.S28S		NM_144676	NP_653277	Q8WW62	TMED6_HUMAN	transmembrane emp24 protein transport domain	28	Lumenal (Potential).				transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1						CCCCAGAGCCACTTAGAGGTT	0.552													24	107					0	0	1	0	0		G	69385573	G	G	69385573	2	3	151	1	0	0	0	0	0	0	0	1	16033	156	6	3		3	TMED6	16	69385573	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	377519	69385573	20969180	3575	80740											
TERF2	7014	broad.mit.edu	37	chr16	69419639	69419639	+	Frame_Shift_Del	DEL	C	-	-																															ccgcgccgcgctccgccgggCcccccagccccggctcgtgg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:69419639delC	uc002exd.2	-	1	235	c.110delG	c.(109-111)GGCfs	p.G37fs	TERF2_uc002exe.2_Frame_Shift_Del_p.G37fs	NM_005652	NP_005643	Q15554	TERF2_HUMAN	telomeric repeat binding factor 2	37					age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)				ctccgccgggccccccagccc	0.463													4	8	---	---	---	---						.	-	69419639	-	-	69419639	7	5	151	1	0	1	0	1	0	0	0	0	15787	739	26	0	1432	0	TERF2	16	69419639	Frame_Shift_Del	DEL	C	TCGA-CG-5721-01A-11D-1600-08	34066	69419639	20935114	3576	80741											
NFAT5	10725	broad.mit.edu	37	chr16	69729043	69729043	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaatgtctctgcagactgTagtcagcttttaacctctgg	8	15	8	10	0	4	1	2	0	2	1	5	1	4	1	1	1	3	3	1	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:69729043T>C	uc002exm.1	+	13	5573	c.4365T>C	c.(4363-4365)TGT>TGC	p.C1455C	NFAT5_uc002exi.2_Silent_p.C1379C|NFAT5_uc002exj.1_Silent_p.C1379C|NFAT5_uc002exk.1_Silent_p.C1379C|NFAT5_uc002exl.1_Silent_p.C1473C|NFAT5_uc002exn.1_Silent_p.C1472C|NFAT5_uc002exo.1_Intron	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	1455					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						CTGCAGACTGTAGTCAGCTTT	0.428													13	60					0	0	1	0	0		C	69729043	C	C	69729043	2	2	151	1	0	0	0	0	0	0	0	1	10379	1644	57	3		3	NFAT5	16	69729043	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	309404	69729043	20625710	3577	80742											
NQO1	1728	broad.mit.edu	37	chr16	69752360	69752360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccatcctttcttcttcaaagCcgctgcagcagcctccttca	7	12	5	17	1	4	0	2	0	2	0	6	0	6	0	5	0	4	3	5	0	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:69752360C>T	uc002exp.2	-	2	276	c.85G>A	c.(85-87)GCT>ACT	p.A29T	NQO1_uc010cfm.2_Missense_Mutation_p.A8T|NQO1_uc002exq.2_Missense_Mutation_p.A29T|NQO1_uc002exr.2_Missense_Mutation_p.A29T|NQO1_uc010vll.1_Missense_Mutation_p.A29T	NM_000903	NP_000894	P15559	NQO1_HUMAN	NAD(P)H menadione oxidoreductase 1,	29					nitric oxide biosynthetic process|regulation of cellular amino acid metabolic process|response to toxin|synaptic transmission, cholinergic|xenobiotic metabolic process	cytosol	coenzyme binding|cytochrome-b5 reductase activity|electron carrier activity|NAD(P)H dehydrogenase (quinone) activity				0					Dicumarol(DB00266)|Menadione(DB00170)	TTCTTCAAAGCCGCTGCAGCA	0.512													19	101					0	0	1	0	0		T	69752360	T	T	69752360	3	4	151	1	0	0	0	0	1	0	0	0	10630	739	26	2	759	2	NQO1	16	69752360	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	23317	69752360	20602393	3578	80743											
WWP2	11060	broad.mit.edu	37	chr16	69971539	69971539	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaagaacagcaagcagaTccagtggttctggcaggtgg	12	6	13	10	0	1	2	0	0	1	2	2	2	2	2	2	4	3	4	2	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:69971539T>A	uc002exu.1	+	22	2416	c.2327T>A	c.(2326-2328)ATC>AAC	p.I776N	WWP2_uc002exv.1_Missense_Mutation_p.I776N|WWP2_uc010vlm.1_Missense_Mutation_p.I660N|WWP2_uc010vln.1_Missense_Mutation_p.I394N|WWP2_uc002exw.1_Missense_Mutation_p.I337N	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	776	HECT.				entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						AGCAAGCAGATCCAGTGGTTC	0.607													6	41					0	0	1	0	0		A	69971539	A	A	69971539	3	1	151	1	0	0	0	0	1	0	0	0	17442	1435	50	5	2409	5	WWP2	16	69971539	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	219179	69971539	20383214	3579	80744											
IL34	146433	broad.mit.edu	37	chr16	70690978	70690978	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccatcctggaagtaccTgcaggaggtggagacgctgc	9	6	13	13	1	0	1	0	0	0	1	1	4	1	3	4	4	3	3	4	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:70690978T>C	uc002ezh.1	+	4	739	c.356T>C	c.(355-357)CTG>CCG	p.L119P	IL34_uc002ezi.1_Missense_Mutation_p.L118P	NM_152456	NP_689669	Q6ZMJ4	IL34_HUMAN	interleukin 34 precursor	119					positive regulation of cell proliferation|positive regulation of protein phosphorylation	extracellular space	cytokine activity|growth factor activity|macrophage colony-stimulating factor receptor binding			central_nervous_system(1)|skin(1)	2						TGGAAGTACCTGCAGGAGGTG	0.622													25	118					0	0	1	0	0		C	70690978	C	C	70690978	3	2	151	1	0	0	0	0	1	0	0	0	7710	1580	55	3	370	3	IL34	16	70690978	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	719439	70690978	19663775	3580	80745											
HYDIN	54768	broad.mit.edu	37	chr16	71127727	71127727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctagtgcttacctcataaCaatgtgcagatccagtgaaa	13	11	7	10	0	2	2	1	1	1	1	3	2	3	2	2	0	4	2	2	0	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:71127727C>T	uc002ezr.2	-	11	1567	c.1439G>A	c.(1438-1440)TGT>TAT	p.C480Y	HYDIN_uc010cfz.1_Missense_Mutation_p.C225Y|HYDIN_uc002ezv.2_Missense_Mutation_p.C480Y|HYDIN_uc010vmc.1_Missense_Mutation_p.C497Y|HYDIN_uc010vmd.1_Missense_Mutation_p.C507Y|HYDIN_uc002ezw.3_Missense_Mutation_p.C497Y	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	480										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TACCTCATAACAATGTGCAGA	0.393													20	86					0	0	1	0	0		T	71127727	T	T	71127727	3	4	151	1	0	0	0	0	1	0	0	0	7483	478	17	4	14239	4	HYDIN	16	71127727	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	436749	71127727	19227026	3581	80746											
HYDIN	54768	broad.mit.edu	37	chr16	71218773	71218773	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagagagcagctaccttctGatgtgttgtttcccccatat	9	13	8	11	0	1	2	0	1	1	1	2	3	2	2	3	0	3	4	3	0	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:71218773G>A	uc002ezr.2	-	3	384	c.256C>T	c.(256-258)CAG>TAG	p.Q86*	HYDIN_uc010cfz.1_5'UTR|HYDIN_uc002ezv.2_Nonsense_Mutation_p.Q86*|HYDIN_uc010vmc.1_Nonsense_Mutation_p.Q103*|HYDIN_uc010vmd.1_Nonsense_Mutation_p.Q113*|HYDIN_uc002ezw.3_Nonsense_Mutation_p.Q103*	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	86										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GCTACCTTCTGATGTGTTGTT	0.443													35	162					0	0	1	0	0		A	71218773	A	A	71218773	4	1	151	1	0	0	0	0	0	1	0	0	7483	1299	45	4	15454	4	HYDIN	16	71218773	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	91046	71218773	19135980	3582	80747											
FTSJD1	55783	broad.mit.edu	37	chr16	71317627	71317627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caaaaaatcaagcagggcccCcttaaggagtacctccattg	14	7	8	12	0	1	0	1	0	0	0	2	1	2	1	4	2	2	2	4	2	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:71317627C>T	uc010cga.2	-	3	2603	c.2197G>A	c.(2197-2199)GGG>AGG	p.G733R	FTSJD1_uc002ezy.3_Missense_Mutation_p.G733R|FTSJD1_uc002ezz.3_Missense_Mutation_p.G733R	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	733						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						AGCAGGGCCCCCTTAAGGAGT	0.423													13	56					0	0	1	0	0		T	71317627	T	T	71317627	3	4	151	1	0	0	0	0	1	0	0	0	6104	623	22	4	119	4	FTSJD1	16	71317627	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	98854	71317627	19037126	3583	80748											
CHST4	10164	broad.mit.edu	37	chr16	71570605	71570605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactgcctaaaaaaatgaagCtcctgctgtttctggtttcc	10	14	7	10	0	1	1	0	1	1	0	3	1	3	1	3	1	4	4	3	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:71570605C>T	uc002fan.2	+	2	206	c.25C>T	c.(25-27)CTC>TTC	p.L9F	CHST4_uc002fao.2_Missense_Mutation_p.L9F	NM_005769	NP_005760	Q8NCG5	CHST4_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	9	Helical; Signal-anchor for type II membrane protein; (Potential).				cell-cell signaling|immune response|inflammatory response|N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity				0						AAAAATGAAGCTCCTGCTGTT	0.473													6	202					0	0	1	0	0		T	71570605	T	T	71570605	3	4	151	1	0	0	0	0	1	0	0	0	3409	797	28	2	27	2	CHST4	16	71570605	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	252978	71570605	18784148	3584	80749											
TAT	6898	broad.mit.edu	37	chr16	71609922	71609922	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaggtttccaaacacagtAgggtcccctttttatgggag	9	11	12	9	0	0	0	0	0	0	0	2	1	2	1	3	4	1	3	3	4	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:71609922A>G	uc002fap.2	-	3	342	c.243T>C	c.(241-243)CCT>CCC	p.P81P	TAT_uc002faq.2_Silent_p.P81P|TAT_uc002far.2_Missense_Mutation_p.Y133H	NM_000353	NP_000344	P17735	ATTY_HUMAN	tyrosine aminotransferase	81					2-oxoglutarate metabolic process|glutamate metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	1-aminocyclopropane-1-carboxylate synthase activity|L-tyrosine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(2)	2		Ovarian(137;0.125)		Kidney(780;0.0157)	L-Glutamic Acid(DB00142)|L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Pyridoxal Phosphate(DB00114)	CAAACACAGTAGGGTCCCCTT	0.493													21	90					0	0	1	0	0		G	71609922	G	G	71609922	2	3	151	1	0	0	0	0	0	0	0	1	15615	407	15	3		3	TAT	16	71609922	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	39317	71609922	18744831	3585	80750											
AP1G1	164	broad.mit.edu	37	chr16	71799413	71799413	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaaaaaggggtcactgatAccagaaacatcatgttctgg	14	9	10	8	0	3	2	2	1	1	1	3	2	3	2	1	3	3	2	1	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:71799413A>G	uc010cgg.2	-	7	1031	c.717T>C	c.(715-717)GGT>GGC	p.G239G	AP1G1_uc002fba.2_Silent_p.G242G|AP1G1_uc002fbb.2_Silent_p.G262G|AP1G1_uc010vmg.1_RNA	NM_001128	NP_001119	O43747	AP1G1_HUMAN	adaptor-related protein complex 1, gamma 1	239					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|recycling endosome	kinesin binding|protein transporter activity			ovary(2)	2		Ovarian(137;0.125)				GGTCACTGATACCAGAAACAT	0.348													24	92					0	0	1	0	0		G	71799413	G	G	71799413	2	3	151	1	0	0	0	0	0	0	0	1	732	378	14	3		3	AP1G1	16	71799413	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	189491	71799413	18555340	3586	80751											
DHX38	9785	broad.mit.edu	37	chr16	72130232	72130232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgctggcttccctgaaacGgagagagcgagaggagaagg	11	6	16	8	2	0	4	0	1	0	3	1	8	1	5	1	4	3	2	1	4	2	2	rs150592983	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:72130232G>A	uc002fcb.2	+	2	531	c.176G>A	c.(175-177)CGG>CAG	p.R59Q	TXNL4B_uc010cgl.2_5'Flank|TXNL4B_uc002fca.2_5'Flank|TXNL4B_uc010vmn.1_5'Flank|TXNL4B_uc010vmo.1_5'Flank|DHX38_uc010vmp.1_Missense_Mutation_p.R59Q|DHX38_uc010cgn.1_5'Flank	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	59					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				TCCCTGAAACGGAGAGAGCGA	0.547													7	42					0	0	1	0	0		A	72130232	A	A	72130232	3	1	151	1	0	0	0	0	1	0	0	0	4517	1116	39	1	178	1	DHX38	16	72130232	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	330819	72130232	18224521	3587	80752											
ZFHX3	463	broad.mit.edu	37	chr16	72828908	72828908	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgggggtggatgaactggTtctgcgcgctcaggaagtgg	7	9	18	7	2	2	1	1	1	1	0	2	3	2	3	0	6	2	2	0	6	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:72828908T>C	uc002fck.2	-	9	8346	c.7673A>G	c.(7672-7674)AAC>AGC	p.N2558S	ZFHX3_uc002fcl.2_Missense_Mutation_p.N1644S	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2558					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GATGAACTGGTTCTGCGCGCT	0.552													16	91					0	0	1	0	0		C	72828908	C	C	72828908	3	2	151	1	0	0	0	0	1	0	0	0	17659	1725	60	3	3446	3	ZFHX3	16	72828908	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	698676	72828908	17525845	3588	80753											
ZFHX3	463	broad.mit.edu	37	chr16	72830804	72830804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggagcatggaaggctcagaaCcaccccctggtgccaactct	10	6	11	14	0	2	1	1	0	1	1	2	3	2	3	4	4	4	2	4	4	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:72830804C>T	uc002fck.2	-	9	6450	c.5777G>A	c.(5776-5778)GGT>GAT	p.G1926D	ZFHX3_uc002fcl.2_Missense_Mutation_p.G1012D	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1926					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				AGGCTCAGAACCACCCCCTGG	0.587													26	78					0	0	1	0	0		T	72830804	T	T	72830804	3	4	151	1	0	0	0	0	1	0	0	0	17659	507	18	4	5342	4	ZFHX3	16	72830804	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1896	72830804	17523949	3589	80754											
ZFHX3	463	broad.mit.edu	37	chr16	72923801	72923801	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttggtggagtagttgcAcagaacgcagtggtagtagc	9	9	16	7	1	0	1	0	0	0	1	0	2	0	2	1	4	3	6	1	4	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:72923801A>G	uc002fck.2	-	4	3950	c.3277T>C	c.(3277-3279)TGC>CGC	p.C1093R	ZFHX3_uc002fcl.2_Missense_Mutation_p.C179R	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1093	C2H2-type 9; atypical.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GAGTAGTTGCACAGAACGCAG	0.547													8	28					0	0	1	0	0		G	72923801	G	G	72923801	3	3	151	1	0	0	0	0	1	0	0	0	17659	159	6	3	7862	3	ZFHX3	16	72923801	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	92997	72923801	17430952	3590	80755											
BCAR1	9564	broad.mit.edu	37	chr16	75269317	75269318	+	Frame_Shift_Ins	INS	-	G	G																															agcggctcctgtggctcagaINSggggctacgccagctcccag																								rs3206884		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:75269317_75269318insG	uc002fdv.2	-	5	1602_1603	c.1479_1480insC	c.(1477-1482)CCCTCTfs	p.P493fs	BCAR1_uc002fdt.2_5'UTR|BCAR1_uc002fdu.2_Frame_Shift_Ins_p.P283fs|BCAR1_uc010cgu.2_Frame_Shift_Ins_p.P482fs|BCAR1_uc010vna.1_Frame_Shift_Ins_p.P491fs|BCAR1_uc010vnb.1_Frame_Shift_Ins_p.P539fs|BCAR1_uc002fdw.2_Frame_Shift_Ins_p.P493fs|BCAR1_uc010vnc.1_Frame_Shift_Ins_p.P345fs|BCAR1_uc010vnd.1_Frame_Shift_Ins_p.P511fs|BCAR1_uc002fdx.2_Frame_Shift_Ins_p.P511fs	NM_014567	NP_055382	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	493_494	Ser-rich.				actin filament organization|B cell receptor signaling pathway|blood coagulation|cell adhesion|cell division|cell migration|cell proliferation|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|integrin-mediated signaling pathway|nerve growth factor receptor signaling pathway|platelet-derived growth factor receptor signaling pathway|positive regulation of cell migration|regulation of apoptosis|regulation of cell growth|T cell receptor signaling pathway	cytosol|focal adhesion|membrane fraction|ruffle	protein kinase binding|protein phosphatase binding|SH3 domain binding|signal transducer activity			central_nervous_system(5)|breast(2)|prostate(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.169)		TGTGGCTCAGAGGGGCTACGCC	0.703													11	19	---	---	---	---						.	G	75269318	G	G	75269317	7	5	151	1	0	1	1	0	0	0	0	0	1349	304	11	0	1144	0	BCAR1	16	75269317	Frame_Shift_Ins	INS	-	TCGA-CG-5721-01A-11D-1600-08	2345516	75269317	15085436	3591	80756											
WWOX	51741	broad.mit.edu	37	chr16	78466543	78466543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctccccacgcggggtcaCgtcgaacgcagtgcatcctg	6	7	11	17	5	2	0	1	0	1	0	5	1	3	0	4	2	2	2	4	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:78466543C>T	uc002ffk.2	+	8	1075	c.950C>T	c.(949-951)ACG>ATG	p.T317M	WWOX_uc010vnk.1_Missense_Mutation_p.T204M|WWOX_uc002ffl.2_Intron|WWOX_uc010che.2_Intron	NM_016373	NP_057457	Q9NZC7	WWOX_HUMAN	WW domain-containing oxidoreductase isoform 1	317	Interaction with MAPT (By similarity).				apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)		CGCGGGGTCACGTCGAACGCA	0.537													42	185					0	0	1	0	0		T	78466543	T	T	78466543	3	4	151	1	0	0	0	0	1	0	0	0	17440	536	19	1	1042	1	WWOX	16	78466543	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3197226	78466543	11888210	3592	80757											
ATMIN	23300	broad.mit.edu	37	chr16	81077032	81077032	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttaaactacccgtgatgcAgttttctgtcatgcctgtct	7	15	9	10	1	3	1	1	1	2	0	3	1	3	1	2	1	4	3	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:81077032A>C	uc002ffz.1	+	4	947	c.929A>C	c.(928-930)CAG>CCG	p.Q310P	ATMIN_uc002fga.2_Missense_Mutation_p.Q152P|ATMIN_uc010vnn.1_Missense_Mutation_p.Q81P|ATMIN_uc002fgb.1_Missense_Mutation_p.Q152P	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	310	Required for formation of RAD51 foci.				response to DNA damage stimulus	nucleus	zinc ion binding				0						CCCGTGATGCAGTTTTCTGTC	0.502													9	243					0	0	1	0	0		C	81077032	C	C	81077032	3	2	151	1	0	0	0	0	1	0	0	0	1111	188	7	5	943	5	ATMIN	16	81077032	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2610489	81077032	9277721	3593	80758											
ATMIN	23300	broad.mit.edu	37	chr16	81078356	81078356	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctccactgctaaaaatatAcctgctctagaaagcaaagt	15	10	6	10	0	2	1	0	0	2	1	3	1	2	1	2	0	4	3	2	0	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:81078356A>G	uc002ffz.1	+	4	2271	c.2253A>G	c.(2251-2253)ATA>ATG	p.I751M	ATMIN_uc002fga.2_Missense_Mutation_p.I593M|ATMIN_uc010vnn.1_Missense_Mutation_p.I522M|ATMIN_uc002fgb.1_Missense_Mutation_p.I593M	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	751					response to DNA damage stimulus	nucleus	zinc ion binding				0						CTAAAAATATACCTGCTCTAG	0.448													43	144					0	0	1	0	0		G	81078356	G	G	81078356	3	3	151	1	0	0	0	0	1	0	0	0	1111	381	14	3	2267	3	ATMIN	16	81078356	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1324	81078356	9276397	3594	80759											
PKD1L2	114780	broad.mit.edu	37	chr16	81161381	81161381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaccttgacgtgctttggCgatcagtccccaaggggacc	7	10	11	13	2	1	1	1	1	0	0	2	3	2	2	4	3	2	1	4	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:81161381C>T	uc002fgh.1	-	38	6335	c.6335G>A	c.(6334-6336)CGC>CAC	p.R2112H	PKD1L2_uc002fgf.1_5'UTR|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	2112	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CGTGCTTTGGCGATCAGTCCC	0.517													13	45					0	0	1	0	0		T	81161381	T	T	81161381	3	4	151	1	0	0	0	0	1	0	0	0	11984	768	27	1	1076	1	PKD1L2	16	81161381	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	83025	81161381	9193372	3595	80760											
GAN	8139	broad.mit.edu	37	chr16	81411130	81411130	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatgtgcagccttacgcAttgcgaattgcaagcttttc	9	12	10	10	2	0	0	0	0	0	0	1	2	0	1	1	1	6	4	1	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:81411130A>G	uc002fgo.2	+	11	1871	c.1723A>G	c.(1723-1725)ATT>GTT	p.I575V		NM_022041	NP_071324	Q9H2C0	GAN_HUMAN	gigaxonin	575					cell death	cytoplasm|neurofilament	protein binding			ovary(2)	2		Colorectal(91;0.153)				AGCCTTACGCATTGCGAATTG	0.522													70	275					0	0	1	0	0		G	81411130	G	G	81411130	3	3	151	1	0	0	0	0	1	0	0	0	6247	217	8	3	1765	3	GAN	16	81411130	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	249749	81411130	8943623	3596	80761											
CMIP	80790	broad.mit.edu	37	chr16	81733390	81733390	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcctggcactgagggggaAccagaccatggtggaggtaa	10	6	16	9	0	0	2	0	1	0	1	1	4	1	4	3	6	1	3	3	6	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:81733390A>G	uc002fgp.2	+	15	1811	c.1739A>G	c.(1738-1740)AAC>AGC	p.N580S	CMIP_uc002fgq.1_Missense_Mutation_p.N486S|CMIP_uc010vnq.1_Missense_Mutation_p.N393S|CMIP_uc002fgr.1_Missense_Mutation_p.N427S	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	546						cytoplasm|nucleus					0						CTGAGGGGGAACCAGACCATG	0.607													4	21					0	0	1	0	0		G	81733390	G	G	81733390	3	3	151	1	0	0	0	0	1	0	0	0	3581	43	2	3	1819	3	CMIP	16	81733390	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	322260	81733390	8621363	3597	80762											
PLCG2	5336	broad.mit.edu	37	chr16	81819728	81819728	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcggagaaccgtccaggTgatcatggagacgcggcagg	10	4	17	10	5	1	3	1	1	0	2	2	6	2	3	2	5	2	1	2	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:81819728T>C	uc002fgt.2	+	2	286	c.134T>C	c.(133-135)GTG>GCG	p.V45A	PLCG2_uc010chg.1_Missense_Mutation_p.V45A	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	45	PH.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						ACCGTCCAGGTGATCATGGAG	0.612													7	43					0	0	1	0	0		C	81819728	C	C	81819728	3	2	151	1	0	0	0	0	1	0	0	0	12055	1696	59	3	136	3	PLCG2	16	81819728	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	86338	81819728	8535025	3598	80763											
CDH13	1012	broad.mit.edu	37	chr16	83378495	83378495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggagaccactgatgtcaatgGcaaaactctcgaggggccgg	11	6	14	10	2	2	2	1	1	1	1	3	4	2	2	2	5	1	1	2	5	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:83378495G>A	uc002fgx.2	+	6	785	c.665G>A	c.(664-666)GGC>GAC	p.G222D	CDH13_uc010vns.1_Missense_Mutation_p.G269D|CDH13_uc010vnt.1_5'UTR|CDH13_uc010vnu.1_Missense_Mutation_p.G183D	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	222	Cadherin 1.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		GATGTCAATGGCAAAACTCTC	0.448													4	133					0	0	1	0	0		A	83378495	A	A	83378495	3	1	151	1	0	0	0	0	1	0	0	0	3102	1203	42	2	687	2	CDH13	16	83378495	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1558767	83378495	6976258	3599	80764											
CDH13	1012	broad.mit.edu	37	chr16	83817018	83817018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtggactgcaacgcggCaggggccctgcgcttcagcc	8	5	14	14	3	1	0	1	0	0	0	1	1	1	1	2	4	4	3	2	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:83817018C>T	uc002fgx.2	+	13	2195	c.2075C>T	c.(2074-2076)GCA>GTA	p.A692V	CDH13_uc010vns.1_Missense_Mutation_p.A739V|CDH13_uc010vnt.1_Missense_Mutation_p.A438V|CDH13_uc010vnu.1_Missense_Mutation_p.A653V	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	692	Cadherin 5.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		TGCAACGCGGCAGGGGCCCTG	0.522													8	116					0	0	1	0	0		T	83817018	T	T	83817018	3	4	151	1	0	0	0	0	1	0	0	0	3102	710	25	2	2125	2	CDH13	16	83817018	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	438523	83817018	6537735	3600	80765											
SLC38A8	146167	broad.mit.edu	37	chr16	84067027	84067027	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgaagcgctggtctgcgtAccacggctgcggggcgggcg	4	6	20	11	6	1	1	0	1	1	0	1	1	1	1	1	6	4	3	1	6	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:84067027A>G	uc002fhg.1	-	3	436	c.436T>C	c.(436-438)TAC>CAC	p.Y146H		NM_001080442	NP_001073911	A6NNN8	S38A8_HUMAN	solute carrier family 38, member 8	146					amino acid transport|sodium ion transport	integral to membrane					0						TGGTCTGCGTACCACGGCTGC	0.642													3	63					0	0	1	0	0		G	84067027	G	G	84067027	3	3	151	1	0	0	0	0	1	0	0	0	14635	391	14	3	903	3	SLC38A8	16	84067027	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	250009	84067027	6287726	3601	80766											
KIAA1609	57707	broad.mit.edu	37	chr16	84520276	84520276	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcccaagagcaagaggcaaAcccaccgaacacatgcttgt	14	5	8	14	1	0	2	0	0	0	2	1	3	1	2	3	1	4	3	3	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:84520276A>G	uc002fib.2	-	5	1026	c.919T>C	c.(919-921)TTT>CTT	p.F307L	KIAA1609_uc010vod.1_Missense_Mutation_p.F280L|KIAA1609_uc002fic.2_RNA	NM_020947	NP_065998	Q6P9B6	K1609_HUMAN	hypothetical protein LOC57707	307	TLD.						protein binding			ovary(2)	2						CAAGAGGCAAACCCACCGAAC	0.567													11	69					0	0	1	0	0		G	84520276	G	G	84520276	3	3	151	1	0	0	0	0	1	0	0	0	8263	43	2	3	467	3	KIAA1609	16	84520276	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	453249	84520276	5834477	3602	80767											
USP10	9100	broad.mit.edu	37	chr16	84778843	84778843	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggggctgattttggtcaGtcctgcttccctgcagaggc	4	11	13	13	1	1	2	1	1	0	1	3	2	3	2	3	4	2	3	3	4	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:84778843G>T	uc002fii.2	+	4	898	c.756G>T	c.(754-756)CAG>CAT	p.Q252H	USP10_uc010voe.1_Missense_Mutation_p.Q256H|USP10_uc010vof.1_Intron|USP10_uc002fij.2_5'UTR	NM_005153	NP_005144	Q14694	UBP10_HUMAN	ubiquitin specific protease 10	252					DNA damage response, signal transduction by p53 class mediator|DNA repair|protein deubiquitination|ubiquitin-dependent protein catabolic process	early endosome|intermediate filament cytoskeleton|nucleus	cystic fibrosis transmembrane conductance regulator binding|p53 binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						ATTTTGGTCAGTCCTGCTTCC	0.602													5	20					0.00448238	0.00451229	1	1	0		T	84778843	T	T	84778843	3	4	151	1	0	0	0	0	1	0	0	0	17067	1020	36	5	770	5	USP10	16	84778843	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	258567	84778843	5575910	3603	80768											
KIAA0182	23199	broad.mit.edu	37	chr16	85689518	85689518	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcatgtctggcctcagcgcGgagaggtaagtgcgtctcga	7	8	15	11	5	3	1	1	0	2	1	4	3	3	1	1	3	2	2	1	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:85689518G>A	uc002fix.2	+	6	1058	c.984G>A	c.(982-984)GCG>GCA	p.A328A	KIAA0182_uc002fiw.2_Silent_p.A224A|KIAA0182_uc002fiy.2_Silent_p.A255A	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	328	Potential.						protein binding			large_intestine(3)|ovary(1)|skin(1)	5						GCCTCAGCGCGGAGAGGTAAG	0.657													4	10					0	0	1	0	0		A	85689518	A	A	85689518	2	1	151	1	0	0	0	0	0	0	0	1	8175	1103	39	1		1	KIAA0182	16	85689518	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	910675	85689518	4665235	3604	80769											
JPH3	57338	broad.mit.edu	37	chr16	87678007	87678007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgagcacaccaacggcacgGcgctgcatcccgacgcctct	8	4	11	18	6	1	0	0	0	1	0	2	2	2	0	3	2	3	4	3	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:87678007G>A	uc002fkd.2	+	2	780	c.526G>A	c.(526-528)GCG>ACG	p.A176T	JPH3_uc010vou.1_RNA	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	176	Cytoplasmic (Potential).			A -> P (in Ref. 1; BAB11983).	calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		CAACGGCACGGCGCTGCATCC	0.711													12	39					0	0	1	0	0		A	87678007	A	A	87678007	3	1	151	1	0	0	0	0	1	0	0	0	7978	1203	42	2	532	2	JPH3	16	87678007	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1988489	87678007	2676746	3605	80770											
ZFPM1	161882	broad.mit.edu	37	chr16	88599263	88599263	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacagccacttggtcaccaAccacatggtctgccagcctg	9	8	8	16	0	2	0	1	0	1	0	2	0	2	0	5	2	5	0	5	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:88599263A>G	uc002fkv.2	+	9	1142	c.1109A>G	c.(1108-1110)AAC>AGC	p.N370S		NM_153813	NP_722520	Q8IX07	FOG1_HUMAN	zinc finger protein, multitype 1	370	C2H2-type 3.				blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|transcription factor binding|zinc ion binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0478)		TTGGTCACCAACCACATGGTC	0.642													6	38					0	0	1	0	0		G	88599263	G	G	88599263	3	3	151	1	0	0	0	0	1	0	0	0	17682	43	2	3	1143	3	ZFPM1	16	88599263	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	921256	88599263	1755490	3606	80771											
CYBA	1535	broad.mit.edu	37	chr16	88714464	88714464	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggatacatggagtaggcAccaaagtaccactgggtgaa	15	6	13	7	0	0	1	0	1	0	0	0	4	0	3	2	4	2	3	2	4	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:88714464A>G	uc002flb.2	-	2	153	c.117T>C	c.(115-117)GGT>GGC	p.G39G	CYBA_uc002flc.1_5'Flank|CYBA_uc002fld.1_Silent_p.G39G|CYBA_uc010chx.1_Silent_p.G39G	NM_000101	NP_000092	P13498	CY24A_HUMAN	cytochrome b, alpha polypeptide	39					cytochrome complex assembly|electron transport chain|hydrogen peroxide biosynthetic process|inflammatory response|innate immune response|respiratory burst|smooth muscle hypertrophy|superoxide anion generation|transport	NADPH oxidase complex|stored secretory granule	electron carrier activity|heme binding|protein heterodimerization activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0478)		TGGAGTAGGCACCAAAGTACC	0.657													3	8					0	0	1	0	0		G	88714464	G	G	88714464	2	3	151	1	0	0	0	0	0	0	0	1	4134	146	6	3		3	CYBA	16	88714464	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	115201	88714464	1640289	3607	80772											
MVD	4597	broad.mit.edu	37	chr16	88724403	88724403	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatccggtcctcggtgaagTccttgctgatgacggctgtt	7	12	12	10	3	0	3	0	3	0	0	4	3	3	3	3	3	1	3	3	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:88724403T>C	uc002flg.1	-	3	183	c.176A>G	c.(175-177)GAC>GGC	p.D59G	MVD_uc002flf.1_5'Flank	NM_002461	NP_002452	P53602	MVD1_HUMAN	diphosphomevalonate decarboxylase	59					cholesterol biosynthetic process|positive regulation of cell proliferation	cytosol	ATP binding|diphosphomevalonate decarboxylase activity|Hsp70 protein binding|kinase activity|protein homodimerization activity				0				BRCA - Breast invasive adenocarcinoma(80;0.0478)		CTCGGTGAAGTCCTTGCTGAT	0.612													21	66					0	0	1	0	0		C	88724403	C	C	88724403	3	2	151	1	0	0	0	0	1	0	0	0	10012	1667	58	3	1058	3	MVD	16	88724403	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	9939	88724403	1630350	3608	80773											
CBFA2T3	863	broad.mit.edu	37	chr16	88951603	88951603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggggctgtagcgctgggcaGggttcagggtgcatggccgt	4	9	20	8	2	1	0	1	0	0	0	1	0	1	0	1	6	2	6	1	6	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:88951603G>A	uc002fmm.1	-	7	1154	c.968C>T	c.(967-969)CCT>CTT	p.P323L	CBFA2T3_uc002fml.1_Missense_Mutation_p.P237L|CBFA2T3_uc010cif.1_Missense_Mutation_p.P262L|CBFA2T3_uc002fmn.1_Missense_Mutation_p.P298L	NM_005187	NP_005178	O75081	MTG16_HUMAN	myeloid translocation gene on chromosome 16	323	Mediates localization to the nucleus (By similarity).|Mediates interaction with PDE7A (in isoform 2).				cell proliferation|granulocyte differentiation	Golgi membrane|nucleolus|nucleoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(3)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(80;0.0275)		GCGCTGGGCAGGGTTCAGGGT	0.682			T	RUNX1	AML								10	34					0	0	1	0	0		A	88951603	A	A	88951603	3	1	151	1	0	0	0	0	1	0	0	0	2701	1000	35	4	1017	4	CBFA2T3	16	88951603	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	227200	88951603	1403150	3609	80774											
ANKRD11	29123	broad.mit.edu	37	chr16	89346505	89346505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggttccgcttcaccatctgCggcatctttagtctgcaggg	5	12	12	12	2	4	0	1	0	3	0	5	0	5	0	2	3	2	4	2	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:89346505C>T	uc002fmx.1	-	9	6906	c.6445G>A	c.(6445-6447)GCA>ACA	p.A2149T	ANKRD11_uc002fmy.1_Missense_Mutation_p.A2149T|ANKRD11_uc002fnc.1_Missense_Mutation_p.A2149T|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Missense_Mutation_p.A2106T	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	2149	Pro-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TCACCATCTGCGGCATCTTTA	0.657													13	43					0	0	1	0	0		T	89346505	T	T	89346505	3	4	151	1	0	0	0	0	1	0	0	0	639	768	27	1	1566	1	ANKRD11	16	89346505	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	394902	89346505	1008248	3610	80775											
ANKRD11	29123	broad.mit.edu	37	chr16	89348369	89348369	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttctccttcagtttggcAtcgccgagcctcgggccctc	5	12	9	15	3	2	0	1	0	1	0	6	1	2	0	4	2	1	2	4	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:89348369A>G	uc002fmx.1	-	9	5042	c.4581T>C	c.(4579-4581)GAT>GAC	p.D1527D	ANKRD11_uc002fmy.1_Silent_p.D1527D|ANKRD11_uc002fnc.1_Silent_p.D1527D|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Silent_p.D1484D	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1527	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TCAGTTTGGCATCGCCGAGCC	0.592													22	81					0	0	1	0	0		G	89348369	G	G	89348369	2	3	151	1	0	0	0	0	0	0	0	1	639	214	8	3		3	ANKRD11	16	89348369	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1864	89348369	1006384	3611	80776											
DPEP1	1800	broad.mit.edu	37	chr16	89703685	89703685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctgtggccaccatgaaggCcaccctgcagctgtccagag	8	7	12	14	0	1	2	0	1	1	1	2	2	2	2	5	2	2	2	5	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:89703685C>T	uc010cin.2	+	7	868	c.665C>T	c.(664-666)GCC>GTC	p.A222V	DPEP1_uc002fnr.3_Missense_Mutation_p.A222V|DPEP1_uc002fns.3_Missense_Mutation_p.A222V	NM_001128141	NP_001121613	P16444	DPEP1_HUMAN	dipeptidase 1 precursor	222					proteolysis	anchored to membrane|apical plasma membrane|microvillus membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity|protein binding			large_intestine(1)	1		all_lung(18;0.0054)|all_hematologic(23;0.094)		BRCA - Breast invasive adenocarcinoma(80;0.0258)	Cilastatin(DB01597)	ACCATGAAGGCCACCCTGCAG	0.647													9	34					0	0	1	0	0		T	89703685	T	T	89703685	3	4	151	1	0	0	0	0	1	0	0	0	4719	739	26	2	687	2	DPEP1	16	89703685	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	355316	89703685	651068	3612	80777											
SPATA2L	124044	broad.mit.edu	37	chr16	89764463	89764463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccccgctggcacgccgtGcctgcagcagctcctcagct	4	7	11	19	4	1	0	1	0	0	0	3	0	3	0	5	1	5	6	5	1	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:89764463G>A	uc002foj.2	-	3	619	c.554C>T	c.(553-555)GCA>GTA	p.A185V	SPATA2L_uc002fok.2_Intron	NM_152339	NP_689552	Q8IUW3	SPA2L_HUMAN	spermatogenesis associated 2-like	185											0		Lung NSC(15;0.00043)|all_lung(18;0.000665)|all_hematologic(23;0.0355)		BRCA - Breast invasive adenocarcinoma(80;0.0272)		GGCACGCCGTGCCTGCAGCAG	0.726													4	13					0	0	1	0	0		A	89764463	A	A	89764463	3	1	151	1	0	0	0	0	1	0	0	0	15034	1319	46	2	724	2	SPATA2L	16	89764463	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	60778	89764463	590290	3613	80778											
TUBB3	10381	broad.mit.edu	37	chr16	90002087	90002087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggacgagatggagttcaccGaggccgagagcaacatgaac	13	5	14	9	3	1	3	1	1	0	2	1	8	1	5	2	3	3	2	2	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr16:90002087G>A	uc002fph.1	+	4	1293	c.1228G>A	c.(1228-1230)GAG>AAG	p.E410K	TUBB3_uc002fpf.2_Missense_Mutation_p.E757K|TUBB3_uc010ciz.1_Missense_Mutation_p.E338K|TUBB3_uc002fpg.1_Missense_Mutation_p.E264K|TUBB3_uc002fpi.1_Missense_Mutation_p.E338K|TUBB3_uc002fpj.1_Missense_Mutation_p.E338K|TUBB3_uc010cjb.1_Missense_Mutation_p.E264K|TUBB3_uc002fpk.1_Missense_Mutation_p.E264K	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	410			E -> K (in CFEOM3A; severe phenotype with congenital facial weakness; lower extremity weakness and sensory loss in the second to third decade of life in one patient; affects microtubules polymerization and depolymerization rates).		'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GGAGTTCACCGAGGCCGAGAG	0.617													40	122					0	0	1	0	0		A	90002087	A	A	90002087	3	1	151	1	0	0	0	0	1	0	0	0	16783	1059	37	1	1242	1	TUBB3	16	90002087	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	237624	90002087	352666	3614	80779											
TUSC5	286753	broad.mit.edu	37	chr17	1183350	1183350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaggagccaggctccgccGcattcctggacctgccggag	7	5	13	16	3	0	0	0	0	0	0	2	3	2	3	6	4	2	2	6	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:1183350G>A	uc002fsi.1	+	1	394	c.55G>A	c.(55-57)GCA>ACA	p.A19T		NM_172367	NP_758955	Q8IXB3	TUSC5_HUMAN	LOST1	19					response to biotic stimulus	integral to membrane				skin(2)	2				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		AGGCTCCGCCGCATTCCTGGA	0.637													33	85					0	0	1	0	0		A	1183350	A	A	1183350	3	1	151	1	0	0	0	0	1	0	0	0	16805	1087	38	1	57	1	TUSC5	17	1183350	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08		1183350	80011860	3615	80780											
SCARF1	8578	broad.mit.edu	37	chr17	1538649	1538649	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgggcctgtggactcttcGgcttcccggccctcaggacc	3	10	12	16	2	3	0	1	0	2	0	5	2	4	2	4	5	0	1	4	5	0	2	rs144909941	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:1538649G>A	uc002fsz.1	-	11	1946	c.1896C>T	c.(1894-1896)GCC>GCT	p.A632A	SCARF1_uc002fsy.1_3'UTR|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Silent_p.A546A	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	632	Gly-rich.|Cytoplasmic (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		TGGACTCTTCGGCTTCCCGGC	0.701													3	23					0	0	1	0	0		A	1538649	A	A	1538649	2	1	151	1	0	0	0	0	0	0	0	1	13908	1103	39	1		1	SCARF1	17	1538649	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	355299	1538649	79656561	3616	80781											
RTN4RL1	146760	broad.mit.edu	37	chr17	1840972	1840972	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccacggggatgccctccggGatggctgcaaagttgtgcgc	6	8	15	12	3	0	0	0	0	0	0	2	2	2	2	3	4	3	3	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:1840972G>A	uc002ftp.2	-	2	163	c.144C>T	c.(142-144)ATC>ATT	p.I48I		NM_178568	NP_848663	Q86UN2	R4RL1_HUMAN	reticulon 4 receptor-like 1 precursor	48	LRRNT.				axon regeneration	anchored to plasma membrane	receptor activity				0						TGCCCTCCGGGATGGCTGCAA	0.682													5	16					0	0	1	0	0		A	1840972	A	A	1840972	2	1	151	1	0	0	0	0	0	0	0	1	13756	1164	41	4		4	RTN4RL1	17	1840972	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	302323	1840972	79354238	3617	80782											
RTN4RL1	146760	broad.mit.edu	37	chr17	1841027	1841027	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgggcgccgggtagcacAcacagtcccgtgggcagcca	8	5	14	14	3	1	0	1	0	0	0	2	0	2	0	3	3	2	3	3	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:1841027A>G	uc002ftp.2	-	2	108	c.89T>C	c.(88-90)GTG>GCG	p.V30A		NM_178568	NP_848663	Q86UN2	R4RL1_HUMAN	reticulon 4 receptor-like 1 precursor	30	LRRNT.				axon regeneration	anchored to plasma membrane	receptor activity				0						CGGGTAGCACACACAGTCCCG	0.662													4	19					0	0	1	0	0		G	1841027	G	G	1841027	3	3	151	1	0	0	0	0	1	0	0	0	13756	159	6	3	1240	3	RTN4RL1	17	1841027	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	55	1841027	79354183	3618	80783											
SMG6	23293	broad.mit.edu	37	chr17	2076067	2076067	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgaggtcatcatccgggTccttgtacagtggcacctca	7	10	13	11	1	3	1	3	1	0	0	5	1	5	1	3	4	1	2	3	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:2076067T>C	uc002fub.1	-	13	3297	c.3242A>G	c.(3241-3243)GAC>GGC	p.D1081G	SMG6_uc010vqv.1_Missense_Mutation_p.D173G	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	1081					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						ATCATCCGGGTCCTTGTACAG	0.537													16	71					0	0	1	0	0		C	2076067	C	C	2076067	3	2	151	1	0	0	0	0	1	0	0	0	14822	1667	58	3	1045	3	SMG6	17	2076067	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	235040	2076067	79119143	3619	80784											
KIAA0664	23277	broad.mit.edu	37	chr17	2604947	2604947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcaggggacacagtggcCgctcccggctccctggcagg	5	5	16	15	2	0	0	0	0	0	0	2	1	2	1	3	6	1	5	3	6	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:2604947C>T	uc002fuy.1	-	5	676	c.590G>A	c.(589-591)CGG>CAG	p.R197Q	KIAA0664_uc002fux.1_Missense_Mutation_p.R129Q	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	197							binding			breast(2)	2						ACACAGTGGCCGCTCCCGGCT	0.667													3	7					0	0	1	0	0		T	2604947	T	T	2604947	3	4	151	1	0	0	0	0	1	0	0	0	8205	652	23	1	3427	1	KIAA0664	17	2604947	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	528880	2604947	78590263	3620	80785											
OR1D2	4991	broad.mit.edu	37	chr17	2996177	2996177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagcacatttcccaccacCgtgaccaggtacatggacag	12	7	9	13	1	0	2	0	2	0	0	1	3	1	3	4	2	2	2	4	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:2996177C>T	uc010vrb.1	-	1	114	c.114G>A	c.(112-114)ACG>ACA	p.T38T		NM_002548	NP_002539	P34982	OR1D2_HUMAN	olfactory receptor, family 1, subfamily D,	38	Helical; Name=1; (Potential).				cellular component movement|chemotaxis|protein import into nucleus, translocation|sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						TTCCCACCACCGTGACCAGGT	0.552													42	176					0	0	1	0	0		T	2996177	T	T	2996177	2	4	151	1	0	0	0	0	0	0	0	1	10972	639	23	1		1	OR1D2	17	2996177	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	391230	2996177	78199033	3621	80786											
OR1A2	26189	broad.mit.edu	37	chr17	3101155	3101155	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaggcagacagctataccTtggctgcaatggcatacgat	12	8	10	11	1	0	1	0	0	0	1	0	2	0	1	2	3	4	5	2	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:3101155T>C	uc002fvd.1	+	1	343	c.343T>C	c.(343-345)TTG>CTG	p.L115L		NM_012352	NP_036484	Q9Y585	OR1A2_HUMAN	olfactory receptor, family 1, subfamily A,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CAGCTATACCTTGGCTGCAAT	0.502													31	127					0	0	1	0	0		C	3101155	C	C	3101155	2	2	151	1	0	0	0	0	0	0	0	1	10969	1606	56	3		3	OR1A2	17	3101155	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	104978	3101155	78094055	3622	80787											
OR1E1	8387	broad.mit.edu	37	chr17	3301298	3301298	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagacagagcatggggctcAtgatggcggtgtagtgcagg	9	7	18	7	2	1	3	1	1	0	2	1	4	1	3	0	5	2	4	0	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:3301298A>G	uc002fvj.1	-	1	407	c.407T>C	c.(406-408)ATG>ACG	p.M136T		NM_003553	NP_003544	P30953	OR1E1_HUMAN	olfactory receptor, family 1, subfamily E,	136	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CATGGGGCTCATGATGGCGGT	0.552													12	44					0	0	1	0	0		G	3301298	G	G	3301298	3	3	151	1	0	0	0	0	1	0	0	0	10973	217	8	3	541	3	OR1E1	17	3301298	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	200143	3301298	77893912	3623	80788											
TRPV3	162514	broad.mit.edu	37	chr17	3424299	3424299	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagcaaaaacacgatatatAcaaacaagaacttcagaaca	23	5	4	9	1	1	2	1	0	0	2	1	3	1	2	0	0	6	1	0	0	10	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:3424299A>G	uc002fvt.1	-	14	2100	c.1778T>C	c.(1777-1779)GTA>GCA	p.V593A	TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Missense_Mutation_p.V577A|TRPV3_uc010vri.1_Missense_Mutation_p.V548A|TRPV3_uc010vrj.1_Missense_Mutation_p.V577A|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Missense_Mutation_p.V577A|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Missense_Mutation_p.V593A|TRPV3_uc002fvu.2_Missense_Mutation_p.V593A|TRPV3_uc010vrn.1_3'UTR	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	593	Helical; (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	CACGATATATACAAACAAGAA	0.328													25	99					0	0	1	0	0		G	3424299	G	G	3424299	3	3	151	1	0	0	0	0	1	0	0	0	16623	391	14	3	614	3	TRPV3	17	3424299	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	123001	3424299	77770911	3624	80789											
ATP2A3	489	broad.mit.edu	37	chr17	3839611	3839611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccactgatgagggcttctCgggggctccggggcagcttc	5	8	16	12	2	1	2	0	2	1	0	4	2	2	2	2	5	2	4	2	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:3839611C>T	uc002fxb.1	-	16	2625	c.2474G>A	c.(2473-2475)CGA>CAA	p.R825Q	ATP2A3_uc002fwx.1_Missense_Mutation_p.R825Q|ATP2A3_uc002fwy.1_Missense_Mutation_p.R825Q|ATP2A3_uc002fwz.1_Missense_Mutation_p.R825Q|ATP2A3_uc002fxa.1_Missense_Mutation_p.R825Q|ATP2A3_uc002fxc.1_Missense_Mutation_p.R825Q|ATP2A3_uc002fxd.1_Missense_Mutation_p.R825Q	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	825	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		GAGGGCTTCTCGGGGGCTCCG	0.617													16	61					0	0	1	0	0		T	3839611	T	T	3839611	3	4	151	1	0	0	0	0	1	0	0	0	1139	884	31	1	760	1	ATP2A3	17	3839611	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	415312	3839611	77355599	3625	80790											
ATP2A3	489	broad.mit.edu	37	chr17	3850769	3850769	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccagggtctccacggaCggcaggcttcgcacgatggc	7	5	14	15	4	1	0	0	0	1	0	3	2	1	1	2	5	1	3	2	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:3850769C>T	uc002fxb.1	-	8	1162	c.1011G>A	c.(1009-1011)CCG>CCA	p.P337P	ATP2A3_uc002fwx.1_Silent_p.P337P|ATP2A3_uc002fwy.1_Silent_p.P337P|ATP2A3_uc002fwz.1_Silent_p.P337P|ATP2A3_uc002fxa.1_Silent_p.P337P|ATP2A3_uc002fxc.1_Silent_p.P337P|ATP2A3_uc002fxd.1_Silent_p.P337P	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	337	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		TCTCCACGGACGGCAGGCTTC	0.662													24	60					0	0	1	0	0		T	3850769	T	T	3850769	2	4	151	1	0	0	0	0	0	0	0	1	1139	523	19	1		1	ATP2A3	17	3850769	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	11158	3850769	77344441	3626	80791											
ANKFY1	51479	broad.mit.edu	37	chr17	4111302	4111302	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatggctttatgtagcgggtActctgtcttggatttgatca	7	16	12	6	1	3	1	1	1	2	0	3	3	3	2	0	3	2	3	0	3	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:4111302A>G	uc002fxq.1	-	6	696	c.658T>C	c.(658-660)TAC>CAC	p.Y220H	ANKFY1_uc002fxn.2_Missense_Mutation_p.Y262H|ANKFY1_uc002fxo.2_Missense_Mutation_p.Y220H|ANKFY1_uc002fxp.2_Missense_Mutation_p.Y220H|ANKFY1_uc010ckp.2_Missense_Mutation_p.Y161H|ANKFY1_uc002fxr.2_Missense_Mutation_p.Y220H	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	220	ANK 1.					endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						TGTAGCGGGTACTCTGTCTTG	0.438													44	174					0	0	1	0	0		G	4111302	G	G	4111302	3	3	151	1	0	0	0	0	1	0	0	0	626	391	14	3	3026	3	ANKFY1	17	4111302	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	260533	4111302	77083908	3627	80792											
GGT6	124975	broad.mit.edu	37	chr17	4462881	4462881	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgatgatggcaccgtggtgGtatacgccagggccgtggga	7	8	17	9	3	0	2	0	2	0	0	0	3	0	3	3	5	1	2	3	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:4462881G>C	uc002fyd.3	-	2	375	c.315C>G	c.(313-315)TAC>TAG	p.Y105*	GGT6_uc010vsb.1_5'UTR|GGT6_uc002fyc.3_Nonsense_Mutation_p.Y105*|GGT6_uc010vsc.1_Nonsense_Mutation_p.Y105*	NM_001122890	NP_001116362	Q6P531	GGT6_HUMAN	gamma-glutamyltransferase 6 isoform a	105	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			skin(1)	1						CACCGTGGTGGTATACGCCAG	0.682													8	22					0	0	1	0	0		C	4462881	C	C	4462881	4	2	151	1	0	0	0	0	0	1	0	0	6378	1256	44	5	1178	5	GGT6	17	4462881	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	351579	4462881	76732329	3628	80793											
TM4SF5	9032	broad.mit.edu	37	chr17	4685894	4685894	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccgaaatggacccagatgcTtaatgaacggcgagtggggc	11	7	14	9	3	0	2	0	1	0	1	1	5	1	3	2	4	2	1	2	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:4685894T>G	uc002fyw.1	+	3	386	c.355T>G	c.(355-357)TTA>GTA	p.L119V		NM_003963	NP_003954	O14894	T4S5_HUMAN	transmembrane 4 superfamily member 5	119	Extracellular (Potential).					integral to plasma membrane				ovary(1)	1						ACCCAGATGCTTAATGAACGG	0.597													14	71					0	0	1	0	0		G	4685894	G	G	4685894	3	3	151	1	0	0	0	0	1	0	0	0	15996	1606	56	5	365	5	TM4SF5	17	4685894	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	223013	4685894	76509316	3629	80794											
MINK1	50488	broad.mit.edu	37	chr17	4796762	4796762	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaagagcggactctggacGaggcccctcggcctcccaag	9	5	13	14	3	1	2	0	1	1	1	3	5	2	4	4	4	1	0	4	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:4796762G>A	uc010vsl.1	+	21	2630	c.2434G>A	c.(2434-2436)GAG>AAG	p.E812K	MINK1_uc010vsk.1_Missense_Mutation_p.E783K|MINK1_uc010vsm.1_Missense_Mutation_p.E792K|MINK1_uc010vsn.1_Missense_Mutation_p.E775K|MINK1_uc010vso.1_Missense_Mutation_p.E720K|MINK1_uc010vsp.1_Missense_Mutation_p.E273K	NM_153827	NP_722549	Q8N4C8	MINK1_HUMAN	misshapen-like kinase 1 isoform 3	812					JNK cascade	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)|skin(1)	6						GACTCTGGACGAGGCCCCTCG	0.642													15	77					0	0	1	0	0		A	4796762	A	A	4796762	3	1	151	1	0	0	0	0	1	0	0	0	9605	1059	37	1	2283	1	MINK1	17	4796762	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	110868	4796762	76398448	3630	80795											
KIF1C	10749	broad.mit.edu	37	chr17	4905794	4905794	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctactgtgagcgggtacgAgacctcttgaaccccaagag	11	8	11	11	2	2	4	0	2	2	2	2	5	2	4	3	1	4	1	3	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:4905794A>C	uc002gan.1	+	7	791	c.465A>C	c.(463-465)CGA>CGC	p.R155R		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	155	Kinesin-motor.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						AGCGGGTACGAGACCTCTTGA	0.522													69	282					0	0	1	0	0		C	4905794	C	C	4905794	2	2	151	1	0	0	0	0	0	0	0	1	8301	291	11	5		5	KIF1C	17	4905794	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	109032	4905794	76289416	3631	80796											
KIF1C	10749	broad.mit.edu	37	chr17	4927012	4927012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggctctgggggccggggcGgggggctgcgcaggccccca	3	3	22	13	3	1	0	0	0	1	0	1	0	1	0	3	9	1	3	3	9	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:4927012G>A	uc002gan.1	+	23	3204	c.2878G>A	c.(2878-2880)GGG>AGG	p.G960R		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	960				SGGRGGGL -> LWGPGRGV (in Ref. 1; AAC52117).	microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						GGGCCGGGGCGGGGGGCTGCG	0.692													5	11					0	0	1	0	0		A	4927012	A	A	4927012	3	1	151	1	0	0	0	0	1	0	0	0	8301	1116	39	1	2960	1	KIF1C	17	4927012	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	21218	4927012	76268198	3632	80797											
KIF1C	10749	broad.mit.edu	37	chr17	4927266	4927266	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccgatcccggggagcgggTtctgcacagcctgaacccca	7	5	14	15	3	1	1	0	1	1	0	2	3	2	2	5	4	4	2	5	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:4927266T>C	uc002gan.1	+	23	3458	c.3132T>C	c.(3130-3132)GGT>GGC	p.G1044G		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	1044	Pro-rich.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						GGGGAGCGGGTTCTGCACAGC	0.697													10	37					0	0	1	0	0		C	4927266	C	C	4927266	2	2	151	1	0	0	0	0	0	0	0	1	8301	1712	60	3		3	KIF1C	17	4927266	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	254	4927266	76267944	3633	80798											
USP6	9098	broad.mit.edu	37	chr17	5058884	5058884	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcccacctcaggaagctagTattcatgcccaggatcggtg	9	9	10	13	1	2	0	2	0	0	0	4	2	3	2	3	3	2	2	3	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:5058884T>C	uc002gau.1	+	31	5041	c.2811T>C	c.(2809-2811)AGT>AGC	p.S937S	USP6_uc002gav.1_Silent_p.S937S|USP6_uc010ckz.1_Silent_p.S620S	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	937					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						AGGAAGCTAGTATTCATGCCC	0.438			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								4	137					0	0	1	0	0		C	5058884	C	C	5058884	2	2	151	1	0	0	0	0	0	0	0	1	17112	1635	57	3		3	USP6	17	5058884	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	131618	5058884	76136326	3634	80799											
C17orf87	388325	broad.mit.edu	37	chr17	5114221	5114221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttaccagtgagtatgtagCgggcggctgacttggggctt	7	12	15	7	2	0	2	0	2	0	0	0	2	0	2	1	4	2	4	1	4	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:5114221C>T	uc002gbh.2	-	5	346	c.313G>A	c.(313-315)GCT>ACT	p.A105T	uc002gbf.1_Intron|uc002gbg.1_Intron|C17orf87_uc010clb.1_Missense_Mutation_p.A98T	NM_207103	NP_996986	Q6UWF3	CQ087_HUMAN	hypothetical protein LOC388325	105						integral to membrane				ovary(1)	1						GAGTATGTAGCGGGCGGCTGA	0.428													24	104					0	0	1	0	0		T	5114221	T	T	5114221	3	4	151	1	0	0	0	0	1	0	0	0	1892	768	27	1	128	1	C17orf87	17	5114221	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	55337	5114221	76080989	3635	80800											
RABEP1	9135	broad.mit.edu	37	chr17	5253788	5253788	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgacaacaacacaaccagtTaaaacatacgtggcagaagg	18	4	9	10	2	0	1	0	0	0	1	0	2	0	1	1	2	5	2	1	2	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:5253788T>C	uc002gbm.3	+	7	1051	c.827T>C	c.(826-828)TTA>TCA	p.L276S	RABEP1_uc010clc.1_Missense_Mutation_p.L269S|RABEP1_uc010cld.1_Missense_Mutation_p.L233S|RABEP1_uc010vsw.1_Missense_Mutation_p.L233S|RABEP1_uc002gbl.3_Missense_Mutation_p.L276S	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	276	Potential.				apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						CACAACCAGTTAAAACATACG	0.438													15	51					0	0	1	0	0		C	5253788	C	C	5253788	3	2	151	1	0	0	0	0	1	0	0	0	12986	1764	61	3	853	3	RABEP1	17	5253788	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	139567	5253788	75941422	3636	80801											
RABEP1	9135	broad.mit.edu	37	chr17	5264841	5264841	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggaaagagcaatcaaggcGatgacaccagaacaagaaga	20	2	11	8	1	1	5	1	1	0	4	1	7	1	6	1	2	2	1	1	2	6	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:5264841G>A	uc002gbm.3	+	9	1658	c.1434G>A	c.(1432-1434)GCG>GCA	p.A478A	RABEP1_uc010clc.1_Silent_p.A471A|RABEP1_uc010cld.1_Silent_p.A435A|RABEP1_uc010vsw.1_Silent_p.A435A|RABEP1_uc002gbl.3_Silent_p.A478A|NUP88_uc002gbn.2_RNA	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	478					apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						CAATCAAGGCGATGACACCAG	0.488													24	87					0	0	1	0	0		A	5264841	A	A	5264841	2	1	151	1	0	0	0	0	0	0	0	1	12986	1045	37	1		1	RABEP1	17	5264841	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	11053	5264841	75930369	3637	80802											
KIAA0753	9851	broad.mit.edu	37	chr17	6498335	6498335	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcgaggatcagcatatgcGattttattatatctttgacg	11	15	9	6	3	2	1	1	1	1	0	3	4	2	2	0	1	2	1	0	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:6498335G>A	uc002gde.3	-	16	2756	c.2397C>T	c.(2395-2397)ATC>ATT	p.I799I	KIAA0753_uc010vtd.1_Silent_p.I255I|KIAA0753_uc010clo.2_Silent_p.I500I|KIAA0753_uc010vte.1_Silent_p.I500I	NM_014804	NP_055619	Q2KHM9	K0753_HUMAN	hypothetical protein LOC9851	799						centrosome					0				COAD - Colon adenocarcinoma(228;0.157)		CAGCATATGCGATTTTATTAT	0.254													40	122					0	0	1	0	0		A	6498335	A	A	6498335	2	1	151	1	0	0	0	0	0	0	0	1	8207	1048	37	1		1	KIAA0753	17	6498335	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1233494	6498335	74696875	3638	80803											
SLC13A5	284111	broad.mit.edu	37	chr17	6606404	6606404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccttacacaacctcttccGctcttggtcttcctgctgcc	4	13	7	17	1	3	0	0	0	3	0	5	0	5	0	5	2	4	2	5	2	2	4	rs142320179		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:6606404G>A	uc002gdj.2	-	5	689	c.601C>T	c.(601-603)CGG>TGG	p.R201W	SLC13A5_uc010vtf.1_Missense_Mutation_p.R201W|SLC13A5_uc010clq.2_Missense_Mutation_p.R158W|SLC13A5_uc002gdk.2_Missense_Mutation_p.R184W|SLC13A5_uc002gdl.1_Missense_Mutation_p.R183W	NM_177550	NP_808218	Q86YT5	S13A5_HUMAN	solute carrier family 13, member 5 isoform a	201						integral to membrane	citrate transmembrane transporter activity				0						AACCTCTTCCGCTCTTGGTCT	0.632													28	85					0	0	1	0	0		A	6606404	A	A	6606404	3	1	151	1	0	0	0	0	1	0	0	0	14420	1086	38	1	1137	1	SLC13A5	17	6606404	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	108069	6606404	74588806	3639	80804											
XAF1	54739	broad.mit.edu	37	chr17	6661451	6661451	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttcaccctccatgaggctTactgcctgcggttcctggtc	5	12	9	15	1	1	1	1	1	0	0	4	1	3	1	4	3	3	2	4	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:6661451T>C	uc002gdn.2	+	2	318	c.76T>C	c.(76-78)TAC>CAC	p.Y26H	XAF1_uc010clr.1_Missense_Mutation_p.Y26H|XAF1_uc002gdm.1_5'UTR|XAF1_uc002gdo.2_Missense_Mutation_p.Y26H|XAF1_uc002gdp.2_Silent_p.L3L|XAF1_uc002gdq.2_5'UTR|XAF1_uc002gdr.2_Silent_p.L3L	NM_017523	NP_059993	Q6GPH4	XAF1_HUMAN	XIAP associated factor 1 isoform 1	26	TRAF-type.				apoptosis|type I interferon-mediated signaling pathway	mitochondrion|nucleus	zinc ion binding				0						CCATGAGGCTTACTGCCTGCG	0.493													29	150					0	0	1	0	0		C	6661451	C	C	6661451	3	2	151	1	0	0	0	0	1	0	0	0	17445	1754	61	3	82	3	XAF1	17	6661451	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	55047	6661451	74533759	3640	80805											
DLG4	1742	broad.mit.edu	37	chr17	7096856	7096856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagaagatcatcgttggCgcggtccttggtgggcccaa	8	8	16	9	3	1	2	1	0	0	2	3	4	2	3	2	5	0	1	2	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7096856C>T	uc002get.3	-	18	2969	c.1768G>A	c.(1768-1770)GCC>ACC	p.A590T	DLG4_uc010vtm.1_RNA|DLG4_uc010vtn.1_Missense_Mutation_p.A487T|DLG4_uc010cly.2_Missense_Mutation_p.A544T|DLG4_uc010vto.1_Missense_Mutation_p.A587T	NM_001365	NP_001356	P78352	DLG4_HUMAN	post-synaptic density protein 95 isoform 1	547	Guanylate kinase-like.				axon guidance|learning|protein complex assembly|protein localization to synapse|signal transduction|synaptic transmission	cell junction|cortical cytoskeleton|endocytic vesicle membrane|neuron spine|postsynaptic density|postsynaptic membrane|synaptosome	protein binding|protein C-terminus binding			ovary(1)|breast(1)	2						TCATCGTTGGCGCGGTCCTTG	0.612													8	31					0	0	1	0	0		T	7096856	T	T	7096856	3	4	151	1	0	0	0	0	1	0	0	0	4563	768	27	1	555	1	DLG4	17	7096856	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	435405	7096856	74098354	3641	80806											
EIF5A	1984	broad.mit.edu	37	chr17	7214949	7214949	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgttgcaatcaaggccaTggcaaaataactggctccca	13	8	9	11	0	1	0	1	0	0	0	2	0	2	0	2	3	3	5	2	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7214949T>C	uc010vtv.1	+	5	692	c.455T>C	c.(454-456)ATG>ACG	p.M152T	EIF5A_uc002gfr.2_Missense_Mutation_p.M182T|EIF5A_uc002gft.2_Missense_Mutation_p.M152T|EIF5A_uc002gfu.2_Missense_Mutation_p.M152T	NM_001970	NP_001961	P63241	IF5A1_HUMAN	eukaryotic translation initiation factor 5A	152					induction of apoptosis|mRNA export from nucleus|peptidyl-lysine modification to hypusine|positive regulation of cell proliferation|positive regulation of translational elongation|positive regulation of translational termination|post-translational protein modification|protein export from nucleus|translational frameshifting|transmembrane transport	annulate lamellae|cytosol|endoplasmic reticulum membrane|nuclear pore	protein N-terminus binding|ribosome binding|translation elongation factor activity|U6 snRNA binding				0						ATCAAGGCCATGGCAAAATAA	0.498													22	81					0	0	1	0	0		C	7214949	C	C	7214949	3	2	151	1	0	0	0	0	1	0	0	0	5049	1464	51	3	563	3	EIF5A	17	7214949	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	118093	7214949	73980261	3642	80807											
TMEM95	339168	broad.mit.edu	37	chr17	7259720	7259720	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccctgcaggaagtcaggAtctttgggaagccaagattc	10	10	12	9	0	2	1	1	0	1	1	4	4	3	4	2	3	2	2	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7259720A>G	uc002ggh.1	+	6	446	c.419A>G	c.(418-420)GAT>GGT	p.D140G	TMEM95_uc002ggf.1_Missense_Mutation_p.D148G|TMEM95_uc002ggg.1_Silent_p.G137G	NM_198154	NP_937797	Q3KNT9	TMM95_HUMAN	transmembrane protein 95	140	Extracellular (Potential).					integral to membrane					0		Prostate(122;0.173)				GGAAGTCAGGATCTTTGGGAA	0.567											OREG0024137	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	54	209					0	0	1	0	0		G	7259720	G	G	7259720	3	3	151	1	0	0	0	0	1	0	0	0	16248	333	12	3	465	3	TMEM95	17	7259720	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	44771	7259720	73935490	3643	80808											
PLSCR3	57048	broad.mit.edu	37	chr17	7296194	7296194	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcgatcggcatcctggatGgagaacttggggaggaaggg	9	7	19	6	2	0	1	0	0	0	1	2	6	1	4	1	8	1	1	1	8	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7296194G>A	uc002ggm.1	-	6	794	c.585C>T	c.(583-585)TCC>TCT	p.S195S	PLSCR3_uc002ggl.2_Silent_p.S171S|PLSCR3_uc002ggq.1_Silent_p.S26S|PLSCR3_uc002ggn.1_Silent_p.S195S|PLSCR3_uc002ggo.1_Silent_p.S195S|PLSCR3_uc002ggp.1_Silent_p.S26S|PLSCR3_uc002ggr.1_Silent_p.S195S|PLSCR3_uc010cmg.1_Silent_p.S195S	NM_020360	NP_065093	Q9NRY6	PLS3_HUMAN	phospholipid scramblase 3	195	Cytoplasmic (By similarity).				phospholipid scrambling	integral to membrane|plasma membrane	calcium ion binding|calcium-dependent protein binding|phospholipid scramblase activity|SH3 domain binding				0		Prostate(122;0.173)				CATCCTGGATGGAGAACTTGG	0.587													53	272					0	0	1	0	0		A	7296194	A	A	7296194	2	1	151	1	0	0	0	0	0	0	0	1	12130	1335	47	4		4	PLSCR3	17	7296194	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	36474	7296194	73899016	3644	80809											
POLR2A	5430	broad.mit.edu	37	chr17	7406583	7406583	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggatcgggaggtgctcaGggtcatcttcccaactggag	8	8	16	9	1	3	0	2	0	1	0	5	4	4	4	1	6	2	1	1	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7406583G>T	uc002ghf.3	+	17	3134	c.2900G>T	c.(2899-2901)AGG>ATG	p.R967M		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	967					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				GAGGTGCTCAGGGTCATCTTC	0.602													17	88					6.08587e-21	6.35739e-21	1	1	0		T	7406583	T	T	7406583	3	4	151	1	0	0	0	0	1	0	0	0	12233	1000	35	5	2966	5	POLR2A	17	7406583	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	110389	7406583	73788627	3645	80810											
POLR2A	5430	broad.mit.edu	37	chr17	7417203	7417203	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcacccacctctcccaagTactcgcctaccagtcccacc	9	8	3	21	1	2	0	1	0	1	0	5	0	3	0	7	0	2	1	7	0	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7417203T>C	uc002ghf.3	+	29	5854	c.5620T>C	c.(5620-5622)TAC>CAC	p.Y1874H		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1874	41.|52 X 7 AA approximate tandem repeats of Y-[ST]-P-[STQ]-[ST]-P-[SRTEVKGN].				mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				CTCTCCCAAGTACTCGCCTAC	0.308													14	74					0	0	1	0	0		C	7417203	C	C	7417203	3	2	151	1	0	0	0	0	1	0	0	0	12233	1638	57	3	5734	3	POLR2A	17	7417203	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10620	7417203	73778007	3646	80811											
TP53	7157	broad.mit.edu	37	chr17	7577121	7577121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaggacaggcacaaacacGcacctcaaagctgttccgtc	12	5	8	16	2	1	0	1	0	0	0	3	1	2	1	3	2	2	4	3	2	2	1	rs121913343		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7577121G>A	uc002gim.2	-	8	1011	c.817C>T	c.(817-819)CGT>TGT	p.R273C	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141C|TP53_uc010cng.1_Missense_Mutation_p.R141C|TP53_uc002gii.1_Missense_Mutation_p.R141C|TP53_uc010cnh.1_Missense_Mutation_p.R273C|TP53_uc010cni.1_Missense_Mutation_p.R273C|TP53_uc002gij.2_Missense_Mutation_p.R273C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(467)|p.R273C(396)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.F270fs*72(1)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCACAAACACGCACCTCAAAG	0.542	R273C(SH10TC_STOMACH)|R273C(SUDHL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(8MGBA_CENTRAL_NERVOUS_SYSTEM)|R273C(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273C(BL70_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(SW1710_URINARY_TRACT)|R273C(RH30_SOFT_TISSUE)|R273C(PANC0213_PANCREAS)|R273C(SJRH30_SOFT_TISSUE)|R273C(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(RDES_BONE)|R273C(TT2609C02_THYROID)|R273C(MFE319_ENDOMETRIUM)|R273C(RPMI8402_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(EFO27_OVARY)|R273C(NCIH1048_LUNG)|R273C(KARPAS299_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			10	36					0	0	1	0	0		A	7577121	A	A	7577121	3	1	151	1	0	0	0	0	1	0	0	0	16407	1087	38	1	469	1	TP53	17	7577121	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	159918	7577121	73618089	3647	80812											
TP53	7157	broad.mit.edu	37	chr17	7578407	7578407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctcatggtgggggcagcGcctcacaacctccgtcatgt	6	8	13	14	3	3	0	3	0	0	0	4	0	4	0	3	3	2	2	3	3	1	0	rs138729528		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7578407G>A	uc002gim.2	-	5	717	c.523C>T	c.(523-525)CGC>TGC	p.R175C	TP53_uc002gig.1_Missense_Mutation_p.R175C|TP53_uc002gih.2_Missense_Mutation_p.R175C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R43C|TP53_uc010cng.1_Missense_Mutation_p.R43C|TP53_uc002gii.1_Missense_Mutation_p.R43C|TP53_uc010cnh.1_Missense_Mutation_p.R175C|TP53_uc010cni.1_Missense_Mutation_p.R175C|TP53_uc002gij.2_Missense_Mutation_p.R175C|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R82C|TP53_uc002gio.2_Missense_Mutation_p.R43C|TP53_uc010vug.1_Missense_Mutation_p.R136C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	175	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R175H(721)|p.R175L(19)|p.R175C(12)|p.R175G(11)|p.0?(7)|p.R175P(5)|p.R175S(5)|p.R175R(4)|p.R174fs*24(3)|p.R175_E180delRCPHHE(3)|p.R175fs*5(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V173fs*69(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R174_H178>S(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R175fs*6(1)|p.R42fs*24(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R175fs*72(1)|p.R174fs*70(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.S149fs*72(1)|p.R174_E180>K(1)|p.R174fs*3(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TGGGGGCAGCGCCTCACAACC	0.657		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			16	38					0	0	1	0	0		A	7578407	A	A	7578407	3	1	151	1	0	0	0	0	1	0	0	0	16407	1087	38	1	775	1	TP53	17	7578407	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1286	7578407	73616803	3648	80813											
TP53	7157	broad.mit.edu	37	chr17	7578419	7578419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggggcagcgcctcacaacctCcgtcatgtgctgtgactgct	6	9	12	14	2	2	1	2	1	0	0	3	1	3	1	3	2	4	3	3	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7578419C>T	uc002gim.2	-	5	705	c.511G>A	c.(511-513)GAG>AAG	p.E171K	TP53_uc002gig.1_Missense_Mutation_p.E171K|TP53_uc002gih.2_Missense_Mutation_p.E171K|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.E39K|TP53_uc010cng.1_Missense_Mutation_p.E39K|TP53_uc002gii.1_Missense_Mutation_p.E39K|TP53_uc010cnh.1_Missense_Mutation_p.E171K|TP53_uc010cni.1_Missense_Mutation_p.E171K|TP53_uc002gij.2_Missense_Mutation_p.E171K|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.E78K|TP53_uc002gio.2_Missense_Mutation_p.E39K|TP53_uc010vug.1_Missense_Mutation_p.E132K	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	171	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> G (in sporadic cancers; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).|E -> V (in sporadic cancers; somatic mutation).|E -> D (in sporadic cancers; somatic mutation).|E -> A (in a sporadic cancer; somatic mutation).|E -> Q (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.E171*(10)|p.E171K(8)|p.0?(7)|p.E171G(3)|p.E171Q(3)|p.E171fs*10(3)|p.E171fs*3(2)|p.E171V(2)|p.E171D(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.P151_V173del23(1)|p.E171fs*61(1)|p.E171fs*9(1)|p.T170fs*2(1)|p.E171fs*1(1)|p.T170fs*8(1)|p.E171_V172delEV(1)|p.H168fs*69(1)|p.T170_E171insXX(1)|p.E171_H179delEVVRRCPHH(1)|p.S149fs*72(1)|p.E171A(1)|p.H168fs*3(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CTCACAACCTCCGTCATGTGC	0.662		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			10	50					0	0	1	0	0		T	7578419	T	T	7578419	3	4	151	1	0	0	0	0	1	0	0	0	16407	864	30	4	787	4	TP53	17	7578419	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	12	7578419	73616791	3649	80814											
DNAH2	146754	broad.mit.edu	37	chr17	7636499	7636499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagtttgggacggtgcgggGcccctatatcccggccctgc	4	8	15	14	3	0	0	0	0	0	0	1	1	1	1	4	5	2	2	4	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7636499G>A	uc002giu.1	+	4	508	c.494G>A	c.(493-495)GGC>GAC	p.G165D	DNAH2_uc002git.2_Missense_Mutation_p.G165D|DNAH2_uc010vuk.1_Missense_Mutation_p.G165D	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	165	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				ACGGTGCGGGGCCCCTATATC	0.552													34	112					0	0	1	0	0		A	7636499	A	A	7636499	3	1	151	1	0	0	0	0	1	0	0	0	4608	1203	42	2	508	2	DNAH2	17	7636499	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	58080	7636499	73558711	3650	80815											
DNAH2	146754	broad.mit.edu	37	chr17	7644171	7644171	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcggtggatctctacaTgctgttcaatagcgagctgg	9	10	14	8	2	2	0	1	0	1	0	3	3	2	1	0	4	4	3	0	4	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7644171T>C	uc002giu.1	+	10	1564	c.1550T>C	c.(1549-1551)ATG>ACG	p.M517T	DNAH2_uc002git.2_Missense_Mutation_p.M599T|DNAH2_uc010vuk.1_Missense_Mutation_p.M517T	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	517	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GATCTCTACATGCTGTTCAAT	0.592													34	122					0	0	1	0	0		C	7644171	C	C	7644171	3	2	151	1	0	0	0	0	1	0	0	0	4608	1464	51	3	1588	3	DNAH2	17	7644171	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	7672	7644171	73551039	3651	80816											
DNAH2	146754	broad.mit.edu	37	chr17	7646246	7646246	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttcttcttcccctcagTgccttgctggtgctcatttc	2	17	7	15	0	4	0	2	0	2	0	6	0	5	0	4	1	3	3	4	1	0	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7646246T>C	uc002giu.1	+	11	1704	c.1690T>C	c.(1690-1692)TGC>CGC	p.C564R	DNAH2_uc002git.2_Missense_Mutation_p.C646R|DNAH2_uc010vuk.1_Missense_Mutation_p.C564R	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	564	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TTCCCCTCAGTGCCTTGCTGG	0.582													6	35					0	0	1	0	0		C	7646246	C	C	7646246	3	2	151	1	0	0	0	0	1	0	0	0	4608	1710	59	3	1732	3	DNAH2	17	7646246	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2075	7646246	73548964	3652	80817											
DNAH2	146754	broad.mit.edu	37	chr17	7721664	7721664	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcgcattggcgataaggaGgtggaatataataccaattt	14	11	11	5	2	0	0	0	0	0	0	0	3	0	2	1	4	2	1	1	4	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7721664G>A	uc002giu.1	+	68	10436	c.10422G>A	c.(10420-10422)GAG>GAA	p.E3474E	DNAH2_uc010cnm.1_Silent_p.E412E	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3474	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GCGATAAGGAGGTGGAATATA	0.542													43	237					0	0	1	0	0		A	7721664	A	A	7721664	2	1	151	1	0	0	0	0	0	0	0	1	4608	991	35	4		4	DNAH2	17	7721664	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	75418	7721664	73473546	3653	80818											
KDM6B	23135	broad.mit.edu	37	chr17	7748989	7748989	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcatccccctcctcgtagCgcatggctgcctggaggcag	5	8	11	17	2	1	0	1	0	0	0	4	1	3	1	5	3	2	4	5	3	1	1			TCGA-CG-5721-0